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	G	C	tCw	wGa	tC	Ga	tC_mutation	tC_mutation_to_G	tC_mutation_to_T	APOBEC_mutation	APOBEC_mutation_to_G	APOBEC_mutation_to_T	[tCw_to_G+tCw_to_T]_per_mut	tCw_to_G+tCw_to_T	BH_Fisher_p-value_tCw	APOBEC_enrich	tCw_to_G_enrich	tCw_to_T_enrich	p-value_GvT_skew	BH_p-value_GvT_skew	APOBEC_MutLoad_MinEstimate	"CONTEXT(+/-20)"	g_counts	c_counts	tcw_counts	wga_counts	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	newbase	end	tum_allele1	tum_allele2	start	effect_idx	newbase_idx	pat_idx	is_coding	is_flank	is_indel	is_ins	is_del	is_missense	is_nonsense	is_splice	is_silent	gene_idx	context_and_effect	context65	categ_idx	trackpos	categ	gene	chr	pos	type	classification	ref_allele	patient	DistBetween_Mutations	Distance_to_LT_end	Distance_to_RT_end	Strain_Mutation_ID	Dataset_Mutation_ID	Complex_ID	Complex_Size	StrainCluster_ID	Dataset_Cluster_ID	Distance_Between_Clusters	Cluster_Size_Mutations	Cluster_Size_Complexes	Cluster_Length	Cluster_Coordination	Content_of_non_coordinated_cluster	Cluster_Pvalue
AGRN	375790	broad.mit.edu	37	chr1	957793	957793	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctgatgctcaactccagcctCatgcggatcaccctgcggaa	9	15	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:957793C>T	uc001ack.1	+	2	464	c.414C>T	c.(412-414)CTC>CTT	p.L138L		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	138	NtA.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		ACTCCAGCCTCATGCGGATCA	0.632													6	66	---	---	---	---	PASS	T	957793	T	T	957793	2	4	1	1	0	0	0	0	0	0	0	1	397	813	29	2		2	AGRN	1	957793	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08		957793	248292828	1	1										
AGRN	375790	broad.mit.edu	37	chr1	981368	981368	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttctgcgcctgcgacctgtgCggagatgcgctgtgagttcg	15	11	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:981368C>T	uc001ack.1	+	16	2755	c.2705C>T	c.(2704-2706)GCG>GTG	p.A902V		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	902					axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		GCGACCTGTGCGGAGATGCGC	0.667													7	39	---	---	---	---	PASS	T	981368	T	T	981368	3	4	1	1	0	0	0	0	1	0	0	0	397	768	27	1	2767	1	AGRN	1	981368	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	23575	981368	248269253	2	2										
GLTPD1	80772	broad.mit.edu	37	chr1	1263143	1263143	+	Nonstop_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tccctgctggacctgccctaGgggcgggaagccagggccgc	16	15	0	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:1263143G>C	uc001aeo.2	+	3	1060	c.645G>C	c.(643-645)TAG>TAC	p.*215Y		NM_001029885	NP_001025056	Q5TA50	GLTD1_HUMAN	glycolipid transfer protein domain containing 1	215						cytoplasm	glycolipid binding|glycolipid transporter activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;4.95e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		ACCTGCCCTAGGGGCGGGAAG	0.682													4	26	---	---	---	---	PASS	C	1263143	C	C	1263143	4	2	1	1	0	0	0	0	0	0	0	0	6472	995	35	4	651	4	GLTPD1	1	1263143	Nonstop_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	281775	1263143	247987478	3	3										
ACTRT2	140625	broad.mit.edu	37	chr1	2939345	2939345	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gtcaccgccgcagacttcaaGgagtttgggacctccgtggt	13	12	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:2939345G>T	uc001ajz.2	+	1	1300	c.1095G>T	c.(1093-1095)AAG>AAT	p.K365N		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	365						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		CAGACTTCAAGGAGTTTGGGA	0.602													7	202	---	---	---	---	PASS	T	2939345	T	T	2939345	3	4	1	1	0	0	0	0	1	0	0	0	219	991	35	3	1097	3	ACTRT2	1	2939345	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	1676202	2939345	246311276	4	4										
CASP9	842	broad.mit.edu	37	chr1	15844888	15844888	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cgccgagatccagagcctgcCcgctgtttggaaagaaaggc	13	12	0	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:15844888C>A	uc001awn.2	-	2	230	c.135G>T	c.(133-135)CGG>CGT	p.R45R	CASP9_uc001awm.1_Silent_p.R45R|CASP9_uc001awo.2_Silent_p.R45R|CASP9_uc001awp.2_5'UTR|CASP9_uc009voi.2_5'UTR|CASP9_uc010obm.1_5'UTR|CASP9_uc001awq.2_5'UTR	NM_001229	NP_001220	P55211	CASP9_HUMAN	caspase 9 isoform alpha preproprotein	45	CARD.				activation of caspase activity by cytochrome c|induction of apoptosis by intracellular signals|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol	cysteine-type endopeptidase activity|enzyme activator activity|protein binding			central_nervous_system(1)|kidney(1)	2		Breast(348;0.000207)|all_lung(284;0.000211)|Colorectal(325;0.000259)|Lung NSC(340;0.000269)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;8.49e-07)|COAD - Colon adenocarcinoma(227;4.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00013)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00763)|READ - Rectum adenocarcinoma(331;0.0655)		CAGAGCCTGCCCGCTGTTTGG	0.498													17	41	---	---	---	---	PASS	A	15844888	A	A	15844888	2	1	1	1	0	0	0	0	0	0	0	1	2679	610	22	3		3	CASP9	1	15844888	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	12905543	15844888	233405733	5	5										
DCDC2B	149069	broad.mit.edu	37	chr1	32678369	32678369	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttgtaggcaacctccaggctCgaagtctaggccccacaggc	11	14	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:32678369C>A	uc001bun.2	+	6	689	c.689C>A	c.(688-690)TCG>TAG	p.S230*		NM_001099434	NP_001092904	A2VCK2	DCD2B_HUMAN	doublecortin domain containing 2B	230					intracellular signal transduction						0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				CCTCCAGGCTCGAAGTCTAGG	0.587													4	53	---	---	---	---	PASS	A	32678369	A	A	32678369	4	1	1	1	0	0	0	0	0	1	0	0	4286	893	31	2	711	2	DCDC2B	1	32678369	Nonsense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	16833481	32678369	216572252	6	6										
DLGAP3	58512	broad.mit.edu	37	chr1	35332751	35332751	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgtaggaggtcccagaaaccCgccaggtcctggaaggtggg	16	10	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:35332751C>T	uc001byc.2	-	9	2619	c.2619G>A	c.(2617-2619)GCG>GCA	p.A873A		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	873					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				CCCAGAAACCCGCCAGGTCCT	0.577											OREG0013353	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	59	---	---	---	---	PASS	T	35332751	T	T	35332751	2	4	1	1	0	0	0	0	0	0	0	1	4561	639	23	1		1	DLGAP3	1	35332751	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	2654382	35332751	213917870	7	7										
SMAP2	64744	broad.mit.edu	37	chr1	40874374	40874374	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aaaccgactttatgaagcctAtcttcctgagacctttcggc	7	12	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:40874374A>G	uc001cfj.2	+	3	352	c.287A>G	c.(286-288)TAT>TGT	p.Y96C	SMAP2_uc010ojh.1_Missense_Mutation_p.Y96C|SMAP2_uc001cfk.2_Missense_Mutation_p.Y66C|SMAP2_uc010oji.1_Missense_Mutation_p.Y13C	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	96	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)			TATGAAGCCTATCTTCCTGAG	0.448													18	56	---	---	---	---	PASS	G	40874374	G	G	40874374	3	3	1	1	0	0	0	0	1	0	0	0	14767	449	16	5	297	5	SMAP2	1	40874374	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	5541623	40874374	208376247	8	8										
STIL	6491	broad.mit.edu	37	chr1	47765602	47765602	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tttataagtcccttgaacttGagaaatattcagattactgc	6	7	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:47765602G>A	uc001crc.1	-	6	831	c.676C>T	c.(676-678)CAA>TAA	p.Q226*	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Nonsense_Mutation_p.Q179*|STIL_uc010omo.1_Nonsense_Mutation_p.Q226*|STIL_uc001crd.1_Nonsense_Mutation_p.Q226*|STIL_uc001cre.1_Nonsense_Mutation_p.Q226*|STIL_uc001crg.1_Nonsense_Mutation_p.Q179*	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	226					cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				CCTTGAACTTGAGAAATATTC	0.333													7	37	---	---	---	---	PASS	A	47765602	A	A	47765602	4	1	1	1	0	0	0	0	0	1	0	0	15281	1299	45	2	3238	2	STIL	1	47765602	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	6891228	47765602	201485019	9	9										
DNTTIP2	30836	broad.mit.edu	37	chr1	94343061	94343061	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aatacctgaaacatgagattCtgcttcagacactatttctt	5	9	3	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:94343061C>G	uc001dqf.2	-	2	468	c.430G>C	c.(430-432)GAA>CAA	p.E144Q	DNTTIP2_uc010otm.1_RNA|DNTTIP2_uc009wdo.1_Intron	NM_014597	NP_055412	Q5QJE6	TDIF2_HUMAN	deoxynucleotidyltransferase, terminal,	144					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_lung(203;0.0111)|Lung NSC(277;0.0347)		all cancers(265;0.00679)|GBM - Glioblastoma multiforme(16;0.0278)|Epithelial(280;0.128)		ACATGAGATTCTGCTTCAGAC	0.413													16	26	---	---	---	---	PASS	G	94343061	G	G	94343061	3	3	1	1	0	0	0	0	1	0	0	0	4682	922	32	2	1864	2	DNTTIP2	1	94343061	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	46577459	94343061	154907560	10	10										
PHTF1	10745	broad.mit.edu	37	chr1	114242392	114242393	+	Frame_Shift_Ins	INS	-	T	T													0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gctgttctttcttatttggcINStttttttccatcttaagata							TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:114242392_114242393insT	uc009wgp.1	-	16	2527_2528	c.2075_2076insA	c.(2074-2076)AAGfs	p.K692fs	PHTF1_uc001edm.2_Frame_Shift_Ins_p.K449fs	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	692						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCTTATTTGGCTTTTTTTCCAT	0.282													4	2	---	---	---	---		T	114242393	T	T	114242392	7	5	1	1	0	1	1	0	0	0	0	0	11862	796	28	0	224	0	PHTF1	1	114242392	Frame_Shift_Ins	INS	-	TCGA-18-3406-01A-01D-0983-08	19899331	114242392	135008229	11	11										
HIPK1	204851	broad.mit.edu	37	chr1	114483925	114483925	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cacagccttgatgaagctcaAgagtcttggtctgatccacg	10	11	3	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:114483925A>T	uc001eem.2	+	2	1081	c.920A>T	c.(919-921)AAG>ATG	p.K307M	HIPK1_uc001eel.2_Missense_Mutation_p.K307M|HIPK1_uc001een.2_Missense_Mutation_p.K307M	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	307	Protein kinase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATGAAGCTCAAGAGTCTTGGT	0.458													15	29	---	---	---	---	PASS	T	114483925	T	T	114483925	3	4	1	1	0	0	0	0	1	0	0	0	7116	72	3	5	922	5	HIPK1	1	114483925	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	241533	114483925	134766696	12	12										
SEC22B	9554	broad.mit.edu	37	chr1	145103915	145103915	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgtcttctttcagtctggccGggaccttcaacagtatcaga	9	11	6	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:145103915G>A	uc001eml.1	+	2	223	c.83G>A	c.(82-84)CGG>CAG	p.R28Q	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron	NM_004892	NP_004883	O75396	SC22B_HUMAN	SEC22 vesicle trafficking protein homolog B	28	Longin.|Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|melanosome	protein binding				0						CAGTCTGGCCGGGACCTTCAA	0.418													6	26	---	---	---	---	PASS	A	145103915	A	A	145103915	3	1	1	1	0	0	0	0	1	0	0	0	13989	1116	39	1	89	1	SEC22B	1	145103915	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	30619990	145103915	104146706	13	13										
FLG2	388698	broad.mit.edu	37	chr1	152325832	152325832	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	catgatgatagtgggcatgtCtagtggtatctcctgtctgt	12	7	3	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:152325832C>T	uc001ezw.3	-	3	4503	c.4430G>A	c.(4429-4431)AGA>AAA	p.R1477K	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1477	Filaggrin 5.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTGGGCATGTCTAGTGGTATC	0.507													38	291	---	---	---	---	PASS	T	152325832	T	T	152325832	3	4	1	1	0	0	0	0	1	0	0	0	5923	913	32	2	2749	2	FLG2	1	152325832	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	7221917	152325832	96924789	14	14										
ASH1L	55870	broad.mit.edu	37	chr1	155319173	155319173	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	caaaagcttccactgtcttaTagtaaccagtgaggatctgc	8	10	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:155319173T>C	uc009wqq.2	-	19	7994	c.7514A>G	c.(7513-7515)TAT>TGT	p.Y2505C	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.Y2500C|MIR555_hsa-mir-555|MI0003561_5'Flank	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2505	Bromo.				cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			CACTGTCTTATAGTAACCAGT	0.408													19	35	---	---	---	---	PASS	C	155319173	C	C	155319173	3	2	1	1	0	0	0	0	1	0	0	0	1041	1406	49	5	1435	5	ASH1L	1	155319173	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	2993341	155319173	93931448	15	15										
ASH1L	55870	broad.mit.edu	37	chr1	155408137	155408137	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ccttttattattctcttgctCttcttcctctggtaatggct	5	11	4	0	rs142217207		TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:155408137C>T	uc009wqq.2	-	5	6289	c.5809G>A	c.(5809-5811)GAG>AAG	p.E1937K	ASH1L_uc001fkt.2_Missense_Mutation_p.E1937K	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1937					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TTCTCTTGCTCTTCTTCCTCT	0.343													22	97	---	---	---	---	PASS	T	155408137	T	T	155408137	3	4	1	1	0	0	0	0	1	0	0	0	1041	922	32	2	3181	2	ASH1L	1	155408137	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	88964	155408137	93842484	16	16										
FCRL5	83416	broad.mit.edu	37	chr1	157490979	157490979	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgaaaaaaccggtacaggatCaggggagagcctctcagggc	14	9	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:157490979C>T	uc001fqu.2	-	11	2501	c.2343G>A	c.(2341-2343)CTG>CTA	p.L781L	FCRL5_uc009wsm.2_Silent_p.L781L	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	781	Extracellular (Potential).|Ig-like C2-type 8.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				GGTACAGGATCAGGGGAGAGC	0.612													18	55	---	---	---	---	PASS	T	157490979	T	T	157490979	2	4	1	1	0	0	0	0	0	0	0	1	5798	813	29	2		2	FCRL5	1	157490979	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	2082842	157490979	91759642	17	17										
OR10X1	128367	broad.mit.edu	37	chr1	158549012	158549012	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gtcaggatgatgagcagaagGgtacccagcaaaccagacac	12	10	1	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:158549012G>T	uc010pin.1	-	1	678	c.678C>A	c.(676-678)ACC>ACA	p.T226T		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	226	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TGAGCAGAAGGGTACCCAGCA	0.473													5	73	---	---	---	---	PASS	T	158549012	T	T	158549012	2	4	1	1	0	0	0	0	0	0	0	1	10922	1219	43	3		3	OR10X1	1	158549012	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	1058033	158549012	90701609	18	18										
MAEL	84944	broad.mit.edu	37	chr1	166962035	166962035	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggctgtgttaagtattctctCcaagaaggtattatggcaga	11	6	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:166962035C>A	uc001gdy.1	+	4	509	c.438C>A	c.(436-438)CTC>CTA	p.L146L	MAEL_uc001gdz.1_Silent_p.L115L|MAEL_uc009wvf.1_RNA	NM_032858	NP_116247	Q96JY0	MAEL_HUMAN	maelstrom homolog	146					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|multicellular organismal development|piRNA metabolic process|spermatogenesis	piP-body	DNA binding			skin(1)	1						AGTATTCTCTCCAAGAAGGTA	0.363													14	47	---	---	---	---	PASS	A	166962035	A	A	166962035	2	1	1	1	0	0	0	0	0	0	0	1	9154	842	30	2		2	MAEL	1	166962035	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	8413023	166962035	82288586	19	19										
TDRD5	163589	broad.mit.edu	37	chr1	179609118	179609118	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cgagtccttgagaaacaggaAgttgaagtgttctacccaga	11	8	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:179609118A>T	uc001gnf.1	+	10	1915	c.1665A>T	c.(1663-1665)GAA>GAT	p.E555D	TDRD5_uc010pnp.1_Missense_Mutation_p.E555D|TDRD5_uc001gnh.1_Missense_Mutation_p.E110D	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	555	Tudor.				DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						AGAAACAGGAAGTTGAAGTGT	0.413													28	96	---	---	---	---	PASS	T	179609118	T	T	179609118	3	4	1	1	0	0	0	0	1	0	0	0	15730	69	3	5	1699	5	TDRD5	1	179609118	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	12647083	179609118	69641503	20	20										
RGL1	23179	broad.mit.edu	37	chr1	183885717	183885717	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aatccacaagcgctctgtctCggtgacgtccattacctcga	8	14	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:183885717C>T	uc001gqo.2	+	16	2043	c.1886C>T	c.(1885-1887)TCG>TTG	p.S629L	RGL1_uc001gqm.2_Missense_Mutation_p.S664L|RGL1_uc010pog.1_Missense_Mutation_p.S627L|RGL1_uc010poh.1_Missense_Mutation_p.S627L|RGL1_uc010poi.1_Missense_Mutation_p.S600L	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	629					cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						CGCTCTGTCTCGGTGACGTCC	0.507													48	100	---	---	---	---	PASS	T	183885717	T	T	183885717	3	4	1	1	0	0	0	0	1	0	0	0	13276	893	31	2	2053	2	RGL1	1	183885717	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	4276599	183885717	65364904	21	21										
HMCN1	83872	broad.mit.edu	37	chr1	185959424	185959424	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tagtaaggcccagagtgtttGgagatcaacgaggactgtcc	13	8	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:185959424G>T	uc001grq.1	+	22	3455	c.3226G>T	c.(3226-3228)GGA>TGA	p.G1076*	HMCN1_uc001grr.1_Nonsense_Mutation_p.G417*	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1076	Ig-like C2-type 8.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CAGAGTGTTTGGAGATCAACG	0.423													8	378	---	---	---	---	PASS	T	185959424	T	T	185959424	4	4	1	1	0	0	0	0	0	1	0	0	7220	1349	47	3	3312	3	HMCN1	1	185959424	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	2073707	185959424	63291197	22	22										
TATDN3	128387	broad.mit.edu	37	chr1	212965318	212965318	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	actgccacctctccgccccgGactttgaccgcgtatgtgag	10	16	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:212965318G>C	uc001hjo.2	+	1	149	c.55G>C	c.(55-57)GAC>CAC	p.D19H	NSL1_uc001hjm.2_5'Flank|NSL1_uc001hjn.2_5'Flank|NSL1_uc010pti.1_5'Flank|TATDN3_uc010ptj.1_Missense_Mutation_p.D19H|TATDN3_uc010ptk.1_Missense_Mutation_p.D19H|TATDN3_uc001hjp.2_Missense_Mutation_p.D19H|TATDN3_uc010ptl.1_Missense_Mutation_p.D19H	NM_001042552	NP_001036017	Q17R31	TATD3_HUMAN	TatD DNase domain containing 3 isoform 1	19						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00699)|all cancers(67;0.0118)|GBM - Glioblastoma multiforme(131;0.0801)|Epithelial(68;0.104)		CTCCGCCCCGGACTTTGACCG	0.662													3	15	---	---	---	---	PASS	C	212965318	C	C	212965318	3	2	1	1	0	0	0	0	1	0	0	0	15590	1174	41	2	57	2	TATDN3	1	212965318	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	27005894	212965318	36285303	23	23										
PTPN14	5784	broad.mit.edu	37	chr1	214551397	214551397	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	attcaatgctgccaacatcaGcggcctcttctgtgcctcca	7	15	4	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:214551397G>T	uc001hkk.1	-	14	2864	c.2593C>A	c.(2593-2595)CTG>ATG	p.L865M	PTPN14_uc010pty.1_Missense_Mutation_p.L766M	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	865					lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		GCCAACATCAGCGGCCTCTTC	0.522													13	41	---	---	---	---	PASS	T	214551397	T	T	214551397	3	4	1	1	0	0	0	0	1	0	0	0	12783	962	34	3	994	3	PTPN14	1	214551397	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	1586079	214551397	34699224	24	24										
USH2A	7399	broad.mit.edu	37	chr1	215963407	215963407	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tttctatcaattaccttcatCatcattccagttgaaatctt	2	10	6	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:215963407C>A	uc001hku.1	-	51	10563	c.10176G>T	c.(10174-10176)ATG>ATT	p.M3392I		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3392	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTACCTTCATCATCATTCCAG	0.333										HNSCC(13;0.011)			10	44	---	---	---	---	PASS	A	215963407	A	A	215963407	3	1	1	1	0	0	0	0	1	0	0	0	17033	826	29	2	5520	2	USH2A	1	215963407	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1412010	215963407	33287214	25	25										
USH2A	7399	broad.mit.edu	37	chr1	216062110	216062110	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gagaacagctctggacttggGatcccttccggtgcccctgg	13	13	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:216062110G>C	uc001hku.1	-	41	8268	c.7881C>G	c.(7879-7881)ATC>ATG	p.I2627M		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2627	Extracellular (Potential).|Fibronectin type-III 13.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTGGACTTGGGATCCCTTCCG	0.498										HNSCC(13;0.011)			12	32	---	---	---	---	PASS	C	216062110	C	C	216062110	3	2	1	1	0	0	0	0	1	0	0	0	17033	1164	41	2	7855	2	USH2A	1	216062110	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	98703	216062110	33188511	26	26										
RYR2	6262	broad.mit.edu	37	chr1	237837447	237837447	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgatacactgacagccaaagAgaaagccaaggatagagaaa	10	7	0	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:237837447A>G	uc001hyl.1	+	59	8762	c.8642A>G	c.(8641-8643)GAG>GGG	p.E2881G	RYR2_uc010pxz.1_5'Flank	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2881	Modulator (Potential).|Cytoplasmic (By similarity).|4 X approximate repeats.|Calmodulin-binding (Potential).|4.				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)			ACAGCCAAAGAGAAAGCCAAG	0.423													21	92	---	---	---	---	PASS	G	237837447	G	G	237837447	3	3	1	1	0	0	0	0	1	0	0	0	13769	304	11	5	8876	5	RYR2	1	237837447	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	21775337	237837447	11413174	27	27										
OR2W5	441932	broad.mit.edu	37	chr1	247655048	247655048	+	Missense_Mutation	SNP	C	A	A													0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tttgccctgggggtggctctCctcctggtgccgctctccct					rs141044958		TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:247655048C>A	uc001icz.1	+	1	619	c.619C>A	c.(619-621)CCT>ACT	p.P207T		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	207					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			GGGTGGCTCTCCTCCTGGTGC	0.567													23	85	---	---	---	---	PASS	A	247655048	A	A	247655048	3	1	1	1	0	0	0	0	1	0	0	0	11034	855	30	2	621	2	OR2W5	1	247655048	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	9817601	247655048	1595573	28	28	1	2								
OR2W5	441932	broad.mit.edu	37	chr1	247655049	247655049	+	Missense_Mutation	SNP	C	A	A													0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttgccctgggggtggctctcCtcctggtgccgctctccctc							TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr1:247655049C>A	uc001icz.1	+	1	620	c.620C>A	c.(619-621)CCT>CAT	p.P207H		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	207					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			GGTGGCTCTCCTCCTGGTGCC	0.567													25	83	---	---	---	---	PASS	A	247655049	A	A	247655049	3	1	1	1	0	0	0	0	1	0	0	0	11034	681	24	3	622	3	OR2W5	1	247655049	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1	247655049	1595572	29	29	1	2								
MATN3	4148	broad.mit.edu	37	chr2	20200307	20200307	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gtgctgacacccatgggtacCcaaagcacatttatcttgag	9	11	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:20200307C>A	uc002rdl.2	-	5	1126	c.1063G>T	c.(1063-1065)GGT>TGT	p.G355C	MATN3_uc010exu.1_Missense_Mutation_p.G313C	NM_002381	NP_002372	O15232	MATN3_HUMAN	matrilin 3 precursor	355	EGF-like 3.				skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCATGGGTACCCAAAGCACAT	0.393													4	24	---	---	---	---	PASS	A	20200307	A	A	20200307	3	1	1	1	0	0	0	0	1	0	0	0	9335	623	22	3	413	3	MATN3	2	20200307	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08		20200307	222999066	30	30										
TMEM214	54867	broad.mit.edu	37	chr2	27260448	27260448	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcctgcaggagcagctgtgtCagctctacccccgactgaaa	11	14	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:27260448C>G	uc002ria.3	+	9	1140	c.1030C>G	c.(1030-1032)CAG>GAG	p.Q344E	TMEM214_uc010yle.1_RNA|TMEM214_uc002rib.3_Missense_Mutation_p.Q299E	NM_017727	NP_060197	Q6NUQ4	TM214_HUMAN	transmembrane protein 214 isoform 1	344						integral to membrane	protein binding				0						GCAGCTGTGTCAGCTCTACCC	0.547													18	61	---	---	---	---	PASS	G	27260448	G	G	27260448	3	3	1	1	0	0	0	0	1	0	0	0	16134	827	29	2	1064	2	TMEM214	2	27260448	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	7060141	27260448	215938925	31	31										
BIRC6	57448	broad.mit.edu	37	chr2	32712731	32712731	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cagtatcacagtctcccactGgaacagatgattcacttcta	6	12	4	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:32712731G>T	uc010ezu.2	+	41	7965	c.7831G>T	c.(7831-7833)GGA>TGA	p.G2611*		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	2611					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)					GTCTCCCACTGGAACAGATGA	0.328													5	119	---	---	---	---	PASS	T	32712731	T	T	32712731	4	4	1	1	0	0	0	0	0	1	0	0	1438	1349	47	3	7993	3	BIRC6	2	32712731	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	5452283	32712731	210486642	32	32										
BIRC6	57448	broad.mit.edu	37	chr2	32832614	32832614	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	agaggcactcccagtggcacAcagagttctcgagaatatga	11	10	1	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:32832614A>T	uc010ezu.2	+	72	14297	c.14163A>T	c.(14161-14163)ACA>ACT	p.T4721T		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4721					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)					CCAGTGGCACACAGAGTTCTC	0.423													31	137	---	---	---	---	PASS	T	32832614	T	T	32832614	2	4	1	1	0	0	0	0	0	0	0	1	1438	146	6	5		5	BIRC6	2	32832614	Silent	SNP	A	TCGA-18-3406-01A-01D-0983-08	119883	32832614	210366759	33	33										
SLC8A1	6546	broad.mit.edu	37	chr2	40656932	40656932	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gtgctaggaccgaggtctccTgcagtgaagttatggccaca	13	10	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:40656932T>C	uc002rrx.2	-	1	513	c.489A>G	c.(487-489)GCA>GCG	p.A163A	SLC8A1_uc002rry.2_Silent_p.A163A|SLC8A1_uc002rrz.2_Silent_p.A163A|SLC8A1_uc002rsa.2_Silent_p.A163A|SLC8A1_uc002rsd.3_Silent_p.A163A|SLC8A1_uc002rsb.1_Silent_p.A163A|SLC8A1_uc010fan.1_Silent_p.A163A|SLC8A1_uc002rsc.1_Silent_p.A163A	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	163	Extracellular (Potential).|Alpha-1.				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CGAGGTCTCCTGCAGTGAAGT	0.473													9	41	---	---	---	---	PASS	C	40656932	C	C	40656932	2	2	1	1	0	0	0	0	0	0	0	1	14706	1567	55	5		5	SLC8A1	2	40656932	Silent	SNP	T	TCGA-18-3406-01A-01D-0983-08	7824318	40656932	202542441	34	34										
PLEKHH2	130271	broad.mit.edu	37	chr2	43986038	43986038	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgttcttttctttttttttaGgcagctttgccagcgacttt	7	8	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:43986038G>A	uc010yny.1	+	27	4025	c.3942_splice	c.e27-1	p.R1314_splice		NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H							cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				tttttttttAGGCAGCTTTGC	0.378													4	15	---	---	---	---	PASS	A	43986038	A	A	43986038	5	1	1	1	0	0	0	0	0	0	1	0	12077	1014	35	3	4043	3	PLEKHH2	2	43986038	Splice_Site	SNP	G	TCGA-18-3406-01A-01D-0983-08	3329106	43986038	199213335	35	35										
SRBD1	55133	broad.mit.edu	37	chr2	45826850	45826850	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	caactttcagctttttagtcCttcgaactgtatgtggctgc	8	10	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:45826850C>A	uc002rus.2	-	4	462	c.386G>T	c.(385-387)AGG>ATG	p.R129M		NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	129					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			CTTTTTAGTCCTTCGAACTGT	0.423													6	142	---	---	---	---	PASS	A	45826850	A	A	45826850	3	1	1	1	0	0	0	0	1	0	0	0	15132	681	24	3	2673	3	SRBD1	2	45826850	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1840812	45826850	197372523	36	36										
GMCL1	64395	broad.mit.edu	37	chr2	70064701	70064701	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aaaaattaaagagtacatctAaatatatttatcaaacatta	2	4	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:70064701A>G	uc002sfu.2	+	2	490	c.283A>G	c.(283-285)AAA>GAA	p.K95E		NM_178439	NP_848526	Q96IK5	GMCL1_HUMAN	germ cell-less	95					cell differentiation|multicellular organismal development|spermatogenesis	nuclear matrix				ovary(3)	3						GAGTACATCTAAATATATTTA	0.239													6	22	---	---	---	---	PASS	G	70064701	G	G	70064701	3	3	1	1	0	0	0	0	1	0	0	0	6485	363	13	5	289	5	GMCL1	2	70064701	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	24237851	70064701	173134672	37	37										
CYP26B1	56603	broad.mit.edu	37	chr2	72359529	72359529	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gctggtgctagccagctccaCcgccagcaccttcaggaaca	10	16	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:72359529C>A	uc002sih.1	-	6	1366	c.1366G>T	c.(1366-1368)GTG>TTG	p.V456L	CYP26B1_uc010yra.1_Missense_Mutation_p.V439L|CYP26B1_uc010yrb.1_Missense_Mutation_p.V381L	NM_019885	NP_063938	Q9NR63	CP26B_HUMAN	cytochrome P450, family 26, subfamily b,	456					cell fate determination|embryonic limb morphogenesis|male meiosis|negative regulation of retinoic acid receptor signaling pathway|proximal/distal pattern formation|retinoic acid catabolic process|spermatogenesis|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			skin(2)	2						GCCAGCTCCACCGCCAGCACC	0.657													3	7	---	---	---	---	PASS	A	72359529	A	A	72359529	3	1	1	1	0	0	0	0	1	0	0	0	4156	507	18	3	176	3	CYP26B1	2	72359529	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	2294828	72359529	170839844	38	38										
CTNNA2	1496	broad.mit.edu	37	chr2	79878739	79878739	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gaccccaaaagtttggaaatCcggacgctaacagtggaaag	11	9	0	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:79878739C>G	uc010ysh.1	+	1	62	c.57C>G	c.(55-57)ATC>ATG	p.I19M	CTNNA2_uc010yse.1_Missense_Mutation_p.I19M|CTNNA2_uc010ysf.1_Missense_Mutation_p.I19M|CTNNA2_uc010ysg.1_Missense_Mutation_p.I19M|hsa-mir-4264|MI0015877_5'Flank	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	19					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GTTTGGAAATCCGGACGCTAA	0.398													8	64	---	---	---	---	PASS	G	79878739	G	G	79878739	3	3	1	1	0	0	0	0	1	0	0	0	4013	845	30	2	59	2	CTNNA2	2	79878739	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	7519210	79878739	163320634	39	39										
ANKRD36	375248	broad.mit.edu	37	chr2	97823873	97823873	+	Frame_Shift_Del	DEL	A	-	-													0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gaaccatactttacgaacagAaggactatttctcaacaatc							TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:97823873delA	uc010yva.1	+	16	1534	c.1290delA	c.(1288-1290)AGAfs	p.R430fs	ANKRD36_uc010yuz.1_RNA|ANKRD36_uc010fic.2_Frame_Shift_Del_p.R149fs|ANKRD36_uc002sxo.2_Intron|ANKRD36_uc002sxp.3_RNA	NM_001164315	NP_001157787	A6QL64	AN36A_HUMAN	ankyrin repeat domain 36	430											0						TTACGAACAGAAGGACTATTT	0.259													3	4	---	---	---	---		-	97823873	-	-	97823873	7	5	1	1	0	1	0	1	0	0	0	0	665	243	9	0	1352	0	ANKRD36	2	97823873	Frame_Shift_Del	DEL	A	TCGA-18-3406-01A-01D-0983-08	17945134	97823873	145375500	40	40										
CNTNAP5	129684	broad.mit.edu	37	chr2	124979288	124979288	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tcctatcattatagacaactGtgatgatccactagcatccc	5	12	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:124979288G>T	uc002tno.2	+	2	453	c.89G>T	c.(88-90)TGT>TTT	p.C30F	CNTNAP5_uc010flu.2_Missense_Mutation_p.C30F	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	30	F5/8 type C.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		ATAGACAACTGTGATGATCCA	0.428													6	23	---	---	---	---	PASS	T	124979288	T	T	124979288	3	4	1	1	0	0	0	0	1	0	0	0	3650	1377	48	3	95	3	CNTNAP5	2	124979288	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	27155415	124979288	118220085	41	41										
THSD7B	80731	broad.mit.edu	37	chr2	137814720	137814720	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tacaaagcacatcatcattcGaagtcttgggcaatagagat	8	8	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:137814720G>C	uc002tva.1	+	2	777	c.777G>C	c.(775-777)TCG>TCC	p.S259S	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Silent_p.S149S	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		ATCATCATTCGAAGTCTTGGG	0.388													6	62	---	---	---	---	PASS	C	137814720	C	C	137814720	2	2	1	1	0	0	0	0	0	0	0	1	15877	1045	37	2		2	THSD7B	2	137814720	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	12835432	137814720	105384653	42	42										
SLC4A10	57282	broad.mit.edu	37	chr2	162751233	162751233	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gctaaagatcgtaatgacttGgtatcaggaattgatgagtt	11	4	1	4	rs61748241		TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:162751233G>T	uc002ubx.3	+	11	1423	c.1239G>T	c.(1237-1239)TTG>TTT	p.L413F	SLC4A10_uc010fpa.1_Missense_Mutation_p.L425F|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.L383F|SLC4A10_uc010zcs.1_Missense_Mutation_p.L394F	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	413	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						GTAATGACTTGGTATCAGGAA	0.323													4	46	---	---	---	---	PASS	T	162751233	T	T	162751233	3	4	1	1	0	0	0	0	1	0	0	0	14651	1339	47	3	1366	3	SLC4A10	2	162751233	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	24936513	162751233	80448140	43	43										
CCDC141	285025	broad.mit.edu	37	chr2	179702022	179702022	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	attctgtgtaaggcagtactCttttccacgaatcctctgga	8	10	3	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:179702022C>G	uc002unf.1	-	13	2256	c.2199G>C	c.(2197-2199)AAG>AAC	p.K733N	CCDC141_uc002une.1_Missense_Mutation_p.K183N	NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	733							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			AGGCAGTACTCTTTTCCACGA	0.473													18	42	---	---	---	---	PASS	G	179702022	G	G	179702022	3	3	1	1	0	0	0	0	1	0	0	0	2775	912	32	2	432	2	CCDC141	2	179702022	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	16950789	179702022	63497351	44	44										
PARD3B	117583	broad.mit.edu	37	chr2	206023503	206023503	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	caagcgagcagctcacctttGagatccccctgaatgattca	8	13	2	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:206023503G>T	uc002var.1	+	11	1699	c.1492G>T	c.(1492-1494)GAG>TAG	p.E498*	PARD3B_uc010fub.1_Nonsense_Mutation_p.E498*|PARD3B_uc002vao.1_Nonsense_Mutation_p.E498*|PARD3B_uc002vap.1_Intron|PARD3B_uc002vaq.1_Nonsense_Mutation_p.E498*	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	498	PDZ 3.				cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		GCTCACCTTTGAGATCCCCCT	0.468													10	158	---	---	---	---	PASS	T	206023503	T	T	206023503	4	4	1	1	0	0	0	0	0	1	0	0	11444	1291	45	2	1534	2	PARD3B	2	206023503	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	26321481	206023503	37175870	45	45										
PIKFYVE	200576	broad.mit.edu	37	chr2	209200098	209200098	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	attcattaagcgtcaggcccCattaaaagtgtcccttcttc	6	12	3	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:209200098C>T	uc002vcz.2	+	25	4369	c.4211C>T	c.(4210-4212)CCA>CTA	p.P1404L	PIKFYVE_uc002vcy.1_Missense_Mutation_p.P1348L	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1404					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						CGTCAGGCCCCATTAAAAGTG	0.343													19	72	---	---	---	---	PASS	T	209200098	T	T	209200098	3	4	1	1	0	0	0	0	1	0	0	0	11924	594	21	3	4316	3	PIKFYVE	2	209200098	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	3176595	209200098	33999275	46	46										
FN1	2335	broad.mit.edu	37	chr2	216251681	216251681	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgccagttggggaatcaagaCctgtttttcccacccggggg	13	11	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr2:216251681C>T	uc002vfa.2	-	28	4609	c.4343G>A	c.(4342-4344)GGT>GAT	p.G1448D	FN1_uc002vfb.2_Missense_Mutation_p.G1357D|FN1_uc002vfc.2_Missense_Mutation_p.G1357D|FN1_uc002vfd.2_Missense_Mutation_p.G1448D|FN1_uc002vfe.2_Missense_Mutation_p.G1357D|FN1_uc002vff.2_Missense_Mutation_p.G1357D|FN1_uc002vfg.2_Missense_Mutation_p.G1357D|FN1_uc002vfh.2_Missense_Mutation_p.G1357D|FN1_uc002vfi.2_Missense_Mutation_p.G1448D|FN1_uc002vfj.2_Missense_Mutation_p.G1448D|FN1_uc002vez.2_5'UTR|FN1_uc010zjp.1_Missense_Mutation_p.G75D	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGAATCAAGACCTGTTTTTCC	0.458													5	19	---	---	---	---	PASS	T	216251681	T	T	216251681	3	4	1	1	0	0	0	0	1	0	0	0	5962	521	18	3	3166	3	FN1	2	216251681	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	7051583	216251681	26947692	47	47										
BHLHE40	8553	broad.mit.edu	37	chr3	5023083	5023083	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tcttttccttccagactttgGgtcacttggaaaaagcagtg	9	9	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:5023083G>T	uc003bqf.2	+	4	572	c.265G>T	c.(265-267)GGT>TGT	p.G89C	uc003bqe.1_5'Flank|uc010hce.1_5'Flank|BHLHE40_uc011asw.1_5'UTR	NM_003670	NP_003661	O14503	BHE40_HUMAN	basic helix-loop-helix family, member e40	89	Helix-loop-helix motif.					Golgi apparatus|nucleolus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCAGACTTTGGGTCACTTGGA	0.413													6	181	---	---	---	---	PASS	T	5023083	T	T	5023083	3	4	1	1	0	0	0	0	1	0	0	0	1423	1232	43	3	279	3	BHLHE40	3	5023083	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08		5023083	192999347	48	48										
GRIP2	80852	broad.mit.edu	37	chr3	14549198	14549198	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aatgcggtcccccacgtggaTggcaccagtcctgaggagtg	14	12	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:14549198T>A	uc011avi.1	-	19	2383	c.2383A>T	c.(2383-2385)ATC>TTC	p.I795F	GRIP2_uc010heh.2_RNA|GRIP2_uc011avh.1_Missense_Mutation_p.I326F	NM_001080423	NP_001073892	Q9C0E4	GRIP2_HUMAN	glutamate receptor interacting protein 2	697	PDZ 6.				synaptic transmission	cytosol|plasma membrane	protein binding			pancreas(1)	1						CCCACGTGGATGGCACCAGTC	0.622													8	18	---	---	---	---	PASS	A	14549198	A	A	14549198	3	1	1	1	0	0	0	0	1	0	0	0	6788	1464	51	5	1069	5	GRIP2	3	14549198	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	9526115	14549198	183473232	49	49										
QRICH1	54870	broad.mit.edu	37	chr3	49094466	49094466	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggaatgtggatgttgccattCatgaactgtgctggaaagag	14	5	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:49094466C>G	uc010hkq.2	-	4	1463	c.1167G>C	c.(1165-1167)ATG>ATC	p.M389I	QRICH1_uc003cvu.2_Missense_Mutation_p.M389I|QRICH1_uc003cvv.2_Missense_Mutation_p.M389I	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	389	Gln-rich.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		TGTTGCCATTCATGAACTGTG	0.473													6	30	---	---	---	---	PASS	G	49094466	G	G	49094466	3	3	1	1	0	0	0	0	1	0	0	0	12879	826	29	2	1195	2	QRICH1	3	49094466	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	34545268	49094466	148927964	50	50										
HYAL1	3373	broad.mit.edu	37	chr3	50338437	50338437	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	accttggttcttgtattttcCcagctcacccagagcaccac	6	15	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:50338437C>T	uc003czp.2	-	3	1104	c.972G>A	c.(970-972)TGG>TGA	p.W324*	HYAL3_uc003czc.1_5'Flank|HYAL3_uc003czd.1_5'Flank|HYAL3_uc003cze.1_5'Flank|HYAL3_uc003czf.1_5'Flank|HYAL3_uc003czg.1_5'Flank|NAT6_uc003czi.2_5'Flank|NAT6_uc003czj.2_5'Flank|NAT6_uc003czk.3_5'Flank|NAT6_uc003czl.1_5'Flank|HYAL1_uc003czm.2_Nonsense_Mutation_p.W142*|HYAL1_uc003czo.2_Nonsense_Mutation_p.W65*|HYAL1_uc003czq.2_Intron|HYAL1_uc003czr.2_Nonsense_Mutation_p.W324*|HYAL1_uc003czn.2_5'UTR|HYAL1_uc003czs.2_Nonsense_Mutation_p.W324*|HYAL1_uc003czt.2_Nonsense_Mutation_p.W324*	NM_033159	NP_149349	Q12794	HYAL1_HUMAN	hyaluronoglucosaminidase 1 isoform 1	324						extracellular space|lysosome	hyalurononglucosaminidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)	Hyaluronidase(DB00070)	TTGTATTTTCCCAGCTCACCC	0.627													4	9	---	---	---	---	PASS	T	50338437	T	T	50338437	4	4	1	1	0	0	0	0	0	1	0	0	7463	624	22	3	343	3	HYAL1	3	50338437	Nonsense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1243971	50338437	147683993	51	51										
DNAH12	201625	broad.mit.edu	37	chr3	57528591	57528591	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aatggcagctttgtttgcatCtgacatcttgatcccctaaa	7	10	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:57528591C>G	uc003dit.2	-	2	188	c.7G>C	c.(7-9)GAT>CAT	p.D3H	DNAH12_uc003diu.2_Missense_Mutation_p.D3H	NM_178504	NP_848599	Q6ZR08	DYH12_HUMAN	dynein heavy chain domain 2 isoform 1	3	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			pancreas(1)|skin(1)	2						TTGTTTGCATCTGACATCTTG	0.418													11	23	---	---	---	---	PASS	G	57528591	G	G	57528591	3	3	1	1	0	0	0	0	1	0	0	0	4600	913	32	2	9546	2	DNAH12	3	57528591	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	7190154	57528591	140493839	52	52										
PDZRN3	23024	broad.mit.edu	37	chr3	73437214	73437214	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	acggttctgcacctctatccCattaatcttttaaaaaaaaa	3	10	3	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:73437214C>T	uc003dpl.1	-	8	1519	c.1423G>A	c.(1423-1425)GGG>AGG	p.G475R	PDZRN3_uc011bgh.1_Missense_Mutation_p.G132R|PDZRN3_uc010hoe.1_Missense_Mutation_p.G173R|PDZRN3_uc011bgf.1_Missense_Mutation_p.G192R|PDZRN3_uc011bgg.1_Missense_Mutation_p.G195R	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	475	PDZ 2.						ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		ACCTCTATCCCATTAATCTTT	0.403													18	59	---	---	---	---	PASS	T	73437214	T	T	73437214	3	4	1	1	0	0	0	0	1	0	0	0	11709	594	21	3	1789	3	PDZRN3	3	73437214	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	15908623	73437214	124585216	53	53										
EPHA6	285220	broad.mit.edu	37	chr3	96533764	96533764	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	agaaccatggggggctgcgaAgtccgggaatttcttttgca	14	8	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:96533764A>T	uc010how.1	+	1	340	c.297A>T	c.(295-297)GAA>GAT	p.E99D	EPHA6_uc003drp.1_Missense_Mutation_p.E99D	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	5						integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						GGGGCTGCGAAGTCCGGGAAT	0.562													5	35	---	---	---	---	PASS	T	96533764	T	T	96533764	3	4	1	1	0	0	0	0	1	0	0	0	5171	69	3	5	299	5	EPHA6	3	96533764	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	23096550	96533764	101488666	54	54										
OR5K3	403277	broad.mit.edu	37	chr3	98109533	98109533	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aataaggagaatcactccttGatagctgagttcatcctcac	7	10	3	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:98109533G>C	uc011bgw.1	+	1	24	c.24G>C	c.(22-24)TTG>TTC	p.L8F		NM_001005516	NP_001005516	A6NET4	OR5K3_HUMAN	olfactory receptor, family 5, subfamily K,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATCACTCCTTGATAGCTGAGT	0.388													16	46	---	---	---	---	PASS	C	98109533	C	C	98109533	3	2	1	1	0	0	0	0	1	0	0	0	11168	1281	45	2	26	2	OR5K3	3	98109533	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	1575769	98109533	99912897	55	55										
IMPG2	50939	broad.mit.edu	37	chr3	100994577	100994577	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ccacctctggatgtggaacaCtgagagtagtgtctaagaag	12	8	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:100994577C>T	uc003duq.1	-	6	799	c.596G>A	c.(595-597)AGT>AAT	p.S199N	IMPG2_uc011bhe.1_Missense_Mutation_p.S62N	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	199	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						ATGTGGAACACTGAGAGTAGT	0.423													10	38	---	---	---	---	PASS	T	100994577	T	T	100994577	3	4	1	1	0	0	0	0	1	0	0	0	7729	565	20	3	3185	3	IMPG2	3	100994577	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	2885044	100994577	97027853	56	56										
ILDR1	286676	broad.mit.edu	37	chr3	121712684	121712684	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ccaaatctgcctttgaggtcAgggggcagaggctgggccag	16	10	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:121712684A>T	uc003ees.2	-	7	1018	c.912T>A	c.(910-912)CCT>CCA	p.P304P	ILDR1_uc003eeq.2_Silent_p.P272P|ILDR1_uc003eer.2_Silent_p.P260P|ILDR1_uc010hrg.2_Silent_p.P215P	NM_175924	NP_787120	Q86SU0	ILDR1_HUMAN	immunoglobulin-like domain containing receptor	304	Cytoplasmic (Potential).					cytosol|integral to membrane|plasma membrane	receptor activity			skin(1)	1				GBM - Glioblastoma multiforme(114;0.156)		CTTTGAGGTCAGGGGGCAGAG	0.582													8	34	---	---	---	---	PASS	T	121712684	T	T	121712684	2	4	1	1	0	0	0	0	0	0	0	1	7709	175	7	5		5	ILDR1	3	121712684	Silent	SNP	A	TCGA-18-3406-01A-01D-0983-08	20718107	121712684	76309746	57	57										
ADCY5	111	broad.mit.edu	37	chr3	123044199	123044199	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atctccttggacacctggttGccacccaggtggttgtagaa	11	11	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:123044199G>T	uc003egh.1	-	8	2058	c.2058C>A	c.(2056-2058)GGC>GGA	p.G686G	ADCY5_uc003egg.1_Silent_p.G319G|ADCY5_uc003egi.1_Silent_p.G245G	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	686	Cytoplasmic (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		ACACCTGGTTGCCACCCAGGT	0.622													14	57	---	---	---	---	PASS	T	123044199	T	T	123044199	2	4	1	1	0	0	0	0	0	0	0	1	297	1306	46	3		3	ADCY5	3	123044199	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	1331515	123044199	74978231	58	58										
KBTBD12	166348	broad.mit.edu	37	chr3	127649097	127649097	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	taagtaccgattcagtacagCtgtagtcaacagtgagattt	9	7	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:127649097C>G	uc010hsr.2	+	3	1466	c.1463C>G	c.(1462-1464)GCT>GGT	p.A488G	KBTBD12_uc003ejy.3_Missense_Mutation_p.A95G|KBTBD12_uc010hsq.2_Intron|KBTBD12_uc003eka.3_Missense_Mutation_p.A63G	NM_207335	NP_997218	Q3ZCT8	KBTBC_HUMAN	kelch domain containing 6	488	Kelch 2.									ovary(1)	1						TTCAGTACAGCTGTAGTCAAC	0.418													3	22	---	---	---	---	PASS	G	127649097	G	G	127649097	3	3	1	1	0	0	0	0	1	0	0	0	7991	797	28	4	1473	4	KBTBD12	3	127649097	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	4604898	127649097	70373333	59	59										
SI	6476	broad.mit.edu	37	chr3	164780248	164780248	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggtaactctatatgttactaTtggagtaggctggataaaaa	10	4	1	0	rs148454534		TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:164780248T>C	uc003fei.2	-	9	993	c.931A>G	c.(931-933)ATA>GTA	p.I311V		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	311	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)	TATGTTACTATTGGAGTAGGC	0.323										HNSCC(35;0.089)			11	33	---	---	---	---	PASS	C	164780248	C	C	164780248	3	2	1	1	0	0	0	0	1	0	0	0	14297	1493	52	5	4712	5	SI	3	164780248	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	37131151	164780248	33242182	60	60										
SERPINI2	5276	broad.mit.edu	37	chr3	167189518	167189518	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttatgagataaggaaacctcTtgataaagatccactgcaaa	7	7	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:167189518T>C	uc003fer.1	-	1	163	c.105A>G	c.(103-105)CAA>CAG	p.Q35Q	SERPINI2_uc003fes.1_Silent_p.Q45Q|SERPINI2_uc003fet.1_Silent_p.Q35Q	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),	35					cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						AGGAAACCTCTTGATAAAGAT	0.393													22	115	---	---	---	---	PASS	C	167189518	C	C	167189518	2	2	1	1	0	0	0	0	0	0	0	1	14119	1606	56	5		5	SERPINI2	3	167189518	Silent	SNP	T	TCGA-18-3406-01A-01D-0983-08	2409270	167189518	30832912	61	61										
PHC3	80012	broad.mit.edu	37	chr3	169846593	169846593	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cagctggaagttcctcttctGacaccaaagcattctgcacc	7	14	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:169846593G>A	uc010hws.1	-	8	1695	c.1631C>T	c.(1630-1632)TCA>TTA	p.S544L	PHC3_uc003fgl.2_Missense_Mutation_p.S556L|PHC3_uc011bpq.1_Missense_Mutation_p.S503L|PHC3_uc011bpr.1_Missense_Mutation_p.S470L	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	544	Pro-rich.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			TTCCTCTTCTGACACCAAAGC	0.507													50	228	---	---	---	---	PASS	A	169846593	A	A	169846593	3	1	1	1	0	0	0	0	1	0	0	0	11818	1294	45	2	1352	2	PHC3	3	169846593	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	2657075	169846593	28175837	62	62										
FNDC3B	64778	broad.mit.edu	37	chr3	172028654	172028654	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gttcaaaaatcaccaactacCttttagagtgggatgaggta	9	7	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:172028654C>A	uc003fhy.2	+	11	1409	c.1237C>A	c.(1237-1239)CTT>ATT	p.L413I	FNDC3B_uc003fhz.3_Missense_Mutation_p.L413I|FNDC3B_uc003fia.2_Missense_Mutation_p.L344I	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	413	Fibronectin type-III 2.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		CACCAACTACCTTTTAGAGTG	0.318													6	163	---	---	---	---	PASS	A	172028654	A	A	172028654	3	1	1	1	0	0	0	0	1	0	0	0	5970	681	24	3	1275	3	FNDC3B	3	172028654	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	2182061	172028654	25993776	63	63										
ECT2	1894	broad.mit.edu	37	chr3	172479422	172479422	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgctgtgagtctaggtactcCaattatgaagccagaatgga	11	7	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:172479422C>A	uc003fii.2	+	7	752	c.614C>A	c.(613-615)CCA>CAA	p.P205Q	ECT2_uc010hwv.1_Missense_Mutation_p.P236Q|ECT2_uc003fih.2_Missense_Mutation_p.P204Q|ECT2_uc003fij.1_Missense_Mutation_p.P205Q|ECT2_uc003fik.1_Missense_Mutation_p.P205Q|ECT2_uc003fil.1_Missense_Mutation_p.P236Q	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	205	BRCT 1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			CTAGGTACTCCAATTATGAAG	0.323													6	90	---	---	---	---	PASS	A	172479422	A	A	172479422	3	1	1	1	0	0	0	0	1	0	0	0	4901	594	21	3	636	3	ECT2	3	172479422	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	450768	172479422	25543008	64	64										
NLGN1	22871	broad.mit.edu	37	chr3	173998368	173998368	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ccagatattcccagaaagacCaactttatctccatattgga	5	11	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:173998368C>A	uc003fio.1	+	7	2170	c.1747C>A	c.(1747-1749)CAA>AAA	p.Q583K	NLGN1_uc003fip.1_Missense_Mutation_p.Q583K	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	600	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			CCAGAAAGACCAACTTTATCT	0.403													5	81	---	---	---	---	PASS	A	173998368	A	A	173998368	3	1	1	1	0	0	0	0	1	0	0	0	10461	595	21	3	1765	3	NLGN1	3	173998368	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1518946	173998368	24024062	65	65										
PSMD2	5708	broad.mit.edu	37	chr3	184020467	184020467	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgtacgggctctctccacagGgtagtacagaaacagatggc	12	10	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr3:184020467G>T	uc003fnn.1	+	7	897	c.864G>T	c.(862-864)GTG>GTT	p.V288V	PSMD2_uc011brj.1_Silent_p.V129V|PSMD2_uc011brk.1_Silent_p.V158V	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	288					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	CTCTCCACAGGGTAGTACAGA	0.517													7	160	---	---	---	---	PASS	T	184020467	T	T	184020467	2	4	1	1	0	0	0	0	0	0	0	1	12698	1246	43	3		3	PSMD2	3	184020467	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	10022099	184020467	14001963	66	66										
KLF3	51274	broad.mit.edu	37	chr4	38691456	38691456	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tatcctgaagaaatgtcaccCcccttaatgaactcagtgtc	6	12	2	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:38691456C>T	uc003gth.3	+	4	983	c.651C>T	c.(649-651)CCC>CCT	p.P217P	KLF3_uc003gtg.2_Silent_p.P217P	NM_016531	NP_057615	P57682	KLF3_HUMAN	Kruppel-like factor 3 (basic)	217	Pro-rich.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						AAATGTCACCCCCCTTAATGA	0.403													20	65	---	---	---	---	PASS	T	38691456	T	T	38691456	2	4	1	1	0	0	0	0	0	0	0	1	8347	610	22	3		3	KLF3	4	38691456	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08		38691456	152462820	67	67										
PDS5A	23244	broad.mit.edu	37	chr4	39839563	39839563	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tggcattacctgcttccaaaCccccagggctctcctgaccc	7	18	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:39839563C>A	uc003guv.3	-	32	4463	c.3923G>T	c.(3922-3924)GGT>GTT	p.G1308V	PDS5A_uc010ifo.2_Missense_Mutation_p.G1268V	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1308					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						TGCTTCCAAACCCCCAGGGCT	0.448													14	47	---	---	---	---	PASS	A	39839563	A	A	39839563	3	1	1	1	0	0	0	0	1	0	0	0	11691	507	18	3	98	3	PDS5A	4	39839563	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1148107	39839563	151314713	68	68										
N4BP2	55728	broad.mit.edu	37	chr4	40121557	40121557	+	Missense_Mutation	SNP	G	T	T													0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aaaataatcttacagcccaaGagacgatgaagatattatct							TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:40121557G>T	uc003guy.3	+	9	2164	c.1826G>T	c.(1825-1827)AGA>ATA	p.R609I	N4BP2_uc010ifq.2_Missense_Mutation_p.R529I|N4BP2_uc010ifr.2_Missense_Mutation_p.R529I	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	609						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						TACAGCCCAAGAGACGATGAA	0.313													8	34	---	---	---	---	PASS	T	40121557	T	T	40121557	3	4	1	1	0	0	0	0	1	0	0	0	10110	942	33	2	1852	2	N4BP2	4	40121557	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	281994	40121557	151032719	69	69	2	2								
N4BP2	55728	broad.mit.edu	37	chr4	40121558	40121558	+	Missense_Mutation	SNP	A	T	T													0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aaataatcttacagcccaagAgacgatgaagatattatctc							TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:40121558A>T	uc003guy.3	+	9	2165	c.1827A>T	c.(1825-1827)AGA>AGT	p.R609S	N4BP2_uc010ifq.2_Missense_Mutation_p.R529S|N4BP2_uc010ifr.2_Missense_Mutation_p.R529S	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	609						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						ACAGCCCAAGAGACGATGAAG	0.313													8	33	---	---	---	---	PASS	T	40121558	T	T	40121558	3	4	1	1	0	0	0	0	1	0	0	0	10110	301	11	5	1853	5	N4BP2	4	40121558	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	1	40121558	151032718	70	70	2	2								
CORIN	10699	broad.mit.edu	37	chr4	47746482	47746482	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gacattgctgctttcagtttGgtttctaaactgggagcatc	10	8	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:47746482G>T	uc003gxm.2	-	5	829	c.736C>A	c.(736-738)CAA>AAA	p.Q246K	CORIN_uc011bzf.1_Missense_Mutation_p.Q107K|CORIN_uc011bzg.1_Missense_Mutation_p.Q179K|CORIN_uc011bzh.1_Missense_Mutation_p.Q246K|CORIN_uc011bzi.1_Missense_Mutation_p.Q246K|CORIN_uc003gxn.3_Missense_Mutation_p.Q246K	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	246	Extracellular (Potential).|FZ 1.				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						CTTTCAGTTTGGTTTCTAAAC	0.433													7	177	---	---	---	---	PASS	T	47746482	T	T	47746482	3	4	1	1	0	0	0	0	1	0	0	0	3752	1357	47	3	2464	3	CORIN	4	47746482	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	7624924	47746482	143407794	71	71										
AREG	374	broad.mit.edu	37	chr4	75312497	75312497	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tattgtcgatgattcagtcaGaggtgagtaggggataaagc	14	4	2	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:75312497G>T	uc011cbl.1	+	2	518	c.308G>T	c.(307-309)AGA>ATA	p.R103I		NM_001657	NP_001648	P15514	AREG_HUMAN	amphiregulin preproprotein	103					cell proliferation|cell-cell signaling|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|positive regulation of DNA replication	cell surface|extracellular space|integral to membrane	cytokine activity|growth factor activity				0			Lung(101;0.196)			GATTCAGTCAGAGGTGAGTAG	0.448													6	139	---	---	---	---	PASS	T	75312497	T	T	75312497	3	4	1	1	0	0	0	0	1	0	0	0	843	942	33	2	314	2	AREG	4	75312497	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	27566015	75312497	115841779	72	72										
MTTP	4547	broad.mit.edu	37	chr4	100504545	100504545	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctccagatgaaggatgtaaaTgttgaaaatgtgaatcagca	10	5	1	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:100504545T>C	uc003hvc.3	+	4	520	c.264T>C	c.(262-264)AAT>AAC	p.N88N	MTTP_uc011cej.1_Silent_p.N115N|MTTP_uc003hvb.2_Silent_p.N88N	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	88	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	AGGATGTAAATGTTGAAAATG	0.343													12	124	---	---	---	---	PASS	C	100504545	C	C	100504545	2	2	1	1	0	0	0	0	0	0	0	1	9964	1461	51	5		5	MTTP	4	100504545	Silent	SNP	T	TCGA-18-3406-01A-01D-0983-08	25192048	100504545	90649731	73	73										
DKK2	27123	broad.mit.edu	37	chr4	107847083	107847083	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tacctcccaacttcacactcCttatcactgctacaagggta	4	15	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:107847083C>A	uc003hyi.2	-	2	951	c.246G>T	c.(244-246)AAG>AAT	p.K82N	DKK2_uc010ilw.1_RNA|DKK2_uc003hyj.1_Missense_Mutation_p.K82N	NM_014421	NP_055236	Q9UBU2	DKK2_HUMAN	dickkopf homolog 2 precursor	82	DKK-type Cys-1.				multicellular organismal development|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular space				ovary(3)|lung(1)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.34e-06)		CTTCACACTCCTTATCACTGC	0.468													5	44	---	---	---	---	PASS	A	107847083	A	A	107847083	3	1	1	1	0	0	0	0	1	0	0	0	4545	680	24	3	545	3	DKK2	4	107847083	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	7342538	107847083	83307193	74	74										
QRFPR	84109	broad.mit.edu	37	chr4	122261669	122261669	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttttaaaaggatgcacaagtCcctggtgcctttccacagca	8	11	0	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:122261669C>T	uc010inj.1	-	2	816	c.437G>A	c.(436-438)GGA>GAA	p.G146E	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Missense_Mutation_p.G146E|QRFPR_uc010inl.1_Missense_Mutation_p.G146E	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	146	Cytoplasmic (Potential).					plasma membrane	neuropeptide Y receptor activity				0						ATGCACAAGTCCCTGGTGCCT	0.488													10	26	---	---	---	---	PASS	T	122261669	T	T	122261669	3	4	1	1	0	0	0	0	1	0	0	0	12878	855	30	2	878	2	QRFPR	4	122261669	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	14414586	122261669	68892607	75	75										
SMARCA5	8467	broad.mit.edu	37	chr4	144457612	144457612	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cttctttgaataggtatactCggatattaatgaaggatata	8	4	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:144457612C>A	uc003ijg.2	+	11	1738	c.1276C>A	c.(1276-1278)CGG>AGG	p.R426R		NM_003601	NP_003592	O60264	SMCA5_HUMAN	SWI/SNF-related matrix-associated	426					CenH3-containing nucleosome assembly at centromere|nucleosome positioning|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	condensed chromosome|nucleolus|nucleoplasm|NURF complex|RSF complex	ATP binding|ATPase activity|DNA binding|helicase activity|nucleosome binding|protein binding			skin(1)	1	all_hematologic(180;0.158)					TAGGTATACTCGGATATTAAT	0.363													4	36	---	---	---	---	PASS	A	144457612	A	A	144457612	2	1	1	1	0	0	0	0	0	0	0	1	14771	875	31	2		2	SMARCA5	4	144457612	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	22195943	144457612	46696664	76	76										
FBXW7	55294	broad.mit.edu	37	chr4	153245437	153245437	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgtctttgagttccattccaCttgttaacgactggtgccct	8	11	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:153245437C>G	uc003ims.2	-	11	1903	c.1754G>C	c.(1753-1755)AGT>ACT	p.S585T	FBXW7_uc011cii.1_Missense_Mutation_p.S585T|FBXW7_uc003imt.2_Missense_Mutation_p.S585T|FBXW7_uc011cih.1_Missense_Mutation_p.S409T|FBXW7_uc003imq.2_Missense_Mutation_p.S505T|FBXW7_uc003imr.2_Missense_Mutation_p.S467T	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	585	WD 6.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TTCCATTCCACTTGTTAACGA	0.413			Mis|N|D|F		colorectal|endometrial|T-ALL								3	19	---	---	---	---	PASS	G	153245437	G	G	153245437	3	3	1	1	0	0	0	0	1	0	0	0	5769	565	20	4	377	4	FBXW7	4	153245437	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	8787825	153245437	37908839	77	77										
WDR17	116966	broad.mit.edu	37	chr4	177052851	177052851	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atggtggagttggactttatGatatgggagctaagaagtgg	16	2	0	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:177052851G>T	uc003iuj.2	+	8	1288	c.1132G>T	c.(1132-1134)GAT>TAT	p.D378Y	WDR17_uc003iuk.2_Missense_Mutation_p.D354Y|WDR17_uc003ium.3_Missense_Mutation_p.D354Y|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	378										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TGGACTTTATGATATGGGAGC	0.383													34	84	---	---	---	---	PASS	T	177052851	T	T	177052851	3	4	1	1	0	0	0	0	1	0	0	0	17274	1290	45	2	1158	2	WDR17	4	177052851	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	23807414	177052851	14101425	78	78										
SNX25	83891	broad.mit.edu	37	chr4	186263206	186263206	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	agaagttggaggagttgaaaCtaagaactggacggtcccca	13	7	0	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr4:186263206C>G	uc003ixh.2	+	12	1820	c.1631C>G	c.(1630-1632)ACT>AGT	p.T544S	SNX25_uc010ish.2_Missense_Mutation_p.T315S|SNX25_uc003ixi.2_Missense_Mutation_p.T48S	NM_031953	NP_114159	Q9H3E2	SNX25_HUMAN	sorting nexin 25	544	PX.				cell communication|protein transport	endosome membrane	phosphatidylinositol binding|signal transducer activity			ovary(2)|breast(2)|pancreas(1)	5		all_lung(41;1.03e-13)|Lung NSC(41;2.5e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00886)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;2.13e-24)|Epithelial(43;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.6e-11)|BRCA - Breast invasive adenocarcinoma(30;0.00013)|Colorectal(24;0.000165)|GBM - Glioblastoma multiforme(59;0.000357)|COAD - Colon adenocarcinoma(29;0.000887)|STAD - Stomach adenocarcinoma(60;0.00118)|LUSC - Lung squamous cell carcinoma(40;0.0129)|READ - Rectum adenocarcinoma(43;0.228)		GGAGTTGAAACTAAGAACTGG	0.423													32	106	---	---	---	---	PASS	G	186263206	G	G	186263206	3	3	1	1	0	0	0	0	1	0	0	0	14896	565	20	4	1673	4	SNX25	4	186263206	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	9210355	186263206	4891070	79	79										
SLC6A18	348932	broad.mit.edu	37	chr5	1232344	1232344	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctcctcacaggggccttcctCatcccctacgtcatcgcgct	7	19	3	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:1232344C>T	uc003jby.1	+	2	294	c.171C>T	c.(169-171)CTC>CTT	p.L57L		NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18	57	Helical; Name=2; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GGGCCTTCCTCATCCCCTACG	0.687													4	7	---	---	---	---	PASS	T	1232344	T	T	1232344	2	4	1	1	0	0	0	0	0	0	0	1	14681	813	29	2		2	SLC6A18	5	1232344	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08		1232344	179682916	80	80										
CARD6	84674	broad.mit.edu	37	chr5	40852313	40852313	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aaagatgtcctgttatgtttGaacatggatagaagcagaaa	10	4	0	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:40852313G>C	uc003jmg.2	+	3	954	c.879G>C	c.(877-879)TTG>TTC	p.L293F		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	293					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						TGTTATGTTTGAACATGGATA	0.393													10	41	---	---	---	---	PASS	C	40852313	C	C	40852313	3	2	1	1	0	0	0	0	1	0	0	0	2650	1281	45	2	889	2	CARD6	5	40852313	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	39619969	40852313	140062947	81	81										
CCDC125	202243	broad.mit.edu	37	chr5	68616152	68616152	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgcttggaatactgaaaactCgcttcatttctttcttctcc	5	11	4	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:68616152C>A	uc003jvv.1	-	1	259	c.216G>T	c.(214-216)GCG>GCT	p.A72A	CCDC125_uc003jvx.1_Silent_p.A72A|CCDC125_uc003jvy.1_RNA|CCDC125_uc003jvw.2_5'UTR|CCDC125_uc003jvz.1_Silent_p.A72A	NM_176816	NP_789786	Q86Z20	CC125_HUMAN	coiled-coil domain containing 125	72						cytoplasm					0		Lung NSC(167;7.26e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.2e-56)|Epithelial(20;2.31e-52)|all cancers(19;5.85e-48)|Lung(70;0.0183)		ACTGAAAACTCGCTTCATTTC	0.388													4	133	---	---	---	---	PASS	A	68616152	A	A	68616152	2	1	1	1	0	0	0	0	0	0	0	1	2761	871	31	2		2	CCDC125	5	68616152	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	27763839	68616152	112299108	82	82										
BDP1	55814	broad.mit.edu	37	chr5	70835476	70835476	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tcagtagtgaacagggtgatGgtaagaatgaaagctaagtc	13	4	1	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:70835476G>T	uc003kbp.1	+	28	6285	c.6022G>T	c.(6022-6024)GTA>TTA	p.V2008L	BDP1_uc003kbo.2_Missense_Mutation_p.V2008L|BDP1_uc003kbq.1_RNA|BDP1_uc003kbr.1_Intron	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	2008					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		ACAGGGTGATGGTAAGAATGA	0.358													7	25	---	---	---	---	PASS	T	70835476	T	T	70835476	3	4	1	1	0	0	0	0	1	0	0	0	1395	1362	47	3	6132	3	BDP1	5	70835476	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	2219324	70835476	110079784	83	83										
BDP1	55814	broad.mit.edu	37	chr5	70855849	70855849	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gatatttttcttacctcaggAagcacactgacaactccaga	6	11	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:70855849A>C	uc003kbp.1	+	37	7544	c.7281A>C	c.(7279-7281)GGA>GGC	p.G2427G	BDP1_uc003kbq.1_RNA|BDP1_uc003kbr.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	2427					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		TTACCTCAGGAAGCACACTGA	0.418													14	63	---	---	---	---	PASS	C	70855849	C	C	70855849	2	2	1	1	0	0	0	0	0	0	0	1	1395	233	9	5		5	BDP1	5	70855849	Silent	SNP	A	TCGA-18-3406-01A-01D-0983-08	20373	70855849	110059411	84	84										
MRPS27	23107	broad.mit.edu	37	chr5	71521968	71521968	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctgtcaaggtagcctggtttCcatatcagaggcatgttgtg	12	8	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:71521968C>T	uc003kbz.3	-	9	789	c.753G>A	c.(751-753)TGG>TGA	p.W251*	MRPS27_uc003kca.3_Nonsense_Mutation_p.W195*|MRPS27_uc011cse.1_Nonsense_Mutation_p.W265*|MRPS27_uc011csd.1_Nonsense_Mutation_p.W32*|MRPS27_uc010iyz.1_RNA	NM_015084	NP_055899	Q92552	RT27_HUMAN	mitochondrial ribosomal protein S27	251						mitochondrion|ribosome					0		Lung NSC(167;0.00237)|Ovarian(174;0.0175)|Prostate(461;0.141)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.46e-53)		AGCCTGGTTTCCATATCAGAG	0.498													14	42	---	---	---	---	PASS	T	71521968	T	T	71521968	4	4	1	1	0	0	0	0	0	1	0	0	9838	856	30	2	503	2	MRPS27	5	71521968	Nonsense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	666119	71521968	109393292	85	85										
HMGCR	3156	broad.mit.edu	37	chr5	74654482	74654482	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttttgggttcttgttaacagGgtacagagaaagcactttca	10	6	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:74654482G>T	uc003kdp.2	+	16	2143	c.1987G>T	c.(1987-1989)GGT>TGT	p.G663C	HMGCR_uc011cst.1_Missense_Mutation_p.G683C|HMGCR_uc003kdq.2_Missense_Mutation_p.G610C|HMGCR_uc010izo.2_5'UTR|HMGCR_uc010izp.2_5'UTR	NM_000859	NP_000850	P04035	HMDH_HUMAN	3-hydroxy-3-methylglutaryl-Coenzyme A reductase	663	Catalytic.				cholesterol biosynthetic process|coenzyme A metabolic process|germ cell migration|gonad development|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal membrane	hydroxymethylglutaryl-CoA reductase (NADPH) activity|NADP binding			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;2.24e-54)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Cerivastatin(DB00439)|Fluvastatin(DB01095)|Lovastatin(DB00227)|NADH(DB00157)|Pravastatin(DB00175)|Rosuvastatin(DB01098)|Simvastatin(DB00641)	TTGTTAACAGGGTACAGAGAA	0.348													5	66	---	---	---	---	PASS	T	74654482	T	T	74654482	3	4	1	1	0	0	0	0	1	0	0	0	7231	1246	43	3	2045	3	HMGCR	5	74654482	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	3132514	74654482	106260778	86	86										
BHMT	635	broad.mit.edu	37	chr5	78423633	78423633	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	caaaaatacgccagagaggcCtacaacctgggggtcaggta	12	10	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:78423633C>A	uc003kfu.3	+	7	969	c.864C>A	c.(862-864)GCC>GCA	p.A288A	BHMT_uc011cti.1_Silent_p.A135A	NM_001713	NP_001704	Q93088	BHMT1_HUMAN	betaine-homocysteine methyltransferase	288	Hcy-binding.				protein methylation|regulation of homocysteine metabolic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)	CCAGAGAGGCCTACAACCTGG	0.502													11	36	---	---	---	---	PASS	A	78423633	A	A	78423633	2	1	1	1	0	0	0	0	0	0	0	1	1425	668	24	3		3	BHMT	5	78423633	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	3769151	78423633	102491627	87	87										
HAPLN1	1404	broad.mit.edu	37	chr5	82948608	82948608	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gtgtgaaaacaccttggcttGctctgcttccacaagtagat	9	10	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:82948608G>T	uc003kim.2	-	2	207	c.136C>A	c.(136-138)CAA>AAA	p.Q46K	HAPLN1_uc003kin.2_Missense_Mutation_p.Q46K	NM_001884	NP_001875	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	46	Ig-like V-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)		ACCTTGGCTTGCTCTGCTTCC	0.353													11	29	---	---	---	---	PASS	T	82948608	T	T	82948608	3	4	1	1	0	0	0	0	1	0	0	0	6954	1328	46	3	940	3	HAPLN1	5	82948608	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	4524975	82948608	97966652	88	88										
PPIP5K2	23262	broad.mit.edu	37	chr5	102513644	102513644	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttgtgaagaagacaaaaattTgccatctggctatggatata	9	5	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:102513644T>C	uc003kod.3	+	23	3236	c.2717T>C	c.(2716-2718)TTG>TCG	p.L906S	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.L906S|PPIP5K2_uc003kof.2_Missense_Mutation_p.L207S	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	906					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						GACAAAAATTTGCCATCTGGC	0.393													8	87	---	---	---	---	PASS	C	102513644	C	C	102513644	3	2	1	1	0	0	0	0	1	0	0	0	12333	1821	63	5	2803	5	PPIP5K2	5	102513644	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	19565036	102513644	78401616	89	89										
ADAMTS19	171019	broad.mit.edu	37	chr5	129015459	129015459	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttttgaacctctttatagctCtccgagatgctggcaaacag	8	10	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:129015459C>A	uc003kvb.1	+	17	2491	c.2491C>A	c.(2491-2493)CTC>ATC	p.L831I	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	831	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		CTTTATAGCTCTCCGAGATGC	0.348													15	51	---	---	---	---	PASS	A	129015459	A	A	129015459	3	1	1	1	0	0	0	0	1	0	0	0	264	913	32	2	2557	2	ADAMTS19	5	129015459	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	26501815	129015459	51899801	90	90										
REEP2	51308	broad.mit.edu	37	chr5	137780462	137780462	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggagatcgacgagtacatcaCgcaggcccgagacaagagct	13	11	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:137780462C>T	uc003lcz.2	+	5	445	c.323C>T	c.(322-324)ACG>ATG	p.T108M	REEP2_uc003lda.2_Missense_Mutation_p.T108M|REEP2_uc011cyt.1_Missense_Mutation_p.T69M	NM_016606	NP_057690	Q9BRK0	REEP2_HUMAN	receptor accessory protein 2	108						integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			GAGTACATCACGCAGGCCCGA	0.602													7	29	---	---	---	---	PASS	T	137780462	T	T	137780462	3	4	1	1	0	0	0	0	1	0	0	0	13205	536	19	1	341	1	REEP2	5	137780462	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	8765003	137780462	43134798	91	91										
PCDHB10	56126	broad.mit.edu	37	chr5	140572150	140572150	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctgtcagagagttgtgcttcCcaagacaaaggcaagtcctg	11	10	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:140572150C>A	uc003lix.2	+	1	199	c.25C>A	c.(25-27)CCA>ACA	p.P9T		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	9					calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTTGTGCTTCCCAAGACAAAG	0.473													6	87	---	---	---	---	PASS	A	140572150	A	A	140572150	3	1	1	1	0	0	0	0	1	0	0	0	11535	623	22	3	27	3	PCDHB10	5	140572150	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	2791688	140572150	40343110	92	92										
PCDHGA9	56107	broad.mit.edu	37	chr5	140784058	140784058	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	attaactcagacactggtgtGctgtatgctctgtgctcctt	9	10	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:140784058G>C	uc003lkh.1	+	1	1539	c.1539G>C	c.(1537-1539)GTG>GTC	p.V513V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Silent_p.V513V	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	513	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACACTGGTGTGCTGTATGCTC	0.458													9	43	---	---	---	---	PASS	C	140784058	C	C	140784058	2	2	1	1	0	0	0	0	0	0	0	1	11561	1306	46	4		4	PCDHGA9	5	140784058	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	211908	140784058	40131202	93	93										
PDE6A	5145	broad.mit.edu	37	chr5	149276332	149276332	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gctccttcccatacacctctCtggttttctgccaggaccca	6	17	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:149276332C>A	uc003lrg.3	-	11	1535	c.1415G>T	c.(1414-1416)AGA>ATA	p.R472I		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	472					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			ATACACCTCTCTGGTTTTCTG	0.522													6	138	---	---	---	---	PASS	A	149276332	A	A	149276332	3	1	1	1	0	0	0	0	1	0	0	0	11645	913	32	2	1215	2	PDE6A	5	149276332	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	8492274	149276332	31638928	94	94										
HMMR	3161	broad.mit.edu	37	chr5	162910151	162910151	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcaacaggaggaagactttaGaaaacagctggaagatgaag	13	5	0	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr5:162910151G>C	uc003lzf.2	+	14	1837	c.1655G>C	c.(1654-1656)AGA>ACA	p.R552T	HMMR_uc003lzh.2_Missense_Mutation_p.R553T|HMMR_uc003lzg.2_Missense_Mutation_p.R537T|HMMR_uc011dem.1_Missense_Mutation_p.R466T|uc003lzi.2_RNA	NM_012484	NP_036616	O75330	HMMR_HUMAN	hyaluronan-mediated motility receptor isoform b	552						cell surface|cytoplasm	hyaluronic acid binding				0	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0296)|OV - Ovarian serous cystadenocarcinoma(192;0.0423)|Epithelial(171;0.0848)		GAAGACTTTAGAAAACAGCTG	0.333													19	66	---	---	---	---	PASS	C	162910151	C	C	162910151	3	2	1	1	0	0	0	0	1	0	0	0	7242	942	33	2	1712	2	HMMR	5	162910151	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	13633819	162910151	18005109	95	95										
SLC22A23	63027	broad.mit.edu	37	chr6	3287237	3287237	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gctggccgtggtatagtagtCagcatagaagttctccagga	13	8	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:3287237C>T	uc003mvm.3	-	7	1402	c.1402G>A	c.(1402-1404)GAC>AAC	p.D468N	uc003mvi.1_RNA|SLC22A23_uc003mvn.3_Missense_Mutation_p.D187N|SLC22A23_uc003mvo.3_Missense_Mutation_p.D187N|SLC22A23_uc003mvp.1_RNA|SLC22A23_uc010jnn.2_Missense_Mutation_p.D468N|SLC22A23_uc003mvq.1_RNA	NM_015482	NP_056297	A1A5C7	S22AN_HUMAN	solute carrier family 22, member 23 isoform a	468	Helical; (Potential).				ion transport	integral to membrane	transmembrane transporter activity			ovary(1)	1	Ovarian(93;0.0493)	all_hematologic(90;0.0905)				GTATAGTAGTCAGCATAGAAG	0.612													13	27	---	---	---	---	PASS	T	3287237	T	T	3287237	3	4	1	1	0	0	0	0	1	0	0	0	14452	826	29	2	674	2	SLC22A23	6	3287237	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08		3287237	167827830	96	96										
HIST1H4H	8365	broad.mit.edu	37	chr6	26285637	26285637	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcgccggatagctggcttagTgatgccctggatgttatcgc	14	10	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:26285637T>C	uc003nhm.2	-	1	91	c.91A>G	c.(91-93)ACT>GCT	p.T31A	HIST1H4H_uc003nhl.1_RNA	NM_003543	NP_003534	P62805	H4_HUMAN	histone cluster 1, H4h	31					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						GCTGGCTTAGTGATGCCCTGG	0.532										HNSCC(76;0.23)			24	52	---	---	---	---	PASS	C	26285637	C	C	26285637	3	2	1	1	0	0	0	0	1	0	0	0	7172	1696	59	5	224	5	HIST1H4H	6	26285637	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	22998400	26285637	144829430	97	97										
HIST1H4I	8294	broad.mit.edu	37	chr6	27107140	27107140	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggggaaagggggtgccaagcGccaccgcaaggtgctgcgcg	19	11	0	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:27107140G>T	uc003niy.1	+	1	53	c.53G>T	c.(52-54)CGC>CTC	p.R18L	HIST1H2BK_uc003nix.1_Intron	NM_003495	NP_003486	P62805	H4_HUMAN	histone cluster 1, H4i	18					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			lung(1)	1						GGTGCCAAGCGCCACCGCAAG	0.607			T	BCL6	NHL								6	17	---	---	---	---	PASS	T	27107140	T	T	27107140	3	4	1	1	0	0	0	0	1	0	0	0	7173	1087	38	1	55	1	HIST1H4I	6	27107140	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	821503	27107140	144007927	98	98										
BAT4	7918	broad.mit.edu	37	chr6	31630476	31630476	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tctcgcagtactggagggagGgagtaggagacctgcagaga	17	7	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:31630476G>T	uc003nvn.2	-	3	1283	c.638C>A	c.(637-639)CCC>CAC	p.P213H	C6orf47_uc003nvm.1_5'Flank|BAT4_uc003nvo.3_Missense_Mutation_p.P213H|BAT4_uc003nvp.3_Missense_Mutation_p.P213H|BAT4_uc003nvq.2_Missense_Mutation_p.P213H	NM_033177	NP_149417	O95872	GPAN1_HUMAN	HLA-B associated transcript 4	213						intracellular	nucleic acid binding				0						CTGGAGGGAGGGAGTAGGAGA	0.557													6	109	---	---	---	---	PASS	T	31630476	T	T	31630476	3	4	1	1	0	0	0	0	1	0	0	0	1323	1232	43	3	436	3	BAT4	6	31630476	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	4523336	31630476	139484591	99	99										
EHMT2	10919	broad.mit.edu	37	chr6	31864517	31864517	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cagtgacagaggctggagatGaggggccagcaggctccagg	18	9	0	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:31864517G>T	uc003nxz.1	-	3	204	c.194C>A	c.(193-195)TCA>TAA	p.S65*	EHMT2_uc003nxy.1_5'UTR|EHMT2_uc011don.1_Nonsense_Mutation_p.S122*|EHMT2_uc003nya.1_Nonsense_Mutation_p.S65*|EHMT2_uc003nyb.1_Nonsense_Mutation_p.S65*|C2_uc003nyc.2_5'Flank|C2_uc011doo.1_5'Flank	NM_006709	NP_006700	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	65					DNA methylation|peptidyl-lysine dimethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			ovary(1)	1						GGCTGGAGATGAGGGGCCAGC	0.577													5	69	---	---	---	---	PASS	T	31864517	T	T	31864517	4	4	1	1	0	0	0	0	0	1	0	0	4984	1294	45	2	3542	2	EHMT2	6	31864517	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	234041	31864517	139250550	100	100										
SKIV2L	6499	broad.mit.edu	37	chr6	31937152	31937152	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gaggaatttgtgggggagctGaattttgggctggttgaggt	19	2	0	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:31937152G>A	uc003nyn.1	+	27	3884	c.3495G>A	c.(3493-3495)CTG>CTA	p.L1165L	SKIV2L_uc011dou.1_Silent_p.L1007L|SKIV2L_uc011dov.1_Silent_p.L972L|STK19_uc003nyt.2_5'Flank|STK19_uc011dow.1_5'Flank|STK19_uc011dox.1_5'Flank|STK19_uc003nyv.2_5'Flank|STK19_uc003nyw.2_5'Flank|STK19_uc010jtn.1_5'Flank	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	1165						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						TGGGGGAGCTGAATTTTGGGC	0.582													7	31	---	---	---	---	PASS	A	31937152	A	A	31937152	2	1	1	1	0	0	0	0	0	0	0	1	14359	1277	45	2		2	SKIV2L	6	31937152	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	72635	31937152	139177915	101	101										
ATF6B	1388	broad.mit.edu	37	chr6	32088564	32088564	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gtacctgggggtggctggacGagggactgcagaaggactgt	19	7	0	1	rs140760727		TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:32088564G>T	uc003nzn.2	-	8	849	c.816C>A	c.(814-816)CTC>CTA	p.L272L	ATF6B_uc003nzm.1_5'Flank|ATF6B_uc003nzo.2_Silent_p.L269L|ATF6B_uc003nzp.1_5'Flank|ATF6B_uc011dpg.1_Silent_p.L206L|ATF6B_uc011dph.1_Silent_p.L272L	NM_004381	NP_004372	Q99941	ATF6B_HUMAN	activating transcription factor 6 beta isoform	272	Cytoplasmic (Potential).				response to unfolded protein|signal transduction	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GTGGCTGGACGAGGGACTGCA	0.408													6	152	---	---	---	---	PASS	T	32088564	T	T	32088564	2	4	1	1	0	0	0	0	0	0	0	1	1085	1045	37	2		2	ATF6B	6	32088564	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	151412	32088564	139026503	102	102										
RGL2	5863	broad.mit.edu	37	chr6	33262491	33262491	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctcatccttggaggctgcatCcagcatcacaaggtccttca	8	14	3	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:33262491C>G	uc003odv.2	-	11	1460	c.1327G>C	c.(1327-1329)GAT>CAT	p.D443H	RGL2_uc003odu.2_Missense_Mutation_p.D3H|RGL2_uc010jur.2_Missense_Mutation_p.D3H|RGL2_uc003odw.2_Missense_Mutation_p.D361H|RGL2_uc011drb.1_Missense_Mutation_p.D361H	NM_004761	NP_004752	O15211	RGL2_HUMAN	ral guanine nucleotide dissociation	443	Ras-GEF.				Ras protein signal transduction|regulation of small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity			skin(3)|lung(1)|breast(1)|pancreas(1)	6						GAGGCTGCATCCAGCATCACA	0.587													44	52	---	---	---	---	PASS	G	33262491	G	G	33262491	3	3	1	1	0	0	0	0	1	0	0	0	13277	855	30	2	1038	2	RGL2	6	33262491	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1173927	33262491	137852576	103	103										
KIF6	221458	broad.mit.edu	37	chr6	39330271	39330271	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctgctggtctggcatcagagGcacggccatgttttccgaga	13	11	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:39330271G>A	uc003oot.2	-	17	1980	c.1885C>T	c.(1885-1887)CCT>TCT	p.P629S	KIF6_uc003oos.2_Missense_Mutation_p.P80S|KIF6_uc010jwz.1_Missense_Mutation_p.P4S|KIF6_uc010jxa.1_Missense_Mutation_p.P420S|KIF6_uc011dua.1_Missense_Mutation_p.P612S|KIF6_uc010jxb.1_Missense_Mutation_p.P573S	NM_145027	NP_659464	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	629	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3						GGCATCAGAGGCACGGCCATG	0.517											OREG0017415	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	85	57	---	---	---	---	PASS	A	39330271	A	A	39330271	3	1	1	1	0	0	0	0	1	0	0	0	8308	1203	42	3	587	3	KIF6	6	39330271	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	6067780	39330271	131784796	104	104										
GPR116	221395	broad.mit.edu	37	chr6	46847578	46847578	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	catcacctggagtgatgttgTggatggtgagcttggacacc	14	8	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:46847578T>C	uc003oyo.3	-	9	1302	c.1013A>G	c.(1012-1014)CAC>CGC	p.H338R	GPR116_uc003oyp.3_Intron|GPR116_uc003oyq.3_Missense_Mutation_p.H338R|GPR116_uc010jzi.1_Missense_Mutation_p.H10R|GPR116_uc003oyr.2_Missense_Mutation_p.H338R	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	338	Ig-like 1.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			AGTGATGTTGTGGATGGTGAG	0.423													15	38	---	---	---	---	PASS	C	46847578	C	C	46847578	3	2	1	1	0	0	0	0	1	0	0	0	6633	1696	59	5	3079	5	GPR116	6	46847578	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	7517307	46847578	124267489	105	105										
PAQR8	85315	broad.mit.edu	37	chr6	52268164	52268164	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctcttccgggagccttacatCcgcaccggctaccgccccac	8	20	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:52268164C>T	uc003pao.3	+	2	327	c.153C>T	c.(151-153)ATC>ATT	p.I51I		NM_133367	NP_588608	Q8TEZ7	MPRB_HUMAN	progestin and adipoQ receptor family member	51	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding				0	Lung NSC(77;0.0875)					AGCCTTACATCCGCACCGGCT	0.602													6	12	---	---	---	---	PASS	T	52268164	T	T	52268164	2	4	1	1	0	0	0	0	0	0	0	1	11441	845	30	2		2	PAQR8	6	52268164	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	5420586	52268164	118846903	106	106										
C6orf167	253714	broad.mit.edu	37	chr6	97676876	97676876	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atcattaagcagtttttcatGggaaggatacaagcaatagc	9	6	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:97676876G>A	uc003ppb.2	-	14	2199	c.1933C>T	c.(1933-1935)CAT>TAT	p.H645Y	C6orf167_uc011eaf.1_Missense_Mutation_p.H605Y	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	645					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		AGTTTTTCATGGGAAGGATAC	0.423													21	73	---	---	---	---	PASS	A	97676876	A	A	97676876	3	1	1	1	0	0	0	0	1	0	0	0	2342	1348	47	3	1846	3	C6orf167	6	97676876	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	45408712	97676876	73438191	107	107										
MCHR2	84539	broad.mit.edu	37	chr6	100390823	100390823	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttcttaagttttcacaacttAccagagtacatcgtcagggg	8	9	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:100390823A>C	uc003pqh.1	-	4	902	c.587_splice	c.e4+1	p.W196_splice	MCHR2_uc003pqi.1_Splice_Site_p.W196_splice	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2							integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		TTCACAACTTACCAGAGTACA	0.413													21	31	---	---	---	---	PASS	C	100390823	C	C	100390823	5	2	1	1	0	0	0	0	0	0	1	0	9383	405	14	5	445	5	MCHR2	6	100390823	Splice_Site	SNP	A	TCGA-18-3406-01A-01D-0983-08	2713947	100390823	70724244	108	108										
SIM1	6492	broad.mit.edu	37	chr6	100838803	100838803	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ccttagctgtaatctgttctCttcttctttaatcatttgct	4	10	5	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:100838803C>A	uc003pqj.3	-	11	1942	c.1735G>T	c.(1735-1737)GAG>TAG	p.E579*	SIM1_uc010kcu.2_Nonsense_Mutation_p.E579*	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	579	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity	p.E579D(1)		ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		AATCTGTTCTCTTCTTCTTTA	0.443													5	77	---	---	---	---	PASS	A	100838803	A	A	100838803	4	1	1	1	0	0	0	0	0	1	0	0	14323	922	32	2	569	2	SIM1	6	100838803	Nonsense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	447980	100838803	70276264	109	109										
LAMA4	3910	broad.mit.edu	37	chr6	112506499	112506499	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atcgtgttctcagcattgttGatttgtatctttcttagggc	9	7	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:112506499G>C	uc003pvu.2	-	9	1326	c.1017C>G	c.(1015-1017)ATC>ATG	p.I339M	LAMA4_uc003pvv.2_Missense_Mutation_p.I332M|LAMA4_uc003pvt.2_Missense_Mutation_p.I332M	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	339	Potential.|Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CAGCATTGTTGATTTGTATCT	0.383													30	174	---	---	---	---	PASS	C	112506499	C	C	112506499	3	2	1	1	0	0	0	0	1	0	0	0	8608	1280	45	2	4578	2	LAMA4	6	112506499	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	11667696	112506499	58608568	110	110										
ROS1	6098	broad.mit.edu	37	chr6	117707019	117707019	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gaggctgttgttataccaatCcatgtctcaaaataaagtga	8	7	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:117707019C>T	uc003pxp.1	-	15	2330	c.2131G>A	c.(2131-2133)GAT>AAT	p.D711N	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	711	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TTATACCAATCCATGTCTCAA	0.378			T	GOPC|ROS1	glioblastoma|NSCLC								11	49	---	---	---	---	PASS	T	117707019	T	T	117707019	3	4	1	1	0	0	0	0	1	0	0	0	13531	855	30	2	5028	2	ROS1	6	117707019	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	5200520	117707019	53408048	111	111										
GPR126	57211	broad.mit.edu	37	chr6	142764490	142764490	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcagacagtgcttccatggaCaagtccttgtcaaaactggc	10	11	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:142764490C>T	uc010khc.2	+	26	4048	c.3637C>T	c.(3637-3639)CAA>TAA	p.Q1213*	GPR126_uc010khd.2_Nonsense_Mutation_p.Q1185*|GPR126_uc010khe.2_Silent_p.D1197D|GPR126_uc010khf.2_Silent_p.D1169D|GPR126_uc011edv.1_Silent_p.D257D	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	1213	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		CTTCCATGGACAAGTCCTTGT	0.438													29	250	---	---	---	---	PASS	T	142764490	T	T	142764490	4	4	1	1	0	0	0	0	0	1	0	0	6640	479	17	3	3739	3	GPR126	6	142764490	Nonsense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	25057471	142764490	28350577	112	112										
HIVEP2	3097	broad.mit.edu	37	chr6	143090845	143090845	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cctgatgggtttggattacaGgaactaatgcaccatgaagc	11	8	0	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:143090845G>T	uc003qjd.2	-	5	5774	c.5031C>A	c.(5029-5031)TCC>TCA	p.S1677S		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1677					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		TTGGATTACAGGAACTAATGC	0.433													7	126	---	---	---	---	PASS	T	143090845	T	T	143090845	2	4	1	1	0	0	0	0	0	0	0	1	7187	987	35	3		3	HIVEP2	6	143090845	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	326355	143090845	28024222	113	113										
ARID1B	57492	broad.mit.edu	37	chr6	157528347	157528347	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gaggtcttgagggataacacGttggtcacgttggccaacat	13	8	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:157528347G>T	uc003qqn.2	+	20	6170	c.6018G>T	c.(6016-6018)ACG>ACT	p.T2006T	ARID1B_uc003qqo.2_Silent_p.T1966T|ARID1B_uc003qqp.2_Silent_p.T1953T	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	2011					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		GGGATAACACGTTGGTCACGT	0.542													17	74	---	---	---	---	PASS	T	157528347	T	T	157528347	2	4	1	1	0	0	0	0	0	0	0	1	914	1132	40	1		1	ARID1B	6	157528347	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	14437502	157528347	13586720	114	114										
C6orf35	729515	broad.mit.edu	37	chr6	157743751	157743751	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	accaaccttattgaaccattCagggcttttctttttagcca	5	11	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:157743751C>G	uc003sih.3	-	2	438	c.175G>C	c.(175-177)GAA>CAA	p.E59Q		NM_018452	NP_060922	Q9NWH2	CF035_HUMAN	hypothetical protein LOC729515	59						integral to membrane					0						TTGAACCATTCAGGGCTTTTC	0.373													51	89	---	---	---	---	PASS	G	157743751	G	G	157743751	3	3	1	1	0	0	0	0	1	0	0	0	2363	835	29	2	262	2	C6orf35	6	157743751	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	215404	157743751	13371316	115	115										
MAS1	4142	broad.mit.edu	37	chr6	160328351	160328351	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gctacaacacgggcctctatCtgctgacggccattagtgtg	11	12	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:160328351C>T	uc003qsz.2	+	1	378	c.364C>T	c.(364-366)CTG>TTG	p.L122L		NM_002377	NP_002368	P04201	MAS_HUMAN	MAS1 oncogene	122	Helical; Name=3; (Potential).				anatomical structure morphogenesis|cell proliferation|protein kinase C signaling cascade	integral to plasma membrane	angiotensin type II receptor activity			ovary(2)|lung(2)	4		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.44e-18)|BRCA - Breast invasive adenocarcinoma(81;5.6e-06)		GGGCCTCTATCTGCTGACGGC	0.488													27	118	---	---	---	---	PASS	T	160328351	T	T	160328351	2	4	1	1	0	0	0	0	0	0	0	1	9320	912	32	2		2	MAS1	6	160328351	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	2584600	160328351	10786716	116	116										
SMOC2	64094	broad.mit.edu	37	chr6	169053880	169053880	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctgggcgtggcgaaagaggaCggcaaagcggacaccaagaa	16	9	0	2	rs151010390		TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr6:169053880C>G	uc003qws.1	+	11	1277	c.1257C>G	c.(1255-1257)GAC>GAG	p.D419E	SMOC2_uc003qwr.1_Missense_Mutation_p.D430E|SMOC2_uc011egu.1_Missense_Mutation_p.D96E	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	419	EF-hand 2.				signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		CGAAAGAGGACGGCAAAGCGG	0.527													9	54	---	---	---	---	PASS	G	169053880	G	G	169053880	3	3	1	1	0	0	0	0	1	0	0	0	14802	535	19	4	1332	4	SMOC2	6	169053880	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	8725529	169053880	2061187	117	117										
ANKMY2	57037	broad.mit.edu	37	chr7	16644386	16644386	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttttacttgctcccttttctCcacaggtagtgcaaaattcc	5	12	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:16644386C>A	uc003sti.2	-	8	1171	c.971G>T	c.(970-972)GGA>GTA	p.G324V	ANKMY2_uc010ktz.2_RNA	NM_020319	NP_064715	Q8IV38	ANKY2_HUMAN	ankyrin repeat and MYND domain containing 2	324	MYND-type.					cilium	zinc ion binding			central_nervous_system(1)	1	Lung NSC(10;0.103)|all_lung(11;0.204)			UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		TCCCTTTTCTCCACAGGTAGT	0.453													30	58	---	---	---	---	PASS	A	16644386	A	A	16644386	3	1	1	1	0	0	0	0	1	0	0	0	635	855	30	2	366	2	ANKMY2	7	16644386	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08		16644386	142494277	118	118										
DNAH11	8701	broad.mit.edu	37	chr7	21721271	21721271	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gatgtccatgccagagacgtGgtggcaaaacttatttctca	10	9	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:21721271G>T	uc003svc.2	+	31	5482	c.5451G>T	c.(5449-5451)GTG>GTT	p.V1817V		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1817	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CCAGAGACGTGGTGGCAAAAC	0.393									Kartagener_syndrome				5	101	---	---	---	---	PASS	T	21721271	T	T	21721271	2	4	1	1	0	0	0	0	0	0	0	1	4599	1335	47	3		3	DNAH11	7	21721271	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	5076885	21721271	137417392	119	119										
DNAH11	8701	broad.mit.edu	37	chr7	21805045	21805045	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cttgcccccatgtctccacaGatcattttgtgtttctctcc	5	15	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:21805045G>T	uc003svc.2	+	56	8993	c.8962_splice	c.e56-1	p.I2988_splice		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11						microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TGTCTCCACAGATCATTTTGT	0.483									Kartagener_syndrome				31	94	---	---	---	---	PASS	T	21805045	T	T	21805045	5	4	1	1	0	0	0	0	0	0	1	0	4599	956	33	2	9180	2	DNAH11	7	21805045	Splice_Site	SNP	G	TCGA-18-3406-01A-01D-0983-08	83774	21805045	137333618	120	120										
ADCY1	107	broad.mit.edu	37	chr7	45649987	45649987	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cttctgtccaggagcggctcCtcatgagcctcctgccccgg	11	17	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:45649987C>A	uc003tne.3	+	3	817	c.799C>A	c.(799-801)CTC>ATC	p.L267I	ADCY1_uc003tnd.2_Missense_Mutation_p.L42I	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	267	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GGAGCGGCTCCTCATGAGCCT	0.622													6	84	---	---	---	---	PASS	A	45649987	A	A	45649987	3	1	1	1	0	0	0	0	1	0	0	0	292	681	24	3	809	3	ADCY1	7	45649987	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	23844942	45649987	113488676	121	121										
SBDS	51119	broad.mit.edu	37	chr7	66453478	66453478	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cggaagcagcccgggtcaatCagacatacctgaaacattta	9	11	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:66453478C>G	uc003tvm.1	-	5	817	c.633G>C	c.(631-633)CTG>CTC	p.L211L		NM_016038	NP_057122	Q9Y3A5	SBDS_HUMAN	Shwachman-Bodian-Diamond syndrome protein	211					bone marrow development|bone mineralization|leukocyte chemotaxis|mature ribosome assembly|mitotic spindle stabilization|positive regulation of translation|ribosomal large subunit biogenesis|rRNA processing	cytoplasm|nucleolus|nucleoplasm|spindle pole	microtubule binding|ribosome binding|rRNA binding			ovary(1)	1						CCGGGTCAATCAGACATACCT	0.398			Gene Conversion			AML|MDS			Shwachman-Diamond_syndrome				8	40	---	---	---	---	PASS	G	66453478	G	G	66453478	2	3	1	1	0	0	0	0	0	0	0	1	13857	813	29	2		2	SBDS	7	66453478	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	20803491	66453478	92685185	122	122										
STYXL1	51657	broad.mit.edu	37	chr7	75634626	75634626	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atgggctttgattttcaagtCcttctgaatcttggggtcac	10	8	4	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:75634626C>T	uc003uej.3	-	6	723	c.550G>A	c.(550-552)GAC>AAC	p.D184N	STYXL1_uc003uef.2_5'UTR|STYXL1_uc011kgf.1_Missense_Mutation_p.D46N|STYXL1_uc011kgg.1_Missense_Mutation_p.D36N|STYXL1_uc003ueh.2_Missense_Mutation_p.D46N|STYXL1_uc003uek.3_Missense_Mutation_p.D88N|STYXL1_uc003uel.2_Missense_Mutation_p.D184N|STYXL1_uc003uem.2_Missense_Mutation_p.D184N|STYXL1_uc010ldg.1_RNA|STYXL1_uc010ldh.1_Missense_Mutation_p.D184N|STYXL1_uc003uen.1_Missense_Mutation_p.D184N	NM_016086	NP_057170	Q9Y6J8	STYL1_HUMAN	map kinase phosphatase-like protein MK-STYX	184	Tyrosine-protein phosphatase.				intracellular signal transduction|protein dephosphorylation	intracellular	protein binding|protein tyrosine/serine/threonine phosphatase activity				0						ATTTTCAAGTCCTTCTGAATC	0.393													11	38	---	---	---	---	PASS	T	75634626	T	T	75634626	3	4	1	1	0	0	0	0	1	0	0	0	15360	855	30	2	407	2	STYXL1	7	75634626	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	9181148	75634626	83504037	123	123										
SEMA3E	9723	broad.mit.edu	37	chr7	82997159	82997159	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aggacaaggcatcctgtgatGcctgtcctcctcatcgtcct	9	14	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:82997159G>A	uc003uhy.1	-	17	2537	c.2071C>T	c.(2071-2073)CAT>TAT	p.H691Y		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	691					axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				ATCCTGTGATGCCTGTCCTCC	0.483													10	58	---	---	---	---	PASS	A	82997159	A	A	82997159	3	1	1	1	0	0	0	0	1	0	0	0	14028	1319	46	3	260	3	SEMA3E	7	82997159	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	7362533	82997159	76141504	124	124										
GRM3	2913	broad.mit.edu	37	chr7	86468972	86468972	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atcctggaggccccaggcacCaggaggtatacccttgcaga	12	13	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:86468972C>T	uc003uid.2	+	4	3241	c.2142C>T	c.(2140-2142)ACC>ACT	p.T714T	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Silent_p.T586T|GRM3_uc010leh.2_Silent_p.T306T	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	714	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	CCCCAGGCACCAGGAGGTATA	0.498													11	47	---	---	---	---	PASS	T	86468972	T	T	86468972	2	4	1	1	0	0	0	0	0	0	0	1	6798	581	21	3		3	GRM3	7	86468972	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	3471813	86468972	72669691	125	125										
RUNDC3B	154661	broad.mit.edu	37	chr7	87459208	87459208	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tctaattttcaggtaaggaaGatactccctcattacttggc	7	9	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:87459208G>A	uc003ujb.2	+	12	1696	c.1285G>A	c.(1285-1287)GAT>AAT	p.D429N	RUNDC3B_uc011khe.1_Missense_Mutation_p.D412N|RUNDC3B_uc003ujc.2_Missense_Mutation_p.D363N|RUNDC3B_uc003ujd.2_Missense_Mutation_p.D285N	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	429										skin(1)	1	Esophageal squamous(14;0.00164)					AGGTAAGGAAGATACTCCCTC	0.323													5	99	---	---	---	---	PASS	A	87459208	A	A	87459208	3	1	1	1	0	0	0	0	1	0	0	0	13745	942	33	2	1331	2	RUNDC3B	7	87459208	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	990236	87459208	71679455	126	126										
AKAP9	10142	broad.mit.edu	37	chr7	91709170	91709170	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	caaaattctgtcaagataatCaaacaatttcatcagaacct	3	9	5	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:91709170C>T	uc003ulg.2	+	31	7948	c.7723C>T	c.(7723-7725)CAA>TAA	p.Q2575*	AKAP9_uc003ulf.2_Nonsense_Mutation_p.Q2567*|AKAP9_uc003uli.2_Nonsense_Mutation_p.Q2198*|AKAP9_uc003ulj.2_Nonsense_Mutation_p.Q345*	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2587	Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TCAAGATAATCAAACAATTTC	0.343			T	BRAF	papillary thyroid								13	79	---	---	---	---	PASS	T	91709170	T	T	91709170	4	4	1	1	0	0	0	0	0	1	0	0	459	827	29	2	7845	2	AKAP9	7	91709170	Nonsense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	4249962	91709170	67429493	127	127										
PON2	5445	broad.mit.edu	37	chr7	95034736	95034736	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aacttccttggagaacagacCcattgttggcataaactgta	8	9	0	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:95034736C>A	uc003unv.2	-	9	1092	c.971G>T	c.(970-972)GGG>GTG	p.G324V	PON2_uc003unu.2_Missense_Mutation_p.G312V|PON2_uc010lfk.2_RNA|PON2_uc003unw.2_Missense_Mutation_p.G237V	NM_000305	NP_000296	Q15165	PON2_HUMAN	paraoxonase 2 isoform 1	324					aromatic compound catabolic process	extracellular region|plasma membrane	arylesterase activity|identical protein binding|metal ion binding				0	all_cancers(62;9.35e-11)|all_epithelial(64;3.37e-09)		STAD - Stomach adenocarcinoma(171;0.0151)			GAGAACAGACCCATTGTTGGC	0.423													6	110	---	---	---	---	PASS	A	95034736	A	A	95034736	3	1	1	1	0	0	0	0	1	0	0	0	12249	623	22	3	97	3	PON2	7	95034736	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	3325566	95034736	64103927	128	128										
MUC17	140453	broad.mit.edu	37	chr7	100676099	100676099	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ccactccagtggccagttctGaggctagcaacctttcaaca	8	14	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:100676099G>C	uc003uxp.1	+	3	1455	c.1402G>C	c.(1402-1404)GAG>CAG	p.E468Q	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	468	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|5.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GGCCAGTTCTGAGGCTAGCAA	0.478													15	243	---	---	---	---	PASS	C	100676099	C	C	100676099	3	2	1	1	0	0	0	0	1	0	0	0	9974	1291	45	2	1412	2	MUC17	7	100676099	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	5641363	100676099	58462564	129	129										
GPR85	54329	broad.mit.edu	37	chr7	112724255	112724255	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gccctgaaggagcggtgttgGaaggtgcattgatcttcctc	14	9	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:112724255G>C	uc010ljv.2	-	2	1039	c.522C>G	c.(520-522)TTC>TTG	p.F174L	GPR85_uc003vgp.1_Missense_Mutation_p.F174L|GPR85_uc003vgq.2_Missense_Mutation_p.F174L|GPR85_uc010ljw.1_Missense_Mutation_p.F174L	NM_001146266	NP_001139738	P60893	GPR85_HUMAN	G protein-coupled receptor 85	174	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)	2						AGCGGTGTTGGAAGGTGCATT	0.478													18	44	---	---	---	---	PASS	C	112724255	C	C	112724255	3	2	1	1	0	0	0	0	1	0	0	0	6715	1165	41	2	594	2	GPR85	7	112724255	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	12048156	112724255	46414408	130	130										
ZC3HAV1	56829	broad.mit.edu	37	chr7	138764611	138764611	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tccaggatgtgaggctcttcCagttgggggctgatgttgaa	15	7	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:138764611C>A	uc003vun.2	-	4	1464	c.1076G>T	c.(1075-1077)TGG>TTG	p.W359L	ZC3HAV1_uc003vuo.2_5'Flank|ZC3HAV1_uc003vup.2_Missense_Mutation_p.W359L	NM_020119	NP_064504	Q7Z2W4	ZCCHV_HUMAN	zinc finger antiviral protein isoform 1	359					response to virus	cytoplasm|nucleus	NAD+ ADP-ribosyltransferase activity|RNA binding|zinc ion binding			ovary(1)	1						GAGGCTCTTCCAGTTGGGGGC	0.532													5	78	---	---	---	---	PASS	A	138764611	A	A	138764611	3	1	1	1	0	0	0	0	1	0	0	0	17572	595	21	3	1676	3	ZC3HAV1	7	138764611	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	26040356	138764611	20374052	131	131										
SSPO	23145	broad.mit.edu	37	chr7	149481129	149481129	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tggggctgctgtgggaccctGagggccagtgtgtgcccccc	17	13	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr7:149481129G>A	uc010lpk.2	+	18	2611	c.2611G>A	c.(2611-2613)GAG>AAG	p.E871K	SSPO_uc010lpl.1_Missense_Mutation_p.E206K	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	871	TIL 2.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GTGGGACCCTGAGGGCCAGTG	0.652													4	4	---	---	---	---	PASS	A	149481129	A	A	149481129	3	1	1	1	0	0	0	0	1	0	0	0	15188	1291	45	2	2679	2	SSPO	7	149481129	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	10716518	149481129	9657534	132	132										
SLC7A2	6542	broad.mit.edu	37	chr8	17409474	17409474	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atatgtcgtcgcagctggttCtctctgcgccttgtcaacaa	9	12	3	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr8:17409474C>G	uc011kyc.1	+	6	1203	c.1034C>G	c.(1033-1035)TCT>TGT	p.S345C	SLC7A2_uc011kyd.1_Missense_Mutation_p.S385C|SLC7A2_uc011kye.1_Missense_Mutation_p.S385C|SLC7A2_uc011kyf.1_Missense_Mutation_p.S345C	NM_001008539	NP_001008539	P52569	CTR2_HUMAN	solute carrier family 7, member 2 isoform 2	345	Helical; (Potential).				cellular amino acid metabolic process|ion transport	cytoplasm|integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity			ovary(2)|skin(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	L-Lysine(DB00123)|L-Ornithine(DB00129)	GCAGCTGGTTCTCTCTGCGCC	0.488													12	19	---	---	---	---	PASS	G	17409474	G	G	17409474	3	3	1	1	0	0	0	0	1	0	0	0	14697	913	32	2	1176	2	SLC7A2	8	17409474	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08		17409474	128954548	133	133										
FNTA	2339	broad.mit.edu	37	chr8	42932394	42932394	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gataatgagctgcagtatgtGgaccaacttctgaaagagga	12	6	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr8:42932394G>T	uc003xps.2	+	6	717	c.669G>T	c.(667-669)GTG>GTT	p.V223V	FNTA_uc003xpt.2_Silent_p.V132V|FNTA_uc003xpu.2_Silent_p.V156V|FNTA_uc003xpv.2_RNA	NM_002027	NP_002018	P49354	FNTA_HUMAN	farnesyltransferase, CAAX box, alpha isoform a	223	PFTA 4.				cellular component disassembly involved in apoptosis|positive regulation of deacetylase activity|positive regulation of tubulin deacetylation|protein farnesylation|protein geranylgeranylation|transforming growth factor beta receptor signaling pathway	cytosol|microtubule associated complex	alpha-tubulin binding|CAAX-protein geranylgeranyltransferase activity|microtubule binding|protein farnesyltransferase activity			ovary(1)	1	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			TGCAGTATGTGGACCAACTTC	0.328													4	51	---	---	---	---	PASS	T	42932394	T	T	42932394	2	4	1	1	0	0	0	0	0	0	0	1	5977	1335	47	3		3	FNTA	8	42932394	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	25522920	42932394	103431628	134	134										
RP1	6101	broad.mit.edu	37	chr8	55542765	55542765	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tcaagcttgcctcttagataTttgccaagttgagacctcct	7	11	2	2	rs145297510		TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr8:55542765T>A	uc003xsd.1	+	4	6471	c.6323T>A	c.(6322-6324)ATT>AAT	p.I2108N	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	2108					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CTCTTAGATATTTGCCAAGTT	0.348													10	32	---	---	---	---	PASS	A	55542765	A	A	55542765	3	1	1	1	0	0	0	0	1	0	0	0	13532	1493	52	5	6333	5	RP1	8	55542765	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	12610371	55542765	90821257	135	135										
CHD7	55636	broad.mit.edu	37	chr8	61736458	61736458	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atcactacatttgagatgatTttgactgattgtcctgagct	8	7	1	5			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr8:61736458T>A	uc003xue.2	+	13	3738	c.3261T>A	c.(3259-3261)ATT>ATA	p.I1087I	CHD7_uc003xuf.2_Silent_p.I200I	NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1087	Helicase ATP-binding.				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)			TTGAGATGATTTTGACTGATT	0.423													25	50	---	---	---	---	PASS	A	61736458	A	A	61736458	2	1	1	1	0	0	0	0	0	0	0	1	3330	1829	64	5		5	CHD7	8	61736458	Silent	SNP	T	TCGA-18-3406-01A-01D-0983-08	6193693	61736458	84627564	136	136										
ZFHX4	79776	broad.mit.edu	37	chr8	77766782	77766782	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gccctacatgatatttgaccCcaacaatccgctgatgactg	7	13	0	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr8:77766782C>G	uc003yav.2	+	10	7877	c.7490C>G	c.(7489-7491)CCC>CGC	p.P2497R	ZFHX4_uc003yau.1_Missense_Mutation_p.P2542R|ZFHX4_uc003yaw.1_Missense_Mutation_p.P2497R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2497						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATATTTGACCCCAACAATCCG	0.542										HNSCC(33;0.089)			21	111	---	---	---	---	PASS	G	77766782	G	G	77766782	3	3	1	1	0	0	0	0	1	0	0	0	17632	623	22	4	7659	4	ZFHX4	8	77766782	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	16030324	77766782	68597240	137	137										
IMPA1	3612	broad.mit.edu	37	chr8	82571595	82571595	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggctgccttaattaatcttcGtcgtctcgttgcaaaggtat	9	9	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr8:82571595G>A	uc003ych.2	-	9	952	c.825C>T	c.(823-825)GAC>GAT	p.D275D	IMPA1_uc011lfq.1_Silent_p.D334D|IMPA1_uc011lfr.1_3'UTR	NM_005536	NP_005527	P29218	IMPA1_HUMAN	inositol(myo)-1(or 4)-monophosphatase 1 isoform	275					inositol phosphate dephosphorylation|phosphatidylinositol biosynthetic process|signal transduction	cytoplasm	inositol-1(or 4)-monophosphatase activity|metal ion binding|protein homodimerization activity			skin(1)	1					Lithium(DB01356)	ATTAATCTTCGTCGTCTCGTT	0.373													6	48	---	---	---	---	PASS	A	82571595	A	A	82571595	2	1	1	1	0	0	0	0	0	0	0	1	7722	1136	40	1		1	IMPA1	8	82571595	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	4804813	82571595	63792427	138	138										
LRRCC1	85444	broad.mit.edu	37	chr8	86044014	86044014	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggaaggaacttgaaacaaggGagttttttactgatgctgac	12	5	0	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr8:86044014G>T	uc003ycw.2	+	12	1940	c.1786G>T	c.(1786-1788)GAG>TAG	p.E596*	LRRCC1_uc010lzz.1_RNA|LRRCC1_uc010maa.1_Nonsense_Mutation_p.E297*|LRRCC1_uc003ycx.2_Nonsense_Mutation_p.E503*|LRRCC1_uc003ycy.2_Nonsense_Mutation_p.E576*	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	596	Potential.				cell division|mitosis	centriole|nucleus					0						TGAAACAAGGGAGTTTTTTAC	0.333													5	32	---	---	---	---	PASS	T	86044014	T	T	86044014	4	4	1	1	0	0	0	0	0	1	0	0	9026	1175	41	2	1832	2	LRRCC1	8	86044014	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	3472419	86044014	60320008	139	139										
TMEM67	91147	broad.mit.edu	37	chr8	94792820	94792820	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tttgccattgttctgttgtaGgtatatgccaatctaacatc	7	8	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr8:94792820G>T	uc011lgk.1	+	8	786	c.715_splice	c.e8-1	p.V239_splice	TMEM67_uc010mat.1_Splice_Site_p.V154_splice|TMEM67_uc010maw.2_Intron|TMEM67_uc003yga.3_Splice_Site_p.V158_splice	NM_153704	NP_714915	Q5HYA8	MKS3_HUMAN	meckelin isoform 1						cilium assembly|ER-associated protein catabolic process|negative regulation of centrosome duplication	centrosome|cilium membrane|cytoplasmic vesicle membrane|endoplasmic reticulum membrane|integral to membrane|microtubule basal body	unfolded protein binding			ovary(2)	2	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.00896)			TTCTGTTGTAGGTATATGCCA	0.323													6	149	---	---	---	---	PASS	T	94792820	T	T	94792820	5	4	1	1	0	0	0	0	0	0	1	0	16193	1014	35	3	882	3	TMEM67	8	94792820	Splice_Site	SNP	G	TCGA-18-3406-01A-01D-0983-08	8748806	94792820	51571202	140	140										
SLC30A8	169026	broad.mit.edu	37	chr8	118184913	118184913	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ccttttctgtgaagacccctGtgactagctcagtcacaccg	8	14	3	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr8:118184913G>A	uc003yoh.2	+	8	1333	c.1103G>A	c.(1102-1104)TGT>TAT	p.C368Y	SLC30A8_uc010mcz.2_Missense_Mutation_p.C319Y|SLC30A8_uc011lia.1_Missense_Mutation_p.C319Y|SLC30A8_uc003yog.2_Missense_Mutation_p.C319Y	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	368	Cytoplasmic (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			GAAGACCCCTGTGACTAGCTC	0.473													41	96	---	---	---	---	PASS	A	118184913	A	A	118184913	3	1	1	1	0	0	0	0	1	0	0	0	14561	1377	48	3	1133	3	SLC30A8	8	118184913	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	23392093	118184913	28179109	141	141										
BAI1	575	broad.mit.edu	37	chr8	143624969	143624969	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	accccgcctgcagaagatcaTgcacacccggaagcggcacc	10	17	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr8:143624969T>A	uc003ywm.2	+	29	4640	c.4457T>A	c.(4456-4458)ATG>AAG	p.M1486K		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1486	Cytoplasmic (Potential).|Necessary for interaction with MAGI1.				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CAGAAGATCATGCACACCCGG	0.677													3	8	---	---	---	---	PASS	A	143624969	A	A	143624969	3	1	1	1	0	0	0	0	1	0	0	0	1298	1464	51	5	4571	5	BAI1	8	143624969	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	25440056	143624969	2739053	142	142										
RPS6	6194	broad.mit.edu	37	chr9	19376297	19376297	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttactcaaaaaatcttatttCtgactggattcagacttaga	5	7	4	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr9:19376297C>A	uc003znv.1	-	6	786	c.744G>T	c.(742-744)CAG>CAT	p.Q248H	RPS6_uc003znu.1_Missense_Mutation_p.Q217H	NM_001010	NP_001001	P62753	RS6_HUMAN	ribosomal protein S6	248					endocrine pancreas development|glucose homeostasis|insulin receptor signaling pathway|positive regulation of apoptosis|rRNA processing|TOR signaling cascade|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding			ovary(1)	1		Colorectal(97;3.46e-05)|Myeloproliferative disorder(762;0.0255)		Lung(42;0.161)|LUSC - Lung squamous cell carcinoma(42;0.234)		AATCTTATTTCTGACTGGATT	0.383													19	53	---	---	---	---	PASS	A	19376297	A	A	19376297	3	1	1	1	0	0	0	0	1	0	0	0	13649	912	32	2	9	2	RPS6	9	19376297	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08		19376297	121837134	143	143										
TOPORS	10210	broad.mit.edu	37	chr9	32542506	32542506	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tttaccatgatcactgctacGagaccttgatctgcttgtgc	8	11	2	3	rs140126403		TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr9:32542506G>T	uc003zrb.2	-	3	2184	c.2017C>A	c.(2017-2019)CGT>AGT	p.R673S	TOPORS_uc003zrc.2_Missense_Mutation_p.R606S	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	673	Interaction with TOP1.|Arg-rich.|Interaction with p53/TP53.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		TCACTGCTACGAGACCTTGAT	0.378													6	249	---	---	---	---	PASS	T	32542506	T	T	32542506	3	4	1	1	0	0	0	0	1	0	0	0	16367	1058	37	2	1124	2	TOPORS	9	32542506	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	13166209	32542506	108670925	144	144										
NFX1	4799	broad.mit.edu	37	chr9	33318767	33318767	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cctcccgagatgtgttatgtGgaaccgatgtaggaaagtct	12	8	1	1	rs142065044		TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr9:33318767G>T	uc003zsq.2	+	8	1688	c.1627G>T	c.(1627-1629)GGA>TGA	p.G543*	SUGT1P1_uc010mjq.1_Intron|NFX1_uc011lnw.1_Nonsense_Mutation_p.G543*|NFX1_uc003zso.2_Nonsense_Mutation_p.G543*|NFX1_uc003zsp.1_Nonsense_Mutation_p.G543*|NFX1_uc010mjr.1_Nonsense_Mutation_p.G543*|NFX1_uc003zsr.2_Nonsense_Mutation_p.G543*	NM_002504	NP_002495	Q12986	NFX1_HUMAN	nuclear transcription factor, X-box binding 1	543					inflammatory response|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|ligase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)	GBM - Glioblastoma multiforme(74;0.224)		TGTGTTATGTGGAACCGATGT	0.383													6	185	---	---	---	---	PASS	T	33318767	T	T	33318767	4	4	1	1	0	0	0	0	0	1	0	0	10387	1349	47	3	1657	3	NFX1	9	33318767	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	776261	33318767	107894664	145	145										
PRSS3	5646	broad.mit.edu	37	chr9	33797929	33797929	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cgccaccctaaatacaacagGgacactctggacaatgacat	7	13	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr9:33797929G>T	uc003ztj.3	+	3	474	c.474G>T	c.(472-474)AGG>AGT	p.R158S	uc003ztk.1_Intron|PRSS3_uc003zti.3_Missense_Mutation_p.R115S|PRSS3_uc003ztl.3_Missense_Mutation_p.R101S	NM_007343	NP_031369	P35030	TRY3_HUMAN	mesotrypsin isoform 1 preproprotein	158	Peptidase S1.				digestion|endothelial cell migration|zymogen activation	extracellular space	calcium ion binding|protein binding|serine-type endopeptidase activity|serine-type peptidase activity				0			LUSC - Lung squamous cell carcinoma(29;0.0176)			AATACAACAGGGACACTCTGG	0.547													6	157	---	---	---	---	PASS	T	33797929	T	T	33797929	3	4	1	1	0	0	0	0	1	0	0	0	12622	1223	43	3	528	3	PRSS3	9	33797929	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	479162	33797929	107415502	146	146										
C9orf79	286234	broad.mit.edu	37	chr9	90501472	90501472	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcagggaagggcaggaaggaTgtgcagaagaccgggttcag	19	6	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr9:90501472T>C	uc004app.3	+	4	2105	c.2070T>C	c.(2068-2070)GAT>GAC	p.D690D	C9orf79_uc004apo.1_Silent_p.D502D	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	690						integral to membrane				ovary(3)	3						GCAGGAAGGATGTGCAGAAGA	0.607													12	50	---	---	---	---	PASS	C	90501472	C	C	90501472	2	2	1	1	0	0	0	0	0	0	0	1	2497	1461	51	5		5	C9orf79	9	90501472	Silent	SNP	T	TCGA-18-3406-01A-01D-0983-08	56703543	90501472	50711959	147	147										
ABCA2	20	broad.mit.edu	37	chr9	139916916	139916916	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gtttctggccaccgagtccaGagagaaggaagacactggac	13	10	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr9:139916916G>C	uc011mem.1	-	5	599	c.451C>G	c.(451-453)CTG>GTG	p.L151V	ABCA2_uc011mel.1_Missense_Mutation_p.L152V|ABCA2_uc004ckl.1_Missense_Mutation_p.L82V|ABCA2_uc004ckm.1_Missense_Mutation_p.L182V|ABCA2_uc004cko.1_5'UTR|ABCA2_uc010nca.2_Missense_Mutation_p.L82V	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	151					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		ACCGAGTCCAGAGAGAAGGAA	0.637													5	6	---	---	---	---	PASS	C	139916916	C	C	139916916	3	2	1	1	0	0	0	0	1	0	0	0	32	933	33	2	7032	2	ABCA2	9	139916916	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	49415444	139916916	1296515	148	148										
IPMK	253430	broad.mit.edu	37	chr10	59956140	59956140	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttcctgtgacgcgcatacatCttggacaagcttttgcccac	8	13	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr10:59956140C>G	uc001jkb.2	-	6	1271	c.948G>C	c.(946-948)AAG>AAC	p.K316N		NM_152230	NP_689416	Q8NFU5	IPMK_HUMAN	inositol polyphosphate multikinase	316						nucleus	ATP binding|inositol trisphosphate 6-kinase activity			ovary(1)	1						GCGCATACATCTTGGACAAGC	0.378													24	50	---	---	---	---	PASS	G	59956140	G	G	59956140	3	3	1	1	0	0	0	0	1	0	0	0	7792	912	32	2	306	2	IPMK	10	59956140	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08		59956140	75578607	149	149										
CCAR1	55749	broad.mit.edu	37	chr10	70513624	70513624	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttcagtcccagttgtgacatGatggaactaaggcgccgtta	11	9	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr10:70513624G>C	uc001joo.2	+	11	1253	c.1134G>C	c.(1132-1134)ATG>ATC	p.M378I	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Missense_Mutation_p.M183I|CCAR1_uc009xpx.1_Missense_Mutation_p.M352I|CCAR1_uc001jon.1_Missense_Mutation_p.M324I|CCAR1_uc010qiz.1_Missense_Mutation_p.M363I|CCAR1_uc010qja.1_Missense_Mutation_p.M363I|CCAR1_uc010qjb.1_RNA|SNORD98_uc001jop.1_5'Flank	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	378					apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						GTTGTGACATGATGGAACTAA	0.343													23	57	---	---	---	---	PASS	C	70513624	C	C	70513624	3	2	1	1	0	0	0	0	1	0	0	0	2730	1290	45	2	1172	2	CCAR1	10	70513624	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	10557484	70513624	65021123	150	150										
KIAA1279	26128	broad.mit.edu	37	chr10	70775423	70775423	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gaaccggtgaactgtgtgatGccatctctgcagtagaagag	13	8	1	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr10:70775423G>A	uc001joy.2	+	7	1213	c.1117G>A	c.(1117-1119)GCC>ACC	p.A373T		NM_015634	NP_056449	Q96EK5	KBP_HUMAN	KIF1 binding protein	373					cell differentiation|mitochondrial transport|nervous system development	mitochondrion	kinesin binding			ovary(1)	1						ACTGTGTGATGCCATCTCTGC	0.413													20	72	---	---	---	---	PASS	A	70775423	A	A	70775423	3	1	1	1	0	0	0	0	1	0	0	0	8221	1319	46	3	1143	3	KIAA1279	10	70775423	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	261799	70775423	64759324	151	151										
MMRN2	79812	broad.mit.edu	37	chr10	88703344	88703344	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gtcagggtggccctcatgtcCtccagggtgtactgcaactc	12	13	2	0	rs140752811		TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr10:88703344C>T	uc001kea.2	-	6	1324	c.1197G>A	c.(1195-1197)GAG>GAA	p.E399E	MMRN2_uc010qmn.1_Silent_p.E42E|MMRN2_uc009xtb.2_Silent_p.E356E	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	399	Potential.					extracellular space				large_intestine(1)	1						CCCTCATGTCCTCCAGGGTGT	0.617													16	49	---	---	---	---	PASS	T	88703344	T	T	88703344	2	4	1	1	0	0	0	0	0	0	0	1	9671	680	24	3		3	MMRN2	10	88703344	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	17927921	88703344	46831403	152	152										
PIK3AP1	118788	broad.mit.edu	37	chr10	98469674	98469674	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tggacaggaacagggtctgcAggtactggcaccattcctcg	13	11	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr10:98469674A>T	uc001kmq.2	-	2	208	c.80T>A	c.(79-81)CTG>CAG	p.L27Q		NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	27						cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		CAGGGTCTGCAGGTACTGGCA	0.597													5	21	---	---	---	---	PASS	T	98469674	T	T	98469674	3	4	1	1	0	0	0	0	1	0	0	0	11908	188	7	5	2401	5	PIK3AP1	10	98469674	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	9766330	98469674	37065073	153	153										
RRP12	23223	broad.mit.edu	37	chr10	99126316	99126316	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcttccgctgctccttgcctCggcttctttcctcctcctca	6	19	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr10:99126316C>A	uc001knf.2	-	28	3417	c.3278G>T	c.(3277-3279)CGA>CTA	p.R1093L	RRP12_uc001kne.2_Missense_Mutation_p.R108L|RRP12_uc009xvl.2_Missense_Mutation_p.R210L|RRP12_uc009xvm.2_Missense_Mutation_p.R811L|RRP12_uc010qou.1_Missense_Mutation_p.R1032L|RRP12_uc009xvn.2_Missense_Mutation_p.R993L	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	1093						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		CTCCTTGCCTCGGCTTCTTTC	0.592													4	68	---	---	---	---	PASS	A	99126316	A	A	99126316	3	1	1	1	0	0	0	0	1	0	0	0	13686	884	31	2	643	2	RRP12	10	99126316	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	656642	99126316	36408431	154	154										
GBF1	8729	broad.mit.edu	37	chr10	104129063	104129063	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcccatcgtcatggtgacatCctgcgggagggctggaagaa	15	10	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr10:104129063C>A	uc001kux.1	+	24	3306	c.3066C>A	c.(3064-3066)ATC>ATA	p.I1022I	GBF1_uc001kuy.1_Silent_p.I1022I|GBF1_uc001kuz.1_Silent_p.I1023I	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1022					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		ATGGTGACATCCTGCGGGAGG	0.502													9	75	---	---	---	---	PASS	A	104129063	A	A	104129063	2	1	1	1	0	0	0	0	0	0	0	1	6271	845	30	2		2	GBF1	10	104129063	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	5002747	104129063	31405684	155	155										
C10orf88	80007	broad.mit.edu	37	chr10	124712423	124712423	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctaagtacacttccatatttCttgctgaacttaaaatgcca	4	10	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr10:124712423C>G	uc001lgw.2	-	2	515	c.290G>C	c.(289-291)AGA>ACA	p.R97T	C10orf88_uc001lgx.2_5'UTR	NM_024942	NP_079218	Q9H8K7	CJ088_HUMAN	hypothetical protein LOC80007	97											0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)		TTCCATATTTCTTGCTGAACT	0.453													6	79	---	---	---	---	PASS	G	124712423	G	G	124712423	3	3	1	1	0	0	0	0	1	0	0	0	1622	913	32	2	1067	2	C10orf88	10	124712423	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	20583360	124712423	10822324	156	156										
BUB3	9184	broad.mit.edu	37	chr10	124915190	124915190	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ataggatccaacgcatgcctGgagtggaggactagatcatc	12	9	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr10:124915190G>T	uc001lhe.2	+	3	454	c.212G>T	c.(211-213)TGG>TTG	p.W71L	BUB3_uc009yah.2_Missense_Mutation_p.W23L|BUB3_uc001lhf.3_Missense_Mutation_p.W71L|BUB3_uc001lhd.2_Missense_Mutation_p.W71L|BUB3_uc010qud.1_5'UTR	NM_004725	NP_004716	O43684	BUB3_HUMAN	budding uninhibited by benzimidazoles 3 isoform	71	WD 2.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|attachment of spindle microtubules to kinetochore|cell division|meiosis|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	condensed chromosome kinetochore|cytosol|nucleus	protein binding			ovary(1)	1		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)				ACGCATGCCTGGAGTGGAGGA	0.353													4	41	---	---	---	---	PASS	T	124915190	T	T	124915190	3	4	1	1	0	0	0	0	1	0	0	0	1572	1357	47	3	218	3	BUB3	10	124915190	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	202767	124915190	10619557	157	157										
MKI67	4288	broad.mit.edu	37	chr10	129903515	129903515	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgtctggaagagctctttcaAgccagccaagtcttctaggg	11	10	5	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr10:129903515A>C	uc001lke.2	-	13	6784	c.6589T>G	c.(6589-6591)TTG>GTG	p.L2197V	MKI67_uc001lkf.2_Missense_Mutation_p.L1837V|MKI67_uc009yav.1_Missense_Mutation_p.L1772V|MKI67_uc009yaw.1_Missense_Mutation_p.L1347V	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2197	16 X 122 AA approximate repeats.|10.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				AGCTCTTTCAAGCCAGCCAAG	0.502													24	108	---	---	---	---	PASS	C	129903515	C	C	129903515	3	2	1	1	0	0	0	0	1	0	0	0	9598	69	3	5	3193	5	MKI67	10	129903515	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	4988325	129903515	5631232	158	158										
PHRF1	57661	broad.mit.edu	37	chr11	611692	611692	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggtggccaacctggtgaaggCgtacgtggacaagtacaggc	16	9	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:611692C>G	uc001lqe.2	+	18	4996	c.4865C>G	c.(4864-4866)GCG>GGG	p.A1622G	PHRF1_uc010qwc.1_Missense_Mutation_p.A1621G|PHRF1_uc010qwd.1_Missense_Mutation_p.A1620G|PHRF1_uc010qwe.1_Missense_Mutation_p.A1618G|PHRF1_uc009yca.1_RNA	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	1622							RNA polymerase binding|zinc ion binding				0						CTGGTGAAGGCGTACGTGGAC	0.602													15	26	---	---	---	---	PASS	G	611692	G	G	611692	3	3	1	1	0	0	0	0	1	0	0	0	11861	768	27	4	4928	4	PHRF1	11	611692	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08		611692	134394824	159	159										
MUC5B	727897	broad.mit.edu	37	chr11	1266003	1266003	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gggacggcacgcacgcttccAgtgtggatcagcacaaccac	12	14	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:1266003A>T	uc009ycr.1	+	48	9933	c.9807A>T	c.(9805-9807)CCA>CCT	p.P3269P	MUC5B_uc001ltb.2_Silent_p.P2634P	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2631	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GCACGCTTCCAGTGTGGATCA	0.637													11	56	---	---	---	---	PASS	T	1266003	T	T	1266003	2	4	1	1	0	0	0	0	0	0	0	1	9979	175	7	5		5	MUC5B	11	1266003	Silent	SNP	A	TCGA-18-3406-01A-01D-0983-08	654311	1266003	133740513	160	160										
TOLLIP	54472	broad.mit.edu	37	chr11	1311618	1311618	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggggtccatgcgggtcatgcCgtaattcttggccaactttg	13	10	2	0	rs143130045		TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:1311618C>T	uc001lte.2	-	3	316	c.205G>A	c.(205-207)GGC>AGC	p.G69S	TOLLIP_uc001ltd.2_5'UTR|TOLLIP_uc009ycu.2_Intron|TOLLIP_uc001ltf.2_Missense_Mutation_p.G19S	NM_019009	NP_061882	Q9H0E2	TOLIP_HUMAN	toll interacting protein	69	C2.				cell-cell signaling|inflammatory response|innate immune response|intracellular signal transduction|leukocyte activation|phosphorylation	cytosol|interleukin-1 receptor complex|interleukin-18 receptor complex	kinase binding|signal transducer activity|Toll-like receptor binding				0		all_cancers(49;7.62e-05)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0256)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		BRCA - Breast invasive adenocarcinoma(625;0.00152)|Lung(200;0.09)|LUSC - Lung squamous cell carcinoma(625;0.107)		CGGGTCATGCCGTAATTCTTG	0.592													7	17	---	---	---	---	PASS	T	1311618	T	T	1311618	3	4	1	1	0	0	0	0	1	0	0	0	16347	652	23	1	635	1	TOLLIP	11	1311618	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	45615	1311618	133694898	161	161										
NUP98	4928	broad.mit.edu	37	chr11	3727819	3727819	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	accatgtcactgtccagttcCacaaccctccctaactgctc	4	18	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:3727819C>A	uc001lyh.2	-	21	3072	c.2781G>T	c.(2779-2781)GTG>GTT	p.V927V	NUP98_uc001lyi.2_Silent_p.V927V|NUP98_uc001lyg.2_5'UTR	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	944					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		TGTCCAGTTCCACAACCCTCC	0.468			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								6	125	---	---	---	---	PASS	A	3727819	A	A	3727819	2	1	1	1	0	0	0	0	0	0	0	1	10773	581	21	3		3	NUP98	11	3727819	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	2416201	3727819	131278697	162	162										
OR51G2	81282	broad.mit.edu	37	chr11	4936660	4936660	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gtagggagagtgcaaagggaGagacccaggtcaatcagagc	16	7	2	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:4936660G>A	uc001lzr.1	-	1	234	c.234C>T	c.(232-234)CTC>CTT	p.L78L		NM_001005238	NP_001005238	Q8NGK0	O51G2_HUMAN	olfactory receptor, family 51, subfamily G,	78	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		TGCAAAGGGAGAGACCCAGGT	0.473													5	48	---	---	---	---	PASS	A	4936660	A	A	4936660	2	1	1	1	0	0	0	0	0	0	0	1	11099	929	33	2		2	OR51G2	11	4936660	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	1208841	4936660	130069856	163	163										
HBE1	3046	broad.mit.edu	37	chr11	5289729	5289729	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttatgggccagggcaatggcGacagcagacaccagcttctg	13	11	1	1	rs145809569	by1000genomes	TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:5289729G>C	uc001mal.1	-	3	667	c.414C>G	c.(412-414)GTC>GTG	p.V138V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Silent_p.V138V	NM_005330	NP_005321	P02100	HBE_HUMAN	epsilon globin	138					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.34e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGGCAATGGCGACAGCAGACA	0.557													4	143	---	---	---	---	PASS	C	5289729	C	C	5289729	2	2	1	1	0	0	0	0	0	0	0	1	6980	1045	37	2		2	HBE1	11	5289729	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	353069	5289729	129716787	164	164										
OR51B2	79345	broad.mit.edu	37	chr11	5344621	5344621	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cctatgtttagataaaaggcGgataatgccatattgtattt	8	5	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:5344621G>T	uc001mao.1	-	1	962	c.907C>A	c.(907-909)CGC>AGC	p.R303S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GATAAAAGGCGGATAATGCCA	0.368													12	29	---	---	---	---	PASS	T	5344621	T	T	5344621	3	4	1	1	0	0	0	0	1	0	0	0	11089	1116	39	1	35	1	OR51B2	11	5344621	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	54892	5344621	129661895	165	165										
OR51B2	79345	broad.mit.edu	37	chr11	5344990	5344990	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	agccagtctcatgatttcttGgtggaggcagaaagcacgtg	13	8	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:5344990G>T	uc001mao.1	-	1	593	c.538C>A	c.(538-540)CAA>AAA	p.Q180K	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATGATTTCTTGGTGGAGGCAG	0.378													4	53	---	---	---	---	PASS	T	5344990	T	T	5344990	3	4	1	1	0	0	0	0	1	0	0	0	11089	1357	47	3	404	3	OR51B2	11	5344990	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	369	5344990	129661526	166	166										
OR51Q1	390061	broad.mit.edu	37	chr11	5444070	5444070	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tcattattatcgtggatcctCtgctcattgtgatctcctat	6	10	4	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:5444070C>G	uc010qzd.1	+	1	640	c.640C>G	c.(640-642)CTG>GTG	p.L214V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	214	Helical; Name=5; (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;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CGTGGATCCTCTGCTCATTGT	0.498													17	61	---	---	---	---	PASS	G	5444070	G	G	5444070	3	3	1	1	0	0	0	0	1	0	0	0	11104	912	32	2	642	2	OR51Q1	11	5444070	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	99080	5444070	129562446	167	167										
OR52E4	390081	broad.mit.edu	37	chr11	5905886	5905886	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttctgttggtggtcatggctTatgaccgctttgttgccatc	11	9	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:5905886T>A	uc010qzs.1	+	1	364	c.364T>A	c.(364-366)TAT>AAT	p.Y122N	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	122	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGTCATGGCTTATGACCGCTT	0.448													7	67	---	---	---	---	PASS	A	5905886	A	A	5905886	3	1	1	1	0	0	0	0	1	0	0	0	11116	1754	61	5	366	5	OR52E4	11	5905886	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	461816	5905886	129100630	168	168										
OR52E4	390081	broad.mit.edu	37	chr11	5906038	5906038	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctgcgtctgccattctgtggGcataacatcgtacctcacac	8	14	3	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:5906038G>T	uc010qzs.1	+	1	516	c.516G>T	c.(514-516)GGG>GGT	p.G172G	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	172	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CATTCTGTGGGCATAACATCG	0.453													13	61	---	---	---	---	PASS	T	5906038	T	T	5906038	2	4	1	1	0	0	0	0	0	0	0	1	11116	1190	42	3		3	OR52E4	11	5906038	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	152	5906038	129100478	169	169										
CNGA4	1262	broad.mit.edu	37	chr11	6262865	6262865	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	acctactcaccaggtgaataTgtatgccgcaaaggagacat	9	10	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:6262865T>A	uc001mco.2	+	5	1229	c.1122T>A	c.(1120-1122)TAT>TAA	p.Y374*	CNGA4_uc010raa.1_Nonsense_Mutation_p.Y143*|CNGA4_uc001mcn.2_Nonsense_Mutation_p.Y334*	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	374	cNMP.|Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAGGTGAATATGTATGCCGCA	0.557													60	128	---	---	---	---	PASS	A	6262865	A	A	6262865	4	1	1	1	0	0	0	0	0	1	0	0	3599	1471	51	5	1140	5	CNGA4	11	6262865	Nonsense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	356827	6262865	128743651	170	170										
DCHS1	8642	broad.mit.edu	37	chr11	6643179	6643179	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tggcagctgaggacagggagCcttcatggctgatgggggag	19	7	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:6643179C>T	uc001mem.1	-	21	10138	c.9728G>A	c.(9727-9729)GGC>GAC	p.G3243D	TPP1_uc001mek.1_5'Flank|TPP1_uc001mel.1_5'Flank|TPP1_uc010rar.1_5'Flank	NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	3243	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGACAGGGAGCCTTCATGGCT	0.637													7	13	---	---	---	---	PASS	T	6643179	T	T	6643179	3	4	1	1	0	0	0	0	1	0	0	0	4287	739	26	3	172	3	DCHS1	11	6643179	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	380314	6643179	128363337	171	171										
EIF4G2	1982	broad.mit.edu	37	chr11	10822354	10822354	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcttttcctggataagcggtGgattagttttgagaccaagc	12	7	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:10822354G>T	uc001mjc.2	-	16	1985	c.1568C>A	c.(1567-1569)CCA>CAA	p.P523Q	EIF4G2_uc001mjb.2_Missense_Mutation_p.P317Q|EIF4G2_uc009ygf.2_Missense_Mutation_p.P317Q|EIF4G2_uc001mjd.2_Missense_Mutation_p.P485Q	NM_001418	NP_001409	P78344	IF4G2_HUMAN	eukaryotic translation initiation factor 4	523					cell cycle arrest|cell death|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		GATAAGCGGTGGATTAGTTTT	0.383													5	53	---	---	---	---	PASS	T	10822354	T	T	10822354	3	4	1	1	0	0	0	0	1	0	0	0	5037	1348	47	3	1183	3	EIF4G2	11	10822354	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	4179175	10822354	124184162	172	172										
USP47	55031	broad.mit.edu	37	chr11	11970068	11970068	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	acttaaaaaaggagaatacaGagttaaagtataccagcttt	7	5	0	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:11970068G>C	uc001mjs.2	+	22	4074	c.3311G>C	c.(3310-3312)AGA>ACA	p.R1104T	USP47_uc001mjr.2_Missense_Mutation_p.R1036T|USP47_uc009ygi.2_5'Flank	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	1124					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		GGAGAATACAGAGTTAAAGTA	0.299													3	58	---	---	---	---	PASS	C	11970068	C	C	11970068	3	2	1	1	0	0	0	0	1	0	0	0	17075	942	33	2	3189	2	USP47	11	11970068	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	1147714	11970068	123036448	173	173										
NELL1	4745	broad.mit.edu	37	chr11	20907010	20907010	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gatttatgagcgtgtgatagAccctccagataccaaccttc	8	11	0	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:20907010A>G	uc001mqe.2	+	5	680	c.527A>G	c.(526-528)GAC>GGC	p.D176G	NELL1_uc001mqf.2_Missense_Mutation_p.D176G|NELL1_uc009yid.2_Missense_Mutation_p.D204G|NELL1_uc010rdo.1_Missense_Mutation_p.D119G|NELL1_uc010rdp.1_Intron	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	176	TSP N-terminal.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						CGTGTGATAGACCCTCCAGAT	0.418													8	25	---	---	---	---	PASS	G	20907010	G	G	20907010	3	3	1	1	0	0	0	0	1	0	0	0	10333	275	10	5	545	5	NELL1	11	20907010	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	8936942	20907010	114099506	174	174										
OR5F1	338674	broad.mit.edu	37	chr11	55761502	55761502	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atattcacaccagccaaaatAgaacttatgctttctttcag	4	10	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:55761502A>T	uc010riv.1	-	1	600	c.600T>A	c.(598-600)TCT>TCA	p.S200S		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	200	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					CAGCCAAAATAGAACTTATGC	0.453													7	54	---	---	---	---	PASS	T	55761502	T	T	55761502	2	4	1	1	0	0	0	0	0	0	0	1	11158	407	15	5		5	OR5F1	11	55761502	Silent	SNP	A	TCGA-18-3406-01A-01D-0983-08	34854492	55761502	79245014	175	175										
OR5T1	390155	broad.mit.edu	37	chr11	56043843	56043843	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	attctgaagatgcagtctgcTgaagggaggagaaaagtctt	13	5	3	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:56043843T>A	uc001nio.1	+	1	729	c.729T>A	c.(727-729)GCT>GCA	p.A243A		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	243	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TGCAGTCTGCTGAAGGGAGGA	0.423													20	117	---	---	---	---	PASS	A	56043843	A	A	56043843	2	1	1	1	0	0	0	0	0	0	0	1	11181	1567	55	5		5	OR5T1	11	56043843	Silent	SNP	T	TCGA-18-3406-01A-01D-0983-08	282341	56043843	78962673	176	176										
ZDHHC5	25921	broad.mit.edu	37	chr11	57466569	57466569	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	agagaagttgctgcgccagtCacccccactcccgggccgtg	12	16	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:57466569C>T	uc001nkx.1	+	11	2917	c.1661C>T	c.(1660-1662)TCA>TTA	p.S554L	ZDHHC5_uc001nky.1_Missense_Mutation_p.S501L|ZDHHC5_uc001nkz.1_Missense_Mutation_p.S368L	NM_015457	NP_056272	Q9C0B5	ZDHC5_HUMAN	zinc finger, DHHC domain containing 5	554						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)	1						CTGCGCCAGTCACCCCCACTC	0.612													14	43	---	---	---	---	PASS	T	57466569	T	T	57466569	3	4	1	1	0	0	0	0	1	0	0	0	17615	838	29	2	1699	2	ZDHHC5	11	57466569	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1422726	57466569	77539947	177	177										
FAM111B	374393	broad.mit.edu	37	chr11	58893612	58893612	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atttaatgtgcatgcccttaTtgaatttggttattctatgg	8	5	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:58893612T>C	uc001nnl.2	+	4	2285	c.2042T>C	c.(2041-2043)ATT>ACT	p.I681T	FAM111B_uc001nnm.2_Missense_Mutation_p.I651T|FAM111B_uc010rko.1_Missense_Mutation_p.I651T	NM_198947	NP_945185	Q6SJ93	F111B_HUMAN	hypothetical protein LOC374393 isoform a	681							catalytic activity			ovary(2)	2						CATGCCCTTATTGAATTTGGT	0.363													20	59	---	---	---	---	PASS	C	58893612	C	C	58893612	3	2	1	1	0	0	0	0	1	0	0	0	5400	1493	52	5	2048	5	FAM111B	11	58893612	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	1427043	58893612	76112904	178	178										
PATL1	219988	broad.mit.edu	37	chr11	59420425	59420425	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttggcatatggatcctttcgGagatgatcttgatgactgct	11	7	1	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:59420425G>C	uc001noe.3	-	10	1331	c.1188C>G	c.(1186-1188)CTC>CTG	p.L396L	PATL1_uc009yms.1_Silent_p.L366L|PATL1_uc010rkw.1_Silent_p.L101L	NM_152716	NP_689929	Q86TB9	PATL1_HUMAN	protein associated with topoisomerase II homolog	396	Region H.				cytoplasmic mRNA processing body assembly|deadenylation-dependent decapping of nuclear-transcribed mRNA	cytoplasmic mRNA processing body	protein binding|RNA binding			ovary(1)	1						GATCCTTTCGGAGATGATCTT	0.473													4	135	---	---	---	---	PASS	C	59420425	C	C	59420425	2	2	1	1	0	0	0	0	0	0	0	1	11475	1161	41	2		2	PATL1	11	59420425	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	526813	59420425	75586091	179	179										
AHNAK	79026	broad.mit.edu	37	chr11	62294858	62294858	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gacctttgacatccaattctGgaccttttaactctccctcc	4	15	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:62294858G>T	uc001ntl.2	-	5	7331	c.7031C>A	c.(7030-7032)CCA>CAA	p.P2344Q	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2344					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				ATCCAATTCTGGACCTTTTAA	0.438													6	110	---	---	---	---	PASS	T	62294858	T	T	62294858	3	4	1	1	0	0	0	0	1	0	0	0	414	1348	47	3	10761	3	AHNAK	11	62294858	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	2874433	62294858	72711658	180	180										
NRXN2	9379	broad.mit.edu	37	chr11	64417926	64417926	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggccccagccccacctttgaGatcgaggtttcgggcgccat	12	15	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:64417926G>T	uc001oar.2	-	16	3542	c.3103C>A	c.(3103-3105)CTC>ATC	p.L1035I	NRXN2_uc001oas.2_Missense_Mutation_p.L995I|NRXN2_uc001oaq.2_Missense_Mutation_p.L702I	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:Variant_position_missing_in_P58401_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CCACCTTTGAGATCGAGGTTT	0.637													5	72	---	---	---	---	PASS	T	64417926	T	T	64417926	3	4	1	1	0	0	0	0	1	0	0	0	10666	942	33	2	2340	2	NRXN2	11	64417926	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	2123068	64417926	70588590	181	181										
LRP5	4041	broad.mit.edu	37	chr11	68201264	68201264	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgcgcctgcgctgcgacggcGaggcagactgtcaggaccgc	16	14	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:68201264G>A	uc001ont.2	+	18	4033	c.3958G>A	c.(3958-3960)GAG>AAG	p.E1320K	LRP5_uc009ysg.2_Missense_Mutation_p.E730K	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1320	LDL-receptor class A 2.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CTGCGACGGCGAGGCAGACTG	0.706													6	13	---	---	---	---	PASS	A	68201264	A	A	68201264	3	1	1	1	0	0	0	0	1	0	0	0	8960	1059	37	2	4028	2	LRP5	11	68201264	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	3783338	68201264	66805252	182	182										
NUMA1	4926	broad.mit.edu	37	chr11	71724063	71724063	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggcagtgctctgtgcttctcGctgcacctcagccagacggg	13	14	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:71724063G>A	uc001orl.1	-	15	4658	c.4486C>T	c.(4486-4488)CGA>TGA	p.R1496*	NUMA1_uc009ysw.1_Nonsense_Mutation_p.R1059*|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Nonsense_Mutation_p.R1496*|NUMA1_uc001orn.2_Nonsense_Mutation_p.R1059*|NUMA1_uc009ysx.1_Nonsense_Mutation_p.R1496*|NUMA1_uc001oro.1_Nonsense_Mutation_p.R1496*	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1496	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						TGTGCTTCTCGCTGCACCTCA	0.597			T	RARA	APL								13	67	---	---	---	---	PASS	A	71724063	A	A	71724063	4	1	1	1	0	0	0	0	0	1	0	0	10750	1095	38	1	1913	1	NUMA1	11	71724063	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	3522799	71724063	63282453	183	183										
FAT3	120114	broad.mit.edu	37	chr11	92088060	92088060	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctcttaaagtttttttagatGatgtcaatgactgctcccca	6	9	2	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:92088060G>A	uc001pdj.3	+	1	2799	c.2782G>A	c.(2782-2784)GAT>AAT	p.D928N		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	928	Cadherin 8.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TTTTTTAGATGATGTCAATGA	0.438										TCGA Ovarian(4;0.039)			25	91	---	---	---	---	PASS	A	92088060	A	A	92088060	3	1	1	1	0	0	0	0	1	0	0	0	5691	1290	45	2	2784	2	FAT3	11	92088060	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	20363997	92088060	42918456	184	184										
CWF19L2	143884	broad.mit.edu	37	chr11	107299540	107299540	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aatacccagcaaatgtagacTttgtatcccgtagatgttct	7	9	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:107299540T>C	uc010rvp.1	-	8	1448	c.1418A>G	c.(1417-1419)AAG>AGG	p.K473R	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	473							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		AAATGTAGACTTTGTATCCCG	0.348													14	118	---	---	---	---	PASS	C	107299540	C	C	107299540	3	2	1	1	0	0	0	0	1	0	0	0	4072	1609	56	5	1310	5	CWF19L2	11	107299540	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	15211480	107299540	27706976	185	185										
TMEM136	219902	broad.mit.edu	37	chr11	120198201	120198201	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgcagcctgtgtggctggctCtcgctctatatttctttctg	10	11	4	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:120198201C>T	uc001pxh.1	+	2	114	c.51C>T	c.(49-51)CTC>CTT	p.L17L	TMEM136_uc001pxg.2_Silent_p.L39L|TMEM136_uc010rzm.1_Silent_p.L17L|TMEM136_uc001pxj.2_Silent_p.L39L|TMEM136_uc009zas.1_5'UTR|TMEM136_uc001pxi.1_Intron	NM_174926	NP_777586	Q6ZRR5	TM136_HUMAN	transmembrane protein 136	17	Helical; (Potential).					integral to membrane		p.W17*(1)		ovary(1)	1		Breast(109;0.00663)|Medulloblastoma(222;0.0523)|Hepatocellular(160;0.206)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.07e-06)		GTGGCTGGCTCTCGCTCTATA	0.507													11	25	---	---	---	---	PASS	T	120198201	T	T	120198201	2	4	1	1	0	0	0	0	0	0	0	1	16049	900	32	2		2	TMEM136	11	120198201	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	12898661	120198201	14808315	186	186										
ARHGEF12	23365	broad.mit.edu	37	chr11	120352085	120352085	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tccctgctgtggaatccaccCaccagcagcaacattctcct	6	17	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:120352085C>G	uc001pxl.1	+	39	4361	c.4354C>G	c.(4354-4356)CAC>GAC	p.H1452D	ARHGEF12_uc009zau.1_Missense_Mutation_p.H1349D	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	1452					apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		GGAATCCACCCACCAGCAGCA	0.547			T	MLL	AML								5	29	---	---	---	---	PASS	G	120352085	G	G	120352085	3	3	1	1	0	0	0	0	1	0	0	0	897	594	21	4	4508	4	ARHGEF12	11	120352085	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	153884	120352085	14654431	187	187										
SORL1	6653	broad.mit.edu	37	chr11	121440877	121440877	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gatgggtagagaacacctgtCttcgcaaccagtatcgctgc	11	11	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:121440877C>G	uc001pxx.2	+	23	3315	c.3235C>G	c.(3235-3237)CTT>GTT	p.L1079V		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1079	Extracellular (Potential).|LDL-receptor class A 1.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		GAACACCTGTCTTCGCAACCA	0.483													12	89	---	---	---	---	PASS	G	121440877	G	G	121440877	3	3	1	1	0	0	0	0	1	0	0	0	14934	913	32	2	3325	2	SORL1	11	121440877	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1088792	121440877	13565639	188	188										
VWA5A	4013	broad.mit.edu	37	chr11	123995012	123995012	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aaagaagttaggatcaacagAcagaaacacaggtaggaaga	11	5	1	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:123995012A>G	uc001pzu.2	+	11	1442	c.1233A>G	c.(1231-1233)AGA>AGG	p.R411R	VWA5A_uc001pzr.2_Silent_p.R411R|VWA5A_uc001pzs.2_Silent_p.R411R|VWA5A_uc010sae.1_Silent_p.R427R|VWA5A_uc001pzt.2_Silent_p.R411R	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	411	VWFA.									upper_aerodigestive_tract(1)|ovary(1)	2						GGATCAACAGACAGAAACACA	0.398													3	17	---	---	---	---	PASS	G	123995012	G	G	123995012	2	3	1	1	0	0	0	0	0	0	0	1	17239	272	10	5		5	VWA5A	11	123995012	Silent	SNP	A	TCGA-18-3406-01A-01D-0983-08	2554135	123995012	11011504	189	189										
OR8A1	390275	broad.mit.edu	37	chr11	124440254	124440254	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctcctccgtcattacccctaAgatgctggtgaactttgtgt	8	12	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr11:124440254A>G	uc010san.1	+	1	290	c.290A>G	c.(289-291)AAG>AGG	p.K97R		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	97	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		ATTACCCCTAAGATGCTGGTG	0.453													28	63	---	---	---	---	PASS	G	124440254	G	G	124440254	3	3	1	1	0	0	0	0	1	0	0	0	11225	72	3	5	292	5	OR8A1	11	124440254	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	445242	124440254	10566262	190	190										
C12orf5	57103	broad.mit.edu	37	chr12	4460527	4460527	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgtgtttacaccgcccggagGagagacgctggaccaggtat	14	10	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:4460527G>C	uc001qmp.2	+	5	444	c.365G>C	c.(364-366)GGA>GCA	p.G122A		NM_020375	NP_065108	Q9NQ88	TIGAR_HUMAN	TP53-induced glycolysis and apoptosis regulator	122						intracellular	fructose-2,6-bisphosphate 2-phosphatase activity			skin(1)	1			all cancers(3;1.15e-07)|Colorectal(7;0.00165)|OV - Ovarian serous cystadenocarcinoma(31;0.00596)|COAD - Colon adenocarcinoma(12;0.0229)|GBM - Glioblastoma multiforme(3;0.0266)|STAD - Stomach adenocarcinoma(119;0.206)			CCGCCCGGAGGAGAGACGCTG	0.488													8	29	---	---	---	---	PASS	C	4460527	C	C	4460527	3	2	1	1	0	0	0	0	1	0	0	0	1694	1174	41	2	383	2	C12orf5	12	4460527	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08		4460527	129391368	191	191										
ATN1	1822	broad.mit.edu	37	chr12	7045484	7045484	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcccagagaagggcccaactCtggctccttcaccccactct	8	18	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:7045484C>G	uc001qrw.1	+	5	1291	c.1054C>G	c.(1054-1056)CTG>GTG	p.L352V	ATN1_uc001qrx.1_Missense_Mutation_p.L352V|ATN1_uc001qry.1_Missense_Mutation_p.L351V	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	352					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						GGGCCCAACTCTGGCTCCTTC	0.607													12	140	---	---	---	---	PASS	G	7045484	G	G	7045484	3	3	1	1	0	0	0	0	1	0	0	0	1111	912	32	2	1068	2	ATN1	12	7045484	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	2584957	7045484	126806411	192	192										
PRH2	5555	broad.mit.edu	37	chr12	11081919	11081919	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cctgctggccttcagctcagCtcaggacttagatgaaggta	11	11	3	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:11081919C>A	uc009zhr.2	+	1	85	c.47C>A	c.(46-48)GCT>GAT	p.A16D	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH2_uc001qzh.2_Missense_Mutation_p.A16D|PRH2_uc001qzi.3_Missense_Mutation_p.A16D	NM_001110213	NP_001103683	P02810	PRPC_HUMAN	proline-rich protein HaeIII subfamily 2	16						extracellular space	protein binding				0						TTCAGCTCAGCTCAGGACTTA	0.517													11	73	---	---	---	---	PASS	A	11081919	A	A	11081919	3	1	1	1	0	0	0	0	1	0	0	0	12483	797	28	3	49	3	PRH2	12	11081919	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	4036435	11081919	122769976	193	193										
LRP6	4040	broad.mit.edu	37	chr12	12278319	12278319	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ataggggggtccactgcttcCccccatgatactgagggagc	13	12	0	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:12278319C>T	uc001rah.3	-	21	4502	c.4360G>A	c.(4360-4362)GGA>AGA	p.G1454R	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.G1409R	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	1454	Cytoplasmic (Potential).				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				CCACTGCTTCCCCCCATGATA	0.423													15	16	---	---	---	---	PASS	T	12278319	T	T	12278319	3	4	1	1	0	0	0	0	1	0	0	0	8962	632	22	3	493	3	LRP6	12	12278319	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1196400	12278319	121573576	194	194										
LRP6	4040	broad.mit.edu	37	chr12	12291458	12291458	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttggagtcttctaatactatCcggttagcaccttggaaaag	9	8	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:12291458C>T	uc001rah.3	-	16	3550	c.3408G>A	c.(3406-3408)CGG>CGA	p.R1136R	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Silent_p.R1136R	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	1136	Extracellular (Potential).|LDL-receptor class B 19.|Beta-propeller 4.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				CTAATACTATCCGGTTAGCAC	0.363													20	58	---	---	---	---	PASS	T	12291458	T	T	12291458	2	4	1	1	0	0	0	0	0	0	0	1	8962	842	30	2		2	LRP6	12	12291458	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	13139	12291458	121560437	195	195										
KCNH3	23416	broad.mit.edu	37	chr12	49933230	49933230	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgcggggcctcctggcgccgCagaacaccttcctggacacc	12	17	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:49933230C>T	uc001ruh.1	+	1	291	c.31C>T	c.(31-33)CAG>TAG	p.Q11*	KCNH3_uc010smj.1_5'UTR	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	11	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						CCTGGCGCCGCAGAACACCTT	0.662													5	23	---	---	---	---	PASS	T	49933230	T	T	49933230	4	4	1	1	0	0	0	0	0	1	0	0	8033	711	25	3	33	3	KCNH3	12	49933230	Nonsense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	37641772	49933230	83918665	196	196										
TENC1	23371	broad.mit.edu	37	chr12	53448097	53448097	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tggagcggcgctgggacttaGacctcacctacgtgacggag	15	11	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:53448097G>C	uc001sbp.2	+	7	529	c.394G>C	c.(394-396)GAC>CAC	p.D132H	uc001sbk.1_Intron|TENC1_uc001sbl.2_Missense_Mutation_p.D8H|TENC1_uc001sbm.2_Missense_Mutation_p.D142H|TENC1_uc001sbn.2_Missense_Mutation_p.D142H|TENC1_uc001sbo.1_Missense_Mutation_p.D132H	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	132	Phosphatase tensin-type.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						CTGGGACTTAGACCTCACCTA	0.701													11	18	---	---	---	---	PASS	C	53448097	C	C	53448097	3	2	1	1	0	0	0	0	1	0	0	0	15755	942	33	2	529	2	TENC1	12	53448097	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	3514867	53448097	80403798	197	197										
TARBP2	6895	broad.mit.edu	37	chr12	53899577	53899577	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ccctgggccctgcctgctgcCgtgtcctcagtgagctctct	11	17	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:53899577C>T	uc001sdo.2	+	8	1374	c.886C>T	c.(886-888)CGT>TGT	p.R296C	TARBP2_uc001sdp.2_Missense_Mutation_p.R275C|TARBP2_uc001sdq.2_Missense_Mutation_p.R152C|TARBP2_uc001sdr.2_Missense_Mutation_p.R152C|TARBP2_uc001sds.2_Missense_Mutation_p.P253L|TARBP2_uc001sdt.2_Missense_Mutation_p.R275C|TARBP2_uc001sdu.2_Missense_Mutation_p.R152C|TARBP2_uc001sdv.2_RNA	NM_134323	NP_599150	Q15633	TRBP2_HUMAN	TAR RNA binding protein 2 isoform a	296	Sufficient for interaction with DICER1.|DRBM 3.|Sufficient for interaction with PRKRA.				miRNA loading onto RISC involved in gene silencing by miRNA|negative regulation of defense response to virus by host|negative regulation of protein kinase activity|positive regulation of viral genome replication|pre-miRNA processing|production of siRNA involved in RNA interference|regulation of transcription from RNA polymerase II promoter|regulation of translation|regulation of viral transcription|targeting of mRNA for destruction involved in RNA interference	cytosol|nucleus|perinuclear region of cytoplasm|RNA-induced silencing complex	double-stranded RNA binding|protein homodimerization activity|siRNA binding			central_nervous_system(1)	1						TGCCTGCTGCCGTGTCCTCAG	0.612													6	41	---	---	---	---	PASS	T	53899577	T	T	53899577	3	4	1	1	0	0	0	0	1	0	0	0	15553	652	23	1	916	1	TARBP2	12	53899577	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	451480	53899577	79952318	198	198										
KIAA0748	9840	broad.mit.edu	37	chr12	55356381	55356381	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tctttcttgctctgctctttCttttccagaaagtctcatcc	4	13	6	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:55356381C>G	uc001sgn.3	-	9	1411	c.1301G>C	c.(1300-1302)AGA>ACA	p.R434T	KIAA0748_uc001sgl.3_Missense_Mutation_p.R296T|KIAA0748_uc001sgm.3_Missense_Mutation_p.R181T|KIAA0748_uc010spb.1_Missense_Mutation_p.R181T|KIAA0748_uc010spc.1_Missense_Mutation_p.R296T|KIAA0748_uc010spd.1_Missense_Mutation_p.R434T|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	434										ovary(1)|central_nervous_system(1)	2						TCTGCTCTTTCTTTTCCAGAA	0.502													35	106	---	---	---	---	PASS	G	55356381	G	G	55356381	3	3	1	1	0	0	0	0	1	0	0	0	8190	913	32	2	272	2	KIAA0748	12	55356381	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1456804	55356381	78495514	199	199										
GLI1	2735	broad.mit.edu	37	chr12	57857822	57857822	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgccaccaagctaacctcatGtccggcccccacagttatgg	8	16	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:57857822G>A	uc001snx.2	+	3	219	c.141G>A	c.(139-141)ATG>ATA	p.M47I	GLI1_uc009zpp.2_RNA|GLI1_uc009zpq.2_Intron|GLI1_uc009zpr.1_Intron	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	47					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			CTAACCTCATGTCCGGCCCCC	0.557													37	107	---	---	---	---	PASS	A	57857822	A	A	57857822	3	1	1	1	0	0	0	0	1	0	0	0	6437	1377	48	3	147	3	GLI1	12	57857822	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	2501441	57857822	75994073	200	200										
TSPAN31	6302	broad.mit.edu	37	chr12	58139669	58139669	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctggactggtgggtgctgtcAaccaccaccaagtcctgctg	12	13	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:58139669A>T	uc001spt.2	+	2	359	c.205A>T	c.(205-207)AAC>TAC	p.N69Y	TSPAN31_uc009zqb.2_Intron|TSPAN31_uc010ssa.1_5'UTR	NM_005981	NP_005972	Q12999	TSN31_HUMAN	sarcoma amplified sequence	69	Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane|membrane fraction					0	all_cancers(7;4.96e-69)|Lung NSC(6;5.5e-25)|all_lung(6;3.87e-23)|all_epithelial(6;1.66e-15)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)		GBM - Glioblastoma multiforme(5;4.21e-120)|all cancers(5;3.75e-83)|BRCA - Breast invasive adenocarcinoma(9;0.0294)			GGGTGCTGTCAACCACCACCA	0.562													10	41	---	---	---	---	PASS	T	58139669	T	T	58139669	3	4	1	1	0	0	0	0	1	0	0	0	16643	130	5	5	211	5	TSPAN31	12	58139669	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	281847	58139669	75712226	201	201										
PTPRR	5801	broad.mit.edu	37	chr12	71286540	71286540	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atggccagcagattgagagaCgggtcatatgcgggtctagg	16	7	2	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:71286540C>A	uc001swi.1	-	2	692	c.276G>T	c.(274-276)CCG>CCT	p.P92P		NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	92	Extracellular (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		GATTGAGAGACGGGTCATATG	0.433													30	83	---	---	---	---	PASS	A	71286540	A	A	71286540	2	1	1	1	0	0	0	0	0	0	0	1	12810	523	19	1		1	PTPRR	12	71286540	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	13146871	71286540	62565355	202	202										
TPH2	121278	broad.mit.edu	37	chr12	72338230	72338230	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctattgtgacgctgaatcctCcagagaacatttggacagag	10	9	0	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:72338230C>G	uc009zrw.1	+	3	553	c.412C>G	c.(412-414)CCA>GCA	p.P138A	TPH2_uc001swy.2_Missense_Mutation_p.P48A	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	138					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	GCTGAATCCTCCAGAGAACAT	0.423													25	83	---	---	---	---	PASS	G	72338230	G	G	72338230	3	3	1	1	0	0	0	0	1	0	0	0	16399	855	30	2	422	2	TPH2	12	72338230	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1051690	72338230	61513665	203	203										
TRHDE	29953	broad.mit.edu	37	chr12	73015517	73015517	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cttatttcagattggatttcCagcaacaggaacaggtaaac	8	8	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:73015517C>A	uc001sxa.2	+	15	2556	c.2526C>A	c.(2524-2526)TCC>TCA	p.S842S		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	842	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						ATTGGATTTCCAGCAACAGGA	0.398													9	40	---	---	---	---	PASS	A	73015517	A	A	73015517	2	1	1	1	0	0	0	0	0	0	0	1	16476	581	21	3		3	TRHDE	12	73015517	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	677287	73015517	60836378	204	204										
OSBPL8	114882	broad.mit.edu	37	chr12	76767175	76767175	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tttcccagtttaagtttcccTgatatttgattaacacagtc	5	9	0	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:76767175T>A	uc001sye.1	-	18	2346	c.1866A>T	c.(1864-1866)TCA>TCT	p.S622S	OSBPL8_uc001syf.1_Silent_p.S580S|OSBPL8_uc001syg.1_Silent_p.S580S|OSBPL8_uc001syh.1_Silent_p.S597S	NM_020841	NP_065892	Q9BZF1	OSBL8_HUMAN	oxysterol-binding protein-like protein 8 isoform	622					lipid transport		lipid binding			ovary(1)	1						TAAGTTTCCCTGATATTTGAT	0.308													20	54	---	---	---	---	PASS	A	76767175	A	A	76767175	2	1	1	1	0	0	0	0	0	0	0	1	11283	1567	55	5		5	OSBPL8	12	76767175	Silent	SNP	T	TCGA-18-3406-01A-01D-0983-08	3751658	76767175	57084720	205	205										
E2F7	144455	broad.mit.edu	37	chr12	77417881	77417881	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cctttctcttctcttcaggaCagggtctccaaggctgccgg	10	14	4	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:77417881C>T	uc001sym.3	-	13	2886	c.2650G>A	c.(2650-2652)GTC>ATC	p.V884I	E2F7_uc009zse.2_3'UTR	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	884					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						CTCTTCAGGACAGGGTCTCCA	0.542													14	49	---	---	---	---	PASS	T	77417881	T	T	77417881	3	4	1	1	0	0	0	0	1	0	0	0	4872	478	17	3	89	3	E2F7	12	77417881	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	650706	77417881	56434014	206	206										
TBX3	6926	broad.mit.edu	37	chr12	115114128	115114128	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	catggtttacctttgaggttCgatgtccctacagtggaggc	12	9	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:115114128C>T	uc001tvt.1	-	6	2053	c.1089G>A	c.(1087-1089)TCG>TCA	p.S363S	TBX3_uc001tvu.1_Silent_p.S343S	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	363					anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		CTTTGAGGTTCGATGTCCCTA	0.547													16	49	---	---	---	---	PASS	T	115114128	T	T	115114128	2	4	1	1	0	0	0	0	0	0	0	1	15656	871	31	2		2	TBX3	12	115114128	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	37696247	115114128	18737767	207	207										
TMED2	10959	broad.mit.edu	37	chr12	124074954	124074954	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cgatgacagctgtaaagcacGaacaggaatacatggaagtc	11	8	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:124074954G>T	uc001ufg.2	+	3	547	c.439G>T	c.(439-441)GAA>TAA	p.E147*		NM_006815	NP_006806	Q15363	TMED2_HUMAN	coated vesicle membrane protein precursor	147	Lumenal (Potential).				protein transport|vesicle-mediated transport	COPI coated vesicle membrane|ER-Golgi intermediate compartment|integral to membrane|microsome|zymogen granule membrane	protein binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000138)|Epithelial(86;0.000613)|all cancers(50;0.00745)		TGTAAAGCACGAACAGGAATA	0.433													4	53	---	---	---	---	PASS	T	124074954	T	T	124074954	4	4	1	1	0	0	0	0	0	1	0	0	16001	1059	37	2	449	2	TMED2	12	124074954	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	8960826	124074954	9776941	208	208										
NCOR2	9612	broad.mit.edu	37	chr12	124915226	124915226	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aactgcttctcgtagtactcGcgcaccttgctctccttggc	8	15	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr12:124915226G>T	uc010tba.1	-	9	1107	c.990C>A	c.(988-990)CGC>CGA	p.R330R	NCOR2_uc010tay.1_Silent_p.R330R|NCOR2_uc010taz.1_Silent_p.R330R|NCOR2_uc010tbb.1_Silent_p.R330R|NCOR2_uc010tbc.1_Silent_p.R330R|NCOR2_uc001ugj.1_Silent_p.R330R|NCOR2_uc001ugk.1_Silent_p.R330R	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	330					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		CGTAGTACTCGCGCACCTTGC	0.652													14	64	---	---	---	---	PASS	T	124915226	T	T	124915226	2	4	1	1	0	0	0	0	0	0	0	1	10236	1074	38	1		1	NCOR2	12	124915226	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	840272	124915226	8936669	209	209										
ATP7B	540	broad.mit.edu	37	chr13	52511767	52511767	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctggagctcctggaccttggCcaccttgtgcgaaggcagca	13	13	0	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr13:52511767C>A	uc001vfw.2	-	18	3905	c.3748G>T	c.(3748-3750)GCC>TCC	p.A1250S	ATP7B_uc010adv.2_Missense_Mutation_p.A820S|ATP7B_uc001vfx.2_Missense_Mutation_p.A1043S|ATP7B_uc001vfy.2_Missense_Mutation_p.A1139S|ATP7B_uc010tgt.1_Missense_Mutation_p.A1185S|ATP7B_uc010tgu.1_Missense_Mutation_p.A1202S|ATP7B_uc010tgv.1_Missense_Mutation_p.A1172S|ATP7B_uc001vfv.2_Missense_Mutation_p.A522S|ATP7B_uc010tgs.1_Missense_Mutation_p.A461S	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	1250	Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		TGGACCTTGGCCACCTTGTGC	0.542									Wilson_disease				5	116	---	---	---	---	PASS	A	52511767	A	A	52511767	3	1	1	1	0	0	0	0	1	0	0	0	1191	739	26	3	665	3	ATP7B	13	52511767	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08		52511767	62658111	210	210										
MYCBP2	23077	broad.mit.edu	37	chr13	77844568	77844568	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttttaatggccacttgtgcaTtaaagctgctttcttaatgc	7	8	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr13:77844568T>A	uc001vkf.2	-	7	1028	c.937A>T	c.(937-939)ATG>TTG	p.M313L	MYCBP2_uc010aev.2_5'UTR	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	313					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CACTTGTGCATTAAAGCTGCT	0.338													15	30	---	---	---	---	PASS	A	77844568	A	A	77844568	3	1	1	1	0	0	0	0	1	0	0	0	10018	1493	52	5	13297	5	MYCBP2	13	77844568	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	25332801	77844568	37325310	211	211										
TPP2	7174	broad.mit.edu	37	chr13	103279418	103279418	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gacactttccagaagaacctGaacggaatggggtagctcct	11	10	0	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr13:103279418G>A	uc001vpi.3	+	7	944	c.841G>A	c.(841-843)GAA>AAA	p.E281K		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	281					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGAAGAACCTGAACGGAATGG	0.463													29	79	---	---	---	---	PASS	A	103279418	A	A	103279418	3	1	1	1	0	0	0	0	1	0	0	0	16409	1291	45	2	867	2	TPP2	13	103279418	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	25434850	103279418	11890460	212	212										
TEP1	7011	broad.mit.edu	37	chr14	20857439	20857439	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctgagagtgtcacatcattgGgattcaaatctgttgacctg	10	8	4	2	rs145088591		TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:20857439G>T	uc001vxe.2	-	17	2523	c.2483C>A	c.(2482-2484)CCC>CAC	p.P828H	TEP1_uc010ahk.2_Missense_Mutation_p.P178H|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.P720H	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	828					telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		CACATCATTGGGATTCAAATC	0.418													5	70	---	---	---	---	PASS	T	20857439	T	T	20857439	3	4	1	1	0	0	0	0	1	0	0	0	15756	1232	43	3	5556	3	TEP1	14	20857439	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08		20857439	86492101	213	213										
LRP10	26020	broad.mit.edu	37	chr14	23346451	23346451	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcacccccactgcccatcaaGgctcccctcccatctgctag	6	21	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:23346451G>A	uc001whd.2	+	7	2410	c.1857G>A	c.(1855-1857)AAG>AAA	p.K619K	LRP10_uc001whe.2_Intron	NM_014045	NP_054764	Q7Z4F1	LRP10_HUMAN	low density lipoprotein receptor-related protein	619	Pro-rich.|Cytoplasmic (Potential).				endocytosis	coated pit|integral to membrane				central_nervous_system(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.00549)		TGCCCATCAAGGCTCCCCTCC	0.657													9	29	---	---	---	---	PASS	A	23346451	A	A	23346451	2	1	1	1	0	0	0	0	0	0	0	1	8952	991	35	3		3	LRP10	14	23346451	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	2489012	23346451	84003089	214	214										
MYH7	4625	broad.mit.edu	37	chr14	23901920	23901920	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggcctcgctcctcttcttgcCccggtaggcagccaccacct	9	19	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:23901920C>T	uc001wjx.2	-	5	536	c.430G>A	c.(430-432)GGC>AGC	p.G144S		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	144	Myosin head-like.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CTCTTCTTGCCCCGGTAGGCA	0.592													14	57	---	---	---	---	PASS	T	23901920	T	T	23901920	3	4	1	1	0	0	0	0	1	0	0	0	10039	623	22	3	5521	3	MYH7	14	23901920	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	555469	23901920	83447620	215	215										
ADCY4	196883	broad.mit.edu	37	chr14	24788418	24788418	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gctgcagctccgttcagcatCctggcaatgggcccgcccac	11	17	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:24788418C>G	uc001wov.2	-	23	2848	c.2842G>C	c.(2842-2844)GAT>CAT	p.D948H	ADCY4_uc001wow.2_Missense_Mutation_p.D948H|ADCY4_uc010toh.1_Missense_Mutation_p.D634H|ADCY4_uc001wox.2_Missense_Mutation_p.D948H|ADCY4_uc001woy.2_Missense_Mutation_p.D948H	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	948	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		CGTTCAGCATCCTGGCAATGG	0.552													22	55	---	---	---	---	PASS	G	24788418	G	G	24788418	3	3	1	1	0	0	0	0	1	0	0	0	296	869	30	2	403	2	ADCY4	14	24788418	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	886498	24788418	82561122	216	216										
PRKD1	5587	broad.mit.edu	37	chr14	30105516	30105516	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctgatggttctgttggcgtcCtcgtggtctgggtctggatc	15	9	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:30105516C>T	uc001wqh.2	-	7	1351	c.1170G>A	c.(1168-1170)GAG>GAA	p.E390E		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	390					cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TGTTGGCGTCCTCGTGGTCTG	0.502													36	149	---	---	---	---	PASS	T	30105516	T	T	30105516	2	4	1	1	0	0	0	0	0	0	0	1	12518	680	24	3		3	PRKD1	14	30105516	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	5317098	30105516	77244024	217	217										
LRFN5	145581	broad.mit.edu	37	chr14	42356690	42356690	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	agtttttgtgtgagcctcctCtcattactcgtcatacacat	6	11	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:42356690C>G	uc001wvm.2	+	3	2060	c.862C>G	c.(862-864)CTC>GTC	p.L288V	LRFN5_uc010ana.2_Missense_Mutation_p.L288V	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	288	Extracellular (Potential).|Ig-like.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TGAGCCTCCTCTCATTACTCG	0.493										HNSCC(30;0.082)			15	64	---	---	---	---	PASS	G	42356690	G	G	42356690	3	3	1	1	0	0	0	0	1	0	0	0	8941	913	32	2	864	2	LRFN5	14	42356690	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	12251174	42356690	64992850	218	218										
TXNDC16	57544	broad.mit.edu	37	chr14	52907400	52907400	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	caaaatcaataatggtttctGaagtctgaaataactgggaa	8	5	3	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:52907400G>T	uc001wzs.2	-	19	2334	c.1885C>A	c.(1885-1887)CAG>AAG	p.Q629K	TXNDC16_uc010tqu.1_Missense_Mutation_p.Q624K|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	629					cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					AATGGTTTCTGAAGTCTGAAA	0.343													9	23	---	---	---	---	PASS	T	52907400	T	T	52907400	3	4	1	1	0	0	0	0	1	0	0	0	16792	1299	45	2	604	2	TXNDC16	14	52907400	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	10550710	52907400	54442140	219	219										
C14orf135	64430	broad.mit.edu	37	chr14	60581998	60581998	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aattcccaggctattgtgggCtatggtttgatgatattact	10	6	0	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:60581998C>T	uc001xer.3	+	3	996	c.474C>T	c.(472-474)GGC>GGT	p.G158G	C14orf135_uc001xeq.2_Silent_p.G158G	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	392	Helical; (Potential).					integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		CTATTGTGGGCTATGGTTTGA	0.353													23	121	---	---	---	---	PASS	T	60581998	T	T	60581998	2	4	1	1	0	0	0	0	0	0	0	1	1745	784	28	3		3	C14orf135	14	60581998	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	7674598	60581998	46767542	220	220										
ADAM20	8748	broad.mit.edu	37	chr14	70991102	70991102	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcccccagaacaggtactaaGggcaaccaaggactcaggga	12	12	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:70991102G>A	uc001xme.2	-	2	768	c.523C>T	c.(523-525)CTT>TTT	p.L175F		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	125					proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		CAGGTACTAAGGGCAACCAAG	0.483													10	46	---	---	---	---	PASS	A	70991102	A	A	70991102	3	1	1	1	0	0	0	0	1	0	0	0	242	1000	35	3	1811	3	ADAM20	14	70991102	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	10409104	70991102	36358438	221	221										
PROX2	283571	broad.mit.edu	37	chr14	75329373	75329373	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctgctggctcaggaccaatgGttgcggcttagtagttctcc	12	11	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:75329373G>A	uc001xqr.1	-	1	1165	c.1165C>T	c.(1165-1167)CCA>TCA	p.P389S	PROX2_uc001xqq.1_Intron	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2	389					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		AGGACCAATGGTTGCGGCTTA	0.572													12	48	---	---	---	---	PASS	A	75329373	A	A	75329373	3	1	1	1	0	0	0	0	1	0	0	0	12561	1261	44	3	629	3	PROX2	14	75329373	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	4338271	75329373	32020167	222	222										
KCNK10	54207	broad.mit.edu	37	chr14	88707111	88707111	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aggtcccagtggctgctgttGttggaagagtttcctattgg	14	7	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:88707111G>A	uc001xwo.2	-	3	898	c.441C>T	c.(439-441)AAC>AAT	p.N147N	KCNK10_uc001xwm.2_Silent_p.N152N|KCNK10_uc001xwn.2_Silent_p.N152N	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	147					signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						GGCTGCTGTTGTTGGAAGAGT	0.448													23	125	---	---	---	---	PASS	A	88707111	A	A	88707111	2	1	1	1	0	0	0	0	0	0	0	1	8059	1368	48	3		3	KCNK10	14	88707111	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	13377738	88707111	18642429	223	223										
CPSF2	53981	broad.mit.edu	37	chr14	92600506	92600506	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gacagatgttcatgtatgatCtttatcaggtaatttaagca	8	5	3	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:92600506C>G	uc001yah.1	+	4	538	c.301C>G	c.(301-303)CTT>GTT	p.L101V		NM_017437	NP_059133	Q9P2I0	CPSF2_HUMAN	cleavage and polyadenylation specific factor 2	101					histone mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	hydrolase activity|protein binding|RNA binding			ovary(2)	2		all_cancers(154;0.0766)		COAD - Colon adenocarcinoma(157;0.222)		CATGTATGATCTTTATCAGGT	0.363													16	50	---	---	---	---	PASS	G	92600506	G	G	92600506	3	3	1	1	0	0	0	0	1	0	0	0	3825	913	32	2	307	2	CPSF2	14	92600506	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	3893395	92600506	14749034	224	224										
RTL1	388015	broad.mit.edu	37	chr14	101348272	101348272	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	attcagagaggctagatcctCtgtgttgagaaggatcatga	12	6	3	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr14:101348272C>T	uc010txj.1	-	1	2913	c.2854G>A	c.(2854-2856)GAG>AAG	p.E952K	MIR433_hsa-mir-433|MI0001723_RNA|uc001yig.3_5'Flank|MIR127_hsa-mir-127|MI0000472_5'Flank|MIR432_hsa-mir-432|MI0003133_5'Flank|uc010txk.1_5'Flank|MIR136_hsa-mir-136|MI0000475_5'Flank	NM_001134888	NP_001128360	A6NKG5	RTL1_HUMAN	retrotransposon-like 1	952										pancreas(1)	1						GCTAGATCCTCTGTGTTGAGA	0.527													26	91	---	---	---	---	PASS	T	101348272	T	T	101348272	3	4	1	1	0	0	0	0	1	0	0	0	13724	922	32	2	1226	2	RTL1	14	101348272	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	8747766	101348272	6001268	225	225										
LCMT2	9836	broad.mit.edu	37	chr15	43621302	43621302	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcctttgttattgtcactttCaggtcctcagtgttattatc	7	9	3	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr15:43621302C>G	uc001zrg.2	-	1	1590	c.1386G>C	c.(1384-1386)CTG>CTC	p.L462L	LCMT2_uc010udn.1_Silent_p.L41L|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	462					tRNA processing		methyltransferase activity|protein binding				0		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.1e-07)	L-Leucine(DB00149)	TTGTCACTTTCAGGTCCTCAG	0.463													19	52	---	---	---	---	PASS	G	43621302	G	G	43621302	2	3	1	1	0	0	0	0	0	0	0	1	8679	813	29	2		2	LCMT2	15	43621302	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08		43621302	58910090	226	226										
FBN1	2200	broad.mit.edu	37	chr15	48787692	48787692	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	agatggtttttgttggatccAaagtactttcagaagaacat	9	5	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr15:48787692A>G	uc001zwx.1	-	21	2841	c.2513T>C	c.(2512-2514)TTG>TCG	p.L838S		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	838	EGF-like 13; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		TGTTGGATCCAAAGTACTTTC	0.348													10	153	---	---	---	---	PASS	G	48787692	G	G	48787692	3	3	1	1	0	0	0	0	1	0	0	0	5702	131	5	5	6286	5	FBN1	15	48787692	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	5166390	48787692	53743700	227	227										
FEM1B	10116	broad.mit.edu	37	chr15	68582855	68582855	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	acacccacaaggatcttcttCgatttgctcaagttttctca	5	12	4	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr15:68582855C>T	uc002arg.2	+	2	1774	c.1159C>T	c.(1159-1161)CGA>TGA	p.R387*	FEM1B_uc002arh.2_Nonsense_Mutation_p.R307*	NM_015322	NP_056137	Q9UK73	FEM1B_HUMAN	fem-1 homolog b	387					apoptosis|induction of apoptosis|regulation of DNA damage checkpoint|regulation of ubiquitin-protein ligase activity	cytoplasm|nucleus	death receptor binding|ubiquitin-protein ligase activity				0						GGATCTTCTTCGATTTGCTCA	0.398													7	38	---	---	---	---	PASS	T	68582855	T	T	68582855	4	4	1	1	0	0	0	0	0	1	0	0	5810	876	31	2	1165	2	FEM1B	15	68582855	Nonsense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	19795163	68582855	33948537	228	228										
KIAA1024	23251	broad.mit.edu	37	chr15	79750082	79750082	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cttgatgacatgagcatcagTggctccacgggagtgataca	12	9	1	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr15:79750082T>C	uc002bew.1	+	2	1668	c.1593T>C	c.(1591-1593)AGT>AGC	p.S531S	KIAA1024_uc010unk.1_Silent_p.S531S	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	531						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						TGAGCATCAGTGGCTCCACGG	0.493													14	20	---	---	---	---	PASS	C	79750082	C	C	79750082	2	2	1	1	0	0	0	0	0	0	0	1	8205	1693	59	5		5	KIAA1024	15	79750082	Silent	SNP	T	TCGA-18-3406-01A-01D-0983-08	11167227	79750082	22781310	229	229										
CACNA1H	8912	broad.mit.edu	37	chr16	1260849	1260849	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cagagcagctggaacctgctGgatgggctgctggtgctggt	17	9	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:1260849G>T	uc002cks.2	+	21	4349	c.4101G>T	c.(4099-4101)CTG>CTT	p.L1367L	CACNA1H_uc002ckt.2_Silent_p.L1367L|CACNA1H_uc002cku.2_Silent_p.L73L|CACNA1H_uc010brj.2_Silent_p.L73L|CACNA1H_uc002ckv.2_Silent_p.L73L	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1367	Helical; Name=S3 of repeat III; (Potential).|III.				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	GGAACCTGCTGGATGGGCTGC	0.677													4	42	---	---	---	---	PASS	T	1260849	T	T	1260849	2	4	1	1	0	0	0	0	0	0	0	1	2545	1335	47	3		3	CACNA1H	16	1260849	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08		1260849	89093904	230	230										
BAIAP3	8938	broad.mit.edu	37	chr16	1397706	1397706	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	acccgcctttccgcagaggaCcctggagcagaaccggtttg	12	14	0	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:1397706C>T	uc002clk.1	+	31	3014	c.3014C>T	c.(3013-3015)ACC>ATC	p.T1005I	BAIAP3_uc002clj.2_Missense_Mutation_p.T987I|BAIAP3_uc010uuz.1_Missense_Mutation_p.T970I|BAIAP3_uc010uva.1_Missense_Mutation_p.T942I|BAIAP3_uc010uvc.1_Missense_Mutation_p.T934I	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	1005					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				CCGCAGAGGACCCTGGAGCAG	0.677													4	20	---	---	---	---	PASS	T	1397706	T	T	1397706	3	4	1	1	0	0	0	0	1	0	0	0	1304	507	18	3	3136	3	BAIAP3	16	1397706	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	136857	1397706	88957047	231	231										
TBL3	10607	broad.mit.edu	37	chr16	2024958	2024958	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cttccacccggaccctacacGcctgctgctcttctcctcgg	7	20	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:2024958G>A	uc002cnu.1	+	7	596	c.494G>A	c.(493-495)CGC>CAC	p.R165H	TBL3_uc002cnv.1_Missense_Mutation_p.R51H|TBL3_uc010bsb.1_5'UTR|TBL3_uc010bsc.1_Missense_Mutation_p.R51H|TBL3_uc010uvt.1_5'UTR|TBL3_uc002cnw.1_5'Flank	NM_006453	NP_006444	Q12788	TBL3_HUMAN	transducin beta-like 3	165	WD 3.				G-protein signaling, coupled to cGMP nucleotide second messenger|rRNA processing	nucleolus|small-subunit processome	receptor signaling protein activity				0						GACCCTACACGCCTGCTGCTC	0.677													15	39	---	---	---	---	PASS	A	2024958	A	A	2024958	3	1	1	1	0	0	0	0	1	0	0	0	15640	1087	38	1	520	1	TBL3	16	2024958	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	627252	2024958	88329795	232	232										
PKD1	5310	broad.mit.edu	37	chr16	2152826	2152826	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	agagctcaccccggggaaatGaagaaggtgtagggccggtg	17	8	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:2152826G>A	uc002cos.1	-	24	9146	c.8937C>T	c.(8935-8937)TTC>TTT	p.F2979F	PKD1_uc002cot.1_Silent_p.F2979F|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2979	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CCGGGGAAATGAAGAAGGTGT	0.657													17	33	---	---	---	---	PASS	A	2152826	A	A	2152826	2	1	1	1	0	0	0	0	0	0	0	1	11963	1281	45	2		2	PKD1	16	2152826	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	127868	2152826	88201927	233	233										
ABCC1	4363	broad.mit.edu	37	chr16	16219669	16219669	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgactcttccactcacaggtCaccacgtacttgaactggct	7	14	3	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:16219669C>T	uc010bvi.2	+	26	3895	c.3720C>T	c.(3718-3720)GTC>GTT	p.V1240V	ABCC1_uc010bvj.2_Silent_p.V1181V|ABCC1_uc010bvk.2_Silent_p.V1184V|ABCC1_uc010bvl.2_Silent_p.V1240V|ABCC1_uc010bvm.2_Silent_p.V1125V|ABCC1_uc002del.3_Silent_p.V1134V	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1240	Helical; Name=17.|ABC transmembrane type-1 2.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	ACTCACAGGTCACCACGTACT	0.453													5	27	---	---	---	---	PASS	T	16219669	T	T	16219669	2	4	1	1	0	0	0	0	0	0	0	1	49	813	29	2		2	ABCC1	16	16219669	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	14066843	16219669	74135084	234	234										
POLR3E	55718	broad.mit.edu	37	chr16	22325429	22325429	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cttcacaggatgaggcggaaGacgatgttaagcagatcacg	13	8	2	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:22325429G>A	uc002dkk.2	+	8	658	c.502G>A	c.(502-504)GAC>AAC	p.D168N	POLR3E_uc002dkj.1_Missense_Mutation_p.D168N|POLR3E_uc002dkm.2_Missense_Mutation_p.D132N|POLR3E_uc010vbr.1_Missense_Mutation_p.D168N|POLR3E_uc002dkl.2_Missense_Mutation_p.D168N|POLR3E_uc010vbs.1_Missense_Mutation_p.D132N|POLR3E_uc010vbt.1_Missense_Mutation_p.D112N	NM_018119	NP_060589	Q9NVU0	RPC5_HUMAN	RNA polymerase III polypeptide E	168					innate immune response|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA-directed RNA polymerase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.012)		TGAGGCGGAAGACGATGTTAA	0.632													6	21	---	---	---	---	PASS	A	22325429	A	A	22325429	3	1	1	1	0	0	0	0	1	0	0	0	12232	942	33	2	528	2	POLR3E	16	22325429	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	6105760	22325429	68029324	235	235										
LCMT1	51451	broad.mit.edu	37	chr16	25186343	25186343	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tttgctgggcaaccaaaggaGgaaatgagcttggtgcgtga	15	6	0	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:25186343G>T	uc002dnx.1	+	10	1128	c.970G>T	c.(970-972)GGA>TGA	p.G324*	LCMT1_uc002dny.1_Nonsense_Mutation_p.G269*|LCMT1_uc002dnz.1_Nonsense_Mutation_p.G224*|LCMT1_uc002doa.1_Nonsense_Mutation_p.G169*	NM_016309	NP_057393	Q9UIC8	LCMT1_HUMAN	leucine carboxyl methyltransferase 1 isoform a	324							protein binding|protein C-terminal carboxyl O-methyltransferase activity|S-adenosylmethionine-dependent methyltransferase activity				0				GBM - Glioblastoma multiforme(48;0.0336)	L-Leucine(DB00149)	AACCAAAGGAGGAAATGAGCT	0.358													4	22	---	---	---	---	PASS	T	25186343	T	T	25186343	4	4	1	1	0	0	0	0	0	1	0	0	8678	1001	35	3	1008	3	LCMT1	16	25186343	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	2860914	25186343	65168410	236	236										
VPS35	55737	broad.mit.edu	37	chr16	46710571	46710571	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	acaggcccgaagaaaaggatTcaaagtctggaggtgaaatt	12	6	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:46710571T>A	uc002eef.3	-	8	937	c.838A>T	c.(838-840)AAT>TAT	p.N280Y	VPS35_uc002eed.2_Missense_Mutation_p.N101Y|VPS35_uc002eee.2_Missense_Mutation_p.N241Y	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	280					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				AGAAAAGGATTCAAAGTCTGG	0.363													15	50	---	---	---	---	PASS	A	46710571	A	A	46710571	3	1	1	1	0	0	0	0	1	0	0	0	17200	1783	62	5	1592	5	VPS35	16	46710571	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	21524228	46710571	43644182	237	237										
PHKB	5257	broad.mit.edu	37	chr16	47732384	47732384	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tatggttgtatccattgtacTggaaagaaaccccgagctag	10	8	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:47732384T>A	uc002eev.3	+	30	3081	c.3029T>A	c.(3028-3030)CTG>CAG	p.L1010Q	PHKB_uc002eeu.3_Missense_Mutation_p.L1003Q|PHKB_uc002eew.3_Missense_Mutation_p.L251Q	NM_000293	NP_000284	Q93100	KPBB_HUMAN	phosphorylase kinase, beta isoform a	1010					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				TCCATTGTACTGGAAAGAAAC	0.368													15	41	---	---	---	---	PASS	A	47732384	A	A	47732384	3	1	1	1	0	0	0	0	1	0	0	0	11845	1580	55	5	3301	5	PHKB	16	47732384	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	1021813	47732384	42622369	238	238										
NOD2	64127	broad.mit.edu	37	chr16	50745378	50745378	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tatgtacctgctgattctgcAgcattttctgctgcatgcca	8	11	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:50745378A>C	uc002egm.1	+	4	1661	c.1556A>C	c.(1555-1557)CAG>CCG	p.Q519P	NOD2_uc010cbk.1_Missense_Mutation_p.Q492P|NOD2_uc002egl.1_Missense_Mutation_p.Q297P|NOD2_uc010cbl.1_Missense_Mutation_p.Q297P|NOD2_uc010cbm.1_Missense_Mutation_p.Q297P|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	519	NACHT.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				CTGATTCTGCAGCATTTTCTG	0.592													21	46	---	---	---	---	PASS	C	50745378	C	C	50745378	3	2	1	1	0	0	0	0	1	0	0	0	10517	188	7	5	1570	5	NOD2	16	50745378	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	3012994	50745378	39609375	239	239										
CA7	766	broad.mit.edu	37	chr16	66881002	66881002	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atcacccatcaatatcatctCcagccaggctgtgtactctc	5	15	5	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:66881002C>A	uc002eqi.2	+	2	219	c.110C>A	c.(109-111)TCC>TAC	p.S37Y	uc002eqh.2_Intron|CA7_uc002eqj.2_5'UTR	NM_005182	NP_005173	P43166	CAH7_HUMAN	carbonic anhydrase VII isoform 1	37					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		AATATCATCTCCAGCCAGGCT	0.577													14	32	---	---	---	---	PASS	A	66881002	A	A	66881002	3	1	1	1	0	0	0	0	1	0	0	0	2522	855	30	2	116	2	CA7	16	66881002	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	16135624	66881002	23473751	240	240										
MARVELD3	91862	broad.mit.edu	37	chr16	71674862	71674862	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	accgagaacagaagcgctacAaaggcagccgagaacagccc	11	13	0	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:71674862A>G	uc002fau.2	+	3	1228	c.1165A>G	c.(1165-1167)AAA>GAA	p.K389E	PHLPP2_uc002fav.2_RNA|MARVELD3_uc010cge.2_3'UTR	NM_001017967	NP_001017967	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 1	392	Cytoplasmic (Potential).					integral to membrane				skin(1)	1		Ovarian(137;0.125)				GAAGCGCTACAAAGGCAGCCG	0.547													5	27	---	---	---	---	PASS	G	71674862	G	G	71674862	3	3	1	1	0	0	0	0	1	0	0	0	9319	131	5	5	1790	5	MARVELD3	16	71674862	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08	4793860	71674862	18679891	241	241										
CNTNAP4	85445	broad.mit.edu	37	chr16	76513408	76513408	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atggaagtggtcccctggaaCcatttcttctatattgcaat	8	9	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:76513408C>A	uc002feu.1	+	14	2240	c.1855C>A	c.(1855-1857)CCA>ACA	p.P619T	CNTNAP4_uc002fev.1_Missense_Mutation_p.P483T|CNTNAP4_uc010chb.1_Missense_Mutation_p.P546T|CNTNAP4_uc002fex.1_Missense_Mutation_p.P622T|CNTNAP4_uc002few.2_Missense_Mutation_p.P594T	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	619	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TCCCCTGGAACCATTTCTTCT	0.333													16	78	---	---	---	---	PASS	A	76513408	A	A	76513408	3	1	1	1	0	0	0	0	1	0	0	0	3649	507	18	3	1914	3	CNTNAP4	16	76513408	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	4838546	76513408	13841345	242	242										
OSGIN1	29948	broad.mit.edu	37	chr16	83999366	83999366	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tccctggtgctggtcctcatCggctcccaccccgacctctc	8	20	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:83999366C>T	uc002fha.2	+	7	1820	c.1437C>T	c.(1435-1437)ATC>ATT	p.I479I	NECAB2_uc002fhd.2_5'Flank|OSGIN1_uc002fhb.2_Silent_p.I396I|OSGIN1_uc002fhc.2_Silent_p.I396I	NM_013370	NP_037502	Q9UJX0	OSGI1_HUMAN	oxidative stress induced growth inhibitor 1	479					cell differentiation|multicellular organismal development|negative regulation of cell growth		growth factor activity				0						TGGTCCTCATCGGCTCCCACC	0.637													7	29	---	---	---	---	PASS	T	83999366	T	T	83999366	2	4	1	1	0	0	0	0	0	0	0	1	11289	874	31	2		2	OSGIN1	16	83999366	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	7485958	83999366	6355387	243	243										
SLC7A5	8140	broad.mit.edu	37	chr16	87902863	87902863	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggtccccacgatgatggccaCgccgttgagcagcgtgatgt	14	12	0	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr16:87902863C>A	uc002fkm.2	-	1	238	c.166G>T	c.(166-168)GTG>TTG	p.V56L		NM_003486	NP_003477	Q01650	LAT1_HUMAN	solute carrier family 7 (cationic amino acid	56	Helical; (Potential).				blood coagulation|cell differentiation|cellular amino acid metabolic process|ion transport|leukocyte migration|nervous system development	apical plasma membrane|cytosol|integral to membrane	neutral amino acid transmembrane transporter activity|peptide antigen binding				0				BRCA - Breast invasive adenocarcinoma(80;0.049)		ATGATGGCCACGCCGTTGAGC	0.706													6	46	---	---	---	---	PASS	A	87902863	A	A	87902863	3	1	1	1	0	0	0	0	1	0	0	0	14700	536	19	1	1397	1	SLC7A5	16	87902863	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	3903497	87902863	2451890	244	244										
TP53	7157	broad.mit.edu	37	chr17	7578202	7578202	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcggctcatagggcaccaccAcactatgtcgaaaagtgttt	10	11	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:7578202A>T	uc002gim.2	-	6	841	c.647T>A	c.(646-648)GTG>GAG	p.V216E	TP53_uc002gig.1_Missense_Mutation_p.V216E|TP53_uc002gih.2_Missense_Mutation_p.V216E|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.V84E|TP53_uc010cng.1_Missense_Mutation_p.V84E|TP53_uc002gii.1_Missense_Mutation_p.V84E|TP53_uc010cnh.1_Missense_Mutation_p.V216E|TP53_uc010cni.1_Missense_Mutation_p.V216E|TP53_uc002gij.2_Missense_Mutation_p.V216E|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.V123E|TP53_uc002gio.2_Missense_Mutation_p.V84E|TP53_uc010vug.1_Missense_Mutation_p.V177E	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	216	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> A (in sporadic cancers; somatic mutation).|V -> E (in sporadic cancers; somatic mutation).|V -> W (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|V -> M (in sporadic cancers; somatic mutation).|V -> L (in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.V216M(49)|p.V216del(8)|p.0?(7)|p.V216L(7)|p.V216E(4)|p.V216G(3)|p.V216A(3)|p.V216fs*31(2)|p.H214fs*5(2)|p.V216fs*6(2)|p.K164_P219del(1)|p.V216fs*32(1)|p.V216fs*33(1)|p.S215fs*27(1)|p.S215fs*29(1)|p.V216fs*5(1)|p.V216_Y220delVVVPY(1)|p.D208_V216delDRNTFRHSV(1)|p.D208fs*1(1)|p.V216fs*28(1)|p.S215_V218>R(1)|p.T211fs*28(1)|p.D207_V216del10(1)|p.S215_V216insX(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)		GGGCACCACCACACTATGTCG	0.537		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)			7	14	---	---	---	---	PASS	T	7578202	T	T	7578202	3	4	1	1	0	0	0	0	1	0	0	0	16378	159	6	5	647	5	TP53	17	7578202	Missense_Mutation	SNP	A	TCGA-18-3406-01A-01D-0983-08		7578202	73617008	245	245										
PFAS	5198	broad.mit.edu	37	chr17	8170927	8170927	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aattgggctggacactttccGtggcgtggccttcgtgggcg	16	10	0	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:8170927G>A	uc002gkr.2	+	26	3467	c.3326G>A	c.(3325-3327)CGT>CAT	p.R1109H	PFAS_uc010vuv.1_Missense_Mutation_p.R685H|PFAS_uc002gks.2_Missense_Mutation_p.R188H	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	1109	Glutamine amidotransferase type-1.				'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GACACTTTCCGTGGCGTGGCC	0.627													19	40	---	---	---	---	PASS	A	8170927	A	A	8170927	3	1	1	1	0	0	0	0	1	0	0	0	11754	1145	40	1	3424	1	PFAS	17	8170927	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	592725	8170927	73024283	246	246										
MYH8	4626	broad.mit.edu	37	chr17	10293781	10293781	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcaggtgtgtttactctgcaCtgatttttgtgtgaacctct	10	8	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:10293781C>A	uc002gmm.2	-	40	5899	c.5804G>T	c.(5803-5805)AGT>ATT	p.S1935I	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1935	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TTACTCTGCACTGATTTTTGT	0.473									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				18	74	---	---	---	---	PASS	A	10293781	A	A	10293781	3	1	1	1	0	0	0	0	1	0	0	0	10041	565	20	3	13	3	MYH8	17	10293781	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	2122854	10293781	70901429	247	247										
MYH8	4626	broad.mit.edu	37	chr17	10315780	10315780	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tggttgatgcgggtgaccatCcacaggaacatcttctcgta	11	10	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:10315780C>A	uc002gmm.2	-	14	1418	c.1323G>T	c.(1321-1323)TGG>TGT	p.W441C	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	441	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GGGTGACCATCCACAGGAACA	0.493									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				52	106	---	---	---	---	PASS	A	10315780	A	A	10315780	3	1	1	1	0	0	0	0	1	0	0	0	10041	856	30	2	4598	2	MYH8	17	10315780	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	21999	10315780	70879430	248	248										
MYH2	4620	broad.mit.edu	37	chr17	10433009	10433009	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cttcttctccttggtcagctTagcaatggtttcatccagac	7	12	4	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:10433009T>C	uc010coi.2	-	24	3117	c.2989A>G	c.(2989-2991)AAG>GAG	p.K997E	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.K997E|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	997	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TTGGTCAGCTTAGCAATGGTT	0.498													37	66	---	---	---	---	PASS	C	10433009	C	C	10433009	3	2	1	1	0	0	0	0	1	0	0	0	10035	1763	61	5	2904	5	MYH2	17	10433009	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	117229	10433009	70762201	249	249										
MYO15A	51168	broad.mit.edu	37	chr17	18044424	18044424	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gatccgcaaggagggatttcCagtgcgcctgcctttccagg	13	12	0	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:18044424C>A	uc010vxh.1	+	21	5836	c.5498C>A	c.(5497-5499)CCA>CAA	p.P1833Q		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1833	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GAGGGATTTCCAGTGCGCCTG	0.547											OREG0024223	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	28	---	---	---	---	PASS	A	18044424	A	A	18044424	3	1	1	1	0	0	0	0	1	0	0	0	10063	594	21	3	5576	3	MYO15A	17	18044424	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	7611415	18044424	63150786	250	250										
KRT14	3861	broad.mit.edu	37	chr17	39740083	39740083	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctcatactggtcacgcatctCgttcagaatgcggctcaggt	10	12	5	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:39740083C>A	uc002hxf.1	-	4	917	c.856G>T	c.(856-858)GAG>TAG	p.E286*	JUP_uc010wfs.1_Intron|KRT14_uc010cxp.1_Nonsense_Mutation_p.E286*	NM_000526	NP_000517	P02533	K1C14_HUMAN	keratin 14	286	Rod.|Coil 2.				epidermis development|hemidesmosome assembly|intermediate filament bundle assembly	cytosol|keratin filament|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(1)	1		Breast(137;0.000307)				TCACGCATCTCGTTCAGAATG	0.562													6	150	---	---	---	---	PASS	A	39740083	A	A	39740083	4	1	1	1	0	0	0	0	0	1	0	0	8451	893	31	2	582	2	KRT14	17	39740083	Nonsense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	21695659	39740083	41455127	251	251										
B4GALNT2	124872	broad.mit.edu	37	chr17	47241536	47241536	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tcatgctccggagtattcgaGagtattacccagacttgacc	9	11	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:47241536G>T	uc002ion.2	+	8	1092	c.1033G>T	c.(1033-1035)GAG>TAG	p.E345*	B4GALNT2_uc010wlt.1_Nonsense_Mutation_p.E259*|B4GALNT2_uc010wlu.1_Nonsense_Mutation_p.E285*	NM_153446	NP_703147	Q8NHY0	B4GN2_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 2	345	Lumenal (Potential).				lipid glycosylation|negative regulation of cell-cell adhesion|UDP-N-acetylgalactosamine metabolic process	integral to Golgi membrane	acetylgalactosaminyltransferase activity			large_intestine(1)|ovary(1)	2			all cancers(6;0.000316)			GAGTATTCGAGAGTATTACCC	0.483													6	202	---	---	---	---	PASS	T	47241536	T	T	47241536	4	4	1	1	0	0	0	0	0	1	0	0	1267	943	33	2	1081	2	B4GALNT2	17	47241536	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	7501453	47241536	33953674	252	252										
ANKFN1	162282	broad.mit.edu	37	chr17	54451996	54451996	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ccaaccaatgtctgtctcatGgtaaccagcagcacatcact	6	14	3	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:54451996G>T	uc002iun.1	+	7	875	c.840G>T	c.(838-840)ATG>ATT	p.M280I		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	280	Fibronectin type-III.									large_intestine(1)|ovary(1)	2						TCTGTCTCATGGTAACCAGCA	0.468													7	167	---	---	---	---	PASS	T	54451996	T	T	54451996	3	4	1	1	0	0	0	0	1	0	0	0	625	1348	47	3	866	3	ANKFN1	17	54451996	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	7210460	54451996	26743214	253	253										
TRIM37	4591	broad.mit.edu	37	chr17	57109409	57109409	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cggagcataaatgtgttcttCttgatattctactactggaa	8	7	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:57109409C>G	uc002iwy.3	-	18	2240	c.1796G>C	c.(1795-1797)AGA>ACA	p.R599T	TRIM37_uc002iwz.3_Missense_Mutation_p.R599T|TRIM37_uc002ixa.3_Missense_Mutation_p.R477T|TRIM37_uc010woc.1_Missense_Mutation_p.R565T	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	599						perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					ATGTGTTCTTCTTGATATTCT	0.363									Mulibrey_Nanism				24	99	---	---	---	---	PASS	G	57109409	G	G	57109409	3	3	1	1	0	0	0	0	1	0	0	0	16508	913	32	2	1134	2	TRIM37	17	57109409	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	2657413	57109409	24085801	254	254										
APPBP2	10513	broad.mit.edu	37	chr17	58556552	58556552	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aaaccaatgaagcatctcatCgtgtagagtacacaactgaa	7	9	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:58556552C>A	uc002iys.1	-	4	748	c.460G>T	c.(460-462)GAT>TAT	p.D154Y	APPBP2_uc010ddl.1_Missense_Mutation_p.D83Y	NM_006380	NP_006371	Q92624	APBP2_HUMAN	amyloid beta precursor protein-binding protein	154					intracellular protein transport	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|nucleus	microtubule motor activity|protein binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.67e-13)|all cancers(12;1.44e-11)|Colorectal(3;0.01)			AGCATCTCATCGTGTAGAGTA	0.393													4	67	---	---	---	---	PASS	A	58556552	A	A	58556552	3	1	1	1	0	0	0	0	1	0	0	0	816	884	31	2	1337	2	APPBP2	17	58556552	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1447143	58556552	22638658	255	255										
EFCAB3	146779	broad.mit.edu	37	chr17	60460380	60460380	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aaccaaaacttaagctgaatCctctaacaaaagtacccatc	3	12	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:60460380C>G	uc002izu.1	+	2	118	c.40C>G	c.(40-42)CCT>GCT	p.P14A	EFCAB3_uc010wpc.1_Missense_Mutation_p.P66A	NM_173503	NP_775774	Q8N7B9	EFCB3_HUMAN	EF-hand calcium binding domain 3 isoform b	14							calcium ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(2;2.27e-11)			TAAGCTGAATCCTCTAACAAA	0.299													4	71	---	---	---	---	PASS	G	60460380	G	G	60460380	3	3	1	1	0	0	0	0	1	0	0	0	4935	855	30	2	210	2	EFCAB3	17	60460380	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1903828	60460380	20734830	256	256										
MGAT5B	146664	broad.mit.edu	37	chr17	74921168	74921168	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cggcacatgggactctccttCaagaagtaccggtgagaggg	14	10	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:74921168C>G	uc002jti.2	+	8	1282	c.1179C>G	c.(1177-1179)TTC>TTG	p.F393L	MGAT5B_uc002jth.2_Missense_Mutation_p.F382L	NM_198955	NP_945193	Q3V5L5	MGT5B_HUMAN	N-acetylglucosaminyltranferase VB isoform 2	382	Lumenal (Potential).					Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						GACTCTCCTTCAAGAAGTACC	0.657													9	65	---	---	---	---	PASS	G	74921168	G	G	74921168	3	3	1	1	0	0	0	0	1	0	0	0	9549	825	29	2	1281	2	MGAT5B	17	74921168	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	14460788	74921168	6274042	257	257										
USP36	57602	broad.mit.edu	37	chr17	76831437	76831437	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	caagcactggatggtggcatTgagaaagcaggtgttgccaa	14	7	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr17:76831437T>C	uc002jvz.1	-	4	725	c.400A>G	c.(400-402)AAT>GAT	p.N134D	USP36_uc002jwa.1_Missense_Mutation_p.N134D|USP36_uc002jwd.1_Missense_Mutation_p.N134D	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	134					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			ATGGTGGCATTGAGAAAGCAG	0.587													16	63	---	---	---	---	PASS	C	76831437	C	C	76831437	3	2	1	1	0	0	0	0	1	0	0	0	17064	1812	63	5	3039	5	USP36	17	76831437	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	1910269	76831437	4363773	258	258										
SPIRE1	56907	broad.mit.edu	37	chr18	12463419	12463419	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gtaggcgtttccttttcaatGgaatgtcgtctctggggtgg	14	7	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr18:12463419G>T	uc002kre.2	-	12	1616	c.1569C>A	c.(1567-1569)TCC>TCA	p.S523S	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Silent_p.S389S|SPIRE1_uc010wzx.1_Silent_p.S312S|SPIRE1_uc010wzy.1_Silent_p.S509S	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	523						cytoskeleton|perinuclear region of cytoplasm	actin binding				0						CCTTTTCAATGGAATGTCGTC	0.473													4	42	---	---	---	---	PASS	T	12463419	T	T	12463419	2	4	1	1	0	0	0	0	0	0	0	1	15070	1335	47	3		3	SPIRE1	18	12463419	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08		12463419	65613829	259	259										
LAMA3	3909	broad.mit.edu	37	chr18	21424984	21424984	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttctttcaggtccgtgttctAgtggtgcctgcagaaaacta	10	9	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr18:21424984A>G	uc002kuq.2	+	30	3701	c.3615A>G	c.(3613-3615)CTA>CTG	p.L1205L	LAMA3_uc002kur.2_Silent_p.L1205L	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1205	Domain IV 1 (domain IV B).				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCCGTGTTCTAGTGGTGCCTG	0.348													9	31	---	---	---	---	PASS	G	21424984	G	G	21424984	2	3	1	1	0	0	0	0	0	0	0	1	8607	407	15	5		5	LAMA3	18	21424984	Silent	SNP	A	TCGA-18-3406-01A-01D-0983-08	8961565	21424984	56652264	260	260										
ATP8B1	5205	broad.mit.edu	37	chr18	55361814	55361814	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctgagatgaaaaataaatacCgtgtaaaccatgtagttcat	7	6	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr18:55361814C>T	uc002lgw.2	-	10	1029	c.1029G>A	c.(1027-1029)ACG>ACA	p.T343T	uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	343	Helical; (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				AAATAAATACCGTGTAAACCA	0.303									Byler_disease				4	18	---	---	---	---	PASS	T	55361814	T	T	55361814	2	4	1	1	0	0	0	0	0	0	0	1	1194	666	23	1		1	ATP8B1	18	55361814	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	33936830	55361814	22715434	261	261										
SOCS6	9306	broad.mit.edu	37	chr18	67992780	67992780	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aatggcttgttgattggcacCacgggagtcatgttgcagag	14	7	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr18:67992780C>A	uc002lkr.1	+	2	1192	c.876C>A	c.(874-876)ACC>ACA	p.T292T	SOCS6_uc010dqq.2_Silent_p.T292T	NM_004232	NP_004223	O14544	SOCS6_HUMAN	suppressor of cytokine signaling 6	292					defense response|JAK-STAT cascade|negative regulation of signal transduction|regulation of growth	cytoplasm				large_intestine(1)|lung(1)	2		Esophageal squamous(42;0.129)|Colorectal(73;0.152)				TGATTGGCACCACGGGAGTCA	0.542													5	88	---	---	---	---	PASS	A	67992780	A	A	67992780	2	1	1	1	0	0	0	0	0	0	0	1	14918	581	21	3		3	SOCS6	18	67992780	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	12630966	67992780	10084468	262	262										
PLIN4	729359	broad.mit.edu	37	chr19	4512463	4512463	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	acagcccctgtgagcccagtGgacacagcatctttagtgcc	10	14	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:4512463G>T	uc002mar.1	-	3	1467	c.1467C>A	c.(1465-1467)TCC>TCA	p.S489S	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	489	27 X 33 AA approximate tandem repeat.|12.					lipid particle|plasma membrane					0						TGAGCCCAGTGGACACAGCAT	0.617													27	103	---	---	---	---	PASS	T	4512463	T	T	4512463	2	4	1	1	0	0	0	0	0	0	0	1	12092	1335	47	3		3	PLIN4	19	4512463	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08		4512463	54616520	263	263										
MUC16	94025	broad.mit.edu	37	chr19	9072615	9072615	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctagtgacactgtggactgaTcagggccagggaaggatgta	15	7	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:9072615T>C	uc002mkp.2	-	3	15035	c.14831A>G	c.(14830-14832)GAT>GGT	p.D4944G		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4946	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTGGACTGATCAGGGCCAGG	0.498													16	100	---	---	---	---	PASS	C	9072615	C	C	9072615	3	2	1	1	0	0	0	0	1	0	0	0	9973	1435	50	5	29020	5	MUC16	19	9072615	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08	4560152	9072615	50056368	264	264										
RGL3	57139	broad.mit.edu	37	chr19	11515847	11515847	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aaaagaatctctctgctgctGaggtggttgttctcatcgga	11	8	3	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:11515847G>C	uc002mrp.2	-	9	1225	c.1161C>G	c.(1159-1161)CTC>CTG	p.L387L	RGL3_uc002mrn.2_Silent_p.L151L|RGL3_uc002mrm.2_Silent_p.L151L|RGL3_uc002mro.2_Silent_p.L387L	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	387	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						CTCTGCTGCTGAGGTGGTTGT	0.542													20	97	---	---	---	---	PASS	C	11515847	C	C	11515847	2	2	1	1	0	0	0	0	0	0	0	1	13278	1277	45	2		2	RGL3	19	11515847	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	2443232	11515847	47613136	265	265										
RGL3	57139	broad.mit.edu	37	chr19	11515889	11515889	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aaaatctgcgaaagtttcctGaaagtagatagcggttccct	9	8	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:11515889G>C	uc002mrp.2	-	9	1183	c.1119C>G	c.(1117-1119)TTC>TTG	p.F373L	RGL3_uc002mrn.2_Missense_Mutation_p.F137L|RGL3_uc002mrm.2_Missense_Mutation_p.F137L|RGL3_uc002mro.2_Missense_Mutation_p.F373L	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	373	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						AAAGTTTCCTGAAAGTAGATA	0.547													16	80	---	---	---	---	PASS	C	11515889	C	C	11515889	3	2	1	1	0	0	0	0	1	0	0	0	13278	1281	45	2	1075	2	RGL3	19	11515889	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	42	11515889	47613094	266	266										
ZNF564	163050	broad.mit.edu	37	chr19	12638156	12638156	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aaaggcttttccacattcctGacatttataaggtccatctc	5	11	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:12638156G>A	uc002mty.2	-	4	976	c.766C>T	c.(766-768)CAG>TAG	p.Q256*	ZNF709_uc002mtx.3_Intron	NM_144976	NP_659413	Q8TBZ8	ZN564_HUMAN	zinc finger protein 564	256	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCACATTCCTGACATTTATAA	0.413													16	70	---	---	---	---	PASS	A	12638156	A	A	12638156	4	1	1	1	0	0	0	0	0	1	0	0	17992	1299	45	2	899	2	ZNF564	19	12638156	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	1122267	12638156	46490827	267	267										
MAST1	22983	broad.mit.edu	37	chr19	12969501	12969501	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ccgtttgtggtcggcatgttCtgctcctttgagactcggcg	13	11	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:12969501C>T	uc002mvm.2	+	12	1442	c.1314C>T	c.(1312-1314)TTC>TTT	p.F438F	MAST1_uc002mvk.2_Silent_p.F434F	NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	438	Protein kinase.				cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						TCGGCATGTTCTGCTCCTTTG	0.587													10	31	---	---	---	---	PASS	T	12969501	T	T	12969501	2	4	1	1	0	0	0	0	0	0	0	1	9324	912	32	2		2	MAST1	19	12969501	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	331345	12969501	46159482	268	268										
MAP1S	55201	broad.mit.edu	37	chr19	17835935	17835935	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgcctggaggagacgggggaGctgctgctacagacaggggg	20	8	0	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:17835935G>T	uc002nhe.1	+	4	390	c.381G>T	c.(379-381)GAG>GAT	p.E127D	MAP1S_uc010eaz.1_RNA|MAP1S_uc010eba.1_Missense_Mutation_p.E127D|MAP1S_uc002nhf.1_Intron|MAP1S_uc010xpv.1_Missense_Mutation_p.E101D	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	127	Necessary for the microtubule-organizing center localization.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						AGACGGGGGAGCTGCTGCTAC	0.617													24	47	---	---	---	---	PASS	T	17835935	T	T	17835935	3	4	1	1	0	0	0	0	1	0	0	0	9234	962	34	3	395	3	MAP1S	19	17835935	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	4866434	17835935	41293048	269	269										
ZNF714	148206	broad.mit.edu	37	chr19	21299686	21299686	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tcttttcaacaagtgatactGagaagacatggcaaatgtga	9	6	2	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:21299686G>A	uc002npo.3	+	5	576	c.216G>A	c.(214-216)CTG>CTA	p.L72L	ZNF714_uc002npl.2_5'UTR|ZNF714_uc010ecp.1_Silent_p.L24L|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	72					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAGTGATACTGAGAAGACATG	0.353													8	53	---	---	---	---	PASS	A	21299686	A	A	21299686	2	1	1	1	0	0	0	0	0	0	0	1	18115	1277	45	2		2	ZNF714	19	21299686	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	3463751	21299686	37829297	270	270										
ATP4A	495	broad.mit.edu	37	chr19	36050025	36050025	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gaagtggagcccaatgtctcCaccgcctccaggttcttgac	10	14	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:36050025C>A	uc002oal.1	-	8	1154	c.1125G>T	c.(1123-1125)GTG>GTT	p.V375V	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	375	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	CCAATGTCTCCACCGCCTCCA	0.597													7	260	---	---	---	---	PASS	A	36050025	A	A	36050025	2	1	1	1	0	0	0	0	0	0	0	1	1145	581	21	3		3	ATP4A	19	36050025	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	14750339	36050025	23078958	271	271										
LGALS4	3960	broad.mit.edu	37	chr19	39297206	39297206	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aggggaagccggtgcccgtaCtcatagaagggatttccatt	13	9	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:39297206C>T	uc002ojg.2	-	4	583	c.369G>A	c.(367-369)GAG>GAA	p.E123E	LGALS4_uc010xuj.1_Silent_p.E123E	NM_006149	NP_006140	P56470	LEG4_HUMAN	galectin-4	123	Galectin 1.				cell adhesion	cytosol|plasma membrane	sugar binding			ovary(1)|skin(1)	2	all_cancers(60;1.02e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			GGTGCCCGTACTCATAGAAGG	0.552													28	22	---	---	---	---	PASS	T	39297206	T	T	39297206	2	4	1	1	0	0	0	0	0	0	0	1	8745	564	20	3		3	LGALS4	19	39297206	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	3247181	39297206	19831777	272	272										
IRGC	56269	broad.mit.edu	37	chr19	44223137	44223137	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tcttcctgctggtctcccccCgccgctgcggggccgtcgag	13	18	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:44223137C>G	uc002oxh.2	+	2	574	c.427C>G	c.(427-429)CGC>GGC	p.R143G		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	143						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				GGTCTCCCCCCGCCGCTGCGG	0.652													3	3	---	---	---	---	PASS	G	44223137	G	G	44223137	3	3	1	1	0	0	0	0	1	0	0	0	7838	652	23	4	429	4	IRGC	19	44223137	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	4925931	44223137	14905846	273	273										
DHX34	9704	broad.mit.edu	37	chr19	47883023	47883023	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ggtgactgctcccgcctggtGgccgatggctggctggagct	17	12	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:47883023G>T	uc010xyn.1	+	14	3104	c.2763G>T	c.(2761-2763)GTG>GTT	p.V921V	DHX34_uc010xyo.1_Silent_p.V50V	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	921						intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		CCCGCCTGGTGGCCGATGGCT	0.632													4	38	---	---	---	---	PASS	T	47883023	T	T	47883023	2	4	1	1	0	0	0	0	0	0	0	1	4507	1335	47	3		3	DHX34	19	47883023	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	3659886	47883023	11245960	274	274										
CCDC155	147872	broad.mit.edu	37	chr19	49910146	49910146	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gccattccttcttctagaacGggaagctgcttgccgagcgg	12	12	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:49910146G>A	uc002pnm.1	+	10	976	c.802G>A	c.(802-804)GGG>AGG	p.G268R	CCDC155_uc010emx.1_Missense_Mutation_p.G241R	NM_144688	NP_653289	Q8N6L0	CC155_HUMAN	coiled-coil domain containing 155	268	Potential.					integral to membrane	calcium ion binding			ovary(1)|central_nervous_system(1)	2						CTTCTAGAACGGGAAGCTGCT	0.398													5	19	---	---	---	---	PASS	A	49910146	A	A	49910146	3	1	1	1	0	0	0	0	1	0	0	0	2788	1116	39	1	836	1	CCDC155	19	49910146	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	2027123	49910146	9218837	275	275										
KLK1	3816	broad.mit.edu	37	chr19	51323551	51323551	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gcggagcagcatgaggtcgtGgctgtagtcctcgtctgctt	15	10	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:51323551G>T	uc002ptk.1	-	3	394	c.355C>A	c.(355-357)CAC>AAC	p.H119N	KLK1_uc010ycg.1_RNA	NM_002257	NP_002248	P06870	KLK1_HUMAN	kallikrein 1 preproprotein	119	Peptidase S1.				proteolysis	nucleus	serine-type endopeptidase activity				0		all_neural(266;0.0199)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00399)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATGAGGTCGTGGCTGTAGTCC	0.587													5	77	---	---	---	---	PASS	T	51323551	T	T	51323551	3	4	1	1	0	0	0	0	1	0	0	0	8397	1348	47	3	445	3	KLK1	19	51323551	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	1413405	51323551	7805432	276	276										
SIGLEC12	89858	broad.mit.edu	37	chr19	52003549	52003549	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gtatcttgacagtaggtcctGggacgctgtggagaaacgag	15	7	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:52003549G>T	uc002pwx.1	-	2	489	c.433C>A	c.(433-435)CAG>AAG	p.Q145K	SIGLEC12_uc002pww.1_Missense_Mutation_p.Q27K|SIGLEC12_uc010eoy.1_Intron	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	145	Ig-like V-type 2.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		AGTAGGTCCTGGGACGCTGTG	0.592													17	34	---	---	---	---	PASS	T	52003549	T	T	52003549	3	4	1	1	0	0	0	0	1	0	0	0	14308	1357	47	3	1382	3	SIGLEC12	19	52003549	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	679998	52003549	7125434	277	277										
ZNF614	80110	broad.mit.edu	37	chr19	52520455	52520455	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gatttcaaattttttctgtaCaagtcaaatgtatcatgatt	5	5	4	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:52520455C>G	uc002pyj.2	-	5	798	c.396G>C	c.(394-396)TTG>TTC	p.L132F	ZNF614_uc002pyi.3_Missense_Mutation_p.L132F|ZNF614_uc010epj.2_5'UTR	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	132					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		TTTTTCTGTACAAGTCAAATG	0.338													7	20	---	---	---	---	PASS	G	52520455	G	G	52520455	3	3	1	1	0	0	0	0	1	0	0	0	18036	477	17	4	1365	4	ZNF614	19	52520455	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	516906	52520455	6608528	278	278										
ZNF765	91661	broad.mit.edu	37	chr19	53912075	53912075	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gtggcaagaccttcaatcagCagttaacccttaacatttgt	7	10	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:53912075C>A	uc010ydx.1	+	6	1594	c.1267C>A	c.(1267-1269)CAG>AAG	p.Q423K	ZNF765_uc002qbm.2_Missense_Mutation_p.Q423K|ZNF765_uc002qbn.2_Intron	NM_001040185	NP_001035275	Q7L2R6	ZN765_HUMAN	zinc finger protein 765	423	C2H2-type 8; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00379)		CTTCAATCAGCAGTTAACCCT	0.373													53	67	---	---	---	---	PASS	A	53912075	A	A	53912075	3	1	1	1	0	0	0	0	1	0	0	0	18136	711	25	3	1277	3	ZNF765	19	53912075	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1391620	53912075	5216908	279	279										
LILRA4	23547	broad.mit.edu	37	chr19	54849797	54849797	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttgaccttgttttcagactcCagtgtttttaatatgtgcct	7	8	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:54849797C>A	uc002qfj.2	-	3	282	c.225G>T	c.(223-225)CTG>CTT	p.L75L	LILRA4_uc002qfi.2_Silent_p.L9L	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	75	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		TTTCAGACTCCAGTGTTTTTA	0.517													6	186	---	---	---	---	PASS	A	54849797	A	A	54849797	2	1	1	1	0	0	0	0	0	0	0	1	8787	581	21	3		3	LILRA4	19	54849797	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	937722	54849797	4279186	280	280										
LILRA2	11027	broad.mit.edu	37	chr19	55087554	55087554	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctgctgtctctccccagtgaCcccctggagctcgtggtctc	10	17	2	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:55087554C>A	uc002qgg.3	+	6	1322	c.1233C>A	c.(1231-1233)GAC>GAA	p.D411E	LILRA2_uc010ern.2_Missense_Mutation_p.D411E|LILRA2_uc002qgf.2_Missense_Mutation_p.D411E|LILRA2_uc010yfe.1_Missense_Mutation_p.D411E|LILRA2_uc010yff.1_Missense_Mutation_p.D399E|LILRA2_uc010ero.2_Missense_Mutation_p.D399E|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	411	Ig-like C2-type 4.|Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		TCCCCAGTGACCCCCTGGAGC	0.612													113	120	---	---	---	---	PASS	A	55087554	A	A	55087554	3	1	1	1	0	0	0	0	1	0	0	0	8785	506	18	3	1255	3	LILRA2	19	55087554	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	237757	55087554	4041429	281	281										
BRSK1	84446	broad.mit.edu	37	chr19	55813535	55813535	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttcagaaacatccttggtacCtgtgagtatggggtaactgg	12	7	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:55813535C>T	uc002qkg.2	+	9	1133	c.856C>T	c.(856-858)CTA>TTA	p.L286L	BRSK1_uc002qkf.2_Silent_p.L302L|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)	101	374	---	---	---	---	PASS	T	55813535	T	T	55813535	2	4	1	1	0	0	0	0	0	0	0	1	1523	695	24	3		3	BRSK1	19	55813535	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	725981	55813535	3315448	282	282										
NLRP11	204801	broad.mit.edu	37	chr19	56297101	56297101	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aggtattattgaacctggctGagaagcaggtgtcacaccaa	11	8	1	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:56297101G>T	uc010ygf.1	-	12	3703	c.2992C>A	c.(2992-2994)CAG>AAG	p.Q998K	NLRP11_uc002qlz.2_Missense_Mutation_p.Q845K|NLRP11_uc002qmb.2_Missense_Mutation_p.Q899K|NLRP11_uc002qmc.2_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	998							ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		GAACCTGGCTGAGAAGCAGGT	0.393													5	124	---	---	---	---	PASS	T	56297101	T	T	56297101	3	4	1	1	0	0	0	0	1	0	0	0	10473	1299	45	2	113	2	NLRP11	19	56297101	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	483566	56297101	2831882	283	283										
USP29	57663	broad.mit.edu	37	chr19	57640914	57640914	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	agcaggggttccccaatttgGgaaacacctgttacatgaat	10	9	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:57640914G>A	uc002qny.2	+	4	1227	c.871G>A	c.(871-873)GGA>AGA	p.G291R		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	291					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CCCCAATTTGGGAAACACCTG	0.468													19	41	---	---	---	---	PASS	A	57640914	A	A	57640914	3	1	1	1	0	0	0	0	1	0	0	0	17056	1233	43	3	873	3	USP29	19	57640914	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	1343813	57640914	1488069	284	284										
A1BG	1	broad.mit.edu	37	chr19	58861774	58861774	+	Frame_Shift_Del	DEL	C	-	-													0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	agcgctcgctgggcgcggagCccccgaaaggcggcttcagg							TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr19:58861774delC	uc002qsd.3	-	6	1216	c.1154delG	c.(1153-1155)GGCfs	p.G385fs	NCRNA00181_uc002qse.2_Intron|A1BG_uc002qsf.1_RNA|NCRNA00181_uc002qsg.2_5'Flank	NM_130786	NP_570602	P04217	A1BG_HUMAN	alpha 1B-glycoprotein precursor	385	Ig-like V-type 4.					extracellular region					0		all_cancers(17;3.04e-16)|all_epithelial(17;7.77e-12)|Lung NSC(17;3.25e-05)|Colorectal(82;5.46e-05)|all_lung(17;0.000129)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(17;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0269)		GGGCGCGGAGCCCCCGAAAGG	0.701													3	4	---	---	---	---		-	58861774	-	-	58861774	7	5	1	1	0	1	0	1	0	0	0	0	1	739	26	0	345	0	A1BG	19	58861774	Frame_Shift_Del	DEL	C	TCGA-18-3406-01A-01D-0983-08	1220860	58861774	267209	285	285										
SLC23A2	9962	broad.mit.edu	37	chr20	4866555	4866555	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctggcctgaaacaggggtaaCctaaaagaaacgagaccaaa	10	9	0	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr20:4866555C>A	uc002wlg.1	-	7	858	c.483G>T	c.(481-483)AGG>AGT	p.R161S	SLC23A2_uc010zqr.1_Intron|SLC23A2_uc002wlh.1_Missense_Mutation_p.R161S|SLC23A2_uc002wli.2_Missense_Mutation_p.R160S	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	161					L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						ACAGGGGTAACCTAAAAGAAA	0.443													9	29	---	---	---	---	PASS	A	4866555	A	A	4866555	3	1	1	1	0	0	0	0	1	0	0	0	14463	521	18	3	1513	3	SLC23A2	20	4866555	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08		4866555	58158965	286	286										
SEC23B	10483	broad.mit.edu	37	chr20	18529360	18529360	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cggcaggacctgacccagtcCctcatcatgatccagcccat	8	17	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr20:18529360C>T	uc002wqz.1	+	16	2294	c.1851C>T	c.(1849-1851)TCC>TCT	p.S617S	SEC23B_uc002wra.1_Silent_p.S617S|SEC23B_uc002wrb.1_Silent_p.S617S|SEC23B_uc010zsb.1_Silent_p.S599S|SEC23B_uc002wrc.1_Silent_p.S617S	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	617					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						TGACCCAGTCCCTCATCATGA	0.473													5	41	---	---	---	---	PASS	T	18529360	T	T	18529360	2	4	1	1	0	0	0	0	0	0	0	1	13992	610	22	3		3	SEC23B	20	18529360	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	13662805	18529360	44496160	287	287										
PPDPF	79144	broad.mit.edu	37	chr20	62153023	62153023	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ccacttcgcttctctcaggtCtccccaaggctgacccgggt	9	17	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr20:62153023C>G	uc002yff.2	+	4	276	c.136C>G	c.(136-138)CTC>GTC	p.L46V		NM_024299	NP_077275	Q9H3Y8	PPDPF_HUMAN	pancreatic progenitor cell differentiation and	46					cell differentiation|multicellular organismal development						0						TCTCTCAGGTCTCCCCAAGGC	0.632													5	39	---	---	---	---	PASS	G	62153023	G	G	62153023	3	3	1	1	0	0	0	0	1	0	0	0	12306	913	32	2	146	2	PPDPF	20	62153023	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	43623663	62153023	872497	288	288										
CLDN8	9073	broad.mit.edu	37	chr21	31588225	31588225	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aagaaacagcccagcgatttCtaaggcatgggttgccatta	10	9	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr21:31588225C>G	uc002ynu.1	-	1	94	c.19G>C	c.(19-21)GAA>CAA	p.E7Q		NM_199328	NP_955360	P56748	CLD8_HUMAN	claudin 8	7	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	endoplasmic reticulum|integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CCAGCGATTTCTAAGGCATGG	0.512													10	37	---	---	---	---	PASS	G	31588225	G	G	31588225	3	3	1	1	0	0	0	0	1	0	0	0	3491	922	32	2	662	2	CLDN8	21	31588225	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08		31588225	16541670	289	289										
KRTAP19-3	337970	broad.mit.edu	37	chr21	31864183	31864183	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ccagaacccagtctgcggaaGctgccacatccacagccata	8	16	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr21:31864183G>A	uc002yog.1	-	1	93	c.93C>T	c.(91-93)AGC>AGT	p.S31S		NM_181609	NP_853640	Q7Z4W3	KR193_HUMAN	keratin associated protein 19-3	31						intermediate filament					0						GTCTGCGGAAGCTGCCACATC	0.577													39	119	---	---	---	---	PASS	A	31864183	A	A	31864183	2	1	1	1	0	0	0	0	0	0	0	1	8530	962	34	3		3	KRTAP19-3	21	31864183	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	275958	31864183	16265712	290	290										
COL18A1	80781	broad.mit.edu	37	chr21	46897366	46897366	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	attctgtctccacgtgggacGggagtgtccggacccctggg	15	12	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr21:46897366G>T	uc011afs.1	+	6	2236	c.2215G>T	c.(2215-2217)GGG>TGG	p.G739W	COL18A1_uc002zhg.2_Missense_Mutation_p.G324W|COL18A1_uc002zhi.2_Missense_Mutation_p.G504W	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	739	Nonhelical region 1 (NC1).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		CACGTGGGACGGGAGTGTCCG	0.642													3	6	---	---	---	---	PASS	T	46897366	T	T	46897366	3	4	1	1	0	0	0	0	1	0	0	0	3675	1116	39	1	2351	1	COL18A1	21	46897366	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	15033183	46897366	1232529	291	291										
SLC25A18	83733	broad.mit.edu	37	chr22	18064177	18064177	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gggcttcttcggcatgtaccGaggtgggcttctcaggtccc	14	12	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr22:18064177G>A	uc002zmp.1	+	5	691	c.197G>A	c.(196-198)CGA>CAA	p.R66Q	SLC25A18_uc010gqx.2_Missense_Mutation_p.R66Q|SLC25A18_uc002zmq.1_Missense_Mutation_p.R66Q	NM_031481	NP_113669	Q9H1K4	GHC2_HUMAN	solute carrier	66	Solcar 1.|Helical; Name=2; (Potential).					integral to membrane|mitochondrial inner membrane	binding|symporter activity				0				Lung(27;0.124)	L-Glutamic Acid(DB00142)	GGCATGTACCGAGGTGGGCTT	0.637													20	45	---	---	---	---	PASS	A	18064177	A	A	18064177	3	1	1	1	0	0	0	0	1	0	0	0	14480	1058	37	2	207	2	SLC25A18	22	18064177	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08		18064177	33240389	292	292										
TCN2	6948	broad.mit.edu	37	chr22	31003382	31003382	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gggccctcactgagatgtgtGgtgagtaactcgcctctatc	12	11	2	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr22:31003382G>T	uc003aip.1	+	1	222	c.64G>T	c.(64-66)GAA>TAA	p.E22*	PES1_uc003ain.1_5'Flank|PES1_uc003aio.1_5'Flank|TCN2_uc003aiq.1_Nonsense_Mutation_p.E22*|TCN2_uc003air.1_Nonsense_Mutation_p.E22*	NM_000355	NP_000346	P20062	TCO2_HUMAN	transcobalamin II precursor	22					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular space	cobalamin binding			central_nervous_system(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TGAGATGTGTGGTGAGTAACT	0.542													5	29	---	---	---	---	PASS	T	31003382	T	T	31003382	4	4	1	1	0	0	0	0	0	1	0	0	15704	1362	47	3	66	3	TCN2	22	31003382	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	12939205	31003382	20301184	293	293										
DEPDC5	9681	broad.mit.edu	37	chr22	32241209	32241209	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ttcgcaggcggcatcgctcgGatcgcatgatgcgggtaagg	16	10	0	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr22:32241209G>T	uc003als.2	+	30	3122	c.2980G>T	c.(2980-2982)GAT>TAT	p.D994Y	DEPDC5_uc011als.1_Missense_Mutation_p.D925Y|DEPDC5_uc011alu.1_Missense_Mutation_p.D1003Y|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.D994Y|DEPDC5_uc003alu.2_Missense_Mutation_p.D443Y|DEPDC5_uc003alv.2_RNA|DEPDC5_uc011alw.1_Missense_Mutation_p.D324Y|DEPDC5_uc003alw.2_Missense_Mutation_p.D292Y|DEPDC5_uc011alx.1_Intron|DEPDC5_uc010gwk.2_5'UTR	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	994					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						GCATCGCTCGGATCGCATGAT	0.607													8	17	---	---	---	---	PASS	T	32241209	T	T	32241209	3	4	1	1	0	0	0	0	1	0	0	0	4442	1174	41	2	3112	2	DEPDC5	22	32241209	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	1237827	32241209	19063357	294	294										
SLC5A1	6523	broad.mit.edu	37	chr22	32477933	32477933	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gccatctttctcttattggcAatcactgccctttacacaat	4	13	3	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr22:32477933A>G	uc003amc.2	+	6	790	c.558A>G	c.(556-558)GCA>GCG	p.A186A	SLC5A1_uc011alz.1_Silent_p.A59A	NM_000343	NP_000334	P13866	SC5A1_HUMAN	solute carrier family 5 (sodium/glucose	186	Helical; (Potential).				carbohydrate metabolic process	integral to plasma membrane	glucose:sodium symporter activity|protein binding			skin(1)	1						TCTTATTGGCAATCACTGCCC	0.478													12	67	---	---	---	---	PASS	G	32477933	G	G	32477933	2	3	1	1	0	0	0	0	0	0	0	1	14661	117	5	5		5	SLC5A1	22	32477933	Silent	SNP	A	TCGA-18-3406-01A-01D-0983-08	236724	32477933	18826633	295	295										
CYTH4	27128	broad.mit.edu	37	chr22	37707538	37707538	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atacctcttgagaacctctcGgtgcagaaggtggatgaccc	11	11	2	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr22:37707538G>A	uc003arf.2	+	11	1043	c.927G>A	c.(925-927)TCG>TCA	p.S309S	CYTH4_uc011amw.1_Silent_p.S252S|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	309	PH.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						AGAACCTCTCGGTGCAGAAGG	0.562													11	32	---	---	---	---	PASS	A	37707538	A	A	37707538	2	1	1	1	0	0	0	0	0	0	0	1	4206	1103	39	1		1	CYTH4	22	37707538	Silent	SNP	G	TCGA-18-3406-01A-01D-0983-08	5229605	37707538	13597028	296	296										
TUBGCP6	85378	broad.mit.edu	37	chr22	50662625	50662625	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cagccttctctccctgtctcGgagttcacgggcgtagctga	11	14	3	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chr22:50662625G>A	uc003bkb.1	-	13	2727	c.2215C>T	c.(2215-2217)CGA>TGA	p.R739*	TUBGCP6_uc003bka.1_5'Flank|TUBGCP6_uc010har.1_Nonsense_Mutation_p.R739*|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hat.1_5'UTR|TUBGCP6_uc003bkd.1_Nonsense_Mutation_p.R93*	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	739					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		TCCCTGTCTCGGAGTTCACGG	0.627													12	33	---	---	---	---	PASS	A	50662625	A	A	50662625	4	1	1	1	0	0	0	0	0	1	0	0	16767	1124	39	1	3296	1	TUBGCP6	22	50662625	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	12955087	50662625	641941	297	297										
CSF2RA	1438	broad.mit.edu	37	chrX	1424405	1424405	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gacaaactgaatgataaccaTgaggtggaagacgaggtagg	14	5	0	4			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:1424405T>A	uc010nct.2	+	13	1432	c.1110T>A	c.(1108-1110)CAT>CAA	p.H370Q	CSF2RA_uc011mhb.1_Missense_Mutation_p.H370Q|CSF2RA_uc004cpq.2_3'UTR|CSF2RA_uc004cpn.2_Missense_Mutation_p.H370Q|CSF2RA_uc004cpo.2_Missense_Mutation_p.H370Q|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Missense_Mutation_p.H237Q|CSF2RA_uc004cpp.2_Intron|CSF2RA_uc010ncv.2_Missense_Mutation_p.H404Q|CSF2RA_uc004cpr.2_3'UTR	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	370	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	ATGATAACCATGAGGTGGAAG	0.552													7	197	---	---	---	---	PASS	A	1424405	A	A	1424405	3	1	1	1	0	0	0	0	1	0	0	0	3934	1461	51	5	1254	5	CSF2RA	23	1424405	Missense_Mutation	SNP	T	TCGA-18-3406-01A-01D-0983-08		1424405	153846155	298	298										
NLGN4X	57502	broad.mit.edu	37	chrX	5811256	5811256	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	taagatgttgaggaagaggaGcgacgccccgacggcaatgg	16	8	0	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:5811256G>C	uc010ndh.2	-	6	2554	c.2053C>G	c.(2053-2055)CTC>GTC	p.L685V	NLGN4X_uc004crp.2_Missense_Mutation_p.L705V|NLGN4X_uc004crq.2_Missense_Mutation_p.L685V|NLGN4X_uc010ndi.2_Missense_Mutation_p.L722V|NLGN4X_uc004crr.2_Missense_Mutation_p.L685V|NLGN4X_uc010ndj.2_Missense_Mutation_p.L685V	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	685	Helical; (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						AGGAAGAGGAGCGACGCCCCG	0.532													44	23	---	---	---	---	PASS	C	5811256	C	C	5811256	3	2	1	1	0	0	0	0	1	0	0	0	10464	971	34	4	401	4	NLGN4X	23	5811256	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	4386851	5811256	149459304	299	299										
ZNF41	7592	broad.mit.edu	37	chrX	47308087	47308087	+	Missense_Mutation	SNP	C	A	A													0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atctctggaaaaaggcttttCcacattcactgcatttgtag							TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:47308087C>A	uc004dhs.3	-	4	1275	c.1208G>T	c.(1207-1209)GGA>GTA	p.G403V	ZNF41_uc004dhu.3_Missense_Mutation_p.G395V|ZNF41_uc004dht.3_Missense_Mutation_p.G275V|ZNF41_uc004dhv.3_Missense_Mutation_p.G371V|ZNF41_uc004dhw.3_Missense_Mutation_p.G363V|ZNF41_uc004dhy.3_Missense_Mutation_p.G361V|ZNF41_uc004dhx.3_Missense_Mutation_p.G361V|ZNF41_uc011mlm.1_Missense_Mutation_p.G275V	NM_153380	NP_700359	P51814	ZNF41_HUMAN	zinc finger protein 41	403	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3		all_lung(315;0.000129)				AAAGGCTTTTCCACATTCACT	0.403													8	22	---	---	---	---	PASS	A	47308087	A	A	47308087	3	1	1	1	0	0	0	0	1	0	0	0	17886	855	30	2	1261	2	ZNF41	23	47308087	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	41496831	47308087	107962473	300	300	3	2								
ZNF41	7592	broad.mit.edu	37	chrX	47308088	47308088	+	Nonsense_Mutation	SNP	C	A	A													0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tctctggaaaaaggcttttcCacattcactgcatttgtagg							TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:47308088C>A	uc004dhs.3	-	4	1274	c.1207G>T	c.(1207-1209)GGA>TGA	p.G403*	ZNF41_uc004dhu.3_Nonsense_Mutation_p.G395*|ZNF41_uc004dht.3_Nonsense_Mutation_p.G275*|ZNF41_uc004dhv.3_Nonsense_Mutation_p.G371*|ZNF41_uc004dhw.3_Nonsense_Mutation_p.G363*|ZNF41_uc004dhy.3_Nonsense_Mutation_p.G361*|ZNF41_uc004dhx.3_Nonsense_Mutation_p.G361*|ZNF41_uc011mlm.1_Nonsense_Mutation_p.G275*	NM_153380	NP_700359	P51814	ZNF41_HUMAN	zinc finger protein 41	403	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3		all_lung(315;0.000129)				AAGGCTTTTCCACATTCACTG	0.398													8	22	---	---	---	---	PASS	A	47308088	A	A	47308088	4	1	1	1	0	0	0	0	0	1	0	0	17886	603	21	3	1262	3	ZNF41	23	47308088	Nonsense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	1	47308088	107962472	301	301	3	2								
XAGE3	170626	broad.mit.edu	37	chrX	52893869	52893869	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	cctggtcatcaggaccatttCcacattcacccccagtcttt	5	16	4	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:52893869C>G	uc004dre.2	-	4	308	c.248G>C	c.(247-249)GGA>GCA	p.G83A	XAGE3_uc004drf.2_Missense_Mutation_p.G83A	NM_130776	NP_570132	Q8WTP9	GAGD4_HUMAN	XAGE-3 protein	83											0						AGGACCATTTCCACATTCACC	0.433													18	28	---	---	---	---	PASS	G	52893869	G	G	52893869	3	3	1	1	0	0	0	0	1	0	0	0	17417	855	30	2	95	2	XAGE3	23	52893869	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	5585781	52893869	102376691	302	302										
FAM123B	139285	broad.mit.edu	37	chrX	63412922	63412922	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	ctttcttggagctgcctttcCcagaacctttgctccgtccc	7	16	1	1			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:63412922C>A	uc004dvo.2	-	2	518	c.245G>T	c.(244-246)GGG>GTG	p.G82V		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	82					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						GCTGCCTTTCCCAGAACCTTT	0.527													11	17	---	---	---	---	PASS	A	63412922	A	A	63412922	3	1	1	1	0	0	0	0	1	0	0	0	5423	623	22	3	3166	3	FAM123B	23	63412922	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	10519053	63412922	91857638	303	303										
ATRX	546	broad.mit.edu	37	chrX	76889176	76889176	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atccagtttgtcacacaaaaGaactgtatgaagaaaactta	6	7	1	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:76889176G>C	uc004ecp.3	-	18	5066	c.4834C>G	c.(4834-4836)CTT>GTT	p.L1612V	ATRX_uc004ecq.3_Missense_Mutation_p.L1574V|ATRX_uc004eco.3_Missense_Mutation_p.L1397V	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1612	Helicase ATP-binding.				DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TCACACAAAAGAACTGTATGA	0.328			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						11	10	---	---	---	---	PASS	C	76889176	C	C	76889176	3	2	1	1	0	0	0	0	1	0	0	0	1208	942	33	2	2716	2	ATRX	23	76889176	Missense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	13476254	76889176	78381384	304	304										
TBX22	50945	broad.mit.edu	37	chrX	79282782	79282782	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	aactaaaaatagaaagaaatCcttttgctaaaggatttaga	6	4	0	3			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:79282782C>G	uc010nmg.1	+	7	960	c.826C>G	c.(826-828)CCT>GCT	p.P276A	TBX22_uc004edi.1_Missense_Mutation_p.P156A|TBX22_uc004edj.1_Missense_Mutation_p.P276A	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	276	T-box.				multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						AGAAAGAAATCCTTTTGCTAA	0.318													3	10	---	---	---	---	PASS	G	79282782	G	G	79282782	3	3	1	1	0	0	0	0	1	0	0	0	15655	855	30	2	848	2	TBX22	23	79282782	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	2393606	79282782	75987778	305	305										
BRWD3	254065	broad.mit.edu	37	chrX	79971739	79971739	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	accttttgcagttcgacattCttcctgtaccctaataacaa	4	12	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:79971739C>T	uc004edt.2	-	20	2505	c.2242G>A	c.(2242-2244)GAA>AAA	p.E748K	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.E344K|BRWD3_uc004edp.2_Missense_Mutation_p.E577K|BRWD3_uc004edq.2_Missense_Mutation_p.E344K|BRWD3_uc010nmj.1_Missense_Mutation_p.E344K|BRWD3_uc004edr.2_Missense_Mutation_p.E418K|BRWD3_uc004eds.2_Missense_Mutation_p.E344K|BRWD3_uc004edu.2_Missense_Mutation_p.E418K|BRWD3_uc004edv.2_Missense_Mutation_p.E344K|BRWD3_uc004edw.2_Missense_Mutation_p.E344K|BRWD3_uc004edx.2_Missense_Mutation_p.E344K|BRWD3_uc004edy.2_Missense_Mutation_p.E344K|BRWD3_uc004edz.2_Missense_Mutation_p.E418K|BRWD3_uc004eea.2_Missense_Mutation_p.E418K|BRWD3_uc004eeb.2_Missense_Mutation_p.E344K	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	748										ovary(4)	4						GTTCGACATTCTTCCTGTACC	0.294													12	20	---	---	---	---	PASS	T	79971739	T	T	79971739	3	4	1	1	0	0	0	0	1	0	0	0	1526	922	32	2	3254	2	BRWD3	23	79971739	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	688957	79971739	75298821	306	306										
CYLC1	1538	broad.mit.edu	37	chrX	83128726	83128726	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	agagtctactgatgctgaatCtggagactcaaaggatgaaa	11	6	3	5			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:83128726C>G	uc004eei.1	+	4	1031	c.1010C>G	c.(1009-1011)TCT>TGT	p.S337C	CYLC1_uc004eeh.1_Missense_Mutation_p.S336C	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	337	2.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						GATGCTGAATCTGGAGACTCa	0.234													10	12	---	---	---	---	PASS	G	83128726	G	G	83128726	3	3	1	1	0	0	0	0	1	0	0	0	4141	913	32	2	1024	2	CYLC1	23	83128726	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	3156987	83128726	72141834	307	307										
NRK	203447	broad.mit.edu	37	chrX	105152885	105152885	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	gagcagccagggtattcatgCcactgcaggctctggacagt	13	11	2	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:105152885C>A	uc004emd.2	+	13	1555	c.1252C>A	c.(1252-1254)CCA>ACA	p.P418T	NRK_uc010npc.1_Missense_Mutation_p.P86T	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	418	Gln-rich.						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						GGTATTCATGCCACTGCAGGC	0.597										HNSCC(51;0.14)			10	15	---	---	---	---	PASS	A	105152885	A	A	105152885	3	1	1	1	0	0	0	0	1	0	0	0	10655	739	26	3	1302	3	NRK	23	105152885	Missense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	22024159	105152885	50117675	308	308										
RGAG1	57529	broad.mit.edu	37	chrX	109694758	109694758	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tcatgtcagatctagactctGgaataatgtcatcgctttta	7	8	5	2			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:109694758G>T	uc004eor.1	+	3	1159	c.913G>T	c.(913-915)GGA>TGA	p.G305*	RGAG1_uc011msr.1_Nonsense_Mutation_p.G305*	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	305										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TCTAGACTCTGGAATAATGTC	0.478													6	113	---	---	---	---	PASS	T	109694758	T	T	109694758	4	4	1	1	0	0	0	0	0	1	0	0	13274	1349	47	3	915	3	RGAG1	23	109694758	Nonsense_Mutation	SNP	G	TCGA-18-3406-01A-01D-0983-08	4541873	109694758	45575802	309	309										
AMOT	154796	broad.mit.edu	37	chrX	112058618	112058618	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgccaccttctcatagcatcCttccaactcttgcctcaagt	4	16	3	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:112058618C>A	uc004epr.2	-	2	1360	c.1360G>T	c.(1360-1362)GGA>TGA	p.G454*	AMOT_uc004eps.2_Nonsense_Mutation_p.G45*|AMOT_uc004ept.1_Nonsense_Mutation_p.G454*	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	454	Potential.				actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						TCATAGCATCCTTCCAACTCT	0.478													7	164	---	---	---	---	PASS	A	112058618	A	A	112058618	4	1	1	1	0	0	0	0	0	1	0	0	582	690	24	3	1934	3	AMOT	23	112058618	Nonsense_Mutation	SNP	C	TCGA-18-3406-01A-01D-0983-08	2363860	112058618	43211942	310	310										
OPN1LW	5956	broad.mit.edu	37	chrX	153416411	153416411	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	tgtgtcctggagggctacacCgtctccctgtgtggtaagcc	13	12	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:153416411C>T	uc004fjz.3	+	2	429	c.396C>T	c.(394-396)ACC>ACT	p.T132T		NM_020061	NP_064445	P04000	OPSR_HUMAN	opsin 1 (cone pigments), long-wave-sensitive	132	Helical; Name=3; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0	all_cancers(53;1.83e-16)|all_epithelial(53;2.73e-10)|all_lung(58;6.39e-07)|Lung NSC(58;8.37e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AGGGCTACACCGTCTCCCTGT	0.607													12	17	---	---	---	---	PASS	T	153416411	T	T	153416411	2	4	1	1	0	0	0	0	0	0	0	1	10877	639	23	1		1	OPN1LW	23	153416411	Silent	SNP	C	TCGA-18-3406-01A-01D-0983-08	41357793	153416411	1854149	311	311										
F8	2157	broad.mit.edu	37	chrX	154185447	154185447	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194174757281553	60	6.90272338126454e-13	2.70871985157699	3.76060606060606	1.98328108672936	0.241114976360466	0.618512330663804	38	atccttcaaatgttttacacCtacccacaagcaaaaccata	2	13	1	0			TCGA-18-3406-01A-01D-0983-08	TCGA-18-3406-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3320989-71fd-425b-933e-6e8528a016ed	61812dcb-a44c-4e00-9527-4a5146f617c1	g.chrX:154185447C>T	uc004fmt.2	-	11	1709	c.1538_splice	c.e11-1	p.G513_splice		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor						acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TGTTTTACACCTACCCACAAG	0.363													12	10	---	---	---	---	PASS	T	154185447	T	T	154185447	5	4	1	1	0	0	0	0	0	0	1	0	5350	695	24	3	5610	3	F8	23	154185447	Splice_Site	SNP	C	TCGA-18-3406-01A-01D-0983-08	769036	154185447	1085113	312	312										
PER3	8863	broad.mit.edu	37	chr1	7887817	7887817	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cttacttcaggaagagatgcCcagaccctctgaatctccag	8	13	3	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:7887817C>T	uc001aoo.2	+	17	2979	c.2804C>T	c.(2803-2805)CCC>CTC	p.P935L	PER3_uc009vmg.1_Missense_Mutation_p.P943L|PER3_uc009vmh.1_Missense_Mutation_p.P936L|PER3_uc001aop.2_Missense_Mutation_p.P943L|PER3_uc010nzw.1_Missense_Mutation_p.P624L	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	935					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		GAAGAGATGCCCAGACCCTCT	0.473													5	54	---	---	---	---	PASS	T	7887817	T	T	7887817	3	4	2	1	0	0	0	0	1	0	0	0	11731	623	22	3	2870	3	PER3	1	7887817	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08		7887817	241362804	1	313										
VPS13D	55187	broad.mit.edu	37	chr1	12343573	12343573	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	attctcttccagttacaatcGagttaaccggagcattgatg	8	9	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:12343573G>T	uc001atv.2	+	21	5555	c.5414G>T	c.(5413-5415)CGA>CTA	p.R1805L	VPS13D_uc001atw.2_Missense_Mutation_p.R1805L|VPS13D_uc001atx.2_Missense_Mutation_p.R993L	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	1805					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AGTTACAATCGAGTTAACCGG	0.373													5	75	---	---	---	---	PASS	T	12343573	T	T	12343573	3	4	2	1	0	0	0	0	1	0	0	0	17189	1058	37	2	5492	2	VPS13D	1	12343573	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	4455756	12343573	236907048	2	314										
CELA2B	51032	broad.mit.edu	37	chr1	15808768	15808768	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cctttctcccagctcctccgGgatctaccgcgtgatgctgg	10	16	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:15808768G>T	uc001awl.2	+	4	261	c.236G>T	c.(235-237)GGG>GTG	p.G79V		NM_015849	NP_056933	P08218	CEL2B_HUMAN	elastase 2B preproprotein	79	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1						AGCTCCTCCGGGATCTACCGC	0.572													5	42	---	---	---	---	PASS	T	15808768	T	T	15808768	3	4	2	1	0	0	0	0	1	0	0	0	3212	1232	43	3	250	3	CELA2B	1	15808768	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	3465195	15808768	233441853	3	315										
HSPG2	3339	broad.mit.edu	37	chr1	22154752	22154752	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gggcaggctttcccacctttGaatccatctcgacacaggca	9	14	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:22154752G>T	uc001bfj.2	-	89	12445	c.12405C>A	c.(12403-12405)TTC>TTA	p.F4135L	HSPG2_uc001bfi.2_Missense_Mutation_p.F152L|HSPG2_uc009vqd.2_Missense_Mutation_p.F4136L	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	4135	EGF-like 3.			F -> I (in Ref. 2; CAA44373).	angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TCCCACCTTTGAATCCATCTC	0.642													9	57	---	---	---	---	PASS	T	22154752	T	T	22154752	3	4	2	1	0	0	0	0	1	0	0	0	7430	1281	45	2	806	2	HSPG2	1	22154752	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	6345984	22154752	227095869	4	316										
CSMD2	114784	broad.mit.edu	37	chr1	34067979	34067979	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cctggcctaccagatggtgaTgaaatctccagagggctctg	12	11	2	4			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:34067979T>C	uc001bxn.1	-	44	6735	c.6706A>G	c.(6706-6708)ATC>GTC	p.I2236V	CSMD2_uc001bxm.1_Missense_Mutation_p.I2234V|CSMD2_uc001bxo.1_Missense_Mutation_p.I1107V	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2236	Extracellular (Potential).|CUB 13.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CAGATGGTGATGAAATCTCCA	0.542													5	40	---	---	---	---	PASS	C	34067979	C	C	34067979	3	2	2	1	0	0	0	0	1	0	0	0	3945	1464	51	5	3861	5	CSMD2	1	34067979	Missense_Mutation	SNP	T	TCGA-18-3407-01A-01D-0983-08	11913227	34067979	215182642	5	317										
GJB4	127534	broad.mit.edu	37	chr1	35227351	35227351	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cccgcgtggtggcctgctccGtggagccttgcccccacact	12	18	0	0	rs141637346		TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:35227351G>A	uc001bxv.1	+	2	866	c.496G>A	c.(496-498)GTG>ATG	p.V166M	GJB4_uc001bxw.3_Missense_Mutation_p.V166M	NM_153212	NP_694944	Q9NTQ9	CXB4_HUMAN	gap junction protein, beta 4	166	Extracellular (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity			ovary(2)|central_nervous_system(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				GGCCTGCTCCGTGGAGCCTTG	0.582													8	23	---	---	---	---	PASS	A	35227351	A	A	35227351	3	1	2	1	0	0	0	0	1	0	0	0	6410	1145	40	1	498	1	GJB4	1	35227351	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	1159372	35227351	214023270	6	318										
GLMN	11146	broad.mit.edu	37	chr1	92756981	92756981	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ttttgttaacttacctttacCaataaatcaaagatcaaaaa	2	7	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:92756981C>A	uc001dor.2	-	4	394	c.279G>T	c.(277-279)TTG>TTT	p.L93F	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Missense_Mutation_p.L93F	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	93					muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		TTACCTTTACCAATAAATCAA	0.308									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				5	25	---	---	---	---	PASS	A	92756981	A	A	92756981	3	1	2	1	0	0	0	0	1	0	0	0	6448	593	21	3	1569	3	GLMN	1	92756981	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	57529630	92756981	156493640	7	319										
FMO5	2330	broad.mit.edu	37	chr1	146684906	146684906	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tccagaggtagatgagcattGgtgtgatggccagtgcaaac	14	7	0	4			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:146684906G>T	uc001epi.2	-	4	845	c.456C>A	c.(454-456)ACC>ACA	p.T152T	FMO5_uc001eph.3_Silent_p.T152T|FMO5_uc001epj.2_Silent_p.T152T|FMO5_uc001epk.3_Silent_p.T152T	NM_001461	NP_001452	P49326	FMO5_HUMAN	flavin containing monooxygenase 5 isoform 1	152						integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			ovary(3)	3	all_hematologic(923;0.0487)					GATGAGCATTGGTGTGATGGC	0.507													6	116	---	---	---	---	PASS	T	146684906	T	T	146684906	2	4	2	1	0	0	0	0	0	0	0	1	5958	1335	47	3		3	FMO5	1	146684906	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	53927925	146684906	102565715	8	320										
SV2A	9900	broad.mit.edu	37	chr1	149880790	149880790	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	catcatcatcagagtgatgcGccgatattcgggaccaaaac	9	11	3	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:149880790G>T	uc001etg.2	-	8	1824	c.1333C>A	c.(1333-1335)CGC>AGC	p.R445S	SV2A_uc009wlk.2_5'Flank|SV2A_uc001eth.2_Missense_Mutation_p.R445S	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	445	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	AGAGTGATGCGCCGATATTCG	0.507													6	144	---	---	---	---	PASS	T	149880790	T	T	149880790	3	4	2	1	0	0	0	0	1	0	0	0	15414	1087	38	1	919	1	SV2A	1	149880790	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	3195884	149880790	99369831	9	321										
RPRD2	23248	broad.mit.edu	37	chr1	150444878	150444878	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cctctgagttggcatcccttGggggtgggggcagcggaggc	19	10	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:150444878G>A	uc009wlr.2	+	11	3655	c.3454G>A	c.(3454-3456)GGG>AGG	p.G1152R	RPRD2_uc010pcc.1_3'UTR|RPRD2_uc001eup.3_Missense_Mutation_p.G1126R	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	1152	Poly-Gly.						protein binding			ovary(1)	1						GGCATCCCTTGGGGGTGGGGG	0.547													6	39	---	---	---	---	PASS	A	150444878	A	A	150444878	3	1	2	1	0	0	0	0	1	0	0	0	13617	1348	47	3	3496	3	RPRD2	1	150444878	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	564088	150444878	98805743	10	322										
FLG	2312	broad.mit.edu	37	chr1	152278619	152278619	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ctcctgagcagatccatgatGgtttctggaagcagacccag	11	11	1	4			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:152278619G>T	uc001ezu.1	-	3	8779	c.8743C>A	c.(8743-8745)CAT>AAT	p.H2915N		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2915	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GATCCATGATGGTTTCTGGAA	0.567									Ichthyosis				7	263	---	---	---	---	PASS	T	152278619	T	T	152278619	3	4	2	1	0	0	0	0	1	0	0	0	5922	1348	47	3	3446	3	FLG	1	152278619	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	1833741	152278619	96972002	11	323										
FLG	2312	broad.mit.edu	37	chr1	152280465	152280465	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tgatgagtgcctgattgtctGgagctctctgcagagtgccc	13	10	2	4			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:152280465G>T	uc001ezu.1	-	3	6933	c.6897C>A	c.(6895-6897)TCC>TCA	p.S2299S		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2299	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGATTGTCTGGAGCTCTCTG	0.552									Ichthyosis				9	429	---	---	---	---	PASS	T	152280465	T	T	152280465	2	4	2	1	0	0	0	0	0	0	0	1	5922	1335	47	3		3	FLG	1	152280465	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	1846	152280465	96970156	12	324										
C1orf77	26097	broad.mit.edu	37	chr1	153615769	153615769	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cttaagaagaggtggtgttcGaggtcgtggaggtcctggga	18	5	0	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:153615769G>T	uc001fcm.1	+	5	782	c.470G>T	c.(469-471)CGA>CTA	p.R157L	C1orf77_uc001fcn.1_Missense_Mutation_p.R158L|C1orf77_uc001fco.1_Missense_Mutation_p.R132L|C1orf77_uc001fcp.2_5'Flank|C1orf77_uc009woj.1_3'UTR	NM_015607	NP_056422	Q9Y3Y2	CHTOP_HUMAN	small protein rich in arginine and glycine	157	Arg/Gly-rich.|Interaction with PRMT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	protein binding|RNA binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGTGGTGTTCGAGGTCGTGGA	0.562													7	123	---	---	---	---	PASS	T	153615769	T	T	153615769	3	4	2	1	0	0	0	0	1	0	0	0	2059	1058	37	2	484	2	C1orf77	1	153615769	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	1335304	153615769	95634852	13	325										
UBAP2L	9898	broad.mit.edu	37	chr1	154227742	154227742	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aaccaatcagcattcatcctCcttgggtggcttgagccaca	8	13	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:154227742C>A	uc001fep.3	+	17	2191	c.2024C>A	c.(2023-2025)TCC>TAC	p.S675Y	UBAP2L_uc009wot.2_Missense_Mutation_p.S675Y|UBAP2L_uc010pek.1_Missense_Mutation_p.S667Y|UBAP2L_uc010pel.1_Missense_Mutation_p.S685Y|UBAP2L_uc010pen.1_Missense_Mutation_p.S589Y|UBAP2L_uc001feq.2_5'UTR|UBAP2L_uc001fer.2_5'Flank	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	675					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)			CATTCATCCTCCTTGGGTGGC	0.498													6	71	---	---	---	---	PASS	A	154227742	A	A	154227742	3	1	2	1	0	0	0	0	1	0	0	0	16835	855	30	2	2086	2	UBAP2L	1	154227742	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	611973	154227742	95022879	14	326										
ASH1L	55870	broad.mit.edu	37	chr1	155317595	155317595	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cacttgctgtctctcccacaAtctcatcaatctgggctgat	6	14	4	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:155317595A>G	uc009wqq.2	-	20	8150	c.7670T>C	c.(7669-7671)ATT>ACT	p.I2557T	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.I2552T|MIR555_hsa-mir-555|MI0003561_5'Flank	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2557					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			CTCTCCCACAATCTCATCAAT	0.493													7	78	---	---	---	---	PASS	G	155317595	G	G	155317595	3	3	2	1	0	0	0	0	1	0	0	0	1041	101	4	5	1275	5	ASH1L	1	155317595	Missense_Mutation	SNP	A	TCGA-18-3407-01A-01D-0983-08	1089853	155317595	93933026	15	327										
MEX3A	92312	broad.mit.edu	37	chr1	156047123	156047123	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gcctggggcacccgtgatctCgaacacggggtcgcggtcac	15	14	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:156047123C>A	uc001fnd.3	-	2	805	c.805G>T	c.(805-807)GAG>TAG	p.E269*		NM_001093725	NP_001087194	A1L020	MEX3A_HUMAN	MEX3A protein	269	KH 2.					cytoplasmic mRNA processing body|nucleus	RNA binding|zinc ion binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					CCCGTGATCTCGAACACGGGG	0.602													3	16	---	---	---	---	PASS	A	156047123	A	A	156047123	4	1	2	1	0	0	0	0	0	1	0	0	9509	893	31	2	761	2	MEX3A	1	156047123	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	729528	156047123	93203498	16	328										
CCT3	7203	broad.mit.edu	37	chr1	156287294	156287294	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	atgtactcttcctccatctgGagaattcgggtgaagtcctc	9	11	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:156287294G>T	uc001fol.1	-	9	1024	c.804C>A	c.(802-804)CTC>CTA	p.L268L	CCT3_uc001fom.1_Silent_p.L267L|CCT3_uc001fon.1_Silent_p.L230L|CCT3_uc010phj.1_Silent_p.L222L|CCT3_uc010phk.1_Silent_p.L222L|CCT3_uc010phl.1_Silent_p.L222L	NM_005998	NP_005989	P49368	TCPG_HUMAN	chaperonin containing TCP1, subunit 3 isoform a	268					'de novo' posttranslational protein folding	cytoskeleton|cytosol|plasma membrane	ATP binding|unfolded protein binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					CCTCCATCTGGAGAATTCGGG	0.463													7	162	---	---	---	---	PASS	T	156287294	T	T	156287294	2	4	2	1	0	0	0	0	0	0	0	1	2954	1161	41	2		2	CCT3	1	156287294	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	240171	156287294	92963327	17	329										
INSRR	3645	broad.mit.edu	37	chr1	156819146	156819146	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gtgttccaagcagaggcgcgGgttgaaggcgaagtagatct	16	7	1	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:156819146G>T	uc010pht.1	-	6	1590	c.1336C>A	c.(1336-1338)CCG>ACG	p.P446T	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	446					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CAGAGGCGCGGGTTGAAGGCG	0.612													6	83	---	---	---	---	PASS	T	156819146	T	T	156819146	3	4	2	1	0	0	0	0	1	0	0	0	7774	1232	43	3	2624	3	INSRR	1	156819146	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	531852	156819146	92431475	18	330										
PEAR1	375033	broad.mit.edu	37	chr1	156882414	156882414	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gtggtgcaccttgcaggattGgtgagttctttgccctctcc	12	11	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:156882414G>T	uc001fqj.1	+	17	2325	c.2209G>T	c.(2209-2211)GGA>TGA	p.G737*	PEAR1_uc001fqk.1_Nonsense_Mutation_p.G362*	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	737						integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TTGCAGGATTGGTGAGTTCTT	0.602													5	52	---	---	---	---	PASS	T	156882414	T	T	156882414	4	4	2	1	0	0	0	0	0	1	0	0	11712	1362	47	3	2271	3	PEAR1	1	156882414	Nonsense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	63268	156882414	92368207	19	331										
CD1A	909	broad.mit.edu	37	chr1	158225830	158225830	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ggtgacaggaggctgtgagcTgcactctggaaaggtctcag	16	8	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:158225830T>G	uc001frt.2	+	3	895	c.362T>G	c.(361-363)CTG>CGG	p.L121R		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	121	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	GGCTGTGAGCTGCACTCTGGA	0.423													7	36	---	---	---	---	PASS	G	158225830	G	G	158225830	3	3	2	1	0	0	0	0	1	0	0	0	2974	1580	55	5	372	5	CD1A	1	158225830	Missense_Mutation	SNP	T	TCGA-18-3407-01A-01D-0983-08	1343416	158225830	91024791	20	332										
PRDX6	9588	broad.mit.edu	37	chr1	173454564	173454564	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ttttcccatcatcgatgataGgaatcgggagcttgccatcc	9	11	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:173454564G>T	uc001giy.1	+	3	368	c.317G>T	c.(316-318)AGG>ATG	p.R106M		NM_004905	NP_004896	P30041	PRDX6_HUMAN	peroxiredoxin 6	106	Thioredoxin.				cell redox homeostasis|phospholipid catabolic process	cytoplasmic membrane-bounded vesicle|cytosol|lysosome	peroxiredoxin activity|phospholipase A2 activity|protein binding			central_nervous_system(1)	1						ATCGATGATAGGAATCGGGAG	0.448													5	45	---	---	---	---	PASS	T	173454564	T	T	173454564	3	4	2	1	0	0	0	0	1	0	0	0	12469	1000	35	3	327	3	PRDX6	1	173454564	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	15228734	173454564	75796057	21	333										
CACNA1E	777	broad.mit.edu	37	chr1	181680149	181680149	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ggctttcatgaagctgcggcGccagcagcagattgagcgtg	15	10	1	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:181680149G>A	uc001gow.2	+	8	1280	c.1115G>A	c.(1114-1116)CGC>CAC	p.R372H	CACNA1E_uc009wxs.2_Missense_Mutation_p.R279H	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	372	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						AAGCTGCGGCGCCAGCAGCAG	0.567													10	68	---	---	---	---	PASS	A	181680149	A	A	181680149	3	1	2	1	0	0	0	0	1	0	0	0	2542	1087	38	1	1145	1	CACNA1E	1	181680149	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	8225585	181680149	67570472	22	334										
APOB	338	broad.mit.edu	37	chr2	21228607	21228607	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gaatagccattggggtttttGgtgtacacaaaggcagttga	13	5	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:21228607G>C	uc002red.2	-	26	11261	c.11133C>G	c.(11131-11133)ACC>ACG	p.T3711T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3711					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TGGGGTTTTTGGTGTACACAA	0.403													8	58	---	---	---	---	PASS	C	21228607	C	C	21228607	2	2	2	1	0	0	0	0	0	0	0	1	785	1335	47	4		4	APOB	2	21228607	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08		21228607	221970766	23	335										
C2orf39	92749	broad.mit.edu	37	chr2	26671582	26671582	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aggaggaggcagaagaggccGccgcggaaccagagtcctac	16	11	0	3	rs145706376	byFrequency	TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:26671582G>T	uc002rhg.2	+	11	1494	c.1420G>T	c.(1420-1422)GCC>TCC	p.A474S		NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	474											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGAAGAGGCCGCCGCGGAACC	0.507													4	73	---	---	---	---	PASS	T	26671582	T	T	26671582	3	4	2	1	0	0	0	0	1	0	0	0	2164	1087	38	1	1462	1	C2orf39	2	26671582	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	5442975	26671582	216527791	24	336										
BIRC6	57448	broad.mit.edu	37	chr2	32773032	32773032	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tgggtgggatgtggaacaagCcttaactaagcaaaggctgg	15	6	0	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:32773032C>T	uc010ezu.2	+	64	13060	c.12926C>T	c.(12925-12927)GCC>GTC	p.A4309V		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4309					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)					GTGGAACAAGCCTTAACTAAG	0.403													5	47	---	---	---	---	PASS	T	32773032	T	T	32773032	3	4	2	1	0	0	0	0	1	0	0	0	1438	739	26	3	13180	3	BIRC6	2	32773032	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	6101450	32773032	210426341	25	337										
KDM3A	55818	broad.mit.edu	37	chr2	86705771	86705771	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	attgttcattctgtaagagcGaaatggggaataaaggcaaa	11	4	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:86705771G>A	uc002sri.3	+	15	2556	c.2229G>A	c.(2227-2229)GCG>GCA	p.A743A	KDM3A_uc010ytj.1_Silent_p.A743A|KDM3A_uc010ytk.1_Silent_p.A691A	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	743					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						CTGTAAGAGCGAAATGGGGAA	0.403													18	42	---	---	---	---	PASS	A	86705771	A	A	86705771	2	1	2	1	0	0	0	0	0	0	0	1	8126	1045	37	2		2	KDM3A	2	86705771	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	53932739	86705771	156493602	26	338										
CKAP2L	150468	broad.mit.edu	37	chr2	113498469	113498469	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ttggctattcggggtgtcgcCgtgacttgttccctctcttt	11	11	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:113498469C>G	uc002tie.2	-	8	2017	c.1938G>C	c.(1936-1938)ACG>ACC	p.T646T	CKAP2L_uc002tif.2_Silent_p.T235T|CKAP2L_uc010yxp.1_Silent_p.T481T|uc002tid.2_Intron	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	646						centrosome					0						GGGGTGTCGCCGTGACTTGTT	0.433													35	138	---	---	---	---	PASS	G	113498469	G	G	113498469	2	3	2	1	0	0	0	0	0	0	0	1	3443	639	23	4		4	CKAP2L	2	113498469	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	26792698	113498469	129700904	27	339										
SCN7A	6332	broad.mit.edu	37	chr2	167319016	167319016	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ggatttatgccagcttttacAcacacatatccttcaggaca	6	11	1	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:167319016A>G	uc002udu.1	-	9	1093	c.966T>C	c.(964-966)TGT>TGC	p.C322C	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	322					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						CAGCTTTTACACACACATATC	0.378													6	30	---	---	---	---	PASS	G	167319016	G	G	167319016	2	3	2	1	0	0	0	0	0	0	0	1	13923	157	6	5		5	SCN7A	2	167319016	Silent	SNP	A	TCGA-18-3407-01A-01D-0983-08	53820547	167319016	75880357	28	340										
SLC25A12	8604	broad.mit.edu	37	chr2	172700882	172700882	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	atgaaaactaagctcacctgGagaaactgcgtgaattctgt	9	8	2	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:172700882G>T	uc002uhh.2	-	5	551	c.462C>A	c.(460-462)CTC>CTA	p.L154L	SLC25A12_uc010fqh.2_Silent_p.L47L|SLC25A12_uc010zdv.1_RNA	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12	154	EF-hand 3.				gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)		L-Aspartic Acid(DB00128)	AGCTCACCTGGAGAAACTGCG	0.348													5	68	---	---	---	---	PASS	T	172700882	T	T	172700882	2	4	2	1	0	0	0	0	0	0	0	1	14474	1161	41	2		2	SLC25A12	2	172700882	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	5381866	172700882	70498491	29	341										
COL5A2	1290	broad.mit.edu	37	chr2	189927746	189927746	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gtatatttaccctctgcccaGgaactccagcatttcctgct	6	14	1	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:189927746G>T	uc002uqk.2	-	28	2188	c.1913C>A	c.(1912-1914)CCT>CAT	p.P638H	COL5A2_uc010frx.2_Missense_Mutation_p.P214H	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	638					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			CCTCTGCCCAGGAACTCCAGC	0.353													7	101	---	---	---	---	PASS	T	189927746	T	T	189927746	3	4	2	1	0	0	0	0	1	0	0	0	3697	1000	35	3	2694	3	COL5A2	2	189927746	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	17226864	189927746	53271627	30	342										
RFTN2	130132	broad.mit.edu	37	chr2	198498590	198498590	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	caacttctacagttttcatcTgaaccgtgtctcacatgtag	6	11	4	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:198498590T>A	uc002uuo.3	-	4	972	c.570A>T	c.(568-570)TCA>TCT	p.S190S		NM_144629	NP_653230	Q52LD8	RFTN2_HUMAN	raftlin family member 2	190						plasma membrane					0						AGTTTTCATCTGAACCGTGTC	0.398													7	50	---	---	---	---	PASS	A	198498590	A	A	198498590	2	1	2	1	0	0	0	0	0	0	0	1	13259	1567	55	5		5	RFTN2	2	198498590	Silent	SNP	T	TCGA-18-3407-01A-01D-0983-08	8570844	198498590	44700783	31	343										
ALS2	57679	broad.mit.edu	37	chr2	202625741	202625741	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	agaggaaatttcagttgttcCcatgacattttgttgagagg	11	5	1	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:202625741C>A	uc002uyo.2	-	4	1332	c.976G>T	c.(976-978)GGA>TGA	p.G326*	ALS2_uc002uyp.3_Nonsense_Mutation_p.G326*|ALS2_uc002uyq.2_Nonsense_Mutation_p.G326*|ALS2_uc002uyr.2_Nonsense_Mutation_p.G326*	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	326					cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						TCAGTTGTTCCCATGACATTT	0.433													7	103	---	---	---	---	PASS	A	202625741	A	A	202625741	4	1	2	1	0	0	0	0	0	1	0	0	550	632	22	3	4199	3	ALS2	2	202625741	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	4127151	202625741	40573632	32	344										
VIL1	7429	broad.mit.edu	37	chr2	219296605	219296605	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gtggaacaggtgaagttcgaTgccacatccatgcatgtcaa	11	9	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:219296605T>A	uc002via.2	+	11	1193	c.1128T>A	c.(1126-1128)GAT>GAA	p.D376E	VIL1_uc010zke.1_Missense_Mutation_p.D65E|VIL1_uc002vib.2_Missense_Mutation_p.D376E	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1	376	Core.				actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGAAGTTCGATGCCACATCCA	0.493													5	17	---	---	---	---	PASS	A	219296605	A	A	219296605	3	1	2	1	0	0	0	0	1	0	0	0	17161	1461	51	5	1166	5	VIL1	2	219296605	Missense_Mutation	SNP	T	TCGA-18-3407-01A-01D-0983-08	16670864	219296605	23902768	33	345										
USP37	57695	broad.mit.edu	37	chr2	219328034	219328034	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aaaagatctccacaccttgaAgacttaactcggtagctctt	6	11	2	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:219328034A>C	uc002vie.2	-	22	2975	c.2522T>G	c.(2521-2523)CTT>CGT	p.L841R	USP37_uc010fvs.1_Missense_Mutation_p.L841R|USP37_uc010zkf.1_Missense_Mutation_p.L841R|USP37_uc002vif.2_Missense_Mutation_p.L841R|USP37_uc002vig.2_Missense_Mutation_p.L747R	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	841	UIM 3.				ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		CACACCTTGAAGACTTAACTC	0.234													9	87	---	---	---	---	PASS	C	219328034	C	C	219328034	3	2	2	1	0	0	0	0	1	0	0	0	17065	72	3	5	437	5	USP37	2	219328034	Missense_Mutation	SNP	A	TCGA-18-3407-01A-01D-0983-08	31429	219328034	23871339	34	346										
ZFAND2B	130617	broad.mit.edu	37	chr2	220072369	220072369	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	acccttgctccttgactacaGgatatccaggtacctgtgtg	9	12	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:220072369G>T	uc002vka.2	+	3	323	c.151_splice	c.e3-1	p.D51_splice	ZFAND2B_uc010zkt.1_Splice_Site_p.D51_splice|ZFAND2B_uc010fwd.1_Splice_Site_p.D51_splice|ZFAND2B_uc002vjy.1_Splice_Site_p.D51_splice|ZFAND2B_uc002vjz.1_Splice_Site_p.D51_splice|ZFAND2B_uc002vkb.1_Splice_Site	NM_138802	NP_620157	Q8WV99	ZFN2B_HUMAN	zinc finger, AN1-type domain 2B							endoplasmic reticulum	protein binding|zinc ion binding				0		Renal(207;0.0915)		Epithelial(149;1.16e-06)|all cancers(144;0.000191)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTTGACTACAGGATATCCAGG	0.537													5	57	---	---	---	---	PASS	T	220072369	T	T	220072369	5	4	2	1	0	0	0	0	0	0	1	0	17625	1014	35	3	160	3	ZFAND2B	2	220072369	Splice_Site	SNP	G	TCGA-18-3407-01A-01D-0983-08	744335	220072369	23127004	35	347										
TRPM8	79054	broad.mit.edu	37	chr2	234878421	234878421	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cctgtgtctgtttattatacCcttggtgggctgtggctttg	12	8	1	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:234878421C>A	uc002vvh.2	+	16	2148	c.2108C>A	c.(2107-2109)CCC>CAC	p.P703H	TRPM8_uc010fyj.2_Intron	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	703	Helical; Name=1; (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	TTTATTATACCCTTGGTGGGC	0.423													14	81	---	---	---	---	PASS	A	234878421	A	A	234878421	3	1	2	1	0	0	0	0	1	0	0	0	16589	623	22	3	2166	3	TRPM8	2	234878421	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	14806052	234878421	8320952	36	348										
CCBP2	1238	broad.mit.edu	37	chr3	42906223	42906223	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tcttgctccgttacgtgcctCgcaggcggatggttgagatc	13	11	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:42906223C>A	uc003cme.2	+	3	408	c.229C>A	c.(229-231)CGC>AGC	p.R77S	CCBP2_uc003cmd.1_Missense_Mutation_p.R77S|CCBP2_uc003cmf.2_Missense_Mutation_p.R77S|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Intron	NM_001296	NP_001287	O00590	CCBP2_HUMAN	chemokine binding protein 2	77	Cytoplasmic (Potential).				chemotaxis|immune response|multicellular organismal development	integral to plasma membrane	C-X-C chemokine receptor activity			lung(4)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.241)		TTACGTGCCTCGCAGGCGGAT	0.537													4	74	---	---	---	---	PASS	A	42906223	A	A	42906223	3	1	2	1	0	0	0	0	1	0	0	0	2734	884	31	2	231	2	CCBP2	3	42906223	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08		42906223	155116207	37	349										
DNAH1	25981	broad.mit.edu	37	chr3	52417939	52417939	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tccctggtcaactgctgtacCatcgactggtttaacgagtg	10	11	1	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:52417939C>A	uc011bef.1	+	52	8475	c.8214C>A	c.(8212-8214)ACC>ACA	p.T2738T	DNAH1_uc003ddv.2_5'Flank	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2738	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		ACTGCTGTACCATCGACTGGT	0.552													4	17	---	---	---	---	PASS	A	52417939	A	A	52417939	2	1	2	1	0	0	0	0	0	0	0	1	4597	581	21	3		3	DNAH1	3	52417939	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	9511716	52417939	145604491	38	350										
ITIH3	3699	broad.mit.edu	37	chr3	52833895	52833895	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aggccacgcccgagaacctcCaggaggccaggacgtttgtg	14	13	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:52833895C>A	uc003dfv.2	+	9	1069	c.1033C>A	c.(1033-1035)CAG>AAG	p.Q345K	ITIH3_uc011bek.1_Missense_Mutation_p.Q345K	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	345	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		CGAGAACCTCCAGGAGGCCAG	0.542													5	55	---	---	---	---	PASS	A	52833895	A	A	52833895	3	1	2	1	0	0	0	0	1	0	0	0	7905	595	21	3	1067	3	ITIH3	3	52833895	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	415956	52833895	145188535	39	351										
HCLS1	3059	broad.mit.edu	37	chr3	121363748	121363748	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	agaagagtgcttctccacctCggcaacatactcatggccca	8	14	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:121363748C>A	uc003eeh.3	-	5	441	c.316G>T	c.(316-318)GAG>TAG	p.E106*	HCLS1_uc011bjj.1_Nonsense_Mutation_p.E106*|HCLS1_uc011bjk.1_RNA|HCLS1_uc011bjl.1_Nonsense_Mutation_p.E106*	NM_005335	NP_005326	P14317	HCLS1_HUMAN	hematopoietic cell-specific Lyn substrate 1	106	Cortactin 1.				erythrocyte differentiation|intracellular signal transduction|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of STAT protein|response to hormone stimulus	mitochondrion|nucleus|plasma membrane	DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(114;0.0912)		TTCTCCACCTCGGCAACATAC	0.463													4	85	---	---	---	---	PASS	A	121363748	A	A	121363748	4	1	2	1	0	0	0	0	0	1	0	0	6995	893	31	2	1184	2	HCLS1	3	121363748	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	68529853	121363748	76658682	40	352										
SLC15A2	6565	broad.mit.edu	37	chr3	121631906	121631906	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cctgagtctaatagctttggGgacaggaggcatcaaaccct	11	10	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:121631906G>T	uc003eep.2	+	5	620	c.467G>T	c.(466-468)GGG>GTG	p.G156V	SLC15A2_uc011bjn.1_Missense_Mutation_p.G125V	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a	156	Helical; (Potential).				protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	ATAGCTTTGGGGACAGGAGGC	0.418													10	326	---	---	---	---	PASS	T	121631906	T	T	121631906	3	4	2	1	0	0	0	0	1	0	0	0	14399	1232	43	3	485	3	SLC15A2	3	121631906	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	268158	121631906	76390524	41	353										
PIK3CA	5290	broad.mit.edu	37	chr3	178927980	178927980	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ctttgttttttaaggaacacTgtccattggcatggggaaat	10	6	0	0	rs121913272		TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:178927980T>C	uc003fjk.2	+	8	1415	c.1258T>C	c.(1258-1260)TGT>CGT	p.C420R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	420	C2 PI3K-type.		C -> R (in cancer; shows an increase in lipid kinase activity; may increase the affinity for lipid membranes).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.C420R(26)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TAAGGAACACTGTCCATTGGC	0.328	C420R(EFM192A_BREAST)|C420R(OVISE_OVARY)|C420R(HEC151_ENDOMETRIUM)|C420R(CCK81_LARGE_INTESTINE)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			19	23	---	---	---	---	PASS	C	178927980	C	C	178927980	3	2	2	1	0	0	0	0	1	0	0	0	11913	1580	55	5	1284	5	PIK3CA	3	178927980	Missense_Mutation	SNP	T	TCGA-18-3407-01A-01D-0983-08	57296074	178927980	19094450	42	354										
ECE2	9718	broad.mit.edu	37	chr3	183995720	183995720	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ttctgccccacagaaaacacCaccttcaactccagcagtga	5	16	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:183995720C>T	uc003fni.3	+	5	878	c.840C>T	c.(838-840)ACC>ACT	p.T280T	ECE2_uc011brg.1_Silent_p.T208T|ECE2_uc011brh.1_Silent_p.T133T|ECE2_uc003fnl.3_Silent_p.T208T|ECE2_uc003fnm.3_Silent_p.T162T|ECE2_uc003fnk.3_Silent_p.T133T|ECE2_uc011bri.1_Silent_p.T195T|ECE2_uc010hxv.2_5'UTR	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	280	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CAGAAAACACCACCTTCAACT	0.557													11	140	---	---	---	---	PASS	T	183995720	T	T	183995720	2	4	2	1	0	0	0	0	0	0	0	1	4890	581	21	3		3	ECE2	3	183995720	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	5067740	183995720	14026710	43	355										
FGF12	2257	broad.mit.edu	37	chr3	192125875	192125875	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cgcactttgctgaacaccccGaggacgtgcctctcgcacag	10	16	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:192125875G>T	uc003fsx.2	-	1	964	c.138C>A	c.(136-138)CTC>CTA	p.L46L	FGF12_uc003fsy.2_Intron	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	46					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		TGAACACCCCGAGGACGTGCC	0.687													5	125	---	---	---	---	PASS	T	192125875	T	T	192125875	2	4	2	1	0	0	0	0	0	0	0	1	5841	1045	37	2		2	FGF12	3	192125875	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	8130155	192125875	5896555	44	356										
SLIT2	9353	broad.mit.edu	37	chr4	20598114	20598114	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ataattttgattgtcagaatGgagctcagtgtatcgtcaga	10	5	3	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:20598114G>T	uc003gpr.1	+	32	3601	c.3397G>T	c.(3397-3399)GGA>TGA	p.G1133*	SLIT2_uc003gps.1_Nonsense_Mutation_p.G1125*	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1133	EGF-like 6.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TTGTCAGAATGGAGCTCAGTG	0.398													4	26	---	---	---	---	PASS	T	20598114	T	T	20598114	4	4	2	1	0	0	0	0	0	1	0	0	14740	1349	47	3	3523	3	SLIT2	4	20598114	Nonsense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08		20598114	170556162	45	357										
ENAM	10117	broad.mit.edu	37	chr4	71509219	71509219	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tatgaaggtgaacaatatacCtcaaatcagccaaaggaata	7	7	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:71509219C>A	uc011caw.1	+	9	2357	c.2076C>A	c.(2074-2076)ACC>ACA	p.T692T		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	692					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			AACAATATACCTCAAATCAGC	0.413													6	87	---	---	---	---	PASS	A	71509219	A	A	71509219	2	1	2	1	0	0	0	0	0	0	0	1	5112	668	24	3		3	ENAM	4	71509219	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	50911105	71509219	119645057	46	358										
PPEF2	5470	broad.mit.edu	37	chr4	76788552	76788552	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ccctcagagctctcagagccGactcctccactctgctaatc	6	18	3	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:76788552G>T	uc003hix.2	-	14	2027	c.1670C>A	c.(1669-1671)TCG>TAG	p.S557*	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Nonsense_Mutation_p.S557*	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	557					detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TCTCAGAGCCGACTCCTCCAC	0.398													4	31	---	---	---	---	PASS	T	76788552	T	T	76788552	4	4	2	1	0	0	0	0	0	1	0	0	12308	1059	37	2	607	2	PPEF2	4	76788552	Nonsense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	5279333	76788552	114365724	47	359										
ANKRD56	345079	broad.mit.edu	37	chr4	77816806	77816806	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tccaactaagggatagacagGgaaaatgggcttgccccgag	13	9	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:77816806G>T	uc003hki.2	-	1	2197	c.2197C>A	c.(2197-2199)CCT>ACT	p.P733T		NM_001029870	NP_001025041	A6NEL2	ANR56_HUMAN	ankyrin repeat domain 56	733											0						GGATAGACAGGGAAAATGGGC	0.502													9	327	---	---	---	---	PASS	T	77816806	T	T	77816806	3	4	2	1	0	0	0	0	1	0	0	0	682	1232	43	3	188	3	ANKRD56	4	77816806	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	1028254	77816806	113337470	48	360										
FAT4	79633	broad.mit.edu	37	chr4	126239230	126239230	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tgttctgaatataagtgcccGggaccagggagttcacccca	11	11	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:126239230G>T	uc003ifj.3	+	1	1664	c.1664G>T	c.(1663-1665)CGG>CTG	p.R555L		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	555	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ATAAGTGCCCGGGACCAGGGA	0.517											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	19	---	---	---	---	PASS	T	126239230	T	T	126239230	3	4	2	1	0	0	0	0	1	0	0	0	5692	1116	39	1	1666	1	FAT4	4	126239230	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	48422424	126239230	64915046	49	361										
KIAA0922	23240	broad.mit.edu	37	chr4	154525134	154525134	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tattacagtaaacacaaaacCagcacagctgcggccagcag	8	12	0	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:154525134C>A	uc003inm.3	+	25	3019	c.2967C>A	c.(2965-2967)ACC>ACA	p.T989T	KIAA0922_uc010ipp.2_Silent_p.T990T|KIAA0922_uc010ipq.2_Silent_p.T758T	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	989	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				AACACAAAACCAGCACAGCTG	0.517													4	24	---	---	---	---	PASS	A	154525134	A	A	154525134	2	1	2	1	0	0	0	0	0	0	0	1	8201	581	21	3		3	KIAA0922	4	154525134	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	28285904	154525134	36629142	50	362										
HMGB2	3148	broad.mit.edu	37	chr4	174254762	174254762	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	acgaagaaggcgtacgaggaCattttgccccgcggcttgtt	13	10	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:174254762C>A	uc011ckc.1	-	1	159	c.39G>T	c.(37-39)ATG>ATT	p.M13I	HMGB2_uc003ita.3_Missense_Mutation_p.M13I|HMGB2_uc003itb.2_Missense_Mutation_p.M13I|HMGB2_uc003itc.2_Missense_Mutation_p.M13I	NM_001130689	NP_001124161	P26583	HMGB2_HUMAN	high-mobility group box 2	13	HMG box 1.				base-excision repair, DNA ligation|cell chemotaxis|cellular response to lipopolysaccharide|DNA fragmentation involved in apoptotic nuclear change|DNA topological change|negative regulation of transcription, DNA-dependent|nucleosome assembly|phosphatidylinositol-mediated signaling|positive regulation of DNA binding|positive regulation of endothelial cell proliferation|positive regulation of erythrocyte differentiation|positive regulation of megakaryocyte differentiation|positive regulation of nuclease activity|positive regulation of transcription from RNA polymerase II promoter|V(D)J recombination	condensed chromosome|extracellular space|nucleolus|nucleoplasm|perinuclear region of cytoplasm|protein complex	chemoattractant activity|damaged DNA binding|DNA bending activity|double-stranded DNA binding|RAGE receptor binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding|transcription regulatory region DNA binding				0		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;9.58e-18)|Epithelial(43;3.75e-16)|OV - Ovarian serous cystadenocarcinoma(60;6.24e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		CGTACGAGGACATTTTGCCCC	0.602													10	17	---	---	---	---	PASS	A	174254762	A	A	174254762	3	1	2	1	0	0	0	0	1	0	0	0	7226	478	17	3	606	3	HMGB2	4	174254762	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	19729628	174254762	16899514	51	363										
HEATR7B2	133558	broad.mit.edu	37	chr5	41055934	41055934	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ttgttcatcaaaaaattccaTcagctctccaggattggaat	6	9	4	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr5:41055934T>G	uc003jmj.3	-	10	1433	c.943A>C	c.(943-945)ATG>CTG	p.M315L	HEATR7B2_uc003jmi.3_Intron	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	315	HEAT 4.						binding			ovary(6)|central_nervous_system(2)	8						AAAAATTCCATCAGCTCTCCA	0.398													10	54	---	---	---	---	PASS	G	41055934	G	G	41055934	3	3	2	1	0	0	0	0	1	0	0	0	7035	1435	50	5	3946	5	HEATR7B2	5	41055934	Missense_Mutation	SNP	T	TCGA-18-3407-01A-01D-0983-08		41055934	139859326	52	364										
DHX29	54505	broad.mit.edu	37	chr5	54555722	54555722	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	agcttttttcttaaaactgaAtcaatgagaactctcagctg	6	8	3	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr5:54555722A>G	uc003jpx.2	-	26	4131	c.4011T>C	c.(4009-4011)GAT>GAC	p.D1337D	DHX29_uc010ivw.2_RNA	NM_019030	NP_061903	Q7Z478	DHX29_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 29	1337							ATP binding|ATP-dependent helicase activity|translation initiation factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0544)|Prostate(74;0.183)				TTAAAACTGAATCAATGAGAA	0.373													10	51	---	---	---	---	PASS	G	54555722	G	G	54555722	2	3	2	1	0	0	0	0	0	0	0	1	4503	98	4	5		5	DHX29	5	54555722	Silent	SNP	A	TCGA-18-3407-01A-01D-0983-08	13499788	54555722	126359538	53	365										
CAMK4	814	broad.mit.edu	37	chr5	110809031	110809031	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cctgaaattcttagaggttgTgcctatggacctgaggtgga	13	7	1	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr5:110809031T>C	uc011cvj.1	+	9	747	c.648T>C	c.(646-648)TGT>TGC	p.C216C	CAMK4_uc003kpf.2_Silent_p.C216C|CAMK4_uc010jbv.2_Silent_p.C19C	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	216	Protein kinase.				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		TTAGAGGTTGTGCCTATGGAC	0.338													7	50	---	---	---	---	PASS	C	110809031	C	C	110809031	2	2	2	1	0	0	0	0	0	0	0	1	2605	1702	59	5		5	CAMK4	5	110809031	Silent	SNP	T	TCGA-18-3407-01A-01D-0983-08	56253309	110809031	70106229	54	366										
PCDHB16	57717	broad.mit.edu	37	chr5	140564336	140564336	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cctgagggcccctttccaggGcgtctggtggacgtaagcgg	16	12	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr5:140564336G>A	uc003liv.2	+	1	3357	c.2202G>A	c.(2200-2202)GGG>GGA	p.G734G	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	734	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTTTCCAGGGCGTCTGGTGG	0.627													24	69	---	---	---	---	PASS	A	140564336	A	A	140564336	2	1	2	1	0	0	0	0	0	0	0	1	11541	1190	42	3		3	PCDHB16	5	140564336	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	29755305	140564336	40350924	55	367										
PPARGC1B	133522	broad.mit.edu	37	chr5	149212301	149212301	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	actacataagcacctcacctCggcacagtgctgcctgcagg	9	15	1	0	rs75266799	by1000genomes	TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr5:149212301C>A	uc003lrc.2	+	5	707	c.665C>A	c.(664-666)TCG>TAG	p.S222*	PPARGC1B_uc003lrb.1_Nonsense_Mutation_p.S222*|PPARGC1B_uc003lrd.2_Nonsense_Mutation_p.S183*|PPARGC1B_uc003lrf.2_Nonsense_Mutation_p.S201*|PPARGC1B_uc003lre.1_Nonsense_Mutation_p.S201*	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	222					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CACCTCACCTCGGCACAGTGC	0.617													5	122	---	---	---	---	PASS	A	149212301	A	A	149212301	4	1	2	1	0	0	0	0	0	1	0	0	12301	893	31	2	690	2	PPARGC1B	5	149212301	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	8647965	149212301	31702959	56	368										
DSP	1832	broad.mit.edu	37	chr6	7584770	7584770	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aacactgaagaaaatcttacCtatctgcaactaaaagaaag	5	8	2	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr6:7584770C>A	uc003mxp.1	+	24	7554	c.7275C>A	c.(7273-7275)ACC>ACA	p.T2425T	DSP_uc003mxq.1_Silent_p.T1826T	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2425	Plectin 11.|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		AAAATCTTACCTATCTGCAAC	0.398													6	121	---	---	---	---	PASS	A	7584770	A	A	7584770	2	1	2	1	0	0	0	0	0	0	0	1	4781	668	24	3		3	DSP	6	7584770	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08		7584770	163530297	57	369										
C6orf105	84830	broad.mit.edu	37	chr6	11723606	11723606	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tttccagtggttgagcttctCtccaagtaggtagatgctgg	12	8	1	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr6:11723606C>A	uc003nab.2	-	5	922	c.634G>T	c.(634-636)GAG>TAG	p.E212*	C6orf105_uc003naa.2_RNA|C6orf105_uc011dip.1_Nonsense_Mutation_p.E230*	NM_032744	NP_116133	Q96IZ2	CF105_HUMAN	hypothetical protein LOC84830 isoform 2	212						integral to membrane					0	Ovarian(93;0.0848)|Breast(50;0.0871)	all_hematologic(90;0.135)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.193)			TTGAGCTTCTCTCCAAGTAGG	0.493													8	218	---	---	---	---	PASS	A	11723606	A	A	11723606	4	1	2	1	0	0	0	0	0	1	0	0	2318	922	32	2	66	2	C6orf105	6	11723606	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	4138836	11723606	159391461	58	370										
HIVEP1	3096	broad.mit.edu	37	chr6	12164614	12164614	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aggttcccaggcccacagcaCtaccgcggaggcagcccact	11	17	0	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr6:12164614C>G	uc003nac.2	+	9	8256	c.8077C>G	c.(8077-8079)CTA>GTA	p.L2693V	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2693					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				GCCCACAGCACTACCGCGGAG	0.522													10	38	---	---	---	---	PASS	G	12164614	G	G	12164614	3	3	2	1	0	0	0	0	1	0	0	0	7186	564	20	4	8107	4	HIVEP1	6	12164614	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	441008	12164614	158950453	59	371										
OR12D2	26529	broad.mit.edu	37	chr6	29364649	29364649	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tagactccattcccttatgtAtttcttcctgggaaacctgt	6	11	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr6:29364649A>T	uc003nmf.3	+	1	234	c.173A>T	c.(172-174)TAT>TTT	p.Y58F		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TCCCTTATGTATTTCTTCCTG	0.448													14	30	---	---	---	---	PASS	T	29364649	T	T	29364649	3	4	2	1	0	0	0	0	1	0	0	0	10931	449	16	5	175	5	OR12D2	6	29364649	Missense_Mutation	SNP	A	TCGA-18-3407-01A-01D-0983-08	17200035	29364649	141750418	60	372										
TAP1	6890	broad.mit.edu	37	chr6	32818803	32818803	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ccatggtgagggacactgatCcccagagcatgatccccaag	11	13	0	4			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr6:32818803C>G	uc003ocg.2	-	4	1303	c.1148G>C	c.(1147-1149)GGA>GCA	p.G383A	TAP1_uc011dqi.1_Missense_Mutation_p.G122A	NM_000593	NP_000584	Q03518	TAP1_HUMAN	transporter 1, ATP-binding cassette, sub-family	383	Lumenal (Potential).|ABC transmembrane type-1.				antigen processing and presentation of endogenous peptide antigen via MHC class I|cytosol to ER transport|intracellular transport of viral proteins in host cell|positive regulation of T cell mediated cytotoxicity	cytosol|plasma membrane|TAP complex	ADP binding|ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding			skin(1)	1						GGACACTGATCCCCAGAGCAT	0.527													6	74	---	---	---	---	PASS	G	32818803	G	G	32818803	3	3	2	1	0	0	0	0	1	0	0	0	15547	855	30	2	1310	2	TAP1	6	32818803	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	3454154	32818803	138296264	61	373										
HTR1E	3354	broad.mit.edu	37	chr6	87725275	87725275	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	acctcctggtggcagtgctcGtcatgcccctgagcatcatc	10	15	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr6:87725275G>A	uc003pli.2	+	2	926	c.223G>A	c.(223-225)GTC>ATC	p.V75I		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	75	Helical; Name=2; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	GGCAGTGCTCGTCATGCCCCT	0.562													24	60	---	---	---	---	PASS	A	87725275	A	A	87725275	3	1	2	1	0	0	0	0	1	0	0	0	7439	1145	40	1	225	1	HTR1E	6	87725275	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	54906472	87725275	83389792	62	374										
PAPOLB	56903	broad.mit.edu	37	chr7	4900001	4900001	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cattgcagtaattttcatacCcatctcaaacatcttactat	2	11	3	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:4900001C>A	uc003snk.2	-	1	1625	c.1441G>T	c.(1441-1443)GGT>TGT	p.G481C	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	480					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		ATTTTCATACCCATCTCAAAC	0.388													5	30	---	---	---	---	PASS	A	4900001	A	A	4900001	3	1	2	1	0	0	0	0	1	0	0	0	11430	623	22	3	476	3	PAPOLB	7	4900001	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08		4900001	154238662	63	375										
PRPS1L1	221823	broad.mit.edu	37	chr7	18067280	18067280	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cgcacactctcatcaatttcCacgcaggtctcctggttgct	7	15	3	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:18067280C>A	uc003stz.2	-	1	207	c.126G>T	c.(124-126)GTG>GTT	p.V42V		NM_175886	NP_787082	P21108	PRPS3_HUMAN	phosphoribosyl pyrophosphate synthetase 1-like	42					nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			ovary(1)	1	Lung NSC(10;0.0385)|all_lung(11;0.0736)					CATCAATTTCCACGCAGGTCT	0.498													7	225	---	---	---	---	PASS	A	18067280	A	A	18067280	2	1	2	1	0	0	0	0	0	0	0	1	12579	581	21	3		3	PRPS1L1	7	18067280	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	13167279	18067280	141071383	64	376										
DNAH11	8701	broad.mit.edu	37	chr7	21938980	21938980	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tgacctcctcctgcgatgccGagaactcgatacttggacac	9	14	0	2	rs113653972		TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:21938980G>T	uc003svc.2	+	81	13128	c.13097G>T	c.(13096-13098)CGA>CTA	p.R4366L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4366					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTGCGATGCCGAGAACTCGAT	0.502									Kartagener_syndrome				5	182	---	---	---	---	PASS	T	21938980	T	T	21938980	3	4	2	1	0	0	0	0	1	0	0	0	4599	1058	37	2	13416	2	DNAH11	7	21938980	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	3871700	21938980	137199683	65	377										
NFE2L3	9603	broad.mit.edu	37	chr7	26192226	26192228	+	In_Frame_Del	DEL	GCC	-	-													0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ctagatctttacctgctgctGccgccgcccaccctgctgca							TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:26192226_26192228delGCC	uc003sxq.2	+	1	380_382	c.108_110delGCC	c.(106-111)CTGCCG>CTG	p.P39del		NM_004289	NP_004280	Q9Y4A8	NF2L3_HUMAN	nuclear factor erythroid 2-like 3	39	Leu-rich.				transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			skin(3)|ovary(1)	4						ACCTGCTGCTGCCGCCGCCCACC	0.724													4	2	---	---	---	---		-	26192228	-	-	26192226	7	5	2	1	0	1	0	1	0	0	0	0	10369	1306	46	0	110	0	NFE2L3	7	26192226	In_Frame_Del	DEL	GCC	TCGA-18-3407-01A-01D-0983-08	4253246	26192226	132946437	66	378										
FAM188B	84182	broad.mit.edu	37	chr7	30818085	30818085	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tgtgaccatggaccaggaacGcccacgctctgacctcagca	10	15	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:30818085G>T	uc003tbt.2	+	2	178	c.101G>T	c.(100-102)CGC>CTC	p.R34L	FAM188B_uc010kwe.2_Missense_Mutation_p.R5L	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	34											0						GACCAGGAACGCCCACGCTCT	0.423													4	81	---	---	---	---	PASS	T	30818085	T	T	30818085	3	4	2	1	0	0	0	0	1	0	0	0	5515	1087	38	1	107	1	FAM188B	7	30818085	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	4625859	30818085	128320578	67	379										
TXNDC3	51314	broad.mit.edu	37	chr7	37901736	37901736	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aattgcagcaggtgaaatggCtcgacctcaggtaatacttt	10	8	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:37901736C>T	uc003tfn.2	+	7	749	c.377C>T	c.(376-378)GCT>GTT	p.A126V		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	126					cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						GGTGAAATGGCTCGACCTCAG	0.358									Kartagener_syndrome				4	20	---	---	---	---	PASS	T	37901736	T	T	37901736	3	4	2	1	0	0	0	0	1	0	0	0	16795	797	28	3	395	3	TXNDC3	7	37901736	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	7083651	37901736	121236927	68	380										
PCOLCE	5118	broad.mit.edu	37	chr7	100205276	100205276	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	acagtggtgactgcgacagtGaagtccatggttcgggagcc	15	9	0	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:100205276G>A	uc003uvo.2	+	8	1227	c.1029G>A	c.(1027-1029)GTG>GTA	p.V343V	PCOLCE_uc010lhb.1_RNA|PCOLCE_uc003uvp.1_RNA	NM_002593	NP_002584	Q15113	PCOC1_HUMAN	procollagen C-endopeptidase enhancer	343	NTR.				multicellular organismal development	extracellular space	collagen binding|heparin binding|peptidase activator activity				0	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					CTGCGACAGTGAAGTCCATGG	0.562													12	83	---	---	---	---	PASS	A	100205276	A	A	100205276	2	1	2	1	0	0	0	0	0	0	0	1	11594	1277	45	2		2	PCOLCE	7	100205276	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	62303540	100205276	58933387	69	381										
ZAN	7455	broad.mit.edu	37	chr7	100373092	100373092	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cccttcttcaagatcagtgcCaagcatgagaaggaggaagg	12	9	3	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:100373092C>T	uc003uwj.2	+	33	6087	c.5922C>T	c.(5920-5922)GCC>GCT	p.A1974A	ZAN_uc003uwk.2_Silent_p.A1974A|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Silent_p.A61A	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1974	Extracellular (Potential).|VWFD 3.				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AGATCAGTGCCAAGCATGAGA	0.552													7	42	---	---	---	---	PASS	T	100373092	T	T	100373092	2	4	2	1	0	0	0	0	0	0	0	1	17510	581	21	3		3	ZAN	7	100373092	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	167816	100373092	58765571	70	382										
MUC17	140453	broad.mit.edu	37	chr7	100683976	100683976	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cctacacctgctgaaggtacCagcatgccaatctcaactta	6	14	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:100683976C>A	uc003uxp.1	+	3	9332	c.9279C>A	c.(9277-9279)ACC>ACA	p.T3093T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3093	Extracellular (Potential).|Ser-rich.|50.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CTGAAGGTACCAGCATGCCAA	0.493													9	364	---	---	---	---	PASS	A	100683976	A	A	100683976	2	1	2	1	0	0	0	0	0	0	0	1	9974	581	21	3		3	MUC17	7	100683976	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	310884	100683976	58454687	71	383										
PPP1R3A	5506	broad.mit.edu	37	chr7	113518998	113518998	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ctcagtaatgccatgatcagCtagagaagacagttcacagc	9	10	3	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:113518998C>T	uc010ljy.1	-	4	2180	c.2149G>A	c.(2149-2151)GCT>ACT	p.A717T		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	717					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						CCATGATCAGCTAGAGAAGAC	0.408													12	52	---	---	---	---	PASS	T	113518998	T	T	113518998	3	4	2	1	0	0	0	0	1	0	0	0	12371	797	28	3	1223	3	PPP1R3A	7	113518998	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	12835022	113518998	45619665	72	384										
HYAL4	23553	broad.mit.edu	37	chr7	123508765	123508765	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ggacttgctgttatagattgGgaatattggcgaccacagtg	13	6	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:123508765G>T	uc003vlc.2	+	3	1076	c.438G>T	c.(436-438)TGG>TGT	p.W146C	HYAL4_uc011knz.1_Missense_Mutation_p.W146C	NM_012269	NP_036401	Q2M3T9	HYAL4_HUMAN	hyaluronoglucosaminidase 4	146	Extracellular (Potential).				fusion of sperm to egg plasma membrane|glycosaminoglycan catabolic process	integral to membrane	hyalurononglucosaminidase activity			skin(1)	1						TTATAGATTGGGAATATTGGC	0.393													6	60	---	---	---	---	PASS	T	123508765	T	T	123508765	3	4	2	1	0	0	0	0	1	0	0	0	7466	1241	43	3	440	3	HYAL4	7	123508765	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	9989767	123508765	35629898	73	385										
CNOT4	4850	broad.mit.edu	37	chr7	135078943	135078943	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tgcagcaggatgcaggaatcCagagcctggacctttggcgg	15	10	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:135078943C>A	uc003vsv.1	-	10	1661	c.1354G>T	c.(1354-1356)GGA>TGA	p.G452*	CNOT4_uc003vss.2_Nonsense_Mutation_p.G449*|CNOT4_uc011kpz.1_Nonsense_Mutation_p.G449*|CNOT4_uc003vst.2_Nonsense_Mutation_p.G452*|CNOT4_uc003vsu.1_Nonsense_Mutation_p.G449*|CNOT4_uc011kpy.1_Nonsense_Mutation_p.G452*	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	452					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						TGCAGGAATCCAGAGCCTGGA	0.507													5	49	---	---	---	---	PASS	A	135078943	A	A	135078943	4	1	2	1	0	0	0	0	0	1	0	0	3621	603	21	3	687	3	CNOT4	7	135078943	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	11570178	135078943	24059720	74	386										
ANGPT2	285	broad.mit.edu	37	chr8	6371296	6371296	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gtgtattttaagcacatagcGttgctgattagtcagttgcg	11	6	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:6371296G>A	uc003wqj.3	-	7	1431	c.1102C>T	c.(1102-1104)CGC>TGC	p.R368C	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.R367C|ANGPT2_uc010lri.2_Missense_Mutation_p.R316C|ANGPT2_uc003wql.3_Missense_Mutation_p.R367C	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	368	Fibrinogen C-terminal.				angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		AGCACATAGCGTTGCTGATTA	0.363													7	71	---	---	---	---	PASS	A	6371296	A	A	6371296	3	1	2	1	0	0	0	0	1	0	0	0	611	1145	40	1	400	1	ANGPT2	8	6371296	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08		6371296	139992726	75	387										
PPP1R3B	79660	broad.mit.edu	37	chr8	8998700	8998700	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ttcacggtcttctcaaatgcGaggttctgaaccttcacagt	8	11	5	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:8998700G>T	uc003wsn.3	-	2	627	c.462C>A	c.(460-462)CTC>CTA	p.L154L	PPP1R3B_uc003wso.3_Silent_p.L153L	NM_024607	NP_078883	Q86XI6	PPR3B_HUMAN	protein phosphatase 1, regulatory (inhibitor)	154	CBM21.				glycogen metabolic process					ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(149;0.0717)|READ - Rectum adenocarcinoma(644;0.241)		TCTCAAATGCGAGGTTCTGAA	0.488													5	137	---	---	---	---	PASS	T	8998700	T	T	8998700	2	4	2	1	0	0	0	0	0	0	0	1	12372	1045	37	2		2	PPP1R3B	8	8998700	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	2627404	8998700	137365322	76	388										
TOX	9760	broad.mit.edu	37	chr8	59852027	59852027	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cttcattcaggtgcaccagcGagtggtctgggagggaagga	16	8	3	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:59852027G>T	uc003xtw.1	-	3	466	c.245C>A	c.(244-246)TCG>TAG	p.S82*		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	82						nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				GTGCACCAGCGAGTGGTCTGG	0.478													4	36	---	---	---	---	PASS	T	59852027	T	T	59852027	4	4	2	1	0	0	0	0	0	1	0	0	16374	1059	37	2	1363	2	TOX	8	59852027	Nonsense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	50853327	59852027	86511995	77	389										
TRPA1	8989	broad.mit.edu	37	chr8	72958758	72958758	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ttgaacttacgttgagggctGtaagcggttcatatataaca	10	6	1	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:72958758G>A	uc003xza.2	-	17	2226	c.2051C>T	c.(2050-2052)ACA>ATA	p.T684I	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	684	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GTTGAGGGCTGTAAGCGGTTC	0.239													4	23	---	---	---	---	PASS	A	72958758	A	A	72958758	3	1	2	1	0	0	0	0	1	0	0	0	16574	1377	48	3	1352	3	TRPA1	8	72958758	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	13106731	72958758	73405264	78	390										
ZFHX4	79776	broad.mit.edu	37	chr8	77618422	77618422	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gtgtggctataaacccttccGttgtgaggtttgtaactact	10	8	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:77618422G>A	uc003yav.2	+	2	2486	c.2099G>A	c.(2098-2100)CGT>CAT	p.R700H	ZFHX4_uc003yat.1_Missense_Mutation_p.R700H|ZFHX4_uc003yau.1_Missense_Mutation_p.R700H|ZFHX4_uc003yaw.1_Missense_Mutation_p.R700H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	700	C2H2-type 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAACCCTTCCGTTGTGAGGTT	0.502										HNSCC(33;0.089)			7	45	---	---	---	---	PASS	A	77618422	A	A	77618422	3	1	2	1	0	0	0	0	1	0	0	0	17632	1145	40	1	2101	1	ZFHX4	8	77618422	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	4659664	77618422	68745600	79	391										
SNTB1	6641	broad.mit.edu	37	chr8	121644768	121644768	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tgctctctgacctcagcaatCactcgggtcagcaggtcatt	9	13	5	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:121644768C>T	uc010mdg.2	-	3	1138	c.912G>A	c.(910-912)GTG>GTA	p.V304V	SNTB1_uc003ype.2_Silent_p.V304V	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	304					muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			CCTCAGCAATCACTCGGGTCA	0.527													7	19	---	---	---	---	PASS	T	121644768	T	T	121644768	2	4	2	1	0	0	0	0	0	0	0	1	14872	813	29	2		2	SNTB1	8	121644768	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	44026346	121644768	24719254	80	392										
NDRG1	10397	broad.mit.edu	37	chr8	134276808	134276808	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	acggttcatgccgatgtcatGgtaggtgaggatgacaggcc	15	8	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:134276808G>T	uc003yuh.2	-	4	773	c.187C>A	c.(187-189)CAT>AAT	p.H63N	NDRG1_uc003yug.2_Missense_Mutation_p.H63N|NDRG1_uc010mee.2_Intron|NDRG1_uc010mef.2_5'UTR|NDRG1_uc011ljh.1_5'UTR|NDRG1_uc011lji.1_Intron	NM_001135242	NP_001128714	Q92597	NDRG1_HUMAN	N-myc downstream regulated 1	63					cellular response to hypoxia|response to metal ion	cytoplasm|microtubule cytoskeleton|nucleus|plasma membrane	protein binding			ovary(4)	4	all_epithelial(106;4.26e-24)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			CCGATGTCATGGTAGGTGAGG	0.562													5	75	---	---	---	---	PASS	T	134276808	T	T	134276808	3	4	2	1	0	0	0	0	1	0	0	0	10251	1348	47	3	1049	3	NDRG1	8	134276808	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	12632040	134276808	12087214	81	393										
KDM4C	23081	broad.mit.edu	37	chr9	7174612	7174612	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ggagcagacattatccaaggGgagagaaagagacaaagagt	14	5	0	4			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:7174612G>T	uc003zkh.2	+	22	3634	c.3054G>T	c.(3052-3054)GGG>GGT	p.G1018G	KDM4C_uc011lmk.1_Silent_p.G763G|KDM4C_uc011lml.1_Silent_p.G705G	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	1018					positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						TTATCCAAGGGGAGAGAAAGA	0.448													8	180	---	---	---	---	PASS	T	7174612	T	T	7174612	2	4	2	1	0	0	0	0	0	0	0	1	8130	1219	43	3		3	KDM4C	9	7174612	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08		7174612	134038819	82	394										
FAM154A	158297	broad.mit.edu	37	chr9	18928612	18928612	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cgtaggtgatgggagctttgGagaacatccggggcattggc	17	7	0	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:18928612G>T	uc003zni.1	-	4	1141	c.863C>A	c.(862-864)TCC>TAC	p.S288Y	FAM154A_uc010mip.1_Missense_Mutation_p.S96Y	NM_153707	NP_714918	Q8IYX7	F154A_HUMAN	hypothetical protein LOC158297	288										pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.53e-16)		GGGAGCTTTGGAGAACATCCG	0.542													5	55	---	---	---	---	PASS	T	18928612	T	T	18928612	3	4	2	1	0	0	0	0	1	0	0	0	5463	1174	41	2	565	2	FAM154A	9	18928612	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	11754000	18928612	122284819	83	395										
CDKN2A	1029	broad.mit.edu	37	chr9	21971029	21971029	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ggtccacgggcagacggcccCaggcatcgcgcacgtccagc	14	17	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:21971029C>T	uc003zpk.2	-	2	541	c.329G>A	c.(328-330)TGG>TAG	p.W110*	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Silent_p.L165L	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	110	ANK 4.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.W110*(38)|p.?(13)|p.H83fs*2(2)|p.W110fs*9(1)|p.D105fs*8(1)|p.A68fs*3(1)|p.R107fs*33(1)|p.W110fs*36(1)|p.W110C(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CAGACGGCCCCAGGCATCGCG	0.731		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			7	12	---	---	---	---	PASS	T	21971029	T	T	21971029	4	4	2	1	0	0	0	0	0	1	0	0	3161	595	21	3	149	3	CDKN2A	9	21971029	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	3042417	21971029	119242402	84	396										
GNE	10020	broad.mit.edu	37	chr9	36227385	36227385	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gaatttcttttgcagtggctCttgaagatcgatagatttga	10	5	2	4			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:36227385C>A	uc010mlh.2	-	7	1356	c.1141G>T	c.(1141-1143)GAG>TAG	p.E381*	CLTA_uc003zzf.1_Intron|GNE_uc010mlg.2_Nonsense_Mutation_p.E381*|GNE_uc011lpl.1_Nonsense_Mutation_p.E271*|GNE_uc010mli.2_Nonsense_Mutation_p.E412*|GNE_uc010mlj.2_Nonsense_Mutation_p.E376*	NM_005476	NP_005467	Q9Y223	GLCNE_HUMAN	UDP-N-acetylglucosamine-2-epimerase/N-	381	UDP-N-acetylglucosamine 2-epimerase.				cell adhesion|lipopolysaccharide biosynthetic process|N-acetylneuraminate metabolic process|UDP-N-acetylglucosamine metabolic process		ATP binding|N-acylmannosamine kinase activity|UDP-N-acetylglucosamine 2-epimerase activity				0			STAD - Stomach adenocarcinoma(86;0.228)			TGCAGTGGCTCTTGAAGATCG	0.358													7	38	---	---	---	---	PASS	A	36227385	A	A	36227385	4	1	2	1	0	0	0	0	0	1	0	0	6522	922	32	2	1051	2	GNE	9	36227385	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	14256356	36227385	104986046	85	397										
FLJ46321	389763	broad.mit.edu	37	chr9	84606846	84606846	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cacatccatcagcagcctccAcactctaaatgctttgaaga	5	14	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:84606846A>G	uc004amn.2	+	4	1508	c.1461A>G	c.(1459-1461)CCA>CCG	p.P487P		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	487						integral to membrane					0						AGCAGCCTCCACACTCTAAAT	0.453													18	85	---	---	---	---	PASS	G	84606846	G	G	84606846	2	3	2	1	0	0	0	0	0	0	0	1	5932	146	6	5		5	FLJ46321	9	84606846	Silent	SNP	A	TCGA-18-3407-01A-01D-0983-08	48379461	84606846	56606585	86	398										
PPP3R2	5535	broad.mit.edu	37	chr9	104356757	104356757	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	acagcactgaattcctcaaaGgatatcttcccatcgccatc	5	14	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:104356757G>T	uc004bbr.2	-	1	527	c.456C>A	c.(454-456)TCC>TCA	p.S152S	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_RNA	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	149	EF-hand 4.|4.						calcium ion binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	ATTCCTCAAAGGATATCTTCC	0.502													5	50	---	---	---	---	PASS	T	104356757	T	T	104356757	2	4	2	1	0	0	0	0	0	0	0	1	12401	987	35	3		3	PPP3R2	9	104356757	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	19749911	104356757	36856674	87	399										
TNC	3371	broad.mit.edu	37	chr9	117798447	117798447	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gcaaagattctcagtgtgtaTtccgtggcaggctcgaggtc	13	9	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:117798447T>C	uc004bjj.3	-	21	5948	c.5586A>G	c.(5584-5586)GAA>GAG	p.E1862E	TNC_uc010mvf.2_Silent_p.E1589E	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1862	Fibronectin type-III 14.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TCAGTGTGTATTCCGTGGCAG	0.507													16	54	---	---	---	---	PASS	C	117798447	C	C	117798447	2	2	2	1	0	0	0	0	0	0	0	1	16267	1490	52	5		5	TNC	9	117798447	Silent	SNP	T	TCGA-18-3407-01A-01D-0983-08	13441690	117798447	23414984	88	400										
NUP188	23511	broad.mit.edu	37	chr9	131760858	131760858	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aactgccttcgccttggctcCatgaagtgcactctgctgct	9	14	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:131760858C>A	uc004bws.1	+	32	3493	c.3471C>A	c.(3469-3471)TCC>TCA	p.S1157S	NUP188_uc004bwu.2_Silent_p.S500S	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1157					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						GCCTTGGCTCCATGAAGTGCA	0.572													5	63	---	---	---	---	PASS	A	131760858	A	A	131760858	2	1	2	1	0	0	0	0	0	0	0	1	10758	581	21	3		3	NUP188	9	131760858	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	13962411	131760858	9452573	89	401										
PPP2R4	5524	broad.mit.edu	37	chr9	131898812	131898812	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ggagccagccggcagccaggGagtgtggggtctggatgact	19	9	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:131898812G>T	uc004bxm.1	+	8	995	c.728G>T	c.(727-729)GGA>GTA	p.G243V	PPP2R4_uc004bxl.1_Missense_Mutation_p.G208V|PPP2R4_uc011mbo.1_Missense_Mutation_p.G243V|PPP2R4_uc010myr.1_Intron|PPP2R4_uc004bxn.1_Missense_Mutation_p.G208V|PPP2R4_uc004bxo.1_Missense_Mutation_p.G166V|PPP2R4_uc011mbp.1_Missense_Mutation_p.G179V|PPP2R4_uc011mbq.1_Missense_Mutation_p.G166V|PPP2R4_uc010mys.1_Missense_Mutation_p.G173V|PPP2R4_uc011mbr.1_5'Flank	NM_178001	NP_821068	Q15257	PTPA_HUMAN	protein phosphatase 2A, regulatory subunit B'	243					ATP catabolic process|negative regulation of phosphoprotein phosphatase activity|negative regulation of protein dephosphorylation|positive regulation of apoptosis|positive regulation of phosphoprotein phosphatase activity|positive regulation of protein dephosphorylation	calcium channel complex|cytoplasm|nucleus|protein phosphatase type 2A complex|soluble fraction	ATP binding|peptidyl-prolyl cis-trans isomerase activity|protein heterodimerization activity|protein homodimerization activity|protein phosphatase 2A binding|protein phosphatase type 2A regulator activity|protein tyrosine phosphatase activator activity|receptor binding			ovary(1)|lung(1)|pancreas(1)	3		Medulloblastoma(224;0.235)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)		GGCAGCCAGGGAGTGTGGGGT	0.562													7	141	---	---	---	---	PASS	T	131898812	T	T	131898812	3	4	2	1	0	0	0	0	1	0	0	0	12391	1174	41	2	758	2	PPP2R4	9	131898812	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	137954	131898812	9314619	90	402										
WAPAL	23063	broad.mit.edu	37	chr10	88259869	88259869	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aactcatccatgctgcgttcCatagtatcctgtatggtaac	7	11	1	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr10:88259869C>A	uc001kdo.2	-	3	1573	c.1131G>T	c.(1129-1131)ATG>ATT	p.M377I	WAPAL_uc001kdn.2_Missense_Mutation_p.M420I|WAPAL_uc009xsw.2_Missense_Mutation_p.M377I	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	377	Mediates interaction with the cohesin complex.				cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						TGCTGCGTTCCATAGTATCCT	0.438													4	19	---	---	---	---	PASS	A	88259869	A	A	88259869	3	1	2	1	0	0	0	0	1	0	0	0	17245	594	21	3	2509	3	WAPAL	10	88259869	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08		88259869	47274878	91	403										
ANO9	338440	broad.mit.edu	37	chr11	418531	418531	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ccagaaccttgttcttcaccGactgagggatgtcgggcacg	12	12	2	2	rs144928396	byFrequency	TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:418531G>T	uc001lpi.2	-	23	2274	c.2189C>A	c.(2188-2190)TCG>TAG	p.S730*	SIGIRR_uc001lpf.2_5'Flank|SIGIRR_uc001lpe.1_5'Flank|ANO9_uc001lph.2_Nonsense_Mutation_p.S423*|ANO9_uc010qvv.1_Nonsense_Mutation_p.S586*	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	730	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						GTTCTTCACCGACTGAGGGAT	0.637													5	78	---	---	---	---	PASS	T	418531	T	T	418531	4	4	2	1	0	0	0	0	0	1	0	0	704	1059	37	2	163	2	ANO9	11	418531	Nonsense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08		418531	134587985	92	404										
MUC6	4588	broad.mit.edu	37	chr11	1015965	1015965	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	caaagcctgatgtgggaactCgggtggtgagagaagtggac	17	6	0	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:1015965C>A	uc001lsw.2	-	31	6887	c.6836G>T	c.(6835-6837)CGA>CTA	p.R2279L		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2279	Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGTGGGAACTCGGGTGGTGAG	0.627													6	94	---	---	---	---	PASS	A	1015965	A	A	1015965	3	1	2	1	0	0	0	0	1	0	0	0	9980	884	31	2	495	2	MUC6	11	1015965	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	597434	1015965	133990551	93	405										
MUC5B	727897	broad.mit.edu	37	chr11	1256581	1256581	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ggaccttccgcatcgtcaccGagaacatcccctgtgggacc	10	16	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:1256581G>A	uc009ycr.1	+	39	4921	c.4795G>A	c.(4795-4797)GAG>AAG	p.E1599K	MUC5B_uc009yct.1_Missense_Mutation_p.E940K|MUC5B_uc001ltb.2_Missense_Mutation_p.E943K|MUC5B_uc001lta.2_Missense_Mutation_p.E608K	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	940	VWFD 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CATCGTCACCGAGAACATCCC	0.657													5	17	---	---	---	---	PASS	A	1256581	A	A	1256581	3	1	2	1	0	0	0	0	1	0	0	0	9979	1059	37	2	2917	2	MUC5B	11	1256581	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	240616	1256581	133749935	94	406										
NUCB2	4925	broad.mit.edu	37	chr11	17332440	17332440	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aaaaaatatgaaatgatgaaGgaacatgaaaggagagaata	10	1	0	5			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:17332440G>T	uc001mmw.2	+	7	797	c.552G>T	c.(550-552)AAG>AAT	p.K184N	NUCB2_uc001mms.1_Missense_Mutation_p.K185N|NUCB2_uc001mmt.1_Missense_Mutation_p.K184N|NUCB2_uc001mmv.1_Missense_Mutation_p.K184N|NUCB2_uc009ygz.2_Missense_Mutation_p.K184N	NM_005013	NP_005004	P80303	NUCB2_HUMAN	nucleobindin 2 precursor	184	By similarity.					cytosol|ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|plasma membrane	calcium ion binding|DNA binding				0						AAATGATGAAGGAACATGAAA	0.289													5	57	---	---	---	---	PASS	T	17332440	T	T	17332440	3	4	2	1	0	0	0	0	1	0	0	0	10719	991	35	3	570	3	NUCB2	11	17332440	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	16075859	17332440	117674076	95	407										
NELL1	4745	broad.mit.edu	37	chr11	21581914	21581914	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tgaaagaagacaggtgttctGtctgctcctgcaaggtgagg	14	7	2	4			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:21581914G>C	uc001mqe.2	+	17	2119	c.1966G>C	c.(1966-1968)GTC>CTC	p.V656L	NELL1_uc001mqf.2_Missense_Mutation_p.V609L|NELL1_uc009yid.2_Missense_Mutation_p.V684L|NELL1_uc010rdo.1_Missense_Mutation_p.V599L|NELL1_uc010rdp.1_Missense_Mutation_p.V369L|NELL1_uc001mqh.2_Intron	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	656	VWFC 3.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						CAGGTGTTCTGTCTGCTCCTG	0.542													5	11	---	---	---	---	PASS	C	21581914	C	C	21581914	3	2	2	1	0	0	0	0	1	0	0	0	10333	1377	48	4	2032	4	NELL1	11	21581914	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	4249474	21581914	113424602	96	408										
LRP4	4038	broad.mit.edu	37	chr11	46896436	46896436	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gatgacattgttgagctcagGaacagggacatgcacatcgg	13	8	1	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:46896436G>A	uc001ndn.3	-	28	4290	c.4144C>T	c.(4144-4146)CCT>TCT	p.P1382S		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1382	Extracellular (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		TTGAGCTCAGGAACAGGGACA	0.522													13	60	---	---	---	---	PASS	A	46896436	A	A	46896436	3	1	2	1	0	0	0	0	1	0	0	0	8959	1174	41	2	1617	2	LRP4	11	46896436	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	25314522	46896436	88110080	97	409										
DDB2	1643	broad.mit.edu	37	chr11	47254483	47254483	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ctttaaaggcaacattctacGagtttttgccagctcagaca	7	10	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:47254483G>T	uc001neb.2	+	4	770	c.575G>T	c.(574-576)CGA>CTA	p.R192L	DDB2_uc001nec.2_RNA|DDB2_uc009yli.1_Missense_Mutation_p.R128L|DDB2_uc001ned.2_Intron|DDB2_uc001nee.2_Intron|DDB2_uc001nef.2_Intron|DDB2_uc001neg.2_Missense_Mutation_p.R56L|DDB2_uc001neh.2_RNA	NM_000107	NP_000098	Q92466	DDB2_HUMAN	damage-specific DNA binding protein 2	192	WD 2.				nucleotide-excision repair, DNA damage removal|protein autoubiquitination|protein polyubiquitination|response to UV	nucleoplasm|protein complex	damaged DNA binding|protein binding			kidney(2)|ovary(1)	3						AACATTCTACGAGTTTTTGCC	0.468			Mis|N			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				5	140	---	---	---	---	PASS	T	47254483	T	T	47254483	3	4	2	1	0	0	0	0	1	0	0	0	4324	1058	37	2	589	2	DDB2	11	47254483	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	358047	47254483	87752033	98	410										
TMEM135	65084	broad.mit.edu	37	chr11	87016979	87016979	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tttttgggttcaatttcagaTgcaaacatggaccaaggcat	9	7	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:87016979T>A	uc001pch.2	+	9	723	c.700T>A	c.(700-702)TGC>AGC	p.C234S	TMEM135_uc010rtt.1_Missense_Mutation_p.C95S|TMEM135_uc001pci.2_Missense_Mutation_p.C212S	NM_022918	NP_075069	Q86UB9	TM135_HUMAN	transmembrane protein 135	234						integral to membrane					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CAATTTCAGATGCAAACATGG	0.284													5	26	---	---	---	---	PASS	A	87016979	A	A	87016979	3	1	2	1	0	0	0	0	1	0	0	0	16048	1478	51	5	734	5	TMEM135	11	87016979	Missense_Mutation	SNP	T	TCGA-18-3407-01A-01D-0983-08	39762496	87016979	47989537	99	411										
ATF7IP	55729	broad.mit.edu	37	chr12	14613749	14613749	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aaagcccacctacagtgagtGgtcttaccaaaaatccagta	7	11	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr12:14613749G>T	uc001rbw.2	+	9	2637	c.2479G>T	c.(2479-2481)GGT>TGT	p.G827C	ATF7IP_uc010shs.1_3'UTR|ATF7IP_uc001rbu.2_Missense_Mutation_p.G827C|ATF7IP_uc001rbv.1_Missense_Mutation_p.G826C|ATF7IP_uc001rbx.2_Missense_Mutation_p.G826C|ATF7IP_uc010sht.1_3'UTR|ATF7IP_uc001rby.3_Missense_Mutation_p.G827C|ATF7IP_uc001rca.2_Missense_Mutation_p.G827C	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	827					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						TACAGTGAGTGGTCTTACCAA	0.468													4	27	---	---	---	---	PASS	T	14613749	T	T	14613749	3	4	2	1	0	0	0	0	1	0	0	0	1087	1348	47	3	2509	3	ATF7IP	12	14613749	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08		14613749	119238146	100	412										
SFRS2IP	9169	broad.mit.edu	37	chr12	46321720	46321720	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tgttcagtaatttctactagGgaactctctgttattttttc	6	7	3	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr12:46321720G>T	uc001rox.2	-	11	2051	c.1764C>A	c.(1762-1764)TCC>TCA	p.S588S	SFRS2IP_uc001row.2_Silent_p.S273S|SFRS2IP_uc001roy.1_Silent_p.S662S	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	588					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		TTTCTACTAGGGAACTCTCTG	0.368													5	34	---	---	---	---	PASS	T	46321720	T	T	46321720	2	4	2	1	0	0	0	0	0	0	0	1	14177	1219	43	3		3	SFRS2IP	12	46321720	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	31707971	46321720	87530175	101	413										
KRT73	319101	broad.mit.edu	37	chr12	53004546	53004546	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cgccctccagctcatccagcTtggccctggcatccttgagg	10	17	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr12:53004546T>G	uc001sas.2	-	7	1219	c.1184A>C	c.(1183-1185)AAG>ACG	p.K395T		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	395	Rod.|Coil 2.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CTCATCCAGCTTGGCCCTGGC	0.642													5	32	---	---	---	---	PASS	G	53004546	G	G	53004546	3	3	2	1	0	0	0	0	1	0	0	0	8486	1609	56	5	450	5	KRT73	12	53004546	Missense_Mutation	SNP	T	TCGA-18-3407-01A-01D-0983-08	6682826	53004546	80847349	102	414										
HCFC2	29915	broad.mit.edu	37	chr12	104481815	104481815	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	taataacatcgttcctaacaGtgtaagtaaaaaagtgtatg	7	5	0	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr12:104481815G>C	uc001tkj.3	+	9	1386	c.1283G>C	c.(1282-1284)AGT>ACT	p.S428T	HCFC2_uc009zul.2_Intron	NM_013320	NP_037452	Q9Y5Z7	HCFC2_HUMAN	host cell factor C2	428	Fibronectin type-III 1.				regulation of transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus	transcription coactivator activity			ovary(2)|central_nervous_system(1)	3						GTTCCTAACAGTGTAAGTAAA	0.343													6	14	---	---	---	---	PASS	C	104481815	C	C	104481815	3	2	2	1	0	0	0	0	1	0	0	0	6993	1043	36	4	1317	4	HCFC2	12	104481815	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	51477269	104481815	29370080	103	415										
PRKD1	5587	broad.mit.edu	37	chr14	30135343	30135343	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ttctccacagtgatcacagaAagctggagctctgtatgaat	9	9	3	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr14:30135343A>G	uc001wqh.2	-	3	656	c.475T>C	c.(475-477)TTC>CTC	p.F159L		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	159	Phorbol-ester/DAG-type 1.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TGATCACAGAAAGCTGGAGCT	0.418													17	48	---	---	---	---	PASS	G	30135343	G	G	30135343	3	3	2	1	0	0	0	0	1	0	0	0	12518	14	1	5	2327	5	PRKD1	14	30135343	Missense_Mutation	SNP	A	TCGA-18-3407-01A-01D-0983-08		30135343	77214197	104	416										
FMN1	342184	broad.mit.edu	37	chr15	33256413	33256413	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aattcactggggtcccgaatGtcaggttcttctaaggagtc	11	9	4	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr15:33256413G>T	uc001zhf.3	-	5	2364	c.2364C>A	c.(2362-2364)GAC>GAA	p.D788E		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	1011	FH2.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		GGTCCCGAATGTCAGGTTCTT	0.378													7	60	---	---	---	---	PASS	T	33256413	T	T	33256413	3	4	2	1	0	0	0	0	1	0	0	0	5949	1368	48	3	1278	3	FMN1	15	33256413	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08		33256413	69274979	105	417										
AQR	9716	broad.mit.edu	37	chr15	35210573	35210573	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	agaaattcgacgttcatgacGagatacctaaaataaaggaa	8	6	1	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr15:35210573G>T	uc001ziv.2	-	15	1409	c.1228C>A	c.(1228-1230)CGT>AGT	p.R410S		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	410						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		CGTTCATGACGAGATACCTAA	0.338													4	37	---	---	---	---	PASS	T	35210573	T	T	35210573	3	4	2	1	0	0	0	0	1	0	0	0	835	1058	37	2	3313	2	AQR	15	35210573	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	1954160	35210573	67320819	106	418										
KIF7	374654	broad.mit.edu	37	chr15	90171694	90171694	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aatcatccccgggctggctcGtcgcagttcccgccggggct	13	16	1	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr15:90171694G>A	uc002bof.2	-	19	4065	c.3988C>T	c.(3988-3990)CGA>TGA	p.R1330*	KIF7_uc010upw.1_Nonsense_Mutation_p.R816*|C15orf42_uc010upv.1_Intron	NM_198525	NP_940927	Q2M1P5	KIF7_HUMAN	kinesin family member 7	1330					microtubule-based movement|negative regulation of smoothened signaling pathway|positive regulation of smoothened signaling pathway	cilium	ATP binding|microtubule motor activity|protein binding			ovary(2)|lung(1)	3	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GGGCTGGCTCGTCGCAGTTCC	0.672													9	35	---	---	---	---	PASS	A	90171694	A	A	90171694	4	1	2	1	0	0	0	0	0	1	0	0	8309	1153	40	1	47	1	KIF7	15	90171694	Nonsense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	54961121	90171694	12359698	107	419										
PCSK6	5046	broad.mit.edu	37	chr15	101933582	101933582	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cagtagtccccctctctcccGccattcccagatgcccagac	6	20	1	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr15:101933582G>A	uc002bwy.2	-	9	1358	c.1044C>T	c.(1042-1044)GGC>GGT	p.G348G	PCSK6_uc010bpd.2_Silent_p.G218G|PCSK6_uc010bpe.2_Silent_p.G348G|PCSK6_uc002bxa.2_Silent_p.G348G|PCSK6_uc002bxb.2_Silent_p.G348G|PCSK6_uc002bxc.1_Silent_p.G348G|PCSK6_uc002bxd.1_Silent_p.G348G|PCSK6_uc002bxe.2_Silent_p.G348G|PCSK6_uc002bxg.1_Silent_p.G348G	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	348	Catalytic.				glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CCTCTCTCCCGCCATTCCCAG	0.617													8	33	---	---	---	---	PASS	A	101933582	A	A	101933582	2	1	2	1	0	0	0	0	0	0	0	1	11604	1074	38	1		1	PCSK6	15	101933582	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	11761888	101933582	597810	108	420										
BAIAP3	8938	broad.mit.edu	37	chr16	1388906	1388906	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cccggctctttctccaggaaAcccggggatggcgtggagtt	14	12	2	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:1388906A>C	uc002clk.1	+	3	240	c.240A>C	c.(238-240)AAA>AAC	p.K80N	BAIAP3_uc002clj.2_Missense_Mutation_p.K45N|BAIAP3_uc010uuz.1_Missense_Mutation_p.K45N|BAIAP3_uc010uva.1_Missense_Mutation_p.K45N|BAIAP3_uc010uvb.1_Missense_Mutation_p.K80N|BAIAP3_uc010uvc.1_Missense_Mutation_p.K45N	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	80					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				TCTCCAGGAAACCCGGGGATG	0.642													8	89	---	---	---	---	PASS	C	1388906	C	C	1388906	3	2	2	1	0	0	0	0	1	0	0	0	1304	40	2	5	250	5	BAIAP3	16	1388906	Missense_Mutation	SNP	A	TCGA-18-3407-01A-01D-0983-08		1388906	88965847	109	421										
CREBBP	1387	broad.mit.edu	37	chr16	3789636	3789636	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ggacgtgcattccaaaaaagCagacatccacgccgtcaatt	8	12	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:3789636C>T	uc002cvv.2	-	25	4427	c.4223G>A	c.(4222-4224)TGC>TAC	p.C1408Y	CREBBP_uc002cvw.2_Missense_Mutation_p.C1370Y	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1408	Cys/His-rich.				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	p.C1408Y(1)		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)		TCCAAAAAAGCAGACATCCAC	0.478			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				6	55	---	---	---	---	PASS	T	3789636	T	T	3789636	3	4	2	1	0	0	0	0	1	0	0	0	3861	710	25	3	3133	3	CREBBP	16	3789636	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	2400730	3789636	86565117	110	422										
A2BP1	54715	broad.mit.edu	37	chr16	7629902	7629902	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ccttcaggttccgggatccgGacctcagacaaatgtttggt	11	11	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:7629902G>A	uc002cys.2	+	6	1382	c.394G>A	c.(394-396)GAC>AAC	p.D132N	A2BP1_uc010buf.1_Missense_Mutation_p.D132N|A2BP1_uc002cyr.1_Missense_Mutation_p.D131N|A2BP1_uc002cyt.2_Missense_Mutation_p.D132N|A2BP1_uc010uxz.1_Missense_Mutation_p.D175N|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Missense_Mutation_p.D132N|A2BP1_uc010uyb.1_Missense_Mutation_p.D132N|A2BP1_uc002cyw.2_Missense_Mutation_p.D152N|A2BP1_uc002cyy.2_Missense_Mutation_p.D152N|A2BP1_uc002cyx.2_Missense_Mutation_p.D152N|A2BP1_uc010uyc.1_Missense_Mutation_p.D152N	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	132	RRM.				mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		CCGGGATCCGGACCTCAGACA	0.532													7	36	---	---	---	---	PASS	A	7629902	A	A	7629902	3	1	2	1	0	0	0	0	1	0	0	0	3	1174	41	2	495	2	A2BP1	16	7629902	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	3840266	7629902	82724851	111	423										
MYH11	4629	broad.mit.edu	37	chr16	15865568	15865568	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aagccctccaaaagcaagtcAcctagaaggagaggaagaca	10	10	1	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:15865568A>G	uc002ddy.2	-	9	998	c.891T>C	c.(889-891)AGT>AGC	p.S297S	MYH11_uc002ddv.2_Silent_p.S304S|MYH11_uc002ddw.2_Silent_p.S297S|MYH11_uc002ddx.2_Silent_p.S304S|MYH11_uc010bvg.2_Silent_p.S129S|MYH11_uc002dea.1_Silent_p.S3S	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	297	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						AAAGCAAGTCACCTAGAAGGA	0.488			T	CBFB	AML								11	56	---	---	---	---	PASS	G	15865568	G	G	15865568	2	3	2	1	0	0	0	0	0	0	0	1	10031	173	6	5		5	MYH11	16	15865568	Silent	SNP	A	TCGA-18-3407-01A-01D-0983-08	8235666	15865568	74489185	112	424										
ZKSCAN2	342357	broad.mit.edu	37	chr16	25264319	25264319	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cttcctgatctagggtattcCattcatcagcaagggcagga	10	10	3	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:25264319C>A	uc002dod.3	-	3	1033	c.626G>T	c.(625-627)TGG>TTG	p.W209L	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.M1I|ZKSCAN2_uc002doe.2_Missense_Mutation_p.W209L	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	209					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		TAGGGTATTCCATTCATCAGC	0.398													9	195	---	---	---	---	PASS	A	25264319	A	A	25264319	3	1	2	1	0	0	0	0	1	0	0	0	17684	595	21	3	2297	3	ZKSCAN2	16	25264319	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	9398751	25264319	65090434	113	425										
NETO2	81831	broad.mit.edu	37	chr16	47162370	47162370	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cacagtaacgatctataagaGgagagaaaccaaatggccca	9	9	1	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:47162370G>T	uc002eer.1	-	4	732	c.347C>A	c.(346-348)CCT>CAT	p.P116H	NETO2_uc010vgf.1_5'UTR|NETO2_uc002ees.1_Missense_Mutation_p.P116H	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	116	Extracellular (Potential).|CUB 1.					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				ATCTATAAGAGGAGAGAAACC	0.388										HNSCC(25;0.065)			6	102	---	---	---	---	PASS	T	47162370	T	T	47162370	3	4	2	1	0	0	0	0	1	0	0	0	10340	1000	35	3	1254	3	NETO2	16	47162370	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	21898051	47162370	43192383	114	426										
FTO	79068	broad.mit.edu	37	chr16	53922817	53922817	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gtgcactgactggtggtgtcAacccatggctcaactggaag	13	10	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:53922817A>T	uc002ehr.2	+	7	1415	c.1193A>T	c.(1192-1194)CAA>CTA	p.Q398L	FTO_uc010vha.1_Missense_Mutation_p.Q102L|FTO_uc010cbz.2_5'UTR	NM_001080432	NP_001073901	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	398					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TGGTGGTGTCAACCCATGGCT	0.498													8	57	---	---	---	---	PASS	T	53922817	T	T	53922817	3	4	2	1	0	0	0	0	1	0	0	0	6086	130	5	5	1219	5	FTO	16	53922817	Missense_Mutation	SNP	A	TCGA-18-3407-01A-01D-0983-08	6760447	53922817	36431936	115	427										
GPR56	9289	broad.mit.edu	37	chr16	57689812	57689812	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	agaattccagccaagtcctgGgtgagaaggtcttggggatt	14	7	1	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:57689812G>T	uc002emb.2	+	8	1217	c.925G>T	c.(925-927)GGT>TGT	p.G309C	GPR56_uc002elz.1_Missense_Mutation_p.G139C|GPR56_uc002ema.1_Missense_Mutation_p.G134C|GPR56_uc002emc.2_Missense_Mutation_p.G309C|GPR56_uc002emf.2_Missense_Mutation_p.G309C|GPR56_uc010vhs.1_Missense_Mutation_p.G309C|GPR56_uc002emd.2_Missense_Mutation_p.G309C|GPR56_uc002eme.2_Missense_Mutation_p.G309C|GPR56_uc010vht.1_Missense_Mutation_p.G314C|GPR56_uc002emg.3_Missense_Mutation_p.G309C|GPR56_uc010vhu.1_Missense_Mutation_p.G134C	NM_005682	NP_005673	Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56 isoform a	309	Extracellular (Potential).				brain development|cell adhesion|cell-cell signaling|neuropeptide signaling pathway	integral to plasma membrane	G-protein coupled receptor activity				0						CCAAGTCCTGGGTGAGAAGGT	0.557													7	127	---	---	---	---	PASS	T	57689812	T	T	57689812	3	4	2	1	0	0	0	0	1	0	0	0	6700	1232	43	3	962	3	GPR56	16	57689812	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	3766995	57689812	32664941	116	428										
NFATC3	4775	broad.mit.edu	37	chr16	68156951	68156951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ctttaaagaaagattcatgtGgtgatcagtttctttcagtt	8	5	4	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:68156951G>T	uc002evo.1	+	2	1375	c.1165G>T	c.(1165-1167)GGT>TGT	p.G389C	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Missense_Mutation_p.G389C|NFATC3_uc002evm.1_Missense_Mutation_p.G389C|NFATC3_uc002evn.1_Missense_Mutation_p.G389C|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	389					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		AGATTCATGTGGTGATCAGTT	0.468													6	93	---	---	---	---	PASS	T	68156951	T	T	68156951	3	4	2	1	0	0	0	0	1	0	0	0	10364	1348	47	3	1171	3	NFATC3	16	68156951	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	10467139	68156951	22197802	117	429										
SMG6	23293	broad.mit.edu	37	chr17	2202732	2202732	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	actccgagatcccttactacCagatccaaacaaaagccgag	6	14	0	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:2202732C>A	uc002fub.1	-	2	1370	c.1315G>T	c.(1315-1317)GGT>TGT	p.G439C	SMG6_uc002fud.1_Missense_Mutation_p.G408C	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	439	Interaction with telomeric DNA.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						CCCTTACTACCAGATCCAAAC	0.542													6	115	---	---	---	---	PASS	A	2202732	A	A	2202732	3	1	2	1	0	0	0	0	1	0	0	0	14797	594	21	3	3016	3	SMG6	17	2202732	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08		2202732	78992478	118	430										
OR1A1	8383	broad.mit.edu	37	chr17	3118956	3118956	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tctacactggaattcatcctCctgggagttactggtcagca	9	11	3	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:3118956C>A	uc010vrc.1	+	1	42	c.42C>A	c.(40-42)CTC>CTA	p.L14L		NM_014565	NP_055380	Q9P1Q5	OR1A1_HUMAN	olfactory receptor, family 1, subfamily A,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AATTCATCCTCCTGGGAGTTA	0.418													5	34	---	---	---	---	PASS	A	3118956	A	A	3118956	2	1	2	1	0	0	0	0	0	0	0	1	10949	842	30	2		2	OR1A1	17	3118956	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	916224	3118956	78076254	119	431										
DLG4	1742	broad.mit.edu	37	chr17	7094078	7094078	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	taggggcctgagaggtcctcGatgacacgcttcaccttgtg	13	11	1	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:7094078G>A	uc002get.3	-	22	3454	c.2253C>T	c.(2251-2253)ATC>ATT	p.I751I	DLG4_uc010vtm.1_RNA|DLG4_uc010vtn.1_Silent_p.I648I|DLG4_uc010cly.2_Silent_p.I705I|DLG4_uc010vto.1_Silent_p.I748I	NM_001365	NP_001356	P78352	DLG4_HUMAN	post-synaptic density protein 95 isoform 1	708	Guanylate kinase-like.				axon guidance|learning|protein complex assembly|protein localization to synapse|signal transduction|synaptic transmission	cell junction|cortical cytoskeleton|endocytic vesicle membrane|neuron spine|postsynaptic density|postsynaptic membrane|synaptosome	protein binding|protein C-terminus binding			ovary(1)|breast(1)	2						AGAGGTCCTCGATGACACGCT	0.622													13	69	---	---	---	---	PASS	A	7094078	A	A	7094078	2	1	2	1	0	0	0	0	0	0	0	1	4557	1048	37	2		2	DLG4	17	7094078	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	3975122	7094078	74101132	120	432										
TP53	7157	broad.mit.edu	37	chr17	7578213	7578214	+	Frame_Shift_Del	DEL	AA	-	-													0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ggcaccaccacactatgtcgAaaagtgtttctgtcatccaa							TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:7578213_7578214delAA	uc002gim.2	-	6	829_830	c.635_636delTT	c.(634-636)TTTfs	p.F212fs	TP53_uc002gig.1_Frame_Shift_Del_p.F212fs|TP53_uc002gih.2_Frame_Shift_Del_p.F212fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.F80fs|TP53_uc010cng.1_Frame_Shift_Del_p.F80fs|TP53_uc002gii.1_Frame_Shift_Del_p.F80fs|TP53_uc010cnh.1_Frame_Shift_Del_p.F212fs|TP53_uc010cni.1_Frame_Shift_Del_p.F212fs|TP53_uc002gij.2_Frame_Shift_Del_p.F212fs|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Frame_Shift_Del_p.F119fs|TP53_uc002gio.2_Frame_Shift_Del_p.F80fs|TP53_uc010vug.1_Frame_Shift_Del_p.F173fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	212	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		F -> S (in sporadic cancers; somatic mutation).|F -> L (in sporadic cancers; somatic mutation).|F -> I (in sporadic cancers; somatic mutation).|F -> Y (in sporadic cancers; somatic mutation).|F -> V (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.F212fs*3(7)|p.0?(7)|p.F212L(3)|p.F212S(2)|p.F212I(2)|p.D208fs*1(1)|p.T211_F212insX(1)|p.R209_R213delRNTFR(1)|p.D207_R213delDDRNTFR(1)|p.T211fs*28(1)|p.T211_S215delTFRHS(1)|p.K164_P219del(1)|p.D207_V216del10(1)|p.F212fs*4(1)|p.F212Y(1)|p.R209fs*6(1)|p.D208_V216delDRNTFRHSV(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)		CACTATGTCGAAAAGTGTTTCT	0.535		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)			29	13	---	---	---	---		-	7578214	-	-	7578213	7	5	2	1	0	1	0	1	0	0	0	0	16378	243	9	0	658	0	TP53	17	7578213	Frame_Shift_Del	DEL	AA	TCGA-18-3407-01A-01D-0983-08	484135	7578213	73616997	121	433										
DNAH2	146754	broad.mit.edu	37	chr17	7696493	7696493	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gactatggcttctggtatgaCcgtacgaagcagaccatcaa	10	10	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:7696493C>A	uc002giu.1	+	47	7553	c.7539C>A	c.(7537-7539)GAC>GAA	p.D2513E		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2513	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TCTGGTATGACCGTACGAAGC	0.532													4	39	---	---	---	---	PASS	A	7696493	A	A	7696493	3	1	2	1	0	0	0	0	1	0	0	0	4602	506	18	3	7725	3	DNAH2	17	7696493	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	118280	7696493	73498717	122	434										
SLFN11	91607	broad.mit.edu	37	chr17	33690294	33690294	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ggtcagcaggatccgagttaGggagctcttggtatacaccc	13	10	2	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:33690294G>C	uc010ctp.2	-	4	975	c.533C>G	c.(532-534)CCT>CGT	p.P178R	SLFN11_uc010ctq.2_Missense_Mutation_p.P178R|SLFN11_uc002hjh.3_Missense_Mutation_p.P178R|SLFN11_uc002hjg.3_Missense_Mutation_p.P178R|SLFN11_uc010ctr.2_Missense_Mutation_p.P178R	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	178						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		ATCCGAGTTAGGGAGCTCTTG	0.433													7	98	---	---	---	---	PASS	C	33690294	C	C	33690294	3	2	2	1	0	0	0	0	1	0	0	0	14733	1000	35	4	2188	4	SLFN11	17	33690294	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	25993801	33690294	47504916	123	435										
CWC25	54883	broad.mit.edu	37	chr17	36958422	36958422	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	attccgcttcacccgatcctCcagggaggaagtagatgcac	10	13	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:36958422C>A	uc002hqu.2	-	10	1354	c.1201G>T	c.(1201-1203)GAG>TAG	p.E401*	CWC25_uc010wdv.1_Nonsense_Mutation_p.E338*|PIP4K2B_uc002hqs.2_5'Flank|PIP4K2B_uc010wdt.1_5'Flank	NM_017748	NP_060218	Q9NXE8	CWC25_HUMAN	coiled-coil domain containing 49	401											0						ACCCGATCCTCCAGGGAGGAA	0.438													5	47	---	---	---	---	PASS	A	36958422	A	A	36958422	4	1	2	1	0	0	0	0	0	1	0	0	4069	864	30	2	80	2	CWC25	17	36958422	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	3268128	36958422	44236788	124	436										
KRT39	390792	broad.mit.edu	37	chr17	39122796	39122796	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	caggtagttagcaaggcgctCgttcaagatttgcatggtct	12	8	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:39122796C>A	uc002hvo.1	-	1	349	c.313G>T	c.(313-315)GAG>TAG	p.E105*	KRT39_uc010wfm.1_5'UTR	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	105	Coil 1A.|Rod.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				GCAAGGCGCTCGTTCAAGATT	0.448													5	159	---	---	---	---	PASS	A	39122796	A	A	39122796	4	1	2	1	0	0	0	0	0	1	0	0	8476	893	31	2	1190	2	KRT39	17	39122796	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	2164374	39122796	42072414	125	437										
EFTUD2	9343	broad.mit.edu	37	chr17	42937901	42937901	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	agcaggaacacggttcacctCgatgtggtacctgaagcaat	11	10	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:42937901C>A	uc002ihn.2	-	17	1879	c.1618G>T	c.(1618-1620)GAG>TAG	p.E540*	EFTUD2_uc010wje.1_Nonsense_Mutation_p.E505*|EFTUD2_uc010wjf.1_Nonsense_Mutation_p.E530*	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	540						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				CGGTTCACCTCGATGTGGTAC	0.393													4	57	---	---	---	---	PASS	A	42937901	A	A	42937901	4	1	2	1	0	0	0	0	0	1	0	0	4961	893	31	2	1348	2	EFTUD2	17	42937901	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	3815105	42937901	38257309	126	438										
MYST2	11143	broad.mit.edu	37	chr17	47886480	47886480	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tgacgttgttgatggttgcaGgtgagagcacagagccggga	17	6	0	4			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:47886480G>T	uc002ipm.2	+	6	790	c.664_splice	c.e6-1	p.V222_splice	MYST2_uc002ipl.1_Intron|MYST2_uc010wma.1_Splice_Site_p.V83_splice|MYST2_uc010wmb.1_Intron|MYST2_uc010wmc.1_Intron|MYST2_uc010wmd.1_Splice_Site_p.V66_splice|MYST2_uc010wme.1_Intron	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2						DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						GATGGTTGCAGGTGAGAGCAC	0.388													5	47	---	---	---	---	PASS	T	47886480	T	T	47886480	5	4	2	1	0	0	0	0	0	0	1	0	10103	1014	35	3	685	3	MYST2	17	47886480	Splice_Site	SNP	G	TCGA-18-3407-01A-01D-0983-08	4948579	47886480	33308730	127	439										
CA10	56934	broad.mit.edu	37	chr17	50008434	50008434	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tctatgttgactggcgactgCcgtttccccacagagcaaag	10	12	1	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:50008434C>T	uc002itw.3	-	3	1181	c.195G>A	c.(193-195)CGG>CGA	p.R65R	CA10_uc002itv.3_Silent_p.R71R|CA10_uc002itx.3_Silent_p.R65R|CA10_uc002ity.3_Silent_p.R65R|CA10_uc002itz.2_Silent_p.R65R	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	65					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			CTGGCGACTGCCGTTTCCCCA	0.478													7	83	---	---	---	---	PASS	T	50008434	T	T	50008434	2	4	2	1	0	0	0	0	0	0	0	1	2511	726	26	3		3	CA10	17	50008434	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	2121954	50008434	31186776	128	440										
TOM1L1	10040	broad.mit.edu	37	chr17	52993166	52993166	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aatgtgcgagtgatgtccgcCatattgatggagaatactcc	11	8	0	3	rs141567240		TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:52993166C>T	uc002iud.2	+	7	838	c.663C>T	c.(661-663)GCC>GCT	p.A221A	TOM1L1_uc002iub.2_Silent_p.A186A|TOM1L1_uc002iuc.2_Silent_p.A221A|TOM1L1_uc010dca.1_Silent_p.A221A|TOM1L1_uc010wnb.1_Silent_p.A214A|TOM1L1_uc010wnc.1_Silent_p.A144A|TOM1L1_uc010dbz.2_Silent_p.A144A|TOM1L1_uc010wnd.1_Silent_p.A109A|TOM1L1_uc010dcb.1_RNA	NM_005486	NP_005477	O75674	TM1L1_HUMAN	target of myb1-like 1	221	GAT.				intracellular protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	cytosol|endosome membrane|Golgi stack|lysosome	SH3 domain binding|ubiquitin binding			ovary(1)	1						TGATGTCCGCCATATTGATGG	0.433													4	31	---	---	---	---	PASS	T	52993166	T	T	52993166	2	4	2	1	0	0	0	0	0	0	0	1	16349	581	21	3		3	TOM1L1	17	52993166	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	2984732	52993166	28202044	129	441										
SSTR2	6752	broad.mit.edu	37	chr17	71166359	71166359	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ttgactttgtggtggtcctcAcctatgctaacagctgtgcc	10	11	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:71166359A>T	uc002jje.2	+	2	1261	c.901A>T	c.(901-903)ACC>TCC	p.T301S		NM_001050	NP_001041	P30874	SSR2_HUMAN	somatostatin receptor 2	301	Helical; Name=7; (Potential).				digestion|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	PDZ domain binding|somatostatin receptor activity				0			LUSC - Lung squamous cell carcinoma(166;0.197)			GGTGGTCCTCACCTATGCTAA	0.507													26	77	---	---	---	---	PASS	T	71166359	T	T	71166359	3	4	2	1	0	0	0	0	1	0	0	0	15197	159	6	5	903	5	SSTR2	17	71166359	Missense_Mutation	SNP	A	TCGA-18-3407-01A-01D-0983-08	18173193	71166359	10028851	130	442										
SEC14L1	6397	broad.mit.edu	37	chr17	75208270	75208270	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gcctctgatctgcaaagaagGagaaagcgtgcaggtaaaat	12	7	2	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:75208270G>A	uc002jto.2	+	15	2117	c.1850G>A	c.(1849-1851)GGA>GAA	p.G617E	SEC14L1_uc010dhc.2_Missense_Mutation_p.G617E|SEC14L1_uc010wth.1_Missense_Mutation_p.G617E|SEC14L1_uc002jtm.2_Missense_Mutation_p.G617E|SEC14L1_uc010wti.1_Missense_Mutation_p.G583E|SEC14L1_uc010wtj.1_Silent_p.R105R|SEC14L1_uc002jtr.2_Missense_Mutation_p.G11E	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	617	GOLD.				transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						TGCAAAGAAGGAGAAAGCGTG	0.537													39	170	---	---	---	---	PASS	A	75208270	A	A	75208270	3	1	2	1	0	0	0	0	1	0	0	0	13981	1174	41	2	1900	2	SEC14L1	17	75208270	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	4041911	75208270	5986940	131	443										
CCDC40	55036	broad.mit.edu	37	chr17	78039299	78039299	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tgcaggcctgcaccgagatcGacgccatcagcgtggagaag	14	12	1	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:78039299G>A	uc010dht.2	+	10	1483	c.1456G>A	c.(1456-1458)GAC>AAC	p.D486N	CCDC40_uc010wub.1_Intron|CCDC40_uc002jxm.3_Missense_Mutation_p.D269N	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	486					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			CACCGAGATCGACGCCATCAG	0.627													18	67	---	---	---	---	PASS	A	78039299	A	A	78039299	3	1	2	1	0	0	0	0	1	0	0	0	2812	1058	37	2	1494	2	CCDC40	17	78039299	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	2831029	78039299	3155911	132	444										
ASXL3	80816	broad.mit.edu	37	chr18	31324284	31324284	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tttgtctctgactgtctccgTtgaaagctcagaagccagct	9	11	3	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr18:31324284T>C	uc010dmg.1	+	12	4527	c.4472T>C	c.(4471-4473)GTT>GCT	p.V1491A	ASXL3_uc002kxq.2_Missense_Mutation_p.V1198A	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1491					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						ACTGTCTCCGTTGAAAGCTCA	0.562											OREG0024911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	34	---	---	---	---	PASS	C	31324284	C	C	31324284	3	2	2	1	0	0	0	0	1	0	0	0	1068	1725	60	5	4518	5	ASXL3	18	31324284	Missense_Mutation	SNP	T	TCGA-18-3407-01A-01D-0983-08		31324284	46752964	133	445										
MYO5B	4645	broad.mit.edu	37	chr18	47500812	47500812	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	acaatccagccgaacaactgGgcatagatgtgcttcgccag	10	12	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr18:47500812G>T	uc002leb.2	-	10	1518	c.1230C>A	c.(1228-1230)GCC>GCA	p.A410A	MYO5B_uc002lec.1_Silent_p.A409A	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	410	Myosin head-like.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		CGAACAACTGGGCATAGATGT	0.582													6	86	---	---	---	---	PASS	T	47500812	T	T	47500812	2	4	2	1	0	0	0	0	0	0	0	1	10079	1219	43	3		3	MYO5B	18	47500812	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	16176528	47500812	30576436	134	446										
ANKRD24	170961	broad.mit.edu	37	chr19	4217104	4217104	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	acaaaaacaaaagcagaggaAgcagaaatgcaggcctacgg	11	8	0	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:4217104A>G	uc010dtt.1	+	18	2223	c.1947A>G	c.(1945-1947)GAA>GAG	p.E649E	ANKRD24_uc002lzs.2_Silent_p.E620E|ANKRD24_uc002lzt.2_Silent_p.E621E	NM_133475	NP_597732	Q8TF21	ANR24_HUMAN	ankyrin repeat domain 24	649											0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)		AAGCAGAGGAAGCAGAAATGC	0.597													5	79	---	---	---	---	PASS	G	4217104	G	G	4217104	2	3	2	1	0	0	0	0	0	0	0	1	653	69	3	5		5	ANKRD24	19	4217104	Silent	SNP	A	TCGA-18-3407-01A-01D-0983-08		4217104	54911879	135	447										
SH3GL1	6455	broad.mit.edu	37	chr19	4366964	4366964	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	atcatccagcttggtcccctCggcccctccgaccttctcac	6	20	2	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:4366964C>A	uc002maj.2	-	2	179	c.73G>T	c.(73-75)GAG>TAG	p.E25*	SH3GL1_uc002mak.2_Nonsense_Mutation_p.E25*|SH3GL1_uc010xig.1_Nonsense_Mutation_p.E25*	NM_003025	NP_003016	Q99961	SH3G1_HUMAN	SH3-domain GRB2-like 1	25	BAR.				central nervous system development|endocytosis|signal transduction	early endosome membrane	lipid binding|protein binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0152)|STAD - Stomach adenocarcinoma(1328;0.182)		TTGGTCCCCTCGGCCCCTCCG	0.602			T	MLL	AL								7	541	---	---	---	---	PASS	A	4366964	A	A	4366964	4	1	2	1	0	0	0	0	0	1	0	0	14250	893	31	2	1069	2	SH3GL1	19	4366964	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	149860	4366964	54762019	136	448										
SEMA6B	10501	broad.mit.edu	37	chr19	4548318	4548318	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ctcctccaggaagacactgaGcccagacgtccctgaggtgc	11	15	0	4			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:4548318G>T	uc010duc.1	-	12	1449	c.1411C>A	c.(1411-1413)CTC>ATC	p.L471I	SEMA6B_uc010dud.2_Missense_Mutation_p.L471I|SEMA6B_uc010xih.1_Missense_Mutation_p.L471I	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	471	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGACACTGAGCCCAGACGTC	0.632													5	84	---	---	---	---	PASS	T	4548318	T	T	4548318	3	4	2	1	0	0	0	0	1	0	0	0	14040	971	34	3	1275	3	SEMA6B	19	4548318	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	181354	4548318	54580665	137	449										
SAFB	6294	broad.mit.edu	37	chr19	5641789	5641789	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ctggagaacttgcaggacatCgacatcatggatatcagtgt	11	8	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:5641789C>T	uc002mcf.2	+	4	431	c.378C>T	c.(376-378)ATC>ATT	p.I126I	SAFB_uc010xiq.1_Silent_p.I126I|SAFB_uc002mcg.2_Silent_p.I126I|SAFB_uc002mce.3_Silent_p.I126I|SAFB_uc010xir.1_Silent_p.I126I|SAFB_uc010xis.1_Intron|SAFB_uc010xit.1_Intron|SAFB_uc010xiu.1_Intron	NM_002967	NP_002958	Q15424	SAFB1_HUMAN	scaffold attachment factor B	126					chromatin organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding			ovary(1)|liver(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;0.000222)		TGCAGGACATCGACATCATGG	0.498													13	107	---	---	---	---	PASS	T	5641789	T	T	5641789	2	4	2	1	0	0	0	0	0	0	0	1	13806	874	31	2		2	SAFB	19	5641789	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	1093471	5641789	53487194	138	450										
MUC16	94025	broad.mit.edu	37	chr19	9056521	9056521	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	agcatccccagggcctgactCtgtcctagagaatggactac	10	13	1	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:9056521C>A	uc002mkp.2	-	3	31129	c.30925G>T	c.(30925-30927)GAG>TAG	p.E10309*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10311	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGGCCTGACTCTGTCCTAGAG	0.527													7	114	---	---	---	---	PASS	A	9056521	A	A	9056521	4	1	2	1	0	0	0	0	0	1	0	0	9973	922	32	2	12926	2	MUC16	19	9056521	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	3414732	9056521	50072462	139	451										
CDC37	11140	broad.mit.edu	37	chr19	10506132	10506132	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aaagtgcttgatctgtttctCgtatttttccacgaaggtct	8	8	3	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:10506132C>A	uc002mof.1	-	3	582	c.466G>T	c.(466-468)GAG>TAG	p.E156*	CDC37_uc002moe.1_Nonsense_Mutation_p.E111*|CDC37_uc010dxf.1_5'UTR|CDC37_uc002mog.1_Nonsense_Mutation_p.E156*|CDC37_uc002moh.2_Nonsense_Mutation_p.E156*	NM_007065	NP_008996	Q16543	CDC37_HUMAN	cell division cycle 37 protein	156					protein targeting|regulation of cyclin-dependent protein kinase activity|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway		unfolded protein binding				0			OV - Ovarian serous cystadenocarcinoma(20;4.65e-10)|Epithelial(33;6.48e-07)|all cancers(31;2.31e-06)	GBM - Glioblastoma multiforme(1328;0.0318)		ATCTGTTTCTCGTATTTTTCC	0.567													9	431	---	---	---	---	PASS	A	10506132	A	A	10506132	4	1	2	1	0	0	0	0	0	1	0	0	3068	893	31	2	694	2	CDC37	19	10506132	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	1449611	10506132	48622851	140	452										
KEAP1	9817	broad.mit.edu	37	chr19	10610247	10610247	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	catgacagcaccgttcatgaCgtggaggacacacttctcgc	10	13	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:10610247C>A	uc002moq.1	-	2	619	c.463G>T	c.(463-465)GTC>TTC	p.V155F	KEAP1_uc002mor.1_Missense_Mutation_p.V155F	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CCGTTCATGACGTGGAGGACA	0.587													25	49	---	---	---	---	PASS	A	10610247	A	A	10610247	3	1	2	1	0	0	0	0	1	0	0	0	8141	536	19	1	1431	1	KEAP1	19	10610247	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	104115	10610247	48518736	141	453										
SIN3B	23309	broad.mit.edu	37	chr19	16962230	16962230	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	catgtgtccttagttcacagGaaacgggccgtgcgagatgc	13	10	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:16962230G>C	uc002ney.1	+	6	748	c.734G>C	c.(733-735)GGA>GCA	p.G245A	SIN3B_uc002new.2_Missense_Mutation_p.G245A|SIN3B_uc002nex.2_Missense_Mutation_p.G177A|SIN3B_uc002nez.1_Missense_Mutation_p.G245A	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	245					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						TAGTTCACAGGAAACGGGCCG	0.647													12	49	---	---	---	---	PASS	C	16962230	C	C	16962230	3	2	2	1	0	0	0	0	1	0	0	0	14326	1174	41	2	756	2	SIN3B	19	16962230	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	6351983	16962230	42166753	142	454										
ZNF493	284443	broad.mit.edu	37	chr19	21605993	21605993	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gacataacacaaaacatactGgaaagaaacctttcaaatgt	5	8	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:21605993G>T	uc002npx.2	+	2	428	c.148G>T	c.(148-150)GGA>TGA	p.G50*	ZNF493_uc002npw.2_Nonsense_Mutation_p.G178*|ZNF493_uc002npy.2_Nonsense_Mutation_p.G50*	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	50					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAAACATACTGGAAAGAAACC	0.289													14	24	---	---	---	---	PASS	T	21605993	T	T	21605993	4	4	2	1	0	0	0	0	0	1	0	0	17941	1349	47	3	609	3	ZNF493	19	21605993	Nonsense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	4643763	21605993	37522990	143	455										
ZNF260	339324	broad.mit.edu	37	chr19	37005242	37005242	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tacattcatagggtttctctCctgtatgaatattgtgatgt	8	6	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:37005242C>A	uc002oee.1	-	4	1743	c.899G>T	c.(898-900)GGA>GTA	p.G300V	ZNF260_uc002oed.1_Missense_Mutation_p.G297V|ZNF260_uc010eey.1_Missense_Mutation_p.G297V|ZNF260_uc002oef.1_Missense_Mutation_p.G297V	NM_001012756	NP_001012774	Q3ZCT1	ZN260_HUMAN	zinc finger protein 260	300					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					GGGTTTCTCTCCTGTATGAAT	0.353													4	26	---	---	---	---	PASS	A	37005242	A	A	37005242	3	1	2	1	0	0	0	0	1	0	0	0	17799	855	30	2	343	2	ZNF260	19	37005242	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	15399249	37005242	22123741	144	456										
RYR1	6261	broad.mit.edu	37	chr19	39002950	39002950	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ctccttcttcgagagtgcctCggaggacatcgagaagatgg	13	10	1	3	rs148412985		TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:39002950C>A	uc002oit.2	+	63	9429	c.9299C>A	c.(9298-9300)TCG>TAG	p.S3100*	RYR1_uc002oiu.2_Nonsense_Mutation_p.S3100*|RYR1_uc002oiv.1_Nonsense_Mutation_p.S20*|RYR1_uc010xuf.1_Nonsense_Mutation_p.S20*	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3100	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GAGAGTGCCTCGGAGGACATC	0.607													4	45	---	---	---	---	PASS	A	39002950	A	A	39002950	4	1	2	1	0	0	0	0	0	1	0	0	13768	893	31	2	9549	2	RYR1	19	39002950	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	1997708	39002950	20126033	145	457										
ZFP36	7538	broad.mit.edu	37	chr19	39898388	39898388	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gacccatttccgcagagcctCctgtcgctgagccctgacgt	10	16	0	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:39898388C>A	uc002olh.1	+	2	88	c.30C>A	c.(28-30)CTC>CTA	p.L10L	ZFP36_uc010egn.1_5'UTR	NM_003407	NP_003398	P26651	TTP_HUMAN	zinc finger protein 36, C3H type, homolog	10					positive regulation of nuclear-transcribed mRNA poly(A) tail shortening	cytosol|nucleus	AU-rich element binding|DNA binding|mRNA binding|protein binding|single-stranded RNA binding|zinc ion binding			pancreas(1)	1	all_cancers(60;6.54e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.53e-06)|Ovarian(47;0.0512)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			CGCAGAGCCTCCTGTCGCTGA	0.667													8	159	---	---	---	---	PASS	A	39898388	A	A	39898388	2	1	2	1	0	0	0	0	0	0	0	1	17642	842	30	2		2	ZFP36	19	39898388	Silent	SNP	C	TCGA-18-3407-01A-01D-0983-08	895438	39898388	19230595	146	458										
PLD3	23646	broad.mit.edu	37	chr19	40872569	40872569	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gctgcccatgaatgagattgAggcgtggaaggctgcggaaa	16	7	0	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:40872569A>T	uc002onm.3	+	4	478	c.80A>T	c.(79-81)GAG>GTG	p.E27V	PLD3_uc002onj.3_Missense_Mutation_p.E27V|PLD3_uc002onk.3_Missense_Mutation_p.E27V|PLD3_uc002onl.3_Missense_Mutation_p.E27V|PLD3_uc002onn.2_Missense_Mutation_p.E27V|PLD3_uc002ono.2_Missense_Mutation_p.E27V	NM_001031696	NP_001026866	Q8IV08	PLD3_HUMAN	phospholipase D3	27	Cytoplasmic (Potential).				lipid catabolic process	endoplasmic reticulum membrane|integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity|protein binding			skin(2)|ovary(1)	3			Lung(22;0.000636)|LUSC - Lung squamous cell carcinoma(20;0.00248)			AATGAGATTGAGGCGTGGAAG	0.647													10	42	---	---	---	---	PASS	T	40872569	T	T	40872569	3	4	2	1	0	0	0	0	1	0	0	0	12047	304	11	5	86	5	PLD3	19	40872569	Missense_Mutation	SNP	A	TCGA-18-3407-01A-01D-0983-08	974181	40872569	18256414	147	459										
CYP2A6	1548	broad.mit.edu	37	chr19	41351983	41351983	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ggtttttcaagtagaactccGtgttggggttcttctcctcc	10	10	3	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:41351983G>A	uc002opl.3	-	6	872	c.851C>T	c.(850-852)ACG>ATG	p.T284M	CYP2A6_uc010ehe.1_Missense_Mutation_p.T80M|CYP2A6_uc010ehf.1_RNA	NM_000762	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A,	284					coumarin catabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|enzyme binding|heme binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Chlorzoxazone(DB00356)|Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Formoterol(DB00983)|Halothane(DB01159)|Letrozole(DB01006)|Methoxsalen(DB00553)|Metyrapone(DB01011)|Nicotine(DB00184)|Pilocarpine(DB01085)|Tolbutamide(DB01124)|Tranylcypromine(DB00752)	GTAGAACTCCGTGTTGGGGTT	0.562													10	51	---	---	---	---	PASS	A	41351983	A	A	41351983	3	1	2	1	0	0	0	0	1	0	0	0	4162	1145	40	1	649	1	CYP2A6	19	41351983	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	479414	41351983	17777000	148	460										
TMEM91	641649	broad.mit.edu	37	chr19	41888702	41888702	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gtcatccagtgacagtgactCggactgggatggaggcagcc	15	10	1	2	rs140231326	by1000genomes	TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:41888702C>A	uc002oqk.3	+	3	587	c.236C>A	c.(235-237)TCG>TAG	p.S79*	CYP2F1_uc010xvw.1_Intron|TMEM91_uc002oqi.2_Nonsense_Mutation_p.S79*|TMEM91_uc010ehq.2_Nonsense_Mutation_p.S79*|TMEM91_uc002oql.2_Nonsense_Mutation_p.S79*|TMEM91_uc010ehr.2_Nonsense_Mutation_p.S79*|TMEM91_uc010ehs.2_Nonsense_Mutation_p.S79*|TMEM91_uc010eht.2_Nonsense_Mutation_p.S79*|BCKDHA_uc002oqm.3_Intron|TMEM91_uc002oqn.2_Nonsense_Mutation_p.S79*	NM_001098821	NP_001092291	Q6ZNR0	TMM91_HUMAN	transmembrane protein 91 isoform a	79					response to biotic stimulus	integral to membrane					0						GACAGTGACTCGGACTGGGAT	0.572													9	321	---	---	---	---	PASS	A	41888702	A	A	41888702	4	1	2	1	0	0	0	0	0	1	0	0	16217	893	31	2	242	2	TMEM91	19	41888702	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	536719	41888702	17240281	149	461										
B3GNT8	374907	broad.mit.edu	37	chr19	41932031	41932031	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ctttgagcgtctggttgaatGggacgtcgaggaagtcccag	15	8	1	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:41932031G>C	uc002oqs.2	-	3	1107	c.653C>G	c.(652-654)CCA>CGA	p.P218R	CYP2F1_uc010xvw.1_Intron|B3GNT8_uc002oqt.1_Intron	NM_198540	NP_940942	Q7Z7M8	B3GN8_HUMAN	UDP-GlcNAc:betaGal	218	Lumenal (Potential).				poly-N-acetyllactosamine biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity|protein N-acetylglucosaminyltransferase activity				0						CTGGTTGAATGGGACGTCGAG	0.627													4	27	---	---	---	---	PASS	C	41932031	C	C	41932031	3	2	2	1	0	0	0	0	1	0	0	0	1263	1348	47	4	544	4	B3GNT8	19	41932031	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	43329	41932031	17196952	150	462										
PSG2	5670	broad.mit.edu	37	chr19	43575959	43575959	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tagtaatttgggggataaacAgattttgtcctgattgctga	11	4	0	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:43575959A>T	uc002ovr.2	-	4	950	c.857T>A	c.(856-858)CTG>CAG	p.L286Q	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.L286Q|PSG2_uc010eiq.1_Missense_Mutation_p.L286Q|PSG2_uc002ovs.3_Missense_Mutation_p.L286Q|PSG2_uc002ovt.3_Missense_Mutation_p.L286Q	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	286	Ig-like C2-type 2.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				GGGGATAAACAGATTTTGTCC	0.453													19	228	---	---	---	---	PASS	T	43575959	T	T	43575959	3	4	2	1	0	0	0	0	1	0	0	0	12655	188	7	5	158	5	PSG2	19	43575959	Missense_Mutation	SNP	A	TCGA-18-3407-01A-01D-0983-08	1643928	43575959	15553024	151	463										
ZNF225	7768	broad.mit.edu	37	chr19	44622462	44622462	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gaacttcaggaacctgctctCagtgggtgaggacaggcacc	13	11	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:44622462C>A	uc002oyj.1	+	3	380	c.137C>A	c.(136-138)TCA>TAA	p.S46*	ZNF225_uc010eje.1_5'UTR|ZNF225_uc010ejf.1_Nonsense_Mutation_p.S46*	NM_013362	NP_037494	Q9UK10	ZN225_HUMAN	zinc finger protein 225	46	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				AACCTGCTCTCAGTGGGTGAG	0.517													7	156	---	---	---	---	PASS	A	44622462	A	A	44622462	4	1	2	1	0	0	0	0	0	1	0	0	17776	838	29	2	143	2	ZNF225	19	44622462	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	1046503	44622462	14506521	152	464										
IGFL3	388555	broad.mit.edu	37	chr19	46627192	46627192	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gtgacactgagacttcatacCcagaaccctcaacttcacaa	5	14	3	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:46627192C>A	uc002pea.1	-	3	326	c.301G>T	c.(301-303)GGT>TGT	p.G101C		NM_207393	NP_997276	Q6UXB1	IGFL3_HUMAN	IGF-like family member 3 precursor	101						extracellular region	protein binding				0		Ovarian(192;0.0175)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00473)|GBM - Glioblastoma multiforme(486;0.0149)|Epithelial(262;0.239)		GACTTCATACCCAGAACCCTC	0.542													7	194	---	---	---	---	PASS	A	46627192	A	A	46627192	3	1	2	1	0	0	0	0	1	0	0	0	7588	623	22	3	84	3	IGFL3	19	46627192	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	2004730	46627192	12501791	153	465										
VSTM1	284415	broad.mit.edu	37	chr19	54545432	54545432	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	caagcatctacctcttggtgGattcctcagatgatgaacct	8	11	3	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:54545432G>T	uc002qcw.3	-	6	682	c.506C>A	c.(505-507)TCC>TAC	p.S169Y	VSTM1_uc010erb.2_Intron|VSTM1_uc002qcx.3_Missense_Mutation_p.S138Y	NM_198481	NP_940883	Q6UX27	VSTM1_HUMAN	V-set and transmembrane domain containing 1	169						integral to membrane					0	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.165)		CCTCTTGGTGGATTCCTCAGA	0.502													36	104	---	---	---	---	PASS	T	54545432	T	T	54545432	3	4	2	1	0	0	0	0	1	0	0	0	17225	1174	41	2	220	2	VSTM1	19	54545432	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	7918240	54545432	4583551	154	466										
NLRP13	126204	broad.mit.edu	37	chr19	56436016	56436016	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	atcttggcatccctgggtctGcatattccctgaaataaaca	7	11	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:56436016G>T	uc010ygg.1	-	3	422	c.397C>A	c.(397-399)CAG>AAG	p.Q133K		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	133							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)		CCCTGGGTCTGCATATTCCCT	0.418													9	45	---	---	---	---	PASS	T	56436016	T	T	56436016	3	4	2	1	0	0	0	0	1	0	0	0	10475	1328	46	3	2768	3	NLRP13	19	56436016	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	1890584	56436016	2692967	155	467										
ZNF749	388567	broad.mit.edu	37	chr19	57956622	57956622	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	catgagtgcagtaaatgtagGgaattgtttaggactaaatc	11	4	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:57956622G>T	uc002qoq.2	+	3	2360	c.2106G>T	c.(2104-2106)AGG>AGT	p.R702S	ZNF547_uc002qpm.3_Intron	NM_001023561	NP_001018855	O43361	ZN749_HUMAN	zinc finger protein 749	702	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)|Lung(386;0.177)		GTAAATGTAGGGAATTGTTTA	0.393													6	66	---	---	---	---	PASS	T	57956622	T	T	57956622	3	4	2	1	0	0	0	0	1	0	0	0	18128	1223	43	3	2116	3	ZNF749	19	57956622	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	1520606	57956622	1172361	156	468										
ZNF329	79673	broad.mit.edu	37	chr19	58639458	58639458	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gtgtgaattctctggtgcttGgtcagacaggagctgtccct	13	9	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:58639458G>T	uc002qrn.2	-	4	1650	c.1413C>A	c.(1411-1413)ACC>ACA	p.T471T	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	471	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		TCTGGTGCTTGGTCAGACAGG	0.507													9	75	---	---	---	---	PASS	T	58639458	T	T	58639458	2	4	2	1	0	0	0	0	0	0	0	1	17844	1335	47	3		3	ZNF329	19	58639458	Silent	SNP	G	TCGA-18-3407-01A-01D-0983-08	682836	58639458	489525	157	469										
SLC4A11	83959	broad.mit.edu	37	chr20	3211213	3211213	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gaaaaaggcataaagcgcaaGgaagaaactattccacaggc	10	8	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr20:3211213G>T	uc002wig.2	-	11	1459	c.1411C>A	c.(1411-1413)CTT>ATT	p.L471I	SLC4A11_uc010zqe.1_Missense_Mutation_p.L498I|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.L455I	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	471	Helical; (Potential).|Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						TAAAGCGCAAGGAAGAAACTA	0.542													6	136	---	---	---	---	PASS	T	3211213	T	T	3211213	3	4	2	1	0	0	0	0	1	0	0	0	14652	1000	35	3	1300	3	SLC4A11	20	3211213	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08		3211213	59814307	158	470										
RALGAPA2	57186	broad.mit.edu	37	chr20	20505105	20505105	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aatgctgctcctctaggactGctgtggacacggggtggaga	15	9	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr20:20505105G>A	uc002wrz.2	-	30	3988	c.3845C>T	c.(3844-3846)GCA>GTA	p.A1282V	RALGAPA2_uc010gcx.2_Missense_Mutation_p.A986V|RALGAPA2_uc010zsg.1_Missense_Mutation_p.A730V|RALGAPA2_uc002wsa.1_Missense_Mutation_p.A54V	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1282					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CTCTAGGACTGCTGTGGACAC	0.542													6	48	---	---	---	---	PASS	A	20505105	A	A	20505105	3	1	2	1	0	0	0	0	1	0	0	0	13014	1319	46	3	1816	3	RALGAPA2	20	20505105	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	17293892	20505105	42520415	159	471										
ZNF831	128611	broad.mit.edu	37	chr20	57829592	57829592	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tcccctgcccctctttaggaAgtgacggtaggaaacgtcag	11	12	2	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr20:57829592A>T	uc002yan.2	+	5	4828	c.4828A>T	c.(4828-4830)AGT>TGT	p.S1610C		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1610						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CTCTTTAGGAAGTGACGGTAG	0.498													10	56	---	---	---	---	PASS	T	57829592	T	T	57829592	3	4	2	1	0	0	0	0	1	0	0	0	18182	72	3	5	4846	5	ZNF831	20	57829592	Missense_Mutation	SNP	A	TCGA-18-3407-01A-01D-0983-08	37324487	57829592	5195928	160	472										
PDGFB	5155	broad.mit.edu	37	chr22	39631864	39631864	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cagcatctcataaagctcctCgggaatggggtccccctgcc	10	15	1	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:39631864C>A	uc003axf.2	-	2	1068	c.79G>T	c.(79-81)GAG>TAG	p.E27*	PDGFB_uc003axe.2_Nonsense_Mutation_p.E12*	NM_002608	NP_002599	P01127	PDGFB_HUMAN	platelet-derived growth factor beta isoform 1	27					activation of protein kinase B activity|cellular response to mycophenolic acid|embryonic placenta development|heart development|hemopoiesis|metanephric glomerular mesangial cell development|monocyte chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|negative regulation of transcription, DNA-dependent|paracrine signaling|peptidyl-serine phosphorylation|peptidyl-tyrosine phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of calcium ion import|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of cyclin-dependent protein kinase activity|positive regulation of DNA biosynthetic process|positive regulation of DNA replication|positive regulation of endothelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of glomerular filtration|positive regulation of glomerular mesangial cell proliferation|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent|reactive oxygen species metabolic process|transforming growth factor beta receptor signaling pathway	basolateral plasma membrane|cell surface|endoplasmic reticulum lumen|extracellular region|Golgi membrane|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|superoxide-generating NADPH oxidase activator activity		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(1)	373	Melanoma(58;0.04)				Becaplermin(DB00102)	TAAAGCTCCTCGGGAATGGGG	0.607			T	COL1A1	DFSP								3	17	---	---	---	---	PASS	A	39631864	A	A	39631864	4	1	2	1	0	0	0	0	0	1	0	0	11658	893	31	2	666	2	PDGFB	22	39631864	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08		39631864	11672702	161	473										
PMM1	5372	broad.mit.edu	37	chr22	41980049	41980049	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cagcatgccattccggaactCgatgaaggttccactggtgg	12	11	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:41980049C>A	uc003bal.2	-	5	450	c.388G>T	c.(388-390)GAG>TAG	p.E130*		NM_002676	NP_002667	Q92871	PMM1_HUMAN	phosphomannomutase 1	130					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	metal ion binding|phosphomannomutase activity			ovary(1)	1						TTCCGGAACTCGATGAAGGTT	0.577													4	57	---	---	---	---	PASS	A	41980049	A	A	41980049	4	1	2	1	0	0	0	0	0	1	0	0	12136	893	31	2	416	2	PMM1	22	41980049	Nonsense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	2348185	41980049	9324517	162	474										
TTLL12	23170	broad.mit.edu	37	chr22	43575988	43575988	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gtccatgatataccacaccgGcatcttctcctcagctgtct	6	15	4	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:43575988G>A	uc003bdq.2	-	4	597	c.565C>T	c.(565-567)CCG>TCG	p.P189S	TTLL12_uc003bdr.1_Missense_Mutation_p.P189S	NM_015140	NP_055955	Q14166	TTL12_HUMAN	tubulin tyrosine ligase-like family, member 12	189					protein modification process		tubulin-tyrosine ligase activity			central_nervous_system(1)	1		Ovarian(80;0.221)|Glioma(61;0.222)				TACCACACCGGCATCTTCTCC	0.612													12	111	---	---	---	---	PASS	A	43575988	A	A	43575988	3	1	2	1	0	0	0	0	1	0	0	0	16722	1203	42	3	1413	3	TTLL12	22	43575988	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	1595939	43575988	7728578	163	475										
PARVG	64098	broad.mit.edu	37	chr22	44583692	44583692	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	tcaatgccactcttctccccGagcacattgtggtccgcagc	8	16	3	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:44583692G>T	uc011aqe.1	+	5	605	c.181G>T	c.(181-183)GAG>TAG	p.E61*	PARVG_uc010gzo.2_3'UTR|PARVG_uc010gzp.2_RNA|PARVG_uc003bep.2_Nonsense_Mutation_p.E61*|PARVG_uc010gzr.1_RNA|PARVG_uc011aqf.1_Nonsense_Mutation_p.E61*|PARVG_uc003beq.2_RNA|PARVG_uc003ber.2_RNA	NM_001137605	NP_001131077	Q9HBI0	PARVG_HUMAN	parvin, gamma	61	CH 1.				cell-matrix adhesion	cytoplasm|cytoskeleton|focal adhesion	actin binding				0		Ovarian(80;0.024)|all_neural(38;0.0299)				TCTTCTCCCCGAGCACATTGT	0.502													4	41	---	---	---	---	PASS	T	44583692	T	T	44583692	4	4	2	1	0	0	0	0	0	1	0	0	11470	1059	37	2	191	2	PARVG	22	44583692	Nonsense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	1007704	44583692	6720874	164	476										
PKDREJ	10343	broad.mit.edu	37	chr22	46652800	46652800	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	agaatcctgttattggaaaaTtcagtgttctggaaagctga	10	5	2	2			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:46652800T>C	uc003bhh.2	-	1	6420	c.6420A>G	c.(6418-6420)GAA>GAG	p.E2140E		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	2140	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TATTGGAAAATTCAGTGTTCT	0.418													10	51	---	---	---	---	PASS	C	46652800	C	C	46652800	2	2	2	1	0	0	0	0	0	0	0	1	11970	1490	52	5		5	PKDREJ	22	46652800	Silent	SNP	T	TCGA-18-3407-01A-01D-0983-08	2069108	46652800	4651766	165	477										
GTSE1	51512	broad.mit.edu	37	chr22	46712232	46712232	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gactagaagtatcagacggcGagattcctgtctaaattcca	9	9	2	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:46712232G>T	uc011aqy.1	+	7	1567	c.1355G>T	c.(1354-1356)CGA>CTA	p.R452L	GTSE1_uc011aqz.1_Missense_Mutation_p.R299L|GTSE1_uc003bhl.1_Missense_Mutation_p.R77L|GTSE1_uc003bhm.1_Missense_Mutation_p.R77L	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	433					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		ATCAGACGGCGAGATTCCTGT	0.413													6	185	---	---	---	---	PASS	T	46712232	T	T	46712232	3	4	2	1	0	0	0	0	1	0	0	0	6885	1058	37	2	1377	2	GTSE1	22	46712232	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	59432	46712232	4592334	166	478										
PIM3	415116	broad.mit.edu	37	chr22	50356382	50356382	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	gtggatccgctaccaccgctAccacgggcgctcggccaccg	12	18	0	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:50356382A>G	uc003bjb.2	+	5	1115	c.662A>G	c.(661-663)TAC>TGC	p.Y221C	PIM3_uc011arj.1_5'UTR	NM_001001852	NP_001001852	Q86V86	PIM3_HUMAN	serine/threonine protein kinase pim-3	221	Protein kinase.				cell cycle|negative regulation of apoptosis|regulation of mitotic cell cycle		ATP binding|protein binding|protein serine/threonine kinase activity				0		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.196)|LUAD - Lung adenocarcinoma(64;0.247)		TACCACCGCTACCACGGGCGC	0.652													7	26	---	---	---	---	PASS	G	50356382	G	G	50356382	3	3	2	1	0	0	0	0	1	0	0	0	11929	391	14	5	680	5	PIM3	22	50356382	Missense_Mutation	SNP	A	TCGA-18-3407-01A-01D-0983-08	3644150	50356382	948184	167	479										
IQSEC2	23096	broad.mit.edu	37	chrX	53279723	53279723	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	ctcgcacttccccaacctccGacccccagccacaccactgg	5	23	0	0			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chrX:53279723G>A	uc004dsd.2	-	5	2236	c.2035C>T	c.(2035-2037)CGG>TGG	p.R679W	IQSEC2_uc004dsc.2_Missense_Mutation_p.R474W	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	669					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						CCCAACCTCCGACCCCCAGCC	0.433													8	8	---	---	---	---	PASS	A	53279723	A	A	53279723	3	1	2	1	0	0	0	0	1	0	0	0	7818	1057	37	2	2475	2	IQSEC2	23	53279723	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08		53279723	101990837	168	480										
TEX11	56159	broad.mit.edu	37	chrX	69898679	69898679	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	aactactggcagcttgtctcCacagaatgttgtgtaaccag	9	10	1	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chrX:69898679C>G	uc004dyl.2	-	16	1424	c.1262G>C	c.(1261-1263)TGG>TCG	p.W421S	TEX11_uc004dyk.2_Missense_Mutation_p.W96S|TEX11_uc004dym.2_Missense_Mutation_p.W406S	NM_001003811	NP_001003811	Q8IYF3	TEX11_HUMAN	testis expressed sequence 11 isoform 1	421							protein binding			ovary(3)|breast(1)|skin(1)	5	Renal(35;0.156)					AGCTTGTCTCCACAGAATGTT	0.343													4	14	---	---	---	---	PASS	G	69898679	G	G	69898679	3	3	2	1	0	0	0	0	1	0	0	0	15771	595	21	4	1624	4	TEX11	23	69898679	Missense_Mutation	SNP	C	TCGA-18-3407-01A-01D-0983-08	16618956	69898679	85371881	169	481										
TCEAL2	140597	broad.mit.edu	37	chrX	101381881	101381881	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	atgaagaacagccaccgcacGagggaaagccagaagtagct	12	10	0	3			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chrX:101381881G>T	uc004eip.2	+	3	298	c.79G>T	c.(79-81)GAG>TAG	p.E27*		NM_080390	NP_525129	Q9H3H9	TCAL2_HUMAN	transcription elongation factor A (SII)-like 2	27					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						GCCACCGCACGAGGGAAAGCC	0.433													4	85	---	---	---	---	PASS	T	101381881	T	T	101381881	4	4	2	1	0	0	0	0	0	1	0	0	15668	1059	37	2	81	2	TCEAL2	23	101381881	Nonsense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	31483202	101381881	53888679	170	482										
PLXNB3	5365	broad.mit.edu	37	chrX	153036446	153036446	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0116959064327485	2	0.995825814137728	0.318991899189919	0	0.412813046010483	0.461538461538461	0.81842946137857	0	cctgcctccttccactgctgGctggagctgcctggagaact	11	15	0	1			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chrX:153036446G>T	uc004fii.2	+	12	2337	c.2163G>T	c.(2161-2163)TGG>TGT	p.W721C	PLXNB3_uc011mzb.1_Missense_Mutation_p.G177V|PLXNB3_uc011mzc.1_Missense_Mutation_p.W403C|PLXNB3_uc010nuk.2_Missense_Mutation_p.W744C|PLXNB3_uc011mzd.1_Missense_Mutation_p.W360C	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	721	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					TCCACTGCTGGCTGGAGCTGC	0.652													21	19	---	---	---	---	PASS	T	153036446	T	T	153036446	3	4	2	1	0	0	0	0	1	0	0	0	12125	1212	42	3	2323	3	PLXNB3	23	153036446	Missense_Mutation	SNP	G	TCGA-18-3407-01A-01D-0983-08	51654565	153036446	2234114	171	483										
ZNF683	257101	broad.mit.edu	37	chr1	26688385	26688385	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tgtggggcatgcagccgatgGtgcagcttcaggtggatgtg	18	7	1	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr1:26688385G>A	uc001bmg.1	-	7	1450	c.1332C>T	c.(1330-1332)CAC>CAT	p.H444H	ZNF683_uc001bmh.1_Silent_p.H424H|ZNF683_uc009vsj.1_Silent_p.H424H	NM_173574	NP_775845	Q8IZ20	ZN683_HUMAN	zinc finger protein 683	444	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(24;2.39e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.76e-26)|Colorectal(126;1.38e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00793)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.159)|LUSC - Lung squamous cell carcinoma(448;0.233)		GCAGCCGATGGTGCAGCTTCA	0.667													13	21	---	---	---	---	PASS	A	26688385	A	A	26688385	2	1	3	1	0	0	0	0	0	0	0	1	18087	1252	44	3		3	ZNF683	1	26688385	Silent	SNP	G	TCGA-18-3408-01A-01D-0983-08		26688385	222562236	1	484										
SFN	2810	broad.mit.edu	37	chr1	27190282	27190282	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	cccgaggaggccatctctctGgccaagaccactttcgacga	10	15	2	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr1:27190282G>A	uc001bnc.1	+	1	650	c.579G>A	c.(577-579)CTG>CTA	p.L193L	uc010ofi.1_RNA	NM_006142	NP_006133	P31947	1433S_HUMAN	stratifin	193					DNA damage response, signal transduction resulting in induction of apoptosis|negative regulation of caspase activity|release of cytochrome c from mitochondria	cytoplasm|extracellular space|nucleus	protein domain specific binding|protein kinase C inhibitor activity				0		all_cancers(24;1.23e-26)|all_epithelial(13;1.19e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;0.00017)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.1e-52)|Epithelial(14;2.31e-52)|OV - Ovarian serous cystadenocarcinoma(117;8.22e-30)|Colorectal(126;1.31e-09)|COAD - Colon adenocarcinoma(152;3.45e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000501)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)|GBM - Glioblastoma multiforme(114;0.0767)|Lung(427;0.215)		CCATCTCTCTGGCCAAGACCA	0.607													7	66	---	---	---	---	PASS	A	27190282	A	A	27190282	2	1	3	1	0	0	0	0	0	0	0	1	14159	1335	47	3		3	SFN	1	27190282	Silent	SNP	G	TCGA-18-3408-01A-01D-0983-08	501897	27190282	222060339	2	485										
PDE4DIP	9659	broad.mit.edu	37	chr1	144879369	144879369	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	attctgcagctgggccttcaGatctttgatgtcctttcgta	9	10	3	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr1:144879369G>T	uc001elw.3	-	27	4372	c.4081C>A	c.(4081-4083)CTG>ATG	p.L1361M	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.L1317M|PDE4DIP_uc001elv.3_Missense_Mutation_p.L368M	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1361	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TGGGCCTTCAGATCTTTGATG	0.488			T	PDGFRB	MPD								19	124	---	---	---	---	PASS	T	144879369	T	T	144879369	3	4	3	1	0	0	0	0	1	0	0	0	11643	933	33	2	3031	2	PDE4DIP	1	144879369	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	117689087	144879369	104371252	3	486										
ANKRD34A	284615	broad.mit.edu	37	chr1	145473602	145473602	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gcgccgggggtgggggcgccGcggtggcctcgctgctcctt	20	14	0	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr1:145473602G>T	uc001enq.1	+	4	1567	c.274G>T	c.(274-276)GCG>TCG	p.A92S	NBPF10_uc001emp.3_Intron	NM_001039888	NP_001034977	Q69YU3	AN34A_HUMAN	ankyrin repeat domain 34	92	ANK 3.										0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TGGGGGCGCCGCGGTGGCCTC	0.716													11	43	---	---	---	---	PASS	T	145473602	T	T	145473602	3	4	3	1	0	0	0	0	1	0	0	0	662	1087	38	1	276	1	ANKRD34A	1	145473602	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	594233	145473602	103777019	4	487										
PBX1	5087	broad.mit.edu	37	chr1	164761954	164761954	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	atcagacaaatctaccatacGgagctggagaaatacgagca	9	9	2	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr1:164761954G>C	uc001gct.2	+	3	747	c.489G>C	c.(487-489)ACG>ACC	p.T163T	PBX1_uc010pku.1_Silent_p.T163T|PBX1_uc010pkv.1_Silent_p.T80T|PBX1_uc001gcs.2_Silent_p.T163T|PBX1_uc010pkw.1_Silent_p.T53T	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	163					negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						TCTACCATACGGAGCTGGAGA	0.502			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								8	33	---	---	---	---	PASS	C	164761954	C	C	164761954	2	2	3	1	0	0	0	0	0	0	0	1	11492	1103	39	4		4	PBX1	1	164761954	Silent	SNP	G	TCGA-18-3408-01A-01D-0983-08	19288352	164761954	84488667	5	488										
TDRD5	163589	broad.mit.edu	37	chr1	179561770	179561770	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	aatgtctgaacaagagcgtaTacaggaatgtctgcggaagg	13	6	2	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr1:179561770T>C	uc001gnf.1	+	2	270	c.20T>C	c.(19-21)ATA>ACA	p.I7T	TDRD5_uc010pnp.1_Missense_Mutation_p.I7T|uc010pno.1_5'Flank	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	7					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						CAAGAGCGTATACAGGAATGT	0.448													42	127	---	---	---	---	PASS	C	179561770	C	C	179561770	3	2	3	1	0	0	0	0	1	0	0	0	15730	1406	49	5	22	5	TDRD5	1	179561770	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08	14799816	179561770	69688851	6	489										
LAD1	3898	broad.mit.edu	37	chr1	201353941	201353941	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tgcgagttagggttgtttccGagttttctttcttgggtttc	12	6	2	0	rs138044157		TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr1:201353941G>A	uc001gwm.2	-	5	1389	c.1154C>T	c.(1153-1155)TCG>TTG	p.S385L	LAD1_uc009wzu.1_Missense_Mutation_p.S407L	NM_005558	NP_005549	O00515	LAD1_HUMAN	ladinin 1	385						basement membrane	structural molecule activity				0						GGTTGTTTCCGAGTTTTCTTT	0.542													7	185	---	---	---	---	PASS	A	201353941	A	A	201353941	3	1	3	1	0	0	0	0	1	0	0	0	8599	1059	37	2	423	2	LAD1	1	201353941	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	21792171	201353941	47896680	7	490										
USH2A	7399	broad.mit.edu	37	chr1	216011348	216011348	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tgtaccttgaagtgatgccaCgaattgtgggtgttggtata	13	5	0	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr1:216011348C>A	uc001hku.1	-	47	9743	c.9356G>T	c.(9355-9357)CGT>CTT	p.R3119L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3119	Extracellular (Potential).|Fibronectin type-III 18.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AGTGATGCCACGAATTGTGGG	0.393										HNSCC(13;0.011)			22	27	---	---	---	---	PASS	A	216011348	A	A	216011348	3	1	3	1	0	0	0	0	1	0	0	0	17033	536	19	1	6356	1	USH2A	1	216011348	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	14657407	216011348	33239273	8	491										
ZNF238	10472	broad.mit.edu	37	chr1	244218490	244218490	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	atgccgtggtgcacacccgcGagaagccgcacgcctgcaag	13	15	0	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr1:244218490G>T	uc001iae.2	+	1	1909	c.1387G>T	c.(1387-1389)GAG>TAG	p.E463*	ZNF238_uc001iad.3_Nonsense_Mutation_p.E472*|ZNF238_uc001iaf.1_3'UTR	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	463					negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			GCACACCCGCGAGAAGCCGCA	0.612													19	73	---	---	---	---	PASS	T	244218490	T	T	244218490	4	4	3	1	0	0	0	0	0	1	0	0	17787	1059	37	2	1420	2	ZNF238	1	244218490	Nonsense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	28207142	244218490	5032131	9	492										
VN1R5	317705	broad.mit.edu	37	chr1	247420223	247420223	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ttgtcttcacatactgggtgGactttacgttctcattttca	7	9	4	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr1:247420223G>T	uc010pyu.1	+	2	850	c.850G>T	c.(850-852)GAC>TAC	p.D284Y		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	284	Helical; Name=6; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			ATACTGGGTGGACTTTACGTT	0.493													14	158	---	---	---	---	PASS	T	247420223	T	T	247420223	3	4	3	1	0	0	0	0	1	0	0	0	17178	1174	41	2	852	2	VN1R5	1	247420223	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	3201733	247420223	1830398	10	493										
SLC3A1	6519	broad.mit.edu	37	chr2	44507894	44507894	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ctacatcacagctttaaataTaaaaactgtttggattactt	4	7	1	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr2:44507894T>C	uc002ruc.3	+	2	548	c.470T>C	c.(469-471)ATA>ACA	p.I157T	SLC3A1_uc002rty.2_Missense_Mutation_p.I157T|SLC3A1_uc002rtz.2_Missense_Mutation_p.I157T|SLC3A1_uc002rua.2_Missense_Mutation_p.I157T|SLC3A1_uc002rub.2_Missense_Mutation_p.I157T	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	157	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	GCTTTAAATATAAAAACTGTT	0.313													10	18	---	---	---	---	PASS	C	44507894	C	C	44507894	3	2	3	1	0	0	0	0	1	0	0	0	14626	1406	49	5	476	5	SLC3A1	2	44507894	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08		44507894	198691479	11	494										
C2orf3	6936	broad.mit.edu	37	chr2	75919142	75919142	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	cgttgattcatgttttaattCatcttgcctgcgtttcataa	6	8	4	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr2:75919142C>T	uc002sno.2	-	7	1235	c.1105G>A	c.(1105-1107)GAA>AAA	p.E369K	C2orf3_uc010ffs.2_Intron|C2orf3_uc002snn.2_Missense_Mutation_p.E200K|C2orf3_uc010fft.2_Missense_Mutation_p.E44K	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	369					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						TGTTTTAATTCATCTTGCCTG	0.299													4	3	---	---	---	---	PASS	T	75919142	T	T	75919142	3	4	3	1	0	0	0	0	1	0	0	0	2162	835	29	2	1284	2	C2orf3	2	75919142	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	31411248	75919142	167280231	12	495										
UGT1A7	54577	broad.mit.edu	37	chr2	234591377	234591377	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tttggagtatcccaaacccgTgatgcccaatatgatcttca	7	11	2	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr2:234591377T>A	uc002vut.2	+	1	794	c.794T>A	c.(793-795)GTG>GAG	p.V265E	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Missense_Mutation_p.V265E	NM_019077	NP_061950	Q9HAW7	UD17_HUMAN	UDP glycosyltransferase 1 family, polypeptide A7	265					drug metabolic process|negative regulation of fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	drug binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding|retinoic acid binding			ovary(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;8.93e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000412)|Lung(119;0.00333)|LUSC - Lung squamous cell carcinoma(224;0.00746)		CCCAAACCCGTGATGCCCAAT	0.433													31	66	---	---	---	---	PASS	A	234591377	A	A	234591377	3	1	3	1	0	0	0	0	1	0	0	0	16947	1696	59	5	796	5	UGT1A7	2	234591377	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08	158672235	234591377	8607996	13	496										
METTL6	131965	broad.mit.edu	37	chr3	15466468	15466468	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gatggtgcaccaaccttaacAtattcaatggctcttggaga	9	9	2	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr3:15466468A>T	uc003bzs.1	-	3	612	c.354T>A	c.(352-354)TAT>TAA	p.Y118*	METTL6_uc011avp.1_Intron|METTL6_uc003bzt.1_Nonsense_Mutation_p.Y118*	NM_152396	NP_689609	Q8TCB7	METL6_HUMAN	methyltransferase like 6	118							methyltransferase activity				0						CAACCTTAACATATTCAATGG	0.393													29	18	---	---	---	---	PASS	T	15466468	T	T	15466468	4	4	3	1	0	0	0	0	0	1	0	0	9504	224	8	5	516	5	METTL6	3	15466468	Nonsense_Mutation	SNP	A	TCGA-18-3408-01A-01D-0983-08		15466468	182555962	14	497										
BSN	8927	broad.mit.edu	37	chr3	49691576	49691576	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gcccccactccatcacctatGgtagcccagggtacacaaac	7	17	1	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr3:49691576G>T	uc003cxe.3	+	5	4701	c.4587G>T	c.(4585-4587)ATG>ATT	p.M1529I		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1529					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CATCACCTATGGTAGCCCAGG	0.612													42	32	---	---	---	---	PASS	T	49691576	T	T	49691576	3	4	3	1	0	0	0	0	1	0	0	0	1530	1348	47	3	4605	3	BSN	3	49691576	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	34225108	49691576	148330854	15	498										
FOXP1	27086	broad.mit.edu	37	chr3	71027024	71027030	+	Frame_Shift_Del	DEL	TGGGTCC	-	-													0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gtctgagtaccgcctgcggaTgggtcccaccgtgtgcatgc							TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr3:71027024_71027030delTGGGTCC	uc003dol.2	-	11	1620_1626	c.1297_1303delGGACCCA	c.(1297-1305)GGACCCATCfs	p.G433fs	FOXP1_uc003dom.2_Frame_Shift_Del_p.G357fs|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Frame_Shift_Del_p.G433fs|FOXP1_uc003dop.2_Frame_Shift_Del_p.G433fs|FOXP1_uc003doq.1_Frame_Shift_Del_p.G432fs|FOXP1_uc003doi.2_Frame_Shift_Del_p.G333fs|FOXP1_uc003doj.2_Frame_Shift_Del_p.G333fs|FOXP1_uc003dok.2_Frame_Shift_Del_p.G246fs|FOXP1_uc003dor.1_Frame_Shift_Del_p.G211fs	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	433_435					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)		CGCCTGCGGATGGGTCCCACCGTGTGC	0.546			T	PAX5	ALL								25	12	---	---	---	---		-	71027030	-	-	71027024	7	5	3	1	0	1	0	1	0	0	0	0	6026	1464	51	0	758	0	FOXP1	3	71027024	Frame_Shift_Del	DEL	TGGGTCC	TCGA-18-3408-01A-01D-0983-08	21335448	71027024	126995406	16	499										
ROBO2	6092	broad.mit.edu	37	chr3	77651403	77651403	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ccaaggggataaaacagcaaCgatgctctcagatggagcca	11	10	1	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr3:77651403C>T	uc003dpy.3	+	20	3540	c.2897C>T	c.(2896-2898)ACG>ATG	p.T966M	ROBO2_uc003dpz.2_Missense_Mutation_p.T970M|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.T970M|ROBO2_uc003dqa.2_Missense_Mutation_p.T93M	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	966	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		AAAACAGCAACGATGCTCTCA	0.458													8	50	---	---	---	---	PASS	T	77651403	T	T	77651403	3	4	3	1	0	0	0	0	1	0	0	0	13514	536	19	1	2977	1	ROBO2	3	77651403	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	6624379	77651403	120371027	17	500										
ZXDC	79364	broad.mit.edu	37	chr3	126180727	126180727	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	catccacactgaagctgcccTgctgcagaaccgtggctgct	10	15	0	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr3:126180727T>C	uc003eiv.2	-	6	1832	c.1778A>G	c.(1777-1779)CAG>CGG	p.Q593R	ZXDC_uc010hsh.2_RNA|ZXDC_uc003eix.2_Missense_Mutation_p.Q593R	NM_025112	NP_079388	Q2QGD7	ZXDC_HUMAN	ZXD family zinc finger C isoform 1	593	Required for transcriptional activation.				positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|LRR domain binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.155)		GAAGCTGCCCTGCTGCAGAAC	0.602													44	38	---	---	---	---	PASS	C	126180727	C	C	126180727	3	2	3	1	0	0	0	0	1	0	0	0	18249	1580	55	5	824	5	ZXDC	3	126180727	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08	48529324	126180727	71841703	18	501										
SERPINI1	5274	broad.mit.edu	37	chr3	167510549	167510549	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	agtccaaattccaatgatgtAtcagcaaggagaattttatt	7	6	1	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr3:167510549A>G	uc003ffa.3	+	4	851	c.653A>G	c.(652-654)TAT>TGT	p.Y218C	SERPINI1_uc003ffb.3_Missense_Mutation_p.Y218C	NM_001122752	NP_001116224	Q99574	NEUS_HUMAN	neuroserpin precursor	218					central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1						CCAATGATGTATCAGCAAGGA	0.328													7	38	---	---	---	---	PASS	G	167510549	G	G	167510549	3	3	3	1	0	0	0	0	1	0	0	0	14118	449	16	5	663	5	SERPINI1	3	167510549	Missense_Mutation	SNP	A	TCGA-18-3408-01A-01D-0983-08	41329822	167510549	30511881	19	502										
ACTL6A	86	broad.mit.edu	37	chr3	179301162	179301162	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gtctctatggcagtgtaataGtggcaggaggaaacacacta	12	7	1	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr3:179301162G>A	uc003fjw.2	+	12	1221	c.1048G>A	c.(1048-1050)GTG>ATG	p.V350M	ACTL6A_uc003fjx.2_Missense_Mutation_p.V308M|ACTL6A_uc003fjy.2_Missense_Mutation_p.V308M	NM_004301	NP_004292	O96019	ACL6A_HUMAN	actin-like 6A isoform 1	350					chromatin remodeling|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|nervous system development|regulation of growth|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	Ino80 complex|npBAF complex|NuA4 histone acetyltransferase complex|plasma membrane|SWI/SNF complex	ATP binding|chromatin binding			ovary(1)	1	all_cancers(143;3.94e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)			CAGTGTAATAGTGGCAGGAGG	0.343													10	22	---	---	---	---	PASS	A	179301162	A	A	179301162	3	1	3	1	0	0	0	0	1	0	0	0	198	1029	36	3	1094	3	ACTL6A	3	179301162	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	11790613	179301162	18721268	20	503										
PTPN13	5783	broad.mit.edu	37	chr4	87622769	87622769	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	agtgcggacttcaactactcCtagaaaaaaggaggcaagat	10	8	1	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr4:87622769C>G	uc003hpz.2	+	7	1490	c.1010C>G	c.(1009-1011)CCT>CGT	p.P337R	PTPN13_uc003hpy.2_Missense_Mutation_p.P337R|PTPN13_uc003hqa.2_Missense_Mutation_p.P337R|PTPN13_uc003hqb.2_Missense_Mutation_p.P337R	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	337						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		TCAACTACTCCTAGAAAAAAG	0.463													20	43	---	---	---	---	PASS	G	87622769	G	G	87622769	3	3	3	1	0	0	0	0	1	0	0	0	12782	681	24	4	1032	4	PTPN13	4	87622769	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08		87622769	103531507	21	504										
KIAA1109	84162	broad.mit.edu	37	chr4	123160881	123160881	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	agtagtgatgtctctcgaagTgatgagaatgtactagactc	11	6	1	4			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr4:123160881T>C	uc003ieh.2	+	27	4089	c.4044T>C	c.(4042-4044)AGT>AGC	p.S1348S	KIAA1109_uc003iei.1_Silent_p.S1101S|KIAA1109_uc010ins.1_Silent_p.S691S|KIAA1109_uc003iek.2_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1348					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TCTCTCGAAGTGATGAGAATG	0.433													11	14	---	---	---	---	PASS	C	123160881	C	C	123160881	2	2	3	1	0	0	0	0	0	0	0	1	8208	1693	59	5		5	KIAA1109	4	123160881	Silent	SNP	T	TCGA-18-3408-01A-01D-0983-08	35538112	123160881	67993395	22	505										
FAT4	79633	broad.mit.edu	37	chr4	126373089	126373089	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	taggctctgtgaagccacagGatccagatgtgttagacagc	12	9	1	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr4:126373089G>A	uc003ifj.3	+	9	10918	c.10918G>A	c.(10918-10920)GAT>AAT	p.D3640N	FAT4_uc011cgp.1_Missense_Mutation_p.D1938N|FAT4_uc003ifi.1_Missense_Mutation_p.D1118N	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3640	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAAGCCACAGGATCCAGATGT	0.463													10	24	---	---	---	---	PASS	A	126373089	A	A	126373089	3	1	3	1	0	0	0	0	1	0	0	0	5692	1174	41	2	10952	2	FAT4	4	126373089	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	3212208	126373089	64781187	23	506										
CCDC111	201973	broad.mit.edu	37	chr4	185580549	185580549	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	agatggacaacgtatttaccTtgtgacaacctatgctgaat	8	8	0	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr4:185580549T>G	uc003iwk.2	+	4	669	c.236T>G	c.(235-237)CTT>CGT	p.L79R	CCDC111_uc010isd.1_RNA|CCDC111_uc003iwj.2_Missense_Mutation_p.L79R|CCDC111_uc003iwl.2_Missense_Mutation_p.L79R|CCDC111_uc003iwm.2_5'UTR|CCDC111_uc003iwn.2_5'UTR	NM_152683	NP_689896	Q96LW4	CC111_HUMAN	coiled-coil domain containing 111	79					DNA replication, synthesis of RNA primer		DNA primase activity			central_nervous_system(1)	1		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.00531)|Hepatocellular(41;0.00932)|Renal(120;0.0246)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|all_neural(102;0.131)		all cancers(43;5.84e-27)|Epithelial(43;2.2e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.28e-11)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.03e-05)|Colorectal(24;7.57e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000249)|COAD - Colon adenocarcinoma(29;0.000502)|LUSC - Lung squamous cell carcinoma(40;0.00995)|READ - Rectum adenocarcinoma(43;0.173)		CGTATTTACCTTGTGACAACC	0.368													14	24	---	---	---	---	PASS	G	185580549	G	G	185580549	3	3	3	1	0	0	0	0	1	0	0	0	2748	1609	56	5	242	5	CCDC111	4	185580549	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08	59207460	185580549	5573727	24	507										
TRIML1	339976	broad.mit.edu	37	chr4	189065213	189065213	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	cgagccactcttgcttcagtGtccagaggccaccaccacag	9	16	2	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr4:189065213G>T	uc003izm.1	+	5	897	c.782G>T	c.(781-783)TGT>TTT	p.C261F	TRIML1_uc003izn.1_5'UTR	NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	261					multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		TTGCTTCAGTGTCCAGAGGCC	0.547													21	26	---	---	---	---	PASS	T	189065213	T	T	189065213	3	4	3	1	0	0	0	0	1	0	0	0	16547	1377	48	3	800	3	TRIML1	4	189065213	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	3484664	189065213	2089063	25	508										
SLC9A3	6550	broad.mit.edu	37	chr5	480068	480068	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ctgctgaggaacttcctgtcGaagtgggaccacctgtaggg	14	10	0	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr5:480068G>T	uc003jbe.2	-	10	1642	c.1530C>A	c.(1528-1530)TTC>TTA	p.F510L	SLC9A3_uc011clx.1_Missense_Mutation_p.F501L|uc011cly.1_RNA	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	510	Cytoplasmic (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			ACTTCCTGTCGAAGTGGGACC	0.617													16	102	---	---	---	---	PASS	T	480068	T	T	480068	3	4	3	1	0	0	0	0	1	0	0	0	14713	1049	37	2	1006	2	SLC9A3	5	480068	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08		480068	180435192	26	509										
ADCY2	108	broad.mit.edu	37	chr5	7706958	7706958	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tctgcagaagtggcaatatgAtgtgtggtcacatgatgtga	13	5	2	4			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr5:7706958A>G	uc003jdz.1	+	8	1278	c.1211A>G	c.(1210-1212)GAT>GGT	p.D404G	ADCY2_uc011cmo.1_Missense_Mutation_p.D224G	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	404	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						TGGCAATATGATGTGTGGTCA	0.512													35	64	---	---	---	---	PASS	G	7706958	G	G	7706958	3	3	3	1	0	0	0	0	1	0	0	0	294	333	12	5	1241	5	ADCY2	5	7706958	Missense_Mutation	SNP	A	TCGA-18-3408-01A-01D-0983-08	7226890	7706958	173208302	27	510										
MIER3	166968	broad.mit.edu	37	chr5	56219584	56219584	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	atcaggaataggctcaggccGgttagaagttaaggctgaag	14	6	2	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr5:56219584G>C	uc003jrd.1	-	12	1154	c.1129C>G	c.(1129-1131)CGG>GGG	p.R377G	MIER3_uc003jqz.1_Missense_Mutation_p.R314G|MIER3_uc003jra.1_Missense_Mutation_p.R376G|MIER3_uc003jrb.1_Missense_Mutation_p.R201G|MIER3_uc003jrc.1_Missense_Mutation_p.R382G	NM_152622	NP_689835	Q7Z3K6	MIER3_HUMAN	mesoderm induction early response 1, family	377					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Lung NSC(810;4.65e-05)|Prostate(74;0.0253)|Breast(144;0.0503)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;1.24e-37)		GGCTCAGGCCGGTTAGAAGTT	0.423													20	8	---	---	---	---	PASS	C	56219584	C	C	56219584	3	2	3	1	0	0	0	0	1	0	0	0	9582	1115	39	4	531	4	MIER3	5	56219584	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	48512626	56219584	124695676	28	511										
KIF3A	11127	broad.mit.edu	37	chr5	132039185	132039185	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gaagatctttttcccgtttcTctaattcagctctagccttg	6	11	4	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr5:132039185T>C	uc003kxo.2	-	10	1509	c.1355A>G	c.(1354-1356)GAG>GGG	p.E452G	KIF3A_uc003kxm.2_Missense_Mutation_p.E34G|KIF3A_uc003kxn.2_Missense_Mutation_p.E437G|KIF3A_uc011cxf.1_Missense_Mutation_p.E479G|KIF3A_uc003kxp.2_Missense_Mutation_p.E455G	NM_007054	NP_008985	Q9Y496	KIF3A_HUMAN	kinesin family member 3A	452	Potential.				blood coagulation|organelle organization|plus-end-directed vesicle transport along microtubule	centrosome|cytosol|kinesin II complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|protein binding			pancreas(1)	1		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTCCCGTTTCTCTAATTCAGC	0.328													9	7	---	---	---	---	PASS	C	132039185	C	C	132039185	3	2	3	1	0	0	0	0	1	0	0	0	8300	1551	54	5	776	5	KIF3A	5	132039185	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08	75819601	132039185	48876075	29	512										
PCDHB4	56131	broad.mit.edu	37	chr5	140502858	140502858	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	atcgccgtcactgacttgggGacacccaggctgaaaaccca	10	14	1	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr5:140502858G>C	uc003lip.1	+	1	1278	c.1278G>C	c.(1276-1278)GGG>GGC	p.G426G		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	426	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGACTTGGGGACACCCAGGC	0.542													51	36	---	---	---	---	PASS	C	140502858	C	C	140502858	2	2	3	1	0	0	0	0	0	0	0	1	11544	1161	41	2		2	PCDHB4	5	140502858	Silent	SNP	G	TCGA-18-3408-01A-01D-0983-08	8463673	140502858	40412402	30	513										
HLA-DPA1	3113	broad.mit.edu	37	chr6	33037649	33037649	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ctgtacaaacgcggcataagTtgacacatggtccgctgcat	10	11	0	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr6:33037649T>A	uc003ocs.1	-	2	146	c.115A>T	c.(115-117)ACT>TCT	p.T39S	HLA-DPA1_uc010juk.2_Missense_Mutation_p.T39S|HLA-DPA1_uc003oct.1_Missense_Mutation_p.T39S	NM_033554	NP_291032	P20036	DPA1_HUMAN	major histocompatibility complex, class II, DP	39	Alpha-1.|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			skin(1)	1						GCGGCATAAGTTGACACATGG	0.398													15	40	---	---	---	---	PASS	A	33037649	A	A	33037649	3	1	3	1	0	0	0	0	1	0	0	0	7202	1725	60	5	679	5	HLA-DPA1	6	33037649	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08		33037649	138077418	31	514										
VPS52	6293	broad.mit.edu	37	chr6	33235042	33235042	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gggggagatgacagagccgcGggttcctagggtgaaaatgg	19	6	0	4			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr6:33235042G>A	uc003odm.1	-	11	1258	c.1048C>T	c.(1048-1050)CGC>TGC	p.R350C	VPS52_uc003odn.1_Intron	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52	350					protein transport	endosome membrane|Golgi apparatus				ovary(4)|skin(1)	5						ACAGAGCCGCGGGTTCCTAGG	0.557													25	37	---	---	---	---	PASS	A	33235042	A	A	33235042	3	1	3	1	0	0	0	0	1	0	0	0	17211	1116	39	1	1163	1	VPS52	6	33235042	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	197393	33235042	137880025	32	515										
TRDN	10345	broad.mit.edu	37	chr6	123588862	123588862	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ggtaaaatacctgtttttatAgatggaggttctctttctcg	9	6	2	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr6:123588862A>G	uc003pzj.1	-	32	1795	c.1773T>C	c.(1771-1773)TCT>TCC	p.S591S	TRDN_uc010kem.1_Silent_p.S92S	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	591	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		CTGTTTTTATAGATGGAGGTT	0.269													3	1	---	---	---	---	PASS	G	123588862	G	G	123588862	2	3	3	1	0	0	0	0	0	0	0	1	16465	407	15	5		5	TRDN	6	123588862	Silent	SNP	A	TCGA-18-3408-01A-01D-0983-08	90353820	123588862	47526205	33	516										
INHBA	3624	broad.mit.edu	37	chr7	41729508	41729508	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ggcatgatagccagagggagCaatgatccagtcattccagc	12	10	1	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr7:41729508C>T	uc003thq.2	-	2	1256	c.1021G>A	c.(1021-1023)GCT>ACT	p.A341T	INHBA_uc003thr.2_Missense_Mutation_p.A341T	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	341					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						CCAGAGGGAGCAATGATCCAG	0.537										TSP Lung(11;0.080)			21	49	---	---	---	---	PASS	T	41729508	T	T	41729508	3	4	3	1	0	0	0	0	1	0	0	0	7741	710	25	3	263	3	INHBA	7	41729508	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08		41729508	117409155	34	517										
PCLO	27445	broad.mit.edu	37	chr7	82538245	82538245	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ggaccaatctttccggcagtTttcggtccagaccatgtcca	9	13	1	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr7:82538245T>C	uc003uhx.2	-	8	13674	c.13385A>G	c.(13384-13386)AAA>AGA	p.K4462R	PCLO_uc003uhv.2_Missense_Mutation_p.K4462R	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4393					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTCCGGCAGTTTTCGGTCCAG	0.423													4	14	---	---	---	---	PASS	C	82538245	C	C	82538245	3	2	3	1	0	0	0	0	1	0	0	0	11583	1841	64	5	2132	5	PCLO	7	82538245	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08	40808737	82538245	76600418	35	518										
PCOLCE	5118	broad.mit.edu	37	chr7	100204242	100204242	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ggagaaaacagaggaatctcCttcagcccctggtgagtctg	12	10	3	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr7:100204242C>A	uc003uvo.2	+	6	1127	c.929C>A	c.(928-930)CCT>CAT	p.P310H	uc011kjy.1_5'Flank|PCOLCE_uc010lhb.1_RNA|PCOLCE_uc003uvp.1_RNA	NM_002593	NP_002584	Q15113	PCOC1_HUMAN	procollagen C-endopeptidase enhancer	310					multicellular organismal development	extracellular space	collagen binding|heparin binding|peptidase activator activity				0	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					GAGGAATCTCCTTCAGCCCCT	0.512													4	41	---	---	---	---	PASS	A	100204242	A	A	100204242	3	1	3	1	0	0	0	0	1	0	0	0	11594	681	24	3	951	3	PCOLCE	7	100204242	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	17665997	100204242	58934421	36	519										
AKR1D1	6718	broad.mit.edu	37	chr7	137792169	137792169	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gatatttttaagggtgaatgTttcttctccacctttgttaa	7	6	2	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr7:137792169T>A	uc003vtz.2	+	7	767	c.698T>A	c.(697-699)GTT>GAT	p.V233D	AKR1D1_uc011kqe.1_Missense_Mutation_p.V233D|AKR1D1_uc011kqf.1_Missense_Mutation_p.V192D|AKR1D1_uc010lmy.1_RNA	NM_005989	NP_005980	P51857	AK1D1_HUMAN	aldo-keto reductase family 1, member D1	233					androgen metabolic process|bile acid biosynthetic process|bile acid catabolic process|C21-steroid hormone metabolic process|cholesterol catabolic process|digestion	cytosol	aldo-keto reductase (NADP) activity|delta4-3-oxosteroid 5beta-reductase activity|steroid binding			skin(1)	1						AGGGTGAATGTTTCTTCTCCA	0.378													13	19	---	---	---	---	PASS	A	137792169	A	A	137792169	3	1	3	1	0	0	0	0	1	0	0	0	473	1725	60	5	724	5	AKR1D1	7	137792169	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08	37587927	137792169	21346494	37	520										
ADCK2	90956	broad.mit.edu	37	chr7	140373931	140373931	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	cggaaacctccagaaaatctCgcagaccagtcgtttctaga	8	12	2	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr7:140373931C>A	uc003vvy.1	+	1	979	c.801C>A	c.(799-801)CTC>CTA	p.L267L	ADCK2_uc003vvz.2_Silent_p.L267L	NM_052853	NP_443085	Q7Z695	ADCK2_HUMAN	aarF domain containing kinase 2	267	Protein kinase.					integral to membrane	ATP binding|protein serine/threonine kinase activity				0	Melanoma(164;0.00956)					CAGAAAATCTCGCAGACCAGT	0.577													4	89	---	---	---	---	PASS	A	140373931	A	A	140373931	2	1	3	1	0	0	0	0	0	0	0	1	289	871	31	2		2	ADCK2	7	140373931	Silent	SNP	C	TCGA-18-3408-01A-01D-0983-08	2581762	140373931	18764732	38	521										
DLGAP2	9228	broad.mit.edu	37	chr8	1497207	1497207	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gccaacctgctggaccagttCgagaagcagctgccgctgca	12	14	0	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr8:1497207C>A	uc003wpl.2	+	2	445	c.348C>A	c.(346-348)TTC>TTA	p.F116L	DLGAP2_uc003wpm.2_Missense_Mutation_p.F116L	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	195					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		TGGACCAGTTCGAGAAGCAGC	0.697													5	3	---	---	---	---	PASS	A	1497207	A	A	1497207	3	1	3	1	0	0	0	0	1	0	0	0	4560	883	31	2	350	2	DLGAP2	8	1497207	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08		1497207	144866815	39	522										
TNFRSF10B	8795	broad.mit.edu	37	chr8	22887122	22887122	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	agcccccggctcctgtctcaCcctgtgcggcacttccggca	10	19	1	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr8:22887122C>A	uc003xcu.2	-	4	769	c.476_splice	c.e4+1	p.G159_splice	TNFRSF10B_uc003xcs.1_5'Flank|TNFRSF10B_uc003xct.2_Splice_Site_p.G159_splice|TNFRSF10B_uc011kzq.1_Splice_Site_p.G8_splice|TNFRSF10B_uc003xcv.2_Splice_Site_p.G57_splice	NM_003842	NP_003833	O14763	TR10B_HUMAN	tumor necrosis factor receptor superfamily,						activation of NF-kappaB-inducing kinase activity|activation of pro-apoptotic gene products|cell surface receptor linked signaling pathway|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|positive regulation of I-kappaB kinase/NF-kappaB cascade	plasma membrane	caspase activator activity|receptor activity|TRAIL binding				0		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0179)|COAD - Colon adenocarcinoma(73;0.0703)		TCCTGTCTCACCCTGTGCGGC	0.592													10	16	---	---	---	---	PASS	A	22887122	A	A	22887122	5	1	3	1	0	0	0	0	0	0	1	0	16278	521	18	3	869	3	TNFRSF10B	8	22887122	Splice_Site	SNP	C	TCGA-18-3408-01A-01D-0983-08	21389915	22887122	123476900	40	523										
KIF13B	23303	broad.mit.edu	37	chr8	28988133	28988133	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gtattcaccattctcattctGttccaagatttgaacccaga	5	11	3	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr8:28988133G>T	uc003xhh.3	-	24	3051	c.2992C>A	c.(2992-2994)CAG>AAG	p.Q998K	uc003xhi.1_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	998					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		TTCTCATTCTGTTCCAAGATT	0.403													10	25	---	---	---	---	PASS	T	28988133	T	T	28988133	3	4	3	1	0	0	0	0	1	0	0	0	8275	1386	48	3	2556	3	KIF13B	8	28988133	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	6101011	28988133	117375889	41	524										
MYST3	7994	broad.mit.edu	37	chr8	41845059	41845059	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	taccaagacagaaactacagAtggggattggttcagcaacc	10	9	1	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr8:41845059A>G	uc010lxb.2	-	4	1167	c.623T>C	c.(622-624)ATC>ACC	p.I208T	MYST3_uc010lxc.2_Missense_Mutation_p.I208T|MYST3_uc003xon.3_Missense_Mutation_p.I208T|MYST3_uc010lxd.2_Missense_Mutation_p.I208T	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	208	PHD-type 1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			GAAACTACAGATGGGGATTGG	0.383													6	179	---	---	---	---	PASS	G	41845059	G	G	41845059	3	3	3	1	0	0	0	0	1	0	0	0	10104	333	12	5	5451	5	MYST3	8	41845059	Missense_Mutation	SNP	A	TCGA-18-3408-01A-01D-0983-08	12856926	41845059	104518963	42	525										
LRRC6	23639	broad.mit.edu	37	chr8	133623603	133623603	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	acatcgattaaagaggtatcCatataccttcaaaattaaac	4	8	1	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr8:133623603C>A	uc003ytk.2	-	9	1055	c.981G>T	c.(979-981)ATG>ATT	p.M327I	LRRC6_uc003ytl.2_RNA	NM_012472	NP_036604	Q86X45	LRRC6_HUMAN	leucine rich repeat containing 6	327	CS.					cytoplasm				ovary(1)|kidney(1)	2	Ovarian(258;0.00352)|Esophageal squamous(12;0.00507)|all_neural(3;0.0052)|Medulloblastoma(3;0.0922)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			AAGAGGTATCCATATACCTTC	0.299													3	11	---	---	---	---	PASS	A	133623603	A	A	133623603	3	1	3	1	0	0	0	0	1	0	0	0	9016	594	21	3	435	3	LRRC6	8	133623603	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	91778544	133623603	12740419	43	526										
ZC3H3	23144	broad.mit.edu	37	chr8	144621138	144621138	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	cctgaggcactggcagagccAgactttgatggcggtttaac	13	10	0	4			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr8:144621138A>C	uc003yyd.2	-	2	428	c.399T>G	c.(397-399)TCT>TCG	p.S133S		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	133					mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			TGGCAGAGCCAGACTTTGATG	0.602													6	76	---	---	---	---	PASS	C	144621138	C	C	144621138	2	2	3	1	0	0	0	0	0	0	0	1	17566	175	7	5		5	ZC3H3	8	144621138	Silent	SNP	A	TCGA-18-3408-01A-01D-0983-08	10997535	144621138	1742884	44	527										
C9orf128	392307	broad.mit.edu	37	chr9	35826091	35826091	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	agtcctcagcagaggggtccTttgaaggggggtgcttctct	15	9	2	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr9:35826091T>C	uc010mlc.2	-	2	353	c.68A>G	c.(67-69)AAG>AGG	p.K23R	C9orf128_uc003zyj.2_RNA|C9orf128_uc011lpg.1_Missense_Mutation_p.K23R	NM_001012446	NP_001012448	A6H8Z2	CI128_HUMAN	hypothetical protein LOC392307	23											0	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			AGAGGGGTCCTTTGAAGGGGG	0.502											OREG0019180	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	47	---	---	---	---	PASS	C	35826091	C	C	35826091	3	2	3	1	0	0	0	0	1	0	0	0	2455	1609	56	5	1164	5	C9orf128	9	35826091	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08		35826091	105387340	45	528										
FAM171A1	221061	broad.mit.edu	37	chr10	15255479	15255479	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	cgaaccacgcccgggggtgcGgaagcggcttcccaccccca	13	18	0	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr10:15255479G>A	uc001iob.2	-	8	2115	c.2108C>T	c.(2107-2109)CCG>CTG	p.P703L		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	703	Cytoplasmic (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						CCGGGGGTGCGGAAGCGGCTT	0.567													31	37	---	---	---	---	PASS	A	15255479	A	A	15255479	3	1	3	1	0	0	0	0	1	0	0	0	5490	1116	39	1	568	1	FAM171A1	10	15255479	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08		15255479	120279268	46	529										
CDH23	64072	broad.mit.edu	37	chr10	73491744	73491744	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gcctctgtgtcctcctacagGggatggtggcctggtgaact	14	11	1	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr10:73491744G>A	uc001jrx.3	+	31	4093	c.3716G>A	c.(3715-3717)GGG>GAG	p.G1239E	CDH23_uc001jrz.2_Missense_Mutation_p.G855E|C10orf105_uc001jsb.1_Intron|CDH23_uc001jsc.1_Missense_Mutation_p.G47E	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1239	Cadherin 12.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CCTCCTACAGGGGATGGTGGC	0.592													12	31	---	---	---	---	PASS	A	73491744	A	A	73491744	3	1	3	1	0	0	0	0	1	0	0	0	3108	1246	43	3	4145	3	CDH23	10	73491744	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	58236265	73491744	62043003	47	530										
CCDC109A	90550	broad.mit.edu	37	chr10	74451958	74451960	+	In_Frame_Del	DEL	GGC	-	-													0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tgctgctcctctcctctcggGgcggcggcggcgggggcgcc							TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr10:74451958_74451960delGGC	uc001jtc.2	+	1	70_72	c.49_51delGGC	c.(49-51)GGCdel	p.G22del	CCDC109A_uc009xqp.1_RNA|CCDC109A_uc009xqq.1_RNA|CCDC109A_uc010qjy.1_RNA|CCDC109A_uc009xqr.2_In_Frame_Del_p.G22del|CCDC109A_uc001jtd.2_5'Flank	NM_138357	NP_612366	Q8NE86	MCU_HUMAN	coiled-coil domain containing 109A	22	Mitochondrial matrix (Potential).				elevation of mitochondrial calcium ion concentration|mitochondrial calcium ion transport|protein complex oligomerization	integral to membrane|mitochondrial inner membrane	protein binding				0	Prostate(51;0.0198)					CTCCTCTCGGggcggcggcggcg	0.616													4	2	---	---	---	---		-	74451960	-	-	74451958	7	5	3	1	0	1	0	1	0	0	0	0	2744	1232	43	0	51	0	CCDC109A	10	74451958	In_Frame_Del	DEL	GGC	TCGA-18-3408-01A-01D-0983-08	960214	74451958	61082789	48	531										
JAKMIP3	282973	broad.mit.edu	37	chr10	133967422	133967422	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	cctcctgtgtttcaggagctGttcagtaagcagaagggcta	12	9	2	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr10:133967422G>T	uc001lkx.3	+	18	2142	c.2142G>T	c.(2140-2142)CTG>CTT	p.L714L	JAKMIP3_uc009yba.1_Silent_p.L151L	NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		TTCAGGAGCTGTTCAGTAAGC	0.612													4	89	---	---	---	---	PASS	T	133967422	T	T	133967422	2	4	3	1	0	0	0	0	0	0	0	1	7942	1364	48	3		3	JAKMIP3	10	133967422	Silent	SNP	G	TCGA-18-3408-01A-01D-0983-08	59515464	133967422	1567325	49	532										
STK32C	282974	broad.mit.edu	37	chr10	134040467	134040467	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tgtcctcctcgtcctggaagGagtacctgtgggcaccgatg	13	12	0	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr10:134040467G>A	uc001lle.1	-	4	616	c.476C>T	c.(475-477)TCC>TTC	p.S159F	STK32C_uc001lld.1_Missense_Mutation_p.S42F|STK32C_uc010quu.1_Missense_Mutation_p.S172F|STK32C_uc009ybc.1_Missense_Mutation_p.S42F|STK32C_uc009ybd.1_Missense_Mutation_p.S42F|STK32C_uc001llb.2_5'UTR|STK32C_uc001llc.1_RNA	NM_173575	NP_775846	Q86UX6	ST32C_HUMAN	serine/threonine kinase 32C	159	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|breast(1)	5		all_cancers(35;2.72e-11)|all_epithelial(44;2.33e-08)|Lung NSC(174;0.000855)|all_lung(145;0.00146)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.112)|Melanoma(40;0.124)|Glioma(114;0.203)		Epithelial(32;3.99e-05)|all cancers(32;5.58e-05)|OV - Ovarian serous cystadenocarcinoma(35;9.96e-05)|BRCA - Breast invasive adenocarcinoma(275;0.222)		GTCCTGGAAGGAGTACCTGTG	0.627													11	28	---	---	---	---	PASS	A	134040467	A	A	134040467	3	1	3	1	0	0	0	0	1	0	0	0	15298	1174	41	2	1020	2	STK32C	10	134040467	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	73045	134040467	1494280	50	533										
OR4P4	81300	broad.mit.edu	37	chr11	55406376	55406376	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tacttctgtgatgtgtatccTttgctgaaattggcctgttc	9	8	1	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr11:55406376T>C	uc010rij.1	+	1	543	c.543T>C	c.(541-543)CCT>CCC	p.P181P		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						ATGTGTATCCTTTGCTGAAAT	0.388													9	2	---	---	---	---	PASS	C	55406376	C	C	55406376	2	2	3	1	0	0	0	0	0	0	0	1	11080	1596	56	5		5	OR4P4	11	55406376	Silent	SNP	T	TCGA-18-3408-01A-01D-0983-08		55406376	79600140	51	534										
OR4D11	219986	broad.mit.edu	37	chr11	59271853	59271853	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tcactgccctccccacagaaAaggccatctctgtcaccttc	5	18	3	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr11:59271853A>C	uc001noa.1	+	1	805	c.805A>C	c.(805-807)AAG>CAG	p.K269Q		NM_001004706	NP_001004706	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CCCCACAGAAAAGGCCATCTC	0.527													64	88	---	---	---	---	PASS	C	59271853	C	C	59271853	3	2	3	1	0	0	0	0	1	0	0	0	11055	15	1	5	807	5	OR4D11	11	59271853	Missense_Mutation	SNP	A	TCGA-18-3408-01A-01D-0983-08	3865477	59271853	75734663	52	535										
INTS5	80789	broad.mit.edu	37	chr11	62414975	62414975	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gctgctaccagctttaacagCtcaaagagcaggggctgttc	11	11	1	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr11:62414975C>T	uc001nud.2	-	2	2630	c.2577G>A	c.(2575-2577)GAG>GAA	p.E859E	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	859	Helical; (Potential).				snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						GCTTTAACAGCTCAAAGAGCA	0.677													14	24	---	---	---	---	PASS	T	62414975	T	T	62414975	2	4	3	1	0	0	0	0	0	0	0	1	7781	796	28	3		3	INTS5	11	62414975	Silent	SNP	C	TCGA-18-3408-01A-01D-0983-08	3143122	62414975	72591541	53	536										
KLC2	64837	broad.mit.edu	37	chr11	66030426	66030426	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tgtgccactctgcaagcaggCactcgaagacctggagaaga	12	11	1	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr11:66030426C>T	uc010rov.1	+	5	914	c.671C>T	c.(670-672)GCA>GTA	p.A224V	KLC2_uc010row.1_Missense_Mutation_p.A224V|KLC2_uc009yra.2_Missense_Mutation_p.A224V|KLC2_uc001ohb.2_Missense_Mutation_p.A224V|KLC2_uc010rox.1_Missense_Mutation_p.A147V|KLC2_uc001ohc.2_Missense_Mutation_p.A224V|KLC2_uc001ohd.2_Missense_Mutation_p.A147V|KLC2_uc001ohe.1_Missense_Mutation_p.A85V	NM_001134775	NP_001128247	Q9H0B6	KLC2_HUMAN	kinesin light chain 2 isoform 1	224	TPR 1.				blood coagulation	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0						TGCAAGCAGGCACTCGAAGAC	0.622													22	55	---	---	---	---	PASS	T	66030426	T	T	66030426	3	4	3	1	0	0	0	0	1	0	0	0	8334	710	25	3	685	3	KLC2	11	66030426	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	3615451	66030426	68976090	54	537										
FOLR3	2352	broad.mit.edu	37	chr11	71850518	71850518	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ctggcacaaaggctggaattGgacctcaggtgaggacctga	14	9	1	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr11:71850518G>A	uc001ory.1	+	4	661	c.611G>A	c.(610-612)TGG>TAG	p.W204*	FOLR3_uc001orx.1_Nonsense_Mutation_p.W162*			P41439	FOLR3_HUMAN	SubName: Full=FOLR3 protein; Flags: Fragment;	160					folic acid transport	extracellular region|extrinsic to membrane|membrane fraction	folic acid binding|receptor activity				0					Folic Acid(DB00158)	GGCTGGAATTGGACCTCAGGT	0.572													10	19	---	---	---	---	PASS	A	71850518	A	A	71850518	4	1	3	1	0	0	0	0	0	1	0	0	5983	1357	47	3	493	3	FOLR3	11	71850518	Nonsense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	5820092	71850518	63155998	55	538										
GLB1L2	89944	broad.mit.edu	37	chr11	134244883	134244883	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	caggtcatcgtttttgaggaGacgatggcgggccctgcatt	14	9	1	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr11:134244883G>A	uc001qhp.2	+	19	2030	c.1842G>A	c.(1840-1842)GAG>GAA	p.E614E	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	614					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		TTTTTGAGGAGACGATGGCGG	0.627													4	18	---	---	---	---	PASS	A	134244883	A	A	134244883	2	1	3	1	0	0	0	0	0	0	0	1	6429	933	33	2		2	GLB1L2	11	134244883	Silent	SNP	G	TCGA-18-3408-01A-01D-0983-08	62394365	134244883	761633	56	539										
GALNT8	26290	broad.mit.edu	37	chr12	4854615	4854615	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ggcagagccaatcttggctcGgattcaggaggaccgcactg	14	11	2	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr12:4854615G>A	uc001qne.1	+	5	973	c.881G>A	c.(880-882)CGG>CAG	p.R294Q		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	294	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						ATCTTGGCTCGGATTCAGGAG	0.478													13	18	---	---	---	---	PASS	A	4854615	A	A	4854615	3	1	3	1	0	0	0	0	1	0	0	0	6219	1116	39	1	899	1	GALNT8	12	4854615	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08		4854615	128997280	57	540										
AEBP2	121536	broad.mit.edu	37	chr12	19592829	19592840	+	In_Frame_Del	DEL	GGCGGCGGAGGC	-	-													0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tgaacggcggcagcggtgggGgcggcggaggcggcggcgga							TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr12:19592829_19592840delGGCGGCGGAGGC	uc001ref.2	+	1	222_233	c.196_207delGGCGGCGGAGGC	c.(196-207)GGCGGCGGAGGCdel	p.GGGG70del	AEBP2_uc001ree.2_In_Frame_Del_p.GGGG70del|AEBP2_uc001reg.1_5'Flank	NM_001114176	NP_001107648	Q6ZN18	AEBP2_HUMAN	AE binding protein 2 isoform b	70_73	Glu-rich.|Gly-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)|Esophageal squamous(101;0.143)					cagcggtgggggcggcggaggcggcggcggAG	0.387													5	5	---	---	---	---		-	19592840	-	-	19592829	7	5	3	1	0	1	0	1	0	0	0	0	350	1232	43	0	198	0	AEBP2	12	19592829	In_Frame_Del	DEL	GGCGGCGGAGGC	TCGA-18-3408-01A-01D-0983-08	14738214	19592829	114259066	58	541										
CCDC38	120935	broad.mit.edu	37	chr12	96292183	96292183	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	cttttcactgcttgtacctcCatgcttgctttcttcagctc	5	14	3	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr12:96292183C>G	uc001tek.1	-	7	828	c.594G>C	c.(592-594)ATG>ATC	p.M198I		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	198	Potential.									skin(1)	1						CTTGTACCTCCATGCTTGCTT	0.418													24	59	---	---	---	---	PASS	G	96292183	G	G	96292183	3	3	3	1	0	0	0	0	1	0	0	0	2810	594	21	4	1137	4	CCDC38	12	96292183	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	76699354	96292183	37559712	59	542										
ATXN2	6311	broad.mit.edu	37	chr12	111891561	111891561	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	cactttgagcgagggcggccTggggaccgccgggtggctgt	19	11	0	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr12:111891561T>C	uc001tsj.2	-	24	3995	c.3833A>G	c.(3832-3834)CAG>CGG	p.Q1278R	ATXN2_uc001tsh.2_Missense_Mutation_p.Q1038R|ATXN2_uc001tsi.2_Missense_Mutation_p.Q971R|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Intron|ATXN2_uc001tsl.1_3'UTR	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	1278					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						GAGGGCGGCCTGGGGACCGCC	0.567													10	22	---	---	---	---	PASS	C	111891561	C	C	111891561	3	2	3	1	0	0	0	0	1	0	0	0	1211	1580	55	5	116	5	ATXN2	12	111891561	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08	15599378	111891561	21960334	60	543										
HNF1A	6927	broad.mit.edu	37	chr12	121416852	121416852	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	agagctggagaacctcagccCtgaggaggcggcccaccaga	14	13	1	4			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr12:121416852C>A	uc001tzg.2	+	1	304	c.281C>A	c.(280-282)CCT>CAT	p.P94H	HNF1A_uc001tze.1_Missense_Mutation_p.P94H|HNF1A_uc001tzf.2_Missense_Mutation_p.P94H|HNF1A_uc010szn.1_Missense_Mutation_p.P94H	NM_000545	NP_000536	P20823	HNF1A_HUMAN	hepatic nuclear factor-1-alpha	94					glucose homeostasis|glucose import|insulin secretion|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|renal glucose absorption	cytoplasm|nucleus|protein complex	DNA binding|protein dimerization activity|protein heterodimerization activity|protein homodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			liver(92)|large_intestine(15)|endometrium(6)|breast(2)|lung(1)	116	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					AACCTCAGCCCTGAGGAGGCG	0.667									Hepatic_Adenoma_Familial_Clustering_of				7	7	---	---	---	---	PASS	A	121416852	A	A	121416852	3	1	3	1	0	0	0	0	1	0	0	0	7251	681	24	3	283	3	HNF1A	12	121416852	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	9525291	121416852	12435043	61	544										
TUBA3C	7278	broad.mit.edu	37	chr13	19753543	19753543	+	Missense_Mutation	SNP	T	G	G													0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	cgtgcttgccagctccagtcTcactgaagaacgtgttgaag							TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr13:19753543T>G	uc009zzj.2	-	2	213	c.164A>C	c.(163-165)GAG>GCG	p.E55A		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	55					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		AGCTCCAGTCTCACTGAAGAA	0.552													10	110	---	---	---	---	PASS	G	19753543	G	G	19753543	3	3	3	1	0	0	0	0	1	0	0	0	16743	1551	54	5	1204	5	TUBA3C	13	19753543	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08		19753543	95416335	62	545	4	2								
TUBA3C	7278	broad.mit.edu	37	chr13	19753544	19753544	+	Nonsense_Mutation	SNP	C	A	A													0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gtgcttgccagctccagtctCactgaagaacgtgttgaagg							TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr13:19753544C>A	uc009zzj.2	-	2	212	c.163G>T	c.(163-165)GAG>TAG	p.E55*		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	55					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		GCTCCAGTCTCACTGAAGAAC	0.552													11	110	---	---	---	---	PASS	A	19753544	A	A	19753544	4	1	3	1	0	0	0	0	0	1	0	0	16743	835	29	2	1205	2	TUBA3C	13	19753544	Nonsense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	1	19753544	95416334	63	546	4	2								
ADAM21	8747	broad.mit.edu	37	chr14	70925106	70925106	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	acagcatgatgctgcacataTgttcataaaaaattcactta	5	8	2	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr14:70925106T>C	uc001xmd.2	+	1	890	c.890T>C	c.(889-891)ATG>ACG	p.M297T		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	297	Peptidase M12B.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		GCTGCACATATGTTCATAAAA	0.383													24	38	---	---	---	---	PASS	C	70925106	C	C	70925106	3	2	3	1	0	0	0	0	1	0	0	0	243	1464	51	5	892	5	ADAM21	14	70925106	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08		70925106	36424434	64	547										
PLD4	122618	broad.mit.edu	37	chr14	105396392	105396392	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	aattctgggttgtggatggaCggcacatatacatgggcagt	14	6	1	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr14:105396392C>G	uc001ypu.1	+	6	808	c.667C>G	c.(667-669)CGG>GGG	p.R223G	PLD4_uc010tyl.1_Missense_Mutation_p.R230G	NM_138790	NP_620145	Q96BZ4	PLD4_HUMAN	phospholipase D4	223	PLD phosphodiesterase 1.				lipid catabolic process	integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity			central_nervous_system(1)|skin(1)	2		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.00067)|OV - Ovarian serous cystadenocarcinoma(23;0.00976)|Epithelial(46;0.0201)|GBM - Glioblastoma multiforme(11;0.116)		Choline(DB00122)	TGTGGATGGACGGCACATATA	0.602													22	50	---	---	---	---	PASS	G	105396392	G	G	105396392	3	3	3	1	0	0	0	0	1	0	0	0	12048	527	19	4	685	4	PLD4	14	105396392	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	34471286	105396392	1953148	65	548										
BRF1	2972	broad.mit.edu	37	chr14	105692499	105692499	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ctggtaactggatatttcacCtgaagtcataagttaaaagc	8	7	2	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr14:105692499C>A	uc001yqp.2	-	10	1319	c.956_splice	c.e10-1	p.G319_splice	BRF1_uc010tyo.1_Splice_Site_p.G204_splice|BRF1_uc010typ.1_Splice_Site_p.G204_splice|BRF1_uc001yql.2_Splice_Site_p.G115_splice|BRF1_uc001yqo.2_Splice_Site_p.G81_splice|BRF1_uc010axg.1_Splice_Site_p.G292_splice|BRF1_uc001yqn.2_Splice_Site|BRF1_uc010axh.1_Splice_Site	NM_001519	NP_001510	Q92994	TF3B_HUMAN	transcription initiation factor IIIB isoform 1						positive regulation of transcription, DNA-dependent|rRNA transcription|transcription initiation from RNA polymerase III promoter|tRNA transcription	transcription factor TFIIIB complex	translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		all_cancers(154;0.0231)|all_epithelial(191;0.0694)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00753)|all cancers(16;0.00925)|Epithelial(46;0.0221)	Epithelial(152;0.14)		GATATTTCACCTGAAGTCATA	0.438													5	94	---	---	---	---	PASS	A	105692499	A	A	105692499	5	1	3	1	0	0	0	0	0	0	1	0	1510	695	24	3	1114	3	BRF1	14	105692499	Splice_Site	SNP	C	TCGA-18-3408-01A-01D-0983-08	296107	105692499	1657041	66	549										
SNRPN	6638	broad.mit.edu	37	chr15	25223030	25223030	+	Frame_Shift_Del	DEL	C	-	-													0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	caccaggacggggcactccgCccccacccgtcggcagagca							TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr15:25223030delC	uc001ywp.1	+	11	1416	c.526delC	c.(526-528)CCCfs	p.P176fs	SNRPN_uc001ywq.1_Frame_Shift_Del_p.P176fs|SNRPN_uc001ywr.1_Frame_Shift_Del_p.P176fs|SNRPN_uc001yws.1_Frame_Shift_Del_p.P176fs|SNRPN_uc001ywt.1_Frame_Shift_Del_p.P176fs|SNRPN_uc001ywv.1_Frame_Shift_Del_p.P179fs|SNRPN_uc001yww.1_Frame_Shift_Del_p.P176fs|SNRPN_uc001ywx.1_Frame_Shift_Del_p.P176fs|SNRPN_uc001ywz.1_RNA|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	176	|Repeat-rich region.				RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		GGGCACTCCGCCCCCACCCGT	0.567									Prader-Willi_syndrome				5	10	---	---	---	---		-	25223030	-	-	25223030	7	5	3	1	0	1	0	1	0	0	0	0	14870	739	26	0	544	0	SNRPN	15	25223030	Frame_Shift_Del	DEL	C	TCGA-18-3408-01A-01D-0983-08		25223030	77308362	67	550										
UBE2Q2	92912	broad.mit.edu	37	chr15	76152255	76152255	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	agtggttgatatgtgaactcTgcagtttatataaccttcct	8	7	1	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr15:76152255T>C	uc002bbg.2	+	3	705	c.319T>C	c.(319-321)TGC>CGC	p.C107R	UBE2Q2_uc002bbh.2_Intron|UBE2Q2_uc010umn.1_Missense_Mutation_p.C91R|UBE2Q2_uc002bbi.2_5'UTR	NM_173469	NP_775740	Q8WVN8	UB2Q2_HUMAN	ubiquitin-conjugating enzyme E2Q 2 isoform 1	107					protein K48-linked ubiquitination	cytoplasm	ATP binding|ubiquitin-protein ligase activity			ovary(2)	2						ATGTGAACTCTGCAGTTTATA	0.378													7	13	---	---	---	---	PASS	C	76152255	C	C	76152255	3	2	3	1	0	0	0	0	1	0	0	0	16867	1580	55	5	465	5	UBE2Q2	15	76152255	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08	50929225	76152255	26379137	68	551										
CHD2	1106	broad.mit.edu	37	chr15	93536215	93536215	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tacgaagagcagctgaaagaAaatgccagcgagggtaagcg	14	7	0	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr15:93536215A>T	uc002bsp.2	+	28	4157	c.3582A>T	c.(3580-3582)GAA>GAT	p.E1194D	CHD2_uc002bso.1_Missense_Mutation_p.E1194D	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1194					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			AGCTGAAAGAAAATGCCAGCG	0.502													17	26	---	---	---	---	PASS	T	93536215	T	T	93536215	3	4	3	1	0	0	0	0	1	0	0	0	3325	11	1	5	3692	5	CHD2	15	93536215	Missense_Mutation	SNP	A	TCGA-18-3408-01A-01D-0983-08	17383960	93536215	8995177	69	552										
CREBBP	1387	broad.mit.edu	37	chr16	3808000	3808000	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	attgccctgtgtccagcttcCgcttgatggtggagaggtcc	13	11	0	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr16:3808000C>T	uc002cvv.2	-	18	3623	c.3419G>A	c.(3418-3420)CGG>CAG	p.R1140Q	CREBBP_uc002cvw.2_Missense_Mutation_p.R1102Q	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1140	Bromo.				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)		GTCCAGCTTCCGCTTGATGGT	0.463			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				23	27	---	---	---	---	PASS	T	3808000	T	T	3808000	3	4	3	1	0	0	0	0	1	0	0	0	3861	652	23	1	3965	1	CREBBP	16	3808000	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08		3808000	86546753	70	553										
HYDIN	54768	broad.mit.edu	37	chr16	70896017	70896017	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	attttactttgaacttctgaAtcttccccaccggcacgatt	5	12	2	2	rs57797337		TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr16:70896017A>G	uc002ezr.2	-	69	11836	c.11708T>C	c.(11707-11709)ATT>ACT	p.I3903T	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3904										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GAACTTCTGAATCTTCCCCAC	0.547													6	16	---	---	---	---	PASS	G	70896017	G	G	70896017	3	3	3	1	0	0	0	0	1	0	0	0	7467	101	4	5	3726	5	HYDIN	16	70896017	Missense_Mutation	SNP	A	TCGA-18-3408-01A-01D-0983-08	67088017	70896017	19458736	71	554										
LRRC50	123872	broad.mit.edu	37	chr16	84193349	84193349	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	acagaaggacagtcactgtaCgactaaagcacttaacatac	7	10	1	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr16:84193349C>T	uc002fhl.3	+	6	992	c.811C>T	c.(811-813)CGA>TGA	p.R271*	LRRC50_uc010chi.1_RNA|LRRC50_uc010vnw.1_Nonsense_Mutation_p.R19*	NM_178452	NP_848547	Q8NEP3	DAAF1_HUMAN	leucine rich repeat containing 50	271	LRRCT.				axonemal dynein complex assembly|cilium morphogenesis	cilium axoneme|cytoplasm|spindle pole	dynein binding				0						AGTCACTGTACGACTAAAGCA	0.388									Kartagener_syndrome				24	41	---	---	---	---	PASS	T	84193349	T	T	84193349	4	4	3	1	0	0	0	0	0	1	0	0	9009	528	19	1	833	1	LRRC50	16	84193349	Nonsense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	13297332	84193349	6161404	72	555										
TP53	7157	broad.mit.edu	37	chr17	7577556	7577556	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tccggttcatgccgcccatgCaggaactgttacacatgtag	10	12	1	0	rs121912655		TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr17:7577556C>A	uc002gim.2	-	7	919	c.725G>T	c.(724-726)TGC>TTC	p.C242F	TP53_uc002gig.1_Missense_Mutation_p.C242F|TP53_uc002gih.2_Missense_Mutation_p.C242F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C110F|TP53_uc010cng.1_Missense_Mutation_p.C110F|TP53_uc002gii.1_Missense_Mutation_p.C110F|TP53_uc010cnh.1_Missense_Mutation_p.C242F|TP53_uc010cni.1_Missense_Mutation_p.C242F|TP53_uc002gij.2_Missense_Mutation_p.C242F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C149F|TP53_uc002gio.2_Missense_Mutation_p.C110F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	242	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).	Zinc.	C -> F (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C242F(63)|p.C242Y(37)|p.C242S(25)|p.C242fs*5(16)|p.C242R(11)|p.C242W(7)|p.0?(7)|p.N239_C242delNSSC(3)|p.C242*(3)|p.C242C(2)|p.C242G(2)|p.C242fs*20(1)|p.C242fs*23(1)|p.Y236_M243delYMCNSSCM(1)|p.C242_M246>L(1)|p.N239fs*4(1)|p.C238_M246delCNSSCMGGM(1)|p.S241_C242insX(1)|p.C238fs*21(1)|p.C242fs*98(1)|p.H233_C242del10(1)|p.N239_C242>S(1)|p.S241_G245delSCMGG(1)|p.N239_C242del(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)		GCCGCCCATGCAGGAACTGTT	0.577		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)			59	21	---	---	---	---	PASS	A	7577556	A	A	7577556	3	1	3	1	0	0	0	0	1	0	0	0	16378	710	25	3	565	3	TP53	17	7577556	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08		7577556	73617654	73	556										
MYH8	4626	broad.mit.edu	37	chr17	10307778	10307778	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gaattcttccttcatggtggCcatctctttctcggtctctg	8	12	5	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr17:10307778C>T	uc002gmm.2	-	22	2652	c.2557G>A	c.(2557-2559)GCC>ACC	p.A853T	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	853	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TTCATGGTGGCCATCTCTTTC	0.458									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				12	30	---	---	---	---	PASS	T	10307778	T	T	10307778	3	4	3	1	0	0	0	0	1	0	0	0	10041	739	26	3	3332	3	MYH8	17	10307778	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	2730222	10307778	70887432	74	557										
KCNJ12	3768	broad.mit.edu	37	chr17	21318712	21318712	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tgtcatcggaggaggacgggCtgcacctggtcaccatgtcg	15	11	2	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr17:21318712C>A	uc002gyv.1	+	3	763	c.58C>A	c.(58-60)CTG>ATG	p.L20M		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	20	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GGAGGACGGGCTGCACCTGGT	0.687										Prostate(3;0.18)			5	35	---	---	---	---	PASS	A	21318712	A	A	21318712	3	1	3	1	0	0	0	0	1	0	0	0	8046	796	28	3	60	3	KCNJ12	17	21318712	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	11010934	21318712	59876498	75	558										
NEK8	284086	broad.mit.edu	37	chr17	27062332	27062332	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	aaccagaagagtgacatctgGgccctgggctgtgtcctcta	12	11	2	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr17:27062332G>A	uc002hcp.2	+	4	561	c.561G>A	c.(559-561)TGG>TGA	p.W187*		NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	187	Protein kinase.					cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					GTGACATCTGGGCCCTGGGCT	0.577													9	24	---	---	---	---	PASS	A	27062332	A	A	27062332	4	1	3	1	0	0	0	0	0	1	0	0	10330	1241	43	3	575	3	NEK8	17	27062332	Nonsense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	5743620	27062332	54132878	76	559										
MYO1D	4642	broad.mit.edu	37	chr17	30965835	30965835	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	aaaaattgctctgtcttccaCcttactaaatcgatttacct	3	11	2	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr17:30965835C>A	uc002hho.1	-	20	2626	c.2614G>T	c.(2614-2616)GTG>TTG	p.V872L	MYO1D_uc002hhp.1_Missense_Mutation_p.V872L	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	872						myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			CTGTCTTCCACCTTACTAAAT	0.358													5	11	---	---	---	---	PASS	A	30965835	A	A	30965835	3	1	3	1	0	0	0	0	1	0	0	0	10071	507	18	3	418	3	MYO1D	17	30965835	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	3903503	30965835	50229375	77	560										
SLFN11	91607	broad.mit.edu	37	chr17	33690215	33690215	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tgagactcaggaaaaggcagGatttcaccatattcaagata	9	7	3	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr17:33690215G>A	uc010ctp.2	-	4	1054	c.612C>T	c.(610-612)ATC>ATT	p.I204I	SLFN11_uc010ctq.2_Silent_p.I204I|SLFN11_uc002hjh.3_Silent_p.I204I|SLFN11_uc002hjg.3_Silent_p.I204I|SLFN11_uc010ctr.2_Silent_p.I204I	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	204						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GAAAAGGCAGGATTTCACCAT	0.413													18	44	---	---	---	---	PASS	A	33690215	A	A	33690215	2	1	3	1	0	0	0	0	0	0	0	1	14733	1164	41	2		2	SLFN11	17	33690215	Silent	SNP	G	TCGA-18-3408-01A-01D-0983-08	2724380	33690215	47504995	78	561										
AOC2	314	broad.mit.edu	37	chr17	40997603	40997603	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ggttcccagtacagtgtgcaAggaaacctggtggtatcctc	12	10	0	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr17:40997603A>G	uc002ibu.2	+	1	995	c.960A>G	c.(958-960)CAA>CAG	p.Q320Q	AOC2_uc002ibt.2_Silent_p.Q320Q	NM_009590	NP_033720	O75106	AOC2_HUMAN	amine oxidase, copper containing 2 isoform b	320					catecholamine metabolic process|visual perception	cytoplasm|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|electron carrier activity|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			ovary(2)	2		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		ACAGTGTGCAAGGAAACCTGG	0.547													45	58	---	---	---	---	PASS	G	40997603	G	G	40997603	2	3	3	1	0	0	0	0	0	0	0	1	727	69	3	5		5	AOC2	17	40997603	Silent	SNP	A	TCGA-18-3408-01A-01D-0983-08	7307388	40997603	40197607	79	562										
GJC1	10052	broad.mit.edu	37	chr17	42882110	42882110	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ggggaccatgagggttgtttTggtgactgtaggcctgaact	16	6	0	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr17:42882110T>C	uc002ihj.2	-	2	1587	c.1076A>G	c.(1075-1077)CAA>CGA	p.Q359R	GJC1_uc002ihk.2_Missense_Mutation_p.Q359R|GJC1_uc002ihl.2_Missense_Mutation_p.Q359R|GJC1_uc010czx.2_Missense_Mutation_p.Q359R|GJC1_uc010czy.1_Missense_Mutation_p.Q220R	NM_005497	NP_005488	P36383	CXG1_HUMAN	connexin 45	359	Cytoplasmic (Potential).				cellular membrane organization|gap junction assembly|muscle contraction|synaptic transmission|transport	connexon complex|integral to membrane					0		Prostate(33;0.0959)				AGGGTTGTTTTGGTGACTGTA	0.572													41	45	---	---	---	---	PASS	C	42882110	C	C	42882110	3	2	3	1	0	0	0	0	1	0	0	0	6414	1812	63	5	118	5	GJC1	17	42882110	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08	1884507	42882110	38313100	80	563										
STH	246744	broad.mit.edu	37	chr17	44076726	44076726	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tggccggccctcattgaatgCggggttaatttaactcagcc	11	11	2	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr17:44076726C>T	uc002ijy.2	+	1	111	c.81C>T	c.(79-81)TGC>TGT	p.C27C	MAPT_uc010dau.2_Intron|MAPT_uc002ijr.3_Intron|MAPT_uc002ijs.3_Intron|MAPT_uc002ijx.3_Intron|MAPT_uc002ijt.3_Intron|MAPT_uc002iju.3_Intron|MAPT_uc002ijv.3_Intron	NM_001007532	NP_001007533	Q8IWL8	STH_HUMAN	saitohin	27						cytoplasm|nucleus					0						tcattgaatgCGGGGTTAATT	0.254													7	74	---	---	---	---	PASS	T	44076726	T	T	44076726	2	4	3	1	0	0	0	0	0	0	0	1	15280	776	27	1		1	STH	17	44076726	Silent	SNP	C	TCGA-18-3408-01A-01D-0983-08	1194616	44076726	37118484	81	564										
SFRS1	6426	broad.mit.edu	37	chr17	56083253	56083253	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ccacgacaccagtgccatctCggtaaacatcagcataacat	6	14	2	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr17:56083253C>A	uc002ivi.2	-	3	670	c.461G>T	c.(460-462)CGA>CTA	p.R154L	SFRS1_uc002ivj.2_Missense_Mutation_p.R154L	NM_006924	NP_008855	Q07955	SRSF1_HUMAN	splicing factor, arginine/serine-rich 1 isoform	154	RRM 2.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA 5'-splice site recognition|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytoplasm|nuclear speck	nucleotide binding|RNA binding				0		Colorectal(1115;0.0691)		LUAD - Lung adenocarcinoma(1115;0.247)		AGTGCCATCTCGGTAAACATC	0.413													4	65	---	---	---	---	PASS	A	56083253	A	A	56083253	3	1	3	1	0	0	0	0	1	0	0	0	14165	884	31	2	347	2	SFRS1	17	56083253	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	12006527	56083253	25111957	82	565										
IMPACT	55364	broad.mit.edu	37	chr18	22007976	22007976	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tttgtattagaattagcgacGatatagatgaccccaaatgg	9	6	0	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr18:22007976G>C	uc002kvh.3	+	2	242	c.130G>C	c.(130-132)GAT>CAT	p.D44H	IMPACT_uc002kvg.3_Missense_Mutation_p.D26H	NM_018439	NP_060909	Q9P2X3	IMPCT_HUMAN	Impact homolog	44	RWD.										0	all_cancers(21;0.00018)|all_epithelial(16;1.5e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)					AATTAGCGACGATATAGATGA	0.408													38	86	---	---	---	---	PASS	C	22007976	C	C	22007976	3	2	3	1	0	0	0	0	1	0	0	0	7724	1058	37	2	136	2	IMPACT	18	22007976	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08		22007976	56069272	83	566										
UHRF1	29128	broad.mit.edu	37	chr19	4929420	4929420	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	cctccacccacggtgaggcgGccgccgagactgacagcagg	14	16	0	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr19:4929420G>T	uc002mbo.2	+	3	508	c.340G>T	c.(340-342)GCC>TCC	p.A114S	UHRF1_uc010xik.1_Intron|UHRF1_uc010duf.2_RNA|UHRF1_uc002mbp.2_Missense_Mutation_p.A127S	NM_001048201	NP_001041666	Q96T88	UHRF1_HUMAN	ubiquitin-like with PHD and ring finger domains	114					cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)		CGGTGAGGCGGCCGCCGAGAC	0.652													26	20	---	---	---	---	PASS	T	4929420	T	T	4929420	3	4	3	1	0	0	0	0	1	0	0	0	16964	1203	42	3	385	3	UHRF1	19	4929420	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08		4929420	54199563	84	567										
DNMT1	1786	broad.mit.edu	37	chr19	10270421	10270421	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	agatggacagcttctcatttGtcagcatctgtggctcatcc	9	11	4	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr19:10270421G>C	uc002mng.2	-	16	1325	c.1145C>G	c.(1144-1146)ACA>AGA	p.T382R	DNMT1_uc010xlc.1_Missense_Mutation_p.T398R|DNMT1_uc002mnh.2_Missense_Mutation_p.T277R|DNMT1_uc010xld.1_Missense_Mutation_p.T382R	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	382	DNA replication foci-targeting sequence (By similarity).|Homodimerization.|Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	CTTCTCATTTGTCAGCATCTG	0.547													6	134	---	---	---	---	PASS	C	10270421	C	C	10270421	3	2	3	1	0	0	0	0	1	0	0	0	4675	1377	48	4	3805	4	DNMT1	19	10270421	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	5341001	10270421	48858562	85	568										
HOOK2	29911	broad.mit.edu	37	chr19	12874185	12874185	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tgccagccgctgctgtgccaGgaatgactgggcatgggcag	16	11	0	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr19:12874185G>T	uc002muy.2	-	23	2242	c.2071C>A	c.(2071-2073)CTG>ATG	p.L691M	HOOK2_uc010xmq.1_Missense_Mutation_p.L96M|HOOK2_uc002muz.2_Missense_Mutation_p.L689M	NM_013312	NP_037444	Q96ED9	HOOK2_HUMAN	hook homolog 2 isoform 1	691	Sufficient for interaction with CEP110.|Required for localization to the centrosome and induction of aggresome formation.				early endosome to late endosome transport|endocytosis|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|protein transport	centrosome|FHF complex|microtubule	identical protein binding|microtubule binding			ovary(1)|breast(1)|skin(1)	3						TGCTGTGCCAGGAATGACTGG	0.637													5	51	---	---	---	---	PASS	T	12874185	T	T	12874185	3	4	3	1	0	0	0	0	1	0	0	0	7283	991	35	3	92	3	HOOK2	19	12874185	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	2603764	12874185	46254798	86	569										
PDE4C	5143	broad.mit.edu	37	chr19	18333041	18333041	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	actcgcgccgctggctgtgcGggactggagcctgcataatc	14	13	0	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr19:18333041G>A	uc010xqc.1	-	2	815	c.335C>T	c.(334-336)CCG>CTG	p.P112L	PDE4C_uc002nik.3_Missense_Mutation_p.P112L|PDE4C_uc002nil.3_Missense_Mutation_p.P112L|PDE4C_uc002nif.3_5'Flank|PDE4C_uc002nig.3_5'Flank|PDE4C_uc002nih.3_5'Flank|PDE4C_uc010ebk.2_Missense_Mutation_p.P6L|PDE4C_uc002nii.3_Missense_Mutation_p.P80L|PDE4C_uc010ebl.2_5'UTR|PDE4C_uc010xqd.1_5'UTR|PDE4C_uc010ebm.1_5'Flank|PDE4C_uc002nim.1_Missense_Mutation_p.P112L	NM_001098819	NP_001092289	Q08493	PDE4C_HUMAN	phosphodiesterase 4C isoform PDE4C-2	112					signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|skin(2)|central_nervous_system(1)	5					Dyphylline(DB00651)	CTGGCTGTGCGGGACTGGAGC	0.627													12	27	---	---	---	---	PASS	A	18333041	A	A	18333041	3	1	3	1	0	0	0	0	1	0	0	0	11641	1116	39	1	1859	1	PDE4C	19	18333041	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	5458856	18333041	40795942	87	570										
RYR1	6261	broad.mit.edu	37	chr19	38989785	38989785	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	aggctgtggcctccagagctGccccatgcttgtggccaaag	13	13	0	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr19:38989785G>T	uc002oit.2	+	43	7059	c.6929G>T	c.(6928-6930)TGC>TTC	p.C2310F	RYR1_uc002oiu.2_Missense_Mutation_p.C2310F|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2310	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CTCCAGAGCTGCCCCATGCTT	0.622													19	42	---	---	---	---	PASS	T	38989785	T	T	38989785	3	4	3	1	0	0	0	0	1	0	0	0	13768	1319	46	3	7099	3	RYR1	19	38989785	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	20656744	38989785	20139198	88	571										
BBC3	27113	broad.mit.edu	37	chr19	47725088	47725088	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ctccatctcgggggctctgtGgcccctgggtaagggcagga	16	12	2	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr19:47725088G>A	uc002pgf.3	-	4	834	c.553C>T	c.(553-555)CAC>TAC	p.H185Y	BBC3_uc010xyl.1_Missense_Mutation_p.P219L|BBC3_uc010eky.2_Missense_Mutation_p.H123Y|BBC3_uc010ekz.2_Missense_Mutation_p.P59L	NM_014417	NP_055232	Q9BXH1	BBC3_HUMAN	BCL2 binding component 3 isoform 4	185					activation of caspase activity|activation of pro-apoptotic gene products|cellular response to hypoxia|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of growth|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria|positive regulation of thymocyte apoptosis|protein insertion into mitochondrial membrane involved in induction of apoptosis|reduction of endoplasmic reticulum calcium ion concentration|release of cytochrome c from mitochondria|release of sequestered calcium ion into cytosol	cytosol|mitochondrial outer membrane	protein binding|protein binding				0		all_cancers(25;1.13e-05)|all_lung(116;0.000192)|all_epithelial(76;0.000274)|Lung NSC(112;0.000446)|all_neural(266;0.0652)|Ovarian(192;0.15)		all cancers(93;0.000179)|OV - Ovarian serous cystadenocarcinoma(262;0.00029)|Epithelial(262;0.0103)|GBM - Glioblastoma multiforme(486;0.0234)		GGGGCTCTGTGGCCCCTGGGT	0.667													7	15	---	---	---	---	PASS	A	47725088	A	A	47725088	3	1	3	1	0	0	0	0	1	0	0	0	1333	1348	47	3	133	3	BBC3	19	47725088	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	8735303	47725088	11403895	89	572										
KLK11	11012	broad.mit.edu	37	chr19	51525823	51525824	+	Frame_Shift_Ins	INS	-	G	G													0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	attgttcttcatcgtctcctINSggatccagtccacatatttg							TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr19:51525823_51525824insG	uc002pvd.1	-	6	938_939	c.826_827insC	c.(826-828)CAGfs	p.Q276fs	KLK10_uc002puy.2_5'Flank|KLK10_uc002puz.2_5'Flank|KLK10_uc002pva.2_5'Flank|KLK11_uc002pvb.1_Frame_Shift_Ins_p.Q269fs|KLK11_uc002pve.1_Frame_Shift_Ins_p.Q133fs|KLK11_uc002pvf.1_Frame_Shift_Ins_p.Q244fs|KLK11_uc002pvc.3_Frame_Shift_Ins_p.Q244fs	NM_144947	NP_659196	Q9UBX7	KLK11_HUMAN	kallikrein 11 isoform 2 precursor	276	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00327)|GBM - Glioblastoma multiforme(134;0.00878)		CATCGTCTCCTGGATCCAGTCC	0.5													114	54	---	---	---	---		G	51525824	G	G	51525823	7	5	3	1	0	1	1	0	0	0	0	0	8399	1580	55	0	25	0	KLK11	19	51525823	Frame_Shift_Ins	INS	-	TCGA-18-3408-01A-01D-0983-08	3800735	51525823	7603160	90	573										
NLRP7	199713	broad.mit.edu	37	chr19	55447727	55447727	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tgccctgccagggtcaggtgCgtgagggtcttcttcccaat	13	12	3	1	rs141917868		TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr19:55447727C>T	uc002qih.3	-	6	2278	c.2202G>A	c.(2200-2202)ACG>ACA	p.T734T	NLRP7_uc002qig.3_Silent_p.T706T|NLRP7_uc002qii.3_Silent_p.T734T|NLRP7_uc010esk.2_Silent_p.T734T|NLRP7_uc010esl.2_Silent_p.T762T	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	734							ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		GGGTCAGGTGCGTGAGGGTCT	0.517													16	32	---	---	---	---	PASS	T	55447727	T	T	55447727	2	4	3	1	0	0	0	0	0	0	0	1	10482	755	27	1		1	NLRP7	19	55447727	Silent	SNP	C	TCGA-18-3408-01A-01D-0983-08	3921904	55447727	3681256	91	574										
C19orf51	352909	broad.mit.edu	37	chr19	55670653	55670653	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gcggagttccgggttccacaGctgggacagtgttgcccaga	15	11	0	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr19:55670653G>A	uc002qji.1	-	12	1437	c.1403C>T	c.(1402-1404)GCT>GTT	p.A468V	TNNI3_uc002qjg.3_5'Flank|TNNI3_uc010yft.1_5'Flank|C19orf51_uc002qjh.1_Missense_Mutation_p.A283V|C19orf51_uc002qjj.1_Missense_Mutation_p.A515V|C19orf51_uc002qjk.1_Missense_Mutation_p.A414V|C19orf51_uc002qjl.1_Missense_Mutation_p.A535V			Q8N9W5	CS051_HUMAN	RecName: Full=UPF0470 protein C19orf51;	468											0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		GGGTTCCACAGCTGGGACAGT	0.632													5	50	---	---	---	---	PASS	A	55670653	A	A	55670653	3	1	3	1	0	0	0	0	1	0	0	0	1933	971	34	3	226	3	C19orf51	19	55670653	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	222926	55670653	3458330	92	575										
C20orf186	149954	broad.mit.edu	37	chr20	31671225	31671225	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gtccgaggaccccccccagtAtataccaacggcaaaaaact	7	15	0	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr20:31671225A>G	uc010zue.1	+	3	237	c.222A>G	c.(220-222)GTA>GTG	p.V74V		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	74						cytoplasm|extracellular region	lipid binding				0						CCCCCCCAGTATATACCAACG	0.488													57	110	---	---	---	---	PASS	G	31671225	G	G	31671225	2	3	3	1	0	0	0	0	0	0	0	1	2098	436	16	5		5	C20orf186	20	31671225	Silent	SNP	A	TCGA-18-3408-01A-01D-0983-08		31671225	31354295	93	576										
TOMM34	10953	broad.mit.edu	37	chr20	43585127	43585127	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ttcttctgggtctgaagaacCtgcccagatagagtggggaa	13	8	3	4			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr20:43585127C>A	uc002xmy.2	-	2	268	c.128_splice	c.e2-1	p.G43_splice	PABPC1L_uc002xmx.2_Intron|TOMM34_uc002xmz.2_Splice_Site	NM_006809	NP_006800	Q15785	TOM34_HUMAN	translocase of outer mitochondrial membrane 34						protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane	heat shock protein binding|signal sequence binding				0		Myeloproliferative disorder(115;0.0122)				TCTGAAGAACCTGCCCAGATA	0.468													6	109	---	---	---	---	PASS	A	43585127	A	A	43585127	5	1	3	1	0	0	0	0	0	0	1	0	16354	695	24	3	826	3	TOMM34	20	43585127	Splice_Site	SNP	C	TCGA-18-3408-01A-01D-0983-08	11913902	43585127	19440393	94	577										
PREX1	57580	broad.mit.edu	37	chr20	47444188	47444188	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gcgacactcaccgactgcaaGaagcgcaaggtgcccacgta	11	14	1	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr20:47444188G>T	uc002xtw.1	-	1	233	c.210C>A	c.(208-210)TTC>TTA	p.F70L		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	70	DH.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			CCGACTGCAAGAAGCGCAAGG	0.632													8	6	---	---	---	---	PASS	T	47444188	T	T	47444188	3	4	3	1	0	0	0	0	1	0	0	0	12476	933	33	2	4929	2	PREX1	20	47444188	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	3859061	47444188	15581332	95	578										
KRTAP12-2	353323	broad.mit.edu	37	chr21	46086489	46086489	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ggcctgcagctcacaggcacGcacagggaggactggcagga	16	12	1	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr21:46086489G>A	uc002zfu.2	-	1	356	c.315C>T	c.(313-315)TGC>TGT	p.C105C	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_181684	NP_859012	P59991	KR122_HUMAN	keratin associated protein 12-2	105	23 X 5 AA approximate repeats.|18.					keratin filament					0						TCACAGGCACGCACAGGGAGG	0.652													17	42	---	---	---	---	PASS	A	46086489	A	A	46086489	2	1	3	1	0	0	0	0	0	0	0	1	8519	1079	38	1		1	KRTAP12-2	21	46086489	Silent	SNP	G	TCGA-18-3408-01A-01D-0983-08		46086489	2043406	96	579										
SLC5A1	6523	broad.mit.edu	37	chr22	32506092	32506092	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gaagaggagaaagccatgaaGatgaagatgacggacacctc	13	7	0	7			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr22:32506092G>A	uc003amc.2	+	15	2119	c.1887G>A	c.(1885-1887)AAG>AAA	p.K629K	SLC5A1_uc011alz.1_Silent_p.K502K	NM_000343	NP_000334	P13866	SC5A1_HUMAN	solute carrier family 5 (sodium/glucose	629	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to plasma membrane	glucose:sodium symporter activity|protein binding			skin(1)	1						AAGCCATGAAGATGAAGATGA	0.483													66	35	---	---	---	---	PASS	A	32506092	A	A	32506092	2	1	3	1	0	0	0	0	0	0	0	1	14661	933	33	2		2	SLC5A1	22	32506092	Silent	SNP	G	TCGA-18-3408-01A-01D-0983-08		32506092	18798474	97	580										
CACNA1I	8911	broad.mit.edu	37	chr22	40060851	40060851	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	atcatcgacatcgtggtgtcCctggcctcagccgggggagc	14	13	2	0			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr22:40060851C>T	uc003ayc.2	+	21	3774	c.3774C>T	c.(3772-3774)TCC>TCT	p.S1258S	CACNA1I_uc003ayd.2_Silent_p.S1223S|CACNA1I_uc003aye.2_Silent_p.S1173S|CACNA1I_uc003ayf.2_Silent_p.S1138S	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1258	Helical; Name=S3 of repeat III; (Potential).|III.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	TCGTGGTGTCCCTGGCCTCAG	0.652													23	35	---	---	---	---	PASS	T	40060851	T	T	40060851	2	4	3	1	0	0	0	0	0	0	0	1	2546	610	22	3		3	CACNA1I	22	40060851	Silent	SNP	C	TCGA-18-3408-01A-01D-0983-08	7554759	40060851	11243715	98	581										
MKL1	57591	broad.mit.edu	37	chr22	40807497	40807497	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ggggggctaggctcagcacgGgaccacctgacgacagctcc	15	14	1	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chr22:40807497G>T	uc003ayv.1	-	12	2900	c.2693C>A	c.(2692-2694)CCC>CAC	p.P898H	MKL1_uc003ayw.1_Missense_Mutation_p.P898H|MKL1_uc010gye.1_3'UTR|MKL1_uc010gyf.1_Missense_Mutation_p.P848H	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	898					positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GCTCAGCACGGGACCACCTGA	0.612			T	RBM15	acute megakaryocytic leukemia								5	43	---	---	---	---	PASS	T	40807497	T	T	40807497	3	4	3	1	0	0	0	0	1	0	0	0	9601	1232	43	3	106	3	MKL1	22	40807497	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	746646	40807497	10497069	99	582										
PRPS2	5634	broad.mit.edu	37	chrX	12817407	12817407	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	gaaattaacgacaacctgatGgaactcctcatcatgatcaa	6	10	3	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chrX:12817407G>T	uc004cvb.2	+	2	328	c.204G>T	c.(202-204)ATG>ATT	p.M68I	PRPS2_uc004cva.2_Missense_Mutation_p.M68I|PRPS2_uc010nec.2_Missense_Mutation_p.M1I	NM_002765	NP_002756	P11908	PRPS2_HUMAN	phosphoribosyl pyrophosphate synthetase 2	68					nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity				0						ACAACCTGATGGAACTCCTCA	0.493													5	73	---	---	---	---	PASS	T	12817407	T	T	12817407	3	4	3	1	0	0	0	0	1	0	0	0	12580	1348	47	3	210	3	PRPS2	23	12817407	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08		12817407	142453153	100	583										
TLR7	51284	broad.mit.edu	37	chrX	12904135	12904135	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tcagaaaagagaatctaacaGaactggccaacatagaaata	7	7	2	4			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chrX:12904135G>T	uc004cvc.2	+	3	647	c.508G>T	c.(508-510)GAA>TAA	p.E170*		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	170	LRR 5.|Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	GAATCTAACAGAACTGGCCAA	0.418													5	35	---	---	---	---	PASS	T	12904135	T	T	12904135	4	4	3	1	0	0	0	0	0	1	0	0	15953	943	33	2	514	2	TLR7	23	12904135	Nonsense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	86728	12904135	142366425	101	584										
TLR8	51311	broad.mit.edu	37	chrX	12938148	12938148	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	agtgggagaaatagcctctgGggcatttttaacgatgctgc	13	7	1	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chrX:12938148G>T	uc004cve.2	+	2	1057	c.989G>T	c.(988-990)GGG>GTG	p.G330V	TLR8_uc004cvd.2_Missense_Mutation_p.G348V	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	330	LRR 8.|Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						ATAGCCTCTGGGGCATTTTTA	0.388													19	20	---	---	---	---	PASS	T	12938148	T	T	12938148	3	4	3	1	0	0	0	0	1	0	0	0	15954	1232	43	3	995	3	TLR8	23	12938148	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	34013	12938148	142332412	102	585										
BCOR	54880	broad.mit.edu	37	chrX	39932857	39932857	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	cagagctcctgctggttttgGtgccatctgcattggcattg	12	10	1	1			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chrX:39932857G>T	uc004den.3	-	4	2034	c.1742C>A	c.(1741-1743)ACC>AAC	p.T581N	BCOR_uc004dep.3_Missense_Mutation_p.T581N|BCOR_uc004deo.3_Missense_Mutation_p.T581N|BCOR_uc004dem.3_Missense_Mutation_p.T581N|BCOR_uc004deq.3_Missense_Mutation_p.T581N	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	581					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						GCTGGTTTTGGTGCCATCTGC	0.617													7	58	---	---	---	---	PASS	T	39932857	T	T	39932857	3	4	3	1	0	0	0	0	1	0	0	0	1386	1261	44	3	3573	3	BCOR	23	39932857	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	26994709	39932857	115337703	103	586										
FAM120C	54954	broad.mit.edu	37	chrX	54099692	54099692	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	accgaccttgatgaagctccAgggatttagaaactccatct	8	11	1	3			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chrX:54099692A>T	uc004dsz.3	-	16	3148	c.3065T>A	c.(3064-3066)CTG>CAG	p.L1022Q	FAM120C_uc011moh.1_Missense_Mutation_p.W885R	NM_017848	NP_060318	Q9NX05	F120C_HUMAN	hypothetical protein LOC54954	1022										ovary(1)|central_nervous_system(1)	2						ATGAAGCTCCAGGGATTTAGA	0.463													8	25	---	---	---	---	PASS	T	54099692	T	T	54099692	3	4	3	1	0	0	0	0	1	0	0	0	5418	188	7	5	229	5	FAM120C	23	54099692	Missense_Mutation	SNP	A	TCGA-18-3408-01A-01D-0983-08	14166835	54099692	101170868	104	587										
CDX4	1046	broad.mit.edu	37	chrX	72673420	72673420	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	caaagattggagctggaaaaGgaattccattgcaatagata	10	5	0	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chrX:72673420G>T	uc011mqk.1	+	2	570	c.570G>T	c.(568-570)AAG>AAT	p.K190N		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	190	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(35;0.156)					AGCTGGAAAAGGAATTCCATT	0.403													3	9	---	---	---	---	PASS	T	72673420	T	T	72673420	3	4	3	1	0	0	0	0	1	0	0	0	3184	991	35	3	576	3	CDX4	23	72673420	Missense_Mutation	SNP	G	TCGA-18-3408-01A-01D-0983-08	18573728	72673420	82597140	105	588										
KIAA2022	340533	broad.mit.edu	37	chrX	73963358	73963358	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tcttagactctcgcttggggCaggtagtaaagacgctggga	14	8	2	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chrX:73963358C>A	uc004eby.2	-	3	1651	c.1034G>T	c.(1033-1035)TGC>TTC	p.C345F		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	345					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						TCGCTTGGGGCAGGTAGTAAA	0.463													19	20	---	---	---	---	PASS	A	73963358	A	A	73963358	3	1	3	1	0	0	0	0	1	0	0	0	8269	710	25	3	3524	3	KIAA2022	23	73963358	Missense_Mutation	SNP	C	TCGA-18-3408-01A-01D-0983-08	1289938	73963358	81307202	106	589										
ARL13A	392509	broad.mit.edu	37	chrX	100242388	100242388	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	ttttgtcacaggagccatgtTcagccatcagaaaccttgaa	8	10	3	2			TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chrX:100242388T>A	uc004ego.2	+	6	612	c.496T>A	c.(496-498)TCA>ACA	p.S166T	ARL13A_uc011mrf.1_Missense_Mutation_p.S166T|ARL13A_uc010nng.2_Missense_Mutation_p.S166T	NM_001012990	NP_001013008	Q5H913	AR13A_HUMAN	ADP-ribosylation factor-like 13 isoform a	166							GTP binding			ovary(1)	1						GGAGCCATGTTCAGCCATCAG	0.512													5	23	---	---	---	---	PASS	A	100242388	A	A	100242388	3	1	3	1	0	0	0	0	1	0	0	0	928	1783	62	5	514	5	ARL13A	23	100242388	Missense_Mutation	SNP	T	TCGA-18-3408-01A-01D-0983-08	26279030	100242388	55028172	107	590										
IL1RAPL2	26280	broad.mit.edu	37	chrX	104478546	104478547	+	Frame_Shift_Ins	INS	-	A	A													0.0280373831775701	3	0.929787189874148	0.57433532284319	0	0.727491408934708	0.181818181818182	0.527570789865872	0	tcaatgtccttgactgttgcINSagagaatgaatcaggcctgt							TCGA-18-3408-01A-01D-0983-08	TCGA-18-3408-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	cab7a425-e081-4bae-b666-6cdf8ba4dd70	f60256d4-9359-49fc-86ff-dada8524ab7f	g.chrX:104478546_104478547insA	uc004elz.1	+	4	1157_1158	c.401_402insA	c.(400-402)GCAfs	p.A134fs		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	134	Extracellular (Potential).				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						TTGACTGTTGCAGAGAATGAAT	0.396													47	87	---	---	---	---		A	104478547	A	A	104478546	7	5	3	1	0	1	1	0	0	0	0	0	7662	710	25	0	411	0	IL1RAPL2	23	104478546	Frame_Shift_Ins	INS	-	TCGA-18-3408-01A-01D-0983-08	4236158	104478546	50792014	108	591										
SAMD11	148398	broad.mit.edu	37	chr1	879424	879424	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcccccacgacggccacgtCcccctatggagggggccacg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:879424C>T	uc001abw.1	+	14	2017	c.1937C>T	c.(1936-1938)TCC>TTC	p.S646F	SAMD11_uc001abx.1_Missense_Mutation_p.S509F	NM_152486	NP_689699	Q96NU1	SAM11_HUMAN	sterile alpha motif domain containing 11	646						nucleus					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.74e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.93e-23)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000472)|Kidney(185;0.0023)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.199)		ACGGCCACGTCCCCCTATGGA	0.677													17	28	---	---	---	---	PASS	T	879424	T	T	879424	3	4	4	1	0	0	0	0	1	0	0	0	13816	855	30	2	1987	2	SAMD11	1	879424	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08		879424	248371197	1	592	5	2								
SAMD11	148398	broad.mit.edu	37	chr1	879425	879425	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcccccacgacggccacgtcCccctatggagggggccacgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:879425C>T	uc001abw.1	+	14	2018	c.1938C>T	c.(1936-1938)TCC>TCT	p.S646S	SAMD11_uc001abx.1_Silent_p.S509S	NM_152486	NP_689699	Q96NU1	SAM11_HUMAN	sterile alpha motif domain containing 11	646						nucleus					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.74e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.93e-23)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000472)|Kidney(185;0.0023)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.199)		CGGCCACGTCCCCCTATGGAG	0.682													17	28	---	---	---	---	PASS	T	879425	T	T	879425	2	4	4	1	0	0	0	0	0	0	0	1	13816	610	22	3		3	SAMD11	1	879425	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	879425	248371196	2	593	5	2								
NOC2L	26155	broad.mit.edu	37	chr1	891504	891504	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgtgacctggaatttgttgGcctcagcactttcctggtcc	10	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:891504G>A	uc001abz.3	-	5	637	c.578C>T	c.(577-579)GCC>GTC	p.A193V	NOC2L_uc001aby.3_5'UTR|NOC2L_uc009vjq.2_Missense_Mutation_p.A193V	NM_015658	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog	193						nucleolus	protein binding			ovary(1)|skin(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.86e-38)|OV - Ovarian serous cystadenocarcinoma(86;6.08e-23)|Colorectal(212;0.000161)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(365;0.000475)|Kidney(185;0.00231)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		GAATTTGTTGGCCTCAGCACT	0.592													20	30	---	---	---	---	PASS	A	891504	A	A	891504	3	1	4	1	0	0	0	0	1	0	0	0	10513	1203	42	3	1731	3	NOC2L	1	891504	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	12079	891504	248359117	3	594										
PRKCZ	5590	broad.mit.edu	37	chr1	2105397	2105397	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagatgatggccgggcgctcCccgttcgacatcatcaccga	12	14	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:2105397C>T	uc001aiq.2	+	14	1508	c.1347C>T	c.(1345-1347)TCC>TCT	p.S449S	PRKCZ_uc001air.2_Silent_p.S266S|PRKCZ_uc010nyw.1_Silent_p.S345S|PRKCZ_uc001ais.2_Silent_p.S266S|PRKCZ_uc009vla.2_Silent_p.S273S|PRKCZ_uc010nyx.1_RNA|PRKCZ_uc001ait.2_Silent_p.S297S	NM_002744	NP_002735	Q05513	KPCZ_HUMAN	protein kinase C, zeta isoform 1	449	Protein kinase.				anti-apoptosis|intracellular signal transduction|negative regulation of insulin receptor signaling pathway|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein complex assembly|peptidyl-serine phosphorylation|platelet activation	endosome	ATP binding|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(2)	6	all_cancers(77;0.000177)|all_epithelial(69;6.41e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;1.14e-19)|all_lung(118;1.22e-08)|Lung NSC(185;1.24e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;2.96e-37)|OV - Ovarian serous cystadenocarcinoma(86;3.3e-23)|GBM - Glioblastoma multiforme(42;2.85e-08)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.00294)|BRCA - Breast invasive adenocarcinoma(365;0.00493)|STAD - Stomach adenocarcinoma(132;0.00669)|KIRC - Kidney renal clear cell carcinoma(229;0.0411)|Lung(427;0.213)		CCGGGCGCTCCCCGTTCGACA	0.622											OREG0013007	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	20	---	---	---	---	PASS	T	2105397	T	T	2105397	2	4	4	1	0	0	0	0	0	0	0	1	12517	610	22	3		3	PRKCZ	1	2105397	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1213893	2105397	247145224	4	595										
MMEL1	79258	broad.mit.edu	37	chr1	2527475	2527475	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcgccttcttcttggactcCtcgtccatccagcccagctc	7	18	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:2527475C>T	uc001ajy.2	-	15	1687	c.1473G>A	c.(1471-1473)GAG>GAA	p.E491E	MMEL1_uc009vlg.1_RNA	NM_033467	NP_258428	Q495T6	MMEL1_HUMAN	membrane metallo-endopeptidase-like 1	491	Lumenal (Potential).				proteolysis	extracellular region|integral to membrane|intracellular membrane-bounded organelle	metal ion binding|metalloendopeptidase activity				0	all_cancers(77;0.000233)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.03e-20)|all_lung(118;5.15e-09)|Lung NSC(185;9.02e-07)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;8.52e-23)|GBM - Glioblastoma multiforme(42;1.49e-08)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;0.000213)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00219)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.131)		TCTTGGACTCCTCGTCCATCC	0.627													37	53	---	---	---	---	PASS	T	2527475	T	T	2527475	2	4	4	1	0	0	0	0	0	0	0	1	9646	680	24	3		3	MMEL1	1	2527475	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	422078	2527475	246723146	5	596										
ACTRT2	140625	broad.mit.edu	37	chr1	2938400	2938400	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttccaggctccctcagcagaGgccaaccagaagaagtactt	9	13	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:2938400G>A	uc001ajz.2	+	1	355	c.150G>A	c.(148-150)GAG>GAA	p.E50E		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	50						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		CCTCAGCAGAGGCCAACCAGA	0.627													15	15	---	---	---	---	PASS	A	2938400	A	A	2938400	2	1	4	1	0	0	0	0	0	0	0	1	219	991	35	3		3	ACTRT2	1	2938400	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	410925	2938400	246312221	6	597										
CCDC27	148870	broad.mit.edu	37	chr1	3679830	3679830	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgcatgaggagggaagcgaGgaggaggaagaggaggaagg	23	2	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:3679830G>A	uc001akv.2	+	7	1194	c.1113G>A	c.(1111-1113)GAG>GAA	p.E371E		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	371	Glu-rich.									skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		agggaagcgaggaggaggaag	0.398													4	12	---	---	---	---	PASS	A	3679830	A	A	3679830	2	1	4	1	0	0	0	0	0	0	0	1	2801	991	35	3		3	CCDC27	1	3679830	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	741430	3679830	245570791	7	598										
KIAA0562	9731	broad.mit.edu	37	chr1	3753130	3753130	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcggttaagggctctggctCccctaacatgcctcccctcc	8	18	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:3753130C>T	uc001aky.2	-	10	1605	c.1246G>A	c.(1246-1248)GAG>AAG	p.E416K	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Missense_Mutation_p.E416K	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	416						centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		GGCTCTGGCTCCCCTAACATG	0.493													8	57	---	---	---	---	PASS	T	3753130	T	T	3753130	3	4	4	1	0	0	0	0	1	0	0	0	8184	864	30	2	1583	2	KIAA0562	1	3753130	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	73300	3753130	245497491	8	599										
CHD5	26038	broad.mit.edu	37	chr1	6202664	6202664	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttgtcgaacttgaccgtgGgctgcaggggaggcagcggt	18	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:6202664G>A	uc001amb.1	-	14	2145	c.2045C>T	c.(2044-2046)CCC>CTC	p.P682L	CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	682					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		CTTGACCGTGGGCTGCAGGGG	0.512													20	18	---	---	---	---	PASS	A	6202664	A	A	6202664	3	1	4	1	0	0	0	0	1	0	0	0	3328	1246	43	3	3931	3	CHD5	1	6202664	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2449534	6202664	243047957	9	600										
CHD5	26038	broad.mit.edu	37	chr1	6212538	6212538	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgagcccggccgtctttttCcctttgccctttttcttccc	6	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:6212538C>T	uc001amb.1	-	6	904	c.804G>A	c.(802-804)GGG>GGA	p.G268G		NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	268	Lys-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		CCGTCTTTTTCCCTTTGCCCT	0.443													13	21	---	---	---	---	PASS	T	6212538	T	T	6212538	2	4	4	1	0	0	0	0	0	0	0	1	3328	842	30	2		2	CHD5	1	6212538	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	9874	6212538	243038083	10	601										
CAMTA1	23261	broad.mit.edu	37	chr1	7700505	7700505	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctgaacgtgccggccatcGaggactgcggcaagccttgc	13	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:7700505G>A	uc001aoi.2	+	7	763	c.556G>A	c.(556-558)GAG>AAG	p.E186K		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	186	CG-1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		GCCGGCCATCGAGGACTGCGG	0.612													26	29	---	---	---	---	PASS	A	7700505	A	A	7700505	3	1	4	1	0	0	0	0	1	0	0	0	2613	1059	37	2	582	2	CAMTA1	1	7700505	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1487967	7700505	241550116	11	602										
CAMTA1	23261	broad.mit.edu	37	chr1	7724082	7724082	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgactgtttccttaataaccCaaagcagggccagacgtacg	9	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:7724082C>T	uc001aoi.2	+	9	1682	c.1475C>T	c.(1474-1476)CCA>CTA	p.P492L		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	492					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		CTTAATAACCCAAAGCAGGGC	0.592													14	36	---	---	---	---	PASS	T	7724082	T	T	7724082	3	4	4	1	0	0	0	0	1	0	0	0	2613	594	21	3	1509	3	CAMTA1	1	7724082	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	23577	7724082	241526539	12	603										
RERE	473	broad.mit.edu	37	chr1	8418356	8418356	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacatctgcagtcgggccagGggatcgctggtcagcgatgc	15	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:8418356G>A	uc001ape.2	-	21	5049	c.4239C>T	c.(4237-4239)CCC>CCT	p.P1413P	RERE_uc001apf.2_Silent_p.P1413P|RERE_uc001apd.2_Silent_p.P859P	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1413					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		GTCGGGCCAGGGGATCGCTGG	0.453													6	7	---	---	---	---	PASS	A	8418356	A	A	8418356	2	1	4	1	0	0	0	0	0	0	0	1	13231	1219	43	3		3	RERE	1	8418356	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	694274	8418356	240832265	13	604										
SLC25A33	84275	broad.mit.edu	37	chr1	9642481	9642481	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggactgtttgcccagcttatCcggcagatcccaaatactgc	9	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:9642481C>T	uc001apw.2	+	7	1111	c.888C>T	c.(886-888)ATC>ATT	p.I296I	SLC25A33_uc001apx.2_Silent_p.I229I	NM_032315	NP_115691	Q9BSK2	S2533_HUMAN	mitochondrial carrier protein MGC4399	296	Solcar 3.				transport	integral to membrane|mitochondrial inner membrane					0	all_lung(157;0.246)	all_epithelial(116;1.16e-18)|all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Breast(348;0.00191)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.01e-08)|COAD - Colon adenocarcinoma(227;1.44e-05)|Kidney(185;0.000262)|KIRC - Kidney renal clear cell carcinoma(229;0.000957)|BRCA - Breast invasive adenocarcinoma(304;0.0019)|STAD - Stomach adenocarcinoma(132;0.00355)|READ - Rectum adenocarcinoma(331;0.0419)		CCCAGCTTATCCGGCAGATCC	0.478													11	17	---	---	---	---	PASS	T	9642481	T	T	9642481	2	4	4	1	0	0	0	0	0	0	0	1	14497	845	30	2		2	SLC25A33	1	9642481	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1224125	9642481	239608140	14	605										
CLSTN1	22883	broad.mit.edu	37	chr1	9804666	9804666	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagttgagggatccactcgGggatggcagcagctcggcag	16	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:9804666G>A	uc001aqh.2	-	8	1780	c.1021C>T	c.(1021-1023)CCG>TCG	p.P341S	CLSTN1_uc001aqi.2_Missense_Mutation_p.P331S|CLSTN1_uc010oag.1_Missense_Mutation_p.P341S	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	341	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		GATCCACTCGGGGATGGCAGC	0.652													6	6	---	---	---	---	PASS	A	9804666	A	A	9804666	3	1	4	1	0	0	0	0	1	0	0	0	3561	1232	43	3	1972	3	CLSTN1	1	9804666	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	162185	9804666	239445955	15	606										
KIF1B	23095	broad.mit.edu	37	chr1	10384043	10384043	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcatgaggacaggcctttCcctcgcacagtggtagcagt	11	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:10384043C>T	uc001aqx.3	+	25	2662	c.2460C>T	c.(2458-2460)TTC>TTT	p.F820F	KIF1B_uc001aqw.3_Silent_p.F774F|KIF1B_uc001aqy.2_Silent_p.F794F|KIF1B_uc001aqz.2_Silent_p.F820F|KIF1B_uc001ara.2_Silent_p.F780F|KIF1B_uc001arb.2_Silent_p.F806F	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	820					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		ACAGGCCTTTCCCTCGCACAG	0.443													33	41	---	---	---	---	PASS	T	10384043	T	T	10384043	2	4	4	1	0	0	0	0	0	0	0	1	8284	854	30	2		2	KIF1B	1	10384043	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	579377	10384043	238866578	16	607										
PTCHD2	57540	broad.mit.edu	37	chr1	11561098	11561098	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggatgtgtggctagaggagGagcaggaggaggaagaagca	20	3	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:11561098G>A	uc001ash.3	+	2	187	c.49G>A	c.(49-51)GAG>AAG	p.E17K	PTCHD2_uc001asi.1_Missense_Mutation_p.E17K	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	17	Cytoplasmic (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GCTAGAGGAGGAGCAGGAGGA	0.617													9	19	---	---	---	---	PASS	A	11561098	A	A	11561098	3	1	4	1	0	0	0	0	1	0	0	0	12733	1175	41	2	51	2	PTCHD2	1	11561098	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1177055	11561098	237689523	17	608										
PTCHD2	57540	broad.mit.edu	37	chr1	11584057	11584057	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atccggacgtccctggagaaGaagaggcgaggctcaggggt	17	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:11584057G>A	uc001ash.3	+	11	2559	c.2421G>A	c.(2419-2421)AAG>AAA	p.K807K	PTCHD2_uc001asi.1_Silent_p.K807K	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	807	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CCCTGGAGAAGAAGAGGCGAG	0.657													6	16	---	---	---	---	PASS	A	11584057	A	A	11584057	2	1	4	1	0	0	0	0	0	0	0	1	12733	933	33	2		2	PTCHD2	1	11584057	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	22959	11584057	237666564	18	609										
PTCHD2	57540	broad.mit.edu	37	chr1	11595632	11595632	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcctcgttggctcctccgtGgattactgcgtccacctggt	10	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:11595632G>A	uc001ash.3	+	20	3885	c.3747G>A	c.(3745-3747)GTG>GTA	p.V1249V		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1249	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GCTCCTCCGTGGATTACTGCG	0.652													4	36	---	---	---	---	PASS	A	11595632	A	A	11595632	2	1	4	1	0	0	0	0	0	0	0	1	12733	1335	47	3		3	PTCHD2	1	11595632	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	11575	11595632	237654989	19	610										
CLCN6	1185	broad.mit.edu	37	chr1	11887200	11887200	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctggagttgctgcagctttCggggcgccaatcgggggtac	17	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:11887200C>T	uc001ate.3	+	10	875	c.762C>T	c.(760-762)TTC>TTT	p.F254F	CLCN6_uc009vnf.1_Missense_Mutation_p.R258W|CLCN6_uc009vng.1_Missense_Mutation_p.R246W|CLCN6_uc009vnh.1_Silent_p.F254F|CLCN6_uc010oat.1_5'UTR|CLCN6_uc010oau.1_Silent_p.F232F	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	254					cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		CTGCAGCTTTCGGGGCGCCAA	0.557													5	12	---	---	---	---	PASS	T	11887200	T	T	11887200	2	4	4	1	0	0	0	0	0	0	0	1	3467	884	31	2		2	CLCN6	1	11887200	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	291568	11887200	237363421	20	611										
PLOD1	5351	broad.mit.edu	37	chr1	12024743	12024743	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttcaaacatctacttgatCaagggcagtgccctgcgggg	11	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:12024743C>T	uc001atm.2	+	13	1462	c.1371C>T	c.(1369-1371)ATC>ATT	p.I457I	PLOD1_uc010obb.1_Silent_p.I504I	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	457					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	TCTACTTGATCAAGGGCAGTG	0.582													30	33	---	---	---	---	PASS	T	12024743	T	T	12024743	2	4	4	1	0	0	0	0	0	0	0	1	12101	816	29	2		2	PLOD1	1	12024743	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	137543	12024743	237225878	21	612										
VPS13D	55187	broad.mit.edu	37	chr1	12403072	12403072	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttacaggtgaagagattcCctttgaatttgaagcaagag	10	7	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:12403072C>T	uc001atv.2	+	42	8990	c.8849C>T	c.(8848-8850)CCC>CTC	p.P2950L	VPS13D_uc001atw.2_Missense_Mutation_p.P2925L|VPS13D_uc001atx.2_Missense_Mutation_p.P2137L	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2949					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		GAAGAGATTCCCTTTGAATTT	0.408													12	26	---	---	---	---	PASS	T	12403072	T	T	12403072	3	4	4	1	0	0	0	0	1	0	0	0	17189	623	22	3	9011	3	VPS13D	1	12403072	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	378329	12403072	236847549	22	613										
LOC649330	649330	broad.mit.edu	37	chr1	12907391	12907391	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcatcatccagtgggtccCcctcctcagcagagtcttct	7	16	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:12907391C>T	uc009vno.2	-	1	847	c.752G>A	c.(751-753)GGG>GAG	p.G251E	HNRNPCL1_uc010obf.1_Missense_Mutation_p.G251E	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	251							nucleic acid binding|nucleotide binding				0						CAGTGGGTCCCCCTCCTCAGC	0.502													26	33	---	---	---	---	PASS	T	12907391	T	T	12907391	3	4	4	1	0	0	0	0	1	0	0	0	8885	623	22	3	133	3	LOC649330	1	12907391	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	504319	12907391	236343230	23	614										
KAZ	23254	broad.mit.edu	37	chr1	15428226	15428226	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agttccaccaggtcagcatcCtgctggggatcgagctgctg	13	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:15428226C>T	uc001avm.3	+	11	2016	c.1735C>T	c.(1735-1737)CTG>TTG	p.L579L	KAZ_uc001avs.3_Silent_p.L26L	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	579	SAM 2.				keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						GGTCAGCATCCTGCTGGGGAT	0.592													6	4	---	---	---	---	PASS	T	15428226	T	T	15428226	2	4	4	1	0	0	0	0	0	0	0	1	7988	680	24	3		3	KAZ	1	15428226	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2520835	15428226	233822395	24	615										
TMEM51	55092	broad.mit.edu	37	chr1	15546138	15546138	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagactttaggatcaacctcCcagacaaaaacgtccctcct	5	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:15546138C>T	uc001avw.3	+	4	1180	c.661C>T	c.(661-663)CCA>TCA	p.P221S	TMEM51_uc010obk.1_Missense_Mutation_p.P221S|TMEM51_uc001avz.2_3'UTR|TMEM51_uc001avy.2_Missense_Mutation_p.P221S|TMEM51_uc001avx.2_Missense_Mutation_p.P221S	NM_001136216	NP_001129688	Q9NW97	TMM51_HUMAN	transmembrane protein 51	221						integral to membrane					0		Renal(390;0.00145)|Breast(348;0.00186)|Colorectal(325;0.00215)|all_lung(284;0.00459)|Lung NSC(340;0.0104)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;2.07e-06)|COAD - Colon adenocarcinoma(227;7.14e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000175)|KIRC - Kidney renal clear cell carcinoma(229;0.00141)|STAD - Stomach adenocarcinoma(313;0.00644)|READ - Rectum adenocarcinoma(331;0.0751)		GATCAACCTCCCAGACAAAAA	0.522													30	39	---	---	---	---	PASS	T	15546138	T	T	15546138	3	4	4	1	0	0	0	0	1	0	0	0	16174	623	22	3	667	3	TMEM51	1	15546138	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	117912	15546138	233704483	25	616										
RSC1A1	6248	broad.mit.edu	37	chr1	15987280	15987280	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aattttgaatgattccatttCcactcaggatttacagcccc	5	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:15987280C>T	uc010obn.1	+	1	917	c.917C>T	c.(916-918)TCC>TTC	p.S306F		NM_006511	NP_006502	Q92681	RSCA1_HUMAN	regulatory solute carrier protein, family 1,	306					negative regulation of transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transport	cell junction|Golgi apparatus|nucleus	ion channel inhibitor activity			ovary(1)	1		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00276)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GATTCCATTTCCACTCAGGAT	0.383													17	23	---	---	---	---	PASS	T	15987280	T	T	15987280	3	4	4	1	0	0	0	0	1	0	0	0	13698	855	30	2	919	2	RSC1A1	1	15987280	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	441142	15987280	233263341	26	617										
TMEM82	388595	broad.mit.edu	37	chr1	16074105	16074105	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgccctcggcaccccagtCccagagttcggccccctctt	8	21	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:16074105C>T	uc001axc.2	+	6	1148	c.1010C>T	c.(1009-1011)TCC>TTC	p.S337F		NM_001013641	NP_001013663	A0PJX8	TMM82_HUMAN	transmembrane protein 82	337						integral to membrane				breast(1)|central_nervous_system(1)	2		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GCACCCCAGTCCCAGAGTTCG	0.602													9	31	---	---	---	---	PASS	T	16074105	T	T	16074105	3	4	4	1	0	0	0	0	1	0	0	0	16203	855	30	2	1032	2	TMEM82	1	16074105	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	86825	16074105	233176516	27	618										
SPEN	23013	broad.mit.edu	37	chr1	16261660	16261660	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagaccaaggtccttcagccGgccaacctggggtccacgct					rs150393064		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:16261660G>A	uc001axk.1	+	11	9129	c.8925G>A	c.(8923-8925)CCG>CCA	p.P2975P	SPEN_uc010obp.1_Silent_p.P2934P	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2975					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		TCCTTCAGCCGGCCAACCTGG	0.597													6	25	---	---	---	---	PASS	A	16261660	A	A	16261660	2	1	4	1	0	0	0	0	0	0	0	1	15037	1103	39	1		1	SPEN	1	16261660	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	187555	16261660	232988961	28	619	6	2								
SPEN	23013	broad.mit.edu	37	chr1	16261661	16261661	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaccaaggtccttcagccgGccaacctggggtccacgctc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:16261661G>A	uc001axk.1	+	11	9130	c.8926G>A	c.(8926-8928)GCC>ACC	p.A2976T	SPEN_uc010obp.1_Missense_Mutation_p.A2935T	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2976					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CCTTCAGCCGGCCAACCTGGG	0.602													6	23	---	---	---	---	PASS	A	16261661	A	A	16261661	3	1	4	1	0	0	0	0	1	0	0	0	15037	1203	42	3	8968	3	SPEN	1	16261661	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	16261661	232988960	29	620	6	2								
SPEN	23013	broad.mit.edu	37	chr1	16261936	16261936	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcatcccagtgccccagttCatctccagcatccacccaga	7	18	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:16261936C>T	uc001axk.1	+	11	9405	c.9201C>T	c.(9199-9201)TTC>TTT	p.F3067F	SPEN_uc010obp.1_Silent_p.F3026F	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	3067					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		TGCCCCAGTTCATCTCCAGCA	0.607													8	32	---	---	---	---	PASS	T	16261936	T	T	16261936	2	4	4	1	0	0	0	0	0	0	0	1	15037	825	29	2		2	SPEN	1	16261936	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	275	16261936	232988685	30	621										
EPHA2	1969	broad.mit.edu	37	chr1	16456870	16456870	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagatggcggaggggcagtcCatgggtgtggggagccggaa	21	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:16456870C>T	uc001aya.1	-	15	2657	c.2520G>A	c.(2518-2520)ATG>ATA	p.M840I		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	840	Mediates interaction with ARHGEF16 and ELMO2.|Protein kinase.|Cytoplasmic (Potential).				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	AGGGGCAGTCCATGGGTGTGG	0.622													7	7	---	---	---	---	PASS	T	16456870	T	T	16456870	3	4	4	1	0	0	0	0	1	0	0	0	5167	594	21	3	422	3	EPHA2	1	16456870	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	194934	16456870	232793751	31	622										
FBXO42	54455	broad.mit.edu	37	chr1	16577480	16577480	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggcgagcaatgggaggtaaGgaatgtccatctccttgggc	15	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:16577480G>A	uc001ayg.2	-	10	2055	c.1839C>T	c.(1837-1839)TCC>TCT	p.S613S	FBXO42_uc001aye.3_Silent_p.S331S|FBXO42_uc001ayf.2_Silent_p.S520S	NM_018994	NP_061867	Q6P3S6	FBX42_HUMAN	F-box protein 42	613										upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00475)|all_lung(284;0.00671)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0193)|Colorectal(212;3.16e-07)|COAD - Colon adenocarcinoma(227;1.46e-05)|BRCA - Breast invasive adenocarcinoma(304;4.37e-05)|Kidney(64;0.000246)|KIRC - Kidney renal clear cell carcinoma(64;0.00336)|STAD - Stomach adenocarcinoma(313;0.0139)|READ - Rectum adenocarcinoma(331;0.0693)		TGGGAGGTAAGGAATGTCCAT	0.577													8	55	---	---	---	---	PASS	A	16577480	A	A	16577480	2	1	4	1	0	0	0	0	0	0	0	1	5751	987	35	3		3	FBXO42	1	16577480	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	120610	16577480	232673141	32	623										
NBPF1	55672	broad.mit.edu	37	chr1	16895700	16895700	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcatcccaggactcctgggGgacttcctcctcttcagact	8	15	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:16895700G>A	uc009vos.1	-	23	3370	c.2482C>T	c.(2482-2484)CCC>TCC	p.P828S	NBPF1_uc009vot.1_Missense_Mutation_p.P286S|NBPF1_uc001ayz.1_Missense_Mutation_p.P286S|NBPF1_uc010oce.1_Missense_Mutation_p.P557S	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	828	NBPF 4.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		GACTCCTGGGGGACTTCCTCC	0.478													14	148	---	---	---	---	PASS	A	16895700	A	A	16895700	3	1	4	1	0	0	0	0	1	0	0	0	10192	1232	43	3	970	3	NBPF1	1	16895700	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	318220	16895700	232354921	33	624										
CROCC	9696	broad.mit.edu	37	chr1	17257888	17257888	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgaggtgaagatgttcactGagaggtgaggcctggccggg	19	7	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:17257888G>A	uc001azt.2	+	8	1021	c.952G>A	c.(952-954)GAG>AAG	p.E318K	CROCC_uc009voy.1_Intron|CROCC_uc009voz.1_Missense_Mutation_p.E81K	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	318	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		GATGTTCACTGAGAGGTGAGG	0.587													7	16	---	---	---	---	PASS	A	17257888	A	A	17257888	3	1	4	1	0	0	0	0	1	0	0	0	3893	1291	45	2	982	2	CROCC	1	17257888	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	362188	17257888	231992733	34	625										
IGSF21	84966	broad.mit.edu	37	chr1	18661419	18661419	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggatctcagacaatggtccCtatgagtgccatgtgggcat	12	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:18661419C>T	uc001bau.1	+	4	722	c.339C>T	c.(337-339)CCC>CCT	p.P113P		NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	113	Ig-like 1.					extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		ACAATGGTCCCTATGAGTGCC	0.617													7	24	---	---	---	---	PASS	T	18661419	T	T	18661419	2	4	4	1	0	0	0	0	0	0	0	1	7599	668	24	3		3	IGSF21	1	18661419	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1403531	18661419	230589202	35	626										
IGSF21	84966	broad.mit.edu	37	chr1	18691905	18691905	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggggtgggcgaccctacacGgagcgcccctcccgtggcct	15	17	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:18691905G>T	uc001bau.1	+	6	1112	c.729G>T	c.(727-729)ACG>ACT	p.T243T	IGSF21_uc001bav.1_Silent_p.T64T	NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	243						extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		GACCCTACACGGAGCGCCCCT	0.637													18	43	---	---	---	---	PASS	T	18691905	T	T	18691905	2	4	4	1	0	0	0	0	0	0	0	1	7599	1103	39	1		1	IGSF21	1	18691905	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	30486	18691905	230558716	36	627										
IGSF21	84966	broad.mit.edu	37	chr1	18692001	18692001	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcgtgagccgtgagtttccCcgctgggtccacagcgccga	14	14	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:18692001C>T	uc001bau.1	+	6	1208	c.825C>T	c.(823-825)CCC>CCT	p.P275P	IGSF21_uc001bav.1_Silent_p.P96P	NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	275						extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		GTGAGTTTCCCCGCTGGGTCC	0.657													16	54	---	---	---	---	PASS	T	18692001	T	T	18692001	2	4	4	1	0	0	0	0	0	0	0	1	7599	610	22	3		3	IGSF21	1	18692001	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	96	18692001	230558620	37	628										
TMCO4	255104	broad.mit.edu	37	chr1	20009544	20009544	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgctgtggtcagtccagccCcgtgctggggccctgggtct	15	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:20009544C>T	uc001bcn.2	-	16	2136	c.1894G>A	c.(1894-1896)GGG>AGG	p.G632R	TMCO4_uc001bcm.2_Missense_Mutation_p.G463R|TMCO4_uc001bco.1_Intron|TMCO4_uc001bcp.1_Intron	NM_181719	NP_859070	Q5TGY1	TMCO4_HUMAN	transmembrane and coiled-coil domains 4	632						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00708)|COAD - Colon adenocarcinoma(152;2.28e-05)|BRCA - Breast invasive adenocarcinoma(304;5.8e-05)|Kidney(64;0.000367)|GBM - Glioblastoma multiforme(114;0.000377)|KIRC - Kidney renal clear cell carcinoma(64;0.00459)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0862)|Lung(427;0.223)		CAGTCCAGCCCCGTGCTGGGG	0.642													20	26	---	---	---	---	PASS	T	20009544	T	T	20009544	3	4	4	1	0	0	0	0	1	0	0	0	15995	623	22	3	14	3	TMCO4	1	20009544	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1317543	20009544	229241077	38	629										
PINK1	65018	broad.mit.edu	37	chr1	20970992	20970992	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggctgactagaaaatccaaGagaggtcccaagcaactagc	10	10	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:20970992G>A	uc001bdm.2	+	4	880	c.786G>A	c.(784-786)AAG>AAA	p.K262K		NM_032409	NP_115785	Q9BXM7	PINK1_HUMAN	PTEN induced putative kinase 1 precursor	262	Protein kinase.|Cytoplasmic (Potential).				cell death|intracellular protein kinase cascade|mitochondrion degradation|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of release of cytochrome c from mitochondria|regulation of protein complex assembly|regulation of protein ubiquitination|response to stress	cytosol|integral to membrane|mitochondrial outer membrane	ATP binding|C3HC4-type RING finger domain binding|calcium-dependent protein kinase activity|magnesium ion binding|protein serine/threonine kinase activity|ubiquitin protein ligase binding			ovary(2)|central_nervous_system(1)	3		all_lung(284;2.72e-05)|Lung NSC(340;2.94e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.21e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000146)|Kidney(64;0.000182)|GBM - Glioblastoma multiforme(114;0.000497)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GAAAATCCAAGAGAGGTCCCA	0.552													22	69	---	---	---	---	PASS	A	20970992	A	A	20970992	2	1	4	1	0	0	0	0	0	0	0	1	11932	933	33	2		2	PINK1	1	20970992	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	961448	20970992	228279629	39	630										
KIF17	57576	broad.mit.edu	37	chr1	21014322	21014322	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtcagtcgtggagaagacCttgggtttcaccactgtctc	12	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:21014322C>T	uc001bdr.3	-	8	1615	c.1497G>A	c.(1495-1497)AAG>AAA	p.K499K	KIF17_uc001bdp.3_5'Flank|KIF17_uc001bdq.3_5'Flank|KIF17_uc009vpx.2_Intron|KIF17_uc001bds.3_Silent_p.K499K	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	499					microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		TGGAGAAGACCTTGGGTTTCA	0.557													30	47	---	---	---	---	PASS	T	21014322	T	T	21014322	2	4	4	1	0	0	0	0	0	0	0	1	8279	680	24	3		3	KIF17	1	21014322	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	43330	21014322	228236299	40	631										
ALPL	249	broad.mit.edu	37	chr1	21889736	21889736	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccggtgcaacaccacccaggGgaacgaggtcacctccatcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:21889736G>A	uc001bet.2	+	5	688	c.431G>A	c.(430-432)GGG>GAG	p.G144E	ALPL_uc010odn.1_Missense_Mutation_p.G92E|ALPL_uc010odo.1_Missense_Mutation_p.G89E|ALPL_uc010odp.1_Missense_Mutation_p.G67E|ALPL_uc001beu.3_Missense_Mutation_p.G144E	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase	144					response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	ACCACCCAGGGGAACGAGGTC	0.572													9	34	---	---	---	---	PASS	A	21889736	A	A	21889736	3	1	4	1	0	0	0	0	1	0	0	0	547	1232	43	3	445	3	ALPL	1	21889736	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	875414	21889736	227360885	41	632	7	2								
ALPL	249	broad.mit.edu	37	chr1	21889737	21889737	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggtgcaacaccacccagggGaacgaggtcacctccatcct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:21889737G>A	uc001bet.2	+	5	689	c.432G>A	c.(430-432)GGG>GGA	p.G144G	ALPL_uc010odn.1_Silent_p.G92G|ALPL_uc010odo.1_Silent_p.G89G|ALPL_uc010odp.1_Silent_p.G67G|ALPL_uc001beu.3_Silent_p.G144G	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase	144					response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	CCACCCAGGGGAACGAGGTCA	0.567													10	34	---	---	---	---	PASS	A	21889737	A	A	21889737	2	1	4	1	0	0	0	0	0	0	0	1	547	1161	41	2		2	ALPL	1	21889737	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	21889737	227360884	42	633	7	2								
HSPG2	3339	broad.mit.edu	37	chr1	22179315	22179315	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctggtgcagccgcagcagcGagccgtgggtctgtgtgcaa	16	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:22179315G>A	uc001bfj.2	-	52	6642	c.6602C>T	c.(6601-6603)TCG>TTG	p.S2201L	HSPG2_uc009vqd.2_Missense_Mutation_p.S2202L	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2201	Ig-like C2-type 7.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CCGCAGCAGCGAGCCGTGGGT	0.682													4	14	---	---	---	---	PASS	A	22179315	A	A	22179315	3	1	4	1	0	0	0	0	1	0	0	0	7430	1059	37	2	6757	2	HSPG2	1	22179315	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	289578	22179315	227071306	43	634										
EPHA8	2046	broad.mit.edu	37	chr1	22924242	22924242	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgcccgtggccatcaaggcCctcaaagccggctacacgga	12	15	2	0	rs145768889		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:22924242C>T	uc001bfx.1	+	11	2129	c.2004C>T	c.(2002-2004)GCC>GCT	p.A668A		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	668	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CCATCAAGGCCCTCAAAGCCG	0.662													17	23	---	---	---	---	PASS	T	22924242	T	T	22924242	2	4	4	1	0	0	0	0	0	0	0	1	5173	610	22	3		3	EPHA8	1	22924242	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	744927	22924242	226326379	44	635										
C1QA	712	broad.mit.edu	37	chr1	22965797	22965797	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgcttcagctgcagcaggGtgaccaggtctgggttgaaa	16	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:22965797G>A	uc001bfy.2	+	3	720	c.635G>A	c.(634-636)GGT>GAT	p.G212D	C1QA_uc001bfz.2_Missense_Mutation_p.G212D	NM_015991	NP_057075	P02745	C1QA_HUMAN	complement component 1, q subcomponent, A chain	212	C1q.				cell-cell signaling|complement activation, classical pathway|innate immune response	collagen|complement component C1 complex					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.41e-27)|Colorectal(126;1.52e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.63e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000541)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CTGCAGCAGGGTGACCAGGTC	0.597													8	37	---	---	---	---	PASS	A	22965797	A	A	22965797	3	1	4	1	0	0	0	0	1	0	0	0	1954	1261	44	3	641	3	C1QA	1	22965797	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	41555	22965797	226284824	45	636										
C1QB	713	broad.mit.edu	37	chr1	22987772	22987772	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtcctcaagctggagcagGgggagaacgtcttcctgcag	15	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:22987772G>A	uc001bgd.2	+	3	787	c.655G>A	c.(655-657)GGG>AGG	p.G219R		NM_000491	NP_000482	P02746	C1QB_HUMAN	complement component 1, q subcomponent, B chain	219	C1q.				complement activation, classical pathway|innate immune response	collagen|complement component C1 complex				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.06e-27)|Colorectal(126;1.58e-07)|GBM - Glioblastoma multiforme(114;6.72e-06)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000551)|KIRC - Kidney renal clear cell carcinoma(1967;0.0027)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GCTGGAGCAGGGGGAGAACGT	0.582													21	27	---	---	---	---	PASS	A	22987772	A	A	22987772	3	1	4	1	0	0	0	0	1	0	0	0	1955	1232	43	3	661	3	C1QB	1	22987772	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	21975	22987772	226262849	46	637										
EPHB2	2048	broad.mit.edu	37	chr1	23107970	23107970	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggctggatggtgcatcctCcatcaggggtgagtcagtgg	17	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:23107970C>T	uc009vqj.1	+	2	263	c.118C>T	c.(118-120)CCA>TCA	p.P40S	EPHB2_uc001bge.2_Missense_Mutation_p.P40S|EPHB2_uc001bgf.2_Missense_Mutation_p.P40S|EPHB2_uc010odu.1_Missense_Mutation_p.P40S	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	40	Extracellular (Potential).				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		GGTGCATCCTCCATCAGGGGT	0.597									Hereditary_Prostate_Cancer				16	15	---	---	---	---	PASS	T	23107970	T	T	23107970	3	4	4	1	0	0	0	0	1	0	0	0	5175	855	30	2	124	2	EPHB2	1	23107970	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	120198	23107970	226142651	47	638										
CNR2	1269	broad.mit.edu	37	chr1	24201817	24201817	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccttggaatccacaccatgGaaaacatggaaattcacaaa	7	10	1	0	rs144279977	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:24201817G>A	uc001bif.2	-	2	418	c.291C>T	c.(289-291)TTC>TTT	p.F97F		NM_001841	NP_001832	P34972	CNR2_HUMAN	cannabinoid receptor 2 (macrophage)	97	Extracellular (Potential).				behavior|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	dendrite|integral to plasma membrane|perikaryon	cannabinoid receptor activity			skin(2)|central_nervous_system(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.00957)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.32e-24)|Colorectal(126;6.09e-08)|COAD - Colon adenocarcinoma(152;3.33e-06)|GBM - Glioblastoma multiforme(114;2.9e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00359)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.146)	Nabilone(DB00486)	CCACACCATGGAAAACATGGA	0.547													24	39	---	---	---	---	PASS	A	24201817	A	A	24201817	2	1	4	1	0	0	0	0	0	0	0	1	3632	1165	41	2		2	CNR2	1	24201817	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1093847	24201817	225048804	48	639										
MYOM3	127294	broad.mit.edu	37	chr1	24401903	24401903	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaggagtcgggggcttcagGggcttcaaaagccaaataga	15	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:24401903G>A	uc001bin.3	-	22	2927	c.2764C>T	c.(2764-2766)CCT>TCT	p.P922S	MYOM3_uc001bim.3_Missense_Mutation_p.P579S|MYOM3_uc001bio.2_Missense_Mutation_p.P922S	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	922										skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		GGGGCTTCAGGGGCTTCAAAA	0.463													9	36	---	---	---	---	PASS	A	24401903	A	A	24401903	3	1	4	1	0	0	0	0	1	0	0	0	10093	1232	43	3	1613	3	MYOM3	1	24401903	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	200086	24401903	224848718	49	640										
IL22RA1	58985	broad.mit.edu	37	chr1	24448054	24448054	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgccctaagtaggtgatctcGgacaggctatgccgctgtgg	14	10	1	1	rs151086369		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:24448054G>A	uc001biq.1	-	7	1005	c.966C>T	c.(964-966)TCC>TCT	p.S322S	IL22RA1_uc010oeg.1_Silent_p.S254S|IL22RA1_uc009vrb.1_Silent_p.S186S|IL22RA1_uc010oeh.1_Silent_p.S322S	NM_021258	NP_067081	Q8N6P7	I22R1_HUMAN	interleukin 22 receptor, alpha 1 precursor	322	Cytoplasmic (Potential).					integral to membrane	interferon receptor activity			skin(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000992)|all_lung(284;0.00138)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;3.84e-24)|Colorectal(126;6.43e-08)|COAD - Colon adenocarcinoma(152;3.51e-06)|GBM - Glioblastoma multiforme(114;5.06e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00911)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.148)		AGGTGATCTCGGACAGGCTAT	0.637													8	21	---	---	---	---	PASS	A	24448054	A	A	24448054	2	1	4	1	0	0	0	0	0	0	0	1	7673	1103	39	1		1	IL22RA1	1	24448054	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	46151	24448054	224802567	50	641										
GRHL3	57822	broad.mit.edu	37	chr1	24663599	24663599	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccagatatcctgaaaacctCcccggaacccccatgtccag	6	18	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:24663599C>T	uc001biy.2	+	5	705	c.659C>T	c.(658-660)TCC>TTC	p.S220F	GRHL3_uc001bix.2_Missense_Mutation_p.S215F|GRHL3_uc001biz.2_Missense_Mutation_p.S122F	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	215					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		CTGAAAACCTCCCCGGAACCC	0.537													7	19	---	---	---	---	PASS	T	24663599	T	T	24663599	3	4	4	1	0	0	0	0	1	0	0	0	6765	855	30	2	698	2	GRHL3	1	24663599	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	215545	24663599	224587022	51	642										
RCAN3	11123	broad.mit.edu	37	chr1	24861622	24861622	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgcgggaacagagtcgacacCcagcgtggtggttcatgtct	14	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:24861622C>T	uc001bjj.2	+	5	894	c.581C>T	c.(580-582)CCC>CTC	p.P194L	RCAN3_uc009vrd.2_Missense_Mutation_p.P184L|RCAN3_uc009vre.2_Missense_Mutation_p.P136L|RCAN3_uc009vrf.2_Missense_Mutation_p.P137S|RCAN3_uc009vrg.2_Missense_Mutation_p.P79S	NM_013441	NP_038469	Q9UKA8	RCAN3_HUMAN	Down syndrome critical region gene 1-like 2	194					anatomical structure morphogenesis|calcium-mediated signaling		nucleotide binding|RNA binding|troponin I binding				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00473)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0427)|OV - Ovarian serous cystadenocarcinoma(117;1.13e-24)|Colorectal(126;6.09e-08)|COAD - Colon adenocarcinoma(152;3.33e-06)|GBM - Glioblastoma multiforme(114;0.000923)|BRCA - Breast invasive adenocarcinoma(304;0.0018)|KIRC - Kidney renal clear cell carcinoma(1967;0.00359)|STAD - Stomach adenocarcinoma(196;0.00493)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.14)		GAGTCGACACCCAGCGTGGTG	0.473													6	26	---	---	---	---	PASS	T	24861622	T	T	24861622	3	4	4	1	0	0	0	0	1	0	0	0	13170	623	22	3	595	3	RCAN3	1	24861622	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	198023	24861622	224388999	52	643										
SRRM1	10250	broad.mit.edu	37	chr1	24993329	24993329	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagacggaggagaagtccatCcccaccacccaccagaaggc	10	15	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:24993329C>T	uc001bjm.2	+	13	1876	c.1652C>T	c.(1651-1653)TCC>TTC	p.S551F	SRRM1_uc010oel.1_Missense_Mutation_p.S563F|SRRM1_uc009vrh.1_Missense_Mutation_p.S524F|SRRM1_uc009vri.1_Missense_Mutation_p.S480F|SRRM1_uc010oem.1_RNA	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	551	Pro-rich.|Necessary for speckles and matrix localization.|Arg-rich.|Ser-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		AGAAGTCCATCCCCACCACCC	0.413													5	17	---	---	---	---	PASS	T	24993329	T	T	24993329	3	4	4	1	0	0	0	0	1	0	0	0	15167	855	30	2	1702	2	SRRM1	1	24993329	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	131707	24993329	224257292	53	644										
C1orf63	57035	broad.mit.edu	37	chr1	25572955	25572955	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttttcacttaagcgaaagGgggttctgctccgcgacctc	10	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:25572955G>A	uc001bjw.2	-	2	752	c.500C>T	c.(499-501)CCC>CTC	p.P167L		NM_020317	NP_064713	Q9BUV0	CA063_HUMAN	hypothetical protein LOC57035	167	Arg-rich.									pancreas(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.9e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000333)|BRCA - Breast invasive adenocarcinoma(304;0.000443)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000932)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TAAGCGAAAGGGGGTTCTGCT	0.547													8	77	---	---	---	---	PASS	A	25572955	A	A	25572955	3	1	4	1	0	0	0	0	1	0	0	0	2053	1232	43	3	388	3	C1orf63	1	25572955	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	579626	25572955	223677666	54	645										
PAQR7	164091	broad.mit.edu	37	chr1	26189845	26189845	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggcatgccaggcgggctcGatagcatagtagaagtgtgc	16	8	0	1	rs146982273	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:26189845G>A	uc001bkx.2	-	2	1153	c.486C>T	c.(484-486)ATC>ATT	p.I162I		NM_178422	NP_848509	Q86WK9	MPRA_HUMAN	progestin and adipoQ receptor family member VII	162	Extracellular (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding			breast(3)	3		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.16e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000724)|BRCA - Breast invasive adenocarcinoma(304;0.000965)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0136)|READ - Rectum adenocarcinoma(331;0.0649)		AGGCGGGCTCGATAGCATAGT	0.547													12	65	---	---	---	---	PASS	A	26189845	A	A	26189845	2	1	4	1	0	0	0	0	0	0	0	1	11440	1048	37	2		2	PAQR7	1	26189845	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	616890	26189845	223060776	55	646										
SLC30A2	7780	broad.mit.edu	37	chr1	26369942	26369942	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcagcatggtccccccgtcAatttcatagtccccagagat	7	14	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:26369942A>G	uc001blh.1	-	3	589	c.372T>C	c.(370-372)ATT>ATC	p.I124I	SLC30A2_uc001blg.1_Silent_p.I173I	NM_032513	NP_115902	Q9BRI3	ZNT2_HUMAN	solute carrier family 30, member 2 isoform 2	124	Vacuolar (Potential).				positive regulation of sequestering of zinc ion|zinc ion transport	integral to membrane|late endosome|lysosomal membrane	cation transmembrane transporter activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;7.09e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000728)|BRCA - Breast invasive adenocarcinoma(304;0.000969)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00614)|READ - Rectum adenocarcinoma(331;0.0649)		TCCCCCCGTCAATTTCATAGT	0.612													5	22	---	---	---	---	PASS	G	26369942	G	G	26369942	2	3	4	1	0	0	0	0	0	0	0	1	14555	126	5	5		5	SLC30A2	1	26369942	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	180097	26369942	222880679	56	647										
CCDC21	64793	broad.mit.edu	37	chr1	26596025	26596025	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagagtttgctggaggagacCcaggcaatctgcagagagaa	15	7	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:26596025C>T	uc001bls.1	+	9	1700	c.1569C>T	c.(1567-1569)ACC>ACT	p.T523T	CCDC21_uc001blr.2_Silent_p.T523T|CCDC21_uc010ofa.1_Silent_p.T472T|CCDC21_uc001blt.1_5'UTR	NM_022778	NP_073615	Q6P2H3	CEP85_HUMAN	coiled-coil domain containing 21	523	Potential.					centrosome|nucleolus|spindle pole					0		all_cancers(24;7e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.6e-26)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;9.48e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00155)|GBM - Glioblastoma multiforme(114;0.00917)|READ - Rectum adenocarcinoma(331;0.0649)		TGGAGGAGACCCAGGCAATCT	0.488													7	30	---	---	---	---	PASS	T	26596025	T	T	26596025	2	4	4	1	0	0	0	0	0	0	0	1	2796	610	22	3		3	CCDC21	1	26596025	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	226083	26596025	222654596	57	648										
ARID1A	8289	broad.mit.edu	37	chr1	27056296	27056296	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagaccccgcagcggtaccCgatgaccatgcagggccggg	14	16	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:27056296C>A	uc001bmv.1	+	2	1665	c.1292C>A	c.(1291-1293)CCG>CAG	p.P431Q	ARID1A_uc001bmt.1_Missense_Mutation_p.P431Q|ARID1A_uc001bmu.1_Missense_Mutation_p.P431Q|ARID1A_uc001bmw.1_Missense_Mutation_p.P48Q	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	431					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)		CAGCGGTACCCGATGACCATG	0.602			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								3	14	---	---	---	---	PASS	A	27056296	A	A	27056296	3	1	4	1	0	0	0	0	1	0	0	0	913	652	23	1	1298	1	ARID1A	1	27056296	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	460271	27056296	222194325	58	649										
ARID1A	8289	broad.mit.edu	37	chr1	27100302	27100302	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctcctatagacatgattcCtatggcaatcagttctccac	6	13	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:27100302C>T	uc001bmv.1	+	17	4387	c.4014C>T	c.(4012-4014)TCC>TCT	p.S1338S	ARID1A_uc001bmt.1_Silent_p.S1337S|ARID1A_uc001bmu.1_Silent_p.S1338S|ARID1A_uc001bmw.1_Silent_p.S955S|ARID1A_uc001bmx.1_Silent_p.S184S|ARID1A_uc009vsm.1_5'UTR|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1338	Gln-rich.				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	p.S1338fs*106(2)		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)		GACATGATTCCTATGGCAATC	0.532			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								79	98	---	---	---	---	PASS	T	27100302	T	T	27100302	2	4	4	1	0	0	0	0	0	0	0	1	913	668	24	3		3	ARID1A	1	27100302	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	44006	27100302	222150319	59	650										
ARID1A	8289	broad.mit.edu	37	chr1	27106700	27106700	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaagcccaggaccccttttCcaccctgggccccaatgccg	9	18	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:27106700C>T	uc001bmv.1	+	20	6684	c.6311C>T	c.(6310-6312)TCC>TTC	p.S2104F	ARID1A_uc001bmu.1_Missense_Mutation_p.S1887F|ARID1A_uc001bmx.1_Missense_Mutation_p.S950F|ARID1A_uc009vsm.1_Missense_Mutation_p.S432F|ARID1A_uc009vsn.1_Missense_Mutation_p.S346F	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2104					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)		GACCCCTTTTCCACCCTGGGC	0.577			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								25	57	---	---	---	---	PASS	T	27106700	T	T	27106700	3	4	4	1	0	0	0	0	1	0	0	0	913	855	30	2	6389	2	ARID1A	1	27106700	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6398	27106700	222143921	60	651										
GPATCH3	63906	broad.mit.edu	37	chr1	27217599	27217599	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgggtggctggcggcggaGcagtgactccgtctggtctt	19	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:27217599G>A	uc001bne.2	-	7	1509	c.1480C>T	c.(1480-1482)CTC>TTC	p.L494F	GPN2_uc001bnd.1_5'Flank|GPATCH3_uc009vsp.1_Missense_Mutation_p.L305F	NM_022078	NP_071361	Q96I76	GPTC3_HUMAN	G patch domain containing 3	494						intracellular	nucleic acid binding				0		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.97e-51)|OV - Ovarian serous cystadenocarcinoma(117;9.55e-30)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|STAD - Stomach adenocarcinoma(196;0.000595)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|READ - Rectum adenocarcinoma(331;0.0419)		TGGCGGCGGAGCAGTGACTCC	0.572													8	10	---	---	---	---	PASS	A	27217599	A	A	27217599	3	1	4	1	0	0	0	0	1	0	0	0	6592	971	34	3	101	3	GPATCH3	1	27217599	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	110899	27217599	222033022	61	652										
C1orf172	126695	broad.mit.edu	37	chr1	27278630	27278630	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccggcaccactcccacaccCagggtcgccagagcaggcag	11	19	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:27278630C>T	uc001bni.1	-	2	331	c.242G>A	c.(241-243)TGG>TAG	p.W81*		NM_152365	NP_689578	Q8NAX2	CA172_HUMAN	hypothetical protein LOC126695	81	Cys-rich.									large_intestine(1)|ovary(1)	2		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.37e-51)|OV - Ovarian serous cystadenocarcinoma(117;2.22e-29)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000272)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)		CTCCCACACCCAGGGTCGCCA	0.672													6	8	---	---	---	---	PASS	T	27278630	T	T	27278630	4	4	4	1	0	0	0	0	0	1	0	0	2013	595	21	3	966	3	C1orf172	1	27278630	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	61031	27278630	221971991	62	653										
SLC9A1	6548	broad.mit.edu	37	chr1	27427075	27427075	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacagactcgggtgactgcGgggaagccgggtcgatggtg	18	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:27427075G>T	uc001bnm.2	-	12	2797	c.2171C>A	c.(2170-2172)CCG>CAG	p.P724Q	SLC9A1_uc001bnl.2_Missense_Mutation_p.P228Q|SLC9A1_uc010ofk.1_Missense_Mutation_p.P385Q	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	724	Cytoplasmic (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	GGGTGACTGCGGGGAAGCCGG	0.607													5	131	---	---	---	---	PASS	T	27427075	T	T	27427075	3	4	4	1	0	0	0	0	1	0	0	0	14709	1116	39	1	280	1	SLC9A1	1	27427075	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	148445	27427075	221823546	63	654										
PUM1	9698	broad.mit.edu	37	chr1	31437699	31437699	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcgatgtcctcttataaagGtcactgctgccagtcaggga	10	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:31437699G>A	uc001bsi.1	-	14	2258	c.2145C>T	c.(2143-2145)GAC>GAT	p.D715D	PUM1_uc001bsf.1_Silent_p.D381D|PUM1_uc001bsg.1_Intron|PUM1_uc001bsh.1_Silent_p.D715D|PUM1_uc001bsj.1_Silent_p.D689D|PUM1_uc010oga.1_Silent_p.D571D|PUM1_uc001bsk.1_Silent_p.D751D|PUM1_uc010ogb.1_Silent_p.D656D	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	715	Ser-rich.				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)		TCTTATAAAGGTCACTGCTGC	0.507													5	29	---	---	---	---	PASS	A	31437699	A	A	31437699	2	1	4	1	0	0	0	0	0	0	0	1	12825	1252	44	3		3	PUM1	1	31437699	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4010624	31437699	217812922	64	655										
TINAGL1	64129	broad.mit.edu	37	chr1	32051059	32051059	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggacaaggagatcatgaagGagctgatggagaatggccct	15	6	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:32051059G>A	uc001bta.2	+	9	1192	c.1066G>A	c.(1066-1068)GAG>AAG	p.E356K	TINAGL1_uc001bsz.2_Missense_Mutation_p.E211K|TINAGL1_uc010ogj.1_Missense_Mutation_p.E325K|TINAGL1_uc010ogk.1_Missense_Mutation_p.E356K	NM_022164	NP_071447	Q9GZM7	TINAL_HUMAN	tubulointerstitial nephritis antigen-like 1	356					endosome transport|immune response|proteolysis	extracellular region	cysteine-type endopeptidase activity|extracellular matrix structural constituent|polysaccharide binding|scavenger receptor activity				0		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		STAD - Stomach adenocarcinoma(196;0.0526)|READ - Rectum adenocarcinoma(331;0.145)		GATCATGAAGGAGCTGATGGA	0.577													37	66	---	---	---	---	PASS	A	32051059	A	A	32051059	3	1	4	1	0	0	0	0	1	0	0	0	15919	1175	41	2	1096	2	TINAGL1	1	32051059	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	613360	32051059	217199562	65	656										
KPNA6	23633	broad.mit.edu	37	chr1	32626221	32626221	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttatccccttttcaggcagtCtgggcactgggaaacatagc	10	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:32626221C>T	uc001bug.2	+	7	652	c.564C>T	c.(562-564)GTC>GTT	p.V188V	KPNA6_uc001buh.2_5'UTR|KPNA6_uc010ogx.1_Silent_p.V185V|KPNA6_uc010ogy.1_Silent_p.V193V|KPNA6_uc009vtz.2_Silent_p.V83V	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6	188	ARM 3.|NLS binding site (major) (By similarity).				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				TTCAGGCAGTCTGGGCACTGG	0.438													8	14	---	---	---	---	PASS	T	32626221	T	T	32626221	2	4	4	1	0	0	0	0	0	0	0	1	8434	900	32	2		2	KPNA6	1	32626221	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	575162	32626221	216624400	66	657										
DCDC2B	149069	broad.mit.edu	37	chr1	32680440	32680440	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taacccagccctctccaaagGaaccagaccgaattaagcca	6	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:32680440G>A	uc001bun.2	+	7	757	c.757G>A	c.(757-759)GAA>AAA	p.E253K	C1orf91_uc001buo.3_RNA|C1orf91_uc001bup.3_RNA	NM_001099434	NP_001092904	A2VCK2	DCD2B_HUMAN	doublecortin domain containing 2B	253					intracellular signal transduction						0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				CTCTCCAAAGGAACCAGACCG	0.557													24	42	---	---	---	---	PASS	A	32680440	A	A	32680440	3	1	4	1	0	0	0	0	1	0	0	0	4286	1175	41	2	783	2	DCDC2B	1	32680440	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	54219	32680440	216570181	67	658										
RBBP4	5928	broad.mit.edu	37	chr1	33134917	33134917	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaactgcctttctttcaatCcttatagtgagttcattctt	5	9	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:33134917C>T	uc001bvr.2	+	7	1006	c.847C>T	c.(847-849)CCT>TCT	p.P283S	RBBP4_uc001bvs.2_Missense_Mutation_p.P282S|RBBP4_uc010ohj.1_Missense_Mutation_p.P31S|RBBP4_uc010ohk.1_Missense_Mutation_p.P248S	NM_005610	NP_005601	Q09028	RBBP4_HUMAN	retinoblastoma binding protein 4 isoform a	283	WD 4.				cell cycle|CenH3-containing nucleosome assembly at centromere|DNA replication|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|ESC/E(Z) complex|NuRD complex|NURF complex|Sin3 complex	histone binding|histone deacetylase binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				TTCTTTCAATCCTTATAGTGA	0.368													16	39	---	---	---	---	PASS	T	33134917	T	T	33134917	3	4	4	1	0	0	0	0	1	0	0	0	13101	855	30	2	873	2	RBBP4	1	33134917	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	454477	33134917	216115704	68	659										
KIAA1522	57648	broad.mit.edu	37	chr1	33236902	33236902	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acgccagtcctcagtcccctCccactccccagacaaccttg	5	21	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:33236902C>T	uc001bvv.2	+	6	2081	c.1945C>T	c.(1945-1947)CCC>TCC	p.P649S	KIAA1522_uc001bvu.1_Missense_Mutation_p.P708S|KIAA1522_uc010ohm.1_Missense_Mutation_p.P660S|KIAA1522_uc010ohn.1_Intron	NM_020888	NP_065939	Q9P206	K1522_HUMAN	hypothetical protein LOC57648	649	Pro-rich.										0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				TCAGTCCCCTCCCACTCCCCA	0.622													16	21	---	---	---	---	PASS	T	33236902	T	T	33236902	3	4	4	1	0	0	0	0	1	0	0	0	8238	855	30	2	2144	2	KIAA1522	1	33236902	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	101985	33236902	216013719	69	660										
CSMD2	114784	broad.mit.edu	37	chr1	34066511	34066511	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgtggctgcatcacggtgGaacttgagcaggacctggtt	14	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:34066511G>T	uc001bxn.1	-	45	6845	c.6816C>A	c.(6814-6816)TTC>TTA	p.F2272L	CSMD2_uc001bxm.1_Missense_Mutation_p.F2270L|CSMD2_uc001bxo.1_Missense_Mutation_p.F1143L	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2272	Extracellular (Potential).|CUB 13.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CATCACGGTGGAACTTGAGCA	0.448													32	32	---	---	---	---	PASS	T	34066511	T	T	34066511	3	4	4	1	0	0	0	0	1	0	0	0	3945	1165	41	2	3747	2	CSMD2	1	34066511	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	829609	34066511	215184110	70	661										
HMGB4	127540	broad.mit.edu	37	chr1	34330140	34330140	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagctgaagagggagaacccGaactggtcggtggtgcaggt	17	8	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:34330140G>A	uc001bxp.2	+	2	2091	c.348G>A	c.(346-348)CCG>CCA	p.P116P	CSMD2_uc001bxm.1_Intron|CSMD2_uc001bxn.1_Intron|HMGB4_uc001bxq.2_Silent_p.P42P	NM_145205	NP_660206	Q8WW32	HMGB4_HUMAN	HMG2 like isoform 1	116						nucleus	DNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				GGGAGAACCCGAACTGGTCGG	0.567													16	41	---	---	---	---	PASS	A	34330140	A	A	34330140	2	1	4	1	0	0	0	0	0	0	0	1	7228	1045	37	2		2	HMGB4	1	34330140	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	263629	34330140	214920481	71	662										
GJB4	127534	broad.mit.edu	37	chr1	35227199	35227199	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acacgggcccaatgccccgtCcctgtacgacaacctgagca	9	17	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:35227199C>T	uc001bxv.1	+	2	714	c.344C>T	c.(343-345)TCC>TTC	p.S115F	GJB4_uc001bxw.3_Missense_Mutation_p.S115F	NM_153212	NP_694944	Q9NTQ9	CXB4_HUMAN	gap junction protein, beta 4	115	Cytoplasmic (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity			ovary(2)|central_nervous_system(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				AATGCCCCGTCCCTGTACGAC	0.617													8	22	---	---	---	---	PASS	T	35227199	T	T	35227199	3	4	4	1	0	0	0	0	1	0	0	0	6410	855	30	2	346	2	GJB4	1	35227199	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	897059	35227199	214023422	72	663										
EIF2C3	192669	broad.mit.edu	37	chr1	36439031	36439031	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagaaggatatgaccaccctCtgggagggggcagggaagtg	17	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:36439031C>T	uc001bzp.2	+	5	833	c.577C>T	c.(577-579)CTG>TTG	p.L193L	EIF2C3_uc001bzn.1_Silent_p.L193L|EIF2C3_uc001bzo.2_RNA|EIF2C3_uc001bzq.2_Intron	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	193					mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TGACCACCCTCTGGGAGGGGG	0.463													35	62	---	---	---	---	PASS	T	36439031	T	T	36439031	2	4	4	1	0	0	0	0	0	0	0	1	5007	912	32	2		2	EIF2C3	1	36439031	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1211832	36439031	212811590	73	664										
C1orf113	79729	broad.mit.edu	37	chr1	36785735	36785735	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtcttgaccccagagcttTctgaagaagaggtgtccacc	11	11	2	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:36785735T>G	uc010oia.1	+	14	1499	c.1471T>G	c.(1471-1473)TCT>GCT	p.S491A	C1orf113_uc010oib.1_Missense_Mutation_p.S380A|C1orf113_uc010oic.1_RNA|C1orf113_uc009vuz.1_Missense_Mutation_p.S137A	NM_001162530	NP_001156002	A4FU49	SH321_HUMAN	SH3 domain-containing protein C1orf113 isoform	375											0		Myeloproliferative disorder(586;0.0393)				CCCAGAGCTTTCTGAAGAAGA	0.512													9	48	---	---	---	---	PASS	G	36785735	G	G	36785735	3	3	4	1	0	0	0	0	1	0	0	0	1986	1783	62	5	1525	5	C1orf113	1	36785735	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	346704	36785735	212464886	74	665										
INPP5B	3633	broad.mit.edu	37	chr1	38409561	38409561	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctccggtgcgtatagaggaAgagactaagggcaggaagca	15	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:38409561A>T	uc001ccg.1	-	4	251	c.157T>A	c.(157-159)TTC>ATC	p.F53I	INPP5B_uc009vvk.1_5'UTR|INPP5B_uc001cch.2_5'UTR	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	53					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GTATAGAGGAAGAGACTAAGG	0.602													7	46	---	---	---	---	PASS	T	38409561	T	T	38409561	3	4	4	1	0	0	0	0	1	0	0	0	7755	72	3	5	2668	5	INPP5B	1	38409561	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	1623826	38409561	210841060	75	666										
RHBDL2	54933	broad.mit.edu	37	chr1	39361688	39361688	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcagagcatagactcctcCtgaagctcccacaagatatc	6	14	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:39361688C>T	uc001ccu.1	-	5	790	c.562G>A	c.(562-564)GGA>AGA	p.G188R	RHBDL2_uc010oin.1_Missense_Mutation_p.G188R|RHBDL2_uc010oio.1_Missense_Mutation_p.G268R	NM_017821	NP_060291	Q9NX52	RHBL2_HUMAN	rhomboid protease 2	188	Helical; (Potential).				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity				0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			TAGACTCCTCCTGAAGCTCCC	0.443													14	14	---	---	---	---	PASS	T	39361688	T	T	39361688	3	4	4	1	0	0	0	0	1	0	0	0	13322	690	24	3	365	3	RHBDL2	1	39361688	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	952127	39361688	209888933	76	667										
MACF1	23499	broad.mit.edu	37	chr1	39800237	39800237	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagacattaaagatggggtGagcgacaaagtgcttacatt	11	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:39800237G>A	uc010oiu.1	+	1	3428	c.3297G>A	c.(3295-3297)GTG>GTA	p.V1099V	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2664					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)			AAGATGGGGTGAGCGACAAAG	0.403													7	24	---	---	---	---	PASS	A	39800237	A	A	39800237	2	1	4	1	0	0	0	0	0	0	0	1	9144	1277	45	2		2	MACF1	1	39800237	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	438549	39800237	209450384	77	668										
MACF1	23499	broad.mit.edu	37	chr1	39903523	39903523	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcgtatgccaccactgatCcctgctgaagtagacaagat	9	12	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:39903523C>T	uc010oiu.1	+	36	13523	c.13392C>T	c.(13390-13392)ATC>ATT	p.I4464I	MACF1_uc010ois.1_Silent_p.I3962I	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)			CACCACTGATCCCTGCTGAAG	0.463													14	88	---	---	---	---	PASS	T	39903523	T	T	39903523	2	4	4	1	0	0	0	0	0	0	0	1	9144	845	30	2		2	MACF1	1	39903523	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	103286	39903523	209347098	78	669										
MACF1	23499	broad.mit.edu	37	chr1	39927685	39927685	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgcgtatcgaccaacaacCgatgcagataaaatcgaaga	9	9	0	2	rs116271948	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:39927685C>A	uc010oiu.1	+	58	17114	c.16983C>A	c.(16981-16983)ACC>ACA	p.T5661T	MACF1_uc010ois.1_Silent_p.T5159T|MACF1_uc001cde.1_Silent_p.T36T|MACF1_uc001cdf.1_Silent_p.T36T	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7117	C-terminal tail (By similarity).|GAR.				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)			GACCAACAACCGATGCAGATA	0.408													4	72	---	---	---	---	PASS	A	39927685	A	A	39927685	2	1	4	1	0	0	0	0	0	0	0	1	9144	639	23	1		1	MACF1	1	39927685	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	24162	39927685	209322936	79	670										
NT5C1A	84618	broad.mit.edu	37	chr1	40131857	40131857	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgctgctcctcgtccatgcGaaacaaggctcgggaggaca	12	13	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:40131857G>A	uc001cdq.1	-	2	187	c.187C>T	c.(187-189)CGC>TGC	p.R63C		NM_032526	NP_115915	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	63					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1	Lung NSC(20;3.81e-06)|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;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TCGTCCATGCGAAACAAGGCT	0.597													17	22	---	---	---	---	PASS	A	40131857	A	A	40131857	3	1	4	1	0	0	0	0	1	0	0	0	10685	1058	37	2	939	2	NT5C1A	1	40131857	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	204172	40131857	209118764	80	671										
ZNF643	65243	broad.mit.edu	37	chr1	40929061	40929061	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttctatccatcagagagtcCatactggagtaaaaccttat	6	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:40929061C>T	uc001cfn.1	+	5	1702	c.1405C>T	c.(1405-1407)CAT>TAT	p.H469Y	ZNF643_uc001cfl.1_Missense_Mutation_p.H367Y|ZNF643_uc001cfm.1_Missense_Mutation_p.H335Y	NM_023070	NP_075558	Q9UJL9	ZN643_HUMAN	zinc finger protein 643	469	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	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;5.25e-18)			TCAGAGAGTCCATACTGGAGT	0.393													15	22	---	---	---	---	PASS	T	40929061	T	T	40929061	3	4	4	1	0	0	0	0	1	0	0	0	18056	594	21	3	1423	3	ZNF643	1	40929061	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	797204	40929061	208321560	81	672										
KCNQ4	9132	broad.mit.edu	37	chr1	41285134	41285134	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcctacgccgactcgctctGgtgggggacggtgcgtgagg	17	12	1	1	rs28937589		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:41285134G>T	uc001cgh.1	+	5	906	c.824G>T	c.(823-825)TGG>TTG	p.W275L	KCNQ4_uc001cgi.1_Missense_Mutation_p.W275L	NM_004700	NP_004691	P56696	KCNQ4_HUMAN	potassium voltage-gated channel KQT-like protein	275					sensory perception of sound	basal plasma membrane|voltage-gated potassium channel complex				central_nervous_system(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.38e-17)			GACTCGCTCTGGTGGGGGACG	0.617													25	44	---	---	---	---	PASS	T	41285134	T	T	41285134	3	4	4	1	0	0	0	0	1	0	0	0	8085	1357	47	3	842	3	KCNQ4	1	41285134	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	356073	41285134	207965487	82	673										
CTPS	1503	broad.mit.edu	37	chr1	41466737	41466737	+	Frame_Shift_Del	DEL	C	-	-													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acttggagcccatcacctcgCaagaagagcccgtgcgctac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:41466737delC	uc001cgk.3	+	10	1550	c.1042delC	c.(1042-1044)CAAfs	p.Q348fs	CTPS_uc010ojo.1_Frame_Shift_Del_p.Q117fs|CTPS_uc001cgl.3_Frame_Shift_Del_p.Q348fs|CTPS_uc010ojq.1_Frame_Shift_Del_p.Q192fs|CTPS_uc009vwe.2_Frame_Shift_Del_p.Q68fs	NM_001905	NP_001896	P17812	PYRG1_HUMAN	CTP synthase	348	Glutamine amidotransferase type-1.				CTP biosynthetic process|glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|response to drug	cytosol	ATP binding|CTP synthase activity|protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)			L-Glutamine(DB00130)	CATCACCTCGCAAGAAGAGCC	0.512													17	12	---	---	---	---		-	41466737	-	-	41466737	7	5	4	1	0	1	0	1	0	0	0	0	4022	711	25	0	1076	0	CTPS	1	41466737	Frame_Shift_Del	DEL	C	TCGA-18-3409-01A-01D-0983-08	181603	41466737	207783884	83	674										
HIVEP3	59269	broad.mit.edu	37	chr1	42047565	42047565	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtgggtgcccaggggtttGgggcgcatgtcagatgaggg	20	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:42047565G>C	uc001cgz.3	-	4	4117	c.2904C>G	c.(2902-2904)CCC>CCG	p.P968P	HIVEP3_uc001cha.3_Silent_p.P968P|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	968	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CCAGGGGTTTGGGGCGCATGT	0.602													6	42	---	---	---	---	PASS	C	42047565	C	C	42047565	2	2	4	1	0	0	0	0	0	0	0	1	7188	1335	47	4		4	HIVEP3	1	42047565	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	580828	42047565	207203056	84	675										
HIVEP3	59269	broad.mit.edu	37	chr1	42047975	42047975	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgtccgtgtggggcaggtgGgggtgatgggaactgggcca	22	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:42047975G>A	uc001cgz.3	-	4	3707	c.2494C>T	c.(2494-2496)CCA>TCA	p.P832S	HIVEP3_uc001cha.3_Missense_Mutation_p.P832S|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	832	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				GGGGCAGGTGGGGGTGATGGG	0.572													10	51	---	---	---	---	PASS	A	42047975	A	A	42047975	3	1	4	1	0	0	0	0	1	0	0	0	7188	1232	43	3	4750	3	HIVEP3	1	42047975	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	410	42047975	207202646	85	676										
ERMAP	114625	broad.mit.edu	37	chr1	43300733	43300733	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctgtggggagtctctcccCctcagcagtggctctggctg	13	13	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:43300733C>T	uc001cic.1	+	5	728	c.458C>T	c.(457-459)CCC>CTC	p.P153L	ERMAP_uc010ojw.1_Missense_Mutation_p.P214L|ERMAP_uc001cid.1_RNA|ERMAP_uc001cie.1_Missense_Mutation_p.P153L|ERMAP_uc001cif.1_Missense_Mutation_p.P63L	NM_001017922	NP_001017922	Q96PL5	ERMAP_HUMAN	erythroblast membrane-associated protein	153	Extracellular (Potential).		Missing (in Sc-3 allele).			integral to membrane|plasma membrane				ovary(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				AGTCTCTCCCCCTCAGCAGTG	0.532													24	44	---	---	---	---	PASS	T	43300733	T	T	43300733	3	4	4	1	0	0	0	0	1	0	0	0	5234	623	22	3	468	3	ERMAP	1	43300733	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1252758	43300733	205949888	86	677										
TIE1	7075	broad.mit.edu	37	chr1	43778105	43778105	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgctgcgcctgtgggacgGgacacgggggcaggagcggc	20	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:43778105G>A	uc001ciu.2	+	12	1839	c.1760G>A	c.(1759-1761)GGG>GAG	p.G587E	TIE1_uc010okd.1_Missense_Mutation_p.G587E|TIE1_uc010oke.1_Missense_Mutation_p.G542E|TIE1_uc009vwq.2_Missense_Mutation_p.G543E|TIE1_uc010okf.1_Missense_Mutation_p.G232E|TIE1_uc010okg.1_Missense_Mutation_p.G232E	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	587	Fibronectin type-III 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CTGTGGGACGGGACACGGGGG	0.692													7	10	---	---	---	---	PASS	A	43778105	A	A	43778105	3	1	4	1	0	0	0	0	1	0	0	0	15890	1232	43	3	1806	3	TIE1	1	43778105	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	477372	43778105	205472516	87	678										
KIAA0467	23334	broad.mit.edu	37	chr1	43898414	43898414	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccagggagtcagcctgggcCcagccggggattaagtctca	14	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:43898414C>T	uc001cjk.1	+	24	3311	c.2849C>T	c.(2848-2850)CCC>CTC	p.P950L		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1849						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CAGCCTGGGCCCAGCCGGGGA	0.572													4	13	---	---	---	---	PASS	T	43898414	T	T	43898414	3	4	4	1	0	0	0	0	1	0	0	0	8178	623	22	3	2935	3	KIAA0467	1	43898414	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	120309	43898414	205352207	88	679										
IPO13	9670	broad.mit.edu	37	chr1	44422081	44422081	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagaatggggacatggagaCctcccatggcatctgtcgca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:44422081C>T	uc001ckx.2	+	3	1706	c.911C>T	c.(910-912)ACC>ATC	p.T304I		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	304	HEAT 4.				protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				GACATGGAGACCTCCCATGGC	0.587													9	15	---	---	---	---	PASS	T	44422081	T	T	44422081	3	4	4	1	0	0	0	0	1	0	0	0	7794	507	18	3	921	3	IPO13	1	44422081	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	523667	44422081	204828540	89	680	8	2								
IPO13	9670	broad.mit.edu	37	chr1	44422082	44422082	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagaatggggacatggagacCtcccatggcatctgtcgcat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:44422082C>T	uc001ckx.2	+	3	1707	c.912C>T	c.(910-912)ACC>ACT	p.T304T		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	304	HEAT 4.				protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				ACATGGAGACCTCCCATGGCA	0.587													9	15	---	---	---	---	PASS	T	44422082	T	T	44422082	2	4	4	1	0	0	0	0	0	0	0	1	7794	668	24	3		3	IPO13	1	44422082	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	44422082	204828539	90	681	8	2								
B4GALT2	8704	broad.mit.edu	37	chr1	44446940	44446940	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctactttgacgtctacgcCcagcacctggccttcttcag	7	16	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:44446940C>T	uc001clg.2	+	2	478	c.108C>T	c.(106-108)GCC>GCT	p.A36A	B4GALT2_uc001clh.2_5'UTR|B4GALT2_uc010okl.1_Silent_p.A65A|B4GALT2_uc001cli.2_Silent_p.A36A	NM_003780	NP_003771	O60909	B4GT2_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	36	Helical; Signal-anchor for type II membrane protein; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			N-Acetyl-D-glucosamine(DB00141)	ACGTCTACGCCCAGCACCTGG	0.587													9	32	---	---	---	---	PASS	T	44446940	T	T	44446940	2	4	4	1	0	0	0	0	0	0	0	1	1271	610	22	3		3	B4GALT2	1	44446940	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	24858	44446940	204803681	91	682										
KIF2C	11004	broad.mit.edu	37	chr1	45213357	45213357	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatccgtcaactccaaaattCctgctccaaaagaaagtaag	6	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:45213357C>T	uc001cmg.3	+	4	416	c.301C>T	c.(301-303)CCT>TCT	p.P101S	KIF2C_uc010olb.1_Missense_Mutation_p.P101S|KIF2C_uc010olc.1_5'UTR|KIF2C_uc001cmh.3_Missense_Mutation_p.P47S	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	101	Microtubule tip localization signal.|Globular (Potential).			IP->NN: Loss of interaction with MAPRE1 and association with microtubule growing ends.	blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CTCCAAAATTCCTGCTCCAAA	0.398													4	14	---	---	---	---	PASS	T	45213357	T	T	45213357	3	4	4	1	0	0	0	0	1	0	0	0	8299	855	30	2	315	2	KIF2C	1	45213357	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	766417	45213357	204037264	92	683										
RPS8	6202	broad.mit.edu	37	chr1	45243440	45243440	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cactatgcgctgcccctgggCcgcaagaagggagccaagct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:45243440C>T	uc001cmi.2	+	4	389	c.366C>T	c.(364-366)GGC>GGT	p.G122G	SNORD38A_uc009vxi.2_5'Flank|SNORD38B_uc001cml.2_5'Flank	NM_001012	NP_001003	P62241	RS8_HUMAN	ribosomal protein S8	122					endocrine pancreas development|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TGCCCCTGGGCCGCAAGAAGG	0.577													4	25	---	---	---	---	PASS	T	45243440	T	T	45243440	2	4	4	1	0	0	0	0	0	0	0	1	13661	726	26	3		3	RPS8	1	45243440	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	30083	45243440	204007181	93	684	9	2								
RPS8	6202	broad.mit.edu	37	chr1	45243441	45243441	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actatgcgctgcccctgggcCgcaagaagggagccaagctg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:45243441C>T	uc001cmi.2	+	4	390	c.367C>T	c.(367-369)CGC>TGC	p.R123C	SNORD38A_uc009vxi.2_5'Flank|SNORD38B_uc001cml.2_5'Flank	NM_001012	NP_001003	P62241	RS8_HUMAN	ribosomal protein S8	123					endocrine pancreas development|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GCCCCTGGGCCGCAAGAAGGG	0.582													4	26	---	---	---	---	PASS	T	45243441	T	T	45243441	3	4	4	1	0	0	0	0	1	0	0	0	13661	652	23	1	381	1	RPS8	1	45243441	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	45243441	204007180	94	685	9	2								
BEST4	266675	broad.mit.edu	37	chr1	45250841	45250841	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgagaggcacgtacatgtccGggtctcccagggctggggct	16	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:45250841G>T	uc001cmm.2	-	6	900	c.851C>A	c.(850-852)CCG>CAG	p.P284Q		NM_153274	NP_695006	Q8NFU0	BEST4_HUMAN	bestrophin 4	284	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GTACATGTCCGGGTCTCCCAG	0.622													4	40	---	---	---	---	PASS	T	45250841	T	T	45250841	3	4	4	1	0	0	0	0	1	0	0	0	1407	1116	39	1	586	1	BEST4	1	45250841	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	7400	45250841	203999780	95	686										
EIF2B3	8891	broad.mit.edu	37	chr1	45347342	45347342	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttcttcttgtccctgttgTgaggaagctgaggaaaactg	11	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:45347342T>A	uc001cmt.1	-	7	853	c.726A>T	c.(724-726)TCA>TCT	p.S242S	EIF2B3_uc001cmu.1_Silent_p.S242S|EIF2B3_uc001cmv.1_Silent_p.S242S|EIF2B3_uc001cmw.2_Silent_p.S242S	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,	242					negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GTCCCTGTTGTGAGGAAGCTG	0.413													35	45	---	---	---	---	PASS	A	45347342	A	A	45347342	2	1	4	1	0	0	0	0	0	0	0	1	5002	1683	59	5		5	EIF2B3	1	45347342	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	96501	45347342	203903279	96	687										
MAST2	23139	broad.mit.edu	37	chr1	46290251	46290251	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacctggccagctctctatcGggtaaatatctgattttgtt	8	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:46290251G>T	uc001cov.2	+	2	607	c.324G>T	c.(322-324)TCG>TCT	p.S108S	MAST2_uc001cow.2_Silent_p.S108S	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	108					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)					GCTCTCTATCGGGTAAATATC	0.373													4	97	---	---	---	---	PASS	T	46290251	T	T	46290251	2	4	4	1	0	0	0	0	0	0	0	1	9325	1130	39	1		1	MAST2	1	46290251	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	942909	46290251	202960370	97	688										
MAST2	23139	broad.mit.edu	37	chr1	46497954	46497954	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagggacttcttgccagccCttggcagcatgaggcctccc	12	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:46497954C>T	uc001cov.2	+	25	3575	c.3292C>T	c.(3292-3294)CTT>TTT	p.L1098F	MAST2_uc001cow.2_Missense_Mutation_p.L1098F|MAST2_uc001cpa.2_Intron	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	1098					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)					CTTGCCAGCCCTTGGCAGCAT	0.597													21	35	---	---	---	---	PASS	T	46497954	T	T	46497954	3	4	4	1	0	0	0	0	1	0	0	0	9325	681	24	3	3390	3	MAST2	1	46497954	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	207703	46497954	202752667	98	689										
LRRC41	10489	broad.mit.edu	37	chr1	46746910	46746910	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagagaggacccgtagcaggGgcagtgctcgcacgatagca	15	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:46746910G>A	uc001cpn.2	-	5	1687	c.1643C>T	c.(1642-1644)CCC>CTC	p.P548L	LRRC41_uc010omb.1_Missense_Mutation_p.P548L	NM_006369	NP_006360	Q15345	LRC41_HUMAN	MUF1 protein	548	LRR 3.									ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(166;0.155)					CCGTAGCAGGGGCAGTGCTCG	0.612													7	18	---	---	---	---	PASS	A	46746910	A	A	46746910	3	1	4	1	0	0	0	0	1	0	0	0	8999	1232	43	3	819	3	LRRC41	1	46746910	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	248956	46746910	202503711	99	690										
CYP4X1	260293	broad.mit.edu	37	chr1	47504382	47504382	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccaggctggggtaaagcagGataacactccgaagaggaag	14	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:47504382G>A	uc001cqt.2	+	7	1076	c.826G>A	c.(826-828)GAT>AAT	p.D276N	CYP4X1_uc001cqr.2_Missense_Mutation_p.D275N|CYP4X1_uc001cqs.2_Missense_Mutation_p.D211N	NM_178033	NP_828847	Q8N118	CP4X1_HUMAN	cytochrome P450, family 4, subfamily X,	276						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2						GGTAAAGCAGGATAACACTCC	0.393													25	40	---	---	---	---	PASS	A	47504382	A	A	47504382	3	1	4	1	0	0	0	0	1	0	0	0	4193	1174	41	2	852	2	CYP4X1	1	47504382	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	757472	47504382	201746239	100	691										
SLC5A9	200010	broad.mit.edu	37	chr1	48703480	48703480	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccccacccatcaccgctctCttcctgctggccatcttctg	6	20	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:48703480C>T	uc001cro.2	+	11	1474	c.1422C>T	c.(1420-1422)CTC>CTT	p.L474L	SLC5A9_uc010oms.1_RNA|SLC5A9_uc001crn.2_Silent_p.L499L|SLC5A9_uc010omt.1_Silent_p.L488L|SLC5A9_uc001crp.2_Silent_p.L141L|SLC5A9_uc010omu.1_Silent_p.L141L|SLC5A9_uc009vyt.1_5'Flank	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	474	Helical; (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						TCACCGCTCTCTTCCTGCTGG	0.502													15	19	---	---	---	---	PASS	T	48703480	T	T	48703480	2	4	4	1	0	0	0	0	0	0	0	1	14672	900	32	2		2	SLC5A9	1	48703480	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1199098	48703480	200547141	101	692										
SLC5A9	200010	broad.mit.edu	37	chr1	48713068	48713068	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgggctctctggaacaccGgagcaggccctgagcccagc	14	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:48713068G>A	uc001cro.2	+	14	1951	c.1899G>A	c.(1897-1899)CCG>CCA	p.P633P	SLC5A9_uc001crn.2_Silent_p.P658P|SLC5A9_uc010omt.1_Silent_p.P647P|SLC5A9_uc001crp.2_Silent_p.P300P|SLC5A9_uc010omu.1_Silent_p.P300P|SLC5A9_uc009vyt.1_RNA	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	633	Cytoplasmic (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						CTGGAACACCGGAGCAGGCCC	0.517													12	9	---	---	---	---	PASS	A	48713068	A	A	48713068	2	1	4	1	0	0	0	0	0	0	0	1	14672	1103	39	1		1	SLC5A9	1	48713068	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	9588	48713068	200537553	102	693										
ZFYVE9	9372	broad.mit.edu	37	chr1	52769498	52769498	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgctttggcccaggacttCagaaattaccagtatacctt	7	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:52769498C>T	uc001cto.2	+	13	3511	c.3339C>T	c.(3337-3339)TTC>TTT	p.F1113F	ZFYVE9_uc001ctp.2_Silent_p.F1054F	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	1113					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						CCCAGGACTTCAGAAATTACC	0.353													18	40	---	---	---	---	PASS	T	52769498	T	T	52769498	2	4	4	1	0	0	0	0	0	0	0	1	17668	825	29	2		2	ZFYVE9	1	52769498	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4056430	52769498	196481123	103	694										
PODN	127435	broad.mit.edu	37	chr1	53544160	53544160	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccatccggagcgtggacgcGaatgtgctgacccccatccg	13	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:53544160G>A	uc001cuv.2	+	8	1129	c.1122G>A	c.(1120-1122)GCG>GCA	p.A374A	PODN_uc001cuw.2_Silent_p.A355A|PODN_uc010onr.1_Silent_p.A355A|PODN_uc010ons.1_Silent_p.A232A	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	326	LRR 10.				negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding			ovary(1)|pancreas(1)	2						GCGTGGACGCGAATGTGCTGA	0.612													4	23	---	---	---	---	PASS	A	53544160	A	A	53544160	2	1	4	1	0	0	0	0	0	0	0	1	12178	1045	37	2		2	PODN	1	53544160	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	774662	53544160	195706461	104	695										
PODN	127435	broad.mit.edu	37	chr1	53547779	53547779	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggaccgtggccgcttgggGaaggaaaaggaggaggagga	20	5	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:53547779G>A	uc001cuv.2	+	10	1939	c.1932G>A	c.(1930-1932)GGG>GGA	p.G644G	PODN_uc001cuw.2_Silent_p.G625G|PODN_uc010onr.1_Silent_p.G625G|PODN_uc010ons.1_Silent_p.G502G	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	596					negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding			ovary(1)|pancreas(1)	2						GCCGCTTggggaaggaaaagg	0.398													6	12	---	---	---	---	PASS	A	53547779	A	A	53547779	2	1	4	1	0	0	0	0	0	0	0	1	12178	1161	41	2		2	PODN	1	53547779	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	3619	53547779	195702842	105	696										
C1orf83	127428	broad.mit.edu	37	chr1	54534537	54534537	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagaattaaagaagaaaataCcctccagggaagtgttaaaa	8	5	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:54534537C>T	uc001cwt.1	+	3	411	c.211C>T	c.(211-213)CCC>TCC	p.P71S	C1orf83_uc001cwu.1_Intron	NM_153035	NP_694580	Q96MN5	TEAN2_HUMAN	hypothetical protein LOC127428	71	TFIIS N-terminal.				transcription, DNA-dependent	nucleus	DNA binding				0						GAAGAAAATACCCTCCAGGGA	0.333													4	29	---	---	---	---	PASS	T	54534537	T	T	54534537	3	4	4	1	0	0	0	0	1	0	0	0	2060	507	18	3	217	3	C1orf83	1	54534537	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	986758	54534537	194716084	106	697										
MRPL37	51253	broad.mit.edu	37	chr1	54670798	54670798	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accacatagagaaccaagacGagtgcgttctgaatgtgatc	10	9	1	4	rs112294124		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:54670798G>A	uc001cxa.3	+	2	531	c.454G>A	c.(454-456)GAG>AAG	p.E152K	MRPL37_uc009vzp.2_Intron|MRPL37_uc001cxb.1_Missense_Mutation_p.E152K|MRPL37_uc001cxc.3_5'UTR|MRPL37_uc010oob.1_RNA	NM_016491	NP_057575	Q9BZE1	RM37_HUMAN	mitochondrial ribosomal protein L37 precursor	152					translation	mitochondrial ribosome	structural constituent of ribosome				0						GAACCAAGACGAGTGCGTTCT	0.507													30	39	---	---	---	---	PASS	A	54670798	A	A	54670798	3	1	4	1	0	0	0	0	1	0	0	0	9800	1059	37	2	460	2	MRPL37	1	54670798	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	136261	54670798	194579823	107	698										
C1orf175	374977	broad.mit.edu	37	chr1	55145664	55145664	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtctccctcctggctagctCcttcatgaccgaggttgtgg	11	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:55145664C>T	uc010ooe.1	+	13	2651	c.2327C>T	c.(2326-2328)TCC>TTC	p.S776F	C1orf175_uc001cxq.2_RNA|C1orf175_uc010ooc.1_Missense_Mutation_p.S344F|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Missense_Mutation_p.S294F|C1orf175_uc010oof.1_Intron|C1orf175_uc001cxr.1_Intron|C1orf175_uc010oog.1_Missense_Mutation_p.S776F|C1orf175_uc010ooh.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA|C1orf175_uc009vzr.1_5'Flank	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	776	Helical; (Potential).					integral to membrane	binding				0						CTGGCTAGCTCCTTCATGACC	0.602													15	77	---	---	---	---	PASS	T	55145664	T	T	55145664	3	4	4	1	0	0	0	0	1	0	0	0	2016	855	30	2	2369	2	C1orf175	1	55145664	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	474866	55145664	194104957	108	699										
PPAP2B	8613	broad.mit.edu	37	chr1	56962296	56962296	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttccttccggatagcagggGcaggcagggagagcgtcgtc	16	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:56962296G>A	uc001cyj.1	-	7	1364	c.863C>T	c.(862-864)GCC>GTC	p.A288V		NM_177414	NP_803133	O14495	LPP3_HUMAN	phosphatidic acid phosphatase type 2B	288	Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway involved in positive regulation of cell-cell adhesion|canonical Wnt receptor signaling pathway involved in positive regulation of endothelial cell migration|canonical Wnt receptor signaling pathway involved in positive regulation of wound healing|germ cell migration|homotypic cell-cell adhesion|negative regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|sphingolipid metabolic process	adherens junction|Golgi apparatus|integral to membrane	phosphatidate phosphatase activity|phosphoprotein phosphatase activity|protein binding|sphingosine-1-phosphate phosphatase activity				0						GATAGCAGGGGCAGGCAGGGA	0.493													15	25	---	---	---	---	PASS	A	56962296	A	A	56962296	3	1	4	1	0	0	0	0	1	0	0	0	12291	1203	42	3	76	3	PPAP2B	1	56962296	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1816632	56962296	192288325	109	700										
C1orf87	127795	broad.mit.edu	37	chr1	60499186	60499186	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccagagaacgagcgatcttCttttcgaaaactcagattga	9	9	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:60499186C>T	uc001czs.1	-	7	1083	c.991G>A	c.(991-993)GAA>AAA	p.E331K		NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	331							calcium ion binding			ovary(1)|breast(1)	2						GAGCGATCTTCTTTTCGAAAA	0.443													18	41	---	---	---	---	PASS	T	60499186	T	T	60499186	3	4	4	1	0	0	0	0	1	0	0	0	2064	922	32	2	673	2	C1orf87	1	60499186	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3536890	60499186	188751435	110	701										
INADL	10207	broad.mit.edu	37	chr1	62545165	62545165	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaatatccaacaaaagtctCcttcagttcacaagagatac	4	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:62545165C>T	uc001dab.2	+	32	4283	c.4169C>T	c.(4168-4170)TCC>TTC	p.S1390F	INADL_uc009waf.1_Missense_Mutation_p.S1390F|INADL_uc001daa.2_Missense_Mutation_p.S1390F|INADL_uc001dad.3_Missense_Mutation_p.S1087F|INADL_uc001dac.2_RNA|INADL_uc010oot.1_Missense_Mutation_p.S174F|INADL_uc009wag.2_Missense_Mutation_p.S174F|INADL_uc010oou.1_Missense_Mutation_p.S63F|hsa-mir-3116-2|MI0014129_5'Flank	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1390					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						ACAAAAGTCTCCTTCAGTTCA	0.373													39	51	---	---	---	---	PASS	T	62545165	T	T	62545165	3	4	4	1	0	0	0	0	1	0	0	0	7731	855	30	2	4291	2	INADL	1	62545165	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2045979	62545165	186705456	111	702										
INADL	10207	broad.mit.edu	37	chr1	62550229	62550229	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtggaccccgcaacgtgtcCcattgtccctggacaggaaa	11	13	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:62550229C>T	uc001dab.2	+	33	4400	c.4286C>T	c.(4285-4287)CCC>CTC	p.P1429L	INADL_uc009waf.1_Missense_Mutation_p.P1429L|INADL_uc001daa.2_Missense_Mutation_p.P1429L|INADL_uc001dad.3_Missense_Mutation_p.P1126L|INADL_uc001dac.2_RNA|INADL_uc010oot.1_Missense_Mutation_p.P213L|INADL_uc009wag.2_Missense_Mutation_p.P213L|INADL_uc010oou.1_Missense_Mutation_p.P102L	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1429					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						GCAACGTGTCCCATTGTCCCT	0.507													21	20	---	---	---	---	PASS	T	62550229	T	T	62550229	3	4	4	1	0	0	0	0	1	0	0	0	7731	623	22	3	4412	3	INADL	1	62550229	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	5064	62550229	186700392	112	703										
KANK4	163782	broad.mit.edu	37	chr1	62747221	62747221	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctacaaagcagcttgcctacCatctgtcttctccatctttg	5	14	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:62747221C>T	uc001dah.3	-	2	393	c.16G>A	c.(16-18)GCC>ACC	p.A6T	KANK4_uc001dai.3_Missense_Mutation_p.E6K	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	6										ovary(3)|skin(2)|lung(1)	6						GCTTGCCTACCATCTGTCTTC	0.478													63	80	---	---	---	---	PASS	T	62747221	T	T	62747221	3	4	4	1	0	0	0	0	1	0	0	0	7979	608	21	3	3007	3	KANK4	1	62747221	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	196992	62747221	186503400	113	704										
DOCK7	85440	broad.mit.edu	37	chr1	62943401	62943401	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgagatatctctgcaagtttGgttattgcaggctccttgta	10	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:62943401G>A	uc001daq.2	-	43	5605	c.5571C>T	c.(5569-5571)ACC>ACT	p.T1857T	DOCK7_uc001dan.2_Silent_p.T1720T|DOCK7_uc001dao.2_Silent_p.T1718T|DOCK7_uc001dap.2_Silent_p.T1837T|DOCK7_uc001dam.2_Silent_p.T1039T|DOCK7_uc010oov.1_Silent_p.T598T|DOCK7_uc001dar.1_Silent_p.T31T	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1868	DHR-2.				activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						CTGCAAGTTTGGTTATTGCAG	0.388													36	64	---	---	---	---	PASS	A	62943401	A	A	62943401	2	1	4	1	0	0	0	0	0	0	0	1	4692	1335	47	3		3	DOCK7	1	62943401	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	196180	62943401	186307220	114	705										
DOCK7	85440	broad.mit.edu	37	chr1	63113907	63113907	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagcaaagcatcaggaagtGaatttttcaagtcaaagata	9	5	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:63113907G>A	uc001daq.2	-	6	636	c.602C>T	c.(601-603)TCA>TTA	p.S201L	DOCK7_uc001dan.2_Missense_Mutation_p.S93L|DOCK7_uc001dao.2_Missense_Mutation_p.S93L|DOCK7_uc001dap.2_Missense_Mutation_p.S201L|DOCK7_uc009wah.1_Missense_Mutation_p.S201L	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	201					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						ATCAGGAAGTGAATTTTTCAA	0.393													23	40	---	---	---	---	PASS	A	63113907	A	A	63113907	3	1	4	1	0	0	0	0	1	0	0	0	4692	1294	45	2	5903	2	DOCK7	1	63113907	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	170506	63113907	186136714	115	706										
ITGB3BP	23421	broad.mit.edu	37	chr1	63920139	63920139	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaagctctctactgccctcCaaagcctacaagaaagtcat	5	14	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:63920139C>T	uc001dba.1	-	6	370	c.339G>A	c.(337-339)TTG>TTA	p.L113L	ITGB3BP_uc001dbb.1_Silent_p.L152L|ITGB3BP_uc001dbc.1_RNA|ITGB3BP_uc001dbd.1_RNA|ITGB3BP_uc009wak.1_Silent_p.L135L|ITGB3BP_uc001dbe.1_Silent_p.L26L	NM_014288	NP_055103	Q13352	CENPR_HUMAN	integrin beta 3 binding protein	113	Potential.				apoptosis|cell adhesion|CenH3-containing nucleosome assembly at centromere|induction of apoptosis by extracellular signals|mitotic prometaphase|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome, centromeric region|cytosol|membrane fraction|nucleoplasm	protein C-terminus binding|signal transducer activity				0						TACTGCCCTCCAAAGCCTACA	0.343													15	21	---	---	---	---	PASS	T	63920139	T	T	63920139	2	4	4	1	0	0	0	0	0	0	0	1	7896	593	21	3		3	ITGB3BP	1	63920139	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	806232	63920139	185330482	116	707										
CACHD1	57685	broad.mit.edu	37	chr1	65131840	65131840	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgacaatcagtcacacaattCattcatccaggtaatatttt	4	9	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:65131840C>T	uc001dbo.1	+	16	2329	c.2224C>T	c.(2224-2226)CAT>TAT	p.H742Y	CACHD1_uc001dbp.1_Missense_Mutation_p.H497Y|CACHD1_uc001dbq.1_Missense_Mutation_p.H497Y|CACHD1_uc010opa.1_5'UTR	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	793	Extracellular (Potential).|Cache 2.				calcium ion transport	integral to membrane				ovary(2)	2						TCACACAATTCATTCATCCAG	0.328													12	25	---	---	---	---	PASS	T	65131840	T	T	65131840	3	4	4	1	0	0	0	0	1	0	0	0	2537	826	29	2	2286	2	CACHD1	1	65131840	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1211701	65131840	184118781	117	708										
JAK1	3716	broad.mit.edu	37	chr1	65310570	65310570	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatggaccaggtctttatcCtcctgcagagtaaaaaggtc	9	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:65310570C>T	uc001dbu.1	-	16	2367	c.2118G>A	c.(2116-2118)GAG>GAA	p.E706E	JAK1_uc009wam.1_Silent_p.E694E|JAK1_uc009wal.1_5'UTR	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	706	Protein kinase 1.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		GGTCTTTATCCTCCTGCAGAG	0.507			Mis		ALL								5	36	---	---	---	---	PASS	T	65310570	T	T	65310570	2	4	4	1	0	0	0	0	0	0	0	1	7937	680	24	3		3	JAK1	1	65310570	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	178730	65310570	183940051	118	709										
WDR78	79819	broad.mit.edu	37	chr1	67292639	67292639	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaagatggcttgacattctCctgttgccatataataacac	6	10	1	2	rs145334513		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:67292639C>A	uc001dcx.2	-	15	2259	c.2203G>T	c.(2203-2205)GAG>TAG	p.E735*	WDR78_uc009waw.2_Nonsense_Mutation_p.E448*|WDR78_uc009wax.2_RNA	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	735	WD 4.									ovary(2)	2						TTGACATTCTCCTGTTGCCAT	0.378													27	85	---	---	---	---	PASS	A	67292639	A	A	67292639	4	1	4	1	0	0	0	0	0	1	0	0	17325	864	30	2	355	2	WDR78	1	67292639	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1982069	67292639	181957982	119	710										
IL12RB2	3595	broad.mit.edu	37	chr1	67792445	67792445	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaacagcctcaaaatttatCctgcatacagaagggagaac	8	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:67792445C>T	uc001ddu.2	+	4	1032	c.392C>T	c.(391-393)TCC>TTC	p.S131F	IL12RB2_uc010oqi.1_Missense_Mutation_p.S131F|IL12RB2_uc010oqj.1_Missense_Mutation_p.S131F|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Missense_Mutation_p.S131F|IL12RB2_uc010oqm.1_Missense_Mutation_p.S131F|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	131	Extracellular (Potential).|Fibronectin type-III 1.				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						CAAAATTTATCCTGCATACAG	0.428													5	9	---	---	---	---	PASS	T	67792445	T	T	67792445	3	4	4	1	0	0	0	0	1	0	0	0	7627	855	30	2	402	2	IL12RB2	1	67792445	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	499806	67792445	181458176	120	711										
IL12RB2	3595	broad.mit.edu	37	chr1	67833507	67833507	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctctttctgtccgataaaGggttgctggctcctcgccag	10	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:67833507G>A	uc001ddu.2	+	10	1899	c.1259_splice	c.e10-1	p.G420_splice	IL12RB2_uc010oqi.1_Splice_Site_p.G420_splice|IL12RB2_uc010oqj.1_Splice_Site_p.G420_splice|IL12RB2_uc010oqk.1_Splice_Site|IL12RB2_uc010oql.1_Splice_Site_p.G420_splice|IL12RB2_uc010oqm.1_Splice_Site_p.G420_splice|IL12RB2_uc010oqn.1_Splice_Site	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor						positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						GTCCGATAAAGGGTTGCTGGC	0.443													24	75	---	---	---	---	PASS	A	67833507	A	A	67833507	5	1	4	1	0	0	0	0	0	0	1	0	7627	1014	35	3	1292	3	IL12RB2	1	67833507	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	41062	67833507	181417114	121	712										
LRRC7	57554	broad.mit.edu	37	chr1	70505069	70505069	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acggcagacccccatataggGgagggctggatcgccaaagc	14	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:70505069G>A	uc001dep.2	+	19	3478	c.3448G>A	c.(3448-3450)GGA>AGA	p.G1150R	LRRC7_uc009wbg.2_Missense_Mutation_p.G434R|LRRC7_uc001deq.2_Missense_Mutation_p.G391R	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1150						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CCCATATAGGGGAGGGCTGGA	0.522													18	29	---	---	---	---	PASS	A	70505069	A	A	70505069	3	1	4	1	0	0	0	0	1	0	0	0	9020	1233	43	3	3522	3	LRRC7	1	70505069	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2671562	70505069	178745552	122	713										
NEGR1	257194	broad.mit.edu	37	chr1	72076747	72076747	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cattcaaaggctggaggcggCacacctgcaccttcacatct	9	14	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:72076747C>T	uc001dfw.2	-	5	850	c.750G>A	c.(748-750)GTG>GTA	p.V250V	NEGR1_uc001dfv.2_Silent_p.V122V|NEGR1_uc010oqs.1_Silent_p.V206V	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	250	Ig-like C2-type 3.				cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		CTGGAGGCGGCACACCTGCAC	0.463													11	49	---	---	---	---	PASS	T	72076747	T	T	72076747	2	4	4	1	0	0	0	0	0	0	0	1	10317	697	25	3		3	NEGR1	1	72076747	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1571678	72076747	177173874	123	714										
LRRIQ3	127255	broad.mit.edu	37	chr1	74492584	74492584	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcatcttgaagtctttcacaGgctttttcaaaggcaatcat	7	9	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:74492584G>A	uc001dfy.3	-	8	1980	c.1788C>T	c.(1786-1788)GCC>GCT	p.A596A	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	596	Potential.									ovary(2)	2						GTCTTTCACAGGCTTTTTCAA	0.303													9	16	---	---	---	---	PASS	A	74492584	A	A	74492584	2	1	4	1	0	0	0	0	0	0	0	1	9030	987	35	3		3	LRRIQ3	1	74492584	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2415837	74492584	174758037	124	715										
FPGT	8790	broad.mit.edu	37	chr1	74670360	74670360	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggagtatttgtcttagatcCttttgatgatttaaaacata	7	4	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:74670360C>T	uc001dgb.1	+	4	666	c.629C>T	c.(628-630)CCT>CTT	p.P210L	TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron|FPGT_uc010oqt.1_Intron|FPGT_uc010oqu.1_Intron|FPGT_uc010oqv.1_Intron	NM_003838	NP_003829	O14772	FPGT_HUMAN	fucose-1-phosphate guanyltransferase	210					fucose metabolic process	cytoplasm	fucose-1-phosphate guanylyltransferase activity|GTP binding			skin(1)	1						GTCTTAGATCCTTTTGATGAT	0.373													11	43	---	---	---	---	PASS	T	74670360	T	T	74670360	3	4	4	1	0	0	0	0	1	0	0	0	6037	681	24	3	643	3	FPGT	1	74670360	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	177776	74670360	174580261	125	716										
C1orf173	127254	broad.mit.edu	37	chr1	75072544	75072544	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttttctttcctagatttCggcaaagacggttttttgtc	7	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:75072544C>T	uc001dgg.2	-	10	1449	c.1230G>A	c.(1228-1230)CCG>CCA	p.P410P	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Silent_p.P204P	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	410										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TCCTAGATTTCGGCAAAGACG	0.413													12	63	---	---	---	---	PASS	T	75072544	T	T	75072544	2	4	4	1	0	0	0	0	0	0	0	1	2014	871	31	2		2	C1orf173	1	75072544	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	402184	75072544	174178077	126	717										
MSH4	4438	broad.mit.edu	37	chr1	76344772	76344772	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccagatgactacagattgtAtagccctacctagtgatcaa	7	10	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:76344772A>T	uc001dhd.1	+	12	1677	c.1636A>T	c.(1636-1638)ATA>TTA	p.I546L		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	546					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						TACAGATTGTATAGCCCTACC	0.338								MMR					14	29	---	---	---	---	PASS	T	76344772	T	T	76344772	3	4	4	1	0	0	0	0	1	0	0	0	9872	449	16	5	1682	5	MSH4	1	76344772	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	1272228	76344772	172905849	127	718										
MSH4	4438	broad.mit.edu	37	chr1	76365359	76365359	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caattgtcttggatgccaagGaaatcacaactcaaattacg	7	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:76365359G>A	uc001dhd.1	+	19	2628	c.2587G>A	c.(2587-2589)GAA>AAA	p.E863K		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	863					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						GGATGCCAAGGAAATCACAAC	0.294								MMR					16	37	---	---	---	---	PASS	A	76365359	A	A	76365359	3	1	4	1	0	0	0	0	1	0	0	0	9872	1175	41	2	2661	2	MSH4	1	76365359	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	20587	76365359	172885262	128	719										
ST6GALNAC3	256435	broad.mit.edu	37	chr1	76877855	76877855	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcggccgcatgaccatgattCgagttgtgtcccataccagc	10	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:76877855C>T	uc001dhh.2	+	3	539	c.376C>T	c.(376-378)CGA>TGA	p.R126*	ST6GALNAC3_uc001dhg.3_Nonsense_Mutation_p.R126*|ST6GALNAC3_uc010orh.1_Nonsense_Mutation_p.R61*	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	126	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						GACCATGATTCGAGTTGTGTC	0.433													18	44	---	---	---	---	PASS	T	76877855	T	T	76877855	4	4	4	1	0	0	0	0	0	1	0	0	15224	876	31	2	386	2	ST6GALNAC3	1	76877855	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	512496	76877855	172372766	129	720										
ST6GALNAC3	256435	broad.mit.edu	37	chr1	76877969	76877969	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttccgcaatatgaggaaaGatggcaatggcatcgtttac	10	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:76877969G>A	uc001dhh.2	+	3	653	c.490G>A	c.(490-492)GAT>AAT	p.D164N	ST6GALNAC3_uc001dhg.3_Missense_Mutation_p.D164N|ST6GALNAC3_uc010orh.1_Missense_Mutation_p.D99N	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	164	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						TATGAGGAAAGATGGCAATGG	0.393													20	61	---	---	---	---	PASS	A	76877969	A	A	76877969	3	1	4	1	0	0	0	0	1	0	0	0	15224	942	33	2	500	2	ST6GALNAC3	1	76877969	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	114	76877969	172372652	130	721										
USP33	23032	broad.mit.edu	37	chr1	78184286	78184286	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaataatgcccatacctcagGaaagttttgtactttacaaa	5	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:78184286G>A	uc001dht.2	-	17	2172	c.1825C>T	c.(1825-1827)CCT>TCT	p.P609S	USP33_uc001dhs.2_Missense_Mutation_p.P330S|USP33_uc001dhu.2_Missense_Mutation_p.P578S|USP33_uc001dhv.2_Missense_Mutation_p.P414S|USP33_uc001dhw.2_Missense_Mutation_p.P601S	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	609					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						CATACCTCAGGAAAGTTTTGT	0.284													9	20	---	---	---	---	PASS	A	78184286	A	A	78184286	3	1	4	1	0	0	0	0	1	0	0	0	17061	1174	41	2	1051	2	USP33	1	78184286	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1306317	78184286	171066335	131	722										
IFI44L	10964	broad.mit.edu	37	chr1	79107150	79107150	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccataaaatgctaggcattCctatttccaatattttgatg	5	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:79107150C>T	uc010oro.1	+	8	1359	c.1180C>T	c.(1180-1182)CCT>TCT	p.P394S	IFI44L_uc010orp.1_Missense_Mutation_p.P131S|IFI44L_uc010orq.1_Missense_Mutation_p.P131S	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	394						cytoplasm					0						GCTAGGCATTCCTATTTCCAA	0.353													13	41	---	---	---	---	PASS	T	79107150	T	T	79107150	3	4	4	1	0	0	0	0	1	0	0	0	7518	855	30	2	1206	2	IFI44L	1	79107150	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	922864	79107150	170143471	132	723										
IFI44	10561	broad.mit.edu	37	chr1	79128453	79128453	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcggtggttagcaattattCctctgagtgggagctggacc	13	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:79128453C>T	uc001dip.3	+	8	1302	c.1178C>T	c.(1177-1179)TCC>TTC	p.S393F		NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	393					response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2						AGCAATTATTCCTCTGAGTGG	0.413													18	29	---	---	---	---	PASS	T	79128453	T	T	79128453	3	4	4	1	0	0	0	0	1	0	0	0	7517	855	30	2	1204	2	IFI44	1	79128453	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	21303	79128453	170122168	133	724										
ELTD1	64123	broad.mit.edu	37	chr1	79470895	79470895	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaacaattcaacaaagtgGaaaaaaccactaaataaaat	5	6	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:79470895G>A	uc001diq.3	-	2	188	c.32C>T	c.(31-33)TCC>TTC	p.S11F		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	11					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)		CAACAAAGTGGAAAAAACCAC	0.323													12	10	---	---	---	---	PASS	A	79470895	A	A	79470895	3	1	4	1	0	0	0	0	1	0	0	0	5084	1174	41	2	2096	2	ELTD1	1	79470895	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	342442	79470895	169779726	134	725										
DNASE2B	58511	broad.mit.edu	37	chr1	84880230	84880230	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacatctttgcagcctggatGgctcaacggctgaagacaca	11	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:84880230G>A	uc001djt.1	+	6	798	c.765G>A	c.(763-765)ATG>ATA	p.M255I	DNASE2B_uc001dju.1_Missense_Mutation_p.M47I|DNASE2B_uc009wch.1_Missense_Mutation_p.M47I	NM_021233	NP_067056	Q8WZ79	DNS2B_HUMAN	deoxyribonuclease II beta isoform 1 precursor	255					DNA metabolic process	lysosome	deoxyribonuclease II activity				0				all cancers(265;0.00303)|Epithelial(280;0.0112)|OV - Ovarian serous cystadenocarcinoma(397;0.0808)		CAGCCTGGATGGCTCAACGGC	0.418								Direct_reversal_of_damage					7	30	---	---	---	---	PASS	A	84880230	A	A	84880230	3	1	4	1	0	0	0	0	1	0	0	0	4665	1348	47	3	787	3	DNASE2B	1	84880230	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5409335	84880230	164370391	135	726										
DNASE2B	58511	broad.mit.edu	37	chr1	84880305	84880305	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagcttccttcaaactgctcCcttccttaccatgtctacaa	4	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:84880305C>T	uc001djt.1	+	6	873	c.840C>T	c.(838-840)TCC>TCT	p.S280S	DNASE2B_uc001dju.1_Silent_p.S72S|DNASE2B_uc009wch.1_Silent_p.S72S	NM_021233	NP_067056	Q8WZ79	DNS2B_HUMAN	deoxyribonuclease II beta isoform 1 precursor	280					DNA metabolic process	lysosome	deoxyribonuclease II activity				0				all cancers(265;0.00303)|Epithelial(280;0.0112)|OV - Ovarian serous cystadenocarcinoma(397;0.0808)		CAAACTGCTCCCTTCCTTACC	0.418								Direct_reversal_of_damage					12	33	---	---	---	---	PASS	T	84880305	T	T	84880305	2	4	4	1	0	0	0	0	0	0	0	1	4665	610	22	3		3	DNASE2B	1	84880305	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	75	84880305	164370316	136	727										
CTBS	1486	broad.mit.edu	37	chr1	85029067	85029067	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtcactacaaggagcccccCggaaagggacttttgcaatg	11	12	1	0	rs148118320	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:85029067C>A	uc001dka.2	-	6	895	c.830G>T	c.(829-831)CGG>CTG	p.R277L	SPATA1_uc001djz.1_Intron|CTBS_uc001dkc.2_Missense_Mutation_p.R186L|CTBS_uc001dkd.2_Missense_Mutation_p.R71L|CTBS_uc001dkb.2_Missense_Mutation_p.R71L	NM_004388	NP_004379	Q01459	DIAC_HUMAN	chitobiase, di-N-acetyl- precursor	277						lysosome	cation binding				0				all cancers(265;0.00727)|Epithelial(280;0.0192)|OV - Ovarian serous cystadenocarcinoma(397;0.166)		AGGAGCCCCCCGGAAAGGGAC	0.388													3	29	---	---	---	---	PASS	A	85029067	A	A	85029067	3	1	4	1	0	0	0	0	1	0	0	0	3999	652	23	1	335	1	CTBS	1	85029067	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	148762	85029067	164221554	137	728										
MCOLN3	55283	broad.mit.edu	37	chr1	85486956	85486956	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagaccatgttcagagaacGaaactggaaaaagaaaagag	11	5	1	4	rs139077973		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:85486956G>A	uc001dkp.2	-	12	1417	c.1324C>T	c.(1324-1326)CGT>TGT	p.R442C	MCOLN3_uc001dko.2_Missense_Mutation_p.R61C|MCOLN3_uc001dkq.2_Missense_Mutation_p.R386C	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	442						integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		TTCAGAGAACGAAACTGGAAA	0.368													17	36	---	---	---	---	PASS	A	85486956	A	A	85486956	3	1	4	1	0	0	0	0	1	0	0	0	9397	1058	37	2	345	2	MCOLN3	1	85486956	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	457889	85486956	163763665	138	729										
COL24A1	255631	broad.mit.edu	37	chr1	86590982	86590982	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtcactgacaggctgaaaTttgtctgagtatcttcctca	9	9	4	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:86590982T>A	uc001dlj.2	-	3	1079	c.1037A>T	c.(1036-1038)AAT>ATT	p.N346I	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.N346I	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	346					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)		CAGGCTGAAATTTGTCTGAGT	0.413													20	33	---	---	---	---	PASS	A	86590982	A	A	86590982	3	1	4	1	0	0	0	0	1	0	0	0	3683	1493	52	5	4339	5	COL24A1	1	86590982	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1104026	86590982	162659639	139	730										
HFM1	164045	broad.mit.edu	37	chr1	91843989	91843989	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagaaacagtcgaaccagctGaaccaaagagttgtctctcc	9	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:91843989G>A	uc001doa.3	-	10	1307	c.1207C>T	c.(1207-1209)CAG>TAG	p.Q403*	HFM1_uc010osu.1_Nonsense_Mutation_p.Q82*|HFM1_uc010osv.1_Nonsense_Mutation_p.Q87*|HFM1_uc001doc.1_Nonsense_Mutation_p.Q403*	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	403	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		CGAACCAGCTGAACCAAAGAG	0.328													17	48	---	---	---	---	PASS	A	91843989	A	A	91843989	4	1	4	1	0	0	0	0	0	1	0	0	7083	1299	45	2	3220	2	HFM1	1	91843989	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5253007	91843989	157406632	140	731										
TGFBR3	7049	broad.mit.edu	37	chr1	92185653	92185653	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctggaaatatctgggaaagGaaacggaaggcctccatttt	11	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:92185653G>A	uc001doh.2	-	9	1676	c.1210C>T	c.(1210-1212)CCT>TCT	p.P404S	TGFBR3_uc009wde.2_Missense_Mutation_p.P181S|TGFBR3_uc010osy.1_Missense_Mutation_p.P362S|TGFBR3_uc001doi.2_Missense_Mutation_p.P403S|TGFBR3_uc001doj.2_Missense_Mutation_p.P403S	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	404	Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		TCTGGGAAAGGAAACGGAAGG	0.587													19	17	---	---	---	---	PASS	A	92185653	A	A	92185653	3	1	4	1	0	0	0	0	1	0	0	0	15820	1174	41	2	1381	2	TGFBR3	1	92185653	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	341664	92185653	157064968	141	732										
BRDT	676	broad.mit.edu	37	chr1	92442942	92442942	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaatccgatggatcttggaActattaaggtaaatgttgcc	9	6	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:92442942A>G	uc001dok.3	+	6	1310	c.961A>G	c.(961-963)ACT>GCT	p.T321A	BRDT_uc001dol.3_Missense_Mutation_p.T321A|BRDT_uc010osz.1_Missense_Mutation_p.T325A|BRDT_uc009wdf.2_Missense_Mutation_p.T248A|BRDT_uc010ota.1_Missense_Mutation_p.T275A|BRDT_uc010otb.1_Missense_Mutation_p.T275A|BRDT_uc001dom.3_Missense_Mutation_p.T321A	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	321	Bromo 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		GGATCTTGGAACTATTAAGGT	0.244													20	35	---	---	---	---	PASS	G	92442942	G	G	92442942	3	3	4	1	0	0	0	0	1	0	0	0	1508	43	2	5	979	5	BRDT	1	92442942	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	257289	92442942	156807679	142	733										
EPHX4	253152	broad.mit.edu	37	chr1	92498145	92498145	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcatggatttccagaattCtggtaagcttaccaactaac	6	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:92498145C>T	uc001don.2	+	2	419	c.315C>T	c.(313-315)TTC>TTT	p.F105F		NM_173567	NP_775838	Q8IUS5	EPHX4_HUMAN	abhydrolase domain containing 7	105						integral to membrane	hydrolase activity			central_nervous_system(1)	1						TTCCAGAATTCTGGTAAGCTT	0.289													17	33	---	---	---	---	PASS	T	92498145	T	T	92498145	2	4	4	1	0	0	0	0	0	0	0	1	5182	912	32	2		2	EPHX4	1	92498145	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	55203	92498145	156752476	143	734										
EVI5	7813	broad.mit.edu	37	chr1	92979373	92979373	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaccagattttccgtgcaaaGgaaaaccaacaccagtttcc	6	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:92979373G>A	uc001dox.2	-	18	2283	c.2273C>T	c.(2272-2274)CCT>CTT	p.P758L	EVI5_uc010otf.1_Missense_Mutation_p.P769L	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	758	Targeting to the centrosomes.|Interaction with AURKB and INCENP.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		TCCGTGCAAAGGAAAACCAAC	0.438													28	34	---	---	---	---	PASS	A	92979373	A	A	92979373	3	1	4	1	0	0	0	0	1	0	0	0	5289	1000	35	3	163	3	EVI5	1	92979373	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	481228	92979373	156271248	144	735										
CCDC18	343099	broad.mit.edu	37	chr1	93724345	93724345	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctgaagaactgggggcttCtaaagtacgtgaagctcatt	12	7	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:93724345C>T	uc001dpq.2	+	26	4109	c.3941C>T	c.(3940-3942)TCT>TTT	p.S1314F	CCDC18_uc001dpr.1_Missense_Mutation_p.S109F	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	1195	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		CTGGGGGCTTCTAAAGTACGT	0.343													22	31	---	---	---	---	PASS	T	93724345	T	T	93724345	3	4	4	1	0	0	0	0	1	0	0	0	2794	913	32	2	4043	2	CCDC18	1	93724345	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	744972	93724345	155526276	145	736										
DPYD	1806	broad.mit.edu	37	chr1	97547898	97547898	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attcttacctggtagccagaAtcattacaggtcatgtagca	8	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:97547898A>G	uc001drv.2	-	22	3032	c.2895T>C	c.(2893-2895)GAT>GAC	p.D965D		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	965	4Fe-4S ferredoxin-type 2.				'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	GGTAGCCAGAATCATTACAGG	0.383													29	57	---	---	---	---	PASS	G	97547898	G	G	97547898	2	3	4	1	0	0	0	0	0	0	0	1	4745	98	4	5		5	DPYD	1	97547898	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	3823553	97547898	151702723	146	737										
DPYD	1806	broad.mit.edu	37	chr1	98015267	98015267	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctacttctgggagaccccatCtgttaaattttatagggctc	8	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:98015267C>T	uc001drv.2	-	12	1510	c.1373G>A	c.(1372-1374)AGA>AAA	p.R458K		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	458					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	GAGACCCCATCTGTTAAATTT	0.373													8	23	---	---	---	---	PASS	T	98015267	T	T	98015267	3	4	4	1	0	0	0	0	1	0	0	0	4745	913	32	2	1752	2	DPYD	1	98015267	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	467369	98015267	151235354	147	738										
DPYD	1806	broad.mit.edu	37	chr1	98058779	98058779	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggttccattttacctcctCagggacagctcttatattaa	6	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:98058779C>T	uc001drv.2	-	10	1260	c.1123G>A	c.(1123-1125)GAG>AAG	p.E375K		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	375					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	TTTACCTCCTCAGGGACAGCT	0.403													29	34	---	---	---	---	PASS	T	98058779	T	T	98058779	3	4	4	1	0	0	0	0	1	0	0	0	4745	835	29	2	2010	2	DPYD	1	98058779	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	43512	98058779	151191842	148	739										
SNX7	51375	broad.mit.edu	37	chr1	99150492	99150492	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccctatgatgccaacatccCctttatcaatgataaaccaa	4	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:99150492C>T	uc010ouc.1	+	2	284	c.232C>T	c.(232-234)CCT>TCT	p.P78S	SNX7_uc001dsa.2_Missense_Mutation_p.P14S|SNX7_uc010oud.1_Missense_Mutation_p.P78S	NM_015976	NP_057060	Q9UNH6	SNX7_HUMAN	sorting nexin 7 isoform a	14					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		all_epithelial(167;7.64e-07)|all_lung(203;0.0006)|Lung NSC(277;0.00137)		Epithelial(280;0.0521)|all cancers(265;0.0687)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.207)|Colorectal(170;0.234)		GCCAACATCCCCTTTATCAAT	0.338													13	25	---	---	---	---	PASS	T	99150492	T	T	99150492	3	4	4	1	0	0	0	0	1	0	0	0	14907	623	22	3	238	3	SNX7	1	99150492	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1091713	99150492	150100129	149	740										
PALMD	54873	broad.mit.edu	37	chr1	100111912	100111912	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgaagggaagactccaggcCatcacagtaagtctgcatac	11	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:100111912C>T	uc001dsg.2	+	1	482	c.39C>T	c.(37-39)GCC>GCT	p.A13A	PALMD_uc001dsf.2_Silent_p.A13A	NM_017734	NP_060204	Q9NP74	PALMD_HUMAN	palmdelphin	13	Potential.				regulation of cell shape	cytoplasm|membrane				ovary(2)|pancreas(1)	3		all_epithelial(167;0.000813)|all_lung(203;0.0214)|Lung NSC(277;0.0216)		Epithelial(280;0.067)|all cancers(265;0.117)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)		GACTCCAGGCCATCACAGTAA	0.517													24	34	---	---	---	---	PASS	T	100111912	T	T	100111912	2	4	4	1	0	0	0	0	0	0	0	1	11411	581	21	3		3	PALMD	1	100111912	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	961420	100111912	149138709	150	741										
SASS6	163786	broad.mit.edu	37	chr1	100587028	100587028	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgtgtaagatgcttaaaaGgatttgtctctaccacattt	9	6	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:100587028G>A	uc001dsu.2	-	5	530	c.389C>T	c.(388-390)CCT>CTT	p.P130L	SASS6_uc009wdz.2_5'UTR	NM_194292	NP_919268	Q6UVJ0	SAS6_HUMAN	spindle assembly abnormal protein 6	130					centriole replication	centriole				upper_aerodigestive_tract(1)|ovary(1)	2		all_epithelial(167;4.58e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.085)|all cancers(265;0.139)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.197)		ATGCTTAAAAGGATTTGTCTC	0.348													7	17	---	---	---	---	PASS	A	100587028	A	A	100587028	3	1	4	1	0	0	0	0	1	0	0	0	13850	1000	35	3	1636	3	SASS6	1	100587028	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	475116	100587028	148663593	151	742										
OLFM3	118427	broad.mit.edu	37	chr1	102270080	102270080	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggggtagccagtgctccagCtcttcatcacctccaaggta	10	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:102270080C>T	uc001duf.2	-	6	1222	c.1151G>A	c.(1150-1152)AGC>AAC	p.S384N	OLFM3_uc001dug.2_Missense_Mutation_p.S364N|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_Missense_Mutation_p.S289N|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	384	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)		AGTGCTCCAGCTCTTCATCAC	0.488													5	31	---	---	---	---	PASS	T	102270080	T	T	102270080	3	4	4	1	0	0	0	0	1	0	0	0	10854	797	28	3	289	3	OLFM3	1	102270080	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1683052	102270080	146980541	152	743										
AMY1A	276	broad.mit.edu	37	chr1	104297236	104297236	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctctatacttaccttctggGatgctaggtagaaaaccaag	8	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:104297236G>A	uc001duy.2	+	7	1208	c.994G>A	c.(994-996)GAT>AAT	p.D332N	AMY1A_uc001duz.2_Missense_Mutation_p.D332N	NM_001008221	NP_001008222	P04745	AMY1_HUMAN	salivary amylase alpha 1A precursor	332					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding|protein binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0654)|all cancers(265;0.0808)|Epithelial(280;0.0921)|Lung(183;0.111)		TACCTTCTGGGATGCTAGGTA	0.383													32	587	---	---	---	---	PASS	A	104297236	A	A	104297236	3	1	4	1	0	0	0	0	1	0	0	0	591	1174	41	2	4168	2	AMY1A	1	104297236	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2027156	104297236	144953385	153	744										
CELSR2	1952	broad.mit.edu	37	chr1	109793891	109793891	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggatgacaatgataatgcccCccagtttagtgagaagcgct	11	9	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:109793891C>T	uc001dxa.3	+	1	1251	c.1190C>T	c.(1189-1191)CCC>CTC	p.P397L		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	397	Cadherin 2.|Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		GATAATGCCCCCCAGTTTAGT	0.592													9	28	---	---	---	---	PASS	T	109793891	T	T	109793891	3	4	4	1	0	0	0	0	1	0	0	0	3222	623	22	3	1192	3	CELSR2	1	109793891	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	5496655	109793891	139456730	154	745										
FAM40A	85369	broad.mit.edu	37	chr1	110589365	110589365	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaatacctccgctcccctCtctcaggggtaagttggagg	12	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:110589365C>T	uc001dza.1	+	13	1499	c.1480C>T	c.(1480-1482)CTC>TTC	p.L494F	FAM40A_uc001dyz.1_Missense_Mutation_p.L399F|FAM40A_uc009wfp.1_Missense_Mutation_p.L318F	NM_033088	NP_149079	Q5VSL9	FA40A_HUMAN	hypothetical protein LOC85369	494						nucleus	protein binding			ovary(3)|large_intestine(1)	4		all_cancers(81;8.51e-05)|all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0154)|all cancers(265;0.0732)|Epithelial(280;0.0781)|Colorectal(144;0.115)|LUSC - Lung squamous cell carcinoma(189;0.137)		CCGCTCCCCTCTCTCAGGGGT	0.358													20	69	---	---	---	---	PASS	T	110589365	T	T	110589365	3	4	4	1	0	0	0	0	1	0	0	0	5560	913	32	2	1530	2	FAM40A	1	110589365	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	795474	110589365	138661256	155	746										
SLC6A17	388662	broad.mit.edu	37	chr1	110717573	110717573	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcgttaagggcatccagtcCtcggggaaggtgagtgctga	16	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:110717573C>T	uc009wfq.2	+	5	1205	c.744C>T	c.(742-744)TCC>TCT	p.S248S		NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	248	Cytoplasmic (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		GCATCCAGTCCTCGGGGAAGG	0.612													6	20	---	---	---	---	PASS	T	110717573	T	T	110717573	2	4	4	1	0	0	0	0	0	0	0	1	14680	668	24	3		3	SLC6A17	1	110717573	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	128208	110717573	138533048	156	747										
CD53	963	broad.mit.edu	37	chr1	111439345	111439345	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcatcttgcccctcagatcGaaaagtggaggtaattttgt	10	8	2	1	rs150734121	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:111439345G>A	uc001dzw.2	+	7	665	c.494G>A	c.(493-495)CGA>CAA	p.R165Q	CD53_uc001dzx.2_Missense_Mutation_p.R165Q|CD53_uc010owa.1_Intron|CD53_uc001dzy.2_Intron	NM_001040033	NP_001035122	P19397	CD53_HUMAN	CD53 antigen	165	Extracellular (Potential).				signal transduction	integral to membrane|plasma membrane					0		all_cancers(81;1.06e-05)|all_epithelial(167;1.95e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0264)|Colorectal(144;0.0375)|all cancers(265;0.11)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.141)|LUSC - Lung squamous cell carcinoma(189;0.144)		CCCTCAGATCGAAAAGTGGAG	0.443													22	50	---	---	---	---	PASS	A	111439345	A	A	111439345	3	1	4	1	0	0	0	0	1	0	0	0	3023	1058	37	2	512	2	CD53	1	111439345	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	721772	111439345	137811276	157	748										
CD53	963	broad.mit.edu	37	chr1	111440442	111440442	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcttctagggttgctatgcGaaagcaagactgtggtttca	12	7	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:111440442G>A	uc001dzw.2	+	8	687	c.516G>A	c.(514-516)GCG>GCA	p.A172A	CD53_uc001dzx.2_Silent_p.A172A|CD53_uc010owa.1_Silent_p.A113A|CD53_uc001dzy.2_Intron	NM_001040033	NP_001035122	P19397	CD53_HUMAN	CD53 antigen	172	Extracellular (Potential).				signal transduction	integral to membrane|plasma membrane					0		all_cancers(81;1.06e-05)|all_epithelial(167;1.95e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0264)|Colorectal(144;0.0375)|all cancers(265;0.11)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.141)|LUSC - Lung squamous cell carcinoma(189;0.144)		GTTGCTATGCGAAAGCAAGAC	0.328													15	35	---	---	---	---	PASS	A	111440442	A	A	111440442	2	1	4	1	0	0	0	0	0	0	0	1	3023	1045	37	2		2	CD53	1	111440442	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1097	111440442	137810179	158	749										
C1orf103	55791	broad.mit.edu	37	chr1	111490704	111490704	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aactccggtggtgtcactggGaaaatatcttcggtataatt	10	7	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:111490704G>A	uc001eaa.2	-	4	2443	c.2187C>T	c.(2185-2187)TTC>TTT	p.F729F	C1orf103_uc001dzz.2_Silent_p.F193F|C1orf103_uc001eab.2_Silent_p.F193F|C1orf103_uc001eac.1_Silent_p.F192F	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	729					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		GTGTCACTGGGAAAATATCTT	0.368													18	62	---	---	---	---	PASS	A	111490704	A	A	111490704	2	1	4	1	0	0	0	0	0	0	0	1	1977	1165	41	2		2	C1orf103	1	111490704	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	50262	111490704	137759917	159	750										
CHIA	27159	broad.mit.edu	37	chr1	111860303	111860303	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatgccttattattctgtagGaaatgcgtgaagcttttgag	10	5	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:111860303G>A	uc001eas.2	+	7	584	c.481G>A	c.(481-483)GAA>AAA	p.E161K	CHIA_uc001ear.2_Missense_Mutation_p.E53K|CHIA_uc001eaq.2_Missense_Mutation_p.E53K|CHIA_uc009wgc.2_Missense_Mutation_p.E53K|CHIA_uc001eat.2_5'UTR|CHIA_uc001eav.2_5'UTR|CHIA_uc001eau.2_5'UTR|CHIA_uc009wgd.2_5'UTR	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	161					apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		TATTCTGTAGGAAATGCGTGA	0.358													10	45	---	---	---	---	PASS	A	111860303	A	A	111860303	3	1	4	1	0	0	0	0	1	0	0	0	3342	1188	41	2	503	2	CHIA	1	111860303	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	369599	111860303	137390318	160	751										
MOV10	4343	broad.mit.edu	37	chr1	113238187	113238187	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacatccgcatggtacctgaGgacatcaaggtactagggaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:113238187G>A	uc001eck.2	+	11	2040	c.1770G>A	c.(1768-1770)GAG>GAA	p.E590E	MOV10_uc001ecl.2_Intron|MOV10_uc001ecn.2_Silent_p.E590E|MOV10_uc001ecm.2_Silent_p.E530E|MOV10_uc009wgj.1_Silent_p.E530E	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	590					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		TGGTACCTGAGGACATCAAGG	0.542													12	17	---	---	---	---	PASS	A	113238187	A	A	113238187	2	1	4	1	0	0	0	0	0	0	0	1	9718	991	35	3		3	MOV10	1	113238187	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1377884	113238187	136012434	161	752	10	2								
MOV10	4343	broad.mit.edu	37	chr1	113238188	113238188	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatccgcatggtacctgagGacatcaaggtactagggaag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:113238188G>A	uc001eck.2	+	11	2041	c.1771G>A	c.(1771-1773)GAC>AAC	p.D591N	MOV10_uc001ecl.2_Intron|MOV10_uc001ecn.2_Missense_Mutation_p.D591N|MOV10_uc001ecm.2_Missense_Mutation_p.D531N|MOV10_uc009wgj.1_Missense_Mutation_p.D531N	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	591					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		GGTACCTGAGGACATCAAGGT	0.542													12	17	---	---	---	---	PASS	A	113238188	A	A	113238188	3	1	4	1	0	0	0	0	1	0	0	0	9718	1174	41	2	1809	2	MOV10	1	113238188	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	113238188	136012433	162	753	10	2								
DCLRE1B	64858	broad.mit.edu	37	chr1	114454061	114454061	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attcctcttactccgagcttCgtgcctttgtcgcagcactg	8	14	1	0	rs145569979	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:114454061C>T	uc001eeg.2	+	4	1018	c.847C>T	c.(847-849)CGT>TGT	p.R283C	DCLRE1B_uc001eeh.2_Missense_Mutation_p.R157C|DCLRE1B_uc001eei.2_Missense_Mutation_p.R157C	NM_022836	NP_073747	Q9H816	DCR1B_HUMAN	DNA cross-link repair 1B (PSO2 homolog, S.	283					cell cycle checkpoint|DNA repair|protection from non-homologous end joining at telomere|telomeric 3' overhang formation|telomeric loop formation	centrosome|chromosome, telomeric region|nucleus	5'-3' exonuclease activity|protein binding				0	Lung SC(450;0.184)	all_cancers(81;1.46e-05)|all_epithelial(167;2.42e-05)|all_lung(203;0.000353)|Lung NSC(69;0.000518)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTCCGAGCTTCGTGCCTTTGT	0.562								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					16	50	---	---	---	---	PASS	T	114454061	T	T	114454061	3	4	4	1	0	0	0	0	1	0	0	0	4295	884	31	2	861	2	DCLRE1B	1	114454061	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1215873	114454061	134796560	163	754										
HIPK1	204851	broad.mit.edu	37	chr1	114515898	114515898	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagctccattgctcatcttTtctccccacagggttcctca	5	17	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:114515898T>A	uc001eem.2	+	16	3558	c.3397T>A	c.(3397-3399)TTC>ATC	p.F1133I	HIPK1_uc001een.2_Missense_Mutation_p.F1133I|HIPK1_uc001eeo.2_Missense_Mutation_p.F759I|HIPK1_uc001eep.2_Missense_Mutation_p.F739I|HIPK1_uc001eeq.2_Missense_Mutation_p.F425I	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	1133					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGCTCATCTTTTCTCCCCACA	0.597													46	72	---	---	---	---	PASS	A	114515898	A	A	114515898	3	1	4	1	0	0	0	0	1	0	0	0	7116	1841	64	5	3557	5	HIPK1	1	114515898	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	61837	114515898	134734723	164	755										
DENND2C	163259	broad.mit.edu	37	chr1	115137115	115137115	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtgaaaaattctgctcctGagtcaagatttcatttcgtt	7	7	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:115137115G>A	uc001efd.1	-	18	3112	c.2410C>T	c.(2410-2412)CAG>TAG	p.Q804*	DENND2C_uc001eez.2_RNA|DENND2C_uc001efc.1_Nonsense_Mutation_p.Q747*	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	804										skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTCTGCTCCTGAGTCAAGATT	0.373													17	48	---	---	---	---	PASS	A	115137115	A	A	115137115	4	1	4	1	0	0	0	0	0	1	0	0	4430	1299	45	2	392	2	DENND2C	1	115137115	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	621217	115137115	134113506	165	756										
VANGL1	81839	broad.mit.edu	37	chr1	116226635	116226635	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctcggcgcagggactcaagCcacaacgagttgtattatga	12	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:116226635C>T	uc001efv.1	+	6	1288	c.1017C>T	c.(1015-1017)AGC>AGT	p.S339S	VANGL1_uc009wgy.1_Silent_p.S337S	NM_138959	NP_620409	Q8TAA9	VANG1_HUMAN	vang-like 1	339	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane	protein binding			central_nervous_system(1)	1	Lung SC(450;0.211)	all_cancers(81;1.24e-06)|all_epithelial(167;1.02e-06)|all_lung(203;7.95e-06)|Lung NSC(69;4.97e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		GGGACTCAAGCCACAACGAGT	0.537													16	22	---	---	---	---	PASS	T	116226635	T	T	116226635	2	4	4	1	0	0	0	0	0	0	0	1	17116	738	26	3		3	VANGL1	1	116226635	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1089520	116226635	133023986	166	757										
TRIM45	80263	broad.mit.edu	37	chr1	117663382	117663382	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggttggctttgcaggtctGacacctcttctctacttccc	9	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:117663382G>T	uc001egz.2	-	1	1030	c.442C>A	c.(442-444)CAG>AAG	p.Q148K	TRIM45_uc009whe.2_Missense_Mutation_p.Q148K|TRIM45_uc001eha.2_Missense_Mutation_p.Q44K	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	148	B box-type 1.					cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		TTGCAGGTCTGACACCTCTTC	0.547													8	31	---	---	---	---	PASS	T	117663382	T	T	117663382	3	4	4	1	0	0	0	0	1	0	0	0	16517	1299	45	2	1324	2	TRIM45	1	117663382	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1436747	117663382	131587239	167	758										
WDR3	10885	broad.mit.edu	37	chr1	118483498	118483498	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaaatcaaaggatcttctCctggaatacaagatactctt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:118483498C>T	uc010oxe.1	+	7	790	c.724C>T	c.(724-726)CCT>TCT	p.P242S	WDR3_uc001ehi.2_Intron|WDR3_uc001ehh.2_Missense_Mutation_p.P71S	NM_006784	NP_006775	Q9UNX4	WDR3_HUMAN	WD repeat-containing protein 3	242						nuclear membrane|nucleolus				upper_aerodigestive_tract(1)	1	Esophageal squamous(2;0.162)	all_cancers(81;2.72e-05)|Acute lymphoblastic leukemia(138;1e-08)|all_epithelial(167;4.4e-07)|all_lung(203;1.7e-06)|Lung NSC(69;1.98e-05)|Prostate(1639;0.00955)|Breast(1374;0.244)		OV - Ovarian serous cystadenocarcinoma(397;1.39e-08)|Epithelial(280;1.82e-07)|all cancers(265;2.04e-05)|Lung(183;0.0525)|BRCA - Breast invasive adenocarcinoma(282;0.0695)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.185)		AGGATCTTCTCCTGGAATACA	0.388													52	113	---	---	---	---	PASS	T	118483498	T	T	118483498	3	4	4	1	0	0	0	0	1	0	0	0	17282	855	30	2	746	2	WDR3	1	118483498	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	820116	118483498	130767123	168	759	11	2								
WDR3	10885	broad.mit.edu	37	chr1	118483499	118483499	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaaatcaaaggatcttctcCtggaatacaagatactcttg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:118483499C>T	uc010oxe.1	+	7	791	c.725C>T	c.(724-726)CCT>CTT	p.P242L	WDR3_uc001ehi.2_Intron|WDR3_uc001ehh.2_Missense_Mutation_p.P71L	NM_006784	NP_006775	Q9UNX4	WDR3_HUMAN	WD repeat-containing protein 3	242						nuclear membrane|nucleolus				upper_aerodigestive_tract(1)	1	Esophageal squamous(2;0.162)	all_cancers(81;2.72e-05)|Acute lymphoblastic leukemia(138;1e-08)|all_epithelial(167;4.4e-07)|all_lung(203;1.7e-06)|Lung NSC(69;1.98e-05)|Prostate(1639;0.00955)|Breast(1374;0.244)		OV - Ovarian serous cystadenocarcinoma(397;1.39e-08)|Epithelial(280;1.82e-07)|all cancers(265;2.04e-05)|Lung(183;0.0525)|BRCA - Breast invasive adenocarcinoma(282;0.0695)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.185)		GGATCTTCTCCTGGAATACAA	0.388													50	114	---	---	---	---	PASS	T	118483499	T	T	118483499	3	4	4	1	0	0	0	0	1	0	0	0	17282	681	24	3	747	3	WDR3	1	118483499	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	118483499	130767122	169	760	11	2								
SPAG17	200162	broad.mit.edu	37	chr1	118538995	118538995	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagtatgggtcctctacctGgctgttcctgcactggctct	10	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:118538995G>A	uc001ehk.2	-	34	5119	c.5051C>T	c.(5050-5052)CCA>CTA	p.P1684L		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1684						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TCCTCTACCTGGCTGTTCCTG	0.428													26	74	---	---	---	---	PASS	A	118538995	A	A	118538995	3	1	4	1	0	0	0	0	1	0	0	0	14979	1348	47	3	1680	3	SPAG17	1	118538995	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	55496	118538995	130711626	170	761										
SPAG17	200162	broad.mit.edu	37	chr1	118548057	118548057	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaaaagtgtttccctcagGatccagaacctcacagataa	7	11	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:118548057G>A	uc001ehk.2	-	32	4824	c.4756C>T	c.(4756-4758)CCT>TCT	p.P1586S		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1586						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TTTCCCTCAGGATCCAGAACC	0.438													32	57	---	---	---	---	PASS	A	118548057	A	A	118548057	3	1	4	1	0	0	0	0	1	0	0	0	14979	1174	41	2	1983	2	SPAG17	1	118548057	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	9062	118548057	130702564	171	762										
SPAG17	200162	broad.mit.edu	37	chr1	118574470	118574470	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggatattcaatattgtttCtaaatcaggatccttatctt	6	6	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:118574470C>T	uc001ehk.2	-	25	3522	c.3454G>A	c.(3454-3456)GAA>AAA	p.E1152K		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1152						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		AATATTGTTTCTAAATCAGGA	0.328													9	44	---	---	---	---	PASS	T	118574470	T	T	118574470	3	4	4	1	0	0	0	0	1	0	0	0	14979	922	32	2	3313	2	SPAG17	1	118574470	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	26413	118574470	130676151	172	763										
SPAG17	200162	broad.mit.edu	37	chr1	118581951	118581951	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcctcatctccttcttcttCctcttctaaataataatccc	0	15	6	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:118581951C>T	uc001ehk.2	-	23	3351	c.3283G>A	c.(3283-3285)GAA>AAA	p.E1095K		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1095						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		CCTTCTTCTTCCTCTTCTAAA	0.388													15	27	---	---	---	---	PASS	T	118581951	T	T	118581951	3	4	4	1	0	0	0	0	1	0	0	0	14979	864	30	2	3492	2	SPAG17	1	118581951	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	7481	118581951	130668670	173	764										
HSD3B1	3283	broad.mit.edu	37	chr1	120056657	120056657	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggctgtactggcggctaacGggtggaatctgaaaaacggc	15	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:120056657G>A	uc001ehv.1	+	4	656	c.511G>A	c.(511-513)GGG>AGG	p.G171R	HSD3B1_uc001ehw.2_Missense_Mutation_p.G173R	NM_000862	NP_000853	P14060	3BHS1_HUMAN	3 beta-hydroxysteroid dehydrogenase 1	171					androgen biosynthetic process|estrogen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.219)	all_lung(203;3.16e-06)|Lung NSC(69;2.19e-05)|all_epithelial(167;0.000624)		Lung(183;0.0106)|LUSC - Lung squamous cell carcinoma(189;0.0554)	NADH(DB00157)|Trilostane(DB01108)	GGCGGCTAACGGGTGGAATCT	0.507													36	42	---	---	---	---	PASS	A	120056657	A	A	120056657	3	1	4	1	0	0	0	0	1	0	0	0	7390	1116	39	1	521	1	HSD3B1	1	120056657	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1474706	120056657	129193964	174	765										
ADAM30	11085	broad.mit.edu	37	chr1	120437686	120437686	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacaatttgattggcaacacCgatctttctgacactcctct	5	12	3	2	rs145317971		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:120437686C>T	uc001eij.2	-	1	1428	c.1274G>A	c.(1273-1275)CGG>CAG	p.R425Q		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	425	Disintegrin.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		TTGGCAACACCGATCTTTCTG	0.453													19	86	---	---	---	---	PASS	T	120437686	T	T	120437686	3	4	4	1	0	0	0	0	1	0	0	0	248	652	23	1	1102	1	ADAM30	1	120437686	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	381029	120437686	128812935	175	766										
NOTCH2	4853	broad.mit.edu	37	chr1	120510184	120510184	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cataacccttcagacactcaCagtggaaggcgccatccgtg	9	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:120510184C>G	uc001eik.2	-	8	1581	c.1325G>C	c.(1324-1326)TGT>TCT	p.C442S	NOTCH2_uc001eil.2_Missense_Mutation_p.C442S|NOTCH2_uc001eim.3_Missense_Mutation_p.C359S	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	442	Extracellular (Potential).|EGF-like 11; calcium-binding (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		CAGACACTCACAGTGGAAGGC	0.473			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				19	55	---	---	---	---	PASS	G	120510184	G	G	120510184	3	3	4	1	0	0	0	0	1	0	0	0	10548	478	17	4	6198	4	NOTCH2	1	120510184	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	72498	120510184	128740437	176	767										
PDE4DIP	9659	broad.mit.edu	37	chr1	144952248	144952248	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattggtcgggcttgacctgGtctcctggtacatcttccca	10	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:144952248G>A	uc001elw.3	-	4	762	c.471C>T	c.(469-471)GAC>GAT	p.D157D	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Silent_p.D223D|PDE4DIP_uc001emc.1_Silent_p.D157D|PDE4DIP_uc001emd.1_Silent_p.D157D|PDE4DIP_uc001emg.1_Silent_p.D157D|PDE4DIP_uc001emh.2_Silent_p.D294D	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	157					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GCTTGACCTGGTCTCCTGGTA	0.547			T	PDGFRB	MPD								4	63	---	---	---	---	PASS	A	144952248	A	A	144952248	2	1	4	1	0	0	0	0	0	0	0	1	11643	1252	44	3		3	PDE4DIP	1	144952248	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	24442064	144952248	104298373	177	768										
HFE2	148738	broad.mit.edu	37	chr1	145416841	145416841	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagacttagagaagctgcatCtcttcccctcagatgctggg	10	12	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:145416841C>T	uc001eni.2	+	4	1511	c.1186C>T	c.(1186-1188)CTC>TTC	p.L396F	NBPF10_uc001emp.3_Intron|HFE2_uc001enj.2_Missense_Mutation_p.L170F|HFE2_uc001enk.2_Missense_Mutation_p.L283F|HFE2_uc001enl.2_Missense_Mutation_p.L170F	NM_213653	NP_998818	Q6ZVN8	RGMC_HUMAN	hemojuvelin isoform a precursor	396					axon guidance	anchored to membrane				ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GAAGCTGCATCTCTTCCCCTC	0.517													16	24	---	---	---	---	PASS	T	145416841	T	T	145416841	3	4	4	1	0	0	0	0	1	0	0	0	7082	913	32	2	1196	2	HFE2	1	145416841	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	464593	145416841	103833780	178	769										
PIAS3	10401	broad.mit.edu	37	chr1	145579331	145579331	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggaaactgtgccccctgcCggtaaatgctctccccttct	9	15	2	0	rs140039049		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:145579331C>T	uc001eoc.1	+	5	759	c.668C>T	c.(667-669)CCG>CTG	p.P223L	NBPF10_uc001emp.3_Intron|PIAS3_uc010oyy.1_Missense_Mutation_p.P214L|PIAS3_uc001eod.1_5'Flank	NM_006099	NP_006090	Q9Y6X2	PIAS3_HUMAN	protein inhibitor of activated STAT, 3	223	PINIT.				positive regulation of protein sumoylation|protein sumoylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	enzyme binding|nucleic acid binding|protein C-terminus binding|zinc ion binding			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TGCCCCCTGCCGGTAAATGCT	0.428													18	65	---	---	---	---	PASS	T	145579331	T	T	145579331	3	4	4	1	0	0	0	0	1	0	0	0	11877	666	23	1	686	1	PIAS3	1	145579331	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	162490	145579331	103671290	179	770										
FMO5	2330	broad.mit.edu	37	chr1	146658808	146658808	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctccctgaatggtatggcGttggctctccacatacctaa	9	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:146658808G>T	uc001epi.2	-	9	1662	c.1273C>A	c.(1273-1275)CGC>AGC	p.R425S	FMO5_uc001eph.3_Intron|FMO5_uc001epj.2_3'UTR	NM_001461	NP_001452	P49326	FMO5_HUMAN	flavin containing monooxygenase 5 isoform 1	425						integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			ovary(3)	3	all_hematologic(923;0.0487)					ATGGTATGGCGTTGGCTCTCC	0.378													7	23	---	---	---	---	PASS	T	146658808	T	T	146658808	3	4	4	1	0	0	0	0	1	0	0	0	5958	1145	40	1	475	1	FMO5	1	146658808	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1079477	146658808	102591813	180	771										
CHD1L	9557	broad.mit.edu	37	chr1	146757105	146757105	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agacaagaagcagctgccaaGagaaggagactcatagagga	13	7	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:146757105G>A	uc001epm.3	+	17	2022	c.1959G>A	c.(1957-1959)AAG>AAA	p.K653K	uc001epp.2_Intron|CHD1L_uc001epn.3_Silent_p.K540K|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Silent_p.K559K|CHD1L_uc010ozp.1_Silent_p.K372K|CHD1L_uc001epo.3_Silent_p.K449K|CHD1L_uc010ozq.1_Silent_p.K226K|CHD1L_uc009wji.2_Silent_p.K372K	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	653	Potential.				chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)					CAGCTGCCAAGAGAAGGAGAC	0.493													37	132	---	---	---	---	PASS	A	146757105	A	A	146757105	2	1	4	1	0	0	0	0	0	0	0	1	3324	933	33	2		2	CHD1L	1	146757105	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	98297	146757105	102493516	181	772										
GJA8	2703	broad.mit.edu	37	chr1	147380281	147380281	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgcgagaacgtctgctacGacgaggcctttcccatctcc	10	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:147380281G>A	uc001epu.1	+	2	262	c.199G>A	c.(199-201)GAC>AAC	p.D67N		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	67	Extracellular (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					CGTCTGCTACGACGAGGCCTT	0.612													29	43	---	---	---	---	PASS	A	147380281	A	A	147380281	3	1	4	1	0	0	0	0	1	0	0	0	6405	1058	37	2	201	2	GJA8	1	147380281	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	623176	147380281	101870340	182	773										
SV2A	9900	broad.mit.edu	37	chr1	149884930	149884930	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggccacactcccgtaggaTggcttcatactgttgggcca	12	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:149884930T>G	uc001etg.2	-	2	954	c.463A>C	c.(463-465)ATC>CTC	p.I155L	SV2A_uc001eth.2_Missense_Mutation_p.I155L	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	155	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	TCCCGTAGGATGGCTTCATAC	0.607													16	19	---	---	---	---	PASS	G	149884930	G	G	149884930	3	3	4	1	0	0	0	0	1	0	0	0	15414	1464	51	5	1813	5	SV2A	1	149884930	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	2504649	149884930	99365691	183	774										
MTMR11	10903	broad.mit.edu	37	chr1	149902774	149902774	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgtcatgaagagcaagaagGaaaaactcagagaattcaaa	9	6	3	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:149902774G>A	uc001etl.3	-	14	1625	c.1374C>T	c.(1372-1374)TTC>TTT	p.F458F	SF3B4_uc001etk.1_5'Flank|SF3B4_uc009wll.1_5'Flank|MTMR11_uc001etm.1_Silent_p.F386F|MTMR11_uc010pbm.1_3'UTR|MTMR11_uc010pbn.1_3'UTR	NM_001145862	NP_001139334	A4FU01	MTMRB_HUMAN	myotubularin related protein 11 isoform a	458	Myotubularin phosphatase.						phosphatase activity			central_nervous_system(1)	1	Breast(34;0.0009)|Ovarian(49;0.0377)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			GAGCAAGAAGGAAAAACTCAG	0.493													16	15	---	---	---	---	PASS	A	149902774	A	A	149902774	2	1	4	1	0	0	0	0	0	0	0	1	9940	1165	41	2		2	MTMR11	1	149902774	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	17844	149902774	99347847	184	775										
ARNT	405	broad.mit.edu	37	chr1	150784532	150784532	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggaaacatagttagatcagGgaattcttcattgttgtagc	11	5	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:150784532G>A	uc001evr.1	-	22	2478	c.2335C>T	c.(2335-2337)CCT>TCT	p.P779S	ARNT_uc010pck.1_Missense_Mutation_p.P267S|ARNT_uc001evs.1_Missense_Mutation_p.P764S|ARNT_uc009wmb.1_Missense_Mutation_p.P765S|ARNT_uc009wmc.1_Missense_Mutation_p.P777S|ARNT_uc009wmd.1_Missense_Mutation_p.P763S	NM_001668	NP_001659	P27540	ARNT_HUMAN	aryl hydrocarbon receptor nuclear translocator	779					positive regulation of hormone biosynthetic process|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hypoxia		aryl hydrocarbon receptor binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity			skin(4)|lung(3)|central_nervous_system(1)|kidney(1)	9	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.02)|BRCA - Breast invasive adenocarcinoma(12;0.00606)|LUSC - Lung squamous cell carcinoma(543;0.211)			GTTAGATCAGGGAATTCTTCA	0.403			T	ETV6	AML								13	35	---	---	---	---	PASS	A	150784532	A	A	150784532	3	1	4	1	0	0	0	0	1	0	0	0	965	1232	43	3	38	3	ARNT	1	150784532	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	881758	150784532	98466089	185	776										
ARNT	405	broad.mit.edu	37	chr1	150790443	150790443	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccaggggtaaattagctgtGggacctagttgtggcctctg	14	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:150790443G>A	uc001evr.1	-	15	1601	c.1458C>T	c.(1456-1458)CCC>CCT	p.P486P	ARNT_uc010pck.1_5'Flank|ARNT_uc001evs.1_Silent_p.P471P|ARNT_uc009wmb.1_Silent_p.P472P|ARNT_uc009wmc.1_Silent_p.P486P|ARNT_uc009wmd.1_Silent_p.P471P|ARNT_uc009wme.1_3'UTR	NM_001668	NP_001659	P27540	ARNT_HUMAN	aryl hydrocarbon receptor nuclear translocator	486					positive regulation of hormone biosynthetic process|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hypoxia		aryl hydrocarbon receptor binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity			skin(4)|lung(3)|central_nervous_system(1)|kidney(1)	9	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.02)|BRCA - Breast invasive adenocarcinoma(12;0.00606)|LUSC - Lung squamous cell carcinoma(543;0.211)			AATTAGCTGTGGGACCTAGTT	0.522			T	ETV6	AML								6	13	---	---	---	---	PASS	A	150790443	A	A	150790443	2	1	4	1	0	0	0	0	0	0	0	1	965	1335	47	3		3	ARNT	1	150790443	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	5911	150790443	98460178	186	777										
ANXA9	8416	broad.mit.edu	37	chr1	150958867	150958867	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagaccagtggcatcttgcaGgacctgctgttggccctggc	14	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:150958867G>A	uc001ewa.2	+	8	998	c.528G>A	c.(526-528)CAG>CAA	p.Q176Q		NM_003568	NP_003559	O76027	ANXA9_HUMAN	annexin A9	176	Annexin 2.				cell-cell adhesion	cell surface|cytosol	acetylcholine receptor activity|calcium ion binding|calcium-dependent phospholipid binding|phosphatidylserine binding|protein homodimerization activity				0	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GCATCTTGCAGGACCTGCTGT	0.572													18	13	---	---	---	---	PASS	A	150958867	A	A	150958867	2	1	4	1	0	0	0	0	0	0	0	1	725	991	35	3		3	ANXA9	1	150958867	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	168424	150958867	98291754	187	778										
FAM63A	55793	broad.mit.edu	37	chr1	150971880	150971880	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgctaaagtggttgtttcGgaaaaagacgctaagttcac	12	6	1	1	rs150431391		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:150971880G>A	uc001ewf.2	-	8	2630	c.946C>T	c.(946-948)CGA>TGA	p.R316*	FAM63A_uc001ewc.2_Nonsense_Mutation_p.R174*|FAM63A_uc010pcm.1_Nonsense_Mutation_p.R221*|FAM63A_uc001ewd.2_Nonsense_Mutation_p.R174*|FAM63A_uc001ewe.2_Nonsense_Mutation_p.R150*|FAM63A_uc010pcn.1_Nonsense_Mutation_p.R364*|FAM63A_uc001ewg.2_Nonsense_Mutation_p.R316*	NM_018379	NP_001156731	Q8N5J2	FA63A_HUMAN	hypothetical protein LOC55793 isoform 1	316							protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			TGGTTGTTTCGGAAAAAGACG	0.547													53	101	---	---	---	---	PASS	A	150971880	A	A	150971880	4	1	4	1	0	0	0	0	0	1	0	0	5596	1124	39	1	479	1	FAM63A	1	150971880	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	13013	150971880	98278741	188	779										
FAM63A	55793	broad.mit.edu	37	chr1	150971965	150971965	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctgggccgcggtggtctcCaggaactgctctgcaatcag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:150971965C>T	uc001ewf.2	-	8	2545	c.861G>A	c.(859-861)CTG>CTA	p.L287L	FAM63A_uc001ewc.2_Silent_p.L145L|FAM63A_uc010pcm.1_Silent_p.L192L|FAM63A_uc001ewd.2_Silent_p.L145L|FAM63A_uc001ewe.2_Silent_p.L121L|FAM63A_uc010pcn.1_Silent_p.L335L|FAM63A_uc001ewg.2_Silent_p.L287L	NM_018379	NP_001156731	Q8N5J2	FA63A_HUMAN	hypothetical protein LOC55793 isoform 1	287				L -> P (in Ref. 2; BAA92104).			protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CGGTGGTCTCCAGGAACTGCT	0.552													47	62	---	---	---	---	PASS	T	150971965	T	T	150971965	2	4	4	1	0	0	0	0	0	0	0	1	5596	581	21	3		3	FAM63A	1	150971965	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	85	150971965	98278656	189	780	12	2								
FAM63A	55793	broad.mit.edu	37	chr1	150971968	150971968	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggccgcggtggtctccagGaactgctctgcaatcaggcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:150971968G>A	uc001ewf.2	-	8	2542	c.858C>T	c.(856-858)TTC>TTT	p.F286F	FAM63A_uc001ewc.2_Silent_p.F144F|FAM63A_uc010pcm.1_Silent_p.F191F|FAM63A_uc001ewd.2_Silent_p.F144F|FAM63A_uc001ewe.2_Silent_p.F120F|FAM63A_uc010pcn.1_Silent_p.F334F|FAM63A_uc001ewg.2_Silent_p.F286F	NM_018379	NP_001156731	Q8N5J2	FA63A_HUMAN	hypothetical protein LOC55793 isoform 1	286							protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			TGGTCTCCAGGAACTGCTCTG	0.557													19	89	---	---	---	---	PASS	A	150971968	A	A	150971968	2	1	4	1	0	0	0	0	0	0	0	1	5596	1165	41	2		2	FAM63A	1	150971968	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	3	150971968	98278653	190	781	12	2								
BNIPL	149428	broad.mit.edu	37	chr1	151015542	151015542	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacatcactggagggtgttcCgaatgggaccacgggagcag	16	9	1	0	rs141131792		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:151015542C>T	uc001ewl.2	+	5	717	c.544C>T	c.(544-546)CGA>TGA	p.R182*	BNIPL_uc009wmi.2_Nonsense_Mutation_p.R100*|BNIPL_uc009wmj.2_RNA	NM_138278	NP_612122	Q7Z465	BNIPL_HUMAN	BCL2/adenovirus E1B 19kD interacting protein	182					apoptosis|induction of apoptosis|negative regulation of cell proliferation|regulation of growth rate	cytosol|nucleus	identical protein binding				0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GAGGGTGTTCCGAATGGGACC	0.542													12	33	---	---	---	---	PASS	T	151015542	T	T	151015542	4	4	4	1	0	0	0	0	0	1	0	0	1480	644	23	1	562	1	BNIPL	1	151015542	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	43574	151015542	98235079	191	782										
SCNM1	79005	broad.mit.edu	37	chr1	151141495	151141495	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagatggacgaggtcgatgGgtaaaagatgaaaatgttga	14	4	0	4	rs139584849	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:151141495G>T	uc001ewz.2	+	7	739	c.627G>T	c.(625-627)TGG>TGT	p.W209C	SCNM1_uc009wmn.2_RNA	NM_024041	NP_076946	Q9BWG6	SCNM1_HUMAN	sodium channel modifier 1	209					mRNA processing|RNA splicing	nucleus	metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|skin(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GAGGTCGATGGGTAAAAGATG	0.393													5	78	---	---	---	---	PASS	T	151141495	T	T	151141495	3	4	4	1	0	0	0	0	1	0	0	0	13926	1241	43	3	653	3	SCNM1	1	151141495	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	125953	151141495	98109126	192	783										
PIP5K1A	8394	broad.mit.edu	37	chr1	151209235	151209235	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggtaccatggagactgatGaccagtaagtgggctcaggg	16	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:151209235G>A	uc001exj.2	+	9	1593	c.1141G>A	c.(1141-1143)GAC>AAC	p.D381N	PIP5K1A_uc001exi.2_Missense_Mutation_p.D368N|PIP5K1A_uc010pcu.1_Missense_Mutation_p.D369N|PIP5K1A_uc001exk.2_Missense_Mutation_p.D368N|PIP5K1A_uc010pcv.1_Missense_Mutation_p.D138N	NM_001135638	NP_001129110	Q99755	PI51A_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	381	PIPK.				phospholipid biosynthetic process|signal transduction	endomembrane system|Golgi stack|lamellipodium|nuclear speck	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|kinase binding			ovary(1)|central_nervous_system(1)|skin(1)	3	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.181)			GGAGACTGATGACCAGTAAGT	0.443													5	15	---	---	---	---	PASS	A	151209235	A	A	151209235	3	1	4	1	0	0	0	0	1	0	0	0	11939	1290	45	2	1175	2	PIP5K1A	1	151209235	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	67740	151209235	98041386	193	784										
PI4KB	5298	broad.mit.edu	37	chr1	151278830	151278830	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggacttccacataaatcaGgtagggagcctgggggaaga	14	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:151278830G>A	uc001ext.2	-	5	1607	c.1192C>T	c.(1192-1194)CTG>TTG	p.L398L	PI4KB_uc001exr.2_Silent_p.L410L|PI4KB_uc001exs.2_Silent_p.L383L|PI4KB_uc001exu.2_Silent_p.L383L|PI4KB_uc010pcw.1_Silent_p.L66L	NM_002651	NP_002642	Q9UBF8	PI4KB_HUMAN	catalytic phosphatidylinositol 4-kinase beta	398					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|receptor-mediated endocytosis	endosome|Golgi apparatus|mitochondrial outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum membrane	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			ovary(2)|skin(2)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			ACATAAATCAGGTAGGGAGCC	0.493													5	21	---	---	---	---	PASS	A	151278830	A	A	151278830	2	1	4	1	0	0	0	0	0	0	0	1	11874	991	35	3		3	PI4KB	1	151278830	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	69595	151278830	97971791	194	785										
TUFT1	7286	broad.mit.edu	37	chr1	151553518	151553518	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caagacagagaacccgggcaGgtgagtgagcgtgtgtagat	16	7	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:151553518G>T	uc001eyl.2	+	12	1171	c.1109G>T	c.(1108-1110)AGT>ATT	p.S370I	TUFT1_uc001eym.2_Missense_Mutation_p.S345I|TUFT1_uc010pdf.1_Missense_Mutation_p.S389I|TUFT1_uc010pdg.1_Missense_Mutation_p.S318I	NM_020127	NP_064512	Q9NNX1	TUFT1_HUMAN	tuftelin 1 isoform 1	370					bone mineralization|odontogenesis	cytoplasm|extracellular region	structural constituent of tooth enamel				0	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			AACCCGGGCAGGTGAGTGAGC	0.527													4	31	---	---	---	---	PASS	T	151553518	T	T	151553518	3	4	4	1	0	0	0	0	1	0	0	0	16769	1014	35	3	1155	3	TUFT1	1	151553518	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	274688	151553518	97697103	195	786										
CELF3	11189	broad.mit.edu	37	chr1	151677575	151677575	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggactttgaggcgcttcatgCcgatctggaagccattcatg	12	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:151677575C>T	uc001eys.1	-	12	2134	c.1340G>A	c.(1339-1341)GGC>GAC	p.G447D	CELF3_uc010pdh.1_Missense_Mutation_p.G233D|CELF3_uc001eyr.2_Missense_Mutation_p.G446D|CELF3_uc009wmy.2_Missense_Mutation_p.G397D|CELF3_uc009wmx.1_Missense_Mutation_p.G446D	NM_007185	NP_009116	Q5SZQ8	CELF3_HUMAN	trinucleotide repeat containing 4	447	RRM 3.				nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	mRNA binding|nucleotide binding			ovary(1)|central_nervous_system(1)	2						GCGCTTCATGCCGATCTGGAA	0.642													11	20	---	---	---	---	PASS	T	151677575	T	T	151677575	3	4	4	1	0	0	0	0	1	0	0	0	3217	739	26	3	61	3	CELF3	1	151677575	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	124057	151677575	97573046	196	787										
TCHHL1	126637	broad.mit.edu	37	chr1	152058447	152058447	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccttgactctgggagtcccCttgcacaggcagttcacctg	10	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:152058447C>T	uc001ezo.1	-	3	1776	c.1711G>A	c.(1711-1713)GGG>AGG	p.G571R		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	571							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			TGGGAGTCCCCTTGCACAGGC	0.522													22	59	---	---	---	---	PASS	T	152058447	T	T	152058447	3	4	4	1	0	0	0	0	1	0	0	0	15698	681	24	3	1007	3	TCHHL1	1	152058447	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	380872	152058447	97192174	197	788										
TCHHL1	126637	broad.mit.edu	37	chr1	152058776	152058776	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttctcctgagactgctgttCcttcaagttcagggtgagtc	10	11	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:152058776C>T	uc001ezo.1	-	3	1447	c.1382G>A	c.(1381-1383)GGA>GAA	p.G461E		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	461							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			GACTGCTGTTCCTTCAAGTTC	0.458													21	73	---	---	---	---	PASS	T	152058776	T	T	152058776	3	4	4	1	0	0	0	0	1	0	0	0	15698	855	30	2	1336	2	TCHHL1	1	152058776	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	329	152058776	97191845	198	789										
HRNR	388697	broad.mit.edu	37	chr1	152188180	152188180	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gactcatatgggccacggctGgaagaccaccctgagccaga	12	13	1	3	rs148177357		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:152188180G>A	uc001ezt.1	-	3	6001	c.5925C>T	c.(5923-5925)TCC>TCT	p.S1975S		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1975	22.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGCCACGGCTGGAAGACCACC	0.597													20	498	---	---	---	---	PASS	A	152188180	A	A	152188180	2	1	4	1	0	0	0	0	0	0	0	1	7359	1335	47	3		3	HRNR	1	152188180	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	129404	152188180	97062441	199	790										
FLG	2312	broad.mit.edu	37	chr1	152276621	152276621	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accggctctgtcttcgtgatGggacgtggggtgtctggagc	17	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:152276621G>A	uc001ezu.1	-	3	10777	c.10741C>T	c.(10741-10743)CAT>TAT	p.H3581Y		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3581	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTTCGTGATGGGACGTGGGG	0.557									Ichthyosis				52	162	---	---	---	---	PASS	A	152276621	A	A	152276621	3	1	4	1	0	0	0	0	1	0	0	0	5922	1348	47	3	1448	3	FLG	1	152276621	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	88441	152276621	96974000	200	791										
FLG	2312	broad.mit.edu	37	chr1	152278894	152278894	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacgggaggcatcagaccttCcctgggatgtggtgtggctg	16	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:152278894C>T	uc001ezu.1	-	3	8504	c.8468G>A	c.(8467-8469)GGA>GAA	p.G2823E		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2823	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATCAGACCTTCCCTGGGATGT	0.587									Ichthyosis				63	101	---	---	---	---	PASS	T	152278894	T	T	152278894	3	4	4	1	0	0	0	0	1	0	0	0	5922	855	30	2	3721	2	FLG	1	152278894	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2273	152278894	96971727	201	792										
FLG	2312	broad.mit.edu	37	chr1	152283957	152283957	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtcttcgtccagtgctggtCctggtccgcccatgggcaga	13	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:152283957C>T	uc001ezu.1	-	3	3441	c.3405G>A	c.(3403-3405)AGG>AGA	p.R1135R	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1135	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CAGTGCTGGTCCTGGTCCGCC	0.602									Ichthyosis				91	118	---	---	---	---	PASS	T	152283957	T	T	152283957	2	4	4	1	0	0	0	0	0	0	0	1	5922	854	30	2		2	FLG	1	152283957	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	5063	152283957	96966664	202	793										
FLG	2312	broad.mit.edu	37	chr1	152285383	152285383	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtcttcgtgatgggacctgGggtgtctggagccatctctt	14	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:152285383G>T	uc001ezu.1	-	3	2015	c.1979C>A	c.(1978-1980)CCC>CAC	p.P660H	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	660	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATGGGACCTGGGGTGTCTGGA	0.542									Ichthyosis				7	218	---	---	---	---	PASS	T	152285383	T	T	152285383	3	4	4	1	0	0	0	0	1	0	0	0	5922	1232	43	3	10210	3	FLG	1	152285383	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1426	152285383	96965238	203	794										
FLG2	388698	broad.mit.edu	37	chr1	152325569	152325569	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttccagttgtcctggaccCtgtctgtgtggtttgttcat	10	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:152325569C>T	uc001ezw.3	-	3	4766	c.4693G>A	c.(4693-4695)GGG>AGG	p.G1565R	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1565							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTCCTGGACCCTGTCTGTGTG	0.488													46	97	---	---	---	---	PASS	T	152325569	T	T	152325569	3	4	4	1	0	0	0	0	1	0	0	0	5923	681	24	3	2486	3	FLG2	1	152325569	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	40186	152325569	96925052	204	795										
S100A7A	338324	broad.mit.edu	37	chr1	153390678	153390678	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acgatgatgaaggagaacttCcccaatttcctcagtgcctg	9	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:153390678C>T	uc001fbt.1	+	2	177	c.120C>T	c.(118-120)TTC>TTT	p.F40F		NM_176823	NP_789793	Q86SG5	S1A7A_HUMAN	S100 calcium binding protein A7-like 1	40	EF-hand 1.					cytoplasm	calcium ion binding			skin(1)	1	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			AGGAGAACTTCCCCAATTTCC	0.438													19	52	---	---	---	---	PASS	T	153390678	T	T	153390678	2	4	4	1	0	0	0	0	0	0	0	1	13784	854	30	2		2	S100A7A	1	153390678	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1065109	153390678	95859943	205	796										
NPR1	4881	broad.mit.edu	37	chr1	153659802	153659802	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggagagcttcagggacctgGacccagagcaaggacacacc	13	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:153659802G>A	uc001fcs.3	+	13	2483	c.2062G>A	c.(2062-2064)GAC>AAC	p.D688N	NPR1_uc010pdz.1_Missense_Mutation_p.D434N|NPR1_uc010pea.1_Missense_Mutation_p.D166N	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	688	Cytoplasmic (Potential).|Protein kinase.				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	CAGGGACCTGGACCCAGAGCA	0.557													19	19	---	---	---	---	PASS	A	153659802	A	A	153659802	3	1	4	1	0	0	0	0	1	0	0	0	10594	1174	41	2	2112	2	NPR1	1	153659802	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	269124	153659802	95590819	206	797										
SLC39A1	27173	broad.mit.edu	37	chr1	153933221	153933221	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggatgaactcttgcagtgGgaactggagctgtgggcaga	16	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:153933221G>A	uc001fdh.2	-	4	497	c.328C>T	c.(328-330)CCA>TCA	p.P110S	CRTC2_uc010ped.1_5'Flank|SLC39A1_uc001fdi.2_Missense_Mutation_p.P110S|SLC39A1_uc001fdj.2_Missense_Mutation_p.P110S|SLC39A1_uc001fdk.2_Missense_Mutation_p.P110S|SLC39A1_uc010pee.1_Missense_Mutation_p.P8S|SLC39A1_uc001fdl.2_Missense_Mutation_p.P110S	NM_014437	NP_055252	Q9NY26	S39A1_HUMAN	solute carrier family 39 (zinc transporter),	110	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|membrane fraction|plasma membrane	zinc ion transmembrane transporter activity				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)	Colorectal(1306;0.019)		TCTTGCAGTGGGAACTGGAGC	0.537													13	13	---	---	---	---	PASS	A	153933221	A	A	153933221	3	1	4	1	0	0	0	0	1	0	0	0	14612	1232	43	3	650	3	SLC39A1	1	153933221	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	273419	153933221	95317400	207	798										
HAX1	10456	broad.mit.edu	37	chr1	154246318	154246318	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacagacacttcgggactcaAtgcttaagtatccagatagt	9	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:154246318A>G	uc001fes.2	+	3	546	c.385A>G	c.(385-387)ATG>GTG	p.M129V	HAX1_uc001fet.2_Missense_Mutation_p.M81V|HAX1_uc010peo.1_Missense_Mutation_p.M137V|HAX1_uc009wou.2_Missense_Mutation_p.M54V|HAX1_uc009wov.2_Missense_Mutation_p.M103V	NM_006118	NP_006109	O00165	HAX1_HUMAN	HCLS1 associated protein X-1 isoform a	129	Involved in HCLS1 binding.					actin cytoskeleton|cytoplasmic membrane-bounded vesicle|lamellipodium|mitochondrion|nuclear membrane|sarcoplasmic reticulum|soluble fraction	interleukin-1 binding|protein N-terminus binding				0	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TCGGGACTCAATGCTTAAGTA	0.552									Kostmann_syndrome				27	53	---	---	---	---	PASS	G	154246318	G	G	154246318	3	3	4	1	0	0	0	0	1	0	0	0	6975	101	4	5	395	5	HAX1	1	154246318	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	313097	154246318	95004303	208	799										
ATP8B2	57198	broad.mit.edu	37	chr1	154315615	154315615	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtactacaaagctcagtccCcagatgagggggccctggtc	12	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:154315615C>A	uc001fex.2	+	16	1579	c.1579C>A	c.(1579-1581)CCA>ACA	p.P527T		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	513	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGCTCAGTCCCCAGATGAGGG	0.582													4	23	---	---	---	---	PASS	A	154315615	A	A	154315615	3	1	4	1	0	0	0	0	1	0	0	0	1195	623	22	3	1771	3	ATP8B2	1	154315615	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	69297	154315615	94935006	209	800										
LENEP	55891	broad.mit.edu	37	chr1	154966201	154966201	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcacagggtgggagggcttcCagcggaccctgaaggaagtc	17	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:154966201C>T	uc001fgi.2	+	1	140	c.118C>T	c.(118-120)CAG>TAG	p.Q40*		NM_018655	NP_061125	Q9Y5L5	LENEP_HUMAN	lens epithelial protein	40					multicellular organismal development		DNA binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			GGAGGGCTTCCAGCGGACCCT	0.607													9	21	---	---	---	---	PASS	T	154966201	T	T	154966201	4	4	4	1	0	0	0	0	0	1	0	0	8722	595	21	3	120	3	LENEP	1	154966201	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	650586	154966201	94284420	210	801										
ZBTB7B	51043	broad.mit.edu	37	chr1	154988918	154988918	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aactgcctggaggtgcgcacCcgacggcgccgcaaggacga	15	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:154988918C>T	uc001fgk.3	+	4	1535	c.1377C>T	c.(1375-1377)ACC>ACT	p.T459T	ZBTB7B_uc009wpa.2_Silent_p.T459T|ZBTB7B_uc001fgj.3_Silent_p.T493T|ZBTB7B_uc010peq.1_Silent_p.T493T|ZBTB7B_uc001fgl.3_Silent_p.T459T	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	459					cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			AGGTGCGCACCCGACGGCGCC	0.667													10	11	---	---	---	---	PASS	T	154988918	T	T	154988918	2	4	4	1	0	0	0	0	0	0	0	1	17551	610	22	3		3	ZBTB7B	1	154988918	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	22717	154988918	94261703	211	802										
ADAM15	8751	broad.mit.edu	37	chr1	155029676	155029676	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctccccagcttcctaccaggCctgaacttcagcaactgcag	7	17	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:155029676C>T	uc001fgr.1	+	12	1262	c.1161C>T	c.(1159-1161)GGC>GGT	p.G387G	ADAM15_uc001fgq.1_Silent_p.G72G|ADAM15_uc010pet.1_Silent_p.G371G|ADAM15_uc010peu.1_Silent_p.G404G|ADAM15_uc001fgt.1_Silent_p.G387G|ADAM15_uc010pev.1_Silent_p.G397G|ADAM15_uc001fgs.1_Silent_p.G387G|ADAM15_uc001fgu.1_Silent_p.G387G|ADAM15_uc001fgw.1_Silent_p.G387G|ADAM15_uc001fgv.1_Silent_p.G387G|ADAM15_uc001fgx.1_Silent_p.G387G|ADAM15_uc001fgz.1_RNA|ADAM15_uc001fgy.1_RNA|ADAM15_uc001fha.1_RNA|ADAM15_uc001fhb.1_5'Flank	NM_207197	NP_997080	Q13444	ADA15_HUMAN	a disintegrin and metalloproteinase domain 15	387	Peptidase M12B.|Extracellular (Potential).				angiogenesis|cell-matrix adhesion|collagen catabolic process|proteolysis	acrosomal vesicle|adherens junction|endomembrane system|flagellum|integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			central_nervous_system(3)|skin(2)|ovary(1)	6	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			TCCTACCAGGCCTGAACTTCA	0.642													9	18	---	---	---	---	PASS	T	155029676	T	T	155029676	2	4	4	1	0	0	0	0	0	0	0	1	237	726	26	3		3	ADAM15	1	155029676	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	40758	155029676	94220945	212	803										
THBS3	7059	broad.mit.edu	37	chr1	155168253	155168253	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcggcagttatcgggaccaGgaggcacataatctgggatg	16	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:155168253G>A	uc001fix.2	-	17	2044	c.2021C>T	c.(2020-2022)CCT>CTT	p.P674L	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Missense_Mutation_p.P665L|THBS3_uc001fiz.2_Missense_Mutation_p.P637L|THBS3_uc001fiy.2_Missense_Mutation_p.P203L|THBS3_uc010pfu.1_Missense_Mutation_p.P554L|THBS3_uc010pfv.1_RNA	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	674	TSP type-3 7.				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		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)			ATCGGGACCAGGAGGCACATA	0.537													23	41	---	---	---	---	PASS	A	155168253	A	A	155168253	3	1	4	1	0	0	0	0	1	0	0	0	15852	1000	35	3	877	3	THBS3	1	155168253	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	138577	155168253	94082368	213	804										
ASH1L	55870	broad.mit.edu	37	chr1	155449538	155449538	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctatataaatggttcctttCttgctgacatttatctgttg	6	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:155449538C>T	uc009wqq.2	-	3	3603	c.3123G>A	c.(3121-3123)AAG>AAA	p.K1041K	ASH1L_uc001fkt.2_Silent_p.K1041K|ASH1L_uc009wqr.1_Silent_p.K1041K	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1041					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TGGTTCCTTTCTTGCTGACAT	0.398													24	30	---	---	---	---	PASS	T	155449538	T	T	155449538	2	4	4	1	0	0	0	0	0	0	0	1	1041	912	32	2		2	ASH1L	1	155449538	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	281285	155449538	93801083	214	805										
ASH1L	55870	broad.mit.edu	37	chr1	155450362	155450362	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcatgatctacaaatgaagGgggtccaatgtttttcataa	9	6	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:155450362G>A	uc009wqq.2	-	3	2779	c.2299C>T	c.(2299-2301)CCT>TCT	p.P767S	ASH1L_uc001fkt.2_Missense_Mutation_p.P767S|ASH1L_uc009wqr.1_Missense_Mutation_p.P767S	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	767					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			ACAAATGAAGGGGGTCCAATG	0.388													31	70	---	---	---	---	PASS	A	155450362	A	A	155450362	3	1	4	1	0	0	0	0	1	0	0	0	1041	1232	43	3	6699	3	ASH1L	1	155450362	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	824	155450362	93800259	215	806										
YY1AP1	55249	broad.mit.edu	37	chr1	155644852	155644852	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgagattggggttgcaggtGgcaagaaggtggatttgtgt	18	2	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:155644852G>A	uc001fln.2	-	6	582	c.558C>T	c.(556-558)GCC>GCT	p.A186A	YY1AP1_uc010pgg.1_Intron|YY1AP1_uc010pgh.1_Silent_p.A109A|YY1AP1_uc010pgi.1_Silent_p.A258A|YY1AP1_uc001flh.2_Silent_p.A258A|YY1AP1_uc009wqt.2_Silent_p.A109A|YY1AP1_uc001flk.2_Silent_p.A109A|YY1AP1_uc001fll.2_Silent_p.A120A|YY1AP1_uc009wqv.2_5'UTR|YY1AP1_uc001flm.2_Silent_p.A109A|YY1AP1_uc001fli.2_Silent_p.A120A|YY1AP1_uc009wqu.2_5'UTR|YY1AP1_uc001flj.2_Silent_p.A120A|YY1AP1_uc009wqw.2_Silent_p.A109A|YY1AP1_uc001flo.2_Silent_p.A54A|YY1AP1_uc001flp.2_Silent_p.A120A|YY1AP1_uc010pgj.1_Silent_p.A186A|YY1AP1_uc009wqx.2_Silent_p.A258A|YY1AP1_uc010pgk.1_Silent_p.A258A	NM_139118	NP_620829	Q9H869	YYAP1_HUMAN	YY1-associated protein isoform 2	186					regulation of cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					GGTTGCAGGTGGCAAGAAGGT	0.428													18	14	---	---	---	---	PASS	A	155644852	A	A	155644852	2	1	4	1	0	0	0	0	0	0	0	1	17505	1335	47	3		3	YY1AP1	1	155644852	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	194490	155644852	93605769	216	807										
KIAA0907	22889	broad.mit.edu	37	chr1	155883947	155883947	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaatggcatctgttgtttagCtcgtggttgtgatgaaggat	14	4	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:155883947C>T	uc001fmi.1	-	14	1834	c.1810G>A	c.(1810-1812)GCT>ACT	p.A604T	RIT1_uc001fmh.1_5'Flank|RIT1_uc010pgr.1_5'Flank|KIAA0907_uc001fmj.1_3'UTR|KIAA0907_uc009wrk.1_Missense_Mutation_p.A461T	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	604											0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			TGTTGTTTAGCTCGTGGTTGT	0.428													22	21	---	---	---	---	PASS	T	155883947	T	T	155883947	3	4	4	1	0	0	0	0	1	0	0	0	8199	797	28	3	38	3	KIAA0907	1	155883947	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	239095	155883947	93366674	217	808										
SSR2	6746	broad.mit.edu	37	chr1	155989841	155989841	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgttgtactgcaaggtcaGgtctcgtccctccacggcgt	12	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:155989841G>A	uc001fmx.2	-	2	198	c.118C>T	c.(118-120)CTG>TTG	p.L40L	SSR2_uc001fmw.2_RNA|SSR2_uc001fmy.2_RNA|SSR2_uc010pgv.1_Silent_p.L59L|SSR2_uc010pgw.1_Silent_p.L59L	NM_003145	NP_003136	P43308	SSRB_HUMAN	signal sequence receptor, beta precursor	40	Lumenal (Potential).				cotranslational protein targeting to membrane	endoplasmic reticulum membrane|integral to membrane	signal sequence binding				0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					TGCAAGGTCAGGTCTCGTCCC	0.478													8	32	---	---	---	---	PASS	A	155989841	A	A	155989841	2	1	4	1	0	0	0	0	0	0	0	1	15190	991	35	3		3	SSR2	1	155989841	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	105894	155989841	93260780	218	809										
UBQLN4	56893	broad.mit.edu	37	chr1	156011382	156011382	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggctggcgtggctggtgagGaagtgggggcctcgggcgta	22	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:156011382G>A	uc001fna.2	-	10	1571	c.1547C>T	c.(1546-1548)TCC>TTC	p.S516F	UBQLN4_uc010pgx.1_Missense_Mutation_p.S496F	NM_020131	NP_064516	Q9NRR5	UBQL4_HUMAN	ataxin-1 ubiquitin-like interacting protein	516						cytosol|endoplasmic reticulum membrane|nucleus	identical protein binding			pancreas(1)|skin(1)	2	Hepatocellular(266;0.133)|all_neural(408;0.195)					GGCTGGTGAGGAAGTGGGGGC	0.607													7	19	---	---	---	---	PASS	A	156011382	A	A	156011382	3	1	4	1	0	0	0	0	1	0	0	0	16896	1174	41	2	266	2	UBQLN4	1	156011382	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	21541	156011382	93239239	219	810										
IQGAP3	128239	broad.mit.edu	37	chr1	156526478	156526478	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgttgatccgctgcacagcGtggagcactgcaaggcagga	14	10	0	1	rs141039819		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:156526478G>A	uc001fpf.2	-	12	1212	c.1137C>T	c.(1135-1137)CAC>CAT	p.H379H	IQGAP3_uc009wsb.1_Silent_p.H336H	NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	379					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCTGCACAGCGTGGAGCACTG	0.612													11	20	---	---	---	---	PASS	A	156526478	A	A	156526478	2	1	4	1	0	0	0	0	0	0	0	1	7816	1136	40	1		1	IQGAP3	1	156526478	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	515096	156526478	92724143	220	811										
BCAN	63827	broad.mit.edu	37	chr1	156617450	156617450	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctatgagcaatgtgatgctgGctggctgtcggatcagaccg	14	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:156617450G>A	uc001fpp.2	+	4	953	c.617G>A	c.(616-618)GGC>GAC	p.G206D	BCAN_uc001fpo.2_Missense_Mutation_p.G206D	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	206	Link 1.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGTGATGCTGGCTGGCTGTCG	0.657													16	36	---	---	---	---	PASS	A	156617450	A	A	156617450	3	1	4	1	0	0	0	0	1	0	0	0	1345	1203	42	3	627	3	BCAN	1	156617450	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	90972	156617450	92633171	221	812										
NES	10763	broad.mit.edu	37	chr1	156640228	156640228	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccccagggcttcagccctcCcctgcaccccccagctagcc	7	23	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:156640228C>T	uc001fpq.2	-	4	3885	c.3752G>A	c.(3751-3753)GGG>GAG	p.G1251E		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	1251	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TTCAGCCCTCCCCTGCACCCC	0.657													34	63	---	---	---	---	PASS	T	156640228	T	T	156640228	3	4	4	1	0	0	0	0	1	0	0	0	10337	623	22	3	1117	3	NES	1	156640228	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	22778	156640228	92610393	222	813										
NTRK1	4914	broad.mit.edu	37	chr1	156834541	156834541	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accatcgtgaagagtggtctCcgtttcgtggcgccagatgc	13	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:156834541C>T	uc001fqh.1	+	3	365	c.309C>T	c.(307-309)CTC>CTT	p.L103L	NTRK1_uc001fqf.1_Silent_p.L73L|NTRK1_uc009wsi.1_5'UTR|NTRK1_uc001fqi.1_Silent_p.L103L|NTRK1_uc009wsk.1_Silent_p.L103L	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	103	LRR 1.|Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	AGAGTGGTCTCCGTTTCGTGG	0.642			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			6	19	---	---	---	---	PASS	T	156834541	T	T	156834541	2	4	4	1	0	0	0	0	0	0	0	1	10706	842	30	2		2	NTRK1	1	156834541	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	194313	156834541	92416080	223	814										
NTRK1	4914	broad.mit.edu	37	chr1	156846359	156846359	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacggggacctcaaccgcttCctccggtaccagcacctggc	10	18	1	0	rs139606876		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:156846359C>T	uc001fqh.1	+	14	1856	c.1800C>T	c.(1798-1800)TTC>TTT	p.F600F	NTRK1_uc001fqf.1_Silent_p.F564F|NTRK1_uc009wsi.1_Silent_p.F299F|NTRK1_uc001fqi.1_Silent_p.F594F|NTRK1_uc009wsk.1_Silent_p.F597F	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	600	Cytoplasmic (Potential).|Protein kinase.				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	TCAACCGCTTCCTCCGGTACC	0.637			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			7	1	---	---	---	---	PASS	T	156846359	T	T	156846359	2	4	4	1	0	0	0	0	0	0	0	1	10706	854	30	2		2	NTRK1	1	156846359	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	11818	156846359	92404262	224	815										
FCRL5	83416	broad.mit.edu	37	chr1	157504586	157504586	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actggtataggatttgtgggGaacctctctggacttcacag	12	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:157504586G>A	uc001fqu.2	-	8	1657	c.1499C>T	c.(1498-1500)TCC>TTC	p.S500F	FCRL5_uc009wsm.2_Missense_Mutation_p.S500F|FCRL5_uc010phv.1_Missense_Mutation_p.S500F|FCRL5_uc010phw.1_Missense_Mutation_p.S415F|FCRL5_uc001fqv.1_Missense_Mutation_p.S500F|FCRL5_uc010phx.1_Missense_Mutation_p.S251F	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	500	Extracellular (Potential).|Ig-like C2-type 5.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				GATTTGTGGGGAACCTCTCTG	0.522													12	19	---	---	---	---	PASS	A	157504586	A	A	157504586	3	1	4	1	0	0	0	0	1	0	0	0	5798	1174	41	2	1474	2	FCRL5	1	157504586	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	658227	157504586	91746035	225	816										
FCRL4	83417	broad.mit.edu	37	chr1	157548574	157548574	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctcaccatcaacatacaacGactgaagctccacctgggca	6	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:157548574G>A	uc001fqw.2	-	9	1482	c.1346C>T	c.(1345-1347)TCG>TTG	p.S449L	FCRL4_uc010phy.1_Intron	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	449	Cytoplasmic (Potential).|ITIM motif 1.					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				AACATACAACGACTGAAGCTC	0.552													5	3	---	---	---	---	PASS	A	157548574	A	A	157548574	3	1	4	1	0	0	0	0	1	0	0	0	5797	1059	37	2	217	2	FCRL4	1	157548574	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	43988	157548574	91702047	226	817										
FCRL2	79368	broad.mit.edu	37	chr1	157740377	157740377	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taagccatcttctgaattttCcagttctgttctccctggca	6	12	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:157740377C>T	uc001fre.2	-	3	191	c.132G>A	c.(130-132)TGG>TGA	p.W44*	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Nonsense_Mutation_p.W44*|FCRL2_uc009wsp.2_Nonsense_Mutation_p.W44*|FCRL2_uc010pia.1_Nonsense_Mutation_p.W44*	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	44	Ig-like C2-type 1.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TCTGAATTTTCCAGTTCTGTT	0.428													19	28	---	---	---	---	PASS	T	157740377	T	T	157740377	4	4	4	1	0	0	0	0	0	1	0	0	5795	856	30	2	1434	2	FCRL2	1	157740377	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	191803	157740377	91510244	227	818										
CD1E	913	broad.mit.edu	37	chr1	158326590	158326590	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagccaacactcaggacacCaagaattcaagacatcagtt	8	11	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:158326590C>T	uc001fse.2	+	6	1310	c.1071C>T	c.(1069-1071)ACC>ACT	p.T357T	CD1E_uc001fsd.2_3'UTR|CD1E_uc001fsk.2_Silent_p.T267T|CD1E_uc001fsj.2_Silent_p.T200T|CD1E_uc001fsc.2_Silent_p.T168T|CD1E_uc010pig.1_RNA|CD1E_uc001fsa.2_Silent_p.T113T|CD1E_uc001fsf.2_Silent_p.T345T|CD1E_uc001fry.2_Silent_p.T290T|CD1E_uc001fsg.2_3'UTR|CD1E_uc001fsh.2_Silent_p.T156T|CD1E_uc001fsi.2_3'UTR|CD1E_uc009wsv.2_Silent_p.T258T|CD1E_uc001frz.2_Silent_p.T255T|CD1E_uc009wsw.2_Missense_Mutation_p.P72L	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	357					antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					CTCAGGACACCAAGAATTCAA	0.438													13	51	---	---	---	---	PASS	T	158326590	T	T	158326590	2	4	4	1	0	0	0	0	0	0	0	1	2978	581	21	3		3	CD1E	1	158326590	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	586213	158326590	90924031	228	819										
OR10K2	391107	broad.mit.edu	37	chr1	158390148	158390148	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgatgtagttgattggagGaataaaaaggcaggtgaaat	14	1	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:158390148G>A	uc010pii.1	-	1	509	c.509C>T	c.(508-510)TCC>TTC	p.S170F		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TTGATTGGAGGAATAAAAAGG	0.473													22	52	---	---	---	---	PASS	A	158390148	A	A	158390148	3	1	4	1	0	0	0	0	1	0	0	0	10914	1174	41	2	431	2	OR10K2	1	158390148	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	63558	158390148	90860473	229	820										
OR10K2	391107	broad.mit.edu	37	chr1	158390491	158390491	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagaagtacatggggatatGaagggccctgtccaggacaa	14	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:158390491G>A	uc010pii.1	-	1	166	c.166C>T	c.(166-168)CAT>TAT	p.H56Y		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					ATGGGGATATGAAGGGCCCTG	0.498													51	71	---	---	---	---	PASS	A	158390491	A	A	158390491	3	1	4	1	0	0	0	0	1	0	0	0	10914	1290	45	2	774	2	OR10K2	1	158390491	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	343	158390491	90860130	230	821										
OR10K1	391109	broad.mit.edu	37	chr1	158435712	158435712	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctggcagccatgggctatGatcgctatatggccatctgt	12	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:158435712G>A	uc010pij.1	+	1	361	c.361G>A	c.(361-363)GAT>AAT	p.D121N		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					CATGGGCTATGATCGCTATAT	0.532													22	74	---	---	---	---	PASS	A	158435712	A	A	158435712	3	1	4	1	0	0	0	0	1	0	0	0	10913	1290	45	2	363	2	OR10K1	1	158435712	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	45221	158435712	90814909	231	822										
OR10R2	343406	broad.mit.edu	37	chr1	158449910	158449910	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctccacacaccaatgtacttCttccttggcattctctcaac	3	16	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:158449910C>T	uc010pik.1	+	1	243	c.243C>T	c.(241-243)TTC>TTT	p.F81F	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	81	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					CAATGTACTTCTTCCTTGGCA	0.413													31	99	---	---	---	---	PASS	T	158449910	T	T	158449910	2	4	4	1	0	0	0	0	0	0	0	1	10917	912	32	2		2	OR10R2	1	158449910	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	14198	158449910	90800711	232	823										
OR6Y1	391112	broad.mit.edu	37	chr1	158517431	158517431	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggcagtcatgagtccacaGaaccagcatcctccagccag	9	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:158517431G>A	uc010pil.1	-	1	465	c.465C>T	c.(463-465)TTC>TTT	p.F155F		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TGAGTCCACAGAACCAGCATC	0.468													9	17	---	---	---	---	PASS	A	158517431	A	A	158517431	2	1	4	1	0	0	0	0	0	0	0	1	11213	933	33	2		2	OR6Y1	1	158517431	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	67521	158517431	90733190	233	824										
SPTA1	6708	broad.mit.edu	37	chr1	158583513	158583513	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttagtcttgttcctacctCcctggatccacagcatccag	6	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:158583513C>T	uc001fst.1	-	50	7186	c.6987G>A	c.(6985-6987)GGG>GGA	p.G2329G		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2329	EF-hand 2.|2 (Potential).				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)					GTTCCTACCTCCCTGGATCCA	0.493													12	30	---	---	---	---	PASS	T	158583513	T	T	158583513	2	4	4	1	0	0	0	0	0	0	0	1	15115	842	30	2		2	SPTA1	1	158583513	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	66082	158583513	90667108	234	825										
SPTA1	6708	broad.mit.edu	37	chr1	158644457	158644457	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcaaagtcagatgaaaatCgatggtacctgtgggaaaag	11	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:158644457C>T	uc001fst.1	-	9	1320	c.1121G>A	c.(1120-1122)CGA>CAA	p.R374Q		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	374	Spectrin 5.				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)					AGATGAAAATCGATGGTACCT	0.448													45	76	---	---	---	---	PASS	T	158644457	T	T	158644457	3	4	4	1	0	0	0	0	1	0	0	0	15115	884	31	2	6314	2	SPTA1	1	158644457	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	60944	158644457	90606164	235	826										
PYHIN1	149628	broad.mit.edu	37	chr1	158908261	158908261	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgaaacagaaagaagtgtatCctgctacacctgcatgcacc	8	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:158908261C>T	uc001ftb.2	+	3	585	c.340C>T	c.(340-342)CCT>TCT	p.P114S	PYHIN1_uc001fta.3_Missense_Mutation_p.P114S|PYHIN1_uc001ftc.2_Missense_Mutation_p.P105S|PYHIN1_uc001ftd.2_Missense_Mutation_p.P114S|PYHIN1_uc001fte.2_Missense_Mutation_p.P105S	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	114					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					AGAAGTGTATCCTGCTACACC	0.433													33	30	---	---	---	---	PASS	T	158908261	T	T	158908261	3	4	4	1	0	0	0	0	1	0	0	0	12865	855	30	2	346	2	PYHIN1	1	158908261	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	263804	158908261	90342360	236	827										
PYHIN1	149628	broad.mit.edu	37	chr1	158913695	158913695	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaaaaaggagataagcttcGactcttctgctttcgactga	9	8	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:158913695G>A	uc001ftb.2	+	6	1363	c.1118G>A	c.(1117-1119)CGA>CAA	p.R373Q	PYHIN1_uc001ftc.2_Missense_Mutation_p.R364Q|PYHIN1_uc001ftd.2_Missense_Mutation_p.R373Q|PYHIN1_uc001fte.2_Missense_Mutation_p.R364Q	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	373	HIN-200.				cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					GATAAGCTTCGACTCTTCTGC	0.368													23	28	---	---	---	---	PASS	A	158913695	A	A	158913695	3	1	4	1	0	0	0	0	1	0	0	0	12865	1058	37	2	1136	2	PYHIN1	1	158913695	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5434	158913695	90336926	237	828										
CRP	1401	broad.mit.edu	37	chr1	159683901	159683901	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaagtatccgactctttgGgaaacacaaaagccttcctc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:159683901G>A	uc001ftw.2	-	2	193	c.89C>T	c.(88-90)CCC>CTC	p.P30L	CRP_uc001ftx.1_Missense_Mutation_p.P30L|CRP_uc001fty.1_5'Flank	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	30	Pentaxin.				acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	CGACTCTTTGGGAAACACAAA	0.468													15	59	---	---	---	---	PASS	A	159683901	A	A	159683901	3	1	4	1	0	0	0	0	1	0	0	0	3895	1232	43	3	589	3	CRP	1	159683901	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	770206	159683901	89566720	238	829	13	2								
CRP	1401	broad.mit.edu	37	chr1	159683902	159683902	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaagtatccgactctttggGaaacacaaaagccttcctcg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:159683902G>A	uc001ftw.2	-	2	192	c.88C>T	c.(88-90)CCC>TCC	p.P30S	CRP_uc001ftx.1_Missense_Mutation_p.P30S|CRP_uc001fty.1_5'Flank	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	30	Pentaxin.				acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	GACTCTTTGGGAAACACAAAA	0.468													15	57	---	---	---	---	PASS	A	159683902	A	A	159683902	3	1	4	1	0	0	0	0	1	0	0	0	3895	1174	41	2	590	2	CRP	1	159683902	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	159683902	89566719	239	830	13	2								
FCRL6	343413	broad.mit.edu	37	chr1	159778967	159778967	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggagactctgggctttactGgtgtgaggtggcccctgagg	18	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:159778967G>A	uc001fud.3	+	4	578	c.536G>A	c.(535-537)TGG>TAG	p.W179*	FCRL6_uc010pix.1_3'UTR|FCRL6_uc001fuc.2_Nonsense_Mutation_p.W186*|FCRL6_uc009wsz.1_Intron|FCRL6_uc009wta.2_Nonsense_Mutation_p.W179*	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	179	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					GGGCTTTACTGGTGTGAGGTG	0.632													10	25	---	---	---	---	PASS	A	159778967	A	A	159778967	4	1	4	1	0	0	0	0	0	1	0	0	5799	1357	47	3	550	3	FCRL6	1	159778967	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	95065	159778967	89471654	240	831										
CCDC19	25790	broad.mit.edu	37	chr1	159857720	159857720	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcccgttccttggccacctCctccaggtcactgagcttct	9	17	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:159857720C>T	uc001fui.2	-	5	517	c.499G>A	c.(499-501)GAG>AAG	p.E167K	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.E82K|CCDC19_uc001ful.2_Missense_Mutation_p.E82K|CCDC19_uc009wtc.1_Missense_Mutation_p.E167K	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	167	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			TTGGCCACCTCCTCCAGGTCA	0.547													55	86	---	---	---	---	PASS	T	159857720	T	T	159857720	3	4	4	1	0	0	0	0	1	0	0	0	2795	864	30	2	1188	2	CCDC19	1	159857720	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	78753	159857720	89392901	241	832										
SLAMF9	89886	broad.mit.edu	37	chr1	159923180	159923180	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcttggtaaagccctgaatCctcccagctcagattgctga	9	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:159923180C>T	uc001fus.2	-	2	427	c.310G>A	c.(310-312)GAT>AAT	p.D104N	SLAMF9_uc009wtd.2_Missense_Mutation_p.D104N|SLAMF9_uc001fut.2_Intron	NM_033438	NP_254273	Q96A28	SLAF9_HUMAN	SLAM family member 9 isoform 1	104	Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AGCCCTGAATCCTCCCAGCTC	0.502													32	43	---	---	---	---	PASS	T	159923180	T	T	159923180	3	4	4	1	0	0	0	0	1	0	0	0	14371	855	30	2	571	2	SLAMF9	1	159923180	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	65460	159923180	89327441	242	833										
PIGM	93183	broad.mit.edu	37	chr1	160001449	160001449	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaaccagggcgactctggcTagaaaggccacaccaaagac	10	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:160001449T>A	uc001fuv.1	-	1	335	c.81A>T	c.(79-81)CTA>CTT	p.L27L		NM_145167	NP_660150	Q9H3S5	PIGM_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	27	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CGACTCTGGCTAGAAAGGCCA	0.607													37	53	---	---	---	---	PASS	A	160001449	A	A	160001449	2	1	4	1	0	0	0	0	0	0	0	1	11892	1509	53	5		5	PIGM	1	160001449	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	78269	160001449	89249172	243	834										
KCNJ10	3766	broad.mit.edu	37	chr1	160012275	160012275	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggcccattaggggccggctTtctgtctgagtggtctgact	15	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:160012275T>A	uc001fuw.1	-	2	198	c.48A>T	c.(46-48)GAA>GAT	p.E16D		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	16	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GGGGCCGGCTTTCTGTCTGAG	0.537													14	29	---	---	---	---	PASS	A	160012275	A	A	160012275	3	1	4	1	0	0	0	0	1	0	0	0	8044	1838	64	5	1095	5	KCNJ10	1	160012275	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	10826	160012275	89238346	244	835										
IGSF8	93185	broad.mit.edu	37	chr1	160062267	160062267	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacagggcctcctccaggccGgactcccagctctgccacac	10	19	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:160062267G>A	uc001fva.2	-	5	1576	c.1531C>T	c.(1531-1533)CGG>TGG	p.R511W	IGSF8_uc001fuz.2_Missense_Mutation_p.R511W|IGSF8_uc009wtf.2_Missense_Mutation_p.R511W	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	511	Ig-like C2-type 4.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CCTCCAGGCCGGACTCCCAGC	0.667													5	8	---	---	---	---	PASS	A	160062267	A	A	160062267	3	1	4	1	0	0	0	0	1	0	0	0	7604	1115	39	1	318	1	IGSF8	1	160062267	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	49992	160062267	89188354	245	836										
ATP1A4	480	broad.mit.edu	37	chr1	160124859	160124859	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atagccaccaaagggcaaagGaaatcctgactcgaggtgga	12	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:160124859G>A	uc001fve.3	+	3	711	c.232G>A	c.(232-234)GAA>AAA	p.E78K	ATP1A4_uc001fvf.3_RNA	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	78	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AAGGGCAAAGGAAATCCTGAC	0.507													26	96	---	---	---	---	PASS	A	160124859	A	A	160124859	3	1	4	1	0	0	0	0	1	0	0	0	1131	1175	41	2	242	2	ATP1A4	1	160124859	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	62592	160124859	89125762	246	837										
NCSTN	23385	broad.mit.edu	37	chr1	160322955	160322955	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatcctccccccaggtggcCttaagaacttcattagagct	7	14	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:160322955C>T	uc001fvx.2	+	10	1231	c.1107C>T	c.(1105-1107)GCC>GCT	p.A369A	NCSTN_uc001fvy.2_Silent_p.A349A|NCSTN_uc010pjf.1_Silent_p.A231A|NCSTN_uc001fvz.2_Silent_p.A149A|NCSTN_uc010pjg.1_Silent_p.A111A	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	369	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CCCAGGTGGCCTTAAGAACTT	0.493													4	31	---	---	---	---	PASS	T	160322955	T	T	160322955	2	4	4	1	0	0	0	0	0	0	0	1	10241	668	24	3		3	NCSTN	1	160322955	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	198096	160322955	88927666	247	838										
SLAMF1	6504	broad.mit.edu	37	chr1	160589610	160589610	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatcgtaaggctttttttttCcactgttgtctggtaatggt	10	6	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:160589610C>T	uc001fwl.3	-	5	1166	c.820G>A	c.(820-822)GAA>AAA	p.E274K	SLAMF1_uc010pjk.1_Intron|SLAMF1_uc010pjl.1_Intron|SLAMF1_uc010pjm.1_Intron	NM_003037	NP_003028	Q13291	SLAF1_HUMAN	signaling lymphocytic activation molecule family	274	Cytoplasmic (Potential).|Ig-like V-type.				interspecies interaction between organisms|lymphocyte activation|positive regulation of cell proliferation	integral to membrane	antigen binding|transmembrane receptor activity			ovary(1)|breast(1)	2	all_cancers(52;4.94e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			CTTTTTTTTTCCACTGTTGTC	0.433													23	68	---	---	---	---	PASS	T	160589610	T	T	160589610	3	4	4	1	0	0	0	0	1	0	0	0	14367	864	30	2	199	2	SLAMF1	1	160589610	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	266655	160589610	88661011	248	839										
PVRL4	81607	broad.mit.edu	37	chr1	161043560	161043560	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcctccggatggagttctCcctggtcagggtcagctcct	12	14	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:161043560C>T	uc001fxo.2	-	7	1482	c.1183G>A	c.(1183-1185)GAG>AAG	p.E395K	PVRL4_uc010pjy.1_Missense_Mutation_p.E74K|PVRL4_uc010pjz.1_Missense_Mutation_p.E129K	NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	395	Cytoplasmic (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			ATGGAGTTCTCCCTGGTCAGG	0.612													14	25	---	---	---	---	PASS	T	161043560	T	T	161043560	3	4	4	1	0	0	0	0	1	0	0	0	12842	864	30	2	361	2	PVRL4	1	161043560	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	453950	161043560	88207061	249	840										
KLHDC9	126823	broad.mit.edu	37	chr1	161068494	161068494	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagcgagagagcccagcagcGatacggtggttttcgaccca	14	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:161068494G>A	uc001fxr.2	+	1	341	c.169G>A	c.(169-171)GAT>AAT	p.D57N	KLHDC9_uc001fxq.2_5'UTR|KLHDC9_uc001fxs.2_Missense_Mutation_p.D57N	NM_152366	NP_689579	Q8NEP7	KLDC9_HUMAN	kelch/ankyrin repeat containing cyclin A1	57	Kelch 1.										0	all_cancers(52;1.28e-19)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			GCCCAGCAGCGATACGGTGGT	0.657													5	4	---	---	---	---	PASS	A	161068494	A	A	161068494	3	1	4	1	0	0	0	0	1	0	0	0	8364	1058	37	2	171	2	KLHDC9	1	161068494	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	24934	161068494	88182127	250	841										
UFC1	51506	broad.mit.edu	37	chr1	161127061	161127061	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggtggtttggaaaatgctGgtatatccatgacctcctga	11	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:161127061G>T	uc001fyd.3	+	3	463	c.209G>T	c.(208-210)TGG>TTG	p.W70L	USP21_uc010pkc.1_5'Flank|USP21_uc010pkd.1_5'Flank|USP21_uc010pke.1_5'Flank|USP21_uc010pkf.1_5'Flank	NM_016406	NP_057490	Q9Y3C8	UFC1_HUMAN	ubiquitin-fold modifier conjugating enzyme 1	70					protein ufmylation		protein binding|UFM1 conjugating enzyme activity				0	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GGAAAATGCTGGTATATCCAT	0.433													5	107	---	---	---	---	PASS	T	161127061	T	T	161127061	3	4	4	1	0	0	0	0	1	0	0	0	16931	1357	47	3	219	3	UFC1	1	161127061	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	58567	161127061	88123560	251	842										
ADAMTS4	9507	broad.mit.edu	37	chr1	161161863	161161863	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtgaaagaacctgaatttCctgaaggagcctgactgctt	11	8	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:161161863C>T	uc001fyt.3	-	8	2507	c.2079G>A	c.(2077-2079)AGG>AGA	p.R693R		NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	693	Spacer.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			ACCTGAATTTCCTGAAGGAGC	0.383											OREG0013940	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	45	---	---	---	---	PASS	T	161161863	T	T	161161863	2	4	4	1	0	0	0	0	0	0	0	1	268	854	30	2		2	ADAMTS4	1	161161863	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	34802	161161863	88088758	252	843										
ADAMTS4	9507	broad.mit.edu	37	chr1	161164011	161164011	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtttgtctaagagacagtgcCctgggaagggggttggggca	18	6	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:161164011C>T	uc001fyt.3	-	5	1690	c.1262G>A	c.(1261-1263)GGG>GAG	p.G421E		NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	421	Peptidase M12B.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GAGACAGTGCCCTGGGAAGGG	0.587													11	36	---	---	---	---	PASS	T	161164011	T	T	161164011	3	4	4	1	0	0	0	0	1	0	0	0	268	637	22	3	1271	3	ADAMTS4	1	161164011	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2148	161164011	88086610	253	844										
UHMK1	127933	broad.mit.edu	37	chr1	162482360	162482360	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagcccattctttagcattCcttttggtaagttgtgtatt	8	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:162482360C>T	uc001gcc.1	+	5	1055	c.919C>T	c.(919-921)CCT>TCT	p.P307S	UHMK1_uc001gcb.1_Missense_Mutation_p.P233S|UHMK1_uc009wuu.1_Missense_Mutation_p.P307S	NM_175866	NP_787062	Q8TAS1	UHMK1_HUMAN	kinase interacting stathmin	307					cell cycle arrest|neuron projection development|peptidyl-serine phosphorylation|positive regulation of translational initiation|protein autophosphorylation|regulation of protein export from nucleus	axon|dendrite cytoplasm|neuronal RNA granule|nucleus	protein binding|protein serine/threonine kinase activity|ribonucleoprotein binding|RNA binding				0	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			CTTTAGCATTCCTTTTGGTAA	0.353													33	50	---	---	---	---	PASS	T	162482360	T	T	162482360	3	4	4	1	0	0	0	0	1	0	0	0	16963	855	30	2	987	2	UHMK1	1	162482360	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1318349	162482360	86768261	254	845										
DDR2	4921	broad.mit.edu	37	chr1	162745458	162745458	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaggaatgattttcttaagGagataaagatcatgtctcgg	10	5	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:162745458G>A	uc001gcf.2	+	16	2338	c.1873G>A	c.(1873-1875)GAG>AAG	p.E625K	DDR2_uc001gcg.2_Missense_Mutation_p.E625K	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	625	Cytoplasmic (Potential).|Protein kinase.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			TTTTCTTAAGGAGATAAAGAT	0.418													12	52	---	---	---	---	PASS	A	162745458	A	A	162745458	3	1	4	1	0	0	0	0	1	0	0	0	4337	1175	41	2	1923	2	DDR2	1	162745458	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	263098	162745458	86505163	255	846										
NUF2	83540	broad.mit.edu	37	chr1	163318799	163318799	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtaaccacaattaatcaaGaaatccaaaaaattaaactt	3	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:163318799G>A	uc001gcq.1	+	13	1489	c.1189G>A	c.(1189-1191)GAA>AAA	p.E397K	NUF2_uc001gcr.1_Missense_Mutation_p.E397K|NUF2_uc009wvc.1_Missense_Mutation_p.E350K	NM_145697	NP_663735	Q9BZD4	NUF2_HUMAN	NUF2, NDC80 kinetochore complex component	397	Interaction with the C-terminus of NDC80 and the SPBC24-SPBC25 subcomplex.|Potential.				cell division|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding	p.E397D(1)		ovary(3)|skin(1)	4	all_hematologic(923;0.101)					AATTAATCAAGAAATCCAAAA	0.333													12	25	---	---	---	---	PASS	A	163318799	A	A	163318799	3	1	4	1	0	0	0	0	1	0	0	0	10747	943	33	2	1235	2	NUF2	1	163318799	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	573341	163318799	85931822	256	847										
DUSP27	92235	broad.mit.edu	37	chr1	167095388	167095388	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggcctccaagcccctcacCctcatagacgaggaggagga	11	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:167095388C>T	uc001geb.1	+	5	1020	c.1020C>T	c.(1018-1020)ACC>ACT	p.T340T		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	340					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						AGCCCCTCACCCTCATAGACG	0.652													5	2	---	---	---	---	PASS	T	167095388	T	T	167095388	2	4	4	1	0	0	0	0	0	0	0	1	4824	610	22	3		3	DUSP27	1	167095388	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3776589	167095388	82155233	257	848										
DUSP27	92235	broad.mit.edu	37	chr1	167097050	167097050	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacactgacagtgccataggGagcttccgatattcttcccg	10	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:167097050G>A	uc001geb.1	+	5	2682	c.2682G>A	c.(2680-2682)GGG>GGA	p.G894G		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	894	Ser-rich.				protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						GTGCCATAGGGAGCTTCCGAT	0.507													11	33	---	---	---	---	PASS	A	167097050	A	A	167097050	2	1	4	1	0	0	0	0	0	0	0	1	4824	1161	41	2		2	DUSP27	1	167097050	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1662	167097050	82153571	258	849										
TBX19	9095	broad.mit.edu	37	chr1	168262467	168262467	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgaatggtaacaaactgctCcttccctgaaacccagttca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:168262467C>T	uc001gfl.2	+	3	605	c.554C>T	c.(553-555)TCC>TTC	p.S185F	TBX19_uc001gfj.3_Missense_Mutation_p.S116F	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	185	T-box.				anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					ACAAACTGCTCCTTCCCTGAA	0.368													8	16	---	---	---	---	PASS	T	168262467	T	T	168262467	3	4	4	1	0	0	0	0	1	0	0	0	15651	855	30	2	564	2	TBX19	1	168262467	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1165417	168262467	80988154	259	850	14	2								
TBX19	9095	broad.mit.edu	37	chr1	168262468	168262468	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgaatggtaacaaactgctcCttccctgaaacccagttcat					rs142365505		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:168262468C>T	uc001gfl.2	+	3	606	c.555C>T	c.(553-555)TCC>TCT	p.S185S	TBX19_uc001gfj.3_Silent_p.S116S	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	185	T-box.				anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					CAAACTGCTCCTTCCCTGAAA	0.363													8	15	---	---	---	---	PASS	T	168262468	T	T	168262468	2	4	4	1	0	0	0	0	0	0	0	1	15651	668	24	3		3	TBX19	1	168262468	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	168262468	80988153	260	851	14	2								
NME7	29922	broad.mit.edu	37	chr1	169267909	169267909	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgccactccagagtttgcaGgtcccagcagtcttttccat	9	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:169267909G>A	uc001gfu.2	-	6	771	c.533C>T	c.(532-534)CCT>CTT	p.P178L	NME7_uc010plq.1_RNA|NME7_uc001gft.2_Missense_Mutation_p.P142L|NME7_uc001gfv.1_Missense_Mutation_p.P178L	NM_013330	NP_037462	Q9Y5B8	NDK7_HUMAN	nucleoside diphosphate kinase 7 isoform a	178					CTP biosynthetic process|GTP biosynthetic process|UTP biosynthetic process	centrosome	ATP binding|metal ion binding|nucleoside diphosphate kinase activity			central_nervous_system(1)	1	all_hematologic(923;0.208)					AGAGTTTGCAGGTCCCAGCAG	0.433													23	38	---	---	---	---	PASS	A	169267909	A	A	169267909	3	1	4	1	0	0	0	0	1	0	0	0	10496	1000	35	3	625	3	NME7	1	169267909	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1005441	169267909	79982712	261	852										
F5	2153	broad.mit.edu	37	chr1	169510270	169510270	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggagaaaggggcatctgaCcgagggctggggaaaggttt	18	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:169510270C>T	uc001ggg.1	-	13	4203	c.4058G>A	c.(4057-4059)GGT>GAT	p.G1353D		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1353	2-19.|35 X 9 AA approximate tandem repeats of [TNP]-L-S-P-D-L-S-Q-T.|B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	GGGCATCTGACCGAGGGCTGG	0.517													71	130	---	---	---	---	PASS	T	169510270	T	T	169510270	3	4	4	1	0	0	0	0	1	0	0	0	5348	507	18	3	2668	3	F5	1	169510270	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	242361	169510270	79740351	262	853										
SELP	6403	broad.mit.edu	37	chr1	169586359	169586359	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgtatatctccacgcagtCctcgttgttccttttgttgt	8	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:169586359C>T	uc001ggi.3	-	3	453	c.388G>A	c.(388-390)GAC>AAC	p.D130N	SELP_uc001ggh.2_5'UTR|SELP_uc009wvr.2_Missense_Mutation_p.D130N	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	130	Extracellular (Potential).|C-type lectin.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	TCCACGCAGTCCTCGTTGTTC	0.483													27	80	---	---	---	---	PASS	T	169586359	T	T	169586359	3	4	4	1	0	0	0	0	1	0	0	0	14019	855	30	2	2160	2	SELP	1	169586359	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	76089	169586359	79664262	263	854										
SELP	6403	broad.mit.edu	37	chr1	169586483	169586483	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggatcccaatccagtagtaGgagctgtagtagggtaggac	14	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:169586483G>T	uc001ggi.3	-	3	329	c.264C>A	c.(262-264)TCC>TCA	p.S88S	SELP_uc001ggh.2_5'UTR|SELP_uc009wvr.2_Silent_p.S88S	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	88	Extracellular (Potential).|C-type lectin.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	TCCAGTAGTAGGAGCTGTAGT	0.443													5	127	---	---	---	---	PASS	T	169586483	T	T	169586483	2	4	4	1	0	0	0	0	0	0	0	1	14019	987	35	3		3	SELP	1	169586483	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	124	169586483	79664138	264	855										
GORAB	92344	broad.mit.edu	37	chr1	170521499	170521499	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcaagaacaagctgtttccCcaaaggtagatgaccagtgt	10	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:170521499C>T	uc001gha.2	+	5	1108	c.1081C>T	c.(1081-1083)CCA>TCA	p.P361S	GORAB_uc009wvx.2_Missense_Mutation_p.P181S|GORAB_uc001ghb.2_Missense_Mutation_p.P181S|GORAB_uc001ghc.2_Missense_Mutation_p.P181S|GORAB_uc001ghd.2_Missense_Mutation_p.P154S	NM_152281	NP_689494	Q5T7V8	GORAB_HUMAN	golgin, RAB6-interacting isoform a	361	Necessary for interaction with RCHY1.					Golgi apparatus|nucleus					0						AGCTGTTTCCCCAAAGGTAGA	0.453													26	46	---	---	---	---	PASS	T	170521499	T	T	170521499	3	4	4	1	0	0	0	0	1	0	0	0	6574	623	22	3	1103	3	GORAB	1	170521499	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	935016	170521499	78729122	265	856										
C1orf129	80133	broad.mit.edu	37	chr1	170940962	170940962	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgttcccatgaagatccctCgattgtaaaacaagcatcat	7	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:170940962C>T	uc001ghg.2	+	8	684	c.554C>T	c.(553-555)TCG>TTG	p.S185L	C1orf129_uc009wvy.2_5'UTR|C1orf129_uc010plz.1_Missense_Mutation_p.S185L	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	185							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GAAGATCCCTCGATTGTAAAA	0.443													54	93	---	---	---	---	PASS	T	170940962	T	T	170940962	3	4	4	1	0	0	0	0	1	0	0	0	1996	893	31	2	580	2	C1orf129	1	170940962	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	419463	170940962	78309659	266	857										
FMO4	2329	broad.mit.edu	37	chr1	171293368	171293368	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagggcaagcaaaatagagCtgtctttgatgctgttatgg	13	5	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:171293368C>T	uc001gho.2	+	5	630	c.413C>T	c.(412-414)GCT>GTT	p.A138V		NM_002022	NP_002013	P31512	FMO4_HUMAN	flavin containing monooxygenase 4	138					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			kidney(2)|skin(1)	3	all_cancers(6;3.9e-08)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					CAAAATAGAGCTGTCTTTGAT	0.473													106	187	---	---	---	---	PASS	T	171293368	T	T	171293368	3	4	4	1	0	0	0	0	1	0	0	0	5957	797	28	3	423	3	FMO4	1	171293368	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	352406	171293368	77957253	267	858										
C1orf9	51430	broad.mit.edu	37	chr1	172538220	172538220	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtagcaagtcccaaagatcCagaagatataccaacatttg	7	9	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:172538220C>T	uc001giq.3	+	7	1110	c.794C>T	c.(793-795)CCA>CTA	p.P265L	C1orf9_uc010pmm.1_Missense_Mutation_p.P265L|C1orf9_uc009wwd.2_Missense_Mutation_p.P228L|C1orf9_uc010pmn.1_Missense_Mutation_p.P228L|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	265					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		CCCAAAGATCCAGAAGATATA	0.318													22	65	---	---	---	---	PASS	T	172538220	T	T	172538220	3	4	4	1	0	0	0	0	1	0	0	0	2067	594	21	3	820	3	C1orf9	1	172538220	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1244852	172538220	76712401	268	859										
FASLG	356	broad.mit.edu	37	chr1	172634791	172634791	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcaaggtccatgcctctgGaatgggaagacacctatgga	11	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:172634791G>A	uc001gis.2	+	4	638	c.481G>A	c.(481-483)GAA>AAA	p.E161K	FASLG_uc001git.2_3'UTR	NM_000639	NP_000630	P48023	TNFL6_HUMAN	fas ligand	161	Extracellular (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of necroptosis by extracellular signals|induction of necroptosis of activated-T cells|necrotic cell death|negative regulation of angiogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane	cytokine activity			lung(2)|breast(1)	3						CATGCCTCTGGAATGGGAAGA	0.418													17	59	---	---	---	---	PASS	A	172634791	A	A	172634791	3	1	4	1	0	0	0	0	1	0	0	0	5682	1175	41	2	495	2	FASLG	1	172634791	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	96571	172634791	76615830	269	860										
SLC9A11	284525	broad.mit.edu	37	chr1	173526526	173526526	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcgagattataaacatcagGagcccagagtaaattaaaaa	8	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:173526526G>A	uc001giz.2	-	10	1591	c.1168C>T	c.(1168-1170)CCT>TCT	p.P390S	SLC9A11_uc009wwe.2_5'UTR|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	390	Helical; (Potential).				sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						TAAACATCAGGAGCCCAGAGT	0.343													44	49	---	---	---	---	PASS	A	173526526	A	A	173526526	3	1	4	1	0	0	0	0	1	0	0	0	14711	1174	41	2	2282	2	SLC9A11	1	173526526	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	891735	173526526	75724095	270	861										
ZBTB37	84614	broad.mit.edu	37	chr1	173839578	173839578	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgagtacagtctccatttCagtcatcaagaaccctactg	7	11	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:173839578C>T	uc009wwp.1	+	3	491	c.215C>T	c.(214-216)TCA>TTA	p.S72L	GAS5_uc001gjj.2_5'Flank|GAS5_uc001gjk.2_5'Flank|SNORD74_uc001gjo.1_5'Flank|ZBTB37_uc001gjp.1_Missense_Mutation_p.S72L|ZBTB37_uc001gjq.3_Missense_Mutation_p.S72L|ZBTB37_uc001gjr.2_Missense_Mutation_p.S72L	NM_001122770	NP_001116242	Q5TC79	ZBT37_HUMAN	zinc finger and BTB domain containing 37 isoform	72	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTCTCCATTTCAGTCATCAAG	0.483													12	46	---	---	---	---	PASS	T	173839578	T	T	173839578	3	4	4	1	0	0	0	0	1	0	0	0	17535	838	29	2	217	2	ZBTB37	1	173839578	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	313052	173839578	75411043	271	862										
SERPINC1	462	broad.mit.edu	37	chr1	173878828	173878828	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcctccaattcatccagccActcttgcagcacctctgggg	7	17	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:173878828A>T	uc001gjt.2	-	5	1134	c.1015T>A	c.(1015-1017)TGG>AGG	p.W339R		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	339					blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	TCATCCAGCCACTCTTGCAGC	0.552													23	44	---	---	---	---	PASS	T	173878828	T	T	173878828	3	4	4	1	0	0	0	0	1	0	0	0	14109	159	6	5	391	5	SERPINC1	1	173878828	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	39250	173878828	75371793	272	863										
RC3H1	149041	broad.mit.edu	37	chr1	173930262	173930262	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggttggtgaaggtgcaaaagGaggtggagagataacctttc	16	4	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:173930262G>A	uc001gju.3	-	12	2410	c.2323C>T	c.(2323-2325)CCT>TCT	p.P775S	RC3H1_uc010pms.1_Missense_Mutation_p.P775S|RC3H1_uc001gjv.2_Missense_Mutation_p.P775S|RC3H1_uc010pmt.1_Missense_Mutation_p.P775S	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	775	Pro-rich.				cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GGTGCAAAAGGAGGTGGAGAG	0.413													24	30	---	---	---	---	PASS	A	173930262	A	A	173930262	3	1	4	1	0	0	0	0	1	0	0	0	13166	1174	41	2	1110	2	RC3H1	1	173930262	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	51434	173930262	75320359	273	864										
RABGAP1L	9910	broad.mit.edu	37	chr1	174363266	174363266	+	Nonsense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcaatgctggatagatacCgaattcttatcacaaaggta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:174363266C>T	uc001gjx.2	+	13	1888	c.1693C>T	c.(1693-1695)CGA>TGA	p.R565*	RABGAP1L_uc009wwq.1_Nonsense_Mutation_p.R577*|RABGAP1L_uc001gjw.2_Nonsense_Mutation_p.R528*|RABGAP1L_uc001gjy.2_Nonsense_Mutation_p.R233*|RABGAP1L_uc001gjz.2_Nonsense_Mutation_p.R212*	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	565	Rab-GAP TBC.				regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						GGATAGATACCGAATTCTTAT	0.408													11	46	---	---	---	---	PASS	T	174363266	T	T	174363266	4	4	4	1	0	0	0	0	0	1	0	0	12965	644	23	1	1739	1	RABGAP1L	1	174363266	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	433004	174363266	74887355	274	865	15	2								
RABGAP1L	9910	broad.mit.edu	37	chr1	174363272	174363272	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctggatagataccgaattCttatcacaaaggtaggaaga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:174363272C>T	uc001gjx.2	+	13	1894	c.1699C>T	c.(1699-1701)CTT>TTT	p.L567F	RABGAP1L_uc009wwq.1_Missense_Mutation_p.L579F|RABGAP1L_uc001gjw.2_Missense_Mutation_p.L530F|RABGAP1L_uc001gjy.2_Missense_Mutation_p.L235F|RABGAP1L_uc001gjz.2_Missense_Mutation_p.L214F	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	567	Rab-GAP TBC.				regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						ATACCGAATTCTTATCACAAA	0.403													24	34	---	---	---	---	PASS	T	174363272	T	T	174363272	3	4	4	1	0	0	0	0	1	0	0	0	12965	913	32	2	1745	2	RABGAP1L	1	174363272	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6	174363272	74887349	275	866	15	2								
GPR52	9293	broad.mit.edu	37	chr1	174417516	174417516	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggcatatgctgatcttttCgttggagttagctgcttggt	12	6	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:174417516C>T	uc001gka.1	+	1	305	c.267C>T	c.(265-267)TTC>TTT	p.F89F	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	89	Helical; Name=2; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						CTGATCTTTTCGTTGGAGTTA	0.423													40	107	---	---	---	---	PASS	T	174417516	T	T	174417516	2	4	4	1	0	0	0	0	0	0	0	1	6698	883	31	2		2	GPR52	1	174417516	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	54244	174417516	74833105	276	867										
TNR	7143	broad.mit.edu	37	chr1	175375791	175375791	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgatcatggagcccagaagGatcaggttgatgccaatgag	13	7	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:175375791G>A	uc001gkp.1	-	1	141	c.60C>T	c.(58-60)ATC>ATT	p.I20I	TNR_uc009wwu.1_Silent_p.I20I|TNR_uc010pmz.1_Silent_p.I20I	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	20					axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					AGCCCAGAAGGATCAGGTTGA	0.552													29	43	---	---	---	---	PASS	A	175375791	A	A	175375791	2	1	4	1	0	0	0	0	0	0	0	1	16335	1164	41	2		2	TNR	1	175375791	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	958275	175375791	73874830	277	868										
PAPPA2	60676	broad.mit.edu	37	chr1	176525760	176525760	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcaaaccagacactgaagGaaatgctgtgagccttgttc	10	10	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:176525760G>A	uc001gkz.2	+	2	1466	c.302G>A	c.(301-303)GGA>GAA	p.G101E	PAPPA2_uc001gky.1_Missense_Mutation_p.G101E|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	101					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GACACTGAAGGAAATGCTGTG	0.567													45	80	---	---	---	---	PASS	A	176525760	A	A	176525760	3	1	4	1	0	0	0	0	1	0	0	0	11433	1174	41	2	304	2	PAPPA2	1	176525760	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1149969	176525760	72724861	278	869										
PAPPA2	60676	broad.mit.edu	37	chr1	176526002	176526002	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccattttcacaaccctgaacGaacccaaaccagagacccaa	4	16	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:176526002G>A	uc001gkz.2	+	2	1708	c.544G>A	c.(544-546)GAA>AAA	p.E182K	PAPPA2_uc001gky.1_Missense_Mutation_p.E182K|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	182					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						AACCCTGAACGAACCCAAACC	0.587													24	56	---	---	---	---	PASS	A	176526002	A	A	176526002	3	1	4	1	0	0	0	0	1	0	0	0	11433	1059	37	2	546	2	PAPPA2	1	176526002	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	242	176526002	72724619	279	870										
PAPPA2	60676	broad.mit.edu	37	chr1	176640121	176640121	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctagggcatacatgagtgtGaaggagctgaaggaggccct	15	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:176640121G>A	uc001gkz.2	+	4	3171	c.2007G>A	c.(2005-2007)GTG>GTA	p.V669V	PAPPA2_uc001gky.1_Silent_p.V669V|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	669	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						ACATGAGTGTGAAGGAGCTGA	0.483													29	124	---	---	---	---	PASS	A	176640121	A	A	176640121	2	1	4	1	0	0	0	0	0	0	0	1	11433	1277	45	2		2	PAPPA2	1	176640121	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	114119	176640121	72610500	280	871										
PAPPA2	60676	broad.mit.edu	37	chr1	176661375	176661375	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcccacccccatccccattCcacctatggtcatcggacag	6	19	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:176661375C>T	uc001gkz.2	+	6	3709	c.2545C>T	c.(2545-2547)CCA>TCA	p.P849S	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	849					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CATCCCCATTCCACCTATGGT	0.512													57	90	---	---	---	---	PASS	T	176661375	T	T	176661375	3	4	4	1	0	0	0	0	1	0	0	0	11433	855	30	2	2616	2	PAPPA2	1	176661375	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	21254	176661375	72589246	281	872										
PAPPA2	60676	broad.mit.edu	37	chr1	176709183	176709183	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acccatcaccagaatgtcctTttccaccataccacctcagt	3	17	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:176709183T>A	uc001gkz.2	+	14	5166	c.4002T>A	c.(4000-4002)CTT>CTA	p.L1334L	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1334					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						AGAATGTCCTTTTCCACCATA	0.483													21	76	---	---	---	---	PASS	A	176709183	A	A	176709183	2	1	4	1	0	0	0	0	0	0	0	1	11433	1828	64	5		5	PAPPA2	1	176709183	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	47808	176709183	72541438	282	873										
ASTN1	460	broad.mit.edu	37	chr1	176992577	176992577	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtgttcacaggggtccagGagccgccgggcacagaggtc	17	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:176992577G>A	uc001glc.2	-	7	1613	c.1401C>T	c.(1399-1401)CTC>CTT	p.L467L	ASTN1_uc001glb.1_Silent_p.L467L|ASTN1_uc001gld.1_Silent_p.L467L|ASTN1_uc009wwx.1_Silent_p.L467L|ASTN1_uc001gle.3_RNA	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	467	EGF-like 1.				cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						AGGGGTCCAGGAGCCGCCGGG	0.612													4	14	---	---	---	---	PASS	A	176992577	A	A	176992577	2	1	4	1	0	0	0	0	0	0	0	1	1064	1161	41	2		2	ASTN1	1	176992577	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	283394	176992577	72258044	283	874										
ANGPTL1	9068	broad.mit.edu	37	chr1	178820370	178820370	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttgcttctgtaatggcctCctctgtaccatactccattt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:178820370C>T	uc001gma.2	-	6	1846	c.1370G>A	c.(1369-1371)GGA>GAA	p.G457E	RALGPS2_uc001gly.1_Intron|RALGPS2_uc001glz.2_Intron|RALGPS2_uc010pnb.1_Intron|ANGPTL1_uc001gmb.2_Missense_Mutation_p.G457E	NM_004673	NP_004664	O95841	ANGL1_HUMAN	angiopoietin-like 1 precursor	457	Fibrinogen C-terminal.					extracellular space	receptor binding				0						GTAATGGCCTCCTCTGTACCA	0.453													26	36	---	---	---	---	PASS	T	178820370	T	T	178820370	3	4	4	1	0	0	0	0	1	0	0	0	613	855	30	2	109	2	ANGPTL1	1	178820370	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1827793	178820370	70430251	284	875	16	2								
ANGPTL1	9068	broad.mit.edu	37	chr1	178820371	178820371	+	Nonsense_Mutation	SNP	C	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgcttctgtaatggcctcCtctgtaccatactccattta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:178820371C>A	uc001gma.2	-	6	1845	c.1369G>T	c.(1369-1371)GGA>TGA	p.G457*	RALGPS2_uc001gly.1_Intron|RALGPS2_uc001glz.2_Intron|RALGPS2_uc010pnb.1_Intron|ANGPTL1_uc001gmb.2_Nonsense_Mutation_p.G457*	NM_004673	NP_004664	O95841	ANGL1_HUMAN	angiopoietin-like 1 precursor	457	Fibrinogen C-terminal.					extracellular space	receptor binding				0						TAATGGCCTCCTCTGTACCAT	0.453													26	36	---	---	---	---	PASS	A	178820371	A	A	178820371	4	1	4	1	0	0	0	0	0	1	0	0	613	690	24	3	110	3	ANGPTL1	1	178820371	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	178820371	70430250	285	876	16	2								
ANGPTL1	9068	broad.mit.edu	37	chr1	178822871	178822871	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggtttaatcatataaatcCcactgaccgaatgcccagct	6	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:178822871C>T	uc001gma.2	-	4	1351	c.875G>A	c.(874-876)GGG>GAG	p.G292E	RALGPS2_uc001gly.1_Intron|RALGPS2_uc001glz.2_Intron|RALGPS2_uc010pnb.1_Intron|ANGPTL1_uc001gmb.2_Missense_Mutation_p.G292E|ANGPTL1_uc010pnc.1_Missense_Mutation_p.G214E	NM_004673	NP_004664	O95841	ANGL1_HUMAN	angiopoietin-like 1 precursor	292	Fibrinogen C-terminal.					extracellular space	receptor binding				0						CATATAAATCCCACTGACCGA	0.373													17	40	---	---	---	---	PASS	T	178822871	T	T	178822871	3	4	4	1	0	0	0	0	1	0	0	0	613	623	22	3	612	3	ANGPTL1	1	178822871	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2500	178822871	70427750	286	877										
ABL2	27	broad.mit.edu	37	chr1	179087825	179087825	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttctcggttgcattctcGgaggtaatccagcaaattcc	8	12	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:179087825G>A	uc001gmj.3	-	7	1407	c.1120C>T	c.(1120-1122)CGA>TGA	p.R374*	ABL2_uc010pnf.1_Nonsense_Mutation_p.R374*|ABL2_uc010png.1_Nonsense_Mutation_p.R353*|ABL2_uc010pnh.1_Nonsense_Mutation_p.R353*|ABL2_uc009wxe.2_Nonsense_Mutation_p.R353*|ABL2_uc001gmg.3_Nonsense_Mutation_p.R359*|ABL2_uc001gmi.3_Nonsense_Mutation_p.R359*|ABL2_uc001gmh.3_Nonsense_Mutation_p.R338*|ABL2_uc010pne.1_Nonsense_Mutation_p.R338*|ABL2_uc009wxf.1_Nonsense_Mutation_p.R359*|ABL2_uc001gmk.2_Nonsense_Mutation_p.R338*	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	374	Protein kinase.				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	TTGCATTCTCGGAGGTAATCC	0.428			T	ETV6	AML								16	64	---	---	---	---	PASS	A	179087825	A	A	179087825	4	1	4	1	0	0	0	0	0	1	0	0	93	1124	39	1	2497	1	ABL2	1	179087825	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	264954	179087825	70162796	287	878										
C1orf125	126859	broad.mit.edu	37	chr1	179414223	179414223	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattgggcttgggatatttaAtcggcataaaagtttggagg	13	3	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:179414223A>T	uc001gmo.2	+	16	1809	c.1682A>T	c.(1681-1683)AAT>ATT	p.N561I	C1orf125_uc009wxg.2_Intron|C1orf125_uc001gmn.1_Missense_Mutation_p.N349I|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.N561I	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	561											0						GGGATATTTAATCGGCATAAA	0.363													19	55	---	---	---	---	PASS	T	179414223	T	T	179414223	3	4	4	1	0	0	0	0	1	0	0	0	1993	101	4	5	1740	5	C1orf125	1	179414223	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	326398	179414223	69836398	288	879										
NPHS2	7827	broad.mit.edu	37	chr1	179520325	179520325	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcctataacatgggagagtCtttctttttaggatttagtg	9	5	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:179520325C>T	uc001gmq.3	-	8	1220	c.1135G>A	c.(1135-1137)GAC>AAC	p.D379N	C1orf125_uc009wxg.2_Intron|C1orf125_uc001gmo.2_Intron|C1orf125_uc001gmp.2_Intron|C1orf125_uc009wxh.2_Intron|NPHS2_uc009wxi.2_Missense_Mutation_p.D311N|C1orf125_uc001gmr.2_RNA	NM_014625	NP_055440	Q9NP85	PODO_HUMAN	podocin	379	Cytoplasmic (Potential).				excretion	integral to plasma membrane	protein binding				0						ATGGGAGAGTCTTTCTTTTTA	0.493													9	20	---	---	---	---	PASS	T	179520325	T	T	179520325	3	4	4	1	0	0	0	0	1	0	0	0	10583	913	32	2	20	2	NPHS2	1	179520325	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	106102	179520325	69730296	289	880										
TDRD5	163589	broad.mit.edu	37	chr1	179659939	179659939	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaccagctgtctttgatttTgtcttatgagtgccagattt	9	7	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:179659939T>A	uc001gnf.1	+	17	3057	c.2807T>A	c.(2806-2808)TTG>TAG	p.L936*	TDRD5_uc010pnp.1_Nonsense_Mutation_p.L990*|TDRD5_uc001gnh.1_Nonsense_Mutation_p.L491*	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	936					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						TCTTTGATTTTGTCTTATGAG	0.458													11	33	---	---	---	---	PASS	A	179659939	A	A	179659939	4	1	4	1	0	0	0	0	0	1	0	0	15730	1821	63	5	2869	5	TDRD5	1	179659939	Nonsense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	139614	179659939	69590682	290	881										
QSOX1	5768	broad.mit.edu	37	chr1	180166160	180166160	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaagggccatgctggccaCcctgcagcctgaaccacctg	11	16	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:180166160C>T	uc001gnz.2	+	12	2307	c.2232C>T	c.(2230-2232)CAC>CAT	p.H744H	QSOX1_uc001gny.2_Intron|QSOX1_uc001goa.2_Intron|QSOX1_uc001goc.2_Intron|FLJ23867_uc001god.3_5'Flank	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	744					cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						ATGCTGGCCACCCTGCAGCCT	0.642													6	9	---	---	---	---	PASS	T	180166160	T	T	180166160	2	4	4	1	0	0	0	0	0	0	0	1	12883	506	18	3		3	QSOX1	1	180166160	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	506221	180166160	69084461	291	882										
CACNA1E	777	broad.mit.edu	37	chr1	181479711	181479711	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgacaagacccccatgtcccGaagactggtatgtgattccc	9	13	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:181479711G>A	uc001gow.2	+	2	530	c.365G>A	c.(364-366)CGA>CAA	p.R122Q	CACNA1E_uc009wxr.2_Missense_Mutation_p.R29Q|CACNA1E_uc009wxs.2_Missense_Mutation_p.R29Q	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	122	I.|Extracellular (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CCCATGTCCCGAAGACTGGTA	0.527													9	17	---	---	---	---	PASS	A	181479711	A	A	181479711	3	1	4	1	0	0	0	0	1	0	0	0	2542	1058	37	2	371	2	CACNA1E	1	181479711	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1313551	181479711	67770910	292	883										
CACNA1E	777	broad.mit.edu	37	chr1	181702138	181702138	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catggtgccaaggagccaacGatccaagaagagagagccca	12	11	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:181702138G>A	uc001gow.2	+	20	3081	c.2916G>A	c.(2914-2916)ACG>ACA	p.T972T	CACNA1E_uc009wxs.2_Silent_p.T860T|CACNA1E_uc001gox.1_Silent_p.T198T|CACNA1E_uc009wxt.2_Silent_p.T198T	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	972	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						AGGAGCCAACGATCCAAGAAG	0.552													9	15	---	---	---	---	PASS	A	181702138	A	A	181702138	2	1	4	1	0	0	0	0	0	0	0	1	2542	1045	37	2		2	CACNA1E	1	181702138	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	222427	181702138	67548483	293	884										
CACNA1E	777	broad.mit.edu	37	chr1	181753905	181753905	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttgtgcccatgcccaaagGtttgggtcttctcctgggta	12	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:181753905G>A	uc001gow.2	+	41	5743	c.5578_splice	c.e41+1	p.A1860_splice	CACNA1E_uc009wxs.2_Splice_Site_p.A1748_splice|CACNA1E_uc009wxt.2_Splice_Site_p.A1086_splice	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,						energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						ATGCCCAAAGGTTTGGGTCTT	0.522													4	6	---	---	---	---	PASS	A	181753905	A	A	181753905	5	1	4	1	0	0	0	0	0	0	1	0	2542	1275	44	3	5741	3	CACNA1E	1	181753905	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	51767	181753905	67496716	294	885										
RGS8	85397	broad.mit.edu	37	chr1	182636100	182636100	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcccagtcgagtcctcatcCctttgttcctgcaacaagca	6	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:182636100C>T	uc010pnw.1	-	4	293	c.35G>A	c.(34-36)GGG>GAG	p.G12E	RGS8_uc001gpn.1_Missense_Mutation_p.G12E|RGS8_uc001gpm.1_Missense_Mutation_p.G30E	NM_001102450	NP_001095920	P57771	RGS8_HUMAN	regulator of G-protein signalling 8 isoform 2	12					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)	1						AGTCCTCATCCCTTTGTTCCT	0.537													15	48	---	---	---	---	PASS	T	182636100	T	T	182636100	3	4	4	1	0	0	0	0	1	0	0	0	13312	623	22	3	523	3	RGS8	1	182636100	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	882195	182636100	66614521	295	886										
LAMC1	3915	broad.mit.edu	37	chr1	183087213	183087213	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttggaggcctgctcttacccCttttgaatttcagaagctcc	8	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:183087213C>T	uc001gpy.3	+	11	2179	c.1922C>T	c.(1921-1923)CCT>CTT	p.P641L		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	641	Laminin IV type A.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCTCTTACCCCTTTTGAATTT	0.423													13	40	---	---	---	---	PASS	T	183087213	T	T	183087213	3	4	4	1	0	0	0	0	1	0	0	0	8614	681	24	3	1964	3	LAMC1	1	183087213	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	451113	183087213	66163408	296	887										
RGL1	23179	broad.mit.edu	37	chr1	183852930	183852930	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtgaacagatgggcttccCaacacgatctccttcagcct	8	13	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:183852930C>T	uc001gqo.2	+	6	778	c.621C>T	c.(619-621)CCC>CCT	p.P207P	RGL1_uc010pof.1_Silent_p.P12P|RGL1_uc001gqm.2_Silent_p.P242P|RGL1_uc010pog.1_Silent_p.P205P|RGL1_uc010poh.1_Silent_p.P205P|RGL1_uc010poi.1_Silent_p.P207P	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	207					cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						ATGGGCTTCCCAACACGATCT	0.458													15	39	---	---	---	---	PASS	T	183852930	T	T	183852930	2	4	4	1	0	0	0	0	0	0	0	1	13276	581	21	3		3	RGL1	1	183852930	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	765717	183852930	65397691	297	888										
GLT25D2	23127	broad.mit.edu	37	chr1	183944313	183944313	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catgggcaaaccgggaggttGgccagtgctttggtccaatt	14	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:183944313G>T	uc001gqr.2	-	3	782	c.410C>A	c.(409-411)CCA>CAA	p.P137Q	GLT25D2_uc010poj.1_Missense_Mutation_p.P137Q|GLT25D2_uc001gqs.2_Missense_Mutation_p.P17Q	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	137					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						CCGGGAGGTTGGCCAGTGCTT	0.328													15	22	---	---	---	---	PASS	T	183944313	T	T	183944313	3	4	4	1	0	0	0	0	1	0	0	0	6467	1348	47	3	1510	3	GLT25D2	1	183944313	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	91383	183944313	65306308	298	889										
FAM129A	116496	broad.mit.edu	37	chr1	184765127	184765127	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggctggcctggtttgaccCtgtggggggctttagatctg	17	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:184765127C>A	uc001gra.2	-	14	1965	c.1771G>T	c.(1771-1773)GGG>TGG	p.G591W	FAM129A_uc001grb.1_Missense_Mutation_p.G354W	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	591					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						TGGTTTGACCCTGTGGGGGGC	0.498													25	33	---	---	---	---	PASS	A	184765127	A	A	184765127	3	1	4	1	0	0	0	0	1	0	0	0	5436	681	24	3	1019	3	FAM129A	1	184765127	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	820814	184765127	64485494	299	890										
FAM129A	116496	broad.mit.edu	37	chr1	184853813	184853813	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcaggagggcactaaacctCttctggtcagcagcctcgtg	11	13	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:184853813C>T	uc001gra.2	-	5	749	c.555G>A	c.(553-555)AAG>AAA	p.K185K	FAM129A_uc009wyh.1_Intron|FAM129A_uc009wyi.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	185					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						CACTAAACCTCTTCTGGTCAG	0.607													14	17	---	---	---	---	PASS	T	184853813	T	T	184853813	2	4	4	1	0	0	0	0	0	0	0	1	5436	912	32	2		2	FAM129A	1	184853813	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	88686	184853813	64396808	300	891										
IVNS1ABP	10625	broad.mit.edu	37	chr1	185267192	185267192	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actggaaaatctttgtatagGggctccattcatttgactca	8	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:185267192G>A	uc001grl.2	-	15	2527	c.1904C>T	c.(1903-1905)CCC>CTC	p.P635L	IVNS1ABP_uc001gri.2_Missense_Mutation_p.P295L|IVNS1ABP_uc001grj.2_Missense_Mutation_p.P295L|IVNS1ABP_uc009wyj.2_Missense_Mutation_p.P417L|IVNS1ABP_uc009wyk.2_RNA	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	635	Kelch 6.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						CTTTGTATAGGGGCTCCATTC	0.383													21	72	---	---	---	---	PASS	A	185267192	A	A	185267192	3	1	4	1	0	0	0	0	1	0	0	0	7930	1232	43	3	28	3	IVNS1ABP	1	185267192	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	413379	185267192	63983429	301	892										
HMCN1	83872	broad.mit.edu	37	chr1	186039829	186039829	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagtaaacaacactctgacCttggaatgtgaagcgtatgc	9	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:186039829C>T	uc001grq.1	+	52	8308	c.8079C>T	c.(8077-8079)ACC>ACT	p.T2693T		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2693	Ig-like C2-type 25.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						ACACTCTGACCTTGGAATGTG	0.423													24	35	---	---	---	---	PASS	T	186039829	T	T	186039829	2	4	4	1	0	0	0	0	0	0	0	1	7220	668	24	3		3	HMCN1	1	186039829	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	772637	186039829	63210792	302	893										
PRG4	10216	broad.mit.edu	37	chr1	186277347	186277347	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actgctccaactacccccaaGgagcctgcacccactacccc	5	21	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:186277347G>A	uc001gru.3	+	7	2547	c.2496G>A	c.(2494-2496)AAG>AAA	p.K832K	PRG4_uc001grt.3_Silent_p.K791K|PRG4_uc009wyl.2_Silent_p.K739K|PRG4_uc009wym.2_Silent_p.K698K|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	832	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|57.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CTACCCCCAAGGAGCCTGCAC	0.582													62	165	---	---	---	---	PASS	A	186277347	A	A	186277347	2	1	4	1	0	0	0	0	0	0	0	1	12481	991	35	3		3	PRG4	1	186277347	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	237518	186277347	62973274	303	894										
TPR	7175	broad.mit.edu	37	chr1	186300714	186300714	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttctgccataacttcttcCtgtatcataatacactaata	2	11	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:186300714C>T	uc001grv.2	-	39	5902	c.5605_splice	c.e39-1	p.E1869_splice		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR						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)		TAACTTCTTCCTGTATCATAA	0.343			T	NTRK1	papillary thyroid								9	32	---	---	---	---	PASS	T	186300714	T	T	186300714	5	4	4	1	0	0	0	0	0	0	1	0	16413	695	24	3	1539	3	TPR	1	186300714	Splice_Site	SNP	C	TCGA-18-3409-01A-01D-0983-08	23367	186300714	62949907	304	895										
RGS13	6003	broad.mit.edu	37	chr1	192628569	192628569	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaatagtctatatgcatatGgaaagggattcctaccccag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:192628569G>A	uc001gsj.2	+	7	677	c.396G>A	c.(394-396)ATG>ATA	p.M132I	RGS13_uc001gsk.2_Missense_Mutation_p.M132I	NM_002927	NP_002918	O14921	RGS13_HUMAN	regulator of G-protein signalling 13	132	RGS.					plasma membrane	GTPase activator activity|signal transducer activity				0						ATATGCATATGGAAAGGGATT	0.363													10	27	---	---	---	---	PASS	A	192628569	A	A	192628569	3	1	4	1	0	0	0	0	1	0	0	0	13296	1348	47	3	410	3	RGS13	1	192628569	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6327855	192628569	56622052	305	896	17	2								
RGS13	6003	broad.mit.edu	37	chr1	192628570	192628570	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatagtctatatgcatatgGaaagggattcctaccccaga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:192628570G>A	uc001gsj.2	+	7	678	c.397G>A	c.(397-399)GAA>AAA	p.E133K	RGS13_uc001gsk.2_Missense_Mutation_p.E133K	NM_002927	NP_002918	O14921	RGS13_HUMAN	regulator of G-protein signalling 13	133	RGS.					plasma membrane	GTPase activator activity|signal transducer activity				0						TATGCATATGGAAAGGGATTC	0.363													10	28	---	---	---	---	PASS	A	192628570	A	A	192628570	3	1	4	1	0	0	0	0	1	0	0	0	13296	1175	41	2	411	2	RGS13	1	192628570	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	192628570	56622051	306	897	17	2								
TROVE2	6738	broad.mit.edu	37	chr1	193051315	193051315	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tactgccattgaatttttcaGgttgtcacacgaacagaaaa	7	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:193051315G>T	uc001gss.2	+	7	1379	c.1204_splice	c.e7-1	p.V402_splice	TROVE2_uc001gst.1_Splice_Site_p.V127_splice|TROVE2_uc001gsu.1_Splice_Site_p.V127_splice|TROVE2_uc001gsv.1_Splice_Site_p.V402_splice|TROVE2_uc001gsw.2_Splice_Site_p.V402_splice|TROVE2_uc009wyp.2_Splice_Site_p.V402_splice|TROVE2_uc009wyq.2_Splice_Site_p.V402_splice|TROVE2_uc001gsx.1_Splice_Site_p.V402_splice	NM_004600	NP_004591	P10155	RO60_HUMAN	TROVE domain family, member 2 isoform 2						transcription from RNA polymerase III promoter	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0						GAATTTTTCAGGTTGTCACAC	0.323													4	48	---	---	---	---	PASS	T	193051315	T	T	193051315	5	4	4	1	0	0	0	0	0	0	1	0	16573	1014	35	3	1225	3	TROVE2	1	193051315	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	422745	193051315	56199306	307	898										
GLRX2	51022	broad.mit.edu	37	chr1	193070287	193070287	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcacttggatctggttcacaGgcgccgtcgctaaattctcc	9	13	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:193070287G>T	uc001gsz.1	-	2	211	c.167C>A	c.(166-168)CCT>CAT	p.P56H	GLRX2_uc001gta.1_Missense_Mutation_p.P57H	NM_197962	NP_932066	Q9NS18	GLRX2_HUMAN	glutaredoxin 2 isoform 2	56					apoptosis|cell differentiation|cell redox homeostasis|DNA protection|electron transport chain|glutathione metabolic process|protein thiol-disulfide exchange|regulation of signal transduction|regulation of transcription, DNA-dependent|response to hydrogen peroxide|response to organic substance|response to redox state|response to temperature stimulus|transport	mitochondrion|nucleus	2 iron, 2 sulfur cluster binding|arsenate reductase (glutaredoxin) activity|electron carrier activity|glutathione disulfide oxidoreductase activity|metal ion binding|protein disulfide oxidoreductase activity				0					Glutathione(DB00143)	CTGGTTCACAGGCGCCGTCGC	0.333													4	38	---	---	---	---	PASS	T	193070287	T	T	193070287	3	4	4	1	0	0	0	0	1	0	0	0	6460	1000	35	3	339	3	GLRX2	1	193070287	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	18972	193070287	56180334	308	899										
CFH	3075	broad.mit.edu	37	chr1	196658568	196658568	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgaaaccttgtgattatcCagacattaaacatggaggtc	9	7	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:196658568C>T	uc001gtj.3	+	8	1223	c.983C>T	c.(982-984)CCA>CTA	p.P328L	CFH_uc001gti.3_Missense_Mutation_p.P328L|CFH_uc009wyw.2_Intron|CFH_uc009wyx.2_Missense_Mutation_p.P264L	NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	328	Sushi 6.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						TGTGATTATCCAGACATTAAA	0.269													6	18	---	---	---	---	PASS	T	196658568	T	T	196658568	3	4	4	1	0	0	0	0	1	0	0	0	3283	594	21	3	1013	3	CFH	1	196658568	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3588281	196658568	52592053	309	900										
CFH	3075	broad.mit.edu	37	chr1	196706613	196706613	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcttcatttagaaaaaattCcatgttcacaaccacctcag	3	11	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:196706613C>T	uc001gtj.3	+	17	2845	c.2605C>T	c.(2605-2607)CCA>TCA	p.P869S		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	869	Sushi 15.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						AGAAAAAATTCCATGTTCACA	0.294													8	10	---	---	---	---	PASS	T	196706613	T	T	196706613	3	4	4	1	0	0	0	0	1	0	0	0	3283	855	30	2	2689	2	CFH	1	196706613	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	48045	196706613	52544008	310	901										
CFHR2	3080	broad.mit.edu	37	chr1	196920100	196920100	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacagacttcaaaacaatgaGaacaacatttcatgtgtaga	6	7	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:196920100G>A	uc001gtq.1	+	3	449	c.372G>A	c.(370-372)GAG>GAA	p.E124E	CFHR2_uc001gtr.1_Intron	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	124	Sushi 2.					extracellular region				skin(2)|ovary(1)	3						AAAACAATGAGAACAACATTT	0.393													9	37	---	---	---	---	PASS	A	196920100	A	A	196920100	2	1	4	1	0	0	0	0	0	0	0	1	3285	933	33	2		2	CFHR2	1	196920100	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	213487	196920100	52330521	311	902										
ASPM	259266	broad.mit.edu	37	chr1	197059368	197059368	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatggcagaaaggtgcttatAtgtcaaaaggtaatgaagtg	12	3	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:197059368A>T	uc001gtu.2	-	24	10044	c.9787T>A	c.(9787-9789)TAT>AAT	p.Y3263N	ASPM_uc001gtv.2_Missense_Mutation_p.Y1678N|ASPM_uc001gtw.3_Missense_Mutation_p.Y1111N	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	3263					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						AGGTGCTTATATGTCAAAAGG	0.333													12	46	---	---	---	---	PASS	T	197059368	T	T	197059368	3	4	4	1	0	0	0	0	1	0	0	0	1056	449	16	5	666	5	ASPM	1	197059368	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	139268	197059368	52191253	312	903										
ASPM	259266	broad.mit.edu	37	chr1	197099062	197099062	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taccatctctatacaggtgaGgaacagtggggtgtctatac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:197099062G>A	uc001gtu.2	-	8	2869	c.2612C>T	c.(2611-2613)CCT>CTT	p.P871L	ASPM_uc001gtv.2_Missense_Mutation_p.P871L|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	871					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						ATACAGGTGAGGAACAGTGGG	0.279													17	46	---	---	---	---	PASS	A	197099062	A	A	197099062	3	1	4	1	0	0	0	0	1	0	0	0	1056	1000	35	3	7905	3	ASPM	1	197099062	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	39694	197099062	52151559	313	904	18	2								
ASPM	259266	broad.mit.edu	37	chr1	197099063	197099063	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accatctctatacaggtgagGaacagtggggtgtctatact							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:197099063G>A	uc001gtu.2	-	8	2868	c.2611C>T	c.(2611-2613)CCT>TCT	p.P871S	ASPM_uc001gtv.2_Missense_Mutation_p.P871S|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	871					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TACAGGTGAGGAACAGTGGGG	0.279													17	46	---	---	---	---	PASS	A	197099063	A	A	197099063	3	1	4	1	0	0	0	0	1	0	0	0	1056	1174	41	2	7906	2	ASPM	1	197099063	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	197099063	52151558	314	905	18	2								
CRB1	23418	broad.mit.edu	37	chr1	197297777	197297777	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagctttctgtgcaaatgtcCtcctgggtacagtgggacaa	12	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:197297777C>T	uc001gtz.2	+	2	431	c.296C>T	c.(295-297)CCT>CTT	p.P99L	CRB1_uc010poz.1_Missense_Mutation_p.P30L|CRB1_uc001gty.1_Missense_Mutation_p.P99L|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.P99L|CRB1_uc010ppb.1_Missense_Mutation_p.P99L	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	99	Extracellular (Potential).|EGF-like 2.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TGCAAATGTCCTCCTGGGTAC	0.488													8	25	---	---	---	---	PASS	T	197297777	T	T	197297777	3	4	4	1	0	0	0	0	1	0	0	0	3848	681	24	3	302	3	CRB1	1	197297777	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	198714	197297777	51952844	315	906										
CRB1	23418	broad.mit.edu	37	chr1	197390651	197390651	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttcccacaacaccagcgatGgagagtggcatttcgtggag	12	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:197390651G>A	uc001gtz.2	+	6	1828	c.1693G>A	c.(1693-1695)GGA>AGA	p.G565R	CRB1_uc010poz.1_Missense_Mutation_p.G496R|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.G453R|CRB1_uc010ppb.1_Missense_Mutation_p.G565R|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_Missense_Mutation_p.G46R|CRB1_uc001gub.1_Missense_Mutation_p.G214R	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	565	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						CACCAGCGATGGAGAGTGGCA	0.463													32	60	---	---	---	---	PASS	A	197390651	A	A	197390651	3	1	4	1	0	0	0	0	1	0	0	0	3848	1349	47	3	1715	3	CRB1	1	197390651	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	92874	197390651	51859970	316	907										
CRB1	23418	broad.mit.edu	37	chr1	197404159	197404159	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaggtggcaaatggaagtgGacaacgaaacaccttttgtg	12	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:197404159G>A	uc001gtz.2	+	9	3301	c.3166G>A	c.(3166-3168)GAC>AAC	p.D1056N	CRB1_uc010poz.1_Missense_Mutation_p.D1032N|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.D944N|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.D537N|CRB1_uc001gub.1_Missense_Mutation_p.D705N	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1056	Extracellular (Potential).|Laminin G-like 3.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						AATGGAAGTGGACAACGAAAC	0.458													19	50	---	---	---	---	PASS	A	197404159	A	A	197404159	3	1	4	1	0	0	0	0	1	0	0	0	3848	1174	41	2	3200	2	CRB1	1	197404159	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	13508	197404159	51846462	317	908										
DENND1B	163486	broad.mit.edu	37	chr1	197479786	197479786	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgggtataagcagatcatctGaaatctggcttagtgtttcc	10	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:197479786G>A	uc010ppe.1	-	22	2410	c.2072C>T	c.(2071-2073)TCA>TTA	p.S691L	DENND1B_uc010ppf.1_RNA	NM_001142795	NP_001136267	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 1	Error:Variant_position_missing_in_Q6P3S1_after_alignment						clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						CAGATCATCTGAAATCTGGCT	0.443													16	42	---	---	---	---	PASS	A	197479786	A	A	197479786	3	1	4	1	0	0	0	0	1	0	0	0	4427	1294	45	2	199	2	DENND1B	1	197479786	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	75627	197479786	51770835	318	909										
DENND1B	163486	broad.mit.edu	37	chr1	197479927	197479927	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttgttactgttttcctctTtcaggataaacagagaatct	7	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:197479927T>C	uc010ppe.1	-	22	2269	c.1931A>G	c.(1930-1932)AAA>AGA	p.K644R	DENND1B_uc010ppf.1_RNA	NM_001142795	NP_001136267	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 1	Error:Variant_position_missing_in_Q6P3S1_after_alignment						clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						GTTTTCCTCTTTCAGGATAAA	0.493													20	32	---	---	---	---	PASS	C	197479927	C	C	197479927	3	2	4	1	0	0	0	0	1	0	0	0	4427	1841	64	5	340	5	DENND1B	1	197479927	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	141	197479927	51770694	319	910										
PTPRC	5788	broad.mit.edu	37	chr1	198723441	198723441	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattttgtgctttgttaaatCtcttagaaagtgcggaaaca	8	5	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:198723441C>T	uc001gur.1	+	32	3727	c.3547C>T	c.(3547-3549)CTC>TTC	p.L1183F	PTPRC_uc001gus.1_Missense_Mutation_p.L1135F|PTPRC_uc001gut.1_Missense_Mutation_p.L1022F	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	1183	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TTTGTTAAATCTCTTAGAAAG	0.373													12	40	---	---	---	---	PASS	T	198723441	T	T	198723441	3	4	4	1	0	0	0	0	1	0	0	0	12797	913	32	2	3680	2	PTPRC	1	198723441	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1243514	198723441	50527180	320	911										
KIF14	9928	broad.mit.edu	37	chr1	200569565	200569565	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgccgacagagcctgtatCgttcagggtcaatattccga	10	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:200569565C>T	uc010ppk.1	-	12	2658	c.2219G>A	c.(2218-2220)CGA>CAA	p.R740Q	KIF14_uc010ppj.1_Missense_Mutation_p.R249Q	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	740	Potential.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						GAGCCTGTATCGTTCAGGGTC	0.388													37	55	---	---	---	---	PASS	T	200569565	T	T	200569565	3	4	4	1	0	0	0	0	1	0	0	0	8276	884	31	2	2803	2	KIF14	1	200569565	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1846124	200569565	48681056	321	912										
CACNA1S	779	broad.mit.edu	37	chr1	201061124	201061124	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacccccgacaccagccggaGgggtctgagcactcggaagg	14	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:201061124G>T	uc001gvv.2	-	4	744	c.517C>A	c.(517-519)CTC>ATC	p.L173I		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	173	Helical; Name=S4 of repeat I; (Potential).|I.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	ACCAGCCGGAGGGGTCTGAGC	0.612													4	38	---	---	---	---	PASS	T	201061124	T	T	201061124	3	4	4	1	0	0	0	0	1	0	0	0	2547	1000	35	3	5268	3	CACNA1S	1	201061124	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	491559	201061124	48189497	322	913										
GPR37L1	9283	broad.mit.edu	37	chr1	202092462	202092462	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaccccctgtatccggtgaCcgagagctcctacagtgcct	10	15	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:202092462C>T	uc001gxj.2	+	1	434	c.371C>T	c.(370-372)ACC>ATC	p.T124I		NM_004767	NP_004758	O60883	ETBR2_HUMAN	G-protein coupled receptor 37 like 1 precursor	124	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2						TATCCGGTGACCGAGAGCTCC	0.602													7	27	---	---	---	---	PASS	T	202092462	T	T	202092462	3	4	4	1	0	0	0	0	1	0	0	0	6692	507	18	3	373	3	GPR37L1	1	202092462	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1031338	202092462	47158159	323	914										
KDM5B	10765	broad.mit.edu	37	chr1	202705412	202705412	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctttccaagcctgaacctCagctactagggtttccagtc	7	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:202705412C>T	uc001gyf.2	-	21	3309	c.3193G>A	c.(3193-3195)GAG>AAG	p.E1065K	KDM5B_uc009xag.2_Missense_Mutation_p.E1101K|KDM5B_uc001gyg.1_Missense_Mutation_p.E907K	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1065					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						GCCTGAACCTCAGCTACTAGG	0.433													7	39	---	---	---	---	PASS	T	202705412	T	T	202705412	3	4	4	1	0	0	0	0	1	0	0	0	8134	835	29	2	1469	2	KDM5B	1	202705412	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	612950	202705412	46545209	324	915										
FMOD	2331	broad.mit.edu	37	chr1	203317278	203317278	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atacgggtaagggtcataggGatcgtagtaggtggactgct	16	5	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:203317278G>A	uc001gzr.2	-	2	257	c.121C>T	c.(121-123)CCC>TCC	p.P41S	FMOD_uc010pqi.1_RNA	NM_002023	NP_002014	Q06828	FMOD_HUMAN	fibromodulin precursor	41					transforming growth factor beta receptor complex assembly	extracellular space|proteinaceous extracellular matrix				ovary(2)|breast(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.171)			GGGTCATAGGGATCGTAGTAG	0.597													9	39	---	---	---	---	PASS	A	203317278	A	A	203317278	3	1	4	1	0	0	0	0	1	0	0	0	5959	1174	41	2	1017	2	FMOD	1	203317278	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	611866	203317278	45933343	325	916										
RBBP5	5929	broad.mit.edu	37	chr1	205068920	205068920	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccactggaaatggatgctatGatgggtcgaacaggatgcca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:205068920G>A	uc001hbu.1	-	9	1057	c.927C>T	c.(925-927)ATC>ATT	p.I309I	RBBP5_uc010prd.1_Silent_p.I344I|RBBP5_uc001hbv.1_Silent_p.I309I|RBBP5_uc010pre.1_Silent_p.I176I	NM_005057	NP_005048	Q15291	RBBP5_HUMAN	retinoblastoma binding protein 5	309	WD 6.				histone H3-K4 methylation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription, DNA-dependent	MLL1 complex|Set1C/COMPASS complex	methylated histone residue binding|transcription regulatory region DNA binding			lung(1)	1	Breast(84;0.0505)		BRCA - Breast invasive adenocarcinoma(75;0.0923)			TGGATGCTATGATGGGTCGAA	0.353													28	60	---	---	---	---	PASS	A	205068920	A	A	205068920	2	1	4	1	0	0	0	0	0	0	0	1	13102	1280	45	2		2	RBBP5	1	205068920	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1751642	205068920	44181701	326	917	19	2								
RBBP5	5929	broad.mit.edu	37	chr1	205068922	205068922	+	Missense_Mutation	SNP	T	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actggaaatggatgctatgaTgggtcgaacaggatgccact							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:205068922T>A	uc001hbu.1	-	9	1055	c.925A>T	c.(925-927)ATC>TTC	p.I309F	RBBP5_uc010prd.1_Missense_Mutation_p.I344F|RBBP5_uc001hbv.1_Missense_Mutation_p.I309F|RBBP5_uc010pre.1_Missense_Mutation_p.I176F	NM_005057	NP_005048	Q15291	RBBP5_HUMAN	retinoblastoma binding protein 5	309	WD 6.				histone H3-K4 methylation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription, DNA-dependent	MLL1 complex|Set1C/COMPASS complex	methylated histone residue binding|transcription regulatory region DNA binding			lung(1)	1	Breast(84;0.0505)		BRCA - Breast invasive adenocarcinoma(75;0.0923)			GATGCTATGATGGGTCGAACA	0.353													29	59	---	---	---	---	PASS	A	205068922	A	A	205068922	3	1	4	1	0	0	0	0	1	0	0	0	13102	1464	51	5	715	5	RBBP5	1	205068922	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	2	205068922	44181699	327	918	19	2								
NUAK2	81788	broad.mit.edu	37	chr1	205272892	205272892	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgaggtggggcgagttcatCcagggagccgaaggtggtgg	21	7	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:205272892C>T	uc001hce.2	-	7	1700	c.1573G>A	c.(1573-1575)GAT>AAT	p.D525N		NM_030952	NP_112214	Q9H093	NUAK2_HUMAN	NUAK family, SNF1-like kinase, 2	525					actin cytoskeleton organization|apoptosis|cellular response to glucose starvation|negative regulation of apoptosis		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)	5	Breast(84;0.186)		BRCA - Breast invasive adenocarcinoma(75;0.117)			GCGAGTTCATCCAGGGAGCCG	0.642													12	12	---	---	---	---	PASS	T	205272892	T	T	205272892	3	4	4	1	0	0	0	0	1	0	0	0	10713	855	30	2	317	2	NUAK2	1	205272892	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	203970	205272892	43977729	328	919										
CDK18	5129	broad.mit.edu	37	chr1	205499823	205499823	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctaccgaggcttggccttCcagcagccaggtaggggctt	15	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:205499823C>T	uc001hcr.2	+	15	1689	c.1470C>T	c.(1468-1470)TTC>TTT	p.F490F	CDK18_uc001hcp.2_Silent_p.F460F|CDK18_uc001hcq.2_Silent_p.F460F|CDK18_uc010prj.1_Silent_p.F371F|CDK18_uc001hcs.2_Silent_p.F371F|CDK18_uc001hct.2_RNA	NM_212503	NP_997668	Q07002	CDK18_HUMAN	PCTAIRE protein kinase 3 isoform a	458							ATP binding|cyclin-dependent protein kinase activity|protein binding|signal transducer activity			stomach(2)	2						GCTTGGCCTTCCAGCAGCCAG	0.637													5	18	---	---	---	---	PASS	T	205499823	T	T	205499823	2	4	4	1	0	0	0	0	0	0	0	1	3134	854	30	2		2	CDK18	1	205499823	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	226931	205499823	43750798	329	920										
SLC45A3	85414	broad.mit.edu	37	chr1	205632640	205632640	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggctcagcaggatgcccaaGgacagtgcccagatgaaggg	15	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:205632640G>A	uc001hda.1	-	3	618	c.279C>T	c.(277-279)TCC>TCT	p.S93S	SLC45A3_uc010prn.1_5'Flank|SLC45A3_uc010pro.1_5'UTR|SLC45A3_uc010prp.1_Intron|ELK4_uc010prq.1_Intron	NM_033102	NP_149093	Q96JT2	S45A3_HUMAN	prostein	93	Helical; Name=3; (Potential).				transmembrane transport	integral to membrane			SLC45A3/BRAF(2)	ovary(2)|prostate(2)	4	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			GGATGCCCAAGGACAGTGCCC	0.672			T	ETV1|ETV5|ELK4|ERG	prostate 								8	13	---	---	---	---	PASS	A	205632640	A	A	205632640	2	1	4	1	0	0	0	0	0	0	0	1	14642	987	35	3		3	SLC45A3	1	205632640	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	132817	205632640	43617981	330	921										
SRGAP2	23380	broad.mit.edu	37	chr1	206634422	206634422	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcggccctgaatgagctacGggaactagaacggcagagca	13	11	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:206634422G>T	uc001hdy.2	+	20	2945	c.2612G>T	c.(2611-2613)CGG>CTG	p.R871L	SRGAP2_uc010pru.1_Missense_Mutation_p.R794L	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	958	Potential.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					AATGAGCTACGGGAACTAGAA	0.557													4	46	---	---	---	---	PASS	T	206634422	T	T	206634422	3	4	4	1	0	0	0	0	1	0	0	0	15145	1116	39	1	2695	1	SRGAP2	1	206634422	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1001782	206634422	42616199	331	922										
PIGR	5284	broad.mit.edu	37	chr1	207110615	207110615	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcctgccctcaaaggctggGgccctcttccccagggtgtt	11	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:207110615G>A	uc001hez.2	-	4	1054	c.870C>T	c.(868-870)GCC>GCT	p.A290A	PIGR_uc009xbz.2_Silent_p.A290A	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	290	Ig-like V-type 3.|Extracellular (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CAAAGGCTGGGGCCCTCTTCC	0.607													17	28	---	---	---	---	PASS	A	207110615	A	A	207110615	2	1	4	1	0	0	0	0	0	0	0	1	11897	1219	43	3		3	PIGR	1	207110615	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	476193	207110615	42140006	332	923										
FCAMR	83953	broad.mit.edu	37	chr1	207140980	207140980	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggagtagtccacttctcttCctctcctcaccacttcctgt	5	16	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:207140980C>T	uc001hfa.3	-	2	556	c.56G>A	c.(55-57)GGA>GAA	p.G19E	FCAMR_uc001hfb.2_Missense_Mutation_p.G19E|FCAMR_uc009xca.1_Missense_Mutation_p.G19E|FCAMR_uc001hfc.2_Intron	NM_001122980	NP_001116452	Q8WWV6	FCAMR_HUMAN	Fc receptor, IgA, IgM, high affinity isoform 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane|plasma membrane	receptor activity			ovary(1)	1						CACTTCTCTTCCTCTCCTCAC	0.249													20	79	---	---	---	---	PASS	T	207140980	T	T	207140980	3	4	4	1	0	0	0	0	1	0	0	0	5772	855	30	2	1705	2	FCAMR	1	207140980	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	30365	207140980	42109641	333	924										
C4BPA	722	broad.mit.edu	37	chr1	207307914	207307914	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggagatggcacgtggagtcCccgaacaccatcatgtggag	14	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:207307914C>T	uc001hfo.2	+	9	1444	c.1250C>T	c.(1249-1251)CCC>CTC	p.P417L		NM_000715	NP_000706	P04003	C4BPA_HUMAN	complement component 4 binding protein, alpha	417	Sushi 6.				complement activation, classical pathway|innate immune response	extracellular region	protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						ACGTGGAGTCCCCGAACACCA	0.393													24	61	---	---	---	---	PASS	T	207307914	T	T	207307914	3	4	4	1	0	0	0	0	1	0	0	0	2249	623	22	3	1280	3	C4BPA	1	207307914	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	166934	207307914	41942707	334	925										
CR1	1378	broad.mit.edu	37	chr1	207791529	207791529	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accccggctacctgttagtgGgaaagggcttcattttctgt	11	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:207791529G>A	uc001hfy.2	+	34	5793	c.5653G>A	c.(5653-5655)GGA>AGA	p.G1885R	CR1_uc001hfx.2_Missense_Mutation_p.G2335R	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1885	Sushi 29.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						CCTGTTAGTGGGAAAGGGCTT	0.443													29	102	---	---	---	---	PASS	A	207791529	A	A	207791529	3	1	4	1	0	0	0	0	1	0	0	0	3840	1233	43	3	7169	3	CR1	1	207791529	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	483615	207791529	41459092	335	926										
PLXNA2	5362	broad.mit.edu	37	chr1	208212981	208212981	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcaccagggtcttgtactcGatctgctgccggatgagctt	11	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:208212981G>A	uc001hgz.2	-	24	5243	c.4485C>T	c.(4483-4485)ATC>ATT	p.I1495I		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1495	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		TCTTGTACTCGATCTGCTGCC	0.587													23	40	---	---	---	---	PASS	A	208212981	A	A	208212981	2	1	4	1	0	0	0	0	0	0	0	1	12120	1048	37	2		2	PLXNA2	1	208212981	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	421452	208212981	41037640	336	927										
TRAF3IP3	80342	broad.mit.edu	37	chr1	209935985	209935985	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacaggacactcccatcaaGaagccacccaaacaccaccg	5	19	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:209935985G>A	uc001hho.2	+	4	761	c.471G>A	c.(469-471)AAG>AAA	p.K157K	TRAF3IP3_uc001hhl.2_Silent_p.K137K|TRAF3IP3_uc001hhm.1_Silent_p.K157K|TRAF3IP3_uc001hhn.2_Silent_p.K137K|TRAF3IP3_uc009xcr.2_Silent_p.K157K	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	157	Cytoplasmic (Potential).					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		CTCCCATCAAGAAGCCACCCA	0.597													13	33	---	---	---	---	PASS	A	209935985	A	A	209935985	2	1	4	1	0	0	0	0	0	0	0	1	16439	933	33	2		2	TRAF3IP3	1	209935985	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1723004	209935985	39314636	337	928										
LPGAT1	9926	broad.mit.edu	37	chr1	211961039	211961039	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtttgtgtacttaaaaatatGatccatcaaccacatcatct	4	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:211961039G>A	uc001hiu.2	-	4	1201	c.388C>T	c.(388-390)CAT>TAT	p.H130Y	LPGAT1_uc001hiv.2_Missense_Mutation_p.H130Y	NM_014873	NP_055688	Q92604	LGAT1_HUMAN	lysophosphatidylglycerol acyltransferase 1	130					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.00773)|all cancers(67;0.0765)|Epithelial(68;0.114)		TTAAAAATATGATCCATCAAC	0.348													10	28	---	---	---	---	PASS	A	211961039	A	A	211961039	3	1	4	1	0	0	0	0	1	0	0	0	8914	1290	45	2	744	2	LPGAT1	1	211961039	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2025054	211961039	37289582	338	929										
PROX1	5629	broad.mit.edu	37	chr1	214171001	214171001	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaaagtcttttcggccaagCcctcccgccaggttcctcag	8	16	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:214171001C>T	uc001hkh.2	+	2	1395	c.1123C>T	c.(1123-1125)CCC>TCC	p.P375S	PROX1_uc001hkg.1_Missense_Mutation_p.P375S	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	375					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		TTCGGCCAAGCCCTCCCGCCA	0.542													12	48	---	---	---	---	PASS	T	214171001	T	T	214171001	3	4	4	1	0	0	0	0	1	0	0	0	12560	739	26	3	1125	3	PROX1	1	214171001	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2209962	214171001	35079620	339	930										
USH2A	7399	broad.mit.edu	37	chr1	215821889	215821889	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgtgaatgacaccattggGgaacatggggggactccacc	13	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:215821889G>A	uc001hku.1	-	66	14950	c.14563C>T	c.(14563-14565)CCC>TCC	p.P4855S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4855	Extracellular (Potential).|Fibronectin type-III 34.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACACCATTGGGGAACATGGGG	0.493										HNSCC(13;0.011)			25	33	---	---	---	---	PASS	A	215821889	A	A	215821889	3	1	4	1	0	0	0	0	1	0	0	0	17033	1232	43	3	1073	3	USH2A	1	215821889	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1650888	215821889	33428732	340	931										
USH2A	7399	broad.mit.edu	37	chr1	215955428	215955428	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaccgtgcaagctttcagctGatatgaatattcctgaaatg	8	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:215955428G>A	uc001hku.1	-	54	11083	c.10696C>T	c.(10696-10698)CAG>TAG	p.Q3566*		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3566	Extracellular (Potential).|Fibronectin type-III 20.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GCTTTCAGCTGATATGAATAT	0.433										HNSCC(13;0.011)			13	44	---	---	---	---	PASS	A	215955428	A	A	215955428	4	1	4	1	0	0	0	0	0	1	0	0	17033	1299	45	2	4988	2	USH2A	1	215955428	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	133539	215955428	33295193	341	932										
USH2A	7399	broad.mit.edu	37	chr1	215960216	215960216	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatcctgcactctttggtttCctgagtcaagtggcaggggt	13	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:215960216C>T	uc001hku.1	-	52	10570	c.10183G>A	c.(10183-10185)GAA>AAA	p.E3395K		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3395	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TCTTTGGTTTCCTGAGTCAAG	0.433										HNSCC(13;0.011)			5	14	---	---	---	---	PASS	T	215960216	T	T	215960216	3	4	4	1	0	0	0	0	1	0	0	0	17033	869	30	2	5509	2	USH2A	1	215960216	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4788	215960216	33290405	342	933										
RAB3GAP2	25782	broad.mit.edu	37	chr1	220384317	220384317	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttttggcttgctagtggGatacatagagcactggttac	11	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:220384317G>A	uc010puk.1	-	5	578	c.414C>T	c.(412-414)ATC>ATT	p.I138I	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_5'UTR|RAB3GAP2_uc010pum.1_Silent_p.I138I	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	138					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		TTGCTAGTGGGATACATAGAG	0.313													5	17	---	---	---	---	PASS	A	220384317	A	A	220384317	2	1	4	1	0	0	0	0	0	0	0	1	12936	1164	41	2		2	RAB3GAP2	1	220384317	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4424101	220384317	28866304	343	934										
HHIPL2	79802	broad.mit.edu	37	chr1	222712088	222712088	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actgacttccccactgcatgGccataagcatagattggcag	9	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:222712088G>A	uc001hnh.1	-	5	1537	c.1479C>T	c.(1477-1479)GGC>GGT	p.G493G		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	493					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		CCACTGCATGGCCATAAGCAT	0.473													8	36	---	---	---	---	PASS	A	222712088	A	A	222712088	2	1	4	1	0	0	0	0	0	0	0	1	7094	1190	42	3		3	HHIPL2	1	222712088	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2327771	222712088	26538533	344	935										
TAF1A	9015	broad.mit.edu	37	chr1	222742992	222742992	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttgggctccatctcgatCcccatagaattccagcatct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:222742992C>T	uc009xdz.1	-	7	943	c.754G>A	c.(754-756)GAT>AAT	p.D252N	TAF1A_uc001hni.1_Missense_Mutation_p.D138N|TAF1A_uc001hnj.2_Missense_Mutation_p.D252N|TAF1A_uc001hnk.2_Missense_Mutation_p.D138N|TAF1A_uc010pur.1_Missense_Mutation_p.D252N	NM_139352	NP_647603	Q15573	TAF1A_HUMAN	TBP-associated factor 1A isoform 2	252					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	RNA polymerase I transcription factor complex	DNA binding				0				GBM - Glioblastoma multiforme(131;0.0186)		CCATCTCGATCCCCATAGAAT	0.333													11	17	---	---	---	---	PASS	T	222742992	T	T	222742992	3	4	4	1	0	0	0	0	1	0	0	0	15516	855	30	2	618	2	TAF1A	1	222742992	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	30904	222742992	26507629	345	936	20	2								
TAF1A	9015	broad.mit.edu	37	chr1	222742994	222742994	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgggctccatctcgatccCcatagaattccagcatctat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:222742994C>T	uc009xdz.1	-	7	941	c.752G>A	c.(751-753)GGG>GAG	p.G251E	TAF1A_uc001hni.1_Missense_Mutation_p.G137E|TAF1A_uc001hnj.2_Missense_Mutation_p.G251E|TAF1A_uc001hnk.2_Missense_Mutation_p.G137E|TAF1A_uc010pur.1_Missense_Mutation_p.G251E	NM_139352	NP_647603	Q15573	TAF1A_HUMAN	TBP-associated factor 1A isoform 2	251					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	RNA polymerase I transcription factor complex	DNA binding				0				GBM - Glioblastoma multiforme(131;0.0186)		ATCTCGATCCCCATAGAATTC	0.333													12	17	---	---	---	---	PASS	T	222742994	T	T	222742994	3	4	4	1	0	0	0	0	1	0	0	0	15516	623	22	3	620	3	TAF1A	1	222742994	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2	222742994	26507627	346	937	20	2								
MIA3	375056	broad.mit.edu	37	chr1	222801364	222801364	+	Frame_Shift_Del	DEL	A	-	-													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgatgcctataaacttttgAaaaaagaaatgactctagac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:222801364delA	uc001hnl.2	+	4	811	c.802delA	c.(802-804)AAAfs	p.K268fs	MIA3_uc009xea.1_Frame_Shift_Del_p.K104fs	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	268	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		TAAACTTTTGAAAAAAGAAAT	0.358													34	15	---	---	---	---		-	222801364	-	-	222801364	7	5	4	1	0	1	0	1	0	0	0	0	9565	247	9	0	816	0	MIA3	1	222801364	Frame_Shift_Del	DEL	A	TCGA-18-3409-01A-01D-0983-08	58370	222801364	26449257	347	938										
DISP1	84976	broad.mit.edu	37	chr1	223178588	223178588	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacaaacacttgaactatggCccacactcttgccagcagat	6	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:223178588C>T	uc001hnu.1	+	8	3996	c.3849C>T	c.(3847-3849)GGC>GGT	p.G1283G		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1283					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TGAACTATGGCCCACACTCTT	0.532													36	59	---	---	---	---	PASS	T	223178588	T	T	223178588	2	4	4	1	0	0	0	0	0	0	0	1	4539	726	26	3		3	DISP1	1	223178588	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	377224	223178588	26072033	348	939										
LBR	3930	broad.mit.edu	37	chr1	225607146	225607146	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgctttcttgtgacaaactGaatttttcctaaatgaaaaa	5	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:225607146G>A	uc001hoy.2	-	5	602	c.459C>T	c.(457-459)TTC>TTT	p.F153F	LBR_uc001hoz.2_Silent_p.F153F|LBR_uc001hpa.1_Silent_p.F153F	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	153	Nucleoplasmic (Potential).				cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		GTGACAAACTGAATTTTTCCT	0.294													7	22	---	---	---	---	PASS	A	225607146	A	A	225607146	2	1	4	1	0	0	0	0	0	0	0	1	8652	1281	45	2		2	LBR	1	225607146	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2428558	225607146	23643475	349	940										
OBSCN	84033	broad.mit.edu	37	chr1	228402727	228402727	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggcggaggaggggaacttcCagttccgagtgtccgctctc	15	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:228402727C>T	uc009xez.1	+	5	1800	c.1756C>T	c.(1756-1758)CAG>TAG	p.Q586*	OBSCN_uc001hsn.2_Nonsense_Mutation_p.Q586*|uc001hsm.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	586	Fibronectin type-III 1.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGGGAACTTCCAGTTCCGAGT	0.587													8	16	---	---	---	---	PASS	T	228402727	T	T	228402727	4	4	4	1	0	0	0	0	0	1	0	0	10812	595	21	3	1770	3	OBSCN	1	228402727	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2795581	228402727	20847894	350	941										
OBSCN	84033	broad.mit.edu	37	chr1	228479641	228479641	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggtctgaggaatgaagaggCcgtggaaggggccacagcca	18	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:228479641C>T	uc009xez.1	+	39	10426	c.10382C>T	c.(10381-10383)GCC>GTC	p.A3461V	OBSCN_uc001hsn.2_Missense_Mutation_p.A3461V|OBSCN_uc001hsq.1_Missense_Mutation_p.A717V	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3461	Ig-like 35.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AATGAAGAGGCCGTGGAAGGG	0.587													17	34	---	---	---	---	PASS	T	228479641	T	T	228479641	3	4	4	1	0	0	0	0	1	0	0	0	10812	739	26	3	10532	3	OBSCN	1	228479641	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	76914	228479641	20770980	351	942										
OBSCN	84033	broad.mit.edu	37	chr1	228509746	228509746	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgaggcgctcactgaggcCcgccaggcggtaactcgctt	13	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:228509746C>T	uc009xez.1	+	55	15248	c.15204C>T	c.(15202-15204)GCC>GCT	p.A5068A	OBSCN_uc001hsn.2_Silent_p.A5068A	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5068					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TCACTGAGGCCCGCCAGGCGG	0.607													5	10	---	---	---	---	PASS	T	228509746	T	T	228509746	2	4	4	1	0	0	0	0	0	0	0	1	10812	610	22	3		3	OBSCN	1	228509746	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	30105	228509746	20740875	352	943										
OBSCN	84033	broad.mit.edu	37	chr1	228553854	228553854	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caattcgaggctatcattgaGggcgacccacagccctcggt	11	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:228553854G>A	uc009xez.1	+	83	19187	c.19143G>A	c.(19141-19143)GAG>GAA	p.E6381E	OBSCN_uc001hsr.1_Silent_p.E1010E	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	6381	Ig-like 54.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CTATCATTGAGGGCGACCCAC	0.652													8	28	---	---	---	---	PASS	A	228553854	A	A	228553854	2	1	4	1	0	0	0	0	0	0	0	1	10812	991	35	3		3	OBSCN	1	228553854	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	44108	228553854	20696767	353	944										
HIST3H2A	92815	broad.mit.edu	37	chr1	228645439	228645439	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accggtgcacgcggcccacgGggaactgcagccccgcgcgc	15	18	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:228645439G>A	uc001hsy.2	-	1	122	c.80C>T	c.(79-81)CCC>CTC	p.P27L	HIST3H2BB_uc001hsz.2_5'Flank	NM_033445	NP_254280	Q7L7L0	H2A3_HUMAN	histone cluster 3, H2a	27					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)	1		Prostate(94;0.183)				GCGGCCCACGGGGAACTGCAG	0.667													5	15	---	---	---	---	PASS	A	228645439	A	A	228645439	3	1	4	1	0	0	0	0	1	0	0	0	7182	1232	43	3	316	3	HIST3H2A	1	228645439	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	91585	228645439	20605182	354	945										
ABCB10	23456	broad.mit.edu	37	chr1	229663027	229663027	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacactgggtttagctgacgGatgtcatggccatcaagact	11	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:229663027G>A	uc001htp.3	-	9	1717	c.1674C>T	c.(1672-1674)ATC>ATT	p.I558I		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	558	Mitochondrial intermembrane (Potential).|ABC transporter.|Mitochondrial matrix (Potential).			IRQLNP -> NPSAKPS (in Ref. 6; AAA84438).		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)				TTAGCTGACGGATGTCATGGC	0.428													29	63	---	---	---	---	PASS	A	229663027	A	A	229663027	2	1	4	1	0	0	0	0	0	0	0	1	41	1164	41	2		2	ABCB10	1	229663027	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1017588	229663027	19587594	355	946										
ABCB10	23456	broad.mit.edu	37	chr1	229676480	229676480	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcgaacagttcttacatttCcaatacgttcctcagctagc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:229676480C>T	uc001htp.3	-	5	1119	c.1076G>A	c.(1075-1077)GGA>GAA	p.G359E		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	359	Mitochondrial intermembrane (Potential).|Mitochondrial matrix (Potential).|ABC transmembrane type-1.					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)				TCTTACATTTCCAATACGTTC	0.388													12	36	---	---	---	---	PASS	T	229676480	T	T	229676480	3	4	4	1	0	0	0	0	1	0	0	0	41	855	30	2	1176	2	ABCB10	1	229676480	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	13453	229676480	19574141	356	947	21	2								
ABCB10	23456	broad.mit.edu	37	chr1	229676481	229676481	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgaacagttcttacatttcCaatacgttcctcagctagct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:229676481C>T	uc001htp.3	-	5	1118	c.1075G>A	c.(1075-1077)GGA>AGA	p.G359R		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	359	Mitochondrial intermembrane (Potential).|Mitochondrial matrix (Potential).|ABC transmembrane type-1.					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)				CTTACATTTCCAATACGTTCC	0.388													12	34	---	---	---	---	PASS	T	229676481	T	T	229676481	3	4	4	1	0	0	0	0	1	0	0	0	41	603	21	3	1177	3	ABCB10	1	229676481	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	229676481	19574140	357	948	21	2								
ABCB10	23456	broad.mit.edu	37	chr1	229685173	229685173	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actggacatcgtgagaaatcCaaccgcagctagaaaacaca	8	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:229685173C>T	uc001htp.3	-	2	569	c.526G>A	c.(526-528)GGA>AGA	p.G176R		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	176	Mitochondrial intermembrane (Potential).|ABC transmembrane type-1.|Helical; (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)				GTGAGAAATCCAACCGCAGCT	0.498													4	11	---	---	---	---	PASS	T	229685173	T	T	229685173	3	4	4	1	0	0	0	0	1	0	0	0	41	603	21	3	1738	3	ABCB10	1	229685173	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	8692	229685173	19565448	358	949										
COG2	22796	broad.mit.edu	37	chr1	230827218	230827218	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacaagccagaaaaaccactCccgccaaccccgtcggtccc	6	19	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:230827218C>T	uc001htw.2	+	17	2174	c.2023C>T	c.(2023-2025)CCC>TCC	p.P675S	COG2_uc001htx.2_Missense_Mutation_p.P674S|COG2_uc010pwc.1_Missense_Mutation_p.P548S	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	675					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				AAAAACCACTCCCGCCAACCC	0.498													7	36	---	---	---	---	PASS	T	230827218	T	T	230827218	3	4	4	1	0	0	0	0	1	0	0	0	3658	855	30	2	2089	2	COG2	1	230827218	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1142045	230827218	18423403	359	950										
TTC13	79573	broad.mit.edu	37	chr1	231069594	231069594	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttcaaagcttctttgaagGattcaatagcttcctataaa	6	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:231069594G>A	uc001huf.3	-	9	945	c.914C>T	c.(913-915)TCC>TTC	p.S305F	TTC13_uc009xfi.2_Missense_Mutation_p.S252F|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Missense_Mutation_p.S252F|TTC13_uc009xfk.1_Missense_Mutation_p.S195F	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	305	TPR 4.						binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		TTCTTTGAAGGATTCAATAGC	0.289													16	18	---	---	---	---	PASS	A	231069594	A	A	231069594	3	1	4	1	0	0	0	0	1	0	0	0	16677	1174	41	2	1728	2	TTC13	1	231069594	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	242376	231069594	18181027	360	951										
PCNXL2	80003	broad.mit.edu	37	chr1	233150490	233150490	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaggacagagtcaccaaggGagagtcctcgtcactgtcca	12	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:233150490G>A	uc001hvl.2	-	28	5108	c.4873C>T	c.(4873-4875)CCC>TCC	p.P1625S	PCNXL2_uc001hvk.1_Missense_Mutation_p.P277S|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1625						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GTCACCAAGGGAGAGTCCTCG	0.527													16	28	---	---	---	---	PASS	A	233150490	A	A	233150490	3	1	4	1	0	0	0	0	1	0	0	0	11592	1174	41	2	1568	2	PCNXL2	1	233150490	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2080896	233150490	16100131	361	952										
LYST	1130	broad.mit.edu	37	chr1	235967923	235967923	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatcacctttgactgggaaaGatggtccctcatttcaaata	7	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:235967923G>A	uc001hxj.2	-	7	3611	c.3436C>T	c.(3436-3438)CTT>TTT	p.L1146F	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Missense_Mutation_p.L1146F	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	1146					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GACTGGGAAAGATGGTCCCTC	0.333									Chediak-Higashi_syndrome				20	39	---	---	---	---	PASS	A	235967923	A	A	235967923	3	1	4	1	0	0	0	0	1	0	0	0	9128	942	33	2	8157	2	LYST	1	235967923	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2817433	235967923	13282698	362	953										
RYR2	6262	broad.mit.edu	37	chr1	237540665	237540665	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaccctgcctctaagcagcGatcagaaggagaaaaagtac	9	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:237540665G>A	uc001hyl.1	+	8	626	c.506G>A	c.(505-507)CGA>CAA	p.R169Q		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	169	Cytoplasmic (By similarity).				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)			TCTAAGCAGCGATCAGAAGGA	0.418													20	25	---	---	---	---	PASS	A	237540665	A	A	237540665	3	1	4	1	0	0	0	0	1	0	0	0	13769	1058	37	2	536	2	RYR2	1	237540665	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1572742	237540665	11709956	363	954										
RYR2	6262	broad.mit.edu	37	chr1	237659980	237659980	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctccctaccctggagggggcGaagagtggggtggaaatggt	18	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:237659980G>A	uc001hyl.1	+	20	2251	c.2131G>A	c.(2131-2133)GAA>AAA	p.E711K		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	711	Cytoplasmic (By similarity).|B30.2/SPRY 1.				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)			TGGAGGGGGCGAAGAGTGGGG	0.522													24	52	---	---	---	---	PASS	A	237659980	A	A	237659980	3	1	4	1	0	0	0	0	1	0	0	0	13769	1059	37	2	2209	2	RYR2	1	237659980	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	119315	237659980	11590641	364	955										
RYR2	6262	broad.mit.edu	37	chr1	237777985	237777985	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgagcccagtgtgtttaaaGaagctgccactccggaggag	13	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:237777985G>A	uc001hyl.1	+	37	5677	c.5557G>A	c.(5557-5559)GAA>AAA	p.E1853K		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1853	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TGTGTTTAAAGAAGCTGCCAC	0.517													6	23	---	---	---	---	PASS	A	237777985	A	A	237777985	3	1	4	1	0	0	0	0	1	0	0	0	13769	943	33	2	5703	2	RYR2	1	237777985	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	118005	237777985	11472636	365	956										
CHRM3	1131	broad.mit.edu	37	chr1	240071961	240071961	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggatggtggacttggagaggAaagccgacaagctgcaggcc	17	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:240071961A>C	uc001hyp.2	+	5	1989	c.1210A>C	c.(1210-1212)AAA>CAA	p.K404Q		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	404	Cytoplasmic (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	CTTGGAGAGGAAAGCCGACAA	0.577													12	11	---	---	---	---	PASS	C	240071961	C	C	240071961	3	2	4	1	0	0	0	0	1	0	0	0	3378	247	9	5	1212	5	CHRM3	1	240071961	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2293976	240071961	9178660	366	957										
FMN2	56776	broad.mit.edu	37	chr1	240370099	240370099	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgtccttgtcgcccttcagGaagttgttgacatgaagtct	10	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:240370099G>A	uc010pyd.1	+	5	2212	c.1987G>A	c.(1987-1989)GAA>AAA	p.E663K	FMN2_uc010pye.1_Missense_Mutation_p.E667K	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	663					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CGCCCTTCAGGAAGTTGTTGA	0.393													6	20	---	---	---	---	PASS	A	240370099	A	A	240370099	3	1	4	1	0	0	0	0	1	0	0	0	5950	1188	41	2	2005	2	FMN2	1	240370099	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	298138	240370099	8880522	367	958										
FMN2	56776	broad.mit.edu	37	chr1	240371850	240371850	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtatcaggccctccactcctCccacaagttgggagtagcac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:240371850C>T	uc010pyd.1	+	5	3963	c.3738C>T	c.(3736-3738)CTC>CTT	p.L1246L	FMN2_uc010pye.1_Silent_p.L1250L	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1246	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CTCCACTCCTCCCACAAGTTG	0.567													8	26	---	---	---	---	PASS	T	240371850	T	T	240371850	2	4	4	1	0	0	0	0	0	0	0	1	5950	842	30	2		2	FMN2	1	240371850	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1751	240371850	8878771	368	959	22	2								
FMN2	56776	broad.mit.edu	37	chr1	240371851	240371851	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatcaggccctccactcctcCcacaagttgggagtagcact							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:240371851C>T	uc010pyd.1	+	5	3964	c.3739C>T	c.(3739-3741)CCA>TCA	p.P1247S	FMN2_uc010pye.1_Missense_Mutation_p.P1251S	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1247	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TCCACTCCTCCCACAAGTTGG	0.562													9	27	---	---	---	---	PASS	T	240371851	T	T	240371851	3	4	4	1	0	0	0	0	1	0	0	0	5950	623	22	3	3757	3	FMN2	1	240371851	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	240371851	8878770	369	960	22	2								
FMN2	56776	broad.mit.edu	37	chr1	240497239	240497239	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcgtattatctccgaaattTtgatgaggtaagacaatttt	7	5	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:240497239T>A	uc010pyd.1	+	12	4862	c.4637T>A	c.(4636-4638)TTT>TAT	p.F1546Y	FMN2_uc010pye.1_Missense_Mutation_p.F1550Y|FMN2_uc010pyf.1_Missense_Mutation_p.F192Y|FMN2_uc010pyg.1_Missense_Mutation_p.F142Y	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1546	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CTCCGAAATTTTGATGAGGTA	0.294													7	19	---	---	---	---	PASS	A	240497239	A	A	240497239	3	1	4	1	0	0	0	0	1	0	0	0	5950	1841	64	5	4683	5	FMN2	1	240497239	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	125388	240497239	8753382	370	961										
WDR64	128025	broad.mit.edu	37	chr1	241886653	241886653	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatcagcaccaagccagtagGgaaacttgtaggacacatgt	10	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:241886653G>A	uc001hze.1	+	9	1286	c.1079G>A	c.(1078-1080)GGG>GAG	p.G360E	WDR64_uc001hzf.1_Missense_Mutation_p.G80E			B1ANS9	WDR64_HUMAN	RecName: Full=WD repeat-containing protein 64;	360	WD 3.									skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			AAGCCAGTAGGGAAACTTGTA	0.448													9	34	---	---	---	---	PASS	A	241886653	A	A	241886653	3	1	4	1	0	0	0	0	1	0	0	0	17312	1232	43	3	1113	3	WDR64	1	241886653	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1389414	241886653	7363968	371	962										
WDR64	128025	broad.mit.edu	37	chr1	241953957	241953957	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcccaaggcctttgaagtgGaacaggatttcaagtttttc	9	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:241953957G>A	uc001hzf.1	+	14	1738	c.1585G>A	c.(1585-1587)GAA>AAA	p.E529K	WDR64_uc001hzg.1_Missense_Mutation_p.E442K	NM_144625	NP_653226	B1ANS9	WDR64_HUMAN	WD repeat domain 64	976										skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			CTTTGAAGTGGAACAGGATTT	0.348													13	72	---	---	---	---	PASS	A	241953957	A	A	241953957	3	1	4	1	0	0	0	0	1	0	0	0	17312	1175	41	2	3020	2	WDR64	1	241953957	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	67304	241953957	7296664	372	963										
EXO1	9156	broad.mit.edu	37	chr1	242042543	242042543	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtctcatcccttacgagaAgaggcatgttcttcacagtc	9	11	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:242042543A>C	uc001hzh.2	+	13	2547	c.2007A>C	c.(2005-2007)GAA>GAC	p.E669D	EXO1_uc001hzi.2_Missense_Mutation_p.E669D|EXO1_uc001hzj.2_Missense_Mutation_p.E669D|EXO1_uc009xgq.2_Missense_Mutation_p.E668D	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	669	Interaction with MSH2.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			CCTTACGAGAAGAGGCATGTT	0.468								Direct_reversal_of_damage|Editing_and_processing_nucleases					20	38	---	---	---	---	PASS	C	242042543	C	C	242042543	3	2	4	1	0	0	0	0	1	0	0	0	5300	69	3	5	2045	5	EXO1	1	242042543	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	88586	242042543	7208078	373	964										
PLD5	200150	broad.mit.edu	37	chr1	242253243	242253243	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgaacaggcttgagcagttCggctgtttggttggctgtaa	14	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:242253243C>T	uc001hzn.1	-	10	1651	c.1524G>A	c.(1522-1524)CCG>CCA	p.P508P	PLD5_uc001hzl.3_Silent_p.P446P|PLD5_uc001hzm.3_Silent_p.P298P|PLD5_uc001hzo.1_Silent_p.P416P			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	508						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			TTGAGCAGTTCGGCTGTTTGG	0.453													30	78	---	---	---	---	PASS	T	242253243	T	T	242253243	2	4	4	1	0	0	0	0	0	0	0	1	12049	871	31	2		2	PLD5	1	242253243	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	210700	242253243	6997378	374	965										
AKT3	10000	broad.mit.edu	37	chr1	243809233	243809233	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtagaggcatccatctcttCctctcctatattatcaattt	4	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:243809233C>T	uc001iab.1	-	4	472	c.391G>A	c.(391-393)GAA>AAA	p.E131K	AKT3_uc001hzz.1_Missense_Mutation_p.E131K	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	131					signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)			TCCATCTCTTCCTCTCCTATA	0.388													10	19	---	---	---	---	PASS	T	243809233	T	T	243809233	3	4	4	1	0	0	0	0	1	0	0	0	481	864	30	2	1136	2	AKT3	1	243809233	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1555990	243809233	5441388	375	966										
SCCPDH	51097	broad.mit.edu	37	chr1	246922380	246922380	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcaaaggttattccattcCttttatgggatctgatgtgt	8	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:246922380C>T	uc001ibr.2	+	7	1087	c.740C>T	c.(739-741)CCT>CTT	p.P247L		NM_016002	NP_057086	Q8NBX0	SCPDH_HUMAN	saccharopine dehydrogenase (putative)	247						midbody	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity			ovary(1)	1	all_cancers(71;6.8e-05)|all_epithelial(71;7.93e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0545)|Lung NSC(105;0.0618)	all_cancers(173;0.0343)	OV - Ovarian serous cystadenocarcinoma(106;0.00323)	GBM - Glioblastoma multiforme(49;0.0896)		TATTCCATTCCTTTTATGGGA	0.363													26	71	---	---	---	---	PASS	T	246922380	T	T	246922380	3	4	4	1	0	0	0	0	1	0	0	0	13885	681	24	3	766	3	SCCPDH	1	246922380	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3113147	246922380	2328241	376	967										
ZNF669	79862	broad.mit.edu	37	chr1	247264612	247264612	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttcacacagtctctgtacGatatgatttctgtaaaaaaa	5	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:247264612G>A	uc001ice.2	-	4	632	c.459C>T	c.(457-459)ATC>ATT	p.I153I	ZNF669_uc001icf.2_Silent_p.I67I	NM_024804	NP_079080	Q96BR6	ZN669_HUMAN	zinc finger protein 669 isoform 1	153	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;4.09e-05)|all_epithelial(71;6.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0283)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00427)			GTCTCTGTACGATATGATTTC	0.328													25	36	---	---	---	---	PASS	A	247264612	A	A	247264612	2	1	4	1	0	0	0	0	0	0	0	1	18073	1048	37	2		2	ZNF669	1	247264612	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	342232	247264612	1986009	377	968										
NLRP3	114548	broad.mit.edu	37	chr1	247588388	247588388	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaaggacgaacgttccagGgagtcgtttgaagcttccca	13	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:247588388G>A	uc001icr.2	+	5	1781	c.1643G>A	c.(1642-1644)GGG>GAG	p.G548E	NLRP3_uc001ics.2_Missense_Mutation_p.G548E|NLRP3_uc001icu.2_Missense_Mutation_p.G548E|NLRP3_uc001icw.2_Missense_Mutation_p.G548E|NLRP3_uc001icv.2_Missense_Mutation_p.G548E|NLRP3_uc010pyw.1_Missense_Mutation_p.G546E|NLRP3_uc001ict.1_Missense_Mutation_p.G546E	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	548					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			AACGTTCCAGGGAGTCGTTTG	0.463													3	17	---	---	---	---	PASS	A	247588388	A	A	247588388	3	1	4	1	0	0	0	0	1	0	0	0	10478	1232	43	3	1653	3	NLRP3	1	247588388	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	323776	247588388	1662233	378	969										
NLRP3	114548	broad.mit.edu	37	chr1	247607969	247607969	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagattagacaactgcaacCtcacgtcacactgctgctgg	9	13	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:247607969C>T	uc001icr.2	+	10	2995	c.2857C>T	c.(2857-2859)CTC>TTC	p.L953F	NLRP3_uc001ics.2_Missense_Mutation_p.L896F|NLRP3_uc001icu.2_Missense_Mutation_p.L953F|NLRP3_uc001icw.2_Missense_Mutation_p.L896F|NLRP3_uc001icv.2_Missense_Mutation_p.L839F|NLRP3_uc010pyw.1_Missense_Mutation_p.L931F	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	953	LRR 8.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			CAACTGCAACCTCACGTCACA	0.522													8	16	---	---	---	---	PASS	T	247607969	T	T	247607969	3	4	4	1	0	0	0	0	1	0	0	0	10478	681	24	3	2887	3	NLRP3	1	247607969	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	19581	247607969	1642652	379	970										
OR2G2	81470	broad.mit.edu	37	chr1	247752441	247752441	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttatggaaccatcatcttCatgtatctgcagccagccaa	6	11	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:247752441C>T	uc010pyy.1	+	1	780	c.780C>T	c.(778-780)TTC>TTT	p.F260F		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	260	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			ccatcatcttcatgtatctgc	0.373													45	61	---	---	---	---	PASS	T	247752441	T	T	247752441	2	4	4	1	0	0	0	0	0	0	0	1	10998	825	29	2		2	OR2G2	1	247752441	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	144472	247752441	1498180	380	971										
OR1C1	26188	broad.mit.edu	37	chr1	247920818	247920818	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attttctgaagtcccctcttCatatccctgttccttagggt	6	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:247920818C>T	uc010pza.1	-	1	891	c.891G>A	c.(889-891)ATG>ATA	p.M297I		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			GTCCCCTCTTCATATCCCTGT	0.428													19	57	---	---	---	---	PASS	T	247920818	T	T	247920818	3	4	4	1	0	0	0	0	1	0	0	0	10952	826	29	2	55	2	OR1C1	1	247920818	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	168377	247920818	1329803	381	972										
OR1C1	26188	broad.mit.edu	37	chr1	247921615	247921615	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtggctaaatacatacagaGaaagagcacagacaggaggt	13	6	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:247921615G>A	uc010pza.1	-	1	94	c.94C>T	c.(94-96)CTC>TTC	p.L32F		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TACATACAGAGAAAGAGCACA	0.463													5	26	---	---	---	---	PASS	A	247921615	A	A	247921615	3	1	4	1	0	0	0	0	1	0	0	0	10952	942	33	2	852	2	OR1C1	1	247921615	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	797	247921615	1329006	382	973										
OR14A16	284532	broad.mit.edu	37	chr1	247978121	247978121	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttactttttggtgagctttCcctttatcaacatccccaga	5	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:247978121C>T	uc001idm.1	-	1	911	c.911G>A	c.(910-912)GGA>GAA	p.G304E		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	304	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGTGAGCTTTCCCTTTATCAA	0.343													6	15	---	---	---	---	PASS	T	247978121	T	T	247978121	3	4	4	1	0	0	0	0	1	0	0	0	10945	855	30	2	22	2	OR14A16	1	247978121	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	56506	247978121	1272500	383	974										
OR14A16	284532	broad.mit.edu	37	chr1	247978721	247978721	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagctctgcagatgctgaaGaaagcaacaaaaagacctgg	11	9	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:247978721G>A	uc001idm.1	-	1	311	c.311C>T	c.(310-312)TCT>TTT	p.S104F		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	104	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGATGCTGAAGAAAGCAACAA	0.463													39	44	---	---	---	---	PASS	A	247978721	A	A	247978721	3	1	4	1	0	0	0	0	1	0	0	0	10945	942	33	2	622	2	OR14A16	1	247978721	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	600	247978721	1271900	384	975										
OR2W3	343171	broad.mit.edu	37	chr1	248058951	248058951	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgggattctctgaccgaccCcatctggagaggatcctctt	10	13	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248058951C>T	uc001idp.1	+	3	332	c.63C>T	c.(61-63)CCC>CCT	p.P21P	OR2W3_uc010pzb.1_Silent_p.P21P	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	21	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CTGACCGACCCCATCTGGAGA	0.527													21	36	---	---	---	---	PASS	T	248058951	T	T	248058951	2	4	4	1	0	0	0	0	0	0	0	1	11033	610	22	3		3	OR2W3	1	248058951	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	80230	248058951	1191670	385	976										
OR2L8	391190	broad.mit.edu	37	chr1	248112162	248112162	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggattgtaggaatgctccatGgaaaattacaatcaaacatc	8	7	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248112162G>A	uc001idt.1	+	1	3	c.3G>A	c.(1-3)ATG>ATA	p.M1I	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			AATGCTCCATGGAAAATTACA	0.279													7	35	---	---	---	---	PASS	A	248112162	A	A	248112162	3	1	4	1	0	0	0	0	1	0	0	0	11009	1348	47	3	5	3	OR2L8	1	248112162	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	53211	248112162	1138459	386	977										
OR2L8	391190	broad.mit.edu	37	chr1	248112240	248112240	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaattgaccttttcttcttCattctcattgttttcatttt	3	8	5	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248112240C>T	uc001idt.1	+	1	81	c.81C>T	c.(79-81)TTC>TTT	p.F27F	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	27	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TTTTCTTCTTCATTCTCATTG	0.388													33	78	---	---	---	---	PASS	T	248112240	T	T	248112240	2	4	4	1	0	0	0	0	0	0	0	1	11009	825	29	2		2	OR2L8	1	248112240	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	78	248112240	1138381	387	978										
OR2L8	391190	broad.mit.edu	37	chr1	248112840	248112840	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctttgctgtctaccacatGaaatctgcagaagggaggaa	10	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248112840G>A	uc001idt.1	+	1	681	c.681G>A	c.(679-681)ATG>ATA	p.M227I	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TCTACCACATGAAATCTGCAG	0.448													23	66	---	---	---	---	PASS	A	248112840	A	A	248112840	3	1	4	1	0	0	0	0	1	0	0	0	11009	1290	45	2	683	2	OR2L8	1	248112840	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	600	248112840	1137781	388	979										
OR2L2	26246	broad.mit.edu	37	chr1	248202092	248202092	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaagtccagagccatcaatCattttttctgtgatgttcca	7	10	3	2	rs140243044		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248202092C>T	uc001idw.2	+	1	619	c.523C>T	c.(523-525)CAT>TAT	p.H175Y	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			AGCCATCAATCATTTTTTCTG	0.433													20	93	---	---	---	---	PASS	T	248202092	T	T	248202092	3	4	4	1	0	0	0	0	1	0	0	0	11007	826	29	2	525	2	OR2L2	1	248202092	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	89252	248202092	1048529	389	980										
OR2L3	391192	broad.mit.edu	37	chr1	248224130	248224130	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccatgattcttctcatcttCttggacacccatctccacac	3	16	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248224130C>T	uc001idx.1	+	1	147	c.147C>T	c.(145-147)TTC>TTT	p.F49F	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	49	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TTCTCATCTTCTTGGACACCC	0.418													47	155	---	---	---	---	PASS	T	248224130	T	T	248224130	2	4	4	1	0	0	0	0	0	0	0	1	11008	912	32	2		2	OR2L3	1	248224130	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	22038	248224130	1026491	390	981										
OR2L3	391192	broad.mit.edu	37	chr1	248224427	248224427	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgatgataacagggtcttgGatcataggctcgatcaatgc	11	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248224427G>A	uc001idx.1	+	1	444	c.444G>A	c.(442-444)TGG>TGA	p.W148*	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			CAGGGTCTTGGATCATAGGCT	0.433													44	106	---	---	---	---	PASS	A	248224427	A	A	248224427	4	1	4	1	0	0	0	0	0	1	0	0	11008	1183	41	2	446	2	OR2L3	1	248224427	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	297	248224427	1026194	391	982										
OR2L13	284521	broad.mit.edu	37	chr1	248263533	248263533	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccttacccccatgctcaatCccattatctacagcctgagg	5	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248263533C>T	uc001ids.2	+	3	1193	c.856C>T	c.(856-858)CCC>TCC	p.P286S		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			CATGCTCAATCCCATTATCTA	0.488													24	38	---	---	---	---	PASS	T	248263533	T	T	248263533	3	4	4	1	0	0	0	0	1	0	0	0	11006	855	30	2	858	2	OR2L13	1	248263533	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	39106	248263533	987088	392	983										
OR2M2	391194	broad.mit.edu	37	chr1	248343802	248343802	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttctccttttgtgggtctcGggaaatagcccacttcttct	8	12	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248343802G>A	uc010pzf.1	+	1	515	c.515G>A	c.(514-516)CGG>CAG	p.R172Q		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	172	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TGTGGGTCTCGGGAAATAGCC	0.418													59	94	---	---	---	---	PASS	A	248343802	A	A	248343802	3	1	4	1	0	0	0	0	1	0	0	0	11010	1116	39	1	517	1	OR2M2	1	248343802	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	80269	248343802	906819	393	984										
OR2M3	127062	broad.mit.edu	37	chr1	248366433	248366433	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggaatcttcaatcacagcCccacccacaccttcctcttc	4	18	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248366433C>T	uc010pzg.1	+	1	64	c.64C>T	c.(64-66)CCC>TCC	p.P22S		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CAATCACAGCCCCACCCACAC	0.498													61	86	---	---	---	---	PASS	T	248366433	T	T	248366433	3	4	4	1	0	0	0	0	1	0	0	0	11011	623	22	3	66	3	OR2M3	1	248366433	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	22631	248366433	884188	394	985										
OR2T33	391195	broad.mit.edu	37	chr1	248436733	248436733	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcatgagagtgggatatcgGagtgggtggcagacagccgc	17	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248436733G>A	uc010pzi.1	-	1	384	c.384C>T	c.(382-384)CTC>CTT	p.L128L		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	128	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TGGGATATCGGAGTGGGTGGC	0.597													9	75	---	---	---	---	PASS	A	248436733	A	A	248436733	2	1	4	1	0	0	0	0	0	0	0	1	11024	1161	41	2		2	OR2T33	1	248436733	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	70300	248436733	813888	395	986										
OR2T33	391195	broad.mit.edu	37	chr1	248436828	248436828	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggaggaagaagatctgcaCaccacagccagcgcgggaga	16	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248436828C>T	uc010pzi.1	-	1	289	c.289G>A	c.(289-291)GTG>ATG	p.V97M		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	97	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AAGATCTGCACACCACAGCCA	0.572													8	111	---	---	---	---	PASS	T	248436828	T	T	248436828	3	4	4	1	0	0	0	0	1	0	0	0	11024	478	17	3	676	3	OR2T33	1	248436828	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	95	248436828	813793	396	987										
OR2T33	391195	broad.mit.edu	37	chr1	248437113	248437113	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggggtagtatttctcatctCcataatttcccctggtgtga	9	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248437113C>T	uc010pzi.1	-	1	4	c.4G>A	c.(4-6)GAG>AAG	p.E2K		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	2	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TTTCTCATCTCCATAATTTCC	0.428													19	25	---	---	---	---	PASS	T	248437113	T	T	248437113	3	4	4	1	0	0	0	0	1	0	0	0	11024	864	30	2	961	2	OR2T33	1	248437113	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	285	248437113	813508	397	988										
OR2T12	127064	broad.mit.edu	37	chr1	248458687	248458687	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagcatcatgtccatgaggGaaagttggctcaggaggaag	14	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248458687G>A	uc010pzj.1	-	1	194	c.194C>T	c.(193-195)TCC>TTC	p.S65F		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			GTCCATGAGGGAAAGTTGGCT	0.552													37	23	---	---	---	---	PASS	A	248458687	A	A	248458687	3	1	4	1	0	0	0	0	1	0	0	0	11019	1174	41	2	771	2	OR2T12	1	248458687	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	21574	248458687	791934	398	989										
OR2M7	391196	broad.mit.edu	37	chr1	248486965	248486965	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgccctttcctaagattttCattaatgctctggtcacttc	5	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248486965C>T	uc010pzk.1	-	1	906	c.906G>A	c.(904-906)ATG>ATA	p.M302I		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	302	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTAAGATTTTCATTAATGCTC	0.403													23	37	---	---	---	---	PASS	T	248486965	T	T	248486965	3	4	4	1	0	0	0	0	1	0	0	0	11014	826	29	2	35	2	OR2M7	1	248486965	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	28278	248486965	763656	399	990										
OR14C36	127066	broad.mit.edu	37	chr1	248512233	248512233	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaccacctgtgacagcagcCttcacatgcccatgtacttc	6	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248512233C>T	uc010pzl.1	+	1	157	c.157C>T	c.(157-159)CTT>TTT	p.L53F		NM_001001918	NP_001001918	Q8NHC7	O14CZ_HUMAN	olfactory receptor, family 14, subfamily C,	53	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						TGACAGCAGCCTTCACATGCC	0.438													28	79	---	---	---	---	PASS	T	248512233	T	T	248512233	3	4	4	1	0	0	0	0	1	0	0	0	10946	681	24	3	159	3	OR14C36	1	248512233	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	25268	248512233	738388	400	991										
OR2T4	127074	broad.mit.edu	37	chr1	248525368	248525368	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggccatctgccatcctctCcgttaccctgtcctcatgaa	7	16	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248525368C>T	uc001ieh.1	+	1	486	c.486C>T	c.(484-486)CTC>CTT	p.L162L		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	162	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GCCATCCTCTCCGTTACCCTG	0.527													45	110	---	---	---	---	PASS	T	248525368	T	T	248525368	2	4	4	1	0	0	0	0	0	0	0	1	11027	842	30	2		2	OR2T4	1	248525368	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	13135	248525368	725253	401	992										
OR2T2	401992	broad.mit.edu	37	chr1	248616386	248616386	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacaagaccatttccttcctGggctgtgcagttcagatctt	9	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248616386G>A	uc001iek.1	+	1	288	c.288G>A	c.(286-288)CTG>CTA	p.L96L		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTTCCTTCCTGGGCTGTGCAG	0.532													21	176	---	---	---	---	PASS	A	248616386	A	A	248616386	2	1	4	1	0	0	0	0	0	0	0	1	11020	1335	47	3		3	OR2T2	1	248616386	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	91018	248616386	634235	402	993										
OR2G6	391211	broad.mit.edu	37	chr1	248685273	248685273	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtggccatggggttgggctCgtctgagtgtattctcttgg	16	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248685273C>T	uc001ien.1	+	1	326	c.326C>T	c.(325-327)TCG>TTG	p.S109L		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGGTTGGGCTCGTCTGAGTGT	0.547													15	49	---	---	---	---	PASS	T	248685273	T	T	248685273	3	4	4	1	0	0	0	0	1	0	0	0	11000	893	31	2	328	2	OR2G6	1	248685273	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	68887	248685273	565348	403	994										
OR2T11	127077	broad.mit.edu	37	chr1	248789647	248789647	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctgctcgggggtgtggaaGgactggggcagcacgtatgt	18	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248789647G>A	uc001ier.1	-	1	783	c.783C>T	c.(781-783)TCC>TCT	p.S261S		NM_001001964	NP_001001964	Q8NH01	O2T11_HUMAN	olfactory receptor, family 2, subfamily T,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGGTGTGGAAGGACTGGGGCA	0.512													17	7	---	---	---	---	PASS	A	248789647	A	A	248789647	2	1	4	1	0	0	0	0	0	0	0	1	11018	987	35	3		3	OR2T11	1	248789647	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	104374	248789647	460974	404	995										
OR2T11	127077	broad.mit.edu	37	chr1	248789953	248789953	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagtaagggacattcatggtGatgggagtgagcagaaagcc	15	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr1:248789953G>A	uc001ier.1	-	1	477	c.477C>T	c.(475-477)ATC>ATT	p.I159I		NM_001001964	NP_001001964	Q8NH01	O2T11_HUMAN	olfactory receptor, family 2, subfamily T,	159	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CATTCATGGTGATGGGAGTGA	0.522													23	4	---	---	---	---	PASS	A	248789953	A	A	248789953	2	1	4	1	0	0	0	0	0	0	0	1	11018	1280	45	2		2	OR2T11	1	248789953	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	306	248789953	460668	405	996										
PXDN	7837	broad.mit.edu	37	chr2	1648443	1648443	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgagaagacacatcagggtGgggcccagccggctgccagg	16	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:1648443G>A	uc002qxa.2	-	18	3754	c.3690C>T	c.(3688-3690)CCC>CCT	p.P1230P		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1230					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		ACATCAGGGTGGGGCCCAGCC	0.572													16	26	---	---	---	---	PASS	A	1648443	A	A	1648443	2	1	4	1	0	0	0	0	0	0	0	1	12847	1335	47	3		3	PXDN	2	1648443	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08		1648443	241550930	406	997										
PXDN	7837	broad.mit.edu	37	chr2	1652238	1652238	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctcattcacaatccggaagGgagagaagaaagctttgtga	11	8	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:1652238G>A	uc002qxa.2	-	17	3378	c.3314C>T	c.(3313-3315)CCC>CTC	p.P1105L		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1105					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		AATCCGGAAGGGAGAGAAGAA	0.582													13	14	---	---	---	---	PASS	A	1652238	A	A	1652238	3	1	4	1	0	0	0	0	1	0	0	0	12847	1232	43	3	1153	3	PXDN	2	1652238	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3795	1652238	241547135	407	998										
PXDN	7837	broad.mit.edu	37	chr2	1677562	1677562	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcaagtttaggcgggaatCtgtcttcatgctcagctcat	10	10	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:1677562C>T	uc002qxa.2	-	9	935	c.871G>A	c.(871-873)GAT>AAT	p.D291N	PXDN_uc002qxb.1_Missense_Mutation_p.D291N|PXDN_uc002qxc.1_Missense_Mutation_p.D108N	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	291	Ig-like C2-type 1.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		AGGCGGGAATCTGTCTTCATG	0.507													26	68	---	---	---	---	PASS	T	1677562	T	T	1677562	3	4	4	1	0	0	0	0	1	0	0	0	12847	913	32	2	3628	2	PXDN	2	1677562	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	25324	1677562	241521811	408	999										
MYT1L	23040	broad.mit.edu	37	chr2	1891377	1891377	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctggaatgggtccaagtctTctggctgtgggcaaaacaca	12	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:1891377T>C	uc002qxe.2	-	17	3352	c.2525A>G	c.(2524-2526)GAA>GGA	p.E842G	MYT1L_uc002qxd.2_Missense_Mutation_p.E840G|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	842					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		GTCCAAGTCTTCTGGCTGTGG	0.562													48	105	---	---	---	---	PASS	C	1891377	C	C	1891377	3	2	4	1	0	0	0	0	1	0	0	0	10107	1783	62	5	1071	5	MYT1L	2	1891377	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	213815	1891377	241307996	409	1000										
MYT1L	23040	broad.mit.edu	37	chr2	1906880	1906880	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatcctttgggggatatatcCctggtttgcaccttgggagc	12	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:1906880C>T	uc002qxe.2	-	14	2831	c.2004G>A	c.(2002-2004)AGG>AGA	p.R668R	MYT1L_uc002qxd.2_Silent_p.R666R|MYT1L_uc010ewl.1_Intron	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	668					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		GGGATATATCCCTGGTTTGCA	0.438													25	40	---	---	---	---	PASS	T	1906880	T	T	1906880	2	4	4	1	0	0	0	0	0	0	0	1	10107	622	22	3		3	MYT1L	2	1906880	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	15503	1906880	241292493	410	1001										
ALLC	55821	broad.mit.edu	37	chr2	3744989	3744989	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttgtgaatgggcagttttcCgattggcacatcctggagta	13	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:3744989C>T	uc010ewt.2	+	10	954	c.793C>T	c.(793-795)CGA>TGA	p.R265*	ALLC_uc002qyf.2_Nonsense_Mutation_p.R36*	NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	284							allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)		GGCAGTTTTCCGATTGGCACA	0.373										HNSCC(21;0.051)			26	74	---	---	---	---	PASS	T	3744989	T	T	3744989	4	4	4	1	0	0	0	0	0	1	0	0	534	644	23	1	827	1	ALLC	2	3744989	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1838109	3744989	239454384	411	1002										
RNF144A	9781	broad.mit.edu	37	chr2	7160794	7160794	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagaccatgccgatcaccttCctccccggggagaccaggta	11	15	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:7160794C>T	uc002qys.2	+	6	934	c.492C>T	c.(490-492)TTC>TTT	p.F164F	RNF144A_uc002qyt.2_5'UTR	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	164						Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		CGATCACCTTCCTCCCCGGGG	0.592													11	25	---	---	---	---	PASS	T	7160794	T	T	7160794	2	4	4	1	0	0	0	0	0	0	0	1	13445	854	30	2		2	RNF144A	2	7160794	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3415805	7160794	236038579	412	1003										
KIDINS220	57498	broad.mit.edu	37	chr2	8890323	8890323	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgacaccactccacctgcGaagggcccattgaaggacgt	12	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:8890323G>A	uc002qzc.2	-	24	3515	c.3333C>T	c.(3331-3333)TTC>TTT	p.F1111F	KIDINS220_uc010yiv.1_Silent_p.F877F|KIDINS220_uc002qzd.2_Silent_p.F1069F|KIDINS220_uc010yiw.1_Silent_p.F1112F|KIDINS220_uc002qzb.2_5'UTR|KIDINS220_uc002qze.2_Silent_p.F116F	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1111	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					CTCCACCTGCGAAGGGCCCAT	0.612													26	49	---	---	---	---	PASS	A	8890323	A	A	8890323	2	1	4	1	0	0	0	0	0	0	0	1	8271	1049	37	2		2	KIDINS220	2	8890323	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1729529	8890323	234309050	413	1004										
NBAS	51594	broad.mit.edu	37	chr2	15415806	15415806	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggtgtacagagagcttggGgaaagcatctgtccatcctt	12	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:15415806G>A	uc002rcc.1	-	44	5552	c.5526C>T	c.(5524-5526)TCC>TCT	p.S1842S	NBAS_uc010exl.1_Silent_p.S914S|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1842										ovary(2)|liver(1)|skin(1)	4						GAGAGCTTGGGGAAAGCATCT	0.453													27	31	---	---	---	---	PASS	A	15415806	A	A	15415806	2	1	4	1	0	0	0	0	0	0	0	1	10186	1219	43	3		3	NBAS	2	15415806	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	6525483	15415806	227783567	414	1005										
NBAS	51594	broad.mit.edu	37	chr2	15679377	15679377	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaaagagttcacttcccatGagatcaaacaccctcacagt	5	13	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:15679377G>T	uc002rcc.1	-	7	509	c.483C>A	c.(481-483)CTC>CTA	p.L161L	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	161	WD 1.									ovary(2)|liver(1)|skin(1)	4						CACTTCCCATGAGATCAAACA	0.428													16	52	---	---	---	---	PASS	T	15679377	T	T	15679377	2	4	4	1	0	0	0	0	0	0	0	1	10186	1277	45	2		2	NBAS	2	15679377	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	263571	15679377	227519996	415	1006										
MYCN	4613	broad.mit.edu	37	chr2	16082519	16082519	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcacccccaacccggtcatCctccaggactgcatgtggag	9	17	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:16082519C>T	uc002rci.2	+	2	633	c.333C>T	c.(331-333)ATC>ATT	p.I111I	MYCNOS_uc002rch.1_5'Flank|MYCN_uc010yjr.1_Silent_p.I103I	NM_005378	NP_005369	P04198	MYCN_HUMAN	v-myc myelocytomatosis viral related oncogene,	111					regulation of transcription from RNA polymerase II promoter	chromatin|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5	all_cancers(1;1.35e-08)|all_neural(1;2.92e-24)|Lung SC(1;3.26e-07)|Medulloblastoma(1;6.9e-06)|all_lung(1;1.26e-05)|Glioma(3;0.135)|Acute lymphoblastic leukemia(172;0.155)|all_epithelial(1;0.169)|all_hematologic(175;0.197)		GBM - Glioblastoma multiforme(3;0.000332)			ACCCGGTCATCCTCCAGGACT	0.706			A		neuroblastoma								6	4	---	---	---	---	PASS	T	16082519	T	T	16082519	2	4	4	1	0	0	0	0	0	0	0	1	10021	845	30	2		2	MYCN	2	16082519	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	403142	16082519	227116854	416	1007										
RAD51AP2	729475	broad.mit.edu	37	chr2	17698866	17698866	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgctatttcctttaaatagaCagaggacattttgctattta	6	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:17698866C>T	uc002rcl.1	-	1	841	c.817G>A	c.(817-819)GTC>ATC	p.V273I	RAD51AP2_uc010exn.1_Missense_Mutation_p.V264I	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	273										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTTAAATAGACAGAGGACATT	0.378													14	40	---	---	---	---	PASS	T	17698866	T	T	17698866	3	4	4	1	0	0	0	0	1	0	0	0	12987	478	17	3	2674	3	RAD51AP2	2	17698866	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1616347	17698866	225500507	417	1008										
SDC1	6382	broad.mit.edu	37	chr2	20403882	20403882	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccaggctccacttctggcaGgactacagcctctccctcct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:20403882G>A	uc002rdo.1	-	3	618	c.319C>T	c.(319-321)CTG>TTG	p.L107L	SDC1_uc002rdp.1_Silent_p.L107L|SDC1_uc010exv.2_Silent_p.L107L|SDC1_uc010exw.1_RNA	NM_002997	NP_002988	P18827	SDC1_HUMAN	syndecan 1 precursor	107	Extracellular (Potential).				lipid metabolic process|lipoprotein metabolic process|myoblast development|striated muscle cell development	cytoplasm|extracellular region|focal adhesion|integral to plasma membrane	cytoskeletal protein binding|protein C-terminus binding			ovary(4)|skin(1)	5	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)			OV - Ovarian serous cystadenocarcinoma(76;0.221)		ACTTCTGGCAGGACTACAGCC	0.677													20	26	---	---	---	---	PASS	A	20403882	A	A	20403882	2	1	4	1	0	0	0	0	0	0	0	1	13951	991	35	3		3	SDC1	2	20403882	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2705016	20403882	222795491	418	1009	23	2								
SDC1	6382	broad.mit.edu	37	chr2	20403883	20403883	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaggctccacttctggcagGactacagcctctccctcctt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:20403883G>A	uc002rdo.1	-	3	617	c.318C>T	c.(316-318)GTC>GTT	p.V106V	SDC1_uc002rdp.1_Silent_p.V106V|SDC1_uc010exv.2_Silent_p.V106V|SDC1_uc010exw.1_RNA	NM_002997	NP_002988	P18827	SDC1_HUMAN	syndecan 1 precursor	106	Extracellular (Potential).				lipid metabolic process|lipoprotein metabolic process|myoblast development|striated muscle cell development	cytoplasm|extracellular region|focal adhesion|integral to plasma membrane	cytoskeletal protein binding|protein C-terminus binding			ovary(4)|skin(1)	5	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)			OV - Ovarian serous cystadenocarcinoma(76;0.221)		CTTCTGGCAGGACTACAGCCT	0.677													20	27	---	---	---	---	PASS	A	20403883	A	A	20403883	2	1	4	1	0	0	0	0	0	0	0	1	13951	1161	41	2		2	SDC1	2	20403883	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	20403883	222795490	419	1010	23	2								
APOB	338	broad.mit.edu	37	chr2	21225418	21225418	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agattacgtagcacctctgtGgtcttgagagactgaatggc	12	8	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:21225418G>A	uc002red.2	-	29	13004	c.12876C>T	c.(12874-12876)ACC>ACT	p.T4292T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	4292					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GCACCTCTGTGGTCTTGAGAG	0.328													26	78	---	---	---	---	PASS	A	21225418	A	A	21225418	2	1	4	1	0	0	0	0	0	0	0	1	785	1335	47	3		3	APOB	2	21225418	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	821535	21225418	221973955	420	1011										
APOB	338	broad.mit.edu	37	chr2	21232203	21232203	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtatcttctagggtctctcGgaatttggccttcatgtgag	11	8	4	1	rs146538280		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:21232203G>A	uc002red.2	-	26	7665	c.7537C>T	c.(7537-7539)CGA>TGA	p.R2513*		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2513					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity	p.R2513*(1)		ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AGGGTCTCTCGGAATTTGGCC	0.438													23	32	---	---	---	---	PASS	A	21232203	A	A	21232203	4	1	4	1	0	0	0	0	0	1	0	0	785	1124	39	1	6170	1	APOB	2	21232203	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6785	21232203	221967170	421	1012										
APOB	338	broad.mit.edu	37	chr2	21232524	21232524	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaatgttttaaaagataattCattaagcttcttgacagcat	6	5	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:21232524C>A	uc002red.2	-	26	7344	c.7216G>T	c.(7216-7218)GAA>TAA	p.E2406*		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2406					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AAAGATAATTCATTAAGCTTC	0.294													8	25	---	---	---	---	PASS	A	21232524	A	A	21232524	4	1	4	1	0	0	0	0	0	1	0	0	785	835	29	2	6491	2	APOB	2	21232524	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	321	21232524	221966849	422	1013										
ATAD2B	54454	broad.mit.edu	37	chr2	24011440	24011440	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgagaatcaattcttgaaaAaattttcttctgtcttcttc	4	7	6	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:24011440A>T	uc002rek.3	-	20	3012	c.2718T>A	c.(2716-2718)TTT>TTA	p.F906L	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rei.3_Missense_Mutation_p.F151L|ATAD2B_uc002rej.3_Missense_Mutation_p.F74L	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	906							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATTCTTGAAAAAATTTTCTTC	0.363													16	30	---	---	---	---	PASS	T	24011440	T	T	24011440	3	4	4	1	0	0	0	0	1	0	0	0	1072	11	1	5	1694	5	ATAD2B	2	24011440	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2778916	24011440	219187933	423	1014										
ITSN2	50618	broad.mit.edu	37	chr2	24432886	24432886	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccccaggcagttggtgagaGagttgaaaataagttgctta	13	6	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:24432886G>A	uc002rfe.2	-	35	4532	c.4274C>T	c.(4273-4275)TCT>TTT	p.S1425F	ITSN2_uc002rff.2_Missense_Mutation_p.S1398F	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	1425					endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTTGGTGAGAGAGTTGAAAAT	0.483													47	57	---	---	---	---	PASS	A	24432886	A	A	24432886	3	1	4	1	0	0	0	0	1	0	0	0	7927	942	33	2	843	2	ITSN2	2	24432886	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	421446	24432886	218766487	424	1015										
POMC	5443	broad.mit.edu	37	chr2	25387536	25387536	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttgctttccgtggtgaggtCctgacactggctgctctcca	12	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:25387536C>T	uc002rfy.1	-	3	369	c.106G>A	c.(106-108)GAC>AAC	p.D36N	POMC_uc002rfz.1_Missense_Mutation_p.D36N|POMC_uc002rga.1_Missense_Mutation_p.D36N	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	36					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)	GTGGTGAGGTCCTGACACTGG	0.592													23	55	---	---	---	---	PASS	T	25387536	T	T	25387536	3	4	4	1	0	0	0	0	1	0	0	0	12242	855	30	2	705	2	POMC	2	25387536	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	954650	25387536	217811837	425	1016										
OTOF	9381	broad.mit.edu	37	chr2	26706345	26706345	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtaccttctggccagcaaaGaagacttgcacgtaggggtc	12	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:26706345G>A	uc002rhk.2	-	13	1504	c.1377C>T	c.(1375-1377)TTC>TTT	p.F459F		NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	459	Cytoplasmic (Potential).|C2 2.				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCCAGCAAAGAAGACTTGCA	0.577													21	39	---	---	---	---	PASS	A	26706345	A	A	26706345	2	1	4	1	0	0	0	0	0	0	0	1	11303	933	33	2		2	OTOF	2	26706345	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1318809	26706345	216493028	426	1017										
CIB4	130106	broad.mit.edu	37	chr2	26864147	26864147	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctggtactcttccaggtcCtcccagtgcatctgatacct	7	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:26864147C>T	uc002rhm.2	-	1	65	c.36G>A	c.(34-36)GAG>GAA	p.E12E		NM_001029881	NP_001025052	A0PJX0	CIB4_HUMAN	calcium and integrin binding family member 4	12							calcium ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTCCAGGTCCTCCCAGTGCA	0.552													40	80	---	---	---	---	PASS	T	26864147	T	T	26864147	2	4	4	1	0	0	0	0	0	0	0	1	3423	680	24	3		3	CIB4	2	26864147	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	157802	26864147	216335226	427	1018										
DPYSL5	56896	broad.mit.edu	37	chr2	27156166	27156166	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtcaacgtgtccagtatctCggctggtgacgttatcgcag	13	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:27156166C>T	uc002rhu.3	+	7	913	c.755C>T	c.(754-756)TCG>TTG	p.S252L	DPYSL5_uc002rhv.3_Missense_Mutation_p.S252L	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	252					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCAGTATCTCGGCTGGTGAC	0.517													9	30	---	---	---	---	PASS	T	27156166	T	T	27156166	3	4	4	1	0	0	0	0	1	0	0	0	4750	893	31	2	777	2	DPYSL5	2	27156166	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	292019	27156166	216043207	428	1019										
ABHD1	84696	broad.mit.edu	37	chr2	27351984	27351984	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctagttaaccaagctctgagGgatggctaccagtaaggatg	12	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:27351984G>A	uc002rit.2	+	3	607	c.447G>A	c.(445-447)AGG>AGA	p.R149R	ABHD1_uc002riu.2_RNA|ABHD1_uc002riv.2_RNA	NM_032604	NP_115993	Q96SE0	ABHD1_HUMAN	abhydrolase domain-containing protein 1	149						integral to membrane	carboxylesterase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAGCTCTGAGGGATGGCTACC	0.517													11	29	---	---	---	---	PASS	A	27351984	A	A	27351984	2	1	4	1	0	0	0	0	0	0	0	1	73	1223	43	3		3	ABHD1	2	27351984	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	195818	27351984	215847389	429	1020										
SLC5A6	8884	broad.mit.edu	37	chr2	27430445	27430445	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaccacatagtccatgatgGagaaggtagacatgcccacg	10	11	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:27430445G>A	uc002rjd.2	-	3	465	c.74C>T	c.(73-75)TCC>TTC	p.S25F	SLC5A6_uc010eyv.1_Missense_Mutation_p.S25F|SLC5A6_uc002rje.1_Missense_Mutation_p.S25F	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	25	Helical; (Potential).				biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	GTCCATGATGGAGAAGGTAGA	0.567													10	25	---	---	---	---	PASS	A	27430445	A	A	27430445	3	1	4	1	0	0	0	0	1	0	0	0	14669	1174	41	2	1893	2	SLC5A6	2	27430445	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	78461	27430445	215768928	430	1021										
CAD	790	broad.mit.edu	37	chr2	27446793	27446793	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctcttcaatagtgtccagtTtcacccagagcaccaagctg	7	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:27446793T>C	uc002rji.2	+	8	1166	c.1004T>C	c.(1003-1005)TTT>TCT	p.F335S	CAD_uc010eyw.2_Missense_Mutation_p.F335S	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	335	Glutamine amidotransferase type-1.|GATase (Glutamine amidotransferase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	AGTGTCCAGTTTCACCCAGAG	0.537													66	138	---	---	---	---	PASS	C	27446793	C	C	27446793	3	2	4	1	0	0	0	0	1	0	0	0	2565	1841	64	5	1034	5	CAD	2	27446793	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	16348	27446793	215752580	431	1022										
DNAJC5G	285126	broad.mit.edu	37	chr2	27499703	27499703	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctgaagacttcaaaaaatCctacaggttcagacctcagc	6	12	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:27499703C>T	uc002rjl.1	+	3	525	c.107C>T	c.(106-108)TCC>TTC	p.S36F	SLC30A3_uc010ylh.1_5'Flank|DNAJC5G_uc010yli.1_Missense_Mutation_p.S36F|DNAJC5G_uc002rjm.1_Missense_Mutation_p.S36F	NM_173650	NP_775921	Q8N7S2	DNJ5G_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	36	J.				protein folding	membrane	heat shock protein binding|unfolded protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTCAAAAAATCCTACAGGTTC	0.423													12	21	---	---	---	---	PASS	T	27499703	T	T	27499703	3	4	4	1	0	0	0	0	1	0	0	0	4652	855	30	2	109	2	DNAJC5G	2	27499703	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	52910	27499703	215699670	432	1023										
GTF3C2	2976	broad.mit.edu	37	chr2	27566409	27566409	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagggcaacatagccgacccCgcaggtatccatcagcaccc	9	17	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:27566409C>A	uc002rjv.1	-	3	376	c.13G>T	c.(13-15)GGG>TGG	p.G5W	GTF3C2_uc002rju.1_Missense_Mutation_p.G16W|GTF3C2_uc002rjw.1_Missense_Mutation_p.G5W|GTF3C2_uc010eyz.1_Missense_Mutation_p.G5W	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	5						transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TAGCCGACCCCGCAGGTATCC	0.517													4	60	---	---	---	---	PASS	A	27566409	A	A	27566409	3	1	4	1	0	0	0	0	1	0	0	0	6873	652	23	1	2794	1	GTF3C2	2	27566409	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	66706	27566409	215632964	433	1024										
PLB1	151056	broad.mit.edu	37	chr2	28802539	28802539	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agataataaccctgtttataGgcggcaatgacctctgtgat	9	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:28802539G>A	uc002rmb.1	+	23	1531	c.1531G>A	c.(1531-1533)GGC>AGC	p.G511S	PLB1_uc010ezj.1_Missense_Mutation_p.G522S|PLB1_uc002rmc.2_Missense_Mutation_p.G199S|PLB1_uc002rmd.1_Missense_Mutation_p.G21S	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	511	4 X 308-326 AA approximate repeats.|2.|Extracellular (Potential).				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					CCTGTTTATAGGCGGCAATGA	0.453													12	44	---	---	---	---	PASS	A	28802539	A	A	28802539	3	1	4	1	0	0	0	0	1	0	0	0	12024	1000	35	3	1654	3	PLB1	2	28802539	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1236130	28802539	214396834	434	1025										
ALK	238	broad.mit.edu	37	chr2	29416491	29416491	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccgtggaccttgtgcaactCcgaaggagggttggactgag	15	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:29416491C>T	uc002rmy.2	-	29	5369	c.4462G>A	c.(4462-4464)GAG>AAG	p.E1488K	ALK_uc010ymo.1_Missense_Mutation_p.E420K	NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	1488	Cytoplasmic (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	TTGTGCAACTCCGAAGGAGGG	0.542			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				49	74	---	---	---	---	PASS	T	29416491	T	T	29416491	3	4	4	1	0	0	0	0	1	0	0	0	525	864	30	2	404	2	ALK	2	29416491	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	613952	29416491	213782882	435	1026										
YPEL5	51646	broad.mit.edu	37	chr2	30379532	30379532	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ataaaaatgggcagaattttCcttgatcatatcggtggtac	9	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:30379532C>T	uc002rna.3	+	4	576	c.15C>T	c.(13-15)TTC>TTT	p.F5F	YPEL5_uc002rnb.3_Silent_p.F5F|YPEL5_uc002rnc.3_Silent_p.F5F|YPEL5_uc002rmz.3_Silent_p.F5F|YPEL5_uc010ezn.2_Intron|YPEL5_uc002rnd.2_Silent_p.F5F	NM_001127401	NP_001120873	P62699	YPEL5_HUMAN	yippee-like 5	5							peptide-methionine-(S)-S-oxide reductase activity				0	Acute lymphoblastic leukemia(172;0.155)					GCAGAATTTTCCTTGATCATA	0.418													44	53	---	---	---	---	PASS	T	30379532	T	T	30379532	2	4	4	1	0	0	0	0	0	0	0	1	17490	854	30	2		2	YPEL5	2	30379532	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	963041	30379532	212819841	436	1027										
CAPN13	92291	broad.mit.edu	37	chr2	30973992	30973992	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatcacttggaaatcgagtgGaaattttgcatcttctgctt	8	7	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:30973992G>A	uc002rnn.2	-	11	1389	c.1213C>T	c.(1213-1215)CCA>TCA	p.P405S	CAPN13_uc002rnp.1_Missense_Mutation_p.P405S	NM_144575	NP_653176	Q6MZZ7	CAN13_HUMAN	calpain 13	405					proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			large_intestine(1)|ovary(1)	2	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					AAATCGAGTGGAAATTTTGCA	0.463													15	30	---	---	---	---	PASS	A	30973992	A	A	30973992	3	1	4	1	0	0	0	0	1	0	0	0	2626	1174	41	2	844	2	CAPN13	2	30973992	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	594460	30973992	212225381	437	1028										
XDH	7498	broad.mit.edu	37	chr2	31562393	31562393	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcttgttggggcagtcgcGgagcagggacaccctgaact	14	11	1	1	rs142329784		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:31562393G>A	uc002rnv.1	-	34	3815	c.3736C>T	c.(3736-3738)CGC>TGC	p.R1246C		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	1246					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	GGGCAGTCGCGGAGCAGGGAC	0.607													30	58	---	---	---	---	PASS	A	31562393	A	A	31562393	3	1	4	1	0	0	0	0	1	0	0	0	17423	1116	39	1	277	1	XDH	2	31562393	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	588401	31562393	211636980	438	1029										
SRD5A2	6716	broad.mit.edu	37	chr2	31758810	31758810	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagctggataaggcctccctCgattgagcagtgagtacaca	11	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:31758810C>T	uc002rnw.1	-	3	379	c.308G>A	c.(307-309)CGA>CAA	p.R103Q		NM_000348	NP_000339	P31213	S5A2_HUMAN	3-oxo-5 alpha-steroid 4-dehydrogenase 2	103					androgen biosynthetic process|cell differentiation|cell-cell signaling|male gonad development	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|sterol 5-alpha reductase activity				0	Acute lymphoblastic leukemia(172;0.155)				Azelaic Acid(DB00548)|Dutasteride(DB01126)	AGGCCTCCCTCGATTGAGCAG	0.458													8	19	---	---	---	---	PASS	T	31758810	T	T	31758810	3	4	4	1	0	0	0	0	1	0	0	0	15138	884	31	2	472	2	SRD5A2	2	31758810	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	196417	31758810	211440563	439	1030										
BIRC6	57448	broad.mit.edu	37	chr2	32768395	32768395	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaccattgaacagtcagggGagttagtttatgaagcacca	11	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:32768395G>A	uc010ezu.2	+	62	12513	c.12379G>A	c.(12379-12381)GAG>AAG	p.E4127K		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4127					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)					ACAGTCAGGGGAGTTAGTTTA	0.473													78	126	---	---	---	---	PASS	A	32768395	A	A	32768395	3	1	4	1	0	0	0	0	1	0	0	0	1438	1175	41	2	12625	2	BIRC6	2	32768395	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1009585	32768395	210430978	440	1031										
VIT	5212	broad.mit.edu	37	chr2	37041424	37041424	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accactccttctttgtggacGagtttgacaacctccatcag	7	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:37041424G>A	uc002rpl.2	+	16	2223	c.2002G>A	c.(2002-2004)GAG>AAG	p.E668K	VIT_uc002rpm.2_Missense_Mutation_p.E646K|VIT_uc010ezv.2_Missense_Mutation_p.E624K|VIT_uc010ezw.2_Missense_Mutation_p.E625K	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	653	VWFA 2.					proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				CTTTGTGGACGAGTTTGACAA	0.527													17	27	---	---	---	---	PASS	A	37041424	A	A	37041424	3	1	4	1	0	0	0	0	1	0	0	0	17168	1059	37	2	2185	2	VIT	2	37041424	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4273029	37041424	206157949	441	1032										
HEATR5B	54497	broad.mit.edu	37	chr2	37230716	37230716	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttttctcttgcaaataatcCtgagcagctcttactatctg	5	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:37230716C>T	uc002rpp.1	-	31	5115	c.5019G>A	c.(5017-5019)CAG>CAA	p.Q1673Q	HEATR5B_uc002rpo.1_5'Flank|HEATR5B_uc010ezy.1_Silent_p.Q257Q	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1673							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				GCAAATAATCCTGAGCAGCTC	0.353													16	32	---	---	---	---	PASS	T	37230716	T	T	37230716	2	4	4	1	0	0	0	0	0	0	0	1	7032	680	24	3		3	HEATR5B	2	37230716	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	189292	37230716	205968657	442	1033										
CEBPZ	10153	broad.mit.edu	37	chr2	37450511	37450511	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttaagaaacatagcttgcttGgaacacgtcatcaaccctgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:37450511G>A	uc002rpz.2	-	3	1713	c.1683C>T	c.(1681-1683)TCC>TCT	p.S561S		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	561					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				TAGCTTGCTTGGAACACGTCA	0.398													23	35	---	---	---	---	PASS	A	37450511	A	A	37450511	2	1	4	1	0	0	0	0	0	0	0	1	3204	1335	47	3		3	CEBPZ	2	37450511	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	219795	37450511	205748862	443	1034	24	2								
CEBPZ	10153	broad.mit.edu	37	chr2	37450512	37450512	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taagaaacatagcttgcttgGaacacgtcatcaaccctgga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:37450512G>A	uc002rpz.2	-	3	1712	c.1682C>T	c.(1681-1683)TCC>TTC	p.S561F		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	561					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				AGCTTGCTTGGAACACGTCAT	0.398													23	35	---	---	---	---	PASS	A	37450512	A	A	37450512	3	1	4	1	0	0	0	0	1	0	0	0	3204	1174	41	2	1538	2	CEBPZ	2	37450512	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	37450512	205748861	444	1035	24	2								
C2orf56	55471	broad.mit.edu	37	chr2	37468858	37468858	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttagagcgaaatgctggatcCccagtgtatatgaaaggtgt	12	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:37468858C>T	uc002rqa.3	+	5	621	c.546C>T	c.(544-546)TCC>TCT	p.S182S	C2orf56_uc010ynj.1_RNA|C2orf56_uc002rqc.3_Intron|C2orf56_uc010ynk.1_Intron|C2orf56_uc010ynl.1_Silent_p.S155S|C2orf56_uc010fah.2_Intron	NM_144736	NP_653337	Q7L592	MIDA_HUMAN	hypothetical protein LOC55471 isoform 1	182					mitochondrial respiratory chain complex I assembly	mitochondrion	enzyme binding|methyltransferase activity			central_nervous_system(1)	1		all_hematologic(82;0.21)				ATGCTGGATCCCCAGTGTATA	0.408													18	47	---	---	---	---	PASS	T	37468858	T	T	37468858	2	4	4	1	0	0	0	0	0	0	0	1	2177	610	22	3		3	C2orf56	2	37468858	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	18346	37468858	205730515	445	1036										
PRKD3	23683	broad.mit.edu	37	chr2	37543586	37543586	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtcttaggacttgaacacgGagaagcagctggaagcacag	13	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:37543586G>A	uc002rqd.2	-	1	637	c.82C>T	c.(82-84)CCG>TCG	p.P28S	PRKD3_uc002rqf.1_Missense_Mutation_p.P28S	NM_005813	NP_005804	O94806	KPCD3_HUMAN	protein kinase D3	28					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(2)|ovary(1)|central_nervous_system(1)	4		all_hematologic(82;0.21)				CTTGAACACGGAGAAGCAGCT	0.488													21	56	---	---	---	---	PASS	A	37543586	A	A	37543586	3	1	4	1	0	0	0	0	1	0	0	0	12520	1174	41	2	2662	2	PRKD3	2	37543586	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	74728	37543586	205655787	446	1037										
FAM82A1	151393	broad.mit.edu	37	chr2	38231187	38231187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aattacatgtacttagcaaaGgtaatgaagaccactgttct	7	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:38231187G>T	uc002rql.2	+	9	1221	c.1098G>T	c.(1096-1098)AAG>AAT	p.K366N	FAM82A1_uc002rqn.1_Missense_Mutation_p.K544N|FAM82A1_uc002rqm.2_Missense_Mutation_p.K221N	NM_144713	NP_653314	Q96LZ7	RMD2_HUMAN	family with sequence similarity 82, member A1	366						cytoplasm|integral to membrane|microtubule|spindle pole	binding			ovary(1)	1						ACTTAGCAAAGGTAATGAAGA	0.333													4	42	---	---	---	---	PASS	T	38231187	T	T	38231187	3	4	4	1	0	0	0	0	1	0	0	0	5630	1014	35	3	2122	3	FAM82A1	2	38231187	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	687601	38231187	204968186	447	1038										
CYP1B1	1545	broad.mit.edu	37	chr2	38301667	38301667	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcgtccatcatgtcgcgggGggcggccccgggccgaaggc	19	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:38301667G>A	uc002rqo.2	-	3	1268	c.865C>T	c.(865-867)CCC>TCC	p.P289S		NM_000104	NP_000095	Q16678	CP1B1_HUMAN	cytochrome P450, family 1, subfamily B,	289					visual perception|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			ovary(1)|central_nervous_system(1)	2		all_hematologic(82;0.21)			Estrone(DB00655)	ATGTcgcggggggcggccccg	0.512													6	8	---	---	---	---	PASS	A	38301667	A	A	38301667	3	1	4	1	0	0	0	0	1	0	0	0	4151	1232	43	3	774	3	CYP1B1	2	38301667	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	70480	38301667	204897706	448	1039										
DHX57	90957	broad.mit.edu	37	chr2	39088781	39088781	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ataaatttttctccacagatGgacttgagagcaaatgcctc	7	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:39088781G>A	uc002rrf.2	-	5	870	c.771C>T	c.(769-771)TCC>TCT	p.S257S	DHX57_uc002rre.2_5'UTR|DHX57_uc002rrg.2_Silent_p.S257S	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	257							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				CTCCACAGATGGACTTGAGAG	0.433													27	59	---	---	---	---	PASS	A	39088781	A	A	39088781	2	1	4	1	0	0	0	0	0	0	0	1	4513	1335	47	3		3	DHX57	2	39088781	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	787114	39088781	204110592	449	1040										
MAP4K3	8491	broad.mit.edu	37	chr2	39487864	39487864	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taaagggtactcctgttcagGaactaccagcatttcaaaca	7	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:39487864G>A	uc002rro.2	-	29	2282	c.2191C>T	c.(2191-2193)CCT>TCT	p.P731S	MAP4K3_uc002rrp.2_Missense_Mutation_p.P710S|MAP4K3_uc010yns.1_Missense_Mutation_p.P284S	NM_003618	NP_003609	Q8IVH8	M4K3_HUMAN	mitogen-activated protein kinase kinase kinase	731	CNH.				JNK cascade		ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(3)|lung(3)|stomach(1)|pancreas(1)	8		all_hematologic(82;0.211)				TCCTGTTCAGGAACTACCAGC	0.378													21	34	---	---	---	---	PASS	A	39487864	A	A	39487864	3	1	4	1	0	0	0	0	1	0	0	0	9261	1174	41	2	517	2	MAP4K3	2	39487864	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	399083	39487864	203711509	450	1041										
TMEM178	130733	broad.mit.edu	37	chr2	39944150	39944150	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctctttgtattatttatagGgatattttgcaccatttccc	5	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:39944150G>A	uc002rrt.2	+	4	678	c.653G>A	c.(652-654)GGG>GAG	p.G218E	TMEM178_uc010fam.1_Missense_Mutation_p.R172Q	NM_152390	NP_689603	Q8NBL3	TM178_HUMAN	transmembrane protein 178 precursor	218	Helical; (Potential).					integral to membrane					0		all_hematologic(82;0.248)				TTATTTATAGGGATATTTTGC	0.408													77	29	---	---	---	---	PASS	A	39944150	A	A	39944150	3	1	4	1	0	0	0	0	1	0	0	0	16092	1246	43	3	667	3	TMEM178	2	39944150	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	456286	39944150	203255223	451	1042										
SLC8A1	6546	broad.mit.edu	37	chr2	40655928	40655928	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcttcagaagatactttgAcattgctgagatgcacaagg	10	7	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:40655928A>T	uc002rrx.2	-	1	1517	c.1493T>A	c.(1492-1494)GTC>GAC	p.V498D	SLC8A1_uc002rry.2_Missense_Mutation_p.V498D|SLC8A1_uc002rrz.2_Missense_Mutation_p.V498D|SLC8A1_uc002rsa.2_Missense_Mutation_p.V498D|SLC8A1_uc002rsd.3_Missense_Mutation_p.V498D|SLC8A1_uc002rsb.1_Missense_Mutation_p.V498D|SLC8A1_uc010fan.1_Missense_Mutation_p.V498D|SLC8A1_uc002rsc.1_Missense_Mutation_p.V498D	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	498	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	AGATACTTTGACATTGCTGAG	0.428													20	32	---	---	---	---	PASS	T	40655928	T	T	40655928	3	4	4	1	0	0	0	0	1	0	0	0	14706	275	10	5	1576	5	SLC8A1	2	40655928	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	711778	40655928	202543445	452	1043										
THADA	63892	broad.mit.edu	37	chr2	43520065	43520065	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggtggcacgcccttctctcCaagtccagaggctgctgcta	12	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:43520065C>T	uc002rsw.3	-	32	5078	c.4726G>A	c.(4726-4728)GGA>AGA	p.G1576R	THADA_uc010far.2_Missense_Mutation_p.G771R|THADA_uc002rsx.3_Missense_Mutation_p.G1576R|THADA_uc002rsy.3_RNA	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1576							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				CCCTTCTCTCCAAGTCCAGAG	0.493													13	27	---	---	---	---	PASS	T	43520065	T	T	43520065	3	4	4	1	0	0	0	0	1	0	0	0	15837	603	21	3	1163	3	THADA	2	43520065	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2864137	43520065	199679308	453	1044										
THADA	63892	broad.mit.edu	37	chr2	43798883	43798883	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatctgttgccgcactcctGgagactggctgttaagattg	12	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:43798883G>A	uc002rsw.3	-	13	2379	c.2027C>T	c.(2026-2028)CCA>CTA	p.P676L	THADA_uc010far.2_5'Flank|THADA_uc002rsx.3_Missense_Mutation_p.P676L|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Missense_Mutation_p.P386L|THADA_uc010fat.1_5'Flank|THADA_uc002rta.2_Missense_Mutation_p.P386L|THADA_uc002rtb.1_Missense_Mutation_p.P676L|THADA_uc002rtc.3_Missense_Mutation_p.P676L|THADA_uc002rtd.2_Missense_Mutation_p.P676L	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	676							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				CCGCACTCCTGGAGACTGGCT	0.398													43	78	---	---	---	---	PASS	A	43798883	A	A	43798883	3	1	4	1	0	0	0	0	1	0	0	0	15837	1348	47	3	3938	3	THADA	2	43798883	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	278818	43798883	199400490	454	1045										
EPAS1	2034	broad.mit.edu	37	chr2	46607560	46607560	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtagccccgcacagtcccttCctcctggacaagtttcagca	8	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:46607560C>T	uc002ruv.2	+	12	2237	c.1749C>T	c.(1747-1749)TTC>TTT	p.F583F	EPAS1_uc002ruw.2_Silent_p.F49F	NM_001430	NP_001421	Q99814	EPAS1_HUMAN	endothelial PAS domain protein 1	583					angiogenesis|myoblast cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|response to hypoxia	transcription factor complex	histone acetyltransferase binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription coactivator activity|transcription factor binding			ovary(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	LUSC - Lung squamous cell carcinoma(58;0.151)			ACAGTCCCTTCCTCCTGGACA	0.597													24	39	---	---	---	---	PASS	T	46607560	T	T	46607560	2	4	4	1	0	0	0	0	0	0	0	1	5150	854	30	2		2	EPAS1	2	46607560	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2808677	46607560	196591813	455	1046										
SOCS5	9655	broad.mit.edu	37	chr2	46986423	46986423	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cattttttgatacatttgatCcatctttggtttctacagaa	5	7	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:46986423C>T	uc002rvf.2	+	2	918	c.754C>T	c.(754-756)CCA>TCA	p.P252S	SOCS5_uc010yoe.1_Missense_Mutation_p.P221S|SOCS5_uc002rvg.2_Missense_Mutation_p.P252S	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	252					cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			TACATTTGATCCATCTTTGGT	0.423													13	36	---	---	---	---	PASS	T	46986423	T	T	46986423	3	4	4	1	0	0	0	0	1	0	0	0	14917	855	30	2	756	2	SOCS5	2	46986423	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	378863	46986423	196212950	456	1047										
SOCS5	9655	broad.mit.edu	37	chr2	46987060	46987060	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acattataaagatcccagttCgtgcatgttttttgaaccat	6	8	0	2	rs149307689		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:46987060C>T	uc002rvf.2	+	2	1555	c.1391C>T	c.(1390-1392)TCG>TTG	p.S464L	SOCS5_uc010yoe.1_Missense_Mutation_p.S433L|SOCS5_uc002rvg.2_Missense_Mutation_p.S464L	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	464	SH2.				cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			GATCCCAGTTCGTGCATGTTT	0.438													20	54	---	---	---	---	PASS	T	46987060	T	T	46987060	3	4	4	1	0	0	0	0	1	0	0	0	14917	893	31	2	1393	2	SOCS5	2	46987060	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	637	46987060	196212313	457	1048										
KLRAQ1	129285	broad.mit.edu	37	chr2	48681800	48681800	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatggacagtttgacatttCgaaatctgcagcttgccaag	9	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:48681800C>T	uc002rwm.2	+	3	378	c.193C>T	c.(193-195)CGA>TGA	p.R65*	KLRAQ1_uc002rwi.1_Nonsense_Mutation_p.R65*|KLRAQ1_uc002rwj.2_Nonsense_Mutation_p.R65*|KLRAQ1_uc002rwl.2_Nonsense_Mutation_p.R19*|KLRAQ1_uc002rwk.2_Nonsense_Mutation_p.R65*|KLRAQ1_uc010yok.1_Nonsense_Mutation_p.R65*	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	65	Potential.									ovary(1)	1						TTTGACATTTCGAAATCTGCA	0.403													19	42	---	---	---	---	PASS	T	48681800	T	T	48681800	4	4	4	1	0	0	0	0	0	1	0	0	8413	876	31	2	203	2	KLRAQ1	2	48681800	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1694740	48681800	194517573	458	1049										
KLRAQ1	129285	broad.mit.edu	37	chr2	48698265	48698265	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaatgcgtcctatgtccgcCctcttgaggaaggaatgctt	10	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:48698265C>T	uc002rwm.2	+	10	1122	c.937C>T	c.(937-939)CCT>TCT	p.P313S	KLRAQ1_uc002rwi.1_Missense_Mutation_p.P313S|KLRAQ1_uc002rwj.2_Missense_Mutation_p.P313S|KLRAQ1_uc002rwl.2_Missense_Mutation_p.P267S|KLRAQ1_uc002rwk.2_Missense_Mutation_p.P313S|KLRAQ1_uc010yok.1_Missense_Mutation_p.P313S	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	313										ovary(1)	1						CTATGTCCGCCCTCTTGAGGA	0.373													11	21	---	---	---	---	PASS	T	48698265	T	T	48698265	3	4	4	1	0	0	0	0	1	0	0	0	8413	623	22	3	975	3	KLRAQ1	2	48698265	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	16465	48698265	194501108	459	1050										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48808054	48808054	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcccaggttttcctggcatCcccaaagcagggactcatgt	9	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:48808054C>T	uc010yol.1	+	1	329	c.282C>T	c.(280-282)ATC>ATT	p.I94I	STON1_uc002rwo.3_Silent_p.I94I|STON1_uc010fbm.2_Silent_p.I94I|STON1-GTF2A1L_uc002rwp.1_Silent_p.I94I|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Silent_p.I94I	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	94					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TTCCTGGCATCCCCAAAGCAG	0.473													34	64	---	---	---	---	PASS	T	48808054	T	T	48808054	2	4	4	1	0	0	0	0	0	0	0	1	15316	845	30	2		2	STON1-GTF2A1L	2	48808054	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	109789	48808054	194391319	460	1051										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48873632	48873632	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtaccaattatggtgacagaGacttctggaagagcaggtat	12	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:48873632G>A	uc010yol.1	+	5	2447	c.2400G>A	c.(2398-2400)GAG>GAA	p.E800E	STON1-GTF2A1L_uc002rwp.1_Silent_p.E847E|GTF2A1L_uc002rws.1_Silent_p.E143E|GTF2A1L_uc010yom.1_Silent_p.E109E|GTF2A1L_uc002rwt.2_Silent_p.E143E	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	800					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TGGTGACAGAGACTTCTGGAA	0.353													16	28	---	---	---	---	PASS	A	48873632	A	A	48873632	2	1	4	1	0	0	0	0	0	0	0	1	15316	933	33	2		2	STON1-GTF2A1L	2	48873632	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	65578	48873632	194325741	461	1052										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48898743	48898743	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctttaggaccctttaaattCtggagatgatgttagtgaac	9	6	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:48898743C>T	uc010yol.1	+	7	3271	c.3224C>T	c.(3223-3225)TCT>TTT	p.S1075F	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.S1122F|GTF2A1L_uc002rws.1_Missense_Mutation_p.S418F|GTF2A1L_uc010yom.1_Missense_Mutation_p.S384F|GTF2A1L_uc002rwt.2_Missense_Mutation_p.S418F	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	1075					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CCTTTAAATTCTGGAGATGAT	0.328													19	40	---	---	---	---	PASS	T	48898743	T	T	48898743	3	4	4	1	0	0	0	0	1	0	0	0	15316	913	32	2	3399	2	STON1-GTF2A1L	2	48898743	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	25111	48898743	194300630	462	1053										
LHCGR	3973	broad.mit.edu	37	chr2	48936160	48936160	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtacgttttcctttagctCcctgtggggaaggatattgc	11	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:48936160C>T	uc002rwu.3	-	8	677	c.607G>A	c.(607-609)GAG>AAG	p.E203K	GTF2A1L_uc002rwt.2_Intron|LHCGR_uc002rwv.2_RNA	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	203	Extracellular (Potential).|LRR 5.				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	TCCTTTAGCTCCCTGTGGGGA	0.493									Familial_Male-Limited_Precocious_Puberty				19	33	---	---	---	---	PASS	T	48936160	T	T	48936160	3	4	4	1	0	0	0	0	1	0	0	0	8762	869	30	2	1508	2	LHCGR	2	48936160	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	37417	48936160	194263213	463	1054										
FSHR	2492	broad.mit.edu	37	chr2	49191091	49191091	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatagatttgttgcaaattGgatgaagctcagagctagaa	10	4	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:49191091G>T	uc002rww.2	-	10	943	c.869C>A	c.(868-870)CCA>CAA	p.P290Q	FSHR_uc002rwx.2_Missense_Mutation_p.P228Q|FSHR_uc010fbn.2_Missense_Mutation_p.P264Q	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	290	Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	GTTGCAAATTGGATGAAGCTC	0.388									Gonadal_Dysgenesis_46_XX				7	130	---	---	---	---	PASS	T	49191091	T	T	49191091	3	4	4	1	0	0	0	0	1	0	0	0	6073	1348	47	3	1222	3	FSHR	2	49191091	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	254931	49191091	194008282	464	1055										
NRXN1	9378	broad.mit.edu	37	chr2	50280573	50280573	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accaaccagtctcacatttcCcactatggcgatgttggcat	7	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:50280573C>T	uc010fbp.2	-	4	1576	c.769G>A	c.(769-771)GGA>AGA	p.G257R	NRXN1_uc002rxb.3_Missense_Mutation_p.G994R|NRXN1_uc010fbq.2_Missense_Mutation_p.G1362R|NRXN1_uc002rxe.3_Missense_Mutation_p.G1292R	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	257	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CTCACATTTCCCACTATGGCG	0.507													17	35	---	---	---	---	PASS	T	50280573	T	T	50280573	3	4	4	1	0	0	0	0	1	0	0	0	10665	632	22	3	571	3	NRXN1	2	50280573	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1089482	50280573	192918800	465	1056										
VRK2	7444	broad.mit.edu	37	chr2	58386588	58386588	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acacaattcccaaactcattTtatgagcctcatcaagattt	3	11	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:58386588T>C	uc002rzo.2	+	16	2032	c.1287T>C	c.(1285-1287)TTT>TTC	p.F429F	VRK2_uc010fcb.2_3'UTR|VRK2_uc002rzs.2_3'UTR|VRK2_uc002rzr.2_3'UTR|VRK2_uc010fcc.2_Silent_p.F311F|VRK2_uc002rzv.2_Silent_p.F429F|VRK2_uc010fcd.2_Silent_p.F406F|VRK2_uc002rzp.2_Silent_p.F429F|VRK2_uc010ypg.1_Silent_p.F429F|VRK2_uc002rzq.2_3'UTR|VRK2_uc002rzu.2_3'UTR|VRK2_uc002rzt.2_Silent_p.F311F|FANCL_uc002rzw.3_3'UTR|FANCL_uc002rzx.3_3'UTR|FANCL_uc010fce.2_3'UTR	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	429						integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						CAAACTCATTTTATGAGCCTC	0.383													19	36	---	---	---	---	PASS	C	58386588	C	C	58386588	2	2	4	1	0	0	0	0	0	0	0	1	17217	1838	64	5		5	VRK2	2	58386588	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	8106015	58386588	184812785	466	1057										
PAPOLG	64895	broad.mit.edu	37	chr2	61014149	61014149	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacggaatgaatttattactCttgcccatgtgaatccccag	7	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:61014149C>T	uc002sai.2	+	14	1465	c.1234C>T	c.(1234-1236)CTT>TTT	p.L412F	PAPOLG_uc002saj.2_Missense_Mutation_p.L101F|PAPOLG_uc002sak.2_5'UTR|PAPOLG_uc010fch.2_Missense_Mutation_p.L101F	NM_022894	NP_075045	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma	412					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(2;0.0797)		LUSC - Lung squamous cell carcinoma(5;1.19e-07)|Lung(5;2.86e-06)|Epithelial(17;0.0768)			ATTTATTACTCTTGCCCATGT	0.303													17	33	---	---	---	---	PASS	T	61014149	T	T	61014149	3	4	4	1	0	0	0	0	1	0	0	0	11431	913	32	2	1288	2	PAPOLG	2	61014149	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2627561	61014149	182185224	467	1058										
FAM161A	84140	broad.mit.edu	37	chr2	62069296	62069296	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtcttctctgatgaccactGgctgaacttcctttaaatgt	7	10	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:62069296G>A	uc010ypo.1	-	2	485	c.383C>T	c.(382-384)CCA>CTA	p.P128L	FAM161A_uc002sbm.3_Missense_Mutation_p.P128L|FAM161A_uc002sbn.3_5'UTR|FAM161A_uc010fcm.1_RNA|FAM161A_uc010fcn.1_Missense_Mutation_p.P19L	NM_032180	NP_115556	Q3B820	F161A_HUMAN	hypothetical protein LOC84140	128					response to stimulus|visual perception	centrosome				large_intestine(2)|ovary(1)	3						GATGACCACTGGCTGAACTTC	0.348													25	68	---	---	---	---	PASS	A	62069296	A	A	62069296	3	1	4	1	0	0	0	0	1	0	0	0	5472	1348	47	3	1619	3	FAM161A	2	62069296	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1055147	62069296	181130077	468	1059										
C2orf86	51057	broad.mit.edu	37	chr2	63605587	63605587	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctatattccaatatagtgGaatccagaagtggtcttgtt	8	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:63605587G>A	uc002sch.2	-	12	2128	c.1682C>T	c.(1681-1683)TCC>TTC	p.S561F	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Missense_Mutation_p.S402F|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Missense_Mutation_p.S369F|C2orf86_uc002sci.1_Missense_Mutation_p.S537F	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	561					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						CAATATAGTGGAATCCAGAAG	0.403													21	39	---	---	---	---	PASS	A	63605587	A	A	63605587	3	1	4	1	0	0	0	0	1	0	0	0	2201	1174	41	2	586	2	C2orf86	2	63605587	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1536291	63605587	179593786	469	1060										
PELI1	57162	broad.mit.edu	37	chr2	64322102	64322102	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctacacataggacattcacGatcttttccatcacgttctt	4	13	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:64322102G>A	uc002scs.3	-	6	5030	c.991C>T	c.(991-993)CGT>TGT	p.R331C	PELI1_uc002sct.3_Missense_Mutation_p.R331C|PELI1_uc002scr.3_Missense_Mutation_p.R152C	NM_020651	NP_065702	Q96FA3	PELI1_HUMAN	pellino protein	331					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol				ovary(1)	1						GGACATTCACGATCTTTTCCA	0.463													42	96	---	---	---	---	PASS	A	64322102	A	A	64322102	3	1	4	1	0	0	0	0	1	0	0	0	11721	1058	37	2	269	2	PELI1	2	64322102	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	716515	64322102	178877271	470	1061										
HSPC159	29094	broad.mit.edu	37	chr2	64682722	64682722	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcttctcccacccttttcaGatagttccattttgtgggca	6	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:64682722G>A	uc002scy.3	+	3	462	c.109_splice	c.e3-1	p.I37_splice		NM_014181	NP_054900	Q3ZCW2	LEGL_HUMAN	galectin-related protein							intracellular	sugar binding				0						ACCCTTTTCAGATAGTTCCAT	0.468													9	22	---	---	---	---	PASS	A	64682722	A	A	64682722	5	1	4	1	0	0	0	0	0	0	1	0	7427	956	33	2	118	2	HSPC159	2	64682722	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	360620	64682722	178516651	471	1062										
AFTPH	54812	broad.mit.edu	37	chr2	64812640	64812640	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgactgatgcatttgcaaGactcatgtctacagtagaga	10	7	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:64812640G>A	uc002sdc.2	+	8	2656	c.2624G>A	c.(2623-2625)AGA>AAA	p.R875K	AFTPH_uc002scz.2_Missense_Mutation_p.R875K|AFTPH_uc002sda.2_Missense_Mutation_p.R847K|AFTPH_uc002sdb.2_Missense_Mutation_p.R847K	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	875					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						GCATTTGCAAGACTCATGTCT	0.383													38	103	---	---	---	---	PASS	A	64812640	A	A	64812640	3	1	4	1	0	0	0	0	1	0	0	0	364	942	33	2	2654	2	AFTPH	2	64812640	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	129918	64812640	178386733	472	1063										
PLEK	5341	broad.mit.edu	37	chr2	68607526	68607526	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagatggaattgaattctatAagaagaaaagtgacaacagc	9	4	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:68607526A>T	uc002sen.3	+	2	271	c.109A>T	c.(109-111)AAG>TAG	p.K37*	PLEK_uc010fde.2_Nonsense_Mutation_p.K37*	NM_002664	NP_002655	P08567	PLEK_HUMAN	pleckstrin	37	PH 1.				actin cytoskeleton reorganization|cortical actin cytoskeleton organization|hemopoietic progenitor cell differentiation|inhibition of phospholipase C activity involved in G-protein coupled receptor signaling pathway|integrin-mediated signaling pathway|negative regulation of calcium-mediated signaling|negative regulation of inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|platelet aggregation|positive regulation of actin filament bundle assembly|positive regulation of actin filament depolymerization|positive regulation of inositol-polyphosphate 5-phosphatase activity|positive regulation of integrin activation|positive regulation of platelet activation|protein kinase C signaling cascade|protein secretion by platelet|regulation of cell diameter|ruffle organization|thrombin receptor signaling pathway|vesicle docking involved in exocytosis	cytosol|extracellular region|membrane fraction|ruffle membrane|soluble fraction	phosphatidylinositol-3,4-bisphosphate binding|protein homodimerization activity|protein kinase C binding			ovary(1)	1		Ovarian(717;0.0129)		STAD - Stomach adenocarcinoma(1183;0.00159)|READ - Rectum adenocarcinoma(193;0.0419)		TGAATTCTATAAGAAGAAAAG	0.443													21	42	---	---	---	---	PASS	T	68607526	T	T	68607526	4	4	4	1	0	0	0	0	0	1	0	0	12053	363	13	5	115	5	PLEK	2	68607526	Nonsense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	3794886	68607526	174591847	473	1064										
MPHOSPH10	10199	broad.mit.edu	37	chr2	71360531	71360531	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggaaaaccaagagaaaagtCcatagtagatgataaattct	9	5	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:71360531C>T	uc002sht.1	+	2	945	c.593C>T	c.(592-594)TCC>TTC	p.S198F	MPHOSPH10_uc010feb.1_Missense_Mutation_p.S198F	NM_005791	NP_005782	O00566	MPP10_HUMAN	M-phase phosphoprotein 10	198					RNA splicing, via transesterification reactions|rRNA processing	chromosome|nucleolus|small nucleolar ribonucleoprotein complex	protein binding			skin(2)|ovary(1)	3						AGAGAAAAGTCCATAGTAGAT	0.378													29	81	---	---	---	---	PASS	T	71360531	T	T	71360531	3	4	4	1	0	0	0	0	1	0	0	0	9725	855	30	2	599	2	MPHOSPH10	2	71360531	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2753005	71360531	171838842	474	1065										
ZNF638	27332	broad.mit.edu	37	chr2	71591282	71591282	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacagatccagatccagatcCcgttcaccatatcgaattag	6	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:71591282C>T	uc002shx.2	+	5	1936	c.1617C>T	c.(1615-1617)TCC>TCT	p.S539S	ZNF638_uc010fec.2_Silent_p.S645S|ZNF638_uc010yqw.1_Silent_p.S118S|ZNF638_uc002shw.2_Silent_p.S539S|ZNF638_uc002shy.2_Silent_p.S539S|ZNF638_uc002shz.2_Silent_p.S539S|ZNF638_uc002sia.2_Silent_p.S539S|ZNF638_uc002sib.1_Silent_p.S539S|ZNF638_uc010fed.2_5'Flank	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	539	Arg-rich.				RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						GATCCAGATCCCGTTCACCAT	0.438													24	35	---	---	---	---	PASS	T	71591282	T	T	71591282	2	4	4	1	0	0	0	0	0	0	0	1	18052	610	22	3		3	ZNF638	2	71591282	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	230751	71591282	171608091	475	1066										
ZNF638	27332	broad.mit.edu	37	chr2	71654208	71654208	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttctactttagttactgtaGatgaaatacaagatgacagc	7	7	1	4	rs4479447		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:71654208G>A	uc002shx.2	+	24	5528	c.5209G>A	c.(5209-5211)GAT>AAT	p.D1737N	ZNF638_uc002shy.2_Missense_Mutation_p.D1737N|ZNF638_uc002shz.2_Missense_Mutation_p.D1737N|ZNF638_uc002sia.2_Missense_Mutation_p.D1737N|ZNF638_uc002sib.1_3'UTR|ZNF638_uc010fed.2_Intron|ZNF638_uc002sic.2_Missense_Mutation_p.D834N|ZNF638_uc002sid.2_Missense_Mutation_p.D106N	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1737					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AGTTACTGTAGATGAAATACA	0.383													24	64	---	---	---	---	PASS	A	71654208	A	A	71654208	3	1	4	1	0	0	0	0	1	0	0	0	18052	942	33	2	5299	2	ZNF638	2	71654208	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	62926	71654208	171545165	476	1067										
CYP26B1	56603	broad.mit.edu	37	chr2	72361913	72361913	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagctcctgcatggtcatctCcttcccgtgctccttgctgc	8	17	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:72361913C>T	uc002sih.1	-	4	838	c.838G>A	c.(838-840)GAG>AAG	p.E280K	CYP26B1_uc010yra.1_Missense_Mutation_p.E263K|CYP26B1_uc010yrb.1_Missense_Mutation_p.E205K	NM_019885	NP_063938	Q9NR63	CP26B_HUMAN	cytochrome P450, family 26, subfamily b,	280					cell fate determination|embryonic limb morphogenesis|male meiosis|negative regulation of retinoic acid receptor signaling pathway|proximal/distal pattern formation|retinoic acid catabolic process|spermatogenesis|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			skin(2)	2						ATGGTCATCTCCTTCCCGTGC	0.617													15	27	---	---	---	---	PASS	T	72361913	T	T	72361913	3	4	4	1	0	0	0	0	1	0	0	0	4156	864	30	2	712	2	CYP26B1	2	72361913	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	707705	72361913	170837460	477	1068										
EMX1	2016	broad.mit.edu	37	chr2	73160999	73160999	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgagtccgagcagaagaaGaagggctcccatcacatcaa	10	12	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:73160999G>A	uc002sin.1	+	3	1167	c.789G>A	c.(787-789)AAG>AAA	p.K263K	EMX1_uc002sim.1_3'UTR	NM_004097	NP_004088	Q04741	EMX1_HUMAN	empty spiracles homolog 1	230						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGCAGAAGAAGAAGGGCTCCC	0.582													10	24	---	---	---	---	PASS	A	73160999	A	A	73160999	2	1	4	1	0	0	0	0	0	0	0	1	5107	933	33	2		2	EMX1	2	73160999	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	799086	73160999	170038374	478	1069										
ALMS1	7840	broad.mit.edu	37	chr2	73800511	73800511	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgctgaatacaggtcatcCcctagtgacttctgagcaca	9	11	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:73800511C>T	uc002sje.1	+	18	11621	c.11510C>T	c.(11509-11511)CCC>CTC	p.P3837L	ALMS1_uc002sjf.1_Missense_Mutation_p.P3793L|ALMS1_uc002sjg.2_Missense_Mutation_p.P3223L|ALMS1_uc002sjh.1_Missense_Mutation_p.P3223L	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3835					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						ACAGGTCATCCCCTAGTGACT	0.458													10	32	---	---	---	---	PASS	T	73800511	T	T	73800511	3	4	4	1	0	0	0	0	1	0	0	0	535	623	22	3	11566	3	ALMS1	2	73800511	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	639512	73800511	169398862	479	1070										
C2orf78	388960	broad.mit.edu	37	chr2	74043295	74043295	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaagatcgatatgaaaactGgattctcttcctccaggacc	7	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:74043295G>A	uc002sjr.1	+	3	2066	c.1945G>A	c.(1945-1947)GGA>AGA	p.G649R		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	649										ovary(2)	2						TATGAAAACTGGATTCTCTTC	0.502													21	69	---	---	---	---	PASS	A	74043295	A	A	74043295	3	1	4	1	0	0	0	0	1	0	0	0	2195	1349	47	3	1955	3	C2orf78	2	74043295	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	242784	74043295	169156078	480	1071										
SLC4A5	57835	broad.mit.edu	37	chr2	74480165	74480165	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttgggtcccattctccagGaggaaggacgatgacctcat	11	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:74480165G>A	uc002sko.1	-	10	1206	c.1204C>T	c.(1204-1206)CCT>TCT	p.P402S	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Missense_Mutation_p.P402S|SLC4A5_uc010ffc.1_Missense_Mutation_p.P402S|SLC4A5_uc002skp.1_Missense_Mutation_p.P338S|SLC4A5_uc002sks.1_Missense_Mutation_p.P402S	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	402	Cytoplasmic (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						CATTCTCCAGGAGGAAGGACG	0.527													19	17	---	---	---	---	PASS	A	74480165	A	A	74480165	3	1	4	1	0	0	0	0	1	0	0	0	14657	1174	41	2	2277	2	SLC4A5	2	74480165	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	436870	74480165	168719208	481	1072										
MOGS	7841	broad.mit.edu	37	chr2	74688726	74688726	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggagctggaggctgcaagGgagcgtaaaccaaaggggct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:74688726G>A	uc010ffj.2	-	4	2353	c.2190C>T	c.(2188-2190)TCC>TCT	p.S730S	MOGS_uc010ffh.2_Silent_p.S455S|MOGS_uc010yrt.1_Silent_p.S611S|MOGS_uc010ffi.2_Silent_p.S624S	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	730	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						AGGCTGCAAGGGAGCGTAAAC	0.607													19	37	---	---	---	---	PASS	A	74688726	A	A	74688726	2	1	4	1	0	0	0	0	0	0	0	1	9697	1219	43	3		3	MOGS	2	74688726	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	208561	74688726	168510647	482	1073	25	2								
MOGS	7841	broad.mit.edu	37	chr2	74688727	74688727	+	Missense_Mutation	SNP	G	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggagctggaggctgcaaggGagcgtaaaccaaaggggctc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:74688727G>T	uc010ffj.2	-	4	2352	c.2189C>A	c.(2188-2190)TCC>TAC	p.S730Y	MOGS_uc010ffh.2_Missense_Mutation_p.S455Y|MOGS_uc010yrt.1_Missense_Mutation_p.S611Y|MOGS_uc010ffi.2_Missense_Mutation_p.S624Y	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	730	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						GGCTGCAAGGGAGCGTAAACC	0.602													20	37	---	---	---	---	PASS	T	74688727	T	T	74688727	3	4	4	1	0	0	0	0	1	0	0	0	9697	1174	41	2	328	2	MOGS	2	74688727	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	74688727	168510646	483	1074	25	2								
C2orf65	130951	broad.mit.edu	37	chr2	74789505	74789505	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaattctctggctgtgtcCtgggcccggtggttccccct	13	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:74789505C>T	uc002smy.2	-	8	1237	c.1120G>A	c.(1120-1122)GGA>AGA	p.G374R	C2orf65_uc010ysa.1_Missense_Mutation_p.G374R|C2orf65_uc010ffp.2_Intron|C2orf65_uc002smx.2_Missense_Mutation_p.G130R	NM_138804	NP_620159	Q8TC57	CB065_HUMAN	hypothetical protein LOC130951	374					chromatin assembly|female gamete generation|RNA processing|spermatogenesis	integral to membrane				ovary(1)|pancreas(1)	2						TGGCTGTGTCCTGGGCCCGGT	0.527													23	39	---	---	---	---	PASS	T	74789505	T	T	74789505	3	4	4	1	0	0	0	0	1	0	0	0	2184	690	24	3	488	3	C2orf65	2	74789505	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	100778	74789505	168409868	484	1075										
HK2	3099	broad.mit.edu	37	chr2	75104379	75104379	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaggaggagctgctctttgGggggaagctcagcccagagc	16	10	2	1	rs36066402	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:75104379G>T	uc002snd.2	+	8	2888	c.962G>T	c.(961-963)GGG>GTG	p.G321V		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	321	Regulatory.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						CTGCTCTTTGGGGGGAAGCTC	0.547													6	165	---	---	---	---	PASS	T	75104379	T	T	75104379	3	4	4	1	0	0	0	0	1	0	0	0	7191	1232	43	3	992	3	HK2	2	75104379	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	314874	75104379	168094994	485	1076										
C2orf3	6936	broad.mit.edu	37	chr2	75933713	75933713	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagacaaaccctgatcatcCttactttctgaggagtgatg	9	9	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:75933713C>T	uc002sno.2	-	2	460	c.330G>A	c.(328-330)AAG>AAA	p.K110K	C2orf3_uc002snn.2_5'UTR|C2orf3_uc010fft.2_5'UTR|C2orf3_uc002snp.3_Silent_p.K110K	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	110					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CCTGATCATCCTTACTTTCTG	0.338													16	45	---	---	---	---	PASS	T	75933713	T	T	75933713	2	4	4	1	0	0	0	0	0	0	0	1	2162	680	24	3		3	C2orf3	2	75933713	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	829334	75933713	167265660	486	1077										
REG1B	5968	broad.mit.edu	37	chr2	79313613	79313613	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacaccaggttgcctgaattCatgttctggcaatagagctg	11	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:79313613C>T	uc002sny.2	-	4	313	c.201G>A	c.(199-201)ATG>ATA	p.M67I	REG1B_uc010ffv.1_Missense_Mutation_p.M67I|REG1B_uc010ffw.2_3'UTR	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	67	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						TGCCTGAATTCATGTTCTGGC	0.498													31	57	---	---	---	---	PASS	T	79313613	T	T	79313613	3	4	4	1	0	0	0	0	1	0	0	0	13211	826	29	2	311	2	REG1B	2	79313613	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3379900	79313613	163885760	487	1078										
REG1A	5967	broad.mit.edu	37	chr2	79348738	79348738	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccggatcagctgcccagaaGgcaccaatgcctatcgctcc	9	17	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:79348738G>A	uc002snz.2	+	3	218	c.115G>A	c.(115-117)GGC>AGC	p.G39S	REG1A_uc010ffx.1_Missense_Mutation_p.G39S|REG1A_uc010ysd.1_Missense_Mutation_p.G39S	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	39	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						CTGCCCAGAAGGCACCAATGC	0.532													83	117	---	---	---	---	PASS	A	79348738	A	A	79348738	3	1	4	1	0	0	0	0	1	0	0	0	13210	1000	35	3	121	3	REG1A	2	79348738	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	35125	79348738	163850635	488	1079										
REG1A	5967	broad.mit.edu	37	chr2	79349168	79349168	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtctgtgctcacccaggccGagggtgcctttgtggcctca	13	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:79349168G>A	uc002snz.2	+	4	341	c.238G>A	c.(238-240)GAG>AAG	p.E80K	REG1A_uc010ffx.1_3'UTR|REG1A_uc010ysd.1_Missense_Mutation_p.E80K	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	80	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						CACCCAGGCCGAGGGTGCCTT	0.522													38	45	---	---	---	---	PASS	A	79349168	A	A	79349168	3	1	4	1	0	0	0	0	1	0	0	0	13210	1059	37	2	248	2	REG1A	2	79349168	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	430	79349168	163850205	489	1080										
CTNNA2	1496	broad.mit.edu	37	chr2	80096945	80096945	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtttttcaccactgcaggtgGaagaggccctggaagctgtc	13	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:80096945G>A	uc010ysh.1	+	4	474	c.469G>A	c.(469-471)GAA>AAA	p.E157K	CTNNA2_uc010yse.1_Missense_Mutation_p.E157K|CTNNA2_uc010ysf.1_Missense_Mutation_p.E157K|CTNNA2_uc010ysg.1_Missense_Mutation_p.E157K	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	157					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						ACTGCAGGTGGAAGAGGCCCT	0.358													16	47	---	---	---	---	PASS	A	80096945	A	A	80096945	3	1	4	1	0	0	0	0	1	0	0	0	4013	1175	41	2	483	2	CTNNA2	2	80096945	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	747777	80096945	163102428	490	1081										
CTNNA2	1496	broad.mit.edu	37	chr2	80846328	80846328	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctgagggagctccgatcgGgagtggaagcagtgattcct	16	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:80846328G>A	uc010ysh.1	+	17	2554	c.2549G>A	c.(2548-2550)GGG>GAG	p.G850E	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysi.1_Intron|CTNNA2_uc010ysj.1_Intron	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	850					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GCTCCGATCGGGAGTGGAAGC	0.453													6	12	---	---	---	---	PASS	A	80846328	A	A	80846328	3	1	4	1	0	0	0	0	1	0	0	0	4013	1247	43	3		3	CTNNA2	2	80846328	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	749383	80846328	162353045	491	1082										
ELMOD3	84173	broad.mit.edu	37	chr2	85598247	85598247	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attcgaaggactgggctcgcCgccctccgacactacctctt	9	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:85598247C>A	uc002spf.3	+	10	1064	c.399C>A	c.(397-399)GCC>GCA	p.A133A	ELMOD3_uc010fgg.2_RNA|ELMOD3_uc002spg.3_Silent_p.A133A|ELMOD3_uc002sph.3_Silent_p.A133A|ELMOD3_uc010ysn.1_Silent_p.A133A|ELMOD3_uc010yso.1_RNA|ELMOD3_uc010ysp.1_RNA	NM_001135021	NP_001128493	Q96FG2	ELMD3_HUMAN	ELMO/CED-12 domain containing 3 isoform b	133					phagocytosis	cytoskeleton				ovary(2)	2						CTGGGCTCGCCGCCCTCCGAC	0.542													4	102	---	---	---	---	PASS	A	85598247	A	A	85598247	2	1	4	1	0	0	0	0	0	0	0	1	5070	639	23	1		1	ELMOD3	2	85598247	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4751919	85598247	157601126	492	1083										
MAT2A	4144	broad.mit.edu	37	chr2	85769398	85769398	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatgagggatgccctaaagGagaaagtcatcaaagcagtt	11	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:85769398G>A	uc002spr.2	+	6	793	c.670G>A	c.(670-672)GAG>AAG	p.E224K	MAT2A_uc010ysr.1_Missense_Mutation_p.E224K|MAT2A_uc010fgk.2_Missense_Mutation_p.E198K|MAT2A_uc010fgl.2_Missense_Mutation_p.E161K|MAT2A_uc010fgm.1_3'UTR	NM_005911	NP_005902	P31153	METK2_HUMAN	methionine adenosyltransferase II, alpha	224					methylation|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0					L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	TGCCCTAAAGGAGAAAGTCAT	0.458													21	43	---	---	---	---	PASS	A	85769398	A	A	85769398	3	1	4	1	0	0	0	0	1	0	0	0	9330	1175	41	2	692	2	MAT2A	2	85769398	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	171151	85769398	157429975	493	1084										
POLR1A	25885	broad.mit.edu	37	chr2	86258525	86258525	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggatctcacgcacagcctgGacccggcgctccatggcctc	11	17	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:86258525G>A	uc002sqs.2	-	30	4885	c.4506C>T	c.(4504-4506)GTC>GTT	p.V1502V	POLR1A_uc010ytb.1_Silent_p.V868V	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	1502					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						GCACAGCCTGGACCCGGCGCT	0.677													37	48	---	---	---	---	PASS	A	86258525	A	A	86258525	2	1	4	1	0	0	0	0	0	0	0	1	12209	1161	41	2		2	POLR1A	2	86258525	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	489127	86258525	156940848	494	1085										
POLR1A	25885	broad.mit.edu	37	chr2	86258607	86258607	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgtcaggagggcgggaaggGacgggtcctcctcagtgcct	18	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:86258607G>A	uc002sqs.2	-	30	4803	c.4424C>T	c.(4423-4425)TCC>TTC	p.S1475F	POLR1A_uc010ytb.1_Missense_Mutation_p.S841F	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	1475					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						GGCGGGAAGGGACGGGTCCTC	0.592													26	42	---	---	---	---	PASS	A	86258607	A	A	86258607	3	1	4	1	0	0	0	0	1	0	0	0	12209	1174	41	2	758	2	POLR1A	2	86258607	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	82	86258607	156940766	495	1086										
REEP1	65055	broad.mit.edu	37	chr2	86459855	86459855	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcccgagggagcaggggcgCcgtctcccctgatggtggtg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:86459855C>T	uc002srh.3	-	6	632	c.488G>A	c.(487-489)GGC>GAC	p.G163D	REEP1_uc010ytg.1_Missense_Mutation_p.G142D|REEP1_uc010yth.1_Missense_Mutation_p.G136D|REEP1_uc010yti.1_Missense_Mutation_p.A85T	NM_022912	NP_075063	Q9H902	REEP1_HUMAN	receptor accessory protein 1 isoform 2	163					cell death|protein insertion into membrane	integral to membrane|mitochondrial membrane	olfactory receptor binding				0						AGCAGGGGCGCCGTCTCCCCT	0.657													5	27	---	---	---	---	PASS	T	86459855	T	T	86459855	3	4	4	1	0	0	0	0	1	0	0	0	13204	739	26	3	186	3	REEP1	2	86459855	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	201248	86459855	156739518	496	1087	26	2								
REEP1	65055	broad.mit.edu	37	chr2	86459856	86459856	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcccgagggagcaggggcgcCgtctcccctgatggtggtga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:86459856C>T	uc002srh.3	-	6	631	c.487G>A	c.(487-489)GGC>AGC	p.G163S	REEP1_uc010ytg.1_Missense_Mutation_p.G142S|REEP1_uc010yth.1_Missense_Mutation_p.G136S|REEP1_uc010yti.1_Silent_p.T84T	NM_022912	NP_075063	Q9H902	REEP1_HUMAN	receptor accessory protein 1 isoform 2	163					cell death|protein insertion into membrane	integral to membrane|mitochondrial membrane	olfactory receptor binding				0						GCAGGGGCGCCGTCTCCCCTG	0.657													7	26	---	---	---	---	PASS	T	86459856	T	T	86459856	3	4	4	1	0	0	0	0	1	0	0	0	13204	652	23	1	187	1	REEP1	2	86459856	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	86459856	156739517	497	1088	26	2								
RNF103	7844	broad.mit.edu	37	chr2	86831609	86831609	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctacaggaaagttctgaaaaGaagcaatcgggtggaagagg	14	5	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:86831609G>A	uc002srn.2	-	4	2384	c.1415C>T	c.(1414-1416)TCT>TTT	p.S472F	VPS24_uc010ytl.1_Intron|RNF103_uc002srm.2_Missense_Mutation_p.S333F|uc002sro.2_Intron	NM_005667	NP_005658	O00237	RN103_HUMAN	ring finger protein 103	472					central nervous system development|ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(1)	1						GTTCTGAAAAGAAGCAATCGG	0.458													23	39	---	---	---	---	PASS	A	86831609	A	A	86831609	3	1	4	1	0	0	0	0	1	0	0	0	13423	942	33	2	646	2	RNF103	2	86831609	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	371753	86831609	156367764	498	1089										
CD8B	926	broad.mit.edu	37	chr2	87042750	87042750	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctatgttttcaggatccatgGgttaagcagcttctgtgagg	12	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:87042750G>A	uc002srw.2	-	6	762	c.712C>T	c.(712-714)CCA>TCA	p.P238S	RMND5A_uc002srs.3_Intron|CD8B_uc002srx.2_3'UTR|CD8B_uc002sry.2_Missense_Mutation_p.P208S|CD8B_uc010fgt.2_Silent_p.T195T	NM_172213	NP_757362	P10966	CD8B_HUMAN	CD8b antigen isoform 2 precursor	Error:Variant_position_missing_in_P10966_after_alignment					immune response|regulation of defense response to virus by virus|regulation of immune response|T cell activation|transmembrane receptor protein tyrosine kinase signaling pathway|viral reproduction	early endosome|extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			upper_aerodigestive_tract(1)|skin(1)	2						AGGATCCATGGGTTAAGCAGC	0.483													98	231	---	---	---	---	PASS	A	87042750	A	A	87042750	3	1	4	1	0	0	0	0	1	0	0	0	3045	1232	43	3	23	3	CD8B	2	87042750	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	211141	87042750	156156623	499	1090										
MAL	4118	broad.mit.edu	37	chr2	95713853	95713853	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attggagcccacggtggagaGacttcctgggtcaccttggt	14	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:95713853G>A	uc002stx.1	+	2	302	c.243G>A	c.(241-243)GAG>GAA	p.E81E	MAL_uc002sty.1_Intron|MAL_uc002stz.1_Silent_p.E81E|MAL_uc002sua.1_Intron	NM_002371	NP_002362	P21145	MAL_HUMAN	T-lymphocyte maturation-associated protein	81	Cytoplasmic (Potential).|MARVEL.				apical protein localization|cell differentiation|central nervous system development|induction of apoptosis|membrane raft polarization|myelination	apical plasma membrane|endoplasmic reticulum|endosome|integral to plasma membrane|membrane raft	apoptotic protease activator activity|channel activity|lipid binding|structural constituent of myelin sheath				0				STAD - Stomach adenocarcinoma(1183;0.18)		ACGGTGGAGAGACTTCCTGGG	0.602													15	28	---	---	---	---	PASS	A	95713853	A	A	95713853	2	1	4	1	0	0	0	0	0	0	0	1	9199	933	33	2		2	MAL	2	95713853	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	8671103	95713853	147485520	500	1091										
KCNIP3	30818	broad.mit.edu	37	chr2	96040136	96040136	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaccaagttcaccaagaagGagctgcagtctctctacagg	10	11	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:96040136G>A	uc002sup.2	+	3	389	c.274G>A	c.(274-276)GAG>AAG	p.E92K	KCNIP3_uc002suq.2_Missense_Mutation_p.E66K	NM_013434	NP_038462	Q9Y2W7	CSEN_HUMAN	Kv channel interacting protein 3 isoform 1	92	EF-hand 1; degenerate.				apoptosis|signal transduction|transcription, DNA-dependent	endoplasmic reticulum|Golgi apparatus|nucleus|plasma membrane	calcium ion binding|DNA binding|potassium channel activity|transcription corepressor activity|voltage-gated ion channel activity			breast(2)|ovary(1)	3				READ - Rectum adenocarcinoma(193;0.13)		CACCAAGAAGGAGCTGCAGTC	0.602													12	37	---	---	---	---	PASS	A	96040136	A	A	96040136	3	1	4	1	0	0	0	0	1	0	0	0	8041	1175	41	2	391	2	KCNIP3	2	96040136	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	326283	96040136	147159237	501	1092										
GPAT2	150763	broad.mit.edu	37	chr2	96690582	96690582	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctcatcaccgcagagctcCctacactggctggagtgggg	13	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:96690582C>T	uc002svf.2	-	14	1590	c.1367G>A	c.(1366-1368)GGG>GAG	p.G456E	GPAT2_uc002svd.2_Missense_Mutation_p.G269E|GPAT2_uc002sve.2_Missense_Mutation_p.G258E|GPAT2_uc002svg.2_Missense_Mutation_p.G329E|GPAT2_uc010yuh.1_Missense_Mutation_p.G385E|GPAT2_uc002svh.2_Missense_Mutation_p.G456E	NM_207328	NP_997211	Q6NUI2	GPAT2_HUMAN	glycerol-3-phosphate acyltransferase 2,	456	Helical; (Potential).				glycerol-3-phosphate metabolic process|phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity				0						CGCAGAGCTCCCTACACTGGC	0.617													26	63	---	---	---	---	PASS	T	96690582	T	T	96690582	3	4	4	1	0	0	0	0	1	0	0	0	6589	623	22	3	1056	3	GPAT2	2	96690582	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	650446	96690582	146508791	502	1093										
ARID5A	10865	broad.mit.edu	37	chr2	97216904	97216904	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccagccaggagccccccagGaacagcacagaacagcaggg	12	16	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:97216904G>A	uc002swe.2	+	7	739	c.639G>A	c.(637-639)AGG>AGA	p.R213R	ARID5A_uc010yuq.1_Silent_p.R161R|ARID5A_uc002swf.2_Silent_p.R49R|ARID5A_uc002swg.2_Silent_p.R161R	NM_212481	NP_997646	Q03989	ARI5A_HUMAN	AT rich interactive domain 5A	213					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding				0						AGCCCCCCAGGAACAGCACAG	0.587													29	49	---	---	---	---	PASS	A	97216904	A	A	97216904	2	1	4	1	0	0	0	0	0	0	0	1	921	1165	41	2		2	ARID5A	2	97216904	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	526322	97216904	145982469	503	1094										
ANKRD23	200539	broad.mit.edu	37	chr2	97505485	97505485	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgttccgcacccccagctcGgccccatagagcagcagtag	11	17	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:97505485G>A	uc002sxa.2	-	8	830	c.801C>T	c.(799-801)GCC>GCT	p.A267A	ANKRD23_uc002sxb.2_RNA|ANKRD23_uc002sxc.2_Silent_p.A225A	NM_144994	NP_659431	Q86SG2	ANR23_HUMAN	diabetes related ankyrin repeat protein	267	ANK 4.					nucleus				ovary(1)	1						CCCCCAGCTCGGCCCCATAGA	0.672													9	17	---	---	---	---	PASS	A	97505485	A	A	97505485	2	1	4	1	0	0	0	0	0	0	0	1	652	1103	39	1		1	ANKRD23	2	97505485	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	288581	97505485	145693888	504	1095										
ZAP70	7535	broad.mit.edu	37	chr2	98340855	98340855	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggggtcttcgactgcctgcGagacgccatggtgcgtgact	16	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:98340855G>A	uc002syd.1	+	3	563	c.356G>A	c.(355-357)CGA>CAA	p.R119Q	ZAP70_uc010yvf.1_Missense_Mutation_p.R119Q|ZAP70_uc002sye.1_5'Flank	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	119	Interdomain A.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						GACTGCCTGCGAGACGCCATG	0.716													3	1	---	---	---	---	PASS	A	98340855	A	A	98340855	3	1	4	1	0	0	0	0	1	0	0	0	17511	1058	37	2	358	2	ZAP70	2	98340855	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	835370	98340855	144858518	505	1096										
TMEM131	23505	broad.mit.edu	37	chr2	98411486	98411486	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctaacatatggtaaggaaggGatgcattcaatataaataca	8	5	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:98411486G>A	uc002syh.3	-	29	3522	c.3293C>T	c.(3292-3294)TCC>TTC	p.S1098F		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1098	Helical; (Potential).					integral to membrane				ovary(4)|central_nervous_system(2)	6						GTAAGGAAGGGATGCATTCAA	0.398													12	31	---	---	---	---	PASS	A	98411486	A	A	98411486	3	1	4	1	0	0	0	0	1	0	0	0	16041	1174	41	2	2410	2	TMEM131	2	98411486	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	70631	98411486	144787887	506	1097										
VWA3B	200403	broad.mit.edu	37	chr2	98846523	98846523	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcaaaacaggcatcaaaagGaaatctgttctatgatttca	6	7	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:98846523G>A	uc002syo.2	+	16	2425	c.2161G>A	c.(2161-2163)GAA>AAA	p.E721K	VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Missense_Mutation_p.E240K|VWA3B_uc002sym.2_Missense_Mutation_p.E721K|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.E378K|VWA3B_uc002syp.1_Missense_Mutation_p.E113K|VWA3B_uc002syq.1_5'UTR|VWA3B_uc002syr.1_Missense_Mutation_p.E38K	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	721										ovary(3)|large_intestine(2)|skin(1)	6						GCATCAAAAGGAAATCTGTTC	0.358													21	33	---	---	---	---	PASS	A	98846523	A	A	98846523	3	1	4	1	0	0	0	0	1	0	0	0	17238	1175	41	2	2219	2	VWA3B	2	98846523	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	435037	98846523	144352850	507	1098										
VWA3B	200403	broad.mit.edu	37	chr2	98852942	98852942	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccaggtttatgaccacgagTgagttctttaatttgacaaa	9	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:98852942T>G	uc002syo.2	+	18	2780	c.2516_splice	c.e18+2	p.D839_splice	VWA3B_uc002syk.1_Splice_Site|VWA3B_uc002syl.1_Splice_Site_p.D358_splice|VWA3B_uc002sym.2_Splice_Site_p.D839_splice|VWA3B_uc002syn.1_Splice_Site|VWA3B_uc010yvi.1_Splice_Site_p.D496_splice|VWA3B_uc002syp.1_Splice_Site_p.D231_splice|VWA3B_uc002syq.1_Splice_Site_p.D115_splice|VWA3B_uc002syr.1_Splice_Site_p.D156_splice|VWA3B_uc010fih.1_5'Flank	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B											ovary(3)|large_intestine(2)|skin(1)	6						TGACCACGAGTGAGTTCTTTA	0.428													26	56	---	---	---	---	PASS	G	98852942	G	G	98852942	5	3	4	1	0	0	0	0	0	0	1	0	17238	1710	59	5	2584	5	VWA3B	2	98852942	Splice_Site	SNP	T	TCGA-18-3409-01A-01D-0983-08	6419	98852942	144346431	508	1099										
VWA3B	200403	broad.mit.edu	37	chr2	98916627	98916627	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtcatagcacttcccaataAgcatgtggccacagaaaaat	7	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:98916627A>G	uc002syo.2	+	25	3632	c.3368A>G	c.(3367-3369)AAG>AGG	p.K1123R	VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.K780R|VWA3B_uc002syp.1_Missense_Mutation_p.K515R|VWA3B_uc002syq.1_Missense_Mutation_p.K399R|VWA3B_uc002syr.1_Missense_Mutation_p.K440R|VWA3B_uc002sys.2_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	1123										ovary(3)|large_intestine(2)|skin(1)	6						CTTCCCAATAAGCATGTGGCC	0.413													30	48	---	---	---	---	PASS	G	98916627	G	G	98916627	3	3	4	1	0	0	0	0	1	0	0	0	17238	72	3	5	3462	5	VWA3B	2	98916627	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	63685	98916627	144282746	509	1100										
CNGA3	1261	broad.mit.edu	37	chr2	98996811	98996811	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaggagccagcagacagagGgagaaggtaaggaacggaaa	16	7	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:98996811G>A	uc002syt.2	+	4	806	c.389G>A	c.(388-390)GGG>GAG	p.G130E	CNGA3_uc002syu.2_Missense_Mutation_p.G130E|CNGA3_uc010fij.2_Missense_Mutation_p.G134E	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	130					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						GCAGACAGAGGGAGAAGGTAA	0.572													8	12	---	---	---	---	PASS	A	98996811	A	A	98996811	3	1	4	1	0	0	0	0	1	0	0	0	3598	1232	43	3	399	3	CNGA3	2	98996811	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	80184	98996811	144202562	510	1101										
MGAT4A	11320	broad.mit.edu	37	chr2	99251711	99251711	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaaatagccatcttctaatCgtttgtctttggtttctttg	7	7	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:99251711C>T	uc002sze.2	-	14	1756	c.1442G>A	c.(1441-1443)CGA>CAA	p.R481Q	C2orf64_uc002sza.2_Intron|MGAT4A_uc010yvm.1_Missense_Mutation_p.R353Q|MGAT4A_uc010fil.2_Missense_Mutation_p.R235Q	NM_012214	NP_036346	Q9UM21	MGT4A_HUMAN	alpha-1,3-mannosyl-glycoprotein	481	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			skin(1)	1						ATCTTCTAATCGTTTGTCTTT	0.274													13	22	---	---	---	---	PASS	T	99251711	T	T	99251711	3	4	4	1	0	0	0	0	1	0	0	0	9545	884	31	2	256	2	MGAT4A	2	99251711	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	254900	99251711	143947662	511	1102										
REV1	51455	broad.mit.edu	37	chr2	100055666	100055666	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttcccggagaggtctgctCcagatccacaaaactaaaat	7	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:100055666C>T	uc002tad.2	-	6	822	c.610G>A	c.(610-612)GAG>AAG	p.E204K	REV1_uc002tac.2_Missense_Mutation_p.E204K|REV1_uc002tae.1_Missense_Mutation_p.E183K	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	204					DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						GAGGTCTGCTCCAGATCCACA	0.413								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					14	34	---	---	---	---	PASS	T	100055666	T	T	100055666	3	4	4	1	0	0	0	0	1	0	0	0	13239	864	30	2	3217	2	REV1	2	100055666	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	803955	100055666	143143707	512	1103										
AFF3	3899	broad.mit.edu	37	chr2	100623893	100623893	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgcctaaagtgttctggatCcggttggagagttcatcccc	11	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:100623893C>T	uc002tag.2	-	5	440	c.204G>A	c.(202-204)CGG>CGA	p.R68R	AFF3_uc002taf.2_Silent_p.R93R|AFF3_uc010fiq.1_Silent_p.R68R|AFF3_uc010yvr.1_Silent_p.R222R|AFF3_uc002tah.1_Silent_p.R93R|AFF3_uc010fir.1_Silent_p.R145R|AFF3_uc002tai.2_5'UTR	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	68					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						TGTTCTGGATCCGGTTGGAGA	0.433													31	56	---	---	---	---	PASS	T	100623893	T	T	100623893	2	4	4	1	0	0	0	0	0	0	0	1	358	842	30	2		2	AFF3	2	100623893	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	568227	100623893	142575480	513	1104										
SLC9A4	389015	broad.mit.edu	37	chr2	103128667	103128667	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtttgtttggcagctgatGgatcacttaaaggctggaat	13	5	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:103128667G>A	uc002tbz.3	+	7	1951	c.1494G>A	c.(1492-1494)ATG>ATA	p.M498I		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	498	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						GGCAGCTGATGGATCACTTAA	0.448													29	57	---	---	---	---	PASS	A	103128667	A	A	103128667	3	1	4	1	0	0	0	0	1	0	0	0	14716	1348	47	3	1520	3	SLC9A4	2	103128667	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2504774	103128667	140070706	514	1105										
SLC9A2	6549	broad.mit.edu	37	chr2	103322321	103322321	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaggcttccacttcaacctCccgatatttatccttaccta	3	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:103322321C>T	uc002tca.2	+	11	2136	c.1994C>T	c.(1993-1995)TCC>TTC	p.S665F		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	665	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						ACTTCAACCTCCCGATATTTA	0.308													5	32	---	---	---	---	PASS	T	103322321	T	T	103322321	3	4	4	1	0	0	0	0	1	0	0	0	14712	855	30	2	2036	2	SLC9A2	2	103322321	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	193654	103322321	139877052	515	1106										
ST6GAL2	84620	broad.mit.edu	37	chr2	107460166	107460166	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggtctccaggccccgcatGaaaggaaccggctgggtggg	16	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:107460166G>A	uc002tdq.2	-	2	387	c.268C>T	c.(268-270)CAT>TAT	p.H90Y	ST6GAL2_uc002tdr.2_Missense_Mutation_p.H90Y|ST6GAL2_uc002tds.3_Missense_Mutation_p.H90Y	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	90	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						GGCCCCGCATGAAAGGAACCG	0.627													9	31	---	---	---	---	PASS	A	107460166	A	A	107460166	3	1	4	1	0	0	0	0	1	0	0	0	15221	1290	45	2	1428	2	ST6GAL2	2	107460166	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4137845	107460166	135739207	516	1107										
SULT1C3	442038	broad.mit.edu	37	chr2	108872116	108872116	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttatgcctgatcctcagaActtagaggaattttatgaga	8	7	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:108872116A>G	uc010ywo.1	+	4	488	c.488A>G	c.(487-489)AAC>AGC	p.N163S		NM_001008743	NP_001008743	Q6IMI6	ST1C3_HUMAN	sulfotransferase family, cytosolic, 1C, member	163						cytoplasm	alcohol sulfotransferase activity			skin(1)	1						GATCCTCAGAACTTAGAGGAA	0.428													22	32	---	---	---	---	PASS	G	108872116	G	G	108872116	3	3	4	1	0	0	0	0	1	0	0	0	15375	43	2	5	502	5	SULT1C3	2	108872116	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	1411950	108872116	134327257	517	1108										
SULT1C2	6819	broad.mit.edu	37	chr2	108910229	108910229	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagccagatccagagcttcGaggccaaaccagatgatctc	11	12	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:108910229G>A	uc002tdy.2	+	2	559	c.106G>A	c.(106-108)GAG>AAG	p.E36K	SULT1C2_uc010ywp.1_5'UTR|SULT1C2_uc002tdx.2_Missense_Mutation_p.E36K|SULT1C2_uc010ywq.1_Missense_Mutation_p.E36K	NM_001056	NP_001047	O00338	ST1C2_HUMAN	sulfotransferase family, cytosolic, 1C, member 1	36					3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine metabolic process|sulfation|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	sulfotransferase activity			ovary(1)	1						CCAGAGCTTCGAGGCCAAACC	0.557													23	37	---	---	---	---	PASS	A	108910229	A	A	108910229	3	1	4	1	0	0	0	0	1	0	0	0	15374	1059	37	2	108	2	SULT1C2	2	108910229	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	38113	108910229	134289144	518	1109										
SULT1C4	27233	broad.mit.edu	37	chr2	108998307	108998307	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caccgactcatcaacgatttCctttcctcgaaatgaaaatc	4	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:108998307C>T	uc002tea.1	+	2	632	c.259C>T	c.(259-261)CCT>TCT	p.P87S	SULT1C4_uc002tdz.2_Missense_Mutation_p.P87S|SULT1C4_uc010ywr.1_RNA|SULT1C4_uc002teb.1_Missense_Mutation_p.P87S	NM_006588	NP_006579	O75897	ST1C4_HUMAN	sulfotransferase family, cytosolic, 1C, member	87					3'-phosphoadenosine 5'-phosphosulfate metabolic process|sulfation|xenobiotic metabolic process	cytosol	sulfotransferase activity				0						TCAACGATTTCCTTTCCTCGA	0.403													20	37	---	---	---	---	PASS	T	108998307	T	T	108998307	3	4	4	1	0	0	0	0	1	0	0	0	15376	855	30	2	265	2	SULT1C4	2	108998307	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	88078	108998307	134201066	519	1110										
POLR1B	84172	broad.mit.edu	37	chr2	113304673	113304673	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttatcagtccacctacagttCcaaaagggaccatctgcaaa	6	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:113304673C>T	uc002thw.2	+	2	842	c.262C>T	c.(262-264)CCA>TCA	p.P88S	POLR1B_uc010fkn.2_Intron|POLR1B_uc002thx.2_5'UTR|POLR1B_uc010fko.2_Missense_Mutation_p.P88S|POLR1B_uc010fkp.2_Intron|POLR1B_uc010yxn.1_Missense_Mutation_p.P126S|POLR1B_uc002thy.2_5'UTR|POLR1B_uc010yxo.1_Intron	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	88					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1						ACCTACAGTTCCAAAAGGGAC	0.453													29	43	---	---	---	---	PASS	T	113304673	T	T	113304673	3	4	4	1	0	0	0	0	1	0	0	0	12210	855	30	2	268	2	POLR1B	2	113304673	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4306366	113304673	129894700	520	1111										
POLR1B	84172	broad.mit.edu	37	chr2	113308538	113308538	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttatgttgaactttatttacCgaaaagaactgttctttctt	5	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:113308538C>T	uc002thw.2	+	5	1301	c.721C>T	c.(721-723)CGA>TGA	p.R241*	POLR1B_uc010fkn.2_Nonsense_Mutation_p.R185*|POLR1B_uc002thx.2_Nonsense_Mutation_p.R102*|POLR1B_uc010fko.2_Nonsense_Mutation_p.R241*|POLR1B_uc010fkp.2_Intron|POLR1B_uc010yxn.1_Nonsense_Mutation_p.R279*|POLR1B_uc002thy.2_Nonsense_Mutation_p.R102*|POLR1B_uc010yxo.1_Nonsense_Mutation_p.R18*	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	241					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1						CTTTATTTACCGAAAAGAACT	0.378													16	70	---	---	---	---	PASS	T	113308538	T	T	113308538	4	4	4	1	0	0	0	0	0	1	0	0	12210	644	23	1	739	1	POLR1B	2	113308538	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3865	113308538	129890835	521	1112										
PAX8	7849	broad.mit.edu	37	chr2	113977710	113977710	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcgccaggcctcgctgtagGaggagtagggggtgtggcca	19	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:113977710G>A	uc010yxt.1	-	11	1401	c.1235C>T	c.(1234-1236)TCC>TTC	p.S412F	PAX8_uc010yxu.1_Missense_Mutation_p.P386S|PAX8_uc010yxv.1_Missense_Mutation_p.S349F|PAX8_uc002tjm.2_Missense_Mutation_p.P309S|PAX8_uc002tjn.2_Missense_Mutation_p.P275S	NM_003466	NP_003457	Q06710	PAX8_HUMAN	paired box 8 isoform PAX8A	412					branching involved in ureteric bud morphogenesis|cellular response to gonadotropin stimulus|central nervous system development|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|metanephric collecting duct development|metanephric comma-shaped body morphogenesis|metanephric distal convoluted tubule development|metanephric nephron tubule formation|metanephric S-shaped body morphogenesis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|otic vesicle development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric field specification|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of thyroid-stimulating hormone secretion|thyroid gland development|transcription, DNA-dependent	nucleoplasm	protein binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid-stimulating hormone receptor activity			ovary(1)|lung(1)	2						CTCGCTGTAGGAGGAGTAGGG	0.627			T	PPARG	follicular thyroid		Thyroid dysgenesis 						7	11	---	---	---	---	PASS	A	113977710	A	A	113977710	3	1	4	1	0	0	0	0	1	0	0	0	11485	1174	41	2	125	2	PAX8	2	113977710	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	669172	113977710	129221663	522	1113										
RABL2A	11159	broad.mit.edu	37	chr2	114399678	114399678	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcagcatcgagaccccatCagaggaggtggcctctcccc	11	16	2	2	rs141631881		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:114399678C>T	uc002tkn.3	+	9	873	c.659C>T	c.(658-660)TCA>TTA	p.S220L	RABL2A_uc010flb.2_Missense_Mutation_p.S220L|RABL2A_uc002tkl.3_Missense_Mutation_p.S139L|RABL2A_uc002tkm.3_Missense_Mutation_p.S157L|RABL2A_uc002tks.3_Missense_Mutation_p.S221L|RABL2A_uc002tkr.2_Missense_Mutation_p.S221L|RABL2A_uc002tkp.3_Missense_Mutation_p.S221L	NM_007082	NP_009013	Q9UBK7	RBL2A_HUMAN	RAB, member of RAS oncogene family-like 2A	220					small GTPase mediated signal transduction		GTP binding|GTPase activity			skin(1)	1						GAGACCCCATCAGAGGAGGTG	0.587													8	22	---	---	---	---	PASS	T	114399678	T	T	114399678	3	4	4	1	0	0	0	0	1	0	0	0	12970	838	29	2	689	2	RABL2A	2	114399678	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	421968	114399678	128799695	523	1114										
DPP10	57628	broad.mit.edu	37	chr2	116535395	116535395	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cactgaatcttctcccagagGaaggcagctgtacaggtaag	11	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:116535395G>A	uc002tla.1	+	15	1803	c.1346G>A	c.(1345-1347)GGA>GAA	p.G449E	DPP10_uc002tlb.1_Missense_Mutation_p.G399E|DPP10_uc002tlc.1_Missense_Mutation_p.G445E|DPP10_uc002tle.2_Missense_Mutation_p.G453E|DPP10_uc002tlf.1_Missense_Mutation_p.G442E	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	449	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TCTCCCAGAGGAAGGCAGCTG	0.403													28	28	---	---	---	---	PASS	A	116535395	A	A	116535395	3	1	4	1	0	0	0	0	1	0	0	0	4727	1174	41	2	1575	2	DPP10	2	116535395	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2135717	116535395	126663978	524	1115										
DPP10	57628	broad.mit.edu	37	chr2	116548737	116548737	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaagccagaaattaaaatcCttcatattgacgactatggt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:116548737C>T	uc002tla.1	+	18	2069	c.1612C>T	c.(1612-1614)CTT>TTT	p.L538F	DPP10_uc002tlb.1_Missense_Mutation_p.L488F|DPP10_uc002tlc.1_Missense_Mutation_p.L534F|DPP10_uc002tle.2_Missense_Mutation_p.L542F|DPP10_uc002tlf.1_Missense_Mutation_p.L531F	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	538	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						AATTAAAATCCTTCATATTGA	0.338													12	24	---	---	---	---	PASS	T	116548737	T	T	116548737	3	4	4	1	0	0	0	0	1	0	0	0	4727	681	24	3	1853	3	DPP10	2	116548737	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	13342	116548737	126650636	525	1116	27	2								
DPP10	57628	broad.mit.edu	37	chr2	116548746	116548746	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaattaaaatccttcatattGacgactatggtaaaattttg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:116548746G>A	uc002tla.1	+	18	2078	c.1621G>A	c.(1621-1623)GAC>AAC	p.D541N	DPP10_uc002tlb.1_Missense_Mutation_p.D491N|DPP10_uc002tlc.1_Missense_Mutation_p.D537N|DPP10_uc002tle.2_Missense_Mutation_p.D545N|DPP10_uc002tlf.1_Missense_Mutation_p.D534N	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	541	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						CCTTCATATTGACGACTATGG	0.318													10	24	---	---	---	---	PASS	A	116548746	A	A	116548746	3	1	4	1	0	0	0	0	1	0	0	0	4727	1290	45	2	1862	2	DPP10	2	116548746	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	9	116548746	126650627	526	1117	27	2								
MARCO	8685	broad.mit.edu	37	chr2	119750054	119750054	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagaaaaaggtgaaagaggTaatcactatttatattatct	9	3	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:119750054T>C	uc002tln.1	+	15	1384	c.1252_splice	c.e15+2	p.G418_splice	MARCO_uc010yyf.1_Splice_Site_p.G340_splice	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure						cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						GTGAAAGAGGTAATCACTATT	0.408													18	29	---	---	---	---	PASS	C	119750054	C	C	119750054	5	2	4	1	0	0	0	0	0	0	1	0	9311	1652	57	5	1312	5	MARCO	2	119750054	Splice_Site	SNP	T	TCGA-18-3409-01A-01D-0983-08	3201308	119750054	123449319	527	1118										
PTPN4	5775	broad.mit.edu	37	chr2	120684190	120684190	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagtgggagaactgaagtcCaatcagttcagtatggcaaa	11	7	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:120684190C>T	uc002tmf.1	+	13	1789	c.1018C>T	c.(1018-1020)CAA>TAA	p.Q340*	PTPN4_uc010flj.1_Nonsense_Mutation_p.Q53*	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	340						cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	AACTGAAGTCCAATCAGTTCA	0.299													34	60	---	---	---	---	PASS	T	120684190	T	T	120684190	4	4	4	1	0	0	0	0	0	1	0	0	12790	595	21	3	1064	3	PTPN4	2	120684190	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	934136	120684190	122515183	528	1119										
GLI2	2736	broad.mit.edu	37	chr2	121712845	121712845	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaggagcaccttaaggagaGgggactgtttggccttcctg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:121712845G>A	uc010flp.2	+	4	512	c.482G>A	c.(481-483)AGG>AAG	p.R161K	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Intron|GLI2_uc002tmu.3_Intron|GLI2_uc002tmv.1_Intron|GLI2_uc010flo.1_Missense_Mutation_p.R36K|GLI2_uc002tmw.1_Missense_Mutation_p.R161K	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	161					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				CTTAAGGAGAGGGGACTGTTT	0.597													17	20	---	---	---	---	PASS	A	121712845	A	A	121712845	3	1	4	1	0	0	0	0	1	0	0	0	6438	1000	35	3	496	3	GLI2	2	121712845	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1028655	121712845	121486528	529	1120	28	2								
GLI2	2736	broad.mit.edu	37	chr2	121712846	121712846	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggagcaccttaaggagagGggactgtttggccttcctgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:121712846G>A	uc010flp.2	+	4	513	c.483G>A	c.(481-483)AGG>AGA	p.R161R	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Intron|GLI2_uc002tmu.3_Intron|GLI2_uc002tmv.1_Intron|GLI2_uc010flo.1_Silent_p.R36R|GLI2_uc002tmw.1_Silent_p.R161R	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	161					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				TTAAGGAGAGGGGACTGTTTG	0.597													17	20	---	---	---	---	PASS	A	121712846	A	A	121712846	2	1	4	1	0	0	0	0	0	0	0	1	6438	1223	43	3		3	GLI2	2	121712846	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	121712846	121486527	530	1121	28	2								
GPR17	2840	broad.mit.edu	37	chr2	128408678	128408678	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccagcatctacttcctcacCtgcatcagcgccgaccgttt	7	17	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:128408678C>T	uc010yzn.1	+	4	1064	c.453C>T	c.(451-453)ACC>ACT	p.T151T	LIMS2_uc002tow.2_5'Flank|LIMS2_uc002tox.2_Intron|LIMS2_uc010fmb.2_Intron|LIMS2_uc002toy.2_Intron|LIMS2_uc010yzm.1_Intron|LIMS2_uc002tpa.2_Intron|LIMS2_uc002toz.2_Intron|LIMS2_uc002tpb.2_Intron|GPR17_uc002tpc.2_Silent_p.T151T|GPR17_uc010yzo.1_Silent_p.T123T|GPR17_uc002tpd.2_Silent_p.T123T	NM_001161415	NP_001154887	Q13304	GPR17_HUMAN	G protein-coupled receptor 17 isoform a	151	Helical; Name=3; (Potential).					integral to plasma membrane	chemokine receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	Colorectal(110;0.1)	Ovarian(717;0.15)		BRCA - Breast invasive adenocarcinoma(221;0.0677)		ACTTCCTCACCTGCATCAGCG	0.597													29	45	---	---	---	---	PASS	T	128408678	T	T	128408678	2	4	4	1	0	0	0	0	0	0	0	1	6667	668	24	3		3	GPR17	2	128408678	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	6695832	128408678	114790695	531	1122										
WDR33	55339	broad.mit.edu	37	chr2	128526523	128526523	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttacatcattgtaataacctGcatcaggctgaattgcccgc	7	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:128526523G>A	uc002tpg.1	-	3	440	c.257C>T	c.(256-258)GCA>GTA	p.A86V	WDR33_uc002tph.1_Missense_Mutation_p.A86V|WDR33_uc002tpi.1_Missense_Mutation_p.A86V	NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	86					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		GTAATAACCTGCATCAGGCTG	0.303													17	46	---	---	---	---	PASS	A	128526523	A	A	128526523	3	1	4	1	0	0	0	0	1	0	0	0	17284	1319	46	3	4242	3	WDR33	2	128526523	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	117845	128526523	114672850	532	1123										
HS6ST1	9394	broad.mit.edu	37	chr2	129026283	129026283	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgtagcgtgcagcccgacCagtccgtgccctcgtagcag	12	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:129026283C>T	uc002tpt.3	-	2	723	c.689G>A	c.(688-690)TGG>TAG	p.W230*		NM_004807	NP_004798	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	230	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	integral to plasma membrane	sulfotransferase activity			pancreas(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		GCAGCCCGACCAGTCCGTGCC	0.652													14	19	---	---	---	---	PASS	T	129026283	T	T	129026283	4	4	4	1	0	0	0	0	0	1	0	0	7370	595	21	3	550	3	HS6ST1	2	129026283	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	499760	129026283	114173090	533	1124										
TUBA3E	112714	broad.mit.edu	37	chr2	130949436	130949436	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccttcttcagcctcagcttCcacggaatccacgcccacct	6	19	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:130949436C>T	uc002tqv.2	-	5	1422	c.1321G>A	c.(1321-1323)GAA>AAA	p.E441K		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	441					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					GCCTCAGCTTCCACGGAATCC	0.567													27	45	---	---	---	---	PASS	T	130949436	T	T	130949436	3	4	4	1	0	0	0	0	1	0	0	0	16745	864	30	2	35	2	TUBA3E	2	130949436	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1923153	130949436	112249937	534	1125										
TUBA3E	112714	broad.mit.edu	37	chr2	130949526	130949526	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctccctcttccatgccttCgcccacgtaccagtgcacaa	5	19	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:130949526C>T	uc002tqv.2	-	5	1332	c.1231G>A	c.(1231-1233)GAA>AAA	p.E411K		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	411					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					TCCATGCCTTCGCCCACGTAC	0.602													41	65	---	---	---	---	PASS	T	130949526	T	T	130949526	3	4	4	1	0	0	0	0	1	0	0	0	16745	893	31	2	125	2	TUBA3E	2	130949526	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	90	130949526	112249847	535	1126										
FAM123C	205147	broad.mit.edu	37	chr2	131520089	131520089	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggccaagagcatcccgagGaagaggatttccctgaagag	14	9	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:131520089G>A	uc002trw.2	+	2	634	c.444G>A	c.(442-444)AGG>AGA	p.R148R	FAM123C_uc010fmv.2_Silent_p.R148R|FAM123C_uc010fms.1_Silent_p.R148R|FAM123C_uc010fmt.1_Silent_p.R148R|FAM123C_uc010fmu.1_Silent_p.R148R	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	148										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GCATCCCGAGGAAGAGGATTT	0.607													21	39	---	---	---	---	PASS	A	131520089	A	A	131520089	2	1	4	1	0	0	0	0	0	0	0	1	5424	1165	41	2		2	FAM123C	2	131520089	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	570563	131520089	111679284	536	1127										
FAM123C	205147	broad.mit.edu	37	chr2	131521887	131521887	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaccagaggtgtcgagatCgtgtccaggacctgagctgg	16	9	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:131521887C>T	uc002trw.2	+	2	2432	c.2242C>T	c.(2242-2244)CGT>TGT	p.R748C	FAM123C_uc010fmv.2_Missense_Mutation_p.R748C|FAM123C_uc010fms.1_Missense_Mutation_p.R748C|FAM123C_uc010fmt.1_Missense_Mutation_p.R748C|FAM123C_uc010fmu.1_Missense_Mutation_p.R748C	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	748										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GTGTCGAGATCGTGTCCAGGA	0.632													11	21	---	---	---	---	PASS	T	131521887	T	T	131521887	3	4	4	1	0	0	0	0	1	0	0	0	5424	884	31	2	2244	2	FAM123C	2	131521887	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1798	131521887	111677486	537	1128										
POTEE	445582	broad.mit.edu	37	chr2	132021837	132021837	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggcctccagctcctccctaGagaagagctacgagctgccc	10	17	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:132021837G>A	uc002tsn.2	+	15	2861	c.2809G>A	c.(2809-2811)GAG>AAG	p.E937K	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.E537K|POTEE_uc002tsl.2_Missense_Mutation_p.E519K|POTEE_uc010fmy.1_Missense_Mutation_p.E401K	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	937	Actin-like.						ATP binding				0						CTCCTCCCTAGAGAAGAGCTA	0.627													7	157	---	---	---	---	PASS	A	132021837	A	A	132021837	3	1	4	1	0	0	0	0	1	0	0	0	12264	943	33	2	2867	2	POTEE	2	132021837	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	499950	132021837	111177536	538	1129										
NCKAP5	344148	broad.mit.edu	37	chr2	133541729	133541729	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctgactcttggggcactgGacccagtccctcctgctggg	13	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:133541729G>A	uc002ttp.2	-	14	3029	c.2655C>T	c.(2653-2655)GTC>GTT	p.V885V	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	885							protein binding				0						TGGGGCACTGGACCCAGTCCC	0.582													24	38	---	---	---	---	PASS	A	133541729	A	A	133541729	2	1	4	1	0	0	0	0	0	0	0	1	10223	1161	41	2		2	NCKAP5	2	133541729	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1519892	133541729	109657644	539	1130										
MGAT5	4249	broad.mit.edu	37	chr2	135012198	135012198	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtggatgggccatacgctgGagtcatgacagcttatggta	15	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:135012198G>T	uc002ttv.1	+	1	369	c.224G>T	c.(223-225)GGA>GTA	p.G75V		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	75	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		CCATACGCTGGAGTCATGACA	0.517													15	47	---	---	---	---	PASS	T	135012198	T	T	135012198	3	4	4	1	0	0	0	0	1	0	0	0	9548	1174	41	2	226	2	MGAT5	2	135012198	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1470469	135012198	108187175	540	1131										
MGAT5	4249	broad.mit.edu	37	chr2	135075138	135075138	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagaaaaatgtgtattgcctCctatggacggctaccctcac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:135075138C>T	uc002ttv.1	+	3	590	c.445C>T	c.(445-447)CCT>TCT	p.P149S		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	149	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		TGTATTGCCTCCTATGGACGG	0.418													13	15	---	---	---	---	PASS	T	135075138	T	T	135075138	3	4	4	1	0	0	0	0	1	0	0	0	9548	855	30	2	455	2	MGAT5	2	135075138	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	62940	135075138	108124235	541	1132	29	2								
MGAT5	4249	broad.mit.edu	37	chr2	135075139	135075139	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaaaatgtgtattgcctcCtatggacggctaccctcact							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:135075139C>T	uc002ttv.1	+	3	591	c.446C>T	c.(445-447)CCT>CTT	p.P149L		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	149	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		GTATTGCCTCCTATGGACGGC	0.418													13	15	---	---	---	---	PASS	T	135075139	T	T	135075139	3	4	4	1	0	0	0	0	1	0	0	0	9548	681	24	3	456	3	MGAT5	2	135075139	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	135075139	108124234	542	1133	29	2								
YSK4	80122	broad.mit.edu	37	chr2	135745407	135745407	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggcagtcaatatcctcttcCctaactgcaggaatattgcc	7	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:135745407C>T	uc002tue.1	-	7	1066	c.1035G>A	c.(1033-1035)AGG>AGA	p.R345R	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Silent_p.R232R|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Silent_p.R73R|YSK4_uc002tui.3_Silent_p.R362R	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	345							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TATCCTCTTCCCTAACTGCAG	0.363													9	19	---	---	---	---	PASS	T	135745407	T	T	135745407	2	4	4	1	0	0	0	0	0	0	0	1	17492	622	22	3		3	YSK4	2	135745407	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	670268	135745407	107453966	543	1134										
ZRANB3	84083	broad.mit.edu	37	chr2	135966512	135966512	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaacattcttcactttgtcCattgaggctacggcaacatc	6	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:135966512C>T	uc002tum.2	-	18	2649	c.2532G>A	c.(2530-2532)ATG>ATA	p.M844I	ZRANB3_uc002tuk.2_Missense_Mutation_p.M387I|ZRANB3_uc002tul.2_Missense_Mutation_p.M842I	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	844						intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		TCACTTTGTCCATTGAGGCTA	0.383													20	38	---	---	---	---	PASS	T	135966512	T	T	135966512	3	4	4	1	0	0	0	0	1	0	0	0	18221	594	21	3	723	3	ZRANB3	2	135966512	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	221105	135966512	107232861	544	1135										
DARS	1615	broad.mit.edu	37	chr2	136701011	136701011	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attttctgattcacttttctCacaacaccttctacatccac	1	14	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:136701011C>A	uc002tux.1	-	5	544	c.360G>T	c.(358-360)GTG>GTT	p.V120V	DARS_uc010fnj.1_Silent_p.V20V	NM_001349	NP_001340	P14868	SYDC_HUMAN	aspartyl-tRNA synthetase	120					aspartyl-tRNA aminoacylation|protein complex assembly	cytosol|nuclear membrane|plasma membrane|soluble fraction	aminoacylase activity|aspartate-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.168)	L-Aspartic Acid(DB00128)	TCACTTTTCTCACAACACCTT	0.368													29	70	---	---	---	---	PASS	A	136701011	A	A	136701011	2	1	4	1	0	0	0	0	0	0	0	1	4241	813	29	2		2	DARS	2	136701011	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	734499	136701011	106498362	545	1136										
THSD7B	80731	broad.mit.edu	37	chr2	138330102	138330102	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtgtgtcatgtctgagtgGggactttggagcaaatgccc	15	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:138330102G>A	uc002tva.1	+	16	3312	c.3312G>A	c.(3310-3312)TGG>TGA	p.W1104*	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TGTCTGAGTGGGGACTTTGGA	0.463													15	38	---	---	---	---	PASS	A	138330102	A	A	138330102	4	1	4	1	0	0	0	0	0	1	0	0	15877	1241	43	3	3373	3	THSD7B	2	138330102	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1629091	138330102	104869271	546	1137										
LRP1B	53353	broad.mit.edu	37	chr2	141607685	141607685	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttacctcttgaaataacaGtttctaacccagttccgtta	4	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:141607685G>A	uc002tvj.1	-	29	5897	c.4925C>T	c.(4924-4926)ACT>ATT	p.T1642I	LRP1B_uc010fnl.1_Missense_Mutation_p.T824I	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1642	Extracellular (Potential).|LDL-receptor class B 14.				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)		TGAAATAACAGTTTCTAACCC	0.303										TSP Lung(27;0.18)			20	40	---	---	---	---	PASS	A	141607685	A	A	141607685	3	1	4	1	0	0	0	0	1	0	0	0	8955	1029	36	3	9126	3	LRP1B	2	141607685	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3277583	141607685	101591688	547	1138										
LRP1B	53353	broad.mit.edu	37	chr2	141665470	141665470	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagatagccttcatcagagcCatcaggacaatcctttttcc	7	12	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:141665470C>T	uc002tvj.1	-	22	4468	c.3496G>A	c.(3496-3498)GGC>AGC	p.G1166S	LRP1B_uc010fnl.1_Missense_Mutation_p.G348S	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1166	Extracellular (Potential).|LDL-receptor class A 10.				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)		TCATCAGAGCCATCAGGACAA	0.428										TSP Lung(27;0.18)			36	111	---	---	---	---	PASS	T	141665470	T	T	141665470	3	4	4	1	0	0	0	0	1	0	0	0	8955	594	21	3	10583	3	LRP1B	2	141665470	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	57785	141665470	101533903	548	1139										
GTDC1	79712	broad.mit.edu	37	chr2	144903180	144903180	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatattggaaatccctctcCtgacatttcttgacaggata	6	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:144903180C>T	uc002tvp.2	-	5	585	c.306G>A	c.(304-306)CAG>CAA	p.Q102Q	GTDC1_uc002tvo.2_Silent_p.Q102Q|GTDC1_uc002tvq.2_Silent_p.Q102Q|GTDC1_uc002tvr.2_Silent_p.Q102Q|GTDC1_uc010fnn.2_Silent_p.Q102Q|GTDC1_uc002tvs.2_Silent_p.Q70Q|GTDC1_uc010fno.2_5'UTR|GTDC1_uc002tvt.1_Silent_p.Q102Q	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	102					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		AATCCCTCTCCTGACATTTCT	0.413													21	31	---	---	---	---	PASS	T	144903180	T	T	144903180	2	4	4	1	0	0	0	0	0	0	0	1	6851	680	24	3		3	GTDC1	2	144903180	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3237710	144903180	98296193	549	1140										
ACVR2A	92	broad.mit.edu	37	chr2	148672787	148672787	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaccacccccaccttctccaTtactaggtttgaaaccactg	5	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:148672787T>A	uc002twg.2	+	6	825	c.556T>A	c.(556-558)TTA>ATA	p.L186I	ACVR2A_uc010zbn.1_Missense_Mutation_p.L78I|ACVR2A_uc002twh.2_Missense_Mutation_p.L186I	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	186	Cytoplasmic (Potential).				activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		ACCTTCTCCATTACTAGGTTT	0.393													19	42	---	---	---	---	PASS	A	148672787	A	A	148672787	3	1	4	1	0	0	0	0	1	0	0	0	223	1490	52	5	574	5	ACVR2A	2	148672787	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	3769607	148672787	94526586	550	1141										
NEB	4703	broad.mit.edu	37	chr2	152348670	152348670	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccatttctaccactttcctCtgaatacctcggtagttaat	4	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:152348670C>T	uc010fnx.2	-	145	19622	c.19431G>A	c.(19429-19431)CAG>CAA	p.Q6477Q	NEB_uc002txr.2_Silent_p.Q2807Q|RIF1_uc002txp.2_Intron|NEB_uc010zbz.1_Silent_p.Q246Q|NEB_uc002txq.2_Silent_p.Q356Q|NEB_uc010zca.1_Silent_p.Q308Q|NEB_uc010zcb.1_Silent_p.Q246Q	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	6477	Nebulin 178.|Interaction with SVIL.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CCACTTTCCTCTGAATACCTC	0.443													36	106	---	---	---	---	PASS	T	152348670	T	T	152348670	2	4	4	1	0	0	0	0	0	0	0	1	10302	912	32	2		2	NEB	2	152348670	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3675883	152348670	90850703	551	1142										
NEB	4703	broad.mit.edu	37	chr2	152582017	152582017	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgcgaagttctggagtatCtgttgtgctggcgtatggct	14	7	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:152582017C>T	uc010fnx.2	-	6	543	c.352G>A	c.(352-354)GAT>AAT	p.D118N		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	118	Nebulin 2.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCTGGAGTATCTGTTGTGCTG	0.388													30	79	---	---	---	---	PASS	T	152582017	T	T	152582017	3	4	4	1	0	0	0	0	1	0	0	0	10302	913	32	2	26042	2	NEB	2	152582017	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	233347	152582017	90617356	552	1143										
PRPF40A	55660	broad.mit.edu	37	chr2	153515797	153515797	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccttaccgatcgagagcggGaacgtttcctatgatgtttt	10	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:153515797G>A	uc002tyh.3	-	22	2418	c.2396C>T	c.(2395-2397)TCC>TTC	p.S799F	PRPF40A_uc002tyg.3_Missense_Mutation_p.S255F|PRPF40A_uc010zcd.1_Missense_Mutation_p.S750F	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	826					mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						TCGAGAGCGGGAACGTTTCCT	0.328													9	19	---	---	---	---	PASS	A	153515797	A	A	153515797	3	1	4	1	0	0	0	0	1	0	0	0	12571	1174	41	2	416	2	PRPF40A	2	153515797	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	933780	153515797	89683576	553	1144										
GALNT13	114805	broad.mit.edu	37	chr2	155102469	155102469	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaagagaaatggacaggagGaaaggagacagaacattacc	12	6	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:155102469G>A	uc002tyr.3	+	7	1398	c.831G>A	c.(829-831)AGG>AGA	p.R277R	GALNT13_uc002tyt.3_Silent_p.R277R|GALNT13_uc010foc.1_Silent_p.R96R|GALNT13_uc010fod.2_Silent_p.R30R	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	277	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						TGGACAGGAGGAAAGGAGACA	0.378													11	34	---	---	---	---	PASS	A	155102469	A	A	155102469	2	1	4	1	0	0	0	0	0	0	0	1	6211	1165	41	2		2	GALNT13	2	155102469	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1586672	155102469	88096904	554	1145										
PKP4	8502	broad.mit.edu	37	chr2	159519805	159519805	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggatggagttggtcctatcCcaggactgtcgaagtccccc	13	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:159519805C>T	uc002tzv.2	+	15	2685	c.2425C>T	c.(2425-2427)CCA>TCA	p.P809S	PKP4_uc002tzu.2_Missense_Mutation_p.P809S|PKP4_uc002tzw.2_Missense_Mutation_p.P809S|PKP4_uc002tzx.2_Missense_Mutation_p.P466S|PKP4_uc002uaa.2_Missense_Mutation_p.P661S|uc002uab.1_Intron|PKP4_uc002uac.2_5'UTR	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	809					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						TGGTCCTATCCCAGGACTGTC	0.488										HNSCC(62;0.18)			14	28	---	---	---	---	PASS	T	159519805	T	T	159519805	3	4	4	1	0	0	0	0	1	0	0	0	11987	623	22	3	2479	3	PKP4	2	159519805	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4417336	159519805	83679568	555	1146										
TANC1	85461	broad.mit.edu	37	chr2	160035121	160035121	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttagatgacttcccagacAacaaagacatccacagtgac	6	13	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:160035121A>T	uc002uag.2	+	14	2231	c.1957A>T	c.(1957-1959)AAC>TAC	p.N653Y	TANC1_uc010fol.1_Missense_Mutation_p.N547Y|TANC1_uc010zcm.1_Missense_Mutation_p.N645Y|TANC1_uc010fom.1_Missense_Mutation_p.N459Y|TANC1_uc002uai.1_RNA	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	653						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CTTCCCAGACAACAAAGACAT	0.512													17	42	---	---	---	---	PASS	T	160035121	T	T	160035121	3	4	4	1	0	0	0	0	1	0	0	0	15541	130	5	5	2003	5	TANC1	2	160035121	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	515316	160035121	83164252	556	1147										
TANC1	85461	broad.mit.edu	37	chr2	160035487	160035487	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgacagacgagcagatctttCaggctattaatgctggccac	10	10	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:160035487C>T	uc002uag.2	+	14	2597	c.2323C>T	c.(2323-2325)CAG>TAG	p.Q775*	TANC1_uc010fol.1_Nonsense_Mutation_p.Q669*|TANC1_uc010zcm.1_Nonsense_Mutation_p.Q767*|TANC1_uc010fom.1_Nonsense_Mutation_p.Q581*|TANC1_uc002uai.1_RNA	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	775						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						GCAGATCTTTCAGGCTATTAA	0.552													49	103	---	---	---	---	PASS	T	160035487	T	T	160035487	4	4	4	1	0	0	0	0	0	1	0	0	15541	827	29	2	2369	2	TANC1	2	160035487	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	366	160035487	83163886	557	1148										
BAZ2B	29994	broad.mit.edu	37	chr2	160287383	160287383	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgtaggtaccagagtgtgGgcttgaagtaagtgtggaag	17	3	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:160287383G>A	uc002uao.2	-	10	2537	c.2185C>T	c.(2185-2187)CCA>TCA	p.P729S	BAZ2B_uc002uap.2_Missense_Mutation_p.P727S|BAZ2B_uc002uaq.1_Intron|BAZ2B_uc002uar.1_Missense_Mutation_p.P302S	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	729					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CCAGAGTGTGGGCTTGAAGTA	0.408													19	52	---	---	---	---	PASS	A	160287383	A	A	160287383	3	1	4	1	0	0	0	0	1	0	0	0	1332	1232	43	3	4433	3	BAZ2B	2	160287383	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	251896	160287383	82911990	558	1149										
TBR1	10716	broad.mit.edu	37	chr2	162274740	162274740	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctatatgcatccggattcCcccaacactggggctcactg	9	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:162274740C>T	uc002ubw.1	+	3	1178	c.876C>T	c.(874-876)TCC>TCT	p.S292S	TBR1_uc010foy.2_Silent_p.S5S	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	292	T-box.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						ATCCGGATTCCCCCAACACTG	0.463													14	38	---	---	---	---	PASS	T	162274740	T	T	162274740	2	4	4	1	0	0	0	0	0	0	0	1	15644	610	22	3		3	TBR1	2	162274740	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1987357	162274740	80924633	559	1150										
KCNH7	90134	broad.mit.edu	37	chr2	163291736	163291736	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacatgacacaaattgaaaaGattttctccgaattcgtgtt	6	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:163291736G>A	uc002uch.1	-	8	2138	c.1926C>T	c.(1924-1926)ATC>ATT	p.I642I	KCNH7_uc002uci.2_Silent_p.I635I	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	642	Helical; Name=Segment S6; (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	AAATTGAAAAGATTTTCTCCG	0.333													12	31	---	---	---	---	PASS	A	163291736	A	A	163291736	2	1	4	1	0	0	0	0	0	0	0	1	8037	932	33	2		2	KCNH7	2	163291736	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1016996	163291736	79907637	560	1151										
FIGN	55137	broad.mit.edu	37	chr2	164466956	164466956	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaggtgcgtgtcagtattCttcagttgctcgtccacaga	11	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:164466956C>T	uc002uck.1	-	3	1697	c.1386G>A	c.(1384-1386)AAG>AAA	p.K462K		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	462						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						TGTCAGTATTCTTCAGTTGCT	0.552													11	30	---	---	---	---	PASS	T	164466956	T	T	164466956	2	4	4	1	0	0	0	0	0	0	0	1	5891	912	32	2		2	FIGN	2	164466956	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1175220	164466956	78732417	561	1152										
FIGN	55137	broad.mit.edu	37	chr2	164468023	164468023	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaggaaggctgccagggttCactttcatttttccgaccgt	10	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:164468023C>T	uc002uck.1	-	3	630	c.319G>A	c.(319-321)GAA>AAA	p.E107K		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	107						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						TGCCAGGGTTCACTTTCATTT	0.502													37	72	---	---	---	---	PASS	T	164468023	T	T	164468023	3	4	4	1	0	0	0	0	1	0	0	0	5891	835	29	2	1964	2	FIGN	2	164468023	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1067	164468023	78731350	562	1153										
COBLL1	22837	broad.mit.edu	37	chr2	165557159	165557159	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatatcagtagatacaaaagGaatatcttgtgacttcggag	9	5	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:165557159G>A	uc010zcw.1	-	13	1772	c.1648C>T	c.(1648-1650)CCT>TCT	p.P550S	COBLL1_uc002ucp.2_Missense_Mutation_p.P484S|COBLL1_uc002ucq.2_Missense_Mutation_p.P445S|COBLL1_uc010zcx.1_Missense_Mutation_p.P491S|COBLL1_uc002ucs.1_RNA|COBLL1_uc002ucn.2_5'Flank|COBLL1_uc002uco.2_Missense_Mutation_p.P214S	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	522										ovary(2)|pancreas(1)	3						GATACAAAAGGAATATCTTGT	0.368													33	69	---	---	---	---	PASS	A	165557159	A	A	165557159	3	1	4	1	0	0	0	0	1	0	0	0	3654	1174	41	2	2070	2	COBLL1	2	165557159	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1089136	165557159	77642214	563	1154										
SCN2A	6326	broad.mit.edu	37	chr2	166152501	166152501	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaaagccaaacagtgacttGgaagcaggaaaatctcttcc	8	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:166152501G>A	uc002udc.2	+	2	458	c.168G>A	c.(166-168)TTG>TTA	p.L56L	SCN2A_uc002udd.2_Silent_p.L56L|SCN2A_uc002ude.2_Silent_p.L56L	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	56					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ACAGTGACTTGGAAGCAGGAA	0.448													11	26	---	---	---	---	PASS	A	166152501	A	A	166152501	2	1	4	1	0	0	0	0	0	0	0	1	13916	1339	47	3		3	SCN2A	2	166152501	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	595342	166152501	77046872	564	1155										
CSRNP3	80034	broad.mit.edu	37	chr2	166514360	166514360	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actacttcaccaggaggcaaGgcttcacaagtgtgcccagt	10	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:166514360G>A	uc002udf.2	+	5	614	c.238G>A	c.(238-240)GGC>AGC	p.G80S	CSRNP3_uc002udg.2_Missense_Mutation_p.G80S	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	80					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						CAGGAGGCAAGGCTTCACAAG	0.517													21	27	---	---	---	---	PASS	A	166514360	A	A	166514360	3	1	4	1	0	0	0	0	1	0	0	0	3965	1000	35	3	244	3	CSRNP3	2	166514360	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	361859	166514360	76685013	565	1156										
CSRNP3	80034	broad.mit.edu	37	chr2	166535936	166535936	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accatgaccccggagcaattCgttgactatgcccgacaagc	9	14	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:166535936C>T	uc002udf.2	+	7	1807	c.1431C>T	c.(1429-1431)TTC>TTT	p.F477F	CSRNP3_uc002udg.2_Silent_p.F477F	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	477					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						CGGAGCAATTCGTTGACTATG	0.498													9	31	---	---	---	---	PASS	T	166535936	T	T	166535936	2	4	4	1	0	0	0	0	0	0	0	1	3965	883	31	2		2	CSRNP3	2	166535936	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	21576	166535936	76663437	566	1157										
TTC21B	79809	broad.mit.edu	37	chr2	166806105	166806105	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtttaatgattaacacgtacCttccattaatgtgccatagg	7	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:166806105C>T	uc002udk.2	-	2	284	c.151G>A	c.(151-153)GGT>AGT	p.G51S	TTC21B_uc002udl.2_Missense_Mutation_p.G51S|uc002udm.1_RNA	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	51						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TAACACGTACCTTCCATTAAT	0.338													28	57	---	---	---	---	PASS	T	166806105	T	T	166806105	3	4	4	1	0	0	0	0	1	0	0	0	16685	695	24	3	3911	3	TTC21B	2	166806105	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	270169	166806105	76393268	567	1158										
SCN1A	6323	broad.mit.edu	37	chr2	166848822	166848822	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagagcagcgtgcggatccCctttgctcctttgatcagac	10	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:166848822C>T	uc010zcz.1	-	26	4948	c.4930G>A	c.(4930-4932)GGG>AGG	p.G1644R		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1655	Helical; Voltage-sensor; Name=S4 of repeat IV; (By similarity).|IV.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GTGCGGATCCCCTTTGCTCCT	0.502													57	85	---	---	---	---	PASS	T	166848822	T	T	166848822	3	4	4	1	0	0	0	0	1	0	0	0	13914	623	22	3	1070	3	SCN1A	2	166848822	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	42717	166848822	76350551	568	1159										
SCN1A	6323	broad.mit.edu	37	chr2	166850913	166850913	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttacgaagtcaaagaccattCcttgaaatttgttctgtaga	7	7	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:166850913C>T	uc010zcz.1	-	25	4580	c.4562G>A	c.(4561-4563)GGA>GAA	p.G1521E		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1532	IV.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AAAGACCATTCCTTGAAATTT	0.348													24	41	---	---	---	---	PASS	T	166850913	T	T	166850913	3	4	4	1	0	0	0	0	1	0	0	0	13914	855	30	2	1442	2	SCN1A	2	166850913	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2091	166850913	76348460	569	1160										
SCN1A	6323	broad.mit.edu	37	chr2	166897752	166897752	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatgcttaccaagtttcctaCtgtaagcacattattgaaat	5	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:166897752C>T	uc010zcz.1	-	13	2389	c.2371G>A	c.(2371-2373)GTA>ATA	p.V791I	SCN1A_uc002udo.3_Missense_Mutation_p.V671I|SCN1A_uc010fpk.2_Missense_Mutation_p.V643I	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	802	Helical; Name=S2 of repeat II; (By similarity).|II.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AAGTTTCCTACTGTAAGCACA	0.353													18	43	---	---	---	---	PASS	T	166897752	T	T	166897752	3	4	4	1	0	0	0	0	1	0	0	0	13914	565	20	3	3681	3	SCN1A	2	166897752	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	46839	166897752	76301621	570	1161										
SCN1A	6323	broad.mit.edu	37	chr2	166905459	166905459	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctccaggaaataatgatatCctgtttgaaaaaagaaagtc	7	7	0	3	rs121917928		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:166905459C>T	uc010zcz.1	-	7	983	c.965G>A	c.(964-966)AGA>AAA	p.R322K	SCN1A_uc002udo.3_Missense_Mutation_p.R191K|SCN1A_uc010fpk.2_Missense_Mutation_p.R191K	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	322	I.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	ATAATGATATCCTGTTTGAAA	0.294													6	24	---	---	---	---	PASS	T	166905459	T	T	166905459	3	4	4	1	0	0	0	0	1	0	0	0	13914	869	30	2	5144	2	SCN1A	2	166905459	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	7707	166905459	76293914	571	1162										
SCN9A	6335	broad.mit.edu	37	chr2	167055474	167055474	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacgctgaatgacagtagcaGacacatcctcttgtttccgt	8	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:167055474G>A	uc010fpl.2	-	27	5983	c.5642C>T	c.(5641-5643)TCT>TTT	p.S1881F	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1892	IQ.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GACAGTAGCAGACACATCCTC	0.393													57	72	---	---	---	---	PASS	A	167055474	A	A	167055474	3	1	4	1	0	0	0	0	1	0	0	0	13925	942	33	2	295	2	SCN9A	2	167055474	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	150015	167055474	76143899	572	1163										
SCN9A	6335	broad.mit.edu	37	chr2	167060473	167060473	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatattcttacctacaatgGagataatcacaaccacaaaa	3	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:167060473G>A	uc010fpl.2	-	26	5074	c.4733C>T	c.(4732-4734)TCC>TTC	p.S1578F	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1589	Helical; Name=S3 of repeat IV; (Potential).|IV.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	ACCTACAATGGAGATAATCAC	0.323													7	9	---	---	---	---	PASS	A	167060473	A	A	167060473	3	1	4	1	0	0	0	0	1	0	0	0	13925	1174	41	2	1208	2	SCN9A	2	167060473	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4999	167060473	76138900	573	1164										
SCN9A	6335	broad.mit.edu	37	chr2	167141026	167141026	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctgtccattggggagcatGagggctgagcgtccatcaac	14	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:167141026G>A	uc010fpl.2	-	12	2252	c.1911C>T	c.(1909-1911)CTC>CTT	p.L637L	uc002udp.2_Intron|SCN9A_uc002udr.1_Silent_p.L508L|SCN9A_uc002uds.1_Silent_p.L508L|SCN9A_uc002udt.1_Silent_p.L508L	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	637						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	TGGGGAGCATGAGGGCTGAGC	0.547													20	35	---	---	---	---	PASS	A	167141026	A	A	167141026	2	1	4	1	0	0	0	0	0	0	0	1	13925	1277	45	2		2	SCN9A	2	167141026	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	80553	167141026	76058347	574	1165										
SCN7A	6332	broad.mit.edu	37	chr2	167300037	167300037	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaataatcgaagaagagcCattcctgcaacatttgctag	8	9	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:167300037C>T	uc002udu.1	-	13	1903	c.1776G>A	c.(1774-1776)ATG>ATA	p.M592I	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	592					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						GAAGAAGAGCCATTCCTGCAA	0.289													4	11	---	---	---	---	PASS	T	167300037	T	T	167300037	3	4	4	1	0	0	0	0	1	0	0	0	13923	594	21	3	3324	3	SCN7A	2	167300037	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	159011	167300037	75899336	575	1166										
SCN7A	6332	broad.mit.edu	37	chr2	167300157	167300157	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attgcaattattttaaaaatCatttctgctgtgaaaattcc	4	6	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:167300157C>T	uc002udu.1	-	13	1783	c.1656G>A	c.(1654-1656)ATG>ATA	p.M552I	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	552	Helical; Name=S2 of repeat II; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TTTTAAAAATCATTTCTGCTG	0.313													3	5	---	---	---	---	PASS	T	167300157	T	T	167300157	3	4	4	1	0	0	0	0	1	0	0	0	13923	826	29	2	3444	2	SCN7A	2	167300157	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	120	167300157	75899216	576	1167										
SCN7A	6332	broad.mit.edu	37	chr2	167301432	167301432	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttcaattttaaccaacagGgagaacaattccagatcaag	6	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:167301432G>A	uc002udu.1	-	12	1593	c.1466C>T	c.(1465-1467)CCC>CTC	p.P489L	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	489					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TAACCAACAGGGAGAACAATT	0.308													10	28	---	---	---	---	PASS	A	167301432	A	A	167301432	3	1	4	1	0	0	0	0	1	0	0	0	13923	1232	43	3	3638	3	SCN7A	2	167301432	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1275	167301432	75897941	577	1168										
XIRP2	129446	broad.mit.edu	37	chr2	168098389	168098389	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagatcctttattctgacaAagagatgacaaccccagcca	6	11	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:168098389A>G	uc002udx.2	+	7	1163	c.1145A>G	c.(1144-1146)AAA>AGA	p.K382R	XIRP2_uc010fpn.2_Missense_Mutation_p.K415R|XIRP2_uc010fpo.2_Missense_Mutation_p.K382R|XIRP2_uc010fpp.2_Missense_Mutation_p.K382R|XIRP2_uc002udy.2_Missense_Mutation_p.K207R|XIRP2_uc010fpq.2_Missense_Mutation_p.K160R|XIRP2_uc010fpr.2_Missense_Mutation_p.K160R	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	207					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TATTCTGACAAAGAGATGACA	0.363													30	70	---	---	---	---	PASS	G	168098389	G	G	168098389	3	3	4	1	0	0	0	0	1	0	0	0	17427	14	1	5	1171	5	XIRP2	2	168098389	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	796957	168098389	75100984	578	1169										
XIRP2	129446	broad.mit.edu	37	chr2	168103270	168103270	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgatgttgaaggtacaaaaCtgttactgaagaaaaggcag	12	4	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:168103270C>T	uc002udx.2	+	8	5386	c.5368C>T	c.(5368-5370)CTG>TTG	p.L1790L	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.L1615L|XIRP2_uc010fpq.2_Silent_p.L1568L|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1615					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGGTACAAAACTGTTACTGAA	0.393													35	87	---	---	---	---	PASS	T	168103270	T	T	168103270	2	4	4	1	0	0	0	0	0	0	0	1	17427	564	20	3		3	XIRP2	2	168103270	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4881	168103270	75096103	579	1170										
XIRP2	129446	broad.mit.edu	37	chr2	168103905	168103905	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatactctcagtcaaactatGgggaaatcttgccatggcaa	9	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:168103905G>A	uc002udx.2	+	8	6021	c.6003G>A	c.(6001-6003)ATG>ATA	p.M2001I	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.M1826I|XIRP2_uc010fpq.2_Missense_Mutation_p.M1779I|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1826					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GTCAAACTATGGGGAAATCTT	0.453													10	24	---	---	---	---	PASS	A	168103905	A	A	168103905	3	1	4	1	0	0	0	0	1	0	0	0	17427	1348	47	3	6033	3	XIRP2	2	168103905	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	635	168103905	75095468	580	1171										
XIRP2	129446	broad.mit.edu	37	chr2	168105874	168105874	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaaagataagatgaaaaagGaagttttacaaagctcaagg	9	4	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:168105874G>A	uc002udx.2	+	8	7990	c.7972G>A	c.(7972-7974)GAA>AAA	p.E2658K	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E2483K|XIRP2_uc010fpq.2_Missense_Mutation_p.E2436K|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.E4K	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2483					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GATGAAAAAGGAAGTTTTACA	0.403													43	47	---	---	---	---	PASS	A	168105874	A	A	168105874	3	1	4	1	0	0	0	0	1	0	0	0	17427	1175	41	2	8002	2	XIRP2	2	168105874	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1969	168105874	75093499	581	1172										
XIRP2	129446	broad.mit.edu	37	chr2	168107429	168107429	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacttccccttctccacccaGgagtcgctctgaacaacttg	6	17	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:168107429G>A	uc002udx.2	+	8	9545	c.9527G>A	c.(9526-9528)AGG>AAG	p.R3176K	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.R3001K|XIRP2_uc010fpq.2_Missense_Mutation_p.R2954K|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3001					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TCTCCACCCAGGAGTCGCTCT	0.498													29	68	---	---	---	---	PASS	A	168107429	A	A	168107429	3	1	4	1	0	0	0	0	1	0	0	0	17427	1000	35	3	9557	3	XIRP2	2	168107429	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1555	168107429	75091944	582	1173										
XIRP2	129446	broad.mit.edu	37	chr2	168108255	168108255	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcaaatctggctgtgacttCaagcatgccccaccaaccta	8	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:168108255C>T	uc002udx.2	+	8	10371	c.10353C>T	c.(10351-10353)TTC>TTT	p.F3451F	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.F3276F|XIRP2_uc010fpq.2_Silent_p.F3229F|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3276					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GCTGTGACTTCAAGCATGCCC	0.403													14	21	---	---	---	---	PASS	T	168108255	T	T	168108255	2	4	4	1	0	0	0	0	0	0	0	1	17427	825	29	2		2	XIRP2	2	168108255	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	826	168108255	75091118	583	1174										
ABCB11	8647	broad.mit.edu	37	chr2	169830316	169830316	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctaccagagctgtcatttccCctggtttaatgaccatgttg	8	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:169830316C>T	uc002ueo.1	-	13	1469	c.1343G>A	c.(1342-1344)GGG>GAG	p.G448E	ABCB11_uc010zda.1_5'Flank|ABCB11_uc010zdb.1_5'Flank	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	448	Cytoplasmic (Potential).|ABC transporter 1.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	TGTCATTTCCCCTGGTTTAAT	0.438													29	77	---	---	---	---	PASS	T	169830316	T	T	169830316	3	4	4	1	0	0	0	0	1	0	0	0	42	623	22	3	2686	3	ABCB11	2	169830316	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1722061	169830316	73369057	584	1175										
LRP2	4036	broad.mit.edu	37	chr2	170003310	170003310	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggtttcaataacgtcctcCttgaagtcactccagtagat	7	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:170003310C>T	uc002ues.2	-	69	12963	c.12750G>A	c.(12748-12750)AAG>AAA	p.K4250K		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4250	LDL-receptor class B 37.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TAACGTCCTCCTTGAAGTCAC	0.383													13	31	---	---	---	---	PASS	T	170003310	T	T	170003310	2	4	4	1	0	0	0	0	0	0	0	1	8956	680	24	3		3	LRP2	2	170003310	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	172994	170003310	73196063	585	1176										
LRP2	4036	broad.mit.edu	37	chr2	170063416	170063416	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggtaacgactgccataacGaatcacttcagagttctctc	8	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:170063416G>A	uc002ues.2	-	39	7027	c.6814C>T	c.(6814-6816)CGT>TGT	p.R2272C		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2272	LDL-receptor class B 23.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CTGCCATAACGAATCACTTCA	0.393													41	66	---	---	---	---	PASS	A	170063416	A	A	170063416	3	1	4	1	0	0	0	0	1	0	0	0	8956	1058	37	2	7317	2	LRP2	2	170063416	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	60106	170063416	73135957	586	1177										
LRP2	4036	broad.mit.edu	37	chr2	170136994	170136994	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatatcaccaattaacaaatCccgaccattggagaagataa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:170136994C>T	uc002ues.2	-	11	1420	c.1207G>A	c.(1207-1209)GAT>AAT	p.D403N	LRP2_uc010zdf.1_Missense_Mutation_p.D403N	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	403	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ATTAACAAATCCCGACCATTG	0.493													8	28	---	---	---	---	PASS	T	170136994	T	T	170136994	3	4	4	1	0	0	0	0	1	0	0	0	8956	855	30	2	13036	2	LRP2	2	170136994	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	73578	170136994	73062379	587	1178	30	2								
LRP2	4036	broad.mit.edu	37	chr2	170136995	170136995	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atatcaccaattaacaaatcCcgaccattggagaagataat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:170136995C>T	uc002ues.2	-	11	1419	c.1206G>A	c.(1204-1206)CGG>CGA	p.R402R	LRP2_uc010zdf.1_Silent_p.R402R	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	402	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TTAACAAATCCCGACCATTGG	0.493													8	28	---	---	---	---	PASS	T	170136995	T	T	170136995	2	4	4	1	0	0	0	0	0	0	0	1	8956	610	22	3		3	LRP2	2	170136995	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	170136995	73062378	588	1179	30	2								
GAD1	2571	broad.mit.edu	37	chr2	171687555	171687555	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtccgcaagacatttgatCgctccaccaaggtgctggac	10	12	0	2	rs150945113		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:171687555C>T	uc002ugi.2	+	5	822	c.400C>T	c.(400-402)CGC>TGC	p.R134C	GAD1_uc002ugh.2_Missense_Mutation_p.R134C	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	134					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GACATTTGATCGCTCCACCAA	0.542													15	30	---	---	---	---	PASS	T	171687555	T	T	171687555	3	4	4	1	0	0	0	0	1	0	0	0	6179	884	31	2	414	2	GAD1	2	171687555	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1550560	171687555	71511818	589	1180										
GAD1	2571	broad.mit.edu	37	chr2	171716237	171716237	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtggctccaaaaatcaaaGccctgatgatggagtcaggt	12	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:171716237G>A	uc002ugi.2	+	17	2052	c.1630G>A	c.(1630-1632)GCC>ACC	p.A544T	GAD1_uc010fqc.2_Missense_Mutation_p.A163T	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	544					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AAAAATCAAAGCCCTGATGAT	0.468													7	25	---	---	---	---	PASS	A	171716237	A	A	171716237	3	1	4	1	0	0	0	0	1	0	0	0	6179	971	34	3	1733	3	GAD1	2	171716237	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	28682	171716237	71483136	590	1181										
TLK1	9874	broad.mit.edu	37	chr2	171974367	171974367	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatgaagctcatccattgcaCctattaagaaaaaaaaatat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:171974367C>T	uc002ugn.2	-	2	612	c.140G>A	c.(139-141)GGT>GAT	p.G47D	TLK1_uc002ugo.2_Missense_Mutation_p.G47D|TLK1_uc002ugp.2_Translation_Start_Site|TLK1_uc002ugq.2_RNA	NM_012290	NP_036422	Q9UKI8	TLK1_HUMAN	tousled-like kinase 1 isoform 1	47					cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						ATCCATTGCACCTATTAAGAA	0.269													11	32	---	---	---	---	PASS	T	171974367	T	T	171974367	3	4	4	1	0	0	0	0	1	0	0	0	15940	521	18	3	2286	3	TLK1	2	171974367	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	258130	171974367	71225006	591	1182	31	2								
TLK1	9874	broad.mit.edu	37	chr2	171974368	171974368	+	Splice_Site	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaagctcatccattgcacCtattaagaaaaaaaaatata							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:171974368C>T	uc002ugn.2	-	2	612	c.140_splice	c.e2-1	p.G47_splice	TLK1_uc002ugo.2_Splice_Site_p.G47_splice|TLK1_uc002ugp.2_Splice_Site|TLK1_uc002ugq.2_Splice_Site	NM_012290	NP_036422	Q9UKI8	TLK1_HUMAN	tousled-like kinase 1 isoform 1						cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						TCCATTGCACCTATTAAGAAA	0.269													8	32	---	---	---	---	PASS	T	171974368	T	T	171974368	5	4	4	1	0	0	0	0	0	0	1	0	15940	695	24	3	2287	3	TLK1	2	171974368	Splice_Site	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	171974368	71225005	592	1183	31	2								
ITGA6	3655	broad.mit.edu	37	chr2	173352931	173352931	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaatctgaagatgaagtggGaagtttaatagagtatgaat	12	1	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:173352931G>A	uc002uhp.1	+	19	2683	c.2480G>A	c.(2479-2481)GGA>GAA	p.G827E	ITGA6_uc010zdy.1_Missense_Mutation_p.G708E|ITGA6_uc002uho.1_Missense_Mutation_p.G827E|ITGA6_uc010fqm.1_Missense_Mutation_p.G473E	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a	866	Extracellular (Potential).				blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			GATGAAGTGGGAAGTTTAATA	0.378													9	34	---	---	---	---	PASS	A	173352931	A	A	173352931	3	1	4	1	0	0	0	0	1	0	0	0	7880	1174	41	2	2554	2	ITGA6	2	173352931	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1378563	173352931	69846442	593	1184										
CHRNA1	1134	broad.mit.edu	37	chr2	175613498	175613498	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgcttttctctggatggtCttttcattgtggagaaaaac	9	7	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:175613498C>A	uc002ujd.2	-	9	1205	c.1127G>T	c.(1126-1128)AGA>ATA	p.R376I	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Missense_Mutation_p.R351I	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	376	Cytoplasmic.				muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						TCTGGATGGTCTTTTCATTGT	0.393											OREG0015079	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	21	---	---	---	---	PASS	A	175613498	A	A	175613498	3	1	4	1	0	0	0	0	1	0	0	0	3381	913	32	2	329	2	CHRNA1	2	175613498	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2260567	175613498	67585875	594	1185										
KIAA1715	80856	broad.mit.edu	37	chr2	176812320	176812320	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaggggcagaactgtccttTggtggtccaggagatactgg	15	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:176812320T>C	uc002ukc.1	-	9	787	c.594A>G	c.(592-594)CCA>CCG	p.P198P	KIAA1715_uc010zer.1_Silent_p.P198P|KIAA1715_uc010fqw.1_Silent_p.P264P|KIAA1715_uc010zes.1_Silent_p.P200P|KIAA1715_uc002ukd.1_Silent_p.P75P|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	198	Cytoplasmic (Potential).|Pro-rich.					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			AACTGTCCTTTGGTGGTCCAG	0.522													13	33	---	---	---	---	PASS	C	176812320	C	C	176812320	2	2	4	1	0	0	0	0	0	0	0	1	8254	1799	63	5		5	KIAA1715	2	176812320	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	1198822	176812320	66387053	595	1186										
EVX2	344191	broad.mit.edu	37	chr2	176946977	176946977	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggccgcgacacatagttctCccggtagaactccttctcca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:176946977C>T	uc010zeu.1	-	2	814	c.628G>A	c.(628-630)GAG>AAG	p.E210K		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	210	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		ACATAGTTCTCCCGGTAGAAC	0.662													3	5	---	---	---	---	PASS	T	176946977	T	T	176946977	3	4	4	1	0	0	0	0	1	0	0	0	5295	864	30	2	808	2	EVX2	2	176946977	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	134657	176946977	66252396	596	1187	32	2								
EVX2	344191	broad.mit.edu	37	chr2	176946978	176946978	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccgcgacacatagttctcCcggtagaactccttctccag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:176946978C>T	uc010zeu.1	-	2	813	c.627G>A	c.(625-627)CGG>CGA	p.R209R		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	209	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		CATAGTTCTCCCGGTAGAACT	0.662													3	6	---	---	---	---	PASS	T	176946978	T	T	176946978	2	4	4	1	0	0	0	0	0	0	0	1	5295	610	22	3		3	EVX2	2	176946978	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	176946978	66252395	597	1188	32	2								
TTN	7273	broad.mit.edu	37	chr2	179393301	179393301	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttcaggggatggctcgccaCtgatttcacaagtaaagaga	11	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179393301C>T	uc010zfg.1	-	309	99697	c.99473G>A	c.(99472-99474)AGT>AAT	p.S33158N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S26853N|TTN_uc010zfi.1_Missense_Mutation_p.S26786N|TTN_uc010zfj.1_Missense_Mutation_p.S26661N|TTN_uc002umq.2_Missense_Mutation_p.S175N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34085							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)			TGGCTCGCCACTGATTTCACA	0.363													9	16	---	---	---	---	PASS	T	179393301	T	T	179393301	3	4	4	1	0	0	0	0	1	0	0	0	16732	565	20	3	814	3	TTN	2	179393301	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2446323	179393301	63806072	598	1189										
TTN	7273	broad.mit.edu	37	chr2	179407953	179407953	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttaaggtgacaaccttcatCcatctctctgtgccagcttt	6	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179407953C>T	uc010zfg.1	-	296	89267	c.89043G>A	c.(89041-89043)TGG>TGA	p.W29681*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.W23376*|TTN_uc010zfi.1_Nonsense_Mutation_p.W23309*|TTN_uc010zfj.1_Nonsense_Mutation_p.W23184*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30608							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)			CAACCTTCATCCATCTCTCTG	0.448													64	133	---	---	---	---	PASS	T	179407953	T	T	179407953	4	4	4	1	0	0	0	0	0	1	0	0	16732	856	30	2	11296	2	TTN	2	179407953	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	14652	179407953	63791420	599	1190										
TTN	7273	broad.mit.edu	37	chr2	179408626	179408626	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttcagcttcaattgtgtatTttccagcatcgtaccgatta	6	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179408626T>G	uc010zfg.1	-	295	88765	c.88541A>C	c.(88540-88542)AAA>ACA	p.K29514T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K23209T|TTN_uc010zfi.1_Missense_Mutation_p.K23142T|TTN_uc010zfj.1_Missense_Mutation_p.K23017T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30441							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)			AATTGTGTATTTTCCAGCATC	0.403													24	66	---	---	---	---	PASS	G	179408626	G	G	179408626	3	3	4	1	0	0	0	0	1	0	0	0	16732	1841	64	5	11802	5	TTN	2	179408626	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	673	179408626	63790747	600	1191										
TTN	7273	broad.mit.edu	37	chr2	179425385	179425385	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatgcaaggtggcttgtttCacgtttttctacgatgtaat	9	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179425385C>T	uc010zfg.1	-	275	77994	c.77770G>A	c.(77770-77772)GAA>AAA	p.E25924K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E19619K|TTN_uc010zfi.1_Missense_Mutation_p.E19552K|TTN_uc010zfj.1_Missense_Mutation_p.E19427K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26851							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)			TGGCTTGTTTCACGTTTTTCT	0.408													19	37	---	---	---	---	PASS	T	179425385	T	T	179425385	3	4	4	1	0	0	0	0	1	0	0	0	16732	835	29	2	22653	2	TTN	2	179425385	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	16759	179425385	63773988	601	1192										
TTN	7273	broad.mit.edu	37	chr2	179429955	179429955	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtccaggcttttctaaaacGataacactgagattttctgt	8	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179429955G>A	uc010zfg.1	-	275	73424	c.73200C>T	c.(73198-73200)ATC>ATT	p.I24400I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.I18095I|TTN_uc010zfi.1_Silent_p.I18028I|TTN_uc010zfj.1_Silent_p.I17903I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25327							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)			TTTCTAAAACGATAACACTGA	0.428													24	62	---	---	---	---	PASS	A	179429955	A	A	179429955	2	1	4	1	0	0	0	0	0	0	0	1	16732	1048	37	2		2	TTN	2	179429955	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4570	179429955	63769418	602	1193										
TTN	7273	broad.mit.edu	37	chr2	179430570	179430570	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccactggaacaccaactccAaattcattttcagccatgac	4	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179430570A>G	uc010zfg.1	-	275	72809	c.72585T>C	c.(72583-72585)TTT>TTC	p.F24195F	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.F17890F|TTN_uc010zfi.1_Silent_p.F17823F|TTN_uc010zfj.1_Silent_p.F17698F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25122							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)			CACCAACTCCAAATTCATTTT	0.433													61	141	---	---	---	---	PASS	G	179430570	G	G	179430570	2	3	4	1	0	0	0	0	0	0	0	1	16732	127	5	5		5	TTN	2	179430570	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	615	179430570	63768803	603	1194										
TTN	7273	broad.mit.edu	37	chr2	179431329	179431329	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgccgccatcatagatgggTttaccccaggcaagtgtgat	11	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179431329T>C	uc010zfg.1	-	275	72050	c.71826A>G	c.(71824-71826)AAA>AAG	p.K23942K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.K17637K|TTN_uc010zfi.1_Silent_p.K17570K|TTN_uc010zfj.1_Silent_p.K17445K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24869							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)			CATAGATGGGTTTACCCCAGG	0.428													57	103	---	---	---	---	PASS	C	179431329	C	C	179431329	2	2	4	1	0	0	0	0	0	0	0	1	16732	1722	60	5		5	TTN	2	179431329	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	759	179431329	63768044	604	1195										
TTN	7273	broad.mit.edu	37	chr2	179438046	179438046	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtaagagtttttttgttgcaTttaatccagcgttggccagc	10	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179438046T>C	uc010zfg.1	-	275	65333	c.65109A>G	c.(65107-65109)AAA>AAG	p.K21703K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.K15398K|TTN_uc010zfi.1_Silent_p.K15331K|TTN_uc010zfj.1_Silent_p.K15206K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22630							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)			TTTTGTTGCATTTAATCCAGC	0.408													17	50	---	---	---	---	PASS	C	179438046	C	C	179438046	2	2	4	1	0	0	0	0	0	0	0	1	16732	1490	52	5		5	TTN	2	179438046	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	6717	179438046	63761327	605	1196										
TTN	7273	broad.mit.edu	37	chr2	179463551	179463551	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagcattgattgcatatacCcggaattgatagtcggaacc	10	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179463551C>T	uc010zfg.1	-	240	49406	c.49182G>A	c.(49180-49182)CGG>CGA	p.R16394R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.R10089R|TTN_uc010zfi.1_Silent_p.R10022R|TTN_uc010zfj.1_Silent_p.R9897R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17321							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)			TTGCATATACCCGGAATTGAT	0.458													32	109	---	---	---	---	PASS	T	179463551	T	T	179463551	2	4	4	1	0	0	0	0	0	0	0	1	16732	610	22	3		3	TTN	2	179463551	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	25505	179463551	63735822	606	1197										
TTN	7273	broad.mit.edu	37	chr2	179466246	179466246	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaaagtctgcaactacccCttgtgatatcactgactttc	6	11	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179466246C>T	uc010zfg.1	-	236	47998	c.47774G>A	c.(47773-47775)AGG>AAG	p.R15925K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R9620K|TTN_uc010zfi.1_Missense_Mutation_p.R9553K|TTN_uc010zfj.1_Missense_Mutation_p.R9428K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16852							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)			GCAACTACCCCTTGTGATATC	0.413													46	101	---	---	---	---	PASS	T	179466246	T	T	179466246	3	4	4	1	0	0	0	0	1	0	0	0	16732	681	24	3	52519	3	TTN	2	179466246	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2695	179466246	63733127	607	1198										
TTN	7273	broad.mit.edu	37	chr2	179466788	179466788	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgattttggtgttgggcgtcCcttgatgacagcaggaatcc	13	8	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179466788C>T	uc010zfg.1	-	233	47730	c.47506G>A	c.(47506-47508)GGA>AGA	p.G15836R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G9531R|TTN_uc010zfi.1_Missense_Mutation_p.G9464R|TTN_uc010zfj.1_Missense_Mutation_p.G9339R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16763							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)			GTTGGGCGTCCCTTGATGACA	0.423													31	76	---	---	---	---	PASS	T	179466788	T	T	179466788	3	4	4	1	0	0	0	0	1	0	0	0	16732	632	22	3	52799	3	TTN	2	179466788	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	542	179466788	63732585	608	1199										
TTN	7273	broad.mit.edu	37	chr2	179479601	179479601	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtccacagcctggatttcctCtgtgggtctgcttggtttgc	12	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179479601C>T	uc010zfg.1	-	209	41253	c.41029G>A	c.(41029-41031)GAG>AAG	p.E13677K	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E7372K|TTN_uc010zfi.1_Missense_Mutation_p.E7305K|TTN_uc010zfj.1_Missense_Mutation_p.E7180K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14604							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)			TGGATTTCCTCTGTGGGTCTG	0.363													10	4	---	---	---	---	PASS	T	179479601	T	T	179479601	3	4	4	1	0	0	0	0	1	0	0	0	16732	922	32	2	59372	2	TTN	2	179479601	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	12813	179479601	63719772	609	1200										
TTN	7273	broad.mit.edu	37	chr2	179528042	179528042	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaatagcttcaggcaacttCttttctgggacagctgcctt	10	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179528042C>T	uc010zfk.1	-	18	1637	c.1089G>A	c.(1087-1089)AAG>AAA	p.K363K	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	11575							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)			CAGGCAACTTCTTTTCTGGGA	0.378													32	62	---	---	---	---	PASS	T	179528042	T	T	179528042	2	4	4	1	0	0	0	0	0	0	0	1	16732	928	32	2		2	TTN	2	179528042	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	48441	179528042	63671331	610	1201										
TTN	7273	broad.mit.edu	37	chr2	179530162	179530162	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaaatattttcatttcaggGacaacttctttcatagcttc	4	9	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179530162G>A	uc010zfk.1	-	10	971	c.423C>T	c.(421-423)GTC>GTT	p.V141V	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TCATTTCAGGGACAACTTCTT	0.358													38	93	---	---	---	---	PASS	A	179530162	A	A	179530162	2	1	4	1	0	0	0	0	0	0	0	1	16732	1189	41	2		2	TTN	2	179530162	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2120	179530162	63669211	611	1202										
TTN	7273	broad.mit.edu	37	chr2	179552937	179552937	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttctgagtaactccattCctcctctgcagatactttaa	4	13	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179552937C>T	uc010zfg.1	-	124	28704	c.28480G>A	c.(28480-28482)GAA>AAA	p.E9494K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E6155K|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10421							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)			TAACTCCATTCCTCCTCTGCA	0.403													27	50	---	---	---	---	PASS	T	179552937	T	T	179552937	3	4	4	1	0	0	0	0	1	0	0	0	16732	864	30	2	72261	2	TTN	2	179552937	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	22775	179552937	63646436	612	1203										
TTN	7273	broad.mit.edu	37	chr2	179572409	179572409	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgtctgaaggctttatttCcctgccagccttcaaccact	6	14	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179572409C>T	uc010zfg.1	-	97	25377	c.25153G>A	c.(25153-25155)GAA>AAA	p.E8385K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E5046K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9312							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)			GGCTTTATTTCCCTGCCAGCC	0.498													15	30	---	---	---	---	PASS	T	179572409	T	T	179572409	3	4	4	1	0	0	0	0	1	0	0	0	16732	864	30	2	75696	2	TTN	2	179572409	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	19472	179572409	63626964	613	1204										
TTN	7273	broad.mit.edu	37	chr2	179576847	179576847	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtatctcctttataccagGataccccaatttcaggggtt	7	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179576847G>A	uc010zfg.1	-	93	24202	c.23978C>T	c.(23977-23979)TCC>TTC	p.S7993F	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S4654F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8920							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)			TTTATACCAGGATACCCCAAT	0.423													21	40	---	---	---	---	PASS	A	179576847	A	A	179576847	3	1	4	1	0	0	0	0	1	0	0	0	16732	1174	41	2	76887	2	TTN	2	179576847	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4438	179576847	63622526	614	1205										
TTN	7273	broad.mit.edu	37	chr2	179587235	179587235	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccacagtttgttcaatgtCctttaattgtcttgcaaaag	6	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179587235C>T	uc010zfg.1	-	74	18771	c.18547G>A	c.(18547-18549)GAC>AAC	p.D6183N	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.D2844N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7110							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)			TGTTCAATGTCCTTTAATTGT	0.418													47	68	---	---	---	---	PASS	T	179587235	T	T	179587235	3	4	4	1	0	0	0	0	1	0	0	0	16732	855	30	2	82394	2	TTN	2	179587235	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	10388	179587235	63612138	615	1206										
TTN	7273	broad.mit.edu	37	chr2	179594458	179594458	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgagcttcacacacataagtCccactattttctaccctggc	5	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179594458C>T	uc010zfg.1	-	60	15014	c.14790G>A	c.(14788-14790)GGG>GGA	p.G4930G	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.G1591G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5857							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)			ACACATAAGTCCCACTATTTT	0.443													23	71	---	---	---	---	PASS	T	179594458	T	T	179594458	2	4	4	1	0	0	0	0	0	0	0	1	16732	842	30	2		2	TTN	2	179594458	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	7223	179594458	63604915	616	1207										
TTN	7273	broad.mit.edu	37	chr2	179600793	179600793	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctggagagaaaggttggtgGatatgcctctgcaaaagaaa	13	5	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179600793G>C	uc010zfg.1	-	47	10872	c.10648C>G	c.(10648-10650)CCA>GCA	p.P3550A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P211A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4477							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)			AAGGTTGGTGGATATGCCTCT	0.418													22	49	---	---	---	---	PASS	C	179600793	C	C	179600793	3	2	4	1	0	0	0	0	1	0	0	0	16732	1174	41	2	90401	2	TTN	2	179600793	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6335	179600793	63598580	617	1208										
TTN	7273	broad.mit.edu	37	chr2	179605701	179605701	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatagttgctggttttcttCtgtaattaaagcagctttca	8	6	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179605701C>T	uc010zfh.1	-	46	11970	c.11746G>A	c.(11746-11748)GAA>AAA	p.E3916K	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.E3849K|TTN_uc010zfj.1_Missense_Mutation_p.E3724K|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	3853							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)			TGGTTTTCTTCTGTAATTAAA	0.418													29	79	---	---	---	---	PASS	T	179605701	T	T	179605701	3	4	4	1	0	0	0	0	1	0	0	0	16732	922	32	2	92530	2	TTN	2	179605701	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4908	179605701	63593672	618	1209										
TTN	7273	broad.mit.edu	37	chr2	179611958	179611958	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagtatctctctagtgtctCccctgggggtgtggagtatc	14	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179611958C>T	uc002unb.2	-	46	15393	c.15169G>A	c.(15169-15171)GAG>AAG	p.E5057K	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	1164							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)			TCTAGTGTCTCCCCTGGGGGT	0.498													8	29	---	---	---	---	PASS	T	179611958	T	T	179611958	3	4	4	1	0	0	0	0	1	0	0	0	16732	864	30	2	95128	2	TTN	2	179611958	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6257	179611958	63587415	619	1210										
TTN	7273	broad.mit.edu	37	chr2	179614163	179614163	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtatgcaacgcacctgctCtttctggtctatttgctcaa	8	11	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179614163C>T	uc002unb.2	-	46	13188	c.12964G>A	c.(12964-12966)GAG>AAG	p.E4322K	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CGCACCTGCTCTTTCTGGTCT	0.408													23	50	---	---	---	---	PASS	T	179614163	T	T	179614163	3	4	4	1	0	0	0	0	1	0	0	0	16732	922	32	2	97333	2	TTN	2	179614163	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2205	179614163	63585210	620	1211										
TTN	7273	broad.mit.edu	37	chr2	179621020	179621020	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtacaatgcagctgtatagtCcttggtctaccagctgaaca	9	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179621020C>T	uc010zfh.1	-	44	10894	c.10670G>A	c.(10669-10671)GGA>GAA	p.G3557E	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	3571							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)			GCTGTATAGTCCTTGGTCTAC	0.398													27	87	---	---	---	---	PASS	T	179621020	T	T	179621020	3	4	4	1	0	0	0	0	1	0	0	0	16732	855	30	2	100073	2	TTN	2	179621020	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6857	179621020	63578353	621	1212										
TTN	7273	broad.mit.edu	37	chr2	179621106	179621106	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtctctcggattcctctatCtttgcaccttcgtgagtcca	7	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179621106C>T	uc010zfh.1	-	44	10808	c.10584G>A	c.(10582-10584)AAG>AAA	p.K3528K	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			ATTCCTCTATCTTTGCACCTT	0.408													24	52	---	---	---	---	PASS	T	179621106	T	T	179621106	2	4	4	1	0	0	0	0	0	0	0	1	16732	912	32	2		2	TTN	2	179621106	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	86	179621106	63578267	622	1213										
TTN	7273	broad.mit.edu	37	chr2	179632527	179632527	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcggatgcgaacatctctgcCttctacaaagagttttgcag	9	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179632527C>T	uc010zfg.1	-	40	9654	c.9430G>A	c.(9430-9432)GGC>AGC	p.G3144S	TTN_uc010zfh.1_Missense_Mutation_p.G3098S|TTN_uc010zfi.1_Missense_Mutation_p.G3098S|TTN_uc010zfj.1_Missense_Mutation_p.G3098S|TTN_uc002unb.2_Missense_Mutation_p.G3144S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3144							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)			ACATCTCTGCCTTCTACAAAG	0.433													18	50	---	---	---	---	PASS	T	179632527	T	T	179632527	3	4	4	1	0	0	0	0	1	0	0	0	16732	681	24	3	101850	3	TTN	2	179632527	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	11421	179632527	63566846	623	1214										
TTN	7273	broad.mit.edu	37	chr2	179637867	179637867	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agttttccagatgtcatattTtctcccgcgtaaaatgtgta	7	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179637867T>A	uc010zfg.1	-	33	8048	c.7824A>T	c.(7822-7824)GAA>GAT	p.E2608D	TTN_uc010zfh.1_Missense_Mutation_p.E2562D|TTN_uc010zfi.1_Missense_Mutation_p.E2562D|TTN_uc010zfj.1_Missense_Mutation_p.E2562D|TTN_uc002unb.2_Missense_Mutation_p.E2608D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2608							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)			ATGTCATATTTTCTCCCGCGT	0.274													10	28	---	---	---	---	PASS	A	179637867	A	A	179637867	3	1	4	1	0	0	0	0	1	0	0	0	16732	1838	64	5	103484	5	TTN	2	179637867	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	5340	179637867	63561506	624	1215										
TTN	7273	broad.mit.edu	37	chr2	179640777	179640777	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggttcaggagctctcctaagGacagacctaaaatcttccct	8	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179640777G>A	uc010zfg.1	-	28	6038	c.5814C>T	c.(5812-5814)GTC>GTT	p.V1938V	TTN_uc010zfh.1_Silent_p.V1892V|TTN_uc010zfi.1_Silent_p.V1892V|TTN_uc010zfj.1_Silent_p.V1892V|TTN_uc002unb.2_Silent_p.V1938V|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1938							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)			CTCTCCTAAGGACAGACCTAA	0.453													45	86	---	---	---	---	PASS	A	179640777	A	A	179640777	2	1	4	1	0	0	0	0	0	0	0	1	16732	1161	41	2		2	TTN	2	179640777	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2910	179640777	63558596	625	1216										
TTN	7273	broad.mit.edu	37	chr2	179648863	179648863	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggtgccagtgatgctcacCcctacttcctttttcacctc	7	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179648863C>T	uc010zfg.1	-	16	2933	c.2709G>A	c.(2707-2709)GGG>GGA	p.G903G	TTN_uc010zfh.1_Silent_p.G857G|TTN_uc010zfi.1_Silent_p.G857G|TTN_uc010zfj.1_Silent_p.G857G|TTN_uc002unb.2_Silent_p.G903G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	903							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)			TGATGCTCACCCCTACTTCCT	0.552													20	40	---	---	---	---	PASS	T	179648863	T	T	179648863	2	4	4	1	0	0	0	0	0	0	0	1	16732	610	22	3		3	TTN	2	179648863	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	8086	179648863	63550510	626	1217										
TTN	7273	broad.mit.edu	37	chr2	179665191	179665191	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcatttactgaataggtccCtgagtcctcagggtatgctt	11	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179665191C>T	uc002und.2	-	4	739	c.514G>A	c.(514-516)GGG>AGG	p.G172R	TTN_uc010zfg.1_Missense_Mutation_p.G172R|TTN_uc010zfh.1_Missense_Mutation_p.G172R|TTN_uc010zfi.1_Missense_Mutation_p.G172R|TTN_uc010zfj.1_Missense_Mutation_p.G172R|TTN_uc002unb.2_Missense_Mutation_p.G172R			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	172							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)			GAATAGGTCCCTGAGTCCTCA	0.488													50	73	---	---	---	---	PASS	T	179665191	T	T	179665191	3	4	4	1	0	0	0	0	1	0	0	0	16732	681	24	3	110910	3	TTN	2	179665191	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	16328	179665191	63534182	627	1218										
CCDC141	285025	broad.mit.edu	37	chr2	179702390	179702390	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggacgccaccctccttgtCagtggacaccttcaggtctt	9	15	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179702390C>T	uc002unf.1	-	13	1888	c.1831G>A	c.(1831-1833)GAC>AAC	p.D611N	CCDC141_uc002une.1_Missense_Mutation_p.D61N	NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	611							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			CCCTCCTTGTCAGTGGACACC	0.532													30	52	---	---	---	---	PASS	T	179702390	T	T	179702390	3	4	4	1	0	0	0	0	1	0	0	0	2775	826	29	2	800	2	CCDC141	2	179702390	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	37199	179702390	63496983	628	1219										
CCDC141	285025	broad.mit.edu	37	chr2	179733849	179733849	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttctaagccttacctcttCcttgacttgatggaactgga	7	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179733849C>T	uc002unf.1	-	5	721	c.664G>A	c.(664-666)GAA>AAA	p.E222K		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	222							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			CTTACCTCTTCCTTGACTTGA	0.318													22	42	---	---	---	---	PASS	T	179733849	T	T	179733849	3	4	4	1	0	0	0	0	1	0	0	0	2775	864	30	2	1999	2	CCDC141	2	179733849	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	31459	179733849	63465524	629	1220										
CCDC141	285025	broad.mit.edu	37	chr2	179736944	179736944	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctgccatgccagccgaagGaggctaagttcttcccgttc	11	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:179736944G>A	uc002unf.1	-	3	327	c.270C>T	c.(268-270)CTC>CTT	p.L90L		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	90	Potential.						protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			CCAGCCGAAGGAGGCTAAGTT	0.458													11	30	---	---	---	---	PASS	A	179736944	A	A	179736944	2	1	4	1	0	0	0	0	0	0	0	1	2775	1161	41	2		2	CCDC141	2	179736944	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	3095	179736944	63462429	630	1221										
DNAJC10	54431	broad.mit.edu	37	chr2	183593710	183593710	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcccagcctcttcatttttCggtctggaatggtaagggat	10	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:183593710C>T	uc002uow.1	+	7	1037	c.622C>T	c.(622-624)CGG>TGG	p.R208W	DNAJC10_uc002uox.1_RNA|DNAJC10_uc002uoy.1_RNA|DNAJC10_uc002uoz.1_Missense_Mutation_p.R208W|DNAJC10_uc010fro.1_RNA	NM_018981	NP_061854	Q8IXB1	DJC10_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 10	208	Thioredoxin 1.				apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|ER-associated protein catabolic process|glycerol ether metabolic process|negative regulation of protein phosphorylation|protein folding|response to endoplasmic reticulum stress	endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|extracellular region	ATPase activator activity|ATPase binding|chaperone binding|electron carrier activity|heat shock protein binding|misfolded protein binding|protein disulfide oxidoreductase activity|unfolded protein binding			ovary(1)|large_intestine(1)|breast(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			CTTCATTTTTCGGTCTGGAAT	0.363													21	36	---	---	---	---	PASS	T	183593710	T	T	183593710	3	4	4	1	0	0	0	0	1	0	0	0	4629	875	31	2	640	2	DNAJC10	2	183593710	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3856766	183593710	59605663	631	1222										
NCKAP1	10787	broad.mit.edu	37	chr2	183841674	183841674	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaatcaaatacttccccatCttcaactgtagtaatagaaa	4	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:183841674C>T	uc002upc.2	-	15	1831	c.1429G>A	c.(1429-1431)GAT>AAT	p.D477N	NCKAP1_uc002upb.2_Missense_Mutation_p.D483N	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	477					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			ACTTCCCCATCTTCAACTGTA	0.254													6	12	---	---	---	---	PASS	T	183841674	T	T	183841674	3	4	4	1	0	0	0	0	1	0	0	0	10221	913	32	2	2025	2	NCKAP1	2	183841674	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	247964	183841674	59357699	632	1223										
ZNF804A	91752	broad.mit.edu	37	chr2	185803648	185803648	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgccaatcattccagcttcCgttcttcatcctagccatct	4	15	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:185803648C>T	uc002uph.2	+	4	4119	c.3525C>T	c.(3523-3525)TCC>TCT	p.S1175S		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	1175						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TTCCAGCTTCCGTTCTTCATC	0.512													28	80	---	---	---	---	PASS	T	185803648	T	T	185803648	2	4	4	1	0	0	0	0	0	0	0	1	18167	639	23	1		1	ZNF804A	2	185803648	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1961974	185803648	57395725	633	1224										
CALCRL	10203	broad.mit.edu	37	chr2	188247996	188247996	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aactcccaactgaattgagtCctcaggactctcttctaatt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:188247996C>T	uc002upv.3	-	5	636	c.88G>A	c.(88-90)GAC>AAC	p.D30N	CALCRL_uc010frt.2_Missense_Mutation_p.D30N	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	30	Extracellular (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			TGAATTGAGTCCTCAGGACTC	0.338													12	17	---	---	---	---	PASS	T	188247996	T	T	188247996	3	4	4	1	0	0	0	0	1	0	0	0	2580	855	30	2	1341	2	CALCRL	2	188247996	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2444348	188247996	54951377	634	1225	33	2								
CALCRL	10203	broad.mit.edu	37	chr2	188247997	188247997	+	Missense_Mutation	SNP	C	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcccaactgaattgagtcCtcaggactctcttctaattc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:188247997C>A	uc002upv.3	-	5	635	c.87G>T	c.(85-87)GAG>GAT	p.E29D	CALCRL_uc010frt.2_Missense_Mutation_p.E29D	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	29	Extracellular (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			GAATTGAGTCCTCAGGACTCT	0.338													12	17	---	---	---	---	PASS	A	188247997	A	A	188247997	3	1	4	1	0	0	0	0	1	0	0	0	2580	680	24	3	1342	3	CALCRL	2	188247997	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	188247997	54951376	635	1226	33	2								
COL3A1	1281	broad.mit.edu	37	chr2	189852823	189852823	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagggccccccaggccctcCcggtccccctggtacatctg	10	21	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:189852823C>T	uc002uqj.1	+	6	662	c.545C>T	c.(544-546)CCC>CTC	p.P182L		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	182	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	CCAGGCCCTCCCGGTCCCCCT	0.398													7	14	---	---	---	---	PASS	T	189852823	T	T	189852823	3	4	4	1	0	0	0	0	1	0	0	0	3688	623	22	3	567	3	COL3A1	2	189852823	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1604826	189852823	53346550	636	1227										
COL3A1	1281	broad.mit.edu	37	chr2	189854873	189854873	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcgaggattgcctggacctCcagtgagtcttcagcatcta	11	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:189854873C>T	uc002uqj.1	+	9	859	c.742C>T	c.(742-744)CCA>TCA	p.P248S	COL3A1_uc010frw.1_5'Flank	NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	248	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	GCCTGGACCTCCAGTGAGTCT	0.368													11	26	---	---	---	---	PASS	T	189854873	T	T	189854873	3	4	4	1	0	0	0	0	1	0	0	0	3688	855	30	2	776	2	COL3A1	2	189854873	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2050	189854873	53344500	637	1228										
COL3A1	1281	broad.mit.edu	37	chr2	189870103	189870103	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgggaaaccaggagctaacGgtctcagtggagaacgtggt	16	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:189870103G>A	uc002uqj.1	+	41	3076	c.2959G>A	c.(2959-2961)GGT>AGT	p.G987S		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	987	Triple-helical region.			ANGLS -> PSGQN (in Ref. 20; AA sequence).	axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	AGGAGCTAACGGTCTCAGTGG	0.438													25	53	---	---	---	---	PASS	A	189870103	A	A	189870103	3	1	4	1	0	0	0	0	1	0	0	0	3688	1116	39	1	3121	1	COL3A1	2	189870103	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	15230	189870103	53329270	638	1229										
MSTN	2660	broad.mit.edu	37	chr2	190922314	190922314	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcacagtcaagaccaaaatcCcttctggatctttttggtgt	7	10	4	1	rs35791082	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:190922314C>T	uc002urp.2	-	3	931	c.798G>A	c.(796-798)AGG>AGA	p.R266R		NM_005259	NP_005250	O14793	GDF8_HUMAN	myostatin precursor	266					muscle organ development|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000742)|Epithelial(96;0.0121)|all cancers(119;0.0395)			GACCAAAATCCCTTCTGGATC	0.408													16	39	---	---	---	---	PASS	T	190922314	T	T	190922314	2	4	4	1	0	0	0	0	0	0	0	1	9893	622	22	3		3	MSTN	2	190922314	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1052211	190922314	52277059	639	1230										
NAB1	4664	broad.mit.edu	37	chr2	191524442	191524442	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccccagcagacctgggctcCcccgcgtccccaaaggagag	11	18	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:191524442C>T	uc002usb.2	+	4	1112	c.540C>T	c.(538-540)TCC>TCT	p.S180S	NAB1_uc010fsc.2_Silent_p.S180S|NAB1_uc010fsd.2_Silent_p.S180S|NAB1_uc002usc.2_Silent_p.S180S|NAB1_uc010zgh.1_Silent_p.S180S	NM_005966	NP_005957	Q13506	NAB1_HUMAN	NGFI-A binding protein 1	180					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0405)|all cancers(119;0.109)			ACCTGGGCTCCCCCGCGTCCC	0.632													10	8	---	---	---	---	PASS	T	191524442	T	T	191524442	2	4	4	1	0	0	0	0	0	0	0	1	10131	610	22	3		3	NAB1	2	191524442	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	602128	191524442	51674931	640	1231										
STAT4	6775	broad.mit.edu	37	chr2	192011344	192011344	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaatgcattcttacctgaaGgaccttcctaattcttttta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:192011344G>A	uc002usm.1	-	3	522	c.268C>T	c.(268-270)CTT>TTT	p.L90F	STAT4_uc010zgm.1_RNA|STAT4_uc010zgn.1_RNA|STAT4_uc010zgo.1_RNA|STAT4_uc002usn.1_Missense_Mutation_p.L90F|STAT4_uc002uso.2_Missense_Mutation_p.L90F|STAT4_uc002usp.3_Missense_Mutation_p.L90F|STAT4_uc010zgl.1_Missense_Mutation_p.L90F	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	90					JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			CTTACCTGAAGGACCTTCCTA	0.284													8	18	---	---	---	---	PASS	A	192011344	A	A	192011344	3	1	4	1	0	0	0	0	1	0	0	0	15266	1000	35	3	2066	3	STAT4	2	192011344	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	486902	192011344	51188029	641	1232	34	2								
STAT4	6775	broad.mit.edu	37	chr2	192011345	192011345	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaatgcattcttacctgaagGaccttcctaattctttttag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:192011345G>A	uc002usm.1	-	3	521	c.267C>T	c.(265-267)GTC>GTT	p.V89V	STAT4_uc010zgm.1_RNA|STAT4_uc010zgn.1_RNA|STAT4_uc010zgo.1_RNA|STAT4_uc002usn.1_Silent_p.V89V|STAT4_uc002uso.2_Silent_p.V89V|STAT4_uc002usp.3_Silent_p.V89V|STAT4_uc010zgl.1_Silent_p.V89V	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	89					JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			TTACCTGAAGGACCTTCCTAA	0.284													8	17	---	---	---	---	PASS	A	192011345	A	A	192011345	2	1	4	1	0	0	0	0	0	0	0	1	15266	1161	41	2		2	STAT4	2	192011345	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	192011345	51188028	642	1233	34	2								
DNAH7	56171	broad.mit.edu	37	chr2	196671473	196671473	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccacatttaccttgtctggCctcaagcaacgaataataag	6	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:196671473C>T	uc002utj.3	-	54	10268	c.10167G>A	c.(10165-10167)AGG>AGA	p.R3389R		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3389					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CCTTGTCTGGCCTCAAGCAAC	0.408													11	19	---	---	---	---	PASS	T	196671473	T	T	196671473	2	4	4	1	0	0	0	0	0	0	0	1	4606	738	26	3		3	DNAH7	2	196671473	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4660128	196671473	46527900	643	1234										
MARS2	92935	broad.mit.edu	37	chr2	198570720	198570720	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattcgtttcctgtatctctCgagagcgggcatccagtctc	10	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:198570720C>T	uc002uuq.2	+	1	634	c.591C>T	c.(589-591)CTC>CTT	p.L197L	uc002uup.2_Intron	NM_138395	NP_612404	Q96GW9	SYMM_HUMAN	methionine-tRNA synthetase 2 precursor	197					methionyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|methionine-tRNA ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3					L-Methionine(DB00134)	CTGTATCTCTCGAGAGCGGGC	0.587													16	27	---	---	---	---	PASS	T	198570720	T	T	198570720	2	4	4	1	0	0	0	0	0	0	0	1	9317	871	31	2		2	MARS2	2	198570720	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1899247	198570720	44628653	644	1235										
BOLL	66037	broad.mit.edu	37	chr2	198640396	198640396	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctcaatacatacgagggatCcctacttgttgttttcttat	6	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:198640396C>T	uc002uus.2	-	5	655	c.345G>A	c.(343-345)GGG>GGA	p.G115G	BOLL_uc002uur.2_Silent_p.G121G|BOLL_uc002uut.2_Silent_p.G127G|BOLL_uc010zha.1_Intron|BOLL_uc002uuu.1_Silent_p.G121G	NM_033030	NP_149019	Q8N9W6	BOLL_HUMAN	boule isoform 2	115					cell differentiation|meiosis|multicellular organismal development|positive regulation of translational initiation|spermatogenesis	cytoplasm	nucleotide binding|protein binding|RNA binding|translation activator activity			ovary(2)	2						TACGAGGGATCCCTACTTGTT	0.239													7	38	---	---	---	---	PASS	T	198640396	T	T	198640396	2	4	4	1	0	0	0	0	0	0	0	1	1487	842	30	2		2	BOLL	2	198640396	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	69676	198640396	44558977	645	1236										
PLCL1	5334	broad.mit.edu	37	chr2	198948736	198948736	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatatttctgccataaaagaGatcagactggggaaaaacac	9	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:198948736G>A	uc010fsp.2	+	2	786	c.495G>A	c.(493-495)GAG>GAA	p.E165E	PLCL1_uc002uuv.3_Silent_p.E86E	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	165	PH.|Interaction with PPP1C.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	CCATAAAAGAGATCAGACTGG	0.453													21	61	---	---	---	---	PASS	A	198948736	A	A	198948736	2	1	4	1	0	0	0	0	0	0	0	1	12039	933	33	2		2	PLCL1	2	198948736	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	308340	198948736	44250637	646	1237										
MPP4	58538	broad.mit.edu	37	chr2	202519625	202519625	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcttctgagctcatttactCcaacaccagagggtcctaaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:202519625C>T	uc002uyk.3	-	18	1524	c.1316G>A	c.(1315-1317)GGA>GAA	p.G439E	MPP4_uc002uyi.3_Missense_Mutation_p.G57E|MPP4_uc010ftj.2_Missense_Mutation_p.G432E|MPP4_uc010zhq.1_Missense_Mutation_p.G408E|MPP4_uc010zhr.1_Missense_Mutation_p.G415E|MPP4_uc010zhs.1_Missense_Mutation_p.G364E|MPP4_uc002uyj.3_Missense_Mutation_p.G404E|MPP4_uc010zht.1_Missense_Mutation_p.G381E|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.G395E	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	439	Guanylate kinase-like.					cytoplasm	protein binding				0						CTCATTTACTCCAACACCAGA	0.353													5	23	---	---	---	---	PASS	T	202519625	T	T	202519625	3	4	4	1	0	0	0	0	1	0	0	0	9736	855	30	2	617	2	MPP4	2	202519625	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3570889	202519625	40679748	647	1238	35	2								
MPP4	58538	broad.mit.edu	37	chr2	202519626	202519626	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttctgagctcatttactcCaacaccagagggtcctaaac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:202519626C>T	uc002uyk.3	-	18	1523	c.1315G>A	c.(1315-1317)GGA>AGA	p.G439R	MPP4_uc002uyi.3_Missense_Mutation_p.G57R|MPP4_uc010ftj.2_Missense_Mutation_p.G432R|MPP4_uc010zhq.1_Missense_Mutation_p.G408R|MPP4_uc010zhr.1_Missense_Mutation_p.G415R|MPP4_uc010zhs.1_Missense_Mutation_p.G364R|MPP4_uc002uyj.3_Missense_Mutation_p.G404R|MPP4_uc010zht.1_Missense_Mutation_p.G381R|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.G395R	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	439	Guanylate kinase-like.					cytoplasm	protein binding				0						TCATTTACTCCAACACCAGAG	0.358													6	22	---	---	---	---	PASS	T	202519626	T	T	202519626	3	4	4	1	0	0	0	0	1	0	0	0	9736	603	21	3	618	3	MPP4	2	202519626	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	202519626	40679747	648	1239	35	2								
ALS2	57679	broad.mit.edu	37	chr2	202593787	202593787	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggcttaccgtcatttttccGgggaaggtcttccagaagcc	11	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:202593787G>T	uc002uyo.2	-	14	3056	c.2700C>A	c.(2698-2700)CCC>CCA	p.P900P	ALS2_uc002uyp.3_Silent_p.P900P|ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	900					cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						TCATTTTTCCGGGGAAGGTCT	0.443													5	102	---	---	---	---	PASS	T	202593787	T	T	202593787	2	4	4	1	0	0	0	0	0	0	0	1	550	1103	39	1		1	ALS2	2	202593787	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	74161	202593787	40605586	649	1240										
ALS2CR8	79800	broad.mit.edu	37	chr2	203847162	203847162	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatagacaaccactcagctcTtagtaagttgaaatcaattt	5	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:203847162T>A	uc002uzo.2	+	15	2337	c.2057T>A	c.(2056-2058)CTT>CAT	p.L686H	ALS2CR8_uc010zia.1_Missense_Mutation_p.L610H|ALS2CR8_uc010zib.1_Missense_Mutation_p.L610H|ALS2CR8_uc010zic.1_Missense_Mutation_p.L598H|ALS2CR8_uc002uzp.2_Missense_Mutation_p.L686H	NM_001104586	NP_001098056	Q8N187	AL2S8_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	686										large_intestine(1)|ovary(1)	2						CACTCAGCTCTTAGTAAGTTG	0.353													28	52	---	---	---	---	PASS	A	203847162	A	A	203847162	3	1	4	1	0	0	0	0	1	0	0	0	555	1609	56	5	2107	5	ALS2CR8	2	203847162	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1253375	203847162	39352211	650	1241										
PARD3B	117583	broad.mit.edu	37	chr2	206480410	206480410	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agacgttccgccttcccctcCccagcaccaaagaatgccag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:206480410C>T	uc002var.1	+	23	3698	c.3491C>T	c.(3490-3492)CCC>CTC	p.P1164L	PARD3B_uc002vao.1_Missense_Mutation_p.P1063L|PARD3B_uc002vap.1_Missense_Mutation_p.P1102L|PARD3B_uc002vaq.1_Missense_Mutation_p.P1095L|uc010fuc.1_5'Flank	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	1164					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		CCTTCCCCTCCCCAGCACCAA	0.632													17	49	---	---	---	---	PASS	T	206480410	T	T	206480410	3	4	4	1	0	0	0	0	1	0	0	0	11444	623	22	3	3581	3	PARD3B	2	206480410	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2633248	206480410	36718963	651	1242	36	2								
PARD3B	117583	broad.mit.edu	37	chr2	206480411	206480411	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacgttccgccttcccctccCcagcaccaaagaatgccagc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:206480411C>T	uc002var.1	+	23	3699	c.3492C>T	c.(3490-3492)CCC>CCT	p.P1164P	PARD3B_uc002vao.1_Silent_p.P1063P|PARD3B_uc002vap.1_Silent_p.P1102P|PARD3B_uc002vaq.1_Silent_p.P1095P|uc010fuc.1_5'Flank	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	1164					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		CTTCCCCTCCCCAGCACCAAA	0.627													17	49	---	---	---	---	PASS	T	206480411	T	T	206480411	2	4	4	1	0	0	0	0	0	0	0	1	11444	610	22	3		3	PARD3B	2	206480411	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	206480411	36718962	652	1243	36	2								
PLEKHM3	389072	broad.mit.edu	37	chr2	208841613	208841613	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctgtcgggtctcagctcgGaggcgaaggacatcctgggg	16	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:208841613G>A	uc002vcl.2	-	3	1798	c.1308C>T	c.(1306-1308)CTC>CTT	p.L436L	PLEKHM3_uc002vcm.2_Silent_p.L436L	NM_001080475	NP_001073944	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M,	436	PH 2.				intracellular signal transduction		metal ion binding			ovary(1)	1						TCTCAGCTCGGAGGCGAAGGA	0.547													14	26	---	---	---	---	PASS	A	208841613	A	A	208841613	2	1	4	1	0	0	0	0	0	0	0	1	12082	1161	41	2		2	PLEKHM3	2	208841613	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2361202	208841613	34357760	653	1244										
CPS1	1373	broad.mit.edu	37	chr2	211513227	211513227	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggaatttgcaaagtctgtgGactacccctgcttgttgagg	12	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:211513227G>A	uc002vee.3	+	27	3499	c.3367G>A	c.(3367-3369)GAC>AAC	p.D1123N	CPS1_uc010fur.2_Missense_Mutation_p.D1129N|CPS1_uc010fus.2_Missense_Mutation_p.D672N	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1123	ATP-grasp 2.				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)		AAAGTCTGTGGACTACCCCTG	0.323													21	42	---	---	---	---	PASS	A	211513227	A	A	211513227	3	1	4	1	0	0	0	0	1	0	0	0	3823	1174	41	2	3495	2	CPS1	2	211513227	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2671614	211513227	31686146	654	1245										
ERBB4	2066	broad.mit.edu	37	chr2	212285228	212285228	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggatgttgaaagcctgagGgaccaagtactcctcagcat	12	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:212285228G>A	uc002veg.1	-	25	3171	c.3073C>T	c.(3073-3075)CCT>TCT	p.P1025S	ERBB4_uc002veh.1_Missense_Mutation_p.P1025S|ERBB4_uc010zji.1_Missense_Mutation_p.P1015S|ERBB4_uc010zjj.1_Missense_Mutation_p.P1015S	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1025	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		AAAGCCTGAGGGACCAAGTAC	0.403										TSP Lung(8;0.080)			15	19	---	---	---	---	PASS	A	212285228	A	A	212285228	3	1	4	1	0	0	0	0	1	0	0	0	5209	1232	43	3	869	3	ERBB4	2	212285228	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	772001	212285228	30914145	655	1246										
SPAG16	79582	broad.mit.edu	37	chr2	214878802	214878802	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctatatgggatgcaagaacaGtaagcaaatcattcactttt	7	7	2	1	rs148142146		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:214878802G>A	uc002veq.2	+	13	1619	c.1527_splice	c.e13+1	p.T509_splice	SPAG16_uc010fuz.1_Splice_Site_p.T360_splice|SPAG16_uc002ver.2_Splice_Site_p.T455_splice|SPAG16_uc010zjk.1_Splice_Site_p.T415_splice	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1						cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		TGCAAGAACAGTAAGCAAATC	0.383													23	41	---	---	---	---	PASS	A	214878802	A	A	214878802	5	1	4	1	0	0	0	0	0	0	1	0	14978	1043	36	3	1594	3	SPAG16	2	214878802	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	2593574	214878802	28320571	656	1247										
VWC2L	402117	broad.mit.edu	37	chr2	215279217	215279217	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacccaaagtgtactaaagtGgaacacaatggatgctgtcc	9	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:215279217G>A	uc002vet.2	+	2	430	c.300G>A	c.(298-300)GTG>GTA	p.V100V	VWC2L_uc010zjl.1_Silent_p.V100V	NM_001080500	NP_001073969	B2RUY7	VWC2L_HUMAN	von Willebrand factor C domain-containing	100	VWFC 1.					extracellular region					0						GTACTAAAGTGGAACACAATG	0.413													9	30	---	---	---	---	PASS	A	215279217	A	A	215279217	2	1	4	1	0	0	0	0	0	0	0	1	17241	1335	47	3		3	VWC2L	2	215279217	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	400415	215279217	27920156	657	1248										
ABCA12	26154	broad.mit.edu	37	chr2	215831648	215831648	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgttgaggtaagctggaagGgagtgatagccttctggatc	15	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:215831648G>A	uc002vew.2	-	39	6028	c.5808C>T	c.(5806-5808)TCC>TCT	p.S1936S	ABCA12_uc002vev.2_Silent_p.S1618S|ABCA12_uc010zjn.1_Silent_p.S863S	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1936					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		AAGCTGGAAGGGAGTGATAGC	0.383													14	23	---	---	---	---	PASS	A	215831648	A	A	215831648	2	1	4	1	0	0	0	0	0	0	0	1	30	1219	43	3		3	ABCA12	2	215831648	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	552431	215831648	27367725	658	1249										
XRCC5	7520	broad.mit.edu	37	chr2	216983789	216983789	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagaagtttgagaagaggcAtattgaaatattcactgacc	9	5	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:216983789A>C	uc002vfy.2	+	5	532	c.392A>C	c.(391-393)CAT>CCT	p.H131P	XRCC5_uc002vfz.2_Missense_Mutation_p.H17P	NM_021141	NP_066964	P13010	XRCC5_HUMAN	ATP-dependent DNA helicase II	131					double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|provirus integration|telomere maintenance|transcription, DNA-dependent	Ku70:Ku80 complex|nonhomologous end joining complex|nuclear telomere cap complex|nucleoplasm	ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|telomeric DNA binding|transcription regulatory region DNA binding			lung(1)|kidney(1)	2		Renal(323;0.0328)		Epithelial(149;9.78e-06)|all cancers(144;0.000632)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.0117)		GAGAAGAGGCATATTGAAATA	0.343								Direct_reversal_of_damage|NHEJ					10	25	---	---	---	---	PASS	C	216983789	C	C	216983789	3	2	4	1	0	0	0	0	1	0	0	0	17453	217	8	5	410	5	XRCC5	2	216983789	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	1152141	216983789	26215584	659	1250										
VIL1	7429	broad.mit.edu	37	chr2	219292727	219292727	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttctggcatgaagcacgtGgagaccaactcctatgacgt	11	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:219292727G>A	uc002via.2	+	5	452	c.387G>A	c.(385-387)GTG>GTA	p.V129V	VIL1_uc010zke.1_Intron|VIL1_uc002vib.2_Silent_p.V129V|VIL1_uc002vic.1_Silent_p.V129V	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1	129	Core.			GMKHV->AMHKTS: Inhibits actin-severing activity and motility of the S.flexneri, does not inhibit activities regarding actin nucleation, actin capping and actin bundling, lamellipodium or ruffle localization and cell morphology; when associated with 86-N--E-91.	actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGAAGCACGTGGAGACCAACT	0.617													40	89	---	---	---	---	PASS	A	219292727	A	A	219292727	2	1	4	1	0	0	0	0	0	0	0	1	17161	1335	47	3		3	VIL1	2	219292727	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2308938	219292727	23906646	660	1251										
STK36	27148	broad.mit.edu	37	chr2	219562286	219562286	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaagtatcctcatgtccatCctgaagcatctgctttgccc	8	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:219562286C>T	uc002viu.2	+	24	3128	c.2862C>T	c.(2860-2862)ATC>ATT	p.I954I	STK36_uc002viv.2_Silent_p.I933I|STK36_uc002viw.2_Silent_p.I132I|STK36_uc002vix.2_Missense_Mutation_p.P16S	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	954					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		TCATGTCCATCCTGAAGCATC	0.577													20	44	---	---	---	---	PASS	T	219562286	T	T	219562286	2	4	4	1	0	0	0	0	0	0	0	1	15301	845	30	2		2	STK36	2	219562286	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	269559	219562286	23637087	661	1252										
TTLL4	9654	broad.mit.edu	37	chr2	219617859	219617859	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtagatctgctccggagttGgtgctacaaagggttccaca	12	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:219617859G>A	uc002viy.2	+	18	3579	c.3209G>A	c.(3208-3210)TGG>TAG	p.W1070*	TTLL4_uc010zkl.1_Nonsense_Mutation_p.W905*|TTLL4_uc010fvx.2_Nonsense_Mutation_p.W1006*|TTLL4_uc010zkm.1_3'UTR	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	1070					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)		CTCCGGAGTTGGTGCTACAAA	0.517													81	171	---	---	---	---	PASS	A	219617859	A	A	219617859	4	1	4	1	0	0	0	0	0	1	0	0	16726	1357	47	3	3271	3	TTLL4	2	219617859	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	55573	219617859	23581514	662	1253										
PRKAG3	53632	broad.mit.edu	37	chr2	219692566	219692566	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccactcacccctccaggtCtcaatcttatgttgttcaat	4	16	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:219692566C>T	uc002vjb.1	-	7	829	c.810G>A	c.(808-810)GAG>GAA	p.E270E	PRKAG3_uc010zkn.1_Intron|PRKAG3_uc010fvy.1_Missense_Mutation_p.R312K	NM_017431	NP_059127	Q9UGI9	AAKG3_HUMAN	AMP-activated protein kinase, non-catalytic	270					cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|intracellular protein kinase cascade|regulation of fatty acid oxidation	cytosol	AMP-activated protein kinase activity|protein kinase binding			ovary(1)|lung(1)	2		Renal(207;0.0474)		Epithelial(149;4.35e-07)|all cancers(144;8.96e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCCTCCAGGTCTCAATCTTAT	0.562													11	18	---	---	---	---	PASS	T	219692566	T	T	219692566	2	4	4	1	0	0	0	0	0	0	0	1	12502	912	32	2		2	PRKAG3	2	219692566	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	74707	219692566	23506807	663	1254										
CCDC108	255101	broad.mit.edu	37	chr2	219888009	219888009	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgctcagagaccctccactCgaactgcaggggcagacgcg	12	15	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:219888009C>T	uc002vjl.1	-	16	2824	c.2740G>A	c.(2740-2742)GAG>AAG	p.E914K		NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	914	MSP.					integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACCCTCCACTCGAACTGCAGG	0.632													5	14	---	---	---	---	PASS	T	219888009	T	T	219888009	3	4	4	1	0	0	0	0	1	0	0	0	2743	893	31	2	3117	2	CCDC108	2	219888009	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	195443	219888009	23311364	664	1255										
CCDC108	255101	broad.mit.edu	37	chr2	219894862	219894862	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcacgatgccatgggccgtGgggcatgagaaggcctggtc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:219894862G>A	uc002vjl.1	-	10	1314	c.1230C>T	c.(1228-1230)CCC>CCT	p.P410P	CCDC108_uc010fwa.1_5'UTR|CCDC108_uc010zkp.1_Silent_p.P399P|CCDC108_uc010zkq.1_Silent_p.P345P	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	410						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CATGGGCCGTGGGGCATGAGA	0.552											OREG0015211	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	42	---	---	---	---	PASS	A	219894862	A	A	219894862	2	1	4	1	0	0	0	0	0	0	0	1	2743	1335	47	3		3	CCDC108	2	219894862	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	6853	219894862	23304511	665	1256	37	2								
CCDC108	255101	broad.mit.edu	37	chr2	219894863	219894863	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcacgatgccatgggccgtgGggcatgagaaggcctggtct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:219894863G>A	uc002vjl.1	-	10	1313	c.1229C>T	c.(1228-1230)CCC>CTC	p.P410L	CCDC108_uc010fwa.1_5'UTR|CCDC108_uc010zkp.1_Missense_Mutation_p.P399L|CCDC108_uc010zkq.1_Missense_Mutation_p.P345L	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	410						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ATGGGCCGTGGGGCATGAGAA	0.557											OREG0015211	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	41	---	---	---	---	PASS	A	219894863	A	A	219894863	3	1	4	1	0	0	0	0	1	0	0	0	2743	1232	43	3	4652	3	CCDC108	2	219894863	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	219894863	23304510	666	1257	37	2								
DNAJB2	3300	broad.mit.edu	37	chr2	220147635	220147635	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctttaccttctcttcctcCttccctgggcactccggtaa	5	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:220147635C>T	uc002vkx.1	+	6	666	c.429C>T	c.(427-429)TCC>TCT	p.S143S	DNAJB2_uc002vkw.1_Silent_p.S143S|DNAJB2_uc002vky.2_5'UTR|DNAJB2_uc010zlb.1_5'UTR	NM_006736	NP_006727	P25686	DNJB2_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 2	143					ER-associated protein catabolic process|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of inclusion body assembly|negative regulation of protein deubiquitination|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding|response to unfolded protein	inclusion body	heat shock protein binding|Hsp70 protein binding|polyubiquitin binding|proteasome binding|protein binding|unfolded protein binding				0		Renal(207;0.0474)		Epithelial(149;1.97e-06)|all cancers(144;0.00028)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCTCTTCCTCCTTCCCTGGGC	0.552													13	42	---	---	---	---	PASS	T	220147635	T	T	220147635	2	4	4	1	0	0	0	0	0	0	0	1	4620	668	24	3		3	DNAJB2	2	220147635	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	252772	220147635	23051738	667	1258										
DES	1674	broad.mit.edu	37	chr2	220286069	220286069	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctctcctgcagaacgattCcctgatgaggcagatgcggg	12	13	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:220286069C>T	uc002vll.2	+	6	1117	c.1031C>T	c.(1030-1032)TCC>TTC	p.S344F		NM_001927	NP_001918	P17661	DESM_HUMAN	desmin	344	Rod.|Coil 2B.				cytoskeleton organization|muscle filament sliding|regulation of heart contraction	cytosol|Z disc	protein binding|structural constituent of cytoskeleton			central_nervous_system(2)	2		Renal(207;0.0183)		Epithelial(149;5.25e-07)|all cancers(144;0.000103)|Lung(261;0.00533)|LUSC - Lung squamous cell carcinoma(224;0.008)		CAGAACGATTCCCTGATGAGG	0.582													19	47	---	---	---	---	PASS	T	220286069	T	T	220286069	3	4	4	1	0	0	0	0	1	0	0	0	4449	855	30	2	1053	2	DES	2	220286069	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	138434	220286069	22913304	668	1259										
ACCN4	55515	broad.mit.edu	37	chr2	220396842	220396842	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agacctttgtgtcctgccagGaacagcgggtgagcatctcc	12	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:220396842G>A	uc002vma.2	+	3	1242	c.1228G>A	c.(1228-1230)GAA>AAA	p.E410K	ACCN4_uc010fwi.1_Missense_Mutation_p.E410K|ACCN4_uc010fwj.1_Missense_Mutation_p.E410K|ACCN4_uc002vly.1_Missense_Mutation_p.E410K|ACCN4_uc002vlz.2_Missense_Mutation_p.E410K|ACCN4_uc002vmb.2_Missense_Mutation_p.E64K	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	410	Extracellular (Potential).					integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		GTCCTGCCAGGAACAGCGGGT	0.622													18	41	---	---	---	---	PASS	A	220396842	A	A	220396842	3	1	4	1	0	0	0	0	1	0	0	0	131	1175	41	2	1238	2	ACCN4	2	220396842	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	110773	220396842	22802531	669	1260										
OBSL1	23363	broad.mit.edu	37	chr2	220432668	220432668	+	Silent	SNP	G	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttccaggacgtcgagcttccGgggcaggcgcttcaggatgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:220432668G>T	uc010fwk.2	-	3	1363	c.1306C>A	c.(1306-1308)CGG>AGG	p.R436R	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Silent_p.R436R|OBSL1_uc002vmj.2_Silent_p.R23R	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	436					cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		TCGAGCTTCCGGGGCAGGCGC	0.642													11	19	---	---	---	---	PASS	T	220432668	T	T	220432668	2	4	4	1	0	0	0	0	0	0	0	1	10813	1115	39	1		1	OBSL1	2	220432668	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	35826	220432668	22766705	670	1261	38	2								
OBSL1	23363	broad.mit.edu	37	chr2	220432669	220432669	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccaggacgtcgagcttccgGggcaggcgcttcaggatggg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:220432669G>A	uc010fwk.2	-	3	1362	c.1305C>T	c.(1303-1305)CCC>CCT	p.P435P	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Silent_p.P435P|OBSL1_uc002vmj.2_Silent_p.P22P	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	435					cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		CGAGCTTCCGGGGCAGGCGCT	0.642													11	17	---	---	---	---	PASS	A	220432669	A	A	220432669	2	1	4	1	0	0	0	0	0	0	0	1	10813	1219	43	3		3	OBSL1	2	220432669	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	220432669	22766704	671	1262	38	2								
MOGAT1	116255	broad.mit.edu	37	chr2	223559194	223559194	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatcactggatgctcatcctGgaaagttcactctgttcatc	7	11	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:223559194G>A	uc010fws.1	+	4	640	c.592G>A	c.(592-594)GGA>AGA	p.G198R	MOGAT1_uc010fwt.1_Missense_Mutation_p.G158R	NM_058165	NP_477513	Q96PD6	MOGT1_HUMAN	monoacylglycerol O-acyltransferase 1	198					glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			breast(1)	1		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;2.06e-07)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0105)		TGCTCATCCTGGAAAGTTCAC	0.448													17	29	---	---	---	---	PASS	A	223559194	A	A	223559194	3	1	4	1	0	0	0	0	1	0	0	0	9694	1349	47	3	606	3	MOGAT1	2	223559194	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3126525	223559194	19640179	672	1263										
SCG2	7857	broad.mit.edu	37	chr2	224463020	224463020	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttccccattttgcccattCtgtaacctcccacttcctgc	3	18	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:224463020C>T	uc002vnm.2	-	2	1114	c.981G>A	c.(979-981)CAG>CAA	p.Q327Q		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	327					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		TTTGCCCATTCTGTAACCTCC	0.403													26	72	---	---	---	---	PASS	T	224463020	T	T	224463020	2	4	4	1	0	0	0	0	0	0	0	1	13891	912	32	2		2	SCG2	2	224463020	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	903826	224463020	18736353	673	1264										
DOCK10	55619	broad.mit.edu	37	chr2	225662655	225662655	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaagacccttttcatcaatGaattttgacagtcacattgt	5	9	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:225662655G>A	uc010fwz.1	-	42	4777	c.4538C>T	c.(4537-4539)TCA>TTA	p.S1513L	DOCK10_uc002vob.2_Missense_Mutation_p.S1507L|DOCK10_uc002voa.2_Missense_Mutation_p.S169L|DOCK10_uc002voc.2_Missense_Mutation_p.S367L	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1513							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		TTTCATCAATGAATTTTGACA	0.343													28	46	---	---	---	---	PASS	A	225662655	A	A	225662655	3	1	4	1	0	0	0	0	1	0	0	0	4685	1294	45	2	2082	2	DOCK10	2	225662655	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1199635	225662655	17536718	674	1265										
DOCK10	55619	broad.mit.edu	37	chr2	225710316	225710316	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtgataaaaagaaaacaaaAtatggtgtttctcatggagt	9	4	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:225710316A>G	uc010fwz.1	-	20	2518	c.2279T>C	c.(2278-2280)ATT>ACT	p.I760T	DOCK10_uc002vob.2_Missense_Mutation_p.I754T	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	760	DHR-1.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		AGAAAACAAAATATGGTGTTT	0.388													31	70	---	---	---	---	PASS	G	225710316	G	G	225710316	3	3	4	1	0	0	0	0	1	0	0	0	4685	101	4	5	4429	5	DOCK10	2	225710316	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	47661	225710316	17489057	675	1266										
DOCK10	55619	broad.mit.edu	37	chr2	225714262	225714262	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attctgagagtggtgcagaaCtgctgtgtaggcggctgagg	17	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:225714262C>T	uc010fwz.1	-	19	2436	c.2197G>A	c.(2197-2199)GTT>ATT	p.V733I	DOCK10_uc002vob.2_Missense_Mutation_p.V727I	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	733	DHR-1.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		TGGTGCAGAACTGCTGTGTAG	0.463													3	11	---	---	---	---	PASS	T	225714262	T	T	225714262	3	4	4	1	0	0	0	0	1	0	0	0	4685	565	20	3	4515	3	DOCK10	2	225714262	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3946	225714262	17485111	676	1267										
KIAA1486	57624	broad.mit.edu	37	chr2	226447151	226447151	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacccccgctgctggtatttCcccccgcccccgtgcattgc	9	20	0	0	rs138393299		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:226447151C>T	uc002voe.2	+	4	1193	c.1018C>T	c.(1018-1020)CCC>TCC	p.P340S	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.P110S	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	340	Pro-rich.									ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		GCTGGTATTTCCCCCCGCCCC	0.632													7	11	---	---	---	---	PASS	T	226447151	T	T	226447151	3	4	4	1	0	0	0	0	1	0	0	0	8237	855	30	2	1028	2	KIAA1486	2	226447151	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	732889	226447151	16752222	677	1268										
COL4A3	1285	broad.mit.edu	37	chr2	228148505	228148505	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagatggagtgattgggatGatgggctttcctggagccat	16	5	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:228148505G>A	uc002vom.1	+	33	2841	c.2679G>A	c.(2677-2679)ATG>ATA	p.M893I	COL4A3_uc002von.1_Missense_Mutation_p.M893I|COL4A3_uc002voo.1_Missense_Mutation_p.M893I|COL4A3_uc002vop.1_Missense_Mutation_p.M893I|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	893	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)		TGATTGGGATGATGGGCTTTC	0.463													18	56	---	---	---	---	PASS	A	228148505	A	A	228148505	3	1	4	1	0	0	0	0	1	0	0	0	3691	1290	45	2	2809	2	COL4A3	2	228148505	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1701354	228148505	15050868	678	1269										
COL4A3	1285	broad.mit.edu	37	chr2	228157944	228157944	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggtgatatgggaaagaaagGagaaatggggcaacctggcc	17	5	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:228157944G>A	uc002vom.1	+	38	3410	c.3248G>A	c.(3247-3249)GGA>GAA	p.G1083E	COL4A3_uc002von.1_Missense_Mutation_p.G1083E|COL4A3_uc002voo.1_Missense_Mutation_p.G1083E|COL4A3_uc002vop.1_Missense_Mutation_p.G1083E|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	1083	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)		GGAAAGAAAGGAGAAATGGGG	0.512													13	22	---	---	---	---	PASS	A	228157944	A	A	228157944	3	1	4	1	0	0	0	0	1	0	0	0	3691	1174	41	2	3398	2	COL4A3	2	228157944	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	9439	228157944	15041429	679	1270										
COL4A3	1285	broad.mit.edu	37	chr2	228172619	228172619	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtacaaggaaatcaacgagcCcacggacaagaccttggtaa	10	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:228172619C>T	uc002vom.1	+	48	4608	c.4446C>T	c.(4444-4446)GCC>GCT	p.A1482A	COL4A3_uc002von.1_Silent_p.A1482A|COL4A3_uc002voo.1_Silent_p.A1482A|COL4A3_uc002vop.1_Intron|uc002voq.1_Intron|uc002vor.1_Intron|COL4A3_uc010fxf.1_5'UTR	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	1482	Required for the anti-angiogenic activity of tumstatin.|Collagen IV NC1.				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)		ATCAACGAGCCCACGGACAAG	0.478													14	33	---	---	---	---	PASS	T	228172619	T	T	228172619	2	4	4	1	0	0	0	0	0	0	0	1	3691	610	22	3		3	COL4A3	2	228172619	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	14675	228172619	15026754	680	1271										
COL4A3	1285	broad.mit.edu	37	chr2	228175576	228175576	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aattccgagccagcccatttCtagaatgtcatggaagagga	10	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:228175576C>T	uc002vom.1	+	51	5002	c.4840C>T	c.(4840-4842)CTA>TTA	p.L1614L	COL4A3_uc002von.1_Intron|COL4A3_uc002voo.1_Intron|COL4A3_uc002vop.1_Intron|uc002voq.1_Intron|uc002vor.1_Intron|COL4A3_uc010fxf.1_Silent_p.L30L	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	1614	Required for the anti-tumor cell activity of tumstatin.|Collagen IV NC1.				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)		CAGCCCATTTCTAGAATGTCA	0.473													16	47	---	---	---	---	PASS	T	228175576	T	T	228175576	2	4	4	1	0	0	0	0	0	0	0	1	3691	912	32	2		2	COL4A3	2	228175576	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2957	228175576	15023797	681	1272										
C2orf83	56918	broad.mit.edu	37	chr2	228476363	228476363	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggctctagtttctcagatGgacttaatactgaaaaaaga	8	6	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:228476363G>A	uc002vph.2	-	3	435	c.200C>T	c.(199-201)CCA>CTA	p.P67L	C2orf83_uc010zlu.1_3'UTR	NM_020161	NP_064546	Q53S99	CB083_HUMAN	hypothetical protein LOC56918 isoform 1	67						membrane	folic acid binding|reduced folate carrier activity				0						TTTCTCAGATGGACTTAATAC	0.423													17	35	---	---	---	---	PASS	A	228476363	A	A	228476363	3	1	4	1	0	0	0	0	1	0	0	0	2198	1348	47	3	256	3	C2orf83	2	228476363	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	300787	228476363	14723010	682	1273										
WDR69	164781	broad.mit.edu	37	chr2	228786214	228786214	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccagtgcctccaggttcttGaggggcacactgatgaaatc	12	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:228786214G>A	uc002vpn.1	+	12	1229	c.1150G>A	c.(1150-1152)GAG>AAG	p.E384K	WDR69_uc010zlw.1_Missense_Mutation_p.E369K|WDR69_uc002vpo.1_RNA	NM_178821	NP_849143	Q8N136	WDR69_HUMAN	WD repeat domain 69	384	WD 7.									breast(1)	1		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;1.22e-10)|all cancers(144;8.11e-08)|Lung(261;0.011)|LUSC - Lung squamous cell carcinoma(224;0.0148)		CCAGGTTCTTGAGGGGCACAC	0.438													28	38	---	---	---	---	PASS	A	228786214	A	A	228786214	3	1	4	1	0	0	0	0	1	0	0	0	17316	1291	45	2	1196	2	WDR69	2	228786214	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	309851	228786214	14413159	683	1274										
SPHKAP	80309	broad.mit.edu	37	chr2	228846570	228846570	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaaccagctgcacgacatCtagaaactaaaataaaacgg	7	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:228846570C>T	uc002vpq.2	-	12	5013	c.4966G>A	c.(4966-4968)GAT>AAT	p.D1656N	SPHKAP_uc002vpp.2_Missense_Mutation_p.D1627N|SPHKAP_uc010zlx.1_Silent_p.*1485*	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1656						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TGCACGACATCTAGAAACTAA	0.468													17	33	---	---	---	---	PASS	T	228846570	T	T	228846570	3	4	4	1	0	0	0	0	1	0	0	0	15047	913	32	2	140	2	SPHKAP	2	228846570	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	60356	228846570	14352803	684	1275										
SPHKAP	80309	broad.mit.edu	37	chr2	228881929	228881929	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgtccaatcctggctgctcCgtctggaggaggcactttct	11	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:228881929C>T	uc002vpq.2	-	7	3688	c.3641G>A	c.(3640-3642)CGG>CAG	p.R1214Q	SPHKAP_uc002vpp.2_Missense_Mutation_p.R1214Q|SPHKAP_uc010zlx.1_Missense_Mutation_p.R1214Q	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1214						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CTGGCTGCTCCGTCTGGAGGA	0.577													22	41	---	---	---	---	PASS	T	228881929	T	T	228881929	3	4	4	1	0	0	0	0	1	0	0	0	15047	652	23	1	1485	1	SPHKAP	2	228881929	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	35359	228881929	14317444	685	1276										
SPHKAP	80309	broad.mit.edu	37	chr2	228882995	228882995	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaccgttggggacctttgtcCttcggaagaggctctgcatt	13	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:228882995C>T	uc002vpq.2	-	7	2622	c.2575G>A	c.(2575-2577)GGA>AGA	p.G859R	SPHKAP_uc002vpp.2_Missense_Mutation_p.G859R|SPHKAP_uc010zlx.1_Missense_Mutation_p.G859R	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	859						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GACCTTTGTCCTTCGGAAGAG	0.488													194	440	---	---	---	---	PASS	T	228882995	T	T	228882995	3	4	4	1	0	0	0	0	1	0	0	0	15047	690	24	3	2551	3	SPHKAP	2	228882995	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1066	228882995	14316378	686	1277										
SPHKAP	80309	broad.mit.edu	37	chr2	228884579	228884579	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcctgtgatttttccatttGacctttaaaagcttctgaat	6	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:228884579G>A	uc002vpq.2	-	7	1038	c.991C>T	c.(991-993)CAA>TAA	p.Q331*	SPHKAP_uc002vpp.2_Nonsense_Mutation_p.Q331*|SPHKAP_uc010zlx.1_Nonsense_Mutation_p.Q331*	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	331						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TTTTCCATTTGACCTTTAAAA	0.428													27	66	---	---	---	---	PASS	A	228884579	A	A	228884579	4	1	4	1	0	0	0	0	0	1	0	0	15047	1299	45	2	4135	2	SPHKAP	2	228884579	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1584	228884579	14314794	687	1278										
SP140	11262	broad.mit.edu	37	chr2	231157413	231157413	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaaatggttcacccccacGgaatttgaaatcaaaggagg	11	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:231157413G>A	uc002vql.2	+	20	1993	c.1878G>A	c.(1876-1878)ACG>ACA	p.T626T	SP140_uc010zma.1_RNA|SP140_uc002vqn.2_Silent_p.T512T|SP140_uc002vqm.2_Silent_p.T566T|SP140_uc010fxl.2_Silent_p.T599T	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	626	SAND.				defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		TCACCCCCACGGAATTTGAAA	0.507													30	62	---	---	---	---	PASS	A	231157413	A	A	231157413	2	1	4	1	0	0	0	0	0	0	0	1	14962	1103	39	1		1	SP140	2	231157413	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2272834	231157413	12041960	688	1279										
SP140L	93349	broad.mit.edu	37	chr2	231256845	231256845	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actgaggatggaaaatggttCacccccatggaatttgaaat	10	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:231256845C>T	uc010fxm.1	+	12	1099	c.1008C>T	c.(1006-1008)TTC>TTT	p.F336F	SP140L_uc010fxo.1_Silent_p.F108F	NM_138402	NP_612411	Q9H930	LY10L_HUMAN	SP140 nuclear body protein-like	336	SAND.					nucleus	DNA binding|metal ion binding			central_nervous_system(1)	1						GAAAATGGTTCACCCCCATGG	0.527													29	35	---	---	---	---	PASS	T	231256845	T	T	231256845	2	4	4	1	0	0	0	0	0	0	0	1	14963	825	29	2		2	SP140L	2	231256845	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	99432	231256845	11942528	689	1280										
HTR2B	3357	broad.mit.edu	37	chr2	231973782	231973782	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgttcttcgcataagtgtttCatcacctgagttgggcagag	11	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:231973782C>T	uc002vro.2	-	4	1400	c.895G>A	c.(895-897)GAA>AAA	p.E299K	PSMD1_uc002vrm.1_Intron|PSMD1_uc010fxu.1_Intron|PSMD1_uc002vrn.1_Intron|HTR2B_uc010fxv.2_Missense_Mutation_p.E232K	NM_000867	NP_000858	P41595	5HT2B_HUMAN	5-hydroxytryptamine (serotonin) receptor 2B	299	Cytoplasmic (By similarity).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cardiac muscle hypertrophy|cellular response to calcium ion|cellular response to temperature stimulus|cGMP biosynthetic process|embryonic morphogenesis|ERK1 and ERK2 cascade|G-protein coupled receptor internalization|heart morphogenesis|intestine smooth muscle contraction|negative regulation of apoptosis|negative regulation of autophagy|neural crest cell migration|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|phosphorylation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of cytokine secretion|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAP kinase activity|positive regulation of nitric-oxide synthase activity|protein kinase C signaling cascade|regulation of behavior|release of sequestered calcium ion into cytosol|response to drug|vasoconstriction	cytoplasm|integral to membrane|plasma membrane	calcium channel activity|drug binding|G-protein alpha-subunit binding|phosphatidylinositol phospholipase C activity|Ras GTPase activator activity|serotonin binding|serotonin receptor activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;4.48e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0141)	Chlorprothixene(DB01239)|Eletriptan(DB00216)|Fenfluramine(DB00574)|Methotrimeprazine(DB01403)|Minaprine(DB00805)|Quetiapine(DB01224)|Sumatriptan(DB00669)|Tegaserod(DB01079)|Triflupromazine(DB00508)	ATAAGTGTTTCATCACCTGAG	0.468													38	74	---	---	---	---	PASS	T	231973782	T	T	231973782	3	4	4	1	0	0	0	0	1	0	0	0	7442	835	29	2	554	2	HTR2B	2	231973782	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	716937	231973782	11225591	690	1281										
CHRNG	1146	broad.mit.edu	37	chr2	233407197	233407197	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaagatggccagaccatcGagtggattttcattgaccct	11	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:233407197G>A	uc002vsx.1	+	6	592	c.571G>A	c.(571-573)GAG>AAG	p.E191K	CHRNG_uc010fye.1_Missense_Mutation_p.E139K	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	191	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)		CCAGACCATCGAGTGGATTTT	0.572													8	33	---	---	---	---	PASS	A	233407197	A	A	233407197	3	1	4	1	0	0	0	0	1	0	0	0	3396	1059	37	2	593	2	CHRNG	2	233407197	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1433415	233407197	9792176	691	1282										
TRPM8	79054	broad.mit.edu	37	chr2	234846100	234846100	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaacacaccaaggaatttCctaccgacgcctttggggat	9	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:234846100C>T	uc002vvh.2	+	4	335	c.295C>T	c.(295-297)CCT>TCT	p.P99S	TRPM8_uc010fyj.2_5'UTR|TRPM8_uc002vvi.3_Missense_Mutation_p.P49S|TRPM8_uc002vvj.3_Missense_Mutation_p.P22S	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	99	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	CAAGGAATTTCCTACCGACGC	0.468													30	77	---	---	---	---	PASS	T	234846100	T	T	234846100	3	4	4	1	0	0	0	0	1	0	0	0	16589	855	30	2	305	2	TRPM8	2	234846100	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1438903	234846100	8353273	692	1283										
COL6A3	1293	broad.mit.edu	37	chr2	238266024	238266024	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctccaggtactccatctctcCctgggacaccctggtgtggg	11	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:238266024C>T	uc002vwl.2	-	23	6833	c.6548G>A	c.(6547-6549)GGG>GAG	p.G2183E	COL6A3_uc002vwo.2_Missense_Mutation_p.G1977E|COL6A3_uc010znj.1_Missense_Mutation_p.G1576E|COL6A3_uc002vwp.1_5'Flank	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2183	Triple-helical region.|Collagen-like 3.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TCCATCTCTCCCTGGGACACC	0.498													72	157	---	---	---	---	PASS	T	238266024	T	T	238266024	3	4	4	1	0	0	0	0	1	0	0	0	3701	623	22	3	3073	3	COL6A3	2	238266024	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3419924	238266024	4933349	693	1284										
COL6A3	1293	broad.mit.edu	37	chr2	238289675	238289675	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaggagtcgaaagcgatctCttccagctcagcctgatcgg	13	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:238289675C>T	uc002vwl.2	-	5	2065	c.1780G>A	c.(1780-1782)GAG>AAG	p.E594K	COL6A3_uc002vwo.2_Missense_Mutation_p.E388K|COL6A3_uc010znj.1_Missense_Mutation_p.E187K|COL6A3_uc002vwq.2_Missense_Mutation_p.E388K|COL6A3_uc002vwr.2_Missense_Mutation_p.E187K|COL6A3_uc010znk.1_Missense_Mutation_p.E594K	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	594	VWFA 3.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AAAGCGATCTCTTCCAGCTCA	0.582													15	25	---	---	---	---	PASS	T	238289675	T	T	238289675	3	4	4	1	0	0	0	0	1	0	0	0	3701	922	32	2	7960	2	COL6A3	2	238289675	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	23651	238289675	4909698	694	1285										
RBM44	375316	broad.mit.edu	37	chr2	238725710	238725710	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaagtcaaattgacttttCctgatgatgactggaattct	8	6	2	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:238725710C>T	uc002vxi.3	+	3	283	c.151C>T	c.(151-153)CCT>TCT	p.P51S		NM_001080504	NP_001073973	Q6ZP01	RBM44_HUMAN	RNA binding motif protein 44	50							nucleotide binding|RNA binding			ovary(4)	4		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;3.74e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.3e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000118)|Lung(119;0.0112)|LUSC - Lung squamous cell carcinoma(224;0.0266)		ATTGACTTTTCCTGATGATGA	0.294													20	40	---	---	---	---	PASS	T	238725710	T	T	238725710	3	4	4	1	0	0	0	0	1	0	0	0	13138	855	30	2	157	2	RBM44	2	238725710	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	436035	238725710	4473663	695	1286										
PER2	8864	broad.mit.edu	37	chr2	239159302	239159302	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctcactttcttccataccAgtgttcatttttgctttgtg	6	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:239159302A>T	uc002vyc.2	-	21	3594	c.3357T>A	c.(3355-3357)ACT>ACA	p.T1119T	PER2_uc010znv.1_Silent_p.T1119T	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	1119					circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		CTTCCATACCAGTGTTCATTT	0.438													8	26	---	---	---	---	PASS	T	239159302	T	T	239159302	2	4	4	1	0	0	0	0	0	0	0	1	11730	175	7	5		5	PER2	2	239159302	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	433592	239159302	4040071	696	1287										
PER2	8864	broad.mit.edu	37	chr2	239161815	239161815	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggggatcgaggtccggctgGggaactcaggctgtgaggca	19	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:239161815G>A	uc002vyc.2	-	19	3086	c.2849C>T	c.(2848-2850)CCC>CTC	p.P950L	PER2_uc010znv.1_Missense_Mutation_p.P950L	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	950	Pro-rich.				circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		GGTCCGGCTGGGGAACTCAGG	0.657													18	22	---	---	---	---	PASS	A	239161815	A	A	239161815	3	1	4	1	0	0	0	0	1	0	0	0	11730	1232	43	3	938	3	PER2	2	239161815	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2513	239161815	4037558	697	1288										
TRAF3IP1	26146	broad.mit.edu	37	chr2	239257465	239257465	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccagagactccagaaattcCtaatgagctttcatccaaca	6	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:239257465C>T	uc002vye.2	+	11	1462	c.1343C>T	c.(1342-1344)CCT>CTT	p.P448L	TRAF3IP1_uc002vyf.2_Missense_Mutation_p.P382L	NM_015650	NP_056465	Q8TDR0	MIPT3_HUMAN	TNF receptor-associated factor 3 interacting	448	DISC1-interaction domain.					cytoplasm|cytoskeleton	protein binding			ovary(1)	1		all_epithelial(40;3.22e-10)|Breast(86;0.000523)|Renal(207;0.00571)|Ovarian(221;0.156)|all_hematologic(139;0.182)		Epithelial(121;9.92e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.85e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.01e-07)|BRCA - Breast invasive adenocarcinoma(100;7.72e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0184)		CCAGAAATTCCTAATGAGCTT	0.403													25	75	---	---	---	---	PASS	T	239257465	T	T	239257465	3	4	4	1	0	0	0	0	1	0	0	0	16437	681	24	3	1385	3	TRAF3IP1	2	239257465	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	95650	239257465	3941908	698	1289										
HDAC4	9759	broad.mit.edu	37	chr2	240078360	240078360	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcactgacctgttttcctaaGagggaagtcatctttggcgt	11	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:240078360G>A	uc002vyk.3	-	7	1513	c.721C>T	c.(721-723)CTT>TTT	p.L241F	HDAC4_uc010fyz.1_Missense_Mutation_p.L236F|HDAC4_uc010zoa.1_Missense_Mutation_p.L236F|HDAC4_uc010fza.2_Missense_Mutation_p.L241F|HDAC4_uc010fyy.2_Missense_Mutation_p.L193F|HDAC4_uc010znz.1_Missense_Mutation_p.L124F|HDAC4_uc010fzb.1_5'Flank	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	241	Interaction with MEF2A.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		GTTTTCCTAAGAGGGAAGTCA	0.612													24	46	---	---	---	---	PASS	A	240078360	A	A	240078360	3	1	4	1	0	0	0	0	1	0	0	0	7009	942	33	2	2617	2	HDAC4	2	240078360	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	820895	240078360	3121013	699	1290										
ANKMY1	51281	broad.mit.edu	37	chr2	241465144	241465144	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagcaacattgggcttgaaGgactgggcggggtagtggag	18	6	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:241465144G>A	uc002vyz.1	-	6	1255	c.1026C>T	c.(1024-1026)TCC>TCT	p.S342S	ANKMY1_uc002vza.1_Silent_p.S201S|ANKMY1_uc010fzd.1_Silent_p.S431S|ANKMY1_uc002vzb.1_Silent_p.S201S|ANKMY1_uc002vzc.1_Silent_p.S201S|ANKMY1_uc002vzd.1_Silent_p.S201S|ANKMY1_uc010fze.1_Silent_p.S11S|ANKMY1_uc002vze.2_Silent_p.S103S	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	342							zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		TGGGCTTGAAGGACTGGGCGG	0.582													8	27	---	---	---	---	PASS	A	241465144	A	A	241465144	2	1	4	1	0	0	0	0	0	0	0	1	634	987	35	3		3	ANKMY1	2	241465144	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1386784	241465144	1734229	700	1291										
CAPN10	11132	broad.mit.edu	37	chr2	241536129	241536129	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagtggccaagaacaccaccCccggggcagccctgcctgcg	12	18	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:241536129C>T	uc002vzk.1	+	9	1697	c.1513C>T	c.(1513-1515)CCC>TCC	p.P505S	CAPN10_uc002vzl.1_Intron|CAPN10_uc002vzm.1_Intron|CAPN10_uc002vzn.1_Missense_Mutation_p.P377S|CAPN10_uc002vzo.1_Intron|CAPN10_uc010fzg.1_Intron|CAPN10_uc002vzp.1_Intron|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	505					actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		GAACACCACCCCCGGGGCAGC	0.662													5	20	---	---	---	---	PASS	T	241536129	T	T	241536129	3	4	4	1	0	0	0	0	1	0	0	0	2623	623	22	3	1547	3	CAPN10	2	241536129	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	70985	241536129	1663244	701	1292										
CAPN10	11132	broad.mit.edu	37	chr2	241536287	241536287	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccctggcccccgctgcgtCcgcatcactctgcatcagca	10	19	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:241536287C>T	uc002vzk.1	+	9	1855	c.1671C>T	c.(1669-1671)GTC>GTT	p.V557V	CAPN10_uc002vzl.1_Intron|CAPN10_uc002vzm.1_Intron|CAPN10_uc002vzn.1_Silent_p.V429V|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_Intron|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	557	Domain III 2.				actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		CCCGCTGCGTCCGCATCACTC	0.672													5	14	---	---	---	---	PASS	T	241536287	T	T	241536287	2	4	4	1	0	0	0	0	0	0	0	1	2623	842	30	2		2	CAPN10	2	241536287	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	158	241536287	1663086	702	1293										
KIF1A	547	broad.mit.edu	37	chr2	241689958	241689958	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcaggttgctcaggtacacGaaggccctggggagaagcag	16	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr2:241689958G>A	uc002vzy.2	-	26	2708	c.2562C>T	c.(2560-2562)TTC>TTT	p.F854F	KIF1A_uc010fzk.2_Silent_p.F955F|KIF1A_uc002vzz.1_Silent_p.F955F	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	854					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		TCAGGTACACGAAGGCCCTGG	0.647													8	18	---	---	---	---	PASS	A	241689958	A	A	241689958	2	1	4	1	0	0	0	0	0	0	0	1	8283	1049	37	2		2	KIF1A	2	241689958	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	153671	241689958	1509415	703	1294										
CNTN4	152330	broad.mit.edu	37	chr3	2908551	2908551	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtagaaaaatcagatgttggGaattatacctgtgtggttac	11	4	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:2908551G>A	uc003bpc.2	+	7	791	c.570G>A	c.(568-570)GGG>GGA	p.G190G	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Silent_p.G190G	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	190	Ig-like C2-type 2.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		CAGATGTTGGGAATTATACCT	0.408													30	17	---	---	---	---	PASS	A	2908551	A	A	2908551	2	1	4	1	0	0	0	0	0	0	0	1	3643	1161	41	2		2	CNTN4	3	2908551	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08		2908551	195113879	704	1295										
LRRN1	57633	broad.mit.edu	37	chr3	3887225	3887225	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcaacaatatgggcgagctCgtttctgtcgaccgctatgc	10	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:3887225C>T	uc003bpt.3	+	2	1661	c.900C>T	c.(898-900)CTC>CTT	p.L300L	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	300	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		TGGGCGAGCTCGTTTCTGTCG	0.453													42	31	---	---	---	---	PASS	T	3887225	T	T	3887225	2	4	4	1	0	0	0	0	0	0	0	1	9034	871	31	2		2	LRRN1	3	3887225	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	978674	3887225	194135205	705	1296										
GRM7	2917	broad.mit.edu	37	chr3	7620869	7620869	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatctccaaatcatttgctCcttgggatatagcattcttc	6	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:7620869C>T	uc003bqm.2	+	8	2550	c.2276C>T	c.(2275-2277)TCC>TTC	p.S759F	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.S759F|GRM7_uc003bql.2_Missense_Mutation_p.S759F|GRM7_uc003bqn.1_Missense_Mutation_p.S342F|GRM7_uc010hch.1_Missense_Mutation_p.S270F	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	759	Helical; Name=5; (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	ATCATTTGCTCCTTGGGATAT	0.448													37	24	---	---	---	---	PASS	T	7620869	T	T	7620869	3	4	4	1	0	0	0	0	1	0	0	0	6802	855	30	2	2306	2	GRM7	3	7620869	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3733644	7620869	190401561	706	1297										
SETD5	55209	broad.mit.edu	37	chr3	9517345	9517345	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctctcttccacgtcctattCcagccccgcccaccctgtgt	5	21	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:9517345C>T	uc003brt.2	+	23	4334	c.3899C>T	c.(3898-3900)TCC>TTC	p.S1300F	SETD5_uc003bru.2_Missense_Mutation_p.S1202F|SETD5_uc003brv.2_Missense_Mutation_p.S1189F|SETD5_uc010hck.2_Missense_Mutation_p.S782F|SETD5_uc003brx.2_Missense_Mutation_p.S969F	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	1300	Ser-rich.									ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		ACGTCCTATTCCAGCCCCGCC	0.552													34	24	---	---	---	---	PASS	T	9517345	T	T	9517345	3	4	4	1	0	0	0	0	1	0	0	0	14134	855	30	2	3981	2	SETD5	3	9517345	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1896476	9517345	188505085	707	1298										
CRELD1	78987	broad.mit.edu	37	chr3	9986197	9986197	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcattggggctgtggcggcCatgactggctactggttgtc	15	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:9986197C>T	uc003bug.2	+	11	1315	c.1197C>T	c.(1195-1197)GCC>GCT	p.A399A	CIDEC_uc003bto.2_Intron|CRELD1_uc003buf.2_3'UTR|CRELD1_uc003buh.2_Silent_p.A399A|CRELD1_uc003bui.2_Silent_p.A399A|CRELD1_uc003buj.2_RNA	NM_001077415	NP_001070883	Q96HD1	CREL1_HUMAN	cysteine-rich with EGF-like domains 1 isoform 3	399	Helical; (Potential).				cardiac septum development|endocardial cushion development	integral to membrane	calcium ion binding			ovary(1)	1						CTGTGGCGGCCATGACTGGCT	0.592													33	8	---	---	---	---	PASS	T	9986197	T	T	9986197	2	4	4	1	0	0	0	0	0	0	0	1	3866	581	21	3		3	CRELD1	3	9986197	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	468852	9986197	188036233	708	1299										
C3orf24	115795	broad.mit.edu	37	chr3	10146192	10146192	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcggatgggctggggcttCctgaccagtcctttgttgtt	15	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:10146192C>T	uc003buz.2	-	2	492	c.267G>A	c.(265-267)AGG>AGA	p.R89R	C3orf24_uc003bva.1_Silent_p.R89R	NM_173472	NP_775743	Q96PS1	CC024_HUMAN	hypothetical protein LOC115795	89											0				OV - Ovarian serous cystadenocarcinoma(96;0.196)		GCTGGGGCTTCCTGACCAGTC	0.532													27	20	---	---	---	---	PASS	T	10146192	T	T	10146192	2	4	4	1	0	0	0	0	0	0	0	1	2217	854	30	2		2	C3orf24	3	10146192	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	159995	10146192	187876238	709	1300										
TATDN2	9797	broad.mit.edu	37	chr3	10290945	10290945	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcacgtcggaagggtgtcccCgcaagcgcagctgcctccgg	15	15	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:10290945C>A	uc003bvg.2	+	2	642	c.61C>A	c.(61-63)CGC>AGC	p.R21S	TATDN2_uc003bvf.2_Missense_Mutation_p.R21S|TATDN2_uc011atr.1_Missense_Mutation_p.R21S|TATDN2_uc011ats.1_RNA|TATDN2_uc011att.1_RNA	NM_014760	NP_055575	Q93075	TATD2_HUMAN	TatD DNase domain containing 2	21						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding			pancreas(2)	2						AGGGTGTCCCCGCAAGCGCAG	0.682													5	25	---	---	---	---	PASS	A	10290945	A	A	10290945	3	1	4	1	0	0	0	0	1	0	0	0	15589	652	23	1	63	1	TATDN2	3	10290945	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	144753	10290945	187731485	710	1301										
TATDN2	9797	broad.mit.edu	37	chr3	10312277	10312277	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cattccaagaggagatgcctCcgcgtccttgtggaggacac	12	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:10312277C>T	uc003bvg.2	+	4	1992	c.1411C>T	c.(1411-1413)CCG>TCG	p.P471S	TATDN2_uc003bvf.2_Missense_Mutation_p.P471S|TATDN2_uc011atr.1_Missense_Mutation_p.P471S|TATDN2_uc011ats.1_RNA|TATDN2_uc011att.1_RNA	NM_014760	NP_055575	Q93075	TATD2_HUMAN	TatD DNase domain containing 2	471						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding			pancreas(2)	2						GGAGATGCCTCCGCGTCCTTG	0.527													21	21	---	---	---	---	PASS	T	10312277	T	T	10312277	3	4	4	1	0	0	0	0	1	0	0	0	15589	855	30	2	1421	2	TATDN2	3	10312277	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	21332	10312277	187710153	711	1302										
GHRL	51738	broad.mit.edu	37	chr3	10331778	10331778	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggactctctggtgttcaggGctcaggaagctggagcctgc	15	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:10331778G>A	uc010hdf.2	-	2	222	c.87C>T	c.(85-87)AGC>AGT	p.S29S	GHRLOS_uc011atx.1_Intron|GHRLOS_uc011aty.1_Intron|GHRLOS_uc011atz.1_Intron|GHRLOS_uc011aua.1_Intron|GHRLOS_uc010hdl.2_Intron|GHRLOS_uc011aub.1_Intron|GHRLOS_uc010hdm.2_Intron|GHRLOS_uc011auc.1_Intron|GHRLOS_uc011aud.1_Intron|GHRLOS_uc011aue.1_Intron|GHRLOS_uc011auf.1_Intron|GHRLOS_uc011aug.1_Intron|GHRLOS_uc011auh.1_Intron|GHRLOS_uc011aui.1_Intron|GHRLOS_uc011auj.1_Intron|GHRLOS_uc010hdn.2_Intron|GHRL_uc010hda.1_5'Flank|GHRL_uc010hdb.1_5'Flank|GHRL_uc003bvj.1_Silent_p.S29S|GHRL_uc003bvk.3_RNA|GHRL_uc010hdk.2_Intron|GHRL_uc010hdc.2_Intron|GHRL_uc010hdd.2_Intron|GHRL_uc010hde.2_Silent_p.S29S|GHRL_uc010hdi.2_Silent_p.S29S|GHRL_uc010hdh.2_Silent_p.S29S|GHRL_uc010hdj.2_Intron|GHRLOS_uc011auk.1_Intron	NM_016362	NP_057446	Q9UBU3	GHRL_HUMAN	ghrelin/obestatin isoform 1 preproprotein	29					actin polymerization or depolymerization|activation of MAPK activity|adult feeding behavior|cartilage development|cortisol secretion|decidualization|dendrite development|elevation of cytosolic calcium ion concentration|G-protein coupled receptor protein signaling pathway|glucose metabolic process|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of angiogenesis|negative regulation of circadian sleep/wake cycle, REM sleep|negative regulation of endothelial cell proliferation|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 circadian sleep/wake cycle, non-REM sleep|positive regulation of corticotropin secretion|positive regulation of cortisol secretion|positive regulation of growth hormone secretion|positive regulation of insulin secretion|positive regulation of synaptogenesis|response to estrogen stimulus	axon|endoplasmic reticulum lumen|extracellular space|stored secretory granule	ghrelin receptor binding|growth hormone-releasing hormone activity|protein tyrosine kinase activator activity			ovary(1)	1						GGTGTTCAGGGCTCAGGAAGC	0.483													6	6	---	---	---	---	PASS	A	10331778	A	A	10331778	2	1	4	1	0	0	0	0	0	0	0	1	6374	1194	42	3		3	GHRL	3	10331778	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	19501	10331778	187690652	712	1303										
MKRN2	23609	broad.mit.edu	37	chr3	12611664	12611664	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttccacagtcctcaccctCcttccgaggtcactgcatcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:12611664C>T	uc003bxd.2	+	3	306	c.250C>T	c.(250-252)CCT>TCT	p.P84S	MKRN2_uc003bxe.2_Missense_Mutation_p.P82S|MKRN2_uc011aus.1_Missense_Mutation_p.P41S	NM_014160	NP_054879	Q9H000	MKRN2_HUMAN	makorin ring finger protein 2	84						intracellular	ligase activity|nucleic acid binding|zinc ion binding				0						TCCTCACCCTCCTTCCGAGGT	0.537													15	12	---	---	---	---	PASS	T	12611664	T	T	12611664	3	4	4	1	0	0	0	0	1	0	0	0	9607	855	30	2	260	2	MKRN2	3	12611664	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2279886	12611664	185410766	713	1304	39	2								
MKRN2	23609	broad.mit.edu	37	chr3	12611665	12611665	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttccacagtcctcaccctcCttccgaggtcactgcatcca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:12611665C>T	uc003bxd.2	+	3	307	c.251C>T	c.(250-252)CCT>CTT	p.P84L	MKRN2_uc003bxe.2_Missense_Mutation_p.P82L|MKRN2_uc011aus.1_Missense_Mutation_p.P41L	NM_014160	NP_054879	Q9H000	MKRN2_HUMAN	makorin ring finger protein 2	84						intracellular	ligase activity|nucleic acid binding|zinc ion binding				0						CCTCACCCTCCTTCCGAGGTC	0.532													15	12	---	---	---	---	PASS	T	12611665	T	T	12611665	3	4	4	1	0	0	0	0	1	0	0	0	9607	681	24	3	261	3	MKRN2	3	12611665	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	12611665	185410765	714	1305	39	2								
C3orf20	84077	broad.mit.edu	37	chr3	14798904	14798904	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcccgcgaggggcgcagccCcaccaggtgggcggccttgc	18	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:14798904C>T	uc003byy.2	+	13	2371	c.1967C>T	c.(1966-1968)CCC>CTC	p.P656L	C3orf20_uc003byz.2_Missense_Mutation_p.P534L|C3orf20_uc003bza.2_Missense_Mutation_p.P534L|C3orf20_uc003bzb.1_Missense_Mutation_p.P157L|C3orf20_uc011avj.1_5'UTR	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	656						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						GGGCGCAGCCCCACCAGGTGG	0.667													7	11	---	---	---	---	PASS	T	14798904	T	T	14798904	3	4	4	1	0	0	0	0	1	0	0	0	2213	623	22	3	2009	3	C3orf20	3	14798904	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2187239	14798904	183223526	715	1306										
FGD5	152273	broad.mit.edu	37	chr3	14862877	14862877	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agccacggtccatctccttcCccagcgctgacacttcagac	7	18	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:14862877C>T	uc003bzc.2	+	1	2409	c.2299C>T	c.(2299-2301)CCC>TCC	p.P767S	FGD5_uc011avk.1_Missense_Mutation_p.P767S	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	767					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						CATCTCCTTCCCCAGCGCTGA	0.597													81	66	---	---	---	---	PASS	T	14862877	T	T	14862877	3	4	4	1	0	0	0	0	1	0	0	0	5836	623	22	3	2301	3	FGD5	3	14862877	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	63973	14862877	183159553	716	1307										
NR2C2	7182	broad.mit.edu	37	chr3	15064743	15064743	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagcccttcgatgtgcaacGggagaaaccaagcaattgtg	12	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:15064743G>T	uc003bzj.3	+	6	810	c.593G>T	c.(592-594)CGG>CTG	p.R198L	NR2C2_uc003bzi.2_Missense_Mutation_p.R217L	NM_003298	NP_003289	P49116	NR2C2_HUMAN	nuclear receptor subfamily 2, group C, member 2	198					cell differentiation|nervous system development|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						GATGTGCAACGGGAGAAACCA	0.423													4	46	---	---	---	---	PASS	T	15064743	T	T	15064743	3	4	4	1	0	0	0	0	1	0	0	0	10623	1116	39	1	672	1	NR2C2	3	15064743	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	201866	15064743	182957687	717	1308										
ZFYVE20	64145	broad.mit.edu	37	chr3	15131933	15131933	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggggttcccacatgtaagGatcaacccctccatagctga	9	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:15131933G>A	uc003bzm.1	-	5	876	c.262C>T	c.(262-264)CCT>TCT	p.P88S	ZFYVE20_uc010hek.1_Missense_Mutation_p.P88S|ZFYVE20_uc011avn.1_Missense_Mutation_p.P88S	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	88					blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						CACATGTAAGGATCAACCCCT	0.333													40	27	---	---	---	---	PASS	A	15131933	A	A	15131933	3	1	4	1	0	0	0	0	1	0	0	0	17663	1174	41	2	2132	2	ZFYVE20	3	15131933	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	67190	15131933	182890497	718	1309										
CAPN7	23473	broad.mit.edu	37	chr3	15288955	15288955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccgttactgattgagctacGaggaccaaggtttgtgatga	13	7	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:15288955G>T	uc003bzn.2	+	19	2465	c.2195G>T	c.(2194-2196)CGA>CTA	p.R732L		NM_014296	NP_055111	Q9Y6W3	CAN7_HUMAN	calpain 7	732	Domain N.				proteolysis	nucleus	calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1						ATTGAGCTACGAGGACCAAGG	0.294													4	70	---	---	---	---	PASS	T	15288955	T	T	15288955	3	4	4	1	0	0	0	0	1	0	0	0	2631	1058	37	2	2269	2	CAPN7	3	15288955	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	157022	15288955	182733475	719	1310										
PLCL2	23228	broad.mit.edu	37	chr3	17051498	17051498	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagattgtgcgttttccgtCatatatggagagaattatga	11	4	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:17051498C>T	uc011awc.1	+	5	741	c.636C>T	c.(634-636)GTC>GTT	p.V212V	PLCL2_uc010het.1_Silent_p.V94V|PLCL2_uc011awd.1_Silent_p.V94V	NM_001144382	NP_001137854	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2 isoform 1	220	PH.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(2)|ovary(1)|lung(1)	4						CGTTTTCCGTCATATATGGAG	0.413													43	34	---	---	---	---	PASS	T	17051498	T	T	17051498	2	4	4	1	0	0	0	0	0	0	0	1	12040	813	29	2		2	PLCL2	3	17051498	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1762543	17051498	180970932	720	1311										
KAT2B	8850	broad.mit.edu	37	chr3	20178441	20178441	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacttccacacagggctatgGaacacacctgatgaatcatt	7	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:20178441G>T	uc003cbq.2	+	12	2203	c.1757G>T	c.(1756-1758)GGA>GTA	p.G586V	hsa-mir-3135|MI0014156_5'Flank	NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	586	N-acetyltransferase.				cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CAGGGCTATGGAACACACCTG	0.343													18	12	---	---	---	---	PASS	T	20178441	T	T	20178441	3	4	4	1	0	0	0	0	1	0	0	0	7982	1174	41	2	1803	2	KAT2B	3	20178441	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3126943	20178441	177843989	721	1312										
THRB	7068	broad.mit.edu	37	chr3	24164475	24164475	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catggcaggctcctatcatcCgcagatctgtcaccttcatc	7	15	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:24164475C>A	uc003ccx.3	-	11	1635	c.1286G>T	c.(1285-1287)CGG>CTG	p.R429L	THRB_uc010hfe.2_Missense_Mutation_p.R429L|THRB_uc003ccy.3_Missense_Mutation_p.R429L|THRB_uc003ccz.3_Missense_Mutation_p.R424L	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	429	Ligand-binding.|Interaction with NR2F6.		R -> Q (in PRTH).		regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)	TCCTATCATCCGCAGATCTGT	0.493													4	49	---	---	---	---	PASS	A	24164475	A	A	24164475	3	1	4	1	0	0	0	0	1	0	0	0	15872	652	23	1	103	1	THRB	3	24164475	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3986034	24164475	173857955	722	1313										
GADL1	339896	broad.mit.edu	37	chr3	30827866	30827866	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttccatcagtaacttgaatCcttctcttttcttgatttca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:30827866C>T	uc003cep.2	-	13	1330	c.1283G>A	c.(1282-1284)GGA>GAA	p.G428E		NM_207359	NP_997242	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1	428					carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	TAACTTGAATCCTTCTCTTTT	0.299													8	12	---	---	---	---	PASS	T	30827866	T	T	30827866	3	4	4	1	0	0	0	0	1	0	0	0	6185	855	30	2	294	2	GADL1	3	30827866	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6663391	30827866	167194564	723	1314	40	2								
GADL1	339896	broad.mit.edu	37	chr3	30827867	30827867	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttccatcagtaacttgaatcCttctcttttcttgatttcat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:30827867C>T	uc003cep.2	-	13	1329	c.1282G>A	c.(1282-1284)GGA>AGA	p.G428R		NM_207359	NP_997242	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1	428					carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	AACTTGAATCCTTCTCTTTTC	0.299													8	13	---	---	---	---	PASS	T	30827867	T	T	30827867	3	4	4	1	0	0	0	0	1	0	0	0	6185	690	24	3	295	3	GADL1	3	30827867	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	30827867	167194563	724	1315	40	2								
STAC	6769	broad.mit.edu	37	chr3	36484932	36484932	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctgacaacttcttccagcGaaccaacagcgaagacatga	8	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:36484932G>A	uc003cgh.1	+	2	227	c.188G>A	c.(187-189)CGA>CAA	p.R63Q	STAC_uc010hgd.1_RNA|STAC_uc011aya.1_Missense_Mutation_p.R63Q	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	63					intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						TTCTTCCAGCGAACCAACAGC	0.512													25	15	---	---	---	---	PASS	A	36484932	A	A	36484932	3	1	4	1	0	0	0	0	1	0	0	0	15238	1058	37	2	194	2	STAC	3	36484932	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5657065	36484932	161537498	725	1316										
DCLK3	85443	broad.mit.edu	37	chr3	36759619	36759619	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggggaaagccacacagcagGatatagaggatcacgccagc	14	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:36759619G>A	uc003cgi.2	-	4	2126	c.1635C>T	c.(1633-1635)ATC>ATT	p.I545I		NM_033403	NP_208382	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	545	Protein kinase.					cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			lung(3)|large_intestine(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	9						CACACAGCAGGATATAGAGGA	0.572													71	62	---	---	---	---	PASS	A	36759619	A	A	36759619	2	1	4	1	0	0	0	0	0	0	0	1	4293	1164	41	2		2	DCLK3	3	36759619	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	274687	36759619	161262811	726	1317										
GOLGA4	2803	broad.mit.edu	37	chr3	37376547	37376547	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttttaaatcctaaaggctCgtgaagaagaaatgactgca	8	6	0	4	rs143296928	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:37376547C>T	uc003cgv.2	+	17	6500	c.6196C>T	c.(6196-6198)CGT>TGT	p.R2066C	GOLGA4_uc003cgw.2_Missense_Mutation_p.R2088C|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.R1947C	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	2066	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						CCTAAAGGCTCGTGAAGAAGA	0.368													9	4	---	---	---	---	PASS	T	37376547	T	T	37376547	3	4	4	1	0	0	0	0	1	0	0	0	6555	884	31	2	6332	2	GOLGA4	3	37376547	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	616928	37376547	160645883	727	1318										
PLCD1	5333	broad.mit.edu	37	chr3	38052853	38052853	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctcggcgaaggtgcggtcGatctccacccgctgggtcag	15	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:38052853G>A	uc003chn.2	-	5	766	c.642C>T	c.(640-642)ATC>ATT	p.I214I	PLCD1_uc003chm.2_Silent_p.I235I	NM_006225	NP_006216	P51178	PLCD1_HUMAN	phospholipase C, delta 1 isoform 2	214					intracellular signal transduction|lipid catabolic process|phospholipid metabolic process	cytoplasm	calcium ion binding|GTPase activating protein binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		AGGTGCGGTCGATCTCCACCC	0.642													16	14	---	---	---	---	PASS	A	38052853	A	A	38052853	2	1	4	1	0	0	0	0	0	0	0	1	12031	1048	37	2		2	PLCD1	3	38052853	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	676306	38052853	159969577	728	1319										
XYLB	9942	broad.mit.edu	37	chr3	38401830	38401830	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attctctgttgttcttgcagGactcagggtggtgttcatgt	12	7	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:38401830G>A	uc003cic.2	+	3	250	c.141G>A	c.(139-141)GGG>GGA	p.G47G	XYLB_uc011ayp.1_Intron|XYLB_uc003cid.1_5'UTR	NM_005108	NP_005099	O75191	XYLB_HUMAN	xylulokinase	47					D-xylose metabolic process|generation of precursor metabolites and energy|xylulose catabolic process		ATP binding|xylulokinase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.00372)|Kidney(284;0.00405)		GTTCTTGCAGGACTCAGGGTG	0.512													28	26	---	---	---	---	PASS	A	38401830	A	A	38401830	2	1	4	1	0	0	0	0	0	0	0	1	17459	1188	41	2		2	XYLB	3	38401830	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	348977	38401830	159620600	729	1320										
EXOG	9941	broad.mit.edu	37	chr3	38539252	38539252	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgggttcttgaacatatttCcaaaagcaagataatgggta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:38539252C>T	uc003cih.2	+	2	392	c.296C>T	c.(295-297)TCC>TTC	p.S99F	EXOG_uc010hhg.2_Intron|EXOG_uc011ayq.1_Intron|EXOG_uc003cij.2_5'UTR|EXOG_uc010hhd.2_Intron|EXOG_uc010hhe.2_Intron|EXOG_uc003cik.2_5'UTR|EXOG_uc010hhf.2_5'UTR|EXOG_uc003cii.2_Intron	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	99						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						GAACATATTTCCAAAAGCAAG	0.368													29	21	---	---	---	---	PASS	T	38539252	T	T	38539252	3	4	4	1	0	0	0	0	1	0	0	0	5312	855	30	2	302	2	EXOG	3	38539252	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	137422	38539252	159483178	730	1321	41	2								
EXOG	9941	broad.mit.edu	37	chr3	38539253	38539253	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggttcttgaacatatttcCaaaagcaagataatgggtag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:38539253C>T	uc003cih.2	+	2	393	c.297C>T	c.(295-297)TCC>TCT	p.S99S	EXOG_uc010hhg.2_Intron|EXOG_uc011ayq.1_Intron|EXOG_uc003cij.2_5'UTR|EXOG_uc010hhd.2_Intron|EXOG_uc010hhe.2_Intron|EXOG_uc003cik.2_5'UTR|EXOG_uc010hhf.2_5'UTR|EXOG_uc003cii.2_Intron	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	99						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						AACATATTTCCAAAAGCAAGA	0.363													28	21	---	---	---	---	PASS	T	38539253	T	T	38539253	2	4	4	1	0	0	0	0	0	0	0	1	5312	581	21	3		3	EXOG	3	38539253	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	38539253	159483177	731	1322	41	2								
SCN5A	6331	broad.mit.edu	37	chr3	38645521	38645521	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgaaaatgctcccgcggctGgaacgtggcttcatagaagt	13	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:38645521G>A	uc003cio.2	-	12	1766	c.1572C>T	c.(1570-1572)TCC>TCT	p.S524S	SCN5A_uc003cin.2_Silent_p.S524S|SCN5A_uc003cil.3_Silent_p.S524S|SCN5A_uc010hhi.2_Silent_p.S524S|SCN5A_uc010hhk.2_Silent_p.S524S|SCN5A_uc011ayr.1_Silent_p.S524S|SCN5A_uc010hhj.1_Silent_p.S135S	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	524					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	TCCCGCGGCTGGAACGTGGCT	0.557													5	2	---	---	---	---	PASS	A	38645521	A	A	38645521	2	1	4	1	0	0	0	0	0	0	0	1	13922	1335	47	3		3	SCN5A	3	38645521	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	106268	38645521	159376909	732	1323										
SCN10A	6336	broad.mit.edu	37	chr3	38768417	38768417	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaaagagcctgtttggtacGatggccaaagacctggatcc	12	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:38768417G>A	uc003ciq.2	-	16	2767	c.2767C>T	c.(2767-2769)CGT>TGT	p.R923C		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	923					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	TGTTTGGTACGATGGCCAAAG	0.587													40	33	---	---	---	---	PASS	A	38768417	A	A	38768417	3	1	4	1	0	0	0	0	1	0	0	0	13912	1058	37	2	3151	2	SCN10A	3	38768417	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	122896	38768417	159254013	733	1324										
SCN11A	11280	broad.mit.edu	37	chr3	38921496	38921496	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtgaaatactttccaaatCcgaaggctacccattttagt	7	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:38921496C>T	uc011ays.1	-	19	3537	c.3338G>A	c.(3337-3339)GGA>GAA	p.G1113E	SCN11A_uc010hhn.1_Missense_Mutation_p.G191E	NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1113	Helical; Name=S2 of repeat III; (By similarity).|III.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CTTTCCAAATCCGAAGGCTAC	0.398													8	18	---	---	---	---	PASS	T	38921496	T	T	38921496	3	4	4	1	0	0	0	0	1	0	0	0	13913	855	30	2	2069	2	SCN11A	3	38921496	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	153079	38921496	159100934	734	1325										
SCN11A	11280	broad.mit.edu	37	chr3	38991823	38991823	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcggaaattccgctcatctgGaaagattactgggtagcatc	11	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:38991823G>A	uc011ays.1	-	1	230	c.31C>T	c.(31-33)CCA>TCA	p.P11S		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	11					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CGCTCATCTGGAAAGATTACT	0.498													50	24	---	---	---	---	PASS	A	38991823	A	A	38991823	3	1	4	1	0	0	0	0	1	0	0	0	13913	1174	41	2	5448	2	SCN11A	3	38991823	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	70327	38991823	159030607	735	1326										
XIRP1	165904	broad.mit.edu	37	chr3	39228798	39228798	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggacccagcgattacccgGggctcctgttcttccttctt	9	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:39228798G>T	uc003cjk.1	-	2	2360	c.2139C>A	c.(2137-2139)CCC>CCA	p.P713P	XIRP1_uc003cji.2_Silent_p.P713P|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	713							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CGATTACCCGGGGCTCCTGTT	0.572													4	22	---	---	---	---	PASS	T	39228798	T	T	39228798	2	4	4	1	0	0	0	0	0	0	0	1	17426	1219	43	3		3	XIRP1	3	39228798	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	236975	39228798	158793632	736	1327										
ENTPD3	956	broad.mit.edu	37	chr3	40433626	40433626	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atccacaagcaagaggtcctCcctccaggactgaaggtaag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:40433626C>T	uc003ckd.3	+	3	245	c.153C>T	c.(151-153)CTC>CTT	p.L51L	ENTPD3_uc010hhy.2_Silent_p.L51L|uc003cke.3_RNA	NM_001248	NP_001239	O75355	ENTP3_HUMAN	ectonucleoside triphosphate diphosphohydrolase	51	Extracellular (Potential).					integral to membrane	ATP binding|hydrolase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0605)|Kidney(284;0.0758)		AAGAGGTCCTCCCTCCAGGAC	0.448													26	31	---	---	---	---	PASS	T	40433626	T	T	40433626	2	4	4	1	0	0	0	0	0	0	0	1	5140	842	30	2		2	ENTPD3	3	40433626	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1204828	40433626	157588804	737	1328	42	2								
ENTPD3	956	broad.mit.edu	37	chr3	40433627	40433627	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccacaagcaagaggtcctcCctccaggactgaaggtaagt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:40433627C>T	uc003ckd.3	+	3	246	c.154C>T	c.(154-156)CCT>TCT	p.P52S	ENTPD3_uc010hhy.2_Missense_Mutation_p.P52S|uc003cke.3_RNA	NM_001248	NP_001239	O75355	ENTP3_HUMAN	ectonucleoside triphosphate diphosphohydrolase	52	Extracellular (Potential).					integral to membrane	ATP binding|hydrolase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0605)|Kidney(284;0.0758)		AGAGGTCCTCCCTCCAGGACT	0.453													25	29	---	---	---	---	PASS	T	40433627	T	T	40433627	3	4	4	1	0	0	0	0	1	0	0	0	5140	623	22	3	160	3	ENTPD3	3	40433627	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	40433627	157588803	738	1329	42	2								
CTNNB1	1499	broad.mit.edu	37	chr3	41275037	41275037	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taggaagggatggaaggtctCcttgggactcttgttcagct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:41275037C>T	uc010hia.1	+	10	1359	c.1203C>T	c.(1201-1203)CTC>CTT	p.L401L	CTNNB1_uc003ckp.2_Silent_p.L401L|CTNNB1_uc003ckq.2_Silent_p.L401L|CTNNB1_uc003ckr.2_Silent_p.L401L|CTNNB1_uc011azf.1_Silent_p.L394L|CTNNB1_uc011azg.1_Silent_p.L329L|CTNNB1_uc003cks.2_Silent_p.L4L|CTNNB1_uc003ckt.1_5'Flank	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	401	ARM 7.				adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	TGGAAGGTCTCCTTGGGACTC	0.408		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				31	29	---	---	---	---	PASS	T	41275037	T	T	41275037	2	4	4	1	0	0	0	0	0	0	0	1	4016	842	30	2		2	CTNNB1	3	41275037	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	841410	41275037	156747393	739	1330	43	2								
CTNNB1	1499	broad.mit.edu	37	chr3	41275038	41275038	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaagggatggaaggtctcCttgggactcttgttcagctt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:41275038C>T	uc010hia.1	+	10	1360	c.1204C>T	c.(1204-1206)CTT>TTT	p.L402F	CTNNB1_uc003ckp.2_Missense_Mutation_p.L402F|CTNNB1_uc003ckq.2_Missense_Mutation_p.L402F|CTNNB1_uc003ckr.2_Missense_Mutation_p.L402F|CTNNB1_uc011azf.1_Missense_Mutation_p.L395F|CTNNB1_uc011azg.1_Missense_Mutation_p.L330F|CTNNB1_uc003cks.2_Missense_Mutation_p.L5F|CTNNB1_uc003ckt.1_5'Flank	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	402	ARM 7.				adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	GGAAGGTCTCCTTGGGACTCT	0.408		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				32	28	---	---	---	---	PASS	T	41275038	T	T	41275038	3	4	4	1	0	0	0	0	1	0	0	0	4016	681	24	3	1234	3	CTNNB1	3	41275038	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	41275038	156747392	740	1331	43	2								
HHATL	57467	broad.mit.edu	37	chr3	42738546	42738546	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgggaggctggggtgggtcCaggtggtcgaggcatgccac	20	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:42738546C>T	uc003clw.2	-	9	1104	c.957G>A	c.(955-957)CTG>CTA	p.L319L	HHATL_uc003clx.2_Silent_p.L319L	NM_020707	NP_065758	Q9HCP6	HHATL_HUMAN	hedgehog acyltransferase-like	319					negative regulation of N-terminal protein palmitoylation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm				ovary(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.215)		GGGGTGGGTCCAGGTGGTCGA	0.622													12	8	---	---	---	---	PASS	T	42738546	T	T	42738546	2	4	4	1	0	0	0	0	0	0	0	1	7090	581	21	3		3	HHATL	3	42738546	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1463508	42738546	155283884	741	1332										
ZNF197	10168	broad.mit.edu	37	chr3	44670823	44670823	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatctggaccccaggaagcCctgagccggctcagggaact	12	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:44670823C>T	uc003cnm.2	+	2	383	c.177C>T	c.(175-177)GCC>GCT	p.A59A	ZNF197_uc003cnn.2_Silent_p.A59A|ZNF197_uc003cno.2_RNA|ZNF197_uc003cnp.2_Silent_p.A59A	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	59	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)		CCCAGGAAGCCCTGAGCCGGC	0.572													36	23	---	---	---	---	PASS	T	44670823	T	T	44670823	2	4	4	1	0	0	0	0	0	0	0	1	17756	610	22	3		3	ZNF197	3	44670823	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1932277	44670823	153351607	742	1333										
LRRC2	79442	broad.mit.edu	37	chr3	46568959	46568959	+	Missense_Mutation	SNP	C	G	G													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagggcagttgggagctccaCcaaatggtccccactgacga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:46568959C>G	uc010hji.2	-	7	1250	c.886G>C	c.(886-888)GTG>CTG	p.V296L	LRRC2_uc003cpu.3_Missense_Mutation_p.V296L	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2	296	LRR 8.									ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		GGGAGCTCCACCAAATGGTCC	0.478													18	16	---	---	---	---	PASS	G	46568959	G	G	46568959	3	3	4	1	0	0	0	0	1	0	0	0	8976	507	18	4	241	4	LRRC2	3	46568959	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1898136	46568959	151453471	743	1334	44	2								
LRRC2	79442	broad.mit.edu	37	chr3	46568960	46568960	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggcagttgggagctccacCaaatggtccccactgacgac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:46568960C>T	uc010hji.2	-	7	1249	c.885G>A	c.(883-885)TTG>TTA	p.L295L	LRRC2_uc003cpu.3_Silent_p.L295L	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2	295	LRR 8.									ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		GGAGCTCCACCAAATGGTCCC	0.478													19	16	---	---	---	---	PASS	T	46568960	T	T	46568960	2	4	4	1	0	0	0	0	0	0	0	1	8976	593	21	3		3	LRRC2	3	46568960	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	46568960	151453470	744	1335	44	2								
NBEAL2	23218	broad.mit.edu	37	chr3	47044477	47044477	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcccccgctggaaactgtcCagcgccgagacatattcacg	9	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:47044477C>A	uc003cqp.2	+	34	5669	c.5490C>A	c.(5488-5490)TCC>TCA	p.S1830S	NBEAL2_uc010hjm.1_Silent_p.S1207S|NBEAL2_uc010hjn.1_Silent_p.S226S|NBEAL2_uc010hjo.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1830							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		GGAAACTGTCCAGCGCCGAGA	0.612													7	5	---	---	---	---	PASS	A	47044477	A	A	47044477	2	1	4	1	0	0	0	0	0	0	0	1	10189	581	21	3		3	NBEAL2	3	47044477	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	475517	47044477	150977953	745	1336										
SCAP	22937	broad.mit.edu	37	chr3	47465450	47465450	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatccgcagcttcacctccaGgtctaccggggttgagacca	11	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:47465450G>A	uc003crh.1	-	9	1378	c.1123C>T	c.(1123-1125)CTG>TTG	p.L375L	SCAP_uc011baz.1_Silent_p.L120L|SCAP_uc003crg.2_5'UTR	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	375	SSD.|Cytoplasmic (By similarity).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		TTCACCTCCAGGTCTACCGGG	0.567													20	13	---	---	---	---	PASS	A	47465450	A	A	47465450	2	1	4	1	0	0	0	0	0	0	0	1	13877	991	35	3		3	SCAP	3	47465450	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	420973	47465450	150556980	746	1337										
CELSR3	1951	broad.mit.edu	37	chr3	48666117	48666117	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtacacggtggccgaggagcGgaagaccttcaccccccgga	14	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:48666117G>A	uc003cuf.1	-	51	11845	c.11845C>T	c.(11845-11847)CGC>TGC	p.R3949C	SLC26A6_uc003cug.2_Missense_Mutation_p.R523C|SLC26A6_uc003cuh.2_Missense_Mutation_p.R544C|SLC26A6_uc010hke.2_Missense_Mutation_p.R395C|SLC26A6_uc003cuk.2_Missense_Mutation_p.R437C|SLC26A6_uc003cui.2_Missense_Mutation_p.R544C|SLC26A6_uc003cuj.2_Missense_Mutation_p.R544C|SLC26A6_uc011bbp.1_Missense_Mutation_p.R508C	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	Error:Variant_position_missing_in_Q9NYQ7_after_alignment					homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GCCGAGGAGCGGAAGACCTTC	0.602													18	14	---	---	---	---	PASS	A	48666117	A	A	48666117	3	1	4	1	0	0	0	0	1	0	0	0	3223	1116	39	1		1	CELSR3	3	48666117	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1200667	48666117	149356313	747	1338										
CELSR3	1951	broad.mit.edu	37	chr3	48692593	48692593	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttagcacagccaccttgtcCttggaggggccctgtgcacc	11	15	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:48692593C>T	uc003cul.2	-	6	5153	c.4872G>A	c.(4870-4872)AAG>AAA	p.K1624K	CELSR3_uc003cuf.1_Silent_p.K1694K	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1624	Extracellular (Potential).|Laminin G-like 1.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CCACCTTGTCCTTGGAGGGGC	0.607													9	9	---	---	---	---	PASS	T	48692593	T	T	48692593	2	4	4	1	0	0	0	0	0	0	0	1	3223	680	24	3		3	CELSR3	3	48692593	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	26476	48692593	149329837	748	1339										
QRICH1	54870	broad.mit.edu	37	chr3	49095152	49095152	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctgcttgcagctgcgaggGactgggactctgcagagacg	16	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:49095152G>A	uc010hkq.2	-	4	777	c.481C>T	c.(481-483)CCC>TCC	p.P161S	QRICH1_uc003cvu.2_Missense_Mutation_p.P161S|QRICH1_uc003cvv.2_Missense_Mutation_p.P161S	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	161	Gln-rich.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		AGCTGCGAGGGACTGGGACTC	0.617													40	21	---	---	---	---	PASS	A	49095152	A	A	49095152	3	1	4	1	0	0	0	0	1	0	0	0	12879	1174	41	2	1881	2	QRICH1	3	49095152	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	402559	49095152	148927278	749	1340										
DAG1	1605	broad.mit.edu	37	chr3	49570418	49570418	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgcaggaggagaaggctcCcctaccccctcctgagtacc	10	16	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:49570418C>T	uc003cxc.3	+	3	2892	c.2474C>T	c.(2473-2475)CCC>CTC	p.P825L		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	825	Pro-rich.|Required for interaction with CAV3.|Cytoplasmic (Potential).				cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GAGAAGGCTCCCCTACCCCCT	0.602													20	12	---	---	---	---	PASS	T	49570418	T	T	49570418	3	4	4	1	0	0	0	0	1	0	0	0	4225	623	22	3	2480	3	DAG1	3	49570418	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	475266	49570418	148452012	750	1341										
BSN	8927	broad.mit.edu	37	chr3	49690811	49690811	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtccgcatgcggcaggcctcCtcacgagacctggcttttgc	12	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:49690811C>T	uc003cxe.3	+	5	3936	c.3822C>T	c.(3820-3822)TCC>TCT	p.S1274S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1274					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		GGCAGGCCTCCTCACGAGACC	0.557													12	13	---	---	---	---	PASS	T	49690811	T	T	49690811	2	4	4	1	0	0	0	0	0	0	0	1	1530	668	24	3		3	BSN	3	49690811	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	120393	49690811	148331619	751	1342										
BSN	8927	broad.mit.edu	37	chr3	49698116	49698116	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgctccgggagctggaccgGgacctgcggctggtggagca	18	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:49698116G>A	uc003cxe.3	+	6	8952	c.8838G>A	c.(8836-8838)CGG>CGA	p.R2946R		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2946	Potential.				synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		AGCTGGACCGGGACCTGCGGC	0.642													6	6	---	---	---	---	PASS	A	49698116	A	A	49698116	2	1	4	1	0	0	0	0	0	0	0	1	1530	1219	43	3		3	BSN	3	49698116	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	7305	49698116	148324314	752	1343										
RNF123	63891	broad.mit.edu	37	chr3	49753120	49753120	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatcagctcaactgggccttCtctgaattcattggcatgat	8	10	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:49753120C>T	uc003cxh.2	+	32	3209	c.3123C>T	c.(3121-3123)TTC>TTT	p.F1041F	RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	1041						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		ACTGGGCCTTCTCTGAATTCA	0.607													19	14	---	---	---	---	PASS	T	49753120	T	T	49753120	2	4	4	1	0	0	0	0	0	0	0	1	13433	912	32	2		2	RNF123	3	49753120	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	55004	49753120	148269310	753	1344										
UBA7	7318	broad.mit.edu	37	chr3	49848862	49848862	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtggttccaggtcccgggcCaggcccaccacagtctctgc	12	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:49848862C>T	uc003cxr.2	-	9	1137	c.966G>A	c.(964-966)CTG>CTA	p.L322L		NM_003335	NP_003326	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7	322	2 approximate repeats.				ISG15-protein conjugation|negative regulation of type I interferon production	cytosol	ATP binding|ISG15 activating enzyme activity|ligase activity			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GGTCCCGGGCCAGGCCCACCA	0.522													5	1	---	---	---	---	PASS	T	49848862	T	T	49848862	2	4	4	1	0	0	0	0	0	0	0	1	16830	581	21	3		3	UBA7	3	49848862	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	95742	49848862	148173568	754	1345										
RBM5	10181	broad.mit.edu	37	chr3	50153357	50153357	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcaaaacatggacatctatCgacgatccaggctgagcgag	11	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:50153357C>T	uc003cyg.2	+	22	2186	c.2038C>T	c.(2038-2040)CGA>TGA	p.R680*	RBM5_uc011bdj.1_Nonsense_Mutation_p.R624*|RBM5_uc011bdk.1_Nonsense_Mutation_p.R508*|RBM5_uc003cyh.2_Nonsense_Mutation_p.R137*	NM_005778	NP_005769	P52756	RBM5_HUMAN	RNA binding motif protein 5	680	Required for interaction with U2AF2.				apoptosis|negative regulation of cell proliferation|positive regulation of apoptosis|regulation of alternative nuclear mRNA splicing, via spliceosome|spliceosome assembly	nucleoplasm|spliceosomal complex	DNA binding|mRNA binding|nucleotide binding|protein binding|zinc ion binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000121)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GGACATCTATCGACGATCCAG	0.433													24	6	---	---	---	---	PASS	T	50153357	T	T	50153357	4	4	4	1	0	0	0	0	0	1	0	0	13143	876	31	2	2120	2	RBM5	3	50153357	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	304495	50153357	147869073	755	1346										
DOCK3	1795	broad.mit.edu	37	chr3	51196713	51196713	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaagagagatttgtatatCgttgcccatgtgatccgaat	10	6	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:51196713C>T	uc011bds.1	+	11	890	c.867C>T	c.(865-867)ATC>ATT	p.I289I		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	289						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		ATTTGTATATCGTTGCCCATG	0.358													30	33	---	---	---	---	PASS	T	51196713	T	T	51196713	2	4	4	1	0	0	0	0	0	0	0	1	4688	874	31	2		2	DOCK3	3	51196713	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1043356	51196713	146825717	756	1347										
VPRBP	9730	broad.mit.edu	37	chr3	51467502	51467502	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caccaagttcaccagacgacGaagaccatcatagcggtcaa	8	13	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:51467502G>A	uc003dbe.1	-	10	1618	c.1450C>T	c.(1450-1452)CGT>TGT	p.R484C		NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	484					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		ACCAGACGACGAAGACCATCA	0.488													6	91	---	---	---	---	PASS	A	51467502	A	A	51467502	3	1	4	1	0	0	0	0	1	0	0	0	17182	1058	37	2	3133	2	VPRBP	3	51467502	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	270789	51467502	146554928	757	1348										
RAD54L2	23132	broad.mit.edu	37	chr3	51673510	51673510	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgagcaggacctagacgtgGaagaacttggctctgcaggg	15	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:51673510G>A	uc011bdt.1	+	12	2061	c.1936G>A	c.(1936-1938)GAA>AAA	p.E646K	RAD54L2_uc003dbh.2_Missense_Mutation_p.E237K|RAD54L2_uc011bdu.1_Missense_Mutation_p.E340K|RAD54L2_uc003dbj.2_5'UTR	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	646						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		CCTAGACGTGGAAGAACTTGG	0.552													23	18	---	---	---	---	PASS	A	51673510	A	A	51673510	3	1	4	1	0	0	0	0	1	0	0	0	12994	1175	41	2	1978	2	RAD54L2	3	51673510	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	206008	51673510	146348920	758	1349										
DNAH1	25981	broad.mit.edu	37	chr3	52402765	52402765	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggcgctgcaggacagacgGgatattctcctcgttcatcc	11	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:52402765G>A	uc011bef.1	+	37	6035	c.5774G>A	c.(5773-5775)GGG>GAG	p.G1925E		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1925	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		AGGACAGACGGGATATTCTCC	0.632													40	39	---	---	---	---	PASS	A	52402765	A	A	52402765	3	1	4	1	0	0	0	0	1	0	0	0	4597	1232	43	3	5916	3	DNAH1	3	52402765	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	729255	52402765	145619665	759	1350										
STAB1	23166	broad.mit.edu	37	chr3	52548474	52548474	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accgcaactccctcctgggcCctgcccactggatcgtcttc	8	19	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:52548474C>T	uc003dej.2	+	34	3714	c.3640C>T	c.(3640-3642)CCT>TCT	p.P1214S		NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1214	FAS1 4.|Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CCTCCTGGGCCCTGCCCACTG	0.647													20	13	---	---	---	---	PASS	T	52548474	T	T	52548474	3	4	4	1	0	0	0	0	1	0	0	0	15236	623	22	3	3774	3	STAB1	3	52548474	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	145709	52548474	145473956	760	1351										
STAB1	23166	broad.mit.edu	37	chr3	52551008	52551008	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctccccttagaggtggacCcctgcgcccacggccatggg	12	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:52551008C>T	uc003dej.2	+	42	4446	c.4372C>T	c.(4372-4374)CCC>TCC	p.P1458S	STAB1_uc003dek.1_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1458	Extracellular (Potential).|EGF-like 11.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		AGAGGTGGACCCCTGCGCCCA	0.647													23	11	---	---	---	---	PASS	T	52551008	T	T	52551008	3	4	4	1	0	0	0	0	1	0	0	0	15236	623	22	3	4538	3	STAB1	3	52551008	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2534	52551008	145471422	761	1352										
STAB1	23166	broad.mit.edu	37	chr3	52556435	52556435	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacctgtggaccgctgcttGggccagccaccgccctgcca	11	19	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:52556435G>A	uc003dej.2	+	60	6629	c.6555G>A	c.(6553-6555)TTG>TTA	p.L2185L	STAB1_uc003dek.1_Silent_p.L200L|STAB1_uc003del.2_Silent_p.L72L	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2185	Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		ACCGCTGCTTGGGCCAGCCAC	0.622													21	13	---	---	---	---	PASS	A	52556435	A	A	52556435	2	1	4	1	0	0	0	0	0	0	0	1	15236	1339	47	3		3	STAB1	3	52556435	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	5427	52556435	145465995	762	1353										
NT5DC2	64943	broad.mit.edu	37	chr3	52563208	52563208	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcacgggcggtactgaagatCtcggggtgcagtgcgtctgc	16	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:52563208C>T	uc003deo.2	-	2	688	c.264G>A	c.(262-264)GAG>GAA	p.E88E	NT5DC2_uc003dem.2_5'Flank|NT5DC2_uc003den.2_Silent_p.E125E|NT5DC2_uc010hmi.2_Silent_p.E125E|NT5DC2_uc010hmj.2_5'UTR	NM_022908	NP_075059	Q9H857	NT5D2_HUMAN	5'-nucleotidase domain containing 2 isoform 2	88							hydrolase activity|metal ion binding				0				BRCA - Breast invasive adenocarcinoma(193;1.7e-05)|Kidney(197;0.00177)|KIRC - Kidney renal clear cell carcinoma(197;0.002)|OV - Ovarian serous cystadenocarcinoma(275;0.0476)		TACTGAAGATCTCGGGGTGCA	0.592													21	21	---	---	---	---	PASS	T	52563208	T	T	52563208	2	4	4	1	0	0	0	0	0	0	0	1	10691	912	32	2		2	NT5DC2	3	52563208	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	6773	52563208	145459222	763	1354										
ITIH1	3697	broad.mit.edu	37	chr3	52820977	52820977	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaggatgaaggtggacaggGaggagagggccaacctgtca	18	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:52820977G>A	uc003dfs.2	+	14	1774	c.1750G>A	c.(1750-1752)GAG>AAG	p.E584K	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Missense_Mutation_p.E185K|ITIH1_uc010hmo.1_Missense_Mutation_p.E138K|ITIH1_uc003dfu.2_5'Flank	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	584	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		GGTGGACAGGGAGGAGAGGGC	0.502													17	15	---	---	---	---	PASS	A	52820977	A	A	52820977	3	1	4	1	0	0	0	0	1	0	0	0	7903	1175	41	2	1804	2	ITIH1	3	52820977	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	257769	52820977	145201453	764	1355										
ITIH4	3700	broad.mit.edu	37	chr3	52852089	52852089	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgctcagggtctgagagcaGgttcactggcccctggcggt	15	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:52852089G>A	uc003dfz.2	-	20	2311	c.2275C>T	c.(2275-2277)CTG>TTG	p.L759L	ITIH4_uc011bel.1_Silent_p.L473L|ITIH4_uc003dfy.2_Intron|ITIH4_uc011bem.1_Silent_p.L764L|ITIH4_uc011ben.1_Silent_p.L729L	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	759					acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		TCTGAGAGCAGGTTCACTGGC	0.647													14	12	---	---	---	---	PASS	A	52852089	A	A	52852089	2	1	4	1	0	0	0	0	0	0	0	1	7906	991	35	3		3	ITIH4	3	52852089	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	31112	52852089	145170341	765	1356										
CACNA1D	776	broad.mit.edu	37	chr3	53531355	53531355	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacctgtaggatctctctccCaaagaaaacgtcagcaatac	6	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:53531355C>A	uc003dgv.3	+	2	407	c.244C>A	c.(244-246)CAA>AAA	p.Q82K	CACNA1D_uc003dgu.3_Missense_Mutation_p.Q82K|CACNA1D_uc003dgy.3_Missense_Mutation_p.Q82K	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	82	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	ATCTCTCTCCCAAAGAAAACG	0.522													5	72	---	---	---	---	PASS	A	53531355	A	A	53531355	3	1	4	1	0	0	0	0	1	0	0	0	2541	595	21	3	250	3	CACNA1D	3	53531355	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	679266	53531355	144491075	766	1357										
CHDH	55349	broad.mit.edu	37	chr3	53852089	53852089	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcggcttttgcccgcacaaaGgcatctatctctttatctga	7	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:53852089G>A	uc003dgz.2	-	9	1940	c.1500C>T	c.(1498-1500)GCC>GCT	p.A500A		NM_018397	NP_060867	Q8NE62	CHDH_HUMAN	choline dehydrogenase precursor	500					alcohol metabolic process		choline dehydrogenase activity|flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		Hepatocellular(537;0.152)		BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)	Choline(DB00122)	CCCGCACAAAGGCATCTATCT	0.577													20	20	---	---	---	---	PASS	A	53852089	A	A	53852089	2	1	4	1	0	0	0	0	0	0	0	1	3333	987	35	3		3	CHDH	3	53852089	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	320734	53852089	144170341	767	1358										
CADPS	8618	broad.mit.edu	37	chr3	62518605	62518605	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagtgaagaagggtggggtcGatcatggcgccattttctgc	15	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:62518605G>A	uc003dll.2	-	13	2592	c.2232C>T	c.(2230-2232)ATC>ATT	p.I744I	CADPS_uc003dlk.1_Silent_p.I248I|CADPS_uc003dlm.2_Silent_p.I744I|CADPS_uc003dln.2_Silent_p.I727I	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	744					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		GGGTGGGGTCGATCATGGCGC	0.517													36	21	---	---	---	---	PASS	A	62518605	A	A	62518605	2	1	4	1	0	0	0	0	0	0	0	1	2570	1048	37	2		2	CADPS	3	62518605	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	8666516	62518605	135503825	768	1359										
SYNPR	132204	broad.mit.edu	37	chr3	63594900	63594900	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagttgcaacggatcccaagGaagtattgctactaatgtca	9	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:63594900G>A	uc003dlq.2	+	4	817	c.448G>A	c.(448-450)GAA>AAA	p.E150K	SYNPR_uc003dlp.2_Missense_Mutation_p.E170K|SYNPR_uc011bfk.1_RNA|SYNPR_uc011bfl.1_RNA|SYNPR_uc010hnt.2_Missense_Mutation_p.E159K|SYNPR_uc011bfm.1_RNA	NM_144642	NP_653243	Q8TBG9	SYNPR_HUMAN	synaptoporin isoform 2	150	MARVEL.|Vesicular (Potential).					cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	transporter activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000918)|KIRC - Kidney renal clear cell carcinoma(15;0.0658)|Kidney(15;0.0904)		GGATCCCAAGGAAGTATTGCT	0.448													16	12	---	---	---	---	PASS	A	63594900	A	A	63594900	3	1	4	1	0	0	0	0	1	0	0	0	15456	1175	41	2	554	2	SYNPR	3	63594900	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1076295	63594900	134427530	769	1360										
ADAMTS9	56999	broad.mit.edu	37	chr3	64589744	64589744	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacgtatctcatccgggtacCtttcccacaagtggctgagc	10	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:64589744C>T	uc003dmg.2	-	25	3633	c.3601G>A	c.(3601-3603)GGT>AGT	p.G1201S	ADAMTS9_uc011bfo.1_Missense_Mutation_p.G1173S|ADAMTS9_uc003dmh.1_Missense_Mutation_p.G1030S|ADAMTS9_uc011bfp.1_Missense_Mutation_p.G112S	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1201	TSP type-1 7.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		ATCCGGGTACCTTTCCCACAA	0.512													19	14	---	---	---	---	PASS	T	64589744	T	T	64589744	3	4	4	1	0	0	0	0	1	0	0	0	273	681	24	3	2266	3	ADAMTS9	3	64589744	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	994844	64589744	133432686	770	1361										
ADAMTS9	56999	broad.mit.edu	37	chr3	64599030	64599030	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttcaaaatacctgtccccaGggacccgcctgccaggatgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:64599030G>A	uc003dmg.2	-	22	3377	c.3345C>T	c.(3343-3345)CCC>CCT	p.P1115P	ADAMTS9_uc011bfo.1_Silent_p.P1087P|ADAMTS9_uc003dmh.1_Silent_p.P944P|ADAMTS9_uc011bfp.1_Silent_p.P26P	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1115	TSP type-1 6.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CCTGTCCCCAGGGACCCGCCT	0.463													22	15	---	---	---	---	PASS	A	64599030	A	A	64599030	2	1	4	1	0	0	0	0	0	0	0	1	273	987	35	3		3	ADAMTS9	3	64599030	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	9286	64599030	133423400	771	1362	45	2								
ADAMTS9	56999	broad.mit.edu	37	chr3	64599031	64599031	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcaaaatacctgtccccagGgacccgcctgccaggatgca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:64599031G>A	uc003dmg.2	-	22	3376	c.3344C>T	c.(3343-3345)CCC>CTC	p.P1115L	ADAMTS9_uc011bfo.1_Missense_Mutation_p.P1087L|ADAMTS9_uc003dmh.1_Missense_Mutation_p.P944L|ADAMTS9_uc011bfp.1_Missense_Mutation_p.P26L	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1115	TSP type-1 6.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CTGTCCCCAGGGACCCGCCTG	0.468													23	15	---	---	---	---	PASS	A	64599031	A	A	64599031	3	1	4	1	0	0	0	0	1	0	0	0	273	1232	43	3	2535	3	ADAMTS9	3	64599031	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	64599031	133423399	772	1363	45	2								
ADAMTS9	56999	broad.mit.edu	37	chr3	64627562	64627562	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgaatggctgttttgatgccCcctccacatgttctggagca	10	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:64627562C>T	uc003dmg.2	-	12	1850	c.1818G>A	c.(1816-1818)GGG>GGA	p.G606G	ADAMTS9_uc011bfo.1_Silent_p.G578G|ADAMTS9_uc003dmh.1_Silent_p.G435G|ADAMTS9_uc003dmk.1_Silent_p.G606G	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	606	TSP type-1 1.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		TTTTGATGCCCCCTCCACATG	0.473													30	17	---	---	---	---	PASS	T	64627562	T	T	64627562	2	4	4	1	0	0	0	0	0	0	0	1	273	610	22	3		3	ADAMTS9	3	64627562	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	28531	64627562	133394868	773	1364										
UBA3	9039	broad.mit.edu	37	chr3	69112186	69112186	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaagcagtcattccaggcaGaatcacccgggcatttcctt	8	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:69112186G>A	uc003dno.2	-	9	660	c.640C>T	c.(640-642)CTG>TTG	p.L214L	UBA3_uc003dnq.2_Silent_p.L200L|UBA3_uc011bfy.1_Silent_p.L37L|UBA3_uc011bfz.1_Silent_p.L37L	NM_003968	NP_003959	Q8TBC4	UBA3_HUMAN	ubiquitin-activating enzyme 3 isoform 1	214	Interaction with UBE2M N-terminus.			L->A: Reduces affinity for UBE2M; when associated with A-217.	protein neddylation|proteolysis	nucleus	acid-amino acid ligase activity|ATP binding|protein heterodimerization activity			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.98e-05)|Epithelial(33;0.000363)|LUSC - Lung squamous cell carcinoma(21;0.012)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.206)|Kidney(39;0.241)		ATTCCAGGCAGAATCACCCGG	0.423													40	32	---	---	---	---	PASS	A	69112186	A	A	69112186	2	1	4	1	0	0	0	0	0	0	0	1	16826	933	33	2		2	UBA3	3	69112186	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4484624	69112186	128910244	774	1365										
GXYLT2	727936	broad.mit.edu	37	chr3	73016739	73016739	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccagtggaactaccgtcccGatcactgcatgtacggaagc	11	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:73016739G>A	uc003dpg.2	+	6	1018	c.1018G>A	c.(1018-1020)GAT>AAT	p.D340N		NM_001080393	NP_001073862	A0PJZ3	GXLT2_HUMAN	glycosyltransferase 8 domain containing 4	340	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						CTACCGTCCCGATCACTGCAT	0.498													22	12	---	---	---	---	PASS	A	73016739	A	A	73016739	3	1	4	1	0	0	0	0	1	0	0	0	6904	1058	37	2	1040	2	GXYLT2	3	73016739	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3904553	73016739	125005691	775	1366										
CNTN3	5067	broad.mit.edu	37	chr3	74349027	74349027	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaaacacttacatcccaggTtatcacaagttcagaccggc	6	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:74349027T>C	uc003dpm.1	-	16	2238	c.2158A>G	c.(2158-2160)ACC>GCC	p.T720A		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	720	Fibronectin type-III 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		ACATCCCAGGTTATCACAAGT	0.423													21	15	---	---	---	---	PASS	C	74349027	C	C	74349027	3	2	4	1	0	0	0	0	1	0	0	0	3642	1725	60	5	956	5	CNTN3	3	74349027	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1332288	74349027	123673403	776	1367										
EPHA3	2042	broad.mit.edu	37	chr3	89391077	89391077	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatgcagcccaaatgtccgCttcctccctcgacagtttgg	8	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:89391077C>T	uc003dqy.2	+	5	1368	c.1143C>T	c.(1141-1143)CGC>CGT	p.R381R	EPHA3_uc003dqx.1_Silent_p.R381R|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	381	Extracellular (Potential).|Fibronectin type-III 1.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		CAAATGTCCGCTTCCTCCCTC	0.483										TSP Lung(6;0.00050)			45	31	---	---	---	---	PASS	T	89391077	T	T	89391077	2	4	4	1	0	0	0	0	0	0	0	1	5168	784	28	3		3	EPHA3	3	89391077	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	15042050	89391077	108631353	777	1368										
PROS1	5627	broad.mit.edu	37	chr3	93615439	93615439	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgctgatttctggcaaacGaaattttaaatataaaacaa	5	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:93615439G>A	uc003drb.3	-	9	1287	c.946C>T	c.(946-948)CGT>TGT	p.R316C	PROS1_uc010hoo.2_Missense_Mutation_p.R185C|PROS1_uc003dqz.3_Missense_Mutation_p.R185C	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	316	Laminin G-like 1.				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	TCTGGCAAACGAAATTTTAAA	0.408													22	73	---	---	---	---	PASS	A	93615439	A	A	93615439	3	1	4	1	0	0	0	0	1	0	0	0	12558	1058	37	2	1112	2	PROS1	3	93615439	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4224362	93615439	104406991	778	1369										
GABRR3	200959	broad.mit.edu	37	chr3	97705818	97705818	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actgcatcaatattgtacatCctagaaatctgtcaaaaaac	4	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:97705818C>T	uc011bgr.1	-	9	1113	c.1113G>A	c.(1111-1113)AGG>AGA	p.R371R		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	371	Cytoplasmic (Potential).|Interaction with SQSTM1 (By similarity).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0						TATTGTACATCCTAGAAATCT	0.323													21	32	---	---	---	---	PASS	T	97705818	T	T	97705818	2	4	4	1	0	0	0	0	0	0	0	1	6178	854	30	2		2	GABRR3	3	97705818	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4090379	97705818	100316612	779	1370										
GABRR3	200959	broad.mit.edu	37	chr3	97711840	97711840	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtaggacacctggggcatGgaggcgctcacagcagtgat	16	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:97711840G>A	uc011bgr.1	-	8	960	c.960C>T	c.(958-960)TCC>TCT	p.S320S		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	320	Helical; (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0						CCTGGGGCATGGAGGCGCTCA	0.507													52	64	---	---	---	---	PASS	A	97711840	A	A	97711840	2	1	4	1	0	0	0	0	0	0	0	1	6178	1335	47	3		3	GABRR3	3	97711840	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	6022	97711840	100310590	780	1371										
OR5AC2	81050	broad.mit.edu	37	chr3	97806407	97806407	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctatgtagccatatgtaatCccttgctttatccagtgatg	8	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:97806407C>T	uc011bgs.1	+	1	391	c.391C>T	c.(391-393)CCC>TCC	p.P131S		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CATATGTAATCCCTTGCTTTA	0.428													41	118	---	---	---	---	PASS	T	97806407	T	T	97806407	3	4	4	1	0	0	0	0	1	0	0	0	11141	855	30	2	393	2	OR5AC2	3	97806407	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	94567	97806407	100216023	781	1372										
OR5H14	403273	broad.mit.edu	37	chr3	97868733	97868733	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttttattcagactaaccttCtgtaactccaacataataca	2	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:97868733C>T	uc003dsg.1	+	1	504	c.504C>T	c.(502-504)TTC>TTT	p.F168F		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GACTAACCTTCTGTAACTCCA	0.323													31	71	---	---	---	---	PASS	T	97868733	T	T	97868733	2	4	4	1	0	0	0	0	0	0	0	1	11160	912	32	2		2	OR5H14	3	97868733	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	62326	97868733	100153697	782	1373										
OR5H15	403274	broad.mit.edu	37	chr3	97888478	97888478	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaaagaaatgttaaggtttCatactaatatcctttttcta	4	5	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:97888478C>T	uc011bgu.1	+	1	935	c.935C>T	c.(934-936)TCA>TTA	p.S312L		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GTTAAGGTTTCATACTAATAT	0.284													16	13	---	---	---	---	PASS	T	97888478	T	T	97888478	3	4	4	1	0	0	0	0	1	0	0	0	11161	838	29	2	937	2	OR5H15	3	97888478	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	19745	97888478	100133952	783	1374										
OR5H6	79295	broad.mit.edu	37	chr3	97983680	97983680	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttcattcagattaaccttCtgtaattccaacataataca	2	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:97983680C>T	uc003dsi.1	+	1	552	c.552C>T	c.(550-552)TTC>TTT	p.F184F		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	184	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						GATTAACCTTCTGTAATTCCA	0.313													23	43	---	---	---	---	PASS	T	97983680	T	T	97983680	2	4	4	1	0	0	0	0	0	0	0	1	11163	912	32	2		2	OR5H6	3	97983680	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	95202	97983680	100038750	784	1375										
OR5H6	79295	broad.mit.edu	37	chr3	97984103	97984103	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaatgttcaaaagcaatgtTtagatctcatacaatctctc	4	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:97984103T>A	uc003dsi.1	+	1	975	c.975T>A	c.(973-975)GTT>GTA	p.V325V		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	325	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						AAAGCAATGTTTAGATCTCAT	0.338													22	48	---	---	---	---	PASS	A	97984103	A	A	97984103	2	1	4	1	0	0	0	0	0	0	0	1	11163	1828	64	5		5	OR5H6	3	97984103	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	423	97984103	100038327	785	1376										
OR5K1	26339	broad.mit.edu	37	chr3	98189177	98189177	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtcagtttcattattctatGgatctcttttcttcatgtac	5	8	6	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:98189177G>A	uc003dsm.2	+	1	757	c.757G>A	c.(757-759)GGA>AGA	p.G253R		NM_001004736	NP_001004736	Q8NHB7	OR5K1_HUMAN	olfactory receptor, family 5, subfamily K,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)	1						ATTATTCTATGGATCTCTTTT	0.338													19	62	---	---	---	---	PASS	A	98189177	A	A	98189177	3	1	4	1	0	0	0	0	1	0	0	0	11166	1349	47	3	759	3	OR5K1	3	98189177	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	205074	98189177	99833253	786	1377										
GPR15	2838	broad.mit.edu	37	chr3	98251939	98251939	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagattttgccaggaggagGaagaggtctgtgtcactcta	14	6	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:98251939G>A	uc011bgy.1	+	1	1062	c.1062G>A	c.(1060-1062)AGG>AGA	p.R354R		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	354	Cytoplasmic (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		CCAGGAGGAGGAAGAGGTCTG	0.428													14	44	---	---	---	---	PASS	A	98251939	A	A	98251939	2	1	4	1	0	0	0	0	0	0	0	1	6655	1165	41	2		2	GPR15	3	98251939	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	62762	98251939	99770491	787	1378										
FAM55C	91775	broad.mit.edu	37	chr3	101520114	101520114	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actgtttcagccactttcatCgacagcagtggacagtttgt	9	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:101520114C>T	uc003dvn.2	+	5	766	c.129C>T	c.(127-129)ATC>ATT	p.I43I	FAM55C_uc010hpn.2_Silent_p.I43I	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	43						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						CCACTTTCATCGACAGCAGTG	0.458													31	73	---	---	---	---	PASS	T	101520114	T	T	101520114	2	4	4	1	0	0	0	0	0	0	0	1	5586	874	31	2		2	FAM55C	3	101520114	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3268175	101520114	96502316	788	1379										
BBX	56987	broad.mit.edu	37	chr3	107524288	107524288	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaggctcctgtacttatttCctgcgctgaccagtgaagcg	11	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:107524288C>T	uc010hpr.2	+	18	3137	c.2810C>T	c.(2809-2811)TCC>TTC	p.S937F	BBX_uc003dwk.3_Missense_Mutation_p.S907F|BBX_uc003dwl.3_Missense_Mutation_p.P601S|BBX_uc003dwm.3_Missense_Mutation_p.S907F|BBX_uc003dwo.3_Missense_Mutation_p.P254S	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	937					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			GTACTTATTTCCTGCGCTGAC	0.468													40	92	---	---	---	---	PASS	T	107524288	T	T	107524288	3	4	4	1	0	0	0	0	1	0	0	0	1343	855	30	2	2868	2	BBX	3	107524288	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6004174	107524288	90498142	789	1380										
MYH15	22989	broad.mit.edu	37	chr3	108147687	108147687	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccatcttggctcgagtggtCctttcagcttctagtttctc	8	12	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:108147687C>T	uc003dxa.1	-	28	3471	c.3414G>A	c.(3412-3414)AGG>AGA	p.R1138R		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1138	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CTCGAGTGGTCCTTTCAGCTT	0.383													29	61	---	---	---	---	PASS	T	108147687	T	T	108147687	2	4	4	1	0	0	0	0	0	0	0	1	10034	854	30	2		2	MYH15	3	108147687	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	623399	108147687	89874743	790	1381										
MORC1	27136	broad.mit.edu	37	chr3	108698425	108698425	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctttgagaagacgctggcGaagaagcaactttacaactg	11	8	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:108698425G>A	uc003dxl.2	-	24	2501	c.2414C>T	c.(2413-2415)TCG>TTG	p.S805L	MORC1_uc011bhn.1_Missense_Mutation_p.S784L	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	805					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						AGACGCTGGCGAAGAAGCAAC	0.418													28	48	---	---	---	---	PASS	A	108698425	A	A	108698425	3	1	4	1	0	0	0	0	1	0	0	0	9701	1059	37	2	560	2	MORC1	3	108698425	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	550738	108698425	89324005	791	1382										
DPPA2	151871	broad.mit.edu	37	chr3	109031461	109031461	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacgcttggttccatttgttCcatatttgcgtcatctttaa	6	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:109031461C>T	uc003dxo.2	-	3	359	c.112G>A	c.(112-114)GAA>AAA	p.E38K		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	38						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						TCCATTTGTTCCATATTTGCG	0.418													18	43	---	---	---	---	PASS	T	109031461	T	T	109031461	3	4	4	1	0	0	0	0	1	0	0	0	4734	864	30	2	808	2	DPPA2	3	109031461	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	333036	109031461	88990969	792	1383										
SLC9A10	285335	broad.mit.edu	37	chr3	111918267	111918267	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcataacattaatttcttcCtttgttttcacagtgacagc	5	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:111918267C>T	uc003dyu.2	-	20	2646	c.2424G>A	c.(2422-2424)AAG>AAA	p.K808K	SLC9A10_uc011bhu.1_Silent_p.K71K|SLC9A10_uc010hqc.2_Silent_p.K760K	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	808					cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						TAATTTCTTCCTTTGTTTTCA	0.289													13	29	---	---	---	---	PASS	T	111918267	T	T	111918267	2	4	4	1	0	0	0	0	0	0	0	1	14710	680	24	3		3	SLC9A10	3	111918267	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2886806	111918267	86104163	793	1384										
CCDC80	151887	broad.mit.edu	37	chr3	112324331	112324331	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctggtaaccatcctggtatCcttggtggtaactatggtaa	10	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:112324331C>T	uc003dzf.2	-	8	3004	c.2786G>A	c.(2785-2787)GGA>GAA	p.G929E	CCDC80_uc011bhv.1_Missense_Mutation_p.G902E|CCDC80_uc003dzg.2_Missense_Mutation_p.G929E	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	929										ovary(2)	2						ATCCTGGTATCCTTGGTGGTA	0.473													23	42	---	---	---	---	PASS	T	112324331	T	T	112324331	3	4	4	1	0	0	0	0	1	0	0	0	2854	855	30	2	70	2	CCDC80	3	112324331	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	406064	112324331	85698099	794	1385										
BOC	91653	broad.mit.edu	37	chr3	112997105	112997105	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catggtcaccttccgaactgGtgagagtcaaacattgcccc	9	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:112997105G>T	uc003dzx.2	+	10	2323	c.1702_splice	c.e10+1	p.G568_splice	BOC_uc003dzy.2_Splice_Site_p.G568_splice|BOC_uc003dzz.2_Splice_Site_p.G569_splice|BOC_uc003eab.2_Splice_Site_p.G269_splice|BOC_uc003eac.2_5'Flank	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor						cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			TTCCGAACTGGTGAGAGTCAA	0.562													28	37	---	---	---	---	PASS	T	112997105	T	T	112997105	5	4	4	1	0	0	0	0	0	0	1	0	1481	1275	44	3	1733	3	BOC	3	112997105	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	672774	112997105	85025325	795	1386										
DRD3	1814	broad.mit.edu	37	chr3	113890720	113890720	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgccgaagacgatggccagGatgagcgcgcagtaggagag	17	8	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:113890720G>A	uc003ebd.2	-	3	543	c.120C>T	c.(118-120)ATC>ATT	p.I40I	DRD3_uc010hqn.1_Silent_p.I40I|DRD3_uc003ebb.1_Silent_p.I40I|DRD3_uc003ebc.1_Silent_p.I40I	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	40	Helical; Name=1.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	CGATGGCCAGGATGAGCGCGC	0.612													10	38	---	---	---	---	PASS	A	113890720	A	A	113890720	2	1	4	1	0	0	0	0	0	0	0	1	4758	1164	41	2		2	DRD3	3	113890720	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	893615	113890720	84131710	796	1387										
ZNF80	7634	broad.mit.edu	37	chr3	113955416	113955416	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaagagttgtagtaaaagGtttttccacattctttgcac	9	6	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:113955416G>A	uc010hqo.2	-	1	1010	c.506C>T	c.(505-507)ACC>ATC	p.T169I	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	169	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)				GTAGTAAAAGGTTTTTCCACA	0.488													36	35	---	---	---	---	PASS	A	113955416	A	A	113955416	3	1	4	1	0	0	0	0	1	0	0	0	18165	1261	44	3	319	3	ZNF80	3	113955416	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	64696	113955416	84067014	797	1388										
TIGIT	201633	broad.mit.edu	37	chr3	114014420	114014420	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaggcacaatagaaacaacGgggaacatttctgcagagaa	10	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:114014420G>T	uc003ebg.1	+	2	124	c.90G>T	c.(88-90)ACG>ACT	p.T30T		NM_173799	NP_776160	Q495A1	TIGIT_HUMAN	T cell immunoreceptor with Ig and ITIM domains	30	Extracellular (Potential).|Ig-like V-type.				negative regulation of interleukin-12 production|negative regulation of T cell activation|positive regulation of interleukin-10 production	cell surface|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)	1						TAGAAACAACGGGGAACATTT	0.507													6	257	---	---	---	---	PASS	T	114014420	T	T	114014420	2	4	4	1	0	0	0	0	0	0	0	1	15899	1103	39	1		1	TIGIT	3	114014420	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	59004	114014420	84008010	798	1389										
ZBTB20	26137	broad.mit.edu	37	chr3	114069570	114069570	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttgtaggacgctcttgtcgGagctgttgctgacagtgata	14	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:114069570G>A	uc003ebi.2	-	4	1535	c.1355C>T	c.(1354-1356)TCC>TTC	p.S452F	ZBTB20_uc003ebj.2_Missense_Mutation_p.S379F|ZBTB20_uc010hqp.2_Missense_Mutation_p.S379F|ZBTB20_uc003ebk.2_Missense_Mutation_p.S379F|ZBTB20_uc003ebl.2_Missense_Mutation_p.S379F|ZBTB20_uc003ebm.2_Missense_Mutation_p.S379F|ZBTB20_uc003ebn.2_Missense_Mutation_p.S379F|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	452					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GCTCTTGTCGGAGCTGTTGCT	0.547													36	38	---	---	---	---	PASS	A	114069570	A	A	114069570	3	1	4	1	0	0	0	0	1	0	0	0	17526	1174	41	2	878	2	ZBTB20	3	114069570	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	55150	114069570	83952860	799	1390										
LSAMP	4045	broad.mit.edu	37	chr3	115560810	115560810	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagactggccctccgtgctCttaatctcaaggccattggc	10	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:115560810C>T	uc003ebt.2	-	6	1301	c.801G>A	c.(799-801)AAG>AAA	p.K267K	LSAMP_uc011bis.1_Silent_p.K267K	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein	267	Ig-like C2-type 3.				cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)		CCTCCGTGCTCTTAATCTCAA	0.483													36	41	---	---	---	---	PASS	T	115560810	T	T	115560810	2	4	4	1	0	0	0	0	0	0	0	1	9048	912	32	2		2	LSAMP	3	115560810	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1491240	115560810	82461620	800	1391										
IGSF11	152404	broad.mit.edu	37	chr3	118621729	118621729	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttgtaggcattggaagaggTtagtgtgttgttgtccgagg	17	3	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:118621729T>G	uc003ebw.2	-	7	1181	c.934A>C	c.(934-936)ACC>CCC	p.T312P	IGSF11_uc011biv.1_Missense_Mutation_p.T284P|IGSF11_uc003ebx.2_Missense_Mutation_p.T288P|IGSF11_uc003eby.2_Missense_Mutation_p.T311P|IGSF11_uc003ebz.2_Missense_Mutation_p.T287P|IGSF11_uc010hqs.2_Missense_Mutation_p.T311P	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	312	Cytoplasmic (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						TTGGAAGAGGTTAGTGTGTTG	0.433													46	69	---	---	---	---	PASS	G	118621729	G	G	118621729	3	3	4	1	0	0	0	0	1	0	0	0	7598	1725	60	5	365	5	IGSF11	3	118621729	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	3060919	118621729	79400701	801	1392										
IGSF11	152404	broad.mit.edu	37	chr3	118648981	118648981	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttcaggttggttggcattgGagagaggagtgaccatccaa	15	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:118648981G>A	uc003ebw.2	-	2	441	c.194C>T	c.(193-195)TCC>TTC	p.S65F	IGSF11_uc011biv.1_Missense_Mutation_p.S65F|IGSF11_uc003ebx.2_Missense_Mutation_p.S65F|IGSF11_uc003eby.2_Missense_Mutation_p.S64F|IGSF11_uc003ebz.2_Missense_Mutation_p.S64F|IGSF11_uc010hqs.2_Missense_Mutation_p.S64F	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	65	Ig-like V-type.|Extracellular (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						GTTGGCATTGGAGAGAGGAGT	0.507													41	50	---	---	---	---	PASS	A	118648981	A	A	118648981	3	1	4	1	0	0	0	0	1	0	0	0	7598	1174	41	2	1125	2	IGSF11	3	118648981	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	27252	118648981	79373449	802	1393										
B4GALT4	8702	broad.mit.edu	37	chr3	118943002	118943002	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggtaccaggtccacatcgtGgaatataaagcagtcccaat	10	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:118943002G>A	uc003ecg.2	-	5	1218	c.577C>T	c.(577-579)CAC>TAC	p.H193Y	B4GALT4_uc003ece.1_Missense_Mutation_p.H193Y|B4GALT4_uc003ecf.2_RNA|B4GALT4_uc003ech.2_Missense_Mutation_p.H193Y|B4GALT4_uc003eci.2_Missense_Mutation_p.H193Y|B4GALT4_uc011biy.1_RNA	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	193	Lumenal (Potential).				membrane lipid metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding|N-acetyllactosamine synthase activity				0				GBM - Glioblastoma multiforme(114;0.222)	N-Acetyl-D-glucosamine(DB00141)	TCCACATCGTGGAATATAAAG	0.453													38	40	---	---	---	---	PASS	A	118943002	A	A	118943002	3	1	4	1	0	0	0	0	1	0	0	0	1273	1348	47	3	473	3	B4GALT4	3	118943002	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	294021	118943002	79079428	803	1394										
PLA1A	51365	broad.mit.edu	37	chr3	119336889	119336889	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atagttatctgatctgtgatCacatgagggctgtgcacctc	10	9	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:119336889C>T	uc003ecu.2	+	7	817	c.778C>T	c.(778-780)CAC>TAC	p.H260Y	PLA1A_uc003ecv.2_Missense_Mutation_p.H244Y|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_Missense_Mutation_p.H87Y	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	260		Charge relay system (By similarity).			lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						GATCTGTGATCACATGAGGGC	0.463													63	127	---	---	---	---	PASS	T	119336889	T	T	119336889	3	4	4	1	0	0	0	0	1	0	0	0	11988	826	29	2	804	2	PLA1A	3	119336889	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	393887	119336889	78685541	804	1395										
C3orf15	89876	broad.mit.edu	37	chr3	119458116	119458116	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttaggaagaagaagaaatGgaaatggctgtgatctacct	11	4	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:119458116G>A	uc003ede.3	+	12	1553	c.1476G>A	c.(1474-1476)ATG>ATA	p.M492I	C3orf15_uc010hqy.1_Missense_Mutation_p.M492I|C3orf15_uc010hqz.2_Missense_Mutation_p.M430I|C3orf15_uc011bjd.1_Missense_Mutation_p.M366I|C3orf15_uc011bje.1_Missense_Mutation_p.M472I|C3orf15_uc010hra.1_Missense_Mutation_p.M253I	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		AAGAAGAAATGGAAATGGCTG	0.428													59	99	---	---	---	---	PASS	A	119458116	A	A	119458116	3	1	4	1	0	0	0	0	1	0	0	0	2209	1348	47	3	1522	3	C3orf15	3	119458116	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	121227	119458116	78564314	805	1396										
FSTL1	11167	broad.mit.edu	37	chr3	120134863	120134863	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcacagatcttggatttgctCcttagctcttcctaaaacat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:120134863C>T	uc003eds.2	-	3	250	c.75G>A	c.(73-75)AGG>AGA	p.R25R	FSTL1_uc011bjh.1_Intron|FSTL1_uc010hrb.2_Silent_p.R25R	NM_007085	NP_009016	Q12841	FSTL1_HUMAN	follistatin-like 1 precursor	25					BMP signaling pathway	extracellular space	calcium ion binding|heparin binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.189)		TGGATTTGCTCCTTAGCTCTT	0.463													23	58	---	---	---	---	PASS	T	120134863	T	T	120134863	2	4	4	1	0	0	0	0	0	0	0	1	6077	854	30	2		2	FSTL1	3	120134863	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	676747	120134863	77887567	806	1397	46	2								
FSTL1	11167	broad.mit.edu	37	chr3	120134864	120134864	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacagatcttggatttgctcCttagctcttcctaaaacata							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:120134864C>T	uc003eds.2	-	3	249	c.74G>A	c.(73-75)AGG>AAG	p.R25K	FSTL1_uc011bjh.1_Intron|FSTL1_uc010hrb.2_Missense_Mutation_p.R25K	NM_007085	NP_009016	Q12841	FSTL1_HUMAN	follistatin-like 1 precursor	25					BMP signaling pathway	extracellular space	calcium ion binding|heparin binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.189)		GGATTTGCTCCTTAGCTCTTC	0.463													23	60	---	---	---	---	PASS	T	120134864	T	T	120134864	3	4	4	1	0	0	0	0	1	0	0	0	6077	681	24	3	888	3	FSTL1	3	120134864	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	120134864	77887566	807	1398	46	2								
GOLGB1	2804	broad.mit.edu	37	chr3	121396221	121396221	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcagatgactgagctgctGatctttatctgagatagcca	10	9	2	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:121396221G>A	uc003eei.3	-	16	9061	c.8935C>T	c.(8935-8937)CAG>TAG	p.Q2979*	GOLGB1_uc010hrc.2_Nonsense_Mutation_p.Q2984*|GOLGB1_uc003eej.3_Nonsense_Mutation_p.Q2945*	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	2979	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CTGAGCTGCTGATCTTTATCT	0.418													20	47	---	---	---	---	PASS	A	121396221	A	A	121396221	4	1	4	1	0	0	0	0	0	1	0	0	6565	1299	45	2	872	2	GOLGB1	3	121396221	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1261357	121396221	76626209	808	1399										
ILDR1	286676	broad.mit.edu	37	chr3	121724179	121724179	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggccactatgcgaacttcCcgctggttgtcgttgcagtc	12	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:121724179C>T	uc003ees.2	-	3	397	c.291G>A	c.(289-291)CGG>CGA	p.R97R	ILDR1_uc003eeq.2_Silent_p.R109R|ILDR1_uc003eer.2_Silent_p.R97R|ILDR1_uc010hrg.2_Silent_p.R97R	NM_175924	NP_787120	Q86SU0	ILDR1_HUMAN	immunoglobulin-like domain containing receptor	97	Extracellular (Potential).|Ig-like V-type.		R -> Q (in DFNB42).			cytosol|integral to membrane|plasma membrane	receptor activity			skin(1)	1				GBM - Glioblastoma multiforme(114;0.156)		TGCGAACTTCCCGCTGGTTGT	0.602													12	19	---	---	---	---	PASS	T	121724179	T	T	121724179	2	4	4	1	0	0	0	0	0	0	0	1	7709	610	22	3		3	ILDR1	3	121724179	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	327958	121724179	76298251	809	1400										
CASR	846	broad.mit.edu	37	chr3	121980931	121980931	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacaatggttttgccaaggAgttttgggaagaaacattta	10	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:121980931A>T	uc003eev.3	+	4	1421	c.1049A>T	c.(1048-1050)GAG>GTG	p.E350V	CASR_uc003eew.3_Missense_Mutation_p.E350V	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	350	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	TTTGCCAAGGAGTTTTGGGAA	0.507													29	35	---	---	---	---	PASS	T	121980931	T	T	121980931	3	4	4	1	0	0	0	0	1	0	0	0	2682	304	11	5	1059	5	CASR	3	121980931	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	256752	121980931	76041499	810	1401										
MUC13	56667	broad.mit.edu	37	chr3	124632524	124632524	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccataataatcacaccgaagGgtcactgagaagcacaaata	7	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:124632524G>A	uc003ehq.1	-	7	990	c.966C>T	c.(964-966)ACC>ACT	p.T322T		NM_033049	NP_149038	Q9H3R2	MUC13_HUMAN	mucin 13, epithelial transmembrane	322	EGF-like 2.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane					0						CACACCGAAGGGTCACTGAGA	0.413													22	36	---	---	---	---	PASS	A	124632524	A	A	124632524	2	1	4	1	0	0	0	0	0	0	0	1	9971	1219	43	3		3	MUC13	3	124632524	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2651593	124632524	73389906	811	1402										
ALDH1L1	10840	broad.mit.edu	37	chr3	125828880	125828880	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcttcacaaggtgggcatGgtgattctgcggcccgtggt	15	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:125828880G>A	uc003eim.1	-	20	2444	c.2254C>T	c.(2254-2256)CAT>TAT	p.H752Y	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Missense_Mutation_p.H651Y|ALDH1L1_uc003ein.1_Missense_Mutation_p.H287Y	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	752	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	AGGTGGGCATGGTGATTCTGC	0.612													14	28	---	---	---	---	PASS	A	125828880	A	A	125828880	3	1	4	1	0	0	0	0	1	0	0	0	494	1348	47	3	470	3	ALDH1L1	3	125828880	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1196356	125828880	72193550	812	1403										
ALDH1L1	10840	broad.mit.edu	37	chr3	125877439	125877439	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtccttttgcacgccaccgGgagtacttgaataccggcac	10	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:125877439G>A	uc003eim.1	-	3	361	c.171C>T	c.(169-171)TCC>TCT	p.S57S	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Silent_p.S57S|ALDH1L1_uc003eio.2_5'Flank|ALDH1L1_uc010hsf.1_Silent_p.S83S|ALDH1L1_uc003eip.1_5'UTR|ALDH1L1_uc011bkj.1_Intron	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	57	GART.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	CACGCCACCGGGAGTACTTGA	0.572													25	35	---	---	---	---	PASS	A	125877439	A	A	125877439	2	1	4	1	0	0	0	0	0	0	0	1	494	1219	43	3		3	ALDH1L1	3	125877439	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	48559	125877439	72144991	813	1404										
KLF15	28999	broad.mit.edu	37	chr3	126071359	126071359	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctccagggtaggctggaagGgccgtgggacgtcatcagga	17	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:126071359G>A	uc011bkk.1	-	2	589	c.407C>T	c.(406-408)CCC>CTC	p.P136L		NM_014079	NP_054798	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	136						nucleus	DNA binding|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(114;0.147)		AGGCTGGAAGGGCCGTGGGAC	0.612													14	36	---	---	---	---	PASS	A	126071359	A	A	126071359	3	1	4	1	0	0	0	0	1	0	0	0	8343	1232	43	3	851	3	KLF15	3	126071359	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	193920	126071359	71951071	814	1405										
UROC1	131669	broad.mit.edu	37	chr3	126202227	126202227	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttacaccattggagacatcCcagctgagcatcagcctggc	9	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:126202227C>T	uc003eiz.1	-	19	1907	c.1875G>A	c.(1873-1875)TGG>TGA	p.W625*	UROC1_uc010hsi.1_Nonsense_Mutation_p.W685*	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	625					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		TGGAGACATCCCAGCTGAGCA	0.622													10	15	---	---	---	---	PASS	T	126202227	T	T	126202227	4	4	4	1	0	0	0	0	0	1	0	0	17025	624	22	3	163	3	UROC1	3	126202227	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	130868	126202227	71820203	815	1406										
PLXNA1	5361	broad.mit.edu	37	chr3	126736309	126736309	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accaccatggtatgccgcgcCccgtctgtggccaaccctgt	10	17	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:126736309C>T	uc003ejg.2	+	17	3253	c.3249C>T	c.(3247-3249)GCC>GCT	p.A1083A		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1106	Extracellular (Potential).|IPT/TIG 3.				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TATGCCGCGCCCCGTCTGTGG	0.677													22	25	---	---	---	---	PASS	T	126736309	T	T	126736309	2	4	4	1	0	0	0	0	0	0	0	1	12119	610	22	3		3	PLXNA1	3	126736309	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	534082	126736309	71286121	816	1407										
PLXNA1	5361	broad.mit.edu	37	chr3	126746880	126746880	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacgggtgaggcacgctactCcctgagtgaggacaagctca	13	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:126746880C>T	uc003ejg.2	+	23	4395	c.4391C>T	c.(4390-4392)TCC>TTC	p.S1464F	PLXNA1_uc003ejh.2_Missense_Mutation_p.S132F	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1487	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GCACGCTACTCCCTGAGTGAG	0.632													27	44	---	---	---	---	PASS	T	126746880	T	T	126746880	3	4	4	1	0	0	0	0	1	0	0	0	12119	855	30	2	4550	2	PLXNA1	3	126746880	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	10571	126746880	71275550	817	1408										
PLXNA1	5361	broad.mit.edu	37	chr3	126751655	126751655	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccttgcacgagatctactcCtacatcaccaagtacaagga	7	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:126751655C>T	uc003ejg.2	+	30	5506	c.5502C>T	c.(5500-5502)TCC>TCT	p.S1834S	PLXNA1_uc003ejh.2_Silent_p.S502S	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1857	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		AGATCTACTCCTACATCACCA	0.617													27	61	---	---	---	---	PASS	T	126751655	T	T	126751655	2	4	4	1	0	0	0	0	0	0	0	1	12119	668	24	3		3	PLXNA1	3	126751655	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4775	126751655	71270775	818	1409										
PODXL2	50512	broad.mit.edu	37	chr3	127379844	127379844	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgagcacccagatgaagatCcccttggctctagaacctca	8	15	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:127379844C>T	uc003ejq.2	+	3	997	c.973C>T	c.(973-975)CCC>TCC	p.P325S		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	325	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						AGATGAAGATCCCCTTGGCTC	0.587													20	46	---	---	---	---	PASS	T	127379844	T	T	127379844	3	4	4	1	0	0	0	0	1	0	0	0	12181	855	30	2	983	2	PODXL2	3	127379844	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	628189	127379844	70642586	819	1410										
PODXL2	50512	broad.mit.edu	37	chr3	127387383	127387383	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggggcctggcacatctctCtgagcaagcccagcgagaag	13	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:127387383C>T	uc003ejq.2	+	5	1330	c.1306C>T	c.(1306-1308)CTG>TTG	p.L436L		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	436	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						GCACATCTCTCTGAGCAAGCC	0.682													3	7	---	---	---	---	PASS	T	127387383	T	T	127387383	2	4	4	1	0	0	0	0	0	0	0	1	12181	912	32	2		2	PODXL2	3	127387383	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	7539	127387383	70635047	820	1411										
KBTBD12	166348	broad.mit.edu	37	chr3	127642514	127642514	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagttctgagatgggtaaatCataacaaagaattgcgtaca	9	5	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:127642514C>T	uc010hsr.2	+	1	613	c.610C>T	c.(610-612)CAT>TAT	p.H204Y	KBTBD12_uc003ejy.3_Intron|KBTBD12_uc010hsq.2_Intron|KBTBD12_uc003eka.3_Intron|KBTBD12_uc003ejz.2_Missense_Mutation_p.H204Y	NM_207335	NP_997218	Q3ZCT8	KBTBC_HUMAN	kelch domain containing 6	204	BACK.									ovary(1)	1						ATGGGTAAATCATAACAAAGA	0.358													18	32	---	---	---	---	PASS	T	127642514	T	T	127642514	3	4	4	1	0	0	0	0	1	0	0	0	7991	826	29	2	612	2	KBTBD12	3	127642514	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	255131	127642514	70379916	821	1412										
SEC61A1	29927	broad.mit.edu	37	chr3	127783795	127783795	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agacaaggtccgagcccttcGggaggcgttctaccgccaga	13	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:127783795G>T	uc003ekb.2	+	8	876	c.692G>T	c.(691-693)CGG>CTG	p.R231L	RUVBL1_uc003eke.2_3'UTR|RUVBL1_uc003ekf.2_3'UTR|SEC61A1_uc003ekc.2_Missense_Mutation_p.R178L|SEC61A1_uc003ekd.2_Missense_Mutation_p.R111L|SEC61A1_uc003ekg.2_Intron	NM_013336	NP_037468	P61619	S61A1_HUMAN	Sec61 alpha 1 subunit	231	Lumenal (Potential).				protein targeting to ER	integral to endoplasmic reticulum membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity|protein binding|ribosome binding			ovary(1)	1						CGAGCCCTTCGGGAGGCGTTC	0.507													4	79	---	---	---	---	PASS	T	127783795	T	T	127783795	3	4	4	1	0	0	0	0	1	0	0	0	14000	1116	39	1	722	1	SEC61A1	3	127783795	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	141281	127783795	70238635	822	1413										
C3orf37	56941	broad.mit.edu	37	chr3	129007816	129007816	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accaactgtcgtagtgatacCgtaatggagaaacggtcatt	10	8	1	2	rs139766481		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:129007816C>A	uc003elt.2	+	3	391	c.303C>A	c.(301-303)ACC>ACA	p.T101T	C3orf37_uc003elu.2_Silent_p.T101T|C3orf37_uc003elv.2_Silent_p.T101T|C3orf37_uc003elw.2_Silent_p.T101T	NM_020187	NP_064572	Q96FZ2	CC037_HUMAN	hypothetical protein LOC56941	101										ovary(1)	1						GTAGTGATACCGTAATGGAGA	0.473													4	66	---	---	---	---	PASS	A	129007816	A	A	129007816	2	1	4	1	0	0	0	0	0	0	0	1	2227	639	23	1		1	C3orf37	3	129007816	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1224021	129007816	69014614	823	1414										
PLXND1	23129	broad.mit.edu	37	chr3	129278576	129278576	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgggggcttgtcttcacgGatactcagaatggccttgaa	13	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:129278576G>A	uc003emx.2	-	32	5284	c.5184C>T	c.(5182-5184)ATC>ATT	p.I1728I	PLXND1_uc003emw.2_5'Flank|PLXND1_uc011blb.1_Silent_p.I396I	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1728	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						TGTCTTCACGGATACTCAGAA	0.602													26	95	---	---	---	---	PASS	A	129278576	A	A	129278576	2	1	4	1	0	0	0	0	0	0	0	1	12127	1164	41	2		2	PLXND1	3	129278576	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	270760	129278576	68743854	824	1415										
TRH	7200	broad.mit.edu	37	chr3	129695765	129695765	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggcgctccccctggcttgcAtatgctgtcccgaagcggca	12	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:129695765A>G	uc003enc.2	+	3	996	c.435A>G	c.(433-435)GCA>GCG	p.A145A		NM_007117	NP_009048	P20396	TRH_HUMAN	thyrotropin-releasing hormone	145					cell-cell signaling|hormone-mediated signaling pathway	extracellular region|soluble fraction	neuropeptide hormone activity|thyrotropin-releasing hormone activity			ovary(1)	1						CCTGGCTTGCATATGCTGTCC	0.517													7	27	---	---	---	---	PASS	G	129695765	G	G	129695765	2	3	4	1	0	0	0	0	0	0	0	1	16475	204	8	5		5	TRH	3	129695765	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	417189	129695765	68326665	825	1416										
COL6A6	131873	broad.mit.edu	37	chr3	130380524	130380524	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgaccaagccagaccaccCcctgtgcagtcttacatgga	9	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:130380524C>T	uc010htl.2	+	34	5905	c.5874C>T	c.(5872-5874)CCC>CCT	p.P1958P	COL6A6_uc003eni.3_Silent_p.P57P	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1958	Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CCAGACCACCCCCTGTGCAGT	0.468													20	36	---	---	---	---	PASS	T	130380524	T	T	130380524	2	4	4	1	0	0	0	0	0	0	0	1	3703	610	22	3		3	COL6A6	3	130380524	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	684759	130380524	67641906	826	1417										
ATP2C1	27032	broad.mit.edu	37	chr3	130674959	130674959	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttatcaaggcaccaaaaacCcctctgcagaagagcatgga	8	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:130674959C>T	uc003enl.2	+	11	990	c.768C>T	c.(766-768)ACC>ACT	p.T256T	ATP2C1_uc011blg.1_Silent_p.T290T|ATP2C1_uc011blh.1_Silent_p.T251T|ATP2C1_uc011bli.1_Silent_p.T290T|ATP2C1_uc003enk.2_Silent_p.T240T|ATP2C1_uc003enm.2_Silent_p.T256T|ATP2C1_uc003enn.2_Silent_p.T240T|ATP2C1_uc003eno.2_Silent_p.T256T|ATP2C1_uc003enp.2_Silent_p.T256T|ATP2C1_uc003enq.2_Silent_p.T256T|ATP2C1_uc003enr.2_Silent_p.T256T|ATP2C1_uc003ens.2_Silent_p.T256T|ATP2C1_uc003ent.2_Silent_p.T256T	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	256	Cytoplasmic (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	CACCAAAAACCCCTCTGCAGA	0.259									Hailey-Hailey_disease				16	58	---	---	---	---	PASS	T	130674959	T	T	130674959	2	4	4	1	0	0	0	0	0	0	0	1	1143	610	22	3		3	ATP2C1	3	130674959	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	294435	130674959	67347471	827	1418										
TMEM108	66000	broad.mit.edu	37	chr3	133098693	133098693	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcctcccttcaggcactccCccgggaaccatggtgacagc	10	17	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:133098693C>T	uc003eph.2	+	4	412	c.138C>T	c.(136-138)CCC>CCT	p.P46P	TMEM108_uc003epi.2_Silent_p.P46P|TMEM108_uc003epj.1_Silent_p.P46P|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_5'UTR	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	46	Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						CAGGCACTCCCCCGGGAACCA	0.587													84	153	---	---	---	---	PASS	T	133098693	T	T	133098693	2	4	4	1	0	0	0	0	0	0	0	1	16021	610	22	3		3	TMEM108	3	133098693	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2423734	133098693	64923737	828	1419										
TF	7018	broad.mit.edu	37	chr3	133496008	133496008	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttggccaaacttcatgacaGaaacacatatgaaaaatact	5	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:133496008G>A	uc003epu.1	+	21	3716	c.1988G>A	c.(1987-1989)AGA>AAA	p.R663K	TF_uc011blt.1_Missense_Mutation_p.R536K|TF_uc003epw.1_Missense_Mutation_p.R102K|TF_uc003epv.1_Missense_Mutation_p.R663K	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	663	Transferrin-like 2.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	CTTCATGACAGAAACACATAT	0.438													15	30	---	---	---	---	PASS	A	133496008	A	A	133496008	3	1	4	1	0	0	0	0	1	0	0	0	15782	942	33	2	2050	2	TF	3	133496008	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	397315	133496008	64526422	829	1420										
C3orf36	80111	broad.mit.edu	37	chr3	133647202	133647202	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagactttctgactctcagtTtcacccttgggttccagcac	8	13	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:133647202T>G	uc003epz.1	-	1	1455	c.446A>C	c.(445-447)AAA>ACA	p.K149T		NM_025041	NP_079317	Q3SXR2	CC036_HUMAN	hypothetical protein LOC80111	149										ovary(1)	1						GACTCTCAGTTTCACCCTTGG	0.552													19	48	---	---	---	---	PASS	G	133647202	G	G	133647202	3	3	4	1	0	0	0	0	1	0	0	0	2226	1841	64	5	55	5	C3orf36	3	133647202	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	151194	133647202	64375228	830	1421										
SOX14	8403	broad.mit.edu	37	chr3	137484073	137484073	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagtttagctcgagcgccatCcagaagatgggcgaagtgcc	13	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:137484073C>T	uc003erm.1	+	1	495	c.447C>T	c.(445-447)ATC>ATT	p.I149I		NM_004189	NP_004180	O95416	SOX14_HUMAN	SRY-box 14	149					negative regulation of transcription from RNA polymerase II promoter|nervous system development|transcription, DNA-dependent	nucleus	sequence-specific DNA binding				0						CGAGCGCCATCCAGAAGATGG	0.701													5	6	---	---	---	---	PASS	T	137484073	T	T	137484073	2	4	4	1	0	0	0	0	0	0	0	1	14945	845	30	2		2	SOX14	3	137484073	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3836871	137484073	60538357	831	1422										
ESYT3	83850	broad.mit.edu	37	chr3	138178092	138178092	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggctggtgtgaacgggatCcaggtgggtggagcccggtg	20	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:138178092C>T	uc003esk.2	+	5	871	c.645C>T	c.(643-645)ATC>ATT	p.I215I	ESYT3_uc010hug.2_RNA	NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain	215						integral to membrane|plasma membrane					0						TGAACGGGATCCAGGTGGGTG	0.622													32	58	---	---	---	---	PASS	T	138178092	T	T	138178092	2	4	4	1	0	0	0	0	0	0	0	1	5266	845	30	2		2	ESYT3	3	138178092	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	694019	138178092	59844338	832	1423										
C3orf72	401089	broad.mit.edu	37	chr3	138669273	138669273	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaaccaggttccgctgtcCcctttcctagcgggaccccg	10	17	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:138669273C>T	uc003esx.1	+	3	518	c.387C>T	c.(385-387)TCC>TCT	p.S129S	C3orf72_uc011bmr.1_3'UTR	NM_001040061	NP_001035150	Q6ZUU3	CC072_HUMAN	chromosome 3 open reading frame 72	129											0						TTCCGCTGTCCCCTTTCCTAG	0.667													14	16	---	---	---	---	PASS	T	138669273	T	T	138669273	2	4	4	1	0	0	0	0	0	0	0	1	2244	610	22	3		3	C3orf72	3	138669273	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	491181	138669273	59353157	833	1424										
PRR23B	389151	broad.mit.edu	37	chr3	138739123	138739123	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctccctgacagcgcccagGaaaacgtccacttccagccc	7	19	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:138739123G>A	uc003esy.1	-	1	646	c.381C>T	c.(379-381)TTC>TTT	p.F127F		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	127										breast(1)	1						CAGCGCCCAGGAAAACGTCCA	0.642													23	33	---	---	---	---	PASS	A	138739123	A	A	138739123	2	1	4	1	0	0	0	0	0	0	0	1	12595	1165	41	2		2	PRR23B	3	138739123	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	69850	138739123	59283307	834	1425										
RASA2	5922	broad.mit.edu	37	chr3	141331133	141331133	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttcttctctagggaaaatcCaattgttgggaaagcatctt	8	7	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:141331133C>T	uc003etz.1	+	24	2528	c.2528C>T	c.(2527-2529)CCA>CTA	p.P843L	RASA2_uc010huq.1_Missense_Mutation_p.P847L|RASA2_uc003eua.1_Missense_Mutation_p.P844L|uc003eub.2_5'Flank	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	843					intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6						AGGGAAAATCCAATTGTTGGG	0.259													6	20	---	---	---	---	PASS	T	141331133	T	T	141331133	3	4	4	1	0	0	0	0	1	0	0	0	13061	594	21	3	2622	3	RASA2	3	141331133	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2592010	141331133	56691297	835	1426										
ATR	545	broad.mit.edu	37	chr3	142272709	142272709	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtccaaggattccaatatGtgcttgatatttccactaaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:142272709G>A	uc003eux.3	-	11	2612	c.2490C>T	c.(2488-2490)CAC>CAT	p.H830H		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	830	HEAT 1.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						ATTCCAATATGTGCTTGATAT	0.313								Other_conserved_DNA_damage_response_genes					18	29	---	---	---	---	PASS	A	142272709	A	A	142272709	2	1	4	1	0	0	0	0	0	0	0	1	1204	1368	48	3		3	ATR	3	142272709	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	941576	142272709	55749721	836	1427	47	2								
ATR	545	broad.mit.edu	37	chr3	142272711	142272711	+	Missense_Mutation	SNP	G	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtccaaggattccaatatgtGcttgatatttccactaaaag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:142272711G>T	uc003eux.3	-	11	2610	c.2488C>A	c.(2488-2490)CAC>AAC	p.H830N		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	830	HEAT 1.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						TCCAATATGTGCTTGATATTT	0.313								Other_conserved_DNA_damage_response_genes					17	29	---	---	---	---	PASS	T	142272711	T	T	142272711	3	4	4	1	0	0	0	0	1	0	0	0	1204	1319	46	3	5594	3	ATR	3	142272711	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2	142272711	55749719	837	1428	47	2								
ATR	545	broad.mit.edu	37	chr3	142281929	142281929	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgcaatccgcagaagtctCgttatgatccaattactgaa	8	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:142281929C>A	uc003eux.3	-	4	437	c.315G>T	c.(313-315)ACG>ACT	p.T105T		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	105					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						GCAGAAGTCTCGTTATGATCC	0.318								Other_conserved_DNA_damage_response_genes					4	139	---	---	---	---	PASS	A	142281929	A	A	142281929	2	1	4	1	0	0	0	0	0	0	0	1	1204	871	31	2		2	ATR	3	142281929	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	9218	142281929	55740501	838	1429										
PLSCR1	5359	broad.mit.edu	37	chr3	146246546	146246546	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggaaagccagctgggccaGgacctgaatggccggctggt	16	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:146246546G>A	uc003evx.3	-	4	555	c.167C>T	c.(166-168)CCT>CTT	p.P56L	PLSCR1_uc003evy.3_Missense_Mutation_p.P49L|PLSCR1_uc011bnn.1_Intron|PLSCR1_uc003evz.3_Intron|PLSCR1_uc003ewa.2_Missense_Mutation_p.P56L	NM_021105	NP_066928	O15162	PLS1_HUMAN	phospholipid scramblase 1	56	Cytoplasmic.				phospholipid scrambling|platelet activation|response to virus	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding			ovary(2)	2						AGCTGGGCCAGGACCTGAATG	0.547													23	24	---	---	---	---	PASS	A	146246546	A	A	146246546	3	1	4	1	0	0	0	0	1	0	0	0	12109	1000	35	3	813	3	PLSCR1	3	146246546	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3964617	146246546	51775884	839	1430										
TM4SF4	7104	broad.mit.edu	37	chr3	149192700	149192700	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgccagatgcctggggggGaccctcattccccttgcttt	12	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:149192700G>A	uc003exd.1	+	1	267	c.36G>A	c.(34-36)GGG>GGA	p.G12G		NM_004617	NP_004608	P48230	T4S4_HUMAN	transmembrane 4 superfamily member 4	12	Helical; (Potential).					integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			GCCTGGGGGGGACCCTCATTC	0.527													13	33	---	---	---	---	PASS	A	149192700	A	A	149192700	2	1	4	1	0	0	0	0	0	0	0	1	15967	1161	41	2		2	TM4SF4	3	149192700	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2946154	149192700	48829730	840	1431										
TM4SF4	7104	broad.mit.edu	37	chr3	149216509	149216509	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcccctatatcaccaacagGgattatctcaatgatgaggc	8	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:149216509G>A	uc003exd.1	+	4	633	c.402G>A	c.(400-402)GGG>GGA	p.G134G		NM_004617	NP_004608	P48230	T4S4_HUMAN	transmembrane 4 superfamily member 4	134	Extracellular (Potential).					integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			TCACCAACAGGGATTATCTCA	0.448													10	37	---	---	---	---	PASS	A	149216509	A	A	149216509	2	1	4	1	0	0	0	0	0	0	0	1	15967	1246	43	3		3	TM4SF4	3	149216509	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	23809	149216509	48805921	841	1432										
FAM194A	131831	broad.mit.edu	37	chr3	150421547	150421547	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcctcctcctcctccacctCttcctcctcctcctccacct	0	26	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:150421547C>T	uc003eyg.2	-	1	196	c.139G>A	c.(139-141)GAG>AAG	p.E47K	FAM194A_uc003eyh.2_Intron	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	47	Glu-rich.									skin(2)|ovary(1)	3						tcctccacctcttcctcctcc	0.184													3	13	---	---	---	---	PASS	T	150421547	T	T	150421547	3	4	4	1	0	0	0	0	1	0	0	0	5526	922	32	2	1908	2	FAM194A	3	150421547	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1205038	150421547	47600883	842	1433										
CLRN1	7401	broad.mit.edu	37	chr3	150645901	150645901	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgttttgtagacataagtcCcttctttataatttgcaatt	6	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:150645901C>T	uc003eyk.1	-	3	812	c.521G>A	c.(520-522)GGG>GAG	p.G174E	CLRN1OS_uc011bny.1_Intron|CLRN1_uc003eyj.2_Missense_Mutation_p.G98E|CLRN1_uc010hvj.1_RNA	NM_174878	NP_777367	P58418	CLRN1_HUMAN	clarin 1 isoform a	174					equilibrioception|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GACATAAGTCCCTTCTTTATA	0.373													13	45	---	---	---	---	PASS	T	150645901	T	T	150645901	3	4	4	1	0	0	0	0	1	0	0	0	3557	623	22	3	206	3	CLRN1	3	150645901	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	224354	150645901	47376529	843	1434										
MED12L	116931	broad.mit.edu	37	chr3	151086016	151086016	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctcttccgagctccccaggCctgcttcttacctcaagcaa	6	17	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:151086016C>T	uc003eyp.2	+	23	3460	c.3422C>T	c.(3421-3423)GCC>GTC	p.A1141V	MED12L_uc011bnz.1_Missense_Mutation_p.A1001V|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.A304V	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1141					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)			GCTCCCCAGGCCTGCTTCTTA	0.507													4	27	---	---	---	---	PASS	T	151086016	T	T	151086016	3	4	4	1	0	0	0	0	1	0	0	0	9429	739	26	3	3512	3	MED12L	3	151086016	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	440115	151086016	46936414	844	1435										
MME	4311	broad.mit.edu	37	chr3	154878200	154878200	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggataagtggagcagctgtAgtcaatgcattttactcttc	10	7	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:154878200A>G	uc010hvr.1	+	17	1834	c.1623A>G	c.(1621-1623)GTA>GTG	p.V541V	MME_uc003fab.1_Silent_p.V541V|MME_uc003fac.1_Silent_p.V541V|MME_uc003fad.1_Silent_p.V541V|MME_uc003fae.1_Silent_p.V541V	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	541	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	GAGCAGCTGTAGTCAATGCAT	0.333													75	78	---	---	---	---	PASS	G	154878200	G	G	154878200	2	3	4	1	0	0	0	0	0	0	0	1	9645	407	15	5		5	MME	3	154878200	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	3792184	154878200	43144230	845	1436										
PLCH1	23007	broad.mit.edu	37	chr3	155199797	155199797	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaattgaaacagagagtggGatcagctattacatcctcca	9	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:155199797G>A	uc011bok.1	-	23	4319	c.4042C>T	c.(4042-4044)CCC>TCC	p.P1348S	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.P1310S	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1348					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CAGAGAGTGGGATCAGCTATT	0.473													9	21	---	---	---	---	PASS	A	155199797	A	A	155199797	3	1	4	1	0	0	0	0	1	0	0	0	12037	1174	41	2	1043	2	PLCH1	3	155199797	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	321597	155199797	42822633	846	1437										
PLCH1	23007	broad.mit.edu	37	chr3	155200114	155200114	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acttggattttcccttgcaaAaaccatgcttgatgggcatt	8	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:155200114A>T	uc011bok.1	-	23	4002	c.3725T>A	c.(3724-3726)TTT>TAT	p.F1242Y	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.F1204Y	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1242					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TCCCTTGCAAAAACCATGCTT	0.473													26	34	---	---	---	---	PASS	T	155200114	T	T	155200114	3	4	4	1	0	0	0	0	1	0	0	0	12037	14	1	5	1360	5	PLCH1	3	155200114	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	317	155200114	42822316	847	1438										
B3GALNT1	8706	broad.mit.edu	37	chr3	160804255	160804255	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaccccaagtaactctaatGgcctgcctggctttcacatc	6	15	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:160804255G>A	uc003fdv.2	-	5	707	c.288C>T	c.(286-288)GCC>GCT	p.A96A	B3GALNT1_uc003fdw.2_Silent_p.A96A|B3GALNT1_uc003fdx.2_Silent_p.A96A|B3GALNT1_uc003fdy.2_Silent_p.A96A|B3GALNT1_uc003fdz.2_Silent_p.A96A|B3GALNT1_uc003fea.2_Silent_p.A96A|B3GALNT1_uc011bpa.1_Intron	NM_033169	NP_149359	O75752	B3GL1_HUMAN	UDP-Gal:betaGlcNAc beta	96	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosylgalactosylglucosylceramide beta-D-acetylgalactosaminyltransferase activity|UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;4.41e-05)|Lung(72;4.61e-05)			TAACTCTAATGGCCTGCCTGG	0.433													38	47	---	---	---	---	PASS	A	160804255	A	A	160804255	2	1	4	1	0	0	0	0	0	0	0	1	1245	1335	47	3		3	B3GALNT1	3	160804255	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	5604141	160804255	37218175	848	1439										
NMD3	51068	broad.mit.edu	37	chr3	160942831	160942831	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccgaaacaagtctcgatttCgttctgcaaacaatgtcaaa	6	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:160942831C>T	uc003feb.1	+	3	277	c.158C>T	c.(157-159)TCG>TTG	p.S53L	NMD3_uc003fec.2_Missense_Mutation_p.S53L|NMD3_uc003fed.1_Missense_Mutation_p.S53L	NM_015938	NP_057022	Q96D46	NMD3_HUMAN	NMD3 homolog	53					protein transport	cytoplasm|nucleolus|nucleoplasm				ovary(1)	1			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			GTCTCGATTTCGTTCTGCAAA	0.408													36	57	---	---	---	---	PASS	T	160942831	T	T	160942831	3	4	4	1	0	0	0	0	1	0	0	0	10488	893	31	2	164	2	NMD3	3	160942831	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	138576	160942831	37079599	849	1440										
OTOL1	131149	broad.mit.edu	37	chr3	161214691	161214691	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaccacataccaaatttacGaagaaatctgaggaaagaga	7	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:161214691G>A	uc011bpb.1	+	1	96	c.96G>A	c.(94-96)ACG>ACA	p.T32T		NM_001080440	NP_001073909	A6NHN0	OTOL1_HUMAN	otolin-1 precursor	32						collagen					0						CCAAATTTACGAAGAAATCTG	0.408													23	40	---	---	---	---	PASS	A	161214691	A	A	161214691	2	1	4	1	0	0	0	0	0	0	0	1	11304	1045	37	2		2	OTOL1	3	161214691	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	271860	161214691	36807739	850	1441										
OTOL1	131149	broad.mit.edu	37	chr3	161220930	161220930	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggagaaaaaggagaccaaGgggctatgggctcacctggc	15	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:161220930G>A	uc011bpb.1	+	4	634	c.634G>A	c.(634-636)GGG>AGG	p.G212R		NM_001080440	NP_001073909	A6NHN0	OTOL1_HUMAN	otolin-1 precursor	212	Collagen-like 2.					collagen					0						AGGAGACCAAGGGGCTATGGG	0.413													7	7	---	---	---	---	PASS	A	161220930	A	A	161220930	3	1	4	1	0	0	0	0	1	0	0	0	11304	1000	35	3	648	3	OTOL1	3	161220930	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6239	161220930	36801500	851	1442										
SI	6476	broad.mit.edu	37	chr3	164716433	164716433	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaacgagaaattacaatccCtctttttccagttgtcttct	6	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:164716433C>T	uc003fei.2	-	38	4497	c.4435G>A	c.(4435-4437)GGG>AGG	p.G1479R		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1479	Sucrase.|Lumenal.				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)	ATTACAATCCCTCTTTTTCCA	0.388										HNSCC(35;0.089)			21	45	---	---	---	---	PASS	T	164716433	T	T	164716433	3	4	4	1	0	0	0	0	1	0	0	0	14297	681	24	3	1092	3	SI	3	164716433	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3495503	164716433	33305997	852	1443										
SI	6476	broad.mit.edu	37	chr3	164764709	164764709	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatgaagcagtattgtctcCtaaccaatgcgcagcatgtc	8	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:164764709C>T	uc003fei.2	-	16	1869	c.1807G>A	c.(1807-1809)GGA>AGA	p.G603R		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	603	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)	GTATTGTCTCCTAACCAATGC	0.388										HNSCC(35;0.089)			24	46	---	---	---	---	PASS	T	164764709	T	T	164764709	3	4	4	1	0	0	0	0	1	0	0	0	14297	690	24	3	3808	3	SI	3	164764709	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	48276	164764709	33257721	853	1444										
SLITRK3	22865	broad.mit.edu	37	chr3	164906911	164906911	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccactgtttaaaggggaccaGgtcacaggtgcagtcccaag	12	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:164906911G>A	uc003fej.3	-	2	2152	c.1708C>T	c.(1708-1710)CTG>TTG	p.L570L	SLITRK3_uc003fek.2_Silent_p.L570L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	570	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						AAGGGGACCAGGTCACAGGTG	0.522										HNSCC(40;0.11)			15	37	---	---	---	---	PASS	A	164906911	A	A	164906911	2	1	4	1	0	0	0	0	0	0	0	1	14744	991	35	3		3	SLITRK3	3	164906911	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	142202	164906911	33115519	854	1445										
SLITRK3	22865	broad.mit.edu	37	chr3	164908399	164908399	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaaggtcttgaccagaactCggtaatctgactaatatttg	8	7	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:164908399C>T	uc003fej.3	-	2	664	c.220G>A	c.(220-222)GAG>AAG	p.E74K	SLITRK3_uc003fek.2_Missense_Mutation_p.E74K	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	74	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GACCAGAACTCGGTAATCTGA	0.338										HNSCC(40;0.11)			26	42	---	---	---	---	PASS	T	164908399	T	T	164908399	3	4	4	1	0	0	0	0	1	0	0	0	14744	893	31	2	2717	2	SLITRK3	3	164908399	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1488	164908399	33114031	855	1446										
SPATA16	83893	broad.mit.edu	37	chr3	172634134	172634134	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctcctgttgactgatgtcCtgtaggtagggaatggttgc	14	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:172634134C>T	uc003fin.3	-	9	1634	c.1476G>A	c.(1474-1476)CAG>CAA	p.Q492Q		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	492					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			GACTGATGTCCTGTAGGTAGG	0.463													76	130	---	---	---	---	PASS	T	172634134	T	T	172634134	2	4	4	1	0	0	0	0	0	0	0	1	15000	680	24	3		3	SPATA16	3	172634134	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	7725735	172634134	25388296	856	1447										
NLGN1	22871	broad.mit.edu	37	chr3	173525588	173525588	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaagttatggcaatgtgatCgtcatcacagtcaactatcg	9	9	3	1	rs148161018		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:173525588C>T	uc003fio.1	+	4	1035	c.612C>T	c.(610-612)ATC>ATT	p.I204I	NLGN1_uc010hww.1_Silent_p.I244I|NLGN1_uc003fip.1_Silent_p.I204I	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	221	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			GCAATGTGATCGTCATCACAG	0.383													19	24	---	---	---	---	PASS	T	173525588	T	T	173525588	2	4	4	1	0	0	0	0	0	0	0	1	10461	874	31	2		2	NLGN1	3	173525588	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	891454	173525588	24496842	857	1448										
MFN1	55669	broad.mit.edu	37	chr3	179069770	179069770	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggatataaagacaagctttcCatcattggtgaggtgctatc	10	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:179069770C>T	uc003fjs.2	+	3	321	c.195C>T	c.(193-195)TCC>TCT	p.S65S	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Silent_p.S93S	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	65	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			ACAAGCTTTCCATCATTGGTG	0.378													37	99	---	---	---	---	PASS	T	179069770	T	T	179069770	2	4	4	1	0	0	0	0	0	0	0	1	9523	581	21	3		3	MFN1	3	179069770	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	5544182	179069770	18952660	858	1449										
PEX5L	51555	broad.mit.edu	37	chr3	179537722	179537722	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagttcctccgagccatttCttcccattctgcttgcatct	5	16	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:179537722C>T	uc003fki.1	-	9	995	c.865G>A	c.(865-867)GAA>AAA	p.E289K	PEX5L_uc011bqd.1_Missense_Mutation_p.E246K|PEX5L_uc011bqe.1_Missense_Mutation_p.E97K|PEX5L_uc011bqf.1_Missense_Mutation_p.E181K|PEX5L_uc003fkj.1_Missense_Mutation_p.E254K|PEX5L_uc010hxd.1_Missense_Mutation_p.E287K|PEX5L_uc011bqg.1_Missense_Mutation_p.E265K|PEX5L_uc011bqh.1_Missense_Mutation_p.E230K	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	289					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			CGAGCCATTTCTTCCCATTCT	0.438													19	53	---	---	---	---	PASS	T	179537722	T	T	179537722	3	4	4	1	0	0	0	0	1	0	0	0	11749	922	32	2	1043	2	PEX5L	3	179537722	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	467952	179537722	18484708	859	1450										
CCDC39	339829	broad.mit.edu	37	chr3	180359792	180359792	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaaattaccttatgttttcCcgttcttgatcaacatatct	4	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:180359792C>T	uc010hxe.2	-	13	1978	c.1863G>A	c.(1861-1863)CGG>CGA	p.R621R	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	621					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TTATGTTTTCCCGTTCTTGAT	0.383													19	34	---	---	---	---	PASS	T	180359792	T	T	180359792	2	4	4	1	0	0	0	0	0	0	0	1	2811	610	22	3		3	CCDC39	3	180359792	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	822070	180359792	17662638	860	1451										
KLHL6	89857	broad.mit.edu	37	chr3	183211925	183211925	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cattgttgattctctgtaagCcgtcaaagcctccgatcaca	7	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:183211925C>T	uc003flr.2	-	5	1350	c.1292G>A	c.(1291-1293)GGC>GAC	p.G431D	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_3'UTR|KLHL6_uc010hxk.1_RNA	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	431	Kelch 3.									haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			TCTCTGTAAGCCGTCAAAGCC	0.458													38	91	---	---	---	---	PASS	T	183211925	T	T	183211925	3	4	4	1	0	0	0	0	1	0	0	0	8393	739	26	3	585	3	KLHL6	3	183211925	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2852133	183211925	14810505	861	1452										
YEATS2	55689	broad.mit.edu	37	chr3	183524833	183524833	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagaggaagtcaagttctacCtgccaccaaccccagggtct	9	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:183524833C>T	uc003fly.2	+	28	4159	c.3964C>T	c.(3964-3966)CTG>TTG	p.L1322L	uc003fma.1_5'Flank	NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	1322					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)			CAAGTTCTACCTGCCACCAAC	0.498													18	38	---	---	---	---	PASS	T	183524833	T	T	183524833	2	4	4	1	0	0	0	0	0	0	0	1	17469	680	24	3		3	YEATS2	3	183524833	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	312908	183524833	14497597	862	1453										
ABCC5	10057	broad.mit.edu	37	chr3	183696426	183696426	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttccaatatccgacgctcCtcctcgcggatttctatgaa	6	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:183696426C>T	uc003fmg.2	-	9	1326	c.1161G>A	c.(1159-1161)GAG>GAA	p.E387E	ABCC5_uc011bqt.1_5'UTR|ABCC5_uc010hxl.2_Silent_p.E387E	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	387	ABC transmembrane type-1 1.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TCCGACGCTCCTCCTCGCGGA	0.483													15	29	---	---	---	---	PASS	T	183696426	T	T	183696426	2	4	4	1	0	0	0	0	0	0	0	1	56	680	24	3		3	ABCC5	3	183696426	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	171593	183696426	14326004	863	1454										
ABCC5	10057	broad.mit.edu	37	chr3	183700297	183700297	+	Missense_Mutation	SNP	A	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaagcctgttggtcccagaAtaattacattataaatcatg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:183700297A>T	uc003fmg.2	-	7	1106	c.941T>A	c.(940-942)ATT>AAT	p.I314N	ABCC5_uc011bqt.1_5'UTR|ABCC5_uc010hxl.2_Missense_Mutation_p.I314N	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	314	ABC transmembrane type-1 1.|Helical; (Potential).					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TGGTCCCAGAATAATTACATT	0.502													14	38	---	---	---	---	PASS	T	183700297	T	T	183700297	3	4	4	1	0	0	0	0	1	0	0	0	56	101	4	5	3468	5	ABCC5	3	183700297	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	3871	183700297	14322133	864	1455	48	2								
ABCC5	10057	broad.mit.edu	37	chr3	183700298	183700298	+	Missense_Mutation	SNP	T	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagcctgttggtcccagaaTaattacattataaatcatgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:183700298T>A	uc003fmg.2	-	7	1105	c.940A>T	c.(940-942)ATT>TTT	p.I314F	ABCC5_uc011bqt.1_5'UTR|ABCC5_uc010hxl.2_Missense_Mutation_p.I314F	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	314	ABC transmembrane type-1 1.|Helical; (Potential).					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GGTCCCAGAATAATTACATTA	0.502													15	37	---	---	---	---	PASS	A	183700298	A	A	183700298	3	1	4	1	0	0	0	0	1	0	0	0	56	1406	49	5	3469	5	ABCC5	3	183700298	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1	183700298	14322132	865	1456	48	2								
ECE2	9718	broad.mit.edu	37	chr3	184008959	184008959	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaatggggagaggctcaacGgccgccagacgctgggggag	18	10	2	2	rs138732933	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:184008959G>A	uc003fni.3	+	17	2358	c.2320G>A	c.(2320-2322)GGC>AGC	p.G774S	ECE2_uc011brh.1_Missense_Mutation_p.G627S|ECE2_uc003fnl.3_Missense_Mutation_p.G702S|ECE2_uc003fnm.3_Missense_Mutation_p.G656S|ECE2_uc003fnk.3_Missense_Mutation_p.G627S|ECE2_uc011bri.1_Missense_Mutation_p.G689S|ECE2_uc010hxv.2_3'UTR	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	774	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GAGGCTCAACGGCCGCCAGAC	0.622													12	40	---	---	---	---	PASS	A	184008959	A	A	184008959	3	1	4	1	0	0	0	0	1	0	0	0	4890	1116	39	1	2950	1	ECE2	3	184008959	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	308661	184008959	14013471	866	1457										
FAM131A	131408	broad.mit.edu	37	chr3	184059850	184059850	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctccaccctcccctatctCcaggtatttcccaggtggtg	7	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:184059850C>T	uc003fog.2	+	1	1593	c.229C>T	c.(229-231)CCA>TCA	p.P77S	FAM131A_uc003fob.1_Intron|FAM131A_uc003foc.2_Intron|FAM131A_uc003foe.2_Intron	NM_144635	NP_653236	Q6UXB0	F131A_HUMAN	hypothetical protein LOC131408 precursor	77						extracellular region				breast(1)	1	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCCCCTATCTCCAGGTATTTC	0.597													64	101	---	---	---	---	PASS	T	184059850	T	T	184059850	3	4	4	1	0	0	0	0	1	0	0	0	5439	870	30	2		2	FAM131A	3	184059850	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	50891	184059850	13962580	867	1458										
CLCN2	1181	broad.mit.edu	37	chr3	184071921	184071921	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagccgagctcaggcaggtaGggcagtttcttgattcggat	14	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:184071921G>A	uc003foi.2	-	15	1813	c.1689C>T	c.(1687-1689)CCC>CCT	p.P563P	CLCN2_uc003foh.2_Silent_p.P87P|CLCN2_uc010hya.1_Silent_p.P546P|CLCN2_uc011brl.1_Silent_p.P563P|CLCN2_uc011brm.1_Silent_p.P519P	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	563	Cytoplasmic (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	CAGGCAGGTAGGGCAGTTTCT	0.627											OREG0015949	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	25	---	---	---	---	PASS	A	184071921	A	A	184071921	2	1	4	1	0	0	0	0	0	0	0	1	3463	987	35	3		3	CLCN2	3	184071921	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	12071	184071921	13950509	868	1459										
CLCN2	1181	broad.mit.edu	37	chr3	184075218	184075218	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtggcagcgaagaagcccCgccagtagttccgcactgca	13	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:184075218C>T	uc003foi.2	-	8	954	c.830G>A	c.(829-831)CGG>CAG	p.R277Q	CLCN2_uc003foh.2_5'Flank|CLCN2_uc010hya.1_Missense_Mutation_p.R277Q|CLCN2_uc011brl.1_Missense_Mutation_p.R277Q|CLCN2_uc011brm.1_Missense_Mutation_p.R233Q|CLCN2_uc011brn.1_Missense_Mutation_p.R277Q	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	277	Helical; (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	GAAGAAGCCCCGCCAGTAGTT	0.637													28	51	---	---	---	---	PASS	T	184075218	T	T	184075218	3	4	4	1	0	0	0	0	1	0	0	0	3463	652	23	1	1934	1	CLCN2	3	184075218	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3297	184075218	13947212	869	1460										
CHRD	8646	broad.mit.edu	37	chr3	184106703	184106703	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggggtgcctcactgtgagcGggatgactgttcactgccac	14	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:184106703G>A	uc003fov.2	+	22	2978	c.2732G>A	c.(2731-2733)CGG>CAG	p.R911Q	CHRD_uc003fow.2_Missense_Mutation_p.R541Q|CHRD_uc003fox.2_Missense_Mutation_p.R911Q|CHRD_uc003foy.2_Missense_Mutation_p.R541Q|CHRD_uc010hyc.2_Missense_Mutation_p.R501Q|CHRD_uc011brr.1_Missense_Mutation_p.R453Q	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	911	VWFC 4.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CACTGTGAGCGGGATGACTGT	0.622													4	22	---	---	---	---	PASS	A	184106703	A	A	184106703	3	1	4	1	0	0	0	0	1	0	0	0	3372	1116	39	1	2818	1	CHRD	3	184106703	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	31485	184106703	13915727	870	1461										
MAP3K13	9175	broad.mit.edu	37	chr3	185191163	185191163	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcagcagccctgcggagcCcactcagcaaccatgctcag	10	17	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:185191163C>T	uc010hyf.2	+	12	2310	c.2044C>T	c.(2044-2046)CCA>TCA	p.P682S	MAP3K13_uc011brt.1_Missense_Mutation_p.P475S|MAP3K13_uc011bru.1_Missense_Mutation_p.P538S|MAP3K13_uc003fpi.2_Missense_Mutation_p.P682S|MAP3K13_uc010hyg.2_Missense_Mutation_p.P372S	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	682					activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			CCTGCGGAGCCCACTCAGCAA	0.592													32	79	---	---	---	---	PASS	T	185191163	T	T	185191163	3	4	4	1	0	0	0	0	1	0	0	0	9247	623	22	3	2082	3	MAP3K13	3	185191163	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1084460	185191163	12831267	871	1462										
DGKG	1608	broad.mit.edu	37	chr3	185960312	185960312	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgctgttgaatttttcagGatgtttctctctcatcacat	6	10	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:185960312G>A	uc003fqa.2	-	20	2344	c.1807C>T	c.(1807-1809)CCT>TCT	p.P603S	DGKG_uc003fqb.2_Missense_Mutation_p.P564S|DGKG_uc003fqc.2_Missense_Mutation_p.P578S|DGKG_uc011brx.1_Missense_Mutation_p.P544S	NM_001346	NP_001337	P49619	DGKG_HUMAN	diacylglycerol kinase gamma isoform 1	603					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	all_cancers(143;3.26e-12)|Ovarian(172;0.0315)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)	GBM - Glioblastoma multiforme(93;0.0657)	Phosphatidylserine(DB00144)	AATTTTTCAGGATGTTTCTCT	0.532											OREG0015965	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	32	---	---	---	---	PASS	A	185960312	A	A	185960312	3	1	4	1	0	0	0	0	1	0	0	0	4469	1174	41	2	592	2	DGKG	3	185960312	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	769149	185960312	12062118	872	1463										
RFC4	5984	broad.mit.edu	37	chr3	186522462	186522462	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcgatccttggtcagcgggGgtttagtactgatggatgta	14	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:186522462G>A	uc003fqz.2	-	2	264	c.41C>T	c.(40-42)CCC>CTC	p.P14L	RFC4_uc011bsc.1_Missense_Mutation_p.P14L|RFC4_uc011bsd.1_Missense_Mutation_p.P14L	NM_002916	NP_002907	P35249	RFC4_HUMAN	replication factor C 4	14					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|phosphatidylinositol-mediated signaling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|large_intestine(1)	5	all_cancers(143;2.92e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)	GBM - Glioblastoma multiforme(93;0.0739)		GGTCAGCGGGGGTTTAGTACT	0.448													37	56	---	---	---	---	PASS	A	186522462	A	A	186522462	3	1	4	1	0	0	0	0	1	0	0	0	13247	1232	43	3	1090	3	RFC4	3	186522462	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	562150	186522462	11499968	873	1464										
ADIPOQ	9370	broad.mit.edu	37	chr3	186572227	186572227	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccactgcaacattcctgggCtgtactactttgcctaccac	6	15	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:186572227C>T	uc003fra.2	+	3	553	c.469C>T	c.(469-471)CTG>TTG	p.L157L	ADIPOQ_uc010hyy.2_Silent_p.L157L	NM_004797	NP_004788	Q15848	ADIPO_HUMAN	adiponectin precursor	157	C1q.				brown fat cell differentiation|cellular response to drug|cellular response to insulin stimulus|detection of oxidative stress|fatty acid beta-oxidation|generation of precursor metabolites and energy|glucose homeostasis|glucose metabolic process|low-density lipoprotein particle clearance|negative regulation of blood pressure|negative regulation of DNA biosynthetic process|negative regulation of ERK1 and ERK2 cascade|negative regulation of eukaryotic cell surface binding|negative regulation of fat cell differentiation|negative regulation of gluconeogenesis|negative regulation of granulocyte differentiation|negative regulation of heterotypic cell-cell adhesion|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of intracellular protein transport|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|negative regulation of macrophage differentiation|negative regulation of MAP kinase activity|negative regulation of phagocytosis|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein autophosphorylation|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of synaptic transmission|negative regulation of transcription, DNA-dependent|negative regulation of tumor necrosis factor production|negative regulation of tumor necrosis factor-mediated signaling pathway|positive regulation of cAMP-dependent protein kinase activity|positive regulation of cholesterol efflux|positive regulation of fatty acid metabolic process|positive regulation of glucose import|positive regulation of glycogen (starch) synthase activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of metanephric glomerular visceral epithelial cell development|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myeloid cell apoptosis|positive regulation of protein kinase A signaling cascade|positive regulation of renal albumin absorption|protein homooligomerization|protein localization in plasma membrane|response to glucose stimulus|response to tumor necrosis factor	collagen|endoplasmic reticulum|extracellular space	cytokine activity|eukaryotic cell surface binding|hormone activity|protein homodimerization activity			ovary(1)	1	all_cancers(143;1.2e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.47e-19)	GBM - Glioblastoma multiforme(93;0.0776)		CATTCCTGGGCTGTACTACTT	0.448													30	68	---	---	---	---	PASS	T	186572227	T	T	186572227	2	4	4	1	0	0	0	0	0	0	0	1	317	796	28	3		3	ADIPOQ	3	186572227	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	49765	186572227	11450203	874	1465										
MASP1	5648	broad.mit.edu	37	chr3	186980425	186980425	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaaggagccaggggagagGaccacctcctggccgggagt	17	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:186980425G>A	uc003frh.1	-	3	653	c.321C>T	c.(319-321)GTC>GTT	p.V107V	MASP1_uc003fri.2_Silent_p.V107V|MASP1_uc003frj.2_Silent_p.V76V|MASP1_uc003frk.1_Silent_p.V107V|MASP1_uc011bse.1_Silent_p.V81V	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	107	Interaction with FCN2.|Interaction with MBL2.|Homodimerization (By similarity).|CUB 1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		CAGGGGAGAGGACCACCTCCT	0.547													19	39	---	---	---	---	PASS	A	186980425	A	A	186980425	2	1	4	1	0	0	0	0	0	0	0	1	9322	1161	41	2		2	MASP1	3	186980425	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	408198	186980425	11042005	875	1466										
LPP	4026	broad.mit.edu	37	chr3	188202419	188202419	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctccacctctagatgattCcagtgcccttccatctatct	4	16	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:188202419C>T	uc003frs.1	+	4	479	c.233C>T	c.(232-234)TCC>TTC	p.S78F	LPP_uc011bsg.1_Missense_Mutation_p.S78F|LPP_uc011bsi.1_Missense_Mutation_p.S78F|LPP_uc003frt.2_Missense_Mutation_p.S78F	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	78	Pro-rich.				cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		CTAGATGATTCCAGTGCCCTT	0.418			T	HMGA2|MLL|C12orf9	lipoma|leukemia								32	71	---	---	---	---	PASS	T	188202419	T	T	188202419	3	4	4	1	0	0	0	0	1	0	0	0	8923	855	30	2	239	2	LPP	3	188202419	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1221994	188202419	9820011	876	1467										
TP63	8626	broad.mit.edu	37	chr3	189587146	189587146	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacacatggtatccagatgaCatccatcaagaaacgaagat	7	10	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:189587146C>T	uc003fry.2	+	9	1252	c.1163C>T	c.(1162-1164)ACA>ATA	p.T388I	TP63_uc003frx.2_Missense_Mutation_p.T388I|TP63_uc003frz.2_Missense_Mutation_p.T388I|TP63_uc010hzc.1_Missense_Mutation_p.T388I|TP63_uc003fsa.2_Missense_Mutation_p.T294I|TP63_uc003fsb.2_Missense_Mutation_p.T294I|TP63_uc003fsc.2_Missense_Mutation_p.T294I|TP63_uc003fsd.2_Missense_Mutation_p.T294I|TP63_uc010hzd.1_Missense_Mutation_p.T209I|TP63_uc003fse.1_Missense_Mutation_p.T265I	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	388	Interaction with HIPK2.				anti-apoptosis|cellular response to UV|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|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		ATCCAGATGACATCCATCAAG	0.393									Hay-Wells_syndrome	HNSCC(45;0.13)			10	45	---	---	---	---	PASS	T	189587146	T	T	189587146	3	4	4	1	0	0	0	0	1	0	0	0	16389	478	17	3	1243	3	TP63	3	189587146	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1384727	189587146	8435284	877	1468										
CLDN16	10686	broad.mit.edu	37	chr3	190106125	190106125	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctgcttgccacaatgaggGatcttcttcaatacatcgct	9	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:190106125G>A	uc003fsi.2	+	1	285	c.217G>A	c.(217-219)GAT>AAT	p.D73N	CLDN16_uc010hze.2_Missense_Mutation_p.D73N	NM_006580	NP_006571	Q9Y5I7	CLD16_HUMAN	claudin 16	73	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|cellular metal ion homeostasis|excretion	integral to membrane|tight junction	identical protein binding|magnesium ion transmembrane transporter activity|structural molecule activity			ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.018)		CACAATGAGGGATCTTCTTCA	0.517													24	65	---	---	---	---	PASS	A	190106125	A	A	190106125	3	1	4	1	0	0	0	0	1	0	0	0	3477	1174	41	2	219	2	CLDN16	3	190106125	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	518979	190106125	7916305	878	1469										
ATP13A5	344905	broad.mit.edu	37	chr3	192993070	192993070	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgatcaacagccagagttCatgattttgaaggatggaat	10	5	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:192993070C>T	uc011bsq.1	-	30	3418	c.3418G>A	c.(3418-3420)GAA>AAA	p.E1140K		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	1140					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		AGCCAGAGTTCATGATTTTGA	0.458													20	53	---	---	---	---	PASS	T	192993070	T	T	192993070	3	4	4	1	0	0	0	0	1	0	0	0	1127	835	29	2	240	2	ATP13A5	3	192993070	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2886945	192993070	5029360	879	1470										
LRRC15	131578	broad.mit.edu	37	chr3	194080933	194080933	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccggagagagctccttcagGgaattcccaaagagagtaag	12	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:194080933G>A	uc003ftu.2	-	2	926	c.840C>T	c.(838-840)TCC>TCT	p.S280S	LRRC15_uc003ftt.2_Silent_p.S286S	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	280	Extracellular (Potential).|LRR 10.					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		GCTCCTTCAGGGAATTCCCAA	0.557													32	34	---	---	---	---	PASS	A	194080933	A	A	194080933	2	1	4	1	0	0	0	0	0	0	0	1	8970	1219	43	3		3	LRRC15	3	194080933	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1087863	194080933	3941497	880	1471										
ATP13A3	79572	broad.mit.edu	37	chr3	194147970	194147970	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacaagttctttccaggcagGatttaaactcactatattga	6	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:194147970G>A	uc003fty.3	-	28	3361	c.2959C>T	c.(2959-2961)CCT>TCT	p.P987S	ATP13A3_uc003ftx.3_5'Flank	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	987					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		TTCCAGGCAGGATTTAAACTC	0.358													8	27	---	---	---	---	PASS	A	194147970	A	A	194147970	3	1	4	1	0	0	0	0	1	0	0	0	1125	1174	41	2	741	2	ATP13A3	3	194147970	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	67037	194147970	3874460	881	1472										
MUC4	4585	broad.mit.edu	37	chr3	195477834	195477834	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctgggctcctcactcctcCgtggaacgtggtataagaac	10	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:195477834C>T	uc011bto.1	-	24	15873	c.15413G>A	c.(15412-15414)CGG>CAG	p.R5138Q	MUC4_uc010hzq.2_Missense_Mutation_p.R123Q|MUC4_uc003fuz.2_Missense_Mutation_p.R864Q|MUC4_uc003fva.2_Missense_Mutation_p.R746Q|MUC4_uc003fvb.2_Missense_Mutation_p.R782Q|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.R782Q|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.R746Q|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.R830Q|MUC4_uc011bti.1_Missense_Mutation_p.R830Q|MUC4_uc011btj.1_Missense_Mutation_p.R1007Q|MUC4_uc011btk.1_Missense_Mutation_p.R746Q|MUC4_uc011btl.1_Missense_Mutation_p.R775Q|MUC4_uc011btm.1_Missense_Mutation_p.R955Q|MUC4_uc011btn.1_Missense_Mutation_p.R746Q|MUC4_uc003fvo.2_Missense_Mutation_p.R1030Q|MUC4_uc003fvp.2_Missense_Mutation_p.R979Q	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	2023					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		CTCACTCCTCCGTGGAACGTG	0.627													26	27	---	---	---	---	PASS	T	195477834	T	T	195477834	3	4	4	1	0	0	0	0	1	0	0	0	9978	652	23	1	453	1	MUC4	3	195477834	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1329864	195477834	2544596	882	1473										
MUC4	4585	broad.mit.edu	37	chr3	195492231	195492231	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagccccagctgggccaccGaggctggctcttcagccact	11	18	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:195492231G>A	uc011bto.1	-	10	13784	c.13324C>T	c.(13324-13326)CGG>TGG	p.R4442W	MUC4_uc003fuz.2_Missense_Mutation_p.R168W|MUC4_uc003fva.2_Missense_Mutation_p.R50W|MUC4_uc003fvb.2_Missense_Mutation_p.R86W|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.R86W|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.R50W|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.R134W|MUC4_uc011bti.1_Missense_Mutation_p.R134W|MUC4_uc011btj.1_Missense_Mutation_p.R311W|MUC4_uc011btk.1_Missense_Mutation_p.R50W|MUC4_uc011btl.1_Missense_Mutation_p.R79W|MUC4_uc011btm.1_Missense_Mutation_p.R259W|MUC4_uc011btn.1_Missense_Mutation_p.R50W|MUC4_uc003fvo.2_Missense_Mutation_p.R334W|MUC4_uc003fvp.2_Missense_Mutation_p.R283W|MUC4_uc010hzu.1_Missense_Mutation_p.R1182W	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1327	AMOP.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		CTGGGCCACCGAGGCTGGCTC	0.627													11	23	---	---	---	---	PASS	A	195492231	A	A	195492231	3	1	4	1	0	0	0	0	1	0	0	0	9978	1057	37	2	2598	2	MUC4	3	195492231	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	14397	195492231	2530199	883	1474										
KIAA0226	9711	broad.mit.edu	37	chr3	197427768	197427768	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggggtccaagttgccaatgGccaggtactcaggcccctca	13	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:197427768G>A	uc003fyc.2	-	7	1160	c.977C>T	c.(976-978)GCC>GTC	p.A326V	KIAA0226_uc003fyd.3_Missense_Mutation_p.A266V|KIAA0226_uc003fye.1_Missense_Mutation_p.A33V|KIAA0226_uc003fyf.2_Missense_Mutation_p.A159V|KIAA0226_uc003fyg.2_Missense_Mutation_p.A319V	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	326	Ser-rich.				autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		GTTGCCAATGGCCAGGTACTC	0.587													34	26	---	---	---	---	PASS	A	197427768	A	A	197427768	3	1	4	1	0	0	0	0	1	0	0	0	8162	1203	42	3	2046	3	KIAA0226	3	197427768	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1935537	197427768	594662	884	1475										
LRCH3	84859	broad.mit.edu	37	chr3	197574806	197574806	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagtagagcgcactcggagaGaggctcagcttgctgccctg	14	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:197574806G>A	uc011bul.1	+	12	1449	c.1444G>A	c.(1444-1446)GAG>AAG	p.E482K	LRCH3_uc003fyj.1_Missense_Mutation_p.E482K|LRCH3_uc011bum.1_Missense_Mutation_p.E454K|LRCH3_uc011bun.1_Missense_Mutation_p.E328K|LRCH3_uc003fyk.2_Missense_Mutation_p.E77K	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	482						extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		CACTCGGAGAGAGGCTCAGCT	0.478													34	65	---	---	---	---	PASS	A	197574806	A	A	197574806	3	1	4	1	0	0	0	0	1	0	0	0	8934	943	33	2	1490	2	LRCH3	3	197574806	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	147038	197574806	447624	885	1476										
LMLN	89782	broad.mit.edu	37	chr3	197717443	197717443	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attacagtctgggattatatCaatggagtgataaagtagtt	10	3	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr3:197717443C>T	uc011buo.1	+	9	965	c.943C>T	c.(943-945)CAA>TAA	p.Q315*	LMLN_uc003fyt.2_Nonsense_Mutation_p.Q263*|LMLN_uc010iar.2_Nonsense_Mutation_p.Q315*|LMLN_uc010ias.2_Nonsense_Mutation_p.Q263*|LMLN_uc003fyu.2_Nonsense_Mutation_p.Q75*	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2	315					cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		GGGATTATATCAATGGAGTGA	0.279													18	28	---	---	---	---	PASS	T	197717443	T	T	197717443	4	4	4	1	0	0	0	0	0	1	0	0	8847	827	29	2	977	2	LMLN	3	197717443	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	142637	197717443	304987	886	1477										
ZNF141	7700	broad.mit.edu	37	chr4	338216	338216	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ataagatcgtagccagacccCcaggtaggtgagagtgaatg	13	8	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:338216C>T	uc003gaa.2	+	4	401	c.223C>T	c.(223-225)CCA>TCA	p.P75S	ZNF141_uc003fzz.2_Missense_Mutation_p.P75S|ZNF141_uc003gab.2_Missense_Mutation_p.P75S	NM_003441	NP_003432	Q15928	ZN141_HUMAN	zinc finger protein 141	75	KRAB.				anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0						AGCCAGACCCCCAGGTAGGTG	0.463													16	29	---	---	---	---	PASS	T	338216	T	T	338216	3	4	4	1	0	0	0	0	1	0	0	0	17727	623	22	3	233	3	ZNF141	4	338216	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08		338216	190816060	887	1478										
ZNF141	7700	broad.mit.edu	37	chr4	367492	367492	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attcatagtgcagataaaccCtacaaatgtaaagaatgtga	7	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:367492C>T	uc003gaa.2	+	5	1444	c.1266C>T	c.(1264-1266)CCC>CCT	p.P422P	ZNF141_uc003gab.2_Intron	NM_003441	NP_003432	Q15928	ZN141_HUMAN	zinc finger protein 141	422					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0						CAGATAAACCCTACAAATGTA	0.358													47	70	---	---	---	---	PASS	T	367492	T	T	367492	2	4	4	1	0	0	0	0	0	0	0	1	17727	668	24	3		3	ZNF141	4	367492	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	29276	367492	190786784	888	1479										
MFSD7	84179	broad.mit.edu	37	chr4	678526	678526	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accagcttgagcccatccagGaacttctctgaggtggagct	11	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:678526G>A	uc003gay.2	-	5	762	c.705C>T	c.(703-705)TTC>TTT	p.F235F	MFSD7_uc003gaw.2_5'UTR|MFSD7_uc003gax.2_Silent_p.F235F|MFSD7_uc003gaz.2_Silent_p.F116F|MFSD7_uc003gba.2_Silent_p.F138F|MFSD7_uc003gbb.1_Silent_p.F171F	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	235					transmembrane transport	integral to membrane					0						GCCCATCCAGGAACTTCTCTG	0.672													22	36	---	---	---	---	PASS	A	678526	A	A	678526	2	1	4	1	0	0	0	0	0	0	0	1	9537	1165	41	2		2	MFSD7	4	678526	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	311034	678526	190475750	889	1480										
POLN	353497	broad.mit.edu	37	chr4	2082703	2082703	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctggccgtcaaggtgtggGaagcagccactgcagtgaag	15	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:2082703G>A	uc003ger.2	-	21	2369	c.2369C>T	c.(2368-2370)TCC>TTC	p.S790F	POLN_uc010icg.1_Missense_Mutation_p.S238F|POLN_uc010ich.1_3'UTR	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	790					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			CAAGGTGTGGGAAGCAGCCAC	0.602								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					18	41	---	---	---	---	PASS	A	2082703	A	A	2082703	3	1	4	1	0	0	0	0	1	0	0	0	12207	1174	41	2	349	2	POLN	4	2082703	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1404177	2082703	189071573	890	1481										
POLN	353497	broad.mit.edu	37	chr4	2097593	2097593	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctacctgctccatagaccaCcgcgtacaccaccttcttgg	6	18	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:2097593C>T	uc003ger.2	-	18	2050	c.2050G>A	c.(2050-2052)GTG>ATG	p.V684M	POLN_uc010icg.1_Missense_Mutation_p.V132M|POLN_uc010ich.1_Missense_Mutation_p.V216M	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	684					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			CCATAGACCACCGCGTACACC	0.577								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					19	43	---	---	---	---	PASS	T	2097593	T	T	2097593	3	4	4	1	0	0	0	0	1	0	0	0	12207	507	18	3	680	3	POLN	4	2097593	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	14890	2097593	189056683	891	1482										
GRK4	2868	broad.mit.edu	37	chr4	3021501	3021501	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgagcagagagccgttttctAtgctgcagagctgtgttgcg	14	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:3021501A>T	uc003ggn.1	+	9	1330	c.875A>T	c.(874-876)TAT>TTT	p.Y292F	GRK4_uc003ggo.1_Missense_Mutation_p.Y292F|GRK4_uc003ggp.1_Missense_Mutation_p.Y260F|GRK4_uc003ggq.1_Missense_Mutation_p.Y260F	NM_182982	NP_892027	P32298	GRK4_HUMAN	G protein-coupled receptor kinase 4 isoform	292	Protein kinase.					cell cortex	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GCCGTTTTCTATGCTGCAGAG	0.483													31	70	---	---	---	---	PASS	T	3021501	T	T	3021501	3	4	4	1	0	0	0	0	1	0	0	0	6791	449	16	5	909	5	GRK4	4	3021501	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	923908	3021501	188132775	892	1483										
HTT	3064	broad.mit.edu	37	chr4	3188395	3188395	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attttggccccttcctccctCcgtccggtagacatgctttt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:3188395C>T	uc011bvq.1	+	39	5089	c.4944C>T	c.(4942-4944)CTC>CTT	p.L1648L		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1646					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		CTTCCTCCCTCCGTCCGGTAG	0.413													22	63	---	---	---	---	PASS	T	3188395	T	T	3188395	2	4	4	1	0	0	0	0	0	0	0	1	7457	842	30	2		2	HTT	4	3188395	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	166894	3188395	187965881	893	1484	49	2								
HTT	3064	broad.mit.edu	37	chr4	3188396	3188396	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttggccccttcctccctcCgtccggtagacatgctttta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:3188396C>T	uc011bvq.1	+	39	5090	c.4945C>T	c.(4945-4947)CGT>TGT	p.R1649C		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1647					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		TTCCTCCCTCCGTCCGGTAGA	0.413													21	63	---	---	---	---	PASS	T	3188396	T	T	3188396	3	4	4	1	0	0	0	0	1	0	0	0	7457	652	23	1	5089	1	HTT	4	3188396	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	3188396	187965880	894	1485	49	2								
LRPAP1	4043	broad.mit.edu	37	chr4	3514746	3514746	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagatcctgccggacaggtcCtgcagatgcttcttcacctg	11	13	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:3514746C>T	uc003ghi.2	-	8	1114	c.1029G>A	c.(1027-1029)CAG>CAA	p.Q343Q	uc003ghh.3_5'Flank	NM_002337	NP_002328	P30533	AMRP_HUMAN	low density lipoprotein receptor-related protein	343	LDL receptor binding (Potential).				negative regulation of protein binding|negative regulation of very-low-density lipoprotein particle clearance|protein folding|vesicle-mediated transport	cell surface|integral to membrane|plasma membrane	asialoglycoprotein receptor activity|heparin binding|low-density lipoprotein particle receptor binding|receptor antagonist activity|unfolded protein binding|very-low-density lipoprotein particle receptor binding			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.165)		CGGACAGGTCCTGCAGATGCT	0.627													8	12	---	---	---	---	PASS	T	3514746	T	T	3514746	2	4	4	1	0	0	0	0	0	0	0	1	8964	680	24	3		3	LRPAP1	4	3514746	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	326350	3514746	187639530	895	1486										
ZBTB49	166793	broad.mit.edu	37	chr4	4314796	4314796	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgcagactcacttacgacGgcattctggtgaaaaaccat	8	11	2	2	rs147341179		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:4314796G>A	uc003ghu.2	+	5	1506	c.1331G>A	c.(1330-1332)CGG>CAG	p.R444Q	ZBTB49_uc003ghv.2_5'UTR|ZBTB49_uc010icy.2_Intron|ZBTB49_uc010icz.2_Intron	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	444	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						CACTTACGACGGCATTCTGGT	0.408													18	28	---	---	---	---	PASS	A	4314796	A	A	4314796	3	1	4	1	0	0	0	0	1	0	0	0	17547	1116	39	1	1345	1	ZBTB49	4	4314796	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	800050	4314796	186839480	896	1487										
STK32B	55351	broad.mit.edu	37	chr4	5468460	5468460	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaactgcgatcccacatttGagcttgaagagatgattcta	9	8	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:5468460G>A	uc003gih.1	+	10	1004	c.940G>A	c.(940-942)GAG>AAG	p.E314K	STK32B_uc010ida.1_Missense_Mutation_p.E267K	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	314							ATP binding|metal ion binding|protein serine/threonine kinase activity	p.E314*(1)		breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						TCCCACATTTGAGCTTGAAGA	0.443													10	30	---	---	---	---	PASS	A	5468460	A	A	5468460	3	1	4	1	0	0	0	0	1	0	0	0	15297	1291	45	2	978	2	STK32B	4	5468460	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1153664	5468460	185685816	897	1488										
EVC2	132884	broad.mit.edu	37	chr4	5624517	5624517	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttctgcaggcgccgcagctCgtcggtggccttttcaaaca	12	13	2	0	rs144270330	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:5624517C>T	uc003gij.2	-	14	2302	c.2248G>A	c.(2248-2250)GAG>AAG	p.E750K	EVC2_uc011bwb.1_Missense_Mutation_p.E190K|EVC2_uc003gik.2_Missense_Mutation_p.E670K	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	750	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						CGCCGCAGCTCGTCGGTGGCC	0.652													23	29	---	---	---	---	PASS	T	5624517	T	T	5624517	3	4	4	1	0	0	0	0	1	0	0	0	5286	893	31	2	1714	2	EVC2	4	5624517	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	156057	5624517	185529759	898	1489										
EVC2	132884	broad.mit.edu	37	chr4	5664932	5664932	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcattcacgccatcagctgaGgtgaacggcaagggttccag	12	11	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:5664932G>A	uc003gij.2	-	9	1101	c.1047C>T	c.(1045-1047)ACC>ACT	p.T349T	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Silent_p.T269T	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	349						integral to membrane				large_intestine(3)|ovary(2)	5						CATCAGCTGAGGTGAACGGCA	0.483													27	55	---	---	---	---	PASS	A	5664932	A	A	5664932	2	1	4	1	0	0	0	0	0	0	0	1	5286	987	35	3		3	EVC2	4	5664932	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	40415	5664932	185489344	899	1490										
C4orf50	389197	broad.mit.edu	37	chr4	5966796	5966796	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgctggccactccggctcGggaataggccaggactctga	14	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:5966796G>A	uc003git.1	-	6	624	c.534C>T	c.(532-534)CCC>CCT	p.P178P		NM_207405	NP_997288	Q6ZRC1	CD050_HUMAN	hypothetical protein LOC389197	178										pancreas(2)|breast(1)	3						ACTCCGGCTCGGGAATAGGCC	0.463													13	24	---	---	---	---	PASS	A	5966796	A	A	5966796	2	1	4	1	0	0	0	0	0	0	0	1	2276	1103	39	1		1	C4orf50	4	5966796	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	301864	5966796	185187480	900	1491										
JAKMIP1	152789	broad.mit.edu	37	chr4	6114460	6114460	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacccccaccttgcttttttCctgctggaactcgatctgaa	6	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:6114460C>T	uc003giu.3	-	2	394	c.118G>A	c.(118-120)GAA>AAA	p.E40K	JAKMIP1_uc010idb.1_Missense_Mutation_p.E40K|JAKMIP1_uc010idc.1_Missense_Mutation_p.E40K|JAKMIP1_uc010idd.1_Missense_Mutation_p.E40K|JAKMIP1_uc011bwc.1_Missense_Mutation_p.E40K|JAKMIP1_uc003giv.3_Missense_Mutation_p.E40K|JAKMIP1_uc010ide.2_Missense_Mutation_p.E40K	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	40	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TTGCTTTTTTCCTGCTGGAAC	0.602													25	54	---	---	---	---	PASS	T	6114460	T	T	6114460	3	4	4	1	0	0	0	0	1	0	0	0	7940	864	30	2	2532	2	JAKMIP1	4	6114460	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	147664	6114460	185039816	901	1492										
WFS1	7466	broad.mit.edu	37	chr4	6302909	6302909	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagggccctggccaccgagGtcaccgccggcctgctatcg	14	17	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:6302909G>A	uc003giy.2	+	8	1553	c.1387G>A	c.(1387-1389)GTC>ATC	p.V463I	WFS1_uc003gix.2_Missense_Mutation_p.V463I|WFS1_uc003giz.2_Missense_Mutation_p.V281I	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	463			Missing (in WFS).		endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		GGCCACCGAGGTCACCGCCGG	0.642													27	35	---	---	---	---	PASS	A	6302909	A	A	6302909	3	1	4	1	0	0	0	0	1	0	0	0	17357	1261	44	3	1413	3	WFS1	4	6302909	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	188449	6302909	184851367	902	1493										
TBC1D14	57533	broad.mit.edu	37	chr4	6925544	6925544	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcggtaaagctctatagccCgacctccaaagccctgaccc	7	17	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:6925544C>A	uc011bwg.1	+	2	507	c.428C>A	c.(427-429)CCG>CAG	p.P143Q	TBC1D14_uc003gjs.3_Missense_Mutation_p.P143Q	NM_001113361	NP_001106832	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14 isoform a	143						intracellular	Rab GTPase activator activity			ovary(1)|pancreas(1)	2						CTCTATAGCCCGACCTCCAAA	0.602													5	139	---	---	---	---	PASS	A	6925544	A	A	6925544	3	1	4	1	0	0	0	0	1	0	0	0	15600	652	23	1	430	1	TBC1D14	4	6925544	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	622635	6925544	184228732	903	1494										
ABLIM2	84448	broad.mit.edu	37	chr4	8108231	8108231	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggacactcacctttacagacGaagcacttgatgtggaagta	10	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:8108231G>A	uc003gko.2	-	2	287	c.144C>T	c.(142-144)TTC>TTT	p.F48F	ABLIM2_uc003gkj.3_Silent_p.F48F|ABLIM2_uc003gkm.3_Silent_p.F48F|ABLIM2_uc003gkp.2_Silent_p.F48F|ABLIM2_uc003gkq.2_Silent_p.F48F|ABLIM2_uc003gkr.2_Silent_p.F48F|ABLIM2_uc003gks.3_Silent_p.F48F|ABLIM2_uc011bwl.1_Silent_p.F53F	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	48	LIM zinc-binding 1.				axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3						CTTTACAGACGAAGCACTTGA	0.627													3	4	---	---	---	---	PASS	A	8108231	A	A	8108231	2	1	4	1	0	0	0	0	0	0	0	1	95	1049	37	2		2	ABLIM2	4	8108231	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1182687	8108231	183046045	904	1495										
SH3TC1	54436	broad.mit.edu	37	chr4	8229801	8229801	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctctacaccagcttggccCagctgtacagccaccatggc	8	18	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:8229801C>T	uc003gkv.3	+	12	2481	c.2380C>T	c.(2380-2382)CAG>TAG	p.Q794*	SH3TC1_uc003gkw.3_Nonsense_Mutation_p.Q718*|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	794	TPR 4.						binding			large_intestine(2)|pancreas(1)	3						CAGCTTGGCCCAGCTGTACAG	0.672													8	13	---	---	---	---	PASS	T	8229801	T	T	8229801	4	4	4	1	0	0	0	0	0	1	0	0	14261	595	21	3	2422	3	SH3TC1	4	8229801	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	121570	8229801	182924475	905	1496										
DRD5	1816	broad.mit.edu	37	chr4	9784494	9784494	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagcgcagcctgcgcgcccGacaccagcctgcgcgcttcc	12	20	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:9784494G>A	uc003gmb.3	+	1	1237	c.841G>A	c.(841-843)GAC>AAC	p.D281N		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	281	Cytoplasmic (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	CTGCGCGCCCGACACCAGCCT	0.632													11	33	---	---	---	---	PASS	A	9784494	A	A	9784494	3	1	4	1	0	0	0	0	1	0	0	0	4760	1058	37	2	843	2	DRD5	4	9784494	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1554693	9784494	181369782	906	1497										
DRD5	1816	broad.mit.edu	37	chr4	9784694	9784694	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcgacgtcttcgtctggttCggctgggctaactcctcact	10	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:9784694C>T	uc003gmb.3	+	1	1437	c.1041C>T	c.(1039-1041)TTC>TTT	p.F347F		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	347	Helical; Name=7; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	TCGTCTGGTTCGGCTGGGCTA	0.602													24	56	---	---	---	---	PASS	T	9784694	T	T	9784694	2	4	4	1	0	0	0	0	0	0	0	1	4760	883	31	2		2	DRD5	4	9784694	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	200	9784694	181369582	907	1498										
DRD5	1816	broad.mit.edu	37	chr4	9784866	9784866	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagacatcgtcttccacaagGaaatcgcagctgcctacatc	7	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:9784866G>A	uc003gmb.3	+	1	1609	c.1213G>A	c.(1213-1215)GAA>AAA	p.E405K		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	405	Cytoplasmic (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	CTTCCACAAGGAAATCGCAGC	0.587													22	27	---	---	---	---	PASS	A	9784866	A	A	9784866	3	1	4	1	0	0	0	0	1	0	0	0	4760	1175	41	2	1215	2	DRD5	4	9784866	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	172	9784866	181369410	908	1499										
SLIT2	9353	broad.mit.edu	37	chr4	20525491	20525491	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcttcagaccatcgccaaGgggaccttttcacctcttcg	8	14	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:20525491G>A	uc003gpr.1	+	13	1443	c.1239G>A	c.(1237-1239)AAG>AAA	p.K413K	SLIT2_uc003gps.1_Silent_p.K413K	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	413	LRR 11.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CCATCGCCAAGGGGACCTTTT	0.428													40	99	---	---	---	---	PASS	A	20525491	A	A	20525491	2	1	4	1	0	0	0	0	0	0	0	1	14740	991	35	3		3	SLIT2	4	20525491	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	10740625	20525491	170628785	909	1500										
SLIT2	9353	broad.mit.edu	37	chr4	20525678	20525678	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatttgtgactgccatctcaAgtggctagcggattatctcc	9	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:20525678A>T	uc003gpr.1	+	14	1520	c.1316A>T	c.(1315-1317)AAG>ATG	p.K439M	SLIT2_uc003gps.1_Missense_Mutation_p.K439M	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	439	LRRCT 2.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TGCCATCTCAAGTGGCTAGCG	0.483													26	53	---	---	---	---	PASS	T	20525678	T	T	20525678	3	4	4	1	0	0	0	0	1	0	0	0	14740	72	3	5	1370	5	SLIT2	4	20525678	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	187	20525678	170628598	910	1501										
SLIT2	9353	broad.mit.edu	37	chr4	20619197	20619197	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgatcaagtgcaagcatggGaagtgcaggctttcaggtct	14	8	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:20619197G>A	uc003gpr.1	+	36	4476	c.4272G>A	c.(4270-4272)GGG>GGA	p.G1424G	SLIT2_uc003gps.1_Silent_p.G1416G	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1424					apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GCAAGCATGGGAAGTGCAGGC	0.567													11	19	---	---	---	---	PASS	A	20619197	A	A	20619197	2	1	4	1	0	0	0	0	0	0	0	1	14740	1161	41	2		2	SLIT2	4	20619197	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	93519	20619197	170535079	911	1502										
KCNIP4	80333	broad.mit.edu	37	chr4	21699022	21699022	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaggtactgggcaaatttCagtatttcacgtttacaccg	9	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:21699022C>T	uc003gqh.1	-	1	297	c.39G>A	c.(37-39)CTG>CTA	p.L13L	KCNIP4_uc003gqi.1_Intron	NM_001035003	NP_001030175	Q6PIL6	KCIP4_HUMAN	Kv channel interacting protein 4 isoform 5	Error:Variant_position_missing_in_Q6PIL6_after_alignment						plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)				GGGCAAATTTCAGTATTTCAC	0.348													21	35	---	---	---	---	PASS	T	21699022	T	T	21699022	2	4	4	1	0	0	0	0	0	0	0	1	8042	813	29	2		2	KCNIP4	4	21699022	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1079825	21699022	169455254	912	1503										
GBA3	57733	broad.mit.edu	37	chr4	22749332	22749332	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctggttggaaccagcagatCccaactcagtgtctgaccag	10	12	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:22749332C>T	uc003gqp.3	+	3	791	c.700C>T	c.(700-702)CCC>TCC	p.P234S	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Missense_Mutation_p.P235S	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	234					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						ACCAGCAGATCCCAACTCAGT	0.433													45	116	---	---	---	---	PASS	T	22749332	T	T	22749332	3	4	4	1	0	0	0	0	1	0	0	0	6268	855	30	2	710	2	GBA3	4	22749332	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1050310	22749332	168404944	913	1504										
ANAPC4	29945	broad.mit.edu	37	chr4	25416277	25416277	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttactattctagaagattCactttataaaatgtgcatct	4	6	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:25416277C>T	uc003gro.2	+	25	1910	c.1781C>T	c.(1780-1782)TCA>TTA	p.S594L	ANAPC4_uc003grp.2_Missense_Mutation_p.S480L|ANAPC4_uc003grq.2_Missense_Mutation_p.S47L	NM_013367	NP_037499	Q9UJX5	APC4_HUMAN	anaphase-promoting complex subunit 4	594					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding|ubiquitin-protein ligase activity			ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5		Breast(46;0.0503)				CTAGAAGATTCACTTTATAAA	0.234													8	16	---	---	---	---	PASS	T	25416277	T	T	25416277	3	4	4	1	0	0	0	0	1	0	0	0	604	838	29	2	1875	2	ANAPC4	4	25416277	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2666945	25416277	165737999	914	1505										
SEL1L3	23231	broad.mit.edu	37	chr4	25819808	25819808	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggaacaagctggggtgttTgtctttcagctccttctccc	10	12	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:25819808T>G	uc003gru.3	-	9	1668	c.1516A>C	c.(1516-1518)AAA>CAA	p.K506Q		NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	506						integral to membrane	binding				0						CTGGGGTGTTTGTCTTTCAGC	0.557													13	26	---	---	---	---	PASS	G	25819808	G	G	25819808	3	3	4	1	0	0	0	0	1	0	0	0	14012	1821	63	5	1946	5	SEL1L3	4	25819808	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	403531	25819808	165334468	915	1506										
TBC1D1	23216	broad.mit.edu	37	chr4	38091726	38091726	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttagaatggagaaggaaaatCagaagctccaaggttggttt	12	4	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:38091726C>T	uc003gtb.2	+	13	2567	c.2224C>T	c.(2224-2226)CAG>TAG	p.Q742*	TBC1D1_uc011byd.1_Nonsense_Mutation_p.Q836*|TBC1D1_uc010ifd.2_Nonsense_Mutation_p.Q529*|TBC1D1_uc011byf.1_Nonsense_Mutation_p.Q613*	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	742						nucleus	Rab GTPase activator activity			ovary(1)	1						GAAGGAAAATCAGAAGCTCCA	0.438													28	50	---	---	---	---	PASS	T	38091726	T	T	38091726	4	4	4	1	0	0	0	0	0	1	0	0	15594	827	29	2	2270	2	TBC1D1	4	38091726	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	12271918	38091726	153062550	916	1507										
TLR10	81793	broad.mit.edu	37	chr4	38775613	38775613	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaatatgtttcaagctgaatGaaattttttaattcacaggt	7	4	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:38775613G>A	uc003gti.2	-	2	1978	c.1599C>T	c.(1597-1599)TTC>TTT	p.F533F	TLR10_uc003gtj.2_Silent_p.F533F|TLR10_uc003gtk.2_Silent_p.F533F	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	533	Extracellular (Potential).|LRRCT.				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						CAAGCTGAATGAAATTTTTTA	0.403													16	55	---	---	---	---	PASS	A	38775613	A	A	38775613	2	1	4	1	0	0	0	0	0	0	0	1	15947	1281	45	2		2	TLR10	4	38775613	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	683887	38775613	152378663	917	1508										
TMEM156	80008	broad.mit.edu	37	chr4	38990513	38990513	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggccttcaagtattttgcGgatagtgaggatgatcaaaa	11	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:38990513G>T	uc003gto.2	-	4	805	c.697C>A	c.(697-699)CGC>AGC	p.R233S	TMEM156_uc010ifj.2_Missense_Mutation_p.R233S	NM_024943	NP_079219	Q8N614	TM156_HUMAN	transmembrane protein 156	233	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						AGTATTTTGCGGATAGTGAGG	0.353													5	138	---	---	---	---	PASS	T	38990513	T	T	38990513	3	4	4	1	0	0	0	0	1	0	0	0	16070	1116	39	1	205	1	TMEM156	4	38990513	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	214900	38990513	152163763	918	1509										
KLB	152831	broad.mit.edu	37	chr4	39409003	39409003	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcagccctggattttatagGagtttctttttatcaatttt	6	6	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:39409003G>A	uc003gua.2	+	1	531	c.434G>A	c.(433-435)GGA>GAA	p.G145E	KLB_uc011byj.1_Missense_Mutation_p.G145E	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	145	Extracellular (Potential).|Glycosyl hydrolase-1 1.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						GATTTTATAGGAGTTTCTTTT	0.393													35	83	---	---	---	---	PASS	A	39409003	A	A	39409003	3	1	4	1	0	0	0	0	1	0	0	0	8332	1174	41	2	436	2	KLB	4	39409003	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	418490	39409003	151745273	919	1510										
RHOH	399	broad.mit.edu	37	chr4	40245121	40245121	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctacaagcccacagtgtacGagaacacaggggtggacgtc	12	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:40245121G>A	uc003guz.2	+	3	839	c.115G>A	c.(115-117)GAG>AAG	p.E39K		NM_004310	NP_004301	Q15669	RHOH_HUMAN	ras homolog gene family, member H precursor	39	Effector region (By similarity).				negative regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|T cell differentiation	cytosol|mitochondrion|plasma membrane	GTP binding|GTPase inhibitor activity|kinase inhibitor activity|Rho GTPase binding			ovary(1)|lung(1)	2						CACAGTGTACGAGAACACAGG	0.607													24	48	---	---	---	---	PASS	A	40245121	A	A	40245121	3	1	4	1	0	0	0	0	1	0	0	0	13340	1059	37	2	117	2	RHOH	4	40245121	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	836118	40245121	150909155	920	1511										
APBB2	323	broad.mit.edu	37	chr4	40832492	40832492	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caccttaccttggagcagatCtcgtggagacttgtggcaat	11	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:40832492C>T	uc003gvl.2	-	13	2259	c.1629G>A	c.(1627-1629)GAG>GAA	p.E543E	APBB2_uc010ifu.2_Silent_p.E115E|APBB2_uc003gvm.2_Silent_p.E522E|APBB2_uc003gvn.2_Silent_p.E544E|APBB2_uc003gvk.2_5'UTR	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	543	PID 1.				cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						TGGAGCAGATCTCGTGGAGAC	0.463													13	34	---	---	---	---	PASS	T	40832492	T	T	40832492	2	4	4	1	0	0	0	0	0	0	0	1	761	912	32	2		2	APBB2	4	40832492	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	587371	40832492	150321784	921	1512										
BEND4	389206	broad.mit.edu	37	chr4	42119665	42119665	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccgcccctgtcgggcgtgaCcgacagcgtcgctgaacact	12	17	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:42119665C>T	uc003gwn.2	-	6	2055	c.1475G>A	c.(1474-1476)GGT>GAT	p.G492D	BEND4_uc003gwm.2_3'UTR	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	492	BEN.										0						TCGGGCGTGACCGACAGCGTC	0.522													4	17	---	---	---	---	PASS	T	42119665	T	T	42119665	3	4	4	1	0	0	0	0	1	0	0	0	1400	507	18	3	133	3	BEND4	4	42119665	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1287173	42119665	149034611	922	1513										
GRXCR1	389207	broad.mit.edu	37	chr4	42895559	42895559	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgccagtgagaagggtttTggtacaagaagagtcaacat	13	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:42895559T>C	uc003gwt.2	+	1	276	c.276T>C	c.(274-276)TTT>TTC	p.F92F		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	92					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						AGAAGGGTTTTGGTACAAGAA	0.448													37	72	---	---	---	---	PASS	C	42895559	C	C	42895559	2	2	4	1	0	0	0	0	0	0	0	1	6812	1809	63	5		5	GRXCR1	4	42895559	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	775894	42895559	148258717	923	1514										
GABRG1	2565	broad.mit.edu	37	chr4	46066475	46066475	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacagcttgaaaattccagtGgacaggaatgttcatccatg	9	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:46066475G>A	uc003gxb.2	-	5	760	c.608C>T	c.(607-609)CCA>CTA	p.P203L		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	203	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		AAATTCCAGTGGACAGGAATG	0.269													22	39	---	---	---	---	PASS	A	46066475	A	A	46066475	3	1	4	1	0	0	0	0	1	0	0	0	6171	1348	47	3	809	3	GABRG1	4	46066475	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3170916	46066475	145087801	924	1515										
GABRA2	2555	broad.mit.edu	37	chr4	46252353	46252353	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgacccctaatacaggttctCtgtttaaatatgtagcccag	7	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:46252353C>T	uc003gxc.3	-	9	2001	c.1328G>A	c.(1327-1329)AGA>AAA	p.R443K	GABRA2_uc010igc.2_Missense_Mutation_p.R443K|GABRA2_uc011bzc.1_Missense_Mutation_p.R448K	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	443					gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TACAGGTTCTCTGTTTAAATA	0.348													37	38	---	---	---	---	PASS	T	46252353	T	T	46252353	3	4	4	1	0	0	0	0	1	0	0	0	6161	913	32	2	31	2	GABRA2	4	46252353	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	185878	46252353	144901923	925	1516										
ATP10D	57205	broad.mit.edu	37	chr4	47559988	47559988	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgaatggcaaggcagagtCcctccctggacagccattgg	12	13	0	2	rs143517951		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:47559988C>T	uc003gxk.1	+	12	2296	c.2132C>T	c.(2131-2133)TCC>TTC	p.S711F	ATP10D_uc003gxl.1_Intron	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	711	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						AAGGCAGAGTCCCTCCCTGGA	0.572													12	35	---	---	---	---	PASS	T	47559988	T	T	47559988	3	4	4	1	0	0	0	0	1	0	0	0	1118	855	30	2	2174	2	ATP10D	4	47559988	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1307635	47559988	143594288	926	1517										
CORIN	10699	broad.mit.edu	37	chr4	47682236	47682236	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catggcgatgcagcgcccgtCcccgcagcgatgctctgttg	13	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:47682236C>T	uc003gxm.2	-	8	1147	c.1054G>A	c.(1054-1056)GAC>AAC	p.D352N	CORIN_uc011bzf.1_Missense_Mutation_p.D213N|CORIN_uc011bzg.1_Missense_Mutation_p.D285N|CORIN_uc011bzh.1_Intron|CORIN_uc011bzi.1_Intron|CORIN_uc003gxn.3_3'UTR	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	352	Extracellular (Potential).|LDL-receptor class A 3.				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						CAGCGCCCGTCCCCGCAGCGA	0.542													4	27	---	---	---	---	PASS	T	47682236	T	T	47682236	3	4	4	1	0	0	0	0	1	0	0	0	3752	855	30	2	2134	2	CORIN	4	47682236	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	122248	47682236	143472040	927	1518										
CNGA1	1259	broad.mit.edu	37	chr4	47942791	47942791	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catatttacctgtccttgttCgtacaaacatatcgattaaa	4	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:47942791C>T	uc003gxt.3	-	10	919	c.653G>A	c.(652-654)CGA>CAA	p.R218Q	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.R287Q	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	218	Cytoplasmic (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						TGTCCTTGTTCGTACAAACAT	0.294													12	28	---	---	---	---	PASS	T	47942791	T	T	47942791	3	4	4	1	0	0	0	0	1	0	0	0	3596	884	31	2	1427	2	CNGA1	4	47942791	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	260555	47942791	143211485	928	1519										
TXK	7294	broad.mit.edu	37	chr4	48073677	48073677	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttccttctgtaaaaacttCccacattaaaactcctgcaa	2	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:48073677C>T	uc003gxx.3	-	14	1458	c.1372G>A	c.(1372-1374)GAA>AAA	p.E458K	TXK_uc010igj.2_RNA|TXK_uc011bzj.1_Missense_Mutation_p.E145K	NM_003328	NP_003319	P42681	TXK_HUMAN	TXK tyrosine kinase	458	Protein kinase.					cytoplasm	ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GTAAAAACTTCCCACATTAAA	0.388													34	93	---	---	---	---	PASS	T	48073677	T	T	48073677	3	4	4	1	0	0	0	0	1	0	0	0	16783	864	30	2	219	2	TXK	4	48073677	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	130886	48073677	143080599	929	1520										
TXK	7294	broad.mit.edu	37	chr4	48088613	48088613	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaactgaccgcttccaatctCctttataaaagccaactcag	4	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:48088613C>T	uc003gxx.3	-	10	912	c.826G>A	c.(826-828)GAG>AAG	p.E276K		NM_003328	NP_003319	P42681	TXK_HUMAN	TXK tyrosine kinase	276	Protein kinase.					cytoplasm	ATP binding|non-membrane spanning protein tyrosine kinase activity				0						CTTCCAATCTCCTTTATAAAA	0.408													14	37	---	---	---	---	PASS	T	48088613	T	T	48088613	3	4	4	1	0	0	0	0	1	0	0	0	16783	864	30	2	781	2	TXK	4	48088613	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	14936	48088613	143065663	930	1521										
TEC	7006	broad.mit.edu	37	chr4	48169961	48169961	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctagtggaattggtggggGaggccttcgctagacaagga	16	6	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:48169961G>A	uc003gxz.2	-	7	596	c.505C>T	c.(505-507)CCC>TCC	p.P169S		NM_003215	NP_003206	P42680	TEC_HUMAN	tec protein tyrosine kinase	169					intracellular protein kinase cascade	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)	9						ATTGGTGGGGGAGGCCTTCGC	0.383													35	48	---	---	---	---	PASS	A	48169961	A	A	48169961	3	1	4	1	0	0	0	0	1	0	0	0	15739	1174	41	2	1438	2	TEC	4	48169961	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	81348	48169961	142984315	931	1522										
OCIAD2	132299	broad.mit.edu	37	chr4	48906512	48906512	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagtatacctgcttgcttgGtggtggaaaatgggcatctt	12	6	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:48906512G>A	uc003gyt.2	-	2	258	c.55C>T	c.(55-57)CCA>TCA	p.P19S	OCIAD2_uc003gyu.2_Missense_Mutation_p.P19S	NM_001014446	NP_001014446	Q56VL3	OCAD2_HUMAN	OCIA domain containing 2 isoform 1	19	OCIA.					endosome					0						TGCTTGCTTGGTGGTGGAAAA	0.299													21	53	---	---	---	---	PASS	A	48906512	A	A	48906512	3	1	4	1	0	0	0	0	1	0	0	0	10818	1261	44	3	433	3	OCIAD2	4	48906512	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	736551	48906512	142247764	932	1523										
CWH43	80157	broad.mit.edu	37	chr4	49052864	49052864	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagaaaattcattttaatccCaggtgagttcctttatgctg	8	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:49052864C>T	uc003gyv.2	+	15	2201	c.2019C>T	c.(2017-2019)CCC>CCT	p.P673P	CWH43_uc011bzl.1_Silent_p.P646P	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	673					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						ATTTTAATCCCAGGTGAGTTC	0.383													11	27	---	---	---	---	PASS	T	49052864	T	T	49052864	2	4	4	1	0	0	0	0	0	0	0	1	4073	581	21	3		3	CWH43	4	49052864	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	146352	49052864	142101412	933	1524										
USP46	64854	broad.mit.edu	37	chr4	53476783	53476783	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcttcatctttgctactaaCctgaaacaaaaaacagaaac	3	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:53476783C>G	uc003gzn.2	-	5	747	c.562G>C	c.(562-564)GTT>CTT	p.V188L	USP46_uc003gzm.3_Missense_Mutation_p.V181L|USP46_uc011bzr.1_Missense_Mutation_p.V165L|USP46_uc011bzs.1_Missense_Mutation_p.V72L	NM_022832	NP_073743	P62068	UBP46_HUMAN	ubiquitin specific peptidase 46 isoform 1	188					behavior|protein deubiquitination|regulation of synaptic transmission, GABAergic|ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0295)			TTGCTACTAACCTGAAACAAA	0.343													15	17	---	---	---	---	PASS	G	53476783	G	G	53476783	3	3	4	1	0	0	0	0	1	0	0	0	17074	521	18	4	558	4	USP46	4	53476783	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4423919	53476783	137677493	934	1525										
LNX1	84708	broad.mit.edu	37	chr4	54440061	54440061	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgtggcagatgaggtcatCatccacttcctctggatagc	11	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:54440061C>T	uc003hag.3	-	2	365	c.109G>A	c.(109-111)GAT>AAT	p.D37N	PDGFRA_uc003haa.2_Intron|LNX1_uc003hah.3_RNA	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	37						cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			ATGAGGTCATCATCCACTTCC	0.572													10	16	---	---	---	---	PASS	T	54440061	T	T	54440061	3	4	4	1	0	0	0	0	1	0	0	0	8865	826	29	2	2213	2	LNX1	4	54440061	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	963278	54440061	136714215	935	1526										
KIT	3815	broad.mit.edu	37	chr4	55564553	55564553	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagaagtgaccaattattcCctcaaggggtgccaggggaa	12	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:55564553C>T	uc010igr.2	+	3	528	c.441C>T	c.(439-441)TCC>TCT	p.S147S	KIT_uc010igs.2_Silent_p.S147S	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	147	Extracellular (Potential).|Ig-like C2-type 2.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CCAATTATTCCCTCAAGGGGT	0.532		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				10	31	---	---	---	---	PASS	T	55564553	T	T	55564553	2	4	4	1	0	0	0	0	0	0	0	1	8329	610	22	3		3	KIT	4	55564553	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1124492	55564553	135589723	936	1527										
KIAA1211	57482	broad.mit.edu	37	chr4	57180318	57180318	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaacccaatccgctggattCcgaggaagagagaagacgcc	13	11	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:57180318C>T	uc003hbk.2	+	8	1041	c.650C>T	c.(649-651)TCC>TTC	p.S217F	KIAA1211_uc010iha.2_Missense_Mutation_p.S210F|KIAA1211_uc011bzz.1_Missense_Mutation_p.S127F|KIAA1211_uc003hbm.1_Missense_Mutation_p.S103F	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	217	Glu-rich.									ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					CCGCTGGATTCCGAGGAAGAG	0.607													6	23	---	---	---	---	PASS	T	57180318	T	T	57180318	3	4	4	1	0	0	0	0	1	0	0	0	8215	855	30	2	668	2	KIAA1211	4	57180318	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1615765	57180318	133973958	937	1528										
REST	5978	broad.mit.edu	37	chr4	57797662	57797662	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagaagaggcatcaggagacCaaaaattactcaacacaggt	10	8	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:57797662C>T	uc003hch.2	+	4	2985	c.2638C>T	c.(2638-2640)CAA>TAA	p.Q880*	REST_uc003hci.2_Nonsense_Mutation_p.Q880*|REST_uc010ihf.2_Nonsense_Mutation_p.Q554*	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	880					cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					ATCAGGAGACCAAAAATTACT	0.448													104	154	---	---	---	---	PASS	T	57797662	T	T	57797662	4	4	4	1	0	0	0	0	0	1	0	0	13234	595	21	3	2648	3	REST	4	57797662	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	617344	57797662	133356614	938	1529										
EPHA5	2044	broad.mit.edu	37	chr4	66233105	66233105	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaaaatgcatcttttcctCttctggatcttgttttgctt	6	8	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:66233105C>T	uc003hcy.2	-	10	2087	c.1894G>A	c.(1894-1896)GAG>AAG	p.E632K	EPHA5_uc003hcx.2_Missense_Mutation_p.E564K|EPHA5_uc003hcz.2_Missense_Mutation_p.E610K|EPHA5_uc011cah.1_Missense_Mutation_p.E633K|EPHA5_uc011cai.1_Missense_Mutation_p.E611K|EPHA5_uc003hda.2_Missense_Mutation_p.E633K	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	632	Cytoplasmic (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						ATCTTTTCCTCTTCTGGATCT	0.358										TSP Lung(17;0.13)			9	21	---	---	---	---	PASS	T	66233105	T	T	66233105	3	4	4	1	0	0	0	0	1	0	0	0	5170	922	32	2	1255	2	EPHA5	4	66233105	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	8435443	66233105	124921171	939	1530										
TMPRSS11D	9407	broad.mit.edu	37	chr4	68719814	68719814	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caattcttccactcaaagtcCtgtattcctgtgtagctggt	7	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:68719814C>T	uc003hdq.2	-	3	286	c.221G>A	c.(220-222)AGG>AAG	p.R74K	LOC550112_uc003hdl.3_Intron|TMPRSS11D_uc011caj.1_5'UTR	NM_004262	NP_004253	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	74	SEA.|Extracellular (Potential).				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						ACTCAAAGTCCTGTATTCCTG	0.284													24	62	---	---	---	---	PASS	T	68719814	T	T	68719814	3	4	4	1	0	0	0	0	1	0	0	0	16238	681	24	3	1067	3	TMPRSS11D	4	68719814	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2486709	68719814	122434462	940	1531										
TMPRSS11A	339967	broad.mit.edu	37	chr4	68788546	68788546	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccacactgatggatgttatCatactgaagggaagcttgcc	10	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:68788546C>T	uc003hdr.1	-	7	749	c.628G>A	c.(628-630)GAT>AAT	p.D210N	LOC550112_uc003hdl.3_Intron|TMPRSS11A_uc003hds.1_Missense_Mutation_p.D207N	NM_182606	NP_872412	Q6ZMR5	TM11A_HUMAN	transmembrane protease, serine 11A isoform 1	210	Peptidase S1.|Extracellular (Potential).				cell cycle|proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			skin(1)	1						TGGATGTTATCATACTGAAGG	0.468													12	23	---	---	---	---	PASS	T	68788546	T	T	68788546	3	4	4	1	0	0	0	0	1	0	0	0	16236	826	29	2	653	2	TMPRSS11A	4	68788546	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	68732	68788546	122365730	941	1532										
TMPRSS11F	389208	broad.mit.edu	37	chr4	68930597	68930597	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaataattttcctcacatttCgtttcactgcgggtggtgtt	9	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:68930597C>T	uc003hdt.1	-	8	870	c.821G>A	c.(820-822)CGA>CAA	p.R274Q	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron|SYT14L_uc010ihn.2_5'Flank	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	274	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						CCTCACATTTCGTTTCACTGC	0.343													15	20	---	---	---	---	PASS	T	68930597	T	T	68930597	3	4	4	1	0	0	0	0	1	0	0	0	16240	884	31	2	507	2	TMPRSS11F	4	68930597	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	142051	68930597	122223679	942	1533										
UGT2B15	7366	broad.mit.edu	37	chr4	69533906	69533906	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaataatgtagtgggtcttCctgatggaaaaaaacaaaac	8	6	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:69533906C>T	uc011cal.1	-	2	763	c.725G>A	c.(724-726)GGA>GAA	p.G242E		NM_001076	NP_001067	P54855	UDB15_HUMAN	UDP glycosyltransferase 2B15 precursor	242					steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity				0						AGTGGGTCTTCCTGATGGAAA	0.368													39	63	---	---	---	---	PASS	T	69533906	T	T	69533906	3	4	4	1	0	0	0	0	1	0	0	0	16955	869	30	2	2504	2	UGT2B15	4	69533906	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	603309	69533906	121620370	943	1534										
UGT2A3	79799	broad.mit.edu	37	chr4	69817217	69817217	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctaggtcaacaaatatttCattttcttctgttctgtcct	5	9	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:69817217C>T	uc003hef.2	-	1	293	c.262G>A	c.(262-264)GAA>AAA	p.E88K	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	88	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						ACAAATATTTCATTTTCTTCT	0.363													19	55	---	---	---	---	PASS	T	69817217	T	T	69817217	3	4	4	1	0	0	0	0	1	0	0	0	16952	835	29	2	1345	2	UGT2A3	4	69817217	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	283311	69817217	121337059	944	1535										
UGT2B4	7363	broad.mit.edu	37	chr4	70361096	70361096	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagggtattttaagtaactCggccagcagctcaccaaagg	10	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:70361096C>T	uc003hek.3	-	1	531	c.484G>A	c.(484-486)GAG>AAG	p.E162K	UGT2B4_uc011cap.1_Missense_Mutation_p.E26K|UGT2B4_uc003hel.3_Missense_Mutation_p.E162K	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	162					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						TTAAGTAACTCGGCCAGCAGC	0.438													14	33	---	---	---	---	PASS	T	70361096	T	T	70361096	3	4	4	1	0	0	0	0	1	0	0	0	16958	893	31	2	1126	2	UGT2B4	4	70361096	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	543879	70361096	120793180	945	1536										
UGT2A1	10941	broad.mit.edu	37	chr4	70513040	70513040	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttactttggccatctcctgaTagaatctccaaatggttgaa	7	9	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:70513040T>A	uc003hem.3	-	1	386	c.323A>T	c.(322-324)TAT>TTT	p.Y108F	UGT2A1_uc011caq.1_Missense_Mutation_p.Y108F|UGT2A1_uc010ihu.2_Missense_Mutation_p.Y108F|UGT2A1_uc010iht.2_Missense_Mutation_p.Y108F	NM_006798	NP_006789	Q9Y4X1	UD2A1_HUMAN	UDP glucuronosyltransferase 2 family,	108	Extracellular (Potential).				detection of chemical stimulus|sensory perception of smell	integral to membrane	glucuronosyltransferase activity|glucuronosyltransferase activity			ovary(1)	1						CATCTCCTGATAGAATCTCCA	0.423													16	51	---	---	---	---	PASS	A	70513040	A	A	70513040	3	1	4	1	0	0	0	0	1	0	0	0	16950	1406	49	5	1284	5	UGT2A1	4	70513040	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	151944	70513040	120641236	946	1537										
SULT1E1	6783	broad.mit.edu	37	chr4	70710047	70710047	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtatcaattttatcacctCttttctgatatcctagggag	6	8	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:70710047C>T	uc003heo.2	-	7	717	c.604G>A	c.(604-606)GAG>AAG	p.E202K		NM_005420	NP_005411	P49888	ST1E1_HUMAN	estrogen sulfotransferase	202	PAPS.				3'-phosphoadenosine 5'-phosphosulfate metabolic process|sulfation|xenobiotic metabolic process	cytosol|nuclear membrane	estrone sulfotransferase activity|flavonol 3-sulfotransferase activity|steroid binding|steroid sulfotransferase activity			ovary(1)	1						TTTATCACCTCTTTTCTGATA	0.338													15	42	---	---	---	---	PASS	T	70710047	T	T	70710047	3	4	4	1	0	0	0	0	1	0	0	0	15377	922	32	2	288	2	SULT1E1	4	70710047	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	197007	70710047	120444229	947	1538										
CSN2	1447	broad.mit.edu	37	chr4	70826673	70826673	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgcacatacctcccttgcaAgagcaagagccaccaggcag	10	14	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:70826673A>G	uc003hes.3	-	1	54	c.41T>C	c.(40-42)CTT>CCT	p.L14P	CSN2_uc003het.3_Missense_Mutation_p.L14P	NM_001891	NP_001882	P05814	CASB_HUMAN	casein beta precursor	14					calcium ion transport	extracellular region	calcium ion binding|enzyme inhibitor activity|transporter activity				0						CTCCCTTGCAAGAGCAAGAGC	0.388													9	42	---	---	---	---	PASS	G	70826673	G	G	70826673	3	3	4	1	0	0	0	0	1	0	0	0	3948	72	3	5	663	5	CSN2	4	70826673	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	116626	70826673	120327603	948	1539										
C4orf35	85438	broad.mit.edu	37	chr4	71201725	71201725	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttgaatccagatatgacttCgttgtccctgcatcaatagc	8	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:71201725C>T	uc003hff.2	+	1	1055	c.969C>T	c.(967-969)TTC>TTT	p.F323F		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	323						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				GATATGACTTCGTTGTCCCTG	0.413													28	48	---	---	---	---	PASS	T	71201725	T	T	71201725	2	4	4	1	0	0	0	0	0	0	0	1	2265	883	31	2		2	C4orf35	4	71201725	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	375052	71201725	119952551	949	1540										
SMR3B	10879	broad.mit.edu	37	chr4	71255408	71255408	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtcaaagaggccccagggGaccatatccacctggaccgc	12	14	1	1	rs149721413		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:71255408G>A	uc011cas.1	+	3	164	c.83G>A	c.(82-84)GGA>GAA	p.G28E	SMR3B_uc003hfh.2_Missense_Mutation_p.G28E	NM_006685	NP_006676	P02814	SMR3B_HUMAN	submaxillary gland androgen regulated protein 3	28	Pro-rich.					extracellular space				skin(1)	1		all_hematologic(202;0.196)				GGCCCCAGGGGACCATATCCA	0.478													16	38	---	---	---	---	PASS	A	71255408	A	A	71255408	3	1	4	1	0	0	0	0	1	0	0	0	14812	1174	41	2	89	2	SMR3B	4	71255408	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	53683	71255408	119898868	950	1541										
ENAM	10117	broad.mit.edu	37	chr4	71510361	71510361	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttccaccaccggaactcCatctagcgatggaaggcaaa	8	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:71510361C>T	uc011caw.1	+	9	3499	c.3218C>T	c.(3217-3219)CCA>CTA	p.P1073L		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	1073					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			ACCGGAACTCCATCTAGCGAT	0.438													28	76	---	---	---	---	PASS	T	71510361	T	T	71510361	3	4	4	1	0	0	0	0	1	0	0	0	5112	594	21	3	3248	3	ENAM	4	71510361	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	254953	71510361	119643915	951	1542										
IGJ	3512	broad.mit.edu	37	chr4	71527909	71527909	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttacatttgttgtcaacaaGaacaatcctttcatcttctt	3	10	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:71527909G>A	uc003hfn.3	-	2	229	c.88C>T	c.(88-90)CTT>TTT	p.L30F	IGJ_uc010ihz.2_Missense_Mutation_p.L46F	NM_144646	NP_653247	P01591	IGJ_HUMAN	immunoglobulin J chain	30					immune response	extracellular region	antigen binding				0			Lung(101;0.235)			TTGTCAACAAGAACAATCCTT	0.343													23	37	---	---	---	---	PASS	A	71527909	A	A	71527909	3	1	4	1	0	0	0	0	1	0	0	0	7592	942	33	2	403	2	IGJ	4	71527909	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	17548	71527909	119626367	952	1543										
RUFY3	22902	broad.mit.edu	37	chr4	71672244	71672244	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctcatagaatgtgtgtaaGaactgcagcggaaccttctg	10	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:71672244G>A	uc003hfr.2	+	18	2326	c.1731G>A	c.(1729-1731)AAG>AAA	p.K577K	RUFY3_uc011cay.1_Silent_p.K513K	NM_001037442	NP_001032519	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 1	Error:Variant_position_missing_in_Q7L099_after_alignment					negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			ATGTGTGTAAGAACTGCAGCG	0.443													38	95	---	---	---	---	PASS	A	71672244	A	A	71672244	2	1	4	1	0	0	0	0	0	0	0	1	13740	933	33	2		2	RUFY3	4	71672244	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	144335	71672244	119482032	953	1544										
NPFFR2	10886	broad.mit.edu	37	chr4	73013255	73013255	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggcaacagcagtgtcaatcCcatcatttatggtttcttca	7	11	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:73013255C>T	uc003hgg.2	+	4	1393	c.1295C>T	c.(1294-1296)CCC>CTC	p.P432L	NPFFR2_uc010iig.1_Missense_Mutation_p.P214L|NPFFR2_uc003hgi.2_Missense_Mutation_p.P333L|NPFFR2_uc003hgh.2_Missense_Mutation_p.P330L|NPFFR2_uc003hgj.2_RNA	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	432	Helical; Name=7; (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			AGTGTCAATCCCATCATTTAT	0.458													27	41	---	---	---	---	PASS	T	73013255	T	T	73013255	3	4	4	1	0	0	0	0	1	0	0	0	10578	623	22	3	1315	3	NPFFR2	4	73013255	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1341011	73013255	118141021	954	1545										
ADAMTS3	9508	broad.mit.edu	37	chr4	73169723	73169723	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcccactccacaccaagatCtatgaaggtccgcgacttgg	8	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:73169723C>T	uc003hgk.1	-	17	2372	c.2335G>A	c.(2335-2337)GAT>AAT	p.D779N	ADAMTS3_uc003hgl.2_Missense_Mutation_p.D120N	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	779	Spacer.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			ACACCAAGATCTATGAAGGTC	0.413													66	157	---	---	---	---	PASS	T	73169723	T	T	73169723	3	4	4	1	0	0	0	0	1	0	0	0	267	913	32	2	1306	2	ADAMTS3	4	73169723	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	156468	73169723	117984553	955	1546										
ALB	213	broad.mit.edu	37	chr4	74270067	74270067	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagtgggtaacctttatttCccttctttttctctttagct	6	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:74270067C>T	uc003hgs.3	+	1	96	c.23C>T	c.(22-24)TCC>TTC	p.S8F	ALB_uc003hgw.3_Missense_Mutation_p.S8F|ALB_uc011cbe.1_5'UTR|ALB_uc003hgt.3_Missense_Mutation_p.S8F|ALB_uc010iii.2_Missense_Mutation_p.S8F|ALB_uc003hgu.3_5'UTR|ALB_uc003hgv.3_5'UTR|ALB_uc011cbf.1_5'Flank	NM_000477	NP_000468	P02768	ALBU_HUMAN	albumin preproprotein	8					bile acid and bile salt transport|bile acid metabolic process|cellular response to starvation|hemolysis by symbiont of host erythrocytes|lipoprotein metabolic process|maintenance of mitochondrion location|negative regulation of apoptosis|platelet activation|platelet degranulation|sodium-independent organic anion transport|transmembrane transport	extracellular space|platelet alpha granule lumen|protein complex	antioxidant activity|chaperone binding|copper ion binding|DNA binding|drug binding|fatty acid binding|pyridoxal phosphate binding|toxin binding			ovary(3)|skin(3)	6	Breast(15;0.00102)		Epithelial(6;4.8e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000263)|all cancers(17;0.000472)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Acenocoumarol(DB01418)|Acitretin(DB00459)|Alfentanil(DB00802)|Aluminium(DB01370)|Auranofin(DB00995)|Bismuth(DB01402)|Captopril(DB01197)|Carboplatin(DB00958)|Cefalotin(DB00456)|Cefazolin(DB01327)|Cefonicid(DB01328)|Cefoperazone(DB01329)|Chlorpheniramine(DB01114)|Chlorpromazine(DB00477)|Ciprofloxacin(DB00537)|Clonazepam(DB01068)|Cloxacillin(DB01147)|Cytarabine(DB00987)|Dantrolene(DB01219)|Diclofenac(DB00586)|Diflunisal(DB00861)|Digitoxin(DB01396)|Estrone(DB00655)|Ethacrynic acid(DB00903)|Etodolac(DB00749)|Flurbiprofen(DB00712)|Gadobenate Dimeglumine(DB00743)|Gatifloxacin(DB01044)|Gliclazide(DB01120)|Halothane(DB01159)|Human Serum Albumin(DB00062)|Hyaluronidase(DB00070)|Ibuprofen(DB01050)|Insulin-detemir(DB01307)|Insulin-glargine(DB01308)|Iodipamide(DB04711)|Ketoprofen(DB01009)|Levamisole(DB00848)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Mefenamic acid(DB00784)|Mephenytoin(DB00532)|Methotrexate(DB00563)|Nortriptyline(DB00540)|Oxazepam(DB00842)|Paclitaxel(DB01229)|Phenprocoumon(DB00946)|Probenecid(DB01032)|Propofol(DB00818)|Pyridoxine(DB00165)|Salicyclic acid(DB00936)|Saquinavir(DB01232)|Serum albumin(DB00096)|Serum albumin iodonated(DB00064)|Sodium lauryl sulfate(DB00815)|Sucralfate(DB00364)|Sulfamethizole(DB00576)|Sulindac(DB00605)|Suprofen(DB00870)|Testosterone(DB00624)|Xanthophyll(DB00137)	ACCTTTATTTCCCTTCTTTTT	0.393													23	31	---	---	---	---	PASS	T	74270067	T	T	74270067	3	4	4	1	0	0	0	0	1	0	0	0	486	855	30	2	25	2	ALB	4	74270067	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1100344	74270067	116884209	956	1547										
ALB	213	broad.mit.edu	37	chr4	74283961	74283961	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcccaaagagtttaatgctGaaacattcaccttccatgca	5	11	1	2	rs74826639		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:74283961G>A	uc003hgs.3	+	12	1658	c.1585G>A	c.(1585-1587)GAA>AAA	p.E529K	ALB_uc003hgw.3_Missense_Mutation_p.E337K|ALB_uc011cbe.1_Missense_Mutation_p.E208K|ALB_uc003hgt.3_Missense_Mutation_p.E529K|ALB_uc010iii.2_Missense_Mutation_p.E414K|ALB_uc003hgu.3_Missense_Mutation_p.E379K|ALB_uc003hgv.3_Missense_Mutation_p.E208K|ALB_uc011cbf.1_Missense_Mutation_p.E419K|ALB_uc010iij.2_RNA|ALB_uc003hgx.3_Missense_Mutation_p.E208K	NM_000477	NP_000468	P02768	ALBU_HUMAN	albumin preproprotein	529	Albumin 3.		E -> K (in Ortonovo).		bile acid and bile salt transport|bile acid metabolic process|cellular response to starvation|hemolysis by symbiont of host erythrocytes|lipoprotein metabolic process|maintenance of mitochondrion location|negative regulation of apoptosis|platelet activation|platelet degranulation|sodium-independent organic anion transport|transmembrane transport	extracellular space|platelet alpha granule lumen|protein complex	antioxidant activity|chaperone binding|copper ion binding|DNA binding|drug binding|fatty acid binding|pyridoxal phosphate binding|toxin binding			ovary(3)|skin(3)	6	Breast(15;0.00102)		Epithelial(6;4.8e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000263)|all cancers(17;0.000472)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Acenocoumarol(DB01418)|Acitretin(DB00459)|Alfentanil(DB00802)|Aluminium(DB01370)|Auranofin(DB00995)|Bismuth(DB01402)|Captopril(DB01197)|Carboplatin(DB00958)|Cefalotin(DB00456)|Cefazolin(DB01327)|Cefonicid(DB01328)|Cefoperazone(DB01329)|Chlorpheniramine(DB01114)|Chlorpromazine(DB00477)|Ciprofloxacin(DB00537)|Clonazepam(DB01068)|Cloxacillin(DB01147)|Cytarabine(DB00987)|Dantrolene(DB01219)|Diclofenac(DB00586)|Diflunisal(DB00861)|Digitoxin(DB01396)|Estrone(DB00655)|Ethacrynic acid(DB00903)|Etodolac(DB00749)|Flurbiprofen(DB00712)|Gadobenate Dimeglumine(DB00743)|Gatifloxacin(DB01044)|Gliclazide(DB01120)|Halothane(DB01159)|Human Serum Albumin(DB00062)|Hyaluronidase(DB00070)|Ibuprofen(DB01050)|Insulin-detemir(DB01307)|Insulin-glargine(DB01308)|Iodipamide(DB04711)|Ketoprofen(DB01009)|Levamisole(DB00848)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Mefenamic acid(DB00784)|Mephenytoin(DB00532)|Methotrexate(DB00563)|Nortriptyline(DB00540)|Oxazepam(DB00842)|Paclitaxel(DB01229)|Phenprocoumon(DB00946)|Probenecid(DB01032)|Propofol(DB00818)|Pyridoxine(DB00165)|Salicyclic acid(DB00936)|Saquinavir(DB01232)|Serum albumin(DB00096)|Serum albumin iodonated(DB00064)|Sodium lauryl sulfate(DB00815)|Sucralfate(DB00364)|Sulfamethizole(DB00576)|Sulindac(DB00605)|Suprofen(DB00870)|Testosterone(DB00624)|Xanthophyll(DB00137)	GTTTAATGCTGAAACATTCAC	0.418													19	53	---	---	---	---	PASS	A	74283961	A	A	74283961	3	1	4	1	0	0	0	0	1	0	0	0	486	1291	45	2	1631	2	ALB	4	74283961	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	13894	74283961	116870315	957	1548										
CXCL5	6374	broad.mit.edu	37	chr4	74863790	74863790	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctggatcaagacaaatttCcttcccgttcttcagggagg	9	10	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:74863790C>T	uc003hhk.2	-	3	383	c.265G>A	c.(265-267)GAA>AAA	p.E89K		NM_002994	NP_002985	P42830	CXCL5_HUMAN	chemokine (C-X-C motif) ligand 5 precursor	89					cell-cell signaling|chemotaxis|immune response|positive regulation of cell proliferation|signal transduction	extracellular space	chemokine activity				0	Breast(15;0.00136)		all cancers(17;0.00273)|Lung(101;0.196)			AGACAAATTTCCTTCCCGTTC	0.423													37	85	---	---	---	---	PASS	T	74863790	T	T	74863790	3	4	4	1	0	0	0	0	1	0	0	0	4087	864	30	2	87	2	CXCL5	4	74863790	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	579829	74863790	116290486	958	1549										
PARM1	25849	broad.mit.edu	37	chr4	75937898	75937898	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attgggaaggcacaaacacaGacccctcaccttctgggttc	9	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:75937898G>A	uc003hih.1	+	2	547	c.307G>A	c.(307-309)GAC>AAC	p.D103N		NM_015393	NP_056208	Q6UWI2	PARM1_HUMAN	prostatic androgen-repressed message-1	103	Extracellular (Potential).				positive regulation of telomerase activity	early endosome|endosome membrane|Golgi membrane|integral to membrane|late endosome|plasma membrane				ovary(1)	1						CACAAACACAGACCCCTCACC	0.542													78	87	---	---	---	---	PASS	A	75937898	A	A	75937898	3	1	4	1	0	0	0	0	1	0	0	0	11452	942	33	2	313	2	PARM1	4	75937898	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1074108	75937898	115216378	959	1550										
CDKL2	8999	broad.mit.edu	37	chr4	76551160	76551160	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccaaccaaacccaggttttCatatttttccattttaattt	2	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:76551160C>T	uc003hiq.2	-	2	538	c.13G>A	c.(13-15)GAA>AAA	p.E5K	CDKL2_uc011cbp.1_Missense_Mutation_p.E5K|CDKL2_uc010iix.1_RNA	NM_003948	NP_003939	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2	5	Protein kinase.				sex differentiation|signal transduction	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(2)|stomach(2)|breast(2)|skin(1)	7			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			CCCAGGTTTTCATATTTTTCC	0.353													23	41	---	---	---	---	PASS	T	76551160	T	T	76551160	3	4	4	1	0	0	0	0	1	0	0	0	3154	835	29	2	1508	2	CDKL2	4	76551160	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	613262	76551160	114603116	960	1551										
CXCL10	3627	broad.mit.edu	37	chr4	76943560	76943560	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtaaattcttgatggccttCgattctggattcagacatct	8	8	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:76943560C>T	uc003hjl.3	-	3	307	c.237G>A	c.(235-237)TCG>TCA	p.S79S	ART3_uc003hji.2_Intron|ART3_uc003hjj.2_Intron|ART3_uc003hjk.2_Intron	NM_001565	NP_001556	P02778	CXL10_HUMAN	small inducible cytokine B10 precursor	79					blood circulation|cell surface receptor linked signaling pathway|cell-cell signaling|chemotaxis|inflammatory response|muscle organ development|positive regulation of cell proliferation	extracellular space	cAMP-dependent protein kinase regulator activity|chemokine activity				0			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TGATGGCCTTCGATTCTGGAT	0.388													23	52	---	---	---	---	PASS	T	76943560	T	T	76943560	2	4	4	1	0	0	0	0	0	0	0	1	4078	871	31	2		2	CXCL10	4	76943560	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	392400	76943560	114210716	961	1552										
ART3	419	broad.mit.edu	37	chr4	77003049	77003049	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaaatgtacggacaggatgGaaattaaatacgttccccaa	9	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:77003049G>A	uc003hjo.2	+	3	261	c.142G>A	c.(142-144)GAA>AAA	p.E48K	ART3_uc003hji.2_Missense_Mutation_p.E48K|ART3_uc003hjj.2_Missense_Mutation_p.E48K|ART3_uc003hjk.2_Missense_Mutation_p.E48K|ART3_uc010ija.1_Missense_Mutation_p.E48K|ART3_uc003hjn.2_Missense_Mutation_p.E48K|ART3_uc003hjp.2_Intron|ART3_uc010ijb.2_Intron|ART3_uc003hjq.2_Intron|ART3_uc003hjr.2_Missense_Mutation_p.E18K|ART3_uc010ijc.2_Missense_Mutation_p.E18K|ART3_uc010ijd.2_Missense_Mutation_p.E18K	NM_001130016	NP_001123488	Q13508	NAR3_HUMAN	ADP-ribosyltransferase 3 isoform a	48					protein ADP-ribosylation	anchored to membrane|integral to plasma membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity			ovary(2)	2			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			GGACAGGATGGAAATTAAATA	0.403													31	77	---	---	---	---	PASS	A	77003049	A	A	77003049	3	1	4	1	0	0	0	0	1	0	0	0	998	1175	41	2	148	2	ART3	4	77003049	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	59489	77003049	114151227	962	1553										
CCDC158	339965	broad.mit.edu	37	chr4	77278671	77278671	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaattcctttttaagacttCatactcctctatacaatgtg	4	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:77278671C>T	uc003hkb.3	-	13	2182	c.2029G>A	c.(2029-2031)GAA>AAA	p.E677K		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	677	Potential.									skin(3)|ovary(2)|pancreas(1)	6						TTTAAGACTTCATACTCCTCT	0.254													7	11	---	---	---	---	PASS	T	77278671	T	T	77278671	3	4	4	1	0	0	0	0	1	0	0	0	2790	835	29	2	1360	2	CCDC158	4	77278671	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	275622	77278671	113875605	963	1554										
GK2	2712	broad.mit.edu	37	chr4	80328210	80328210	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattggtaaactgagtgaggCcacagagtatccctcttgca	10	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:80328210C>T	uc003hlu.2	-	1	1163	c.1145G>A	c.(1144-1146)GGC>GAC	p.G382D		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	382					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						CTGAGTGAGGCCACAGAGTAT	0.438													30	79	---	---	---	---	PASS	T	80328210	T	T	80328210	3	4	4	1	0	0	0	0	1	0	0	0	6421	739	26	3	520	3	GK2	4	80328210	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3049539	80328210	110826066	964	1555										
PRKG2	5593	broad.mit.edu	37	chr4	82095970	82095970	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagcacaaagatatggtttCctggttctccttgcttaata	7	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:82095970C>T	uc003hmh.2	-	2	619	c.605G>A	c.(604-606)GGA>GAA	p.G202E	PRKG2_uc011cch.1_Missense_Mutation_p.G202E	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	202	cGMP 1.				platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						GATATGGTTTCCTGGTTCTCC	0.368													31	65	---	---	---	---	PASS	T	82095970	T	T	82095970	3	4	4	1	0	0	0	0	1	0	0	0	12523	855	30	2	1751	2	PRKG2	4	82095970	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1767760	82095970	109058306	965	1556										
SCD5	79966	broad.mit.edu	37	chr4	83626521	83626521	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtggctccacaagcgatggGcaccagctgtcacacccaga	11	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:83626521G>A	uc003hna.2	-	2	598	c.278C>T	c.(277-279)GCC>GTC	p.A93V	SCD5_uc003hnb.3_Missense_Mutation_p.A93V|SCD5_uc003hnc.2_Missense_Mutation_p.A93V	NM_001037582	NP_001032671	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5 isoform a	93	Helical; (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity			ovary(1)	1		Colorectal(4;0.0323)|Hepatocellular(203;0.115)				CAAGCGATGGGCACCAGCTGT	0.577													10	24	---	---	---	---	PASS	A	83626521	A	A	83626521	3	1	4	1	0	0	0	0	1	0	0	0	13887	1203	42	3	936	3	SCD5	4	83626521	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1530551	83626521	107527755	966	1557										
HELQ	113510	broad.mit.edu	37	chr4	84374945	84374945	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtttgtttttgatactttCcgagcaaagattttcagtgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:84374945C>T	uc003hom.2	-	2	630	c.451G>A	c.(451-453)GAA>AAA	p.E151K	HELQ_uc010ikb.2_Missense_Mutation_p.E151K|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA|HELQ_uc003hon.1_Missense_Mutation_p.E45K|HELQ_uc003hoo.1_Missense_Mutation_p.E114K|HELQ_uc003hop.1_Missense_Mutation_p.E45K|HELQ_uc003hoq.1_Missense_Mutation_p.E151K|MRPS18C_uc003hor.3_5'Flank|MRPS18C_uc011ccu.1_5'Flank	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	151							ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						TTGATACTTTCCGAGCAAAGA	0.393								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					45	115	---	---	---	---	PASS	T	84374945	T	T	84374945	3	4	4	1	0	0	0	0	1	0	0	0	7047	864	30	2	2922	2	HELQ	4	84374945	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	748424	84374945	106779331	967	1558	50	2								
HELQ	113510	broad.mit.edu	37	chr4	84374946	84374946	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtttgtttttgatactttcCgagcaaagattttcagtggc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:84374946C>T	uc003hom.2	-	2	629	c.450G>A	c.(448-450)TCG>TCA	p.S150S	HELQ_uc010ikb.2_Silent_p.S150S|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA|HELQ_uc003hon.1_Silent_p.S44S|HELQ_uc003hoo.1_Silent_p.S113S|HELQ_uc003hop.1_Silent_p.S44S|HELQ_uc003hoq.1_Silent_p.S150S|MRPS18C_uc003hor.3_5'Flank|MRPS18C_uc011ccu.1_5'Flank	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	150							ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						TGATACTTTCCGAGCAAAGAT	0.388								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					46	116	---	---	---	---	PASS	T	84374946	T	T	84374946	2	4	4	1	0	0	0	0	0	0	0	1	7047	639	23	1		1	HELQ	4	84374946	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	84374946	106779330	968	1559	50	2								
NKX6-1	4825	broad.mit.edu	37	chr4	85416988	85416988	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtctttgtccaacaaaatgGatccttgatctgtgagaacc	8	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:85416988G>A	uc003hpa.1	-	2	686	c.680C>T	c.(679-681)TCC>TTC	p.S227F		NM_006168	NP_006159	P78426	NKX61_HUMAN	NK6 transcription factor related, locus 1	227	Repressor domain (By similarity).				detection of glucose|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|type B pancreatic cell maturation	nucleus					0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.0013)		CAACAAAATGGATCCTTGATC	0.448													26	31	---	---	---	---	PASS	A	85416988	A	A	85416988	3	1	4	1	0	0	0	0	1	0	0	0	10457	1174	41	2	431	2	NKX6-1	4	85416988	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1042042	85416988	105737288	969	1560										
PTPN13	5783	broad.mit.edu	37	chr4	87610231	87610231	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgttatttacgctcgagtttCtgttcggactgtgctggatg	12	7	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:87610231C>T	uc003hpz.2	+	5	914	c.434C>T	c.(433-435)TCT>TTT	p.S145F	PTPN13_uc003hpy.2_Missense_Mutation_p.S145F|PTPN13_uc003hqa.2_Missense_Mutation_p.S145F|PTPN13_uc003hqb.2_Missense_Mutation_p.S145F	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	145	KIND.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		GCTCGAGTTTCTGTTCGGACT	0.428													38	59	---	---	---	---	PASS	T	87610231	T	T	87610231	3	4	4	1	0	0	0	0	1	0	0	0	12782	913	32	2	448	2	PTPN13	4	87610231	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2193243	87610231	103544045	970	1561										
AFF1	4299	broad.mit.edu	37	chr4	88056849	88056849	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaagaattaaccaaaacacCttaatggagccccaggttga	7	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:88056849C>T	uc003hqj.3	+	20	4036	c.3629C>T	c.(3628-3630)CCT>CTT	p.P1210L	AFF1_uc011ccz.1_Missense_Mutation_p.P1218L|AFF1_uc003hqk.3_Missense_Mutation_p.P1211L|AFF1_uc011cda.1_Missense_Mutation_p.P849L	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1210						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		ACCAAAACACCTTAATGGAGC	0.453													7	11	---	---	---	---	PASS	T	88056849	T	T	88056849	3	4	4	1	0	0	0	0	1	0	0	0	356	681	24	3	3752	3	AFF1	4	88056849	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	446618	88056849	103097427	971	1562										
KLHL8	57563	broad.mit.edu	37	chr4	88106539	88106539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagcttatggaggtgctgcGgtgatacacttacaaagtct	11	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:88106539G>T	uc011cdb.1	-	3	1014	c.629C>A	c.(628-630)CCG>CAG	p.P210Q	KLHL8_uc003hql.1_Missense_Mutation_p.P210Q|KLHL8_uc003hqm.1_Missense_Mutation_p.P134Q|KLHL8_uc003hqn.1_Intron|KLHL8_uc010ikj.1_Intron	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8	210											0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		GAGGTGCTGCGGTGATACACT	0.423													4	108	---	---	---	---	PASS	T	88106539	T	T	88106539	3	4	4	1	0	0	0	0	1	0	0	0	8395	1116	39	1	1265	1	KLHL8	4	88106539	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	49690	88106539	103047737	972	1563										
DSPP	1834	broad.mit.edu	37	chr4	88532087	88532087	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ataattacatatttttgcatTtgggcagtagcatgggccat	9	6	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:88532087T>G	uc003hqu.2	+	2	147	c.27T>G	c.(25-27)ATT>ATG	p.I9M		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	9					biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		ATTTTTGCATTTGGGCAGTAG	0.284													20	37	---	---	---	---	PASS	G	88532087	G	G	88532087	3	3	4	1	0	0	0	0	1	0	0	0	4782	1829	64	5	29	5	DSPP	4	88532087	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	425548	88532087	102622189	973	1564										
IBSP	3381	broad.mit.edu	37	chr4	88732595	88732595	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagaggaaggaaatgaaaacGaagaaagcgaagcagaagtg	14	3	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:88732595G>A	uc003hqx.3	+	7	585	c.487G>A	c.(487-489)GAA>AAA	p.E163K		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	163	Asp/Glu-rich (acidic).				biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		aaatgaaaacgaagaaagcga	0.333													25	34	---	---	---	---	PASS	A	88732595	A	A	88732595	3	1	4	1	0	0	0	0	1	0	0	0	7475	1059	37	2	509	2	IBSP	4	88732595	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	200508	88732595	102421681	974	1565										
IBSP	3381	broad.mit.edu	37	chr4	88732970	88732970	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaacggggaacctcgtgggGacaattaccgagcctatgaa	13	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:88732970G>A	uc003hqx.3	+	7	960	c.862G>A	c.(862-864)GAC>AAC	p.D288N		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	288	Cell attachment site.				biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		ACCTCGTGGGGACAATTACCG	0.478													30	59	---	---	---	---	PASS	A	88732970	A	A	88732970	3	1	4	1	0	0	0	0	1	0	0	0	7475	1174	41	2	884	2	IBSP	4	88732970	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	375	88732970	102421306	975	1566										
SPP1	6696	broad.mit.edu	37	chr4	88902860	88902860	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagttttcactccagttgtCcccacagtagacacatatga	7	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:88902860C>T	uc003hra.2	+	6	615	c.450C>T	c.(448-450)GTC>GTT	p.V150V	SPP1_uc003hrb.2_Silent_p.V123V|SPP1_uc003hrc.2_Silent_p.V136V|SPP1_uc011cde.1_Silent_p.V163V|SPP1_uc003hrd.2_Silent_p.V109V	NM_001040058	NP_001035147	P10451	OSTP_HUMAN	secreted phosphoprotein 1 isoform a	150					biomineral tissue development|cell adhesion|decidualization|embryo implantation|ossification|response to vitamin D	extracellular space	cytokine activity			ovary(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-05)		CTCCAGTTGTCCCCACAGTAG	0.468													36	85	---	---	---	---	PASS	T	88902860	T	T	88902860	2	4	4	1	0	0	0	0	0	0	0	1	15085	842	30	2		2	SPP1	4	88902860	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	169890	88902860	102251416	976	1567										
PKD2	5311	broad.mit.edu	37	chr4	88957445	88957445	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagctcttcctagacaccccCgtgtccaaaacggagaaaac	7	15	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:88957445C>A	uc003hre.2	+	3	849	c.783C>A	c.(781-783)CCC>CCA	p.P261P		NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	261	Extracellular (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		TAGACACCCCCGTGTCCAAAA	0.433													4	78	---	---	---	---	PASS	A	88957445	A	A	88957445	2	1	4	1	0	0	0	0	0	0	0	1	11966	639	23	1		1	PKD2	4	88957445	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	54585	88957445	102196831	977	1568										
HERC5	51191	broad.mit.edu	37	chr4	89383489	89383489	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaatgaatgtggacaactaGgcctgggccacactgagagt	12	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:89383489G>A	uc003hrt.2	+	4	823	c.670G>A	c.(670-672)GGC>AGC	p.G224S		NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	224	RCC1 3.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		TGGACAACTAGGCCTGGGCCA	0.438													13	35	---	---	---	---	PASS	A	89383489	A	A	89383489	3	1	4	1	0	0	0	0	1	0	0	0	7061	1000	35	3	684	3	HERC5	4	89383489	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	426044	89383489	101770787	978	1569										
HERC3	8916	broad.mit.edu	37	chr4	89591352	89591352	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attcctgagatttccaatctCgtggacattcaggaagacta	8	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:89591352C>T	uc003hrw.1	+	16	2026	c.1860C>T	c.(1858-1860)CTC>CTT	p.L620L	HERC3_uc011cdn.1_Silent_p.L502L|HERC3_uc011cdo.1_Silent_p.L64L	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	620					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		TTTCCAATCTCGTGGACATTC	0.338													23	55	---	---	---	---	PASS	T	89591352	T	T	89591352	2	4	4	1	0	0	0	0	0	0	0	1	7059	871	31	2		2	HERC3	4	89591352	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	207863	89591352	101562924	979	1570										
HERC3	8916	broad.mit.edu	37	chr4	89627996	89627996	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcggggaggagtacttgcCggtggcccacacttgctaca	14	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:89627996C>T	uc003hrw.1	+	26	3204	c.3038C>T	c.(3037-3039)CCG>CTG	p.P1013L	HERC3_uc011cdn.1_Missense_Mutation_p.P895L|HERC3_uc011cdo.1_Missense_Mutation_p.P457L|FAM13AOS_uc003hry.1_5'Flank	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	1013	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		GAGTACTTGCCGGTGGCCCAC	0.577											OREG0016265	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	46	---	---	---	---	PASS	T	89627996	T	T	89627996	3	4	4	1	0	0	0	0	1	0	0	0	7059	652	23	1	3132	1	HERC3	4	89627996	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	36644	89627996	101526280	980	1571										
MMRN1	22915	broad.mit.edu	37	chr4	90857133	90857133	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccatcataaatgtacctccGatatggaaactattttgaca	5	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:90857133G>A	uc003hst.2	+	6	2373	c.2302G>A	c.(2302-2304)GAT>AAT	p.D768N	MMRN1_uc010iku.2_Intron|MMRN1_uc011cds.1_Missense_Mutation_p.D510N	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	768					cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		ATGTACCTCCGATATGGAAAC	0.313													19	28	---	---	---	---	PASS	A	90857133	A	A	90857133	3	1	4	1	0	0	0	0	1	0	0	0	9670	1058	37	2	2324	2	MMRN1	4	90857133	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1229137	90857133	100297143	981	1572										
UNC5C	8633	broad.mit.edu	37	chr4	96140178	96140178	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagctgccaaatgcggtacaGgatggatcagtctgccttgc	12	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:96140178G>A	uc003htp.1	-	9	1741	c.1587C>T	c.(1585-1587)TCC>TCT	p.S529S	UNC5C_uc010ilc.1_Silent_p.S548S|UNC5C_uc003htq.2_Silent_p.S548S	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	529	Cytoplasmic (Potential).|ZU5.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		ATGCGGTACAGGATGGATCAG	0.488													23	51	---	---	---	---	PASS	A	96140178	A	A	96140178	2	1	4	1	0	0	0	0	0	0	0	1	16990	987	35	3		3	UNC5C	4	96140178	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	5283045	96140178	95014098	982	1573										
UNC5C	8633	broad.mit.edu	37	chr4	96163714	96163714	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcagttccacaagtagacCacttgctccatggcgtccac	7	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:96163714C>T	uc003htp.1	-	7	1128	c.974G>A	c.(973-975)TGG>TAG	p.W325*	UNC5C_uc010ilc.1_Nonsense_Mutation_p.W325*|UNC5C_uc003htq.2_Nonsense_Mutation_p.W325*	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	325	Extracellular (Potential).|TSP type-1 2.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		ACAAGTAGACCACTTGCTCCA	0.597													7	13	---	---	---	---	PASS	T	96163714	T	T	96163714	4	4	4	1	0	0	0	0	0	1	0	0	16990	595	21	3	1861	3	UNC5C	4	96163714	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	23536	96163714	94990562	983	1574										
UNC5C	8633	broad.mit.edu	37	chr4	96256570	96256570	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaaactcaccggaagtttCatctactctttcatctacta	5	11	6	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:96256570C>T	uc003htp.1	-	2	491	c.337G>A	c.(337-339)GAA>AAA	p.E113K	UNC5C_uc010ilc.1_Missense_Mutation_p.E113K|UNC5C_uc003htq.2_Missense_Mutation_p.E113K	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	113	Extracellular (Potential).|Ig-like.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		CCGGAAGTTTCATCTACTCTT	0.398													12	40	---	---	---	---	PASS	T	96256570	T	T	96256570	3	4	4	1	0	0	0	0	1	0	0	0	16990	835	29	2	2518	2	UNC5C	4	96256570	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	92856	96256570	94897706	984	1575										
PDHA2	5161	broad.mit.edu	37	chr4	96762081	96762081	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaatggatgttctgtgtgtTcgtgaggcaacaaaatttgc	13	5	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:96762081T>C	uc003htr.3	+	1	843	c.780T>C	c.(778-780)GTT>GTC	p.V260V		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	260					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	TTCTGTGTGTTCGTGAGGCAA	0.478													32	37	---	---	---	---	PASS	C	96762081	C	C	96762081	2	2	4	1	0	0	0	0	0	0	0	1	11665	1770	62	5		5	PDHA2	4	96762081	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	505511	96762081	94392195	985	1576										
TSPAN5	10098	broad.mit.edu	37	chr4	99403161	99403161	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccactttaaacttacatattCctgggtgaagtctatgaggt	8	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:99403161C>T	uc003hub.2	-	4	795	c.445G>A	c.(445-447)GAA>AAA	p.E149K	TSPAN5_uc011cdz.1_Missense_Mutation_p.E78K	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	149	Extracellular (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)		CTTACATATTCCTGGGTGAAG	0.403													15	63	---	---	---	---	PASS	T	99403161	T	T	99403161	3	4	4	1	0	0	0	0	1	0	0	0	16647	864	30	2	381	2	TSPAN5	4	99403161	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2641080	99403161	91751115	986	1577										
EIF4E	1977	broad.mit.edu	37	chr4	99823128	99823128	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggggattaggagtaggggtGgtttcctagtggaaaataat	17	2	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:99823128G>A	uc003hue.2	-	2	1547	c.24C>T	c.(22-24)ACC>ACT	p.T8T	EIF4E_uc011cea.1_Silent_p.T28T|EIF4E_uc011ceb.1_Silent_p.T8T|EIF4E_uc011cec.1_Silent_p.T8T	NM_001968	NP_001959	P06730	IF4E_HUMAN	eukaryotic translation initiation factor 4E	8					G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|interspecies interaction between organisms|mRNA export from nucleus|nuclear-transcribed mRNA poly(A) tail shortening|positive regulation of mitotic cell cycle|regulation of translation	cytoplasmic mRNA processing body|cytosol|eukaryotic translation initiation factor 4F complex|mRNA cap binding complex|RNA-induced silencing complex	protein binding|RNA cap binding|translation initiation factor activity			lung(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)|LUSC - Lung squamous cell carcinoma(721;0.00227)		GAGTAGGGGTGGTTTCCTAGT	0.358													18	72	---	---	---	---	PASS	A	99823128	A	A	99823128	2	1	4	1	0	0	0	0	0	0	0	1	5028	1335	47	3		3	EIF4E	4	99823128	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	419967	99823128	91331148	987	1578										
ADH6	130	broad.mit.edu	37	chr4	100131365	100131365	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttatcactgtgtattcacaGaaggtgctggtattaccaaa	8	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:100131365G>A	uc003hup.3	-	5	535	c.441C>T	c.(439-441)TTC>TTT	p.F147F	uc003hum.1_Intron|ADH6_uc003huo.2_Silent_p.F147F|ADH6_uc011cef.1_Intron|ADH6_uc010ile.2_Silent_p.F147F	NM_000672	NP_000663	P28332	ADH6_HUMAN	class V alcohol dehydrogenase isoform 2	147					ethanol oxidation|response to ethanol|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|electron carrier activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(123;3.58e-08)	Abacavir(DB01048)|NADH(DB00157)	TGTATTCACAGAAGGTGCTGG	0.413													20	36	---	---	---	---	PASS	A	100131365	A	A	100131365	2	1	4	1	0	0	0	0	0	0	0	1	312	933	33	2		2	ADH6	4	100131365	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	308237	100131365	91022911	988	1579										
ADH1A	124	broad.mit.edu	37	chr4	100200657	100200657	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatgggttattaatgcatcCaatgaaaacttcttagccat	6	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:100200657C>T	uc003hur.1	-	8	1100	c.1029G>A	c.(1027-1029)TTG>TTA	p.L343L	uc003hum.1_Intron|ADH1A_uc011ceg.1_Silent_p.L343L	NM_000667	NP_000658	P07327	ADH1A_HUMAN	class I alcohol dehydrogenase, alpha subunit	343					ethanol oxidation|transcription, DNA-dependent|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|protein binding|zinc ion binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(123;9.56e-08)	Fomepizole(DB01213)|NADH(DB00157)	TTAATGCATCCAATGAAAACT	0.323													21	55	---	---	---	---	PASS	T	100200657	T	T	100200657	2	4	4	1	0	0	0	0	0	0	0	1	307	593	21	3		3	ADH1A	4	100200657	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	69292	100200657	90953619	989	1580										
DDIT4L	115265	broad.mit.edu	37	chr4	101109073	101109073	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagctttttacatacattttCaatttccaagttcacgtgca	4	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:101109073C>T	uc003hvq.2	-	3	546	c.343G>A	c.(343-345)GAA>AAA	p.E115K		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	115					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		CATACATTTTCAATTTCCAAG	0.458													19	39	---	---	---	---	PASS	T	101109073	T	T	101109073	3	4	4	1	0	0	0	0	1	0	0	0	4332	835	29	2	242	2	DDIT4L	4	101109073	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	908416	101109073	90045203	990	1581										
DDIT4L	115265	broad.mit.edu	37	chr4	101109182	101109182	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcagtttctcagggacaagGacctttgagcaaccaagttt	10	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:101109182G>A	uc003hvq.2	-	3	437	c.234C>T	c.(232-234)GTC>GTT	p.V78V		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	78					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		CAGGGACAAGGACCTTTGAGC	0.463													48	83	---	---	---	---	PASS	A	101109182	A	A	101109182	2	1	4	1	0	0	0	0	0	0	0	1	4332	1161	41	2		2	DDIT4L	4	101109182	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	109	101109182	90045094	991	1582										
NFKB1	4790	broad.mit.edu	37	chr4	103455017	103455017	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttagcagatggcccataccTtcaaatattagagcaaccta	6	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:103455017T>C	uc011ceq.1	+	4	598	c.131T>C	c.(130-132)CTT>CCT	p.L44P	NFKB1_uc011cep.1_Missense_Mutation_p.L45P	NM_003998	NP_003989	P19838	NFKB1_HUMAN	nuclear factor kappa-B, subunit 1 isoform 1	44	RHD.				anti-apoptosis|apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of calcidiol 1-monooxygenase activity|nerve growth factor receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter	cytosol|I-kappaB/NF-kappaB complex|mitochondrion|nucleoplasm	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|breast(2)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.59e-08)	Dexamethasone(DB01234)|Pranlukast(DB01411)|Thalidomide(DB01041)	GGCCCATACCTTCAAATATTA	0.338													9	25	---	---	---	---	PASS	C	103455017	C	C	103455017	3	2	4	1	0	0	0	0	1	0	0	0	10375	1609	56	5	144	5	NFKB1	4	103455017	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	2345835	103455017	87699259	992	1583										
COL25A1	84570	broad.mit.edu	37	chr4	109769932	109769932	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacctgctctccatccattcCtgggattcctggagatccct	7	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:109769932C>T	uc003hze.1	-	26	1948	c.1417G>A	c.(1417-1419)GGA>AGA	p.G473R	COL25A1_uc003hzg.2_Missense_Mutation_p.G473R|COL25A1_uc003hzd.2_RNA|COL25A1_uc003hzf.2_Missense_Mutation_p.G231R	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	473	Extracellular (Potential).|Collagen-like 6.					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		CCATCCATTCCTGGGATTCCT	0.353													23	35	---	---	---	---	PASS	T	109769932	T	T	109769932	3	4	4	1	0	0	0	0	1	0	0	0	3684	690	24	3	679	3	COL25A1	4	109769932	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6314915	109769932	81384344	993	1584										
ALPK1	80216	broad.mit.edu	37	chr4	113353610	113353610	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaagatgaggaaagagatCcttgaggctcgcaccttgca	13	8	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:113353610C>T	uc003iap.3	+	11	3186	c.2907C>T	c.(2905-2907)ATC>ATT	p.I969I	ALPK1_uc003ian.3_Silent_p.I969I|ALPK1_uc011cfx.1_Silent_p.I891I|ALPK1_uc003iao.3_Intron|ALPK1_uc010imo.2_Silent_p.I797I	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	969							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		GGAAAGAGATCCTTGAGGCTC	0.488													22	56	---	---	---	---	PASS	T	113353610	T	T	113353610	2	4	4	1	0	0	0	0	0	0	0	1	544	845	30	2		2	ALPK1	4	113353610	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3583678	113353610	77800666	994	1585										
ANK2	287	broad.mit.edu	37	chr4	114257063	114257063	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgcatcatcacccgagacttCccacagtactttgcagtggt	8	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:114257063C>T	uc003ibe.3	+	30	3541	c.3441C>T	c.(3439-3441)TTC>TTT	p.F1147F	ANK2_uc003ibd.3_Silent_p.F1138F|ANK2_uc003ibf.3_Silent_p.F1147F|ANK2_uc011cgc.1_Silent_p.F323F|ANK2_uc003ibg.3_Silent_p.F142F|ANK2_uc003ibc.2_Silent_p.F1123F|ANK2_uc011cgb.1_Silent_p.F1162F	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1114	Interaction with SPTBN1.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CCCGAGACTTCCCACAGTACT	0.498													33	65	---	---	---	---	PASS	T	114257063	T	T	114257063	2	4	4	1	0	0	0	0	0	0	0	1	621	854	30	2		2	ANK2	4	114257063	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	903453	114257063	76897213	995	1586										
ANK2	287	broad.mit.edu	37	chr4	114278065	114278065	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcttatgataagctaaacaGagacactgatcagccaaaaa	7	8	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:114278065G>A	uc003ibe.3	+	38	8391	c.8291G>A	c.(8290-8292)AGA>AAA	p.R2764K	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.R66K|ANK2_uc011cgb.1_Missense_Mutation_p.R2779K	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2731					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AAGCTAAACAGAGACACTGAT	0.468													30	48	---	---	---	---	PASS	A	114278065	A	A	114278065	3	1	4	1	0	0	0	0	1	0	0	0	621	942	33	2	8506	2	ANK2	4	114278065	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	21002	114278065	76876211	996	1587										
CAMK2D	817	broad.mit.edu	37	chr4	114680559	114680559	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatacatcttctcaccactGagaatgcccccctggaaacc	5	16	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:114680559G>A	uc003ibi.2	-	2	936	c.77C>T	c.(76-78)TCA>TTA	p.S26L	CAMK2D_uc003ibj.2_Missense_Mutation_p.S26L|CAMK2D_uc003ibk.2_Missense_Mutation_p.S26L|CAMK2D_uc003ibo.3_Missense_Mutation_p.S26L|CAMK2D_uc003ibm.2_Missense_Mutation_p.S26L|CAMK2D_uc003ibn.2_Missense_Mutation_p.S26L|CAMK2D_uc003ibl.2_Missense_Mutation_p.S26L	NM_001221	NP_001212	Q13557	KCC2D_HUMAN	calcium/calmodulin-dependent protein kinase II	26	ATP (By similarity).|Protein kinase.				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)		TCTCACCACTGAGAATGCCCC	0.318													20	59	---	---	---	---	PASS	A	114680559	A	A	114680559	3	1	4	1	0	0	0	0	1	0	0	0	2601	1294	45	2	1585	2	CAMK2D	4	114680559	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	402494	114680559	76473717	997	1588										
NDST3	9348	broad.mit.edu	37	chr4	119158208	119158208	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attccttttctaggtatatgGatttcttcccagtcccatct	5	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:119158208G>A	uc003ibx.2	+	10	2354	c.1951G>A	c.(1951-1953)GAT>AAT	p.D651N	NDST3_uc011cgf.1_Missense_Mutation_p.G555E	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	651	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						TAGGTATATGGATTTCTTCCC	0.378													11	22	---	---	---	---	PASS	A	119158208	A	A	119158208	3	1	4	1	0	0	0	0	1	0	0	0	10257	1174	41	2	1985	2	NDST3	4	119158208	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4477649	119158208	71996068	998	1589										
SYNPO2	171024	broad.mit.edu	37	chr4	119952491	119952491	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacaccaacagtcaatgctgTtcagcctggtgcagtgggac	11	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:119952491T>C	uc003icm.3	+	4	2757	c.2561T>C	c.(2560-2562)GTT>GCT	p.V854A	SYNPO2_uc010ina.2_Missense_Mutation_p.V854A|SYNPO2_uc010inb.2_Missense_Mutation_p.V854A|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Missense_Mutation_p.V782A	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	854						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						GTCAATGCTGTTCAGCCTGGT	0.502													26	86	---	---	---	---	PASS	C	119952491	C	C	119952491	3	2	4	1	0	0	0	0	1	0	0	0	15454	1725	60	5	2575	5	SYNPO2	4	119952491	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	794283	119952491	71201785	999	1590										
MYOZ2	51778	broad.mit.edu	37	chr4	120085491	120085491	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcttttagaggctttatatCctaaacttttcaagcctgaa	6	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:120085491C>T	uc003icp.3	+	5	715	c.502C>T	c.(502-504)CCT>TCT	p.P168S		NM_016599	NP_057683	Q9NPC6	MYOZ2_HUMAN	myozenin 2	168							protein phosphatase 2B binding				0						GGCTTTATATCCTAAACTTTT	0.443													24	28	---	---	---	---	PASS	T	120085491	T	T	120085491	3	4	4	1	0	0	0	0	1	0	0	0	10096	855	30	2	516	2	MYOZ2	4	120085491	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	133000	120085491	71068785	1000	1591										
ANXA5	308	broad.mit.edu	37	chr4	122591138	122591138	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ataatagagggtctctgcaaGgtaggcaggtatacttcgaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:122591138G>A	uc003idu.3	-	10	821	c.751C>T	c.(751-753)CTT>TTT	p.L251F	ANXA5_uc003idv.3_Missense_Mutation_p.L251F|ANXA5_uc003idw.3_RNA|ANXA5_uc010inm.2_Missense_Mutation_p.L251F|ANXA5_uc010inn.2_Missense_Mutation_p.L191F|ANXA5_uc010ino.2_Missense_Mutation_p.L151F	NM_001154	NP_001145	P08758	ANXA5_HUMAN	annexin 5	251					anti-apoptosis|blood coagulation|negative regulation of coagulation|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity			ovary(1)	1						GTCTCTGCAAGGTAGGCAGGT	0.299													13	35	---	---	---	---	PASS	A	122591138	A	A	122591138	3	1	4	1	0	0	0	0	1	0	0	0	721	1000	35	3	223	3	ANXA5	4	122591138	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2505647	122591138	68563138	1001	1592	51	2								
ANXA5	308	broad.mit.edu	37	chr4	122591139	122591139	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taatagagggtctctgcaagGtaggcaggtatacttcgaat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:122591139G>A	uc003idu.3	-	10	820	c.750C>T	c.(748-750)TAC>TAT	p.Y250Y	ANXA5_uc003idv.3_Silent_p.Y250Y|ANXA5_uc003idw.3_RNA|ANXA5_uc010inm.2_Silent_p.Y250Y|ANXA5_uc010inn.2_Silent_p.Y190Y|ANXA5_uc010ino.2_Silent_p.Y150Y	NM_001154	NP_001145	P08758	ANXA5_HUMAN	annexin 5	250					anti-apoptosis|blood coagulation|negative regulation of coagulation|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity			ovary(1)	1						TCTCTGCAAGGTAGGCAGGTA	0.299													13	35	---	---	---	---	PASS	A	122591139	A	A	122591139	2	1	4	1	0	0	0	0	0	0	0	1	721	1256	44	3		3	ANXA5	4	122591139	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	122591139	68563137	1002	1593	51	2								
TMEM155	132332	broad.mit.edu	37	chr4	122682999	122682999	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acttacaagtttggaaattaGtgcaacagccaagattgtcc	8	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:122682999G>T	uc003idx.1	-	4	599	c.40C>A	c.(40-42)CTA>ATA	p.L14I	TMEM155_uc003idy.1_Missense_Mutation_p.L14I	NM_152399	NP_689612	Q4W5P6	TM155_HUMAN	transmembrane protein 155 precursor	14						extracellular region					0						TTGGAAATTAGTGCAACAGCC	0.328													13	37	---	---	---	---	PASS	T	122682999	T	T	122682999	3	4	4	1	0	0	0	0	1	0	0	0	16069	1020	36	3	364	3	TMEM155	4	122682999	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	91860	122682999	68471277	1003	1594										
KIAA1109	84162	broad.mit.edu	37	chr4	123239396	123239396	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgacattagaagagatgttCgtaaaaaattacggaggtcc	10	5	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:123239396C>T	uc003ieh.2	+	61	10810	c.10765C>T	c.(10765-10767)CGT>TGT	p.R3589C	KIAA1109_uc003iel.1_Missense_Mutation_p.R1524C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3589					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAGAGATGTTCGTAAAAAATT	0.373													15	44	---	---	---	---	PASS	T	123239396	T	T	123239396	3	4	4	1	0	0	0	0	1	0	0	0	8208	884	31	2	11007	2	KIAA1109	4	123239396	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	556397	123239396	67914880	1004	1595										
KIAA1109	84162	broad.mit.edu	37	chr4	123245614	123245614	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggataagtggggtttgagTtacaaaccaagttacagccg	12	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:123245614T>C	uc003ieh.2	+	62	10872	c.10827T>C	c.(10825-10827)AGT>AGC	p.S3609S	KIAA1109_uc003iel.1_Silent_p.S1544S|KIAA1109_uc003iem.2_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3609					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GGGGTTTGAGTTACAAACCAA	0.378													11	29	---	---	---	---	PASS	C	123245614	C	C	123245614	2	2	4	1	0	0	0	0	0	0	0	1	8208	1722	60	5		5	KIAA1109	4	123245614	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	6218	123245614	67908662	1005	1596										
KIAA1109	84162	broad.mit.edu	37	chr4	123260373	123260373	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatttttagccctcacagatCaaatttagctgtttaccagt	5	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:123260373C>T	uc003ieh.2	+	70	12207	c.12162C>T	c.(12160-12162)ATC>ATT	p.I4054I	KIAA1109_uc003iem.2_Silent_p.I410I|KIAA1109_uc003ien.2_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4054					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CCTCACAGATCAAATTTAGCT	0.338													23	32	---	---	---	---	PASS	T	123260373	T	T	123260373	2	4	4	1	0	0	0	0	0	0	0	1	8208	816	29	2		2	KIAA1109	4	123260373	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	14759	123260373	67893903	1006	1597										
ADAD1	132612	broad.mit.edu	37	chr4	123350819	123350819	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caagaagctaaatgtaagttGaaatcctacttacaacaaca	5	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:123350819G>A	uc003ieo.2	+	13	1888	c.1656G>A	c.(1654-1656)TTG>TTA	p.L552L	ADAD1_uc003iep.2_Silent_p.L541L|ADAD1_uc003ieq.2_Silent_p.L534L	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	552	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						AATGTAAGTTGAAATCCTACT	0.348													31	57	---	---	---	---	PASS	A	123350819	A	A	123350819	2	1	4	1	0	0	0	0	0	0	0	1	231	1281	45	2		2	ADAD1	4	123350819	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	90446	123350819	67803457	1007	1598										
NUDT6	11162	broad.mit.edu	37	chr4	123838769	123838769	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgaaagcagaagcccaggGaagcagcaggggcaataaat	15	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:123838769G>A	uc003iew.2	-	2	361	c.329C>T	c.(328-330)TCC>TTC	p.S110F	NUDT6_uc003iex.2_5'UTR	NM_007083	NP_009014	P53370	NUDT6_HUMAN	nudix-type motif 6 isoform a	110						mitochondrion|nucleus	growth factor activity|hydrolase activity				0						GAAGCCCAGGGAAGCAGCAGG	0.507													19	39	---	---	---	---	PASS	A	123838769	A	A	123838769	3	1	4	1	0	0	0	0	1	0	0	0	10743	1174	41	2	637	2	NUDT6	4	123838769	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	487950	123838769	67315507	1008	1599										
NUDT6	11162	broad.mit.edu	37	chr4	123843641	123843641	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acgtaaccctgtgcgcccgaGgcccagcggtaacccgccga	12	17	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:123843641G>A	uc003iew.2	-	1	119	c.87C>T	c.(85-87)GCC>GCT	p.A29A	SPATA5_uc003iey.2_5'Flank|SPATA5_uc003iez.3_5'Flank|NUDT6_uc003iex.2_Intron	NM_007083	NP_009014	P53370	NUDT6_HUMAN	nudix-type motif 6 isoform a	29						mitochondrion|nucleus	growth factor activity|hydrolase activity				0						GTGCGCCCGAGGCCCAGCGGT	0.711													6	6	---	---	---	---	PASS	A	123843641	A	A	123843641	2	1	4	1	0	0	0	0	0	0	0	1	10743	987	35	3		3	NUDT6	4	123843641	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4872	123843641	67310635	1009	1600										
ANKRD50	57182	broad.mit.edu	37	chr4	125592852	125592852	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatctaataatgtccgaatgGaatcctctctttctaaggct	6	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:125592852G>A	uc003ifg.3	-	3	1846	c.1580C>T	c.(1579-1581)TCC>TTC	p.S527F	ANKRD50_uc011cgo.1_Missense_Mutation_p.S348F|ANKRD50_uc010inw.2_Missense_Mutation_p.S527F	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	527	ANK 2.									central_nervous_system(1)	1						TGTCCGAATGGAATCCTCTCT	0.418													26	53	---	---	---	---	PASS	A	125592852	A	A	125592852	3	1	4	1	0	0	0	0	1	0	0	0	677	1174	41	2	2713	2	ANKRD50	4	125592852	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1749211	125592852	65561424	1010	1601										
FAT4	79633	broad.mit.edu	37	chr4	126237972	126237972	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgacaacgcccccgttttcCcggacccctctatcgtggtc	8	17	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:126237972C>T	uc003ifj.3	+	1	406	c.406C>T	c.(406-408)CCG>TCG	p.P136S		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	136	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CCCCGTTTTCCCGGACCCCTC	0.602											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	19	---	---	---	---	PASS	T	126237972	T	T	126237972	3	4	4	1	0	0	0	0	1	0	0	0	5692	623	22	3	408	3	FAT4	4	126237972	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	645120	126237972	64916304	1011	1602										
PLK4	10733	broad.mit.edu	37	chr4	128812736	128812736	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaaaaatcttttggcagatCactatttattatccaaatgg	5	6	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:128812736C>T	uc003ifo.2	+	9	2183	c.1938C>T	c.(1936-1938)ATC>ATT	p.I646I	PLK4_uc011cgs.1_Silent_p.I614I|PLK4_uc011cgt.1_Silent_p.I605I	NM_014264	NP_055079	O00444	PLK4_HUMAN	polo-like kinase 4	646					G2/M transition of mitotic cell cycle|positive regulation of centriole replication|trophoblast giant cell differentiation	centriole|cleavage furrow|cytosol|nucleolus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						TTTGGCAGATCACTATTTATT	0.333													24	26	---	---	---	---	PASS	T	128812736	T	T	128812736	2	4	4	1	0	0	0	0	0	0	0	1	12098	816	29	2		2	PLK4	4	128812736	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2574764	128812736	62341540	1012	1603										
MFSD8	256471	broad.mit.edu	37	chr4	128854224	128854224	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctggtcaatatttccttggGgaacctgagcttcatctgta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:128854224G>A	uc003ifp.2	-	9	942	c.779C>T	c.(778-780)CCC>CTC	p.P260L	MFSD8_uc011cgu.1_Missense_Mutation_p.P215L|MFSD8_uc011cgv.1_Missense_Mutation_p.P222L|MFSD8_uc011cgw.1_RNA|MFSD8_uc011cgx.1_Missense_Mutation_p.P167S	NM_152778	NP_689991	Q8NHS3	MFSD8_HUMAN	major facilitator superfamily domain containing	260	Cytoplasmic (Potential).				cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2						ATTTCCTTGGGGAACCTGAGC	0.328													19	79	---	---	---	---	PASS	A	128854224	A	A	128854224	3	1	4	1	0	0	0	0	1	0	0	0	9538	1232	43	3	797	3	MFSD8	4	128854224	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	41488	128854224	62300052	1013	1604	52	2								
MFSD8	256471	broad.mit.edu	37	chr4	128854225	128854225	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggtcaatatttccttgggGaacctgagcttcatctgtac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:128854225G>A	uc003ifp.2	-	9	941	c.778C>T	c.(778-780)CCC>TCC	p.P260S	MFSD8_uc011cgu.1_Missense_Mutation_p.P215S|MFSD8_uc011cgv.1_Missense_Mutation_p.P222S|MFSD8_uc011cgw.1_RNA|MFSD8_uc011cgx.1_Silent_p.F166F	NM_152778	NP_689991	Q8NHS3	MFSD8_HUMAN	major facilitator superfamily domain containing	260	Cytoplasmic (Potential).				cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2						TTTCCTTGGGGAACCTGAGCT	0.328													19	79	---	---	---	---	PASS	A	128854225	A	A	128854225	3	1	4	1	0	0	0	0	1	0	0	0	9538	1174	41	2	798	2	MFSD8	4	128854225	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	128854225	62300051	1014	1605	52	2								
PCDH18	54510	broad.mit.edu	37	chr4	138442614	138442614	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtatccccagtgtcctcatCgtttggggagtcctttccaa	10	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:138442614C>T	uc003ihe.3	-	4	3364	c.2977G>A	c.(2977-2979)GAT>AAT	p.D993N	PCDH18_uc003ihf.3_Missense_Mutation_p.D985N|PCDH18_uc011cgz.1_Missense_Mutation_p.D204N|PCDH18_uc003ihg.3_Missense_Mutation_p.D772N|PCDH18_uc011cha.1_Missense_Mutation_p.D173N	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	993	Interaction with DAB1 (By similarity).|Cytoplasmic (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					GTGTCCTCATCGTTTGGGGAG	0.512													17	43	---	---	---	---	PASS	T	138442614	T	T	138442614	3	4	4	1	0	0	0	0	1	0	0	0	11513	884	31	2	434	2	PCDH18	4	138442614	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	9588389	138442614	52711662	1015	1606										
C4orf49	84709	broad.mit.edu	37	chr4	140187956	140187956	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtaacctctggggttgtttCagggtttacttccgtggttt	12	7	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:140187956C>T	uc003ihr.1	-	4	700	c.520G>A	c.(520-522)GAA>AAA	p.E174K		NM_032623	NP_116012	Q8TDB4	CD049_HUMAN	ovary-specific acidic protein	174						integral to membrane				central_nervous_system(1)|skin(1)	2						GGGGTTGTTTCAGGGTTTACT	0.512													35	40	---	---	---	---	PASS	T	140187956	T	T	140187956	3	4	4	1	0	0	0	0	1	0	0	0	2275	835	29	2	206	2	C4orf49	4	140187956	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1745342	140187956	50966320	1016	1607										
HHIP	64399	broad.mit.edu	37	chr4	145629326	145629326	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccaatttctcagtgatttCacaggctcagtgctacggct	8	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:145629326C>T	uc003ijs.1	+	7	1819	c.1164C>T	c.(1162-1164)TTC>TTT	p.F388F		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	388	Interaction with SHH zinc binding site.					cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		TCAGTGATTTCACAGGCTCAG	0.423													20	43	---	---	---	---	PASS	T	145629326	T	T	145629326	2	4	4	1	0	0	0	0	0	0	0	1	7092	825	29	2		2	HHIP	4	145629326	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	5441370	145629326	45524950	1017	1608										
ZNF827	152485	broad.mit.edu	37	chr4	146823941	146823941	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggcgtggtgggaaggcgggGaaaaggagaggttcgagcca	22	5	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:146823941G>A	uc003ikn.2	-	2	518	c.470C>T	c.(469-471)TCC>TTC	p.S157F	ZNF827_uc003ikm.2_Missense_Mutation_p.S157F|ZNF827_uc010iox.2_Intron	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	157					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					GGAAGGCGGGGAAAAGGAGAG	0.567													20	32	---	---	---	---	PASS	A	146823941	A	A	146823941	3	1	4	1	0	0	0	0	1	0	0	0	18177	1174	41	2	2811	2	ZNF827	4	146823941	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1194615	146823941	44330335	1018	1609										
EDNRA	1909	broad.mit.edu	37	chr4	148441068	148441068	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttctttgcaagctgttcccCtttttgcagaagtcctcggt	8	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:148441068C>T	uc003iky.2	+	3	1178	c.486C>T	c.(484-486)CCC>CCT	p.P162P	EDNRA_uc011cid.1_5'UTR|EDNRA_uc010ipe.1_Intron|EDNRA_uc010ipf.1_RNA|EDNRA_uc010ipg.1_Intron	NM_001957	NP_001948	P25101	EDNRA_HUMAN	endothelin receptor type A isoform a precursor	162	Helical; Name=3; (Potential).				activation of adenylate cyclase activity|artery smooth muscle contraction|cell proliferation|glucose transport|respiratory gaseous exchange	integral to plasma membrane	endothelin-A receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|breast(1)	2	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.154)	Bosentan(DB00559)	AGCTGTTCCCCTTTTTGCAGA	0.502													49	76	---	---	---	---	PASS	T	148441068	T	T	148441068	2	4	4	1	0	0	0	0	0	0	0	1	4919	668	24	3		3	EDNRA	4	148441068	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1617127	148441068	42713208	1019	1610										
SH3D19	152503	broad.mit.edu	37	chr4	152069115	152069115	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtcctggtttgggacgagGgggtagcaccggatcttgat	17	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:152069115G>A	uc010ipl.1	-	11	2291	c.1201C>T	c.(1201-1203)CCT>TCT	p.P401S	SH3D19_uc003imb.2_Missense_Mutation_p.P179S|SH3D19_uc003imc.2_Missense_Mutation_p.P365S|SH3D19_uc003ime.2_Missense_Mutation_p.P401S|SH3D19_uc010ipm.2_Missense_Mutation_p.P401S	NM_001009555	NP_001009555	Q5HYK7	SH319_HUMAN	SH3 domain containing 19 isoform a	401					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)				TTGGGACGAGGGGGTAGCACC	0.398													23	47	---	---	---	---	PASS	A	152069115	A	A	152069115	3	1	4	1	0	0	0	0	1	0	0	0	14249	1232	43	3	1215	3	SH3D19	4	152069115	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3628047	152069115	39085161	1020	1611										
FBXW7	55294	broad.mit.edu	37	chr4	153271243	153271243	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttcccaaagaaaaagagcGgacctcagaaccatggtcca	8	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:153271243G>A	uc003ims.2	-	3	684	c.535C>T	c.(535-537)CGC>TGC	p.R179C	FBXW7_uc011cii.1_Missense_Mutation_p.R179C|FBXW7_uc003imt.2_Missense_Mutation_p.R179C|FBXW7_uc011cih.1_5'Flank|FBXW7_uc003imq.2_Missense_Mutation_p.R99C|FBXW7_uc003imr.2_Missense_Mutation_p.R61C	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	179					interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				GAAAAAGAGCGGACCTCAGAA	0.308			Mis|N|D|F		colorectal|endometrial|T-ALL								4	8	---	---	---	---	PASS	A	153271243	A	A	153271243	3	1	4	1	0	0	0	0	1	0	0	0	5769	1116	39	1	1628	1	FBXW7	4	153271243	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1202128	153271243	37883033	1021	1612										
TIGD4	201798	broad.mit.edu	37	chr4	153692076	153692076	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccactgcatttatgatgtcGatcttttcctcaatggatag	7	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:153692076G>A	uc003imy.2	-	2	863	c.81C>T	c.(79-81)ATC>ATT	p.I27I		NM_145720	NP_663772	Q8IY51	TIGD4_HUMAN	tigger transposable element derived 4	27	HTH psq-type.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|DNA binding			ovary(1)	1	all_hematologic(180;0.093)					TTATGATGTCGATCTTTTCCT	0.383													25	41	---	---	---	---	PASS	A	153692076	A	A	153692076	2	1	4	1	0	0	0	0	0	0	0	1	15895	1048	37	2		2	TIGD4	4	153692076	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	420833	153692076	37462200	1022	1613										
FHDC1	85462	broad.mit.edu	37	chr4	153864526	153864526	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttttttggaaaactattcCggaggagcaagttcgaggca	11	7	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:153864526C>T	uc003inf.2	+	1	392	c.317C>T	c.(316-318)CCG>CTG	p.P106L		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	106	FH2.				actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					AAAACTATTCCGGAGGAGCAA	0.502													61	170	---	---	---	---	PASS	T	153864526	T	T	153864526	3	4	4	1	0	0	0	0	1	0	0	0	5876	652	23	1	319	1	FHDC1	4	153864526	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	172450	153864526	37289750	1023	1614										
TRIM2	23321	broad.mit.edu	37	chr4	154237038	154237038	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttggcatacggggacgctctCcggggcagctgcagcggccc	16	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:154237038C>T	uc003ing.2	+	8	1789	c.1588C>T	c.(1588-1590)CCG>TCG	p.P530S	TRIM2_uc003inh.2_Missense_Mutation_p.P557S	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	530	NHL 2.					cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		GGGACGCTCTCCGGGGCAGCT	0.463													9	61	---	---	---	---	PASS	T	154237038	T	T	154237038	3	4	4	1	0	0	0	0	1	0	0	0	16491	855	30	2	1699	2	TRIM2	4	154237038	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	372512	154237038	36917238	1024	1615										
TLR2	7097	broad.mit.edu	37	chr4	154625881	154625881	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgatcctgctcacgggggtcCtgtgccaccgtttccatggc	12	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:154625881C>T	uc003inq.2	+	3	2041	c.1822C>T	c.(1822-1824)CTG>TTG	p.L608L	TLR2_uc003inr.2_Silent_p.L608L|TLR2_uc003ins.2_Silent_p.L608L	NM_003264	NP_003255	O60603	TLR2_HUMAN	toll-like receptor 2 precursor	608	Helical; (Potential).				cellular response to diacyl bacterial lipopeptide|cellular response to lipoteichoic acid|cellular response to triacyl bacterial lipopeptide|detection of diacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|I-kappaB phosphorylation|induction of apoptosis|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of interferon-beta production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of Wnt receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|integral to plasma membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	Gram-positive bacterial cell surface binding|lipopolysaccharide receptor activity|peptidoglycan binding|protein heterodimerization activity|transmembrane receptor activity|triacyl lipopeptide binding			ovary(1)|lung(1)|breast(1)	3	all_hematologic(180;0.093)	Renal(120;0.117)				CACGGGGGTCCTGTGCCACCG	0.572													17	15	---	---	---	---	PASS	T	154625881	T	T	154625881	2	4	4	1	0	0	0	0	0	0	0	1	15948	680	24	3		3	TLR2	4	154625881	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	388843	154625881	36528395	1025	1616										
DCHS2	54798	broad.mit.edu	37	chr4	155156464	155156464	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctgagcactttctgtaggGatgctcatttatcctctgga	10	9	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:155156464G>A	uc003inw.2	-	25	7975	c.7975C>T	c.(7975-7977)CCC>TCC	p.P2659S		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2659					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TTTCTGTAGGGATGCTCATTT	0.512													24	40	---	---	---	---	PASS	A	155156464	A	A	155156464	3	1	4	1	0	0	0	0	1	0	0	0	4288	1174	41	2	779	2	DCHS2	4	155156464	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	530583	155156464	35997812	1026	1617										
DCHS2	54798	broad.mit.edu	37	chr4	155243554	155243554	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcaatgacactcattctgtAggaaggtctataatcatacg	9	8	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:155243554A>T	uc003inw.2	-	13	2740	c.2740T>A	c.(2740-2742)TAC>AAC	p.Y914N		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	914	Cadherin 7.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CTCATTCTGTAGGAAGGTCTA	0.398													12	40	---	---	---	---	PASS	T	155243554	T	T	155243554	3	4	4	1	0	0	0	0	1	0	0	0	4288	420	15	5	6062	5	DCHS2	4	155243554	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	87090	155243554	35910722	1027	1618										
DCHS2	54798	broad.mit.edu	37	chr4	155278421	155278421	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctaaactgttcattacttcCttgtctgctgaaaagttgac	6	9	3	2	rs149265546	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:155278421C>T	uc003inw.2	-	6	750	c.750G>A	c.(748-750)AAG>AAA	p.K250K	DCHS2_uc003inx.2_Intron	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	250	Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		tcattacttccttgtctgctg	0													32	97	---	---	---	---	PASS	T	155278421	T	T	155278421	2	4	4	1	0	0	0	0	0	0	0	1	4288	680	24	3		3	DCHS2	4	155278421	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	34867	155278421	35875855	1028	1619										
PLRG1	5356	broad.mit.edu	37	chr4	155460272	155460272	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttactgtcttggatgtaaaAccacagccctaactgatttt	6	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:155460272A>G	uc003iny.2	-	12	1199	c.1136T>C	c.(1135-1137)GTT>GCT	p.V379A	PLRG1_uc003inz.2_Missense_Mutation_p.V370A	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	379	WD 5.					catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				TGGATGTAAAACCACAGCCCT	0.358													24	46	---	---	---	---	PASS	G	155460272	G	G	155460272	3	3	4	1	0	0	0	0	1	0	0	0	12106	43	2	5	424	5	PLRG1	4	155460272	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	181851	155460272	35694004	1029	1620										
FGB	2244	broad.mit.edu	37	chr4	155489637	155489637	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatactgtgacatgaatacaGaaaatggaggtaagctttcg	10	5	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:155489637G>A	uc003ioa.3	+	5	862	c.823G>A	c.(823-825)GAA>AAA	p.E275K	FGB_uc003iob.3_Missense_Mutation_p.E272K|FGB_uc010ipv.2_Missense_Mutation_p.E213K|FGB_uc010ipw.2_Missense_Mutation_p.E272K|FGB_uc003ioc.3_Missense_Mutation_p.E56K	NM_005141	NP_005132	P02675	FIBB_HUMAN	fibrinogen, beta chain preproprotein	275	Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen|soluble fraction	chaperone binding|eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	CATGAATACAGAAAATGGAGG	0.333													14	24	---	---	---	---	PASS	A	155489637	A	A	155489637	3	1	4	1	0	0	0	0	1	0	0	0	5831	943	33	2	841	2	FGB	4	155489637	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	29365	155489637	35664639	1030	1621										
FGA	2243	broad.mit.edu	37	chr4	155506702	155506702	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggatacctctgacagggcGagatttagcatggcctctct	12	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:155506702G>A	uc003iod.1	-	5	1937	c.1879C>T	c.(1879-1881)CGC>TGC	p.R627C	FGA_uc003ioe.1_Missense_Mutation_p.R627C|FGA_uc003iof.1_3'UTR	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	627	By similarity.|Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	ctgaCAGGGCGAGATTTAGCA	0.259													19	46	---	---	---	---	PASS	A	155506702	A	A	155506702	3	1	4	1	0	0	0	0	1	0	0	0	5830	1058	37	2	773	2	FGA	4	155506702	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	17065	155506702	35647574	1031	1622										
TDO2	6999	broad.mit.edu	37	chr4	156824933	156824933	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtgggtgcccatttttagGaaacaactttgggtgagtat	13	5	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:156824933G>A	uc003ipf.1	+	1	87	c.23G>A	c.(22-24)GGA>GAA	p.G8E		NM_005651	NP_005642	P48775	T23O_HUMAN	tryptophan 2,3-dioxygenase	8					tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)	CCATTTTTAGGAAACAACTTT	0.408													20	33	---	---	---	---	PASS	A	156824933	A	A	156824933	3	1	4	1	0	0	0	0	1	0	0	0	15724	1174	41	2	25	2	TDO2	4	156824933	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1318231	156824933	34329343	1032	1623										
CTSO	1519	broad.mit.edu	37	chr4	156849538	156849538	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cataaccatctactccccaaGaacttccccaggaattccgc	4	17	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:156849538G>A	uc003ipg.2	-	7	930	c.881C>T	c.(880-882)TCT>TTT	p.S294F		NM_001334	NP_001325	P43234	CATO_HUMAN	cathepsin O preproprotein	294					proteolysis	lysosome	cysteine-type endopeptidase activity				0	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.05)|Kidney(143;0.0627)|COAD - Colon adenocarcinoma(41;0.148)		TACTCCCCAAGAACTTCCCCA	0.348													24	31	---	---	---	---	PASS	A	156849538	A	A	156849538	3	1	4	1	0	0	0	0	1	0	0	0	4040	942	33	2	92	2	CTSO	4	156849538	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	24605	156849538	34304738	1033	1624										
GRIA2	2891	broad.mit.edu	37	chr4	158224874	158224874	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatgagacccgacctcaaaGgagctctccttagcttgatt	9	11	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:158224874G>A	uc003ipm.3	+	3	859	c.400G>A	c.(400-402)GGA>AGA	p.G134R	GRIA2_uc011cit.1_Missense_Mutation_p.G87R|GRIA2_uc003ipl.3_Missense_Mutation_p.G134R|GRIA2_uc003ipk.3_Missense_Mutation_p.G87R|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	134	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	CGACCTCAAAGGAGCTCTCCT	0.448													34	105	---	---	---	---	PASS	A	158224874	A	A	158224874	3	1	4	1	0	0	0	0	1	0	0	0	6768	1001	35	3	410	3	GRIA2	4	158224874	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1375336	158224874	32929402	1034	1625										
GRIA2	2891	broad.mit.edu	37	chr4	158281079	158281079	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcagtgtttgataaaatgtGgacctacatgcggagtgcgg	14	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:158281079G>A	uc003ipm.3	+	13	2534	c.2075G>A	c.(2074-2076)TGG>TAG	p.W692*	GRIA2_uc011cit.1_Nonsense_Mutation_p.W645*|GRIA2_uc003ipl.3_Nonsense_Mutation_p.W692*|GRIA2_uc003ipk.3_Nonsense_Mutation_p.W645*|GRIA2_uc010iqh.1_RNA|GRIA2_uc011ciu.1_Nonsense_Mutation_p.W2*|GRIA2_uc011civ.1_RNA|GRIA2_uc011ciw.1_RNA|GRIA2_uc011cix.1_Nonsense_Mutation_p.W2*|GRIA2_uc011ciy.1_Nonsense_Mutation_p.W2*|GRIA2_uc011ciz.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	692	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	GATAAAATGTGGACCTACATG	0.458													20	20	---	---	---	---	PASS	A	158281079	A	A	158281079	4	1	4	1	0	0	0	0	0	1	0	0	6768	1357	47	3	2125	3	GRIA2	4	158281079	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	56205	158281079	32873197	1035	1626										
FNIP2	57600	broad.mit.edu	37	chr4	159790431	159790431	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacaacaagaaggccaacttCaggactgaaggagacattcc	10	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:159790431C>T	uc003iqe.3	+	13	2826	c.2643C>T	c.(2641-2643)TTC>TTT	p.F881F		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	881	Interaction with PRKAA1.				DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		AGGCCAACTTCAGGACTGAAG	0.597													11	14	---	---	---	---	PASS	T	159790431	T	T	159790431	2	4	4	1	0	0	0	0	0	0	0	1	5976	825	29	2		2	FNIP2	4	159790431	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1509352	159790431	31363845	1036	1627										
RAPGEF2	9693	broad.mit.edu	37	chr4	160277247	160277247	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaaacctcagtggcataaaCcgaacgagtctgacccgcgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:160277247C>T	uc003iqg.3	+	23	4721	c.4411C>T	c.(4411-4413)CCG>TCG	p.P1471S		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1471					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GTGGCATAAACCGAACGAGTC	0.552													7	23	---	---	---	---	PASS	T	160277247	T	T	160277247	3	4	4	1	0	0	0	0	1	0	0	0	13044	507	18	3	4501	3	RAPGEF2	4	160277247	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	486816	160277247	30877029	1037	1628	53	2								
RAPGEF2	9693	broad.mit.edu	37	chr4	160277248	160277248	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaacctcagtggcataaacCgaacgagtctgacccgcgcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:160277248C>T	uc003iqg.3	+	23	4722	c.4412C>T	c.(4411-4413)CCG>CTG	p.P1471L		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1471					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		TGGCATAAACCGAACGAGTCT	0.552													6	24	---	---	---	---	PASS	T	160277248	T	T	160277248	3	4	4	1	0	0	0	0	1	0	0	0	13044	652	23	1	4502	1	RAPGEF2	4	160277248	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	160277248	30877028	1038	1629	53	2								
FSTL5	56884	broad.mit.edu	37	chr4	162697122	162697122	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagcttcttccgagatatgtCgtcgccattaggattttcat	8	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:162697122C>T	uc003iqh.2	-	5	950	c.514G>A	c.(514-516)GAC>AAC	p.D172N	FSTL5_uc003iqi.2_Missense_Mutation_p.D171N|FSTL5_uc010iqv.2_Missense_Mutation_p.D171N	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	172						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CGAGATATGTCGTCGCCATTA	0.303													23	47	---	---	---	---	PASS	T	162697122	T	T	162697122	3	4	4	1	0	0	0	0	1	0	0	0	6080	884	31	2	2077	2	FSTL5	4	162697122	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2419874	162697122	28457154	1039	1630										
NPY5R	4889	broad.mit.edu	37	chr4	164272282	164272282	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcattcatcaaaaaacacaGaagaagatatagcaagaaga	6	6	3	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:164272282G>A	uc003iqn.2	+	4	1039	c.857G>A	c.(856-858)AGA>AAA	p.R286K		NM_006174	NP_006165	Q15761	NPY5R_HUMAN	neuropeptide Y receptor Y5	286	Cytoplasmic (Potential).				cardiac left ventricle morphogenesis|outflow tract morphogenesis	integral to plasma membrane				lung(6)|skin(1)	7	all_hematologic(180;0.166)	Prostate(90;0.109)				AAAAAACACAGAAGAAGATAT	0.413													19	74	---	---	---	---	PASS	A	164272282	A	A	164272282	3	1	4	1	0	0	0	0	1	0	0	0	10610	942	33	2	859	2	NPY5R	4	164272282	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1575160	164272282	26881994	1040	1631										
MARCH1	55016	broad.mit.edu	37	chr4	164506934	164506934	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgagcttggtctccattatGaagtcatacttgcagagctc	9	9	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:164506934G>A	uc003iqs.1	-	6	1367	c.390C>T	c.(388-390)TTC>TTT	p.F130F	MARCH1_uc003iqr.1_Silent_p.F113F	NM_017923	NP_060393	Q8TCQ1	MARH1_HUMAN	membrane-associated RING-CH protein I	130	RING-CH-type.				antigen processing and presentation of peptide antigen via MHC class II|immune response	cytoplasmic vesicle membrane|early endosome membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|plasma membrane	MHC protein binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TCTCCATTATGAAGTCATACT	0.493													17	60	---	---	---	---	PASS	A	164506934	A	A	164506934	2	1	4	1	0	0	0	0	0	0	0	1	9298	1281	45	2		2	MARCH1	4	164506934	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	234652	164506934	26647342	1041	1632										
NEK1	4750	broad.mit.edu	37	chr4	170506580	170506580	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gactgatggtctatccctagGatttcttttaaataactgag	8	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:170506580G>A	uc003isb.1	-	9	1219	c.727C>T	c.(727-729)CCT>TCT	p.P243S	NEK1_uc003isc.1_Missense_Mutation_p.P243S|NEK1_uc003isd.1_Missense_Mutation_p.P243S|NEK1_uc003ise.1_Missense_Mutation_p.P243S|NEK1_uc003isf.1_Missense_Mutation_p.P243S|NEK1_uc003isg.1_Missense_Mutation_p.P164S	NM_012224	NP_036356	Q96PY6	NEK1_HUMAN	NIMA-related kinase 1	243	Protein kinase.				cell division|cilium assembly|mitosis	nucleus|pericentriolar material	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(3)|ovary(2)|large_intestine(1)	6		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)|KIRC - Kidney renal clear cell carcinoma(143;0.0325)|Kidney(143;0.0385)|LUSC - Lung squamous cell carcinoma(193;0.14)		CTATCCCTAGGATTTCTTTTA	0.373													16	46	---	---	---	---	PASS	A	170506580	A	A	170506580	3	1	4	1	0	0	0	0	1	0	0	0	10321	1174	41	2	3153	2	NEK1	4	170506580	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5999646	170506580	20647696	1042	1633										
GLRA3	8001	broad.mit.edu	37	chr4	175749928	175749928	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcccagaagtaaaatcccGaaactaatgtccgaaagtgt	7	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:175749928G>A	uc003ity.1	-	1	538	c.35C>T	c.(34-36)TCG>TTG	p.S12L	GLRA3_uc003itz.1_Missense_Mutation_p.S12L|uc003iua.1_5'Flank|uc003iub.1_5'Flank	NM_006529	NP_006520	O75311	GLRA3_HUMAN	glycine receptor, alpha 3 isoform a	12					synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(3)	3		Prostate(90;0.00601)|Breast(14;0.0091)|Melanoma(52;0.00959)|Renal(120;0.0183)|all_neural(102;0.0891)|all_hematologic(60;0.107)		all cancers(43;4.99e-18)|Epithelial(43;1.18e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.88e-09)|STAD - Stomach adenocarcinoma(60;0.00442)|GBM - Glioblastoma multiforme(59;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0421)	Glycine(DB00145)	GTAAAATCCCGAAACTAATGT	0.458													18	50	---	---	---	---	PASS	A	175749928	A	A	175749928	3	1	4	1	0	0	0	0	1	0	0	0	6456	1059	37	2	1399	2	GLRA3	4	175749928	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5243348	175749928	15404348	1043	1634										
ADAM29	11086	broad.mit.edu	37	chr4	175898683	175898683	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacagtggcccaccccctaaGagaaagaagaaaaagaagtt	10	9	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:175898683G>A	uc003iuc.2	+	5	2677	c.2007G>A	c.(2005-2007)AAG>AAA	p.K669K	ADAM29_uc003iud.2_Silent_p.K669K|ADAM29_uc010irr.2_Silent_p.K669K|ADAM29_uc011cki.1_Silent_p.K669K	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	669	Poly-Lys.|Extracellular (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		CACCCCCTAAGAGAAAGAAGA	0.368													13	38	---	---	---	---	PASS	A	175898683	A	A	175898683	2	1	4	1	0	0	0	0	0	0	0	1	247	933	33	2		2	ADAM29	4	175898683	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	148755	175898683	15255593	1044	1635										
GPM6A	2823	broad.mit.edu	37	chr4	176561960	176561960	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacagtacaaattttcttttCctctccaattgtcacaattc	3	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:176561960C>T	uc003iuf.2	-	5	1366	c.562G>A	c.(562-564)GAA>AAA	p.E188K	GPM6A_uc011ckj.1_Missense_Mutation_p.E181K|GPM6A_uc003iug.2_Missense_Mutation_p.E188K|GPM6A_uc003iuh.2_Missense_Mutation_p.E177K	NM_201591	NP_963885	P51674	GPM6A_HUMAN	glycoprotein M6A isoform 2	188	Extracellular (Potential).					cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)		ATTTTCTTTTCCTCTCCAATT	0.338													5	14	---	---	---	---	PASS	T	176561960	T	T	176561960	3	4	4	1	0	0	0	0	1	0	0	0	6615	864	30	2	286	2	GPM6A	4	176561960	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	663277	176561960	14592316	1045	1636										
WDR17	116966	broad.mit.edu	37	chr4	177061074	177061074	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggaatattctgcattgcctGgagtcataaagattctaaaa	8	6	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:177061074G>A	uc003iuj.2	+	11	1619	c.1463G>A	c.(1462-1464)TGG>TAG	p.W488*	WDR17_uc003iuk.2_Nonsense_Mutation_p.W464*|WDR17_uc003ium.3_Nonsense_Mutation_p.W464*|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	488	WD 8.									ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TGCATTGCCTGGAGTCATAAA	0.308													42	72	---	---	---	---	PASS	A	177061074	A	A	177061074	4	1	4	1	0	0	0	0	0	1	0	0	17274	1357	47	3	1501	3	WDR17	4	177061074	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	499114	177061074	14093202	1046	1637										
WDR17	116966	broad.mit.edu	37	chr4	177073061	177073061	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaaggaagctgctgaaatCcacttgagattaggacaaat	10	7	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:177073061C>T	uc003iuj.2	+	18	2631	c.2475C>T	c.(2473-2475)ATC>ATT	p.I825I	WDR17_uc003iuk.2_Silent_p.I801I|WDR17_uc003ium.3_Silent_p.I801I|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Silent_p.I44I	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	825										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		CTGCTGAAATCCACTTGAGAT	0.378													24	40	---	---	---	---	PASS	T	177073061	T	T	177073061	2	4	4	1	0	0	0	0	0	0	0	1	17274	845	30	2		2	WDR17	4	177073061	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	11987	177073061	14081215	1047	1638										
ASB5	140458	broad.mit.edu	37	chr4	177138125	177138125	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgagcagcagcatgtaatgGagtatcccaatatttgcctt	9	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:177138125G>A	uc003iuq.1	-	6	722	c.706C>T	c.(706-708)CCA>TCA	p.P236S	ASB5_uc003iup.1_Missense_Mutation_p.P183S	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	236	ANK 6.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		GCATGTAATGGAGTATCCCAA	0.353													33	85	---	---	---	---	PASS	A	177138125	A	A	177138125	3	1	4	1	0	0	0	0	1	0	0	0	1026	1174	41	2	291	2	ASB5	4	177138125	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	65064	177138125	14016151	1048	1639										
ODZ3	55714	broad.mit.edu	37	chr4	183713580	183713580	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaacatatacaaccccccgGaaagcaacgcctccatcatc	5	17	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:183713580G>A	uc003ivd.1	+	25	5792	c.5755G>A	c.(5755-5757)GAA>AAA	p.E1919K		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1919	Extracellular (Potential).|YD 8.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CAACCCCCCGGAAAGCAACGC	0.537													18	70	---	---	---	---	PASS	A	183713580	A	A	183713580	3	1	4	1	0	0	0	0	1	0	0	0	10836	1175	41	2	5853	2	ODZ3	4	183713580	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6575455	183713580	7440696	1049	1640										
STOX2	56977	broad.mit.edu	37	chr4	184932261	184932261	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcacaagccatgcctgcttCccagcgtcagcaggagtcag	12	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:184932261C>T	uc003ivz.1	+	3	3705	c.2270C>T	c.(2269-2271)TCC>TTC	p.S757F	STOX2_uc003iwa.1_Missense_Mutation_p.S446F	NM_020225	NP_064610	Q9P2F5	STOX2_HUMAN	storkhead box 2	757					embryo development|maternal placenta development						0		all_lung(41;1.89e-12)|Lung NSC(41;3.48e-12)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|all_hematologic(60;0.027)|Prostate(90;0.0283)		all cancers(43;2.85e-26)|Epithelial(43;2.27e-22)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-10)|Colorectal(24;8.23e-06)|GBM - Glioblastoma multiforme(59;1.64e-05)|STAD - Stomach adenocarcinoma(60;3.6e-05)|COAD - Colon adenocarcinoma(29;4.37e-05)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.227)		ATGCCTGCTTCCCAGCGTCAG	0.552													10	8	---	---	---	---	PASS	T	184932261	T	T	184932261	3	4	4	1	0	0	0	0	1	0	0	0	15319	855	30	2	2280	2	STOX2	4	184932261	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1218681	184932261	6222015	1050	1641										
HELT	391723	broad.mit.edu	37	chr4	185941590	185941590	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggcccgcctgggcgcggaGcccgcctttccgccgctggg	16	17	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:185941590G>A	uc011ckq.1	+	4	648	c.648G>A	c.(646-648)GAG>GAA	p.E216E	HELT_uc011cko.1_Silent_p.E131E|HELT_uc003ixa.3_Silent_p.E130E|HELT_uc011ckp.1_Silent_p.E74E	NM_001029887	NP_001025058	A6NFD8	HELT_HUMAN	HES/HEY-like transcription factor	216							DNA binding				0		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;8.92e-26)|Epithelial(43;3.02e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-11)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		TGGGCGCGGAGCCCGCCTTTC	0.677													5	25	---	---	---	---	PASS	A	185941590	A	A	185941590	2	1	4	1	0	0	0	0	0	0	0	1	7048	962	34	3		3	HELT	4	185941590	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1009329	185941590	5212686	1051	1642										
SNX25	83891	broad.mit.edu	37	chr4	186209226	186209226	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcagctttccccaactgaaGaggcacaaaggtaagagcca	10	11	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:186209226G>A	uc003ixh.2	+	6	849	c.660G>A	c.(658-660)AAG>AAA	p.K220K		NM_031953	NP_114159	Q9H3E2	SNX25_HUMAN	sorting nexin 25	220					cell communication|protein transport	endosome membrane	phosphatidylinositol binding|signal transducer activity			ovary(2)|breast(2)|pancreas(1)	5		all_lung(41;1.03e-13)|Lung NSC(41;2.5e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00886)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;2.13e-24)|Epithelial(43;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.6e-11)|BRCA - Breast invasive adenocarcinoma(30;0.00013)|Colorectal(24;0.000165)|GBM - Glioblastoma multiforme(59;0.000357)|COAD - Colon adenocarcinoma(29;0.000887)|STAD - Stomach adenocarcinoma(60;0.00118)|LUSC - Lung squamous cell carcinoma(40;0.0129)|READ - Rectum adenocarcinoma(43;0.228)		CCCAACTGAAGAGGCACAAAG	0.413													28	37	---	---	---	---	PASS	A	186209226	A	A	186209226	2	1	4	1	0	0	0	0	0	0	0	1	14896	933	33	2		2	SNX25	4	186209226	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	267636	186209226	4945050	1052	1643										
SORBS2	8470	broad.mit.edu	37	chr4	186536046	186536046	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtatttggctatagcttctCcgatttctccgggctgggct	11	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:186536046C>T	uc003iyl.2	-	17	3680	c.2822G>A	c.(2821-2823)GGA>GAA	p.G941E	SORBS2_uc003iyh.2_Missense_Mutation_p.G665E|SORBS2_uc011ckw.1_Missense_Mutation_p.G502E|SORBS2_uc003iyi.2_Missense_Mutation_p.G572E|SORBS2_uc011ckx.1_Missense_Mutation_p.G507E|SORBS2_uc003iyk.2_Missense_Mutation_p.G485E|SORBS2_uc003iym.2_Missense_Mutation_p.G1041E|SORBS2_uc003iyn.1_Missense_Mutation_p.G532E|SORBS2_uc011cku.1_Missense_Mutation_p.G333E|SORBS2_uc011ckv.1_Missense_Mutation_p.G845E|SORBS2_uc003iyd.2_Missense_Mutation_p.G640E|SORBS2_uc003iye.2_Missense_Mutation_p.G514E|SORBS2_uc003iya.2_Missense_Mutation_p.G461E|SORBS2_uc003iyb.2_Missense_Mutation_p.G414E|SORBS2_uc003iyc.2_Missense_Mutation_p.G394E|SORBS2_uc003iyg.2_Missense_Mutation_p.G1055E|SORBS2_uc003iyf.2_Missense_Mutation_p.G477E|SORBS2_uc003iyo.1_Missense_Mutation_p.G390E	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	941	SH3 2.					actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		TATAGCTTCTCCGATTTCTCC	0.423													9	29	---	---	---	---	PASS	T	186536046	T	T	186536046	3	4	4	1	0	0	0	0	1	0	0	0	14928	855	30	2	500	2	SORBS2	4	186536046	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	326820	186536046	4618230	1053	1644										
KLKB1	3818	broad.mit.edu	37	chr4	187159513	187159513	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaagccctgtgccctttcaGaaattggtaattgtaggact	10	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:187159513G>A	uc003iyy.2	+	6	663	c.592G>A	c.(592-594)GAA>AAA	p.E198K	KLKB1_uc011clc.1_5'UTR|KLKB1_uc011cld.1_Missense_Mutation_p.E160K	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	198					blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		TGCCCTTTCAGAAATTGGTAA	0.299													15	40	---	---	---	---	PASS	A	187159513	A	A	187159513	3	1	4	1	0	0	0	0	1	0	0	0	8412	943	33	2	610	2	KLKB1	4	187159513	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	623467	187159513	3994763	1054	1645										
FAT1	2195	broad.mit.edu	37	chr4	187584747	187584747	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtcgattcacggtccagtcGatctgacgtctctatgacac	10	12	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:187584747G>A	uc003izf.2	-	3	3474	c.3286C>T	c.(3286-3288)CGA>TGA	p.R1096*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1096	Extracellular (Potential).|Cadherin 9.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CGGTCCAGTCGATCTGACGTC	0.463										HNSCC(5;0.00058)			7	28	---	---	---	---	PASS	A	187584747	A	A	187584747	4	1	4	1	0	0	0	0	0	1	0	0	5689	1066	37	2	10580	2	FAT1	4	187584747	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	425234	187584747	3569529	1055	1646										
FAT1	2195	broad.mit.edu	37	chr4	187629604	187629604	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtctgggtaaattcaggggGattgctatttgcacctaaga	12	6	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:187629604G>A	uc003izf.2	-	2	1566	c.1378C>T	c.(1378-1380)CCC>TCC	p.P460S	FAT1_uc010iso.1_Missense_Mutation_p.P460S	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	460	Extracellular (Potential).|Cadherin 3.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AATTCAGGGGGATTGCTATTT	0.473										HNSCC(5;0.00058)			77	112	---	---	---	---	PASS	A	187629604	A	A	187629604	3	1	4	1	0	0	0	0	1	0	0	0	5689	1174	41	2	12492	2	FAT1	4	187629604	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	44857	187629604	3524672	1056	1647										
TRIML1	339976	broad.mit.edu	37	chr4	189061083	189061083	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagagccatggtgcaaacaGagtgcatctctccagcgagg	12	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr4:189061083G>A	uc003izm.1	+	1	486	c.371G>A	c.(370-372)AGA>AAA	p.R124K		NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	124					multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		GGTGCAAACAGAGTGCATCTC	0.592													11	39	---	---	---	---	PASS	A	189061083	A	A	189061083	3	1	4	1	0	0	0	0	1	0	0	0	16547	942	33	2	373	2	TRIML1	4	189061083	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1431479	189061083	2093193	1057	1648										
SLC12A7	10723	broad.mit.edu	37	chr5	1087030	1087030	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acacttaccagaaaaatctcGatggtccccaaaatatacat	4	11	1	1	rs148809420	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:1087030G>A	uc003jbu.2	-	6	729	c.663C>T	c.(661-663)ATC>ATT	p.I221I		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	221	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	GAAAAATCTCGATGGTCCCCA	0.587													16	48	---	---	---	---	PASS	A	1087030	A	A	1087030	2	1	4	1	0	0	0	0	0	0	0	1	14388	1048	37	2		2	SLC12A7	5	1087030	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08		1087030	179828230	1058	1649										
SLC12A7	10723	broad.mit.edu	37	chr5	1093770	1093770	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggttactgtccatctcctCctgcgcggcgtggacatggt	14	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:1093770C>T	uc003jbu.2	-	3	286	c.220G>A	c.(220-222)GAG>AAG	p.E74K		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	74	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	TCCATCTCCTCCTGCGCGGCG	0.682													5	7	---	---	---	---	PASS	T	1093770	T	T	1093770	3	4	4	1	0	0	0	0	1	0	0	0	14388	869	30	2	3119	2	SLC12A7	5	1093770	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6740	1093770	179821490	1059	1650										
SLC6A19	340024	broad.mit.edu	37	chr5	1208984	1208984	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgtggagctccatccaccCggccctgaagggcctaggtg	14	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:1208984C>T	uc003jbw.3	+	2	382	c.326C>T	c.(325-327)CCG>CTG	p.P109L		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	109	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			TCCATCCACCCGGCCCTGAAG	0.701													7	13	---	---	---	---	PASS	T	1208984	T	T	1208984	3	4	4	1	0	0	0	0	1	0	0	0	14682	652	23	1	332	1	SLC6A19	5	1208984	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	115214	1208984	179706276	1060	1651										
SLC6A3	6531	broad.mit.edu	37	chr5	1422015	1422015	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgaggtcttcacgcccttCcagaggctgaagtagagcag	12	12	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:1422015C>T	uc003jck.2	-	5	889	c.768G>A	c.(766-768)TGG>TGA	p.W256*		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	256	Helical; Name=4; (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	TCACGCCCTTCCAGAGGCTGA	0.637													15	56	---	---	---	---	PASS	T	1422015	T	T	1422015	4	4	4	1	0	0	0	0	0	1	0	0	14685	856	30	2	1138	2	SLC6A3	5	1422015	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	213031	1422015	179493245	1061	1652										
ADAMTS16	170690	broad.mit.edu	37	chr5	5242288	5242288	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcgtgcgctctgagtgctcCgtgtcctgcggagggggtag	17	10	1	1	rs35767796		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:5242288C>T	uc003jdl.2	+	17	2784	c.2646C>T	c.(2644-2646)TCC>TCT	p.S882S	ADAMTS16_uc003jdk.1_Silent_p.S882S	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	882	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CTGAGTGCTCCGTGTCCTGCG	0.622													7	22	---	---	---	---	PASS	T	5242288	T	T	5242288	2	4	4	1	0	0	0	0	0	0	0	1	261	639	23	1		1	ADAMTS16	5	5242288	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3820273	5242288	175672972	1062	1653										
KIAA0947	23379	broad.mit.edu	37	chr5	5463364	5463364	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaagagaaaagtccatttcGggaaacgactggctcctcat	9	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:5463364G>T	uc003jdm.3	+	13	4139	c.3917G>T	c.(3916-3918)CGG>CTG	p.R1306L		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1306										ovary(1)|central_nervous_system(1)	2						AGTCCATTTCGGGAAACGACT	0.438													4	17	---	---	---	---	PASS	T	5463364	T	T	5463364	3	4	4	1	0	0	0	0	1	0	0	0	8202	1116	39	1	3967	1	KIAA0947	5	5463364	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	221076	5463364	175451896	1063	1654										
ADCY2	108	broad.mit.edu	37	chr5	7804718	7804718	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttctttccaagccaaaattCagtggagttgaaaagattaa	7	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:7804718C>T	uc003jdz.1	+	22	2863	c.2796C>T	c.(2794-2796)TTC>TTT	p.F932F	ADCY2_uc011cmo.1_Silent_p.F752F|ADCY2_uc010itm.1_Silent_p.F128F	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	932	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						AGCCAAAATTCAGTGGAGTTG	0.483													17	20	---	---	---	---	PASS	T	7804718	T	T	7804718	2	4	4	1	0	0	0	0	0	0	0	1	294	825	29	2		2	ADCY2	5	7804718	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2341354	7804718	173110542	1064	1655										
SEMA5A	9037	broad.mit.edu	37	chr5	9190533	9190533	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaacttctgagcatcctgCagatttctctcggtcaggtt	9	10	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:9190533C>A	uc003jek.2	-	11	1831	c.1119G>T	c.(1117-1119)CTG>CTT	p.L373L		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	373	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						GAGCATCCTGCAGATTTCTCT	0.577													10	20	---	---	---	---	PASS	A	9190533	A	A	9190533	2	1	4	1	0	0	0	0	0	0	0	1	14037	697	25	3		3	SEMA5A	5	9190533	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1385815	9190533	171724727	1065	1656										
MARCH6	10299	broad.mit.edu	37	chr5	10426588	10426588	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctctgtgctgttgctttcCctgtgtgtaccttatgtcat	8	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:10426588C>T	uc003jet.1	+	24	2643	c.2460C>T	c.(2458-2460)TCC>TCT	p.S820S	MARCH6_uc011cmu.1_Silent_p.S772S|MARCH6_uc003jeu.1_Silent_p.S518S|MARCH6_uc011cmv.1_Silent_p.S715S	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	820	Helical; (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						TGTTGCTTTCCCTGTGTGTAC	0.433													25	58	---	---	---	---	PASS	T	10426588	T	T	10426588	2	4	4	1	0	0	0	0	0	0	0	1	9305	610	22	3		3	MARCH6	5	10426588	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1236055	10426588	170488672	1066	1657										
CTNND2	1501	broad.mit.edu	37	chr5	11022941	11022941	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgccaccggcatcccgtaagGccttggcgttctccatgttc	10	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:11022941G>A	uc003jfa.1	-	17	3084	c.2939C>T	c.(2938-2940)GCC>GTC	p.A980V	CTNND2_uc010itt.2_Missense_Mutation_p.A889V|CTNND2_uc011cmy.1_Missense_Mutation_p.A643V|CTNND2_uc011cmz.1_Missense_Mutation_p.A547V|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.A572V	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	980	ARM 9.			A -> G (in Ref. 8; AAB97957).	multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						ATCCCGTAAGGCCTTGGCGTT	0.507													14	43	---	---	---	---	PASS	A	11022941	A	A	11022941	3	1	4	1	0	0	0	0	1	0	0	0	4020	1203	42	3	762	3	CTNND2	5	11022941	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	596353	11022941	169892319	1067	1658										
CTNND2	1501	broad.mit.edu	37	chr5	11082931	11082931	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggcaggcctttctcttttcGgacagcggctcggatatata	12	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:11082931G>A	uc003jfa.1	-	16	2810	c.2665C>T	c.(2665-2667)CGA>TGA	p.R889*	CTNND2_uc010itt.2_Nonsense_Mutation_p.R798*|CTNND2_uc011cmy.1_Nonsense_Mutation_p.R552*|CTNND2_uc011cmz.1_Nonsense_Mutation_p.R456*|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Nonsense_Mutation_p.R481*	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	889	ARM 8.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						TTCTCTTTTCGGACAGCGGCT	0.537													8	21	---	---	---	---	PASS	A	11082931	A	A	11082931	4	1	4	1	0	0	0	0	0	1	0	0	4020	1124	39	1	1040	1	CTNND2	5	11082931	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	59990	11082931	169832329	1068	1659										
CTNND2	1501	broad.mit.edu	37	chr5	11411723	11411723	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatacaggagtccaccagctCgagacctgttgtaagctcat	9	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:11411723C>T	uc003jfa.1	-	5	509	c.364G>A	c.(364-366)GAG>AAG	p.E122K	CTNND2_uc010itt.2_Missense_Mutation_p.E31K|CTNND2_uc011cmy.1_Missense_Mutation_p.E31K|CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	122					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						TCCACCAGCTCGAGACCTGTT	0.373													7	26	---	---	---	---	PASS	T	11411723	T	T	11411723	3	4	4	1	0	0	0	0	1	0	0	0	4020	893	31	2	3385	2	CTNND2	5	11411723	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	328792	11411723	169503537	1069	1660										
DNAH5	1767	broad.mit.edu	37	chr5	13737373	13737373	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaactcaccaggtctgtattCctcccgggctgagttaattt	8	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:13737373C>T	uc003jfd.2	-	66	11485	c.11443G>A	c.(11443-11445)GAA>AAA	p.E3815K	DNAH5_uc003jfc.2_Intron	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3815	Potential.				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GGTCTGTATTCCTCCCGGGCT	0.428									Kartagener_syndrome				12	34	---	---	---	---	PASS	T	13737373	T	T	13737373	3	4	4	1	0	0	0	0	1	0	0	0	4604	864	30	2	2487	2	DNAH5	5	13737373	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2325650	13737373	167177887	1070	1661										
DNAH5	1767	broad.mit.edu	37	chr5	13752308	13752308	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctagtgctggatctagttCctctccaacatcttcaataa	5	11	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:13752308C>T	uc003jfd.2	-	64	11005	c.10963G>A	c.(10963-10965)GAA>AAA	p.E3655K	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3655	AAA 5 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GGATCTAGTTCCTCTCCAACA	0.398									Kartagener_syndrome				12	62	---	---	---	---	PASS	T	13752308	T	T	13752308	3	4	4	1	0	0	0	0	1	0	0	0	4604	864	30	2	2975	2	DNAH5	5	13752308	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	14935	13752308	167162952	1071	1662										
DNAH5	1767	broad.mit.edu	37	chr5	13820578	13820578	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgaccttcagtttccaagGaggatggttgattaaaccag	11	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:13820578G>T	uc003jfd.2	-	41	6760	c.6718C>A	c.(6718-6720)CCT>ACT	p.P2240T		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2240	AAA 2 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGTTTCCAAGGAGGATGGTTG	0.418									Kartagener_syndrome				13	25	---	---	---	---	PASS	T	13820578	T	T	13820578	3	4	4	1	0	0	0	0	1	0	0	0	4604	1174	41	2	7312	2	DNAH5	5	13820578	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	68270	13820578	167094682	1072	1663										
DNAH5	1767	broad.mit.edu	37	chr5	13911603	13911603	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttatggttgccacaatgccCtgaaatattatgagataaat	7	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:13911603C>T	uc003jfd.2	-	12	1579	c.1537_splice	c.e12-1	p.G513_splice	DNAH5_uc003jfe.1_Intron	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5						microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CCACAATGCCCTGAAATATTA	0.313									Kartagener_syndrome				10	29	---	---	---	---	PASS	T	13911603	T	T	13911603	5	4	4	1	0	0	0	0	0	0	1	0	4604	695	24	3	12610	3	DNAH5	5	13911603	Splice_Site	SNP	C	TCGA-18-3409-01A-01D-0983-08	91025	13911603	167003657	1073	1664										
TRIO	7204	broad.mit.edu	37	chr5	14286983	14286983	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttttctttctctgcagcgaGgaggtctgcaagcgtggctt	13	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:14286983G>A	uc003jff.2	+	4	357	c.351G>A	c.(349-351)GAG>GAA	p.E117E	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Silent_p.E68E	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	117	CRAL-TRIO.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					TCTGCAGCGAGGAGGTCTGCA	0.582													6	26	---	---	---	---	PASS	A	14286983	A	A	14286983	2	1	4	1	0	0	0	0	0	0	0	1	16549	991	35	3		3	TRIO	5	14286983	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	375380	14286983	166628277	1074	1665										
TRIO	7204	broad.mit.edu	37	chr5	14498737	14498737	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcctcatcgtcggccagcCtgagggtcctaggtaagcac	12	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:14498737C>T	uc003jff.2	+	53	8326	c.8320C>T	c.(8320-8322)CTG>TTG	p.L2774L	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2774	Ig-like C2-type.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GTCGGCCAGCCTGAGGGTCCT	0.567													12	62	---	---	---	---	PASS	T	14498737	T	T	14498737	2	4	4	1	0	0	0	0	0	0	0	1	16549	680	24	3		3	TRIO	5	14498737	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	211754	14498737	166416523	1075	1666										
MARCH11	441061	broad.mit.edu	37	chr5	16177920	16177920	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaacctctctcactgatcCattttagcaggcacagctga	8	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:16177920C>T	uc003jfo.2	-	2	821	c.608G>A	c.(607-609)TGG>TAG	p.W203*	uc003jfp.2_5'Flank	NM_001102562	NP_001096032	A6NNE9	MARHB_HUMAN	membrane-associated ring finger (C3HC4) 11	203	RING-CH-type.					cytoplasmic vesicle membrane|integral to membrane	ligase activity|zinc ion binding				0						CTCACTGATCCATTTTAGCAG	0.433													21	58	---	---	---	---	PASS	T	16177920	T	T	16177920	4	4	4	1	0	0	0	0	0	1	0	0	9300	595	21	3	612	3	MARCH11	5	16177920	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1679183	16177920	164737340	1076	1667										
ZNF622	90441	broad.mit.edu	37	chr5	16463280	16463280	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgtgaagagcttacagtggCttttgtcattcatatgtgcc	10	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:16463280C>G	uc003jfq.2	-	3	1106	c.986G>C	c.(985-987)AGC>ACC	p.S329T		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	329						cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						CTTACAGTGGCTTTTGTCATT	0.423													6	149	---	---	---	---	PASS	G	16463280	G	G	16463280	3	3	4	1	0	0	0	0	1	0	0	0	18043	797	28	4	463	4	ZNF622	5	16463280	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	285360	16463280	164451980	1077	1668										
CDH10	1008	broad.mit.edu	37	chr5	24487843	24487843	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaccgagggccccattctcGgaggtaatcgtagttttggt	12	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:24487843G>A	uc003jgr.1	-	12	2628	c.2296C>T	c.(2296-2298)CGA>TGA	p.R766*	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	766	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CCCCATTCTCGGAGGTAATCG	0.413										HNSCC(23;0.051)			34	62	---	---	---	---	PASS	A	24487843	A	A	24487843	4	1	4	1	0	0	0	0	0	1	0	0	3096	1124	39	1	74	1	CDH10	5	24487843	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	8024563	24487843	156427417	1078	1669										
CDH10	1008	broad.mit.edu	37	chr5	24488000	24488000	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttttagcctttcattaatGaaatcccggacgtccgtgtt	7	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:24488000G>A	uc003jgr.1	-	12	2471	c.2139C>T	c.(2137-2139)TTC>TTT	p.F713F	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	713	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TTTCATTAATGAAATCCCGGA	0.458										HNSCC(23;0.051)			9	39	---	---	---	---	PASS	A	24488000	A	A	24488000	2	1	4	1	0	0	0	0	0	0	0	1	3096	1281	45	2		2	CDH10	5	24488000	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	157	24488000	156427260	1079	1670										
CDH10	1008	broad.mit.edu	37	chr5	24511541	24511541	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattctacttcagcatttttCccagtgtcagcatcagttgc	6	11	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:24511541C>T	uc003jgr.1	-	6	1229	c.897G>A	c.(895-897)GGG>GGA	p.G299G	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	299	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CAGCATTTTTCCCAGTGTCAG	0.423										HNSCC(23;0.051)			22	47	---	---	---	---	PASS	T	24511541	T	T	24511541	2	4	4	1	0	0	0	0	0	0	0	1	3096	842	30	2		2	CDH10	5	24511541	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	23541	24511541	156403719	1080	1671										
CDH9	1007	broad.mit.edu	37	chr5	26886136	26886136	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctggcactggttcaaaaaaGaatttgtgacctcggggagg	13	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:26886136G>A	uc003jgs.1	-	10	1738	c.1569C>T	c.(1567-1569)TTC>TTT	p.F523F	CDH9_uc011cnv.1_Silent_p.F116F	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	523	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						GTTCAAAAAAGAATTTGTGAC	0.313													16	55	---	---	---	---	PASS	A	26886136	A	A	26886136	2	1	4	1	0	0	0	0	0	0	0	1	3117	933	33	2		2	CDH9	5	26886136	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2374595	26886136	154029124	1081	1672										
CDH9	1007	broad.mit.edu	37	chr5	26915832	26915832	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtattttaatgataaattcCgattccggttccacctgccg	7	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:26915832C>T	uc003jgs.1	-	3	598	c.429G>A	c.(427-429)TCG>TCA	p.S143S	CDH9_uc010iug.2_Silent_p.S143S	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	143	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TGATAAATTCCGATTCCGGTT	0.398													24	81	---	---	---	---	PASS	T	26915832	T	T	26915832	2	4	4	1	0	0	0	0	0	0	0	1	3117	639	23	1		1	CDH9	5	26915832	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	29696	26915832	153999428	1082	1673										
CDH9	1007	broad.mit.edu	37	chr5	26988258	26988258	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgtgtactcttccaataaGaagaactgattccacatcca	5	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:26988258G>A	uc003jgs.1	-	2	352	c.183C>T	c.(181-183)TTC>TTT	p.F61F	CDH9_uc010iug.2_Silent_p.F61F	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	61	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						CTTCCAATAAGAAGAACTGAT	0.378													7	16	---	---	---	---	PASS	A	26988258	A	A	26988258	2	1	4	1	0	0	0	0	0	0	0	1	3117	933	33	2		2	CDH9	5	26988258	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	72426	26988258	153927002	1083	1674										
RNASEN	29102	broad.mit.edu	37	chr5	31526644	31526644	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtccaggaggtgccccaggGactggggggttattaggaca	17	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:31526644G>A	uc003jhg.2	-	4	755	c.396C>T	c.(394-396)GTC>GTT	p.V132V	RNASEN_uc003jhh.2_Silent_p.V132V|RNASEN_uc003jhi.2_Silent_p.V132V|RNASEN_uc010iui.1_Silent_p.V123V	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	132	Pro-rich.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						GTGCCCCAGGGACTGGGGGGT	0.607													10	13	---	---	---	---	PASS	A	31526644	A	A	31526644	2	1	4	1	0	0	0	0	0	0	0	1	13417	1161	41	2		2	RNASEN	5	31526644	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4538386	31526644	149388616	1084	1675										
C5orf23	79614	broad.mit.edu	37	chr5	32789682	32789682	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacctccttttctcctttctCttaaattcaaagacgtttgc	3	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:32789682C>T	uc003jhw.1	+	1	738	c.175C>T	c.(175-177)CTT>TTT	p.L59F		NM_024563	NP_078839			hypothetical protein LOC79614												0						TCTCCTTTCTCTTAAATTCAA	0.398													8	37	---	---	---	---	PASS	T	32789682	T	T	32789682	3	4	4	1	0	0	0	0	1	0	0	0	2286	913	32	2	177	2	C5orf23	5	32789682	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1263038	32789682	148125578	1085	1676										
ADAMTS12	81792	broad.mit.edu	37	chr5	33576467	33576467	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtagtgggcctttggctggGgagcagtccttccattactg	14	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:33576467G>A	uc003jia.1	-	19	3827	c.3664C>T	c.(3664-3666)CCC>TCC	p.P1222S	ADAMTS12_uc010iuq.1_Missense_Mutation_p.P1137S	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1222	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CTTTGGCTGGGGAGCAGTCCT	0.552										HNSCC(64;0.19)			26	49	---	---	---	---	PASS	A	33576467	A	A	33576467	3	1	4	1	0	0	0	0	1	0	0	0	257	1232	43	3	1144	3	ADAMTS12	5	33576467	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	786785	33576467	147338793	1086	1677										
ADAMTS12	81792	broad.mit.edu	37	chr5	33649739	33649739	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tactggagctggcgggacatGatgtacggatgtctgcccac	14	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:33649739G>A	uc003jia.1	-	8	1417	c.1254C>T	c.(1252-1254)ATC>ATT	p.I418I	ADAMTS12_uc010iuq.1_Silent_p.I418I	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	418	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GGCGGGACATGATGTACGGAT	0.547										HNSCC(64;0.19)			27	34	---	---	---	---	PASS	A	33649739	A	A	33649739	2	1	4	1	0	0	0	0	0	0	0	1	257	1280	45	2		2	ADAMTS12	5	33649739	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	73272	33649739	147265521	1087	1678										
AGXT2	64902	broad.mit.edu	37	chr5	35025919	35025919	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgcaccagctcaaaggcttcCtttagaaacccctttgggta	8	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:35025919C>T	uc003jjf.2	-	9	991	c.912G>A	c.(910-912)AAG>AAA	p.K304K	AGXT2_uc003jje.1_5'UTR|AGXT2_uc011com.1_Silent_p.K304K	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	304					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	CAAAGGCTTCCTTTAGAAACC	0.483													10	34	---	---	---	---	PASS	T	35025919	T	T	35025919	2	4	4	1	0	0	0	0	0	0	0	1	405	680	24	3		3	AGXT2	5	35025919	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1376180	35025919	145889341	1088	1679										
SPEF2	79925	broad.mit.edu	37	chr5	35641538	35641538	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattttactgtccagggtttCaagtgccaaacttaataatt	6	7	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:35641538C>T	uc003jjo.2	+	3	278	c.167C>T	c.(166-168)TCA>TTA	p.S56L	SPEF2_uc003jjn.1_Missense_Mutation_p.S56L|SPEF2_uc003jjq.3_Missense_Mutation_p.S56L	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	56	CH.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TCCAGGGTTTCAAGTGCCAAA	0.333													16	30	---	---	---	---	PASS	T	35641538	T	T	35641538	3	4	4	1	0	0	0	0	1	0	0	0	15034	838	29	2	177	2	SPEF2	5	35641538	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	615619	35641538	145273722	1089	1680										
SPEF2	79925	broad.mit.edu	37	chr5	35644570	35644570	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgcccatttgcattttgaGaaacttgaaagatttcaaaa	6	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:35644570G>T	uc003jjo.2	+	4	639	c.528G>T	c.(526-528)GAG>GAT	p.E176D	SPEF2_uc003jjn.1_Missense_Mutation_p.E176D|SPEF2_uc003jjq.3_Missense_Mutation_p.E176D	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	176					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity	p.E176G(1)		skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGCATTTTGAGAAACTTGAAA	0.313													6	19	---	---	---	---	PASS	T	35644570	T	T	35644570	3	4	4	1	0	0	0	0	1	0	0	0	15034	933	33	2	542	2	SPEF2	5	35644570	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3032	35644570	145270690	1090	1681										
SPEF2	79925	broad.mit.edu	37	chr5	35704730	35704730	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaaaaccaagataaggatGgagaccaaaatttaagagac	9	6	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:35704730G>A	uc003jjo.2	+	17	2584	c.2473G>A	c.(2473-2475)GGA>AGA	p.G825R	SPEF2_uc003jjq.3_Missense_Mutation_p.G820R|SPEF2_uc003jjp.1_Missense_Mutation_p.G311R	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	825					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AGATAAGGATGGAGACCAAAA	0.318													14	44	---	---	---	---	PASS	A	35704730	A	A	35704730	3	1	4	1	0	0	0	0	1	0	0	0	15034	1349	47	3	2560	3	SPEF2	5	35704730	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	60160	35704730	145210530	1091	1682										
SPEF2	79925	broad.mit.edu	37	chr5	35705851	35705851	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctgaaatagataaggaatCtttatgtgaaaaagtaaaag	9	2	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:35705851C>T	uc003jjo.2	+	18	2717	c.2606C>T	c.(2605-2607)TCT>TTT	p.S869F	SPEF2_uc003jjq.3_Missense_Mutation_p.S864F|SPEF2_uc003jjp.1_Missense_Mutation_p.S355F	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	869					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GATAAGGAATCTTTATGTGAA	0.284													3	19	---	---	---	---	PASS	T	35705851	T	T	35705851	3	4	4	1	0	0	0	0	1	0	0	0	15034	913	32	2	2697	2	SPEF2	5	35705851	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1121	35705851	145209409	1092	1683										
SPEF2	79925	broad.mit.edu	37	chr5	35806982	35806982	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaacactactcaaagtgttCaaagggggaagtgaagcaca	11	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:35806982C>T	uc003jjo.2	+	35	5295	c.5184C>T	c.(5182-5184)TTC>TTT	p.F1728F	SPEF2_uc003jjp.1_Silent_p.F1214F|SPEF2_uc003jjr.2_Silent_p.F783F	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1728					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TCAAAGTGTTCAAAGGGGGAA	0.378													15	32	---	---	---	---	PASS	T	35806982	T	T	35806982	2	4	4	1	0	0	0	0	0	0	0	1	15034	825	29	2		2	SPEF2	5	35806982	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	101131	35806982	145108278	1093	1684										
C5orf42	65250	broad.mit.edu	37	chr5	37125368	37125368	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattgcttctgggacagaaaGgatcatgttcttgccctctc	10	10	4	1	rs113008648		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:37125368G>A	uc011cpa.1	-	46	9005	c.8774C>T	c.(8773-8775)CCT>CTT	p.P2925L	C5orf42_uc003jkp.1_Intron|C5orf42_uc011coy.1_Missense_Mutation_p.P1443L|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.P2018L	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2925										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			GGGACAGAAAGGATCATGTTC	0.373													24	80	---	---	---	---	PASS	A	37125368	A	A	37125368	3	1	4	1	0	0	0	0	1	0	0	0	2301	1000	35	3	847	3	C5orf42	5	37125368	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1318386	37125368	143789892	1094	1685										
OSMR	9180	broad.mit.edu	37	chr5	38881757	38881757	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggagctgggaatctgagctCcctttggaatgtgccacaca	12	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:38881757C>T	uc003jln.1	+	4	676	c.309C>T	c.(307-309)CTC>CTT	p.L103L	OSMR_uc003jlm.1_Silent_p.L103L	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	103	Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					AATCTGAGCTCCCTTTGGAAT	0.473													17	33	---	---	---	---	PASS	T	38881757	T	T	38881757	2	4	4	1	0	0	0	0	0	0	0	1	11292	842	30	2		2	OSMR	5	38881757	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1756389	38881757	142033503	1095	1686										
OSMR	9180	broad.mit.edu	37	chr5	38933461	38933461	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taaaatgcaaatggcagtctCcctgcgtcttgccttgcctc	8	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:38933461C>T	uc003jln.1	+	18	3222	c.2855C>T	c.(2854-2856)TCC>TTC	p.S952F	OSMR_uc011cpj.1_Missense_Mutation_p.S156F	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	952	Cytoplasmic (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					ATGGCAGTCTCCCTGCGTCTT	0.507													23	57	---	---	---	---	PASS	T	38933461	T	T	38933461	3	4	4	1	0	0	0	0	1	0	0	0	11292	855	30	2	2959	2	OSMR	5	38933461	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	51704	38933461	141981799	1096	1687										
FYB	2533	broad.mit.edu	37	chr5	39202038	39202038	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggcaatggcttctgtttcGgggtggctgaattcttgtct	14	7	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:39202038G>A	uc003jls.2	-	1	1092	c.1025C>T	c.(1024-1026)CCG>CTG	p.P342L	FYB_uc003jlt.2_Missense_Mutation_p.P342L|FYB_uc003jlu.2_Missense_Mutation_p.P342L|FYB_uc011cpl.1_Missense_Mutation_p.P352L	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	342					cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			CTTCTGTTTCGGGGTGGCTGA	0.532													12	39	---	---	---	---	PASS	A	39202038	A	A	39202038	3	1	4	1	0	0	0	0	1	0	0	0	6124	1116	39	1	1536	1	FYB	5	39202038	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	268577	39202038	141713222	1097	1688										
FYB	2533	broad.mit.edu	37	chr5	39202362	39202362	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggttttaaagggccgcttTtggacctgactcccagggga	13	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:39202362T>A	uc003jls.2	-	1	768	c.701A>T	c.(700-702)AAA>ATA	p.K234I	FYB_uc003jlt.2_Missense_Mutation_p.K234I|FYB_uc003jlu.2_Missense_Mutation_p.K234I|FYB_uc011cpl.1_Missense_Mutation_p.K244I	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	234					cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			AGGGCCGCTTTTGGACCTGAC	0.502													31	79	---	---	---	---	PASS	A	39202362	A	A	39202362	3	1	4	1	0	0	0	0	1	0	0	0	6124	1841	64	5	1860	5	FYB	5	39202362	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	324	39202362	141712898	1098	1689										
HEATR7B2	133558	broad.mit.edu	37	chr5	41004483	41004483	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttgtttgcagcactatttCcttgaagtagaagctcacgt	8	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:41004483C>T	uc003jmj.3	-	37	4649	c.4159G>A	c.(4159-4161)GAA>AAA	p.E1387K	HEATR7B2_uc003jmi.3_Missense_Mutation_p.E942K	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1387	HEAT 15.						binding			ovary(6)|central_nervous_system(2)	8						AGCACTATTTCCTTGAAGTAG	0.458													34	84	---	---	---	---	PASS	T	41004483	T	T	41004483	3	4	4	1	0	0	0	0	1	0	0	0	7035	864	30	2	622	2	HEATR7B2	5	41004483	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1802121	41004483	139910777	1099	1690										
HEATR7B2	133558	broad.mit.edu	37	chr5	41009458	41009458	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttaaggcttgcaagagtttcCcactggaggctggcttttca	11	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:41009458C>T	uc003jmj.3	-	32	3834	c.3344G>A	c.(3343-3345)GGG>GAG	p.G1115E	HEATR7B2_uc003jmi.3_Missense_Mutation_p.G670E	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1115	HEAT 12.						binding			ovary(6)|central_nervous_system(2)	8						CAAGAGTTTCCCACTGGAGGC	0.507													12	60	---	---	---	---	PASS	T	41009458	T	T	41009458	3	4	4	1	0	0	0	0	1	0	0	0	7035	623	22	3	1457	3	HEATR7B2	5	41009458	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4975	41009458	139905802	1100	1691										
HEATR7B2	133558	broad.mit.edu	37	chr5	41032873	41032873	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctaatggcgattaaggctttCcaccgaatagggctagctaa	10	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:41032873C>T	uc003jmj.3	-	24	2902	c.2412G>A	c.(2410-2412)TGG>TGA	p.W804*	HEATR7B2_uc003jmi.3_Nonsense_Mutation_p.W359*	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	804	HEAT 9.						binding			ovary(6)|central_nervous_system(2)	8						TTAAGGCTTTCCACCGAATAG	0.388													11	20	---	---	---	---	PASS	T	41032873	T	T	41032873	4	4	4	1	0	0	0	0	0	1	0	0	7035	856	30	2	2421	2	HEATR7B2	5	41032873	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	23415	41032873	139882387	1101	1692										
HEATR7B2	133558	broad.mit.edu	37	chr5	41057416	41057416	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcttctcaagctccttggaAggccaatgtcataaagaact	7	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:41057416A>G	uc003jmj.3	-	8	1293	c.803T>C	c.(802-804)CTT>CCT	p.L268P	HEATR7B2_uc003jmi.3_Intron	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	268							binding			ovary(6)|central_nervous_system(2)	8						GCTCCTTGGAAGGCCAATGTC	0.438													9	14	---	---	---	---	PASS	G	41057416	G	G	41057416	3	3	4	1	0	0	0	0	1	0	0	0	7035	72	3	5	4094	5	HEATR7B2	5	41057416	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	24543	41057416	139857844	1102	1693										
C6	729	broad.mit.edu	37	chr5	41149419	41149419	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgttggatgaaagtcttgtCctttcaagaccccattctaa	7	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:41149419C>T	uc003jmk.2	-	17	2757	c.2547G>A	c.(2545-2547)AGG>AGA	p.R849R	C6_uc003jml.1_Silent_p.R849R	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	849	C5b-binding domain.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				AAAGTCTTGTCCTTTCAAGAC	0.418													39	81	---	---	---	---	PASS	T	41149419	T	T	41149419	2	4	4	1	0	0	0	0	0	0	0	1	2315	854	30	2		2	C6	5	41149419	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	92003	41149419	139765841	1103	1694										
NNT	23530	broad.mit.edu	37	chr5	43650627	43650627	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgggaggacatttgtatcCttccacaacttctcagggcc	10	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:43650627C>T	uc003joe.2	+	12	1910	c.1655C>T	c.(1654-1656)CCT>CTT	p.P552L	NNT_uc003jof.2_Missense_Mutation_p.P552L	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	552					tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	CATTTGTATCCTTCCACAACT	0.438													10	28	---	---	---	---	PASS	T	43650627	T	T	43650627	3	4	4	1	0	0	0	0	1	0	0	0	10510	681	24	3	1697	3	NNT	5	43650627	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2501208	43650627	137264633	1104	1695										
FGF10	2255	broad.mit.edu	37	chr5	44310604	44310604	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctttgacggcaacaactccGatttctactgatgttatctc	7	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:44310604G>A	uc003jog.1	-	2	354	c.354C>T	c.(352-354)ATC>ATT	p.I118I		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	118					actin cytoskeleton reorganization|activation of MAPK activity|bud outgrowth involved in lung branching|ERK1 and ERK2 cascade|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|insulin receptor signaling pathway|lacrimal gland development|lung saccule development|mesonephros development|negative regulation of cell cycle arrest|positive regulation of ATPase activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of DNA repair|positive regulation of DNA replication|positive regulation of epithelial cell migration|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of ERK1 and ERK2 cascade|positive regulation of hair follicle cell proliferation|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of lymphocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of urothelial cell proliferation|protein localization at cell surface|radial glial cell differentiation|regulation of saliva secretion|response to protein stimulus|secretion by lung epithelial cell involved in lung growth|tear secretion|thymus development|urothelial cell proliferation	cell surface|extracellular space|nucleus|plasma membrane	chemoattractant activity|growth factor activity|heparin binding|type 2 fibroblast growth factor receptor binding			lung(3)	3	Lung NSC(6;1.12e-06)					CAACAACTCCGATTTCTACTG	0.333													7	13	---	---	---	---	PASS	A	44310604	A	A	44310604	2	1	4	1	0	0	0	0	0	0	0	1	5839	1048	37	2		2	FGF10	5	44310604	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	659977	44310604	136604656	1105	1696										
HCN1	348980	broad.mit.edu	37	chr5	45267354	45267354	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctttggtcagcaggcaaatCtctataaaaacaaacaacaa	5	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:45267354C>T	uc003jok.2	-	7	1645	c.1620G>A	c.(1618-1620)GAG>GAA	p.E540E		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	540	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GCAGGCAAATCTCTATAAAAA	0.398													26	30	---	---	---	---	PASS	T	45267354	T	T	45267354	2	4	4	1	0	0	0	0	0	0	0	1	6996	927	32	2		2	HCN1	5	45267354	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	956750	45267354	135647906	1106	1697										
HCN1	348980	broad.mit.edu	37	chr5	45353276	45353276	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccttggtatctgtgttcatAgtaatcatgtatcttctgac	8	8	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:45353276A>G	uc003jok.2	-	5	1328	c.1303T>C	c.(1303-1305)TAT>CAT	p.Y435H		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	435	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CTGTGTTCATAGTAATCATGT	0.343													9	22	---	---	---	---	PASS	G	45353276	G	G	45353276	3	3	4	1	0	0	0	0	1	0	0	0	6996	420	15	5	1385	5	HCN1	5	45353276	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	85922	45353276	135561984	1107	1698										
SNX18	112574	broad.mit.edu	37	chr5	53815435	53815435	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccttagagcaggtgatatgGagtgtattgtgcaggctgaa	14	6	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:53815435G>A	uc003jpj.3	+	1	1843	c.1653G>A	c.(1651-1653)TGG>TGA	p.W551*	SNX18_uc011cqg.1_Nonsense_Mutation_p.W551*|SNX18_uc003jpi.3_Intron	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	551	BAR.				cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)				AGGTGATATGGAGTGTATTGT	0.512													12	52	---	---	---	---	PASS	A	53815435	A	A	53815435	4	1	4	1	0	0	0	0	0	1	0	0	14889	1183	41	2	1655	2	SNX18	5	53815435	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	8462159	53815435	127099825	1108	1699										
CDC20B	166979	broad.mit.edu	37	chr5	54415739	54415739	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttaggtagccagattaagGaacaaatctgtaataatgat	8	5	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:54415739G>A	uc003jpo.1	-	11	1524	c.1349C>T	c.(1348-1350)TCC>TTC	p.S450F	CDC20B_uc003jpn.1_Missense_Mutation_p.S450F|CDC20B_uc010ivu.1_Missense_Mutation_p.S408F	NM_152623	NP_689836	Q86Y33	CD20B_HUMAN	CDC20 cell division cycle 20 homolog B isoform	450	WD 6.										0		Lung NSC(810;0.000744)|Breast(144;0.159)|Prostate(74;0.194)	LUSC - Lung squamous cell carcinoma(15;0.225)			CCAGATTAAGGAACAAATCTG	0.403													12	48	---	---	---	---	PASS	A	54415739	A	A	54415739	3	1	4	1	0	0	0	0	1	0	0	0	3060	1174	41	2	218	2	CDC20B	5	54415739	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	600304	54415739	126499521	1109	1700										
SLC38A9	153129	broad.mit.edu	37	chr5	54929713	54929713	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacagggtgtcactgctaggGaagttgtctaaaaaattcta	11	6	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:54929713G>A	uc003jqf.2	-	14	1500	c.1299C>T	c.(1297-1299)TTC>TTT	p.F433F	SLC38A9_uc003jqd.2_Silent_p.F370F|SLC38A9_uc010ivx.2_Silent_p.F370F|SLC38A9_uc003jqe.2_Intron|SLC38A9_uc010ivy.2_Silent_p.F304F	NM_173514	NP_775785	Q8NBW4	S38A9_HUMAN	solute carrier family 38, member 9	433					amino acid transport|sodium ion transport	integral to membrane					0		Lung NSC(810;0.00122)|Prostate(74;0.0376)|Breast(144;0.181)				CACTGCTAGGGAAGTTGTCTA	0.388													16	16	---	---	---	---	PASS	A	54929713	A	A	54929713	2	1	4	1	0	0	0	0	0	0	0	1	14611	1165	41	2		2	SLC38A9	5	54929713	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	513974	54929713	125985547	1110	1701										
GAPT	202309	broad.mit.edu	37	chr5	57790524	57790524	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaaaggagaagcagcaggaGaaaagtctgtactaaaacat	10	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:57790524G>A	uc003jro.1	+	3	555	c.161G>A	c.(160-162)AGA>AAA	p.R54K		NM_152687	NP_689900	Q8N292	GAPT_HUMAN	GRB2-binding adaptor protein, transmembrane	54					B cell activation	integral to membrane|plasma membrane					0						AGCAGCAGGAGAAAAGTCTGT	0.458													13	23	---	---	---	---	PASS	A	57790524	A	A	57790524	3	1	4	1	0	0	0	0	1	0	0	0	6238	942	33	2	163	2	GAPT	5	57790524	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2860811	57790524	123124736	1111	1702										
PDE4D	5144	broad.mit.edu	37	chr5	58270781	58270781	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtgcaggagaggggctctGagggattgtgctctggtacc	18	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:58270781G>A	uc003jsa.2	-	15	2312	c.2140C>T	c.(2140-2142)CAG>TAG	p.Q714*	PDE4D_uc003jrx.2_Nonsense_Mutation_p.Q578*|PDE4D_uc003jry.2_Nonsense_Mutation_p.Q412*|PDE4D_uc003jrz.2_Nonsense_Mutation_p.Q650*|PDE4D_uc003jsb.2_Nonsense_Mutation_p.Q653*|PDE4D_uc003jrt.2_Nonsense_Mutation_p.Q412*|PDE4D_uc003jru.2_Nonsense_Mutation_p.Q490*|PDE4D_uc003jrv.2_Nonsense_Mutation_p.Q584*|PDE4D_uc003jrw.2_Nonsense_Mutation_p.Q592*|PDE4D_uc003jrs.2_Nonsense_Mutation_p.Q423*	NM_001104631	NP_001098101	Q08499	PDE4D_HUMAN	phosphodiesterase 4D isoform 1	714					signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)	GAGGGGCTCTGAGGGATTGTG	0.537													22	32	---	---	---	---	PASS	A	58270781	A	A	58270781	4	1	4	1	0	0	0	0	0	1	0	0	11642	1299	45	2	293	2	PDE4D	5	58270781	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	480257	58270781	122644479	1112	1703										
IPO11	51194	broad.mit.edu	37	chr5	61783631	61783631	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattatttatagatatattcCatgaatataatcagactctt	3	5	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:61783631C>T	uc003jtc.2	+	13	1442	c.1252C>T	c.(1252-1254)CAT>TAT	p.H418Y	IPO11_uc011cqr.1_Missense_Mutation_p.H458Y|IPO11_uc003jtb.1_Missense_Mutation_p.H418Y	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	418						cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		AGATATATTCCATGAATATAA	0.299													7	29	---	---	---	---	PASS	T	61783631	T	T	61783631	3	4	4	1	0	0	0	0	1	0	0	0	7793	594	21	3	1422	3	IPO11	5	61783631	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3512850	61783631	119131629	1113	1704										
HTR1A	3350	broad.mit.edu	37	chr5	63257364	63257364	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcagggagcgctccaaggcGatggcagccaccacgcacgc	14	15	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:63257364G>A	uc011cqt.1	-	1	183	c.183C>T	c.(181-183)ATC>ATT	p.I61I		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	61	Helical; Name=1; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	GCTCCAAGGCGATGGCAGCCA	0.617													12	12	---	---	---	---	PASS	A	63257364	A	A	63257364	2	1	4	1	0	0	0	0	0	0	0	1	7436	1048	37	2		2	HTR1A	5	63257364	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1473733	63257364	117657896	1114	1705										
RGS7BP	401190	broad.mit.edu	37	chr5	63905037	63905037	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taccccctggtgagaagacgGaagagaaggttctttgggct	14	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:63905037G>A	uc003jtj.2	+	6	732	c.732G>A	c.(730-732)CGG>CGA	p.R244R	RGS7BP_uc011cqu.1_Silent_p.R111R	NM_001029875	NP_001025046	Q6MZT1	R7BP_HUMAN	regulator of G-protein signaling 7 binding	244	Nuclear localization signal (By similarity).				negative regulation of signal transduction	cytoplasm|nucleus|plasma membrane					0		Lung NSC(810;0.000518)|Prostate(74;0.0435)|Ovarian(174;0.186)		Lung(70;0.147)		TGAGAAGACGGAAGAGAAGGT	0.473													19	29	---	---	---	---	PASS	A	63905037	A	A	63905037	2	1	4	1	0	0	0	0	0	0	0	1	13311	1161	41	2		2	RGS7BP	5	63905037	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	647673	63905037	117010223	1115	1706										
CWC27	10283	broad.mit.edu	37	chr5	64082381	64082381	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atccttttgatgacatcattCcaagggaaattaaaaggctg	8	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:64082381C>T	uc003jtn.1	+	6	745	c.526C>T	c.(526-528)CCA>TCA	p.P176S	CWC27_uc003jtl.2_Missense_Mutation_p.P176S|CWC27_uc003jtm.2_Missense_Mutation_p.P176S|CWC27_uc010iwt.1_Missense_Mutation_p.P176S	NM_005869	NP_005860	Q6UX04	CWC27_HUMAN	serologically defined colon cancer antigen 10	176					protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity				0						TGACATCATTCCAAGGGAAAT	0.308													11	12	---	---	---	---	PASS	T	64082381	T	T	64082381	3	4	4	1	0	0	0	0	1	0	0	0	4070	855	30	2	548	2	CWC27	5	64082381	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	177344	64082381	116832879	1116	1707										
ADAMTS6	11174	broad.mit.edu	37	chr5	64769451	64769451	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cactatgaaattccgatgaaGccatgatgaggctcaaaatc	8	9	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:64769451G>A	uc003jtp.2	-	2	864	c.50C>T	c.(49-51)GCT>GTT	p.A17V	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA|ADAMTS6_uc003jtr.1_5'UTR	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	17					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		TTCCGATGAAGCCATGATGAG	0.368													39	107	---	---	---	---	PASS	A	64769451	A	A	64769451	3	1	4	1	0	0	0	0	1	0	0	0	270	971	34	3	3399	3	ADAMTS6	5	64769451	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	687070	64769451	116145809	1117	1708										
MAST4	375449	broad.mit.edu	37	chr5	66396421	66396421	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccgttcccgaagtctgagGtgtgtgggcctggctgaaaa	14	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:66396421G>A	uc003jut.1	+	7	571	c.503_splice	c.e7+1	p.S168_splice	MAST4_uc003jus.2_Splice_Site_p.S168_splice|MAST4_uc003juu.1_Splice_Site_p.S178_splice|MAST4_uc011cra.1_Splice_Site_p.S151_splice|MAST4_uc010ixa.2_Splice_Site|MAST4_uc003juv.2_Splice_Site_p.S163_splice|MAST4_uc003juw.2_Splice_Site_p.S163_splice	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase							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)		GAAGTCTGAGGTGTGTGGGCC	0.453													12	26	---	---	---	---	PASS	A	66396421	A	A	66396421	5	1	4	1	0	0	0	0	0	0	1	0	9327	1275	44	3	1231	3	MAST4	5	66396421	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	1626970	66396421	114518839	1118	1709										
MAST4	375449	broad.mit.edu	37	chr5	66462794	66462794	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaacactgaccgccccatctCtctttctaatgagaaggact	6	13	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:66462794C>T	uc003jut.1	+	28	7288	c.7220C>T	c.(7219-7221)TCT>TTT	p.S2407F	MAST4_uc003juw.2_Missense_Mutation_p.S2335F|MAST4_uc003jux.2_Missense_Mutation_p.S160F	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	2599						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)		CGCCCCATCTCTCTTTCTAAT	0.597													6	13	---	---	---	---	PASS	T	66462794	T	T	66462794	3	4	4	1	0	0	0	0	1	0	0	0	9327	913	32	2	8031	2	MAST4	5	66462794	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	66373	66462794	114452466	1119	1710										
CENPH	64946	broad.mit.edu	37	chr5	68498782	68498782	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaaaaactgcttgatattAgaaagaagagattgcgtatg	11	3	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:68498782A>G	uc003jvp.2	+	7	559	c.472A>G	c.(472-474)AGA>GGA	p.R158G	CENPH_uc010ixc.2_Missense_Mutation_p.R139G	NM_022909	NP_075060	Q9H3R5	CENPH_HUMAN	centromere protein H	158	Potential.				cell division|CenH3-containing nucleosome assembly at centromere|chromosome segregation|kinetochore organization|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm	kinetochore binding|protein binding			large_intestine(1)	1		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.41e-56)|Epithelial(20;1.29e-52)|all cancers(19;3.15e-48)|Lung(70;0.0178)		GCTTGATATTAGAAAGAAGAG	0.313													3	16	---	---	---	---	PASS	G	68498782	G	G	68498782	3	3	4	1	0	0	0	0	1	0	0	0	3232	412	15	5	498	5	CENPH	5	68498782	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2035988	68498782	112416478	1120	1711										
MAP1B	4131	broad.mit.edu	37	chr5	71494703	71494703	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctcagtgttattcgatacaAtgcaacaccatctagccttg	6	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:71494703A>T	uc003kbw.3	+	5	5762	c.5521A>T	c.(5521-5523)ATG>TTG	p.M1841L	MAP1B_uc010iyw.1_Missense_Mutation_p.M1858L|MAP1B_uc010iyx.1_Missense_Mutation_p.M1715L|MAP1B_uc010iyy.1_Missense_Mutation_p.M1715L	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1841						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		ATTCGATACAATGCAACACCA	0.483													9	38	---	---	---	---	PASS	T	71494703	T	T	71494703	3	4	4	1	0	0	0	0	1	0	0	0	9228	101	4	5	5539	5	MAP1B	5	71494703	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2995921	71494703	109420557	1121	1712										
RGNEF	64283	broad.mit.edu	37	chr5	73069772	73069772	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgtctcccggggggagtcCaggccttggctttacccaac	13	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:73069772C>T	uc011csq.1	+	4	579	c.568C>T	c.(568-570)CAG>TAG	p.Q190*	RGNEF_uc003kcx.2_Nonsense_Mutation_p.Q190*|RGNEF_uc003kcy.1_Nonsense_Mutation_p.Q190*|RGNEF_uc010izf.2_Nonsense_Mutation_p.Q190*	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	190					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		GGGGGGAGTCCAGGCCTTGGC	0.502													3	12	---	---	---	---	PASS	T	73069772	T	T	73069772	4	4	4	1	0	0	0	0	0	1	0	0	13283	595	21	3	582	3	RGNEF	5	73069772	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1575069	73069772	107845488	1122	1713										
ENC1	8507	broad.mit.edu	37	chr5	73932188	73932188	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acgtcagtgaagagacgctgCtggcgtaaaagattcaggtg	14	7	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:73932188C>T	uc003kdc.3	-	2	1254	c.123G>A	c.(121-123)CAG>CAA	p.Q41Q	ENC1_uc011css.1_Splice_Site	NM_003633	NP_003624	O14682	ENC1_HUMAN	ectodermal-neural cortex (with BTB-like domain)	41					nervous system development	cytoplasm|cytoskeleton|nuclear matrix	actin binding			ovary(1)|pancreas(1)|skin(1)	3		all_lung(232;0.0154)|Lung NSC(167;0.0331)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.45e-59)		AGAGACGCTGCTGGCGTAAAA	0.557													9	33	---	---	---	---	PASS	T	73932188	T	T	73932188	2	4	4	1	0	0	0	0	0	0	0	1	5113	796	28	3		3	ENC1	5	73932188	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	862416	73932188	106983072	1123	1714										
IQGAP2	10788	broad.mit.edu	37	chr5	75964510	75964510	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttctttccttctagaccaAccctttatacttggctaagc	4	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:75964510A>G	uc003kek.2	+	23	2906	c.2684A>G	c.(2683-2685)AAC>AGC	p.N895S	IQGAP2_uc010izv.2_Missense_Mutation_p.N448S|IQGAP2_uc011csv.1_Missense_Mutation_p.N391S|IQGAP2_uc003kel.2_Missense_Mutation_p.N391S	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	895					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		TTCTAGACCAACCCTTTATAC	0.323													8	14	---	---	---	---	PASS	G	75964510	G	G	75964510	3	3	4	1	0	0	0	0	1	0	0	0	7815	43	2	5	2774	5	IQGAP2	5	75964510	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2032322	75964510	104950750	1124	1715										
CRHBP	1393	broad.mit.edu	37	chr5	76264654	76264654	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcgtcagctggagccgtacGagctggaaaacccaaatgga	12	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:76264654G>A	uc003ker.2	+	7	1193	c.913G>A	c.(913-915)GAG>AAG	p.E305K		NM_001882	NP_001873	P24387	CRHBP_HUMAN	corticotropin releasing hormone binding protein	305					female pregnancy|learning or memory|signal transduction	soluble fraction					0		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-51)|Epithelial(54;8.79e-46)|all cancers(79;2.49e-41)		GGAGCCGTACGAGCTGGAAAA	0.453													17	29	---	---	---	---	PASS	A	76264654	A	A	76264654	3	1	4	1	0	0	0	0	1	0	0	0	3870	1059	37	2	939	2	CRHBP	5	76264654	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	300144	76264654	104650606	1125	1716										
CMYA5	202333	broad.mit.edu	37	chr5	79029528	79029528	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attttctagtgatttaggtaGacaaagtggatccataggta	10	4	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:79029528G>A	uc003kgc.2	+	2	5012	c.4940G>A	c.(4939-4941)AGA>AAA	p.R1647K		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1647						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GATTTAGGTAGACAAAGTGGA	0.433													15	66	---	---	---	---	PASS	A	79029528	A	A	79029528	3	1	4	1	0	0	0	0	1	0	0	0	3590	942	33	2	4946	2	CMYA5	5	79029528	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2764874	79029528	101885732	1126	1717										
CMYA5	202333	broad.mit.edu	37	chr5	79029588	79029588	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cataactgaaacagaggattCtgttttagaaaaaggcccag	9	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:79029588C>T	uc003kgc.2	+	2	5072	c.5000C>T	c.(4999-5001)TCT>TTT	p.S1667F		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1667						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		ACAGAGGATTCTGTTTTAGAA	0.403													11	53	---	---	---	---	PASS	T	79029588	T	T	79029588	3	4	4	1	0	0	0	0	1	0	0	0	3590	913	32	2	5006	2	CMYA5	5	79029588	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	60	79029588	101885672	1127	1718										
CMYA5	202333	broad.mit.edu	37	chr5	79029791	79029791	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacctgcctctgtagctgaaGgaggcaacccagaagaattt	10	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:79029791G>A	uc003kgc.2	+	2	5275	c.5203G>A	c.(5203-5205)GGA>AGA	p.G1735R		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1735						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TGTAGCTGAAGGAGGCAACCC	0.418													8	56	---	---	---	---	PASS	A	79029791	A	A	79029791	3	1	4	1	0	0	0	0	1	0	0	0	3590	1001	35	3	5209	3	CMYA5	5	79029791	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	203	79029791	101885469	1128	1719										
CMYA5	202333	broad.mit.edu	37	chr5	79034258	79034258	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaattctgaggcatcatttCccagcagaaattctgacact	7	10	3	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:79034258C>T	uc003kgc.2	+	2	9742	c.9670C>T	c.(9670-9672)CCC>TCC	p.P3224S		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3224						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GGCATCATTTCCCAGCAGAAA	0.378													12	28	---	---	---	---	PASS	T	79034258	T	T	79034258	3	4	4	1	0	0	0	0	1	0	0	0	3590	855	30	2	9676	2	CMYA5	5	79034258	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4467	79034258	101881002	1129	1720										
SPZ1	84654	broad.mit.edu	37	chr5	79616862	79616862	+	Missense_Mutation	SNP	A	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctatcagaaatctcagaaAgacataagtgaaactcttgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:79616862A>T	uc003kgn.2	+	1	1073	c.828A>T	c.(826-828)AAA>AAT	p.K276N	uc011ctk.1_RNA	NM_032567	NP_115956	Q9BXG8	SPZ1_HUMAN	spermatogenic leucine zipper 1	276					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(1)	1		Lung NSC(167;0.0393)|all_lung(232;0.0428)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;3.43e-47)|Epithelial(54;2.25e-41)|all cancers(79;4.19e-36)		AATCTCAGAAAGACATAAGTG	0.408													27	48	---	---	---	---	PASS	T	79616862	T	T	79616862	3	4	4	1	0	0	0	0	1	0	0	0	15126	69	3	5	830	5	SPZ1	5	79616862	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	582604	79616862	101298398	1130	1721	54	2								
SPZ1	84654	broad.mit.edu	37	chr5	79616863	79616863	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctatcagaaatctcagaaaGacataagtgaaactcttgga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:79616863G>A	uc003kgn.2	+	1	1074	c.829G>A	c.(829-831)GAC>AAC	p.D277N	uc011ctk.1_RNA	NM_032567	NP_115956	Q9BXG8	SPZ1_HUMAN	spermatogenic leucine zipper 1	277					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(1)	1		Lung NSC(167;0.0393)|all_lung(232;0.0428)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;3.43e-47)|Epithelial(54;2.25e-41)|all cancers(79;4.19e-36)		ATCTCAGAAAGACATAAGTGA	0.408													27	48	---	---	---	---	PASS	A	79616863	A	A	79616863	3	1	4	1	0	0	0	0	1	0	0	0	15126	942	33	2	831	2	SPZ1	5	79616863	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	79616863	101298397	1131	1722	54	2								
RASGRF2	5924	broad.mit.edu	37	chr5	80476040	80476040	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gataaagagtttattatacgGagaacggctaccaatcgagt	10	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:80476040G>A	uc003kha.1	+	18	2733	c.2733G>A	c.(2731-2733)CGG>CGA	p.R911R	RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	911					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		TTATTATACGGAGAACGGCTA	0.443													48	69	---	---	---	---	PASS	A	80476040	A	A	80476040	2	1	4	1	0	0	0	0	0	0	0	1	13073	1161	41	2		2	RASGRF2	5	80476040	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	859177	80476040	100439220	1132	1723										
VCAN	1462	broad.mit.edu	37	chr5	82815510	82815510	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taaggaagaagtgctccagaGtacaactggcgtctctcatt	10	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:82815510G>A	uc003kii.3	+	7	1741	c.1385G>A	c.(1384-1386)AGT>AAT	p.S462N	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.S462N|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	462	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GTGCTCCAGAGTACAACTGGC	0.433													15	53	---	---	---	---	PASS	A	82815510	A	A	82815510	3	1	4	1	0	0	0	0	1	0	0	0	17135	1029	36	3	1407	3	VCAN	5	82815510	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2339470	82815510	98099750	1133	1724										
VCAN	1462	broad.mit.edu	37	chr5	82837997	82837997	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atactgaggttgcaacaccaCcattttcccttctggagact	7	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:82837997C>T	uc003kii.3	+	8	9531	c.9175C>T	c.(9175-9177)CCA>TCA	p.P3059S	VCAN_uc003kij.3_Missense_Mutation_p.P2072S|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.P1723S	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3059	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TGCAACACCACCATTTTCCCT	0.428													20	51	---	---	---	---	PASS	T	82837997	T	T	82837997	3	4	4	1	0	0	0	0	1	0	0	0	17135	507	18	3	9201	3	VCAN	5	82837997	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	22487	82837997	98077263	1134	1725										
MEF2C	4208	broad.mit.edu	37	chr5	88018477	88018477	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gactgagggactttccctttCgtccggcgaaggtctggtga	14	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:88018477C>T	uc003kjj.2	-	11	2039	c.1366G>A	c.(1366-1368)GAA>AAA	p.E456K	MEF2C_uc003kji.2_Missense_Mutation_p.E448K|MEF2C_uc003kjk.2_Missense_Mutation_p.E456K|MEF2C_uc003kjm.2_Missense_Mutation_p.E446K|MEF2C_uc003kjl.2_Missense_Mutation_p.E466K	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	456					apoptosis|B cell proliferation|innate immune response|learning or memory|muscle cell differentiation|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|neuron development|positive regulation of muscle cell differentiation|positive regulation of survival gene product expression|positive regulation of transcription from RNA polymerase II promoter|regulation of germinal center formation|regulation of megakaryocyte differentiation|regulation of synaptic activity|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	nuclear speck	activating transcription factor binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(3)|breast(2)|ovary(1)|large_intestine(1)	7		all_cancers(142;6.67e-05)|all_epithelial(76;7.77e-07)|Lung NSC(167;0.00566)|all_lung(232;0.00732)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;1.04e-33)|Epithelial(54;1.6e-28)|all cancers(79;2.9e-25)		CTTTCCCTTTCGTCCGGCGAA	0.498										HNSCC(66;0.2)			26	116	---	---	---	---	PASS	T	88018477	T	T	88018477	3	4	4	1	0	0	0	0	1	0	0	0	9457	893	31	2	59	2	MEF2C	5	88018477	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	5180480	88018477	92896783	1135	1726										
GPR98	84059	broad.mit.edu	37	chr5	89971257	89971257	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcattcagtcctgaggatTaccaggtaatttactcagtc	8	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:89971257T>C	uc003kju.2	+	24	5404	c.5308T>C	c.(5308-5310)TAC>CAC	p.Y1770H	GPR98_uc003kjt.2_5'UTR|GPR98_uc010jba.1_RNA	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1770	Extracellular (Potential).|Calx-beta 12.				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TCCTGAGGATTACCAGGTAAT	0.423													6	15	---	---	---	---	PASS	C	89971257	C	C	89971257	3	2	4	1	0	0	0	0	1	0	0	0	6721	1754	61	5	5402	5	GPR98	5	89971257	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1952780	89971257	90944003	1136	1727										
FAM81B	153643	broad.mit.edu	37	chr5	94727108	94727108	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttaggatgcaattacaattCcttggtacattggcttcctc	8	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:94727108C>T	uc003kla.1	+	1	61	c.15C>T	c.(13-15)TTC>TTT	p.F5F	FAM81B_uc010jbe.1_5'Flank	NM_152548	NP_689761	Q96LP2	FA81B_HUMAN	hypothetical protein LOC153643	5										ovary(1)|skin(1)	2		all_cancers(142;1.1e-06)|all_epithelial(76;1.48e-09)|all_lung(232;0.000696)|Lung NSC(167;0.000947)|Ovarian(225;0.00473)		all cancers(79;1.04e-16)		AATTACAATTCCTTGGTACAT	0.378													29	54	---	---	---	---	PASS	T	94727108	T	T	94727108	2	4	4	1	0	0	0	0	0	0	0	1	5629	854	30	2		2	FAM81B	5	94727108	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4755851	94727108	86188152	1137	1728										
ERAP2	64167	broad.mit.edu	37	chr5	96215571	96215571	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtagccactaatggggaacGatttccttggcaggagctaa	12	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:96215571G>A	uc003kmq.2	+	2	892	c.182G>A	c.(181-183)CGA>CAA	p.R61Q	uc003kmo.1_Intron|ERAP2_uc003kmt.2_Missense_Mutation_p.R61Q|ERAP2_uc003kmr.2_RNA|ERAP2_uc003kms.2_Missense_Mutation_p.R55Q|ERAP2_uc003kmu.2_RNA	NM_022350	NP_071745	Q6P179	ERAP2_HUMAN	endoplasmic reticulum aminopeptidase 2	61	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|proteolysis|regulation of blood pressure	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding				0		all_cancers(142;0.000311)|all_epithelial(76;1.54e-06)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0596)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0703)		AATGGGGAACGATTTCCTTGG	0.488													6	17	---	---	---	---	PASS	A	96215571	A	A	96215571	3	1	4	1	0	0	0	0	1	0	0	0	5204	1058	37	2	184	2	ERAP2	5	96215571	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1488463	96215571	84699689	1138	1729										
SLCO6A1	133482	broad.mit.edu	37	chr5	101735366	101735366	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagcactttgcatcacatttCccgggtctggcatcaataaa	7	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:101735366C>T	uc003knn.2	-	10	1879	c.1707G>A	c.(1705-1707)GGG>GGA	p.G569G	SLCO6A1_uc003kno.2_Silent_p.G316G|SLCO6A1_uc003knp.2_Silent_p.G569G|SLCO6A1_uc003knq.2_Silent_p.G507G	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	569	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		CATCACATTTCCCGGGTCTGG	0.368													13	50	---	---	---	---	PASS	T	101735366	T	T	101735366	2	4	4	1	0	0	0	0	0	0	0	1	14732	842	30	2		2	SLCO6A1	5	101735366	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	5519795	101735366	79179894	1139	1730										
SLCO6A1	133482	broad.mit.edu	37	chr5	101748834	101748834	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaaggagccgtgaggtttcCcaacttccctgttctgtaaa	10	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:101748834C>T	uc003knn.2	-	9	1658	c.1486G>A	c.(1486-1488)GGA>AGA	p.G496R	SLCO6A1_uc003kno.2_Missense_Mutation_p.G243R|SLCO6A1_uc003knp.2_Missense_Mutation_p.G496R|SLCO6A1_uc003knq.2_Missense_Mutation_p.G434R	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	496	Extracellular (Potential).|Kazal-like.					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		GTGAGGTTTCCCAACTTCCCT	0.318													4	34	---	---	---	---	PASS	T	101748834	T	T	101748834	3	4	4	1	0	0	0	0	1	0	0	0	14732	632	22	3	693	3	SLCO6A1	5	101748834	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	13468	101748834	79166426	1140	1731										
SLC25A46	91137	broad.mit.edu	37	chr5	110096975	110096975	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attggaagagtgataggcatGggagtgcctcatagcaaacg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:110096975G>A	uc003koz.2	+	8	817	c.750G>A	c.(748-750)ATG>ATA	p.M250I	SLC25A46_uc011cvi.1_Missense_Mutation_p.M159I	NM_138773	NP_620128	Q96AG3	S2546_HUMAN	solute carrier family 25, member 46	250					transport	integral to membrane|mitochondrial inner membrane					0		all_cancers(142;0.00203)|all_epithelial(76;4.52e-05)|Prostate(80;0.0115)|Colorectal(57;0.0676)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;2.58e-09)|Epithelial(69;7.29e-08)|all cancers(49;9.35e-06)|COAD - Colon adenocarcinoma(37;0.211)		TGATAGGCATGGGAGTGCCTC	0.383													12	78	---	---	---	---	PASS	A	110096975	A	A	110096975	3	1	4	1	0	0	0	0	1	0	0	0	14511	1348	47	3	780	3	SLC25A46	5	110096975	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	8348141	110096975	70818285	1141	1732	55	2								
SLC25A46	91137	broad.mit.edu	37	chr5	110096976	110096976	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttggaagagtgataggcatgGgagtgcctcatagcaaacga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:110096976G>A	uc003koz.2	+	8	818	c.751G>A	c.(751-753)GGA>AGA	p.G251R	SLC25A46_uc011cvi.1_Missense_Mutation_p.G160R	NM_138773	NP_620128	Q96AG3	S2546_HUMAN	solute carrier family 25, member 46	251					transport	integral to membrane|mitochondrial inner membrane					0		all_cancers(142;0.00203)|all_epithelial(76;4.52e-05)|Prostate(80;0.0115)|Colorectal(57;0.0676)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;2.58e-09)|Epithelial(69;7.29e-08)|all cancers(49;9.35e-06)|COAD - Colon adenocarcinoma(37;0.211)		GATAGGCATGGGAGTGCCTCA	0.383													11	78	---	---	---	---	PASS	A	110096976	A	A	110096976	3	1	4	1	0	0	0	0	1	0	0	0	14511	1233	43	3	781	3	SLC25A46	5	110096976	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	110096976	70818284	1142	1733	55	2								
WDR36	134430	broad.mit.edu	37	chr5	110428113	110428113	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggactgggtacgtgttttCcttcaggaccagagctgaga	14	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:110428113C>T	uc003kpd.2	+	1	244	c.127C>T	c.(127-129)CCT>TCT	p.P43S	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	43					response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		TACGTGTTTTCCTTCAGGACC	0.627													12	28	---	---	---	---	PASS	T	110428113	T	T	110428113	3	4	4	1	0	0	0	0	1	0	0	0	17287	855	30	2	129	2	WDR36	5	110428113	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	331137	110428113	70487147	1143	1734										
EPB41L4A	64097	broad.mit.edu	37	chr5	111504718	111504718	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccgagagaactgatcgctcCccatctgaacactgggacct	9	14	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:111504718C>T	uc003kpv.1	-	21	2098	c.1824G>A	c.(1822-1824)GGG>GGA	p.G608G	EPB41L4A_uc003kpp.1_Silent_p.G235G|EPB41L4A_uc003kpu.1_RNA	NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	608						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		CTGATCGCTCCCCATCTGAAC	0.453													18	51	---	---	---	---	PASS	T	111504718	T	T	111504718	2	4	4	1	0	0	0	0	0	0	0	1	5155	610	22	3		3	EPB41L4A	5	111504718	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1076605	111504718	69410542	1144	1735										
EPB41L4A	64097	broad.mit.edu	37	chr5	111598199	111598199	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatgttactcacatagacggGatggaggtcaacgccataca	10	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:111598199G>A	uc003kpv.1	-	7	908	c.634C>T	c.(634-636)CCC>TCC	p.P212S		NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	212	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		ACATAGACGGGATGGAGGTCA	0.423													36	44	---	---	---	---	PASS	A	111598199	A	A	111598199	3	1	4	1	0	0	0	0	1	0	0	0	5155	1174	41	2	1494	2	EPB41L4A	5	111598199	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	93481	111598199	69317061	1145	1736										
KCNN2	3781	broad.mit.edu	37	chr5	113798813	113798813	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggttgatatcaataacttttCtctccattggttatggtgac	8	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:113798813C>T	uc003kqo.2	+	4	1526	c.1069C>T	c.(1069-1071)CTC>TTC	p.L357F	KCNN2_uc003kqp.2_Missense_Mutation_p.L9F|KCNN2_uc010jcg.2_RNA|uc003kqq.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	357						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		AATAACTTTTCTCTCCATTGG	0.383													42	57	---	---	---	---	PASS	T	113798813	T	T	113798813	3	4	4	1	0	0	0	0	1	0	0	0	8079	913	32	2	1083	2	KCNN2	5	113798813	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2200614	113798813	67116447	1146	1737										
KCNN2	3781	broad.mit.edu	37	chr5	113822850	113822850	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaagtaagaaaacatcaacGaaaattcctgcaagctattc	5	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:113822850G>A	uc003kqo.2	+	6	1815	c.1358G>A	c.(1357-1359)CGA>CAA	p.R453Q	KCNN2_uc003kqp.2_Missense_Mutation_p.R105Q|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	453	Calmodulin-binding (By similarity).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		AAACATCAACGAAAATTCCTG	0.323													21	30	---	---	---	---	PASS	A	113822850	A	A	113822850	3	1	4	1	0	0	0	0	1	0	0	0	8079	1058	37	2	1380	2	KCNN2	5	113822850	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	24037	113822850	67092410	1147	1738										
TRIM36	55521	broad.mit.edu	37	chr5	114499374	114499374	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagatactatgttggcaagGgagaatcaatgggtgggtaa	14	4	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:114499374G>A	uc003kqs.2	-	2	648	c.139C>T	c.(139-141)CCT>TCT	p.P47S	TRIM36_uc011cwc.1_Missense_Mutation_p.P35S|TRIM36_uc003kqt.2_Intron	NM_018700	NP_061170	Q9NQ86	TRI36_HUMAN	tripartite motif-containing 36 isoform 1	47	RING-type; degenerate.					acrosomal vesicle|cytoskeleton	ligase activity|zinc ion binding			ovary(4)|lung(2)|breast(2)	8		all_cancers(142;0.00133)|all_epithelial(76;2.41e-05)|Prostate(80;0.00955)|Ovarian(225;0.0443)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;3.62e-08)|Epithelial(69;7.69e-08)|all cancers(49;9.33e-06)		TGTTGGCAAGGGAGAATCAAT	0.418													12	38	---	---	---	---	PASS	A	114499374	A	A	114499374	3	1	4	1	0	0	0	0	1	0	0	0	16507	1232	43	3	2083	3	TRIM36	5	114499374	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	676524	114499374	66415886	1148	1739										
SEMA6A	57556	broad.mit.edu	37	chr5	115824669	115824669	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgactgcgtcaatggcaagGaagtcagtcactgtggctga	13	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:115824669G>A	uc010jck.2	-	8	1279	c.570C>T	c.(568-570)TTC>TTT	p.F190F	SEMA6A_uc003krx.3_Silent_p.F190F	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	190	Sema.|Extracellular (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		CAATGGCAAGGAAGTCAGTCA	0.453													3	0	---	---	---	---	PASS	A	115824669	A	A	115824669	2	1	4	1	0	0	0	0	0	0	0	1	14039	1165	41	2		2	SEMA6A	5	115824669	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1325295	115824669	65090591	1149	1740										
DMXL1	1657	broad.mit.edu	37	chr5	118513065	118513065	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttagttcatttcagacgAatcagtttactggaatggta	8	7	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:118513065A>G	uc003ksd.2	+	27	6953	c.6772A>G	c.(6772-6774)AAT>GAT	p.N2258D	DMXL1_uc010jcl.1_Missense_Mutation_p.N2258D	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2258										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		ATTTCAGACGAATCAGTTTAC	0.294													7	19	---	---	---	---	PASS	G	118513065	G	G	118513065	3	3	4	1	0	0	0	0	1	0	0	0	4594	246	9	5	6878	5	DMXL1	5	118513065	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2688396	118513065	62402195	1150	1741										
DMXL1	1657	broad.mit.edu	37	chr5	118533536	118533536	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctccgacgacttgaaatcCatggtgggccacctcaaaat	8	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:118533536C>T	uc003ksd.2	+	32	7811	c.7630C>T	c.(7630-7632)CAT>TAT	p.H2544Y	DMXL1_uc010jcl.1_Missense_Mutation_p.H2544Y	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2544										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		ACTTGAAATCCATGGTGGGCC	0.448													17	64	---	---	---	---	PASS	T	118533536	T	T	118533536	3	4	4	1	0	0	0	0	1	0	0	0	4594	594	21	3	7756	3	DMXL1	5	118533536	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	20471	118533536	62381724	1151	1742										
TNFAIP8	25816	broad.mit.edu	37	chr5	118728999	118728999	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttggctgccttgtataatCcttttgggaattttaaaccc	7	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:118728999C>T	uc003ksh.2	+	3	1208	c.520C>T	c.(520-522)CCT>TCT	p.P174S	TNFAIP8_uc003ksf.1_3'UTR|TNFAIP8_uc003ksg.2_Missense_Mutation_p.P164S|TNFAIP8_uc011cwf.1_Missense_Mutation_p.P168S|TNFAIP8_uc003ksi.2_Missense_Mutation_p.P174S	NM_014350	NP_055165	O95379	TFIP8_HUMAN	tumor necrosis factor, alpha-induced protein 8	174					anti-apoptosis|apoptosis|negative regulation of anti-apoptosis	cytoplasm	caspase inhibitor activity|protein binding			ovary(1)	1		all_cancers(142;0.0317)|Prostate(80;0.111)|Breast(839;0.231)		Epithelial(69;4.63e-83)|OV - Ovarian serous cystadenocarcinoma(64;1.39e-82)|all cancers(49;4.88e-75)|GBM - Glioblastoma multiforme(465;0.00338)|BRCA - Breast invasive adenocarcinoma(61;0.0148)|COAD - Colon adenocarcinoma(49;0.0829)		CTTGTATAATCCTTTTGGGAA	0.373													39	65	---	---	---	---	PASS	T	118728999	T	T	118728999	3	4	4	1	0	0	0	0	1	0	0	0	16273	855	30	2	531	2	TNFAIP8	5	118728999	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	195463	118728999	62186261	1152	1743										
PRR16	51334	broad.mit.edu	37	chr5	120022157	120022157	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtcctgactgtgatacccGgtataacataaaaaacaggg	9	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:120022157G>A	uc003ksq.2	+	2	831	c.668G>A	c.(667-669)CGG>CAG	p.R223Q	PRR16_uc003ksp.2_Missense_Mutation_p.R200Q|PRR16_uc003ksr.2_Missense_Mutation_p.R153Q	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16	223	Pro-rich.									pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		TGTGATACCCGGTATAACATA	0.507													8	34	---	---	---	---	PASS	A	120022157	A	A	120022157	3	1	4	1	0	0	0	0	1	0	0	0	12589	1116	39	1	605	1	PRR16	5	120022157	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1293158	120022157	60893103	1153	1744										
FTMT	94033	broad.mit.edu	37	chr5	121187993	121187993	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtggccttgaacaacttctCcaggtatttccttcaccagt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:121187993C>T	uc003kss.2	+	1	344	c.335C>T	c.(334-336)TCC>TTC	p.S112F		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	112	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		AACAACTTCTCCAGGTATTTC	0.582													10	14	---	---	---	---	PASS	T	121187993	T	T	121187993	3	4	4	1	0	0	0	0	1	0	0	0	6085	855	30	2	337	2	FTMT	5	121187993	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1165836	121187993	59727267	1154	1745	56	2								
FTMT	94033	broad.mit.edu	37	chr5	121187994	121187994	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggccttgaacaacttctcCaggtatttccttcaccagtc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:121187994C>T	uc003kss.2	+	1	345	c.336C>T	c.(334-336)TCC>TCT	p.S112S		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	112	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		ACAACTTCTCCAGGTATTTCC	0.577													10	14	---	---	---	---	PASS	T	121187994	T	T	121187994	2	4	4	1	0	0	0	0	0	0	0	1	6085	581	21	3		3	FTMT	5	121187994	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	121187994	59727266	1155	1746	56	2								
FTMT	94033	broad.mit.edu	37	chr5	121188068	121188068	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggctgcagaaccagcgagGaggccggatccgcctgcagg	17	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:121188068G>A	uc003kss.2	+	1	419	c.410G>A	c.(409-411)GGA>GAA	p.G137E		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	137	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		AACCAGCGAGGAGGCCGGATC	0.582													7	25	---	---	---	---	PASS	A	121188068	A	A	121188068	3	1	4	1	0	0	0	0	1	0	0	0	6085	1174	41	2	412	2	FTMT	5	121188068	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	74	121188068	59727192	1156	1747										
FTMT	94033	broad.mit.edu	37	chr5	121188234	121188234	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacccccatttgtgcgatttCctggaaacctactacctgaa	7	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:121188234C>T	uc003kss.2	+	1	585	c.576C>T	c.(574-576)TTC>TTT	p.F192F		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	192	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		TGTGCGATTTCCTGGAAACCT	0.512													40	65	---	---	---	---	PASS	T	121188234	T	T	121188234	2	4	4	1	0	0	0	0	0	0	0	1	6085	854	30	2		2	FTMT	5	121188234	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	166	121188234	59727026	1157	1748										
SRFBP1	153443	broad.mit.edu	37	chr5	121356383	121356383	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaagtgtttcttaaagaagAtacaggtgaaactcatgggg	11	4	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:121356383A>T	uc003kst.1	+	6	1025	c.953A>T	c.(952-954)GAT>GTT	p.D318V		NM_152546	NP_689759	Q8NEF9	SRFB1_HUMAN	serum response factor binding protein 1	318					regulation of transcription, DNA-dependent|transcription, DNA-dependent	perinuclear region of cytoplasm					0		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000227)|Epithelial(69;0.000365)|all cancers(49;0.00517)		CTTAAAGAAGATACAGGTGAA	0.363													12	20	---	---	---	---	PASS	T	121356383	T	T	121356383	3	4	4	1	0	0	0	0	1	0	0	0	15143	333	12	5	975	5	SRFBP1	5	121356383	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	168149	121356383	59558877	1158	1749										
ZNF474	133923	broad.mit.edu	37	chr5	121488583	121488583	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctttacctcagaccgcctcCtggtacaccagagaagttgt	8	13	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:121488583C>T	uc003ksv.2	+	2	1274	c.898C>T	c.(898-900)CTG>TTG	p.L300L		NM_207317	NP_997200	Q6S9Z5	ZN474_HUMAN	zinc finger protein 474	300						intracellular	zinc ion binding				0		all_cancers(142;0.229)|Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000197)|Epithelial(69;0.00029)|all cancers(49;0.00415)		AGACCGCCTCCTGGTACACCA	0.463													11	30	---	---	---	---	PASS	T	121488583	T	T	121488583	2	4	4	1	0	0	0	0	0	0	0	1	17929	680	24	3		3	ZNF474	5	121488583	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	132200	121488583	59426677	1159	1750										
CEP120	153241	broad.mit.edu	37	chr5	122722273	122722273	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcaaatgcacagtaagactGgggaagaaaaacttccatgt	9	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:122722273G>T	uc003ktk.2	-	11	1601	c.1519C>A	c.(1519-1521)CAG>AAG	p.Q507K	CEP120_uc011cwq.1_Missense_Mutation_p.Q316K|CEP120_uc010jcz.1_Missense_Mutation_p.Q481K	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	507						centrosome				ovary(1)	1						CAGTAAGACTGGGGAAGAAAA	0.353													4	35	---	---	---	---	PASS	T	122722273	T	T	122722273	3	4	4	1	0	0	0	0	1	0	0	0	3246	1357	47	3	1485	3	CEP120	5	122722273	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1233690	122722273	58192987	1160	1751										
ZNF608	57507	broad.mit.edu	37	chr5	123974901	123974901	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcaacaagggcagcagagGtcaagcctaatggggaaaaa	14	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:123974901G>A	uc003ktq.1	-	8	4580	c.4457C>T	c.(4456-4458)ACC>ATC	p.T1486I	ZNF608_uc003ktr.1_RNA|ZNF608_uc003ktp.1_Missense_Mutation_p.T181I	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	1486						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		GGCAGCAGAGGTCAAGCCTAA	0.473													8	8	---	---	---	---	PASS	A	123974901	A	A	123974901	3	1	4	1	0	0	0	0	1	0	0	0	18031	1261	44	3	89	3	ZNF608	5	123974901	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1252628	123974901	56940359	1161	1752										
SLC12A2	6558	broad.mit.edu	37	chr5	127448533	127448533	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgaggatggctttgcaaatGgggaagaaagtactccaacc	12	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:127448533G>A	uc003kus.2	+	2	948	c.784G>A	c.(784-786)GGG>AGG	p.G262R	SLC12A2_uc010jdf.2_RNA|SLC12A2_uc010jdg.2_Missense_Mutation_p.G262R	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12	262	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	CTTTGCAAATGGGGAAGAAAG	0.348													22	35	---	---	---	---	PASS	A	127448533	A	A	127448533	3	1	4	1	0	0	0	0	1	0	0	0	14383	1348	47	3	790	3	SLC12A2	5	127448533	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3473632	127448533	53466727	1162	1753										
FBN2	2201	broad.mit.edu	37	chr5	127648327	127648327	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttcagctttgtacttactGctattgacaggggggcatgt	11	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:127648327G>A	uc003kuu.2	-	37	5317	c.4878C>T	c.(4876-4878)AGC>AGT	p.S1626S		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1626	TB 6.				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)		TGTACTTACTGCTATTGACAG	0.507													81	128	---	---	---	---	PASS	A	127648327	A	A	127648327	2	1	4	1	0	0	0	0	0	0	0	1	5703	1333	46	3		3	FBN2	5	127648327	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	199794	127648327	53266933	1163	1754										
ISOC1	51015	broad.mit.edu	37	chr5	128440726	128440726	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggaaaggttcagaccagcCatcaagtattttggggatat	11	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:128440726C>T	uc003kva.2	+	2	405	c.387C>T	c.(385-387)GCC>GCT	p.A129A		NM_016048	NP_057132	Q96CN7	ISOC1_HUMAN	isochorismatase domain containing 1	129						peroxisome	catalytic activity				0		all_cancers(142;0.0813)|Prostate(80;0.0865)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.138)|OV - Ovarian serous cystadenocarcinoma(64;0.164)		TCAGACCAGCCATCAAGTATT	0.378													24	53	---	---	---	---	PASS	T	128440726	T	T	128440726	2	4	4	1	0	0	0	0	0	0	0	1	7862	581	21	3		3	ISOC1	5	128440726	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	792399	128440726	52474534	1164	1755										
ADAMTS19	171019	broad.mit.edu	37	chr5	128844924	128844924	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttcacagtcattactgtgGtatcatttcaggtaaatgcc	7	9	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:128844924G>A	uc003kvb.1	+	3	884	c.884G>A	c.(883-885)GGT>GAT	p.G295D	ADAMTS19_uc003kvc.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	295	Cysteine switch (By similarity).				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		CATTACTGTGGTATCATTTCA	0.388													10	42	---	---	---	---	PASS	A	128844924	A	A	128844924	3	1	4	1	0	0	0	0	1	0	0	0	264	1261	44	3	894	3	ADAMTS19	5	128844924	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	404198	128844924	52070336	1165	1756										
RAPGEF6	51735	broad.mit.edu	37	chr5	130828461	130828461	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggcaatattcaataaccgGagatgaccattcatcttctg	7	10	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:130828461G>A	uc003kvn.1	-	14	1751	c.1545C>T	c.(1543-1545)CTC>CTT	p.L515L	RAPGEF6_uc003kvp.1_Silent_p.L565L|RAPGEF6_uc003kvo.1_Silent_p.L515L|RAPGEF6_uc010jdi.1_Silent_p.L515L|RAPGEF6_uc010jdj.1_Silent_p.L515L|RAPGEF6_uc003kvq.2_Silent_p.L232L|RAPGEF6_uc003kvr.2_Silent_p.L515L|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Silent_p.L515L	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	515	N-terminal Ras-GEF.				Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		TCAATAACCGGAGATGACCAT	0.378													9	19	---	---	---	---	PASS	A	130828461	A	A	130828461	2	1	4	1	0	0	0	0	0	0	0	1	13048	1161	41	2		2	RAPGEF6	5	130828461	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1983537	130828461	50086799	1166	1757										
IL4	3565	broad.mit.edu	37	chr5	132015469	132015469	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccggcagttctacagccacCatgagaaggacactcgctgc	10	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:132015469C>T	uc003kxk.1	+	3	617	c.247C>T	c.(247-249)CAT>TAT	p.H83Y	IL4_uc003kxl.1_Missense_Mutation_p.H67Y	NM_000589	NP_000580	P05112	IL4_HUMAN	interleukin 4 isoform 1 precursor	83					B cell differentiation|cellular defense response|chemotaxis|cholesterol metabolic process|connective tissue growth factor biosynthetic process|negative regulation of apoptosis|negative regulation of osteoclast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of interleukin-13 production|positive regulation of isotype switching to IgE isotypes|positive regulation of isotype switching to IgG isotypes|positive regulation of MHC class II biosynthetic process|positive regulation of T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|T-helper 2 cell cytokine production	extracellular space	cytokine activity|growth factor activity|interleukin-4 receptor binding				0		all_cancers(142;2.81e-05)|all_lung(232;1.47e-05)|Lung NSC(810;2.31e-05)|all_neural(839;0.0459)|Ovarian(839;0.0481)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	GBM - Glioblastoma multiforme(465;0.00245)		CTACAGCCACCATGAGAAGGA	0.562													19	55	---	---	---	---	PASS	T	132015469	T	T	132015469	3	4	4	1	0	0	0	0	1	0	0	0	7696	594	21	3	257	3	IL4	5	132015469	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1187008	132015469	48899791	1167	1758										
ANKRD43	134548	broad.mit.edu	37	chr5	132150955	132150955	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagtgcccagttttcctccaAcaacctgaaggtccctgggg	10	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:132150955A>G	uc003kxw.2	+	1	1923	c.1642A>G	c.(1642-1644)ACA>GCA	p.T548A		NM_175873	NP_787069	Q2M3V2	ANR43_HUMAN	ankyrin repeat domain 43 precursor	548											0		all_cancers(142;0.086)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTTTCCTCCAACAACCTGAAG	0.567													8	15	---	---	---	---	PASS	G	132150955	G	G	132150955	3	3	4	1	0	0	0	0	1	0	0	0	671	43	2	5	1644	5	ANKRD43	5	132150955	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	135486	132150955	48764305	1168	1759										
TRPC7	57113	broad.mit.edu	37	chr5	135692782	135692782	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtgccaggttctccttcttCagcagcagctccgtgacctc	9	16	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:135692782C>T	uc003lbn.1	-	1	294	c.291G>A	c.(289-291)CTG>CTA	p.L97L	TRPC7_uc010jef.1_Silent_p.L89L|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Silent_p.L89L|TRPC7_uc010jei.1_Silent_p.L89L|TRPC7_uc010jej.1_5'UTR	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	98	Cytoplasmic (Potential).|ANK 2.				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TCTCCTTCTTCAGCAGCAGCT	0.617													21	27	---	---	---	---	PASS	T	135692782	T	T	135692782	2	4	4	1	0	0	0	0	0	0	0	1	16581	813	29	2		2	TRPC7	5	135692782	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3541827	135692782	45222478	1169	1760										
FAM53C	51307	broad.mit.edu	37	chr5	137682482	137682482	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catggcctgtagccccccacCcctctctgcttcctgcagcc	7	21	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:137682482C>T	uc003lcv.2	+	5	1483	c.1013C>T	c.(1012-1014)CCC>CTC	p.P338L	FAM53C_uc003lcw.2_Missense_Mutation_p.P338L|FAM53C_uc011cyq.1_RNA|FAM53C_uc011cyr.1_3'UTR	NM_001135647	NP_001129119	Q9NYF3	FA53C_HUMAN	hypothetical protein LOC51307	338										ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			AGCCCCCCACCCCTCTCTGCT	0.617													8	14	---	---	---	---	PASS	T	137682482	T	T	137682482	3	4	4	1	0	0	0	0	1	0	0	0	5581	623	22	3	1027	3	FAM53C	5	137682482	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1989700	137682482	43232778	1170	1761										
TMEM173	340061	broad.mit.edu	37	chr5	138860758	138860758	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcataccttgaggcccaggaGgatgttcagtgcctgcgaga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:138860758G>A	uc003lep.2	-	4	648	c.397C>T	c.(397-399)CTC>TTC	p.L133F		NM_198282	NP_938023	Q86WV6	TM173_HUMAN	transmembrane protein 173	133	Helical; (Potential).				activation of innate immune response|apoptosis|cellular response to exogenous dsRNA|defense response to virus|innate immune response|interferon-beta production|positive regulation of defense response to virus by host|positive regulation of protein binding|positive regulation of protein import into nucleus, translocation|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane|perinuclear region of cytoplasm|plasma membrane	protein homodimerization activity|protein kinase binding|transcription factor binding			upper_aerodigestive_tract(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AGGCCCAGGAGGATGTTCAGT	0.602													10	28	---	---	---	---	PASS	A	138860758	A	A	138860758	3	1	4	1	0	0	0	0	1	0	0	0	16086	1000	35	3	762	3	TMEM173	5	138860758	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1178276	138860758	42054502	1171	1762	57	2								
TMEM173	340061	broad.mit.edu	37	chr5	138860759	138860759	+	Silent	SNP	G	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cataccttgaggcccaggagGatgttcagtgcctgcgagag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:138860759G>T	uc003lep.2	-	4	647	c.396C>A	c.(394-396)ATC>ATA	p.I132I		NM_198282	NP_938023	Q86WV6	TM173_HUMAN	transmembrane protein 173	132	Helical; (Potential).				activation of innate immune response|apoptosis|cellular response to exogenous dsRNA|defense response to virus|innate immune response|interferon-beta production|positive regulation of defense response to virus by host|positive regulation of protein binding|positive regulation of protein import into nucleus, translocation|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane|perinuclear region of cytoplasm|plasma membrane	protein homodimerization activity|protein kinase binding|transcription factor binding			upper_aerodigestive_tract(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GGCCCAGGAGGATGTTCAGTG	0.602													10	29	---	---	---	---	PASS	T	138860759	T	T	138860759	2	4	4	1	0	0	0	0	0	0	0	1	16086	1164	41	2		2	TMEM173	5	138860759	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	138860759	42054501	1172	1763	57	2								
SLC35A4	113829	broad.mit.edu	37	chr5	139946784	139946784	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggatgggggtatgccaggCctgggccgtcccaggcaggc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:139946784C>T	uc003lgg.1	+	3	758	c.30C>T	c.(28-30)GGC>GGT	p.G10G	APBB3_uc003lgc.1_5'Flank|APBB3_uc003lgd.1_5'Flank|APBB3_uc003lge.1_5'Flank|APBB3_uc003lgf.1_5'Flank|APBB3_uc010jfp.1_5'Flank|APBB3_uc011czi.1_5'Flank|APBB3_uc010jfr.1_5'Flank|SLC35A4_uc003lgh.1_Silent_p.G10G	NM_080670	NP_542401	Q96G79	S35A4_HUMAN	solute carrier family 35, member A4	10						Golgi membrane|integral to membrane	sugar:hydrogen symporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTATGCCAGGCCTGGGCCGTC	0.597													12	26	---	---	---	---	PASS	T	139946784	T	T	139946784	2	4	4	1	0	0	0	0	0	0	0	1	14573	726	26	3		3	SLC35A4	5	139946784	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1086025	139946784	40968476	1173	1764	58	2								
SLC35A4	113829	broad.mit.edu	37	chr5	139946785	139946785	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggatgggggtatgccaggcCtgggccgtcccaggcaggcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:139946785C>T	uc003lgg.1	+	3	759	c.31C>T	c.(31-33)CTG>TTG	p.L11L	APBB3_uc003lgc.1_5'Flank|APBB3_uc003lgd.1_5'Flank|APBB3_uc003lge.1_5'Flank|APBB3_uc003lgf.1_5'Flank|APBB3_uc010jfp.1_5'Flank|APBB3_uc011czi.1_5'Flank|APBB3_uc010jfr.1_5'Flank|SLC35A4_uc003lgh.1_Silent_p.L11L	NM_080670	NP_542401	Q96G79	S35A4_HUMAN	solute carrier family 35, member A4	11						Golgi membrane|integral to membrane	sugar:hydrogen symporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TATGCCAGGCCTGGGCCGTCC	0.597													11	26	---	---	---	---	PASS	T	139946785	T	T	139946785	2	4	4	1	0	0	0	0	0	0	0	1	14573	680	24	3		3	SLC35A4	5	139946785	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	139946785	40968475	1174	1765	58	2								
IK	3550	broad.mit.edu	37	chr5	140032629	140032629	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagcagagaagtaccgggatCgtgccaaggaacggagagat	15	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140032629C>T	uc003lgq.2	+	5	414	c.304C>T	c.(304-306)CGT>TGT	p.R102C	IK_uc011czk.1_Missense_Mutation_p.R102C	NM_006083	NP_006074	Q13123	RED_HUMAN	RED protein	102					cell-cell signaling|immune response	extracellular space|nucleus|soluble fraction				large_intestine(1)	1		all_hematologic(541;4.8e-07)|all_lung(500;0.000434)|Lung NSC(810;0.00161)|Breast(839;0.128)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTACCGGGATCGTGCCAAGGA	0.483													8	52	---	---	---	---	PASS	T	140032629	T	T	140032629	3	4	4	1	0	0	0	0	1	0	0	0	7608	884	31	2	322	2	IK	5	140032629	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	85844	140032629	40882631	1175	1766										
HARS2	23438	broad.mit.edu	37	chr5	140075750	140075750	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgttcctgaaagcaagttCcgtgccatctgctcctccat	9	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140075750C>T	uc003lgx.2	+	7	912	c.696C>T	c.(694-696)TTC>TTT	p.F232F	HARS2_uc010jfv.1_3'UTR|HARS2_uc011czr.1_Silent_p.F207F|HARS2_uc011czs.1_Silent_p.F88F|HARS2_uc011czt.1_Intron|HARS2_uc011czu.1_Intron	NM_012208	NP_036340	P49590	SYHM_HUMAN	histidyl-tRNA synthetase 2 precursor	232					histidyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|histidine-tRNA ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAGCAAGTTCCGTGCCATCT	0.468													8	51	---	---	---	---	PASS	T	140075750	T	T	140075750	2	4	4	1	0	0	0	0	0	0	0	1	6960	854	30	2		2	HARS2	5	140075750	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	43121	140075750	40839510	1176	1767										
PCDHA1	56147	broad.mit.edu	37	chr5	140167249	140167249	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgcctgcgttcgcgcagccCgagtacacagtattcgtgaa	12	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140167249C>A	uc003lhb.2	+	1	1374	c.1374C>A	c.(1372-1374)CCC>CCA	p.P458P	PCDHA1_uc003lha.2_Silent_p.P458P|PCDHA1_uc003lgz.2_Silent_p.P458P	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	458	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGCGCAGCCCGAGTACACAG	0.682													4	62	---	---	---	---	PASS	A	140167249	A	A	140167249	2	1	4	1	0	0	0	0	0	0	0	1	11519	639	23	1		1	PCDHA1	5	140167249	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	91499	140167249	40748011	1177	1768			1	1		12	12	21480	N	T_G_C_A	7.310973e-05
PCDHA1	56147	broad.mit.edu	37	chr5	140167790	140167790	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcacgactcgtgtcctggacGaggctgacttgtcgcgctac	13	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140167790G>A	uc003lhb.2	+	1	1915	c.1915G>A	c.(1915-1917)GAG>AAG	p.E639K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.E639K	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	639	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCCTGGACGAGGCTGACTT	0.647													14	46	---	---	---	---	PASS	A	140167790	A	A	140167790	3	1	4	1	0	0	0	0	1	0	0	0	11519	1059	37	2	1917	2	PCDHA1	5	140167790	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	541	140167790	40747470	1178	1769			1	1		12	12	21480	N	T_G_C_A	7.310973e-05
PCDHA2	56146	broad.mit.edu	37	chr5	140175978	140175978	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgggctgccacatcttcacgGtgtcagcgtgggatgcggac	15	12	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140175978G>A	uc003lhd.2	+	1	1535	c.1429G>A	c.(1429-1431)GTG>ATG	p.V477M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.V477M|PCDHA2_uc011czy.1_Missense_Mutation_p.V477M	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	477	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CATCTTCACGGTGTCAGCGTG	0.652													12	39	---	---	---	---	PASS	A	140175978	A	A	140175978	3	1	4	1	0	0	0	0	1	0	0	0	11524	1261	44	3	1431	3	PCDHA2	5	140175978	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	8188	140175978	40739282	1179	1770			1	1		12	12	21480	N	T_G_C_A	7.310973e-05
PCDHA3	56145	broad.mit.edu	37	chr5	140180932	140180932	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcgtgggccgcatcgcgcaGgacctggggctggagctggc	18	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140180932G>A	uc003lhf.2	+	1	150	c.150G>A	c.(148-150)CAG>CAA	p.Q50Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.Q50Q	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	50	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCATCGCGCAGGACCTGGGGC	0.647													13	36	---	---	---	---	PASS	A	140180932	A	A	140180932	2	1	4	1	0	0	0	0	0	0	0	1	11525	991	35	3		3	PCDHA3	5	140180932	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4954	140180932	40734328	1180	1771			1	1		12	12	21480	N	T_G_C_A	7.310973e-05
PCDHA3	56145	broad.mit.edu	37	chr5	140181435	140181435	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aataacagcaattgatggtgGgaaaccagagctcactggca	11	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140181435G>A	uc003lhf.2	+	1	653	c.653G>A	c.(652-654)GGG>GAG	p.G218E	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.G218E	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	218	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTGATGGTGGGAAACCAGAG	0.388													18	25	---	---	---	---	PASS	A	140181435	A	A	140181435	3	1	4	1	0	0	0	0	1	0	0	0	11525	1232	43	3	655	3	PCDHA3	5	140181435	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	503	140181435	40733825	1181	1772			1	1		12	12	21480	N	T_G_C_A	7.310973e-05
PCDHA3	56145	broad.mit.edu	37	chr5	140182175	140182175	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgagtacacggtgttcgtgAaggagaacaacccgccgggc	14	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140182175A>C	uc003lhf.2	+	1	1393	c.1393A>C	c.(1393-1395)AAG>CAG	p.K465Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.K465Q	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	465	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGTTCGTGAAGGAGAACAA	0.662													17	43	---	---	---	---	PASS	C	140182175	C	C	140182175	3	2	4	1	0	0	0	0	1	0	0	0	11525	247	9	5	1395	5	PCDHA3	5	140182175	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	740	140182175	40733085	1182	1773			1	1		12	12	21480	N	T_G_C_A	7.310973e-05
PCDHA3	56145	broad.mit.edu	37	chr5	140182444	140182444	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacgtgacgctgcaggtgttCgtgctggacgagaacgacaa	14	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140182444C>T	uc003lhf.2	+	1	1662	c.1662C>T	c.(1660-1662)TTC>TTT	p.F554F	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.F554F	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	554	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCAGGTGTTCGTGCTGGACG	0.687													45	54	---	---	---	---	PASS	T	140182444	T	T	140182444	2	4	4	1	0	0	0	0	0	0	0	1	11525	883	31	2		2	PCDHA3	5	140182444	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	269	140182444	40732816	1183	1774			1	1		12	12	21480	N	T_G_C_A	7.310973e-05
PCDHA3	56145	broad.mit.edu	37	chr5	140182609	140182609	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacaacgcgtggctttcgtaTgagctgcagcctgggaccgg	14	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140182609T>A	uc003lhf.2	+	1	1827	c.1827T>A	c.(1825-1827)TAT>TAA	p.Y609*	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Nonsense_Mutation_p.Y609*	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	609	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCTTTCGTATGAGCTGCAGC	0.677													25	28	---	---	---	---	PASS	A	140182609	A	A	140182609	4	1	4	1	0	0	0	0	0	1	0	0	11525	1471	51	5	1829	5	PCDHA3	5	140182609	Nonsense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	165	140182609	40732651	1184	1775			1	1		12	12	21480	N	T_G_C_A	7.310973e-05
PCDHA4	56144	broad.mit.edu	37	chr5	140187398	140187398	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaagaagctccggagatttTtttagtgctcacagccactg	10	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140187398T>G	uc003lhi.2	+	1	727	c.626T>G	c.(625-627)TTT>TGT	p.F209C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.F209C|PCDHA4_uc011daa.1_Missense_Mutation_p.F209C	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	209	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGGAGATTTTTTTAGTGCTC	0.453													21	32	---	---	---	---	PASS	G	140187398	G	G	140187398	3	3	4	1	0	0	0	0	1	0	0	0	11526	1841	64	5	628	5	PCDHA4	5	140187398	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	4789	140187398	40727862	1185	1776			1	1		12	12	21480	N	T_G_C_A	7.310973e-05
PCDHA4	56144	broad.mit.edu	37	chr5	140188168	140188168	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtacacagtgttcgtgaagGagaacaacccgccgggctgc	13	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140188168G>A	uc003lhi.2	+	1	1497	c.1396G>A	c.(1396-1398)GAG>AAG	p.E466K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.E466K|PCDHA4_uc011daa.1_Missense_Mutation_p.E466K	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	466	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTCGTGAAGGAGAACAACCC	0.642													8	31	---	---	---	---	PASS	A	140188168	A	A	140188168	3	1	4	1	0	0	0	0	1	0	0	0	11526	1175	41	2	1398	2	PCDHA4	5	140188168	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	770	140188168	40727092	1186	1777			1	1		12	12	21480	N	T_G_C_A	7.310973e-05
PCDHA4	56144	broad.mit.edu	37	chr5	140188245	140188245	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggagaacgcgctggtgtcCtactcgctggtagagcggcg	16	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140188245C>T	uc003lhi.2	+	1	1574	c.1473C>T	c.(1471-1473)TCC>TCT	p.S491S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.S491S|PCDHA4_uc011daa.1_Silent_p.S491S	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	491	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCTGGTGTCCTACTCGCTGG	0.657													6	27	---	---	---	---	PASS	T	140188245	T	T	140188245	2	4	4	1	0	0	0	0	0	0	0	1	11526	668	24	3		3	PCDHA4	5	140188245	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	77	140188245	40727015	1187	1778			1	1		12	12	21480	N	T_G_C_A	7.310973e-05
PCDHA4	56144	broad.mit.edu	37	chr5	140188728	140188728	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgcctactggtactggtgaaGgaccacggcgagcccgcgct	14	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140188728G>A	uc003lhi.2	+	1	2057	c.1956G>A	c.(1954-1956)AAG>AAA	p.K652K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.K652K|PCDHA4_uc011daa.1_Silent_p.K652K	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	652	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TACTGGTGAAGGACCACGGCG	0.677													13	55	---	---	---	---	PASS	A	140188728	A	A	140188728	2	1	4	1	0	0	0	0	0	0	0	1	11526	991	35	3		3	PCDHA4	5	140188728	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	483	140188728	40726532	1188	1779			1	1		12	12	21480	N	T_G_C_A	7.310973e-05
PCDHA6	56142	broad.mit.edu	37	chr5	140207721	140207721	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgggaaagcaatgtctgctCctcccgcttctgctcctcgc	9	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140207721C>T	uc003lho.2	+	1	72	c.45C>T	c.(43-45)CTC>CTT	p.L15L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.L15L|PCDHA6_uc011dab.1_Silent_p.L15L	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	15					homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATGTCTGCTCCTCCCGCTTC	0.532													27	57	---	---	---	---	PASS	T	140207721	T	T	140207721	2	4	4	1	0	0	0	0	0	0	0	1	11528	842	30	2		2	PCDHA6	5	140207721	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	18993	140207721	40707539	1189	1780										
PCDHA6	56142	broad.mit.edu	37	chr5	140209114	140209114	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatcttcacggtgtctgcgCgagacgcggacgcgcaggag	15	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140209114C>G	uc003lho.2	+	1	1465	c.1438C>G	c.(1438-1440)CGA>GGA	p.R480G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.R480G|PCDHA6_uc011dab.1_Missense_Mutation_p.R480G	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	480	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGTCTGCGCGAGACGCGGA	0.647													9	34	---	---	---	---	PASS	G	140209114	G	G	140209114	3	3	4	1	0	0	0	0	1	0	0	0	11528	760	27	4	1440	4	PCDHA6	5	140209114	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1393	140209114	40706146	1190	1781										
PCDHA7	56141	broad.mit.edu	37	chr5	140214048	140214048	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctagcagcttgggaggcagGgagaggccagctccactact	14	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140214048G>A	uc003lhq.2	+	1	80	c.80G>A	c.(79-81)GGG>GAG	p.G27E	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.G27E	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	27					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGAGGCAGGGAGAGGCCAG	0.567													6	34	---	---	---	---	PASS	A	140214048	A	A	140214048	3	1	4	1	0	0	0	0	1	0	0	0	11529	1232	43	3	82	3	PCDHA7	5	140214048	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4934	140214048	40701212	1191	1782										
PCDHA7	56141	broad.mit.edu	37	chr5	140214425	140214425	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccgcttgactctcggtttCcactagagggcgcgtccgat	13	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140214425C>T	uc003lhq.2	+	1	457	c.457C>T	c.(457-459)CCA>TCA	p.P153S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.P153S	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	153	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCTCGGTTTCCACTAGAGGG	0.557													20	33	---	---	---	---	PASS	T	140214425	T	T	140214425	3	4	4	1	0	0	0	0	1	0	0	0	11529	855	30	2	459	2	PCDHA7	5	140214425	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	377	140214425	40700835	1192	1783										
PCDHA8	56140	broad.mit.edu	37	chr5	140221176	140221176	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtttgtgaattctcggatCgaccgcgaggagctgtgcgg	15	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140221176C>T	uc003lhs.2	+	1	270	c.270C>T	c.(268-270)ATC>ATT	p.I90I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.I90I	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	90	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTCTCGGATCGACCGCGAGG	0.612													27	95	---	---	---	---	PASS	T	140221176	T	T	140221176	2	4	4	1	0	0	0	0	0	0	0	1	11530	874	31	2		2	PCDHA8	5	140221176	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	6751	140221176	40694084	1193	1784										
PCDHA8	56140	broad.mit.edu	37	chr5	140222611	140222611	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgccggcactgctggagcctCgggtgggtggcactggtggc	19	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140222611C>T	uc003lhs.2	+	1	1705	c.1705C>T	c.(1705-1707)CGG>TGG	p.R569W	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.R569W	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	569	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGGAGCCTCGGGTGGGTGG	0.721													7	41	---	---	---	---	PASS	T	140222611	T	T	140222611	3	4	4	1	0	0	0	0	1	0	0	0	11530	875	31	2	1707	2	PCDHA8	5	140222611	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1435	140222611	40692649	1194	1785										
PCDHA8	56140	broad.mit.edu	37	chr5	140222729	140222729	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggctacaacgcgtggctttCgtatgagctgcagccagctg	14	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140222729C>T	uc003lhs.2	+	1	1823	c.1823C>T	c.(1822-1824)TCG>TTG	p.S608L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.S608L	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	608	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGTGGCTTTCGTATGAGCTG	0.682													34	33	---	---	---	---	PASS	T	140222729	T	T	140222729	3	4	4	1	0	0	0	0	1	0	0	0	11530	893	31	2	1825	2	PCDHA8	5	140222729	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	118	140222729	40692531	1195	1786										
PCDHA9	9752	broad.mit.edu	37	chr5	140229200	140229200	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagttattgccctgattagtGtgatcgacctagacgcagat	10	9	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140229200G>T	uc003lhu.2	+	1	1844	c.1120G>T	c.(1120-1122)GTG>TTG	p.V374L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.V374L	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	374	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGATTAGTGTGATCGACCT	0.507													10	55	---	---	---	---	PASS	T	140229200	T	T	140229200	3	4	4	1	0	0	0	0	1	0	0	0	11531	1377	48	3	1122	3	PCDHA9	5	140229200	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6471	140229200	40686060	1196	1787										
PCDHA9	9752	broad.mit.edu	37	chr5	140229371	140229371	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggttaccgcgcgggacgggGgctcgccttcactgtgggcc	17	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140229371G>A	uc003lhu.2	+	1	2015	c.1291G>A	c.(1291-1293)GGC>AGC	p.G431S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.G431S	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	431	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGGGACGGGGGCTCGCCTTC	0.632													15	56	---	---	---	---	PASS	A	140229371	A	A	140229371	3	1	4	1	0	0	0	0	1	0	0	0	11531	1232	43	3	1293	3	PCDHA9	5	140229371	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	171	140229371	40685889	1197	1788										
PCDHA9	9752	broad.mit.edu	37	chr5	140229634	140229634	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcggagagcggcaaggtgtaCgcgctgcagccgttggacca	17	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140229634C>T	uc003lhu.2	+	1	2278	c.1554C>T	c.(1552-1554)TAC>TAT	p.Y518Y	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Silent_p.Y518Y	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	518	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAAGGTGTACGCGCTGCAGC	0.687													11	52	---	---	---	---	PASS	T	140229634	T	T	140229634	2	4	4	1	0	0	0	0	0	0	0	1	11531	547	19	1		1	PCDHA9	5	140229634	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	263	140229634	40685626	1198	1789										
PCDHA9	9752	broad.mit.edu	37	chr5	140229833	140229833	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgagatggtgctgcggtcgGtgggcgccggcgtagtggtg	22	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140229833G>A	uc003lhu.2	+	1	2477	c.1753G>A	c.(1753-1755)GTG>ATG	p.V585M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.V585M	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	585	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGCGGTCGGTGGGCGCCGG	0.672													14	44	---	---	---	---	PASS	A	140229833	A	A	140229833	3	1	4	1	0	0	0	0	1	0	0	0	11531	1261	44	3	1755	3	PCDHA9	5	140229833	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	199	140229833	40685427	1199	1790										
PCDHA10	56139	broad.mit.edu	37	chr5	140235755	140235755	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctacgaggaggccagacacgGcaccttcgtgggccgcatcg	14	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140235755G>A	uc003lhx.2	+	1	122	c.122G>A	c.(121-123)GGC>GAC	p.G41D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Missense_Mutation_p.G41D|PCDHA10_uc011dad.1_Missense_Mutation_p.G41D	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	41	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCAGACACGGCACCTTCGTG	0.672													14	32	---	---	---	---	PASS	A	140235755	A	A	140235755	3	1	4	1	0	0	0	0	1	0	0	0	11520	1203	42	3	124	3	PCDHA10	5	140235755	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5922	140235755	40679505	1200	1791										
PCDHA10	56139	broad.mit.edu	37	chr5	140237067	140237067	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacatcttcacggtgtctgcGtgggacgcggacgcgcagga	15	12	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140237067G>C	uc003lhx.2	+	1	1434	c.1434G>C	c.(1432-1434)GCG>GCC	p.A478A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Silent_p.A478A|PCDHA10_uc011dad.1_Silent_p.A478A	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	478	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGTGTCTGCGTGGGACGCGG	0.662													22	50	---	---	---	---	PASS	C	140237067	C	C	140237067	2	2	4	1	0	0	0	0	0	0	0	1	11520	1132	40	4		4	PCDHA10	5	140237067	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1312	140237067	40678193	1201	1792										
PCDHA12	56137	broad.mit.edu	37	chr5	140255160	140255160	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcggccagctccactactccGtctacgaggaggccaaacac	10	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140255160G>A	uc003lic.2	+	1	230	c.103G>A	c.(103-105)GTC>ATC	p.V35I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.V35I	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	35	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCACTACTCCGTCTACGAGGA	0.677													10	15	---	---	---	---	PASS	A	140255160	A	A	140255160	3	1	4	1	0	0	0	0	1	0	0	0	11522	1145	40	1	105	1	PCDHA12	5	140255160	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	18093	140255160	40660100	1202	1793										
PCDHA13	56136	broad.mit.edu	37	chr5	140262269	140262269	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attccctgaaagcaagaaacGaataatcattgcagaatcta	6	8	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140262269G>A	uc003lif.2	+	1	416	c.416G>A	c.(415-417)CGA>CAA	p.R139Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.R139Q|PCDHA13_uc003lid.2_Missense_Mutation_p.R139Q	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	139	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCAAGAAACGAATAATCATT	0.498													18	44	---	---	---	---	PASS	A	140262269	A	A	140262269	3	1	4	1	0	0	0	0	1	0	0	0	11523	1058	37	2	418	2	PCDHA13	5	140262269	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	7109	140262269	40652991	1203	1794										
PCDHAC1	56135	broad.mit.edu	37	chr5	140307343	140307343	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgctttcacgtgcaccctaAaagtggggaggtgcaagtag	13	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140307343A>T	uc003lih.2	+	1	1042	c.866A>T	c.(865-867)AAA>ATA	p.K289I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.K289I	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	289	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCACCCTAAAAGTGGGGAG	0.547													17	26	---	---	---	---	PASS	T	140307343	T	T	140307343	3	4	4	1	0	0	0	0	1	0	0	0	11532	14	1	5	868	5	PCDHAC1	5	140307343	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	45074	140307343	40607917	1204	1795										
PCDHAC1	56135	broad.mit.edu	37	chr5	140308116	140308116	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctataaacttgtttgtggtaGataggaatgacaattatccg	9	5	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140308116G>A	uc003lih.2	+	1	1815	c.1639G>A	c.(1639-1641)GAT>AAT	p.D547N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.D547N	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	547	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTTGTGGTAGATAGGAATGA	0.488													37	51	---	---	---	---	PASS	A	140308116	A	A	140308116	3	1	4	1	0	0	0	0	1	0	0	0	11532	942	33	2	1641	2	PCDHAC1	5	140308116	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	773	140308116	40607144	1205	1796										
PCDHAC1	56135	broad.mit.edu	37	chr5	140308458	140308458	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctgttgagcaactctgtcCctcagttacttccagacttt	7	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140308458C>T	uc003lih.2	+	1	2157	c.1981C>T	c.(1981-1983)CCT>TCT	p.P661S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.P661S	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	661	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAACTCTGTCCCTCAGTTACT	0.493													13	39	---	---	---	---	PASS	T	140308458	T	T	140308458	3	4	4	1	0	0	0	0	1	0	0	0	11532	623	22	3	1983	3	PCDHAC1	5	140308458	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	342	140308458	40606802	1206	1797										
PCDHAC2	56134	broad.mit.edu	37	chr5	140346534	140346534	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcgcgctcgtgggcaacgtGgctcgcgcgctggggcttga	19	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140346534G>A	uc003lii.2	+	1	423	c.183G>A	c.(181-183)GTG>GTA	p.V61V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Silent_p.V61V	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	61	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGCAACGTGGCTCGCGCGC	0.617													3	3	---	---	---	---	PASS	A	140346534	A	A	140346534	2	1	4	1	0	0	0	0	0	0	0	1	11533	1335	47	3		3	PCDHAC2	5	140346534	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	38076	140346534	40568726	1207	1798										
PCDHB1	29930	broad.mit.edu	37	chr5	140432413	140432413	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgacaatcctccaatatttcGggaagattcctatatcttga	6	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140432413G>A	uc003lik.1	+	1	1435	c.1358G>A	c.(1357-1359)CGG>CAG	p.R453Q		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	453	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCAATATTTCGGGAAGATTCC	0.438													31	36	---	---	---	---	PASS	A	140432413	A	A	140432413	3	1	4	1	0	0	0	0	1	0	0	0	11534	1116	39	1	1360	1	PCDHB1	5	140432413	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	85879	140432413	40482847	1208	1799										
PCDHB2	56133	broad.mit.edu	37	chr5	140475885	140475885	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccgcacctgcccctcgcctCcctggtctccatcaacgcgg	8	22	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140475885C>T	uc003lil.2	+	1	1649	c.1511C>T	c.(1510-1512)TCC>TTC	p.S504F	PCDHB2_uc003lim.1_Missense_Mutation_p.S165F	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	504	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCCCTCGCCTCCCTGGTCTCC	0.687													23	46	---	---	---	---	PASS	T	140475885	T	T	140475885	3	4	4	1	0	0	0	0	1	0	0	0	11542	855	30	2	1513	2	PCDHB2	5	140475885	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	43472	140475885	40439375	1209	1800										
PCDHB3	56132	broad.mit.edu	37	chr5	140480792	140480792	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tactcactcgcagtcgtaggGacggaaggaagtacccggaa	13	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140480792G>A	uc003lio.2	+	1	559	c.559G>A	c.(559-561)GAC>AAC	p.D187N	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	187	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGTCGTAGGGACGGAAGGAA	0.552													27	50	---	---	---	---	PASS	A	140480792	A	A	140480792	3	1	4	1	0	0	0	0	1	0	0	0	11543	1174	41	2	561	2	PCDHB3	5	140480792	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4907	140480792	40434468	1210	1801										
PCDHB4	56131	broad.mit.edu	37	chr5	140502125	140502125	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcattttcacattctcactcGaaatcatagtgagggcaaga	7	9	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140502125G>A	uc003lip.1	+	1	545	c.545G>A	c.(544-546)CGA>CAA	p.R182Q		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	182	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATTCTCACTCGAAATCATAGT	0.463													9	23	---	---	---	---	PASS	A	140502125	A	A	140502125	3	1	4	1	0	0	0	0	1	0	0	0	11544	1058	37	2	547	2	PCDHB4	5	140502125	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	21333	140502125	40413135	1211	1802										
PCDHB6	56130	broad.mit.edu	37	chr5	140531103	140531103	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caacatcactatcacggtcaCtgatttggggacaccaaggc	9	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140531103C>T	uc003lir.2	+	1	1265	c.1265C>T	c.(1264-1266)ACT>ATT	p.T422I	PCDHB6_uc011dah.1_Missense_Mutation_p.T286I	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	422	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATCACGGTCACTGATTTGGGG	0.527													16	55	---	---	---	---	PASS	T	140531103	T	T	140531103	3	4	4	1	0	0	0	0	1	0	0	0	11546	565	20	3	1267	3	PCDHB6	5	140531103	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	28978	140531103	40384157	1212	1803										
PCDHB6	56130	broad.mit.edu	37	chr5	140531131	140531131	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggacaccaaggctgaaaacCcagcagagcataactgtgca	11	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140531131C>T	uc003lir.2	+	1	1293	c.1293C>T	c.(1291-1293)ACC>ACT	p.T431T	PCDHB6_uc011dah.1_Silent_p.T295T	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	431	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCTGAAAACCCAGCAGAGCA	0.562													33	44	---	---	---	---	PASS	T	140531131	T	T	140531131	2	4	4	1	0	0	0	0	0	0	0	1	11546	610	22	3		3	PCDHB6	5	140531131	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	28	140531131	40384129	1213	1804										
PCDHB7	56129	broad.mit.edu	37	chr5	140553593	140553593	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggacgatgtccccttcatcCtgaagccatctgtcgaaaac	8	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140553593C>T	uc003lit.2	+	1	1351	c.1177C>T	c.(1177-1179)CTG>TTG	p.L393L		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	393	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCCCTTCATCCTGAAGCCATC	0.483													10	49	---	---	---	---	PASS	T	140553593	T	T	140553593	2	4	4	1	0	0	0	0	0	0	0	1	11547	680	24	3		3	PCDHB7	5	140553593	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	22462	140553593	40361667	1214	1805										
PCDHB7	56129	broad.mit.edu	37	chr5	140553821	140553821	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaacaacagccccgccctgCccatcggcagtgtcagcgcc	10	18	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140553821C>T	uc003lit.2	+	1	1579	c.1405C>T	c.(1405-1407)CCC>TCC	p.P469S		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	469	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCCCGCCCTGCCCATCGGCAG	0.632													50	80	---	---	---	---	PASS	T	140553821	T	T	140553821	3	4	4	1	0	0	0	0	1	0	0	0	11547	739	26	3	1407	3	PCDHB7	5	140553821	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	228	140553821	40361439	1215	1806										
PCDHB8	56128	broad.mit.edu	37	chr5	140558451	140558451	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggagtcaacggagagatttCctattcacttttccaagctt	8	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140558451C>T	uc011dai.1	+	1	1022	c.836C>T	c.(835-837)TCC>TTC	p.S279F	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	279	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGAGAGATTTCCTATTCACTT	0.413													22	115	---	---	---	---	PASS	T	140558451	T	T	140558451	3	4	4	1	0	0	0	0	1	0	0	0	11548	855	30	2	838	2	PCDHB8	5	140558451	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4630	140558451	40356809	1216	1807										
PCDHB10	56126	broad.mit.edu	37	chr5	140572150	140572150	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgtcagagagttgtgcttcCcaagacaaaggcaagtcctg	11	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140572150C>T	uc003lix.2	+	1	199	c.25C>T	c.(25-27)CCA>TCA	p.P9S		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	9					calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTTGTGCTTCCCAAGACAAAG	0.473													27	47	---	---	---	---	PASS	T	140572150	T	T	140572150	3	4	4	1	0	0	0	0	1	0	0	0	11535	623	22	3	27	3	PCDHB10	5	140572150	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	13699	140572150	40343110	1217	1808										
PCDHB10	56126	broad.mit.edu	37	chr5	140573133	140573133	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatgtagggttttagtggaAgtattggacaccaatgacaa	12	4	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140573133A>T	uc003lix.2	+	1	1182	c.1008A>T	c.(1006-1008)GAA>GAT	p.E336D		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	336	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTTTAGTGGAAGTATTGGACA	0.408													13	53	---	---	---	---	PASS	T	140573133	T	T	140573133	3	4	4	1	0	0	0	0	1	0	0	0	11535	69	3	5	1010	5	PCDHB10	5	140573133	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	983	140573133	40342127	1218	1809										
PCDHB11	56125	broad.mit.edu	37	chr5	140579777	140579777	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatgctcctagaaatcccaGagaacagtcccgttggtgct	9	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140579777G>T	uc003liy.2	+	1	430	c.430G>T	c.(430-432)GAG>TAG	p.E144*	PCDHB11_uc011daj.1_Intron	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	144	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGAAATCCCAGAGAACAGTCC	0.423													32	123	---	---	---	---	PASS	T	140579777	T	T	140579777	4	4	4	1	0	0	0	0	0	1	0	0	11536	943	33	2	432	2	PCDHB11	5	140579777	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6644	140579777	40335483	1219	1810										
PCDHB12	56124	broad.mit.edu	37	chr5	140588952	140588952	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttcttgcttgaaagtgcaaAggatttagatgtaggaatca	11	4	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140588952A>T	uc003liz.2	+	1	662	c.473A>T	c.(472-474)AAG>ATG	p.K158M	PCDHB12_uc011dak.1_Intron	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	158	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAAAGTGCAAAGGATTTAGAT	0.373													11	46	---	---	---	---	PASS	T	140588952	T	T	140588952	3	4	4	1	0	0	0	0	1	0	0	0	11537	72	3	5	475	5	PCDHB12	5	140588952	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	9175	140588952	40326308	1220	1811										
PCDHB12	56124	broad.mit.edu	37	chr5	140589097	140589097	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggattatgaagagcgcccGgagctcagtttcatcctcac	10	12	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140589097G>A	uc003liz.2	+	1	807	c.618G>A	c.(616-618)CCG>CCA	p.P206P	PCDHB12_uc011dak.1_Intron	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	206	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAGAGCGCCCGGAGCTCAGTT	0.498													8	27	---	---	---	---	PASS	A	140589097	A	A	140589097	2	1	4	1	0	0	0	0	0	0	0	1	11537	1103	39	1		1	PCDHB12	5	140589097	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	145	140589097	40326163	1221	1812										
PCDHGA1	56114	broad.mit.edu	37	chr5	140710553	140710553	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctctgcgctcagagcatgcCgtgtctcgtgagttttaata	11	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140710553C>T	uc003lji.1	+	1	302	c.302C>T	c.(301-303)CCG>CTG	p.P101L	PCDHGA1_uc011dan.1_Missense_Mutation_p.P101L	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	101	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGAGCATGCCGTGTCTCGTG	0.468													29	89	---	---	---	---	PASS	T	140710553	T	T	140710553	3	4	4	1	0	0	0	0	1	0	0	0	11550	652	23	1	304	1	PCDHGA1	5	140710553	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	121456	140710553	40204707	1222	1813										
PCDHGA3	56112	broad.mit.edu	37	chr5	140724155	140724155	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctctggctgtgaatagcgtCtctgagggggccaagtatcc	13	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140724155C>T	uc003ljm.1	+	1	555	c.555C>T	c.(553-555)GTC>GTT	p.V185V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Silent_p.V185V	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	185	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAATAGCGTCTCTGAGGGGG	0.512													42	60	---	---	---	---	PASS	T	140724155	T	T	140724155	2	4	4	1	0	0	0	0	0	0	0	1	11555	900	32	2		2	PCDHGA3	5	140724155	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	13602	140724155	40191105	1223	1814			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGA3	56112	broad.mit.edu	37	chr5	140724881	140724881	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtctgagagcctcagatggGggaagcccgccactgtccac	13	13	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140724881G>A	uc003ljm.1	+	1	1281	c.1281G>A	c.(1279-1281)GGG>GGA	p.G427G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.G187G|PCDHGA3_uc011dap.1_Silent_p.G427G	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	427	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTCAGATGGGGGAAGCCCGC	0.468													29	50	---	---	---	---	PASS	A	140724881	A	A	140724881	2	1	4	1	0	0	0	0	0	0	0	1	11555	1219	43	3		3	PCDHGA3	5	140724881	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	726	140724881	40190379	1224	1815			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGA3	56112	broad.mit.edu	37	chr5	140725985	140725985	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagcctcttctgataactcaGgatttacttgaaatgaaagg	9	7	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140725985G>A	uc003ljm.1	+	1	2385	c.2385G>A	c.(2383-2385)CAG>CAA	p.Q795Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.Q555Q|PCDHGA3_uc011dap.1_Silent_p.Q795Q	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	795	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGATAACTCAGGATTTACTTG	0.418													28	45	---	---	---	---	PASS	A	140725985	A	A	140725985	2	1	4	1	0	0	0	0	0	0	0	1	11555	991	35	3		3	PCDHGA3	5	140725985	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1104	140725985	40189275	1225	1816			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGB1	56104	broad.mit.edu	37	chr5	140731289	140731289	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagagtctcctactctattCtggccagtgacctggagccg	11	13	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140731289C>T	uc003ljo.1	+	1	1462	c.1462C>T	c.(1462-1464)CTG>TTG	p.L488L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Silent_p.L488L	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	488	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTACTCTATTCTGGCCAGTGA	0.637													12	20	---	---	---	---	PASS	T	140731289	T	T	140731289	2	4	4	1	0	0	0	0	0	0	0	1	11562	912	32	2		2	PCDHGB1	5	140731289	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	5304	140731289	40183971	1226	1817			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGA4	56111	broad.mit.edu	37	chr5	140736714	140736714	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtagtggtcgtccaggaccaTggccagccccctctctcggc	12	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140736714T>A	uc003ljq.1	+	1	1947	c.1947T>A	c.(1945-1947)CAT>CAA	p.H649Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGB2_uc003ljs.1_5'Flank|PCDHGA4_uc003ljp.1_Missense_Mutation_p.H649Q|PCDHGB2_uc011dar.1_5'Flank	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	649	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCAGGACCATGGCCAGCCCC	0.642													12	12	---	---	---	---	PASS	A	140736714	A	A	140736714	3	1	4	1	0	0	0	0	1	0	0	0	11556	1461	51	5	1949	5	PCDHGA4	5	140736714	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	5425	140736714	40178546	1227	1818			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGB2	56103	broad.mit.edu	37	chr5	140741210	140741210	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagccgcgggagattttatCctacgtgtccgtgagcgcgc	14	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140741210C>T	uc003ljs.1	+	1	1508	c.1508C>T	c.(1507-1509)TCC>TTC	p.S503F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Missense_Mutation_p.S503F|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	503	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGATTTTATCCTACGTGTCC	0.622													13	26	---	---	---	---	PASS	T	140741210	T	T	140741210	3	4	4	1	0	0	0	0	1	0	0	0	11563	855	30	2	1510	2	PCDHGB2	5	140741210	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4496	140741210	40174050	1228	1819			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGA5	56110	broad.mit.edu	37	chr5	140745898	140745898	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accgttgccgtggccgacagGatccctgacatcctggctga	12	14	0	2	rs34761299		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140745898G>A	uc003lju.1	+	1	2001	c.2001G>A	c.(1999-2001)AGG>AGA	p.R667R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Silent_p.R667R	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	667	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGCCGACAGGATCCCTGACA	0.607													93	140	---	---	---	---	PASS	A	140745898	A	A	140745898	2	1	4	1	0	0	0	0	0	0	0	1	11557	1165	41	2		2	PCDHGA5	5	140745898	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4688	140745898	40169362	1229	1820			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGB3	56102	broad.mit.edu	37	chr5	140750391	140750391	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcactgagctggaaatcagcGaactggctctcactggagcc	11	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140750391G>A	uc003ljw.1	+	1	430	c.430G>A	c.(430-432)GAA>AAA	p.E144K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc011dat.1_Missense_Mutation_p.E144K	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	144	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAAATCAGCGAACTGGCTCT	0.473													31	125	---	---	---	---	PASS	A	140750391	A	A	140750391	3	1	4	1	0	0	0	0	1	0	0	0	11564	1059	37	2	432	2	PCDHGB3	5	140750391	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4493	140750391	40164869	1230	1821			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGB3	56102	broad.mit.edu	37	chr5	140750795	140750795	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcatcaatgccgaaatcatCtatgccttcatcaatattgg	7	10	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140750795C>T	uc003ljw.1	+	1	834	c.834C>T	c.(832-834)ATC>ATT	p.I278I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Silent_p.I278I|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	278	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGAAATCATCTATGCCTTCA	0.468													52	83	---	---	---	---	PASS	T	140750795	T	T	140750795	2	4	4	1	0	0	0	0	0	0	0	1	11564	903	32	2		2	PCDHGB3	5	140750795	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	404	140750795	40164465	1231	1822			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGB3	56102	broad.mit.edu	37	chr5	140751743	140751743	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgaccaaggtggtggcggtGgacgcagactcgggatacaa	17	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140751743G>A	uc003ljw.1	+	1	1782	c.1782G>A	c.(1780-1782)GTG>GTA	p.V594V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Silent_p.V594V|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	594	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTGGCGGTGGACGCAGACT	0.662													8	45	---	---	---	---	PASS	A	140751743	A	A	140751743	2	1	4	1	0	0	0	0	0	0	0	1	11564	1335	47	3		3	PCDHGB3	5	140751743	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	948	140751743	40163517	1232	1823			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGB3	56102	broad.mit.edu	37	chr5	140751831	140751831	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagcctgggcctgcgcacgGgtgaggtgcgcacggcgcgt	18	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140751831G>A	uc003ljw.1	+	1	1870	c.1870G>A	c.(1870-1872)GGT>AGT	p.G624S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.G624S|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	624	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGCGCACGGGTGAGGTGCG	0.687													23	28	---	---	---	---	PASS	A	140751831	A	A	140751831	3	1	4	1	0	0	0	0	1	0	0	0	11564	1232	43	3	1872	3	PCDHGB3	5	140751831	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	88	140751831	40163429	1233	1824			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGA6	56109	broad.mit.edu	37	chr5	140754622	140754622	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgttgaagcccgggatggGccaggtcttcgagacagagc	17	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140754622G>A	uc003ljy.1	+	1	972	c.972G>A	c.(970-972)GGG>GGA	p.G324G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.G324G	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	324	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCGGGATGGGCCAGGTCTTC	0.413													30	92	---	---	---	---	PASS	A	140754622	A	A	140754622	2	1	4	1	0	0	0	0	0	0	0	1	11558	1190	42	3		3	PCDHGA6	5	140754622	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2791	140754622	40160638	1234	1825			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGA6	56109	broad.mit.edu	37	chr5	140754633	140754633	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgggatgggccaggtcttcGagacagagcgaaagtcttaa	14	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140754633G>A	uc003ljy.1	+	1	983	c.983G>A	c.(982-984)CGA>CAA	p.R328Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.R328Q	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	328	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGGTCTTCGAGACAGAGCG	0.423													29	92	---	---	---	---	PASS	A	140754633	A	A	140754633	3	1	4	1	0	0	0	0	1	0	0	0	11558	1058	37	2	985	2	PCDHGA6	5	140754633	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	11	140754633	40160627	1235	1826			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGA6	56109	broad.mit.edu	37	chr5	140755921	140755921	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagacctattcccacgaggtCtcactcactgcagactcgcg	8	16	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140755921C>T	uc003ljy.1	+	1	2271	c.2271C>T	c.(2269-2271)GTC>GTT	p.V757V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.V757V	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	757	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCACGAGGTCTCACTCACTG	0.577													30	50	---	---	---	---	PASS	T	140755921	T	T	140755921	2	4	4	1	0	0	0	0	0	0	0	1	11558	900	32	2		2	PCDHGA6	5	140755921	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1288	140755921	40159339	1236	1827			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGA7	56108	broad.mit.edu	37	chr5	140762560	140762560	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcctgggcaggacgtattCtctactccgtgtcggaggag	14	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140762560C>T	uc003lka.1	+	1	94	c.94C>T	c.(94-96)CTC>TTC	p.L32F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.L32F	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	32	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGACGTATTCTCTACTCCGT	0.657													9	29	---	---	---	---	PASS	T	140762560	T	T	140762560	3	4	4	1	0	0	0	0	1	0	0	0	11559	913	32	2	96	2	PCDHGA7	5	140762560	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6639	140762560	40152700	1237	1828			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGA7	56108	broad.mit.edu	37	chr5	140762865	140762865	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatgacaacgttccaagattCttgacggaagaaataaatgt	8	6	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140762865C>T	uc003lka.1	+	1	399	c.399C>T	c.(397-399)TTC>TTT	p.F133F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Silent_p.F133F	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	133	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCCAAGATTCTTGACGGAAG	0.418													31	30	---	---	---	---	PASS	T	140762865	T	T	140762865	2	4	4	1	0	0	0	0	0	0	0	1	11559	912	32	2		2	PCDHGA7	5	140762865	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	305	140762865	40152395	1238	1829			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGA7	56108	broad.mit.edu	37	chr5	140763547	140763547	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctcaatccctgaagacacaCctcttgggacagtcattgct	8	13	3	2	rs145468093	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140763547C>T	uc003lka.1	+	1	1081	c.1081C>T	c.(1081-1083)CCT>TCT	p.P361S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.P361S	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	361	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAAGACACACCTCTTGGGAC	0.403													11	19	---	---	---	---	PASS	T	140763547	T	T	140763547	3	4	4	1	0	0	0	0	1	0	0	0	11559	507	18	3	1083	3	PCDHGA7	5	140763547	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	682	140763547	40151713	1239	1830			2	2	535427	17	17	39393	N	T_G_C	3.183302e-05
PCDHGA9	56107	broad.mit.edu	37	chr5	140784579	140784579	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctgcagacctggaggcctCagaccttaccctctacctcg	8	18	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140784579C>T	uc003lkh.1	+	1	2060	c.2060C>T	c.(2059-2061)TCA>TTA	p.S687L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.S687L	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	687	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGAGGCCTCAGACCTTACC	0.597													10	52	---	---	---	---	PASS	T	140784579	T	T	140784579	3	4	4	1	0	0	0	0	1	0	0	0	11561	838	29	2	2062	2	PCDHGA9	5	140784579	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	21032	140784579	40130681	1240	1831										
PCDHGA9	56107	broad.mit.edu	37	chr5	140784793	140784793	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctattctcaggagttctcCctcaccgctgactcaaggaa	7	14	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140784793C>T	uc003lkh.1	+	1	2274	c.2274C>T	c.(2272-2274)TCC>TCT	p.S758S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Silent_p.S758S|PCDHGB6_uc003lki.1_5'Flank|PCDHGB6_uc003lkj.1_5'Flank	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	758	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGAGTTCTCCCTCACCGCTG	0.537													30	50	---	---	---	---	PASS	T	140784793	T	T	140784793	2	4	4	1	0	0	0	0	0	0	0	1	11561	610	22	3		3	PCDHGA9	5	140784793	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	214	140784793	40130467	1241	1832										
PCDHGA11	56105	broad.mit.edu	37	chr5	140802420	140802420	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtgacagcggggacccgccCctcagcagcaacgtgtcgct	13	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140802420C>T	uc003lkq.1	+	1	1884	c.1626C>T	c.(1624-1626)CCC>CCT	p.P542P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Silent_p.P542P|PCDHGA11_uc003lkp.1_Silent_p.P542P	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	542	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGACCCGCCCCTCAGCAGCA	0.582													41	76	---	---	---	---	PASS	T	140802420	T	T	140802420	2	4	4	1	0	0	0	0	0	0	0	1	11552	610	22	3		3	PCDHGA11	5	140802420	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	17627	140802420	40112840	1242	1833										
PCDHGA11	56105	broad.mit.edu	37	chr5	140802924	140802924	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcttcctggtctttgtcatCgtgctgctggcactcaggct	10	12	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:140802924C>T	uc003lkq.1	+	1	2388	c.2130C>T	c.(2128-2130)ATC>ATT	p.I710I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Silent_p.I710I|PCDHGA11_uc003lkp.1_Intron|PCDHGB8P_uc011daz.1_5'Flank	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	710	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTTTGTCATCGTGCTGCTGG	0.592													5	36	---	---	---	---	PASS	T	140802924	T	T	140802924	2	4	4	1	0	0	0	0	0	0	0	1	11552	874	31	2		2	PCDHGA11	5	140802924	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	504	140802924	40112336	1243	1834										
ARAP3	64411	broad.mit.edu	37	chr5	141052628	141052628	+	Nonsense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctctggccggtgatgacctGgaacttgttgtccttgctgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:141052628G>A	uc003llm.2	-	7	1123	c.1045C>T	c.(1045-1047)CAG>TAG	p.Q349*	ARAP3_uc011dbe.1_Nonsense_Mutation_p.Q11*|ARAP3_uc003lln.2_Nonsense_Mutation_p.Q271*|ARAP3_uc003llo.1_Nonsense_Mutation_p.Q349*	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	349	PH 1.				cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						GTGATGACCTGGAACTTGTTG	0.597													19	26	---	---	---	---	PASS	A	141052628	A	A	141052628	4	1	4	1	0	0	0	0	0	1	0	0	840	1357	47	3	3697	3	ARAP3	5	141052628	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	249704	141052628	39862632	1244	1835	59	2								
ARAP3	64411	broad.mit.edu	37	chr5	141052630	141052630	+	Missense_Mutation	SNP	A	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctggccggtgatgacctggAacttgttgtccttgctgctg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:141052630A>T	uc003llm.2	-	7	1121	c.1043T>A	c.(1042-1044)TTC>TAC	p.F348Y	ARAP3_uc011dbe.1_Missense_Mutation_p.F10Y|ARAP3_uc003lln.2_Missense_Mutation_p.F270Y|ARAP3_uc003llo.1_Missense_Mutation_p.F348Y	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	348	PH 1.				cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						GATGACCTGGAACTTGTTGTC	0.597													21	26	---	---	---	---	PASS	T	141052630	T	T	141052630	3	4	4	1	0	0	0	0	1	0	0	0	840	246	9	5	3699	5	ARAP3	5	141052630	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2	141052630	39862630	1245	1836	59	2								
PCDH1	5097	broad.mit.edu	37	chr5	141243174	141243174	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgcctttgcttttgtttcCcttggaggccttgccactgg	10	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:141243174C>T	uc003llq.2	-	3	2839	c.2722G>A	c.(2722-2724)GGA>AGA	p.G908R	PCDH1_uc003llp.2_Missense_Mutation_p.G908R|PCDH1_uc011dbf.1_Missense_Mutation_p.G886R	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	908	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		CTTTTGTTTCCCTTGGAGGCC	0.577													25	33	---	---	---	---	PASS	T	141243174	T	T	141243174	3	4	4	1	0	0	0	0	1	0	0	0	11506	632	22	3	1087	3	PCDH1	5	141243174	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	190544	141243174	39672086	1246	1837										
PCDH1	5097	broad.mit.edu	37	chr5	141244804	141244804	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcacgggcactcttggggttGgtgcctcggtccttagcaag	15	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:141244804G>A	uc003llq.2	-	3	1209	c.1092C>T	c.(1090-1092)ACC>ACT	p.T364T	PCDH1_uc003llp.2_Silent_p.T364T|PCDH1_uc011dbf.1_Silent_p.T342T	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	364	Extracellular (Potential).|Cadherin 3.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		TCTTGGGGTTGGTGCCTCGGT	0.582													19	46	---	---	---	---	PASS	A	141244804	A	A	141244804	2	1	4	1	0	0	0	0	0	0	0	1	11506	1335	47	3		3	PCDH1	5	141244804	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1630	141244804	39670456	1247	1838										
PCDH12	51294	broad.mit.edu	37	chr5	141335809	141335809	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggttgcccgctgtcctctgcGatcacctggaactcaaagcc	10	15	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:141335809G>A	uc003llx.2	-	1	2819	c.1608C>T	c.(1606-1608)ATC>ATT	p.I536I		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	536	Extracellular (Potential).|Cadherin 5.				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCCTCTGCGATCACCTGGA	0.542													17	29	---	---	---	---	PASS	A	141335809	A	A	141335809	2	1	4	1	0	0	0	0	0	0	0	1	11510	1048	37	2		2	PCDH12	5	141335809	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	91005	141335809	39579451	1248	1839										
SH3RF2	153769	broad.mit.edu	37	chr5	145383661	145383661	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagccgagtggatgagaactGggcagaaggcaagttaggag	17	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:145383661G>A	uc003lnt.2	+	4	927	c.689G>A	c.(688-690)TGG>TAG	p.W230*	SH3RF2_uc011dbl.1_Nonsense_Mutation_p.W230*	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	230	SH3 2.						ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GATGAGAACTGGGCAGAAGGC	0.423													12	48	---	---	---	---	PASS	A	145383661	A	A	145383661	4	1	4	1	0	0	0	0	0	1	0	0	14259	1357	47	3	699	3	SH3RF2	5	145383661	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4047852	145383661	35531599	1249	1840										
STK32A	202374	broad.mit.edu	37	chr5	146754755	146754755	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctggcaaagaaggagaagGatatgaggaaatgcgattct	14	4	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:146754755G>A	uc010jgn.1	+	11	1286	c.1006G>A	c.(1006-1008)GAT>AAT	p.D336N	STK32A_uc003lom.2_Missense_Mutation_p.D336N|STK32A_uc011dbw.1_Missense_Mutation_p.D336N	NM_001112724	NP_001106195	Q8WU08	ST32A_HUMAN	serine/threonine kinase 32A isoform 1	336							ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAAGGAGAAGGATATGAGGAA	0.448													9	6	---	---	---	---	PASS	A	146754755	A	A	146754755	3	1	4	1	0	0	0	0	1	0	0	0	15296	1174	41	2	1077	2	STK32A	5	146754755	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1371094	146754755	34160505	1250	1841										
JAKMIP2	9832	broad.mit.edu	37	chr5	147040805	147040805	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagcagacttgagcctctgGatctctccatcacgtacctt	8	13	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:147040805G>A	uc003loq.1	-	3	715	c.333C>T	c.(331-333)ATC>ATT	p.I111I	JAKMIP2_uc011dbx.1_Silent_p.I69I|JAKMIP2_uc003lor.1_Silent_p.I111I|uc003lop.1_3'UTR|JAKMIP2_uc010jgo.1_Silent_p.I111I	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	111						Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAGCCTCTGGATCTCTCCAT	0.562													38	87	---	---	---	---	PASS	A	147040805	A	A	147040805	2	1	4	1	0	0	0	0	0	0	0	1	7941	1164	41	2		2	JAKMIP2	5	147040805	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	286050	147040805	33874455	1251	1842										
SPINK5	11005	broad.mit.edu	37	chr5	147480126	147480126	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgcatggcaacacctgctCcatgtgtgaggtcttcttgt	11	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:147480126C>T	uc003lox.2	+	13	1275	c.1202C>T	c.(1201-1203)TCC>TTC	p.S401F	SPINK5_uc010jgs.1_Missense_Mutation_p.S373F|SPINK5_uc010jgr.2_Missense_Mutation_p.S382F|SPINK5_uc003low.2_Missense_Mutation_p.S401F|SPINK5_uc003loy.2_Missense_Mutation_p.S401F	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	401	Kazal-like 6.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACACCTGCTCCATGTGTGAG	0.423													24	50	---	---	---	---	PASS	T	147480126	T	T	147480126	3	4	4	1	0	0	0	0	1	0	0	0	15061	855	30	2	1252	2	SPINK5	5	147480126	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	439321	147480126	33435134	1252	1843										
FBXO38	81545	broad.mit.edu	37	chr5	147795619	147795619	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttcactggatcagatgtttCgtgaaccacccaaggtaaga	9	9	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:147795619C>T	uc003lpf.1	+	11	1513	c.1393C>T	c.(1393-1395)CGT>TGT	p.R465C	FBXO38_uc003lpg.1_Missense_Mutation_p.R465C|FBXO38_uc003lph.2_Missense_Mutation_p.R465C	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	465						cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAGATGTTTCGTGAACCACC	0.348													12	45	---	---	---	---	PASS	T	147795619	T	T	147795619	3	4	4	1	0	0	0	0	1	0	0	0	5746	884	31	2	1431	2	FBXO38	5	147795619	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	315493	147795619	33119641	1253	1844										
ADRB2	154	broad.mit.edu	37	chr5	148207179	148207179	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcatggactccgcagatcttCcaagttctgcttgaaggagc	11	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:148207179C>T	uc003lpr.1	+	1	1024	c.785C>T	c.(784-786)TCC>TTC	p.S262F	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	262	Cytoplasmic.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	CGCAGATCTTCCAAGTTCTGC	0.542													7	45	---	---	---	---	PASS	T	148207179	T	T	148207179	3	4	4	1	0	0	0	0	1	0	0	0	341	855	30	2	787	2	ADRB2	5	148207179	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	411560	148207179	32708081	1254	1845										
PPARGC1B	133522	broad.mit.edu	37	chr5	149216068	149216068	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccaggctggccagaagcgtCccttctcctgttcctttgga	10	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:149216068C>T	uc003lrc.2	+	8	2092	c.2050C>T	c.(2050-2052)CCC>TCC	p.P684S	PPARGC1B_uc003lrb.1_Missense_Mutation_p.P684S|PPARGC1B_uc003lrd.2_Missense_Mutation_p.P645S|PPARGC1B_uc003lrf.2_Missense_Mutation_p.P663S|PPARGC1B_uc003lre.1_Missense_Mutation_p.P663S	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	684					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CCAGAAGCGTCCCTTCTCCTG	0.622													12	23	---	---	---	---	PASS	T	149216068	T	T	149216068	3	4	4	1	0	0	0	0	1	0	0	0	12301	855	30	2	2087	2	PPARGC1B	5	149216068	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1008889	149216068	31699192	1255	1846										
CSF1R	1436	broad.mit.edu	37	chr5	149449569	149449569	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accttgtggaagggctcctgGctcaggacctcagggtatgg	15	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:149449569G>A	uc003lrl.2	-	9	1572	c.1377C>T	c.(1375-1377)AGC>AGT	p.S459S	CSF1R_uc011dcd.1_Silent_p.S311S|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Silent_p.S459S	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	459	Ig-like C2-type 5.|Extracellular (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	AGGGCTCCTGGCTCAGGACCT	0.587													7	33	---	---	---	---	PASS	A	149449569	A	A	149449569	2	1	4	1	0	0	0	0	0	0	0	1	3932	1194	42	3		3	CSF1R	5	149449569	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	233501	149449569	31465691	1256	1847										
ARSI	340075	broad.mit.edu	37	chr5	149676783	149676783	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctccctccccaccatcagatCcgttgggacattagcctggt	8	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:149676783C>T	uc003lrv.2	-	2	2293	c.1704G>A	c.(1702-1704)CGG>CGA	p.R568R		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	568						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACCATCAGATCCGTTGGGACA	0.522													19	34	---	---	---	---	PASS	T	149676783	T	T	149676783	2	4	4	1	0	0	0	0	0	0	0	1	994	842	30	2		2	ARSI	5	149676783	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	227214	149676783	31238477	1257	1848										
ZNF300	91975	broad.mit.edu	37	chr5	150276412	150276412	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctctgcagctgaccatcaCcttgacagacttttaaaatg	6	11	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:150276412C>T	uc003lsy.1	-	6	656	c.389G>A	c.(388-390)GGT>GAT	p.G130D	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	130					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTGACCATCACCTTGACAGAC	0.423													26	33	---	---	---	---	PASS	T	150276412	T	T	150276412	3	4	4	1	0	0	0	0	1	0	0	0	17828	507	18	3	1429	3	ZNF300	5	150276412	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	599629	150276412	30638848	1258	1849										
ZNF300	91975	broad.mit.edu	37	chr5	150278106	150278106	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacagccacatccttgaatGatactaacccctgtaatagt	5	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:150278106G>A	uc003lsy.1	-	4	293	c.26C>T	c.(25-27)TCA>TTA	p.S9L	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	9	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATCCTTGAATGATACTAACCC	0.433													22	58	---	---	---	---	PASS	A	150278106	A	A	150278106	3	1	4	1	0	0	0	0	1	0	0	0	17828	1294	45	2	1800	2	ZNF300	5	150278106	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1694	150278106	30637154	1259	1850										
SLC36A1	206358	broad.mit.edu	37	chr5	150856202	150856202	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcggaagttcccactcatcCtgtacctgggcatggtcatc	9	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:150856202C>T	uc003luc.2	+	9	1091	c.874C>T	c.(874-876)CTG>TTG	p.L292L	GM2A_uc011dcs.1_Intron|SLC36A1_uc003lub.1_Silent_p.L292L|SLC36A1_uc010jhw.1_Silent_p.L292L	NM_078483	NP_510968	Q7Z2H8	S36A1_HUMAN	solute carrier family 36 member 1	292	Helical; Name=7; (Potential).				cellular nitrogen compound metabolic process|ion transport	endoplasmic reticulum|integral to membrane|lysosomal membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			skin(1)	1		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)|all_neural(839;0.138)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Glycine(DB00145)|L-Alanine(DB00160)	CCCACTCATCCTGTACCTGGG	0.483													11	33	---	---	---	---	PASS	T	150856202	T	T	150856202	2	4	4	1	0	0	0	0	0	0	0	1	14593	680	24	3		3	SLC36A1	5	150856202	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	578096	150856202	30059058	1260	1851										
FAT2	2196	broad.mit.edu	37	chr5	150929025	150929025	+	Nonsense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctccacatgaatggtcacCcacacgaagttcctcttgat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:150929025C>T	uc003lue.3	-	8	4633	c.4620G>A	c.(4618-4620)TGG>TGA	p.W1540*	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1540	Extracellular (Potential).|Cadherin 13.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAATGGTCACCCACACGAAGT	0.542													6	15	---	---	---	---	PASS	T	150929025	T	T	150929025	4	4	4	1	0	0	0	0	0	1	0	0	5690	624	22	3	8493	3	FAT2	5	150929025	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	72823	150929025	29986235	1261	1852	60	2								
FAT2	2196	broad.mit.edu	37	chr5	150929026	150929026	+	Nonsense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctccacatgaatggtcaccCacacgaagttcctcttgata							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:150929026C>T	uc003lue.3	-	8	4632	c.4619G>A	c.(4618-4620)TGG>TAG	p.W1540*	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1540	Extracellular (Potential).|Cadherin 13.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AATGGTCACCCACACGAAGTT	0.537													6	15	---	---	---	---	PASS	T	150929026	T	T	150929026	4	4	4	1	0	0	0	0	0	1	0	0	5690	595	21	3	8494	3	FAT2	5	150929026	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	150929026	29986234	1262	1853	60	2								
FAT2	2196	broad.mit.edu	37	chr5	150945550	150945550	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccagctctctctccagaatGagcgcccctgtcatcaggtc	8	16	4	2	rs138599681		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:150945550G>A	uc003lue.3	-	1	2956	c.2943C>T	c.(2941-2943)CTC>CTT	p.L981L	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Silent_p.L981L	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	981	Extracellular (Potential).|Cadherin 8.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCTCCAGAATGAGCGCCCCTG	0.617													7	16	---	---	---	---	PASS	A	150945550	A	A	150945550	2	1	4	1	0	0	0	0	0	0	0	1	5690	1277	45	2		2	FAT2	5	150945550	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	16524	150945550	29969710	1263	1854										
FAT2	2196	broad.mit.edu	37	chr5	150946443	150946443	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaagcccaataaagtggaGgatagtctttgtgaattgtg	12	5	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:150946443G>A	uc003lue.3	-	1	2063	c.2050C>T	c.(2050-2052)CTC>TTC	p.L684F	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.L684F	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	684	Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATAAAGTGGAGGATAGTCTTT	0.403													20	29	---	---	---	---	PASS	A	150946443	A	A	150946443	3	1	4	1	0	0	0	0	1	0	0	0	5690	1000	35	3	11091	3	FAT2	5	150946443	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	893	150946443	29968817	1264	1855										
FAT2	2196	broad.mit.edu	37	chr5	150947368	150947368	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accacgcggctgccaggaggGgaaaactcactaagctgcac	12	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:150947368G>A	uc003lue.3	-	1	1138	c.1125C>T	c.(1123-1125)TCC>TCT	p.S375S	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Silent_p.S375S	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	375	Extracellular (Potential).|Cadherin 3.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGCCAGGAGGGGAAAACTCAC	0.478													32	22	---	---	---	---	PASS	A	150947368	A	A	150947368	2	1	4	1	0	0	0	0	0	0	0	1	5690	1219	43	3		3	FAT2	5	150947368	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	925	150947368	29967892	1265	1856										
GALNT10	55568	broad.mit.edu	37	chr5	153796373	153796373	+	Splice_Site	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattacctccatgttttgtaGgacaagaccctgtaccaccc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:153796373G>A	uc003lvh.2	+	12	1786	c.1654_splice	c.e12-1	p.D552_splice	GALNT10_uc010jic.2_Splice_Site|GALNT10_uc010jid.2_Splice_Site_p.D393_splice|uc003lvi.2_Intron|GALNT10_uc003lvj.2_Splice_Site_p.D223_splice	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a							Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			ATGTTTTGTAGGACAAGACCC	0.493													13	24	---	---	---	---	PASS	A	153796373	A	A	153796373	5	1	4	1	0	0	0	0	0	0	1	0	6208	1014	35	3	1699	3	GALNT10	5	153796373	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	2849005	153796373	27118887	1266	1857	61	2								
GALNT10	55568	broad.mit.edu	37	chr5	153796374	153796374	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attacctccatgttttgtagGacaagaccctgtaccaccct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:153796374G>A	uc003lvh.2	+	12	1786	c.1654G>A	c.(1654-1656)GAC>AAC	p.D552N	GALNT10_uc010jic.2_RNA|GALNT10_uc010jid.2_Missense_Mutation_p.D393N|uc003lvi.2_Intron|GALNT10_uc003lvj.2_Missense_Mutation_p.D223N	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	552	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			TGTTTTGTAGGACAAGACCCT	0.493													13	23	---	---	---	---	PASS	A	153796374	A	A	153796374	3	1	4	1	0	0	0	0	1	0	0	0	6208	1188	41	2	1700	2	GALNT10	5	153796374	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	153796374	27118886	1267	1858	61	2								
SAP30L	79685	broad.mit.edu	37	chr5	153830692	153830692	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattttcacaaaaatttcatCcagagtgtccgaaataaaag	6	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:153830692C>T	uc003lvk.2	+	2	891	c.243C>T	c.(241-243)ATC>ATT	p.I81I	SAP30L_uc003lvm.3_RNA|SAP30L_uc011ddc.1_Intron|SAP30L_uc011ddd.1_Intron|SAP30L_uc003lvl.2_RNA	NM_024632	NP_078908	Q9HAJ7	SP30L_HUMAN	SAP30-like isoform 1	81					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|metal ion binding				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			AAAATTTCATCCAGAGTGTCC	0.428													18	17	---	---	---	---	PASS	T	153830692	T	T	153830692	2	4	4	1	0	0	0	0	0	0	0	1	13835	845	30	2		2	SAP30L	5	153830692	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	34318	153830692	27084568	1268	1859										
GEMIN5	25929	broad.mit.edu	37	chr5	154287306	154287306	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttacaggagttctcaaggtgGgctttttcttctttttgggc	11	7	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:154287306G>A	uc003lvx.3	-	16	2323	c.2240C>T	c.(2239-2241)CCC>CTC	p.P747L	GEMIN5_uc011ddk.1_Missense_Mutation_p.P746L	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	747					ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TCTCAAGGTGGGCTTTTTCTT	0.408													26	88	---	---	---	---	PASS	A	154287306	A	A	154287306	3	1	4	1	0	0	0	0	1	0	0	0	6331	1232	43	3	2338	3	GEMIN5	5	154287306	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	456614	154287306	26627954	1269	1860										
KIF4B	285643	broad.mit.edu	37	chr5	154394592	154394592	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctacaatccctgatggagaaGaatcagtccctggtagagga	11	9	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:154394592G>A	uc010jih.1	+	1	1333	c.1173G>A	c.(1171-1173)AAG>AAA	p.K391K		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	391	Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TGATGGAGAAGAATCAGTCCC	0.463													20	82	---	---	---	---	PASS	A	154394592	A	A	154394592	2	1	4	1	0	0	0	0	0	0	0	1	8304	933	33	2		2	KIF4B	5	154394592	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	107286	154394592	26520668	1270	1861										
SGCD	6444	broad.mit.edu	37	chr5	155935705	155935705	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctacgccaaagaaatccagtCccgaccagtaagtttctgct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:155935705C>T	uc003lwd.3	+	3	760	c.284C>T	c.(283-285)TCC>TTC	p.S95F	SGCD_uc003lwa.1_Missense_Mutation_p.S96F|SGCD_uc003lwb.2_Missense_Mutation_p.S96F|SGCD_uc003lwc.3_Missense_Mutation_p.S96F	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	95	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GAAATCCAGTCCCGACCAGTA	0.423													5	40	---	---	---	---	PASS	T	155935705	T	T	155935705	3	4	4	1	0	0	0	0	1	0	0	0	14201	855	30	2	297	2	SGCD	5	155935705	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1541113	155935705	24979555	1271	1862	62	2								
SGCD	6444	broad.mit.edu	37	chr5	155935706	155935706	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacgccaaagaaatccagtcCcgaccagtaagtttctgctg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:155935706C>T	uc003lwd.3	+	3	761	c.285C>T	c.(283-285)TCC>TCT	p.S95S	SGCD_uc003lwa.1_Silent_p.S96S|SGCD_uc003lwb.2_Silent_p.S96S|SGCD_uc003lwc.3_Silent_p.S96S	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	95	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AAATCCAGTCCCGACCAGTAA	0.428													5	40	---	---	---	---	PASS	T	155935706	T	T	155935706	2	4	4	1	0	0	0	0	0	0	0	1	14201	610	22	3		3	SGCD	5	155935706	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	155935706	24979554	1272	1863	62	2								
SGCD	6444	broad.mit.edu	37	chr5	156186335	156186335	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctgcgtctgcgccaatggGagattattcctgtctcaggc	11	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:156186335G>A	uc003lwd.3	+	8	1280	c.804G>A	c.(802-804)GGG>GGA	p.G268G	SGCD_uc003lwc.3_Silent_p.G269G	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	268	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GCGCCAATGGGAGATTATTCC	0.502													12	67	---	---	---	---	PASS	A	156186335	A	A	156186335	2	1	4	1	0	0	0	0	0	0	0	1	14201	1161	41	2		2	SGCD	5	156186335	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	250629	156186335	24728925	1273	1864										
SOX30	11063	broad.mit.edu	37	chr5	157065364	157065364	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agacatgtgggtgtggaatgGgagaagcctgggggattgga	20	3	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:157065364G>A	uc003lxb.1	-	4	2096	c.1754C>T	c.(1753-1755)CCC>CTC	p.P585L	SOX30_uc003lxc.1_Intron|SOX30_uc011dds.1_Missense_Mutation_p.P280L	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	585	Pro-rich.				regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GTGTGGAATGGGAGAAGCCTG	0.547													4	30	---	---	---	---	PASS	A	157065364	A	A	157065364	3	1	4	1	0	0	0	0	1	0	0	0	14952	1232	43	3	515	3	SOX30	5	157065364	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	879029	157065364	23849896	1274	1865										
EBF1	1879	broad.mit.edu	37	chr5	158140059	158140059	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacgcccatcatccctgcgtGgaccgaggtgttagcaaggg	13	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:158140059G>A	uc010jip.2	-	13	1590	c.1288C>T	c.(1288-1290)CAC>TAC	p.H430Y	EBF1_uc011ddw.1_Missense_Mutation_p.H298Y|EBF1_uc011ddx.1_Missense_Mutation_p.H431Y|EBF1_uc003lxl.3_Missense_Mutation_p.H399Y	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	430					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATCCCTGCGTGGACCGAGGTG	0.557			T	HMGA2	lipoma								14	18	---	---	---	---	PASS	A	158140059	A	A	158140059	3	1	4	1	0	0	0	0	1	0	0	0	4880	1348	47	3	503	3	EBF1	5	158140059	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1074695	158140059	22775201	1275	1866										
EBF1	1879	broad.mit.edu	37	chr5	158223416	158223416	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaaagaaattgtcccctatGatgatcacagtcgcacctcc	6	13	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:158223416G>A	uc010jip.2	-	9	1148	c.846C>T	c.(844-846)ATC>ATT	p.I282I	EBF1_uc011ddw.1_Silent_p.I150I|EBF1_uc011ddx.1_Silent_p.I283I|EBF1_uc003lxl.3_Silent_p.I251I	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	282	IPT/TIG.				multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGTCCCCTATGATGATCACAG	0.458			T	HMGA2	lipoma								12	30	---	---	---	---	PASS	A	158223416	A	A	158223416	2	1	4	1	0	0	0	0	0	0	0	1	4880	1280	45	2		2	EBF1	5	158223416	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	83357	158223416	22691844	1276	1867										
ADRA1B	147	broad.mit.edu	37	chr5	159344505	159344505	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgacaaggagtgcggggtcaCcgaagaacccttctatgccc	12	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:159344505C>T	uc003lxt.1	+	1	766	c.593C>T	c.(592-594)ACC>ATC	p.T198I		NM_000679	NP_000670	P35368	ADA1B_HUMAN	alpha-1B-adrenergic receptor	198	Extracellular (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)	TGCGGGGTCACCGAAGAACCC	0.577													18	40	---	---	---	---	PASS	T	159344505	T	T	159344505	3	4	4	1	0	0	0	0	1	0	0	0	335	507	18	3	595	3	ADRA1B	5	159344505	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1121089	159344505	21570755	1277	1868										
C1QTNF2	114898	broad.mit.edu	37	chr5	159776683	159776683	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggtgtgccatgcttcccgGgggtaccgttgacccccttg	13	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:159776683G>A	uc003lyd.2	-	3	489	c.485C>T	c.(484-486)CCC>CTC	p.P162L		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	117	Collagen-like.					collagen				skin(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATGCTTCCCGGGGGTACCGTT	0.687													20	38	---	---	---	---	PASS	A	159776683	A	A	159776683	3	1	4	1	0	0	0	0	1	0	0	0	1963	1232	43	3	511	3	C1QTNF2	5	159776683	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	432178	159776683	21138577	1278	1869										
ATP10B	23120	broad.mit.edu	37	chr5	159992576	159992576	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtcccagcaggtgctcccCggatgagagttgagctgagg	16	10	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:159992576C>A	uc003lym.1	-	26	5117	c.4270G>T	c.(4270-4272)GGG>TGG	p.G1424W	ATP10B_uc010jit.1_Missense_Mutation_p.G674W	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	1424	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGGTGCTCCCCGGATGAGAGT	0.557													4	79	---	---	---	---	PASS	A	159992576	A	A	159992576	3	1	4	1	0	0	0	0	1	0	0	0	1117	652	23	1	119	1	ATP10B	5	159992576	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	215893	159992576	20922684	1279	1870										
ATP10B	23120	broad.mit.edu	37	chr5	160047825	160047825	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacgttggcccctaagctctCcccgaggtctgtgtcagagg	12	14	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:160047825C>T	uc003lym.1	-	15	2792	c.1945G>A	c.(1945-1947)GAG>AAG	p.E649K	ATP10B_uc010jit.1_5'UTR|ATP10B_uc003lyn.2_Missense_Mutation_p.E207K	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	649	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCTAAGCTCTCCCCGAGGTCT	0.557													14	79	---	---	---	---	PASS	T	160047825	T	T	160047825	3	4	4	1	0	0	0	0	1	0	0	0	1117	864	30	2	2488	2	ATP10B	5	160047825	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	55249	160047825	20867435	1280	1871										
ATP10B	23120	broad.mit.edu	37	chr5	160114830	160114830	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaaattgctcaaagagattCcggggcaggaaggtgaagag	15	5	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:160114830C>T	uc003lym.1	-	5	1099	c.252G>A	c.(250-252)CGG>CGA	p.R84R	ATP10B_uc003lyp.2_Silent_p.R84R|ATP10B_uc011deg.1_Silent_p.R128R|ATP10B_uc003lyo.2_5'Flank	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	84	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAAAGAGATTCCGGGGCAGGA	0.353													23	42	---	---	---	---	PASS	T	160114830	T	T	160114830	2	4	4	1	0	0	0	0	0	0	0	1	1117	842	30	2		2	ATP10B	5	160114830	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	67005	160114830	20800430	1281	1872										
GABRB2	2561	broad.mit.edu	37	chr5	160972295	160972295	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttcatccccacagccacggGgggacctgcaaagcaagacg	12	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:160972295G>A	uc003lys.1	-	4	393	c.175C>T	c.(175-177)CCC>TCC	p.P59S	GABRB2_uc011deh.1_5'UTR|GABRB2_uc003lyr.1_Missense_Mutation_p.P59S|GABRB2_uc003lyt.1_Missense_Mutation_p.P59S|GABRB2_uc010jiu.1_5'UTR|GABRB2_uc011dei.1_Missense_Mutation_p.P59S	NM_021911	NP_068711	P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	59	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|GABA-A receptor activity				0	Renal(175;0.00259)	Medulloblastoma(196;0.021)|all_neural(177;0.0463)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	ACAGCCACGGGGGGACCTGCA	0.453													9	9	---	---	---	---	PASS	A	160972295	A	A	160972295	3	1	4	1	0	0	0	0	1	0	0	0	6167	1232	43	3	1395	3	GABRB2	5	160972295	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	857465	160972295	19942965	1282	1873										
WWC1	23286	broad.mit.edu	37	chr5	167882400	167882400	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggagaccccggccccatccCccacagtggtgcgacctaag	11	18	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:167882400C>A	uc003lzu.2	+	19	2791	c.2698C>A	c.(2698-2700)CCC>ACC	p.P900T	WWC1_uc003lzv.2_Missense_Mutation_p.P900T|WWC1_uc011den.1_Missense_Mutation_p.P900T|WWC1_uc003lzw.2_Missense_Mutation_p.P699T|WWC1_uc010jjf.1_Missense_Mutation_p.P172T	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	900	Interaction with histone H3.				cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		GGCCCCATCCCCCACAGTGGT	0.612													5	69	---	---	---	---	PASS	A	167882400	A	A	167882400	3	1	4	1	0	0	0	0	1	0	0	0	17408	623	22	3	2772	3	WWC1	5	167882400	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6910105	167882400	13032860	1283	1874										
DOCK2	1794	broad.mit.edu	37	chr5	169188553	169188553	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatgagttctacacctgcatCcctcctgtgaaactccagaa	6	13	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:169188553C>T	uc003maf.2	+	25	2558	c.2478C>T	c.(2476-2478)ATC>ATT	p.I826I	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.I318I	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	826					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACACCTGCATCCCTCCTGTGA	0.488													29	97	---	---	---	---	PASS	T	169188553	T	T	169188553	2	4	4	1	0	0	0	0	0	0	0	1	4687	845	30	2		2	DOCK2	5	169188553	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1306153	169188553	11726707	1284	1875										
FOXI1	2299	broad.mit.edu	37	chr5	169535120	169535120	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacaatggaaatttccgcagGaaaaggaagagaaaatcaga	11	5	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:169535120G>A	uc003mai.3	+	2	687	c.642G>A	c.(640-642)AGG>AGA	p.R214R	FOXI1_uc003maj.3_Intron	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	214	Fork-head.				epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATTTCCGCAGGAAAAGGAAGA	0.493									Pendred_syndrome				32	25	---	---	---	---	PASS	A	169535120	A	A	169535120	2	1	4	1	0	0	0	0	0	0	0	1	6009	1165	41	2		2	FOXI1	5	169535120	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	346567	169535120	11380140	1285	1876										
KCNMB1	3779	broad.mit.edu	37	chr5	169805862	169805862	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ataggacgctggtttcgttcCcccgaggtgcggagaagcag	15	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:169805862C>T	uc003maq.1	-	4	822	c.422G>A	c.(421-423)GGG>GAG	p.G141E	KCNIP1_uc003map.2_Intron	NM_004137	NP_004128	Q16558	KCMB1_HUMAN	potassium large conductance calcium-activated	141	Extracellular (Potential).				platelet activation|synaptic transmission		calcium-activated potassium channel activity|potassium channel regulator activity			ovary(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0165)|all_lung(126;0.026)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.175)		GGTTTCGTTCCCCCGAGGTGC	0.622													5	22	---	---	---	---	PASS	T	169805862	T	T	169805862	3	4	4	1	0	0	0	0	1	0	0	0	8074	623	22	3	157	3	KCNMB1	5	169805862	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	270742	169805862	11109398	1286	1877										
RANBP17	64901	broad.mit.edu	37	chr5	170323062	170323062	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttctccaaagggtactgtGgaacactgcataataggagt	10	7	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:170323062G>A	uc003mba.2	+	5	448	c.432G>A	c.(430-432)GTG>GTA	p.V144V	RANBP17_uc003max.1_RNA|RANBP17_uc003may.1_RNA|RANBP17_uc003maz.1_RNA|RANBP17_uc010jjr.1_Intron|RANBP17_uc003maw.2_Silent_p.V144V|RANBP17_uc011dew.1_Silent_p.V144V	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	144					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)			AGGGTACTGTGGAACACTGCA	0.373			T	TRD@	ALL								8	24	---	---	---	---	PASS	A	170323062	A	A	170323062	2	1	4	1	0	0	0	0	0	0	0	1	13027	1335	47	3		3	RANBP17	5	170323062	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	517200	170323062	10592198	1287	1878										
RANBP17	64901	broad.mit.edu	37	chr5	170692728	170692728	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtaccagtttagactacatCgtcacctacctcttcaagca	5	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:170692728C>T	uc003mba.2	+	25	2836	c.2820C>T	c.(2818-2820)ATC>ATT	p.I940I	RANBP17_uc003mbb.2_Silent_p.I265I|RANBP17_uc010jjs.2_RNA	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	940					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)			TAGACTACATCGTCACCTACC	0.418			T	TRD@	ALL								28	61	---	---	---	---	PASS	T	170692728	T	T	170692728	2	4	4	1	0	0	0	0	0	0	0	1	13027	874	31	2		2	RANBP17	5	170692728	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	369666	170692728	10222532	1288	1879										
SH3PXD2B	285590	broad.mit.edu	37	chr5	171766402	171766402	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgctgtcccgggctggaggGatgtgtttggctggcatcat	16	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:171766402G>A	uc003mbr.2	-	13	1878	c.1707C>T	c.(1705-1707)ATC>ATT	p.I569I		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	569					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GGGCTGGAGGGATGTGTTTGG	0.627													14	27	---	---	---	---	PASS	A	171766402	A	A	171766402	2	1	4	1	0	0	0	0	0	0	0	1	14257	1164	41	2		2	SH3PXD2B	5	171766402	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1073674	171766402	9148858	1289	1880										
BNIP1	662	broad.mit.edu	37	chr5	172571570	172571570	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggcggctccccaagacgtcCacgtccggatctgtaaccaa	10	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:172571570C>T	uc003mcj.3	+	1	126	c.22C>T	c.(22-24)CAC>TAC	p.H8Y	BNIP1_uc003mci.3_Missense_Mutation_p.H8Y|BNIP1_uc003mck.3_Missense_Mutation_p.H8Y|BNIP1_uc003mcl.3_Missense_Mutation_p.H8Y	NM_001205	NP_001196	Q12981	SEC20_HUMAN	BCL2/adenovirus E1B 19kD interacting protein 1	8	Cytoplasmic (Potential).				anti-apoptosis|apoptosis|endoplasmic reticulum membrane fusion|endoplasmic reticulum organization|induction of apoptosis|vesicle-mediated transport	integral to endoplasmic reticulum membrane|nuclear envelope|SNARE complex	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CCAAGACGTCCACGTCCGGAT	0.612											OREG0017054	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	11	---	---	---	---	PASS	T	172571570	T	T	172571570	3	4	4	1	0	0	0	0	1	0	0	0	1476	594	21	3	24	3	BNIP1	5	172571570	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	805168	172571570	8343690	1290	1881										
CPLX2	10814	broad.mit.edu	37	chr5	175306946	175306946	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acccggcccaagaaggccatCcctgcgggctgcggggacga	15	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:175306946C>T	uc003mde.1	+	5	649	c.303C>T	c.(301-303)ATC>ATT	p.I101I	CPLX2_uc003mdf.1_Silent_p.I101I	NM_006650	NP_006641	Q6PUV4	CPLX2_HUMAN	complexin 2	101					mast cell degranulation|positive regulation of synaptic plasticity|vesicle docking involved in exocytosis	cytosol				ovary(1)	1	all_cancers(89;0.004)|Renal(175;0.000269)|Lung NSC(126;0.00441)|all_lung(126;0.00747)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			AGAAGGCCATCCCTGCGGGCT	0.627													4	7	---	---	---	---	PASS	T	175306946	T	T	175306946	2	4	4	1	0	0	0	0	0	0	0	1	3805	845	30	2		2	CPLX2	5	175306946	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2735376	175306946	5608314	1291	1882										
CDHR2	54825	broad.mit.edu	37	chr5	176016139	176016139	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctttccagggtgtcttctcGatcttcacctcctccgaggc	8	16	4	0	rs35355598	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:176016139G>A	uc003mem.1	+	22	3030	c.2964G>A	c.(2962-2964)TCG>TCA	p.S988S	CDHR2_uc003men.1_Silent_p.S988S	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	988	Extracellular (Potential).|Cadherin 9.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GTGTCTTCTCGATCTTCACCT	0.597													23	141	---	---	---	---	PASS	A	176016139	A	A	176016139	2	1	4	1	0	0	0	0	0	0	0	1	3119	1045	37	2		2	CDHR2	5	176016139	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	709193	176016139	4899121	1292	1883										
SNCB	6620	broad.mit.edu	37	chr5	176047818	176047818	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctctcctgggcccctacgcCtctggctcatactcctgata	8	17	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:176047818C>T	uc003mep.2	-	7	842	c.399G>A	c.(397-399)GAG>GAA	p.E133E	SNCB_uc003meq.2_Silent_p.E133E	NM_001001502	NP_001001502	Q16143	SYUB_HUMAN	beta-synuclein	133							calcium ion binding|phospholipase inhibitor activity			ovary(1)	1	all_cancers(89;0.00222)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCCCCTACGCCTCTGGCTCAT	0.607													11	21	---	---	---	---	PASS	T	176047818	T	T	176047818	2	4	4	1	0	0	0	0	0	0	0	1	14842	680	24	3		3	SNCB	5	176047818	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	31679	176047818	4867442	1293	1884										
SNCB	6620	broad.mit.edu	37	chr5	176048305	176048305	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctgggccacttcctctggCtgtgggcagaaaaggtcagg	14	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:176048305C>T	uc003mep.2	-	6	726	c.283_splice	c.e6-1	p.P95_splice	SNCB_uc003meq.2_Splice_Site_p.P95_splice|SNCB_uc010jke.1_Intron	NM_001001502	NP_001001502	Q16143	SYUB_HUMAN	beta-synuclein								calcium ion binding|phospholipase inhibitor activity			ovary(1)	1	all_cancers(89;0.00222)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTTCCTCTGGCTGTGGGCAGA	0.597													3	6	---	---	---	---	PASS	T	176048305	T	T	176048305	5	4	4	1	0	0	0	0	0	0	1	0	14842	811	28	3	130	3	SNCB	5	176048305	Splice_Site	SNP	C	TCGA-18-3409-01A-01D-0983-08	487	176048305	4866955	1294	1885										
HK3	3101	broad.mit.edu	37	chr5	176316539	176316539	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgccacatgccgtgcctcctCcatgtaacacgcgttggtgc	10	15	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:176316539C>T	uc003mfa.2	-	8	849	c.757G>A	c.(757-759)GAG>AAG	p.E253K	HK3_uc003mez.2_5'UTR	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	253	Regulatory.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CGTGCCTCCTCCATGTAACAC	0.632													15	13	---	---	---	---	PASS	T	176316539	T	T	176316539	3	4	4	1	0	0	0	0	1	0	0	0	7192	864	30	2	2062	2	HK3	5	176316539	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	268234	176316539	4598721	1295	1886										
NSD1	64324	broad.mit.edu	37	chr5	176638381	176638381	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctggcgagttgtctgcttCcctacctggcttactgtccg	10	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:176638381C>T	uc003mfr.3	+	5	3119	c.2981C>T	c.(2980-2982)TCC>TTC	p.S994F	NSD1_uc003mft.3_Missense_Mutation_p.S725F|NSD1_uc003mfs.1_Missense_Mutation_p.S891F|NSD1_uc011dfx.1_Missense_Mutation_p.S642F	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	994					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		TTGTCTGCTTCCCTACCTGGC	0.512			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			20	62	---	---	---	---	PASS	T	176638381	T	T	176638381	3	4	4	1	0	0	0	0	1	0	0	0	10669	855	30	2	2995	2	NSD1	5	176638381	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	321842	176638381	4276879	1296	1887										
SLC34A1	6569	broad.mit.edu	37	chr5	176824994	176824994	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggctggcaggtcatggtaGgtgtgggcacgcccttcggg	18	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:176824994G>A	uc003mgk.3	+	13	1728	c.1627G>A	c.(1627-1629)GGT>AGT	p.G543S		NM_003052	NP_003043	Q06495	NPT2A_HUMAN	solute carrier family 34 (sodium phosphate),	543	Helical; Name=M8; (Potential).				phosphate ion homeostasis|response to cadmium ion|response to lead ion|response to mercury ion|sodium ion transport	brush border membrane|integral to plasma membrane	protein binding|sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(1)	1	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGTCATGGTAGGTGTGGGCAC	0.607													7	28	---	---	---	---	PASS	A	176824994	A	A	176824994	3	1	4	1	0	0	0	0	1	0	0	0	14567	1000	35	3	1764	3	SLC34A1	5	176824994	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	186613	176824994	4090266	1297	1888										
COL23A1	91522	broad.mit.edu	37	chr5	177666180	177666180	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacaggcagcccgtcggggcCctggaaaggaagaaggtttc	15	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:177666180C>T	uc003mje.2	-	28	1940	c.1582G>A	c.(1582-1584)GGC>AGC	p.G528S	COL23A1_uc010jkt.2_Missense_Mutation_p.G410S	NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	528	Extracellular (Potential).|Gly-rich.					collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	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)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		CCGTCGGGGCCCTGGAAAGGA	0.657													8	20	---	---	---	---	PASS	T	177666180	T	T	177666180	3	4	4	1	0	0	0	0	1	0	0	0	3682	637	22	3	48	3	COL23A1	5	177666180	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	841186	177666180	3249080	1298	1889										
ZNF454	285676	broad.mit.edu	37	chr5	178391721	178391721	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agattcctgaagaagaattgGatcaatggacaataaaggaa	10	4	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:178391721G>A	uc003mjo.1	+	5	587	c.316G>A	c.(316-318)GAT>AAT	p.D106N	ZNF454_uc010jkz.1_Missense_Mutation_p.D106N	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	106					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)		AGAAGAATTGGATCAATGGAC	0.428													6	40	---	---	---	---	PASS	A	178391721	A	A	178391721	3	1	4	1	0	0	0	0	1	0	0	0	17920	1174	41	2	330	2	ZNF454	5	178391721	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	725541	178391721	2523539	1299	1890										
GRM6	2916	broad.mit.edu	37	chr5	178413751	178413751	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccagaccactgcagggcctCcacctgggacgcacaaaaca	10	16	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:178413751C>T	uc003mjr.2	-	8	1683	c.1504G>A	c.(1504-1506)GAG>AAG	p.E502K	GRM6_uc003mjq.2_5'Flank|GRM6_uc010jla.1_Missense_Mutation_p.E85K|GRM6_uc003mjs.1_Missense_Mutation_p.E122K	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	502	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		TGCAGGGCCTCCACCTGGGAC	0.687													4	19	---	---	---	---	PASS	T	178413751	T	T	178413751	3	4	4	1	0	0	0	0	1	0	0	0	6801	864	30	2	1141	2	GRM6	5	178413751	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	22030	178413751	2501509	1300	1891										
TBC1D9B	23061	broad.mit.edu	37	chr5	179302150	179302150	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctgcggcaggaagtctctCgtgagctcttcgaagatgcc	13	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:179302150C>T	uc003mlh.2	-	12	1975	c.1938G>A	c.(1936-1938)ACG>ACA	p.T646T	TBC1D9B_uc003mli.2_Silent_p.T646T|TBC1D9B_uc003mlj.2_Silent_p.T646T|TBC1D9B_uc011dgv.1_5'Flank	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	646	Rab-GAP TBC.					integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGAAGTCTCTCGTGAGCTCTT	0.632													7	30	---	---	---	---	PASS	T	179302150	T	T	179302150	2	4	4	1	0	0	0	0	0	0	0	1	15625	871	31	2		2	TBC1D9B	5	179302150	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	888399	179302150	1613110	1301	1892										
GFPT2	9945	broad.mit.edu	37	chr5	179765571	179765571	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatctccttcctcgtccgggGgactctgtagttcatgtagg	12	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:179765571G>A	uc003mlw.1	-	2	135	c.37C>T	c.(37-39)CCC>TCC	p.P13S		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	13	Glutamine amidotransferase type-2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	CTCGTCCGGGGGACTCTGTAG	0.532													5	16	---	---	---	---	PASS	A	179765571	A	A	179765571	3	1	4	1	0	0	0	0	1	0	0	0	6346	1232	43	3	2083	3	GFPT2	5	179765571	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	463421	179765571	1149689	1302	1893										
FLT4	2324	broad.mit.edu	37	chr5	180047186	180047186	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctcacccaggtgcagccgCtctcgggggaattcccactg	12	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:180047186C>T	uc003mma.3	-	17	2608	c.2529G>A	c.(2527-2529)GAG>GAA	p.E843E	FLT4_uc003mlz.3_Silent_p.E843E|FLT4_uc003mmb.1_Silent_p.E376E	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	843	Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	GGTGCAGCCGCTCTCGGGGGA	0.637									Congenital_Hereditary_Lymphedema				12	13	---	---	---	---	PASS	T	180047186	T	T	180047186	2	4	4	1	0	0	0	0	0	0	0	1	5944	796	28	3		3	FLT4	5	180047186	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	281615	180047186	868074	1303	1894										
OR2Y1	134083	broad.mit.edu	37	chr5	180166858	180166858	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgaagcagaggtccaggagGgacagatgagagagaaagaa	17	4	0	6			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:180166858G>A	uc003mmf.1	-	1	201	c.201C>T	c.(199-201)TCC>TCT	p.S67S		NM_001001657	NP_001001657	Q8NGV0	OR2Y1_HUMAN	olfactory receptor, family 2, subfamily Y,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(89;1.25e-05)|all_epithelial(37;4.36e-06)|Renal(175;0.000159)|Lung NSC(126;0.00317)|all_lung(126;0.0041)|Breast(19;0.114)	all_cancers(40;0.0834)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGTCCAGGAGGGACAGATGAG	0.572													11	32	---	---	---	---	PASS	A	180166858	A	A	180166858	2	1	4	1	0	0	0	0	0	0	0	1	11035	1219	43	3		3	OR2Y1	5	180166858	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	119672	180166858	748402	1304	1895										
BTNL8	79908	broad.mit.edu	37	chr5	180377022	180377022	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgagaagagatttacaagGaagagtgtggtggcttctca	13	5	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:180377022G>A	uc003mmp.2	+	8	1215	c.981G>A	c.(979-981)AGG>AGA	p.R327R	BTNL8_uc003mmq.2_3'UTR|BTNL8_uc011dhg.1_Silent_p.R202R|BTNL8_uc010jll.2_3'UTR|BTNL8_uc010jlm.2_Silent_p.R211R|BTNL8_uc011dhh.1_Silent_p.R143R	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	327	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GATTTACAAGGAAGAGTGTGG	0.527													15	37	---	---	---	---	PASS	A	180377022	A	A	180377022	2	1	4	1	0	0	0	0	0	0	0	1	1567	1165	41	2		2	BTNL8	5	180377022	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	210164	180377022	538238	1305	1896										
BTNL9	153579	broad.mit.edu	37	chr5	180475255	180475255	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctctggcgaagctctctgGgaactggaggtagcaggtgc	15	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:180475255G>A	uc003mmt.2	+	3	669	c.438G>A	c.(436-438)TGG>TGA	p.W146*	BTNL9_uc011dhi.1_Nonsense_Mutation_p.W77*	NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	146	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAGCTCTCTGGGAACTGGAGG	0.572													6	17	---	---	---	---	PASS	A	180475255	A	A	180475255	4	1	4	1	0	0	0	0	0	1	0	0	1568	1241	43	3	444	3	BTNL9	5	180475255	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	98233	180475255	440005	1306	1897										
OR2V2	285659	broad.mit.edu	37	chr5	180582831	180582831	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttacagcttgaggaacaggGaggtgatgggggcactgagg	18	5	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr5:180582831G>A	uc011dhj.1	+	1	889	c.889G>A	c.(889-891)GAG>AAG	p.E297K		NM_206880	NP_996763	Q96R30	OR2V2_HUMAN	olfactory receptor, family 2, subfamily V,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2	all_cancers(89;8.26e-06)|all_epithelial(37;1.02e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.0103)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.0652)|all_lung(500;0.149)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GAGGAACAGGGAGGTGATGGG	0.532													7	25	---	---	---	---	PASS	A	180582831	A	A	180582831	3	1	4	1	0	0	0	0	1	0	0	0	11031	1175	41	2	891	2	OR2V2	5	180582831	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	107576	180582831	332429	1307	1898										
FOXC1	2296	broad.mit.edu	37	chr6	1611181	1611181	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgttcgagaacggcagcttCctgcggcggcggcggcgctt	16	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:1611181C>T	uc003mtp.2	+	1	501	c.501C>T	c.(499-501)TTC>TTT	p.F167F		NM_001453	NP_001444	Q12948	FOXC1_HUMAN	forkhead box C1	167	Fork-head.				anti-apoptosis|artery morphogenesis|blood vessel remodeling|brain development|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|germ cell migration|glycosaminoglycan metabolic process|lacrimal gland development|lymphangiogenesis|metanephros development|negative regulation of mitotic cell cycle|neural crest cell fate commitment|Notch signaling pathway|odontogenesis of dentine-containing tooth|ossification|ovarian follicle development|paraxial mesodermal cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	nuclear heterochromatin|transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|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|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(93;0.0733)	all_cancers(2;4.45e-07)|all_epithelial(2;4.33e-05)|all_lung(73;0.0713)|all_hematologic(90;0.0895)		Epithelial(2;0.0904)|OV - Ovarian serous cystadenocarcinoma(45;0.095)|all cancers(2;0.168)		ACGGCAGCTTCCTGCGGCGGC	0.552													8	28	---	---	---	---	PASS	T	1611181	T	T	1611181	2	4	4	1	0	0	0	0	0	0	0	1	5994	854	30	2		2	FOXC1	6	1611181	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08		1611181	169503886	1308	1899										
SERPINB6	5269	broad.mit.edu	37	chr6	2948542	2948542	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgccctgtcctcacggagagGaaaagcggccgcagaagaga	14	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:2948542G>A	uc003muk.2	-	6	3116	c.1121C>T	c.(1120-1122)TCC>TTC	p.S374F	SERPINB6_uc003mui.2_Missense_Mutation_p.S257F|SERPINB6_uc003muj.2_RNA|SERPINB6_uc003mul.2_Missense_Mutation_p.S374F|SERPINB6_uc003mum.2_Missense_Mutation_p.S374F|SERPINB6_uc003mun.2_Missense_Mutation_p.S374F|SERPINB6_uc003muo.2_Missense_Mutation_p.S374F	NM_004568	NP_004559	P35237	SPB6_HUMAN	serine (or cysteine) proteinase inhibitor, clade	374					regulation of proteolysis	centrosome|cytosol|protein complex	protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Drotrecogin alfa(DB00055)	TCACGGAGAGGAAAAGCGGCC	0.602													15	21	---	---	---	---	PASS	A	2948542	A	A	2948542	3	1	4	1	0	0	0	0	1	0	0	0	14105	1174	41	2	13	2	SERPINB6	6	2948542	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1337361	2948542	168166525	1309	1900										
RREB1	6239	broad.mit.edu	37	chr6	7231821	7231821	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggggatgaggagccgaccCcgcgccaacagcggcggggt	19	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:7231821C>T	uc003mxc.2	+	10	3879	c.3489C>T	c.(3487-3489)CCC>CCT	p.P1163P	RREB1_uc003mxb.2_Silent_p.P1163P|RREB1_uc010jnx.2_Silent_p.P1163P	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1163					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				GGAGCCGACCCCGCGCCAACA	0.667													4	5	---	---	---	---	PASS	T	7231821	T	T	7231821	2	4	4	1	0	0	0	0	0	0	0	1	13679	610	22	3		3	RREB1	6	7231821	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4283279	7231821	163883246	1310	1901										
RREB1	6239	broad.mit.edu	37	chr6	7231916	7231916	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agacaccaacaagttcagtcCgtttctgcagacagcggagg	11	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:7231916C>T	uc003mxc.2	+	10	3974	c.3584C>T	c.(3583-3585)CCG>CTG	p.P1195L	RREB1_uc003mxb.2_Missense_Mutation_p.P1195L|RREB1_uc010jnx.2_Missense_Mutation_p.P1195L	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1195					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				AAGTTCAGTCCGTTTCTGCAG	0.637													5	20	---	---	---	---	PASS	T	7231916	T	T	7231916	3	4	4	1	0	0	0	0	1	0	0	0	13679	652	23	1	3610	1	RREB1	6	7231916	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	95	7231916	163883151	1311	1902										
GCNT2	2651	broad.mit.edu	37	chr6	10529189	10529189	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttttagcgcgtctcttatCtctgccctgatttttgtatt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:10529189C>T	uc010joo.2	+	3	596	c.45C>T	c.(43-45)ATC>ATT	p.I15I	GCNT2_uc010jol.2_Intron|GCNT2_uc010jom.2_Intron|GCNT2_uc010jop.2_Intron|GCNT2_uc003mza.2_Intron|GCNT2_uc003mzc.3_Silent_p.I14I|GCNT2_uc010jon.2_Silent_p.I14I	NM_145649	NP_663624	Q8N0V5	GNT2A_HUMAN	glucosaminyl (N-acetyl) transferase 2,	15	Helical; Signal-anchor for type II membrane protein; (Potential).					Golgi membrane|integral to membrane	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity	p.S15N(1)		ovary(2)	2	Ovarian(93;0.107)|Breast(50;0.148)	all_hematologic(90;0.107)		KIRC - Kidney renal clear cell carcinoma(1;0.099)|Kidney(1;0.119)		CGTCTCTTATCTCTGCCCTGA	0.413													16	35	---	---	---	---	PASS	T	10529189	T	T	10529189	2	4	4	1	0	0	0	0	0	0	0	1	6301	903	32	2		2	GCNT2	6	10529189	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3297273	10529189	160585878	1312	1903	63	2								
GCNT2	2651	broad.mit.edu	37	chr6	10529190	10529190	+	Missense_Mutation	SNP	T	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttttagcgcgtctcttatcTctgccctgatttttgtattt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:10529190T>A	uc010joo.2	+	3	597	c.46T>A	c.(46-48)TCT>ACT	p.S16T	GCNT2_uc010jol.2_Intron|GCNT2_uc010jom.2_Intron|GCNT2_uc010jop.2_Intron|GCNT2_uc003mza.2_Intron|GCNT2_uc003mzc.3_Missense_Mutation_p.S15T|GCNT2_uc010jon.2_Missense_Mutation_p.S15T	NM_145649	NP_663624	Q8N0V5	GNT2A_HUMAN	glucosaminyl (N-acetyl) transferase 2,	16	Helical; Signal-anchor for type II membrane protein; (Potential).					Golgi membrane|integral to membrane	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(2)	2	Ovarian(93;0.107)|Breast(50;0.148)	all_hematologic(90;0.107)		KIRC - Kidney renal clear cell carcinoma(1;0.099)|Kidney(1;0.119)		GTCTCTTATCTCTGCCCTGAT	0.418													16	35	---	---	---	---	PASS	A	10529190	A	A	10529190	3	1	4	1	0	0	0	0	1	0	0	0	6301	1551	54	5	48	5	GCNT2	6	10529190	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1	10529190	160585877	1313	1904	63	2								
HIVEP1	3096	broad.mit.edu	37	chr6	12164203	12164203	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagcattgcccaccttaatcCcctcagtcagtcaagtagcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:12164203C>T	uc003nac.2	+	9	7845	c.7666C>T	c.(7666-7668)CCC>TCC	p.P2556S	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2556					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				CACCTTAATCCCCTCAGTCAG	0.532													16	32	---	---	---	---	PASS	T	12164203	T	T	12164203	3	4	4	1	0	0	0	0	1	0	0	0	7186	623	22	3	7696	3	HIVEP1	6	12164203	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1635013	12164203	158950864	1314	1905	64	2								
HIVEP1	3096	broad.mit.edu	37	chr6	12164204	12164204	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcattgcccaccttaatccCctcagtcagtcaagtagccg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:12164204C>T	uc003nac.2	+	9	7846	c.7667C>T	c.(7666-7668)CCC>CTC	p.P2556L	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2556					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				ACCTTAATCCCCTCAGTCAGT	0.532													16	31	---	---	---	---	PASS	T	12164204	T	T	12164204	3	4	4	1	0	0	0	0	1	0	0	0	7186	623	22	3	7697	3	HIVEP1	6	12164204	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	12164204	158950863	1315	1906	64	2								
JARID2	3720	broad.mit.edu	37	chr6	15496635	15496635	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgcaaacaggtgctatccctCgggggggcgtccaagtccac	13	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:15496635C>T	uc003nbj.2	+	7	1423	c.1179C>T	c.(1177-1179)CTC>CTT	p.L393L	JARID2_uc011diu.1_Silent_p.L257L|JARID2_uc011div.1_Silent_p.L221L|JARID2_uc011diw.1_Silent_p.L355L	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	393					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				TGCTATCCCTCGGGGGGGCGT	0.577													29	36	---	---	---	---	PASS	T	15496635	T	T	15496635	2	4	4	1	0	0	0	0	0	0	0	1	7945	871	31	2		2	JARID2	6	15496635	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3332431	15496635	155618432	1316	1907										
CAP2	10486	broad.mit.edu	37	chr6	17543180	17543180	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gataaaagggaaagtaaactCcattataattggtagggcag	11	4	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:17543180C>T	uc003ncb.2	+	10	1358	c.1115C>T	c.(1114-1116)TCC>TTC	p.S372F	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Missense_Mutation_p.S346F|CAP2_uc011djb.1_Missense_Mutation_p.S308F|CAP2_uc011djc.1_Missense_Mutation_p.S260F|CAP2_uc011djd.1_Missense_Mutation_p.S112F	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	372	C-CAP/cofactor C-like.				activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			AAAGTAAACTCCATTATAATT	0.333													31	57	---	---	---	---	PASS	T	17543180	T	T	17543180	3	4	4	1	0	0	0	0	1	0	0	0	2620	855	30	2	1149	2	CAP2	6	17543180	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2046545	17543180	153571887	1317	1908										
KIF13A	63971	broad.mit.edu	37	chr6	17809080	17809080	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgctcatttcctcagccagGaagtttgcttccctcaccaa	6	14	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:17809080G>A	uc003ncg.3	-	18	2187	c.2082C>T	c.(2080-2082)TTC>TTT	p.F694F	KIF13A_uc003ncf.2_Silent_p.F694F|KIF13A_uc003nch.3_Silent_p.F694F|KIF13A_uc003nci.3_Silent_p.F694F	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	694	Potential.				cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			CCTCAGCCAGGAAGTTTGCTT	0.473													16	22	---	---	---	---	PASS	A	17809080	A	A	17809080	2	1	4	1	0	0	0	0	0	0	0	1	8274	1165	41	2		2	KIF13A	6	17809080	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	265900	17809080	153305987	1318	1909										
DCDC2	51473	broad.mit.edu	37	chr6	24278332	24278332	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttacattttgtttcaatttCgtcagtttttctgaattcac	4	7	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:24278332C>T	uc003ndx.2	-	7	1169	c.867G>A	c.(865-867)ACG>ACA	p.T289T	DCDC2_uc003ndy.2_Silent_p.T289T	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	289					cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				GTTTCAATTTCGTCAGTTTTT	0.348													9	16	---	---	---	---	PASS	T	24278332	T	T	24278332	2	4	4	1	0	0	0	0	0	0	0	1	4285	871	31	2		2	DCDC2	6	24278332	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	6469252	24278332	146836735	1319	1910										
ALDH5A1	7915	broad.mit.edu	37	chr6	24505195	24505195	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccgaagacacgcccttctcCgccctggccctggctgaggt	12	17	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:24505195C>T	uc003neg.2	+	4	736	c.708C>T	c.(706-708)TCC>TCT	p.S236S	ALDH5A1_uc003nef.2_Silent_p.S236S	NM_001080	NP_001071	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5A1 isoform 2 precursor	236					acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)	CGCCCTTCTCCGCCCTGGCCC	0.557													13	25	---	---	---	---	PASS	T	24505195	T	T	24505195	2	4	4	1	0	0	0	0	0	0	0	1	502	639	23	1		1	ALDH5A1	6	24505195	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	226863	24505195	146609872	1320	1911										
C6orf62	81688	broad.mit.edu	37	chr6	24714623	24714623	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattttttcaatatcattccGaggccaaagaatgaaatcca	6	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:24714623G>A	uc003nel.2	-	3	859	c.352C>T	c.(352-354)CGG>TGG	p.R118W		NM_030939	NP_112201	Q9GZU0	CF062_HUMAN	hypothetical protein LOC81688	118						intracellular					0						ATATCATTCCGAGGCCAAAGA	0.348													29	43	---	---	---	---	PASS	A	24714623	A	A	24714623	3	1	4	1	0	0	0	0	1	0	0	0	2368	1057	37	2	349	2	C6orf62	6	24714623	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	209428	24714623	146400444	1321	1912										
SLC17A3	10786	broad.mit.edu	37	chr6	25850059	25850059	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaatatctaagacattgatAtaaatccctgactgacacaa	5	9	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:25850059A>T	uc003nfi.3	-	9	1121	c.1011T>A	c.(1009-1011)TAT>TAA	p.Y337*	SLC17A3_uc003nfk.3_Nonsense_Mutation_p.Y415*	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	337	Helical; (Potential).				glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						AGACATTGATATAAATCCCTG	0.423													19	27	---	---	---	---	PASS	T	25850059	T	T	25850059	4	4	4	1	0	0	0	0	0	1	0	0	14418	456	16	5	263	5	SLC17A3	6	25850059	Nonsense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	1135436	25850059	145265008	1322	1913										
BTN3A1	11119	broad.mit.edu	37	chr6	26406243	26406243	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgagtgcagagaccatggaGctgaagtgggtgagttccag	16	6	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:26406243G>A	uc003nhv.2	+	3	560	c.192G>A	c.(190-192)GAG>GAA	p.E64E	BTN3A1_uc011dkj.1_Silent_p.E64E|BTN3A1_uc011dkk.1_Silent_p.E64E|BTN3A1_uc010jqj.2_Silent_p.E64E	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a	64	Ig-like V-type 1.|Extracellular (Potential).				lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						AGACCATGGAGCTGAAGTGGG	0.562													40	44	---	---	---	---	PASS	A	26406243	A	A	26406243	2	1	4	1	0	0	0	0	0	0	0	1	1562	962	34	3		3	BTN3A1	6	26406243	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	556184	26406243	144708824	1323	1914										
BTN3A3	10384	broad.mit.edu	37	chr6	26444264	26444264	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatctgccctgtcacctgttCccgaccatgagtgcagagac	10	14	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:26444264C>T	uc003nhz.2	+	4	345	c.165C>T	c.(163-165)TTC>TTT	p.F55F	BTN3A3_uc003nia.2_Silent_p.F13F|BTN3A3_uc011dkn.1_Silent_p.F13F	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	55	Extracellular (Potential).|Ig-like V-type 1.					integral to membrane					0						GTCACCTGTTCCCGACCATGA	0.577													38	76	---	---	---	---	PASS	T	26444264	T	T	26444264	2	4	4	1	0	0	0	0	0	0	0	1	1564	854	30	2		2	BTN3A3	6	26444264	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	38021	26444264	144670803	1324	1915										
ZKSCAN4	387032	broad.mit.edu	37	chr6	28213072	28213072	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctcacactcattacatttaTaagacacgggagcctcagta	6	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:28213072T>G	uc003nks.1	-	5	1704	c.1460A>C	c.(1459-1461)TAT>TCT	p.Y487S	ZKSCAN4_uc011dlb.1_Missense_Mutation_p.Y332S	NM_019110	NP_061983	Q969J2	ZKSC4_HUMAN	zinc finger with KRAB and SCAN domains 4	487	C2H2-type 6.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						ATTACATTTATAAGACACGGG	0.443													28	45	---	---	---	---	PASS	G	28213072	G	G	28213072	3	3	4	1	0	0	0	0	1	0	0	0	17686	1406	49	5	181	5	ZKSCAN4	6	28213072	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1768808	28213072	142901995	1325	1916										
SCAND3	114821	broad.mit.edu	37	chr6	28541122	28541122	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttccaagcaaacttctttGatgcagtctttcactagtgt	6	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:28541122G>A	uc003nlo.2	-	4	3162	c.2544C>T	c.(2542-2544)ATC>ATT	p.I848I		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	848					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						aaacttctttgatgcagtctt	0													35	77	---	---	---	---	PASS	A	28541122	A	A	28541122	2	1	4	1	0	0	0	0	0	0	0	1	13876	1280	45	2		2	SCAND3	6	28541122	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	328050	28541122	142573945	1326	1917										
SCAND3	114821	broad.mit.edu	37	chr6	28541310	28541310	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttggttgtgaacttatttCtttatgttttgaatataaat	6	2	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:28541310C>T	uc003nlo.2	-	4	2974	c.2356G>A	c.(2356-2358)GAA>AAA	p.E786K		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	786					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						gaacttatttctttatgtttt	0													10	32	---	---	---	---	PASS	T	28541310	T	T	28541310	3	4	4	1	0	0	0	0	1	0	0	0	13876	922	32	2	1625	2	SCAND3	6	28541310	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	188	28541310	142573757	1327	1918										
SCAND3	114821	broad.mit.edu	37	chr6	28543804	28543804	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaccttgctaagcttctgaaGaacttttctctcatgttttc	5	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:28543804G>A	uc003nlo.2	-	3	1296	c.678C>T	c.(676-678)TTC>TTT	p.F226F		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	226					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGCTTCTGAAGAACTTTTCTC	0.348													16	38	---	---	---	---	PASS	A	28543804	A	A	28543804	2	1	4	1	0	0	0	0	0	0	0	1	13876	933	33	2		2	SCAND3	6	28543804	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2494	28543804	142571263	1328	1919										
OR5V1	81696	broad.mit.edu	37	chr6	29323094	29323094	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttctttgatgtccttattCctcaatgtgtaaattatagg	7	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:29323094C>T	uc011dlo.1	-	1	961	c.879G>A	c.(877-879)AGG>AGA	p.R293R		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	293	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4						TGTCCTTATTCCTCAATGTGT	0.403													30	67	---	---	---	---	PASS	T	29323094	T	T	29323094	2	4	4	1	0	0	0	0	0	0	0	1	11184	854	30	2		2	OR5V1	6	29323094	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	779290	29323094	141791973	1329	1920										
OR10C1	442194	broad.mit.edu	37	chr6	29407862	29407862	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccacctggccgacctccagGgcttgctcttctctgtcttt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:29407862G>A	uc011dlp.1	+	1	70	c.70G>A	c.(70-72)GGC>AGC	p.G24S	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CGACCTCCAGGGCTTGCTCTT	0.542													18	41	---	---	---	---	PASS	A	29407862	A	A	29407862	3	1	4	1	0	0	0	0	1	0	0	0	10898	1232	43	3	72	3	OR10C1	6	29407862	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	84768	29407862	141707205	1330	1921	65	2								
OR10C1	442194	broad.mit.edu	37	chr6	29407863	29407863	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacctggccgacctccaggGcttgctcttctctgtctttc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:29407863G>A	uc011dlp.1	+	1	71	c.71G>A	c.(70-72)GGC>GAC	p.G24D	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GACCTCCAGGGCTTGCTCTTC	0.542													18	42	---	---	---	---	PASS	A	29407863	A	A	29407863	3	1	4	1	0	0	0	0	1	0	0	0	10898	1203	42	3	73	3	OR10C1	6	29407863	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	29407863	141707204	1331	1922	65	2								
OR2H1	26716	broad.mit.edu	37	chr6	29429658	29429658	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcctacctcttgaccctgGtgggcaacacactcatcatc	6	16	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:29429658G>A	uc003nmi.2	+	3	555	c.112G>A	c.(112-114)GTG>ATG	p.V38M	OR2H1_uc003nmj.1_Missense_Mutation_p.V38M|OR2H1_uc010jri.1_Intron	NM_030883	NP_112145	Q9GZK4	OR2H1_HUMAN	olfactory receptor, family 2, subfamily H,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTGACCCTGGTGGGCAACAC	0.527													35	69	---	---	---	---	PASS	A	29429658	A	A	29429658	3	1	4	1	0	0	0	0	1	0	0	0	11001	1261	44	3	114	3	OR2H1	6	29429658	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	21795	29429658	141685409	1332	1923										
PPP1R10	5514	broad.mit.edu	37	chr6	30577617	30577617	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaggggtaaagactcacctGaagatcttggaaatcccatc	9	9	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:30577617G>A	uc003nqn.1	-	3	657	c.105C>T	c.(103-105)TTC>TTT	p.F35F	PPP1R10_uc010jsc.1_5'UTR	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	35	Interaction with TOX4 (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						AGACTCACCTGAAGATCTTGG	0.463													20	43	---	---	---	---	PASS	A	30577617	A	A	30577617	2	1	4	1	0	0	0	0	0	0	0	1	12352	1281	45	2		2	PPP1R10	6	30577617	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1147959	30577617	140537450	1333	1924										
MDC1	9656	broad.mit.edu	37	chr6	30672562	30672562	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctgagacgtaggctcaggGgtaacaggctggtctgtgga	17	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:30672562G>C	uc003nrg.3	-	10	4838	c.4398C>G	c.(4396-4398)ACC>ACG	p.T1466T	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Silent_p.T1073T	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1466	Pro-rich.|Interaction with the PRKDC complex.				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TAGGCTCAGGGGTAACAGGCT	0.572								Other_conserved_DNA_damage_response_genes					38	87	---	---	---	---	PASS	C	30672562	C	C	30672562	2	2	4	1	0	0	0	0	0	0	0	1	9403	1219	43	4		4	MDC1	6	30672562	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	94945	30672562	140442505	1334	1925										
VARS2	57176	broad.mit.edu	37	chr6	30891143	30891143	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgcagctgtctccctcctCcccgatggatgcctggatcc	9	18	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:30891143C>T	uc003nsc.1	+	24	2959	c.2327C>T	c.(2326-2328)TCC>TTC	p.S776F	VARS2_uc011dmx.1_Missense_Mutation_p.S776F|VARS2_uc011dmy.1_Missense_Mutation_p.S636F|VARS2_uc011dmz.1_Missense_Mutation_p.S806F|VARS2_uc011dna.1_Missense_Mutation_p.S774F|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_Missense_Mutation_p.S214F|VARS2_uc010jsg.1_Missense_Mutation_p.S148F|VARS2_uc010jsh.1_5'UTR	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	776					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						TCTCCCTCCTCCCCGATGGAT	0.662													12	26	---	---	---	---	PASS	T	30891143	T	T	30891143	3	4	4	1	0	0	0	0	1	0	0	0	17121	855	30	2	2515	2	VARS2	6	30891143	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	218581	30891143	140223924	1335	1926										
MICB	4277	broad.mit.edu	37	chr6	31475280	31475280	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctgtgtcccttgttgcaaGaagaaaacatcagcggcaga	10	10	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:31475280G>A	uc003ntn.3	+	5	1112	c.996G>A	c.(994-996)AAG>AAA	p.K332K	MICB_uc011dnm.1_Silent_p.K300K|MICB_uc003nto.3_Silent_p.K289K	NM_005931	NP_005922	Q29980	MICB_HUMAN	MHC class I polypeptide-related sequence B	332	Cytoplasmic (Potential).				antigen processing and presentation|cytolysis|gamma-delta T cell activation|immune response|immune response-activating cell surface receptor signaling pathway|interspecies interaction between organisms|negative regulation of defense response to virus by host|response to heat|response to oxidative stress|response to retinoic acid	integral to plasma membrane|MHC class I protein complex	natural killer cell lectin-like receptor binding				0						CTTGTTGCAAGAAGAAAACAT	0.473													15	28	---	---	---	---	PASS	A	31475280	A	A	31475280	2	1	4	1	0	0	0	0	0	0	0	1	9575	933	33	2		2	MICB	6	31475280	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	584137	31475280	139639787	1336	1927										
BAT2	7916	broad.mit.edu	37	chr6	31590630	31590630	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaagtattcctcgctcaacCtgtttgatacgtataagggc	9	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:31590630C>T	uc003nvb.3	+	2	313	c.64C>T	c.(64-66)CTG>TTG	p.L22L	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Silent_p.L22L|SNORA38_uc003nvd.2_5'Flank|BAT2_uc003nve.2_5'Flank	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	22						cytoplasm|nucleus	protein binding				0						CTCGCTCAACCTGTTTGATAC	0.517													4	175	---	---	---	---	PASS	T	31590630	T	T	31590630	2	4	4	1	0	0	0	0	0	0	0	1	1319	680	24	3		3	BAT2	6	31590630	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	115350	31590630	139524437	1337	1928										
BAT2	7916	broad.mit.edu	37	chr6	31603799	31603799	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaacagtggaggcttccgccCtgggacaccctcactgcacc	10	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:31603799C>T	uc003nvb.3	+	25	5846	c.5597C>T	c.(5596-5598)CCT>CTT	p.P1866L	BAT2_uc003nvc.3_Missense_Mutation_p.P1866L	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1866						cytoplasm|nucleus	protein binding				0						GGCTTCCGCCCTGGGACACCC	0.537													17	25	---	---	---	---	PASS	T	31603799	T	T	31603799	3	4	4	1	0	0	0	0	1	0	0	0	1319	681	24	3	5691	3	BAT2	6	31603799	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	13169	31603799	139511268	1338	1929										
BAT4	7918	broad.mit.edu	37	chr6	31631763	31631763	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccacccaggcagccccacGgcccaggagatagctcacag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:31631763G>A	uc003nvn.2	-	2	1138	c.493C>T	c.(493-495)CGT>TGT	p.R165C	BAT4_uc003nvo.3_Missense_Mutation_p.R165C|BAT4_uc003nvp.3_Missense_Mutation_p.R165C|BAT4_uc003nvq.2_Missense_Mutation_p.R165C|CSNK2B_uc010jsz.1_5'Flank|CSNK2B_uc010jta.1_5'Flank|CSNK2B_uc003nvr.1_5'Flank|CSNK2B_uc003nvs.1_5'Flank	NM_033177	NP_149417	O95872	GPAN1_HUMAN	HLA-B associated transcript 4	165	ANK 2.					intracellular	nucleic acid binding				0						GCAGCCCCACGGCCCAGGAGA	0.657													20	24	---	---	---	---	PASS	A	31631763	A	A	31631763	3	1	4	1	0	0	0	0	1	0	0	0	1323	1116	39	1	585	1	BAT4	6	31631763	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	27964	31631763	139483304	1339	1930	66	2								
BAT4	7918	broad.mit.edu	37	chr6	31631764	31631764	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccacccaggcagccccacgGcccaggagatagctcacagc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:31631764G>A	uc003nvn.2	-	2	1137	c.492C>T	c.(490-492)GGC>GGT	p.G164G	BAT4_uc003nvo.3_Silent_p.G164G|BAT4_uc003nvp.3_Silent_p.G164G|BAT4_uc003nvq.2_Silent_p.G164G|CSNK2B_uc010jsz.1_5'Flank|CSNK2B_uc010jta.1_5'Flank|CSNK2B_uc003nvr.1_5'Flank|CSNK2B_uc003nvs.1_5'Flank	NM_033177	NP_149417	O95872	GPAN1_HUMAN	HLA-B associated transcript 4	164	ANK 2.					intracellular	nucleic acid binding				0						CAGCCCCACGGCCCAGGAGAT	0.662													19	24	---	---	---	---	PASS	A	31631764	A	A	31631764	2	1	4	1	0	0	0	0	0	0	0	1	1323	1190	42	3		3	BAT4	6	31631764	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	31631764	139483303	1340	1931	66	2								
LY6G6F	259215	broad.mit.edu	37	chr6	31675746	31675746	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggactctgtgacctggcagGaagggaagggtcccgtgagg	18	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:31675746G>A	uc003nwa.1	+	3	481	c.481G>A	c.(481-483)GAA>AAA	p.E161K	BAT5_uc011dnz.1_Intron|LY6G6F_uc003nwb.1_Missense_Mutation_p.E161K	NM_001003693	NP_001003693	Q5SQ64	LY66F_HUMAN	G6f protein precursor	161	Extracellular (Potential).					integral to membrane|plasma membrane				breast(1)|central_nervous_system(1)	2						GACCTGGCAGGAAGGGAAGGG	0.622													18	48	---	---	---	---	PASS	A	31675746	A	A	31675746	3	1	4	1	0	0	0	0	1	0	0	0	9096	1175	41	2	491	2	LY6G6F	6	31675746	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	43982	31675746	139439321	1341	1932										
VARS	7407	broad.mit.edu	37	chr6	31753355	31753355	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcatactcactcctccttcCacttccagacttcctgtaga	4	16	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:31753355C>T	uc003nxe.2	-	9	1679	c.1256G>A	c.(1255-1257)TGG>TAG	p.W419*	VARS_uc011doi.1_RNA	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	419					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	CTCCTCCTTCCACTTCCAGAC	0.607													4	10	---	---	---	---	PASS	T	31753355	T	T	31753355	4	4	4	1	0	0	0	0	0	1	0	0	17120	595	21	3	2626	3	VARS	6	31753355	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	77609	31753355	139361712	1342	1933										
VARS	7407	broad.mit.edu	37	chr6	31760835	31760835	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggcctccccggccaagtaGgtgtgcagccgaagccactc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:31760835G>A	uc003nxe.2	-	3	873	c.450C>T	c.(448-450)ACC>ACT	p.T150T	VARS_uc011doi.1_Intron	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	150	GST C-terminal.				translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	CGGCCAAGTAGGTGTGCAGCC	0.647													4	4	---	---	---	---	PASS	A	31760835	A	A	31760835	2	1	4	1	0	0	0	0	0	0	0	1	17120	987	35	3		3	VARS	6	31760835	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	7480	31760835	139354232	1343	1934	67	2								
VARS	7407	broad.mit.edu	37	chr6	31760836	31760836	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggcctccccggccaagtagGtgtgcagccgaagccactcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:31760836G>A	uc003nxe.2	-	3	872	c.449C>T	c.(448-450)ACC>ATC	p.T150I	VARS_uc011doi.1_Intron	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	150	GST C-terminal.				translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	GGCCAAGTAGGTGTGCAGCCG	0.652													4	4	---	---	---	---	PASS	A	31760836	A	A	31760836	3	1	4	1	0	0	0	0	1	0	0	0	17120	1261	44	3	3457	3	VARS	6	31760836	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	31760836	139354231	1344	1935	67	2								
HSPA1L	3305	broad.mit.edu	37	chr6	31779345	31779345	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgacagggtggcccaaaaaGgcctcagcagtctccttcaa	11	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:31779345G>A	uc003nxh.2	-	2	588	c.405C>T	c.(403-405)GCC>GCT	p.A135A	HSPA1L_uc010jte.2_Silent_p.A135A	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	135					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						GGCCCAAAAAGGCCTCAGCAG	0.483													23	24	---	---	---	---	PASS	A	31779345	A	A	31779345	2	1	4	1	0	0	0	0	0	0	0	1	7410	987	35	3		3	HSPA1L	6	31779345	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	18509	31779345	139335722	1345	1936										
TNXB	7148	broad.mit.edu	37	chr6	32026084	32026084	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctgtcactgtcagctcccCcaggagaggctcctcggggg	13	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:32026084C>T	uc003nzl.2	-	22	7778	c.7576G>A	c.(7576-7578)GGG>AGG	p.G2526R		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2586	Fibronectin type-III 18.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GTCAGCTCCCCCAGGAGAGGC	0.627													11	18	---	---	---	---	PASS	T	32026084	T	T	32026084	3	4	4	1	0	0	0	0	1	0	0	0	16343	623	22	3	7229	3	TNXB	6	32026084	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	246739	32026084	139088983	1346	1937										
TNXB	7148	broad.mit.edu	37	chr6	32029219	32029219	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcccacgcgccgcccctcgtGgaggccatacaggtgcatct	12	17	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:32029219G>A	uc003nzl.2	-	21	7649	c.7447C>T	c.(7447-7449)CAC>TAC	p.H2483Y		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2543	Fibronectin type-III 17.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CGCCCCTCGTGGAGGCCATAC	0.672													19	37	---	---	---	---	PASS	A	32029219	A	A	32029219	3	1	4	1	0	0	0	0	1	0	0	0	16343	1348	47	3	7362	3	TNXB	6	32029219	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3135	32029219	139085848	1347	1938										
TNXB	7148	broad.mit.edu	37	chr6	32030096	32030096	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccatccccattcttgtactGgaccaggaagtggtcaaact	8	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:32030096G>T	uc003nzl.2	-	20	7208	c.7006C>A	c.(7006-7008)CAG>AAG	p.Q2336K		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2398	Fibronectin type-III 16.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TTCTTGTACTGGACCAGGAAG	0.602													17	36	---	---	---	---	PASS	T	32030096	T	T	32030096	3	4	4	1	0	0	0	0	1	0	0	0	16343	1357	47	3	7807	3	TNXB	6	32030096	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	877	32030096	139084971	1348	1939										
TNXB	7148	broad.mit.edu	37	chr6	32038048	32038048	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggcaccacctggggcccgtCtttgtccttgaactggacca	12	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:32038048C>T	uc003nzl.2	-	14	5336	c.5134G>A	c.(5134-5136)GAC>AAC	p.D1712N		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1794	Fibronectin type-III 10.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TGGGGCCCGTCTTTGTCCTTG	0.622													14	10	---	---	---	---	PASS	T	32038048	T	T	32038048	3	4	4	1	0	0	0	0	1	0	0	0	16343	913	32	2	9703	2	TNXB	6	32038048	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	7952	32038048	139077019	1349	1940										
TNXB	7148	broad.mit.edu	37	chr6	32063503	32063503	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggcacagtcagggcctcgGaagccctctacacacacaca	9	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:32063503G>A	uc003nzl.2	-	3	2329	c.2127C>T	c.(2125-2127)TTC>TTT	p.F709F		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	709	EGF-like 18.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CAGGGCCTCGGAAGCCCTCTA	0.667													10	17	---	---	---	---	PASS	A	32063503	A	A	32063503	2	1	4	1	0	0	0	0	0	0	0	1	16343	1165	41	2		2	TNXB	6	32063503	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	25455	32063503	139051564	1350	1941										
BTNL2	56244	broad.mit.edu	37	chr6	32372866	32372866	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctatccactctacccagcCtctgtactcctccatctgca	3	19	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:32372866C>T	uc003obg.1	-	2	277	c.277G>A	c.(277-279)GGC>AGC	p.G93S	BTNL2_uc010jty.1_Intron|BTNL2_uc010jtz.1_Intron|BTNL2_uc010jua.1_Intron	NM_019602	NP_062548	Q9UIR0	BTNL2_HUMAN	butyrophilin-like 2	93	Ig-like V-type 1.|Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						TCTACCCAGCCTCTGTACTCC	0.532													36	78	---	---	---	---	PASS	T	32372866	T	T	32372866	3	4	4	1	0	0	0	0	1	0	0	0	1565	681	24	3	1110	3	BTNL2	6	32372866	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	309363	32372866	138742201	1351	1942										
COL11A2	1302	broad.mit.edu	37	chr6	33137858	33137858	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacccaggttcccaacacctCctgggggaccttgtgggccc	12	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:33137858C>T	uc003ocx.1	-	49	3830	c.3602G>A	c.(3601-3603)GGA>GAA	p.G1201E	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Missense_Mutation_p.G1115E|COL11A2_uc003ocz.1_Missense_Mutation_p.G1094E	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1201	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						CCCAACACCTCCTGGGGGACC	0.562													21	39	---	---	---	---	PASS	T	33137858	T	T	33137858	3	4	4	1	0	0	0	0	1	0	0	0	3668	855	30	2	1680	2	COL11A2	6	33137858	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	764992	33137858	137977209	1352	1943										
VPS52	6293	broad.mit.edu	37	chr6	33232566	33232566	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaattcagtgacctgtccaGggcaggaacatccctctttg	10	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:33232566G>A	uc003odm.1	-	13	1603	c.1393C>T	c.(1393-1395)CTG>TTG	p.L465L	VPS52_uc003odn.1_Silent_p.L276L	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52	465					protein transport	endosome membrane|Golgi apparatus				ovary(4)|skin(1)	5						GACCTGTCCAGGGCAGGAACA	0.498													41	94	---	---	---	---	PASS	A	33232566	A	A	33232566	2	1	4	1	0	0	0	0	0	0	0	1	17211	991	35	3		3	VPS52	6	33232566	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	94708	33232566	137882501	1353	1944										
ZBTB9	221504	broad.mit.edu	37	chr6	33423652	33423652	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cactgcccatgactgctactCcccgaaagcttccagagggt	9	15	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:33423652C>T	uc003oeq.2	+	2	1043	c.775C>T	c.(775-777)CCC>TCC	p.P259S		NM_152735	NP_689948	Q96C00	ZBTB9_HUMAN	zinc finger and BTB domain containing 9	259	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GACTGCTACTCCCCGAAAGCT	0.587													19	39	---	---	---	---	PASS	T	33423652	T	T	33423652	3	4	4	1	0	0	0	0	1	0	0	0	17555	855	30	2	777	2	ZBTB9	6	33423652	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	191086	33423652	137691415	1354	1945										
PACSIN1	29993	broad.mit.edu	37	chr6	34499404	34499404	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctacgacagaggccagccCtacgccaccgagtggtcaga	12	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:34499404C>T	uc003ojo.2	+	9	1271	c.1065C>T	c.(1063-1065)CCC>CCT	p.P355P	PACSIN1_uc003ojp.2_Silent_p.P355P	NM_020804	NP_065855	Q9BY11	PACN1_HUMAN	protein kinase C and casein kinase substrate in	355					endocytosis		protein kinase activity				0						GAGGCCAGCCCTACGCCACCG	0.627													37	48	---	---	---	---	PASS	T	34499404	T	T	34499404	2	4	4	1	0	0	0	0	0	0	0	1	11374	668	24	3		3	PACSIN1	6	34499404	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1075752	34499404	136615663	1355	1946										
STK38	11329	broad.mit.edu	37	chr6	36483159	36483159	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtttgatgtctctgtggaTgaatccaagttggtgaatag	13	4	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:36483159T>A	uc003omg.2	-	6	1213	c.625A>T	c.(625-627)ATC>TTC	p.I209F	STK38_uc003omh.2_Missense_Mutation_p.I209F|STK38_uc003omi.2_Missense_Mutation_p.I209F	NM_007271	NP_009202	Q15208	STK38_HUMAN	serine/threonine kinase 38	209	Protein kinase.				intracellular protein kinase cascade|negative regulation of MAP kinase activity	cytoplasm|MLL5-L complex	ATP binding|magnesium ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6						TCTCTGTGGATGAATCCAAGT	0.433													18	50	---	---	---	---	PASS	A	36483159	A	A	36483159	3	1	4	1	0	0	0	0	1	0	0	0	15302	1464	51	5	804	5	STK38	6	36483159	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1983755	36483159	134631908	1356	1947										
PIM1	5292	broad.mit.edu	37	chr6	37138791	37138791	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtggagaaggaccggatttCcgactggggagagctggtga	18	7	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:37138791C>T	uc003onk.2	+	3	654	c.224C>T	c.(223-225)TCC>TTC	p.S75F	PIM1_uc011dtw.1_5'Flank	NM_002648	NP_002639	P11309	PIM1_HUMAN	non-specific serine/threonine protein kinase	166	Protein kinase.				cell cycle|cell proliferation|multicellular organismal development|negative regulation of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|protein autophosphorylation	cytoplasm|nucleus|plasma membrane	ATP binding|manganese ion binding|protein binding|protein binding|protein serine/threonine kinase activity|transcription factor binding			large_intestine(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(102;0.241)		Adenosine monophosphate(DB00131)	GACCGGATTTCCGACTGGGGA	0.642			T	BCL6	NHL								14	32	---	---	---	---	PASS	T	37138791	T	T	37138791	3	4	4	1	0	0	0	0	1	0	0	0	11927	855	30	2	234	2	PIM1	6	37138791	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	655632	37138791	133976276	1357	1948										
PIM1	5292	broad.mit.edu	37	chr6	37140804	37140804	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atagccctccagagtggatcCgctaccatcgctaccatggc	9	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:37140804C>T	uc003onk.2	+	5	1070	c.640C>T	c.(640-642)CGC>TGC	p.R214C	PIM1_uc011dtw.1_Silent_p.S82S	NM_002648	NP_002639	P11309	PIM1_HUMAN	non-specific serine/threonine protein kinase	305	Protein kinase.				cell cycle|cell proliferation|multicellular organismal development|negative regulation of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|protein autophosphorylation	cytoplasm|nucleus|plasma membrane	ATP binding|manganese ion binding|protein binding|protein binding|protein serine/threonine kinase activity|transcription factor binding			large_intestine(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(102;0.241)		Adenosine monophosphate(DB00131)	AGAGTGGATCCGCTACCATCG	0.517			T	BCL6	NHL								26	36	---	---	---	---	PASS	T	37140804	T	T	37140804	3	4	4	1	0	0	0	0	1	0	0	0	11927	652	23	1	658	1	PIM1	6	37140804	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2013	37140804	133974263	1358	1949										
DNAH8	1769	broad.mit.edu	37	chr6	38790619	38790619	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacatctgttttcaggatctTttgaagaagctattcctgcg	8	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:38790619T>A	uc003ooe.1	+	25	3478	c.2878T>A	c.(2878-2880)TTT>ATT	p.F960I		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTCAGGATCTTTTGAAGAAGC	0.338													11	12	---	---	---	---	PASS	A	38790619	A	A	38790619	3	1	4	1	0	0	0	0	1	0	0	0	4607	1841	64	5	2968	5	DNAH8	6	38790619	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1649815	38790619	132324448	1359	1950										
DNAH8	1769	broad.mit.edu	37	chr6	38790796	38790796	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctctggacagaggaccgcGatgtgaaagtgaaggtgtct	14	8	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:38790796G>A	uc003ooe.1	+	25	3655	c.3055G>A	c.(3055-3057)GAT>AAT	p.D1019N		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AGAGGACCGCGATGTGAAAGT	0.458													11	45	---	---	---	---	PASS	A	38790796	A	A	38790796	3	1	4	1	0	0	0	0	1	0	0	0	4607	1058	37	2	3145	2	DNAH8	6	38790796	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	177	38790796	132324271	1360	1951										
DNAH8	1769	broad.mit.edu	37	chr6	38825328	38825328	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aattcagatgttgtggacacAcgattcagaagaggctttac	10	7	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:38825328A>G	uc003ooe.1	+	40	5717	c.5117A>G	c.(5116-5118)CAC>CGC	p.H1706R		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTGTGGACACACGATTCAGAA	0.343													19	39	---	---	---	---	PASS	G	38825328	G	G	38825328	3	3	4	1	0	0	0	0	1	0	0	0	4607	159	6	5	5267	5	DNAH8	6	38825328	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	34532	38825328	132289739	1361	1952										
KCNK16	83795	broad.mit.edu	37	chr6	39284636	39284636	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcgctgaagctccagccctCcacatggctgaagaccatgg	10	15	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:39284636C>T	uc003ooq.2	-	4	597	c.583G>A	c.(583-585)GAG>AAG	p.E195K	KCNK17_uc003ooo.2_5'Flank|KCNK17_uc003oop.2_5'Flank|KCNK16_uc003oor.3_Missense_Mutation_p.E195K|KCNK16_uc010jwy.2_Missense_Mutation_p.E195K|KCNK16_uc011dtz.1_Missense_Mutation_p.E195K	NM_032115	NP_115491	Q96T55	KCNKG_HUMAN	potassium channel, subfamily K, member 16	195						integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(1)	3						CTCCAGCCCTCCACATGGCTG	0.542													52	115	---	---	---	---	PASS	T	39284636	T	T	39284636	3	4	4	1	0	0	0	0	1	0	0	0	8063	864	30	2	743	2	KCNK16	6	39284636	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	459308	39284636	131830431	1362	1953										
LRFN2	57497	broad.mit.edu	37	chr6	40399601	40399601	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgttccggggggcttttggGaggctctccgcccccactgc	14	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:40399601G>A	uc003oph.1	-	2	1717	c.1252C>T	c.(1252-1254)CCC>TCC	p.P418S		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	418	Fibronectin type-III.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GGGCTTTTGGGAGGCTCTCCG	0.652													9	21	---	---	---	---	PASS	A	40399601	A	A	40399601	3	1	4	1	0	0	0	0	1	0	0	0	8938	1174	41	2	1125	2	LRFN2	6	40399601	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1114965	40399601	130715466	1363	1954										
UBR2	23304	broad.mit.edu	37	chr6	42603165	42603165	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttccgttaagggaatggatCcaattacacgtcaagtagga	10	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:42603165C>T	uc011dur.1	+	14	1555	c.1555C>T	c.(1555-1557)CCA>TCA	p.P519S	UBR2_uc011dus.1_Missense_Mutation_p.P164S|UBR2_uc010jxv.1_Missense_Mutation_p.P23S|UBR2_uc003osh.2_RNA	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	519					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			GGGAATGGATCCAATTACACG	0.318													17	29	---	---	---	---	PASS	T	42603165	T	T	42603165	3	4	4	1	0	0	0	0	1	0	0	0	16899	855	30	2	1755	2	UBR2	6	42603165	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2203564	42603165	128511902	1364	1955										
PTK7	5754	broad.mit.edu	37	chr6	43099815	43099815	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctgctgctgacccaggtcCggccacgcaatgcagggatc	12	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:43099815C>T	uc003oub.1	+	6	1072	c.874C>T	c.(874-876)CGG>TGG	p.R292W	PTK7_uc003ouc.1_Missense_Mutation_p.R292W|PTK7_uc003oud.1_Missense_Mutation_p.R292W|PTK7_uc003oue.1_Missense_Mutation_p.R292W|PTK7_uc003ouf.1_RNA|PTK7_uc003oug.1_RNA|PTK7_uc011dve.1_Missense_Mutation_p.R300W|PTK7_uc010jyj.1_5'Flank|PTK7_uc003oua.2_Missense_Mutation_p.R292W	NM_002821	NP_002812	Q13308	PTK7_HUMAN	PTK7 protein tyrosine kinase 7 isoform a	292	Ig-like C2-type 3.|Extracellular (Potential).				actin cytoskeleton reorganization|canonical Wnt receptor signaling pathway|cell adhesion|cell migration	cell-cell junction|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			ovary(2)|large_intestine(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00784)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			GACCCAGGTCCGGCCACGCAA	0.617													10	22	---	---	---	---	PASS	T	43099815	T	T	43099815	3	4	4	1	0	0	0	0	1	0	0	0	12765	643	23	1	896	1	PTK7	6	43099815	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	496650	43099815	128015252	1365	1956										
CUL9	23113	broad.mit.edu	37	chr6	43172102	43172102	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctgtcttctttcagatgcGgaaggcgtgagtgccctggg	14	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:43172102G>T	uc003ouk.2	+	21	4239	c.4164G>T	c.(4162-4164)GCG>GCT	p.A1388A	CUL9_uc003oul.2_Silent_p.A1388A|CUL9_uc010jyk.2_Silent_p.A540A	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1388					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TTTCAGATGCGGAAGGCGTGA	0.537													5	77	---	---	---	---	PASS	T	43172102	T	T	43172102	2	4	4	1	0	0	0	0	0	0	0	1	4061	1103	39	1		1	CUL9	6	43172102	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	72287	43172102	127942965	1366	1957										
TTBK1	84630	broad.mit.edu	37	chr6	43250759	43250759	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaagaggaagaggaggagGaagaagaggaggaggaggaa	22	0	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:43250759G>A	uc003ouq.1	+	14	2560	c.2281G>A	c.(2281-2283)GAA>AAA	p.E761K		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	761	Glu-rich.|Potential.					cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			agaggaggaggaagaagagga	0.259													6	14	---	---	---	---	PASS	A	43250759	A	A	43250759	3	1	4	1	0	0	0	0	1	0	0	0	16673	1175	41	2	2331	2	TTBK1	6	43250759	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	78657	43250759	127864308	1367	1958										
ZNF318	24149	broad.mit.edu	37	chr6	43316338	43316338	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctttgtggccatccttctcCcttcgtttcttgcgcagcat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:43316338C>T	uc003oux.2	-	6	2874	c.2796G>A	c.(2794-2796)AGG>AGA	p.R932R	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	932	Potential.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			CATCCTTCTCCCTTCGTTTCT	0.443													18	28	---	---	---	---	PASS	T	43316338	T	T	43316338	2	4	4	1	0	0	0	0	0	0	0	1	17833	622	22	3		3	ZNF318	6	43316338	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	65579	43316338	127798729	1368	1959	68	2								
ZNF318	24149	broad.mit.edu	37	chr6	43316339	43316339	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttgtggccatccttctccCttcgtttcttgcgcagcatt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:43316339C>T	uc003oux.2	-	6	2873	c.2795G>A	c.(2794-2796)AGG>AAG	p.R932K	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	932	Potential.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			ATCCTTCTCCCTTCGTTTCTT	0.438													18	28	---	---	---	---	PASS	T	43316339	T	T	43316339	3	4	4	1	0	0	0	0	1	0	0	0	17833	681	24	3	4064	3	ZNF318	6	43316339	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	43316339	127798728	1369	1960	68	2								
GTPBP2	54676	broad.mit.edu	37	chr6	43592737	43592737	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgccaggtcgatgaaggtGatcatcttggagctgctctc	12	11	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:43592737G>A	uc003ovs.2	-	6	805	c.768C>T	c.(766-768)ATC>ATT	p.I256I	GTPBP2_uc010jyv.2_Silent_p.I168I|GTPBP2_uc003ovt.1_Silent_p.I256I	NM_019096	NP_061969	Q9BX10	GTPB2_HUMAN	GTP binding protein 2	256							GTP binding|GTPase activity			liver(1)|skin(1)	2	all_cancers(18;9.36e-06)|Lung NSC(15;0.00161)|all_lung(25;0.004)		all cancers(41;0.000501)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0826)|OV - Ovarian serous cystadenocarcinoma(102;0.167)			CGATGAAGGTGATCATCTTGG	0.592													18	40	---	---	---	---	PASS	A	43592737	A	A	43592737	2	1	4	1	0	0	0	0	0	0	0	1	6880	1280	45	2		2	GTPBP2	6	43592737	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	276398	43592737	127522330	1370	1961										
CAPN11	11131	broad.mit.edu	37	chr6	44150729	44150729	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggcaccttgaactcctatGagatgcgcctggttattgag	11	10	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:44150729G>A	uc003owt.1	+	20	2028	c.1990G>A	c.(1990-1992)GAG>AAG	p.E664K	CAPN11_uc011dvn.1_Intron	NM_007058	NP_008989	Q9UMQ6	CAN11_HUMAN	calpain 11	664	Domain IV.|2 (Potential).|EF-hand 2.				proteolysis	acrosomal vesicle	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)|breast(1)	2	all_cancers(18;3.19e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GAACTCCTATGAGATGCGCCT	0.537													6	18	---	---	---	---	PASS	A	44150729	A	A	44150729	3	1	4	1	0	0	0	0	1	0	0	0	2624	1291	45	2	2068	2	CAPN11	6	44150729	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	557992	44150729	126964338	1371	1962										
AARS2	57505	broad.mit.edu	37	chr6	44272836	44272836	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtagttgtacttggggctgtCgtcagttgggggcactcctt	15	8	1	0	rs146512155		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:44272836C>T	uc010jza.1	-	11	1537	c.1534G>A	c.(1534-1536)GAC>AAC	p.D512N	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	512					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	TTGGGGCTGTCGTCAGTTGGG	0.607											OREG0017473	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	38	61	---	---	---	---	PASS	T	44272836	T	T	44272836	3	4	4	1	0	0	0	0	1	0	0	0	20	884	31	2	1471	2	AARS2	6	44272836	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	122107	44272836	126842231	1372	1963										
RUNX2	860	broad.mit.edu	37	chr6	45515016	45515016	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaattctagtggcagaatgGatgaatctgtttggcgacca	12	6	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:45515016G>A	uc011dvx.1	+	9	1750	c.1540G>A	c.(1540-1542)GAT>AAT	p.D514N	RUNX2_uc011dvy.1_Missense_Mutation_p.D492N|RUNX2_uc003oxt.2_Missense_Mutation_p.D500N	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	514	Pro/Ser/Thr-rich.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						TGGCAGAATGGATGAATCTGT	0.443													21	36	---	---	---	---	PASS	A	45515016	A	A	45515016	3	1	4	1	0	0	0	0	1	0	0	0	13748	1174	41	2	1586	2	RUNX2	6	45515016	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1242180	45515016	125600051	1373	1964										
ENPP4	22875	broad.mit.edu	37	chr6	46107761	46107761	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtacccattcacgataccatCtcttcctattttatgaatta	3	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:46107761C>T	uc003oxy.2	+	2	700	c.441C>T	c.(439-441)ATC>ATT	p.I147I		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	147	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						ACGATACCATCTCTTCCTATT	0.413													30	81	---	---	---	---	PASS	T	46107761	T	T	46107761	2	4	4	1	0	0	0	0	0	0	0	1	5132	903	32	2		2	ENPP4	6	46107761	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	592745	46107761	125007306	1374	1965										
ENPP4	22875	broad.mit.edu	37	chr6	46107950	46107950	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcagagtgttgaaaaaaatAgatgatcttatcggtgactt	10	4	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:46107950A>G	uc003oxy.2	+	2	889	c.630A>G	c.(628-630)ATA>ATG	p.I210M		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	210	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						TGAAAAAAATAGATGATCTTA	0.398													28	72	---	---	---	---	PASS	G	46107950	G	G	46107950	3	3	4	1	0	0	0	0	1	0	0	0	5132	410	15	5	632	5	ENPP4	6	46107950	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	189	46107950	125007117	1375	1966										
ENPP4	22875	broad.mit.edu	37	chr6	46111176	46111176	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaccacatcccaataatggGacctttggtcatactaagtg	7	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:46111176G>A	uc003oxy.2	+	4	1420	c.1161G>A	c.(1159-1161)GGG>GGA	p.G387G		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	387	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						CCAATAATGGGACCTTTGGTC	0.423													30	55	---	---	---	---	PASS	A	46111176	A	A	46111176	2	1	4	1	0	0	0	0	0	0	0	1	5132	1161	41	2		2	ENPP4	6	46111176	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	3226	46111176	125003891	1376	1967										
GPR116	221395	broad.mit.edu	37	chr6	46826469	46826469	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgaccagaagggaggcagcGatattcactatgcaggtgtg	15	8	1	1	rs151037028		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:46826469G>A	uc003oyo.3	-	17	3460	c.3171C>T	c.(3169-3171)ATC>ATT	p.I1057I	GPR116_uc011dwj.1_Silent_p.I612I|GPR116_uc011dwk.1_Silent_p.I486I|GPR116_uc003oyp.3_Silent_p.I915I|GPR116_uc003oyq.3_Silent_p.I1057I|GPR116_uc010jzi.1_Silent_p.I729I	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	1057	Helical; Name=2; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity	p.I1057I(1)		central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			GGGAGGCAGCGATATTCACTA	0.537													16	27	---	---	---	---	PASS	A	46826469	A	A	46826469	2	1	4	1	0	0	0	0	0	0	0	1	6633	1048	37	2		2	GPR116	6	46826469	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	715293	46826469	124288598	1377	1968										
GPR116	221395	broad.mit.edu	37	chr6	46826629	46826629	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtattcccaggagagaactaGgatctggggagtcaggggac	16	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:46826629G>A	uc003oyo.3	-	17	3300	c.3011C>T	c.(3010-3012)CCT>CTT	p.P1004L	GPR116_uc011dwj.1_Missense_Mutation_p.P559L|GPR116_uc011dwk.1_Missense_Mutation_p.P433L|GPR116_uc003oyp.3_Missense_Mutation_p.P862L|GPR116_uc003oyq.3_Missense_Mutation_p.P1004L|GPR116_uc010jzi.1_Missense_Mutation_p.P676L	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	1004	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			GAGAGAACTAGGATCTGGGGA	0.488													8	32	---	---	---	---	PASS	A	46826629	A	A	46826629	3	1	4	1	0	0	0	0	1	0	0	0	6633	1000	35	3	1049	3	GPR116	6	46826629	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	160	46826629	124288438	1378	1969										
GPR116	221395	broad.mit.edu	37	chr6	46826655	46826655	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggagtcaggggacatgagGatggagaatgatgttaggtg	20	2	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:46826655G>A	uc003oyo.3	-	17	3274	c.2985C>T	c.(2983-2985)ATC>ATT	p.I995I	GPR116_uc011dwj.1_Silent_p.I550I|GPR116_uc011dwk.1_Silent_p.I424I|GPR116_uc003oyp.3_Silent_p.I853I|GPR116_uc003oyq.3_Silent_p.I995I|GPR116_uc010jzi.1_Silent_p.I667I	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	995	GPS.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			GGGACATGAGGATGGAGAATG	0.502													9	28	---	---	---	---	PASS	A	46826655	A	A	46826655	2	1	4	1	0	0	0	0	0	0	0	1	6633	1164	41	2		2	GPR116	6	46826655	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	26	46826655	124288412	1379	1970										
TNFRSF21	27242	broad.mit.edu	37	chr6	47253992	47253992	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacaggacacaccgtatgggGggcacaggtagcgttagact	14	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:47253992G>A	uc003oyv.2	-	2	869	c.436C>T	c.(436-438)CCC>TCC	p.P146S		NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,	146	Extracellular (Potential).|TNFR-Cys 3.				cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)			ACCGTATGGGGGGCACAGGTA	0.547													47	94	---	---	---	---	PASS	A	47253992	A	A	47253992	3	1	4	1	0	0	0	0	1	0	0	0	16292	1232	43	3	1551	3	TNFRSF21	6	47253992	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	427337	47253992	123861075	1380	1971										
C6orf138	442213	broad.mit.edu	37	chr6	47847666	47847666	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctcaaacactcctttagttCcatgacctaatgttttaaaa	4	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:47847666C>T	uc011dwm.1	-	3	948	c.863G>A	c.(862-864)GGA>GAA	p.G288E	C6orf138_uc011dwn.1_Missense_Mutation_p.G52E	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	305	Helical; (Potential).|SSD.					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						TCCTTTAGTTCCATGACCTAA	0.363													6	10	---	---	---	---	PASS	T	47847666	T	T	47847666	3	4	4	1	0	0	0	0	1	0	0	0	2332	855	30	2	1630	2	C6orf138	6	47847666	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	593674	47847666	123267401	1381	1972										
RHAG	6005	broad.mit.edu	37	chr6	49586917	49586917	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattccaatgttaaatttctGtccctggctttgcaggattc	8	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:49586917G>T	uc003ozk.3	-	2	378	c.316C>A	c.(316-318)CAG>AAG	p.Q106K	RHAG_uc010jzl.2_Missense_Mutation_p.Q106K|RHAG_uc010jzm.2_Missense_Mutation_p.Q106K	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein	106	Extracellular (Potential).				carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					TTAAATTTCTGTCCCTGGCTT	0.318													21	35	---	---	---	---	PASS	T	49586917	T	T	49586917	3	4	4	1	0	0	0	0	1	0	0	0	13315	1386	48	3	949	3	RHAG	6	49586917	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1739251	49586917	121528150	1382	1973										
PKHD1	5314	broad.mit.edu	37	chr6	51524180	51524180	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taagaagttagttagtctttCgagtattactatttcccagc	7	7	1	1	rs148300854		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:51524180C>T	uc003pah.1	-	61	11020	c.10744G>A	c.(10744-10746)GAA>AAA	p.E3582K		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3582	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GTTAGTCTTTCGAGTATTACT	0.438													21	35	---	---	---	---	PASS	T	51524180	T	T	51524180	3	4	4	1	0	0	0	0	1	0	0	0	11971	893	31	2	1508	2	PKHD1	6	51524180	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1937263	51524180	119590887	1383	1974										
IL17F	112744	broad.mit.edu	37	chr6	52101843	52101843	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcctccggacgaccagggtCtcttgctggatgggaacgga	14	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:52101843C>T	uc003pam.1	-	3	449	c.378G>A	c.(376-378)GAG>GAA	p.E126E	IL17F_uc003pal.1_Silent_p.E72E	NM_052872	NP_443104	Q96PD4	IL17F_HUMAN	interleukin 17F precursor	126					cartilage development|inflammatory response|lymphotoxin A biosynthetic process|negative regulation of angiogenesis|proteoglycan metabolic process|regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|regulation of interleukin-2 biosynthetic process|regulation of interleukin-6 biosynthetic process|regulation of interleukin-8 biosynthetic process|regulation of transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|cytokine binding|protein homodimerization activity			ovary(1)	1	Lung NSC(77;0.116)					CGACCAGGGTCTCTTGCTGGA	0.552													15	36	---	---	---	---	PASS	T	52101843	T	T	52101843	2	4	4	1	0	0	0	0	0	0	0	1	7638	912	32	2		2	IL17F	6	52101843	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	577663	52101843	119013224	1384	1975										
TRAM2	9697	broad.mit.edu	37	chr6	52370924	52370924	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcagcaagatcaggcccaGgcggctcaggctgggggtgg	18	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:52370924G>A	uc003paq.2	-	8	786	c.637C>T	c.(637-639)CTG>TTG	p.L213L	EFHC1_uc011dwv.1_Intron|TRAM2_uc003par.1_RNA	NM_012288	NP_036420	Q15035	TRAM2_HUMAN	translocation-associated membrane protein 2	213	TLC.|Helical; (Potential).				collagen biosynthetic process|protein transport|transmembrane transport	integral to membrane	protein binding				0	Lung NSC(77;0.109)					ATCAGGCCCAGGCGGCTCAGG	0.537													21	30	---	---	---	---	PASS	A	52370924	A	A	52370924	2	1	4	1	0	0	0	0	0	0	0	1	16450	991	35	3		3	TRAM2	6	52370924	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	269081	52370924	118744143	1385	1976										
GFRAL	389400	broad.mit.edu	37	chr6	55214924	55214924	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gataaattcaaatggaatctAactacacgttcccatcatgg	6	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:55214924A>C	uc003pcm.1	+	4	437	c.351A>C	c.(349-351)CTA>CTC	p.L117L		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	117	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			AATGGAATCTAACTACACGTT	0.299													8	21	---	---	---	---	PASS	C	55214924	C	C	55214924	2	2	4	1	0	0	0	0	0	0	0	1	6351	349	13	5		5	GFRAL	6	55214924	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	2844000	55214924	115900143	1386	1977										
GFRAL	389400	broad.mit.edu	37	chr6	55223928	55223928	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcacatgcttcatagaaaatCatgtttcagtaagttcccca	6	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:55223928C>T	uc003pcm.1	+	6	1030	c.944C>T	c.(943-945)TCA>TTA	p.S315L		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	315	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			CATAGAAAATCATGTTTCAGT	0.284													19	27	---	---	---	---	PASS	T	55223928	T	T	55223928	3	4	4	1	0	0	0	0	1	0	0	0	6351	838	29	2	966	2	GFRAL	6	55223928	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	9004	55223928	115891139	1387	1978										
HMGCLL1	54511	broad.mit.edu	37	chr6	55406863	55406863	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgatgtaaaactaccttttCattctgcaatccatccctag	4	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:55406863C>T	uc003pcn.2	-	3	433	c.274G>A	c.(274-276)GAA>AAA	p.E92K	HMGCLL1_uc003pco.2_Missense_Mutation_p.E62K|HMGCLL1_uc010jzx.2_5'UTR|HMGCLL1_uc011dxc.1_Missense_Mutation_p.E62K|HMGCLL1_uc011dxd.1_Missense_Mutation_p.E62K|HMGCLL1_uc011dxe.1_Missense_Mutation_p.E62K|HMGCLL1_uc003pcp.2_Missense_Mutation_p.E62K	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	92							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			ACTACCTTTTCATTCTGCAAT	0.313													5	15	---	---	---	---	PASS	T	55406863	T	T	55406863	3	4	4	1	0	0	0	0	1	0	0	0	7230	835	29	2	870	2	HMGCLL1	6	55406863	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	182935	55406863	115708204	1388	1979										
DST	667	broad.mit.edu	37	chr6	56368827	56368827	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatctgctgcttgacagtttCgagatctgttccaattggag	10	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:56368827C>T	uc003pdf.2	-	72	13205	c.13177G>A	c.(13177-13179)GAA>AAA	p.E4393K	DST_uc003pcz.3_Missense_Mutation_p.E4215K|DST_uc011dxj.1_Missense_Mutation_p.E4244K|DST_uc011dxk.1_Missense_Mutation_p.E4255K|DST_uc003pcy.3_Missense_Mutation_p.E3889K	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6301	Spectrin 14.				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)			TTGACAGTTTCGAGATCTGTT	0.418													16	37	---	---	---	---	PASS	T	56368827	T	T	56368827	3	4	4	1	0	0	0	0	1	0	0	0	4783	893	31	2	3954	2	DST	6	56368827	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	961964	56368827	114746240	1389	1980										
KIAA1586	57691	broad.mit.edu	37	chr6	56917868	56917868	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggattgcatatttagtaaccCctaatggcagtaataaaact							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:56917868C>T	uc003pdj.2	+	4	741	c.571C>T	c.(571-573)CCT>TCT	p.P191S	KIAA1586_uc011dxm.1_Missense_Mutation_p.P164S	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	191							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TTTAGTAACCCCTAATGGCAG	0.368													15	44	---	---	---	---	PASS	T	56917868	T	T	56917868	3	4	4	1	0	0	0	0	1	0	0	0	8245	623	22	3	585	3	KIAA1586	6	56917868	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	549041	56917868	114197199	1390	1981	69	2								
KIAA1586	57691	broad.mit.edu	37	chr6	56917869	56917869	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattgcatatttagtaacccCtaatggcagtaataaaacta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:56917869C>T	uc003pdj.2	+	4	742	c.572C>T	c.(571-573)CCT>CTT	p.P191L	KIAA1586_uc011dxm.1_Missense_Mutation_p.P164L	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	191							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TTAGTAACCCCTAATGGCAGT	0.373													15	46	---	---	---	---	PASS	T	56917869	T	T	56917869	3	4	4	1	0	0	0	0	1	0	0	0	8245	681	24	3	586	3	KIAA1586	6	56917869	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	56917869	114197198	1391	1982	69	2								
PRIM2	5558	broad.mit.edu	37	chr6	57512508	57512508	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttctttgaatcatcctaatCatttcttttgtgagagccaa	5	8	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:57512508C>T	uc003pdx.2	+	15	1423	c.1336C>T	c.(1336-1338)CAG>TAG	p.Q446*		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	446					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		TCATCCTAATCATTTCTTTTG	0.353													23	115	---	---	---	---	PASS	T	57512508	T	T	57512508	4	4	4	1	0	0	0	0	0	1	0	0	12491	826	29	2	1386	2	PRIM2	6	57512508	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	594639	57512508	113602559	1392	1983										
PRIM2	5558	broad.mit.edu	37	chr6	57512648	57512648	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctctggcctctttaaattcCtctctggaaatggatatgga	9	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:57512648C>T	uc003pdx.2	+	15	1563	c.1476C>T	c.(1474-1476)TCC>TCT	p.S492S		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	492					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		CTTTAAATTCCTCTCTGGAAA	0.398													54	432	---	---	---	---	PASS	T	57512648	T	T	57512648	2	4	4	1	0	0	0	0	0	0	0	1	12491	668	24	3		3	PRIM2	6	57512648	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	140	57512648	113602419	1393	1984										
KHDRBS2	202559	broad.mit.edu	37	chr6	62442587	62442587	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttagatagcaaatgccttacCtttgtgtttgggtcgcatag	10	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:62442587C>T	uc003peg.2	-	7	1140	c.893G>A	c.(892-894)AGT>AAT	p.S298N		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	298					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		AATGCCTTACCTTTGTGTTTG	0.373													28	47	---	---	---	---	PASS	T	62442587	T	T	62442587	3	4	4	1	0	0	0	0	1	0	0	0	8147	695	24	3	168	3	KHDRBS2	6	62442587	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4929939	62442587	108672480	1394	1985										
KHDRBS2	202559	broad.mit.edu	37	chr6	62611264	62611264	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagttgttcctgacgaatttCatcattgtagtcctggagaa	9	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:62611264C>T	uc003peg.2	-	5	743	c.496G>A	c.(496-498)GAA>AAA	p.E166K		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	166					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		TGACGAATTTCATCATTGTAG	0.398													15	47	---	---	---	---	PASS	T	62611264	T	T	62611264	3	4	4	1	0	0	0	0	1	0	0	0	8147	835	29	2	573	2	KHDRBS2	6	62611264	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	168677	62611264	108503803	1395	1986										
LGSN	51557	broad.mit.edu	37	chr6	63990524	63990524	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gactatgagacaaaatccctGaatcacaaaatccagtctca	5	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:63990524G>A	uc003peh.2	-	4	966	c.932C>T	c.(931-933)TCA>TTA	p.S311L	LGSN_uc003pei.2_Intron	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	311					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	CAAAATCCCTGAATCACAAAA	0.418													22	39	---	---	---	---	PASS	A	63990524	A	A	63990524	3	1	4	1	0	0	0	0	1	0	0	0	8759	1294	45	2	601	2	LGSN	6	63990524	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1379260	63990524	107124543	1396	1987										
PHF3	23469	broad.mit.edu	37	chr6	64394342	64394342	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attagattctaagcataagtGtaataatccgggagaaatag	9	4	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:64394342G>A	uc003pep.1	+	3	745	c.719G>A	c.(718-720)TGT>TAT	p.C240Y	PHF3_uc010kaf.1_Missense_Mutation_p.C240Y|PHF3_uc003pem.2_Missense_Mutation_p.C193Y|PHF3_uc010kag.1_Missense_Mutation_p.C152Y|PHF3_uc010kah.1_Missense_Mutation_p.C54Y|PHF3_uc003pen.2_Missense_Mutation_p.C152Y|PHF3_uc011dxs.1_Intron|PHF3_uc003peo.2_Missense_Mutation_p.C240Y	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	240					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			AAGCATAAGTGTAATAATCCG	0.348													28	57	---	---	---	---	PASS	A	64394342	A	A	64394342	3	1	4	1	0	0	0	0	1	0	0	0	11836	1377	48	3	729	3	PHF3	6	64394342	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	403818	64394342	106720725	1397	1988										
COL19A1	1310	broad.mit.edu	37	chr6	70637811	70637811	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctcccacagtaagatatttCccaaaggccttcctgaggag	8	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:70637811C>T	uc003pfc.1	+	5	394	c.277C>T	c.(277-279)CCC>TCC	p.P93S	COL19A1_uc010kam.1_5'UTR	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	93	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TAAGATATTTCCCAAAGGCCT	0.413													20	55	---	---	---	---	PASS	T	70637811	T	T	70637811	3	4	4	1	0	0	0	0	1	0	0	0	3676	855	30	2	291	2	COL19A1	6	70637811	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6243469	70637811	100477256	1398	1989										
COL19A1	1310	broad.mit.edu	37	chr6	70639419	70639419	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttagaaatcgagaactccgtCctttgtttgatcgtcagtgg					rs112596596	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:70639419C>T	uc003pfc.1	+	6	610	c.493C>T	c.(493-495)CCT>TCT	p.P165S	COL19A1_uc010kam.1_Missense_Mutation_p.P61S	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	165	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						AGAACTCCGTCCTTTGTTTGA	0.393													13	35	---	---	---	---	PASS	T	70639419	T	T	70639419	3	4	4	1	0	0	0	0	1	0	0	0	3676	855	30	2	511	2	COL19A1	6	70639419	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1608	70639419	100475648	1399	1990	70	2								
COL19A1	1310	broad.mit.edu	37	chr6	70639420	70639420	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagaaatcgagaactccgtcCtttgtttgatcgtcagtggc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:70639420C>T	uc003pfc.1	+	6	611	c.494C>T	c.(493-495)CCT>CTT	p.P165L	COL19A1_uc010kam.1_Missense_Mutation_p.P61L	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	165	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						GAACTCCGTCCTTTGTTTGAT	0.393													13	35	---	---	---	---	PASS	T	70639420	T	T	70639420	3	4	4	1	0	0	0	0	1	0	0	0	3676	681	24	3	512	3	COL19A1	6	70639420	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	70639420	100475647	1400	1991	70	2								
COL9A1	1297	broad.mit.edu	37	chr6	70935639	70935639	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatacaacacacttacctggGagacctatagctccaggcaa	7	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:70935639G>A	uc003pfg.3	-	37	2736	c.2577C>T	c.(2575-2577)CTC>CTT	p.L859L	COL9A1_uc003pfe.3_Silent_p.L408L|COL9A1_uc003pff.3_Silent_p.L616L	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	859	Triple-helical region (COL1).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						ACTTACCTGGGAGACCTATAG	0.423													17	41	---	---	---	---	PASS	A	70935639	A	A	70935639	2	1	4	1	0	0	0	0	0	0	0	1	3707	1161	41	2		2	COL9A1	6	70935639	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	296219	70935639	100179428	1401	1992										
SMAP1	60682	broad.mit.edu	37	chr6	71567878	71567878	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgggacaaatgggtgcaccCcagagtaagtttggcctgcc	14	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:71567878C>T	uc003pfr.2	+	10	1463	c.1215C>T	c.(1213-1215)CCC>CCT	p.P405P	SMAP1_uc003pfs.2_Silent_p.P378P|SMAP1_uc010kao.2_Silent_p.P378P|SMAP1_uc010kap.2_Silent_p.P395P	NM_001044305	NP_001037770	Q8IYB5	SMAP1_HUMAN	stromal membrane-associated GTPase-activating	405					regulation of ARF GTPase activity	plasma membrane	ARF GTPase activator activity|zinc ion binding				0						TGGGTGCACCCCAGAGTAAGT	0.522													13	25	---	---	---	---	PASS	T	71567878	T	T	71567878	2	4	4	1	0	0	0	0	0	0	0	1	14766	610	22	3		3	SMAP1	6	71567878	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	632239	71567878	99547189	1402	1993										
RIMS1	22999	broad.mit.edu	37	chr6	72957740	72957740	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaagttcctttgaatctcaGaagatggaaaggccttccat	8	9	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:72957740G>A	uc003pga.2	+	12	2228	c.2151G>A	c.(2149-2151)CAG>CAA	p.Q717Q	RIMS1_uc011dyb.1_Silent_p.Q343Q|RIMS1_uc003pgc.2_Silent_p.Q343Q|RIMS1_uc010kaq.2_Silent_p.Q191Q|RIMS1_uc011dyc.1_Silent_p.Q191Q|RIMS1_uc010kar.2_Silent_p.Q110Q|RIMS1_uc011dyd.1_Silent_p.Q176Q|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_Silent_p.Q343Q|RIMS1_uc010kas.1_Silent_p.Q176Q	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	717					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)				TTGAATCTCAGAAGATGGAAA	0.328													20	39	---	---	---	---	PASS	A	72957740	A	A	72957740	2	1	4	1	0	0	0	0	0	0	0	1	13367	933	33	2		2	RIMS1	6	72957740	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1389862	72957740	98157327	1403	1994										
RIMS1	22999	broad.mit.edu	37	chr6	72968786	72968786	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcatagaaccagagatgtgGatagtcagtatttatcagaa	9	5	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:72968786G>A	uc003pga.2	+	18	3102	c.3025G>A	c.(3025-3027)GAT>AAT	p.D1009N	RIMS1_uc011dyb.1_Missense_Mutation_p.D634N|RIMS1_uc003pgc.2_Missense_Mutation_p.D635N|RIMS1_uc010kaq.2_Missense_Mutation_p.D482N|RIMS1_uc011dyc.1_Missense_Mutation_p.D483N|RIMS1_uc010kar.2_Missense_Mutation_p.D402N|RIMS1_uc011dyd.1_Missense_Mutation_p.D468N|RIMS1_uc003pgf.2_Missense_Mutation_p.D225N|RIMS1_uc003pgg.2_Missense_Mutation_p.D226N|RIMS1_uc003pgi.2_Missense_Mutation_p.D225N|RIMS1_uc003pgh.2_Missense_Mutation_p.D225N|RIMS1_uc003pgd.2_Missense_Mutation_p.D226N|RIMS1_uc003pge.2_Missense_Mutation_p.D226N|RIMS1_uc011dye.1_5'UTR|RIMS1_uc011dyf.1_5'Flank|RIMS1_uc003pgb.3_Missense_Mutation_p.D635N|RIMS1_uc010kas.1_Missense_Mutation_p.D468N	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1009					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)				CAGAGATGTGGATAGTCAGTA	0.363													33	34	---	---	---	---	PASS	A	72968786	A	A	72968786	3	1	4	1	0	0	0	0	1	0	0	0	13367	1174	41	2	3258	2	RIMS1	6	72968786	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	11046	72968786	98146281	1404	1995										
RIMS1	22999	broad.mit.edu	37	chr6	73108740	73108740	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgcacgaaaaacccttgatCctttgtatcagcagtctctg	7	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:73108740C>T	uc003pga.2	+	33	4881	c.4804C>T	c.(4804-4806)CCT>TCT	p.P1602S	RIMS1_uc011dyb.1_Missense_Mutation_p.P999S|RIMS1_uc003pgc.2_Missense_Mutation_p.P1017S|RIMS1_uc010kaq.2_Missense_Mutation_p.P922S|RIMS1_uc011dyc.1_Missense_Mutation_p.P727S|RIMS1_uc010kar.2_Missense_Mutation_p.P670S|RIMS1_uc011dyd.1_Missense_Mutation_p.P736S|RIMS1_uc003pgf.2_Missense_Mutation_p.P602S|RIMS1_uc003pgg.2_Missense_Mutation_p.P498S|RIMS1_uc003pgi.2_Missense_Mutation_p.P418S|RIMS1_uc003pgh.2_Missense_Mutation_p.P469S|RIMS1_uc003pgd.2_Missense_Mutation_p.P668S|RIMS1_uc003pge.2_Missense_Mutation_p.P642S|RIMS1_uc011dye.1_Missense_Mutation_p.P408S|RIMS1_uc011dyf.1_Missense_Mutation_p.P226S|RIMS1_uc011dyg.1_Missense_Mutation_p.P129S	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1602	C2 2.				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)				AACCCTTGATCCTTTGTATCA	0.363													22	40	---	---	---	---	PASS	T	73108740	T	T	73108740	3	4	4	1	0	0	0	0	1	0	0	0	13367	855	30	2	5097	2	RIMS1	6	73108740	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	139954	73108740	98006327	1405	1996										
KCNQ5	56479	broad.mit.edu	37	chr6	73713679	73713679	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtcagtgttttctaccatCcctgagcacacaaaattggc	7	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:73713679C>T	uc003pgk.2	+	2	794	c.447C>T	c.(445-447)ATC>ATT	p.I149I	KCNQ5_uc003pgj.3_Silent_p.I149I|KCNQ5_uc011dyh.1_Silent_p.I149I|KCNQ5_uc011dyi.1_Silent_p.I149I|KCNQ5_uc010kat.2_Silent_p.I149I|KCNQ5_uc011dyj.1_Silent_p.I149I|KCNQ5_uc011dyk.1_5'UTR	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	149					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		TTTCTACCATCCCTGAGCACA	0.363													18	37	---	---	---	---	PASS	T	73713679	T	T	73713679	2	4	4	1	0	0	0	0	0	0	0	1	8086	845	30	2		2	KCNQ5	6	73713679	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	604939	73713679	97401388	1406	1997										
KCNQ5	56479	broad.mit.edu	37	chr6	73787531	73787531	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttttggttcttattttttCgtctttccttgtctatctgg	6	7	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:73787531C>T	uc003pgk.2	+	5	1186	c.839C>T	c.(838-840)TCG>TTG	p.S280L	KCNQ5_uc003pgj.3_Missense_Mutation_p.S280L|KCNQ5_uc011dyh.1_Missense_Mutation_p.S280L|KCNQ5_uc011dyi.1_Missense_Mutation_p.S280L|KCNQ5_uc010kat.2_Missense_Mutation_p.S280L|KCNQ5_uc011dyj.1_Missense_Mutation_p.S280L|KCNQ5_uc011dyk.1_Missense_Mutation_p.S39L	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	280	Helical; Name=Segment S5; (Potential).				protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CTTATTTTTTCGTCTTTCCTT	0.338													13	17	---	---	---	---	PASS	T	73787531	T	T	73787531	3	4	4	1	0	0	0	0	1	0	0	0	8086	893	31	2	857	2	KCNQ5	6	73787531	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	73852	73787531	97327536	1407	1998										
CD109	135228	broad.mit.edu	37	chr6	74477809	74477809	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggacagttggtggctgtagGaaaacaaaattcaacaatgt	12	5	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:74477809G>A	uc003php.2	+	14	1954	c.1529G>A	c.(1528-1530)GGA>GAA	p.G510E	CD109_uc010kaz.2_Missense_Mutation_p.G510E|CD109_uc003phq.2_Missense_Mutation_p.G510E|CD109_uc010kba.2_Missense_Mutation_p.G433E	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	510						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						GTGGCTGTAGGAAAACAAAAT	0.358													15	35	---	---	---	---	PASS	A	74477809	A	A	74477809	3	1	4	1	0	0	0	0	1	0	0	0	2963	1174	41	2	1583	2	CD109	6	74477809	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	690278	74477809	96637258	1408	1999										
FILIP1	27145	broad.mit.edu	37	chr6	76023417	76023417	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acttttagcttcttccaaccGaaatctgtgtctcagttcag	6	11	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:76023417G>A	uc003pia.2	-	5	2504	c.2131C>T	c.(2131-2133)CGG>TGG	p.R711W	FILIP1_uc003phy.1_Missense_Mutation_p.R711W|FILIP1_uc003phz.2_Missense_Mutation_p.R612W|FILIP1_uc010kbe.2_Missense_Mutation_p.R714W|FILIP1_uc003pib.1_Missense_Mutation_p.R463W	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	711	Potential.									skin(3)|ovary(1)	4						TCTTCCAACCGAAATCTGTGT	0.413													41	93	---	---	---	---	PASS	A	76023417	A	A	76023417	3	1	4	1	0	0	0	0	1	0	0	0	5894	1057	37	2	1518	2	FILIP1	6	76023417	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1545608	76023417	95091650	1409	2000										
FILIP1	27145	broad.mit.edu	37	chr6	76023520	76023520	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctctagttgttgagagagGaagttagccttatcctgctc	10	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:76023520G>A	uc003pia.2	-	5	2401	c.2028C>T	c.(2026-2028)TTC>TTT	p.F676F	FILIP1_uc003phy.1_Silent_p.F676F|FILIP1_uc003phz.2_Silent_p.F577F|FILIP1_uc010kbe.2_Silent_p.F679F|FILIP1_uc003pib.1_Silent_p.F428F	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	676	Potential.									skin(3)|ovary(1)	4						GTTGAGAGAGGAAGTTAGCCT	0.433													43	115	---	---	---	---	PASS	A	76023520	A	A	76023520	2	1	4	1	0	0	0	0	0	0	0	1	5894	1165	41	2		2	FILIP1	6	76023520	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	103	76023520	95091547	1410	2001										
MYO6	4646	broad.mit.edu	37	chr6	76589588	76589588	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggttacccatcacgagcttCatttcatgaactctacaaca	5	12	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:76589588C>T	uc003pih.1	+	21	2408	c.2129C>T	c.(2128-2130)TCA>TTA	p.S710L	MYO6_uc003pig.1_Missense_Mutation_p.S710L|MYO6_uc003pii.1_Missense_Mutation_p.S710L	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	710	Myosin head-like.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		TCACGAGCTTCATTTCATGAA	0.408													26	44	---	---	---	---	PASS	T	76589588	T	T	76589588	3	4	4	1	0	0	0	0	1	0	0	0	10081	838	29	2	2207	2	MYO6	6	76589588	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	566068	76589588	94525479	1411	2002										
LCA5	167691	broad.mit.edu	37	chr6	80201433	80201433	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtacacaggtctgcaaaatCactctggcatgcagctacag	9	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:80201433C>T	uc003pix.2	-	6	1405	c.970G>A	c.(970-972)GAT>AAT	p.D324N	LCA5_uc003piy.2_Missense_Mutation_p.D324N|LCA5_uc011dyq.1_RNA	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	324					protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		TCTGCAAAATCACTCTGGCAT	0.299													22	73	---	---	---	---	PASS	T	80201433	T	T	80201433	3	4	4	1	0	0	0	0	1	0	0	0	8656	826	29	2	1135	2	LCA5	6	80201433	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3611845	80201433	90913634	1412	2003										
ME1	4199	broad.mit.edu	37	chr6	83921765	83921765	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatgcttctttgttttgcgGttcaggataaactgtggctg	11	6	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:83921765G>A	uc003pjy.2	-	14	1703	c.1597C>T	c.(1597-1599)CCG>TCG	p.P533S	ME1_uc011dzb.1_Missense_Mutation_p.P458S|ME1_uc011dzc.1_Missense_Mutation_p.P367S	NM_002395	NP_002386	P48163	MAOX_HUMAN	cytosolic malic enzyme 1	533					carbohydrate metabolic process|cellular lipid metabolic process|malate metabolic process|NADP biosynthetic process|response to carbohydrate stimulus|response to hormone stimulus	cytosol	ADP binding|electron carrier activity|malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|manganese ion binding|NAD binding|NADP binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;1.28e-06)|Acute lymphoblastic leukemia(125;5.03e-07)|all_hematologic(105;0.000238)|all_epithelial(107;0.00218)		BRCA - Breast invasive adenocarcinoma(397;0.0641)	NADH(DB00157)	TTGTTTTGCGGTTCAGGATAA	0.343													19	43	---	---	---	---	PASS	A	83921765	A	A	83921765	3	1	4	1	0	0	0	0	1	0	0	0	9417	1261	44	3	125	3	ME1	6	83921765	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3720332	83921765	87193302	1413	2004										
TBX18	9096	broad.mit.edu	37	chr6	85446757	85446757	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggagctggggggacattccCgaaatctgcatggataagct	14	8	1	0	rs139629340	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:85446757C>A	uc003pkl.1	-	8	1470	c.1470G>T	c.(1468-1470)TCG>TCT	p.S490S	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	490					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		GGGACATTCCCGAAATCTGCA	0.532													5	136	---	---	---	---	PASS	A	85446757	A	A	85446757	2	1	4	1	0	0	0	0	0	0	0	1	15650	639	23	1		1	TBX18	6	85446757	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1524992	85446757	85668310	1414	2005										
SNX14	57231	broad.mit.edu	37	chr6	86227558	86227558	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagactcacaagaattaatGaaattcatgataaaaggttc	8	5	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:86227558G>A	uc003pkr.2	-	23	2377	c.2184C>T	c.(2182-2184)TTC>TTT	p.F728F	SNX14_uc003pkp.2_Silent_p.F591F|SNX14_uc003pkq.2_Silent_p.F334F|SNX14_uc011dzg.1_Silent_p.F676F|SNX14_uc003pks.2_Silent_p.F675F|SNX14_uc003pkt.2_Silent_p.F719F	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a	728					cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		AAGAATTAATGAAATTCATGA	0.343													12	36	---	---	---	---	PASS	A	86227558	A	A	86227558	2	1	4	1	0	0	0	0	0	0	0	1	14885	1281	45	2		2	SNX14	6	86227558	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	780801	86227558	84887509	1415	2006										
SNX14	57231	broad.mit.edu	37	chr6	86256914	86256914	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaataaaagatcttgttgctCtctgatttgcttcaattcta	5	7	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:86256914C>T	uc003pkr.2	-	12	1217	c.1024G>A	c.(1024-1026)GAG>AAG	p.E342K	SNX14_uc003pkp.2_Missense_Mutation_p.E205K|SNX14_uc003pkq.2_5'UTR|SNX14_uc011dzg.1_Missense_Mutation_p.E290K|SNX14_uc003pks.2_Missense_Mutation_p.E298K|SNX14_uc003pkt.2_Missense_Mutation_p.E342K	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a	342	RGS.				cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		TCTTGTTGCTCTCTGATTTGC	0.348													11	29	---	---	---	---	PASS	T	86256914	T	T	86256914	3	4	4	1	0	0	0	0	1	0	0	0	14885	922	32	2	1888	2	SNX14	6	86256914	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	29356	86256914	84858153	1416	2007										
SPACA1	81833	broad.mit.edu	37	chr6	88773909	88773909	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttatctgtgtatttataattTtcttattgatcttcataatc	3	5	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:88773909T>G	uc003pmn.2	+	6	820	c.703T>G	c.(703-705)TTC>GTC	p.F235V		NM_030960	NP_112222	Q9HBV2	SACA1_HUMAN	sperm acrosome associated 1 precursor	235	Helical; (Potential).					integral to membrane					0		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.11)		ATTTATAATTTTCTTATTGAT	0.388													24	38	---	---	---	---	PASS	G	88773909	G	G	88773909	3	3	4	1	0	0	0	0	1	0	0	0	14972	1841	64	5	725	5	SPACA1	6	88773909	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	2516995	88773909	82341158	1417	2008										
MDN1	23195	broad.mit.edu	37	chr6	90420499	90420499	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcagcactggcttccaaatGaatttgtatggactctgtgg	11	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:90420499G>A	uc003pnn.1	-	50	7782	c.7666C>T	c.(7666-7668)CAT>TAT	p.H2556Y		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2556					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)		GCTTCCAAATGAATTTGTATG	0.303													11	10	---	---	---	---	PASS	A	90420499	A	A	90420499	3	1	4	1	0	0	0	0	1	0	0	0	9415	1290	45	2	9336	2	MDN1	6	90420499	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1646590	90420499	80694568	1418	2009										
MDN1	23195	broad.mit.edu	37	chr6	90450000	90450000	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttcatggttgctagaatacGaaattttttcccagcagtca	8	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:90450000G>A	uc003pnn.1	-	32	4662	c.4546C>T	c.(4546-4548)CGT>TGT	p.R1516C		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1516					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)		GCTAGAATACGAAATTTTTTC	0.408													17	52	---	---	---	---	PASS	A	90450000	A	A	90450000	3	1	4	1	0	0	0	0	1	0	0	0	9415	1058	37	2	12528	2	MDN1	6	90450000	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	29501	90450000	80665067	1419	2010										
MDN1	23195	broad.mit.edu	37	chr6	90499892	90499892	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattaccttactgtcagtctGatctccaagctggactttga	7	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:90499892G>A	uc003pnn.1	-	6	1200	c.1084C>T	c.(1084-1086)CAG>TAG	p.Q362*	MDN1_uc003pnp.1_Nonsense_Mutation_p.Q362*	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	362					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)		CTGTCAGTCTGATCTCCAAGC	0.378													41	73	---	---	---	---	PASS	A	90499892	A	A	90499892	4	1	4	1	0	0	0	0	0	1	0	0	9415	1299	45	2	16094	2	MDN1	6	90499892	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	49892	90499892	80615175	1420	2011										
GJA10	84694	broad.mit.edu	37	chr6	90605530	90605530	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatctgcacagtgactcagGaagctctggttctcggaata	10	10	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:90605530G>A	uc011eaa.1	+	1	1343	c.1343G>A	c.(1342-1344)GGA>GAA	p.G448E		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	448	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		AGTGACTCAGGAAGCTCTGGT	0.527													20	63	---	---	---	---	PASS	A	90605530	A	A	90605530	3	1	4	1	0	0	0	0	1	0	0	0	6401	1174	41	2	1345	2	GJA10	6	90605530	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	105638	90605530	80509537	1421	2012										
BACH2	60468	broad.mit.edu	37	chr6	90642522	90642522	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgtctcggcaaacttcctGggaaaggcaggagaagttgt	14	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:90642522G>T	uc011eab.1	-	9	2940	c.2131C>A	c.(2131-2133)CAG>AAG	p.Q711K	BACH2_uc003pnw.2_Missense_Mutation_p.Q711K	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	711						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		CAAACTTCCTGGGAAAGGCAG	0.542													4	43	---	---	---	---	PASS	T	90642522	T	T	90642522	3	4	4	1	0	0	0	0	1	0	0	0	1284	1357	47	3	398	3	BACH2	6	90642522	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	36992	90642522	80472545	1422	2013										
EPHA7	2045	broad.mit.edu	37	chr6	93956676	93956676	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtccatgggtgctggtaaacGataaccttcttctattgctt	9	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:93956676G>A	uc003poe.2	-	15	2801	c.2560C>T	c.(2560-2562)CGT>TGT	p.R854C	EPHA7_uc003pof.2_Missense_Mutation_p.R849C|EPHA7_uc011eac.1_Missense_Mutation_p.R850C	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	854	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		GCTGGTAAACGATAACCTTCT	0.393													8	19	---	---	---	---	PASS	A	93956676	A	A	93956676	3	1	4	1	0	0	0	0	1	0	0	0	5172	1058	37	2	448	2	EPHA7	6	93956676	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3314154	93956676	77158391	1423	2014										
EPHA7	2045	broad.mit.edu	37	chr6	94120501	94120501	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctacatcctgaaaggcaaGatagaatccctttttggaca	7	11	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:94120501G>A	uc003poe.2	-	3	791	c.550C>T	c.(550-552)CTT>TTT	p.L184F	EPHA7_uc003pof.2_Missense_Mutation_p.L184F|EPHA7_uc011eac.1_Missense_Mutation_p.L184F|EPHA7_uc003pog.3_Missense_Mutation_p.L184F	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	184	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		TGAAAGGCAAGATAGAATCCC	0.418													10	45	---	---	---	---	PASS	A	94120501	A	A	94120501	3	1	4	1	0	0	0	0	1	0	0	0	5172	942	33	2	2506	2	EPHA7	6	94120501	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	163825	94120501	76994566	1424	2015										
EPHA7	2045	broad.mit.edu	37	chr6	94120690	94120690	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atagtacaaattaaatgtttCcttgcaagttcccagtactc	5	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:94120690C>T	uc003poe.2	-	3	602	c.361G>A	c.(361-363)GAA>AAA	p.E121K	EPHA7_uc003pof.2_Missense_Mutation_p.E121K|EPHA7_uc011eac.1_Missense_Mutation_p.E121K|EPHA7_uc003pog.3_Missense_Mutation_p.E121K	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	121	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		TTAAATGTTTCCTTGCAAGTT	0.368													25	36	---	---	---	---	PASS	T	94120690	T	T	94120690	3	4	4	1	0	0	0	0	1	0	0	0	5172	864	30	2	2695	2	EPHA7	6	94120690	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	189	94120690	76994377	1425	2016										
MANEA	79694	broad.mit.edu	37	chr6	96053795	96053795	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatgatggactgtttattgcCcttctggtagaagaaaaaca	9	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:96053795C>T	uc003poo.1	+	5	1043	c.903C>T	c.(901-903)GCC>GCT	p.A301A		NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	301	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		TGTTTATTGCCCTTCTGGTAG	0.378													14	36	---	---	---	---	PASS	T	96053795	T	T	96053795	2	4	4	1	0	0	0	0	0	0	0	1	9221	610	22	3		3	MANEA	6	96053795	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1933105	96053795	75061272	1426	2017										
MANEA	79694	broad.mit.edu	37	chr6	96053988	96053988	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatacatagataccagcatcCgtccatggaacacgcaaaac	7	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:96053988C>T	uc003poo.1	+	5	1236	c.1096C>T	c.(1096-1098)CGT>TGT	p.R366C		NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	366	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		TACCAGCATCCGTCCATGGAA	0.418													42	86	---	---	---	---	PASS	T	96053988	T	T	96053988	3	4	4	1	0	0	0	0	1	0	0	0	9221	652	23	1	1110	1	MANEA	6	96053988	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	193	96053988	75061079	1427	2018										
KLHL32	114792	broad.mit.edu	37	chr6	97512602	97512602	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctcccactatctcatccaGgtatgtgagcttgcatcctg	8	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:97512602G>A	uc010kcm.1	+	5	883	c.411G>A	c.(409-411)CAG>CAA	p.Q137Q	KLHL32_uc003poy.2_Silent_p.Q137Q|KLHL32_uc011ead.1_Silent_p.Q101Q|KLHL32_uc003poz.2_Missense_Mutation_p.G8S|KLHL32_uc011eae.1_Intron|KLHL32_uc003ppa.2_RNA	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	137										ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		ATCTCATCCAGGTATGTGAGC	0.512													9	19	---	---	---	---	PASS	A	97512602	A	A	97512602	2	1	4	1	0	0	0	0	0	0	0	1	8386	1014	35	3		3	KLHL32	6	97512602	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1458614	97512602	73602465	1428	2019										
C6orf167	253714	broad.mit.edu	37	chr6	97715802	97715802	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcacaaaggagagtttcacaAtgttcttcaaataggctgat	8	7	4	2	rs142406880		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:97715802A>T	uc003ppb.2	-	8	1040	c.774T>A	c.(772-774)CAT>CAA	p.H258Q	C6orf167_uc011eaf.1_Missense_Mutation_p.H258Q|C6orf167_uc010kcn.1_Missense_Mutation_p.H32Q|C6orf167_uc010kco.1_Missense_Mutation_p.H32Q|C6orf167_uc003ppc.2_Missense_Mutation_p.H258Q	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	258					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		GAGTTTCACAATGTTCTTCAA	0.323													3	10	---	---	---	---	PASS	T	97715802	T	T	97715802	3	4	4	1	0	0	0	0	1	0	0	0	2342	98	4	5	3029	5	C6orf167	6	97715802	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	203200	97715802	73399265	1429	2020										
MCHR2	84539	broad.mit.edu	37	chr6	100368897	100368897	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggatttgaggcagacgtttCtggaaatttccactcagcag	11	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:100368897C>T	uc003pqh.1	-	6	1257	c.942G>A	c.(940-942)CAG>CAA	p.Q314Q	MCHR2_uc003pqi.1_Silent_p.Q314Q	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	314	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity	p.Q314R(1)		lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		GCAGACGTTTCTGGAAATTTC	0.438													34	63	---	---	---	---	PASS	T	100368897	T	T	100368897	2	4	4	1	0	0	0	0	0	0	0	1	9383	912	32	2		2	MCHR2	6	100368897	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2653095	100368897	70746170	1430	2021										
PDSS2	57107	broad.mit.edu	37	chr6	107595288	107595288	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catttgctagaagaaagtctCcactcaggatagcaatttta	7	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:107595288C>T	uc003prt.2	-	3	865	c.575G>A	c.(574-576)GGA>GAA	p.G192E	PDSS2_uc011eak.1_Missense_Mutation_p.G56E|PDSS2_uc011eal.1_Missense_Mutation_p.G192E|PDSS2_uc003pru.2_Missense_Mutation_p.G192E|PDSS2_uc003prv.2_Missense_Mutation_p.G192E	NM_020381	NP_065114	Q86YH6	DLP1_HUMAN	prenyl diphosphate synthase, subunit 2	192					isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	protein heterodimerization activity			ovary(2)	2	Breast(9;0.0127)	all_cancers(87;3.63e-05)|Acute lymphoblastic leukemia(125;2.86e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.0108)|Colorectal(196;0.156)|Lung NSC(302;0.211)	BRCA - Breast invasive adenocarcinoma(8;0.0101)|all cancers(7;0.243)	BRCA - Breast invasive adenocarcinoma(108;0.112)|OV - Ovarian serous cystadenocarcinoma(136;0.173)|all cancers(137;0.191)		AAGAAAGTCTCCACTCAGGAT	0.413													24	58	---	---	---	---	PASS	T	107595288	T	T	107595288	3	4	4	1	0	0	0	0	1	0	0	0	11694	855	30	2	648	2	PDSS2	6	107595288	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	7226391	107595288	63519779	1431	2022										
SOBP	55084	broad.mit.edu	37	chr6	107955308	107955308	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggcctccgcaccatgcctcCaaccccaacagccccctgtc	7	22	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:107955308C>T	uc003prx.2	+	6	1764	c.1260C>T	c.(1258-1260)TCC>TCT	p.S420S		NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	420	Pro-rich.						metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)		ACCATGCCTCCAACCCCAACA	0.701													10	30	---	---	---	---	PASS	T	107955308	T	T	107955308	2	4	4	1	0	0	0	0	0	0	0	1	14912	581	21	3		3	SOBP	6	107955308	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	360020	107955308	63159759	1432	2023										
SOBP	55084	broad.mit.edu	37	chr6	107956400	107956400	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccaactgccacctggacggGgaggcggccaaaaagctgat	13	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:107956400G>A	uc003prx.2	+	6	2856	c.2352G>A	c.(2350-2352)GGG>GGA	p.G784G		NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	784							metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)		ACCTGGACGGGGAGGCGGCCA	0.632													4	18	---	---	---	---	PASS	A	107956400	A	A	107956400	2	1	4	1	0	0	0	0	0	0	0	1	14912	1219	43	3		3	SOBP	6	107956400	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1092	107956400	63158667	1433	2024										
SCML4	256380	broad.mit.edu	37	chr6	108041962	108041962	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttggggctggaggctggaggCctcagcccaggtgccgaggg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:108041962C>T	uc010kdf.2	-	6	1169	c.918G>A	c.(916-918)AGG>AGA	p.R306R	SCML4_uc003prz.3_Silent_p.R248R|SCML4_uc011eam.1_Silent_p.R306R|SCML4_uc003pry.3_Silent_p.R64R|SCML4_uc003psa.3_Silent_p.R277R	NM_198081	NP_932347	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4	306	SAM.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		all_cancers(87;3.26e-06)|Acute lymphoblastic leukemia(125;3.08e-08)|all_hematologic(75;1.15e-06)|all_epithelial(87;0.00142)|Colorectal(196;0.0316)		BRCA - Breast invasive adenocarcinoma(108;0.01)|Epithelial(106;0.0509)|all cancers(137;0.0586)|OV - Ovarian serous cystadenocarcinoma(136;0.0758)		AGGCTGGAGGCCTCAGCCCAG	0.587													26	44	---	---	---	---	PASS	T	108041962	T	T	108041962	2	4	4	1	0	0	0	0	0	0	0	1	13911	738	26	3		3	SCML4	6	108041962	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	85562	108041962	63073105	1434	2025	71	2								
SCML4	256380	broad.mit.edu	37	chr6	108041963	108041963	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggggctggaggctggaggcCtcagcccaggtgccgagggg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:108041963C>T	uc010kdf.2	-	6	1168	c.917G>A	c.(916-918)AGG>AAG	p.R306K	SCML4_uc003prz.3_Missense_Mutation_p.R248K|SCML4_uc011eam.1_Missense_Mutation_p.R306K|SCML4_uc003pry.3_Missense_Mutation_p.R64K|SCML4_uc003psa.3_Missense_Mutation_p.R277K	NM_198081	NP_932347	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4	306	SAM.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		all_cancers(87;3.26e-06)|Acute lymphoblastic leukemia(125;3.08e-08)|all_hematologic(75;1.15e-06)|all_epithelial(87;0.00142)|Colorectal(196;0.0316)		BRCA - Breast invasive adenocarcinoma(108;0.01)|Epithelial(106;0.0509)|all cancers(137;0.0586)|OV - Ovarian serous cystadenocarcinoma(136;0.0758)		GGCTGGAGGCCTCAGCCCAGG	0.587													27	44	---	---	---	---	PASS	T	108041963	T	T	108041963	3	4	4	1	0	0	0	0	1	0	0	0	13911	681	24	3	339	3	SCML4	6	108041963	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	108041963	63073104	1435	2026	71	2								
ARMC2	84071	broad.mit.edu	37	chr6	109190081	109190081	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggattcctgcttttcctttCctaagcccccagtggaccct	7	15	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:109190081C>T	uc003pss.3	+	4	520	c.346C>T	c.(346-348)CCT>TCT	p.P116S	ARMC2_uc011eao.1_5'UTR	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	116							binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)		CTTTTCCTTTCCTAAGCCCCC	0.517													13	30	---	---	---	---	PASS	T	109190081	T	T	109190081	3	4	4	1	0	0	0	0	1	0	0	0	951	855	30	2	356	2	ARMC2	6	109190081	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1148118	109190081	61924986	1436	2027										
AKD1	221264	broad.mit.edu	37	chr6	109818714	109818714	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttctcacaaatatatatacGattatgatattctaaagcat	4	6	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:109818714G>A	uc003ptn.2	-	38	5346	c.5269C>T	c.(5269-5271)CGT>TGT	p.R1757C	AKD1_uc011eas.1_Missense_Mutation_p.R142C	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1757					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						ATATATATACGATTATGATAT	0.229													9	29	---	---	---	---	PASS	A	109818714	A	A	109818714	3	1	4	1	0	0	0	0	1	0	0	0	460	1058	37	2	482	2	AKD1	6	109818714	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	628633	109818714	61296353	1437	2028										
WISP3	8838	broad.mit.edu	37	chr6	112382351	112382351	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctggagtgagcctggtgaGagatggctgtggatgctgta	17	6	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:112382351G>A	uc003pvm.2	+	3	316	c.206G>A	c.(205-207)AGA>AAA	p.R69K	WISP3_uc003pvn.2_RNA|WISP3_uc003pvo.2_Missense_Mutation_p.R87K	NM_003880	NP_003871	O95389	WISP3_HUMAN	WNT1 inducible signaling pathway protein 3	69	IGFBP N-terminal.				cell-cell signaling|regulation of cell growth|signal transduction	extracellular region|soluble fraction	growth factor activity|insulin-like growth factor binding				0		all_cancers(87;0.000196)|Acute lymphoblastic leukemia(125;1.18e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0283)|OV - Ovarian serous cystadenocarcinoma(136;0.0613)|Epithelial(106;0.0827)|GBM - Glioblastoma multiforme(226;0.0972)|BRCA - Breast invasive adenocarcinoma(108;0.246)		AGCCTGGTGAGAGATGGCTGT	0.532													19	52	---	---	---	---	PASS	A	112382351	A	A	112382351	3	1	4	1	0	0	0	0	1	0	0	0	17371	942	33	2	266	2	WISP3	6	112382351	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2563637	112382351	58732716	1438	2029										
LAMA4	3910	broad.mit.edu	37	chr6	112453986	112453986	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatagaatagtaacccatttGgttgtaatgttcggaaatta	8	4	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:112453986G>A	uc003pvu.2	-	28	4112	c.3803C>T	c.(3802-3804)CCA>CTA	p.P1268L	LAMA4_uc003pvv.2_Missense_Mutation_p.P1261L|LAMA4_uc003pvt.2_Missense_Mutation_p.P1261L	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1268	Laminin G-like 3.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		TAACCCATTTGGTTGTAATGT	0.328													17	37	---	---	---	---	PASS	A	112453986	A	A	112453986	3	1	4	1	0	0	0	0	1	0	0	0	8608	1348	47	3	1716	3	LAMA4	6	112453986	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	71635	112453986	58661081	1439	2030										
HS3ST5	222537	broad.mit.edu	37	chr6	114378554	114378554	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttgctgcccgccaggcacTtattaaagataatattaaac	6	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:114378554T>C	uc003pwg.3	-	2	940	c.908A>G	c.(907-909)AAG>AGG	p.K303R	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.K303R	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	303	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		CGCCAGGCACTTATTAAAGAT	0.398													19	46	---	---	---	---	PASS	C	114378554	C	C	114378554	3	2	4	1	0	0	0	0	1	0	0	0	7368	1609	56	5	136	5	HS3ST5	6	114378554	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1924568	114378554	56736513	1440	2031										
FAM26D	221301	broad.mit.edu	37	chr6	116879198	116879198	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctatttggcttcattcccGggagtgaagacgtcaaacac	10	10	2	2	rs151332485		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:116879198G>T	uc003pxa.2	+	4	639	c.340G>T	c.(340-342)GGG>TGG	p.G114W	FAM26D_uc003pwz.2_Missense_Mutation_p.G71W|FAM26D_uc010ked.2_Missense_Mutation_p.G113W	NM_153036	NP_694581	Q5JW98	FA26D_HUMAN	hypothetical protein LOC221301	257						integral to membrane					0		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0258)|all cancers(137;0.0458)|OV - Ovarian serous cystadenocarcinoma(136;0.0694)|Epithelial(106;0.222)		CTTCATTCCCGGGAGTGAAGA	0.473													4	113	---	---	---	---	PASS	T	116879198	T	T	116879198	3	4	4	1	0	0	0	0	1	0	0	0	5549	1116	39	1	213	1	FAM26D	6	116879198	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2500644	116879198	54235869	1441	2032										
GPRC6A	222545	broad.mit.edu	37	chr6	117114012	117114012	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagaaatttctgtaatttggGatcaaagctgaaggctagca	10	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:117114012G>A	uc003pxj.1	-	6	2096	c.2074C>T	c.(2074-2076)CCC>TCC	p.P692S	GPRC6A_uc003pxk.1_Missense_Mutation_p.P517S|GPRC6A_uc003pxl.1_Missense_Mutation_p.P621S	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	692	Cytoplasmic (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		TGTAATTTGGGATCAAAGCTG	0.413													16	43	---	---	---	---	PASS	A	117114012	A	A	117114012	3	1	4	1	0	0	0	0	1	0	0	0	6728	1174	41	2	710	2	GPRC6A	6	117114012	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	234814	117114012	54001055	1442	2033										
RFX6	222546	broad.mit.edu	37	chr6	117232185	117232185	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcaacaccttgtataccaaGgatgcatttctaaggacaag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:117232185G>A	uc003pxm.2	+	7	823	c.760G>A	c.(760-762)GGA>AGA	p.G254R		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	254					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TGTATACCAAGGATGCATTTC	0.383													21	56	---	---	---	---	PASS	A	117232185	A	A	117232185	3	1	4	1	0	0	0	0	1	0	0	0	13267	1001	35	3	786	3	RFX6	6	117232185	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	118173	117232185	53882882	1443	2034	72	2								
RFX6	222546	broad.mit.edu	37	chr6	117232186	117232186	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaacaccttgtataccaagGatgcatttctaaggacaagg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:117232186G>A	uc003pxm.2	+	7	824	c.761G>A	c.(760-762)GGA>GAA	p.G254E		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	254					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						GTATACCAAGGATGCATTTCT	0.388													21	57	---	---	---	---	PASS	A	117232186	A	A	117232186	3	1	4	1	0	0	0	0	1	0	0	0	13267	1174	41	2	787	2	RFX6	6	117232186	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	117232186	53882881	1444	2035	72	2								
RFX6	222546	broad.mit.edu	37	chr6	117237248	117237248	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attaatggaaactttgaagaGgtaagaatgacaaagaatgc	10	3	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:117237248G>A	uc003pxm.2	+	8	921	c.858G>A	c.(856-858)GAG>GAA	p.E286E		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	286					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						ACTTTGAAGAGGTAAGAATGA	0.308													19	35	---	---	---	---	PASS	A	117237248	A	A	117237248	2	1	4	1	0	0	0	0	0	0	0	1	13267	1014	35	3		3	RFX6	6	117237248	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	5062	117237248	53877819	1445	2036										
ROS1	6098	broad.mit.edu	37	chr6	117632191	117632191	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagaattgtacctgtgaatGaaatgcatccgttccaagta	9	7	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:117632191G>A	uc003pxp.1	-	39	6424	c.6225C>T	c.(6223-6225)TTC>TTT	p.F2075F	ROS1_uc011ebi.1_RNA	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	2075	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		ACCTGTGAATGAAATGCATCC	0.378			T	GOPC|ROS1	glioblastoma|NSCLC								22	32	---	---	---	---	PASS	A	117632191	A	A	117632191	2	1	4	1	0	0	0	0	0	0	0	1	13531	1281	45	2		2	ROS1	6	117632191	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	394943	117632191	53482876	1446	2037										
ROS1	6098	broad.mit.edu	37	chr6	117663580	117663580	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacctccatttttagtttttCcccaaatctcttttcctggt	3	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:117663580C>T	uc003pxp.1	-	28	4851	c.4652G>A	c.(4651-4653)GGA>GAA	p.G1551E	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1551	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TTTAGTTTTTCCCCAAATCTC	0.313			T	GOPC|ROS1	glioblastoma|NSCLC								11	38	---	---	---	---	PASS	T	117663580	T	T	117663580	3	4	4	1	0	0	0	0	1	0	0	0	13531	855	30	2	2455	2	ROS1	6	117663580	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	31389	117663580	53451487	1447	2038										
FAM184A	79632	broad.mit.edu	37	chr6	119338100	119338100	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgctgagttctctttgcttCatttactttctaaaattaaa	4	7	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:119338100C>T	uc003pyj.2	-	5	1690	c.1342G>A	c.(1342-1344)GAA>AAA	p.E448K	FAM184A_uc003pyk.3_Missense_Mutation_p.E328K|FAM184A_uc003pyl.3_Missense_Mutation_p.E328K	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	448	Potential.									ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						CTCTTTGCTTCATTTACTTTC	0.333													5	22	---	---	---	---	PASS	T	119338100	T	T	119338100	3	4	4	1	0	0	0	0	1	0	0	0	5511	835	29	2	2136	2	FAM184A	6	119338100	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1674520	119338100	51776967	1448	2039										
C6orf170	221322	broad.mit.edu	37	chr6	121577360	121577360	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacaggcaacatttctgatCcagaaaatatagaaatatct	5	9	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:121577360C>T	uc003pyo.1	-	16	1873	c.1805G>A	c.(1804-1806)GGA>GAA	p.G602E	C6orf170_uc003pyq.1_RNA|C6orf170_uc003pyp.1_Missense_Mutation_p.G121E	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	602					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		CATTTCTGATCCAGAAAATAT	0.348													14	24	---	---	---	---	PASS	T	121577360	T	T	121577360	3	4	4	1	0	0	0	0	1	0	0	0	2344	855	30	2	2036	2	C6orf170	6	121577360	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2239260	121577360	49537707	1449	2040										
C6orf174	387104	broad.mit.edu	37	chr6	127794487	127794487	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atattgttgtgtaagaaagtGatgaaaataatacaagaatg	9	1	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:127794487G>A	uc003qbd.2	-	7	3648	c.2783C>T	c.(2782-2784)TCA>TTA	p.S928L	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	928	Helical; (Potential).					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		GTAAGAAAGTGATGAAAATAA	0.274													7	20	---	---	---	---	PASS	A	127794487	A	A	127794487	3	1	4	1	0	0	0	0	1	0	0	0	2345	1294	45	2	64	2	C6orf174	6	127794487	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6217127	127794487	43320580	1450	2041										
THEMIS	387357	broad.mit.edu	37	chr6	128134147	128134147	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggatgtgaggctgagctttCatatctccgcatcatgtaat	11	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:128134147C>T	uc003qbi.2	-	5	1958	c.1639G>A	c.(1639-1641)GAA>AAA	p.E547K	THEMIS_uc010kfa.2_Missense_Mutation_p.E450K|THEMIS_uc011ebt.1_Missense_Mutation_p.E547K|THEMIS_uc010kfb.2_Missense_Mutation_p.E512K	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	547					negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						GCTGAGCTTTCATATCTCCGC	0.458													19	38	---	---	---	---	PASS	T	128134147	T	T	128134147	3	4	4	1	0	0	0	0	1	0	0	0	15857	835	29	2	419	2	THEMIS	6	128134147	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	339660	128134147	42980920	1451	2042										
C6orf191	253582	broad.mit.edu	37	chr6	130152517	130152517	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaccaatgtgatgtcaaggGgaattccaacataactgcaa	8	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:130152517G>A	uc003qbs.2	-	5	417	c.334C>T	c.(334-336)CCC>TCC	p.P112S		NM_001010876	NP_001010876	Q5VVB8	CF191_HUMAN	hypothetical protein LOC253582	112	Helical; (Potential).					integral to membrane				large_intestine(1)	1				GBM - Glioblastoma multiforme(226;0.0387)|all cancers(137;0.115)|OV - Ovarian serous cystadenocarcinoma(155;0.131)		GATGTCAAGGGGAATTCCAAC	0.299													9	25	---	---	---	---	PASS	A	130152517	A	A	130152517	3	1	4	1	0	0	0	0	1	0	0	0	2348	1232	43	3	56	3	C6orf191	6	130152517	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2018370	130152517	40962550	1452	2043										
AKAP7	9465	broad.mit.edu	37	chr6	131481248	131481248	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaagtcaagaaaatgaatgGgtcaagagtgatcaagtaaa	11	3	3	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:131481248G>A	uc003qck.2	+	3	234	c.201G>A	c.(199-201)TGG>TGA	p.W67*	AKAP7_uc011ebz.1_Nonsense_Mutation_p.W45*	NM_016377	NP_057461	O43687	AKA7A_HUMAN	A-kinase anchor protein 7 isoform gamma	Error:Variant_position_missing_in_O43687_after_alignment					intracellular signal transduction|ion transport	apical plasma membrane|intracellular|lateral plasma membrane	protein kinase A binding			ovary(2)	2	Breast(56;0.152)			GBM - Glioblastoma multiforme(226;0.0184)|OV - Ovarian serous cystadenocarcinoma(155;0.0345)		AAAATGAATGGGTCAAGAGTG	0.318													15	30	---	---	---	---	PASS	A	131481248	A	A	131481248	4	1	4	1	0	0	0	0	0	1	0	0	456	1241	43	3	141	3	AKAP7	6	131481248	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1328731	131481248	39633819	1453	2044										
ARG1	383	broad.mit.edu	37	chr6	131904928	131904928	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagtgaacccatccctgggGaagacaccagaagaagtaac	11	10	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:131904928G>A	uc003qcp.1	+	8	907	c.849G>A	c.(847-849)GGG>GGA	p.G283G	ARG1_uc003qco.1_Intron|ARG1_uc010kfm.1_Silent_p.G291G|MED23_uc003qcq.2_Intron	NM_000045	NP_000036	P05089	ARGI1_HUMAN	arginase 1	283					arginine catabolic process|urea cycle	cytosol	arginase activity			ovary(1)	1	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0106)|OV - Ovarian serous cystadenocarcinoma(155;0.0713)	L-Ornithine(DB00129)	CATCCCTGGGGAAGACACCAG	0.398													11	27	---	---	---	---	PASS	A	131904928	A	A	131904928	2	1	4	1	0	0	0	0	0	0	0	1	857	1161	41	2		2	ARG1	6	131904928	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	423680	131904928	39210139	1454	2045										
CTGF	1490	broad.mit.edu	37	chr6	132271549	132271549	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagtcagggctgggcagacGaacgtccatgctgcacaggg	16	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:132271549G>A	uc003qcz.2	-	3	630	c.424C>T	c.(424-426)CGT>TGT	p.R142C		NM_001901	NP_001892	P29279	CTGF_HUMAN	connective tissue growth factor precursor	142	VWFC.				cellular lipid metabolic process|DNA replication|epidermis development|regulation of cell growth|response to wounding	plasma membrane|proteinaceous extracellular matrix	heparin binding|insulin-like growth factor binding				0	Breast(56;0.0602)			GBM - Glioblastoma multiforme(226;0.015)|OV - Ovarian serous cystadenocarcinoma(155;0.0169)		CTGGGCAGACGAACGTCCATG	0.652											OREG0017666	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	29	---	---	---	---	PASS	A	132271549	A	A	132271549	3	1	4	1	0	0	0	0	1	0	0	0	4008	1058	37	2	637	2	CTGF	6	132271549	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	366621	132271549	38843518	1455	2046										
TAAR6	319100	broad.mit.edu	37	chr6	132891844	132891844	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacttgtgcttcatctccatCgacaggtacattgcggttac	8	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:132891844C>T	uc011eck.1	+	1	384	c.384C>T	c.(382-384)ATC>ATT	p.I128I		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	128	Helical; Name=3; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		TCATCTCCATCGACAGGTACA	0.483													65	136	---	---	---	---	PASS	T	132891844	T	T	132891844	2	4	4	1	0	0	0	0	0	0	0	1	15489	874	31	2		2	TAAR6	6	132891844	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	620295	132891844	38223223	1456	2047										
TAAR6	319100	broad.mit.edu	37	chr6	132891934	132891934	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcatcagcgtgtcctggatCctgcccctcatgtacagcgg	11	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:132891934C>T	uc011eck.1	+	1	474	c.474C>T	c.(472-474)ATC>ATT	p.I158I		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	158	Helical; Name=4; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		TGTCCTGGATCCTGCCCCTCA	0.502													49	120	---	---	---	---	PASS	T	132891934	T	T	132891934	2	4	4	1	0	0	0	0	0	0	0	1	15489	845	30	2		2	TAAR6	6	132891934	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	90	132891934	38223133	1457	2048										
EYA4	2070	broad.mit.edu	37	chr6	133849888	133849888	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catgcccttctggaggatatCcagtcactcagacctcctgg	9	14	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:133849888C>T	uc003qec.3	+	20	2323	c.1865C>T	c.(1864-1866)TCC>TTC	p.S622F	EYA4_uc011ecq.1_Missense_Mutation_p.S568F|EYA4_uc011ecr.1_Intron|EYA4_uc003qed.3_Missense_Mutation_p.S622F|EYA4_uc003qee.3_Missense_Mutation_p.S599F|EYA4_uc011ecs.1_Missense_Mutation_p.S628F|uc003qeg.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	622					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		TGGAGGATATCCAGTCACTCA	0.328													49	149	---	---	---	---	PASS	T	133849888	T	T	133849888	3	4	4	1	0	0	0	0	1	0	0	0	5331	855	30	2	2044	2	EYA4	6	133849888	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	957954	133849888	37265179	1458	2049										
BCLAF1	9774	broad.mit.edu	37	chr6	136582572	136582572	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaaagtaccacgacctcttCctcttttggcccaataatcc	5	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:136582572C>T	uc003qgx.1	-	12	2841	c.2588G>A	c.(2587-2589)GGA>GAA	p.G863E	BCLAF1_uc011edb.1_Missense_Mutation_p.G142E|BCLAF1_uc003qgw.1_Missense_Mutation_p.G690E|BCLAF1_uc003qgy.1_Missense_Mutation_p.G812E|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.G861E	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	863					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		ACGACCTCTTCCTCTTTTGGC	0.408													14	157	---	---	---	---	PASS	T	136582572	T	T	136582572	3	4	4	1	0	0	0	0	1	0	0	0	1383	855	30	2	182	2	BCLAF1	6	136582572	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2732684	136582572	34532495	1459	2050										
BCLAF1	9774	broad.mit.edu	37	chr6	136599155	136599155	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtgatgaattggactattCtgagaaggactgtatcgact	11	5	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:136599155C>T	uc003qgx.1	-	4	1117	c.864G>A	c.(862-864)CAG>CAA	p.Q288Q	BCLAF1_uc003qgw.1_Silent_p.Q288Q|BCLAF1_uc003qgy.1_Silent_p.Q286Q|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.Q286Q	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	288					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TTGGACTATTCTGAGAAGGAC	0.453													15	43	---	---	---	---	PASS	T	136599155	T	T	136599155	2	4	4	1	0	0	0	0	0	0	0	1	1383	912	32	2		2	BCLAF1	6	136599155	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	16583	136599155	34515912	1460	2051										
BCLAF1	9774	broad.mit.edu	37	chr6	136599223	136599223	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agacctttcaggactatgctGaatggaatgtgaatgctgag	12	6	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:136599223G>A	uc003qgx.1	-	4	1049	c.796C>T	c.(796-798)CAG>TAG	p.Q266*	BCLAF1_uc003qgw.1_Nonsense_Mutation_p.Q266*|BCLAF1_uc003qgy.1_Nonsense_Mutation_p.Q264*|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Nonsense_Mutation_p.Q264*	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	266					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		GGACTATGCTGAATGGAATGT	0.448													7	64	---	---	---	---	PASS	A	136599223	A	A	136599223	4	1	4	1	0	0	0	0	0	1	0	0	1383	1299	45	2	2006	2	BCLAF1	6	136599223	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	68	136599223	34515844	1461	2052										
MAP7	9053	broad.mit.edu	37	chr6	136710541	136710541	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctcctccacagcagccctcCtccgctcctccttctgcctc	4	23	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:136710541C>T	uc003qgz.2	-	4	605	c.359G>A	c.(358-360)AGG>AAG	p.R120K	MAP7_uc011edf.1_Missense_Mutation_p.R105K|MAP7_uc011edg.1_Missense_Mutation_p.R142K|MAP7_uc010kgu.2_Missense_Mutation_p.R142K|MAP7_uc011edh.1_Missense_Mutation_p.R142K|MAP7_uc010kgv.2_Missense_Mutation_p.R142K|MAP7_uc010kgs.2_5'UTR|MAP7_uc011edi.1_5'UTR|MAP7_uc010kgq.1_Intron|MAP7_uc003qha.1_Missense_Mutation_p.R120K|MAP7_uc010kgr.2_Intron|MAP7_uc010kgt.2_Missense_Mutation_p.R142K	NM_003980	NP_003971	Q14244	MAP7_HUMAN	microtubule-associated protein 7	120	Potential.				establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)		AGCAGCCCTCCTCCGCTCCTC	0.582													36	75	---	---	---	---	PASS	T	136710541	T	T	136710541	3	4	4	1	0	0	0	0	1	0	0	0	9266	681	24	3	1950	3	MAP7	6	136710541	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	111318	136710541	34404526	1462	2053										
SLC35D3	340146	broad.mit.edu	37	chr6	137245608	137245608	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagctgcccggggagggagGaaatggccggtcagaaggtg	21	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:137245608G>A	uc003qhe.2	+	2	1190	c.1025G>A	c.(1024-1026)GGA>GAA	p.G342E		NM_001008783	NP_001008783	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	342					carbohydrate transport	integral to membrane				ovary(1)|central_nervous_system(1)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		GGGGAGGGAGGAAATGGCCGG	0.687													13	11	---	---	---	---	PASS	A	137245608	A	A	137245608	3	1	4	1	0	0	0	0	1	0	0	0	14583	1174	41	2	1031	2	SLC35D3	6	137245608	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	535067	137245608	33869459	1463	2054										
IFNGR1	3459	broad.mit.edu	37	chr6	137519347	137519347	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcacctttattatttggggGaaattctgagtcagataagg	10	5	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:137519347G>A	uc003qho.2	-	7	1394	c.1291C>T	c.(1291-1293)CCC>TCC	p.P431S	IFNGR1_uc011edm.1_Missense_Mutation_p.P403S	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	431	Cytoplasmic (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	TTATTTGGGGGAAATTCTGAG	0.398													10	28	---	---	---	---	PASS	A	137519347	A	A	137519347	3	1	4	1	0	0	0	0	1	0	0	0	7549	1174	41	2	182	2	IFNGR1	6	137519347	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	273739	137519347	33595720	1464	2055										
TNFAIP3	7128	broad.mit.edu	37	chr6	138199982	138199982	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccaccgacagcacccagccCttttctgttcagtgagacca	7	17	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:138199982C>A	uc003qhr.2	+	7	1466	c.1400C>A	c.(1399-1401)CCT>CAT	p.P467H	TNFAIP3_uc003qhs.2_Missense_Mutation_p.P467H	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	467	Interaction with NAF1 (By similarity).				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)|p.P450fs*21(1)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		GCACCCAGCCCTTTTCTGTTC	0.617			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								5	10	---	---	---	---	PASS	A	138199982	A	A	138199982	3	1	4	1	0	0	0	0	1	0	0	0	16271	681	24	3	1422	3	TNFAIP3	6	138199982	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	680635	138199982	32915085	1465	2056										
CCDC28A	25901	broad.mit.edu	37	chr6	139094850	139094850	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagcgacactgggggagcaGgaaaaggcggggcttccgct	18	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:139094850G>A	uc003qie.2	+	1	194	c.39G>A	c.(37-39)CAG>CAA	p.Q13Q	uc003qid.1_5'Flank	NM_015439	NP_056254	Q8IWP9	CC28A_HUMAN	coiled-coil domain containing 28A	13											0				OV - Ovarian serous cystadenocarcinoma(155;0.000201)|GBM - Glioblastoma multiforme(68;0.000306)		TGGGGGAGCAGGAAAAGGCGG	0.612													19	44	---	---	---	---	PASS	A	139094850	A	A	139094850	2	1	4	1	0	0	0	0	0	0	0	1	2802	991	35	3		3	CCDC28A	6	139094850	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	894868	139094850	32020217	1466	2057										
CCDC28A	25901	broad.mit.edu	37	chr6	139094873	139094873	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaggcggggcttccgcttgGggcatggaggctgtacctct	16	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:139094873G>A	uc003qie.2	+	1	217	c.62G>A	c.(61-63)GGG>GAG	p.G21E	uc003qid.1_5'Flank	NM_015439	NP_056254	Q8IWP9	CC28A_HUMAN	coiled-coil domain containing 28A	21											0				OV - Ovarian serous cystadenocarcinoma(155;0.000201)|GBM - Glioblastoma multiforme(68;0.000306)		CTTCCGCTTGGGGCATGGAGG	0.622													21	52	---	---	---	---	PASS	A	139094873	A	A	139094873	3	1	4	1	0	0	0	0	1	0	0	0	2802	1232	43	3	64	3	CCDC28A	6	139094873	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	23	139094873	32020194	1467	2058										
STX11	8676	broad.mit.edu	37	chr6	144508350	144508350	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttccgagaacttgctggccGacgtgaagggcgcgcgggcc	16	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:144508350G>A	uc003qks.3	+	2	778	c.586G>A	c.(586-588)GAC>AAC	p.D196N		NM_003764	NP_003755	O75558	STX11_HUMAN	syntaxin 11	196					cellular membrane fusion|intracellular protein transport|vesicle-mediated transport	Golgi apparatus|membrane	SNAP receptor activity			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(155;2.17e-06)|GBM - Glioblastoma multiforme(68;0.0492)		CTTGCTGGCCGACGTGAAGGG	0.637									Familial_Hemophagocytic_Lymphohistiocytosis				11	14	---	---	---	---	PASS	A	144508350	A	A	144508350	3	1	4	1	0	0	0	0	1	0	0	0	15336	1058	37	2	588	2	STX11	6	144508350	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5413477	144508350	26606717	1468	2059										
UTRN	7402	broad.mit.edu	37	chr6	145157481	145157481	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgaaggaccagcacctccGaagggggctccctgtcggtt	14	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:145157481G>A	uc003qkt.2	+	70	9961	c.9869G>A	c.(9868-9870)CGA>CAA	p.R3290Q		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	3290					muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		CAGCACCTCCGAAGGGGGCTC	0.498													54	83	---	---	---	---	PASS	A	145157481	A	A	145157481	3	1	4	1	0	0	0	0	1	0	0	0	17100	1058	37	2	10147	2	UTRN	6	145157481	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	649131	145157481	25957586	1469	2060										
FBXO30	84085	broad.mit.edu	37	chr6	146125854	146125854	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaatctacgctgagaatagGtacaaccatagtaagctaaa	7	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:146125854G>A	uc003qla.2	-	2	1887	c.1688C>T	c.(1687-1689)ACC>ATC	p.T563I	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	563							ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		CTGAGAATAGGTACAACCATA	0.413													16	49	---	---	---	---	PASS	A	146125854	A	A	146125854	3	1	4	1	0	0	0	0	1	0	0	0	5740	1261	44	3	557	3	FBXO30	6	146125854	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	968373	146125854	24989213	1470	2061										
SHPRH	257218	broad.mit.edu	37	chr6	146264545	146264545	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accacatatacactcaaagcGgtaatcagaggtgttaaagg	9	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:146264545G>T	uc003qlf.2	-	9	2371	c.1972C>A	c.(1972-1974)CGC>AGC	p.R658S	SHPRH_uc003qld.2_Missense_Mutation_p.R658S|SHPRH_uc003qle.2_Missense_Mutation_p.R658S|SHPRH_uc003qlg.1_Missense_Mutation_p.R214S|SHPRH_uc003qlj.1_Missense_Mutation_p.R547S	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	658	PHD-type.				DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		CACTCAAAGCGGTAATCAGAG	0.423													5	95	---	---	---	---	PASS	T	146264545	T	T	146264545	3	4	4	1	0	0	0	0	1	0	0	0	14291	1116	39	1	3211	1	SHPRH	6	146264545	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	138691	146264545	24850522	1471	2062										
GRM1	2911	broad.mit.edu	37	chr6	146720028	146720028	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctaatctttgtactgtaccGggacacaccagtggtcaaat	8	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:146720028G>T	uc010khw.1	+	8	2323	c.1853G>T	c.(1852-1854)CGG>CTG	p.R618L	GRM1_uc010khv.1_Missense_Mutation_p.R618L|GRM1_uc003qll.2_Missense_Mutation_p.R618L|GRM1_uc011edz.1_Missense_Mutation_p.R618L|GRM1_uc011eea.1_Missense_Mutation_p.R618L	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	618	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GTACTGTACCGGGACACACCA	0.473													5	141	---	---	---	---	PASS	T	146720028	T	T	146720028	3	4	4	1	0	0	0	0	1	0	0	0	6796	1116	39	1	1879	1	GRM1	6	146720028	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	455483	146720028	24395039	1472	2063										
LATS1	9113	broad.mit.edu	37	chr6	149983369	149983369	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaagagatgtttgccagttGataacctttaaagatttttt	8	4	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:149983369G>A	uc003qmu.1	-	8	3437	c.2889C>T	c.(2887-2889)ATC>ATT	p.I963I	LATS1_uc010kif.1_Silent_p.I858I	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	963	Protein kinase.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		TTTGCCAGTTGATAACCTTTA	0.348													22	27	---	---	---	---	PASS	A	149983369	A	A	149983369	2	1	4	1	0	0	0	0	0	0	0	1	8646	1280	45	2		2	LATS1	6	149983369	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	3263341	149983369	21131698	1473	2064										
PLEKHG1	57480	broad.mit.edu	37	chr6	151107560	151107560	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttggaaaactgtgaaaatGatcctgtggccatagcagag	11	6	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:151107560G>A	uc003qny.1	+	5	859	c.547G>A	c.(547-549)GAT>AAT	p.D183N	PLEKHG1_uc011eel.1_Missense_Mutation_p.D223N|PLEKHG1_uc011eem.1_Missense_Mutation_p.D242N|PLEKHG1_uc003qnz.2_Missense_Mutation_p.D183N	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	183	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		CTGTGAAAATGATCCTGTGGC	0.373													22	34	---	---	---	---	PASS	A	151107560	A	A	151107560	3	1	4	1	0	0	0	0	1	0	0	0	12068	1290	45	2	557	2	PLEKHG1	6	151107560	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1124191	151107560	20007507	1474	2065										
AKAP12	9590	broad.mit.edu	37	chr6	151669885	151669885	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatgtgagcaaaagagactCcgataaagagatggctacta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:151669885C>T	uc011eep.1	+	4	599	c.359C>T	c.(358-360)TCC>TTC	p.S120F	AKAP12_uc003qoe.2_Missense_Mutation_p.S120F|AKAP12_uc003qof.2_Missense_Mutation_p.S22F|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.S15F	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	120					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		AAAAGAGACTCCGATAAAGAG	0.453													8	22	---	---	---	---	PASS	T	151669885	T	T	151669885	3	4	4	1	0	0	0	0	1	0	0	0	448	855	30	2	398	2	AKAP12	6	151669885	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	562325	151669885	19445182	1475	2066	73	2								
AKAP12	9590	broad.mit.edu	37	chr6	151669886	151669886	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgtgagcaaaagagactcCgataaagagatggctactaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:151669886C>T	uc011eep.1	+	4	600	c.360C>T	c.(358-360)TCC>TCT	p.S120S	AKAP12_uc003qoe.2_Silent_p.S120S|AKAP12_uc003qof.2_Silent_p.S22S|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Silent_p.S15S	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	120					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		AAAGAGACTCCGATAAAGAGA	0.453													9	22	---	---	---	---	PASS	T	151669886	T	T	151669886	2	4	4	1	0	0	0	0	0	0	0	1	448	639	23	1		1	AKAP12	6	151669886	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	151669886	19445181	1476	2067	73	2								
C6orf211	79624	broad.mit.edu	37	chr6	151790238	151790238	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatatttcagtacgatggtcCcctttgacttgatttaggag	9	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:151790238C>T	uc003qok.1	+	5	1578	c.1319C>T	c.(1318-1320)CCC>CTC	p.P440L	C6orf211_uc011ees.1_Missense_Mutation_p.P321L	NM_024573	NP_078849	Q9H993	CF211_HUMAN	hypothetical protein LOC79624	440							protein binding				0			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)		TACGATGGTCCCCTTTGACTT	0.517													6	8	---	---	---	---	PASS	T	151790238	T	T	151790238	3	4	4	1	0	0	0	0	1	0	0	0	2354	623	22	3	1337	3	C6orf211	6	151790238	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	120352	151790238	19324829	1477	2068										
ESR1	2099	broad.mit.edu	37	chr6	152415611	152415611	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagatcacagacactttgatCcacctgatggccaaggcagg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:152415611C>T	uc003qom.3	+	9	1831	c.1461C>T	c.(1459-1461)ATC>ATT	p.I487I	ESR1_uc010kin.2_Silent_p.I487I|ESR1_uc010kio.2_Silent_p.I489I|ESR1_uc010kip.2_Silent_p.I486I|ESR1_uc003qon.3_Silent_p.I487I|ESR1_uc003qoo.3_Silent_p.I487I|ESR1_uc010kiq.2_Silent_p.I85I|ESR1_uc010kir.2_Silent_p.I226I|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Silent_p.I72I|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Silent_p.I156I|ESR1_uc011eex.1_Intron|ESR1_uc011eey.1_Intron	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	487	Steroid-binding.|Interaction with AKAP13.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	ACACTTTGATCCACCTGATGG	0.572													27	42	---	---	---	---	PASS	T	152415611	T	T	152415611	2	4	4	1	0	0	0	0	0	0	0	1	5256	845	30	2		2	ESR1	6	152415611	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	625373	152415611	18699456	1478	2069	74	2								
ESR1	2099	broad.mit.edu	37	chr6	152415612	152415612	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatcacagacactttgatcCacctgatggccaaggcaggc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:152415612C>T	uc003qom.3	+	9	1832	c.1462C>T	c.(1462-1464)CAC>TAC	p.H488Y	ESR1_uc010kin.2_Missense_Mutation_p.H488Y|ESR1_uc010kio.2_Missense_Mutation_p.H490Y|ESR1_uc010kip.2_Missense_Mutation_p.H487Y|ESR1_uc003qon.3_Missense_Mutation_p.H488Y|ESR1_uc003qoo.3_Missense_Mutation_p.H488Y|ESR1_uc010kiq.2_Missense_Mutation_p.H86Y|ESR1_uc010kir.2_Missense_Mutation_p.H227Y|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Missense_Mutation_p.H73Y|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Missense_Mutation_p.H157Y|ESR1_uc011eex.1_Intron|ESR1_uc011eey.1_Intron	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	488	Steroid-binding.|Interaction with AKAP13.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	CACTTTGATCCACCTGATGGC	0.567													26	42	---	---	---	---	PASS	T	152415612	T	T	152415612	3	4	4	1	0	0	0	0	1	0	0	0	5256	594	21	3	1488	3	ESR1	6	152415612	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	152415612	18699455	1479	2070	74	2								
SYNE1	23345	broad.mit.edu	37	chr6	152605216	152605216	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagctgctccgcagggtcgGcctcacaagactcggatacc	11	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:152605216G>A	uc010kiw.2	-	96	18706	c.18104C>T	c.(18103-18105)GCC>GTC	p.A6035V	SYNE1_uc010kiv.2_Missense_Mutation_p.A559V|SYNE1_uc003qos.3_Missense_Mutation_p.A559V|SYNE1_uc003qot.3_Missense_Mutation_p.A5964V|SYNE1_uc003qou.3_Missense_Mutation_p.A6035V|SYNE1_uc010kiy.1_Missense_Mutation_p.A214V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6035	Spectrin 20.|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)		CGCAGGGTCGGCCTCACAAGA	0.557										HNSCC(10;0.0054)			18	36	---	---	---	---	PASS	A	152605216	A	A	152605216	3	1	4	1	0	0	0	0	1	0	0	0	15442	1203	42	3	8566	3	SYNE1	6	152605216	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	189604	152605216	18509851	1480	2071										
SYNE1	23345	broad.mit.edu	37	chr6	152631852	152631852	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcttggaggttctgcaaacGaattttgatcatctgtcgca	9	8	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:152631852G>A	uc010kiw.2	-	88	17469	c.16867C>T	c.(16867-16869)CGT>TGT	p.R5623C	SYNE1_uc010kiv.2_Missense_Mutation_p.R147C|SYNE1_uc003qos.3_Missense_Mutation_p.R147C|SYNE1_uc003qot.3_Missense_Mutation_p.R5552C|SYNE1_uc003qou.3_Missense_Mutation_p.R5623C	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5623	Spectrin 17.|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)		TTCTGCAAACGAATTTTGATC	0.373										HNSCC(10;0.0054)			8	20	---	---	---	---	PASS	A	152631852	A	A	152631852	3	1	4	1	0	0	0	0	1	0	0	0	15442	1058	37	2	9835	2	SYNE1	6	152631852	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	26636	152631852	18483215	1481	2072										
SYNE1	23345	broad.mit.edu	37	chr6	152730358	152730358	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cattttgttcttggcagtttCatgctgtggataaatgattt	9	5	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:152730358C>T	uc010kiw.2	-	44	6987	c.6385G>A	c.(6385-6387)GAA>AAA	p.E2129K	SYNE1_uc003qot.3_Missense_Mutation_p.E2136K|SYNE1_uc003qou.3_Missense_Mutation_p.E2129K|SYNE1_uc010kjb.1_Missense_Mutation_p.E2112K	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2129	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)		TTGGCAGTTTCATGCTGTGGA	0.299										HNSCC(10;0.0054)			9	33	---	---	---	---	PASS	T	152730358	T	T	152730358	3	4	4	1	0	0	0	0	1	0	0	0	15442	835	29	2	20493	2	SYNE1	6	152730358	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	98506	152730358	18384709	1482	2073										
SYNE1	23345	broad.mit.edu	37	chr6	152765648	152765648	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagccagaaattaattcttcGagagaatttttgactatttc	7	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:152765648G>A	uc010kiw.2	-	30	4337	c.3735C>T	c.(3733-3735)CTC>CTT	p.L1245L	SYNE1_uc003qot.3_Silent_p.L1252L|SYNE1_uc003qou.3_Silent_p.L1245L|SYNE1_uc010kjb.1_Silent_p.L1228L|SYNE1_uc003qow.2_Silent_p.L540L|SYNE1_uc003qox.1_Silent_p.L761L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1245	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)		TTAATTCTTCGAGAGAATTTT	0.348										HNSCC(10;0.0054)			11	23	---	---	---	---	PASS	A	152765648	A	A	152765648	2	1	4	1	0	0	0	0	0	0	0	1	15442	1045	37	2		2	SYNE1	6	152765648	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	35290	152765648	18349419	1483	2074										
MYCT1	80177	broad.mit.edu	37	chr6	153043010	153043010	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcacagtggagttcaagcagGagatctaggtcttcttacac	10	9	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:153043010G>A	uc003qpd.3	+	2	338	c.330G>A	c.(328-330)AGG>AGA	p.R110R	MYCT1_uc010kjc.1_Intron|MYCT1_uc003qpc.3_Silent_p.R110R	NM_025107	NP_079383	Q8N699	MYCT1_HUMAN	myc target 1	110	Bipartite nuclear localization signal (Potential).					nucleus				ovary(1)	1		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;1.33e-10)|BRCA - Breast invasive adenocarcinoma(81;0.143)		GTTCAAGCAGGAGATCTAGGT	0.517													26	54	---	---	---	---	PASS	A	153043010	A	A	153043010	2	1	4	1	0	0	0	0	0	0	0	1	10022	1165	41	2		2	MYCT1	6	153043010	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	277362	153043010	18072057	1484	2075										
RGS17	26575	broad.mit.edu	37	chr6	153365058	153365058	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagcagctgcaacaacagcaCcaacaaaagcaacaggtgtt	9	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:153365058C>A	uc003qpm.2	-	2	252	c.96G>T	c.(94-96)TGG>TGT	p.W32C		NM_012419	NP_036551	Q9UGC6	RGS17_HUMAN	regulator of G-protein signalling 17	32	Poly-Cys.				negative regulation of signal transduction	cytoplasm|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			pancreas(1)	1		Ovarian(120;0.126)		OV - Ovarian serous cystadenocarcinoma(155;1.09e-09)|BRCA - Breast invasive adenocarcinoma(81;0.0429)		AACAACAGCACCAACAAAAGC	0.507									Lung_Cancer_Familial_Clustering_of				42	90	---	---	---	---	PASS	A	153365058	A	A	153365058	3	1	4	1	0	0	0	0	1	0	0	0	13299	508	18	3	552	3	RGS17	6	153365058	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	322048	153365058	17750009	1485	2076										
OPRM1	4988	broad.mit.edu	37	chr6	154360940	154360940	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcgtggtggggctcttcggAaacttcctggtcatgtatgt	14	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:154360940A>C	uc003qpr.2	+	1	498	c.261A>C	c.(259-261)GGA>GGC	p.G87G	OPRM1_uc011efb.1_Silent_p.G135G|OPRM1_uc011efc.1_Intron|OPRM1_uc011efd.1_Intron|OPRM1_uc011efe.1_Silent_p.G180G|OPRM1_uc003qpn.2_Silent_p.G87G|OPRM1_uc003qpo.1_Silent_p.G87G|OPRM1_uc011eff.1_Silent_p.G87G|OPRM1_uc011efg.1_Silent_p.G87G|OPRM1_uc011efh.1_Silent_p.G87G|OPRM1_uc003qpq.1_Silent_p.G87G|OPRM1_uc003qpt.1_Silent_p.G87G|OPRM1_uc011efi.1_Silent_p.G87G|OPRM1_uc003qpp.2_RNA|OPRM1_uc003qps.2_RNA	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	87	Helical; Name=1; (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	GGCTCTTCGGAAACTTCCTGG	0.587													7	26	---	---	---	---	PASS	C	154360940	C	C	154360940	2	2	4	1	0	0	0	0	0	0	0	1	10887	233	9	5		5	OPRM1	6	154360940	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	995882	154360940	16754127	1486	2077										
OPRM1	4988	broad.mit.edu	37	chr6	154412509	154412509	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagagagttctgtatcccaAcctcttccaacattgagcaa	6	12	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:154412509A>G	uc003qpr.2	+	3	1303	c.1066A>G	c.(1066-1068)ACC>GCC	p.T356A	OPRM1_uc011efc.1_Missense_Mutation_p.T275A|OPRM1_uc011efd.1_Missense_Mutation_p.T256A|OPRM1_uc011efe.1_Missense_Mutation_p.T449A|OPRM1_uc003qpn.2_Missense_Mutation_p.T356A|OPRM1_uc003qpo.1_Missense_Mutation_p.T356A|OPRM1_uc011eff.1_Missense_Mutation_p.T356A|OPRM1_uc011efg.1_Missense_Mutation_p.T356A|OPRM1_uc011efh.1_Missense_Mutation_p.T356A|OPRM1_uc003qpq.1_Missense_Mutation_p.T356A|OPRM1_uc003qpt.1_Missense_Mutation_p.T356A|OPRM1_uc011efi.1_Missense_Mutation_p.T356A|OPRM1_uc003qpp.2_RNA|OPRM1_uc003qps.2_RNA|OPRM1_uc010kjg.2_Missense_Mutation_p.T256A|OPRM1_uc003qpu.2_Missense_Mutation_p.T256A	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	356	Cytoplasmic (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	CTGTATCCCAACCTCTTCCAA	0.453													22	53	---	---	---	---	PASS	G	154412509	G	G	154412509	3	3	4	1	0	0	0	0	1	0	0	0	10887	43	2	5	1410	5	OPRM1	6	154412509	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	51569	154412509	16702558	1487	2078										
TIAM2	26230	broad.mit.edu	37	chr6	155571102	155571102	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagagcggaacagagaaggAggtccgtgagacatctgcac	15	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:155571102A>C	uc003qqb.2	+	23	5223	c.3950A>C	c.(3949-3951)GAG>GCG	p.E1317A	TIAM2_uc003qqe.2_Missense_Mutation_p.E1317A|TIAM2_uc010kjj.2_Missense_Mutation_p.E850A|TIAM2_uc003qqf.2_Missense_Mutation_p.E693A|TIAM2_uc011efl.1_Missense_Mutation_p.E653A|TIAM2_uc003qqg.2_Missense_Mutation_p.E629A|TIAM2_uc003qqh.2_Missense_Mutation_p.E242A	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1317					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		ACAGAGAAGGAGGTCCGTGAG	0.527													19	35	---	---	---	---	PASS	C	155571102	C	C	155571102	3	2	4	1	0	0	0	0	1	0	0	0	15888	318	11	5	4020	5	TIAM2	6	155571102	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	1158593	155571102	15543965	1488	2079										
NOX3	50508	broad.mit.edu	37	chr6	155761200	155761200	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagttgacgaggtcatgatCaagactaaagccagagagat	11	7	3	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:155761200C>T	uc003qqm.2	-	6	661	c.558G>A	c.(556-558)TTG>TTA	p.L186L		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	186	Ferric oxidoreductase.|Helical; (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		AGGTCATGATCAAGACTAAAG	0.418													15	48	---	---	---	---	PASS	T	155761200	T	T	155761200	2	4	4	1	0	0	0	0	0	0	0	1	10557	825	29	2		2	NOX3	6	155761200	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	190098	155761200	15353867	1489	2080										
ARID1B	57492	broad.mit.edu	37	chr6	157150511	157150511	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atccaattggcatccagggtCggactcccggggccatggcc	13	14	0	0	rs143370913	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:157150511C>T	uc003qqn.2	+	2	1671	c.1519C>T	c.(1519-1521)CGG>TGG	p.R507W	ARID1B_uc003qqo.2_Missense_Mutation_p.R507W|ARID1B_uc003qqp.2_Missense_Mutation_p.R507W	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	565					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		CATCCAGGGTCGGACTCCCGG	0.582													13	14	---	---	---	---	PASS	T	157150511	T	T	157150511	3	4	4	1	0	0	0	0	1	0	0	0	914	875	31	2	1699	2	ARID1B	6	157150511	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1389311	157150511	13964556	1490	2081										
TULP4	56995	broad.mit.edu	37	chr6	158924312	158924312	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgcctggagtgcaggctcCctgctctcccaaagatgccc	10	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:158924312C>T	uc003qrf.2	+	13	4974	c.3617C>T	c.(3616-3618)CCC>CTC	p.P1206L	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	1206					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		GTGCAGGCTCCCTGCTCTCCC	0.587													23	59	---	---	---	---	PASS	T	158924312	T	T	158924312	3	4	4	1	0	0	0	0	1	0	0	0	16773	623	22	3	3667	3	TULP4	6	158924312	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1773801	158924312	12190755	1491	2082										
SYTL3	94120	broad.mit.edu	37	chr6	159146621	159146621	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attttgaagcaacagaatctCccatccagtccggcacccag	7	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:159146621C>A	uc003qrp.2	+	10	1051	c.807C>A	c.(805-807)CTC>CTA	p.L269L	SYTL3_uc011efp.1_Silent_p.L269L|SYTL3_uc003qro.2_Silent_p.L201L|SYTL3_uc003qrq.2_Silent_p.L201L|SYTL3_uc003qrr.2_Silent_p.L269L|SYTL3_uc003qrs.2_Silent_p.L201L|SYTL3_uc011efq.1_Intron	NM_001009991	NP_001009991	Q4VX76	SYTL3_HUMAN	synaptotagmin-like 3	269					intracellular protein transport	endomembrane system|membrane	Rab GTPase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.54e-17)|BRCA - Breast invasive adenocarcinoma(81;8.24e-06)		AACAGAATCTCCCATCCAGTC	0.383													30	104	---	---	---	---	PASS	A	159146621	A	A	159146621	2	1	4	1	0	0	0	0	0	0	0	1	15481	842	30	2		2	SYTL3	6	159146621	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	222309	159146621	11968446	1492	2083										
FNDC1	84624	broad.mit.edu	37	chr6	159653084	159653084	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgacttgaagaacaaaataTtggctaatggtggggcgccc	12	7	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:159653084T>C	uc010kjv.2	+	11	1740	c.1540T>C	c.(1540-1542)TTG>CTG	p.L514L	FNDC1_uc010kjw.1_Silent_p.L399L	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	514						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		GAACAAAATATTGGCTAATGG	0.557													10	20	---	---	---	---	PASS	C	159653084	C	C	159653084	2	2	4	1	0	0	0	0	0	0	0	1	5968	1490	52	5		5	FNDC1	6	159653084	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	506463	159653084	11461983	1493	2084										
FNDC1	84624	broad.mit.edu	37	chr6	159654381	159654381	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggcaagtactcctccctggCctccaaggctcaggatgttc	11	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:159654381C>T	uc010kjv.2	+	11	3037	c.2837C>T	c.(2836-2838)GCC>GTC	p.A946V	FNDC1_uc010kjw.1_Missense_Mutation_p.A831V	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	946						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		TCCTCCCTGGCCTCCAAGGCT	0.617													6	19	---	---	---	---	PASS	T	159654381	T	T	159654381	3	4	4	1	0	0	0	0	1	0	0	0	5968	739	26	3	2879	3	FNDC1	6	159654381	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1297	159654381	11460686	1494	2085										
FNDC1	84624	broad.mit.edu	37	chr6	159655137	159655137	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaagaagaccttctgtcttCctctgtgccaaagtggccct	9	12	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:159655137C>T	uc010kjv.2	+	11	3793	c.3593C>T	c.(3592-3594)TCC>TTC	p.S1198F	FNDC1_uc010kjw.1_Missense_Mutation_p.S1083F	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	1198						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		CTTCTGTCTTCCTCTGTGCCA	0.627													9	9	---	---	---	---	PASS	T	159655137	T	T	159655137	3	4	4	1	0	0	0	0	1	0	0	0	5968	855	30	2	3635	2	FNDC1	6	159655137	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	756	159655137	11459930	1495	2086										
IGF2R	3482	broad.mit.edu	37	chr6	160494846	160494846	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acttgtctccccttattcatCgcactggtggttatgaggct	9	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:160494846C>T	uc003qta.2	+	35	5153	c.5005C>T	c.(5005-5007)CGC>TGC	p.R1669C		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1669	Lumenal (Potential).|12.				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		CCTTATTCATCGCACTGGTGG	0.418													12	38	---	---	---	---	PASS	T	160494846	T	T	160494846	3	4	4	1	0	0	0	0	1	0	0	0	7576	884	31	2	5143	2	IGF2R	6	160494846	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	839709	160494846	10620221	1496	2087										
LPA	4018	broad.mit.edu	37	chr6	160952868	160952868	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagaccccaagaagtgactcCttgtaaaatgtatttgtcct	7	9	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:160952868C>T	uc003qtl.2	-	40	6136	c.6016G>A	c.(6016-6018)GGA>AGA	p.G2006R		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4514	Peptidase S1.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	GAAGTGACTCCTTGTAAAATG	0.468													20	36	---	---	---	---	PASS	T	160952868	T	T	160952868	3	4	4	1	0	0	0	0	1	0	0	0	8903	690	24	3	110	3	LPA	6	160952868	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	458022	160952868	10162199	1497	2088										
LPA	4018	broad.mit.edu	37	chr6	161020671	161020671	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtagtagcagtcctgtacccCgggggtttcctcagtcagtg	13	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:161020671C>A	uc003qtl.2	-	21	3268	c.3148G>T	c.(3148-3150)GGG>TGG	p.G1050W		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3558	Kringle 32.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	TCCTGTACCCCGGGGGTTTCC	0.433													5	110	---	---	---	---	PASS	A	161020671	A	A	161020671	3	1	4	1	0	0	0	0	1	0	0	0	8903	652	23	1	3054	1	LPA	6	161020671	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	67803	161020671	10094396	1498	2089										
MAP3K4	4216	broad.mit.edu	37	chr6	161470960	161470960	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcacaagctaatggatggTtccttgcaaagggcacgtat	10	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:161470960T>C	uc003qtn.2	+	3	1798	c.1656T>C	c.(1654-1656)GGT>GGC	p.G552G	MAP3K4_uc010kkc.1_Silent_p.G552G|MAP3K4_uc003qto.2_Silent_p.G552G|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_5'UTR	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	552					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)		TAATGGATGGTTCCTTGCAAA	0.378													14	42	---	---	---	---	PASS	C	161470960	C	C	161470960	2	2	4	1	0	0	0	0	0	0	0	1	9252	1712	60	5		5	MAP3K4	6	161470960	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	450289	161470960	9644107	1499	2090										
PARK2	5071	broad.mit.edu	37	chr6	161990405	161990405	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctgctcttctcccagaatCctgaagtgatggagctcttt	8	12	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:161990405C>T	uc003qtx.3	-	8	1049	c.915G>A	c.(913-915)AGG>AGA	p.R305R	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Silent_p.R114R|PARK2_uc003qtw.3_Silent_p.R114R|PARK2_uc003qty.3_Silent_p.R277R|PARK2_uc003qtz.3_Silent_p.R156R|PARK2_uc010kke.1_Silent_p.R324R|PARK2_uc011egf.1_5'UTR	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	305					aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		CTCCCAGAATCCTGAAGTGAT	0.468													11	32	---	---	---	---	PASS	T	161990405	T	T	161990405	2	4	4	1	0	0	0	0	0	0	0	1	11449	854	30	2		2	PARK2	6	161990405	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	519445	161990405	9124662	1500	2091										
PARK2	5071	broad.mit.edu	37	chr6	162683632	162683632	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagccccacagagtctcctgGgaggactgagctgctgaggt	14	12	1	3	rs148252233		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:162683632G>A	uc003qtx.3	-	3	471	c.337C>T	c.(337-339)CCA>TCA	p.P113S	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_5'UTR|PARK2_uc003qty.3_Missense_Mutation_p.P113S|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Missense_Mutation_p.P113S	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	113					aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GAGTCTCCTGGGAGGACTGAG	0.577													11	30	---	---	---	---	PASS	A	162683632	A	A	162683632	3	1	4	1	0	0	0	0	1	0	0	0	11449	1232	43	3	1100	3	PARK2	6	162683632	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	693227	162683632	8431435	1501	2092										
C6orf118	168090	broad.mit.edu	37	chr6	165715741	165715741	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagtgcttcagattacacaGggtcttcacgcctggcgtct	11	12	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:165715741G>A	uc003qum.3	-	2	106	c.70C>T	c.(70-72)CTG>TTG	p.L24L	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	24											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		AGATTACACAGGGTCTTCACG	0.512													12	40	---	---	---	---	PASS	A	165715741	A	A	165715741	2	1	4	1	0	0	0	0	0	0	0	1	2323	991	35	3		3	C6orf118	6	165715741	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	3032109	165715741	5399326	1502	2093										
PDE10A	10846	broad.mit.edu	37	chr6	165801805	165801805	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctggaggatggacacagtCtgggagaagtggtgctgctc	16	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:165801805C>T	uc003qun.2	-	18	2005	c.1764G>A	c.(1762-1764)CAG>CAA	p.Q588Q	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Silent_p.Q518Q|PDE10A_uc003quo.2_Silent_p.Q598Q	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	588					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	TGGACACAGTCTGGGAGAAGT	0.552													19	74	---	---	---	---	PASS	T	165801805	T	T	165801805	2	4	4	1	0	0	0	0	0	0	0	1	11630	912	32	2		2	PDE10A	6	165801805	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	86064	165801805	5313262	1503	2094										
PDE10A	10846	broad.mit.edu	37	chr6	165842145	165842145	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcagaacaaaaacaacctaCcattatgtgttcaagtagag	6	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:165842145C>A	uc003qun.2	-	11	1066	c.825_splice	c.e11+1	p.M275_splice	PDE10A_uc011egj.1_Splice_Site|PDE10A_uc011egk.1_Splice_Site_p.M205_splice|PDE10A_uc003quo.2_Splice_Site_p.M285_splice	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2						platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	AAACAACCTACCATTATGTGT	0.318													7	11	---	---	---	---	PASS	A	165842145	A	A	165842145	5	1	4	1	0	0	0	0	0	0	1	0	11630	521	18	3	1565	3	PDE10A	6	165842145	Splice_Site	SNP	C	TCGA-18-3409-01A-01D-0983-08	40340	165842145	5272922	1504	2095										
PDE10A	10846	broad.mit.edu	37	chr6	165862430	165862430	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acttacattattgcactctcCaaggaaatacagtgcaaatc	5	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:165862430C>T	uc003qun.2	-	6	593	c.352G>A	c.(352-354)GGA>AGA	p.G118R	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.G48R|PDE10A_uc003quo.2_Missense_Mutation_p.G128R	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	118	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	TTGCACTCTCCAAGGAAATAC	0.348													8	33	---	---	---	---	PASS	T	165862430	T	T	165862430	3	4	4	1	0	0	0	0	1	0	0	0	11630	603	21	3	2059	3	PDE10A	6	165862430	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	20285	165862430	5252637	1505	2096										
T	6862	broad.mit.edu	37	chr6	166580159	166580159	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatccagtgggccccgaagTtgggcgagtcggggtggatg	18	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:166580159T>C	uc003quu.1	-	3	885	c.392A>G	c.(391-393)AAC>AGC	p.N131S	T_uc003qut.1_Missense_Mutation_p.N131S|T_uc003quv.1_Missense_Mutation_p.N131S	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	131	T-box.				anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		GGCCCCGAAGTTGGGCGAGTC	0.652									Chordoma_Familial_Clustering_of				17	24	---	---	---	---	PASS	C	166580159	C	C	166580159	3	2	4	1	0	0	0	0	1	0	0	0	15485	1725	60	5	943	5	T	6	166580159	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	717729	166580159	4534908	1506	2097										
CCR6	1235	broad.mit.edu	37	chr6	167550254	167550254	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggctgtcagtcatcatctCcagctcaacttttgtcttca	8	12	7	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:167550254C>T	uc003qvl.2	+	13	3012	c.536C>T	c.(535-537)TCC>TTC	p.S179F	CCR6_uc010kkm.2_Missense_Mutation_p.S179F|CCR6_uc003qvn.3_Missense_Mutation_p.S179F|CCR6_uc003qvm.3_Missense_Mutation_p.S179F	NM_031409	NP_113597	P51684	CCR6_HUMAN	chemokine (C-C motif) receptor 6	179	Helical; Name=4; (Potential).				cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|humoral immune response	integral to plasma membrane	C-C chemokine receptor activity			ovary(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;8.21e-20)|BRCA - Breast invasive adenocarcinoma(81;4.55e-06)|GBM - Glioblastoma multiforme(31;0.00507)		GTCATCATCTCCAGCTCAACT	0.517													14	33	---	---	---	---	PASS	T	167550254	T	T	167550254	3	4	4	1	0	0	0	0	1	0	0	0	2945	855	30	2	542	2	CCR6	6	167550254	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	970095	167550254	3564813	1507	2098										
TTLL2	83887	broad.mit.edu	37	chr6	167754328	167754328	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctcttatgagaagatcaaaGaagtgattggtcatggttgt	11	5	3	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:167754328G>A	uc003qvs.1	+	3	1028	c.940G>A	c.(940-942)GAA>AAA	p.E314K	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	314	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GAAGATCAAAGAAGTGATTGG	0.433													30	74	---	---	---	---	PASS	A	167754328	A	A	167754328	3	1	4	1	0	0	0	0	1	0	0	0	16724	943	33	2	950	2	TTLL2	6	167754328	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	204074	167754328	3360739	1508	2099										
MLLT4	4301	broad.mit.edu	37	chr6	168352699	168352699	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagctccagagcaaaccggaCcgcagcgccgaggagagcga	15	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:168352699C>T	uc003qwd.2	+	29	4783	c.4641C>T	c.(4639-4641)GAC>GAT	p.D1547D	MLLT4_uc003qwb.1_Silent_p.D1532D|MLLT4_uc003qwc.1_Silent_p.D1548D|MLLT4_uc003qwg.1_Silent_p.D857D	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1548	Potential.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		GCAAACCGGACCGCAGCGCCG	0.517			T	MLL	AL								12	19	---	---	---	---	PASS	T	168352699	T	T	168352699	2	4	4	1	0	0	0	0	0	0	0	1	9629	506	18	3		3	MLLT4	6	168352699	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	598371	168352699	2762368	1509	2100										
KIF25	3834	broad.mit.edu	37	chr6	168443317	168443317	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgcggccctggcaggcgtCctgggggctttgttggagca	17	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:168443317C>T	uc003qwk.1	+	8	1168	c.906C>T	c.(904-906)GTC>GTT	p.V302V	KIF25_uc003qwl.1_Intron	NM_030615	NP_085118	Q9UIL4	KIF25_HUMAN	kinesin family member 25 isoform 1	302					microtubule-based movement|mitotic sister chromatid segregation	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(1)|pancreas(1)	2		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		TGGCAGGCGTCCTGGGGGCTT	0.647													15	28	---	---	---	---	PASS	T	168443317	T	T	168443317	2	4	4	1	0	0	0	0	0	0	0	1	8293	842	30	2		2	KIF25	6	168443317	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	90618	168443317	2671750	1510	2101										
FRMD1	79981	broad.mit.edu	37	chr6	168464355	168464355	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgaagcacagcatggcctCcttggggctcaggccctggc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:168464355C>T	uc003qwo.3	-	6	795	c.730G>A	c.(730-732)GAG>AAG	p.E244K	FRMD1_uc003qwm.3_Missense_Mutation_p.E15K|FRMD1_uc011egs.1_Missense_Mutation_p.E15K|FRMD1_uc011egt.1_Missense_Mutation_p.E156K|FRMD1_uc003qwn.3_Missense_Mutation_p.E176K	NM_024919	NP_079195	Q8N878	FRMD1_HUMAN	FERM domain containing 1 isoform 1	244	FERM.					cytoskeleton	binding			ovary(1)	1		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		AGCATGGCCTCCTTGGGGCTC	0.652													7	13	---	---	---	---	PASS	T	168464355	T	T	168464355	3	4	4	1	0	0	0	0	1	0	0	0	6049	864	30	2	943	2	FRMD1	6	168464355	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	21038	168464355	2650712	1511	2102	75	2								
FRMD1	79981	broad.mit.edu	37	chr6	168464356	168464356	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaagcacagcatggcctcCttggggctcaggccctggcg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:168464356C>T	uc003qwo.3	-	6	794	c.729G>A	c.(727-729)AAG>AAA	p.K243K	FRMD1_uc003qwm.3_Silent_p.K14K|FRMD1_uc011egs.1_Silent_p.K14K|FRMD1_uc011egt.1_Silent_p.K155K|FRMD1_uc003qwn.3_Silent_p.K175K	NM_024919	NP_079195	Q8N878	FRMD1_HUMAN	FERM domain containing 1 isoform 1	243	FERM.					cytoskeleton	binding			ovary(1)	1		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		GCATGGCCTCCTTGGGGCTCA	0.652													7	13	---	---	---	---	PASS	T	168464356	T	T	168464356	2	4	4	1	0	0	0	0	0	0	0	1	6049	680	24	3		3	FRMD1	6	168464356	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	168464356	2650711	1512	2103	75	2								
THBS2	7058	broad.mit.edu	37	chr6	169648703	169648703	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcagccaggccgacgtcctCcagggagaccacatgccggg	14	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:169648703C>T	uc003qwt.2	-	4	666	c.418G>A	c.(418-420)GAG>AAG	p.E140K		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	140	TSP N-terminal.|Heparin-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CCGACGTCCTCCAGGGAGACC	0.632													14	29	---	---	---	---	PASS	T	169648703	T	T	169648703	3	4	4	1	0	0	0	0	1	0	0	0	15851	864	30	2	3180	2	THBS2	6	169648703	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1184347	169648703	1466364	1513	2104										
THBS2	7058	broad.mit.edu	37	chr6	169648981	169648981	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccggcacgccggggtcgggcCcgcggaactgcttggcgcca	17	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:169648981C>T	uc003qwt.2	-	4	388	c.140G>A	c.(139-141)GGG>GAG	p.G47E		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	47	TSP N-terminal.|Heparin-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		GGGGTCGGGCCCGCGGAACTG	0.582													9	17	---	---	---	---	PASS	T	169648981	T	T	169648981	3	4	4	1	0	0	0	0	1	0	0	0	15851	623	22	3	3458	3	THBS2	6	169648981	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	278	169648981	1466086	1514	2105										
C6orf70	55780	broad.mit.edu	37	chr6	170179304	170179304	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actactgtcccctgtgctcaGcctgatactgttactcattg	7	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:170179304G>A	uc003qxg.1	+	17	1799	c.1766G>A	c.(1765-1767)AGC>AAC	p.S589N	C6orf70_uc011ehb.1_Missense_Mutation_p.S463N|C6orf70_uc003qxh.1_Missense_Mutation_p.S516N|C6orf70_uc010kky.1_Missense_Mutation_p.S416N|C6orf70_uc003qxi.1_Missense_Mutation_p.S237N	NM_018341	NP_060811	Q5T6L9	CF070_HUMAN	hypothetical protein LOC55780	589	Helical; (Potential).					integral to membrane				ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.2e-22)|BRCA - Breast invasive adenocarcinoma(81;1.49e-07)|GBM - Glioblastoma multiforme(31;0.00191)		CCTGTGCTCAGCCTGATACTG	0.398													23	21	---	---	---	---	PASS	A	170179304	A	A	170179304	3	1	4	1	0	0	0	0	1	0	0	0	2370	971	34	3	1832	3	C6orf70	6	170179304	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	530323	170179304	935763	1515	2106										
DLL1	28514	broad.mit.edu	37	chr6	170592612	170592612	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgttcatggtctccgtctcCccccggcaggggtcggctgg	14	14	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr6:170592612C>T	uc003qxm.2	-	9	2225	c.1755G>A	c.(1753-1755)GGG>GGA	p.G585G		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	585	Cytoplasmic (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		TCTCCGTCTCCCCCCGGCAGG	0.627													16	25	---	---	---	---	PASS	T	170592612	T	T	170592612	2	4	4	1	0	0	0	0	0	0	0	1	4566	610	22	3		3	DLL1	6	170592612	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	413308	170592612	522455	1516	2107										
SUN1	23353	broad.mit.edu	37	chr7	892456	892456	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctcttttagcaggtctctCcttacggggccagggcaatt	10	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:892456C>T	uc011jvp.1	+	10	999	c.920C>T	c.(919-921)TCC>TTC	p.S307F	GET4_uc003sjj.1_RNA|SUN1_uc003sjf.2_Missense_Mutation_p.S224F|SUN1_uc011jvq.1_Missense_Mutation_p.S204F|SUN1_uc003sjg.2_Missense_Mutation_p.S212F|SUN1_uc011jvr.1_Missense_Mutation_p.S116F|SUN1_uc003sji.2_Missense_Mutation_p.S145F|SUN1_uc003sjk.2_5'UTR	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	334	Helical.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						GCAGGTCTCTCCTTACGGGGC	0.488													34	73	---	---	---	---	PASS	T	892456	T	T	892456	3	4	4	1	0	0	0	0	1	0	0	0	15388	855	30	2	1137	2	SUN1	7	892456	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08		892456	158246207	1517	2108										
INTS1	26173	broad.mit.edu	37	chr7	1513866	1513866	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccctggtgctcgctgcggaAcacgtgcggctgcagcagct	14	15	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:1513866A>T	uc003skn.2	-	41	5868	c.5767T>A	c.(5767-5769)TTC>ATC	p.F1923I	INTS1_uc003skm.1_Missense_Mutation_p.F60I	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	1923					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		TCGCTGCGGAACACGTGCGGC	0.687											OREG0017827	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	9	---	---	---	---	PASS	T	1513866	T	T	1513866	3	4	4	1	0	0	0	0	1	0	0	0	7775	43	2	5	837	5	INTS1	7	1513866	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	621410	1513866	157624797	1518	2109										
MAD1L1	8379	broad.mit.edu	37	chr7	2257622	2257622	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgctgctcgtggtctgctCttgcttcttggctggcctgg	13	12	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:2257622C>T	uc003slh.1	-	7	919	c.653G>A	c.(652-654)AGA>AAA	p.R218K	MAD1L1_uc003sle.1_5'Flank|MAD1L1_uc003slf.1_Missense_Mutation_p.R218K|MAD1L1_uc003slg.1_Missense_Mutation_p.R218K|MAD1L1_uc010ksh.1_Missense_Mutation_p.R218K|MAD1L1_uc003sli.1_Missense_Mutation_p.R126K|MAD1L1_uc010ksi.1_Missense_Mutation_p.R171K|MAD1L1_uc010ksj.2_Missense_Mutation_p.R218K	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	218	Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		GTGGTCTGCTCTTGCTTCTTG	0.517													18	31	---	---	---	---	PASS	T	2257622	T	T	2257622	3	4	4	1	0	0	0	0	1	0	0	0	9147	913	32	2	1555	2	MAD1L1	7	2257622	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	743756	2257622	156881041	1519	2110										
FTSJ2	29960	broad.mit.edu	37	chr7	2275170	2275170	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatgtgaagaagatctacccCaagcacgaagccaacaggag	10	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:2275170C>T	uc003slm.2	-	3	357	c.328G>A	c.(328-330)GGG>AGG	p.G110R	MAD1L1_uc003slh.1_5'Flank|MAD1L1_uc003slf.1_5'Flank|MAD1L1_uc003slg.1_5'Flank|MAD1L1_uc010ksh.1_5'Flank|MAD1L1_uc003sli.1_5'Flank|MAD1L1_uc010ksi.1_5'Flank|MAD1L1_uc010ksj.2_5'Flank|FTSJ2_uc003slk.2_5'UTR|FTSJ2_uc003sll.2_5'UTR|FTSJ2_uc003sln.2_RNA|FTSJ2_uc003slo.2_5'UTR	NM_013393	NP_037525	Q9UI43	RRMJ2_HUMAN	FtsJ homolog 2	110					cell proliferation	mitochondrion|nucleolus	nucleic acid binding|rRNA (uridine-2'-O-)-methyltransferase activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0822)|OV - Ovarian serous cystadenocarcinoma(56;2.7e-14)		AGATCTACCCCAAGCACGAAG	0.453													15	36	---	---	---	---	PASS	T	2275170	T	T	2275170	3	4	4	1	0	0	0	0	1	0	0	0	6088	594	21	3	416	3	FTSJ2	7	2275170	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	17548	2275170	156863493	1520	2111										
C7orf27	221927	broad.mit.edu	37	chr7	2580984	2580984	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggctgctcgctggacccgGacgcagcccgccagggtccc	15	17	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:2580984G>A	uc003smi.2	-	9	1311	c.1269C>T	c.(1267-1269)GTC>GTT	p.V423V	C7orf27_uc003smh.3_5'UTR	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	423					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)		GCTGGACCCGGACGCAGCCCG	0.682													4	8	---	---	---	---	PASS	A	2580984	A	A	2580984	2	1	4	1	0	0	0	0	0	0	0	1	2382	1161	41	2		2	C7orf27	7	2580984	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	305814	2580984	156557679	1521	2112										
IQCE	23288	broad.mit.edu	37	chr7	2646835	2646835	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacacacggggacgcctcctCcccacccttcctcgcagctc	7	22	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:2646835C>T	uc003smo.3	+	21	2127	c.1943C>T	c.(1942-1944)TCC>TTC	p.S648F	IQCE_uc003sml.1_Missense_Mutation_p.S648F|IQCE_uc011jvy.1_Missense_Mutation_p.S632F|IQCE_uc011jvz.1_Missense_Mutation_p.S583F|IQCE_uc003smk.3_Missense_Mutation_p.S632F|IQCE_uc003smn.3_Missense_Mutation_p.S583F	NM_152558	NP_689771	Q6IPM2	IQCE_HUMAN	IQ motif containing E isoform 1	648											0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.23e-13)		GACGCCTCCTCCCCACCCTTC	0.557													17	29	---	---	---	---	PASS	T	2646835	T	T	2646835	3	4	4	1	0	0	0	0	1	0	0	0	7806	855	30	2	2025	2	IQCE	7	2646835	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	65851	2646835	156491828	1522	2113										
CARD11	84433	broad.mit.edu	37	chr7	2977615	2977615	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgcttgtacatttcacagtCctttcccagggtcgagcact							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:2977615C>T	uc003smv.2	-	8	1473	c.1069G>A	c.(1069-1071)GAC>AAC	p.D357N		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	357	Potential.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		ATTTCACAGTCCTTTCCCAGG	0.562			Mis		DLBCL								21	28	---	---	---	---	PASS	T	2977615	T	T	2977615	3	4	4	1	0	0	0	0	1	0	0	0	2645	855	30	2	2467	2	CARD11	7	2977615	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	330780	2977615	156161048	1523	2114	76	2								
CARD11	84433	broad.mit.edu	37	chr7	2977616	2977616	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcttgtacatttcacagtcCtttcccagggtcgagcactt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:2977616C>T	uc003smv.2	-	8	1472	c.1068G>A	c.(1066-1068)AAG>AAA	p.K356K		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	356	Potential.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		TTTCACAGTCCTTTCCCAGGG	0.562			Mis		DLBCL								22	29	---	---	---	---	PASS	T	2977616	T	T	2977616	2	4	4	1	0	0	0	0	0	0	0	1	2645	680	24	3		3	CARD11	7	2977616	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	2977616	156161047	1524	2115	76	2								
RNF216	54476	broad.mit.edu	37	chr7	5769095	5769095	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcatagtgtcctttgagctCgtgcagggcccacttgatgt	12	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:5769095C>A	uc003soy.1	-	7	1376	c.1186G>T	c.(1186-1188)GAG>TAG	p.E396*	RNF216_uc010ksz.1_Nonsense_Mutation_p.E18*|RNF216_uc010kta.1_Nonsense_Mutation_p.E18*|RNF216_uc011jwj.1_Nonsense_Mutation_p.E18*|RNF216_uc003sox.1_Nonsense_Mutation_p.E453*	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	396					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		CCTTTGAGCTCGTGCAGGGCC	0.512													26	58	---	---	---	---	PASS	A	5769095	A	A	5769095	4	1	4	1	0	0	0	0	0	1	0	0	13480	893	31	2	1458	2	RNF216	7	5769095	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2791479	5769095	153369568	1525	2116										
AIMP2	7965	broad.mit.edu	37	chr7	6057569	6057569	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtccacggtgcacacgcactCctcggtcaagagcgtgcctg	12	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:6057569C>T	uc003spo.2	+	3	580	c.467C>T	c.(466-468)TCC>TTC	p.S156F		NM_006303	NP_006294	Q13155	AIMP2_HUMAN	aminoacyl tRNA synthetase complex-interacting	156	Interaction with PARK2.				apoptosis|cell differentiation|multicellular organismal development|tRNA aminoacylation for protein translation	cytosol|nucleus	protein binding			ovary(1)	1						CACACGCACTCCTCGGTCAAG	0.547													8	23	---	---	---	---	PASS	T	6057569	T	T	6057569	3	4	4	1	0	0	0	0	1	0	0	0	434	855	30	2	477	2	AIMP2	7	6057569	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	288474	6057569	153081094	1526	2117										
CYTH3	9265	broad.mit.edu	37	chr7	6217551	6217551	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaactctgtagcaggtcatTttctattagaaactgaattc	8	7	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:6217551T>A	uc003spt.2	-	5	375	c.271A>T	c.(271-273)AAT>TAT	p.N91Y		NM_004227	NP_004218	O43739	CYH3_HUMAN	cytohesin 3	91	SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|membrane fraction|plasma membrane	1-phosphatidylinositol binding|ARF guanyl-nucleotide exchange factor activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity				0						AGCAGGTCATTTTCTATTAGA	0.418													21	45	---	---	---	---	PASS	A	6217551	A	A	6217551	3	1	4	1	0	0	0	0	1	0	0	0	4205	1841	64	5	964	5	CYTH3	7	6217551	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	159982	6217551	152921112	1527	2118										
C7orf70	84792	broad.mit.edu	37	chr7	6370351	6370351	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acccgaggctctcctttgggGcactgtcctctgtggccgtc	12	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:6370351G>A	uc003spu.2	-	2	903	c.435C>T	c.(433-435)TGC>TGT	p.C145C		NM_001037163	NP_001032240	Q7Z4H9	SIPAR_HUMAN	hypothetical protein LOC84792	145						nucleus					0						CTCCTTTGGGGCACTGTCCTC	0.602													10	14	---	---	---	---	PASS	A	6370351	A	A	6370351	2	1	4	1	0	0	0	0	0	0	0	1	2415	1195	42	3		3	C7orf70	7	6370351	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	152800	6370351	152768312	1528	2119										
COL28A1	340267	broad.mit.edu	37	chr7	7484115	7484115	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggagccctattgagcctggCtctccctggtgaatgaacaa	12	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:7484115C>T	uc003src.1	-	19	1632	c.1515G>A	c.(1513-1515)GAG>GAA	p.E505E	COL28A1_uc011jxe.1_Silent_p.E188E|COL28A1_uc003srd.2_Silent_p.E60E	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	505	Collagen-like 4.				cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		TTGAGCCTGGCTCTCCCTGGT	0.448													12	37	---	---	---	---	PASS	T	7484115	T	T	7484115	2	4	4	1	0	0	0	0	0	0	0	1	3686	796	28	3		3	COL28A1	7	7484115	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1113764	7484115	151654548	1529	2120										
NXPH1	30010	broad.mit.edu	37	chr7	8790773	8790773	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gactcctgtcacagacttttCgtggcaaagagaatgataca	9	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:8790773C>T	uc003srv.2	+	3	1101	c.190C>T	c.(190-192)CGT>TGT	p.R64C	NXPH1_uc011jxh.1_5'UTR	NM_152745	NP_689958	P58417	NXPH1_HUMAN	neurexophilin 1 precursor	64	II.					extracellular region				ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0628)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)		ACAGACTTTTCGTGGCAAAGA	0.463													23	59	---	---	---	---	PASS	T	8790773	T	T	8790773	3	4	4	1	0	0	0	0	1	0	0	0	10790	884	31	2	196	2	NXPH1	7	8790773	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1306658	8790773	150347890	1530	2121										
THSD7A	221981	broad.mit.edu	37	chr7	11521444	11521444	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgcataggccagaatggatCgtgctcgtatctgtttccct	10	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:11521444C>T	uc003ssf.3	-	7	2240	c.1988G>A	c.(1987-1989)CGA>CAA	p.R663Q		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	663	TSP type-1 6.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		CAGAATGGATCGTGCTCGTAT	0.517										HNSCC(18;0.044)			15	45	---	---	---	---	PASS	T	11521444	T	T	11521444	3	4	4	1	0	0	0	0	1	0	0	0	15876	884	31	2	3069	2	THSD7A	7	11521444	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2730671	11521444	147617219	1531	2122										
THSD7A	221981	broad.mit.edu	37	chr7	11630129	11630129	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taattgtgagaggaggttttCgttggcctgcacgcagtaca	13	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:11630129C>T	uc003ssf.3	-	4	1663	c.1411G>A	c.(1411-1413)GAA>AAA	p.E471K		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	471	Extracellular (Potential).|TSP type-1 4.					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		AGGAGGTTTTCGTTGGCCTGC	0.522										HNSCC(18;0.044)			17	40	---	---	---	---	PASS	T	11630129	T	T	11630129	3	4	4	1	0	0	0	0	1	0	0	0	15876	893	31	2	3658	2	THSD7A	7	11630129	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	108685	11630129	147508534	1532	2123										
MEOX2	4223	broad.mit.edu	37	chr7	15725862	15725862	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctggcaaacatgccctcttCgttggggtatcccgcgatta	11	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:15725862C>T	uc003stc.2	-	1	447	c.166G>A	c.(166-168)GAA>AAA	p.E56K	MEOX2_uc011jxw.1_Missense_Mutation_p.E56K	NM_005924	NP_005915	P50222	MEOX2_HUMAN	mesenchyme homeobox 2	56					blood circulation|multicellular organismal development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.0822)		ATGCCCTCTTCGTTGGGGTAT	0.398													4	15	---	---	---	---	PASS	T	15725862	T	T	15725862	3	4	4	1	0	0	0	0	1	0	0	0	9474	893	31	2	760	2	MEOX2	7	15725862	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4095733	15725862	143412801	1533	2124										
HDAC9	9734	broad.mit.edu	37	chr7	18684330	18684330	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacgcattctaattcatgaaGattccatgaacctgctaagt	6	9	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:18684330G>T	uc003suh.2	+	8	981	c.940G>T	c.(940-942)GAT>TAT	p.D314Y	HDAC9_uc003sue.2_Missense_Mutation_p.D314Y|HDAC9_uc011jyd.1_Missense_Mutation_p.D314Y|HDAC9_uc003sui.2_Missense_Mutation_p.D317Y|HDAC9_uc003suj.2_Missense_Mutation_p.D273Y|HDAC9_uc011jya.1_Missense_Mutation_p.D311Y|HDAC9_uc003sua.1_Missense_Mutation_p.D292Y|HDAC9_uc011jyb.1_Missense_Mutation_p.D270Y|HDAC9_uc003sud.1_Missense_Mutation_p.D314Y|HDAC9_uc011jyc.1_Missense_Mutation_p.D273Y|HDAC9_uc003suf.1_Missense_Mutation_p.D345Y|HDAC9_uc010kud.1_Missense_Mutation_p.D317Y|HDAC9_uc011jye.1_Missense_Mutation_p.D286Y|HDAC9_uc011jyf.1_Missense_Mutation_p.D237Y|HDAC9_uc010kue.1_Missense_Mutation_p.D57Y	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	314	Interaction with MAPK10 (By similarity).				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	AATTCATGAAGATTCCATGAA	0.403													16	35	---	---	---	---	PASS	T	18684330	T	T	18684330	3	4	4	1	0	0	0	0	1	0	0	0	7014	942	33	2	979	2	HDAC9	7	18684330	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2958468	18684330	140454333	1534	2125										
HDAC9	9734	broad.mit.edu	37	chr7	18875092	18875092	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttttcatttccctgtaggaTgttcaccatggaaacggtac	9	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:18875092T>G	uc003suh.2	+	19	2501	c.2460T>G	c.(2458-2460)GAT>GAG	p.D820E	HDAC9_uc003sue.2_Missense_Mutation_p.D820E|HDAC9_uc011jyd.1_Missense_Mutation_p.D820E|HDAC9_uc003sui.2_Missense_Mutation_p.D823E|HDAC9_uc003suj.2_Missense_Mutation_p.D779E|HDAC9_uc003suk.2_Missense_Mutation_p.D68E	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	820	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CCCTGTAGGATGTTCACCATG	0.448													8	20	---	---	---	---	PASS	G	18875092	G	G	18875092	3	3	4	1	0	0	0	0	1	0	0	0	7014	1461	51	5	2594	5	HDAC9	7	18875092	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	190762	18875092	140263571	1535	2126										
ITGB8	3696	broad.mit.edu	37	chr7	20418838	20418838	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catttttctcccgtgactttCgtcttggatttggctcatac	7	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:20418838C>T	uc003suu.2	+	4	1258	c.553C>T	c.(553-555)CGT>TGT	p.R185C	ITGB8_uc011jyh.1_Missense_Mutation_p.R50C|ITGB8_uc003sut.2_Missense_Mutation_p.R185C	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	185	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						CCGTGACTTTCGTCTTGGATT	0.363													17	24	---	---	---	---	PASS	T	20418838	T	T	20418838	3	4	4	1	0	0	0	0	1	0	0	0	7901	884	31	2	567	2	ITGB8	7	20418838	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1543746	20418838	138719825	1536	2127										
ABCB5	340273	broad.mit.edu	37	chr7	20683155	20683155	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaaaacatgtctactttttCgattggcctggcagttggtt	9	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:20683155C>T	uc010kuh.2	+	7	815	c.578C>T	c.(577-579)TCG>TTG	p.S193L		NM_001163941	NP_001157413	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						TCTACTTTTTCGATTGGCCTG	0.423													40	61	---	---	---	---	PASS	T	20683155	T	T	20683155	3	4	4	1	0	0	0	0	1	0	0	0	44	893	31	2	600	2	ABCB5	7	20683155	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	264317	20683155	138455508	1537	2128										
DNAH11	8701	broad.mit.edu	37	chr7	21778373	21778373	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcataactatggtcctggagGaaataaaaaattgatttatt	7	4	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:21778373G>A	uc003svc.2	+	48	7752	c.7721G>A	c.(7720-7722)GGA>GAA	p.G2574E		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2574	AAA 3 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GGTCCTGGAGGAAATAAAAAA	0.383									Kartagener_syndrome				4	6	---	---	---	---	PASS	A	21778373	A	A	21778373	3	1	4	1	0	0	0	0	1	0	0	0	4599	1174	41	2	7908	2	DNAH11	7	21778373	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1095218	21778373	137360290	1538	2129										
CHN2	1124	broad.mit.edu	37	chr7	29438081	29438081	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaagccagcggcaaccagGatgctacacgctggctctca	11	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:29438081G>A	uc003szz.2	+	5	706	c.269G>A	c.(268-270)GGA>GAA	p.G90E	CHN2_uc011jzs.1_Missense_Mutation_p.G165E|CHN2_uc010kva.2_Intron|CHN2_uc010kvb.2_Intron|CHN2_uc010kvc.2_Missense_Mutation_p.G55E|CHN2_uc011jzt.1_Missense_Mutation_p.G103E|CHN2_uc010kvd.2_Intron|CHN2_uc011jzu.1_Missense_Mutation_p.G75E	NM_004067	NP_004058	P52757	CHIO_HUMAN	beta chimerin isoform 2	90	SH2.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|membrane	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)	2						CGGCAACCAGGATGCTACACG	0.493													14	30	---	---	---	---	PASS	A	29438081	A	A	29438081	3	1	4	1	0	0	0	0	1	0	0	0	3363	1174	41	2	287	2	CHN2	7	29438081	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	7659708	29438081	129700582	1539	2130										
CHN2	1124	broad.mit.edu	37	chr7	29539651	29539651	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgcattcgggaaattgaagCaagaggtttggaaaatactt	11	4	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:29539651C>T	uc003szz.2	+	9	1345	c.908C>T	c.(907-909)GCA>GTA	p.A303V	CHN2_uc011jzs.1_Missense_Mutation_p.A378V|CHN2_uc010kva.2_Missense_Mutation_p.A73V|CHN2_uc010kvb.2_Intron|CHN2_uc010kvc.2_Missense_Mutation_p.A268V|CHN2_uc011jzt.1_Missense_Mutation_p.A316V|CHN2_uc010kvd.2_Missense_Mutation_p.A159V|CHN2_uc011jzu.1_Missense_Mutation_p.A288V|CHN2_uc010kvg.2_Missense_Mutation_p.A167V|CHN2_uc010kvh.2_Intron|CHN2_uc010kvi.2_Missense_Mutation_p.A167V|CHN2_uc010kve.2_Missense_Mutation_p.A167V|CHN2_uc003taa.2_Missense_Mutation_p.A167V|CHN2_uc010kvf.2_Intron|CHN2_uc010kvj.2_Missense_Mutation_p.A122V|CHN2_uc010kvk.2_Intron|CHN2_uc010kvl.2_RNA|CHN2_uc010kvm.2_Missense_Mutation_p.A122V|CHN2_uc011jzv.1_Missense_Mutation_p.A96V	NM_004067	NP_004058	P52757	CHIO_HUMAN	beta chimerin isoform 2	303	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|membrane	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)	2						GAAATTGAAGCAAGAGGTTTG	0.373													7	17	---	---	---	---	PASS	T	29539651	T	T	29539651	3	4	4	1	0	0	0	0	1	0	0	0	3363	710	25	3	1110	3	CHN2	7	29539651	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	101570	29539651	129599012	1540	2131										
WIPF3	644150	broad.mit.edu	37	chr7	29918688	29918688	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acgaggcgcgagcacacctcCcaccctgggagatctgtttg	12	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:29918688C>T	uc003taj.1	+	3	287	c.287C>T	c.(286-288)CCC>CTC	p.P96L		NM_001080529	NP_001073998	A6NGB9	WIPF3_HUMAN	WAS/WASL interacting protein family, member 3	96										ovary(1)	1						AGCACACCTCCCACCCTGGGA	0.517													13	7	---	---	---	---	PASS	T	29918688	T	T	29918688	3	4	4	1	0	0	0	0	1	0	0	0	17366	623	22	3	297	3	WIPF3	7	29918688	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	379037	29918688	129219975	1541	2132										
FAM188B	84182	broad.mit.edu	37	chr7	30831042	30831042	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagggccaggccgagggatCcctccgaggacaccccagca	13	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:30831042C>T	uc003tbt.2	+	5	1002	c.925C>T	c.(925-927)CCC>TCC	p.P309S	FAM188B_uc010kwe.2_Missense_Mutation_p.P280S	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	309											0						GCCGAGGGATCCCTCCGAGGA	0.612													9	12	---	---	---	---	PASS	T	30831042	T	T	30831042	3	4	4	1	0	0	0	0	1	0	0	0	5515	855	30	2	943	2	FAM188B	7	30831042	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	912354	30831042	128307621	1542	2133										
ADCYAP1R1	117	broad.mit.edu	37	chr7	31132350	31132350	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatgagtccagcatctacttGtaagtaccattgtgtggctg	10	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:31132350G>C	uc003tca.1	+	13	1269	c.1046_splice	c.e13+1	p.L349_splice	ADCYAP1R1_uc003tcb.1_Splice_Site_p.L328_splice|ADCYAP1R1_uc003tcc.1_Splice_Site_p.L349_splice|ADCYAP1R1_uc003tcd.1_Splice_Site_p.F349_splice|ADCYAP1R1_uc003tce.1_Splice_Site_p.F349_splice|ADCYAP1R1_uc003tcf.1_Splice_Site_p.L51_splice	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1						activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						GCATCTACTTGTAAGTACCAT	0.507													10	9	---	---	---	---	PASS	C	31132350	C	C	31132350	5	2	4	1	0	0	0	0	0	0	1	0	303	1391	48	4	1093	4	ADCYAP1R1	7	31132350	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	301308	31132350	128006313	1543	2134										
NEUROD6	63974	broad.mit.edu	37	chr7	31377977	31377977	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcaacctgaacatggcaccCtgcccaaggggacccctggg	13	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:31377977C>T	uc003tch.2	-	2	1259	c.906G>A	c.(904-906)CAG>CAA	p.Q302Q		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	302					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						ACATGGCACCCTGCCCAAGGG	0.478													6	22	---	---	---	---	PASS	T	31377977	T	T	31377977	2	4	4	1	0	0	0	0	0	0	0	1	10351	680	24	3		3	NEUROD6	7	31377977	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	245627	31377977	127760686	1544	2135										
NEUROD6	63974	broad.mit.edu	37	chr7	31378752	31378752	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccttttgatgctctttcctCgaaggacaatctgtttggaa	8	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:31378752C>T	uc003tch.2	-	2	484	c.131G>A	c.(130-132)CGA>CAA	p.R44Q		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	44					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						GCTCTTTCCTCGAAGGACAAT	0.333													25	58	---	---	---	---	PASS	T	31378752	T	T	31378752	3	4	4	1	0	0	0	0	1	0	0	0	10351	884	31	2	886	2	NEUROD6	7	31378752	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	775	31378752	127759911	1545	2136										
CCDC129	223075	broad.mit.edu	37	chr7	31682588	31682588	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacgaggggagaatgcccaaGgaaagacagccatctgtggc	14	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:31682588G>A	uc003tcj.1	+	11	2597	c.1604G>A	c.(1603-1605)AGG>AAG	p.R535K	CCDC129_uc011kad.1_Missense_Mutation_p.R545K|CCDC129_uc003tci.1_Missense_Mutation_p.R386K|CCDC129_uc011kae.1_Missense_Mutation_p.R561K|CCDC129_uc003tck.1_Missense_Mutation_p.R443K	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	535											0						GAATGCCCAAGGAAAGACAGC	0.547													33	111	---	---	---	---	PASS	A	31682588	A	A	31682588	3	1	4	1	0	0	0	0	1	0	0	0	2764	1000	35	3	1642	3	CCDC129	7	31682588	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	303836	31682588	127456075	1546	2137										
BBS9	27241	broad.mit.edu	37	chr7	33427609	33427609	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aattattcattgcagctacgGataaatggtgaaaaattaga	8	4	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:33427609G>A	uc003tdn.1	+	19	2481	c.1968G>A	c.(1966-1968)CGG>CGA	p.R656R	BBS9_uc003tdo.1_Silent_p.R621R|BBS9_uc003tdp.1_Silent_p.R651R|BBS9_uc003tdq.1_Silent_p.R616R|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Silent_p.R180R|BBS9_uc003tds.1_Silent_p.R79R|BBS9_uc003tdt.2_RNA	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	656					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			TGCAGCTACGGATAAATGGTG	0.318									Bardet-Biedl_syndrome				28	93	---	---	---	---	PASS	A	33427609	A	A	33427609	2	1	4	1	0	0	0	0	0	0	0	1	1342	1161	41	2		2	BBS9	7	33427609	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1745021	33427609	125711054	1547	2138										
EPDR1	54749	broad.mit.edu	37	chr7	37988542	37988542	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctgacacagccctgggatCctcttgacattcctcaaaac	6	16	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:37988542C>T	uc003tfp.2	+	2	749	c.730C>T	c.(730-732)CCT>TCT	p.P244S	EPDR1_uc003tfq.2_Intron|EPDR1_uc010kxh.2_Missense_Mutation_p.P63S	NM_017549	NP_060019	Q9UM22	EPDR1_HUMAN	ependymin related protein 1 precursor	124					cell-matrix adhesion	extracellular region	calcium ion binding			upper_aerodigestive_tract(1)	1						GCCCTGGGATCCTCTTGACAT	0.488													17	52	---	---	---	---	PASS	T	37988542	T	T	37988542	3	4	4	1	0	0	0	0	1	0	0	0	5163	855	30	2	736	2	EPDR1	7	37988542	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4560933	37988542	121150121	1548	2139										
AMPH	273	broad.mit.edu	37	chr7	38475876	38475876	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaaagcacctgatacctgaGacatgggtgagtgggtcact	12	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:38475876G>A	uc003tgu.2	-	12	1199	c.1130C>T	c.(1129-1131)TCT>TTT	p.S377F	AMPH_uc003tgv.2_Missense_Mutation_p.S377F|AMPH_uc003tgt.2_Missense_Mutation_p.S130F	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	377					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						TGATACCTGAGACATGGGTGA	0.463													16	24	---	---	---	---	PASS	A	38475876	A	A	38475876	3	1	4	1	0	0	0	0	1	0	0	0	588	942	33	2	997	2	AMPH	7	38475876	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	487334	38475876	120662787	1549	2140										
HECW1	23072	broad.mit.edu	37	chr7	43506110	43506110	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcaccttgctgctgcagtcCccagcggtcaagttcatcac	8	15	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:43506110C>T	uc003tid.1	+	15	3461	c.2856C>T	c.(2854-2856)TCC>TCT	p.S952S	HECW1_uc011kbi.1_Silent_p.S918S	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	952					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						TGCTGCAGTCCCCAGCGGTCA	0.493													15	36	---	---	---	---	PASS	T	43506110	T	T	43506110	2	4	4	1	0	0	0	0	0	0	0	1	7042	610	22	3		3	HECW1	7	43506110	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	5030234	43506110	115632553	1550	2141										
HECW1	23072	broad.mit.edu	37	chr7	43594213	43594213	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taccacgatgggcatcttgtGatccgctggttctgggctgc	13	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:43594213G>A	uc003tid.1	+	29	5138	c.4533G>A	c.(4531-4533)GTG>GTA	p.V1511V	HECW1_uc011kbi.1_Silent_p.V1477V	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1511	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GGCATCTTGTGATCCGCTGGT	0.388													6	12	---	---	---	---	PASS	A	43594213	A	A	43594213	2	1	4	1	0	0	0	0	0	0	0	1	7042	1277	45	2		2	HECW1	7	43594213	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	88103	43594213	115544450	1551	2142										
URGCP	55665	broad.mit.edu	37	chr7	43917324	43917324	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggaggctgtctcagtcgcgGctgggccacccgtgccaggc	16	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:43917324G>A	uc003tiw.2	-	6	1795	c.1738C>T	c.(1738-1740)CCG>TCG	p.P580S	URGCP_uc003tiu.2_Missense_Mutation_p.P537S|URGCP_uc003tiv.2_Missense_Mutation_p.P505S|URGCP_uc003tix.2_Missense_Mutation_p.P571S|URGCP_uc003tiy.2_Missense_Mutation_p.P537S|URGCP_uc003tiz.2_Missense_Mutation_p.P537S|URGCP_uc011kbj.1_Missense_Mutation_p.P537S	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	580					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						CTCAGTCGCGGCTGGGCCACC	0.657													11	12	---	---	---	---	PASS	A	43917324	A	A	43917324	3	1	4	1	0	0	0	0	1	0	0	0	17023	1203	42	3	1061	3	URGCP	7	43917324	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	323111	43917324	115221339	1552	2143										
MYL7	58498	broad.mit.edu	37	chr7	44178574	44178574	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagcacagtgacttgtagtcGatgttccccgccaggtccat	10	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:44178574G>A	uc003tkg.2	-	7	486	c.474C>T	c.(472-474)ATC>ATT	p.I158I		NM_021223	NP_067046	Q01449	MLRA_HUMAN	myosin light chain 2a	158	EF-hand 3.				actin filament-based movement|smooth muscle contraction	A band|myosin complex	ATPase activity, coupled|calcium ion binding|microfilament motor activity				0						ACTTGTAGTCGATGTTCCCCG	0.617													20	30	---	---	---	---	PASS	A	44178574	A	A	44178574	2	1	4	1	0	0	0	0	0	0	0	1	10053	1048	37	2		2	MYL7	7	44178574	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	261250	44178574	114960089	1553	2144										
GCK	2645	broad.mit.edu	37	chr7	44187324	44187324	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaactcgtccagctcgccgGagtccccgaaggcgccccac	12	18	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:44187324G>A	uc003tkl.2	-	7	1258	c.788C>T	c.(787-789)TCC>TTC	p.S263F	GCK_uc003tkh.1_5'Flank|GCK_uc003tki.1_5'Flank|GCK_uc003tkj.1_Missense_Mutation_p.S262F|GCK_uc003tkk.1_Missense_Mutation_p.S264F	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	263					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						CAGCTCGCCGGAGTCCCCGAA	0.632													16	41	---	---	---	---	PASS	A	44187324	A	A	44187324	3	1	4	1	0	0	0	0	1	0	0	0	6293	1174	41	2	625	2	GCK	7	44187324	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	8750	44187324	114951339	1554	2145										
DDX56	54606	broad.mit.edu	37	chr7	44613194	44613194	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttacccaccgccttcctatgGagcaacagctgcagcatcgg	9	15	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:44613194G>A	uc003tlg.2	-	2	853	c.210C>T	c.(208-210)CTC>CTT	p.L70L	DDX56_uc003tle.2_RNA|DDX56_uc003tlf.2_Silent_p.L6L|DDX56_uc003tlh.2_RNA|DDX56_uc010kyg.2_Silent_p.L70L|DDX56_uc010kyh.1_RNA	NM_019082	NP_061955	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	70	Helicase ATP-binding.				rRNA processing	nucleolus	ATP binding|ATP-dependent RNA helicase activity|identical protein binding|RNA binding			upper_aerodigestive_tract(1)	1						CCTTCCTATGGAGCAACAGCT	0.612													26	58	---	---	---	---	PASS	A	44613194	A	A	44613194	2	1	4	1	0	0	0	0	0	0	0	1	4374	1161	41	2		2	DDX56	7	44613194	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	425870	44613194	114525469	1555	2146										
OGDH	4967	broad.mit.edu	37	chr7	44721341	44721341	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catgtccatcctgttgcatgGggatgctgcatttgctggcc	12	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:44721341G>T	uc003tln.2	+	10	1338	c.1229G>T	c.(1228-1230)GGG>GTG	p.G410V	OGDH_uc011kbx.1_Missense_Mutation_p.G406V|OGDH_uc011kby.1_Missense_Mutation_p.G260V|OGDH_uc003tlp.2_Missense_Mutation_p.G421V|OGDH_uc011kbz.1_Missense_Mutation_p.G205V|OGDH_uc003tlo.1_Missense_Mutation_p.G243V	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	410					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	CTGTTGCATGGGGATGCTGCA	0.517													5	73	---	---	---	---	PASS	T	44721341	T	T	44721341	3	4	4	1	0	0	0	0	1	0	0	0	10839	1232	43	3	1436	3	OGDH	7	44721341	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	108147	44721341	114417322	1556	2147										
MYO1G	64005	broad.mit.edu	37	chr7	45004658	45004658	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggggcatgtctgaagggggGatgttcttcaccagctgccg	16	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:45004658G>A	uc003tmh.2	-	18	2556	c.2412C>T	c.(2410-2412)ATC>ATT	p.I804I	MYO1G_uc003tmf.2_Silent_p.I247I|MYO1G_uc003tmg.2_Silent_p.I566I|MYO1G_uc010kym.2_Silent_p.I689I	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	804						myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						CTGAAGGGGGGATGTTCTTCA	0.662													15	15	---	---	---	---	PASS	A	45004658	A	A	45004658	2	1	4	1	0	0	0	0	0	0	0	1	10074	1164	41	2		2	MYO1G	7	45004658	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	283317	45004658	114134005	1557	2148										
IGFBP3	3486	broad.mit.edu	37	chr7	45956837	45956837	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgtctcccgcttggactcgGaggagaagttctgggtatct	13	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:45956837G>A	uc003tns.2	-	2	737	c.605C>T	c.(604-606)TCC>TTC	p.S202F	IGFBP3_uc003tnq.2_RNA|IGFBP3_uc003tnr.2_Missense_Mutation_p.S208F|IGFBP3_uc003tnt.2_Missense_Mutation_p.S105F	NM_000598	NP_000589	P17936	IBP3_HUMAN	insulin-like growth factor binding protein 3	202	Ser/Thr-rich.				negative regulation of protein phosphorylation|negative regulation of signal transduction|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|positive regulation of apoptosis|positive regulation of myoblast differentiation|protein phosphorylation|regulation of cell growth	nucleus	insulin-like growth factor I binding|metal ion binding|protein tyrosine phosphatase activator activity			large_intestine(2)|lung(1)	3					Mecasermin(DB01277)	CTTGGACTCGGAGGAGAAGTT	0.493											OREG0018049	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	50	73	---	---	---	---	PASS	A	45956837	A	A	45956837	3	1	4	1	0	0	0	0	1	0	0	0	7580	1174	41	2	282	2	IGFBP3	7	45956837	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	952179	45956837	113181826	1558	2149										
C7orf65	401335	broad.mit.edu	37	chr7	47698586	47698586	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagcctgctggggaagcagGgagctgctatttctgttcaa	14	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:47698586G>A	uc010kyp.1	+	3	251	c.216G>A	c.(214-216)AGG>AGA	p.R72R		NM_001123065	NP_001116537	Q6ZTY9	CG065_HUMAN	hypothetical protein LOC401335	72											0						GGGGAAGCAGGGAGCTGCTAT	0.507													11	25	---	---	---	---	PASS	A	47698586	A	A	47698586	2	1	4	1	0	0	0	0	0	0	0	1	2411	1223	43	3		3	C7orf65	7	47698586	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1741749	47698586	111440077	1559	2150										
PKD1L1	168507	broad.mit.edu	37	chr7	47835608	47835608	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgattctcaaccatctcagcCtcttccaactttggtgtttc	5	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:47835608C>T	uc003tny.1	-	55	8334	c.8334G>A	c.(8332-8334)GAG>GAA	p.E2778E	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2778	Cytoplasmic (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CCATCTCAGCCTCTTCCAACT	0.398													10	35	---	---	---	---	PASS	T	47835608	T	T	47835608	2	4	4	1	0	0	0	0	0	0	0	1	11964	680	24	3		3	PKD1L1	7	47835608	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	137022	47835608	111303055	1560	2151										
PKD1L1	168507	broad.mit.edu	37	chr7	47937673	47937673	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtccacagcagcagggaggGagacagggagcccttcagag	16	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:47937673G>A	uc003tny.1	-	14	2183	c.2183C>T	c.(2182-2184)TCC>TTC	p.S728F		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	728	Extracellular (Potential).|REJ.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AGCAGGGAGGGAGACAGGGAG	0.552													10	20	---	---	---	---	PASS	A	47937673	A	A	47937673	3	1	4	1	0	0	0	0	1	0	0	0	11964	1174	41	2	6542	2	PKD1L1	7	47937673	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	102065	47937673	111200990	1561	2152										
ABCA13	154664	broad.mit.edu	37	chr7	48259101	48259101	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtagaacgatccaacactccAggcaagtaaacctctcataa	6	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:48259101A>G	uc003toq.2	+	4	463	c.438A>G	c.(436-438)CCA>CCG	p.P146P	ABCA13_uc003top.2_Silent_p.P146P|ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	146					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CCAACACTCCAGGCAAGTAAA	0.428													41	115	---	---	---	---	PASS	G	48259101	G	G	48259101	2	3	4	1	0	0	0	0	0	0	0	1	31	202	7	5		5	ABCA13	7	48259101	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	321428	48259101	110879562	1562	2153										
ABCA13	154664	broad.mit.edu	37	chr7	48267014	48267014	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagtgaaccttctccagacCattttgaagtgagtgaaaaa	9	8	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:48267014C>T	uc003toq.2	+	6	649	c.624C>T	c.(622-624)ACC>ACT	p.T208T	ABCA13_uc003top.2_Silent_p.T208T|ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	208					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TTCTCCAGACCATTTTGAAGT	0.333													22	59	---	---	---	---	PASS	T	48267014	T	T	48267014	2	4	4	1	0	0	0	0	0	0	0	1	31	581	21	3		3	ABCA13	7	48267014	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	7913	48267014	110871649	1563	2154										
ABCA13	154664	broad.mit.edu	37	chr7	48273711	48273711	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggctttgatgatcttcacaCggaacagatcctgaactctt	8	10	3	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:48273711C>T	uc003toq.2	+	8	885	c.860C>T	c.(859-861)ACG>ATG	p.T287M	ABCA13_uc010kyr.2_Translation_Start_Site	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	287					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GATCTTCACACGGAACAGATC	0.483													28	66	---	---	---	---	PASS	T	48273711	T	T	48273711	3	4	4	1	0	0	0	0	1	0	0	0	31	536	19	1	719	1	ABCA13	7	48273711	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6697	48273711	110864952	1564	2155										
ABCA13	154664	broad.mit.edu	37	chr7	48311894	48311894	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttaacttttcccagttgttCcattcagattggcctaaatc	5	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:48311894C>T	uc003toq.2	+	17	2656	c.2631C>T	c.(2629-2631)TTC>TTT	p.F877F	ABCA13_uc010kyr.2_Silent_p.F380F	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	877					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CCCAGTTGTTCCATTCAGATT	0.333													22	67	---	---	---	---	PASS	T	48311894	T	T	48311894	2	4	4	1	0	0	0	0	0	0	0	1	31	854	30	2		2	ABCA13	7	48311894	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	38183	48311894	110826769	1565	2156										
ABCA13	154664	broad.mit.edu	37	chr7	48313813	48313813	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttgattttgcatctcagtCcaattggagatattttactg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:48313813C>T	uc003toq.2	+	17	4575	c.4550C>T	c.(4549-4551)TCC>TTC	p.S1517F	ABCA13_uc010kyr.2_Missense_Mutation_p.S1020F	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1517					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GCATCTCAGTCCAATTGGAGA	0.294													8	16	---	---	---	---	PASS	T	48313813	T	T	48313813	3	4	4	1	0	0	0	0	1	0	0	0	31	855	30	2	4445	2	ABCA13	7	48313813	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1919	48313813	110824850	1566	2157	77	2								
ABCA13	154664	broad.mit.edu	37	chr7	48313814	48313814	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgattttgcatctcagtcCaattggagatattttactga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:48313814C>T	uc003toq.2	+	17	4576	c.4551C>T	c.(4549-4551)TCC>TCT	p.S1517S	ABCA13_uc010kyr.2_Silent_p.S1020S	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1517					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CATCTCAGTCCAATTGGAGAT	0.294													9	16	---	---	---	---	PASS	T	48313814	T	T	48313814	2	4	4	1	0	0	0	0	0	0	0	1	31	581	21	3		3	ABCA13	7	48313814	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	48313814	110824849	1567	2158	77	2								
ABCA13	154664	broad.mit.edu	37	chr7	48559636	48559636	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttctttttttcactgtgcaGaatttacagaatatctatga	5	6	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:48559636G>A	uc003toq.2	+	53	13823	c.13798_splice	c.e53-1	p.N4600_splice	ABCA13_uc010kys.1_Splice_Site_p.N1675_splice|ABCA13_uc010kyt.1_Splice_Site|ABCA13_uc010kyu.1_Splice_Site_p.N330_splice	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),						transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TCACTGTGCAGAATTTACAGA	0.338													10	14	---	---	---	---	PASS	A	48559636	A	A	48559636	5	1	4	1	0	0	0	0	0	0	1	0	31	956	33	2	13836	2	ABCA13	7	48559636	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	245822	48559636	110579027	1568	2159										
ABCA13	154664	broad.mit.edu	37	chr7	48634393	48634393	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcgggaaggctgtgctgcgGtgctgacctcccacaggtga	15	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:48634393G>A	uc003toq.2	+	58	14753	c.14728G>A	c.(14728-14730)GTG>ATG	p.V4910M	ABCA13_uc010kys.1_Missense_Mutation_p.V1985M|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Missense_Mutation_p.V640M	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4910	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CTGTGCTGCGGTGCTGACCTC	0.463													39	55	---	---	---	---	PASS	A	48634393	A	A	48634393	3	1	4	1	0	0	0	0	1	0	0	0	31	1261	44	3	14787	3	ABCA13	7	48634393	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	74757	48634393	110504270	1569	2160										
ZNF479	90827	broad.mit.edu	37	chr7	57187652	57187652	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttcacatttgtagggtttCtctccagtatgaattctctt	6	9	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:57187652C>T	uc010kzo.2	-	5	1741	c.1470G>A	c.(1468-1470)GAG>GAA	p.E490E		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	490					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TGTAGGGTTTCTCTCCAGTAT	0.393													15	36	---	---	---	---	PASS	T	57187652	T	T	57187652	2	4	4	1	0	0	0	0	0	0	0	1	17930	912	32	2		2	ZNF479	7	57187652	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	8553259	57187652	101951011	1570	2161										
KCTD7	154881	broad.mit.edu	37	chr7	66103962	66103962	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatcaccccctatgagtgtCcgctcctcaactccctgcga	6	19	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:66103962C>T	uc003tve.2	+	4	775	c.613C>T	c.(613-615)CCG>TCG	p.P205S	RABGEF1_uc003tvf.2_Intron|KCTD7_uc003tvd.3_Missense_Mutation_p.P205S	NM_153033	NP_694578	Q96MP8	KCTD7_HUMAN	potassium channel tetramerisation domain	205						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)	3						CTATGAGTGTCCGCTCCTCAA	0.597													14	25	---	---	---	---	PASS	T	66103962	T	T	66103962	3	4	4	1	0	0	0	0	1	0	0	0	8114	855	30	2	627	2	KCTD7	7	66103962	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	8916310	66103962	93034701	1571	2162										
AUTS2	26053	broad.mit.edu	37	chr7	70246667	70246667	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgagttcctgagccgccctCcaggccccagtctttttgga	10	15	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:70246667C>T	uc003tvw.3	+	15	2814	c.2071C>T	c.(2071-2073)CCA>TCA	p.P691S	AUTS2_uc003tvx.3_Missense_Mutation_p.P667S|AUTS2_uc011keg.1_Missense_Mutation_p.P143S	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	691										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		GAGCCGCCCTCCAGGCCCCAG	0.572													35	61	---	---	---	---	PASS	T	70246667	T	T	70246667	3	4	4	1	0	0	0	0	1	0	0	0	1225	855	30	2	2274	2	AUTS2	7	70246667	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4142705	70246667	88891996	1572	2163										
FZD9	8326	broad.mit.edu	37	chr7	72849152	72849152	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccatcatcttcctctccaTgtgctacaacgtctactcgc	4	18	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:72849152T>A	uc003tyb.2	+	1	1044	c.815T>A	c.(814-816)ATG>AAG	p.M272K		NM_003508	NP_003499	O00144	FZD9_HUMAN	frizzled 9 precursor	272	Helical; Name=2; (Potential).				B cell differentiation|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|neuroblast proliferation|vasculature development	cell surface|filopodium membrane|integral to membrane|perinuclear region of cytoplasm	G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				TTCCTCTCCATGTGCTACAAC	0.642													34	57	---	---	---	---	PASS	A	72849152	A	A	72849152	3	1	4	1	0	0	0	0	1	0	0	0	6137	1464	51	5	817	5	FZD9	7	72849152	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	2602485	72849152	86289511	1573	2164										
BAZ1B	9031	broad.mit.edu	37	chr7	72891522	72891522	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgcactgagtatgtcatgaGgatccggtggcacagtgctg	14	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:72891522G>A	uc003tyc.2	-	7	2614	c.2269C>T	c.(2269-2271)CTC>TTC	p.L757F		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	757					ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				TATGTCATGAGGATCCGGTGG	0.453													22	27	---	---	---	---	PASS	A	72891522	A	A	72891522	3	1	4	1	0	0	0	0	1	0	0	0	1330	1000	35	3	2234	3	BAZ1B	7	72891522	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	42370	72891522	86247141	1574	2165										
BAZ1B	9031	broad.mit.edu	37	chr7	72903596	72903596	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcaccaattcatcttctacGacccaaggtgcattttcacc	4	14	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:72903596G>A	uc003tyc.2	-	6	1164	c.819C>T	c.(817-819)GTC>GTT	p.V273V		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	273	Mediates the tyrosine-protein kinase activity.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				CATCTTCTACGACCCAAGGTG	0.423													26	51	---	---	---	---	PASS	A	72903596	A	A	72903596	2	1	4	1	0	0	0	0	0	0	0	1	1330	1045	37	2		2	BAZ1B	7	72903596	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	12074	72903596	86235067	1575	2166										
MLXIPL	51085	broad.mit.edu	37	chr7	73008301	73008301	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtgcccagctggcgtaggGagttcaggacagctgggtgg	18	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:73008301G>A	uc003tyn.1	-	17	2501	c.2453C>T	c.(2452-2454)TCC>TTC	p.S818F	MLXIPL_uc003tyj.1_Missense_Mutation_p.S197F|MLXIPL_uc003tyk.1_Missense_Mutation_p.S797F|MLXIPL_uc003tyl.1_Missense_Mutation_p.S816F|MLXIPL_uc003tym.1_Missense_Mutation_p.S799F|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_3'UTR	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	818					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				CTGGCGTAGGGAGTTCAGGAC	0.612													5	22	---	---	---	---	PASS	A	73008301	A	A	73008301	3	1	4	1	0	0	0	0	1	0	0	0	9637	1174	41	2	109	2	MLXIPL	7	73008301	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	104705	73008301	86130362	1576	2167										
CLDN4	1364	broad.mit.edu	37	chr7	73245659	73245659	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggcagcaacattgtcacctCgcagaccatctgggagggcc	12	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:73245659C>T	uc003tzi.3	+	1	467	c.128C>T	c.(127-129)TCG>TTG	p.S43L	RFC2_uc011kfa.1_Intron|CLDN4_uc003tzh.1_RNA	NM_001305	NP_001296	O14493	CLD4_HUMAN	claudin 4	43	Extracellular (Potential).				calcium-independent cell-cell adhesion	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity|transmembrane receptor activity				0		Lung NSC(55;0.159)				ATTGTCACCTCGCAGACCATC	0.657													7	19	---	---	---	---	PASS	T	73245659	T	T	73245659	3	4	4	1	0	0	0	0	1	0	0	0	3487	893	31	2	130	2	CLDN4	7	73245659	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	237358	73245659	85893004	1577	2168										
GTF2IRD1	9569	broad.mit.edu	37	chr7	73973190	73973190	+	Splice_Site	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaccctgcctctcgcccacaGgggaagccttgggcatcaag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:73973190G>A	uc003uaq.2	+	21	2546	c.2153_splice	c.e21-1	p.G718_splice	GTF2IRD1_uc010lbq.2_Splice_Site_p.G735_splice|GTF2IRD1_uc003uap.2_Splice_Site_p.G703_splice|GTF2IRD1_uc003uar.1_Splice_Site_p.G703_splice	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1							nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CTCGCCCACAGGGGAAGCCTT	0.627													5	14	---	---	---	---	PASS	A	73973190	A	A	73973190	5	1	4	1	0	0	0	0	0	0	1	0	6868	1014	35	3	2230	3	GTF2IRD1	7	73973190	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	727531	73973190	85165473	1578	2169	78	2								
GTF2IRD1	9569	broad.mit.edu	37	chr7	73973191	73973191	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accctgcctctcgcccacagGggaagccttgggcatcaagt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:73973191G>A	uc003uaq.2	+	21	2546	c.2153G>A	c.(2152-2154)GGG>GAG	p.G718E	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.G735E|GTF2IRD1_uc003uap.2_Missense_Mutation_p.G703E|GTF2IRD1_uc003uar.1_Missense_Mutation_p.G703E	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	718	GTF2I-like 4.					nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						TCGCCCACAGGGGAAGCCTTG	0.627													5	13	---	---	---	---	PASS	A	73973191	A	A	73973191	3	1	4	1	0	0	0	0	1	0	0	0	6868	1246	43	3	2231	3	GTF2IRD1	7	73973191	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	73973191	85165472	1579	2170	78	2								
GTF2I	2969	broad.mit.edu	37	chr7	74105324	74105324	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtaaagaactggccaagtCcaaagccgaagtggcctgca	12	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:74105324C>T	uc003uau.2	+	3	489	c.119C>T	c.(118-120)TCC>TTC	p.S40F	GTF2I_uc003uat.2_Missense_Mutation_p.S40F|GTF2I_uc003uav.2_Missense_Mutation_p.S40F|GTF2I_uc003uaw.2_Missense_Mutation_p.S40F|GTF2I_uc003uay.2_Missense_Mutation_p.S40F|GTF2I_uc003uax.2_Missense_Mutation_p.S40F	NM_032999	NP_127492	P78347	GTF2I_HUMAN	general transcription factor IIi isoform 1	40					negative regulation of angiogenesis|signal transduction|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0						CTGGCCAAGTCCAAAGCCGAA	0.413													33	80	---	---	---	---	PASS	T	74105324	T	T	74105324	3	4	4	1	0	0	0	0	1	0	0	0	6867	855	30	2	125	2	GTF2I	7	74105324	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	132133	74105324	85033339	1580	2171										
NCF1	653361	broad.mit.edu	37	chr7	74197370	74197370	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagatggctctgtccacgggGgacgtggtggaggtcgtaga	19	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:74197370G>A	uc003ubb.2	+	6	610	c.540G>A	c.(538-540)GGG>GGA	p.G180G	NCF1_uc010lbs.1_Silent_p.G180G|NCF1_uc011kfh.1_Missense_Mutation_p.G100R	NM_000265	NP_000256	P14598	NCF1_HUMAN	neutrophil cytosolic factor 1	180	SH3 1.				cell communication|cellular defense response|innate immune response|protein targeting to membrane|respiratory burst|superoxide anion generation	cytosol|NADPH oxidase complex|soluble fraction	electron carrier activity|GTP binding|GTPase activity|phosphatidylinositol binding|SH3 domain binding|superoxide-generating NADPH oxidase activity			skin(1)	1						TGTCCACGGGGGACGTGGTGG	0.637													18	25	---	---	---	---	PASS	A	74197370	A	A	74197370	2	1	4	1	0	0	0	0	0	0	0	1	10216	1219	43	3		3	NCF1	7	74197370	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	92046	74197370	84941293	1581	2172										
HIP1	3092	broad.mit.edu	37	chr7	75211415	75211415	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgttcacgtcactttctccaGcctcgtccagctggcggtca	9	15	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:75211415G>A	uc003uds.1	-	6	559	c.518C>T	c.(517-519)GCT>GTT	p.A173V	HIP1_uc011kfz.1_Missense_Mutation_p.A50V	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	173					activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						ACTTTCTCCAGCCTCGTCCAG	0.552			T	PDGFRB	CMML								7	17	---	---	---	---	PASS	A	75211415	A	A	75211415	3	1	4	1	0	0	0	0	1	0	0	0	7114	971	34	3	2699	3	HIP1	7	75211415	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1014045	75211415	83927248	1582	2173										
RHBDD2	57414	broad.mit.edu	37	chr7	75517459	75517459	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcacatgcccaccttgcctcCgtaccagcctgcctccggcc	8	21	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:75517459C>T	uc003udw.1	+	4	971	c.887C>T	c.(886-888)CCG>CTG	p.P296L	RHBDD2_uc003udv.1_Missense_Mutation_p.P155L	NM_001040456	NP_001035546	Q6NTF9	RHBD2_HUMAN	rhomboid domain containing 2 isoform a	296						integral to membrane	serine-type endopeptidase activity				0						ACCTTGCCTCCGTACCAGCCT	0.662													35	65	---	---	---	---	PASS	T	75517459	T	T	75517459	3	4	4	1	0	0	0	0	1	0	0	0	13317	652	23	1	901	1	RHBDD2	7	75517459	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	306044	75517459	83621204	1583	2174										
DTX2	113878	broad.mit.edu	37	chr7	76111997	76111997	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagctcgtggacttggccccCctggggtacaactacactgt	11	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:76111997C>T	uc003uff.3	+	5	997	c.441C>T	c.(439-441)CCC>CCT	p.P147P	DTX2_uc011kgk.1_Silent_p.P56P|DTX2_uc003ufg.3_Silent_p.P147P|DTX2_uc003ufh.3_Silent_p.P147P|DTX2_uc003ufj.3_Silent_p.P147P	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	147	WWE 2.				Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						ACTTGGCCCCCCTGGGGTACA	0.627													3	13	---	---	---	---	PASS	T	76111997	T	T	76111997	2	4	4	1	0	0	0	0	0	0	0	1	4794	610	22	3		3	DTX2	7	76111997	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	594538	76111997	83026666	1584	2175										
DTX2	113878	broad.mit.edu	37	chr7	76132846	76132846	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acggttccagatgtcgctccCcggccacgaggactgcggga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:76132846C>T	uc003uff.3	+	10	2049	c.1493C>T	c.(1492-1494)CCC>CTC	p.P498L	DTX2_uc011kgk.1_Missense_Mutation_p.P407L|DTX2_uc003ufg.3_Missense_Mutation_p.P498L|DTX2_uc003ufh.3_Missense_Mutation_p.P498L|DTX2_uc003ufj.3_Missense_Mutation_p.P451L|DTX2_uc003ufk.3_Missense_Mutation_p.P129L|DTX2_uc003ufm.3_Missense_Mutation_p.P211L|DTX2_uc003ufn.3_Missense_Mutation_p.P83L	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	498					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						ATGTCGCTCCCCGGCCACGAG	0.582													5	17	---	---	---	---	PASS	T	76132846	T	T	76132846	3	4	4	1	0	0	0	0	1	0	0	0	4794	623	22	3	1519	3	DTX2	7	76132846	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	20849	76132846	83005817	1585	2176	79	2								
DTX2	113878	broad.mit.edu	37	chr7	76132847	76132847	+	Silent	SNP	C	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggttccagatgtcgctcccCggccacgaggactgcgggac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:76132847C>A	uc003uff.3	+	10	2050	c.1494C>A	c.(1492-1494)CCC>CCA	p.P498P	DTX2_uc011kgk.1_Silent_p.P407P|DTX2_uc003ufg.3_Silent_p.P498P|DTX2_uc003ufh.3_Silent_p.P498P|DTX2_uc003ufj.3_Silent_p.P451P|DTX2_uc003ufk.3_Silent_p.P129P|DTX2_uc003ufm.3_Silent_p.P211P|DTX2_uc003ufn.3_Silent_p.P83P	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	498					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						TGTCGCTCCCCGGCCACGAGG	0.577													5	17	---	---	---	---	PASS	A	76132847	A	A	76132847	2	1	4	1	0	0	0	0	0	0	0	1	4794	639	23	1		1	DTX2	7	76132847	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	76132847	83005816	1586	2177	79	2								
CCDC146	57639	broad.mit.edu	37	chr7	76903065	76903065	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgagagaaggcgagagcttCacaaggaagttgaagtagct	14	6	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:76903065C>T	uc003uga.2	+	10	1355	c.1228C>T	c.(1228-1230)CAC>TAC	p.H410Y	CCDC146_uc010ldp.2_Intron	NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	410	Potential.									ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				GCGAGAGCTTCACAAGGAAGT	0.353													24	90	---	---	---	---	PASS	T	76903065	T	T	76903065	3	4	4	1	0	0	0	0	1	0	0	0	2780	826	29	2	1262	2	CCDC146	7	76903065	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	770218	76903065	82235598	1587	2178										
PHTF2	57157	broad.mit.edu	37	chr7	77558484	77558484	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcaagttccagacaggattCtgagagtgcaaggccagaat	11	8	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:77558484C>T	uc003ugs.3	+	11	1304	c.1178C>T	c.(1177-1179)TCT>TTT	p.S393F	PHTF2_uc003ugp.2_Missense_Mutation_p.S355F|PHTF2_uc003ugq.3_Missense_Mutation_p.S355F|PHTF2_uc010ldv.2_Missense_Mutation_p.S355F|PHTF2_uc003ugt.3_Missense_Mutation_p.S359F|PHTF2_uc003ugu.3_Missense_Mutation_p.S355F|PHTF2_uc003ugv.2_Missense_Mutation_p.S218F|PHTF2_uc010ldw.1_Missense_Mutation_p.S218F	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	393					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						AGACAGGATTCTGAGAGTGCA	0.418													22	31	---	---	---	---	PASS	T	77558484	T	T	77558484	3	4	4	1	0	0	0	0	1	0	0	0	11863	913	32	2	1168	2	PHTF2	7	77558484	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	655419	77558484	81580179	1588	2179										
MAGI2	9863	broad.mit.edu	37	chr7	77764507	77764507	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcccatcaatgatgcgtccGattttatggggcacagctaa	9	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:77764507G>A	uc003ugx.2	-	17	3116	c.2862C>T	c.(2860-2862)ATC>ATT	p.I954I	MAGI2_uc003ugy.2_Silent_p.I940I|MAGI2_uc010ldx.1_Silent_p.I547I	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	954	PDZ 5.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TGATGCGTCCGATTTTATGGG	0.463													14	41	---	---	---	---	PASS	A	77764507	A	A	77764507	2	1	4	1	0	0	0	0	0	0	0	1	9191	1048	37	2		2	MAGI2	7	77764507	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	206023	77764507	81374156	1589	2180										
MAGI2	9863	broad.mit.edu	37	chr7	78636505	78636505	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttgaggtagtgacgaaggtCtttatcaacaattcctccta	9	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:78636505C>T	uc003ugx.2	-	2	573	c.319G>A	c.(319-321)GAC>AAC	p.D107N	MAGI2_uc003ugy.2_Missense_Mutation_p.D107N	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	107						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TGACGAAGGTCTTTATCAACA	0.383													14	25	---	---	---	---	PASS	T	78636505	T	T	78636505	3	4	4	1	0	0	0	0	1	0	0	0	9191	913	32	2	4132	2	MAGI2	7	78636505	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	871998	78636505	80502158	1590	2181										
PCLO	27445	broad.mit.edu	37	chr7	82390020	82390020	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attaaacgaaggctctcgatCatgtctgcatactcttgttt	7	9	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:82390020C>T	uc003uhx.2	-	24	15512	c.15223G>A	c.(15223-15225)GAT>AAT	p.D5075N		NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4998	C2 2.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GGCTCTCGATCATGTCTGCAT	0.328													13	48	---	---	---	---	PASS	T	82390020	T	T	82390020	3	4	4	1	0	0	0	0	1	0	0	0	11583	826	29	2	213	2	PCLO	7	82390020	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3753515	82390020	76748643	1591	2182										
PCLO	27445	broad.mit.edu	37	chr7	82538253	82538253	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttccggcagttttcggtcCagaccatgtccattttccaa	7	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:82538253C>T	uc003uhx.2	-	8	13666	c.13377G>A	c.(13375-13377)CTG>CTA	p.L4459L	PCLO_uc003uhv.2_Silent_p.L4459L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4390					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GTTTTCGGTCCAGACCATGTC	0.418													20	53	---	---	---	---	PASS	T	82538253	T	T	82538253	2	4	4	1	0	0	0	0	0	0	0	1	11583	581	21	3		3	PCLO	7	82538253	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	148233	82538253	76600410	1592	2183										
PCLO	27445	broad.mit.edu	37	chr7	82546006	82546006	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagatcaagctctctgtctaTgtcctggagaatcttggctc	9	10	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:82546006T>G	uc003uhx.2	-	7	11585	c.11296A>C	c.(11296-11298)ATA>CTA	p.I3766L	PCLO_uc003uhv.2_Missense_Mutation_p.I3766L|PCLO_uc010lec.2_Missense_Mutation_p.I731L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3697					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TCTCTGTCTATGTCCTGGAGA	0.458													17	36	---	---	---	---	PASS	G	82546006	G	G	82546006	3	3	4	1	0	0	0	0	1	0	0	0	11583	1464	51	5	4225	5	PCLO	7	82546006	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	7753	82546006	76592657	1593	2184										
PCLO	27445	broad.mit.edu	37	chr7	82579038	82579038	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgagatgggtgagtaaagGactttgggggatttgggtgg	21	1	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:82579038G>A	uc003uhx.2	-	6	11155	c.10866C>T	c.(10864-10866)GTC>GTT	p.V3622V	PCLO_uc003uhv.2_Silent_p.V3622V|PCLO_uc010lec.2_Silent_p.V587V	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3553					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GTGAGTAAAGGACTTTGGGGG	0.478													33	69	---	---	---	---	PASS	A	82579038	A	A	82579038	2	1	4	1	0	0	0	0	0	0	0	1	11583	1161	41	2		2	PCLO	7	82579038	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	33032	82579038	76559625	1594	2185										
PCLO	27445	broad.mit.edu	37	chr7	82579134	82579134	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctaaaggtgttgggcgtttCttgtctttgggtggagatgt	15	4	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:82579134C>T	uc003uhx.2	-	6	11059	c.10770G>A	c.(10768-10770)AAG>AAA	p.K3590K	PCLO_uc003uhv.2_Silent_p.K3590K|PCLO_uc010lec.2_Silent_p.K555K	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3521					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTGGGCGTTTCTTGTCTTTGG	0.473													20	43	---	---	---	---	PASS	T	82579134	T	T	82579134	2	4	4	1	0	0	0	0	0	0	0	1	11583	912	32	2		2	PCLO	7	82579134	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	96	82579134	76559529	1595	2186										
PCLO	27445	broad.mit.edu	37	chr7	82581358	82581358	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcatactgatagtggtcatCcctataaccaaaacgatcct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:82581358C>T	uc003uhx.2	-	5	9200	c.8911G>A	c.(8911-8913)GAT>AAT	p.D2971N	PCLO_uc003uhv.2_Missense_Mutation_p.D2971N|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2902					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TAGTGGTCATCCCTATAACCA	0.458													40	112	---	---	---	---	PASS	T	82581358	T	T	82581358	3	4	4	1	0	0	0	0	1	0	0	0	11583	855	30	2	6618	2	PCLO	7	82581358	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2224	82581358	76557305	1596	2187	80	2								
PCLO	27445	broad.mit.edu	37	chr7	82581359	82581359	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatactgatagtggtcatcCctataaccaaaacgatcctc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:82581359C>T	uc003uhx.2	-	5	9199	c.8910G>A	c.(8908-8910)AGG>AGA	p.R2970R	PCLO_uc003uhv.2_Silent_p.R2970R|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2901					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGTGGTCATCCCTATAACCAA	0.463													40	111	---	---	---	---	PASS	T	82581359	T	T	82581359	2	4	4	1	0	0	0	0	0	0	0	1	11583	622	22	3		3	PCLO	7	82581359	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	82581359	76557304	1597	2188	80	2								
PCLO	27445	broad.mit.edu	37	chr7	82582984	82582984	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtttaggtgaagttggtgGaggaagtggtgggggaggag	23	0	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:82582984G>A	uc003uhx.2	-	5	7574	c.7285C>T	c.(7285-7287)CCA>TCA	p.P2429S	PCLO_uc003uhv.2_Missense_Mutation_p.P2429S|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2360	Poly-Pro.|Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GAAGTTGGTggaggaagtggt	0.234													4	4	---	---	---	---	PASS	A	82582984	A	A	82582984	3	1	4	1	0	0	0	0	1	0	0	0	11583	1174	41	2	8244	2	PCLO	7	82582984	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1625	82582984	76555679	1598	2189										
PCLO	27445	broad.mit.edu	37	chr7	82584648	82584648	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtacttctattattttttccGggcttatttcaaaaccttct	4	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:82584648G>A	uc003uhx.2	-	5	5910	c.5621C>T	c.(5620-5622)CCG>CTG	p.P1874L	PCLO_uc003uhv.2_Missense_Mutation_p.P1874L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1805					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TATTTTTTCCGGGCTTATTTC	0.388													26	61	---	---	---	---	PASS	A	82584648	A	A	82584648	3	1	4	1	0	0	0	0	1	0	0	0	11583	1116	39	1	9908	1	PCLO	7	82584648	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1664	82584648	76554015	1599	2190										
PCLO	27445	broad.mit.edu	37	chr7	82764182	82764182	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actgctcctgaggctttgggGactgttgaggtgtggggaca	17	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:82764182G>A	uc003uhx.2	-	3	2973	c.2684C>T	c.(2683-2685)TCC>TTC	p.S895F	PCLO_uc003uhv.2_Missense_Mutation_p.S895F	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	841	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGGCTTTGGGGACTGTTGAGG	0.542													43	121	---	---	---	---	PASS	A	82764182	A	A	82764182	3	1	4	1	0	0	0	0	1	0	0	0	11583	1174	41	2	12853	2	PCLO	7	82764182	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	179534	82764182	76374481	1600	2191										
PCLO	27445	broad.mit.edu	37	chr7	82764680	82764680	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggaggggctggcttggacAaagaatctgcctcagggggc	18	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:82764680A>G	uc003uhx.2	-	3	2475	c.2186T>C	c.(2185-2187)TTG>TCG	p.L729S	PCLO_uc003uhv.2_Missense_Mutation_p.L729S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	675	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TGGCTTGGACAAAGAATCTGC	0.537													9	30	---	---	---	---	PASS	G	82764680	G	G	82764680	3	3	4	1	0	0	0	0	1	0	0	0	11583	131	5	5	13351	5	PCLO	7	82764680	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	498	82764680	76373983	1601	2192										
PCLO	27445	broad.mit.edu	37	chr7	82784886	82784886	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgagctggaggctttgttgtCcctggtggctggactggggg	19	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:82784886C>T	uc003uhx.2	-	2	1360	c.1071G>A	c.(1069-1071)GGG>GGA	p.G357G	PCLO_uc003uhv.2_Silent_p.G357G	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GCTTTGTTGTCCCTGGTGGCT	0.602													9	16	---	---	---	---	PASS	T	82784886	T	T	82784886	2	4	4	1	0	0	0	0	0	0	0	1	11583	842	30	2		2	PCLO	7	82784886	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	20206	82784886	76353777	1602	2193										
SEMA3A	10371	broad.mit.edu	37	chr7	83634661	83634661	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttaaaaatttacctgttcCgataaacataacatcatact	2	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:83634661C>T	uc003uhz.2	-	11	1669	c.1354G>A	c.(1354-1356)GGA>AGA	p.G452R		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	452	Sema.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						TTACCTGTTCCGATAAACATA	0.274													16	34	---	---	---	---	PASS	T	83634661	T	T	83634661	3	4	4	1	0	0	0	0	1	0	0	0	14024	661	23	1	989	1	SEMA3A	7	83634661	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	849775	83634661	75504002	1603	2194										
GRM3	2913	broad.mit.edu	37	chr7	86415831	86415831	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgcctgcgcaacatctgcatCgctacggcggagaaggtggg	15	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:86415831C>T	uc003uid.2	+	3	1822	c.723C>T	c.(721-723)ATC>ATT	p.I241I	GRM3_uc010lef.2_Silent_p.I239I|GRM3_uc010leg.2_Silent_p.I113I|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	241	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	ACATCTGCATCGCTACGGCGG	0.617													7	23	---	---	---	---	PASS	T	86415831	T	T	86415831	2	4	4	1	0	0	0	0	0	0	0	1	6798	874	31	2		2	GRM3	7	86415831	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2781170	86415831	72722832	1604	2195										
ABCB4	5244	broad.mit.edu	37	chr7	87053293	87053293	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcaatggcacatactgttcCcacgacaaagtagggccatt	10	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:87053293C>T	uc003uiv.1	-	17	2216	c.2140G>A	c.(2140-2142)GGA>AGA	p.G714R	ABCB4_uc003uiw.1_Missense_Mutation_p.G714R|ABCB4_uc003uix.1_Missense_Mutation_p.G714R	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	714	Helical; (By similarity).|ABC transmembrane type-1 2.				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CATACTGTTCCCACGACAAAG	0.453													31	68	---	---	---	---	PASS	T	87053293	T	T	87053293	3	4	4	1	0	0	0	0	1	0	0	0	43	632	22	3	1768	3	ABCB4	7	87053293	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	637462	87053293	72085370	1605	2196										
ABCB1	5243	broad.mit.edu	37	chr7	87148714	87148714	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accggaaacatccagcatagGaaaaatacatcattgcctgg	8	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:87148714G>A	uc003uiz.1	-	24	3273	c.2855C>T	c.(2854-2856)TCC>TTC	p.S952F	ABCB1_uc011khc.1_Missense_Mutation_p.S888F	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	952	Helical; (Potential).|ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	TCCAGCATAGGAAAAATACAT	0.353													21	37	---	---	---	---	PASS	A	87148714	A	A	87148714	3	1	4	1	0	0	0	0	1	0	0	0	40	1174	41	2	1011	2	ABCB1	7	87148714	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	95421	87148714	71989949	1606	2197										
MGC26647	219557	broad.mit.edu	37	chr7	88424012	88424012	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaatcctgtcactgcttctCctaggtgatgtttcaaaact	7	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:88424012C>T	uc003ujv.2	-	2	427	c.245G>A	c.(244-246)GGA>GAA	p.G82E	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	82											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			CACTGCTTCTCCTAGGTGATG	0.398													14	30	---	---	---	---	PASS	T	88424012	T	T	88424012	3	4	4	1	0	0	0	0	1	0	0	0	9550	855	30	2	520	2	MGC26647	7	88424012	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1275298	88424012	70714651	1607	2198										
ZNF804B	219578	broad.mit.edu	37	chr7	88963589	88963589	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaagacttgtaaaagaagcAtgtacccataatgtggcatc	8	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:88963589A>T	uc011khi.1	+	4	1831	c.1293A>T	c.(1291-1293)GCA>GCT	p.A431A		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	431						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TAAAAGAAGCATGTACCCATA	0.388										HNSCC(36;0.09)			21	29	---	---	---	---	PASS	T	88963589	T	T	88963589	2	4	4	1	0	0	0	0	0	0	0	1	18168	204	8	5		5	ZNF804B	7	88963589	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	539577	88963589	70175074	1608	2199										
ZNF804B	219578	broad.mit.edu	37	chr7	88965077	88965077	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acccctctaacagcaaaaatCcttttagaaagagtacaagc	5	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:88965077C>T	uc011khi.1	+	4	3319	c.2781C>T	c.(2779-2781)ATC>ATT	p.I927I		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	927						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CAGCAAAAATCCTTTTAGAAA	0.413										HNSCC(36;0.09)			75	147	---	---	---	---	PASS	T	88965077	T	T	88965077	2	4	4	1	0	0	0	0	0	0	0	1	18168	845	30	2		2	ZNF804B	7	88965077	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1488	88965077	70173586	1609	2200										
ZNF804B	219578	broad.mit.edu	37	chr7	88965831	88965831	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aactcctatcaaagcatcttCgagttttgcctgctgcaggg	9	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:88965831C>T	uc011khi.1	+	4	4073	c.3535C>T	c.(3535-3537)CGA>TGA	p.R1179*		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1179						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AAAGCATCTTCGAGTTTTGCC	0.483										HNSCC(36;0.09)			18	38	---	---	---	---	PASS	T	88965831	T	T	88965831	4	4	4	1	0	0	0	0	0	1	0	0	18168	876	31	2	3549	2	ZNF804B	7	88965831	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	754	88965831	70172832	1610	2201										
C7orf63	79846	broad.mit.edu	37	chr7	89909084	89909084	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actggtctgcagcacagcatGaagaattacaactgcatgca	9	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:89909084G>A	uc010lep.2	+	12	1500	c.1249G>A	c.(1249-1251)GAA>AAA	p.E417K	C7orf63_uc003ukf.2_RNA|C7orf63_uc003ukg.2_Missense_Mutation_p.E92K|C7orf63_uc011khj.1_Missense_Mutation_p.E399K|C7orf63_uc011khk.1_5'UTR	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	417							binding			ovary(1)	1						AGCACAGCATGAAGAATTACA	0.388											OREG0003793	type=REGULATORY REGION|Gene=AK024715|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	27	75	---	---	---	---	PASS	A	89909084	A	A	89909084	3	1	4	1	0	0	0	0	1	0	0	0	2409	1291	45	2	1295	2	C7orf63	7	89909084	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	943253	89909084	69229579	1611	2202										
AKAP9	10142	broad.mit.edu	37	chr7	91674509	91674509	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catctgtaaagtcatgtgtcCatgaggaacatacaagaggt	10	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:91674509C>T	uc003ulg.2	+	21	5575	c.5350C>T	c.(5350-5352)CAT>TAT	p.H1784Y	AKAP9_uc003ulf.2_Missense_Mutation_p.H1784Y|AKAP9_uc003uli.2_Missense_Mutation_p.H1409Y	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1796					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GTCATGTGTCCATGAGGAACA	0.408			T	BRAF	papillary thyroid								18	34	---	---	---	---	PASS	T	91674509	T	T	91674509	3	4	4	1	0	0	0	0	1	0	0	0	459	594	21	3	5432	3	AKAP9	7	91674509	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1765425	91674509	67464154	1612	2203										
PEX1	5189	broad.mit.edu	37	chr7	92146607	92146607	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacccagactttcccaagatGgagaacttctacatttttgg	7	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:92146607G>A	uc003uly.2	-	5	1318	c.1222C>T	c.(1222-1224)CAT>TAT	p.H408Y	PEX1_uc011khr.1_Missense_Mutation_p.H200Y|PEX1_uc010ley.2_Missense_Mutation_p.H408Y|PEX1_uc011khs.1_Intron|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	408					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			TTCCCAAGATGGAGAACTTCT	0.328													22	51	---	---	---	---	PASS	A	92146607	A	A	92146607	3	1	4	1	0	0	0	0	1	0	0	0	11735	1348	47	3	2709	3	PEX1	7	92146607	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	472098	92146607	66992056	1613	2204										
CALCR	799	broad.mit.edu	37	chr7	93098044	93098044	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacctgaaaaacacgaaaatCcccagggaaatcactagggt	8	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:93098044C>T	uc003umv.1	-	7	819	c.558G>A	c.(556-558)GGG>GGA	p.G186G	CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Silent_p.G168G|CALCR_uc003umw.2_Silent_p.G168G	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	168	Helical; Name=1; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	ACACGAAAATCCCCAGGGAAA	0.388													16	36	---	---	---	---	PASS	T	93098044	T	T	93098044	2	4	4	1	0	0	0	0	0	0	0	1	2579	842	30	2		2	CALCR	7	93098044	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	951437	93098044	66040619	1614	2205										
COL1A2	1278	broad.mit.edu	37	chr7	94035589	94035589	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggtctggatggattgaagGgacagcccggtgctcctggt	16	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:94035589G>A	uc003ung.1	+	12	1039	c.568G>A	c.(568-570)GGA>AGA	p.G190R	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfh.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	190			Missing (in OI4).		axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TGGATTGAAGGGACAGCCCGG	0.363										HNSCC(75;0.22)			8	23	---	---	---	---	PASS	A	94035589	A	A	94035589	3	1	4	1	0	0	0	0	1	0	0	0	3678	1233	43	3	614	3	COL1A2	7	94035589	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	937545	94035589	65103074	1615	2206										
COL1A2	1278	broad.mit.edu	37	chr7	94052291	94052291	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatttctggccctcctggtcCccctggtcctgctgggaaag	11	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:94052291C>T	uc003ung.1	+	40	2897	c.2426C>T	c.(2425-2427)CCC>CTC	p.P809L	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	809			Missing (in OI2A).|Missing (in OI2A).		axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CCTCCTGGTCCCCCTGGTCCT	0.537										HNSCC(75;0.22)			40	85	---	---	---	---	PASS	T	94052291	T	T	94052291	3	4	4	1	0	0	0	0	1	0	0	0	3678	623	22	3	2584	3	COL1A2	7	94052291	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	16702	94052291	65086372	1616	2207										
COL1A2	1278	broad.mit.edu	37	chr7	94054481	94054481	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctggggcccgtggtcctcCtggtgctgtgggtagtcctg	16	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:94054481C>T	uc003ung.1	+	42	3197	c.2726C>T	c.(2725-2727)CCT>CTT	p.P909L	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	909					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CGTGGTCCTCCTGGTGCTGTG	0.517										HNSCC(75;0.22)			12	25	---	---	---	---	PASS	T	94054481	T	T	94054481	3	4	4	1	0	0	0	0	1	0	0	0	3678	681	24	3	2892	3	COL1A2	7	94054481	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2190	94054481	65084182	1617	2208										
CASD1	64921	broad.mit.edu	37	chr7	94180720	94180720	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgtcaaatactttctgaagGaaagggtgaacctctttttt	9	7	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:94180720G>A	uc003uni.3	+	15	2113	c.1886G>A	c.(1885-1887)GGA>GAA	p.G629E	CASD1_uc003unj.3_Missense_Mutation_p.G629E	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	629						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)			CTTTCTGAAGGAAAGGGTGAA	0.303													4	11	---	---	---	---	PASS	A	94180720	A	A	94180720	3	1	4	1	0	0	0	0	1	0	0	0	2664	1174	41	2	1944	2	CASD1	7	94180720	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	126239	94180720	64957943	1618	2209										
SGCE	8910	broad.mit.edu	37	chr7	94232748	94232748	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaaacgggacatctgcacCaaccatgacataaacgctgt	8	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:94232748C>T	uc003unl.2	-	6	790	c.679G>A	c.(679-681)GGT>AGT	p.G227S	SGCE_uc003unk.2_Missense_Mutation_p.G59S|SGCE_uc003unm.2_Missense_Mutation_p.G227S|SGCE_uc003unn.2_Missense_Mutation_p.G227S|SGCE_uc011kic.1_Missense_Mutation_p.G186S|SGCE_uc011kid.1_Missense_Mutation_p.G263S	NM_003919	NP_003910	O43556	SGCE_HUMAN	sarcoglycan, epsilon isoform 2	227	Extracellular (Potential).				cell-matrix adhesion|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			ACATCTGCACCAACCATGACA	0.348													8	23	---	---	---	---	PASS	T	94232748	T	T	94232748	3	4	4	1	0	0	0	0	1	0	0	0	14202	594	21	3	810	3	SGCE	7	94232748	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	52028	94232748	64905915	1619	2210										
PEG10	23089	broad.mit.edu	37	chr7	94293051	94293051	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggatgatgacatcgagctCcgcggtgctgcagcagctgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:94293051C>T	uc011kie.1	+	2	628	c.411C>T	c.(409-411)CTC>CTT	p.L137L		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	61					apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			ACATCGAGCTCCGCGGTGCTG	0.592													5	9	---	---	---	---	PASS	T	94293051	T	T	94293051	2	4	4	1	0	0	0	0	0	0	0	1	11719	855	30	2		2	PEG10	7	94293051	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	60303	94293051	64845612	1620	2211	81	2								
PEG10	23089	broad.mit.edu	37	chr7	94293052	94293052	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggatgatgacatcgagctcCgcggtgctgcagcagctgct					rs147863226	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:94293052C>T	uc011kie.1	+	2	629	c.412C>T	c.(412-414)CGC>TGC	p.R138C		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	62					apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			CATCGAGCTCCGCGGTGCTGC	0.597													5	9	---	---	---	---	PASS	T	94293052	T	T	94293052	3	4	4	1	0	0	0	0	1	0	0	0	11719	652	23	1	418	1	PEG10	7	94293052	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	94293052	64845611	1621	2212	81	2								
PEG10	23089	broad.mit.edu	37	chr7	94293196	94293196	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatggaaaagagcaccaggGatttctcagttgatcgtgtc	11	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:94293196G>A	uc011kie.1	+	2	773	c.556G>A	c.(556-558)GAT>AAT	p.D186N		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	110	Necessary for interaction with ALK1.				apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			GAGCACCAGGGATTTCTCAGT	0.567													10	38	---	---	---	---	PASS	A	94293196	A	A	94293196	3	1	4	1	0	0	0	0	1	0	0	0	11719	1174	41	2	562	2	PEG10	7	94293196	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	144	94293196	64845467	1622	2213										
PON1	5444	broad.mit.edu	37	chr7	94937442	94937442	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaacccaaatacatctcccaGgattgtaagtaggggtcaag	9	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:94937442G>A	uc003uns.2	-	6	676	c.579C>T	c.(577-579)TCC>TCT	p.S193S	PON1_uc011kih.1_Silent_p.S193S	NM_000446	NP_000437	P27169	PON1_HUMAN	paraoxonase 1 precursor	193					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	ACATCTCCCAGGATTGTAAGT	0.398													22	54	---	---	---	---	PASS	A	94937442	A	A	94937442	2	1	4	1	0	0	0	0	0	0	0	1	12248	987	35	3		3	PON1	7	94937442	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	644246	94937442	64201221	1623	2214										
ASB4	51666	broad.mit.edu	37	chr7	95167003	95167003	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagatgccatagagcaattCctttgctttccctcccattg	6	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:95167003C>T	uc011kij.1	+	5	1213	c.1213C>T	c.(1213-1215)CCT>TCT	p.P405S		NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	405	SOCS box.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			TAGAGCAATTCCTTTGCTTTC	0.413													21	64	---	---	---	---	PASS	T	95167003	T	T	95167003	3	4	4	1	0	0	0	0	1	0	0	0	1025	855	30	2	1303	2	ASB4	7	95167003	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	229561	95167003	63971660	1624	2215										
DYNC1I1	1780	broad.mit.edu	37	chr7	95616462	95616462	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcacttgtatggactggtccCtccaggtaagaattattgct	9	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:95616462C>T	uc003uoc.3	+	9	1166	c.889C>T	c.(889-891)CTC>TTC	p.L297F	DYNC1I1_uc003uod.3_Missense_Mutation_p.L280F|DYNC1I1_uc003uob.2_Missense_Mutation_p.L260F|DYNC1I1_uc003uoe.3_Missense_Mutation_p.L277F|DYNC1I1_uc010lfl.2_Missense_Mutation_p.L286F	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	297	WD 1.				vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			GGACTGGTCCCTCCAGGTAAG	0.438													63	119	---	---	---	---	PASS	T	95616462	T	T	95616462	3	4	4	1	0	0	0	0	1	0	0	0	4842	681	24	3	919	3	DYNC1I1	7	95616462	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	449459	95616462	63522201	1625	2216										
TAC1	6863	broad.mit.edu	37	chr7	97363037	97363037	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtgcttttgtctcccaggaGgaactgccggagccctttga	12	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:97363037G>A	uc003uop.3	+	3	372	c.126G>A	c.(124-126)GAG>GAA	p.E42E	TAC1_uc003uoq.3_Silent_p.E42E|TAC1_uc003uor.3_Silent_p.E42E|TAC1_uc003uos.3_Silent_p.E42E	NM_003182	NP_003173	P20366	TKN1_HUMAN	tachykinin 1 isoform beta precursor	42					detection of abiotic stimulus|elevation of cytosolic calcium ion concentration|insemination|neuropeptide signaling pathway|synaptic transmission|tachykinin receptor signaling pathway	extracellular space					0	all_cancers(62;3.95e-09)|all_epithelial(64;1.1e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0358)|all_lung(186;0.0384)				Bacitracin(DB00626)	TCTCCCAGGAGGAACTGCCGG	0.607													4	29	---	---	---	---	PASS	A	97363037	A	A	97363037	2	1	4	1	0	0	0	0	0	0	0	1	15495	991	35	3		3	TAC1	7	97363037	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1746575	97363037	61775626	1626	2217										
ASNS	440	broad.mit.edu	37	chr7	97481714	97481714	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacttgacggtagtaatatcCttctttggttttaggagtat	10	5	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:97481714C>T	uc003uot.3	-	13	2049	c.1543G>A	c.(1543-1545)GGA>AGA	p.G515R	ASNS_uc011kin.1_Missense_Mutation_p.G432R|ASNS_uc003uou.3_Missense_Mutation_p.G515R|ASNS_uc003uov.3_Missense_Mutation_p.G515R|ASNS_uc011kio.1_Missense_Mutation_p.G494R|ASNS_uc003uow.3_Missense_Mutation_p.G494R|ASNS_uc003uox.3_Missense_Mutation_p.G432R	NM_133436	NP_597680	P08243	ASNS_HUMAN	asparagine synthetase	515	Asparagine synthetase.				cellular response to glucose starvation|glutamine metabolic process|negative regulation of apoptosis|positive regulation of mitotic cell cycle	cytosol|soluble fraction	asparagine synthase (glutamine-hydrolyzing) activity|ATP binding			ovary(1)	1	all_cancers(62;6.64e-09)|all_epithelial(64;1.58e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0342)|all_lung(186;0.0369)				Adenosine triphosphate(DB00171)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TAGTAATATCCTTCTTTGGTT	0.453													27	67	---	---	---	---	PASS	T	97481714	T	T	97481714	3	4	4	1	0	0	0	0	1	0	0	0	1048	690	24	3	146	3	ASNS	7	97481714	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	118677	97481714	61656949	1627	2218										
ASNS	440	broad.mit.edu	37	chr7	97482657	97482657	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggcagagacaagtaatagGaagaaaatcgatgatctaga	12	4	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:97482657G>A	uc003uot.3	-	11	1786	c.1280C>T	c.(1279-1281)TCC>TTC	p.S427F	ASNS_uc011kin.1_Missense_Mutation_p.S344F|ASNS_uc003uou.3_Missense_Mutation_p.S427F|ASNS_uc003uov.3_Missense_Mutation_p.S427F|ASNS_uc011kio.1_Missense_Mutation_p.S406F|ASNS_uc003uow.3_Missense_Mutation_p.S406F|ASNS_uc003uox.3_Missense_Mutation_p.S344F	NM_133436	NP_597680	P08243	ASNS_HUMAN	asparagine synthetase	427	Asparagine synthetase.				cellular response to glucose starvation|glutamine metabolic process|negative regulation of apoptosis|positive regulation of mitotic cell cycle	cytosol|soluble fraction	asparagine synthase (glutamine-hydrolyzing) activity|ATP binding			ovary(1)	1	all_cancers(62;6.64e-09)|all_epithelial(64;1.58e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0342)|all_lung(186;0.0369)				Adenosine triphosphate(DB00171)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CAAGTAATAGGAAGAAAATCG	0.343													18	40	---	---	---	---	PASS	A	97482657	A	A	97482657	3	1	4	1	0	0	0	0	1	0	0	0	1048	1174	41	2	417	2	ASNS	7	97482657	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	943	97482657	61656006	1628	2219										
TECPR1	25851	broad.mit.edu	37	chr7	97854118	97854118	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagggagaggcttacgcaggGaagtcgctggcatactgcca	15	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:97854118G>A	uc003upg.2	-	19	2890	c.2685C>T	c.(2683-2685)TTC>TTT	p.F895F		NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	895						integral to membrane	protein binding			pancreas(1)	1						CTTACGCAGGGAAGTCGCTGG	0.632													3	3	---	---	---	---	PASS	A	97854118	A	A	97854118	2	1	4	1	0	0	0	0	0	0	0	1	15740	1165	41	2		2	TECPR1	7	97854118	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	371461	97854118	61284545	1629	2220										
PTCD1	26024	broad.mit.edu	37	chr7	99026789	99026789	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccatgagcaggaaactgaaGgtctcctctgtgaccacgtg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:99026789G>A	uc003uqh.2	-	5	983	c.852C>T	c.(850-852)ACC>ACT	p.T284T	PTCD1_uc011kiw.1_Silent_p.T333T	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	284	PPR 5.									ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			GGAAACTGAAGGTCTCCTCTG	0.522													16	54	---	---	---	---	PASS	A	99026789	A	A	99026789	2	1	4	1	0	0	0	0	0	0	0	1	12727	987	35	3		3	PTCD1	7	99026789	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1172671	99026789	60111874	1630	2221	82	2								
PTCD1	26024	broad.mit.edu	37	chr7	99026790	99026790	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatgagcaggaaactgaagGtctcctctgtgaccacgtgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:99026790G>A	uc003uqh.2	-	5	982	c.851C>T	c.(850-852)ACC>ATC	p.T284I	PTCD1_uc011kiw.1_Missense_Mutation_p.T333I	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	284	PPR 5.									ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			GAAACTGAAGGTCTCCTCTGT	0.517													16	53	---	---	---	---	PASS	A	99026790	A	A	99026790	3	1	4	1	0	0	0	0	1	0	0	0	12727	1261	44	3	1267	3	PTCD1	7	99026790	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	99026790	60111873	1631	2222	82	2								
CYP3A7	1551	broad.mit.edu	37	chr7	99313520	99313520	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcacatccatgctgtaggcCccaaagacgctgagtggaga	11	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:99313520C>T	uc003uru.2	-	7	636	c.531G>A	c.(529-531)GGG>GGA	p.G177G	ZNF498_uc003urn.2_Intron|CYP3A5_uc003urs.2_Intron|CYP3A5_uc010lgg.2_Intron	NM_000765	NP_000756	P24462	CP3A7_HUMAN	cytochrome P450, family 3, subfamily A,	177					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)	1	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)					TGCTGTAGGCCCCAAAGACGC	0.458													21	56	---	---	---	---	PASS	T	99313520	T	T	99313520	2	4	4	1	0	0	0	0	0	0	0	1	4181	610	22	3		3	CYP3A7	7	99313520	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	286730	99313520	59825143	1632	2223										
ZCWPW1	55063	broad.mit.edu	37	chr7	99999549	99999549	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaattcccttggccttctttCcttcccattctgggtgcagg	9	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:99999549C>T	uc003uut.2	-	17	1835	c.1587G>A	c.(1585-1587)AGG>AGA	p.R529R	ZCWPW1_uc011kjq.1_Silent_p.R409R|ZCWPW1_uc003uur.2_Intron|ZCWPW1_uc003uus.2_Intron|ZCWPW1_uc011kjr.1_Intron|ZCWPW1_uc011kjp.1_RNA	NM_017984	NP_060454	Q9H0M4	ZCPW1_HUMAN	zinc finger, CW type with PWWP domain 1	529							zinc ion binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GGCCTTCTTTCCTTCCCATTC	0.542													31	67	---	---	---	---	PASS	T	99999549	T	T	99999549	2	4	4	1	0	0	0	0	0	0	0	1	17594	854	30	2		2	ZCWPW1	7	99999549	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	686029	99999549	59139114	1633	2224										
MEPCE	56257	broad.mit.edu	37	chr7	100028584	100028584	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaccgggatgccccccaaCcctatgaactcaacacagcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:100028584C>T	uc003uuw.2	+	1	1056	c.943C>T	c.(943-945)CCC>TCC	p.P315S	ZCWPW1_uc003uut.2_5'Flank|ZCWPW1_uc011kjr.1_5'Flank|ZCWPW1_uc003uuu.1_5'Flank|ZCWPW1_uc011kjt.1_5'Flank|ZCWPW1_uc011kju.1_5'Flank|MEPCE_uc003uuv.2_5'UTR	NM_019606	NP_062552	Q7L2J0	MEPCE_HUMAN	bin3, bicoid-interacting 3	315							methyltransferase activity			upper_aerodigestive_tract(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TGCCCCCCAACCCTATGAACT	0.657													19	55	---	---	---	---	PASS	T	100028584	T	T	100028584	3	4	4	1	0	0	0	0	1	0	0	0	9477	507	18	3	945	3	MEPCE	7	100028584	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	29035	100028584	59110079	1634	2225	83	2								
MEPCE	56257	broad.mit.edu	37	chr7	100028585	100028585	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaccgggatgccccccaacCctatgaactcaacacagcca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:100028585C>T	uc003uuw.2	+	1	1057	c.944C>T	c.(943-945)CCC>CTC	p.P315L	ZCWPW1_uc003uut.2_5'Flank|ZCWPW1_uc011kjr.1_5'Flank|ZCWPW1_uc003uuu.1_5'Flank|ZCWPW1_uc011kjt.1_5'Flank|ZCWPW1_uc011kju.1_5'Flank|MEPCE_uc003uuv.2_5'UTR	NM_019606	NP_062552	Q7L2J0	MEPCE_HUMAN	bin3, bicoid-interacting 3	315							methyltransferase activity			upper_aerodigestive_tract(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GCCCCCCAACCCTATGAACTC	0.657													20	56	---	---	---	---	PASS	T	100028585	T	T	100028585	3	4	4	1	0	0	0	0	1	0	0	0	9477	623	22	3	946	3	MEPCE	7	100028585	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	100028585	59110078	1635	2226	83	2								
ZAN	7455	broad.mit.edu	37	chr7	100350724	100350724	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcccacagagaagctcacagCcctgaggccaccccatccca	7	19	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:100350724C>T	uc003uwj.2	+	14	3161	c.2996C>T	c.(2995-2997)GCC>GTC	p.A999V	ZAN_uc003uwk.2_Missense_Mutation_p.A999V|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	999	66 X heptapeptide repeats (approximate) (mucin-like domain).|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AAGCTCACAGCCCTGAGGCCA	0.572													38	49	---	---	---	---	PASS	T	100350724	T	T	100350724	3	4	4	1	0	0	0	0	1	0	0	0	17510	739	26	3	3046	3	ZAN	7	100350724	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	322139	100350724	58787939	1636	2227										
ZAN	7455	broad.mit.edu	37	chr7	100377269	100377269	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaaacaccctctgtgagttCggaggtctctaccaggccct	10	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:100377269C>T	uc003uwj.2	+	36	6684	c.6519C>T	c.(6517-6519)TTC>TTT	p.F2173F	ZAN_uc003uwk.2_Silent_p.F2173F|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Intron	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2173	Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			TCTGTGAGTTCGGAGGTCTCT	0.652													3	6	---	---	---	---	PASS	T	100377269	T	T	100377269	2	4	4	1	0	0	0	0	0	0	0	1	17510	883	31	2		2	ZAN	7	100377269	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	26545	100377269	58761394	1637	2228										
EPHB4	2050	broad.mit.edu	37	chr7	100405041	100405041	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctccaggaatcgggaaagGccaaagtcagacactttgca	10	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:100405041G>A	uc003uwn.1	-	13	2771	c.2280C>T	c.(2278-2280)GGC>GGT	p.G760G	EPHB4_uc003uwm.1_Silent_p.G667G|EPHB4_uc010lhj.1_Silent_p.G760G	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	760	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					ATCGGGAAAGGCCAAAGTCAG	0.562													21	51	---	---	---	---	PASS	A	100405041	A	A	100405041	2	1	4	1	0	0	0	0	0	0	0	1	5177	1190	42	3		3	EPHB4	7	100405041	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	27772	100405041	58733622	1638	2229										
MUC17	140453	broad.mit.edu	37	chr7	100678116	100678116	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacttctactgaagccagttCatctcctacaactgctgaag	6	13	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:100678116C>T	uc003uxp.1	+	3	3472	c.3419C>T	c.(3418-3420)TCA>TTA	p.S1140L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1140	Extracellular (Potential).|59 X approximate tandem repeats.|17.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GAAGCCAGTTCATCTCCTACA	0.547													92	214	---	---	---	---	PASS	T	100678116	T	T	100678116	3	4	4	1	0	0	0	0	1	0	0	0	9974	838	29	2	3429	2	MUC17	7	100678116	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	273075	100678116	58460547	1639	2230										
MUC17	140453	broad.mit.edu	37	chr7	100681856	100681856	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caactgctgacgatactagcAtgccaacctcaacttatagt	6	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:100681856A>G	uc003uxp.1	+	3	7212	c.7159A>G	c.(7159-7161)ATG>GTG	p.M2387V	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2387	Extracellular (Potential).|59 X approximate tandem repeats.|38.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CGATACTAGCATGCCAACCTC	0.493													75	210	---	---	---	---	PASS	G	100681856	G	G	100681856	3	3	4	1	0	0	0	0	1	0	0	0	9974	217	8	5	7169	5	MUC17	7	100681856	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	3740	100681856	58456807	1640	2231										
CUX1	1523	broad.mit.edu	37	chr7	101840495	101840495	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catggaataaactgactgttCgtggcaaggagccatttcac	10	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:101840495C>T	uc003uyx.3	+	15	1842	c.1804C>T	c.(1804-1806)CGT>TGT	p.R602C	CUX1_uc003uys.3_Missense_Mutation_p.R613C|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	602	CUT 1.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	p.R602R(1)		ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						ACTGACTGTTCGTGGCAAGGA	0.512													21	35	---	---	---	---	PASS	T	101840495	T	T	101840495	3	4	4	1	0	0	0	0	1	0	0	0	4064	884	31	2	1929	2	CUX1	7	101840495	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1158639	101840495	57298168	1641	2232										
ORAI2	80228	broad.mit.edu	37	chr7	102087217	102087217	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgcttggcatcctactcttCctggccgaggtggtgctgct	13	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:102087217C>T	uc010lhz.1	+	4	718	c.483C>T	c.(481-483)TTC>TTT	p.F161F	ORAI2_uc003uzj.2_Silent_p.F161F|ORAI2_uc003uzk.2_Silent_p.F161F|ORAI2_uc011kks.1_Silent_p.F84F	NM_001126340	NP_001119812	Q96SN7	ORAI2_HUMAN	ORAI calcium release-activated calcium modulator	161	Helical; (Potential).					integral to membrane	protein binding			ovary(1)|kidney(1)	2						TCCTACTCTTCCTGGCCGAGG	0.662													41	73	---	---	---	---	PASS	T	102087217	T	T	102087217	2	4	4	1	0	0	0	0	0	0	0	1	11258	854	30	2		2	ORAI2	7	102087217	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	246722	102087217	57051446	1642	2233										
LRWD1	222229	broad.mit.edu	37	chr7	102106347	102106347	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgcaggagcttgacctgtCtaacaaccacctggagacgc	11	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:102106347C>T	uc003uzn.2	+	2	302	c.164C>T	c.(163-165)TCT>TTT	p.S55F	ALKBH4_uc003uzl.2_5'Flank|ALKBH4_uc003uzm.2_5'Flank|LRWD1_uc003uzo.2_5'UTR	NM_152892	NP_690852	Q9UFC0	LRWD1_HUMAN	leucine-rich repeats and WD repeat domain	55	LRR 2.				chromatin modification|DNA-dependent DNA replication initiation|establishment of protein localization to chromatin|G1 phase of mitotic cell cycle	centromeric heterochromatin|nuclear origin of replication recognition complex|telomeric heterochromatin	chromatin binding|methyl-CpG binding|methylated histone residue binding			skin(1)	1						CTTGACCTGTCTAACAACCAC	0.627													6	27	---	---	---	---	PASS	T	102106347	T	T	102106347	3	4	4	1	0	0	0	0	1	0	0	0	9047	913	32	2	170	2	LRWD1	7	102106347	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	19130	102106347	57032316	1643	2234										
PSMC2	5701	broad.mit.edu	37	chr7	103008052	103008052	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaaattgaatttagcttgcCcgatctagaggtaagaaaac	8	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:103008052C>T	uc003vbs.2	+	10	1107	c.1037C>T	c.(1036-1038)CCC>CTC	p.P346L	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011klo.1_Missense_Mutation_p.P209L	NM_002803	NP_002794	P35998	PRS7_HUMAN	proteasome 26S ATPase subunit 2	346					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|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0						TTTAGCTTGCCCGATCTAGAG	0.358													5	21	---	---	---	---	PASS	T	103008052	T	T	103008052	3	4	4	1	0	0	0	0	1	0	0	0	12686	623	22	3	1075	3	PSMC2	7	103008052	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	901705	103008052	56130611	1644	2235										
RELN	5649	broad.mit.edu	37	chr7	103123325	103123325	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtaatagatactcacaggacGacctccacatggtccaaagc	8	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:103123325G>A	uc003vca.2	-	63	10435	c.10275C>T	c.(10273-10275)GTC>GTT	p.V3425V	RELN_uc010liz.2_Silent_p.V3425V	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3425					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CTCACAGGACGACCTCCACAT	0.473													17	59	---	---	---	---	PASS	A	103123325	A	A	103123325	2	1	4	1	0	0	0	0	0	0	0	1	13220	1045	37	2		2	RELN	7	103123325	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	115273	103123325	56015338	1645	2236										
RELN	5649	broad.mit.edu	37	chr7	103230142	103230142	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacttagttctctggagtttCcttcgcatcctttgcctgca	7	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:103230142C>T	uc003vca.2	-	28	4206	c.4046G>A	c.(4045-4047)GGA>GAA	p.G1349E	RELN_uc010liz.2_Missense_Mutation_p.G1349E	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1349					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TCTGGAGTTTCCTTCGCATCC	0.478													35	75	---	---	---	---	PASS	T	103230142	T	T	103230142	3	4	4	1	0	0	0	0	1	0	0	0	13220	855	30	2	6488	2	RELN	7	103230142	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	106817	103230142	55908521	1646	2237										
RELN	5649	broad.mit.edu	37	chr7	103252186	103252186	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaatcatataggatgctcCtatctgcattgattgtgttt	8	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:103252186C>T	uc003vca.2	-	21	2927	c.2767G>A	c.(2767-2769)GGA>AGA	p.G923R	RELN_uc010liz.2_Missense_Mutation_p.G923R	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	923					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TAGGATGCTCCTATCTGCATT	0.423													16	35	---	---	---	---	PASS	T	103252186	T	T	103252186	3	4	4	1	0	0	0	0	1	0	0	0	13220	690	24	3	7795	3	RELN	7	103252186	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	22044	103252186	55886477	1647	2238										
RELN	5649	broad.mit.edu	37	chr7	103322649	103322649	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccctggtggtggcaaaattGaactcgctgccttcatttcc	9	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:103322649G>A	uc003vca.2	-	11	1363	c.1203C>T	c.(1201-1203)TTC>TTT	p.F401F	RELN_uc010liz.2_Silent_p.F401F	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	401					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TGGCAAAATTGAACTCGCTGC	0.448													22	53	---	---	---	---	PASS	A	103322649	A	A	103322649	2	1	4	1	0	0	0	0	0	0	0	1	13220	1281	45	2		2	RELN	7	103322649	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	70463	103322649	55816014	1648	2239										
RELN	5649	broad.mit.edu	37	chr7	103338452	103338452	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcacctacacgaagattttCctgcttccactgaaattgga	6	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:103338452C>T	uc003vca.2	-	10	1151	c.991G>A	c.(991-993)GAA>AAA	p.E331K	RELN_uc010liz.2_Missense_Mutation_p.E331K	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	331					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity	p.E331K(1)		ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CGAAGATTTTCCTGCTTCCAC	0.448													36	68	---	---	---	---	PASS	T	103338452	T	T	103338452	3	4	4	1	0	0	0	0	1	0	0	0	13220	864	30	2	9615	2	RELN	7	103338452	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	15803	103338452	55800211	1649	2240										
HBP1	26959	broad.mit.edu	37	chr7	106836297	106836297	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctatgacttcacacctatGgattcttctgcagtttatgt	7	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:106836297G>A	uc003vdy.2	+	9	1272	c.1086G>A	c.(1084-1086)ATG>ATA	p.M362I	HBP1_uc011klv.1_Missense_Mutation_p.M372I|HBP1_uc003vdz.2_Missense_Mutation_p.M362I|HBP1_uc003vea.2_Missense_Mutation_p.M362I|HBP1_uc003veb.1_Missense_Mutation_p.M362I	NM_012257	NP_036389	O60381	HBP1_HUMAN	HMG-box transcription factor 1	362					cell cycle arrest|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	DNA binding			skin(1)	1						TCACACCTATGGATTCTTCTG	0.328													11	20	---	---	---	---	PASS	A	106836297	A	A	106836297	3	1	4	1	0	0	0	0	1	0	0	0	6985	1348	47	3	1116	3	HBP1	7	106836297	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3497845	106836297	52302366	1650	2241										
SLC26A4	5172	broad.mit.edu	37	chr7	107329538	107329538	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacctgtgagcttgttctcgGagatgctggctgcatcattt	11	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:107329538G>A	uc003vep.2	+	9	1266	c.1042G>A	c.(1042-1044)GAG>AAG	p.E348K	SLC26A4_uc011kmb.1_5'Flank|SLC26A4_uc011kmc.1_5'Flank	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	348	Helical; (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						CTTGTTCTCGGAGATGCTGGC	0.443									Pendred_syndrome				29	49	---	---	---	---	PASS	A	107329538	A	A	107329538	3	1	4	1	0	0	0	0	1	0	0	0	14519	1175	41	2	1072	2	SLC26A4	7	107329538	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	493241	107329538	51809125	1651	2242										
NRCAM	4897	broad.mit.edu	37	chr7	107834765	107834765	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttattccttgcaacacacGtataagttcctgtactgtcc	5	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:107834765G>C	uc003vfb.2	-	16	2042	c.1571C>G	c.(1570-1572)ACG>AGG	p.T524R	NRCAM_uc003vfc.2_Missense_Mutation_p.T518R|NRCAM_uc011kmk.1_Missense_Mutation_p.T519R|NRCAM_uc003vfd.2_Missense_Mutation_p.T500R|NRCAM_uc003vfe.2_Missense_Mutation_p.T500R	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	524	Ig-like 5.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						TGCAACACACGTATAAGTTCC	0.358													24	40	---	---	---	---	PASS	C	107834765	C	C	107834765	3	2	4	1	0	0	0	0	1	0	0	0	10644	1145	40	4	2445	4	NRCAM	7	107834765	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	505227	107834765	51303898	1652	2243										
LRRN3	54674	broad.mit.edu	37	chr7	110764288	110764288	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actagatataaatggcgtaaCtcccaaagaagggggtttat	10	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:110764288C>T	uc003vft.3	+	4	2506	c.1460C>T	c.(1459-1461)ACT>ATT	p.T487I	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.T487I|LRRN3_uc003vfs.3_Missense_Mutation_p.T487I	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	487	Extracellular (Potential).|Ig-like C2-type.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		AATGGCGTAACTCCCAAAGAA	0.403													9	56	---	---	---	---	PASS	T	110764288	T	T	110764288	3	4	4	1	0	0	0	0	1	0	0	0	9036	565	20	3	1462	3	LRRN3	7	110764288	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2929523	110764288	48374375	1653	2244										
LRRN3	54674	broad.mit.edu	37	chr7	110764817	110764817	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtggacacagctatgtgagGaattacttacagaaaccaac	10	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:110764817G>A	uc003vft.3	+	4	3035	c.1989G>A	c.(1987-1989)AGG>AGA	p.R663R	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Silent_p.R663R|LRRN3_uc003vfs.3_Silent_p.R663R	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	663	Cytoplasmic (Potential).					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		GCTATGTGAGGAATTACTTAC	0.428													25	48	---	---	---	---	PASS	A	110764817	A	A	110764817	2	1	4	1	0	0	0	0	0	0	0	1	9036	1165	41	2		2	LRRN3	7	110764817	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	529	110764817	48373846	1654	2245										
DOCK4	9732	broad.mit.edu	37	chr7	111555875	111555875	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcccagcttccttgttatgGatactccatgagaaaatact	6	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:111555875G>A	uc003vfx.2	-	13	1420	c.1151C>T	c.(1150-1152)TCC>TTC	p.S384F	DOCK4_uc003vfy.2_Missense_Mutation_p.S384F|DOCK4_uc003vga.1_5'UTR	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	384					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				CCTTGTTATGGATACTCCATG	0.373													7	13	---	---	---	---	PASS	A	111555875	A	A	111555875	3	1	4	1	0	0	0	0	1	0	0	0	4689	1174	41	2	4909	2	DOCK4	7	111555875	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	791058	111555875	47582788	1655	2246										
PPP1R3A	5506	broad.mit.edu	37	chr7	113518376	113518376	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgctcattagttgacactGaaatttcagtatgatgtttg	8	7	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:113518376G>A	uc010ljy.1	-	4	2802	c.2771C>T	c.(2770-2772)TCA>TTA	p.S924L		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	924					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						AGTTGACACTGAAATTTCAGT	0.378													21	65	---	---	---	---	PASS	A	113518376	A	A	113518376	3	1	4	1	0	0	0	0	1	0	0	0	12371	1294	45	2	601	2	PPP1R3A	7	113518376	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1962501	113518376	45620287	1656	2247										
PPP1R3A	5506	broad.mit.edu	37	chr7	113558613	113558613	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaagaaacattcaaaactcGaataatacccttgatacttg	4	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:113558613G>A	uc010ljy.1	-	1	470	c.439C>T	c.(439-441)CGA>TGA	p.R147*		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	147	CBM21.				glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TTCAAAACTCGAATAATACCC	0.338													14	34	---	---	---	---	PASS	A	113558613	A	A	113558613	4	1	4	1	0	0	0	0	0	1	0	0	12371	1066	37	2	2945	2	PPP1R3A	7	113558613	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	40237	113558613	45580050	1657	2248										
WNT2	7472	broad.mit.edu	37	chr7	116918396	116918396	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcacagctgtccatgcccCgggaagtcaggttgcacaca	10	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:116918396C>A	uc003viz.2	-	5	1196	c.896G>T	c.(895-897)CGG>CTG	p.R299L	WNT2_uc003vja.2_Missense_Mutation_p.R203L	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	299			R -> W.		atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity	p.N295_D302del(1)		breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		GTCCATGCCCCGGGAAGTCAG	0.572													3	24	---	---	---	---	PASS	A	116918396	A	A	116918396	3	1	4	1	0	0	0	0	1	0	0	0	17383	652	23	1	190	1	WNT2	7	116918396	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3359783	116918396	42220267	1658	2249										
CFTR	1080	broad.mit.edu	37	chr7	117170987	117170987	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtacagcctctcttactggGaagaatcatagcttcctatg	8	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:117170987G>A	uc003vjd.2	+	4	440	c.308G>A	c.(307-309)GGA>GAA	p.G103E	CFTR_uc011knq.1_5'UTR	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	103	Helical; Name=1; (Potential).|ABC transmembrane type-1 1.				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	CTCTTACTGGGAAGAATCATA	0.398									Cystic_Fibrosis				15	26	---	---	---	---	PASS	A	117170987	A	A	117170987	3	1	4	1	0	0	0	0	1	0	0	0	3294	1174	41	2	322	2	CFTR	7	117170987	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	252591	117170987	41967676	1659	2250										
CTTNBP2	83992	broad.mit.edu	37	chr7	117431685	117431685	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aactggtccgaccaactggaGggtgggtgccaacatcccct	12	13	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:117431685G>T	uc003vjf.2	-	4	1657	c.1565C>A	c.(1564-1566)CCT>CAT	p.P522H		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	522	Pro-rich.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		ACCAACTGGAGGGTGGGTGCC	0.542													26	56	---	---	---	---	PASS	T	117431685	T	T	117431685	3	4	4	1	0	0	0	0	1	0	0	0	4045	1000	35	3	3506	3	CTTNBP2	7	117431685	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	260698	117431685	41706978	1660	2251										
AASS	10157	broad.mit.edu	37	chr7	121755143	121755143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttacttgtgtggtaatgcaGggcagccttccacaccagca	10	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:121755143G>T	uc003vka.2	-	8	1124	c.1028C>A	c.(1027-1029)CCT>CAT	p.P343H	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.P343H|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	343	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	TGGTAATGCAGGGCAGCCTTC	0.488													5	45	---	---	---	---	PASS	T	121755143	T	T	121755143	3	4	4	1	0	0	0	0	1	0	0	0	24	1000	35	3	1816	3	AASS	7	121755143	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4323458	121755143	37383520	1661	2252										
AASS	10157	broad.mit.edu	37	chr7	121758651	121758651	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgtcccaaagcaaggagcCttaaacccattccatgtaaa	7	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:121758651C>T	uc003vka.2	-	4	602	c.506G>A	c.(505-507)AGG>AAG	p.R169K	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.R169K|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	169	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	AGCAAGGAGCCTTAAACCCAT	0.338													8	21	---	---	---	---	PASS	T	121758651	T	T	121758651	3	4	4	1	0	0	0	0	1	0	0	0	24	681	24	3	2354	3	AASS	7	121758651	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3508	121758651	37380012	1662	2253										
CADPS2	93664	broad.mit.edu	37	chr7	122130223	122130223	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtttatatgattgacctgtGgccctatacatggcttgaac	10	8	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:122130223G>T	uc010lkp.2	-	11	1927	c.1764C>A	c.(1762-1764)GCC>GCA	p.A588A	CADPS2_uc003vkg.3_Silent_p.A288A|CADPS2_uc010lkq.2_Silent_p.A588A	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	588	PH.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						ATTGACCTGTGGCCCTATACA	0.393													31	65	---	---	---	---	PASS	T	122130223	T	T	122130223	2	4	4	1	0	0	0	0	0	0	0	1	2571	1335	47	3		3	CADPS2	7	122130223	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	371572	122130223	37008440	1663	2254										
GRM8	2918	broad.mit.edu	37	chr7	126173069	126173069	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctaaccaaatgatgcaggtGgtatacatggtaaatccaat	9	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:126173069G>A	uc003vlr.2	-	8	2678	c.2367C>T	c.(2365-2367)ACC>ACT	p.T789T	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.T789T|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	789	Helical; Name=6; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TGATGCAGGTGGTATACATGG	0.408										HNSCC(24;0.065)			12	32	---	---	---	---	PASS	A	126173069	A	A	126173069	2	1	4	1	0	0	0	0	0	0	0	1	6803	1335	47	3		3	GRM8	7	126173069	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4042846	126173069	32965594	1664	2255										
GRM8	2918	broad.mit.edu	37	chr7	126173393	126173393	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgggcgctgtgacagatttCttcccctgctcaaatattcg	9	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:126173393C>T	uc003vlr.2	-	8	2354	c.2043G>A	c.(2041-2043)AAG>AAA	p.K681K	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.K681K|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	681	Cytoplasmic (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TGACAGATTTCTTCCCCTGCT	0.512										HNSCC(24;0.065)			22	32	---	---	---	---	PASS	T	126173393	T	T	126173393	2	4	4	1	0	0	0	0	0	0	0	1	6803	912	32	2		2	GRM8	7	126173393	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	324	126173393	32965270	1665	2256										
ARF5	381	broad.mit.edu	37	chr7	127230149	127230149	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgtggtggacagtaatgaCcgggagcgggtccaagaatc	15	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:127230149C>T	uc003vmb.1	+	4	324	c.288C>T	c.(286-288)GAC>GAT	p.D96D	ARF5_uc010llb.1_3'UTR|FSCN3_uc003vmc.1_5'Flank	NM_001662	NP_001653	P84085	ARF5_HUMAN	ADP-ribosylation factor 5	96					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	Golgi apparatus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1						ACAGTAATGACCGGGAGCGGG	0.547													27	47	---	---	---	---	PASS	T	127230149	T	T	127230149	2	4	4	1	0	0	0	0	0	0	0	1	847	506	18	3		3	ARF5	7	127230149	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1056756	127230149	31908514	1666	2257										
FSCN3	29999	broad.mit.edu	37	chr7	127235514	127235514	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgctttctactgcgtttcCaccggaacagcaagtggacc	11	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:127235514C>T	uc003vmd.1	+	2	517	c.298C>T	c.(298-300)CAC>TAC	p.H100Y	FSCN3_uc003vmc.1_Missense_Mutation_p.H55Y|FSCN3_uc011kog.1_RNA|FSCN3_uc011koh.1_5'UTR|FSCN3_uc010llc.1_Missense_Mutation_p.H100Y	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	100						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						ACTGCGTTTCCACCGGAACAG	0.552													15	27	---	---	---	---	PASS	T	127235514	T	T	127235514	3	4	4	1	0	0	0	0	1	0	0	0	6069	594	21	3	304	3	FSCN3	7	127235514	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	5365	127235514	31903149	1667	2258										
FSCN3	29999	broad.mit.edu	37	chr7	127235654	127235654	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagccctccatgtccacgtGatcctctacagccccatcca	5	20	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:127235654G>A	uc003vmd.1	+	2	657	c.438G>A	c.(436-438)GTG>GTA	p.V146V	FSCN3_uc003vmc.1_Silent_p.V101V|FSCN3_uc011kog.1_RNA|FSCN3_uc011koh.1_Silent_p.V12V|FSCN3_uc010llc.1_Silent_p.V146V	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	146						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						ATGTCCACGTGATCCTCTACA	0.607													18	36	---	---	---	---	PASS	A	127235654	A	A	127235654	2	1	4	1	0	0	0	0	0	0	0	1	6069	1277	45	2		2	FSCN3	7	127235654	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	140	127235654	31903009	1668	2259										
FAM71F1	84691	broad.mit.edu	37	chr7	128369984	128369984	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttcccgtgaagacagcatCccttgcacctgtgacctacg	8	15	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:128369984C>T	uc003vno.1	+	6	935	c.882C>T	c.(880-882)ATC>ATT	p.I294I	FAM71F1_uc003vnm.1_RNA|FAM71F1_uc003vnn.1_Silent_p.I193I|FAM71F1_uc003vnp.1_Silent_p.I292I	NM_032599	NP_115988	Q96KD3	F71F1_HUMAN	testes development-related NYD-SP18	294										skin(1)	1						AAGACAGCATCCCTTGCACCT	0.512													22	44	---	---	---	---	PASS	T	128369984	T	T	128369984	2	4	4	1	0	0	0	0	0	0	0	1	5612	845	30	2		2	FAM71F1	7	128369984	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1134330	128369984	30768679	1669	2260										
FLNC	2318	broad.mit.edu	37	chr7	128478326	128478326	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctctgacccctaggtgacCgtgctctttgctggccagaa	10	14	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:128478326C>A	uc003vnz.3	+	7	1262	c.1053C>A	c.(1051-1053)ACC>ACA	p.T351T	FLNC_uc003voa.3_Silent_p.T351T	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	351	Filamin 1.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CCTAGGTGACCGTGCTCTTTG	0.627													5	89	---	---	---	---	PASS	A	128478326	A	A	128478326	2	1	4	1	0	0	0	0	0	0	0	1	5935	639	23	1		1	FLNC	7	128478326	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	108342	128478326	30660337	1670	2261										
FLNC	2318	broad.mit.edu	37	chr7	128478391	128478391	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaacgtgggcatggccctggGagatgccaacaaggtgtcag	16	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:128478391G>A	uc003vnz.3	+	7	1327	c.1118G>A	c.(1117-1119)GGA>GAA	p.G373E	FLNC_uc003voa.3_Missense_Mutation_p.G373E	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	373	Filamin 2.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						ATGGCCCTGGGAGATGCCAAC	0.572													16	56	---	---	---	---	PASS	A	128478391	A	A	128478391	3	1	4	1	0	0	0	0	1	0	0	0	5935	1174	41	2	1144	2	FLNC	7	128478391	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	65	128478391	30660272	1671	2262										
FLNC	2318	broad.mit.edu	37	chr7	128484142	128484142	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actggatgtgcggatgacttCgccctctcgccggcccatcc	11	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:128484142C>T	uc003vnz.3	+	20	3223	c.3014C>T	c.(3013-3015)TCG>TTG	p.S1005L	FLNC_uc003voa.3_Missense_Mutation_p.S1005L	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1005	Filamin 8.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CGGATGACTTCGCCCTCTCGC	0.662													11	14	---	---	---	---	PASS	T	128484142	T	T	128484142	3	4	4	1	0	0	0	0	1	0	0	0	5935	893	31	2	3092	2	FLNC	7	128484142	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	5751	128484142	30654521	1672	2263										
FLNC	2318	broad.mit.edu	37	chr7	128490444	128490444	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcacctgctgcaggccacaGaggagccagtggtgcctgtg	14	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:128490444G>A	uc003vnz.3	+	32	5514	c.5305G>A	c.(5305-5307)GAG>AAG	p.E1769K	FLNC_uc003voa.3_Missense_Mutation_p.E1736K	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1769	Filamin 16.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GCAGGCCACAGAGGAGCCAGT	0.582													28	45	---	---	---	---	PASS	A	128490444	A	A	128490444	3	1	4	1	0	0	0	0	1	0	0	0	5935	943	33	2	5431	2	FLNC	7	128490444	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6302	128490444	30648219	1673	2264										
FLNC	2318	broad.mit.edu	37	chr7	128497374	128497374	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacatcgtgggcagccccttCaaggccaaggtcactggtga	12	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:128497374C>T	uc003vnz.3	+	46	7973	c.7764C>T	c.(7762-7764)TTC>TTT	p.F2588F	FLNC_uc003voa.3_Silent_p.F2555F	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2588	Interaction with INPPL1.|Filamin 23.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GCAGCCCCTTCAAGGCCAAGG	0.637													8	23	---	---	---	---	PASS	T	128497374	T	T	128497374	2	4	4	1	0	0	0	0	0	0	0	1	5935	825	29	2		2	FLNC	7	128497374	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	6930	128497374	30641289	1674	2265										
TSPAN33	340348	broad.mit.edu	37	chr7	128802733	128802733	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccgctgggatcctgggcttCgtcttctcagacaaggtaac	12	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:128802733C>T	uc003vop.1	+	4	577	c.348C>T	c.(346-348)TTC>TTT	p.F116F		NM_178562	NP_848657	Q86UF1	TSN33_HUMAN	tetraspanin 33	116	Helical; (Potential).					integral to membrane				ovary(1)	1						TCCTGGGCTTCGTCTTCTCAG	0.577													48	60	---	---	---	---	PASS	T	128802733	T	T	128802733	2	4	4	1	0	0	0	0	0	0	0	1	16645	883	31	2		2	TSPAN33	7	128802733	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	305359	128802733	30335930	1675	2266										
FAM40B	57464	broad.mit.edu	37	chr7	129096369	129096369	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccactggctgaagacagtatCcaggtggtgaagagcatgcg	14	9	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:129096369C>T	uc011koy.1	+	9	964	c.924C>T	c.(922-924)ATC>ATT	p.I308I	FAM40B_uc003vow.2_Silent_p.I308I|FAM40B_uc011koz.1_5'Flank	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	308											0						AAGACAGTATCCAGGTGGTGA	0.582													26	44	---	---	---	---	PASS	T	129096369	T	T	129096369	2	4	4	1	0	0	0	0	0	0	0	1	5561	845	30	2		2	FAM40B	7	129096369	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	293636	129096369	30042294	1676	2267										
TMEM209	84928	broad.mit.edu	37	chr7	129813502	129813502	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtatacatgacgctggtaGatgagctcataatggggagg	14	5	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:129813502G>T	uc003vpn.2	-	13	1650	c.1527C>A	c.(1525-1527)ATC>ATA	p.I509I	TMEM209_uc010lmc.1_Silent_p.I467I	NM_032842	NP_116231	Q96SK2	TM209_HUMAN	transmembrane protein 209	509						integral to membrane				ovary(2)|large_intestine(1)	3	Melanoma(18;0.0435)					GACGCTGGTAGATGAGCTCAT	0.358													23	58	---	---	---	---	PASS	T	129813502	T	T	129813502	2	4	4	1	0	0	0	0	0	0	0	1	16131	932	33	2		2	TMEM209	7	129813502	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	717133	129813502	29325161	1677	2268										
CPA1	1357	broad.mit.edu	37	chr7	130021505	130021505	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggcctgcccaccctggctCccccatcgacgtccgagtgc	12	19	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:130021505C>T	uc003vpx.2	+	3	254	c.182C>T	c.(181-183)TCC>TTC	p.S61F	CPA1_uc011kpf.1_Intron|CPA1_uc003vpw.2_Missense_Mutation_p.S61F	NM_001868	NP_001859	P15085	CBPA1_HUMAN	carboxypeptidase A1 precursor	61					proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					CACCCTGGCTCCCCCATCGAC	0.667													9	22	---	---	---	---	PASS	T	130021505	T	T	130021505	3	4	4	1	0	0	0	0	1	0	0	0	3789	855	30	2	192	2	CPA1	7	130021505	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	208003	130021505	29117158	1678	2269										
PLXNA4	91584	broad.mit.edu	37	chr7	132193132	132193132	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acattgttggtggtggtcagGggctcattgcaggtctggac	16	7	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:132193132G>A	uc003vra.3	-	2	550	c.321C>T	c.(319-321)CCC>CCT	p.P107P	PLXNA4_uc003vrc.2_Silent_p.P107P|PLXNA4_uc003vrb.2_Silent_p.P107P	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	107	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TGGTGGTCAGGGGCTCATTGC	0.567													15	32	---	---	---	---	PASS	A	132193132	A	A	132193132	2	1	4	1	0	0	0	0	0	0	0	1	12122	1219	43	3		3	PLXNA4	7	132193132	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2171627	132193132	26945531	1679	2270										
AKR1B15	441282	broad.mit.edu	37	chr7	134260593	134260593	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttgagtgtcacccatacctCacgcaggagaaactgatcca	9	12	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:134260593C>T	uc011kpr.1	+	8	956	c.657C>T	c.(655-657)CTC>CTT	p.L219L	AKR1B15_uc011kps.1_Silent_p.L191L	NM_001080538	NP_001074007	C9JRZ8	AK1BF_HUMAN	aldo-keto reductase family 1, member B15	219							oxidoreductase activity			ovary(1)	1						ACCCATACCTCACGCAGGAGA	0.532													10	51	---	---	---	---	PASS	T	134260593	T	T	134260593	2	4	4	1	0	0	0	0	0	0	0	1	468	813	29	2		2	AKR1B15	7	134260593	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2067461	134260593	24878070	1680	2271										
DGKI	9162	broad.mit.edu	37	chr7	137148311	137148311	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatcatccccagcccactgtCactcagcatgcgtttccgca	6	17	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:137148311C>T	uc003vtt.2	-	28	2684	c.2683G>A	c.(2683-2685)GAC>AAC	p.D895N	DGKI_uc003vtu.2_Intron	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	895					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						AGCCCACTGTCACTCAGCATG	0.502													19	33	---	---	---	---	PASS	T	137148311	T	T	137148311	3	4	4	1	0	0	0	0	1	0	0	0	4471	826	29	2	542	2	DGKI	7	137148311	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2887718	137148311	21990352	1681	2272										
AKR1D1	6718	broad.mit.edu	37	chr7	137773434	137773434	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggcctacatctaccaaaatGaacacgaagttggggaggcc	12	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:137773434G>A	uc003vtz.2	+	2	250	c.181G>A	c.(181-183)GAA>AAA	p.E61K	AKR1D1_uc011kqb.1_Missense_Mutation_p.E61K|AKR1D1_uc011kqc.1_RNA|AKR1D1_uc011kqd.1_Intron|AKR1D1_uc011kqe.1_Missense_Mutation_p.E61K|AKR1D1_uc011kqf.1_Missense_Mutation_p.E61K	NM_005989	NP_005980	P51857	AK1D1_HUMAN	aldo-keto reductase family 1, member D1	61					androgen metabolic process|bile acid biosynthetic process|bile acid catabolic process|C21-steroid hormone metabolic process|cholesterol catabolic process|digestion	cytosol	aldo-keto reductase (NADP) activity|delta4-3-oxosteroid 5beta-reductase activity|steroid binding			skin(1)	1						CTACCAAAATGAACACGAAGT	0.498													6	22	---	---	---	---	PASS	A	137773434	A	A	137773434	3	1	4	1	0	0	0	0	1	0	0	0	473	1291	45	2	187	2	AKR1D1	7	137773434	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	625123	137773434	21365229	1682	2273										
KIAA1549	57670	broad.mit.edu	37	chr7	138552764	138552764	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtggacgccggggggcctcCtgtaggtgccatcgctgtct	16	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:138552764C>T	uc011kql.1	-	15	4935	c.4886G>A	c.(4885-4887)AGG>AAG	p.R1629K	KIAA1549_uc011kqi.1_Missense_Mutation_p.R413K|KIAA1549_uc003vuk.3_Missense_Mutation_p.R1579K|KIAA1549_uc011kqj.1_Missense_Mutation_p.R1629K|KIAA1549_uc011kqk.1_Missense_Mutation_p.R413K	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1629						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GGGGGGCCTCCTGTAGGTGCC	0.622			O	BRAF	pilocytic astrocytoma								6	17	---	---	---	---	PASS	T	138552764	T	T	138552764	3	4	4	1	0	0	0	0	1	0	0	0	8244	681	24	3	990	3	KIAA1549	7	138552764	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	779330	138552764	20585899	1683	2274										
KIAA1549	57670	broad.mit.edu	37	chr7	138554436	138554436	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggaactcgtagtgcccgcgGcgcttggcgcgcaggcggat	18	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:138554436G>A	uc011kql.1	-	14	4672	c.4623C>T	c.(4621-4623)CGC>CGT	p.R1541R	KIAA1549_uc011kqi.1_Silent_p.R325R|KIAA1549_uc003vuk.3_Silent_p.R1491R|KIAA1549_uc011kqj.1_Silent_p.R1541R|KIAA1549_uc011kqk.1_Silent_p.R325R	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1541						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						AGTGCCCGCGGCGCTTGGCGC	0.617			O	BRAF	pilocytic astrocytoma								6	10	---	---	---	---	PASS	A	138554436	A	A	138554436	2	1	4	1	0	0	0	0	0	0	0	1	8244	1190	42	3		3	KIAA1549	7	138554436	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1672	138554436	20584227	1684	2275										
UBN2	254048	broad.mit.edu	37	chr7	138946238	138946238	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcggtgatccagaccttccCatttttgttagcacaaatga	8	10	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:138946238C>T	uc011kqr.1	+	6	1146	c.1146C>T	c.(1144-1146)CCC>CCT	p.P382P	UBN2_uc003vuv.2_Silent_p.P105P	NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	382										ovary(1)|skin(1)	2						CAGACCTTCCCATTTTTGTTA	0.473													24	47	---	---	---	---	PASS	T	138946238	T	T	138946238	2	4	4	1	0	0	0	0	0	0	0	1	16890	581	21	3		3	UBN2	7	138946238	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	391802	138946238	20192425	1685	2276										
TAS2R4	50832	broad.mit.edu	37	chr7	141478589	141478589	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagtgtctggtttgtgaccTtgctcaatatcttgtactgt	10	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:141478589T>C	uc003vwq.1	+	1	301	c.301T>C	c.(301-303)TTG>CTG	p.L101L		NM_016944	NP_058640	Q9NYW5	TA2R4_HUMAN	taste receptor T2R4	101	Helical; Name=3; (Potential).				sensory perception of taste	cilium membrane	taste receptor activity				0	Melanoma(164;0.0171)			BRCA - Breast invasive adenocarcinoma(188;0.196)		GTTTGTGACCTTGCTCAATAT	0.443													27	46	---	---	---	---	PASS	C	141478589	C	C	141478589	2	2	4	1	0	0	0	0	0	0	0	1	15574	1606	56	5		5	TAS2R4	7	141478589	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	2532351	141478589	17660074	1686	2277										
TRYX3	136541	broad.mit.edu	37	chr7	141952383	141952383	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcatcgcgacactgaggcTtggagattacagagatgttc	13	8	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:141952383T>C	uc003vxb.2	-	4	805	c.485A>G	c.(484-486)AAG>AGG	p.K162R	TRYX3_uc003vxc.3_Missense_Mutation_p.K162R	NM_001001317	NP_001001317	Q8IYP2	PRS58_HUMAN	trypsin X3 precursor	162	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0	Melanoma(164;0.0272)					ACACTGAGGCTTGGAGATTAC	0.423													29	57	---	---	---	---	PASS	C	141952383	C	C	141952383	3	2	4	1	0	0	0	0	1	0	0	0	16601	1609	56	5	248	5	TRYX3	7	141952383	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	473794	141952383	17186280	1687	2278										
KEL	3792	broad.mit.edu	37	chr7	142638489	142638489	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtcctgggggctgggcttCctacacatcacctgagcagg	14	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:142638489C>T	uc003wcb.2	-	19	2259	c.2049G>A	c.(2047-2049)AGG>AGA	p.R683R		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	683	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					GGCTGGGCTTCCTACACATCA	0.607													13	45	---	---	---	---	PASS	T	142638489	T	T	142638489	2	4	4	1	0	0	0	0	0	0	0	1	8142	854	30	2		2	KEL	7	142638489	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	686106	142638489	16500174	1688	2279										
OR9A2	135924	broad.mit.edu	37	chr7	142723949	142723949	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacatgtagagaaagatactGtctgcatcccaggaagagca	10	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:142723949G>A	uc003wcc.1	-	1	271	c.271C>T	c.(271-273)CAG>TAG	p.Q91*		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					GAAAGATACTGTCTGCATCCC	0.478													19	35	---	---	---	---	PASS	A	142723949	A	A	142723949	4	1	4	1	0	0	0	0	0	1	0	0	11248	1386	48	3	665	3	OR9A2	7	142723949	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	85460	142723949	16414714	1689	2280										
TMEM139	135932	broad.mit.edu	37	chr7	142983529	142983529	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccctcagggacaatgaagcCtttgaagtgccagtctatga	10	10	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:142983529C>T	uc010lov.2	+	4	397	c.258C>T	c.(256-258)GCC>GCT	p.A86A	CASP2_uc003wco.2_5'Flank|CASP2_uc003wcp.2_5'Flank|CASP2_uc011kta.1_5'Flank|TMEM139_uc003wck.3_Silent_p.A86A|TMEM139_uc003wcl.2_Silent_p.A86A|TMEM139_uc003wcm.2_Silent_p.A86A|TMEM139_uc003wcn.2_RNA	NM_153345	NP_699176	Q8IV31	TM139_HUMAN	transmembrane protein 139 precursor	86	Cytoplasmic (Potential).					integral to membrane					0	Melanoma(164;0.059)					ACAATGAAGCCTTTGAAGTGC	0.512													29	64	---	---	---	---	PASS	T	142983529	T	T	142983529	2	4	4	1	0	0	0	0	0	0	0	1	16051	668	24	3		3	TMEM139	7	142983529	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	259580	142983529	16155134	1690	2281										
CLCN1	1180	broad.mit.edu	37	chr7	143043326	143043326	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggccacaaacagcagccgGaagcaccagagcctgcaggt	12	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:143043326G>A	uc003wcr.1	+	18	2353	c.2266G>A	c.(2266-2268)GAA>AAA	p.E756K	CLCN1_uc011ktc.1_Missense_Mutation_p.E368K	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	756	Cytoplasmic (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					ACAGCAGCCGGAAGCACCAGA	0.597													6	11	---	---	---	---	PASS	A	143043326	A	A	143043326	3	1	4	1	0	0	0	0	1	0	0	0	3462	1175	41	2	2336	2	CLCN1	7	143043326	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	59797	143043326	16095337	1691	2282										
CLCN1	1180	broad.mit.edu	37	chr7	143048731	143048731	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accaagtctggggtgcagctCcgccctccccttgccagctt	10	17	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:143048731C>T	uc003wcr.1	+	23	2727	c.2640C>T	c.(2638-2640)CTC>CTT	p.L880L	CLCN1_uc011ktc.1_Silent_p.L492L	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	880	Cytoplasmic (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					GGGTGCAGCTCCGCCCTCCCC	0.478													13	17	---	---	---	---	PASS	T	143048731	T	T	143048731	2	4	4	1	0	0	0	0	0	0	0	1	3462	842	30	2		2	CLCN1	7	143048731	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	5405	143048731	16089932	1692	2283										
FAM131B	9715	broad.mit.edu	37	chr7	143054093	143054093	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taagagtgaggccatccatcCatgggtgcttgagccagggc	14	10	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:143054093C>T	uc003wct.2	-	6	2255	c.549G>A	c.(547-549)ATG>ATA	p.M183I	FAM131B_uc010loz.2_Missense_Mutation_p.M151I|FAM131B_uc003wcu.3_Missense_Mutation_p.M183I|FAM131B_uc010lpa.2_Missense_Mutation_p.M211I	NM_014690	NP_055505	Q86XD5	F131B_HUMAN	hypothetical protein LOC9715 isoform b	183											0	Melanoma(164;0.205)					GCCATCCATCCATGGGTGCTT	0.498													12	21	---	---	---	---	PASS	T	143054093	T	T	143054093	3	4	4	1	0	0	0	0	1	0	0	0	5440	594	21	3	453	3	FAM131B	7	143054093	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	5362	143054093	16084570	1693	2284										
TAS2R60	338398	broad.mit.edu	37	chr7	143140607	143140607	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caagaaggccatcatcttggTtaccattttactccttttac	5	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:143140607T>C	uc011ktg.1	+	1	62	c.62T>C	c.(61-63)GTT>GCT	p.V21A	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	21	Helical; Name=1; (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					ATCATCTTGGTTACCATTTTA	0.502													32	94	---	---	---	---	PASS	C	143140607	C	C	143140607	3	2	4	1	0	0	0	0	1	0	0	0	15582	1725	60	5	64	5	TAS2R60	7	143140607	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	86514	143140607	15998056	1694	2285										
TAS2R60	338398	broad.mit.edu	37	chr7	143141125	143141125	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctactgtgagaaattctatCtcttccctctaaaaatgatt	5	9	3	2	rs117057228	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:143141125C>T	uc011ktg.1	+	1	580	c.580C>T	c.(580-582)CTC>TTC	p.L194F	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	194	Helical; Name=5; (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					GAAATTCTATCTCTTCCCTCT	0.418													26	65	---	---	---	---	PASS	T	143141125	T	T	143141125	3	4	4	1	0	0	0	0	1	0	0	0	15582	913	32	2	582	2	TAS2R60	7	143141125	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	518	143141125	15997538	1695	2286										
FAM115A	9747	broad.mit.edu	37	chr7	143573429	143573429	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggatgggtgtacaccaatGggagccccaggggaagagca	17	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:143573429G>A	uc003wdo.1	-	2	406	c.273C>T	c.(271-273)CCC>CCT	p.P91P	FAM115A_uc011ktu.1_Intron|FAM115A_uc003wdp.1_Silent_p.P91P	NM_014719	NP_055534	Q9Y4C2	F115A_HUMAN	hypothetical protein LOC9747	91											0	Melanoma(164;0.0903)					GTACACCAATGGGAGCCCCAG	0.587													15	38	---	---	---	---	PASS	A	143573429	A	A	143573429	2	1	4	1	0	0	0	0	0	0	0	1	5405	1335	47	3		3	FAM115A	7	143573429	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	432304	143573429	15565234	1696	2287										
OR2F1	26211	broad.mit.edu	37	chr7	143657094	143657094	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ataaccagacttgggtgagtGaatttattctcctcggcctg	10	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:143657094G>A	uc003wds.1	+	1	75	c.31G>A	c.(31-33)GAA>AAA	p.E11K		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					TTGGGTGAGTGAATTTATTCT	0.438													16	68	---	---	---	---	PASS	A	143657094	A	A	143657094	3	1	4	1	0	0	0	0	1	0	0	0	10996	1291	45	2	33	2	OR2F1	7	143657094	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	83665	143657094	15481569	1697	2288										
OR2F1	26211	broad.mit.edu	37	chr7	143657642	143657642	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggcttgtgtggacacctcCtccaatgaggtcaccatcat	9	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:143657642C>T	uc003wds.1	+	1	623	c.579C>T	c.(577-579)TCC>TCT	p.S193S		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	193	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					TGGACACCTCCTCCAATGAGG	0.478													18	32	---	---	---	---	PASS	T	143657642	T	T	143657642	2	4	4	1	0	0	0	0	0	0	0	1	10996	668	24	3		3	OR2F1	7	143657642	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	548	143657642	15481021	1698	2289										
OR2A25	392138	broad.mit.edu	37	chr7	143771942	143771942	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgtgctggtgggagccttCttttccactgtaatatctta	9	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:143771942C>T	uc011ktx.1	+	1	630	c.630C>T	c.(628-630)TTC>TTT	p.F210F		NM_001004488	NP_001004488	A4D2G3	O2A25_HUMAN	olfactory receptor, family 2, subfamily A,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					TGGGAGCCTTCTTTTCCACTG	0.473													23	60	---	---	---	---	PASS	T	143771942	T	T	143771942	2	4	4	1	0	0	0	0	0	0	0	1	10978	912	32	2		2	OR2A25	7	143771942	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	114300	143771942	15366721	1699	2290										
OR2A2	442361	broad.mit.edu	37	chr7	143807315	143807315	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgggcctctttccttgattCtggtctcctacatgcacatc	7	14	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:143807315C>T	uc011ktz.1	+	1	640	c.640C>T	c.(640-642)CTG>TTG	p.L214L		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					TTCCTTGATTCTGGTCTCCTA	0.537													45	92	---	---	---	---	PASS	T	143807315	T	T	143807315	2	4	4	1	0	0	0	0	0	0	0	1	10977	912	32	2		2	OR2A2	7	143807315	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	35373	143807315	15331348	1700	2291										
OR2A14	135941	broad.mit.edu	37	chr7	143826661	143826661	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttcctgggtgttcagcttCctcctggctctggtcccttt	10	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:143826661C>T	uc011kua.1	+	1	456	c.456C>T	c.(454-456)TTC>TTT	p.F152F		NM_001001659	NP_001001659	Q96R47	O2A14_HUMAN	olfactory receptor, family 2, subfamily A,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					TGTTCAGCTTCCTCCTGGCTC	0.532													48	108	---	---	---	---	PASS	T	143826661	T	T	143826661	2	4	4	1	0	0	0	0	0	0	0	1	10976	854	30	2		2	OR2A14	7	143826661	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	19346	143826661	15312002	1701	2292										
OR2A7	401427	broad.mit.edu	37	chr7	143956673	143956673	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaatccttgggccaacggGaaatcccagtaggaggaact	12	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:143956673G>A	uc011kuc.1	-	1	49	c.49C>T	c.(49-51)CCC>TCC	p.P17S	OR2A9P_uc003wec.1_Intron|OR2A7_uc003wef.2_3'UTR	NM_001005328	NP_001005328	Q96R45	OR2A7_HUMAN	olfactory receptor, family 2, subfamily A,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.14)					GGGCCAACGGGAAATCCCAGT	0.493													33	275	---	---	---	---	PASS	A	143956673	A	A	143956673	3	1	4	1	0	0	0	0	1	0	0	0	10982	1174	41	2	886	2	OR2A7	7	143956673	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	130012	143956673	15181990	1702	2293										
NOBOX	135935	broad.mit.edu	37	chr7	144101747	144101747	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccggtacagtccacacacagGaaattcaggtacagccaggg	11	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:144101747G>A	uc011kue.1	-	2	112	c.112C>T	c.(112-114)CCT>TCT	p.P38S		NM_001080413	NP_001073882	O60393	NOBOX_HUMAN	NOBOX oogenesis homeobox	38					cell differentiation|oogenesis	nucleus	sequence-specific DNA binding			ovary(1)	1	Melanoma(164;0.14)					CCACACACAGGAAATTCAGGT	0.517													22	45	---	---	---	---	PASS	A	144101747	A	A	144101747	3	1	4	1	0	0	0	0	1	0	0	0	10512	1189	41	2		2	NOBOX	7	144101747	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	145074	144101747	15036916	1703	2294										
TPK1	27010	broad.mit.edu	37	chr7	144245695	144245695	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacatgcaacctgtgctttcCctgaaggagacaagaaatga	9	9	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:144245695C>T	uc003weq.2	-	8	605	c.502G>A	c.(502-504)GGA>AGA	p.G168R	TPK1_uc003weo.2_Missense_Mutation_p.G114R|TPK1_uc003wep.2_RNA|TPK1_uc003wer.2_Missense_Mutation_p.G119R|TPK1_uc003wes.2_RNA	NM_022445	NP_071890	Q9H3S4	TPK1_HUMAN	thiamin pyrophosphokinase 1 isoform a	168					thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)	CTGTGCTTTCCCTGAAGGAGA	0.493													16	30	---	---	---	---	PASS	T	144245695	T	T	144245695	3	4	4	1	0	0	0	0	1	0	0	0	16401	637	22	3	237	3	TPK1	7	144245695	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	143948	144245695	14892968	1704	2295										
CNTNAP2	26047	broad.mit.edu	37	chr7	146536856	146536856	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attatcaatggcttcaggttGactttggcaatcggaagcag	11	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:146536856G>A	uc003weu.1	+	3	778	c.262G>A	c.(262-264)GAC>AAC	p.D88N		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	88	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GCTTCAGGTTGACTTTGGCAA	0.483										HNSCC(39;0.1)			20	28	---	---	---	---	PASS	A	146536856	A	A	146536856	3	1	4	1	0	0	0	0	1	0	0	0	3647	1290	45	2	272	2	CNTNAP2	7	146536856	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2291161	146536856	12601807	1705	2296										
CNTNAP2	26047	broad.mit.edu	37	chr7	146741005	146741005	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttccttttccaggcatttCccggaaacattaactctgac	5	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:146741005C>T	uc003weu.1	+	4	925	c.409C>T	c.(409-411)CCC>TCC	p.P137S		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	137	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CCAGGCATTTCCCGGAAACAT	0.408										HNSCC(39;0.1)			15	39	---	---	---	---	PASS	T	146741005	T	T	146741005	3	4	4	1	0	0	0	0	1	0	0	0	3647	855	30	2	423	2	CNTNAP2	7	146741005	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	204149	146741005	12397658	1706	2297										
CNTNAP2	26047	broad.mit.edu	37	chr7	147092776	147092776	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggatgcatgcagctcattcAagtggacgatcaacttgtaa	10	8	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:147092776A>C	uc003weu.1	+	10	2090	c.1574A>C	c.(1573-1575)CAA>CCA	p.Q525P		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	525	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CAGCTCATTCAAGTGGACGAT	0.433										HNSCC(39;0.1)			31	89	---	---	---	---	PASS	C	147092776	C	C	147092776	3	2	4	1	0	0	0	0	1	0	0	0	3647	130	5	5	1612	5	CNTNAP2	7	147092776	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	351771	147092776	12045887	1707	2298										
EZH2	2146	broad.mit.edu	37	chr7	148511204	148511204	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgttgcactgtgctttgcaGcggcatcccggaaagcggtt	14	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:148511204G>A	uc003wfd.1	-	15	1849	c.1683C>T	c.(1681-1683)CGC>CGT	p.R561R	EZH2_uc011kug.1_Silent_p.R510R|EZH2_uc003wfb.1_Silent_p.R566R|EZH2_uc003wfc.1_Silent_p.R522R|EZH2_uc011kuh.1_Silent_p.R552R	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	561	Cys-rich.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			GTGCTTTGCAGCGGCATCCCG	0.498			Mis		DLBCL								29	80	---	---	---	---	PASS	A	148511204	A	A	148511204	2	1	4	1	0	0	0	0	0	0	0	1	5334	958	34	3		3	EZH2	7	148511204	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1418428	148511204	10627459	1708	2299										
ZNF398	57541	broad.mit.edu	37	chr7	148876626	148876626	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcatccgcaagcaccacctAatgaaacaccagcgcatcca	5	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:148876626A>T	uc003wfl.2	+	6	1937	c.1662A>T	c.(1660-1662)CTA>CTT	p.L554L	ZNF398_uc011kul.1_Silent_p.L383L|ZNF398_uc011kum.1_Silent_p.L559L	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	554	C2H2-type 8.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			AGCACCACCTAATGAAACACC	0.612													20	51	---	---	---	---	PASS	T	148876626	T	T	148876626	2	4	4	1	0	0	0	0	0	0	0	1	17882	349	13	5		5	ZNF398	7	148876626	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	365422	148876626	10262037	1709	2300										
SSPO	23145	broad.mit.edu	37	chr7	149489695	149489695	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctggtcctcctggtcaccCtgggccaagtgcctgggccc	14	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:149489695C>T	uc010lpk.2	+	39	5751	c.5751C>T	c.(5749-5751)CCC>CCT	p.P1917P		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	1917	TSP type-1 3.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCTGGTCACCCTGGGCCAAGT	0.672													7	20	---	---	---	---	PASS	T	149489695	T	T	149489695	2	4	4	1	0	0	0	0	0	0	0	1	15188	668	24	3		3	SSPO	7	149489695	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	613069	149489695	9648968	1710	2301										
SSPO	23145	broad.mit.edu	37	chr7	149500625	149500625	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctgcccctctctgagtgcCcctgcctggtgggcgaagag	14	15	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:149500625C>T	uc010lpk.2	+	55	8026	c.8026C>T	c.(8026-8028)CCC>TCC	p.P2676S		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2676					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CTCTGAGTGCCCCTGCCTGGT	0.662													8	22	---	---	---	---	PASS	T	149500625	T	T	149500625	3	4	4	1	0	0	0	0	1	0	0	0	15188	623	22	3	8236	3	SSPO	7	149500625	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	10930	149500625	9638038	1711	2302										
SSPO	23145	broad.mit.edu	37	chr7	149508026	149508026	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacgtgtgtgtgcccacccaGgactgcccctgtgcccacga	11	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:149508026G>A	uc010lpk.2	+	67	9420	c.9420G>A	c.(9418-9420)CAG>CAA	p.Q3140Q		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3140					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TGCCCACCCAGGACTGCCCCT	0.622													5	14	---	---	---	---	PASS	A	149508026	A	A	149508026	2	1	4	1	0	0	0	0	0	0	0	1	15188	991	35	3		3	SSPO	7	149508026	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	7401	149508026	9630637	1712	2303										
SSPO	23145	broad.mit.edu	37	chr7	149512315	149512315	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggcagccctgcccccgctcCtgccaggacctgtcccctgg	12	20	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:149512315C>T	uc010lpk.2	+	76	10635	c.10635C>T	c.(10633-10635)TCC>TCT	p.S3545S		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3545					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GCCCCCGCTCCTGCCAGGACC	0.682													15	9	---	---	---	---	PASS	T	149512315	T	T	149512315	2	4	4	1	0	0	0	0	0	0	0	1	15188	668	24	3		3	SSPO	7	149512315	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4289	149512315	9626348	1713	2304										
ZNF862	643641	broad.mit.edu	37	chr7	149558300	149558300	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctggatgagctggacatccCcttccggaagcctggctggg	14	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:149558300C>T	uc010lpn.2	+	7	2243	c.2051C>T	c.(2050-2052)CCC>CTC	p.P684L	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	684					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						CTGGACATCCCCTTCCGGAAG	0.587													7	10	---	---	---	---	PASS	T	149558300	T	T	149558300	3	4	4	1	0	0	0	0	1	0	0	0	18192	623	22	3	2077	3	ZNF862	7	149558300	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	45985	149558300	9580363	1714	2305										
GIMAP2	26157	broad.mit.edu	37	chr7	150390377	150390377	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttagactagaacgcaagactCctaggttatagttacagatc	8	8	0	4	rs149326002		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:150390377C>T	uc003who.2	+	3	1091	c.1003C>T	c.(1003-1005)CCT>TCT	p.P335S	GIMAP1_uc003whp.2_Intron	NM_015660	NP_056475	Q9UG22	GIMA2_HUMAN	GTPase, IMAP family member 2	335						integral to membrane	GTP binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ACGCAAGACTCCTAGGTTATA	0.323													5	13	---	---	---	---	PASS	T	150390377	T	T	150390377	3	4	4	1	0	0	0	0	1	0	0	0	6380	855	30	2	1009	2	GIMAP2	7	150390377	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	832077	150390377	8748286	1715	2306										
GIMAP1	170575	broad.mit.edu	37	chr7	150417417	150417417	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcactgctacctgctctcgGcccccggaccccacgcgctg	10	20	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:150417417G>A	uc003whq.2	+	3	412	c.325G>A	c.(325-327)GCC>ACC	p.A109T	GIMAP1_uc003whp.2_Missense_Mutation_p.A117T	NM_130759	NP_570115	Q8WWP7	GIMA1_HUMAN	GTPase, IMAP family member 1	109	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CCTGCTCTCGGCCCCCGGACC	0.637													4	21	---	---	---	---	PASS	A	150417417	A	A	150417417	3	1	4	1	0	0	0	0	1	0	0	0	6379	1203	42	3	331	3	GIMAP1	7	150417417	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	27040	150417417	8721246	1716	2307										
SLC4A2	6522	broad.mit.edu	37	chr7	150771338	150771338	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcaccttcttcatcgccttCttcctgcgcaaattcaagaa	6	14	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:150771338C>T	uc003wit.3	+	17	3004	c.2748C>T	c.(2746-2748)TTC>TTT	p.F916F	SLC4A2_uc011kve.1_Silent_p.F907F|SLC4A2_uc003wiu.3_Silent_p.F902F|SLC4A2_uc003wiv.3_Silent_p.F110F	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	916	Helical; (Potential).|Membrane (anion exchange).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TCATCGCCTTCTTCCTGCGCA	0.647													15	16	---	---	---	---	PASS	T	150771338	T	T	150771338	2	4	4	1	0	0	0	0	0	0	0	1	14654	912	32	2		2	SLC4A2	7	150771338	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	353921	150771338	8367325	1717	2308										
WDR86	349136	broad.mit.edu	37	chr7	151093117	151093117	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccccggccgcggcctcctcCgcgcagggagtgctggggag	17	17	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:151093117C>T	uc003wkb.2	-	3	920	c.471G>A	c.(469-471)GCG>GCA	p.A157A	WDR86_uc003wka.2_Silent_p.A115A|WDR86_uc011kvk.1_Silent_p.A157A|WDR86_uc003wkc.2_Silent_p.A29A	NM_198285	NP_938026	Q86TI4	WDR86_HUMAN	WD repeat domain 86	157	WD 4.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00419)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGGCCTCCTCCGCGCAGGGAG	0.711													3	7	---	---	---	---	PASS	T	151093117	T	T	151093117	2	4	4	1	0	0	0	0	0	0	0	1	17331	639	23	1		1	WDR86	7	151093117	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	321779	151093117	8045546	1718	2309										
MLL3	58508	broad.mit.edu	37	chr7	151860306	151860306	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtaagtcggaactgtagaaGggaatctgggacacagatgt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:151860306G>A	uc003wla.2	-	43	10575	c.10356C>T	c.(10354-10356)CCC>CCT	p.P3452P	MLL3_uc003wkz.2_Silent_p.P2513P|MLL3_uc003wky.2_Silent_p.P961P	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3452	Gln-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		AACTGTAGAAGGGAATCTGGG	0.478			N		medulloblastoma								30	104	---	---	---	---	PASS	A	151860306	A	A	151860306	2	1	4	1	0	0	0	0	0	0	0	1	9622	987	35	3		3	MLL3	7	151860306	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	767189	151860306	7278357	1719	2310	84	2								
MLL3	58508	broad.mit.edu	37	chr7	151860307	151860307	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtaagtcggaactgtagaagGgaatctgggacacagatgtc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:151860307G>A	uc003wla.2	-	43	10574	c.10355C>T	c.(10354-10356)CCC>CTC	p.P3452L	MLL3_uc003wkz.2_Missense_Mutation_p.P2513L|MLL3_uc003wky.2_Missense_Mutation_p.P961L	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3452	Gln-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACTGTAGAAGGGAATCTGGGA	0.478			N		medulloblastoma								30	103	---	---	---	---	PASS	A	151860307	A	A	151860307	3	1	4	1	0	0	0	0	1	0	0	0	9622	1232	43	3	4448	3	MLL3	7	151860307	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	151860307	7278356	1720	2311	84	2								
HTR5A	3361	broad.mit.edu	37	chr7	154876017	154876017	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcgtgttcgtgctctgctgGatccccttctttctcaccga	10	14	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:154876017G>A	uc003wlu.1	+	2	958	c.894G>A	c.(892-894)TGG>TGA	p.W298*		NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	298	Helical; Name=6; (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		TGCTCTGCTGGATCCCCTTCT	0.607													31	59	---	---	---	---	PASS	A	154876017	A	A	154876017	4	1	4	1	0	0	0	0	0	1	0	0	7450	1183	41	2	900	2	HTR5A	7	154876017	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3015710	154876017	4262646	1721	2312										
RBM33	155435	broad.mit.edu	37	chr7	155534782	155534782	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggctcaacctaaagaagaGgcaaaaacagaaacagaggt	11	7	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:155534782G>C	uc010lqk.1	+	13	2687	c.2319G>C	c.(2317-2319)GAG>GAC	p.E773D	RBM33_uc011kvv.1_Missense_Mutation_p.E582D	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	773							nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		CTAAAGAAGAGGCAAAAACAG	0.493													8	23	---	---	---	---	PASS	C	155534782	C	C	155534782	3	2	4	1	0	0	0	0	1	0	0	0	13130	991	35	4	2369	4	RBM33	7	155534782	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	658765	155534782	3603881	1722	2313										
SHH	6469	broad.mit.edu	37	chr7	155604732	155604732	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgcctcctcttcccgaaccCcctgcccggtccgcacgcca	8	22	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:155604732C>T	uc003wmk.1	-	1	236	c.85G>A	c.(85-87)GGG>AGG	p.G29R	SHH_uc003wmh.1_5'Flank|SHH_uc003wmi.1_5'Flank|SHH_uc003wmj.1_5'Flank	NM_000193	NP_000184	Q15465	SHH_HUMAN	sonic hedgehog preproprotein	29					androgen metabolic process|axon guidance|branching involved in ureteric bud morphogenesis|CD4-positive or CD8-positive, alpha-beta T cell lineage commitment|embryonic digit morphogenesis|hindbrain development|intein-mediated protein splicing|lymphoid progenitor cell differentiation|metanephric mesenchymal cell proliferation involved in metanephros development|midbrain development|negative regulation of cell migration|negative regulation of kidney smooth muscle cell differentiation|negative regulation of ureter smooth muscle cell differentiation|negative thymic T cell selection|neural crest cell migration|neuroblast proliferation|patterning of blood vessels|positive regulation of alpha-beta T cell differentiation|positive regulation of immature T cell proliferation in thymus|positive regulation of kidney smooth muscle cell differentiation|positive regulation of mesenchymal cell proliferation involved in ureter development|positive regulation of T cell differentiation in thymus|positive regulation of ureter smooth muscle cell differentiation|positive thymic T cell selection|proteolysis|sclerotome development|stem cell development|thymus development|vasculogenesis|ventral midline development	cell surface|extracellular space|membrane raft|plasma membrane	calcium ion binding|laminin-1 binding|peptidase activity|signal transducer activity|zinc ion binding			central_nervous_system(3)|lung(1)	4	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00882)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TTCCCGAACCCCCTGCCCGGT	0.612													37	52	---	---	---	---	PASS	T	155604732	T	T	155604732	3	4	4	1	0	0	0	0	1	0	0	0	14279	623	22	3	1315	3	SHH	7	155604732	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	69950	155604732	3533931	1723	2314										
PTPRN2	5799	broad.mit.edu	37	chr7	157931004	157931004	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctggaaagctgtctccacGgagggtggccttggggccat	15	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:157931004G>A	uc003wno.2	-	7	1235	c.1114C>T	c.(1114-1116)CGT>TGT	p.R372C	PTPRN2_uc003wnp.2_Missense_Mutation_p.R355C|PTPRN2_uc003wnq.2_Missense_Mutation_p.R372C|PTPRN2_uc003wnr.2_Missense_Mutation_p.R334C|PTPRN2_uc011kwa.1_Missense_Mutation_p.R395C	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	372	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CTGTCTCCACGGAGGGTGGCC	0.677													8	15	---	---	---	---	PASS	A	157931004	A	A	157931004	3	1	4	1	0	0	0	0	1	0	0	0	12808	1116	39	1	2001	1	PTPRN2	7	157931004	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2326272	157931004	1207659	1724	2315										
PTPRN2	5799	broad.mit.edu	37	chr7	157959909	157959909	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctcgcggagctgggtccgGgacccgggagggtaggtcag	19	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:157959909G>A	uc003wno.2	-	6	745	c.624C>T	c.(622-624)TCC>TCT	p.S208S	PTPRN2_uc003wnp.2_Silent_p.S191S|PTPRN2_uc003wnq.2_Silent_p.S208S|PTPRN2_uc003wnr.2_Silent_p.S170S|PTPRN2_uc011kwa.1_Silent_p.S231S	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	208	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		GCTGGGTCCGGGACCCGGGAG	0.632													8	27	---	---	---	---	PASS	A	157959909	A	A	157959909	2	1	4	1	0	0	0	0	0	0	0	1	12808	1219	43	3		3	PTPRN2	7	157959909	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	28905	157959909	1178754	1725	2316										
WDR60	55112	broad.mit.edu	37	chr7	158677292	158677292	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgaggtgcaagctcaaaaaGagatgggaccagcagccagt	13	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr7:158677292G>A	uc003woe.3	+	6	1075	c.917G>A	c.(916-918)AGA>AAA	p.R306K	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_5'UTR	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	306										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		AGCTCAAAAAGAGATGGGACC	0.423													11	28	---	---	---	---	PASS	A	158677292	A	A	158677292	3	1	4	1	0	0	0	0	1	0	0	0	17308	942	33	2	939	2	WDR60	7	158677292	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	717383	158677292	461371	1726	2317										
DLGAP2	9228	broad.mit.edu	37	chr8	1497235	1497235	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctgccgctgcaccgggacGgcttccacacgctgcagtac	12	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:1497235G>A	uc003wpl.2	+	2	473	c.376G>A	c.(376-378)GGC>AGC	p.G126S	DLGAP2_uc003wpm.2_Missense_Mutation_p.G126S	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	205					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		GCACCGGGACGGCTTCCACAC	0.701													4	1	---	---	---	---	PASS	A	1497235	A	A	1497235	3	1	4	1	0	0	0	0	1	0	0	0	4560	1116	39	1	378	1	DLGAP2	8	1497235	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08		1497235	144866787	1727	2318										
DLGAP2	9228	broad.mit.edu	37	chr8	1497405	1497405	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcaccaaggcggacggccgGgcggacgaccaccaccacgc	15	17	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:1497405G>A	uc003wpl.2	+	2	643	c.546G>A	c.(544-546)CGG>CGA	p.R182R	DLGAP2_uc003wpm.2_Silent_p.R182R	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	261					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		CGGACGGCCGGGCGGACGACC	0.667													5	7	---	---	---	---	PASS	A	1497405	A	A	1497405	2	1	4	1	0	0	0	0	0	0	0	1	4560	1219	43	3		3	DLGAP2	8	1497405	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	170	1497405	144866617	1728	2319										
CSMD1	64478	broad.mit.edu	37	chr8	2808739	2808739	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagtggcgggttgtcttttCcctaaatattcataataccc	8	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:2808739C>T	uc011kwk.1	-	66	10491	c.10101G>A	c.(10099-10101)GGG>GGA	p.G3367G	CSMD1_uc011kwj.1_Silent_p.G2681G|CSMD1_uc010lrg.2_Silent_p.G1258G	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3367	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)		GTTGTCTTTTCCCTAAATATT	0.473													8	21	---	---	---	---	PASS	T	2808739	T	T	2808739	2	4	4	1	0	0	0	0	0	0	0	1	3944	842	30	2		2	CSMD1	8	2808739	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1311334	2808739	143555283	1729	2320										
CSMD1	64478	broad.mit.edu	37	chr8	2876151	2876151	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgttgccatttgggggaaagGaaaggcttccacacgagata	13	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:2876151G>A	uc011kwk.1	-	52	8270	c.7880C>T	c.(7879-7881)TCC>TTC	p.S2627F	CSMD1_uc011kwj.1_Missense_Mutation_p.S1956F|CSMD1_uc010lrg.2_Intron	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2627	Extracellular (Potential).|Sushi 17.					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)		TGGGGGAAAGGAAAGGCTTCC	0.398													49	131	---	---	---	---	PASS	A	2876151	A	A	2876151	3	1	4	1	0	0	0	0	1	0	0	0	3944	1174	41	2	2893	2	CSMD1	8	2876151	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	67412	2876151	143487871	1730	2321										
CSMD1	64478	broad.mit.edu	37	chr8	2966239	2966239	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgttgccactgaaaactcCcagctggggtgagttctgat	12	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:2966239C>T	uc011kwk.1	-	44	7033	c.6643G>A	c.(6643-6645)GGA>AGA	p.G2215R	CSMD1_uc011kwj.1_Missense_Mutation_p.G1607R|CSMD1_uc010lrg.2_Missense_Mutation_p.G283R	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2215	Extracellular (Potential).|CUB 13.					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)		CTGAAAACTCCCAGCTGGGGT	0.493													17	18	---	---	---	---	PASS	T	2966239	T	T	2966239	3	4	4	1	0	0	0	0	1	0	0	0	3944	632	22	3	4162	3	CSMD1	8	2966239	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	90088	2966239	143397783	1731	2322										
CSMD1	64478	broad.mit.edu	37	chr8	3047579	3047579	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaaactcagaaccaattctCcttccgtatctgggctcggg	9	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:3047579C>T	uc011kwk.1	-	34	5646	c.5256G>A	c.(5254-5256)AGG>AGA	p.R1752R	CSMD1_uc011kwj.1_Silent_p.R1144R|CSMD1_uc003wqe.2_Silent_p.R908R|CSMD1_uc010lrg.2_5'Flank	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1752	Sushi 10.|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)		AACCAATTCTCCTTCCGTATC	0.562													5	8	---	---	---	---	PASS	T	3047579	T	T	3047579	2	4	4	1	0	0	0	0	0	0	0	1	3944	854	30	2		2	CSMD1	8	3047579	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	81340	3047579	143316443	1732	2323										
CSMD1	64478	broad.mit.edu	37	chr8	3063068	3063068	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaatagaggcatatttgacCagctgtgtaattatgggggt	14	4	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:3063068C>T	uc011kwk.1	-	31	5335	c.4945G>A	c.(4945-4947)GGT>AGT	p.G1649S	CSMD1_uc011kwj.1_Missense_Mutation_p.G1041S|CSMD1_uc003wqe.2_Missense_Mutation_p.G805S	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1649	Extracellular (Potential).|CUB 10.					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)		CATATTTGACCAGCTGTGTAA	0.388													6	21	---	---	---	---	PASS	T	3063068	T	T	3063068	3	4	4	1	0	0	0	0	1	0	0	0	3944	594	21	3	5912	3	CSMD1	8	3063068	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	15489	3063068	143300954	1733	2324										
CSMD1	64478	broad.mit.edu	37	chr8	3063085	3063085	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaccagctgtgtaattatggGggtagtttggtgataaaact	13	4	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:3063085G>A	uc011kwk.1	-	31	5318	c.4928C>T	c.(4927-4929)CCC>CTC	p.P1643L	CSMD1_uc011kwj.1_Missense_Mutation_p.P1035L|CSMD1_uc003wqe.2_Missense_Mutation_p.P799L	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1643	Extracellular (Potential).|CUB 10.					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)		GTAATTATGGGGGTAGTTTGG	0.408													10	14	---	---	---	---	PASS	A	3063085	A	A	3063085	3	1	4	1	0	0	0	0	1	0	0	0	3944	1232	43	3	5929	3	CSMD1	8	3063085	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	17	3063085	143300937	1734	2325										
CSMD1	64478	broad.mit.edu	37	chr8	3267122	3267122	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atccccacaccctcccttttCaatttctgaaaatggaaaaa	3	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:3267122C>T	uc011kwk.1	-	13	1960	c.1570G>A	c.(1570-1572)GAA>AAA	p.E524K	CSMD1_uc011kwj.1_5'UTR	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	524	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)		CCTCCCTTTTCAATTTCTGAA	0.443													5	12	---	---	---	---	PASS	T	3267122	T	T	3267122	3	4	4	1	0	0	0	0	1	0	0	0	3944	835	29	2		2	CSMD1	8	3267122	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	204037	3267122	143096900	1735	2326										
CSMD1	64478	broad.mit.edu	37	chr8	4495068	4495068	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggaccctggactaagcctCcacagttctgacctggaaga	11	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:4495068C>T	uc011kwk.1	-	2	488	c.98G>A	c.(97-99)GGA>GAA	p.G33E		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	33	Extracellular (Potential).|CUB 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)		GACTAAGCCTCCACAGTTCTG	0.443													16	43	---	---	---	---	PASS	T	4495068	T	T	4495068	3	4	4	1	0	0	0	0	1	0	0	0	3944	855	30	2	10685	2	CSMD1	8	4495068	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1227946	4495068	141868954	1736	2327										
AGPAT5	55326	broad.mit.edu	37	chr8	6612607	6612607	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatgtccaaaaattcatattCacattgatcgtatcgacaaa	4	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:6612607C>T	uc003wqo.2	+	7	1093	c.781C>T	c.(781-783)CAC>TAC	p.H261Y	AGPAT5_uc011kwm.1_Silent_p.F85F	NM_018361	NP_060831	Q9NUQ2	PLCE_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 5	261					phospholipid biosynthetic process	integral to membrane|mitochondrion	1-acylglycerol-3-phosphate O-acyltransferase activity				0			STAD - Stomach adenocarcinoma(24;0.0578)	READ - Rectum adenocarcinoma(644;0.156)|COAD - Colon adenocarcinoma(149;0.191)		AATTCATATTCACATTGATCG	0.299													16	25	---	---	---	---	PASS	T	6612607	T	T	6612607	3	4	4	1	0	0	0	0	1	0	0	0	390	826	29	2	807	2	AGPAT5	8	6612607	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2117539	6612607	139751415	1737	2328										
DEFB4A	1673	broad.mit.edu	37	chr8	7752264	7752264	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtatctcctcttctcgttCctcttcatattcctgatgcc	4	14	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:7752264C>T	uc003wsd.2	+	1	66	c.30C>T	c.(28-30)TTC>TTT	p.F10F		NM_004942	NP_004933	O15263	DFB4A_HUMAN	defensin, beta 4 precursor	10					chemotaxis|defense response to bacterium|G-protein coupled receptor protein signaling pathway|immune response	extracellular region					0						TCTTCTCGTTCCTCTTCATAT	0.517													17	83	---	---	---	---	PASS	T	7752264	T	T	7752264	2	4	4	1	0	0	0	0	0	0	0	1	4421	854	30	2		2	DEFB4A	8	7752264	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1139657	7752264	138611758	1738	2329										
RP1L1	94137	broad.mit.edu	37	chr8	10465665	10465665	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctgggtctccacttcaacCtccagggcctctacatcttc	6	17	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:10465665C>T	uc003wtc.2	-	4	6172	c.5943G>A	c.(5941-5943)GAG>GAA	p.E1981E		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1981					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CCACTTCAACCTCCAGGGCCT	0.587													59	127	---	---	---	---	PASS	T	10465665	T	T	10465665	2	4	4	1	0	0	0	0	0	0	0	1	13533	680	24	3		3	RP1L1	8	10465665	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2713401	10465665	135898357	1739	2330										
RP1L1	94137	broad.mit.edu	37	chr8	10466654	10466654	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggacagaactcctccccctCcgcctcctcgcccagctggc	9	21	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:10466654C>T	uc003wtc.2	-	4	5183	c.4954G>A	c.(4954-4956)GAG>AAG	p.E1652K		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1652					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TCCTCCCCCTCCGCCTCCTCG	0.662													14	17	---	---	---	---	PASS	T	10466654	T	T	10466654	3	4	4	1	0	0	0	0	1	0	0	0	13533	864	30	2	2252	2	RP1L1	8	10466654	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	989	10466654	135897368	1740	2331										
C8orf74	203076	broad.mit.edu	37	chr8	10557809	10557809	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctcctgcaggagctgctgcAgcgccagatccagaacacat	11	14	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:10557809A>C	uc003wtd.1	+	4	742	c.713A>C	c.(712-714)CAG>CCG	p.Q238P	C8orf74_uc003wte.1_RNA	NM_001040032	NP_001035121	Q6P047	CH074_HUMAN	hypothetical protein LOC203076	238											0				COAD - Colon adenocarcinoma(149;0.0811)		GAGCTGCTGCAGCGCCAGATC	0.607													10	36	---	---	---	---	PASS	C	10557809	C	C	10557809	3	2	4	1	0	0	0	0	1	0	0	0	2436	188	7	5	727	5	C8orf74	8	10557809	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	91155	10557809	135806213	1741	2332										
FGF20	26281	broad.mit.edu	37	chr8	16850674	16850674	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtaaatttctgatgcctcttGgacctggcgccatctcttgg	10	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:16850674G>A	uc003wxc.1	-	3	676	c.543C>T	c.(541-543)TCC>TCT	p.S181S	FGF20_uc010lsv.1_RNA|FGF20_uc010lsw.1_3'UTR	NM_019851	NP_062825	Q9NP95	FGF20_HUMAN	fibroblast growth factor 20	181					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	extracellular region|soluble fraction	growth factor activity			lung(1)	1				Colorectal(111;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		GATGCCTCTTGGACCTGGCGC	0.428													20	63	---	---	---	---	PASS	A	16850674	A	A	16850674	2	1	4	1	0	0	0	0	0	0	0	1	5849	1335	47	3		3	FGF20	8	16850674	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	6292865	16850674	129513348	1742	2333										
PDGFRL	5157	broad.mit.edu	37	chr8	17486125	17486125	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacgctccacagggaattccCagccaaggagatcccagcca	9	16	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:17486125C>T	uc003wxr.2	+	4	696	c.635C>T	c.(634-636)CCA>CTA	p.P212L		NM_006207	NP_006198	Q15198	PGFRL_HUMAN	platelet-derived growth factor receptor-like	212						extracellular region	platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity				0				Colorectal(111;0.0752)		AGGGAATTCCCAGCCAAGGAG	0.537													12	34	---	---	---	---	PASS	T	17486125	T	T	17486125	3	4	4	1	0	0	0	0	1	0	0	0	11663	594	21	3	649	3	PDGFRL	8	17486125	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	635451	17486125	128877897	1743	2334										
PCM1	5108	broad.mit.edu	37	chr8	17794743	17794743	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtaaccaatgatatttctcCggagtcgtcaccaggagttg	10	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:17794743C>T	uc003wyi.3	+	4	619	c.197C>T	c.(196-198)CCG>CTG	p.P66L	PCM1_uc011kyh.1_Missense_Mutation_p.P66L|PCM1_uc003wyj.3_Missense_Mutation_p.P66L|PCM1_uc003wyg.2_Missense_Mutation_p.P66L|PCM1_uc003wyh.2_Missense_Mutation_p.P66L|PCM1_uc010lta.1_Missense_Mutation_p.P66L	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	66					centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		GATATTTCTCCGGAGTCGTCA	0.428			T	RET|JAK2	papillary thyroid|CML|MPD								16	20	---	---	---	---	PASS	T	17794743	T	T	17794743	3	4	4	1	0	0	0	0	1	0	0	0	11584	652	23	1	203	1	PCM1	8	17794743	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	308618	17794743	128569279	1744	2335										
SH2D4A	63898	broad.mit.edu	37	chr8	19252082	19252082	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaacccatcacttccctgGggaaggagctccttctctat	9	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:19252082G>T	uc003wzb.2	+	10	1630	c.1294G>T	c.(1294-1296)GGG>TGG	p.G432W	SH2D4A_uc011kym.1_Missense_Mutation_p.G387W|SH2D4A_uc003wzc.2_Missense_Mutation_p.G432W	NM_022071	NP_071354	Q9H788	SH24A_HUMAN	SH2 domain containing 4A	432	SH2.					cytoplasm|nucleus	protein binding				0				Colorectal(111;0.0732)		CACTTCCCTGGGGAAGGAGCT	0.537													5	80	---	---	---	---	PASS	T	19252082	T	T	19252082	3	4	4	1	0	0	0	0	1	0	0	0	14235	1232	43	3	1378	3	SH2D4A	8	19252082	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1457339	19252082	127111940	1745	2336										
LPL	4023	broad.mit.edu	37	chr8	19810842	19810842	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggagtttaactaccctctgGacaatgtccatctcttggga	9	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:19810842G>A	uc003wzk.3	+	4	821	c.451G>A	c.(451-453)GAC>AAC	p.D151N		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor	151					fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	CTACCCTCTGGACAATGTCCA	0.383													27	31	---	---	---	---	PASS	A	19810842	A	A	19810842	3	1	4	1	0	0	0	0	1	0	0	0	8921	1174	41	2	465	2	LPL	8	19810842	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	558760	19810842	126553180	1746	2337										
SORBS3	10174	broad.mit.edu	37	chr8	22414361	22414361	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcgtcgggacaagcgctgGgtcaagtacgagggaatcgg	17	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:22414361G>A	uc003xbv.2	+	4	694	c.354G>A	c.(352-354)TGG>TGA	p.W118*	SORBS3_uc011kzk.1_RNA	NM_005775	NP_005766	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3 isoform 1	118	SoHo.				muscle contraction|positive regulation of stress fiber assembly	cytoskeleton|cytosol|nucleus	protein binding|structural constituent of cytoskeleton|vinculin binding				0		Prostate(55;0.0421)|Breast(100;0.102)		BRCA - Breast invasive adenocarcinoma(99;0.00566)|Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		ACAAGCGCTGGGTCAAGTACG	0.657													13	29	---	---	---	---	PASS	A	22414361	A	A	22414361	4	1	4	1	0	0	0	0	0	1	0	0	14929	1241	43	3	364	3	SORBS3	8	22414361	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2603519	22414361	123949661	1747	2338										
KIAA1967	57805	broad.mit.edu	37	chr8	22464806	22464806	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctcagttgatcttccagcCtcaccggattcccccactct	6	18	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:22464806C>T	uc003xch.2	+	6	592	c.455C>T	c.(454-456)CCT>CTT	p.P152L	KIAA1967_uc003xci.2_Missense_Mutation_p.P152L|KIAA1967_uc003xcj.1_5'UTR	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	152					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		ATCTTCCAGCCTCACCGGATT	0.552													16	41	---	---	---	---	PASS	T	22464806	T	T	22464806	3	4	4	1	0	0	0	0	1	0	0	0	8265	681	24	3	473	3	KIAA1967	8	22464806	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	50445	22464806	123899216	1748	2339										
KIAA1967	57805	broad.mit.edu	37	chr8	22472971	22472971	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtttcagtacctgcagccGggacccccccggcggcttca	12	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:22472971G>T	uc003xch.2	+	12	1376	c.1239G>T	c.(1237-1239)CCG>CCT	p.P413P	KIAA1967_uc003xci.2_Silent_p.P413P|KIAA1967_uc003xcj.1_Silent_p.P82P	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	413					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		ACCTGCAGCCGGGACCCCCCC	0.582													4	75	---	---	---	---	PASS	T	22472971	T	T	22472971	2	4	4	1	0	0	0	0	0	0	0	1	8265	1103	39	1		1	KIAA1967	8	22472971	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	8165	22472971	123891051	1749	2340										
ADAM7	8756	broad.mit.edu	37	chr8	24344734	24344734	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacaaacataattgcaaacaGaatggcacatcaactggggc	8	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:24344734G>A	uc003xeb.2	+	11	1108	c.995G>A	c.(994-996)AGA>AAA	p.R332K	ADAM7_uc003xec.2_Missense_Mutation_p.R104K	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	332	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		ATTGCAAACAGAATGGCACAT	0.353													8	44	---	---	---	---	PASS	A	24344734	A	A	24344734	3	1	4	1	0	0	0	0	1	0	0	0	251	942	33	2	1037	2	ADAM7	8	24344734	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1871763	24344734	122019288	1750	2341										
NEFL	4747	broad.mit.edu	37	chr8	24811165	24811165	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggtgtagtaggacgggaaGgagcgggtggacatcagata	18	5	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:24811165G>A	uc003xee.2	-	3	1416	c.1314C>T	c.(1312-1314)TCC>TCT	p.S438S		NM_006158	NP_006149	P07196	NFL_HUMAN	neurofilament, light polypeptide 68kDa	438	Tail.|Tail, subdomain A.				anterograde axon cargo transport|axon transport of mitochondrion|neurofilament bundle assembly|retrograde axon cargo transport|synaptic transmission	cytosol|neurofilament	identical protein binding|protein C-terminus binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.00965)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		AGGACGGGAAGGAGCGGGTGG	0.582													11	37	---	---	---	---	PASS	A	24811165	A	A	24811165	2	1	4	1	0	0	0	0	0	0	0	1	10315	987	35	3		3	NEFL	8	24811165	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	466431	24811165	121552857	1751	2342										
DOCK5	80005	broad.mit.edu	37	chr8	25246721	25246721	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagtaccacgcctcctgggGaagacatcaagtcgtccccc	9	17	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:25246721G>A	uc003xeg.2	+	41	4383	c.4246G>A	c.(4246-4248)GAA>AAA	p.E1416K	PPP2R2A_uc003xek.2_Missense_Mutation_p.E205K|DOCK5_uc003xei.2_Missense_Mutation_p.E986K|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1416	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		GCCTCCTGGGGAAGACATCAA	0.567													23	63	---	---	---	---	PASS	A	25246721	A	A	25246721	3	1	4	1	0	0	0	0	1	0	0	0	4690	1175	41	2	4408	2	DOCK5	8	25246721	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	435556	25246721	121117301	1752	2343										
PNMA2	10687	broad.mit.edu	37	chr8	26365669	26365669	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccgccagccaccttttcttTtctgcctctgttactggcca	6	16	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:26365669T>A	uc003xez.2	-	3	1373	c.603A>T	c.(601-603)GAA>GAT	p.E201D		NM_007257	NP_009188	Q9UL42	PNMA2_HUMAN	paraneoplastic antigen MA2	201					apoptosis	nucleolus	protein binding				0		all_cancers(63;0.109)|Ovarian(32;2.61e-05)|all_epithelial(46;0.105)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0196)|Epithelial(17;3.13e-11)|Colorectal(74;0.123)		accttttcttttctgcctctg	0													22	31	---	---	---	---	PASS	A	26365669	A	A	26365669	3	1	4	1	0	0	0	0	1	0	0	0	12154	1838	64	5	495	5	PNMA2	8	26365669	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1118948	26365669	119998353	1753	2344										
TRIM35	23087	broad.mit.edu	37	chr8	27151768	27151768	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctgctcctccactctcaaGaactcgcgaagcttatcaaa	6	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:27151768G>A	uc003xfl.1	-	3	673	c.591C>T	c.(589-591)TTC>TTT	p.F197F	TRIM35_uc010lup.1_Silent_p.F165F|TRIM35_uc003xfm.1_RNA	NM_171982	NP_741983	Q9UPQ4	TRI35_HUMAN	tripartite motif-containing 35 isoform 2	197					apoptosis|induction of apoptosis|negative regulation of mitotic cell cycle	cytoplasm|nucleus	zinc ion binding				0		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|Epithelial(17;9.34e-10)|Colorectal(74;0.141)		CCACTCTCAAGAACTCGCGAA	0.577													14	43	---	---	---	---	PASS	A	27151768	A	A	27151768	2	1	4	1	0	0	0	0	0	0	0	1	16506	933	33	2		2	TRIM35	8	27151768	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	786099	27151768	119212254	1754	2345										
SCARA3	51435	broad.mit.edu	37	chr8	27516678	27516678	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatgcatgatcttcagtacCatacccactacgcccagaac	5	15	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:27516678C>T	uc003xga.1	+	5	1132	c.991C>T	c.(991-993)CAT>TAT	p.H331Y	SCARA3_uc003xgb.1_Missense_Mutation_p.H331Y	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	331	Extracellular (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		TCTTCAGTACCATACCCACTA	0.522													33	52	---	---	---	---	PASS	T	27516678	T	T	27516678	3	4	4	1	0	0	0	0	1	0	0	0	13879	594	21	3	1009	3	SCARA3	8	27516678	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	364910	27516678	118847344	1755	2346										
ELP3	55140	broad.mit.edu	37	chr8	27989846	27989846	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttcacctggccaaagattcCggttttaaagtggtggccca	10	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:27989846C>T	uc003xgo.3	+	9	979	c.831C>T	c.(829-831)TCC>TCT	p.S277S	ELP3_uc003xgn.3_Silent_p.S262S|ELP3_uc011laq.1_Silent_p.S205S|ELP3_uc011lar.1_Silent_p.S185S|ELP3_uc011las.1_Silent_p.S158S|ELP3_uc011lat.1_Silent_p.S158S	NM_018091	NP_060561	Q9H9T3	ELP3_HUMAN	elongation protein 3 homolog	277					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	histone acetyltransferase activity|iron-sulfur cluster binding|metal ion binding|phosphorylase kinase regulator activity|protein binding				0		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.151)|Colorectal(74;0.183)		CCAAAGATTCCGGTTTTAAAG	0.463													20	25	---	---	---	---	PASS	T	27989846	T	T	27989846	2	4	4	1	0	0	0	0	0	0	0	1	5081	639	23	1		1	ELP3	8	27989846	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	473168	27989846	118374176	1756	2347										
TMEM66	51669	broad.mit.edu	37	chr8	29927250	29927250	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggaggatactcagagtacGgtggaggagaatactgcccg	15	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:29927250G>T	uc003xhs.2	-	3	792	c.608C>A	c.(607-609)CCG>CAG	p.P203Q	TMEM66_uc003xht.2_Missense_Mutation_p.P203Q|TMEM66_uc003xhu.2_Missense_Mutation_p.P167Q|TMEM66_uc003xhv.2_Missense_Mutation_p.P31Q	NM_016127	NP_057211	Q96BY9	TMM66_HUMAN	transmembrane protein 66 precursor	203						integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(542;0.0993)|Kidney(114;0.119)		CTCAGAGTACGGTGGAGGAGA	0.483													5	98	---	---	---	---	PASS	T	29927250	T	T	29927250	3	4	4	1	0	0	0	0	1	0	0	0	16192	1116	39	1	427	1	TMEM66	8	29927250	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1937404	29927250	116436772	1757	2348										
TEX15	56154	broad.mit.edu	37	chr8	30695230	30695230	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaatttctgcaaaagcgtcCcatggtctggtgaaaatgtg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:30695230C>T	uc003xil.2	-	3	7421	c.7421G>A	c.(7420-7422)GGG>GAG	p.G2474E		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2474										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		CAAAAGCGTCCCATGGTCTGG	0.393													51	76	---	---	---	---	PASS	T	30695230	T	T	30695230	3	4	4	1	0	0	0	0	1	0	0	0	15776	623	22	3	956	3	TEX15	8	30695230	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	767980	30695230	115668792	1758	2349	85	2								
TEX15	56154	broad.mit.edu	37	chr8	30695231	30695231	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatttctgcaaaagcgtccCatggtctggtgaaaatgtgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:30695231C>T	uc003xil.2	-	3	7420	c.7420G>A	c.(7420-7422)GGG>AGG	p.G2474R		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2474										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		AAAAGCGTCCCATGGTCTGGT	0.398													53	77	---	---	---	---	PASS	T	30695231	T	T	30695231	3	4	4	1	0	0	0	0	1	0	0	0	15776	594	21	3	957	3	TEX15	8	30695231	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	30695231	115668791	1759	2350	85	2								
TEX15	56154	broad.mit.edu	37	chr8	30703109	30703109	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgactgacttgtactttggGatgtggaggatacaggcaac	13	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:30703109G>A	uc003xil.2	-	1	3425	c.3425C>T	c.(3424-3426)TCC>TTC	p.S1142F		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1142	Ser-rich.									ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TGTACTTTGGGATGTGGAGGA	0.403													19	36	---	---	---	---	PASS	A	30703109	A	A	30703109	3	1	4	1	0	0	0	0	1	0	0	0	15776	1174	41	2	4960	2	TEX15	8	30703109	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	7878	30703109	115660913	1760	2351										
TEX15	56154	broad.mit.edu	37	chr8	30705259	30705259	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actggttcattttcatttttCctatggacacatatatgttc	5	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:30705259C>T	uc003xil.2	-	1	1275	c.1275G>A	c.(1273-1275)AGG>AGA	p.R425R		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	425										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TTTCATTTTTCCTATGGACAC	0.333													26	72	---	---	---	---	PASS	T	30705259	T	T	30705259	2	4	4	1	0	0	0	0	0	0	0	1	15776	854	30	2		2	TEX15	8	30705259	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2150	30705259	115658763	1761	2352										
NRG1	3084	broad.mit.edu	37	chr8	32621468	32621468	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaggctgcgggagaagaagTttgaccatcaccctcagcag	12	11	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:32621468T>A	uc003xiv.2	+	12	1988	c.1471T>A	c.(1471-1473)TTT>ATT	p.F491I	NRG1_uc010lvo.2_3'UTR|NRG1_uc003xiu.2_Missense_Mutation_p.F496I|NRG1_uc003xiw.2_Missense_Mutation_p.F488I|NRG1_uc003xit.2_3'UTR|NRG1_uc010lvr.2_Missense_Mutation_p.F233I|NRG1_uc010lvs.2_Missense_Mutation_p.F233I|NRG1_uc010lvp.2_Missense_Mutation_p.F445I|NRG1_uc010lvq.2_Missense_Mutation_p.F428I|NRG1_uc011lbg.1_3'UTR|NRG1_uc011lbh.1_Missense_Mutation_p.F334I|NRG1_uc003xja.2_Missense_Mutation_p.F302I	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	491	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		GGAGAAGAAGTTTGACCATCA	0.567													32	48	---	---	---	---	PASS	A	32621468	A	A	32621468	3	1	4	1	0	0	0	0	1	0	0	0	10647	1725	60	5	3242	5	NRG1	8	32621468	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1916209	32621468	113742554	1762	2353										
FUT10	84750	broad.mit.edu	37	chr8	33310821	33310821	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctgctccacattggcctaAcctcccagtctcccccgtca	5	19	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:33310821A>G	uc003xje.2	-	3	645	c.289T>C	c.(289-291)TTA>CTA	p.L97L	FUT10_uc003xjc.2_Silent_p.L104L|FUT10_uc003xjd.2_Silent_p.L69L|FUT10_uc011lbi.1_Silent_p.L147L|FUT10_uc003xjf.2_Missense_Mutation_p.V22A|FUT10_uc003xjg.2_Silent_p.L69L|FUT10_uc003xjh.2_Silent_p.L97L|FUT10_uc003xji.1_Silent_p.L97L	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	97	Lumenal (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		CATTGGCCTAACCTCCCAGTC	0.488													19	45	---	---	---	---	PASS	G	33310821	G	G	33310821	2	3	4	1	0	0	0	0	0	0	0	1	6102	40	2	5		5	FUT10	8	33310821	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	689353	33310821	113053201	1763	2354										
UNC5D	137970	broad.mit.edu	37	chr8	35406913	35406913	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttatattatcaagagcaaCcctattgcactcaggtgcaa	7	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:35406913C>T	uc003xjr.1	+	2	535	c.207C>T	c.(205-207)AAC>AAT	p.N69N	UNC5D_uc003xjs.1_Silent_p.N64N	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	69	Extracellular (Potential).|Ig-like.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		TCAAGAGCAACCCTATTGCAC	0.512													16	43	---	---	---	---	PASS	T	35406913	T	T	35406913	2	4	4	1	0	0	0	0	0	0	0	1	16992	506	18	3		3	UNC5D	8	35406913	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2096092	35406913	110957109	1764	2355										
KCNU1	157855	broad.mit.edu	37	chr8	36673128	36673128	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttagatattatttgcgaaCtatatacctgaaatggtgga	8	4	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:36673128C>T	uc010lvw.2	+	9	1005	c.918C>T	c.(916-918)AAC>AAT	p.N306N	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	306	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		TATTTGCGAACTATATACCTG	0.313													14	34	---	---	---	---	PASS	T	36673128	T	T	36673128	2	4	4	1	0	0	0	0	0	0	0	1	8093	564	20	3		3	KCNU1	8	36673128	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1266215	36673128	109690894	1765	2356										
GOT1L1	137362	broad.mit.edu	37	chr8	37795246	37795246	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggaaggcaccactgtcacCaacagtgtgtacacccccta	8	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:37795246C>T	uc011lbj.1	-	3	419	c.319G>A	c.(319-321)GGT>AGT	p.G107S		NM_152413	NP_689626	Q8NHS2	AATC2_HUMAN	glutamic-oxaloacetic transaminase 1-like 1	107					biosynthetic process|cellular amino acid metabolic process	cytoplasm	pyridoxal phosphate binding|transaminase activity			ovary(1)	1	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;1.37e-11)			CCACTGTCACCAACAGTGTGT	0.338													7	18	---	---	---	---	PASS	T	37795246	T	T	37795246	3	4	4	1	0	0	0	0	1	0	0	0	6580	594	21	3	819	3	GOT1L1	8	37795246	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1122118	37795246	108568776	1766	2357										
LSM1	27257	broad.mit.edu	37	chr8	38029512	38029512	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caatgcttcttaaaaagcctAtaagtgtccttccatctcga	5	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:38029512A>G	uc003xkw.2	-	2	274	c.86T>C	c.(85-87)ATA>ACA	p.I29T	LSM1_uc003xkx.2_RNA	NM_014462	NP_055277	O15116	LSM1_HUMAN	Lsm1 protein	29					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|mRNA processing|RNA splicing, via transesterification reactions	cytosol|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0	Colorectal(12;0.000442)					TAAAAAGCCTATAAGTGTCCT	0.343											OREG0018720	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	37	---	---	---	---	PASS	G	38029512	G	G	38029512	3	3	4	1	0	0	0	0	1	0	0	0	9050	449	16	5	327	5	LSM1	8	38029512	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	234266	38029512	108334510	1767	2358										
ADAM18	8749	broad.mit.edu	37	chr8	39496021	39496021	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatatgtgggagcaacatttCctggcactgtatgcaataaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:39496021C>T	uc003xni.2	+	10	865	c.865C>T	c.(865-867)CCT>TCT	p.P289S	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.P265S	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	289	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			AGCAACATTTCCTGGCACTGT	0.274													4	15	---	---	---	---	PASS	T	39496021	T	T	39496021	3	4	4	1	0	0	0	0	1	0	0	0	239	855	30	2	903	2	ADAM18	8	39496021	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1466509	39496021	106868001	1768	2359	86	2								
ADAM18	8749	broad.mit.edu	37	chr8	39496022	39496022	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atatgtgggagcaacatttcCtggcactgtatgcaataaaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:39496022C>T	uc003xni.2	+	10	866	c.866C>T	c.(865-867)CCT>CTT	p.P289L	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.P265L	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	289	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			GCAACATTTCCTGGCACTGTA	0.279													4	16	---	---	---	---	PASS	T	39496022	T	T	39496022	3	4	4	1	0	0	0	0	1	0	0	0	239	681	24	3	904	3	ADAM18	8	39496022	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	39496022	106868000	1769	2360	86	2								
ADAM18	8749	broad.mit.edu	37	chr8	39496065	39496065	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatgatgcaggtattgctatGgtatgtaatttttattcttc	8	4	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:39496065G>A	uc003xni.2	+	10	909	c.909G>A	c.(907-909)ATG>ATA	p.M303I	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.M279I	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	303	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			GTATTGCTATGGTATGTAATT	0.269													9	16	---	---	---	---	PASS	A	39496065	A	A	39496065	3	1	4	1	0	0	0	0	1	0	0	0	239	1362	47	3	947	3	ADAM18	8	39496065	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	43	39496065	106867957	1770	2361										
ADAM18	8749	broad.mit.edu	37	chr8	39521342	39521342	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttaagaagtgctgtgattAtaacacatgtaaactgaagg	9	4	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:39521342A>C	uc003xni.2	+	13	1259	c.1259A>C	c.(1258-1260)TAT>TCT	p.Y420S	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.Y396S	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	420	Disintegrin.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TGCTGTGATTATAACACATGT	0.308													16	27	---	---	---	---	PASS	C	39521342	C	C	39521342	3	2	4	1	0	0	0	0	1	0	0	0	239	449	16	5	1309	5	ADAM18	8	39521342	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	25277	39521342	106842680	1771	2362										
IDO1	3620	broad.mit.edu	37	chr8	39782800	39782800	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaagggttctgggaagacCcaaaggagtttgcagggggc	17	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:39782800C>T	uc003xnm.2	+	9	880	c.766C>T	c.(766-768)CCA>TCA	p.P256S	IDO1_uc003xnn.2_RNA	NM_002164	NP_002155	P14902	I23O1_HUMAN	indoleamine 2,3-dioxygenase 1	256					female pregnancy|tryptophan catabolic process	cytosol	electron carrier activity|heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			central_nervous_system(2)	2					L-Tryptophan(DB00150)	CTGGGAAGACCCAAAGGAGTT	0.507													11	17	---	---	---	---	PASS	T	39782800	T	T	39782800	3	4	4	1	0	0	0	0	1	0	0	0	7501	623	22	3	800	3	IDO1	8	39782800	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	261458	39782800	106581222	1772	2363										
IDO2	169355	broad.mit.edu	37	chr8	39845390	39845390	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgctcctctccttcccaagGaacctggagaccatcatctc	7	16	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:39845390G>A	uc010lwy.1	+	7	731	c.489G>A	c.(487-489)GGG>GGA	p.G163G	IDO2_uc003xno.1_RNA|IDO2_uc010lwz.1_Intron|IDO2_uc003xnp.1_5'UTR	NM_194294	NP_919270	Q6ZQW0	I23O2_HUMAN	indoleamine-pyrrole 2,3 dioxygenase-like 1	150					tryptophan catabolic process to kynurenine	cytosol	heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			ovary(2)	2						CCTTCCCAAGGAACCTGGAGA	0.512													7	17	---	---	---	---	PASS	A	39845390	A	A	39845390	2	1	4	1	0	0	0	0	0	0	0	1	7502	1188	41	2		2	IDO2	8	39845390	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	62590	39845390	106518632	1773	2364										
IDO2	169355	broad.mit.edu	37	chr8	39845422	39845422	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcatctcatttcctggggGagagagcctgcatggtttta	11	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:39845422G>A	uc010lwy.1	+	7	763	c.521G>A	c.(520-522)GGA>GAA	p.G174E	IDO2_uc003xno.1_RNA|IDO2_uc010lwz.1_Intron|IDO2_uc003xnp.1_5'UTR	NM_194294	NP_919270	Q6ZQW0	I23O2_HUMAN	indoleamine-pyrrole 2,3 dioxygenase-like 1	161					tryptophan catabolic process to kynurenine	cytosol	heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			ovary(2)	2						TTTCCTGGGGGAGAGAGCCTG	0.478													14	26	---	---	---	---	PASS	A	39845422	A	A	39845422	3	1	4	1	0	0	0	0	1	0	0	0	7502	1174	41	2	547	2	IDO2	8	39845422	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	32	39845422	106518600	1774	2365										
MYST3	7994	broad.mit.edu	37	chr8	41800488	41800488	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctttgccatgtgatcctgGataagtttttcccggcggat	11	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:41800488G>A	uc010lxb.2	-	15	2803	c.2259C>T	c.(2257-2259)ATC>ATT	p.I753I	MYST3_uc010lxc.2_Silent_p.I753I|MYST3_uc003xon.3_Silent_p.I753I|MYST3_uc010lxd.2_Silent_p.I753I	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	753	Mediates interaction with BRPF1, required for histone H3 acetyltransferase activity.|Catalytic.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			TGTGATCCTGGATAAGTTTTT	0.418													9	51	---	---	---	---	PASS	A	41800488	A	A	41800488	2	1	4	1	0	0	0	0	0	0	0	1	10104	1164	41	2		2	MYST3	8	41800488	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1955066	41800488	104563534	1775	2366										
AP3M2	10947	broad.mit.edu	37	chr8	42019934	42019934	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgatgcaattattgataaatCaggtaggtgcttttaatatg	9	3	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:42019934C>T	uc003xop.2	+	5	872	c.581C>T	c.(580-582)TCA>TTA	p.S194L	AP3M2_uc003xoo.2_Missense_Mutation_p.S194L|AP3M2_uc010lxe.2_RNA|AP3M2_uc003xoq.1_Missense_Mutation_p.S79L|AP3M2_uc003xor.1_Missense_Mutation_p.S194L	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	194	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			ATTGATAAATCAGGTAGGTGC	0.358													85	138	---	---	---	---	PASS	T	42019934	T	T	42019934	3	4	4	1	0	0	0	0	1	0	0	0	748	838	29	2	591	2	AP3M2	8	42019934	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	219446	42019934	104344088	1776	2367										
POLB	5423	broad.mit.edu	37	chr8	42214872	42214872	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaagttaaaaaagtggattCtgaatacattgctacagtct	8	5	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:42214872C>T	uc003xoz.1	+	9	625	c.512C>T	c.(511-513)TCT>TTT	p.S171F	POLB_uc003xpa.1_Missense_Mutation_p.S171F|POLB_uc011lcs.1_Missense_Mutation_p.S17F	NM_002690	NP_002681	P06746	DPOLB_HUMAN	DNA-directed DNA polymerase beta	171					DNA-dependent DNA replication	cytoplasm|nucleoplasm|spindle microtubule	DNA-(apurinic or apyrimidinic site) lyase activity|DNA-directed DNA polymerase activity|enzyme binding|metal ion binding|microtubule binding			ovary(1)|breast(1)	2	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;2.58e-12)|Lung NSC(13;4.24e-11)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.1)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;3.18e-11)|Lung(22;0.00467)|OV - Ovarian serous cystadenocarcinoma(14;0.00523)|LUSC - Lung squamous cell carcinoma(45;0.024)		Cytarabine(DB00987)	AAAGTGGATTCTGAATACATT	0.338								DNA_polymerases_(catalytic_subunits)					6	25	---	---	---	---	PASS	T	42214872	T	T	42214872	3	4	4	1	0	0	0	0	1	0	0	0	12189	913	32	2	546	2	POLB	8	42214872	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	194938	42214872	104149150	1777	2368										
KIAA0146	23514	broad.mit.edu	37	chr8	48353097	48353097	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggacactgtccggatcttcCctccctggtgagtgcgcaga	12	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:48353097C>T	uc003xqd.2	+	8	1099	c.1090C>T	c.(1090-1092)CCT>TCT	p.P364S	KIAA0146_uc011lcz.1_RNA|KIAA0146_uc011lda.1_Missense_Mutation_p.P53S|KIAA0146_uc011ldb.1_Missense_Mutation_p.P364S|KIAA0146_uc010lxs.2_5'UTR|KIAA0146_uc011ldc.1_Missense_Mutation_p.P294S|KIAA0146_uc011ldd.1_Missense_Mutation_p.P304S|KIAA0146_uc003xqe.2_5'UTR|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc011lde.1_Missense_Mutation_p.P53S|KIAA0146_uc010lxt.2_Missense_Mutation_p.P53S	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	364											0		Lung NSC(58;0.175)				CCGGATCTTCCCTCCCTGGTG	0.517													13	20	---	---	---	---	PASS	T	48353097	T	T	48353097	3	4	4	1	0	0	0	0	1	0	0	0	8157	623	22	3	1120	3	KIAA0146	8	48353097	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6138225	48353097	98010925	1778	2369										
C8orf22	492307	broad.mit.edu	37	chr8	49986642	49986642	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagtgtttcttcagttagttCtttaactagctctgattctg	7	8	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:49986642C>T	uc003xqq.3	+	3	263	c.80C>T	c.(79-81)TCT>TTT	p.S27F		NM_001007176	NP_001007177	Q8WWR9	PDPFL_HUMAN	hypothetical protein LOC492307	27											0		all_cancers(86;0.0452)|all_epithelial(80;0.000863)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				TCAGTTAGTTCTTTAACTAGC	0.318													22	30	---	---	---	---	PASS	T	49986642	T	T	49986642	3	4	4	1	0	0	0	0	1	0	0	0	2419	913	32	2	86	2	C8orf22	8	49986642	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1633545	49986642	96377380	1779	2370										
PXDNL	137902	broad.mit.edu	37	chr8	52321427	52321427	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaggaaagcctgtcttcagGagaccccgaggcaccgaagg	13	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:52321427G>A	uc003xqu.3	-	17	2858	c.2757C>T	c.(2755-2757)CTC>CTT	p.L919L	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	919					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CTGTCTTCAGGAGACCCCGAG	0.607													8	16	---	---	---	---	PASS	A	52321427	A	A	52321427	2	1	4	1	0	0	0	0	0	0	0	1	12848	1161	41	2		2	PXDNL	8	52321427	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2334785	52321427	94042595	1780	2371										
PXDNL	137902	broad.mit.edu	37	chr8	52366184	52366184	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgttctgtaagtaaagtcCactggacgttgccacgtgcc	11	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:52366184C>T	uc003xqu.3	-	10	1245	c.1144G>A	c.(1144-1146)GGA>AGA	p.G382R		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	382	Ig-like C2-type 2.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				AAGTAAAGTCCACTGGACGTT	0.498													19	43	---	---	---	---	PASS	T	52366184	T	T	52366184	3	4	4	1	0	0	0	0	1	0	0	0	12848	603	21	3	3303	3	PXDNL	8	52366184	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	44757	52366184	93997838	1781	2372										
PCMTD1	115294	broad.mit.edu	37	chr8	52733211	52733211	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctgcatctcatcatttatGaaatttctaagtgtgcgtcg	8	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:52733211G>A	uc003xqx.3	-	6	1115	c.774C>T	c.(772-774)TTC>TTT	p.F258F	PCMTD1_uc011ldm.1_Silent_p.F128F|PCMTD1_uc003xqw.3_Silent_p.F258F|PCMTD1_uc011ldn.1_Silent_p.F70F|PCMTD1_uc010lya.2_Silent_p.F182F	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	258						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				CATCATTTATGAAATTTCTAA	0.398													5	108	---	---	---	---	PASS	A	52733211	A	A	52733211	2	1	4	1	0	0	0	0	0	0	0	1	11586	1281	45	2		2	PCMTD1	8	52733211	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	367027	52733211	93630811	1782	2373										
ST18	9705	broad.mit.edu	37	chr8	53049180	53049180	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagagttggcagccatgaggGattttagagtcttatctgct	13	6	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:53049180G>A	uc003xqz.2	-	14	2426	c.2270C>T	c.(2269-2271)TCC>TTC	p.S757F	ST18_uc011ldq.1_Missense_Mutation_p.S404F|ST18_uc011ldr.1_Missense_Mutation_p.S722F|ST18_uc011lds.1_Missense_Mutation_p.S662F|ST18_uc003xra.2_Missense_Mutation_p.S757F	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	757						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				AGCCATGAGGGATTTTAGAGT	0.478													8	11	---	---	---	---	PASS	A	53049180	A	A	53049180	3	1	4	1	0	0	0	0	1	0	0	0	15211	1174	41	2	905	2	ST18	8	53049180	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	315969	53049180	93314842	1783	2374										
ST18	9705	broad.mit.edu	37	chr8	53071573	53071573	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggtgtcttcactacattgaCcgtagctataagagctggca	11	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:53071573C>T	uc003xqz.2	-	10	1847	c.1691G>A	c.(1690-1692)GGT>GAT	p.G564D	ST18_uc011ldq.1_Missense_Mutation_p.G211D|ST18_uc011ldr.1_Missense_Mutation_p.G529D|ST18_uc011lds.1_Missense_Mutation_p.G469D|ST18_uc003xra.2_Missense_Mutation_p.G564D|ST18_uc003xrb.2_Missense_Mutation_p.G564D	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	564						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				ACTACATTGACCGTAGCTATA	0.542													26	38	---	---	---	---	PASS	T	53071573	T	T	53071573	3	4	4	1	0	0	0	0	1	0	0	0	15211	507	18	3	1500	3	ST18	8	53071573	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	22393	53071573	93292449	1784	2375										
ST18	9705	broad.mit.edu	37	chr8	53073958	53073958	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggaaatggtggtgtttttCgtccttgcactgtttgtatg	12	6	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:53073958C>T	uc003xqz.2	-	9	1727	c.1571G>A	c.(1570-1572)CGA>CAA	p.R524Q	ST18_uc011ldq.1_Missense_Mutation_p.R171Q|ST18_uc011ldr.1_Missense_Mutation_p.R489Q|ST18_uc011lds.1_Missense_Mutation_p.R429Q|ST18_uc003xra.2_Missense_Mutation_p.R524Q|ST18_uc003xrb.2_Missense_Mutation_p.R524Q	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	524						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				TGGTGTTTTTCGTCCTTGCAC	0.438													29	42	---	---	---	---	PASS	T	53073958	T	T	53073958	3	4	4	1	0	0	0	0	1	0	0	0	15211	884	31	2	1624	2	ST18	8	53073958	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2385	53073958	93290064	1785	2376										
ST18	9705	broad.mit.edu	37	chr8	53084599	53084599	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctcctcaacgtcagggaaTgagggctgggcattgccatc	12	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:53084599T>C	uc003xqz.2	-	5	978	c.822A>G	c.(820-822)TCA>TCG	p.S274S	ST18_uc011ldq.1_5'UTR|ST18_uc011ldr.1_Silent_p.S239S|ST18_uc011lds.1_Silent_p.S179S|ST18_uc003xra.2_Silent_p.S274S|ST18_uc003xrb.2_Silent_p.S274S	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	274						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				CGTCAGGGAATGAGGGCTGGG	0.507													26	35	---	---	---	---	PASS	C	53084599	C	C	53084599	2	2	4	1	0	0	0	0	0	0	0	1	15211	1451	51	5		5	ST18	8	53084599	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	10641	53084599	93279423	1786	2377										
RGS20	8601	broad.mit.edu	37	chr8	54791982	54791982	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctcccccctgcttcccgcCctgccggccgcccggctctc	8	24	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:54791982C>T	uc003xrp.2	+	2	422	c.330C>T	c.(328-330)GCC>GCT	p.A110A	RGS20_uc003xrq.2_Intron|RGS20_uc010lye.2_Intron|RGS20_uc010lyf.2_Intron|RGS20_uc003xrr.2_5'Flank|RGS20_uc003xrs.2_5'Flank|RGS20_uc003xrt.2_5'Flank	NM_170587	NP_733466	O76081	RGS20_HUMAN	regulator of G-protein signaling 20 isoform a	110					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|nucleus|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(7;1.37e-06)|Epithelial(17;0.000126)|all cancers(17;0.0009)			TGCTTCCCGCCCTGCCGGCCG	0.761													4	12	---	---	---	---	PASS	T	54791982	T	T	54791982	2	4	4	1	0	0	0	0	0	0	0	1	13303	610	22	3		3	RGS20	8	54791982	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1707383	54791982	91572040	1787	2378										
RP1	6101	broad.mit.edu	37	chr8	55540154	55540154	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaatctcctctttggatggaGgttgctctgccagtgaggca	13	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:55540154G>A	uc003xsd.1	+	4	3860	c.3712G>A	c.(3712-3714)GGT>AGT	p.G1238S	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1238					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TTTGGATGGAGGTTGCTCTGC	0.438													36	53	---	---	---	---	PASS	A	55540154	A	A	55540154	3	1	4	1	0	0	0	0	1	0	0	0	13532	1000	35	3	3722	3	RP1	8	55540154	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	748172	55540154	90823868	1788	2379										
RP1	6101	broad.mit.edu	37	chr8	55540733	55540733	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cactaaggaagtttcaggatGaaaatgcatatacttccttt	7	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:55540733G>A	uc003xsd.1	+	4	4439	c.4291G>A	c.(4291-4293)GAA>AAA	p.E1431K	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1431					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GTTTCAGGATGAAAATGCATA	0.373													19	48	---	---	---	---	PASS	A	55540733	A	A	55540733	3	1	4	1	0	0	0	0	1	0	0	0	13532	1291	45	2	4301	2	RP1	8	55540733	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	579	55540733	90823289	1789	2380										
RP1	6101	broad.mit.edu	37	chr8	55541635	55541635	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaaatgatgatagcagaatCctcacagacatagaggaagg	10	7	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:55541635C>T	uc003xsd.1	+	4	5341	c.5193C>T	c.(5191-5193)ATC>ATT	p.I1731I	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1731					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			ATAGCAGAATCCTCACAGACA	0.398													34	44	---	---	---	---	PASS	T	55541635	T	T	55541635	2	4	4	1	0	0	0	0	0	0	0	1	13532	845	30	2		2	RP1	8	55541635	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	902	55541635	90822387	1790	2381										
XKR4	114786	broad.mit.edu	37	chr8	56436231	56436231	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tactattttgtgatccttttGgaaaatacagccttgagtgc	8	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:56436231G>A	uc003xsf.2	+	3	1430	c.1398G>A	c.(1396-1398)TTG>TTA	p.L466L		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	466	Helical; (Potential).					integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			TGATCCTTTTGGAAAATACAG	0.473													17	44	---	---	---	---	PASS	A	56436231	A	A	56436231	2	1	4	1	0	0	0	0	0	0	0	1	17430	1339	47	3		3	XKR4	8	56436231	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	894596	56436231	89927791	1791	2382										
PLAG1	5324	broad.mit.edu	37	chr8	57079013	57079013	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccactgatagaggattatagGgaggaccatttaaaggtatg	12	5	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:57079013G>A	uc003xsq.3	-	3	1743	c.1292C>T	c.(1291-1293)CCC>CTC	p.P431L	PLAG1_uc003xsr.3_Missense_Mutation_p.P431L|PLAG1_uc010lyi.2_Missense_Mutation_p.P431L|PLAG1_uc010lyj.2_Missense_Mutation_p.P349L	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	431	Activates transcription; Inhibition of nuclear import due to lack of NLS and KPNA2 interaction.|Massively activates transcription.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			AGGATTATAGGGAGGACCATT	0.453			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								41	64	---	---	---	---	PASS	A	57079013	A	A	57079013	3	1	4	1	0	0	0	0	1	0	0	0	12018	1232	43	3	214	3	PLAG1	8	57079013	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	642782	57079013	89285009	1792	2383										
ASPH	444	broad.mit.edu	37	chr8	62430621	62430621	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcatcctgttgtctcgggGaacttttctagtaaggtaca	10	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:62430621G>A	uc003xuj.2	-	23	2231	c.1962C>T	c.(1960-1962)TTC>TTT	p.F654F	ASPH_uc011leg.1_Silent_p.F625F	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	654	Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	TTGTCTCGGGGAACTTTTCTA	0.398													49	78	---	---	---	---	PASS	A	62430621	A	A	62430621	2	1	4	1	0	0	0	0	0	0	0	1	1053	1165	41	2		2	ASPH	8	62430621	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	5351608	62430621	83933401	1793	2384										
ASPH	444	broad.mit.edu	37	chr8	62475376	62475376	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgccaaggtcattttttaagGaagtatcattgggaaatagt	10	5	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:62475376G>A	uc003xuj.2	-	18	1633	c.1364C>T	c.(1363-1365)TCC>TTC	p.S455F	ASPH_uc011leg.1_Missense_Mutation_p.S426F|ASPH_uc003xuo.2_Missense_Mutation_p.S436F	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	455	TPR 2.|Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	ATTTTTTAAGGAAGTATCATT	0.358													25	63	---	---	---	---	PASS	A	62475376	A	A	62475376	3	1	4	1	0	0	0	0	1	0	0	0	1053	1174	41	2	944	2	ASPH	8	62475376	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	44755	62475376	83888646	1794	2385										
TRIM55	84675	broad.mit.edu	37	chr8	67047381	67047381	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccctcactcatgtgttccaGagacagaaggtaacagagct	9	12	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:67047381G>A	uc003xvv.2	+	3	724	c.498G>A	c.(496-498)CAG>CAA	p.Q166Q	TRIM55_uc003xvu.2_Silent_p.Q166Q|TRIM55_uc003xvw.2_Silent_p.Q166Q|TRIM55_uc003xvx.2_Silent_p.Q166Q	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	166						cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			ATGTGTTCCAGAGACAGAAGG	0.592													21	52	---	---	---	---	PASS	A	67047381	A	A	67047381	2	1	4	1	0	0	0	0	0	0	0	1	16526	933	33	2		2	TRIM55	8	67047381	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4572005	67047381	79316641	1795	2386										
TRIM55	84675	broad.mit.edu	37	chr8	67064761	67064761	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acccagaaaaagcttcagagCtctctcaggtggagctgcag	11	11	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:67064761C>T	uc003xvv.2	+	8	1361	c.1135C>T	c.(1135-1137)CTC>TTC	p.L379F	TRIM55_uc003xvu.2_Missense_Mutation_p.L379F|TRIM55_uc003xvw.2_Missense_Mutation_p.L379F|TRIM55_uc003xvx.2_Intron	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	379						cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			AGCTTCAGAGCTCTCTCAGGT	0.433													10	32	---	---	---	---	PASS	T	67064761	T	T	67064761	3	4	4	1	0	0	0	0	1	0	0	0	16526	797	28	3	1165	3	TRIM55	8	67064761	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	17380	67064761	79299261	1796	2387										
XKR9	389668	broad.mit.edu	37	chr8	71646348	71646348	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggattgttgttggattcattCttatctttacattttttaat	6	4	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:71646348C>T	uc003xyq.2	+	5	1345	c.811C>T	c.(811-813)CTT>TTT	p.L271F	XKR9_uc010lze.2_Missense_Mutation_p.L271F|XKR9_uc010lzd.2_Missense_Mutation_p.L139F	NM_001011720	NP_001011720	Q5GH70	XKR9_HUMAN	XK, Kell blood group complex subunit-related	271	Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2	Breast(64;0.0716)		Epithelial(68;0.00301)|all cancers(69;0.0165)|OV - Ovarian serous cystadenocarcinoma(28;0.0524)|BRCA - Breast invasive adenocarcinoma(89;0.166)			TGGATTCATTCTTATCTTTAC	0.318													9	27	---	---	---	---	PASS	T	71646348	T	T	71646348	3	4	4	1	0	0	0	0	1	0	0	0	17435	913	32	2	821	2	XKR9	8	71646348	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4581587	71646348	74717674	1797	2388										
TRPA1	8989	broad.mit.edu	37	chr8	72935239	72935239	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctttcttaaacctgtcttGaaaagaacaatggctatcat	5	9	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:72935239G>A	uc003xza.2	-	27	3437	c.3262C>T	c.(3262-3264)CAA>TAA	p.Q1088*	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	1088	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AACCTGTCTTGAAAAGAACAA	0.403													18	36	---	---	---	---	PASS	A	72935239	A	A	72935239	4	1	4	1	0	0	0	0	0	1	0	0	16574	1299	45	2	101	2	TRPA1	8	72935239	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1288891	72935239	73428783	1798	2389										
KCNB2	9312	broad.mit.edu	37	chr8	73480246	73480246	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtatttctttgatcggcatCcaggagccttcacttccatt	7	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:73480246C>T	uc003xzb.2	+	2	865	c.277C>T	c.(277-279)CCA>TCA	p.P93S		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	93	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			TGATCGGCATCCAGGAGCCTT	0.478													21	40	---	---	---	---	PASS	T	73480246	T	T	73480246	3	4	4	1	0	0	0	0	1	0	0	0	8013	855	30	2	279	2	KCNB2	8	73480246	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	545007	73480246	72883776	1799	2390										
KCNB2	9312	broad.mit.edu	37	chr8	73849725	73849725	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcagcaacccactaaagtCcagatccctcaaagtgaact	7	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:73849725C>T	uc003xzb.2	+	3	2723	c.2135C>T	c.(2134-2136)TCC>TTC	p.S712F		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	712	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			CCACTAAAGTCCAGATCCCTC	0.537													44	54	---	---	---	---	PASS	T	73849725	T	T	73849725	3	4	4	1	0	0	0	0	1	0	0	0	8013	855	30	2	2141	2	KCNB2	8	73849725	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	369479	73849725	72514297	1800	2391										
JPH1	56704	broad.mit.edu	37	chr8	75227317	75227317	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttgttatttgcccactcCccttcatacttcatgccatt	3	15	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:75227317C>T	uc003yae.2	-	2	958	c.918G>A	c.(916-918)GGG>GGA	p.G306G	JPH1_uc003yaf.2_Silent_p.G306G|JPH1_uc003yag.1_Silent_p.G170G	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	306	Cytoplasmic (Potential).|MORN 7.				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			TTGCCCACTCCCCTTCATACT	0.517													32	57	---	---	---	---	PASS	T	75227317	T	T	75227317	2	4	4	1	0	0	0	0	0	0	0	1	7960	610	22	3		3	JPH1	8	75227317	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1377592	75227317	71136705	1801	2392										
PI15	51050	broad.mit.edu	37	chr8	75737547	75737547	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttctctgtgaagcaagtacCgtcgtcctactcaattccac	6	14	2	1	rs146928869		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:75737547C>A	uc003yal.2	+	2	242	c.63C>A	c.(61-63)ACC>ACA	p.T21T	uc003yak.1_Intron|PI15_uc003yam.2_Silent_p.T21T	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	21						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			AAGCAAGTACCGTCGTCCTAC	0.478													6	200	---	---	---	---	PASS	A	75737547	A	A	75737547	2	1	4	1	0	0	0	0	0	0	0	1	11868	639	23	1		1	PI15	8	75737547	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	510230	75737547	70626475	1802	2393										
CRISPLD1	83690	broad.mit.edu	37	chr8	75925135	75925135	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttctaatagatataggcccCcgacgtttcatgtacaatcg	7	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:75925135C>T	uc003yan.2	+	4	763	c.388C>T	c.(388-390)CCG>TCG	p.P130S	CRISPLD1_uc011lfk.1_5'UTR|CRISPLD1_uc011lfl.1_5'UTR	NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	130						extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			ATATAGGCCCCCGACGTTTCA	0.378													9	26	---	---	---	---	PASS	T	75925135	T	T	75925135	3	4	4	1	0	0	0	0	1	0	0	0	3882	623	22	3	398	3	CRISPLD1	8	75925135	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	187588	75925135	70438887	1803	2394										
ZFHX4	79776	broad.mit.edu	37	chr8	77618373	77618373	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtaagactggacagcctcacCccaggcttgcccggggtgag	14	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:77618373C>T	uc003yav.2	+	2	2437	c.2050C>T	c.(2050-2052)CCC>TCC	p.P684S	ZFHX4_uc003yat.1_Missense_Mutation_p.P684S|ZFHX4_uc003yau.1_Missense_Mutation_p.P684S|ZFHX4_uc003yaw.1_Missense_Mutation_p.P684S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	684						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACAGCCTCACCCCAGGCTTGC	0.512										HNSCC(33;0.089)			21	27	---	---	---	---	PASS	T	77618373	T	T	77618373	3	4	4	1	0	0	0	0	1	0	0	0	17632	623	22	3	2052	3	ZFHX4	8	77618373	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1693238	77618373	68745649	1804	2395										
ZFHX4	79776	broad.mit.edu	37	chr8	77618472	77618472	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaaaggcaacctcagtattCatatgcagtcggacaagcac	8	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:77618472C>T	uc003yav.2	+	2	2536	c.2149C>T	c.(2149-2151)CAT>TAT	p.H717Y	ZFHX4_uc003yat.1_Missense_Mutation_p.H717Y|ZFHX4_uc003yau.1_Missense_Mutation_p.H717Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.H717Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	717	C2H2-type 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCTCAGTATTCATATGCAGTC	0.522										HNSCC(33;0.089)			10	40	---	---	---	---	PASS	T	77618472	T	T	77618472	3	4	4	1	0	0	0	0	1	0	0	0	17632	826	29	2	2151	2	ZFHX4	8	77618472	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	99	77618472	68745550	1805	2396										
ZFHX4	79776	broad.mit.edu	37	chr8	77767134	77767134	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttccagaatacacgagcgcgGgagaggaaaggccagttccg	14	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:77767134G>A	uc003yav.2	+	10	8229	c.7842G>A	c.(7840-7842)CGG>CGA	p.R2614R	ZFHX4_uc003yau.1_Silent_p.R2659R|ZFHX4_uc003yaw.1_Silent_p.R2614R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2614	Homeobox 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CACGAGCGCGGGAGAGGAAAG	0.527										HNSCC(33;0.089)			25	45	---	---	---	---	PASS	A	77767134	A	A	77767134	2	1	4	1	0	0	0	0	0	0	0	1	17632	1219	43	3		3	ZFHX4	8	77767134	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	148662	77767134	68596888	1806	2397										
ZFHX4	79776	broad.mit.edu	37	chr8	77767159	77767159	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaaggccagttccgggcgGtgggtccagcacagtctcat	15	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:77767159G>A	uc003yav.2	+	10	8254	c.7867G>A	c.(7867-7869)GTG>ATG	p.V2623M	ZFHX4_uc003yau.1_Missense_Mutation_p.V2668M|ZFHX4_uc003yaw.1_Missense_Mutation_p.V2623M	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2623						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GTTCCGGGCGGTGGGTCCAGC	0.547										HNSCC(33;0.089)			26	40	---	---	---	---	PASS	A	77767159	A	A	77767159	3	1	4	1	0	0	0	0	1	0	0	0	17632	1261	44	3	8036	3	ZFHX4	8	77767159	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	25	77767159	68596863	1807	2398										
ZFHX4	79776	broad.mit.edu	37	chr8	77775467	77775467	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacctcctcctcctcctcctCcttcatcctctctgtcagga	3	21	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:77775467C>T	uc003yav.2	+	11	9769	c.9382C>T	c.(9382-9384)CCT>TCT	p.P3128S		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3124	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			tcctcctcctccttcatcctc	0.363										HNSCC(33;0.089)			9	21	---	---	---	---	PASS	T	77775467	T	T	77775467	3	4	4	1	0	0	0	0	1	0	0	0	17632	855	30	2	9555	2	ZFHX4	8	77775467	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	8308	77775467	68588555	1808	2399										
ZFHX4	79776	broad.mit.edu	37	chr8	77775587	77775587	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aattagaggccaccaaacccGaaaaacaccccaaaaaagag	6	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:77775587G>A	uc003yav.2	+	11	9889	c.9502G>A	c.(9502-9504)GAA>AAA	p.E3168K		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3164						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CACCAAACCCGAAAAACACCC	0.413										HNSCC(33;0.089)			46	76	---	---	---	---	PASS	A	77775587	A	A	77775587	3	1	4	1	0	0	0	0	1	0	0	0	17632	1059	37	2	9675	2	ZFHX4	8	77775587	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	120	77775587	68588435	1809	2400										
ZBTB10	65986	broad.mit.edu	37	chr8	81431659	81431659	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaagaatacgaggagaatGaagtaggagaagctgatgaa	14	2	0	7			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:81431659G>A	uc003ybx.3	+	6	3110	c.2512G>A	c.(2512-2514)GAA>AAA	p.E838K	ZBTB10_uc003ybv.3_Missense_Mutation_p.E546K|ZBTB10_uc003ybw.3_Missense_Mutation_p.E814K|ZBTB10_uc010lzt.2_Missense_Mutation_p.E836K	NM_001105539	NP_001099009	Q96DT7	ZBT10_HUMAN	zinc finger and BTB domain containing 10 isoform	838					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)	1	all_cancers(3;1.68e-09)|all_epithelial(4;5.13e-11)|Lung NSC(7;1.75e-07)|all_lung(9;7.38e-07)|Breast(3;2.96e-06)		BRCA - Breast invasive adenocarcinoma(6;0.000434)|Epithelial(68;0.00486)|all cancers(69;0.0296)			CGAGGAGAATGAAGTAGGAGA	0.448													11	18	---	---	---	---	PASS	A	81431659	A	A	81431659	3	1	4	1	0	0	0	0	1	0	0	0	17520	1291	45	2	2534	2	ZBTB10	8	81431659	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3656072	81431659	64932363	1810	2401										
CA13	377677	broad.mit.edu	37	chr8	86163132	86163132	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcaacagcggccattccttCaatgttgactttgatgacac	8	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:86163132C>T	uc003ydg.2	+	2	543	c.201C>T	c.(199-201)TTC>TTT	p.F67F	CA13_uc003ydf.1_RNA	NM_198584	NP_940986	Q8N1Q1	CAH13_HUMAN	carbonic anhydrase XIII	67					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0						GCCATTCCTTCAATGTTGACT	0.398													58	105	---	---	---	---	PASS	T	86163132	T	T	86163132	2	4	4	1	0	0	0	0	0	0	0	1	2514	825	29	2		2	CA13	8	86163132	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4731473	86163132	60200890	1811	2402										
SLC7A13	157724	broad.mit.edu	37	chr8	87230033	87230033	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgctaatgagggaaaagctCgatcagcccatgtgatagct	11	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:87230033C>T	uc003ydq.1	-	3	943	c.845G>A	c.(844-846)CGA>CAA	p.R282Q	SLC7A13_uc003ydr.1_Missense_Mutation_p.R273Q	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	282	Extracellular (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						GGGAAAAGCTCGATCAGCCCA	0.308													18	62	---	---	---	---	PASS	T	87230033	T	T	87230033	3	4	4	1	0	0	0	0	1	0	0	0	14695	884	31	2	575	2	SLC7A13	8	87230033	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1066901	87230033	59133989	1812	2403										
CNGB3	54714	broad.mit.edu	37	chr8	87591016	87591016	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtttgggtgtctcttctttCggtgggaagaggagggcaag	17	5	2	1	rs142347723		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:87591016C>T	uc003ydx.2	-	17	2050	c.2004G>A	c.(2002-2004)CCG>CCA	p.P668P	CNGB3_uc010maj.2_Silent_p.P525P	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	668	Cytoplasmic (Potential).|cGMP (By similarity).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						TCTCTTCTTTCGGTGGGAAGA	0.473													23	54	---	---	---	---	PASS	T	87591016	T	T	87591016	2	4	4	1	0	0	0	0	0	0	0	1	3601	871	31	2		2	CNGB3	8	87591016	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	360983	87591016	58773006	1813	2404										
CNBD1	168975	broad.mit.edu	37	chr8	88249162	88249162	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcagtggttgcaaatgatgGattttatgtaatactgaaag	10	3	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:88249162G>A	uc003ydy.2	+	6	641	c.593G>A	c.(592-594)GGA>GAA	p.G198E		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	198										ovary(3)	3						GCAAATGATGGATTTTATGTA	0.348													48	64	---	---	---	---	PASS	A	88249162	A	A	88249162	3	1	4	1	0	0	0	0	1	0	0	0	3591	1174	41	2	615	2	CNBD1	8	88249162	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	658146	88249162	58114860	1814	2405										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885348	88885348	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcatgtctgatgacaccagGaattggccatcttggaggat	12	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:88885348G>A	uc003ydz.2	-	1	949	c.852C>T	c.(850-852)TTC>TTT	p.F284F		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	284	WD 1.									ovary(1)	1						ATGACACCAGGAATTGGCCAT	0.498													25	35	---	---	---	---	PASS	A	88885348	A	A	88885348	2	1	4	1	0	0	0	0	0	0	0	1	4272	1165	41	2		2	DCAF4L2	8	88885348	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	636186	88885348	57478674	1815	2406										
RUNX1T1	862	broad.mit.edu	37	chr8	92972741	92972741	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttacggccacaattccagCaactctaaaggagaaggcag	9	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:92972741C>A	uc003yfd.2	-	11	1628	c.1544G>T	c.(1543-1545)TGC>TTC	p.C515F	RUNX1T1_uc003yfc.1_Missense_Mutation_p.C488F|RUNX1T1_uc003yfe.1_Missense_Mutation_p.C478F|RUNX1T1_uc010mao.2_Missense_Mutation_p.C488F|RUNX1T1_uc011lgi.1_Missense_Mutation_p.C526F|uc010mam.2_5'Flank|RUNX1T1_uc010man.1_Missense_Mutation_p.C140F|RUNX1T1_uc003yfb.1_Missense_Mutation_p.C478F	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	515	MYND-type.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			ACAATTCCAGCAACTCTAAAG	0.443													11	40	---	---	---	---	PASS	A	92972741	A	A	92972741	3	1	4	1	0	0	0	0	1	0	0	0	13747	710	25	3	274	3	RUNX1T1	8	92972741	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4087393	92972741	53391281	1816	2407										
RUNX1T1	862	broad.mit.edu	37	chr8	92998451	92998451	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcggcgtcactgtaccgccGgatccagtaattcaattctt	8	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:92998451G>A	uc003yfd.2	-	8	1264	c.1180C>T	c.(1180-1182)CGG>TGG	p.R394W	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R367W|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R357W|RUNX1T1_uc010mao.2_Missense_Mutation_p.R367W|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R405W|RUNX1T1_uc010man.1_5'UTR|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R357W	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	394					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			CTGTACCGCCGGATCCAGTAA	0.517													35	38	---	---	---	---	PASS	A	92998451	A	A	92998451	3	1	4	1	0	0	0	0	1	0	0	0	13747	1115	39	1	650	1	RUNX1T1	8	92998451	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	25710	92998451	53365571	1817	2408										
RUNX1T1	862	broad.mit.edu	37	chr8	93017356	93017356	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctctcacctgtctggagttCgcctcttcccgttttcgttc	7	16	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:93017356C>T	uc003yfd.2	-	5	812	c.728G>A	c.(727-729)CGA>CAA	p.R243Q	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R216Q|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R206Q|RUNX1T1_uc010mao.2_Missense_Mutation_p.R216Q|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R254Q|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R206Q|RUNX1T1_uc003yff.1_Missense_Mutation_p.R206Q	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	243					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GTCTGGAGTTCGCCTCTTCCC	0.522													36	50	---	---	---	---	PASS	T	93017356	T	T	93017356	3	4	4	1	0	0	0	0	1	0	0	0	13747	884	31	2	1114	2	RUNX1T1	8	93017356	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	18905	93017356	53346666	1818	2409										
KIAA1429	25962	broad.mit.edu	37	chr8	95539319	95539319	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaatctaagagttctgttaActtcactgaggcttcgattg	8	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:95539319A>G	uc003ygo.1	-	8	1166	c.1153T>C	c.(1153-1155)TTA>CTA	p.L385L	KIAA1429_uc003ygp.2_Silent_p.L385L|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	385					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			AGTTCTGTTAACTTCACTGAG	0.343													54	82	---	---	---	---	PASS	G	95539319	G	G	95539319	2	3	4	1	0	0	0	0	0	0	0	1	8231	40	2	5		5	KIAA1429	8	95539319	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	2521963	95539319	50824703	1819	2410										
MATN2	4147	broad.mit.edu	37	chr8	98943539	98943539	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgccacgggtcataatgatCgtgacagatgggagacctca	13	9	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:98943539C>T	uc003yic.2	+	3	732	c.501C>T	c.(499-501)ATC>ATT	p.I167I	MATN2_uc003yib.1_Silent_p.I167I|MATN2_uc010mbh.1_Silent_p.I167I|MATN2_uc003yid.2_Silent_p.I167I|MATN2_uc003yie.1_Silent_p.I167I|MATN2_uc010mbi.1_Silent_p.I41I	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	167	VWFA 1.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			TCATAATGATCGTGACAGATG	0.597													8	20	---	---	---	---	PASS	T	98943539	T	T	98943539	2	4	4	1	0	0	0	0	0	0	0	1	9334	874	31	2		2	MATN2	8	98943539	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3404220	98943539	47420483	1820	2411										
C8orf47	203111	broad.mit.edu	37	chr8	99101751	99101751	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcagcagtagagaaggactCtctcagagcagtggaggtca	15	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:99101751C>T	uc003yih.1	+	2	654	c.506C>T	c.(505-507)TCT>TTT	p.S169F		NM_173549	NP_775820	Q6P6B1	CH047_HUMAN	hypothetical protein LOC203111	169											0	Breast(36;2.31e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.214)			GAGAAGGACTCTCTCAGAGCA	0.517													26	24	---	---	---	---	PASS	T	99101751	T	T	99101751	3	4	4	1	0	0	0	0	1	0	0	0	2432	913	32	2	512	2	C8orf47	8	99101751	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	158212	99101751	47262271	1821	2412										
VPS13B	157680	broad.mit.edu	37	chr8	100830947	100830947	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttatttttatagattgtgTtcagccctctttttatcatg	5	6	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:100830947T>C	uc003yiv.2	+	47	8638	c.8527T>C	c.(8527-8529)TTC>CTC	p.F2843L	VPS13B_uc003yiw.2_Missense_Mutation_p.F2818L	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2843					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			ATAGATTGTGTTCAGCCCTCT	0.353													37	102	---	---	---	---	PASS	C	100830947	C	C	100830947	3	2	4	1	0	0	0	0	1	0	0	0	17187	1725	60	5	8903	5	VPS13B	8	100830947	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1729196	100830947	45533075	1822	2413										
GRHL2	79977	broad.mit.edu	37	chr8	102555584	102555584	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acttggagaatcccctgacaGcagccaccaaggccatgatg	10	13	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:102555584G>A	uc010mbu.2	+	2	466	c.136G>A	c.(136-138)GCA>ACA	p.A46T	GRHL2_uc010mbt.1_Missense_Mutation_p.A46T|GRHL2_uc011lhi.1_Missense_Mutation_p.A46T	NM_024915	NP_079191	Q6ISB3	GRHL2_HUMAN	transcription factor CP2-like 3	46	Transcription activation.					cytoplasm|nucleus	DNA binding			ovary(2)|skin(1)	3	all_cancers(14;4.39e-08)|all_epithelial(15;4.09e-10)|Lung NSC(17;7.11e-06)|all_lung(17;1.44e-05)		Epithelial(11;5.81e-09)|all cancers(13;3.81e-07)|OV - Ovarian serous cystadenocarcinoma(57;0.000213)			TCCCCTGACAGCAGCCACCAA	0.552													26	69	---	---	---	---	PASS	A	102555584	A	A	102555584	3	1	4	1	0	0	0	0	1	0	0	0	6764	971	34	3	142	3	GRHL2	8	102555584	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1724637	102555584	43808438	1823	2414										
NCALD	83988	broad.mit.edu	37	chr8	102701575	102701575	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctcgggtcgcactgcaggaGgcgcacaatggacgggtcgc	17	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:102701575G>A	uc003yke.2	-	4	913	c.544C>T	c.(544-546)CTC>TTC	p.L182F	NCALD_uc003ykf.2_Missense_Mutation_p.L182F|NCALD_uc003ykg.2_Missense_Mutation_p.L182F|NCALD_uc003ykh.2_Missense_Mutation_p.L182F|NCALD_uc003yki.2_Missense_Mutation_p.L182F|NCALD_uc003ykj.2_Missense_Mutation_p.L182F|NCALD_uc003ykk.2_Missense_Mutation_p.L182F|NCALD_uc003ykl.2_Missense_Mutation_p.L182F	NM_032041	NP_114430	P61601	NCALD_HUMAN	neurocalcin delta	182					synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)			CACTGCAGGAGGCGCACAATG	0.557													5	7	---	---	---	---	PASS	A	102701575	A	A	102701575	3	1	4	1	0	0	0	0	1	0	0	0	10201	1000	35	3	41	3	NCALD	8	102701575	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	145991	102701575	43662447	1824	2415										
RIMS2	9699	broad.mit.edu	37	chr8	104898040	104898040	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagaacgtagagctgccatgGaaaatcagcgatcttattca	9	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:104898040G>A	uc003yls.2	+	2	788	c.547G>A	c.(547-549)GAA>AAA	p.E183K	RIMS2_uc003ylp.2_Missense_Mutation_p.E405K|RIMS2_uc003ylw.2_Missense_Mutation_p.E213K|RIMS2_uc003ylq.2_Missense_Mutation_p.E213K|RIMS2_uc003ylr.2_Missense_Mutation_p.E213K	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	436					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGCTGCCATGGAAAATCAGCG	0.453										HNSCC(12;0.0054)			17	37	---	---	---	---	PASS	A	104898040	A	A	104898040	3	1	4	1	0	0	0	0	1	0	0	0	13368	1175	41	2	1353	2	RIMS2	8	104898040	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2196465	104898040	41465982	1825	2416										
RIMS2	9699	broad.mit.edu	37	chr8	105261767	105261767	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggacagctggaggtagaaatCatccgggcccgtggccttgt	15	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:105261767C>T	uc003yls.2	+	26	3937	c.3696C>T	c.(3694-3696)ATC>ATT	p.I1232I	RIMS2_uc003ylp.2_Silent_p.I1214I|RIMS2_uc003ylw.2_Silent_p.I1221I|RIMS2_uc003ylq.2_Silent_p.I1028I|RIMS2_uc003ylr.2_Silent_p.I1053I	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1276	C2 2.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGGTAGAAATCATCCGGGCCC	0.398										HNSCC(12;0.0054)			19	21	---	---	---	---	PASS	T	105261767	T	T	105261767	2	4	4	1	0	0	0	0	0	0	0	1	13368	816	29	2		2	RIMS2	8	105261767	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	363727	105261767	41102255	1826	2417										
TM7SF4	81501	broad.mit.edu	37	chr8	105360851	105360851	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttacgtgtctccaagaagccCcggatggatggactttatcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:105360851C>T	uc003ylx.1	+	2	120	c.71C>T	c.(70-72)CCC>CTC	p.P24L		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	24					osteoclast differentiation	cell surface|integral to membrane|plasma membrane		p.P24L(1)		pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CCAAGAAGCCCCGGATGGATG	0.493													21	51	---	---	---	---	PASS	T	105360851	T	T	105360851	3	4	4	1	0	0	0	0	1	0	0	0	15973	623	22	3	73	3	TM7SF4	8	105360851	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	99084	105360851	41003171	1827	2418	87	2								
TM7SF4	81501	broad.mit.edu	37	chr8	105360852	105360852	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacgtgtctccaagaagcccCggatggatggactttatcca					rs146486218		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:105360852C>T	uc003ylx.1	+	2	121	c.72C>T	c.(70-72)CCC>CCT	p.P24P		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	24					osteoclast differentiation	cell surface|integral to membrane|plasma membrane		p.P24L(1)		pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CAAGAAGCCCCGGATGGATGG	0.493													21	50	---	---	---	---	PASS	T	105360852	T	T	105360852	2	4	4	1	0	0	0	0	0	0	0	1	15973	639	23	1		1	TM7SF4	8	105360852	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	105360852	41003170	1828	2419	87	2								
ABRA	137735	broad.mit.edu	37	chr8	107773477	107773477	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagataatgaagcacatgtCcatcatttccctgtagatgt	8	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:107773477C>T	uc003ymm.3	-	2	988	c.934G>A	c.(934-936)GAC>AAC	p.D312N		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	312					positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			AAGCACATGTCCATCATTTCC	0.488													8	31	---	---	---	---	PASS	T	107773477	T	T	107773477	3	4	4	1	0	0	0	0	1	0	0	0	100	855	30	2	215	2	ABRA	8	107773477	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2412625	107773477	38590545	1829	2420										
ANGPT1	284	broad.mit.edu	37	chr8	108348443	108348443	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agttgcttctctagcttgtaGgtggataatgaattctccag	10	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:108348443G>A	uc003ymn.2	-	3	978	c.510C>T	c.(508-510)ACC>ACT	p.T170T	ANGPT1_uc011lhv.1_5'UTR|ANGPT1_uc003ymo.2_Silent_p.T170T	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	170	Potential.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			CTAGCTTGTAGGTGGATAATG	0.343													13	15	---	---	---	---	PASS	A	108348443	A	A	108348443	2	1	4	1	0	0	0	0	0	0	0	1	610	987	35	3		3	ANGPT1	8	108348443	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	574966	108348443	38015579	1830	2421										
RSPO2	340419	broad.mit.edu	37	chr8	109001380	109001380	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgcatcccttctcttcgaaGgaagaagaacaacttctgtt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:109001380G>A	uc003yms.2	-	3	845	c.187C>T	c.(187-189)CTT>TTT	p.L63F	RSPO2_uc003ymq.2_5'UTR|RSPO2_uc003ymr.2_Intron	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	63					Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			TCTCTTCGAAGGAAGAAGAAC	0.468													25	35	---	---	---	---	PASS	A	109001380	A	A	109001380	3	1	4	1	0	0	0	0	1	0	0	0	13710	1000	35	3	560	3	RSPO2	8	109001380	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	652937	109001380	37362642	1831	2422	88	2								
RSPO2	340419	broad.mit.edu	37	chr8	109001382	109001382	+	Missense_Mutation	SNP	A	G	G													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcatcccttctcttcgaaggAagaagaacaacttctgttga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:109001382A>G	uc003yms.2	-	3	843	c.185T>C	c.(184-186)TTC>TCC	p.F62S	RSPO2_uc003ymq.2_5'UTR|RSPO2_uc003ymr.2_Intron	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	62					Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			TCTTCGAAGGAAGAAGAACAA	0.468													25	34	---	---	---	---	PASS	G	109001382	G	G	109001382	3	3	4	1	0	0	0	0	1	0	0	0	13710	246	9	5	562	5	RSPO2	8	109001382	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2	109001382	37362640	1832	2423	88	2								
TMEM74	157753	broad.mit.edu	37	chr8	109796878	109796878	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatatcaaagatatggcagcCtcttgggaccactcatttgg	10	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:109796878C>T	uc003ymy.1	-	2	555	c.450G>A	c.(448-450)GAG>GAA	p.E150E	TMEM74_uc003ymx.2_Intron	NM_153015	NP_694560	Q96NL1	TMM74_HUMAN	transmembrane protein 74	150					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(57;3.08e-10)			ATATGGCAGCCTCTTGGGACC	0.493													10	31	---	---	---	---	PASS	T	109796878	T	T	109796878	2	4	4	1	0	0	0	0	0	0	0	1	16199	680	24	3		3	TMEM74	8	109796878	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	795496	109796878	36567144	1833	2424										
PKHD1L1	93035	broad.mit.edu	37	chr8	110425768	110425768	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacatacaactttgcttatgGaaacaagtaagttacgctat	6	7	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:110425768G>A	uc003yne.2	+	21	2458	c.2354G>A	c.(2353-2355)GGA>GAA	p.G785E		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	785	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTTGCTTATGGAAACAAGTAA	0.313										HNSCC(38;0.096)			3	7	---	---	---	---	PASS	A	110425768	A	A	110425768	3	1	4	1	0	0	0	0	1	0	0	0	11972	1174	41	2	2436	2	PKHD1L1	8	110425768	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	628890	110425768	35938254	1834	2425										
PKHD1L1	93035	broad.mit.edu	37	chr8	110437378	110437378	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taattggccaggcgagtcaaAaattcatattcaaagaattc	7	7	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:110437378A>T	uc003yne.2	+	24	2866	c.2762A>T	c.(2761-2763)AAA>ATA	p.K921I		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	921	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GGCGAGTCAAAAATTCATATT	0.318										HNSCC(38;0.096)			14	27	---	---	---	---	PASS	T	110437378	T	T	110437378	3	4	4	1	0	0	0	0	1	0	0	0	11972	14	1	5	2856	5	PKHD1L1	8	110437378	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	11610	110437378	35926644	1835	2426										
PKHD1L1	93035	broad.mit.edu	37	chr8	110457850	110457850	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctggaggatactccatttCtcagaggaattatcccaagc	8	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:110457850C>T	uc003yne.2	+	38	5856	c.5752C>T	c.(5752-5754)CTC>TTC	p.L1918F		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1918	Extracellular (Potential).|IPT/TIG 12.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TACTCCATTTCTCAGAGGAAT	0.358										HNSCC(38;0.096)			5	15	---	---	---	---	PASS	T	110457850	T	T	110457850	3	4	4	1	0	0	0	0	1	0	0	0	11972	913	32	2	5902	2	PKHD1L1	8	110457850	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	20472	110457850	35906172	1836	2427										
PKHD1L1	93035	broad.mit.edu	37	chr8	110530644	110530644	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccgtatcagcaaaataagaGggaagagtctgaggaggaag	14	5	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:110530644G>A	uc003yne.2	+	73	12042	c.11938G>A	c.(11938-11940)GGG>AGG	p.G3980R		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3980	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CAAAATAAGAGGGAAGAGTCT	0.393										HNSCC(38;0.096)			24	50	---	---	---	---	PASS	A	110530644	A	A	110530644	3	1	4	1	0	0	0	0	1	0	0	0	11972	1000	35	3	12228	3	PKHD1L1	8	110530644	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	72794	110530644	35833378	1837	2428										
KCNV1	27012	broad.mit.edu	37	chr8	110980452	110980452	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatgagtcagtggctatattCttggtaagcttctttagggc	11	6	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:110980452C>G	uc003ynr.3	-	3	1710	c.1368G>C	c.(1366-1368)AAG>AAC	p.K456N	KCNV1_uc010mcw.2_Missense_Mutation_p.K456N	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	456	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			TGGCTATATTCTTGGTAAGCT	0.433													15	33	---	---	---	---	PASS	G	110980452	G	G	110980452	3	3	4	1	0	0	0	0	1	0	0	0	8094	912	32	2	138	2	KCNV1	8	110980452	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	449808	110980452	35383570	1838	2429										
KCNV1	27012	broad.mit.edu	37	chr8	110980599	110980599	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatatacacatgaaggccacGattttgcctgtggtggtgtc	11	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:110980599G>A	uc003ynr.3	-	3	1563	c.1221C>T	c.(1219-1221)ATC>ATT	p.I407I	KCNV1_uc010mcw.2_Silent_p.I407I	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	407	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			TGAAGGCCACGATTTTGCCTG	0.473													35	58	---	---	---	---	PASS	A	110980599	A	A	110980599	2	1	4	1	0	0	0	0	0	0	0	1	8094	1048	37	2		2	KCNV1	8	110980599	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	147	110980599	35383423	1839	2430										
CSMD3	114788	broad.mit.edu	37	chr8	113299319	113299319	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actctggctgccttccggtcCaactgccattagctaaacat	7	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:113299319C>T	uc003ynu.2	-	58	9464	c.9305G>A	c.(9304-9306)TGG>TAG	p.W3102*	CSMD3_uc003yns.2_Nonsense_Mutation_p.W2304*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.W3062*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.W2933*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3102	Extracellular (Potential).|Sushi 22.					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						CCTTCCGGTCCAACTGCCATT	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			14	38	---	---	---	---	PASS	T	113299319	T	T	113299319	4	4	4	1	0	0	0	0	0	1	0	0	3946	595	21	3	1874	3	CSMD3	8	113299319	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2318720	113299319	33064703	1840	2431										
CSMD3	114788	broad.mit.edu	37	chr8	113303820	113303820	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccaaataaaaaatatccagGattgcagtcatagaatacca	5	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:113303820G>A	uc003ynu.2	-	56	9052	c.8893C>T	c.(8893-8895)CCT>TCT	p.P2965S	CSMD3_uc003yns.2_Missense_Mutation_p.P2167S|CSMD3_uc003ynt.2_Missense_Mutation_p.P2925S|CSMD3_uc011lhx.1_Missense_Mutation_p.P2796S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2965	Extracellular (Potential).|Sushi 20.					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						AAATATCCAGGATTGCAGTCA	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			15	44	---	---	---	---	PASS	A	113303820	A	A	113303820	3	1	4	1	0	0	0	0	1	0	0	0	3946	1174	41	2	2294	2	CSMD3	8	113303820	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4501	113303820	33060202	1841	2432										
CSMD3	114788	broad.mit.edu	37	chr8	113562986	113562986	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattgagggtgctatgaattCcttcaggaataagagatcca	10	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:113562986C>T	uc003ynu.2	-	27	4637	c.4478G>A	c.(4477-4479)GGA>GAA	p.G1493E	CSMD3_uc003yns.2_Missense_Mutation_p.G765E|CSMD3_uc003ynt.2_Missense_Mutation_p.G1453E|CSMD3_uc011lhx.1_Missense_Mutation_p.G1389E	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1493	Extracellular (Potential).|CUB 8.					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						GCTATGAATTCCTTCAGGAAT	0.358										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			19	31	---	---	---	---	PASS	T	113562986	T	T	113562986	3	4	4	1	0	0	0	0	1	0	0	0	3946	855	30	2	6825	2	CSMD3	8	113562986	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	259166	113562986	32801036	1842	2433										
CSMD3	114788	broad.mit.edu	37	chr8	113564835	113564835	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatttacctgacaatatttCcaggatctacctcaatcatc	3	12	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:113564835C>T	uc003ynu.2	-	26	4508	c.4349G>A	c.(4348-4350)GGA>GAA	p.G1450E	CSMD3_uc003yns.2_Missense_Mutation_p.G722E|CSMD3_uc003ynt.2_Missense_Mutation_p.G1410E|CSMD3_uc011lhx.1_Missense_Mutation_p.G1346E	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1450	Extracellular (Potential).|CUB 8.					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						GACAATATTTCCAGGATCTAC	0.348										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			7	32	---	---	---	---	PASS	T	113564835	T	T	113564835	3	4	4	1	0	0	0	0	1	0	0	0	3946	855	30	2	6958	2	CSMD3	8	113564835	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1849	113564835	32799187	1843	2434										
CSMD3	114788	broad.mit.edu	37	chr8	113564926	113564926	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattcttcctgatgattctcCtttaaaacgacctccacatt	4	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:113564926C>A	uc003ynu.2	-	26	4417	c.4258G>T	c.(4258-4260)GGA>TGA	p.G1420*	CSMD3_uc003yns.2_Nonsense_Mutation_p.G692*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.G1380*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.G1316*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1420	Extracellular (Potential).|CUB 8.					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						GATGATTCTCCTTTAAAACGA	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			4	54	---	---	---	---	PASS	A	113564926	A	A	113564926	4	1	4	1	0	0	0	0	0	1	0	0	3946	690	24	3	7049	3	CSMD3	8	113564926	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	91	113564926	32799096	1844	2435										
CSMD3	114788	broad.mit.edu	37	chr8	114111025	114111025	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accttctatttctaagtaatCatatttctcttccatttgaa	2	9	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:114111025C>T	uc003ynu.2	-	5	1036	c.877G>A	c.(877-879)GAT>AAT	p.D293N	CSMD3_uc003ynt.2_Missense_Mutation_p.D253N|CSMD3_uc011lhx.1_Missense_Mutation_p.D293N|CSMD3_uc010mcx.1_Missense_Mutation_p.D293N	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	293	Extracellular (Potential).|CUB 2.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TCTAAGTAATCATATTTCTCT	0.363										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			7	28	---	---	---	---	PASS	T	114111025	T	T	114111025	3	4	4	1	0	0	0	0	1	0	0	0	3946	826	29	2	10514	2	CSMD3	8	114111025	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	546099	114111025	32252997	1845	2436										
CSMD3	114788	broad.mit.edu	37	chr8	114290921	114290921	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcactggaggtggcagatgGaatcctgttaacctaaaaca	11	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:114290921G>A	uc003ynu.2	-	3	573	c.414C>T	c.(412-414)TTC>TTT	p.F138F	CSMD3_uc003ynt.2_Silent_p.F98F|CSMD3_uc011lhx.1_Silent_p.F138F|CSMD3_uc010mcx.1_Silent_p.F138F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	138	Extracellular (Potential).|CUB 1.					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						GTGGCAGATGGAATCCTGTTA	0.318										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			16	26	---	---	---	---	PASS	A	114290921	A	A	114290921	2	1	4	1	0	0	0	0	0	0	0	1	3946	1165	41	2		2	CSMD3	8	114290921	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	179896	114290921	32073101	1846	2437										
COLEC10	10584	broad.mit.edu	37	chr8	120118127	120118127	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaatccctaacccactgcagGattcggggtggaatgctagc	12	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:120118127G>A	uc003yoo.2	+	6	628	c.531G>A	c.(529-531)AGG>AGA	p.R177R		NM_006438	NP_006429	Q9Y6Z7	COL10_HUMAN	collectin sub-family member 10 precursor	177	C-type lectin.					collagen|cytoplasm	mannose binding			ovary(2)|skin(1)	3	all_cancers(13;4.13e-26)|Lung NSC(37;1.36e-07)|Ovarian(258;0.018)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00113)			CCCACTGCAGGATTCGGGGTG	0.507													23	25	---	---	---	---	PASS	A	120118127	A	A	120118127	2	1	4	1	0	0	0	0	0	0	0	1	3710	1165	41	2		2	COLEC10	8	120118127	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	5827206	120118127	26245895	1847	2438										
ENPP2	5168	broad.mit.edu	37	chr8	120581497	120581497	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaggaaagaggaatccgtaGgacatctgcttatcattttt	11	6	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:120581497G>A	uc003yot.1	-	21	2117	c.2031C>T	c.(2029-2031)TCC>TCT	p.S677S	ENPP2_uc011lic.1_Silent_p.S215S|ENPP2_uc003yor.1_Silent_p.S312S|ENPP2_uc003yos.1_Silent_p.S729S|ENPP2_uc010mdd.1_Silent_p.S702S	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	677					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GGAATCCGTAGGACATCTGCT	0.453													52	71	---	---	---	---	PASS	A	120581497	A	A	120581497	2	1	4	1	0	0	0	0	0	0	0	1	5130	987	35	3		3	ENPP2	8	120581497	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	463370	120581497	25782525	1848	2439										
ENPP2	5168	broad.mit.edu	37	chr8	120602865	120602865	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctatcacatgtgacatcttCcattcctatggggagggaga	10	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:120602865C>T	uc003yot.1	-	13	1173	c.1087G>A	c.(1087-1089)GAA>AAA	p.E363K	ENPP2_uc003yor.1_Missense_Mutation_p.E2K|ENPP2_uc003yos.1_Missense_Mutation_p.E415K|ENPP2_uc010mdd.1_Missense_Mutation_p.E363K	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	363					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GTGACATCTTCCATTCCTATG	0.363													12	21	---	---	---	---	PASS	T	120602865	T	T	120602865	3	4	4	1	0	0	0	0	1	0	0	0	5130	864	30	2	1635	2	ENPP2	8	120602865	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	21368	120602865	25761157	1849	2440										
TAF2	6873	broad.mit.edu	37	chr8	120797488	120797488	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttctccattcatcagtggGatttttttctttttattcct	4	9	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:120797488G>A	uc003you.2	-	15	2082	c.1812C>T	c.(1810-1812)ATC>ATT	p.I604I		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	604				I -> K (in Ref. 6; AAH35673/AAH47732).	G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TCATCAGTGGGATTTTTTTCT	0.294													7	23	---	---	---	---	PASS	A	120797488	A	A	120797488	2	1	4	1	0	0	0	0	0	0	0	1	15521	1164	41	2		2	TAF2	8	120797488	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	194623	120797488	25566534	1850	2441										
COL14A1	7373	broad.mit.edu	37	chr8	121243858	121243858	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaagaagtcataggaacgGtctgtataaattcaactgac	10	6	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:121243858G>A	uc003yox.2	+	19	2614	c.2349_splice	c.e19+1	p.T783_splice	COL14A1_uc003yoy.2_Splice_Site_p.T461_splice	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor						cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			CATAGGAACGGTCTGTATAAA	0.443													11	26	---	---	---	---	PASS	A	121243858	A	A	121243858	5	1	4	1	0	0	0	0	0	0	1	0	3671	1275	44	3	2420	3	COL14A1	8	121243858	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	446370	121243858	25120164	1851	2442										
ATAD2	29028	broad.mit.edu	37	chr8	124358871	124358871	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatatacctattcaaatgaaGaaaattaaaattgtcttttg	4	4	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:124358871G>A	uc003yqh.3	-	17	2440	c.2332C>T	c.(2332-2334)CTT>TTT	p.L778F	ATAD2_uc011lii.1_Missense_Mutation_p.L569F|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.L778F	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	778					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TTCAAATGAAGAAAATTAAAA	0.279													14	25	---	---	---	---	PASS	A	124358871	A	A	124358871	3	1	4	1	0	0	0	0	1	0	0	0	1071	942	33	2	1888	2	ATAD2	8	124358871	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3115013	124358871	22005151	1852	2443										
FER1L6	654463	broad.mit.edu	37	chr8	125076649	125076649	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacagctcctcccaggatccCccagcagatcacatttatgt	6	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:125076649C>T	uc003yqw.2	+	26	3596	c.3390C>T	c.(3388-3390)CCC>CCT	p.P1130P	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1130	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			CCCAGGATCCCCCAGCAGATC	0.572													27	83	---	---	---	---	PASS	T	125076649	T	T	125076649	2	4	4	1	0	0	0	0	0	0	0	1	5815	610	22	3		3	FER1L6	8	125076649	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	717778	125076649	21287373	1853	2444										
FER1L6	654463	broad.mit.edu	37	chr8	125107243	125107243	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgaacacatagaaactcgGccactgtaccacaaggataa	7	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:125107243G>A	uc003yqw.2	+	35	4865	c.4659G>A	c.(4657-4659)CGG>CGA	p.R1553R	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1553	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TAGAAACTCGGCCACTGTACC	0.463													25	37	---	---	---	---	PASS	A	125107243	A	A	125107243	2	1	4	1	0	0	0	0	0	0	0	1	5815	1190	42	3		3	FER1L6	8	125107243	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	30594	125107243	21256779	1854	2445										
MTSS1	9788	broad.mit.edu	37	chr8	125580630	125580630	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attaacttacaatcactggcCgcagcatagagatgaaggta	9	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:125580630C>T	uc003yrk.2	-	7	1142	c.608G>A	c.(607-609)CGG>CAG	p.R203Q	NDUFB9_uc011lim.1_3'UTR|MTSS1_uc011lin.1_5'Flank|MTSS1_uc011lio.1_Missense_Mutation_p.R93Q|MTSS1_uc003yri.2_Missense_Mutation_p.R3Q|MTSS1_uc003yrj.2_Missense_Mutation_p.R203Q|MTSS1_uc003yrl.2_Missense_Mutation_p.R207Q	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	203	IMD.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			AATCACTGGCCGCAGCATAGA	0.428													16	33	---	---	---	---	PASS	T	125580630	T	T	125580630	3	4	4	1	0	0	0	0	1	0	0	0	9962	652	23	1	1691	1	MTSS1	8	125580630	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	473387	125580630	20783392	1855	2446										
SQLE	6713	broad.mit.edu	37	chr8	126021463	126021463	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaacttattttagctaaccCgagtccagttctcatctacc	5	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:126021463C>T	uc011liq.1	+	6	1912	c.986C>T	c.(985-987)CCG>CTG	p.P329L		NM_003129	NP_003120	Q14534	ERG1_HUMAN	squalene epoxidase	329					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome	flavin adenine dinucleotide binding|squalene monooxygenase activity			ovary(1)|breast(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)		Butenafine(DB01091)|Naftifine(DB00735)|Terbinafine(DB00857)	TTAGCTAACCCGAGTCCAGTT	0.323													18	59	---	---	---	---	PASS	T	126021463	T	T	126021463	3	4	4	1	0	0	0	0	1	0	0	0	15127	652	23	1	907	1	SQLE	8	126021463	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	440833	126021463	20342559	1856	2447										
KIAA0196	9897	broad.mit.edu	37	chr8	126071656	126071656	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgaaagaaaggtccccaacGatctgcattgtgatcagaac	10	10	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:126071656G>A	uc003yrt.2	-	13	1979	c.1650C>T	c.(1648-1650)ATC>ATT	p.I550I	KIAA0196_uc011lir.1_Silent_p.I402I|KIAA0196_uc003yru.1_Silent_p.I124I	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	550					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			GGTCCCCAACGATCTGCATTG	0.423													43	36	---	---	---	---	PASS	A	126071656	A	A	126071656	2	1	4	1	0	0	0	0	0	0	0	1	8161	1048	37	2		2	KIAA0196	8	126071656	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	50193	126071656	20292366	1857	2448										
FAM49B	51571	broad.mit.edu	37	chr8	130874574	130874574	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttctcatctgctggatgctGgattgccttcaaaatccaaa	7	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:130874574G>A	uc003yss.2	-	8	751	c.202C>T	c.(202-204)CAG>TAG	p.Q68*	FAM49B_uc003yst.2_Nonsense_Mutation_p.Q68*|FAM49B_uc003ysu.2_Nonsense_Mutation_p.Q68*|FAM49B_uc003ysv.2_Intron|FAM49B_uc003ysw.2_Nonsense_Mutation_p.Q68*|FAM49B_uc003ysx.2_Nonsense_Mutation_p.Q68*|FAM49B_uc003ysy.1_Nonsense_Mutation_p.Q68*	NM_016623	NP_057707	Q9NUQ9	FA49B_HUMAN	hypothetical protein LOC51571	68											0	Ovarian(5;0.000567)|Esophageal squamous(12;0.00693)|Acute lymphoblastic leukemia(118;0.155)		LUAD - Lung adenocarcinoma(14;0.0989)			GCTGGATGCTGGATTGCCTTC	0.338													20	50	---	---	---	---	PASS	A	130874574	A	A	130874574	4	1	4	1	0	0	0	0	0	1	0	0	5576	1357	47	3	804	3	FAM49B	8	130874574	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4802918	130874574	15489448	1858	2449										
ADCY8	114	broad.mit.edu	37	chr8	131896830	131896830	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgtgctccaggctggagtCtttaaacatcagtgagaatg	11	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:131896830C>T	uc003ytd.3	-	8	2345	c.2089G>A	c.(2089-2091)GAC>AAC	p.D697N	ADCY8_uc010mds.2_Missense_Mutation_p.D697N	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	697	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			AGGCTGGAGTCTTTAAACATC	0.468										HNSCC(32;0.087)			31	69	---	---	---	---	PASS	T	131896830	T	T	131896830	3	4	4	1	0	0	0	0	1	0	0	0	300	913	32	2	1710	2	ADCY8	8	131896830	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1022256	131896830	14467192	1859	2450										
ADCY8	114	broad.mit.edu	37	chr8	131896949	131896949	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcccagactggacatgcaaaGcttgtgcaagatggtttgga	13	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:131896949G>A	uc003ytd.3	-	8	2226	c.1970C>T	c.(1969-1971)GCT>GTT	p.A657V	ADCY8_uc010mds.2_Missense_Mutation_p.A657V	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	657	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GACATGCAAAGCTTGTGCAAG	0.443										HNSCC(32;0.087)			35	84	---	---	---	---	PASS	A	131896949	A	A	131896949	3	1	4	1	0	0	0	0	1	0	0	0	300	971	34	3	1829	3	ADCY8	8	131896949	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	119	131896949	14467073	1860	2451										
OC90	729330	broad.mit.edu	37	chr8	133036823	133036823	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcctgtggagggtcctcctCgctgtcctcctcagagctgg	12	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:133036823C>T	uc003ytg.2	-	13	1339	c.1339G>A	c.(1339-1341)GAG>AAG	p.E447K	OC90_uc011lix.1_Missense_Mutation_p.E447K	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	463					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GGGTCCTCCTCGCTGTCCTCC	0.647													6	13	---	---	---	---	PASS	T	133036823	T	T	133036823	3	4	4	1	0	0	0	0	1	0	0	0	10814	893	31	2	98	2	OC90	8	133036823	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1139874	133036823	13327199	1861	2452										
OC90	729330	broad.mit.edu	37	chr8	133036847	133036847	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcctcctcagagctggagcCcagggtgggggctgcgggca	18	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:133036847C>T	uc003ytg.2	-	13	1315	c.1315G>A	c.(1315-1317)GGC>AGC	p.G439S	OC90_uc011lix.1_Missense_Mutation_p.G439S	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	455					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GAGCTGGAGCCCAGGGTGGGG	0.647													7	10	---	---	---	---	PASS	T	133036847	T	T	133036847	3	4	4	1	0	0	0	0	1	0	0	0	10814	623	22	3	122	3	OC90	8	133036847	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	24	133036847	13327175	1862	2453										
OC90	729330	broad.mit.edu	37	chr8	133045358	133045358	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagagatttaatgccagcagGgacaagggttacaattttag	11	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:133045358G>A	uc003ytg.2	-	10	787	c.787C>T	c.(787-789)CCT>TCT	p.P263S	OC90_uc011lix.1_Missense_Mutation_p.P263S	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	279					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			ATGCCAGCAGGGACAAGGGTT	0.448													4	15	---	---	---	---	PASS	A	133045358	A	A	133045358	3	1	4	1	0	0	0	0	1	0	0	0	10814	1232	43	3	662	3	OC90	8	133045358	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	8511	133045358	13318664	1863	2454										
PHF20L1	51105	broad.mit.edu	37	chr8	133854821	133854821	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaagcgaaaagaccaagatCaaataatagctggggtggag	14	5	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:133854821C>T	uc003ytt.2	+	19	2774	c.2449C>T	c.(2449-2451)CAA>TAA	p.Q817*	PHF20L1_uc011lja.1_Nonsense_Mutation_p.Q791*	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	817							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			AGACCAAGATCAAATAATAGC	0.388													24	37	---	---	---	---	PASS	T	133854821	T	T	133854821	4	4	4	1	0	0	0	0	0	1	0	0	11832	827	29	2	2615	2	PHF20L1	8	133854821	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	809463	133854821	12509201	1864	2455										
ZFAT	57623	broad.mit.edu	37	chr8	135614580	135614580	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgaacttcttgcggcagacgGcacagacgtacacgaagggg	14	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:135614580G>A	uc003yup.2	-	6	1557	c.1382C>T	c.(1381-1383)GCC>GTC	p.A461V	ZFAT_uc003yun.2_Missense_Mutation_p.A449V|ZFAT_uc003yuo.2_Missense_Mutation_p.A449V|ZFAT_uc010meh.2_Missense_Mutation_p.A449V|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.A449V|ZFAT_uc010mej.2_Missense_Mutation_p.A399V|ZFAT_uc003yur.2_Missense_Mutation_p.A449V	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	461	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			GCGGCAGACGGCACAGACGTA	0.602													10	30	---	---	---	---	PASS	A	135614580	A	A	135614580	3	1	4	1	0	0	0	0	1	0	0	0	17629	1203	42	3	2393	3	ZFAT	8	135614580	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1759759	135614580	10749442	1865	2456										
KHDRBS3	10656	broad.mit.edu	37	chr8	136533515	136533515	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaaaggagaaggcaaggatGaagaaaagtacatcgatgtg	13	3	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:136533515G>A	uc003yuv.2	+	2	518	c.124G>A	c.(124-126)GAA>AAA	p.E42K	KHDRBS3_uc003yuw.2_Missense_Mutation_p.E42K	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal	42					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			AGGCAAGGATGAAGAAAAGTA	0.408													38	79	---	---	---	---	PASS	A	136533515	A	A	136533515	3	1	4	1	0	0	0	0	1	0	0	0	8148	1291	45	2	130	2	KHDRBS3	8	136533515	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	918935	136533515	9830507	1866	2457										
KHDRBS3	10656	broad.mit.edu	37	chr8	136561054	136561054	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccatctcaatgatgatctcCatgttctcattgaagtgttt	6	9	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:136561054C>T	uc003yuv.2	+	4	776	c.382C>T	c.(382-384)CAT>TAT	p.H128Y	KHDRBS3_uc003yuw.2_Missense_Mutation_p.H128Y	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal	128					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			TGATGATCTCCATGTTCTCAT	0.403													9	15	---	---	---	---	PASS	T	136561054	T	T	136561054	3	4	4	1	0	0	0	0	1	0	0	0	8148	594	21	3	396	3	KHDRBS3	8	136561054	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	27539	136561054	9802968	1867	2458										
FAM135B	51059	broad.mit.edu	37	chr8	139144926	139144926	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtgagcggctcggccgatCagggtgttggcagtgttggg	19	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:139144926C>T	uc003yuy.2	-	20	4302	c.4131G>A	c.(4129-4131)CTG>CTA	p.L1377L	FAM135B_uc003yux.2_Silent_p.L1278L|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1377										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)			CTCGGCCGATCAGGGTGTTGG	0.527										HNSCC(54;0.14)			39	83	---	---	---	---	PASS	T	139144926	T	T	139144926	2	4	4	1	0	0	0	0	0	0	0	1	5449	813	29	2		2	FAM135B	8	139144926	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2583872	139144926	7219096	1868	2459										
FAM135B	51059	broad.mit.edu	37	chr8	139190891	139190891	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggacgtgagccaggccagatCcttgcttatctgctcagcga	12	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:139190891C>T	uc003yuy.2	-	10	1087	c.916G>A	c.(916-918)GAT>AAT	p.D306N	FAM135B_uc003yux.2_Missense_Mutation_p.D207N|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	306										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)			CAGGCCAGATCCTTGCTTATC	0.512										HNSCC(54;0.14)			20	36	---	---	---	---	PASS	T	139190891	T	T	139190891	3	4	4	1	0	0	0	0	1	0	0	0	5449	855	30	2	3348	2	FAM135B	8	139190891	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	45965	139190891	7173131	1869	2460										
FAM135B	51059	broad.mit.edu	37	chr8	139263169	139263169	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaatagtcgaacatgaccgGgacctggtggtgcagaccat	13	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:139263169G>A	uc003yuy.2	-	6	628	c.457C>T	c.(457-459)CCG>TCG	p.P153S	FAM135B_uc003yux.2_Missense_Mutation_p.P54S|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	153										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)			AACATGACCGGGACCTGGTGG	0.587										HNSCC(54;0.14)			40	75	---	---	---	---	PASS	A	139263169	A	A	139263169	3	1	4	1	0	0	0	0	1	0	0	0	5449	1232	43	3	3823	3	FAM135B	8	139263169	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	72278	139263169	7100853	1870	2461										
COL22A1	169044	broad.mit.edu	37	chr8	139696711	139696711	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtccaggtgatccacggagtCcctggagaaataaataatac	10	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:139696711C>T	uc003yvd.2	-	39	3416	c.2969G>A	c.(2968-2970)GGA>GAA	p.G990E	COL22A1_uc011ljo.1_Missense_Mutation_p.G290E	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	990	Pro-rich.|Gly-rich.				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)			TCCACGGAGTCCCTGGAGAAA	0.537										HNSCC(7;0.00092)			37	62	---	---	---	---	PASS	T	139696711	T	T	139696711	3	4	4	1	0	0	0	0	1	0	0	0	3681	869	30	2	2019	2	COL22A1	8	139696711	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	433542	139696711	6667311	1871	2462										
SLC45A4	57210	broad.mit.edu	37	chr8	142222527	142222527	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggggatgacgcggacagtCcccacggcgtcgaccacgcc	14	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:142222527C>T	uc003ywd.1	-	7	2225	c.1917G>A	c.(1915-1917)GGG>GGA	p.G639G	SLC45A4_uc003ywc.1_Silent_p.G639G|SLC45A4_uc010meq.1_Silent_p.G637G	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	690					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|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;0.0493)			CGCGGACAGTCCCCACGGCGT	0.612													19	31	---	---	---	---	PASS	T	142222527	T	T	142222527	2	4	4	1	0	0	0	0	0	0	0	1	14643	842	30	2		2	SLC45A4	8	142222527	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2525816	142222527	4141495	1872	2463										
SLC45A4	57210	broad.mit.edu	37	chr8	142238345	142238345	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttggacgggacagccctgaGgctgggcttgctttccccat	13	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:142238345G>A	uc003ywd.1	-	1	329	c.21C>T	c.(19-21)GCC>GCT	p.A7A	SLC45A4_uc003ywc.1_Silent_p.A7A|SLC45A4_uc010meq.1_Intron	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	Error:Variant_position_missing_in_Q5BKX6_after_alignment					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|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;0.0493)			ACAGCCCTGAGGCTGGGCTTG	0.547													34	44	---	---	---	---	PASS	A	142238345	A	A	142238345	2	1	4	1	0	0	0	0	0	0	0	1	14643	987	35	3		3	SLC45A4	8	142238345	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	15818	142238345	4125677	1873	2464										
FLJ43860	389690	broad.mit.edu	37	chr8	142506592	142506592	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcatggatgtggagacaggGggggagattctgaaatggag	18	3	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:142506592G>A	uc003ywi.2	-	2	171	c.90C>T	c.(88-90)CCC>CCT	p.P30P	FLJ43860_uc011ljs.1_5'Flank|FLJ43860_uc010meu.1_5'Flank	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	30							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			TGGAGACAGGGGGGGAGATTC	0.557													15	19	---	---	---	---	PASS	A	142506592	A	A	142506592	2	1	4	1	0	0	0	0	0	0	0	1	5930	1219	43	3		3	FLJ43860	8	142506592	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	268247	142506592	3857430	1874	2465										
BAI1	575	broad.mit.edu	37	chr8	143560703	143560703	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggatggcaagtggcaggcCtgggcgtcatggggcagttg	20	7	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:143560703C>T	uc003ywm.2	+	7	1764	c.1581C>T	c.(1579-1581)GCC>GCT	p.A527A		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	527	Extracellular (Potential).|TSP type-1 5.				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					AGTGGCAGGCCTGGGCGTCAT	0.672													6	7	---	---	---	---	PASS	T	143560703	T	T	143560703	2	4	4	1	0	0	0	0	0	0	0	1	1298	668	24	3		3	BAI1	8	143560703	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1054111	143560703	2803319	1875	2466										
ZNF696	79943	broad.mit.edu	37	chr8	144378708	144378708	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagcaccagcgcgtgcacaCgggggagcggcccttcgcct	14	17	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:144378708C>T	uc003yxy.3	+	3	1272	c.863C>T	c.(862-864)ACG>ATG	p.T288M		NM_030895	NP_112157	Q9H7X3	ZN696_HUMAN	zinc finger protein 696	288					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			CGCGTGCACACGGGGGAGCGG	0.726													5	8	---	---	---	---	PASS	T	144378708	T	T	144378708	3	4	4	1	0	0	0	0	1	0	0	0	18096	536	19	1	869	1	ZNF696	8	144378708	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	818005	144378708	1985314	1876	2467										
ZNF707	286075	broad.mit.edu	37	chr8	144773320	144773320	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggaacccagccagagggcCctctaccgggacgtgatgct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:144773320C>T	uc003yze.3	+	5	408	c.93C>T	c.(91-93)GCC>GCT	p.A31A	ZNF707_uc010mfh.2_Silent_p.A31A|ZNF707_uc010mfi.2_Silent_p.A31A|ZNF707_uc003yzf.3_Silent_p.A31A|ZNF707_uc003yzh.3_5'UTR|ZNF707_uc011lkq.1_Intron	NM_173831	NP_776192	Q96C28	ZN707_HUMAN	zinc finger protein 707	31	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)	1	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;5.6e-41)|Epithelial(56;1.02e-39)|all cancers(56;9.65e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GCCAGAGGGCCCTCTACCGGG	0.622													13	20	---	---	---	---	PASS	T	144773320	T	T	144773320	2	4	4	1	0	0	0	0	0	0	0	1	18108	610	22	3		3	ZNF707	8	144773320	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	394612	144773320	1590702	1877	2468	89	2								
ZNF707	286075	broad.mit.edu	37	chr8	144773321	144773321	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggaacccagccagagggccCtctaccgggacgtgatgctg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:144773321C>T	uc003yze.3	+	5	409	c.94C>T	c.(94-96)CTC>TTC	p.L32F	ZNF707_uc010mfh.2_Missense_Mutation_p.L32F|ZNF707_uc010mfi.2_Missense_Mutation_p.L32F|ZNF707_uc003yzf.3_Missense_Mutation_p.L32F|ZNF707_uc003yzh.3_5'UTR|ZNF707_uc011lkq.1_Intron	NM_173831	NP_776192	Q96C28	ZN707_HUMAN	zinc finger protein 707	32	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)	1	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;5.6e-41)|Epithelial(56;1.02e-39)|all cancers(56;9.65e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CCAGAGGGCCCTCTACCGGGA	0.627													13	21	---	---	---	---	PASS	T	144773321	T	T	144773321	3	4	4	1	0	0	0	0	1	0	0	0	18108	681	24	3	100	3	ZNF707	8	144773321	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	144773321	1590701	1878	2469	89	2								
SCRIB	23513	broad.mit.edu	37	chr8	144890812	144890812	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagaaaccacggccccctcCttgtcctcctcctcagtgct	7	19	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:144890812C>T	uc003yzp.1	-	15	2089	c.2082G>A	c.(2080-2082)AAG>AAA	p.K694K	SCRIB_uc003yzo.1_Silent_p.K694K	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	694	Potential.|Glu-rich.|Sufficient for targeting to adherens junction and to inhibit cell proliferation.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			CGGCCCCCTCCTTGTCCTCCT	0.473													11	13	---	---	---	---	PASS	T	144890812	T	T	144890812	2	4	4	1	0	0	0	0	0	0	0	1	13937	680	24	3		3	SCRIB	8	144890812	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	117491	144890812	1473210	1879	2470										
EPPK1	83481	broad.mit.edu	37	chr8	144940426	144940426	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcaggcggatgccgtgctcCcggacgatgaggtccttctg	15	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:144940426C>T	uc003zaa.1	-	2	15019	c.15006G>A	c.(15004-15006)CGG>CGA	p.R5002R		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	5002	Plectin 63.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TGCCGTGCTCCCGGACGATGA	0.711													9	158	---	---	---	---	PASS	T	144940426	T	T	144940426	2	4	4	1	0	0	0	0	0	0	0	1	5190	610	22	3		3	EPPK1	8	144940426	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	49614	144940426	1423596	1880	2471										
MAF1	84232	broad.mit.edu	37	chr8	145160625	145160625	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgagctttgaagccatcaaCtcacagctgactgtggagac	10	11	2	3	rs139701481		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:145160625C>T	uc003zbc.1	+	2	540	c.39C>T	c.(37-39)AAC>AAT	p.N13N	SHARPIN_uc003zba.2_5'Flank|SHARPIN_uc003zbb.2_5'Flank|KIAA1875_uc003zbd.3_5'Flank	NM_032272	NP_115648	Q9H063	MAF1_HUMAN	MAF1 protein	13					negative regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	cytoplasm|nucleus					0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.1e-42)|Epithelial(56;1.23e-40)|all cancers(56;4.84e-36)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			AAGCCATCAACTCACAGCTGA	0.582													11	57	---	---	---	---	PASS	T	145160625	T	T	145160625	2	4	4	1	0	0	0	0	0	0	0	1	9156	564	20	3		3	MAF1	8	145160625	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	220199	145160625	1203397	1881	2472										
FBXL6	26233	broad.mit.edu	37	chr8	145579815	145579815	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtcaaaaaggggctgccctCcttggctagagtcagccggt	14	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:145579815C>T	uc003zcb.2	-	8	1310	c.1285G>A	c.(1285-1287)GAG>AAG	p.E429K	C8ORFK29_uc011llb.1_5'Flank|C8ORFK29_uc010mfw.2_5'Flank|C8ORFK29_uc003zby.3_5'Flank|FBXL6_uc003zbz.2_Missense_Mutation_p.E156K|FBXL6_uc003zca.2_Missense_Mutation_p.E423K|FBXL6_uc010mfx.2_Missense_Mutation_p.E190K|GPR172A_uc003zcc.1_5'Flank|GPR172A_uc003zcd.1_5'Flank|GPR172A_uc003zce.1_5'Flank|GPR172A_uc010mfy.1_5'Flank|GPR172A_uc003zcf.1_5'Flank|GPR172A_uc011llc.1_5'Flank	NM_012162	NP_036294	Q8N531	FBXL6_HUMAN	F-box and leucine-rich repeat protein 6 isoform	429	LRR 9.				proteolysis		ubiquitin-protein ligase activity			ovary(1)|lung(1)	2	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;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			GGGCTGCCCTCCTTGGCTAGA	0.577													23	45	---	---	---	---	PASS	T	145579815	T	T	145579815	3	4	4	1	0	0	0	0	1	0	0	0	5723	864	30	2	342	2	FBXL6	8	145579815	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	419190	145579815	784207	1882	2473										
VPS28	51160	broad.mit.edu	37	chr8	145649603	145649603	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcccaatacccgcacctcatCcatggcgcggatctccaggc	9	18	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:145649603C>T	uc003zcr.1	-	7	504	c.451G>A	c.(451-453)GAT>AAT	p.D151N	VPS28_uc003zcs.1_Missense_Mutation_p.D151N|VPS28_uc003zct.1_Missense_Mutation_p.D151N	NM_016208	NP_057292	Q9UK41	VPS28_HUMAN	vacuolar protein sorting 28 isoform 1	151	VPS28 C-terminal.				cellular membrane organization|endosome transport|negative regulation of protein ubiquitination|protein transport	cytosol|late endosome membrane|plasma membrane	protein binding				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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CGCACCTCATCCATGGCGCGG	0.682													10	18	---	---	---	---	PASS	T	145649603	T	T	145649603	3	4	4	1	0	0	0	0	1	0	0	0	17196	855	30	2	340	2	VPS28	8	145649603	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	69788	145649603	714419	1883	2474										
NFKBIL2	4796	broad.mit.edu	37	chr8	145666202	145666202	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtggtggccagggacacgtGgatgatggcccgctcagcac	16	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:145666202G>A	uc011llg.1	-	9	1078	c.1063C>T	c.(1063-1065)CAC>TAC	p.H355Y		NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	355	TPR 8.				cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			AGGGACACGTGGATGATGGCC	0.667													13	29	---	---	---	---	PASS	A	145666202	A	A	145666202	3	1	4	1	0	0	0	0	1	0	0	0	10382	1348	47	3	3145	3	NFKBIL2	8	145666202	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	16599	145666202	697820	1884	2475										
ZNF517	340385	broad.mit.edu	37	chr8	146032912	146032912	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catccacaccggcgccaagcCcttccagtgcacagagtgcg	10	17	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:146032912C>T	uc003zed.1	+	5	718	c.611C>T	c.(610-612)CCC>CTC	p.P204L	ZNF517_uc010mgd.1_Missense_Mutation_p.P110L|ZNF517_uc003zee.1_RNA|ZNF517_uc011llm.1_Missense_Mutation_p.P110L|ZNF517_uc003zef.1_Intron	NM_213605	NP_998770	Q6ZMY9	ZN517_HUMAN	zinc finger protein 517	204					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;5.47e-39)|OV - Ovarian serous cystadenocarcinoma(54;6.38e-39)|all cancers(56;5.47e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)			GGCGCCAAGCCCTTCCAGTGC	0.627													3	9	---	---	---	---	PASS	T	146032912	T	T	146032912	3	4	4	1	0	0	0	0	1	0	0	0	17958	623	22	3	625	3	ZNF517	8	146032912	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	366710	146032912	331110	1885	2476										
ZNF16	7564	broad.mit.edu	37	chr8	146157806	146157806	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggactgtggcagcctcctgcCttcggggactccccagtctc	12	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr8:146157806C>A	uc003zet.2	-	4	554	c.367G>T	c.(367-369)GGC>TGC	p.G123C	ZNF16_uc003zeu.2_Missense_Mutation_p.G123C	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	123					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		AGCCTCCTGCCTTCGGGGACT	0.552													28	46	---	---	---	---	PASS	A	146157806	A	A	146157806	3	1	4	1	0	0	0	0	1	0	0	0	17735	681	24	3	1685	3	ZNF16	8	146157806	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	124894	146157806	206216	1886	2477										
DOCK8	81704	broad.mit.edu	37	chr9	439280	439280	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgctggaggagtctgtggtCtctgaggacaccctgtcacc	14	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:439280C>T	uc003zgf.2	+	40	5227	c.5115C>T	c.(5113-5115)GTC>GTT	p.V1705V	DOCK8_uc010mgu.2_Silent_p.V1007V|DOCK8_uc010mgv.2_Silent_p.V1605V|DOCK8_uc003zgk.2_Silent_p.V1163V	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	1705	DHR-2.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		AGTCTGTGGTCTCTGAGGACA	0.567													16	11	---	---	---	---	PASS	T	439280	T	T	439280	2	4	4	1	0	0	0	0	0	0	0	1	4693	900	32	2		2	DOCK8	9	439280	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08		439280	140774151	1887	2478										
KIAA1432	57589	broad.mit.edu	37	chr9	5753603	5753603	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtttggttttgcacattactCtttactcaccaaaaaatgga	6	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:5753603C>T	uc003zji.2	+	13	1415	c.1322C>T	c.(1321-1323)TCT>TTT	p.S441F	KIAA1432_uc003zjh.2_Missense_Mutation_p.S441F|KIAA1432_uc003zjl.3_Intron|KIAA1432_uc003zjj.1_Intron	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	520						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		GCACATTACTCTTTACTCACC	0.303													6	13	---	---	---	---	PASS	T	5753603	T	T	5753603	3	4	4	1	0	0	0	0	1	0	0	0	8233	913	32	2	1372	2	KIAA1432	9	5753603	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	5314323	5753603	135459828	1888	2479										
KIAA2026	158358	broad.mit.edu	37	chr9	5920369	5920369	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtactggtattgatgactAttttttgctgaatacaaggt	10	4	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:5920369A>G	uc003zjq.3	-	8	5843	c.5627T>C	c.(5626-5628)ATA>ACA	p.I1876T	KIAA2026_uc010mht.2_Missense_Mutation_p.I1051T	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	1876										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		ATTGATGACTATTTTTTGCTG	0.473													77	65	---	---	---	---	PASS	G	5920369	G	G	5920369	3	3	4	1	0	0	0	0	1	0	0	0	8270	449	16	5	688	5	KIAA2026	9	5920369	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	166766	5920369	135293062	1889	2480										
PTPRD	5789	broad.mit.edu	37	chr9	8486186	8486186	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgtagctgtaaagtgatcTtctttttcagagaactcaag	8	7	5	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:8486186T>C	uc003zkk.2	-	27	3342	c.2631A>G	c.(2629-2631)GAA>GAG	p.E877E	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Silent_p.E868E|PTPRD_uc003zkm.2_Silent_p.E864E|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	877	Fibronectin type-III 6.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TAAAGTGATCTTCTTTTTCAG	0.488										TSP Lung(15;0.13)			13	9	---	---	---	---	PASS	C	8486186	C	C	8486186	2	2	4	1	0	0	0	0	0	0	0	1	12799	1606	56	5		5	PTPRD	9	8486186	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	2565817	8486186	132727245	1890	2481										
PTPRD	5789	broad.mit.edu	37	chr9	8500786	8500786	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcgaatcaacacggacaagCtctcagggccagggccgaca	11	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:8500786C>T	uc003zkk.2	-	23	2807	c.2096G>A	c.(2095-2097)AGC>AAC	p.S699N	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Missense_Mutation_p.S699N|PTPRD_uc003zkm.2_Missense_Mutation_p.S686N|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	699	Fibronectin type-III 4.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CACGGACAAGCTCTCAGGGCC	0.493										TSP Lung(15;0.13)			22	28	---	---	---	---	PASS	T	8500786	T	T	8500786	3	4	4	1	0	0	0	0	1	0	0	0	12799	797	28	3	3802	3	PTPRD	9	8500786	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	14600	8500786	132712645	1891	2482										
TYRP1	7306	broad.mit.edu	37	chr9	12708128	12708128	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaacctgggatacacttatGaaattcaatggccaagtgag	9	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:12708128G>A	uc003zkv.3	+	7	1571	c.1393G>A	c.(1393-1395)GAA>AAA	p.E465K		NM_000550	NP_000541	P17643	TYRP1_HUMAN	tyrosinase-related protein 1 precursor	465	Lumenal, melanosome (Potential).				melanin biosynthetic process	clathrin-coated endocytic vesicle membrane|endosome membrane|integral to membrane|melanosome membrane	copper ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, another compound as one donor, and incorporation of one atom of oxygen|protein heterodimerization activity|protein homodimerization activity			lung(1)	1		all_cancers(3;3.1e-05)|all_lung(3;1.7e-06)|Lung NSC(3;2.09e-06)|all_epithelial(3;0.000695)|all_hematologic(3;0.0033)|Acute lymphoblastic leukemia(23;0.0744)		GBM - Glioblastoma multiforme(50;9.85e-06)		ATACACTTATGAAATTCAATG	0.378									Oculocutaneous_Albinism				11	16	---	---	---	---	PASS	A	12708128	A	A	12708128	3	1	4	1	0	0	0	0	1	0	0	0	16813	1291	45	2	1415	2	TYRP1	9	12708128	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4207342	12708128	128505303	1892	2483										
FREM1	158326	broad.mit.edu	37	chr9	14868822	14868822	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaggcatctttctctttagGgatggcaaacttcaggtcat	10	9	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:14868822G>A	uc003zlm.2	-	2	744	c.154C>T	c.(154-156)CCT>TCT	p.P52S	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	52					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		TTCTCTTTAGGGATGGCAAAC	0.537													5	7	---	---	---	---	PASS	A	14868822	A	A	14868822	3	1	4	1	0	0	0	0	1	0	0	0	6044	1232	43	3	6579	3	FREM1	9	14868822	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2160694	14868822	126344609	1893	2484										
BNC2	54796	broad.mit.edu	37	chr9	16419455	16419455	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcccatacccgttcaggtgGgagtcttcagtccctgcggg	12	14	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:16419455G>A	uc003zml.2	-	7	2972	c.2832C>T	c.(2830-2832)TCC>TCT	p.S944S	BNC2_uc011lmw.1_Silent_p.S849S|BNC2_uc003zmm.2_3'UTR|BNC2_uc011lmv.1_3'UTR|BNC2_uc003zmj.2_3'UTR|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Silent_p.S731S	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	944					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		CGTTCAGGTGGGAGTCTTCAG	0.572													17	15	---	---	---	---	PASS	A	16419455	A	A	16419455	2	1	4	1	0	0	0	0	0	0	0	1	1475	1219	43	3		3	BNC2	9	16419455	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1550633	16419455	124793976	1894	2485										
ADAMTSL1	92949	broad.mit.edu	37	chr9	18681849	18681849	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggcctcagataccgtgtgGtcctctgcatcgaccatcga	11	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:18681849G>A	uc003zne.3	+	12	1508	c.1381G>A	c.(1381-1383)GTC>ATC	p.V461I	ADAMTSL1_uc003znc.3_Missense_Mutation_p.V461I	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	461	TSP type-1 3.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		ATACCGTGTGGTCCTCTGCAT	0.502													70	70	---	---	---	---	PASS	A	18681849	A	A	18681849	3	1	4	1	0	0	0	0	1	0	0	0	274	1261	44	3	1427	3	ADAMTSL1	9	18681849	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2262394	18681849	122531582	1895	2486										
DENND4C	55667	broad.mit.edu	37	chr9	19325943	19325943	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctttttttctagttgtttCctgataaaggcacagagaaa	7	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:19325943C>T	uc003znq.2	+	10	1285	c.1252C>T	c.(1252-1254)CCT>TCT	p.P418S	DENND4C_uc011lnc.1_5'UTR	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	418						integral to membrane				ovary(1)|skin(1)	2						CTAGTTGTTTCCTGATAAAGG	0.279													14	18	---	---	---	---	PASS	T	19325943	T	T	19325943	3	4	4	1	0	0	0	0	1	0	0	0	4435	855	30	2	1290	2	DENND4C	9	19325943	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	644094	19325943	121887488	1896	2487										
IFNA10	3446	broad.mit.edu	37	chr9	21206665	21206665	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgattctttggaagtatttCctcacagccaggatggagtc	11	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:21206665C>T	uc003zoq.1	-	1	478	c.432G>A	c.(430-432)AGG>AGA	p.R144R	IFNA14_uc003zoo.1_Intron	NM_002171	NP_002162	P01566	IFN10_HUMAN	interferon, alpha 10 precursor	144					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;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.17)		GGAAGTATTTCCTCACAGCCA	0.463													69	62	---	---	---	---	PASS	T	21206665	T	T	21206665	2	4	4	1	0	0	0	0	0	0	0	1	7532	854	30	2		2	IFNA10	9	21206665	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1880722	21206665	120006766	1897	2488										
TAF1L	138474	broad.mit.edu	37	chr9	32631621	32631621	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actgtcttttccaactcctcCtcctgctcttctgtcatggc	5	16	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:32631621C>T	uc003zrg.1	-	1	4047	c.3957G>A	c.(3955-3957)GAG>GAA	p.E1319E	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1319					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CCAACTCCTCCTCCTGCTCTT	0.423													63	50	---	---	---	---	PASS	T	32631621	T	T	32631621	2	4	4	1	0	0	0	0	0	0	0	1	15520	680	24	3		3	TAF1L	9	32631621	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	11424956	32631621	108581810	1898	2489										
BAG1	573	broad.mit.edu	37	chr9	33256816	33256816	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taccagtgtgtcaatctcctCcaagatcttcataaactgct	5	12	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:33256816C>T	uc003zsj.2	-	5	957	c.868G>A	c.(868-870)GAG>AAG	p.E290K	SUGT1P1_uc010mjq.1_Intron|BAG1_uc003zsi.2_Missense_Mutation_p.E152K|BAG1_uc003zsk.2_Missense_Mutation_p.E116K	NM_004323	NP_004314	Q99933	BAG1_HUMAN	BCL2-associated athanogene isoform 1L	290	Interaction with PPP1R15A.|BAG.				anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway|chaperone cofactor-dependent protein refolding	cytoplasm|intermediate filament cytoskeleton|nucleus	protein binding|receptor signaling protein activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)			TCAATCTCCTCCAAGATCTTC	0.398													20	29	---	---	---	---	PASS	T	33256816	T	T	33256816	3	4	4	1	0	0	0	0	1	0	0	0	1286	864	30	2	181	2	BAG1	9	33256816	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	625195	33256816	107956615	1899	2490										
DNAI1	27019	broad.mit.edu	37	chr9	34513163	34513163	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgactacatgttcctagtgGgcacagaggagggaaaaatc	12	7	0	2	rs79833450		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:34513163G>A	uc003zum.2	+	16	1736	c.1543G>A	c.(1543-1545)GGC>AGC	p.G515S		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	515			G -> S (in KTGS).		cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)		GTTCCTAGTGGGCACAGAGGA	0.537									Kartagener_syndrome				38	59	---	---	---	---	PASS	A	34513163	A	A	34513163	3	1	4	1	0	0	0	0	1	0	0	0	4609	1232	43	3	1605	3	DNAI1	9	34513163	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1256347	34513163	106700268	1900	2491										
TESK1	7016	broad.mit.edu	37	chr9	35606845	35606845	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgcaccagtatatgaatggGgggacattggaacagctgct	13	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:35606845G>T	uc003zxa.2	+	4	738	c.402G>T	c.(400-402)GGG>GGT	p.G134G	TESK1_uc003zwz.1_RNA|TESK1_uc010mks.2_Missense_Mutation_p.G2V	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	134	Protein kinase.				cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			ATATGAATGGGGGGACATTGG	0.388													4	20	---	---	---	---	PASS	T	35606845	T	T	35606845	2	4	4	1	0	0	0	0	0	0	0	1	15764	1219	43	3		3	TESK1	9	35606845	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1093682	35606845	105606586	1901	2492										
TLN1	7094	broad.mit.edu	37	chr9	35708459	35708459	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcttggctattggggtcaGagacaccaaccagatatgca	11	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:35708459G>A	uc003zxt.2	-	34	4703	c.4349C>T	c.(4348-4350)TCT>TTT	p.S1450F		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1450	Interaction with SYNM.				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			ATTGGGGTCAGAGACACCAAC	0.522													26	14	---	---	---	---	PASS	A	35708459	A	A	35708459	3	1	4	1	0	0	0	0	1	0	0	0	15944	942	33	2	3372	2	TLN1	9	35708459	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	101614	35708459	105504972	1902	2493										
PAX5	5079	broad.mit.edu	37	chr9	36923392	36923392	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcgggcctggcacactgctCccgatgtcagcaggggtggg	17	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:36923392C>A	uc003zzo.1	-	7	1318	c.870G>T	c.(868-870)GGG>GGT	p.G290G	PAX5_uc011lpt.1_Silent_p.G86G|PAX5_uc011lpu.1_Intron|PAX5_uc011lpv.1_Intron|PAX5_uc011lpw.1_Silent_p.G290G|PAX5_uc011lpx.1_Silent_p.G224G|PAX5_uc011lpy.1_Silent_p.G182G|PAX5_uc010mls.1_Intron|PAX5_uc011lpz.1_Silent_p.G247G|PAX5_uc011lqa.1_Silent_p.G182G|PAX5_uc010mlq.1_Intron|PAX5_uc011lqb.1_Intron|PAX5_uc010mlo.1_Silent_p.G290G|PAX5_uc010mlp.1_Silent_p.G290G|PAX5_uc011lqc.1_Silent_p.G247G|PAX5_uc010mlr.1_Intron	NM_016734	NP_057953	Q02548	PAX5_HUMAN	paired box 5	290					cell differentiation|humoral immune response|nervous system development|organ morphogenesis|spermatogenesis|transcription from RNA polymerase II promoter	nucleus	DNA binding	p.?(23)	PAX5/JAK2(18)	haematopoietic_and_lymphoid_tissue(142)|lung(3)|central_nervous_system(2)	147		all_cancers(2;3.46e-10)|Acute lymphoblastic leukemia(2;7.09e-56)|all_hematologic(2;6.65e-44)		GBM - Glioblastoma multiforme(29;0.0108)		GCACACTGCTCCCGATGTCAG	0.607			T|Mis|D|F|S	IGH@|ETV6|PML|FOXP1|ZNF521|ELN	NHL|ALL|B-ALL								5	11	---	---	---	---	PASS	A	36923392	A	A	36923392	2	1	4	1	0	0	0	0	0	0	0	1	11482	842	30	2		2	PAX5	9	36923392	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1214933	36923392	104290039	1903	2494										
PIP5K1B	8395	broad.mit.edu	37	chr9	71503934	71503934	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctctaatagaactgtctaAccctggagccagtggatcct	8	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:71503934A>G	uc004agu.2	+	7	661	c.356A>G	c.(355-357)AAC>AGC	p.N119S	PIP5K1B_uc011lrq.1_Missense_Mutation_p.N119S|PIP5K1B_uc004agv.2_RNA	NM_003558	NP_003549	O14986	PI51B_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	119	PIPK.					endomembrane system|membrane|uropod	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|protein binding			stomach(1)	1				Lung(182;0.133)		GAACTGTCTAACCCTGGAGCC	0.388													23	22	---	---	---	---	PASS	G	71503934	G	G	71503934	3	3	4	1	0	0	0	0	1	0	0	0	11940	43	2	5	370	5	PIP5K1B	9	71503934	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	34580542	71503934	69709497	1904	2495										
TJP2	9414	broad.mit.edu	37	chr9	71864304	71864304	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgtagagcataaggaaacCcagcccagagccacgagctc	10	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:71864304C>T	uc004ahe.2	+	20	3094	c.2894C>T	c.(2893-2895)CCC>CTC	p.P965L	TJP2_uc011lrs.1_Intron|TJP2_uc004ahf.2_Intron|TJP2_uc011lru.1_Intron|TJP2_uc011lrv.1_Missense_Mutation_p.P987L|TJP2_uc010mom.1_Intron	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)	965					cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						ATAAGGAAACCCAGCCCAGAG	0.522													6	6	---	---	---	---	PASS	T	71864304	T	T	71864304	3	4	4	1	0	0	0	0	1	0	0	0	15927	623	22	3	3231	3	TJP2	9	71864304	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	360370	71864304	69349127	1905	2496										
TRPM3	80036	broad.mit.edu	37	chr9	73213401	73213401	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgaagatgtctaggagacgGatataccagtaaatgatgtt	11	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:73213401G>A	uc004aid.2	-	20	3190	c.2946C>T	c.(2944-2946)ATC>ATT	p.I982I	TRPM3_uc004ahu.2_Silent_p.I812I|TRPM3_uc004ahv.2_Silent_p.I784I|TRPM3_uc004ahw.2_Silent_p.I854I|TRPM3_uc004ahx.2_Silent_p.I841I|TRPM3_uc004ahy.2_Silent_p.I844I|TRPM3_uc004ahz.2_Silent_p.I831I|TRPM3_uc004aia.2_Silent_p.I829I|TRPM3_uc004aib.2_Silent_p.I819I|TRPM3_uc004aic.2_Silent_p.I982I	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1007	Helical; (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						CTAGGAGACGGATATACCAGT	0.453													52	38	---	---	---	---	PASS	A	73213401	A	A	73213401	2	1	4	1	0	0	0	0	0	0	0	1	16584	1164	41	2		2	TRPM3	9	73213401	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1349097	73213401	68000030	1906	2497										
TMEM2	23670	broad.mit.edu	37	chr9	74332991	74332991	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtttgcatcctgatgaggtcGaaatctaggggttaaaaaaa	11	5	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:74332991G>A	uc011lsa.1	-	13	2812	c.2272C>T	c.(2272-2274)CGA>TGA	p.R758*	TMEM2_uc010mos.2_Nonsense_Mutation_p.R695*|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	758						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		TGATGAGGTCGAAATCTAGGG	0.338													17	22	---	---	---	---	PASS	A	74332991	A	A	74332991	4	1	4	1	0	0	0	0	0	1	0	0	16118	1066	37	2	1927	2	TMEM2	9	74332991	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1119590	74332991	66880440	1907	2498										
TMEM2	23670	broad.mit.edu	37	chr9	74349793	74349793	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcctctgcttggtacatgGaatagtctgtgcttgcgacc	10	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:74349793G>A	uc011lsa.1	-	6	1862	c.1322C>T	c.(1321-1323)TCC>TTC	p.S441F	TMEM2_uc010mos.2_Intron|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	441						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		TTGGTACATGGAATAGTCTGT	0.438													47	38	---	---	---	---	PASS	A	74349793	A	A	74349793	3	1	4	1	0	0	0	0	1	0	0	0	16118	1174	41	2	2905	2	TMEM2	9	74349793	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	16802	74349793	66863638	1908	2499										
TMC1	117531	broad.mit.edu	37	chr9	75355088	75355088	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctcttgggaaaggaaaagGaaaacggtggtttgcattta	14	4	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:75355088G>A	uc004aiz.1	+	9	956	c.416G>A	c.(415-417)GGA>GAA	p.G139E	TMC1_uc010moz.1_Missense_Mutation_p.G97E|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_5'UTR|TMC1_uc010mpa.1_5'UTR	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	139	Cytoplasmic (Potential).|Arg/Asp/Glu/Lys-rich (highly charged).				sensory perception of sound	integral to membrane				ovary(1)	1						AAAGGAAAAGGAAAACGGTGG	0.303													12	9	---	---	---	---	PASS	A	75355088	A	A	75355088	3	1	4	1	0	0	0	0	1	0	0	0	15981	1174	41	2	434	2	TMC1	9	75355088	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1005295	75355088	65858343	1909	2500										
TMC1	117531	broad.mit.edu	37	chr9	75387402	75387402	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aattggatggatgaatttcaGgttgccgctctcctattttc	9	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:75387402G>A	uc004aiz.1	+	13	1355	c.815G>A	c.(814-816)AGG>AAG	p.R272K	TMC1_uc010moz.1_Missense_Mutation_p.R230K|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Missense_Mutation_p.R126K|TMC1_uc010mpa.1_Missense_Mutation_p.R126K	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	272	Extracellular (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						ATGAATTTCAGGTTGCCGCTC	0.393													51	36	---	---	---	---	PASS	A	75387402	A	A	75387402	3	1	4	1	0	0	0	0	1	0	0	0	15981	1000	35	3	849	3	TMC1	9	75387402	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	32314	75387402	65826029	1910	2501										
TMC1	117531	broad.mit.edu	37	chr9	75420349	75420349	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaccacctacgtcacaatcCtcattggggactttctaagg	8	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:75420349C>T	uc004aiz.1	+	18	2158	c.1618C>T	c.(1618-1620)CTC>TTC	p.L540F	TMC1_uc010moz.1_Missense_Mutation_p.L498F|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Missense_Mutation_p.L394F|TMC1_uc010mpa.1_Missense_Mutation_p.L394F	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	540	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						CGTCACAATCCTCATTGGGGA	0.403													37	53	---	---	---	---	PASS	T	75420349	T	T	75420349	3	4	4	1	0	0	0	0	1	0	0	0	15981	681	24	3	1672	3	TMC1	9	75420349	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	32947	75420349	65793082	1911	2502										
RORB	6096	broad.mit.edu	37	chr9	77249547	77249547	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttctctttttccctcaagGgattctttaggaggagccag	9	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:77249547G>A	uc004aji.2	+	3	176	c.127G>A	c.(127-129)GGA>AGA	p.G43R	RORB_uc004ajh.2_Missense_Mutation_p.G32R	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	43	Nuclear receptor.				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						TTCCCTCAAGGGATTCTTTAG	0.408													8	6	---	---	---	---	PASS	A	77249547	A	A	77249547	3	1	4	1	0	0	0	0	1	0	0	0	13529	1246	43	3	104	3	RORB	9	77249547	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1829198	77249547	63963884	1912	2503										
C9orf41	138199	broad.mit.edu	37	chr9	77613660	77613660	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctaaactgatggatccaaGgataaagtttatatttatta	7	4	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:77613660G>A	uc004ajq.2	-	5	917	c.764C>T	c.(763-765)CCT>CTT	p.P255L	C9orf41_uc011lsi.1_RNA	NM_152420	NP_689633	Q8N4J0	CI041_HUMAN	hypothetical protein LOC138199	255										ovary(1)|skin(1)	2						ATGGATCCAAGGATAAAGTTT	0.348													21	13	---	---	---	---	PASS	A	77613660	A	A	77613660	3	1	4	1	0	0	0	0	1	0	0	0	2482	1000	35	3	481	3	C9orf41	9	77613660	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	364113	77613660	63599771	1913	2504										
PCSK5	5125	broad.mit.edu	37	chr9	78804556	78804556	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttctcatagatgtgatatCagttgtttgacgtgcaatgg	10	5	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:78804556C>T	uc004ajz.2	+	20	3058	c.2520C>T	c.(2518-2520)ATC>ATT	p.I840I	PCSK5_uc004aka.2_RNA|PCSK5_uc004akb.2_Silent_p.I114I	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	840	CRM (Cys-rich motif).				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						GATGTGATATCAGTTGTTTGA	0.393													22	16	---	---	---	---	PASS	T	78804556	T	T	78804556	2	4	4	1	0	0	0	0	0	0	0	1	11603	816	29	2		2	PCSK5	9	78804556	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1190896	78804556	62408875	1914	2505										
PRUNE2	158471	broad.mit.edu	37	chr9	79321662	79321662	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagacagctccctttcaaatGgactttcaattagtctccct	5	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:79321662G>A	uc010mpk.2	-	8	5652	c.5528C>T	c.(5527-5529)CCA>CTA	p.P1843L	PRUNE2_uc004akj.3_5'Flank|PRUNE2_uc010mpl.1_5'Flank	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1843					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CCTTTCAAATGGACTTTCAAT	0.473													10	14	---	---	---	---	PASS	A	79321662	A	A	79321662	3	1	4	1	0	0	0	0	1	0	0	0	12641	1348	47	3	3786	3	PRUNE2	9	79321662	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	517106	79321662	61891769	1915	2506										
PRUNE2	158471	broad.mit.edu	37	chr9	79324429	79324429	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcatattctcctcaaaaaGgttccaggaatctacctttt	4	11	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:79324429G>A	uc010mpk.2	-	8	2885	c.2761C>T	c.(2761-2763)CTT>TTT	p.L921F		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	921					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TCCTCAAAAAGGTTCCAGGAA	0.398													66	53	---	---	---	---	PASS	A	79324429	A	A	79324429	3	1	4	1	0	0	0	0	1	0	0	0	12641	1000	35	3	6553	3	PRUNE2	9	79324429	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2767	79324429	61889002	1916	2507										
VPS13A	23230	broad.mit.edu	37	chr9	79862249	79862249	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcttcatatattattgtcCcacaagatggaatttttagt	7	6	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:79862249C>T	uc004akr.2	+	20	2235	c.1975C>T	c.(1975-1977)CCA>TCA	p.P659S	VPS13A_uc004akp.3_Missense_Mutation_p.P659S|VPS13A_uc004akq.3_Missense_Mutation_p.P659S|VPS13A_uc004aks.2_Missense_Mutation_p.P659S	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	659					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						TATTATTGTCCCACAAGATGG	0.289													12	25	---	---	---	---	PASS	T	79862249	T	T	79862249	3	4	4	1	0	0	0	0	1	0	0	0	17186	623	22	3	2053	3	VPS13A	9	79862249	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	537820	79862249	61351182	1917	2508										
KIF27	55582	broad.mit.edu	37	chr9	86468574	86468574	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatctgaaaagaatagttctAatctcaacaggactcaggca	7	8	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:86468574A>G	uc004ana.2	-	15	3471	c.3327T>C	c.(3325-3327)ATT>ATC	p.I1109I	KIF27_uc010mpw.2_Silent_p.I1043I|KIF27_uc010mpx.2_Silent_p.I1012I	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	1109					cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						GAATAGTTCTAATCTCAACAG	0.363													20	19	---	---	---	---	PASS	G	86468574	G	G	86468574	2	3	4	1	0	0	0	0	0	0	0	1	8296	358	13	5		5	KIF27	9	86468574	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	6606325	86468574	54744857	1918	2509										
NTRK2	4915	broad.mit.edu	37	chr9	87338487	87338487	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttacttttcttgttccataGgtttgccatctgcaaatctg	6	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:87338487G>A	uc004aoa.1	+	9	1522	c.584_splice	c.e9-1	p.G195_splice	NTRK2_uc004anv.1_Splice_Site_p.G195_splice|NTRK2_uc004any.1_Splice_Site_p.G195_splice|NTRK2_uc004anz.1_Splice_Site_p.G195_splice|NTRK2_uc011lsz.1_Splice_Site_p.G195_splice|NTRK2_uc011lta.1_Splice_Site_p.G195_splice|NTRK2_uc004aob.1_Splice_Site_p.G195_splice|NTRK2_uc011ltb.1_Splice_Site_p.G39_splice	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	neurotrophic tyrosine kinase, receptor, type 2						activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16						TTGTTCCATAGGTTTGCCATC	0.368										TSP Lung(25;0.17)			16	16	---	---	---	---	PASS	A	87338487	A	A	87338487	5	1	4	1	0	0	0	0	0	0	1	0	10707	1014	35	3	605	3	NTRK2	9	87338487	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	869913	87338487	53874944	1919	2510										
NFIL3	4783	broad.mit.edu	37	chr9	94172935	94172935	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttccgttaaagcagaattaaGgaccatcatcttgtccacat	6	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:94172935G>A	uc004arh.2	-	2	477	c.82C>T	c.(82-84)CTT>TTT	p.L28F		NM_005384	NP_005375	Q16649	NFIL3_HUMAN	nuclear factor, interleukin 3 regulated	28					circadian rhythm|immune response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						GCAGAATTAAGGACCATCATC	0.468													25	31	---	---	---	---	PASS	A	94172935	A	A	94172935	3	1	4	1	0	0	0	0	1	0	0	0	10373	1000	35	3	1310	3	NFIL3	9	94172935	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6834448	94172935	47040496	1920	2511										
ROR2	4920	broad.mit.edu	37	chr9	94495518	94495518	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagccgcatgaggatgagcgGgttggagcgggcgatggtgt	20	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:94495518G>A	uc004arj.1	-	6	1022	c.823C>T	c.(823-825)CCG>TCG	p.P275S	ROR2_uc004ari.1_Missense_Mutation_p.P135S|ROR2_uc004ark.2_Missense_Mutation_p.P275S	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	275	FZ.|Extracellular (Potential).				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						AGGATGAGCGGGTTGGAGCGG	0.677													5	4	---	---	---	---	PASS	A	94495518	A	A	94495518	3	1	4	1	0	0	0	0	1	0	0	0	13527	1232	43	3	2024	3	ROR2	9	94495518	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	322583	94495518	46717913	1921	2512										
HEMGN	55363	broad.mit.edu	37	chr9	100692960	100692960	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttggacaaggaaggattttGggtacagcagcttcttggca	14	6	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:100692960G>T	uc004axy.2	-	3	825	c.717C>A	c.(715-717)CCC>CCA	p.P239P	HEMGN_uc004axz.2_Silent_p.P239P	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	239					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				GAAGGATTTTGGGTACAGCAG	0.413													5	98	---	---	---	---	PASS	T	100692960	T	T	100692960	2	4	4	1	0	0	0	0	0	0	0	1	7050	1335	47	3		3	HEMGN	9	100692960	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	6197442	100692960	40520471	1922	2513										
COL15A1	1306	broad.mit.edu	37	chr9	101806876	101806876	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagggagagccgggtgccatCctgacagaggacattcctct	13	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:101806876C>T	uc004azb.1	+	25	2807	c.2601C>T	c.(2599-2601)ATC>ATT	p.I867I		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	867	Triple-helical region 4 (COL4).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				CGGGTGCCATCCTGACAGAGG	0.502													5	10	---	---	---	---	PASS	T	101806876	T	T	101806876	2	4	4	1	0	0	0	0	0	0	0	1	3672	845	30	2		2	COL15A1	9	101806876	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1113916	101806876	39406555	1923	2514										
C9orf30	91283	broad.mit.edu	37	chr9	103213214	103213214	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taccaaggaatggcctgtttCctcatttaaccggccctttc	7	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:103213214C>T	uc004baw.2	+	3	861	c.794C>T	c.(793-795)TCC>TTC	p.S265F	TMEFF1_uc004bay.1_Intron|C9orf30_uc004bax.2_RNA	NM_080655	NP_542386	Q96H12	CI030_HUMAN	hypothetical protein LOC91283	265										ovary(1)	1		Acute lymphoblastic leukemia(62;0.0527)				TGGCCTGTTTCCTCATTTAAC	0.418													18	10	---	---	---	---	PASS	T	103213214	T	T	103213214	3	4	4	1	0	0	0	0	1	0	0	0	2478	855	30	2	800	2	C9orf30	9	103213214	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1406338	103213214	38000217	1924	2515										
LPPR1	54886	broad.mit.edu	37	chr9	104048415	104048415	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgagatatccatgtatttCataaaatcaacaagagaatc	7	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:104048415C>T	uc004bbb.2	+	4	681	c.282C>T	c.(280-282)TTC>TTT	p.F94F	LPPR1_uc011lvi.1_Silent_p.F70F|LPPR1_uc004bbc.2_Silent_p.F94F|LPPR1_uc010mtc.2_Silent_p.F78F	NM_207299	NP_997182	Q8TBJ4	LPPR1_HUMAN	plasticity related gene 3	94						integral to membrane	catalytic activity				0						CCATGTATTTCATAAAATCAA	0.373													23	19	---	---	---	---	PASS	T	104048415	T	T	104048415	2	4	4	1	0	0	0	0	0	0	0	1	8924	825	29	2		2	LPPR1	9	104048415	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	835201	104048415	37165016	1925	2516										
BAAT	570	broad.mit.edu	37	chr9	104124868	104124868	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagcacagaggagaataggGaggttctatcaggtggcctg	15	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:104124868G>A	uc010mtd.2	-	4	1208	c.1099C>T	c.(1099-1101)CCC>TCC	p.P367S	BAAT_uc004bbd.3_Missense_Mutation_p.P367S	NM_001127610	NP_001121082	Q14032	BAAT_HUMAN	bile acid Coenzyme A: amino acid	367					acyl-CoA metabolic process|bile acid and bile salt transport|bile acid biosynthetic process|digestion|fatty acid metabolic process|glycine metabolic process	cytosol|peroxisomal matrix	carboxylesterase activity|glycine N-choloyltransferase activity|N-acyltransferase activity|palmitoyl-CoA hydrolase activity			ovary(1)|lung(1)|skin(1)	3		Acute lymphoblastic leukemia(62;0.0559)			Glycine(DB00145)	GGAGAATAGGGAGGTTCTATC	0.542													13	14	---	---	---	---	PASS	A	104124868	A	A	104124868	3	1	4	1	0	0	0	0	1	0	0	0	1280	1174	41	2	161	2	BAAT	9	104124868	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	76453	104124868	37088563	1926	2517										
PPP3R2	5535	broad.mit.edu	37	chr9	104357047	104357047	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatcactcgccgcaccaacgGgttgtggcgcagctccggca	13	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:104357047G>A	uc004bbr.2	-	1	237	c.166C>T	c.(166-168)CCG>TCG	p.P56S	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_Intron	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	53	EF-hand 2.						calcium ion binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	CGCACCAACGGGTTGTGGCGC	0.557													24	12	---	---	---	---	PASS	A	104357047	A	A	104357047	3	1	4	1	0	0	0	0	1	0	0	0	12401	1232	43	3	359	3	PPP3R2	9	104357047	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	232179	104357047	36856384	1927	2518										
OR13C8	138802	broad.mit.edu	37	chr9	107332164	107332164	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaaaacataaggccttctCcacctgctcagcccacctga	7	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:107332164C>T	uc011lvo.1	+	1	716	c.716C>T	c.(715-717)TCC>TTC	p.S239F		NM_001004483	NP_001004483	Q8NGS7	O13C8_HUMAN	olfactory receptor, family 13, subfamily C,	239	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AAGGCCTTCTCCACCTGCTCA	0.408													15	27	---	---	---	---	PASS	T	107332164	T	T	107332164	3	4	4	1	0	0	0	0	1	0	0	0	10938	855	30	2	718	2	OR13C8	9	107332164	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2975117	107332164	33881267	1928	2519										
ABCA1	19	broad.mit.edu	37	chr9	107651464	107651464	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagaggccaggccacttccaGcagcagctgacactgagtgg	13	12	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:107651464G>A	uc004bcl.2	-	3	392	c.79C>T	c.(79-81)CTG>TTG	p.L27L	ABCA1_uc004bcm.2_5'UTR	NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	27	Helical; (Potential).				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GCCACTTCCAGCAGCAGCTGA	0.428													9	16	---	---	---	---	PASS	A	107651464	A	A	107651464	2	1	4	1	0	0	0	0	0	0	0	1	28	962	34	3		3	ABCA1	9	107651464	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	319300	107651464	33561967	1929	2520										
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112705264	112705264	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggagcctcagccatcccaaGgaacacatgctctgcaaaga	10	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:112705264G>A	uc004bei.2	+	7	987	c.795G>A	c.(793-795)AAG>AAA	p.K265K	PALM2_uc004bef.2_Silent_p.K267K|PALM2_uc004beg.2_Silent_p.K233K|PALM2_uc004beh.3_Silent_p.K265K|PALM2-AKAP2_uc004bek.3_Intron|PALM2-AKAP2_uc004bej.3_Intron|PALM2-AKAP2_uc004bel.1_Intron	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						GCCATCCCAAGGAACACATGC	0.512													11	21	---	---	---	---	PASS	A	112705264	A	A	112705264	2	1	4	1	0	0	0	0	0	0	0	1	11410	991	35	3		3	PALM2-AKAP2	9	112705264	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	5053800	112705264	28508167	1930	2521										
SVEP1	79987	broad.mit.edu	37	chr9	113170096	113170096	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accatcctgactcttcacagGtctgcatggcatgaccagcc	8	15	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:113170096G>A	uc010mtz.2	-	38	8121	c.7784C>T	c.(7783-7785)ACC>ATC	p.T2595I	SVEP1_uc010mty.2_Missense_Mutation_p.T521I	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	2595	Sushi 20.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						CTCTTCACAGGTCTGCATGGC	0.448													43	48	---	---	---	---	PASS	A	113170096	A	A	113170096	3	1	4	1	0	0	0	0	1	0	0	0	15417	1261	44	3	2975	3	SVEP1	9	113170096	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	464832	113170096	28043335	1931	2522										
SVEP1	79987	broad.mit.edu	37	chr9	113170641	113170641	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggtagaatttcctcttagGaaaaacccacctacacaaga	7	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:113170641G>A	uc010mtz.2	-	38	7576	c.7239C>T	c.(7237-7239)TTC>TTT	p.F2413F	SVEP1_uc010mty.2_Silent_p.F339F	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	2413	Sushi 17.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TTCCTCTTAGGAAAAACCCAC	0.478													20	27	---	---	---	---	PASS	A	113170641	A	A	113170641	2	1	4	1	0	0	0	0	0	0	0	1	15417	1165	41	2		2	SVEP1	9	113170641	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	545	113170641	28042790	1932	2523										
SVEP1	79987	broad.mit.edu	37	chr9	113251945	113251945	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttaccaataaccttgatatGgaaaatgcagctggcctggt	9	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:113251945G>A	uc010mtz.2	-	9	2252	c.1915C>T	c.(1915-1917)CAT>TAT	p.H639Y	SVEP1_uc010mua.1_Missense_Mutation_p.H639Y|SVEP1_uc004beu.2_Missense_Mutation_p.H639Y	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	639	HYR 1.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						ACCTTGATATGGAAAATGCAG	0.284													11	18	---	---	---	---	PASS	A	113251945	A	A	113251945	3	1	4	1	0	0	0	0	1	0	0	0	15417	1348	47	3	8960	3	SVEP1	9	113251945	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	81304	113251945	27961486	1933	2524										
LPAR1	1902	broad.mit.edu	37	chr9	113703745	113703745	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagactcatcatggtatccCgattccgccggggtccagaa	11	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:113703745C>A	uc004bfa.2	-	4	1004	c.749G>T	c.(748-750)CGG>CTG	p.R250L	LPAR1_uc011lwm.1_Missense_Mutation_p.R251L|LPAR1_uc004bfb.2_Missense_Mutation_p.R250L|LPAR1_uc004bfc.2_Missense_Mutation_p.R250L|LPAR1_uc011lwn.1_Missense_Mutation_p.R232L|LPAR1_uc011lwo.1_Missense_Mutation_p.R251L|LPAR1_uc010mub.2_Missense_Mutation_p.R250L	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	250	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						CATGGTATCCCGATTCCGCCG	0.443													4	67	---	---	---	---	PASS	A	113703745	A	A	113703745	3	1	4	1	0	0	0	0	1	0	0	0	8904	652	23	1	353	1	LPAR1	9	113703745	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	451800	113703745	27509686	1934	2525										
KIAA0368	23392	broad.mit.edu	37	chr9	114156585	114156585	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacatcattcactttggctCctggggaaaagcaaagaaaa	8	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:114156585C>T	uc004bfe.1	-	27	3311	c.3311G>A	c.(3310-3312)GGA>GAA	p.G1104E		NM_001080398	NP_001073867			KIAA0368 protein												0						CACTTTGGCTCCTGGGGAAAA	0.373													6	7	---	---	---	---	PASS	T	114156585	T	T	114156585	3	4	4	1	0	0	0	0	1	0	0	0	8171	869	30	2	2842	2	KIAA0368	9	114156585	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	452840	114156585	27056846	1935	2526										
KIAA0368	23392	broad.mit.edu	37	chr9	114206714	114206714	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaccaacagtgtctctactgGaagttgtattttggggcggc	12	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:114206714G>A	uc004bfe.1	-	5	748	c.748C>T	c.(748-750)CCA>TCA	p.P250S	KIAA0368_uc010muc.1_Missense_Mutation_p.P72S	NM_001080398	NP_001073867			KIAA0368 protein												0						GTCTCTACTGGAAGTTGTATT	0.393													26	33	---	---	---	---	PASS	A	114206714	A	A	114206714	3	1	4	1	0	0	0	0	1	0	0	0	8171	1174	41	2	5493	2	KIAA0368	9	114206714	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	50129	114206714	27006717	1936	2527										
ZNF483	158399	broad.mit.edu	37	chr9	114304051	114304051	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaggatcacggtaatcaggGaaattcaaaaggaagagtcg	14	5	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:114304051G>A	uc004bff.2	+	6	1060	c.836G>A	c.(835-837)GGA>GAA	p.G279E	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	279					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						GGTAATCAGGGAAATTCAAAA	0.423													34	26	---	---	---	---	PASS	A	114304051	A	A	114304051	3	1	4	1	0	0	0	0	1	0	0	0	17933	1174	41	2	854	2	ZNF483	9	114304051	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	97337	114304051	26909380	1937	2528										
ZNF483	158399	broad.mit.edu	37	chr9	114304335	114304335	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctgagtcactcttcagctCttactgaacatcagaaacgt	6	12	5	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:114304335C>T	uc004bff.2	+	6	1344	c.1120C>T	c.(1120-1122)CTT>TTT	p.L374F	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	374					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						CTCTTCAGCTCTTACTGAACA	0.418													37	23	---	---	---	---	PASS	T	114304335	T	T	114304335	3	4	4	1	0	0	0	0	1	0	0	0	17933	913	32	2	1138	2	ZNF483	9	114304335	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	284	114304335	26909096	1938	2529										
COL27A1	85301	broad.mit.edu	37	chr9	117064382	117064382	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtcctccagggggtcctatCcaattggtaagttggaaacc	12	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:117064382C>T	uc011lxl.1	+	56	4866	c.4866C>T	c.(4864-4866)ATC>ATT	p.I1622I	COL27A1_uc004bii.2_RNA	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1622					cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GGGGTCCTATCCAATTGGTAA	0.562													29	24	---	---	---	---	PASS	T	117064382	T	T	117064382	2	4	4	1	0	0	0	0	0	0	0	1	3685	845	30	2		2	COL27A1	9	117064382	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2760047	117064382	24149049	1939	2530										
PAPPA	5069	broad.mit.edu	37	chr9	118989746	118989746	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtcatctttgcctggaaggGagaatcctggtgcagtatgc	13	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:118989746G>A	uc004bjn.2	+	6	2529	c.2148G>A	c.(2146-2148)GGG>GGA	p.G716G	PAPPA_uc011lxp.1_Silent_p.G411G|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	716					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GCCTGGAAGGGAGAATCCTGG	0.527													28	19	---	---	---	---	PASS	A	118989746	A	A	118989746	2	1	4	1	0	0	0	0	0	0	0	1	11432	1161	41	2		2	PAPPA	9	118989746	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1925364	118989746	22223685	1940	2531										
PHF19	26147	broad.mit.edu	37	chr9	123624866	123624866	+	Missense_Mutation	SNP	C	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgggtccccgagcactgacCcaggcttgctctttcctctc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:123624866C>A	uc004bks.1	-	11	1383	c.1130G>T	c.(1129-1131)GGT>GTT	p.G377V	PHF19_uc011lyf.1_Missense_Mutation_p.G168V|PHF19_uc004bkr.2_RNA	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a	377					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						GAGCACTGACCCAGGCTTGCT	0.617													9	17	---	---	---	---	PASS	A	123624866	A	A	123624866	3	1	4	1	0	0	0	0	1	0	0	0	11829	637	22	3	632	3	PHF19	9	123624866	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4635120	123624866	17588565	1941	2532	90	2								
PHF19	26147	broad.mit.edu	37	chr9	123624867	123624867	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggtccccgagcactgaccCaggcttgctctttcctctct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:123624867C>T	uc004bks.1	-	11	1382	c.1129G>A	c.(1129-1131)GGT>AGT	p.G377S	PHF19_uc011lyf.1_Missense_Mutation_p.G168S|PHF19_uc004bkr.2_RNA	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a	377					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						AGCACTGACCCAGGCTTGCTC	0.622													9	17	---	---	---	---	PASS	T	123624867	T	T	123624867	3	4	4	1	0	0	0	0	1	0	0	0	11829	608	21	3	633	3	PHF19	9	123624867	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	123624867	17588564	1942	2533	90	2								
PTGS1	5742	broad.mit.edu	37	chr9	125145854	125145854	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgttgatgcactacccccgaGgcatcccgccccagagccag	10	17	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:125145854G>A	uc004bmg.1	+	8	964	c.829G>A	c.(829-831)GGC>AGC	p.G277S	PTGS1_uc011lys.1_Missense_Mutation_p.G252S|PTGS1_uc010mwb.1_Missense_Mutation_p.G168S|PTGS1_uc004bmf.1_Missense_Mutation_p.G277S|PTGS1_uc004bmh.1_Missense_Mutation_p.G168S|PTGS1_uc011lyt.1_Missense_Mutation_p.G168S	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	277					cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	CTACCCCCGAGGCATCCCGCC	0.632													9	12	---	---	---	---	PASS	A	125145854	A	A	125145854	3	1	4	1	0	0	0	0	1	0	0	0	12755	1000	35	3	859	3	PTGS1	9	125145854	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1520987	125145854	16067577	1943	2534										
OR1Q1	158131	broad.mit.edu	37	chr9	125377828	125377828	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagctattcagtgaccaaggGtcgcattataacagtcgtgt	10	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:125377828G>A	uc011lyy.1	+	1	812	c.812G>A	c.(811-813)GGT>GAT	p.G271D		NM_012364	NP_036496	Q15612	OR1Q1_HUMAN	olfactory receptor, family 1, subfamily Q,	271	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTGACCAAGGGTCGCATTATA	0.527													21	28	---	---	---	---	PASS	A	125377828	A	A	125377828	3	1	4	1	0	0	0	0	1	0	0	0	10971	1261	44	3	814	3	OR1Q1	9	125377828	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	231974	125377828	15835603	1944	2535										
OR1B1	347169	broad.mit.edu	37	chr9	125391009	125391009	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatactgagagttctggaagGgaggctggaagtagacacaa	15	5	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:125391009G>A	uc011lyz.1	-	1	806	c.806C>T	c.(805-807)CCC>CTC	p.P269L		NM_001004450	NP_001004450	Q8NGR6	OR1B1_HUMAN	olfactory receptor, family 1, subfamily B,	269	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTTCTGGAAGGGAGGCTGGAA	0.512													17	17	---	---	---	---	PASS	A	125391009	A	A	125391009	3	1	4	1	0	0	0	0	1	0	0	0	10951	1232	43	3	153	3	OR1B1	9	125391009	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	13181	125391009	15822422	1945	2536										
PDCL	5082	broad.mit.edu	37	chr9	125585315	125585315	+	Nonsense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcccactgatcttctcctGgaggtctttctgtttctgtt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:125585315G>A	uc004bmz.1	-	3	430	c.334C>T	c.(334-336)CAG>TAG	p.Q112*	PDCL_uc004bna.2_Nonsense_Mutation_p.Q112*	NM_005388	NP_005379	Q13371	PHLP_HUMAN	phosducin-like	112					signal transduction|visual perception						0						ATCTTCTCCTGGAGGTCTTTC	0.507													33	40	---	---	---	---	PASS	A	125585315	A	A	125585315	4	1	4	1	0	0	0	0	0	1	0	0	11626	1357	47	3	579	3	PDCL	9	125585315	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	194306	125585315	15628116	1946	2537	91	2								
PDCL	5082	broad.mit.edu	37	chr9	125585316	125585316	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcccactgatcttctcctgGaggtctttctgtttctgttg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:125585316G>A	uc004bmz.1	-	3	429	c.333C>T	c.(331-333)CTC>CTT	p.L111L	PDCL_uc004bna.2_Silent_p.L111L	NM_005388	NP_005379	Q13371	PHLP_HUMAN	phosducin-like	111					signal transduction|visual perception						0						TCTTCTCCTGGAGGTCTTTCT	0.502													34	40	---	---	---	---	PASS	A	125585316	A	A	125585316	2	1	4	1	0	0	0	0	0	0	0	1	11626	1161	41	2		2	PDCL	9	125585316	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	125585316	15628115	1947	2538	91	2								
PPP6C	5537	broad.mit.edu	37	chr9	127912080	127912080	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgaagcaatatttccacaacGatagcagtaattaggagcag	9	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:127912080G>A	uc004bpg.3	-	7	1011	c.790C>T	c.(790-792)CGT>TGT	p.R264C	PPP6C_uc010mwv.2_Missense_Mutation_p.R301C|PPP6C_uc010mww.2_Missense_Mutation_p.R242C|PPP6C_uc011lzr.1_Missense_Mutation_p.R117C	NM_002721	NP_002712	O00743	PPP6_HUMAN	protein phosphatase 6, catalytic subunit isoform	264					G1/S transition of mitotic cell cycle|protein dephosphorylation	cytosol	metal ion binding|protein binding|protein serine/threonine phosphatase activity			ovary(1)|skin(1)	2						TTTCCACAACGATAGCAGTAA	0.403													8	14	---	---	---	---	PASS	A	127912080	A	A	127912080	3	1	4	1	0	0	0	0	1	0	0	0	12407	1058	37	2	131	2	PPP6C	9	127912080	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2326764	127912080	13301351	1948	2539										
SH2D3C	10044	broad.mit.edu	37	chr9	130507027	130507027	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggggactgtgaaggtcttgCcccagtccccttcaggggcc	14	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:130507027C>T	uc004bsc.2	-	7	1758	c.1616G>A	c.(1615-1617)GGC>GAC	p.G539D	SH2D3C_uc010mxo.2_Missense_Mutation_p.G379D|SH2D3C_uc004bry.2_Missense_Mutation_p.G381D|SH2D3C_uc004brz.3_Missense_Mutation_p.G185D|SH2D3C_uc011mak.1_Missense_Mutation_p.G185D|SH2D3C_uc004bsa.2_Missense_Mutation_p.G382D|SH2D3C_uc004bsb.2_Missense_Mutation_p.G471D	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a	539					JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						GAAGGTCTTGCCCCAGTCCCC	0.597													41	59	---	---	---	---	PASS	T	130507027	T	T	130507027	3	4	4	1	0	0	0	0	1	0	0	0	14234	739	26	3	990	3	SH2D3C	9	130507027	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2594947	130507027	10706404	1949	2540										
FPGS	2356	broad.mit.edu	37	chr9	130569923	130569923	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accacaccagcctcctggggGatacggtggagaagatcgca	13	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:130569923G>A	uc004bsg.1	+	8	750	c.700G>A	c.(700-702)GAT>AAT	p.D234N	FPGS_uc004bsh.1_Missense_Mutation_p.D51N|FPGS_uc011mal.1_Missense_Mutation_p.D208N|FPGS_uc004bsi.1_Missense_Mutation_p.D184N	NM_004957	NP_004948	Q05932	FOLC_HUMAN	folylpolyglutamate synthase isoform a precursor	234					folic acid metabolic process|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|one-carbon metabolic process	cytosol|mitochondrial matrix	ATP binding|tetrahydrofolylpolyglutamate synthase activity				0					L-Glutamic Acid(DB00142)	CCTCCTGGGGGATACGGTGGA	0.458													4	7	---	---	---	---	PASS	A	130569923	A	A	130569923	3	1	4	1	0	0	0	0	1	0	0	0	6036	1174	41	2	730	2	FPGS	9	130569923	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	62896	130569923	10643508	1950	2541										
SLC27A4	10999	broad.mit.edu	37	chr9	131105494	131105494	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggacccaggtgggattctCcctgttgttcctctacttgg	11	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:131105494C>T	uc004but.2	+	2	367	c.83C>T	c.(82-84)TCC>TTC	p.S28F	SLC27A4_uc004buu.2_Silent_p.L55L	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	28	Helical; (Potential).				long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						GTGGGATTCTCCCTGTTGTTC	0.587													12	16	---	---	---	---	PASS	T	131105494	T	T	131105494	3	4	4	1	0	0	0	0	1	0	0	0	14528	855	30	2	85	2	SLC27A4	9	131105494	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	535571	131105494	10107937	1951	2542										
ODF2	4957	broad.mit.edu	37	chr9	131221850	131221850	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtgcctgggtgcaggtttCcatcgtgtgggaagaacgga	16	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:131221850C>T	uc011mbd.1	+	3	348	c.37C>T	c.(37-39)CCA>TCA	p.P13S	ODF2_uc011maz.1_Missense_Mutation_p.P13S|ODF2_uc011mba.1_5'UTR|ODF2_uc010myb.2_5'UTR|ODF2_uc011mbb.1_5'UTR|ODF2_uc011mbc.1_5'UTR|ODF2_uc004bva.2_5'UTR|ODF2_uc004bvb.2_5'UTR|ODF2_uc011mbe.1_5'UTR|ODF2_uc004bvc.2_5'UTR|ODF2_uc010myc.2_Missense_Mutation_p.P13S|ODF2_uc011mbf.1_Missense_Mutation_p.P13S|ODF2_uc004bvd.3_Missense_Mutation_p.P13S|ODF2_uc004bve.2_Missense_Mutation_p.P13S	NM_002540	NP_002531	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2 isoform 1	13					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centriole|cilium|cytosol|microtubule|spindle pole	protein binding|structural molecule activity			ovary(1)	1						GTGCAGGTTTCCATCGTGTGG	0.473													7	13	---	---	---	---	PASS	T	131221850	T	T	131221850	3	4	4	1	0	0	0	0	1	0	0	0	10827	855	30	2	43	2	ODF2	9	131221850	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	116356	131221850	9991581	1952	2543										
PTGES	9536	broad.mit.edu	37	chr9	132510953	132510953	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgaggcagcgttccacgtCggggtcgctcctgcaatact	12	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:132510953C>G	uc004byi.2	-	2	243	c.190G>C	c.(190-192)GAC>CAC	p.D64H	PTGES_uc010myy.2_RNA|PTGES_uc004byj.2_Missense_Mutation_p.D64H	NM_004878	NP_004869	O14684	PTGES_HUMAN	prostaglandin E synthase	64	Helical.				prostaglandin biosynthetic process|signal transduction	integral to membrane|membrane fraction	glutathione binding|prostaglandin-E synthase activity			skin(1)	1		Ovarian(14;0.00556)				CGTTCCACGTCGGGGTCGCTC	0.607													4	4	---	---	---	---	PASS	G	132510953	G	G	132510953	3	3	4	1	0	0	0	0	1	0	0	0	12746	884	31	2	276	2	PTGES	9	132510953	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1289103	132510953	8702478	1953	2544										
PPAPDC3	84814	broad.mit.edu	37	chr9	134165636	134165636	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagggcatcgccttcaactcCctgctggccatcgatatctg	9	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:134165636C>T	uc004cal.2	+	1	556	c.252C>T	c.(250-252)TCC>TCT	p.S84S		NM_032728	NP_116117	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain	84	interaction with MTOR (By similarity).|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	hydrolase activity			breast(1)	1	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		CCTTCAACTCCCTGCTGGCCA	0.652													22	16	---	---	---	---	PASS	T	134165636	T	T	134165636	2	4	4	1	0	0	0	0	0	0	0	1	12296	610	22	3		3	PPAPDC3	9	134165636	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1654683	134165636	7047795	1954	2545										
PPAPDC3	84814	broad.mit.edu	37	chr9	134183309	134183309	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctctgtctccccccaacaGccctgctcctggacatcatg	7	19	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:134183309G>A	uc004cal.2	+	2	756	c.452_splice	c.e2-1	p.A151_splice		NM_032728	NP_116117	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain							endoplasmic reticulum membrane|integral to membrane|nuclear envelope	hydrolase activity			breast(1)	1	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		CCCCCCAACAGCCCTGCTCCT	0.537													8	3	---	---	---	---	PASS	A	134183309	A	A	134183309	5	1	4	1	0	0	0	0	0	0	1	0	12296	985	34	3	457	3	PPAPDC3	9	134183309	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	17673	134183309	7030122	1955	2546										
RAPGEF1	2889	broad.mit.edu	37	chr9	134501722	134501722	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccccaaagactctggcaacGggctaaggttccaggccgtc	11	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:134501722G>T	uc004cbc.2	-	10	1368	c.1238C>A	c.(1237-1239)CCG>CAG	p.P413Q	RAPGEF1_uc004cbb.2_Missense_Mutation_p.P431Q|RAPGEF1_uc010mzm.2_RNA|RAPGEF1_uc010mzn.2_Missense_Mutation_p.P418Q|RAPGEF1_uc004cbd.2_Missense_Mutation_p.P418Q	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	413					activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		CTCTGGCAACGGGCTAAGGTT	0.577													4	38	---	---	---	---	PASS	T	134501722	T	T	134501722	3	4	4	1	0	0	0	0	1	0	0	0	13043	1116	39	1	2055	1	RAPGEF1	9	134501722	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	318413	134501722	6711709	1956	2547										
CEL	1056	broad.mit.edu	37	chr9	135942042	135942042	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggaggtgccagcgtctctCtgcaggtctcgggatccctg	14	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:135942042C>T	uc010naa.1	+	5	689	c.673C>T	c.(673-675)CTG>TTG	p.L225L		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	222					cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		CAGCGTCTCTCTGCAGGTCTC	0.642													23	22	---	---	---	---	PASS	T	135942042	T	T	135942042	2	4	4	1	0	0	0	0	0	0	0	1	3209	912	32	2		2	CEL	9	135942042	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1440320	135942042	5271389	1957	2548										
C9orf96	169436	broad.mit.edu	37	chr9	136270378	136270378	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcctgctccacctgcagagGagatcctgccggagctggtg	13	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:136270378G>A	uc004cdk.2	+	18	1937	c.1876G>A	c.(1876-1878)GAG>AAG	p.E626K	C9orf96_uc004cdl.2_RNA	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	626							ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		ACCTGCAGAGGAGATCCTGCC	0.612													7	5	---	---	---	---	PASS	A	136270378	A	A	136270378	3	1	4	1	0	0	0	0	1	0	0	0	2508	1175	41	2	1946	2	C9orf96	9	136270378	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	328336	136270378	4943053	1958	2549										
SARDH	1757	broad.mit.edu	37	chr9	136561474	136561474	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctctgcaggccaggcactCcttcttgatctgaaaagttc	8	14	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:136561474C>T	uc004cep.3	-	14	1812	c.1678G>A	c.(1678-1680)GAG>AAG	p.E560K	SARDH_uc004ceo.2_Missense_Mutation_p.E560K|SARDH_uc011mdn.1_Missense_Mutation_p.E560K|SARDH_uc011mdo.1_Missense_Mutation_p.E392K|SARDH_uc004cen.2_5'UTR	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	560					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		GCCAGGCACTCCTTCTTGATC	0.587													15	13	---	---	---	---	PASS	T	136561474	T	T	136561474	3	4	4	1	0	0	0	0	1	0	0	0	13841	864	30	2	1110	2	SARDH	9	136561474	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	291096	136561474	4651957	1959	2550										
LHX3	8022	broad.mit.edu	37	chr9	139089197	139089197	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgagcgtggtctacctcatCcagccaggaggcggggctgg	16	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:139089197C>T	uc004cha.2	-	6	1265	c.1168G>A	c.(1168-1170)GAT>AAT	p.D390N	LHX3_uc004cgz.2_Missense_Mutation_p.D395N	NM_178138	NP_835258	Q9UBR4	LHX3_HUMAN	LIM homeobox protein 3 isoform a	390					inner ear development|organ morphogenesis|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;8.43e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.26e-07)		TCTACCTCATCCAGCCAGGAG	0.687													3	4	---	---	---	---	PASS	T	139089197	T	T	139089197	3	4	4	1	0	0	0	0	1	0	0	0	8772	855	30	2	29	2	LHX3	9	139089197	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2527723	139089197	2124234	1960	2551										
SEC16A	9919	broad.mit.edu	37	chr9	139360519	139360519	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccgtaggcaaaatcgccgtGaaaggagcctggaggaagcg	16	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:139360519G>A	uc004chx.2	-	8	4507	c.4198C>T	c.(4198-4200)CAC>TAC	p.H1400Y	SEC16A_uc004chv.3_Missense_Mutation_p.H790Y|SEC16A_uc004chw.2_Missense_Mutation_p.H1400Y|SEC16A_uc010nbn.2_Missense_Mutation_p.H1400Y	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1222	Required for endoplasmic reticulum localization.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		AAATCGCCGTGAAAGGAGCCT	0.562													13	10	---	---	---	---	PASS	A	139360519	A	A	139360519	3	1	4	1	0	0	0	0	1	0	0	0	13986	1290	45	2	2975	2	SEC16A	9	139360519	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	271322	139360519	1852912	1961	2552										
NDOR1	27158	broad.mit.edu	37	chr9	140109611	140109611	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctacctgttggacctcatccCcgttatccggccgagggcct	10	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:140109611C>T	uc004clw.2	+	9	1241	c.1130C>T	c.(1129-1131)CCC>CTC	p.P377L	NDOR1_uc004clx.2_Missense_Mutation_p.P377L|NDOR1_uc011mes.1_Missense_Mutation_p.P377L|NDOR1_uc004cly.2_Missense_Mutation_p.P343L	NM_014434	NP_055249	Q9UHB4	NDOR1_HUMAN	NADPH dependent diflavin oxidoreductase 1	377	FAD-binding FR-type.				cell death	cytosol|intermediate filament cytoskeleton|nucleus|perinuclear region of cytoplasm	flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding|oxidoreductase activity|protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GACCTCATCCCCGTTATCCGG	0.667													4	9	---	---	---	---	PASS	T	140109611	T	T	140109611	3	4	4	1	0	0	0	0	1	0	0	0	10249	623	22	3	1164	3	NDOR1	9	140109611	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	749092	140109611	1103820	1962	2553										
SLC34A3	142680	broad.mit.edu	37	chr9	140126166	140126166	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgaaatccatgccgagttcCcttcccggcagccaggtccc	9	18	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr9:140126166C>T	uc004cmf.1	+	2	198	c.12C>T	c.(10-12)TCC>TCT	p.S4S	SLC34A3_uc004cmc.1_5'UTR|SLC34A3_uc004cmd.1_Silent_p.S4S|SLC34A3_uc011met.1_Silent_p.S4S	NM_080877	NP_543153	Q8N130	NPT2C_HUMAN	solute carrier family 34 (sodium phosphate),	4	Cytoplasmic (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|integral to membrane	sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		TGCCGAGTTCCCTTCCCGGCA	0.647													27	14	---	---	---	---	PASS	T	140126166	T	T	140126166	2	4	4	1	0	0	0	0	0	0	0	1	14569	610	22	3		3	SLC34A3	9	140126166	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	16555	140126166	1087265	1963	2554										
TUBAL3	79861	broad.mit.edu	37	chr10	5435743	5435743	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggccgattgttgatgcccaCcttgaaaccagttggacacc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:5435743C>T	uc001ihy.2	-	4	1118	c.1078G>A	c.(1078-1080)GTG>ATG	p.V360M	TUBAL3_uc001ihz.2_Missense_Mutation_p.V320M	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	360					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						TTGATGCCCACCTTGAAACCA	0.572													14	20	---	---	---	---	PASS	T	5435743	T	T	5435743	3	4	4	1	0	0	0	0	1	0	0	0	16748	507	18	3	266	3	TUBAL3	10	5435743	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08		5435743	130099004	1964	2555	92	2								
TUBAL3	79861	broad.mit.edu	37	chr10	5435744	5435744	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccgattgttgatgcccacCttgaaaccagttggacacca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:5435744C>T	uc001ihy.2	-	4	1117	c.1077G>A	c.(1075-1077)AAG>AAA	p.K359K	TUBAL3_uc001ihz.2_Silent_p.K319K	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	359					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						TGATGCCCACCTTGAAACCAG	0.572													14	21	---	---	---	---	PASS	T	5435744	T	T	5435744	2	4	4	1	0	0	0	0	0	0	0	1	16748	680	24	3		3	TUBAL3	10	5435744	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	5435744	130099003	1965	2556	92	2								
TUBAL3	79861	broad.mit.edu	37	chr10	5435781	5435781	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accaatctacaaactgaacaGagtgcctcgacttcgtggct	8	12	1	2	rs148029829		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:5435781G>A	uc001ihy.2	-	4	1080	c.1040C>T	c.(1039-1041)TCT>TTT	p.S347F	TUBAL3_uc001ihz.2_Missense_Mutation_p.S307F	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	347					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						AAACTGAACAGAGTGCCTCGA	0.577													10	36	---	---	---	---	PASS	A	5435781	A	A	5435781	3	1	4	1	0	0	0	0	1	0	0	0	16748	942	33	2	304	2	TUBAL3	10	5435781	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	37	5435781	130098966	1966	2557										
NET1	10276	broad.mit.edu	37	chr10	5498921	5498921	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgaagagcgagggacaaagcCctttctggtggcaaacggaa	14	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:5498921C>T	uc001iia.2	+	12	1893	c.1755C>T	c.(1753-1755)GCC>GCT	p.A585A	NET1_uc010qar.1_Silent_p.A404A|NET1_uc001iib.2_Silent_p.A531A|NET1_uc010qas.1_Silent_p.A404A	NM_001047160	NP_001040625	Q7Z628	ARHG8_HUMAN	neuroepithelial cell transforming gene 1 isoform	585					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1						GGGACAAAGCCCTTTCTGGTG	0.483													8	39	---	---	---	---	PASS	T	5498921	T	T	5498921	2	4	4	1	0	0	0	0	0	0	0	1	10338	610	22	3		3	NET1	10	5498921	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	63140	5498921	130035826	1967	2558										
IL2RA	3559	broad.mit.edu	37	chr10	6063598	6063598	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taaaccatctgccccaccacGaaatgataaattctctctgt	4	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:6063598G>A	uc001iiz.1	-	4	585	c.426C>T	c.(424-426)TTC>TTT	p.F142F	IL2RA_uc009xih.1_Intron|IL2RA_uc001ija.1_Intron	NM_000417	NP_000408	P01589	IL2RA_HUMAN	interleukin 2 receptor, alpha chain precursor	142	Sushi 2.|Extracellular (Potential).				cell proliferation	integral to membrane	interleukin-2 receptor activity			ovary(1)|skin(1)	2					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	GCCCCACCACGAAATGATAAA	0.512													16	41	---	---	---	---	PASS	A	6063598	A	A	6063598	2	1	4	1	0	0	0	0	0	0	0	1	7686	1049	37	2		2	IL2RA	10	6063598	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	564677	6063598	129471149	1968	2559										
SFMBT2	57713	broad.mit.edu	37	chr10	7218107	7218107	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtacgattttgaccacagccCtgtatgttttgcctctgtat	8	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:7218107C>T	uc009xio.1	-	17	1920	c.1829G>A	c.(1828-1830)AGG>AAG	p.R610K	SFMBT2_uc001ijn.1_Missense_Mutation_p.R610K|SFMBT2_uc010qay.1_Missense_Mutation_p.R445K	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	610					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GACCACAGCCCTGTATGTTTT	0.473													16	47	---	---	---	---	PASS	T	7218107	T	T	7218107	3	4	4	1	0	0	0	0	1	0	0	0	14158	681	24	3	875	3	SFMBT2	10	7218107	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1154509	7218107	128316640	1969	2560										
SFMBT2	57713	broad.mit.edu	37	chr10	7239571	7239571	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggtagctctgcaatccttCctttgttcaggtaagggcct	11	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:7239571C>T	uc009xio.1	-	15	1728	c.1637G>A	c.(1636-1638)GGA>GAA	p.G546E	SFMBT2_uc001ijn.1_Missense_Mutation_p.G546E|SFMBT2_uc010qay.1_Intron	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	546					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						TGCAATCCTTCCTTTGTTCAG	0.507													11	58	---	---	---	---	PASS	T	7239571	T	T	7239571	3	4	4	1	0	0	0	0	1	0	0	0	14158	855	30	2	1075	2	SFMBT2	10	7239571	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	21464	7239571	128295176	1970	2561										
KIN	22944	broad.mit.edu	37	chr10	7829789	7829789	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgggcccactcacctcgtcCcggcactgcttctggcacat	9	19	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:7829789C>T	uc001ijt.2	-	1	156	c.108G>A	c.(106-108)CGG>CGA	p.R36R	KIN_uc010qaz.1_RNA|KIN_uc009xip.2_Silent_p.R36R|KIN_uc010qba.1_5'UTR|ATP5C1_uc010qbb.1_5'Flank|ATP5C1_uc009xiq.1_5'Flank|ATP5C1_uc010qbc.1_5'Flank|ATP5C1_uc001iju.2_5'Flank|ATP5C1_uc001ijv.2_5'Flank	NM_012311	NP_036443	O60870	KIN17_HUMAN	HsKin17 protein	36	C2H2-type.				DNA recombination|DNA repair|DNA replication|interspecies interaction between organisms|mRNA processing	cytoplasm|nuclear matrix	double-stranded DNA binding|RNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TCACCTCGTCCCGGCACTGCT	0.642													17	60	---	---	---	---	PASS	T	7829789	T	T	7829789	2	4	4	1	0	0	0	0	0	0	0	1	8315	610	22	3		3	KIN	10	7829789	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	590218	7829789	127704958	1971	2562										
DHTKD1	55526	broad.mit.edu	37	chr10	12162808	12162808	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgtctggtgggccggccccCtttgccagtacccgctgtag	13	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:12162808C>T	uc001ild.3	+	17	2780	c.2681C>T	c.(2680-2682)CCT>CTT	p.P894L		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	894					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			GGCCGGCCCCCTTTGCCAGTA	0.478													7	26	---	---	---	---	PASS	T	12162808	T	T	12162808	3	4	4	1	0	0	0	0	1	0	0	0	4500	681	24	3	2747	3	DHTKD1	10	12162808	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4333019	12162808	123371939	1972	2563										
PHYH	5264	broad.mit.edu	37	chr10	13323110	13323110	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcgaaatggcaggaaattgCctgtgcaaagtgaacaaatt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:13323110C>T	uc001imf.2	-	8	917	c.829G>A	c.(829-831)GCA>ACA	p.A277T	PHYH_uc001ime.2_Missense_Mutation_p.A177T|PHYH_uc001img.2_Missense_Mutation_p.A260T	NM_006214	NP_006205	O14832	PAHX_HUMAN	phytanoyl-CoA 2-hydroxylase isoform a precursor	277					fatty acid alpha-oxidation|nervous system development	peroxisomal matrix	electron carrier activity|L-ascorbic acid binding|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|phytanoyl-CoA dioxygenase activity|protein binding				0		Ovarian(717;0.0448)			Antihemophilic Factor(DB00025)|Vitamin C(DB00126)	CAGGAAATTGCCTGTGCAAAG	0.418													8	25	---	---	---	---	PASS	T	13323110	T	T	13323110	3	4	4	1	0	0	0	0	1	0	0	0	11864	753	26	3	195	3	PHYH	10	13323110	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1160302	13323110	122211637	1973	2564	93	2								
PHYH	5264	broad.mit.edu	37	chr10	13323111	13323111	+	Splice_Site	SNP	C	G	G													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgaaatggcaggaaattgcCtgtgcaaagtgaacaaattg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:13323111C>G	uc001imf.2	-	8	917	c.829_splice	c.e8-1	p.A277_splice	PHYH_uc001ime.2_Splice_Site_p.A177_splice|PHYH_uc001img.2_Splice_Site_p.A260_splice	NM_006214	NP_006205	O14832	PAHX_HUMAN	phytanoyl-CoA 2-hydroxylase isoform a precursor						fatty acid alpha-oxidation|nervous system development	peroxisomal matrix	electron carrier activity|L-ascorbic acid binding|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|phytanoyl-CoA dioxygenase activity|protein binding				0		Ovarian(717;0.0448)			Antihemophilic Factor(DB00025)|Vitamin C(DB00126)	AGGAAATTGCCTGTGCAAAGT	0.418													8	24	---	---	---	---	PASS	G	13323111	G	G	13323111	5	3	4	1	0	0	0	0	0	0	1	0	11864	695	24	4	196	4	PHYH	10	13323111	Splice_Site	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	13323111	122211636	1974	2565	93	2								
ITGA8	8516	broad.mit.edu	37	chr10	15614224	15614224	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctacctttatatcctgtgGattgatattaggatttggtt	8	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:15614224G>A	uc001ioc.1	-	25	2623	c.2623C>T	c.(2623-2625)CCA>TCA	p.P875S	ITGA8_uc010qcb.1_Missense_Mutation_p.P860S	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	875	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						ATATCCTGTGGATTGATATTA	0.388													16	38	---	---	---	---	PASS	A	15614224	A	A	15614224	3	1	4	1	0	0	0	0	1	0	0	0	7882	1174	41	2	592	2	ITGA8	10	15614224	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2291113	15614224	119920523	1975	2566										
RSU1	6251	broad.mit.edu	37	chr10	16796894	16796894	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtagaagaagtttccaggaaGagaattttcgctcaagttgt	11	5	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:16796894G>A	uc001iok.2	-	4	678	c.376C>T	c.(376-378)CTT>TTT	p.L126F	RSU1_uc001iol.2_Missense_Mutation_p.L126F|RSU1_uc001iom.2_Missense_Mutation_p.L73F|RSU1_uc001ion.2_Missense_Mutation_p.L126F	NM_152724	NP_689937	Q15404	RSU1_HUMAN	ras suppressor protein 1 isoform 2	126	LRR 4.				cell junction assembly|signal transduction	cytosol	protein binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(1;7.54e-08)		TTTCCAGGAAGAGAATTTTCG	0.448													21	39	---	---	---	---	PASS	A	16796894	A	A	16796894	3	1	4	1	0	0	0	0	1	0	0	0	13716	942	33	2	477	2	RSU1	10	16796894	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1182670	16796894	118737853	1976	2567										
CUBN	8029	broad.mit.edu	37	chr10	16867061	16867061	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctgatttgaggaagccacGaagggagctatgctggtgtc	14	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:16867061G>A	uc001ioo.2	-	67	10837	c.10785C>T	c.(10783-10785)TTC>TTT	p.F3595F		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3595	CUB 27.				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)	AGGAAGCCACGAAGGGAGCTA	0.378													6	18	---	---	---	---	PASS	A	16867061	A	A	16867061	2	1	4	1	0	0	0	0	0	0	0	1	4051	1049	37	2		2	CUBN	10	16867061	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	70167	16867061	118667686	1977	2568										
CUBN	8029	broad.mit.edu	37	chr10	16955826	16955826	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttactatcacatgctcattgTtgcaggacggatgcgtggcc	11	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:16955826T>A	uc001ioo.2	-	48	7569	c.7517A>T	c.(7516-7518)AAC>ATC	p.N2506I		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2506	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)	ATGCTCATTGTTGCAGGACGG	0.493													15	76	---	---	---	---	PASS	A	16955826	A	A	16955826	3	1	4	1	0	0	0	0	1	0	0	0	4051	1725	60	5	3434	5	CUBN	10	16955826	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	88765	16955826	118578921	1978	2569										
CUBN	8029	broad.mit.edu	37	chr10	16957035	16957035	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaatcaatgaactcaccttcCatactggattcaaatcgcag	6	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:16957035C>T	uc001ioo.2	-	47	7399	c.7347G>A	c.(7345-7347)ATG>ATA	p.M2449I		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2449					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)	ACTCACCTTCCATACTGGATT	0.274													6	15	---	---	---	---	PASS	T	16957035	T	T	16957035	3	4	4	1	0	0	0	0	1	0	0	0	4051	594	21	3	3608	3	CUBN	10	16957035	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1209	16957035	118577712	1979	2570										
CUBN	8029	broad.mit.edu	37	chr10	16967273	16967273	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcatatttgattttaaatcCttgcccttcattactgtgat	4	9	2	2	rs140883483		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:16967273C>T	uc001ioo.2	-	43	6665	c.6613G>A	c.(6613-6615)GGA>AGA	p.G2205R		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2205	CUB 15.				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)	ATTTTAAATCCTTGCCCTTCA	0.328													10	30	---	---	---	---	PASS	T	16967273	T	T	16967273	3	4	4	1	0	0	0	0	1	0	0	0	4051	690	24	3	4358	3	CUBN	10	16967273	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	10238	16967273	118567474	1980	2571										
CUBN	8029	broad.mit.edu	37	chr10	16967623	16967623	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcaagaagaatctccatttGgaatctggaaaggctgttca	10	7	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:16967623G>A	uc001ioo.2	-	42	6474	c.6422C>T	c.(6421-6423)CCA>CTA	p.P2141L		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2141	CUB 15.				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)	ATCTCCATTTGGAATCTGGAA	0.443													24	33	---	---	---	---	PASS	A	16967623	A	A	16967623	3	1	4	1	0	0	0	0	1	0	0	0	4051	1348	47	3	4553	3	CUBN	10	16967623	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	350	16967623	118567124	1981	2572										
CUBN	8029	broad.mit.edu	37	chr10	17032459	17032459	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtttggtggatacctgttGgggaacccggggctgctgaa	16	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:17032459G>A	uc001ioo.2	-	29	4276	c.4224C>T	c.(4222-4224)CCC>CCT	p.P1408P		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1408	CUB 9.				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)	GATACCTGTTGGGGAACCCGG	0.522													9	27	---	---	---	---	PASS	A	17032459	A	A	17032459	2	1	4	1	0	0	0	0	0	0	0	1	4051	1335	47	3		3	CUBN	10	17032459	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	64836	17032459	118502288	1982	2573										
CUBN	8029	broad.mit.edu	37	chr10	17087150	17087150	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcgggtagttgggagatatGaacgtgccgcttgaagtggt	16	5	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:17087150G>A	uc001ioo.2	-	25	3580	c.3528C>T	c.(3526-3528)TTC>TTT	p.F1176F		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1176	CUB 7.				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)	TGGGAGATATGAACGTGCCGC	0.478													23	42	---	---	---	---	PASS	A	17087150	A	A	17087150	2	1	4	1	0	0	0	0	0	0	0	1	4051	1281	45	2		2	CUBN	10	17087150	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	54691	17087150	118447597	1983	2574										
CUBN	8029	broad.mit.edu	37	chr10	17088080	17088080	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcccagcaatggtgatttttCatagcctccatctctggcag	8	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:17088080C>T	uc001ioo.2	-	24	3395	c.3343G>A	c.(3343-3345)GAA>AAA	p.E1115K		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1115	CUB 6.				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)	GGTGATTTTTCATAGCCTCCA	0.323													7	16	---	---	---	---	PASS	T	17088080	T	T	17088080	3	4	4	1	0	0	0	0	1	0	0	0	4051	835	29	2	7704	2	CUBN	10	17088080	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	930	17088080	118446667	1984	2575										
CUBN	8029	broad.mit.edu	37	chr10	17113553	17113553	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctccaggatacacgttagGaaaaaaaggcgagcgaatga	11	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:17113553G>A	uc001ioo.2	-	19	2549	c.2497C>T	c.(2497-2499)CCT>TCT	p.P833S		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	833	CUB 4.				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)	TACACGTTAGGAAAAAAAGGC	0.418													24	32	---	---	---	---	PASS	A	17113553	A	A	17113553	3	1	4	1	0	0	0	0	1	0	0	0	4051	1174	41	2	8570	2	CUBN	10	17113553	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	25473	17113553	118421194	1985	2576										
VIM	7431	broad.mit.edu	37	chr10	17275769	17275769	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgtctgttctttttgcagGaaatccaggagctgcaggct	11	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:17275769G>A	uc001iou.2	+	5	1134	c.721G>A	c.(721-723)GAA>AAA	p.E241K	VIM_uc001iov.1_Missense_Mutation_p.E241K|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.E241K|VIM_uc001ioy.1_Missense_Mutation_p.E241K|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.E241K|VIM_uc001ipc.1_Missense_Mutation_p.E241K	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	241	Rod.|Coil 1B.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						CTTTTTGCAGGAAATCCAGGA	0.542													9	33	---	---	---	---	PASS	A	17275769	A	A	17275769	3	1	4	1	0	0	0	0	1	0	0	0	17163	1188	41	2	735	2	VIM	10	17275769	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	162216	17275769	118258978	1986	2577										
ST8SIA6	338596	broad.mit.edu	37	chr10	17363050	17363050	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttagagaagggccagaatcCatacagcttcacatttttac	7	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:17363050C>T	uc001ipd.2	-	8	1024	c.1024G>A	c.(1024-1026)GGA>AGA	p.G342R	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	342	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						GGCCAGAATCCATACAGCTTC	0.438													24	81	---	---	---	---	PASS	T	17363050	T	T	17363050	3	4	4	1	0	0	0	0	1	0	0	0	15235	603	21	3	176	3	ST8SIA6	10	17363050	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	87281	17363050	118171697	1987	2578										
ST8SIA6	338596	broad.mit.edu	37	chr10	17363177	17363177	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctttcaggtacttgggatgGaaaaatagaaccttttgtct	9	6	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:17363177G>A	uc001ipd.2	-	8	897	c.897C>T	c.(895-897)TTC>TTT	p.F299F	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	299	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						ACTTGGGATGGAAAAATAGAA	0.463													40	132	---	---	---	---	PASS	A	17363177	A	A	17363177	2	1	4	1	0	0	0	0	0	0	0	1	15235	1165	41	2		2	ST8SIA6	10	17363177	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	127	17363177	118171570	1988	2579										
PTPLA	9200	broad.mit.edu	37	chr10	17641303	17641303	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgccacctggcccatttaatGaagtatggcaagtggtcaag	11	10	1	1	rs138699109		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:17641303G>A	uc001ipg.2	-	5	626	c.591C>T	c.(589-591)TTC>TTT	p.F197F		NM_014241	NP_055056	B0YJ81	HACD1_HUMAN	protein tyrosine phosphatase-like, member A	197	Cytoplasmic (Potential).				fatty acid biosynthetic process|multicellular organismal development|signal transduction	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein tyrosine phosphatase activity			central_nervous_system(1)|skin(1)	2						CCCATTTAATGAAGTATGGCA	0.443													21	22	---	---	---	---	PASS	A	17641303	A	A	17641303	2	1	4	1	0	0	0	0	0	0	0	1	12774	1281	45	2		2	PTPLA	10	17641303	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	278126	17641303	117893444	1989	2580										
MRC1	4360	broad.mit.edu	37	chr10	17949609	17949609	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaactggaacacaggagatCcctctggtgaacggaatgat	11	9	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:17949609C>T	uc001ipk.2	+	28	4076	c.3973C>T	c.(3973-3975)CCC>TCC	p.P1325S		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	1325	Extracellular (Potential).|C-type lectin 8.				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						CACAGGAGATCCCTCTGGTGA	0.398													17	29	---	---	---	---	PASS	T	17949609	T	T	17949609	3	4	4	1	0	0	0	0	1	0	0	0	9756	855	30	2	4083	2	MRC1	10	17949609	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	308306	17949609	117585138	1990	2581										
NSUN6	221078	broad.mit.edu	37	chr10	18834989	18834989	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagtgtccggtaatggcacaGccgatggatcaaatcgctgc	12	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:18834989G>A	uc010qcp.1	-	11	1701	c.1283C>T	c.(1282-1284)GCT>GTT	p.A428V	NSUN6_uc001iqb.2_5'Flank	NM_182543	NP_872349	Q8TEA1	NSUN6_HUMAN	NOL1/NOP2/Sun domain family, member 6	428							methyltransferase activity|RNA binding			ovary(2)	2						TAATGGCACAGCCGATGGATC	0.478													51	95	---	---	---	---	PASS	A	18834989	A	A	18834989	3	1	4	1	0	0	0	0	1	0	0	0	10682	971	34	3	130	3	NSUN6	10	18834989	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	885380	18834989	116699758	1991	2582										
THNSL1	79896	broad.mit.edu	37	chr10	25312772	25312772	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgttttctgtgaaagtggggCttccccagaggaggtagctg	15	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:25312772C>T	uc001isi.3	+	3	949	c.620C>T	c.(619-621)GCT>GTT	p.A207V	ENKUR_uc001ish.1_Intron	NM_024838	NP_079114	Q8IYQ7	THNS1_HUMAN	threonine synthase-like 1	207					threonine biosynthetic process		ATP binding|pyridoxal phosphate binding|shikimate kinase activity|threonine synthase activity			pancreas(1)	1					L-Threonine(DB00156)|Pyridoxal Phosphate(DB00114)	GAAAGTGGGGCTTCCCCAGAG	0.398													12	56	---	---	---	---	PASS	T	25312772	T	T	25312772	3	4	4	1	0	0	0	0	1	0	0	0	15859	797	28	3	622	3	THNSL1	10	25312772	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6477783	25312772	110221975	1992	2583										
GPR158	57512	broad.mit.edu	37	chr10	25887663	25887663	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctattgtggcttctgaaatGgagaaaaaccccactttttc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:25887663G>A	uc001isj.2	+	11	3168	c.3108G>A	c.(3106-3108)ATG>ATA	p.M1036I	GPR158_uc001isk.2_Missense_Mutation_p.M411I	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1036	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						CTTCTGAAATGGAGAAAAACC	0.463													10	46	---	---	---	---	PASS	A	25887663	A	A	25887663	3	1	4	1	0	0	0	0	1	0	0	0	6663	1348	47	3	3150	3	GPR158	10	25887663	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	574891	25887663	109647084	1993	2584	94	2								
GPR158	57512	broad.mit.edu	37	chr10	25887664	25887664	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctattgtggcttctgaaatgGagaaaaaccccactttttcc					rs12412738		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:25887664G>A	uc001isj.2	+	11	3169	c.3109G>A	c.(3109-3111)GAG>AAG	p.E1037K	GPR158_uc001isk.2_Missense_Mutation_p.E412K	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1037	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						TTCTGAAATGGAGAAAAACCC	0.463													11	48	---	---	---	---	PASS	A	25887664	A	A	25887664	3	1	4	1	0	0	0	0	1	0	0	0	6663	1175	41	2	3151	2	GPR158	10	25887664	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	25887664	109647083	1994	2585	94	2								
MYO3A	53904	broad.mit.edu	37	chr10	26414347	26414347	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgcttctttgctttgcattCgggcagatgagctacaagaa	11	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:26414347C>T	uc001isn.2	+	19	2284	c.1924C>T	c.(1924-1926)CGG>TGG	p.R642W	MYO3A_uc009xko.1_Missense_Mutation_p.R642W|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	642	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GCTTTGCATTCGGGCAGATGA	0.418													19	27	---	---	---	---	PASS	T	26414347	T	T	26414347	3	4	4	1	0	0	0	0	1	0	0	0	10076	875	31	2	1990	2	MYO3A	10	26414347	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	526683	26414347	109120400	1995	2586										
MYO3A	53904	broad.mit.edu	37	chr10	26414396	26414396	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcccactgtgtggtcactaGaggagaaacaattatacgac	9	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:26414396G>A	uc001isn.2	+	19	2333	c.1973G>A	c.(1972-1974)AGA>AAA	p.R658K	MYO3A_uc009xko.1_Missense_Mutation_p.R658K|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	658	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity	p.R658G(1)		ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GTGGTCACTAGAGGAGAAACA	0.428													27	44	---	---	---	---	PASS	A	26414396	A	A	26414396	3	1	4	1	0	0	0	0	1	0	0	0	10076	942	33	2	2039	2	MYO3A	10	26414396	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	49	26414396	109120351	1996	2587										
APBB1IP	54518	broad.mit.edu	37	chr10	26781271	26781271	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcagatgggtgagtcaagtGaagacatagaccaaatgttc	11	6	2	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:26781271G>A	uc001iss.2	+	3	337	c.16G>A	c.(16-18)GAA>AAA	p.E6K	APBB1IP_uc001isr.2_Missense_Mutation_p.E6K|APBB1IP_uc009xks.1_Missense_Mutation_p.E6K	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	6					blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						TGAGTCAAGTGAAGACATAGA	0.408													19	27	---	---	---	---	PASS	A	26781271	A	A	26781271	3	1	4	1	0	0	0	0	1	0	0	0	760	1291	45	2	18	2	APBB1IP	10	26781271	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	366875	26781271	108753476	1997	2588										
APBB1IP	54518	broad.mit.edu	37	chr10	26800681	26800681	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggttctatcctcagctcgtCgtcaaggtgcacatgaatga	10	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:26800681C>T	uc001iss.2	+	7	858	c.537C>T	c.(535-537)GTC>GTT	p.V179V	APBB1IP_uc009xks.1_Silent_p.V179V	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	179	Ras-associating.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						CTCAGCTCGTCGTCAAGGTGC	0.458													16	35	---	---	---	---	PASS	T	26800681	T	T	26800681	2	4	4	1	0	0	0	0	0	0	0	1	760	871	31	2		2	APBB1IP	10	26800681	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	19410	26800681	108734066	1998	2589										
WAC	51322	broad.mit.edu	37	chr10	28878666	28878666	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taaaaaatatatttttaagcCttatgattctgcagatgact	5	5	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:28878666C>T	uc001iuf.2	+	5	468	c.383C>T	c.(382-384)CCT>CTT	p.P128L	WAC_uc001iud.2_Missense_Mutation_p.P83L|WAC_uc001iue.2_Intron|WAC_uc009xlb.2_Missense_Mutation_p.P83L|WAC_uc001iug.2_Missense_Mutation_p.P128L|WAC_uc001iuh.2_Missense_Mutation_p.P83L	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	128					cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						ATTTTTAAGCCTTATGATTCT	0.308													13	40	---	---	---	---	PASS	T	28878666	T	T	28878666	3	4	4	1	0	0	0	0	1	0	0	0	17244	695	24	3	401	3	WAC	10	28878666	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2077985	28878666	106656081	1999	2590										
WAC	51322	broad.mit.edu	37	chr10	28905255	28905255	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgaaaatctcataaaacaCgttcaaggatggcctgcaga	9	8	2	2	rs141367539		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:28905255C>T	uc001iuf.2	+	12	1795	c.1710C>T	c.(1708-1710)CAC>CAT	p.H570H	WAC_uc001iud.2_Silent_p.H525H|WAC_uc001iue.2_Silent_p.H260H|WAC_uc001iug.2_Silent_p.H467H|WAC_uc001iuh.2_Silent_p.H521H	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	570					cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						TCATAAAACACGTTCAAGGAT	0.413													9	34	---	---	---	---	PASS	T	28905255	T	T	28905255	2	4	4	1	0	0	0	0	0	0	0	1	17244	535	19	1		1	WAC	10	28905255	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	26589	28905255	106629492	2000	2591										
SVIL	6840	broad.mit.edu	37	chr10	29779793	29779793	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cactcttttctactttcatcCgctttgactccatgaaggca	5	13	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:29779793C>A	uc001iut.1	-	22	4928	c.4175G>T	c.(4174-4176)CGG>CTG	p.R1392L	SVIL_uc010qdw.1_Missense_Mutation_p.R306L|SVIL_uc001iuu.1_Missense_Mutation_p.R966L|SVIL_uc009xlc.2_Missense_Mutation_p.R184L	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1392					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TACTTTCATCCGCTTTGACTC	0.473													5	42	---	---	---	---	PASS	A	29779793	A	A	29779793	3	1	4	1	0	0	0	0	1	0	0	0	15418	652	23	1	2537	1	SVIL	10	29779793	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	874538	29779793	105754954	2001	2592										
KIAA1462	57608	broad.mit.edu	37	chr10	30315231	30315231	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcaattcctcggcgtcctcCtgggagtcggcattcctgaa	10	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:30315231C>T	uc001iux.2	-	2	3905	c.3846G>A	c.(3844-3846)CAG>CAA	p.Q1282Q	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Silent_p.Q1144Q|KIAA1462_uc009xle.1_Silent_p.Q1282Q	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	1282										ovary(4)	4						CGGCGTCCTCCTGGGAGTCGG	0.637													12	19	---	---	---	---	PASS	T	30315231	T	T	30315231	2	4	4	1	0	0	0	0	0	0	0	1	8234	680	24	3		3	KIAA1462	10	30315231	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	535438	30315231	105219516	2002	2593										
KIAA1462	57608	broad.mit.edu	37	chr10	30317559	30317559	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggccactgttttccccatcCccggggggctggccccacag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:30317559C>T	uc001iux.2	-	2	1577	c.1518G>A	c.(1516-1518)GGG>GGA	p.G506G	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Silent_p.G368G|KIAA1462_uc009xle.1_Silent_p.G506G	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	506										ovary(4)	4						TTTCCCCATCCCCGGGGGGCT	0.642													21	38	---	---	---	---	PASS	T	30317559	T	T	30317559	2	4	4	1	0	0	0	0	0	0	0	1	8234	610	22	3		3	KIAA1462	10	30317559	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2328	30317559	105217188	2003	2594	95	2								
KIAA1462	57608	broad.mit.edu	37	chr10	30317560	30317560	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccactgttttccccatccCcggggggctggccccacagc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:30317560C>T	uc001iux.2	-	2	1576	c.1517G>A	c.(1516-1518)GGG>GAG	p.G506E	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.G368E|KIAA1462_uc009xle.1_Missense_Mutation_p.G506E	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	506										ovary(4)	4						TTCCCCATCCCCGGGGGGCTG	0.642													21	38	---	---	---	---	PASS	T	30317560	T	T	30317560	3	4	4	1	0	0	0	0	1	0	0	0	8234	623	22	3	2570	3	KIAA1462	10	30317560	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	30317560	105217187	2004	2595	95	2								
ZNF438	220929	broad.mit.edu	37	chr10	31137767	31137767	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtgtattcatgtggtctcGaaggtgctgtttgaactgga	14	5	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:31137767G>A	uc010qdz.1	-	7	2002	c.1567C>T	c.(1567-1569)CGA>TGA	p.R523*	ZNF438_uc001ivn.2_Nonsense_Mutation_p.R474*|ZNF438_uc010qdy.1_Nonsense_Mutation_p.R513*|ZNF438_uc001ivo.3_Nonsense_Mutation_p.R87*|ZNF438_uc009xlg.2_Nonsense_Mutation_p.R523*|ZNF438_uc001ivp.3_Nonsense_Mutation_p.R513*|ZNF438_uc010qea.1_Nonsense_Mutation_p.R523*|ZNF438_uc010qeb.1_Nonsense_Mutation_p.R523*|ZNF438_uc010qec.1_Nonsense_Mutation_p.R87*	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	523	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				ATGTGGTCTCGAAGGTGCTGT	0.498													63	81	---	---	---	---	PASS	A	31137767	A	A	31137767	4	1	4	1	0	0	0	0	0	1	0	0	17907	1066	37	2	927	2	ZNF438	10	31137767	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	820207	31137767	104396980	2005	2596										
ARHGAP12	94134	broad.mit.edu	37	chr10	32103268	32103268	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atccggtatctcctcttcaaTtccttcatcagtttctactg	4	13	6	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:32103268T>C	uc001ivz.1	-	14	2023	c.1753A>G	c.(1753-1755)ATT>GTT	p.I585V	ARHGAP12_uc001ivy.1_Missense_Mutation_p.I531V|ARHGAP12_uc009xls.2_Missense_Mutation_p.I536V|ARHGAP12_uc001iwb.1_Missense_Mutation_p.I578V|ARHGAP12_uc001iwc.1_Missense_Mutation_p.I553V|ARHGAP12_uc009xlq.1_Missense_Mutation_p.I506V|ARHGAP12_uc001iwd.1_Missense_Mutation_p.I553V|ARHGAP12_uc009xlr.1_Missense_Mutation_p.I583V	NM_018287	NP_060757	Q8IWW6	RHG12_HUMAN	Rho GTPase activating protein 12	585					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0		Prostate(175;0.0199)				TCCTCTTCAATTCCTTCATCA	0.363													48	60	---	---	---	---	PASS	C	32103268	C	C	32103268	3	2	4	1	0	0	0	0	1	0	0	0	865	1493	52	5	815	5	ARHGAP12	10	32103268	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	965501	32103268	103431479	2006	2597										
CCDC7	221016	broad.mit.edu	37	chr10	32856633	32856633	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcatcaacttaactatttCctaaatcaagagaagttact	4	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:32856633C>T	uc001iwj.2	+	16	1803	c.1233C>T	c.(1231-1233)TTC>TTT	p.F411F	CCDC7_uc001iwk.2_Silent_p.F411F|CCDC7_uc009xlv.2_RNA|C10orf68_uc001iwl.1_5'UTR|C10orf68_uc001iwm.1_5'UTR|C10orf68_uc001iwn.3_5'Flank	NM_145023	NP_659460	Q96M83	CCDC7_HUMAN	coiled-coil domain containing 7	411	Potential.										0		Breast(68;0.000207)|Prostate(175;0.0107)				TTAACTATTTCCTAAATCAAG	0.313													5	26	---	---	---	---	PASS	T	32856633	T	T	32856633	2	4	4	1	0	0	0	0	0	0	0	1	2842	854	30	2		2	CCDC7	10	32856633	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	753365	32856633	102678114	2007	2598										
NRP1	8829	broad.mit.edu	37	chr10	33559651	33559651	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatcctgcaccatgtgtttCgtagtcagagacaaatttga	8	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:33559651C>T	uc001iwx.3	-	3	905	c.382G>A	c.(382-384)GAA>AAA	p.E128K	NRP1_uc001iwv.3_Missense_Mutation_p.E128K|NRP1_uc009xlz.2_Missense_Mutation_p.E128K|NRP1_uc001iww.3_Intron|NRP1_uc001iwy.3_Missense_Mutation_p.E128K|NRP1_uc001iwz.2_Missense_Mutation_p.E128K|NRP1_uc001ixa.2_Missense_Mutation_p.E128K|NRP1_uc001ixb.1_Missense_Mutation_p.E128K|NRP1_uc001ixc.1_Missense_Mutation_p.E128K	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	128	CUB 1.|Extracellular (Potential).				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	CCATGTGTTTCGTAGTCAGAG	0.383													15	34	---	---	---	---	PASS	T	33559651	T	T	33559651	3	4	4	1	0	0	0	0	1	0	0	0	10660	893	31	2	2460	2	NRP1	10	33559651	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	703018	33559651	101975096	2008	2599										
PARD3	56288	broad.mit.edu	37	chr10	34759113	34759113	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccttgaaggctcttcagagGaaaaattactatcactgaca	7	9	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:34759113G>A	uc010qej.1	-	4	482	c.482C>T	c.(481-483)TCC>TTC	p.S161F	PARD3_uc010qek.1_Missense_Mutation_p.S161F|PARD3_uc010qel.1_Missense_Mutation_p.S161F|PARD3_uc010qem.1_Missense_Mutation_p.S161F|PARD3_uc010qen.1_Missense_Mutation_p.S161F|PARD3_uc010qeo.1_Missense_Mutation_p.S161F|PARD3_uc010qep.1_Missense_Mutation_p.S161F|PARD3_uc010qeq.1_Missense_Mutation_p.S161F|PARD3_uc001ixp.1_Missense_Mutation_p.S26F|PARD3_uc001ixq.1_Missense_Mutation_p.S161F|PARD3_uc001ixr.1_Missense_Mutation_p.S161F|PARD3_uc001ixt.1_Missense_Mutation_p.S26F|PARD3_uc001ixu.1_Missense_Mutation_p.S161F	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	161					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)				CTCTTCAGAGGAAAAATTACT	0.473													36	77	---	---	---	---	PASS	A	34759113	A	A	34759113	3	1	4	1	0	0	0	0	1	0	0	0	11443	1174	41	2	3711	2	PARD3	10	34759113	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1199462	34759113	100775634	2009	2600										
FZD8	8325	broad.mit.edu	37	chr10	35930016	35930016	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcggcgcgcagccggccttGgcgcgctcgcacaccgagcg	16	17	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:35930016G>A	uc001iyz.1	-	1	347	c.342C>T	c.(340-342)GCC>GCT	p.A114A		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	114	FZ.|Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						AGCCGGCCTTGGCGCGCTCGC	0.682													3	3	---	---	---	---	PASS	A	35930016	A	A	35930016	2	1	4	1	0	0	0	0	0	0	0	1	6136	1335	47	3		3	FZD8	10	35930016	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1170903	35930016	99604731	2010	2601										
ANKRD30A	91074	broad.mit.edu	37	chr10	37418828	37418828	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcactctcgtaggactgctCtacactgggcctgtgtcaat	9	13	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:37418828C>T	uc001iza.1	+	2	160	c.61C>T	c.(61-63)CTA>TTA	p.L21L		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	77	ANK 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						TAGGACTGCTCTACACTGGGC	0.453													7	25	---	---	---	---	PASS	T	37418828	T	T	37418828	2	4	4	1	0	0	0	0	0	0	0	1	658	912	32	2		2	ANKRD30A	10	37418828	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1488812	37418828	98115919	2011	2602										
ANKRD30A	91074	broad.mit.edu	37	chr10	37436363	37436363	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctatatatcaaaaagtaatGgagataaatagagaagtaga	8	2	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:37436363G>A	uc001iza.1	+	9	1452	c.1353G>A	c.(1351-1353)ATG>ATA	p.M451I		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	507						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AAAAAGTAATGGAGATAAATA	0.289													8	14	---	---	---	---	PASS	A	37436363	A	A	37436363	3	1	4	1	0	0	0	0	1	0	0	0	658	1348	47	3	1387	3	ANKRD30A	10	37436363	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	17535	37436363	98098384	2012	2603										
ZNF33B	7582	broad.mit.edu	37	chr10	43088170	43088170	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catagggcttttcccctgtaTgtgatctctgatgtttagca	9	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:43088170T>A	uc001jaf.1	-	5	2343	c.2228A>T	c.(2227-2229)CAT>CTT	p.H743L	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Missense_Mutation_p.H631L|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	743	C2H2-type 15.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTCCCCTGTATGTGATCTCTG	0.393													43	55	---	---	---	---	PASS	A	43088170	A	A	43088170	3	1	4	1	0	0	0	0	1	0	0	0	17852	1464	51	5	112	5	ZNF33B	10	43088170	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	5651807	43088170	92446577	2013	2604										
HNRNPF	3185	broad.mit.edu	37	chr10	43882454	43882454	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctttgtacggcaggcccctCatgtggacacagtggcctgt	13	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:43882454C>T	uc009xmh.1	-	3	1366	c.879G>A	c.(877-879)ATG>ATA	p.M293I	HNRNPF_uc001jar.2_Missense_Mutation_p.M293I|HNRNPF_uc001jas.2_Missense_Mutation_p.M293I|HNRNPF_uc001jat.2_Missense_Mutation_p.M293I|HNRNPF_uc001jav.2_Missense_Mutation_p.M293I|HNRNPF_uc001jau.2_Missense_Mutation_p.M293I|uc010qfa.1_Missense_Mutation_p.H46Y	NM_001098208	NP_001091678	P52597	HNRPF_HUMAN	heterogeneous nuclear ribonucleoprotein F	293	RRM 3.				regulation of RNA splicing	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding				0						GCAGGCCCCTCATGTGGACAC	0.532													7	18	---	---	---	---	PASS	T	43882454	T	T	43882454	3	4	4	1	0	0	0	0	1	0	0	0	7265	826	29	2	372	2	HNRNPF	10	43882454	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	794284	43882454	91652293	2014	2605										
MARCH8	220972	broad.mit.edu	37	chr10	45959739	45959739	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgcgagagaaggaggacaCcggagccggagctgatgctg	18	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:45959739C>T	uc001jci.1	-	4	429	c.190G>A	c.(190-192)GTG>ATG	p.V64M	MARCH8_uc001jch.2_Missense_Mutation_p.V64M|MARCH8_uc001jcj.1_Missense_Mutation_p.V64M|MARCH8_uc001jck.1_Missense_Mutation_p.V64M|MARCH8_uc001jcg.1_5'Flank	NM_001002266	NP_001002266	Q5T0T0	MARH8_HUMAN	cellular modulator of immune recognition isoform	64						cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding				0						AAGGAGGACACCGGAGCCGGA	0.557													18	50	---	---	---	---	PASS	T	45959739	T	T	45959739	3	4	4	1	0	0	0	0	1	0	0	0	9307	507	18	3	701	3	MARCH8	10	45959739	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2077285	45959739	89575008	2015	2606										
PPYR1	5540	broad.mit.edu	37	chr10	47086879	47086879	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accccatacaacttctctgaAcattgccaggattccgtgga	7	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:47086879A>T	uc001jee.2	+	3	515	c.96A>T	c.(94-96)GAA>GAT	p.E32D	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.E32D	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	32	Extracellular (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						ACTTCTCTGAACATTGCCAGG	0.527													10	111	---	---	---	---	PASS	T	47086879	T	T	47086879	3	4	4	1	0	0	0	0	1	0	0	0	12416	40	2	5	98	5	PPYR1	10	47086879	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	1127140	47086879	88447868	2016	2607										
PPYR1	5540	broad.mit.edu	37	chr10	47087301	47087301	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcctgtgtcctctccctgcCcttcctggccaacagcatcc	7	19	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:47087301C>T	uc001jee.2	+	3	937	c.518C>T	c.(517-519)CCC>CTC	p.P173L	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.P173L	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	173	Helical; Name=4; (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						CTCTCCCTGCCCTTCCTGGCC	0.567													14	111	---	---	---	---	PASS	T	47087301	T	T	47087301	3	4	4	1	0	0	0	0	1	0	0	0	12416	623	22	3	520	3	PPYR1	10	47087301	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	422	47087301	88447446	2017	2608										
PPYR1	5540	broad.mit.edu	37	chr10	47087788	47087788	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcaagaaggagatcaaggcCctggtgctgacttgccagca	12	10	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:47087788C>T	uc001jee.2	+	3	1424	c.1005C>T	c.(1003-1005)GCC>GCT	p.A335A	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Silent_p.A335A	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	335	Cytoplasmic (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						AGATCAAGGCCCTGGTGCTGA	0.552													14	92	---	---	---	---	PASS	T	47087788	T	T	47087788	2	4	4	1	0	0	0	0	0	0	0	1	12416	610	22	3		3	PPYR1	10	47087788	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	487	47087788	88446959	2018	2609										
ZNF488	118738	broad.mit.edu	37	chr10	48371416	48371416	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgacctggtctttcacatgcGatcccaccacaaaaaggagc	8	14	2	0	rs77048726		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:48371416G>A	uc001jex.2	+	2	1046	c.884G>A	c.(883-885)CGA>CAA	p.R295Q	ZNF488_uc001jey.2_Missense_Mutation_p.R188Q	NM_153034	NP_694579	Q96MN9	ZN488_HUMAN	zinc finger protein 488	295	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTTCACATGCGATCCCACCAC	0.602													13	58	---	---	---	---	PASS	A	48371416	A	A	48371416	3	1	4	1	0	0	0	0	1	0	0	0	17937	1058	37	2	886	2	ZNF488	10	48371416	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1283628	48371416	87163331	2019	2610										
RBP3	5949	broad.mit.edu	37	chr10	48390628	48390628	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagatgaccaggcgaggatCgttcagggagctctgcaccc	15	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:48390628C>T	uc001jez.2	-	1	364	c.250G>A	c.(250-252)GAT>AAT	p.D84N		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	84	4 X approximate tandem repeats.|1.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	AGGCGAGGATCGTTCAGGGAG	0.617													15	31	---	---	---	---	PASS	T	48390628	T	T	48390628	3	4	4	1	0	0	0	0	1	0	0	0	13157	884	31	2	3509	2	RBP3	10	48390628	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	19212	48390628	87144119	2020	2611										
GDF2	2658	broad.mit.edu	37	chr10	48414135	48414135	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggtttctggaacctggggGgacactgatgtccagcgtgt	15	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:48414135G>A	uc001jfa.1	-	2	896	c.733C>T	c.(733-735)CCC>TCC	p.P245S		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	245					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						GAACCTGGGGGGACACTGATG	0.572													8	28	---	---	---	---	PASS	A	48414135	A	A	48414135	3	1	4	1	0	0	0	0	1	0	0	0	6314	1232	43	3	560	3	GDF2	10	48414135	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	23507	48414135	87120612	2021	2612										
FRMPD2	143162	broad.mit.edu	37	chr10	49392620	49392620	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaacataccttttgactgaGaaataattaattctatgttg	5	5	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:49392620G>A	uc001jgi.2	-	20	2680	c.2573C>T	c.(2572-2574)TCT>TTT	p.S858F	FRMPD2_uc001jgh.2_Missense_Mutation_p.S826F|FRMPD2_uc001jgj.2_Missense_Mutation_p.S836F	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	858	PDZ 1.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		TTTTGACTGAGAAATAATTAA	0.428													12	24	---	---	---	---	PASS	A	49392620	A	A	49392620	3	1	4	1	0	0	0	0	1	0	0	0	6058	942	33	2	1396	2	FRMPD2	10	49392620	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	978485	49392620	86142127	2022	2613										
C10orf72	196740	broad.mit.edu	37	chr10	50315891	50315891	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcaaggcctcctgggagtCgaaggagtgtgcaaagaacc	13	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:50315891C>T	uc001jhf.2	-	2	234	c.205G>A	c.(205-207)GAC>AAC	p.D69N	C10orf72_uc001jhh.2_Missense_Mutation_p.D69N	NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	69	Ig-like.|Extracellular (Potential).					integral to membrane|plasma membrane					0						TCCTGGGAGTCGAAGGAGTGT	0.607													13	18	---	---	---	---	PASS	T	50315891	T	T	50315891	3	4	4	1	0	0	0	0	1	0	0	0	1615	884	31	2	908	2	C10orf72	10	50315891	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	923271	50315891	85218856	2023	2614										
OGDHL	55753	broad.mit.edu	37	chr10	50954808	50954808	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgctcacctggttgttgacGacgacgtgcacggtaccatt	11	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:50954808G>A	uc001jie.2	-	10	1426	c.1284C>T	c.(1282-1284)GTC>GTT	p.V428V	OGDHL_uc009xog.2_Silent_p.V455V|OGDHL_uc010qgt.1_Silent_p.V371V|OGDHL_uc010qgu.1_Silent_p.V219V|OGDHL_uc009xoh.2_Silent_p.V219V	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	428					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						GGTTGTTGACGACGACGTGCA	0.587													11	21	---	---	---	---	PASS	A	50954808	A	A	50954808	2	1	4	1	0	0	0	0	0	0	0	1	10840	1045	37	2		2	OGDHL	10	50954808	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	638917	50954808	84579939	2024	2615										
MBL2	4153	broad.mit.edu	37	chr10	54528129	54528129	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgatgagattctgaatggctCcattctctgcagcattcctg	9	10	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:54528129C>T	uc001jjt.2	-	4	580	c.515G>A	c.(514-516)GGA>GAA	p.G172E		NM_000242	NP_000233	P11226	MBL2_HUMAN	soluble mannose-binding lectin precursor	172	C-type lectin.				acute-phase response|complement activation, classical pathway|complement activation, lectin pathway|defense response to Gram-positive bacterium|negative regulation of growth of symbiont in host|opsonization|response to oxidative stress	collagen|extracellular space	bacterial cell surface binding|calcium-dependent protein binding|eukaryotic cell surface binding|mannose binding|receptor binding			ovary(1)	1						CTGAATGGCTCCATTCTCTGC	0.488													37	137	---	---	---	---	PASS	T	54528129	T	T	54528129	3	4	4	1	0	0	0	0	1	0	0	0	9350	855	30	2	235	2	MBL2	10	54528129	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3573321	54528129	81006618	2025	2616										
PCDH15	65217	broad.mit.edu	37	chr10	55569161	55569161	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctaatcctctaactttcttaAaaatcatggggaatattctg	5	8	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:55569161A>G	uc010qhs.1	-	37	5059	c.4664T>C	c.(4663-4665)TTT>TCT	p.F1555S	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qht.1_Missense_Mutation_p.F1548S|PCDH15_uc010qhu.1_3'UTR	NM_001142769	NP_001136241	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AACTTTCTTAAAAATCATGGG	0.413										HNSCC(58;0.16)			28	66	---	---	---	---	PASS	G	55569161	G	G	55569161	3	3	4	1	0	0	0	0	1	0	0	0	11511	14	1	5	1267	5	PCDH15	10	55569161	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	1041032	55569161	79965586	2026	2617										
PCDH15	65217	broad.mit.edu	37	chr10	56423959	56423959	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atactggcccaagcagatttCaaagagagagcccaggatga	11	9	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:56423959C>T	uc001jju.1	-	2	459	c.64G>A	c.(64-66)GAA>AAA	p.E22K	PCDH15_uc010qhq.1_Missense_Mutation_p.E22K|PCDH15_uc010qhr.1_Missense_Mutation_p.E22K|PCDH15_uc010qhs.1_Missense_Mutation_p.E22K|PCDH15_uc010qht.1_Missense_Mutation_p.E22K|PCDH15_uc010qhu.1_Missense_Mutation_p.E22K|PCDH15_uc001jjv.1_Missense_Mutation_p.E22K|PCDH15_uc010qhv.1_Missense_Mutation_p.E22K|PCDH15_uc010qhw.1_Missense_Mutation_p.E22K|PCDH15_uc010qhx.1_Missense_Mutation_p.E22K|PCDH15_uc010qhy.1_Missense_Mutation_p.E22K|PCDH15_uc010qhz.1_Missense_Mutation_p.E22K|PCDH15_uc010qia.1_Missense_Mutation_p.E22K|PCDH15_uc010qib.1_Missense_Mutation_p.E22K|PCDH15_uc001jjw.2_Missense_Mutation_p.E22K	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	22					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AAGCAGATTTCAAAGAGAGAG	0.393										HNSCC(58;0.16)			12	25	---	---	---	---	PASS	T	56423959	T	T	56423959	3	4	4	1	0	0	0	0	1	0	0	0	11511	835	29	2	7594	2	PCDH15	10	56423959	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	854798	56423959	79110788	2027	2618										
ANK3	288	broad.mit.edu	37	chr10	61834736	61834736	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggtgatcctttattatctAcacatacatcctttttaagg	6	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:61834736A>C	uc001jky.2	-	37	6095	c.5903T>G	c.(5902-5904)GTA>GGA	p.V1968G	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1968					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTTATTATCTACACATACATC	0.373													10	28	---	---	---	---	PASS	C	61834736	C	C	61834736	3	2	4	1	0	0	0	0	1	0	0	0	622	391	14	5	7571	5	ANK3	10	61834736	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	5410777	61834736	73700011	2028	2619										
EGR2	1959	broad.mit.edu	37	chr10	64573279	64573279	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaagttgcgcatgcagatCcgacactggaagggcttatg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:64573279C>T	uc010qim.1	-	3	1273	c.1119G>A	c.(1117-1119)CGG>CGA	p.R373R	EGR2_uc010qin.1_Silent_p.R323R|EGR2_uc001jmi.2_Silent_p.R373R|EGR2_uc010qio.1_Silent_p.R386R|EGR2_uc009xph.2_Silent_p.R373R	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	373	C2H2-type 2.				fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GCATGCAGATCCGACACTGGA	0.617													17	72	---	---	---	---	PASS	T	64573279	T	T	64573279	2	4	4	1	0	0	0	0	0	0	0	1	4972	842	30	2		2	EGR2	10	64573279	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2738543	64573279	70961468	2029	2620	96	2								
EGR2	1959	broad.mit.edu	37	chr10	64573280	64573280	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaagttgcgcatgcagatcCgacactggaagggcttatgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:64573280C>T	uc010qim.1	-	3	1272	c.1118G>A	c.(1117-1119)CGG>CAG	p.R373Q	EGR2_uc010qin.1_Missense_Mutation_p.R323Q|EGR2_uc001jmi.2_Missense_Mutation_p.R373Q|EGR2_uc010qio.1_Missense_Mutation_p.R386Q|EGR2_uc009xph.2_Missense_Mutation_p.R373Q	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	373	C2H2-type 2.				fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					CATGCAGATCCGACACTGGAA	0.617													17	72	---	---	---	---	PASS	T	64573280	T	T	64573280	3	4	4	1	0	0	0	0	1	0	0	0	4972	652	23	1	316	1	EGR2	10	64573280	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	64573280	70961467	2030	2621	96	2								
EGR2	1959	broad.mit.edu	37	chr10	64573955	64573955	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatggtgcacacacccaggGgtcctgtggccagtgggttg	15	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:64573955G>A	uc010qim.1	-	3	597	c.443C>T	c.(442-444)CCC>CTC	p.P148L	EGR2_uc010qin.1_Missense_Mutation_p.P98L|EGR2_uc001jmi.2_Missense_Mutation_p.P148L|EGR2_uc010qio.1_Missense_Mutation_p.P161L|EGR2_uc009xph.2_Missense_Mutation_p.P148L	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	148					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					CACACCCAGGGGTCCTGTGGC	0.617													7	28	---	---	---	---	PASS	A	64573955	A	A	64573955	3	1	4	1	0	0	0	0	1	0	0	0	4972	1232	43	3	991	3	EGR2	10	64573955	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	675	64573955	70960792	2031	2622										
CTNNA3	29119	broad.mit.edu	37	chr10	68979601	68979601	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctcgggctcctgcaatttCatctctctgatttggagatt	9	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:68979601C>T	uc009xpn.1	-	6	730	c.607G>A	c.(607-609)GAA>AAA	p.E203K	CTNNA3_uc001jmw.2_Missense_Mutation_p.E203K|CTNNA3_uc001jmx.3_Missense_Mutation_p.E203K|CTNNA3_uc009xpo.1_Missense_Mutation_p.E63K|CTNNA3_uc001jna.2_Missense_Mutation_p.E215K	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	203					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						CCTGCAATTTCATCTCTCTGA	0.398													11	35	---	---	---	---	PASS	T	68979601	T	T	68979601	3	4	4	1	0	0	0	0	1	0	0	0	4014	835	29	2	2132	2	CTNNA3	10	68979601	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4405646	68979601	66555146	2032	2623										
DNAJC12	56521	broad.mit.edu	37	chr10	69583138	69583138	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgactttaaattctgccaGgatttgttcaacctgaaaca	6	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:69583138G>A	uc001jnb.2	-	2	259	c.91C>T	c.(91-93)CTG>TTG	p.L31L	DNAJC12_uc001jnc.2_Silent_p.L31L	NM_021800	NP_068572	Q9UKB3	DJC12_HUMAN	J domain containing protein 1 isoform a	31	J.				protein folding		heat shock protein binding|unfolded protein binding			breast(1)	1						AATTCTGCCAGGATTTGTTCA	0.274													15	33	---	---	---	---	PASS	A	69583138	A	A	69583138	2	1	4	1	0	0	0	0	0	0	0	1	4631	991	35	3		3	DNAJC12	10	69583138	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	603537	69583138	65951609	2033	2624										
CCAR1	55749	broad.mit.edu	37	chr10	70507168	70507168	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccattactgaagactcctcCtgctgtacttcagccaattg	7	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:70507168C>T	uc001joo.2	+	8	790	c.671C>T	c.(670-672)CCT>CTT	p.P224L	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Missense_Mutation_p.P29L|CCAR1_uc009xpx.1_Missense_Mutation_p.P198L|CCAR1_uc001jon.1_Missense_Mutation_p.P170L|CCAR1_uc010qiz.1_Missense_Mutation_p.P209L|CCAR1_uc010qja.1_Missense_Mutation_p.P209L|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	224					apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						AAGACTCCTCCTGCTGTACTT	0.418													28	55	---	---	---	---	PASS	T	70507168	T	T	70507168	3	4	4	1	0	0	0	0	1	0	0	0	2730	681	24	3	697	3	CCAR1	10	70507168	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	924030	70507168	65027579	2034	2625										
VPS26A	9559	broad.mit.edu	37	chr10	70917876	70917876	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgatcttattgttcaccagCttgccacctatcctgatgtt	6	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:70917876C>T	uc001jpb.2	+	5	586	c.460C>T	c.(460-462)CTT>TTT	p.L154F	VPS26A_uc001jpc.2_Missense_Mutation_p.L154F|VPS26A_uc009xqa.2_Missense_Mutation_p.L147F|VPS26A_uc001jpd.2_Missense_Mutation_p.L43F	NM_004896	NP_004887	O75436	VP26A_HUMAN	vacuolar protein sorting 26 A isoform 1	154					retrograde transport, endosome to Golgi|vacuolar transport	cytosol|endosome membrane|retromer complex|vesicle	protein binding|protein transporter activity				0						TGTTCACCAGCTTGCCACCTA	0.328													10	42	---	---	---	---	PASS	T	70917876	T	T	70917876	3	4	4	1	0	0	0	0	1	0	0	0	17194	797	28	3	478	3	VPS26A	10	70917876	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	410708	70917876	64616871	2035	2626										
H2AFY2	55506	broad.mit.edu	37	chr10	71860028	71860028	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtaaaggagcttcgcaaatcCcaaggccctttggaagtcgc	11	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:71860028C>T	uc001jqm.2	+	7	1212	c.753C>T	c.(751-753)TCC>TCT	p.S251S	H2AFY2_uc001jqn.2_RNA|AIFM2_uc010qjg.1_Intron	NM_018649	NP_061119	Q9P0M6	H2AW_HUMAN	H2A histone family, member Y2	251	Macro.				chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding			skin(1)	1						TTCGCAAATCCCAAGGCCCTT	0.547													8	10	---	---	---	---	PASS	T	71860028	T	T	71860028	2	4	4	1	0	0	0	0	0	0	0	1	6930	610	22	3		3	H2AFY2	10	71860028	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	942152	71860028	63674719	2036	2627										
AIFM2	84883	broad.mit.edu	37	chr10	71877624	71877624	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttcacttcctgccggacgGagggcaggagctccttgtca	12	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:71877624G>A	uc010qjg.1	-	5	573	c.560C>T	c.(559-561)TCC>TTC	p.S187F	AIFM2_uc001jqp.1_Missense_Mutation_p.S187F	NM_032797	NP_116186	Q9BRQ8	AIFM2_HUMAN	apoptosis-inducing factor (AIF)-like	187					apoptotic mitochondrial changes|chromosome condensation|induction of apoptosis	cytosol|integral to membrane|mitochondrial outer membrane	DNA binding|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding			central_nervous_system(1)	1						CTGCCGGACGGAGGGCAGGAG	0.632													10	28	---	---	---	---	PASS	A	71877624	A	A	71877624	3	1	4	1	0	0	0	0	1	0	0	0	427	1174	41	2	577	2	AIFM2	10	71877624	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	17596	71877624	63657123	2037	2628										
PRF1	5551	broad.mit.edu	37	chr10	72358637	72358637	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtgcttcttcttcttctcCtcacaggccttggcttcggc	8	14	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:72358637C>T	uc009xqg.2	-	3	1001	c.840G>A	c.(838-840)GAG>GAA	p.E280E	PRF1_uc001jrf.3_Silent_p.E280E	NM_001083116	NP_001076585	P14222	PERF_HUMAN	perforin 1 precursor	280	MACPF.				apoptosis|cellular defense response|cytolysis|defense response to tumor cell|defense response to virus|immune response to tumor cell|protein homooligomerization	cytolytic granule|endosome lumen|extracellular region|integral to membrane|plasma membrane	calcium ion binding|protein binding|wide pore channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						TCTTCTTCTCCTCACAGGCCT	0.592			M			various leukaemia|lymphoma	Type 2 familial hemophagocytic lymphohistiocytosis		Familial_Hemophagocytic_Lymphohistiocytosis				11	32	---	---	---	---	PASS	T	72358637	T	T	72358637	2	4	4	1	0	0	0	0	0	0	0	1	12478	680	24	3		3	PRF1	10	72358637	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	481013	72358637	63176110	2038	2629										
CDH23	64072	broad.mit.edu	37	chr10	73567419	73567419	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacctccccgtggaccctccCcaaccctcgacctggttgct	7	21	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:73567419C>T	uc001jrx.3	+	57	8832	c.8455C>T	c.(8455-8457)CCA>TCA	p.P2819S	CDH23_uc001jsg.3_Missense_Mutation_p.P579S|CDH23_uc001jsh.3_Missense_Mutation_p.P579S|CDH23_uc001jsi.3_Missense_Mutation_p.P579S	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	2819	Cadherin 26.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						TGGACCCTCCCCAACCCTCGA	0.622													9	18	---	---	---	---	PASS	T	73567419	T	T	73567419	3	4	4	1	0	0	0	0	1	0	0	0	3108	623	22	3	9030	3	CDH23	10	73567419	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1208782	73567419	61967328	2039	2630										
CCDC109A	90550	broad.mit.edu	37	chr10	74628517	74628517	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtaaagacattggtccagCaactatacaccacactgtgc	7	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:74628517C>A	uc001jtc.2	+	5	574	c.553C>A	c.(553-555)CAA>AAA	p.Q185K	CCDC109A_uc009xqp.1_RNA|CCDC109A_uc009xqq.1_RNA|CCDC109A_uc010qjy.1_RNA|CCDC109A_uc009xqr.2_Intron|CCDC109A_uc001jtd.2_Missense_Mutation_p.Q136K	NM_138357	NP_612366	Q8NE86	MCU_HUMAN	coiled-coil domain containing 109A	185	Mitochondrial matrix (Potential).				elevation of mitochondrial calcium ion concentration|mitochondrial calcium ion transport|protein complex oligomerization	integral to membrane|mitochondrial inner membrane	protein binding				0	Prostate(51;0.0198)					ATTGGTCCAGCAACTATACAC	0.403													4	69	---	---	---	---	PASS	A	74628517	A	A	74628517	3	1	4	1	0	0	0	0	1	0	0	0	2744	711	25	3	571	3	CCDC109A	10	74628517	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1061098	74628517	60906230	2040	2631										
CCDC109A	90550	broad.mit.edu	37	chr10	74631134	74631134	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgattatgtgtgcccaataGgtacgaattgagattagcag	11	5	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:74631134G>A	uc001jtc.2	+	6	679	c.658_splice	c.e6-1	p.V220_splice	CCDC109A_uc009xqp.1_Splice_Site|CCDC109A_uc009xqq.1_Splice_Site|CCDC109A_uc010qjy.1_Splice_Site|CCDC109A_uc009xqr.2_Splice_Site_p.V199_splice|CCDC109A_uc001jtd.2_Splice_Site_p.V171_splice	NM_138357	NP_612366	Q8NE86	MCU_HUMAN	coiled-coil domain containing 109A						elevation of mitochondrial calcium ion concentration|mitochondrial calcium ion transport|protein complex oligomerization	integral to membrane|mitochondrial inner membrane	protein binding				0	Prostate(51;0.0198)					GTGCCCAATAGGTACGAATTG	0.433													40	145	---	---	---	---	PASS	A	74631134	A	A	74631134	5	1	4	1	0	0	0	0	0	0	1	0	2744	1014	35	3	679	3	CCDC109A	10	74631134	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	2617	74631134	60903613	2041	2632										
P4HA1	5033	broad.mit.edu	37	chr10	74790090	74790090	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgtattctcatattaattCgagacaccacaggattttca	5	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:74790090C>T	uc010qka.1	-	11	1521	c.1187G>A	c.(1186-1188)CGA>CAA	p.R396Q	P4HA1_uc001jtg.2_Missense_Mutation_p.R396Q|P4HA1_uc001jth.2_Missense_Mutation_p.R396Q|P4HA1_uc010qkb.1_Missense_Mutation_p.R396Q|P4HA1_uc001jti.2_RNA	NM_001142595	NP_001136067	P13674	P4HA1_HUMAN	prolyl 4-hydroxylase, alpha I subunit isoform 2	396						endoplasmic reticulum lumen|mitochondrion	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			ovary(1)	1	Prostate(51;0.0198)				Hydralazine(DB01275)|L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	CATATTAATTCGAGACACCAC	0.353													9	18	---	---	---	---	PASS	T	74790090	T	T	74790090	3	4	4	1	0	0	0	0	1	0	0	0	11356	884	31	2	441	2	P4HA1	10	74790090	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	158956	74790090	60744657	2042	2633										
ANXA7	310	broad.mit.edu	37	chr10	75157985	75157985	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctgtggggcaccaggataGcctccaggggctggataacc	16	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:75157985G>A	uc001jtz.2	-	3	286	c.213C>T	c.(211-213)GGC>GGT	p.G71G	ANXA7_uc001jua.2_Silent_p.G71G|ANXA7_uc001jub.2_Silent_p.G31G|ANXA7_uc010qki.1_Silent_p.G31G|ANXA7_uc009xre.2_Intron|ANXA7_uc009xrf.1_Splice_Site_p.G71_splice	NM_004034	NP_004025	P20073	ANXA7_HUMAN	annexin VII isoform 2	71	Repeat-rich region.						calcium ion binding|calcium-dependent phospholipid binding|calcium-dependent protein binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					CACCAGGATAGCCTCCAGGGG	0.577													4	19	---	---	---	---	PASS	A	75157985	A	A	75157985	2	1	4	1	0	0	0	0	0	0	0	1	723	958	34	3		3	ANXA7	10	75157985	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	367895	75157985	60376762	2043	2634										
PPP3CB	5532	broad.mit.edu	37	chr10	75239120	75239120	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catggttttctctctccgaaGgatggcagcaccctcattga	9	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:75239120G>A	uc001jue.2	-	2	376	c.241C>T	c.(241-243)CTT>TTT	p.L81F	PPP3CB_uc001juf.2_Missense_Mutation_p.L81F|PPP3CB_uc001jug.2_Missense_Mutation_p.L81F|PPP3CB_uc001jui.2_Missense_Mutation_p.L81F|PPP3CB_uc001juh.2_5'UTR	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	81	Catalytic.									skin(1)	1	Prostate(51;0.0119)					TCTCTCCGAAGGATGGCAGCA	0.393													31	94	---	---	---	---	PASS	A	75239120	A	A	75239120	3	1	4	1	0	0	0	0	1	0	0	0	12398	1000	35	3	1388	3	PPP3CB	10	75239120	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	81135	75239120	60295627	2044	2635										
KIAA0913	23053	broad.mit.edu	37	chr10	75557002	75557002	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggacggggatgggggtccCcaggacggcctaagaagaag	18	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:75557002C>T	uc009xrl.2	+	17	3423	c.3391C>T	c.(3391-3393)CCA>TCA	p.P1131S	KIAA0913_uc001jve.2_Missense_Mutation_p.P1136S|KIAA0913_uc001jvf.2_Missense_Mutation_p.P1131S|KIAA0913_uc001jvh.2_RNA|KIAA0913_uc001jvi.2_Missense_Mutation_p.P566S|KIAA0913_uc010qkr.1_Missense_Mutation_p.P554S|KIAA0913_uc001jvj.2_Missense_Mutation_p.P554S|KIAA0913_uc009xrn.1_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	1131							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					ATGGGGGTCCCCAGGACGGCC	0.557													10	13	---	---	---	---	PASS	T	75557002	T	T	75557002	3	4	4	1	0	0	0	0	1	0	0	0	8200	623	22	3	3472	3	KIAA0913	10	75557002	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	317882	75557002	59977745	2045	2636										
KIAA0913	23053	broad.mit.edu	37	chr10	75557617	75557617	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagctgcacacttctacttCgagctggcgaagacagtgct	11	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:75557617C>T	uc009xrl.2	+	19	3758	c.3726C>T	c.(3724-3726)TTC>TTT	p.F1242F	KIAA0913_uc001jve.2_Silent_p.F1247F|KIAA0913_uc001jvf.2_Silent_p.F1242F|KIAA0913_uc001jvh.2_Intron|KIAA0913_uc001jvi.2_Silent_p.F677F|KIAA0913_uc010qkr.1_Silent_p.F665F|KIAA0913_uc001jvj.2_Silent_p.F665F|KIAA0913_uc009xrn.1_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	1242							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					ACTTCTACTTCGAGCTGGCGA	0.597													16	32	---	---	---	---	PASS	T	75557617	T	T	75557617	2	4	4	1	0	0	0	0	0	0	0	1	8200	883	31	2		2	KIAA0913	10	75557617	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	615	75557617	59977130	2046	2637										
MYST4	23522	broad.mit.edu	37	chr10	76781946	76781946	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaaatattcaaagctctcCcccaagattgacgaaaccac	5	12	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:76781946C>T	uc001jwn.1	+	16	3822	c.3329C>T	c.(3328-3330)CCC>CTC	p.P1110L	MYST4_uc001jwm.1_Missense_Mutation_p.P818L|MYST4_uc001jwo.1_Missense_Mutation_p.P818L|MYST4_uc001jwp.1_Missense_Mutation_p.P927L	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1110					histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					CAAAGCTCTCCCCCAAGATTG	0.224			T	CREBBP	AML						OREG0020273	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	40	---	---	---	---	PASS	T	76781946	T	T	76781946	3	4	4	1	0	0	0	0	1	0	0	0	10105	623	22	3	3383	3	MYST4	10	76781946	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1224329	76781946	58752801	2047	2638										
DLG5	9231	broad.mit.edu	37	chr10	79566528	79566528	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acacttacacatatttgctgGgaatctgcccgcgctggatc	9	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:79566528G>A	uc001jzk.2	-	26	5025	c.4955C>T	c.(4954-4956)CCC>CTC	p.P1652L	DLG5_uc001jzi.2_Missense_Mutation_p.P407L|DLG5_uc001jzj.2_Missense_Mutation_p.P1067L|DLG5_uc009xru.1_RNA	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1652	SH3.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			ATATTTGCTGGGAATCTGCCC	0.642													19	44	---	---	---	---	PASS	A	79566528	A	A	79566528	3	1	4	1	0	0	0	0	1	0	0	0	4558	1232	43	3	832	3	DLG5	10	79566528	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2784582	79566528	55968219	2048	2639										
POLR3A	11128	broad.mit.edu	37	chr10	79745903	79745903	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctcagagacccccttaatGaatttttttatttcctgaaa	4	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:79745903G>A	uc001jzn.2	-	22	3010	c.2916C>T	c.(2914-2916)TTC>TTT	p.F972F		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	972					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			CCCCCTTAATGAATTTTTTTA	0.358													13	27	---	---	---	---	PASS	A	79745903	A	A	79745903	2	1	4	1	0	0	0	0	0	0	0	1	12228	1281	45	2		2	POLR3A	10	79745903	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	179375	79745903	55788844	2049	2640										
MAT1A	4143	broad.mit.edu	37	chr10	82040000	82040000	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctgccatccgggcgttgaGcttgtgagcaaggatgatgg	16	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:82040000G>A	uc001kbw.2	-	5	733	c.478C>T	c.(478-480)CTC>TTC	p.L160F		NM_000429	NP_000420	Q00266	METK1_HUMAN	methionine adenosyltransferase I, alpha	160					methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0			Colorectal(32;0.229)		L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	CGGGCGTTGAGCTTGTGAGCA	0.622													23	37	---	---	---	---	PASS	A	82040000	A	A	82040000	3	1	4	1	0	0	0	0	1	0	0	0	9329	971	34	3	729	3	MAT1A	10	82040000	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2294097	82040000	53494747	2050	2641										
CDHR1	92211	broad.mit.edu	37	chr10	85968083	85968083	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatgaatgagcacccacccCagggagagatcctgcggggc	13	14	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:85968083C>T	uc001kcv.2	+	11	1117	c.1117C>T	c.(1117-1119)CAG>TAG	p.Q373*	CDHR1_uc001kcw.2_Nonsense_Mutation_p.Q373*|CDHR1_uc009xst.2_Nonsense_Mutation_p.Q132*	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	373	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						GCACCCACCCCAGGGAGAGAT	0.567													12	21	---	---	---	---	PASS	T	85968083	T	T	85968083	4	4	4	1	0	0	0	0	0	1	0	0	3118	595	21	3	1159	3	CDHR1	10	85968083	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3928083	85968083	49566664	2051	2642										
LRIT1	26103	broad.mit.edu	37	chr10	85991971	85991971	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acactgatcaccaccacattGataagctgctgagtgttctc	7	12	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:85991971G>A	uc001kcz.1	-	4	1606	c.1584C>T	c.(1582-1584)ATC>ATT	p.I528I		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	528	Helical; (Potential).					integral to endoplasmic reticulum membrane					0						CCACCACATTGATAAGCTGCT	0.547													6	18	---	---	---	---	PASS	A	85991971	A	A	85991971	2	1	4	1	0	0	0	0	0	0	0	1	8947	1280	45	2		2	LRIT1	10	85991971	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	23888	85991971	49542776	2052	2643										
RGR	5995	broad.mit.edu	37	chr10	86012761	86012761	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accctggactactccaagggGgacaggtgaggtgggaggag	18	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:86012761G>A	uc001kdc.1	+	4	545	c.507G>A	c.(505-507)GGG>GGA	p.G169G	RGR_uc001kdd.1_Silent_p.G173G|RGR_uc001kde.1_Silent_p.G169G	NM_001012720	NP_001012738	P47804	RGR_HUMAN	retinal G-protein coupled receptor isoform 2	169	Extracellular (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity|protein binding			ovary(1)	1						ACTCCAAGGGGGACAGGTGAG	0.577													6	25	---	---	---	---	PASS	A	86012761	A	A	86012761	2	1	4	1	0	0	0	0	0	0	0	1	13291	1219	43	3		3	RGR	10	86012761	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	20790	86012761	49521986	2053	2644										
FAM190B	54462	broad.mit.edu	37	chr10	86198290	86198290	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctctccctatagagaatctCctttgggtcattttgaaagc	8	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:86198290C>T	uc001kdh.1	+	6	2085	c.1891C>T	c.(1891-1893)CCT>TCT	p.P631S	FAM190B_uc010qmd.1_Missense_Mutation_p.P631S|FAM190B_uc001kdi.1_Intron|FAM190B_uc010qme.1_Missense_Mutation_p.P58S	NM_018999	NP_061872	Q9H7U1	F190B_HUMAN	granule cell antiserum positive 14	631										ovary(3)|skin(1)	4						TAGAGAATCTCCTTTGGGTCA	0.393													36	45	---	---	---	---	PASS	T	86198290	T	T	86198290	3	4	4	1	0	0	0	0	1	0	0	0	5522	855	30	2	1909	2	FAM190B	10	86198290	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	185529	86198290	49336457	2054	2645										
GRID1	2894	broad.mit.edu	37	chr10	87373363	87373363	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgcggccaccacttctgcTtcagcacatccaggtcccct	8	17	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:87373363T>C	uc001kdl.1	-	15	2503	c.2402A>G	c.(2401-2403)AAG>AGG	p.K801R	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.K372R	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	801	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CCACTTCTGCTTCAGCACATC	0.617										Multiple Myeloma(13;0.14)			23	21	---	---	---	---	PASS	C	87373363	C	C	87373363	3	2	4	1	0	0	0	0	1	0	0	0	6771	1609	56	5	635	5	GRID1	10	87373363	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1175073	87373363	48161384	2055	2646										
GRID1	2894	broad.mit.edu	37	chr10	87628904	87628904	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catccttccaagggcactatGgaccagatccaggatctccg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:87628904G>A	uc001kdl.1	-	6	915	c.814C>T	c.(814-816)CAT>TAT	p.H272Y	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	272	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	AGGGCACTATGGACCAGATCC	0.507										Multiple Myeloma(13;0.14)			28	44	---	---	---	---	PASS	A	87628904	A	A	87628904	3	1	4	1	0	0	0	0	1	0	0	0	6771	1348	47	3	2259	3	GRID1	10	87628904	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	255541	87628904	47905843	2056	2647	97	2								
GRID1	2894	broad.mit.edu	37	chr10	87628913	87628913	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagggcactatggaccagatCcaggatctccgggtcactga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:87628913C>T	uc001kdl.1	-	6	906	c.805G>A	c.(805-807)GAT>AAT	p.D269N	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	269	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	TGGACCAGATCCAGGATCTCC	0.498										Multiple Myeloma(13;0.14)			19	52	---	---	---	---	PASS	T	87628913	T	T	87628913	3	4	4	1	0	0	0	0	1	0	0	0	6771	855	30	2	2268	2	GRID1	10	87628913	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	9	87628913	47905834	2057	2648	97	2								
GRID1	2894	broad.mit.edu	37	chr10	88123702	88123702	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacagcggtcactcaccttcCtgcacagcctggaatgggtt	10	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:88123702C>T	uc001kdl.1	-	2	332	c.231G>A	c.(229-231)CAG>CAA	p.Q77Q	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	77	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	ACTCACCTTCCTGCACAGCCT	0.637										Multiple Myeloma(13;0.14)			17	37	---	---	---	---	PASS	T	88123702	T	T	88123702	2	4	4	1	0	0	0	0	0	0	0	1	6771	680	24	3		3	GRID1	10	88123702	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	494789	88123702	47411045	2058	2649										
LDB3	11155	broad.mit.edu	37	chr10	88441531	88441531	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taccagatgagcctccgaggGaaggcctcgggtgtcggact	15	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:88441531G>A	uc001kdv.2	+	4	683	c.660G>A	c.(658-660)GGG>GGA	p.G220G	LDB3_uc010qml.1_Silent_p.G220G|LDB3_uc010qmm.1_Silent_p.G220G|LDB3_uc001kdu.2_Intron|LDB3_uc009xsz.2_Intron|LDB3_uc001kdr.2_Intron|LDB3_uc009xsy.2_Silent_p.G220G|LDB3_uc001kds.2_Silent_p.G220G|LDB3_uc001kdt.2_RNA	NM_007078	NP_009009	O75112	LDB3_HUMAN	LIM domain binding 3 isoform 1	220						cytoskeleton|perinuclear region of cytoplasm|pseudopodium	zinc ion binding			ovary(1)	1						GCCTCCGAGGGAAGGCCTCGG	0.627													25	36	---	---	---	---	PASS	A	88441531	A	A	88441531	2	1	4	1	0	0	0	0	0	0	0	1	8697	1161	41	2		2	LDB3	10	88441531	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	317829	88441531	47093216	2059	2650										
ATAD1	84896	broad.mit.edu	37	chr10	89516631	89516631	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttaggtcacttcctgaaaAcccatcagtttcctgggcaa	7	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:89516631A>G	uc001key.1	-	8	1163	c.880T>C	c.(880-882)TTT>CTT	p.F294L	ATAD1_uc010qmr.1_Missense_Mutation_p.F206L|ATAD1_uc009xth.1_RNA|ATAD1_uc001kez.1_Missense_Mutation_p.F294L	NM_032810	NP_116199	Q8NBU5	ATAD1_HUMAN	ATPase family, AAA domain containing 1	294						peroxisome	ATP binding|nucleoside-triphosphatase activity			large_intestine(1)|ovary(1)	2		all_cancers(4;6.78e-12)|Prostate(4;3.56e-12)|all_epithelial(4;5.58e-09)|Melanoma(5;0.0273)|Breast(4;0.0424)|all_hematologic(4;0.0846)|Colorectal(252;0.207)|Glioma(4;0.217)|all_neural(4;0.224)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00131)|GBM - Glioblastoma multiforme(1;1.1e-32)|Lung(2;1.4e-05)|LUSC - Lung squamous cell carcinoma(2;2.69e-05)|Colorectal(12;7.09e-05)|COAD - Colon adenocarcinoma(12;0.000261)|STAD - Stomach adenocarcinoma(243;0.235)		CTTCCTGAAAACCCATCAGTT	0.348													14	42	---	---	---	---	PASS	G	89516631	G	G	89516631	3	3	4	1	0	0	0	0	1	0	0	0	1070	43	2	5	213	5	ATAD1	10	89516631	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	1075100	89516631	46018116	2060	2651										
LIPJ	142910	broad.mit.edu	37	chr10	90356157	90356157	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aattagaatgacatacaaatGgaagtcaatagtcatggtat	8	4	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:90356157G>A	uc001kff.2	+	7	874	c.560G>A	c.(559-561)TGG>TAG	p.W187*		NM_001010939	NP_001010939	Q5W064	LIPJ_HUMAN	lipase, family member J	187					lipid catabolic process		hydrolase activity			ovary(1)	1		all_cancers(4;2.79e-10)|Prostate(4;1.68e-15)|all_epithelial(4;1.43e-09)|Colorectal(252;0.0381)|Breast(4;0.141)|Melanoma(5;0.2)|all_hematologic(4;0.222)		Colorectal(12;1.02e-05)|COAD - Colon adenocarcinoma(12;1.54e-05)		ACATACAAATGGAAGTCAATA	0.284													8	19	---	---	---	---	PASS	A	90356157	A	A	90356157	4	1	4	1	0	0	0	0	0	1	0	0	8826	1357	47	3	578	3	LIPJ	10	90356157	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	839526	90356157	45178590	2061	2652										
FAS	355	broad.mit.edu	37	chr10	90762814	90762814	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctgttgctagattatcgtCcaaaagtgttaatgcccaag	9	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:90762814C>T	uc001kfr.2	+	2	405	c.59C>T	c.(58-60)TCC>TTC	p.S20F	FAS_uc010qna.1_RNA|FAS_uc001kfs.2_Missense_Mutation_p.S20F|FAS_uc001kft.2_Missense_Mutation_p.S20F|FAS_uc010qnb.1_RNA|FAS_uc010qnc.1_RNA|FAS_uc001kfw.2_Missense_Mutation_p.S20F|FAS_uc010qnd.1_RNA|FAS_uc010qne.1_RNA|FAS_uc009xtp.2_RNA	NM_000043	NP_000034	P25445	TNR6_HUMAN	tumor necrosis factor receptor superfamily,	20					activation of caspase activity|activation of pro-apoptotic gene products|anti-apoptosis|cellular response to mechanical stimulus|positive regulation of necrotic cell death	cytosol|extracellular region|integral to membrane|soluble fraction	identical protein binding|kinase binding			upper_aerodigestive_tract(1)|breast(1)	2		Colorectal(252;0.0161)		Colorectal(12;0.000136)|COAD - Colon adenocarcinoma(12;0.000193)		AGATTATCGTCCAAAAGTGTT	0.393									Autoimmune_Lymphoproliferative_syndrome_type_I				22	38	---	---	---	---	PASS	T	90762814	T	T	90762814	3	4	4	1	0	0	0	0	1	0	0	0	5681	855	30	2	65	2	FAS	10	90762814	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	406657	90762814	44771933	2062	2653										
PPP1R3C	5507	broad.mit.edu	37	chr10	93389948	93389948	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaatgcagaactcaattttCtgctcagttggaatgacagg	10	7	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:93389948C>T	uc001kho.2	-	2	822	c.690G>A	c.(688-690)CAG>CAA	p.Q230Q		NM_005398	NP_005389	Q9UQK1	PPR3C_HUMAN	protein phosphatase 1, regulatory (inhibitor)	230	Interaction with EPM2A.|CBM21.						protein serine/threonine phosphatase activity			breast(1)	1		Colorectal(252;0.235)				ACTCAATTTTCTGCTCAGTTG	0.403													25	36	---	---	---	---	PASS	T	93389948	T	T	93389948	2	4	4	1	0	0	0	0	0	0	0	1	12373	912	32	2		2	PPP1R3C	10	93389948	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2627134	93389948	42144799	2063	2654										
PLCE1	51196	broad.mit.edu	37	chr10	96006327	96006327	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgagaaagatgaggaaattCcctgaccaaagacagcagtg	12	7	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:96006327C>T	uc001kjk.2	+	8	3679	c.3045C>T	c.(3043-3045)TTC>TTT	p.F1015F	PLCE1_uc010qnx.1_Silent_p.F1015F|PLCE1_uc001kjm.2_Silent_p.F707F	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1015					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				TGAGGAAATTCCCTGACCAAA	0.438													4	36	---	---	---	---	PASS	T	96006327	T	T	96006327	2	4	4	1	0	0	0	0	0	0	0	1	12034	854	30	2		2	PLCE1	10	96006327	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2616379	96006327	39528420	2064	2655										
PLCE1	51196	broad.mit.edu	37	chr10	96084289	96084289	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagcaagtggaaaggtgcaGgaaaattcatccttaagcta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:96084289G>A	uc001kjk.2	+	31	7319	c.6685G>A	c.(6685-6687)GGA>AGA	p.G2229R	PLCE1_uc010qnx.1_Missense_Mutation_p.G2213R|PLCE1_uc001kjm.2_Missense_Mutation_p.G1921R|PLCE1_uc001kjp.2_Missense_Mutation_p.G587R	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	2229	Ras-associating 2.				activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GAAAGGTGCAGGAAAATTCAT	0.428													59	72	---	---	---	---	PASS	A	96084289	A	A	96084289	3	1	4	1	0	0	0	0	1	0	0	0	12034	1001	35	3	7089	3	PLCE1	10	96084289	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	77962	96084289	39450458	2065	2656	98	2								
PLCE1	51196	broad.mit.edu	37	chr10	96084290	96084290	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcaagtggaaaggtgcagGaaaattcatccttaagctaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:96084290G>A	uc001kjk.2	+	31	7320	c.6686G>A	c.(6685-6687)GGA>GAA	p.G2229E	PLCE1_uc010qnx.1_Missense_Mutation_p.G2213E|PLCE1_uc001kjm.2_Missense_Mutation_p.G1921E|PLCE1_uc001kjp.2_Missense_Mutation_p.G587E	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	2229	Ras-associating 2.				activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				AAAGGTGCAGGAAAATTCATC	0.433													56	70	---	---	---	---	PASS	A	96084290	A	A	96084290	3	1	4	1	0	0	0	0	1	0	0	0	12034	1174	41	2	7090	2	PLCE1	10	96084290	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	96084290	39450457	2066	2657	98	2								
CYP2C19	1557	broad.mit.edu	37	chr10	96522510	96522510	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtctctcatgtttgcttctCctttcaatctggagacagag	8	10	5	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:96522510C>T	uc010qnz.1	+	1	48	c.48C>T	c.(46-48)CTC>CTT	p.L16L	CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Intron	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	16					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	GTTTGCTTCTCCTTTCAATCT	0.463													34	105	---	---	---	---	PASS	T	96522510	T	T	96522510	2	4	4	1	0	0	0	0	0	0	0	1	4166	842	30	2		2	CYP2C19	10	96522510	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	438220	96522510	39012237	2067	2658										
CYP2C19	1557	broad.mit.edu	37	chr10	96541623	96541623	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgattatttcccgggaaccCataacaaattacttaaaaac	4	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:96541623C>T	uc010qnz.1	+	5	688	c.688C>T	c.(688-690)CAT>TAT	p.H230Y	CYP2C19_uc009xus.1_Missense_Mutation_p.H95Y|CYP2C19_uc010qny.1_Missense_Mutation_p.H208Y	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	230					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	CCCGGGAACCCATAACAAATT	0.303													12	30	---	---	---	---	PASS	T	96541623	T	T	96541623	3	4	4	1	0	0	0	0	1	0	0	0	4166	594	21	3	706	3	CYP2C19	10	96541623	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	19113	96541623	38993124	2068	2659										
CYP2C19	1557	broad.mit.edu	37	chr10	96541692	96541692	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaagtaaaagaacaccaaGaatcgatggacatcaacaac	7	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:96541692G>A	uc010qnz.1	+	5	757	c.757G>A	c.(757-759)GAA>AAA	p.E253K	CYP2C19_uc009xus.1_Missense_Mutation_p.E118K|CYP2C19_uc010qny.1_Missense_Mutation_p.E231K	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	253					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	AGAACACCAAGAATCGATGGA	0.358													23	47	---	---	---	---	PASS	A	96541692	A	A	96541692	3	1	4	1	0	0	0	0	1	0	0	0	4166	943	33	2	775	2	CYP2C19	10	96541692	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	69	96541692	38993055	2069	2660										
SORBS1	10580	broad.mit.edu	37	chr10	97194428	97194428	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcactgtcttcacaggaatGattttaacagcagaaataga	7	7	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:97194428G>A	uc001kkp.2	-	3	168	c.123C>T	c.(121-123)ATC>ATT	p.I41I	SORBS1_uc001kkn.2_Intron|SORBS1_uc001kkm.2_Silent_p.I29I|SORBS1_uc001kko.2_Silent_p.I41I|SORBS1_uc001kkq.2_Silent_p.I41I|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_Intron|SORBS1_uc001kku.2_Silent_p.I41I|SORBS1_uc001kkv.2_Intron|SORBS1_uc001kkw.2_Silent_p.I41I|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Intron|SORBS1_uc001kkx.1_Intron	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	41					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)		TCACAGGAATGATTTTAACAG	0.463													14	51	---	---	---	---	PASS	A	97194428	A	A	97194428	2	1	4	1	0	0	0	0	0	0	0	1	14927	1280	45	2		2	SORBS1	10	97194428	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	652736	97194428	38340319	2070	2661										
ZNF518A	9849	broad.mit.edu	37	chr10	97918954	97918954	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttattcctggaaatgcacttCcattggttaattcacaaggt	7	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:97918954C>T	uc001klp.2	+	6	3732	c.2875C>T	c.(2875-2877)CCA>TCA	p.P959S	ZNF518A_uc001klo.1_Missense_Mutation_p.P429S|ZNF518A_uc001klq.2_Missense_Mutation_p.P959S|ZNF518A_uc001klr.2_Missense_Mutation_p.P959S	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	959					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		AAATGCACTTCCATTGGTTAA	0.358													25	74	---	---	---	---	PASS	T	97918954	T	T	97918954	3	4	4	1	0	0	0	0	1	0	0	0	17959	855	30	2	2877	2	ZNF518A	10	97918954	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	724526	97918954	37615793	2071	2662										
TM9SF3	56889	broad.mit.edu	37	chr10	98303964	98303964	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgctttatccatctccttcCtgaaaagaaaggaaactatg	6	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:98303964C>T	uc001kmm.3	-	9	1272	c.1055_splice	c.e9-1	p.G352_splice	TM9SF3_uc010qot.1_Splice_Site_p.G352_splice|TM9SF3_uc001kmn.1_Intron	NM_020123	NP_064508	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3 precursor							integral to membrane	binding				0		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		CATCTCCTTCCTGAAAAGAAA	0.299													7	18	---	---	---	---	PASS	T	98303964	T	T	98303964	5	4	4	1	0	0	0	0	0	0	1	0	15976	695	24	3	743	3	TM9SF3	10	98303964	Splice_Site	SNP	C	TCGA-18-3409-01A-01D-0983-08	385010	98303964	37230783	2072	2663										
C10orf12	26148	broad.mit.edu	37	chr10	98742645	98742645	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaaaaaggtaaaaaattcCctgaggcctctgataggtgc	10	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:98742645C>T	uc001kmv.2	+	1	1605	c.1498C>T	c.(1498-1500)CCT>TCT	p.P500S		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	500										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		TAAAAAATTCCCTGAGGCCTC	0.418													35	65	---	---	---	---	PASS	T	98742645	T	T	98742645	3	4	4	1	0	0	0	0	1	0	0	0	1589	623	22	3	1500	3	C10orf12	10	98742645	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	438681	98742645	36792102	2073	2664										
SLIT1	6585	broad.mit.edu	37	chr10	98766300	98766300	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgaactgcaggtaagtgtcCcgatccacaaagttgacact	10	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:98766300C>T	uc001kmw.2	-	32	3771	c.3519G>A	c.(3517-3519)CGG>CGA	p.R1173R		NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	1173	Laminin G-like.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		GGTAAGTGTCCCGATCCACAA	0.597													11	11	---	---	---	---	PASS	T	98766300	T	T	98766300	2	4	4	1	0	0	0	0	0	0	0	1	14739	610	22	3		3	SLIT1	10	98766300	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	23655	98766300	36768447	2074	2665										
SLIT1	6585	broad.mit.edu	37	chr10	98766422	98766422	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccattctggcactcagtccCctcacaggggctcttggggg	12	15	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:98766422C>T	uc001kmw.2	-	32	3649	c.3397G>A	c.(3397-3399)GGG>AGG	p.G1133R		NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	1133	EGF-like 6.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		CACTCAGTCCCCTCACAGGGG	0.607													12	9	---	---	---	---	PASS	T	98766422	T	T	98766422	3	4	4	1	0	0	0	0	1	0	0	0	14739	623	22	3	1231	3	SLIT1	10	98766422	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	122	98766422	36768325	2075	2666										
MORN4	118812	broad.mit.edu	37	chr10	99376965	99376965	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaatgacctcatacccacCttgaaccatctgagaaggtc	8	12	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:99376965C>T	uc001kob.3	-	3	453	c.182G>A	c.(181-183)AGG>AAG	p.R61K	PI4K2A_uc010qoy.1_Intron|MORN4_uc001koc.3_Missense_Mutation_p.R119K|MORN4_uc001kod.3_3'UTR|MORN4_uc001koe.2_Missense_Mutation_p.R61K|uc001kof.1_5'Flank	NM_178832	NP_849154	Q8NDC4	MORN4_HUMAN	MORN repeat containing 4	61	MORN 2.										0						TCATACCCACCTTGAACCATC	0.448													37	65	---	---	---	---	PASS	T	99376965	T	T	99376965	3	4	4	1	0	0	0	0	1	0	0	0	9710	695	24	3	270	3	MORN4	10	99376965	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	610543	99376965	36157782	2076	2667										
DNMBP	23268	broad.mit.edu	37	chr10	101643884	101643884	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgagcagcattgaagttcCgttctgcctggaagagtttt	11	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:101643884C>T	uc001kqj.2	-	15	3973	c.3881G>A	c.(3880-3882)CGG>CAG	p.R1294Q	DNMBP_uc010qpl.1_Missense_Mutation_p.R230Q|DNMBP_uc001kqg.2_Missense_Mutation_p.R582Q|DNMBP_uc001kqh.2_Missense_Mutation_p.R926Q	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	1294	SH3 5.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		ATTGAAGTTCCGTTCTGCCTG	0.512													14	26	---	---	---	---	PASS	T	101643884	T	T	101643884	3	4	4	1	0	0	0	0	1	0	0	0	4674	652	23	1	864	1	DNMBP	10	101643884	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2266919	101643884	33890863	2077	2668										
FAM178A	55719	broad.mit.edu	37	chr10	102683984	102683984	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttctgcaggcttggcacCttcaaattctggcaattctg	8	12	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:102683984C>T	uc001krt.3	+	5	1768	c.1226C>T	c.(1225-1227)CCT>CTT	p.P409L	FAM178A_uc001krr.1_Missense_Mutation_p.P409L|FAM178A_uc001krs.2_Missense_Mutation_p.P409L|FAM178A_uc001kru.1_Missense_Mutation_p.P344L	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	409											0						GGCTTGGCACCTTCAAATTCT	0.463													27	124	---	---	---	---	PASS	T	102683984	T	T	102683984	3	4	4	1	0	0	0	0	1	0	0	0	5503	681	24	3	1244	3	FAM178A	10	102683984	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1040100	102683984	32850763	2078	2669										
DPCD	25911	broad.mit.edu	37	chr10	103360569	103360569	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagtaggagacccagcgcccCtaggagcagggaacctgggg	16	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:103360569C>T	uc001ktn.2	+	3	225	c.220C>T	c.(220-222)CTA>TTA	p.L74L	hsa-mir-3158-1|MI0014186_5'Flank	NM_015448	NP_056263	Q9BVM2	DPCD_HUMAN	DPCD protein	74							protein binding			skin(1)	1						CCCAGCGCCCCTAGGAGCAGG	0.567													9	29	---	---	---	---	PASS	T	103360569	T	T	103360569	2	4	4	1	0	0	0	0	0	0	0	1	4711	680	24	3		3	DPCD	10	103360569	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	676585	103360569	32174178	2079	2670										
GBF1	8729	broad.mit.edu	37	chr10	104141932	104141932	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctccacccttggctcagcccCcactgatcctgcagcccttg	7	20	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:104141932C>T	uc001kux.1	+	40	5659	c.5419C>T	c.(5419-5421)CCA>TCA	p.P1807S	GBF1_uc001kuy.1_Missense_Mutation_p.P1803S|GBF1_uc001kuz.1_Missense_Mutation_p.P1804S	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1807	Pro-rich.				COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		GGCTCAGCCCCCACTGATCCT	0.692													15	21	---	---	---	---	PASS	T	104141932	T	T	104141932	3	4	4	1	0	0	0	0	1	0	0	0	6271	623	22	3	5573	3	GBF1	10	104141932	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	781363	104141932	31392815	2080	2671										
INA	9118	broad.mit.edu	37	chr10	105046812	105046812	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatagcattgggcagctggaGaatgatctgaggaacaccaa	13	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:105046812G>A	uc001kws.2	+	2	1135	c.1086G>A	c.(1084-1086)GAG>GAA	p.E362E		NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	362	Coil 2.|Rod.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		GGCAGCTGGAGAATGATCTGA	0.418													13	18	---	---	---	---	PASS	A	105046812	A	A	105046812	2	1	4	1	0	0	0	0	0	0	0	1	7730	933	33	2		2	INA	10	105046812	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	904880	105046812	30487935	2081	2672										
INA	9118	broad.mit.edu	37	chr10	105046855	105046855	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgagatggcacgccaccttCgggaataccaggacttgctc	12	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:105046855C>T	uc001kws.2	+	2	1178	c.1129C>T	c.(1129-1131)CGG>TGG	p.R377W		NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	377	Coil 2.|Rod.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		ACGCCACCTTCGGGAATACCA	0.463													20	17	---	---	---	---	PASS	T	105046855	T	T	105046855	3	4	4	1	0	0	0	0	1	0	0	0	7730	875	31	2	1135	2	INA	10	105046855	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	43	105046855	30487892	2082	2673										
SH3PXD2A	9644	broad.mit.edu	37	chr10	105361813	105361813	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttggggcgcacaggggacacGggtatgctgttgcgctgggc	19	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:105361813G>A	uc001kxj.1	-	14	3218	c.3078C>T	c.(3076-3078)CCC>CCT	p.P1026P	SH3PXD2A_uc010qqr.1_Intron|SH3PXD2A_uc010qqs.1_Silent_p.P861P|SH3PXD2A_uc010qqt.1_Silent_p.P903P|SH3PXD2A_uc009xxn.1_Silent_p.P861P|SH3PXD2A_uc010qqu.1_Silent_p.P969P	NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	1054					cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)		CAGGGGACACGGGTATGCTGT	0.632													22	56	---	---	---	---	PASS	A	105361813	A	A	105361813	2	1	4	1	0	0	0	0	0	0	0	1	14256	1103	39	1		1	SH3PXD2A	10	105361813	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	314958	105361813	30172934	2083	2674										
C10orf79	80217	broad.mit.edu	37	chr10	105912413	105912413	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcctttcaaaaagtcttttCaaatgttcatcaaaggcctg	5	10	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:105912413C>T	uc001kxw.2	-	28	3728	c.3612G>A	c.(3610-3612)TTG>TTA	p.L1204L	C10orf79_uc009xxq.2_Silent_p.L512L	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1204	Potential.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		AAAGTCTTTTCAAATGTTCAT	0.318													4	50	---	---	---	---	PASS	T	105912413	T	T	105912413	2	4	4	1	0	0	0	0	0	0	0	1	1618	825	29	2		2	C10orf79	10	105912413	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	550600	105912413	29622334	2084	2675										
C10orf79	80217	broad.mit.edu	37	chr10	105944865	105944865	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctcattgactgaatcccatGaccctggtgagaatgactcc	8	12	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:105944865G>A	uc001kxw.2	-	16	2166	c.2050C>T	c.(2050-2052)CAT>TAT	p.H684Y	C10orf79_uc009xxq.2_5'UTR|C10orf79_uc001kxx.3_Missense_Mutation_p.H685Y	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	684	WD 9.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TGAATCCCATGACCCTGGTGA	0.403													26	36	---	---	---	---	PASS	A	105944865	A	A	105944865	3	1	4	1	0	0	0	0	1	0	0	0	1618	1290	45	2	3039	2	C10orf79	10	105944865	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	32452	105944865	29589882	2085	2676										
SORCS3	22986	broad.mit.edu	37	chr10	106974253	106974253	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggctaagggagaagtacaCcgccaaggcccagatgtgcc	14	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:106974253C>T	uc001kyi.1	+	18	2656	c.2429C>T	c.(2428-2430)ACC>ATC	p.T810I	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	810	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GAGAAGTACACCGCCAAGGCC	0.537													11	46	---	---	---	---	PASS	T	106974253	T	T	106974253	3	4	4	1	0	0	0	0	1	0	0	0	14932	507	18	3	2499	3	SORCS3	10	106974253	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1029388	106974253	28560494	2086	2677										
SORCS1	114815	broad.mit.edu	37	chr10	108366968	108366968	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgttttctccagctggatCctgatagggtaggacaaaga	11	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:108366968C>T	uc001kym.2	-	23	3129	c.3121G>A	c.(3121-3123)GAT>AAT	p.D1041N	SORCS1_uc001kyl.2_Missense_Mutation_p.D1041N|SORCS1_uc009xxs.2_Missense_Mutation_p.D1041N|SORCS1_uc001kyn.1_Missense_Mutation_p.D1041N|SORCS1_uc001kyo.2_Missense_Mutation_p.D1041N	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	1041	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CCAGCTGGATCCTGATAGGGT	0.547													13	28	---	---	---	---	PASS	T	108366968	T	T	108366968	3	4	4	1	0	0	0	0	1	0	0	0	14930	855	30	2	635	2	SORCS1	10	108366968	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1392715	108366968	27167779	2087	2678										
SORCS1	114815	broad.mit.edu	37	chr10	108437114	108437114	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgtgtttcatagcaaccaGgactccaccttgatccaggt	9	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:108437114G>A	uc001kym.2	-	13	1797	c.1789C>T	c.(1789-1791)CTG>TTG	p.L597L	SORCS1_uc001kyl.2_Silent_p.L597L|SORCS1_uc009xxs.2_Silent_p.L597L|SORCS1_uc001kyn.1_Silent_p.L597L|SORCS1_uc001kyo.2_Silent_p.L597L	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	597	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		ATAGCAACCAGGACTCCACCT	0.463													19	27	---	---	---	---	PASS	A	108437114	A	A	108437114	2	1	4	1	0	0	0	0	0	0	0	1	14930	991	35	3		3	SORCS1	10	108437114	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	70146	108437114	27097633	2088	2679										
SMC3	9126	broad.mit.edu	37	chr10	112337612	112337612	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatcgataaagaggaagtttCacttcgaagagttattggtg	12	4	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:112337612C>T	uc001kze.2	+	6	416	c.290C>T	c.(289-291)TCA>TTA	p.S97L		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	97					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)		GAGGAAGTTTCACTTCGAAGA	0.294													5	33	---	---	---	---	PASS	T	112337612	T	T	112337612	3	4	4	1	0	0	0	0	1	0	0	0	14784	838	29	2	312	2	SMC3	10	112337612	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3900498	112337612	23197135	2089	2680										
TECTB	6975	broad.mit.edu	37	chr10	114043501	114043501	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctgagaagcaatggtgacGaaggcctttgtcttgttggc	13	7	2	2	rs139784993	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:114043501G>A	uc001kzr.1	+	1	9	c.9G>A	c.(7-9)ACG>ACA	p.T3T		NM_058222	NP_478129	Q96PL2	TECTB_HUMAN	tectorin beta precursor	3						anchored to membrane|plasma membrane|proteinaceous extracellular matrix					0		Colorectal(252;0.198)		Epithelial(162;0.0143)|all cancers(201;0.0242)		CAATGGTGACGAAGGCCTTTG	0.507													4	20	---	---	---	---	PASS	A	114043501	A	A	114043501	2	1	4	1	0	0	0	0	0	0	0	1	15745	1045	37	2		2	TECTB	10	114043501	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1705889	114043501	21491246	2090	2681										
NRAP	4892	broad.mit.edu	37	chr10	115383302	115383302	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcacctcgctagccaggtCcctcttggctttggctgcca	9	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:115383302C>T	uc001laj.2	-	23	2607	c.2443G>A	c.(2443-2445)GAC>AAC	p.D815N	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Missense_Mutation_p.D780N|NRAP_uc001lal.3_Missense_Mutation_p.D815N	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	815	Nebulin 20.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		CTAGCCAGGtccctcttggct	0.353													26	26	---	---	---	---	PASS	T	115383302	T	T	115383302	3	4	4	1	0	0	0	0	1	0	0	0	10638	855	30	2	2829	2	NRAP	10	115383302	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1339801	115383302	20151445	2091	2682										
CASP7	840	broad.mit.edu	37	chr10	115457308	115457308	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggttgaggattcagcaaatgAagattcagtggatgctaagc	13	5	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:115457308A>G	uc001lan.2	+	2	230	c.56A>G	c.(55-57)GAA>GGA	p.E19G	CASP7_uc001lam.2_Missense_Mutation_p.E19G|CASP7_uc001lao.2_Missense_Mutation_p.E52G|CASP7_uc001lap.2_Missense_Mutation_p.E19G|CASP7_uc001laq.2_Missense_Mutation_p.E19G|CASP7_uc010qsa.1_Missense_Mutation_p.K94E	NM_033339	NP_203125	P55210	CASP7_HUMAN	caspase 7 isoform alpha	19					activation of caspase activity by cytochrome c|cellular component disassembly involved in apoptosis|induction of apoptosis by intracellular signals|proteolysis	cytosol|endoplasmic reticulum membrane|mitochondrial membrane|nucleoplasm	cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Colorectal(252;0.0946)|Breast(234;0.188)		Epithelial(162;0.012)|all cancers(201;0.014)		TCAGCAAATGAAGATTCAGTG	0.507													39	74	---	---	---	---	PASS	G	115457308	G	G	115457308	3	3	4	1	0	0	0	0	1	0	0	0	2676	246	9	5	161	5	CASP7	10	115457308	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	74006	115457308	20077439	2092	2683										
C10orf81	79949	broad.mit.edu	37	chr10	115529619	115529619	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccttccagcacatcagaggCtgttggctccagctcaccaa	8	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:115529619C>T	uc001lat.1	+	6	1056	c.494C>T	c.(493-495)GCT>GTT	p.A165V	C10orf81_uc001lar.1_Missense_Mutation_p.A171V|C10orf81_uc009xyc.1_Missense_Mutation_p.A83V|C10orf81_uc001las.1_Missense_Mutation_p.A83V|C10orf81_uc001lau.1_5'Flank	NM_024889	NP_079165	Q5SXH7	CJ081_HUMAN	hypothetical protein LOC79949	165										central_nervous_system(1)	1		Colorectal(252;0.175)		Epithelial(162;0.0181)|all cancers(201;0.0204)		ACATCAGAGGCTGTTGGCTCC	0.493													44	60	---	---	---	---	PASS	T	115529619	T	T	115529619	3	4	4	1	0	0	0	0	1	0	0	0	1619	797	28	3	534	3	C10orf81	10	115529619	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	72311	115529619	20005128	2093	2684										
C10orf118	55088	broad.mit.edu	37	chr10	115885742	115885742	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgttaatccattgtcagctGgatgggatgtatataaagat	10	4	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:115885742G>A	uc001lbb.1	-	15	3168	c.2516C>T	c.(2515-2517)CCA>CTA	p.P839L	C10orf118_uc009xyd.1_Intron|C10orf118_uc001lbc.1_Missense_Mutation_p.P839L|C10orf118_uc009xye.1_RNA	NM_018017	NP_060487	Q7Z3E2	CJ118_HUMAN	CTCL tumor antigen L14-2	839										ovary(2)	2		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0161)|all cancers(201;0.0397)		ATTGTCAGCTGGATGGGATGT	0.383													15	25	---	---	---	---	PASS	A	115885742	A	A	115885742	3	1	4	1	0	0	0	0	1	0	0	0	1587	1348	47	3	188	3	C10orf118	10	115885742	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	356123	115885742	19649005	2094	2685										
TDRD1	56165	broad.mit.edu	37	chr10	115947891	115947891	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagaagtagttggctccaaaGgagacaggaaaaaattgcca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:115947891G>A	uc001lbg.1	+	2	454	c.301G>A	c.(301-303)GGA>AGA	p.G101R	TDRD1_uc001lbf.2_Missense_Mutation_p.G92R|TDRD1_uc001lbh.1_Missense_Mutation_p.G92R|TDRD1_uc001lbi.1_Missense_Mutation_p.G92R	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	101					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		TGGCTCCAAAGGAGACAGGAA	0.413													34	37	---	---	---	---	PASS	A	115947891	A	A	115947891	3	1	4	1	0	0	0	0	1	0	0	0	15727	1001	35	3	303	3	TDRD1	10	115947891	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	62149	115947891	19586856	2095	2686	99	2								
TDRD1	56165	broad.mit.edu	37	chr10	115947893	115947893	+	Silent	SNP	A	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagtagttggctccaaaggAgacaggaaaaaattgccagc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:115947893A>T	uc001lbg.1	+	2	456	c.303A>T	c.(301-303)GGA>GGT	p.G101G	TDRD1_uc001lbf.2_Silent_p.G92G|TDRD1_uc001lbh.1_Silent_p.G92G|TDRD1_uc001lbi.1_Silent_p.G92G	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	101					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		GCTCCAAAGGAGACAGGAAAA	0.418													33	39	---	---	---	---	PASS	T	115947893	T	T	115947893	2	4	4	1	0	0	0	0	0	0	0	1	15727	291	11	5		5	TDRD1	10	115947893	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	2	115947893	19586854	2096	2687	99	2								
VWA2	340706	broad.mit.edu	37	chr10	116038536	116038536	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggagatggtccgggagttCgctggcaatgccccatgctg	15	11	0	1	rs145257901		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:116038536C>T	uc001lbl.1	+	8	1080	c.759C>T	c.(757-759)TTC>TTT	p.F253F	VWA2_uc001lbk.1_Silent_p.F253F|VWA2_uc009xyf.1_5'UTR	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	253						extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		TCCGGGAGTTCGCTGGCAATG	0.647													17	24	---	---	---	---	PASS	T	116038536	T	T	116038536	2	4	4	1	0	0	0	0	0	0	0	1	17236	883	31	2		2	VWA2	10	116038536	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	90643	116038536	19496211	2097	2688										
ATRNL1	26033	broad.mit.edu	37	chr10	117061501	117061501	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttgactctaatgcctatatCatctcttttccatatggaca	5	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:117061501C>T	uc001lcg.2	+	17	3152	c.2766C>T	c.(2764-2766)ATC>ATT	p.I922I	ATRNL1_uc010qsm.1_Silent_p.I97I|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	922	PSI 4.|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)		ATGCCTATATCATCTCTTTTC	0.428													27	29	---	---	---	---	PASS	T	117061501	T	T	117061501	2	4	4	1	0	0	0	0	0	0	0	1	1207	816	29	2		2	ATRNL1	10	117061501	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1022965	117061501	18473246	2098	2689										
PNLIP	5406	broad.mit.edu	37	chr10	118306827	118306827	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaagaagtttgctacgaaaGactcggctgcttcagtgatg	11	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:118306827G>A	uc001lcm.2	+	3	111	c.68G>A	c.(67-69)AGA>AAA	p.R23K		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	23					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	TGCTACGAAAGACTCGGCTGC	0.428													13	49	---	---	---	---	PASS	A	118306827	A	A	118306827	3	1	4	1	0	0	0	0	1	0	0	0	12149	942	33	2	74	2	PNLIP	10	118306827	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1245326	118306827	17227920	2099	2690										
PNLIP	5406	broad.mit.edu	37	chr10	118318691	118318691	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtttcccttgtccaagtgGaggctgcccacagatgggtc	13	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:118318691G>A	uc001lcm.2	+	10	999	c.956G>A	c.(955-957)GGA>GAA	p.G319E		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	319					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	TGTCCAAGTGGAGGCTGCCCA	0.408													12	23	---	---	---	---	PASS	A	118318691	A	A	118318691	3	1	4	1	0	0	0	0	1	0	0	0	12149	1174	41	2	990	2	PNLIP	10	118318691	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	11864	118318691	17216056	2100	2691										
PDZD8	118987	broad.mit.edu	37	chr10	119044399	119044399	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accttctctggcttttcaacGagaacatctggttctgcctg	8	12	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:119044399G>A	uc001lde.1	-	5	2044	c.1845C>T	c.(1843-1845)CTC>CTT	p.L615L		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	615	Pro-rich.				intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		GCTTTTCAACGAGAACATCTG	0.498													23	54	---	---	---	---	PASS	A	119044399	A	A	119044399	2	1	4	1	0	0	0	0	0	0	0	1	11705	1045	37	2		2	PDZD8	10	119044399	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	725708	119044399	16490348	2101	2692										
PRDX3	10935	broad.mit.edu	37	chr10	120933973	120933973	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttacacttacaaatccaaagGatagaagaaaagcaccaaat	5	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:120933973G>A	uc001lec.2	-	3	344	c.301C>T	c.(301-303)CCT>TCT	p.P101S		NM_006793	NP_006784	P30048	PRDX3_HUMAN	peroxiredoxin 3 isoform a precursor	101	Thioredoxin.				cell redox homeostasis|hydrogen peroxide catabolic process|mitochondrion organization|myeloid cell differentiation|negative regulation of kinase activity|positive regulation of cell proliferation|positive regulation of NF-kappaB transcription factor activity|regulation of mitochondrial membrane potential|response to lipopolysaccharide	early endosome|mitochondrion	alkyl hydroperoxide reductase activity|caspase inhibitor activity|peroxidase activity|peroxiredoxin activity|protein C-terminus binding|protein kinase binding				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0245)		AAATCCAAAGGATAGAAGAAA	0.408													16	32	---	---	---	---	PASS	A	120933973	A	A	120933973	3	1	4	1	0	0	0	0	1	0	0	0	12466	1174	41	2	489	2	PRDX3	10	120933973	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1889574	120933973	14600774	2102	2693										
GRK5	2869	broad.mit.edu	37	chr10	121182680	121182680	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcccttccttcttccagtcCcctgttttcatagcccaagt	4	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:121182680C>T	uc001led.2	+	5	575	c.342C>T	c.(340-342)TCC>TCT	p.S114S	GRK5_uc009xzh.2_Silent_p.S9S|GRK5_uc010qta.1_Silent_p.S9S	NM_005308	NP_005299	P34947	GRK5_HUMAN	G protein-coupled receptor kinase 5	114	N-terminal.|RGS.				G-protein signaling, coupled to cAMP nucleotide second messenger|regulation of G-protein coupled receptor protein signaling pathway|tachykinin receptor signaling pathway	cytoplasm|plasma membrane|soluble fraction	ATP binding|G-protein coupled receptor kinase activity|phospholipid binding|protein kinase C binding|signal transducer activity			lung(2)|stomach(1)	3		Lung NSC(174;0.0971)|all_lung(145;0.127)|Ovarian(717;0.249)		all cancers(201;0.0227)		TCTTCCAGTCCCCTGTTTTCA	0.582													33	150	---	---	---	---	PASS	T	121182680	T	T	121182680	2	4	4	1	0	0	0	0	0	0	0	1	6792	610	22	3		3	GRK5	10	121182680	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	248707	121182680	14352067	2103	2694										
DMBT1	1755	broad.mit.edu	37	chr10	124339165	124339165	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggccgagtggaggtcctaTaccgaggctcctggggcacc	16	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:124339165T>A	uc001lgk.1	+	10	857	c.751T>A	c.(751-753)TAC>AAC	p.Y251N	DMBT1_uc001lgl.1_Missense_Mutation_p.Y251N|DMBT1_uc001lgm.1_Missense_Mutation_p.Y251N|DMBT1_uc009xzz.1_Missense_Mutation_p.Y251N|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yaa.1_Missense_Mutation_p.Y103N	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	251	SRCR 2.				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)				GGAGGTCCTATACCGAGGCTC	0.597													94	179	---	---	---	---	PASS	A	124339165	A	A	124339165	3	1	4	1	0	0	0	0	1	0	0	0	4577	1406	49	5	789	5	DMBT1	10	124339165	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	3156485	124339165	11195582	2104	2695										
FAM24A	118670	broad.mit.edu	37	chr10	124671195	124671195	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acgaagatcatgatcggcatCggaagcagcttactggttgc	12	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:124671195C>G	uc001lgv.2	+	2	166	c.45C>G	c.(43-45)ATC>ATG	p.I15M		NM_001029888	NP_001025059	A6NFZ4	FA24A_HUMAN	family with sequence similarity 24, member A	15						extracellular region				ovary(2)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.124)|COAD - Colon adenocarcinoma(40;0.141)		TGATCGGCATCGGAAGCAGCT	0.498													73	133	---	---	---	---	PASS	G	124671195	G	G	124671195	3	3	4	1	0	0	0	0	1	0	0	0	5547	874	31	2	47	2	FAM24A	10	124671195	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	332030	124671195	10863552	2105	2696										
CPXM2	119587	broad.mit.edu	37	chr10	125516831	125516831	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccacgtagatggacagttcGaagcagtttgtatgaaggta	12	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:125516831G>A	uc001lhk.1	-	12	2140	c.1815C>T	c.(1813-1815)TTC>TTT	p.F605F	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	605					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		TGGACAGTTCGAAGCAGTTTG	0.498													42	39	---	---	---	---	PASS	A	125516831	A	A	125516831	2	1	4	1	0	0	0	0	0	0	0	1	3838	1049	37	2		2	CPXM2	10	125516831	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	845636	125516831	10017916	2106	2697										
UROS	7390	broad.mit.edu	37	chr10	127503624	127503624	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcagttttattgttttgctCcaaacataactctgctgctt	5	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:127503624C>T	uc001liw.3	-	3	356	c.223G>A	c.(223-225)GAG>AAG	p.E75K	UROS_uc001liv.3_5'UTR|UROS_uc010quh.1_RNA|UROS_uc001lix.3_Missense_Mutation_p.E75K|UROS_uc001liy.3_RNA|UROS_uc001liz.2_RNA	NM_000375	NP_000366	P10746	HEM4_HUMAN	uroporphyrinogen III synthase	75					heme biosynthetic process|uroporphyrinogen III biosynthetic process	cytosol|mitochondrion	uroporphyrinogen-III synthase activity				0		all_lung(145;0.00756)|Lung NSC(174;0.0116)|Colorectal(57;0.0855)|all_neural(114;0.0937)|Breast(234;0.203)				TTGTTTTGCTCCAAACATAAC	0.443													16	14	---	---	---	---	PASS	T	127503624	T	T	127503624	3	4	4	1	0	0	0	0	1	0	0	0	17027	864	30	2	602	2	UROS	10	127503624	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1986793	127503624	8031123	2107	2698										
C10orf90	118611	broad.mit.edu	37	chr10	128114446	128114446	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgtggttagaccgcattcCtttgaaggagctggtccagt	12	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:128114446C>T	uc001ljq.2	-	9	2208	c.2087G>A	c.(2086-2088)AGG>AAG	p.R696K	C10orf90_uc001ljp.2_Missense_Mutation_p.R552K|C10orf90_uc010qum.1_Missense_Mutation_p.R793K|C10orf90_uc001ljo.2_RNA	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	696										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		GACCGCATTCCTTTGAAGGAG	0.488													13	29	---	---	---	---	PASS	T	128114446	T	T	128114446	3	4	4	1	0	0	0	0	1	0	0	0	1623	681	24	3	16	3	C10orf90	10	128114446	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	610822	128114446	7420301	2108	2699										
C10orf90	118611	broad.mit.edu	37	chr10	128193239	128193239	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgccattggccagagccgggGgcgcctggaacagtgtgtcc	16	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:128193239G>A	uc001ljq.2	-	3	651	c.530C>T	c.(529-531)CCC>CTC	p.P177L	C10orf90_uc001ljp.2_Missense_Mutation_p.P130L|C10orf90_uc010qum.1_Missense_Mutation_p.P274L|C10orf90_uc009yao.2_Missense_Mutation_p.P274L|C10orf90_uc001ljs.1_Missense_Mutation_p.P130L	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	177										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		CAGAGCCGGGGGCGCCTGGAA	0.667											OREG0020616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	34	---	---	---	---	PASS	A	128193239	A	A	128193239	3	1	4	1	0	0	0	0	1	0	0	0	1623	1232	43	3	1597	3	C10orf90	10	128193239	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	78793	128193239	7341508	2109	2700										
FAM196A	642938	broad.mit.edu	37	chr10	128974270	128974270	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttaaagggatctgcagctggGaggcttttgaggttcccctt	13	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:128974270G>A	uc001lju.1	-	1	431	c.390C>T	c.(388-390)CTC>CTT	p.L130L	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Silent_p.L130L|FAM196A_uc001ljv.1_Silent_p.L130L|FAM196A_uc009yap.1_Silent_p.L130L	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	130										ovary(2)	2						CTGCAGCTGGGAGGCTTTTGA	0.552													14	28	---	---	---	---	PASS	A	128974270	A	A	128974270	2	1	4	1	0	0	0	0	0	0	0	1	5528	1161	41	2		2	FAM196A	10	128974270	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	781031	128974270	6560477	2110	2701										
MGMT	4255	broad.mit.edu	37	chr10	131506293	131506293	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtgccggctcttcaccatcCcgttttccagcaaggtcggt	10	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:131506293C>T	uc001lkh.2	+	3	379	c.353C>T	c.(352-354)CCC>CTC	p.P118L		NM_002412	NP_002403	P16455	MGMT_HUMAN	O-6-methylguanine-DNA methyltransferase	87										ovary(1)|breast(1)	2		all_cancers(35;9.44e-09)|all_epithelial(44;6.98e-08)|Lung NSC(174;0.0157)|all_lung(145;0.0201)|all_neural(114;0.0732)|Colorectal(57;0.0792)|Breast(234;0.167)		OV - Ovarian serous cystadenocarcinoma(35;0.00291)		CTTCACCATCCCGTTTTCCAG	0.532								Direct_reversal_of_damage					24	39	---	---	---	---	PASS	T	131506293	T	T	131506293	3	4	4	1	0	0	0	0	1	0	0	0	9557	623	22	3	363	3	MGMT	10	131506293	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2532023	131506293	4028454	2111	2702										
TCERG1L	256536	broad.mit.edu	37	chr10	133107540	133107540	+	Missense_Mutation	SNP	G	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggggggcagtcctagggacGgagaatggccaccaaacagc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:133107540G>T	uc001lkp.2	-	2	451	c.365C>A	c.(364-366)CCG>CAG	p.P122Q		NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	122								p.P81Q(1)		large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		TCCTAGGGACGGAGAATGGCC	0.527													13	25	---	---	---	---	PASS	T	133107540	T	T	133107540	3	4	4	1	0	0	0	0	1	0	0	0	15683	1116	39	1	1439	1	TCERG1L	10	133107540	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1601247	133107540	2427207	2112	2703	100	2								
TCERG1L	256536	broad.mit.edu	37	chr10	133107541	133107541	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggggcagtcctagggacgGagaatggccaccaaacagcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:133107541G>A	uc001lkp.2	-	2	450	c.364C>T	c.(364-366)CCG>TCG	p.P122S		NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	122										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		CCTAGGGACGGAGAATGGCCA	0.527													12	25	---	---	---	---	PASS	A	133107541	A	A	133107541	3	1	4	1	0	0	0	0	1	0	0	0	15683	1174	41	2	1440	2	TCERG1L	10	133107541	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	133107541	2427206	2113	2704	100	2								
PPP2R2D	55844	broad.mit.edu	37	chr10	133769400	133769400	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgcacacagcctggcaccCcgtggacaatgtcattgccg	10	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:133769400C>T	uc001lks.2	+	7	1439	c.1196C>T	c.(1195-1197)CCC>CTC	p.P399L	PPP2R2D_uc001lkr.2_Missense_Mutation_p.P205L|PPP2R2D_uc001lkt.2_Missense_Mutation_p.P205L|PPP2R2D_uc009yay.2_Missense_Mutation_p.P267L	NM_018461	NP_060931	Q66LE6	2ABD_HUMAN	protein phosphatase 2, regulatory subunit B,	432	WD 7.				cell division|exit from mitosis|mitosis|signal transduction	cytoplasm|protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			skin(1)	1		all_cancers(35;2.16e-12)|all_epithelial(44;2.77e-09)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Colorectal(31;0.0124)|Breast(234;0.023)|all_neural(114;0.0299)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.86e-05)|Epithelial(32;8.82e-05)|all cancers(32;0.000106)|BRCA - Breast invasive adenocarcinoma(275;0.21)		GCCTGGCACCCCGTGGACAAT	0.522													5	9	---	---	---	---	PASS	T	133769400	T	T	133769400	3	4	4	1	0	0	0	0	1	0	0	0	12387	623	22	3	1223	3	PPP2R2D	10	133769400	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	661859	133769400	1765347	2114	2705										
JAKMIP3	282973	broad.mit.edu	37	chr10	133930772	133930772	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcagggtcatcaagatcaaGgacaacgagaaccagcggct	11	11	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:133930772G>A	uc001lkx.3	+	2	327	c.327G>A	c.(325-327)AAG>AAA	p.K109K		NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		TCAAGATCAAGGACAACGAGA	0.607													7	33	---	---	---	---	PASS	A	133930772	A	A	133930772	2	1	4	1	0	0	0	0	0	0	0	1	7942	991	35	3		3	JAKMIP3	10	133930772	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	161372	133930772	1603975	2115	2706										
DPYSL4	10570	broad.mit.edu	37	chr10	134006186	134006186	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcggagaaaacctcatcgtCcctgggggcatcaagaccat	10	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:134006186C>T	uc009ybb.2	+	3	307	c.153C>T	c.(151-153)GTC>GTT	p.V51V		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	51					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-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;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		ACCTCATCGTCCCTGGGGGCA	0.577													11	41	---	---	---	---	PASS	T	134006186	T	T	134006186	2	4	4	1	0	0	0	0	0	0	0	1	4749	842	30	2		2	DPYSL4	10	134006186	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	75414	134006186	1528561	2116	2707										
C10orf93	255352	broad.mit.edu	37	chr10	134743005	134743005	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggccacaagaaaggtaaaGagaaacgggcaggtgtaaaa	14	5	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:134743005G>T	uc001llt.1	-	9	1246	c.1170C>A	c.(1168-1170)CTC>CTA	p.L390L		NM_173572	NP_775843	Q5SR76	CJ093_HUMAN	hypothetical protein LOC255352	Error:Variant_position_missing_in_Q5SR76_after_alignment							binding			pancreas(1)	1		all_cancers(35;1.8e-07)|all_epithelial(44;6.22e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Colorectal(31;0.119)|Glioma(114;0.172)|Melanoma(40;0.175)		Epithelial(32;4.28e-05)|OV - Ovarian serous cystadenocarcinoma(35;4.31e-05)|all cancers(32;5.02e-05)		gaaaggtaaagagaaacgggc	0.129													4	21	---	---	---	---	PASS	T	134743005	T	T	134743005	2	4	4	1	0	0	0	0	0	0	0	1	1625	929	33	2		2	C10orf93	10	134743005	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	736819	134743005	791742	2117	2708										
KNDC1	85442	broad.mit.edu	37	chr10	135000137	135000137	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagggacgatgagagaattCcagaaggagctaggcagctg	15	8	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:135000137C>T	uc001llz.1	+	6	1286	c.1285C>T	c.(1285-1287)CCA>TCA	p.P429S	KNDC1_uc001lma.1_Missense_Mutation_p.P364S	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	429					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		TGAGAGAATTCCAGAAGGAGC	0.662													4	22	---	---	---	---	PASS	T	135000137	T	T	135000137	3	4	4	1	0	0	0	0	1	0	0	0	8426	855	30	2	1307	2	KNDC1	10	135000137	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	257132	135000137	534610	2118	2709										
TUBGCP2	10844	broad.mit.edu	37	chr10	135099073	135099073	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccatcgccttctcctgcttGgtctcgatggccaggacgcg	12	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:135099073G>A	uc001lmg.1	-	12	2139	c.1782C>T	c.(1780-1782)ACC>ACT	p.T594T	TUBGCP2_uc001lmf.1_Silent_p.T187T|TUBGCP2_uc010qvc.1_Silent_p.T622T|TUBGCP2_uc009ybk.1_Intron|TUBGCP2_uc010qvd.1_Silent_p.T464T|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	594					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		TCTCCTGCTTGGTCTCGATGG	0.587													4	11	---	---	---	---	PASS	A	135099073	A	A	135099073	2	1	4	1	0	0	0	0	0	0	0	1	16763	1335	47	3		3	TUBGCP2	10	135099073	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	98936	135099073	435674	2119	2710										
PAOX	196743	broad.mit.edu	37	chr10	135197503	135197503	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggacaccttctttgaccctcCcctgccggctgagaaggcag	11	15	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr10:135197503C>T	uc001lmv.2	+	4	988	c.908C>T	c.(907-909)CCC>CTC	p.P303L	PAOX_uc001lmw.2_Intron|PAOX_uc001lmx.2_Missense_Mutation_p.P303L|PAOX_uc001lmy.2_Intron|PAOX_uc001lmz.2_RNA|PAOX_uc001lna.2_RNA|PAOX_uc001lnb.2_Intron|PAOX_uc001lnc.2_Intron	NM_152911	NP_690875	Q6QHF9	PAOX_HUMAN	polyamine oxidase isoform 1	441					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		TTTGACCCTCCCCTGCCGGCT	0.498													47	87	---	---	---	---	PASS	T	135197503	T	T	135197503	3	4	4	1	0	0	0	0	1	0	0	0	11423	623	22	3	922	3	PAOX	10	135197503	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	98430	135197503	337244	2120	2711										
ATHL1	80162	broad.mit.edu	37	chr11	293670	293670	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgagtcctgatgttcgcagGaaaaatctggagatttacga	11	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:293670G>A	uc010qvu.1	+	10	1672	c.1557G>A	c.(1555-1557)AGG>AGA	p.R519R	ATHL1_uc001lor.3_Silent_p.R271R|ATHL1_uc001lou.3_Silent_p.R94R|ATHL1_uc001lov.3_5'Flank	NM_025092	NP_079368	Q32M88	ATHL1_HUMAN	ATH1, acid trehalase-like 1	519					carbohydrate metabolic process		hydrolase activity, acting on glycosyl bonds			liver(1)|central_nervous_system(1)|skin(1)	3		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.38e-28)|Epithelial(43;3.25e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0327)|LUSC - Lung squamous cell carcinoma(625;0.122)		ATGTTCGCAGGAAAAATCTGG	0.617													18	24	---	---	---	---	PASS	A	293670	A	A	293670	2	1	4	1	0	0	0	0	0	0	0	1	1104	1165	41	2		2	ATHL1	11	293670	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08		293670	134712846	2121	2712										
DEAF1	10522	broad.mit.edu	37	chr11	688419	688419	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaatcagtgtcgctttttcGgtgttcaggctgtccccgat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:688419G>A	uc001lqq.1	-	3	1122	c.429C>T	c.(427-429)ACC>ACT	p.T143T	DEAF1_uc009ycf.1_5'Flank	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	143					embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		TCGCTTTTTCGGTGTTCAGGC	0.607													10	21	---	---	---	---	PASS	A	688419	A	A	688419	2	1	4	1	0	0	0	0	0	0	0	1	4380	1103	39	1		1	DEAF1	11	688419	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	394749	688419	134318097	2122	2713	101	2								
DEAF1	10522	broad.mit.edu	37	chr11	688420	688420	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caatcagtgtcgctttttcgGtgttcaggctgtccccgatc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:688420G>A	uc001lqq.1	-	3	1121	c.428C>T	c.(427-429)ACC>ATC	p.T143I	DEAF1_uc009ycf.1_5'Flank	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	143					embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		CGCTTTTTCGGTGTTCAGGCT	0.602													10	21	---	---	---	---	PASS	A	688420	A	A	688420	3	1	4	1	0	0	0	0	1	0	0	0	4380	1261	44	3	1309	3	DEAF1	11	688420	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	688420	134318096	2123	2714	101	2								
PDDC1	347862	broad.mit.edu	37	chr11	772466	772466	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgaacacccaggatctgtcCtcgttggtggcacagcacag	11	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:772466C>A	uc001lrc.2	-	5	436	c.411G>T	c.(409-411)GAG>GAT	p.E137D	PDDC1_uc010qwm.1_Missense_Mutation_p.E87D|PDDC1_uc001lrd.2_Missense_Mutation_p.E137D|PDDC1_uc001lrf.1_Missense_Mutation_p.E101D|PDDC1_uc001lrg.1_RNA|PDDC1_uc009ycg.2_Missense_Mutation_p.E87D|PDDC1_uc010qwn.1_RNA|PDDC1_uc010qwo.1_RNA|PDDC1_uc010qwp.1_Missense_Mutation_p.E101D|PDDC1_uc010qwq.1_Missense_Mutation_p.E51D|PDDC1_uc010qwr.1_Missense_Mutation_p.E137D|PDDC1_uc010qws.1_Missense_Mutation_p.E87D	NM_182612	NP_872418	Q8NB37	PDDC1_HUMAN	Parkinson disease 7 domain containing 1	137						extracellular region					0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;3.66e-26)|Epithelial(43;2.43e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-19)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGGATCTGTCCTCGTTGGTGG	0.662													5	74	---	---	---	---	PASS	A	772466	A	A	772466	3	1	4	1	0	0	0	0	1	0	0	0	11629	680	24	3	267	3	PDDC1	11	772466	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	84046	772466	134234050	2124	2715										
MUC6	4588	broad.mit.edu	37	chr11	1025323	1025323	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctgcacgtggggctcctcCccggtgaccgtgtagtttct	13	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:1025323C>T	uc001lsw.2	-	23	2895	c.2844G>A	c.(2842-2844)GGG>GGA	p.G948G		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	948	VWFD 3.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGGGCTCCTCCCCGGTGACCG	0.662													7	35	---	---	---	---	PASS	T	1025323	T	T	1025323	2	4	4	1	0	0	0	0	0	0	0	1	9980	610	22	3		3	MUC6	11	1025323	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	252857	1025323	133981193	2125	2716										
MUC5B	727897	broad.mit.edu	37	chr11	1262555	1262555	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcgacggcggccctcacctCgcagactgggtccagctcag	13	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:1262555C>T	uc009ycr.1	+	47	6650	c.6524C>T	c.(6523-6525)TCG>TTG	p.S2175L	MUC5B_uc001ltb.2_Missense_Mutation_p.S1485L	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1482	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GCCCTCACCTCGCAGACTGGG	0.662													4	6	---	---	---	---	PASS	T	1262555	T	T	1262555	3	4	4	1	0	0	0	0	1	0	0	0	9979	893	31	2	4576	2	MUC5B	11	1262555	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	237232	1262555	133743961	2126	2717										
MUC5B	727897	broad.mit.edu	37	chr11	1267841	1267841	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacagccatcccctcttcctCcctgggcaccgcctggaccc	7	21	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:1267841C>G	uc009ycr.1	+	49	11606	c.11480C>G	c.(11479-11481)TCC>TGC	p.S3827C	MUC5B_uc001ltb.2_Missense_Mutation_p.S3247C	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3244	7 X Cys-rich subdomain repeats.|Thr-rich.|17 X approximate tandem repeats, Ser/Thr- rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCCTCTTCCTCCCTGGGCACC	0.632													27	87	---	---	---	---	PASS	G	1267841	G	G	1267841	3	3	4	1	0	0	0	0	1	0	0	0	9979	855	30	2	9862	2	MUC5B	11	1267841	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	5286	1267841	133738675	2127	2718										
MUC5B	727897	broad.mit.edu	37	chr11	1271670	1271670	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccaccacacccacagctacCagctttacagccatcccctc	4	21	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:1271670C>A	uc009ycr.1	+	51	15105	c.14979C>A	c.(14977-14979)ACC>ACA	p.T4993T	MUC5B_uc001ltb.2_Silent_p.T4523T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4520	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCACAGCTACCAGCTTTACAG	0.627													28	39	---	---	---	---	PASS	A	1271670	A	A	1271670	2	1	4	1	0	0	0	0	0	0	0	1	9979	581	21	3		3	MUC5B	11	1271670	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3829	1271670	133734846	2128	2719										
MUC5B	727897	broad.mit.edu	37	chr11	1273754	1273754	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatgccatccctctccggcaGgtgggccccgcctgccctcc	10	20	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:1273754G>T	uc009ycr.1	+	53	16137	c.16011G>T	c.(16009-16011)CAG>CAT	p.Q5337H	MUC5B_uc001ltb.2_Missense_Mutation_p.Q5018H	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5015					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTCTCCGGCAGGTGGGCCCCG	0.716													5	10	---	---	---	---	PASS	T	1273754	T	T	1273754	3	4	4	1	0	0	0	0	1	0	0	0	9979	1014	35	3	15180	3	MUC5B	11	1273754	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2084	1273754	133732762	2129	2720										
MOB2	81532	broad.mit.edu	37	chr11	1492537	1492537	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agacgaaccgtattttgtggGgaacacgtcctcatccgtca	10	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:1492537G>A	uc010qwz.1	-	4	668	c.478C>T	c.(478-480)CCC>TCC	p.P160S	MOB2_uc001lto.1_Missense_Mutation_p.P44S|MOB2_uc001ltp.1_5'UTR|MOB2_uc001ltq.1_Missense_Mutation_p.P123S|MOB2_uc010qwy.1_Missense_Mutation_p.P44S	NM_053005	NP_443731	Q70IA6	MOB2_HUMAN	HCCA2 protein	129						nucleus|perinuclear region of cytoplasm	metal ion binding				0						TATTTTGTGGGGAACACGTCC	0.592													8	19	---	---	---	---	PASS	A	1492537	A	A	1492537	3	1	4	1	0	0	0	0	1	0	0	0	9681	1232	43	3	336	3	MOB2	11	1492537	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	218783	1492537	133513979	2130	2721										
KRTAP5-1	387264	broad.mit.edu	37	chr11	1606160	1606160	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccacaagagccacagcccCccttggagcccccacaggag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:1606160C>T	uc001ltu.1	-	1	354	c.320G>A	c.(319-321)GGG>GAG	p.G107E	LOC338651_uc009ycx.1_Intron|LOC338651_uc001ltt.1_Intron	NM_001005922	NP_001005922	Q6L8H4	KRA51_HUMAN	keratin associated protein 5-1	107	8 X 4 AA repeats of C-C-X-P.					keratin filament					0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GCCACAGCCCCCCTTGGAGCC	0.672													4	21	---	---	---	---	PASS	T	1606160	T	T	1606160	3	4	4	1	0	0	0	0	1	0	0	0	8558	623	22	3	520	3	KRTAP5-1	11	1606160	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	113623	1606160	133400356	2131	2722	102	2								
KRTAP5-1	387264	broad.mit.edu	37	chr11	1606161	1606161	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccacaagagccacagccccCcttggagcccccacaggagc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:1606161C>T	uc001ltu.1	-	1	353	c.319G>A	c.(319-321)GGG>AGG	p.G107R	LOC338651_uc009ycx.1_Intron|LOC338651_uc001ltt.1_Intron	NM_001005922	NP_001005922	Q6L8H4	KRA51_HUMAN	keratin associated protein 5-1	107	8 X 4 AA repeats of C-C-X-P.					keratin filament					0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		CCACAGCCCCCCTTGGAGCCC	0.672													4	21	---	---	---	---	PASS	T	1606161	T	T	1606161	3	4	4	1	0	0	0	0	1	0	0	0	8558	623	22	3	521	3	KRTAP5-1	11	1606161	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	1606161	133400355	2132	2723	102	2								
KRTAP5-5	439915	broad.mit.edu	37	chr11	1651422	1651422	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgtggggggtccaaggggGgctgtggctcctgtgggggg	23	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:1651422G>A	uc001lty.2	+	1	390	c.352G>A	c.(352-354)GGC>AGC	p.G118S		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	118	8 X 4 AA repeats of C-C-X-P.			Missing (in Ref. 1; BAD20201 and 2; CAF31639).		keratin filament				lung(1)	1		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GTCCAAGGGGGGCTGTGGCTC	0.701													7	19	---	---	---	---	PASS	A	1651422	A	A	1651422	3	1	4	1	0	0	0	0	1	0	0	0	8564	1232	43	3	354	3	KRTAP5-5	11	1651422	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	45261	1651422	133355094	2133	2724										
KRTAP5-5	439915	broad.mit.edu	37	chr11	1651541	1651541	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttatggctgctcccagtcCagctgctgcaagccctgctg	10	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:1651541C>T	uc001lty.2	+	1	509	c.471C>T	c.(469-471)TCC>TCT	p.S157S		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	157	8 X 4 AA repeats of C-C-X-P.			S -> C (in Ref. 1; BAD20201 and 2; CAF31639).		keratin filament				lung(1)	1		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GCTCCCAGTCCAGCTGCTGCA	0.652													6	19	---	---	---	---	PASS	T	1651541	T	T	1651541	2	4	4	1	0	0	0	0	0	0	0	1	8564	581	21	3		3	KRTAP5-5	11	1651541	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	119	1651541	133354975	2134	2725										
TRPM5	29850	broad.mit.edu	37	chr11	2434714	2434714	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcctcacccacctgaaggtGatgaggttggtatagacgag	14	9	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:2434714G>A	uc001lwm.3	-	13	2004	c.1995C>T	c.(1993-1995)ATC>ATT	p.I665I	TRPM5_uc010qxl.1_Silent_p.I665I|TRPM5_uc009ydn.2_Silent_p.I667I	NM_014555	NP_055370	Q9NZQ8	TRPM5_HUMAN	transient receptor potential cation channel,	665	Helical; (Potential).					integral to membrane|plasma membrane	receptor activity|voltage-gated ion channel activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Medulloblastoma(188;0.0049)|Breast(177;0.00586)|all_epithelial(84;0.0075)|Ovarian(85;0.0256)|all_neural(188;0.0311)		BRCA - Breast invasive adenocarcinoma(625;0.00147)|LUSC - Lung squamous cell carcinoma(625;0.191)		ACCTGAAGGTGATGAGGTTGG	0.682													4	7	---	---	---	---	PASS	A	2434714	A	A	2434714	2	1	4	1	0	0	0	0	0	0	0	1	16586	1280	45	2		2	TRPM5	11	2434714	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	783173	2434714	132571802	2135	2726										
STIM1	6786	broad.mit.edu	37	chr11	4091353	4091353	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatatccagaaccgttactcCaaggagcacatgaagaagat	8	9	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:4091353C>T	uc001lyv.2	+	6	1279	c.711C>T	c.(709-711)TCC>TCT	p.S237S	STIM1_uc009yef.2_Silent_p.S237S|STIM1_uc009yeg.2_Silent_p.S64S	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	237	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		ACCGTTACTCCAAGGAGCACA	0.522													22	42	---	---	---	---	PASS	T	4091353	T	T	4091353	2	4	4	1	0	0	0	0	0	0	0	1	15282	581	21	3		3	STIM1	11	4091353	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1656639	4091353	130915163	2136	2727										
OR51S1	119692	broad.mit.edu	37	chr11	4869963	4869963	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagatggagacccaggcatCgaaaagaaatggccaggctg	14	9	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:4869963C>T	uc010qyo.1	-	1	476	c.476G>A	c.(475-477)CGA>CAA	p.R159Q		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACCCAGGCATCGAAAAGAAAT	0.542													33	45	---	---	---	---	PASS	T	4869963	T	T	4869963	3	4	4	1	0	0	0	0	1	0	0	0	11105	884	31	2	498	2	OR51S1	11	4869963	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	778610	4869963	130136553	2137	2728										
MMP26	56547	broad.mit.edu	37	chr11	5012670	5012670	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcctttttaccaaattctgGaaatcctggagttgtccatt	7	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:5012670G>A	uc001lzv.2	+	4	557	c.539G>A	c.(538-540)GGA>GAA	p.G180E		NM_021801	NP_068573	Q9NRE1	MMP26_HUMAN	matrix metalloproteinase 26 preproprotein	180					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Medulloblastoma(188;0.0025)|Breast(177;0.0204)|all_neural(188;0.0227)		Epithelial(150;1.33e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0287)|LUSC - Lung squamous cell carcinoma(625;0.191)		CCAAATTCTGGAAATCCTGGA	0.473													27	127	---	---	---	---	PASS	A	5012670	A	A	5012670	3	1	4	1	0	0	0	0	1	0	0	0	9663	1174	41	2	553	2	MMP26	11	5012670	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	142707	5012670	129993846	2138	2729										
OR52E2	119678	broad.mit.edu	37	chr11	5079909	5079909	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtatgtattaggtactcttCcttttccattccttgttcct	5	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:5079909C>T	uc010qyw.1	-	1	949	c.949G>A	c.(949-951)GAA>AAA	p.E317K		NM_001005164	NP_001005164	Q8NGJ4	O52E2_HUMAN	olfactory receptor, family 52, subfamily E,	317	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.03e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.191)		AGGTACTCTTCCTTTTCCATT	0.338													19	31	---	---	---	---	PASS	T	5079909	T	T	5079909	3	4	4	1	0	0	0	0	1	0	0	0	11115	864	30	2	31	2	OR52E2	11	5079909	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	67239	5079909	129926607	2139	2730										
HBD	3045	broad.mit.edu	37	chr11	5254288	5254288	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaattccttgccaaagttgCgggccagcacacacaccagc	9	14	0	1	rs34536353		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:5254288C>T	uc001maf.1	-	3	545	c.350G>A	c.(349-351)CGC>CAC	p.R117H		NM_000519	NP_000510	P02042	HBD_HUMAN	delta globin	117					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;5.69e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCCAAAGTTGCGGGCCAGCAC	0.512													20	36	---	---	---	---	PASS	T	5254288	T	T	5254288	3	4	4	1	0	0	0	0	1	0	0	0	6979	768	27	1	97	1	HBD	11	5254288	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	174379	5254288	129752228	2140	2731										
OR51B4	79339	broad.mit.edu	37	chr11	5322575	5322575	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catctaaaaagacagtcaaaGaagtctgaataattggatat	7	5	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:5322575G>A	uc010qza.1	-	1	602	c.602C>T	c.(601-603)TCT>TTT	p.S201F	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033179	NP_149419	Q9Y5P0	O51B4_HUMAN	olfactory receptor, family 51, subfamily B,	201	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GACAGTCAAAGAAGTCTGAAT	0.393													11	34	---	---	---	---	PASS	A	5322575	A	A	5322575	3	1	4	1	0	0	0	0	1	0	0	0	11090	942	33	2	333	2	OR51B4	11	5322575	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	68287	5322575	129683941	2141	2732										
OR51B2	79345	broad.mit.edu	37	chr11	5345101	5345101	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttagaaacactcccactcCtaacgctatgactctagtat	4	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:5345101C>T	uc001mao.1	-	1	482	c.427G>A	c.(427-429)GGA>AGA	p.G143R	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTCCCACTCCTAACGCTATG	0.408													37	42	---	---	---	---	PASS	T	5345101	T	T	5345101	3	4	4	1	0	0	0	0	1	0	0	0	11089	690	24	3	515	3	OR51B2	11	5345101	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	22526	5345101	129661415	2142	2733										
OR51B6	390058	broad.mit.edu	37	chr11	5373580	5373580	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctacatccacttccttttCccaccttttatgaacccatt	2	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:5373580C>T	uc010qzb.1	+	1	843	c.843C>T	c.(841-843)TTC>TTT	p.F281F	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	281	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTTCCTTTTCCCACCTTTTA	0.383													7	44	---	---	---	---	PASS	T	5373580	T	T	5373580	2	4	4	1	0	0	0	0	0	0	0	1	11092	854	30	2		2	OR51B6	11	5373580	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	28479	5373580	129632936	2143	2734										
OR51M1	390059	broad.mit.edu	37	chr11	5410988	5410988	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctgcatccactctttttcCttcatggagtcctcagtgct	6	13	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:5410988C>T	uc010qzc.1	+	1	360	c.360C>T	c.(358-360)TCC>TCT	p.S120S	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,	120						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)		ACTCTTTTTCCTTCATGGAGT	0.502													26	124	---	---	---	---	PASS	T	5410988	T	T	5410988	2	4	4	1	0	0	0	0	0	0	0	1	11103	668	24	3		3	OR51M1	11	5410988	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	37408	5410988	129595528	2144	2735										
OR52D1	390066	broad.mit.edu	37	chr11	5509997	5509997	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttcttcttaacagggatcCcagggctggaggctgcccac	11	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:5509997C>T	uc010qzg.1	+	1	61	c.61C>T	c.(61-63)CCA>TCA	p.P21S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005163	NP_001005163	Q9H346	O52D1_HUMAN	olfactory receptor, family 52, subfamily D,	21	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.46e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AACAGGGATCCCAGGGCTGGA	0.483													8	36	---	---	---	---	PASS	T	5509997	T	T	5509997	3	4	4	1	0	0	0	0	1	0	0	0	11114	623	22	3	63	3	OR52D1	11	5509997	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	99009	5509997	129496519	2145	2736										
UBQLN3	50613	broad.mit.edu	37	chr11	5530073	5530073	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctccaagttactgagcaccCggtcctggctacgtatcatc	8	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:5530073C>A	uc001may.1	-	2	802	c.716G>T	c.(715-717)CGG>CTG	p.R239L	HBG2_uc001mak.1_Intron	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	239										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTGAGCACCCGGTCCTGGCT	0.483													5	59	---	---	---	---	PASS	A	5530073	A	A	5530073	3	1	4	1	0	0	0	0	1	0	0	0	16895	652	23	1	1255	1	UBQLN3	11	5530073	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	20076	5530073	129476443	2146	2737										
OR52N4	390072	broad.mit.edu	37	chr11	5776770	5776770	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcttttcccaccgctttgGggaacacataatcccccctt	5	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:5776770G>A	uc001mbu.2	+	1	848	c.800G>A	c.(799-801)GGG>GAG	p.G267E	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005175	NP_001005175	Q8NGI2	O52N4_HUMAN	olfactory receptor, family 52, subfamily N,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;1.87e-10)|LUSC - Lung squamous cell carcinoma(625;0.114)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.197)		CACCGCTTTGGGGAACACATA	0.463													20	73	---	---	---	---	PASS	A	5776770	A	A	5776770	3	1	4	1	0	0	0	0	1	0	0	0	11129	1232	43	3	802	3	OR52N4	11	5776770	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	246697	5776770	129229746	2147	2738										
OR52E6	390078	broad.mit.edu	37	chr11	5863044	5863044	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagaaaaaagggaatccaatCcagatgtgcacatcttctag	9	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:5863044C>T	uc010qzq.1	-	1	84	c.84G>A	c.(82-84)TGG>TGA	p.W28*	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	28	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGAATCCAATCCAGATGTGCA	0.443													39	72	---	---	---	---	PASS	T	5863044	T	T	5863044	4	4	4	1	0	0	0	0	0	1	0	0	11117	856	30	2	859	2	OR52E6	11	5863044	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	86274	5863044	129143472	2148	2739										
OR56A3	390083	broad.mit.edu	37	chr11	5968751	5968751	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatctggctggaggcctctCtgcaccagcccctgtactac	9	17	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:5968751C>T	uc010qzt.1	+	1	175	c.175C>T	c.(175-177)CTG>TTG	p.L59L		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	59	Helical; Name=2; (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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGAGGCCTCTCTGCACCAGCC	0.612													27	26	---	---	---	---	PASS	T	5968751	T	T	5968751	2	4	4	1	0	0	0	0	0	0	0	1	11134	912	32	2		2	OR56A3	11	5968751	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	105707	5968751	129037765	2149	2740										
OR56A1	120796	broad.mit.edu	37	chr11	6048179	6048179	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaagaaaagaatgaggatGaagtgggagccacatgtgct	14	5	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:6048179G>A	uc010qzw.1	-	1	756	c.756C>T	c.(754-756)TTC>TTT	p.F252F		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	252	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAATGAGGATGAAGTGGGAGC	0.512													17	22	---	---	---	---	PASS	A	6048179	A	A	6048179	2	1	4	1	0	0	0	0	0	0	0	1	11133	1281	45	2		2	OR56A1	11	6048179	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	79428	6048179	128958337	2150	2741										
HPX	3263	broad.mit.edu	37	chr11	6452588	6452588	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttggcggaacatgagttaggGccaagggacttttccataca	12	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:6452588G>A	uc001mdg.2	-	10	1303	c.1242C>T	c.(1240-1242)GGC>GGT	p.G414G	HPX_uc001mdf.2_Silent_p.G160G|HPX_uc009yfc.2_RNA	NM_000613	NP_000604	P02790	HEMO_HUMAN	hemopexin precursor	414					cellular iron ion homeostasis|interspecies interaction between organisms	extracellular space	heme transporter activity|metal ion binding|protein binding				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;5.46e-08)|BRCA - Breast invasive adenocarcinoma(625;0.19)		ATGAGTTAGGGCCAAGGGACT	0.552													18	30	---	---	---	---	PASS	A	6452588	A	A	6452588	2	1	4	1	0	0	0	0	0	0	0	1	7346	1190	42	3		3	HPX	11	6452588	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	404409	6452588	128553928	2151	2742										
TRIM3	10612	broad.mit.edu	37	chr11	6477540	6477540	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgtaccaacacggaagacGagctcatcctcaattgggtt	9	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:6477540G>A	uc001mdh.2	-	7	1803	c.1416C>T	c.(1414-1416)CTC>CTT	p.L472L	TRIM3_uc001mdi.2_Silent_p.L472L|TRIM3_uc010raj.1_Silent_p.L353L|TRIM3_uc009yfd.2_Silent_p.L472L|TRIM3_uc010rak.1_Silent_p.L472L|TRIM3_uc001mdj.2_Silent_p.L353L	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	472					nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding			central_nervous_system(2)|large_intestine(1)|ovary(1)|skin(1)	5		all_lung(207;9.97e-06)|Lung NSC(207;1.74e-05)|Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;9.34e-10)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.133)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CACGGAAGACGAGCTCATCCT	0.607													7	41	---	---	---	---	PASS	A	6477540	A	A	6477540	2	1	4	1	0	0	0	0	0	0	0	1	16501	1045	37	2		2	TRIM3	11	6477540	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	24952	6477540	128528976	2152	2743										
DCHS1	8642	broad.mit.edu	37	chr11	6649925	6649925	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgaagcatggtaagggtctgGgggtcctggccctcaggcac	16	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:6649925G>A	uc001mem.1	-	13	5708	c.5298C>T	c.(5296-5298)CCC>CCT	p.P1766P		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1766	Cadherin 17.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TAAGGGTCTGGGGGTCCTGGC	0.572													16	23	---	---	---	---	PASS	A	6649925	A	A	6649925	2	1	4	1	0	0	0	0	0	0	0	1	4287	1219	43	3		3	DCHS1	11	6649925	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	172385	6649925	128356591	2153	2744										
DCHS1	8642	broad.mit.edu	37	chr11	6651036	6651036	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagcgacactgacggtcagGacctgcgtggccgagcgcgg	16	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:6651036G>A	uc001mem.1	-	11	5312	c.4902C>T	c.(4900-4902)GTC>GTT	p.V1634V		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1634	Cadherin 15.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGACGGTCAGGACCTGCGTGG	0.642													10	11	---	---	---	---	PASS	A	6651036	A	A	6651036	2	1	4	1	0	0	0	0	0	0	0	1	4287	1161	41	2		2	DCHS1	11	6651036	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1111	6651036	128355480	2154	2745										
OR10A2	341276	broad.mit.edu	37	chr11	6891165	6891165	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctttcctggagattggcttCaacctagtcattgtgcccaa	8	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:6891165C>T	uc001meu.1	+	1	180	c.180C>T	c.(178-180)TTC>TTT	p.F60F		NM_001004460	NP_001004460	Q9H208	O10A2_HUMAN	olfactory receptor, family 10, subfamily A,	60	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.89e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		AGATTGGCTTCAACCTAGTCA	0.493													16	63	---	---	---	---	PASS	T	6891165	T	T	6891165	2	4	4	1	0	0	0	0	0	0	0	1	10890	825	29	2		2	OR10A2	11	6891165	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	240129	6891165	128115351	2155	2746										
NLRP14	338323	broad.mit.edu	37	chr11	7064414	7064414	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagcagcaaatggagaaggGtggtgatgtcacattgacct	14	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:7064414G>A	uc001mfb.1	+	4	1480	c.1157G>A	c.(1156-1158)GGT>GAT	p.G386D		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	386	NACHT.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		ATGGAGAAGGGTGGTGATGTC	0.478													16	67	---	---	---	---	PASS	A	7064414	A	A	7064414	3	1	4	1	0	0	0	0	1	0	0	0	10476	1261	44	3	1167	3	NLRP14	11	7064414	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	173249	7064414	127942102	2156	2747										
NLRP10	338322	broad.mit.edu	37	chr11	7984936	7984936	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggctggccctcagacaggGtcatatcccgtaagtagaac	13	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:7984936G>A	uc001mfv.1	-	1	124	c.107C>T	c.(106-108)ACC>ATC	p.T36I		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	36	DAPIN.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CTCAGACAGGGTCATATCCCG	0.537													17	24	---	---	---	---	PASS	A	7984936	A	A	7984936	3	1	4	1	0	0	0	0	1	0	0	0	10472	1261	44	3	1868	3	NLRP10	11	7984936	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	920522	7984936	127021580	2157	2748										
LYVE1	10894	broad.mit.edu	37	chr11	10585793	10585793	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaggctgtttcaacttggtCcttgccggccaaacttagtc	9	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:10585793C>T	uc001miv.2	-	2	500	c.214G>A	c.(214-216)GAC>AAC	p.D72N	uc001miu.2_Intron|LYVE1_uc010rca.1_Intron	NM_006691	NP_006682	Q9Y5Y7	LYVE1_HUMAN	lymphatic vessel endothelial hyaluronan receptor	72	Link.|Extracellular (Potential).				anatomical structure morphogenesis|cell-matrix adhesion|cellular component movement|response to wounding|transport	integral to plasma membrane|membrane fraction				central_nervous_system(1)|skin(1)	2				all cancers(16;7.22e-08)|Epithelial(150;1.03e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0609)		TCAACTTGGTCCTTGCCGGCC	0.478													10	21	---	---	---	---	PASS	T	10585793	T	T	10585793	3	4	4	1	0	0	0	0	1	0	0	0	9129	855	30	2	774	2	LYVE1	11	10585793	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2600857	10585793	124420723	2158	2749										
COPB1	1315	broad.mit.edu	37	chr11	14480174	14480174	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatttgcaagtgcatcttcAccaaatatggaacgagcata	7	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:14480174A>C	uc001mli.2	-	21	3013	c.2706T>G	c.(2704-2706)GGT>GGG	p.G902G	COPB1_uc001mlg.2_Silent_p.G902G|COPB1_uc001mlh.2_Silent_p.G902G	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	902					COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						GTGCATCTTCACCAAATATGG	0.428													23	58	---	---	---	---	PASS	C	14480174	C	C	14480174	2	2	4	1	0	0	0	0	0	0	0	1	3728	146	6	5		5	COPB1	11	14480174	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	3894381	14480174	120526342	2159	2750										
ABCC8	6833	broad.mit.edu	37	chr11	17485036	17485036	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcagcatcccatagaggatCaccagcagccctgtgaggca	11	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:17485036C>T	uc001mnc.2	-	4	654	c.528G>A	c.(526-528)GTG>GTA	p.V176V	ABCC8_uc010rcy.1_Silent_p.V176V	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	176	Helical; Name=5; (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)	CATAGAGGATCACCAGCAGCC	0.597													5	8	---	---	---	---	PASS	T	17485036	T	T	17485036	2	4	4	1	0	0	0	0	0	0	0	1	58	813	29	2		2	ABCC8	11	17485036	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3004862	17485036	117521480	2160	2751										
TSG101	7251	broad.mit.edu	37	chr11	18503269	18503269	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcgttttcttctgcatacaGattcaggatctgtttgtata	8	7	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:18503269G>A	uc001mor.2	-	9	1117	c.991C>T	c.(991-993)CTG>TTG	p.L331L		NM_006292	NP_006283	Q99816	TS101_HUMAN	tumor susceptibility gene 101	331	SB.				cell division|cellular membrane organization|endosome transport|interspecies interaction between organisms|non-lytic virus budding|protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	early endosome|late endosome membrane|multivesicular body|nucleolus|plasma membrane	calcium-dependent protein binding|DNA binding|transcription corepressor activity|ubiquitin binding|ubiquitin protein ligase binding				0						TCTGCATACAGATTCAGGATC	0.403													24	47	---	---	---	---	PASS	A	18503269	A	A	18503269	2	1	4	1	0	0	0	0	0	0	0	1	16613	933	33	2		2	TSG101	11	18503269	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1018233	18503269	116503247	2161	2752										
NAV2	89797	broad.mit.edu	37	chr11	20112443	20112443	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catggatagtgaagctgagaCcgtcatgcagctccgaaatg	12	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:20112443C>T	uc001mpr.3	+	27	5901	c.5540C>T	c.(5539-5541)ACC>ATC	p.T1847I	NAV2_uc001mpp.2_Missense_Mutation_p.T1780I|NAV2_uc009yhx.2_Missense_Mutation_p.T908I|NAV2_uc009yhz.2_Missense_Mutation_p.T489I|NAV2_uc001mpu.2_Missense_Mutation_p.T282I	NM_182964	NP_892009	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 1	1903	Potential.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						GAAGCTGAGACCGTCATGCAG	0.488													15	27	---	---	---	---	PASS	T	20112443	T	T	20112443	3	4	4	1	0	0	0	0	1	0	0	0	10184	507	18	3	5755	3	NAV2	11	20112443	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1609174	20112443	114894073	2162	2753										
DBX1	120237	broad.mit.edu	37	chr11	20178223	20178223	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtcgggtgcaggctctgtcCttcgggctgtgtcctctccc	13	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:20178223C>T	uc001mpw.1	-	4	686	c.686G>A	c.(685-687)AGG>AAG	p.R229K		NM_001029865	NP_001025036	A6NMT0	DBX1_HUMAN	developing brain homeobox 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGGCTCTGTCCTTCGGGCTGT	0.667													4	16	---	---	---	---	PASS	T	20178223	T	T	20178223	3	4	4	1	0	0	0	0	1	0	0	0	4259	681	24	3	466	3	DBX1	11	20178223	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	65780	20178223	114828293	2163	2754										
HTATIP2	10553	broad.mit.edu	37	chr11	20385820	20385820	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctgtcgaagcttcgggaaGacttcaggatgcagaataaa	11	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:20385820G>A	uc009yia.1	+	2	103	c.37G>A	c.(37-39)GAC>AAC	p.D13N	HTATIP2_uc009yib.1_Missense_Mutation_p.D13N|HTATIP2_uc001mpx.2_Missense_Mutation_p.D47N|HTATIP2_uc001mpz.2_Missense_Mutation_p.D13N|HTATIP2_uc001mpy.3_Missense_Mutation_p.D13N	NM_006410	NP_006401	Q9BUP3	HTAI2_HUMAN	HIV-1 Tat interactive protein 2, 30kDa isoform	13					angiogenesis|anti-apoptosis|apoptosis|cell differentiation|cellular amino acid metabolic process|induction of apoptosis|interspecies interaction between organisms|nuclear import|regulation of angiogenesis|regulation of transcription from RNA polymerase II promoter	cytoplasm|nuclear envelope	NAD binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor|protein binding|transcription coactivator activity				0						GCTTCGGGAAGACTTCAGGAT	0.527													29	47	---	---	---	---	PASS	A	20385820	A	A	20385820	3	1	4	1	0	0	0	0	1	0	0	0	7432	942	33	2	145	2	HTATIP2	11	20385820	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	207597	20385820	114620696	2164	2755										
ANO5	203859	broad.mit.edu	37	chr11	22283680	22283680	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttttaacttaacagaaattCctcgaacataccaggagtat	5	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:22283680C>T	uc001mqi.2	+	16	1953	c.1636C>T	c.(1636-1638)CCT>TCT	p.P546S	ANO5_uc001mqj.2_Missense_Mutation_p.P545S	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	546	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						AACAGAAATTCCTCGAACATA	0.343													13	26	---	---	---	---	PASS	T	22283680	T	T	22283680	3	4	4	1	0	0	0	0	1	0	0	0	700	855	30	2	1698	2	ANO5	11	22283680	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1897860	22283680	112722836	2165	2756										
SLC17A6	57084	broad.mit.edu	37	chr11	22360119	22360119	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggattttggccccaggaaaaGaggggctaaagaattttgct	13	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:22360119G>A	uc001mqk.2	+	1	453	c.40G>A	c.(40-42)GAG>AAG	p.E14K		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	14	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						CCCAGGAAAAGAGGGGCTAAA	0.438													15	33	---	---	---	---	PASS	A	22360119	A	A	22360119	3	1	4	1	0	0	0	0	1	0	0	0	14421	943	33	2	42	2	SLC17A6	11	22360119	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	76439	22360119	112646397	2166	2757										
KCNA4	3739	broad.mit.edu	37	chr11	30032975	30032975	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccaggtcagtgcccagtgtGatgaagtaaggcaaaatgga	14	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:30032975G>A	uc001msk.2	-	2	2403	c.1251C>T	c.(1249-1251)ATC>ATT	p.I417I		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	417	Helical; Name=Segment S3; (Potential).					voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGCCCAGTGTGATGAAGTAAG	0.507													27	33	---	---	---	---	PASS	A	30032975	A	A	30032975	2	1	4	1	0	0	0	0	0	0	0	1	8005	1280	45	2		2	KCNA4	11	30032975	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	7672856	30032975	104973541	2167	2758										
MPPED2	744	broad.mit.edu	37	chr11	30433031	30433031	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcttcaggaaccctgtgggTttggaaggtcaaatataatt	11	6	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:30433031T>C	uc001msr.2	-	6	989	c.869A>G	c.(868-870)AAC>AGC	p.N290S	MPPED2_uc001msq.3_Intron|MPPED2_uc009yji.2_Missense_Mutation_p.N164S	NM_001584	NP_001575	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2	290					nervous system development		hydrolase activity|metal ion binding			skin(1)	1						ACCCTGTGGGTTTGGAAGGTC	0.413													19	28	---	---	---	---	PASS	C	30433031	C	C	30433031	3	2	4	1	0	0	0	0	1	0	0	0	9742	1725	60	5	91	5	MPPED2	11	30433031	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	400056	30433031	104573485	2168	2759										
CSTF3	1479	broad.mit.edu	37	chr11	33117897	33117897	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ataggccaggacatactctgGaatgtctccatattttttta	7	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:33117897G>A	uc001muh.2	-	15	1496	c.1330C>T	c.(1330-1332)CCA>TCA	p.P444S	TCP11L1_uc001muf.1_Intron	NM_001326	NP_001317	Q12996	CSTF3_HUMAN	cleavage stimulation factor subunit 3 isoform 1	444					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding				0						ACATACTCTGGAATGTCTCCA	0.333													4	18	---	---	---	---	PASS	A	33117897	A	A	33117897	3	1	4	1	0	0	0	0	1	0	0	0	3986	1174	41	2	851	2	CSTF3	11	33117897	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2684866	33117897	101888619	2169	2760										
C11orf41	25758	broad.mit.edu	37	chr11	33566521	33566521	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggccgcatctggcccaaaGaggacaccaggggcagtcca	13	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:33566521G>A	uc001mup.3	+	2	2233	c.2109G>A	c.(2107-2109)AAG>AAA	p.K703K	C11orf41_uc001mun.1_Silent_p.K703K	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	697						integral to membrane				ovary(2)	2						CTGGCCCAAAGAGGACACCAG	0.527													12	41	---	---	---	---	PASS	A	33566521	A	A	33566521	2	1	4	1	0	0	0	0	0	0	0	1	1640	933	33	2		2	C11orf41	11	33566521	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	448624	33566521	101439995	2170	2761										
NAT10	55226	broad.mit.edu	37	chr11	34152386	34152386	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggcactggccggtcactgtCcctcaagctaattcagcagc	11	14	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:34152386C>T	uc001mvk.2	+	13	1515	c.1271C>T	c.(1270-1272)TCC>TTC	p.S424F	NAT10_uc010ren.1_Missense_Mutation_p.S352F	NM_024662	NP_078938	Q9H0A0	NAT10_HUMAN	N-acetyltransferase 10 isoform a	424						nucleolus	ATP binding|N-acetyltransferase activity|protein binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0119)|all_hematologic(20;0.0231)				CGGTCACTGTCCCTCAAGCTA	0.542													9	34	---	---	---	---	PASS	T	34152386	T	T	34152386	3	4	4	1	0	0	0	0	1	0	0	0	10174	855	30	2	1317	2	NAT10	11	34152386	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	585865	34152386	100854130	2171	2762										
SLC1A2	6506	broad.mit.edu	37	chr11	35308473	35308473	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagattttcttccaggcaacGaaaggtgacaggcaaagttc	10	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:35308473G>A	uc001mwd.2	-	8	1709	c.1117C>T	c.(1117-1119)CGT>TGT	p.R373C	SLC1A2_uc001mwe.2_Missense_Mutation_p.R364C|SLC1A2_uc010rev.1_Missense_Mutation_p.R373C	NM_004171	NP_004162	P43004	EAA2_HUMAN	excitatory amino acid transporter 2	373					D-aspartate import|L-glutamate import|synaptic transmission	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity	p.T371fs*13(1)		ovary(2)|central_nervous_system(1)	3	all_lung(20;0.211)|all_epithelial(35;0.234)	all_hematologic(20;0.109)	STAD - Stomach adenocarcinoma(6;0.00731)		L-Glutamic Acid(DB00142)	TCCAGGCAACGAAAGGTGACA	0.453													30	99	---	---	---	---	PASS	A	35308473	A	A	35308473	3	1	4	1	0	0	0	0	1	0	0	0	14432	1058	37	2	623	2	SLC1A2	11	35308473	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1156087	35308473	99698043	2172	2763										
SLC1A2	6506	broad.mit.edu	37	chr11	35313888	35313888	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaaatgccagcaaaaaagGagaaggggtttttcctggtc	13	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:35313888G>A	uc001mwd.2	-	7	1629	c.1037C>T	c.(1036-1038)TCC>TTC	p.S346F	SLC1A2_uc001mwe.2_Missense_Mutation_p.S337F|SLC1A2_uc010rev.1_Missense_Mutation_p.S346F	NM_004171	NP_004162	P43004	EAA2_HUMAN	excitatory amino acid transporter 2	346					D-aspartate import|L-glutamate import|synaptic transmission	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|central_nervous_system(1)	3	all_lung(20;0.211)|all_epithelial(35;0.234)	all_hematologic(20;0.109)	STAD - Stomach adenocarcinoma(6;0.00731)		L-Glutamic Acid(DB00142)	AGCAAAAAAGGAGAAGGGGTT	0.478													79	127	---	---	---	---	PASS	A	35313888	A	A	35313888	3	1	4	1	0	0	0	0	1	0	0	0	14432	1174	41	2	707	2	SLC1A2	11	35313888	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5415	35313888	99692628	2173	2764										
PRR5L	79899	broad.mit.edu	37	chr11	36467879	36467879	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgactatccgccagatctcCctgctgggcttccgagacct	9	16	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:36467879C>T	uc001mwo.3	+	7	863	c.474C>T	c.(472-474)TCC>TCT	p.S158S	PRR5L_uc001mwp.2_Silent_p.S158S|PRR5L_uc009ykk.2_Intron|PRR5L_uc010rfc.1_Silent_p.S158S	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	158										ovary(1)	1						GCCAGATCTCCCTGCTGGGCT	0.607													11	22	---	---	---	---	PASS	T	36467879	T	T	36467879	2	4	4	1	0	0	0	0	0	0	0	1	12602	610	22	3		3	PRR5L	11	36467879	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1153991	36467879	98538637	2174	2765										
PRDM11	56981	broad.mit.edu	37	chr11	45203363	45203363	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggcccagaccaatgcagccGtgggggatatggtgacggtg	17	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:45203363G>C	uc001myo.2	+	3	397	c.148G>C	c.(148-150)GTG>CTG	p.V50L		NM_020229	NP_064614	Q9NQV5	PRD11_HUMAN	PR domain containing 11	50										upper_aerodigestive_tract(1)	1						CAATGCAGCCGTGGGGGATAT	0.592													13	43	---	---	---	---	PASS	C	45203363	C	C	45203363	3	2	4	1	0	0	0	0	1	0	0	0	12452	1145	40	4	154	4	PRDM11	11	45203363	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	8735484	45203363	89803153	2175	2766										
CHST1	8534	broad.mit.edu	37	chr11	45672150	45672150	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acccgccggtcggccgggctCttgccctgggtgaagcgggg	18	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:45672150C>T	uc001mys.1	-	4	995	c.324G>A	c.(322-324)AAG>AAA	p.K108K		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	108	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CGGCCGGGCTCTTGCCCTGGG	0.637													8	22	---	---	---	---	PASS	T	45672150	T	T	45672150	2	4	4	1	0	0	0	0	0	0	0	1	3397	912	32	2		2	CHST1	11	45672150	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	468787	45672150	89334366	2176	2767										
CHRM4	1132	broad.mit.edu	37	chr11	46407137	46407137	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcggctgcaggggaggggcgGgcatggcgggcgtggtggcc	25	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:46407137G>A	uc001nct.1	-	1	971	c.971C>T	c.(970-972)CCC>CTC	p.P324L		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	324	Cytoplasmic (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	GGGAGGGGCGGGCATGGCGGG	0.622													15	38	---	---	---	---	PASS	A	46407137	A	A	46407137	3	1	4	1	0	0	0	0	1	0	0	0	3379	1232	43	3	472	3	CHRM4	11	46407137	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	734987	46407137	88599379	2177	2768										
MADD	8567	broad.mit.edu	37	chr11	47297704	47297704	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttcccttggaacttctagGtgtggacgcctgtctccagg	11	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:47297704G>A	uc001ner.1	+	4	1105	c.914G>A	c.(913-915)GGT>GAT	p.G305D	MADD_uc001neq.2_Missense_Mutation_p.G305D|MADD_uc001nev.1_Missense_Mutation_p.G305D|MADD_uc001nes.1_Missense_Mutation_p.G305D|MADD_uc001net.1_Missense_Mutation_p.G305D|MADD_uc009yln.1_Missense_Mutation_p.G305D|MADD_uc001neu.1_Missense_Mutation_p.G305D|MADD_uc001nex.2_Missense_Mutation_p.G305D|MADD_uc001nez.2_Missense_Mutation_p.G305D|MADD_uc001new.2_Missense_Mutation_p.G305D	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	305	DENN.				activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		GAACTTCTAGGTGTGGACGCC	0.517													12	17	---	---	---	---	PASS	A	47297704	A	A	47297704	3	1	4	1	0	0	0	0	1	0	0	0	9152	1261	44	3	924	3	MADD	11	47297704	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	890567	47297704	87708812	2178	2769										
MADD	8567	broad.mit.edu	37	chr11	47306552	47306552	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taggcgtctccaagcccctcCcttccgtgcctcccagcatt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:47306552C>T	uc001ner.1	+	13	2409	c.2218C>T	c.(2218-2220)CCT>TCT	p.P740S	MADD_uc001neq.2_Missense_Mutation_p.P740S|MADD_uc001nev.1_Missense_Mutation_p.P740S|MADD_uc001nes.1_Missense_Mutation_p.P740S|MADD_uc001net.1_Missense_Mutation_p.P740S|MADD_uc009yln.1_Missense_Mutation_p.P740S|MADD_uc001neu.1_Missense_Mutation_p.P740S|MADD_uc001nex.2_Missense_Mutation_p.P740S|MADD_uc001nez.2_Missense_Mutation_p.P740S|MADD_uc001new.2_Missense_Mutation_p.P740S	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	740					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		CAAGCCCCTCCCTTCCGTGCC	0.537													13	24	---	---	---	---	PASS	T	47306552	T	T	47306552	3	4	4	1	0	0	0	0	1	0	0	0	9152	623	22	3	2264	3	MADD	11	47306552	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	8848	47306552	87699964	2179	2770	103	2								
MADD	8567	broad.mit.edu	37	chr11	47306553	47306553	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcgtctccaagcccctccCttccgtgcctcccagcattg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:47306553C>T	uc001ner.1	+	13	2410	c.2219C>T	c.(2218-2220)CCT>CTT	p.P740L	MADD_uc001neq.2_Missense_Mutation_p.P740L|MADD_uc001nev.1_Missense_Mutation_p.P740L|MADD_uc001nes.1_Missense_Mutation_p.P740L|MADD_uc001net.1_Missense_Mutation_p.P740L|MADD_uc009yln.1_Missense_Mutation_p.P740L|MADD_uc001neu.1_Missense_Mutation_p.P740L|MADD_uc001nex.2_Missense_Mutation_p.P740L|MADD_uc001nez.2_Missense_Mutation_p.P740L|MADD_uc001new.2_Missense_Mutation_p.P740L	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	740					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		AAGCCCCTCCCTTCCGTGCCT	0.537													13	28	---	---	---	---	PASS	T	47306553	T	T	47306553	3	4	4	1	0	0	0	0	1	0	0	0	9152	681	24	3	2265	3	MADD	11	47306553	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	47306553	87699963	2180	2771	103	2								
PSMC3	5702	broad.mit.edu	37	chr11	47446030	47446030	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atccaccaacccaatcacagGaaggaagtacgtctgtggac	9	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:47446030G>A	uc001nfh.2	-	5	597	c.403C>T	c.(403-405)CCT>TCT	p.P135S	PSMC3_uc009ylr.1_Missense_Mutation_p.P93S	NM_002804	NP_002795	P17980	PRS6A_HUMAN	proteasome 26S ATPase subunit 3	135					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|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|nucleoside-triphosphatase activity|protein binding|transcription coactivator activity|transcription corepressor activity			ovary(4)	4				Lung(87;0.0932)|BRCA - Breast invasive adenocarcinoma(625;0.13)		CCAATCACAGGAAGGAAGTAC	0.572													13	19	---	---	---	---	PASS	A	47446030	A	A	47446030	3	1	4	1	0	0	0	0	1	0	0	0	12687	1174	41	2	948	2	PSMC3	11	47446030	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	139477	47446030	87560486	2181	2772										
NUP160	23279	broad.mit.edu	37	chr11	47834527	47834527	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttccattataactgacataTccacagttactgactcttca	3	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:47834527T>C	uc001ngm.2	-	15	1944	c.1859A>G	c.(1858-1860)GAT>GGT	p.D620G	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	620					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						AACTGACATATCCACAGTTAC	0.383													19	35	---	---	---	---	PASS	C	47834527	C	C	47834527	3	2	4	1	0	0	0	0	1	0	0	0	10757	1435	50	5	2539	5	NUP160	11	47834527	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	388497	47834527	87171989	2182	2773										
OR4C3	256144	broad.mit.edu	37	chr11	48346768	48346768	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttttcctggccaacctatcCtttattgacaccttttattc	3	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:48346768C>T	uc010rhv.1	+	1	276	c.276C>T	c.(274-276)TCC>TCT	p.S92S		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CCAACCTATCCTTTATTGACA	0.473													4	51	---	---	---	---	PASS	T	48346768	T	T	48346768	2	4	4	1	0	0	0	0	0	0	0	1	11050	668	24	3		3	OR4C3	11	48346768	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	512241	48346768	86659748	2183	2774										
OR4A47	403253	broad.mit.edu	37	chr11	48511133	48511133	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctagacctgctaggaccttCcccattgacaaatcagtgag	9	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:48511133C>T	uc010rhx.1	+	1	789	c.789C>T	c.(787-789)TTC>TTT	p.F263F		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	263	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CTAGGACCTTCCCCATTGACA	0.428													31	111	---	---	---	---	PASS	T	48511133	T	T	48511133	2	4	4	1	0	0	0	0	0	0	0	1	11042	854	30	2		2	OR4A47	11	48511133	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	164365	48511133	86495383	2184	2775										
OR4A16	81327	broad.mit.edu	37	chr11	55111342	55111342	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtggagtcatcctaaacttCcttaaaacttacagtcagga	7	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55111342C>T	uc010rie.1	+	1	666	c.666C>T	c.(664-666)TTC>TTT	p.F222F		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						TCCTAAACTTCCTTAAAACTT	0.423													10	44	---	---	---	---	PASS	T	55111342	T	T	55111342	2	4	4	1	0	0	0	0	0	0	0	1	11041	854	30	2		2	OR4A16	11	55111342	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	6600209	55111342	79895174	2185	2776										
OR4A15	81328	broad.mit.edu	37	chr11	55135728	55135728	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaaagaccatttcctttcaGggttgtatggctcaactttt	7	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55135728G>T	uc010rif.1	+	1	369	c.369G>T	c.(367-369)CAG>CAT	p.Q123H		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	123	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTTCCTTTCAGGGTTGTATGG	0.398													5	84	---	---	---	---	PASS	T	55135728	T	T	55135728	3	4	4	1	0	0	0	0	1	0	0	0	11040	991	35	3	371	3	OR4A15	11	55135728	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	24386	55135728	79870788	2186	2777										
OR4C6	219432	broad.mit.edu	37	chr11	55433044	55433044	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcactacacgatcatcatGagtccacgggtgtgctgcct	10	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55433044G>C	uc001nht.3	+	3	667	c.402G>C	c.(400-402)ATG>ATC	p.M134I	OR4C6_uc010rik.1_Missense_Mutation_p.M134I	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	134	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CGATCATCATGAGTCCACGGG	0.517													17	31	---	---	---	---	PASS	C	55433044	C	C	55433044	3	2	4	1	0	0	0	0	1	0	0	0	11052	1290	45	2	404	2	OR4C6	11	55433044	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	297316	55433044	79573472	2187	2778										
OR5D13	390142	broad.mit.edu	37	chr11	55541798	55541798	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccattgatctacagccttagGaacaaagatatcaataacat	5	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55541798G>A	uc010ril.1	+	1	885	c.885G>A	c.(883-885)AGG>AGA	p.R295R		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	295	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				ACAGCCTTAGGAACAAAGATA	0.348													4	27	---	---	---	---	PASS	A	55541798	A	A	55541798	2	1	4	1	0	0	0	0	0	0	0	1	11154	1165	41	2		2	OR5D13	11	55541798	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	108754	55541798	79464718	2188	2779										
OR5L2	26338	broad.mit.edu	37	chr11	55594965	55594965	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atatctttaacaaggacaaaGccatctccttcctagggtgc	7	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55594965G>A	uc001nhy.1	+	1	271	c.271G>A	c.(271-273)GCC>ACC	p.A91T		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				CAAGGACAAAGCCATCTCCTT	0.463										HNSCC(27;0.073)			60	60	---	---	---	---	PASS	A	55594965	A	A	55594965	3	1	4	1	0	0	0	0	1	0	0	0	11171	971	34	3	273	3	OR5L2	11	55594965	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	53167	55594965	79411551	2189	2780										
OR5I1	10798	broad.mit.edu	37	chr11	55703698	55703698	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctaaggaaaaaatacatgGgggtttgaaggtgaggatca	14	3	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55703698G>A	uc010ris.1	-	1	179	c.179C>T	c.(178-180)CCC>CTC	p.P60L		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	60	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AAAATACATGGGGGTTTGAAG	0.388													11	28	---	---	---	---	PASS	A	55703698	A	A	55703698	3	1	4	1	0	0	0	0	1	0	0	0	11164	1232	43	3	768	3	OR5I1	11	55703698	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	108733	55703698	79302818	2190	2781										
OR10AG1	282770	broad.mit.edu	37	chr11	55735698	55735698	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcaaacaaagaaatatttCctttctgagtccaaatgtcc	5	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55735698C>T	uc010rit.1	-	1	242	c.242G>A	c.(241-243)GGA>GAA	p.G81E		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	81	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					AGAAATATTTCCTTTCTGAGT	0.383													23	35	---	---	---	---	PASS	T	55735698	T	T	55735698	3	4	4	1	0	0	0	0	1	0	0	0	10897	855	30	2	666	2	OR10AG1	11	55735698	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	32000	55735698	79270818	2191	2782										
OR10AG1	282770	broad.mit.edu	37	chr11	55735766	55735766	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acataacagatttccaaaagGgaaaaattgctaagaaaaaa	6	5	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55735766G>A	uc010rit.1	-	1	174	c.174C>T	c.(172-174)TCC>TCT	p.S58S		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					TTTCCAAAAGGGAAAAATTGC	0.348													11	50	---	---	---	---	PASS	A	55735766	A	A	55735766	2	1	4	1	0	0	0	0	0	0	0	1	10897	1219	43	3		3	OR10AG1	11	55735766	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	68	55735766	79270750	2192	2783										
OR5AS1	219447	broad.mit.edu	37	chr11	55798016	55798016	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atatacattaactatggtcgGaaatatactcttaataattc	4	6	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55798016G>A	uc010riw.1	+	1	122	c.122G>A	c.(121-123)GGA>GAA	p.G41E		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	41	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					ACTATGGTCGGAAATATACTC	0.328													11	28	---	---	---	---	PASS	A	55798016	A	A	55798016	3	1	4	1	0	0	0	0	1	0	0	0	11146	1174	41	2	124	2	OR5AS1	11	55798016	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	62250	55798016	79208500	2193	2784										
OR8I2	120586	broad.mit.edu	37	chr11	55861208	55861208	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catgtcccaaaaagtgtccaActggctgggagtaatgccat	10	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55861208A>G	uc010rix.1	+	1	425	c.425A>G	c.(424-426)AAC>AGC	p.N142S		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					AAAGTGTCCAACTGGCTGGGA	0.448													16	45	---	---	---	---	PASS	G	55861208	G	G	55861208	3	3	4	1	0	0	0	0	1	0	0	0	11240	43	2	5	427	5	OR8I2	11	55861208	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	63192	55861208	79145308	2194	2785										
OR8I2	120586	broad.mit.edu	37	chr11	55861587	55861587	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gataacacatcatcgctgacCcaggcgcaggtggcatctgt	11	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55861587C>T	uc010rix.1	+	1	804	c.804C>T	c.(802-804)ACC>ACT	p.T268T		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					CATCGCTGACCCAGGCGCAGG	0.458													8	59	---	---	---	---	PASS	T	55861587	T	T	55861587	2	4	4	1	0	0	0	0	0	0	0	1	11240	610	22	3		3	OR8I2	11	55861587	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	379	55861587	79144929	2195	2786										
OR8I2	120586	broad.mit.edu	37	chr11	55861617	55861617	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggcatctgtattctatacGattgtcattcccatgctgaa	8	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55861617G>A	uc010rix.1	+	1	834	c.834G>A	c.(832-834)ACG>ACA	p.T278T		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					TATTCTATACGATTGTCATTC	0.413													22	19	---	---	---	---	PASS	A	55861617	A	A	55861617	2	1	4	1	0	0	0	0	0	0	0	1	11240	1045	37	2		2	OR8I2	11	55861617	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	30	55861617	79144899	2196	2787										
OR8H2	390151	broad.mit.edu	37	chr11	55872687	55872687	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccgcctggacctccagcttCacactcccatgtattttttc	5	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55872687C>T	uc010riy.1	+	1	169	c.169C>T	c.(169-171)CAC>TAC	p.H57Y		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					CCTCCAGCTTCACACTCCCAT	0.423										HNSCC(53;0.14)			33	141	---	---	---	---	PASS	T	55872687	T	T	55872687	3	4	4	1	0	0	0	0	1	0	0	0	11238	826	29	2	171	2	OR8H2	11	55872687	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	11070	55872687	79133829	2197	2788										
OR8H2	390151	broad.mit.edu	37	chr11	55872882	55872882	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctcctcaatggcccatgatCgctatgcagcgatctgcagt	9	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55872882C>T	uc010riy.1	+	1	364	c.364C>T	c.(364-366)CGC>TGC	p.R122C		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					GGCCCATGATCGCTATGCAGC	0.458										HNSCC(53;0.14)			35	127	---	---	---	---	PASS	T	55872882	T	T	55872882	3	4	4	1	0	0	0	0	1	0	0	0	11238	884	31	2	366	2	OR8H2	11	55872882	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	195	55872882	79133634	2198	2789										
OR8H2	390151	broad.mit.edu	37	chr11	55873182	55873182	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcatcctatgtgttcattCtctttaccatcctgaaaatt	4	11	2	1	rs150100978		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55873182C>T	uc010riy.1	+	1	664	c.664C>T	c.(664-666)CTC>TTC	p.L222F		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					TGTGTTCATTCTCTTTACCAT	0.403										HNSCC(53;0.14)			15	70	---	---	---	---	PASS	T	55873182	T	T	55873182	3	4	4	1	0	0	0	0	1	0	0	0	11238	913	32	2	666	2	OR8H2	11	55873182	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	300	55873182	79133334	2199	2790										
OR8J3	81168	broad.mit.edu	37	chr11	55904562	55904562	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taagatactagaactgtaatCatggaaaaaaccaaatttgt	6	5	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:55904562C>T	uc010riz.1	-	1	633	c.633G>A	c.(631-633)ATG>ATA	p.M211I		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	211	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					GAACTGTAATCATGGAAAAAA	0.358													23	34	---	---	---	---	PASS	T	55904562	T	T	55904562	3	4	4	1	0	0	0	0	1	0	0	0	11242	826	29	2	316	2	OR8J3	11	55904562	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	31380	55904562	79101954	2200	2791										
OR5T2	219464	broad.mit.edu	37	chr11	56000184	56000184	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtagatggctacatagcgatCataagccattgcagccaaga	10	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56000184C>T	uc010rjc.1	-	1	478	c.478G>A	c.(478-480)GAT>AAT	p.D160N		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	160	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					ACATAGCGATCATAAGCCATT	0.428													16	63	---	---	---	---	PASS	T	56000184	T	T	56000184	3	4	4	1	0	0	0	0	1	0	0	0	11182	826	29	2	600	2	OR5T2	11	56000184	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	95622	56000184	79006332	2201	2792										
OR5T3	390154	broad.mit.edu	37	chr11	56020020	56020020	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaaaaatgttggtcaatttCctggcaaaaaataaatccat	5	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56020020C>T	uc010rjd.1	+	1	345	c.345C>T	c.(343-345)TTC>TTT	p.F115F		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	115	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					TGGTCAATTTCCTGGCAAAAA	0.363													22	30	---	---	---	---	PASS	T	56020020	T	T	56020020	2	4	4	1	0	0	0	0	0	0	0	1	11183	854	30	2		2	OR5T3	11	56020020	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	19836	56020020	78986496	2202	2793										
OR5T1	390155	broad.mit.edu	37	chr11	56043953	56043953	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accaagttccagctacacttCggacaatgacatgatagtgt	8	10	0	2	rs149057096	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56043953C>T	uc001nio.1	+	1	839	c.839C>T	c.(838-840)TCG>TTG	p.S280L		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	280	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					AGCTACACTTCGGACAATGAC	0.408													44	73	---	---	---	---	PASS	T	56043953	T	T	56043953	3	4	4	1	0	0	0	0	1	0	0	0	11181	893	31	2	841	2	OR5T1	11	56043953	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	23933	56043953	78962563	2203	2794										
OR8K3	219473	broad.mit.edu	37	chr11	56086200	56086200	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagtaatcatgtcacgaaggGtatgtcaggtgctggtagca	13	7	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56086200G>A	uc010rjf.1	+	1	418	c.418G>A	c.(418-420)GTA>ATA	p.V140I		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					GTCACGAAGGGTATGTCAGGT	0.418													21	42	---	---	---	---	PASS	A	56086200	A	A	56086200	3	1	4	1	0	0	0	0	1	0	0	0	11244	1261	44	3	420	3	OR8K3	11	56086200	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	42247	56086200	78920316	2204	2795										
OR8K1	390157	broad.mit.edu	37	chr11	56113718	56113718	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacacccccatgtactttttCcttagacatttgtcaatcac	3	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56113718C>T	uc010rjg.1	+	1	204	c.204C>T	c.(202-204)TTC>TTT	p.F68F		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					TGTACTTTTTCCTTAGACATT	0.408										HNSCC(65;0.19)			17	62	---	---	---	---	PASS	T	56113718	T	T	56113718	2	4	4	1	0	0	0	0	0	0	0	1	11243	854	30	2		2	OR8K1	11	56113718	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	27518	56113718	78892798	2205	2796										
OR8K1	390157	broad.mit.edu	37	chr11	56114182	56114182	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctctcaattgttctcatatCctacatgtttattctagtgg	5	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56114182C>T	uc010rjg.1	+	1	668	c.668C>T	c.(667-669)TCC>TTC	p.S223F		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	223	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					GTTCTCATATCCTACATGTTT	0.398										HNSCC(65;0.19)			7	34	---	---	---	---	PASS	T	56114182	T	T	56114182	3	4	4	1	0	0	0	0	1	0	0	0	11243	855	30	2	670	2	OR8K1	11	56114182	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	464	56114182	78892334	2206	2797										
OR8J1	219477	broad.mit.edu	37	chr11	56127806	56127806	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagctccagattcccctcttCctggtctttctggtgctcta	8	14	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56127806C>T	uc010rjh.1	+	1	84	c.84C>T	c.(82-84)TTC>TTT	p.F28F		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	28	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TTCCCCTCTTCCTGGTCTTTC	0.488													15	70	---	---	---	---	PASS	T	56127806	T	T	56127806	2	4	4	1	0	0	0	0	0	0	0	1	11241	854	30	2		2	OR8J1	11	56127806	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	13624	56127806	78878710	2207	2798										
OR5R1	219479	broad.mit.edu	37	chr11	56185293	56185293	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaccagttgaatgcagactCttcttgacatcagtgttgaa	8	10	3	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56185293C>T	uc010rji.1	-	1	416	c.416G>A	c.(415-417)AGA>AAA	p.R139K		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AATGCAGACTCTTCTTGACAT	0.473													16	60	---	---	---	---	PASS	T	56185293	T	T	56185293	3	4	4	1	0	0	0	0	1	0	0	0	11180	913	32	2	560	2	OR5R1	11	56185293	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	57487	56185293	78821223	2208	2799										
OR5M8	219484	broad.mit.edu	37	chr11	56258004	56258004	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attataaggttcagcataggGattactgtggtataaaatac	9	4	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56258004G>A	uc001nix.1	-	1	843	c.843C>T	c.(841-843)ATC>ATT	p.I281I		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	281	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					TCAGCATAGGGATTACTGTGG	0.328													6	37	---	---	---	---	PASS	A	56258004	A	A	56258004	2	1	4	1	0	0	0	0	0	0	0	1	11176	1164	41	2		2	OR5M8	11	56258004	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	72711	56258004	78748512	2209	2800										
OR5M8	219484	broad.mit.edu	37	chr11	56258235	56258235	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagagagaaaaagaaaggttCcagccagccacaataaacat	8	8	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56258235C>T	uc001nix.1	-	1	612	c.612G>A	c.(610-612)TGG>TGA	p.W204*		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					AAGAAAGGTTCCAGCCAGCCA	0.398													8	41	---	---	---	---	PASS	T	56258235	T	T	56258235	4	4	4	1	0	0	0	0	0	1	0	0	11176	856	30	2	327	2	OR5M8	11	56258235	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	231	56258235	78748281	2210	2801										
OR5M11	219487	broad.mit.edu	37	chr11	56309974	56309974	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttatatacatgcaaaagaGagtcccataaaacagggtga	8	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56309974G>A	uc010rjl.1	-	1	760	c.760C>T	c.(760-762)CTC>TTC	p.L254F		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGCAAAAGAGAGTCCCATAA	0.438													11	75	---	---	---	---	PASS	A	56309974	A	A	56309974	3	1	4	1	0	0	0	0	1	0	0	0	11174	942	33	2	160	2	OR5M11	11	56309974	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	51739	56309974	78696542	2211	2802										
OR5M1	390168	broad.mit.edu	37	chr11	56380053	56380053	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaactgcaattttatgaaagGattttcccctaatcatttgt	5	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56380053G>A	uc001nja.1	-	1	926	c.926C>T	c.(925-927)TCC>TTC	p.S309F		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	309	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TTTATGAAAGGATTTTCCCCT	0.383													30	95	---	---	---	---	PASS	A	56380053	A	A	56380053	3	1	4	1	0	0	0	0	1	0	0	0	11172	1174	41	2	25	2	OR5M1	11	56380053	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	70079	56380053	78626463	2212	2803										
OR5M1	390168	broad.mit.edu	37	chr11	56380724	56380724	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggtcttctgttctgagagGaaattgtgcagcatatttgg	12	5	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56380724G>A	uc001nja.1	-	1	255	c.255C>T	c.(253-255)TTC>TTT	p.F85F		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						GTTCTGAGAGGAAATTGTGCA	0.448													35	60	---	---	---	---	PASS	A	56380724	A	A	56380724	2	1	4	1	0	0	0	0	0	0	0	1	11172	1165	41	2		2	OR5M1	11	56380724	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	671	56380724	78625792	2213	2804										
OR5AP2	338675	broad.mit.edu	37	chr11	56409132	56409132	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggcgcaagtacatgaagaGgattgttccaaagaatatgg	13	5	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56409132G>A	uc001njb.1	-	1	784	c.784C>T	c.(784-786)CTC>TTC	p.L262F		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	262	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						TACATGAAGAGGATTGTTCCA	0.463													35	37	---	---	---	---	PASS	A	56409132	A	A	56409132	3	1	4	1	0	0	0	0	1	0	0	0	11144	1000	35	3	170	3	OR5AP2	11	56409132	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	28408	56409132	78597384	2214	2805										
OR9G9	504191	broad.mit.edu	37	chr11	56467982	56467982	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtactctctcactgtggtagGaaatagcaccctcatcgtgt	9	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:56467982G>A	uc010rjn.1	+	1	119	c.119G>A	c.(118-120)GGA>GAA	p.G40E		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACTGTGGTAGGAAATAGCACC	0.493													5	45	---	---	---	---	PASS	A	56467982	A	A	56467982	3	1	4	1	0	0	0	0	1	0	0	0	11252	1174	41	2	121	2	OR9G9	11	56467982	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	58850	56467982	78538534	2215	2806										
APLNR	187	broad.mit.edu	37	chr11	57004475	57004475	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcaaaatcaccaccttcctCcatgctggggagtggagaga	11	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:57004475C>T	uc001njo.2	-	1	453	c.4G>A	c.(4-6)GAG>AAG	p.E2K	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	2	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						CCACCTTCCTCCATGCTGGGG	0.567													14	29	---	---	---	---	PASS	T	57004475	T	T	57004475	3	4	4	1	0	0	0	0	1	0	0	0	777	864	30	2	1142	2	APLNR	11	57004475	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	536493	57004475	78002041	2216	2807										
P2RX3	5024	broad.mit.edu	37	chr11	57118326	57118326	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatactccttcacccggctcGacagcgtttctgagaaaagc	8	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:57118326G>A	uc001nju.2	+	8	872	c.796G>A	c.(796-798)GAC>AAC	p.D266N		NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3	266	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						CACCCGGCTCGACAGCGTTTC	0.567													5	30	---	---	---	---	PASS	A	57118326	A	A	57118326	3	1	4	1	0	0	0	0	1	0	0	0	11341	1058	37	2	826	2	P2RX3	11	57118326	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	113851	57118326	77888190	2217	2808										
OR9Q1	219956	broad.mit.edu	37	chr11	57947718	57947718	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtaactcagatcagtcttcgGagaagaatcgggtagtgtct	12	7	4	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:57947718G>A	uc001nmj.2	+	3	1118	c.802G>A	c.(802-804)GAG>AAG	p.E268K		NM_001005212	NP_001005212	Q8NGQ5	OR9Q1_HUMAN	olfactory receptor, family 9, subfamily Q,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.222)				TCAGTCTTCGGAGAAGAATCG	0.507													23	37	---	---	---	---	PASS	A	57947718	A	A	57947718	3	1	4	1	0	0	0	0	1	0	0	0	11255	1175	41	2	804	2	OR9Q1	11	57947718	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	829392	57947718	77058798	2218	2809										
OR9Q2	219957	broad.mit.edu	37	chr11	57958765	57958765	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agacaacacaggccagtcctCcgagggagaccgagtggtgt	14	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:57958765C>T	uc010rka.1	+	1	803	c.803C>T	c.(802-804)TCC>TTC	p.S268F		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				GGCCAGTCCTCCGAGGGAGAC	0.557													10	49	---	---	---	---	PASS	T	57958765	T	T	57958765	3	4	4	1	0	0	0	0	1	0	0	0	11256	855	30	2	805	2	OR9Q2	11	57958765	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	11047	57958765	77047751	2219	2810										
OR10W1	81341	broad.mit.edu	37	chr11	58035306	58035306	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgcagttctgggcaggaggGataggccaggaacacaaatt	14	7	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:58035306G>A	uc001nmq.1	-	1	427	c.25C>T	c.(25-27)CCC>TCC	p.P9S		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	9	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				GGGCAGGAGGGATAGGCCAGG	0.453													13	19	---	---	---	---	PASS	A	58035306	A	A	58035306	3	1	4	1	0	0	0	0	1	0	0	0	10921	1174	41	2	896	2	OR10W1	11	58035306	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	76541	58035306	76971210	2220	2811										
OR5B12	390191	broad.mit.edu	37	chr11	58206868	58206868	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgtaagtacataaagattcCtgtcccataaaagatggaaa	7	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:58206868C>T	uc010rkh.1	-	1	757	c.757G>A	c.(757-759)GGA>AGA	p.G253R		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				ATAAAGATTCCTGTCCCATAA	0.443													18	26	---	---	---	---	PASS	T	58206868	T	T	58206868	3	4	4	1	0	0	0	0	1	0	0	0	11148	690	24	3	191	3	OR5B12	11	58206868	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	171562	58206868	76799648	2221	2812										
MPEG1	219972	broad.mit.edu	37	chr11	58978323	58978323	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgccgtagatggccaaggtGataacaacagccagaatggt	13	8	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:58978323G>A	uc001nnu.3	-	1	2172	c.2016C>T	c.(2014-2016)ATC>ATT	p.I672I		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	672	Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				TGGCCAAGGTGATAACAACAG	0.552													25	31	---	---	---	---	PASS	A	58978323	A	A	58978323	2	1	4	1	0	0	0	0	0	0	0	1	9723	1280	45	2		2	MPEG1	11	58978323	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	771455	58978323	76028193	2222	2813										
MPEG1	219972	broad.mit.edu	37	chr11	58979667	58979667	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctggctgtcttggaggaaGgaggccctgaggtggtcctc	16	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:58979667G>A	uc001nnu.3	-	1	828	c.672C>T	c.(670-672)TCC>TCT	p.S224S		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	224	MACPF.|Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				CTTGGAGGAAGGAGGCCCTGA	0.552													6	11	---	---	---	---	PASS	A	58979667	A	A	58979667	2	1	4	1	0	0	0	0	0	0	0	1	9723	987	35	3		3	MPEG1	11	58979667	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1344	58979667	76026849	2223	2814										
OR5AN1	390195	broad.mit.edu	37	chr11	59132298	59132298	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgacagccatggcttatgatCgttatgctgccatttgtaac	9	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:59132298C>T	uc010rks.1	+	1	367	c.367C>T	c.(367-369)CGT>TGT	p.R123C		NM_001004729	NP_001004729	Q8NGI8	O5AN1_HUMAN	olfactory receptor, family 5, subfamily AN,	123	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GGCTTATGATCGTTATGCTGC	0.453													33	39	---	---	---	---	PASS	T	59132298	T	T	59132298	3	4	4	1	0	0	0	0	1	0	0	0	11143	884	31	2	369	2	OR5AN1	11	59132298	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	152631	59132298	75874218	2224	2815										
OR4D10	390197	broad.mit.edu	37	chr11	59245164	59245164	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctggtggaccttctgtctGaaagaaagaccatctccttc	8	11	4	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:59245164G>A	uc001nnz.1	+	1	262	c.262G>A	c.(262-264)GAA>AAA	p.E88K		NM_001004705	NP_001004705	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						CCTTCTGTCTGAAAGAAAGAC	0.433													49	62	---	---	---	---	PASS	A	59245164	A	A	59245164	3	1	4	1	0	0	0	0	1	0	0	0	11054	1291	45	2	264	2	OR4D10	11	59245164	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	112866	59245164	75761352	2225	2816										
MS4A6E	245802	broad.mit.edu	37	chr11	60105331	60105331	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cattgcagtgtaagttggacGaaaaggatataccaaccaga	10	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:60105331G>A	uc001npd.2	+	2	279	c.265G>A	c.(265-267)GAA>AAA	p.E89K		NM_139249	NP_640342	Q96DS6	M4A6E_HUMAN	membrane-spanning 4-domains, subfamily A, member	89	Extracellular (Potential).					integral to membrane	receptor activity				0						TAAGTTGGACGAAAAGGATAT	0.453													9	66	---	---	---	---	PASS	A	60105331	A	A	60105331	3	1	4	1	0	0	0	0	1	0	0	0	9865	1059	37	2	271	2	MS4A6E	11	60105331	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	860167	60105331	74901185	2226	2817										
MS4A14	84689	broad.mit.edu	37	chr11	60183468	60183468	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catctaagtctacatcatccCatgtcaaacagtcttctaat	3	12	6	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:60183468C>T	uc001npj.2	+	5	1592	c.1027C>T	c.(1027-1029)CAT>TAT	p.H343Y	MS4A14_uc001npi.2_Missense_Mutation_p.H231Y|MS4A14_uc001npn.2_Missense_Mutation_p.H81Y|MS4A14_uc001npk.2_Missense_Mutation_p.H326Y|MS4A14_uc001npl.2_Missense_Mutation_p.H81Y|MS4A14_uc001npm.2_Missense_Mutation_p.H81Y	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	343						integral to membrane	receptor activity			breast(1)	1						TACATCATCCCATGTCAAACA	0.338													12	35	---	---	---	---	PASS	T	60183468	T	T	60183468	3	4	4	1	0	0	0	0	1	0	0	0	9858	594	21	3	1045	3	MS4A14	11	60183468	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	78137	60183468	74823048	2227	2818										
ZP1	22917	broad.mit.edu	37	chr11	60635145	60635145	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaccctggcctcccaggcctCcggcacagctacgactgtgg	12	17	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:60635145C>T	uc001nqd.2	+	1	131	c.111C>T	c.(109-111)CTC>CTT	p.L37L	ZP1_uc001nqe.2_5'Flank	NM_207341	NP_997224	P60852	ZP1_HUMAN	zona pellucida glycoprotein 1 precursor	37	Extracellular (Potential).				single fertilization	integral to membrane|plasma membrane|proteinaceous extracellular matrix					0						TCCCAGGCCTCCGGCACAGCT	0.662													6	14	---	---	---	---	PASS	T	60635145	T	T	60635145	2	4	4	1	0	0	0	0	0	0	0	1	18212	842	30	2		2	ZP1	11	60635145	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	451677	60635145	74371371	2228	2819										
DAGLA	747	broad.mit.edu	37	chr11	61511223	61511223	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcttcgactcgcgccgctcCtcaggcttccgcagcatccg	10	18	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:61511223C>T	uc001nsa.2	+	20	2502	c.2391C>T	c.(2389-2391)TCC>TCT	p.S797S		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	797	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		CGCGCCGCTCCTCAGGCTTCC	0.672													11	41	---	---	---	---	PASS	T	61511223	T	T	61511223	2	4	4	1	0	0	0	0	0	0	0	1	4226	668	24	3		3	DAGLA	11	61511223	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	876078	61511223	73495293	2229	2820										
FADS1	3992	broad.mit.edu	37	chr11	61578274	61578274	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagaagggatgcatgttgatGtctgggtctttgcggaagca	15	5	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:61578274G>T	uc010rlm.1	-	5	992	c.864C>A	c.(862-864)GAC>GAA	p.D288E	FADS1_uc001nsh.2_Missense_Mutation_p.D147E|FADS1_uc010rln.1_Missense_Mutation_p.D147E	NM_013402	NP_037534	O60427	FADS1_HUMAN	fatty acid desaturase 1	231	Cytoplasmic (Potential).				cell-cell signaling|cellular response to starvation|electron transport chain|icosanoid biosynthetic process|phospholipid biosynthetic process|regulation of cell differentiation|regulation of transcription, DNA-dependent|transport	endoplasmic reticulum membrane|integral to membrane|microsome	C-5 sterol desaturase activity|heme binding|protein binding			central_nervous_system(1)	1					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	GCATGTTGATGTCTGGGTCTT	0.562													32	52	---	---	---	---	PASS	T	61578274	T	T	61578274	3	4	4	1	0	0	0	0	1	0	0	0	5365	1368	48	3	673	3	FADS1	11	61578274	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	67051	61578274	73428242	2230	2821										
AHNAK	79026	broad.mit.edu	37	chr11	62292480	62292480	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccttgaacatccacatctgGggcattaatatccactttgg	8	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:62292480G>A	uc001ntl.2	-	5	9709	c.9409C>T	c.(9409-9411)CCA>TCA	p.P3137S	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3137					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TCCACATCTGGGGCATTAATA	0.468													88	112	---	---	---	---	PASS	A	62292480	A	A	62292480	3	1	4	1	0	0	0	0	1	0	0	0	414	1232	43	3	8383	3	AHNAK	11	62292480	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	714206	62292480	72714036	2231	2822										
AHNAK	79026	broad.mit.edu	37	chr11	62293705	62293705	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaccttccactttaggaagGgaaacatccacatcaccctt	5	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:62293705G>A	uc001ntl.2	-	5	8484	c.8184C>T	c.(8182-8184)TCC>TCT	p.S2728S	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2728					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CTTTAGGAAGGGAAACATCCA	0.478													59	76	---	---	---	---	PASS	A	62293705	A	A	62293705	2	1	4	1	0	0	0	0	0	0	0	1	414	1219	43	3		3	AHNAK	11	62293705	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1225	62293705	72712811	2232	2823										
AHNAK	79026	broad.mit.edu	37	chr11	62295384	62295384	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcatcttaaacttgggccCtttcaactttgcatcaggac	8	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:62295384C>T	uc001ntl.2	-	5	6805	c.6505G>A	c.(6505-6507)GGG>AGG	p.G2169R	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2169					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				AACTTGGGCCCTTTCAACTTT	0.483													63	113	---	---	---	---	PASS	T	62295384	T	T	62295384	3	4	4	1	0	0	0	0	1	0	0	0	414	681	24	3	11287	3	AHNAK	11	62295384	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1679	62295384	72711132	2233	2824										
GANAB	23193	broad.mit.edu	37	chr11	62396262	62396262	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatgacaggaatgccttccCgatgggcctgatataagagg	12	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:62396262C>A	uc001nub.2	-	17	2192	c.2159G>T	c.(2158-2160)CGG>CTG	p.R720L	GANAB_uc001ntz.2_5'Flank|GANAB_uc001nua.2_Missense_Mutation_p.R742L|GANAB_uc001nuc.2_Missense_Mutation_p.R623L|GANAB_uc010rma.1_Missense_Mutation_p.R628L|GANAB_uc010rmb.1_Missense_Mutation_p.R606L	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2	720					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5						AATGCCTTCCCGATGGGCCTG	0.532													5	163	---	---	---	---	PASS	A	62396262	A	A	62396262	3	1	4	1	0	0	0	0	1	0	0	0	6233	652	23	1	707	1	GANAB	11	62396262	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	100878	62396262	72610254	2234	2825										
MARK2	2011	broad.mit.edu	37	chr11	63676648	63676648	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggttcgatttaagcggatatCgggcacctccatggccttca	11	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:63676648C>T	uc001nxw.2	+	19	2885	c.2306C>T	c.(2305-2307)TCG>TTG	p.S769L	MARK2_uc001nxx.2_Missense_Mutation_p.S700L|MARK2_uc001nxy.2_Missense_Mutation_p.S690L|MARK2_uc001nxv.3_Missense_Mutation_p.S705L|MARK2_uc001nxz.3_Missense_Mutation_p.S726L|MARK2_uc009yoy.2_Missense_Mutation_p.S680L	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	769	KA1.				cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						AAGCGGATATCGGGCACCTCC	0.502													13	32	---	---	---	---	PASS	T	63676648	T	T	63676648	3	4	4	1	0	0	0	0	1	0	0	0	9313	893	31	2	2380	2	MARK2	11	63676648	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1280386	63676648	71329868	2235	2826										
STIP1	10963	broad.mit.edu	37	chr11	63963138	63963138	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaactacaagatccccggatCatgaccactctcagcgtcct	6	15	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:63963138C>T	uc001nyk.1	+	5	672	c.525C>T	c.(523-525)ATC>ATT	p.I175I	STIP1_uc001nyj.2_Silent_p.I175I|STIP1_uc010rnb.1_Silent_p.I151I	NM_006819	NP_006810	P31948	STIP1_HUMAN	stress-induced-phosphoprotein 1	175					axon guidance|response to stress	Golgi apparatus|nucleus				ovary(2)|liver(1)	3						ATCCCCGGATCATGACCACTC	0.443													9	26	---	---	---	---	PASS	T	63963138	T	T	63963138	2	4	4	1	0	0	0	0	0	0	0	1	15284	816	29	2		2	STIP1	11	63963138	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	286490	63963138	71043378	2236	2827										
CCDC88B	283234	broad.mit.edu	37	chr11	64109193	64109193	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acactgtcgaagctggcacgGgagcgtgacctgggggccca	16	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:64109193G>A	uc001nzy.2	+	7	698	c.654G>A	c.(652-654)CGG>CGA	p.R218R	CCDC88B_uc009ypo.1_Silent_p.R215R|CCDC88B_uc001nzz.1_5'Flank	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	218					microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						AGCTGGCACGGGAGCGTGACC	0.662													8	12	---	---	---	---	PASS	A	64109193	A	A	64109193	2	1	4	1	0	0	0	0	0	0	0	1	2864	1219	43	3		3	CCDC88B	11	64109193	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	146055	64109193	70897323	2237	2828										
CCDC88B	283234	broad.mit.edu	37	chr11	64121476	64121476	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtgccctcttgcccccagGaagggcagctggctggcaga	14	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:64121476G>A	uc001nzy.2	+	24	3977	c.3933G>A	c.(3931-3933)AAG>AAA	p.K1311K	CCDC88B_uc009ypo.1_Silent_p.K1308K|CCDC88B_uc001oaa.2_Silent_p.K463K|CCDC88B_uc001oab.1_Silent_p.K142K|CCDC88B_uc001oac.2_Intron	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	1311					microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						TTGCCCCCAGGAAGGGCAGCT	0.473													4	9	---	---	---	---	PASS	A	64121476	A	A	64121476	2	1	4	1	0	0	0	0	0	0	0	1	2864	1188	41	2		2	CCDC88B	11	64121476	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	12283	64121476	70885040	2238	2829										
RPS6KA4	8986	broad.mit.edu	37	chr11	64129364	64129364	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcccttcccccctcggatcGggcccgtggcgcaggacctg	12	19	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:64129364G>A	uc001oae.2	+	8	879	c.796G>A	c.(796-798)GGG>AGG	p.G266R	RPS6KA4_uc001oad.2_Missense_Mutation_p.G266R|RPS6KA4_uc010rnl.1_Missense_Mutation_p.G203R|RPS6KA4_uc001oaf.2_Missense_Mutation_p.G266R|RPS6KA4_uc009ypp.2_Missense_Mutation_p.G266R	NM_003942	NP_003933	O75676	KS6A4_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	266	Protein kinase 1.				axon guidance|histone phosphorylation|interleukin-1-mediated signaling pathway|intracellular protein kinase cascade|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|magnesium ion binding|mitogen-activated protein kinase p38 binding|ribosomal protein S6 kinase activity			lung(3)|ovary(1)|breast(1)	5						CCCTCGGATCGGGCCCGTGGC	0.682													7	28	---	---	---	---	PASS	A	64129364	A	A	64129364	3	1	4	1	0	0	0	0	1	0	0	0	13653	1116	39	1	826	1	RPS6KA4	11	64129364	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	7888	64129364	70877152	2239	2830										
RPS6KA4	8986	broad.mit.edu	37	chr11	64138829	64138829	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccctggccaagcggcggaaGcagaagctgcggagcgccac	15	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:64138829G>A	uc001oae.2	+	17	2279	c.2196G>A	c.(2194-2196)AAG>AAA	p.K732K	RPS6KA4_uc001oad.2_Silent_p.K726K|RPS6KA4_uc010rnl.1_Silent_p.K669K|RPS6KA4_uc001oaf.2_Silent_p.K725K|RPS6KA4_uc009ypp.2_Silent_p.K484K	NM_003942	NP_003933	O75676	KS6A4_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	732					axon guidance|histone phosphorylation|interleukin-1-mediated signaling pathway|intracellular protein kinase cascade|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|magnesium ion binding|mitogen-activated protein kinase p38 binding|ribosomal protein S6 kinase activity			lung(3)|ovary(1)|breast(1)	5						AGCGGCGGAAGCAGAAGCTGC	0.706													9	15	---	---	---	---	PASS	A	64138829	A	A	64138829	2	1	4	1	0	0	0	0	0	0	0	1	13653	962	34	3		3	RPS6KA4	11	64138829	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	9465	64138829	70867687	2240	2831										
NRXN2	9379	broad.mit.edu	37	chr11	64390376	64390376	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagcacggacggcccctccCccaccaggcgcaggtgaccc	12	20	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:64390376C>T	uc001oap.2	-	6	1395	c.884G>A	c.(883-885)GGG>GAG	p.G295E	NRXN2_uc001oar.2_Missense_Mutation_p.G1341E|NRXN2_uc001oas.2_Missense_Mutation_p.G1271E|NRXN2_uc001oao.2_5'UTR|NRXN2_uc001oaq.2_Missense_Mutation_p.G1008E	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	295	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CGGCCCCTCCCCCACCAGGCG	0.562													3	8	---	---	---	---	PASS	T	64390376	T	T	64390376	3	4	4	1	0	0	0	0	1	0	0	0	10666	623	22	3	1128	3	NRXN2	11	64390376	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	251547	64390376	70616140	2241	2832										
NRXN2	9379	broad.mit.edu	37	chr11	64434783	64434783	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatcattgaccttgcggctGgatgcccgcagcttgatgcc	11	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:64434783G>A	uc001oar.2	-	10	2176	c.1737C>T	c.(1735-1737)TCC>TCT	p.S579S	NRXN2_uc001oas.2_Silent_p.S548S|NRXN2_uc001oaq.2_Silent_p.S246S	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CCTTGCGGCTGGATGCCCGCA	0.607													36	44	---	---	---	---	PASS	A	64434783	A	A	64434783	2	1	4	1	0	0	0	0	0	0	0	1	10666	1335	47	3		3	NRXN2	11	64434783	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	44407	64434783	70571733	2242	2833										
NRXN2	9379	broad.mit.edu	37	chr11	64436053	64436053	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtagcctgtggtggtcagGatcccgtccaccgagatggt	15	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:64436053G>A	uc001oar.2	-	9	1660	c.1221C>T	c.(1219-1221)ATC>ATT	p.I407I	NRXN2_uc001oas.2_Silent_p.I376I|NRXN2_uc001oaq.2_Silent_p.I74I	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	221	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						TGGTGGTCAGGATCCCGTCCA	0.577													32	51	---	---	---	---	PASS	A	64436053	A	A	64436053	2	1	4	1	0	0	0	0	0	0	0	1	10666	1164	41	2		2	NRXN2	11	64436053	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1270	64436053	70570463	2243	2834										
PYGM	5837	broad.mit.edu	37	chr11	64527235	64527235	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtagtctcgtggggtggccaCattgcggtcctttacgagtg	15	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:64527235C>T	uc001oax.3	-	1	953	c.136G>A	c.(136-138)GTG>ATG	p.V46M	PYGM_uc001oay.3_Missense_Mutation_p.V46M	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	46					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	GGGGTGGCCACATTGCGGTCC	0.582													19	113	---	---	---	---	PASS	T	64527235	T	T	64527235	3	4	4	1	0	0	0	0	1	0	0	0	12862	478	17	3	2472	3	PYGM	11	64527235	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	91182	64527235	70479281	2244	2835										
EHD1	10938	broad.mit.edu	37	chr11	64645802	64645802	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctccagcgcgggcgagtgGaactcgtggaagcggtagtg	17	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:64645802G>A	uc001obu.1	-	1	390	c.135C>T	c.(133-135)TTC>TTT	p.F45F	EHD1_uc001obv.1_Silent_p.F45F|EHD1_uc010rnq.1_Silent_p.F59F	NM_006795	NP_006786	Q9H4M9	EHD1_HUMAN	EH-domain containing 1	45					blood coagulation|cholesterol homeostasis|endocytic recycling|intracellular protein transport|low-density lipoprotein particle clearance|positive regulation of cholesterol storage|protein homooligomerization	early endosome membrane|lipid particle|plasma membrane|platelet dense tubular network membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|protein binding				0						CGGGCGAGTGGAACTCGTGGA	0.632													5	32	---	---	---	---	PASS	A	64645802	A	A	64645802	2	1	4	1	0	0	0	0	0	0	0	1	4977	1165	41	2		2	EHD1	11	64645802	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	118567	64645802	70360714	2245	2836										
SNX15	29907	broad.mit.edu	37	chr11	64800004	64800004	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcgaggagttccctgctttCccccgggcccaggtgtttgg	13	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:64800004C>T	uc001oci.3	+	6	890	c.237C>T	c.(235-237)TTC>TTT	p.F79F	SNX15_uc009ypy.2_Silent_p.F79F|SNX15_uc001ocj.2_Silent_p.F79F|SNX15_uc001ock.2_Silent_p.F79F	NM_013306	NP_037438	Q9NRS6	SNX15_HUMAN	sorting nexin 15 isoform A	79	PX.				cell communication|intracellular protein transport	cytoplasmic vesicle membrane|cytosol	phosphatidylinositol binding|protein transporter activity			ovary(1)	1						TCCCTGCTTTCCCCCGGGCCC	0.627													10	21	---	---	---	---	PASS	T	64800004	T	T	64800004	2	4	4	1	0	0	0	0	0	0	0	1	14886	854	30	2		2	SNX15	11	64800004	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	154202	64800004	70206512	2246	2837										
NAALADL1	10004	broad.mit.edu	37	chr11	64822123	64822123	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaggagttgggaaaggtttCgtcgggtgagctcagcccat	15	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:64822123C>T	uc001ocn.2	-	5	707	c.691G>A	c.(691-693)GAA>AAA	p.E231K	NAALADL1_uc010rnw.1_5'UTR	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	231	Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						GGAAAGGTTTCGTCGGGTGAG	0.612											OREG0032001	type=REGULATORY REGION|TFbs=RELA|Dataset=RELA (p65) ChIP-PET Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with paired-end diTag sequencing (ChIP-PET)	7	11	---	---	---	---	PASS	T	64822123	T	T	64822123	3	4	4	1	0	0	0	0	1	0	0	0	10129	893	31	2	1587	2	NAALADL1	11	64822123	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	22119	64822123	70184393	2247	2838										
C11orf2	738	broad.mit.edu	37	chr11	64876349	64876349	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcagtgcaccttttcaccgCcaaagaggtgtccttctcca	8	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:64876349C>T	uc001ocr.1	+	5	1446	c.1406C>T	c.(1405-1407)GCC>GTC	p.A469V	TM7SF2_uc001oct.2_5'Flank|TM7SF2_uc010rny.1_5'Flank|TM7SF2_uc001ocu.2_5'Flank|C11orf2_uc001ocs.1_Missense_Mutation_p.A345V	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	469					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						CTTTTCACCGCCAAAGAGGTG	0.577													9	23	---	---	---	---	PASS	T	64876349	T	T	64876349	3	4	4	1	0	0	0	0	1	0	0	0	1633	739	26	3	1424	3	C11orf2	11	64876349	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	54226	64876349	70130167	2248	2839										
POLA2	23649	broad.mit.edu	37	chr11	65062097	65062097	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatccacagatctgcttttCcacctgggggccgaggagat	11	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:65062097C>T	uc001odj.2	+	15	1776	c.1434C>T	c.(1432-1434)TTC>TTT	p.F478F	POLA2_uc010rod.1_Silent_p.F270F|POLA2_uc001odk.2_Silent_p.F175F	NM_002689	NP_002680	Q14181	DPOA2_HUMAN	DNA-directed DNA polymerase alpha 2	478					DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	nucleoplasm	DNA binding				0					Dacarbazine(DB00851)	ATCTGCTTTTCCACCTGGGGG	0.517													13	27	---	---	---	---	PASS	T	65062097	T	T	65062097	2	4	4	1	0	0	0	0	0	0	0	1	12188	854	30	2		2	POLA2	11	65062097	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	185748	65062097	69944419	2249	2840										
MAP3K11	4296	broad.mit.edu	37	chr11	65373256	65373256	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtgctgggggtgtggaagGagatcctaagggggatgagt	21	3	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:65373256G>A	uc001oew.2	-	8	2300	c.1807C>T	c.(1807-1809)CCT>TCT	p.P603S	MAP3K11_uc001oev.2_Missense_Mutation_p.P19S|MAP3K11_uc010rol.1_Missense_Mutation_p.P346S|MAP3K11_uc001oex.1_Missense_Mutation_p.P110S	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	603	Pro-rich.				activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						GGTGTGGAAGGAGATCCTAAG	0.597													7	25	---	---	---	---	PASS	A	65373256	A	A	65373256	3	1	4	1	0	0	0	0	1	0	0	0	9245	1174	41	2	748	2	MAP3K11	11	65373256	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	311159	65373256	69633260	2250	2841										
RELA	5970	broad.mit.edu	37	chr11	65421986	65421986	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggtcggggggcctctgggCccctgtcactaggcgagtta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:65421986C>T	uc001ofg.2	-	11	1659	c.1519G>A	c.(1519-1521)GCC>ACC	p.A507T	RELA_uc001ofh.2_Missense_Mutation_p.A504T|RELA_uc010ron.1_Missense_Mutation_p.A518T|RELA_uc009yqr.2_Missense_Mutation_p.A454T|RELA_uc001ofe.2_3'UTR|RELA_uc001off.2_Intron	NM_021975	NP_068810	Q04206	TF65_HUMAN	v-rel reticuloendotheliosis viral oncogene	507					anti-apoptosis|cellular defense response|cytokine-mediated signaling pathway|defense response to virus|inflammatory response|innate immune response|interspecies interaction between organisms|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription, DNA-dependent|nerve growth factor receptor signaling pathway|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of inflammatory response|response to interleukin-1|response to UV-B|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|transcription factor complex	activating transcription factor binding|chromatin binding|identical protein binding|NF-kappaB binding|phosphate binding|protein kinase binding|protein N-terminus binding|repressing transcription factor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding			lung(3)|ovary(1)	4						GGCCTCTGGGCCCCTGTCACT	0.622													16	12	---	---	---	---	PASS	T	65421986	T	T	65421986	3	4	4	1	0	0	0	0	1	0	0	0	13216	739	26	3	140	3	RELA	11	65421986	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	48730	65421986	69584530	2251	2842	104	2								
RELA	5970	broad.mit.edu	37	chr11	65421987	65421987	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggtcggggggcctctgggcCcctgtcactaggcgagttat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:65421987C>T	uc001ofg.2	-	11	1658	c.1518G>A	c.(1516-1518)GGG>GGA	p.G506G	RELA_uc001ofh.2_Silent_p.G503G|RELA_uc010ron.1_Silent_p.G517G|RELA_uc009yqr.2_Silent_p.G453G|RELA_uc001ofe.2_3'UTR|RELA_uc001off.2_Intron	NM_021975	NP_068810	Q04206	TF65_HUMAN	v-rel reticuloendotheliosis viral oncogene	506					anti-apoptosis|cellular defense response|cytokine-mediated signaling pathway|defense response to virus|inflammatory response|innate immune response|interspecies interaction between organisms|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription, DNA-dependent|nerve growth factor receptor signaling pathway|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of inflammatory response|response to interleukin-1|response to UV-B|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|transcription factor complex	activating transcription factor binding|chromatin binding|identical protein binding|NF-kappaB binding|phosphate binding|protein kinase binding|protein N-terminus binding|repressing transcription factor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding			lung(3)|ovary(1)	4						GCCTCTGGGCCCCTGTCACTA	0.622													16	12	---	---	---	---	PASS	T	65421987	T	T	65421987	2	4	4	1	0	0	0	0	0	0	0	1	13216	610	22	3		3	RELA	11	65421987	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	65421987	69584529	2252	2843	104	2								
RELA	5970	broad.mit.edu	37	chr11	65425808	65425808	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctcactgagctcccggtcgGaaggccgccgcagctgcatg	14	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:65425808G>A	uc001ofg.2	-	8	967	c.827C>T	c.(826-828)TCC>TTC	p.S276F	RELA_uc001ofh.2_Missense_Mutation_p.S273F|RELA_uc010ron.1_Missense_Mutation_p.S287F|RELA_uc009yqr.2_Missense_Mutation_p.S223F|RELA_uc001ofe.2_Missense_Mutation_p.S276F|RELA_uc001off.2_Missense_Mutation_p.S276F|RELA_uc009yqs.1_Intron	NM_021975	NP_068810	Q04206	TF65_HUMAN	v-rel reticuloendotheliosis viral oncogene	276	RHD.			S->C: Loss of phosphorylation.	anti-apoptosis|cellular defense response|cytokine-mediated signaling pathway|defense response to virus|inflammatory response|innate immune response|interspecies interaction between organisms|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription, DNA-dependent|nerve growth factor receptor signaling pathway|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of inflammatory response|response to interleukin-1|response to UV-B|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|transcription factor complex	activating transcription factor binding|chromatin binding|identical protein binding|NF-kappaB binding|phosphate binding|protein kinase binding|protein N-terminus binding|repressing transcription factor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding			lung(3)|ovary(1)	4						CTCCCGGTCGGAAGGCCGCCG	0.637													3	6	---	---	---	---	PASS	A	65425808	A	A	65425808	3	1	4	1	0	0	0	0	1	0	0	0	13216	1174	41	2	844	2	RELA	11	65425808	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3821	65425808	69580708	2253	2844										
KAT5	10524	broad.mit.edu	37	chr11	65480520	65480520	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcccgtcctggctctccagaGagagaggtggtgagtaggtc	15	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:65480520G>A	uc001ofi.2	+	4	526	c.276G>A	c.(274-276)GAG>GAA	p.E92E	KAT5_uc001ofj.2_Silent_p.E92E|KAT5_uc001ofk.2_Silent_p.E125E|KAT5_uc010roo.1_Silent_p.E125E|KAT5_uc001ofl.2_5'UTR	NM_006388	NP_006379	Q92993	KAT5_HUMAN	K(lysine) acetyltransferase 5 isoform 2	92					androgen receptor signaling pathway|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|double-strand break repair|interspecies interaction between organisms|negative regulation of interleukin-2 production|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nucleolus|perinuclear region of cytoplasm|Piccolo NuA4 histone acetyltransferase complex	androgen receptor binding|histone acetyltransferase activity|metal ion binding|repressing transcription factor binding|transcription coactivator activity				0						GCTCTCCAGAGAGAGAGGTGG	0.572													10	48	---	---	---	---	PASS	A	65480520	A	A	65480520	2	1	4	1	0	0	0	0	0	0	0	1	7983	933	33	2		2	KAT5	11	65480520	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	54712	65480520	69525996	2254	2845										
NPAS4	266743	broad.mit.edu	37	chr11	66192157	66192157	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagctccggggccccctctCtgtggatgtccccctggtgc	12	18	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:66192157C>T	uc001ohx.1	+	7	1972	c.1796C>T	c.(1795-1797)TCT>TTT	p.S599F	NPAS4_uc010rpc.1_Missense_Mutation_p.S389F	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	599					transcription, DNA-dependent		DNA binding|signal transducer activity				0						GGCCCCCTCTCTGTGGATGTC	0.577													26	41	---	---	---	---	PASS	T	66192157	T	T	66192157	3	4	4	1	0	0	0	0	1	0	0	0	10565	913	32	2	1822	2	NPAS4	11	66192157	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	711637	66192157	68814359	2255	2846										
DPP3	10072	broad.mit.edu	37	chr11	66260322	66260322	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctcacccctgacttcacctCcctggatgttctcaccttcg	5	19	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:66260322C>T	uc001oig.1	+	10	1186	c.1124C>T	c.(1123-1125)TCC>TTC	p.S375F	DPP3_uc001oif.1_Missense_Mutation_p.S375F|DPP3_uc010rpe.1_Missense_Mutation_p.S364F	NM_005700	NP_005691	Q9NY33	DPP3_HUMAN	dipeptidyl peptidase III	375					proteolysis	cytoplasm	aminopeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity			ovary(1)|skin(1)	2						GACTTCACCTCCCTGGATGTT	0.617													10	65	---	---	---	---	PASS	T	66260322	T	T	66260322	3	4	4	1	0	0	0	0	1	0	0	0	4728	855	30	2	1158	2	DPP3	11	66260322	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	68165	66260322	68746194	2256	2847										
ACTN3	89	broad.mit.edu	37	chr11	66330597	66330597	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgccctacaagggatccgGggccccggctggagccctgg	17	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:66330597G>A	uc001oio.1	+	22	2657	c.2639G>A	c.(2638-2640)GGG>GAG	p.G880E	ACTN3_uc010rpi.1_RNA	NM_001104	NP_001095	Q08043	ACTN3_HUMAN	actinin, alpha 3	880					focal adhesion assembly|muscle filament sliding|regulation of apoptosis	actin filament|cytosol|focal adhesion|pseudopodium	actin binding|calcium ion binding|integrin binding|protein homodimerization activity|structural constituent of muscle				0						AAGGGATCCGGGGCCCCGGCT	0.632													16	11	---	---	---	---	PASS	A	66330597	A	A	66330597	3	1	4	1	0	0	0	0	1	0	0	0	206	1232	43	3	2721	3	ACTN3	11	66330597	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	70275	66330597	68675919	2257	2848										
CARNS1	57571	broad.mit.edu	37	chr11	67191509	67191509	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcctggcttcactgagacgGcggcctgcatgcccaccggg	14	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:67191509G>A	uc009yrp.2	+	9	2373	c.1921G>A	c.(1921-1923)GCG>ACG	p.A641T	PPP1CA_uc001okx.1_5'Flank|CARNS1_uc001olc.3_Missense_Mutation_p.A780T	NM_020811	NP_065862	A5YM72	CRNS1_HUMAN	ATP-grasp domain containing 1	641	ATP-grasp.				carnosine biosynthetic process		ATP binding|carnosine synthase activity|metal ion binding				0						CACTGAGACGGCGGCCTGCAT	0.642													7	10	---	---	---	---	PASS	A	67191509	A	A	67191509	3	1	4	1	0	0	0	0	1	0	0	0	2656	1203	42	3	2324	3	CARNS1	11	67191509	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	860912	67191509	67815007	2258	2849										
GPR152	390212	broad.mit.edu	37	chr11	67220115	67220115	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accgtgtcccagccaccttgGgggtaggagtcctcatcatc	11	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:67220115G>A	uc001olm.2	-	1	86	c.81C>T	c.(79-81)CCC>CCT	p.P27P	uc009yrw.1_RNA|CABP4_uc001oln.2_5'UTR|CABP4_uc001olo.2_5'Flank	NM_206997	NP_996880	Q8TDT2	GP152_HUMAN	G protein-coupled receptor 152	27	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			AGCCACCTTGGGGGTAGGAGT	0.652													5	10	---	---	---	---	PASS	A	67220115	A	A	67220115	2	1	4	1	0	0	0	0	0	0	0	1	6658	1219	43	3		3	GPR152	11	67220115	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	28606	67220115	67786401	2259	2850										
CABP2	51475	broad.mit.edu	37	chr11	67287398	67287398	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacgctgatgcggccgtccCcattggtgtcgaactgtggc	13	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:67287398C>T	uc001omc.1	-	6	605	c.503G>A	c.(502-504)GGG>GAG	p.G168E	CABP2_uc001omd.1_Missense_Mutation_p.G111E|CABP2_uc001ome.1_Missense_Mutation_p.G174E	NM_016366	NP_057450	Q9NPB3	CABP2_HUMAN	calcium binding protein 2 isoform 1	168	EF-hand 3.|2 (Potential).				signal transduction	Golgi apparatus|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1						GCGGCCGTCCCCATTGGTGTC	0.687													4	8	---	---	---	---	PASS	T	67287398	T	T	67287398	3	4	4	1	0	0	0	0	1	0	0	0	2532	623	22	3	167	3	CABP2	11	67287398	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	67283	67287398	67719118	2260	2851										
GSTP1	2950	broad.mit.edu	37	chr11	67353902	67353902	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctggacttgctgctgatcCatgaggtcctagcccctggc	12	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:67353902C>T	uc001omf.2	+	7	736	c.487C>T	c.(487-489)CAT>TAT	p.H163Y	GSTP1_uc001omg.1_Missense_Mutation_p.H144Y	NM_000852	NP_000843	P09211	GSTP1_HUMAN	glutathione transferase	163	GST C-terminal.				anti-apoptosis|cellular response to lipopolysaccharide|central nervous system development|common myeloid progenitor cell proliferation|glutathione metabolic process|negative regulation of acute inflammatory response|negative regulation of ERK1 and ERK2 cascade|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 beta production|negative regulation of JUN kinase activity|negative regulation of leukocyte proliferation|negative regulation of monocyte chemotactic protein-1 production|negative regulation of necrotic cell death|negative regulation of nitric-oxide synthase 2 biosynthetic process|negative regulation of stress-activated MAPK cascade|negative regulation of tumor necrosis factor production|nitric oxide storage|positive regulation of superoxide anion generation|response to reactive oxygen species|xenobiotic metabolic process	cytosol|protein complex	dinitrosyl-iron complex binding|glutathione transferase activity|JUN kinase binding|kinase regulator activity|nitric oxide binding|S-nitrosoglutathione binding			ovary(1)	1					Ethacrynic acid(DB00903)|Glutathione(DB00143)	GCTGCTGATCCATGAGGTCCT	0.652													6	17	---	---	---	---	PASS	T	67353902	T	T	67353902	3	4	4	1	0	0	0	0	1	0	0	0	6844	594	21	3	513	3	GSTP1	11	67353902	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	66504	67353902	67652614	2261	2852										
ALDH3B1	221	broad.mit.edu	37	chr11	67782875	67782875	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctccaaggcctgggccgcttCctgcaagaaaacaagcagct	10	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:67782875C>T	uc010rpy.1	+	2	224	c.108C>T	c.(106-108)TTC>TTT	p.F36F	ALDH3B1_uc001omy.1_Silent_p.F36F|ALDH3B1_uc001omz.2_Silent_p.F36F|ALDH3B1_uc001ona.2_Silent_p.F36F|ALDH3B1_uc001onb.2_5'Flank	NM_001161473	NP_001154945	P43353	AL3B1_HUMAN	aldehyde dehydrogenase 3B1 isoform a	36					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase				0					NADH(DB00157)	TGGGCCGCTTCCTGCAAGAAA	0.697													3	4	---	---	---	---	PASS	T	67782875	T	T	67782875	2	4	4	1	0	0	0	0	0	0	0	1	499	854	30	2		2	ALDH3B1	11	67782875	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	428973	67782875	67223641	2262	2853										
ALDH3B1	221	broad.mit.edu	37	chr11	67789267	67789267	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcaaccagaaacagttccaGcggctgcgggcattgctggg	13	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:67789267G>A	uc010rpy.1	+	8	992	c.876G>A	c.(874-876)CAG>CAA	p.Q292Q	ALDH3B1_uc001omz.2_Silent_p.Q292Q|ALDH3B1_uc001ona.2_Silent_p.Q255Q|ALDH3B1_uc001onb.2_RNA	NM_001161473	NP_001154945	P43353	AL3B1_HUMAN	aldehyde dehydrogenase 3B1 isoform a	292					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase				0					NADH(DB00157)	AACAGTTCCAGCGGCTGCGGG	0.647													6	26	---	---	---	---	PASS	A	67789267	A	A	67789267	2	1	4	1	0	0	0	0	0	0	0	1	499	962	34	3		3	ALDH3B1	11	67789267	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	6392	67789267	67217249	2263	2854										
NDUFS8	4728	broad.mit.edu	37	chr11	67800726	67800726	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgttgcattgcctgcaagctCtgcgaggccatctgccccgc	11	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:67800726C>T	uc001onc.2	+	5	455	c.348C>T	c.(346-348)CTC>CTT	p.L116L	NDUFS8_uc010rpz.1_Silent_p.L116L|NDUFS8_uc009ysb.1_Intron|NDUFS8_uc009ysc.1_Silent_p.L116L	NM_002496	NP_002487	O00217	NDUS8_HUMAN	NADH dehydrogenase ubiquinone Fe-S 8 precursor	116	4Fe-4S ferredoxin-type 1.				mitochondrial electron transport, NADH to ubiquinone|mitochondrial respiratory chain complex I assembly|response to oxidative stress|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity			skin(1)	1					NADH(DB00157)	CCTGCAAGCTCTGCGAGGCCA	0.622													4	6	---	---	---	---	PASS	T	67800726	T	T	67800726	2	4	4	1	0	0	0	0	0	0	0	1	10298	900	32	2		2	NDUFS8	11	67800726	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	11459	67800726	67205790	2264	2855										
CHKA	1119	broad.mit.edu	37	chr11	67833299	67833299	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggatgtttgctctgaaaaaaGggtatttttcatagctataa	9	4	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:67833299G>A	uc001onj.2	-	9	1293	c.1079C>T	c.(1078-1080)CCT>CTT	p.P360L	CHKA_uc001onk.2_Missense_Mutation_p.P342L	NM_001277	NP_001268	P35790	CHKA_HUMAN	choline kinase alpha isoform a	360					lipid transport|phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|choline kinase activity|drug binding|ethanolamine kinase activity|signal transducer activity			ovary(1)|central_nervous_system(1)	2					Choline(DB00122)	TCTGAAAAAAGGGTATTTTTC	0.373													10	20	---	---	---	---	PASS	A	67833299	A	A	67833299	3	1	4	1	0	0	0	0	1	0	0	0	3347	1000	35	3	310	3	CHKA	11	67833299	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	32573	67833299	67173217	2265	2856										
SUV420H1	51111	broad.mit.edu	37	chr11	67925262	67925262	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgcttagctggaggaagagGaataaaatcgtcttcaaagt	12	6	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:67925262G>A	uc001onm.1	-	11	2807	c.2551C>T	c.(2551-2553)CCT>TCT	p.P851S	SUV420H1_uc009yse.1_Missense_Mutation_p.P437S|SUV420H1_uc001onn.1_Missense_Mutation_p.P679S|SUV420H1_uc009ysf.2_Missense_Mutation_p.P611S	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	851					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						GGAGGAAGAGGAATAAAATCG	0.393													11	20	---	---	---	---	PASS	A	67925262	A	A	67925262	3	1	4	1	0	0	0	0	1	0	0	0	15411	1174	41	2	110	2	SUV420H1	11	67925262	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	91963	67925262	67081254	2266	2857										
LRP5	4041	broad.mit.edu	37	chr11	68115552	68115552	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catctccggcctggtctctcCcgacggcctcgcctgcgact	10	19	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:68115552C>T	uc001ont.2	+	2	404	c.329C>T	c.(328-330)CCC>CTC	p.P110L	LRP5_uc009ysg.2_5'UTR	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	110	Beta-propeller 1.|LDL-receptor class B 1.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CTGGTCTCTCCCGACGGCCTC	0.632													34	40	---	---	---	---	PASS	T	68115552	T	T	68115552	3	4	4	1	0	0	0	0	1	0	0	0	8960	623	22	3	335	3	LRP5	11	68115552	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	190290	68115552	66890964	2267	2858										
LRP5	4041	broad.mit.edu	37	chr11	68115652	68115652	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcaatggcacatcccggaaGgtgctcttctggcaggacct	11	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:68115652G>A	uc001ont.2	+	2	504	c.429G>A	c.(427-429)AAG>AAA	p.K143K	LRP5_uc009ysg.2_5'UTR	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	143	Beta-propeller 1.|LDL-receptor class B 2.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CATCCCGGAAGGTGCTCTTCT	0.662													23	38	---	---	---	---	PASS	A	68115652	A	A	68115652	2	1	4	1	0	0	0	0	0	0	0	1	8960	991	35	3		3	LRP5	11	68115652	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	100	68115652	66890864	2268	2859										
TPCN2	219931	broad.mit.edu	37	chr11	68822765	68822765	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagccgccctgcggcctgaCcgagagtgtcgaggtgctct	16	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:68822765C>A	uc001oos.2	+	4	490	c.374C>A	c.(373-375)ACC>AAC	p.T125N	TPCN2_uc009ysk.1_RNA|TPCN2_uc001oor.2_Intron|TPCN2_uc010rqg.1_Missense_Mutation_p.T125N	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	125	Extracellular (Potential).				cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TGCGGCCTGACCGAGAGTGTC	0.662													4	15	---	---	---	---	PASS	A	68822765	A	A	68822765	3	1	4	1	0	0	0	0	1	0	0	0	16393	507	18	3	388	3	TPCN2	11	68822765	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	707113	68822765	66183751	2269	2860										
MYEOV	26579	broad.mit.edu	37	chr11	69063187	69063187	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggccctgcgtgttgcggtGagaggagcatttgtgtctct	15	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:69063187G>A	uc001oov.2	+	3	720	c.270G>A	c.(268-270)GTG>GTA	p.V90V	MYEOV_uc001oox.2_Intron|MYEOV_uc009ysl.2_Silent_p.V90V|MYEOV_uc001oow.2_Silent_p.V32V	NM_138768	NP_620123	Q96EZ4	MYEOV_HUMAN	myeloma overexpressed	90											0	all_lung(4;2.21e-19)|Lung NSC(4;6.13e-19)|Melanoma(5;0.00128)		LUSC - Lung squamous cell carcinoma(11;3.33e-11)|STAD - Stomach adenocarcinoma(18;0.00654)|LUAD - Lung adenocarcinoma(13;0.0713)	Kidney(183;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.00361)|LUSC - Lung squamous cell carcinoma(976;0.0153)		GTGTTGCGGTGAGAGGAGCAT	0.637													9	41	---	---	---	---	PASS	A	69063187	A	A	69063187	2	1	4	1	0	0	0	0	0	0	0	1	10025	1277	45	2		2	MYEOV	11	69063187	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	240422	69063187	65943329	2270	2861										
FGF3	2248	broad.mit.edu	37	chr11	69631136	69631136	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggccaggtaccgcccggaGaagagacccctgatggccac	13	14	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:69631136G>A	uc001oph.2	-	2	767	c.276C>T	c.(274-276)TTC>TTT	p.F92F		NM_005247	NP_005238	P11487	FGF3_HUMAN	fibroblast growth factor 3 precursor	92					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of cardiac muscle tissue development|positive regulation of cell division|positive regulation of cell proliferation	extracellular region	growth factor activity			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(11;5.05e-15)|STAD - Stomach adenocarcinoma(18;0.0278)			ACCGCCCGGAGAAGAGACCCC	0.612													21	35	---	---	---	---	PASS	A	69631136	A	A	69631136	2	1	4	1	0	0	0	0	0	0	0	1	5853	933	33	2		2	FGF3	11	69631136	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	567949	69631136	65375380	2271	2862										
ANO1	55107	broad.mit.edu	37	chr11	70033894	70033894	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gactgggtcatcccggacatCcccaaggacatcagccagca	10	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:70033894C>T	uc001opj.2	+	26	3050	c.2745C>T	c.(2743-2745)ATC>ATT	p.I915I	ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Silent_p.I624I|ANO1_uc010rql.1_Silent_p.I89I	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	915	Cytoplasmic (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						TCCCGGACATCCCCAAGGACA	0.582													7	15	---	---	---	---	PASS	T	70033894	T	T	70033894	2	4	4	1	0	0	0	0	0	0	0	1	695	845	30	2		2	ANO1	11	70033894	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	402758	70033894	64972622	2272	2863										
SHANK2	22941	broad.mit.edu	37	chr11	70319386	70319386	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttgttcatctctgttggcGagaccacagggcttggggca	13	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:70319386G>A	uc001oqc.2	-	22	5216	c.5138C>T	c.(5137-5139)TCG>TTG	p.S1713L	SHANK2_uc010rqn.1_Missense_Mutation_p.S1125L|SHANK2_uc001opz.2_Missense_Mutation_p.S1118L|uc009ysn.1_Intron|SHANK2_uc001opy.2_Missense_Mutation_p.S49L	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	1334					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)			CTCTGTTGGCGAGACCACAGG	0.632													6	22	---	---	---	---	PASS	A	70319386	A	A	70319386	3	1	4	1	0	0	0	0	1	0	0	0	14265	1059	37	2	415	2	SHANK2	11	70319386	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	285492	70319386	64687130	2273	2864										
FCHSD2	9873	broad.mit.edu	37	chr11	72712089	72712089	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtccttgcaggctcagaaatGaagtttttatagttttcaca	8	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:72712089G>A	uc009ytl.2	-	5	554	c.333C>T	c.(331-333)TTC>TTT	p.F111F	FCHSD2_uc010rrg.1_Intron|FCHSD2_uc001oth.3_Silent_p.F55F|FCHSD2_uc001oti.2_Silent_p.F70F	NM_014824	NP_055639	O94868	FCSD2_HUMAN	FCH and double SH3 domains 2	111							protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(5;3.3e-05)			GCTCAGAAATGAAGTTTTTAT	0.363													9	15	---	---	---	---	PASS	A	72712089	A	A	72712089	2	1	4	1	0	0	0	0	0	0	0	1	5790	1281	45	2		2	FCHSD2	11	72712089	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2392703	72712089	62294427	2274	2865										
ARHGEF17	9828	broad.mit.edu	37	chr11	73076728	73076728	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtctcccaccccaggctcgGatgccatcatccggcagcac	9	18	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:73076728G>A	uc001otu.2	+	20	5752	c.5731G>A	c.(5731-5733)GAT>AAT	p.D1911N		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1911					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						CCCAGGCTCGGATGCCATCAT	0.637													8	13	---	---	---	---	PASS	A	73076728	A	A	73076728	3	1	4	1	0	0	0	0	1	0	0	0	900	1174	41	2	5809	2	ARHGEF17	11	73076728	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	364639	73076728	61929788	2275	2866										
MAP6	4135	broad.mit.edu	37	chr11	75298965	75298965	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggaccgagggaccttggtcCttgactggtgctgagataac	15	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:75298965C>T	uc001owu.2	-	4	1646	c.1581G>A	c.(1579-1581)AAG>AAA	p.K527K		NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	527	Pro-rich.					Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					GACCTTGGTCCTTGACTGGTG	0.483													7	64	---	---	---	---	PASS	T	75298965	T	T	75298965	2	4	4	1	0	0	0	0	0	0	0	1	9264	680	24	3		3	MAP6	11	75298965	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2222237	75298965	59707551	2276	2867										
MOGAT2	80168	broad.mit.edu	37	chr11	75438599	75438599	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagagcacaggcttctcttcGatcttccccggtatccgccc	9	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:75438599G>C	uc010rru.1	+	3	390	c.390G>C	c.(388-390)TCG>TCC	p.S130S	MOGAT2_uc001oww.1_Silent_p.S130S|MOGAT2_uc010rrv.1_Silent_p.S48S	NM_025098	NP_079374	Q3SYC2	MOGT2_HUMAN	monoacylglycerol O-acyltransferase 2	130					glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			ovary(2)	2	Ovarian(111;0.103)					GCTTCTCTTCGATCTTCCCCG	0.572													21	26	---	---	---	---	PASS	C	75438599	C	C	75438599	2	2	4	1	0	0	0	0	0	0	0	1	9695	1045	37	2		2	MOGAT2	11	75438599	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	139634	75438599	59567917	2277	2868										
DGAT2	84649	broad.mit.edu	37	chr11	75501768	75501768	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctactttcgagactactttCccatccaggtaaagtgctgt	8	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:75501768C>T	uc001oxa.2	+	4	680	c.421C>T	c.(421-423)CCC>TCC	p.P141S	DGAT2_uc001oxb.2_Missense_Mutation_p.P98S	NM_032564	NP_115953	Q96PD7	DGAT2_HUMAN	diacylglycerol O-acyltransferase 2	141	Cytoplasmic (Potential).				glycerol metabolic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	diacylglycerol O-acyltransferase activity				0	Ovarian(111;0.103)					AGACTACTTTCCCATCCAGGT	0.527													12	19	---	---	---	---	PASS	T	75501768	T	T	75501768	3	4	4	1	0	0	0	0	1	0	0	0	4458	855	30	2	435	2	DGAT2	11	75501768	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	63169	75501768	59504748	2278	2869										
C11orf30	56946	broad.mit.edu	37	chr11	76255758	76255758	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgaaaaccacgcagcagctCcctaaactgcagcaggctcc	9	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:76255758C>T	uc001oxl.2	+	19	3308	c.3165C>T	c.(3163-3165)CTC>CTT	p.L1055L	C11orf30_uc001oxm.2_Silent_p.L957L|C11orf30_uc010rsb.1_Silent_p.L1070L|C11orf30_uc010rsc.1_Silent_p.L1056L|C11orf30_uc001oxn.2_Silent_p.L1056L|C11orf30_uc010rsd.1_Silent_p.L964L|C11orf30_uc001oxo.1_Silent_p.L409L|C11orf30_uc010rse.1_Silent_p.L302L|C11orf30_uc001oxp.2_Silent_p.L155L	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	1055	Gln-rich.				chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						CGCAGCAGCTCCCTAAACTGC	0.547													28	71	---	---	---	---	PASS	T	76255758	T	T	76255758	2	4	4	1	0	0	0	0	0	0	0	1	1636	842	30	2		2	C11orf30	11	76255758	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	753990	76255758	58750758	2279	2870										
TSKU	25987	broad.mit.edu	37	chr11	76506861	76506861	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcccacttggacctgtcctcCaaccggctggagatggtgaa	12	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:76506861C>T	uc001oxt.2	+	2	373	c.201C>T	c.(199-201)TCC>TCT	p.S67S		NM_015516	NP_056331	Q8WUA8	TSK_HUMAN	tsukushin precursor	67	LRR 1.					extracellular region					0	Ovarian(111;0.112)					ACCTGTCCTCCAACCGGCTGG	0.632													17	23	---	---	---	---	PASS	T	76506861	T	T	76506861	2	4	4	1	0	0	0	0	0	0	0	1	16624	581	21	3		3	TSKU	11	76506861	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	251103	76506861	58499655	2280	2871										
MYO7A	4647	broad.mit.edu	37	chr11	76867051	76867051	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tataccaacaagaagattggGgagatgcccccccacatctt	8	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:76867051G>A	uc001oyb.2	+	5	656	c.384G>A	c.(382-384)GGG>GGA	p.G128G	MYO7A_uc010rsl.1_Silent_p.G128G|MYO7A_uc010rsm.1_Silent_p.G117G|MYO7A_uc001oyc.2_Silent_p.G128G	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	128	Myosin head-like.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						AGAAGATTGGGGAGATGCCCC	0.562													5	16	---	---	---	---	PASS	A	76867051	A	A	76867051	2	1	4	1	0	0	0	0	0	0	0	1	10082	1219	43	3		3	MYO7A	11	76867051	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	360190	76867051	58139465	2281	2872										
TMEM126B	55863	broad.mit.edu	37	chr11	85347169	85347169	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcaaacacaaatgaaattaAtggcgattcctctagtcttt	6	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:85347169A>G	uc001pao.2	+	6	751	c.499A>G	c.(499-501)ATG>GTG	p.M167V	TMEM126B_uc001pap.2_Missense_Mutation_p.M167V|TMEM126B_uc001paq.1_3'UTR	NM_018480	NP_060950	Q8IUX1	T126B_HUMAN	transmembrane protein 126B	197						integral to membrane					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				AATGAAATTAATGGCGATTCC	0.338													9	38	---	---	---	---	PASS	G	85347169	G	G	85347169	3	3	4	1	0	0	0	0	1	0	0	0	16036	101	4	5	513	5	TMEM126B	11	85347169	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	8480118	85347169	49659347	2282	2873										
FOLH1B	219595	broad.mit.edu	37	chr11	89424219	89424219	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgctcccttttgattgtcGagattatgctgtagttttaa	9	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:89424219G>A	uc001pda.2	+	11	1395	c.869G>A	c.(868-870)CGA>CAA	p.R290Q		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	290					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TTTGATTGTCGAGATTATGCT	0.373													10	45	---	---	---	---	PASS	A	89424219	A	A	89424219	3	1	4	1	0	0	0	0	1	0	0	0	5980	1058	37	2	903	2	FOLH1B	11	89424219	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4077050	89424219	45582297	2283	2874										
FAT3	120114	broad.mit.edu	37	chr11	92087415	92087415	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaatctggaagatggatttCttgacttttattcaattaat	7	4	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:92087415C>T	uc001pdj.3	+	1	2154	c.2137C>T	c.(2137-2139)CTT>TTT	p.L713F		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	713	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGATGGATTTCTTGACTTTTA	0.408										TCGA Ovarian(4;0.039)			41	77	---	---	---	---	PASS	T	92087415	T	T	92087415	3	4	4	1	0	0	0	0	1	0	0	0	5691	913	32	2	2139	2	FAT3	11	92087415	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2663196	92087415	42919101	2284	2875										
FAT3	120114	broad.mit.edu	37	chr11	92088352	92088352	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtctctctgtcatctgtttCctttgttgaggtggaagtgg	12	7	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:92088352C>T	uc001pdj.3	+	1	3091	c.3074C>T	c.(3073-3075)TCC>TTC	p.S1025F		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1025	Cadherin 9.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCATCTGTTTCCTTTGTTGAG	0.458										TCGA Ovarian(4;0.039)			6	34	---	---	---	---	PASS	T	92088352	T	T	92088352	3	4	4	1	0	0	0	0	1	0	0	0	5691	855	30	2	3076	2	FAT3	11	92088352	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	937	92088352	42918164	2285	2876										
FAT3	120114	broad.mit.edu	37	chr11	92532092	92532092	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctccatggtcaccatcatGgttaaagaagccatggacag	9	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:92532092G>A	uc001pdj.3	+	9	5930	c.5913G>A	c.(5911-5913)ATG>ATA	p.M1971I		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1971	Cadherin 17.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCACCATCATGGTTAAAGAAG	0.413										TCGA Ovarian(4;0.039)			29	111	---	---	---	---	PASS	A	92532092	A	A	92532092	3	1	4	1	0	0	0	0	1	0	0	0	5691	1348	47	3	5947	3	FAT3	11	92532092	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	443740	92532092	42474424	2286	2877										
FAT3	120114	broad.mit.edu	37	chr11	92533403	92533403	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatgtgagtgaattagccccCcggggccattttgtaacctg	11	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:92533403C>T	uc001pdj.3	+	9	7241	c.7224C>T	c.(7222-7224)CCC>CCT	p.P2408P		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2408	Cadherin 22.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AATTAGCCCCCCGGGGCCATT	0.443										TCGA Ovarian(4;0.039)			35	38	---	---	---	---	PASS	T	92533403	T	T	92533403	2	4	4	1	0	0	0	0	0	0	0	1	5691	610	22	3		3	FAT3	11	92533403	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1311	92533403	42473113	2287	2878										
FAT3	120114	broad.mit.edu	37	chr11	92534585	92534585	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttactgtggatgtagatatCaaggtattggatttgaatga	11	2	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:92534585C>T	uc001pdj.3	+	9	8423	c.8406C>T	c.(8404-8406)ATC>ATT	p.I2802I		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2802	Extracellular (Potential).|Cadherin 25.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ATGTAGATATCAAGGTATTGG	0.433										TCGA Ovarian(4;0.039)			17	19	---	---	---	---	PASS	T	92534585	T	T	92534585	2	4	4	1	0	0	0	0	0	0	0	1	5691	816	29	2		2	FAT3	11	92534585	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1182	92534585	42471931	2288	2879										
FAT3	120114	broad.mit.edu	37	chr11	92600132	92600132	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcatctacttcggcgccctgGtgcaagcggataacatccgc	11	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:92600132G>A	uc001pdj.3	+	21	11901	c.11884G>A	c.(11884-11886)GTG>ATG	p.V3962M	FAT3_uc001pdi.3_Missense_Mutation_p.V402M	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3962	Laminin G-like.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CGGCGCCCTGGTGCAAGCGGA	0.617										TCGA Ovarian(4;0.039)			5	6	---	---	---	---	PASS	A	92600132	A	A	92600132	3	1	4	1	0	0	0	0	1	0	0	0	5691	1261	44	3	11966	3	FAT3	11	92600132	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	65547	92600132	42406384	2289	2880										
FAT3	120114	broad.mit.edu	37	chr11	92616106	92616106	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatcggcatcgccgtggtcCtcttcgtcatcttcatcctg	8	15	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:92616106C>T	uc001pdj.3	+	23	12501	c.12484C>T	c.(12484-12486)CTC>TTC	p.L4162F	FAT3_uc001pdi.3_Missense_Mutation_p.L602F	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4162	Helical; (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CGCCGTGGTCCTCTTCGTCAT	0.592										TCGA Ovarian(4;0.039)			6	11	---	---	---	---	PASS	T	92616106	T	T	92616106	3	4	4	1	0	0	0	0	1	0	0	0	5691	681	24	3	12574	3	FAT3	11	92616106	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	15974	92616106	42390410	2290	2881										
SLC36A4	120103	broad.mit.edu	37	chr11	92918976	92918976	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcaagggcctcattacatcCatatctttaaaaaagaaaaa	4	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:92918976C>T	uc001pdn.2	-	2	157	c.60G>A	c.(58-60)ATG>ATA	p.M20I	SLC36A4_uc001pdm.2_5'UTR	NM_152313	NP_689526	Q6YBV0	S36A4_HUMAN	solute carrier family 36 (proton/amino acid	20					L-alanine transport|proline transport|tryptophan transport	integral to membrane	symporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				TCATTACATCCATATCTTTAA	0.333													10	33	---	---	---	---	PASS	T	92918976	T	T	92918976	3	4	4	1	0	0	0	0	1	0	0	0	14596	594	21	3	1494	3	SLC36A4	11	92918976	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	302870	92918976	42087540	2291	2882										
CCDC67	159989	broad.mit.edu	37	chr11	93148188	93148188	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttagtcatgactgtgagccaAacagaagtacaatgcctccc	8	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:93148188A>T	uc001pdq.2	+	13	1646	c.1546A>T	c.(1546-1548)AAC>TAC	p.N516Y	CCDC67_uc001pdo.1_Missense_Mutation_p.N516Y	NM_181645	NP_857596	Q05D60	CCD67_HUMAN	coiled-coil domain containing 67	516										ovary(1)	1		Acute lymphoblastic leukemia(157;2.35e-05)|all_hematologic(158;0.00824)				CTGTGAGCCAAACAGAAGTAC	0.393													28	57	---	---	---	---	PASS	T	93148188	T	T	93148188	3	4	4	1	0	0	0	0	1	0	0	0	2839	14	1	5	1592	5	CCDC67	11	93148188	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	229212	93148188	41858328	2292	2883										
KDM4D	55693	broad.mit.edu	37	chr11	94730726	94730726	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaagccagagagacctatGataatatcagtgaaatctta	9	6	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:94730726G>A	uc001pfe.2	+	3	1022	c.190G>A	c.(190-192)GAT>AAT	p.D64N		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	64					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						AGAGACCTATGATAATATCAG	0.438													8	53	---	---	---	---	PASS	A	94730726	A	A	94730726	3	1	4	1	0	0	0	0	1	0	0	0	8131	1290	45	2	192	2	KDM4D	11	94730726	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1582538	94730726	40275790	2293	2884										
ENDOD1	23052	broad.mit.edu	37	chr11	94862074	94862074	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actgagcaagacacagagaaAatgaaaaaaatcctggaagt	9	6	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:94862074A>G	uc001pfh.2	+	2	909	c.834A>G	c.(832-834)AAA>AAG	p.K278K		NM_015036	NP_055851	O94919	ENDD1_HUMAN	endonuclease domain containing 1 precursor	278						extracellular region	endonuclease activity|metal ion binding|nucleic acid binding				0		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.00824)				ACACAGAGAAAATGAAAAAAA	0.403													20	49	---	---	---	---	PASS	G	94862074	G	G	94862074	2	3	4	1	0	0	0	0	0	0	0	1	5114	11	1	5		5	ENDOD1	11	94862074	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	131348	94862074	40144442	2294	2885										
CNTN5	53942	broad.mit.edu	37	chr11	99690452	99690452	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcagctcagaattattattCccccatcaatctttatcatt	4	11	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:99690452C>T	uc001pga.2	+	4	572	c.233C>T	c.(232-234)TCC>TTC	p.S78F	CNTN5_uc009ywv.1_Missense_Mutation_p.S78F|CNTN5_uc001pfz.2_Missense_Mutation_p.S78F|CNTN5_uc001pgb.2_Intron	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	78					cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		AATTATTATTCCCCCATCAAT	0.343													5	21	---	---	---	---	PASS	T	99690452	T	T	99690452	3	4	4	1	0	0	0	0	1	0	0	0	3644	855	30	2	239	2	CNTN5	11	99690452	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4828378	99690452	35316064	2295	2886										
PGR	5241	broad.mit.edu	37	chr11	100933363	100933363	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actgtatgtcttgacctggtGaaaaagtgaatctctggctt	10	7	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:100933363G>A	uc001pgh.2	-	4	2770	c.2027C>T	c.(2026-2028)TCA>TTA	p.S676L	PGR_uc001pgg.2_Missense_Mutation_p.S57L|PGR_uc001pgi.2_Intron|PGR_uc009yww.1_Intron|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	676					cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	TTGACCTGGTGAAAAAGTGAA	0.458													31	67	---	---	---	---	PASS	A	100933363	A	A	100933363	3	1	4	1	0	0	0	0	1	0	0	0	11805	1294	45	2	794	2	PGR	11	100933363	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1242911	100933363	34073153	2296	2887										
MMP8	4317	broad.mit.edu	37	chr11	102593196	102593196	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcgttcccacttggggtttCctggggttaacataaaacca	10	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:102593196C>T	uc001phe.2	-	2	410	c.311G>A	c.(310-312)GGA>GAA	p.G104E	MMP8_uc010rut.1_Missense_Mutation_p.G39E|MMP8_uc010ruu.1_Missense_Mutation_p.G81E	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	104					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		CTTGGGGTTTCCTGGGGTTAA	0.393													21	22	---	---	---	---	PASS	T	102593196	T	T	102593196	3	4	4	1	0	0	0	0	1	0	0	0	9668	855	30	2	1128	2	MMP8	11	102593196	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1659833	102593196	32413320	2297	2888										
MMP1	4312	broad.mit.edu	37	chr11	102661200	102661200	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggagagtcaaaattctcttCgttttaggatcaaatttgta	8	5	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:102661200C>T	uc001phi.2	-	10	1496	c.1353G>A	c.(1351-1353)ACG>ACA	p.T451T	uc001phh.1_Intron|MMP1_uc010ruv.1_Silent_p.T385T	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	451	Hemopexin-like 4.				blood coagulation|collagen catabolic process|interspecies interaction between organisms|leukocyte migration|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)|lung(1)	4	all_epithelial(12;0.0127)	all_neural(303;0.000318)|all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.072)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.233)	OV - Ovarian serous cystadenocarcinoma(223;1.82e-07)|Epithelial(105;1.51e-06)|BRCA - Breast invasive adenocarcinoma(274;0.014)		AAATTCTCTTCGTTTTAGGAT	0.318													4	13	---	---	---	---	PASS	T	102661200	T	T	102661200	2	4	4	1	0	0	0	0	0	0	0	1	9648	871	31	2		2	MMP1	11	102661200	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	68004	102661200	32345316	2298	2889										
MMP1	4312	broad.mit.edu	37	chr11	102661252	102661252	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catgaaagaaatagaaaaatCctagaaacaaaacaaaagag	6	5	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:102661252C>T	uc001phi.2	-	10	1444	c.1301G>A	c.(1300-1302)GGA>GAA	p.G434E	uc001phh.1_Intron|MMP1_uc010ruv.1_Missense_Mutation_p.G368E	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	434	Hemopexin-like 4.				blood coagulation|collagen catabolic process|interspecies interaction between organisms|leukocyte migration|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)|lung(1)	4	all_epithelial(12;0.0127)	all_neural(303;0.000318)|all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.072)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.233)	OV - Ovarian serous cystadenocarcinoma(223;1.82e-07)|Epithelial(105;1.51e-06)|BRCA - Breast invasive adenocarcinoma(274;0.014)		ATAGAAAAATCCTAGAAACAA	0.323													8	11	---	---	---	---	PASS	T	102661252	T	T	102661252	3	4	4	1	0	0	0	0	1	0	0	0	9648	869	30	2	112	2	MMP1	11	102661252	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	52	102661252	32345264	2299	2890										
MMP3	4314	broad.mit.edu	37	chr11	102713525	102713525	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtcggagtccagcttcccCgtcacctccaatccaaggaa	9	15	1	0	rs149147183	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:102713525C>A	uc001phj.1	-	2	293	c.228G>T	c.(226-228)ACG>ACT	p.T76T		NM_002422	NP_002413	P08254	MMP3_HUMAN	matrix metalloproteinase 3 preproprotein	76					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			lung(1)|kidney(1)	2		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.0142)	Marimastat(DB00786)|Simvastatin(DB00641)	CCAGCTTCCCCGTCACCTCCA	0.488													3	21	---	---	---	---	PASS	A	102713525	A	A	102713525	2	1	4	1	0	0	0	0	0	0	0	1	9666	639	23	1		1	MMP3	11	102713525	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	52273	102713525	32292991	2300	2891										
DYNC2H1	79659	broad.mit.edu	37	chr11	103107179	103107179	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatttgatctgaggagatttCtttgtactgaaagtgagcag	11	4	2	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:103107179C>T	uc001pho.2	+	63	9874	c.9730C>T	c.(9730-9732)CTT>TTT	p.L3244F	DYNC2H1_uc001phn.1_Missense_Mutation_p.L3244F|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3244	AAA 5 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		GAGGAGATTTCTTTGTACTGA	0.333													11	36	---	---	---	---	PASS	T	103107179	T	T	103107179	3	4	4	1	0	0	0	0	1	0	0	0	4846	913	32	2	9980	2	DYNC2H1	11	103107179	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	393654	103107179	31899337	2301	2892										
DDI1	414301	broad.mit.edu	37	chr11	103908634	103908634	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcacgcagacttattttcttCctgagggagagttgccctta	10	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:103908634C>T	uc001phr.2	+	1	1327	c.1084C>T	c.(1084-1086)CCT>TCT	p.P362S	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	362					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		TTATTTTCTTCCTGAGGGAGA	0.463													20	18	---	---	---	---	PASS	T	103908634	T	T	103908634	3	4	4	1	0	0	0	0	1	0	0	0	4328	855	30	2	1086	2	DDI1	11	103908634	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	801455	103908634	31097882	2302	2893										
CASP4	837	broad.mit.edu	37	chr11	104820346	104820346	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgcggttgttgaatatctgGaagatggtgtcataaagcag	13	4	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:104820346G>A	uc001pid.1	-	5	778	c.705C>T	c.(703-705)TTC>TTT	p.F235F	CASP4_uc001pib.1_Silent_p.F179F|CASP4_uc009yxg.1_Silent_p.F144F|CASP4_uc010rux.1_Silent_p.F235F	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor	235					apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		TGAATATCTGGAAGATGGTGT	0.483													22	68	---	---	---	---	PASS	A	104820346	A	A	104820346	2	1	4	1	0	0	0	0	0	0	0	1	2673	1165	41	2		2	CASP4	11	104820346	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	911712	104820346	30186170	2303	2894										
ELMOD1	55531	broad.mit.edu	37	chr11	107501162	107501162	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaatgttgatccaggtatgcCtgtatttttactgtaaattt	8	5	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:107501162C>T	uc010rvs.1	+	3	441	c.37C>T	c.(37-39)CTG>TTG	p.L13L	ELMOD1_uc001pjm.2_Silent_p.L13L|ELMOD1_uc010rvt.1_Silent_p.L7L	NM_018712	NP_061182	Q8N336	ELMD1_HUMAN	ELMO/CED-12 domain containing 1 isoform 1	13					phagocytosis	cytoskeleton	GTPase activator activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00304)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Epithelial(105;0.00027)|all cancers(92;0.00481)		CCAGGTATGCCTGTATTTTTA	0.413													6	12	---	---	---	---	PASS	T	107501162	T	T	107501162	2	4	4	1	0	0	0	0	0	0	0	1	5068	680	24	3		3	ELMOD1	11	107501162	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2680816	107501162	27505354	2304	2895										
EXPH5	23086	broad.mit.edu	37	chr11	108385421	108385421	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctggtcttaggatgtcataGatagacatattggaagtttc	10	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:108385421G>A	uc001pkk.2	-	6	924	c.813C>T	c.(811-813)ATC>ATT	p.I271I	EXPH5_uc010rvy.1_Silent_p.I83I|EXPH5_uc010rvz.1_Silent_p.I115I|EXPH5_uc010rwa.1_Silent_p.I195I	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	271					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		GGATGTCATAGATAGACATAT	0.388													20	33	---	---	---	---	PASS	A	108385421	A	A	108385421	2	1	4	1	0	0	0	0	0	0	0	1	5322	932	33	2		2	EXPH5	11	108385421	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	884259	108385421	26621095	2305	2896										
ARHGAP20	57569	broad.mit.edu	37	chr11	110450853	110450853	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatggggaagtgcctggggaGgataagctggaatagctggt	19	4	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:110450853G>A	uc001pkz.1	-	16	3102	c.2817C>T	c.(2815-2817)TCC>TCT	p.S939S	ARHGAP20_uc001pky.1_Silent_p.S916S|ARHGAP20_uc009yyb.1_Silent_p.S903S|ARHGAP20_uc001pla.1_Silent_p.S903S|ARHGAP20_uc001plb.2_Silent_p.S482S	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	939	Ser-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		TGCCTGGGGAGGATAAGCTGG	0.488													22	34	---	---	---	---	PASS	A	110450853	A	A	110450853	2	1	4	1	0	0	0	0	0	0	0	1	870	987	35	3		3	ARHGAP20	11	110450853	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2065432	110450853	24555663	2306	2897										
C11orf53	341032	broad.mit.edu	37	chr11	111156674	111156674	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccaaggtggggccactctcCccagatgaggaagcagacac	12	14	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:111156674C>T	uc001plc.2	+	4	753	c.606C>T	c.(604-606)TCC>TCT	p.S202S		NM_198498	NP_940900	Q8IXP5	CK053_HUMAN	hypothetical protein LOC341032	202											0		all_cancers(61;2.05e-09)|Melanoma(852;4.04e-05)|all_epithelial(67;6.15e-05)|all_hematologic(158;0.000826)|Acute lymphoblastic leukemia(157;0.000966)|all_neural(223;0.0332)|Medulloblastoma(222;0.0425)|Breast(348;0.147)		Epithelial(105;1.7e-06)|BRCA - Breast invasive adenocarcinoma(274;3.16e-06)|all cancers(92;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0507)		GGCCACTCTCCCCAGATGAGG	0.582													28	44	---	---	---	---	PASS	T	111156674	T	T	111156674	2	4	4	1	0	0	0	0	0	0	0	1	1648	610	22	3		3	C11orf53	11	111156674	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	705821	111156674	23849842	2307	2898										
FDXACB1	91893	broad.mit.edu	37	chr11	111746473	111746473	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaacatgcactaggagagAaggtctaaggcagatcttgg	13	7	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:111746473A>T	uc001pmc.3	-	5	1345	c.1048T>A	c.(1048-1050)TCT>ACT	p.S350T	ALG9_uc010rwo.1_Intron|FDXACB1_uc009yyi.2_Missense_Mutation_p.S201T	NM_138378	NP_612387	Q9BRP7	FDXA1_HUMAN	ferredoxin-fold anticodon binding domain	350					phenylalanyl-tRNA aminoacylation|tRNA processing		ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0						ACTAGGAGAGAAGGTCTAAGG	0.468													19	85	---	---	---	---	PASS	T	111746473	T	T	111746473	3	4	4	1	0	0	0	0	1	0	0	0	5806	246	9	5	830	5	FDXACB1	11	111746473	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	589799	111746473	23260043	2308	2899										
HTR3B	9177	broad.mit.edu	37	chr11	113813828	113813828	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgagccaggattgtgttcaAgaccagtgtgctggtgggct	15	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:113813828A>G	uc001pok.2	+	7	888	c.821A>G	c.(820-822)AAG>AGG	p.K274R	HTR3B_uc001pol.2_Missense_Mutation_p.K263R	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	274	Helical; Name=2; (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		ATTGTGTTCAAGACCAGTGTG	0.567													10	13	---	---	---	---	PASS	G	113813828	G	G	113813828	3	3	4	1	0	0	0	0	1	0	0	0	7445	72	3	5	847	5	HTR3B	11	113813828	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2067355	113813828	21192688	2309	2900										
BUD13	84811	broad.mit.edu	37	chr11	116619214	116619214	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagttacatatcctcaacaCtccatttgtaggcaagttcc	5	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:116619214C>T	uc001ppn.2	-	10	1878	c.1844G>A	c.(1843-1845)AGT>AAT	p.S615N	BUD13_uc001ppo.2_Missense_Mutation_p.S481N	NM_032725	NP_116114	Q9BRD0	BUD13_HUMAN	BUD13 homolog isoform 1	615										large_intestine(1)|pancreas(1)	2	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.81e-06)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.154)		ATCCTCAACACTCCATTTGTA	0.493													6	31	---	---	---	---	PASS	T	116619214	T	T	116619214	3	4	4	1	0	0	0	0	1	0	0	0	1573	565	20	3	19	3	BUD13	11	116619214	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2805386	116619214	18387302	2310	2901										
ZNF259	8882	broad.mit.edu	37	chr11	116655826	116655826	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgactcacttcatttctgaGatcttcctcttctggcttct	6	12	7	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:116655826G>A	uc001ppp.2	-	7	775	c.742C>T	c.(742-744)CTC>TTC	p.L248F	ZNF259_uc009yzd.2_Missense_Mutation_p.L248F|ZNF259_uc001ppq.2_Intron	NM_003904	NP_003895	O75312	ZPR1_HUMAN	zinc finger protein 259	248					cell proliferation|signal transduction	cytoplasm|nucleolus					0	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.61e-06)|all cancers(92;0.000139)|OV - Ovarian serous cystadenocarcinoma(223;0.153)		TCATTTCTGAGATCTTCCTCT	0.498													35	53	---	---	---	---	PASS	A	116655826	A	A	116655826	3	1	4	1	0	0	0	0	1	0	0	0	17798	942	33	2	669	2	ZNF259	11	116655826	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	36612	116655826	18350690	2311	2902										
SIK3	23387	broad.mit.edu	37	chr11	116729286	116729286	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagggactttcagggcttgGgttggagagaaccccactcc	15	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:116729286G>A	uc001ppy.2	-	20	2613	c.2577C>T	c.(2575-2577)ACC>ACT	p.T859T	SIK3_uc001ppz.2_Intron|SIK3_uc001pqa.2_Intron|SIK3_uc001ppw.2_Intron|SIK3_uc001ppx.2_Intron|SIK3_uc001pqb.2_Silent_p.T162T	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	859	Gln-rich.					cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						TCAGGGCTTGGGTTGGAGAGA	0.597													17	46	---	---	---	---	PASS	A	116729286	A	A	116729286	2	1	4	1	0	0	0	0	0	0	0	1	14319	1219	43	3		3	SIK3	11	116729286	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	73460	116729286	18277230	2312	2903										
CEP164	22897	broad.mit.edu	37	chr11	117253651	117253651	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccccaccccgccagtctctCcagaggtgtaagggccagtt	11	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:117253651C>T	uc001prc.2	+	14	1864	c.1717C>T	c.(1717-1719)CCA>TCA	p.P573S	CEP164_uc001prb.2_Missense_Mutation_p.P576S|CEP164_uc010rxk.1_Missense_Mutation_p.P547S|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_5'Flank	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	573	Glu-rich.				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)		GCCAGTCTCTCCAGAGGTGTA	0.632													6	6	---	---	---	---	PASS	T	117253651	T	T	117253651	3	4	4	1	0	0	0	0	1	0	0	0	3249	855	30	2	1763	2	CEP164	11	117253651	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	524365	117253651	17752865	2313	2904										
CEP164	22897	broad.mit.edu	37	chr11	117280365	117280365	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgagtctcacctcccgcaaGatccacgggcttagccactc	8	18	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:117280365G>A	uc001prc.2	+	30	3927	c.3780G>A	c.(3778-3780)AAG>AAA	p.K1260K	CEP164_uc001prb.2_Silent_p.K1255K|CEP164_uc001prf.2_Intron|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Silent_p.K685K	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	1260					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)		CCTCCCGCAAGATCCACGGGC	0.617													30	41	---	---	---	---	PASS	A	117280365	A	A	117280365	2	1	4	1	0	0	0	0	0	0	0	1	3249	933	33	2		2	CEP164	11	117280365	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	26714	117280365	17726151	2314	2905										
DSCAML1	57453	broad.mit.edu	37	chr11	117306409	117306409	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttcttgcgtacgatgaaGagcagtgccacccccagtgt	10	13	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:117306409G>A	uc001prh.1	-	27	5009	c.5007C>T	c.(5005-5007)CTC>CTT	p.L1669L		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1609	Helical; (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GTACGATGAAGAGCAGTGCCA	0.582													15	18	---	---	---	---	PASS	A	117306409	A	A	117306409	2	1	4	1	0	0	0	0	0	0	0	1	4769	929	33	2		2	DSCAML1	11	117306409	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	26044	117306409	17700107	2315	2906										
UBE4A	9354	broad.mit.edu	37	chr11	118235859	118235859	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgctgctctttttggctccCtggctgatgccaaacagttt	9	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:118235859C>T	uc001psw.2	+	2	193	c.64C>T	c.(64-66)CTG>TTG	p.L22L	UBE4A_uc001psv.2_Silent_p.L22L	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	22					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		TTTTGGCTCCCTGGCTGATGC	0.453													12	30	---	---	---	---	PASS	T	118235859	T	T	118235859	2	4	4	1	0	0	0	0	0	0	0	1	16879	680	24	3		3	UBE4A	11	118235859	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	929450	118235859	16770657	2316	2907										
MLL	4297	broad.mit.edu	37	chr11	118376855	118376855	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacaactggggacatcacaGaccccctctactgctgcaat	7	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:118376855G>A	uc001pta.2	+	27	10262	c.10239G>A	c.(10237-10239)CAG>CAA	p.Q3413Q	MLL_uc001ptb.2_Silent_p.Q3416Q	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3413					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GGACATCACAGACCCCCTCTA	0.537			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								20	68	---	---	---	---	PASS	A	118376855	A	A	118376855	2	1	4	1	0	0	0	0	0	0	0	1	9620	933	33	2		2	MLL	11	118376855	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	140996	118376855	16629661	2317	2908										
BCL9L	283149	broad.mit.edu	37	chr11	118769513	118769513	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggttgggaggccgagaggGagtctgctccgccatcatgt	17	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:118769513G>C	uc001pug.2	-	8	5076	c.4111C>G	c.(4111-4113)CCC>GCC	p.P1371A	BCL9L_uc009zal.2_Missense_Mutation_p.P1366A	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	1371	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		GGCCGAGAGGGAGTCTGCTCC	0.627													7	18	---	---	---	---	PASS	C	118769513	C	C	118769513	3	2	4	1	0	0	0	0	1	0	0	0	1382	1174	41	2	392	2	BCL9L	11	118769513	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	392658	118769513	16237003	2318	2909										
HYOU1	10525	broad.mit.edu	37	chr11	118923096	118923096	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caactcctcaaattccacacGagtcacttttgccttgaagt	5	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:118923096G>A	uc001puu.2	-	10	1226	c.1033C>T	c.(1033-1035)CGT>TGT	p.R345C	HYOU1_uc001put.2_Missense_Mutation_p.R310C|HYOU1_uc010ryu.1_Missense_Mutation_p.R365C|HYOU1_uc010ryv.1_Missense_Mutation_p.R234C|HYOU1_uc001pux.3_Missense_Mutation_p.R345C|HYOU1_uc010ryw.1_RNA|HYOU1_uc001puw.1_Missense_Mutation_p.R345C	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	345						endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)		AATTCCACACGAGTCACTTTT	0.557													41	56	---	---	---	---	PASS	A	118923096	A	A	118923096	3	1	4	1	0	0	0	0	1	0	0	0	7470	1058	37	2	2034	2	HYOU1	11	118923096	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	153583	118923096	16083420	2319	2910										
VPS11	55823	broad.mit.edu	37	chr11	118951947	118951947	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgactgccccacctgcctcCctgaaaaccggaaggtcatg	9	16	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:118951947C>T	uc010ryx.1	+	16	2626	c.2584C>T	c.(2584-2586)CCT>TCT	p.P862S	VPS11_uc010ryy.1_Missense_Mutation_p.P708S	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	862					protein transport	endocytic vesicle|HOPS complex|late endosome membrane|lysosomal membrane	nucleotide binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.88e-05)		CACCTGCCTCCCTGAAAACCG	0.542													25	55	---	---	---	---	PASS	T	118951947	T	T	118951947	3	4	4	1	0	0	0	0	1	0	0	0	17185	623	22	3	2641	3	VPS11	11	118951947	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	28851	118951947	16054569	2320	2911										
HINFP	25988	broad.mit.edu	37	chr11	119003908	119003908	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagcaccagttcaagtggcCctcagggcatccccgttttc	10	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:119003908C>T	uc001pvp.2	+	10	1307	c.1118C>T	c.(1117-1119)CCC>CTC	p.P373L	HINFP_uc001pvq.2_Missense_Mutation_p.P373L|HINFP_uc001pvr.2_Missense_Mutation_p.P126L	NM_015517	NP_056332	Q9BQA5	HINFP_HUMAN	MBD2 (methyl-CpG-binding protein)-interacting	373	Interaction with NPAT.				DNA damage checkpoint|DNA repair|establishment of protein localization|in utero embryonic development|myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	enzyme binding|histone binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						TTCAAGTGGCCCTCAGGGCAT	0.463													24	59	---	---	---	---	PASS	T	119003908	T	T	119003908	3	4	4	1	0	0	0	0	1	0	0	0	7110	623	22	3	1148	3	HINFP	11	119003908	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	51961	119003908	16002608	2321	2912										
ABCG4	64137	broad.mit.edu	37	chr11	119031280	119031280	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgggcccagttaccgccatCcctgtcctcttgttctccgg	10	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:119031280C>T	uc001pvs.2	+	14	1965	c.1629C>T	c.(1627-1629)ATC>ATT	p.I543I	ABCG4_uc009zar.2_Silent_p.I543I	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	543	ABC transmembrane type-2.|Helical; Name=5; (Potential).				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		TTACCGCCATCCCTGTCCTCT	0.567													56	88	---	---	---	---	PASS	T	119031280	T	T	119031280	2	4	4	1	0	0	0	0	0	0	0	1	70	845	30	2		2	ABCG4	11	119031280	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	27372	119031280	15975236	2322	2913										
CCDC153	283152	broad.mit.edu	37	chr11	119063871	119063871	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaacctacctagctgcccCcgaaggcctttgacttcttc	8	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:119063871C>T	uc010rze.1	-	5	427	c.339G>A	c.(337-339)CGG>CGA	p.R113R		NM_001145018	NP_001138490	Q494R4	CC153_HUMAN	coiled-coil domain containing 153	113	Potential.										0						CTAGCTGCCCCCGAAGGCCTT	0.592													8	29	---	---	---	---	PASS	T	119063871	T	T	119063871	2	4	4	1	0	0	0	0	0	0	0	1	2787	610	22	3		3	CCDC153	11	119063871	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	32591	119063871	15942645	2323	2914										
CBL	867	broad.mit.edu	37	chr11	119155697	119155697	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtggaacggccgccttctCcattctccatggccccacaa	9	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:119155697C>T	uc001pwe.2	+	10	1588	c.1450C>T	c.(1450-1452)CCA>TCA	p.P484S		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral	484	Pro-rich.				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		GCCGCCTTCTCCATTCTCCAT	0.512									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome		OREG0021401	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	34	---	---	---	---	PASS	T	119155697	T	T	119155697	3	4	4	1	0	0	0	0	1	0	0	0	2700	855	30	2	1488	2	CBL	11	119155697	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	91826	119155697	15850819	2324	2915										
TRIM29	23650	broad.mit.edu	37	chr11	119996472	119996472	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcttctcaacgtggcgcatGcatacattgagcaggtcgtc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:119996472G>A	uc001pwz.2	-	4	1384	c.1260C>T	c.(1258-1260)TGC>TGT	p.C420C	TRIM29_uc001pwy.2_5'Flank|TRIM29_uc010rzi.1_Silent_p.C159C|TRIM29_uc010rzj.1_Silent_p.C153C|TRIM29_uc001pxa.2_RNA	NM_012101	NP_036233	Q14134	TRI29_HUMAN	tripartite motif protein TRIM29	420					transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(109;0.00117)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)		CGTGGCGCATGCATACATTGA	0.597													8	31	---	---	---	---	PASS	A	119996472	A	A	119996472	2	1	4	1	0	0	0	0	0	0	0	1	16500	1311	46	3		3	TRIM29	11	119996472	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	840775	119996472	15010044	2325	2916	105	2								
TRIM29	23650	broad.mit.edu	37	chr11	119996473	119996473	+	Missense_Mutation	SNP	C	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttctcaacgtggcgcatgCatacattgagcaggtcgtcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:119996473C>A	uc001pwz.2	-	4	1383	c.1259G>T	c.(1258-1260)TGC>TTC	p.C420F	TRIM29_uc001pwy.2_5'Flank|TRIM29_uc010rzi.1_Missense_Mutation_p.C159F|TRIM29_uc010rzj.1_Missense_Mutation_p.C153F|TRIM29_uc001pxa.2_RNA	NM_012101	NP_036233	Q14134	TRI29_HUMAN	tripartite motif protein TRIM29	420					transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(109;0.00117)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)		GTGGCGCATGCATACATTGAG	0.592													8	30	---	---	---	---	PASS	A	119996473	A	A	119996473	3	1	4	1	0	0	0	0	1	0	0	0	16500	710	25	3	531	3	TRIM29	11	119996473	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	119996473	15010043	2326	2917	105	2								
GRIK4	2900	broad.mit.edu	37	chr11	120823587	120823587	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgcaaacccggctatttctcCttcctggacccattttctcc	5	17	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:120823587C>T	uc001pxn.2	+	15	1901	c.1614C>T	c.(1612-1614)TCC>TCT	p.S538S	GRIK4_uc009zav.1_Silent_p.S538S|GRIK4_uc009zaw.1_Silent_p.S538S|GRIK4_uc009zax.1_Silent_p.S538S	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	538	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	GCTATTTCTCCTTCCTGGACC	0.547											OREG0021429	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	47	---	---	---	---	PASS	T	120823587	T	T	120823587	2	4	4	1	0	0	0	0	0	0	0	1	6776	668	24	3		3	GRIK4	11	120823587	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	827114	120823587	14182929	2327	2918										
TBCEL	219899	broad.mit.edu	37	chr11	120916532	120916532	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcagggctctcctatgaaaGgtaagaaagatgggacctaa	11	8	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:120916532G>A	uc009zay.2	+	2	211	c.133G>A	c.(133-135)GAT>AAT	p.D45N	TBCEL_uc001pxo.2_Missense_Mutation_p.D45N|TBCEL_uc001pxp.2_5'UTR|TBCEL_uc001pxq.2_RNA	NM_001130047	NP_001123519	Q5QJ74	TBCEL_HUMAN	tubulin folding cofactor E-like	45						cytoplasm|cytoskeleton				skin(1)	1		Breast(109;0.00526)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.89e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.121)		TCCTATGAAAGGTAAGAAAGA	0.393													10	13	---	---	---	---	PASS	A	120916532	A	A	120916532	3	1	4	1	0	0	0	0	1	0	0	0	15632	1014	35	3	135	3	TBCEL	11	120916532	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	92945	120916532	14089984	2328	2919										
TECTA	7007	broad.mit.edu	37	chr11	120989408	120989408	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caagattctcatccccaaagGaagctatggaagagtcaagg	10	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:120989408G>A	uc010rzo.1	+	6	1184	c.1184G>A	c.(1183-1185)GGA>GAA	p.G395E		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	395	VWFD 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		ATCCCCAAAGGAAGCTATGGA	0.522													12	46	---	---	---	---	PASS	A	120989408	A	A	120989408	3	1	4	1	0	0	0	0	1	0	0	0	15744	1174	41	2	1206	2	TECTA	11	120989408	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	72876	120989408	14017108	2329	2920										
TECTA	7007	broad.mit.edu	37	chr11	121028816	121028816	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagaaactgcccgacatctcCttccagcttatcatcaactt	4	15	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:121028816C>T	uc010rzo.1	+	13	4572	c.4572C>T	c.(4570-4572)TCC>TCT	p.S1524S		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1524	VWFD 4.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CCGACATCTCCTTCCAGCTTA	0.572													18	33	---	---	---	---	PASS	T	121028816	T	T	121028816	2	4	4	1	0	0	0	0	0	0	0	1	15744	668	24	3		3	TECTA	11	121028816	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	39408	121028816	13977700	2330	2921										
TECTA	7007	broad.mit.edu	37	chr11	121032794	121032794	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctgaccagacctcttgccCccagctgcaacgagctgcag	10	16	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:121032794C>T	uc010rzo.1	+	15	4987	c.4987C>T	c.(4987-4989)CCC>TCC	p.P1663S		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1663	VWFD 4.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		ACCTCTTGCCCCCAGCTGCAA	0.507													17	61	---	---	---	---	PASS	T	121032794	T	T	121032794	3	4	4	1	0	0	0	0	1	0	0	0	15744	623	22	3	5045	3	TECTA	11	121032794	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3978	121032794	13973722	2331	2922										
SORL1	6653	broad.mit.edu	37	chr11	121403216	121403216	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacatggggagaccacggcgGaatcatcacggctattgccc	12	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:121403216G>A	uc001pxx.2	+	12	1720	c.1640G>A	c.(1639-1641)GGA>GAA	p.G547E		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	547	Extracellular (Potential).				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		GACCACGGCGGAATCATCACG	0.483													17	24	---	---	---	---	PASS	A	121403216	A	A	121403216	3	1	4	1	0	0	0	0	1	0	0	0	14934	1174	41	2	1686	2	SORL1	11	121403216	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	370422	121403216	13603300	2332	2923										
BLID	414899	broad.mit.edu	37	chr11	121986431	121986431	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agccaagattgtaccttttaAgagaaagcactgtttcctta	7	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:121986431A>G	uc001pyf.2	-	1	493	c.200T>C	c.(199-201)CTT>CCT	p.L67P	LOC399959_uc009zba.2_Intron	NM_001001786	NP_001001786	Q8IZY5	BLID_HUMAN	BRCC2 protein	67					apoptosis	mitochondrion					0		Breast(109;0.0164)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;2.08e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.101)		GTACCTTTTAAGAGAAAGCAC	0.463											OREG0021435	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	45	83	---	---	---	---	PASS	G	121986431	G	G	121986431	3	3	4	1	0	0	0	0	1	0	0	0	1443	72	3	5	130	5	BLID	11	121986431	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	583215	121986431	13020085	2333	2924										
GRAMD1B	57476	broad.mit.edu	37	chr11	123471189	123471189	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatctagcacttcttcacttCgtttggggcccgggatagga	11	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:123471189C>T	uc001pyx.2	+	7	883	c.554C>T	c.(553-555)TCG>TTG	p.S185L	GRAMD1B_uc001pyw.2_Missense_Mutation_p.S192L|GRAMD1B_uc010rzw.1_Missense_Mutation_p.S145L|GRAMD1B_uc010rzx.1_Missense_Mutation_p.S145L|GRAMD1B_uc009zbe.1_Missense_Mutation_p.S181L	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	185						integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		TTCTTCACTTCGTTTGGGGCC	0.408													12	16	---	---	---	---	PASS	T	123471189	T	T	123471189	3	4	4	1	0	0	0	0	1	0	0	0	6748	893	31	2	580	2	GRAMD1B	11	123471189	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1484758	123471189	11535327	2334	2925										
TMEM225	338661	broad.mit.edu	37	chr11	123756054	123756054	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatttatctaaggtgattcCcatcaccattaagactacgg	6	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:123756054C>T	uc001pzi.2	-	1	287	c.79G>A	c.(79-81)GGA>AGA	p.G27R		NM_001013743	NP_001013765	Q6GV28	TM225_HUMAN	transmembrane protein 225	27	Helical; (Potential).					integral to membrane				upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	3						AAGGTGATTCCCATCACCATT	0.423													20	27	---	---	---	---	PASS	T	123756054	T	T	123756054	3	4	4	1	0	0	0	0	1	0	0	0	16144	632	22	3	614	3	TMEM225	11	123756054	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	284865	123756054	11250462	2335	2926										
OR4D5	219875	broad.mit.edu	37	chr11	123810609	123810609	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accctaccatttcctttggtGgatgcctgactcaactcttc	6	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:123810609G>A	uc001pzk.1	+	1	286	c.286G>A	c.(286-288)GGA>AGA	p.G96R		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		TTCCTTTGGTGGATGCCTGAC	0.493													8	44	---	---	---	---	PASS	A	123810609	A	A	123810609	3	1	4	1	0	0	0	0	1	0	0	0	11057	1349	47	3	288	3	OR4D5	11	123810609	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	54555	123810609	11195907	2336	2927										
OR6T1	219874	broad.mit.edu	37	chr11	123814038	123814038	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggtcaataccattggggcCacagaaaggcaggctggcca	14	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:123814038C>T	uc010sab.1	-	1	508	c.508G>A	c.(508-510)GGC>AGC	p.G170S		NM_001005187	NP_001005187	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		CCATTGGGGCCACAGAAAGGC	0.562													25	30	---	---	---	---	PASS	T	123814038	T	T	123814038	3	4	4	1	0	0	0	0	1	0	0	0	11210	594	21	3	466	3	OR6T1	11	123814038	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3429	123814038	11192478	2337	2928										
OR10G8	219869	broad.mit.edu	37	chr11	123900675	123900675	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgagtgtttcctctacaggGtcatgtcctgtgatcgctac	10	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:123900675G>A	uc001pzp.1	+	1	346	c.346G>A	c.(346-348)GTC>ATC	p.V116I		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		CCTCTACAGGGTCATGTCCTG	0.552													41	63	---	---	---	---	PASS	A	123900675	A	A	123900675	3	1	4	1	0	0	0	0	1	0	0	0	10903	1261	44	3	348	3	OR10G8	11	123900675	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	86637	123900675	11105841	2338	2929										
VWA5A	4013	broad.mit.edu	37	chr11	123989018	123989018	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctccaacctgggtcgaaggcGgcagtcaccctgaagtatgt	12	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:123989018G>A	uc001pzu.2	+	5	578	c.369G>A	c.(367-369)GCG>GCA	p.A123A	VWA5A_uc001pzr.2_Silent_p.A123A|VWA5A_uc001pzs.2_Silent_p.A123A|VWA5A_uc010sae.1_Silent_p.A139A|VWA5A_uc001pzt.2_Silent_p.A123A	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	123	VIT.									upper_aerodigestive_tract(1)|ovary(1)	2						GGTCGAAGGCGGCAGTCACCC	0.577													16	53	---	---	---	---	PASS	A	123989018	A	A	123989018	2	1	4	1	0	0	0	0	0	0	0	1	17239	1103	39	1		1	VWA5A	11	123989018	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	88343	123989018	11017498	2339	2930										
OR8B8	26493	broad.mit.edu	37	chr11	124310855	124310855	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatcagggttatcaagcccaGgttccccaccacagtgacca	8	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:124310855G>A	uc010sal.1	-	1	127	c.127C>T	c.(127-129)CTG>TTG	p.L43L		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		ATCAAGCCCAGGTTCCCCACC	0.488													29	40	---	---	---	---	PASS	A	124310855	A	A	124310855	2	1	4	1	0	0	0	0	0	0	0	1	11230	991	35	3		3	OR8B8	11	124310855	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	321837	124310855	10695661	2340	2931										
OR8B12	219858	broad.mit.edu	37	chr11	124413056	124413056	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggttgtcagcacagaaggtCaggttcattatgcttcctgt	11	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:124413056C>T	uc010sam.1	-	1	495	c.495G>A	c.(493-495)CTG>CTA	p.L165L		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		CACAGAAGGTCAGGTTCATTA	0.507													27	48	---	---	---	---	PASS	T	124413056	T	T	124413056	2	4	4	1	0	0	0	0	0	0	0	1	11226	813	29	2		2	OR8B12	11	124413056	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	102201	124413056	10593460	2341	2932										
SIAE	54414	broad.mit.edu	37	chr11	124508525	124508525	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtgagccaagagttctatCttctcaggcagtggtccttc	10	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:124508525C>T	uc001qan.2	-	9	1346	c.1233G>A	c.(1231-1233)AAG>AAA	p.K411K		NM_170601	NP_733746	Q9HAT2	SIAE_HUMAN	sialate O-acetylesterase precursor	411						extracellular region|lysosome	carboxylesterase activity|sialate O-acetylesterase activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0243)		AGAGTTCTATCTTCTCAGGCA	0.473													13	16	---	---	---	---	PASS	T	124508525	T	T	124508525	2	4	4	1	0	0	0	0	0	0	0	1	14298	912	32	2		2	SIAE	11	124508525	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	95469	124508525	10497991	2342	2933										
SIAE	54414	broad.mit.edu	37	chr11	124517323	124517323	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaccacggtggaaggtttCacgccagtcttcgatgagtg	14	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:124517323C>T	uc001qan.2	-	7	1017	c.904G>A	c.(904-906)GAA>AAA	p.E302K		NM_170601	NP_733746	Q9HAT2	SIAE_HUMAN	sialate O-acetylesterase precursor	302						extracellular region|lysosome	carboxylesterase activity|sialate O-acetylesterase activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0243)		TGGAAGGTTTCACGCCAGTCT	0.468													18	33	---	---	---	---	PASS	T	124517323	T	T	124517323	3	4	4	1	0	0	0	0	1	0	0	0	14298	835	29	2	683	2	SIAE	11	124517323	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	8798	124517323	10489193	2343	2934										
SLC37A2	219855	broad.mit.edu	37	chr11	124947395	124947395	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcgtggacaacgccttcctCatcgcctatgccatcggcat	10	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:124947395C>T	uc001qbn.2	+	4	536	c.285C>T	c.(283-285)CTC>CTT	p.L95L	SLC37A2_uc010sau.1_Silent_p.L95L	NM_001145290	NP_001138762	Q8TED4	SPX2_HUMAN	solute carrier family 37 (glycerol-3-phosphate	95	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane				ovary(2)	2	all_hematologic(175;0.215)	Breast(109;0.012)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.152)|all_lung(97;0.159)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0384)		ACGCCTTCCTCATCGCCTATG	0.527													10	21	---	---	---	---	PASS	T	124947395	T	T	124947395	2	4	4	1	0	0	0	0	0	0	0	1	14598	813	29	2		2	SLC37A2	11	124947395	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	430072	124947395	10059121	2344	2935										
PKNOX2	63876	broad.mit.edu	37	chr11	125280123	125280123	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaattcccccaattccatgtCcggagtctccaataaccccc	5	17	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:125280123C>T	uc001qbu.2	+	8	934	c.620C>T	c.(619-621)TCC>TTC	p.S207F	PKNOX2_uc010saz.1_Missense_Mutation_p.S178F|PKNOX2_uc010sba.1_Missense_Mutation_p.S178F|PKNOX2_uc010sbb.1_Missense_Mutation_p.S143F|PKNOX2_uc001qbv.2_5'Flank	NM_022062	NP_071345	Q96KN3	PKNX2_HUMAN	PBX/knotted 1 homeobox 2	207						nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(109;0.00234)|all_lung(97;0.0191)|Lung NSC(97;0.0196)|Medulloblastoma(222;0.0447)|all_neural(223;0.116)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.117)		AATTCCATGTCCGGAGTCTCC	0.567													28	116	---	---	---	---	PASS	T	125280123	T	T	125280123	3	4	4	1	0	0	0	0	1	0	0	0	11983	855	30	2	638	2	PKNOX2	11	125280123	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	332728	125280123	9726393	2345	2936										
STT3A	3703	broad.mit.edu	37	chr11	125472276	125472276	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aactggtttgatgaccgagcCtggtaccctttgggacgaat	12	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:125472276C>T	uc001qcd.2	+	4	338	c.228C>T	c.(226-228)GCC>GCT	p.A76A	STT3A_uc009zbm.2_Silent_p.A76A|STT3A_uc001qce.2_Silent_p.A76A|STT3A_uc010sbg.1_5'UTR	NM_152713	NP_689926	P46977	STT3A_HUMAN	integral membrane protein 1	76	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity				0	all_hematologic(175;0.228)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0996)		ATGACCGAGCCTGGTACCCTT	0.378													8	19	---	---	---	---	PASS	T	125472276	T	T	125472276	2	4	4	1	0	0	0	0	0	0	0	1	15332	668	24	3		3	STT3A	11	125472276	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	192153	125472276	9534240	2346	2937										
CDON	50937	broad.mit.edu	37	chr11	125880416	125880416	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttgataactgtgattttcGggatttcgatctcaggactt	9	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:125880416G>A	uc009zbw.2	-	8	1500	c.1372C>T	c.(1372-1374)CGA>TGA	p.R458*	CDON_uc001qdc.3_Nonsense_Mutation_p.R458*|CDON_uc001qdd.3_RNA	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	458	Ig-like C2-type 5.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		TGTGATTTTCGGGATTTCGAT	0.522													33	46	---	---	---	---	PASS	A	125880416	A	A	125880416	4	1	4	1	0	0	0	0	0	1	0	0	3170	1124	39	1	2474	1	CDON	11	125880416	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	408140	125880416	9126100	2347	2938										
KIRREL3	84623	broad.mit.edu	37	chr11	126333112	126333112	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatggctttgttggtggcacGacacacgatgctctggccat	13	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:126333112G>A	uc001qea.2	-	6	1043	c.682C>T	c.(682-684)CGT>TGT	p.R228C	KIRREL3_uc001qeb.2_Missense_Mutation_p.R228C|KIRREL3_uc001qec.1_Missense_Mutation_p.R228C	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	228	Ig-like C2-type 2.|Extracellular (Potential).				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		TTGGTGGCACGACACACGATG	0.622													7	25	---	---	---	---	PASS	A	126333112	A	A	126333112	3	1	4	1	0	0	0	0	1	0	0	0	8326	1058	37	2	1809	2	KIRREL3	11	126333112	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	452696	126333112	8673404	2348	2939										
KCNJ5	3762	broad.mit.edu	37	chr11	128781486	128781486	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctggctgttcttcggcttCatttggtggctcattgctta	10	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:128781486C>T	uc001qet.2	+	2	632	c.318C>T	c.(316-318)TTC>TTT	p.F106F	KCNJ5_uc009zck.2_Silent_p.F106F|KCNJ5_uc001qew.2_Silent_p.F106F	NM_000890	NP_000881	P48544	IRK5_HUMAN	potassium inwardly-rectifying channel J5	106	Helical; Name=M1; (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1	all_hematologic(175;0.0641)	Lung NSC(97;0.00038)|all_lung(97;0.000817)|Breast(109;0.00123)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0059)|LUSC - Lung squamous cell carcinoma(976;0.021)|Lung(977;0.0215)	Glibenclamide(DB01016)	TCTTCGGCTTCATTTGGTGGC	0.527													16	46	---	---	---	---	PASS	T	128781486	T	T	128781486	2	4	4	1	0	0	0	0	0	0	0	1	8054	825	29	2		2	KCNJ5	11	128781486	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2448374	128781486	6225030	2349	2940										
ARHGAP32	9743	broad.mit.edu	37	chr11	128839068	128839068	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggtacagcacactggggtCcctctccacgttctgggtat	11	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:128839068C>T	uc009zcp.2	-	22	5998	c.5998G>A	c.(5998-6000)GAC>AAC	p.D2000N	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.D959N|ARHGAP32_uc001qez.2_Missense_Mutation_p.D1651N	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	2000	Interaction with FYN.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						ACACTGGGGTCCCTCTCCACG	0.537													28	35	---	---	---	---	PASS	T	128839068	T	T	128839068	3	4	4	1	0	0	0	0	1	0	0	0	881	855	30	2	269	2	ARHGAP32	11	128839068	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	57582	128839068	6167448	2350	2941										
ARHGAP32	9743	broad.mit.edu	37	chr11	128839539	128839539	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcgtgctaccatggcctcCgtgatggtgggctctgtcca	13	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:128839539C>T	uc009zcp.2	-	22	5527	c.5527G>A	c.(5527-5529)GGA>AGA	p.G1843R	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.G802R|ARHGAP32_uc001qez.2_Missense_Mutation_p.G1494R	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1843	Interaction with FYN.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						CCATGGCCTCCGTGATGGTGG	0.612													10	18	---	---	---	---	PASS	T	128839539	T	T	128839539	3	4	4	1	0	0	0	0	1	0	0	0	881	661	23	1	740	1	ARHGAP32	11	128839539	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	471	128839539	6166977	2351	2942										
BARX2	8538	broad.mit.edu	37	chr11	129321220	129321220	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaccgaaagcacgtgatgtcCccttagagatggcagagcca	11	11	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:129321220C>T	uc001qfc.3	+	4	813	c.763C>T	c.(763-765)CCC>TCC	p.P255S		NM_003658	NP_003649	Q9UMQ3	BARX2_HUMAN	BarH-like homeobox 2	255											0	all_hematologic(175;0.0749)	Lung NSC(97;0.000383)|all_lung(97;0.000824)|Breast(109;0.000962)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.00929)|Lung(977;0.0245)|LUSC - Lung squamous cell carcinoma(976;0.0253)		ACGTGATGTCCCCTTAGAGAT	0.567													14	36	---	---	---	---	PASS	T	129321220	T	T	129321220	3	4	4	1	0	0	0	0	1	0	0	0	1316	623	22	3	777	3	BARX2	11	129321220	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	481681	129321220	5685296	2352	2943										
PRDM10	56980	broad.mit.edu	37	chr11	129812365	129812365	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attttttatggttgtataatAcacatggtggccatactggt	9	5	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:129812365A>G	uc001qfm.2	-	7	1154	c.922T>C	c.(922-924)TAT>CAT	p.Y308H	PRDM10_uc001qfj.2_Missense_Mutation_p.Y222H|PRDM10_uc001qfk.2_Missense_Mutation_p.Y222H|PRDM10_uc001qfl.2_Missense_Mutation_p.Y222H|PRDM10_uc010sbx.1_Missense_Mutation_p.Y222H|PRDM10_uc001qfn.2_Missense_Mutation_p.Y308H|PRDM10_uc009zct.1_Missense_Mutation_p.Y340H	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	308	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		GTTGTATAATACACATGGTGG	0.488													13	41	---	---	---	---	PASS	G	129812365	G	G	129812365	3	3	4	1	0	0	0	0	1	0	0	0	12451	391	14	5	2624	5	PRDM10	11	129812365	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	491145	129812365	5194151	2353	2944										
IGSF9B	22997	broad.mit.edu	37	chr11	133795713	133795713	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcccagcgctctgcgacaCggaactccatgatgtagcgg	11	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:133795713C>A	uc001qgx.3	-	14	2186	c.1955G>T	c.(1954-1956)CGT>CTT	p.R652L	IGSF9B_uc001qgy.1_Missense_Mutation_p.R494L	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	652	Fibronectin type-III 2.|Extracellular (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		CTCTGCGACACGGAACTCCAT	0.587													7	18	---	---	---	---	PASS	A	133795713	A	A	133795713	3	1	4	1	0	0	0	0	1	0	0	0	7606	536	19	1	2118	1	IGSF9B	11	133795713	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3983348	133795713	1210803	2354	2945										
GLB1L3	112937	broad.mit.edu	37	chr11	134158771	134158771	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taaggataaaacatacatgcCgtatctccacaaggtaagag	8	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:134158771C>A	uc009zdf.2	+	7	1076	c.716C>A	c.(715-717)CCG>CAG	p.P239Q	GLB1L3_uc010scs.1_Missense_Mutation_p.P239Q|GLB1L3_uc010sct.1_Missense_Mutation_p.P91Q	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3	239					carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		ACATACATGCCGTATCTCCAC	0.512													3	23	---	---	---	---	PASS	A	134158771	A	A	134158771	3	1	4	1	0	0	0	0	1	0	0	0	6430	652	23	1	742	1	GLB1L3	11	134158771	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	363058	134158771	847745	2355	2946										
GLB1L2	89944	broad.mit.edu	37	chr11	134240229	134240229	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaccttcttcccaagatgcCgtatgagcccttaacgccag	8	14	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr11:134240229C>A	uc001qhp.2	+	12	1339	c.1151C>A	c.(1150-1152)CCG>CAG	p.P384Q	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	384					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds	p.P384S(1)		ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		CCCAAGATGCCGTATGAGCCC	0.592													5	124	---	---	---	---	PASS	A	134240229	A	A	134240229	3	1	4	1	0	0	0	0	1	0	0	0	6429	652	23	1	1197	1	GLB1L2	11	134240229	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	81458	134240229	766287	2356	2947										
KDM5A	5927	broad.mit.edu	37	chr12	475235	475235	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttagaccatttcttctctttGgtgaccatttcaaaacctcc	4	12	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:475235G>T	uc001qif.1	-	4	765	c.402C>A	c.(400-402)ACC>ACA	p.T134T	KDM5A_uc001qie.1_Silent_p.T134T|KDM5A_uc010sdn.1_Silent_p.T93T|KDM5A_uc010sdo.1_Intron	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	134	ARID.				chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						TCTTCTCTTTGGTGACCATTT	0.388			T 	NUP98	AML								7	249	---	---	---	---	PASS	T	475235	T	T	475235	2	4	4	1	0	0	0	0	0	0	0	1	8133	1335	47	3		3	KDM5A	12	475235	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08		475235	133376660	2357	2948										
WNT5B	81029	broad.mit.edu	37	chr12	1749040	1749040	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacggctaccgcttcgccaaGgagtttgtggatgcccggga	14	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:1749040G>A	uc009zdq.2	+	4	761	c.519G>A	c.(517-519)AAG>AAA	p.K173K	WNT5B_uc001qjj.2_Silent_p.K173K|WNT5B_uc001qjk.2_Silent_p.K173K|WNT5B_uc001qjl.2_Silent_p.K173K	NM_032642	NP_116031	Q9H1J7	WNT5B_HUMAN	wingless-type MMTV integration site family,	173					angiogenesis|anterior/posterior pattern formation|cell migration involved in gastrulation|cellular response to retinoic acid|chondrocyte differentiation|convergent extension involved in axis elongation|convergent extension involved in gastrulation|dorsal/ventral axis specification|endocrine pancreas development|fat cell differentiation|lens fiber cell development|negative regulation of canonical Wnt receptor signaling pathway|neuron differentiation|positive regulation of cell migration|positive regulation of fat cell differentiation|respiratory system development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding			skin(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00109)			GCTTCGCCAAGGAGTTTGTGG	0.657													3	9	---	---	---	---	PASS	A	1749040	A	A	1749040	2	1	4	1	0	0	0	0	0	0	0	1	17389	991	35	3		3	WNT5B	12	1749040	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1273805	1749040	132102855	2358	2949										
ADIPOR2	79602	broad.mit.edu	37	chr12	1889730	1889730	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatttttcttaggagccattCtctgcctttctttttcatgg	6	9	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:1889730C>T	uc001qjm.2	+	5	774	c.577C>T	c.(577-579)CTC>TTC	p.L193F	ADIPOR2_uc001qjn.2_Missense_Mutation_p.L193F	NM_024551	NP_078827	Q86V24	ADR2_HUMAN	adiponectin receptor 2	193	Helical; Name=2; (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane	hormone binding|receptor activity				0	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000382)			AGGAGCCATTCTCTGCCTTTC	0.458													30	68	---	---	---	---	PASS	T	1889730	T	T	1889730	3	4	4	1	0	0	0	0	1	0	0	0	319	913	32	2	591	2	ADIPOR2	12	1889730	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	140690	1889730	131962165	2359	2950										
CACNA2D4	93589	broad.mit.edu	37	chr12	2022270	2022270	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctccaagccatccacctcCtcgatcttcagactggactc	6	17	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:2022270C>T	uc001qjp.2	-	3	576	c.345G>A	c.(343-345)GAG>GAA	p.E115E	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Silent_p.E115E	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	115	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		CATCCACCTCCTCGATCTTCA	0.532													13	21	---	---	---	---	PASS	T	2022270	T	T	2022270	2	4	4	1	0	0	0	0	0	0	0	1	2551	680	24	3		3	CACNA2D4	12	2022270	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	132540	2022270	131829625	2360	2951										
DCP1B	196513	broad.mit.edu	37	chr12	2062288	2062288	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggttcctcataggacaggGagcgtacaaccccctgccta	11	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:2062288G>A	uc001qjx.1	-	7	898	c.818C>T	c.(817-819)TCC>TTC	p.S273F	DCP1B_uc010sdy.1_Missense_Mutation_p.S171F	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	273					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			ATAGGACAGGGAGCGTACAAC	0.478													10	19	---	---	---	---	PASS	A	2062288	A	A	2062288	3	1	4	1	0	0	0	0	1	0	0	0	4299	1174	41	2	1047	2	DCP1B	12	2062288	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	40018	2062288	131789607	2361	2952										
CACNA1C	775	broad.mit.edu	37	chr12	2602441	2602441	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacggcacggtgtgcaagccCggctgggatggtcccaagca	15	12	0	0	rs112002520		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:2602441C>A	uc009zdu.1	+	7	1315	c.1002C>A	c.(1000-1002)CCC>CCA	p.P334P	CACNA1C_uc009zdv.1_Silent_p.P331P|CACNA1C_uc001qkb.2_Silent_p.P334P|CACNA1C_uc001qkc.2_Silent_p.P334P|CACNA1C_uc001qke.2_Silent_p.P334P|CACNA1C_uc001qkf.2_Silent_p.P334P|CACNA1C_uc001qjz.2_Silent_p.P334P|CACNA1C_uc001qkd.2_Silent_p.P334P|CACNA1C_uc001qkg.2_Silent_p.P334P|CACNA1C_uc009zdw.1_Silent_p.P334P|CACNA1C_uc001qkh.2_Silent_p.P334P|CACNA1C_uc001qkl.2_Silent_p.P334P|CACNA1C_uc001qkn.2_Silent_p.P334P|CACNA1C_uc001qko.2_Silent_p.P334P|CACNA1C_uc001qkp.2_Silent_p.P334P|CACNA1C_uc001qkr.2_Silent_p.P334P|CACNA1C_uc001qku.2_Silent_p.P334P|CACNA1C_uc001qkq.2_Silent_p.P334P|CACNA1C_uc001qks.2_Silent_p.P334P|CACNA1C_uc001qkt.2_Silent_p.P334P|CACNA1C_uc001qka.1_5'UTR|CACNA1C_uc001qki.1_Silent_p.P70P|CACNA1C_uc001qkj.1_Silent_p.P70P|CACNA1C_uc001qkk.1_Silent_p.P70P|CACNA1C_uc001qkm.1_Silent_p.P70P	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	334	I.|Extracellular (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	TGTGCAAGCCCGGCTGGGATG	0.602													5	110	---	---	---	---	PASS	A	2602441	A	A	2602441	2	1	4	1	0	0	0	0	0	0	0	1	2540	639	23	1		1	CACNA1C	12	2602441	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	540153	2602441	131249454	2362	2953										
KCNA1	3736	broad.mit.edu	37	chr12	5021808	5021808	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accaccgagaaactgaggggGaagagcaggctcagttgctc	14	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:5021808G>A	uc001qnh.2	+	2	2369	c.1264G>A	c.(1264-1266)GAA>AAA	p.E422K		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	422					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AACTGAGGGGGAAGAGCAGGC	0.522													80	205	---	---	---	---	PASS	A	5021808	A	A	5021808	3	1	4	1	0	0	0	0	1	0	0	0	8001	1175	41	2	1266	2	KCNA1	12	5021808	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2419367	5021808	128830087	2363	2954										
KCNA5	3741	broad.mit.edu	37	chr12	5153901	5153901	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacgtctccctggacgtgttCgcggacgagatacgcttcta	11	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:5153901C>T	uc001qni.2	+	1	817	c.588C>T	c.(586-588)TTC>TTT	p.F196F		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	196						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						TGGACGTGTTCGCGGACGAGA	0.632													14	32	---	---	---	---	PASS	T	5153901	T	T	5153901	2	4	4	1	0	0	0	0	0	0	0	1	8006	883	31	2		2	KCNA5	12	5153901	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	132093	5153901	128697994	2364	2955										
NTF3	4908	broad.mit.edu	37	chr12	5603968	5603968	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttatgaaacgcgatgtaaGgaagccaggccggtcaaaaa	11	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:5603968G>A	uc001qnl.3	+	1	671	c.588G>A	c.(586-588)AAG>AAA	p.K196K	NTF3_uc001qnk.3_Silent_p.K209K	NM_002527	NP_002518	P20783	NTF3_HUMAN	neurotrophin 3 isoform 2 preproprotein	196					signal transduction	extracellular region	growth factor activity|neurotrophin receptor binding			pancreas(1)	1						CGCGATGTAAGGAAGCCAGGC	0.507													19	34	---	---	---	---	PASS	A	5603968	A	A	5603968	2	1	4	1	0	0	0	0	0	0	0	1	10696	991	35	3		3	NTF3	12	5603968	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	450067	5603968	128247927	2365	2956										
ANO2	57101	broad.mit.edu	37	chr12	5687656	5687656	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccaggggaaaggaggccacGaagagggtgacaaaaccaaa	15	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:5687656G>A	uc001qnm.2	-	22	2334	c.2262C>T	c.(2260-2262)TTC>TTT	p.F754F		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	759	Helical; (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						AGGAGGCCACGAAGAGGGTGA	0.552													10	14	---	---	---	---	PASS	A	5687656	A	A	5687656	2	1	4	1	0	0	0	0	0	0	0	1	697	1049	37	2		2	ANO2	12	5687656	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	83688	5687656	128164239	2366	2957										
ANO2	57101	broad.mit.edu	37	chr12	5936980	5936980	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctgtgcgcttcaggatctCgtgcacctaaaaggggacga	14	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:5936980C>T	uc001qnm.2	-	7	907	c.835G>A	c.(835-837)GAG>AAG	p.E279K		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	284	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						TTCAGGATCTCGTGCACCTAA	0.687													3	7	---	---	---	---	PASS	T	5936980	T	T	5936980	3	4	4	1	0	0	0	0	1	0	0	0	697	893	31	2	2241	2	ANO2	12	5936980	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	249324	5936980	127914915	2367	2958										
VWF	7450	broad.mit.edu	37	chr12	6094223	6094223	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acacataccacactcatactCggggcagcactggtctgcat	8	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:6094223C>T	uc001qnn.1	-	40	7214	c.6964G>A	c.(6964-6966)GAG>AAG	p.E2322K	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2322	VWFC 1.				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)	CACTCATACTCGGGGCAGCAC	0.587													16	44	---	---	---	---	PASS	T	6094223	T	T	6094223	3	4	4	1	0	0	0	0	1	0	0	0	17243	893	31	2	1529	2	VWF	12	6094223	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	157243	6094223	127757672	2368	2959										
VWF	7450	broad.mit.edu	37	chr12	6101092	6101092	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagaaacagccttcggaggGatggtccccacaggagctca	13	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:6101092G>A	uc001qnn.1	-	38	6941	c.6691C>T	c.(6691-6693)CCC>TCC	p.P2231S	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2231	E2.				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)	CCTTCGGAGGGATGGTCCCCA	0.562													20	20	---	---	---	---	PASS	A	6101092	A	A	6101092	3	1	4	1	0	0	0	0	1	0	0	0	17243	1174	41	2	1810	2	VWF	12	6101092	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6869	6101092	127750803	2369	2960										
VWF	7450	broad.mit.edu	37	chr12	6125939	6125939	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctatattggcttttgaaatGaaagccttggcgaaactctt	8	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:6125939G>A	uc001qnn.1	-	29	5401	c.5151C>T	c.(5149-5151)TTC>TTT	p.F1717F	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1717	VWFA 3; main binding site for collagens type I and III.				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)	CTTTTGAAATGAAAGCCTTGG	0.483													24	75	---	---	---	---	PASS	A	6125939	A	A	6125939	2	1	4	1	0	0	0	0	0	0	0	1	17243	1281	45	2		2	VWF	12	6125939	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	24847	6125939	127725956	2370	2961										
SCNN1A	6337	broad.mit.edu	37	chr12	6483928	6483928	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggagggctagagtcctgctCctccagcttgttcccctcca	10	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:6483928C>T	uc001qnx.2	-	2	311	c.22G>A	c.(22-24)GAG>AAG	p.E8K	SCNN1A_uc001qnw.2_Missense_Mutation_p.E67K|SCNN1A_uc010sfb.1_Missense_Mutation_p.E31K|LTBR_uc010sfc.1_5'Flank	NM_001038	NP_001029	P37088	SCNNA_HUMAN	sodium channel, nonvoltage-gated 1 alpha isoform	8	Cytoplasmic (By similarity).				excretion|response to stimulus|sensory perception of taste	apical plasma membrane	WW domain binding				0					Amiloride(DB00594)|Triamterene(DB00384)	GAGTCCTGCTCCTCCAGCTTG	0.642													14	30	---	---	---	---	PASS	T	6483928	T	T	6483928	3	4	4	1	0	0	0	0	1	0	0	0	13927	864	30	2	2035	2	SCNN1A	12	6483928	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	357989	6483928	127367967	2371	2962										
IFFO1	25900	broad.mit.edu	37	chr12	6650684	6650684	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggaggcgcctaccggtctCcagactgggtgatgagccgg	18	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:6650684C>T	uc001qpd.1	-	8	1602	c.1568G>A	c.(1567-1569)GGA>GAA	p.G523E	IFFO1_uc001qoy.2_RNA|IFFO1_uc001qpa.1_Missense_Mutation_p.G163E|IFFO1_uc001qpb.1_Missense_Mutation_p.G200E|IFFO1_uc001qpe.1_RNA|IFFO1_uc010sfe.1_Missense_Mutation_p.G535E|IFFO1_uc001qpf.1_Missense_Mutation_p.G526E|IFFO1_uc001qoz.1_Missense_Mutation_p.G164E|IFFO1_uc001qpc.1_Missense_Mutation_p.G527E|IFFO1_uc001qpg.2_Missense_Mutation_p.G164E	NM_080730	NP_542768	Q0D2I5	IFFO1_HUMAN	intermediate filament family orphan isoform 2	523						intermediate filament					0						CTACCGGTCTCCAGACTGGGT	0.642													8	26	---	---	---	---	PASS	T	6650684	T	T	6650684	3	4	4	1	0	0	0	0	1	0	0	0	7510	855	30	2	119	2	IFFO1	12	6650684	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	166756	6650684	127201211	2372	2963										
USP5	8078	broad.mit.edu	37	chr12	6969353	6969353	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttctctccggggagtattCcaagccagtaccggagtcgg	12	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:6969353C>T	uc001qri.3	+	10	1228	c.1169C>T	c.(1168-1170)TCC>TTC	p.S390F	USP5_uc001qrh.3_Missense_Mutation_p.S390F	NM_001098536	NP_001092006	P45974	UBP5_HUMAN	ubiquitin specific peptidase 5 isoform 1	390					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process	lysosome	cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			lung(2)|breast(1)|skin(1)	4						GGGGAGTATTCCAAGCCAGTA	0.572													7	19	---	---	---	---	PASS	T	6969353	T	T	6969353	3	4	4	1	0	0	0	0	1	0	0	0	17078	855	30	2	1207	2	USP5	12	6969353	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	318669	6969353	126882542	2373	2964										
ATN1	1822	broad.mit.edu	37	chr12	7048042	7048042	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgggcttggatccctttccCcgacatgggggcctggctct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:7048042C>T	uc001qrw.1	+	7	3153	c.2916C>T	c.(2914-2916)CCC>CCT	p.P972P	ATN1_uc001qrx.1_Silent_p.P972P	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	972					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						ATCCCTTTCCCCGACATGGGG	0.657													22	15	---	---	---	---	PASS	T	7048042	T	T	7048042	2	4	4	1	0	0	0	0	0	0	0	1	1111	610	22	3		3	ATN1	12	7048042	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	78689	7048042	126803853	2374	2965	106	2								
ATN1	1822	broad.mit.edu	37	chr12	7048043	7048043	+	Nonsense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgggcttggatccctttcccCgacatgggggcctggctctg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:7048043C>T	uc001qrw.1	+	7	3154	c.2917C>T	c.(2917-2919)CGA>TGA	p.R973*	ATN1_uc001qrx.1_Nonsense_Mutation_p.R973*	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	973					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						TCCCTTTCCCCGACATGGGGG	0.662													25	15	---	---	---	---	PASS	T	7048043	T	T	7048043	4	4	4	1	0	0	0	0	0	1	0	0	1111	644	23	1	2939	1	ATN1	12	7048043	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	7048043	126803852	2375	2966	106	2								
C1S	716	broad.mit.edu	37	chr12	7171671	7171671	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgccccccggaatatttcctCcatgatgacatgaagaattg	8	11	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:7171671C>T	uc001qsj.2	+	8	1211	c.492C>T	c.(490-492)CTC>CTT	p.L164L	C1S_uc001qsk.2_Silent_p.L164L|C1S_uc001qsl.2_Silent_p.L164L|C1S_uc009zfr.2_5'UTR|C1S_uc009zfs.2_RNA	NM_201442	NP_958850	P09871	C1S_HUMAN	complement component 1, s subcomponent	164	EGF-like; calcium-binding.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity			skin(1)	1					Abciximab(DB00054)|Adalimumab(DB00051)|Basiliximab(DB00074)|Cetuximab(DB00002)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Rituximab(DB00073)|Trastuzumab(DB00072)	AATATTTCCTCCATGATGACA	0.468													15	47	---	---	---	---	PASS	T	7171671	T	T	7171671	2	4	4	1	0	0	0	0	0	0	0	1	1974	842	30	2		2	C1S	12	7171671	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	123628	7171671	126680224	2376	2967										
RBP5	83758	broad.mit.edu	37	chr12	7281010	7281010	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcttccgcacagccaagctGatgtctgtgggggctgcctg	13	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:7281010G>A	uc001qsq.2	-	2	173	c.78C>T	c.(76-78)ATC>ATT	p.I26I	CLSTN3_uc001qsr.2_5'Flank	NM_031491	NP_113679	P82980	RET5_HUMAN	retinol binding protein 5, cellular	26						cytoplasm	retinal binding|retinol binding|transporter activity			ovary(1)	1					Vitamin A(DB00162)	CAGCCAAGCTGATGTCTGTGG	0.612													5	21	---	---	---	---	PASS	A	7281010	A	A	7281010	2	1	4	1	0	0	0	0	0	0	0	1	13159	1280	45	2		2	RBP5	12	7281010	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	109339	7281010	126570885	2377	2968										
ACSM4	341392	broad.mit.edu	37	chr12	7475830	7475830	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagcttgtcctctcaatagGgaatgatttgtgccaatcag	9	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:7475830G>A	uc001qsx.1	+	8	1126	c.1126G>A	c.(1126-1128)GGA>AGA	p.G376R		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	376					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						CTCTCAATAGGGAATGATTTG	0.353													11	17	---	---	---	---	PASS	A	7475830	A	A	7475830	3	1	4	1	0	0	0	0	1	0	0	0	186	1246	43	3	1156	3	ACSM4	12	7475830	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	194820	7475830	126376065	2378	2969										
CD163L1	283316	broad.mit.edu	37	chr12	7559321	7559321	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcccaactgcttgcatacGacatcagctgcagcattgtt	7	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:7559321G>A	uc001qsy.2	-	5	920	c.894C>T	c.(892-894)GTC>GTT	p.V298V	CD163L1_uc010sge.1_Silent_p.V308V	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	298	SRCR 3.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						GCTTGCATACGACATCAGCTG	0.517													34	55	---	---	---	---	PASS	A	7559321	A	A	7559321	2	1	4	1	0	0	0	0	0	0	0	1	2968	1045	37	2		2	CD163L1	12	7559321	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	83491	7559321	126292574	2379	2970										
DPPA3	359787	broad.mit.edu	37	chr12	7868817	7868817	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaagaagaccaacaaacaaGgagcctaagggagttaaggt	12	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:7868817G>A	uc001qtf.2	+	3	429	c.351G>A	c.(349-351)AAG>AAA	p.K117K		NM_199286	NP_954980	Q6W0C5	DPPA3_HUMAN	stella	117						cytoplasm|nucleus					0				Kidney(36;0.0887)		CAACAAACAAGGAGCCTAAGG	0.274													12	15	---	---	---	---	PASS	A	7868817	A	A	7868817	2	1	4	1	0	0	0	0	0	0	0	1	4735	991	35	3		3	DPPA3	12	7868817	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	309496	7868817	125983078	2380	2971										
SLC2A14	144195	broad.mit.edu	37	chr12	7984256	7984256	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagccgatcatacccccgacGgaaaatatggccacagacaa	9	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:7984256G>A	uc001qtk.2	-	9	1078	c.285C>T	c.(283-285)TCC>TCT	p.S95S	SLC2A14_uc001qtl.2_Silent_p.S72S|SLC2A14_uc001qtm.2_Silent_p.S72S|SLC2A14_uc010sgg.1_Intron|SLC2A14_uc001qtn.2_Silent_p.S95S|SLC2A14_uc001qto.2_Intron|SLC2A14_uc010sgh.1_Silent_p.S110S	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14	95	Helical; Name=2; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		TACCCCCGACGGAAAATATGG	0.493											OREG0021654	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	45	---	---	---	---	PASS	A	7984256	A	A	7984256	2	1	4	1	0	0	0	0	0	0	0	1	14543	1103	39	1		1	SLC2A14	12	7984256	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	115439	7984256	125867639	2381	2972										
SLC2A3	6515	broad.mit.edu	37	chr12	8074150	8074150	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcctgccacgggtctcaggGactttgaagaaggtaaaagc	13	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:8074150G>A	uc001qtr.2	-	10	1612	c.1350C>T	c.(1348-1350)GTC>GTT	p.V450V		NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	450	Cytoplasmic (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		GGGTCTCAGGGACTTTGAAGA	0.478													13	64	---	---	---	---	PASS	A	8074150	A	A	8074150	2	1	4	1	0	0	0	0	0	0	0	1	14545	1161	41	2		2	SLC2A3	12	8074150	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	89894	8074150	125777745	2382	2973										
CLEC4D	338339	broad.mit.edu	37	chr12	8673754	8673754	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaacccgacaactctcagGgagaaaactgtgttgttctt	9	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:8673754G>A	uc001qun.2	+	6	728	c.535G>A	c.(535-537)GGA>AGA	p.G179R		NM_080387	NP_525126	Q8WXI8	CLC4D_HUMAN	C-type lectin domain family 4, member D	179	C-type lectin.|Extracellular (Potential).				innate immune response	integral to membrane	sugar binding				0	Lung SC(5;0.184)					CAACTCTCAGGGAGAAAACTG	0.353													25	20	---	---	---	---	PASS	A	8673754	A	A	8673754	3	1	4	1	0	0	0	0	1	0	0	0	3514	1233	43	3	557	3	CLEC4D	12	8673754	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	599604	8673754	125178141	2383	2974										
PZP	5858	broad.mit.edu	37	chr12	9304839	9304839	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttactgttggtttcagggGaataaaaccagataccatct	8	7	2	1	rs147424033		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:9304839G>A	uc001qvl.2	-	32	4218	c.4189C>T	c.(4189-4191)CCC>TCC	p.P1397S	PZP_uc009zgl.2_Missense_Mutation_p.P1183S	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						GGTTTCAGGGGAATAAAACCA	0.353													14	46	---	---	---	---	PASS	A	9304839	A	A	9304839	3	1	4	1	0	0	0	0	1	0	0	0	12869	1174	41	2	279	2	PZP	12	9304839	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	631085	9304839	124547056	2384	2975										
CLEC9A	283420	broad.mit.edu	37	chr12	10218158	10218158	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggatacgtgaaaagcaattCccttctttcgtctaactgca	7	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:10218158C>T	uc001qxa.2	+	9	1266	c.653C>T	c.(652-654)TCC>TTC	p.S218F		NM_207345	NP_997228	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	218	Extracellular (Potential).|C-type lectin.				positive regulation of cytokine secretion|receptor-mediated endocytosis	cell surface|integral to membrane	receptor activity|sugar binding			ovary(1)	1						AAAAGCAATTCCCTTCTTTCG	0.428													26	36	---	---	---	---	PASS	T	10218158	T	T	10218158	3	4	4	1	0	0	0	0	1	0	0	0	3522	855	30	2	675	2	CLEC9A	12	10218158	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	913319	10218158	123633737	2385	2976										
KLRD1	3824	broad.mit.edu	37	chr12	10462062	10462062	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcgttgatgtctacgttggGaattttgttgaaaaattgta	10	3	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:10462062G>A	uc001qxw.3	+	3	280	c.83G>A	c.(82-84)GGA>GAA	p.G28E	KLRD1_uc001qxx.3_Missense_Mutation_p.G28E|KLRD1_uc001qxy.3_Intron|KLRD1_uc009zhh.2_Missense_Mutation_p.G28E|KLRD1_uc009zhi.2_Missense_Mutation_p.G28E|KLRD1_uc001qxz.3_Missense_Mutation_p.G28E	NM_001114396	NP_001107868	Q13241	KLRD1_HUMAN	killer cell lectin-like receptor subfamily D,	28	Helical; Signal-anchor for type II membrane protein; (Potential).				cell surface receptor linked signaling pathway|regulation of immune response	integral to membrane|plasma membrane	sugar binding|transmembrane receptor activity				0						TCTACGTTGGGAATTTTGTTG	0.348													14	27	---	---	---	---	PASS	A	10462062	A	A	10462062	3	1	4	1	0	0	0	0	1	0	0	0	8419	1174	41	2	89	2	KLRD1	12	10462062	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	243904	10462062	123389833	2386	2977										
CSDA	8531	broad.mit.edu	37	chr12	10862602	10862602	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgctgccggtactgagggcGatactgggggcggcgcagct	18	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:10862602G>A	uc001qyt.2	-	6	928	c.685C>T	c.(685-687)CGC>TGC	p.R229C	CSDA_uc001qyu.2_Intron	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	229					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					TACTGAGGGCGATACTGGGGG	0.622													4	10	---	---	---	---	PASS	A	10862602	A	A	10862602	3	1	4	1	0	0	0	0	1	0	0	0	3927	1058	37	2	449	2	CSDA	12	10862602	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	400540	10862602	122989293	2387	2978										
TAS2R8	50836	broad.mit.edu	37	chr12	10959202	10959202	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atccagtgcaccaccatatcAattttccacttcagccagag	5	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:10959202A>G	uc010shh.1	-	1	378	c.378T>C	c.(376-378)ATT>ATC	p.I126I		NM_023918	NP_076407	Q9NYW2	TA2R8_HUMAN	taste receptor, type 2, member 8	126	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			ovary(2)	2						CCACCATATCAATTTTCCACT	0.413													12	39	---	---	---	---	PASS	G	10959202	G	G	10959202	2	3	4	1	0	0	0	0	0	0	0	1	15584	126	5	5		5	TAS2R8	12	10959202	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	96600	10959202	122892693	2388	2979										
PRB3	5544	broad.mit.edu	37	chr12	11421019	11421019	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggtcgtccttctggctttCctggaggaggtggggtacgt	18	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:11421019C>T	uc001qzs.2	-	3	202	c.164G>A	c.(163-165)GGA>GAA	p.G55E	PRB4_uc001qzf.1_Intron	NM_006249	NP_006240	Q04118	PRB3_HUMAN	proline-rich protein BstNI subfamily 3	55	1.|10 X 21 AA tandem repeats of [RH]-P-G-K- P-[EQ]-G-[PQS]-P-[PS]-Q-[GE]-G-N-[QK]- [SP]-[QR]-[GR]-P-P-P.|Pro-rich.					extracellular region	Gram-negative bacterial cell surface binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.201)			TTCTGGCTTTCCTGGAGGAGG	0.597													48	113	---	---	---	---	PASS	T	11421019	T	T	11421019	3	4	4	1	0	0	0	0	1	0	0	0	12444	855	30	2	773	2	PRB3	12	11421019	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	461817	11421019	122430876	2389	2980										
PRB4	5545	broad.mit.edu	37	chr12	11461601	11461601	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accttgggactggtttcctcCttgtgggggtggtctttctg	14	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:11461601C>T	uc001qzf.1	-	3	350	c.316G>A	c.(316-318)GGA>AGA	p.G106R	PRB4_uc001qzt.2_Missense_Mutation_p.G106R	NM_002723	NP_002714	P10163	PRB4_HUMAN	proline-rich protein BstNI subfamily 4	148	9.5 X 21 AA tandem repeats of K-P-[EQ]- [GR]-[PR]-[PR]-P-Q-G-G-N-Q-[PS]-[QH]- [RG]-[PT]-P-P-[PH]-P-G.|6.		Missing (in allele M and allele S).			extracellular region				ovary(1)	1						TGGTTTCCTCCTTGTGGGGGT	0.617										HNSCC(22;0.051)			30	189	---	---	---	---	PASS	T	11461601	T	T	11461601	3	4	4	1	0	0	0	0	1	0	0	0	12445	690	24	3	431	3	PRB4	12	11461601	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	40582	11461601	122390294	2390	2981										
PRB1	5542	broad.mit.edu	37	chr12	11506298	11506298	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accttgaggtttgttgcctcCttgtgggggtggtccttgtg	15	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:11506298C>T	uc001qzw.1	-	4	776	c.739G>A	c.(739-741)GGA>AGA	p.G247R	PRB1_uc001qzu.1_Missense_Mutation_p.G114R|PRB1_uc001qzv.1_Intron	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	308	13.|15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].		Missing (in clone CP-5).			extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			TTGTTGCCTCCTTGTGGGGGT	0.607													27	140	---	---	---	---	PASS	T	11506298	T	T	11506298	3	4	4	1	0	0	0	0	1	0	0	0	12442	690	24	3	260	3	PRB1	12	11506298	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	44697	11506298	122345597	2391	2982										
PRB1	5542	broad.mit.edu	37	chr12	11506313	11506313	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctccttgtgggggtggtcCttgtggctttcctggaggag	17	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:11506313C>T	uc001qzw.1	-	4	761	c.724G>A	c.(724-726)GGA>AGA	p.G242R	PRB1_uc001qzu.1_Missense_Mutation_p.G109R|PRB1_uc001qzv.1_Intron	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	303	13.|15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].		Missing (in clone CP-5).			extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGGGGTGGTCCTTGTGGCTTT	0.617													32	74	---	---	---	---	PASS	T	11506313	T	T	11506313	3	4	4	1	0	0	0	0	1	0	0	0	12442	690	24	3	275	3	PRB1	12	11506313	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	15	11506313	122345582	2392	2983										
MANSC1	54682	broad.mit.edu	37	chr12	12483867	12483867	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggggtaactcttggcttggCaaatttctggtcaaagatgg	13	6	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:12483867C>A	uc001rai.1	-	4	648	c.390G>T	c.(388-390)TTG>TTT	p.L130F	MANSC1_uc010shm.1_Missense_Mutation_p.L64F|MANSC1_uc001raj.1_Missense_Mutation_p.L96F|MANSC1_uc009zht.1_Missense_Mutation_p.L49F	NM_018050	NP_060520	Q9H8J5	MANS1_HUMAN	MANSC domain containing 1 precursor	130	Extracellular (Potential).					integral to membrane					0		Prostate(47;0.0865)		BRCA - Breast invasive adenocarcinoma(232;0.185)		CTTGGCTTGGCAAATTTCTGG	0.388													21	44	---	---	---	---	PASS	A	12483867	A	A	12483867	3	1	4	1	0	0	0	0	1	0	0	0	9224	709	25	3	909	3	MANSC1	12	12483867	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	977554	12483867	121368028	2393	2984										
GRIN2B	2904	broad.mit.edu	37	chr12	13720178	13720178	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgccagtgagccagagagcTtccagttcttccatctcccc	8	15	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:13720178T>C	uc001rbt.2	-	12	2558	c.2379A>G	c.(2377-2379)GAA>GAG	p.E793E		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	793	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GCCAGAGAGCTTCCAGTTCTT	0.323													8	31	---	---	---	---	PASS	C	13720178	C	C	13720178	2	2	4	1	0	0	0	0	0	0	0	1	6780	1606	56	5		5	GRIN2B	12	13720178	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	1236311	13720178	120131717	2394	2985										
GRIN2B	2904	broad.mit.edu	37	chr12	14018920	14018920	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgctctttgggtcggtctCattcatggctaccagttcca	10	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:14018920C>A	uc001rbt.2	-	2	402	c.223G>T	c.(223-225)GAG>TAG	p.E75*		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	75	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GGGTCGGTCTCATTCATGGCT	0.557													35	51	---	---	---	---	PASS	A	14018920	A	A	14018920	4	1	4	1	0	0	0	0	0	1	0	0	6780	835	29	2	4279	2	GRIN2B	12	14018920	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	298742	14018920	119832975	2395	2986										
ATF7IP	55729	broad.mit.edu	37	chr12	14634064	14634064	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaccaccagctcaggctccCttgcgaggaactgttatgca	10	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:14634064C>A	uc001rbw.2	+	13	3383	c.3225C>A	c.(3223-3225)CCC>CCA	p.P1075P	ATF7IP_uc001rbv.1_Silent_p.P1074P|ATF7IP_uc001rbx.2_Silent_p.P1074P|ATF7IP_uc001rby.3_Silent_p.P1075P|ATF7IP_uc001rca.2_Silent_p.P1075P	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1075					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						CTCAGGCTCCCTTGCGAGGAA	0.493													4	50	---	---	---	---	PASS	A	14634064	A	A	14634064	2	1	4	1	0	0	0	0	0	0	0	1	1087	668	24	3		3	ATF7IP	12	14634064	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	615144	14634064	119217831	2396	2987										
PTPRO	5800	broad.mit.edu	37	chr12	15656871	15656871	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaatatttgatggtggatGaagaagcacatgaatttgtt	11	3	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:15656871G>A	uc001rcv.1	+	6	1309	c.1135G>A	c.(1135-1137)GAA>AAA	p.E379K	PTPRO_uc001rcw.1_Missense_Mutation_p.E379K|PTPRO_uc001rcu.1_Missense_Mutation_p.E379K	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	379	Fibronectin type-III 4.|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)				GATGGTGGATGAAGAAGCACA	0.368													12	31	---	---	---	---	PASS	A	15656871	A	A	15656871	3	1	4	1	0	0	0	0	1	0	0	0	12809	1291	45	2	1157	2	PTPRO	12	15656871	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1022807	15656871	118195024	2397	2988										
STRAP	11171	broad.mit.edu	37	chr12	16048369	16048369	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttagtagtatggaatatattCctgagggagagattttggtt	12	2	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:16048369C>T	uc001rdc.3	+	6	931	c.577C>T	c.(577-579)CCT>TCT	p.P193S	STRAP_uc010shw.1_Missense_Mutation_p.P206S|STRAP_uc001rdd.3_Missense_Mutation_p.P99S	NM_007178	NP_009109	Q9Y3F4	STRAP_HUMAN	serine/threonine kinase receptor associated	193	WD 5.				mRNA processing|RNA splicing	cell junction|mitochondrion|spliceosomal complex	identical protein binding			skin(1)	1		Hepatocellular(102;0.121)				GGAATATATTCCTGAGGGAGA	0.303													15	22	---	---	---	---	PASS	T	16048369	T	T	16048369	3	4	4	1	0	0	0	0	1	0	0	0	15325	855	30	2	599	2	STRAP	12	16048369	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	391498	16048369	117803526	2398	2989										
PDE3A	5139	broad.mit.edu	37	chr12	20799438	20799438	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttacagatcataacagaatcCatgccactgatgttttacat	5	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:20799438C>T	uc001reh.1	+	11	2288	c.2266C>T	c.(2266-2268)CAT>TAT	p.H756Y		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	756	Catalytic (By similarity).	Divalent metal cation 1 (By similarity).			lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	TAACAGAATCCATGCCACTGA	0.413													9	36	---	---	---	---	PASS	T	20799438	T	T	20799438	3	4	4	1	0	0	0	0	1	0	0	0	11637	594	21	3	2308	3	PDE3A	12	20799438	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4751069	20799438	113052457	2399	2990										
SLCO1C1	53919	broad.mit.edu	37	chr12	20868132	20868132	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttcctgggcaatcttcttCgtggaataggagaaactccc	9	10	2	1	rs150378278		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:20868132C>T	uc001rej.3	+	7	944	c.589C>T	c.(589-591)CGT>TGT	p.R197C	SLCO1C1_uc010sii.1_Missense_Mutation_p.R197C|SLCO1C1_uc010sij.1_Intron|SLCO1C1_uc009zip.2_Missense_Mutation_p.R31C|SLCO1C1_uc001rei.2_Missense_Mutation_p.R197C|SLCO1C1_uc010sik.1_Missense_Mutation_p.R79C	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	197	Helical; Name=4; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					CAATCTTCTTCGTGGAATAGG	0.413													19	49	---	---	---	---	PASS	T	20868132	T	T	20868132	3	4	4	1	0	0	0	0	1	0	0	0	14725	884	31	2	607	2	SLCO1C1	12	20868132	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	68694	20868132	112983763	2400	2991										
SLCO1C1	53919	broad.mit.edu	37	chr12	20874867	20874867	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accaaagagtttaccaagatCccaaagtagagaggattcta	8	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:20874867C>T	uc001rej.3	+	9	1260	c.905C>T	c.(904-906)TCC>TTC	p.S302F	SLCO1C1_uc010sii.1_Missense_Mutation_p.S302F|SLCO1C1_uc010sij.1_Missense_Mutation_p.S253F|SLCO1C1_uc009zip.2_Missense_Mutation_p.S136F|SLCO1C1_uc001rei.2_Missense_Mutation_p.S302F|SLCO1C1_uc010sik.1_Missense_Mutation_p.S184F	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	302	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					TTACCAAGATCCCAAAGTAGA	0.413													4	39	---	---	---	---	PASS	T	20874867	T	T	20874867	3	4	4	1	0	0	0	0	1	0	0	0	14725	855	30	2	931	2	SLCO1C1	12	20874867	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6735	20874867	112977028	2401	2992										
SLCO1C1	53919	broad.mit.edu	37	chr12	20876032	20876032	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgttttacagattttcttCcatcactgaagaatcttttt	4	7	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:20876032C>T	uc001rej.3	+	10	1385	c.1030C>T	c.(1030-1032)CCA>TCA	p.P344S	SLCO1C1_uc010sii.1_Missense_Mutation_p.P344S|SLCO1C1_uc010sij.1_Missense_Mutation_p.P295S|SLCO1C1_uc009zip.2_Missense_Mutation_p.P178S|SLCO1C1_uc001rei.2_Missense_Mutation_p.P344S|SLCO1C1_uc010sik.1_Missense_Mutation_p.P226S	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	344	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					AGATTTTCTTCCATCACTGAA	0.413													4	24	---	---	---	---	PASS	T	20876032	T	T	20876032	3	4	4	1	0	0	0	0	1	0	0	0	14725	855	30	2	1060	2	SLCO1C1	12	20876032	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1165	20876032	112975863	2402	2993										
SLCO1C1	53919	broad.mit.edu	37	chr12	20885888	20885888	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttggaatattctctggggGgatagttatgaaaaaattca	10	5	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:20885888G>A	uc001rej.3	+	11	1587	c.1232G>A	c.(1231-1233)GGG>GAG	p.G411E	SLCO1C1_uc010sii.1_Missense_Mutation_p.G411E|SLCO1C1_uc010sij.1_Missense_Mutation_p.G362E|SLCO1C1_uc009zip.2_Missense_Mutation_p.G245E|SLCO1C1_uc001rei.2_Missense_Mutation_p.G411E|SLCO1C1_uc010sik.1_Missense_Mutation_p.G293E	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	411	Helical; Name=8; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					TTCTCTGGGGGGATAGTTATG	0.388													14	23	---	---	---	---	PASS	A	20885888	A	A	20885888	3	1	4	1	0	0	0	0	1	0	0	0	14725	1232	43	3	1266	3	SLCO1C1	12	20885888	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	9856	20885888	112966007	2403	2994										
SLCO1C1	53919	broad.mit.edu	37	chr12	20905317	20905317	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcagtacttttcattttaaAgaaaaattatgtttcaaaac	4	5	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:20905317A>C	uc001rej.3	+	16	2349	c.1994A>C	c.(1993-1995)AAG>ACG	p.K665T	SLCO1C1_uc010sii.1_Missense_Mutation_p.K699N|SLCO1C1_uc010sij.1_Missense_Mutation_p.K616T|SLCO1C1_uc009zip.2_Missense_Mutation_p.K533N|SLCO1C1_uc001rei.2_Missense_Mutation_p.K665T|SLCO1C1_uc010sik.1_Missense_Mutation_p.K581N	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	665	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					TTCATTTTAAAGAAAAATTAT	0.333													5	17	---	---	---	---	PASS	C	20905317	C	C	20905317	3	2	4	1	0	0	0	0	1	0	0	0	14725	72	3	5	2151	5	SLCO1C1	12	20905317	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	19429	20905317	112946578	2404	2995										
SLCO1B3	28234	broad.mit.edu	37	chr12	21028281	21028281	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ataccattttttttcttgccGaaaaatccaaataaaccaca	2	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:21028281G>A	uc001rek.2	+	8	966	c.840G>A	c.(838-840)CCG>CCA	p.P280P	SLCO1B3_uc001rel.2_Silent_p.P280P|SLCO1B3_uc010sil.1_Silent_p.P280P|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Silent_p.P105P	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	280	Helical; Name=6; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TTTTCTTGCCGAAAAATCCAA	0.358													19	53	---	---	---	---	PASS	A	21028281	A	A	21028281	2	1	4	1	0	0	0	0	0	0	0	1	14724	1045	37	2		2	SLCO1B3	12	21028281	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	122964	21028281	112823614	2405	2996										
SLCO1B3	28234	broad.mit.edu	37	chr12	21054322	21054322	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatattttggggctctgattGataaaacatgtatgaagtgg	11	3	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:21054322G>A	uc001rek.2	+	14	1912	c.1786G>A	c.(1786-1788)GAT>AAT	p.D596N	SLCO1B3_uc001rel.2_Missense_Mutation_p.D596N|SLCO1B3_uc010sil.1_Missense_Mutation_p.D596N|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Missense_Mutation_p.D421N	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	596	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					GGCTCTGATTGATAAAACATG	0.378													24	68	---	---	---	---	PASS	A	21054322	A	A	21054322	3	1	4	1	0	0	0	0	1	0	0	0	14724	1290	45	2	1836	2	SLCO1B3	12	21054322	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	26041	21054322	112797573	2406	2997										
SLCO1A2	6579	broad.mit.edu	37	chr12	21453300	21453300	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctttagtgattccatattTttccttcttgacctcttctt	4	11	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:21453300T>A	uc001rer.2	-	7	1143	c.892A>T	c.(892-894)AAA>TAA	p.K298*	SLCO1A2_uc001res.2_Nonsense_Mutation_p.K298*|SLCO1A2_uc010siq.1_Nonsense_Mutation_p.K166*|SLCO1A2_uc010sio.1_Nonsense_Mutation_p.K166*|SLCO1A2_uc010sip.1_Nonsense_Mutation_p.K166*|SLCO1A2_uc001ret.2_Nonsense_Mutation_p.K296*|SLCO1A2_uc001reu.2_Nonsense_Mutation_p.K278*	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	298	Cytoplasmic (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						ATTCCATATTTTTCCTTCTTG	0.299													5	24	---	---	---	---	PASS	A	21453300	A	A	21453300	4	1	4	1	0	0	0	0	0	1	0	0	14722	1850	64	5	1152	5	SLCO1A2	12	21453300	Nonsense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	398978	21453300	112398595	2407	2998										
SLCO1A2	6579	broad.mit.edu	37	chr12	21457408	21457408	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggcaaaatcttctatatagGaaatacccaaaggcaggatg	9	7	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:21457408G>A	uc001rer.2	-	5	793	c.542C>T	c.(541-543)TCC>TTC	p.S181F	SLCO1A2_uc001res.2_Missense_Mutation_p.S181F|SLCO1A2_uc010siq.1_Missense_Mutation_p.S49F|SLCO1A2_uc010sio.1_Missense_Mutation_p.S49F|SLCO1A2_uc010sip.1_Missense_Mutation_p.S49F|SLCO1A2_uc001ret.2_Missense_Mutation_p.S179F|SLCO1A2_uc001reu.2_Missense_Mutation_p.S161F	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	181	Helical; Name=4; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TTCTATATAGGAAATACCCAA	0.343													24	26	---	---	---	---	PASS	A	21457408	A	A	21457408	3	1	4	1	0	0	0	0	1	0	0	0	14722	1174	41	2	1510	2	SLCO1A2	12	21457408	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4108	21457408	112394487	2408	2999										
GYS2	2998	broad.mit.edu	37	chr12	21715933	21715933	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aactcatacctcccagcaatGaaaaggaacaaagtcttttc	5	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:21715933G>A	uc001rfb.2	-	7	1236	c.981C>T	c.(979-981)TTC>TTT	p.F327F		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	327					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						TCCCAGCAATGAAAAGGAACA	0.368													18	40	---	---	---	---	PASS	A	21715933	A	A	21715933	2	1	4	1	0	0	0	0	0	0	0	1	6913	1281	45	2		2	GYS2	12	21715933	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	258525	21715933	112135962	2409	3000										
ABCC9	10060	broad.mit.edu	37	chr12	21954063	21954063	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtcatattctaaaatatttCctcgcttcatcacaataacc	2	11	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:21954063C>T	uc001rfh.2	-	38	4585	c.4565G>A	c.(4564-4566)GGA>GAA	p.G1522E	ABCC9_uc001rfg.2_Missense_Mutation_p.G51E	NM_020297	NP_064693	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1522	Cytoplasmic (Potential).|ABC transporter 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TAAAATATTTCCTCGCTTCAT	0.408													13	31	---	---	---	---	PASS	T	21954063	T	T	21954063	3	4	4	1	0	0	0	0	1	0	0	0	59	855	30	2	88	2	ABCC9	12	21954063	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	238130	21954063	111897832	2410	3001										
ABCC9	10060	broad.mit.edu	37	chr12	22047070	22047070	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaaaggcctctgcaggtttCagattgtttccactggcata	10	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:22047070C>T	uc001rfi.1	-	12	1718	c.1698G>A	c.(1696-1698)CTG>CTA	p.L566L	ABCC9_uc001rfh.2_Silent_p.L566L|ABCC9_uc001rfj.1_Silent_p.L566L	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	566	Extracellular (Potential).|ABC transmembrane type-1 1.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CTGCAGGTTTCAGATTGTTTC	0.468													13	32	---	---	---	---	PASS	T	22047070	T	T	22047070	2	4	4	1	0	0	0	0	0	0	0	1	59	813	29	2		2	ABCC9	12	22047070	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	93007	22047070	111804825	2411	3002										
ABCC9	10060	broad.mit.edu	37	chr12	22078890	22078890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acttacctaaaagtaatttaGgaaaatttgatgtttcgata	6	4	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:22078890G>T	uc001rfi.1	-	3	412	c.392C>A	c.(391-393)CCT>CAT	p.P131H	ABCC9_uc001rfh.2_Missense_Mutation_p.P131H|ABCC9_uc001rfj.1_Missense_Mutation_p.P131H|ABCC9_uc001rfk.2_Missense_Mutation_p.P131H|ABCC9_uc001rfl.1_Missense_Mutation_p.P131H	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	131	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AAGTAATTTAGGAAAATTTGA	0.363													13	45	---	---	---	---	PASS	T	22078890	T	T	22078890	3	4	4	1	0	0	0	0	1	0	0	0	59	1000	35	3	4543	3	ABCC9	12	22078890	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	31820	22078890	111773005	2412	3003										
SOX5	6660	broad.mit.edu	37	chr12	23893870	23893870	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctgagaggcagctagtttCttctgctcatcgtgggcagc	12	10	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:23893870C>T	uc001rfw.2	-	5	774	c.672G>A	c.(670-672)AAG>AAA	p.K224K	SOX5_uc001rfx.2_Silent_p.K211K|SOX5_uc001rfy.2_Silent_p.K211K|SOX5_uc010siv.1_Silent_p.K211K|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Silent_p.K176K	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	224	Potential.				transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						CAGCTAGTTTCTTCTGCTCAT	0.507													16	20	---	---	---	---	PASS	T	23893870	T	T	23893870	2	4	4	1	0	0	0	0	0	0	0	1	14954	912	32	2		2	SOX5	12	23893870	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1814980	23893870	109958025	2413	3004										
ITPR2	3709	broad.mit.edu	37	chr12	26868709	26868709	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttaatacatcctctcgataGgaactatatttcatgaataa	4	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:26868709G>A	uc001rhg.2	-	7	1101	c.684C>T	c.(682-684)TCC>TCT	p.S228S		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	228	Cytoplasmic (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)					CCTCTCGATAGGAACTATATT	0.348													10	42	---	---	---	---	PASS	A	26868709	A	A	26868709	2	1	4	1	0	0	0	0	0	0	0	1	7921	987	35	3		3	ITPR2	12	26868709	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2974839	26868709	106983186	2414	3005										
C12orf35	55196	broad.mit.edu	37	chr12	32134112	32134112	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attatcctcaacaaatttctGtttctgatatgcataatggg	6	7	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:32134112G>T	uc001rks.2	+	4	637	c.223G>T	c.(223-225)GTT>TTT	p.V75F		NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	75										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			ACAAATTTCTGTTTCTGATAT	0.373													17	30	---	---	---	---	PASS	T	32134112	T	T	32134112	3	4	4	1	0	0	0	0	1	0	0	0	1682	1377	48	3	225	3	C12orf35	12	32134112	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5265403	32134112	101717783	2415	3006										
CPNE8	144402	broad.mit.edu	37	chr12	39124151	39124151	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgttgtaaattctccaatGaaatcatgactaaaattaaa	4	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:39124151G>A	uc001rls.1	-	11	816	c.732C>T	c.(730-732)TTC>TTT	p.F244F		NM_153634	NP_705898	Q86YQ8	CPNE8_HUMAN	copine VIII	244	C2 2.									pancreas(1)	1	Esophageal squamous(101;0.187)	Lung NSC(34;0.137)|Melanoma(24;0.152)|all_lung(34;0.157)				ATTCTCCAATGAAATCATGAC	0.279													15	14	---	---	---	---	PASS	A	39124151	A	A	39124151	2	1	4	1	0	0	0	0	0	0	0	1	3818	1281	45	2		2	CPNE8	12	39124151	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	6990039	39124151	94727744	2416	3007										
ABCD2	225	broad.mit.edu	37	chr12	40012821	40012821	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggtttgccagcctcccatcCatattgatcactttataata	6	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:40012821C>T	uc001rmb.2	-	1	1023	c.597G>A	c.(595-597)ATG>ATA	p.M199I		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	199	ABC transmembrane type-1.|Interaction with PEX19.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						GCCTCCCATCCATATTGATCA	0.418													8	60	---	---	---	---	PASS	T	40012821	T	T	40012821	3	4	4	1	0	0	0	0	1	0	0	0	61	594	21	3	1665	3	ABCD2	12	40012821	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	888670	40012821	93839074	2417	3008										
ABCD2	225	broad.mit.edu	37	chr12	40012996	40012996	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttaatttgatgatgaaagtcCgaggcttcttttccacaatg	8	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:40012996C>T	uc001rmb.2	-	1	848	c.422G>A	c.(421-423)CGG>CAG	p.R141Q		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	141	ABC transmembrane type-1.|Interaction with PEX19.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						GATGAAAGTCCGAGGCTTCTT	0.438													14	24	---	---	---	---	PASS	T	40012996	T	T	40012996	3	4	4	1	0	0	0	0	1	0	0	0	61	652	23	1	1840	1	ABCD2	12	40012996	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	175	40012996	93838899	2418	3009										
SLC2A13	114134	broad.mit.edu	37	chr12	40154015	40154015	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacagccatagatgaaaaggAgtcccacagcagcaaatcca	9	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:40154015A>T	uc010skm.1	-	10	1811	c.1760T>A	c.(1759-1761)CTC>CAC	p.L587H	C12orf40_uc009zjv.1_Intron	NM_052885	NP_443117	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose	587	Helical; Name=12; (Potential).					integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)				GATGAAAAGGAGTCCCACAGC	0.393										HNSCC(50;0.14)			13	17	---	---	---	---	PASS	T	40154015	T	T	40154015	3	4	4	1	0	0	0	0	1	0	0	0	14542	304	11	5	190	5	SLC2A13	12	40154015	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	141019	40154015	93697880	2419	3010										
CNTN1	1272	broad.mit.edu	37	chr12	41337879	41337879	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgcagtgtgctgcgtccttTgatcctgccttggatctcac	10	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:41337879T>C	uc001rmm.1	+	14	1703	c.1590T>C	c.(1588-1590)TTT>TTC	p.F530F	CNTN1_uc009zjy.1_Silent_p.F530F|CNTN1_uc001rmn.1_Silent_p.F519F|CNTN1_uc001rmo.2_Silent_p.F530F	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	530	Ig-like C2-type 6.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				CTGCGTCCTTTGATCCTGCCT	0.393													13	32	---	---	---	---	PASS	C	41337879	C	C	41337879	2	2	4	1	0	0	0	0	0	0	0	1	3640	1809	63	5		5	CNTN1	12	41337879	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	1183864	41337879	92514016	2420	3011										
CNTN1	1272	broad.mit.edu	37	chr12	41414201	41414201	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcttctgagatatctgttCattgggaacatgttttagaa	8	6	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:41414201C>T	uc001rmm.1	+	20	2595	c.2482C>T	c.(2482-2484)CAT>TAT	p.H828Y	CNTN1_uc001rmn.1_Missense_Mutation_p.H817Y	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	828	Fibronectin type-III 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				GATATCTGTTCATTGGGAACA	0.294													5	30	---	---	---	---	PASS	T	41414201	T	T	41414201	3	4	4	1	0	0	0	0	1	0	0	0	3640	826	29	2	2556	2	CNTN1	12	41414201	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	76322	41414201	92437694	2421	3012										
CNTN1	1272	broad.mit.edu	37	chr12	41418956	41418956	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctgaatgtttgcagattcGgtattgggctgcccatgaca	11	9	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:41418956G>C	uc001rmm.1	+	21	2641	c.2528G>C	c.(2527-2529)CGG>CCG	p.R843P	CNTN1_uc001rmn.1_Missense_Mutation_p.R832P	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	843	Fibronectin type-III 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				TTGCAGATTCGGTATTGGGCT	0.458													65	68	---	---	---	---	PASS	C	41418956	C	C	41418956	3	2	4	1	0	0	0	0	1	0	0	0	3640	1116	39	4	2606	4	CNTN1	12	41418956	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4755	41418956	92432939	2422	3013										
PDZRN4	29951	broad.mit.edu	37	chr12	41966734	41966734	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caccagcatagatatgcaaaGgggaaagctagatgacatca	10	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:41966734G>A	uc010skn.1	+	10	1624	c.1556G>A	c.(1555-1557)AGG>AAG	p.R519K	PDZRN4_uc001rmq.3_Missense_Mutation_p.R460K|PDZRN4_uc009zjz.2_Missense_Mutation_p.R458K|PDZRN4_uc001rmr.2_Missense_Mutation_p.R345K	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	718							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				GATATGCAAAGGGGAAAGCTA	0.473													16	87	---	---	---	---	PASS	A	41966734	A	A	41966734	3	1	4	1	0	0	0	0	1	0	0	0	11710	1000	35	3	2264	3	PDZRN4	12	41966734	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	547778	41966734	91885161	2423	3014										
PRICKLE1	144165	broad.mit.edu	37	chr12	42854137	42854137	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaaattgtagacgcgtctcCgagtcctttcactcatcgga	8	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:42854137C>T	uc010skv.1	-	8	2257	c.1970G>A	c.(1969-1971)CGG>CAG	p.R657Q	PRICKLE1_uc001rnl.2_Missense_Mutation_p.R657Q|PRICKLE1_uc010skw.1_Missense_Mutation_p.R657Q|PRICKLE1_uc001rnm.2_Missense_Mutation_p.R657Q|PRICKLE1_uc001rnk.1_5'Flank	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	657	Arg/His-rich.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		GACGCGTCTCCGAGTCCTTTC	0.507													8	34	---	---	---	---	PASS	T	42854137	T	T	42854137	3	4	4	1	0	0	0	0	1	0	0	0	12486	652	23	1	529	1	PRICKLE1	12	42854137	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	887403	42854137	90997758	2424	3015										
ADAMTS20	80070	broad.mit.edu	37	chr12	43847772	43847772	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacatgttcttgaacaagaActgtaaggttcccatggtcc	8	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:43847772A>G	uc010skx.1	-	12	1698	c.1698T>C	c.(1696-1698)AGT>AGC	p.S566S		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	566	TSP type-1 1.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TTGAACAAGAACTGTAAGGTT	0.403													7	12	---	---	---	---	PASS	G	43847772	G	G	43847772	2	3	4	1	0	0	0	0	0	0	0	1	266	40	2	5		5	ADAMTS20	12	43847772	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	993635	43847772	90004123	2425	3016										
ADAMTS20	80070	broad.mit.edu	37	chr12	43858458	43858458	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actgcttgtttccatcatatCgtgatccaggaagttctgaa	8	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:43858458C>T	uc010skx.1	-	10	1445	c.1445G>A	c.(1444-1446)CGA>CAA	p.R482Q		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	482	Disintegrin.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TCCATCATATCGTGATCCAGG	0.383													12	59	---	---	---	---	PASS	T	43858458	T	T	43858458	3	4	4	1	0	0	0	0	1	0	0	0	266	884	31	2	4406	2	ADAMTS20	12	43858458	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	10686	43858458	89993437	2426	3017										
DBX2	440097	broad.mit.edu	37	chr12	45429899	45429899	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaaaggtttggaaggtgcTgcagagaaagcattgatctc	14	5	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:45429899T>G	uc001rok.1	-	2	576	c.404_splice	c.e2-1	p.A135_splice		NM_001004329	NP_001004329	Q6ZNG2	DBX2_HUMAN	developing brain homeobox 2							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Lung SC(27;0.192)	Lung NSC(34;0.142)		GBM - Glioblastoma multiforme(48;0.0515)		tggaaggtgctgcagagaaag	0.075													7	4	---	---	---	---	PASS	G	45429899	G	G	45429899	5	3	4	1	0	0	0	0	0	0	1	0	4260	1594	55	5	629	5	DBX2	12	45429899	Splice_Site	SNP	T	TCGA-18-3409-01A-01D-0983-08	1571441	45429899	88421996	2427	3018										
ARID2	196528	broad.mit.edu	37	chr12	46211527	46211527	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ataataaattggtgctttcaCtgttatctggactcccaaat	6	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:46211527C>T	uc001ros.1	+	5	493	c.493C>T	c.(493-495)CTG>TTG	p.L165L	ARID2_uc001ror.2_Silent_p.L165L	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	165					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		GGTGCTTTCACTGTTATCTGG	0.358													20	13	---	---	---	---	PASS	T	46211527	T	T	46211527	2	4	4	1	0	0	0	0	0	0	0	1	915	564	20	3		3	ARID2	12	46211527	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	781628	46211527	87640368	2428	3019										
ARID2	196528	broad.mit.edu	37	chr12	46245535	46245535	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagcggaacgcagacaggagTtggacttccagtacaaacgc	13	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:46245535T>C	uc001ros.1	+	15	3629	c.3629T>C	c.(3628-3630)GTT>GCT	p.V1210A	ARID2_uc001ror.2_Missense_Mutation_p.V1210A|ARID2_uc009zkg.1_Missense_Mutation_p.V666A|ARID2_uc009zkh.1_Missense_Mutation_p.V837A|ARID2_uc001rou.1_Missense_Mutation_p.V544A	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1210					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		CAGACAGGAGTTGGACTTCCA	0.473													15	11	---	---	---	---	PASS	C	46245535	C	C	46245535	3	2	4	1	0	0	0	0	1	0	0	0	915	1725	60	5	3687	5	ARID2	12	46245535	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	34008	46245535	87606360	2429	3020										
ARID2	196528	broad.mit.edu	37	chr12	46246497	46246497	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggaaacagtcgcaggaattCcaaataaagtaggagttaga	12	5	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:46246497C>T	uc001ros.1	+	15	4591	c.4591C>T	c.(4591-4593)CCA>TCA	p.P1531S	ARID2_uc001ror.2_Missense_Mutation_p.P1531S|ARID2_uc009zkg.1_Missense_Mutation_p.P987S|ARID2_uc009zkh.1_Missense_Mutation_p.P1158S|ARID2_uc001rou.1_Missense_Mutation_p.P865S	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1531					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		CGCAGGAATTCCAAATAAAGT	0.478													7	51	---	---	---	---	PASS	T	46246497	T	T	46246497	3	4	4	1	0	0	0	0	1	0	0	0	915	855	30	2	4649	2	ARID2	12	46246497	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	962	46246497	87605398	2430	3021										
H1FNT	341567	broad.mit.edu	37	chr12	48723693	48723693	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtgtgccagagccaaggagGaagcgggagcgacagcggca	18	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:48723693G>A	uc001rrm.2	+	1	931	c.619G>A	c.(619-621)GAA>AAA	p.E207K		NM_181788	NP_861453	Q75WM6	H1FNT_HUMAN	H1 histone family, member N, testis-specific	207					chromosome condensation|multicellular organismal development|sperm chromatin condensation|spermatid nucleus elongation	nuclear chromatin	ATP binding|DNA binding			pancreas(1)	1						AGCCAAGGAGGAAGCGGGAGC	0.672													7	7	---	---	---	---	PASS	A	48723693	A	A	48723693	3	1	4	1	0	0	0	0	1	0	0	0	6921	1175	41	2	621	2	H1FNT	12	48723693	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2477196	48723693	85128202	2431	3022										
OR8S1	341568	broad.mit.edu	37	chr12	48919789	48919789	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctatgaccgccatgctgcCatctgccgcccactacttta	7	17	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:48919789C>T	uc010slu.1	+	1	375	c.375C>T	c.(373-375)GCC>GCT	p.A125A		NM_001005203	NP_001005203	Q8NH09	OR8S1_HUMAN	olfactory receptor, family 8, subfamily S,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GCCATGCTGCCATCTGCCGCC	0.542													25	28	---	---	---	---	PASS	T	48919789	T	T	48919789	2	4	4	1	0	0	0	0	0	0	0	1	11246	581	21	3		3	OR8S1	12	48919789	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	196096	48919789	84932106	2432	3023										
ADCY6	112	broad.mit.edu	37	chr12	49166093	49166093	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcacctgtagtttccagagGaagtctaggcgggcagtcga	14	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:49166093G>A	uc001rsh.3	-	17	3432	c.2772C>T	c.(2770-2772)TTC>TTT	p.F924F	ADCY6_uc001rsj.3_Silent_p.F924F|ADCY6_uc001rsi.3_Silent_p.F871F|ADCY6_uc010slw.1_Silent_p.F155F	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	924	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						GTTTCCAGAGGAAGTCTAGGC	0.582													23	21	---	---	---	---	PASS	A	49166093	A	A	49166093	2	1	4	1	0	0	0	0	0	0	0	1	298	1165	41	2		2	ADCY6	12	49166093	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	246304	49166093	84685802	2433	3024										
DDX23	9416	broad.mit.edu	37	chr12	49230001	49230001	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agccacaccaatgatgtcacGattctgtagcccaatgggaa	9	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:49230001G>A	uc001rsm.2	-	11	1376	c.1285C>T	c.(1285-1287)CGT>TGT	p.R429C		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	429	Helicase ATP-binding.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6						ATGATGTCACGATTCTGTAGC	0.512													15	83	---	---	---	---	PASS	A	49230001	A	A	49230001	3	1	4	1	0	0	0	0	1	0	0	0	4350	1058	37	2	1205	2	DDX23	12	49230001	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	63908	49230001	84621894	2434	3025										
CCDC65	85478	broad.mit.edu	37	chr12	49308340	49308340	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctggaagccctaaccaagGagtttgagacagaaaggtat	12	7	0	2	rs145334864		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:49308340G>A	uc001rso.2	+	3	681	c.454G>A	c.(454-456)GAG>AAG	p.E152K		NM_033124	NP_149115	Q8IXS2	CCD65_HUMAN	coiled-coil domain containing 65	152	Potential.									ovary(1)|skin(1)	2						CCTAACCAAGGAGTTTGAGAC	0.542													21	23	---	---	---	---	PASS	A	49308340	A	A	49308340	3	1	4	1	0	0	0	0	1	0	0	0	2837	1175	41	2	464	2	CCDC65	12	49308340	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	78339	49308340	84543555	2435	3026										
TUBA1C	84790	broad.mit.edu	37	chr12	49666170	49666170	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagtccaagctggagttctcCatttacccggcgccccaggt	10	14	1	0	rs113331886	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:49666170C>A	uc001rts.2	+	5	863	c.405C>A	c.(403-405)TCC>TCA	p.S135S	TUBA1C_uc010smh.1_Silent_p.S240S|TUBA1C_uc001rtt.1_Silent_p.S170S|uc010smi.1_Nonsense_Mutation_p.G140*	NM_032704	NP_116093	Q9BQE3	TBA1C_HUMAN	tubulin alpha 6	170					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0						TGGAGTTCTCCATTTACCCGG	0.542													6	22	---	---	---	---	PASS	A	49666170	A	A	49666170	2	1	4	1	0	0	0	0	0	0	0	1	16742	581	21	3		3	TUBA1C	12	49666170	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	357830	49666170	84185725	2436	3027										
FAM186B	84070	broad.mit.edu	37	chr12	49994501	49994501	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaggcctgcttcatcaggaGaaggtcatggtaccttcccc	10	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:49994501G>A	uc001ruo.2	-	4	1095	c.922C>T	c.(922-924)CTC>TTC	p.L308F	FAM186B_uc010smk.1_Missense_Mutation_p.L218F	NM_032130	NP_115506	Q8IYM0	F186B_HUMAN	hypothetical protein LOC84070	308	Potential.					protein complex				ovary(1)	1						TTCATCAGGAGAAGGTCATGG	0.552													86	82	---	---	---	---	PASS	A	49994501	A	A	49994501	3	1	4	1	0	0	0	0	1	0	0	0	5512	942	33	2	1775	2	FAM186B	12	49994501	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	328331	49994501	83857394	2437	3028										
NCKAP5L	57701	broad.mit.edu	37	chr12	50187175	50187175	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actggctcggccaggctgtcCtccgagggcatctcttcccg	12	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:50187175C>T	uc009zlk.2	-	10	3502	c.3300G>A	c.(3298-3300)GAG>GAA	p.E1100E	NCKAP5L_uc001rvc.3_Silent_p.E304E|NCKAP5L_uc001rvb.2_Silent_p.E693E	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	1096	Pro-rich.									central_nervous_system(1)	1						CCAGGCTGTCCTCCGAGGGCA	0.662													13	14	---	---	---	---	PASS	T	50187175	T	T	50187175	2	4	4	1	0	0	0	0	0	0	0	1	10224	680	24	3		3	NCKAP5L	12	50187175	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	192674	50187175	83664720	2438	3029										
NCKAP5L	57701	broad.mit.edu	37	chr12	50191039	50191039	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtgagcagagaagcaaggGgtcagtctcttccagggctc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:50191039G>A	uc009zlk.2	-	8	806	c.604C>T	c.(604-606)CCC>TCC	p.P202S	NCKAP5L_uc001rvc.3_5'Flank|NCKAP5L_uc001rvb.2_5'UTR	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	198	Pro-rich.									central_nervous_system(1)	1						AGAAGCAAGGGGTCAGTCTCT	0.692													8	13	---	---	---	---	PASS	A	50191039	A	A	50191039	3	1	4	1	0	0	0	0	1	0	0	0	10224	1232	43	3	3424	3	NCKAP5L	12	50191039	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3864	50191039	83660856	2439	3030	107	2								
NCKAP5L	57701	broad.mit.edu	37	chr12	50191040	50191040	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgagcagagaagcaagggGtcagtctcttccagggctct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:50191040G>A	uc009zlk.2	-	8	805	c.603C>T	c.(601-603)GAC>GAT	p.D201D	NCKAP5L_uc001rvc.3_5'Flank|NCKAP5L_uc001rvb.2_5'UTR	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	197	Pro-rich.									central_nervous_system(1)	1						GAAGCAAGGGGTCAGTCTCTT	0.692													9	14	---	---	---	---	PASS	A	50191040	A	A	50191040	2	1	4	1	0	0	0	0	0	0	0	1	10224	1252	44	3		3	NCKAP5L	12	50191040	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	50191040	83660855	2440	3031	107	2								
DIP2B	57609	broad.mit.edu	37	chr12	51069214	51069214	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaattttttgtggatgactCtgaagaaattgtggaaggta	13	2	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:51069214C>T	uc001rwv.2	+	7	1055	c.899C>T	c.(898-900)TCT>TTT	p.S300F	DIP2B_uc001rwu.2_Missense_Mutation_p.S300F|DIP2B_uc009zls.1_Missense_Mutation_p.S182F	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	300						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						GTGGATGACTCTGAAGAAATT	0.279													8	34	---	---	---	---	PASS	T	51069214	T	T	51069214	3	4	4	1	0	0	0	0	1	0	0	0	4528	913	32	2	925	2	DIP2B	12	51069214	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	878174	51069214	82782681	2441	3032										
ACVR1B	91	broad.mit.edu	37	chr12	52377884	52377884	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagtgacaattgaggggatgAttaagctggccttgtctgct	13	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:52377884A>T	uc001rzn.2	+	5	955	c.913A>T	c.(913-915)ATT>TTT	p.I305F	ACVR1B_uc001rzl.2_Missense_Mutation_p.I305F|ACVR1B_uc001rzm.2_Missense_Mutation_p.I305F|ACVR1B_uc010snn.1_Missense_Mutation_p.I346F	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	305	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	TGAGGGGATGATTAAGCTGGC	0.547													4	14	---	---	---	---	PASS	T	52377884	T	T	52377884	3	4	4	1	0	0	0	0	1	0	0	0	221	333	12	5	1058	5	ACVR1B	12	52377884	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	1308670	52377884	81474011	2442	3033										
KRT83	3889	broad.mit.edu	37	chr12	52713029	52713029	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccacgcactcggcctcccgCcgcagagtctcgatgtagcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:52713029C>T	uc001saf.2	-	2	567	c.504G>A	c.(502-504)CGG>CGA	p.R168R		NM_002282	NP_002273	P78385	KRT83_HUMAN	keratin 83	168	Rod.|Coil 1B.				epidermis development	keratin filament	structural molecule activity			skin(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		CGGCCTCCCGCCGCAGAGTCT	0.597													8	32	---	---	---	---	PASS	T	52713029	T	T	52713029	2	4	4	1	0	0	0	0	0	0	0	1	8497	726	26	3		3	KRT83	12	52713029	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	335145	52713029	81138866	2443	3034	108	2								
KRT83	3889	broad.mit.edu	37	chr12	52713030	52713030	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacgcactcggcctcccgcCgcagagtctcgatgtagcca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:52713030C>T	uc001saf.2	-	2	566	c.503G>A	c.(502-504)CGG>CAG	p.R168Q		NM_002282	NP_002273	P78385	KRT83_HUMAN	keratin 83	168	Rod.|Coil 1B.				epidermis development	keratin filament	structural molecule activity			skin(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		GGCCTCCCGCCGCAGAGTCTC	0.597													8	32	---	---	---	---	PASS	T	52713030	T	T	52713030	3	4	4	1	0	0	0	0	1	0	0	0	8497	652	23	1	1010	1	KRT83	12	52713030	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	52713030	81138865	2444	3035	108	2								
KRT5	3852	broad.mit.edu	37	chr12	52913697	52913697	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagacaggaaagccagggccAccgaagccacctccaaagcc	10	16	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:52913697A>G	uc001san.2	-	1	547	c.384T>C	c.(382-384)GGT>GGC	p.G128G	KRT5_uc009zmh.2_Silent_p.G128G	NM_000424	NP_000415	P13647	K2C5_HUMAN	keratin 5	128	Head.|Gly-rich.				epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		AGCCAGGGCCACCGAAGccac	0.313													6	26	---	---	---	---	PASS	G	52913697	G	G	52913697	2	3	4	1	0	0	0	0	0	0	0	1	8479	146	6	5		5	KRT5	12	52913697	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	200667	52913697	80938198	2445	3036										
KRT71	112802	broad.mit.edu	37	chr12	52942523	52942523	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagaacttgatctcctggtCcatggattccaccttggcct	9	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:52942523C>T	uc001sao.2	-	4	845	c.775G>A	c.(775-777)GAC>AAC	p.D259N		NM_033448	NP_258259	Q3SY84	K2C71_HUMAN	keratin 71	259	Coil 1B.|Rod.						structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.194)		ATCTCCTGGTCCATGGATTCC	0.527													9	41	---	---	---	---	PASS	T	52942523	T	T	52942523	3	4	4	1	0	0	0	0	1	0	0	0	8484	855	30	2	820	2	KRT71	12	52942523	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	28826	52942523	80909372	2446	3037										
KRT73	319101	broad.mit.edu	37	chr12	53008396	53008396	+	Silent	SNP	T	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacttgaagaacttgatttcTccatccagggcatccacctt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53008396T>A	uc001sas.2	-	4	821	c.786A>T	c.(784-786)GGA>GGT	p.G262G		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	262	Coil 1B.|Rod.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		ACTTGATTTCTCCATCCAGGG	0.532													5	22	---	---	---	---	PASS	A	53008396	A	A	53008396	2	1	4	1	0	0	0	0	0	0	0	1	8486	1538	54	5		5	KRT73	12	53008396	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	65873	53008396	80843499	2447	3038	109	2								
KRT73	319101	broad.mit.edu	37	chr12	53008398	53008398	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgaagaacttgatttctcCatccagggcatccaccttgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53008398C>T	uc001sas.2	-	4	819	c.784G>A	c.(784-786)GGA>AGA	p.G262R		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	262	Coil 1B.|Rod.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		TTGATTTCTCCATCCAGGGCA	0.532													5	23	---	---	---	---	PASS	T	53008398	T	T	53008398	3	4	4	1	0	0	0	0	1	0	0	0	8486	603	21	3	862	3	KRT73	12	53008398	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2	53008398	80843497	2448	3039	109	2								
KRT76	51350	broad.mit.edu	37	chr12	53170489	53170489	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctcaccttgtcgatgaagGaggcaaacttgttgttgagg	12	9	1	2	rs138159446	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53170489G>A	uc001sax.2	-	1	641	c.587C>T	c.(586-588)TCC>TTC	p.S196F		NM_015848	NP_056932	Q01546	K22O_HUMAN	keratin 76	196	Coil 1A.|Rod.				cytoskeleton organization	keratin filament	structural molecule activity			breast(1)|skin(1)	2						GTCGATGAAGGAGGCAAACTT	0.488													38	39	---	---	---	---	PASS	A	53170489	A	A	53170489	3	1	4	1	0	0	0	0	1	0	0	0	8489	1174	41	2	1365	2	KRT76	12	53170489	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	162091	53170489	80681406	2449	3040										
KRT4	3851	broad.mit.edu	37	chr12	53207610	53207610	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agccaccagtgccaaagcctCcagcacccccaaagcaggca	8	18	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53207610C>T	uc001saz.2	-	1	726	c.455G>A	c.(454-456)GGA>GAA	p.G152E		NM_002272	NP_002263	B4DRS2	B4DRS2_HUMAN	keratin 4	78						keratin filament	structural molecule activity			ovary(4)|skin(2)	6						GCCAAAGCCTCCAGCACCCCC	0.607													27	41	---	---	---	---	PASS	T	53207610	T	T	53207610	3	4	4	1	0	0	0	0	1	0	0	0	8477	855	30	2	1365	2	KRT4	12	53207610	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	37121	53207610	80644285	2450	3041										
KRT79	338785	broad.mit.edu	37	chr12	53227802	53227802	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagccccccagagcccgcccCaacaaggcccctccggccac	8	23	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53227802C>T	uc001sbb.2	-	1	276	c.243G>A	c.(241-243)TTG>TTA	p.L81L		NM_175834	NP_787028	Q5XKE5	K2C79_HUMAN	keratin 6L	81	Head.					keratin filament	structural molecule activity			ovary(2)|skin(2)	4						GAGCCCGCCCCAACAAGGCCC	0.647													18	10	---	---	---	---	PASS	T	53227802	T	T	53227802	2	4	4	1	0	0	0	0	0	0	0	1	8492	593	21	3		3	KRT79	12	53227802	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	20192	53227802	80624093	2451	3042										
KRT18	3875	broad.mit.edu	37	chr12	53345606	53345606	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgagacgtacagtccagtCcttggagatcgacctggact	12	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53345606C>T	uc001sbe.2	+	6	983	c.914C>T	c.(913-915)TCC>TTC	p.S305F	KRT18_uc009zmn.1_Missense_Mutation_p.S305F|KRT18_uc001sbf.1_Missense_Mutation_p.S132F|KRT18_uc001sbg.2_Missense_Mutation_p.S305F|KRT18_uc009zmo.2_Missense_Mutation_p.S305F|KRT8_uc009zml.1_5'Flank|KRT8_uc009zmm.1_5'Flank	NM_199187	NP_954657	P05783	K1C18_HUMAN	keratin 18	305	Interaction with DNAJB6.|Coil 2.|Rod.|Necessary for interaction with PNN.				anatomical structure morphogenesis|cell cycle|Golgi to plasma membrane CFTR protein transport|interspecies interaction between organisms|negative regulation of apoptosis	centriolar satellite|keratin filament|perinuclear region of cytoplasm	protein binding|structural molecule activity			skin(1)	1						ACAGTCCAGTCCTTGGAGATC	0.557													5	32	---	---	---	---	PASS	T	53345606	T	T	53345606	3	4	4	1	0	0	0	0	1	0	0	0	8455	855	30	2	932	2	KRT18	12	53345606	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	117804	53345606	80506289	2452	3043										
ESPL1	9700	broad.mit.edu	37	chr12	53677227	53677227	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgagctgctcagagaagctGgtctgccacctgggccgcct	13	14	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53677227G>A	uc001sck.2	+	16	3073	c.2982G>A	c.(2980-2982)CTG>CTA	p.L994L	ESPL1_uc001scj.2_Silent_p.L669L|ESPL1_uc010soe.1_Silent_p.L205L	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	994					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CAGAGAAGCTGGTCTGCCACC	0.512													41	58	---	---	---	---	PASS	A	53677227	A	A	53677227	2	1	4	1	0	0	0	0	0	0	0	1	5253	1335	47	3		3	ESPL1	12	53677227	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	331621	53677227	80174668	2453	3044										
ESPL1	9700	broad.mit.edu	37	chr12	53680087	53680087	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgctgcaggtcgtgctgaaGggctgtcctgaagccgctga	15	11	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53680087G>T	uc001sck.2	+	18	3658	c.3567G>T	c.(3565-3567)AAG>AAT	p.K1189N	ESPL1_uc001scj.2_Missense_Mutation_p.K864N|ESPL1_uc010soe.1_Intron	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1189					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						TCGTGCTGAAGGGCTGTCCTG	0.597													5	53	---	---	---	---	PASS	T	53680087	T	T	53680087	3	4	4	1	0	0	0	0	1	0	0	0	5253	991	35	3	3633	3	ESPL1	12	53680087	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2860	53680087	80171808	2454	3045										
ESPL1	9700	broad.mit.edu	37	chr12	53682974	53682974	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatgcccacctctgccgcttCctggccttgtgcctgggcca	10	17	1	0	rs145634647		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53682974C>T	uc001sck.2	+	21	4900	c.4809C>T	c.(4807-4809)TTC>TTT	p.F1603F	ESPL1_uc001scj.2_Silent_p.F1278F	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1603					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding	p.F1603F(1)		lung(1)|kidney(1)|skin(1)	3						TCTGCCGCTTCCTGGCCTTGT	0.592													41	57	---	---	---	---	PASS	T	53682974	T	T	53682974	2	4	4	1	0	0	0	0	0	0	0	1	5253	854	30	2		2	ESPL1	12	53682974	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2887	53682974	80168921	2455	3046										
SP7	121340	broad.mit.edu	37	chr12	53722687	53722687	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggacctgtgggcagtgtcCcttgcagcccatcaccctgg	12	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53722687C>T	uc001sct.2	-	2	646	c.539G>A	c.(538-540)GGG>GAG	p.G180E	SP7_uc001scu.2_Missense_Mutation_p.G162E|SP7_uc001scv.2_Missense_Mutation_p.G180E	NM_152860	NP_690599	Q8TDD2	SP7_HUMAN	osterix	180					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGGCAGTGTCCCTTGCAGCCC	0.622													3	7	---	---	---	---	PASS	T	53722687	T	T	53722687	3	4	4	1	0	0	0	0	1	0	0	0	14969	623	22	3	760	3	SP7	12	53722687	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	39713	53722687	80129208	2456	3047										
AMHR2	269	broad.mit.edu	37	chr12	53824998	53824998	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagctcctagaagactgttGggatgcagacccagaagcac	13	10	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53824998G>T	uc001scx.1	+	11	1541	c.1463G>T	c.(1462-1464)TGG>TTG	p.W488L	AMHR2_uc009zmy.1_3'UTR	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	488	Cytoplasmic (Potential).|Protein kinase.				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	GAAGACTGTTGGGATGCAGAC	0.592									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				4	61	---	---	---	---	PASS	T	53824998	T	T	53824998	3	4	4	1	0	0	0	0	1	0	0	0	573	1357	47	3	1505	3	AMHR2	12	53824998	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	102311	53824998	80026897	2457	3048										
MAP3K12	7786	broad.mit.edu	37	chr12	53879205	53879205	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgctcttgtcactcagctcCttggaagtgccaaaatctga	9	11	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53879205C>T	uc001sdm.1	-	6	875	c.777G>A	c.(775-777)AAG>AAA	p.K259K	MAP3K12_uc001sdn.1_Silent_p.K292K	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	259	Protein kinase.				histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						CACTCAGCTCCTTGGAAGTGC	0.532													63	99	---	---	---	---	PASS	T	53879205	T	T	53879205	2	4	4	1	0	0	0	0	0	0	0	1	9246	680	24	3		3	MAP3K12	12	53879205	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	54207	53879205	79972690	2458	3049										
MAP3K12	7786	broad.mit.edu	37	chr12	53879942	53879942	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagtaaggagggggtgacaGggcggccagcccgcagtacc	17	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:53879942G>A	uc001sdm.1	-	5	718	c.620C>T	c.(619-621)CCT>CTT	p.P207L	MAP3K12_uc001sdn.1_Missense_Mutation_p.P240L	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	207	Protein kinase.				histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						GGGGGTGACAGGGCGGCCAGC	0.607													10	25	---	---	---	---	PASS	A	53879942	A	A	53879942	3	1	4	1	0	0	0	0	1	0	0	0	9246	1000	35	3	2003	3	MAP3K12	12	53879942	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	737	53879942	79971953	2459	3050										
NCKAP1L	3071	broad.mit.edu	37	chr12	54929930	54929930	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagatacttcatctcctgagGaggaatataaggtggcctgc	11	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:54929930G>A	uc001sgc.3	+	28	3053	c.2974G>A	c.(2974-2976)GAG>AAG	p.E992K	NCKAP1L_uc010sox.1_Missense_Mutation_p.E534K|NCKAP1L_uc010soy.1_Missense_Mutation_p.E942K	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	992					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						ATCTCCTGAGGAGGAATATAA	0.428													19	17	---	---	---	---	PASS	A	54929930	A	A	54929930	3	1	4	1	0	0	0	0	1	0	0	0	10222	1175	41	2	3084	2	NCKAP1L	12	54929930	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1049988	54929930	78921965	2460	3051										
PDE1B	5153	broad.mit.edu	37	chr12	54971076	54971076	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggcccccccatcccctgcCgaagatgaacacaaccagaa	8	17	0	3	rs150107941		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:54971076C>G	uc001sgd.1	+	15	1741	c.1575C>G	c.(1573-1575)GCC>GCG	p.A525A	PDE1B_uc010soz.1_Silent_p.A388A|PDE1B_uc010spa.1_Silent_p.A484A|PDE1B_uc001sgf.2_Silent_p.A388A|PDE1B_uc001sge.2_Silent_p.A505A|PDE1B_uc009znq.2_Silent_p.A321A	NM_000924	NP_000915	Q01064	PDE1B_HUMAN	phosphodiesterase 1B isoform 1	525					activation of phospholipase C activity|apoptosis|nerve growth factor receptor signaling pathway|platelet activation	cytosol|nucleus	3',5'-cyclic-AMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CATCCCCTGCCGAAGATGAAC	0.567													41	48	---	---	---	---	PASS	G	54971076	G	G	54971076	2	3	4	1	0	0	0	0	0	0	0	1	11634	639	23	4		4	PDE1B	12	54971076	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	41146	54971076	78880819	2461	3052										
NEUROD4	58158	broad.mit.edu	37	chr12	55420286	55420286	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcaacacaccatcctggatGgataaaggtctgggctccca	10	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:55420286G>A	uc001sgp.3	+	2	441	c.63G>A	c.(61-63)ATG>ATA	p.M21I		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	21					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						CATCCTGGATGGATAAAGGTC	0.428													28	28	---	---	---	---	PASS	A	55420286	A	A	55420286	3	1	4	1	0	0	0	0	1	0	0	0	10350	1348	47	3	65	3	NEUROD4	12	55420286	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	449210	55420286	78431609	2462	3053										
OR10A7	121364	broad.mit.edu	37	chr12	55615268	55615268	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctcttggatgtccggtgttCctgtgtctatgctacagaca	11	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:55615268C>T	uc010spf.1	+	1	460	c.460C>T	c.(460-462)CCT>TCT	p.P154S		NM_001005280	NP_001005280	Q8NGE5	O10A7_HUMAN	olfactory receptor, family 10, subfamily A,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)	4						GTCCGGTGTTCCTGTGTCTAT	0.488													36	42	---	---	---	---	PASS	T	55615268	T	T	55615268	3	4	4	1	0	0	0	0	1	0	0	0	10895	855	30	2	462	2	OR10A7	12	55615268	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	194982	55615268	78236627	2463	3054										
OR6C74	254783	broad.mit.edu	37	chr12	55641500	55641500	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagtttgcagcttgctggtCtttgcttcatggatggctgg	14	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:55641500C>T	uc010spg.1	+	1	429	c.429C>T	c.(427-429)GTC>GTT	p.V143V		NM_001005490	NP_001005490	A6NCV1	O6C74_HUMAN	olfactory receptor, family 6, subfamily C,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						GCTTGCTGGTCTTTGCTTCAT	0.483													30	24	---	---	---	---	PASS	T	55641500	T	T	55641500	2	4	4	1	0	0	0	0	0	0	0	1	11198	900	32	2		2	OR6C74	12	55641500	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	26232	55641500	78210395	2464	3055										
OR6C1	390321	broad.mit.edu	37	chr12	55714785	55714785	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcattgcttgagtatcatGaatcgaagagtctgcacact	9	9	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:55714785G>A	uc010spi.1	+	1	402	c.402G>A	c.(400-402)ATG>ATA	p.M134I		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	134	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						TGAGTATCATGAATCGAAGAG	0.428													14	20	---	---	---	---	PASS	A	55714785	A	A	55714785	3	1	4	1	0	0	0	0	1	0	0	0	11190	1290	45	2	404	2	OR6C1	12	55714785	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	73285	55714785	78137110	2465	3056										
OR6C1	390321	broad.mit.edu	37	chr12	55715295	55715295	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctttcattaacatggcaagGaagactgtatttttcacaag	8	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:55715295G>A	uc010spi.1	+	1	912	c.912G>A	c.(910-912)AGG>AGA	p.R304R		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	304	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						ACATGGCAAGGAAGACTGTAT	0.388													38	69	---	---	---	---	PASS	A	55715295	A	A	55715295	2	1	4	1	0	0	0	0	0	0	0	1	11190	1165	41	2		2	OR6C1	12	55715295	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	510	55715295	78136600	2466	3057										
OR6C2	341416	broad.mit.edu	37	chr12	55846129	55846129	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagggaacctgactattatCaccctcacattggtggacca	8	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:55846129C>T	uc001sgz.1	+	1	132	c.132C>T	c.(130-132)ATC>ATT	p.I44I		NM_054105	NP_473446	Q9NZP2	OR6C2_HUMAN	olfactory receptor, family 6, subfamily C,	44	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TGACTATTATCACCCTCACAT	0.423													24	30	---	---	---	---	PASS	T	55846129	T	T	55846129	2	4	4	1	0	0	0	0	0	0	0	1	11191	816	29	2		2	OR6C2	12	55846129	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	130834	55846129	78005766	2467	3058										
OR6C2	341416	broad.mit.edu	37	chr12	55846263	55846263	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatatcaatgggggacaataCcattacctacaatgcttgtg	8	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:55846263C>T	uc001sgz.1	+	1	266	c.266C>T	c.(265-267)ACC>ATC	p.T89I		NM_054105	NP_473446	Q9NZP2	OR6C2_HUMAN	olfactory receptor, family 6, subfamily C,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GGGGACAATACCATTACCTAC	0.378													8	82	---	---	---	---	PASS	T	55846263	T	T	55846263	3	4	4	1	0	0	0	0	1	0	0	0	11191	507	18	3	268	3	OR6C2	12	55846263	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	134	55846263	78005632	2468	3059										
OR6C70	390327	broad.mit.edu	37	chr12	55863430	55863430	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatatttgaagcacagaaatCcaagttaagacctaaaatca	6	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:55863430C>T	uc010spn.1	-	1	493	c.493G>A	c.(493-495)GAT>AAT	p.D165N		NM_001005499	NP_001005499	A6NIJ9	O6C70_HUMAN	olfactory receptor, family 6, subfamily C,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GCACAGAAATCCAAGTTAAGA	0.368													10	46	---	---	---	---	PASS	T	55863430	T	T	55863430	3	4	4	1	0	0	0	0	1	0	0	0	11197	855	30	2	447	2	OR6C70	12	55863430	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	17167	55863430	77988465	2469	3060										
OR6C4	341418	broad.mit.edu	37	chr12	55945068	55945068	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggccttacaaatcaacctGaactccaagtgatgatattc	7	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:55945068G>A	uc010spp.1	+	1	58	c.58G>A	c.(58-60)GAA>AAA	p.E20K		NM_001005494	NP_001005494	Q8NGE1	OR6C4_HUMAN	olfactory receptor, family 6, subfamily C,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AAATCAACCTGAACTCCAAGT	0.408													44	49	---	---	---	---	PASS	A	55945068	A	A	55945068	3	1	4	1	0	0	0	0	1	0	0	0	11193	1291	45	2	60	2	OR6C4	12	55945068	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	81638	55945068	77906827	2470	3061										
RDH5	5959	broad.mit.edu	37	chr12	56118299	56118299	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgctgtgctcacctgggtCcttcccaagcctgcccaagc	10	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:56118299C>T	uc001shk.2	+	5	1110	c.927C>T	c.(925-927)GTC>GTT	p.V309V	RDH5_uc001shl.2_Silent_p.V309V	NM_002905	NP_002896	Q92781	RDH1_HUMAN	retinol dehydrogenase 5 (11-cis and 9-cis)	309					response to stimulus|visual perception	membrane	binding|retinol dehydrogenase activity			ovary(1)	1					NADH(DB00157)|Vitamin A(DB00162)	TCACCTGGGTCCTTCCCAAGC	0.577											OREG0021908	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	32	---	---	---	---	PASS	T	56118299	T	T	56118299	2	4	4	1	0	0	0	0	0	0	0	1	13195	842	30	2		2	RDH5	12	56118299	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	173231	56118299	77733596	2471	3062										
DGKA	1606	broad.mit.edu	37	chr12	56346688	56346688	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagctaaagtcatcaccgaCcctgatatcctgaaaacctg	6	13	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:56346688C>T	uc001sij.2	+	21	2178	c.1914C>T	c.(1912-1914)GAC>GAT	p.D638D	DGKA_uc009zod.1_Silent_p.D557D|DGKA_uc001sik.2_Silent_p.D638D|DGKA_uc001sil.2_Silent_p.D638D|DGKA_uc001sim.2_Silent_p.D638D|DGKA_uc001sin.2_Silent_p.D638D|DGKA_uc009zof.2_Silent_p.D284D|DGKA_uc001sio.2_Silent_p.D380D	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	638					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	TCATCACCGACCCTGATATCC	0.552													18	71	---	---	---	---	PASS	T	56346688	T	T	56346688	2	4	4	1	0	0	0	0	0	0	0	1	4465	506	18	3		3	DGKA	12	56346688	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	228389	56346688	77505207	2472	3063										
PAN2	9924	broad.mit.edu	37	chr12	56718474	56718474	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgaattagacagcgtacaGgctccaggaaatagagcacc	10	9	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:56718474G>A	uc001skx.2	-	11	1992	c.1619C>T	c.(1618-1620)CCT>CTT	p.P540L	PAN2_uc001skw.2_5'Flank|PAN2_uc001skz.2_Missense_Mutation_p.P540L|PAN2_uc001sky.2_Missense_Mutation_p.P540L	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	540					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						ACAGCGTACAGGCTCCAGGAA	0.507													3	34	---	---	---	---	PASS	A	56718474	A	A	56718474	3	1	4	1	0	0	0	0	1	0	0	0	11414	1000	35	3	2053	3	PAN2	12	56718474	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	371786	56718474	77133421	2473	3064										
STAT2	6773	broad.mit.edu	37	chr12	56742562	56742563	+	Frame_Shift_Ins	INS	-	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagtcagcccaggacaataaINStggatcctcagtcctacagt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:56742562_56742563insT	uc001slc.2	-	18	1680_1681	c.1602_1603insA	c.(1600-1605)CCATTAfs	p.P534fs	STAT2_uc001slb.2_Frame_Shift_Ins_p.P76fs|STAT2_uc001sld.2_Frame_Shift_Ins_p.P530fs	NM_005419	NP_005410	P52630	STAT2_HUMAN	signal transducer and activator of transcription	534_535					interspecies interaction between organisms|JAK-STAT cascade|regulation of transcription from RNA polymerase II promoter|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	cytosol|nucleoplasm|plasma membrane	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						CAGGACAATAATGGATCCTCAG	0.53													24	16	---	---	---	---		T	56742563	T	T	56742562	7	5	4	1	0	1	1	0	0	0	0	0	15264	98	4	0	980	0	STAT2	12	56742562	Frame_Shift_Ins	INS	-	TCGA-18-3409-01A-01D-0983-08	24088	56742562	77109333	2474	3065										
APOF	319	broad.mit.edu	37	chr12	56755840	56755840	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctgggattccaaggacaaGggaaagtgcatcaagacatt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:56755840G>A	uc001sle.1	-	2	204	c.150C>T	c.(148-150)CCC>CCT	p.P50P		NM_001638	NP_001629	Q13790	APOF_HUMAN	apolipoprotein F precursor	50					cholesterol metabolic process	high-density lipoprotein particle|low-density lipoprotein particle	cholesterol binding|lipid transporter activity|receptor binding				0						CCAAGGACAAGGGAAAGTGCA	0.517													12	94	---	---	---	---	PASS	A	56755840	A	A	56755840	2	1	4	1	0	0	0	0	0	0	0	1	803	987	35	3		3	APOF	12	56755840	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	13278	56755840	77096055	2475	3066	110	2								
APOF	319	broad.mit.edu	37	chr12	56755841	56755841	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgggattccaaggacaagGgaaagtgcatcaagacattt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:56755841G>A	uc001sle.1	-	2	203	c.149C>T	c.(148-150)CCC>CTC	p.P50L		NM_001638	NP_001629	Q13790	APOF_HUMAN	apolipoprotein F precursor	50					cholesterol metabolic process	high-density lipoprotein particle|low-density lipoprotein particle	cholesterol binding|lipid transporter activity|receptor binding				0						CAAGGACAAGGGAAAGTGCAT	0.522													12	95	---	---	---	---	PASS	A	56755841	A	A	56755841	3	1	4	1	0	0	0	0	1	0	0	0	803	1232	43	3	835	3	APOF	12	56755841	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	56755841	77096054	2476	3067	110	2								
BAZ2A	11176	broad.mit.edu	37	chr12	57000518	57000518	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcctcctcattcaatgtttCtgtgagagcagaaagaaaaa	7	8	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:57000518C>T	uc001slq.1	-	11	2293	c.2099_splice	c.e11-1	p.E700_splice	BAZ2A_uc001slp.1_Splice_Site_p.E698_splice|BAZ2A_uc009zow.1_Splice_Site_p.E668_splice	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A						chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						TTCAATGTTTCTGTGAGAGCA	0.478													79	77	---	---	---	---	PASS	T	57000518	T	T	57000518	5	4	4	1	0	0	0	0	0	0	1	0	1331	927	32	2	3695	2	BAZ2A	12	57000518	Splice_Site	SNP	C	TCGA-18-3409-01A-01D-0983-08	244677	57000518	76851377	2477	3068										
BAZ2A	11176	broad.mit.edu	37	chr12	57005682	57005682	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagctgctggggaagttacgGgagaggcttttggggatgtc	18	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:57005682G>A	uc001slq.1	-	6	1684	c.1490C>T	c.(1489-1491)CCC>CTC	p.P497L	BAZ2A_uc001slp.1_Missense_Mutation_p.P495L|BAZ2A_uc009zow.1_Missense_Mutation_p.P465L	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	497					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						GGAAGTTACGGGAGAGGCTTT	0.542													3	19	---	---	---	---	PASS	A	57005682	A	A	57005682	3	1	4	1	0	0	0	0	1	0	0	0	1331	1232	43	3	4323	3	BAZ2A	12	57005682	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5164	57005682	76846213	2478	3069										
MYO1A	4640	broad.mit.edu	37	chr12	57423021	57423021	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgctgaccagcaggaagtccCccttggagcccaccgatgac	11	16	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:57423021C>T	uc001smw.3	-	27	3143	c.2900G>A	c.(2899-2901)GGG>GAG	p.G967E	MYO1A_uc010sqz.1_Missense_Mutation_p.G805E|MYO1A_uc009zpd.2_Missense_Mutation_p.G967E	NM_005379	NP_005370	Q9UBC5	MYO1A_HUMAN	myosin IA	967					sensory perception of sound|vesicle localization	brush border|cortical actin cytoskeleton|filamentous actin|lateral plasma membrane|microvillus|myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|urinary_tract(1)	7						CAGGAAGTCCCCCTTGGAGCC	0.527													26	26	---	---	---	---	PASS	T	57423021	T	T	57423021	3	4	4	1	0	0	0	0	1	0	0	0	10068	623	22	3	239	3	MYO1A	12	57423021	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	417339	57423021	76428874	2479	3070										
MYO1A	4640	broad.mit.edu	37	chr12	57440417	57440417	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgagctgcttcactaatcGggatttctcaagcagatctg	9	9	3	2	rs146269737		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:57440417G>A	uc001smw.3	-	8	802	c.559C>T	c.(559-561)CGA>TGA	p.R187*	MYO1A_uc010sqz.1_Nonsense_Mutation_p.R25*|MYO1A_uc009zpd.2_Nonsense_Mutation_p.R187*	NM_005379	NP_005370	Q9UBC5	MYO1A_HUMAN	myosin IA	187	Myosin head-like.				sensory perception of sound|vesicle localization	brush border|cortical actin cytoskeleton|filamentous actin|lateral plasma membrane|microvillus|myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|urinary_tract(1)	7						TTCACTAATCGGGATTTCTCA	0.502													33	36	---	---	---	---	PASS	A	57440417	A	A	57440417	4	1	4	1	0	0	0	0	0	1	0	0	10068	1124	39	1	2656	1	MYO1A	12	57440417	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	17396	57440417	76411478	2480	3071										
STAC3	246329	broad.mit.edu	37	chr12	57638117	57638117	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccgccaccattcttcattgGagtcatcaatgactgtgatc	7	13	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:57638117G>A	uc001snp.2	-	10	1034	c.839C>T	c.(838-840)TCC>TTC	p.S280F	STAC3_uc009zpl.2_5'UTR|STAC3_uc001snq.2_Missense_Mutation_p.S241F|STAC3_uc010srm.1_Missense_Mutation_p.S94F	NM_145064	NP_659501	Q96MF2	STAC3_HUMAN	SH3 and cysteine rich domain 3	280	SH3 1.				intracellular signal transduction		identical protein binding|metal ion binding			ovary(2)|skin(1)	3						TTCTTCATTGGAGTCATCAAT	0.567											OREG0021942	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	24	---	---	---	---	PASS	A	57638117	A	A	57638117	3	1	4	1	0	0	0	0	1	0	0	0	15240	1174	41	2	267	2	STAC3	12	57638117	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	197700	57638117	76213778	2481	3072										
ARHGAP9	64333	broad.mit.edu	37	chr12	57873026	57873026	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accagtcggagttggtctttCgaagcagtaggaacctatcc	11	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:57873026C>T	uc001sod.2	-	5	570	c.377G>A	c.(376-378)CGA>CAA	p.R126Q	ARHGAP9_uc001snz.2_5'Flank|ARHGAP9_uc001soa.2_5'Flank|ARHGAP9_uc001sob.2_Missense_Mutation_p.R55Q|ARHGAP9_uc001soc.2_Missense_Mutation_p.R55Q|ARHGAP9_uc001soe.1_Missense_Mutation_p.R134Q|ARHGAP9_uc010sro.1_Missense_Mutation_p.R55Q	NM_032496	NP_115885	Q9BRR9	RHG09_HUMAN	Rho GTPase activating protein 9 isoform 1	55	SH3.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			lung(1)	1			GBM - Glioblastoma multiforme(3;3.37e-34)			GTTGGTCTTTCGAAGCAGTAG	0.557													10	47	---	---	---	---	PASS	T	57873026	T	T	57873026	3	4	4	1	0	0	0	0	1	0	0	0	889	884	31	2	2099	2	ARHGAP9	12	57873026	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	234909	57873026	75978869	2482	3073										
GEFT	115557	broad.mit.edu	37	chr12	58010570	58010570	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgaatcttttcttcaggccCttggtgacatcccccaggct	8	13	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:58010570C>T	uc001spb.2	+	15	2096	c.1636C>T	c.(1636-1638)CTT>TTT	p.L546F	GEFT_uc009zpy.2_Missense_Mutation_p.L585F|GEFT_uc001spa.2_Missense_Mutation_p.L440F|uc001spc.2_Intron|GEFT_uc001spd.2_Missense_Mutation_p.L251F	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	546					regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					TCTTCAGGCCCTTGGTGACAT	0.507													53	74	---	---	---	---	PASS	T	58010570	T	T	58010570	3	4	4	1	0	0	0	0	1	0	0	0	6328	681	24	3	1916	3	GEFT	12	58010570	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	137544	58010570	75841325	2483	3074										
OS9	10956	broad.mit.edu	37	chr12	58112049	58112049	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatggaagaagaggaggatGaggatgaggatgaggatgaa	19	0	0	7			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:58112049G>A	uc001spj.2	+	11	1314	c.1255G>A	c.(1255-1257)GAG>AAG	p.E419K	OS9_uc010srx.1_Missense_Mutation_p.E213K|OS9_uc001spk.2_Missense_Mutation_p.E419K|OS9_uc001spl.2_Missense_Mutation_p.E419K|OS9_uc001spm.2_Missense_Mutation_p.E419K|OS9_uc001spn.2_Missense_Mutation_p.E420K|OS9_uc010sry.1_Missense_Mutation_p.E387K|OS9_uc010srz.1_Missense_Mutation_p.E360K	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	419	Asp/Glu-rich (acidic).				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)			agaggaggatgaggatgagga	0.398													5	34	---	---	---	---	PASS	A	58112049	A	A	58112049	3	1	4	1	0	0	0	0	1	0	0	0	11272	1291	45	2	1297	2	OS9	12	58112049	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	101479	58112049	75739846	2484	3075										
AGAP2	116986	broad.mit.edu	37	chr12	58125160	58125160	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccactcacgttaatactggGgtggtagagtagaaagccat	12	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:58125160G>A	uc001spq.2	-	10	2134	c.2134C>T	c.(2134-2136)CCC>TCC	p.P712S	AGAP2_uc001spp.2_Missense_Mutation_p.P712S|AGAP2_uc001spr.2_Missense_Mutation_p.P376S	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	712	PH.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						TTAATACTGGGGTGGTAGAGT	0.453													24	41	---	---	---	---	PASS	A	58125160	A	A	58125160	3	1	4	1	0	0	0	0	1	0	0	0	368	1232	43	3	1484	3	AGAP2	12	58125160	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	13111	58125160	75726735	2485	3076										
LRIG3	121227	broad.mit.edu	37	chr12	59274433	59274433	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagatgacacactgatatttCccctcactggcaaattccac	6	13	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:59274433C>A	uc001sqr.2	-	13	1977	c.1731G>T	c.(1729-1731)GGG>GGT	p.G577G	LRIG3_uc009zqh.2_Silent_p.G517G|LRIG3_uc010ssh.1_RNA	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like	577	Ig-like C2-type 1.					integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			ACTGATATTTCCCCTCACTGG	0.463													7	41	---	---	---	---	PASS	A	59274433	A	A	59274433	2	1	4	1	0	0	0	0	0	0	0	1	8946	842	30	2		2	LRIG3	12	59274433	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1149273	59274433	74577462	2486	3077										
SLC16A7	9194	broad.mit.edu	37	chr12	60168610	60168610	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttggctggaaaggaagcttCctgattttgggaagtctact	12	6	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:60168610C>T	uc001sqs.2	+	5	833	c.534C>T	c.(532-534)TTC>TTT	p.F178F	SLC16A7_uc001sqt.2_Silent_p.F178F|SLC16A7_uc001squ.2_Silent_p.F178F|SLC16A7_uc009zqi.2_Silent_p.F79F|SLC16A7_uc010ssi.1_Silent_p.F79F	NM_004731	NP_004722	O60669	MOT2_HUMAN	solute carrier family 16, member 7	178	Helical; (Potential).					integral to plasma membrane|membrane fraction	pyruvate secondary active transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(3;0.0303)	Pyruvic acid(DB00119)	AAGGAAGCTTCCTGATTTTGG	0.428													8	13	---	---	---	---	PASS	T	60168610	T	T	60168610	2	4	4	1	0	0	0	0	0	0	0	1	14413	854	30	2		2	SLC16A7	12	60168610	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	894177	60168610	73683285	2487	3078										
SRGAP1	57522	broad.mit.edu	37	chr12	64377732	64377732	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttctctccttagaaattCgagctcaactggtagaacaa	6	11	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:64377732C>T	uc010ssp.1	+	2	129	c.73C>T	c.(73-75)CGA>TGA	p.R25*	SRGAP1_uc001srt.2_Nonsense_Mutation_p.R25*|SRGAP1_uc001srv.2_5'UTR	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	25	FCH.				axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		CTTAGAAATTCGAGCTCAACT	0.383													12	47	---	---	---	---	PASS	T	64377732	T	T	64377732	4	4	4	1	0	0	0	0	0	1	0	0	15144	876	31	2	79	2	SRGAP1	12	64377732	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4209122	64377732	69474163	2488	3079										
XPOT	11260	broad.mit.edu	37	chr12	64814175	64814175	+	Silent	SNP	A	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catatgtcaatagaagttctAcgggaagaagcatgtgactg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:64814175A>T	uc001ssb.2	+	8	1143	c.717A>T	c.(715-717)CTA>CTT	p.L239L	XPOT_uc009zqm.1_Silent_p.L149L	NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	239	Necessary for interaction with Ran, nuclear localization and nuclear import.				intracellular protein transport|tRNA export from nucleus	cytoplasm|nucleoplasm	protein transporter activity|tRNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(28;0.0404)		TAGAAGTTCTACGGGAAGAAG	0.323													13	30	---	---	---	---	PASS	T	64814175	T	T	64814175	2	4	4	1	0	0	0	0	0	0	0	1	17447	378	14	5		5	XPOT	12	64814175	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	436443	64814175	69037720	2489	3080	111	2								
XPOT	11260	broad.mit.edu	37	chr12	64814176	64814176	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atatgtcaatagaagttctaCgggaagaagcatgtgactgt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:64814176C>T	uc001ssb.2	+	8	1144	c.718C>T	c.(718-720)CGG>TGG	p.R240W	XPOT_uc009zqm.1_Missense_Mutation_p.R150W	NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	240	Necessary for interaction with Ran, nuclear localization and nuclear import.				intracellular protein transport|tRNA export from nucleus	cytoplasm|nucleoplasm	protein transporter activity|tRNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(28;0.0404)		AGAAGTTCTACGGGAAGAAGC	0.328													13	30	---	---	---	---	PASS	T	64814176	T	T	64814176	3	4	4	1	0	0	0	0	1	0	0	0	17447	527	19	1	744	1	XPOT	12	64814176	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	64814176	69037719	2490	3081	111	2								
HELB	92797	broad.mit.edu	37	chr12	66700216	66700216	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgacactttaaatggatcatAgggtcaggttctaaagagat	10	6	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:66700216A>G	uc001sti.2	+	3	727	c.699A>G	c.(697-699)ATA>ATG	p.I233M	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	233					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		AATGGATCATAGGGTCAGGTT	0.368													6	47	---	---	---	---	PASS	G	66700216	G	G	66700216	3	3	4	1	0	0	0	0	1	0	0	0	7045	410	15	5	709	5	HELB	12	66700216	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	1886040	66700216	67151679	2491	3082										
GRIP1	23426	broad.mit.edu	37	chr12	66771034	66771034	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagaagttctcctcttgttCtgtctctgcactatcggcag	8	13	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:66771034C>T	uc001stk.2	-	20	2738	c.2497G>A	c.(2497-2499)GAA>AAA	p.E833K	GRIP1_uc010sta.1_Missense_Mutation_p.E777K|GRIP1_uc001stj.2_Missense_Mutation_p.E615K|GRIP1_uc001stl.1_Missense_Mutation_p.E725K|GRIP1_uc001stm.2_Missense_Mutation_p.E833K	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	885					androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		TCCTCTTGTTCTGTCTCTGCA	0.448													62	84	---	---	---	---	PASS	T	66771034	T	T	66771034	3	4	4	1	0	0	0	0	1	0	0	0	6787	922	32	2	753	2	GRIP1	12	66771034	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	70818	66771034	67080861	2492	3083										
IL22	50616	broad.mit.edu	37	chr12	68646567	68646567	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gactccgtggaacagtttctCcccaatgagacgaacgtctg	10	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:68646567C>T	uc001sty.1	-	2	282	c.229G>A	c.(229-231)GAG>AAG	p.E77K	IL22_uc010stb.1_Missense_Mutation_p.E77K	NM_020525	NP_065386	Q9GZX6	IL22_HUMAN	interleukin 22 precursor	77					acute-phase response	extracellular space	cytokine activity|interleukin-22 receptor binding				0		Myeloproliferative disorder(1001;0.0255)	Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;5.06e-05)|BRCA - Breast invasive adenocarcinoma(357;0.00104)		AACAGTTTCTCCCCAATGAGA	0.468													27	34	---	---	---	---	PASS	T	68646567	T	T	68646567	3	4	4	1	0	0	0	0	1	0	0	0	7672	864	30	2	326	2	IL22	12	68646567	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1875533	68646567	65205328	2493	3084										
PTPRB	5787	broad.mit.edu	37	chr12	70946555	70946555	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaacagtggtaatatatctaAcctgtaggcagtgtgtggct	11	6	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:70946555A>G	uc001swb.3	-	19	4763	c.4733_splice	c.e19+1	p.R1578_splice	PTPRB_uc010sto.1_Splice_Site_p.R1488_splice|PTPRB_uc010stp.1_Splice_Site_p.R1488_splice|PTPRB_uc001swc.3_Splice_Site_p.R1796_splice|PTPRB_uc001swa.3_Splice_Site_p.R1708_splice	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B						angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			AATATATCTAACCTGTAGGCA	0.448													18	20	---	---	---	---	PASS	G	70946555	G	G	70946555	5	3	4	1	0	0	0	0	0	0	1	0	12796	57	2	5	1314	5	PTPRB	12	70946555	Splice_Site	SNP	A	TCGA-18-3409-01A-01D-0983-08	2299988	70946555	62905340	2494	3085										
PTPRB	5787	broad.mit.edu	37	chr12	70954712	70954712	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagatgactcacagaggctgGgacttaaacagaagaaaaat	11	6	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:70954712G>A	uc001swb.3	-	15	3547	c.3517C>T	c.(3517-3519)CCA>TCA	p.P1173S	PTPRB_uc010sto.1_Missense_Mutation_p.P1083S|PTPRB_uc010stp.1_Missense_Mutation_p.P1083S|PTPRB_uc001swc.3_Missense_Mutation_p.P1391S|PTPRB_uc001swa.3_Missense_Mutation_p.P1303S|PTPRB_uc001swd.3_Missense_Mutation_p.P1390S|PTPRB_uc009zrr.1_Missense_Mutation_p.P1270S	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1173	Fibronectin type-III 14.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			ACAGAGGCTGGGACTTAAACA	0.473													24	116	---	---	---	---	PASS	A	70954712	A	A	70954712	3	1	4	1	0	0	0	0	1	0	0	0	12796	1232	43	3	2548	3	PTPRB	12	70954712	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	8157	70954712	62897183	2495	3086										
PTPRB	5787	broad.mit.edu	37	chr12	70981045	70981045	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagctggaggacagccagggGgactgaggaaaaagcaatgg	17	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:70981045G>A	uc001swb.3	-	7	1429	c.1399C>T	c.(1399-1401)CCC>TCC	p.P467S	PTPRB_uc010sto.1_Missense_Mutation_p.P467S|PTPRB_uc010stp.1_Missense_Mutation_p.P377S|PTPRB_uc001swc.3_Missense_Mutation_p.P685S|PTPRB_uc001swa.3_Missense_Mutation_p.P685S|PTPRB_uc001swd.3_Missense_Mutation_p.P684S|PTPRB_uc009zrr.1_Missense_Mutation_p.P564S	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	467	Fibronectin type-III 6.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			ACAGCCAGGGGGACTGAGGAA	0.458													6	32	---	---	---	---	PASS	A	70981045	A	A	70981045	3	1	4	1	0	0	0	0	1	0	0	0	12796	1232	43	3	4698	3	PTPRB	12	70981045	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	26333	70981045	62870850	2496	3087										
PTPRR	5801	broad.mit.edu	37	chr12	71095095	71095095	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaatgtaagagatacgttgGaccctcttctacattggaga	9	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:71095095G>A	uc001swi.1	-	7	1432	c.1016C>T	c.(1015-1017)TCC>TTC	p.S339F	PTPRR_uc001swh.1_Missense_Mutation_p.S94F|PTPRR_uc009zrs.2_Missense_Mutation_p.S188F|PTPRR_uc010stq.1_Missense_Mutation_p.S227F|PTPRR_uc010str.1_Missense_Mutation_p.S188F	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	339	Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		AGATACGTTGGACCCTCTTCT	0.403													7	35	---	---	---	---	PASS	A	71095095	A	A	71095095	3	1	4	1	0	0	0	0	1	0	0	0	12810	1174	41	2	989	2	PTPRR	12	71095095	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	114050	71095095	62756800	2497	3088										
PTPRR	5801	broad.mit.edu	37	chr12	71148030	71148030	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatgacaacagcataaaatcCttctttgctccagattttgt	5	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:71148030C>T	uc001swi.1	-	5	1095	c.679G>A	c.(679-681)GGA>AGA	p.G227R	PTPRR_uc001swh.1_5'UTR|PTPRR_uc009zrs.2_Missense_Mutation_p.G76R|PTPRR_uc010stq.1_Missense_Mutation_p.G115R|PTPRR_uc010str.1_Missense_Mutation_p.G76R	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	227	Extracellular (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		GCATAAAATCCTTCTTTGCTC	0.353													9	14	---	---	---	---	PASS	T	71148030	T	T	71148030	3	4	4	1	0	0	0	0	1	0	0	0	12810	690	24	3	1334	3	PTPRR	12	71148030	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	52935	71148030	62703865	2498	3089										
LGR5	8549	broad.mit.edu	37	chr12	71977894	71977894	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggccgcagttcccctgctgGgtggcagcaagtatggcgcc	15	13	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:71977894G>A	uc001swl.2	+	18	2152	c.2104G>A	c.(2104-2106)GGT>AGT	p.G702S	LGR5_uc001swm.2_Missense_Mutation_p.G678S|LGR5_uc001swn.1_Intron	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	702	Helical; Name=4; (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						TCCCCTGCTGGGTGGCAGCAA	0.537													17	89	---	---	---	---	PASS	A	71977894	A	A	71977894	3	1	4	1	0	0	0	0	1	0	0	0	8757	1232	43	3	2174	3	LGR5	12	71977894	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	829864	71977894	61874001	2499	3090										
THAP2	83591	broad.mit.edu	37	chr12	72070878	72070878	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctaaaacagaccaagagtaCcttcatttaaatttagcttg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:72070878C>T	uc001swq.2	+	3	1183	c.677C>T	c.(676-678)ACC>ATC	p.T226I		NM_031435	NP_113623	Q9H0W7	THAP2_HUMAN	THAP domain containing, apoptosis associated	226						nucleolus	DNA binding|metal ion binding			ovary(1)	1						ACCAAGAGTACCTTCATTTAA	0.328													7	29	---	---	---	---	PASS	T	72070878	T	T	72070878	3	4	4	1	0	0	0	0	1	0	0	0	15841	507	18	3	687	3	THAP2	12	72070878	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	92984	72070878	61781017	2500	3091	112	2								
THAP2	83591	broad.mit.edu	37	chr12	72070879	72070879	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctaaaacagaccaagagtacCttcatttaaatttagcttgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:72070879C>T	uc001swq.2	+	3	1184	c.678C>T	c.(676-678)ACC>ACT	p.T226T		NM_031435	NP_113623	Q9H0W7	THAP2_HUMAN	THAP domain containing, apoptosis associated	226						nucleolus	DNA binding|metal ion binding			ovary(1)	1						CCAAGAGTACCTTCATTTAAA	0.328													7	29	---	---	---	---	PASS	T	72070879	T	T	72070879	2	4	4	1	0	0	0	0	0	0	0	1	15841	668	24	3		3	THAP2	12	72070879	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	72070879	61781016	2501	3092	112	2								
TRHDE	29953	broad.mit.edu	37	chr12	73056884	73056884	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctgctgcttctttctcacGagctgtggaaactgtcgaag	11	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:73056884G>A	uc001sxa.2	+	19	3014	c.2984G>A	c.(2983-2985)CGA>CAA	p.R995Q		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	995	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TCTTTCTCACGAGCTGTGGAA	0.388													15	35	---	---	---	---	PASS	A	73056884	A	A	73056884	3	1	4	1	0	0	0	0	1	0	0	0	16476	1058	37	2	3058	2	TRHDE	12	73056884	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	986005	73056884	60795011	2502	3093										
OSBPL8	114882	broad.mit.edu	37	chr12	76763451	76763451	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgccattctcctgtgagtgGatcaagttcaaataatttgc	8	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:76763451G>A	uc001sye.1	-	20	2686	c.2206C>T	c.(2206-2208)CCA>TCA	p.P736S	OSBPL8_uc001syf.1_Missense_Mutation_p.P694S|OSBPL8_uc001syg.1_Missense_Mutation_p.P694S|OSBPL8_uc001syh.1_Missense_Mutation_p.P711S	NM_020841	NP_065892	Q9BZF1	OSBL8_HUMAN	oxysterol-binding protein-like protein 8 isoform	736					lipid transport		lipid binding			ovary(1)	1						CCTGTGAGTGGATCAAGTTCA	0.353													6	45	---	---	---	---	PASS	A	76763451	A	A	76763451	3	1	4	1	0	0	0	0	1	0	0	0	11283	1174	41	2	483	2	OSBPL8	12	76763451	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3706567	76763451	57088444	2503	3094										
MYF5	4617	broad.mit.edu	37	chr12	81111227	81111227	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatcctcaggaatgccatcCgctacatcgagagcctgcag	10	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:81111227C>T	uc001szg.2	+	1	520	c.385C>T	c.(385-387)CGC>TGC	p.R129C		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	129	Helix-loop-helix motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GAATGCCATCCGCTACATCGA	0.587													41	53	---	---	---	---	PASS	T	81111227	T	T	81111227	3	4	4	1	0	0	0	0	1	0	0	0	10027	652	23	1	387	1	MYF5	12	81111227	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4347776	81111227	52740668	2504	3095										
ACSS3	79611	broad.mit.edu	37	chr12	81528754	81528754	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttggaggatttgcttccaaaGaactaagtagtcgcattgat	10	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:81528754G>A	uc001szl.1	+	3	707	c.616G>A	c.(616-618)GAA>AAA	p.E206K	ACSS3_uc001szm.1_Missense_Mutation_p.E205K	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	206						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TGCTTCCAAAGAACTAAGTAG	0.383													16	20	---	---	---	---	PASS	A	81528754	A	A	81528754	3	1	4	1	0	0	0	0	1	0	0	0	190	943	33	2	626	2	ACSS3	12	81528754	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	417527	81528754	52323141	2505	3096										
PPFIA2	8499	broad.mit.edu	37	chr12	81741342	81741342	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcccatccgatccatttcCctggcagggcttcgaggggt	11	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:81741342C>T	uc001szo.1	-	18	2363	c.2202G>A	c.(2200-2202)AGG>AGA	p.R734R	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_Intron	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	660										ovary(3)|lung(2)|pancreas(1)	6						GATCCATTTCCCTGGCAGGGC	0.473													11	93	---	---	---	---	PASS	T	81741342	T	T	81741342	2	4	4	1	0	0	0	0	0	0	0	1	12310	622	22	3		3	PPFIA2	12	81741342	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	212588	81741342	52110553	2506	3097										
PPFIA2	8499	broad.mit.edu	37	chr12	81741515	81741515	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attttcaatttcttcagcacGcaactctgtagattcttttt	4	9	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:81741515G>A	uc001szo.1	-	18	2190	c.2029C>T	c.(2029-2031)CGT>TGT	p.R677C	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	603										ovary(3)|lung(2)|pancreas(1)	6						TCTTCAGCACGCAACTCTGTA	0.398													27	27	---	---	---	---	PASS	A	81741515	A	A	81741515	3	1	4	1	0	0	0	0	1	0	0	0	12310	1087	38	1	1804	1	PPFIA2	12	81741515	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	173	81741515	52110380	2507	3098										
ALX1	8092	broad.mit.edu	37	chr12	85695207	85695207	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttccagtatcgcagttcttcGaatgaaagccaaggagcaca	9	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:85695207G>A	uc001tae.3	+	4	939	c.935G>A	c.(934-936)CGA>CAA	p.R312Q		NM_006982	NP_008913	Q15699	ALX1_HUMAN	cartilage paired-class homeoprotein 1	312	OAR.				brain development|cartilage condensation|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(134;0.134)		GCAGTTCTTCGAATGAAAGCC	0.378													30	32	---	---	---	---	PASS	A	85695207	A	A	85695207	3	1	4	1	0	0	0	0	1	0	0	0	556	1058	37	2	949	2	ALX1	12	85695207	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3953692	85695207	48156688	2508	3099										
CEP290	80184	broad.mit.edu	37	chr12	88512511	88512511	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttaaatcaatcattgtctttGgttcaaggcctacaatagaa	6	7	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:88512511G>A	uc001tar.2	-	16	1876	c.1532C>T	c.(1531-1533)CCA>CTA	p.P511L	CEP290_uc001tat.2_Missense_Mutation_p.P273L|CEP290_uc009zsl.1_RNA	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	511	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						CATTGTCTTTGGTTCAAGGCC	0.313													21	22	---	---	---	---	PASS	A	88512511	A	A	88512511	3	1	4	1	0	0	0	0	1	0	0	0	3253	1348	47	3	6063	3	CEP290	12	88512511	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2817304	88512511	45339384	2509	3100										
C12orf74	338809	broad.mit.edu	37	chr12	93100563	93100563	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccacctcgcccactttgagGagattaaggacccgtggctg	11	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:93100563G>A	uc001tch.1	+	2	386	c.156G>A	c.(154-156)AGG>AGA	p.R52R	C12orf74_uc001tci.2_Silent_p.R52R	NM_001037671	NP_001032760	Q32Q52	CL074_HUMAN	hypothetical protein LOC338809	52											0						CCACTTTGAGGAGATTAAGGA	0.627													19	16	---	---	---	---	PASS	A	93100563	A	A	93100563	2	1	4	1	0	0	0	0	0	0	0	1	1714	1165	41	2		2	C12orf74	12	93100563	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4588052	93100563	40751332	2510	3101										
PLEKHG7	440107	broad.mit.edu	37	chr12	93147976	93147976	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaagaatatctggaaaagGagcatggactctgctgagaa	12	6	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:93147976G>A	uc001tcj.2	+	6	656	c.426G>A	c.(424-426)AGG>AGA	p.R142R		NM_001004330	NP_001004330	Q6ZR37	PKHG7_HUMAN	pleckstrin homology domain containing, family G	142	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1						TCTGGAAAAGGAGCATGGACT	0.463													21	30	---	---	---	---	PASS	A	93147976	A	A	93147976	2	1	4	1	0	0	0	0	0	0	0	1	12075	1165	41	2		2	PLEKHG7	12	93147976	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	47413	93147976	40703919	2511	3102										
CCDC41	51134	broad.mit.edu	37	chr12	94806173	94806173	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcatcaattaacattttctGgaactccgactgagaacctg	6	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:94806173G>T	uc001tdd.2	-	3	680	c.94C>A	c.(94-96)CAG>AAG	p.Q32K	CCDC41_uc001tde.2_Missense_Mutation_p.Q32K|CCDC41_uc009zsw.1_RNA|CCDC41_uc001tdf.2_Missense_Mutation_p.Q32K	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen	24											0						AACATTTTCTGGAACTCCGAC	0.378													5	62	---	---	---	---	PASS	T	94806173	T	T	94806173	3	4	4	1	0	0	0	0	1	0	0	0	2813	1357	47	3	2071	3	CCDC41	12	94806173	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1658197	94806173	39045722	2512	3103										
C12orf63	374467	broad.mit.edu	37	chr12	97102582	97102582	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaacctaccaaacttggaagGtaattgttttattttttgct	6	6	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:97102582G>A	uc001tet.1	+	15	2077	c.1999_splice	c.e15+1	p.E667_splice		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467											skin(6)|ovary(1)	7						AACTTGGAAGGTAATTGTTTT	0.348													4	24	---	---	---	---	PASS	A	97102582	A	A	97102582	5	1	4	1	0	0	0	0	0	0	1	0	1706	1275	44	3	2054	3	C12orf63	12	97102582	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	2296409	97102582	36749313	2513	3104										
ANKS1B	56899	broad.mit.edu	37	chr12	99446974	99446974	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagatttttttcaacaggtcCatcgaagtgtagccattaat	7	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:99446974C>T	uc001tge.1	-	17	3156	c.2739G>A	c.(2737-2739)ATG>ATA	p.M913I	ANKS1B_uc001tgf.1_Missense_Mutation_p.M489I|ANKS1B_uc001tgk.2_Missense_Mutation_p.M210I|ANKS1B_uc001tgd.1_Missense_Mutation_p.M139I|ANKS1B_uc001tgi.2_Missense_Mutation_p.M139I|ANKS1B_uc009ztr.2_Missense_Mutation_p.M139I|ANKS1B_uc001tgj.2_Missense_Mutation_p.M139I|ANKS1B_uc001tgg.3_Missense_Mutation_p.M82I|ANKS1B_uc010svg.1_Missense_Mutation_p.M108I|ANKS1B_uc009zts.1_Missense_Mutation_p.M139I|ANKS1B_uc001tgm.1_Missense_Mutation_p.M139I	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	913	SAM 2.					Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		TCAACAGGTCCATCGAAGTGT	0.403													7	8	---	---	---	---	PASS	T	99446974	T	T	99446974	3	4	4	1	0	0	0	0	1	0	0	0	689	594	21	3	1238	3	ANKS1B	12	99446974	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2344392	99446974	34404921	2514	3105										
FAM71C	196472	broad.mit.edu	37	chr12	100042451	100042451	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagacctttttgttcactggGaaaaccttgtttacatcctg	7	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:100042451G>A	uc001tgn.2	+	1	921	c.499G>A	c.(499-501)GAA>AAA	p.E167K	ANKS1B_uc001tge.1_Intron|ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Intron	NM_153364	NP_699195	Q8NEG0	FA71C_HUMAN	hypothetical protein LOC196472	167											0				OV - Ovarian serous cystadenocarcinoma(2;0.00733)|Epithelial(2;0.0385)|all cancers(2;0.19)		TGTTCACTGGGAAAACCTTGT	0.488													24	12	---	---	---	---	PASS	A	100042451	A	A	100042451	3	1	4	1	0	0	0	0	1	0	0	0	5609	1175	41	2	501	2	FAM71C	12	100042451	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	595477	100042451	33809444	2515	3106										
ACTR6	64431	broad.mit.edu	37	chr12	100603946	100603946	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attcctttacacatatagttCcttattgtagaagtaaaaag	5	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:100603946C>T	uc001thb.1	+	5	531	c.475C>T	c.(475-477)CCT>TCT	p.P159S	ACTR6_uc001thc.1_Missense_Mutation_p.P51S|ACTR6_uc001thd.1_Missense_Mutation_p.P159S|ACTR6_uc009ztu.1_Intron|ACTR6_uc001the.1_Missense_Mutation_p.P77S|ACTR6_uc001thf.1_Missense_Mutation_p.P77S|uc001thg.1_Intron	NM_022496	NP_071941	Q9GZN1	ARP6_HUMAN	ARP6 actin-related protein 6 homolog	159						cytoplasm|cytoskeleton				ovary(1)	1						ACATATAGTTCCTTATTGTAG	0.323													14	48	---	---	---	---	PASS	T	100603946	T	T	100603946	3	4	4	1	0	0	0	0	1	0	0	0	216	855	30	2	493	2	ACTR6	12	100603946	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	561495	100603946	33247949	2516	3107										
SLC17A8	246213	broad.mit.edu	37	chr12	100774480	100774480	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatcctttttcccatgtagaAaaatcgatgggacaactgag	8	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:100774480A>T	uc010svi.1	+	2	416	c.103A>T	c.(103-105)AAA>TAA	p.K35*	SLC17A8_uc009ztx.2_Nonsense_Mutation_p.K35*	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	35	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						CCCATGTAGAAAAATCGATGG	0.433													10	81	---	---	---	---	PASS	T	100774480	T	T	100774480	4	4	4	1	0	0	0	0	0	1	0	0	14423	28	1	5	109	5	SLC17A8	12	100774480	Nonsense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	170534	100774480	33077415	2517	3108										
GAS2L3	283431	broad.mit.edu	37	chr12	101018440	101018440	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgtccatcgtgagcctaccCcagtcttctaccaaaacaca	5	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:101018440C>T	uc001thu.2	+	10	2083	c.1857C>T	c.(1855-1857)CCC>CCT	p.P619P	GAS2L3_uc009zty.2_Silent_p.P619P|GAS2L3_uc001thv.2_Silent_p.P515P	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	619					cell cycle arrest					skin(1)	1						TGAGCCTACCCCAGTCTTCTA	0.517													6	35	---	---	---	---	PASS	T	101018440	T	T	101018440	2	4	4	1	0	0	0	0	0	0	0	1	6248	610	22	3		3	GAS2L3	12	101018440	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	243960	101018440	32833455	2518	3109										
SLC5A8	160728	broad.mit.edu	37	chr12	101603489	101603489	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcattctgcggccgcccatCaggaagtccttggaggtctg	13	12	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:101603489C>T	uc001thz.3	-	1	528	c.138G>A	c.(136-138)CTG>CTA	p.L46L		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	46	Cytoplasmic (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						GGCCGCCCATCAGGAAGTCCT	0.662													4	20	---	---	---	---	PASS	T	101603489	T	T	101603489	2	4	4	1	0	0	0	0	0	0	0	1	14671	813	29	2		2	SLC5A8	12	101603489	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	585049	101603489	32248406	2519	3110										
MYBPC1	4604	broad.mit.edu	37	chr12	102038442	102038442	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcttcttctattctatcagCttttgcaaaaattcttgatc	4	9	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:102038442C>T	uc001tii.2	+	10	860	c.758C>T	c.(757-759)GCT>GTT	p.A253V	MYBPC1_uc001tif.1_Missense_Mutation_p.A266V|MYBPC1_uc001tig.2_Missense_Mutation_p.A278V|MYBPC1_uc010svq.1_Missense_Mutation_p.A240V|MYBPC1_uc001tih.2_Missense_Mutation_p.A278V|MYBPC1_uc001tij.2_Missense_Mutation_p.A253V|MYBPC1_uc010svr.1_Missense_Mutation_p.A253V|MYBPC1_uc010svs.1_Missense_Mutation_p.A253V|MYBPC1_uc010svt.1_Missense_Mutation_p.A241V|MYBPC1_uc010svu.1_Missense_Mutation_p.A234V|MYBPC1_uc001tik.2_Missense_Mutation_p.A227V	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	253	Ig-like C2-type 2.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						ATTCTATCAGCTTTTGCAAAA	0.348													4	33	---	---	---	---	PASS	T	102038442	T	T	102038442	3	4	4	1	0	0	0	0	1	0	0	0	10011	811	28	3	879	3	MYBPC1	12	102038442	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	434953	102038442	31813453	2520	3111										
IGF1	3479	broad.mit.edu	37	chr12	102869442	102869442	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaataaaagcccctgtctcCacacacgaactgaagagcat	7	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:102869442C>T	uc001tjp.3	-	2	418	c.199G>A	c.(199-201)GGA>AGA	p.G67R	IGF1_uc001tjn.2_Missense_Mutation_p.G51R|IGF1_uc001tjm.2_Missense_Mutation_p.G67R|IGF1_uc001tjo.2_Missense_Mutation_p.G67R	NM_001111285	NP_001104755	P05019	IGF1_HUMAN	insulin-like growth factor 1 isoform 3	67	B.				anti-apoptosis|bone mineralization involved in bone maturation|cellular component movement|DNA replication|glycolate metabolic process|muscle hypertrophy|myoblast differentiation|myoblast proliferation|myotube cell development|negative regulation of smooth muscle cell apoptosis|phosphatidylinositol-mediated signaling|platelet activation|platelet degranulation|positive regulation of activated T cell proliferation|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis|positive regulation of osteoblast differentiation|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of Ras protein signal transduction|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tyrosine phosphorylation of Stat5 protein|Ras protein signal transduction|regulation of multicellular organism growth|satellite cell maintenance involved in skeletal muscle regeneration	platelet alpha granule lumen	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|integrin binding			central_nervous_system(1)|pancreas(1)	2						CCCCTGTCTCCACACACGAAC	0.562													14	45	---	---	---	---	PASS	T	102869442	T	T	102869442	3	4	4	1	0	0	0	0	1	0	0	0	7570	603	21	3	464	3	IGF1	12	102869442	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	831000	102869442	30982453	2521	3112										
STAB2	55576	broad.mit.edu	37	chr12	104063394	104063394	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttctcaaatccatgctcaGgaaatggacaggtgaatact	9	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:104063394G>A	uc001tjw.2	+	21	2434	c.2248G>A	c.(2248-2250)GGA>AGA	p.G750R		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	750	Extracellular (Potential).|EGF-like 6.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						TCCATGCTCAGGAAATGGACA	0.413													19	28	---	---	---	---	PASS	A	104063394	A	A	104063394	3	1	4	1	0	0	0	0	1	0	0	0	15237	1001	35	3	2330	3	STAB2	12	104063394	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1193952	104063394	29788501	2522	3113										
WSCD2	9671	broad.mit.edu	37	chr12	108589759	108589759	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgtctcggggaaccaggcGaaccccgctgctgcaggagg	16	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:108589759G>A	uc001tms.2	+	2	894	c.150G>A	c.(148-150)GCG>GCA	p.A50A	WSCD2_uc001tmt.2_Silent_p.A50A	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	50						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						GGAACCAGGCGAACCCCGCTG	0.607													17	76	---	---	---	---	PASS	A	108589759	A	A	108589759	2	1	4	1	0	0	0	0	0	0	0	1	17404	1045	37	2		2	WSCD2	12	108589759	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4526365	108589759	25262136	2523	3114										
TMEM119	338773	broad.mit.edu	37	chr12	108985911	108985911	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagtccactatcccatccagGaagttggtggggggtgatgg	15	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:108985911G>A	uc001tng.2	-	2	412	c.249C>T	c.(247-249)TTC>TTT	p.F83F	TMEM119_uc001tnf.2_RNA	NM_181724	NP_859075	Q4V9L6	TM119_HUMAN	transmembrane protein 119 precursor	83	Extracellular (Potential).					integral to membrane				ovary(1)	1						TCCCATCCAGGAAGTTGGTGG	0.652													8	25	---	---	---	---	PASS	A	108985911	A	A	108985911	2	1	4	1	0	0	0	0	0	0	0	1	16029	1165	41	2		2	TMEM119	12	108985911	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	396152	108985911	24865984	2524	3115										
SVOP	55530	broad.mit.edu	37	chr12	109306389	109306389	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accatctcctggccccactcCcggtggctggactcctgcag	10	18	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:109306389C>T	uc010sxh.1	-	15	1741	c.1569G>A	c.(1567-1569)CGG>CGA	p.R523R		NM_018711	NP_061181	Q8N4V2	SVOP_HUMAN	SV2 related protein	523	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	ion transmembrane transporter activity				0						GGCCCCACTCCCGGTGGCTGG	0.617													22	72	---	---	---	---	PASS	T	109306389	T	T	109306389	2	4	4	1	0	0	0	0	0	0	0	1	15420	610	22	3		3	SVOP	12	109306389	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	320478	109306389	24545506	2525	3116										
ACACB	32	broad.mit.edu	37	chr12	109677647	109677647	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttggcaggaagcctccttcGaatacctgcagaacgagggt	12	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:109677647G>A	uc001tob.2	+	35	4794	c.4675G>A	c.(4675-4677)GAA>AAA	p.E1559K	ACACB_uc001toc.2_Missense_Mutation_p.E1559K|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.E225K	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1559					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	AGCCTCCTTCGAATACCTGCA	0.622													10	7	---	---	---	---	PASS	A	109677647	A	A	109677647	3	1	4	1	0	0	0	0	1	0	0	0	107	1059	37	2	4809	2	ACACB	12	109677647	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	371258	109677647	24174248	2526	3117										
ACACB	32	broad.mit.edu	37	chr12	109696794	109696794	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagataattcagcaggcagGacaggtgtggttcccagact	12	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:109696794G>A	uc001tob.2	+	47	6496	c.6377G>A	c.(6376-6378)GGA>GAA	p.G2126E	ACACB_uc001toc.2_Missense_Mutation_p.G2126E|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.G792E	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	2126	Carboxyltransferase.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CAGCAGGCAGGACAGGTGTGG	0.582											OREG0007682	type=TRANSCRIPTION FACTOR BINDING SITE|Gene=ACACB|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	27	131	---	---	---	---	PASS	A	109696794	A	A	109696794	3	1	4	1	0	0	0	0	1	0	0	0	107	1174	41	2	6559	2	ACACB	12	109696794	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	19147	109696794	24155101	2527	3118										
FOXN4	121643	broad.mit.edu	37	chr12	109724543	109724543	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcttcagggccatggcgatCagacagctgggggcaggagg	17	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:109724543C>T	uc001toe.3	-	7	708	c.603G>A	c.(601-603)CTG>CTA	p.L201L	FOXN4_uc009zvg.2_5'UTR|FOXN4_uc001tof.3_Silent_p.L21L	NM_213596	NP_998761	Q96NZ1	FOXN4_HUMAN	forkhead box N4	201	Fork-head.				axon extension|embryo development|organ development|pattern specification process|regulation of heart contraction|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(1)|lung(1)	2						CCATGGCGATCAGACAGCTGG	0.478													8	10	---	---	---	---	PASS	T	109724543	T	T	109724543	2	4	4	1	0	0	0	0	0	0	0	1	6022	813	29	2		2	FOXN4	12	109724543	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	27749	109724543	24127352	2528	3119										
CUX2	23316	broad.mit.edu	37	chr12	111744784	111744784	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggccgcgctggcctccaaGgacagggagatcctgcggct	16	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:111744784G>A	uc001tsa.1	+	11	1071	c.918G>A	c.(916-918)AAG>AAA	p.K306K		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	306	Potential.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						TGGCCTCCAAGGACAGGGAGA	0.642													15	21	---	---	---	---	PASS	A	111744784	A	A	111744784	2	1	4	1	0	0	0	0	0	0	0	1	4065	991	35	3		3	CUX2	12	111744784	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2020241	111744784	22107111	2529	3120										
CUX2	23316	broad.mit.edu	37	chr12	111779756	111779756	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggaggcactgcggaaggcCtatcagctggaaccctaccc	12	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:111779756C>T	uc001tsa.1	+	21	3711	c.3558C>T	c.(3556-3558)GCC>GCT	p.A1186A		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	1186	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						TGCGGAAGGCCTATCAGCTGG	0.622													15	24	---	---	---	---	PASS	T	111779756	T	T	111779756	2	4	4	1	0	0	0	0	0	0	0	1	4065	668	24	3		3	CUX2	12	111779756	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	34972	111779756	22072139	2530	3121										
CUX2	23316	broad.mit.edu	37	chr12	111785937	111785937	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagctcccatctccccatcCccacctggcgccccccctgc	5	25	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:111785937C>T	uc001tsa.1	+	22	4422	c.4269C>T	c.(4267-4269)TCC>TCT	p.S1423S		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	1423	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						TCTCCCCATCCCCACCTGGCG	0.657													7	29	---	---	---	---	PASS	T	111785937	T	T	111785937	2	4	4	1	0	0	0	0	0	0	0	1	4065	610	22	3		3	CUX2	12	111785937	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	6181	111785937	22065958	2531	3122										
ACAD10	80724	broad.mit.edu	37	chr12	112147356	112147356	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtcctgcatggaagggatCtgtaagccagaccctaggat	13	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:112147356C>T	uc001tsq.2	+	5	758	c.558C>T	c.(556-558)ATC>ATT	p.I186I	ACAD10_uc009zvw.2_Silent_p.I186I|ACAD10_uc001tso.3_Silent_p.I186I|ACAD10_uc001tsp.2_Silent_p.I186I|ACAD10_uc009zvx.2_Silent_p.I186I|ACAD10_uc001tsr.2_5'Flank	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	186							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						TGGAAGGGATCTGTAAGCCAG	0.498													7	18	---	---	---	---	PASS	T	112147356	T	T	112147356	2	4	4	1	0	0	0	0	0	0	0	1	108	903	32	2		2	ACAD10	12	112147356	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	361419	112147356	21704539	2532	3123										
ACAD10	80724	broad.mit.edu	37	chr12	112184986	112184986	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgttttgctatgaccgagcCccaggtacgtcgcctgggct	12	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:112184986C>T	uc001tsq.2	+	15	2590	c.2390C>T	c.(2389-2391)CCC>CTC	p.P797L	ACAD10_uc001tsp.2_Missense_Mutation_p.P797L|ACAD10_uc009zvx.2_Missense_Mutation_p.P828L|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	797	FAD (By similarity).						acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						ATGACCGAGCCCCAGGTACGT	0.622													13	12	---	---	---	---	PASS	T	112184986	T	T	112184986	3	4	4	1	0	0	0	0	1	0	0	0	108	623	22	3	2541	3	ACAD10	12	112184986	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	37630	112184986	21666909	2533	3124										
OAS1	4938	broad.mit.edu	37	chr12	113355404	113355404	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaacttgggtggtggagacCcaaagggttggaggcagctg	18	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:113355404C>T	uc001tud.2	+	5	1043	c.937C>T	c.(937-939)CCA>TCA	p.P313S	OAS1_uc001tub.2_Missense_Mutation_p.P313S|OAS1_uc001tuc.2_Missense_Mutation_p.P313S|OAS1_uc009zwf.2_Missense_Mutation_p.P312S	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	313					interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						TGGTGGAGACCCAAAGGGTTG	0.577													20	73	---	---	---	---	PASS	T	113355404	T	T	113355404	3	4	4	1	0	0	0	0	1	0	0	0	10799	623	22	3	955	3	OAS1	12	113355404	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1170418	113355404	20496491	2534	3125										
RASAL1	8437	broad.mit.edu	37	chr12	113543661	113543661	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcgaacaatggccgagggcGggaacagggccctggctggg	18	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:113543661G>A	uc001tum.1	-	17	1978	c.1685C>T	c.(1684-1686)CCG>CTG	p.P562L	RASAL1_uc010syp.1_Missense_Mutation_p.P563L|RASAL1_uc001tul.2_Missense_Mutation_p.P562L|RASAL1_uc001tun.1_Missense_Mutation_p.P564L|RASAL1_uc010syq.1_Missense_Mutation_p.P563L|RASAL1_uc001tuo.3_Missense_Mutation_p.P563L	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	562					intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						GGCCGAGGGCGGGAACAGGGC	0.622													13	17	---	---	---	---	PASS	A	113543661	A	A	113543661	3	1	4	1	0	0	0	0	1	0	0	0	13063	1116	39	1	753	1	RASAL1	12	113543661	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	188257	113543661	20308234	2535	3126										
TBX3	6926	broad.mit.edu	37	chr12	115118751	115118751	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagtgacgactttggacatcCactgttccccagtagcgggg	12	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:115118751C>T	uc001tvt.1	-	2	1554	c.590G>A	c.(589-591)TGG>TAG	p.W197*	TBX3_uc001tvu.1_Nonsense_Mutation_p.W197*|TBX3_uc010syw.1_Nonsense_Mutation_p.W197*	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	197	T-box; first part.				anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		TTTGGACATCCACTGTTCCCC	0.453													31	38	---	---	---	---	PASS	T	115118751	T	T	115118751	4	4	4	1	0	0	0	0	0	1	0	0	15656	595	21	3	1669	3	TBX3	12	115118751	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1575090	115118751	18733144	2536	3127										
FBXW8	26259	broad.mit.edu	37	chr12	117448145	117448145	+	Silent	SNP	G	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagatcctggtgtatagcctGgaagcaggacgccgcctctt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:117448145G>T	uc001twg.1	+	8	1339	c.1257G>T	c.(1255-1257)CTG>CTT	p.L419L	FBXW8_uc001twf.1_Silent_p.L353L|FBXW8_uc009zwp.1_RNA	NM_153348	NP_699179	Q8N3Y1	FBXW8_HUMAN	F-box and WD repeat domain containing 8 isoform	419							protein binding			ovary(2)|pancreas(1)	3	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)		TGTATAGCCTGGAAGCAGGAC	0.537													25	30	---	---	---	---	PASS	T	117448145	T	T	117448145	2	4	4	1	0	0	0	0	0	0	0	1	5770	1335	47	3		3	FBXW8	12	117448145	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2329394	117448145	16403750	2537	3128	113	2								
FBXW8	26259	broad.mit.edu	37	chr12	117448146	117448146	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatcctggtgtatagcctgGaagcaggacgccgcctcttg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:117448146G>A	uc001twg.1	+	8	1340	c.1258G>A	c.(1258-1260)GAA>AAA	p.E420K	FBXW8_uc001twf.1_Missense_Mutation_p.E354K|FBXW8_uc009zwp.1_RNA	NM_153348	NP_699179	Q8N3Y1	FBXW8_HUMAN	F-box and WD repeat domain containing 8 isoform	420							protein binding			ovary(2)|pancreas(1)	3	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)		GTATAGCCTGGAAGCAGGACG	0.532													24	32	---	---	---	---	PASS	A	117448146	A	A	117448146	3	1	4	1	0	0	0	0	1	0	0	0	5770	1175	41	2	1288	2	FBXW8	12	117448146	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	117448146	16403749	2538	3129	113	2								
FBXW8	26259	broad.mit.edu	37	chr12	117465849	117465849	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctagacaccgggggctgatcCgcgcctatgagtttgcggtg	15	11	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:117465849C>T	uc001twg.1	+	11	1751	c.1669C>T	c.(1669-1671)CGC>TGC	p.R557C	FBXW8_uc001twf.1_Missense_Mutation_p.R491C|FBXW8_uc009zwp.1_RNA	NM_153348	NP_699179	Q8N3Y1	FBXW8_HUMAN	F-box and WD repeat domain containing 8 isoform	557							protein binding			ovary(2)|pancreas(1)	3	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)		GGGGCTGATCCGCGCCTATGA	0.622													8	19	---	---	---	---	PASS	T	117465849	T	T	117465849	3	4	4	1	0	0	0	0	1	0	0	0	5770	652	23	1	1711	1	FBXW8	12	117465849	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	17703	117465849	16386046	2539	3130										
SRRM4	84530	broad.mit.edu	37	chr12	119419693	119419693	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctttgggttggcgatggcGagcgttcagcaaggcgagaa	16	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:119419693G>A	uc001txa.1	+	1	298	c.6G>A	c.(4-6)GCG>GCA	p.A2A		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	2					cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						TGGCGATGGCGAGCGTTCAGC	0.627													7	10	---	---	---	---	PASS	A	119419693	A	A	119419693	2	1	4	1	0	0	0	0	0	0	0	1	15170	1045	37	2		2	SRRM4	12	119419693	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1953844	119419693	14432202	2540	3131										
CIT	11113	broad.mit.edu	37	chr12	120288021	120288021	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaaggcatactgtaattggGggatccacgggcttgtgctt	14	7	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:120288021G>A	uc001txi.1	-	5	526	c.473C>T	c.(472-474)CCC>CTC	p.P158L	CIT_uc001txj.1_Missense_Mutation_p.P158L	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	158	Protein kinase.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		CTGTAATTGGGGGATCCACGG	0.413													107	111	---	---	---	---	PASS	A	120288021	A	A	120288021	3	1	4	1	0	0	0	0	1	0	0	0	3438	1232	43	3	5782	3	CIT	12	120288021	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	868328	120288021	13563874	2541	3132										
GCN1L1	10985	broad.mit.edu	37	chr12	120597799	120597799	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaggatgatgtccagcagtCcaagcgccgcctccagctcc	10	17	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:120597799C>T	uc001txo.2	-	24	2592	c.2579G>A	c.(2578-2580)GGA>GAA	p.G860E		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	860					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GTCCAGCAGTCCAAGCGCCGC	0.602													8	29	---	---	---	---	PASS	T	120597799	T	T	120597799	3	4	4	1	0	0	0	0	1	0	0	0	6299	855	30	2	5576	2	GCN1L1	12	120597799	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	309778	120597799	13254096	2542	3133										
GCN1L1	10985	broad.mit.edu	37	chr12	120616465	120616465	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtccatctccttgtgactcGtgcagaactgcaccagcagc	9	15	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:120616465G>A	uc001txo.2	-	7	636	c.623C>T	c.(622-624)ACG>ATG	p.T208M		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	208					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTTGTGACTCGTGCAGAACTG	0.572													24	26	---	---	---	---	PASS	A	120616465	A	A	120616465	3	1	4	1	0	0	0	0	1	0	0	0	6299	1145	40	1	7600	1	GCN1L1	12	120616465	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	18666	120616465	13235430	2543	3134										
CABP1	9478	broad.mit.edu	37	chr12	121098004	121098004	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctcacttccccagagctcCgagaggccttcagagaattc	9	14	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:121098004C>T	uc001tyu.2	+	3	758	c.691C>T	c.(691-693)CGA>TGA	p.R231*	CABP1_uc001tyv.2_Nonsense_Mutation_p.R88*|CABP1_uc001tyw.2_Nonsense_Mutation_p.R28*|CABP1_uc001tyx.2_Nonsense_Mutation_p.R73*	NM_001033677	NP_001028849	Q9NZU7	CABP1_HUMAN	calcium binding protein 1 isoform 3	231	EF-hand 1.					cell cortex|cell junction|Golgi apparatus|perinuclear region of cytoplasm|postsynaptic density|postsynaptic membrane	calcium ion binding|calcium-dependent protein binding|enzyme inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CCCAGAGCTCCGAGAGGCCTT	0.592													7	51	---	---	---	---	PASS	T	121098004	T	T	121098004	4	4	4	1	0	0	0	0	0	1	0	0	2531	644	23	1	934	1	CABP1	12	121098004	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	481539	121098004	12753891	2544	3135										
MLEC	9761	broad.mit.edu	37	chr12	121134306	121134306	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttcccatcctggtggccttCggagtcttcattccaaccct	7	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:121134306C>T	uc001tyy.1	+	5	988	c.837C>T	c.(835-837)TTC>TTT	p.F279F		NM_014730	NP_055545	Q14165	MLEC_HUMAN	malectin precursor	279	Helical; (Potential).				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	carbohydrate binding			ovary(1)	1						TGGTGGCCTTCGGAGTCTTCA	0.542													83	84	---	---	---	---	PASS	T	121134306	T	T	121134306	2	4	4	1	0	0	0	0	0	0	0	1	9613	883	31	2		2	MLEC	12	121134306	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	36302	121134306	12717589	2545	3136										
UNC119B	84747	broad.mit.edu	37	chr12	121154450	121154450	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaccaggaggaggatgaggaGgagggaggtggagacgtgga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:121154450G>A	uc001tyz.2	+	3	825	c.378G>A	c.(376-378)GAG>GAA	p.E126E		NM_001080533	NP_001074002	A6NIH7	U119B_HUMAN	unc-119 homolog B	126										haematopoietic_and_lymphoid_tissue(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					AGGATGAGGAGGAGGGAGGTG	0.542													47	81	---	---	---	---	PASS	A	121154450	A	A	121154450	2	1	4	1	0	0	0	0	0	0	0	1	16980	991	35	3		3	UNC119B	12	121154450	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	20144	121154450	12697445	2546	3137	114	2								
UNC119B	84747	broad.mit.edu	37	chr12	121154451	121154451	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accaggaggaggatgaggagGagggaggtggagacgtggac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:121154451G>A	uc001tyz.2	+	3	826	c.379G>A	c.(379-381)GAG>AAG	p.E127K		NM_001080533	NP_001074002	A6NIH7	U119B_HUMAN	unc-119 homolog B	127										haematopoietic_and_lymphoid_tissue(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GGATGAGGAGGAGGGAGGTGG	0.547													48	81	---	---	---	---	PASS	A	121154451	A	A	121154451	3	1	4	1	0	0	0	0	1	0	0	0	16980	1175	41	2	389	2	UNC119B	12	121154451	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	121154451	12697444	2547	3138	114	2								
KDM2B	84678	broad.mit.edu	37	chr12	121947413	121947413	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggggtcctcgatgccctcgGggacacacttcttgttctcc	12	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:121947413G>A	uc001uat.2	-	11	1708	c.1604C>T	c.(1603-1605)CCC>CTC	p.P535L	KDM2B_uc001uar.2_Missense_Mutation_p.P126L|KDM2B_uc001uas.2_Missense_Mutation_p.P504L|KDM2B_uc001uau.2_Missense_Mutation_p.P418L|KDM2B_uc001uav.3_Missense_Mutation_p.P445L	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	535					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						GATGCCCTCGGGGACACACTT	0.627													7	30	---	---	---	---	PASS	A	121947413	A	A	121947413	3	1	4	1	0	0	0	0	1	0	0	0	8125	1232	43	3	2510	3	KDM2B	12	121947413	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	792962	121947413	11904482	2548	3139										
KDM2B	84678	broad.mit.edu	37	chr12	121986815	121986815	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtacttcatctctgcaatgGcgttcgtggcttctgtctgc	11	11	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:121986815G>A	uc001uat.2	-	6	754	c.650C>T	c.(649-651)GCC>GTC	p.A217V	KDM2B_uc001uas.2_Missense_Mutation_p.A186V|KDM2B_uc001uau.2_Missense_Mutation_p.A100V|KDM2B_uc001uav.3_Missense_Mutation_p.A217V	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	217	JmjC.				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						CTCTGCAATGGCGTTCGTGGC	0.577													20	29	---	---	---	---	PASS	A	121986815	A	A	121986815	3	1	4	1	0	0	0	0	1	0	0	0	8125	1203	42	3	3484	3	KDM2B	12	121986815	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	39402	121986815	11865080	2549	3140										
MLXIP	22877	broad.mit.edu	37	chr12	122619802	122619802	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccaaccacaagcggtgatCatgacgtcagggcctctgaa	12	12	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:122619802C>T	uc001ubq.2	+	10	1764	c.1764C>T	c.(1762-1764)ATC>ATT	p.I588I	MLXIP_uc001ubt.2_Silent_p.I195I	NM_014938	NP_055753	Q9HAP2	MLXIP_HUMAN	MLX interacting protein	588					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)		AAGCGGTGATCATGACGTCAG	0.627													4	20	---	---	---	---	PASS	T	122619802	T	T	122619802	2	4	4	1	0	0	0	0	0	0	0	1	9636	816	29	2		2	MLXIP	12	122619802	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	632987	122619802	11232093	2550	3141										
LRRC43	254050	broad.mit.edu	37	chr12	122685097	122685097	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agattctctcctggcctgtgGtgctacctgctgttgacagt	11	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:122685097G>A	uc009zxm.2	+	9	1535	c.1510G>A	c.(1510-1512)GTG>ATG	p.V504M	LRRC43_uc001ubw.3_Missense_Mutation_p.V319M|LRRC43_uc009zxn.2_Missense_Mutation_p.V265M	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	504											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		CTGGCCTGTGGTGCTACCTGC	0.413													14	72	---	---	---	---	PASS	A	122685097	A	A	122685097	3	1	4	1	0	0	0	0	1	0	0	0	9001	1261	44	3	1544	3	LRRC43	12	122685097	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	65295	122685097	11166798	2551	3142										
LRRC43	254050	broad.mit.edu	37	chr12	122685424	122685424	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggagcccctggtgtccacCgtgtgcaacttcggcgtggt	16	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:122685424C>T	uc009zxm.2	+	10	1777	c.1752C>T	c.(1750-1752)ACC>ACT	p.T584T	LRRC43_uc001ubw.3_Silent_p.T399T|LRRC43_uc009zxn.2_Silent_p.T345T|B3GNT4_uc001ubx.2_5'Flank|B3GNT4_uc001uby.2_5'Flank	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	584											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		TGGTGTCCACCGTGTGCAACT	0.692													7	11	---	---	---	---	PASS	T	122685424	T	T	122685424	2	4	4	1	0	0	0	0	0	0	0	1	9001	639	23	1		1	LRRC43	12	122685424	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	327	122685424	11166471	2552	3143										
VPS33A	65082	broad.mit.edu	37	chr12	122748207	122748207	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacatcagctgccggcaaacGatttcctttaagtgtgaaca	8	11	1	1	rs150472752		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:122748207G>A	uc001ucd.2	-	3	321	c.208C>T	c.(208-210)CGT>TGT	p.R70C	VPS33A_uc001ucc.2_RNA|VPS33A_uc001uce.2_Missense_Mutation_p.R70C	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	70					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		GCCGGCAAACGATTTCCTTTA	0.373													13	23	---	---	---	---	PASS	A	122748207	A	A	122748207	3	1	4	1	0	0	0	0	1	0	0	0	17198	1058	37	2	1626	2	VPS33A	12	122748207	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	62783	122748207	11103688	2553	3144										
MPHOSPH9	10198	broad.mit.edu	37	chr12	123641363	123641363	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctacaaatctcaaagattTgcagaggtgcgcaaaacatg	10	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:123641363T>C	uc001uel.2	-	20	3194	c.3087A>G	c.(3085-3087)GCA>GCG	p.A1029A	MPHOSPH9_uc010tal.1_Silent_p.A483A|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Silent_p.A483A	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	1029					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		CTCAAAGATTTGCAGAGGTGC	0.363													6	7	---	---	---	---	PASS	C	123641363	C	C	123641363	2	2	4	1	0	0	0	0	0	0	0	1	9728	1799	63	5		5	MPHOSPH9	12	123641363	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	893156	123641363	10210532	2554	3145										
DDX55	57696	broad.mit.edu	37	chr12	124090657	124090657	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacactcgcttttgtcatccCcatcctggaaattcttctga	5	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:124090657C>T	uc001ufi.2	+	3	221	c.197C>T	c.(196-198)CCC>CTC	p.P66L	DDX55_uc001ufh.2_5'UTR|DDX55_uc001ufj.1_5'UTR|DDX55_uc001ufk.2_5'Flank	NM_020936	NP_065987	Q8NHQ9	DDX55_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 55	66	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding	p.P66R(1)		ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000142)|Epithelial(86;0.000637)|all cancers(50;0.00772)		TTTGTCATCCCCATCCTGGAA	0.428													4	35	---	---	---	---	PASS	T	124090657	T	T	124090657	3	4	4	1	0	0	0	0	1	0	0	0	4373	623	22	3	207	3	DDX55	12	124090657	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	449294	124090657	9761238	2555	3146										
ATP6V0A2	23545	broad.mit.edu	37	chr12	124212439	124212439	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgcagaactggatgaatccCttgaagaccctgaaacagtg	10	9	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:124212439C>T	uc001ufr.2	+	6	879	c.631C>T	c.(631-633)CTT>TTT	p.L211F	ATP6V0A2_uc001ufq.1_Missense_Mutation_p.L211F	NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	211	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		GGATGAATCCCTTGAAGACCC	0.403													6	21	---	---	---	---	PASS	T	124212439	T	T	124212439	3	4	4	1	0	0	0	0	1	0	0	0	1169	681	24	3	653	3	ATP6V0A2	12	124212439	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	121782	124212439	9639456	2556	3147										
DNAH10	196385	broad.mit.edu	37	chr12	124325914	124325914	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtttaatgacggcgatagtGgagaaaaactggtgtccgcg	15	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:124325914G>A	uc001uft.3	+	29	4853	c.4828G>A	c.(4828-4830)GGA>AGA	p.G1610R		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1610	Stem (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)		CGGCGATAGTGGAGAAAAACT	0.522													81	105	---	---	---	---	PASS	A	124325914	A	A	124325914	3	1	4	1	0	0	0	0	1	0	0	0	4598	1349	47	3	4942	3	DNAH10	12	124325914	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	113475	124325914	9525981	2557	3148										
DNAH10	196385	broad.mit.edu	37	chr12	124341675	124341675	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgaagatgttcctcttttcCttggtttgatttcggatctg	9	7	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:124341675C>T	uc001uft.3	+	36	6182	c.6157C>T	c.(6157-6159)CTT>TTT	p.L2053F		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2053					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)		TCCTCTTTTCCTTGGTTTGAT	0.512													7	55	---	---	---	---	PASS	T	124341675	T	T	124341675	3	4	4	1	0	0	0	0	1	0	0	0	4598	681	24	3	6299	3	DNAH10	12	124341675	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	15761	124341675	9510220	2558	3149										
ZNF664	144348	broad.mit.edu	37	chr12	124497275	124497275	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaccagagagtccacactgGagagaaaccctatagatgtt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:124497275G>A	uc001ufz.2	+	6	2414	c.584G>A	c.(583-585)GGA>GAA	p.G195E	ZNF664_uc001uga.2_Missense_Mutation_p.G195E|ZNF664_uc001ugb.2_Missense_Mutation_p.G195E	NM_152437	NP_689650	Q8N3J9	ZN664_HUMAN	zinc finger protein 664	195					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.000239)|OV - Ovarian serous cystadenocarcinoma(86;0.000247)|all cancers(50;0.00155)|BRCA - Breast invasive adenocarcinoma(302;0.249)		GTCCACACTGGAGAGAAACCC	0.498													47	53	---	---	---	---	PASS	A	124497275	A	A	124497275	3	1	4	1	0	0	0	0	1	0	0	0	18069	1174	41	2	586	2	ZNF664	12	124497275	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	155600	124497275	9354620	2559	3150	115	2								
ZNF664	144348	broad.mit.edu	37	chr12	124497277	124497277	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accagagagtccacactggaGagaaaccctatagatgttgt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:124497277G>A	uc001ufz.2	+	6	2416	c.586G>A	c.(586-588)GAG>AAG	p.E196K	ZNF664_uc001uga.2_Missense_Mutation_p.E196K|ZNF664_uc001ugb.2_Missense_Mutation_p.E196K	NM_152437	NP_689650	Q8N3J9	ZN664_HUMAN	zinc finger protein 664	196					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.000239)|OV - Ovarian serous cystadenocarcinoma(86;0.000247)|all cancers(50;0.00155)|BRCA - Breast invasive adenocarcinoma(302;0.249)		CCACACTGGAGAGAAACCCTA	0.498													48	52	---	---	---	---	PASS	A	124497277	A	A	124497277	3	1	4	1	0	0	0	0	1	0	0	0	18069	943	33	2	588	2	ZNF664	12	124497277	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2	124497277	9354618	2560	3151	115	2								
FAM101A	144347	broad.mit.edu	37	chr12	124798882	124798882	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aactaccgcagccagctgacCctggagccacgcccgcgcgc	11	19	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:124798882C>T	uc001ugd.1	+	3	462	c.219C>T	c.(217-219)ACC>ACT	p.T73T	FAM101A_uc001uge.1_Silent_p.T73T	NM_181709	NP_859060	Q6ZTI6	F101A_HUMAN	hypothetical protein LOC144347	154											0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;2.38e-05)|OV - Ovarian serous cystadenocarcinoma(86;6.95e-05)|all cancers(50;0.000361)|BRCA - Breast invasive adenocarcinoma(302;0.059)		GCCAGCTGACCCTGGAGCCAC	0.657													5	32	---	---	---	---	PASS	T	124798882	T	T	124798882	2	4	4	1	0	0	0	0	0	0	0	1	5380	610	22	3		3	FAM101A	12	124798882	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	301605	124798882	9053013	2561	3152										
SCARB1	949	broad.mit.edu	37	chr12	125292364	125292364	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggcacgggcagaagccttCgttgggtgggtagatggacc	17	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:125292364C>T	uc001ugo.3	-	7	1205	c.952G>A	c.(952-954)GAA>AAA	p.E318K	SCARB1_uc001ugn.3_Missense_Mutation_p.E318K|SCARB1_uc001ugm.3_Missense_Mutation_p.E318K|SCARB1_uc010tbd.1_Missense_Mutation_p.E318K|SCARB1_uc010tbe.1_Missense_Mutation_p.E277K|SCARB1_uc001ugp.3_Missense_Mutation_p.E318K	NM_005505	NP_005496	Q8WTV0	SCRB1_HUMAN	scavenger receptor class B, member 1 isoform 1	318	Extracellular (Potential).				adhesion to symbiont|cell adhesion|cholesterol efflux|cholesterol homeostasis|cholesterol import|detection of lipopolysaccharide|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|lipopolysaccharide transport|lipoprotein metabolic process|positive regulation of cholesterol storage|positive regulation of endothelial cell migration|positive regulation of nitric-oxide synthase activity|recognition of apoptotic cell|reverse cholesterol transport|triglyceride homeostasis|wound healing	caveola	1-phosphatidylinositol binding|apolipoprotein A-I binding|high-density lipoprotein particle receptor activity|lipopolysaccharide receptor activity|low-density lipoprotein particle binding|phosphatidylserine binding|transporter activity			kidney(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000116)|Epithelial(86;0.000415)|all cancers(50;0.00395)	Phosphatidylserine(DB00144)	CAGAAGCCTTCGTTGGGTGGG	0.587													22	25	---	---	---	---	PASS	T	125292364	T	T	125292364	3	4	4	1	0	0	0	0	1	0	0	0	13881	893	31	2	725	2	SCARB1	12	125292364	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	493482	125292364	8559531	2562	3153										
TMEM132B	114795	broad.mit.edu	37	chr12	126138226	126138226	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attggatgaaatggtggtgtCtgtccaggcaaaccttgagt	13	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:126138226C>T	uc001uhe.1	+	9	2215	c.2207C>T	c.(2206-2208)TCT>TTT	p.S736F	TMEM132B_uc001uhf.1_Missense_Mutation_p.S248F	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	736	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		ATGGTGGTGTCTGTCCAGGCA	0.418													29	35	---	---	---	---	PASS	T	126138226	T	T	126138226	3	4	4	1	0	0	0	0	1	0	0	0	16043	913	32	2	2241	2	TMEM132B	12	126138226	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	845862	126138226	7713669	2563	3154										
TMEM132B	114795	broad.mit.edu	37	chr12	126139082	126139082	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aattcttcgggcccaaagagGaagagagtcaagttcacttc	10	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:126139082G>A	uc001uhe.1	+	9	3071	c.3063G>A	c.(3061-3063)AGG>AGA	p.R1021R	TMEM132B_uc001uhf.1_Silent_p.R533R	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	1021	Cytoplasmic (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		GCCCAAAGAGGAAGAGAGTCA	0.458													19	23	---	---	---	---	PASS	A	126139082	A	A	126139082	2	1	4	1	0	0	0	0	0	0	0	1	16043	1165	41	2		2	TMEM132B	12	126139082	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	856	126139082	7712813	2564	3155										
TMEM132D	121256	broad.mit.edu	37	chr12	129558431	129558431	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtctggcttacacattttCatgtaacctctccatgtagt	7	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:129558431C>T	uc009zyl.1	-	9	3617	c.3289G>A	c.(3289-3291)GAA>AAA	p.E1097K	TMEM132D_uc001uia.2_Missense_Mutation_p.E635K	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	1097	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TACACATTTTCATGTAACCTC	0.493													24	28	---	---	---	---	PASS	T	129558431	T	T	129558431	3	4	4	1	0	0	0	0	1	0	0	0	16044	835	29	2	14	2	TMEM132D	12	129558431	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3419349	129558431	4293464	2565	3156										
TMEM132D	121256	broad.mit.edu	37	chr12	129558939	129558939	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagaccaaaatggccaaacaGaagactcccaacaaagcata	6	11	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:129558939G>A	uc009zyl.1	-	9	3109	c.2781C>T	c.(2779-2781)TTC>TTT	p.F927F	TMEM132D_uc001uia.2_Silent_p.F465F	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	927	Helical; (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TGGCCAAACAGAAGACTCCCA	0.458													31	46	---	---	---	---	PASS	A	129558939	A	A	129558939	2	1	4	1	0	0	0	0	0	0	0	1	16044	933	33	2		2	TMEM132D	12	129558939	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	508	129558939	4292956	2566	3157										
RIMBP2	23504	broad.mit.edu	37	chr12	130941081	130941081	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggccattcatgaactgtggGaaaggcttgctgggggccgt	16	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:130941081G>A	uc001uil.2	-	4	431	c.267C>T	c.(265-267)TTC>TTT	p.F89F	RIMBP2_uc001uim.2_5'UTR	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	89						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		TGAACTGTGGGAAAGGCTTGC	0.647													11	17	---	---	---	---	PASS	A	130941081	A	A	130941081	2	1	4	1	0	0	0	0	0	0	0	1	13363	1165	41	2		2	RIMBP2	12	130941081	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1382142	130941081	2910814	2567	3158										
GPR133	283383	broad.mit.edu	37	chr12	131590383	131590383	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggcccaggtcctgctgctCattagtttccgcctcgagcc	11	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:131590383C>T	uc001uit.3	+	17	2419	c.1860C>T	c.(1858-1860)CTC>CTT	p.L620L	GPR133_uc010tbm.1_Silent_p.L652L|GPR133_uc009zyo.2_Intron|GPR133_uc001uiv.1_Silent_p.L139L|GPR133_uc009zyp.2_RNA	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	620	Helical; Name=2; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		TCCTGCTGCTCATTAGTTTCC	0.652													11	10	---	---	---	---	PASS	T	131590383	T	T	131590383	2	4	4	1	0	0	0	0	0	0	0	1	6643	813	29	2		2	GPR133	12	131590383	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	649302	131590383	2261512	2568	3159										
EP400	57634	broad.mit.edu	37	chr12	132471210	132471210	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtaaatagaccttcctcagCcaccaataaggcactatctc	5	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:132471210C>T	uc001ujn.2	+	5	2116	c.2081C>T	c.(2080-2082)GCC>GTC	p.A694V	EP400_uc001ujl.2_Missense_Mutation_p.A693V|EP400_uc001ujm.2_Missense_Mutation_p.A694V|EP400_uc001ujj.1_Missense_Mutation_p.A657V|EP400_uc001ujk.2_Missense_Mutation_p.A730V	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	730					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CCTTCCTCAGCCACCAATAAG	0.617													10	51	---	---	---	---	PASS	T	132471210	T	T	132471210	3	4	4	1	0	0	0	0	1	0	0	0	5149	739	26	3	2096	3	EP400	12	132471210	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	880827	132471210	1380685	2569	3160										
P2RX2	22953	broad.mit.edu	37	chr12	133196311	133196311	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagggtcgaggccacccactCccagacccagggaacctgcc	11	18	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:133196311C>T	uc001ukj.1	+	3	356	c.356C>T	c.(355-357)TCC>TTC	p.S119F	P2RX2_uc001uki.1_Missense_Mutation_p.S119F|P2RX2_uc001ukk.1_Missense_Mutation_p.S119F|P2RX2_uc001ukl.1_Intron|P2RX2_uc001ukm.1_Intron|P2RX2_uc001ukn.1_Intron|P2RX2_uc009zyt.1_Missense_Mutation_p.S119F|P2RX2_uc001uko.1_Intron	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	119	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		GCCACCCACTCCCAGACCCAG	0.731													7	5	---	---	---	---	PASS	T	133196311	T	T	133196311	3	4	4	1	0	0	0	0	1	0	0	0	11340	855	30	2	366	2	P2RX2	12	133196311	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	725101	133196311	655584	2570	3161										
POLE	5426	broad.mit.edu	37	chr12	133218806	133218806	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgatctcaacagtggcttgGtcatcgaactccatgacaag	9	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:133218806G>A	uc001uks.1	-	38	5174	c.5130C>T	c.(5128-5130)GAC>GAT	p.D1710D	POLE_uc001ukq.1_5'Flank|POLE_uc001ukr.1_Silent_p.D514D|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1710					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CAGTGGCTTGGTCATCGAACT	0.572								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					30	37	---	---	---	---	PASS	A	133218806	A	A	133218806	2	1	4	1	0	0	0	0	0	0	0	1	12196	1252	44	3		3	POLE	12	133218806	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	22495	133218806	633089	2571	3162										
ANKLE2	23141	broad.mit.edu	37	chr12	133304630	133304630	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacatacctctgtctgtccGagggtgagtagcacaggaca	11	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:133304630G>T	uc001ukx.2	-	12	2670	c.2603C>A	c.(2602-2604)TCG>TAG	p.S868*	ANKLE2_uc009zyw.1_Nonsense_Mutation_p.S223*	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	868						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		CTGTCTGTCCGAGGGTGAGTA	0.577													5	105	---	---	---	---	PASS	T	133304630	T	T	133304630	4	4	4	1	0	0	0	0	0	1	0	0	633	1059	37	2	221	2	ANKLE2	12	133304630	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	85824	133304630	547265	2572	3163										
CHFR	55743	broad.mit.edu	37	chr12	133435753	133435753	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctgacgtcctcgtggacgGtttgggcatttctacgcggt	13	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr12:133435753G>A	uc001ulf.2	-	8	932	c.848C>T	c.(847-849)ACC>ATC	p.T283I	CHFR_uc001ulc.1_RNA|CHFR_uc001ule.2_Missense_Mutation_p.T271I|CHFR_uc010tbs.1_Missense_Mutation_p.T283I|CHFR_uc001uld.2_Missense_Mutation_p.T242I|CHFR_uc010tbt.1_Missense_Mutation_p.T191I	NM_001161344	NP_001154816	Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains	283					cell division|mitosis|mitotic cell cycle checkpoint|modification-dependent protein catabolic process|protein polyubiquitination	PML body	nucleotide binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00552)|all_epithelial(31;0.226)		OV - Ovarian serous cystadenocarcinoma(86;2.59e-08)|Epithelial(86;6.38e-07)|all cancers(50;1.56e-05)		CTCGTGGACGGTTTGGGCATT	0.572													14	22	---	---	---	---	PASS	A	133435753	A	A	133435753	3	1	4	1	0	0	0	0	1	0	0	0	3337	1261	44	3	1190	3	CHFR	12	133435753	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	131123	133435753	416142	2573	3164										
TPTE2	93492	broad.mit.edu	37	chr13	19999111	19999111	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattttgaataaaagacgtgTtgaaccagaagaaaaatgga	9	3	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:19999111T>C	uc001umd.2	-	20	1653	c.1442A>G	c.(1441-1443)AAC>AGC	p.N481S	TPTE2_uc009zzk.2_RNA|TPTE2_uc009zzl.2_Missense_Mutation_p.N370S|TPTE2_uc001ume.2_Missense_Mutation_p.N404S|TPTE2_uc009zzm.2_Missense_Mutation_p.N152S|TPTE2_uc010tcm.1_RNA|TPTE2_uc010tcl.1_Missense_Mutation_p.N152S	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	481	C2 tensin-type.					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		AAAAGACGTGTTGAACCAGAA	0.294													4	12	---	---	---	---	PASS	C	19999111	C	C	19999111	3	2	4	1	0	0	0	0	1	0	0	0	16428	1725	60	5	134	5	TPTE2	13	19999111	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08		19999111	95170767	2574	3165										
XPO4	64328	broad.mit.edu	37	chr13	21362645	21362645	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgtcattcctaattctagGgagtacatcagacttttaaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:21362645G>A	uc001unq.3	-	20	3063	c.3027C>T	c.(3025-3027)TCC>TCT	p.S1009S		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	1009					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		CTAATTCTAGGGAGTACATCA	0.308													12	19	---	---	---	---	PASS	A	21362645	A	A	21362645	2	1	4	1	0	0	0	0	0	0	0	1	17443	1219	43	3		3	XPO4	13	21362645	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1363534	21362645	93807233	2575	3166	116	2								
XPO4	64328	broad.mit.edu	37	chr13	21362646	21362646	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtcattcctaattctaggGagtacatcagacttttaaac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:21362646G>A	uc001unq.3	-	20	3062	c.3026C>T	c.(3025-3027)TCC>TTC	p.S1009F		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	1009					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		TAATTCTAGGGAGTACATCAG	0.308													12	20	---	---	---	---	PASS	A	21362646	A	A	21362646	3	1	4	1	0	0	0	0	1	0	0	0	17443	1174	41	2	445	2	XPO4	13	21362646	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	21362646	93807232	2576	3167	116	2								
XPO4	64328	broad.mit.edu	37	chr13	21417152	21417152	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaactcctgcagaacttcAacagttaacatgaagatctg	7	10	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:21417152A>C	uc001unq.3	-	6	645	c.609T>G	c.(607-609)GTT>GTG	p.V203V	XPO4_uc010tcr.1_Silent_p.V129V	NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	203					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		GCAGAACTTCAACAGTTAACA	0.378													11	21	---	---	---	---	PASS	C	21417152	C	C	21417152	2	2	4	1	0	0	0	0	0	0	0	1	17443	117	5	5		5	XPO4	13	21417152	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	54506	21417152	93752726	2577	3168										
XPO4	64328	broad.mit.edu	37	chr13	21442736	21442736	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttttaagtgaatacttaccCaaaatatgcttgcaaactgc	5	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:21442736C>T	uc001unq.3	-	2	210	c.174G>A	c.(172-174)TTG>TTA	p.L58L	XPO4_uc010tcr.1_Intron	NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	58					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		AATACTTACCCAAAATATGCT	0.318													5	30	---	---	---	---	PASS	T	21442736	T	T	21442736	2	4	4	1	0	0	0	0	0	0	0	1	17443	608	21	3		3	XPO4	13	21442736	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	25584	21442736	93727142	2578	3169										
LATS2	26524	broad.mit.edu	37	chr13	21562372	21562372	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaggtgcttcgggtagggcGgaggcgggcacctccggtct	19	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:21562372G>A	uc009zzs.2	-	4	1912	c.1547C>T	c.(1546-1548)CCG>CTG	p.P516L	LATS2_uc001unr.3_Missense_Mutation_p.P516L	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	516	PPxY motif.				cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		CGGGTAGGGCGGAGGCGGGCA	0.711													4	7	---	---	---	---	PASS	A	21562372	A	A	21562372	3	1	4	1	0	0	0	0	1	0	0	0	8647	1116	39	1	1739	1	LATS2	13	21562372	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	119636	21562372	93607506	2579	3170										
LATS2	26524	broad.mit.edu	37	chr13	21563271	21563271	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgtgggggccgactccgggGaaaaggtagtccacgtacgg	17	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:21563271G>A	uc009zzs.2	-	4	1013	c.648C>T	c.(646-648)TTC>TTT	p.F216F	LATS2_uc001unr.3_Silent_p.F216F	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	216					cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		CGACTCCGGGGAAAAGGTAGT	0.711													3	9	---	---	---	---	PASS	A	21563271	A	A	21563271	2	1	4	1	0	0	0	0	0	0	0	1	8647	1165	41	2		2	LATS2	13	21563271	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	899	21563271	93606607	2580	3171										
SAP18	10284	broad.mit.edu	37	chr13	21715094	21715094	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accgaatggacgagttctccCggggaaatgtaccgtccagc	12	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:21715094C>A	uc001uns.2	+	2	238	c.199C>A	c.(199-201)CGG>AGG	p.R67R		NM_005870	NP_005861	O00422	SAP18_HUMAN	Sin3A-associated protein, 18kDa	48					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|plasma membrane	protein binding|transcription corepressor activity				0		all_cancers(29;2.16e-20)|all_epithelial(30;2.97e-18)|all_lung(29;4.58e-16)|Lung SC(185;0.0262)|Breast(139;0.147)		all cancers(112;9.79e-05)|Epithelial(112;0.000292)|OV - Ovarian serous cystadenocarcinoma(117;0.00276)|Lung(94;0.0941)		CGAGTTCTCCCGGGGAAATGT	0.587													4	55	---	---	---	---	PASS	A	21715094	A	A	21715094	2	1	4	1	0	0	0	0	0	0	0	1	13832	643	23	1		1	SAP18	13	21715094	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	151823	21715094	93454784	2581	3172										
MRP63	78988	broad.mit.edu	37	chr13	21751173	21751173	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaacatgatccgccgcctgGagatcgaggcggagaaccat	13	11	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:21751173G>A	uc001unw.2	+	2	608	c.118G>A	c.(118-120)GAG>AAG	p.E40K	SKA3_uc001unt.2_5'Flank|SKA3_uc001unv.2_5'Flank|SKA3_uc001unu.2_5'Flank	NM_024026	NP_076931	Q9BQC6	RT63_HUMAN	mitochondrial ribosomal protein 63	40											0		all_cancers(29;2.76e-20)|all_epithelial(30;2.97e-18)|all_lung(29;4.58e-16)|Lung SC(185;0.0262)|Breast(139;0.147)		all cancers(112;9.43e-05)|Epithelial(112;0.000285)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|Lung(94;0.0932)		CCGCCGCCTGGAGATCGAGGC	0.697													9	30	---	---	---	---	PASS	A	21751173	A	A	21751173	3	1	4	1	0	0	0	0	1	0	0	0	9773	1175	41	2	120	2	MRP63	13	21751173	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	36079	21751173	93418705	2582	3173										
SACS	26278	broad.mit.edu	37	chr13	23928927	23928927	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgagctgaacagcagcatcCacattccctggtaccttggc	10	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:23928927C>T	uc001uon.2	-	8	2413	c.1824G>A	c.(1822-1824)GTG>GTA	p.V608V	SACS_uc001uoo.2_Silent_p.V461V|SACS_uc001uop.1_Silent_p.V395V|SACS_uc001uoq.1_Silent_p.V461V	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	608					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CAGCAGCATCCACATTCCCTG	0.532													10	32	---	---	---	---	PASS	T	23928927	T	T	23928927	2	4	4	1	0	0	0	0	0	0	0	1	13804	581	21	3		3	SACS	13	23928927	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2177754	23928927	91240951	2583	3174										
ATP12A	479	broad.mit.edu	37	chr13	25284959	25284959	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catctgggtggggatcacctCacagatcatcattggtctga	11	10	6	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:25284959C>A	uc001upp.2	+	21	3114	c.2927C>A	c.(2926-2928)TCA>TAA	p.S976*	ATP12A_uc010aaa.2_Nonsense_Mutation_p.S982*	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	976	Helical; (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	GGGATCACCTCACAGATCATC	0.488													21	28	---	---	---	---	PASS	A	25284959	A	A	25284959	4	1	4	1	0	0	0	0	0	1	0	0	1122	838	29	2	3027	2	ATP12A	13	25284959	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1356032	25284959	89884919	2584	3175										
PABPC3	5042	broad.mit.edu	37	chr13	25670880	25670880	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcgtaaagaacgagaagctGaacttggagctagggcaaaa	12	7	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:25670880G>A	uc001upy.2	+	1	605	c.544G>A	c.(544-546)GAA>AAA	p.E182K		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	182					mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		ACGAGAAGCTGAACTTGGAGC	0.413													16	33	---	---	---	---	PASS	A	25670880	A	A	25670880	3	1	4	1	0	0	0	0	1	0	0	0	11365	1291	45	2	546	2	PABPC3	13	25670880	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	385921	25670880	89498998	2585	3176										
PABPC3	5042	broad.mit.edu	37	chr13	25671266	25671266	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtattgatgatgaacgtctCcggaaagcgttttctccatt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:25671266C>T	uc001upy.2	+	1	991	c.930C>T	c.(928-930)CTC>CTT	p.L310L		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	310	RRM 4.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		ATGAACGTCTCCGGAAAGCGT	0.418													63	130	---	---	---	---	PASS	T	25671266	T	T	25671266	2	4	4	1	0	0	0	0	0	0	0	1	11365	842	30	2		2	PABPC3	13	25671266	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	386	25671266	89498612	2586	3177	117	2								
PABPC3	5042	broad.mit.edu	37	chr13	25671267	25671267	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtattgatgatgaacgtctcCggaaagcgttttctccattt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:25671267C>T	uc001upy.2	+	1	992	c.931C>T	c.(931-933)CGG>TGG	p.R311W		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	311	RRM 4.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		TGAACGTCTCCGGAAAGCGTT	0.418													65	129	---	---	---	---	PASS	T	25671267	T	T	25671267	3	4	4	1	0	0	0	0	1	0	0	0	11365	643	23	1	933	1	PABPC3	13	25671267	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	25671267	89498611	2587	3178	117	2								
GPR12	2835	broad.mit.edu	37	chr13	27333080	27333080	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcatatatgacagggttgatGatggaattgtaggtggcggg	17	3	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:27333080G>A	uc010aal.2	-	2	1107	c.885C>T	c.(883-885)ATC>ATT	p.I295I	GPR12_uc010tdl.1_Silent_p.I136I	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	295	Helical; Name=7; (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		CAGGGTTGATGATGGAATTGT	0.532													11	39	---	---	---	---	PASS	A	27333080	A	A	27333080	2	1	4	1	0	0	0	0	0	0	0	1	6635	1280	45	2		2	GPR12	13	27333080	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1661813	27333080	87836798	2588	3179										
FLT3	2322	broad.mit.edu	37	chr13	28588655	28588655	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttagggaaggatggccgtttCcttgagtcaaaagcccagca	12	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:28588655C>T	uc001urw.2	-	23	2875	c.2793G>A	c.(2791-2793)AGG>AGA	p.R931R	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Silent_p.R890R	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	931	Protein kinase.|Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	ATGGCCGTTTCCTTGAGTCAA	0.403			Mis|O		AML|ALL								12	46	---	---	---	---	PASS	T	28588655	T	T	28588655	2	4	4	1	0	0	0	0	0	0	0	1	5942	854	30	2		2	FLT3	13	28588655	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1255575	28588655	86581223	2589	3180										
MTUS2	23281	broad.mit.edu	37	chr13	29599057	29599057	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagaaaaccgtacccatttCcataaggaatttcaccaact	4	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:29599057C>T	uc001usl.3	+	1	310	c.252C>T	c.(250-252)TTC>TTT	p.F84F		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	74						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						GTACCCATTTCCATAAGGAAT	0.463													11	22	---	---	---	---	PASS	T	29599057	T	T	29599057	2	4	4	1	0	0	0	0	0	0	0	1	9966	854	30	2		2	MTUS2	13	29599057	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1010402	29599057	85570821	2590	3181										
MTUS2	23281	broad.mit.edu	37	chr13	29600876	29600876	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtaccatgcctcttccccacGaagagaaggcagcaggtggt	12	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:29600876G>A	uc001usl.3	+	1	2129	c.2071G>A	c.(2071-2073)GAA>AAA	p.E691K		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	681	Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity	p.E691K(1)			0						TCTTCCCCACGAAGAGAAGGC	0.582													7	38	---	---	---	---	PASS	A	29600876	A	A	29600876	3	1	4	1	0	0	0	0	1	0	0	0	9966	1059	37	2	2073	2	MTUS2	13	29600876	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1819	29600876	85569002	2591	3182										
USPL1	10208	broad.mit.edu	37	chr13	31233097	31233097	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accactgttcctggtgtttcCctgtacagtagtcaaactca	7	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:31233097C>T	uc001utc.2	+	9	3315	c.2883C>T	c.(2881-2883)TCC>TCT	p.S961S	USPL1_uc001utd.2_Silent_p.S632S|USPL1_uc001ute.1_Silent_p.S632S	NM_005800	NP_005791	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	961					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			pancreas(2)|skin(1)	3		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0306)|Epithelial(112;0.131)|OV - Ovarian serous cystadenocarcinoma(117;0.134)		CTGGTGTTTCCCTGTACAGTA	0.408													38	59	---	---	---	---	PASS	T	31233097	T	T	31233097	2	4	4	1	0	0	0	0	0	0	0	1	17089	610	22	3		3	USPL1	13	31233097	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1632221	31233097	83936781	2592	3183										
RXFP2	122042	broad.mit.edu	37	chr13	32352681	32352681	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taactacttagaagctcttcCcaagcagatgtgtgcccaaa	7	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:32352681C>T	uc001utt.2	+	9	817	c.746C>T	c.(745-747)CCC>CTC	p.P249L	RXFP2_uc010aba.2_Missense_Mutation_p.P232L	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	249	Extracellular (Potential).|LRR 5.					integral to membrane|plasma membrane					0		Lung SC(185;0.0262)		all cancers(112;0.000559)|Epithelial(112;0.0017)|OV - Ovarian serous cystadenocarcinoma(117;0.0145)|BRCA - Breast invasive adenocarcinoma(63;0.0535)		GAAGCTCTTCCCAAGCAGATG	0.323													31	95	---	---	---	---	PASS	T	32352681	T	T	32352681	3	4	4	1	0	0	0	0	1	0	0	0	13760	623	22	3	780	3	RXFP2	13	32352681	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1119584	32352681	82817197	2593	3184										
FRY	10129	broad.mit.edu	37	chr13	32818196	32818196	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagctgctggagaagggcctCcctagtgtgcagcagcccct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:32818196C>T	uc001utx.2	+	47	7201	c.6705C>T	c.(6703-6705)CTC>CTT	p.L2235L	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2235					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		AGAAGGGCCTCCCTAGTGTGC	0.527													11	25	---	---	---	---	PASS	T	32818196	T	T	32818196	2	4	4	1	0	0	0	0	0	0	0	1	6063	842	30	2		2	FRY	13	32818196	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	465515	32818196	82351682	2594	3185	118	2								
FRY	10129	broad.mit.edu	37	chr13	32818197	32818197	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctgctggagaagggcctcCctagtgtgcagcagcccctg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:32818197C>T	uc001utx.2	+	47	7202	c.6706C>T	c.(6706-6708)CCT>TCT	p.P2236S	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2236					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		GAAGGGCCTCCCTAGTGTGCA	0.527													11	26	---	---	---	---	PASS	T	32818197	T	T	32818197	3	4	4	1	0	0	0	0	1	0	0	0	6063	623	22	3	6892	3	FRY	13	32818197	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	32818197	82351681	2595	3186	118	2								
FRY	10129	broad.mit.edu	37	chr13	32841364	32841364	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgcccttcttctcagccatCcttgccgcctttcagcccgc	6	20	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:32841364C>T	uc001utx.2	+	55	8500	c.8004C>T	c.(8002-8004)ATC>ATT	p.I2668I	FRY_uc010tdw.1_RNA|FRY_uc001uty.2_Silent_p.I223I|FRY_uc001utz.2_Silent_p.I193I|FRY_uc010tdx.1_Silent_p.I38I	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2668					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		TCTCAGCCATCCTTGCCGCCT	0.557													23	52	---	---	---	---	PASS	T	32841364	T	T	32841364	2	4	4	1	0	0	0	0	0	0	0	1	6063	845	30	2		2	FRY	13	32841364	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	23167	32841364	82328514	2596	3187										
BRCA2	675	broad.mit.edu	37	chr13	32915094	32915094	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtaaaactgaaactttttCtgatgttcctgtgaaaacaa	7	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:32915094C>T	uc001uub.1	+	11	6829	c.6602C>T	c.(6601-6603)TCT>TTT	p.S2201F		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2201					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		GAAACTTTTTCTGATGTTCCT	0.328			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			12	19	---	---	---	---	PASS	T	32915094	T	T	32915094	3	4	4	1	0	0	0	0	1	0	0	0	1499	913	32	2	6640	2	BRCA2	13	32915094	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	73730	32915094	82254784	2597	3188										
NBEA	26960	broad.mit.edu	37	chr13	36158054	36158054	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccaattggtgctttgaaccCcaagagagctgtgttttatg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:36158054C>T	uc001uvb.2	+	46	7261	c.7055C>T	c.(7054-7056)CCC>CTC	p.P2352L	NBEA_uc010abi.2_Missense_Mutation_p.P1008L|NBEA_uc010tee.1_Missense_Mutation_p.P145L|NBEA_uc010tef.1_Missense_Mutation_p.P145L|NBEA_uc010teg.1_Missense_Mutation_p.P145L	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2352	BEACH.					cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GCTTTGAACCCCAAGAGAGCT	0.323													23	29	---	---	---	---	PASS	T	36158054	T	T	36158054	3	4	4	1	0	0	0	0	1	0	0	0	10187	623	22	3	7237	3	NBEA	13	36158054	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3242960	36158054	79011824	2598	3189	119	2								
NBEA	26960	broad.mit.edu	37	chr13	36158055	36158055	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaattggtgctttgaacccCaagagagctgtgttttatgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:36158055C>T	uc001uvb.2	+	46	7262	c.7056C>T	c.(7054-7056)CCC>CCT	p.P2352P	NBEA_uc010abi.2_Silent_p.P1008P|NBEA_uc010tee.1_Silent_p.P145P|NBEA_uc010tef.1_Silent_p.P145P|NBEA_uc010teg.1_Silent_p.P145P	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2352	BEACH.					cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CTTTGAACCCCAAGAGAGCTG	0.323													23	30	---	---	---	---	PASS	T	36158055	T	T	36158055	2	4	4	1	0	0	0	0	0	0	0	1	10187	581	21	3		3	NBEA	13	36158055	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	36158055	79011823	2599	3190	119	2								
DCLK1	9201	broad.mit.edu	37	chr13	36699922	36699922	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaccagttggtccaggctgGaaatcttcttgagcccatca	9	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:36699922G>A	uc001uvf.2	-	2	586	c.353C>T	c.(352-354)TCC>TTC	p.S118F		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	118	Doublecortin 1.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		GTCCAGGCTGGAAATCTTCTT	0.532													12	35	---	---	---	---	PASS	A	36699922	A	A	36699922	3	1	4	1	0	0	0	0	1	0	0	0	4291	1174	41	2	1904	2	DCLK1	13	36699922	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	541867	36699922	78469956	2600	3191										
CSNK1A1L	122011	broad.mit.edu	37	chr13	37679192	37679192	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggatgccaaccccaccttGaagaatcgtgtagagtttgc	12	10	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:37679192G>A	uc001uwm.1	-	1	610	c.202C>T	c.(202-204)CAA>TAA	p.Q68*		NM_145203	NP_660204	Q8N752	KC1AL_HUMAN	casein kinase 1, alpha 1-like	68	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)	1		Lung NSC(96;7.97e-05)|Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.109)		all cancers(112;3.58e-07)|Epithelial(112;1.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00695)|BRCA - Breast invasive adenocarcinoma(63;0.0117)|GBM - Glioblastoma multiforme(144;0.0407)		ACCCCACCTTGAAGAATCGTG	0.527													29	54	---	---	---	---	PASS	A	37679192	A	A	37679192	4	1	4	1	0	0	0	0	0	1	0	0	3951	1299	45	2	815	2	CSNK1A1L	13	37679192	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	979270	37679192	77490686	2601	3192										
TRPC4	7223	broad.mit.edu	37	chr13	38211570	38211570	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctgatctcggatgaatcaGggtggttaaatcaaaaaggc	12	6	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:38211570G>A	uc001uws.2	-	11	2639	c.2404C>T	c.(2404-2406)CTG>TTG	p.L802L	TRPC4_uc010abv.2_Silent_p.L382L|TRPC4_uc001uwt.2_Intron|TRPC4_uc010tey.1_Intron|TRPC4_uc010abw.2_Silent_p.L629L|TRPC4_uc010abx.2_Silent_p.L807L|TRPC4_uc010aby.2_Intron	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	802	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		GGATGAATCAGGGTGGTTAAA	0.453													14	23	---	---	---	---	PASS	A	38211570	A	A	38211570	2	1	4	1	0	0	0	0	0	0	0	1	16577	991	35	3		3	TRPC4	13	38211570	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	532378	38211570	76958308	2602	3193										
KCTD4	386618	broad.mit.edu	37	chr13	45768509	45768509	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaacgggcagaggatttttCcatttactataccttcaagg	8	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:45768509C>T	uc001uzx.3	-	2	598	c.194G>A	c.(193-195)GGA>GAA	p.G65E	GTF2F2_uc001uzv.2_Intron|GTF2F2_uc001uzw.2_Intron	NM_198404	NP_940686	Q8WVF5	KCTD4_HUMAN	potassium channel tetramerisation domain	65	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		Lung NSC(96;6.55e-05)|Breast(139;0.00378)|Prostate(109;0.00438)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000249)|BRCA - Breast invasive adenocarcinoma(63;0.207)		GAGGATTTTTCCATTTACTAT	0.413													12	89	---	---	---	---	PASS	T	45768509	T	T	45768509	3	4	4	1	0	0	0	0	1	0	0	0	8111	855	30	2	589	2	KCTD4	13	45768509	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	7556939	45768509	69401369	2603	3194										
SPERT	220082	broad.mit.edu	37	chr13	46287426	46287426	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggatggcgagccagcactCctatccactgaaccgcttct	9	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:46287426C>T	uc001van.1	+	3	346	c.266C>T	c.(265-267)TCC>TTC	p.S89F	SPERT_uc001vao.2_Missense_Mutation_p.S53F	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	89						cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		AGCCAGCACTCCTATCCACTG	0.682													10	13	---	---	---	---	PASS	T	46287426	T	T	46287426	3	4	4	1	0	0	0	0	1	0	0	0	15038	855	30	2	276	2	SPERT	13	46287426	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	518917	46287426	68882452	2604	3195										
SPERT	220082	broad.mit.edu	37	chr13	46288346	46288346	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcacaggggcttccaggagGagaacaaggccctgtgggag	17	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:46288346G>A	uc001van.1	+	3	1266	c.1186G>A	c.(1186-1188)GAG>AAG	p.E396K	SPERT_uc001vao.2_Missense_Mutation_p.E360K	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	396	Potential.					cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		CTTCCAGGAGGAGAACAAGGC	0.617													4	14	---	---	---	---	PASS	A	46288346	A	A	46288346	3	1	4	1	0	0	0	0	1	0	0	0	15038	1175	41	2	1196	2	SPERT	13	46288346	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	920	46288346	68881532	2605	3196										
ZC3H13	23091	broad.mit.edu	37	chr13	46543999	46543999	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctttcctttctggtttacGatcctcctctttccatctac	3	15	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:46543999G>A	uc010tfw.1	-	13	2686	c.2680C>T	c.(2680-2682)CGT>TGT	p.R894C	ZC3H13_uc001vaq.2_5'Flank|ZC3H13_uc001vas.1_Missense_Mutation_p.R894C|ZC3H13_uc001vat.1_Missense_Mutation_p.R894C	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	894							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		TCTGGTTTACGATCCTCCTCT	0.453													55	118	---	---	---	---	PASS	A	46543999	A	A	46543999	3	1	4	1	0	0	0	0	1	0	0	0	17562	1058	37	2	2030	2	ZC3H13	13	46543999	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	255653	46543999	68625879	2606	3197										
CPB2	1361	broad.mit.edu	37	chr13	46638865	46638865	+	Nonsense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagaaagaacggttctttctCcacattcgattctacataaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:46638865C>T	uc001vaw.2	-	8	781	c.714G>A	c.(712-714)TGG>TGA	p.W238*	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Nonsense_Mutation_p.W201*	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	238					blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		GGTTCTTTCTCCACATTCGAT	0.423													17	29	---	---	---	---	PASS	T	46638865	T	T	46638865	4	4	4	1	0	0	0	0	0	1	0	0	3797	856	30	2	573	2	CPB2	13	46638865	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	94866	46638865	68531013	2607	3198	120	2								
CPB2	1361	broad.mit.edu	37	chr13	46638866	46638866	+	Nonsense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaagaacggttctttctcCacattcgattctacataaac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:46638866C>T	uc001vaw.2	-	8	780	c.713G>A	c.(712-714)TGG>TAG	p.W238*	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Nonsense_Mutation_p.W201*	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	238					blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		GTTCTTTCTCCACATTCGATT	0.423													17	29	---	---	---	---	PASS	T	46638866	T	T	46638866	4	4	4	1	0	0	0	0	0	1	0	0	3797	595	21	3	574	3	CPB2	13	46638866	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	46638866	68531012	2608	3199	120	2								
LCP1	3936	broad.mit.edu	37	chr13	46708349	46708349	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtcatcattgaccttctgGccaccaccaatttcttcgag	6	13	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:46708349G>A	uc001vaz.3	-	14	1665	c.1539C>T	c.(1537-1539)GGC>GGT	p.G513G	LCP1_uc010ack.2_Silent_p.G82G|LCP1_uc001vay.3_Silent_p.G110G|LCP1_uc001vba.3_Silent_p.G513G	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	513	Actin-binding 2.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		TGACCTTCTGGCCACCACCAA	0.343			T	BCL6	NHL 								11	35	---	---	---	---	PASS	A	46708349	A	A	46708349	2	1	4	1	0	0	0	0	0	0	0	1	8691	1190	42	3		3	LCP1	13	46708349	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	69483	46708349	68461529	2609	3200										
CYSLTR2	57105	broad.mit.edu	37	chr13	49281181	49281181	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccacatctgtgaacgttttCatgctaaatctggccatttc	6	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:49281181C>T	uc010acx.1	+	6	911	c.228C>T	c.(226-228)TTC>TTT	p.F76F	CYSLTR2_uc010acy.1_Silent_p.F76F|CYSLTR2_uc010acz.1_Silent_p.F76F|CYSLTR2_uc010ada.1_Silent_p.F76F|CYSLTR2_uc010adb.1_Silent_p.F76F|CYSLTR2_uc010adc.1_Silent_p.F76F|CYSLTR2_uc010add.1_Silent_p.F76F|CYSLTR2_uc010acw.1_Silent_p.F76F|CYSLTR2_uc001vck.2_Silent_p.F76F	NM_020377	NP_065110	Q9NS75	CLTR2_HUMAN	cysteinyl leukotriene receptor 2	76	Helical; Name=2; (Potential).				immune response	integral to membrane|plasma membrane				lung(2)	2		all_cancers(8;1.66e-53)|all_epithelial(8;1.96e-19)|all_lung(13;9.94e-09)|all_hematologic(8;7.13e-07)|Lung NSC(96;1.72e-06)|Breast(56;1.53e-05)|Acute lymphoblastic leukemia(8;6.86e-05)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0416)|Lung SC(185;0.0787)		GBM - Glioblastoma multiforme(99;1.19e-09)	Nedocromil(DB00716)	TGAACGTTTTCATGCTAAATC	0.413													7	26	---	---	---	---	PASS	T	49281181	T	T	49281181	2	4	4	1	0	0	0	0	0	0	0	1	4202	825	29	2		2	CYSLTR2	13	49281181	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2572832	49281181	65888697	2610	3201										
CDADC1	81602	broad.mit.edu	37	chr13	49842022	49842022	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagcaatctaaggcaaaacaTgaaagaccttatcctacttt	5	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:49842022T>G	uc001vcu.2	+	5	903	c.827T>G	c.(826-828)ATG>AGG	p.M276R	CDADC1_uc001vcs.1_RNA|CDADC1_uc001vct.1_Missense_Mutation_p.M158R|CDADC1_uc010tgk.1_Missense_Mutation_p.M78R|CDADC1_uc001vcv.2_RNA	NM_030911	NP_112173	Q9BWV3	CDAC1_HUMAN	cytidine and dCMP deaminase domain containing 1	276							hydrolase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		Lung NSC(96;0.000705)|Breast(56;0.0011)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;1.06e-08)|COAD - Colon adenocarcinoma(199;0.216)		AGGCAAAACATGAAAGACCTT	0.363													10	28	---	---	---	---	PASS	G	49842022	G	G	49842022	3	3	4	1	0	0	0	0	1	0	0	0	3053	1464	51	5	845	5	CDADC1	13	49842022	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	560841	49842022	65327856	2611	3202										
INTS6	26512	broad.mit.edu	37	chr13	51952577	51952577	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagatccaatgactcgatcaGattctattttggcctaaagt	7	9	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:51952577G>A	uc001vfk.2	-	12	2014	c.1400C>T	c.(1399-1401)TCT>TTT	p.S467F	INTS6_uc001vfi.2_Missense_Mutation_p.S151F|INTS6_uc001vfj.2_Missense_Mutation_p.S454F|INTS6_uc001vfl.2_Missense_Mutation_p.S289F	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	467					snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)		GACTCGATCAGATTCTATTTT	0.308													11	21	---	---	---	---	PASS	A	51952577	A	A	51952577	3	1	4	1	0	0	0	0	1	0	0	0	7782	942	33	2	1291	2	INTS6	13	51952577	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2110555	51952577	63217301	2612	3203										
WDFY2	115825	broad.mit.edu	37	chr13	52325496	52325496	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcacacgcgacaattgatctCctgtggcggtgatggtggga	15	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:52325496C>T	uc001vfp.2	+	8	1116	c.776C>T	c.(775-777)TCC>TTC	p.S259F	WDFY2_uc010ads.1_Missense_Mutation_p.S259F|WDFY2_uc010adt.1_RNA	NM_052950	NP_443182	Q96P53	WDFY2_HUMAN	WD repeat and FYVE domain containing 2	259	WD 6.						metal ion binding				0		Breast(56;0.000208)|Lung NSC(96;0.000517)|Prostate(109;0.0041)|Hepatocellular(98;0.0652)|Myeloproliferative disorder(33;0.164)|all_neural(104;0.191)		GBM - Glioblastoma multiforme(99;9e-08)		CAATTGATCTCCTGTGGCGGT	0.562													8	34	---	---	---	---	PASS	T	52325496	T	T	52325496	3	4	4	1	0	0	0	0	1	0	0	0	17266	855	30	2	806	2	WDFY2	13	52325496	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	372919	52325496	62844382	2613	3204										
CCDC70	83446	broad.mit.edu	37	chr13	52440034	52440034	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagagccctccttgaggggGagaaagccctgtgggaagat	15	8	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:52440034G>A	uc001vfu.3	+	2	816	c.520G>A	c.(520-522)GAG>AAG	p.E174K	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	174						extracellular region|plasma membrane					0		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)		CCTTGAGGGGGAGAAAGCCCT	0.557													35	69	---	---	---	---	PASS	A	52440034	A	A	52440034	3	1	4	1	0	0	0	0	1	0	0	0	2843	1175	41	2	522	2	CCDC70	13	52440034	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	114538	52440034	62729844	2614	3205										
ATP7B	540	broad.mit.edu	37	chr13	52548333	52548333	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagccaggggaatgagaactGgaagacctgtgatctgtccc	14	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:52548333G>T	uc001vfw.2	-	2	1180	c.1023C>A	c.(1021-1023)TCC>TCA	p.S341S	ATP7B_uc010adv.2_Silent_p.S341S|ATP7B_uc001vfx.2_Silent_p.S341S|ATP7B_uc001vfy.2_Intron|ATP7B_uc010tgt.1_Silent_p.S341S|ATP7B_uc010tgu.1_Silent_p.S341S|ATP7B_uc010tgv.1_Silent_p.S341S|ATP7B_uc010tgw.1_Silent_p.S309S	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	341	Poly-Ser.|Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		AATGAGAACTGGAAGACCTGT	0.557									Wilson_disease				27	56	---	---	---	---	PASS	T	52548333	T	T	52548333	2	4	4	1	0	0	0	0	0	0	0	1	1191	1335	47	3		3	ATP7B	13	52548333	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	108299	52548333	62621545	2615	3206										
ATP7B	540	broad.mit.edu	37	chr13	52548915	52548915	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggtcatgccctccacccgGagcttgaccacagcctcctg	9	18	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:52548915G>A	uc001vfw.2	-	2	598	c.441C>T	c.(439-441)CTC>CTT	p.L147L	ATP7B_uc010adv.2_Silent_p.L147L|ATP7B_uc001vfx.2_Silent_p.L147L|ATP7B_uc001vfy.2_Silent_p.L147L|ATP7B_uc010tgt.1_Silent_p.L147L|ATP7B_uc010tgu.1_Silent_p.L147L|ATP7B_uc010tgv.1_Silent_p.L147L|ATP7B_uc010tgw.1_Silent_p.L115L	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	147	HMA 2.|Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		CCTCCACCCGGAGCTTGACCA	0.577									Wilson_disease				17	12	---	---	---	---	PASS	A	52548915	A	A	52548915	2	1	4	1	0	0	0	0	0	0	0	1	1191	1161	41	2		2	ATP7B	13	52548915	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	582	52548915	62620963	2616	3207										
UTP14C	9724	broad.mit.edu	37	chr13	52604646	52604646	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgaccacacagtctccttCcgtgaggtctttggcagttc	9	14	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:52604646C>T	uc001vgb.2	+	2	2241	c.1706C>T	c.(1705-1707)TCC>TTC	p.S569F	UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	569					cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)		CAGTCTCCTTCCGTGAGGTCT	0.483													29	83	---	---	---	---	PASS	T	52604646	T	T	52604646	3	4	4	1	0	0	0	0	1	0	0	0	17093	855	30	2	1708	2	UTP14C	13	52604646	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	55731	52604646	62565232	2617	3208										
THSD1	55901	broad.mit.edu	37	chr13	52952155	52952155	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggaaactcgctgtcctcctGaaatgggcgttcctggcatg	12	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:52952155G>A	uc001vgo.2	-	5	2495	c.1950C>T	c.(1948-1950)TTC>TTT	p.F650F	THSD1_uc001vgp.2_Silent_p.F597F|THSD1_uc010tgz.1_Silent_p.F271F|THSD1_uc010aea.2_Silent_p.F111F	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	650	Cytoplasmic (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		CTGTCCTCCTGAAATGGGCGT	0.632													4	13	---	---	---	---	PASS	A	52952155	A	A	52952155	2	1	4	1	0	0	0	0	0	0	0	1	15874	1281	45	2		2	THSD1	13	52952155	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	347509	52952155	62217723	2618	3209										
THSD1	55901	broad.mit.edu	37	chr13	52971669	52971669	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatcaccagtttgtatccaAatttctgggccaggtcaatg	8	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:52971669A>G	uc001vgo.2	-	3	1264	c.719T>C	c.(718-720)TTT>TCT	p.F240S	THSD1_uc001vgp.2_Missense_Mutation_p.F240S|THSD1_uc010tgz.1_Intron|THSD1_uc010aea.2_Intron	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	240	Extracellular (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		TTTGTATCCAAATTTCTGGGC	0.562													6	13	---	---	---	---	PASS	G	52971669	G	G	52971669	3	3	4	1	0	0	0	0	1	0	0	0	15874	14	1	5	1851	5	THSD1	13	52971669	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	19514	52971669	62198209	2619	3210										
LECT1	11061	broad.mit.edu	37	chr13	53282789	53282789	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cactgtgtggtctttttgtgGtagttggaacaatttttctt	10	5	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:53282789G>A	uc001vhf.2	-	6	782	c.671C>T	c.(670-672)ACC>ATC	p.T224I	LECT1_uc001vhg.2_Missense_Mutation_p.T224I|LECT1_uc001vhh.2_Missense_Mutation_p.T213I	NM_007015	NP_008946	O75829	LECT1_HUMAN	leukocyte cell derived chemotaxin 1 isoform 1	224					cartilage development|proteoglycan metabolic process	endomembrane system|extracellular region|integral to membrane				ovary(2)	2		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.38e-08)		TCTTTTTGTGGTAGTTGGAAC	0.393													28	41	---	---	---	---	PASS	A	53282789	A	A	53282789	3	1	4	1	0	0	0	0	1	0	0	0	8712	1261	44	3	341	3	LECT1	13	53282789	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	311120	53282789	61887089	2620	3211										
TDRD3	81550	broad.mit.edu	37	chr13	61041372	61041372	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacttttctctttgctttagCctgaacacaccacctggaac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:61041372C>T	uc001via.2	+	5	863	c.75C>T	c.(73-75)AGC>AGT	p.S25S	TDRD3_uc010aef.2_5'UTR|TDRD3_uc001vhz.3_Silent_p.S25S|TDRD3_uc010aeg.2_Silent_p.S118S|TDRD3_uc001vib.3_Silent_p.S25S	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	25					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		TTTGCTTTAGCCTGAACACAC	0.269													25	46	---	---	---	---	PASS	T	61041372	T	T	61041372	2	4	4	1	0	0	0	0	0	0	0	1	15729	753	26	3		3	TDRD3	13	61041372	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	7758583	61041372	54128506	2621	3212	121	2								
TDRD3	81550	broad.mit.edu	37	chr13	61041373	61041373	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acttttctctttgctttagcCtgaacacaccacctggaact							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:61041373C>T	uc001via.2	+	5	864	c.76C>T	c.(76-78)CTG>TTG	p.L26L	TDRD3_uc010aef.2_5'UTR|TDRD3_uc001vhz.3_Silent_p.L26L|TDRD3_uc010aeg.2_Silent_p.L119L|TDRD3_uc001vib.3_Silent_p.L26L	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	26					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		TTGCTTTAGCCTGAACACACC	0.274													25	46	---	---	---	---	PASS	T	61041373	T	T	61041373	2	4	4	1	0	0	0	0	0	0	0	1	15729	695	24	3		3	TDRD3	13	61041373	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	61041373	54128505	2622	3213	121	2								
PCDH9	5101	broad.mit.edu	37	chr13	67801516	67801516	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctatattaggagggttatCatttacatcggtgacattga	10	5	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:67801516C>T	uc001vik.2	-	2	1749	c.1057G>A	c.(1057-1059)GAT>AAT	p.D353N	PCDH9_uc001vil.2_Missense_Mutation_p.D353N|PCDH9_uc010thl.1_Missense_Mutation_p.D353N|PCDH9_uc001vin.3_Missense_Mutation_p.D353N	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	353	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GGAGGGTTATCATTTACATCG	0.448													24	56	---	---	---	---	PASS	T	67801516	T	T	67801516	3	4	4	1	0	0	0	0	1	0	0	0	11518	826	29	2	2672	2	PCDH9	13	67801516	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6760143	67801516	47368362	2623	3214										
PCDH9	5101	broad.mit.edu	37	chr13	67802142	67802142	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggaaatattgatgacaggaGatggaaacatgggggcatta	14	3	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:67802142G>A	uc001vik.2	-	2	1123	c.431C>T	c.(430-432)TCT>TTT	p.S144F	PCDH9_uc001vil.2_Missense_Mutation_p.S144F|PCDH9_uc010thl.1_Missense_Mutation_p.S144F|PCDH9_uc001vin.3_Missense_Mutation_p.S144F	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	144	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GATGACAGGAGATGGAAACAT	0.408													24	56	---	---	---	---	PASS	A	67802142	A	A	67802142	3	1	4	1	0	0	0	0	1	0	0	0	11518	942	33	2	3298	2	PCDH9	13	67802142	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	626	67802142	47367736	2624	3215										
DACH1	1602	broad.mit.edu	37	chr13	72053449	72053449	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggcaactttcaacagcccCtgtacaaagaagatattcgg	8	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:72053449C>T	uc010thn.1	-	9	2146	c.1723_splice	c.e9-1	p.G575_splice	DACH1_uc010tho.1_Splice_Site_p.G427_splice|DACH1_uc010thp.1_Splice_Site_p.G373_splice	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a						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)		TCAACAGCCCCTGTACAAAGA	0.358													8	54	---	---	---	---	PASS	T	72053449	T	T	72053449	5	4	4	1	0	0	0	0	0	0	1	0	4220	695	24	3	414	3	DACH1	13	72053449	Splice_Site	SNP	C	TCGA-18-3409-01A-01D-0983-08	4251307	72053449	43116429	2625	3216										
PIBF1	10464	broad.mit.edu	37	chr13	73357624	73357624	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaaatgtctcgaaaaatttCaaaggagtcaaaaaaagtga	7	4	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:73357624C>T	uc001vjc.2	+	2	322	c.17C>T	c.(16-18)TCA>TTA	p.S6L	PIBF1_uc001vja.1_Missense_Mutation_p.S6L|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Missense_Mutation_p.S6L|PIBF1_uc010aep.2_Intron|DIS3_uc001viy.3_5'Flank|DIS3_uc001vix.3_5'Flank|DIS3_uc001viz.2_5'Flank	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	6						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		CGAAAAATTTCAAAGGAGTCA	0.279													21	38	---	---	---	---	PASS	T	73357624	T	T	73357624	3	4	4	1	0	0	0	0	1	0	0	0	11879	838	29	2	19	2	PIBF1	13	73357624	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1304175	73357624	41812254	2626	3217										
PIBF1	10464	broad.mit.edu	37	chr13	73428285	73428285	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttagaaaaacacgatcagctCttagacaggtaagcatcata	7	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:73428285C>T	uc001vjc.2	+	10	1619	c.1314C>T	c.(1312-1314)CTC>CTT	p.L438L	PIBF1_uc001vja.1_Silent_p.L438L|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Silent_p.L438L|PIBF1_uc010aep.2_Intron	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	438						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		ACGATCAGCTCTTAGACAGGT	0.328													8	42	---	---	---	---	PASS	T	73428285	T	T	73428285	2	4	4	1	0	0	0	0	0	0	0	1	11879	900	32	2		2	PIBF1	13	73428285	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	70661	73428285	41741593	2627	3218										
TBC1D4	9882	broad.mit.edu	37	chr13	75876395	75876395	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atacctaaatccacgagaatCgcatgctgctgagcagtgag	10	10	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:75876395C>T	uc001vjl.1	-	16	3242	c.2895G>A	c.(2893-2895)GCG>GCA	p.A965A	TBC1D4_uc010tht.1_Silent_p.A175A|TBC1D4_uc010thu.1_Silent_p.A122A|TBC1D4_uc010aer.2_Silent_p.A957A|TBC1D4_uc010aes.2_Silent_p.A902A	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	965	Rab-GAP TBC.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		CCACGAGAATCGCATGCTGCT	0.388													11	30	---	---	---	---	PASS	T	75876395	T	T	75876395	2	4	4	1	0	0	0	0	0	0	0	1	15619	871	31	2		2	TBC1D4	13	75876395	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2448110	75876395	39293483	2628	3219										
TBC1D4	9882	broad.mit.edu	37	chr13	75886895	75886895	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgctgttgcattgctgaggGagatttgttcatgggagaag	15	4	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:75886895G>A	uc001vjl.1	-	13	2709	c.2362C>T	c.(2362-2364)CCC>TCC	p.P788S	TBC1D4_uc010tht.1_5'UTR|TBC1D4_uc010thu.1_5'UTR|TBC1D4_uc010aer.2_Missense_Mutation_p.P780S|TBC1D4_uc010aes.2_Missense_Mutation_p.P725S	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	788						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		ATTGCTGAGGGAGATTTGTTC	0.498													15	26	---	---	---	---	PASS	A	75886895	A	A	75886895	3	1	4	1	0	0	0	0	1	0	0	0	15619	1174	41	2	1570	2	TBC1D4	13	75886895	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	10500	75886895	39282983	2629	3220										
SLITRK5	26050	broad.mit.edu	37	chr13	88328487	88328487	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggacgaggtatccaagcagGaactttgcccaaggagactt	12	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:88328487G>A	uc001vln.2	+	2	1063	c.844G>A	c.(844-846)GAA>AAA	p.E282K	SLITRK5_uc010tic.1_Missense_Mutation_p.E41K	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	282	LRRCT 1.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					ATCCAAGCAGGAACTTTGCCC	0.542													19	39	---	---	---	---	PASS	A	88328487	A	A	88328487	3	1	4	1	0	0	0	0	1	0	0	0	14746	1175	41	2	846	2	SLITRK5	13	88328487	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	12441592	88328487	26841391	2630	3221										
SLITRK5	26050	broad.mit.edu	37	chr13	88328520	88328520	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagacttatttctgactacGagatgaggccgcagacgcct	12	10	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:88328520G>A	uc001vln.2	+	2	1096	c.877G>A	c.(877-879)GAG>AAG	p.E293K	SLITRK5_uc010tic.1_Missense_Mutation_p.E52K	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	293	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					TTCTGACTACGAGATGAGGCC	0.537													23	36	---	---	---	---	PASS	A	88328520	A	A	88328520	3	1	4	1	0	0	0	0	1	0	0	0	14746	1059	37	2	879	2	SLITRK5	13	88328520	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	33	88328520	26841358	2631	3222										
GPC5	2262	broad.mit.edu	37	chr13	92345891	92345891	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgaagatgcaatactgccCgcactgccaaggcctggcgc	11	15	0	2	rs141328977		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:92345891C>T	uc010tif.1	+	3	1142	c.776C>T	c.(775-777)CCG>CTG	p.P259L		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	259						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				CAATACTGCCCGCACTGCCAA	0.552													20	25	---	---	---	---	PASS	T	92345891	T	T	92345891	3	4	4	1	0	0	0	0	1	0	0	0	6601	652	23	1	786	1	GPC5	13	92345891	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4017371	92345891	22823987	2632	3223										
DCT	1638	broad.mit.edu	37	chr13	95121299	95121299	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aattatagccggcaaagtttCctagttcacaaaacagaaag	7	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:95121299C>T	uc001vlv.3	-	2	723	c.296G>A	c.(295-297)GGA>GAA	p.G99E	DCT_uc010afh.2_Missense_Mutation_p.G99E	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	99	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		GGCAAAGTTTCCTAGTTCACA	0.438													31	63	---	---	---	---	PASS	T	95121299	T	T	95121299	3	4	4	1	0	0	0	0	1	0	0	0	4304	869	30	2	1398	2	DCT	13	95121299	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2775408	95121299	20048579	2633	3224										
CLDN10	9071	broad.mit.edu	37	chr13	96230168	96230168	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttcagatacacatacaacgGggccacatctgtcatgtctt	7	11	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:96230168G>A	uc001vmh.2	+	5	648	c.587G>A	c.(586-588)GGG>GAG	p.G196E	CLDN10_uc001vmg.2_Missense_Mutation_p.G194E|CLDN10_uc010tii.1_Missense_Mutation_p.G175E|DZIP1_uc010afn.2_Intron	NM_006984	NP_008915	P78369	CLD10_HUMAN	claudin 10 isoform b	196	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.18)			ACATACAACGGGGCCACATCT	0.378													14	20	---	---	---	---	PASS	A	96230168	A	A	96230168	3	1	4	1	0	0	0	0	1	0	0	0	3472	1232	43	3	823	3	CLDN10	13	96230168	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1108869	96230168	18939710	2634	3225										
UGGT2	55757	broad.mit.edu	37	chr13	96555192	96555192	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agttgcccaagaaagcttctCaaaaacatgttcttctgtgt	7	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:96555192C>A	uc001vmt.2	-	21	2588	c.2418G>T	c.(2416-2418)TTG>TTT	p.L806F		NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	806					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						GAAAGCTTCTCAAAAACATGT	0.338													20	33	---	---	---	---	PASS	A	96555192	A	A	96555192	3	1	4	1	0	0	0	0	1	0	0	0	16939	825	29	2	2208	2	UGGT2	13	96555192	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	325024	96555192	18614686	2635	3226										
FARP1	10160	broad.mit.edu	37	chr13	99037085	99037085	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggacaaaatcgtggaatttCaccataaccacatgtaagtc	7	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:99037085C>T	uc001vnj.2	+	7	934	c.598C>T	c.(598-600)CAC>TAC	p.H200Y	FARP1_uc001vnh.2_Missense_Mutation_p.H200Y	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	200	FERM.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			CGTGGAATTTCACCATAACCA	0.463													15	36	---	---	---	---	PASS	T	99037085	T	T	99037085	3	4	4	1	0	0	0	0	1	0	0	0	5676	826	29	2	843	2	FARP1	13	99037085	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2481893	99037085	16132793	2636	3227										
CLYBL	171425	broad.mit.edu	37	chr13	100515265	100515265	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgcagacaaattttcattCcacttaaaaggccgaaaact	5	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:100515265C>T	uc001vok.2	+	4	473	c.459C>T	c.(457-459)TTC>TTT	p.F153F	CLYBL_uc010tix.1_Silent_p.F153F|CLYBL_uc010tiy.1_Intron	NM_206808	NP_996531	Q8N0X4	CLYBL_HUMAN	citrate lyase beta like precursor	153					cellular aromatic compound metabolic process	citrate lyase complex|mitochondrion	citrate (pro-3S)-lyase activity|metal ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					AATTTTCATTCCACTTAAAAG	0.353													6	30	---	---	---	---	PASS	T	100515265	T	T	100515265	2	4	4	1	0	0	0	0	0	0	0	1	3573	854	30	2		2	CLYBL	13	100515265	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1478180	100515265	14654613	2637	3228										
FAM155A	728215	broad.mit.edu	37	chr13	107823060	107823060	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctacggtccctttggatgGgttatttgatttttcttctc	8	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:107823060G>A	uc001vql.2	-	3	1678	c.1162C>T	c.(1162-1164)CCA>TCA	p.P388S		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	388						integral to membrane	binding			skin(1)	1						CCTTTGGATGGGTTATTTGAT	0.458													3	18	---	---	---	---	PASS	A	107823060	A	A	107823060	3	1	4	1	0	0	0	0	1	0	0	0	5465	1232	43	3	218	3	FAM155A	13	107823060	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	7307795	107823060	7346818	2638	3229										
LIG4	3981	broad.mit.edu	37	chr13	108862306	108862306	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctcttttgtctggcttgtaGatggatagaggttgttttac	11	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:108862306G>A	uc001vqn.2	-	2	1584	c.1311C>T	c.(1309-1311)ATC>ATT	p.I437I	LIG4_uc001vqo.2_Silent_p.I437I|LIG4_uc010agg.1_Silent_p.I370I|LIG4_uc010agf.2_Silent_p.I437I|LIG4_uc001vqp.2_Silent_p.I437I	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	437					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					CTGGCTTGTAGATGGATAGAG	0.343								NHEJ					34	108	---	---	---	---	PASS	A	108862306	A	A	108862306	2	1	4	1	0	0	0	0	0	0	0	1	8783	932	33	2		2	LIG4	13	108862306	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1039246	108862306	6307572	2639	3230										
MYO16	23026	broad.mit.edu	37	chr13	109672195	109672195	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtactcccccatgaaggatgGgaatgggaatgttgccctca	12	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:109672195G>A	uc001vqt.1	+	23	2792	c.2666G>A	c.(2665-2667)GGG>GAG	p.G889E	MYO16_uc010agk.1_Missense_Mutation_p.G911E|MYO16_uc001vqu.1_Missense_Mutation_p.G689E|MYO16_uc010tjh.1_Missense_Mutation_p.G401E	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	889	Myosin head-like 2.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			ATGAAGGATGGGAATGGGAAT	0.443													23	34	---	---	---	---	PASS	A	109672195	A	A	109672195	3	1	4	1	0	0	0	0	1	0	0	0	10064	1232	43	3	2752	3	MYO16	13	109672195	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	809889	109672195	5497683	2640	3231										
COL4A1	1282	broad.mit.edu	37	chr13	110826824	110826824	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgacaccagggatgccatcCaatcctgggaggcctttgtc	11	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:110826824C>T	uc001vqw.3	-	39	3497	c.3375G>A	c.(3373-3375)TTG>TTA	p.L1125L	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1125	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			GGATGCCATCCAATCCTGGGA	0.517													9	13	---	---	---	---	PASS	T	110826824	T	T	110826824	2	4	4	1	0	0	0	0	0	0	0	1	3689	593	21	3		3	COL4A1	13	110826824	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1154629	110826824	4343054	2641	3232										
TUBGCP3	10426	broad.mit.edu	37	chr13	113212713	113212713	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggcctgagcaaataacgtAgcatagctagaaacctgaaa	9	8	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:113212713A>G	uc001vse.1	-	5	532	c.345T>C	c.(343-345)GCT>GCC	p.A115A	TUBGCP3_uc010tjq.1_Intron|TUBGCP3_uc001vsf.2_Silent_p.A115A|TUBGCP3_uc001vsg.1_Silent_p.A115A	NM_006322	NP_006313	Q96CW5	GCP3_HUMAN	tubulin, gamma complex associated protein 3	115					G2/M transition of mitotic cell cycle|microtubule nucleation|single fertilization	centriole|cytosol|polar microtubule	gamma-tubulin binding|structural constituent of cytoskeleton			central_nervous_system(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)					CAAATAACGTAGCATAGCTAG	0.453													5	20	---	---	---	---	PASS	G	113212713	G	G	113212713	2	3	4	1	0	0	0	0	0	0	0	1	16764	407	15	5		5	TUBGCP3	13	113212713	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	2385889	113212713	1957165	2642	3233										
ATP11A	23250	broad.mit.edu	37	chr13	113514664	113514664	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcacctccctccccatcctcCtgtacagcctcatggagcag	6	19	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:113514664C>T	uc001vsi.3	+	24	2879	c.2791C>T	c.(2791-2793)CTG>TTG	p.L931L	ATP11A_uc001vsj.3_Silent_p.L931L|ATP11A_uc001vsm.1_Silent_p.L807L|ATP11A_uc010ago.2_Intron	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	931	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				CCCCATCCTCCTGTACAGCCT	0.537													8	39	---	---	---	---	PASS	T	113514664	T	T	113514664	2	4	4	1	0	0	0	0	0	0	0	1	1119	680	24	3		3	ATP11A	13	113514664	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	301951	113514664	1655214	2643	3234										
F10	2159	broad.mit.edu	37	chr13	113777207	113777207	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctcgtcctgctcagtgcctCcctggctggcctcctgctgc	10	19	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:113777207C>T	uc001vsx.2	+	1	95	c.38C>T	c.(37-39)TCC>TTC	p.S13F	F10_uc010agq.1_RNA|F10_uc001vsy.2_Missense_Mutation_p.S13F|F10_uc001vsz.2_Missense_Mutation_p.S13F	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	13					blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTCAGTGCCTCCCTGGCTGGC	0.662													6	15	---	---	---	---	PASS	T	113777207	T	T	113777207	3	4	4	1	0	0	0	0	1	0	0	0	5336	855	30	2	40	2	F10	13	113777207	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	262543	113777207	1392671	2644	3235										
PCID2	55795	broad.mit.edu	37	chr13	113832535	113832535	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acacaccgtggacaggggagGaaatgggttctgcttgctga	15	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:113832535G>A	uc010tju.1	-	14	1258	c.1177C>T	c.(1177-1179)CCT>TCT	p.P393S	PCID2_uc001vtb.2_Missense_Mutation_p.P226S|PCID2_uc010tjv.1_Missense_Mutation_p.P393S|PCID2_uc010tjw.1_Missense_Mutation_p.P393S|PCID2_uc001vte.2_Missense_Mutation_p.P286S|PCID2_uc001vtd.2_Missense_Mutation_p.P286S|PCID2_uc001vtf.2_Missense_Mutation_p.P286S	NM_001127203	NP_001120675	Q5JVF3	PCID2_HUMAN	PCI domain containing 2	393					negative regulation of apoptosis|negative regulation of cysteine-type endopeptidase activity|positive regulation of mitotic cell cycle spindle assembly checkpoint|positive regulation of transcription, DNA-dependent|regulation of mRNA stability|spleen development		protein binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.216)|all_epithelial(44;0.234)	all cancers(43;0.104)			GACAGGGGAGGAAATGGGTTC	0.542													10	46	---	---	---	---	PASS	A	113832535	A	A	113832535	3	1	4	1	0	0	0	0	1	0	0	0	11579	1174	41	2	26	2	PCID2	13	113832535	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	55328	113832535	1337343	2645	3236										
DCUN1D2	55208	broad.mit.edu	37	chr13	114138238	114138238	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtggagcgagtctgggtttTggaagaagctgtccgtggcc	17	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:114138238T>C	uc001vtr.1	-	2	176	c.137A>G	c.(136-138)CAA>CGA	p.Q46R	DCUN1D2_uc001vts.1_RNA|DCUN1D2_uc010agw.1_Intron	NM_001014283	NP_001014305	Q6PH85	DCNL2_HUMAN	DCN1, defective in cullin neddylation 1, domain	46											0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0395)|all_epithelial(44;0.011)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.029)|GBM - Glioblastoma multiforme(44;0.234)			GTCTGGGTTTTGGAAGAAGCT	0.557													33	79	---	---	---	---	PASS	C	114138238	C	C	114138238	3	2	4	1	0	0	0	0	1	0	0	0	4314	1812	63	5	666	5	DCUN1D2	13	114138238	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	305703	114138238	1031640	2646	3237										
RASA3	22821	broad.mit.edu	37	chr13	114817534	114817534	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attcatcacctacctatgatGgaatccctccggaaaacgtc	6	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr13:114817534G>A	uc001vui.2	-	3	401	c.270C>T	c.(268-270)TCC>TCT	p.S90S	RASA3_uc010tkk.1_Silent_p.S58S|RASA3_uc001vuj.2_5'UTR|RASA3_uc010tkl.1_RNA	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	90	C2 1.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			TACCTATGATGGAATCCCTCC	0.473													7	28	---	---	---	---	PASS	A	114817534	A	A	114817534	2	1	4	1	0	0	0	0	0	0	0	1	13062	1335	47	3		3	RASA3	13	114817534	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	679296	114817534	352344	2647	3238										
OR4Q3	441669	broad.mit.edu	37	chr14	20216115	20216115	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgggcccaatgaactggacAacttctactgtgatgtccca	10	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:20216115A>T	uc010tkt.1	+	1	529	c.529A>T	c.(529-531)AAC>TAC	p.N177Y		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	177	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGAACTGGACAACTTCTACTG	0.507													8	56	---	---	---	---	PASS	T	20216115	T	T	20216115	3	4	4	1	0	0	0	0	1	0	0	0	11081	130	5	5	531	5	OR4Q3	14	20216115	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08		20216115	87133425	2648	3239										
OR4K5	79317	broad.mit.edu	37	chr14	20389490	20389490	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcattttctacgctggcttCccatattgcagtagtaatat	8	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:20389490C>T	uc010tkw.1	+	1	725	c.725C>T	c.(724-726)TCC>TTC	p.S242F		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ACGCTGGCTTCCCATATTGCA	0.403													23	139	---	---	---	---	PASS	T	20389490	T	T	20389490	3	4	4	1	0	0	0	0	1	0	0	0	11073	855	30	2	727	2	OR4K5	14	20389490	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	173375	20389490	86960050	2649	3240										
OR4K14	122740	broad.mit.edu	37	chr14	20483071	20483071	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgagccatacatcctccaaaGgagatgagtttttgatcact	8	9	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:20483071G>A	uc010tky.1	-	1	282	c.282C>T	c.(280-282)TCC>TCT	p.S94S		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		ATCCTCCAAAGGAGATGAGTT	0.483													34	34	---	---	---	---	PASS	A	20483071	A	A	20483071	2	1	4	1	0	0	0	0	0	0	0	1	11069	987	35	3		3	OR4K14	14	20483071	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	93581	20483071	86866469	2650	3241										
OR4N5	390437	broad.mit.edu	37	chr14	20612188	20612188	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctcctatagaagctgcatCactcagctctttttcttgca	5	12	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:20612188C>T	uc010tla.1	+	1	294	c.294C>T	c.(292-294)ATC>ATT	p.I98I		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)		GAAGCTGCATCACTCAGCTCT	0.493													12	93	---	---	---	---	PASS	T	20612188	T	T	20612188	2	4	4	1	0	0	0	0	0	0	0	1	11079	816	29	2		2	OR4N5	14	20612188	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	129117	20612188	86737352	2651	3242										
TEP1	7011	broad.mit.edu	37	chr14	20864797	20864797	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taccgcatgctggagtctctGgagaatgagctcatggtggc	14	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:20864797G>A	uc001vxe.2	-	10	1682	c.1642C>T	c.(1642-1644)CAG>TAG	p.Q548*	TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Nonsense_Mutation_p.Q440*	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	548	TROVE.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		TGGAGTCTCTGGAGAATGAGC	0.572													4	27	---	---	---	---	PASS	A	20864797	A	A	20864797	4	1	4	1	0	0	0	0	0	1	0	0	15756	1357	47	3	6425	3	TEP1	14	20864797	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	252609	20864797	86484743	2652	3243										
OSGEP	55644	broad.mit.edu	37	chr14	20916906	20916906	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcacctcaatgaaagacaGgatccctgagaatgagacgt	9	10	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:20916906G>A	uc001vxf.2	-	6	978	c.622C>T	c.(622-624)CTG>TTG	p.L208L		NM_017807	NP_060277	Q9NPF4	OSGEP_HUMAN	O-sialoglycoprotein endopeptidase	208					proteolysis|tRNA processing		metal ion binding|metalloendopeptidase activity|protein binding				0	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;1.09e-07)|all cancers(55;1.19e-06)	GBM - Glioblastoma multiforme(265;0.0231)|READ - Rectum adenocarcinoma(17;0.196)		ATGAAAGACAGGATCCCTGAG	0.438													7	33	---	---	---	---	PASS	A	20916906	A	A	20916906	2	1	4	1	0	0	0	0	0	0	0	1	11287	991	35	3		3	OSGEP	14	20916906	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	52109	20916906	86432634	2653	3244										
OR6S1	341799	broad.mit.edu	37	chr14	21109437	21109437	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgaaagcacacagccccactCatgagcaaggggtagcgcag	12	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:21109437C>T	uc001vxv.1	-	1	414	c.414G>A	c.(412-414)ATG>ATA	p.M138I		NM_001001968	NP_001001968	Q8NH40	OR6S1_HUMAN	olfactory receptor, family 6, subfamily S,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00304)		Epithelial(56;1.23e-06)|all cancers(55;1.01e-05)	GBM - Glioblastoma multiforme(265;0.0135)		CAGCCCCACTCATGAGCAAGG	0.587													15	16	---	---	---	---	PASS	T	21109437	T	T	21109437	3	4	4	1	0	0	0	0	1	0	0	0	11209	826	29	2	585	2	OR6S1	14	21109437	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	192531	21109437	86240103	2654	3245										
RNASE13	440163	broad.mit.edu	37	chr14	21502423	21502423	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagaacaagctggaggaaaaGgagccgggtcacagctggtg	16	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:21502423G>A	uc001vzj.2	-	2	163	c.25C>T	c.(25-27)CTT>TTT	p.L9F	NDRG2_uc010tll.1_Intron	NM_001012264	NP_001012264	Q5GAN3	RNS13_HUMAN	ribonuclease, RNase A family, 13 precursor	9						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			upper_aerodigestive_tract(1)	1	all_cancers(95;0.000759)		OV - Ovarian serous cystadenocarcinoma(11;6.85e-11)|Epithelial(56;9.49e-09)|all cancers(55;3.84e-08)	GBM - Glioblastoma multiforme(265;0.019)		TGGAGGAAAAGGAGCCGGGTC	0.552													14	24	---	---	---	---	PASS	A	21502423	A	A	21502423	3	1	4	1	0	0	0	0	1	0	0	0	13403	1000	35	3	449	3	RNASE13	14	21502423	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	392986	21502423	85847117	2655	3246										
OR5AU1	390445	broad.mit.edu	37	chr14	21623338	21623338	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatgccttaaacctgccctGggccgagctcattttcagga	9	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:21623338G>A	uc010tlp.1	-	1	847	c.847C>T	c.(847-849)CAG>TAG	p.Q283*		NM_001004731	NP_001004731	Q8NGC0	O5AU1_HUMAN	olfactory receptor, family 5, subfamily AU,	283	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(95;0.00238)		Epithelial(56;6.88e-07)|all cancers(55;6.02e-06)	GBM - Glioblastoma multiforme(265;0.0192)		AACCTGCCCTGGGCCGAGCTC	0.493													14	10	---	---	---	---	PASS	A	21623338	A	A	21623338	4	1	4	1	0	0	0	0	0	1	0	0	11147	1357	47	3	244	3	OR5AU1	14	21623338	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	120915	21623338	85726202	2656	3247										
SUPT16H	11198	broad.mit.edu	37	chr14	21831642	21831642	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actttcttcttcacagaagtGagaacagtagctgggccatc	9	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:21831642G>A	uc001wao.2	-	11	1593	c.1254C>T	c.(1252-1254)CTC>CTT	p.L418L		NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	418					DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		TCACAGAAGTGAGAACAGTAG	0.353													11	22	---	---	---	---	PASS	A	21831642	A	A	21831642	2	1	4	1	0	0	0	0	0	0	0	1	15393	1277	45	2		2	SUPT16H	14	21831642	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	208304	21831642	85517898	2657	3248										
CHD8	57680	broad.mit.edu	37	chr14	21881137	21881137	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atccacctctacgtagtctgGattaaagggctcttcatcct	7	12	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:21881137G>A	uc001was.1	-	10	1418	c.1324C>T	c.(1324-1326)CCA>TCA	p.P442S	CHD8_uc001war.1_Missense_Mutation_p.P338S|CHD8_uc001wav.1_5'Flank	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	721					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		ACGTAGTCTGGATTAAAGGGC	0.368													13	10	---	---	---	---	PASS	A	21881137	A	A	21881137	3	1	4	1	0	0	0	0	1	0	0	0	3331	1174	41	2	5700	2	CHD8	14	21881137	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	49495	21881137	85468403	2658	3249										
OXA1L	5018	broad.mit.edu	37	chr14	23235850	23235850	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcccgcctccaaaagtgcttCctctcgaggggttgtggttc	12	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:23235850C>T	uc001wgn.2	+	1	120	c.120C>T	c.(118-120)TTC>TTT	p.F40F	OXA1L_uc010tnc.1_Silent_p.F40F|OXA1L_uc001wgo.2_RNA|OXA1L_uc010akc.2_Silent_p.F40F|OXA1L_uc001wgp.2_5'Flank|OXA1L_uc001wgq.2_5'Flank	NM_005015	NP_005006	Q15070	OXA1L_HUMAN	oxidase (cytochrome c) assembly 1-like	Error:Variant_position_missing_in_Q15070_after_alignment					aerobic respiration|mitochondrial proton-transporting ATP synthase complex assembly|mitochondrial respiratory chain complex I assembly|negative regulation of ATPase activity|negative regulation of oxidoreductase activity|protein insertion into membrane|protein tetramerization	integral to mitochondrial membrane|mitochondrial respiratory chain|protein complex	protein homodimerization activity|ribosome binding			central_nervous_system(1)	1	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.0096)		AAAAGTGCTTCCTCTCGAGGG	0.547													13	85	---	---	---	---	PASS	T	23235850	T	T	23235850	2	4	4	1	0	0	0	0	0	0	0	1	11328	854	30	2		2	OXA1L	14	23235850	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1354713	23235850	84113690	2659	3250										
PSMB5	5693	broad.mit.edu	37	chr14	23502794	23502794	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgcctagcaggtatgggttGatctctatcaccttcttcac	9	11	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:23502794G>A	uc001wii.2	-	2	552	c.288C>T	c.(286-288)ATC>ATT	p.I96I	PSMB5_uc001wij.2_Silent_p.I96I|PSMB5_uc010tni.1_5'UTR	NM_002797	NP_002788	P28074	PSB5_HUMAN	proteasome beta 5 subunit isoform 1	96					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|viral reproduction	cytoplasm|nucleus	protein binding|threonine-type endopeptidase activity			ovary(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.0121)	Bortezomib(DB00188)	GGTATGGGTTGATCTCTATCA	0.542													4	23	---	---	---	---	PASS	A	23502794	A	A	23502794	2	1	4	1	0	0	0	0	0	0	0	1	12680	1280	45	2		2	PSMB5	14	23502794	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	266944	23502794	83846746	2660	3251										
CMTM5	116173	broad.mit.edu	37	chr14	23847659	23847659	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acacttgccttcctcttcctCtatgccacccagtactacca	3	18	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:23847659C>T	uc010akm.2	+	2	672	c.228C>T	c.(226-228)CTC>CTT	p.L76L	CMTM5_uc001wjs.2_Silent_p.L76L|CMTM5_uc001wjt.2_Silent_p.L76L|CMTM5_uc010akn.2_Intron|CMTM5_uc001wju.2_Intron|CMTM5_uc010ako.2_Intron	NM_138460	NP_612469	Q96DZ9	CKLF5_HUMAN	chemokine-like factor superfamily 5 isoform a	76	Helical; (Potential).|MARVEL.				chemotaxis	extracellular space|integral to membrane	cytokine activity				0	all_cancers(95;2e-05)			GBM - Glioblastoma multiforme(265;0.0064)|READ - Rectum adenocarcinoma(4;0.0276)|Colorectal(4;0.0382)		TCCTCTTCCTCTATGCCACCC	0.577													43	55	---	---	---	---	PASS	T	23847659	T	T	23847659	2	4	4	1	0	0	0	0	0	0	0	1	3586	900	32	2		2	CMTM5	14	23847659	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	344865	23847659	83501881	2661	3252										
MYH6	4624	broad.mit.edu	37	chr14	23863333	23863333	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcagggacaccatcttctCctccagctccttgcggcgag	10	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:23863333C>T	uc001wjv.2	-	21	2696	c.2629G>A	c.(2629-2631)GAG>AAG	p.E877K		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	877	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		ACCATCTTCTCCTCCAGCTCC	0.602													8	52	---	---	---	---	PASS	T	23863333	T	T	23863333	3	4	4	1	0	0	0	0	1	0	0	0	10038	864	30	2	3266	2	MYH6	14	23863333	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	15674	23863333	83486207	2662	3253										
MYH6	4624	broad.mit.edu	37	chr14	23869531	23869531	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaatgtccactcaatgccCtccttcttgtactcctcctg	5	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:23869531C>T	uc001wjv.2	-	14	1582	c.1515G>A	c.(1513-1515)GAG>GAA	p.E505E	MYH6_uc010akp.1_Silent_p.E505E	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	505	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		ACTCAATGCCCTCCTTCTTGT	0.542													46	26	---	---	---	---	PASS	T	23869531	T	T	23869531	2	4	4	1	0	0	0	0	0	0	0	1	10038	680	24	3		3	MYH6	14	23869531	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	6198	23869531	83480009	2663	3254										
LRRC16B	90668	broad.mit.edu	37	chr14	24528918	24528918	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatctgccctgggcttcctGgacatcgcaagggccctgga	12	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:24528918G>A	uc001wlj.2	+	22	2002	c.1845G>A	c.(1843-1845)CTG>CTA	p.L615L	LRRC16B_uc001wlk.2_5'Flank	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	615										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		TGGGCTTCCTGGACATCGCAA	0.592													16	13	---	---	---	---	PASS	A	24528918	A	A	24528918	2	1	4	1	0	0	0	0	0	0	0	1	8972	1335	47	3		3	LRRC16B	14	24528918	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	659387	24528918	82820622	2664	3255										
NYNRIN	57523	broad.mit.edu	37	chr14	24878047	24878047	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtgcccaccctggaaggcCtggaccccggggccagcctt	14	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:24878047C>G	uc001wpf.3	+	4	1365	c.1047C>G	c.(1045-1047)GCC>GCG	p.A349A		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	349					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						CCTGGAAGGCCTGGACCCCGG	0.572													4	21	---	---	---	---	PASS	G	24878047	G	G	24878047	2	3	4	1	0	0	0	0	0	0	0	1	10796	668	24	4		4	NYNRIN	14	24878047	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	349129	24878047	82471493	2665	3256										
NYNRIN	57523	broad.mit.edu	37	chr14	24884157	24884157	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttctccctacctgggcatcCcctgggatggaaaggctccc	10	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:24884157C>T	uc001wpf.3	+	9	3520	c.3202C>T	c.(3202-3204)CCC>TCC	p.P1068S		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	1068					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						CCTGGGCATCCCCTGGGATGG	0.627													27	21	---	---	---	---	PASS	T	24884157	T	T	24884157	3	4	4	1	0	0	0	0	1	0	0	0	10796	623	22	3	3232	3	NYNRIN	14	24884157	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6110	24884157	82465383	2666	3257										
KHNYN	23351	broad.mit.edu	37	chr14	24901146	24901146	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgccaaggagtgagagctCcccctagtgacggcagggag	16	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:24901146C>T	uc001wph.3	+	3	881	c.679C>T	c.(679-681)CCC>TCC	p.P227S	KHNYN_uc010tpc.1_Missense_Mutation_p.P268S|KHNYN_uc010alw.2_Missense_Mutation_p.P227S|CBLN3_uc001wpg.3_5'Flank	NM_015299	NP_056114	O15037	KHNYN_HUMAN	hypothetical protein LOC23351	227										ovary(2)|liver(1)	3						AGTGAGAGCTCCCCCTAGTGA	0.642											OREG0022627	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	40	---	---	---	---	PASS	T	24901146	T	T	24901146	3	4	4	1	0	0	0	0	1	0	0	0	8150	855	30	2	685	2	KHNYN	14	24901146	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	16989	24901146	82448394	2667	3258										
CTSG	1511	broad.mit.edu	37	chr14	25043013	25043013	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcagggggcctccggaatCcccctgtaggtagagaggag	16	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:25043013C>T	uc001wpq.2	-	5	635	c.598G>A	c.(598-600)GAT>AAT	p.D200N		NM_001911	NP_001902	P08311	CATG_HUMAN	cathepsin G preproprotein	200	Peptidase S1.				immune response|proteolysis	cell surface|extracellular space|plasma membrane|stored secretory granule	heparin binding|serine-type endopeptidase activity			ovary(2)	2				GBM - Glioblastoma multiforme(265;0.0269)		CCTCCGGAATCCCCCTGTAGG	0.622													8	47	---	---	---	---	PASS	T	25043013	T	T	25043013	3	4	4	1	0	0	0	0	1	0	0	0	4035	855	30	2	173	2	CTSG	14	25043013	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	141867	25043013	82306527	2668	3259										
CTSG	1511	broad.mit.edu	37	chr14	25043646	25043646	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcccgggtctcagtccctcCtgggctctaggcagagccac	12	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:25043646C>T	uc001wpq.2	-	4	436	c.399G>A	c.(397-399)CAG>CAA	p.Q133Q		NM_001911	NP_001902	P08311	CATG_HUMAN	cathepsin G preproprotein	133	Peptidase S1.				immune response|proteolysis	cell surface|extracellular space|plasma membrane|stored secretory granule	heparin binding|serine-type endopeptidase activity			ovary(2)	2				GBM - Glioblastoma multiforme(265;0.0269)		TCAGTCCCTCCTGGGCTCTAG	0.622													7	57	---	---	---	---	PASS	T	25043646	T	T	25043646	2	4	4	1	0	0	0	0	0	0	0	1	4035	680	24	3		3	CTSG	14	25043646	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	633	25043646	82305894	2669	3260										
GZMB	3002	broad.mit.edu	37	chr14	25102253	25102253	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtggggcttggcctcatgtCccccgatgatctcccctgaa	11	14	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:25102253C>T	uc001wps.2	-	2	137	c.71G>A	c.(70-72)GGA>GAA	p.G24E	GZMB_uc010ama.2_Missense_Mutation_p.G12E|GZMB_uc010amb.2_RNA	NM_004131	NP_004122	P10144	GRAB_HUMAN	granzyme B precursor	24	Peptidase S1.				activation of pro-apoptotic gene products|cleavage of lamin|cytolysis|induction of apoptosis by intracellular signals	cytosol|immunological synapse|nucleus	protein binding|serine-type endopeptidase activity				0				GBM - Glioblastoma multiforme(265;0.028)		GGCCTCATGTCCCCCGATGAT	0.567													13	64	---	---	---	---	PASS	T	25102253	T	T	25102253	3	4	4	1	0	0	0	0	1	0	0	0	6916	855	30	2	688	2	GZMB	14	25102253	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	58607	25102253	82247287	2670	3261										
PRKD1	5587	broad.mit.edu	37	chr14	30103746	30103746	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatattgttgcttgttgatgGacttgagaagtcaaaatatt	10	3	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:30103746G>A	uc001wqh.2	-	8	1373	c.1192C>T	c.(1192-1194)CCA>TCA	p.P398S		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	398					cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		CTTGTTGATGGACTTGAGAAG	0.378													48	43	---	---	---	---	PASS	A	30103746	A	A	30103746	3	1	4	1	0	0	0	0	1	0	0	0	12518	1188	41	2	1590	2	PRKD1	14	30103746	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5001493	30103746	77245794	2671	3262										
PRKD1	5587	broad.mit.edu	37	chr14	30194832	30194832	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcagaggtagggtcatggcGaaaaagcaggatcttatcat	12	6	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:30194832G>A	uc001wqh.2	-	2	494	c.313C>T	c.(313-315)CGC>TGC	p.R105C		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	105					cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		GGGTCATGGCGAAAAAGCAGG	0.413													5	52	---	---	---	---	PASS	A	30194832	A	A	30194832	3	1	4	1	0	0	0	0	1	0	0	0	12518	1058	37	2	2493	2	PRKD1	14	30194832	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	91086	30194832	77154708	2672	3263										
COCH	1690	broad.mit.edu	37	chr14	31354713	31354713	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttggccttctgatgacatcGaggaagcaggcattgtggcc	14	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:31354713G>A	uc001wqr.2	+	10	927	c.847G>A	c.(847-849)GAG>AAG	p.E283K	COCH_uc001wqp.2_Missense_Mutation_p.E283K|COCH_uc001wqq.3_Missense_Mutation_p.E283K|uc001wqs.2_RNA|COCH_uc001wqt.1_Missense_Mutation_p.E134K	NM_004086	NP_004077	O43405	COCH_HUMAN	cochlin precursor	283	VWFA 1.				sensory perception of sound	proteinaceous extracellular matrix				pancreas(1)|central_nervous_system(1)|skin(1)	3	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.00645)		TGATGACATCGAGGAAGCAGG	0.468													33	36	---	---	---	---	PASS	A	31354713	A	A	31354713	3	1	4	1	0	0	0	0	1	0	0	0	3656	1059	37	2	881	2	COCH	14	31354713	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1159881	31354713	75994827	2673	3264										
HECTD1	25831	broad.mit.edu	37	chr14	31604320	31604320	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttagtatgtcttctaagcgGccataaggtagatttcttcc	8	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:31604320G>A	uc001wrc.1	-	22	3825	c.3336C>T	c.(3334-3336)GGC>GGT	p.G1112G	HECTD1_uc001wrd.1_Silent_p.G627G	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1112					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		CTTCTAAGCGGCCATAAGGTA	0.383													30	29	---	---	---	---	PASS	A	31604320	A	A	31604320	2	1	4	1	0	0	0	0	0	0	0	1	7039	1190	42	3		3	HECTD1	14	31604320	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	249607	31604320	75745220	2674	3265										
BAZ1A	11177	broad.mit.edu	37	chr14	35228004	35228004	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcagacaattcatgaactCctccctgtcggccagaactc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:35228004C>T	uc001wsk.2	-	25	4860	c.4292G>A	c.(4291-4293)GGA>GAA	p.G1431E	BAZ1A_uc001wsl.2_Missense_Mutation_p.G1399E	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1431					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		TTCATGAACTCCTCCCTGTCG	0.398													8	50	---	---	---	---	PASS	T	35228004	T	T	35228004	3	4	4	1	0	0	0	0	1	0	0	0	1329	855	30	2	390	2	BAZ1A	14	35228004	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3623684	35228004	72121536	2675	3266	122	2								
BAZ1A	11177	broad.mit.edu	37	chr14	35228005	35228005	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcagacaattcatgaactcCtccctgtcggccagaactcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:35228005C>T	uc001wsk.2	-	25	4859	c.4291G>A	c.(4291-4293)GGA>AGA	p.G1431R	BAZ1A_uc001wsl.2_Missense_Mutation_p.G1399R	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1431					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		TCATGAACTCCTCCCTGTCGG	0.398													7	50	---	---	---	---	PASS	T	35228005	T	T	35228005	3	4	4	1	0	0	0	0	1	0	0	0	1329	690	24	3	391	3	BAZ1A	14	35228005	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	35228005	72121535	2676	3267	122	2								
KIAA0391	9692	broad.mit.edu	37	chr14	35592857	35592857	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagatttaaaagaaaacaccGgaaagaccagtttcgaaagt	8	6	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:35592857G>T	uc001wsy.1	+	2	766	c.406G>T	c.(406-408)GGA>TGA	p.G136*	KIAA0391_uc010tps.1_Nonsense_Mutation_p.G41*|KIAA0391_uc001wsz.1_Nonsense_Mutation_p.G136*|KIAA0391_uc001wta.2_RNA|KIAA0391_uc001wtb.1_Nonsense_Mutation_p.G136*|KIAA0391_uc001wtc.1_Intron|PPP2R3C_uc001wss.2_5'Flank|PPP2R3C_uc001wst.2_5'Flank|PPP2R3C_uc010tpr.1_5'Flank|PPP2R3C_uc001wsu.2_5'Flank|PPP2R3C_uc010amn.1_5'Flank|PPP2R3C_uc001wsw.2_5'Flank|PPP2R3C_uc001wsx.1_5'Flank	NM_014672	NP_055487	O15091	MRRP3_HUMAN	mitochondrial RNase P protein 3 precursor	136					tRNA processing	mitochondrion					0	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;2.93e-05)|LUAD - Lung adenocarcinoma(48;3.86e-05)|Epithelial(34;0.0114)|all cancers(34;0.0277)	GBM - Glioblastoma multiforme(112;0.0593)		AGAAAACACCGGAAAGACCAG	0.433													4	57	---	---	---	---	PASS	T	35592857	T	T	35592857	4	4	4	1	0	0	0	0	0	1	0	0	8172	1117	39	1	408	1	KIAA0391	14	35592857	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	364852	35592857	71756683	2677	3268										
MBIP	51562	broad.mit.edu	37	chr14	36780893	36780893	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaccctggaattccttcagGtctagtctgtggtccgtatg	11	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:36780893G>A	uc001wtm.2	-	6	764	c.676C>T	c.(676-678)CCT>TCT	p.P226S	MBIP_uc001wto.2_Missense_Mutation_p.P226S|MBIP_uc010tpy.1_Missense_Mutation_p.P85S|MBIP_uc001wtn.2_Missense_Mutation_p.P226S	NM_016586	NP_057670	Q9NS73	MBIP1_HUMAN	MAP3K12 binding inhibitory protein 1 isoform 1	226	Interaction with MAP3K12.				histone H3 acetylation|inactivation of MAPK activity involved in osmosensory signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm|nucleolus	identical protein binding|protein kinase inhibitor activity				0	all_cancers(3;1.55e-52)|all_epithelial(1;2.69e-62)|Breast(36;0.0505)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)		Lung(8;1.28e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.0303)|all cancers(34;0.0781)	GBM - Glioblastoma multiforme(112;0.0191)		ATTCCTTCAGGTCTAGTCTGT	0.373													20	22	---	---	---	---	PASS	A	36780893	A	A	36780893	3	1	4	1	0	0	0	0	1	0	0	0	9349	1261	44	3	374	3	MBIP	14	36780893	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1188036	36780893	70568647	2678	3269										
MIA2	117153	broad.mit.edu	37	chr14	39709774	39709774	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cattttgacagaaaggaaagGagtttggatattttcccaga	10	5	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:39709774G>A	uc001wux.2	+	3	453	c.259G>A	c.(259-261)GAG>AAG	p.E87K	MIA2_uc010amy.1_Missense_Mutation_p.E18K	NM_054024	NP_473365	Q96PC5	MIA2_HUMAN	melanoma inhibitory activity 2	87	SH3.					extracellular region				ovary(1)|breast(1)	2	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0216)		GAAAGGAAAGGAGTTTGGATA	0.363													9	34	---	---	---	---	PASS	A	39709774	A	A	39709774	3	1	4	1	0	0	0	0	1	0	0	0	9564	1175	41	2	269	2	MIA2	14	39709774	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2928881	39709774	67639766	2679	3270										
CTAGE5	4253	broad.mit.edu	37	chr14	39815168	39815168	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agacagattttgttctaattCtggtagactgtctggaccag	10	7	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:39815168C>T	uc001wvg.3	+	21	2228	c.1892C>T	c.(1891-1893)TCT>TTT	p.S631F	CTAGE5_uc010tqe.1_Missense_Mutation_p.S593F|CTAGE5_uc001wuz.3_Missense_Mutation_p.S619F|CTAGE5_uc001wuy.3_Missense_Mutation_p.S551F|CTAGE5_uc001wvb.3_Missense_Mutation_p.S559F|CTAGE5_uc001wvc.3_Missense_Mutation_p.S533F|CTAGE5_uc001wva.3_Missense_Mutation_p.S602F|CTAGE5_uc001wvh.3_Missense_Mutation_p.S588F|CTAGE5_uc001wvf.3_Missense_Mutation_p.S556F|CTAGE5_uc001wvi.3_Missense_Mutation_p.S636F|CTAGE5_uc010amz.2_Missense_Mutation_p.S247F|CTAGE5_uc001wvj.3_Missense_Mutation_p.S602F	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	631	Pro-rich.						enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		TGTTCTAATTCTGGTAGACTG	0.328													33	25	---	---	---	---	PASS	T	39815168	T	T	39815168	3	4	4	1	0	0	0	0	1	0	0	0	3994	913	32	2	2005	2	CTAGE5	14	39815168	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	105394	39815168	67534372	2680	3271										
CTAGE5	4253	broad.mit.edu	37	chr14	39818103	39818103	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcctttccccccacctcctCcaggagccatgtttggagct	7	18	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:39818103C>T	uc001wvg.3	+	23	2506	c.2170C>T	c.(2170-2172)CCA>TCA	p.P724S	CTAGE5_uc001wuz.3_Missense_Mutation_p.P712S|CTAGE5_uc001wuy.3_Missense_Mutation_p.P644S|CTAGE5_uc001wvb.3_Missense_Mutation_p.P652S|CTAGE5_uc001wvc.3_Missense_Mutation_p.P626S|CTAGE5_uc001wva.3_Missense_Mutation_p.P695S|CTAGE5_uc001wvh.3_Missense_Mutation_p.P681S|CTAGE5_uc001wvf.3_Missense_Mutation_p.P649S|CTAGE5_uc001wvi.3_Missense_Mutation_p.P729S|CTAGE5_uc010amz.2_Missense_Mutation_p.P340S|CTAGE5_uc001wvj.3_Missense_Mutation_p.P695S	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	724	Pro-rich.						enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		CCCACCTCCTCCAGGAGCCAT	0.488													30	68	---	---	---	---	PASS	T	39818103	T	T	39818103	3	4	4	1	0	0	0	0	1	0	0	0	3994	855	30	2	2291	2	CTAGE5	14	39818103	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2935	39818103	67531437	2681	3272										
FSCB	84075	broad.mit.edu	37	chr14	44975146	44975146	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctgatggaggcagaatttCagccagaagctctacagaag	12	8	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:44975146C>T	uc001wvn.2	-	1	1354	c.1045G>A	c.(1045-1047)GAA>AAA	p.E349K		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	349	Pro-rich.					cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		GGCAGAATTTCAGCCAGAAGC	0.512													59	62	---	---	---	---	PASS	T	44975146	T	T	44975146	3	4	4	1	0	0	0	0	1	0	0	0	6066	835	29	2	1436	2	FSCB	14	44975146	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	5157043	44975146	62374394	2682	3273										
FSCB	84075	broad.mit.edu	37	chr14	44975992	44975992	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagagacttactagtcatttCctgtccatgctttctctttg	7	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:44975992C>T	uc001wvn.2	-	1	508	c.199G>A	c.(199-201)GAA>AAA	p.E67K		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	67						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		CTAGTCATTTCCTGTCCATGC	0.423													55	66	---	---	---	---	PASS	T	44975992	T	T	44975992	3	4	4	1	0	0	0	0	1	0	0	0	6066	864	30	2	2282	2	FSCB	14	44975992	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	846	44975992	62373548	2683	3274										
MDGA2	161357	broad.mit.edu	37	chr14	47324289	47324289	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatctttgtcctttattccCacttgaagaccacagtggat	6	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:47324289C>T	uc001wwj.3	-	15	2810	c.2614G>A	c.(2614-2616)GGG>AGG	p.G872R	MDGA2_uc001wwh.3_Missense_Mutation_p.G74R|MDGA2_uc001wwi.3_Missense_Mutation_p.G643R	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	872	MAM.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CCTTTATTCCCACTTGAAGAC	0.308													6	42	---	---	---	---	PASS	T	47324289	T	T	47324289	3	4	4	1	0	0	0	0	1	0	0	0	9407	594	21	3	268	3	MDGA2	14	47324289	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2348297	47324289	60025251	2684	3275										
MDGA2	161357	broad.mit.edu	37	chr14	47504454	47504454	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgcagttctattgtgtctcCttctctggtgaccaatggtg	10	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:47504454C>A	uc001wwj.3	-	8	1568	c.1372G>T	c.(1372-1374)GGA>TGA	p.G458*	MDGA2_uc001wwi.3_Nonsense_Mutation_p.G229*|MDGA2_uc010ani.2_Nonsense_Mutation_p.G18*	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	458	Ig-like 5.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						ATTGTGTCTCCTTCTCTGGTG	0.393													33	23	---	---	---	---	PASS	A	47504454	A	A	47504454	4	1	4	1	0	0	0	0	0	1	0	0	9407	690	24	3	1538	3	MDGA2	14	47504454	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	180165	47504454	59845086	2685	3276										
C14orf104	55172	broad.mit.edu	37	chr14	50101289	50101289	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accgcagcctctggggtcccCttatacttggccttcagggt	11	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:50101289C>T	uc001wws.3	-	1	660	c.579G>A	c.(577-579)AAG>AAA	p.K193K	SDCCAG1_uc010anj.1_Intron|C14orf104_uc001wwt.3_Silent_p.K193K	NM_018139	NP_060609	Q9NVR5	KTU_HUMAN	kintoun isoform 1	193					axonemal dynein complex assembly|ciliary cell motility|flagellar cell motility	cytoplasm					0	all_epithelial(31;0.0021)|Breast(41;0.0124)					CTGGGGTCCCCTTATACTTGG	0.682									Kartagener_syndrome				7	41	---	---	---	---	PASS	T	50101289	T	T	50101289	2	4	4	1	0	0	0	0	0	0	0	1	1736	680	24	3		3	C14orf104	14	50101289	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2596835	50101289	57248251	2686	3277										
SDCCAG1	9147	broad.mit.edu	37	chr14	50272849	50272849	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtccgtggggggatgggttCtcctagaataacaatgcata	14	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:50272849C>T	uc001wxc.2	-	19	1815	c.1747G>A	c.(1747-1749)GAA>AAA	p.E583K	SDCCAG1_uc010anj.1_Missense_Mutation_p.E583K|SDCCAG1_uc010tqi.1_Missense_Mutation_p.E562K|SDCCAG1_uc001wxe.2_Missense_Mutation_p.E541K|SDCCAG1_uc001wxd.1_5'UTR	NM_004713	NP_004704	O60524	NEMF_HUMAN	serologically defined colon cancer antigen 1	583						cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)		GGGATGGGTTCTCCTAGAATA	0.453													18	18	---	---	---	---	PASS	T	50272849	T	T	50272849	3	4	4	1	0	0	0	0	1	0	0	0	13957	922	32	2	1543	2	SDCCAG1	14	50272849	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	171560	50272849	57076691	2687	3278										
CDKL1	8814	broad.mit.edu	37	chr14	50824773	50824773	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgccctcaacttcaggaagGgaccccctcctccttttttc	6	17	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:50824773G>A	uc010anu.1	-	15	2195	c.2195C>T	c.(2194-2196)CCC>CTC	p.P732L	CDKL1_uc001wxz.2_Intron	NM_004196	NP_004187	Q00532	CDKL1_HUMAN	cyclin-dependent kinase-like 1	Error:Variant_position_missing_in_Q00532_after_alignment						cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(1)|stomach(1)	2	all_epithelial(31;0.000746)|Breast(41;0.0102)					CTTCAGGAAGGGACCCCCTCC	0.532													14	16	---	---	---	---	PASS	A	50824773	A	A	50824773	3	1	4	1	0	0	0	0	1	0	0	0	3153	1247	43	3		3	CDKL1	14	50824773	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	551924	50824773	56524767	2688	3279										
FRMD6	122786	broad.mit.edu	37	chr14	52182080	52182080	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgccagatggcttgccttCtgcccggaagctcatatact	9	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:52182080C>T	uc001wzd.2	+	10	1172	c.887C>T	c.(886-888)TCT>TTT	p.S296F	FRMD6_uc001wzb.2_Missense_Mutation_p.S288F|FRMD6_uc001wzc.2_Missense_Mutation_p.S288F|FRMD6_uc001wze.2_Missense_Mutation_p.S219F|FRMD6_uc001wzf.2_5'UTR|FRMD6_uc001wzg.2_5'Flank	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	296	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					GGCTTGCCTTCTGCCCGGAAG	0.483													9	42	---	---	---	---	PASS	T	52182080	T	T	52182080	3	4	4	1	0	0	0	0	1	0	0	0	6054	913	32	2	897	2	FRMD6	14	52182080	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1357307	52182080	55167460	2689	3280										
NID2	22795	broad.mit.edu	37	chr14	52534585	52534585	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtcacttacctctcccgaGggcagcgccccgcgcttgac	11	17	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:52534585G>T	uc001wzo.2	-	2	759	c.525C>A	c.(523-525)CCC>CCA	p.P175P	NID2_uc010tqs.1_Silent_p.P175P|NID2_uc010tqt.1_Silent_p.P175P|NID2_uc001wzp.2_Silent_p.P175P	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	175	NIDO.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CCTCTCCCGAGGGCAGCGCCC	0.617													83	49	---	---	---	---	PASS	T	52534585	T	T	52534585	2	4	4	1	0	0	0	0	0	0	0	1	10415	987	35	3		3	NID2	14	52534585	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	352505	52534585	54814955	2690	3281										
FERMT2	10979	broad.mit.edu	37	chr14	53341991	53341991	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtaatctccaggtctgaaaGggcagcatcaacttcatcaa	8	10	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:53341991G>A	uc001xad.2	-	8	1103	c.1048C>T	c.(1048-1050)CTT>TTT	p.L350F	FERMT2_uc001xac.2_Missense_Mutation_p.L350F|FERMT2_uc001xae.2_Missense_Mutation_p.L350F|FERMT2_uc001xaf.2_Missense_Mutation_p.L350F	NM_006832	NP_006823	Q96AC1	FERM2_HUMAN	fermitin family homolog 2 isoform 1	350	FERM.				actin cytoskeleton organization|cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytosol|focal adhesion|stress fiber	binding				0	Breast(41;0.0342)					AGGTCTGAAAGGGCAGCATCA	0.358													9	61	---	---	---	---	PASS	A	53341991	A	A	53341991	3	1	4	1	0	0	0	0	1	0	0	0	5818	1000	35	3	1063	3	FERMT2	14	53341991	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	807406	53341991	54007549	2691	3282										
SAMD4A	23034	broad.mit.edu	37	chr14	55218235	55218235	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctcaaagaaagacaaaatCtcctgaagtctttggaaagg	9	7	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:55218235C>T	uc001xbb.2	+	5	1154	c.1153C>T	c.(1153-1155)CTC>TTC	p.L385F	SAMD4A_uc001xbc.2_Missense_Mutation_p.L297F	NM_015589	NP_056404	Q9UPU9	SMAG1_HUMAN	sterile alpha motif domain containing 4 isoform	386	SAM.				positive regulation of translation	cell junction|cytoplasm|dendrite|synapse|synaptosome	translation repressor activity				0						AAGACAAAATCTCCTGAAGTC	0.348													4	48	---	---	---	---	PASS	T	55218235	T	T	55218235	3	4	4	1	0	0	0	0	1	0	0	0	13821	913	32	2	1171	2	SAMD4A	14	55218235	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1876244	55218235	52131305	2692	3283										
WDHD1	11169	broad.mit.edu	37	chr14	55429227	55429227	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttctcacctgacttagctGaaacatcagaggaatttgta	7	8	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:55429227G>A	uc001xbm.1	-	21	2768	c.2690C>T	c.(2689-2691)TCA>TTA	p.S897L	WDHD1_uc010aom.1_Missense_Mutation_p.S414L|WDHD1_uc001xbn.1_Missense_Mutation_p.S774L	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	897						cytoplasm|nucleoplasm	DNA binding			skin(1)	1						TGACTTAGCTGAAACATCAGA	0.313													20	22	---	---	---	---	PASS	A	55429227	A	A	55429227	3	1	4	1	0	0	0	0	1	0	0	0	17268	1294	45	2	723	2	WDHD1	14	55429227	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	210992	55429227	51920313	2693	3284										
C14orf101	54916	broad.mit.edu	37	chr14	57103235	57103235	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccacccccaggatgaaaacAccgttcttcatctttaacct	4	16	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:57103235A>G	uc001xcm.2	+	15	1910	c.1788A>G	c.(1786-1788)ACA>ACG	p.T596T	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_Silent_p.T129T|C14orf101_uc001xco.2_Silent_p.T129T	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	596						integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		GGATGAAAACACCGTTCTTCA	0.418													20	19	---	---	---	---	PASS	G	57103235	G	G	57103235	2	3	4	1	0	0	0	0	0	0	0	1	1734	146	6	5		5	C14orf101	14	57103235	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	1674008	57103235	50246305	2694	3285										
GPR135	64582	broad.mit.edu	37	chr14	59931115	59931115	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaccaccagccccacgctgAaggccgcgcccagctgcgcg	11	21	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:59931115A>G	uc010apj.2	-	1	945	c.830T>C	c.(829-831)TTC>TCC	p.F277S	GPR135_uc001xed.2_RNA	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	277	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		CCCCACGCTGAAGGCCGCGCC	0.711													2	2	---	---	---	---	PASS	G	59931115	G	G	59931115	3	3	4	1	0	0	0	0	1	0	0	0	6644	246	9	5	658	5	GPR135	14	59931115	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2827880	59931115	47418425	2695	3286										
RTN1	6252	broad.mit.edu	37	chr14	60212645	60212645	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgctgttcttcagagagatCatctatgtatggagcaaatg	11	7	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:60212645C>T	uc001xen.1	-	2	1005	c.796G>A	c.(796-798)GAT>AAT	p.D266N		NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	266					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		TCAGAGAGATCATCTATGTAT	0.463													31	35	---	---	---	---	PASS	T	60212645	T	T	60212645	3	4	4	1	0	0	0	0	1	0	0	0	13725	826	29	2	1631	2	RTN1	14	60212645	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	281530	60212645	47136895	2696	3287										
C14orf135	64430	broad.mit.edu	37	chr14	60581593	60581593	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctcatctatgtcaacccacTtacggtatttatttttaaat	4	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:60581593T>G	uc001xer.3	+	2	685	c.163T>G	c.(163-165)TTA>GTA	p.L55V	C14orf135_uc001xeq.2_Missense_Mutation_p.L55V	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	289						integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		GTCAACCCACTTACGGTATTT	0.368													15	76	---	---	---	---	PASS	G	60581593	G	G	60581593	3	3	4	1	0	0	0	0	1	0	0	0	1745	1606	56	5	165	5	C14orf135	14	60581593	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	368948	60581593	46767947	2697	3288										
KCNH5	27133	broad.mit.edu	37	chr14	63174668	63174668	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatcactgctcttggggtccTcagacaatagccccattgac	8	13	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:63174668T>G	uc001xfx.2	-	11	2576	c.2525A>C	c.(2524-2526)GAG>GCG	p.E842A	KCNH5_uc001xfy.2_3'UTR	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	842	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		CTTGGGGTCCTCAGACAATAG	0.433													34	30	---	---	---	---	PASS	G	63174668	G	G	63174668	3	3	4	1	0	0	0	0	1	0	0	0	8035	1551	54	5	445	5	KCNH5	14	63174668	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	2593075	63174668	44174872	2698	3289										
KCNH5	27133	broad.mit.edu	37	chr14	63269105	63269105	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggatcctgacaccacaaaGcagagggcatccacactttc	8	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:63269105G>A	uc001xfx.2	-	9	1815	c.1764C>T	c.(1762-1764)TGC>TGT	p.C588C	KCNH5_uc001xfy.2_Silent_p.C588C|KCNH5_uc001xfz.1_Silent_p.C530C	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	588	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		ACACCACAAAGCAGAGGGCAT	0.507													21	35	---	---	---	---	PASS	A	63269105	A	A	63269105	2	1	4	1	0	0	0	0	0	0	0	1	8035	963	34	3		3	KCNH5	14	63269105	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	94437	63269105	44080435	2699	3290										
KCNH5	27133	broad.mit.edu	37	chr14	63269132	63269132	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcatccacactttctccagcAtggtaaatgaggtccccggg	10	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:63269132A>C	uc001xfx.2	-	9	1788	c.1737T>G	c.(1735-1737)CAT>CAG	p.H579Q	KCNH5_uc001xfy.2_Missense_Mutation_p.H579Q|KCNH5_uc001xfz.1_Missense_Mutation_p.H521Q	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	579	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		TTTCTCCAGCATGGTAAATGA	0.517													18	28	---	---	---	---	PASS	C	63269132	C	C	63269132	3	2	4	1	0	0	0	0	1	0	0	0	8035	214	8	5	1275	5	KCNH5	14	63269132	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	27	63269132	44080408	2700	3291										
GPHB5	122876	broad.mit.edu	37	chr14	63784447	63784447	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttggccaggaaagtaaactcCctcacggcacagcccacaaa	8	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:63784447C>T	uc010apu.2	-	1	117	c.117G>A	c.(115-117)AGG>AGA	p.R39R	GPHB5_uc001xgc.2_Silent_p.R29R	NM_145171	NP_660154	Q86YW7	GPHB5_HUMAN	glycoprotein beta 5	39						extracellular region	hormone activity			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00372)|all cancers(60;0.0226)|BRCA - Breast invasive adenocarcinoma(234;0.0978)		AAGTAAACTCCCTCACGGCAC	0.617													15	18	---	---	---	---	PASS	T	63784447	T	T	63784447	2	4	4	1	0	0	0	0	0	0	0	1	6609	622	22	3		3	GPHB5	14	63784447	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	515315	63784447	43565093	2701	3292										
SYNE2	23224	broad.mit.edu	37	chr14	64483250	64483250	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttgtagacaagataaaccaGgtctgcaaaaatctacaatt	7	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:64483250G>A	uc001xgm.2	+	33	5018	c.4788G>A	c.(4786-4788)CAG>CAA	p.Q1596Q	SYNE2_uc001xgl.2_Silent_p.Q1596Q	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	1596	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)		AGATAAACCAGGTCTGCAAAA	0.279													10	10	---	---	---	---	PASS	A	64483250	A	A	64483250	2	1	4	1	0	0	0	0	0	0	0	1	15443	991	35	3		3	SYNE2	14	64483250	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	698803	64483250	42866290	2702	3293										
SYNE2	23224	broad.mit.edu	37	chr14	64540702	64540702	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttaggcttcttcagaaagttCagaaaaataaagaattggtg	9	4	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:64540702C>T	uc001xgm.2	+	53	10944	c.10714C>T	c.(10714-10716)CAG>TAG	p.Q3572*	SYNE2_uc001xgl.2_Nonsense_Mutation_p.Q3572*|SYNE2_uc010apy.2_5'Flank|SYNE2_uc010apw.1_Nonsense_Mutation_p.Q278*|SYNE2_uc010apx.1_5'UTR	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3572	Potential.|Cytoplasmic (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)		TCAGAAAGTTCAGAAAAATAA	0.303													67	63	---	---	---	---	PASS	T	64540702	T	T	64540702	4	4	4	1	0	0	0	0	0	1	0	0	15443	827	29	2	10920	2	SYNE2	14	64540702	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	57452	64540702	42808838	2703	3294										
SYNE2	23224	broad.mit.edu	37	chr14	64690055	64690055	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagaaactcaaacagttacGggagcaagtgtcccaagatt	10	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:64690055G>T	uc001xgm.2	+	112	20500	c.20270G>T	c.(20269-20271)CGG>CTG	p.R6757L	SYNE2_uc001xgl.2_Missense_Mutation_p.R6780L|SYNE2_uc010apy.2_Missense_Mutation_p.R3142L|SYNE2_uc001xgn.2_Missense_Mutation_p.R1719L|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.R727L|SYNE2_uc001xgq.2_Missense_Mutation_p.R1136L|SYNE2_uc001xgr.2_Missense_Mutation_p.R540L|SYNE2_uc010tsi.1_Missense_Mutation_p.R414L|SYNE2_uc001xgs.2_Missense_Mutation_p.R428L|SYNE2_uc001xgt.2_Missense_Mutation_p.R302L	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6757	Potential.|Cytoplasmic (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)		AAACAGTTACGGGAGCAAGTG	0.428													4	43	---	---	---	---	PASS	T	64690055	T	T	64690055	3	4	4	1	0	0	0	0	1	0	0	0	15443	1116	39	1	20827	1	SYNE2	14	64690055	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	149353	64690055	42659485	2704	3295										
SYNE2	23224	broad.mit.edu	37	chr14	64691254	64691254	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcaacatccgtgccagctCcccgagcaaaggtaagaagc	10	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:64691254C>T	uc001xgm.2	+	113	20619	c.20389C>T	c.(20389-20391)CCC>TCC	p.P6797S	SYNE2_uc001xgl.2_Missense_Mutation_p.P6820S|SYNE2_uc010apy.2_Missense_Mutation_p.P3182S|SYNE2_uc001xgn.2_Missense_Mutation_p.P1759S|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.P767S|SYNE2_uc001xgq.2_Missense_Mutation_p.P1176S|SYNE2_uc001xgr.2_Missense_Mutation_p.P580S|SYNE2_uc010tsi.1_Missense_Mutation_p.P454S|SYNE2_uc001xgs.2_Missense_Mutation_p.P468S|SYNE2_uc001xgt.2_Missense_Mutation_p.P342S	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6797	Cytoplasmic (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)		CGTGCCAGCTCCCCGAGCAAA	0.532													9	41	---	---	---	---	PASS	T	64691254	T	T	64691254	3	4	4	1	0	0	0	0	1	0	0	0	15443	855	30	2	20950	2	SYNE2	14	64691254	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1199	64691254	42658286	2705	3296										
MTHFD1	4522	broad.mit.edu	37	chr14	64898345	64898345	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggatatttcatgaactgacCcagacagacaaggtaggatg	11	8	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:64898345C>T	uc001xhb.2	+	14	1794	c.1407C>T	c.(1405-1407)ACC>ACT	p.T469T	MTHFD1_uc010aqe.2_Silent_p.T505T|MTHFD1_uc010aqf.2_Silent_p.T525T	NM_005956	NP_005947	P11586	C1TC_HUMAN	methylenetetrahydrofolate dehydrogenase 1	469	Formyltetrahydrofolate synthetase.				folic acid metabolic process|folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process	cytosol|mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|methylenetetrahydrofolate dehydrogenase|protein binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(108;8.7e-12)|all cancers(60;3.29e-11)|BRCA - Breast invasive adenocarcinoma(234;0.0488)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	ATGAACTGACCCAGACAGACA	0.468													9	35	---	---	---	---	PASS	T	64898345	T	T	64898345	2	4	4	1	0	0	0	0	0	0	0	1	9927	610	22	3		3	MTHFD1	14	64898345	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	207091	64898345	42451195	2706	3297										
C14orf50	145376	broad.mit.edu	37	chr14	65054875	65054875	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctatcaacatgcgttctcCagtcatgtctactctgctgc	7	13	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:65054875C>T	uc001xhl.1	+	11	1040	c.944C>T	c.(943-945)CCA>CTA	p.P315L	C14orf50_uc001xhm.1_Missense_Mutation_p.P45L	NM_172365	NP_758953	Q96LQ0	CN050_HUMAN	hypothetical protein LOC145376	315										skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00382)|all cancers(60;0.00427)|BRCA - Breast invasive adenocarcinoma(234;0.0488)		ATGCGTTCTCCAGTCATGTCT	0.438													16	120	---	---	---	---	PASS	T	65054875	T	T	65054875	3	4	4	1	0	0	0	0	1	0	0	0	1777	594	21	3	986	3	C14orf50	14	65054875	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	156530	65054875	42294665	2707	3298										
PLEKHG3	26030	broad.mit.edu	37	chr14	65207903	65207903	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccttctggggatggacccCccaggtgacatggtggactt	15	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:65207903C>T	uc001xho.1	+	16	1937	c.1668C>T	c.(1666-1668)CCC>CCT	p.P556P	PLEKHG3_uc001xhn.1_Silent_p.P500P|PLEKHG3_uc001xhp.2_Silent_p.P677P|PLEKHG3_uc010aqh.1_Silent_p.P98P|PLEKHG3_uc001xhq.1_Silent_p.P61P	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	556					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GGATGGACCCCCCAGGTGACA	0.612													10	62	---	---	---	---	PASS	T	65207903	T	T	65207903	2	4	4	1	0	0	0	0	0	0	0	1	12070	610	22	3		3	PLEKHG3	14	65207903	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	153028	65207903	42141637	2708	3299										
SPTB	6710	broad.mit.edu	37	chr14	65236401	65236401	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgggtttcaatctctgcattGatgccctggtgatacttcat	9	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:65236401G>T	uc001xht.2	-	27	5898	c.5844C>A	c.(5842-5844)ATC>ATA	p.I1948I	SPTB_uc001xhr.2_Silent_p.I1948I|SPTB_uc001xhs.2_Silent_p.I1948I|SPTB_uc001xhu.2_Silent_p.I1948I|SPTB_uc010aqi.2_Silent_p.I609I	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1948	Spectrin 16.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TCTCTGCATTGATGCCCTGGT	0.592													5	117	---	---	---	---	PASS	T	65236401	T	T	65236401	2	4	4	1	0	0	0	0	0	0	0	1	15117	1280	45	2		2	SPTB	14	65236401	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	28498	65236401	42113139	2709	3300										
FUT8	2530	broad.mit.edu	37	chr14	66208891	66208891	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cattctttagatgacatctaCtattttgggggccagaatgc	9	8	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:66208891C>T	uc001xin.2	+	11	2688	c.1491C>T	c.(1489-1491)TAC>TAT	p.Y497Y	FUT8_uc001xio.2_Silent_p.Y497Y|FUT8_uc010tsp.1_Silent_p.Y334Y|FUT8_uc001xir.3_RNA|FUT8_uc001xip.2_Silent_p.Y497Y|FUT8_uc001xiq.2_Silent_p.Y368Y|FUT8_uc001xis.2_Silent_p.Y91Y	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a	497	Lumenal (Potential).				in utero embryonic development|L-fucose catabolic process|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in Golgi|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	glycoprotein 6-alpha-L-fucosyltransferase activity|SH3 domain binding			ovary(1)	1				all cancers(60;0.00109)|OV - Ovarian serous cystadenocarcinoma(108;0.00242)|BRCA - Breast invasive adenocarcinoma(234;0.0114)		ATGACATCTACTATTTTGGGG	0.418													40	35	---	---	---	---	PASS	T	66208891	T	T	66208891	2	4	4	1	0	0	0	0	0	0	0	1	6110	576	20	3		3	FUT8	14	66208891	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	972490	66208891	41140649	2710	3301										
FUT8	2530	broad.mit.edu	37	chr14	66209112	66209112	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtcaagtaccccacatatcCtgaggctgagaaataaagct	9	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:66209112C>T	uc001xin.2	+	11	2909	c.1712C>T	c.(1711-1713)CCT>CTT	p.P571L	FUT8_uc001xio.2_Missense_Mutation_p.P571L|FUT8_uc010tsp.1_Missense_Mutation_p.P408L|FUT8_uc001xir.3_RNA|FUT8_uc001xip.2_Missense_Mutation_p.P571L|FUT8_uc001xiq.2_Missense_Mutation_p.P442L|FUT8_uc001xis.2_Missense_Mutation_p.P165L	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a	571	Lumenal (Potential).				in utero embryonic development|L-fucose catabolic process|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in Golgi|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	glycoprotein 6-alpha-L-fucosyltransferase activity|SH3 domain binding			ovary(1)	1				all cancers(60;0.00109)|OV - Ovarian serous cystadenocarcinoma(108;0.00242)|BRCA - Breast invasive adenocarcinoma(234;0.0114)		CCCACATATCCTGAGGCTGAG	0.443													18	19	---	---	---	---	PASS	T	66209112	T	T	66209112	3	4	4	1	0	0	0	0	1	0	0	0	6110	681	24	3	1845	3	FUT8	14	66209112	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	221	66209112	41140428	2711	3302										
ZFYVE26	23503	broad.mit.edu	37	chr14	68221818	68221818	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaagaatgtggttttcttCcttccagagctgcgggatgt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:68221818C>T	uc001xka.2	-	37	7075	c.6936G>A	c.(6934-6936)AGG>AGA	p.R2312R	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkb.2_Silent_p.R158R	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	2312					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		TGGTTTTCTTCCTTCCAGAGC	0.498													58	66	---	---	---	---	PASS	T	68221818	T	T	68221818	2	4	4	1	0	0	0	0	0	0	0	1	17665	854	30	2		2	ZFYVE26	14	68221818	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2012706	68221818	39127722	2712	3303	123	2								
ZFYVE26	23503	broad.mit.edu	37	chr14	68221819	68221819	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaagaatgtggttttcttcCttccagagctgcgggatgtt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:68221819C>T	uc001xka.2	-	37	7074	c.6935G>A	c.(6934-6936)AGG>AAG	p.R2312K	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkb.2_Missense_Mutation_p.R158K	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	2312					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		GGTTTTCTTCCTTCCAGAGCT	0.498													56	66	---	---	---	---	PASS	T	68221819	T	T	68221819	3	4	4	1	0	0	0	0	1	0	0	0	17665	681	24	3	708	3	ZFYVE26	14	68221819	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	68221819	39127721	2713	3304	123	2								
ZFYVE26	23503	broad.mit.edu	37	chr14	68228265	68228265	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcgtccgaagggtagcttCcagttccctcagggtggcaa	13	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:68228265C>T	uc001xka.2	-	35	6545	c.6406G>A	c.(6406-6408)GAA>AAA	p.E2136K	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkb.2_5'UTR|ZFYVE26_uc001xkc.3_Missense_Mutation_p.E2136K	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	2136					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		AGGGTAGCTTCCAGTTCCCTC	0.478													10	10	---	---	---	---	PASS	T	68228265	T	T	68228265	3	4	4	1	0	0	0	0	1	0	0	0	17665	864	30	2	1245	2	ZFYVE26	14	68228265	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6446	68228265	39121275	2714	3305										
ACTN1	87	broad.mit.edu	37	chr14	69360386	69360386	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acccacatcactggccagctTctcgtagtcttccataagct	6	15	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:69360386T>A	uc001xkl.2	-	9	1151	c.841A>T	c.(841-843)AAG>TAG	p.K281*	ACTN1_uc010ttb.1_Nonsense_Mutation_p.K216*|ACTN1_uc001xkm.2_Nonsense_Mutation_p.K281*|ACTN1_uc001xkn.2_Nonsense_Mutation_p.K281*|ACTN1_uc001xko.1_Nonsense_Mutation_p.K216*|ACTN1_uc010ttd.1_Nonsense_Mutation_p.K260*	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	281	Spectrin 1.|Interaction with DDN.				focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		CTGGCCAGCTTCTCGTAGTCT	0.552													6	56	---	---	---	---	PASS	A	69360386	A	A	69360386	4	1	4	1	0	0	0	0	0	1	0	0	204	1792	62	5	1959	5	ACTN1	14	69360386	Nonsense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1132121	69360386	37989154	2715	3306										
SLC8A3	6547	broad.mit.edu	37	chr14	70515755	70515755	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattcatcctcatcctcatcCcctgctgaaggcaagataaa	6	13	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:70515755C>T	uc001xly.2	-	7	2890	c.2136G>A	c.(2134-2136)GGG>GGA	p.G712G	SLC8A3_uc001xlu.2_Silent_p.G69G|SLC8A3_uc001xlv.2_Silent_p.G83G|SLC8A3_uc001xlw.2_Silent_p.G709G|SLC8A3_uc001xlx.2_Silent_p.G710G|SLC8A3_uc001xlz.2_Silent_p.G706G|SLC8A3_uc010ara.2_RNA|SLC8A3_uc001xma.2_Silent_p.G69G	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	712	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		CATCCTCATCCCCTGCTGAAG	0.527													17	17	---	---	---	---	PASS	T	70515755	T	T	70515755	2	4	4	1	0	0	0	0	0	0	0	1	14708	610	22	3		3	SLC8A3	14	70515755	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1155369	70515755	36833785	2716	3307										
MAP3K9	4293	broad.mit.edu	37	chr14	71209074	71209074	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccggccactgaccagaagGgaggctgatgcggttgccat	14	13	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:71209074G>A	uc001xmm.2	-	6	1561	c.1561C>T	c.(1561-1563)CCT>TCT	p.P521S	MAP3K9_uc010ttk.1_Missense_Mutation_p.P258S|MAP3K9_uc001xmk.2_Missense_Mutation_p.P215S|MAP3K9_uc001xml.2_Missense_Mutation_p.P521S	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	521				KLKDGNRISLPSDFQHKFTVQASPT -> AQPVLPFPHGHS RCPGGTGSSWGGQ (in Ref. 4).	activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		TGACCAGAAGGGAGGCTGATG	0.602													18	29	---	---	---	---	PASS	A	71209074	A	A	71209074	3	1	4	1	0	0	0	0	1	0	0	0	9257	1232	43	3	1827	3	MAP3K9	14	71209074	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	693319	71209074	36140466	2717	3308										
PCNX	22990	broad.mit.edu	37	chr14	71542926	71542926	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtatcatttattatgttacGacctcgtctaagctagagga	9	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:71542926G>C	uc001xmo.2	+	28	5573	c.5127G>C	c.(5125-5127)ACG>ACC	p.T1709T	PCNX_uc010are.1_Silent_p.T1598T|PCNX_uc010arf.1_Silent_p.T497T	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1709						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)		ATTATGTTACGACCTCGTCTA	0.358													15	26	---	---	---	---	PASS	C	71542926	C	C	71542926	2	2	4	1	0	0	0	0	0	0	0	1	11591	1045	37	2		2	PCNX	14	71542926	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	333852	71542926	35806614	2718	3309										
SIPA1L1	26037	broad.mit.edu	37	chr14	72202099	72202099	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctctggcccagatgaagcCttacagcaggttggtcccag	13	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:72202099C>T	uc001xms.2	+	20	5525	c.5177C>T	c.(5176-5178)CCT>CTT	p.P1726L	SIPA1L1_uc001xmt.2_Missense_Mutation_p.P1705L|SIPA1L1_uc001xmu.2_Missense_Mutation_p.P1705L|SIPA1L1_uc001xmv.2_Missense_Mutation_p.P1726L|SIPA1L1_uc010ttm.1_Missense_Mutation_p.P1180L|SIPA1L1_uc001xmw.2_Missense_Mutation_p.P491L	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1726					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		CAGATGAAGCCTTACAGCAGG	0.542													33	34	---	---	---	---	PASS	T	72202099	T	T	72202099	3	4	4	1	0	0	0	0	1	0	0	0	14329	681	24	3	5251	3	SIPA1L1	14	72202099	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	659173	72202099	35147441	2719	3310										
PAPLN	89932	broad.mit.edu	37	chr14	73726100	73726100	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agccctgggccccgctccctCtctgcagcagcccccatacc	8	22	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:73726100C>T	uc010ttx.1	+	15	1995	c.1832C>T	c.(1831-1833)TCT>TTT	p.S611F	PAPLN_uc001xnw.3_Missense_Mutation_p.S584F|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.S611F|PAPLN_uc010arm.2_5'Flank	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	611						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		CCCGCTCCCTCTCTGCAGCAG	0.701													13	12	---	---	---	---	PASS	T	73726100	T	T	73726100	3	4	4	1	0	0	0	0	1	0	0	0	11428	913	32	2	1805	2	PAPLN	14	73726100	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1524001	73726100	33623440	2720	3311										
NUMB	8650	broad.mit.edu	37	chr14	73743958	73743958	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtctatgaccggcctggaaGagacctggagaggcagcacc	14	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:73743958G>A	uc001xny.1	-	13	1604	c.1284C>T	c.(1282-1284)CTC>CTT	p.L428L	NUMB_uc010aro.1_Silent_p.L233L|NUMB_uc010arp.1_Silent_p.L222L|NUMB_uc010arq.1_Silent_p.L282L|NUMB_uc010arr.1_Silent_p.L271L|NUMB_uc001xoa.1_Silent_p.L380L|NUMB_uc001xnz.1_Silent_p.L417L|NUMB_uc001xob.1_Silent_p.L369L|NUMB_uc001xod.1_Silent_p.L380L|NUMB_uc001xoc.1_Silent_p.L428L|NUMB_uc010ars.1_Silent_p.L417L|NUMB_uc010ttz.1_Silent_p.L126L|NUMB_uc001xoe.2_RNA	NM_001005743	NP_001005743	P49757	NUMB_HUMAN	numb homolog isoform 1	428					axon guidance|lateral ventricle development|neuroblast division in subventricular zone|positive regulation of neurogenesis	integral to plasma membrane				ovary(2)|central_nervous_system(1)|skin(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00471)|OV - Ovarian serous cystadenocarcinoma(108;0.161)		CGGCCTGGAAGAGACCTGGAG	0.567													10	11	---	---	---	---	PASS	A	73743958	A	A	73743958	2	1	4	1	0	0	0	0	0	0	0	1	10751	929	33	2		2	NUMB	14	73743958	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	17858	73743958	33605582	2721	3312										
ACOT4	122970	broad.mit.edu	37	chr14	74060560	74060560	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aataacatggacaacatatcCctggagtacttcgaagaagc	8	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:74060560C>T	uc001xoo.2	+	2	866	c.612C>T	c.(610-612)TCC>TCT	p.S204S		NM_152331	NP_689544	Q8N9L9	ACOT4_HUMAN	acyl-CoA thioesterase 4	204					acyl-CoA metabolic process|dicarboxylic acid metabolic process|long-chain fatty acid metabolic process|saturated monocarboxylic acid metabolic process|short-chain fatty acid metabolic process|succinyl-CoA metabolic process|unsaturated monocarboxylic acid metabolic process|very long-chain fatty acid metabolic process	peroxisome	carboxylesterase activity|palmitoyl-CoA hydrolase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00331)		ACAACATATCCCTGGAGTACT	0.438													30	34	---	---	---	---	PASS	T	74060560	T	T	74060560	2	4	4	1	0	0	0	0	0	0	0	1	153	610	22	3		3	ACOT4	14	74060560	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	316602	74060560	33288980	2722	3313										
YLPM1	56252	broad.mit.edu	37	chr14	75276419	75276419	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcactcttccattccccctCctggcccagtgcctatgggt	7	17	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:75276419C>T	uc001xqj.3	+	7	4982	c.4858C>T	c.(4858-4860)CCT>TCT	p.P1620S	YLPM1_uc001xql.3_RNA|YLPM1_uc001xqm.1_Missense_Mutation_p.P103S	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1425					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		CATTCCCCCTCCTGGCCCAGT	0.493													30	26	---	---	---	---	PASS	T	75276419	T	T	75276419	3	4	4	1	0	0	0	0	1	0	0	0	17483	855	30	2	4884	2	YLPM1	14	75276419	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1215859	75276419	32073121	2723	3314										
YLPM1	56252	broad.mit.edu	37	chr14	75282952	75282952	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggcagtggaaagacacatgTtgcaaaacttattcgagtga	11	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:75282952T>C	uc001xqj.3	+	12	5673	c.5549T>C	c.(5548-5550)GTT>GCT	p.V1850A	YLPM1_uc001xql.3_RNA|YLPM1_uc001xqm.1_Missense_Mutation_p.V333A	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1655					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		AAGACACATGTTGCAAAACTT	0.363													12	9	---	---	---	---	PASS	C	75282952	C	C	75282952	3	2	4	1	0	0	0	0	1	0	0	0	17483	1725	60	5	5595	5	YLPM1	14	75282952	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	6533	75282952	32066588	2724	3315										
YLPM1	56252	broad.mit.edu	37	chr14	75283756	75283756	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcctggatgccatcaatgaCagagttaggcattttgacca	9	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:75283756C>T	uc001xqj.3	+	14	5932	c.5808C>T	c.(5806-5808)GAC>GAT	p.D1936D	YLPM1_uc001xql.3_RNA|YLPM1_uc001xqm.1_Silent_p.D419D	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1741					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		CCATCAATGACAGAGTTAGGC	0.403													20	12	---	---	---	---	PASS	T	75283756	T	T	75283756	2	4	4	1	0	0	0	0	0	0	0	1	17483	477	17	3		3	YLPM1	14	75283756	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	804	75283756	32065784	2725	3316										
YLPM1	56252	broad.mit.edu	37	chr14	75302035	75302035	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccataggttttgtggtcgGacagactgattgggagaaga	16	5	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:75302035G>A	uc001xqj.3	+	20	6486	c.6362G>A	c.(6361-6363)GGA>GAA	p.G2121E	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1926					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		TTTGTGGTCGGACAGACTGAT	0.438													46	49	---	---	---	---	PASS	A	75302035	A	A	75302035	3	1	4	1	0	0	0	0	1	0	0	0	17483	1174	41	2	6440	2	YLPM1	14	75302035	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	18279	75302035	32047505	2726	3317										
PROX2	283571	broad.mit.edu	37	chr14	75321913	75321913	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ataattttataaatgggtttCttccaggaaggatctgagtc	9	5	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:75321913C>T	uc001xqr.1	-	4	1701	c.1701G>A	c.(1699-1701)AAG>AAA	p.K567K	uc001xqp.1_5'Flank|PROX2_uc001xqq.1_Silent_p.K266K	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2	567	Prospero-like.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		AAATGGGTTTCTTCCAGGAAG	0.453													6	26	---	---	---	---	PASS	T	75321913	T	T	75321913	2	4	4	1	0	0	0	0	0	0	0	1	12561	912	32	2		2	PROX2	14	75321913	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	19878	75321913	32027627	2727	3318										
C14orf179	112752	broad.mit.edu	37	chr14	76488675	76488675	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctctttccttgtagacttcCtctgctaaattacctcgctg	5	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:76488675C>T	uc010asm.1	+	3	187	c.153C>T	c.(151-153)TCC>TCT	p.S51S	C14orf179_uc001xsf.2_RNA|C14orf179_uc010asl.1_Silent_p.S51S|C14orf179_uc001xsg.2_Silent_p.S51S|C14orf179_uc010tve.1_RNA|C14orf179_uc001xse.2_Silent_p.S51S	NM_001102564	NP_001096034	Q96FT9	IFT43_HUMAN	hypothetical protein LOC112752 isoform 2	51					cilium morphogenesis|intraflagellar retrograde transport						0				BRCA - Breast invasive adenocarcinoma(234;0.0199)		TGTAGACTTCCTCTGCTAAAT	0.378													32	43	---	---	---	---	PASS	T	76488675	T	T	76488675	2	4	4	1	0	0	0	0	0	0	0	1	1762	668	24	3		3	C14orf179	14	76488675	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1166762	76488675	30860865	2728	3319										
ANGEL1	23357	broad.mit.edu	37	chr14	77269739	77269739	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttagtatctgtcactccttcCataaggaccagtcctactgg	7	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:77269739C>T	uc001xsv.2	-	7	1706	c.1593G>A	c.(1591-1593)ATG>ATA	p.M531I	ANGEL1_uc010tvf.1_Intron	NM_015305	NP_056120	Q9UNK9	ANGE1_HUMAN	angel homolog 1	531										ovary(2)|central_nervous_system(1)|skin(1)	4			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0285)		TCACTCCTTCCATAAGGACCA	0.473													9	38	---	---	---	---	PASS	T	77269739	T	T	77269739	3	4	4	1	0	0	0	0	1	0	0	0	608	594	21	3	435	3	ANGEL1	14	77269739	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	781064	77269739	30079801	2729	3320										
STON2	85439	broad.mit.edu	37	chr14	81744523	81744523	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttttcaacagcatcagagtGtgactgggttttgcttgaat	10	6	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:81744523G>A	uc010tvu.1	-	4	1333	c.1132C>T	c.(1132-1134)CAC>TAC	p.H378Y	STON2_uc001xvk.1_Missense_Mutation_p.H378Y|STON2_uc010tvt.1_Missense_Mutation_p.H175Y	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	378					endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		GCATCAGAGTGTGACTGGGTT	0.448													25	51	---	---	---	---	PASS	A	81744523	A	A	81744523	3	1	4	1	0	0	0	0	1	0	0	0	15317	1377	48	3	1591	3	STON2	14	81744523	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4474784	81744523	25605017	2730	3321										
EML5	161436	broad.mit.edu	37	chr14	89181377	89181377	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatgagtgatgaaactaagGgatcccaaacactcgccaac	9	10	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:89181377G>A	uc001xxg.2	-	10	1536	c.1350C>T	c.(1348-1350)TCC>TCT	p.S450S	EML5_uc001xxh.1_5'UTR	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	450	WD 9.					cytoplasm|microtubule				ovary(3)	3						TGAAACTAAGGGATCCCAAAC	0.408													26	20	---	---	---	---	PASS	A	89181377	A	A	89181377	2	1	4	1	0	0	0	0	0	0	0	1	5100	1219	43	3		3	EML5	14	89181377	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	7436854	89181377	18168163	2731	3322										
FOXN3	1112	broad.mit.edu	37	chr14	89878376	89878376	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtgcatttgcaaaatacgGaaaatgttccaagatccagt	9	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:89878376G>A	uc001xxo.3	-	2	582	c.445C>T	c.(445-447)CCG>TCG	p.P149S	FOXN3_uc001xxn.3_Missense_Mutation_p.P149S|FOXN3_uc010atk.2_Missense_Mutation_p.P149S|FOXN3_uc001xxp.2_Missense_Mutation_p.P149S	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1	149	Fork-head.				DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|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			skin(2)|ovary(1)	3						GCAAAATACGGAAAATGTTCC	0.438													33	51	---	---	---	---	PASS	A	89878376	A	A	89878376	3	1	4	1	0	0	0	0	1	0	0	0	6021	1174	41	2	1051	2	FOXN3	14	89878376	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	696999	89878376	17471164	2732	3323										
UBR7	55148	broad.mit.edu	37	chr14	93676181	93676181	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctttcagggctcagtaaaGagacaagcactatatgcctg	11	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:93676181G>A	uc001ybm.3	+	2	398	c.162G>A	c.(160-162)AAG>AAA	p.K54K	C14orf142_uc001ybl.1_5'Flank|UBR7_uc001ybn.3_Intron|UBR7_uc010auq.2_5'UTR	NM_175748	NP_786924	Q8N806	UBR7_HUMAN	ubiquitin protein ligase E3 component n-recognin	54	UBR-type.						ubiquitin-protein ligase activity|zinc ion binding				0						GCTCAGTAAAGAGACAAGCAC	0.403													5	18	---	---	---	---	PASS	A	93676181	A	A	93676181	2	1	4	1	0	0	0	0	0	0	0	1	16903	933	33	2		2	UBR7	14	93676181	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	3797805	93676181	13673359	2733	3324										
BTBD7	55727	broad.mit.edu	37	chr14	93708946	93708946	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaacgacatccaggtgtatCggctcattcttttgtctgtg	9	10	4	0	rs141130270		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:93708946C>T	uc001ybo.2	-	11	3398	c.3072G>A	c.(3070-3072)CCG>CCA	p.P1024P	BTBD7_uc010aur.2_Silent_p.P549P|BTBD7_uc010two.1_Silent_p.P844P|BTBD7_uc001ybp.2_Silent_p.P673P	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	1024										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		CCAGGTGTATCGGCTCATTCT	0.522													60	63	---	---	---	---	PASS	T	93708946	T	T	93708946	2	4	4	1	0	0	0	0	0	0	0	1	1546	871	31	2		2	BTBD7	14	93708946	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	32765	93708946	13640594	2734	3325										
KIAA1409	57578	broad.mit.edu	37	chr14	94069764	94069764	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaccctgacctccaaaattCgttgagtatcttctttcatc	5	12	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:94069764C>T	uc001ybv.1	+	23	3306	c.3223C>T	c.(3223-3225)CCT>TCT	p.P1075S	KIAA1409_uc001ybs.1_Nonsense_Mutation_p.R1075*	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CTCCAAAATTCGTTGAGTATC	0.473													7	30	---	---	---	---	PASS	T	94069764	T	T	94069764	3	4	4	1	0	0	0	0	1	0	0	0	8230	898	31	2	3313	2	KIAA1409	14	94069764	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	360818	94069764	13279776	2735	3326										
KIAA1409	57578	broad.mit.edu	37	chr14	94088203	94088203	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcgtatatcgcacaaagaCcaaacgaccctggacgttct	8	13	1	1	rs141877928	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:94088203C>T	uc001ybv.1	+	28	4242	c.4159C>T	c.(4159-4161)CCA>TCA	p.P1387S	KIAA1409_uc001ybs.1_Missense_Mutation_p.P1365S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1542						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CGCACAAAGACCAAACGACCC	0.498													7	77	---	---	---	---	PASS	T	94088203	T	T	94088203	3	4	4	1	0	0	0	0	1	0	0	0	8230	507	18	3	4199	3	KIAA1409	14	94088203	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	18439	94088203	13261337	2736	3327										
SERPINA5	5104	broad.mit.edu	37	chr14	95054239	95054239	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattatgtggcaaagcaaacGaagggcaagattgtggactt	13	5	0	1	rs146244413		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:95054239G>A	uc001ydm.2	+	3	750	c.540G>A	c.(538-540)ACG>ACA	p.T180T	SERPINA5_uc010ave.2_Silent_p.T180T|SERPINA5_uc001ydn.1_Silent_p.T180T	NM_000624	NP_000615	P05154	IPSP_HUMAN	serine (or cysteine) proteinase inhibitor, clade	180					fusion of sperm to egg plasma membrane|regulation of proteolysis|spermatogenesis	extracellular region|membrane|protein complex	acrosin binding|heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(2)	2				COAD - Colon adenocarcinoma(157;0.21)	Drotrecogin alfa(DB00055)|Urokinase(DB00013)	CAAAGCAAACGAAGGGCAAGA	0.483													35	35	---	---	---	---	PASS	A	95054239	A	A	95054239	2	1	4	1	0	0	0	0	0	0	0	1	14092	1045	37	2		2	SERPINA5	14	95054239	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	966036	95054239	12295301	2737	3328										
DICER1	23405	broad.mit.edu	37	chr14	95557423	95557423	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caattctcgcacaggggaacGgggtacatttgcagaaaact	11	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:95557423G>A	uc001ydw.2	-	27	5733	c.5551C>T	c.(5551-5553)CGT>TGT	p.R1851C	DICER1_uc010avh.1_Missense_Mutation_p.R749C|DICER1_uc001ydv.2_Missense_Mutation_p.R1841C|DICER1_uc001ydx.2_Missense_Mutation_p.R1851C	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1851	DRBM.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		ACAGGGGAACGGGGTACATTT	0.303			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				9	37	---	---	---	---	PASS	A	95557423	A	A	95557423	3	1	4	1	0	0	0	0	1	0	0	0	4521	1116	39	1	225	1	DICER1	14	95557423	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	503184	95557423	11792117	2738	3329										
DICER1	23405	broad.mit.edu	37	chr14	95574758	95574758	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agttgagttcatcaggtaaaGgtgtagttaaaaccattcct	9	6	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:95574758G>A	uc001ydw.2	-	16	2521	c.2339C>T	c.(2338-2340)CCT>CTT	p.P780L	DICER1_uc010avh.1_5'Flank|DICER1_uc001ydv.2_Missense_Mutation_p.P770L|DICER1_uc001ydx.2_Missense_Mutation_p.P780L	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	780					negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		ATCAGGTAAAGGTGTAGTTAA	0.438			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				29	45	---	---	---	---	PASS	A	95574758	A	A	95574758	3	1	4	1	0	0	0	0	1	0	0	0	4521	1000	35	3	3481	3	DICER1	14	95574758	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	17335	95574758	11774782	2739	3330										
CLMN	79789	broad.mit.edu	37	chr14	95669744	95669744	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttttatccactggtgtctCttctggggctgaaggacagc	11	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:95669744C>T	uc001yef.2	-	9	2058	c.1942G>A	c.(1942-1944)GAG>AAG	p.E648K		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	648						integral to membrane	actin binding				0				Epithelial(152;0.193)		ACTGGTGTCTCTTCTGGGGCT	0.502													30	38	---	---	---	---	PASS	T	95669744	T	T	95669744	3	4	4	1	0	0	0	0	1	0	0	0	3542	922	32	2	1086	2	CLMN	14	95669744	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	94986	95669744	11679796	2740	3331										
TCL1B	9623	broad.mit.edu	37	chr14	96157137	96157137	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacccgggagctactctcctCcggccagatgcccttctccc	8	19	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:96157137C>T	uc001yez.2	+	2	269	c.227C>T	c.(226-228)TCC>TTC	p.S76F	TCL1B_uc001yew.2_RNA|TCL1B_uc001yex.2_RNA|TCL1B_uc010avj.2_RNA|TCL1B_uc001yfa.2_Missense_Mutation_p.S76F	NM_004918	NP_004909	O95988	TCL1B_HUMAN	T-cell leukemia/lymphoma 1B	76										ovary(1)	1		all_cancers(154;0.103)		COAD - Colon adenocarcinoma(157;0.205)|Epithelial(152;0.248)		CTACTCTCCTCCGGCCAGATG	0.577													4	35	---	---	---	---	PASS	T	96157137	T	T	96157137	3	4	4	1	0	0	0	0	1	0	0	0	15702	855	30	2	233	2	TCL1B	14	96157137	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	487393	96157137	11192403	2741	3332										
BDKRB1	623	broad.mit.edu	37	chr14	96730835	96730835	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taccacttctttgccttcctGgaattcttattccaggtgca	6	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:96730835G>A	uc001yfh.2	+	3	1024	c.816G>A	c.(814-816)CTG>CTA	p.L272L	BDKRB1_uc010avn.2_Intron	NM_000710	NP_000701	P46663	BKRB1_HUMAN	bradykinin receptor B1	272	Helical; Name=6; (Potential).				elevation of cytosolic calcium ion concentration	endoplasmic reticulum|integral to plasma membrane	bradykinin receptor activity			ovary(3)	3		all_cancers(154;0.0677)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.208)|Epithelial(152;0.226)		TTGCCTTCCTGGAATTCTTAT	0.562													24	25	---	---	---	---	PASS	A	96730835	A	A	96730835	2	1	4	1	0	0	0	0	0	0	0	1	1392	1335	47	3		3	BDKRB1	14	96730835	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	573698	96730835	10618705	2742	3333										
ATG2B	55102	broad.mit.edu	37	chr14	96813608	96813608	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agccccatggaactgacaggGaaattgactgaatgaatcct	10	9	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:96813608G>A	uc001yfi.2	-	2	598	c.233C>T	c.(232-234)TCC>TTC	p.S78F		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	78										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)		AACTGACAGGGAAATTGACTG	0.453													20	11	---	---	---	---	PASS	A	96813608	A	A	96813608	3	1	4	1	0	0	0	0	1	0	0	0	1094	1174	41	2	6167	2	ATG2B	14	96813608	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	82773	96813608	10535932	2743	3334										
CCNK	8812	broad.mit.edu	37	chr14	99968655	99968655	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caagaatggacctccaaaccCatgtataggagatggtggga	12	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:99968655C>T	uc001ygi.3	+	7	817	c.687C>T	c.(685-687)CCC>CCT	p.P229P	CCNK_uc001ygg.3_Silent_p.P229P	NM_001099402	NP_001092872	O75909	CCNK_HUMAN	cyclin K isoform 1	229					cell division|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein kinase binding				0		all_cancers(154;0.224)|all_epithelial(191;0.0643)|Melanoma(154;0.0866)				CCTCCAAACCCATGTATAGGA	0.483													6	32	---	---	---	---	PASS	T	99968655	T	T	99968655	2	4	4	1	0	0	0	0	0	0	0	1	2930	581	21	3		3	CCNK	14	99968655	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3155047	99968655	7380885	2744	3335										
HHIPL1	84439	broad.mit.edu	37	chr14	100129338	100129338	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctactacccgtacatcatctCcttcggggaggacgaggccg	11	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:100129338C>T	uc010avs.2	+	6	1693	c.1628C>T	c.(1627-1629)TCC>TTC	p.S543F	HHIPL1_uc001ygl.1_Missense_Mutation_p.S543F	NM_001127258	NP_001120730	Q96JK4	HIPL1_HUMAN	HHIP-like protein 1 isoform a	543					carbohydrate metabolic process	extracellular region|membrane	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding|scavenger receptor activity			skin(2)	2		Melanoma(154;0.128)				TACATCATCTCCTTCGGGGAG	0.602													5	48	---	---	---	---	PASS	T	100129338	T	T	100129338	3	4	4	1	0	0	0	0	1	0	0	0	7093	855	30	2	1650	2	HHIPL1	14	100129338	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	160683	100129338	7220202	2745	3336										
PPP2R5C	5527	broad.mit.edu	37	chr14	102372829	102372829	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agattctgcccatcatgtttCcttccttgtaccgcaactca	5	14	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:102372829C>T	uc001yko.2	+	10	1254	c.1114C>T	c.(1114-1116)CCT>TCT	p.P372S	PPP2R5C_uc010txr.1_Missense_Mutation_p.P403S|PPP2R5C_uc001ykk.2_Missense_Mutation_p.P427S|PPP2R5C_uc010txt.1_Missense_Mutation_p.P362S|PPP2R5C_uc001ykn.2_Missense_Mutation_p.P372S|PPP2R5C_uc001ykp.2_Missense_Mutation_p.P372S|PPP2R5C_uc001ykq.2_Intron	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	372					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|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						CATCATGTTTCCTTCCTTGTA	0.413													9	72	---	---	---	---	PASS	T	102372829	T	T	102372829	3	4	4	1	0	0	0	0	1	0	0	0	12394	855	30	2	1521	2	PPP2R5C	14	102372829	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2243491	102372829	4976711	2746	3337										
PPP2R5C	5527	broad.mit.edu	37	chr14	102375971	102375971	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccctgaagctcttcatggaGatgaaccaaaagctatttga	9	9	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:102375971G>T	uc001yko.2	+	11	1337	c.1197G>T	c.(1195-1197)GAG>GAT	p.E399D	PPP2R5C_uc010txr.1_Missense_Mutation_p.E430D|PPP2R5C_uc001ykk.2_Missense_Mutation_p.E454D|PPP2R5C_uc001ykn.2_Missense_Mutation_p.E399D|PPP2R5C_uc001ykp.2_Missense_Mutation_p.E399D|PPP2R5C_uc001ykq.2_Missense_Mutation_p.D255Y	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	399					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|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						TCTTCATGGAGATGAACCAAA	0.438													12	73	---	---	---	---	PASS	T	102375971	T	T	102375971	3	4	4	1	0	0	0	0	1	0	0	0	12394	933	33	2	1608	2	PPP2R5C	14	102375971	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3142	102375971	4973569	2747	3338										
DYNC1H1	1778	broad.mit.edu	37	chr14	102442056	102442056	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttatgatttgtagaggacgtCggtgatgaaggagaagaaga	15	2	0	7			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:102442056C>T	uc001yks.2	+	2	428	c.264C>T	c.(262-264)GTC>GTT	p.V88V		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	88	Stem (By similarity).				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						TAGAGGACGTCGGTGATGAAG	0.303													26	28	---	---	---	---	PASS	T	102442056	T	T	102442056	2	4	4	1	0	0	0	0	0	0	0	1	4841	871	31	2		2	DYNC1H1	14	102442056	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	66085	102442056	4907484	2748	3339										
DYNC1H1	1778	broad.mit.edu	37	chr14	102476637	102476637	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcgatgagcagctctcttcCcaaagccattatgacttcgg	9	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:102476637C>T	uc001yks.2	+	31	6410	c.6246C>T	c.(6244-6246)TCC>TCT	p.S2082S		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2082	AAA 1 (By similarity).				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						AGCTCTCTTCCCAAAGCCATT	0.413													25	31	---	---	---	---	PASS	T	102476637	T	T	102476637	2	4	4	1	0	0	0	0	0	0	0	1	4841	610	22	3		3	DYNC1H1	14	102476637	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	34581	102476637	4872903	2749	3340										
DYNC1H1	1778	broad.mit.edu	37	chr14	102505342	102505342	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttttattcatttaaggggaAtttcagctccgtttgcgtca	9	7	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:102505342A>T	uc001yks.2	+	60	11375	c.11211A>T	c.(11209-11211)GAA>GAT	p.E3737D		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3737	Potential.|AAA 5 (By similarity).				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						TTTAAGGGGAATTTCAGCTCC	0.428													38	37	---	---	---	---	PASS	T	102505342	T	T	102505342	3	4	4	1	0	0	0	0	1	0	0	0	4841	98	4	5	11449	5	DYNC1H1	14	102505342	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	28705	102505342	4844198	2750	3341										
TECPR2	9895	broad.mit.edu	37	chr14	102931580	102931580	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggactcagcctctcaatcCcagtctcatgcttccagcct	7	16	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:102931580C>T	uc001ylw.1	+	17	3891	c.3743C>T	c.(3742-3744)CCC>CTC	p.P1248L	TECPR2_uc010awl.2_Missense_Mutation_p.P1248L|TECPR2_uc010txx.1_Missense_Mutation_p.P411L	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1248	TECPR 4.						protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						CCTCTCAATCCCAGTCTCATG	0.493													19	33	---	---	---	---	PASS	T	102931580	T	T	102931580	3	4	4	1	0	0	0	0	1	0	0	0	15741	623	22	3	3805	3	TECPR2	14	102931580	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	426238	102931580	4417960	2751	3342										
PPP1R13B	23368	broad.mit.edu	37	chr14	104206338	104206338	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtgggtggtttggggacaGatgagctcctctggttcggg	19	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:104206338G>A	uc001yof.1	-	12	2698	c.2415C>T	c.(2413-2415)ATC>ATT	p.I805I	PPP1R13B_uc010awv.1_RNA|PPP1R13B_uc001yog.1_Silent_p.I672I	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	805	Pro-rich.				apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				TTTGGGGACAGATGAGCTCCT	0.622													19	24	---	---	---	---	PASS	A	104206338	A	A	104206338	2	1	4	1	0	0	0	0	0	0	0	1	12357	932	33	2		2	PPP1R13B	14	104206338	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1274758	104206338	3143202	2752	3343										
AHNAK2	113146	broad.mit.edu	37	chr14	105405869	105405869	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catgccaggcatctgaaaagGgagaggtcctttggatggat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:105405869G>A	uc010axc.1	-	7	16039	c.15919C>T	c.(15919-15921)CCT>TCT	p.P5307S	AHNAK2_uc001ypx.2_Missense_Mutation_p.P5207S	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5307						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)			ATCTGAAAAGGGAGAGGTCCT	0.527													23	19	---	---	---	---	PASS	A	105405869	A	A	105405869	3	1	4	1	0	0	0	0	1	0	0	0	415	1232	43	3	1472	3	AHNAK2	14	105405869	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1199531	105405869	1943671	2753	3344	124	2								
AHNAK2	113146	broad.mit.edu	37	chr14	105405870	105405870	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgccaggcatctgaaaaggGagaggtcctttggatggatg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:105405870G>A	uc010axc.1	-	7	16038	c.15918C>T	c.(15916-15918)CTC>CTT	p.L5306L	AHNAK2_uc001ypx.2_Silent_p.L5206L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5306						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)			TCTGAAAAGGGAGAGGTCCTT	0.527													23	20	---	---	---	---	PASS	A	105405870	A	A	105405870	2	1	4	1	0	0	0	0	0	0	0	1	415	1161	41	2		2	AHNAK2	14	105405870	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	105405870	1943670	2754	3345	124	2								
AHNAK2	113146	broad.mit.edu	37	chr14	105408689	105408689	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcatgcacagggccctctgGgagtttcacatcctcttggc	10	14	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:105408689G>A	uc010axc.1	-	7	13219	c.13099C>T	c.(13099-13101)CCA>TCA	p.P4367S	AHNAK2_uc001ypx.2_Missense_Mutation_p.P4267S	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4367						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)			GGGCCCTCTGGGAGTTTCACA	0.617													57	51	---	---	---	---	PASS	A	105408689	A	A	105408689	3	1	4	1	0	0	0	0	1	0	0	0	415	1232	43	3	4292	3	AHNAK2	14	105408689	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2819	105408689	1940851	2755	3346										
AHNAK2	113146	broad.mit.edu	37	chr14	105411071	105411071	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttaacatctatctgggggcCcttgaggtccactttgggcg	12	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:105411071C>T	uc010axc.1	-	7	10837	c.10717G>A	c.(10717-10719)GGC>AGC	p.G3573S	AHNAK2_uc001ypx.2_Missense_Mutation_p.G3473S	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3573						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)			ATCTGGGGGCCCTTGAGGTCC	0.622													24	134	---	---	---	---	PASS	T	105411071	T	T	105411071	3	4	4	1	0	0	0	0	1	0	0	0	415	623	22	3	6674	3	AHNAK2	14	105411071	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2382	105411071	1938469	2756	3347										
AHNAK2	113146	broad.mit.edu	37	chr14	105412215	105412215	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagaggggggctcaatgctGatgtcagtgttcttcaggtc	15	8	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:105412215G>A	uc010axc.1	-	7	9693	c.9573C>T	c.(9571-9573)ATC>ATT	p.I3191I	AHNAK2_uc001ypx.2_Silent_p.I3091I	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3191						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)			GCTCAATGCTGATGTCAGTGT	0.627													30	20	---	---	---	---	PASS	A	105412215	A	A	105412215	2	1	4	1	0	0	0	0	0	0	0	1	415	1280	45	2		2	AHNAK2	14	105412215	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1144	105412215	1937325	2757	3348										
AHNAK2	113146	broad.mit.edu	37	chr14	105416597	105416597	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagccggctccctcgggaaGggggccctccgggagtttca	16	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:105416597G>A	uc010axc.1	-	7	5311	c.5191C>T	c.(5191-5193)CTT>TTT	p.L1731F	AHNAK2_uc001ypx.2_Missense_Mutation_p.L1631F	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1731						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)			CCCTCGGGAAGGGGGCCCTCC	0.632													81	69	---	---	---	---	PASS	A	105416597	A	A	105416597	3	1	4	1	0	0	0	0	1	0	0	0	415	1000	35	3	12200	3	AHNAK2	14	105416597	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4382	105416597	1932943	2758	3349										
AHNAK2	113146	broad.mit.edu	37	chr14	105420408	105420408	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggacagtctggcgatcccGatttccaggctctgcagtcc	11	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr14:105420408G>A	uc010axc.1	-	7	1500	c.1380C>T	c.(1378-1380)ATC>ATT	p.I460I	AHNAK2_uc001ypx.2_Silent_p.I360I	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	460						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)			TGGCGATCCCGATTTCCAGGC	0.572													19	23	---	---	---	---	PASS	A	105420408	A	A	105420408	2	1	4	1	0	0	0	0	0	0	0	1	415	1048	37	2		2	AHNAK2	14	105420408	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	3811	105420408	1929132	2759	3350										
CYFIP1	23191	broad.mit.edu	37	chr15	22955156	22955156	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgcaggccatcaggaagaCcgtgtgtgactgggagacgg	16	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:22955156C>T	uc001yus.2	+	15	1654	c.1550C>T	c.(1549-1551)ACC>ATC	p.T517I	CYFIP1_uc001yut.2_Missense_Mutation_p.T517I|CYFIP1_uc010aya.1_Missense_Mutation_p.T545I|CYFIP1_uc001yuu.2_5'Flank	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	517					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		ATCAGGAAGACCGTGTGTGAC	0.607													19	30	---	---	---	---	PASS	T	22955156	T	T	22955156	3	4	4	1	0	0	0	0	1	0	0	0	4137	507	18	3	1604	3	CYFIP1	15	22955156	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08		22955156	79576236	2760	3351										
MKRN3	7681	broad.mit.edu	37	chr15	23811263	23811263	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacatgggcagtgcaaggagGgggagaactgtcgctattcg	16	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:23811263G>A	uc001ywh.3	+	1	810	c.334G>A	c.(334-336)GGG>AGG	p.G112R	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.G112R	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	112	C3H1-type 1.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		GTGCAAGGAGGGGGAGAACTG	0.597													15	29	---	---	---	---	PASS	A	23811263	A	A	23811263	3	1	4	1	0	0	0	0	1	0	0	0	9608	1232	43	3	336	3	MKRN3	15	23811263	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	856107	23811263	78720129	2761	3352										
MAGEL2	54551	broad.mit.edu	37	chr15	23890071	23890071	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccaaccactcaggccacggGgggtgtttgggtgctcccag	14	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:23890071G>A	uc001ywj.3	-	1	1105	c.1010C>T	c.(1009-1011)CCC>CTC	p.P337L		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		CAGGCCACGGGGGGTGTTTGG	0.657													16	21	---	---	---	---	PASS	A	23890071	A	A	23890071	3	1	4	1	0	0	0	0	1	0	0	0	9189	1232	43	3	934	3	MAGEL2	15	23890071	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	78808	23890071	78641321	2762	3353										
C15orf2	23742	broad.mit.edu	37	chr15	24921171	24921171	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttccgcggcctgttccgcCggaacgcccgtcgcaggcct	12	18	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:24921171C>T	uc001ywo.2	+	1	631	c.157C>T	c.(157-159)CGG>TGG	p.R53W		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	53					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CCTGTTCCGCCGGAACGCCCG	0.756													4	9	---	---	---	---	PASS	T	24921171	T	T	24921171	3	4	4	1	0	0	0	0	1	0	0	0	1784	643	23	1	159	1	C15orf2	15	24921171	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1031100	24921171	77610221	2763	3354			3	3		6	6	1910	N	T_G_C	4.106721e-06
C15orf2	23742	broad.mit.edu	37	chr15	24921212	24921212	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagcagccagcatcttcgtCgcccctaagaggccgtgtcc	10	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:24921212C>T	uc001ywo.2	+	1	672	c.198C>T	c.(196-198)GTC>GTT	p.V66V		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	66					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GCATCTTCGTCGCCCCTAAGA	0.721													5	10	---	---	---	---	PASS	T	24921212	T	T	24921212	2	4	4	1	0	0	0	0	0	0	0	1	1784	871	31	2		2	C15orf2	15	24921212	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	41	24921212	77610180	2764	3355			3	3		6	6	1910	N	T_G_C	4.106721e-06
C15orf2	23742	broad.mit.edu	37	chr15	24921772	24921772	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggatgtgcccggcatcttgGaaagcctgatccggatgcaa	13	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:24921772G>A	uc001ywo.2	+	1	1232	c.758G>A	c.(757-759)GGA>GAA	p.G253E		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	253					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CGGCATCTTGGAAAGCCTGAT	0.637													5	27	---	---	---	---	PASS	A	24921772	A	A	24921772	3	1	4	1	0	0	0	0	1	0	0	0	1784	1174	41	2	760	2	C15orf2	15	24921772	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	560	24921772	77609620	2765	3356			3	3		6	6	1910	N	T_G_C	4.106721e-06
C15orf2	23742	broad.mit.edu	37	chr15	24921840	24921840	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctccctgctgcagcagaagTtggctgcggaagtgctgaat	14	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:24921840T>C	uc001ywo.2	+	1	1300	c.826T>C	c.(826-828)TTG>CTG	p.L276L		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	276					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GCAGCAGAAGTTGGCTGCGGA	0.612													9	22	---	---	---	---	PASS	C	24921840	C	C	24921840	2	2	4	1	0	0	0	0	0	0	0	1	1784	1722	60	5		5	C15orf2	15	24921840	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	68	24921840	77609552	2766	3357			3	3		6	6	1910	N	T_G_C	4.106721e-06
C15orf2	23742	broad.mit.edu	37	chr15	24922790	24922790	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttgttattttcacatcttcCctaagctccagagtgagctc	7	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:24922790C>T	uc001ywo.2	+	1	2250	c.1776C>T	c.(1774-1776)TCC>TCT	p.S592S		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	592					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		TCACATCTTCCCTAAGCTCCA	0.488													19	32	---	---	---	---	PASS	T	24922790	T	T	24922790	2	4	4	1	0	0	0	0	0	0	0	1	1784	610	22	3		3	C15orf2	15	24922790	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	950	24922790	77608602	2767	3358			3	3		6	6	1910	N	T_G_C	4.106721e-06
C15orf2	23742	broad.mit.edu	37	chr15	24923080	24923080	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaacagtgcctctacagcatCatcatccaaacctcccattg	5	15	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:24923080C>T	uc001ywo.2	+	1	2540	c.2066C>T	c.(2065-2067)TCA>TTA	p.S689L		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	689					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		TCTACAGCATCATCATCCAAA	0.512													15	90	---	---	---	---	PASS	T	24923080	T	T	24923080	3	4	4	1	0	0	0	0	1	0	0	0	1784	838	29	2	2068	2	C15orf2	15	24923080	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	290	24923080	77608312	2768	3359			3	3		6	6	1910	N	T_G_C	4.106721e-06
ATP10A	57194	broad.mit.edu	37	chr15	25925106	25925106	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggaaaaccctcccctggagGgatctgaaaaacaatctaga	10	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:25925106G>A	uc010ayu.2	-	21	3988	c.3882C>T	c.(3880-3882)TCC>TCT	p.S1294S		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1294	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TCCCCTGGAGGGATCTGAAAA	0.483													18	73	---	---	---	---	PASS	A	25925106	A	A	25925106	2	1	4	1	0	0	0	0	0	0	0	1	1116	1219	43	3		3	ATP10A	15	25925106	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1002026	25925106	76606286	2769	3360										
ATP10A	57194	broad.mit.edu	37	chr15	25972344	25972344	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgacgactgcgtccgtgttCctaagggtgcagcccctcag	12	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:25972344C>T	uc010ayu.2	-	4	916	c.810G>A	c.(808-810)AGG>AGA	p.R270R		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	270	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CGTCCGTGTTCCTAAGGGTGC	0.582													14	31	---	---	---	---	PASS	T	25972344	T	T	25972344	2	4	4	1	0	0	0	0	0	0	0	1	1116	854	30	2		2	ATP10A	15	25972344	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	47238	25972344	76559048	2770	3361										
HERC2	8924	broad.mit.edu	37	chr15	28386602	28386602	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatcagccgtcacagcaaaGagggtctgttcccctccgat	9	15	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:28386602G>A	uc001zbj.2	-	78	12097	c.11991C>T	c.(11989-11991)CTC>CTT	p.L3997L		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3997	RCC1 13.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TCACAGCAAAGAGGGTCTGTT	0.522													11	33	---	---	---	---	PASS	A	28386602	A	A	28386602	2	1	4	1	0	0	0	0	0	0	0	1	7058	929	33	2		2	HERC2	15	28386602	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2414258	28386602	74144790	2771	3362										
HERC2	8924	broad.mit.edu	37	chr15	28391399	28391399	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttacctgaccgcacggagacGatcctgttgacgccgtccat	10	14	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:28391399G>A	uc001zbj.2	-	71	11098	c.10992C>T	c.(10990-10992)ATC>ATT	p.I3664I		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3664					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GCACGGAGACGATCCTGTTGA	0.562													11	24	---	---	---	---	PASS	A	28391399	A	A	28391399	2	1	4	1	0	0	0	0	0	0	0	1	7058	1048	37	2		2	HERC2	15	28391399	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4797	28391399	74139993	2772	3363										
HERC2	8924	broad.mit.edu	37	chr15	28413656	28413656	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagccatcgcagatgcgtcgGaaggggccgccgaggagaac	16	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:28413656G>A	uc001zbj.2	-	67	10416	c.10310C>T	c.(10309-10311)TCC>TTC	p.S3437F		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3437					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		AGATGCGTCGGAAGGGGCCGC	0.577													16	26	---	---	---	---	PASS	A	28413656	A	A	28413656	3	1	4	1	0	0	0	0	1	0	0	0	7058	1174	41	2	4302	2	HERC2	15	28413656	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	22257	28413656	74117736	2773	3364										
HERC2	8924	broad.mit.edu	37	chr15	28508279	28508279	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cactaccacctctgcccaatTtcccatagtcaccatctccc	2	20	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:28508279T>A	uc001zbj.2	-	15	2013	c.1907A>T	c.(1906-1908)AAA>ATA	p.K636I	HERC2_uc001zbl.1_Missense_Mutation_p.K331I	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	636	RCC1 3.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TCTGCCCAATTTCCCATAGTC	0.408													10	44	---	---	---	---	PASS	A	28508279	A	A	28508279	3	1	4	1	0	0	0	0	1	0	0	0	7058	1841	64	5	12913	5	HERC2	15	28508279	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	94623	28508279	74023113	2774	3365										
APBA2	321	broad.mit.edu	37	chr15	29346206	29346206	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catggagctgcccttggaggGctatgtgcccgagggcctgg	17	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:29346206G>A	uc001zck.2	+	3	326	c.119G>A	c.(118-120)GGC>GAC	p.G40D	APBA2_uc010azj.2_Missense_Mutation_p.G40D|APBA2_uc010uat.1_Missense_Mutation_p.G40D|APBA2_uc001zcl.2_Missense_Mutation_p.G40D|APBA2_uc010uas.1_Missense_Mutation_p.G40D	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	40					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)		CCCTTGGAGGGCTATGTGCCC	0.677													7	21	---	---	---	---	PASS	A	29346206	A	A	29346206	3	1	4	1	0	0	0	0	1	0	0	0	757	1203	42	3	121	3	APBA2	15	29346206	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	837927	29346206	73185186	2775	3366										
APBA2	321	broad.mit.edu	37	chr15	29346759	29346759	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacctggaggaccaggaggaGgacattgaccagatcgtggc	16	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:29346759G>A	uc001zck.2	+	3	879	c.672G>A	c.(670-672)GAG>GAA	p.E224E	APBA2_uc010azj.2_Silent_p.E224E|APBA2_uc010uat.1_Silent_p.E224E|APBA2_uc001zcl.2_Silent_p.E224E|APBA2_uc010uas.1_Silent_p.E224E	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	224	STXBP1-binding.				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)		ACCAGGAGGAGGACATTGACC	0.652													4	9	---	---	---	---	PASS	A	29346759	A	A	29346759	2	1	4	1	0	0	0	0	0	0	0	1	757	991	35	3		3	APBA2	15	29346759	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	553	29346759	73184633	2776	3367										
APBA2	321	broad.mit.edu	37	chr15	29400587	29400587	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggcttcagcgtgcagaatGgaattgtgagttccccctcc	12	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:29400587G>A	uc001zck.2	+	12	2239	c.2032G>A	c.(2032-2034)GGA>AGA	p.G678R	APBA2_uc010azj.2_Missense_Mutation_p.G666R|APBA2_uc010uat.1_Missense_Mutation_p.G666R|APBA2_uc001zcl.2_Missense_Mutation_p.G666R	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	678	PDZ 2.				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)		CGTGCAGAATGGAATTGTGAG	0.617													23	41	---	---	---	---	PASS	A	29400587	A	A	29400587	3	1	4	1	0	0	0	0	1	0	0	0	757	1349	47	3	2070	3	APBA2	15	29400587	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	53828	29400587	73130805	2777	3368										
TJP1	7082	broad.mit.edu	37	chr15	30058721	30058721	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggacgacttactggtatttGaactttcttcttccttctaa	6	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:30058721G>A	uc001zcr.2	-	5	812	c.337C>T	c.(337-339)CAA>TAA	p.Q113*	TJP1_uc010azl.2_Nonsense_Mutation_p.Q101*|TJP1_uc001zcq.2_Nonsense_Mutation_p.Q117*|TJP1_uc001zcs.2_Nonsense_Mutation_p.Q113*	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	113					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		ACTGGTATTTGAACTTTCTTC	0.353													13	29	---	---	---	---	PASS	A	30058721	A	A	30058721	4	1	4	1	0	0	0	0	0	1	0	0	15926	1299	45	2	5005	2	TJP1	15	30058721	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	658134	30058721	72472671	2778	3369										
FMN1	342184	broad.mit.edu	37	chr15	33261033	33261033	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagtccaaagaagagtccagGgggaggtgggggtgcaagtc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:33261033G>A	uc001zhf.3	-	4	2200	c.2200C>T	c.(2200-2202)CCT>TCT	p.P734S		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	957	FH1.|Pro-rich.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		AAGAGTCCAGGGGGAGGTGGG	0.517													22	45	---	---	---	---	PASS	A	33261033	A	A	33261033	3	1	4	1	0	0	0	0	1	0	0	0	5949	1232	43	3	1446	3	FMN1	15	33261033	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3202312	33261033	69270359	2779	3370	125	2								
FMN1	342184	broad.mit.edu	37	chr15	33261034	33261034	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtccaaagaagagtccaggGggaggtgggggtgcaagtcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:33261034G>A	uc001zhf.3	-	4	2199	c.2199C>T	c.(2197-2199)CCC>CCT	p.P733P		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	956	FH1.|Pro-rich.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		AGAGTCCAGGGGGAGGTGGGG	0.517													22	44	---	---	---	---	PASS	A	33261034	A	A	33261034	2	1	4	1	0	0	0	0	0	0	0	1	5949	1219	43	3		3	FMN1	15	33261034	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	33261034	69270358	2780	3371	125	2								
FMN1	342184	broad.mit.edu	37	chr15	33261074	33261074	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgggggtggtggagcaggaGgaggccctccagggttgggt	22	7	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:33261074G>A	uc001zhf.3	-	4	2159	c.2159C>T	c.(2158-2160)CCT>CTT	p.P720L		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	943	FH1.|Pro-rich.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		TGGAGCAGGAGGAGGCCCTCC	0.473													13	16	---	---	---	---	PASS	A	33261074	A	A	33261074	3	1	4	1	0	0	0	0	1	0	0	0	5949	1000	35	3	1487	3	FMN1	15	33261074	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	40	33261074	69270318	2781	3372										
RYR3	6263	broad.mit.edu	37	chr15	33993236	33993236	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagcttcctctgtgatggaCaacaatgagttagcgctgag	12	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:33993236C>A	uc001zhi.2	+	42	6508	c.6438C>A	c.(6436-6438)GAC>GAA	p.D2146E	RYR3_uc010bar.2_Missense_Mutation_p.D2146E	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2146	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CTGTGATGGACAACAATGAGT	0.567											OREG0023030	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	15	---	---	---	---	PASS	A	33993236	A	A	33993236	3	1	4	1	0	0	0	0	1	0	0	0	13770	477	17	3	6604	3	RYR3	15	33993236	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	732162	33993236	68538156	2782	3373										
RYR3	6263	broad.mit.edu	37	chr15	34015006	34015006	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccctgcggggtgagggggGaaacgggctcttggcagcca	20	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:34015006G>A	uc001zhi.2	+	44	6780	c.6710G>A	c.(6709-6711)GGA>GAA	p.G2237E	RYR3_uc010bar.2_Missense_Mutation_p.G2237E	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2237	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGTGAGGGGGGAAACGGGCTC	0.572													36	68	---	---	---	---	PASS	A	34015006	A	A	34015006	3	1	4	1	0	0	0	0	1	0	0	0	13770	1174	41	2	6884	2	RYR3	15	34015006	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	21770	34015006	68516386	2783	3374										
RYR3	6263	broad.mit.edu	37	chr15	34047308	34047308	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgcctcctccatggagaaGaggtttgcctataagttctt	10	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:34047308G>A	uc001zhi.2	+	58	8512	c.8442G>A	c.(8440-8442)AAG>AAA	p.K2814K	RYR3_uc010bar.2_Silent_p.K2814K	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2814	4.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CCATGGAGAAGAGGTTTGCCT	0.433													10	20	---	---	---	---	PASS	A	34047308	A	A	34047308	2	1	4	1	0	0	0	0	0	0	0	1	13770	933	33	2		2	RYR3	15	34047308	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	32302	34047308	68484084	2784	3375										
AVEN	57099	broad.mit.edu	37	chr15	34159869	34159869	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggaagtgggtttctgagaaTcccttgaaggacccgggctt	15	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:34159869T>G	uc001zhj.2	-	5	856	c.800A>C	c.(799-801)GAT>GCT	p.D267A		NM_020371	NP_065104	Q9NQS1	AVEN_HUMAN	cell death regulator aven	267					anti-apoptosis|apoptosis	endomembrane system|intracellular|membrane|membrane fraction	protein binding			kidney(1)	1		all_lung(180;1.78e-08)		all cancers(64;1.66e-15)|GBM - Glioblastoma multiforme(113;1.42e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0359)		TTTCTGAGAATCCCTTGAAGG	0.522													16	42	---	---	---	---	PASS	G	34159869	G	G	34159869	3	3	4	1	0	0	0	0	1	0	0	0	1226	1435	50	5	296	5	AVEN	15	34159869	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	112561	34159869	68371523	2785	3376										
SLC12A6	9990	broad.mit.edu	37	chr15	34551145	34551145	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggtctggtgtccatttcttCctataaagccagtgacatgg	10	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:34551145C>T	uc001zhw.2	-	4	576	c.412G>A	c.(412-414)GAA>AAA	p.E138K	SLC12A6_uc001zhv.2_Missense_Mutation_p.E87K|SLC12A6_uc001zhx.2_Missense_Mutation_p.E123K|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.E79K|SLC12A6_uc001zib.2_Missense_Mutation_p.E129K|SLC12A6_uc001zic.2_Missense_Mutation_p.E138K|SLC12A6_uc010bau.2_Missense_Mutation_p.E138K|SLC12A6_uc001zid.2_Missense_Mutation_p.E79K|SLC12A6_uc001zhu.2_5'UTR	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	138	Cytoplasmic (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	TCCATTTCTTCCTATAAAGCC	0.388													7	21	---	---	---	---	PASS	T	34551145	T	T	34551145	3	4	4	1	0	0	0	0	1	0	0	0	14387	869	30	2	3128	2	SLC12A6	15	34551145	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	391276	34551145	67980247	2786	3377										
C15orf55	256646	broad.mit.edu	37	chr15	34648436	34648436	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagcagctggggagagggacGatgtctgtctcagcccagga	17	9	2	1	rs140018699		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:34648436G>A	uc001zif.2	+	7	2298	c.2143G>A	c.(2143-2145)GAT>AAT	p.D715N	C15orf55_uc010ucc.1_Missense_Mutation_p.D743N|C15orf55_uc010ucd.1_Missense_Mutation_p.D733N	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	715						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		GGAGAGGGACGATGTCTGTCT	0.542			T	BRD3|BRD4	lethal midline carcinoma								15	26	---	---	---	---	PASS	A	34648436	A	A	34648436	3	1	4	1	0	0	0	0	1	0	0	0	1803	1058	37	2	2169	2	C15orf55	15	34648436	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	97291	34648436	67882956	2787	3378										
AQR	9716	broad.mit.edu	37	chr15	35149101	35149101	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctcagataaagcagggatGgcttctggagtggaagtggc	16	6	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:35149101G>A	uc001ziv.2	-	35	4531	c.4350C>T	c.(4348-4350)GCC>GCT	p.A1450A		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	1450						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		AAGCAGGGATGGCTTCTGGAG	0.552													18	36	---	---	---	---	PASS	A	35149101	A	A	35149101	2	1	4	1	0	0	0	0	0	0	0	1	835	1335	47	3		3	AQR	15	35149101	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	500665	35149101	67382291	2788	3379										
AQR	9716	broad.mit.edu	37	chr15	35202474	35202474	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacaatgggctgggccattcGcgcccaaccaccaaacacta	8	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:35202474G>A	uc001ziv.2	-	17	1706	c.1525C>T	c.(1525-1527)CGA>TGA	p.R509*		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	509						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		TGGGCCATTCGCGCCCAACCA	0.443													11	17	---	---	---	---	PASS	A	35202474	A	A	35202474	4	1	4	1	0	0	0	0	0	1	0	0	835	1095	38	1	3008	1	AQR	15	35202474	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	53373	35202474	67328918	2789	3380										
THBS1	7057	broad.mit.edu	37	chr15	39874751	39874751	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaaagcagcacgtggtgtCtgtggaagaagctctcctgg	15	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:39874751C>T	uc001zkh.2	+	3	604	c.425C>T	c.(424-426)TCT>TTT	p.S142F		NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	142	TSP N-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	CACGTGGTGTCTGTGGAAGAA	0.587													8	16	---	---	---	---	PASS	T	39874751	T	T	39874751	3	4	4	1	0	0	0	0	1	0	0	0	15850	913	32	2	431	2	THBS1	15	39874751	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4672277	39874751	62656641	2790	3381										
EIF2AK4	440275	broad.mit.edu	37	chr15	40293219	40293219	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctcctggctgttgaaccacGatccagcaaaacggcccaca	8	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:40293219G>A	uc001zkm.1	+	21	3003	c.2953G>A	c.(2953-2955)GAT>AAT	p.D985N	EIF2AK4_uc010bbj.1_Missense_Mutation_p.D686N|EIF2AK4_uc001zkn.1_Missense_Mutation_p.D85N|EIF2AK4_uc001zko.1_5'Flank	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	985	Protein kinase 2.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		GTTGAACCACGATCCAGCAAA	0.527													34	65	---	---	---	---	PASS	A	40293219	A	A	40293219	3	1	4	1	0	0	0	0	1	0	0	0	4999	1058	37	2	3035	2	EIF2AK4	15	40293219	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	418468	40293219	62238173	2791	3382										
C15orf57	90416	broad.mit.edu	37	chr15	40855148	40855148	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggatttggcagacaggaacAaatttcagcccagagatcct	10	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:40855148A>G	uc001zmc.1	-	2	157	c.67T>C	c.(67-69)TGT>CGT	p.C23R	C15orf57_uc001zly.2_Missense_Mutation_p.C21R|C15orf57_uc001zma.1_Missense_Mutation_p.C32R|C15orf57_uc001zmb.1_Missense_Mutation_p.C23R|C15orf57_uc010bbr.2_Missense_Mutation_p.C21R	NM_001080792	NP_001074261	Q9BV29	CO057_HUMAN	coiled-coil domain containing 32 isoform a	23										ovary(1)	1						AGACAGGAACAAATTTCAGCC	0.468													57	104	---	---	---	---	PASS	G	40855148	G	G	40855148	3	3	4	1	0	0	0	0	1	0	0	0	1805	130	5	5	502	5	C15orf57	15	40855148	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	561929	40855148	61676244	2792	3383										
ZFYVE19	84936	broad.mit.edu	37	chr15	41102149	41102149	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgagcgcctagcacgactCcgccaggagaacaagcccag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:41102149C>T	uc001zmt.1	+	4	1066	c.552C>T	c.(550-552)CTC>CTT	p.L184L	DNAJC17_uc001zms.1_5'Flank|DNAJC17_uc010bbz.1_5'Flank|DNAJC17_uc010bca.1_5'Flank|DNAJC17_uc010bcb.1_5'Flank|ZFYVE19_uc001zmu.1_Silent_p.L184L|ZFYVE19_uc001zmv.1_Silent_p.L9L|ZFYVE19_uc001zmw.1_Silent_p.L9L|ZFYVE19_uc001zmx.1_Silent_p.L9L|ZFYVE19_uc010bcc.1_Silent_p.L9L	NM_001077268	NP_001070736	Q96K21	ZFY19_HUMAN	zinc finger, FYVE domain containing 19	184							zinc ion binding				0		all_cancers(109;3.31e-18)|all_epithelial(112;2.33e-15)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;2.76e-05)|COAD - Colon adenocarcinoma(120;0.151)|BRCA - Breast invasive adenocarcinoma(123;0.164)		TAGCACGACTCCGCCAGGAGA	0.602													21	28	---	---	---	---	PASS	T	41102149	T	T	41102149	2	4	4	1	0	0	0	0	0	0	0	1	17662	842	30	2		2	ZFYVE19	15	41102149	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	247001	41102149	61429243	2793	3384	126	2								
ZFYVE19	84936	broad.mit.edu	37	chr15	41102150	41102150	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgagcgcctagcacgactcCgccaggagaacaagcccagt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:41102150C>T	uc001zmt.1	+	4	1067	c.553C>T	c.(553-555)CGC>TGC	p.R185C	DNAJC17_uc001zms.1_5'Flank|DNAJC17_uc010bbz.1_5'Flank|DNAJC17_uc010bca.1_5'Flank|DNAJC17_uc010bcb.1_5'Flank|ZFYVE19_uc001zmu.1_Missense_Mutation_p.R185C|ZFYVE19_uc001zmv.1_Missense_Mutation_p.R10C|ZFYVE19_uc001zmw.1_Missense_Mutation_p.R10C|ZFYVE19_uc001zmx.1_Missense_Mutation_p.R10C|ZFYVE19_uc010bcc.1_Missense_Mutation_p.R10C	NM_001077268	NP_001070736	Q96K21	ZFY19_HUMAN	zinc finger, FYVE domain containing 19	185							zinc ion binding				0		all_cancers(109;3.31e-18)|all_epithelial(112;2.33e-15)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;2.76e-05)|COAD - Colon adenocarcinoma(120;0.151)|BRCA - Breast invasive adenocarcinoma(123;0.164)		AGCACGACTCCGCCAGGAGAA	0.602													21	30	---	---	---	---	PASS	T	41102150	T	T	41102150	3	4	4	1	0	0	0	0	1	0	0	0	17662	652	23	1	567	1	ZFYVE19	15	41102150	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	41102150	61429242	2794	3385	126	2								
RPAP1	26015	broad.mit.edu	37	chr15	41817284	41817284	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttcctctgggggcaaggcCagttcttggggagcctcagc	15	12	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:41817284C>A	uc001zod.2	-	15	2104	c.1980G>T	c.(1978-1980)CTG>CTT	p.L660L	RPAP1_uc001zoc.2_5'Flank	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	660						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GGGGCAAGGCCAGTTCTTGGG	0.607													7	8	---	---	---	---	PASS	A	41817284	A	A	41817284	2	1	4	1	0	0	0	0	0	0	0	1	13541	581	21	3		3	RPAP1	15	41817284	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	715134	41817284	60714108	2795	3386										
RPAP1	26015	broad.mit.edu	37	chr15	41820527	41820527	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagctcctgtagggaatacCccgctctctggggcagggac	13	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:41820527C>T	uc001zod.2	-	10	1290	c.1166G>A	c.(1165-1167)GGG>GAG	p.G389E		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	389						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		TAGGGAATACCCCGCTCTCTG	0.547													4	6	---	---	---	---	PASS	T	41820527	T	T	41820527	3	4	4	1	0	0	0	0	1	0	0	0	13541	623	22	3	3079	3	RPAP1	15	41820527	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3243	41820527	60710865	2796	3387										
MAPKBP1	23005	broad.mit.edu	37	chr15	42107463	42107463	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcggcctcttcaggtctacCccgaggtgaaggatagtaac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:42107463C>T	uc001zok.3	+	12	1481	c.1195C>T	c.(1195-1197)CCC>TCC	p.P399S	MAPKBP1_uc001zoj.3_Missense_Mutation_p.P393S|MAPKBP1_uc010bcj.2_5'UTR|MAPKBP1_uc010bci.2_Missense_Mutation_p.P393S|MAPKBP1_uc010udb.1_Intron|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_5'UTR	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	399	WD 6.									central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		TCAGGTCTACCCCGAGGTGAA	0.562													10	50	---	---	---	---	PASS	T	42107463	T	T	42107463	3	4	4	1	0	0	0	0	1	0	0	0	9292	623	22	3	1237	3	MAPKBP1	15	42107463	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	286936	42107463	60423929	2797	3388	127	2								
MAPKBP1	23005	broad.mit.edu	37	chr15	42107464	42107464	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcggcctcttcaggtctaccCcgaggtgaaggatagtaacc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:42107464C>T	uc001zok.3	+	12	1482	c.1196C>T	c.(1195-1197)CCC>CTC	p.P399L	MAPKBP1_uc001zoj.3_Missense_Mutation_p.P393L|MAPKBP1_uc010bcj.2_5'UTR|MAPKBP1_uc010bci.2_Missense_Mutation_p.P393L|MAPKBP1_uc010udb.1_Intron|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_5'UTR	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	399	WD 6.									central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		CAGGTCTACCCCGAGGTGAAG	0.567													11	49	---	---	---	---	PASS	T	42107464	T	T	42107464	3	4	4	1	0	0	0	0	1	0	0	0	9292	623	22	3	1238	3	MAPKBP1	15	42107464	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	42107464	60423928	2798	3389	127	2								
PLA2G4E	123745	broad.mit.edu	37	chr15	42279560	42279560	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catttggggatttcaggcagGatcggctcgtcttctgcagg	14	9	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:42279560G>A	uc001zow.1	-	16	1758	c.1758C>T	c.(1756-1758)ATC>ATT	p.I586I	PLA2G4E_uc010udc.1_Silent_p.I58I|PLA2G4E_uc001zov.1_Silent_p.I239I	NM_001080490	NP_001073959	Q3MJ16	PA24E_HUMAN	phospholipase A2, group 4E	603	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity				0		all_cancers(109;8.09e-13)|all_epithelial(112;2.03e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.0273)		OV - Ovarian serous cystadenocarcinoma(18;7.61e-18)|GBM - Glioblastoma multiforme(94;3.07e-06)		TTTCAGGCAGGATCGGCTCGT	0.557													8	23	---	---	---	---	PASS	A	42279560	A	A	42279560	2	1	4	1	0	0	0	0	0	0	0	1	12005	1164	41	2		2	PLA2G4E	15	42279560	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	172096	42279560	60251832	2799	3390										
PLA2G4F	255189	broad.mit.edu	37	chr15	42436707	42436707	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgcaagcagagaccccggGtgaagttaaagctctgggcg	15	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:42436707G>A	uc001zoz.2	-	17	1979	c.1916C>T	c.(1915-1917)ACC>ATC	p.T639I	PLA2G4F_uc010bcq.2_5'UTR|PLA2G4F_uc001zoy.2_Missense_Mutation_p.T271I|PLA2G4F_uc010bcr.2_Missense_Mutation_p.T390I|PLA2G4F_uc001zpa.2_Missense_Mutation_p.T390I|PLA2G4F_uc010bcs.2_Missense_Mutation_p.T426I	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	639	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		GAGACCCCGGGTGAAGTTAAA	0.622													17	22	---	---	---	---	PASS	A	42436707	A	A	42436707	3	1	4	1	0	0	0	0	1	0	0	0	12006	1261	44	3	649	3	PLA2G4F	15	42436707	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	157147	42436707	60094685	2800	3391										
TMEM87A	25963	broad.mit.edu	37	chr15	42553440	42553440	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcgatgcataaaatctccaGaaaaggtctataaaagaaac	7	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:42553440G>A	uc010udd.1	-	5	572	c.413C>T	c.(412-414)TCT>TTT	p.S138F	TMEM87A_uc001zpf.3_Missense_Mutation_p.S77F|TMEM87A_uc010bcu.1_Missense_Mutation_p.S77F|TMEM87A_uc001zpg.2_Missense_Mutation_p.S138F	NM_015497	NP_056312	Q8NBN3	TM87A_HUMAN	transmembrane protein 87A isoform 1	138						integral to membrane				ovary(1)	1		all_cancers(109;4.28e-16)|all_epithelial(112;1.04e-14)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;1.03e-06)		AAAATCTCCAGAAAAGGTCTA	0.318													3	15	---	---	---	---	PASS	A	42553440	A	A	42553440	3	1	4	1	0	0	0	0	1	0	0	0	16207	942	33	2	1364	2	TMEM87A	15	42553440	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	116733	42553440	59977952	2801	3392										
GANC	2595	broad.mit.edu	37	chr15	42580012	42580012	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcacaagcaagccaagcactGtaaggtaagccaaggagcga	11	10	1	0	rs149261745	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:42580012G>T	uc001zpi.2	+	4	639	c.325G>T	c.(325-327)GTA>TTA	p.V109L	GANC_uc001zph.2_Missense_Mutation_p.V109L|GANC_uc001zpj.1_5'UTR	NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	109					carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		GCCAAGCACTGTAAGGTAAGC	0.363													17	41	---	---	---	---	PASS	T	42580012	T	T	42580012	3	4	4	1	0	0	0	0	1	0	0	0	6234	1377	48	3	339	3	GANC	15	42580012	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	26572	42580012	59951380	2802	3393										
CAPN3	825	broad.mit.edu	37	chr15	42652294	42652294	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagaagttccccatccagttCgtctggaagagacctccggt	10	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:42652294C>T	uc001zpn.1	+	1	597	c.291C>T	c.(289-291)TTC>TTT	p.F97F	CAPN3_uc001zpk.1_Intron|CAPN3_uc001zpl.1_Intron|CAPN3_uc010udf.1_Intron|CAPN3_uc010udg.1_Intron|CAPN3_uc001zpo.1_Silent_p.F97F|CAPN3_uc001zpp.1_Silent_p.F97F	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	97	Calpain catalytic.		Missing (in LGMD2A).		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)		CCATCCAGTTCGTCTGGAAGA	0.527													53	132	---	---	---	---	PASS	T	42652294	T	T	42652294	2	4	4	1	0	0	0	0	0	0	0	1	2628	883	31	2		2	CAPN3	15	42652294	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	72282	42652294	59879098	2803	3394										
ZFP106	64397	broad.mit.edu	37	chr15	42710095	42710095	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggattagtgtggtcggtcaGcaagtgttgttttaaatgat	14	3	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:42710095G>A	uc001zpw.2	-	18	5838	c.5503C>T	c.(5503-5505)CTG>TTG	p.L1835L	ZFP106_uc001zpu.2_Silent_p.L933L|ZFP106_uc001zpv.2_Silent_p.L1020L|ZFP106_uc001zpx.2_Silent_p.L1063L	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1835	C2H2-type 2; atypical.					nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		TGGTCGGTCAGCAAGTGTTGT	0.443													14	29	---	---	---	---	PASS	A	42710095	A	A	42710095	2	1	4	1	0	0	0	0	0	0	0	1	17634	962	34	3		3	ZFP106	15	42710095	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	57801	42710095	59821297	2804	3395										
ZFP106	64397	broad.mit.edu	37	chr15	42717087	42717087	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagttctgaggagcagtccaTtccgggcatcgcgtacacta	12	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:42717087T>A	uc001zpw.2	-	13	5401	c.5066A>T	c.(5065-5067)AAT>ATT	p.N1689I	ZFP106_uc001zpu.2_Missense_Mutation_p.N787I|ZFP106_uc001zpv.2_Missense_Mutation_p.N874I|ZFP106_uc001zpx.2_Missense_Mutation_p.N917I	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1689	WD 3.					nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GAGCAGTCCATTCCGGGCATC	0.517													8	19	---	---	---	---	PASS	A	42717087	A	A	42717087	3	1	4	1	0	0	0	0	1	0	0	0	17634	1493	52	5	613	5	ZFP106	15	42717087	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	6992	42717087	59814305	2805	3396										
ZFP106	64397	broad.mit.edu	37	chr15	42734294	42734294	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagcttccagtaattccttgGacacattgcaggcagagctt	9	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:42734294G>A	uc001zpw.2	-	7	4006	c.3671C>T	c.(3670-3672)TCC>TTC	p.S1224F	ZFP106_uc001zpu.2_Missense_Mutation_p.S409F|ZFP106_uc001zpv.2_Missense_Mutation_p.S409F|ZFP106_uc001zpx.2_Missense_Mutation_p.S452F	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1224						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		TAATTCCTTGGACACATTGCA	0.443													15	44	---	---	---	---	PASS	A	42734294	A	A	42734294	3	1	4	1	0	0	0	0	1	0	0	0	17634	1174	41	2	2032	2	ZFP106	15	42734294	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	17207	42734294	59797098	2806	3397										
ZFP106	64397	broad.mit.edu	37	chr15	42743038	42743038	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttagtggctggacatggaaGgagtggggatttcaatgatg	16	3	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:42743038G>A	uc001zpw.2	-	2	1698	c.1363C>T	c.(1363-1365)CTT>TTT	p.L455F	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Missense_Mutation_p.L238F|ZFP106_uc001zpy.1_Missense_Mutation_p.L478F	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	455						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GGACATGGAAGGAGTGGGGAT	0.418													38	67	---	---	---	---	PASS	A	42743038	A	A	42743038	3	1	4	1	0	0	0	0	1	0	0	0	17634	1000	35	3	4360	3	ZFP106	15	42743038	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	8744	42743038	59788354	2807	3398										
TGM7	116179	broad.mit.edu	37	chr15	43594442	43594442	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgattcccagtactcaccctGatccatctccctccttctcc	3	20	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:43594442G>A	uc001zrf.1	-	1	12	c.7C>T	c.(7-9)CAG>TAG	p.Q3*		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	3					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	TACTCACCCTGATCCATCTCC	0.507													17	34	---	---	---	---	PASS	A	43594442	A	A	43594442	4	1	4	1	0	0	0	0	0	1	0	0	15832	1299	45	2	2177	2	TGM7	15	43594442	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	851404	43594442	58936950	2808	3399										
MAP1A	4130	broad.mit.edu	37	chr15	43817847	43817847	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccatctatcagaaagatgaGgctctgcatgtaaagaatga	10	7	3	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:43817847G>A	uc001zrt.2	+	4	4643	c.4176G>A	c.(4174-4176)GAG>GAA	p.E1392E		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1392						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	AGAAAGATGAGGCTCTGCATG	0.453													36	68	---	---	---	---	PASS	A	43817847	A	A	43817847	2	1	4	1	0	0	0	0	0	0	0	1	9227	991	35	3		3	MAP1A	15	43817847	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	223405	43817847	58713545	2809	3400										
STRC	161497	broad.mit.edu	37	chr15	43895470	43895470	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgcccatggctgcccgcagTtcctcaggcccaagtcctgg	11	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:43895470T>C	uc001zsf.2	-	23	4593	c.4515A>G	c.(4513-4515)GAA>GAG	p.E1505E	STRC_uc010bdl.2_Silent_p.E732E|STRC_uc001zse.2_Silent_p.E23E	NM_153700	NP_714544	Q7RTU9	STRC_HUMAN	stereocilin precursor	1505					sensory perception of sound	cell surface					0		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		CTGCCCGCAGTTCCTCAGGCC	0.542													7	44	---	---	---	---	PASS	C	43895470	C	C	43895470	2	2	4	1	0	0	0	0	0	0	0	1	15327	1722	60	5		5	STRC	15	43895470	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	77623	43895470	58635922	2810	3401										
SPG11	80208	broad.mit.edu	37	chr15	44856758	44856758	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacttactttttggaaatctCttcaaatatactggacttta	4	7	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:44856758C>T	uc001ztx.2	-	39	7169	c.7138G>A	c.(7138-7140)GAG>AAG	p.E2380K	SPG11_uc010bdw.2_Missense_Mutation_p.E510K|SPG11_uc010ueh.1_Missense_Mutation_p.E2267K|SPG11_uc010uei.1_Intron	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	2380	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		TTGGAAATCTCTTCAAATATA	0.338													16	35	---	---	---	---	PASS	T	44856758	T	T	44856758	3	4	4	1	0	0	0	0	1	0	0	0	15040	922	32	2	201	2	SPG11	15	44856758	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	961288	44856758	57674634	2811	3402										
SPG11	80208	broad.mit.edu	37	chr15	44892803	44892803	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattaaccaggtcagggctaGagaaatgtgggagatgactc	13	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:44892803G>A	uc001ztx.2	-	21	3579	c.3548C>T	c.(3547-3549)TCT>TTT	p.S1183F	SPG11_uc010ueh.1_Missense_Mutation_p.S1183F|SPG11_uc010uei.1_Missense_Mutation_p.S1183F|SPG11_uc001zty.1_5'UTR	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	1183	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		GTCAGGGCTAGAGAAATGTGG	0.358													28	48	---	---	---	---	PASS	A	44892803	A	A	44892803	3	1	4	1	0	0	0	0	1	0	0	0	15040	942	33	2	3863	2	SPG11	15	44892803	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	36045	44892803	57638589	2812	3403										
TRIM69	140691	broad.mit.edu	37	chr15	45052027	45052027	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccagtacaaaggtcctatCcagtacatggtatggaggga	13	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:45052027C>T	uc001zuf.2	+	7	1813	c.918C>T	c.(916-918)ATC>ATT	p.I306I	TRIM69_uc001zui.1_Silent_p.I102I|TRIM69_uc010bdy.1_Silent_p.I85I|TRIM69_uc001zug.1_Silent_p.I306I|TRIM69_uc001zuh.1_Silent_p.I147I	NM_182985	NP_892030	Q86WT6	TRI69_HUMAN	tripartite motif-containing 69 isoform a	306	B30.2/SPRY.				apoptosis	nuclear speck	zinc ion binding				0		all_cancers(109;2.47e-13)|all_epithelial(112;2.84e-11)|Lung NSC(122;2.23e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;5.5e-19)|GBM - Glioblastoma multiforme(94;1.07e-06)|Colorectal(105;0.138)|COAD - Colon adenocarcinoma(120;0.141)		AAGGTCCTATCCAGTACATGG	0.478													20	30	---	---	---	---	PASS	T	45052027	T	T	45052027	2	4	4	1	0	0	0	0	0	0	0	1	16539	845	30	2		2	TRIM69	15	45052027	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	159224	45052027	57479365	2813	3404										
SORD	6652	broad.mit.edu	37	chr15	45332620	45332620	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttaggagaactatcctatCcctgaaccaggcccaaatgg	8	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:45332620C>T	uc001zul.3	+	2	222	c.81C>T	c.(79-81)ATC>ATT	p.I27I	SORD_uc010uel.1_RNA|SORD_uc001zum.3_Silent_p.I27I|SORD_uc010bdz.2_5'UTR	NM_003104	NP_003095	Q00796	DHSO_HUMAN	sorbitol dehydrogenase	27					fructose biosynthetic process|glucose metabolic process|L-xylitol catabolic process|sorbitol catabolic process|sperm motility	cilium|extracellular space|flagellum|membrane fraction|mitochondrial membrane|soluble fraction	L-iditol 2-dehydrogenase activity|NAD binding|sugar binding|zinc ion binding				0		all_cancers(109;3.43e-12)|all_epithelial(112;2.33e-10)|Lung NSC(122;6.01e-07)|all_lung(180;4.38e-06)|Melanoma(134;0.0122)		all cancers(107;1.6e-18)|GBM - Glioblastoma multiforme(94;4.95e-07)|COAD - Colon adenocarcinoma(120;0.0704)|Colorectal(133;0.0706)	NADH(DB00157)	ACTATCCTATCCCTGAACCAG	0.323													6	17	---	---	---	---	PASS	T	45332620	T	T	45332620	2	4	4	1	0	0	0	0	0	0	0	1	14933	845	30	2		2	SORD	15	45332620	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	280593	45332620	57198772	2814	3405										
SORD	6652	broad.mit.edu	37	chr15	45353282	45353282	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggtgatcgtgttgccatcGagcctggtgctccccgagaa	13	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:45353282G>A	uc001zul.3	+	4	424	c.283G>A	c.(283-285)GAG>AAG	p.E95K	SORD_uc010uel.1_Intron|SORD_uc001zum.3_Missense_Mutation_p.E95K|SORD_uc010bdz.2_Missense_Mutation_p.E16K	NM_003104	NP_003095	Q00796	DHSO_HUMAN	sorbitol dehydrogenase	95					fructose biosynthetic process|glucose metabolic process|L-xylitol catabolic process|sorbitol catabolic process|sperm motility	cilium|extracellular space|flagellum|membrane fraction|mitochondrial membrane|soluble fraction	L-iditol 2-dehydrogenase activity|NAD binding|sugar binding|zinc ion binding				0		all_cancers(109;3.43e-12)|all_epithelial(112;2.33e-10)|Lung NSC(122;6.01e-07)|all_lung(180;4.38e-06)|Melanoma(134;0.0122)		all cancers(107;1.6e-18)|GBM - Glioblastoma multiforme(94;4.95e-07)|COAD - Colon adenocarcinoma(120;0.0704)|Colorectal(133;0.0706)	NADH(DB00157)	TGTTGCCATCGAGCCTGGTGC	0.537													16	32	---	---	---	---	PASS	A	45353282	A	A	45353282	3	1	4	1	0	0	0	0	1	0	0	0	14933	1059	37	2	297	2	SORD	15	45353282	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	20662	45353282	57178110	2815	3406										
SEMA6D	80031	broad.mit.edu	37	chr15	48063453	48063453	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taaccccaaagccatcatggGagacatccagatggcacacc	8	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:48063453G>A	uc010bek.2	+	19	3053	c.2693G>A	c.(2692-2694)GGA>GAA	p.G898E	SEMA6D_uc001zvw.2_Missense_Mutation_p.G836E|SEMA6D_uc001zvy.2_Missense_Mutation_p.G898E|SEMA6D_uc001zvz.2_Missense_Mutation_p.G842E|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Missense_Mutation_p.G836E|SEMA6D_uc001zwc.2_Missense_Mutation_p.G823E	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	898	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		GCCATCATGGGAGACATCCAG	0.493													41	70	---	---	---	---	PASS	A	48063453	A	A	48063453	3	1	4	1	0	0	0	0	1	0	0	0	14042	1174	41	2	2806	2	SEMA6D	15	48063453	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2710171	48063453	54467939	2816	3407										
SLC24A5	283652	broad.mit.edu	37	chr15	48426492	48426492	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgttgcaggcacaactttCatggcagcgggcagttcagc	13	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:48426492C>T	uc001zwe.2	+	3	412	c.339C>T	c.(337-339)TTC>TTT	p.F113F	SLC24A5_uc010bel.2_Silent_p.F53F	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	113	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)		GCACAACTTTCATGGCAGCGG	0.373													13	51	---	---	---	---	PASS	T	48426492	T	T	48426492	2	4	4	1	0	0	0	0	0	0	0	1	14469	825	29	2		2	SLC24A5	15	48426492	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	363039	48426492	54104900	2817	3408										
MYEF2	50804	broad.mit.edu	37	chr15	48458162	48458162	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggggtcttccactaagatCatatttgttcatagtttcta	7	7	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:48458162C>T	uc001zwi.3	-	5	617	c.493G>A	c.(493-495)GAT>AAT	p.D165N	MYEF2_uc001zwj.3_Missense_Mutation_p.D165N|MYEF2_uc001zwl.2_Missense_Mutation_p.D5N	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	165	RRM 1.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding	p.D165H(1)		lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		CCACTAAGATCATATTTGTTC	0.279													18	33	---	---	---	---	PASS	T	48458162	T	T	48458162	3	4	4	1	0	0	0	0	1	0	0	0	10024	826	29	2	1361	2	MYEF2	15	48458162	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	31670	48458162	54073230	2818	3409										
FBN1	2200	broad.mit.edu	37	chr15	48787353	48787353	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgcacgggcttccccacgCagcaccgagggaggagcagc	16	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:48787353C>A	uc001zwx.1	-	22	2972	c.2644G>T	c.(2644-2646)GCG>TCG	p.A882S		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	882	TB 4.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CTTCCCCACGCAGCACCGAGG	0.527													12	17	---	---	---	---	PASS	A	48787353	A	A	48787353	3	1	4	1	0	0	0	0	1	0	0	0	5702	710	25	3	6151	3	FBN1	15	48787353	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	329191	48787353	53744039	2819	3410										
FBN1	2200	broad.mit.edu	37	chr15	48903022	48903022	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacaggaatgccggcaaatGgctgtgaataaaccagaggt	12	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:48903022G>A	uc001zwx.1	-	4	577	c.249C>T	c.(247-249)CCC>CCT	p.P83P		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	83	EGF-like 1.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GCCGGCAAATGGCTGTGAATA	0.413													5	21	---	---	---	---	PASS	A	48903022	A	A	48903022	2	1	4	1	0	0	0	0	0	0	0	1	5702	1362	47	3		3	FBN1	15	48903022	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	115669	48903022	53628370	2820	3411										
FGF7	2252	broad.mit.edu	37	chr15	49716680	49716680	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatgattacatggaaggaggGgatataagagtgagaagact	14	2	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:49716680G>A	uc001zxn.2	+	2	715	c.186G>A	c.(184-186)GGG>GGA	p.G62G	C15orf33_uc001zxl.2_Intron|C15orf33_uc001zxm.2_Intron	NM_002009	NP_002000	P21781	FGF7_HUMAN	fibroblast growth factor 7 precursor	62					actin cytoskeleton reorganization|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|mesenchymal cell proliferation|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|protein localization at cell surface|secretion by lung epithelial cell involved in lung growth		chemoattractant activity|growth factor activity				0		all_lung(180;0.00391)		all cancers(107;3.61e-08)|GBM - Glioblastoma multiforme(94;4.06e-05)	Palifermin(DB00039)	TGGAAGGAGGGGATATAAGAG	0.428													15	45	---	---	---	---	PASS	A	49716680	A	A	49716680	2	1	4	1	0	0	0	0	0	0	0	1	5857	1219	43	3		3	FGF7	15	49716680	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	813658	49716680	52814712	2821	3412										
C15orf33	196951	broad.mit.edu	37	chr15	49882084	49882084	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaaagtgcttcaaatattcGaggaacattttcccataggt	7	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:49882084G>A	uc001zxl.2	-	4	520	c.226C>T	c.(226-228)CGA>TGA	p.R76*	C15orf33_uc001zxm.2_Nonsense_Mutation_p.R76*	NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	76										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)		TCAAATATTCGAGGAACATTT	0.299													5	23	---	---	---	---	PASS	A	49882084	A	A	49882084	4	1	4	1	0	0	0	0	0	1	0	0	1791	1066	37	2	1352	2	C15orf33	15	49882084	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	165404	49882084	52649308	2822	3413										
USP8	9101	broad.mit.edu	37	chr15	50769124	50769124	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actggctcctttgttatcccCagtatacaacaaatgctaag	6	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:50769124C>T	uc001zym.3	+	10	1428	c.928C>T	c.(928-930)CAG>TAG	p.Q310*	USP8_uc001zyk.1_Silent_p.P9P|USP8_uc001zyl.3_Nonsense_Mutation_p.Q310*|USP8_uc001zyn.3_Nonsense_Mutation_p.Q310*|USP8_uc010ufh.1_Nonsense_Mutation_p.Q233*|USP8_uc010bev.1_Intron	NM_001128611	NP_001122083	P40818	UBP8_HUMAN	ubiquitin specific peptidase 8	310	Rhodanese.				cell cycle|cell proliferation|endosome organization|protein K48-linked deubiquitination|protein K63-linked deubiquitination|ubiquitin-dependent protein catabolic process	cytosol|early endosome|extrinsic to plasma membrane|nucleus	cysteine-type endopeptidase activity|SH3 domain binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)|central_nervous_system(1)	2				all cancers(107;0.000225)|GBM - Glioblastoma multiforme(94;0.000771)		TTGTTATCCCCAGTATACAAC	0.393													29	42	---	---	---	---	PASS	T	50769124	T	T	50769124	4	4	4	1	0	0	0	0	0	1	0	0	17086	595	21	3	958	3	USP8	15	50769124	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	887040	50769124	51762268	2823	3414										
GLDN	342035	broad.mit.edu	37	chr15	51687050	51687050	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggatacctggagctgcagGaaatccaggggaaaggggag	18	6	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:51687050G>A	uc002aba.2	+	5	729	c.560G>A	c.(559-561)GGA>GAA	p.G187E	GLDN_uc002abb.2_Missense_Mutation_p.G63E	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	187	Extracellular (Potential).|Collagen-like 1.				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		GGAGCTGCAGGAAATCCAGGG	0.488													5	19	---	---	---	---	PASS	A	51687050	A	A	51687050	3	1	4	1	0	0	0	0	1	0	0	0	6434	1174	41	2	578	2	GLDN	15	51687050	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	917926	51687050	50844342	2824	3415										
MYO5C	55930	broad.mit.edu	37	chr15	52497304	52497304	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcctgtgggcttcaggccGgaaatgccctgcaggctctc	13	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:52497304G>A	uc010bff.2	-	38	4715	c.4578C>T	c.(4576-4578)TCC>TCT	p.S1526S	MYO5C_uc010uga.1_RNA|uc002abv.2_RNA	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	1526	Dilute.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		GCTTCAGGCCGGAAATGCCCT	0.597													15	31	---	---	---	---	PASS	A	52497304	A	A	52497304	2	1	4	1	0	0	0	0	0	0	0	1	10080	1103	39	1		1	MYO5C	15	52497304	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	810254	52497304	50034088	2825	3416										
MYO5A	4644	broad.mit.edu	37	chr15	52700311	52700311	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggcacaaagctgatagaaGatatgatagtttctctcctc	9	8	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:52700311G>A	uc002aby.2	-	7	1027	c.783C>T	c.(781-783)ATC>ATT	p.I261I	MYO5A_uc002abx.3_Silent_p.I261I|MYO5A_uc010uge.1_Silent_p.I130I	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	261	Myosin head-like.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		GCTGATAGAAGATATGATAGT	0.299													19	43	---	---	---	---	PASS	A	52700311	A	A	52700311	2	1	4	1	0	0	0	0	0	0	0	1	10078	932	33	2		2	MYO5A	15	52700311	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	203007	52700311	49831081	2826	3417										
UNC13C	440279	broad.mit.edu	37	chr15	54305353	54305353	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaagacgaggccagtaaaGagttttccctctcaccaaca	9	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:54305353G>A	uc002ack.2	+	1	253	c.253G>A	c.(253-255)GAG>AAG	p.E85K		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	85					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GGCCAGTAAAGAGTTTTCCCT	0.403													16	30	---	---	---	---	PASS	A	54305353	A	A	54305353	3	1	4	1	0	0	0	0	1	0	0	0	16983	943	33	2	255	2	UNC13C	15	54305353	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1605042	54305353	48226039	2827	3418										
UNC13C	440279	broad.mit.edu	37	chr15	54307087	54307087	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catggaaggaatggaatcaaGgagctgatttaggcttggat	14	4	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:54307087G>A	uc002ack.2	+	1	1987	c.1987G>A	c.(1987-1989)GGA>AGA	p.G663R		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	663					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ATGGAATCAAGGAGCTGATTT	0.418													31	41	---	---	---	---	PASS	A	54307087	A	A	54307087	3	1	4	1	0	0	0	0	1	0	0	0	16983	1001	35	3	1989	3	UNC13C	15	54307087	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1734	54307087	48224305	2828	3419										
UNC13C	440279	broad.mit.edu	37	chr15	54307123	54307123	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggattcatccacccaggaaGgttttgattatgaaacaaac	8	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:54307123G>A	uc002ack.2	+	1	2023	c.2023G>A	c.(2023-2025)GGT>AGT	p.G675S		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	675					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		CACCCAGGAAGGTTTTGATTA	0.393													15	49	---	---	---	---	PASS	A	54307123	A	A	54307123	3	1	4	1	0	0	0	0	1	0	0	0	16983	1000	35	3	2025	3	UNC13C	15	54307123	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	36	54307123	48224269	2829	3420										
UNC13C	440279	broad.mit.edu	37	chr15	54630615	54630615	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggtgaaggactgtgtaagGgcttgcctggattctacata	14	6	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:54630615G>A	uc002ack.2	+	15	4641	c.4641G>A	c.(4639-4641)AGG>AGA	p.R1547R	UNC13C_uc002acl.2_Silent_p.R377R	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1547					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ACTGTGTAAGGGCTTGCCTGG	0.423													36	75	---	---	---	---	PASS	A	54630615	A	A	54630615	2	1	4	1	0	0	0	0	0	0	0	1	16983	1223	43	3		3	UNC13C	15	54630615	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	323492	54630615	47900777	2830	3421										
UNC13C	440279	broad.mit.edu	37	chr15	54914535	54914535	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttattttcaggtcgttcctcCaaagatgccgtgggtcagat	10	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:54914535C>T	uc002ack.2	+	29	6117	c.6117C>T	c.(6115-6117)TCC>TCT	p.S2039S	UNC13C_uc002acm.2_5'UTR	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	2039					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GTCGTTCCTCCAAAGATGCCG	0.408													19	56	---	---	---	---	PASS	T	54914535	T	T	54914535	2	4	4	1	0	0	0	0	0	0	0	1	16983	581	21	3		3	UNC13C	15	54914535	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	283920	54914535	47616857	2831	3422										
ZNF280D	54816	broad.mit.edu	37	chr15	56958614	56958614	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatcatatgatttacatagGctttgctacagctagtgttg	8	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:56958614G>T	uc002adu.2	-	16	2190	c.1973C>A	c.(1972-1974)GCC>GAC	p.A658D	ZNF280D_uc002adv.2_Missense_Mutation_p.A645D|ZNF280D_uc010bfq.2_Missense_Mutation_p.A658D|ZNF280D_uc002adw.1_Missense_Mutation_p.A686D|ZNF280D_uc010bfr.1_RNA|ZNF280D_uc010bfp.2_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	658					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		ATTTACATAGGCTTTGCTACA	0.323													4	51	---	---	---	---	PASS	T	56958614	T	T	56958614	3	4	4	1	0	0	0	0	1	0	0	0	17814	1203	42	3	994	3	ZNF280D	15	56958614	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2044079	56958614	45572778	2832	3423										
CGNL1	84952	broad.mit.edu	37	chr15	57730805	57730805	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caattcccagcctaccagtcCctccttggaagacccggcca	7	18	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:57730805C>T	uc002aeg.2	+	2	684	c.608C>T	c.(607-609)CCC>CTC	p.P203L	CGNL1_uc010bfw.2_Missense_Mutation_p.P203L	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	203	Head.					myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		CCTACCAGTCCCTCCTTGGAA	0.478													49	115	---	---	---	---	PASS	T	57730805	T	T	57730805	3	4	4	1	0	0	0	0	1	0	0	0	3304	623	22	3	610	3	CGNL1	15	57730805	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	772191	57730805	44800587	2833	3424										
AQP9	366	broad.mit.edu	37	chr15	58467217	58467217	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctccgtatctatctctggcGaacgcatttgcagatcaagt	9	11	3	1	rs140673133	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:58467217G>A	uc002aez.2	+	4	834	c.477G>A	c.(475-477)GCG>GCA	p.A159A	ALDH1A2_uc010ugw.1_Intron|AQP9_uc010ugx.1_Silent_p.A94A	NM_020980	NP_066190	O43315	AQP9_HUMAN	aquaporin 9	159	Helical; (Potential).				cellular response to cAMP|excretion|immune response|metabolic process|response to mercury ion|response to osmotic stress|water homeostasis	integral to plasma membrane|intracellular membrane-bounded organelle	amine transmembrane transporter activity|carboxylic acid transmembrane transporter activity|glycerol channel activity|porin activity|purine base transmembrane transporter activity|pyrimidine base transmembrane transporter activity|water channel activity			ovary(1)	1				GBM - Glioblastoma multiforme(80;0.16)		TATCTCTGGCGAACGCATTTG	0.418													13	38	---	---	---	---	PASS	A	58467217	A	A	58467217	2	1	4	1	0	0	0	0	0	0	0	1	833	1045	37	2		2	AQP9	15	58467217	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	736412	58467217	44064175	2834	3425										
RNF111	54778	broad.mit.edu	37	chr15	59373363	59373363	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatccctcagcatcttcctcCtacacaccagccaatttcgc	3	18	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:59373363C>T	uc002afv.2	+	8	2456	c.2177C>T	c.(2176-2178)CCT>CTT	p.P726L	RNF111_uc002afs.2_Missense_Mutation_p.P726L|RNF111_uc002aft.2_Missense_Mutation_p.P726L|RNF111_uc002afu.2_Missense_Mutation_p.P725L|RNF111_uc002afw.2_Missense_Mutation_p.P726L|RNF111_uc002afx.2_Missense_Mutation_p.P252L	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	726	Pro-rich.				multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		CATCTTCCTCCTACACACCAG	0.507													17	37	---	---	---	---	PASS	T	59373363	T	T	59373363	3	4	4	1	0	0	0	0	1	0	0	0	13425	681	24	3	2203	3	RNF111	15	59373363	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	906146	59373363	43158029	2835	3426										
LDHAL6B	92483	broad.mit.edu	37	chr15	59499206	59499206	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggtgggagcgaatttcctaTgcctggggatggccctgtgt	16	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:59499206T>A	uc002agb.2	+	1	165	c.67T>A	c.(67-69)TGC>AGC	p.C23S	MYO1E_uc002aga.2_Intron	NM_033195	NP_149972	Q9BYZ2	LDH6B_HUMAN	lactate dehydrogenase A-like 6B	23					glycolysis	cytoplasm	L-lactate dehydrogenase activity|protein binding				0					NADH(DB00157)	GAATTTCCTATGCCTGGGGAT	0.597													6	17	---	---	---	---	PASS	A	59499206	A	A	59499206	3	1	4	1	0	0	0	0	1	0	0	0	8700	1464	51	5	69	5	LDHAL6B	15	59499206	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	125843	59499206	43032186	2836	3427										
VPS13C	54832	broad.mit.edu	37	chr15	62255038	62255038	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttcttgactggagagaaagGgaggaatccagtcctgaaaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:62255038G>A	uc002agz.2	-	33	3419	c.3345C>T	c.(3343-3345)TCC>TCT	p.S1115S	VPS13C_uc002aha.2_Silent_p.S1072S|VPS13C_uc002ahb.1_Silent_p.S1115S|VPS13C_uc002ahc.1_Silent_p.S1072S	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	1115					protein localization					ovary(2)	2						GGAGAGAAAGGGAGGAATCCA	0.338													10	23	---	---	---	---	PASS	A	62255038	A	A	62255038	2	1	4	1	0	0	0	0	0	0	0	1	17188	1219	43	3		3	VPS13C	15	62255038	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2755832	62255038	40276354	2837	3428	128	2								
VPS13C	54832	broad.mit.edu	37	chr15	62255039	62255039	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcttgactggagagaaaggGaggaatccagtcctgaaaaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:62255039G>A	uc002agz.2	-	33	3418	c.3344C>T	c.(3343-3345)TCC>TTC	p.S1115F	VPS13C_uc002aha.2_Missense_Mutation_p.S1072F|VPS13C_uc002ahb.1_Missense_Mutation_p.S1115F|VPS13C_uc002ahc.1_Missense_Mutation_p.S1072F	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	1115					protein localization					ovary(2)	2						GAGAGAAAGGGAGGAATCCAG	0.338													10	23	---	---	---	---	PASS	A	62255039	A	A	62255039	3	1	4	1	0	0	0	0	1	0	0	0	17188	1174	41	2	8157	2	VPS13C	15	62255039	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	62255039	40276353	2838	3429	128	2								
VPS13C	54832	broad.mit.edu	37	chr15	62266527	62266527	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgatgatttctgtggcaaaGgtatactgttcatcaaatat	8	6	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:62266527G>A	uc002agz.2	-	25	2572	c.2498C>T	c.(2497-2499)CCT>CTT	p.P833L	VPS13C_uc002aha.2_Missense_Mutation_p.P790L|VPS13C_uc002ahb.1_Missense_Mutation_p.P833L|VPS13C_uc002ahc.1_Missense_Mutation_p.P790L	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	833					protein localization					ovary(2)	2						CTGTGGCAAAGGTATACTGTT	0.343													17	36	---	---	---	---	PASS	A	62266527	A	A	62266527	3	1	4	1	0	0	0	0	1	0	0	0	17188	1000	35	3	9035	3	VPS13C	15	62266527	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	11488	62266527	40264865	2839	3430										
TLN2	83660	broad.mit.edu	37	chr15	63044536	63044536	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgatggcagggatttcacaGaatgccaagaccggagacct	12	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:63044536G>A	uc002alb.3	+	32	4242	c.4242G>A	c.(4240-4242)CAG>CAA	p.Q1414Q	TLN2_uc002alc.3_5'UTR	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1414					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GGATTTCACAGAATGCCAAGA	0.547													25	69	---	---	---	---	PASS	A	63044536	A	A	63044536	2	1	4	1	0	0	0	0	0	0	0	1	15945	933	33	2		2	TLN2	15	63044536	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	778009	63044536	39486856	2840	3431										
HERC1	8925	broad.mit.edu	37	chr15	63958598	63958598	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctgccgaagagagaacccCatttccagcaagggaactgc	10	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:63958598C>A	uc002amp.2	-	41	8428	c.8280G>T	c.(8278-8280)ATG>ATT	p.M2760I		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	2760					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						GAGAGAACCCCATTTCCAGCA	0.423													5	84	---	---	---	---	PASS	A	63958598	A	A	63958598	3	1	4	1	0	0	0	0	1	0	0	0	7057	594	21	3	6457	3	HERC1	15	63958598	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	914062	63958598	38572794	2841	3432										
FAM96A	84191	broad.mit.edu	37	chr15	64365189	64365189	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taagttggggttttccattgCagctgccactcgctctttgt	10	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:64365189C>A	uc002amt.1	-	5	664	c.424G>T	c.(424-426)GCA>TCA	p.A142S	FAM96A_uc002amu.1_3'UTR	NM_032231	NP_115607	Q9H5X1	FA96A_HUMAN	family with sequence similarity 96, member A	142					chromosome segregation						0						TTTTCCATTGCAGCTGCCACT	0.408													8	36	---	---	---	---	PASS	A	64365189	A	A	64365189	3	1	4	1	0	0	0	0	1	0	0	0	5654	710	25	3	62	3	FAM96A	15	64365189	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	406591	64365189	38166203	2842	3433										
CSNK1G1	53944	broad.mit.edu	37	chr15	64497066	64497066	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctttttagcatcccacctGgaaagttctcacagagagct	8	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:64497066G>A	uc002anf.2	-	8	1328	c.848C>T	c.(847-849)CCA>CTA	p.P283L	CSNK1G1_uc002ane.2_RNA|CSNK1G1_uc002ang.1_Missense_Mutation_p.P283L|CSNK1G1_uc002anh.1_Missense_Mutation_p.P283L|CSNK1G1_uc002anj.2_Missense_Mutation_p.P265L	NM_022048	NP_071331	Q9HCP0	KC1G1_HUMAN	casein kinase 1, gamma 1	283	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0						CATCCCACCTGGAAAGTTCTC	0.408													8	29	---	---	---	---	PASS	A	64497066	A	A	64497066	3	1	4	1	0	0	0	0	1	0	0	0	3954	1348	47	3	440	3	CSNK1G1	15	64497066	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	131877	64497066	38034326	2843	3434										
PIF1	80119	broad.mit.edu	37	chr15	65110521	65110521	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaccaggccccgagacaccGataagtttttcaccagcatc	7	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:65110521G>A	uc002ant.2	-	10	1529	c.1463C>T	c.(1462-1464)TCG>TTG	p.S488L	PIF1_uc002anr.2_Missense_Mutation_p.S36L|PIF1_uc002ans.2_Missense_Mutation_p.S179L|PIF1_uc010uiq.1_Missense_Mutation_p.S488L	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	488	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0						CCGAGACACCGATAAGTTTTT	0.547													8	23	---	---	---	---	PASS	A	65110521	A	A	65110521	3	1	4	1	0	0	0	0	1	0	0	0	11883	1059	37	2	478	2	PIF1	15	65110521	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	613455	65110521	37420871	2844	3435										
PLEKHO2	80301	broad.mit.edu	37	chr15	65157114	65157114	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaggtggccagtgcagcttCtgacggtcttctgcgcctgg	14	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:65157114C>T	uc002anv.2	+	6	634	c.500C>T	c.(499-501)TCT>TTT	p.S167F	PLEKHO2_uc010bgz.2_Intron|PLEKHO2_uc002anw.2_Missense_Mutation_p.S117F	NM_025201	NP_079477	Q8TD55	PKHO2_HUMAN	pleckstrin homology domain containing, family O	167										ovary(1)|lung(1)	2						AGTGCAGCTTCTGACGGTCTT	0.582													15	60	---	---	---	---	PASS	T	65157114	T	T	65157114	3	4	4	1	0	0	0	0	1	0	0	0	12085	913	32	2	522	2	PLEKHO2	15	65157114	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	46593	65157114	37374278	2845	3436										
CLPX	10845	broad.mit.edu	37	chr15	65458972	65458972	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagcttaagacttataccttCttagggggaggtggtggttt	14	5	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:65458972C>T	uc002aom.2	-	4	582	c.510G>A	c.(508-510)AAG>AAA	p.K170K	CLPX_uc010uiu.1_RNA|CLPX_uc010bhg.1_Silent_p.K170K	NM_006660	NP_006651	O76031	CLPX_HUMAN	ClpX caseinolytic protease X homolog precursor	170					protein folding|proteolysis involved in cellular protein catabolic process	mitochondrial endopeptidase Clp complex|mitochondrial inner membrane|mitochondrial nucleoid	ATP binding|ATPase activity|metal ion binding|peptidase activator activity|unfolded protein binding				0						CTTATACCTTCTTAGGGGGAG	0.373													18	66	---	---	---	---	PASS	T	65458972	T	T	65458972	2	4	4	1	0	0	0	0	0	0	0	1	3556	912	32	2		2	CLPX	15	65458972	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	301858	65458972	37072420	2846	3437										
IGDCC3	9543	broad.mit.edu	37	chr15	65621935	65621935	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatctttacacaggaggacCctaagggttagccaagagtt	10	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:65621935C>T	uc002aos.2	-	13	2250	c.1998G>A	c.(1996-1998)AGG>AGA	p.R666R	IGDCC3_uc002aor.1_5'UTR	NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	666	Cytoplasmic (Potential).									ovary(3)	3						ACAGGAGGACCCTAAGGGTTA	0.597													14	19	---	---	---	---	PASS	T	65621935	T	T	65621935	2	4	4	1	0	0	0	0	0	0	0	1	7568	637	22	3		3	IGDCC3	15	65621935	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	162963	65621935	36909457	2847	3438										
IGDCC4	57722	broad.mit.edu	37	chr15	65680880	65680880	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccatcttgaagaagtaccGagtgtcgctctccaggccat	9	14	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:65680880G>A	uc002aou.1	-	16	2962	c.2752C>T	c.(2752-2754)CGG>TGG	p.R918W	IGDCC4_uc002aot.1_Missense_Mutation_p.R506W	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	918	Extracellular (Potential).|Fibronectin type-III 5.					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						AAGAAGTACCGAGTGTCGCTC	0.612													31	68	---	---	---	---	PASS	A	65680880	A	A	65680880	3	1	4	1	0	0	0	0	1	0	0	0	7569	1057	37	2	1020	2	IGDCC4	15	65680880	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	58945	65680880	36850512	2848	3439										
MEGF11	84465	broad.mit.edu	37	chr15	66223281	66223281	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaacggcacagacctctcCctggaaagggagggggtgaa	16	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:66223281C>T	uc002apm.2	-	11	1429	c.1288G>A	c.(1288-1290)GGA>AGA	p.G430R	MEGF11_uc002apl.2_Missense_Mutation_p.G355R|MEGF11_uc002apn.1_Missense_Mutation_p.G430R	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	430	EGF-like 7.					basolateral plasma membrane|integral to membrane				pancreas(1)	1						CAGACCTCTCCCTGGAAAGGG	0.428													9	14	---	---	---	---	PASS	T	66223281	T	T	66223281	3	4	4	1	0	0	0	0	1	0	0	0	9461	637	22	3	1898	3	MEGF11	15	66223281	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	542401	66223281	36308111	2849	3440										
MEGF11	84465	broad.mit.edu	37	chr15	66416238	66416238	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctgagagaggtactcaccGgtgcctggtgcacttgaacc	12	11	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:66416238G>A	uc002apm.2	-	3	340	c.199C>T	c.(199-201)CGG>TGG	p.R67W	MEGF11_uc002apl.2_Silent_p.T25T|MEGF11_uc002apn.1_Missense_Mutation_p.R67W	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	67	EMI.					basolateral plasma membrane|integral to membrane				pancreas(1)	1						GGTACTCACCGGTGCCTGGTG	0.527													24	37	---	---	---	---	PASS	A	66416238	A	A	66416238	3	1	4	1	0	0	0	0	1	0	0	0	9461	1130	39	1	3019	1	MEGF11	15	66416238	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	192957	66416238	36115154	2850	3441										
LCTL	197021	broad.mit.edu	37	chr15	66845452	66845452	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtagctgggcccctggcggGaggggtagttcctttccgtg	18	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:66845452G>A	uc002aqc.2	-	9	1199	c.1067C>T	c.(1066-1068)TCC>TTC	p.S356F	LCTL_uc002aqd.3_Missense_Mutation_p.S183F|LCTL_uc010bhw.2_Missense_Mutation_p.S54F	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	356	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						CCCCTGGCGGGAGGGGTAGTT	0.502													24	58	---	---	---	---	PASS	A	66845452	A	A	66845452	3	1	4	1	0	0	0	0	1	0	0	0	8694	1174	41	2	656	2	LCTL	15	66845452	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	429214	66845452	35685940	2851	3442										
ITGA11	22801	broad.mit.edu	37	chr15	68617468	68617468	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgccctgtaccgagatgtaCcgagactctgagagtggtgg	15	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:68617468C>T	uc002ari.2	-	18	2409	c.2322_splice	c.e18+1	p.S774_splice	ITGA11_uc010bib.2_Splice_Site_p.S774_splice	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor						cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	CCGAGATGTACCGAGACTCTG	0.622													11	16	---	---	---	---	PASS	T	68617468	T	T	68617468	5	4	4	1	0	0	0	0	0	0	1	0	7874	521	18	3	1295	3	ITGA11	15	68617468	Splice_Site	SNP	C	TCGA-18-3409-01A-01D-0983-08	1772016	68617468	33913924	2852	3443										
NOX5	79400	broad.mit.edu	37	chr15	69339854	69339854	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcatcaccccctttgcttcCattctgcagagtatcatgta	7	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:69339854C>T	uc002ars.1	+	12	1814	c.1794C>T	c.(1792-1794)TCC>TCT	p.S598S	NOX5_uc002arp.1_Silent_p.S580S|NOX5_uc002arq.1_Silent_p.S552S|NOX5_uc010bid.1_Silent_p.S563S|NOX5_uc002arr.1_Silent_p.S570S|NOX5_uc010bie.1_Silent_p.S398S|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	598	Helical; (Potential).				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						CCTTTGCTTCCATTCTGCAGA	0.527													12	18	---	---	---	---	PASS	T	69339854	T	T	69339854	2	4	4	1	0	0	0	0	0	0	0	1	10559	581	21	3		3	NOX5	15	69339854	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	722386	69339854	33191538	2853	3444										
NOX5	79400	broad.mit.edu	37	chr15	69341321	69341321	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggactttatctggatcaacaGagaccagcggtctttcgagt	11	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:69341321G>A	uc002ars.1	+	14	1942	c.1922G>A	c.(1921-1923)AGA>AAA	p.R641K	NOX5_uc002arp.1_Missense_Mutation_p.R623K|NOX5_uc002arq.1_Missense_Mutation_p.R595K|NOX5_uc010bid.1_Missense_Mutation_p.R606K|NOX5_uc002arr.1_Missense_Mutation_p.R613K|NOX5_uc010bie.1_Missense_Mutation_p.R441K|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	641	Extracellular (Potential).				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity	p.D641H(1)		breast(1)|pancreas(1)	2						TGGATCAACAGAGACCAGCGG	0.502													6	18	---	---	---	---	PASS	A	69341321	A	A	69341321	3	1	4	1	0	0	0	0	1	0	0	0	10559	942	33	2	2009	2	NOX5	15	69341321	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1467	69341321	33190071	2854	3445										
TMEM202	338949	broad.mit.edu	37	chr15	72700100	72700100	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaaaacgtcactgtgattCcaacagagagatcaaggctg	10	8	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:72700100C>T	uc002auq.2	+	5	688	c.688C>T	c.(688-690)CCA>TCA	p.P230S	TMEM202_uc002aur.2_RNA	NM_001080462	NP_001073931	A6NGA9	TM202_HUMAN	transmembrane protein 202	230						integral to membrane				central_nervous_system(1)|skin(1)	2						CACTGTGATTCCAACAGAGAG	0.478													16	38	---	---	---	---	PASS	T	72700100	T	T	72700100	3	4	4	1	0	0	0	0	1	0	0	0	16124	855	30	2	706	2	TMEM202	15	72700100	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3358779	72700100	29831292	2855	3446										
GOLGA6B	55889	broad.mit.edu	37	chr15	72953606	72953606	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcactcttcaccatccagtCctcgagctgcagagaagcgg	9	15	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:72953606C>T	uc010uks.1	+	8	607	c.566C>T	c.(565-567)TCC>TTC	p.S189F		NM_018652	NP_061122	A6NDN3	GOG6B_HUMAN	golgi autoantigen, golgin subfamily a, 6B	189	Potential.										0						ACCATCCAGTCCTCGAGCTGC	0.557													14	30	---	---	---	---	PASS	T	72953606	T	T	72953606	3	4	4	1	0	0	0	0	1	0	0	0	6558	869	30	2	596	2	GOLGA6B	15	72953606	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	253506	72953606	29577786	2856	3447										
C15orf59	388135	broad.mit.edu	37	chr15	74032779	74032779	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accatccacggagtccgaggGggtagagacgtccaggaagg	16	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:74032779G>A	uc002avy.2	-	2	706	c.361C>T	c.(361-363)CCC>TCC	p.P121S		NM_001039614	NP_001034703	Q2T9L4	CO059_HUMAN	hypothetical protein LOC388135	121										pancreas(1)	1						GAGTCCGAGGGGGTAGAGACG	0.637													20	60	---	---	---	---	PASS	A	74032779	A	A	74032779	3	1	4	1	0	0	0	0	1	0	0	0	1807	1232	43	3	524	3	C15orf59	15	74032779	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1079173	74032779	28498613	2857	3448										
GOLGA6A	342096	broad.mit.edu	37	chr15	74372960	74372960	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccagccaagactcacatcCccaggtgagtggcaaccacc	10	16	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:74372960C>T	uc002axa.1	-	2	242	c.201G>A	c.(199-201)GGG>GGA	p.G67G		NM_001038640	NP_001033729	Q9NYA3	GOG6A_HUMAN	golgi autoantigen, golgin subfamily a, 6	67	Potential.										0						GACTCACATCCCCAGGTGAGT	0.418													8	89	---	---	---	---	PASS	T	74372960	T	T	74372960	2	4	4	1	0	0	0	0	0	0	0	1	6557	610	22	3		3	GOLGA6A	15	74372960	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	340181	74372960	28158432	2858	3449										
ISLR2	57611	broad.mit.edu	37	chr15	74426484	74426484	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcgctgtggcaacggggaCccctctcggtacgtttctaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:74426484C>T	uc002axd.2	+	4	2158	c.1389C>T	c.(1387-1389)GAC>GAT	p.D463D	ISLR2_uc002axe.2_Silent_p.D463D|ISLR2_uc010bjg.2_Silent_p.D463D|ISLR2_uc010bjf.2_Silent_p.D463D	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	463	Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						GCAACGGGGACCCCTCTCGGT	0.662													4	11	---	---	---	---	PASS	T	74426484	T	T	74426484	2	4	4	1	0	0	0	0	0	0	0	1	7859	506	18	3		3	ISLR2	15	74426484	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	53524	74426484	28104908	2859	3450	129	2								
ISLR2	57611	broad.mit.edu	37	chr15	74426485	74426485	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcgctgtggcaacggggacCcctctcggtacgtttctaac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:74426485C>T	uc002axd.2	+	4	2159	c.1390C>T	c.(1390-1392)CCC>TCC	p.P464S	ISLR2_uc002axe.2_Missense_Mutation_p.P464S|ISLR2_uc010bjg.2_Missense_Mutation_p.P464S|ISLR2_uc010bjf.2_Missense_Mutation_p.P464S	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	464	Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CAACGGGGACCCCTCTCGGTA	0.662													4	11	---	---	---	---	PASS	T	74426485	T	T	74426485	3	4	4	1	0	0	0	0	1	0	0	0	7859	623	22	3	1392	3	ISLR2	15	74426485	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	74426485	28104907	2860	3451	129	2								
CCDC33	80125	broad.mit.edu	37	chr15	74564127	74564127	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgggtcgttcccaactacaaGgaatttaagtgagtggggcc	13	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:74564127G>A	uc002axo.2	+	6	1024	c.630G>A	c.(628-630)AAG>AAA	p.K210K	CCDC33_uc002axp.2_Silent_p.K32K	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	413							protein binding			ovary(3)|skin(2)	5						CCAACTACAAGGAATTTAAGT	0.597													7	9	---	---	---	---	PASS	A	74564127	A	A	74564127	2	1	4	1	0	0	0	0	0	0	0	1	2806	991	35	3		3	CCDC33	15	74564127	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	137642	74564127	27967265	2861	3452										
SEMA7A	8482	broad.mit.edu	37	chr15	74704319	74704319	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgaagctgtgctcctgctcCcccggttccaccaccttgtg	10	17	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:74704319C>T	uc002axv.2	-	11	1369	c.1329G>A	c.(1327-1329)GGG>GGA	p.G443G	SEMA7A_uc010ulk.1_Silent_p.G278G|SEMA7A_uc010ull.1_Silent_p.G429G	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	443	Sema.				axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						GCTCCTGCTCCCCCGGTTCCA	0.632													8	31	---	---	---	---	PASS	T	74704319	T	T	74704319	2	4	4	1	0	0	0	0	0	0	0	1	14043	610	22	3		3	SEMA7A	15	74704319	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	140192	74704319	27827073	2862	3453										
CYP1A1	1543	broad.mit.edu	37	chr15	75013790	75013790	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctttctctgtaccctggggTtcatcaccaaatacatgagg	8	11	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:75013790T>C	uc002ayp.3	-	4	1129	c.1007A>G	c.(1006-1008)AAC>AGC	p.N336S	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Missense_Mutation_p.N72S|CYP1A1_uc010bjx.2_Missense_Mutation_p.N72S|CYP1A1_uc002ayq.3_Missense_Mutation_p.N336S|CYP1A1_uc010bjy.2_Missense_Mutation_p.N336S|CYP1A1_uc010bjz.1_Missense_Mutation_p.N72S	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	336					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	TACCCTGGGGTTCATCACCAA	0.552									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				19	33	---	---	---	---	PASS	C	75013790	C	C	75013790	3	2	4	1	0	0	0	0	1	0	0	0	4149	1725	60	5	547	5	CYP1A1	15	75013790	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	309471	75013790	27517602	2863	3454										
CYP1A2	1544	broad.mit.edu	37	chr15	75042389	75042389	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctggtgcggcagggcgacGatttcaagggccggcctgac	16	13	1	1	rs34067076	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:75042389G>A	uc002ayr.1	+	2	374	c.310G>A	c.(310-312)GAT>AAT	p.D104N		NM_000761	NP_000752	P05177	CP1A2_HUMAN	cytochrome P450, family 1, subfamily A,	104					alkaloid metabolic process|exogenous drug catabolic process|methylation|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative deethylation|oxidative demethylation|steroid catabolic process|toxin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|demethylase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding			ovary(3)|breast(1)	4					Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Aciclovir(DB00787)|Alosetron(DB00969)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Anagrelide(DB00261)|Azelastine(DB00972)|Bortezomib(DB00188)|Caffeine(DB00201)|Carmustine(DB00262)|Chlordiazepoxide(DB00475)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Ciprofloxacin(DB00537)|Clomipramine(DB01242)|Clotrimazole(DB00257)|Clozapine(DB00363)|Conjugated Estrogens(DB00286)|Cyclobenzaprine(DB00924)|Dacarbazine(DB00851)|Desloratadine(DB00967)|Diazepam(DB00829)|Dibucaine(DB00527)|Diclofenac(DB00586)|Duloxetine(DB00476)|Enoxacin(DB00467)|Esomeprazole(DB00736)|Estradiol(DB00783)|Estrone(DB00655)|Fluorouracil(DB00544)|Flutamide(DB00499)|Fluvoxamine(DB00176)|Frovatriptan(DB00998)|Grepafloxacin(DB00365)|Haloperidol(DB00502)|Hesperetin(DB01094)|Imipramine(DB00458)|Ketoconazole(DB01026)|Leflunomide(DB01097)|Levobupivacaine(DB01002)|Levofloxacin(DB01137)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Melatonin(DB01065)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mirtazapine(DB00370)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ofloxacin(DB01165)|Olanzapine(DB00334)|Ondansetron(DB00904)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Pefloxacin(DB00487)|Pimozide(DB01100)|Propafenone(DB01182)|Propranolol(DB00571)|Quinidine(DB00908)|Ramelteon(DB00980)|Ranitidine(DB00863)|Rasagiline(DB01367)|Rifampin(DB01045)|Riluzole(DB00740)|Rofecoxib(DB00533)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Tacrine(DB00382)|Telithromycin(DB00976)|Terfenadine(DB00342)|Theophylline(DB00277)|Thiabendazole(DB00730)|Tizanidine(DB00697)|Tolbutamide(DB01124)|Verapamil(DB00661)|Warfarin(DB00682)|Zileuton(DB00744)|Zolmitriptan(DB00315)	GCAGGGCGACGATTTCAAGGG	0.672													6	20	---	---	---	---	PASS	A	75042389	A	A	75042389	3	1	4	1	0	0	0	0	1	0	0	0	4150	1058	37	2	312	2	CYP1A2	15	75042389	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	28599	75042389	27489003	2864	3455										
CSK	1445	broad.mit.edu	37	chr15	75094051	75094051	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccagagatgtctgcgaggcCatggaatacctggagggcaa	14	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:75094051C>T	uc010bkb.1	+	12	1086	c.903C>T	c.(901-903)GCC>GCT	p.A301A	CSK_uc002ays.2_Silent_p.A301A|CSK_uc010bkc.1_Silent_p.A110A	NM_001127190	NP_001120662	P41240	CSK_HUMAN	c-src tyrosine kinase	301	Protein kinase.				blood coagulation|epidermal growth factor receptor signaling pathway|T cell costimulation|T cell receptor signaling pathway	centrosome|cytosol|Golgi apparatus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein C-terminus binding			lung(2)|central_nervous_system(1)	3						TCTGCGAGGCCATGGAATACC	0.597													11	19	---	---	---	---	PASS	T	75094051	T	T	75094051	2	4	4	1	0	0	0	0	0	0	0	1	3943	581	21	3		3	CSK	15	75094051	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	51662	75094051	27437341	2865	3456										
LMAN1L	79748	broad.mit.edu	37	chr15	75112435	75112435	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagcctgagtgagcccagcCcagaggtgatgccagccctg	13	14	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:75112435C>T	uc002ayt.1	+	7	771	c.769C>T	c.(769-771)CCA>TCA	p.P257S	LMAN1L_uc010bkd.2_3'UTR|LMAN1L_uc010ulo.1_3'UTR|LMAN1L_uc010bke.1_Intron	NM_021819	NP_068591	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like precursor	257	Lumenal (Potential).					ER-Golgi intermediate compartment membrane|integral to membrane	sugar binding				0						TGAGCCCAGCCCAGAGGTGAT	0.602													10	28	---	---	---	---	PASS	T	75112435	T	T	75112435	3	4	4	1	0	0	0	0	1	0	0	0	8837	623	22	3	795	3	LMAN1L	15	75112435	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	18384	75112435	27418957	2866	3457										
FBXO22	26263	broad.mit.edu	37	chr15	76206519	76206519	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccccaaacaatgccaagtcCttgggattgtgaccccagga	9	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:76206519C>T	uc002bbk.2	+	4	541	c.436C>T	c.(436-438)CTT>TTT	p.L146F	FBXO22_uc002bbj.1_Missense_Mutation_p.L146F|FBXO22_uc002bbl.2_Missense_Mutation_p.L42F	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	146					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0						ATGCCAAGTCCTTGGGATTGT	0.383													12	22	---	---	---	---	PASS	T	76206519	T	T	76206519	3	4	4	1	0	0	0	0	1	0	0	0	5734	681	24	3	450	3	FBXO22	15	76206519	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1094084	76206519	26324873	2867	3458										
SCAPER	49855	broad.mit.edu	37	chr15	77025689	77025689	+	Nonsense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacatcatgacgtttattctGggcttcaagggtatttataa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:77025689G>A	uc002bby.2	-	15	1962	c.1903C>T	c.(1903-1905)CAG>TAG	p.Q635*	SCAPER_uc002bbx.2_Nonsense_Mutation_p.Q389*|SCAPER_uc002bbz.1_Nonsense_Mutation_p.Q506*|SCAPER_uc002bca.1_Nonsense_Mutation_p.Q500*|SCAPER_uc002bcb.1_Nonsense_Mutation_p.Q641*	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	634	Glu-rich.					endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						CGTTTATTCTGGGCTTCAAGG	0.343													7	31	---	---	---	---	PASS	A	77025689	A	A	77025689	4	1	4	1	0	0	0	0	0	1	0	0	13878	1357	47	3	2367	3	SCAPER	15	77025689	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	819170	77025689	25505703	2868	3459	130	2								
SCAPER	49855	broad.mit.edu	37	chr15	77025690	77025690	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatcatgacgtttattctgGgcttcaagggtatttataaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:77025690G>A	uc002bby.2	-	15	1961	c.1902C>T	c.(1900-1902)GCC>GCT	p.A634A	SCAPER_uc002bbx.2_Silent_p.A388A|SCAPER_uc002bbz.1_Silent_p.A505A|SCAPER_uc002bca.1_Silent_p.A499A|SCAPER_uc002bcb.1_Silent_p.A640A	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	633	Glu-rich.					endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						GTTTATTCTGGGCTTCAAGGG	0.343													7	31	---	---	---	---	PASS	A	77025690	A	A	77025690	2	1	4	1	0	0	0	0	0	0	0	1	13878	1219	43	3		3	SCAPER	15	77025690	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	77025690	25505702	2869	3460	130	2								
LINGO1	84894	broad.mit.edu	37	chr15	77907381	77907381	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtaggagaggttgaggaagcGgagatagactaggtggcgga	20	3	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:77907381G>A	uc002bct.1	-	2	920	c.868C>T	c.(868-870)CGC>TGC	p.R290C	LINGO1_uc002bcu.1_Missense_Mutation_p.R284C	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	290	Extracellular (Potential).|LRR 9.				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						TTGAGGAAGCGGAGATAGACT	0.607													10	22	---	---	---	---	PASS	A	77907381	A	A	77907381	3	1	4	1	0	0	0	0	1	0	0	0	8814	1116	39	1	998	1	LINGO1	15	77907381	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	881691	77907381	24624011	2870	3461										
ACSBG1	23205	broad.mit.edu	37	chr15	78471062	78471062	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctcacaagtcttgtcctcCatgttcaggtagcccatgaa	8	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:78471062C>T	uc002bdh.2	-	11	1652	c.1596G>A	c.(1594-1596)ATG>ATA	p.M532I	ACSBG1_uc010umw.1_Missense_Mutation_p.M528I|ACSBG1_uc010umx.1_Missense_Mutation_p.M290I	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	532					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						TCTTGTCCTCCATGTTCAGGT	0.627													6	11	---	---	---	---	PASS	T	78471062	T	T	78471062	3	4	4	1	0	0	0	0	1	0	0	0	173	594	21	3	594	3	ACSBG1	15	78471062	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	563681	78471062	24060330	2871	3462										
ACSBG1	23205	broad.mit.edu	37	chr15	78471960	78471960	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctcactgaggccgtagccCgcatacaagcggatgttgag	13	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:78471960C>A	uc002bdh.2	-	10	1472	c.1416G>T	c.(1414-1416)GCG>GCT	p.A472A	ACSBG1_uc010umw.1_Silent_p.A468A|ACSBG1_uc010umx.1_Silent_p.A230A	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	472	ATP (By similarity).				long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						GGCCGTAGCCCGCATACAAGC	0.567													4	37	---	---	---	---	PASS	A	78471960	A	A	78471960	2	1	4	1	0	0	0	0	0	0	0	1	173	639	23	1		1	ACSBG1	15	78471960	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	898	78471960	24059432	2872	3463										
ACSBG1	23205	broad.mit.edu	37	chr15	78471990	78471990	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggatgttgagacccaggaaGaagtgctgtgtctctgccat	13	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:78471990G>A	uc002bdh.2	-	10	1442	c.1386C>T	c.(1384-1386)TTC>TTT	p.F462F	ACSBG1_uc010umw.1_Silent_p.F458F|ACSBG1_uc010umx.1_Silent_p.F220F	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	462					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						GACCCAGGAAGAAGTGCTGTG	0.557													22	32	---	---	---	---	PASS	A	78471990	A	A	78471990	2	1	4	1	0	0	0	0	0	0	0	1	173	933	33	2		2	ACSBG1	15	78471990	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	30	78471990	24059402	2873	3464										
ACSBG1	23205	broad.mit.edu	37	chr15	78500387	78500387	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcaccttctctggcactgaGagctcgagagcatggttcag	11	11	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:78500387G>A	uc002bdh.2	-	2	245	c.189C>T	c.(187-189)CTC>CTT	p.L63L	ACSBG1_uc010umw.1_Silent_p.L63L|ACSBG1_uc010umx.1_Intron|ACSBG1_uc010umy.1_Intron	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	63					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						CTGGCACTGAGAGCTCGAGAG	0.577													4	13	---	---	---	---	PASS	A	78500387	A	A	78500387	2	1	4	1	0	0	0	0	0	0	0	1	173	929	33	2		2	ACSBG1	15	78500387	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	28397	78500387	24031005	2874	3465										
IREB2	3658	broad.mit.edu	37	chr15	78755400	78755400	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatgttgaagtgccctttttCcctgcccgtgttcttcttca	7	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:78755400C>T	uc002bdr.2	+	3	405	c.243C>T	c.(241-243)TTC>TTT	p.F81F	IREB2_uc010unb.1_5'UTR|IREB2_uc002bdq.2_Silent_p.F81F	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	81							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		TGCCCTTTTTCCCTGCCCGTG	0.358													30	50	---	---	---	---	PASS	T	78755400	T	T	78755400	2	4	4	1	0	0	0	0	0	0	0	1	7826	854	30	2		2	IREB2	15	78755400	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	255013	78755400	23775992	2875	3466										
ADAMTS7	11173	broad.mit.edu	37	chr15	79063624	79063624	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtactcgtagtgcaccccagGgttgctctcctggaacagca	11	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:79063624G>A	uc002bej.3	-	16	2609	c.2398C>T	c.(2398-2400)CCT>TCT	p.P800S	ADAMTS7_uc010und.1_Intron|ADAMTS7_uc002bek.1_3'UTR	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	800	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						TGCACCCCAGGGTTGCTCTCC	0.642													3	6	---	---	---	---	PASS	A	79063624	A	A	79063624	3	1	4	1	0	0	0	0	1	0	0	0	271	1232	43	3	2698	3	ADAMTS7	15	79063624	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	308224	79063624	23467768	2876	3467										
RASGRF1	5923	broad.mit.edu	37	chr15	79323819	79323819	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatgaggcgtgtgggccagGagctcatggagggtcaggat	18	7	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:79323819G>A	uc002beq.2	-	8	1560	c.1185C>T	c.(1183-1185)CTC>CTT	p.L395L	RASGRF1_uc002bep.2_Silent_p.L395L|RASGRF1_uc010blm.1_Silent_p.L317L|RASGRF1_uc002ber.3_Silent_p.L395L	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	395	DH.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						TGTGGGCCAGGAGCTCATGGA	0.622													6	13	---	---	---	---	PASS	A	79323819	A	A	79323819	2	1	4	1	0	0	0	0	0	0	0	1	13072	1161	41	2		2	RASGRF1	15	79323819	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	260195	79323819	23207573	2877	3468										
RASGRF1	5923	broad.mit.edu	37	chr15	79323849	79323849	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggtcaggatgtacctgggGatctgcgggcaggtgggaga	20	6	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:79323849G>A	uc002beq.2	-	8	1530	c.1155C>T	c.(1153-1155)ATC>ATT	p.I385I	RASGRF1_uc002bep.2_Silent_p.I385I|RASGRF1_uc010blm.1_Silent_p.I307I|RASGRF1_uc002ber.3_Silent_p.I385I	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	385	DH.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						TGTACCTGGGGATCTGCGGGC	0.547													7	13	---	---	---	---	PASS	A	79323849	A	A	79323849	2	1	4	1	0	0	0	0	0	0	0	1	13072	1164	41	2		2	RASGRF1	15	79323849	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	30	79323849	23207543	2878	3469										
KIAA1024	23251	broad.mit.edu	37	chr15	79749282	79749282	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atatcttcaaagaggattttCacaatttgatggcagtgtcc	8	7	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:79749282C>T	uc002bew.1	+	2	868	c.793C>T	c.(793-795)CAC>TAC	p.H265Y	KIAA1024_uc010unk.1_Missense_Mutation_p.H265Y	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	265						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						AGAGGATTTTCACAATTTGAT	0.498													14	55	---	---	---	---	PASS	T	79749282	T	T	79749282	3	4	4	1	0	0	0	0	1	0	0	0	8205	826	29	2	795	2	KIAA1024	15	79749282	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	425433	79749282	22782110	2879	3470										
ZFAND6	54469	broad.mit.edu	37	chr15	80415061	80415061	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccctgtatcaaatcagtcaCttttatcagaatctgtagca	6	10	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:80415061C>T	uc002bfe.1	+	5	594	c.283C>T	c.(283-285)CTT>TTT	p.L95F	ZFAND6_uc002bff.1_Missense_Mutation_p.L95F|ZFAND6_uc002bfg.1_Missense_Mutation_p.L83F|ZFAND6_uc002bfh.1_Missense_Mutation_p.L95F|ZFAND6_uc002bfi.1_Missense_Mutation_p.L95F	NM_019006	NP_061879	Q6FIF0	ZFAN6_HUMAN	zinc finger, AN1-type domain 6	95	Ser-rich.						DNA binding|zinc ion binding				0						AAATCAGTCACTTTTATCAGA	0.353													22	44	---	---	---	---	PASS	T	80415061	T	T	80415061	3	4	4	1	0	0	0	0	1	0	0	0	17628	565	20	3	293	3	ZFAND6	15	80415061	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	665779	80415061	22116331	2880	3471										
SLC28A1	9154	broad.mit.edu	37	chr15	85476451	85476451	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctctccaagctggtctacCcggaggtggaggagtccaag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:85476451C>T	uc002blg.2	+	13	1361	c.1159C>T	c.(1159-1161)CCG>TCG	p.P387S	SLC28A1_uc010bnb.2_Missense_Mutation_p.P387S|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Missense_Mutation_p.P387S|SLC28A1_uc010upg.1_Missense_Mutation_p.P387S	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	387					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GCTGGTCTACCCGGAGGTGGA	0.567													10	46	---	---	---	---	PASS	T	85476451	T	T	85476451	3	4	4	1	0	0	0	0	1	0	0	0	14531	623	22	3	1272	3	SLC28A1	15	85476451	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	5061390	85476451	17054941	2881	3472	131	2								
SLC28A1	9154	broad.mit.edu	37	chr15	85476452	85476452	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctctccaagctggtctaccCggaggtggaggagtccaagt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:85476452C>T	uc002blg.2	+	13	1362	c.1160C>T	c.(1159-1161)CCG>CTG	p.P387L	SLC28A1_uc010bnb.2_Missense_Mutation_p.P387L|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Missense_Mutation_p.P387L|SLC28A1_uc010upg.1_Missense_Mutation_p.P387L	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	387					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CTGGTCTACCCGGAGGTGGAG	0.572													12	46	---	---	---	---	PASS	T	85476452	T	T	85476452	3	4	4	1	0	0	0	0	1	0	0	0	14531	652	23	1	1273	1	SLC28A1	15	85476452	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	85476452	17054940	2882	3473	131	2								
AKAP13	11214	broad.mit.edu	37	chr15	86198952	86198952	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctccatgcgctctctttctcCcttccggaggcacagctggg	10	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:86198952C>T	uc002blv.1	+	11	4849	c.4679C>T	c.(4678-4680)CCC>CTC	p.P1560L	AKAP13_uc002blt.1_Missense_Mutation_p.P1560L|AKAP13_uc002blu.1_Missense_Mutation_p.P1560L|AKAP13_uc010bnf.1_Missense_Mutation_p.P200L|AKAP13_uc002blw.1_Missense_Mutation_p.P45L|AKAP13_uc010bne.1_Missense_Mutation_p.P213L	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1560					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TCTCTTTCTCCCTTCCGGAGG	0.572													11	30	---	---	---	---	PASS	T	86198952	T	T	86198952	3	4	4	1	0	0	0	0	1	0	0	0	449	623	22	3	4717	3	AKAP13	15	86198952	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	722500	86198952	16332440	2883	3474										
AGBL1	123624	broad.mit.edu	37	chr15	86697721	86697721	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgatgtgacattgattctggCcaggaagaacctatcccatg	10	9	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:86697721C>T	uc002blz.1	+	3	265	c.185C>T	c.(184-186)GCC>GTC	p.A62V		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	62					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						TTGATTCTGGCCAGGAAGAAC	0.468													5	14	---	---	---	---	PASS	T	86697721	T	T	86697721	3	4	4	1	0	0	0	0	1	0	0	0	375	739	26	3	191	3	AGBL1	15	86697721	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	498769	86697721	15833671	2884	3475										
ACAN	176	broad.mit.edu	37	chr15	89388994	89388994	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaggttgagaatgagactgGagaggccaccaggccctggg	17	8	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:89388994G>A	uc010upo.1	+	7	1684	c.1310G>A	c.(1309-1311)GGA>GAA	p.G437E	ACAN_uc002bmx.2_Missense_Mutation_p.G437E|ACAN_uc010upp.1_Missense_Mutation_p.G437E|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	437					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			AATGAGACTGGAGAGGCCACC	0.642													6	14	---	---	---	---	PASS	A	89388994	A	A	89388994	3	1	4	1	0	0	0	0	1	0	0	0	117	1174	41	2	1332	2	ACAN	15	89388994	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2691273	89388994	13142398	2885	3476										
POLG	5428	broad.mit.edu	37	chr15	89872200	89872200	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcctcttctggctttcctctGggacttctggccttgctttg	10	13	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:89872200G>A	uc002bns.3	-	4	1279	c.997C>T	c.(997-999)CAG>TAG	p.Q333*	POLG_uc002bnr.3_Nonsense_Mutation_p.Q333*	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	333					base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			GCTTTCCTCTGGGACTTCTGG	0.637								DNA_polymerases_(catalytic_subunits)					14	30	---	---	---	---	PASS	A	89872200	A	A	89872200	4	1	4	1	0	0	0	0	0	1	0	0	12200	1357	47	3	2802	3	POLG	15	89872200	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	483206	89872200	12659192	2886	3477										
C15orf42	90381	broad.mit.edu	37	chr15	90126188	90126188	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaggaatgttatttctccCtgttgaaggtaagcaaataa	10	5	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:90126188C>T	uc002boe.2	+	2	926	c.926C>T	c.(925-927)CCT>CTT	p.P309L		NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	309					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			TTATTTCTCCCTGTTGAAGGT	0.338													13	33	---	---	---	---	PASS	T	90126188	T	T	90126188	3	4	4	1	0	0	0	0	1	0	0	0	1796	681	24	3	932	3	C15orf42	15	90126188	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	253988	90126188	12405204	2887	3478										
KIF7	374654	broad.mit.edu	37	chr15	90188364	90188364	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtggcaggggggacctggcGggcctgaactcgggccttgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:90188364G>A	uc002bof.2	-	10	2148	c.2071C>T	c.(2071-2073)CGC>TGC	p.R691C	KIF7_uc010upw.1_Missense_Mutation_p.R177C	NM_198525	NP_940927	Q2M1P5	KIF7_HUMAN	kinesin family member 7	691					microtubule-based movement|negative regulation of smoothened signaling pathway|positive regulation of smoothened signaling pathway	cilium	ATP binding|microtubule motor activity|protein binding			ovary(2)|lung(1)	3	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GGGACCTGGCGGGCCTGAACT	0.632													8	16	---	---	---	---	PASS	A	90188364	A	A	90188364	3	1	4	1	0	0	0	0	1	0	0	0	8309	1116	39	1	2000	1	KIF7	15	90188364	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	62176	90188364	12343028	2888	3479	132	2								
KIF7	374654	broad.mit.edu	37	chr15	90188365	90188365	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggcaggggggacctggcgGgcctgaactcgggccttgct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:90188365G>A	uc002bof.2	-	10	2147	c.2070C>T	c.(2068-2070)GCC>GCT	p.A690A	KIF7_uc010upw.1_Silent_p.A176A	NM_198525	NP_940927	Q2M1P5	KIF7_HUMAN	kinesin family member 7	690					microtubule-based movement|negative regulation of smoothened signaling pathway|positive regulation of smoothened signaling pathway	cilium	ATP binding|microtubule motor activity|protein binding			ovary(2)|lung(1)	3	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GGACCTGGCGGGCCTGAACTC	0.637													8	16	---	---	---	---	PASS	A	90188365	A	A	90188365	2	1	4	1	0	0	0	0	0	0	0	1	8309	1219	43	3		3	KIF7	15	90188365	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	90188365	12343027	2889	3480	132	2								
IQGAP1	8826	broad.mit.edu	37	chr15	91025317	91025317	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctctcagccattgtcagctCtgtggacaaaatcccgtgag	9	12	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:91025317C>T	uc002bpl.1	+	27	3556	c.3455C>T	c.(3454-3456)TCT>TTT	p.S1152F		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1152	Ras-GAP.|C1.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			ATTGTCAGCTCTGTGGACAAA	0.517											OREG0023473	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	45	---	---	---	---	PASS	T	91025317	T	T	91025317	3	4	4	1	0	0	0	0	1	0	0	0	7814	913	32	2	3561	2	IQGAP1	15	91025317	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	836952	91025317	11506075	2890	3481										
FURIN	5045	broad.mit.edu	37	chr15	91424898	91424898	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcctcagctgcgccttcatCgtgctggtcttcgtcactgt	11	14	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:91424898C>T	uc002bpu.1	+	16	2391	c.2175C>T	c.(2173-2175)ATC>ATT	p.I725I	FES_uc010uqj.1_5'Flank|FES_uc010uqk.1_5'Flank|FES_uc002bpw.2_5'Flank|FES_uc002bpv.2_5'Flank	NM_002569	NP_002560	P09958	FURIN_HUMAN	furin preproprotein	725	Helical; (Potential).				cell proliferation|negative regulation of low-density lipoprotein particle receptor catabolic process|negative regulation of transforming growth factor-beta1 production|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|Notch signaling pathway|peptide biosynthetic process|peptidyl-glutamic acid carboxylation|post-translational protein modification|secretion by cell|signal peptide processing|transforming growth factor beta receptor signaling pathway|viral assembly, maturation, egress, and release	cell surface|Golgi lumen|Golgi membrane|integral to membrane|membrane raft|plasma membrane|trans-Golgi network|trans-Golgi network transport vesicle	metal ion binding|nerve growth factor binding|peptide binding|protease binding|serine-type endopeptidase activity|serine-type endopeptidase inhibitor activity			central_nervous_system(4)|lung(2)|breast(1)	7	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			GCGCCTTCATCGTGCTGGTCT	0.662													24	43	---	---	---	---	PASS	T	91424898	T	T	91424898	2	4	4	1	0	0	0	0	0	0	0	1	6099	874	31	2		2	FURIN	15	91424898	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	399581	91424898	11106494	2891	3482										
MAN2A2	4122	broad.mit.edu	37	chr15	91447563	91447563	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caccagaatggtgggaacttCccccgggtgagtcgtgcctg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:91447563C>T	uc010bnz.2	+	2	241	c.126C>T	c.(124-126)TTC>TTT	p.F42F	MAN2A2_uc010boa.2_Silent_p.F84F|MAN2A2_uc002bqc.2_Silent_p.F42F|MAN2A2_uc010uql.1_5'Flank|MAN2A2_uc010uqm.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	42	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			GTGGGAACTTCCCCCGGGTGA	0.607													18	42	---	---	---	---	PASS	T	91447563	T	T	91447563	2	4	4	1	0	0	0	0	0	0	0	1	9215	854	30	2		2	MAN2A2	15	91447563	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	22665	91447563	11083829	2892	3483	133	3								
MAN2A2	4122	broad.mit.edu	37	chr15	91447564	91447564	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accagaatggtgggaacttcCcccgggtgagtcgtgcctgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:91447564C>T	uc010bnz.2	+	2	242	c.127C>T	c.(127-129)CCC>TCC	p.P43S	MAN2A2_uc010boa.2_Missense_Mutation_p.P85S|MAN2A2_uc002bqc.2_Missense_Mutation_p.P43S|MAN2A2_uc010uql.1_5'Flank|MAN2A2_uc010uqm.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	43	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			TGGGAACTTCCCCCGGGTGAG	0.612													18	42	---	---	---	---	PASS	T	91447564	T	T	91447564	3	4	4	1	0	0	0	0	1	0	0	0	9215	623	22	3	129	3	MAN2A2	15	91447564	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	91447564	11083828	2893	3484	133	3								
MAN2A2	4122	broad.mit.edu	37	chr15	91447565	91447565	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagaatggtgggaacttccCccgggtgagtcgtgcctggt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:91447565C>T	uc010bnz.2	+	2	243	c.128C>T	c.(127-129)CCC>CTC	p.P43L	MAN2A2_uc010boa.2_Missense_Mutation_p.P85L|MAN2A2_uc002bqc.2_Missense_Mutation_p.P43L|MAN2A2_uc010uql.1_5'Flank|MAN2A2_uc010uqm.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	43	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			GGGAACTTCCCCCGGGTGAGT	0.607													18	39	---	---	---	---	PASS	T	91447565	T	T	91447565	3	4	4	1	0	0	0	0	1	0	0	0	9215	623	22	3	130	3	MAN2A2	15	91447565	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	91447565	11083827	2894	3485	133	3								
MAN2A2	4122	broad.mit.edu	37	chr15	91448890	91448890	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttcgacatctcctacgacCcgcacgactgggatgctgaa	10	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:91448890C>T	uc010bnz.2	+	4	587	c.472C>T	c.(472-474)CCG>TCG	p.P158S	MAN2A2_uc010boa.2_Missense_Mutation_p.P200S|MAN2A2_uc002bqc.2_Missense_Mutation_p.P158S|MAN2A2_uc010uql.1_5'Flank|MAN2A2_uc010uqm.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	158	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			CTCCTACGACCCGCACGACTG	0.602													9	19	---	---	---	---	PASS	T	91448890	T	T	91448890	3	4	4	1	0	0	0	0	1	0	0	0	9215	623	22	3	482	3	MAN2A2	15	91448890	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1325	91448890	11082502	2895	3486										
MAN2A2	4122	broad.mit.edu	37	chr15	91450582	91450582	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctgtcacatgatgcccttCtacagctatgacgtccccca	6	15	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:91450582C>T	uc010bnz.2	+	8	1168	c.1053C>T	c.(1051-1053)TTC>TTT	p.F351F	MAN2A2_uc010boa.2_Silent_p.F393F|MAN2A2_uc002bqc.2_Silent_p.F351F|MAN2A2_uc010uql.1_Silent_p.F55F|MAN2A2_uc010uqm.1_5'UTR	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	351	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			TGATGCCCTTCTACAGCTATG	0.582													25	44	---	---	---	---	PASS	T	91450582	T	T	91450582	2	4	4	1	0	0	0	0	0	0	0	1	9215	912	32	2		2	MAN2A2	15	91450582	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1692	91450582	11080810	2896	3487										
CHD2	1106	broad.mit.edu	37	chr15	93467575	93467575	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagcctctgaagaagcttcGggttcagactcaggcagtca	11	11	5	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:93467575G>T	uc002bsp.2	+	3	662	c.87G>T	c.(85-87)TCG>TCT	p.S29S	CHD2_uc002bsm.1_Silent_p.S29S|CHD2_uc002bsn.2_Silent_p.S29S|CHD2_uc002bso.1_Silent_p.S29S|CHD2_uc010urb.1_Silent_p.S42S	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	29	Ser-rich.				regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			AAGAAGCTTCGGGTTCAGACT	0.433													4	88	---	---	---	---	PASS	T	93467575	T	T	93467575	2	4	4	1	0	0	0	0	0	0	0	1	3325	1103	39	1		1	CHD2	15	93467575	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2016993	93467575	9063817	2897	3488										
SPATA8	145946	broad.mit.edu	37	chr15	97327464	97327464	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtggcccaggaggcctcaaGggcccggtgtggcctgcaaa	17	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:97327464G>T	uc002bue.2	+	2	381	c.171G>T	c.(169-171)AAG>AAT	p.K57N	uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8	57										ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			GAGGCCTCAAGGGCCCGGTGT	0.567													12	14	---	---	---	---	PASS	T	97327464	T	T	97327464	3	4	4	1	0	0	0	0	1	0	0	0	15014	991	35	3	177	3	SPATA8	15	97327464	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3859889	97327464	5203928	2898	3489										
SPATA8	145946	broad.mit.edu	37	chr15	97328247	97328247	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaacagctgttctcacggaaGgatccaaagggttcaaaggc	12	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:97328247G>A	uc002bue.2	+	3	428	c.218G>A	c.(217-219)AGG>AAG	p.R73K	uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8	73								p.R73R(1)		ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			TCTCACGGAAGGATCCAAAGG	0.458													17	52	---	---	---	---	PASS	A	97328247	A	A	97328247	3	1	4	1	0	0	0	0	1	0	0	0	15014	1000	35	3	228	3	SPATA8	15	97328247	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	783	97328247	5203145	2899	3490										
ARRDC4	91947	broad.mit.edu	37	chr15	98513180	98513180	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attagtgatcggtacaattcCatataatggttttggcagca	9	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:98513180C>T	uc010bom.2	+	6	1109	c.950C>T	c.(949-951)CCA>CTA	p.P317L	ARRDC4_uc002bui.3_Missense_Mutation_p.P230L	NM_183376	NP_899232	Q8NCT1	ARRD4_HUMAN	arrestin domain containing 4	317					signal transduction						0	Melanoma(26;0.00539)|Lung NSC(78;0.0125)|all_lung(78;0.0222)		OV - Ovarian serous cystadenocarcinoma(32;0.0417)			GGTACAATTCCATATAATGGT	0.408													7	30	---	---	---	---	PASS	T	98513180	T	T	98513180	3	4	4	1	0	0	0	0	1	0	0	0	985	594	21	3	972	3	ARRDC4	15	98513180	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1184933	98513180	4018212	2900	3491										
SYNM	23336	broad.mit.edu	37	chr15	99672261	99672261	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agacaatttcatgctgaaaaGgagattatttttcagggccc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:99672261G>A	uc002bup.2	+	6	3816	c.3696G>A	c.(3694-3696)AAG>AAA	p.K1232K	SYNM_uc002buo.2_Intron|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	1232	Tail.|Interaction with TLN1 and VCL.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						ATGCTGAAAAGGAGATTATTT	0.512													17	40	---	---	---	---	PASS	A	99672261	A	A	99672261	2	1	4	1	0	0	0	0	0	0	0	1	15452	991	35	3		3	SYNM	15	99672261	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1159081	99672261	2859131	2901	3492	134	2								
SYNM	23336	broad.mit.edu	37	chr15	99672262	99672262	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacaatttcatgctgaaaagGagattatttttcagggcccc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:99672262G>A	uc002bup.2	+	6	3817	c.3697G>A	c.(3697-3699)GAG>AAG	p.E1233K	SYNM_uc002buo.2_Intron|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	1233	Tail.|Interaction with TLN1 and VCL.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						TGCTGAAAAGGAGATTATTTT	0.507													16	41	---	---	---	---	PASS	A	99672262	A	A	99672262	3	1	4	1	0	0	0	0	1	0	0	0	15452	1175	41	2	3710	2	SYNM	15	99672262	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	99672262	2859130	2902	3493	134	2								
ADAMTS17	170691	broad.mit.edu	37	chr15	100589176	100589176	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgttgacaatccgtgtacacGagacgatggttctgcgctcc	11	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:100589176G>A	uc002bvv.1	-	18	2556	c.2477C>T	c.(2476-2478)TCG>TTG	p.S826L		NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	826	TSP type-1 2.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		CCGTGTACACGAGACGATGGT	0.582													10	22	---	---	---	---	PASS	A	100589176	A	A	100589176	3	1	4	1	0	0	0	0	1	0	0	0	262	1059	37	2	830	2	ADAMTS17	15	100589176	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	916914	100589176	1942216	2903	3494										
ADAMTS17	170691	broad.mit.edu	37	chr15	100692938	100692938	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgctggcttctggggtccGtgactagcaagcaggtgctg	16	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:100692938G>A	uc002bvv.1	-	10	1431	c.1352C>T	c.(1351-1353)ACG>ATG	p.T451M	ADAMTS17_uc002bvx.1_Missense_Mutation_p.T208M	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	451	Peptidase M12B.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		TCTGGGGTCCGTGACTAGCAA	0.493													9	20	---	---	---	---	PASS	A	100692938	A	A	100692938	3	1	4	1	0	0	0	0	1	0	0	0	262	1145	40	1	1987	1	ADAMTS17	15	100692938	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	103762	100692938	1838454	2904	3495										
ADAMTS17	170691	broad.mit.edu	37	chr15	100821497	100821497	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgtggtactgcaccatgtcGgcgtcggccaccaccagggt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:100821497G>A	uc002bvv.1	-	4	805	c.726C>T	c.(724-726)GCC>GCT	p.A242A	ADAMTS17_uc002bvx.1_5'UTR	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	242	Peptidase M12B.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		GCACCATGTCGGCGTCGGCCA	0.687													8	24	---	---	---	---	PASS	A	100821497	A	A	100821497	2	1	4	1	0	0	0	0	0	0	0	1	262	1103	39	1		1	ADAMTS17	15	100821497	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	128559	100821497	1709895	2905	3496	135	2								
ADAMTS17	170691	broad.mit.edu	37	chr15	100821498	100821498	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtggtactgcaccatgtcgGcgtcggccaccaccagggtc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:100821498G>A	uc002bvv.1	-	4	804	c.725C>T	c.(724-726)GCC>GTC	p.A242V	ADAMTS17_uc002bvx.1_5'UTR	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	242	Peptidase M12B.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		CACCATGTCGGCGTCGGCCAC	0.687													7	24	---	---	---	---	PASS	A	100821498	A	A	100821498	3	1	4	1	0	0	0	0	1	0	0	0	262	1203	42	3	2638	3	ADAMTS17	15	100821498	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	100821498	1709894	2906	3497	135	2								
LRRK1	79705	broad.mit.edu	37	chr15	101528975	101528975	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgtcaggaagaatgagttCcctgtcatcgtgcgcttgcc	12	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:101528975C>T	uc002bwr.2	+	5	889	c.570C>T	c.(568-570)TTC>TTT	p.F190F	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bwq.1_Silent_p.F190F	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	190					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			AGAATGAGTTCCCTGTCATCG	0.612													16	20	---	---	---	---	PASS	T	101528975	T	T	101528975	2	4	4	1	0	0	0	0	0	0	0	1	9032	854	30	2		2	LRRK1	15	101528975	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	707477	101528975	1002417	2907	3498										
LRRK1	79705	broad.mit.edu	37	chr15	101565079	101565079	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccactgtcaaccagtgcttCttcacggacaaggccctgta	9	14	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:101565079C>T	uc002bwr.2	+	16	2458	c.2139C>T	c.(2137-2139)TTC>TTT	p.F713F	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	713	Roc.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			ACCAGTGCTTCTTCACGGACA	0.612													32	70	---	---	---	---	PASS	T	101565079	T	T	101565079	2	4	4	1	0	0	0	0	0	0	0	1	9032	912	32	2		2	LRRK1	15	101565079	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	36104	101565079	966313	2908	3499										
PCSK6	5046	broad.mit.edu	37	chr15	101872087	101872087	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcctcatcttcaggaacttCcacctgggagggtgacaggg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:101872087C>T	uc002bwy.2	-	15	2322	c.2008G>A	c.(2008-2010)GAA>AAA	p.E670K	PCSK6_uc010bpd.2_Missense_Mutation_p.E466K|PCSK6_uc010bpe.2_Missense_Mutation_p.E670K|PCSK6_uc002bxa.2_Missense_Mutation_p.E670K|PCSK6_uc002bxb.2_Missense_Mutation_p.E670K	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	670					glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TCAGGAACTTCCACCTGGGAG	0.557													8	9	---	---	---	---	PASS	T	101872087	T	T	101872087	3	4	4	1	0	0	0	0	1	0	0	0	11604	864	30	2	1166	2	PCSK6	15	101872087	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	307008	101872087	659305	2909	3500	136	2								
PCSK6	5046	broad.mit.edu	37	chr15	101872088	101872088	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctcatcttcaggaacttcCacctgggagggtgacagggc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:101872088C>T	uc002bwy.2	-	15	2321	c.2007G>A	c.(2005-2007)GTG>GTA	p.V669V	PCSK6_uc010bpd.2_Silent_p.V465V|PCSK6_uc010bpe.2_Silent_p.V669V|PCSK6_uc002bxa.2_Silent_p.V669V|PCSK6_uc002bxb.2_Silent_p.V669V	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	669					glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CAGGAACTTCCACCTGGGAGG	0.562													8	9	---	---	---	---	PASS	T	101872088	T	T	101872088	2	4	4	1	0	0	0	0	0	0	0	1	11604	581	21	3		3	PCSK6	15	101872088	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	101872088	659304	2910	3501	136	2								
PCSK6	5046	broad.mit.edu	37	chr15	101922317	101922317	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgggtctcttgtccgaggcGgccacacacatgtgctgcga	13	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:101922317G>A	uc002bwy.2	-	12	1826	c.1512C>T	c.(1510-1512)GCC>GCT	p.A504A	PCSK6_uc010bpd.2_Intron|PCSK6_uc010bpe.2_Silent_p.A504A|PCSK6_uc002bxa.2_Silent_p.A504A|PCSK6_uc002bxb.2_Silent_p.A504A|PCSK6_uc002bxc.1_Silent_p.A504A|PCSK6_uc002bxd.1_Silent_p.A504A|PCSK6_uc002bxe.2_Silent_p.A504A|PCSK6_uc002bxf.1_Silent_p.A4A	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	504	Homo B/P.				glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGTCCGAGGCGGCCACACACA	0.557													5	15	---	---	---	---	PASS	A	101922317	A	A	101922317	2	1	4	1	0	0	0	0	0	0	0	1	11604	1103	39	1		1	PCSK6	15	101922317	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	50229	101922317	609075	2911	3502										
TARSL2	123283	broad.mit.edu	37	chr15	102242492	102242492	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcttcctcttggaacttttCccagtctctcatcatcttgt	5	13	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:102242492C>T	uc002bxm.2	-	9	1226	c.1171G>A	c.(1171-1173)GAA>AAA	p.E391K	TARSL2_uc002bxl.2_5'UTR|TARSL2_uc010usi.1_RNA	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2	391					threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGGAACTTTTCCCAGTCTCTC	0.428													28	74	---	---	---	---	PASS	T	102242492	T	T	102242492	3	4	4	1	0	0	0	0	1	0	0	0	15558	864	30	2	1281	2	TARSL2	15	102242492	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	320175	102242492	288900	2912	3503										
OR4F6	390648	broad.mit.edu	37	chr15	102346096	102346096	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaccctcgtttacagtccccCatgtacttcctgctggccaa	7	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr15:102346096C>T	uc010utr.1	+	1	174	c.174C>T	c.(172-174)CCC>CCT	p.P58P		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			TACAGTCCCCCATGTACTTCC	0.458													41	93	---	---	---	---	PASS	T	102346096	T	T	102346096	2	4	4	1	0	0	0	0	0	0	0	1	11066	581	21	3		3	OR4F6	15	102346096	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	103604	102346096	185296	2913	3504										
ITFG3	83986	broad.mit.edu	37	chr16	304623	304623	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgtcgtctcattcgtcatcCcgtgtccagaccggccggcg	11	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:304623C>T	uc002cgf.2	+	3	406	c.211C>T	c.(211-213)CCG>TCG	p.P71S	ITFG3_uc010bqr.2_Intron|ITFG3_uc002cgg.2_Missense_Mutation_p.P71S|ITFG3_uc010uud.1_RNA|ITFG3_uc002cgh.2_Missense_Mutation_p.P71S	NM_032039	NP_114428	Q9H0X4	ITFG3_HUMAN	integrin alpha FG-GAP repeat containing 3	71	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1		all_cancers(16;0.000129)|all_epithelial(16;0.000206)|Hepatocellular(16;0.00264)|Lung NSC(18;0.0626)|all_lung(18;0.13)				ATTCGTCATCCCGTGTCCAGA	0.612													70	49	---	---	---	---	PASS	T	304623	T	T	304623	3	4	4	1	0	0	0	0	1	0	0	0	7871	623	22	3	213	3	ITFG3	16	304623	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08		304623	90050130	2914	3505										
CACNA1H	8912	broad.mit.edu	37	chr16	1257787	1257787	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagggcgatgccaacagatcCgacacggacgaggacaagac	13	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:1257787C>T	uc002cks.2	+	15	3329	c.3081C>T	c.(3079-3081)TCC>TCT	p.S1027S	CACNA1H_uc002ckt.2_Silent_p.S1027S|CACNA1H_uc002cku.2_5'Flank|CACNA1H_uc010brj.2_5'Flank|CACNA1H_uc002ckv.2_5'Flank	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1027	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	CCAACAGATCCGACACGGACG	0.617													8	2	---	---	---	---	PASS	T	1257787	T	T	1257787	2	4	4	1	0	0	0	0	0	0	0	1	2545	639	23	1		1	CACNA1H	16	1257787	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	953164	1257787	89096966	2915	3506										
BAIAP3	8938	broad.mit.edu	37	chr16	1394101	1394101	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccagctccgagactacttcCctgccaccaacagcaccgct	7	19	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:1394101C>T	uc002clk.1	+	16	1570	c.1570C>T	c.(1570-1572)CCT>TCT	p.P524S	BAIAP3_uc002clj.2_Missense_Mutation_p.P506S|BAIAP3_uc010uuz.1_Missense_Mutation_p.P489S|BAIAP3_uc010uva.1_Missense_Mutation_p.P461S|BAIAP3_uc010uvc.1_Missense_Mutation_p.P453S	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	524					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				AGACTACTTCCCTGCCACCAA	0.682													4	7	---	---	---	---	PASS	T	1394101	T	T	1394101	3	4	4	1	0	0	0	0	1	0	0	0	1304	623	22	3	1632	3	BAIAP3	16	1394101	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	136314	1394101	88960652	2916	3507										
TELO2	9894	broad.mit.edu	37	chr16	1545551	1545551	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagaacttggccgagttcttCccccagaactacttccgcct	8	15	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:1545551C>T	uc002cly.2	+	3	831	c.540C>T	c.(538-540)TTC>TTT	p.F180F	TELO2_uc010uvg.1_Silent_p.F180F	NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	180						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				CCGAGTTCTTCCCCCAGAACT	0.672													25	13	---	---	---	---	PASS	T	1545551	T	T	1545551	2	4	4	1	0	0	0	0	0	0	0	1	15754	854	30	2		2	TELO2	16	1545551	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	151450	1545551	88809202	2917	3508										
CASKIN1	57524	broad.mit.edu	37	chr16	2236736	2236736	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgacaatggcctcgcccagGgaggacgggaagtagcccac	14	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:2236736G>A	uc010bsg.1	-	10	1052	c.1020C>T	c.(1018-1020)TCC>TCT	p.S340S		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	340	SH3.				signal transduction	cytoplasm				skin(2)	2						CCTCGCCCAGGGAGGACGGGA	0.667													6	24	---	---	---	---	PASS	A	2236736	A	A	2236736	2	1	4	1	0	0	0	0	0	0	0	1	2666	1219	43	3		3	CASKIN1	16	2236736	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	691185	2236736	88118017	2918	3509										
RNPS1	10921	broad.mit.edu	37	chr16	2312359	2312359	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catagcctttggacagatggGgatgcatcctttccacgggc	12	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:2312359G>A	uc002cpt.2	-	6	1142	c.596C>T	c.(595-597)CCC>CTC	p.P199L	RNPS1_uc002cpu.2_Missense_Mutation_p.P199L|RNPS1_uc002cpv.2_Missense_Mutation_p.P22L|RNPS1_uc002cpw.2_Missense_Mutation_p.P199L|RNPS1_uc002cpx.2_Missense_Mutation_p.P176L|RNPS1_uc010uwa.1_RNA	NM_080594	NP_542161	Q15287	RNPS1_HUMAN	RNA-binding protein S1, serine-rich domain	199	Necessary for interaction with PNN and exon-skipping.|Necessary for interaction with the cleaved p110 isoform of CDC2L1.|RRM.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|termination of RNA polymerase II transcription	cytosol|nuclear speck	mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(1)	1						GGACAGATGGGGATGCATCCT	0.488													12	43	---	---	---	---	PASS	A	2312359	A	A	2312359	3	1	4	1	0	0	0	0	1	0	0	0	13511	1232	43	3	333	3	RNPS1	16	2312359	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	75623	2312359	88042394	2919	3510										
ABCA3	21	broad.mit.edu	37	chr16	2376095	2376095	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaagggatgtaggcaagctCccaggtgtctcctggcggag	16	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:2376095C>T	uc002cpy.1	-	5	947	c.235G>A	c.(235-237)GAG>AAG	p.E79K	ABCA3_uc010bsk.1_Missense_Mutation_p.E79K|ABCA3_uc010bsl.1_Missense_Mutation_p.E79K|ABCA3_uc002cpz.1_Missense_Mutation_p.E79K	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	79					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				TAGGCAAGCTCCCAGGTGTCT	0.592													30	6	---	---	---	---	PASS	T	2376095	T	T	2376095	3	4	4	1	0	0	0	0	1	0	0	0	33	864	30	2	4995	2	ABCA3	16	2376095	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	63736	2376095	87978658	2920	3511										
NTN3	4917	broad.mit.edu	37	chr16	2522450	2522450	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctacgcagccaccgacctcCaggtgggcgggcgctgcaag	14	16	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:2522450C>T	uc002cqj.2	+	1	951	c.748C>T	c.(748-750)CAG>TAG	p.Q250*	TBC1D24_uc002cqk.2_5'Flank|TBC1D24_uc002cql.2_5'Flank	NM_006181	NP_006172	O00634	NET3_HUMAN	netrin 3 precursor	250	Laminin N-terminal.				axon guidance|muscle cell differentiation|positive regulation of muscle cell differentiation	proteinaceous extracellular matrix				central_nervous_system(1)	1						CACCGACCTCCAGGTGGGCGG	0.667													13	17	---	---	---	---	PASS	T	2522450	T	T	2522450	4	4	4	1	0	0	0	0	0	1	0	0	10701	595	21	3	750	3	NTN3	16	2522450	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	146355	2522450	87832303	2921	3512										
ZSCAN10	84891	broad.mit.edu	37	chr16	3140621	3140621	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttcttgtttaaattcctCcttgtctggggttctgcttc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:3140621C>T	uc002ctv.1	-	5	737	c.649G>A	c.(649-651)GAG>AAG	p.E217K	ZSCAN10_uc002cty.1_5'UTR|ZSCAN10_uc002ctw.1_Missense_Mutation_p.E135K|ZSCAN10_uc002ctx.1_Missense_Mutation_p.E145K	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	217					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						TTAAATTCCTCCTTGTCTGGG	0.562													7	24	---	---	---	---	PASS	T	3140621	T	T	3140621	3	4	4	1	0	0	0	0	1	0	0	0	18224	864	30	2	1532	2	ZSCAN10	16	3140621	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	618171	3140621	87214132	2922	3513	137	2								
ZSCAN10	84891	broad.mit.edu	37	chr16	3140622	3140622	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttcttgtttaaattcctcCttgtctggggttctgcttcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:3140622C>T	uc002ctv.1	-	5	736	c.648G>A	c.(646-648)AAG>AAA	p.K216K	ZSCAN10_uc002cty.1_5'UTR|ZSCAN10_uc002ctw.1_Silent_p.K134K|ZSCAN10_uc002ctx.1_Silent_p.K144K	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	216					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						TAAATTCCTCCTTGTCTGGGG	0.562													7	23	---	---	---	---	PASS	T	3140622	T	T	3140622	2	4	4	1	0	0	0	0	0	0	0	1	18224	680	24	3		3	ZSCAN10	16	3140622	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	3140622	87214131	2923	3514	137	2								
ZNF213	7760	broad.mit.edu	37	chr16	3188510	3188510	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgggggcacggaggcggcCgtctgttccccaggagcagc	19	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:3188510C>T	uc010uws.1	+	3	938	c.491C>T	c.(490-492)CCG>CTG	p.P164L	ZNF213_uc002cud.2_RNA|ZNF213_uc010btf.2_3'UTR|ZNF213_uc010bth.2_Missense_Mutation_p.P164L|ZNF213_uc010uwt.1_Missense_Mutation_p.P164L	NM_004220	NP_004211	O14771	ZN213_HUMAN	zinc finger protein 213	164					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CGGAGGCGGCCGTCTGTTCCC	0.687													8	5	---	---	---	---	PASS	T	3188510	T	T	3188510	3	4	4	1	0	0	0	0	1	0	0	0	17766	652	23	1	497	1	ZNF213	16	3188510	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	47888	3188510	87166243	2924	3515										
OR1F1	4992	broad.mit.edu	37	chr16	3254963	3254963	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaggtggaaagccttctcCacctgtggttctcacctggc	12	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:3254963C>T	uc010uwu.1	+	1	717	c.717C>T	c.(715-717)TCC>TCT	p.S239S		NM_012360	NP_036492	O43749	OR1F1_HUMAN	olfactory receptor, family 1, subfamily F,	239	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AAGCCTTCTCCACCTGTGGTT	0.493													51	25	---	---	---	---	PASS	T	3254963	T	T	3254963	2	4	4	1	0	0	0	0	0	0	0	1	10956	581	21	3		3	OR1F1	16	3254963	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	66453	3254963	87099790	2925	3516										
ZNF75A	7627	broad.mit.edu	37	chr16	3366913	3366913	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cattttgtccatttgacagcAttgtttgtgctccccaaacc	6	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:3366913A>G	uc002cut.3	+	5	628	c.102A>G	c.(100-102)GCA>GCG	p.A34A	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	34	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						ATTTGACAGCATTGTTTGTGC	0.443													7	44	---	---	---	---	PASS	G	3366913	G	G	3366913	2	3	4	1	0	0	0	0	0	0	0	1	18130	231	8	5		5	ZNF75A	16	3366913	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	111950	3366913	86987840	2926	3517										
BTBD12	84464	broad.mit.edu	37	chr16	3639381	3639381	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagtcgtcaattggaattgGggggtcactgtccagtgggg	17	7	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:3639381G>A	uc002cvp.2	-	12	4885	c.4258C>T	c.(4258-4260)CCA>TCA	p.P1420S		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1420	Interaction with MUS81.|Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						ATTGGAATTGGGGGGTCACTG	0.627								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				18	41	---	---	---	---	PASS	A	3639381	A	A	3639381	3	1	4	1	0	0	0	0	1	0	0	0	1540	1232	43	3	1262	3	BTBD12	16	3639381	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	272468	3639381	86715372	2927	3518										
BTBD12	84464	broad.mit.edu	37	chr16	3658604	3658604	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttggttaccctttgctttTtagtcctaggggcctggctg	11	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:3658604T>C	uc002cvp.2	-	2	989	c.362A>G	c.(361-363)AAA>AGA	p.K121R	BTBD12_uc002cvq.1_Missense_Mutation_p.K121R	NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	121	Interaction with C20orf94, ERCC4 and MSH2.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						CCTTTGCTTTTTAGTCCTAGG	0.542								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				14	29	---	---	---	---	PASS	C	3658604	C	C	3658604	3	2	4	1	0	0	0	0	1	0	0	0	1540	1841	64	5	5198	5	BTBD12	16	3658604	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	19223	3658604	86696149	2928	3519										
CORO7	79585	broad.mit.edu	37	chr16	4410973	4410973	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggccctgcagcttcagccGatcagctccagcctgaaggt	12	14	2	1	rs140152390		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:4410973G>A	uc002cwh.3	-	19	2008	c.1888C>T	c.(1888-1890)CGG>TGG	p.R630W	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Missense_Mutation_p.R630W|CORO7_uc002cwg.3_Missense_Mutation_p.R410W|CORO7_uc010uxh.1_Missense_Mutation_p.R612W|CORO7_uc010uxi.1_Missense_Mutation_p.R545W|CORO7_uc002cwi.1_Missense_Mutation_p.R410W|CORO7_uc010uxj.1_RNA	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	630	WD 6.					cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						AGCTTCAGCCGATCAGCTCCA	0.443													22	20	---	---	---	---	PASS	A	4410973	A	A	4410973	3	1	4	1	0	0	0	0	1	0	0	0	3759	1057	37	2	929	2	CORO7	16	4410973	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	752369	4410973	85943780	2929	3520										
SEPT12	124404	broad.mit.edu	37	chr16	4833651	4833651	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcccgggcatccagatcaccCtgcgcctgaaggcctctcgc	11	18	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:4833651C>T	uc002cxq.2	-	6	770	c.629G>A	c.(628-630)AGG>AAG	p.R210K	SEPT12_uc002cxr.2_Missense_Mutation_p.R164K|SEPT12_uc010bty.2_RNA	NM_144605	NP_653206	Q8IYM1	SEP12_HUMAN	septin 12 isoform 2	210					cell cycle|cell division	cleavage furrow|midbody|perinuclear region of cytoplasm|septin complex|spindle|stress fiber	GDP binding|GTP binding|phosphatidylinositol binding|protein homodimerization activity			skin(1)	1						CCAGATCACCCTGCGCCTGAA	0.657													12	35	---	---	---	---	PASS	T	4833651	T	T	4833651	3	4	4	1	0	0	0	0	1	0	0	0	14062	695	24	3	467	3	SEPT12	16	4833651	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	422678	4833651	85521102	2930	3521										
UBN1	29855	broad.mit.edu	37	chr16	4924219	4924219	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgttttcctttaggaatcgtCtacgaagcctgataaaaagg	9	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:4924219C>T	uc002cyb.2	+	15	2147	c.1808C>T	c.(1807-1809)TCT>TTT	p.S603F	UBN1_uc010uxw.1_Missense_Mutation_p.S603F|UBN1_uc002cyc.2_Missense_Mutation_p.S603F	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	603					chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						TAGGAATCGTCTACGAAGCCT	0.458													66	43	---	---	---	---	PASS	T	4924219	T	T	4924219	3	4	4	1	0	0	0	0	1	0	0	0	16889	913	32	2	1862	2	UBN1	16	4924219	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	90568	4924219	85430534	2931	3522										
C16orf89	146556	broad.mit.edu	37	chr16	5112524	5112524	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccccacgcgcaggctcagcGgctgcagcaggggctcctgg	15	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:5112524G>A	uc010bud.2	-	2	462	c.374C>T	c.(373-375)CCG>CTG	p.P125L	ALG1_uc002cyj.2_Intron|C16orf89_uc002cyk.3_Missense_Mutation_p.P125L	NM_152459	NP_689672	Q6UX73	CP089_HUMAN	hypothetical protein LOC146556 isoform 1	87						extracellular region				ovary(1)|skin(1)	2						CAGGCTCAGCGGCTGCAGCAG	0.562													24	8	---	---	---	---	PASS	A	5112524	A	A	5112524	3	1	4	1	0	0	0	0	1	0	0	0	1842	1116	39	1	1111	1	C16orf89	16	5112524	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	188305	5112524	85242229	2932	3523										
GRIN2A	2903	broad.mit.edu	37	chr16	9858202	9858202	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttccctgtggcacgtggcccGatttgacgtttctgaaatgt	11	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:9858202G>A	uc002czo.3	-	13	3747	c.3199C>T	c.(3199-3201)CGG>TGG	p.R1067W	GRIN2A_uc010uym.1_Missense_Mutation_p.R1067W|GRIN2A_uc010uyn.1_Missense_Mutation_p.R910W|GRIN2A_uc002czr.3_Missense_Mutation_p.R1067W	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1067	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CACGTGGCCCGATTTGACGTT	0.498													62	49	---	---	---	---	PASS	A	9858202	A	A	9858202	3	1	4	1	0	0	0	0	1	0	0	0	6779	1057	37	2	1199	2	GRIN2A	16	9858202	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4745678	9858202	80496551	2933	3524										
GRIN2A	2903	broad.mit.edu	37	chr16	9858517	9858517	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccacaaatgtttggagttCgttcatgttgtctccaaaaa	9	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:9858517C>T	uc002czo.3	-	13	3432	c.2884G>A	c.(2884-2886)GAA>AAA	p.E962K	GRIN2A_uc010uym.1_Missense_Mutation_p.E962K|GRIN2A_uc010uyn.1_Missense_Mutation_p.E805K|GRIN2A_uc002czr.3_Missense_Mutation_p.E962K	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	962	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding	p.E962K(1)		skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GTTTGGAGTTCGTTCATGTTG	0.438													22	48	---	---	---	---	PASS	T	9858517	T	T	9858517	3	4	4	1	0	0	0	0	1	0	0	0	6779	893	31	2	1514	2	GRIN2A	16	9858517	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	315	9858517	80496236	2934	3525										
GRIN2A	2903	broad.mit.edu	37	chr16	9934562	9934562	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaaccatgacactgattccCgtttccacaaagggcacaga	8	12	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:9934562C>T	uc002czo.3	-	7	2141	c.1593G>A	c.(1591-1593)ACG>ACA	p.T531T	GRIN2A_uc010uym.1_Silent_p.T531T|GRIN2A_uc010uyn.1_Silent_p.T374T|GRIN2A_uc002czr.3_Silent_p.T531T	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	531	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CACTGATTCCCGTTTCCACAA	0.468													29	20	---	---	---	---	PASS	T	9934562	T	T	9934562	2	4	4	1	0	0	0	0	0	0	0	1	6779	639	23	1		1	GRIN2A	16	9934562	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	76045	9934562	80420191	2935	3526										
TEKT5	146279	broad.mit.edu	37	chr16	10788716	10788716	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taactggcggtctgagtagtCccaagaaactccatcctccc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:10788716C>T	uc002czz.1	-	1	87	c.15G>A	c.(13-15)GGG>GGA	p.G5G		NM_144674	NP_653275	Q96M29	TEKT5_HUMAN	tektin 5	5					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2						TCTGAGTAGTCCCAAGAAACT	0.547													20	12	---	---	---	---	PASS	T	10788716	T	T	10788716	2	4	4	1	0	0	0	0	0	0	0	1	15753	842	30	2		2	TEKT5	16	10788716	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	854154	10788716	79566037	2936	3527	138	2								
TEKT5	146279	broad.mit.edu	37	chr16	10788717	10788717	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aactggcggtctgagtagtcCcaagaaactccatcctccct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:10788717C>T	uc002czz.1	-	1	86	c.14G>A	c.(13-15)GGG>GAG	p.G5E		NM_144674	NP_653275	Q96M29	TEKT5_HUMAN	tektin 5	5					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2						CTGAGTAGTCCCAAGAAACTC	0.552													20	12	---	---	---	---	PASS	T	10788717	T	T	10788717	3	4	4	1	0	0	0	0	1	0	0	0	15753	623	22	3	1471	3	TEKT5	16	10788717	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	10788717	79566036	2937	3528	138	2								
NUBP1	4682	broad.mit.edu	37	chr16	10855685	10855685	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggacttggaggtccctctCctcggcagagtgcccctgga	13	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:10855685C>A	uc002daa.1	+	9	812	c.789C>A	c.(787-789)CTC>CTA	p.L263L	FAM18A_uc010uyr.1_Intron|FAM18A_uc010uys.1_Intron|FAM18A_uc010uyt.1_Intron|FAM18A_uc010bun.2_Intron|FAM18A_uc010uyu.1_Intron|FAM18A_uc002dad.3_Intron|NUBP1_uc010bum.1_Silent_p.L128L|NUBP1_uc002dab.1_Silent_p.L252L	NM_002484	NP_002475	P53384	NUBP1_HUMAN	nucleotide binding protein 1	263					cell growth|cellular iron ion homeostasis|iron-sulfur cluster assembly	cytosol	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding|nucleoside-triphosphatase activity|protein binding			ovary(1)|skin(1)	2						AGGTCCCTCTCCTCGGCAGAG	0.622													13	7	---	---	---	---	PASS	A	10855685	A	A	10855685	2	1	4	1	0	0	0	0	0	0	0	1	10715	842	30	2		2	NUBP1	16	10855685	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	66968	10855685	79499068	2938	3529										
TNP2	7142	broad.mit.edu	37	chr16	11362727	11362727	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttaaagggtacctgagctCcgcgtcttggttttgtacac	10	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:11362727C>T	uc002das.2	-	1	434	c.393G>A	c.(391-393)CGG>CGA	p.R131R	C16orf75_uc002daq.1_Intron	NM_005425	NP_005416	Q05952	STP2_HUMAN	transition protein 2 (during histone to	131					cell differentiation|multicellular organismal development|spermatogenesis	nucleosome|nucleus	DNA binding				0						TACCTGAGCTCCGCGTCTTGG	0.552													20	6	---	---	---	---	PASS	T	11362727	T	T	11362727	2	4	4	1	0	0	0	0	0	0	0	1	16331	842	30	2		2	TNP2	16	11362727	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	507042	11362727	78992026	2939	3530										
LITAF	9516	broad.mit.edu	37	chr16	11650521	11650521	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagccactgtctcttcataGgatggaggtgcggatggtgc	14	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:11650521G>A	uc002daz.2	-	2	299	c.66C>T	c.(64-66)TCC>TCT	p.S22S	LITAF_uc002dba.2_Silent_p.S22S|LITAF_uc002dbb.2_Silent_p.S22S|LITAF_uc002dbc.2_Silent_p.S22S|LITAF_uc002dbd.2_Silent_p.S22S|LITAF_uc002dbe.3_Silent_p.S22S	NM_004862	NP_004853	Q99732	LITAF_HUMAN	lipopolysaccharide-induced TNF-alpha factor	22	WW-binding.				apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|lysosomal membrane	signal transducer activity|WW domain binding			liver(1)	1						TCTCTTCATAGGATGGAGGTG	0.547													9	15	---	---	---	---	PASS	A	11650521	A	A	11650521	2	1	4	1	0	0	0	0	0	0	0	1	8830	987	35	3		3	LITAF	16	11650521	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	287794	11650521	78704232	2940	3531										
MYH11	4629	broad.mit.edu	37	chr16	15829337	15829337	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagccttgttcctggcggccCgctctgagtccaggtcctcc	11	17	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:15829337C>T	uc002ddy.2	-	26	3499	c.3392G>A	c.(3391-3393)CGG>CAG	p.R1131Q	MYH11_uc002ddv.2_Missense_Mutation_p.R1138Q|MYH11_uc002ddw.2_Missense_Mutation_p.R1131Q|MYH11_uc002ddx.2_Missense_Mutation_p.R1138Q|MYH11_uc010bvg.2_Missense_Mutation_p.R963Q	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1131	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						CCTGGCGGCCCGCTCTGAGTC	0.582			T	CBFB	AML								51	30	---	---	---	---	PASS	T	15829337	T	T	15829337	3	4	4	1	0	0	0	0	1	0	0	0	10031	652	23	1	2625	1	MYH11	16	15829337	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4178816	15829337	74525416	2941	3532										
XYLT1	64131	broad.mit.edu	37	chr16	17353133	17353133	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcaccggggcctttcccagGgaatgtatgtccttttcctt	9	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:17353133G>A	uc002dfa.2	-	3	710	c.625C>T	c.(625-627)CCT>TCT	p.P209S		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	209	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						CCTTTCCCAGGGAATGTATGT	0.577													20	68	---	---	---	---	PASS	A	17353133	A	A	17353133	3	1	4	1	0	0	0	0	1	0	0	0	17460	1232	43	3	2294	3	XYLT1	16	17353133	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1523796	17353133	73001620	2942	3533										
ARL6IP1	23204	broad.mit.edu	37	chr16	18810056	18810056	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaccacacccatgatggcaGgtggaaaccaggctctttcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:18810056G>A	uc002dfl.1	-	2	206	c.137C>T	c.(136-138)CCT>CTT	p.P46L	ARL6IP1_uc010van.1_Missense_Mutation_p.P17L|ARL6IP1_uc010bvz.1_RNA	NM_015161	NP_055976	Q15041	AR6P1_HUMAN	ADP-ribosylation factor-like 6 interacting	46	Helical; (Potential).					integral to membrane	protein binding				0						CATGATGGCAGGTGGAAACCA	0.433													26	67	---	---	---	---	PASS	A	18810056	A	A	18810056	3	1	4	1	0	0	0	0	1	0	0	0	942	1000	35	3	494	3	ARL6IP1	16	18810056	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1456923	18810056	71544697	2943	3534	139	2								
ARL6IP1	23204	broad.mit.edu	37	chr16	18810057	18810057	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaccacacccatgatggcagGtggaaaccaggctctttccc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:18810057G>A	uc002dfl.1	-	2	205	c.136C>T	c.(136-138)CCT>TCT	p.P46S	ARL6IP1_uc010van.1_Missense_Mutation_p.P17S|ARL6IP1_uc010bvz.1_RNA	NM_015161	NP_055976	Q15041	AR6P1_HUMAN	ADP-ribosylation factor-like 6 interacting	46	Helical; (Potential).					integral to membrane	protein binding				0						ATGATGGCAGGTGGAAACCAG	0.438													26	67	---	---	---	---	PASS	A	18810057	A	A	18810057	3	1	4	1	0	0	0	0	1	0	0	0	942	1261	44	3	495	3	ARL6IP1	16	18810057	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	18810057	71544696	2944	3535	139	2								
SMG1	23049	broad.mit.edu	37	chr16	18844347	18844347	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcctgaagagattccactaGagtctgcaggggaacgccat	13	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:18844347G>A	uc002dfm.2	-	51	9070	c.8707C>T	c.(8707-8709)CTA>TTA	p.L2903L	SMG1_uc010bwb.2_Silent_p.L2763L|SMG1_uc010bwa.2_Silent_p.L1634L	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2903					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						GATTCCACTAGAGTCTGCAGG	0.468													37	125	---	---	---	---	PASS	A	18844347	A	A	18844347	2	1	4	1	0	0	0	0	0	0	0	1	14795	933	33	2		2	SMG1	16	18844347	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	34290	18844347	71510406	2945	3536										
TMC7	79905	broad.mit.edu	37	chr16	19068005	19068005	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagcctttgcagttcctttCttcatgattatttggtgagt	9	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:19068005C>T	uc002dfq.2	+	14	2143	c.2013C>T	c.(2011-2013)TTC>TTT	p.F671F	TMC7_uc002dfp.2_Silent_p.F671F|TMC7_uc010vap.1_Silent_p.F561F	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	671	Helical; (Potential).					integral to membrane				skin(2)|ovary(1)	3						CAGTTCCTTTCTTCATGATTA	0.577													24	22	---	---	---	---	PASS	T	19068005	T	T	19068005	2	4	4	1	0	0	0	0	0	0	0	1	15987	912	32	2		2	TMC7	16	19068005	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	223658	19068005	71286748	2946	3537										
COQ7	10229	broad.mit.edu	37	chr16	19083408	19083408	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggctgtcctgggtcggaccAgcgtcgggccagtcattcag	15	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:19083408A>T	uc002dfr.2	+	2	292	c.232A>T	c.(232-234)AGC>TGC	p.S78C	COQ7_uc002dfs.2_Missense_Mutation_p.S64C	NM_016138	NP_057222	Q99807	COQ7_HUMAN	COQ7 protein	78	1.|2 X approximate tandem repeats.				ubiquinone biosynthetic process	mitochondrial inner membrane|nucleus	oxidoreductase activity|transition metal ion binding			skin(1)	1						GGGTCGGACCAGCGTCGGGCC	0.557											OREG0023656	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	48	---	---	---	---	PASS	T	19083408	T	T	19083408	3	4	4	1	0	0	0	0	1	0	0	0	3750	188	7	5	238	5	COQ7	16	19083408	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	15403	19083408	71271345	2947	3538										
SYT17	51760	broad.mit.edu	37	chr16	19195301	19195301	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtttgaggagcgctacacCttcgagatccccttcctgga	11	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:19195301C>T	uc002dfw.2	+	5	1114	c.783C>T	c.(781-783)ACC>ACT	p.T261T	SYT17_uc002dfx.2_Silent_p.T200T|SYT17_uc002dfy.2_Silent_p.T257T|SYT17_uc002dfv.1_Silent_p.T200T	NM_016524	NP_057608	Q9BSW7	SYT17_HUMAN	B/K protein	261	C2 1.					membrane|synaptic vesicle	transporter activity			ovary(1)	1						AGCGCTACACCTTCGAGATCC	0.557													27	78	---	---	---	---	PASS	T	19195301	T	T	19195301	2	4	4	1	0	0	0	0	0	0	0	1	15470	668	24	3		3	SYT17	16	19195301	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	111893	19195301	71159452	2948	3539										
ACSM2A	123876	broad.mit.edu	37	chr16	20471551	20471551	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctgcagtggggccaccagGaagtgccggccaagtttaac	13	13	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:20471551G>A	uc010bwe.2	+	3	354	c.115G>A	c.(115-117)GAA>AAA	p.E39K	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Intron|ACSM2A_uc002dhf.3_Missense_Mutation_p.E39K|ACSM2A_uc002dhg.3_Missense_Mutation_p.E39K|ACSM2A_uc010vay.1_Intron	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	39					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						GGGCCACCAGGAAGTGCCGGC	0.507													11	14	---	---	---	---	PASS	A	20471551	A	A	20471551	3	1	4	1	0	0	0	0	1	0	0	0	183	1175	41	2	117	2	ACSM2A	16	20471551	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1276250	20471551	69883202	2949	3540										
ACSM2A	123876	broad.mit.edu	37	chr16	20494415	20494415	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggtcctggcctcgcagttCctgtcccatgacccagaaca	10	15	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:20494415C>T	uc010bwe.2	+	14	1784	c.1545C>T	c.(1543-1545)TTC>TTT	p.F515F	ACSM2A_uc002dhf.3_Silent_p.F515F|ACSM2A_uc002dhg.3_Silent_p.F515F|ACSM2A_uc010vay.1_Silent_p.F436F|ACSM2A_uc002dhh.3_Silent_p.F145F	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	515					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CCTCGCAGTTCCTGTCCCATG	0.507													25	67	---	---	---	---	PASS	T	20494415	T	T	20494415	2	4	4	1	0	0	0	0	0	0	0	1	183	854	30	2		2	ACSM2A	16	20494415	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	22864	20494415	69860338	2950	3541										
ACSM2A	123876	broad.mit.edu	37	chr16	20494431	20494431	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agttcctgtcccatgacccaGaacagctcaccaaggagctg	9	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:20494431G>A	uc010bwe.2	+	14	1800	c.1561G>A	c.(1561-1563)GAA>AAA	p.E521K	ACSM2A_uc002dhf.3_Missense_Mutation_p.E521K|ACSM2A_uc002dhg.3_Missense_Mutation_p.E521K|ACSM2A_uc010vay.1_Missense_Mutation_p.E442K|ACSM2A_uc002dhh.3_Missense_Mutation_p.E151K	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	521					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CCATGACCCAGAACAGCTCAC	0.512													28	54	---	---	---	---	PASS	A	20494431	A	A	20494431	3	1	4	1	0	0	0	0	1	0	0	0	183	943	33	2	1607	2	ACSM2A	16	20494431	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	16	20494431	69860322	2951	3542										
ACSM2B	348158	broad.mit.edu	37	chr16	20548624	20548624	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcttccactccttgtctcGaagtttggttcgttgaattt	7	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:20548624G>A	uc002dhj.3	-	15	1900	c.1690C>T	c.(1690-1692)CGA>TGA	p.R564*	ACSM2B_uc002dhk.3_Nonsense_Mutation_p.R564*	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	564					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						TCCTTGTCTCGAAGTTTGGTT	0.463													48	136	---	---	---	---	PASS	A	20548624	A	A	20548624	4	1	4	1	0	0	0	0	0	1	0	0	184	1066	37	2	47	2	ACSM2B	16	20548624	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	54193	20548624	69806129	2952	3543										
DCUN1D3	123879	broad.mit.edu	37	chr16	20873630	20873630	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcggcattggacttggactcCctcccagcatctcccgagga	10	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:20873630C>T	uc002dhz.2	-	2	372	c.231G>A	c.(229-231)AGG>AGA	p.R77R	ERI2_uc002dht.3_Intron	NM_173475	NP_775746	Q8IWE4	DCNL3_HUMAN	DCN1, defective in cullin neddylation 1, domain	77					negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|positive regulation of apoptosis|response to gamma radiation|response to UV-C	perinuclear region of cytoplasm				ovary(2)	2				GBM - Glioblastoma multiforme(48;0.249)		ACTTGGACTCCCTCCCAGCAT	0.572													29	76	---	---	---	---	PASS	T	20873630	T	T	20873630	2	4	4	1	0	0	0	0	0	0	0	1	4315	622	22	3		3	DCUN1D3	16	20873630	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	325006	20873630	69481123	2953	3544										
DNAH3	55567	broad.mit.edu	37	chr16	20966324	20966324	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcattggtcattttgattcCattctggagaatgctgactg	9	8	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:20966324C>T	uc010vbe.1	-	55	10882	c.10882G>A	c.(10882-10884)GGA>AGA	p.G3628R	DNAH3_uc010vbd.1_Missense_Mutation_p.G1063R	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3628	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ATTTTGATTCCATTCTGGAGA	0.483													10	42	---	---	---	---	PASS	T	20966324	T	T	20966324	3	4	4	1	0	0	0	0	1	0	0	0	4603	603	21	3	1499	3	DNAH3	16	20966324	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	92694	20966324	69388429	2954	3545										
DNAH3	55567	broad.mit.edu	37	chr16	20975616	20975616	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatcttggagacccaaggggGtgatcatgaagttgaggaga	16	5	2	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:20975616G>A	uc010vbe.1	-	53	9590	c.9590C>T	c.(9589-9591)ACC>ATC	p.T3197I	DNAH3_uc010vbd.1_Missense_Mutation_p.T632I	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3197	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ACCCAAGGGGGTGATCATGAA	0.478													11	34	---	---	---	---	PASS	A	20975616	A	A	20975616	3	1	4	1	0	0	0	0	1	0	0	0	4603	1261	44	3	2799	3	DNAH3	16	20975616	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	9292	20975616	69379137	2955	3546										
DNAH3	55567	broad.mit.edu	37	chr16	21049287	21049287	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacaggcggtaggtcgcaacGatcttctgggcgagactaga	14	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:21049287G>A	uc010vbe.1	-	34	4746	c.4746C>T	c.(4744-4746)ATC>ATT	p.I1582I		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1582	AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		AGGTCGCAACGATCTTCTGGG	0.552													7	9	---	---	---	---	PASS	A	21049287	A	A	21049287	2	1	4	1	0	0	0	0	0	0	0	1	4603	1048	37	2		2	DNAH3	16	21049287	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	73671	21049287	69305466	2956	3547										
ZP2	7783	broad.mit.edu	37	chr16	21208822	21208822	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagtgatttgacacagtcctTttctcgtacaggtagtagat	9	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:21208822T>A	uc002dii.2	-	19	2217	c.2217A>T	c.(2215-2217)AAA>AAT	p.K739N	ZP2_uc010bwn.1_Missense_Mutation_p.K769N	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	739	Cytoplasmic (Potential).				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		ACACAGTCCTTTTCTCGTACA	0.438													15	33	---	---	---	---	PASS	A	21208822	A	A	21208822	3	1	4	1	0	0	0	0	1	0	0	0	18213	1838	64	5	24	5	ZP2	16	21208822	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	159535	21208822	69145931	2957	3548										
VWA3A	146177	broad.mit.edu	37	chr16	22161125	22161125	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagttttaacctgctcagctTtgcagagagctttcagtcat	8	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:22161125T>A	uc010vbq.1	+	29	3098	c.3002T>A	c.(3001-3003)TTT>TAT	p.F1001Y	VWA3A_uc010bxd.2_RNA|VWA3A_uc002dkg.3_Missense_Mutation_p.F79Y|VWA3A_uc010bxe.1_Missense_Mutation_p.F103Y	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	1001	VWFA 2.					extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		CTGCTCAGCTTTGCAGAGAGC	0.532													4	21	---	---	---	---	PASS	A	22161125	A	A	22161125	3	1	4	1	0	0	0	0	1	0	0	0	17237	1841	64	5	3116	5	VWA3A	16	22161125	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	952303	22161125	68193628	2958	3549										
PLK1	5347	broad.mit.edu	37	chr16	23700940	23700940	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctacggacctggttccgcacCcgcagcgccatcatcctgca	9	18	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:23700940C>T	uc002dlz.1	+	9	1604	c.1551C>T	c.(1549-1551)ACC>ACT	p.T517T		NM_005030	NP_005021	P53350	PLK1_HUMAN	polo-like kinase 1	517	POLO box 2.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G2/M transition DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic prophase|negative regulation of cyclin-dependent protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|protein localization to chromatin|protein ubiquitination|regulation of mitotic anaphase|regulation of protein binding	centrosome|condensed nuclear chromosome outer kinetochore|cytosol|nucleoplasm|spindle microtubule|spindle midzone|spindle pole	anaphase-promoting complex binding|ATP binding|polo kinase kinase activity|protein kinase binding			lung(1)|skin(1)	2				GBM - Glioblastoma multiforme(48;0.0156)		GGTTCCGCACCCGCAGCGCCA	0.627													4	11	---	---	---	---	PASS	T	23700940	T	T	23700940	2	4	4	1	0	0	0	0	0	0	0	1	12094	610	22	3		3	PLK1	16	23700940	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1539815	23700940	66653813	2959	3550										
PRKCB	5579	broad.mit.edu	37	chr16	24196821	24196821	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaagatgaactcttccaatCcatcatggaacacaacgtag	7	10	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:24196821C>T	uc002dmd.2	+	15	1852	c.1655C>T	c.(1654-1656)TCC>TTC	p.S552F	PRKCB_uc002dme.2_Missense_Mutation_p.S552F	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	552	Protein kinase.				apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	CTCTTCCAATCCATCATGGAA	0.502													12	45	---	---	---	---	PASS	T	24196821	T	T	24196821	3	4	4	1	0	0	0	0	1	0	0	0	12508	855	30	2	1713	2	PRKCB	16	24196821	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	495881	24196821	66157932	2960	3551										
RBBP6	5930	broad.mit.edu	37	chr16	24567164	24567164	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatgaagaaacctctaggtCcaccacctccatcttacacg	5	15	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:24567164C>T	uc002dmh.2	+	6	1500	c.460C>T	c.(460-462)CCA>TCA	p.P154S	RBBP6_uc010vcb.1_Missense_Mutation_p.P21S|RBBP6_uc002dmi.2_Missense_Mutation_p.P154S|RBBP6_uc010bxr.2_Missense_Mutation_p.P154S|RBBP6_uc002dmk.2_Missense_Mutation_p.P21S	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	154					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		ACCTCTAGGTCCACCACCTCC	0.398													8	32	---	---	---	---	PASS	T	24567164	T	T	24567164	3	4	4	1	0	0	0	0	1	0	0	0	13103	855	30	2	536	2	RBBP6	16	24567164	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	370343	24567164	65787589	2961	3552										
TNRC6A	27327	broad.mit.edu	37	chr16	24831651	24831651	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccttcgtataggtggaggaTggggaaattctgacgccaga	14	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:24831651T>A	uc002dmm.2	+	22	5386	c.5272T>A	c.(5272-5274)TGG>AGG	p.W1758R	TNRC6A_uc010bxs.2_Missense_Mutation_p.W1505R|TNRC6A_uc002dmn.2_Missense_Mutation_p.W1456R|TNRC6A_uc002dmo.2_Missense_Mutation_p.W1397R|TNRC6A_uc002dmr.2_5'Flank	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1758	Sufficient for interaction with EIF2C2.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		AGGTGGAGGATGGGGAAATTC	0.502													15	36	---	---	---	---	PASS	A	24831651	A	A	24831651	3	1	4	1	0	0	0	0	1	0	0	0	16337	1464	51	5	5358	5	TNRC6A	16	24831651	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	264487	24831651	65523102	2962	3553										
IL4R	3566	broad.mit.edu	37	chr16	27363934	27363934	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caccctgaagtctgggatttCctacagggcacgggtgaggg	15	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:27363934C>T	uc002don.2	+	7	829	c.587C>T	c.(586-588)TCC>TTC	p.S196F	IL4R_uc002dom.2_Missense_Mutation_p.S196F|IL4R_uc002dop.3_Missense_Mutation_p.S181F|IL4R_uc010bxy.2_Missense_Mutation_p.S196F|IL4R_uc002doo.2_Missense_Mutation_p.S36F	NM_000418	NP_000409	P24394	IL4RA_HUMAN	interleukin 4 receptor alpha chain isoform a	196	Extracellular (Potential).|Fibronectin type-III.				immune response|production of molecular mediator involved in inflammatory response	integral to plasma membrane	identical protein binding|interleukin-4 receptor activity|receptor signaling protein activity			ovary(1)|skin(1)	2						TCTGGGATTTCCTACAGGGCA	0.557													20	37	---	---	---	---	PASS	T	27363934	T	T	27363934	3	4	4	1	0	0	0	0	1	0	0	0	7698	855	30	2	605	2	IL4R	16	27363934	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2532283	27363934	62990819	2963	3554										
IL21R	50615	broad.mit.edu	37	chr16	27460557	27460557	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagctacctccgccagtggGtggtcattcctccgccactt	11	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:27460557G>A	uc002doq.1	+	9	1803	c.1570G>A	c.(1570-1572)GTG>ATG	p.V524M	IL21R_uc002dor.1_Missense_Mutation_p.V524M|IL21R_uc002dos.1_Missense_Mutation_p.V524M|uc002dot.2_RNA	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	524	Cytoplasmic (Potential).				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						CCGCCAGTGGGTGGTCATTCC	0.652			T	BCL6	NHL								4	9	---	---	---	---	PASS	A	27460557	A	A	27460557	3	1	4	1	0	0	0	0	1	0	0	0	7671	1261	44	3	1600	3	IL21R	16	27460557	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	96623	27460557	62894196	2964	3555										
GTF3C1	2975	broad.mit.edu	37	chr16	27506152	27506152	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggaggatgtcgctgacgaGagcccagccaaagccgaagt	15	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:27506152G>A	uc002dov.1	-	16	2750	c.2710C>T	c.(2710-2712)CTC>TTC	p.L904F	GTF3C1_uc002dou.2_Missense_Mutation_p.L904F	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	904						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TCGCTGACGAGAGCCCAGCCA	0.532													7	24	---	---	---	---	PASS	A	27506152	A	A	27506152	3	1	4	1	0	0	0	0	1	0	0	0	6872	942	33	2	3707	2	GTF3C1	16	27506152	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	45595	27506152	62848601	2965	3556										
RABEP2	79874	broad.mit.edu	37	chr16	28925737	28925737	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgccgaccccaccgccaagGgagaaggaggagatggaggc	16	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:28925737G>A	uc002drq.2	-	5	762	c.714C>T	c.(712-714)TCC>TCT	p.S238S	uc010vct.1_Intron|RABEP2_uc010vdf.1_Silent_p.S167S|RABEP2_uc010byn.2_Silent_p.S238S|RABEP2_uc002drr.2_Silent_p.S238S	NM_024816	NP_079092	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	238					endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3						CACCGCCAAGGGAGAAGGAGG	0.682													6	16	---	---	---	---	PASS	A	28925737	A	A	28925737	2	1	4	1	0	0	0	0	0	0	0	1	12962	1219	43	3		3	RABEP2	16	28925737	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1419585	28925737	61429016	2966	3557										
MVP	9961	broad.mit.edu	37	chr16	29855860	29855860	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acccccaagagacggccaagCtcttttcagtgccagacttt	8	14	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:29855860C>T	uc002dui.2	+	11	1765	c.1681C>T	c.(1681-1683)CTC>TTC	p.L561F	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc002duj.2_Missense_Mutation_p.L561F|MVP_uc010vea.1_Missense_Mutation_p.L155F	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	561					mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						GACGGCCAAGCTCTTTTCAGT	0.547													24	33	---	---	---	---	PASS	T	29855860	T	T	29855860	3	4	4	1	0	0	0	0	1	0	0	0	9996	797	28	3	1719	3	MVP	16	29855860	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	930123	29855860	60498893	2967	3558										
TAOK2	9344	broad.mit.edu	37	chr16	29998422	29998422	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctgccctgccagccagctCcctggactcctgtcccatgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:29998422C>T	uc002dva.1	+	16	3612	c.2829C>T	c.(2827-2829)CTC>CTT	p.L943L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Silent_p.L950L|TAOK2_uc002dvd.1_Silent_p.L770L	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	943	Leu-rich.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity	p.S943S(1)		ovary(1)	1						CCAGCCAGCTCCCTGGACTCC	0.657													21	54	---	---	---	---	PASS	T	29998422	T	T	29998422	2	4	4	1	0	0	0	0	0	0	0	1	15545	842	30	2		2	TAOK2	16	29998422	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	142562	29998422	60356331	2968	3559	140	2								
TAOK2	9344	broad.mit.edu	37	chr16	29998423	29998423	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgccctgccagccagctcCctggactcctgtcccatggc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:29998423C>T	uc002dva.1	+	16	3613	c.2830C>T	c.(2830-2832)CCT>TCT	p.P944S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Missense_Mutation_p.P951S|TAOK2_uc002dvd.1_Missense_Mutation_p.P771S	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	944	Leu-rich.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CAGCCAGCTCCCTGGACTCCT	0.652													22	53	---	---	---	---	PASS	T	29998423	T	T	29998423	3	4	4	1	0	0	0	0	1	0	0	0	15545	623	22	3	2888	3	TAOK2	16	29998423	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	29998423	60356330	2969	3560	140	2								
TAOK2	9344	broad.mit.edu	37	chr16	29998717	29998717	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccgaggcctcatgggtgttCccctgggccttggagctgcc	15	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:29998717C>T	uc002dva.1	+	16	3907	c.3124C>T	c.(3124-3126)CCC>TCC	p.P1042S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Missense_Mutation_p.P1049S|TAOK2_uc002dvd.1_Missense_Mutation_p.P869S	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	1042	Leu-rich.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CATGGGTGTTCCCCTGGGCCT	0.687													5	4	---	---	---	---	PASS	T	29998717	T	T	29998717	3	4	4	1	0	0	0	0	1	0	0	0	15545	855	30	2	3182	2	TAOK2	16	29998717	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	294	29998717	60356036	2970	3561										
GDPD3	79153	broad.mit.edu	37	chr16	30123683	30123683	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacgctcatgggtgtccttgGaaacctctggaacaggtcct	11	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:30123683G>A	uc002dwp.2	-	5	506	c.427C>T	c.(427-429)CCA>TCA	p.P143S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|GDPD3_uc002dwq.2_Missense_Mutation_p.P81S|LOC100271831_uc010vei.1_5'Flank	NM_024307	NP_077283	Q7L5L3	GDPD3_HUMAN	glycerophosphodiester phosphodiesterase domain	143	Extracellular (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0						GGTGTCCTTGGAAACCTCTGG	0.617											OREG0023731	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	31	---	---	---	---	PASS	A	30123683	A	A	30123683	3	1	4	1	0	0	0	0	1	0	0	0	6325	1174	41	2	553	2	GDPD3	16	30123683	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	124966	30123683	60231070	2971	3562										
SEPT1	1731	broad.mit.edu	37	chr16	30390855	30390855	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gactgcaaaagggatgctttCctggagggcagggggcaggg	19	7	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:30390855C>T	uc002dxy.2	-	9	848	c.661G>A	c.(661-663)GAA>AAA	p.E221K	SEPT1_uc002dxw.2_5'Flank|SEPT1_uc002dxx.2_Missense_Mutation_p.E46K	NM_052838	NP_443070	Q8WYJ6	SEPT1_HUMAN	septin 1	221					cell cycle|cell division	microtubule organizing center|septin complex	GTP binding|protein binding			ovary(1)	1			Colorectal(24;0.193)			GGGATGCTTTCCTGGAGGGCA	0.637													8	19	---	---	---	---	PASS	T	30390855	T	T	30390855	3	4	4	1	0	0	0	0	1	0	0	0	14059	869	30	2	458	2	SEPT1	16	30390855	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	267172	30390855	59963898	2972	3563										
ZNF764	92595	broad.mit.edu	37	chr16	30566770	30566770	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccatctccgagctctggcgGaagcagcgcccgcagtccgg	14	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:30566770G>A	uc002dyq.2	-	3	1053	c.972C>T	c.(970-972)TTC>TTT	p.F324F	ZNF764_uc002dyr.1_Silent_p.F323F	NM_033410	NP_219363	Q96H86	ZN764_HUMAN	zinc finger protein 764	324	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGCTCTGGCGGAAGCAGCGCC	0.731													5	6	---	---	---	---	PASS	A	30566770	A	A	30566770	2	1	4	1	0	0	0	0	0	0	0	1	18135	1165	41	2		2	ZNF764	16	30566770	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	175915	30566770	59787983	2973	3564										
ZNF785	146540	broad.mit.edu	37	chr16	30594078	30594078	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttcccacactccacgcaggGgaagggccggctgtcggagt	14	13	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:30594078G>A	uc002dyw.1	-	3	1099	c.1021C>T	c.(1021-1023)CCC>TCC	p.P341S	uc002dyu.2_RNA|ZNF785_uc002dyv.1_Missense_Mutation_p.P326S|ZNF785_uc010vez.1_Missense_Mutation_p.P306S	NM_152458	NP_689671	A8K8V0	ZN785_HUMAN	zinc finger protein 785	341	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCCACGCAGGGGAAGGGCCGG	0.672													5	28	---	---	---	---	PASS	A	30594078	A	A	30594078	3	1	4	1	0	0	0	0	1	0	0	0	18154	1232	43	3	200	3	ZNF785	16	30594078	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	27308	30594078	59760675	2974	3565										
SRCAP	10847	broad.mit.edu	37	chr16	30749570	30749570	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttaggggtcaagggactggtCggccaggacaaccaccaggc	15	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:30749570C>T	uc002dze.1	+	34	8594	c.8209C>T	c.(8209-8211)CGG>TGG	p.R2737W	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.R2532W	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2737	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			AGGGACTGGTCGGCCAGGACA	0.617													15	30	---	---	---	---	PASS	T	30749570	T	T	30749570	3	4	4	1	0	0	0	0	1	0	0	0	15134	875	31	2	8335	2	SRCAP	16	30749570	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	155492	30749570	59605183	2975	3566										
RNF40	9810	broad.mit.edu	37	chr16	30779730	30779730	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcttcaggaacgggaaggtCccagcctaggacctccacct	11	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:30779730C>T	uc002dzq.2	+	13	1981	c.1858C>T	c.(1858-1860)CCC>TCC	p.P620S	RNF40_uc010caa.2_Missense_Mutation_p.P620S|RNF40_uc010cab.2_Missense_Mutation_p.P520S|RNF40_uc010vfa.1_5'UTR|RNF40_uc002dzr.2_Missense_Mutation_p.P620S|RNF40_uc010vfb.1_Missense_Mutation_p.P312S|RNF40_uc010vfc.1_5'UTR	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	620					histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			ACGGGAAGGTCCCAGCCTAGG	0.622													13	28	---	---	---	---	PASS	T	30779730	T	T	30779730	3	4	4	1	0	0	0	0	1	0	0	0	13493	855	30	2	1904	2	RNF40	16	30779730	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	30160	30779730	59575023	2976	3567										
SETD1A	9739	broad.mit.edu	37	chr16	30977242	30977242	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagggatgcccatgtccttCcagatgcagacccagatgtt	12	11	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:30977242C>T	uc002ead.1	+	8	2726	c.2040C>T	c.(2038-2040)TTC>TTT	p.F680F		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	680					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						CCATGTCCTTCCAGATGCAGA	0.627													28	51	---	---	---	---	PASS	T	30977242	T	T	30977242	2	4	4	1	0	0	0	0	0	0	0	1	14130	854	30	2		2	SETD1A	16	30977242	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	197512	30977242	59377511	2977	3568										
ZNF668	79759	broad.mit.edu	37	chr16	31072431	31072431	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attcctagcaaagccaccagGggctccaggggtgtgggggt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:31072431G>A	uc010caf.2	-	3	2175	c.1818C>T	c.(1816-1818)CCC>CCT	p.P606P	ZNF668_uc002eao.2_Silent_p.P606P	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	606					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						AAGCCACCAGGGGCTCCAGGG	0.672													14	21	---	---	---	---	PASS	A	31072431	A	A	31072431	2	1	4	1	0	0	0	0	0	0	0	1	18072	1219	43	3		3	ZNF668	16	31072431	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	95189	31072431	59282322	2978	3569	141	2								
ZNF668	79759	broad.mit.edu	37	chr16	31072432	31072432	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcctagcaaagccaccaggGgctccaggggtgtgggggtc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:31072432G>A	uc010caf.2	-	3	2174	c.1817C>T	c.(1816-1818)CCC>CTC	p.P606L	ZNF668_uc002eao.2_Missense_Mutation_p.P606L	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	606					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						AGCCACCAGGGGCTCCAGGGG	0.667													15	22	---	---	---	---	PASS	A	31072432	A	A	31072432	3	1	4	1	0	0	0	0	1	0	0	0	18072	1232	43	3	46	3	ZNF668	16	31072432	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	31072432	59282321	2979	3570	141	2								
ITGAM	3684	broad.mit.edu	37	chr16	31336706	31336706	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccgcttgacctgtcctaccGgaaggtgtccacgctccagg	11	16	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:31336706G>A	uc002ebq.2	+	20	2584	c.2486G>A	c.(2485-2487)CGG>CAG	p.R829Q	ITGAM_uc002ebr.2_Missense_Mutation_p.R830Q|ITGAM_uc010can.2_Missense_Mutation_p.R235Q|ITGAM_uc002ebs.1_Missense_Mutation_p.R235Q|ITGAM_uc010vfj.1_RNA	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	829	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						CTGTCCTACCGGAAGGTGTCC	0.572													13	26	---	---	---	---	PASS	A	31336706	A	A	31336706	3	1	4	1	0	0	0	0	1	0	0	0	7887	1116	39	1	2567	1	ITGAM	16	31336706	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	264274	31336706	59018047	2980	3571										
ITGAD	3681	broad.mit.edu	37	chr16	31425842	31425842	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgacttctcgtgccattttCaatgaaaccaagaaccccac	5	14	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:31425842C>T	uc002ebv.1	+	17	2116	c.2067C>T	c.(2065-2067)TTC>TTT	p.F689F	ITGAD_uc010cap.1_Silent_p.F690F	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	689	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						GTGCCATTTTCAATGAAACCA	0.493													65	185	---	---	---	---	PASS	T	31425842	T	T	31425842	2	4	4	1	0	0	0	0	0	0	0	1	7884	825	29	2		2	ITGAD	16	31425842	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	89136	31425842	58928911	2981	3572										
ARMC5	79798	broad.mit.edu	37	chr16	31471195	31471195	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccctccgctgtgtcgtcgtCtagtcctacgccgccagtgc	10	18	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:31471195C>T	uc002ecc.2	+	1	879	c.350C>T	c.(349-351)TCT>TTT	p.S117F	ARMC5_uc010vfn.1_Missense_Mutation_p.S212F|ARMC5_uc010vfo.1_Missense_Mutation_p.S149F|ARMC5_uc002eca.3_Missense_Mutation_p.S117F|ARMC5_uc010vfp.1_Missense_Mutation_p.S117F|ARMC5_uc002ecb.2_Missense_Mutation_p.S117F	NM_001105247	NP_001098717	Q96C12	ARMC5_HUMAN	armadillo repeat containing 5 isoform a	117							binding			pancreas(1)	1						GTGTCGTCGTCTAGTCCTACG	0.597													3	3	---	---	---	---	PASS	T	31471195	T	T	31471195	3	4	4	1	0	0	0	0	1	0	0	0	954	913	32	2	352	2	ARMC5	16	31471195	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	45353	31471195	58883558	2982	3573										
GPT2	84706	broad.mit.edu	37	chr16	46943767	46943767	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaatgtgaatgagctccggCgggcggtgcaggaggccaaa	17	8	0	3	rs116572438	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:46943767C>T	uc002eel.2	+	6	842	c.748C>T	c.(748-750)CGG>TGG	p.R250W	GPT2_uc002eem.2_Missense_Mutation_p.R150W	NM_133443	NP_597700	Q8TD30	ALAT2_HUMAN	glutamic pyruvate transaminase 2 isoform 1	250					2-oxoglutarate metabolic process|cellular amino acid biosynthetic process|L-alanine metabolic process	mitochondrial matrix	L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2		all_cancers(37;0.0276)|all_epithelial(9;0.0498)|all_lung(18;0.0522)			L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	TGAGCTCCGGCGGGCGGTGCA	0.552													7	32	---	---	---	---	PASS	T	46943767	T	T	46943767	3	4	4	1	0	0	0	0	1	0	0	0	6738	759	27	1	766	1	GPT2	16	46943767	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	15472572	46943767	43410986	2983	3574										
ITFG1	81533	broad.mit.edu	37	chr16	47486699	47486699	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtatggtcatattgttagGatctgcaaaaaagatatata	9	3	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:47486699G>A	uc002eet.2	-	4	492	c.430C>T	c.(430-432)CCT>TCT	p.P144S	ITFG1_uc010vgh.1_Missense_Mutation_p.P31S|ITFG1_uc010cbf.1_Missense_Mutation_p.P31S	NM_030790	NP_110417	Q8TB96	TIP_HUMAN	integrin alpha FG-GAP repeat containing 1	144						extracellular region|integral to membrane				ovary(1)|central_nervous_system(1)	2		all_cancers(37;0.0613)|all_lung(18;0.0543)|Lung NSC(13;0.227)				ATATTGTTAGGATCTGCAAAA	0.289													4	13	---	---	---	---	PASS	A	47486699	A	A	47486699	3	1	4	1	0	0	0	0	1	0	0	0	7869	1174	41	2	1468	2	ITFG1	16	47486699	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	542932	47486699	42868054	2984	3575										
ABCC12	94160	broad.mit.edu	37	chr16	48180299	48180299	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctccgccggcctcgctggtCcagatctgagataaggtagg	13	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:48180299C>T	uc002efc.1	-	1	383	c.37G>A	c.(37-39)GAC>AAC	p.D13N	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.D13N|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	13						integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CCTCGCTGGTCCAGATCTGAG	0.557													14	26	---	---	---	---	PASS	T	48180299	T	T	48180299	3	4	4	1	0	0	0	0	1	0	0	0	52	855	30	2	4158	2	ABCC12	16	48180299	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	693600	48180299	42174454	2985	3576										
ZNF423	23090	broad.mit.edu	37	chr16	49670785	49670785	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcaggtcagcctccttgcGgaagtcccagttgcaggccg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:49670785G>A	uc002efs.2	-	5	2576	c.2278C>T	c.(2278-2280)CGC>TGC	p.R760C	ZNF423_uc010vgn.1_Missense_Mutation_p.R643C	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	760	C2H2-type 18.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GCCTCCTTGCGGAAGTCCCAG	0.597													6	21	---	---	---	---	PASS	A	49670785	A	A	49670785	3	1	4	1	0	0	0	0	1	0	0	0	17895	1116	39	1	1596	1	ZNF423	16	49670785	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1490486	49670785	40683968	2986	3577	142	2								
ZNF423	23090	broad.mit.edu	37	chr16	49670786	49670786	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcaggtcagcctccttgcgGaagtcccagttgcaggccgt					rs138951619		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:49670786G>A	uc002efs.2	-	5	2575	c.2277C>T	c.(2275-2277)TTC>TTT	p.F759F	ZNF423_uc010vgn.1_Silent_p.F642F	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	759	C2H2-type 18.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				CCTCCTTGCGGAAGTCCCAGT	0.597													6	22	---	---	---	---	PASS	A	49670786	A	A	49670786	2	1	4	1	0	0	0	0	0	0	0	1	17895	1165	41	2		2	ZNF423	16	49670786	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	49670786	40683967	2987	3578	142	2								
PAPD5	64282	broad.mit.edu	37	chr16	50258577	50258577	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcttttaaaggtaacgatgTtggaaggagttcatatgggg	13	3	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:50258577T>C	uc010vgo.1	+	9	1381	c.1346T>C	c.(1345-1347)GTT>GCT	p.V449A	PAPD5_uc010cbi.2_RNA|PAPD5_uc002efz.2_Missense_Mutation_p.V240A|PAPD5_uc002ega.2_Missense_Mutation_p.V240A	NM_001040284	NP_001035374	Q8NDF8	PAPD5_HUMAN	PAP associated domain containing 5 isoform a	370					cell division|DNA replication|histone mRNA catabolic process|mitosis	cytoplasm|nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding				0		all_cancers(37;0.0452)		BRCA - Breast invasive adenocarcinoma(181;0.0843)|GBM - Glioblastoma multiforme(240;0.231)		GGTAACGATGTTGGAAGGAGT	0.418													31	37	---	---	---	---	PASS	C	50258577	C	C	50258577	3	2	4	1	0	0	0	0	1	0	0	0	11425	1725	60	5	1380	5	PAPD5	16	50258577	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	587791	50258577	40096176	2988	3579										
BRD7	29117	broad.mit.edu	37	chr16	50388743	50388743	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttgtgagaggcttctcagGaggcaagtctaatctcacag	12	9	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:50388743G>A	uc002egf.1	-	4	416	c.349C>T	c.(349-351)CCT>TCT	p.P117S	BRD7_uc002ege.1_Missense_Mutation_p.P117S	NM_013263	NP_037395	Q9NPI1	BRD7_HUMAN	bromodomain containing 7	117					cell cycle|negative regulation of cell proliferation|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of histone acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleus	histone acetyl-lysine binding|p53 binding|transcription coactivator activity|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding				0		all_cancers(37;0.0127)				GGCTTCTCAGGAGGCAAGTCT	0.448													22	68	---	---	---	---	PASS	A	50388743	A	A	50388743	3	1	4	1	0	0	0	0	1	0	0	0	1505	1174	41	2	1669	2	BRD7	16	50388743	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	130166	50388743	39966010	2989	3580										
SNX20	124460	broad.mit.edu	37	chr16	50707814	50707814	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgacgctcacagatcatctCctcagcgaagttcccagtca	7	16	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:50707814C>T	uc002egk.2	-	4	627	c.454G>A	c.(454-456)GAG>AAG	p.E152K	SNX20_uc010vgp.1_Intron|SNX20_uc002egi.3_Intron	NM_182854	NP_878274	Q7Z614	SNX20_HUMAN	sorting nexin 20 isoform 1	152	PX.				cell communication|protein transport	endosome membrane|nucleus|plasma membrane	phosphatidylinositol binding|protein binding			ovary(1)	1						CAGATCATCTCCTCAGCGAAG	0.622													12	26	---	---	---	---	PASS	T	50707814	T	T	50707814	3	4	4	1	0	0	0	0	1	0	0	0	14892	864	30	2	643	2	SNX20	16	50707814	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	319071	50707814	39646939	2990	3581										
NOD2	64127	broad.mit.edu	37	chr16	50744674	50744674	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggaggagctcttcagcacCcctggccacctcaatgacga	10	15	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:50744674C>T	uc002egm.1	+	4	957	c.852C>T	c.(850-852)ACC>ACT	p.T284T	NOD2_uc010cbk.1_Silent_p.T257T|NOD2_uc002egl.1_Silent_p.T62T|NOD2_uc010cbl.1_Silent_p.T62T|NOD2_uc010cbm.1_Silent_p.T62T|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	284					activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				TCTTCAGCACCCCTGGCCACC	0.642													5	8	---	---	---	---	PASS	T	50744674	T	T	50744674	2	4	4	1	0	0	0	0	0	0	0	1	10517	610	22	3		3	NOD2	16	50744674	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	36860	50744674	39610079	2991	3582										
CYLD	1540	broad.mit.edu	37	chr16	50810116	50810116	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgacgcaggaaaggaggcctCccaaacttgcctttatgtca	10	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:50810116C>T	uc002egp.1	+	7	1364	c.949C>T	c.(949-951)CCC>TCC	p.P317S	CYLD_uc002egn.1_Missense_Mutation_p.P314S|CYLD_uc002ego.2_Missense_Mutation_p.P314S|CYLD_uc010cbs.1_Missense_Mutation_p.P314S|CYLD_uc002egq.1_Missense_Mutation_p.P314S|CYLD_uc002egr.1_Missense_Mutation_p.P314S|CYLD_uc002egs.1_Missense_Mutation_p.P314S	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	317	Interaction with TRIP.				cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				AAGGAGGCCTCCCAAACTTGC	0.383			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				13	26	---	---	---	---	PASS	T	50810116	T	T	50810116	3	4	4	1	0	0	0	0	1	0	0	0	4143	855	30	2	967	2	CYLD	16	50810116	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	65442	50810116	39544637	2992	3583										
SALL1	6299	broad.mit.edu	37	chr16	51172738	51172738	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtgttgcagtagtgctgcTtgggagttctcctgggcaga	15	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:51172738T>C	uc010vgs.1	-	2	3426	c.3395A>G	c.(3394-3396)AAG>AGG	p.K1132R	SALL1_uc010vgr.1_Missense_Mutation_p.K1035R|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	1132					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GTAGTGCTGCTTGGGAGTTCT	0.562													6	18	---	---	---	---	PASS	C	51172738	C	C	51172738	3	2	4	1	0	0	0	0	1	0	0	0	13810	1609	56	5	587	5	SALL1	16	51172738	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	362622	51172738	39182015	2993	3584										
SALL1	6299	broad.mit.edu	37	chr16	51173282	51173282	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcaaactcgcttgggaccgCtctctgtggtttctcctcaa	10	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:51173282C>T	uc010vgs.1	-	2	2882	c.2851G>A	c.(2851-2853)GCG>ACG	p.A951T	SALL1_uc010vgr.1_Missense_Mutation_p.A854T|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	951					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			CTTGGGACCGCTCTCTGTGGT	0.522													15	31	---	---	---	---	PASS	T	51173282	T	T	51173282	3	4	4	1	0	0	0	0	1	0	0	0	13810	797	28	3	1131	3	SALL1	16	51173282	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	544	51173282	39181471	2994	3585										
SALL1	6299	broad.mit.edu	37	chr16	51173945	51173945	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acacttaaagggcctctcccCagtgtgtgtcctgtagtgca	10	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:51173945C>T	uc010vgs.1	-	2	2219	c.2188G>A	c.(2188-2190)GGG>AGG	p.G730R	SALL1_uc010vgr.1_Missense_Mutation_p.G633R|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	730					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GGCCTCTCCCCAGTGTGTGTC	0.532													9	54	---	---	---	---	PASS	T	51173945	T	T	51173945	3	4	4	1	0	0	0	0	1	0	0	0	13810	594	21	3	1794	3	SALL1	16	51173945	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	663	51173945	39180808	2995	3586										
TOX3	27324	broad.mit.edu	37	chr16	52473848	52473848	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggtctgctgaacagaacgGatggtctgggcttctgctga	15	8	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:52473848G>A	uc002egw.2	-	7	1191	c.1020C>T	c.(1018-1020)ATC>ATT	p.I340I	TOX3_uc010vgt.1_Silent_p.I335I|TOX3_uc010vgu.1_Silent_p.I340I	NM_001080430	NP_001073899	O15405	TOX3_HUMAN	TOX high mobility group box family member 3	340					apoptosis|negative regulation of neuron apoptosis|positive regulation of anti-apoptosis|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|estrogen response element binding|phosphoprotein binding|protein homodimerization activity				0						GAACAGAACGGATGGTCTGGG	0.453													14	39	---	---	---	---	PASS	A	52473848	A	A	52473848	2	1	4	1	0	0	0	0	0	0	0	1	16376	1164	41	2		2	TOX3	16	52473848	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1299903	52473848	37880905	2996	3587										
CHD9	80205	broad.mit.edu	37	chr16	53338389	53338389	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatcatcctcttcttgctcCcactctcgatcaggctctag	5	16	7	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:53338389C>T	uc002ehb.2	+	30	6635	c.6471C>T	c.(6469-6471)TCC>TCT	p.S2157S	CHD9_uc002egy.2_Silent_p.S2157S|CHD9_uc002ehc.2_Silent_p.S2157S|CHD9_uc002ehf.2_Silent_p.S1271S|CHD9_uc010cbw.2_Intron|CHD9_uc002ehg.1_Silent_p.S163S	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	2157	Ser-rich.				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)				CTTCTTGCTCCCACTCTCGAT	0.264													4	8	---	---	---	---	PASS	T	53338389	T	T	53338389	2	4	4	1	0	0	0	0	0	0	0	1	3332	610	22	3		3	CHD9	16	53338389	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	864541	53338389	37016364	2997	3588										
IRX6	79190	broad.mit.edu	37	chr16	55362636	55362636	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tactgctagccaggaggcccGggggctccggctgagtgacc	16	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:55362636G>A	uc002ehy.2	+	5	1279	c.746G>A	c.(745-747)CGG>CAG	p.R249Q	IRX6_uc002ehx.2_Missense_Mutation_p.R249Q	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	249						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						CAGGAGGCCCGGGGGCTCCGG	0.473													12	44	---	---	---	---	PASS	A	55362636	A	A	55362636	3	1	4	1	0	0	0	0	1	0	0	0	7848	1116	39	1	764	1	IRX6	16	55362636	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2024247	55362636	34992117	2998	3589										
CES7	221223	broad.mit.edu	37	chr16	55886869	55886869	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagtccagaagactgtctcgGatttcagtcagggagtgctt	12	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:55886869G>A	uc002eip.2	-	10	1346	c.1197C>T	c.(1195-1197)ATC>ATT	p.I399I	CES7_uc002eio.2_Silent_p.I399I|CES7_uc002eiq.2_Silent_p.I160I|CES7_uc002eir.2_Silent_p.I293I	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	399						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		GACTGTCTCGGATTTCAGTCA	0.483													17	56	---	---	---	---	PASS	A	55886869	A	A	55886869	2	1	4	1	0	0	0	0	0	0	0	1	3272	1164	41	2		2	CES7	16	55886869	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	524233	55886869	34467884	2999	3590										
SLC12A3	6559	broad.mit.edu	37	chr16	56912056	56912056	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacgaccatttcctacctggCcatctcagccaccattggta	7	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:56912056C>T	uc010ccm.2	+	9	1192	c.1163C>T	c.(1162-1164)GCC>GTC	p.A388V	SLC12A3_uc002ekd.3_Missense_Mutation_p.A388V|SLC12A3_uc010ccn.2_Missense_Mutation_p.A387V	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	388	Helical; (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	TCCTACCTGGCCATCTCAGCC	0.522													9	13	---	---	---	---	PASS	T	56912056	T	T	56912056	3	4	4	1	0	0	0	0	1	0	0	0	14384	739	26	3	1197	3	SLC12A3	16	56912056	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1025187	56912056	33442697	3000	3591										
SLC12A3	6559	broad.mit.edu	37	chr16	56916389	56916389	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caacttcagctgcttccacgCctccatcaccaactcgcctg	5	19	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:56916389C>T	uc010ccm.2	+	13	1678	c.1649C>T	c.(1648-1650)GCC>GTC	p.A550V	SLC12A3_uc002ekd.3_Missense_Mutation_p.A550V|SLC12A3_uc010ccn.2_Missense_Mutation_p.A549V	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	550	Helical; (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	TGCTTCCACGCCTCCATCACC	0.597													14	31	---	---	---	---	PASS	T	56916389	T	T	56916389	3	4	4	1	0	0	0	0	1	0	0	0	14384	739	26	3	1699	3	SLC12A3	16	56916389	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4333	56916389	33438364	3001	3592										
FAM192A	80011	broad.mit.edu	37	chr16	57207713	57207713	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgccgttcatctagttctgcCtcagacacaaacctcttttt	5	14	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:57207713C>T	uc010vhk.1	-	2	313	c.54G>A	c.(52-54)GAG>GAA	p.E18E	FAM192A_uc002ekz.3_Silent_p.E18E|FAM192A_uc002ekv.3_Intron|FAM192A_uc002ekw.3_Silent_p.E18E|FAM192A_uc002ekx.3_Silent_p.E18E|FAM192A_uc002eky.3_Silent_p.E18E|FAM192A_uc010ccx.2_Silent_p.E18E	NM_024946	NP_079222	Q9GZU8	F192A_HUMAN	NEFA-interacting nuclear protein NIP30	18						nucleus					0						CTAGTTCTGCCTCAGACACAA	0.363													18	52	---	---	---	---	PASS	T	57207713	T	T	57207713	2	4	4	1	0	0	0	0	0	0	0	1	5523	680	24	3		3	FAM192A	16	57207713	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	291324	57207713	33147040	3002	3593										
CCDC135	84229	broad.mit.edu	37	chr16	57732912	57732912	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgcgtgcccctcttcctgcaCcccctgaacgagtgtgaagt	10	16	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:57732912C>T	uc002emi.2	+	3	443	c.354C>T	c.(352-354)CAC>CAT	p.H118H	CCDC135_uc002emj.2_Silent_p.H118H|CCDC135_uc002emk.2_Silent_p.H118H	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	118						cytoplasm				central_nervous_system(1)	1						TCTTCCTGCACCCCCTGAACG	0.637													36	94	---	---	---	---	PASS	T	57732912	T	T	57732912	2	4	4	1	0	0	0	0	0	0	0	1	2769	506	18	3		3	CCDC135	16	57732912	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	525199	57732912	32621841	3003	3594										
CNOT1	23019	broad.mit.edu	37	chr16	58580634	58580634	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcataattgccattgtccaaGggtttggtggcctaaaaacc	9	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:58580634G>A	uc002env.2	-	28	4063	c.3770C>T	c.(3769-3771)CCT>CTT	p.P1257L	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.P1252L|CNOT1_uc002enx.2_Missense_Mutation_p.P1257L|CNOT1_uc010vik.1_Missense_Mutation_p.P214L	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1257					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		CATTGTCCAAGGGTTTGGTGG	0.358													8	49	---	---	---	---	PASS	A	58580634	A	A	58580634	3	1	4	1	0	0	0	0	1	0	0	0	3617	1000	35	3	3670	3	CNOT1	16	58580634	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	847722	58580634	31774119	3004	3595										
CNOT1	23019	broad.mit.edu	37	chr16	58621257	58621257	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taaatcactcacctcttgtaCtttgcttaatttgagcactt	4	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:58621257C>T	uc002env.2	-	5	663	c.370G>A	c.(370-372)GTA>ATA	p.V124I	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.V124I|CNOT1_uc002enx.2_Missense_Mutation_p.V124I|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	124					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		ACCTCTTGTACTTTGCTTAAT	0.333													31	37	---	---	---	---	PASS	T	58621257	T	T	58621257	3	4	4	1	0	0	0	0	1	0	0	0	3617	565	20	3	7162	3	CNOT1	16	58621257	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	40623	58621257	31733496	3005	3596										
CDH8	1006	broad.mit.edu	37	chr16	61687532	61687532	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaagtttctttgtcactttCaccaacagagtagagttcgc	7	10	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:61687532C>T	uc002eog.1	-	12	2632	c.2380G>A	c.(2380-2382)GAA>AAA	p.E794K		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	794	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TTGTCACTTTCACCAACAGAG	0.448													12	33	---	---	---	---	PASS	T	61687532	T	T	61687532	3	4	4	1	0	0	0	0	1	0	0	0	3116	835	29	2	23	2	CDH8	16	61687532	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3066275	61687532	28667221	3006	3597										
CDH8	1006	broad.mit.edu	37	chr16	61851579	61851579	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actgaagcgtgggtcaatatGgacattggctgcctctacct	11	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:61851579G>A	uc002eog.1	-	7	1333	c.1081C>T	c.(1081-1083)CAT>TAT	p.H361Y	CDH8_uc002eoh.2_Missense_Mutation_p.H130Y	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	361	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		GGGTCAATATGGACATTGGCT	0.468													6	22	---	---	---	---	PASS	A	61851579	A	A	61851579	3	1	4	1	0	0	0	0	1	0	0	0	3116	1348	47	3	1342	3	CDH8	16	61851579	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	164047	61851579	28503174	3007	3598										
CDH11	1009	broad.mit.edu	37	chr16	65016127	65016127	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccttgaaagggccattgctGataaacttcgggtcgatgtg	12	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:65016127G>A	uc002eoi.2	-	8	1511	c.1077C>T	c.(1075-1077)ATC>ATT	p.I359I	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Silent_p.I359I|CDH11_uc010vin.1_Silent_p.I233I|CDH11_uc002eok.1_RNA	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	359	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		GGCCATTGCTGATAAACTTCG	0.478			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			13	46	---	---	---	---	PASS	A	65016127	A	A	65016127	2	1	4	1	0	0	0	0	0	0	0	1	3097	1280	45	2		2	CDH11	16	65016127	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	3164548	65016127	25338626	3008	3599										
DYNC1LI2	1783	broad.mit.edu	37	chr16	66759779	66759779	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accagcaccaggacttccagGagagcctgtctttttactca	8	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:66759779G>A	uc002eqb.1	-	12	1361	c.1330C>T	c.(1330-1332)CCT>TCT	p.P444S	DYNC1LI2_uc010vis.1_Missense_Mutation_p.P367S	NM_006141	NP_006132	O43237	DC1L2_HUMAN	dynein, cytoplasmic, light intermediate	444					transport	centrosome|cytoplasmic dynein complex|microtubule	ATP binding|motor activity			central_nervous_system(3)|skin(1)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0907)|Epithelial(162;0.212)		GGACTTCCAGGAGAGCCTGTC	0.478													54	93	---	---	---	---	PASS	A	66759779	A	A	66759779	3	1	4	1	0	0	0	0	1	0	0	0	4845	1174	41	2	156	2	DYNC1LI2	16	66759779	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1743652	66759779	23594974	3009	3600										
CA7	766	broad.mit.edu	37	chr16	66881131	66881131	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgacagcgatgaccgaaccgGtaagtggcccctgccaaagc	12	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:66881131G>A	uc002eqi.2	+	2	347	c.238_splice	c.e2+1	p.V80_splice	uc002eqh.2_Intron|CA7_uc002eqj.2_Splice_Site_p.V24_splice	NM_005182	NP_005173	P43166	CAH7_HUMAN	carbonic anhydrase VII isoform 1						one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		GACCGAACCGGTAAGTGGCCC	0.562													7	14	---	---	---	---	PASS	A	66881131	A	A	66881131	5	1	4	1	0	0	0	0	0	0	1	0	2522	1275	44	3	245	3	CA7	16	66881131	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	121352	66881131	23473622	3010	3601										
C16orf70	80262	broad.mit.edu	37	chr16	67180995	67180995	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgaccctgtatggccccccCaggcctggtagccacctgag	12	16	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:67180995C>A	uc002erc.2	+	17	1314	c.1230C>A	c.(1228-1230)CCC>CCA	p.P410P	C16orf70_uc002erd.2_Silent_p.P410P|uc002erg.1_5'Flank	NM_025187	NP_079463	Q9BSU1	CP070_HUMAN	lin-10	410										ovary(2)	2		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0017)|Epithelial(162;0.00655)|all cancers(182;0.0579)		ATGGCCCCCCCAGGCCTGGTA	0.602													5	66	---	---	---	---	PASS	A	67180995	A	A	67180995	2	1	4	1	0	0	0	0	0	0	0	1	1829	581	21	3		3	C16orf70	16	67180995	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	299864	67180995	23173758	3011	3602										
KCTD19	146212	broad.mit.edu	37	chr16	67327714	67327714	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctgtcagtggctggaattCccactgtttgcaattgacca	11	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:67327714C>T	uc002esu.2	-	12	2002	c.1951G>A	c.(1951-1953)GAA>AAA	p.E651K	KCTD19_uc002est.2_Missense_Mutation_p.E423K|KCTD19_uc010vjj.1_Missense_Mutation_p.E394K	NM_001100915	NP_001094385	Q17RG1	KCD19_HUMAN	potassium channel tetramerisation domain	651						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0311)|Epithelial(162;0.0906)		GGCTGGAATTCCCACTGTTTG	0.582													21	33	---	---	---	---	PASS	T	67327714	T	T	67327714	3	4	4	1	0	0	0	0	1	0	0	0	8106	864	30	2	849	2	KCTD19	16	67327714	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	146719	67327714	23027039	3012	3603										
CTCF	10664	broad.mit.edu	37	chr16	67662408	67662408	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcacgaccccaacttcgtcCctgcggcttttgtctgttct	7	15	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:67662408C>T	uc002etl.2	+	9	1944	c.1654C>T	c.(1654-1656)CCT>TCT	p.P552S	CTCF_uc010cek.2_Missense_Mutation_p.P224S|CTCF_uc002etm.1_Missense_Mutation_p.P41S	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor	552					chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)		CAACTTCGTCCCTGCGGCTTT	0.498													39	69	---	---	---	---	PASS	T	67662408	T	T	67662408	3	4	4	1	0	0	0	0	1	0	0	0	4000	623	22	3	1680	3	CTCF	16	67662408	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	334694	67662408	22692345	3013	3604										
RANBP10	57610	broad.mit.edu	37	chr16	67768871	67768871	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagtcctcaatgtcaaacagGaagggctgctgcccaaagtt	10	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:67768871G>A	uc002eud.2	-	6	782	c.666C>T	c.(664-666)TTC>TTT	p.F222F	RANBP10_uc010ceo.2_5'UTR|RANBP10_uc010vju.1_Silent_p.F166F|RANBP10_uc010vjv.1_Silent_p.F105F|RANBP10_uc010vjx.1_Silent_p.F222F|RANBP10_uc010vjy.1_Silent_p.F90F	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	222	B30.2/SPRY.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		TGTCAAACAGGAAGGGCTGCT	0.607													8	15	---	---	---	---	PASS	A	67768871	A	A	67768871	2	1	4	1	0	0	0	0	0	0	0	1	13026	1165	41	2		2	RANBP10	16	67768871	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	106463	67768871	22585882	3014	3605										
NFATC3	4775	broad.mit.edu	37	chr16	68156241	68156241	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagagatcatctctatcttcCtcttgagccatcctaccggg	7	13	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:68156241C>T	uc002evo.1	+	2	665	c.455C>T	c.(454-456)CCT>CTT	p.P152L	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Missense_Mutation_p.P152L|NFATC3_uc002evm.1_Missense_Mutation_p.P152L|NFATC3_uc002evn.1_Missense_Mutation_p.P152L|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	152					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		CTCTATCTTCCTCTTGAGCCA	0.443													19	51	---	---	---	---	PASS	T	68156241	T	T	68156241	3	4	4	1	0	0	0	0	1	0	0	0	10364	681	24	3	461	3	NFATC3	16	68156241	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	387370	68156241	22198512	3015	3606										
SLC7A6	9057	broad.mit.edu	37	chr16	68308694	68308694	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtccctaacaccagccagtCccaggtggaagaagatgtca	10	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:68308694C>T	uc002evt.1	+	4	374	c.65C>T	c.(64-66)TCC>TTC	p.S22F	SLC7A6_uc010cfb.1_RNA|SLC7A6_uc002evu.1_Missense_Mutation_p.S22F|SLC7A6_uc002evv.1_RNA|SLC7A6_uc010cfc.1_RNA	NM_001076785	NP_001070253	Q92536	YLAT2_HUMAN	solute carrier family 7 (cationic amino acid	22	Cytoplasmic (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|antiporter activity			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.0948)		ACCAGCCAGTCCCAGGTGGAA	0.577													10	23	---	---	---	---	PASS	T	68308694	T	T	68308694	3	4	4	1	0	0	0	0	1	0	0	0	14701	855	30	2	67	2	SLC7A6	16	68308694	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	152453	68308694	22046059	3016	3607										
SLC7A6OS	84138	broad.mit.edu	37	chr16	68338066	68338066	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgcctgactcctggtccatCctcagacacagtcaatcgct	8	16	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:68338066C>T	uc002evw.1	-	3	560	c.541G>A	c.(541-543)GAT>AAT	p.D181N		NM_032178	NP_115554	Q96CW6	S7A6O_HUMAN	solute carrier family 7, member 6 opposite	181					protein transport	cytoplasm|nucleus				ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.106)		CCTGGTCCATCCTCAGACACA	0.473													43	74	---	---	---	---	PASS	T	68338066	T	T	68338066	3	4	4	1	0	0	0	0	1	0	0	0	14702	855	30	2	400	2	SLC7A6OS	16	68338066	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	29372	68338066	22016687	3017	3608										
CIRH1A	84916	broad.mit.edu	37	chr16	69202755	69202755	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catggatcttttggatgaaaGaacactcgtggcagtagaac	11	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:69202755G>A	uc002ews.3	+	17	2072	c.1976G>A	c.(1975-1977)AGA>AAA	p.R659K	CIRH1A_uc002ewt.3_Missense_Mutation_p.R576K|CIRH1A_uc010cfi.2_Missense_Mutation_p.R461K	NM_032830	NP_116219	Q969X6	CIR1A_HUMAN	cirhin	659						nucleolus	protein binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.125)		TTGGATGAAAGAACACTCGTG	0.448													21	39	---	---	---	---	PASS	A	69202755	A	A	69202755	3	1	4	1	0	0	0	0	1	0	0	0	3434	942	33	2	2038	2	CIRH1A	16	69202755	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	864689	69202755	21151998	3018	3609										
PDPR	55066	broad.mit.edu	37	chr16	70172834	70172834	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggatggtacatggttatcCctcagaaaacgtttgggaat	11	6	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:70172834C>T	uc002eyf.1	+	11	2180	c.1223C>T	c.(1222-1224)CCC>CTC	p.P408L	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.P308L|PDPR_uc002eyg.1_Missense_Mutation_p.P136L	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	408					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)		CATGGTTATCCCTCAGAAAAC	0.483													8	50	---	---	---	---	PASS	T	70172834	T	T	70172834	3	4	4	1	0	0	0	0	1	0	0	0	11689	623	22	3	1257	3	PDPR	16	70172834	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	970079	70172834	20181919	3019	3610										
DDX19A	55308	broad.mit.edu	37	chr16	70400755	70400755	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accattgctcaagccatgatCttctgccatgtgagtagcag	9	11	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:70400755C>T	uc002eyv.2	+	9	1082	c.1011C>T	c.(1009-1011)ATC>ATT	p.I337I	DDX19B_uc010vly.1_Intron|DDX19A_uc002eys.2_Silent_p.I338I|DDX19A_uc010cfq.1_Silent_p.I92I|DDX19A_uc010cfr.2_Silent_p.I187I|DDX19A_uc010cfs.2_Silent_p.I160I|DDX19A_uc010vlz.1_Silent_p.I306I|DDX19A_uc010vma.1_Silent_p.I247I	NM_018332	NP_060802	Q9NUU7	DD19A_HUMAN	DDX19-like protein	337	Helicase C-terminal.				mRNA transport|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|RNA binding				0		Ovarian(137;0.221)				AAGCCATGATCTTCTGCCATG	0.592													12	49	---	---	---	---	PASS	T	70400755	T	T	70400755	2	4	4	1	0	0	0	0	0	0	0	1	4346	903	32	2		2	DDX19A	16	70400755	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	227921	70400755	19953998	3020	3611										
COG4	25839	broad.mit.edu	37	chr16	70531126	70531126	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagggagtcaactgtacctGaagtcagactccagctctgt	10	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:70531126G>A	uc002ezc.2	-	11	1490	c.1479C>T	c.(1477-1479)TTC>TTT	p.F493F	COG4_uc002ezb.2_5'UTR|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Silent_p.F493F|COG4_uc002eze.2_Silent_p.F187F	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	489					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)				AACTGTACCTGAAGTCAGACT	0.502													14	48	---	---	---	---	PASS	A	70531126	A	A	70531126	2	1	4	1	0	0	0	0	0	0	0	1	3660	1281	45	2		2	COG4	16	70531126	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	130371	70531126	19823627	3021	3612										
HYDIN	54768	broad.mit.edu	37	chr16	70891610	70891610	+	Missense_Mutation	SNP	A	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatcaggacagccttaccaAtgaggagagagctgaagttg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:70891610A>T	uc002ezr.2	-	72	12418	c.12290T>A	c.(12289-12291)ATT>AAT	p.I4097N	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4098										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				AGCCTTACCAATGAGGAGAGA	0.498													5	26	---	---	---	---	PASS	T	70891610	T	T	70891610	3	4	4	1	0	0	0	0	1	0	0	0	7467	101	4	5	3132	5	HYDIN	16	70891610	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	360484	70891610	19463143	3022	3613	143	2								
HYDIN	54768	broad.mit.edu	37	chr16	70891611	70891611	+	Missense_Mutation	SNP	T	C	C													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcaggacagccttaccaaTgaggagagagctgaagttga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:70891611T>C	uc002ezr.2	-	72	12417	c.12289A>G	c.(12289-12291)ATT>GTT	p.I4097V	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4098										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GCCTTACCAATGAGGAGAGAG	0.498													5	27	---	---	---	---	PASS	C	70891611	C	C	70891611	3	2	4	1	0	0	0	0	1	0	0	0	7467	1464	51	5	3133	5	HYDIN	16	70891611	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1	70891611	19463142	3023	3614	143	2								
HYDIN	54768	broad.mit.edu	37	chr16	70917872	70917872	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taaagaatgccggcagggtgGactgcagggtctcggccgga	17	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:70917872G>A	uc002ezr.2	-	59	10055	c.9927C>T	c.(9925-9927)GTC>GTT	p.V3309V		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3310										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CGGCAGGGTGGACTGCAGGGT	0.522													11	17	---	---	---	---	PASS	A	70917872	A	A	70917872	2	1	4	1	0	0	0	0	0	0	0	1	7467	1161	41	2		2	HYDIN	16	70917872	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	26261	70917872	19436881	3024	3615										
FTSJD1	55783	broad.mit.edu	37	chr16	71318220	71318220	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgttttggcctaaacttgGaatccaaattaaaagctcct	7	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:71318220G>A	uc010cga.2	-	3	2010	c.1604C>T	c.(1603-1605)TCC>TTC	p.S535F	FTSJD1_uc002ezy.3_Missense_Mutation_p.S535F|FTSJD1_uc002ezz.3_Missense_Mutation_p.S535F	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	535						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						CCTAAACTTGGAATCCAAATT	0.353													18	23	---	---	---	---	PASS	A	71318220	A	A	71318220	3	1	4	1	0	0	0	0	1	0	0	0	6090	1174	41	2	712	2	FTSJD1	16	71318220	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	400348	71318220	19036533	3025	3616										
ZNF23	7571	broad.mit.edu	37	chr16	71483440	71483440	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttgaaaggtctttcctcaGaattaattatttcatgcttc	5	7	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:71483440G>A	uc002faf.2	-	6	1302	c.488C>T	c.(487-489)TCT>TTT	p.S163F	ZNF23_uc002fad.2_Missense_Mutation_p.S105F|ZNF23_uc002fae.2_Missense_Mutation_p.S105F|ZNF23_uc010vmf.1_Missense_Mutation_p.S105F|ZNF23_uc002fag.2_Missense_Mutation_p.S105F|ZNF23_uc002fah.2_Missense_Mutation_p.S163F|ZNF23_uc002fai.2_Missense_Mutation_p.S202F	NM_145911	NP_666016	P17027	ZNF23_HUMAN	zinc finger protein 23	163					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(137;0.00768)		BRCA - Breast invasive adenocarcinoma(221;0.0686)		TCTTTCCTCAGAATTAATTAT	0.408													10	48	---	---	---	---	PASS	A	71483440	A	A	71483440	3	1	4	1	0	0	0	0	1	0	0	0	17780	942	33	2	1447	2	ZNF23	16	71483440	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	165220	71483440	18871313	3026	3617										
CHST4	10164	broad.mit.edu	37	chr16	71570631	71570631	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgtttctggtttcccagatGgccatcttggctctattctt	8	11	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:71570631G>A	uc002fan.2	+	2	232	c.51G>A	c.(49-51)ATG>ATA	p.M17I	CHST4_uc002fao.2_Missense_Mutation_p.M17I	NM_005769	NP_005760	Q8NCG5	CHST4_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	17	Helical; Signal-anchor for type II membrane protein; (Potential).				cell-cell signaling|immune response|inflammatory response|N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity				0						TTTCCCAGATGGCCATCTTGG	0.493													15	27	---	---	---	---	PASS	A	71570631	A	A	71570631	3	1	4	1	0	0	0	0	1	0	0	0	3406	1348	47	3	53	3	CHST4	16	71570631	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	87191	71570631	18784122	3027	3618										
TAT	6898	broad.mit.edu	37	chr16	71602689	71602689	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatcgttctcaaattctggGaaatgttccatctcaattcc	5	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:71602689G>A	uc002fap.2	-	11	1248	c.1149C>T	c.(1147-1149)TTC>TTT	p.F383F		NM_000353	NP_000344	P17735	ATTY_HUMAN	tyrosine aminotransferase	383					2-oxoglutarate metabolic process|glutamate metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	1-aminocyclopropane-1-carboxylate synthase activity|L-tyrosine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(2)	2		Ovarian(137;0.125)		Kidney(780;0.0157)	L-Glutamic Acid(DB00142)|L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Pyridoxal Phosphate(DB00114)	CAAATTCTGGGAAATGTTCCA	0.512													5	16	---	---	---	---	PASS	A	71602689	A	A	71602689	2	1	4	1	0	0	0	0	0	0	0	1	15587	1165	41	2		2	TAT	16	71602689	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	32058	71602689	18752064	3028	3619										
MARVELD3	91862	broad.mit.edu	37	chr16	71668666	71668666	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagggctaccgaaaagttaGgaagctaaaagagaagccag	12	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:71668666G>A	uc002fat.2	+	3	1229	c.1166G>A	c.(1165-1167)AGG>AAG	p.R389K	MARVELD3_uc002fau.2_Intron|MARVELD3_uc010cge.2_Intron	NM_052858	NP_443090	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 2	389	Cytoplasmic (Potential).					integral to membrane				skin(1)	1		Ovarian(137;0.125)				CGAAAAGTTAGGAAGCTAAAA	0.498													11	43	---	---	---	---	PASS	A	71668666	A	A	71668666	3	1	4	1	0	0	0	0	1	0	0	0	9319	1000	35	3	1176	3	MARVELD3	16	71668666	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	65977	71668666	18686087	3029	3620										
PMFBP1	83449	broad.mit.edu	37	chr16	72188302	72188302	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcagatgacactgtttactGgacccaaattccacctctga	6	13	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:72188302G>A	uc002fcc.3	-	4	394	c.222C>T	c.(220-222)TCC>TCT	p.S74S	PMFBP1_uc002fcd.2_Silent_p.S74S|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_5'UTR	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	74										ovary(2)	2		Ovarian(137;0.179)				ACTGTTTACTGGACCCAAATT	0.433													19	33	---	---	---	---	PASS	A	72188302	A	A	72188302	2	1	4	1	0	0	0	0	0	0	0	1	12134	1335	47	3		3	PMFBP1	16	72188302	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	519636	72188302	18166451	3030	3621										
ZFHX3	463	broad.mit.edu	37	chr16	72822391	72822391	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agttgccgtgggggcctctcCtttctccttcttggggacag	13	12	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:72822391C>T	uc002fck.2	-	10	10457	c.9784G>A	c.(9784-9786)GGA>AGA	p.G3262R	ZFHX3_uc002fcl.2_Missense_Mutation_p.G2348R	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3262					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GGGGCCTCTCCTTTCTCCTTC	0.597													25	32	---	---	---	---	PASS	T	72822391	T	T	72822391	3	4	4	1	0	0	0	0	1	0	0	0	17631	690	24	3	1331	3	ZFHX3	16	72822391	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	634089	72822391	17532362	3031	3622										
ZFHX3	463	broad.mit.edu	37	chr16	72829629	72829629	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttgttcgaatgtatctatCatttgtaagctcacgccgct	8	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:72829629C>T	uc002fck.2	-	9	7625	c.6952G>A	c.(6952-6954)GAT>AAT	p.D2318N	ZFHX3_uc002fcl.2_Missense_Mutation_p.D1404N	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2318					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ATGTATCTATCATTTGTAAGC	0.458													37	64	---	---	---	---	PASS	T	72829629	T	T	72829629	3	4	4	1	0	0	0	0	1	0	0	0	17631	826	29	2	4167	2	ZFHX3	16	72829629	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	7238	72829629	17525124	3032	3623										
ZFHX3	463	broad.mit.edu	37	chr16	72991362	72991362	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcggccatgggcccggcggGatccagctggaatccgctca	16	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:72991362G>A	uc002fck.2	-	2	3356	c.2683C>T	c.(2683-2685)CCC>TCC	p.P895S	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	895					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GGCCCGGCGGGATCCAGCTGG	0.542													15	20	---	---	---	---	PASS	A	72991362	A	A	72991362	3	1	4	1	0	0	0	0	1	0	0	0	17631	1174	41	2	8464	2	ZFHX3	16	72991362	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	161733	72991362	17363391	3033	3624										
CNTNAP4	85445	broad.mit.edu	37	chr16	76389314	76389314	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgctgtggccactcaaggggGatatggtagctccaactggg	15	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:76389314G>A	uc002feu.1	+	5	681	c.296G>A	c.(295-297)GGA>GAA	p.G99E	CNTNAP4_uc002fev.1_Missense_Mutation_p.G11E|CNTNAP4_uc010chb.1_Missense_Mutation_p.G74E|CNTNAP4_uc002fex.1_Missense_Mutation_p.G102E|CNTNAP4_uc002few.2_Missense_Mutation_p.G74E	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	99	Extracellular (Potential).|F5/8 type C.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						ACTCAAGGGGGATATGGTAGC	0.522													9	33	---	---	---	---	PASS	A	76389314	A	A	76389314	3	1	4	1	0	0	0	0	1	0	0	0	3649	1174	41	2	319	2	CNTNAP4	16	76389314	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3397952	76389314	13965439	3034	3625										
CNTNAP4	85445	broad.mit.edu	37	chr16	76481942	76481942	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgatcttgatggaaaaagttCccttctctacagatttgatc	7	8	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:76481942C>T	uc002feu.1	+	7	957	c.572C>T	c.(571-573)TCC>TTC	p.S191F	CNTNAP4_uc002fev.1_Missense_Mutation_p.S103F|CNTNAP4_uc010chb.1_Missense_Mutation_p.S166F|CNTNAP4_uc002fex.1_Missense_Mutation_p.S194F|CNTNAP4_uc002few.2_Missense_Mutation_p.S166F	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	191	Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						GGAAAAAGTTCCCTTCTCTAC	0.343													17	53	---	---	---	---	PASS	T	76481942	T	T	76481942	3	4	4	1	0	0	0	0	1	0	0	0	3649	855	30	2	603	2	CNTNAP4	16	76481942	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	92628	76481942	13872811	3035	3626										
CNTNAP4	85445	broad.mit.edu	37	chr16	76523671	76523671	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacccatatgctgggtttttCgagtatgtggccagcatgga	12	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:76523671C>T	uc002feu.1	+	15	2356	c.1971C>T	c.(1969-1971)TTC>TTT	p.F657F	CNTNAP4_uc002fev.1_Silent_p.F521F|CNTNAP4_uc010chb.1_Silent_p.F584F|CNTNAP4_uc002fex.1_Silent_p.F660F|CNTNAP4_uc002few.2_Silent_p.F632F	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	657	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						CTGGGTTTTTCGAGTATGTGG	0.458													9	14	---	---	---	---	PASS	T	76523671	T	T	76523671	2	4	4	1	0	0	0	0	0	0	0	1	3649	883	31	2		2	CNTNAP4	16	76523671	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	41729	76523671	13831082	3036	3627										
C16orf46	123775	broad.mit.edu	37	chr16	81095315	81095315	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgaaagtgaagccttcagGggaggcagaactaggagggc	16	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:81095315G>T	uc002fgc.3	-	4	898	c.639C>A	c.(637-639)CCC>CCA	p.P213P	C16orf46_uc010chf.2_Silent_p.P213P|C16orf46_uc010vno.1_5'UTR	NM_152337	NP_689550	Q6P387	CP046_HUMAN	chromosome 16 open reading frame 46 isoform 2	213											0						AAGCCTTCAGGGGAGGCAGAA	0.542													5	70	---	---	---	---	PASS	T	81095315	T	T	81095315	2	4	4	1	0	0	0	0	0	0	0	1	1815	1219	43	3		3	C16orf46	16	81095315	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4571644	81095315	9259438	3037	3628										
GCSH	2653	broad.mit.edu	37	chr16	81124258	81124258	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgccattttctgttgttaccCattcgtgtttctctgtgaat	7	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:81124258C>A	uc002fgd.2	-	2	273	c.176G>T	c.(175-177)TGG>TTG	p.W59L	GCSH_uc002fge.2_RNA	NM_004483	NP_004474	P23434	GCSH_HUMAN	glycine cleavage system protein H (aminomethyl	59						glycine cleavage complex|mitochondrion	aminomethyltransferase activity				0					Glycine(DB00145)	TGTTGTTACCCATTCGTGTTT	0.368													4	27	---	---	---	---	PASS	A	81124258	A	A	81124258	3	1	4	1	0	0	0	0	1	0	0	0	6305	595	21	3	361	3	GCSH	16	81124258	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	28943	81124258	9230495	3038	3629										
PKD1L2	114780	broad.mit.edu	37	chr16	81241185	81241185	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtgagaggagccacgtcagGgagatggtgacattgtcaaa	16	6	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:81241185G>A	uc002fgh.1	-	5	816	c.816C>T	c.(814-816)TCC>TCT	p.S272S	PKD1L2_uc002fgj.2_Silent_p.S272S	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	272	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GCCACGTCAGGGAGATGGTGA	0.468													27	97	---	---	---	---	PASS	A	81241185	A	A	81241185	2	1	4	1	0	0	0	0	0	0	0	1	11965	1219	43	3		3	PKD1L2	16	81241185	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	116927	81241185	9113568	3039	3630										
PKD1L2	114780	broad.mit.edu	37	chr16	81249906	81249906	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgaggtcacccactcagagGaagggcctctcccgatgtgg	13	14	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:81249906G>A	uc002fgh.1	-	2	407	c.407C>T	c.(406-408)TCC>TTC	p.S136F	PKD1L2_uc002fgj.2_Missense_Mutation_p.S136F	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	136	Extracellular (Potential).|C-type lectin.				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCACTCAGAGGAAGGGCCTCT	0.647													12	31	---	---	---	---	PASS	A	81249906	A	A	81249906	3	1	4	1	0	0	0	0	1	0	0	0	11965	1174	41	2	7209	2	PKD1L2	16	81249906	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	8721	81249906	9104847	3040	3631										
PKD1L2	114780	broad.mit.edu	37	chr16	81253771	81253771	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagaaaccactgggtgccttCgtcctgaatgaagaccaaat	9	11	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:81253771C>T	uc002fgh.1	-	1	205	c.205G>A	c.(205-207)GAA>AAA	p.E69K	PKD1L2_uc002fgj.2_Missense_Mutation_p.E69K	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	69	Extracellular (Potential).|C-type lectin.				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TGGGTGCCTTCGTCCTGAATG	0.562													16	43	---	---	---	---	PASS	T	81253771	T	T	81253771	3	4	4	1	0	0	0	0	1	0	0	0	11965	893	31	2	7415	2	PKD1L2	16	81253771	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3865	81253771	9100982	3041	3632										
BCMO1	53630	broad.mit.edu	37	chr16	81279095	81279095	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcaggcaagattccagcatGgctgcagggaaccctgctcc	11	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:81279095G>A	uc002fgn.1	+	2	298	c.80G>A	c.(79-81)TGG>TAG	p.W27*	BCMO1_uc002fgm.1_Nonsense_Mutation_p.W27*|BCMO1_uc010vnp.1_Missense_Mutation_p.M1I	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	27					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						ATTCCAGCATGGCTGCAGGGA	0.512													40	77	---	---	---	---	PASS	A	81279095	A	A	81279095	4	1	4	1	0	0	0	0	0	1	0	0	1384	1357	47	3	86	3	BCMO1	16	81279095	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	25324	81279095	9075658	3042	3633										
BCMO1	53630	broad.mit.edu	37	chr16	81303772	81303772	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcctttttcagacttatatCcacatcatcgaccaaaggac	5	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:81303772C>T	uc002fgn.1	+	7	1070	c.852C>T	c.(850-852)ATC>ATT	p.I284I	BCMO1_uc010vnp.1_Silent_p.I215I	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	284					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						AGACTTATATCCACATCATCG	0.552													44	74	---	---	---	---	PASS	T	81303772	T	T	81303772	2	4	4	1	0	0	0	0	0	0	0	1	1384	845	30	2		2	BCMO1	16	81303772	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	24677	81303772	9050981	3043	3634										
CMIP	80790	broad.mit.edu	37	chr16	81735267	81735267	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctgcggttctggacagatCctgtgcttgatgctggaata	12	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:81735267C>T	uc002fgp.2	+	16	1830	c.1758C>T	c.(1756-1758)ATC>ATT	p.I586I	CMIP_uc002fgq.1_Silent_p.I492I|CMIP_uc010vnq.1_Silent_p.I399I|CMIP_uc002fgr.1_Silent_p.I433I	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	552						cytoplasm|nucleus					0						CTGGACAGATCCTGTGCTTGA	0.557													53	94	---	---	---	---	PASS	T	81735267	T	T	81735267	2	4	4	1	0	0	0	0	0	0	0	1	3578	845	30	2		2	CMIP	16	81735267	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	431495	81735267	8619486	3044	3635										
LRRC50	123872	broad.mit.edu	37	chr16	84188257	84188257	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagagcaatggaatacagaAaatcgaaaacctggaggccc	11	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:84188257A>T	uc002fhl.3	+	4	609	c.428A>T	c.(427-429)AAA>ATA	p.K143I	LRRC50_uc010chi.1_RNA	NM_178452	NP_848547	Q8NEP3	DAAF1_HUMAN	leucine rich repeat containing 50	143	LRR 2.				axonemal dynein complex assembly|cilium morphogenesis	cilium axoneme|cytoplasm|spindle pole	dynein binding				0						GGAATACAGAAAATCGAAAAC	0.473									Kartagener_syndrome				9	46	---	---	---	---	PASS	T	84188257	T	T	84188257	3	4	4	1	0	0	0	0	1	0	0	0	9009	14	1	5	442	5	LRRC50	16	84188257	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2452990	84188257	6166496	3045	3636										
TAF1C	9013	broad.mit.edu	37	chr16	84214690	84214690	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtaggggggaggcatttggGgctggagtgccccaggtact	19	7	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:84214690G>A	uc002fhn.2	-	11	1573	c.1345C>T	c.(1345-1347)CCC>TCC	p.P449S	TAF1C_uc002fhm.2_Missense_Mutation_p.P356S|TAF1C_uc010vnx.1_Missense_Mutation_p.P423S|TAF1C_uc010vny.1_Missense_Mutation_p.P40S|TAF1C_uc010vnz.1_Missense_Mutation_p.P117S|TAF1C_uc002fho.2_Intron|TAF1C_uc010voa.1_Missense_Mutation_p.P117S|TAF1C_uc002fhp.1_Intron	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	449					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						AGGCATTTGGGGCTGGAGTGC	0.607													13	25	---	---	---	---	PASS	A	84214690	A	A	84214690	3	1	4	1	0	0	0	0	1	0	0	0	15518	1232	43	3	1280	3	TAF1C	16	84214690	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	26433	84214690	6140063	3046	3637										
CRISPLD2	83716	broad.mit.edu	37	chr16	84872129	84872129	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgtcctgggtggtgtcatcCccttggggctgctgttcctg	15	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:84872129C>T	uc010voh.1	+	2	255	c.28C>T	c.(28-30)CCC>TCC	p.P10S	CRISPLD2_uc010vog.1_Missense_Mutation_p.P10S|CRISPLD2_uc002fio.2_Missense_Mutation_p.P10S|CRISPLD2_uc002fik.3_Missense_Mutation_p.P10S|CRISPLD2_uc002fil.2_Missense_Mutation_p.P10S|CRISPLD2_uc002fim.2_Missense_Mutation_p.P10S|CRISPLD2_uc002fin.3_Missense_Mutation_p.P10S	NM_031476	NP_113664	Q9H0B8	CRLD2_HUMAN	cysteine-rich secretory protein LCCL domain	10						extracellular region|transport vesicle					0						TGGTGTCATCCCCTTGGGGCT	0.622													32	61	---	---	---	---	PASS	T	84872129	T	T	84872129	3	4	4	1	0	0	0	0	1	0	0	0	3883	623	22	3	30	3	CRISPLD2	16	84872129	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	657439	84872129	5482624	3047	3638										
CRISPLD2	83716	broad.mit.edu	37	chr16	84906690	84906690	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaacgggaaggtccccttCttcgtgaagtctgagagaca	13	9	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:84906690C>T	uc010voh.1	+	10	1301	c.1074C>T	c.(1072-1074)TTC>TTT	p.F358F	CRISPLD2_uc010vog.1_Intron|CRISPLD2_uc002fio.2_Silent_p.F357F|CRISPLD2_uc002fim.2_Silent_p.F358F|CRISPLD2_uc002fin.3_Silent_p.F358F	NM_031476	NP_113664	Q9H0B8	CRLD2_HUMAN	cysteine-rich secretory protein LCCL domain	358	LCCL 1.					extracellular region|transport vesicle					0						AGGTCCCCTTCTTCGTGAAGT	0.562													18	41	---	---	---	---	PASS	T	84906690	T	T	84906690	2	4	4	1	0	0	0	0	0	0	0	1	3883	912	32	2		2	CRISPLD2	16	84906690	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	34561	84906690	5448063	3048	3639										
KIAA0513	9764	broad.mit.edu	37	chr16	85100745	85100745	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaggcacccacctcttctcCcctggaggcaccaccccctg	8	20	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:85100745C>T	uc002fiu.2	+	2	288	c.68C>T	c.(67-69)CCC>CTC	p.P23L	KIAA0513_uc002fis.3_Missense_Mutation_p.P23L|KIAA0513_uc010voj.1_Missense_Mutation_p.P23L|KIAA0513_uc002fit.2_Missense_Mutation_p.P23L	NM_014732	NP_055547	O60268	K0513_HUMAN	hypothetical protein LOC9764	23						cytoplasm				breast(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.234)		ACCTCTTCTCCCCTGGAGGCA	0.647													11	29	---	---	---	---	PASS	T	85100745	T	T	85100745	3	4	4	1	0	0	0	0	1	0	0	0	8181	623	22	3	70	3	KIAA0513	16	85100745	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	194055	85100745	5254008	3049	3640										
IRF8	3394	broad.mit.edu	37	chr16	85946809	85946809	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcctgtcggagtcagctcCttccagactggtgggcgcag	15	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:85946809C>T	uc002fjh.2	+	5	577	c.520C>T	c.(520-522)CTT>TTT	p.L174F	IRF8_uc010chp.2_Intron	NM_002163	NP_002154	Q02556	IRF8_HUMAN	interferon regulatory factor 8	174					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			breast(2)|ovary(1)	3		Prostate(104;0.0771)				GAGTCAGCTCCTTCCAGACTG	0.617													20	42	---	---	---	---	PASS	T	85946809	T	T	85946809	3	4	4	1	0	0	0	0	1	0	0	0	7836	681	24	3	534	3	IRF8	16	85946809	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	846064	85946809	4407944	3050	3641										
GALNS	2588	broad.mit.edu	37	chr16	88893133	88893133	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccatcagccggccctgcagGagggtggggaggaggttgag	19	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:88893133G>A	uc002fly.3	-	10	1205	c.1116C>T	c.(1114-1116)CTC>CTT	p.L372L	GALNS_uc010cid.2_Silent_p.L378L|GALNS_uc002flz.3_Silent_p.L55L	NM_000512	NP_000503	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfate sulfatase	372						lysosome	metal ion binding|N-acetylgalactosamine-4-sulfatase activity|N-acetylgalactosamine-6-sulfatase activity			large_intestine(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0496)	Hyaluronidase(DB00070)	GGCCCTGCAGGAGGGTGGGGA	0.657													5	5	---	---	---	---	PASS	A	88893133	A	A	88893133	2	1	4	1	0	0	0	0	0	0	0	1	6206	1161	41	2		2	GALNS	16	88893133	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2946324	88893133	1461620	3051	3642										
ZNF778	197320	broad.mit.edu	37	chr16	89294367	89294367	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catgtgaaaactcacacagaGgagaagccctttatatgtac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:89294367G>A	uc002fmv.2	+	6	1926	c.1587G>A	c.(1585-1587)GAG>GAA	p.E529E	ZNF778_uc010vpf.1_Intron|ZNF778_uc002fmw.1_Silent_p.E487E|ZNF778_uc010vpg.1_Silent_p.E292E	NM_182531	NP_872337	Q96MU6	ZN778_HUMAN	zinc finger protein 778	529					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0269)		CTCACACAGAGGAGAAGCCCT	0.433													14	64	---	---	---	---	PASS	A	89294367	A	A	89294367	2	1	4	1	0	0	0	0	0	0	0	1	18148	991	35	3		3	ZNF778	16	89294367	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	401234	89294367	1060386	3052	3643	144	2								
ZNF778	197320	broad.mit.edu	37	chr16	89294368	89294368	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtgaaaactcacacagagGagaagccctttatatgtacg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:89294368G>A	uc002fmv.2	+	6	1927	c.1588G>A	c.(1588-1590)GAG>AAG	p.E530K	ZNF778_uc010vpf.1_Intron|ZNF778_uc002fmw.1_Missense_Mutation_p.E488K|ZNF778_uc010vpg.1_Missense_Mutation_p.E293K	NM_182531	NP_872337	Q96MU6	ZN778_HUMAN	zinc finger protein 778	530					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0269)		TCACACAGAGGAGAAGCCCTT	0.438													15	62	---	---	---	---	PASS	A	89294368	A	A	89294368	3	1	4	1	0	0	0	0	1	0	0	0	18148	1175	41	2	1606	2	ZNF778	16	89294368	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	89294368	1060385	3053	3644	144	2								
SPG7	6687	broad.mit.edu	37	chr16	89598911	89598911	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggagcctctttaaggaagcCcgagcccgggccccctgcat	12	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:89598911C>T	uc002fnj.2	+	9	1212	c.1191C>T	c.(1189-1191)GCC>GCT	p.A397A	SPG7_uc002fni.2_Silent_p.A397A	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1	397	Mitochondrial matrix (Potential).				cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		TTAAGGAAGCCCGAGCCCGGG	0.592													5	21	---	---	---	---	PASS	T	89598911	T	T	89598911	2	4	4	1	0	0	0	0	0	0	0	1	15043	610	22	3		3	SPG7	16	89598911	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	304543	89598911	755842	3054	3645										
CPNE7	27132	broad.mit.edu	37	chr16	89657454	89657454	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaatttcaaccctgaggacGatgagtgtgaaggtaggagc	13	7	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:89657454G>A	uc002fnp.2	+	14	1511	c.1381G>A	c.(1381-1383)GAT>AAT	p.D461N	CPNE7_uc002fnq.2_Missense_Mutation_p.D386N	NM_014427	NP_055242	Q9UBL6	CPNE7_HUMAN	copine 7 isoform b	461	VWFA.				lipid metabolic process		transporter activity				0		all_hematologic(23;0.0748)		all cancers(4;3.63e-08)|OV - Ovarian serous cystadenocarcinoma(4;1.7e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0147)		CCCTGAGGACGATGAGTGTGA	0.642													9	20	---	---	---	---	PASS	A	89657454	A	A	89657454	3	1	4	1	0	0	0	0	1	0	0	0	3817	1058	37	2	1435	2	CPNE7	16	89657454	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	58543	89657454	697299	3055	3646										
CDK10	8558	broad.mit.edu	37	chr16	89756978	89756978	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagatcgggcccgggacaccCagacagatgagattgtcgca	13	12	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:89756978C>T	uc010cio.2	+	3	221	c.178C>T	c.(178-180)CAG>TAG	p.Q60*	CDK10_uc002foa.2_Nonsense_Mutation_p.Q54*|CDK10_uc010cip.2_5'UTR|CDK10_uc010vpl.1_Nonsense_Mutation_p.Q54*|CDK10_uc002fob.2_5'UTR|CDK10_uc002fod.2_5'UTR|CDK10_uc002foe.2_5'UTR|CDK10_uc002fof.2_5'UTR|CDK10_uc002fog.3_5'UTR|CDK10_uc002foh.3_5'UTR	NM_052988	NP_443714	Q15131	CDK10_HUMAN	cyclin-dependent kinase 10 isoform a	60	Protein kinase.				negative regulation of cell proliferation|traversing start control point of mitotic cell cycle		ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(1)	1		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0276)		CCGGGACACCCAGACAGATGA	0.582													19	26	---	---	---	---	PASS	T	89756978	T	T	89756978	4	4	4	1	0	0	0	0	0	1	0	0	3125	595	21	3	188	3	CDK10	16	89756978	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	99524	89756978	597775	3056	3647										
ZNF276	92822	broad.mit.edu	37	chr16	89804583	89804583	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggccctgcccctggaggcgGaaccaccacctgggccaccg	13	18	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:89804583G>A	uc002fos.3	+	11	1871	c.1774G>A	c.(1774-1776)GAA>AAA	p.E592K	ZNF276_uc010ciq.2_Missense_Mutation_p.E378K|ZNF276_uc002fop.2_3'UTR|ZNF276_uc002foq.3_Missense_Mutation_p.E517K|ZNF276_uc010cir.2_RNA|ZNF276_uc002for.3_Missense_Mutation_p.E378K|ZNF276_uc010cis.2_Missense_Mutation_p.E351K|ZNF276_uc002fot.3_RNA|ZNF276_uc010vpm.1_Missense_Mutation_p.E430K|ZNF276_uc010cit.1_3'UTR|FANCA_uc002fou.1_3'UTR|FANCA_uc010vpn.1_3'UTR	NM_001113525	NP_001106997	Q8N554	ZN276_HUMAN	zinc finger protein 276 isoform a	592					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0278)		CCTGGAGGCGGAACCACCACC	0.647													4	8	---	---	---	---	PASS	A	89804583	A	A	89804583	3	1	4	1	0	0	0	0	1	0	0	0	17808	1175	41	2	1816	2	ZNF276	16	89804583	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	47605	89804583	550170	3057	3648										
TUBB3	10381	broad.mit.edu	37	chr16	90002183	90002183	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatgtacgaagacgacgagGaggagtcggaggcccagggc	18	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:90002183G>A	uc002fph.1	+	4	1389	c.1324G>A	c.(1324-1326)GAG>AAG	p.E442K	TUBB3_uc002fpf.2_Missense_Mutation_p.E789K|TUBB3_uc010ciz.1_Missense_Mutation_p.E370K|TUBB3_uc002fpg.1_Missense_Mutation_p.E296K|TUBB3_uc002fpi.1_Missense_Mutation_p.E370K|TUBB3_uc002fpj.1_Missense_Mutation_p.E370K|TUBB3_uc010cjb.1_Missense_Mutation_p.E296K|TUBB3_uc002fpk.1_Missense_Mutation_p.E296K	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	442					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		AGACGACGAGGAGGAGTCGGA	0.657													23	34	---	---	---	---	PASS	A	90002183	A	A	90002183	3	1	4	1	0	0	0	0	1	0	0	0	16754	1175	41	2	1338	2	TUBB3	16	90002183	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	197600	90002183	352570	3058	3649										
GAS8	2622	broad.mit.edu	37	chr16	90103747	90103747	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctctccagaaggctcgggaGgagatgagcgagatgcagaa	15	9	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr16:90103747G>A	uc002fqi.1	+	7	986	c.864G>A	c.(862-864)GAG>GAA	p.E288E	GAS8_uc010vps.1_Silent_p.E263E|GAS8_uc002fqh.2_Silent_p.E205E|GAS8_uc010vpt.1_3'UTR|GAS8_uc010vpu.1_3'UTR|GAS8_uc010vpv.1_Silent_p.E259E|GAS8_uc010cjc.1_Silent_p.E205E|GAS8_uc010vpw.1_Silent_p.E205E|GAS8_uc002fqj.1_Silent_p.E96E	NM_001481	NP_001472	O95995	GAS8_HUMAN	growth arrest-specific 8	288	Potential.				negative regulation of cell proliferation|sperm motility	cilium|Golgi apparatus|microtubule|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.029)		AGGCTCGGGAGGAGATGAGCG	0.582													12	17	---	---	---	---	PASS	A	90103747	A	A	90103747	2	1	4	1	0	0	0	0	0	0	0	1	6251	991	35	3		3	GAS8	16	90103747	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	101564	90103747	251006	3059	3650										
SCARF1	8578	broad.mit.edu	37	chr17	1538884	1538884	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagccaggctggcctctgacGaccctgcctgggccacaggg	14	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:1538884G>A	uc002fsz.1	-	11	1711	c.1661C>T	c.(1660-1662)TCG>TTG	p.S554L	SCARF1_uc002fsy.1_Missense_Mutation_p.R542C|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Missense_Mutation_p.S468L	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	554	Pro/Ser-rich.|Cytoplasmic (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GGCCTCTGACGACCCTGCCTG	0.667													8	2	---	---	---	---	PASS	A	1538884	A	A	1538884	3	1	4	1	0	0	0	0	1	0	0	0	13883	1059	37	2	835	2	SCARF1	17	1538884	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08		1538884	79656326	3060	3651										
SCARF1	8578	broad.mit.edu	37	chr17	1542192	1542192	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaggcacaaggctgcccgcGatgagggcagtgtcccgact	15	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:1542192G>A	uc002fsz.1	-	8	1322	c.1272C>T	c.(1270-1272)ATC>ATT	p.I424I	SCARF1_uc002fsy.1_Silent_p.I424I|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Silent_p.I338I	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	424	Helical; (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GGCTGCCCGCGATGAGGGCAG	0.627													6	23	---	---	---	---	PASS	A	1542192	A	A	1542192	2	1	4	1	0	0	0	0	0	0	0	1	13883	1048	37	2		2	SCARF1	17	1542192	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	3308	1542192	79653018	3061	3652										
SCARF1	8578	broad.mit.edu	37	chr17	1543015	1543015	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagttgtttccatggaaaccGgctgggcaggaggcgttgca	15	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:1543015G>C	uc002fsz.1	-	7	1211	c.1161C>G	c.(1159-1161)GCC>GCG	p.A387A	SCARF1_uc002fsy.1_Silent_p.A387A|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Intron	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	387	Extracellular (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CATGGAAACCGGCTGGGCAGG	0.602													6	4	---	---	---	---	PASS	C	1543015	C	C	1543015	2	2	4	1	0	0	0	0	0	0	0	1	13883	1103	39	4		4	SCARF1	17	1543015	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	823	1543015	79652195	3062	3653										
SCARF1	8578	broad.mit.edu	37	chr17	1543206	1543206	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccgggatccccatccttacCtgggcccccagtagccggca	10	19	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:1543206C>T	uc002fsz.1	-	6	1189	c.1139G>A	c.(1138-1140)AGC>AAC	p.S380N	SCARF1_uc002fsy.1_Missense_Mutation_p.S380N|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Intron	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	380	Extracellular (Potential).|EGF-like 6.				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CCATCCTTACCTGGGCCCCCA	0.617													11	19	---	---	---	---	PASS	T	1543206	T	T	1543206	3	4	4	1	0	0	0	0	1	0	0	0	13883	695	24	3	1377	3	SCARF1	17	1543206	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	191	1543206	79652004	3063	3654										
PRPF8	10594	broad.mit.edu	37	chr17	1582317	1582317	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccaatgcaggcaccttggtGgtgagcgttttcacaggctt	12	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:1582317G>A	uc002fte.2	-	11	1707	c.1593C>T	c.(1591-1593)ACC>ACT	p.T531T		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	531						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		GCACCTTGGTGGTGAGCGTTT	0.522													17	69	---	---	---	---	PASS	A	1582317	A	A	1582317	2	1	4	1	0	0	0	0	0	0	0	1	12575	1335	47	3		3	PRPF8	17	1582317	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	39111	1582317	79612893	3064	3655										
OR1D2	4991	broad.mit.edu	37	chr17	2996075	2996075	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggattgtgttggtgacaaaGaagaggtcagtgaaggagag	18	2	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:2996075G>A	uc010vrb.1	-	1	216	c.216C>T	c.(214-216)TTC>TTT	p.F72F		NM_002548	NP_002539	P34982	OR1D2_HUMAN	olfactory receptor, family 1, subfamily D,	72	Helical; Name=2; (Potential).				cellular component movement|chemotaxis|protein import into nucleus, translocation|sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						TGGTGACAAAGAAGAGGTCAG	0.532													50	90	---	---	---	---	PASS	A	2996075	A	A	2996075	2	1	4	1	0	0	0	0	0	0	0	1	10953	933	33	2		2	OR1D2	17	2996075	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1413758	2996075	78199135	3065	3656										
CAMKK1	84254	broad.mit.edu	37	chr17	3779583	3779583	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaatgctggggttcccgcCgtgctggacagctgagcgtc	15	11	0	2	rs148844492	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:3779583C>A	uc002fwt.2	-	10	1024	c.930G>T	c.(928-930)ACG>ACT	p.T310T	CAMKK1_uc002fwu.2_Silent_p.T310T|CAMKK1_uc002fwv.2_Silent_p.T348T	NM_172206	NP_757343	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase 1	310	Protein kinase.				synaptic transmission	cytosol|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1				LUAD - Lung adenocarcinoma(2;2.11e-05)|Lung(3;0.0176)		GGGTTCCCGCCGTGCTGGACA	0.627													4	30	---	---	---	---	PASS	A	3779583	A	A	3779583	2	1	4	1	0	0	0	0	0	0	0	1	2606	639	23	1		1	CAMKK1	17	3779583	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	783508	3779583	77415627	3066	3657										
ATP2A3	489	broad.mit.edu	37	chr17	3845967	3845967	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgtgcagtacacggacatgGatttccggtctcgggagaac	14	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:3845967G>A	uc002fxb.1	-	12	1629	c.1478C>T	c.(1477-1479)TCC>TTC	p.S493F	ATP2A3_uc002fwx.1_Missense_Mutation_p.S493F|ATP2A3_uc002fwy.1_Missense_Mutation_p.S493F|ATP2A3_uc002fwz.1_Missense_Mutation_p.S493F|ATP2A3_uc002fxa.1_Missense_Mutation_p.S493F|ATP2A3_uc002fxc.1_Missense_Mutation_p.S493F|ATP2A3_uc002fxd.1_Missense_Mutation_p.S493F	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	493	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		CACGGACATGGATTTCCGGTC	0.642													21	31	---	---	---	---	PASS	A	3845967	A	A	3845967	3	1	4	1	0	0	0	0	1	0	0	0	1138	1174	41	2	1772	2	ATP2A3	17	3845967	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	66384	3845967	77349243	3067	3658										
ATP2A3	489	broad.mit.edu	37	chr17	3846781	3846781	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcaagtcagagctgtctcCgtggcctctcccaccttctc	9	16	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:3846781C>T	uc002fxb.1	-	11	1474	c.1323G>A	c.(1321-1323)ACG>ACA	p.T441T	ATP2A3_uc002fwx.1_Silent_p.T441T|ATP2A3_uc002fwy.1_Silent_p.T441T|ATP2A3_uc002fwz.1_Silent_p.T441T|ATP2A3_uc002fxa.1_Silent_p.T441T|ATP2A3_uc002fxc.1_Silent_p.T441T|ATP2A3_uc002fxd.1_Silent_p.T441T	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	441	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		GAGCTGTCTCCGTGGCCTCTC	0.637													28	72	---	---	---	---	PASS	T	3846781	T	T	3846781	2	4	4	1	0	0	0	0	0	0	0	1	1138	639	23	1		1	ATP2A3	17	3846781	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	814	3846781	77348429	3068	3659										
ZZEF1	23140	broad.mit.edu	37	chr17	3966127	3966127	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcagtggggctgcccaagGgattctgcacagtgctgagt	15	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:3966127G>A	uc002fxe.2	-	30	4867	c.4803C>T	c.(4801-4803)TCC>TCT	p.S1601S	ZZEF1_uc002fxh.2_5'UTR|ZZEF1_uc002fxi.2_5'UTR|ZZEF1_uc002fxj.1_Silent_p.S214S	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	1601							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCTGCCCAAGGGATTCTGCAC	0.488													4	15	---	---	---	---	PASS	A	3966127	A	A	3966127	2	1	4	1	0	0	0	0	0	0	0	1	18252	1219	43	3		3	ZZEF1	17	3966127	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	119346	3966127	77229083	3069	3660										
PLD2	5338	broad.mit.edu	37	chr17	4722448	4722448	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggagagctgggcgggcaccCcgtctcggagctcatctaca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:4722448C>T	uc002fzc.2	+	22	2344	c.2243C>T	c.(2242-2244)CCC>CTC	p.P748L	PLD2_uc002fzd.2_Missense_Mutation_p.P748L	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	748	Catalytic.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	GGCGGGCACCCCGTCTCGGAG	0.597													9	31	---	---	---	---	PASS	T	4722448	T	T	4722448	3	4	4	1	0	0	0	0	1	0	0	0	12046	623	22	3	2325	3	PLD2	17	4722448	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	756321	4722448	76472762	3070	3661	145	2								
PLD2	5338	broad.mit.edu	37	chr17	4722449	4722449	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagagctgggcgggcacccCgtctcggagctcatctacat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:4722449C>T	uc002fzc.2	+	22	2345	c.2244C>T	c.(2242-2244)CCC>CCT	p.P748P	PLD2_uc002fzd.2_Silent_p.P748P	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	748	Catalytic.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	GCGGGCACCCCGTCTCGGAGC	0.597													10	29	---	---	---	---	PASS	T	4722449	T	T	4722449	2	4	4	1	0	0	0	0	0	0	0	1	12046	639	23	1		1	PLD2	17	4722449	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	4722449	76472761	3071	3662	145	2								
MINK1	50488	broad.mit.edu	37	chr17	4799981	4799981	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccacagcctacatctgctCcaaccagataatgggctggg	9	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:4799981C>T	uc010vsl.1	+	31	3984	c.3788C>T	c.(3787-3789)TCC>TTC	p.S1263F	MINK1_uc010vsk.1_Missense_Mutation_p.S1234F|MINK1_uc010vsm.1_Missense_Mutation_p.S1243F|MINK1_uc010vsn.1_Missense_Mutation_p.S1226F|MINK1_uc010vso.1_Missense_Mutation_p.S1171F|MINK1_uc010vsp.1_Missense_Mutation_p.S724F|C17orf107_uc010ckr.2_5'Flank|C17orf107_uc002fzl.3_5'Flank	NM_153827	NP_722549	Q8N4C8	MINK1_HUMAN	misshapen-like kinase 1 isoform 3	1263	Mediates interaction with RAP2A.|CNH.				JNK cascade	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)|skin(1)	6						TACATCTGCTCCAACCAGATA	0.637													7	9	---	---	---	---	PASS	T	4799981	T	T	4799981	3	4	4	1	0	0	0	0	1	0	0	0	9587	855	30	2	3677	2	MINK1	17	4799981	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	77532	4799981	76395229	3072	3663										
CHRNE	1145	broad.mit.edu	37	chr17	4805916	4805916	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgagggtgggggtagcttacCagtgagatgagattcgtcag	17	5	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:4805916C>T	uc002fzk.1	-	2	200	c.189G>A	c.(187-189)CTG>CTA	p.L63L	C17orf107_uc002fzl.3_3'UTR	NM_000080	NP_000071	Q04844	ACHE_HUMAN	nicotinic acetylcholine receptor epsilon	63	Extracellular (Potential).				muscle contraction|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						GGTAGCTTACCAGTGAGATGA	0.532													44	82	---	---	---	---	PASS	T	4805916	T	T	4805916	2	4	4	1	0	0	0	0	0	0	0	1	3395	608	21	3		3	CHRNE	17	4805916	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	5935	4805916	76389294	3073	3664										
RNF167	26001	broad.mit.edu	37	chr17	4848088	4848088	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgcaagcagcctgttcatcGgggtcctggggacgaagacc	14	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:4848088G>T	uc002fzq.2	+	11	1246	c.830G>T	c.(829-831)CGG>CTG	p.R277L	RNF167_uc002fzr.2_Missense_Mutation_p.R277L|RNF167_uc002fzs.2_Missense_Mutation_p.R277L|RNF167_uc002fzt.2_Missense_Mutation_p.R277L|RNF167_uc002fzu.2_Missense_Mutation_p.R276L|RNF167_uc002fzv.2_Missense_Mutation_p.R242L|RNF167_uc002fzx.2_Missense_Mutation_p.R241L|RNF167_uc002fzy.2_Missense_Mutation_p.R76L	NM_015528	NP_056343	Q9H6Y7	RN167_HUMAN	ring finger protein 167 precursor	277					negative regulation of cell cycle|protein polyubiquitination	cytoplasm|endomembrane system|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						CCTGTTCATCGGGGTCCTGGG	0.597													5	57	---	---	---	---	PASS	T	4848088	T	T	4848088	3	4	4	1	0	0	0	0	1	0	0	0	13458	1116	39	1	864	1	RNF167	17	4848088	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	42172	4848088	76347122	3074	3665										
SPAG7	9552	broad.mit.edu	37	chr17	4863819	4863819	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctgcccactgtcttgaatGaaatctgacacctccttctc	5	14	4	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:4863819G>A	uc002gae.2	-	3	210	c.177C>T	c.(175-177)TTC>TTT	p.F59F	SPAG7_uc002gad.2_Silent_p.F8F|SPAG7_uc002gaf.2_Silent_p.F59F	NM_004890	NP_004881	O75391	SPAG7_HUMAN	sperm associated antigen 7	59	R3H.					nucleus	nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)	2						TGTCTTGAATGAAATCTGACA	0.522													34	51	---	---	---	---	PASS	A	4863819	A	A	4863819	2	1	4	1	0	0	0	0	0	0	0	1	14983	1281	45	2		2	SPAG7	17	4863819	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	15731	4863819	76331391	3075	3666										
KIF1C	10749	broad.mit.edu	37	chr17	4906956	4906956	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggagtgagcgagccgactCctcaggggcccggggcatgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:4906956C>T	uc002gan.1	+	9	1096	c.770C>T	c.(769-771)TCC>TTC	p.S257F		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	257	Kinesin-motor.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						CGAGCCGACTCCTCAGGGGCC	0.622													13	2	---	---	---	---	PASS	T	4906956	T	T	4906956	3	4	4	1	0	0	0	0	1	0	0	0	8285	855	30	2	796	2	KIF1C	17	4906956	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	43137	4906956	76288254	3076	3667	146	2								
KIF1C	10749	broad.mit.edu	37	chr17	4906957	4906957	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggagtgagcgagccgactcCtcaggggcccggggcatgcg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:4906957C>T	uc002gan.1	+	9	1097	c.771C>T	c.(769-771)TCC>TCT	p.S257S		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	257	Kinesin-motor.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						GAGCCGACTCCTCAGGGGCCC	0.622													13	2	---	---	---	---	PASS	T	4906957	T	T	4906957	2	4	4	1	0	0	0	0	0	0	0	1	8285	668	24	3		3	KIF1C	17	4906957	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	4906957	76288253	3077	3668	146	2								
AIPL1	23746	broad.mit.edu	37	chr17	6329102	6329102	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttggcctcggcctcattcCacacctctgcgtgagcccgg	10	18	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:6329102C>T	uc002gcp.2	-	6	928	c.833G>A	c.(832-834)TGG>TAG	p.W278*	AIPL1_uc002gcq.2_Nonsense_Mutation_p.W218*|AIPL1_uc002gcr.2_Nonsense_Mutation_p.W215*|AIPL1_uc010clk.2_Nonsense_Mutation_p.W256*|AIPL1_uc010cll.2_Nonsense_Mutation_p.W254*|AIPL1_uc002gcs.2_3'UTR	NM_014336	NP_055151	Q9NZN9	AIPL1_HUMAN	aryl hydrocarbon receptor interacting	278	TPR 3.				protein farnesylation|protein folding|visual perception	cytoplasm|nucleus	farnesylated protein binding|unfolded protein binding				0				COAD - Colon adenocarcinoma(228;0.141)		GGCCTCATTCCACACCTCTGC	0.657													16	12	---	---	---	---	PASS	T	6329102	T	T	6329102	4	4	4	1	0	0	0	0	0	1	0	0	436	595	21	3	325	3	AIPL1	17	6329102	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1422145	6329102	74866108	3078	3669										
SLC2A4	6517	broad.mit.edu	37	chr17	7186595	7186595	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctcagcagcgagtgactgGgaccctggtccttgctgtgt	13	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:7186595G>A	uc002gfp.2	+	2	265	c.65G>A	c.(64-66)GGG>GAG	p.G22E	SLC2A4_uc002gfo.2_Missense_Mutation_p.G22E|SLC2A4_uc010cmd.2_RNA	NM_001042	NP_001033	P14672	GTR4_HUMAN	glucose transporter 4	22	Cytoplasmic (Potential).				carbohydrate metabolic process|glucose homeostasis|glucose import	external side of plasma membrane|integral to plasma membrane|perinuclear region of cytoplasm	D-glucose transmembrane transporter activity|protein binding				0						CGAGTGACTGGGACCCTGGTC	0.567													22	31	---	---	---	---	PASS	A	7186595	A	A	7186595	3	1	4	1	0	0	0	0	1	0	0	0	14546	1232	43	3	71	3	SLC2A4	17	7186595	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	857493	7186595	74008615	3079	3670										
KCTD11	147040	broad.mit.edu	37	chr17	7256759	7256759	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccccccgccccgtggaactCcccgaggtggagtatgggag	15	15	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:7256759C>T	uc002gge.3	+	1	1552	c.498C>T	c.(496-498)CTC>CTT	p.L166L	TMEM95_uc002ggf.1_5'Flank|TMEM95_uc002ggg.1_5'Flank|TMEM95_uc002ggh.1_5'Flank	NM_001002914	NP_001002914	Q693B1	KCD11_HUMAN	potassium channel tetramerisation domain	166					cell cycle|regulation of growth	voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		Prostate(122;0.157)				CCGTGGAACTCCCCGAGGTGG	0.677													3	11	---	---	---	---	PASS	T	7256759	T	T	7256759	2	4	4	1	0	0	0	0	0	0	0	1	8098	842	30	2		2	KCTD11	17	7256759	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	70164	7256759	73938451	3080	3671										
SPEM1	374768	broad.mit.edu	37	chr17	7324589	7324589	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggcatatggtccgagctgGgcctaagggcctatgtgtat	14	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:7324589G>A	uc002ggv.2	+	3	620	c.595G>A	c.(595-597)GGC>AGC	p.G199S	FGF11_uc010vtw.1_Intron	NM_199339	NP_955371	Q8N4L4	SPEM1_HUMAN	spermatid maturation 1	199					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|integral to membrane					0		Prostate(122;0.173)				GTCCGAGCTGGGCCTAAGGGC	0.637													11	34	---	---	---	---	PASS	A	7324589	A	A	7324589	3	1	4	1	0	0	0	0	1	0	0	0	15036	1232	43	3	605	3	SPEM1	17	7324589	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	67830	7324589	73870621	3081	3672										
EIF4A1	1973	broad.mit.edu	37	chr17	7476179	7476179	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catgtctgcgagccaggattCccggtaagaaaggcatttgc	12	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:7476179C>T	uc002gho.1	+	9	1345	c.20C>T	c.(19-21)TCC>TTC	p.S7F	EIF4A1_uc002ghr.1_Missense_Mutation_p.S7F|EIF4A1_uc002ghq.1_Missense_Mutation_p.S7F|EIF4A1_uc002ghp.1_Missense_Mutation_p.S7F|SNORA48_uc002ghs.1_5'Flank	NM_001416	NP_001407	P60842	IF4A1_HUMAN	eukaryotic translation initiation factor 4A	7					nuclear-transcribed mRNA poly(A) tail shortening	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA cap binding|translation initiation factor activity			ovary(1)	1						AGCCAGGATTCCCGGTAAGAA	0.607													34	59	---	---	---	---	PASS	T	7476179	T	T	7476179	3	4	4	1	0	0	0	0	1	0	0	0	5024	855	30	2	22	2	EIF4A1	17	7476179	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	151590	7476179	73719031	3082	3673										
TP53	7157	broad.mit.edu	37	chr17	7578200	7578221	+	Frame_Shift_Del	DEL	CCACACTATGTCGAAAAGTGTT	-	-													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcggctcatagggcaccaCcacactatgtcgaaaagtgt					rs35163653	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:7578200_7578221delCCACACTATGTCGAAAAGTGTT	uc002gim.2	-	6	822_843	c.628_649delAACACTTTTCGACATAGTGTGG	c.(628-651)AACACTTTTCGACATAGTGTGGTGfs	p.N210fs	TP53_uc002gig.1_Frame_Shift_Del_p.N210fs|TP53_uc002gih.2_Frame_Shift_Del_p.N210fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.N78fs|TP53_uc010cng.1_Frame_Shift_Del_p.N78fs|TP53_uc002gii.1_Frame_Shift_Del_p.N78fs|TP53_uc010cnh.1_Frame_Shift_Del_p.N210fs|TP53_uc010cni.1_Frame_Shift_Del_p.N210fs|TP53_uc002gij.2_Frame_Shift_Del_p.N210fs|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Frame_Shift_Del_p.N117fs|TP53_uc002gio.2_Frame_Shift_Del_p.N78fs|TP53_uc010vug.1_Frame_Shift_Del_p.N171fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	210_217	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> I (in a sporadic cancer; somatic mutation).|V -> A (in sporadic cancers; somatic mutation).|V -> E (in sporadic cancers; somatic mutation).|V -> L (in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(186)|p.V216M(49)|p.H214R(45)|p.R213L(25)|p.R213Q(22)|p.S215R(16)|p.S215I(15)|p.R213fs*34(10)|p.T211T(9)|p.V216del(8)|p.V216L(7)|p.T211I(7)|p.F212fs*3(7)|p.0?(7)|p.S215G(6)|p.S215N(6)|p.S215C(5)|p.R213P(5)|p.S215fs*32(4)|p.V216E(4)|p.T211N(4)|p.H214Y(4)|p.H214Q(4)|p.N210fs*37(4)|p.V216A(3)|p.V216G(3)|p.H214D(3)|p.S215T(3)|p.T211fs*4(3)|p.F212L(3)|p.T211fs*36(2)|p.S215S(2)|p.N210S(2)|p.H214fs*5(2)|p.R209fs*35(2)|p.V216fs*6(2)|p.R120*(2)|p.T211A(2)|p.T211fs*5(2)|p.V216fs*31(2)|p.V217L(2)|p.R81*(2)|p.F212S(2)|p.H214fs*33(2)|p.F212I(2)|p.R213G(2)|p.V217fs*33(1)|p.S215fs*27(1)|p.S215fs*29(1)|p.D207_R213delDDRNTFR(1)|p.V217fs*5(1)|p.N210D(1)|p.N210N(1)|p.S215fs*31(1)|p.N210H(1)|p.N210K(1)|p.N210T(1)|p.D207_V216del10(1)|p.T211fs*28(1)|p.H214fs*7(1)|p.R213fs*32(1)|p.?fs(1)|p.D208_V216delDRNTFRHSV(1)|p.R209fs*36(1)|p.V216fs*5(1)|p.V216_Y220delVVVPY(1)|p.D208fs*1(1)|p.V217del(1)|p.R213fs*2(1)|p.T211P(1)|p.T211S(1)|p.K164_P219del(1)|p.H214H(1)|p.F212fs*4(1)|p.R209_R213delRNTFR(1)|p.S215_V216insX(1)|p.R213_S215>X(1)|p.V216fs*28(1)|p.V216fs*32(1)|p.V216fs*33(1)|p.S215del(1)|p.H214_S215insX(1)|p.T211_F212insX(1)|p.T211_S215delTFRHS(1)|p.E204_N210delEYLDDRN(1)|p.?(1)|p.N210fs*7(1)|p.R213>L(1)|p.F212Y(1)|p.S215_V218>R(1)|p.R213W(1)|p.R213R(1)|p.R209fs*6(1)|p.R209fs*5(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)		TAGGGCACCACCACACTATGTCGAAAAGTGTTTCTGTCATCC	0.545		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)			12	6	---	---	---	---		-	7578221	-	-	7578200	7	5	4	1	0	1	0	1	0	0	0	0	16378	507	18	0	645	0	TP53	17	7578200	Frame_Shift_Del	DEL	CCACACTATGTCGAAAAGTGTT	TCGA-18-3409-01A-01D-0983-08	102021	7578200	73617010	3083	3674										
DNAH2	146754	broad.mit.edu	37	chr17	7678246	7678246	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacccagaggctgtgcagccAcacctcaaaaaatgctttga	8	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:7678246A>C	uc002giu.1	+	28	4685	c.4671A>C	c.(4669-4671)CCA>CCC	p.P1557P		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1557	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CTGTGCAGCCACACCTCAAAA	0.517													11	24	---	---	---	---	PASS	C	7678246	C	C	7678246	2	2	4	1	0	0	0	0	0	0	0	1	4602	146	6	5		5	DNAH2	17	7678246	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	100046	7678246	73516964	3084	3675										
DNAH2	146754	broad.mit.edu	37	chr17	7705318	7705318	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccaccaaatacctggaactCctgtctggatataagaagta	7	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:7705318C>T	uc002giu.1	+	57	8969	c.8955C>T	c.(8953-8955)CTC>CTT	p.L2985L	DNAH2_uc010cnm.1_5'Flank	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2985					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				ACCTGGAACTCCTGTCTGGAT	0.512													16	27	---	---	---	---	PASS	T	7705318	T	T	7705318	2	4	4	1	0	0	0	0	0	0	0	1	4602	842	30	2		2	DNAH2	17	7705318	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	27072	7705318	73489892	3085	3676										
KDM6B	23135	broad.mit.edu	37	chr17	7749997	7749997	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctgcagcactctcaggccCctcaggggaggagggcctca	13	15	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:7749997C>T	uc002giw.1	+	8	1026	c.650C>T	c.(649-651)CCC>CTC	p.P217L	KDM6B_uc002gix.2_5'Flank	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	217	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						CTCTCAGGCCCCTCAGGGGAG	0.642													12	32	---	---	---	---	PASS	T	7749997	T	T	7749997	3	4	4	1	0	0	0	0	1	0	0	0	8138	623	22	3	668	3	KDM6B	17	7749997	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	44679	7749997	73445213	3086	3677										
ALOX15B	247	broad.mit.edu	37	chr17	7945806	7945806	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttttatctacaggctggctCtgcgtgaggatgcccaccct	10	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:7945806C>T	uc002gju.2	+	4	685	c.569C>T	c.(568-570)TCT>TTT	p.S190F	ALOX15B_uc002gjv.2_Missense_Mutation_p.S190F|ALOX15B_uc002gjw.2_Missense_Mutation_p.S190F|ALOX15B_uc010vun.1_Missense_Mutation_p.S190F|ALOX15B_uc010cnp.2_5'UTR	NM_001141	NP_001132	O15296	LX15B_HUMAN	arachidonate 15-lipoxygenase, second type	190	Lipoxygenase.				induction of apoptosis|leukotriene biosynthetic process|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of growth|prostate gland development|regulation of epithelial cell differentiation	cytoplasm	arachidonate 15-lipoxygenase activity|iron ion binding|lipoxygenase activity			ovary(1)	1						CAGGCTGGCTCTGCGTGAGGA	0.547													9	30	---	---	---	---	PASS	T	7945806	T	T	7945806	3	4	4	1	0	0	0	0	1	0	0	0	539	913	32	2	583	2	ALOX15B	17	7945806	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	195809	7945806	73249404	3087	3678										
PER1	5187	broad.mit.edu	37	chr17	8053942	8053942	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccggtgctgtgggggcccaGgggatgggacgcccccagga	20	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:8053942G>A	uc002gkd.2	-	2	321	c.83C>T	c.(82-84)CCT>CTT	p.P28L	PER1_uc010vuq.1_RNA|PER1_uc010vur.1_Intron|PER1_uc010vus.1_Missense_Mutation_p.P28L	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	28					circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						TGGGGGCCCAGGGGATGGGAC	0.652			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					15	25	---	---	---	---	PASS	A	8053942	A	A	8053942	3	1	4	1	0	0	0	0	1	0	0	0	11729	1000	35	3	3877	3	PER1	17	8053942	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	108136	8053942	73141268	3088	3679										
C17orf68	80169	broad.mit.edu	37	chr17	8138499	8138499	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgagtgagccccaggcttCtgacgagagaagctttgaag	14	8	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:8138499C>T	uc002gkq.3	-	8	1370	c.1311G>A	c.(1309-1311)CAG>CAA	p.Q437Q	C17orf68_uc010cnv.2_RNA	NM_025099	NP_079375	Q2NKJ3	CTC1_HUMAN	alpha accessory factor 132	437					positive regulation of DNA replication|telomere maintenance	Stn1-Ten1 complex	protein binding|single-stranded DNA binding				0						CCCCAGGCTTCTGACGAGAGA	0.617													49	17	---	---	---	---	PASS	T	8138499	T	T	8138499	2	4	4	1	0	0	0	0	0	0	0	1	1876	912	32	2		2	C17orf68	17	8138499	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	84557	8138499	73056711	3089	3680										
MFSD6L	162387	broad.mit.edu	37	chr17	8700739	8700739	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgttctgtcccctgctcaGagtcactggtgtcactcacc	8	16	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:8700739G>A	uc002glp.1	-	1	1848	c.1700C>T	c.(1699-1701)TCT>TTT	p.S567F		NM_152599	NP_689812	Q8IWD5	MFS6L_HUMAN	major facilitator superfamily domain containing	567						integral to membrane				central_nervous_system(1)	1						CCCCTGCTCAGAGTCACTGGT	0.557													13	36	---	---	---	---	PASS	A	8700739	A	A	8700739	3	1	4	1	0	0	0	0	1	0	0	0	9536	942	33	2	64	2	MFSD6L	17	8700739	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	562240	8700739	72494471	3090	3681										
PIK3R5	23533	broad.mit.edu	37	chr17	8785136	8785136	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcttccggcaggccttgttGaggttcacggaggtacagac	14	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:8785136G>A	uc002glt.2	-	16	2335	c.2268C>T	c.(2266-2268)CTC>CTT	p.L756L	PIK3R5_uc010vuz.1_Silent_p.L756L|PIK3R5_uc002glu.3_Silent_p.L370L	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	756					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						AGGCCTTGTTGAGGTTCACGG	0.612													13	28	---	---	---	---	PASS	A	8785136	A	A	8785136	2	1	4	1	0	0	0	0	0	0	0	1	11922	1277	45	2		2	PIK3R5	17	8785136	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	84397	8785136	72410074	3091	3682										
WDR16	146845	broad.mit.edu	37	chr17	9538775	9538775	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagctggaggaggccctgaaGgaacacaagtcatcagtgtc	13	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:9538775G>A	uc002gly.2	+	11	1443	c.1374G>A	c.(1372-1374)AAG>AAA	p.K458K	WDR16_uc002glz.2_Silent_p.K390K|WDR16_uc010coc.2_Silent_p.K468K	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	458						cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						AGGCCCTGAAGGAACACAAGT	0.532													15	22	---	---	---	---	PASS	A	9538775	A	A	9538775	2	1	4	1	0	0	0	0	0	0	0	1	17273	991	35	3		3	WDR16	17	9538775	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	753639	9538775	71656435	3092	3683										
MYH13	8735	broad.mit.edu	37	chr17	10227347	10227347	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggtttgctcaccttgttctCtgtggcatgcttctcctttt	9	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10227347C>T	uc002gmk.1	-	23	3016	c.2926G>A	c.(2926-2928)GAG>AAG	p.E976K	MYH13_uc010vve.1_Missense_Mutation_p.E74K	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	976	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						ACCTTGTTCTCTGTGGCATGC	0.488													15	21	---	---	---	---	PASS	T	10227347	T	T	10227347	3	4	4	1	0	0	0	0	1	0	0	0	10032	922	32	2	2966	2	MYH13	17	10227347	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	688572	10227347	70967863	3093	3684										
MYH13	8735	broad.mit.edu	37	chr17	10235428	10235428	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgctcaccttggtgttgccGaacctgaactgctcccggtc	11	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10235428G>A	uc002gmk.1	-	20	2376	c.2286C>T	c.(2284-2286)TTC>TTT	p.F762F		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	762	Myosin head-like.|Actin-binding (By similarity).				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TGGTGTTGCCGAACCTGAACT	0.547													27	29	---	---	---	---	PASS	A	10235428	A	A	10235428	2	1	4	1	0	0	0	0	0	0	0	1	10032	1049	37	2		2	MYH13	17	10235428	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	8081	10235428	70959782	3094	3685										
MYH13	8735	broad.mit.edu	37	chr17	10247140	10247140	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctctgcaccagcatagttgGaaaaaaggaaggagagaagc	12	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10247140G>A	uc002gmk.1	-	16	1961	c.1871C>T	c.(1870-1872)TCC>TTC	p.S624F	MYH13_uc010vvf.1_Missense_Mutation_p.S299F	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	624	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						AGCATAGTTGGAAAAAAGGAA	0.488													24	22	---	---	---	---	PASS	A	10247140	A	A	10247140	3	1	4	1	0	0	0	0	1	0	0	0	10032	1174	41	2	4049	2	MYH13	17	10247140	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	11712	10247140	70948070	3095	3686										
MYH13	8735	broad.mit.edu	37	chr17	10261144	10261144	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatctgatcctctagggttcCctaataataaacaagaagag	8	8	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10261144C>T	uc002gmk.1	-	8	736	c.646G>A	c.(646-648)GGA>AGA	p.G216R		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	216	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TCTAGGGTTCCCTAATAATAA	0.458													11	46	---	---	---	---	PASS	T	10261144	T	T	10261144	3	4	4	1	0	0	0	0	1	0	0	0	10032	637	22	3	5306	3	MYH13	17	10261144	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	14004	10261144	70934066	3096	3687										
MYH8	4626	broad.mit.edu	37	chr17	10296201	10296201	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acccttcagcgccagctgctCggcctcatctagacgatgct	9	16	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10296201C>A	uc002gmm.2	-	37	5505	c.5410G>T	c.(5410-5412)GAG>TAG	p.E1804*	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1804	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GCCAGCTGCTCGGCCTCATCT	0.572									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				4	68	---	---	---	---	PASS	A	10296201	A	A	10296201	4	1	4	1	0	0	0	0	0	1	0	0	10041	893	31	2	419	2	MYH8	17	10296201	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	35057	10296201	70899009	3097	3688										
MYH8	4626	broad.mit.edu	37	chr17	10304884	10304884	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctccgtggcatgtttctcCttctcaaccttggccagtgt	8	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10304884C>T	uc002gmm.2	-	23	3002	c.2907G>A	c.(2905-2907)AAG>AAA	p.K969K	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	969	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						CATGTTTCTCCTTCTCAACCT	0.408									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				38	122	---	---	---	---	PASS	T	10304884	T	T	10304884	2	4	4	1	0	0	0	0	0	0	0	1	10041	680	24	3		3	MYH8	17	10304884	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	8683	10304884	70890326	3098	3689										
MYH4	4622	broad.mit.edu	37	chr17	10351386	10351386	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcggtcaatctcagatttcaCctgatttagctcaagttgaa	7	9	4	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10351386C>T	uc002gmn.2	-	34	4825	c.4714G>A	c.(4714-4716)GTG>ATG	p.V1572M	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1572	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TCAGATTTCACCTGATTTAGC	0.373													18	27	---	---	---	---	PASS	T	10351386	T	T	10351386	3	4	4	1	0	0	0	0	1	0	0	0	10037	507	18	3	1133	3	MYH4	17	10351386	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	46502	10351386	70843824	3099	3690										
MYH1	4619	broad.mit.edu	37	chr17	10399723	10399723	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcatccagtgtgctctgcatGgactccacgattctaatgtg	10	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10399723G>A	uc002gmo.2	-	34	4894	c.4800C>T	c.(4798-4800)TCC>TCT	p.S1600S	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1600	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TGCTCTGCATGGACTCCACGA	0.438													38	65	---	---	---	---	PASS	A	10399723	A	A	10399723	2	1	4	1	0	0	0	0	0	0	0	1	10029	1335	47	3		3	MYH1	17	10399723	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	48337	10399723	70795487	3100	3691										
MYH1	4619	broad.mit.edu	37	chr17	10405195	10405195	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctctttctagatccatccGgattttcttttcttgttcca	5	11	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10405195G>A	uc002gmo.2	-	25	3239	c.3145C>T	c.(3145-3147)CGG>TGG	p.R1049W	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1049	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						AGATCCATCCGGATTTTCTTT	0.348													17	13	---	---	---	---	PASS	A	10405195	A	A	10405195	3	1	4	1	0	0	0	0	1	0	0	0	10029	1115	39	1	2738	1	MYH1	17	10405195	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5472	10405195	70790015	3101	3692										
MYH2	4620	broad.mit.edu	37	chr17	10427837	10427837	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccaggagctcctgttctgcGatttttctgctcctctctgt	8	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10427837G>A	uc010coi.2	-	35	5249	c.5121C>T	c.(5119-5121)ATC>ATT	p.I1707I	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.I1707I|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1707	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CCTGTTCTGCGATTTTTCTGC	0.542													22	37	---	---	---	---	PASS	A	10427837	A	A	10427837	2	1	4	1	0	0	0	0	0	0	0	1	10035	1048	37	2		2	MYH2	17	10427837	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	22642	10427837	70767373	3102	3693										
MYH2	4620	broad.mit.edu	37	chr17	10429160	10429160	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcacagcttctacatgttcCtcagctgcctgcagccgctg	8	15	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10429160C>T	uc010coi.2	-	31	4349	c.4221G>A	c.(4219-4221)GAG>GAA	p.E1407E	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.E1407E|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1407	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTACATGTTCCTCAGCTGCCT	0.478													5	26	---	---	---	---	PASS	T	10429160	T	T	10429160	2	4	4	1	0	0	0	0	0	0	0	1	10035	680	24	3		3	MYH2	17	10429160	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1323	10429160	70766050	3103	3694										
MYH2	4620	broad.mit.edu	37	chr17	10438597	10438597	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cattatggaatttcttaccaGgagtttttgtctcattgggg	10	6	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10438597G>A	uc010coi.2	-	18	2188	c.2060C>T	c.(2059-2061)CCT>CTT	p.P687L	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.P687L|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	687	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TTTCTTACCAGGAGTTTTTGT	0.423													7	18	---	---	---	---	PASS	A	10438597	A	A	10438597	3	1	4	1	0	0	0	0	1	0	0	0	10035	1000	35	3	3857	3	MYH2	17	10438597	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	9437	10438597	70756613	3104	3695										
MYH2	4620	broad.mit.edu	37	chr17	10443353	10443353	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtaaatggagaccttttcttCattagtaaagcccaaaatat	6	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10443353C>T	uc010coi.2	-	12	1167	c.1039G>A	c.(1039-1041)GAA>AAA	p.E347K	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.E347K|MYH2_uc010coj.2_Missense_Mutation_p.E347K	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	347	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						ACCTTTTCTTCATTAGTAAAG	0.423													21	74	---	---	---	---	PASS	T	10443353	T	T	10443353	3	4	4	1	0	0	0	0	1	0	0	0	10035	835	29	2	4902	2	MYH2	17	10443353	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4756	10443353	70751857	3105	3696										
MYH2	4620	broad.mit.edu	37	chr17	10447437	10447437	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgatcaggattgactgattCtctcggtctacaaaagaaat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10447437C>T	uc010coi.2	-	6	641	c.513G>A	c.(511-513)GAG>GAA	p.E171E	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.E171E|MYH2_uc010coj.2_Silent_p.E171E	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	171	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TTGACTGATTCTCTCGGTCTA	0.308													14	32	---	---	---	---	PASS	T	10447437	T	T	10447437	2	4	4	1	0	0	0	0	0	0	0	1	10035	912	32	2		2	MYH2	17	10447437	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4084	10447437	70747773	3106	3697	147	2								
MYH2	4620	broad.mit.edu	37	chr17	10447438	10447438	+	Missense_Mutation	SNP	T	C	C													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgatcaggattgactgattcTctcggtctacaaaagaaatt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:10447438T>C	uc010coi.2	-	6	640	c.512A>G	c.(511-513)GAG>GGG	p.E171G	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.E171G|MYH2_uc010coj.2_Missense_Mutation_p.E171G	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	171	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TGACTGATTCTCTCGGTCTAC	0.313													12	32	---	---	---	---	PASS	C	10447438	C	C	10447438	3	2	4	1	0	0	0	0	1	0	0	0	10035	1551	54	5	5453	5	MYH2	17	10447438	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1	10447438	70747772	3107	3698	147	2								
DNAH9	1770	broad.mit.edu	37	chr17	11572550	11572550	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctctggtgccacggctttcCccacaaaatggctctcctca	7	16	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:11572550C>T	uc002gne.2	+	16	2969	c.2901C>T	c.(2899-2901)TCC>TCT	p.S967S	DNAH9_uc010coo.2_Silent_p.S261S	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	967	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CACGGCTTTCCCCACAAAATG	0.542													16	45	---	---	---	---	PASS	T	11572550	T	T	11572550	2	4	4	1	0	0	0	0	0	0	0	1	4608	610	22	3		3	DNAH9	17	11572550	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1125112	11572550	69622660	3108	3699										
DNAH9	1770	broad.mit.edu	37	chr17	11572867	11572867	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtacgggcacatcctcactCcggaagaaattgaagaccat	9	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:11572867C>T	uc002gne.2	+	17	3177	c.3109C>T	c.(3109-3111)CCG>TCG	p.P1037S	DNAH9_uc010coo.2_Missense_Mutation_p.P331S	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1037	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CATCCTCACTCCGGAAGAAAT	0.502													24	64	---	---	---	---	PASS	T	11572867	T	T	11572867	3	4	4	1	0	0	0	0	1	0	0	0	4608	855	30	2	3175	2	DNAH9	17	11572867	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	317	11572867	69622343	3109	3700										
DNAH9	1770	broad.mit.edu	37	chr17	11648319	11648319	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgccctggatgtcccccggaGgagagaccccaacttcgaag	12	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:11648319G>A	uc002gne.2	+	31	6385	c.6317G>A	c.(6316-6318)AGG>AAG	p.R2106K	DNAH9_uc010coo.2_Missense_Mutation_p.R1400K	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2106					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GTCCCCCGGAGGAGAGACCCC	0.532													12	48	---	---	---	---	PASS	A	11648319	A	A	11648319	3	1	4	1	0	0	0	0	1	0	0	0	4608	1000	35	3	6439	3	DNAH9	17	11648319	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	75452	11648319	69546891	3110	3701										
DNAH9	1770	broad.mit.edu	37	chr17	11809111	11809111	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggggtggacccactgaagGatgtagaaagtcaaggtgag	16	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:11809111G>A	uc002gne.2	+	61	11802	c.11734G>A	c.(11734-11736)GAT>AAT	p.D3912N	DNAH9_uc010coo.2_Missense_Mutation_p.D3206N|DNAH9_uc002gnf.2_Missense_Mutation_p.D224N|DNAH9_uc010vvh.1_Missense_Mutation_p.D265N	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3912	AAA 6 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CCCACTGAAGGATGTAGAAAG	0.498													10	19	---	---	---	---	PASS	A	11809111	A	A	11809111	3	1	4	1	0	0	0	0	1	0	0	0	4608	1174	41	2	11976	2	DNAH9	17	11809111	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	160792	11809111	69386099	3111	3702										
MYOCD	93649	broad.mit.edu	37	chr17	12655844	12655844	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctctggcaacccagtgccGaactttggggatataacgac	11	11	1	0	rs150316964	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:12655844G>A	uc002gnn.2	+	10	1538	c.1239G>A	c.(1237-1239)CCG>CCA	p.P413P	MYOCD_uc002gno.2_Silent_p.P413P|MYOCD_uc002gnp.1_Silent_p.P317P|MYOCD_uc002gnq.2_Silent_p.P132P	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	413					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		ACCCAGTGCCGAACTTTGGGG	0.552													16	41	---	---	---	---	PASS	A	12655844	A	A	12655844	2	1	4	1	0	0	0	0	0	0	0	1	10087	1045	37	2		2	MYOCD	17	12655844	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	846733	12655844	68539366	3112	3703										
MYOCD	93649	broad.mit.edu	37	chr17	12656034	12656034	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctgccggacaccttcaatGatgcctccccctccttcggc	7	20	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:12656034G>A	uc002gnn.2	+	10	1728	c.1429G>A	c.(1429-1431)GAT>AAT	p.D477N	MYOCD_uc002gno.2_Missense_Mutation_p.D477N|MYOCD_uc002gnp.1_Missense_Mutation_p.D381N|MYOCD_uc002gnq.2_Missense_Mutation_p.D196N	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	477	Ser-rich.				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CACCTTCAATGATGCCTCCCC	0.627													19	35	---	---	---	---	PASS	A	12656034	A	A	12656034	3	1	4	1	0	0	0	0	1	0	0	0	10087	1290	45	2	1467	2	MYOCD	17	12656034	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	190	12656034	68539176	3113	3704										
HS3ST3A1	9955	broad.mit.edu	37	chr17	13399983	13399983	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagcgtctgcgtgtagtccGagatggccctggtcaccggg	15	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:13399983G>A	uc002gob.1	-	2	1550	c.752C>T	c.(751-753)TCG>TTG	p.S251L		NM_006042	NP_006033	Q9Y663	HS3SA_HUMAN	heparan sulfate D-glucosaminyl	251	PAPS and substrate.|Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 3 activity			ovary(1)|central_nervous_system(1)	2		all_lung(20;0.114)		UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CGTGTAGTCCGAGATGGCCCT	0.637													5	25	---	---	---	---	PASS	A	13399983	A	A	13399983	3	1	4	1	0	0	0	0	1	0	0	0	7365	1059	37	2	472	2	HS3ST3A1	17	13399983	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	743949	13399983	67795227	3114	3705										
NCOR1	9611	broad.mit.edu	37	chr17	16024534	16024534	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtggcttgctctctttcctCagtttcttctgctgtaccat	7	12	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:16024534C>T	uc002gpo.2	-	16	1924	c.1684G>A	c.(1684-1686)GAG>AAG	p.E562K	NCOR1_uc002gpn.2_Missense_Mutation_p.E562K|NCOR1_uc002gpp.1_Missense_Mutation_p.E453K|NCOR1_uc002gpr.2_Missense_Mutation_p.E453K	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	562					cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		TCTCTTTCCTCAGTTTCTTCT	0.488													17	36	---	---	---	---	PASS	T	16024534	T	T	16024534	3	4	4	1	0	0	0	0	1	0	0	0	10235	835	29	2	5762	2	NCOR1	17	16024534	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2624551	16024534	65170676	3115	3706										
ZNF624	57547	broad.mit.edu	37	chr17	16537184	16537184	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtttaactcaccaggatagGgaattcttgaaatttctctc	7	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:16537184G>A	uc010cpi.1	-	5	451	c.368C>T	c.(367-369)CCC>CTC	p.P123L		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	123	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		ACCAGGATAGGGAATTCTTGA	0.403													3	21	---	---	---	---	PASS	A	16537184	A	A	16537184	3	1	4	1	0	0	0	0	1	0	0	0	18045	1232	43	3	2237	3	ZNF624	17	16537184	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	512650	16537184	64658026	3116	3707										
TOP3A	7156	broad.mit.edu	37	chr17	18194300	18194300	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctgggagcagcaagccagGaaatggcgaacaataaactc	11	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:18194300G>A	uc002gsx.1	-	12	1552	c.1323C>T	c.(1321-1323)TTC>TTT	p.F441F	TOP3A_uc010cpz.1_5'UTR|TOP3A_uc010vxr.1_5'UTR|TOP3A_uc002gsw.1_Intron|TOP3A_uc010vxs.1_Silent_p.F339F	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	441					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						AGCAAGCCAGGAAATGGCGAA	0.537													14	41	---	---	---	---	PASS	A	18194300	A	A	18194300	2	1	4	1	0	0	0	0	0	0	0	1	16364	1165	41	2		2	TOP3A	17	18194300	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1657116	18194300	63000910	3117	3708										
SMCR8	140775	broad.mit.edu	37	chr17	18219614	18219614	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatcatgcagcagttccagGagctttcagccgaattttcc	8	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:18219614G>A	uc002gsy.3	+	1	1021	c.511G>A	c.(511-513)GAG>AAG	p.E171K		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	171										central_nervous_system(1)	1						GCAGTTCCAGGAGCTTTCAGC	0.488													13	38	---	---	---	---	PASS	A	18219614	A	A	18219614	3	1	4	1	0	0	0	0	1	0	0	0	14792	1175	41	2	513	2	SMCR8	17	18219614	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	25314	18219614	62975596	3118	3709										
SHMT1	6470	broad.mit.edu	37	chr17	18257060	18257060	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccaaaactgctcggctggcGaaattctccgaggcaatcag	10	12	2	0	rs150099862		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:18257060G>A	uc002gta.2	-	3	358	c.168C>T	c.(166-168)TTC>TTT	p.F56F	SHMT1_uc002gtb.2_Silent_p.F56F|SHMT1_uc010cqb.2_Silent_p.F56F|SHMT1_uc010vxt.1_5'UTR|SHMT1_uc002gtd.1_Silent_p.F56F|SHMT1_uc010vxu.1_Silent_p.F56F	NM_004169	NP_004160	P34896	GLYC_HUMAN	serine hydroxymethyltransferase 1 (soluble)	56					carnitine biosynthetic process|folic acid metabolic process|L-serine catabolic process|one-carbon metabolic process|purine base biosynthetic process	cytosol|nucleus	glycine hydroxymethyltransferase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)	1					Glycine(DB00145)|Mimosine(DB01055)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CTCGGCTGGCGAAATTCTCCG	0.468													59	55	---	---	---	---	PASS	A	18257060	A	A	18257060	2	1	4	1	0	0	0	0	0	0	0	1	14285	1049	37	2		2	SHMT1	17	18257060	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	37446	18257060	62938150	3119	3710										
FBXW10	10517	broad.mit.edu	37	chr17	18647829	18647829	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttcatctataacaggtcccGgatcaacctcagcaagaaag	7	11	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:18647829G>A	uc002guk.2	+	1	504	c.272G>A	c.(271-273)CGG>CAG	p.R91Q	FBXW10_uc002guj.2_Missense_Mutation_p.R91Q|FBXW10_uc002gul.2_Missense_Mutation_p.R91Q|FBXW10_uc010cqh.1_Missense_Mutation_p.R91Q	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	91										ovary(1)	1						AACAGGTCCCGGATCAACCTC	0.393													25	94	---	---	---	---	PASS	A	18647829	A	A	18647829	3	1	4	1	0	0	0	0	1	0	0	0	5763	1116	39	1	274	1	FBXW10	17	18647829	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	390769	18647829	62547381	3120	3711										
SLC47A1	55244	broad.mit.edu	37	chr17	19452969	19452969	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttacccagacctatgtcacGatcttcattccagctcttcc	4	16	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:19452969G>A	uc002gvy.1	+	5	563	c.477G>A	c.(475-477)ACG>ACA	p.T159T	SLC47A1_uc010vyy.1_RNA|SLC47A1_uc002gvx.2_Silent_p.T159T|SLC47A1_uc010vyz.1_Silent_p.T136T|SLC47A1_uc010cqp.1_Silent_p.T159T|SLC47A1_uc010cqq.1_Missense_Mutation_p.R11Q	NM_018242	NP_060712	Q96FL8	S47A1_HUMAN	solute carrier family 47, member 1	159	Helical; (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.49e-05)|all_epithelial(12;0.00263)|Hepatocellular(7;0.00345)					CCTATGTCACGATCTTCATTC	0.448													15	71	---	---	---	---	PASS	A	19452969	A	A	19452969	2	1	4	1	0	0	0	0	0	0	0	1	14647	1045	37	2		2	SLC47A1	17	19452969	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	805140	19452969	61742241	3121	3712										
ULK2	9706	broad.mit.edu	37	chr17	19698953	19698953	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctatatccattggtcgttCtgtatttaaactgtctgtgc	7	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:19698953C>T	uc002gwm.3	-	20	2592	c.2083G>A	c.(2083-2085)GAA>AAA	p.E695K	ULK2_uc002gwn.2_Missense_Mutation_p.E695K	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	695					signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					ATTGGTCGTTCTGTATTTAAA	0.308													7	96	---	---	---	---	PASS	T	19698953	T	T	19698953	3	4	4	1	0	0	0	0	1	0	0	0	16973	922	32	2	1059	2	ULK2	17	19698953	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	245984	19698953	61496257	3122	3713										
MAP2K3	5606	broad.mit.edu	37	chr17	21208395	21208395	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacccagagctgaaccagaaGggctacaatgtcaagtccga	10	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:21208395G>A	uc002gys.2	+	9	994	c.729G>A	c.(727-729)AAG>AAA	p.K243K	MAP2K3_uc002gyt.2_Silent_p.K214K|MAP2K3_uc002gyu.2_Silent_p.K214K	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	243	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		TGAACCAGAAGGGCTACAATG	0.637													22	156	---	---	---	---	PASS	A	21208395	A	A	21208395	2	1	4	1	0	0	0	0	0	0	0	1	9238	991	35	3		3	MAP2K3	17	21208395	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1509442	21208395	59986815	3123	3714										
MAP2K3	5606	broad.mit.edu	37	chr17	21217475	21217475	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaggagcaccccttcttcaCcttgcacaaaaccaagaaga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:21217475C>T	uc002gys.2	+	12	1242	c.977C>T	c.(976-978)ACC>ATC	p.T326I	MAP2K3_uc002gyt.2_Missense_Mutation_p.T297I|MAP2K3_uc002gyu.2_Missense_Mutation_p.T297I	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	326					activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		CCCTTCTTCACCTTGCACAAA	0.612													45	332	---	---	---	---	PASS	T	21217475	T	T	21217475	3	4	4	1	0	0	0	0	1	0	0	0	9238	507	18	3	1023	3	MAP2K3	17	21217475	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	9080	21217475	59977735	3124	3715	148	2								
MAP2K3	5606	broad.mit.edu	37	chr17	21217476	21217476	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggagcaccccttcttcacCttgcacaaaaccaagaagac					rs116715468	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:21217476C>T	uc002gys.2	+	12	1243	c.978C>T	c.(976-978)ACC>ACT	p.T326T	MAP2K3_uc002gyt.2_Silent_p.T297T|MAP2K3_uc002gyu.2_Silent_p.T297T	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	326					activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		CCTTCTTCACCTTGCACAAAA	0.617													43	337	---	---	---	---	PASS	T	21217476	T	T	21217476	2	4	4	1	0	0	0	0	0	0	0	1	9238	668	24	3		3	MAP2K3	17	21217476	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	21217476	59977734	3125	3716	148	2								
NOS2	4843	broad.mit.edu	37	chr17	26107882	26107882	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttggcctgcaggaccaggggGaccacatcgaagcggccgta	15	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:26107882G>A	uc002gzu.2	-	9	1179	c.915C>T	c.(913-915)GTC>GTT	p.V305V	NOS2_uc010crh.1_Silent_p.V305V|NOS2_uc010wab.1_Silent_p.V305V	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	305					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GGACCAGGGGGACCACATCGA	0.607													5	23	---	---	---	---	PASS	A	26107882	A	A	26107882	2	1	4	1	0	0	0	0	0	0	0	1	10543	1161	41	2		2	NOS2	17	26107882	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4890406	26107882	55087328	3126	3717										
SLC46A1	113235	broad.mit.edu	37	chr17	26731817	26731817	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atagccgattagtttggagtCccagcagaggggtgtgctta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:26731817C>T	uc002hbf.1	-	2	994	c.898G>A	c.(898-900)GAC>AAC	p.D300N	SLC46A1_uc002hbg.1_Missense_Mutation_p.D300N|SLC46A1_uc010wak.1_Missense_Mutation_p.D300N	NM_080669	NP_542400	Q96NT5	PCFT_HUMAN	proton-coupled folate transporter	300					cellular iron ion homeostasis|folic acid metabolic process	apical plasma membrane|cytoplasm|integral to membrane	folic acid binding|folic acid transporter activity|heme transporter activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Folic Acid(DB00158)	AGTTTGGAGTCCCAGCAGAGG	0.557													20	39	---	---	---	---	PASS	T	26731817	T	T	26731817	3	4	4	1	0	0	0	0	1	0	0	0	14644	855	30	2	498	2	SLC46A1	17	26731817	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	623935	26731817	54463393	3127	3718	149	2								
SLC46A1	113235	broad.mit.edu	37	chr17	26731818	26731818	+	Nonsense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagccgattagtttggagtcCcagcagaggggtgtgcttag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:26731818C>T	uc002hbf.1	-	2	993	c.897G>A	c.(895-897)TGG>TGA	p.W299*	SLC46A1_uc002hbg.1_Nonsense_Mutation_p.W299*|SLC46A1_uc010wak.1_Nonsense_Mutation_p.W299*	NM_080669	NP_542400	Q96NT5	PCFT_HUMAN	proton-coupled folate transporter	299					cellular iron ion homeostasis|folic acid metabolic process	apical plasma membrane|cytoplasm|integral to membrane	folic acid binding|folic acid transporter activity|heme transporter activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Folic Acid(DB00158)	GTTTGGAGTCCCAGCAGAGGG	0.552													20	39	---	---	---	---	PASS	T	26731818	T	T	26731818	4	4	4	1	0	0	0	0	0	1	0	0	14644	624	22	3	499	3	SLC46A1	17	26731818	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	26731818	54463392	3128	3719	149	2								
ALDOC	230	broad.mit.edu	37	chr17	26902293	26902293	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaacaggacctggcggtacaGccggcggttctcctctgtgt	14	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:26902293G>A	uc002hbp.2	-	3	317	c.172C>T	c.(172-174)CTG>TTG	p.L58L	ALDOC_uc010cro.2_Silent_p.L58L	NM_005165	NP_005156	P09972	ALDOC_HUMAN	fructose-bisphosphate aldolase C	58					fructose 1,6-bisphosphate metabolic process|gluconeogenesis|glycolysis	cytosol	cytoskeletal protein binding|fructose-bisphosphate aldolase activity			ovary(1)	1	Lung NSC(42;0.00431)					TGGCGGTACAGCCGGCGGTTC	0.537											OREG0024278	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	25	---	---	---	---	PASS	A	26902293	A	A	26902293	2	1	4	1	0	0	0	0	0	0	0	1	509	962	34	3		3	ALDOC	17	26902293	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	170475	26902293	54292917	3129	3720										
SUPT6H	6830	broad.mit.edu	37	chr17	27016513	27016513	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaggagcccttgaagaaatCttggaaaacccagagcgact	11	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:27016513C>T	uc002hby.2	+	25	3366	c.3276C>T	c.(3274-3276)ATC>ATT	p.I1092I	SUPT6H_uc010crt.2_Silent_p.I1092I|SUPT6H_uc002hbz.1_Silent_p.I24I	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	1092					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					TTGAAGAAATCTTGGAAAACC	0.542													18	19	---	---	---	---	PASS	T	27016513	T	T	27016513	2	4	4	1	0	0	0	0	0	0	0	1	15397	903	32	2		2	SUPT6H	17	27016513	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	114220	27016513	54178697	3130	3721										
SEZ6	124925	broad.mit.edu	37	chr17	27291092	27291092	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caatggaagcgggcactaccCcctgggtggaggctggtgac	16	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:27291092C>T	uc002hdp.2	-	5	1322	c.1128G>A	c.(1126-1128)GGG>GGA	p.G376G	SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Silent_p.G376G|SEZ6_uc002hdq.1_Silent_p.G251G|SEZ6_uc010crz.1_Silent_p.G376G	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	376	Sushi 1.|Extracellular (Potential).					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			GGGCACTACCCCCTGGGTGGA	0.587													6	7	---	---	---	---	PASS	T	27291092	T	T	27291092	2	4	4	1	0	0	0	0	0	0	0	1	14142	610	22	3		3	SEZ6	17	27291092	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	274579	27291092	53904118	3131	3722										
PIPOX	51268	broad.mit.edu	37	chr17	27371896	27371896	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttctttctaccacactcccGaggaagctcccatggacaaa	7	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:27371896G>A	uc002hdr.1	+	2	460	c.134G>A	c.(133-135)CGA>CAA	p.R45Q		NM_016518	NP_057602	Q9P0Z9	SOX_HUMAN	pipecolic acid oxidase	45					tetrahydrofolate metabolic process	peroxisome	L-pipecolate oxidase activity|sarcosine oxidase activity				0	Lung NSC(42;0.015)		Epithelial(11;9.87e-06)|BRCA - Breast invasive adenocarcinoma(11;3.92e-05)|all cancers(11;5.59e-05)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)		Glycine(DB00145)	CCACACTCCCGAGGAAGCTCC	0.502													18	39	---	---	---	---	PASS	A	27371896	A	A	27371896	3	1	4	1	0	0	0	0	1	0	0	0	11943	1058	37	2	140	2	PIPOX	17	27371896	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	80804	27371896	53823314	3132	3723										
TAOK1	57551	broad.mit.edu	37	chr17	27822697	27822697	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagatgaagaaactccttttCcaggaggcacataatggacc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:27822697C>T	uc002hdz.1	+	11	1145	c.951C>T	c.(949-951)TTC>TTT	p.F317F	TAOK1_uc010wbe.1_Silent_p.F317F|TAOK1_uc010wbf.1_Silent_p.F317F|TAOK1_uc002heb.1_Silent_p.F143F	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	317					mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			AACTCCTTTTCCAGGAGGCAC	0.403													23	30	---	---	---	---	PASS	T	27822697	T	T	27822697	2	4	4	1	0	0	0	0	0	0	0	1	15544	854	30	2		2	TAOK1	17	27822697	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	450801	27822697	53372513	3133	3724	150	2								
TAOK1	57551	broad.mit.edu	37	chr17	27822698	27822698	+	Nonsense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatgaagaaactccttttcCaggaggcacataatggacca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:27822698C>T	uc002hdz.1	+	11	1146	c.952C>T	c.(952-954)CAG>TAG	p.Q318*	TAOK1_uc010wbe.1_Nonsense_Mutation_p.Q318*|TAOK1_uc010wbf.1_Nonsense_Mutation_p.Q318*|TAOK1_uc002heb.1_Nonsense_Mutation_p.Q144*	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	318					mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			ACTCCTTTTCCAGGAGGCACA	0.408													24	29	---	---	---	---	PASS	T	27822698	T	T	27822698	4	4	4	1	0	0	0	0	0	1	0	0	15544	595	21	3	990	3	TAOK1	17	27822698	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	27822698	53372512	3134	3725	150	2								
NF1	4763	broad.mit.edu	37	chr17	29483114	29483114	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctttggttataagcggcctCactactattttaaagaatgt	7	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:29483114C>T	uc002hgg.2	+	2	507	c.174C>T	c.(172-174)CTC>CTT	p.L58L	NF1_uc002hge.1_Silent_p.L58L|NF1_uc002hgf.1_Silent_p.L58L|NF1_uc002hgh.2_Silent_p.L58L|NF1_uc010csn.1_5'UTR	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	58					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.0?(5)|p.?(3)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TAAGCGGCCTCACTACTATTT	0.338			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			10	35	---	---	---	---	PASS	T	29483114	T	T	29483114	2	4	4	1	0	0	0	0	0	0	0	1	10356	813	29	2		2	NF1	17	29483114	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1660416	29483114	51712096	3135	3726										
ZNF207	7756	broad.mit.edu	37	chr17	30678826	30678826	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tattgtaatagagattttgaTgatgagaagatccttattca	8	3	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:30678826T>G	uc002hhh.3	+	2	211	c.63T>G	c.(61-63)GAT>GAG	p.D21E	ZNF207_uc002hhj.3_Missense_Mutation_p.D21E|ZNF207_uc002hhi.3_Missense_Mutation_p.D21E|ZNF207_uc010csz.2_Missense_Mutation_p.D24E|ZNF207_uc002hhk.1_Missense_Mutation_p.D21E	NM_003457	NP_003448	O43670	ZN207_HUMAN	zinc finger protein 207 isoform a	21	C2H2-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			GAGATTTTGATGATGAGAAGA	0.333													3	24	---	---	---	---	PASS	G	30678826	G	G	30678826	3	3	4	1	0	0	0	0	1	0	0	0	17762	1461	51	5	69	5	ZNF207	17	30678826	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1195712	30678826	50516384	3136	3727										
SPACA3	124912	broad.mit.edu	37	chr17	31324761	31324761	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcatcactgccagggaaaaGacctcactgaatgggtggat	13	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:31324761G>A	uc002hhs.1	+	5	688	c.613G>A	c.(613-615)GAC>AAC	p.D205N	SPACA3_uc010cte.1_RNA	NM_173847	NP_776246	Q8IXA5	SACA3_HUMAN	sperm acrosome associated 3	205	Extracellular (Potential).				cell wall macromolecule catabolic process|defense response to Gram-positive bacterium|monocyte activation|peptidoglycan catabolic process|positive regulation of macrophage activation|positive regulation of phagocytosis|response to virus	acrosomal membrane|extracellular region|integral to membrane|lysosome	bacterial cell surface binding|lysozyme activity|protein binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.193)			CCAGGGAAAAGACCTCACTGA	0.547													4	43	---	---	---	---	PASS	A	31324761	A	A	31324761	3	1	4	1	0	0	0	0	1	0	0	0	14973	942	33	2	631	2	SPACA3	17	31324761	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	645935	31324761	49870449	3137	3728										
ACCN1	40	broad.mit.edu	37	chr17	31355373	31355373	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtcgaggcccatctctgagGatcggcactcaccccacggt	11	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:31355373G>A	uc002hhu.2	-	4	1146	c.872C>T	c.(871-873)TCC>TTC	p.S291F	ACCN1_uc002hht.2_Missense_Mutation_p.S342F	NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	291	Extracellular (By similarity).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	CATCTCTGAGGATCGGCACTC	0.542													18	22	---	---	---	---	PASS	A	31355373	A	A	31355373	3	1	4	1	0	0	0	0	1	0	0	0	128	1174	41	2	694	2	ACCN1	17	31355373	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	30612	31355373	49839837	3138	3729										
ACCN1	40	broad.mit.edu	37	chr17	32483157	32483157	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccgcagggcctccagcacgGaggggtcagccagatggggg	19	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:32483157G>A	uc002hhu.2	-	1	669	c.395C>T	c.(394-396)TCC>TTC	p.S132F		NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	132	Extracellular (By similarity).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	CTCCAGCACGGAGGGGTCAGC	0.607													13	40	---	---	---	---	PASS	A	32483157	A	A	32483157	3	1	4	1	0	0	0	0	1	0	0	0	128	1174	41	2	1895	2	ACCN1	17	32483157	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1127784	32483157	48712053	3139	3730										
AMAC1	146861	broad.mit.edu	37	chr17	33521009	33521009	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggatgttgagcagggcacaGaagaaggcccggcttcggat	16	8	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:33521009G>A	uc002hjd.2	-	1	404	c.318C>T	c.(316-318)TTC>TTT	p.F106F		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	106	DUF6 1.|Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		GCAGGGCACAGAAGAAGGCCC	0.587													34	91	---	---	---	---	PASS	A	33521009	A	A	33521009	2	1	4	1	0	0	0	0	0	0	0	1	559	933	33	2		2	AMAC1	17	33521009	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1037852	33521009	47674201	3140	3731										
MMP28	79148	broad.mit.edu	37	chr17	34095373	34095373	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctttcctgggagctggacGgccactgagccccctagggg	15	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:34095373G>A	uc002hjy.1	-	8	1135	c.876C>T	c.(874-876)GCC>GCT	p.A292A	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	292					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GGAGCTGGACGGCCACTGAGC	0.552													12	22	---	---	---	---	PASS	A	34095373	A	A	34095373	2	1	4	1	0	0	0	0	0	0	0	1	9665	1103	39	1		1	MMP28	17	34095373	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	574364	34095373	47099837	3141	3732										
MMP28	79148	broad.mit.edu	37	chr17	34105923	34105923	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcgtttcttacgcctcatTttggtccggtgtctagcaaa	9	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:34105923T>G	uc002hjy.1	-	3	607	c.348A>C	c.(346-348)AAA>AAC	p.K116N	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA|MMP28_uc002hka.2_Missense_Mutation_p.K116N	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	116					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		TACGCCTCATTTTGGTCCGGT	0.512													31	35	---	---	---	---	PASS	G	34105923	G	G	34105923	3	3	4	1	0	0	0	0	1	0	0	0	9665	1838	64	5	1251	5	MMP28	17	34105923	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	10550	34105923	47089287	3142	3733										
C17orf66	256957	broad.mit.edu	37	chr17	34190509	34190509	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagaagacatactcacccaGgatggccagggttcggtagg	15	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:34190509G>A	uc002hke.1	-	7	771	c.622C>T	c.(622-624)CTG>TTG	p.L208L	C17orf66_uc010wck.1_RNA|C17orf66_uc010wcl.1_Silent_p.L168L|C17orf66_uc010wcm.1_Silent_p.L174L	NM_152781	NP_689994	A2RTY3	CQ066_HUMAN	hypothetical protein LOC256957	208							binding			breast(2)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		TACTCACCCAGGATGGCCAGG	0.468													11	23	---	---	---	---	PASS	A	34190509	A	A	34190509	2	1	4	1	0	0	0	0	0	0	0	1	1874	991	35	3		3	C17orf66	17	34190509	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	84586	34190509	47004701	3143	3734										
GPR179	440435	broad.mit.edu	37	chr17	36484158	36484158	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcccctggacccacactcCcccagggacaagccacctcc	8	21	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:36484158C>T	uc002hpz.2	-	11	5315	c.5294G>A	c.(5293-5295)GGG>GAG	p.G1765E		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	1765	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				ACCCACACTCCCCCAGGGACA	0.577													6	28	---	---	---	---	PASS	T	36484158	T	T	36484158	3	4	4	1	0	0	0	0	1	0	0	0	6674	623	22	3	1813	3	GPR179	17	36484158	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2293649	36484158	44711052	3144	3735										
CDK12	51755	broad.mit.edu	37	chr17	37687305	37687305	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttccaggggaccaggacctCcgttttgccagggtcccctt	11	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:37687305C>T	uc010cvv.2	+	14	4795	c.4209C>T	c.(4207-4209)CTC>CTT	p.L1403L	CDK12_uc002hrw.3_Silent_p.L1394L	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	1403					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						ACCAGGACCTCCGTTTTGCCA	0.572										TCGA Ovarian(9;0.13)			16	28	---	---	---	---	PASS	T	37687305	T	T	37687305	2	4	4	1	0	0	0	0	0	0	0	1	3128	842	30	2		2	CDK12	17	37687305	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1203147	37687305	43507905	3145	3736										
MSL1	339287	broad.mit.edu	37	chr17	38285676	38285676	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagaaaccccagaaaagcccCggtcttcagtggacacccca	8	15	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:38285676C>T	uc002hub.2	+	3	587	c.568C>T	c.(568-570)CGG>TGG	p.R190W	MSL1_uc002hua.3_Missense_Mutation_p.R128W|MSL1_uc002huc.2_Missense_Mutation_p.R128W|MSL1_uc002hud.2_5'Flank	NM_001012241	NP_001012241	Q68DK7	MSL1_HUMAN	hampin	391					histone H4-K16 acetylation	MSL complex					0						AGAAAAGCCCCGGTCTTCAGT	0.493													21	56	---	---	---	---	PASS	T	38285676	T	T	38285676	3	4	4	1	0	0	0	0	1	0	0	0	9877	643	23	1	388	1	MSL1	17	38285676	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	598371	38285676	42909534	3146	3737										
RAPGEFL1	51195	broad.mit.edu	37	chr17	38348886	38348886	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggaaccacaaaagctaccGagaagtgatctccaaaatga	8	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:38348886G>A	uc010cwu.1	+	12	1557	c.1067G>A	c.(1066-1068)CGA>CAA	p.R356Q	RAPGEFL1_uc010wfd.1_Missense_Mutation_p.R292Q	NM_016339	NP_057423	Q9UHV5	RPGFL_HUMAN	Rap guanine nucleotide exchange factor	562	Ras-GEF.				G-protein coupled receptor protein signaling pathway|nervous system development|small GTPase mediated signal transduction	intracellular|membrane fraction	guanyl-nucleotide exchange factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						AAAAGCTACCGAGAAGTGATC	0.532													106	179	---	---	---	---	PASS	A	38348886	A	A	38348886	3	1	4	1	0	0	0	0	1	0	0	0	13049	1058	37	2	1105	2	RAPGEFL1	17	38348886	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	63210	38348886	42846324	3147	3738										
WIPF2	147179	broad.mit.edu	37	chr17	38421050	38421050	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgcctacaacagagagaaaCccttgccaccgacgcctgga	9	16	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:38421050C>T	uc002hug.1	+	5	862	c.622C>T	c.(622-624)CCC>TCC	p.P208S	WIPF2_uc002huh.1_Missense_Mutation_p.P58S|WIPF2_uc010cww.1_Missense_Mutation_p.P58S|WIPF2_uc002hui.1_Missense_Mutation_p.P208S|WIPF2_uc010cwx.1_Intron|WIPF2_uc010cwy.1_Missense_Mutation_p.P208S	NM_133264	NP_573571	Q8TF74	WIPF2_HUMAN	WIRE protein	208						cytoplasm|cytoskeleton	actin binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						CAGAGAGAAACCCTTGCCACC	0.637										HNSCC(43;0.11)			23	37	---	---	---	---	PASS	T	38421050	T	T	38421050	3	4	4	1	0	0	0	0	1	0	0	0	17365	507	18	3	636	3	WIPF2	17	38421050	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	72164	38421050	42774160	3148	3739										
KRT23	25984	broad.mit.edu	37	chr17	39092725	39092725	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccgcgtggtgaaggacaggGagatgcgggctccccccgca	16	13	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:39092725G>A	uc002hvm.1	-	2	720	c.131C>T	c.(130-132)TCC>TTC	p.S44F	KRT23_uc010wfl.1_Intron|KRT23_uc010cxf.1_Intron|KRT23_uc010cxg.2_Missense_Mutation_p.S44F|KRT23_uc002hvn.1_Missense_Mutation_p.S44F	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	44	Head.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				GAAGGACAGGGAGATGCGGGC	0.701													21	18	---	---	---	---	PASS	A	39092725	A	A	39092725	3	1	4	1	0	0	0	0	1	0	0	0	8460	1174	41	2	1169	2	KRT23	17	39092725	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	671675	39092725	42102485	3149	3740										
KRT15	3866	broad.mit.edu	37	chr17	39672489	39672489	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctccacattgacctggccgGccagctggctgctgaactcc	10	16	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:39672489G>A	uc002hwy.2	-	4	958	c.767C>T	c.(766-768)GCC>GTC	p.A256V	KRT15_uc002hwz.2_Missense_Mutation_p.A158V|KRT15_uc002hxa.2_Missense_Mutation_p.A91V|KRT15_uc002hxb.1_Missense_Mutation_p.A91V	NM_002275	NP_002266	P19012	K1C15_HUMAN	keratin 15	256	Rod.|Linker 12.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000286)				GACCTGGCCGGCCAGCTGGCT	0.607													71	103	---	---	---	---	PASS	A	39672489	A	A	39672489	3	1	4	1	0	0	0	0	1	0	0	0	8452	1203	42	3	623	3	KRT15	17	39672489	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	579764	39672489	41522721	3150	3741										
KRT14	3861	broad.mit.edu	37	chr17	39739615	39739615	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcggagctgggccagctgCtcctccacgctgccaatcat	11	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:39739615C>T	uc002hxf.1	-	6	1207	c.1146G>A	c.(1144-1146)GAG>GAA	p.E382E	JUP_uc010wfs.1_Intron|KRT14_uc010cxp.1_Intron	NM_000526	NP_000517	P02533	K1C14_HUMAN	keratin 14	382	Rod.|Coil 2.				epidermis development|hemidesmosome assembly|intermediate filament bundle assembly	cytosol|keratin filament|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(1)	1		Breast(137;0.000307)				GGGCCAGCTGCTCCTCCACGC	0.607													8	33	---	---	---	---	PASS	T	39739615	T	T	39739615	2	4	4	1	0	0	0	0	0	0	0	1	8451	796	28	3		3	KRT14	17	39739615	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	67126	39739615	41455595	3151	3742										
HAP1	9001	broad.mit.edu	37	chr17	39881284	39881284	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcccccagctcctcctggGgcacgaactcctccgcaggc	10	20	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:39881284G>A	uc002hxm.1	-	12	1697	c.1685C>T	c.(1684-1686)CCC>CTC	p.P562L	JUP_uc010wfs.1_Intron|HAP1_uc002hxn.1_Missense_Mutation_p.P510L|HAP1_uc002hxo.1_Missense_Mutation_p.P493L|HAP1_uc002hxp.1_Missense_Mutation_p.P485L	NM_177977	NP_817084	P54257	HAP1_HUMAN	huntingtin-associated protein 1 isoform 2	562	Glu-rich.				brain development|protein localization|synaptic transmission	actin cytoskeleton	protein binding			ovary(2)	2		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.0677)			CTCCTCCTGGGGCACGAACTC	0.637													45	157	---	---	---	---	PASS	A	39881284	A	A	39881284	3	1	4	1	0	0	0	0	1	0	0	0	6953	1232	43	3	334	3	HAP1	17	39881284	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	141669	39881284	41313926	3152	3743										
NKIRAS2	28511	broad.mit.edu	37	chr17	40174625	40174625	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcgtgtggagctgctcaaGaaggagattgacaaatccaa	12	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:40174625G>A	uc002hyq.2	+	3	368	c.303G>A	c.(301-303)AAG>AAA	p.K101K	NKIRAS2_uc010wgd.1_Missense_Mutation_p.R69K|NKIRAS2_uc002hyr.2_Silent_p.K101K|NKIRAS2_uc002hys.2_Silent_p.K101K|NKIRAS2_uc010wge.1_Intron|NKIRAS2_uc002hyt.2_Silent_p.K101K	NM_001001349	NP_001001349	Q9NYR9	KBRS2_HUMAN	NFKB inhibitor interacting Ras-like 2 isoform a	101	Small GTPase-like.				I-kappaB kinase/NF-kappaB cascade|small GTPase mediated signal transduction	cytoplasm	GTP binding|GTPase activity	p.K101M(1)		ovary(1)	1		all_cancers(22;1.1e-05)|Breast(137;0.000143)|all_epithelial(22;0.000319)				AGCTGCTCAAGAAGGAGATTG	0.552													13	26	---	---	---	---	PASS	A	40174625	A	A	40174625	2	1	4	1	0	0	0	0	0	0	0	1	10445	942	33	2		2	NKIRAS2	17	40174625	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	293341	40174625	41020585	3153	3744										
STAT5A	6776	broad.mit.edu	37	chr17	40453402	40453402	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaacgtgcacatgaatcccCcccaggtgaaggccaccatc	9	15	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:40453402C>T	uc002hzj.1	+	10	1741	c.1099C>T	c.(1099-1101)CCC>TCC	p.P367S	STAT5A_uc010cya.1_Missense_Mutation_p.P367S|STAT5A_uc010cyb.1_Missense_Mutation_p.P367S|STAT5A_uc010cyc.1_Missense_Mutation_p.P337S	NM_003152	NP_003143	P42229	STA5A_HUMAN	signal transducer and activator of transcription	367					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|oxaloacetate metabolic process|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_cancers(22;1.56e-06)|all_epithelial(22;3.17e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)		CATGAATCCCCCCCAGGTGAA	0.567													17	38	---	---	---	---	PASS	T	40453402	T	T	40453402	3	4	4	1	0	0	0	0	1	0	0	0	15267	623	22	3	1129	3	STAT5A	17	40453402	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	278777	40453402	40741808	3154	3745										
COASY	80347	broad.mit.edu	37	chr17	40714916	40714916	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctactgaccaatatccgaacCaagagcacctttctccctcc	4	17	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:40714916C>T	uc002hzz.2	+	2	433	c.276C>T	c.(274-276)ACC>ACT	p.T92T	COASY_uc010cyj.2_Silent_p.T121T|COASY_uc002iab.2_Intron|COASY_uc002iad.2_Silent_p.T92T|COASY_uc002iac.2_Silent_p.T92T|COASY_uc002iae.2_5'Flank	NM_001042529	NP_001035994	Q13057	COASY_HUMAN	coenzyme A synthase isoform a	92					coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial outer membrane	ATP binding|dephospho-CoA kinase activity|pantetheine-phosphate adenylyltransferase activity				0		all_cancers(22;1.06e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)		ATATCCGAACCAAGAGCACCT	0.557													54	76	---	---	---	---	PASS	T	40714916	T	T	40714916	2	4	4	1	0	0	0	0	0	0	0	1	3652	581	21	3		3	COASY	17	40714916	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	261514	40714916	40480294	3155	3746										
AOC2	314	broad.mit.edu	37	chr17	40996818	40996818	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagccagctgtttgcagacCtgagccgagaggagttgaca	14	9	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:40996818C>T	uc002ibu.2	+	1	210	c.175C>T	c.(175-177)CTG>TTG	p.L59L	AOC2_uc002ibt.2_Silent_p.L59L	NM_009590	NP_033720	O75106	AOC2_HUMAN	amine oxidase, copper containing 2 isoform b	59					catecholamine metabolic process|visual perception	cytoplasm|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|electron carrier activity|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			ovary(2)	2		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		GTTTGCAGACCTGAGCCGAGA	0.662													45	103	---	---	---	---	PASS	T	40996818	T	T	40996818	2	4	4	1	0	0	0	0	0	0	0	1	727	680	24	3		3	AOC2	17	40996818	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	281902	40996818	40198392	3156	3747										
G6PC	2538	broad.mit.edu	37	chr17	41053082	41053082	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgggcattaaactcctttgGgtagctgtgattggagactg	14	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:41053082G>T	uc002icb.1	+	1	268	c.189G>T	c.(187-189)TGG>TGT	p.W63C	LOC388387_uc002ibz.2_5'Flank|LOC388387_uc002iby.2_5'Flank|LOC388387_uc002ica.2_5'Flank|LOC388387_uc010whe.1_5'Flank|G6PC_uc010whf.1_Missense_Mutation_p.W65C	NM_000151	NP_000142	P35575	G6PC_HUMAN	glucose-6-phosphatase, catalytic subunit	63	Helical; (Potential).		W -> R (in GSD1A).		gluconeogenesis|glucose homeostasis|transmembrane transport	integral to endoplasmic reticulum membrane	glucose-6-phosphatase activity|phosphate binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.113)		AACTCCTTTGGGTAGCTGTGA	0.493									Glycogen_Storage_Disease_type_Ia				7	73	---	---	---	---	PASS	T	41053082	T	T	41053082	3	4	4	1	0	0	0	0	1	0	0	0	6143	1241	43	3	191	3	G6PC	17	41053082	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	56264	41053082	40142128	3157	3748										
BRCA1	672	broad.mit.edu	37	chr17	41245974	41245974	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatttcaggagtcttttgaActgccaaatctgctttcttg	7	9	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:41245974A>G	uc002icq.2	-	10	1806	c.1574T>C	c.(1573-1575)GTT>GCT	p.V525A	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.V454A|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.V478A|BRCA1_uc002ict.2_Missense_Mutation_p.V525A|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.V525A|BRCA1_uc002ide.1_Missense_Mutation_p.V356A|BRCA1_uc010cyy.1_Missense_Mutation_p.V525A|BRCA1_uc010whs.1_Missense_Mutation_p.V525A|BRCA1_uc010cyz.2_Missense_Mutation_p.V478A|BRCA1_uc010cza.2_Missense_Mutation_p.V499A|BRCA1_uc010wht.1_Missense_Mutation_p.V229A	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	525					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		AGTCTTTTGAACTGCCAAATC	0.368			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			4	22	---	---	---	---	PASS	G	41245974	G	G	41245974	3	3	4	1	0	0	0	0	1	0	0	0	1498	43	2	5	4143	5	BRCA1	17	41245974	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	192892	41245974	39949236	3158	3749										
CD300LG	146894	broad.mit.edu	37	chr17	41939188	41939188	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcggaggaaaaggaagcccCttcccaggcccctgaggggg	16	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:41939188C>T	uc002iem.2	+	7	949	c.908C>T	c.(907-909)CCT>CTT	p.P303L		NM_145273	NP_660316	Q6UXG3	CLM9_HUMAN	CD300 molecule-like family member g precursor	303	Cytoplasmic (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|multivesicular body membrane	receptor activity				0		Breast(137;0.0199)		BRCA - Breast invasive adenocarcinoma(366;0.115)		AAGGAAGCCCCTTCCCAGGCC	0.602													4	3	---	---	---	---	PASS	T	41939188	T	T	41939188	3	4	4	1	0	0	0	0	1	0	0	0	3002	681	24	3	1053	3	CD300LG	17	41939188	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	693214	41939188	39256022	3159	3750										
DBF4B	80174	broad.mit.edu	37	chr17	42818751	42818751	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taaatcctttcctgaaatttCttttcttggacccaaagatg	5	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:42818751C>T	uc002ihf.2	+	10	974	c.761C>T	c.(760-762)TCT>TTT	p.S254F	DBF4B_uc010wjb.1_Intron|DBF4B_uc002ihe.2_Missense_Mutation_p.S68F|DBF4B_uc010wjc.1_Missense_Mutation_p.S238F	NM_145663	NP_663696	Q8NFT6	DBF4B_HUMAN	DBF4 homolog B isoform 1	254					cell cycle	nucleus	nucleic acid binding|zinc ion binding				0		Prostate(33;0.0322)				CCTGAAATTTCTTTTCTTGGA	0.483													28	40	---	---	---	---	PASS	T	42818751	T	T	42818751	3	4	4	1	0	0	0	0	1	0	0	0	4249	913	32	2	844	2	DBF4B	17	42818751	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	879563	42818751	38376459	3160	3751										
EFTUD2	9343	broad.mit.edu	37	chr17	42931686	42931686	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccactggaaaccttgaacGatgctgtccttcactgaacc	7	15	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:42931686G>A	uc002ihn.2	-	23	2559	c.2298C>T	c.(2296-2298)ATC>ATT	p.I766I	EFTUD2_uc010wje.1_Silent_p.I731I|EFTUD2_uc010wjf.1_Silent_p.I756I	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	766						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				AACCTTGAACGATGCTGTCCT	0.567													20	56	---	---	---	---	PASS	A	42931686	A	A	42931686	2	1	4	1	0	0	0	0	0	0	0	1	4961	1048	37	2		2	EFTUD2	17	42931686	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	112935	42931686	38263524	3161	3752										
CDC27	996	broad.mit.edu	37	chr17	45258960	45258960	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcgttctgcgaggaaaaccGcatctcggtaagcatagtgg	14	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:45258960G>T	uc002ild.3	-	2	198	c.71C>A	c.(70-72)GCG>GAG	p.A24E	CDC27_uc002ile.3_Missense_Mutation_p.A24E|CDC27_uc002ilf.3_Missense_Mutation_p.A24E|CDC27_uc010wkp.1_Nonsense_Mutation_p.C12*|CDC27_uc010wkq.1_RNA	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2	24					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5						GAGGAAAACCGCATCTCGGTA	0.348													3	17	---	---	---	---	PASS	T	45258960	T	T	45258960	3	4	4	1	0	0	0	0	1	0	0	0	3066	1087	38	1	2493	1	CDC27	17	45258960	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2327274	45258960	35936250	3162	3753										
NFE2L1	4779	broad.mit.edu	37	chr17	46133781	46133781	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgacatcctttggcgacagGatattgatctgggggctggg	15	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:46133781G>A	uc002imz.3	+	3	1195	c.544G>A	c.(544-546)GAT>AAT	p.D182N	NFE2L1_uc002ina.3_Missense_Mutation_p.D182N|NFE2L1_uc002inb.3_Missense_Mutation_p.D182N|NFE2L1_uc010wle.1_Missense_Mutation_p.D24N|NFE2L1_uc010wlf.1_Missense_Mutation_p.D56N|NFE2L1_uc002inc.1_Missense_Mutation_p.D171N	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	182	Asp/Glu-rich (acidic).				anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						TTGGCGACAGGATATTGATCT	0.522													68	230	---	---	---	---	PASS	A	46133781	A	A	46133781	3	1	4	1	0	0	0	0	1	0	0	0	10367	1174	41	2	550	2	NFE2L1	17	46133781	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	874821	46133781	35061429	3163	3754										
HOXB1	3211	broad.mit.edu	37	chr17	46607016	46607016	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtggggctggggggacccGaccttcctctcgctcgcgct	16	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:46607016G>T	uc002ink.1	-	2	805	c.799C>A	c.(799-801)CGG>AGG	p.R267R		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	267						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGGGGGACCCGACCTTCCTCT	0.612													24	38	---	---	---	---	PASS	T	46607016	T	T	46607016	2	4	4	1	0	0	0	0	0	0	0	1	7299	1057	37	2		2	HOXB1	17	46607016	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	473235	46607016	34588194	3164	3755										
PRAC	84366	broad.mit.edu	37	chr17	46799691	46799691	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagtttaccttattagagaGaaaagcactcttggaggtag	10	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:46799691G>A	uc002iny.2	-	1	192	c.64C>T	c.(64-66)CTC>TTC	p.L22F	C17orf93_uc002inz.1_5'Flank	NM_032391	NP_115767	Q96KF2	PRAC_HUMAN	prostate cancer susceptibility candidate	22						nucleus					0						TTATTAGAGAGAAAAGCACTC	0.542													19	34	---	---	---	---	PASS	A	46799691	A	A	46799691	3	1	4	1	0	0	0	0	1	0	0	0	12421	942	33	2	117	2	PRAC	17	46799691	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	192675	46799691	34395519	3165	3756										
CALCOCO2	10241	broad.mit.edu	37	chr17	46925694	46925694	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgttttcagcttactacctGcccaaggatgatgagtatta	9	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:46925694G>T	uc002iof.2	+	4	373	c.294G>T	c.(292-294)CTG>CTT	p.L98L	CALCOCO2_uc010wlp.1_Silent_p.L119L|CALCOCO2_uc010wlq.1_Silent_p.L26L|CALCOCO2_uc010wlr.1_Silent_p.L122L|CALCOCO2_uc010wls.1_Silent_p.L98L	NM_005831	NP_005822	Q13137	CACO2_HUMAN	calcium binding and coiled-coil domain 2	98					response to interferon-gamma|viral reproduction	cytoskeleton|Golgi apparatus|nucleus|perinuclear region of cytoplasm|soluble fraction	protein homodimerization activity			ovary(1)	1						CTTACTACCTGCCCAAGGATG	0.398													18	25	---	---	---	---	PASS	T	46925694	T	T	46925694	2	4	4	1	0	0	0	0	0	0	0	1	2578	1306	46	3		3	CALCOCO2	17	46925694	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	126003	46925694	34269516	3166	3757										
MYST2	11143	broad.mit.edu	37	chr17	47874115	47874115	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttaaaattgggatcagattCcagtcctgttcgaaatctgc	8	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:47874115C>T	uc002ipm.2	+	3	293	c.167C>T	c.(166-168)TCC>TTC	p.S56F	MYST2_uc002ipl.1_Missense_Mutation_p.S56F|MYST2_uc010wma.1_Intron|MYST2_uc010wmb.1_Missense_Mutation_p.S56F|MYST2_uc010wmc.1_Intron|MYST2_uc010wmd.1_5'UTR|MYST2_uc010wme.1_5'UTR	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2	56	Ser-rich.				DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						GGATCAGATTCCAGTCCTGTT	0.428													20	77	---	---	---	---	PASS	T	47874115	T	T	47874115	3	4	4	1	0	0	0	0	1	0	0	0	10103	855	30	2	177	2	MYST2	17	47874115	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	948421	47874115	33321095	3167	3758										
SGCA	6442	broad.mit.edu	37	chr17	48244988	48244988	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctaccacgcccacctccaggGacacccagacctgccccggt	8	21	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:48244988G>A	uc002iqi.2	+	3	239	c.203G>A	c.(202-204)GGA>GAA	p.G68E	SGCA_uc010wmh.1_Intron|SGCA_uc002iqj.2_Missense_Mutation_p.G68E|SGCA_uc010wmi.1_RNA	NM_000023	NP_000014	Q16586	SGCA_HUMAN	sarcoglycan, alpha isoform 1 precursor	68	Extracellular (Potential).		G -> E (in LGMD2D).		muscle contraction|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(2)	2						CACCTCCAGGGACACCCAGAC	0.672													11	19	---	---	---	---	PASS	A	48244988	A	A	48244988	3	1	4	1	0	0	0	0	1	0	0	0	14199	1174	41	2	213	2	SGCA	17	48244988	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	370873	48244988	32950222	3168	3759										
COL1A1	1277	broad.mit.edu	37	chr17	48266110	48266110	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttgccatcttaccttggcgCcaggagaaccgtctcgtcca	10	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:48266110C>T	uc002iqm.2	-	42	3218	c.3092G>A	c.(3091-3093)GGC>GAC	p.G1031D		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	1031	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	TACCTTGGCGCCAGGAGAACC	0.617			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						9	35	---	---	---	---	PASS	T	48266110	T	T	48266110	3	4	4	1	0	0	0	0	1	0	0	0	3677	739	26	3	1342	3	COL1A1	17	48266110	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	21122	48266110	32929100	3169	3760										
COL1A1	1277	broad.mit.edu	37	chr17	48269882	48269882	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggaggaccagcaggaccaGggagaccctgtaggtgggaa	17	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:48269882G>A	uc002iqm.2	-	29	2063	c.1937C>T	c.(1936-1938)CCT>CTT	p.P646L		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	646	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	AGCAGGACCAGGGAGACCCTG	0.582			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						19	12	---	---	---	---	PASS	A	48269882	A	A	48269882	3	1	4	1	0	0	0	0	1	0	0	0	3677	1000	35	3	2549	3	COL1A1	17	48269882	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3772	48269882	32925328	3170	3761										
COL1A1	1277	broad.mit.edu	37	chr17	48270367	48270367	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atacttacgacagcgccaggGggtccgggaacacctcgctc	12	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:48270367G>A	uc002iqm.2	-	26	1935	c.1809C>T	c.(1807-1809)CCC>CCT	p.P603P		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	603	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	CAGCGCCAGGGGGTCCGGGAA	0.632			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						5	18	---	---	---	---	PASS	A	48270367	A	A	48270367	2	1	4	1	0	0	0	0	0	0	0	1	3677	1219	43	3		3	COL1A1	17	48270367	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	485	48270367	32924843	3171	3762										
CACNA1G	8913	broad.mit.edu	37	chr17	48695421	48695421	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttttccaggtggggaacctgGgacttctcttcatgttgttg	12	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:48695421G>A	uc002irk.1	+	31	5611	c.5239G>A	c.(5239-5241)GGA>AGA	p.G1747R	CACNA1G_uc002irj.1_Missense_Mutation_p.G1713R|CACNA1G_uc002irl.1_Missense_Mutation_p.G1724R|CACNA1G_uc002irm.1_Missense_Mutation_p.G1713R|CACNA1G_uc002irn.1_Missense_Mutation_p.G1706R|CACNA1G_uc002iro.1_Missense_Mutation_p.G1713R|CACNA1G_uc002irp.1_Missense_Mutation_p.G1747R|CACNA1G_uc002irq.1_Missense_Mutation_p.G1724R|CACNA1G_uc002irr.1_Missense_Mutation_p.G1747R|CACNA1G_uc002irs.1_Missense_Mutation_p.G1736R|CACNA1G_uc002irt.1_Missense_Mutation_p.G1729R|CACNA1G_uc002irv.1_Missense_Mutation_p.G1736R|CACNA1G_uc002irw.1_Missense_Mutation_p.G1724R|CACNA1G_uc002iru.1_Missense_Mutation_p.G1713R|CACNA1G_uc002irx.1_Missense_Mutation_p.G1660R|CACNA1G_uc002iry.1_Missense_Mutation_p.G1649R|CACNA1G_uc002irz.1_Missense_Mutation_p.G1653R|CACNA1G_uc002isa.1_Missense_Mutation_p.G1626R|CACNA1G_uc002isb.1_Missense_Mutation_p.G1667R|CACNA1G_uc002isc.1_Missense_Mutation_p.G1649R|CACNA1G_uc002isd.1_Missense_Mutation_p.G1635R|CACNA1G_uc002ise.1_Missense_Mutation_p.G1615R|CACNA1G_uc002isf.1_Missense_Mutation_p.G1642R|CACNA1G_uc002isg.1_Missense_Mutation_p.G1608R|CACNA1G_uc002ish.1_Missense_Mutation_p.G1615R|CACNA1G_uc002isi.1_Missense_Mutation_p.G1603R	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1747	Helical; Name=S5 of repeat IV; (Potential).|IV.				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GGGGAACCTGGGACTTCTCTT	0.557													5	21	---	---	---	---	PASS	A	48695421	A	A	48695421	3	1	4	1	0	0	0	0	1	0	0	0	2544	1233	43	3	5628	3	CACNA1G	17	48695421	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	425054	48695421	32499789	3172	3763										
WFIKKN2	124857	broad.mit.edu	37	chr17	48917207	48917207	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctggcccaacaccagcccCccaccacctgagaccaccat	5	22	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:48917207C>T	uc002isv.3	+	2	1252	c.558C>T	c.(556-558)CCC>CCT	p.P186P	WFIKKN2_uc010dbu.2_Silent_p.P93P	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	186						extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			ACACCAGCCCCCCACCACCTG	0.622													8	15	---	---	---	---	PASS	T	48917207	T	T	48917207	2	4	4	1	0	0	0	0	0	0	0	1	17356	610	22	3		3	WFIKKN2	17	48917207	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	221786	48917207	32278003	3173	3764										
ANKFN1	162282	broad.mit.edu	37	chr17	54534322	54534322	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgtgaagaccttaaaacgGtgggttctatgtagtttttt	10	4	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:54534322G>A	uc002iun.1	+	11	1351	c.1316_splice	c.e11+1	p.R439_splice		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain											large_intestine(1)|ovary(1)	2						CCTTAAAACGGTGGGTTCTAT	0.383													9	33	---	---	---	---	PASS	A	54534322	A	A	54534322	5	1	4	1	0	0	0	0	0	0	1	0	625	1275	44	3	1359	3	ANKFN1	17	54534322	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	5617115	54534322	26660888	3174	3765										
EPX	8288	broad.mit.edu	37	chr17	56271340	56271340	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaggaggagacccttgctaGgggcctccaaccaggctctg	14	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:56271340G>A	uc002ivq.2	+	5	567	c.481G>A	c.(481-483)GGG>AGG	p.G161R		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	161					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						ACCCTTGCTAGGGGCCTCCAA	0.667													4	13	---	---	---	---	PASS	A	56271340	A	A	56271340	3	1	4	1	0	0	0	0	1	0	0	0	5200	1000	35	3	499	3	EPX	17	56271340	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1737018	56271340	24923870	3175	3766										
MKS1	54903	broad.mit.edu	37	chr17	56285516	56285516	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcaaacgtgaatgggtagGagaagtgagccaccttgtcc	12	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:56285516G>A	uc002ivr.1	-	13	1190	c.1115C>T	c.(1114-1116)TCC>TTC	p.S372F	MKS1_uc010wnq.1_Missense_Mutation_p.S169F|MKS1_uc002ivs.1_Missense_Mutation_p.S372F	NM_017777	NP_060247	Q9NXB0	MKS1_HUMAN	Meckel syndrome type 1 protein isoform 1	372	B9.				cilium assembly	centrosome|cilium|microtubule basal body	protein binding			ovary(1)	1						GAATGGGTAGGAGAAGTGAGC	0.502													14	18	---	---	---	---	PASS	A	56285516	A	A	56285516	3	1	4	1	0	0	0	0	1	0	0	0	9609	1174	41	2	588	2	MKS1	17	56285516	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	14176	56285516	24909694	3176	3767										
MPO	4353	broad.mit.edu	37	chr17	56350926	56350926	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcattggtgaagacgttggcGatgcgtgggtccactgagtc	16	8	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:56350926G>A	uc002ivu.1	-	9	1647	c.1470C>T	c.(1468-1470)ATC>ATT	p.I490I		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	490					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	AGACGTTGGCGATGCGTGGGT	0.602													18	56	---	---	---	---	PASS	A	56350926	A	A	56350926	2	1	4	1	0	0	0	0	0	0	0	1	9732	1048	37	2		2	MPO	17	56350926	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	65410	56350926	24844284	3177	3768										
TEX14	56155	broad.mit.edu	37	chr17	56649316	56649316	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgaagggggagtttcagagGaagtaaggagagaatccagt	16	3	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:56649316G>A	uc010dcz.1	-	25	3939	c.3821C>T	c.(3820-3822)TCC>TTC	p.S1274F	TEX14_uc002iwr.1_Missense_Mutation_p.S1268F|TEX14_uc002iws.1_Missense_Mutation_p.S1228F|TEX14_uc010dda.1_Missense_Mutation_p.S1008F	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	1274						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AGTTTCAGAGGAAGTAAGGAG	0.433													24	42	---	---	---	---	PASS	A	56649316	A	A	56649316	3	1	4	1	0	0	0	0	1	0	0	0	15775	1174	41	2	708	2	TEX14	17	56649316	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	298390	56649316	24545894	3178	3769										
TEX14	56155	broad.mit.edu	37	chr17	56663264	56663264	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctctgggctcatcattttCcctatgatactcaataactc	4	13	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:56663264C>T	uc010dcz.1	-	18	3104	c.2986G>A	c.(2986-2988)GAA>AAA	p.E996K	TEX14_uc002iwr.1_Missense_Mutation_p.E990K|TEX14_uc002iws.1_Missense_Mutation_p.E990K|TEX14_uc010dda.1_Missense_Mutation_p.E770K	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	996						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TCATCATTTTCCCTATGATAC	0.527													13	80	---	---	---	---	PASS	T	56663264	T	T	56663264	3	4	4	1	0	0	0	0	1	0	0	0	15775	864	30	2	1571	2	TEX14	17	56663264	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	13948	56663264	24531946	3179	3770										
PPM1E	22843	broad.mit.edu	37	chr17	57033100	57033100	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgcacattatatcccaaaGgaaacggatggcacagaagg	10	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:57033100G>A	uc002iwx.2	+	2	682	c.555G>A	c.(553-555)AAG>AAA	p.K185K	PPM1E_uc010ddd.2_Missense_Mutation_p.R15K	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	194					protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			ATATCCCAAAGGAAACGGATG	0.403													18	72	---	---	---	---	PASS	A	57033100	A	A	57033100	2	1	4	1	0	0	0	0	0	0	0	1	12338	991	35	3		3	PPM1E	17	57033100	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	369836	57033100	24162110	3180	3771										
USP32	84669	broad.mit.edu	37	chr17	58332618	58332618	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttccagagtaagatgacccAtctgaaacagagacactcat	7	11	2	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:58332618A>T	uc002iyo.1	-	10	1278	c.992T>A	c.(991-993)ATG>AAG	p.M331K	USP32_uc002iyn.1_Missense_Mutation_p.M1K|USP32_uc010wov.1_Missense_Mutation_p.M331K	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	331					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			AAGATGACCCATCTGAAACAG	0.259													8	31	---	---	---	---	PASS	T	58332618	T	T	58332618	3	4	4	1	0	0	0	0	1	0	0	0	17060	231	8	5	3922	5	USP32	17	58332618	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	1299518	58332618	22862592	3181	3772										
BRIP1	83990	broad.mit.edu	37	chr17	59885938	59885938	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagaatagtcattggaacccCtgaatatgccgtcctccgga	9	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:59885938C>T	uc002izk.1	-	7	949	c.808G>A	c.(808-810)GGG>AGG	p.G270R		NM_032043	NP_114432	Q9BX63	FANCJ_HUMAN	BRCA1 interacting protein C-terminal helicase 1	270	Helicase ATP-binding.				DNA damage checkpoint|double-strand break repair|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(1)	1						ATTGGAACCCCTGAATATGCC	0.443			F|N|Mis			AML|leukemia|breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				20	54	---	---	---	---	PASS	T	59885938	T	T	59885938	3	4	4	1	0	0	0	0	1	0	0	0	1514	681	24	3	2997	3	BRIP1	17	59885938	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1553320	59885938	21309272	3182	3773										
INTS2	57508	broad.mit.edu	37	chr17	59944991	59944991	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgacagagctgtacatcaGgatccatgcttccagtgtcc	10	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:59944991G>A	uc002izn.2	-	25	3618	c.3542C>T	c.(3541-3543)CCT>CTT	p.P1181L	INTS2_uc002izm.2_Missense_Mutation_p.P1173L	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	1181					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						CTGTACATCAGGATCCATGCT	0.328													19	25	---	---	---	---	PASS	A	59944991	A	A	59944991	3	1	4	1	0	0	0	0	1	0	0	0	7778	1000	35	3	76	3	INTS2	17	59944991	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	59053	59944991	21250219	3183	3774										
MED13	9969	broad.mit.edu	37	chr17	60040321	60040321	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggggattcccactttatccCgatccatcgtgctaaaattt	7	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:60040321C>A	uc002izo.2	-	21	4933	c.4856G>T	c.(4855-4857)CGG>CTG	p.R1619L		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	1619					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						CACTTTATCCCGATCCATCGT	0.398													4	58	---	---	---	---	PASS	A	60040321	A	A	60040321	3	1	4	1	0	0	0	0	1	0	0	0	9430	652	23	1	1708	1	MED13	17	60040321	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	95330	60040321	21154889	3184	3775										
MRC2	9902	broad.mit.edu	37	chr17	60753195	60753195	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctactggctgggagaagaCcaagtgacctacagtgaggc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:60753195C>T	uc002jad.2	+	10	2016	c.1614C>T	c.(1612-1614)GAC>GAT	p.D538D	MRC2_uc002jac.2_Silent_p.D538D|MRC2_uc010ddq.1_5'Flank	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	538	Extracellular (Potential).|C-type lectin 3.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						TGGGAGAAGACCAAGTGACCT	0.607													11	54	---	---	---	---	PASS	T	60753195	T	T	60753195	2	4	4	1	0	0	0	0	0	0	0	1	9758	506	18	3		3	MRC2	17	60753195	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	712874	60753195	20442015	3185	3776	151	2								
MRC2	9902	broad.mit.edu	37	chr17	60753196	60753196	+	Nonsense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctactggctgggagaagacCaagtgacctacagtgaggcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:60753196C>T	uc002jad.2	+	10	2017	c.1615C>T	c.(1615-1617)CAA>TAA	p.Q539*	MRC2_uc002jac.2_Nonsense_Mutation_p.Q539*|MRC2_uc010ddq.1_5'Flank	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	539	Extracellular (Potential).|C-type lectin 3.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GGGAGAAGACCAAGTGACCTA	0.612													11	54	---	---	---	---	PASS	T	60753196	T	T	60753196	4	4	4	1	0	0	0	0	0	1	0	0	9758	595	21	3	1653	3	MRC2	17	60753196	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	60753196	20442014	3186	3777	151	2								
TANC2	26115	broad.mit.edu	37	chr17	61345178	61345178	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatacacctttgagaacttCtctacgaatgccaagacaga	6	11	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:61345178C>T	uc002jal.3	+	7	904	c.881C>T	c.(880-882)TCT>TTT	p.S294F	TANC2_uc010wpe.1_Missense_Mutation_p.S204F	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	294							binding			ovary(2)	2						TTGAGAACTTCTCTACGAATG	0.483													15	31	---	---	---	---	PASS	T	61345178	T	T	61345178	3	4	4	1	0	0	0	0	1	0	0	0	15542	913	32	2	907	2	TANC2	17	61345178	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	591982	61345178	19850032	3187	3778										
ERN1	2081	broad.mit.edu	37	chr17	62121422	62121422	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtagggctggaagagtctctCgtggctgcacagctccatgg	15	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:62121422C>T	uc002jdz.2	-	22	2973	c.2860G>A	c.(2860-2862)GAG>AAG	p.E954K	uc002jdy.1_5'Flank	NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	954	Cytoplasmic (Potential).|KEN.				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						AAGAGTCTCTCGTGGCTGCAC	0.657													9	35	---	---	---	---	PASS	T	62121422	T	T	62121422	3	4	4	1	0	0	0	0	1	0	0	0	5237	893	31	2	77	2	ERN1	17	62121422	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	776244	62121422	19073788	3188	3779										
ERN1	2081	broad.mit.edu	37	chr17	62137873	62137873	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcagcaggaatcacattttCccgatgtttgggtagattgt	10	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:62137873C>T	uc002jdz.2	-	11	1275	c.1162G>A	c.(1162-1164)GAA>AAA	p.E388K		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	388	Lumenal (Potential).				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						ATCACATTTTCCCGATGTTTG	0.413													18	53	---	---	---	---	PASS	T	62137873	T	T	62137873	3	4	4	1	0	0	0	0	1	0	0	0	5237	864	30	2	1819	2	ERN1	17	62137873	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	16451	62137873	19057337	3189	3780										
RGS9	8787	broad.mit.edu	37	chr17	63193340	63193340	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgacagagcttccagtacttCctcaagaaagaattcagtgg	9	10	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:63193340C>T	uc002jfe.2	+	13	1067	c.957C>T	c.(955-957)TTC>TTT	p.F319F	RGS9_uc010dem.2_Silent_p.F316F|RGS9_uc002jfd.2_Silent_p.F316F|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Silent_p.F90F	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	319	RGS.			F -> S (in Ref. 3; AAM12647).	intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						TCCAGTACTTCCTCAAGAAAG	0.433													4	19	---	---	---	---	PASS	T	63193340	T	T	63193340	2	4	4	1	0	0	0	0	0	0	0	1	13313	854	30	2		2	RGS9	17	63193340	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1055467	63193340	18001870	3190	3781										
AXIN2	8313	broad.mit.edu	37	chr17	63532556	63532556	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgggtgaacaggtgggcacGgggggtggtgcgggggtgcc	24	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:63532556G>A	uc002jfi.2	-	8	2312	c.2023C>T	c.(2023-2025)CGT>TGT	p.R675C	AXIN2_uc002jfh.2_Missense_Mutation_p.R610C	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	675					cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						AGGTGGGCACGGGGGGTGGTG	0.692									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				4	17	---	---	---	---	PASS	A	63532556	A	A	63532556	3	1	4	1	0	0	0	0	1	0	0	0	1237	1116	39	1	524	1	AXIN2	17	63532556	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	339216	63532556	17662654	3191	3782										
CCDC46	201134	broad.mit.edu	37	chr17	63923748	63923748	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccagttgccataaaaactcCtttgattgtttctcacgaag	6	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:63923748C>T	uc002jfl.2	-	19	2151	c.1932G>A	c.(1930-1932)AAG>AAA	p.K644K	CCDC46_uc010deo.2_Silent_p.K386K|CCDC46_uc002jfm.2_Silent_p.K644K|CCDC46_uc010dep.2_Silent_p.K602K	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	644	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			ATAAAAACTCCTTTGATTGTT	0.294													20	27	---	---	---	---	PASS	T	63923748	T	T	63923748	2	4	4	1	0	0	0	0	0	0	0	1	2817	680	24	3		3	CCDC46	17	63923748	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	391192	63923748	17271462	3192	3783										
APOH	350	broad.mit.edu	37	chr17	64210728	64210728	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctttactctctctccttgGtacaccacagtggctttttt	5	12	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:64210728G>A	uc002jfn.3	-	7	884	c.825C>T	c.(823-825)TAC>TAT	p.Y275Y		NM_000042	NP_000033	P02749	APOH_HUMAN	apolipoprotein H precursor	275	Sushi-like.				blood coagulation, intrinsic pathway|negative regulation of angiogenesis|negative regulation of blood coagulation|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of myeloid cell apoptosis|negative regulation of smooth muscle cell apoptosis|plasminogen activation|positive regulation of lipoprotein lipase activity|triglyceride metabolic process|triglyceride transport	cell surface|chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	eukaryotic cell surface binding|glycoprotein binding|heparin binding|lipoprotein lipase activator activity|phospholipid binding				0			BRCA - Breast invasive adenocarcinoma(6;9.74e-08)			TCTCTCCTTGGTACACCACAG	0.358													12	49	---	---	---	---	PASS	A	64210728	A	A	64210728	2	1	4	1	0	0	0	0	0	0	0	1	804	1256	44	3		3	APOH	17	64210728	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	286980	64210728	16984482	3193	3784										
BPTF	2186	broad.mit.edu	37	chr17	65889712	65889712	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttctgtctgactccagcagGagagttcaaatggaacggtt	12	8	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:65889712G>A	uc002jgf.2	+	6	2343	c.2282G>A	c.(2281-2283)GGA>GAA	p.G761E	BPTF_uc002jge.2_Missense_Mutation_p.G887E|BPTF_uc010wqm.1_Missense_Mutation_p.G824E	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	887	Interaction with MAZ.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			ACTCCAGCAGGAGAGTTCAAA	0.428													10	32	---	---	---	---	PASS	A	65889712	A	A	65889712	3	1	4	1	0	0	0	0	1	0	0	0	1495	1174	41	2	2690	2	BPTF	17	65889712	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1678984	65889712	15305498	3194	3785										
ABCA5	23461	broad.mit.edu	37	chr17	67293357	67293357	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcttcttttcctacaaattCtgaagaaactggctcaataa	6	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:67293357C>T	uc002jif.2	-	9	2629	c.1411G>A	c.(1411-1413)GAA>AAA	p.E471K	ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.E471K|ABCA5_uc002jih.2_Missense_Mutation_p.E471K|ABCA5_uc010dfe.2_Missense_Mutation_p.E471K	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	471					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					CCTACAAATTCTGAAGAAACT	0.303													8	33	---	---	---	---	PASS	T	67293357	T	T	67293357	3	4	4	1	0	0	0	0	1	0	0	0	35	922	32	2	3637	2	ABCA5	17	67293357	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1403645	67293357	13901853	3195	3786										
MAP2K6	5608	broad.mit.edu	37	chr17	67515456	67515456	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatgcatttccattcagcgGatccgagccacagtaaatag	8	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:67515456G>T	uc002jij.2	+	5	537	c.249G>T	c.(247-249)CGG>CGT	p.R83R	MAP2K6_uc002jii.2_Silent_p.R83R|MAP2K6_uc002jik.2_Silent_p.R113R	NM_002758	NP_002749	P52564	MP2K6_HUMAN	mitogen-activated protein kinase kinase 6	83	Protein kinase.				activation of MAPK activity|cell cycle arrest|DNA damage induced protein phosphorylation|innate immune response|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of muscle cell differentiation|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|pancreas(1)	5	Breast(10;6.05e-10)					CCATTCAGCGGATCCGAGCCA	0.458													9	48	---	---	---	---	PASS	T	67515456	T	T	67515456	2	4	4	1	0	0	0	0	0	0	0	1	9241	1161	41	2		2	MAP2K6	17	67515456	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	222099	67515456	13679754	3196	3787										
SDK2	54549	broad.mit.edu	37	chr17	71394475	71394475	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttacctgtagcaggtgaaggGgttgaggtcgggcacctcca	15	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:71394475G>A	uc010dfm.2	-	23	3187	c.3187C>T	c.(3187-3189)CCC>TCC	p.P1063S	SDK2_uc002jjt.3_Missense_Mutation_p.P222S|SDK2_uc010dfn.2_Missense_Mutation_p.P742S	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1063	Fibronectin type-III 5.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						CAGGTGAAGGGGTTGAGGTCG	0.637													22	25	---	---	---	---	PASS	A	71394475	A	A	71394475	3	1	4	1	0	0	0	0	1	0	0	0	13969	1232	43	3	3423	3	SDK2	17	71394475	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3879019	71394475	9800735	3197	3788										
TTYH2	94015	broad.mit.edu	37	chr17	72245532	72245532	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagagtggaagcagccccttCcagcaggtatggccccccga	12	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:72245532C>T	uc002jkc.2	+	8	955	c.924C>T	c.(922-924)TTC>TTT	p.F308F	TTYH2_uc010wqw.1_Silent_p.F287F|TTYH2_uc002jkd.2_5'UTR	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	308	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						GCAGCCCCTTCCAGCAGGTAT	0.612													26	37	---	---	---	---	PASS	T	72245532	T	T	72245532	2	4	4	1	0	0	0	0	0	0	0	1	16737	854	30	2		2	TTYH2	17	72245532	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	851057	72245532	8949678	3198	3789										
TTYH2	94015	broad.mit.edu	37	chr17	72249255	72249255	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgacattgatgatgatgaccCctttaacccccaagcctggc	8	13	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:72249255C>T	uc002jkc.2	+	12	1326	c.1295C>T	c.(1294-1296)CCC>CTC	p.P432L	TTYH2_uc010wqw.1_Missense_Mutation_p.P411L|TTYH2_uc002jkd.2_Missense_Mutation_p.P111L	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	432	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						GATGATGACCCCTTTAACCCC	0.582													27	50	---	---	---	---	PASS	T	72249255	T	T	72249255	3	4	4	1	0	0	0	0	1	0	0	0	16737	623	22	3	1341	3	TTYH2	17	72249255	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3723	72249255	8945955	3199	3790										
KIF19	124602	broad.mit.edu	37	chr17	72346967	72346967	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaccaaccagacatcctgGagccacccgaggtggccgca	11	15	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:72346967G>A	uc002jkm.3	+	12	1648	c.1510G>A	c.(1510-1512)GAG>AAG	p.E504K	KIF19_uc002jkj.2_Missense_Mutation_p.E504K|KIF19_uc002jkk.2_Missense_Mutation_p.E462K|KIF19_uc002jkl.2_Missense_Mutation_p.E462K	NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	504					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						AGACATCCTGGAGCCACCCGA	0.622													17	44	---	---	---	---	PASS	A	72346967	A	A	72346967	3	1	4	1	0	0	0	0	1	0	0	0	8282	1175	41	2	1556	2	KIF19	17	72346967	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	97712	72346967	8848243	3200	3791										
KIF19	124602	broad.mit.edu	37	chr17	72351329	72351329	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccctgttgcaggcccggggGactcctcacccctggctgtt	12	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:72351329G>A	uc002jkm.3	+	20	3013	c.2875G>A	c.(2875-2877)GAC>AAC	p.D959N		NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	959					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						AGGCCCGGGGGACTCCTCACC	0.652													14	13	---	---	---	---	PASS	A	72351329	A	A	72351329	3	1	4	1	0	0	0	0	1	0	0	0	8282	1174	41	2	2953	2	KIF19	17	72351329	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4362	72351329	8843881	3201	3792										
CD300C	10871	broad.mit.edu	37	chr17	72541058	72541058	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccccacggggcccgccacGgtcatggggtggctcagagg	16	16	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:72541058G>A	uc002jky.1	-	2	451	c.90C>T	c.(88-90)ACC>ACT	p.T30T		NM_006678	NP_006669	Q08708	CLM6_HUMAN	CD300C antigen precursor	30	Extracellular (Potential).|Ig-like V-type.				cellular defense response	integral to plasma membrane	transmembrane receptor activity				0						GGCCCGCCACGGTCATGGGGT	0.577													5	13	---	---	---	---	PASS	A	72541058	A	A	72541058	2	1	4	1	0	0	0	0	0	0	0	1	2997	1103	39	1		1	CD300C	17	72541058	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	189729	72541058	8654152	3202	3793										
CD300E	342510	broad.mit.edu	37	chr17	72613441	72613441	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggccattcctctccaccttCtcttctcccttggtctccac	4	20	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:72613441C>T	uc002jlb.1	-	2	245	c.204G>A	c.(202-204)GAG>GAA	p.E68E		NM_181449	NP_852114	Q496F6	CLM2_HUMAN	CD300e molecule precursor	68	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TCTCCACCTTCTCTTCTCCCT	0.522													15	32	---	---	---	---	PASS	T	72613441	T	T	72613441	2	4	4	1	0	0	0	0	0	0	0	1	2998	912	32	2		2	CD300E	17	72613441	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	72383	72613441	8581769	3203	3794										
TMEM104	54868	broad.mit.edu	37	chr17	72791233	72791233	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgctgccgtgcccttctcCctcatgcaggtgacctggtg	12	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:72791233C>T	uc002jls.3	+	7	672	c.510C>T	c.(508-510)TCC>TCT	p.S170S	TMEM104_uc010wrf.1_Silent_p.S170S|TMEM104_uc010wrg.1_Silent_p.S183S|TMEM104_uc010dfx.2_Silent_p.S170S	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	170	Extracellular (Potential).					integral to membrane					0	all_lung(278;0.23)					TGCCCTTCTCCCTCATGCAGG	0.572													15	29	---	---	---	---	PASS	T	72791233	T	T	72791233	2	4	4	1	0	0	0	0	0	0	0	1	16015	610	22	3		3	TMEM104	17	72791233	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	177792	72791233	8403977	3204	3795										
TMEM104	54868	broad.mit.edu	37	chr17	72832361	72832361	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacatgtacaccctcaacttCgcgcgctgtgacgtcgtggg	12	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:72832361C>T	uc002jls.3	+	10	1188	c.1026C>T	c.(1024-1026)TTC>TTT	p.F342F	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Silent_p.F342F	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	342	Extracellular (Potential).					integral to membrane					0	all_lung(278;0.23)					CCCTCAACTTCGCGCGCTGTG	0.612													35	100	---	---	---	---	PASS	T	72832361	T	T	72832361	2	4	4	1	0	0	0	0	0	0	0	1	16015	883	31	2		2	TMEM104	17	72832361	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	41128	72832361	8362849	3205	3796										
FADS6	283985	broad.mit.edu	37	chr17	72888659	72888659	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccaggctcacctccacaaaGaaaagcagccagatcttgct	7	15	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:72888659G>A	uc002jmd.1	-	2	360	c.348C>T	c.(346-348)TTC>TTT	p.F116F		NM_178128	NP_835229	Q8N9I5	FADS6_HUMAN	fatty acid desaturase domain family, member 6	122	Helical; (Potential).				fatty acid biosynthetic process	integral to membrane	oxidoreductase activity				0	all_lung(278;0.172)|Lung NSC(278;0.207)					CCTCCACAAAGAAAAGCAGCC	0.597													4	19	---	---	---	---	PASS	A	72888659	A	A	72888659	2	1	4	1	0	0	0	0	0	0	0	1	5368	933	33	2		2	FADS6	17	72888659	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	56298	72888659	8306551	3206	3797										
OTOP2	92736	broad.mit.edu	37	chr17	72929487	72929487	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagctgtggatcatgcctgcCttcggggcccgccctcattt	11	15	2	0	rs5018711		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:72929487C>T	uc010wrp.1	+	8	1625	c.1536C>T	c.(1534-1536)GCC>GCT	p.A512A	OTOP3_uc010wrq.1_5'Flank|OTOP3_uc010wrr.1_5'Flank	NM_178160	NP_835454	Q7RTS6	OTOP2_HUMAN	otopetrin 2	512	Helical; (Potential).					integral to membrane				ovary(3)|large_intestine(1)	4	all_lung(278;0.172)|Lung NSC(278;0.207)					TCATGCCTGCCTTCGGGGCCC	0.582													22	48	---	---	---	---	PASS	T	72929487	T	T	72929487	2	4	4	1	0	0	0	0	0	0	0	1	11306	668	24	3		3	OTOP2	17	72929487	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	40828	72929487	8265723	3207	3798										
TRIM47	91107	broad.mit.edu	37	chr17	73870748	73870748	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgccaccccggcggggccggGaggccttcagcctccgcagg	16	17	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:73870748G>A	uc002jpw.2	-	6	1760	c.1733C>T	c.(1732-1734)TCC>TTC	p.S578F	TRIM47_uc002jpv.2_Missense_Mutation_p.S340F	NM_033452	NP_258411	Q96LD4	TRI47_HUMAN	tripartite motif-containing 47	578	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|prostate(1)|lung(1)|breast(1)	5			Epithelial(20;4.23e-06)|all cancers(21;5.24e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCGGGGCCGGGAGGCCTTCAG	0.662													13	11	---	---	---	---	PASS	A	73870748	A	A	73870748	3	1	4	1	0	0	0	0	1	0	0	0	16519	1174	41	2	187	2	TRIM47	17	73870748	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	941261	73870748	7324462	3208	3799										
UBE2O	63893	broad.mit.edu	37	chr17	74387585	74387585	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcatggactgcaccacgcgGatcagcgccatctcattgta	10	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:74387585G>A	uc002jrm.3	-	18	3383	c.3318C>T	c.(3316-3318)ATC>ATT	p.I1106I	UBE2O_uc002jrl.3_Silent_p.I710I	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	1106							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						GCACCACGCGGATCAGCGCCA	0.577													14	35	---	---	---	---	PASS	A	74387585	A	A	74387585	2	1	4	1	0	0	0	0	0	0	0	1	16865	1164	41	2		2	UBE2O	17	74387585	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	516837	74387585	6807625	3209	3800										
ST6GALNAC1	55808	broad.mit.edu	37	chr17	74622468	74622468	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttccaggaagtgcaagtagcGgacgtcctgaggaccaagga	14	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:74622468G>A	uc002jsh.2	-	6	1492	c.1318C>T	c.(1318-1320)CGC>TGC	p.R440C	ST6GALNAC1_uc002jsi.2_Missense_Mutation_p.R308C|ST6GALNAC1_uc002jsj.2_Intron	NM_018414	NP_060884	Q9NSC7	SIA7A_HUMAN	sialyltransferase 7A	440	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity				0						TGCAAGTAGCGGACGTCCTGA	0.552													7	30	---	---	---	---	PASS	A	74622468	A	A	74622468	3	1	4	1	0	0	0	0	1	0	0	0	15222	1116	39	1	500	1	ST6GALNAC1	17	74622468	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	234883	74622468	6572742	3210	3801										
MGAT5B	146664	broad.mit.edu	37	chr17	74928785	74928785	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggagctcaacgagacggaGaagcggctcatcaaaggcgg	16	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:74928785G>A	uc002jti.2	+	10	1486	c.1383G>A	c.(1381-1383)GAG>GAA	p.E461E	MGAT5B_uc002jth.2_Silent_p.E450E	NM_198955	NP_945193	Q3V5L5	MGT5B_HUMAN	N-acetylglucosaminyltranferase VB isoform 2	450	Lumenal (Potential).					Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						ACGAGACGGAGAAGCGGCTCA	0.632													17	25	---	---	---	---	PASS	A	74928785	A	A	74928785	2	1	4	1	0	0	0	0	0	0	0	1	9549	933	33	2		2	MGAT5B	17	74928785	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	306317	74928785	6266425	3211	3802										
MGAT5B	146664	broad.mit.edu	37	chr17	74942448	74942448	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccccatgtgtctgcccatcCctcccacaggtagaccccta	7	19	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:74942448C>T	uc002jtj.2	+	1	117	c.54C>T	c.(52-54)TCC>TCT	p.S18S	MGAT5B_uc002jth.2_Intron|MGAT5B_uc002jti.2_Intron			Q3V5L5	MGT5B_HUMAN	RecName: Full=Alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B;          EC=2.4.1.155;          EC=2.4.1.-; AltName: Full=Alpha-mannoside beta-1,6-N-acetylglucosaminyltransferase B; AltName: Full=Mannoside acetylglucosaminyltransferase 5B; AltName: Full=N-acetylglucosaminyl-transferase Vb; AltName: Full=GlcNAc-T Vb;          Short=hGnTVb;          Short=GNT-Vb; AltName: Full=N-acetylglucosaminyltransferase IX;          Short=GNT-IX;	Error:Variant_position_missing_in_Q3V5L5_after_alignment						Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						TCTGCCCATCCCTCCCACAGG	0.657													9	5	---	---	---	---	PASS	T	74942448	T	T	74942448	2	4	4	1	0	0	0	0	0	0	0	1	9549	638	22	3		3	MGAT5B	17	74942448	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	13663	74942448	6252762	3212	3803										
DNAH17	8632	broad.mit.edu	37	chr17	76435281	76435281	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagttttccattgtctatgGtaaaccctagtttttttcct	7	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:76435281G>A	uc010dhp.1	-	18	2918	c.2696C>T	c.(2695-2697)ACC>ATC	p.T899I	DNAH17_uc002jvq.2_Missense_Mutation_p.T184I|DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			ATTGTCTATGGTAAACCCTAG	0.463													9	10	---	---	---	---	PASS	A	76435281	A	A	76435281	3	1	4	1	0	0	0	0	1	0	0	0	4601	1261	44	3	1728	3	DNAH17	17	76435281	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1492833	76435281	4759929	3213	3804										
DNAH17	8632	broad.mit.edu	37	chr17	76455988	76455988	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagctcttgtccttggggatCttgcccccaggtgcggtcag	13	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:76455988C>T	uc010dhp.1	-	5	753	c.531G>A	c.(529-531)AAG>AAA	p.K177K	DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			CCTTGGGGATCTTGCCCCCAG	0.582													8	33	---	---	---	---	PASS	T	76455988	T	T	76455988	2	4	4	1	0	0	0	0	0	0	0	1	4601	912	32	2		2	DNAH17	17	76455988	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	20707	76455988	4739222	3214	3805										
DNAH17	8632	broad.mit.edu	37	chr17	76547628	76547628	+	Nonsense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgcttaccttcatagcctGggaaattccttctatatttt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:76547628G>A	uc002jvv.1	-	12	1592	c.1486C>T	c.(1486-1488)CAG>TAG	p.Q496*						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			TTCATAGCCTGGGAAATTCCT	0.502													6	33	---	---	---	---	PASS	A	76547628	A	A	76547628	4	1	4	1	0	0	0	0	0	1	0	0	4601	1357	47	3	11272	3	DNAH17	17	76547628	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	91640	76547628	4647582	3215	3806	152	2								
DNAH17	8632	broad.mit.edu	37	chr17	76547629	76547629	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgcttaccttcatagcctgGgaaattccttctatattttg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:76547629G>A	uc002jvv.1	-	12	1591	c.1485C>T	c.(1483-1485)TCC>TCT	p.S495S						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			TCATAGCCTGGGAAATTCCTT	0.502													7	33	---	---	---	---	PASS	A	76547629	A	A	76547629	2	1	4	1	0	0	0	0	0	0	0	1	4601	1219	43	3		3	DNAH17	17	76547629	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	76547629	4647581	3216	3807	152	2								
DNAH17	8632	broad.mit.edu	37	chr17	76557905	76557905	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcatgtttttgtggatcaggGggatgttcccctcctcggag	14	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:76557905G>A	uc002jvv.1	-	8	939	c.833C>T	c.(832-834)CCC>CTC	p.P278L						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			GTGGATCAGGGGGATGTTCCC	0.567													5	29	---	---	---	---	PASS	A	76557905	A	A	76557905	3	1	4	1	0	0	0	0	1	0	0	0	4601	1232	43	3	11941	3	DNAH17	17	76557905	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	10276	76557905	4637305	3217	3808										
DNAH17	8632	broad.mit.edu	37	chr17	76565307	76565307	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaaaggcaagagaagaagGgaattcccaaggcacgggct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:76565307G>A	uc002jvv.1	-	5	437	c.331C>T	c.(331-333)CCT>TCT	p.P111S						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			AGAGAAGAAGGGAATTCCCAA	0.473													5	13	---	---	---	---	PASS	A	76565307	A	A	76565307	3	1	4	1	0	0	0	0	1	0	0	0	4601	1232	43	3	12455	3	DNAH17	17	76565307	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	7402	76565307	4629903	3218	3809	153	2								
DNAH17	8632	broad.mit.edu	37	chr17	76565308	76565308	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaaaggcaagagaagaaggGaattcccaaggcacgggctc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:76565308G>A	uc002jvv.1	-	5	436	c.330C>T	c.(328-330)TTC>TTT	p.F110F						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			GAGAAGAAGGGAATTCCCAAG	0.468													5	15	---	---	---	---	PASS	A	76565308	A	A	76565308	2	1	4	1	0	0	0	0	0	0	0	1	4601	1165	41	2		2	DNAH17	17	76565308	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	76565308	4629902	3219	3810	153	2								
USP36	57602	broad.mit.edu	37	chr17	76831522	76831522	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagacagtcgctccgtgggGaaaagcactttctgcggggc	15	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:76831522G>A	uc002jvz.1	-	4	640	c.315C>T	c.(313-315)TTC>TTT	p.F105F	USP36_uc002jwa.1_Silent_p.F105F|USP36_uc002jwd.1_Silent_p.F105F	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	105					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			GCTCCGTGGGGAAAAGCACTT	0.582													10	10	---	---	---	---	PASS	A	76831522	A	A	76831522	2	1	4	1	0	0	0	0	0	0	0	1	17064	1165	41	2		2	USP36	17	76831522	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	266214	76831522	4363688	3220	3811										
CBX2	84733	broad.mit.edu	37	chr17	77755583	77755583	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgccatgtcctcctgcagcCggcgctccaagctcaaggtg	11	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:77755583C>T	uc002jxc.2	+	4	313	c.271C>T	c.(271-273)CGG>TGG	p.R91W	CBX2_uc002jxb.1_Missense_Mutation_p.R91W	NM_005189	NP_005180	Q14781	CBX2_HUMAN	chromobox homolog 2 isoform 1	91	Ser-rich.				cell differentiation|chromatin modification|development of primary sexual characteristics|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	PcG protein complex	DNA binding				0			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CTCCTGCAGCCGGCGCTCCAA	0.657													10	18	---	---	---	---	PASS	T	77755583	T	T	77755583	3	4	4	1	0	0	0	0	1	0	0	0	2718	643	23	1	285	1	CBX2	17	77755583	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	924061	77755583	3439627	3221	3812										
TBC1D16	125058	broad.mit.edu	37	chr17	77924299	77924299	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagcctcttgtacatgctctCctcggggtgcgtctcggagg	14	12	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:77924299C>T	uc002jxj.2	-	6	1284	c.1168G>A	c.(1168-1170)GAG>AAG	p.E390K	TBC1D16_uc002jxh.2_Missense_Mutation_p.E28K|TBC1D16_uc002jxi.2_Missense_Mutation_p.E29K|TBC1D16_uc002jxk.1_Missense_Mutation_p.E28K	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	390						intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			TACATGCTCTCCTCGGGGTGC	0.642													3	8	---	---	---	---	PASS	T	77924299	T	T	77924299	3	4	4	1	0	0	0	0	1	0	0	0	15602	864	30	2	1163	2	TBC1D16	17	77924299	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	168716	77924299	3270911	3222	3813										
CHMP6	79643	broad.mit.edu	37	chr17	78969519	78969519	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaatgaaagtgatggagggGctgcagtttggaaatgagtg	17	2	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:78969519G>A	uc002jyw.3	+	4	387	c.309G>A	c.(307-309)GGG>GGA	p.G103G		NM_024591	NP_078867	Q96FZ7	CHMP6_HUMAN	chromatin modifying protein 6	103	Potential.				cellular membrane organization|endosome transport|protein transport	cytosol|endomembrane system|late endosome membrane	protein N-terminus binding			ovary(1)	1	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0175)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			TGATGGAGGGGCTGCAGTTTG	0.567													22	38	---	---	---	---	PASS	A	78969519	A	A	78969519	2	1	4	1	0	0	0	0	0	0	0	1	3360	1190	42	3		3	CHMP6	17	78969519	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1045220	78969519	2225691	3223	3814										
SLC38A10	124565	broad.mit.edu	37	chr17	79263498	79263498	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagggcgcctcacccaggccGgcgtaggtcctccgcttgct	14	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:79263498G>A	uc002jzz.1	-	2	585	c.210C>T	c.(208-210)GCC>GCT	p.A70A	SLC38A10_uc002kab.2_Silent_p.A70A	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	70					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CACCCAGGCCGGCGTAGGTCC	0.552													10	14	---	---	---	---	PASS	A	79263498	A	A	79263498	2	1	4	1	0	0	0	0	0	0	0	1	14602	1103	39	1		1	SLC38A10	17	79263498	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	293979	79263498	1931712	3224	3815										
ACTG1	71	broad.mit.edu	37	chr17	79478502	79478502	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagacgcaggatggcgtgggGgagggcgtagccctcgtaga	19	9	0	2	rs11549192		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:79478502G>A	uc002kaj.1	-	3	539	c.514C>T	c.(514-516)CCC>TCC	p.P172S	ACTG1_uc002kah.1_Missense_Mutation_p.P50S|ACTG1_uc002kai.1_Missense_Mutation_p.P129S|ACTG1_uc002kak.1_Missense_Mutation_p.P172S|ACTG1_uc010wun.1_Missense_Mutation_p.P172S|ACTG1_uc002kal.1_Missense_Mutation_p.P172S|ACTG1_uc002kag.2_RNA	NM_001614	NP_001605	P63261	ACTG_HUMAN	actin, gamma 1 propeptide	172					adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol	ATP binding|identical protein binding			ovary(1)|central_nervous_system(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0547)			ATGGCGTGGGGGAGGGCGTAG	0.647													21	30	---	---	---	---	PASS	A	79478502	A	A	79478502	3	1	4	1	0	0	0	0	1	0	0	0	196	1232	43	3	625	3	ACTG1	17	79478502	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	215004	79478502	1716708	3225	3816										
NPLOC4	55666	broad.mit.edu	37	chr17	79596825	79596825	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccatccggggactggacacGaattatctgttgcaaacaaa	9	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:79596825G>A	uc002kat.3	-	2	204	c.22C>T	c.(22-24)CGT>TGT	p.R8C	NPLOC4_uc002kau.3_Missense_Mutation_p.R8C|NPLOC4_uc010wur.1_5'UTR	NM_017921	NP_060391	Q8TAT6	NPL4_HUMAN	nuclear protein localization 4	8					cellular membrane fusion|ER-associated protein catabolic process|Golgi organization	cytosol|endoplasmic reticulum|nuclear outer membrane-endoplasmic reticulum membrane network|nucleus	zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GACTGGACACGAATTATCTGT	0.463													19	62	---	---	---	---	PASS	A	79596825	A	A	79596825	3	1	4	1	0	0	0	0	1	0	0	0	10586	1058	37	2	1868	2	NPLOC4	17	79596825	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	118323	79596825	1598385	3226	3817										
SLC25A10	1468	broad.mit.edu	37	chr17	79682059	79682059	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtggtgcgtaccgacggcaTcctggcactctacagcggcc	14	14	1	0	rs141074608	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:79682059T>G	uc002kbi.2	+	2	256	c.170T>G	c.(169-171)ATC>AGC	p.I57S	SLC25A10_uc010wut.1_Missense_Mutation_p.I212S|SLC25A10_uc010dif.2_Missense_Mutation_p.I57S|SLC25A10_uc010wuu.1_Missense_Mutation_p.I11S	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	57	Solcar 1.				gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)	ACCGACGGCATCCTGGCACTC	0.662													4	16	---	---	---	---	PASS	G	79682059	G	G	79682059	3	3	4	1	0	0	0	0	1	0	0	0	14472	1435	50	5	176	5	SLC25A10	17	79682059	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	85234	79682059	1513151	3227	3818										
NOTUM	147111	broad.mit.edu	37	chr17	79914614	79914614	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggcagcgctccgggaccacCccgttccagtacctggagcc	12	18	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:79914614C>T	uc010wvg.1	-	8	1172	c.900G>A	c.(898-900)GGG>GGA	p.G300G		NM_178493	NP_848588	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog precursor	300						extracellular region	hydrolase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CCGGGACCACCCCGTTCCAGT	0.672													5	9	---	---	---	---	PASS	T	79914614	T	T	79914614	2	4	4	1	0	0	0	0	0	0	0	1	10552	610	22	3		3	NOTUM	17	79914614	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	232555	79914614	1280596	3228	3819										
FASN	2194	broad.mit.edu	37	chr17	80045900	80045900	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccaggagccgtacctccagGgacactgtccctgcagagcg	12	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:80045900G>A	uc002kdu.2	-	18	2913	c.2796C>T	c.(2794-2796)TCC>TCT	p.S932S	FASN_uc002kdw.1_Silent_p.S148S	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	932					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)	GTACCTCCAGGGACACTGTCC	0.667													10	17	---	---	---	---	PASS	A	80045900	A	A	80045900	2	1	4	1	0	0	0	0	0	0	0	1	5683	1219	43	3		3	FASN	17	80045900	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	131286	80045900	1149310	3229	3820										
ZNF750	79755	broad.mit.edu	37	chr17	80788605	80788605	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgccttggtacgtgggttCgtgggtggctgccaggttta	17	8	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:80788605C>T	uc002kga.2	-	3	1896	c.1585G>A	c.(1585-1587)GAA>AAA	p.E529K	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	529						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			TACGTGGGTTCGTGGGTGGCT	0.617													10	29	---	---	---	---	PASS	T	80788605	T	T	80788605	3	4	4	1	0	0	0	0	1	0	0	0	18129	893	31	2	590	2	ZNF750	17	80788605	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	742705	80788605	406605	3230	3821										
ZNF750	79755	broad.mit.edu	37	chr17	80789461	80789461	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagccaggtgcttagggatCggccccgggtgaggcaggaa	19	9	0	1	rs117000095	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:80789461C>T	uc002kga.2	-	2	1181	c.870G>A	c.(868-870)CCG>CCA	p.P290P	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	290						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GCTTAGGGATCGGCCCCGGGT	0.577													43	64	---	---	---	---	PASS	T	80789461	T	T	80789461	2	4	4	1	0	0	0	0	0	0	0	1	18129	871	31	2		2	ZNF750	17	80789461	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	856	80789461	405749	3231	3822										
TBCD	6904	broad.mit.edu	37	chr17	80828254	80828254	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctttgtgactgcaatctcGaggtaggcccattcgtcgag	11	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr17:80828254G>A	uc002kfz.2	+	14	1603	c.1473G>A	c.(1471-1473)TCG>TCA	p.S491S	TBCD_uc002kfx.1_Silent_p.S474S|TBCD_uc002kfy.1_Silent_p.S491S	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	491					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			CTGCAATCTCGAGGTAGGCCC	0.632													10	10	---	---	---	---	PASS	A	80828254	A	A	80828254	2	1	4	1	0	0	0	0	0	0	0	1	15630	1045	37	2		2	TBCD	17	80828254	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	38793	80828254	366956	3232	3823										
COLEC12	81035	broad.mit.edu	37	chr18	346394	346394	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttggctacttcagtgtctaAcctcgacctcatcaaatctt	6	12	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:346394A>G	uc002kkm.2	-	5	1443	c.1228T>C	c.(1228-1230)TTA>CTA	p.L410L		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	410	Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				TCAGTGTCTAACCTCGACCTC	0.413													16	42	---	---	---	---	PASS	G	346394	G	G	346394	2	3	4	1	0	0	0	0	0	0	0	1	3712	40	2	5		5	COLEC12	18	346394	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08		346394	77730854	3233	3824										
EMILIN2	84034	broad.mit.edu	37	chr18	2892287	2892287	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caagctggactctatctcagGaaatcttcagaggatcaagg	10	9	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:2892287G>A	uc002kln.2	+	4	2321	c.2162G>A	c.(2161-2163)GGA>GAA	p.G721E		NM_032048	NP_114437	Q9BXX0	EMIL2_HUMAN	elastin microfibril interfacer 2 precursor	721					cell adhesion	collagen	extracellular matrix constituent conferring elasticity|protein binding			skin(2)|ovary(1)	3				READ - Rectum adenocarcinoma(2;0.1)		TCTATCTCAGGAAATCTTCAG	0.542													19	24	---	---	---	---	PASS	A	2892287	A	A	2892287	3	1	4	1	0	0	0	0	1	0	0	0	5094	1174	41	2	2176	2	EMILIN2	18	2892287	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2545893	2892287	75184961	3234	3825										
MYOM1	8736	broad.mit.edu	37	chr18	3155065	3155065	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaagggagcagctggggctCcttcaatctctgcatcagca	11	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:3155065C>T	uc002klp.2	-	11	1857	c.1523G>A	c.(1522-1524)GGA>GAA	p.G508E	MYOM1_uc002klq.2_Missense_Mutation_p.G508E	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	508						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						AGCTGGGGCTCCTTCAATCTC	0.527													8	14	---	---	---	---	PASS	T	3155065	T	T	3155065	3	4	4	1	0	0	0	0	1	0	0	0	10091	855	30	2	3646	2	MYOM1	18	3155065	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	262778	3155065	74922183	3235	3826										
MYOM1	8736	broad.mit.edu	37	chr18	3215053	3215053	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgacggaaggcctcggactCccggcggtgcgcggcggagg	19	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:3215053C>T	uc002klp.2	-	2	503	c.169G>A	c.(169-171)GAG>AAG	p.E57K	MYOM1_uc002klq.2_Missense_Mutation_p.E57K	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	57						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GCCTCGGACTCCCGGCGGTGC	0.692													4	11	---	---	---	---	PASS	T	3215053	T	T	3215053	3	4	4	1	0	0	0	0	1	0	0	0	10091	864	30	2	5036	2	MYOM1	18	3215053	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	59988	3215053	74862195	3236	3827										
TGIF1	7050	broad.mit.edu	37	chr18	3456442	3456442	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atccgctggctcaggcaagaGaaggagaaggggcaacctac	14	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:3456442G>A	uc002klz.2	+	2	881	c.494G>A	c.(493-495)AGA>AAA	p.R165K	TGIF1_uc002klu.2_Missense_Mutation_p.R16K|TGIF1_uc002klv.2_Missense_Mutation_p.R50K|TGIF1_uc002klx.2_Missense_Mutation_p.R16K|TGIF1_uc002klw.2_Missense_Mutation_p.R36K|TGIF1_uc010dkm.1_Missense_Mutation_p.R36K|TGIF1_uc002kly.2_Missense_Mutation_p.R36K|TGIF1_uc002kma.2_Missense_Mutation_p.R16K|TGIF1_uc002kmb.2_Missense_Mutation_p.R16K|TGIF1_uc002kmc.2_Missense_Mutation_p.R16K	NM_170695	NP_733796	Q15583	TGIF1_HUMAN	TG-interacting factor isoform a	165	Homeobox; TALE-type.|Poly-Arg.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Esophageal squamous(4;0.0859)	Colorectal(8;0.0104)				TCAGGCAAGAGAAGGAGAAGG	0.512													85	173	---	---	---	---	PASS	A	3456442	A	A	3456442	3	1	4	1	0	0	0	0	1	0	0	0	15822	942	33	2	582	2	TGIF1	18	3456442	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	241389	3456442	74620806	3237	3828										
ARHGAP28	79822	broad.mit.edu	37	chr18	6859867	6859867	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcccaggataaagaagggAgttttgcggttcccaggagt	13	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:6859867A>T	uc010wzi.1	+	4	404	c.166A>T	c.(166-168)AGT>TGT	p.S56C	ARHGAP28_uc002knc.2_Missense_Mutation_p.S181C|ARHGAP28_uc002knd.2_Missense_Mutation_p.S74C|ARHGAP28_uc002kne.2_Missense_Mutation_p.S74C|ARHGAP28_uc002knf.2_Missense_Mutation_p.S65C			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	56					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				TAAAGAAGGGAGTTTTGCGGT	0.438													28	70	---	---	---	---	PASS	T	6859867	T	T	6859867	3	4	4	1	0	0	0	0	1	0	0	0	877	304	11	5	230	5	ARHGAP28	18	6859867	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	3403425	6859867	71217381	3238	3829										
ARHGAP28	79822	broad.mit.edu	37	chr18	6873493	6873493	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaagaaaatccgccatctctCtctgattgaattgactgcct	7	11	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:6873493C>T	uc010wzi.1	+	7	747	c.509C>T	c.(508-510)TCT>TTT	p.S170F	ARHGAP28_uc002knc.2_Missense_Mutation_p.S295F|ARHGAP28_uc002knd.2_Missense_Mutation_p.S188F|ARHGAP28_uc002kne.2_Missense_Mutation_p.S188F|ARHGAP28_uc002knf.2_Missense_Mutation_p.S179F			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	170					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				CGCCATCTCTCTCTGATTGAA	0.378													30	71	---	---	---	---	PASS	T	6873493	T	T	6873493	3	4	4	1	0	0	0	0	1	0	0	0	877	913	32	2	585	2	ARHGAP28	18	6873493	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	13626	6873493	71203755	3239	3830										
LRRC30	339291	broad.mit.edu	37	chr18	7231207	7231207	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgctgttcacggggaggaGacagaagttttctccgtggg	16	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:7231207G>A	uc010wzk.1	+	1	71	c.71G>A	c.(70-72)AGA>AAA	p.R24K		NM_001105581	NP_001099051	A6NM36	LRC30_HUMAN	leucine rich repeat containing 30	24										ovary(1)|liver(1)	2						ACGGGGAGGAGACAGAAGTTT	0.617													17	26	---	---	---	---	PASS	A	7231207	A	A	7231207	3	1	4	1	0	0	0	0	1	0	0	0	8985	942	33	2	73	2	LRRC30	18	7231207	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	357714	7231207	70846041	3240	3831										
PTPRM	5797	broad.mit.edu	37	chr18	8069870	8069870	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagctgggatacagaaaactCacaccctcaacacacgatca	6	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:8069870C>T	uc002knn.3	+	8	1822	c.1319C>T	c.(1318-1320)TCA>TTA	p.S440L	PTPRM_uc010dkv.2_Missense_Mutation_p.S440L|PTPRM_uc010wzl.1_Missense_Mutation_p.S227L	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	440	Fibronectin type-III 2.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				ACAGAAAACTCACACCCTCAA	0.468													7	18	---	---	---	---	PASS	T	8069870	T	T	8069870	3	4	4	1	0	0	0	0	1	0	0	0	12806	838	29	2	1349	2	PTPRM	18	8069870	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	838663	8069870	70007378	3241	3832										
PTPRM	5797	broad.mit.edu	37	chr18	8380381	8380381	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagactggtcctggattatCactgcacatccgtagttatg	11	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:8380381C>T	uc002knn.3	+	27	4338	c.3835C>T	c.(3835-3837)CAC>TAC	p.H1279Y	PTPRM_uc010dkv.2_Missense_Mutation_p.H1292Y|PTPRM_uc010wzl.1_Missense_Mutation_p.H1066Y	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1279	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				CCTGGATTATCACTGCACATC	0.453													20	21	---	---	---	---	PASS	T	8380381	T	T	8380381	3	4	4	1	0	0	0	0	1	0	0	0	12806	826	29	2	3988	2	PTPRM	18	8380381	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	310511	8380381	69696867	3242	3833										
PPP4R1	9989	broad.mit.edu	37	chr18	9550286	9550286	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caatacataccaacttgtagGaaatccaacgaacagaagaa	6	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:9550286G>A	uc002koe.1	-	17	2520	c.2402C>T	c.(2401-2403)TCC>TTC	p.S801F	PPP4R1_uc002kof.2_Missense_Mutation_p.S218F|PPP4R1_uc010wzo.1_Missense_Mutation_p.S647F|PPP4R1_uc002kod.1_Missense_Mutation_p.S784F	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	801	HEAT 13.				protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						CAACTTGTAGGAAATCCAACG	0.378													32	59	---	---	---	---	PASS	A	9550286	A	A	9550286	3	1	4	1	0	0	0	0	1	0	0	0	12403	1174	41	2	466	2	PPP4R1	18	9550286	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1169905	9550286	68526962	3243	3834										
FAM38B	63895	broad.mit.edu	37	chr18	10680351	10680351	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttctttttcataattttcCagaaattgcatagcaccctg	4	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:10680351C>T	uc002kor.3	-	10	1469	c.1329G>A	c.(1327-1329)CTG>CTA	p.L443L	FAM38B_uc002koq.2_Silent_p.L278L	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2486						integral to membrane	ion channel activity			ovary(1)	1						CATAATTTTCCAGAAATTGCA	0.378													13	49	---	---	---	---	PASS	T	10680351	T	T	10680351	2	4	4	1	0	0	0	0	0	0	0	1	5555	581	21	3		3	FAM38B	18	10680351	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1130065	10680351	67396897	3244	3835										
SPIRE1	56907	broad.mit.edu	37	chr18	12506584	12506584	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtactgccgctcttggacCttcttaagttttaccccatt	6	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:12506584C>T	uc002kre.2	-	6	911	c.864G>A	c.(862-864)AAG>AAA	p.K288K	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Silent_p.K168K|SPIRE1_uc010wzx.1_Silent_p.K91K|SPIRE1_uc010wzy.1_Silent_p.K288K	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	288						cytoskeleton|perinuclear region of cytoplasm	actin binding				0						GCTCTTGGACCTTCTTAAGTT	0.433													51	91	---	---	---	---	PASS	T	12506584	T	T	12506584	2	4	4	1	0	0	0	0	0	0	0	1	15070	680	24	3		3	SPIRE1	18	12506584	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1826233	12506584	65570664	3245	3836										
SEH1L	81929	broad.mit.edu	37	chr18	12982531	12982531	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taacaggaaagaactgacttCctctggtgggccaacaaagt	10	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:12982531C>T	uc002krr.2	+	7	914	c.776C>T	c.(775-777)TCC>TTC	p.S259F	SEH1L_uc002krq.2_Missense_Mutation_p.S259F	NM_031216	NP_112493	Q96EE3	SEH1_HUMAN	sec13-like protein isoform 2	259					attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|carbohydrate metabolic process|cell division|glucose transport|mitotic metaphase plate congression|mitotic prometaphase|mRNA transport|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex					0						GAACTGACTTCCTCTGGTGGG	0.323													6	35	---	---	---	---	PASS	T	12982531	T	T	12982531	3	4	4	1	0	0	0	0	1	0	0	0	14009	855	30	2	802	2	SEH1L	18	12982531	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	475947	12982531	65094717	3246	3837										
C18orf1	753	broad.mit.edu	37	chr18	13621131	13621131	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcagcggagctggagttcgCccaaatcatcatcatcgtcg	12	12	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:13621131C>T	uc002ksa.2	+	5	865	c.197C>T	c.(196-198)GCC>GTC	p.A66V	C18orf1_uc002ksb.2_Missense_Mutation_p.A66V|C18orf1_uc002kse.2_Missense_Mutation_p.A29V|C18orf1_uc002ksf.2_Missense_Mutation_p.A29V|C18orf1_uc002ksg.1_5'UTR|C18orf1_uc002ksh.1_Missense_Mutation_p.A8V|C18orf1_uc002ksi.1_Missense_Mutation_p.A8V	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	66	Helical; (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		CTGGAGTTCGCCCAAATCATC	0.592													32	58	---	---	---	---	PASS	T	13621131	T	T	13621131	3	4	4	1	0	0	0	0	1	0	0	0	1894	739	26	3	288	3	C18orf1	18	13621131	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	638600	13621131	64456117	3247	3838										
RNMT	8731	broad.mit.edu	37	chr18	13737115	13737115	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatggaaaaaaggaagaatTaacaagctagtttgtactgg	10	3	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:13737115T>C	uc002ksk.1	+	4	727	c.660T>C	c.(658-660)ATT>ATC	p.I220I	RNMT_uc002ksl.1_Silent_p.I220I|RNMT_uc002ksm.1_Silent_p.I220I|RNMT_uc010dlk.2_Silent_p.I220I|RNMT_uc010xae.1_RNA	NM_003799	NP_003790	O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	220					mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	mRNA (guanine-N7-)-methyltransferase activity|RNA binding				0						AAGGAAGAATTAACAAGCTAG	0.333													26	34	---	---	---	---	PASS	C	13737115	C	C	13737115	2	2	4	1	0	0	0	0	0	0	0	1	13506	1742	61	5		5	RNMT	18	13737115	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	115984	13737115	64340133	3248	3839										
MC2R	4158	broad.mit.edu	37	chr18	13884700	13884700	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccggaaggcatatatgaagGggtcaatgacggcattgcac	13	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:13884700G>A	uc002ksp.1	-	2	995	c.818C>T	c.(817-819)CCC>CTC	p.P273L		NM_000529	NP_000520	Q01718	ACTHR_HUMAN	melanocortin 2 receptor	273	Helical; Name=7; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	corticotropin receptor activity|protein binding			ovary(4)|skin(1)	5					Corticotropin(DB01285)|Cosyntropin(DB01284)	ATATATGAAGGGGTCAATGAC	0.498													24	53	---	---	---	---	PASS	A	13884700	A	A	13884700	3	1	4	1	0	0	0	0	1	0	0	0	9364	1232	43	3	79	3	MC2R	18	13884700	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	147585	13884700	64192548	3249	3840										
ROCK1	6093	broad.mit.edu	37	chr18	18571194	18571194	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtttgtcagttaaacgagCtttggttactttgtgttcat	9	5	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:18571194C>T	uc002kte.2	-	18	3027	c.2086G>A	c.(2086-2088)GCT>ACT	p.A696T		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	696	Glu-rich.|Interaction with FHOD1.				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)					GTTAAACGAGCTTTGGTTACT	0.294													11	51	---	---	---	---	PASS	T	18571194	T	T	18571194	3	4	4	1	0	0	0	0	1	0	0	0	13517	797	28	3	2042	3	ROCK1	18	18571194	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4686494	18571194	59506054	3250	3841										
GATA6	2627	broad.mit.edu	37	chr18	19780731	19780731	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgtcagtctcgcctcgccggCcgaagtcacgtcctccgtgc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:19780731C>T	uc002ktt.1	+	7	1998	c.1733C>T	c.(1732-1734)GCC>GTC	p.A578V	GATA6_uc002ktu.1_Missense_Mutation_p.A578V	NM_005257	NP_005248	Q92908	GATA6_HUMAN	GATA binding protein 6	578					blood coagulation|cardiac vascular smooth muscle cell differentiation|cellular response to hypoxia|intestinal epithelial cell differentiation|male gonad development|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor-beta1 production|negative regulation of transforming growth factor-beta2 production|outflow tract septum morphogenesis|positive regulation of angiogenesis|positive regulation of cell cycle arrest|positive regulation of transcription from RNA polymerase II promoter|response to drug|response to growth factor stimulus		protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(3)	3	all_cancers(21;0.00271)|all_epithelial(16;7.31e-05)|Ovarian(2;0.116)|Lung NSC(20;0.123)|all_lung(20;0.246)		STAD - Stomach adenocarcinoma(5;0.106)			GCCTCGCCGGCCGAAGTCACG	0.672													8	12	---	---	---	---	PASS	T	19780731	T	T	19780731	3	4	4	1	0	0	0	0	1	0	0	0	6258	739	26	3	1755	3	GATA6	18	19780731	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1209537	19780731	58296517	3251	3842	154	2								
GATA6	2627	broad.mit.edu	37	chr18	19780732	19780732	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcagtctcgcctcgccggcCgaagtcacgtcctccgtgcg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:19780732C>T	uc002ktt.1	+	7	1999	c.1734C>T	c.(1732-1734)GCC>GCT	p.A578A	GATA6_uc002ktu.1_Silent_p.A578A	NM_005257	NP_005248	Q92908	GATA6_HUMAN	GATA binding protein 6	578					blood coagulation|cardiac vascular smooth muscle cell differentiation|cellular response to hypoxia|intestinal epithelial cell differentiation|male gonad development|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor-beta1 production|negative regulation of transforming growth factor-beta2 production|outflow tract septum morphogenesis|positive regulation of angiogenesis|positive regulation of cell cycle arrest|positive regulation of transcription from RNA polymerase II promoter|response to drug|response to growth factor stimulus		protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(3)	3	all_cancers(21;0.00271)|all_epithelial(16;7.31e-05)|Ovarian(2;0.116)|Lung NSC(20;0.123)|all_lung(20;0.246)		STAD - Stomach adenocarcinoma(5;0.106)			CCTCGCCGGCCGAAGTCACGT	0.667													7	12	---	---	---	---	PASS	T	19780732	T	T	19780732	2	4	4	1	0	0	0	0	0	0	0	1	6258	639	23	1		1	GATA6	18	19780732	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	19780732	58296516	3252	3843	154	2								
IMPACT	55364	broad.mit.edu	37	chr18	22023101	22023101	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggcacacttggctccagtGgtttgtcccaaacaggtaaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:22023101G>A	uc002kvh.3	+	7	691	c.579G>A	c.(577-579)GTG>GTA	p.V193V	IMPACT_uc002kvg.3_Silent_p.V175V	NM_018439	NP_060909	Q9P2X3	IMPCT_HUMAN	Impact homolog	193											0	all_cancers(21;0.00018)|all_epithelial(16;1.5e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)					TGGCTCCAGTGGTTTGTCCCA	0.363													20	43	---	---	---	---	PASS	A	22023101	A	A	22023101	2	1	4	1	0	0	0	0	0	0	0	1	7724	1335	47	3		3	IMPACT	18	22023101	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2242369	22023101	56054147	3253	3844	155	2								
IMPACT	55364	broad.mit.edu	37	chr18	22023102	22023102	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcacacttggctccagtgGtttgtcccaaacaggtaaag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:22023102G>A	uc002kvh.3	+	7	692	c.580G>A	c.(580-582)GTT>ATT	p.V194I	IMPACT_uc002kvg.3_Missense_Mutation_p.V176I	NM_018439	NP_060909	Q9P2X3	IMPCT_HUMAN	Impact homolog	194											0	all_cancers(21;0.00018)|all_epithelial(16;1.5e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)					GGCTCCAGTGGTTTGTCCCAA	0.363													20	43	---	---	---	---	PASS	A	22023102	A	A	22023102	3	1	4	1	0	0	0	0	1	0	0	0	7724	1261	44	3	606	3	IMPACT	18	22023102	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	22023102	56054146	3254	3845	155	2								
ZNF521	25925	broad.mit.edu	37	chr18	22806088	22806088	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttaaggccctggatttcttCccattgtggatataattcag	8	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:22806088C>T	uc002kvk.2	-	4	2041	c.1794G>A	c.(1792-1794)GGG>GGA	p.G598G	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.G598G|ZNF521_uc002kvl.2_Silent_p.G378G	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	598					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)					TGGATTTCTTCCCATTGTGGA	0.453			T	PAX5	ALL								8	25	---	---	---	---	PASS	T	22806088	T	T	22806088	2	4	4	1	0	0	0	0	0	0	0	1	17962	842	30	2		2	ZNF521	18	22806088	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	782986	22806088	55271160	3255	3846										
ZNF521	25925	broad.mit.edu	37	chr18	22806243	22806243	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgggagtcccaagcactgGagacccaaatcgggagccac	12	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:22806243G>A	uc002kvk.2	-	4	1886	c.1639C>T	c.(1639-1641)CCA>TCA	p.P547S	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.P547S|ZNF521_uc002kvl.2_Missense_Mutation_p.P327S	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	547					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)					CCAAGCACTGGAGACCCAAAT	0.443			T	PAX5	ALL								17	50	---	---	---	---	PASS	A	22806243	A	A	22806243	3	1	4	1	0	0	0	0	1	0	0	0	17962	1174	41	2	2316	2	ZNF521	18	22806243	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	155	22806243	55271005	3256	3847										
ZNF521	25925	broad.mit.edu	37	chr18	22807069	22807069	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggtcctcatttggggagcaTtcggggtggcactctgcaat	14	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:22807069T>A	uc002kvk.2	-	4	1060	c.813A>T	c.(811-813)GAA>GAT	p.E271D	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.E271D|ZNF521_uc002kvl.2_Missense_Mutation_p.E51D	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	271					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)					TTGGGGAGCATTCGGGGTGGC	0.547			T	PAX5	ALL								12	48	---	---	---	---	PASS	A	22807069	A	A	22807069	3	1	4	1	0	0	0	0	1	0	0	0	17962	1490	52	5	3142	5	ZNF521	18	22807069	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	826	22807069	55270179	3257	3848										
AQP4	361	broad.mit.edu	37	chr18	24436323	24436323	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctccacctccatgtagcttCcttttgtttgctgggcagct	8	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:24436323C>T	uc002kwa.2	-	5	887	c.824G>A	c.(823-825)GGA>GAA	p.G275E	AQP4_uc002kvz.2_Missense_Mutation_p.G253E	NM_001650	NP_001641	P55087	AQP4_HUMAN	aquaporin 4 isoform a	275	Cytoplasmic (Potential).				cellular response to interferon-gamma|excretion|nervous system development	cytoplasm|external side of plasma membrane|integral to plasma membrane	water channel activity				0	all_cancers(21;0.0172)|Lung NSC(5;0.00299)|all_lung(6;0.00747)|Ovarian(20;0.124)					CATGTAGCTTCCTTTTGTTTG	0.488													38	81	---	---	---	---	PASS	T	24436323	T	T	24436323	3	4	4	1	0	0	0	0	1	0	0	0	828	855	30	2	151	2	AQP4	18	24436323	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1629254	24436323	53640925	3258	3849										
CDH2	1000	broad.mit.edu	37	chr18	25568577	25568577	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcaattgtagttatttgtCcattcacaggatctattttt	6	7	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:25568577C>T	uc002kwg.2	-	11	2111	c.1652G>A	c.(1651-1653)GGA>GAA	p.G551E	CDH2_uc010xbn.1_Missense_Mutation_p.G520E	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	551	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						AGTTATTTGTCCATTCACAGG	0.308													9	16	---	---	---	---	PASS	T	25568577	T	T	25568577	3	4	4	1	0	0	0	0	1	0	0	0	3105	855	30	2	1092	2	CDH2	18	25568577	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1132254	25568577	52508671	3259	3850										
TTR	7276	broad.mit.edu	37	chr18	29178598	29178598	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgccctgctgagcccctactCctattccaccacggctgtcg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:29178598C>T	uc002kwx.3	+	4	540	c.404C>T	c.(403-405)TCC>TTC	p.S135F		NM_000371	NP_000362	P02766	TTHY_HUMAN	transthyretin precursor	135	Thyroid hormone binding.				transport	cytoplasm	hormone activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(10;0.00523)		Diclofenac(DB00586)|Diethylstilbestrol(DB00255)|Diflunisal(DB00861)|Dimethyl sulfoxide(DB01093)|Levothyroxine(DB00451)|Liothyronine(DB00279)	AGCCCCTACTCCTATTCCACC	0.557													15	35	---	---	---	---	PASS	T	29178598	T	T	29178598	3	4	4	1	0	0	0	0	1	0	0	0	16735	855	30	2	418	2	TTR	18	29178598	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3610021	29178598	48898650	3260	3851	156	2								
TTR	7276	broad.mit.edu	37	chr18	29178599	29178599	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccctgctgagcccctactcCtattccaccacggctgtcgt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:29178599C>T	uc002kwx.3	+	4	541	c.405C>T	c.(403-405)TCC>TCT	p.S135S		NM_000371	NP_000362	P02766	TTHY_HUMAN	transthyretin precursor	135	Thyroid hormone binding.				transport	cytoplasm	hormone activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(10;0.00523)		Diclofenac(DB00586)|Diethylstilbestrol(DB00255)|Diflunisal(DB00861)|Dimethyl sulfoxide(DB01093)|Levothyroxine(DB00451)|Liothyronine(DB00279)	GCCCCTACTCCTATTCCACCA	0.552													15	33	---	---	---	---	PASS	T	29178599	T	T	29178599	2	4	4	1	0	0	0	0	0	0	0	1	16735	668	24	3		3	TTR	18	29178599	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	29178599	48898649	3261	3852	156	2								
B4GALT6	9331	broad.mit.edu	37	chr18	29206995	29206995	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcatcttctcctccccatCcccagaaggcattaggaaaa	5	15	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:29206995C>T	uc002kwz.3	-	7	1163	c.866G>A	c.(865-867)GGA>GAA	p.G289E	B4GALT6_uc010dma.2_Missense_Mutation_p.G250E|B4GALT6_uc010dmb.2_Missense_Mutation_p.G250E|B4GALT6_uc002kwy.3_5'Flank	NM_004775	NP_004766	Q9UBX8	B4GT6_HUMAN	beta-1,4-galactosyltransferase 6	289	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding				0			OV - Ovarian serous cystadenocarcinoma(10;0.00791)			TCCTCCCCATCCCCAGAAGGC	0.338													12	36	---	---	---	---	PASS	T	29206995	T	T	29206995	3	4	4	1	0	0	0	0	1	0	0	0	1275	855	30	2	294	2	B4GALT6	18	29206995	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	28396	29206995	48870253	3262	3853										
FAM59A	64762	broad.mit.edu	37	chr18	29850233	29850233	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggggctgggagagcgagtCtgttgccgcgctggcttgac	19	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:29850233C>T	uc002kxl.2	-	5	1736	c.1680G>A	c.(1678-1680)CAG>CAA	p.Q560Q	FAM59A_uc002kxk.1_Silent_p.Q560Q	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	560	Pro-rich.									ovary(1)|skin(1)	2						GAGAGCGAGTCTGTTGCCGCG	0.592													5	15	---	---	---	---	PASS	T	29850233	T	T	29850233	2	4	4	1	0	0	0	0	0	0	0	1	5592	912	32	2		2	FAM59A	18	29850233	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	643238	29850233	48227015	3263	3854										
KLHL14	57565	broad.mit.edu	37	chr18	30275436	30275436	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caatagttaccattcggattCcactggtcctctccacccaa	5	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:30275436C>T	uc002kxm.1	-	4	1537	c.1149G>A	c.(1147-1149)TGG>TGA	p.W383*	KLHL14_uc010dmd.1_5'UTR	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	383	Kelch 2.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						CATTCGGATTCCACTGGTCCT	0.413													9	15	---	---	---	---	PASS	T	30275436	T	T	30275436	4	4	4	1	0	0	0	0	0	1	0	0	8370	856	30	2	761	2	KLHL14	18	30275436	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	425203	30275436	47801812	3264	3855										
C18orf34	374864	broad.mit.edu	37	chr18	30795606	30795606	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttatttttgcataaaaaatCattgtcttacttttagttgc	4	5	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:30795606C>T	uc002kxn.2	-	18	2128	c.1986G>A	c.(1984-1986)ATG>ATA	p.M662I	C18orf34_uc010dme.1_Missense_Mutation_p.M176I|C18orf34_uc010xbr.1_Missense_Mutation_p.M662I|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.M624I|C18orf34_uc002kxp.2_Missense_Mutation_p.M662I	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	662	Potential.									ovary(1)	1						CATAAAAAATCATTGTCTTAC	0.254													8	25	---	---	---	---	PASS	T	30795606	T	T	30795606	3	4	4	1	0	0	0	0	1	0	0	0	1902	826	29	2	637	2	C18orf34	18	30795606	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	520170	30795606	47281642	3265	3856										
C18orf34	374864	broad.mit.edu	37	chr18	30873188	30873188	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttattgcttcagtcacttCctcttccttctcctcaatat	2	15	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:30873188C>T	uc002kxn.2	-	11	1253	c.1111G>A	c.(1111-1113)GAA>AAA	p.E371K	C18orf34_uc010xbr.1_Missense_Mutation_p.E371K|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.E371K|C18orf34_uc002kxp.2_Missense_Mutation_p.E371K	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	371	Potential.									ovary(1)	1						TCAGTCACTTCCTCTTCCTTC	0.289													10	24	---	---	---	---	PASS	T	30873188	T	T	30873188	3	4	4	1	0	0	0	0	1	0	0	0	1902	864	30	2	1540	2	C18orf34	18	30873188	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	77582	30873188	47204060	3266	3857										
SYT4	6860	broad.mit.edu	37	chr18	40850610	40850610	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaggttcactttgacatagGgatctgcagtggaacataac	10	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:40850610G>A	uc002law.2	-	4	1343	c.974C>T	c.(973-975)CCC>CTC	p.P325L	SYT4_uc010dng.2_RNA|SYT4_uc010xcm.1_Missense_Mutation_p.P307L|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	325	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						TTTGACATAGGGATCTGCAGT	0.443													13	43	---	---	---	---	PASS	A	40850610	A	A	40850610	3	1	4	1	0	0	0	0	1	0	0	0	15473	1232	43	3	307	3	SYT4	18	40850610	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	9977422	40850610	37226638	3267	3858										
SYT4	6860	broad.mit.edu	37	chr18	40854007	40854007	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggaaactgactctttttcCccttctaaaaagagcttcgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:40854007C>T	uc002law.2	-	2	756	c.387G>A	c.(385-387)GGG>GGA	p.G129G	SYT4_uc010dng.2_Intron|SYT4_uc010xcm.1_Silent_p.G111G|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	129	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						ACTCTTTTTCCCCTTCTAAAA	0.433													15	45	---	---	---	---	PASS	T	40854007	T	T	40854007	2	4	4	1	0	0	0	0	0	0	0	1	15473	610	22	3		3	SYT4	18	40854007	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	3397	40854007	37223241	3268	3859	157	2								
SYT4	6860	broad.mit.edu	37	chr18	40854008	40854008	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggaaactgactctttttccCcttctaaaaagagcttcggg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:40854008C>T	uc002law.2	-	2	755	c.386G>A	c.(385-387)GGG>GAG	p.G129E	SYT4_uc010dng.2_Intron|SYT4_uc010xcm.1_Missense_Mutation_p.G111E|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	129	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						CTCTTTTTCCCCTTCTAAAAA	0.438													16	45	---	---	---	---	PASS	T	40854008	T	T	40854008	3	4	4	1	0	0	0	0	1	0	0	0	15473	623	22	3	903	3	SYT4	18	40854008	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	40854008	37223240	3269	3860	157	2								
RNF165	494470	broad.mit.edu	37	chr18	44027630	44027630	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctcgaatgcaccactttcCcagaaactcctcctccacac	3	19	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:44027630C>T	uc002lcb.1	+	4	641	c.590C>T	c.(589-591)CCC>CTC	p.P197L	RNF165_uc002lby.1_Missense_Mutation_p.P130L|RNF165_uc010dnn.1_5'UTR	NM_152470	NP_689683	Q6ZSG1	RN165_HUMAN	ring finger protein 165	197							zinc ion binding				0				READ - Rectum adenocarcinoma(1;0.0873)		CACCACTTTCCCAGAAACTCC	0.572													37	80	---	---	---	---	PASS	T	44027630	T	T	44027630	3	4	4	1	0	0	0	0	1	0	0	0	13456	623	22	3	604	3	RNF165	18	44027630	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3173622	44027630	34049618	3270	3861										
MYO5B	4645	broad.mit.edu	37	chr18	47404178	47404178	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtctccgatctcagatgtGgagatggaggggtaattgga	16	5	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:47404178G>A	uc002leb.2	-	25	3639	c.3351C>T	c.(3349-3351)TCC>TCT	p.S1117S	MYO5B_uc002lea.2_Silent_p.S258S	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	1117	Potential.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		TCTCAGATGTGGAGATGGAGG	0.502													17	34	---	---	---	---	PASS	A	47404178	A	A	47404178	2	1	4	1	0	0	0	0	0	0	0	1	10079	1335	47	3		3	MYO5B	18	47404178	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	3376548	47404178	30673070	3271	3862										
MAPK4	5596	broad.mit.edu	37	chr18	48241502	48241502	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taccgttccccacgactgctCctttcccccaataactacac	3	19	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:48241502C>T	uc002lev.2	+	3	1600	c.600C>T	c.(598-600)CTC>CTT	p.L200L	MAPK4_uc010xdm.1_5'UTR|MAPK4_uc010doz.2_Silent_p.L200L	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	200	Protein kinase.				cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		CACGACTGCTCCTTTCCCCCA	0.502													9	42	---	---	---	---	PASS	T	48241502	T	T	48241502	2	4	4	1	0	0	0	0	0	0	0	1	9280	842	30	2		2	MAPK4	18	48241502	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	837324	48241502	29835746	3272	3863										
DCC	1630	broad.mit.edu	37	chr18	50432545	50432545	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaccaacaagacctgactCcaatcccaggtgactcccga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:50432545C>T	uc002lfe.1	+	3	1131	c.544C>T	c.(544-546)CCA>TCA	p.P182S	DCC_uc010xdr.1_Missense_Mutation_p.P30S	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	182	Extracellular (Potential).|Ig-like C2-type 2.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AGACCTGACTCCAATCCCAGG	0.547													21	47	---	---	---	---	PASS	T	50432545	T	T	50432545	3	4	4	1	0	0	0	0	1	0	0	0	4282	855	30	2	554	2	DCC	18	50432545	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2191043	50432545	27644703	3273	3864	158	2								
DCC	1630	broad.mit.edu	37	chr18	50432550	50432550	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caacaagacctgactccaatCccaggtgactcccgagtggt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:50432550C>T	uc002lfe.1	+	3	1136	c.549C>T	c.(547-549)ATC>ATT	p.I183I	DCC_uc010xdr.1_Silent_p.I31I	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	183	Extracellular (Potential).|Ig-like C2-type 2.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TGACTCCAATCCCAGGTGACT	0.542													28	39	---	---	---	---	PASS	T	50432550	T	T	50432550	2	4	4	1	0	0	0	0	0	0	0	1	4282	845	30	2		2	DCC	18	50432550	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	5	50432550	27644698	3274	3865	158	2								
RAB27B	5874	broad.mit.edu	37	chr18	52546600	52546600	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaacgttgtatctttcagGtttataatgcacaaggaccg	9	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:52546600G>A	uc002lfr.2	+	3	265	c.154G>A	c.(154-156)GTT>ATT	p.V52I		NM_004163	NP_004154	O00194	RB27B_HUMAN	RAB27B, member RAS oncogene family	52					protein transport|small GTPase mediated signal transduction	Golgi apparatus|plasma membrane	GTP binding|GTPase activity				0				Colorectal(16;0.0273)|READ - Rectum adenocarcinoma(59;0.219)		TATCTTTCAGGTTTATAATGC	0.388													23	40	---	---	---	---	PASS	A	52546600	A	A	52546600	3	1	4	1	0	0	0	0	1	0	0	0	12915	1275	44	3	160	3	RAB27B	18	52546600	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2114050	52546600	25530648	3275	3866										
WDR7	23335	broad.mit.edu	37	chr18	54424311	54424311	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgccttggaatgctgaaaccCcactgcaccgtatcgtttgg	10	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:54424311C>T	uc002lgk.1	+	15	2698	c.2487C>T	c.(2485-2487)CCC>CCT	p.P829P	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Silent_p.P829P	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	829										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		TGCTGAAACCCCACTGCACCG	0.493													17	68	---	---	---	---	PASS	T	54424311	T	T	54424311	2	4	4	1	0	0	0	0	0	0	0	1	17317	610	22	3		3	WDR7	18	54424311	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1877711	54424311	23652937	3276	3867										
ST8SIA3	51046	broad.mit.edu	37	chr18	55024414	55024414	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgttttccgttgcaatttCgcccctacggaggctttcca	8	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:55024414C>T	uc002lgn.2	+	3	930	c.573C>T	c.(571-573)TTC>TTT	p.F191F		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	191	Lumenal (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		GTTGCAATTTCGCCCCTACGG	0.403													17	38	---	---	---	---	PASS	T	55024414	T	T	55024414	2	4	4	1	0	0	0	0	0	0	0	1	15232	883	31	2		2	ST8SIA3	18	55024414	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	600103	55024414	23052834	3277	3868										
ST8SIA3	51046	broad.mit.edu	37	chr18	55024568	55024568	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaagcttgacggggccattCtttggatccctgcatttttc	9	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:55024568C>T	uc002lgn.2	+	3	1084	c.727C>T	c.(727-729)CTT>TTT	p.L243F		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	243	Lumenal (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		CGGGGCCATTCTTTGGATCCC	0.413													11	29	---	---	---	---	PASS	T	55024568	T	T	55024568	3	4	4	1	0	0	0	0	1	0	0	0	15232	913	32	2	737	2	ST8SIA3	18	55024568	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	154	55024568	23052680	3278	3869										
ATP8B1	5205	broad.mit.edu	37	chr18	55398971	55398971	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgtttcatcatcactgtaGggaaccacttcgtcattagg	8	10	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:55398971G>T	uc002lgw.2	-	1	69	c.69C>A	c.(67-69)CCC>CCA	p.P23P	uc002lgv.1_RNA	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	23	Cytoplasmic (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				CATCACTGTAGGGAACCACTT	0.463									Byler_disease				5	126	---	---	---	---	PASS	T	55398971	T	T	55398971	2	4	4	1	0	0	0	0	0	0	0	1	1194	987	35	3		3	ATP8B1	18	55398971	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	374403	55398971	22678277	3279	3870										
NEDD4L	23327	broad.mit.edu	37	chr18	55992303	55992303	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcctcctcctcctctgcctCccgggtgggaagaaaaagtg	10	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:55992303C>T	uc002lgy.2	+	9	863	c.589C>T	c.(589-591)CCC>TCC	p.P197S	NEDD4L_uc002lgz.2_Missense_Mutation_p.P197S|NEDD4L_uc002lgx.2_Missense_Mutation_p.P197S|NEDD4L_uc010xee.1_Missense_Mutation_p.P76S|NEDD4L_uc002lhc.2_Missense_Mutation_p.P189S|NEDD4L_uc002lhd.2_Missense_Mutation_p.P76S|NEDD4L_uc002lhb.2_Missense_Mutation_p.P76S|NEDD4L_uc002lhe.2_Missense_Mutation_p.P189S|NEDD4L_uc002lhf.2_Missense_Mutation_p.P76S|NEDD4L_uc002lhg.2_Missense_Mutation_p.P76S|NEDD4L_uc002lhh.2_Missense_Mutation_p.P76S|NEDD4L_uc010dpm.1_Missense_Mutation_p.P48S	NM_001144967	NP_001138439	Q96PU5	NED4L_HUMAN	neural precursor cell expressed, developmentally	197	WW 1.				cellular sodium ion homeostasis|excretion|interspecies interaction between organisms|positive regulation of endocytosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of protein catabolic process|response to metal ion|sodium ion transport|water homeostasis	cytoplasm	protein binding|sodium channel regulator activity|ubiquitin-protein ligase activity			lung(4)	4						TCCTCTGCCTCCCGGGTGGGA	0.507													41	129	---	---	---	---	PASS	T	55992303	T	T	55992303	3	4	4	1	0	0	0	0	1	0	0	0	10311	855	30	2	651	2	NEDD4L	18	55992303	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	593332	55992303	22084945	3280	3871										
ALPK2	115701	broad.mit.edu	37	chr18	56203022	56203022	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcttggcttctgctgattCtattttcactcagaatggtt	7	9	5	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:56203022C>T	uc002lhj.3	-	5	4611	c.4397G>A	c.(4396-4398)AGA>AAA	p.R1466K	ALPK2_uc002lhk.1_Missense_Mutation_p.R797K	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1466							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						TCTGCTGATTCTATTTTCACT	0.498													18	44	---	---	---	---	PASS	T	56203022	T	T	56203022	3	4	4	1	0	0	0	0	1	0	0	0	545	913	32	2	2151	2	ALPK2	18	56203022	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	210719	56203022	21874226	3281	3872										
MC4R	4160	broad.mit.edu	37	chr18	58038584	58038584	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attgcgtgctctgtccccatTtaatatctgctagacaagtc	7	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:58038584T>C	uc002lie.1	-	1	1418	c.999A>G	c.(997-999)TAA>TAG	p.*333*		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	333					feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)				CTGTCCCCATTTAATATCTGC	0.428													31	59	---	---	---	---	PASS	C	58038584	C	C	58038584	2	2	4	1	0	0	0	0	0	0	0	1	9366	1848	64	5		5	MC4R	18	58038584	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	1835562	58038584	20038664	3282	3873										
KIAA1468	57614	broad.mit.edu	37	chr18	59947641	59947641	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagttgacaagcgggttgctCcggcccttgttaccttgtcc	11	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:59947641C>T	uc002lil.2	+	23	3231	c.3016C>T	c.(3016-3018)CCG>TCG	p.P1006S	KIAA1468_uc010xel.1_Intron|KIAA1468_uc002lim.2_Intron	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	1006	HEAT 3.						binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				GCGGGTTGCTCCGGCCCTTGT	0.443													7	51	---	---	---	---	PASS	T	59947641	T	T	59947641	3	4	4	1	0	0	0	0	1	0	0	0	8236	855	30	2	3106	2	KIAA1468	18	59947641	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1909057	59947641	18129607	3283	3874										
SERPINB12	89777	broad.mit.edu	37	chr18	61233932	61233932	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcctgtccttcccccggttCaccctggaagacagctatga	9	15	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:61233932C>T	uc010xen.1	+	7	906	c.906C>T	c.(904-906)TTC>TTT	p.F302F	SERPINB12_uc010xeo.1_Silent_p.F322F	NM_080474	NP_536722	Q96P63	SPB12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	302					negative regulation of protein catabolic process|regulation of proteolysis	cytoplasm	enzyme binding|serine-type endopeptidase inhibitor activity				0						TCCCCCGGTTCACCCTGGAAG	0.448													73	110	---	---	---	---	PASS	T	61233932	T	T	61233932	2	4	4	1	0	0	0	0	0	0	0	1	14099	825	29	2		2	SERPINB12	18	61233932	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1286291	61233932	16843316	3284	3875										
SERPINB11	89778	broad.mit.edu	37	chr18	61387384	61387384	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttaaaagtccttttcagctaAgtgaggtaagtattttattt	7	4	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:61387384A>G	uc002ljk.3	+	7	675	c.613A>G	c.(613-615)AGT>GGT	p.S205G	SERPINB11_uc010xes.1_Missense_Mutation_p.S30G|SERPINB11_uc010dqd.2_Missense_Mutation_p.S91G|SERPINB11_uc002ljj.3_Missense_Mutation_p.S91G|SERPINB11_uc010dqe.2_Intron|SERPINB11_uc010dqf.2_Intron	NM_080475	NP_536723	Q96P15	SPB11_HUMAN	serpin peptidase inhibitor, clade B, member 11	205					regulation of proteolysis	cytoplasm	serine-type endopeptidase inhibitor activity			breast(1)	1		Esophageal squamous(42;0.129)				TTTTCAGCTAAGTGAGGTAAG	0.318													10	16	---	---	---	---	PASS	G	61387384	G	G	61387384	3	3	4	1	0	0	0	0	1	0	0	0	14098	72	3	5	631	5	SERPINB11	18	61387384	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	153452	61387384	16689864	3285	3876										
SERPINB2	5055	broad.mit.edu	37	chr18	61570516	61570516	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taaccaactgcattttatttTtcggcagattttcctcaccc	4	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:61570516T>A	uc010xeu.1	+	9	1558	c.1225T>A	c.(1225-1227)TTC>ATC	p.F409I	SERPINB2_uc002ljo.2_Missense_Mutation_p.F409I|SERPINB2_uc010dqh.2_Missense_Mutation_p.F339I|SERPINB2_uc002ljp.1_Intron|SERPINB2_uc002ljq.1_Intron	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	409					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	CATTTTATTTTTCGGCAGATT	0.393													24	38	---	---	---	---	PASS	A	61570516	A	A	61570516	3	1	4	1	0	0	0	0	1	0	0	0	14101	1841	64	5	1251	5	SERPINB2	18	61570516	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	183132	61570516	16506732	3286	3877										
CDH7	1005	broad.mit.edu	37	chr18	63511245	63511245	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcggaagctacccaggttggGaatatcattggcactgtagc	12	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:63511245G>A	uc002ljz.2	+	7	1504	c.1179G>A	c.(1177-1179)GGG>GGA	p.G393G	CDH7_uc002lka.2_Silent_p.G393G|CDH7_uc002lkb.2_Silent_p.G393G	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	393	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				CCCAGGTTGGGAATATCATTG	0.448													25	65	---	---	---	---	PASS	A	63511245	A	A	63511245	2	1	4	1	0	0	0	0	0	0	0	1	3115	1161	41	2		2	CDH7	18	63511245	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1940729	63511245	14566003	3287	3878										
CDH7	1005	broad.mit.edu	37	chr18	63547737	63547737	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatattgtgagatacgatgaCgagggcgggggagaggagga	19	3	0	3	rs116347805	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:63547737C>T	uc002ljz.2	+	12	2290	c.1965C>T	c.(1963-1965)GAC>GAT	p.D655D	CDH7_uc002lkb.2_Silent_p.D655D	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	655	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GATACGATGACGAGGGCGGGG	0.493													14	23	---	---	---	---	PASS	T	63547737	T	T	63547737	2	4	4	1	0	0	0	0	0	0	0	1	3115	535	19	1		1	CDH7	18	63547737	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	36492	63547737	14529511	3288	3879										
CDH7	1005	broad.mit.edu	37	chr18	63548017	63548017	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaatcactcagctctttaGattccatcagctcaaactct	4	13	6	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:63548017G>A	uc002ljz.2	+	12	2570	c.2245G>A	c.(2245-2247)GAT>AAT	p.D749N	CDH7_uc002lkb.2_Missense_Mutation_p.D749N	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	749	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				CAGCTCTTTAGATTCCATCAG	0.473													31	42	---	---	---	---	PASS	A	63548017	A	A	63548017	3	1	4	1	0	0	0	0	1	0	0	0	3115	942	33	2	2287	2	CDH7	18	63548017	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	280	63548017	14529231	3289	3880										
CDH19	28513	broad.mit.edu	37	chr18	64211222	64211222	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatacctgataggagatttCctattgtctgggtctgtggc	11	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:64211222C>T	uc002lkc.1	-	7	1338	c.1200G>A	c.(1198-1200)AGG>AGA	p.R400R	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Silent_p.R400R|CDH19_uc002lkd.2_Silent_p.R400R	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	400	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				TAGGAGATTTCCTATTGTCTG	0.323													9	35	---	---	---	---	PASS	T	64211222	T	T	64211222	2	4	4	1	0	0	0	0	0	0	0	1	3104	854	30	2		2	CDH19	18	64211222	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	663205	64211222	13866026	3290	3881										
CD226	10666	broad.mit.edu	37	chr18	67562970	67562970	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caatctcatcacgaaggtttCgttttctcctgcgctggcct	8	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:67562970C>T	uc010dqo.2	-	3	1141	c.694G>A	c.(694-696)GAA>AAA	p.E232K	CD226_uc002lkm.3_Missense_Mutation_p.E232K	NM_006566	NP_006557	Q15762	CD226_HUMAN	CD226 molecule precursor	232	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|cell recognition|positive regulation of Fc receptor mediated stimulatory signaling pathway|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	cell surface|integral to plasma membrane|membrane raft	cell adhesion molecule binding|integrin binding|protein kinase binding|receptor activity				0		Esophageal squamous(42;0.129)				ACGAAGGTTTCGTTTTCTCCT	0.562													38	89	---	---	---	---	PASS	T	67562970	T	T	67562970	3	4	4	1	0	0	0	0	1	0	0	0	2986	893	31	2	332	2	CD226	18	67562970	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3351748	67562970	10514278	3291	3882										
NETO1	81832	broad.mit.edu	37	chr18	70417313	70417313	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaccgctggacggctttatCgtgtctggacagcctgtgac	13	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:70417313C>T	uc002lkw.2	-	9	1809	c.1525G>A	c.(1525-1527)GAT>AAT	p.D509N	NETO1_uc002lkx.1_Missense_Mutation_p.D508N|NETO1_uc002lky.1_Missense_Mutation_p.D509N	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	509	Cytoplasmic (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		ACGGCTTTATCGTGTCTGGAC	0.438													18	28	---	---	---	---	PASS	T	70417313	T	T	70417313	3	4	4	1	0	0	0	0	1	0	0	0	10339	884	31	2	84	2	NETO1	18	70417313	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2854343	70417313	7659935	3292	3883										
NETO1	81832	broad.mit.edu	37	chr18	70532042	70532042	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctggcactgtctccccttaCcttctatgatgtagatgcat	7	12	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:70532042C>T	uc002lkw.2	-	3	504	c.220_splice	c.e3+1	p.A74_splice	NETO1_uc002lkx.1_Splice_Site_p.A73_splice|NETO1_uc002lky.1_Splice_Site_p.A74_splice|NETO1_uc002lkz.2_Splice_Site_p.A73_splice	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3						memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		TCTCCCCTTACCTTCTATGAT	0.448													12	33	---	---	---	---	PASS	T	70532042	T	T	70532042	5	4	4	1	0	0	0	0	0	0	1	0	10339	521	18	3	1421	3	NETO1	18	70532042	Splice_Site	SNP	C	TCGA-18-3409-01A-01D-0983-08	114729	70532042	7545206	3293	3884										
ZNF516	9658	broad.mit.edu	37	chr18	74091512	74091512	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttttgtgaccactcccaggGgagaagagccacttttggac	11	11	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:74091512G>A	uc010dqx.1	-	3	2793	c.2558C>T	c.(2557-2559)CCC>CTC	p.P853L	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	853					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CACTCCCAGGGGAGAAGAGCC	0.627													19	34	---	---	---	---	PASS	A	74091512	A	A	74091512	3	1	4	1	0	0	0	0	1	0	0	0	17957	1232	43	3	950	3	ZNF516	18	74091512	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3559470	74091512	3985736	3294	3885										
SALL3	27164	broad.mit.edu	37	chr18	76754623	76754623	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagtgaccgcctgagcaacGactcctcgtcggccgtgggc	14	14	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:76754623G>A	uc002lmt.2	+	2	2632	c.2632G>A	c.(2632-2634)GAC>AAC	p.D878N	SALL3_uc010dra.2_Missense_Mutation_p.D485N	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	878					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CCTGAGCAACGACTCCTCGTC	0.687													14	21	---	---	---	---	PASS	A	76754623	A	A	76754623	3	1	4	1	0	0	0	0	1	0	0	0	13812	1058	37	2	2638	2	SALL3	18	76754623	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2663111	76754623	1322625	3295	3886										
ATP9B	374868	broad.mit.edu	37	chr18	76870492	76870492	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaaaaatacaatgtgtttaCctttatacctggggtaagac	7	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:76870492C>T	uc002lmx.2	+	3	445	c.431C>T	c.(430-432)ACC>ATC	p.T144I	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Missense_Mutation_p.T144I|ATP9B_uc002lmy.1_RNA|ATP9B_uc002lmz.1_5'Flank|ATP9B_uc002lmu.2_Missense_Mutation_p.T144I	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	144	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		AATGTGTTTACCTTTATACCT	0.408													18	21	---	---	---	---	PASS	T	76870492	T	T	76870492	3	4	4	1	0	0	0	0	1	0	0	0	1199	507	18	3	441	3	ATP9B	18	76870492	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	115869	76870492	1206756	3296	3887										
NFATC1	4772	broad.mit.edu	37	chr18	77211800	77211800	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggactccaaggtcattttCgtggagaaagccccaggtat	11	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:77211800C>T	uc010xfg.1	+	6	2340	c.1887C>T	c.(1885-1887)TTC>TTT	p.F629F	NFATC1_uc002lnc.1_Silent_p.F629F|NFATC1_uc010xff.1_Missense_Mutation_p.S601L|NFATC1_uc002lnd.2_Silent_p.F629F|NFATC1_uc002lne.2_Silent_p.F157F|NFATC1_uc010xfh.1_Silent_p.F629F|NFATC1_uc010xfi.1_Silent_p.F616F|NFATC1_uc010xfj.1_Silent_p.F157F|NFATC1_uc002lnf.2_Silent_p.F616F|NFATC1_uc002lng.2_Silent_p.F616F|NFATC1_uc010xfk.1_Silent_p.F616F	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	629					intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		AGGTCATTTTCGTGGAGAAAG	0.622													22	48	---	---	---	---	PASS	T	77211800	T	T	77211800	2	4	4	1	0	0	0	0	0	0	0	1	10361	883	31	2		2	NFATC1	18	77211800	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	341308	77211800	865448	3297	3888										
C18orf22	79863	broad.mit.edu	37	chr18	77805900	77805900	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaggaaagataaagggctCgggggcctggtgtggcaggg	21	5	0	1	rs148332133		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr18:77805900C>T	uc002lns.2	+	7	915	c.777C>T	c.(775-777)CTC>CTT	p.L259L	C18orf22_uc010drh.2_Missense_Mutation_p.S231L|C18orf22_uc010dri.1_Intron|C18orf22_uc002lnt.2_Silent_p.L92L|uc002lnu.2_5'Flank	NM_024805	NP_079081	Q8N0V3	RBFA_HUMAN	hypothetical protein LOC79863 precursor	259					rRNA processing	mitochondrion					0		all_cancers(4;3.21e-14)|all_epithelial(4;7.11e-09)|all_lung(4;0.00366)|Lung NSC(4;0.00683)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0545)|all_hematologic(56;0.15)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;6.46e-08)|BRCA - Breast invasive adenocarcinoma(31;0.00376)		ATAAAGGGCTCGGGGGCCTGG	0.582													21	42	---	---	---	---	PASS	T	77805900	T	T	77805900	2	4	4	1	0	0	0	0	0	0	0	1	1898	893	31	2		2	C18orf22	18	77805900	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	594100	77805900	271348	3298	3889										
HCN2	610	broad.mit.edu	37	chr19	608089	608089	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggctgaccatgctcagcatGattgtgggtgccacctgcta	12	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:608089G>A	uc002lpe.2	+	4	1397	c.1344G>A	c.(1342-1344)ATG>ATA	p.M448I		NM_001194	NP_001185	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic	448	Helical; Name=Segment S6; (Potential).				cell-cell signaling|muscle contraction	voltage-gated potassium channel complex	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGCTCAGCATGATTGTGGGTG	0.627													12	31	---	---	---	---	PASS	A	608089	A	A	608089	3	1	4	1	0	0	0	0	1	0	0	0	6997	1290	45	2	1358	2	HCN2	19	608089	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08		608089	58520894	3299	3890										
GRIN3B	116444	broad.mit.edu	37	chr19	1004824	1004824	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagacgggcagtgcccagcgGggcagctgtgcctggaccct	16	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:1004824G>A	uc002lqo.1	+	3	1324	c.1324G>A	c.(1324-1326)GGG>AGG	p.G442R		NM_138690	NP_619635	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic,	442	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|protein insertion into membrane|regulation of calcium ion transport	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|ionotropic glutamate receptor activity|neurotransmitter receptor activity				0		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Glycine(DB00145)|L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	GTGCCCAGCGGGGCAGCTGTG	0.667													12	12	---	---	---	---	PASS	A	1004824	A	A	1004824	3	1	4	1	0	0	0	0	1	0	0	0	6784	1232	43	3	1334	3	GRIN3B	19	1004824	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	396735	1004824	58124159	3300	3891										
AP3D1	8943	broad.mit.edu	37	chr19	2102253	2102253	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcacttcccgtcgactgaGacagagttctcaccctgtgt	9	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:2102253G>A	uc002luz.2	-	30	3604	c.3381C>T	c.(3379-3381)GTC>GTT	p.V1127V	AP3D1_uc010dsv.2_Silent_p.V217V|AP3D1_uc002luy.2_Silent_p.V1086V|AP3D1_uc002lva.2_Silent_p.V1189V	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	1127					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGTCGACTGAGACAGAGTTCT	0.403													28	45	---	---	---	---	PASS	A	2102253	A	A	2102253	2	1	4	1	0	0	0	0	0	0	0	1	746	929	33	2		2	AP3D1	19	2102253	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1097429	2102253	57026730	3301	3892										
AP3D1	8943	broad.mit.edu	37	chr19	2121814	2121814	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcaggatgaggtccttgtgGgactgcacggacttggggtg	18	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:2121814G>A	uc002luz.2	-	12	1243	c.1020C>T	c.(1018-1020)TCC>TCT	p.S340S	AP3D1_uc002luy.2_Silent_p.S249S|AP3D1_uc002lva.2_Silent_p.S340S	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	340	HEAT 7.				eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGTCCTTGTGGGACTGCACGG	0.637													21	53	---	---	---	---	PASS	A	2121814	A	A	2121814	2	1	4	1	0	0	0	0	0	0	0	1	746	1219	43	3		3	AP3D1	19	2121814	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	19561	2121814	57007169	3302	3893										
SLC39A3	29985	broad.mit.edu	37	chr19	2733004	2733004	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttacggtgaccgccagcttGgccgcgtcccgcaggggcat	14	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:2733004G>A	uc002lwg.2	-	3	944	c.690C>T	c.(688-690)GCC>GCT	p.A230A	SLC39A3_uc010xgy.1_Silent_p.A230A	NM_144564	NP_653165	Q9BRY0	S39A3_HUMAN	solute carrier family 39 (zinc transporter),	230	Helical; (Potential).					integral to membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGCCAGCTTGGCCGCGTCCC	0.721													5	10	---	---	---	---	PASS	A	2733004	A	A	2733004	2	1	4	1	0	0	0	0	0	0	0	1	14619	1335	47	3		3	SLC39A3	19	2733004	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	611190	2733004	56395979	3303	3894										
THOP1	7064	broad.mit.edu	37	chr19	2799764	2799764	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgaacgaggacacgaccttCctgcccttcacgctccagga	9	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:2799764C>T	uc002lwj.2	+	5	719	c.564C>T	c.(562-564)TTC>TTT	p.F188F	THOP1_uc010xgz.1_Silent_p.F67F	NM_003249	NP_003240	P52888	THOP1_HUMAN	thimet oligopeptidase 1	188					proteolysis	cytoplasm	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACACGACCTTCCTGCCCTTCA	0.617													10	35	---	---	---	---	PASS	T	2799764	T	T	2799764	2	4	4	1	0	0	0	0	0	0	0	1	15868	854	30	2		2	THOP1	19	2799764	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	66760	2799764	56329219	3304	3895										
ZNF77	58492	broad.mit.edu	37	chr19	2934407	2934407	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccacatactttacatgcatGggttttctgcccatgatgac	7	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:2934407G>A	uc002lws.3	-	4	849	c.718C>T	c.(718-720)CAT>TAT	p.H240Y		NM_021217	NP_067040	Q15935	ZNF77_HUMAN	zinc finger protein 77	240	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|GBM - Glioblastoma multiforme(1328;2.11e-07)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.174)|STAD - Stomach adenocarcinoma(1328;0.18)		TTACATGCATGGGTTTTCTGC	0.418													12	16	---	---	---	---	PASS	A	2934407	A	A	2934407	3	1	4	1	0	0	0	0	1	0	0	0	18139	1348	47	3	923	3	ZNF77	19	2934407	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	134643	2934407	56194576	3305	3896										
TBXA2R	6915	broad.mit.edu	37	chr19	3600403	3600403	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtaccggtcaccagcagcCccaggaagtcggtgaggacg	15	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:3600403C>T	uc002lyg.1	-	2	444	c.230G>A	c.(229-231)GGG>GAG	p.G77E	TBXA2R_uc002lye.1_Missense_Mutation_p.G77E	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	77	Helical; Name=2; (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	CACCAGCAGCCCCAGGAAGTC	0.701													6	14	---	---	---	---	PASS	T	3600403	T	T	3600403	3	4	4	1	0	0	0	0	1	0	0	0	15660	623	22	3	1054	3	TBXA2R	19	3600403	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	665996	3600403	55528580	3306	3897										
ATCAY	85300	broad.mit.edu	37	chr19	3905454	3905454	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctcccaacacgctaaatttCaacggagcgcatcgtaagag	8	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:3905454C>T	uc002lyy.3	+	4	589	c.159C>T	c.(157-159)TTC>TTT	p.F53F	ATCAY_uc010xhz.1_Silent_p.F59F	NM_033064	NP_149053	Q86WG3	ATCAY_HUMAN	caytaxin	53					transport		protein binding			breast(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00485)|STAD - Stomach adenocarcinoma(1328;0.183)		CGCTAAATTTCAACGGAGCGC	0.488													5	19	---	---	---	---	PASS	T	3905454	T	T	3905454	2	4	4	1	0	0	0	0	0	0	0	1	1077	825	29	2		2	ATCAY	19	3905454	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	305051	3905454	55223529	3307	3898										
ANKRD24	170961	broad.mit.edu	37	chr19	4219746	4219746	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggacaaggccaaggagaaGgacaagaaggtgggtgcccc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:4219746G>A	uc010dtt.1	+	19	3438	c.3162G>A	c.(3160-3162)AAG>AAA	p.K1054K		NM_133475	NP_597732	Q8TF21	ANR24_HUMAN	ankyrin repeat domain 24	1054	Potential.										0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)		CCAAGGAGAAGGACAAGAAGG	0.562													6	16	---	---	---	---	PASS	A	4219746	A	A	4219746	2	1	4	1	0	0	0	0	0	0	0	1	653	991	35	3		3	ANKRD24	19	4219746	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	314292	4219746	54909237	3308	3899	159	2								
ANKRD24	170961	broad.mit.edu	37	chr19	4219747	4219747	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggacaaggccaaggagaagGacaagaaggtgggtgccccc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:4219747G>A	uc010dtt.1	+	19	3439	c.3163G>A	c.(3163-3165)GAC>AAC	p.D1055N		NM_133475	NP_597732	Q8TF21	ANR24_HUMAN	ankyrin repeat domain 24	1055	Potential.										0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)		CAAGGAGAAGGACAAGAAGGT	0.557													6	17	---	---	---	---	PASS	A	4219747	A	A	4219747	3	1	4	1	0	0	0	0	1	0	0	0	653	1174	41	2	3233	2	ANKRD24	19	4219747	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	4219747	54909236	3309	3900	159	2								
KDM4B	23030	broad.mit.edu	37	chr19	5144825	5144825	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtccagctgggacccccttCcgagggggagctggtggagc	17	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:5144825C>T	uc002mbq.3	+	21	3159	c.2933C>T	c.(2932-2934)TCC>TTC	p.S978F	KDM4B_uc010xim.1_Missense_Mutation_p.S1012F|KDM4B_uc002mbr.3_Missense_Mutation_p.S736F	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	978	Tudor 2.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						GGACCCCCTTCCGAGGGGGAG	0.622													8	24	---	---	---	---	PASS	T	5144825	T	T	5144825	3	4	4	1	0	0	0	0	1	0	0	0	8129	855	30	2	3007	2	KDM4B	19	5144825	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	925078	5144825	53984158	3310	3901										
TMEM146	257062	broad.mit.edu	37	chr19	5772893	5772893	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcctattccctgacggccCagtcggccatgtgtacctcc	8	17	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:5772893C>T	uc002mda.2	+	20	1919	c.1858C>T	c.(1858-1860)CAG>TAG	p.Q620*		NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	620	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCTGACGGCCCAGTCGGCCAT	0.552													9	23	---	---	---	---	PASS	T	5772893	T	T	5772893	4	4	4	1	0	0	0	0	0	1	0	0	16057	595	21	3	1936	3	TMEM146	19	5772893	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	628068	5772893	53356090	3311	3902										
RANBP3	8498	broad.mit.edu	37	chr19	5923310	5923310	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcggctgccgactcagccagGgactctgaaaagttattggc	13	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:5923310G>A	uc002mdw.2	-	13	1331	c.1104C>T	c.(1102-1104)TCC>TCT	p.S368S	RANBP3_uc002mdv.2_Silent_p.S87S|RANBP3_uc002mdx.2_Silent_p.S363S|RANBP3_uc002mdy.2_Silent_p.S300S|RANBP3_uc002mdz.2_Silent_p.S295S|RANBP3_uc010duq.2_Silent_p.S273S|RANBP3_uc002mea.2_Silent_p.S235S|RANBP3_uc010xix.1_Silent_p.S240S	NM_007322	NP_015561	Q9H6Z4	RANB3_HUMAN	RAN binding protein 3 isoform RANBP3-d	368					intracellular transport|protein transport	cytoplasm|nucleus	Ran GTPase binding			breast(1)	1						ACTCAGCCAGGGACTCTGAAA	0.537													5	9	---	---	---	---	PASS	A	5923310	A	A	5923310	2	1	4	1	0	0	0	0	0	0	0	1	13029	1219	43	3		3	RANBP3	19	5923310	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	150417	5923310	53205673	3312	3903										
SLC25A23	79085	broad.mit.edu	37	chr19	6454034	6454034	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggctgtggcaccagccagGgagccagccacgaagcgctc	15	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:6454034G>A	uc002mex.1	-	7	1003	c.861C>T	c.(859-861)TCC>TCT	p.S287S	SLC25A23_uc002mev.2_RNA|SLC25A23_uc010xjd.1_Silent_p.S104S	NM_024103	NP_077008	Q9BV35	SCMC3_HUMAN	solute carrier family 25, member 23	287	Helical; Name=3; (Potential).|Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)|pancreas(1)	2						CACCAGCCAGGGAGCCAGCCA	0.642													6	5	---	---	---	---	PASS	A	6454034	A	A	6454034	2	1	4	1	0	0	0	0	0	0	0	1	14486	1219	43	3		3	SLC25A23	19	6454034	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	530724	6454034	52674949	3313	3904										
TUBB4	10382	broad.mit.edu	37	chr19	6495841	6495841	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacaccaggtggttgaggtcCccgtaggtgggggtggtcag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:6495841C>T	uc002mfg.1	-	4	776	c.669G>A	c.(667-669)GGG>GGA	p.G223G	TUBB4_uc002mff.1_Silent_p.G151G|MIR220B_hsa-mir-220b|MI0005529_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	223					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		GGTTGAGGTCCCCGTAGGTGG	0.627													19	51	---	---	---	---	PASS	T	6495841	T	T	6495841	2	4	4	1	0	0	0	0	0	0	0	1	16755	610	22	3		3	TUBB4	19	6495841	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	41807	6495841	52633142	3314	3905	160	2								
TUBB4	10382	broad.mit.edu	37	chr19	6495842	6495842	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaccaggtggttgaggtccCcgtaggtgggggtggtcagc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:6495842C>T	uc002mfg.1	-	4	775	c.668G>A	c.(667-669)GGG>GAG	p.G223E	TUBB4_uc002mff.1_Missense_Mutation_p.G151E|MIR220B_hsa-mir-220b|MI0005529_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	223					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		GTTGAGGTCCCCGTAGGTGGG	0.632													20	52	---	---	---	---	PASS	T	6495842	T	T	6495842	3	4	4	1	0	0	0	0	1	0	0	0	16755	623	22	3	670	3	TUBB4	19	6495842	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	6495842	52633141	3315	3906	160	2								
C3	718	broad.mit.edu	37	chr19	6697786	6697786	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcattactgtgacctcgaaGgggtctgccacacagatccc	10	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:6697786G>A	uc002mfm.2	-	20	2522	c.2460C>T	c.(2458-2460)CCC>CCT	p.P820P		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	820					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TGACCTCGAAGGGGTCTGCCA	0.562													7	10	---	---	---	---	PASS	A	6697786	A	A	6697786	2	1	4	1	0	0	0	0	0	0	0	1	2204	987	35	3		3	C3	19	6697786	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	201944	6697786	52431197	3316	3907										
SH2D3A	10045	broad.mit.edu	37	chr19	6760858	6760858	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggctgtgggtcggcctggCcggggacgcagggccacacg	20	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:6760858C>T	uc002mft.2	-	3	404	c.210G>A	c.(208-210)CGG>CGA	p.R70R	SH2D3A_uc010xjg.1_Intron	NM_005490	NP_005481	Q9BRG2	SH23A_HUMAN	SH2 domain containing 3A	70	SH2.				JNK cascade|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			breast(2)	2						GTCGGCCTGGCCGGGGACGCA	0.647													11	26	---	---	---	---	PASS	T	6760858	T	T	6760858	2	4	4	1	0	0	0	0	0	0	0	1	14233	726	26	3		3	SH2D3A	19	6760858	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	63072	6760858	52368125	3317	3908										
INSR	3643	broad.mit.edu	37	chr19	7267435	7267435	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcggggcagttggtcttgccCttcgcggtacccggacagat	15	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:7267435C>T	uc002mgd.1	-	2	682	c.573G>A	c.(571-573)AAG>AAA	p.K191K	INSR_uc002mge.1_Silent_p.K191K|INSR_uc002mgf.2_Silent_p.K191K	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	191	Cys-rich.				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TGGTCTTGCCCTTCGCGGTAC	0.542													16	21	---	---	---	---	PASS	T	7267435	T	T	7267435	2	4	4	1	0	0	0	0	0	0	0	1	7773	680	24	3		3	INSR	19	7267435	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	506577	7267435	51861548	3318	3909										
INSR	3643	broad.mit.edu	37	chr19	7267448	7267448	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttgcccttcgcggtacccGgacagatgtctccacactcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:7267448G>A	uc002mgd.1	-	2	669	c.560C>T	c.(559-561)CCG>CTG	p.P187L	INSR_uc002mge.1_Missense_Mutation_p.P187L|INSR_uc002mgf.2_Missense_Mutation_p.P187L	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	187	Cys-rich.				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CGCGGTACCCGGACAGATGTC	0.537													5	34	---	---	---	---	PASS	A	7267448	A	A	7267448	3	1	4	1	0	0	0	0	1	0	0	0	7773	1116	39	1	3672	1	INSR	19	7267448	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	13	7267448	51861535	3319	3910	161	2								
INSR	3643	broad.mit.edu	37	chr19	7267449	7267449	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttgcccttcgcggtacccgGacagatgtctccacactcct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:7267449G>A	uc002mgd.1	-	2	668	c.559C>T	c.(559-561)CCG>TCG	p.P187S	INSR_uc002mge.1_Missense_Mutation_p.P187S|INSR_uc002mgf.2_Missense_Mutation_p.P187S	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	187	Cys-rich.				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GCGGTACCCGGACAGATGTCT	0.532													5	32	---	---	---	---	PASS	A	7267449	A	A	7267449	3	1	4	1	0	0	0	0	1	0	0	0	7773	1174	41	2	3673	2	INSR	19	7267449	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	7267449	51861534	3320	3911	161	2								
C19orf45	374877	broad.mit.edu	37	chr19	7573114	7573114	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caagtacagccacatggagcCccctctgggtggactgcgct	12	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:7573114C>T	uc002mgm.2	+	9	1457	c.1316C>T	c.(1315-1317)CCC>CTC	p.P439L		NM_198534	NP_940936	Q8NA69	CS045_HUMAN	hypothetical protein LOC374877	439											0						CACATGGAGCCCCCTCTGGGT	0.592													5	15	---	---	---	---	PASS	T	7573114	T	T	7573114	3	4	4	1	0	0	0	0	1	0	0	0	1928	623	22	3	1346	3	C19orf45	19	7573114	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	305665	7573114	51555869	3321	3912										
TRAPPC5	126003	broad.mit.edu	37	chr19	7747619	7747619	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcggcttccctgccaaggtCacggcgcactggcacaaggg	14	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:7747619C>T	uc002mhi.1	+	2	550	c.480C>T	c.(478-480)GTC>GTT	p.V160V	TRAPPC5_uc002mhj.1_Silent_p.V160V|TRAPPC5_uc002mhk.1_Silent_p.V160V	NM_001042462	NP_001035927	Q8IUR0	TPPC5_HUMAN	trafficking protein particle complex 5	160					vesicle-mediated transport	endoplasmic reticulum	guanylate cyclase activity|heme binding				0						CTGCCAAGGTCACGGCGCACT	0.652													4	4	---	---	---	---	PASS	T	7747619	T	T	7747619	2	4	4	1	0	0	0	0	0	0	0	1	16459	813	29	2		2	TRAPPC5	19	7747619	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	174505	7747619	51381364	3322	3913										
CLEC4M	10332	broad.mit.edu	37	chr19	7831059	7831059	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagtccaagcagcagcaaatCtatcaagaactgaccgattt	7	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:7831059C>T	uc002mih.2	+	5	799	c.681C>T	c.(679-681)ATC>ATT	p.I227I	CLEC4M_uc010xjv.1_Silent_p.I222I|CLEC4M_uc002mhy.2_Silent_p.I194I|CLEC4M_uc010xjw.1_Intron|CLEC4M_uc010dvt.2_Silent_p.I204I|CLEC4M_uc010dvs.2_Silent_p.I226I|CLEC4M_uc010xjx.1_Silent_p.I199I|CLEC4M_uc002mhz.2_Intron|CLEC4M_uc002mic.2_Silent_p.I222I|CLEC4M_uc002mia.2_Intron	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	250	Extracellular (Probable).|7.|7 X approximate tandem repeats.				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						AGCAGCAAATCTATCAAGAAC	0.483													17	38	---	---	---	---	PASS	T	7831059	T	T	7831059	2	4	4	1	0	0	0	0	0	0	0	1	3518	903	32	2		2	CLEC4M	19	7831059	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	83440	7831059	51297924	3323	3914										
LRRC8E	80131	broad.mit.edu	37	chr19	7963609	7963609	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggagaacttatcagaggccCcgtgccagcaattgctgcct	11	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:7963609C>T	uc002mir.2	+	3	303	c.202C>T	c.(202-204)CCG>TCG	p.P68S		NM_025061	NP_079337	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member	68						integral to membrane				lung(1)|pancreas(1)	2						ATCAGAGGCCCCGTGCCAGCA	0.493													30	96	---	---	---	---	PASS	T	7963609	T	T	7963609	3	4	4	1	0	0	0	0	1	0	0	0	9025	623	22	3	208	3	LRRC8E	19	7963609	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	132550	7963609	51165374	3324	3915										
FBN3	84467	broad.mit.edu	37	chr19	8151968	8151968	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagtgccccatacctgtgcaGccctccccagagccaggcag	10	18	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:8151968G>A	uc002mjf.2	-	53	6768	c.6747C>T	c.(6745-6747)GGC>GGT	p.G2249G	FBN3_uc002mje.2_Silent_p.G88G	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2249	EGF-like 36; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						TACCTGTGCAGCCCTCCCCAG	0.567													7	25	---	---	---	---	PASS	A	8151968	A	A	8151968	2	1	4	1	0	0	0	0	0	0	0	1	5704	958	34	3		3	FBN3	19	8151968	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	188359	8151968	50977015	3325	3916										
FBN3	84467	broad.mit.edu	37	chr19	8201112	8201112	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggcgtggcctggaagcccGggtagcaccggcagtggtag	19	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:8201112G>T	uc002mjf.2	-	11	1448	c.1427C>A	c.(1426-1428)CCG>CAG	p.P476Q		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	476	EGF-like 4; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CTGGAAGCCCGGGTAGCACCG	0.647													4	33	---	---	---	---	PASS	T	8201112	T	T	8201112	3	4	4	1	0	0	0	0	1	0	0	0	5704	1116	39	1	7214	1	FBN3	19	8201112	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	49144	8201112	50927871	3326	3917										
PRAM1	84106	broad.mit.edu	37	chr19	8564087	8564087	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcaggctgcggggacctcGgggtagcctcaccggcctcg	15	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:8564087G>A	uc002mkd.2	-	2	625	c.605C>T	c.(604-606)CCG>CTG	p.P202L	PRAM1_uc002mkc.2_Missense_Mutation_p.P202L	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	250	Pro-rich.						lipid binding|protein binding				0						CGGGGACCTCGGGGTAGCCTC	0.647													5	12	---	---	---	---	PASS	A	8564087	A	A	8564087	3	1	4	1	0	0	0	0	1	0	0	0	12423	1116	39	1	1440	1	PRAM1	19	8564087	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	362975	8564087	50564896	3327	3918										
MYO1F	4542	broad.mit.edu	37	chr19	8595157	8595157	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcccaggaactgacgcagctCgggccgctcctccagcccca	11	19	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:8595157C>T	uc002mkg.2	-	21	2365	c.2251G>A	c.(2251-2253)GAG>AAG	p.E751K		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	751						unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						TGACGCAGCTCGGGCCGCTCC	0.632													17	71	---	---	---	---	PASS	T	8595157	T	T	8595157	3	4	4	1	0	0	0	0	1	0	0	0	10073	893	31	2	1077	2	MYO1F	19	8595157	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	31070	8595157	50533826	3328	3919										
ACTL9	284382	broad.mit.edu	37	chr19	8808975	8808975	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggcttgttcaccacgttgGgactggggtttgggccgggc	19	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:8808975G>A	uc002mkl.2	-	1	198	c.77C>T	c.(76-78)CCC>CTC	p.P26L		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	26						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						CACCACGTTGGGACTGGGGTT	0.667													8	33	---	---	---	---	PASS	A	8808975	A	A	8808975	3	1	4	1	0	0	0	0	1	0	0	0	203	1232	43	3	1177	3	ACTL9	19	8808975	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	213818	8808975	50320008	3329	3920										
MUC16	94025	broad.mit.edu	37	chr19	8969305	8969305	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatattccttttgttcctctGgtaattggtggtgcctggct	10	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:8969305G>A	uc002mkp.2	-	79	43243	c.43039C>T	c.(43039-43041)CAG>TAG	p.Q14347*	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Nonsense_Mutation_p.Q1147*|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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						TTGTTCCTCTGGTAATTGGTG	0.507													17	63	---	---	---	---	PASS	A	8969305	A	A	8969305	4	1	4	1	0	0	0	0	0	1	0	0	9973	1357	47	3	508	3	MUC16	19	8969305	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	160330	8969305	50159678	3330	3921										
MUC16	94025	broad.mit.edu	37	chr19	8997448	8997448	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctccgtggtgttgaacttCctggagccagggtgctgcat	13	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:8997448C>T	uc002mkp.2	-	59	41178	c.40974G>A	c.(40972-40974)AGG>AGA	p.R13658R	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.R475R|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13660	Extracellular (Potential).|SEA 11.			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						TGTTGAACTTCCTGGAGCCAG	0.572													32	60	---	---	---	---	PASS	T	8997448	T	T	8997448	2	4	4	1	0	0	0	0	0	0	0	1	9973	854	30	2		2	MUC16	19	8997448	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	28143	8997448	50131535	3331	3922										
MUC16	94025	broad.mit.edu	37	chr19	9002624	9002624	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggcttttggggtcaggacGatgggtgcagacagcatcca	16	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9002624G>A	uc002mkp.2	-	51	40396	c.40192C>T	c.(40192-40194)CGT>TGT	p.R13398C	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.R215C|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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						GGGTCAGGACGATGGGTGCAG	0.572													7	32	---	---	---	---	PASS	A	9002624	A	A	9002624	3	1	4	1	0	0	0	0	1	0	0	0	9973	1058	37	2	3467	2	MUC16	19	9002624	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5176	9002624	50126359	3332	3923										
MUC16	94025	broad.mit.edu	37	chr19	9013861	9013861	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttacatgtagggctggggagGgaggatggagtccctgaggt	19	5	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9013861G>A	uc002mkp.2	-	33	38733	c.38529C>T	c.(38527-38529)TCC>TCT	p.S12843S	MUC16_uc010xki.1_5'Flank	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12845	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						GGCTGGGGAGGGAGGATGGAG	0.478													5	22	---	---	---	---	PASS	A	9013861	A	A	9013861	2	1	4	1	0	0	0	0	0	0	0	1	9973	1219	43	3		3	MUC16	19	9013861	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	11237	9013861	50115122	3333	3924										
MUC16	94025	broad.mit.edu	37	chr19	9019293	9019293	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acttgcggggcttgggagggAgaatggagtccctgaggttc	18	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9019293A>T	uc002mkp.2	-	23	37798	c.37594T>A	c.(37594-37596)TCC>ACC	p.S12532T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12534	Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTTGGGAGGGAGAATGGAGTC	0.458													6	28	---	---	---	---	PASS	T	9019293	T	T	9019293	3	4	4	1	0	0	0	0	1	0	0	0	9973	304	11	5	6177	5	MUC16	19	9019293	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	5432	9019293	50109690	3334	3925										
MUC16	94025	broad.mit.edu	37	chr19	9033707	9033707	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtgatggtgaagttgaggGtgaatggcaccatgaatggg	18	3	0	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9033707G>A	uc002mkp.2	-	9	36434	c.36230C>T	c.(36229-36231)ACC>ATC	p.T12077I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12079	SEA 1.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAAGTTGAGGGTGAATGGCAC	0.532													22	52	---	---	---	---	PASS	A	9033707	A	A	9033707	3	1	4	1	0	0	0	0	1	0	0	0	9973	1261	44	3	7597	3	MUC16	19	9033707	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	14414	9033707	50095276	3335	3926										
MUC16	94025	broad.mit.edu	37	chr19	9057848	9057848	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatgttggctctgtcggaatCctcctagtctcagagaaggc	11	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9057848C>G	uc002mkp.2	-	3	29802	c.29598G>C	c.(29596-29598)AGG>AGC	p.R9866S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9868	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGTCGGAATCCTCCTAGTCT	0.468													18	73	---	---	---	---	PASS	G	9057848	G	G	9057848	3	3	4	1	0	0	0	0	1	0	0	0	9973	854	30	2	14253	2	MUC16	19	9057848	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	24141	9057848	50071135	3336	3927										
MUC16	94025	broad.mit.edu	37	chr19	9060341	9060341	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggacatgacttgtgtcatGgagtcctcaatcgtggcact	12	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9060341G>A	uc002mkp.2	-	3	27309	c.27105C>T	c.(27103-27105)TCC>TCT	p.S9035S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9037	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTTGTGTCATGGAGTCCTCAA	0.532													13	57	---	---	---	---	PASS	A	9060341	A	A	9060341	2	1	4	1	0	0	0	0	0	0	0	1	9973	1335	47	3		3	MUC16	19	9060341	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2493	9060341	50068642	3337	3928										
MUC16	94025	broad.mit.edu	37	chr19	9061307	9061307	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggtctcttgagaggtactGatctcccttaatccagaagt	9	10	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9061307G>A	uc002mkp.2	-	3	26343	c.26139C>T	c.(26137-26139)ATC>ATT	p.I8713I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8715	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAGAGGTACTGATCTCCCTTA	0.493													14	34	---	---	---	---	PASS	A	9061307	A	A	9061307	2	1	4	1	0	0	0	0	0	0	0	1	9973	1280	45	2		2	MUC16	19	9061307	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	966	9061307	50067676	3338	3929										
MUC16	94025	broad.mit.edu	37	chr19	9062148	9062148	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcagaaaggacagtgcttCcctctgtggctgagctgatc	11	11	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9062148C>T	uc002mkp.2	-	3	25502	c.25298G>A	c.(25297-25299)GGA>GAA	p.G8433E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8435	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GACAGTGCTTCCCTCTGTGGC	0.522													24	39	---	---	---	---	PASS	T	9062148	T	T	9062148	3	4	4	1	0	0	0	0	1	0	0	0	9973	855	30	2	18553	2	MUC16	19	9062148	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	841	9062148	50066835	3339	3930										
MUC16	94025	broad.mit.edu	37	chr19	9063550	9063550	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaaggaaggtctagttttttCcagaaggggagggctcatcc	13	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9063550C>T	uc002mkp.2	-	3	24100	c.23896G>A	c.(23896-23898)GAA>AAA	p.E7966K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7968	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTAGTTTTTTCCAGAAGGGGA	0.468													11	29	---	---	---	---	PASS	T	9063550	T	T	9063550	3	4	4	1	0	0	0	0	1	0	0	0	9973	864	30	2	19955	2	MUC16	19	9063550	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1402	9063550	50065433	3340	3931										
MUC16	94025	broad.mit.edu	37	chr19	9063715	9063715	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgtgttgtggcccctaaagGacttgtatgggtgttcatgg	14	6	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9063715G>A	uc002mkp.2	-	3	23935	c.23731C>T	c.(23731-23733)CCT>TCT	p.P7911S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7913	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCCCCTAAAGGACTTGTATGG	0.453													23	71	---	---	---	---	PASS	A	9063715	A	A	9063715	3	1	4	1	0	0	0	0	1	0	0	0	9973	1174	41	2	20120	2	MUC16	19	9063715	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	165	9063715	50065268	3341	3932										
MUC16	94025	broad.mit.edu	37	chr19	9072915	9072915	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagctgagacagtagaatgtGattcaaatgctgaaccggtg	12	6	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9072915G>A	uc002mkp.2	-	3	14735	c.14531C>T	c.(14530-14532)TCA>TTA	p.S4844L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4846	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGTAGAATGTGATTCAAATGC	0.453													13	48	---	---	---	---	PASS	A	9072915	A	A	9072915	3	1	4	1	0	0	0	0	1	0	0	0	9973	1294	45	2	29320	2	MUC16	19	9072915	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	9200	9072915	50056068	3342	3933										
MUC16	94025	broad.mit.edu	37	chr19	9073638	9073638	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggagggtgctgttctcttttCgtccagcagtcagggaggat	15	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9073638C>T	uc002mkp.2	-	3	14012	c.13808G>A	c.(13807-13809)CGA>CAA	p.R4603Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4605	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding	p.R4603Q(1)|p.R236Q(1)		lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTTCTCTTTTCGTCCAGCAGT	0.502													8	29	---	---	---	---	PASS	T	9073638	T	T	9073638	3	4	4	1	0	0	0	0	1	0	0	0	9973	884	31	2	30043	2	MUC16	19	9073638	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	723	9073638	50055345	3343	3934										
MUC16	94025	broad.mit.edu	37	chr19	9073897	9073897	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgccaaagtggccagtatctCatttgatggattgttcaaat	9	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9073897C>T	uc002mkp.2	-	3	13753	c.13549G>A	c.(13549-13551)GAG>AAG	p.E4517K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4519	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCCAGTATCTCATTTGATGGA	0.433													12	28	---	---	---	---	PASS	T	9073897	T	T	9073897	3	4	4	1	0	0	0	0	1	0	0	0	9973	835	29	2	30302	2	MUC16	19	9073897	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	259	9073897	50055086	3344	3935										
MUC16	94025	broad.mit.edu	37	chr19	9074626	9074626	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgtgggaggtaaccaatgGagatgtggctttggatggct	17	4	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9074626G>A	uc002mkp.2	-	3	13024	c.12820C>T	c.(12820-12822)CCA>TCA	p.P4274S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4276	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTAACCAATGGAGATGTGGCT	0.478													15	45	---	---	---	---	PASS	A	9074626	A	A	9074626	3	1	4	1	0	0	0	0	1	0	0	0	9973	1174	41	2	31031	2	MUC16	19	9074626	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	729	9074626	50054357	3345	3936										
MUC16	94025	broad.mit.edu	37	chr19	9077289	9077289	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtctcggttttatgtttgGatttatctgtcaatgagctc	9	6	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9077289G>A	uc002mkp.2	-	3	10361	c.10157C>T	c.(10156-10158)TCC>TTC	p.S3386F		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3387	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTTATGTTTGGATTTATCTGT	0.468													28	107	---	---	---	---	PASS	A	9077289	A	A	9077289	3	1	4	1	0	0	0	0	1	0	0	0	9973	1174	41	2	33694	2	MUC16	19	9077289	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2663	9077289	50051694	3346	3937										
MUC16	94025	broad.mit.edu	37	chr19	9091240	9091240	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatctgcaaatgttttcattGgagatgtgatttttacagga	9	4	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9091240G>A	uc002mkp.2	-	1	779	c.575C>T	c.(574-576)CCA>CTA	p.P192L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	192	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTTTTCATTGGAGATGTGAT	0.463													18	43	---	---	---	---	PASS	A	9091240	A	A	9091240	3	1	4	1	0	0	0	0	1	0	0	0	9973	1348	47	3	43284	3	MUC16	19	9091240	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	13951	9091240	50037743	3347	3938										
MUC16	94025	broad.mit.edu	37	chr19	9091756	9091756	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggctttagtgctcctgctcCctgtcatcaaggagcgggtg	13	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9091756C>T	uc002mkp.2	-	1	263	c.59G>A	c.(58-60)GGG>GAG	p.G20E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	20	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCTCCTGCTCCCTGTCATCAA	0.517													4	15	---	---	---	---	PASS	T	9091756	T	T	9091756	3	4	4	1	0	0	0	0	1	0	0	0	9973	623	22	3	43800	3	MUC16	19	9091756	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	516	9091756	50037227	3348	3939										
OR1M1	125963	broad.mit.edu	37	chr19	9204664	9204664	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctcccacctgtctgtggtTgctctcttctatgggaccac	9	14	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9204664T>C	uc010xkj.1	+	1	744	c.744T>C	c.(742-744)GTT>GTC	p.V248V		NM_001004456	NP_001004456	Q8NGA1	OR1M1_HUMAN	olfactory receptor, family 1, subfamily M,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3						TGTCTGTGGTTGCTCTCTTCT	0.567													18	68	---	---	---	---	PASS	C	9204664	C	C	9204664	2	2	4	1	0	0	0	0	0	0	0	1	10968	1799	63	5		5	OR1M1	19	9204664	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	112908	9204664	49924319	3349	3940										
ZNF317	57693	broad.mit.edu	37	chr19	9271287	9271287	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccggagctgccacctcatCgcacacaagagaacgcacac	10	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9271287C>T	uc002mku.2	+	7	1241	c.966C>T	c.(964-966)ATC>ATT	p.I322I	ZNF317_uc002mkv.2_Silent_p.I181I|ZNF317_uc002mkw.2_Silent_p.I290I|ZNF317_uc002mkx.2_Silent_p.I237I|ZNF317_uc002mky.2_Silent_p.I205I	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	322	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCCACCTCATCGCACACAAGA	0.587													12	26	---	---	---	---	PASS	T	9271287	T	T	9271287	2	4	4	1	0	0	0	0	0	0	0	1	17832	874	31	2		2	ZNF317	19	9271287	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	66623	9271287	49857696	3350	3941										
ZNF559	84527	broad.mit.edu	37	chr19	9452969	9452969	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggcaaagcctttgctttttCcccagatcttgctaaacata	6	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:9452969C>T	uc002mlg.2	+	7	1489	c.842C>T	c.(841-843)TCC>TTC	p.S281F	ZNF559_uc002mlf.2_Missense_Mutation_p.S50F|ZNF559_uc010dwl.1_Missense_Mutation_p.S50F|ZNF559_uc010xkn.1_Missense_Mutation_p.S273F|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Missense_Mutation_p.S345F|ZNF559_uc010dwk.1_Missense_Mutation_p.S50F|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	281					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTTGCTTTTTCCCCAGATCTT	0.333													9	31	---	---	---	---	PASS	T	9452969	T	T	9452969	3	4	4	1	0	0	0	0	1	0	0	0	17987	855	30	2	856	2	ZNF559	19	9452969	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	181682	9452969	49676014	3351	3942										
COL5A3	50509	broad.mit.edu	37	chr19	10084444	10084444	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcactcaccttctcacccacGgcgcctggctgaccaactcc	6	20	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:10084444G>A	uc002mmq.1	-	49	3686	c.3600C>T	c.(3598-3600)GCC>GCT	p.A1200A		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1200	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)			TCTCACCCACGGCGCCTGGCT	0.602													19	41	---	---	---	---	PASS	A	10084444	A	A	10084444	2	1	4	1	0	0	0	0	0	0	0	1	3698	1103	39	1		1	COL5A3	19	10084444	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	631475	10084444	49044539	3352	3943										
COL5A3	50509	broad.mit.edu	37	chr19	10088084	10088084	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcccagcagctccagggggtCccagaggccccaggggccct	15	17	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:10088084C>T	uc002mmq.1	-	43	3277	c.3191G>A	c.(3190-3192)GGA>GAA	p.G1064E		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1064	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)			TCCAGGGGGTCCCAGAGGCCC	0.657													10	33	---	---	---	---	PASS	T	10088084	T	T	10088084	3	4	4	1	0	0	0	0	1	0	0	0	3698	855	30	2	2146	2	COL5A3	19	10088084	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3640	10088084	49040899	3353	3944										
COL5A3	50509	broad.mit.edu	37	chr19	10106767	10106767	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcccttctgctccctcctctCctttcagacctggatgcccg	7	19	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:10106767C>T	uc002mmq.1	-	15	1594	c.1508G>A	c.(1507-1509)GGA>GAA	p.G503E		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	503	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)			TCCCTCCTCTCCTTTCAGACC	0.577													33	55	---	---	---	---	PASS	T	10106767	T	T	10106767	3	4	4	1	0	0	0	0	1	0	0	0	3698	855	30	2	3941	2	COL5A3	19	10106767	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	18683	10106767	49022216	3354	3945										
RDH8	50700	broad.mit.edu	37	chr19	10132325	10132325	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctggcagcctgtatgtgcGaacgacccaccgcctcctct	9	17	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:10132325G>A	uc002mmr.2	+	6	1085	c.836G>A	c.(835-837)CGA>CAA	p.R279Q		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	279					estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	CTGTATGTGCGAACGACCCAC	0.627													11	18	---	---	---	---	PASS	A	10132325	A	A	10132325	3	1	4	1	0	0	0	0	1	0	0	0	13196	1058	37	2	858	2	RDH8	19	10132325	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	25558	10132325	48996658	3355	3946										
PDE4A	5141	broad.mit.edu	37	chr19	10557008	10557008	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accagccagcgccgggagtcCttcctgtaccgctcagacag	11	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:10557008C>T	uc002moj.2	+	2	543	c.435C>T	c.(433-435)TCC>TCT	p.S145S	PDE4A_uc002mok.2_Silent_p.S119S|PDE4A_uc002mol.2_Silent_p.S84S	NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1	145					signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)	GCCGGGAGTCCTTCCTGTACC	0.662													7	16	---	---	---	---	PASS	T	10557008	T	T	10557008	2	4	4	1	0	0	0	0	0	0	0	1	11639	668	24	3		3	PDE4A	19	10557008	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	424683	10557008	48571975	3356	3947										
KEAP1	9817	broad.mit.edu	37	chr19	10602625	10602625	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaccttgggcgcccggcagGgcatcacctgcgtgggcttg	15	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:10602625G>A	uc002moq.1	-	3	1109	c.953C>T	c.(952-954)CCC>CTC	p.P318L	KEAP1_uc002mop.1_Missense_Mutation_p.P36L|KEAP1_uc002mor.1_Missense_Mutation_p.P318L	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	318					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CGCCCGGCAGGGCATCACCTG	0.642													5	20	---	---	---	---	PASS	A	10602625	A	A	10602625	3	1	4	1	0	0	0	0	1	0	0	0	8141	1232	43	3	937	3	KEAP1	19	10602625	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	45617	10602625	48526358	3357	3948										
KRI1	65095	broad.mit.edu	37	chr19	10671754	10671754	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgtagtcggcctcctcctgGgcctgggggaaagctagcac	14	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:10671754G>A	uc002moy.1	-	8	615	c.606C>T	c.(604-606)GCC>GCT	p.A202A	KRI1_uc002mow.1_5'Flank|KRI1_uc002mox.1_Silent_p.A198A	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	202	Glu-rich.									ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			CCTCCTCCTGGGCCTGGGGGA	0.612													16	27	---	---	---	---	PASS	A	10671754	A	A	10671754	2	1	4	1	0	0	0	0	0	0	0	1	8444	1219	43	3		3	KRI1	19	10671754	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	69129	10671754	48457229	3358	3949										
AP1M2	10053	broad.mit.edu	37	chr19	10685628	10685628	+	Frame_Shift_Del	DEL	G	-	-													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctcaaacttgaccccgatGgggggccggccctccacctc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:10685628delG	uc002mpc.2	-	10	1209	c.1125delC	c.(1123-1125)CCCfs	p.P375fs	AP1M2_uc002mpd.2_Frame_Shift_Del_p.P377fs	NM_005498	NP_005489	Q9Y6Q5	AP1M2_HUMAN	adaptor-related protein complex 1, mu 2 subunit	375	MHD.				cellular membrane organization|post-Golgi vesicle-mediated transport|protein targeting|regulation of defense response to virus by virus|vesicle targeting|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding			ovary(2)	2			Epithelial(33;1.58e-05)|all cancers(31;6.36e-05)			TGACCCCGATGGGGGGCCGGC	0.612													5	8	---	---	---	---		-	10685628	-	-	10685628	7	5	4	1	0	1	0	1	0	0	0	0	735	1335	47	0	158	0	AP1M2	19	10685628	Frame_Shift_Del	DEL	G	TCGA-18-3409-01A-01D-0983-08	13874	10685628	48443355	3359	3950										
DNM2	1785	broad.mit.edu	37	chr19	10893691	10893691	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attgagggcaagaaggacatCcgtgcagcactggcagctga	14	9	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:10893691C>T	uc002mps.1	+	6	908	c.744C>T	c.(742-744)ATC>ATT	p.I248I	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Silent_p.I248I|DNM2_uc002mpv.1_Silent_p.I248I|DNM2_uc002mpu.1_Silent_p.I248I|DNM2_uc010dxl.1_Silent_p.I248I|DNM2_uc002mpw.2_5'UTR	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	248					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			AGAAGGACATCCGTGCAGCAC	0.607													6	23	---	---	---	---	PASS	T	10893691	T	T	10893691	2	4	4	1	0	0	0	0	0	0	0	1	4672	845	30	2		2	DNM2	19	10893691	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	208063	10893691	48235292	3360	3951										
SMARCA4	6597	broad.mit.edu	37	chr19	11094861	11094861	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acccacccctgggcggaactCctcggccaggtccttccccg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:11094861C>T	uc002mqf.3	+	2	318	c.34C>T	c.(34-36)CCT>TCT	p.P12S	SMARCA4_uc010dxp.2_Missense_Mutation_p.P12S|SMARCA4_uc010dxo.2_Missense_Mutation_p.P12S|SMARCA4_uc002mqg.1_Missense_Mutation_p.P12S|SMARCA4_uc010dxq.2_Missense_Mutation_p.P12S|SMARCA4_uc010dxr.2_Missense_Mutation_p.P12S|SMARCA4_uc002mqj.3_Missense_Mutation_p.P12S|SMARCA4_uc010dxs.2_Missense_Mutation_p.P12S|SMARCA4_uc002mqe.2_Missense_Mutation_p.P12S	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	12	Necessary for interaction with SS18L1/CREST (By similarity).				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GGGCGGAACTCCTCGGCCAGG	0.687			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				4	15	---	---	---	---	PASS	T	11094861	T	T	11094861	3	4	4	1	0	0	0	0	1	0	0	0	14770	855	30	2	36	2	SMARCA4	19	11094861	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	201170	11094861	48034122	3361	3952	162	2								
SMARCA4	6597	broad.mit.edu	37	chr19	11094862	11094862	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccacccctgggcggaactcCtcggccaggtccttccccgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:11094862C>T	uc002mqf.3	+	2	319	c.35C>T	c.(34-36)CCT>CTT	p.P12L	SMARCA4_uc010dxp.2_Missense_Mutation_p.P12L|SMARCA4_uc010dxo.2_Missense_Mutation_p.P12L|SMARCA4_uc002mqg.1_Missense_Mutation_p.P12L|SMARCA4_uc010dxq.2_Missense_Mutation_p.P12L|SMARCA4_uc010dxr.2_Missense_Mutation_p.P12L|SMARCA4_uc002mqj.3_Missense_Mutation_p.P12L|SMARCA4_uc010dxs.2_Missense_Mutation_p.P12L|SMARCA4_uc002mqe.2_Missense_Mutation_p.P12L	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	12	Necessary for interaction with SS18L1/CREST (By similarity).				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GGCGGAACTCCTCGGCCAGGT	0.687			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				4	15	---	---	---	---	PASS	T	11094862	T	T	11094862	3	4	4	1	0	0	0	0	1	0	0	0	14770	681	24	3	37	3	SMARCA4	19	11094862	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	11094862	48034121	3362	3953	162	2								
DOCK6	57572	broad.mit.edu	37	chr19	11313129	11313129	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtctttgataatctcaacgaCgtcgtcgccaaatctctccg	7	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:11313129C>A	uc002mqs.3	-	43	5433	c.5392G>T	c.(5392-5394)GTC>TTC	p.V1798F	DOCK6_uc002mqr.3_Missense_Mutation_p.V198F|DOCK6_uc010xlq.1_Missense_Mutation_p.V1137F	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1798	DHR-2.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						ATCTCAACGACGTCGTCGCCA	0.552													8	25	---	---	---	---	PASS	A	11313129	A	A	11313129	3	1	4	1	0	0	0	0	1	0	0	0	4691	536	19	1	775	1	DOCK6	19	11313129	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	218267	11313129	47815854	3363	3954										
EPOR	2057	broad.mit.edu	37	chr19	11489065	11489065	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcgggttccggggcagcaaCcatttgtccagcaccagata	13	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:11489065C>T	uc002mrj.1	-	8	1258	c.1122G>A	c.(1120-1122)TGG>TGA	p.W374*	EPOR_uc002mrh.2_Nonsense_Mutation_p.W33*|EPOR_uc002mri.2_Nonsense_Mutation_p.W201*|EPOR_uc002mrk.1_Nonsense_Mutation_p.W201*|EPOR_uc002mrl.1_RNA|EPOR_uc010xlx.1_RNA|EPOR_uc010xly.1_Nonsense_Mutation_p.W201*	NM_000121	NP_000112	P19235	EPOR_HUMAN	erythropoietin receptor precursor	374	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	erythropoietin receptor activity|identical protein binding			ovary(1)	1					Darbepoetin alfa(DB00012)|Epoetin alfa(DB00016)	GGGGCAGCAACCATTTGTCCA	0.622											OREG0025254	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	17	---	---	---	---	PASS	T	11489065	T	T	11489065	4	4	4	1	0	0	0	0	0	1	0	0	5189	508	18	3	408	3	EPOR	19	11489065	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	175936	11489065	47639918	3364	3955										
ZNF823	55552	broad.mit.edu	37	chr19	11832689	11832689	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acattgtagacattcataggGtttctctccagtgtgaattc	8	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:11832689G>A	uc002msm.2	-	4	1786	c.1660C>T	c.(1660-1662)CCC>TCC	p.P554S	ZNF823_uc010xmd.1_Missense_Mutation_p.P372S|ZNF823_uc010dyi.1_Missense_Mutation_p.P510S	NM_001080493	NP_001073962	P16415	ZN823_HUMAN	ZFP-36 for a zinc finger protein	554					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CATTCATAGGGTTTCTCTCCA	0.428										HNSCC(68;0.2)			25	38	---	---	---	---	PASS	A	11832689	A	A	11832689	3	1	4	1	0	0	0	0	1	0	0	0	18176	1261	44	3	176	3	ZNF823	19	11832689	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	343624	11832689	47296294	3365	3956										
ZNF441	126068	broad.mit.edu	37	chr19	11891967	11891967	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatgaaagaattcacactgGggagagaccctataaatgta	9	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:11891967G>A	uc010dyj.2	+	4	1522	c.1328G>A	c.(1327-1329)GGG>GAG	p.G443E	ZNF441_uc002msn.3_Missense_Mutation_p.G399E	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	443					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATTCACACTGGGGAGAGACCC	0.388													6	41	---	---	---	---	PASS	A	11891967	A	A	11891967	3	1	4	1	0	0	0	0	1	0	0	0	17911	1232	43	3	1342	3	ZNF441	19	11891967	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	59278	11891967	47237016	3366	3957										
ZNF441	126068	broad.mit.edu	37	chr19	11892026	11892026	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaggtcttccaattacattCgagtacatgaaaagactcac	6	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:11892026C>T	uc010dyj.2	+	4	1581	c.1387C>T	c.(1387-1389)CGA>TGA	p.R463*	ZNF441_uc002msn.3_Nonsense_Mutation_p.R419*	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	463	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CAATTACATTCGAGTACATGA	0.388													11	39	---	---	---	---	PASS	T	11892026	T	T	11892026	4	4	4	1	0	0	0	0	0	1	0	0	17911	876	31	2	1401	2	ZNF441	19	11892026	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	59	11892026	47236957	3367	3958										
ZNF441	126068	broad.mit.edu	37	chr19	11892203	11892203	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagttcatttcgaagacatGaaagaattcacactggggag	10	8	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:11892203G>A	uc010dyj.2	+	4	1758	c.1564G>A	c.(1564-1566)GAA>AAA	p.E522K	ZNF441_uc002msn.3_Missense_Mutation_p.E478K	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	522	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCGAAGACATGAAAGAATTCA	0.413													23	41	---	---	---	---	PASS	A	11892203	A	A	11892203	3	1	4	1	0	0	0	0	1	0	0	0	17911	1291	45	2	1578	2	ZNF441	19	11892203	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	177	11892203	47236780	3368	3959										
ZNF439	90594	broad.mit.edu	37	chr19	11979089	11979089	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcctttcgatatcatgaaaGgactcacactggagagaaac	8	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:11979089G>A	uc002mss.2	+	3	1333	c.1205G>A	c.(1204-1206)AGG>AAG	p.R402K	ZNF439_uc002msr.2_Missense_Mutation_p.R266K	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	402	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TATCATGAAAGGACTCACACT	0.438													11	31	---	---	---	---	PASS	A	11979089	A	A	11979089	3	1	4	1	0	0	0	0	1	0	0	0	17908	1000	35	3	1215	3	ZNF439	19	11979089	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	86886	11979089	47149894	3369	3960										
ZNF700	90592	broad.mit.edu	37	chr19	12060004	12060004	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaactcacactggagagaaaCgctataaatgcaagcaatgt	8	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:12060004C>T	uc002msu.2	+	4	1291	c.1165C>T	c.(1165-1167)CGC>TGC	p.R389C	ZNF700_uc010xme.1_Missense_Mutation_p.R407C|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	389					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGGAGAGAAACGCTATAAATG	0.383													14	38	---	---	---	---	PASS	T	12060004	T	T	12060004	3	4	4	1	0	0	0	0	1	0	0	0	18101	536	19	1	1179	1	ZNF700	19	12060004	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	80915	12060004	47068979	3370	3961										
ZNF700	90592	broad.mit.edu	37	chr19	12060728	12060728	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaatgtgggaaagccttcaGatctgcctcaaaccttcaga	9	11	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:12060728G>A	uc002msu.2	+	4	2015	c.1889G>A	c.(1888-1890)AGA>AAA	p.R630K	ZNF700_uc010xme.1_Missense_Mutation_p.R648K|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	630	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAAGCCTTCAGATCTGCCTCA	0.438													14	50	---	---	---	---	PASS	A	12060728	A	A	12060728	3	1	4	1	0	0	0	0	1	0	0	0	18101	942	33	2	1903	2	ZNF700	19	12060728	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	724	12060728	47068255	3371	3962										
ZNF709	163051	broad.mit.edu	37	chr19	12575525	12575525	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catgcattcgaaaggaactgGaacaactgaaggctttacca	9	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:12575525G>A	uc002mtv.3	-	4	1372	c.1211C>T	c.(1210-1212)TCC>TTC	p.S404F	ZNF709_uc002mtw.3_Missense_Mutation_p.S372F|ZNF709_uc002mtx.3_Missense_Mutation_p.S404F	NM_152601	NP_689814	Q8N972	ZN709_HUMAN	zinc finger protein 709 isoform a	404	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAAGGAACTGGAACAACTGAA	0.403													8	67	---	---	---	---	PASS	A	12575525	A	A	12575525	3	1	4	1	0	0	0	0	1	0	0	0	18110	1174	41	2	718	2	ZNF709	19	12575525	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	514797	12575525	46553458	3372	3963										
ZNF791	163049	broad.mit.edu	37	chr19	12739979	12739979	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcaaagacatacaagaattCacaattatgagaaacctctt	4	8	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:12739979C>T	uc002mua.2	+	4	1798	c.1636C>T	c.(1636-1638)CAC>TAC	p.H546Y	ZNF791_uc010xml.1_Missense_Mutation_p.H514Y|ZNF791_uc010dyu.1_Missense_Mutation_p.H437Y|ZNF791_uc010xmm.1_Missense_Mutation_p.H437Y	NM_153358	NP_699189	Q3KP31	ZN791_HUMAN	zinc finger protein 791	546	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TACAAGAATTCACAATTATGA	0.368													14	42	---	---	---	---	PASS	T	12739979	T	T	12739979	3	4	4	1	0	0	0	0	1	0	0	0	18160	826	29	2	1650	2	ZNF791	19	12739979	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	164454	12739979	46389004	3373	3964										
CACNA1A	773	broad.mit.edu	37	chr19	13566011	13566011	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctatgatggtggctaaaatCatatattcaaagggagtatt	10	4	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:13566011C>T	uc010dze.2	-	2	545	c.309G>A	c.(307-309)ATG>ATA	p.M103I	CACNA1A_uc002mwy.3_Missense_Mutation_p.M103I	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	103	Helical; Name=S1 of repeat I; (Potential).|I.				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	TGGCTAAAATCATATATTCAA	0.483													22	83	---	---	---	---	PASS	T	13566011	T	T	13566011	3	4	4	1	0	0	0	0	1	0	0	0	2538	826	29	2	7509	2	CACNA1A	19	13566011	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	826032	13566011	45562972	3374	3965										
ASF1B	55723	broad.mit.edu	37	chr19	14236970	14236970	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtctccctgctggcacaggGcccaccagcaccgagtctag	11	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:14236970G>A	uc002mye.2	-	2	361	c.189C>T	c.(187-189)GGC>GGT	p.G63G		NM_018154	NP_060624	Q9NVP2	ASF1B_HUMAN	anti-silencing function 1B	63	Interaction with CHAF1B.|Interaction with histone H3 (By similarity).				cell differentiation|chromatin modification|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus					0						CTGGCACAGGGCCCACCAGCA	0.478													9	27	---	---	---	---	PASS	A	14236970	A	A	14236970	2	1	4	1	0	0	0	0	0	0	0	1	1038	1190	42	3		3	ASF1B	19	14236970	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	670959	14236970	44892013	3375	3966										
LPHN1	22859	broad.mit.edu	37	chr19	14266334	14266334	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcgcgatggcccccagcgccCaggatctgggagtggggcga	18	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:14266334C>T	uc010xnn.1	-	19	3442	c.3146G>A	c.(3145-3147)TGG>TAG	p.W1049*	LPHN1_uc010xno.1_Nonsense_Mutation_p.W1044*|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	1049	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						CCCCAGCGCCCAGGATCTGGG	0.667													7	21	---	---	---	---	PASS	T	14266334	T	T	14266334	4	4	4	1	0	0	0	0	0	1	0	0	8915	595	21	3	1302	3	LPHN1	19	14266334	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	29364	14266334	44862649	3376	3967										
DNAJB1	3337	broad.mit.edu	37	chr19	14629122	14629122	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatctcctcgtccgacgcgcCgcgggccaggcccaacgtct	12	18	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:14629122C>A	uc002myz.1	-	1	80	c.40G>T	c.(40-42)GGC>TGC	p.G14C	DNAJB1_uc010xnr.1_Intron	NM_006145	NP_006136	P25685	DNJB1_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 1	14	J.				chaperone cofactor-dependent protein refolding|response to unfolded protein	cytoplasm|nucleolus	heat shock protein binding|unfolded protein binding				0				GBM - Glioblastoma multiforme(1328;0.0476)		TCCGACGCGCCGCGGGCCAGG	0.706													3	10	---	---	---	---	PASS	A	14629122	A	A	14629122	3	1	4	1	0	0	0	0	1	0	0	0	4615	652	23	1	994	1	DNAJB1	19	14629122	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	362788	14629122	44499861	3377	3968										
ZNF333	84449	broad.mit.edu	37	chr19	14806396	14806396	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaactccaccatgcaaacCcagttgtgtctcccagctgg	9	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:14806396C>T	uc002mzn.2	+	4	280	c.146C>T	c.(145-147)CCC>CTC	p.P49L	ZNF333_uc010dzq.2_Missense_Mutation_p.P49L|ZNF333_uc002mzk.3_5'UTR|ZNF333_uc002mzl.3_Missense_Mutation_p.P49L|ZNF333_uc002mzm.2_Intron|ZNF333_uc010dzr.1_RNA	NM_032433	NP_115809	Q96JL9	ZN333_HUMAN	zinc finger protein 333	49	KRAB 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCATGCAAACCCAGTTGTGTC	0.527													4	17	---	---	---	---	PASS	T	14806396	T	T	14806396	3	4	4	1	0	0	0	0	1	0	0	0	17847	623	22	3	156	3	ZNF333	19	14806396	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	177274	14806396	44322587	3378	3969										
OR7C2	26658	broad.mit.edu	37	chr19	15053203	15053203	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacatgaaggggtcactgggGagactcctcctcagggcaac	14	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:15053203G>A	uc010xoc.1	+	1	903	c.903G>A	c.(901-903)GGG>GGA	p.G301G		NM_012377	NP_036509	O60412	OR7C2_HUMAN	olfactory receptor, family 7, subfamily C,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Ovarian(108;0.203)					GGTCACTGGGGAGACTCCTCC	0.542													12	20	---	---	---	---	PASS	A	15053203	A	A	15053203	2	1	4	1	0	0	0	0	0	0	0	1	11218	1161	41	2		2	OR7C2	19	15053203	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	246807	15053203	44075780	3379	3970										
OR7C2	26658	broad.mit.edu	37	chr19	15053234	15053234	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagggcaacgtctctcaaaGaggggaccattgctaagctc	11	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:15053234G>A	uc010xoc.1	+	1	934	c.934G>A	c.(934-936)GAG>AAG	p.E312K		NM_012377	NP_036509	O60412	OR7C2_HUMAN	olfactory receptor, family 7, subfamily C,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Ovarian(108;0.203)					GTCTCTCAAAGAGGGGACCAT	0.493													7	22	---	---	---	---	PASS	A	15053234	A	A	15053234	3	1	4	1	0	0	0	0	1	0	0	0	11218	943	33	2	936	2	OR7C2	19	15053234	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	31	15053234	44075749	3380	3971										
CCDC105	126402	broad.mit.edu	37	chr19	15132449	15132449	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaagattaaatatgacgttaGgactgatgaggggaactatc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:15132449G>A	uc002nae.2	+	5	1162	c.1063G>A	c.(1063-1065)GGA>AGA	p.G355R		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	355					microtubule cytoskeleton organization	microtubule				ovary(1)	1						TATGACGTTAGGACTGATGAG	0.587													8	34	---	---	---	---	PASS	A	15132449	A	A	15132449	3	1	4	1	0	0	0	0	1	0	0	0	2740	1001	35	3	1081	3	CCDC105	19	15132449	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	79215	15132449	43996534	3381	3972	163	2								
CCDC105	126402	broad.mit.edu	37	chr19	15132450	15132450	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagattaaatatgacgttagGactgatgaggggaactatcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:15132450G>A	uc002nae.2	+	5	1163	c.1064G>A	c.(1063-1065)GGA>GAA	p.G355E		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	355					microtubule cytoskeleton organization	microtubule				ovary(1)	1						ATGACGTTAGGACTGATGAGG	0.587													8	34	---	---	---	---	PASS	A	15132450	A	A	15132450	3	1	4	1	0	0	0	0	1	0	0	0	2740	1174	41	2	1082	2	CCDC105	19	15132450	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	15132450	43996533	3382	3973	163	2								
NOTCH3	4854	broad.mit.edu	37	chr19	15296349	15296349	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcagggctcatgggcacagGgatggctcggggggaggcag	21	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:15296349G>A	uc002nan.2	-	13	2169	c.2093C>T	c.(2092-2094)CCC>CTC	p.P698L	NOTCH3_uc002nao.1_Missense_Mutation_p.P698L	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	698	Extracellular (Potential).|EGF-like 18.				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			ATGGGCACAGGGATGGCTCGG	0.672													7	12	---	---	---	---	PASS	A	15296349	A	A	15296349	3	1	4	1	0	0	0	0	1	0	0	0	10550	1232	43	3	4956	3	NOTCH3	19	15296349	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	163899	15296349	43832634	3383	3974										
EPHX3	79852	broad.mit.edu	37	chr19	15338338	15338338	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caatgccctatgcctggcagGatgtgggcctccaagcggcc	13	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:15338338G>A	uc002nap.2	-	7	1202	c.993C>T	c.(991-993)ATC>ATT	p.I331I	EPHX3_uc002naq.2_Silent_p.I331I	NM_024794	NP_079070	Q9H6B9	EPHX3_HUMAN	abhydrolase domain containing 9 precursor	331						extracellular region	hydrolase activity				0						TGCCTGGCAGGATGTGGGCCT	0.612													9	17	---	---	---	---	PASS	A	15338338	A	A	15338338	2	1	4	1	0	0	0	0	0	0	0	1	5181	1164	41	2		2	EPHX3	19	15338338	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	41989	15338338	43790645	3384	3975										
CYP4F3	4051	broad.mit.edu	37	chr19	15769356	15769356	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacaacccagccgtgtggccGgaccctgaggtgcgggcccc	14	17	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:15769356G>A	uc002nbj.2	+	11	1355	c.1305G>A	c.(1303-1305)CCG>CCA	p.P435P	CYP4F3_uc010xok.1_Silent_p.P435P|CYP4F3_uc010xol.1_Silent_p.P435P|CYP4F3_uc010xom.1_Silent_p.P286P|CYP4F3_uc002nbk.2_Silent_p.P435P|CYP4F3_uc010xon.1_Silent_p.P145P	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	435					leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						CCGTGTGGCCGGACCCTGAGG	0.577													18	44	---	---	---	---	PASS	A	15769356	A	A	15769356	2	1	4	1	0	0	0	0	0	0	0	1	4190	1103	39	1		1	CYP4F3	19	15769356	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	431018	15769356	43359627	3385	3976										
CYP4F3	4051	broad.mit.edu	37	chr19	15770159	15770159	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagctggtcctgcgcgcagaGggcggactttggctgcgggt	19	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:15770159G>A	uc002nbj.2	+	13	1577	c.1527G>A	c.(1525-1527)GAG>GAA	p.E509E	CYP4F3_uc010xok.1_Silent_p.E509E|CYP4F3_uc010xol.1_Silent_p.E509E|CYP4F3_uc010xom.1_Silent_p.E360E|CYP4F3_uc002nbk.2_Silent_p.E509E|CYP4F3_uc010xon.1_Silent_p.E219E	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	509					leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						TGCGCGCAGAGGGCGGACTTT	0.587													4	14	---	---	---	---	PASS	A	15770159	A	A	15770159	2	1	4	1	0	0	0	0	0	0	0	1	4190	991	35	3		3	CYP4F3	19	15770159	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	803	15770159	43358824	3386	3977										
OR10H2	26538	broad.mit.edu	37	chr19	15839433	15839433	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggcctgtggaaataatgtaCcagctgtggccctgggcgtg	15	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:15839433C>T	uc002nbm.2	+	1	600	c.580C>T	c.(580-582)CCA>TCA	p.P194S		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	194	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					AAATAATGTACCAGCTGTGGC	0.507													22	35	---	---	---	---	PASS	T	15839433	T	T	15839433	3	4	4	1	0	0	0	0	1	0	0	0	10906	507	18	3	582	3	OR10H2	19	15839433	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	69274	15839433	43289550	3387	3978										
OR10H3	26532	broad.mit.edu	37	chr19	15852774	15852774	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctcttgaagttggcctgtgGgagcaagacatcatctgtca	11	10	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:15852774G>A	uc010xoq.1	+	1	572	c.572G>A	c.(571-573)GGG>GAG	p.G191E		NM_013938	NP_039226	O60404	O10H3_HUMAN	olfactory receptor, family 10, subfamily H,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTGGCCTGTGGGAGCAAGACA	0.463													32	65	---	---	---	---	PASS	A	15852774	A	A	15852774	3	1	4	1	0	0	0	0	1	0	0	0	10907	1232	43	3	574	3	OR10H3	19	15852774	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	13341	15852774	43276209	3388	3979										
OR10H4	126541	broad.mit.edu	37	chr19	16060372	16060372	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctgtcatgtgctttccctCttgaagttggcctgtgaaaa	9	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:16060372C>T	uc010xov.1	+	1	555	c.555C>T	c.(553-555)CTC>CTT	p.L185L		NM_001004465	NP_001004465	Q8NGA5	O10H4_HUMAN	olfactory receptor, family 10, subfamily H,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						TGCTTTCCCTCTTGAAGTTGG	0.463													15	62	---	---	---	---	PASS	T	16060372	T	T	16060372	2	4	4	1	0	0	0	0	0	0	0	1	10908	900	32	2		2	OR10H4	19	16060372	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	207598	16060372	43068611	3389	3980										
CIB3	117286	broad.mit.edu	37	chr19	16279007	16279007	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagccatttcactcatcacgGaaaacatgtccaaaaagttg	7	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:16279007G>A	uc002nds.2	-	4	287	c.287C>T	c.(286-288)TCC>TTC	p.S96F	CIB3_uc010eae.2_Missense_Mutation_p.S35F|CIB3_uc010eaf.2_Intron|CIB3_uc010eag.2_Missense_Mutation_p.S47F	NM_054113	NP_473454	Q96Q77	CIB3_HUMAN	DNA-dependent protein kinase catalytic	96	EF-hand 1.						calcium ion binding			ovary(1)	1						ACTCATCACGGAAAACATGTC	0.542													9	13	---	---	---	---	PASS	A	16279007	A	A	16279007	3	1	4	1	0	0	0	0	1	0	0	0	3422	1174	41	2	288	2	CIB3	19	16279007	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	218635	16279007	42849976	3390	3981										
C19orf44	84167	broad.mit.edu	37	chr19	16613879	16613879	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caagtgttttatatcaggtcCcatctcaactgagagcattt	7	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:16613879C>T	uc002neh.1	+	3	836	c.763C>T	c.(763-765)CCA>TCA	p.P255S	MED26_uc002nee.2_Intron|C19orf44_uc002nef.1_Missense_Mutation_p.P255S|C19orf44_uc002neg.2_Missense_Mutation_p.P255S|C19orf44_uc010eai.1_RNA	NM_032207	NP_115583	Q9H6X5	CS044_HUMAN	hypothetical protein LOC84167	255											0						ATATCAGGTCCCATCTCAACT	0.338													13	26	---	---	---	---	PASS	T	16613879	T	T	16613879	3	4	4	1	0	0	0	0	1	0	0	0	1927	623	22	3	769	3	C19orf44	19	16613879	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	334872	16613879	42515104	3391	3982										
TMEM38A	79041	broad.mit.edu	37	chr19	16797209	16797209	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcaccttgttcatggtgtCctgtaaggtaagcctttctc	8	11	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:16797209C>T	uc002nes.2	+	5	756	c.665C>T	c.(664-666)TCC>TTC	p.S222F		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	222	Helical; (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3						TTCATGGTGTCCTGTAAGGTA	0.557													16	23	---	---	---	---	PASS	T	16797209	T	T	16797209	3	4	4	1	0	0	0	0	1	0	0	0	16156	855	30	2	683	2	TMEM38A	19	16797209	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	183330	16797209	42331774	3392	3983										
NWD1	284434	broad.mit.edu	37	chr19	16908679	16908679	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacctgatcatcacggggtcCcttgatgcgctcattcaggt	10	12	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:16908679C>T	uc002neu.3	+	16	3863	c.3441C>T	c.(3439-3441)TCC>TCT	p.S1147S	NWD1_uc002net.3_Silent_p.S1012S|NWD1_uc002nev.3_Silent_p.S941S			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1147	WD 8.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						TCACGGGGTCCCTTGATGCGC	0.522													74	96	---	---	---	---	PASS	T	16908679	T	T	16908679	2	4	4	1	0	0	0	0	0	0	0	1	10781	610	22	3		3	NWD1	19	16908679	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	111470	16908679	42220304	3393	3984										
F2RL3	9002	broad.mit.edu	37	chr19	17000411	17000411	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccctcaatcctgcctgcccCccgcggctacccaggccaag	9	21	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:17000411C>T	uc002nfa.2	+	2	312	c.137C>T	c.(136-138)CCC>CTC	p.P46L		NM_003950	NP_003941	Q96RI0	PAR4_HUMAN	coagulation factor II (thrombin) receptor-like 3	46					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation|positive regulation of release of sequestered calcium ion into cytosol	extracellular region|integral to plasma membrane	thrombin receptor activity				0						CTGCCTGCCCCCCGCGGCTAC	0.672													12	31	---	---	---	---	PASS	T	17000411	T	T	17000411	3	4	4	1	0	0	0	0	1	0	0	0	5346	623	22	3	143	3	F2RL3	19	17000411	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	91732	17000411	42128572	3394	3985										
PLVAP	83483	broad.mit.edu	37	chr19	17476593	17476593	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaaacttgtccttgtccagGggcaggcagagggcttgcac	13	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:17476593G>A	uc002ngk.1	-	3	731	c.681C>T	c.(679-681)CCC>CCT	p.P227P		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	227	Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						CCTTGTCCAGGGGCAGGCAGA	0.572													15	27	---	---	---	---	PASS	A	17476593	A	A	17476593	2	1	4	1	0	0	0	0	0	0	0	1	12116	1219	43	3		3	PLVAP	19	17476593	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	476182	17476593	41652390	3395	3986										
JAK3	3718	broad.mit.edu	37	chr19	17945968	17945968	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggctcccatcagccccctcCcgagccaggagcaccttccg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:17945968C>T	uc002nhn.3	-	15	2071	c.1971G>A	c.(1969-1971)CGG>CGA	p.R657R	JAK3_uc010ebh.2_Intron|JAK3_uc002nho.2_Silent_p.R657R	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	657	Protein kinase 1.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding	p.R657Q(4)		haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						CAGCCCCCTCCCGAGCCAGGA	0.622		2	Mis		acute megakaryocytic leukemia|								6	17	---	---	---	---	PASS	T	17945968	T	T	17945968	2	4	4	1	0	0	0	0	0	0	0	1	7939	610	22	3		3	JAK3	19	17945968	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	469375	17945968	41183015	3396	3987	164	2								
JAK3	3718	broad.mit.edu	37	chr19	17945969	17945969	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctcccatcagccccctccCgagccaggagcaccttccgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:17945969C>T	uc002nhn.3	-	15	2070	c.1970G>A	c.(1969-1971)CGG>CAG	p.R657Q	JAK3_uc010ebh.2_Intron|JAK3_uc002nho.2_Missense_Mutation_p.R657Q	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	657	Protein kinase 1.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding	p.R657Q(4)		haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						AGCCCCCTCCCGAGCCAGGAG	0.617		2	Mis		acute megakaryocytic leukemia|								6	16	---	---	---	---	PASS	T	17945969	T	T	17945969	3	4	4	1	0	0	0	0	1	0	0	0	7939	652	23	1	1444	1	JAK3	19	17945969	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	17945969	41183014	3397	3988	164	2								
JAK3	3718	broad.mit.edu	37	chr19	17950469	17950469	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttataatcaggaccaagggGgttctgcaaagaagagtggc	13	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:17950469G>A	uc002nhn.3	-	10	1358	c.1258C>T	c.(1258-1260)CCC>TCC	p.P420S	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Missense_Mutation_p.P420S|JAK3_uc010xpx.1_Missense_Mutation_p.P420S	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	420	SH2; atypical.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						GGACCAAGGGGGTTCTGCAAA	0.498		2	Mis		acute megakaryocytic leukemia|								5	2	---	---	---	---	PASS	A	17950469	A	A	17950469	3	1	4	1	0	0	0	0	1	0	0	0	7939	1232	43	3	2176	3	JAK3	19	17950469	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4500	17950469	41178514	3398	3989										
SLC5A5	6528	broad.mit.edu	37	chr19	17985516	17985516	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgctcctgtccaccggaatTatctgcaccttctacacggc	7	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:17985516T>C	uc002nhr.3	+	4	866	c.519T>C	c.(517-519)ATT>ATC	p.I173I		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	173	Helical; (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						CCACCGGAATTATCTGCACCT	0.607													10	14	---	---	---	---	PASS	C	17985516	C	C	17985516	2	2	4	1	0	0	0	0	0	0	0	1	14668	1742	61	5		5	SLC5A5	19	17985516	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	35047	17985516	41143467	3399	3990										
ARRDC2	27106	broad.mit.edu	37	chr19	18121061	18121061	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggagctgccactggtgatCggcaccattcccttgcaccc	10	16	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:18121061C>T	uc002nhv.2	+	6	1049	c.906C>T	c.(904-906)ATC>ATT	p.I302I	ARRDC2_uc002nhu.2_Silent_p.I297I	NM_015683	NP_056498	Q8TBH0	ARRD2_HUMAN	arrestin domain containing 2 isoform 1	302										pancreas(1)	1						CACTGGTGATCGGCACCATTC	0.652													5	16	---	---	---	---	PASS	T	18121061	T	T	18121061	2	4	4	1	0	0	0	0	0	0	0	1	983	874	31	2		2	ARRDC2	19	18121061	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	135545	18121061	41007922	3400	3991										
LSM4	25804	broad.mit.edu	37	chr19	18426871	18426871	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgtcttcagcagtgacaagGgaagctgaaaggcaaataaa	11	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:18426871G>A	uc002niq.2	-	2	179	c.8C>T	c.(7-9)CCC>CTC	p.P3L		NM_012321	NP_036453	Q9Y4Z0	LSM4_HUMAN	U6 snRNA-associated Sm-like protein 4	3					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|mRNA processing|RNA splicing	cytosol|U6 snRNP	protein binding|RNA binding				0						CAGTGACAAGGGAAGCTGAAA	0.557													15	27	---	---	---	---	PASS	A	18426871	A	A	18426871	3	1	4	1	0	0	0	0	1	0	0	0	9058	1232	43	3	427	3	LSM4	19	18426871	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	305810	18426871	40702112	3401	3992										
COMP	1311	broad.mit.edu	37	chr19	18895874	18895874	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcacatggaacgtgccctcGaagtccacgccattgaaggc	10	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:18895874G>A	uc002nke.2	-	16	1782	c.1746C>T	c.(1744-1746)TTC>TTT	p.F582F	COMP_uc002nkd.2_Silent_p.F549F|COMP_uc010xqj.1_Silent_p.F529F	NM_000095	NP_000086	P49747	COMP_HUMAN	cartilage oligomeric matrix protein precursor	582	Mediates cell survival and induction of the IAP family of survival proteins.|TSP C-terminal.				anti-apoptosis|apoptosis|cell adhesion|limb development	extracellular space|proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent|heparan sulfate proteoglycan binding|heparin binding				0						ACGTGCCCTCGAAGTCCACGC	0.587													22	45	---	---	---	---	PASS	A	18895874	A	A	18895874	2	1	4	1	0	0	0	0	0	0	0	1	3724	1049	37	2		2	COMP	19	18895874	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	469003	18895874	40233109	3402	3993										
COMP	1311	broad.mit.edu	37	chr19	18899070	18899070	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catccggatcgcaggcgtctCcgatgccatcgcggtccaca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:18899070C>T	uc002nke.2	-	9	962	c.926G>A	c.(925-927)GGA>GAA	p.G309E	COMP_uc002nkd.2_Missense_Mutation_p.G276E|COMP_uc010xqj.1_Missense_Mutation_p.G256E	NM_000095	NP_000086	P49747	COMP_HUMAN	cartilage oligomeric matrix protein precursor	309	TSP type-3 2.				anti-apoptosis|apoptosis|cell adhesion|limb development	extracellular space|proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent|heparan sulfate proteoglycan binding|heparin binding				0						GCAGGCGTCTCCGATGCCATC	0.507													5	12	---	---	---	---	PASS	T	18899070	T	T	18899070	3	4	4	1	0	0	0	0	1	0	0	0	3724	855	30	2	1391	2	COMP	19	18899070	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3196	18899070	40229913	3403	3994	165	2								
COMP	1311	broad.mit.edu	37	chr19	18899071	18899071	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atccggatcgcaggcgtctcCgatgccatcgcggtccacat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:18899071C>T	uc002nke.2	-	9	961	c.925G>A	c.(925-927)GGA>AGA	p.G309R	COMP_uc002nkd.2_Missense_Mutation_p.G276R|COMP_uc010xqj.1_Missense_Mutation_p.G256R	NM_000095	NP_000086	P49747	COMP_HUMAN	cartilage oligomeric matrix protein precursor	309	TSP type-3 2.				anti-apoptosis|apoptosis|cell adhesion|limb development	extracellular space|proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent|heparan sulfate proteoglycan binding|heparin binding				0						CAGGCGTCTCCGATGCCATCG	0.507													5	11	---	---	---	---	PASS	T	18899071	T	T	18899071	3	4	4	1	0	0	0	0	1	0	0	0	3724	661	23	1	1392	1	COMP	19	18899071	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	18899071	40229912	3404	3995	165	2								
NDUFA13	51079	broad.mit.edu	37	chr19	19627014	19627014	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcggtggcagtaagtcacttCcgcccgggaccggaagtgtg	16	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:19627014C>T	uc010xqy.1	+	1	475	c.216C>T	c.(214-216)TTC>TTT	p.F72F	TSSK6_uc002nmq.2_5'Flank|TSSK6_uc002nmr.2_5'Flank|NDUFA13_uc002nms.2_Silent_p.F72F|NDUFA13_uc010xqx.1_Silent_p.F72F	NM_015965	NP_057049	Q9P0J0	NDUAD_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	Error:Variant_position_missing_in_Q9P0J0_after_alignment					apoptotic nuclear change|induction of apoptosis by extracellular signals|negative regulation of cell growth|negative regulation of transcription, DNA-dependent|negative regulation of translation|protein import into nucleus|reactive oxygen species metabolic process|respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex I|nucleoplasm	ATP binding|NADH dehydrogenase (ubiquinone) activity|protein binding				0					NADH(DB00157)	TAAGTCACTTCCGCCCGGGAC	0.607													7	14	---	---	---	---	PASS	T	19627014	T	T	19627014	2	4	4	1	0	0	0	0	0	0	0	1	10263	870	30	2		2	NDUFA13	19	19627014	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	727943	19627014	39501969	3405	3996										
CILP2	148113	broad.mit.edu	37	chr19	19654548	19654548	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacctgatcaagctccctgaGgactgtggtcagccaggtag	12	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:19654548G>A	uc002nmv.3	+	8	1279	c.1194G>A	c.(1192-1194)GAG>GAA	p.E398E	CILP2_uc002nmw.3_Silent_p.E404E	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	398						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						AGCTCCCTGAGGACTGTGGTC	0.687													26	49	---	---	---	---	PASS	A	19654548	A	A	19654548	2	1	4	1	0	0	0	0	0	0	0	1	3430	991	35	3		3	CILP2	19	19654548	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	27534	19654548	39474435	3406	3997										
ATP13A1	57130	broad.mit.edu	37	chr19	19762519	19762519	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttctcggagggaggctgcaGgatcagcgtgtgggcctttt	16	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:19762519G>A	uc002nnh.3	-	17	2342	c.2314C>T	c.(2314-2316)CTG>TTG	p.L772L	ATP13A1_uc002nne.2_5'UTR|ATP13A1_uc002nnf.3_Silent_p.L140L|ATP13A1_uc002nng.2_Silent_p.L654L	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	772	Cytoplasmic (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(3)|large_intestine(2)|central_nervous_system(1)	6						GGAGGCTGCAGGATCAGCGTG	0.607													5	19	---	---	---	---	PASS	A	19762519	A	A	19762519	2	1	4	1	0	0	0	0	0	0	0	1	1123	991	35	3		3	ATP13A1	19	19762519	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	107971	19762519	39366464	3407	3998										
ZNF14	7561	broad.mit.edu	37	chr19	19823542	19823542	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctttcatgtctttgaaatGgctggtaatatataaaggct	8	6	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:19823542G>A	uc002nnk.1	-	4	702	c.548C>T	c.(547-549)CCA>CTA	p.P183L		NM_021030	NP_066358	P17017	ZNF14_HUMAN	zinc finger protein 14	183	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Renal(1328;0.0474)				TCTTTGAAATGGCTGGTAATA	0.378													8	30	---	---	---	---	PASS	A	19823542	A	A	19823542	3	1	4	1	0	0	0	0	1	0	0	0	17725	1348	47	3	1384	3	ZNF14	19	19823542	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	61023	19823542	39305441	3408	3999										
ZNF682	91120	broad.mit.edu	37	chr19	20117427	20117427	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtgagatgtgagtgccggTtaaacgctctgccacagtct	13	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:20117427T>G	uc002noq.2	-	4	1007	c.884A>C	c.(883-885)AAC>ACC	p.N295T	ZNF682_uc002noo.2_Missense_Mutation_p.N263T|ZNF682_uc002nop.2_Missense_Mutation_p.N263T|ZNF682_uc010eck.2_Missense_Mutation_p.N219T	NM_033196	NP_149973	O95780	ZN682_HUMAN	zinc finger protein 682 isoform 1	295	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						TGAGTGCCGGTTAAACGCTCT	0.408													13	37	---	---	---	---	PASS	G	20117427	G	G	20117427	3	3	4	1	0	0	0	0	1	0	0	0	18086	1725	60	5	616	5	ZNF682	19	20117427	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	293885	20117427	39011556	3409	4000										
ZNF626	199777	broad.mit.edu	37	chr19	20807957	20807957	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttatgtgtagtaagagtGgaggagtgcttaaaggcttt	13	4	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:20807957G>A	uc002npb.1	-	4	876	c.726C>T	c.(724-726)TCC>TCT	p.S242S	ZNF626_uc002npc.1_Silent_p.S166S	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	242	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TAGTAAGAGTGGAGGAGTGCT	0.393													10	54	---	---	---	---	PASS	A	20807957	A	A	20807957	2	1	4	1	0	0	0	0	0	0	0	1	18047	1335	47	3		3	ZNF626	19	20807957	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	690530	20807957	38321026	3410	4001										
ZNF208	7757	broad.mit.edu	37	chr19	22154265	22154265	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtagagtttctctccagtatGaattaccttatgttttgcaa	7	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:22154265G>A	uc002nqp.2	-	6	3336	c.3187C>T	c.(3187-3189)CAT>TAT	p.H1063Y	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TCTCCAGTATGAATTACCTTA	0.363													12	31	---	---	---	---	PASS	A	22154265	A	A	22154265	3	1	4	1	0	0	0	0	1	0	0	0	17763	1290	45	2	275	2	ZNF208	19	22154265	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1346308	22154265	36974718	3411	4002										
ZNF208	7757	broad.mit.edu	37	chr19	22170068	22170068	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatattccaggactcttttCcttcctccagaaaaatgatc	4	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:22170068C>T	uc002nqp.2	-	3	325	c.176G>A	c.(175-177)GGA>GAA	p.G59E	ZNF208_uc002nqo.1_Missense_Mutation_p.G59E|ZNF208_uc002nqq.2_RNA	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GGACTCTTTTCCTTCCTCCAG	0.413													22	33	---	---	---	---	PASS	T	22170068	T	T	22170068	3	4	4	1	0	0	0	0	1	0	0	0	17763	855	30	2	3674	2	ZNF208	19	22170068	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	15803	22170068	36958915	3412	4003										
ZNF257	113835	broad.mit.edu	37	chr19	22271130	22271130	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaactaactcgacataagaGaattcatattagagagaatt	6	6	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:22271130G>A	uc010ecx.2	+	4	747	c.578G>A	c.(577-579)AGA>AAA	p.R193K	ZNF257_uc010ecy.2_Missense_Mutation_p.R161K	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	193	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				CGACATAAGAGAATTCATATT	0.363													8	19	---	---	---	---	PASS	A	22271130	A	A	22271130	3	1	4	1	0	0	0	0	1	0	0	0	17797	942	33	2	592	2	ZNF257	19	22271130	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	101062	22271130	36857853	3413	4004										
ZNF536	9745	broad.mit.edu	37	chr19	31025885	31025885	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggacatcccatcaccttaagGtgcacctgaggatacacaca	8	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:31025885G>A	uc002nsu.1	+	3	2440	c.2302G>A	c.(2302-2304)GTG>ATG	p.V768M	ZNF536_uc010edd.1_Missense_Mutation_p.V768M	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	768	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TCACCTTAAGGTGCACCTGAG	0.602													11	45	---	---	---	---	PASS	A	31025885	A	A	31025885	3	1	4	1	0	0	0	0	1	0	0	0	17971	1261	44	3	2308	3	ZNF536	19	31025885	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	8754755	31025885	28103098	3414	4005										
TSHZ3	57616	broad.mit.edu	37	chr19	31768608	31768608	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccactcaaactgctggctagGggcttcaccagctccttgcc	9	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:31768608G>A	uc002nsy.3	-	2	2156	c.2091C>T	c.(2089-2091)CCC>CCT	p.P697P		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	697					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TGCTGGCTAGGGGCTTCACCA	0.627													4	18	---	---	---	---	PASS	A	31768608	A	A	31768608	2	1	4	1	0	0	0	0	0	0	0	1	16622	1219	43	3		3	TSHZ3	19	31768608	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	742723	31768608	27360375	3415	4006										
TSHZ3	57616	broad.mit.edu	37	chr19	31768865	31768865	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgacctttttcaccagctCctccatggcatgaaagtttg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:31768865C>T	uc002nsy.3	-	2	1899	c.1834G>A	c.(1834-1836)GAG>AAG	p.E612K		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	612	Potential.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TTCACCAGCTCCTCCATGGCA	0.572													14	41	---	---	---	---	PASS	T	31768865	T	T	31768865	3	4	4	1	0	0	0	0	1	0	0	0	16622	864	30	2	1415	2	TSHZ3	19	31768865	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	257	31768865	27360118	3416	4007	166	2								
TSHZ3	57616	broad.mit.edu	37	chr19	31768866	31768866	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgacctttttcaccagctcCtccatggcatgaaagtttgt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:31768866C>T	uc002nsy.3	-	2	1898	c.1833G>A	c.(1831-1833)GAG>GAA	p.E611E		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	611	Potential.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TCACCAGCTCCTCCATGGCAT	0.572													14	41	---	---	---	---	PASS	T	31768866	T	T	31768866	2	4	4	1	0	0	0	0	0	0	0	1	16622	680	24	3		3	TSHZ3	19	31768866	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	31768866	27360117	3417	4008	166	2								
TSHZ3	57616	broad.mit.edu	37	chr19	31770097	31770097	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatggagccatagagcttgCtgctctgccggtacagctgc	13	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:31770097C>T	uc002nsy.3	-	2	667	c.602G>A	c.(601-603)AGC>AAC	p.S201N		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	201					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					ATAGAGCTTGCTGCTCTGCCG	0.622													6	30	---	---	---	---	PASS	T	31770097	T	T	31770097	3	4	4	1	0	0	0	0	1	0	0	0	16622	797	28	3	2647	3	TSHZ3	19	31770097	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1231	31770097	27358886	3418	4009										
DPY19L3	147991	broad.mit.edu	37	chr19	32899171	32899171	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctgacatcatgatgtccatCcggcaaagaagagaaataag	9	8	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:32899171C>T	uc002ntg.2	+	2	188	c.12C>T	c.(10-12)ATC>ATT	p.I4I	DPY19L3_uc002ntf.2_Silent_p.I4I|DPY19L3_uc002nth.1_Silent_p.I4I	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	4						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					TGATGTCCATCCGGCAAAGAA	0.428													20	42	---	---	---	---	PASS	T	32899171	T	T	32899171	2	4	4	1	0	0	0	0	0	0	0	1	4742	845	30	2		2	DPY19L3	19	32899171	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1129074	32899171	26229812	3419	4010										
DPY19L3	147991	broad.mit.edu	37	chr19	32949041	32949041	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagtcagatgaacacatattTaaatttctgaaggcaaaatt	6	5	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:32949041T>C	uc002ntg.2	+	11	1301	c.1125T>C	c.(1123-1125)TTT>TTC	p.F375F	DPY19L3_uc002nth.1_Silent_p.F375F|DPY19L3_uc002nti.1_RNA	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	375						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					AACACATATTTAAATTTCTGA	0.348													7	17	---	---	---	---	PASS	C	32949041	C	C	32949041	2	2	4	1	0	0	0	0	0	0	0	1	4742	1751	61	5		5	DPY19L3	19	32949041	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	49870	32949041	26179942	3420	4011										
KIAA0355	9710	broad.mit.edu	37	chr19	34818434	34818434	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcctgagcaccagctaaaaGaactgaacataaaaatcgac	6	10	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:34818434G>A	uc002nvd.3	+	4	1673	c.814G>A	c.(814-816)GAA>AAA	p.E272K		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	272										ovary(1)	1	Esophageal squamous(110;0.162)					CCAGCTAAAAGAACTGAACAT	0.408													10	49	---	---	---	---	PASS	A	34818434	A	A	34818434	3	1	4	1	0	0	0	0	1	0	0	0	8170	943	33	2	824	2	KIAA0355	19	34818434	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1869393	34818434	24310549	3421	4012										
GPI	2821	broad.mit.edu	37	chr19	34890524	34890524	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agctcacaccattcatgcttGgagccttggtcggtgagtga	12	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:34890524G>A	uc002nvg.1	+	16	1565	c.1462G>A	c.(1462-1464)GGA>AGA	p.G488R	GPI_uc002nvf.2_Missense_Mutation_p.G527R|GPI_uc010xrv.1_Missense_Mutation_p.G499R|GPI_uc010xrw.1_Missense_Mutation_p.G460R|GPI_uc010edl.1_Intron|GPI_uc002nvi.1_Missense_Mutation_p.G151R	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	488					angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					ATTCATGCTTGGAGCCTTGGT	0.527													15	60	---	---	---	---	PASS	A	34890524	A	A	34890524	3	1	4	1	0	0	0	0	1	0	0	0	6611	1349	47	3	1645	3	GPI	19	34890524	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	72090	34890524	24238459	3422	4013										
ZNF599	148103	broad.mit.edu	37	chr19	35251045	35251045	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atagggcttcactccagcatGaatctgttgatgccgaacaa	9	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:35251045G>A	uc010edn.1	-	4	1049	c.661C>T	c.(661-663)CAT>TAT	p.H221Y	ZNF599_uc010edm.1_Missense_Mutation_p.H184Y	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	221	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			ACTCCAGCATGAATCTGTTGA	0.473													53	92	---	---	---	---	PASS	A	35251045	A	A	35251045	3	1	4	1	0	0	0	0	1	0	0	0	18026	1290	45	2	1109	2	ZNF599	19	35251045	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	360521	35251045	23877938	3423	4014										
ZNF792	126375	broad.mit.edu	37	chr19	35449187	35449187	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgccggtgtgaagtctccgGtggttattgaggctggagct	16	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:35449187G>A	uc002nxh.1	-	4	1959	c.1572C>T	c.(1570-1572)CAC>CAT	p.H524H		NM_175872	NP_787068	Q3KQV3	ZN792_HUMAN	zinc finger protein 792	524	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;4.18e-08)|Lung NSC(56;6.62e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			GAAGTCTCCGGTGGTTATTGA	0.522													5	23	---	---	---	---	PASS	A	35449187	A	A	35449187	2	1	4	1	0	0	0	0	0	0	0	1	18161	1252	44	3		3	ZNF792	19	35449187	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	198142	35449187	23679796	3424	4015										
MAG	4099	broad.mit.edu	37	chr19	35804284	35804284	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctattctcactcggacctggGgaaacggcccaccaaggaca	10	14	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:35804284G>A	uc002nyy.1	+	11	1957	c.1808G>A	c.(1807-1809)GGG>GAG	p.G603E	MAG_uc002nyx.1_3'UTR|MAG_uc010eds.1_Missense_Mutation_p.G578E|MAG_uc002nyz.1_Missense_Mutation_p.G603E	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	603	Cytoplasmic (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			TCGGACCTGGGGAAACGGCCC	0.632													17	27	---	---	---	---	PASS	A	35804284	A	A	35804284	3	1	4	1	0	0	0	0	1	0	0	0	9162	1232	43	3	1879	3	MAG	19	35804284	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	355097	35804284	23324699	3425	4016										
FFAR3	2865	broad.mit.edu	37	chr19	35850282	35850282	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggacatctcccacagccagGgcaccaatgggacctgctac	11	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:35850282G>A	uc002nzd.2	+	2	565	c.490G>A	c.(490-492)GGC>AGC	p.G164S	FFAR3_uc010xsu.1_Intron	NM_005304	NP_005295	O14843	FFAR3_HUMAN	free fatty acid receptor 3	164	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding				0	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;1.29e-19)|OV - Ovarian serous cystadenocarcinoma(14;4.63e-18)|all cancers(14;5.19e-17)|LUSC - Lung squamous cell carcinoma(66;0.0221)			CCACAGCCAGGGCACCAATGG	0.617													9	29	---	---	---	---	PASS	A	35850282	A	A	35850282	3	1	4	1	0	0	0	0	1	0	0	0	5829	1232	43	3	492	3	FFAR3	19	35850282	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	45998	35850282	23278701	3426	4017										
FFAR2	2867	broad.mit.edu	37	chr19	35941492	35941492	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagggctgcaggtgctgcgGaatcagggctcctccctgtt	15	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:35941492G>A	uc002nzg.2	+	2	956	c.876G>A	c.(874-876)CGG>CGA	p.R292R	FFAR2_uc010eea.2_Silent_p.R292R	NM_005306	NP_005297	O15552	FFAR2_HUMAN	free fatty acid receptor 2	292	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			AGGTGCTGCGGAATCAGGGCT	0.577													15	45	---	---	---	---	PASS	A	35941492	A	A	35941492	2	1	4	1	0	0	0	0	0	0	0	1	5828	1161	41	2		2	FFAR2	19	35941492	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	91210	35941492	23187491	3427	4018										
ATP4A	495	broad.mit.edu	37	chr19	36051371	36051371	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagactcccctgtcagcgaGgagttgtccaccttgcagcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:36051371G>A	uc002oal.1	-	6	710	c.681C>T	c.(679-681)TCC>TCT	p.S227S	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	227	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	CTGTCAGCGAGGAGTTGTCCA	0.647													15	21	---	---	---	---	PASS	A	36051371	A	A	36051371	2	1	4	1	0	0	0	0	0	0	0	1	1145	987	35	3		3	ATP4A	19	36051371	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	109879	36051371	23077612	3428	4019	167	2								
ATP4A	495	broad.mit.edu	37	chr19	36051372	36051372	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagactcccctgtcagcgagGagttgtccaccttgcagccc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:36051372G>A	uc002oal.1	-	6	709	c.680C>T	c.(679-681)TCC>TTC	p.S227F	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	227	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	TGTCAGCGAGGAGTTGTCCAC	0.647													15	21	---	---	---	---	PASS	A	36051372	A	A	36051372	3	1	4	1	0	0	0	0	1	0	0	0	1145	1174	41	2	2495	2	ATP4A	19	36051372	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	36051372	23077611	3429	4020	167	2								
ARHGAP33	115703	broad.mit.edu	37	chr19	36278103	36278103	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcaccactgccaccccctcCcctgtctctcctgcgccctg	6	23	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:36278103C>T	uc002obs.1	+	21	2238	c.2153C>T	c.(2152-2154)CCC>CTC	p.P718L	ARHGAP33_uc002obt.1_Missense_Mutation_p.P743L|ARHGAP33_uc010eel.2_Missense_Mutation_p.P467L|ARHGAP33_uc002obv.1_Missense_Mutation_p.P467L	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	766					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						CCACCCCCTCCCCTGTCTCTC	0.667													14	16	---	---	---	---	PASS	T	36278103	T	T	36278103	3	4	4	1	0	0	0	0	1	0	0	0	882	623	22	3	2718	3	ARHGAP33	19	36278103	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	226731	36278103	22850880	3430	4021										
PRODH2	58510	broad.mit.edu	37	chr19	36302948	36302948	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgacccacgaggctagctcCttctgaaatggggtggtagg	14	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:36302948C>T	uc002obx.1	-	5	759	c.741G>A	c.(739-741)AAG>AAA	p.K247K		NM_021232	NP_067055	Q9UF12	PROD2_HUMAN	kidney and liver proline oxidase 1	247					glutamate biosynthetic process|proline catabolic process		proline dehydrogenase activity			ovary(2)	2	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGGCTAGCTCCTTCTGAAATG	0.642													4	16	---	---	---	---	PASS	T	36302948	T	T	36302948	2	4	4	1	0	0	0	0	0	0	0	1	12549	680	24	3		3	PRODH2	19	36302948	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	24845	36302948	22826035	3431	4022										
KIRREL2	84063	broad.mit.edu	37	chr19	36351482	36351482	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaggttagaggtcgtggcaGacgcctcgttcctgactgag	14	10	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:36351482G>A	uc002ocb.3	+	7	1053	c.841G>A	c.(841-843)GAC>AAC	p.D281N	KIRREL2_uc002obz.3_Missense_Mutation_p.D281N|KIRREL2_uc002oca.3_Missense_Mutation_p.D231N|KIRREL2_uc002occ.3_Missense_Mutation_p.D228N|KIRREL2_uc002ocd.3_Missense_Mutation_p.D278N	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	281	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGTCGTGGCAGACGCCTCGTT	0.657													9	29	---	---	---	---	PASS	A	36351482	A	A	36351482	3	1	4	1	0	0	0	0	1	0	0	0	8325	942	33	2	867	2	KIRREL2	19	36351482	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	48534	36351482	22777501	3432	4023										
ZFP82	284406	broad.mit.edu	37	chr19	36884093	36884093	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagtatgaattctgtgatgGagaataagatgataaccacg	10	6	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:36884093G>A	uc002ody.1	-	5	1384	c.1149C>T	c.(1147-1149)CTC>CTT	p.L383L		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	383	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						TTCTGTGATGGAGAATAAGAT	0.383													18	56	---	---	---	---	PASS	A	36884093	A	A	36884093	2	1	4	1	0	0	0	0	0	0	0	1	17650	1161	41	2		2	ZFP82	19	36884093	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	532611	36884093	22244890	3433	4024										
ZNF567	163081	broad.mit.edu	37	chr19	37210388	37210388	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatattgaaaaaaaacatacAtgcaatgaatgtgggaaatc	7	4	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:37210388A>T	uc010xtl.1	+	6	984	c.762A>T	c.(760-762)ACA>ACT	p.T254T	ZNF567_uc002oeo.1_Silent_p.T254T|ZNF567_uc010xtk.1_Silent_p.T254T|ZNF567_uc002oep.3_Silent_p.T223T|ZNF567_uc002oeq.1_Silent_p.T223T	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	254	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AAAAACATACATGCAATGAAT	0.353													12	16	---	---	---	---	PASS	T	37210388	T	T	37210388	2	4	4	1	0	0	0	0	0	0	0	1	17995	204	8	5		5	ZNF567	19	37210388	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	326295	37210388	21918595	3434	4025										
ZNF829	374899	broad.mit.edu	37	chr19	37399311	37399311	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgatcagcgtccaggcattcCcattcctcttgagagaagtc	9	12	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:37399311C>T	uc002ofa.1	-	4	509	c.147G>A	c.(145-147)TGG>TGA	p.W49*	ZNF345_uc002oez.2_Intron|ZNF829_uc002ofb.2_Nonsense_Mutation_p.W49*	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	49	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CCAGGCATTCCCATTCCTCTT	0.413													17	64	---	---	---	---	PASS	T	37399311	T	T	37399311	4	4	4	1	0	0	0	0	0	1	0	0	18179	624	22	3	1163	3	ZNF829	19	37399311	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	188923	37399311	21729672	3435	4026										
ZNF781	163115	broad.mit.edu	37	chr19	38160681	38160681	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaacagaagcaaaggccttCcaacattgcttacatttata	6	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:38160681C>T	uc002ogy.2	-	4	1111	c.369G>A	c.(367-369)TGG>TGA	p.W123*	ZNF781_uc002ogz.2_Nonsense_Mutation_p.W118*	NM_152605	NP_689818	Q8N8C0	ZN781_HUMAN	zinc finger protein 781	123	C2H2-type 4; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CAAAGGCCTTCCAACATTGCT	0.378													19	30	---	---	---	---	PASS	T	38160681	T	T	38160681	4	4	4	1	0	0	0	0	0	1	0	0	18151	856	30	2	618	2	ZNF781	19	38160681	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	761370	38160681	20968302	3436	4027										
FAM98C	147965	broad.mit.edu	37	chr19	38896178	38896178	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaagcgttggagtctctgtCccaaagcctcagagatcagt	12	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:38896178C>T	uc002oin.1	+	6	672	c.653C>T	c.(652-654)TCC>TTC	p.S218F	FAM98C_uc002oio.1_Missense_Mutation_p.S192F|FAM98C_uc010xtz.1_Intron	NM_174905	NP_777565	Q17RN3	FA98C_HUMAN	hypothetical protein LOC147965	218										skin(1)	1	all_cancers(60;3.95e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GAGTCTCTGTCCCAAAGCCTC	0.577													8	51	---	---	---	---	PASS	T	38896178	T	T	38896178	3	4	4	1	0	0	0	0	1	0	0	0	5658	855	30	2	675	2	FAM98C	19	38896178	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	735497	38896178	20232805	3437	4028										
RYR1	6261	broad.mit.edu	37	chr19	38937382	38937382	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcactcatgcccgctccctCtggaggctggagccactgag	12	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:38937382C>T	uc002oit.2	+	9	904	c.774C>T	c.(772-774)CTC>CTT	p.L258L	RYR1_uc002oiu.2_Silent_p.L258L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	258	MIR 3.|Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CCCGCTCCCTCTGGAGGCTGG	0.602													5	15	---	---	---	---	PASS	T	38937382	T	T	38937382	2	4	4	1	0	0	0	0	0	0	0	1	13768	900	32	2		2	RYR1	19	38937382	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	41204	38937382	20191601	3438	4029										
RYR1	6261	broad.mit.edu	37	chr19	38990384	38990384	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctcagggctgctggctgcCatcgaagaggccatccgcat	14	13	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:38990384C>T	uc002oit.2	+	44	7267	c.7137C>T	c.(7135-7137)GCC>GCT	p.A2379A	RYR1_uc002oiu.2_Silent_p.A2379A|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2379	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TGCTGGCTGCCATCGAAGAGG	0.697													3	4	---	---	---	---	PASS	T	38990384	T	T	38990384	2	4	4	1	0	0	0	0	0	0	0	1	13768	581	21	3		3	RYR1	19	38990384	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	53002	38990384	20138599	3439	4030										
RYR1	6261	broad.mit.edu	37	chr19	39076791	39076791	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atacgacaccgcatggcttcGagactcacacgctggaggag	12	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:39076791G>A	uc002oit.2	+	104	15059	c.14929G>A	c.(14929-14931)GAG>AAG	p.E4977K	RYR1_uc002oiu.2_Missense_Mutation_p.E4972K	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4977					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GCATGGCTTCGAGACTCACAC	0.557													7	17	---	---	---	---	PASS	A	39076791	A	A	39076791	3	1	4	1	0	0	0	0	1	0	0	0	13768	1059	37	2	15343	2	RYR1	19	39076791	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	86407	39076791	20052192	3440	4031										
ACTN4	81	broad.mit.edu	37	chr19	39196706	39196706	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctcggccaaggaagggctCcttctctggtgccagagaaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:39196706C>T	uc002oja.1	+	5	566	c.507C>T	c.(505-507)CTC>CTT	p.L169L	ACTN4_uc010egc.1_Silent_p.L169L	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	169	Actin-binding.|CH 2.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			AGGAAGGGCTCCTTCTCTGGT	0.512													4	23	---	---	---	---	PASS	T	39196706	T	T	39196706	2	4	4	1	0	0	0	0	0	0	0	1	207	842	30	2		2	ACTN4	19	39196706	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	119915	39196706	19932277	3441	4032	168	2								
ACTN4	81	broad.mit.edu	37	chr19	39196707	39196707	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctcggccaaggaagggctcCttctctggtgccagagaaag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:39196707C>T	uc002oja.1	+	5	567	c.508C>T	c.(508-510)CTT>TTT	p.L170F	ACTN4_uc010egc.1_Missense_Mutation_p.L170F	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	170	Actin-binding.|CH 2.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GGAAGGGCTCCTTCTCTGGTG	0.507													4	24	---	---	---	---	PASS	T	39196707	T	T	39196707	3	4	4	1	0	0	0	0	1	0	0	0	207	681	24	3	526	3	ACTN4	19	39196707	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	39196707	19932276	3442	4033	168	2								
LGALS4	3960	broad.mit.edu	37	chr19	39292471	39292471	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtccaccctctggaaggccGagaggcgatgggcaaagtca	14	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:39292471G>A	uc002ojg.2	-	10	1119	c.905C>T	c.(904-906)TCG>TTG	p.S302L		NM_006149	NP_006140	P56470	LEG4_HUMAN	galectin-4	302	Galectin 2.				cell adhesion	cytosol|plasma membrane	sugar binding			ovary(1)|skin(1)	2	all_cancers(60;1.02e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			CTGGAAGGCCGAGAGGCGATG	0.532													19	54	---	---	---	---	PASS	A	39292471	A	A	39292471	3	1	4	1	0	0	0	0	1	0	0	0	8745	1059	37	2	70	2	LGALS4	19	39292471	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	95764	39292471	19836512	3443	4034										
LGALS4	3960	broad.mit.edu	37	chr19	39292733	39292733	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccggaccacggtaccgttgcCcatgcggggattaatgtgca	13	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:39292733C>T	uc002ojg.2	-	9	938	c.724G>A	c.(724-726)GGC>AGC	p.G242S		NM_006149	NP_006140	P56470	LEG4_HUMAN	galectin-4	242	Galectin 2.				cell adhesion	cytosol|plasma membrane	sugar binding			ovary(1)|skin(1)	2	all_cancers(60;1.02e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			GTACCGTTGCCCATGCGGGGA	0.557													8	27	---	---	---	---	PASS	T	39292733	T	T	39292733	3	4	4	1	0	0	0	0	1	0	0	0	8745	623	22	3	255	3	LGALS4	19	39292733	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	262	39292733	19836250	3444	4035										
HNRNPL	3191	broad.mit.edu	37	chr19	39330769	39330769	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatataagcagaagacattGaagactcggtcacagttcat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:39330769G>A	uc010xul.1	-	8	1211	c.1200C>T	c.(1198-1200)TTC>TTT	p.F400F	HNRNPL_uc010ege.1_Silent_p.F56F|HNRNPL_uc002ojj.1_Silent_p.F56F|HNRNPL_uc002ojo.1_5'Flank|HNRNPL_uc002ojk.2_Silent_p.F56F|HNRNPL_uc002ojl.2_Silent_p.F56F|HNRNPL_uc010xum.1_Silent_p.F267F|HNRNPL_uc002ojp.1_Silent_p.F56F|HNRNPL_uc010xun.1_3'UTR	NM_001533	NP_001524	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	400	RRM 3.				nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			AGAAGACATTGAAGACTCGGT	0.577													11	34	---	---	---	---	PASS	A	39330769	A	A	39330769	2	1	4	1	0	0	0	0	0	0	0	1	7270	1281	45	2		2	HNRNPL	19	39330769	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	38036	39330769	19798214	3445	4036	169	2								
HNRNPL	3191	broad.mit.edu	37	chr19	39330771	39330771	+	Missense_Mutation	SNP	A	G	G													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atataagcagaagacattgaAgactcggtcacagttcatct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:39330771A>G	uc010xul.1	-	8	1209	c.1198T>C	c.(1198-1200)TTC>CTC	p.F400L	HNRNPL_uc010ege.1_Missense_Mutation_p.F56L|HNRNPL_uc002ojj.1_Missense_Mutation_p.F56L|HNRNPL_uc002ojo.1_5'Flank|HNRNPL_uc002ojk.2_Missense_Mutation_p.F56L|HNRNPL_uc002ojl.2_Missense_Mutation_p.F56L|HNRNPL_uc010xum.1_Missense_Mutation_p.F267L|HNRNPL_uc002ojp.1_Missense_Mutation_p.F56L|HNRNPL_uc010xun.1_3'UTR	NM_001533	NP_001524	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	400	RRM 3.				nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			AAGACATTGAAGACTCGGTCA	0.582													11	30	---	---	---	---	PASS	G	39330771	G	G	39330771	3	3	4	1	0	0	0	0	1	0	0	0	7270	72	3	5	595	5	HNRNPL	19	39330771	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2	39330771	19798212	3446	4037	169	2								
FCGBP	8857	broad.mit.edu	37	chr19	40362803	40362803	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgccaggctgcggcacagGaaggctttgtcacccttttg	13	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:40362803G>A	uc002omp.3	-	32	15275	c.15267C>T	c.(15265-15267)TTC>TTT	p.F5089F		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	5089						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			TGCGGCACAGGAAGGCTTTGT	0.657													15	68	---	---	---	---	PASS	A	40362803	A	A	40362803	2	1	4	1	0	0	0	0	0	0	0	1	5778	1165	41	2		2	FCGBP	19	40362803	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1032032	40362803	18766180	3447	4038										
FCGBP	8857	broad.mit.edu	37	chr19	40433636	40433636	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctactagctgtgacctttgaCcccgagagatccactgagct	9	13	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:40433636C>T	uc002omp.3	-	2	641	c.633G>A	c.(631-633)GGG>GGA	p.G211G		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	211	IgGFc-binding.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			TGACCTTTGACCCCGAGAGAT	0.547													13	24	---	---	---	---	PASS	T	40433636	T	T	40433636	2	4	4	1	0	0	0	0	0	0	0	1	5778	494	18	3		3	FCGBP	19	40433636	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	70833	40433636	18695347	3448	4039										
ZNF780A	284323	broad.mit.edu	37	chr19	40581066	40581066	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgaataaggtgtgcaccaCgattaaagcctttcccacac	8	12	0	1	rs144919039	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:40581066C>T	uc002omy.2	-	6	1508	c.1283G>A	c.(1282-1284)CGT>CAT	p.R428H	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.R428H|ZNF780A_uc010xvh.1_Missense_Mutation_p.R429H	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	428	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					GTGTGCACCACGATTAAAGCC	0.383													32	128	---	---	---	---	PASS	T	40581066	T	T	40581066	3	4	4	1	0	0	0	0	1	0	0	0	18149	536	19	1	773	1	ZNF780A	19	40581066	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	147430	40581066	18547917	3449	4040										
C19orf47	126526	broad.mit.edu	37	chr19	40828027	40828027	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgactttagacaaggactccGgcttcctctcaagcccagac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:40828027G>A	uc002oni.3	-	9	1032	c.1031C>T	c.(1030-1032)CCG>CTG	p.P344L	C19orf47_uc002ong.2_Missense_Mutation_p.P203L|C19orf47_uc002onh.2_Missense_Mutation_p.P277L	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526	344										ovary(1)|skin(1)	2			Lung(22;0.000636)			CAAGGACTCCGGCTTCCTCTC	0.617													5	26	---	---	---	---	PASS	A	40828027	A	A	40828027	3	1	4	1	0	0	0	0	1	0	0	0	1930	1116	39	1	241	1	C19orf47	19	40828027	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	246961	40828027	18300956	3450	4041	170	2								
C19orf47	126526	broad.mit.edu	37	chr19	40828028	40828028	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gactttagacaaggactccgGcttcctctcaagcccagacc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:40828028G>A	uc002oni.3	-	9	1031	c.1030C>T	c.(1030-1032)CCG>TCG	p.P344S	C19orf47_uc002ong.2_Missense_Mutation_p.P203S|C19orf47_uc002onh.2_Missense_Mutation_p.P277S	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526	344										ovary(1)|skin(1)	2			Lung(22;0.000636)			AAGGACTCCGGCTTCCTCTCA	0.612													5	26	---	---	---	---	PASS	A	40828028	A	A	40828028	3	1	4	1	0	0	0	0	1	0	0	0	1930	1203	42	3	242	3	C19orf47	19	40828028	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	40828028	18300955	3451	4042	170	2								
CYP2B6	1555	broad.mit.edu	37	chr19	41510013	41510013	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcccttgtggacaaggctgaGgccttctctggccggggaaa	15	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:41510013G>C	uc002opr.1	+	2	286	c.279G>C	c.(277-279)GAG>GAC	p.E93D	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Missense_Mutation_p.E53D	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	93					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	ACAAGGCTGAGGCCTTCTCTG	0.617													9	47	---	---	---	---	PASS	C	41510013	C	C	41510013	3	2	4	1	0	0	0	0	1	0	0	0	4164	991	35	4	285	4	CYP2B6	19	41510013	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	681985	41510013	17618970	3452	4043										
CYP2B6	1555	broad.mit.edu	37	chr19	41515196	41515196	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagtttacaaaaacctgcagGaaatcaatgcttacattggc	7	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:41515196G>A	uc002opr.1	+	5	725	c.718G>A	c.(718-720)GAA>AAA	p.E240K	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Intron	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	240					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	AAACCTGCAGGAAATCAATGC	0.517													16	73	---	---	---	---	PASS	A	41515196	A	A	41515196	3	1	4	1	0	0	0	0	1	0	0	0	4164	1175	41	2	736	2	CYP2B6	19	41515196	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5183	41515196	17613787	3453	4044										
CEACAM7	1087	broad.mit.edu	37	chr19	42187819	42187819	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgtggcgctgagtagaacGagggtcctgttgtcagtgga	16	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:42187819G>A	uc002ori.1	-	3	605	c.603C>T	c.(601-603)CTC>CTT	p.L201L	CEACAM7_uc010ehx.2_Silent_p.L201L|CEACAM7_uc010ehy.1_Intron	NM_006890	NP_008821	Q14002	CEAM7_HUMAN	carcinoembryonic antigen-related cell adhesion	201	Ig-like C2-type.					anchored to membrane|integral to membrane|plasma membrane				ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.0027)|all cancers(3;0.00979)|Epithelial(262;0.0366)		TGAGTAGAACGAGGGTCCTGT	0.537													31	85	---	---	---	---	PASS	A	42187819	A	A	42187819	2	1	4	1	0	0	0	0	0	0	0	1	3197	1045	37	2		2	CEACAM7	19	42187819	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	672623	42187819	16941164	3454	4045										
CEACAM7	1087	broad.mit.edu	37	chr19	42191133	42191133	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggcactgtttggcaggttCcagaaggttaaaagcgaggc	15	7	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:42191133C>T	uc002ori.1	-	2	86	c.84G>A	c.(82-84)TGG>TGA	p.W28*	CEACAM7_uc010ehx.2_Nonsense_Mutation_p.W28*|CEACAM7_uc010ehy.1_Nonsense_Mutation_p.W28*	NM_006890	NP_008821	Q14002	CEAM7_HUMAN	carcinoembryonic antigen-related cell adhesion	28						anchored to membrane|integral to membrane|plasma membrane				ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.0027)|all cancers(3;0.00979)|Epithelial(262;0.0366)		TTGGCAGGTTCCAGAAGGTTA	0.507													39	38	---	---	---	---	PASS	T	42191133	T	T	42191133	4	4	4	1	0	0	0	0	0	1	0	0	3197	856	30	2	725	2	CEACAM7	19	42191133	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3314	42191133	16937850	3455	4046										
CEACAM3	1084	broad.mit.edu	37	chr19	42301575	42301575	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgccaagctcactattgaatCcatgccgctcagtgtcgcag	9	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:42301575C>T	uc002orn.1	+	2	195	c.119C>T	c.(118-120)TCC>TTC	p.S40F	CEACAM3_uc010eia.1_Missense_Mutation_p.S40F|CEACAM3_uc002oro.1_RNA	NM_001815	NP_001806	P40198	CEAM3_HUMAN	carcinoembryonic antigen-related cell adhesion	40	Ig-like V-type.|Extracellular (Potential).					integral to membrane				skin(1)	1						ACTATTGAATCCATGCCGCTC	0.517													40	60	---	---	---	---	PASS	T	42301575	T	T	42301575	3	4	4	1	0	0	0	0	1	0	0	0	3193	855	30	2	125	2	CEACAM3	19	42301575	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	110442	42301575	16827408	3456	4047										
DMRTC2	63946	broad.mit.edu	37	chr19	42355712	42355712	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttcgacccagcccagcccCctctgttgctctgcatattg	7	17	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:42355712C>T	uc002ors.2	+	9	1135	c.1052C>T	c.(1051-1053)CCC>CTC	p.P351L	DMRTC2_uc002orr.1_3'UTR|DMRTC2_uc010xwe.1_Missense_Mutation_p.P402L	NM_001040283	NP_001035373	Q8IXT2	DMRTD_HUMAN	DMRT-like family C2	351	Pro-rich.				cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0						AGCCCAGCCCCCTCTGTTGCT	0.597													5	31	---	---	---	---	PASS	T	42355712	T	T	42355712	3	4	4	1	0	0	0	0	1	0	0	0	4591	623	22	3	1082	3	DMRTC2	19	42355712	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	54137	42355712	16773271	3457	4048										
GRIK5	2901	broad.mit.edu	37	chr19	42563519	42563519	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accttacggaggatgaggtgGgagatggaggcgttggcgtc	19	6	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:42563519G>A	uc002osj.1	-	5	704	c.669C>T	c.(667-669)TCC>TCT	p.S223S	GRIK5_uc010eib.1_Silent_p.S142S	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	223	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	GGATGAGGTGGGAGATGGAGG	0.587													16	36	---	---	---	---	PASS	A	42563519	A	A	42563519	2	1	4	1	0	0	0	0	0	0	0	1	6777	1219	43	3		3	GRIK5	19	42563519	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	207807	42563519	16565464	3458	4049										
ZNF526	116115	broad.mit.edu	37	chr19	42729860	42729860	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccacccctccaccaccaccCcctgccccacctgcccagct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:42729860C>T	uc002osz.1	+	3	1461	c.1305C>T	c.(1303-1305)CCC>CCT	p.P435P		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	435	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				CACCACCACCCCCTGCCCCAC	0.706													3	5	---	---	---	---	PASS	T	42729860	T	T	42729860	2	4	4	1	0	0	0	0	0	0	0	1	17964	610	22	3		3	ZNF526	19	42729860	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	166341	42729860	16399123	3459	4050	171	2								
ZNF526	116115	broad.mit.edu	37	chr19	42729861	42729861	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccacccctccaccaccacccCctgccccacctgcccagctg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:42729861C>T	uc002osz.1	+	3	1462	c.1306C>T	c.(1306-1308)CCT>TCT	p.P436S		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	436	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				ACCACCACCCCCTGCCCCACC	0.706													3	5	---	---	---	---	PASS	T	42729861	T	T	42729861	3	4	4	1	0	0	0	0	1	0	0	0	17964	623	22	3	1308	3	ZNF526	19	42729861	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	42729861	16399122	3460	4051	171	2								
TMEM145	284339	broad.mit.edu	37	chr19	42824508	42824508	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggccctgattgccaatttCggcatccccaagtgggcccg	11	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:42824508C>T	uc002otk.1	+	13	1165	c.1113C>T	c.(1111-1113)TTC>TTT	p.F371F		NM_173633	NP_775904	Q8NBT3	TM145_HUMAN	transmembrane protein 145	371						integral to membrane					0		Prostate(69;0.00682)				TTGCCAATTTCGGCATCCCCA	0.562													10	42	---	---	---	---	PASS	T	42824508	T	T	42824508	2	4	4	1	0	0	0	0	0	0	0	1	16056	883	31	2		2	TMEM145	19	42824508	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	94647	42824508	16304475	3461	4052										
IRGC	56269	broad.mit.edu	37	chr19	44222962	44222962	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggccgaggaccctggcgcGgctctcacgggcgtcatgga	17	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:44222962G>A	uc002oxh.2	+	2	399	c.252G>A	c.(250-252)GCG>GCA	p.A84A		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	84						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				ACCCTGGCGCGGCTCTCACGG	0.682													4	20	---	---	---	---	PASS	A	44222962	A	A	44222962	2	1	4	1	0	0	0	0	0	0	0	1	7838	1103	39	1		1	IRGC	19	44222962	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1398454	44222962	14906021	3462	4053										
KCNN4	3783	broad.mit.edu	37	chr19	44271811	44271811	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aatctgtttctccagggcccGgtgtgagctgctcagattct	11	11	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:44271811G>A	uc002oxl.2	-	8	1564	c.1168C>T	c.(1168-1170)CGG>TGG	p.R390W	KCNN4_uc010eiz.2_Missense_Mutation_p.R314W	NM_002250	NP_002241	O15554	KCNN4_HUMAN	intermediate conductance calcium-activated	390					defense response	voltage-gated potassium channel complex	calcium-activated potassium channel activity|calmodulin binding			ovary(2)	2		Prostate(69;0.0352)			Clotrimazole(DB00257)|Halothane(DB01159)|Quinine(DB00468)	TCCAGGGCCCGGTGTGAGCTG	0.622													7	36	---	---	---	---	PASS	A	44271811	A	A	44271811	3	1	4	1	0	0	0	0	1	0	0	0	8081	1115	39	1	119	1	KCNN4	19	44271811	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	48849	44271811	14857172	3463	4054										
ZNF404	342908	broad.mit.edu	37	chr19	44378083	44378083	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctctgttgtctcccaaattCaattgtgtactgtgggtcag	9	9	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:44378083C>T	uc002oxs.3	-	2	283	c.274G>A	c.(274-276)GAA>AAA	p.E92K		NM_001033719	NP_001028891	Q494X3	ZN404_HUMAN	zinc finger protein 404	95					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				CTCCCAAATTCAATTGTGTAC	0.338													44	66	---	---	---	---	PASS	T	44378083	T	T	44378083	3	4	4	1	0	0	0	0	1	0	0	0	17883	835	29	2	1379	2	ZNF404	19	44378083	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	106272	44378083	14750900	3464	4055										
ZNF221	7638	broad.mit.edu	37	chr19	44470564	44470564	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcaagaacatcagagaatcCatactggggagaagccattc	9	9	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:44470564C>T	uc002oxx.2	+	6	1238	c.910C>T	c.(910-912)CAT>TAT	p.H304Y	ZNF221_uc010ejb.1_Missense_Mutation_p.H304Y|ZNF221_uc010xws.1_Missense_Mutation_p.H304Y	NM_013359	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	304	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Prostate(69;0.0352)				TCAGAGAATCCATACTGGGGA	0.403													22	95	---	---	---	---	PASS	T	44470564	T	T	44470564	3	4	4	1	0	0	0	0	1	0	0	0	17772	594	21	3	924	3	ZNF221	19	44470564	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	92481	44470564	14658419	3465	4056										
ZNF221	7638	broad.mit.edu	37	chr19	44471222	44471222	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcagagttcacaacttcattCccatcagacatgccatactg	5	13	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:44471222C>T	uc002oxx.2	+	6	1896	c.1568C>T	c.(1567-1569)TCC>TTC	p.S523F	ZNF221_uc010ejb.1_Missense_Mutation_p.S523F|ZNF221_uc010xws.1_Missense_Mutation_p.S523F	NM_013359	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	523	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Prostate(69;0.0352)				CAACTTCATTCCCATCAGACA	0.428													9	50	---	---	---	---	PASS	T	44471222	T	T	44471222	3	4	4	1	0	0	0	0	1	0	0	0	17772	855	30	2	1582	2	ZNF221	19	44471222	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	658	44471222	14657761	3466	4057										
PVR	5817	broad.mit.edu	37	chr19	45153245	45153245	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtgccagggttcctgtctGgcacagtcactgtcaccagc	12	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:45153245G>C	uc002ozm.2	+	3	891	c.592G>C	c.(592-594)GGC>CGC	p.G198R	PVR_uc010ejs.2_Missense_Mutation_p.G198R|PVR_uc010xxb.1_Missense_Mutation_p.G198R|PVR_uc010xxc.1_Missense_Mutation_p.G198R|PVR_uc002ozn.2_Missense_Mutation_p.G143R	NM_006505	NP_006496	P15151	PVR_HUMAN	poliovirus receptor isoform alpha	198	Extracellular (Potential).|Ig-like C2-type 1.				adherens junction organization|cell adhesion|cell junction assembly|interspecies interaction between organisms|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|susceptibility to natural killer cell mediated cytotoxicity|susceptibility to T cell mediated cytotoxicity	cell junction|cell surface|cytoplasm|extracellular space|integral to membrane|nucleus	cell adhesion molecule binding|receptor activity				0	Lung NSC(12;0.00608)|all_lung(12;0.0148)	Medulloblastoma(540;0.0425)|Ovarian(192;0.0728)|Prostate(69;0.081)|all_neural(266;0.112)		Epithelial(262;0.000601)		GTTCCTGTCTGGCACAGTCAC	0.622													10	14	---	---	---	---	PASS	C	45153245	C	C	45153245	3	2	4	1	0	0	0	0	1	0	0	0	12837	1348	47	4	602	4	PVR	19	45153245	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	682023	45153245	13975738	3467	4058										
EXOC3L2	90332	broad.mit.edu	37	chr19	45716584	45716584	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctgtgttgcgcaggccacGgatgtcgaggagggctgcca	18	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:45716584G>A	uc002pay.1	-	10	1014	c.973C>T	c.(973-975)CGT>TGT	p.R325C		NM_138568	NP_612635	Q2M3D2	EX3L2_HUMAN	exocyst complex component 3-like 2	325										ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00883)		CGCAGGCCACGGATGTCGAGG	0.672													8	9	---	---	---	---	PASS	A	45716584	A	A	45716584	3	1	4	1	0	0	0	0	1	0	0	0	5305	1116	39	1	260	1	EXOC3L2	19	45716584	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	563339	45716584	13412399	3468	4059										
VASP	7408	broad.mit.edu	37	chr19	46021010	46021010	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgctggcacgggtccccaggCcttcagccgcgtccagatct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:46021010C>T	uc002pcg.2	+	2	437	c.95C>T	c.(94-96)GCC>GTC	p.A32V	VASP_uc010eki.2_Missense_Mutation_p.P16S|VASP_uc002pci.2_Missense_Mutation_p.A19V	NM_003370	NP_003361	P50552	VASP_HUMAN	vasodilator-stimulated phosphoprotein	32	WH1.				axon guidance|cell junction assembly|T cell receptor signaling pathway	actin cytoskeleton|cytosol|filopodium membrane|focal adhesion|lamellipodium membrane	actin binding|profilin binding|SH3 domain binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0145)|GBM - Glioblastoma multiforme(486;0.154)		GGTCCCCAGGCCTTCAGCCGC	0.647													14	23	---	---	---	---	PASS	T	46021010	T	T	46021010	3	4	4	1	0	0	0	0	1	0	0	0	17125	739	26	3	101	3	VASP	19	46021010	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	304426	46021010	13107973	3469	4060	172	2								
VASP	7408	broad.mit.edu	37	chr19	46021011	46021011	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctggcacgggtccccaggcCttcagccgcgtccagatcta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:46021011C>T	uc002pcg.2	+	2	438	c.96C>T	c.(94-96)GCC>GCT	p.A32A	VASP_uc010eki.2_Missense_Mutation_p.P16L|VASP_uc002pci.2_Silent_p.A19A	NM_003370	NP_003361	P50552	VASP_HUMAN	vasodilator-stimulated phosphoprotein	32	WH1.				axon guidance|cell junction assembly|T cell receptor signaling pathway	actin cytoskeleton|cytosol|filopodium membrane|focal adhesion|lamellipodium membrane	actin binding|profilin binding|SH3 domain binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0145)|GBM - Glioblastoma multiforme(486;0.154)		GTCCCCAGGCCTTCAGCCGCG	0.647													13	22	---	---	---	---	PASS	T	46021011	T	T	46021011	2	4	4	1	0	0	0	0	0	0	0	1	17125	668	24	3		3	VASP	19	46021011	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	46021011	13107972	3470	4061	172	2								
RSPH6A	81492	broad.mit.edu	37	chr19	46307946	46307946	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgggcggcggcttccatacgGacttagggacgatgtccacg	15	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:46307946G>A	uc002pdm.2	-	3	1360	c.1217C>T	c.(1216-1218)TCC>TTC	p.S406F	RSPH6A_uc002pdl.2_Missense_Mutation_p.S142F	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	406						intracellular				ovary(1)|central_nervous_system(1)	2						CTTCCATACGGACTTAGGGAC	0.448													4	14	---	---	---	---	PASS	A	46307946	A	A	46307946	3	1	4	1	0	0	0	0	1	0	0	0	13707	1174	41	2	952	2	RSPH6A	19	46307946	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	286935	46307946	12821037	3471	4062										
SYMPK	8189	broad.mit.edu	37	chr19	46355740	46355740	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttctgtcagtcactcacAtccaggaagttgtccagtag	8	12	5	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:46355740A>T	uc002pdn.2	-	4	470	c.225T>A	c.(223-225)GAT>GAA	p.D75E	SYMPK_uc002pdo.1_Missense_Mutation_p.D75E|SYMPK_uc002pdp.1_Missense_Mutation_p.D75E|SYMPK_uc002pdq.1_Missense_Mutation_p.D75E	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	75	Interaction with HSF1.				cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		AGTCACTCACATCCAGGAAGT	0.507													24	31	---	---	---	---	PASS	T	46355740	T	T	46355740	3	4	4	1	0	0	0	0	1	0	0	0	15436	231	8	5	3695	5	SYMPK	19	46355740	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	47794	46355740	12773243	3472	4063										
IRF2BP1	26145	broad.mit.edu	37	chr19	46388122	46388122	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagaagccagtgccttgcccGgctcccgcagagcatcgtgg	13	14	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:46388122G>A	uc002pds.1	-	1	1255	c.911C>T	c.(910-912)CCG>CTG	p.P304L		NM_015649	NP_056464	Q8IU81	I2BP1_HUMAN	interferon regulatory factor 2 binding protein	304					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00442)|GBM - Glioblastoma multiforme(486;0.0402)|Epithelial(262;0.231)		TGCCTTGCCCGGCTCCCGCAG	0.617													5	14	---	---	---	---	PASS	A	46388122	A	A	46388122	3	1	4	1	0	0	0	0	1	0	0	0	7829	1116	39	1	847	1	IRF2BP1	19	46388122	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	32382	46388122	12740861	3473	4064										
NOVA2	4858	broad.mit.edu	37	chr19	46443310	46443310	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccgtcagctcctggtactcCaccaacgtcttgcccccctt	6	20	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:46443310C>T	uc002pdv.2	-	4	1338	c.1290G>A	c.(1288-1290)GTG>GTA	p.V430V		NM_002516	NP_002507	Q9UNW9	NOVA2_HUMAN	neuro-oncological ventral antigen 2	430	KH 3.					nucleus	RNA binding				0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00245)|GBM - Glioblastoma multiforme(486;0.0782)|Epithelial(262;0.179)		CCTGGTACTCCACCAACGTCT	0.662													35	53	---	---	---	---	PASS	T	46443310	T	T	46443310	2	4	4	1	0	0	0	0	0	0	0	1	10555	581	21	3		3	NOVA2	19	46443310	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	55188	46443310	12685673	3474	4065										
IGFL2	147920	broad.mit.edu	37	chr19	46664061	46664061	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattcctttggcctcacaaaCgattttgttgtgaagctgaa	9	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:46664061C>A	uc010xxv.1	+	3	300	c.264C>A	c.(262-264)AAC>AAA	p.N88K	IGFL2_uc002peb.2_Missense_Mutation_p.N99K	NM_001135113	NP_001128585	Q6UWQ7	IGFL2_HUMAN	IGF-like family member 2 isoform b	88						extracellular region	protein binding				0		Ovarian(192;0.0908)|all_neural(266;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(486;0.031)|Epithelial(262;0.247)		GCCTCACAAACGATTTTGTTG	0.557													5	143	---	---	---	---	PASS	A	46664061	A	A	46664061	3	1	4	1	0	0	0	0	1	0	0	0	7587	535	19	1	330	1	IGFL2	19	46664061	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	220751	46664061	12464922	3475	4066										
CCDC8	83987	broad.mit.edu	37	chr19	46914555	46914555	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctggggactctcttgggcaGggttggcaaccggggagtgt	18	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:46914555G>A	uc002pep.2	-	1	2365	c.1513C>T	c.(1513-1515)CTG>TTG	p.L505L		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	505						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		CTCTTGGGCAGGGTTGGCAAC	0.622													8	34	---	---	---	---	PASS	A	46914555	A	A	46914555	2	1	4	1	0	0	0	0	0	0	0	1	2853	991	35	3		3	CCDC8	19	46914555	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	250494	46914555	12214428	3476	4067										
CCDC8	83987	broad.mit.edu	37	chr19	46915085	46915085	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattatctgcagcctctgccCcctggtcagctggggcccct	11	16	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:46915085C>T	uc002pep.2	-	1	1835	c.983G>A	c.(982-984)GGG>GAG	p.G328E		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	328						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		AGCCTCTGCCCCCTGGTCAGC	0.622													39	37	---	---	---	---	PASS	T	46915085	T	T	46915085	3	4	4	1	0	0	0	0	1	0	0	0	2853	623	22	3	637	3	CCDC8	19	46915085	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	530	46915085	12213898	3477	4068										
MEIS3	56917	broad.mit.edu	37	chr19	47912413	47912413	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtggccaccttggggaagatCcccctcttcttgtttcgccg	11	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:47912413C>T	uc002pgu.2	-	8	1248	c.801G>A	c.(799-801)GGG>GGA	p.G267G	MEIS3_uc010xyp.1_5'Flank|MEIS3_uc002pgo.2_Silent_p.G66G|MEIS3_uc002pgp.2_Silent_p.G99G|MEIS3_uc002pgq.2_Silent_p.G348G|MEIS3_uc002pgr.2_Silent_p.G135G|MEIS3_uc002pgt.2_Silent_p.G250G|MEIS3_uc002pgv.2_Silent_p.G250G|MEIS3_uc002pgs.2_Silent_p.G267G|MEIS3_uc010eld.2_Silent_p.G267G	NM_001009813	NP_001009813	Q99687	MEIS3_HUMAN	Meis1, myeloid ecotropic viral integration site	267	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000198)|OV - Ovarian serous cystadenocarcinoma(262;0.000439)|Epithelial(262;0.0113)|GBM - Glioblastoma multiforme(486;0.0223)		TGGGGAAGATCCCCCTCTTCT	0.612													17	25	---	---	---	---	PASS	T	47912413	T	T	47912413	2	4	4	1	0	0	0	0	0	0	0	1	9469	842	30	2		2	MEIS3	19	47912413	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	997328	47912413	11216570	3478	4069										
NAPA	8775	broad.mit.edu	37	chr19	47991584	47991584	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcgccctggatggtcttcttGatgcgcagcagcatggtggt	14	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:47991584G>A	uc002pha.1	-	11	1149	c.849C>T	c.(847-849)ATC>ATT	p.I283I	uc002pgz.1_Intron|NAPA_uc002phb.1_Silent_p.I244I|NAPA_uc002phc.1_Silent_p.I170I|NAPA_uc002phd.1_Silent_p.I283I	NM_003827	NP_003818	P54920	SNAA_HUMAN	N-ethylmaleimide-sensitive factor attachment	283					cellular membrane fusion|intra-Golgi vesicle-mediated transport|post-Golgi vesicle-mediated transport	cytosol					0		all_cancers(25;1.55e-10)|all_epithelial(76;3.4e-08)|all_lung(116;1.73e-07)|Lung NSC(112;3.95e-07)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		OV - Ovarian serous cystadenocarcinoma(262;0.000466)|all cancers(93;0.000739)|Epithelial(262;0.0168)|GBM - Glioblastoma multiforme(486;0.049)		TGGTCTTCTTGATGCGCAGCA	0.637													12	22	---	---	---	---	PASS	A	47991584	A	A	47991584	2	1	4	1	0	0	0	0	0	0	0	1	10161	1280	45	2		2	NAPA	19	47991584	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	79171	47991584	11137399	3479	4070										
PLA2G4C	8605	broad.mit.edu	37	chr19	48601396	48601396	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctctaaatgtttgcttacCtggtgctcttgcctcctgcc	7	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:48601396C>T	uc002phx.2	-	6	966	c.568G>A	c.(568-570)GAG>AAG	p.E190K	PLA2G4C_uc002phw.2_Missense_Mutation_p.E125K|PLA2G4C_uc010elr.2_Missense_Mutation_p.E190K|PLA2G4C_uc010xzd.1_Missense_Mutation_p.E200K|PLA2G4C_uc002phy.3_Missense_Mutation_p.G190S	NM_003706	NP_003697	Q9UP65	PA24C_HUMAN	phospholipase A2, group IVC isoform 1 precursor	190	PLA2c.				arachidonic acid metabolic process|glycerophospholipid catabolic process|inflammatory response|intracellular signal transduction|parturition	cytosol|membrane	calcium-independent phospholipase A2 activity|phospholipid binding			ovary(1)|skin(1)	2		all_cancers(25;2.84e-05)|all_lung(116;4.62e-05)|Lung NSC(112;7.61e-05)|all_epithelial(76;0.000192)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;8.09e-05)|all cancers(93;0.000517)|Epithelial(262;0.0135)|GBM - Glioblastoma multiforme(486;0.0717)		GTTTGCTTACCTGGTGCTCTT	0.527													17	41	---	---	---	---	PASS	T	48601396	T	T	48601396	3	4	4	1	0	0	0	0	1	0	0	0	12003	695	24	3	1109	3	PLA2G4C	19	48601396	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	609812	48601396	10527587	3480	4071										
PLA2G4C	8605	broad.mit.edu	37	chr19	48603039	48603039	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcttagccaagtcccactcCtgtcgggtaaatcgatgttt	8	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:48603039C>T	uc002phx.2	-	5	734	c.336G>A	c.(334-336)CAG>CAA	p.Q112Q	PLA2G4C_uc002phw.2_Silent_p.Q47Q|PLA2G4C_uc010elr.2_Silent_p.Q112Q|PLA2G4C_uc010xzd.1_Silent_p.Q122Q|PLA2G4C_uc002phy.3_Silent_p.Q112Q	NM_003706	NP_003697	Q9UP65	PA24C_HUMAN	phospholipase A2, group IVC isoform 1 precursor	112	PLA2c.				arachidonic acid metabolic process|glycerophospholipid catabolic process|inflammatory response|intracellular signal transduction|parturition	cytosol|membrane	calcium-independent phospholipase A2 activity|phospholipid binding			ovary(1)|skin(1)	2		all_cancers(25;2.84e-05)|all_lung(116;4.62e-05)|Lung NSC(112;7.61e-05)|all_epithelial(76;0.000192)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;8.09e-05)|all cancers(93;0.000517)|Epithelial(262;0.0135)|GBM - Glioblastoma multiforme(486;0.0717)		AGTCCCACTCCTGTCGGGTAA	0.498													52	94	---	---	---	---	PASS	T	48603039	T	T	48603039	2	4	4	1	0	0	0	0	0	0	0	1	12003	680	24	3		3	PLA2G4C	19	48603039	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1643	48603039	10525944	3481	4072										
LIG1	3978	broad.mit.edu	37	chr19	48636269	48636269	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcccgtcatatttgtattcGcaggtgaaagctgcctcctc	9	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:48636269G>C	uc002pia.1	-	18	1815	c.1695C>G	c.(1693-1695)TGC>TGG	p.C565W	LIG1_uc010xze.1_Missense_Mutation_p.C258W|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.C497W|LIG1_uc010xzg.1_Missense_Mutation_p.C534W	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	565					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	ATTTGTATTCGCAGGTGAAAG	0.567								NER					71	88	---	---	---	---	PASS	C	48636269	C	C	48636269	3	2	4	1	0	0	0	0	1	0	0	0	8781	1079	38	4	1108	4	LIG1	19	48636269	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	33230	48636269	10492714	3482	4073										
LIG1	3978	broad.mit.edu	37	chr19	48646813	48646813	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagttaccgagcagacacctCctcgatcttctcaaacgtcc	6	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:48646813C>T	uc002pia.1	-	11	1021	c.901G>A	c.(901-903)GAG>AAG	p.E301K	LIG1_uc010xze.1_5'UTR|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.E233K|LIG1_uc010xzg.1_Missense_Mutation_p.E270K|LIG1_uc010xzh.1_RNA	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	301					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	GCAGACACCTCCTCGATCTTC	0.597								NER					23	34	---	---	---	---	PASS	T	48646813	T	T	48646813	3	4	4	1	0	0	0	0	1	0	0	0	8781	864	30	2	1930	2	LIG1	19	48646813	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	10544	48646813	10482170	3483	4074										
CYTH2	9266	broad.mit.edu	37	chr19	48975678	48975678	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggggctgaacaagacagccAtcggggactacctgggggag	17	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:48975678A>C	uc002pjj.3	+	4	631	c.331A>C	c.(331-333)ATC>CTC	p.I111L	uc002pjg.2_5'Flank|CYTH2_uc010xzr.1_Missense_Mutation_p.I111L|CYTH2_uc002pji.2_RNA	NM_017457	NP_059431	Q99418	CYH2_HUMAN	cytohesin 2 isoform 1	111	SEC7.				actin cytoskeleton organization|endocytosis|regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|membrane fraction|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						CAAGACAGCCATCGGGGACTA	0.637													7	13	---	---	---	---	PASS	C	48975678	C	C	48975678	3	2	4	1	0	0	0	0	1	0	0	0	4204	217	8	5	345	5	CYTH2	19	48975678	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	328865	48975678	10153305	3484	4075										
FAM83E	54854	broad.mit.edu	37	chr19	49114047	49114047	+	Frame_Shift_Del	DEL	C	-	-													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagcggcgcgtggcagcatCcaccaagtccaaaagcaggt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:49114047delC	uc002pjn.2	-	2	588	c.523delG	c.(523-525)GATfs	p.D175fs		NM_017708	NP_060178	Q2M2I3	FA83E_HUMAN	hypothetical protein LOC54854	175										ovary(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		GTGGCAGCATCCACCAAGTCC	0.652													2	4	---	---	---	---		-	49114047	-	-	49114047	7	5	4	1	0	1	0	1	0	0	0	0	5637	855	30	0	929	0	FAM83E	19	49114047	Frame_Shift_Del	DEL	C	TCGA-18-3409-01A-01D-0983-08	138369	49114047	10014936	3485	4076										
NTN5	126147	broad.mit.edu	37	chr19	49167065	49167065	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caagggtggttgttgcctctGgaattcctgtgagaccaaag	13	8	1	1	rs149409502		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:49167065G>A	uc002pkb.2	-	5	1073	c.977C>T	c.(976-978)CCA>CTA	p.P326L	SEC1_uc010xzv.1_Intron|SEC1_uc002pka.2_Intron|SEC1_uc010xzw.1_Intron|SEC1_uc010ema.2_Intron|NTN5_uc002pkc.2_Missense_Mutation_p.P326L	NM_145807	NP_665806	Q8WTR8	NET5_HUMAN	netrin 5 precursor	326						extracellular region				large_intestine(1)|pancreas(1)	2						TGTTGCCTCTGGAATTCCTGT	0.547													5	19	---	---	---	---	PASS	A	49167065	A	A	49167065	3	1	4	1	0	0	0	0	1	0	0	0	10703	1348	47	3	504	3	NTN5	19	49167065	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	53018	49167065	9961918	3486	4077										
TULP2	7288	broad.mit.edu	37	chr19	49391367	49391367	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctccagcccagggcaggggGagcggattgccaaggaggct	17	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:49391367G>A	uc002pkz.2	-	8	939	c.788C>T	c.(787-789)TCC>TTC	p.S263F		NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	263					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		AGGGCAGGGGGAGCGGATTGC	0.637													9	24	---	---	---	---	PASS	A	49391367	A	A	49391367	3	1	4	1	0	0	0	0	1	0	0	0	16771	1174	41	2	798	2	TULP2	19	49391367	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	224302	49391367	9737616	3487	4078										
TULP2	7288	broad.mit.edu	37	chr19	49391432	49391432	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgccaccctcgcctttcagGgccttggacaactcttcgtt	9	15	2	0	rs142980256		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:49391432G>A	uc002pkz.2	-	8	874	c.723C>T	c.(721-723)GCC>GCT	p.A241A		NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	241					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		CGCCTTTCAGGGCCTTGGACA	0.592													10	29	---	---	---	---	PASS	A	49391432	A	A	49391432	2	1	4	1	0	0	0	0	0	0	0	1	16771	1219	43	3		3	TULP2	19	49391432	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	65	49391432	9737551	3488	4079										
FTL	2512	broad.mit.edu	37	chr19	49469080	49469080	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaggcgtgagccacttcttCcgcgaattggccgaggagaa	14	10	1	2	rs143106340		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:49469080C>T	uc002plo.2	+	2	355	c.156C>T	c.(154-156)TTC>TTT	p.F52F	FTL_uc002pln.1_Silent_p.F52F	NM_000146	NP_000137	P02792	FRIL_HUMAN	ferritin, light polypeptide	52	Ferritin-like diiron.				cell death|cellular iron ion homeostasis|cellular membrane organization|iron ion transport|post-Golgi vesicle-mediated transport	cytosol|intracellular ferritin complex	ferric iron binding|identical protein binding|oxidoreductase activity				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000152)|all cancers(93;0.000435)|GBM - Glioblastoma multiforme(486;0.0171)|Epithelial(262;0.0267)	Iron Dextran(DB00893)	GCCACTTCTTCCGCGAATTGG	0.587													11	33	---	---	---	---	PASS	T	49469080	T	T	49469080	2	4	4	1	0	0	0	0	0	0	0	1	6084	854	30	2		2	FTL	19	49469080	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	77648	49469080	9659903	3489	4080										
PPFIA3	8541	broad.mit.edu	37	chr19	49631724	49631724	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcggaacggaacaacacgcGggtgaggggtgttgagggcg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:49631724G>A	uc002pmr.2	+	3	673	c.341G>A	c.(340-342)CGG>CAG	p.R114Q	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_Missense_Mutation_p.R38Q|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_5'Flank	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	114	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		AACAACACGCGGGTGAGGGGT	0.602													12	16	---	---	---	---	PASS	A	49631724	A	A	49631724	3	1	4	1	0	0	0	0	1	0	0	0	12311	1130	39	1	347	1	PPFIA3	19	49631724	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	162644	49631724	9497259	3490	4081	173	2								
PPFIA3	8541	broad.mit.edu	37	chr19	49631725	49631725	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcggaacggaacaacacgcgGgtgaggggtgttgagggcgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:49631725G>A	uc002pmr.2	+	3	674	c.342G>A	c.(340-342)CGG>CGA	p.R114R	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_Silent_p.R38R|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_5'Flank	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	114	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		ACAACACGCGGGTGAGGGGTG	0.602													12	15	---	---	---	---	PASS	A	49631725	A	A	49631725	2	1	4	1	0	0	0	0	0	0	0	1	12311	1246	43	3		3	PPFIA3	19	49631725	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	49631725	9497258	3491	4082	173	2								
CCDC155	147872	broad.mit.edu	37	chr19	49913125	49913125	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccatctgaagccccagctgGgggacaggtgagcacaggaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:49913125G>A	uc002pnm.1	+	15	1436	c.1262G>A	c.(1261-1263)GGG>GAG	p.G421E	CCDC155_uc010emx.1_Missense_Mutation_p.G392E	NM_144688	NP_653289	Q8N6L0	CC155_HUMAN	coiled-coil domain containing 155	421						integral to membrane	calcium ion binding			ovary(1)|central_nervous_system(1)	2						GCCCCAGCTGGGGGACAGGTG	0.582													18	20	---	---	---	---	PASS	A	49913125	A	A	49913125	3	1	4	1	0	0	0	0	1	0	0	0	2788	1232	43	3	1316	3	CCDC155	19	49913125	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	281400	49913125	9215858	3492	4083	174	2								
CCDC155	147872	broad.mit.edu	37	chr19	49913126	49913126	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatctgaagccccagctggGggacaggtgagcacaggaaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:49913126G>A	uc002pnm.1	+	15	1437	c.1263G>A	c.(1261-1263)GGG>GGA	p.G421G	CCDC155_uc010emx.1_Silent_p.G392G	NM_144688	NP_653289	Q8N6L0	CC155_HUMAN	coiled-coil domain containing 155	421						integral to membrane	calcium ion binding			ovary(1)|central_nervous_system(1)	2						CCCCAGCTGGGGGACAGGTGA	0.582													18	20	---	---	---	---	PASS	A	49913126	A	A	49913126	2	1	4	1	0	0	0	0	0	0	0	1	2788	1219	43	3		3	CCDC155	19	49913126	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	49913126	9215857	3493	4084	174	2								
CPT1C	126129	broad.mit.edu	37	chr19	50208544	50208544	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caacaccacgcggattccagGggtccaaaaaggtgagaccc	11	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:50208544G>A	uc002ppj.2	+	9	1158	c.953G>A	c.(952-954)GGG>GAG	p.G318E	CPT1C_uc002ppl.3_Missense_Mutation_p.G284E|CPT1C_uc002ppi.2_Missense_Mutation_p.G235E|CPT1C_uc002ppk.2_Missense_Mutation_p.G307E|CPT1C_uc010eng.2_Missense_Mutation_p.G318E|CPT1C_uc010enh.2_Missense_Mutation_p.G318E|CPT1C_uc010ybc.1_Missense_Mutation_p.G189E|CPT1C_uc010eni.1_5'Flank	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	318	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		CGGATTCCAGGGGTCCAAAAA	0.408													12	43	---	---	---	---	PASS	A	50208544	A	A	50208544	3	1	4	1	0	0	0	0	1	0	0	0	3833	1232	43	3	983	3	CPT1C	19	50208544	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	295418	50208544	8920439	3494	4085										
TSKS	60385	broad.mit.edu	37	chr19	50247621	50247621	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggcccagcccctccagttCgctcctcagtgaagccacag	10	17	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:50247621C>T	uc002ppm.2	-	8	1239	c.1228G>A	c.(1228-1230)GAA>AAA	p.E410K		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	410							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		CCCTCCAGTTCGCTCCTCAGT	0.582													14	23	---	---	---	---	PASS	T	50247621	T	T	50247621	3	4	4	1	0	0	0	0	1	0	0	0	16623	893	31	2	566	2	TSKS	19	50247621	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	39077	50247621	8881362	3495	4086										
NAPSA	9476	broad.mit.edu	37	chr19	50864256	50864256	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccctgctccaccagtacatCcatcgggggccgaactcctt	8	18	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:50864256C>T	uc002prx.2	-	5	663	c.610G>A	c.(610-612)GAT>AAT	p.D204N	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	204					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		ACCAGTACATCCATCGGGGGC	0.527													16	30	---	---	---	---	PASS	T	50864256	T	T	50864256	3	4	4	1	0	0	0	0	1	0	0	0	10166	855	30	2	672	2	NAPSA	19	50864256	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	616635	50864256	8264727	3496	4087										
SPIB	6689	broad.mit.edu	37	chr19	50926872	50926872	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccttccgcagaccctggttcCcccggcatatgccccgtacc	8	20	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:50926872C>T	uc002psd.2	+	5	375	c.350C>T	c.(349-351)CCC>CTC	p.P117L	SPIB_uc002pse.2_Missense_Mutation_p.P117L|SPIB_uc010ycc.1_Missense_Mutation_p.P26L	NM_003121	NP_003112	Q01892	SPIB_HUMAN	Spi-B transcription factor (Spi-1/PU.1 related)	117					regulation of transcription from RNA polymerase II promoter	cytoplasm|microtubule cytoskeleton|nucleus	sequence-specific DNA binding			lung(1)|kidney(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		ACCCTGGTTCCCCCGGCATAT	0.642													5	17	---	---	---	---	PASS	T	50926872	T	T	50926872	3	4	4	1	0	0	0	0	1	0	0	0	15049	623	22	3	368	3	SPIB	19	50926872	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	62616	50926872	8202111	3497	4088										
SYT3	84258	broad.mit.edu	37	chr19	51128808	51128808	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctcgctgatcagggaggcCttcacgtaggggtctgggaa	15	11	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:51128808C>T	uc002pst.2	-	6	2050	c.1416G>A	c.(1414-1416)AAG>AAA	p.K472K	SYT3_uc002psv.2_Silent_p.K472K|SYT3_uc010ycd.1_Silent_p.K472K	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	472	C2 2.|Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		TCAGGGAGGCCTTCACGTAGG	0.408													4	10	---	---	---	---	PASS	T	51128808	T	T	51128808	2	4	4	1	0	0	0	0	0	0	0	1	15472	680	24	3		3	SYT3	19	51128808	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	201936	51128808	8000175	3498	4089										
SIGLEC9	27180	broad.mit.edu	37	chr19	51630380	51630380	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgatgcagttgacagcaatcCccctgccaggctgagcctga	11	13	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:51630380C>T	uc002pvu.2	+	4	909	c.842C>T	c.(841-843)CCC>CTC	p.P281L	SIGLEC9_uc010yct.1_Missense_Mutation_p.P281L	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	281	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		GACAGCAATCCCCCTGCCAGG	0.602													9	64	---	---	---	---	PASS	T	51630380	T	T	51630380	3	4	4	1	0	0	0	0	1	0	0	0	14315	623	22	3	856	3	SIGLEC9	19	51630380	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	501572	51630380	7498603	3499	4090										
SIGLEC7	27036	broad.mit.edu	37	chr19	51645695	51645695	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaggacagaagagtaaccgGaaggattactcgctgacgat	13	7	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:51645695G>A	uc002pvv.1	+	1	138	c.69G>A	c.(67-69)CGG>CGA	p.R23R	SIGLEC7_uc002pvw.1_Silent_p.R23R|SIGLEC7_uc010eoq.1_RNA|SIGLEC7_uc010eor.1_Silent_p.R23R	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	23	Extracellular (Potential).				cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		AGAGTAACCGGAAGGATTACT	0.522													10	13	---	---	---	---	PASS	A	51645695	A	A	51645695	2	1	4	1	0	0	0	0	0	0	0	1	14313	1161	41	2		2	SIGLEC7	19	51645695	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	15315	51645695	7483288	3500	4091										
NKG7	4818	broad.mit.edu	37	chr19	51875759	51875759	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcaggcccagggagccccCcagcagggccagggaccggc	15	17	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:51875759C>T	uc002pwj.2	-	1	202	c.31G>A	c.(31-33)GGG>AGG	p.G11R	NKG7_uc002pwk.2_Missense_Mutation_p.G11R	NM_005601	NP_005592	Q16617	NKG7_HUMAN	natural killer cell group 7 sequence	11	Helical; (Potential).					integral to plasma membrane				central_nervous_system(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000211)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		AGGGAGCCCCCCAGCAGGGCC	0.473													9	17	---	---	---	---	PASS	T	51875759	T	T	51875759	3	4	4	1	0	0	0	0	1	0	0	0	10443	623	22	3	482	3	NKG7	19	51875759	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	230064	51875759	7253224	3501	4092										
SIGLEC12	89858	broad.mit.edu	37	chr19	52003495	52003495	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacagagacacacagaccctCctgcacagtcaccgactctg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:52003495C>T	uc002pwx.1	-	2	543	c.487G>A	c.(487-489)GAG>AAG	p.E163K	SIGLEC12_uc002pww.1_Missense_Mutation_p.E45K|SIGLEC12_uc010eoy.1_Intron	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	163	Ig-like V-type 2.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CACAGACCCTCCTGCACAGTC	0.587													21	38	---	---	---	---	PASS	T	52003495	T	T	52003495	3	4	4	1	0	0	0	0	1	0	0	0	14308	864	30	2	1328	2	SIGLEC12	19	52003495	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	127736	52003495	7125488	3502	4093	175	2								
SIGLEC12	89858	broad.mit.edu	37	chr19	52003496	52003496	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagagacacacagaccctcCtgcacagtcaccgactctgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:52003496C>T	uc002pwx.1	-	2	542	c.486G>A	c.(484-486)CAG>CAA	p.Q162Q	SIGLEC12_uc002pww.1_Silent_p.Q44Q|SIGLEC12_uc010eoy.1_Intron	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	162	Ig-like V-type 2.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		ACAGACCCTCCTGCACAGTCA	0.587													21	39	---	---	---	---	PASS	T	52003496	T	T	52003496	2	4	4	1	0	0	0	0	0	0	0	1	14308	680	24	3		3	SIGLEC12	19	52003496	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	52003496	7125487	3503	4094	175	2								
FPR1	2357	broad.mit.edu	37	chr19	52249567	52249567	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcaagccttgcttgtggatCttggtggcaataagcccata	10	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:52249567C>T	uc002pxq.2	-	2	776	c.681G>A	c.(679-681)AAG>AAA	p.K227K		NM_002029	NP_002020	P21462	FPR1_HUMAN	formyl peptide receptor 1	227	Cytoplasmic (Potential).				activation of MAPK activity|cellular component movement|chemotaxis|G-protein signaling, coupled to cAMP nucleotide second messenger|nitric oxide mediated signal transduction	endosome|integral to membrane|plasma membrane	N-formyl peptide receptor activity			ovary(1)|lung(1)|skin(1)	3		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00106)|OV - Ovarian serous cystadenocarcinoma(262;0.018)	Nedocromil(DB00716)	GCTTGTGGATCTTGGTGGCAA	0.532													23	26	---	---	---	---	PASS	T	52249567	T	T	52249567	2	4	4	1	0	0	0	0	0	0	0	1	6038	912	32	2		2	FPR1	19	52249567	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	246071	52249567	6879416	3504	4095										
ZNF615	284370	broad.mit.edu	37	chr19	52496630	52496630	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acattcactgcatacataggGtttctctcctgtatgagtgc	8	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:52496630G>A	uc002pye.1	-	6	1991	c.1699C>T	c.(1699-1701)CCC>TCC	p.P567S	ZNF615_uc002pyf.1_Missense_Mutation_p.P578S|ZNF615_uc002pyg.1_Missense_Mutation_p.P459S|ZNF615_uc002pyh.1_Missense_Mutation_p.P578S|ZNF615_uc010epi.1_Missense_Mutation_p.P574S|ZNF615_uc010ydg.1_Missense_Mutation_p.P572S	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	567					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		CATACATAGGGTTTCTCTCCT	0.428													30	29	---	---	---	---	PASS	A	52496630	A	A	52496630	3	1	4	1	0	0	0	0	1	0	0	0	18037	1261	44	3	500	3	ZNF615	19	52496630	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	247063	52496630	6632353	3505	4096										
ZNF614	80110	broad.mit.edu	37	chr19	52521720	52521720	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcctcccagctgaattccaCagccacatcctccagggtca	6	18	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:52521720C>G	uc002pyj.2	-	3	445	c.43G>C	c.(43-45)GTG>CTG	p.V15L	ZNF614_uc002pyi.3_Missense_Mutation_p.V15L|ZNF614_uc010epj.2_5'UTR	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	15	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		CTGAATTCCACAGCCACATCC	0.418													12	20	---	---	---	---	PASS	G	52521720	G	G	52521720	3	3	4	1	0	0	0	0	1	0	0	0	18036	478	17	4	1726	4	ZNF614	19	52521720	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	25090	52521720	6607263	3506	4097										
PPP2R1A	5518	broad.mit.edu	37	chr19	52724338	52724338	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccaaggtcttggccatgtcCggagaccccaactacctgca	9	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:52724338C>T	uc002pyp.2	+	12	1629	c.1470C>T	c.(1468-1470)TCC>TCT	p.S490S	PPP2R1A_uc010ydk.1_Silent_p.S435S|PPP2R1A_uc002pyq.2_Silent_p.S311S	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	490	PP2A subunit C binding.|HEAT 13.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		TGGCCATGTCCGGAGACCCCA	0.592			Mis		clear cell ovarian carcinoma								17	57	---	---	---	---	PASS	T	52724338	T	T	52724338	2	4	4	1	0	0	0	0	0	0	0	1	12382	639	23	1		1	PPP2R1A	19	52724338	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	202618	52724338	6404645	3507	4098										
ZNF610	162963	broad.mit.edu	37	chr19	52857607	52857607	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtaaaaaatacagatggaagGgaatgtgtcagaagcgtgaa	13	3	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:52857607G>A	uc002pyx.3	+	5	700	c.294G>A	c.(292-294)AGG>AGA	p.R98R	ZNF610_uc002pyy.3_Silent_p.R98R|ZNF610_uc002pyz.3_Intron|ZNF610_uc002pza.2_Silent_p.R98R	NM_001161426	NP_001154898	Q8N9Z0	ZN610_HUMAN	zinc finger protein 610 isoform a	98					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3				OV - Ovarian serous cystadenocarcinoma(262;0.00396)|GBM - Glioblastoma multiforme(134;0.00434)		CAGATGGAAGGGAATGTGTCA	0.338													19	9	---	---	---	---	PASS	A	52857607	A	A	52857607	2	1	4	1	0	0	0	0	0	0	0	1	18033	1223	43	3		3	ZNF610	19	52857607	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	133269	52857607	6271376	3508	4099										
ZNF528	84436	broad.mit.edu	37	chr19	52919338	52919338	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagagagaccttatggatgCagtcagtgtggcaagatctt	13	6	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:52919338C>T	uc002pzh.2	+	7	1659	c.1233C>T	c.(1231-1233)TGC>TGT	p.C411C	ZNF528_uc002pzi.2_Silent_p.C178C	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	411	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		CTTATGGATGCAGTCAGTGTG	0.403													12	31	---	---	---	---	PASS	T	52919338	T	T	52919338	2	4	4	1	0	0	0	0	0	0	0	1	17966	718	25	3		3	ZNF528	19	52919338	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	61731	52919338	6209645	3509	4100										
ZNF578	147660	broad.mit.edu	37	chr19	53014301	53014301	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cattactcacacaaaaacagGaagtacacatgagagaaaaa	6	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:53014301G>A	uc002pzp.3	+	6	911	c.667G>A	c.(667-669)GAA>AAA	p.E223K		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		ACAAAAACAGGAAGTACACAT	0.338													13	60	---	---	---	---	PASS	A	53014301	A	A	53014301	3	1	4	1	0	0	0	0	1	0	0	0	18007	1175	41	2	677	2	ZNF578	19	53014301	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	94963	53014301	6114682	3510	4101										
ZNF578	147660	broad.mit.edu	37	chr19	53014382	53014382	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctcatttgtaaggaaacatCagataatccatttaggagaa	8	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:53014382C>T	uc002pzp.3	+	6	992	c.748C>T	c.(748-750)CAG>TAG	p.Q250*		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	25	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		AAGGAAACATCAGATAATCCA	0.353													9	76	---	---	---	---	PASS	T	53014382	T	T	53014382	4	4	4	1	0	0	0	0	0	1	0	0	18007	827	29	2	758	2	ZNF578	19	53014382	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	81	53014382	6114601	3511	4102										
ZNF578	147660	broad.mit.edu	37	chr19	53014608	53014608	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaatgtggaaagtccttcaGttacaagtcatcccttacat	7	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:53014608G>A	uc002pzp.3	+	6	1218	c.974G>A	c.(973-975)AGT>AAT	p.S325N		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	100	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		AAGTCCTTCAGTTACAAGTCA	0.423													38	54	---	---	---	---	PASS	A	53014608	A	A	53014608	3	1	4	1	0	0	0	0	1	0	0	0	18007	1029	36	3	984	3	ZNF578	19	53014608	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	226	53014608	6114375	3512	4103										
ZNF578	147660	broad.mit.edu	37	chr19	53015300	53015300	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgccattcttatctggcaAaccatactagaattcatagc	6	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:53015300A>C	uc002pzp.3	+	6	1910	c.1666A>C	c.(1666-1668)AAC>CAC	p.N556H		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	331	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		TTATCTGGCAAACCATACTAG	0.403													24	35	---	---	---	---	PASS	C	53015300	C	C	53015300	3	2	4	1	0	0	0	0	1	0	0	0	18007	14	1	5	1676	5	ZNF578	19	53015300	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	692	53015300	6113683	3513	4104										
ZNF600	162966	broad.mit.edu	37	chr19	53269658	53269658	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagggttgatccacaactgaAaaccttttcacattcttcat	5	10	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:53269658A>G	uc002qab.3	-	3	1637	c.1351T>C	c.(1351-1353)TTC>CTC	p.F451L		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	451	C2H2-type 11; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		CCACAACTGAAAACCTTTTCA	0.373													20	64	---	---	---	---	PASS	G	53269658	G	G	53269658	3	3	4	1	0	0	0	0	1	0	0	0	18027	14	1	5	821	5	ZNF600	19	53269658	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	254358	53269658	5859325	3514	4105										
ZNF677	342926	broad.mit.edu	37	chr19	53741139	53741139	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccagagtgaattctctgatGattagtgaggttcgaacttt	10	6	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:53741139G>A	uc002qbf.1	-	5	1026	c.841C>T	c.(841-843)CAT>TAT	p.H281Y	ZNF677_uc002qbg.1_Missense_Mutation_p.H281Y	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	281	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		ATTCTCTGATGATTAGTGAGG	0.398													9	33	---	---	---	---	PASS	A	53741139	A	A	53741139	3	1	4	1	0	0	0	0	1	0	0	0	18081	1290	45	2	917	2	ZNF677	19	53741139	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	471481	53741139	5387844	3515	4106										
VN1R2	317701	broad.mit.edu	37	chr19	53762721	53762721	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttttccaactattagccctTttgttctcatgtgccgtgac	7	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:53762721T>G	uc002qbi.2	+	1	1177	c.1093T>G	c.(1093-1095)TTT>GTT	p.F365V		NM_173856	NP_776255	Q8NFZ6	VN1R2_HUMAN	vomeronasal 1 receptor 2	365	Helical; Name=7; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0				GBM - Glioblastoma multiforme(134;0.00301)		TATTAGCCCTTTTGTTCTCAT	0.433													46	45	---	---	---	---	PASS	G	53762721	G	G	53762721	3	3	4	1	0	0	0	0	1	0	0	0	17176	1841	64	5	1095	5	VN1R2	19	53762721	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	21582	53762721	5366262	3516	4107										
VN1R4	317703	broad.mit.edu	37	chr19	53770583	53770583	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agttttgcccacctggatttCctggagctgaccgtgatcac	10	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:53770583C>T	uc010ydu.1	-	1	336	c.336G>A	c.(334-336)AGG>AGA	p.R112R		NM_173857	NP_776256	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	112	Cytoplasmic (Potential).				response to pheromone	actin cytoskeleton|cytoplasm|integral to membrane|plasma membrane	pheromone receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.00294)		ACCTGGATTTCCTGGAGCTGA	0.498										HNSCC(26;0.072)			5	9	---	---	---	---	PASS	T	53770583	T	T	53770583	2	4	4	1	0	0	0	0	0	0	0	1	17177	854	30	2		2	VN1R4	19	53770583	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	7862	53770583	5358400	3517	4108										
ZNF761	388561	broad.mit.edu	37	chr19	53959500	53959500	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggagagaacccttacaaatGtgaagatagtgacaaagctt	10	6	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:53959500G>T	uc010eqp.2	+	7	2197	c.1739G>T	c.(1738-1740)TGT>TTT	p.C580F	ZNF761_uc010ydy.1_Missense_Mutation_p.C526F|ZNF761_uc002qbt.1_Missense_Mutation_p.C526F	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	580	C2H2-type 14; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		CCTTACAAATGTGAAGATAGT	0.388													33	48	---	---	---	---	PASS	T	53959500	T	T	53959500	3	4	4	1	0	0	0	0	1	0	0	0	18133	1377	48	3	1750	3	ZNF761	19	53959500	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	188917	53959500	5169483	3518	4109										
NLRP12	91662	broad.mit.edu	37	chr19	54304506	54304506	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtctggagcttgcacgtggGatgcctgaggccctcacaca	14	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:54304506G>A	uc002qch.3	-	7	2951	c.2731C>T	c.(2731-2733)CCC>TCC	p.P911S	NLRP12_uc010eqw.2_Missense_Mutation_p.P194S|NLRP12_uc002qci.3_Missense_Mutation_p.P911S|NLRP12_uc002qcj.3_Missense_Mutation_p.P912S|NLRP12_uc002qck.3_Intron|NLRP12_uc010eqx.2_Intron	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	911					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		TTGCACGTGGGATGCCTGAGG	0.622													4	15	---	---	---	---	PASS	A	54304506	A	A	54304506	3	1	4	1	0	0	0	0	1	0	0	0	10474	1174	41	2	470	2	NLRP12	19	54304506	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	345006	54304506	4824477	3519	4110										
TMC4	147798	broad.mit.edu	37	chr19	54675741	54675741	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaaggcctttctgctccttCctccatcctcctcctcctcc	4	20	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:54675741C>T	uc010erf.2	-	2	341	c.209G>A	c.(208-210)GGA>GAA	p.G70E	TMC4_uc002qdo.2_Missense_Mutation_p.G64E	NM_001145303	NP_001138775	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 1	70	Extracellular (Potential).					integral to membrane				pancreas(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					TCTGCTCCTTCCTCCATCCTC	0.647													8	39	---	---	---	---	PASS	T	54675741	T	T	54675741	3	4	4	1	0	0	0	0	1	0	0	0	15984	855	30	2	1985	2	TMC4	19	54675741	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	371235	54675741	4453242	3520	4111										
LILRA6	79168	broad.mit.edu	37	chr19	54744735	54744735	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggatgttcagggggtcgctGggggccgaccactcggagga	19	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:54744735G>A	uc002qeu.1	-	5	1051	c.927C>T	c.(925-927)CCC>CCT	p.P309P	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Silent_p.P309P|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Silent_p.P309P|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Silent_p.P309P|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Silent_p.P309P|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Silent_p.P309P|LILRA6_uc010yeq.1_Silent_p.P309P|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Silent_p.P170P	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	309	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GGGGGTCGCTGGGGGCCGACC	0.677													15	66	---	---	---	---	PASS	A	54744735	A	A	54744735	2	1	4	1	0	0	0	0	0	0	0	1	8789	1335	47	3		3	LILRA6	19	54744735	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	68994	54744735	4384248	3521	4112										
LILRB5	10990	broad.mit.edu	37	chr19	54760033	54760033	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccacagggaacagggcctgGgatggccctttggggagctt	16	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:54760033G>A	uc002qex.2	-	4	639	c.528C>T	c.(526-528)TCC>TCT	p.S176S	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Silent_p.S167S|LILRB5_uc002qey.2_Silent_p.S176S|LILRB5_uc002qez.2_Intron|LILRB5_uc002qfa.1_Intron|LILRB5_uc010yes.1_Intron	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	176	Extracellular (Potential).|Ig-like C2-type 2.				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		ACAGGGCCTGGGATGGCCCTT	0.547													11	36	---	---	---	---	PASS	A	54760033	A	A	54760033	2	1	4	1	0	0	0	0	0	0	0	1	8794	1219	43	3		3	LILRB5	19	54760033	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	15298	54760033	4368950	3522	4113										
LILRB5	10990	broad.mit.edu	37	chr19	54760446	54760446	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgcactgtcatacaccgtGgatggaatgtggaacttggc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:54760446G>A	uc002qex.2	-	3	372	c.261C>T	c.(259-261)TCC>TCT	p.S87S	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Silent_p.S87S|LILRB5_uc002qey.2_Silent_p.S87S|LILRB5_uc002qez.2_Silent_p.S87S|LILRB5_uc002qfa.1_Silent_p.S77S|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	87	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CATACACCGTGGATGGAATGT	0.602													18	125	---	---	---	---	PASS	A	54760446	A	A	54760446	2	1	4	1	0	0	0	0	0	0	0	1	8794	1335	47	3		3	LILRB5	19	54760446	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	413	54760446	4368537	3523	4114	176	2								
LILRB5	10990	broad.mit.edu	37	chr19	54760447	54760447	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcactgtcatacaccgtgGatggaatgtggaacttggcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:54760447G>A	uc002qex.2	-	3	371	c.260C>T	c.(259-261)TCC>TTC	p.S87F	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.S87F|LILRB5_uc002qey.2_Missense_Mutation_p.S87F|LILRB5_uc002qez.2_Missense_Mutation_p.S87F|LILRB5_uc002qfa.1_Missense_Mutation_p.S77F|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	87	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		ATACACCGTGGATGGAATGTG	0.607													19	126	---	---	---	---	PASS	A	54760447	A	A	54760447	3	1	4	1	0	0	0	0	1	0	0	0	8794	1174	41	2	1559	2	LILRB5	19	54760447	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	54760447	4368536	3524	4115	176	2								
LILRA3	11026	broad.mit.edu	37	chr19	54802093	54802093	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgattttagacgcagcggGgaatcagctgccccctcctt	10	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:54802093G>A	uc002qfd.2	-	6	1160	c.1095C>T	c.(1093-1095)TCC>TCT	p.S365S	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Silent_p.S301S	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	365	Ig-like C2-type 4.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GACGCAGCGGGGAATCAGCTG	0.587													22	61	---	---	---	---	PASS	A	54802093	A	A	54802093	2	1	4	1	0	0	0	0	0	0	0	1	8786	1219	43	3		3	LILRA3	19	54802093	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	41646	54802093	4326890	3525	4116										
LILRA3	11026	broad.mit.edu	37	chr19	54802698	54802698	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atctgtcgtagccggcatcaGagccacactggaaggtcagc	12	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:54802698G>A	uc002qfd.2	-	5	808	c.743C>T	c.(742-744)TCT>TTT	p.S248F	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Missense_Mutation_p.S184F	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	248	Ig-like C2-type 3.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GCCGGCATCAGAGCCACACTG	0.612													7	26	---	---	---	---	PASS	A	54802698	A	A	54802698	3	1	4	1	0	0	0	0	1	0	0	0	8786	942	33	2	588	2	LILRA3	19	54802698	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	605	54802698	4326285	3526	4117										
LENG9	94059	broad.mit.edu	37	chr19	54973752	54973752	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccacgtggaccaggtattCctgggccttggtcacttctg	13	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:54973752C>T	uc010yez.1	-	1	1143	c.1024G>A	c.(1024-1026)GAA>AAA	p.E342K		NM_198988	NP_945339	Q96B70	LENG9_HUMAN	leukocyte receptor cluster (LRC) member 9	342					RNA metabolic process	intracellular	catalytic activity|nucleic acid binding|zinc ion binding				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.134)		ACCAGGTATTCCTGGGCCTTG	0.632													8	28	---	---	---	---	PASS	T	54973752	T	T	54973752	3	4	4	1	0	0	0	0	1	0	0	0	8725	864	30	2	485	2	LENG9	19	54973752	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	171054	54973752	4155231	3527	4118										
LILRA2	11027	broad.mit.edu	37	chr19	55098690	55098690	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccctaggccaacacccccaGgattacacagtggagaatct	8	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55098690G>A	uc002qgg.3	+	8	1418	c.1329G>A	c.(1327-1329)CAG>CAA	p.Q443Q	LILRA2_uc010ern.2_3'UTR|LILRA2_uc002qgf.2_Silent_p.Q426Q|LILRA2_uc010ero.2_Silent_p.Q414Q|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	443	Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		AACACCCCCAGGATTACACAG	0.592													9	73	---	---	---	---	PASS	A	55098690	A	A	55098690	2	1	4	1	0	0	0	0	0	0	0	1	8785	991	35	3		3	LILRA2	19	55098690	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	124938	55098690	4030293	3528	4119										
LILRB1	10859	broad.mit.edu	37	chr19	55143641	55143641	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcttatgactcgaactctcCctatgagtggtctctaccca	7	13	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55143641C>T	uc002qgj.2	+	6	954	c.614C>T	c.(613-615)CCC>CTC	p.P205L	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Missense_Mutation_p.P205L|LILRB1_uc002qgk.2_Missense_Mutation_p.P205L|LILRB1_uc002qgm.2_Missense_Mutation_p.P205L|LILRB1_uc010erq.2_Missense_Mutation_p.P205L|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	205	Ig-like C2-type 2.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		TCGAACTCTCCCTATGAGTGG	0.607										HNSCC(37;0.09)			23	43	---	---	---	---	PASS	T	55143641	T	T	55143641	3	4	4	1	0	0	0	0	1	0	0	0	8790	623	22	3	628	3	LILRB1	19	55143641	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	44951	55143641	3985342	3529	4120										
KIR3DL3	115653	broad.mit.edu	37	chr19	55247337	55247337	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaacagaacagtgaacaggGaggtaggtgctcctccgccc	14	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55247337G>A	uc002qgu.1	+	7	1123	c.1105G>A	c.(1105-1107)GAG>AAG	p.E369K	KIR2DL3_uc002qgv.2_Intron|KIR2DL3_uc002qgx.2_5'Flank|KIR2DL3_uc002qgy.2_5'Flank|KIR2DL3_uc010erw.1_5'Flank	NM_153443	NP_703144	Q8N743	KI3L3_HUMAN	killer cell immunoglobulin-like receptor, three	369	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		AGTGAACAGGGAGGTAGGTGC	0.552													34	55	---	---	---	---	PASS	A	55247337	A	A	55247337	3	1	4	1	0	0	0	0	1	0	0	0	8322	1175	41	2	1131	2	KIR3DL3	19	55247337	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	103696	55247337	3881646	3530	4121										
KIR2DL3	3804	broad.mit.edu	37	chr19	55255278	55255278	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttctctctcagcccagccgGgccccacggttctggcagga	11	17	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55255278G>A	uc002qgv.2	+	4	424	c.406G>A	c.(406-408)GGC>AGC	p.G136S	KIR2DL3_uc002qgx.2_Missense_Mutation_p.G136S|KIR2DL3_uc002qgy.2_Intron|KIR2DL3_uc010erw.1_Missense_Mutation_p.G136S|KIR2DL1_uc002qgz.1_Missense_Mutation_p.G46S|KIR2DL3_uc002qha.1_Intron	NM_015868	NP_056952	P43628	KI2L3_HUMAN	killer cell immunoglobulin-like receptor, two	136	Extracellular (Potential).				immune response|regulation of immune response	integral to plasma membrane	antigen binding|protein binding|receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		AGCCCAGCCGGGCCCCACGGT	0.572													25	29	---	---	---	---	PASS	A	55255278	A	A	55255278	3	1	4	1	0	0	0	0	1	0	0	0	8317	1232	43	3	420	3	KIR2DL3	19	55255278	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	7941	55255278	3873705	3531	4122										
KIR3DL1	3811	broad.mit.edu	37	chr19	55329785	55329785	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccaggtggtcaggacaaacCcttcctgtctgcctggccca	10	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55329785C>T	uc002qhk.3	+	3	149	c.86C>T	c.(85-87)CCC>CTC	p.P29L	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_5'UTR|KIR3DL1_uc010esf.2_Intron|KIR3DL1_uc010yfo.1_5'UTR|KIR3DL1_uc002qhl.3_Missense_Mutation_p.P29L	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	29	Extracellular (Potential).				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		CAGGACAAACCCTTCCTGTCT	0.557													33	20	---	---	---	---	PASS	T	55329785	T	T	55329785	3	4	4	1	0	0	0	0	1	0	0	0	8320	623	22	3	96	3	KIR3DL1	19	55329785	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	74507	55329785	3799198	3532	4123										
KIR3DL1	3811	broad.mit.edu	37	chr19	55329913	55329913	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaatccacattcccatcttcCatggcagaatattccaggag	7	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55329913C>T	uc002qhk.3	+	3	277	c.214C>T	c.(214-216)CAT>TAT	p.H72Y	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_Missense_Mutation_p.H14Y|KIR3DL1_uc010esf.2_Intron|KIR3DL1_uc010yfo.1_Missense_Mutation_p.H14Y|KIR3DL1_uc002qhl.3_Missense_Mutation_p.H72Y	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	72	Extracellular (Potential).|Ig-like C2-type 1.				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		TCCCATCTTCCATGGCAGAAT	0.502													11	46	---	---	---	---	PASS	T	55329913	T	T	55329913	3	4	4	1	0	0	0	0	1	0	0	0	8320	594	21	3	224	3	KIR3DL1	19	55329913	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	128	55329913	3799070	3533	4124										
KIR2DS4	3809	broad.mit.edu	37	chr19	55349152	55349152	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttccttctgcacagagagggGaagtttaacaacactttgca	9	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55349152G>A	uc002qhm.1	+	3	238	c.192G>A	c.(190-192)GGG>GGA	p.G64G	KIR2DS4_uc010yfj.1_Silent_p.G57G|KIR2DS4_uc010yfk.1_RNA|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_Silent_p.G64G|KIR2DS4_uc002qhn.1_Silent_p.G11G	NM_012314	NP_036446	P43632	KI2S4_HUMAN	killer cell immunoglobulin-like receptor, two	64	Extracellular (Potential).|Ig-like C2-type 1.					integral to plasma membrane	receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		ACAGAGAGGGGAAGTTTAACA	0.512													35	174	---	---	---	---	PASS	A	55349152	A	A	55349152	2	1	4	1	0	0	0	0	0	0	0	1	8319	1161	41	2		2	KIR2DS4	19	55349152	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	19239	55349152	3779831	3534	4125										
FCAR	2204	broad.mit.edu	37	chr19	55396865	55396865	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggacgcaaacaaggcagggCgctatcagtgccaatatagg	13	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55396865C>G	uc002qhr.1	+	3	486	c.289C>G	c.(289-291)CGC>GGC	p.R97G	FCAR_uc002qhq.2_Missense_Mutation_p.R97G|FCAR_uc002qhs.1_RNA|FCAR_uc002qht.1_Missense_Mutation_p.R70G|FCAR_uc010esi.1_Missense_Mutation_p.R70G|FCAR_uc002qhu.1_Missense_Mutation_p.R97G|FCAR_uc002qhv.1_Missense_Mutation_p.R97G|FCAR_uc002qhw.1_Missense_Mutation_p.R85G|FCAR_uc002qhx.1_Missense_Mutation_p.R85G|FCAR_uc002qhy.1_Missense_Mutation_p.R85G|FCAR_uc002qhz.1_Missense_Mutation_p.R85G|FCAR_uc002qia.1_Intron	NM_002000	NP_001991	P24071	FCAR_HUMAN	Fc alpha receptor isoform a precursor	97	Extracellular (Potential).|Ig-like C2-type 1.				immune response	extracellular region|integral to plasma membrane	IgA binding|receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0443)		CAAGGCAGGGCGCTATCAGTG	0.502													15	38	---	---	---	---	PASS	G	55396865	G	G	55396865	3	3	4	1	0	0	0	0	1	0	0	0	5773	768	27	4	299	4	FCAR	19	55396865	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	47713	55396865	3732118	3535	4126										
NCR1	9437	broad.mit.edu	37	chr19	55417961	55417961	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagtgaccatctgttgccagGgaaattatggggctgttgaa	13	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55417961G>A	uc002qib.2	+	3	189	c.151G>A	c.(151-153)GGA>AGA	p.G51R	NCR1_uc002qic.2_Missense_Mutation_p.G51R|NCR1_uc002qie.2_Missense_Mutation_p.G51R|NCR1_uc002qid.2_Intron|NCR1_uc002qif.2_Intron|NCR1_uc010esj.2_Intron	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1	51	Ig-like 1.|Extracellular (Potential).				cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		CTGTTGCCAGGGAAATTATGG	0.488													7	60	---	---	---	---	PASS	A	55417961	A	A	55417961	3	1	4	1	0	0	0	0	1	0	0	0	10237	1233	43	3	161	3	NCR1	19	55417961	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	21096	55417961	3711022	3536	4127										
NLRP7	199713	broad.mit.edu	37	chr19	55451163	55451163	+	Nonsense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcaaaggcacgcatggcttGgtcctcgtctccaaagtgtc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55451163G>A	uc002qih.3	-	4	1100	c.1024C>T	c.(1024-1026)CAA>TAA	p.Q342*	NLRP7_uc002qig.3_Nonsense_Mutation_p.Q342*|NLRP7_uc002qii.3_Nonsense_Mutation_p.Q342*|NLRP7_uc010esk.2_Nonsense_Mutation_p.Q342*|NLRP7_uc010esl.2_Nonsense_Mutation_p.Q370*	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	342	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CGCATGGCTTGGTCCTCGTCT	0.617													6	14	---	---	---	---	PASS	A	55451163	A	A	55451163	4	1	4	1	0	0	0	0	0	1	0	0	10482	1357	47	3	2121	3	NLRP7	19	55451163	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	33202	55451163	3677820	3537	4128	177	2								
NLRP7	199713	broad.mit.edu	37	chr19	55451164	55451164	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaaaggcacgcatggcttgGtcctcgtctccaaagtgtct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55451164G>A	uc002qih.3	-	4	1099	c.1023C>T	c.(1021-1023)GAC>GAT	p.D341D	NLRP7_uc002qig.3_Silent_p.D341D|NLRP7_uc002qii.3_Silent_p.D341D|NLRP7_uc010esk.2_Silent_p.D341D|NLRP7_uc010esl.2_Silent_p.D369D	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	341	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		GCATGGCTTGGTCCTCGTCTC	0.617													7	13	---	---	---	---	PASS	A	55451164	A	A	55451164	2	1	4	1	0	0	0	0	0	0	0	1	10482	1252	44	3		3	NLRP7	19	55451164	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	55451164	3677819	3538	4129	177	2								
NLRP2	55655	broad.mit.edu	37	chr19	55493720	55493720	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatggtcctgcaggccttggGaaaaccacgctggcccagaa	12	12	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55493720G>A	uc002qij.2	+	6	740	c.654G>A	c.(652-654)GGG>GGA	p.G218G	NLRP2_uc010yfp.1_Silent_p.G195G|NLRP2_uc010esn.2_Silent_p.G194G|NLRP2_uc010eso.2_Silent_p.G215G|NLRP2_uc010esp.2_Silent_p.G196G	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	218	NACHT.|ATP (Potential).				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		CAGGCCTTGGGAAAACCACGC	0.547													21	31	---	---	---	---	PASS	A	55493720	A	A	55493720	2	1	4	1	0	0	0	0	0	0	0	1	10477	1161	41	2		2	NLRP2	19	55493720	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	42556	55493720	3635263	3539	4130										
SYT5	6861	broad.mit.edu	37	chr19	55686339	55686339	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgtggggacatagcggaggGagaagcagatgtccccaagc	16	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:55686339G>A	uc002qjm.1	-	6	1797	c.737C>T	c.(736-738)TCC>TTC	p.S246F	SYT5_uc002qjp.2_Missense_Mutation_p.S242F|SYT5_uc002qjn.1_Missense_Mutation_p.S246F|SYT5_uc002qjo.1_Missense_Mutation_p.S245F	NM_003180	NP_003171	O00445	SYT5_HUMAN	synaptotagmin V	246	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion|synaptic transmission	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane	metal ion binding|transporter activity				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		ATAGCGGAGGGAGAAGCAGAT	0.597													7	20	---	---	---	---	PASS	A	55686339	A	A	55686339	3	1	4	1	0	0	0	0	1	0	0	0	15474	1174	41	2	435	2	SYT5	19	55686339	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	192619	55686339	3442644	3540	4131										
NLRP9	338321	broad.mit.edu	37	chr19	56220399	56220399	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagtttcttcatcaaagccaGatttgtgcagcctgggaaaa	10	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56220399G>A	uc002qly.2	-	9	2883	c.2855C>T	c.(2854-2856)TCT>TTT	p.S952F		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	952						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		ATCAAAGCCAGATTTGTGCAG	0.383													8	32	---	---	---	---	PASS	A	56220399	A	A	56220399	3	1	4	1	0	0	0	0	1	0	0	0	10484	942	33	2	124	2	NLRP9	19	56220399	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	534060	56220399	2908584	3541	4132										
NLRP11	204801	broad.mit.edu	37	chr19	56297027	56297027	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatgctgtatttgacgttctCatggctgcagacattctggg	12	8	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56297027C>T	uc010ygf.1	-	12	3777	c.3066G>A	c.(3064-3066)ATG>ATA	p.M1022I	NLRP11_uc002qlz.2_Missense_Mutation_p.M869I|NLRP11_uc002qmb.2_Missense_Mutation_p.M923I|NLRP11_uc002qmc.2_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	1022							ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		TTGACGTTCTCATGGCTGCAG	0.378													14	18	---	---	---	---	PASS	T	56297027	T	T	56297027	3	4	4	1	0	0	0	0	1	0	0	0	10473	826	29	2	39	2	NLRP11	19	56297027	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	76628	56297027	2831956	3542	4133										
NLRP11	204801	broad.mit.edu	37	chr19	56329493	56329493	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aattccttgtcactgagattCtctagataccacagcaggtc	7	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56329493C>T	uc010ygf.1	-	4	759	c.48G>A	c.(46-48)GAG>GAA	p.E16E	NLRP11_uc002qmb.2_Intron|NLRP11_uc002qmc.2_Intron|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	16	DAPIN.						ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		CACTGAGATTCTCTAGATACC	0.428													12	21	---	---	---	---	PASS	T	56329493	T	T	56329493	2	4	4	1	0	0	0	0	0	0	0	1	10473	912	32	2		2	NLRP11	19	56329493	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	32466	56329493	2799490	3543	4134										
NLRP4	147945	broad.mit.edu	37	chr19	56363641	56363641	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgatcaagcactatgaagaAcaacaagcttggaacataac	7	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56363641A>G	uc002qmd.3	+	2	617	c.195A>G	c.(193-195)GAA>GAG	p.E65E		NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	65	DAPIN.						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)		ACTATGAAGAACAACAAGCTT	0.438													15	45	---	---	---	---	PASS	G	56363641	G	G	56363641	2	3	4	1	0	0	0	0	0	0	0	1	10479	40	2	5		5	NLRP4	19	56363641	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	34148	56363641	2765342	3544	4135										
NLRP4	147945	broad.mit.edu	37	chr19	56369181	56369181	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttggaccgcctttttgctcCcaaggaagctgggaaacagc	11	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56369181C>T	uc002qmd.3	+	3	844	c.422C>T	c.(421-423)CCC>CTC	p.P141L	NLRP4_uc002qmf.2_Missense_Mutation_p.P66L|NLRP4_uc010etf.2_5'UTR	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	141							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)		CTTTTTGCTCCCAAGGAAGCT	0.488													20	78	---	---	---	---	PASS	T	56369181	T	T	56369181	3	4	4	1	0	0	0	0	1	0	0	0	10479	623	22	3	428	3	NLRP4	19	56369181	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	5540	56369181	2759802	3545	4136										
NLRP4	147945	broad.mit.edu	37	chr19	56369416	56369416	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgctcctataacagagatCgtgtctcaaccggagagact	10	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56369416C>T	uc002qmd.3	+	3	1079	c.657C>T	c.(655-657)ATC>ATT	p.I219I	NLRP4_uc002qmf.2_Silent_p.I144I|NLRP4_uc010etf.2_Silent_p.I50I	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	219	NACHT.						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)		TAACAGAGATCGTGTCTCAAC	0.537													30	68	---	---	---	---	PASS	T	56369416	T	T	56369416	2	4	4	1	0	0	0	0	0	0	0	1	10479	874	31	2		2	NLRP4	19	56369416	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	235	56369416	2759567	3546	4137										
NLRP4	147945	broad.mit.edu	37	chr19	56370083	56370083	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaagatacttctgaagtacGgggagcgtgagagctcctac	12	10	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56370083G>A	uc002qmd.3	+	3	1746	c.1324G>A	c.(1324-1326)GGG>AGG	p.G442R	NLRP4_uc002qmf.2_Missense_Mutation_p.G367R|NLRP4_uc010etf.2_Missense_Mutation_p.G273R	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	442	NACHT.						ATP binding	p.G442R(1)		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)		TCTGAAGTACGGGGAGCGTGA	0.532													7	58	---	---	---	---	PASS	A	56370083	A	A	56370083	3	1	4	1	0	0	0	0	1	0	0	0	10479	1116	39	1	1330	1	NLRP4	19	56370083	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	667	56370083	2758900	3547	4138										
NLRP13	126204	broad.mit.edu	37	chr19	56422029	56422029	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcaggtctagctcatgcaGattctcatttgtgaccaacg	8	11	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56422029G>T	uc010ygg.1	-	6	2207	c.2182C>A	c.(2182-2184)CTG>ATG	p.L728M		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	728	LRR 1.						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)		AGCTCATGCAGATTCTCATTT	0.453													14	59	---	---	---	---	PASS	T	56422029	T	T	56422029	3	4	4	1	0	0	0	0	1	0	0	0	10475	933	33	2	971	2	NLRP13	19	56422029	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	51946	56422029	2706954	3548	4139										
NLRP13	126204	broad.mit.edu	37	chr19	56423076	56423076	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtttgtaatactcactccaGaatttccaagtccctttcaa	5	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56423076G>A	uc010ygg.1	-	5	2132	c.2107C>T	c.(2107-2109)CTG>TTG	p.L703L		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	703							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)		ACTCACTCCAGAATTTCCAAG	0.393													18	58	---	---	---	---	PASS	A	56423076	A	A	56423076	2	1	4	1	0	0	0	0	0	0	0	1	10475	933	33	2		2	NLRP13	19	56423076	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1047	56423076	2705907	3549	4140										
NLRP13	126204	broad.mit.edu	37	chr19	56423566	56423566	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggctgcaaaaaactcctgGaaacttaggtgggtgaaagt	12	6	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56423566G>A	uc010ygg.1	-	5	1642	c.1617C>T	c.(1615-1617)TTC>TTT	p.F539F		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	539	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)		AAAACTCCTGGAAACTTAGGT	0.453													41	43	---	---	---	---	PASS	A	56423566	A	A	56423566	2	1	4	1	0	0	0	0	0	0	0	1	10475	1165	41	2		2	NLRP13	19	56423566	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	490	56423566	2705417	3550	4141										
NLRP13	126204	broad.mit.edu	37	chr19	56423896	56423896	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcagacaggaacatacggtCcaacacaccatgggggcact	10	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56423896C>T	uc010ygg.1	-	5	1312	c.1287G>A	c.(1285-1287)TGG>TGA	p.W429*		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	429	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)		AACATACGGTCCAACACACCA	0.453													10	63	---	---	---	---	PASS	T	56423896	T	T	56423896	4	4	4	1	0	0	0	0	0	1	0	0	10475	856	30	2	1870	2	NLRP13	19	56423896	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	330	56423896	2705087	3551	4142										
NLRP5	126206	broad.mit.edu	37	chr19	56515202	56515202	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacaaatcgctcaccttttcCagctacgggctgcaatggtg	10	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56515202C>T	uc002qmj.2	+	2	183	c.183C>T	c.(181-183)TCC>TCT	p.S61S	NLRP5_uc002qmi.2_Silent_p.S61S	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	61	DAPIN.					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)		TCACCTTTTCCAGCTACGGGC	0.428													20	73	---	---	---	---	PASS	T	56515202	T	T	56515202	2	4	4	1	0	0	0	0	0	0	0	1	10480	581	21	3		3	NLRP5	19	56515202	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	91306	56515202	2613781	3552	4143										
NLRP5	126206	broad.mit.edu	37	chr19	56569657	56569657	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgaggcactctccttggcCctttcctgcaaccggcatct	9	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56569657C>T	uc002qmj.2	+	14	3351	c.3351C>T	c.(3349-3351)GCC>GCT	p.A1117A	NLRP5_uc002qmi.2_Silent_p.A1098A	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	1117						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)		TCTCCTTGGCCCTTTCCTGCA	0.517													31	37	---	---	---	---	PASS	T	56569657	T	T	56569657	2	4	4	1	0	0	0	0	0	0	0	1	10480	610	22	3		3	NLRP5	19	56569657	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	54455	56569657	2559326	3553	4144										
ZSCAN5B	342933	broad.mit.edu	37	chr19	56701471	56701471	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtagggcctctcgccagtgtGgactcgctggtgaactcgga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56701471G>A	uc010ygh.1	-	4	1213	c.1213C>T	c.(1213-1215)CAC>TAC	p.H405Y		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	405	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TCGCCAGTGTGGACTCGCTGG	0.592													13	31	---	---	---	---	PASS	A	56701471	A	A	56701471	3	1	4	1	0	0	0	0	1	0	0	0	18236	1348	47	3	278	3	ZSCAN5B	19	56701471	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	131814	56701471	2427512	3554	4145	178	2								
ZSCAN5B	342933	broad.mit.edu	37	chr19	56701472	56701472	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagggcctctcgccagtgtgGactcgctggtgaactcggag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56701472G>A	uc010ygh.1	-	4	1212	c.1212C>T	c.(1210-1212)GTC>GTT	p.V404V		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	404	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CGCCAGTGTGGACTCGCTGGT	0.592													13	32	---	---	---	---	PASS	A	56701472	A	A	56701472	2	1	4	1	0	0	0	0	0	0	0	1	18236	1161	41	2		2	ZSCAN5B	19	56701472	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	56701472	2427511	3555	4146	178	2								
ZNF583	147949	broad.mit.edu	37	chr19	56935574	56935574	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatcagagaattcatactgGagaaagaccctatgaatgta	8	7	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56935574G>A	uc010ygl.1	+	5	1712	c.1547G>A	c.(1546-1548)GGA>GAA	p.G516E	ZNF583_uc002qnc.2_Missense_Mutation_p.G516E|ZNF583_uc010ygm.1_Missense_Mutation_p.G516E	NM_001159860	NP_001153332	Q96ND8	ZN583_HUMAN	zinc finger protein 583	516					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0564)		ATTCATACTGGAGAAAGACCC	0.343													33	49	---	---	---	---	PASS	A	56935574	A	A	56935574	3	1	4	1	0	0	0	0	1	0	0	0	18012	1174	41	2	1561	2	ZNF583	19	56935574	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	234102	56935574	2193409	3556	4147										
ZNF667	63934	broad.mit.edu	37	chr19	56969570	56969570	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctaccatccagggtgctttCcctttctccaataaggtgat	7	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56969570C>T	uc002qnd.2	-	4	369	c.207G>A	c.(205-207)GGG>GGA	p.G69G	ZNF667_uc010etl.2_5'UTR|ZNF667_uc002qne.2_Silent_p.G69G|ZNF667_uc010etm.2_5'UTR	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	69	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		AGGGTGCTTTCCCTTTCTCCA	0.423													12	40	---	---	---	---	PASS	T	56969570	T	T	56969570	2	4	4	1	0	0	0	0	0	0	0	1	18071	842	30	2		2	ZNF667	19	56969570	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	33996	56969570	2159413	3557	4148										
ZNF667	63934	broad.mit.edu	37	chr19	56973716	56973716	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgccacttaccttggatttGgatttcccccgtgcagaagg	10	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:56973716G>A	uc002qnd.2	-	2	186	c.24C>T	c.(22-24)TCC>TCT	p.S8S	ZNF667_uc010etl.2_5'UTR|ZNF667_uc002qne.2_Silent_p.S8S|ZNF667_uc010etm.2_5'UTR	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	8					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		CCTTGGATTTGGATTTCCCCC	0.537													46	77	---	---	---	---	PASS	A	56973716	A	A	56973716	2	1	4	1	0	0	0	0	0	0	0	1	18071	1335	47	3		3	ZNF667	19	56973716	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4146	56973716	2155267	3558	4149										
ZNF471	57573	broad.mit.edu	37	chr19	57035792	57035792	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tagctatggacttgagtgttCcacttttgaagaaaattgga	10	5	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:57035792C>T	uc002qnh.2	+	5	489	c.356C>T	c.(355-357)TCC>TTC	p.S119F		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	119					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		CTTGAGTGTTCCACTTTTGAA	0.378													15	27	---	---	---	---	PASS	T	57035792	T	T	57035792	3	4	4	1	0	0	0	0	1	0	0	0	17927	855	30	2	370	2	ZNF471	19	57035792	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	62076	57035792	2093191	3559	4150										
ZNF471	57573	broad.mit.edu	37	chr19	57035940	57035940	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actaaatttgggaaatgtatCcatctggaaaacatagaaga	8	5	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:57035940C>T	uc002qnh.2	+	5	637	c.504C>T	c.(502-504)ATC>ATT	p.I168I		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	168					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		GGAAATGTATCCATCTGGAAA	0.299													10	17	---	---	---	---	PASS	T	57035940	T	T	57035940	2	4	4	1	0	0	0	0	0	0	0	1	17927	845	30	2		2	ZNF471	19	57035940	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	148	57035940	2093043	3560	4151										
ZFP28	140612	broad.mit.edu	37	chr19	57060384	57060384	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caagaaggacttctgcgaagGaaagctatcccaggcagtga	12	9	1	2	rs151188111		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:57060384G>A	uc002qnj.2	+	5	652	c.581G>A	c.(580-582)GGA>GAA	p.G194E	ZFP28_uc002qni.2_Missense_Mutation_p.G194E|uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	194					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		TTCTGCGAAGGAAAGCTATCC	0.418													7	21	---	---	---	---	PASS	A	57060384	A	A	57060384	3	1	4	1	0	0	0	0	1	0	0	0	17639	1174	41	2	599	2	ZFP28	19	57060384	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	24444	57060384	2068599	3561	4152										
ZNF470	388566	broad.mit.edu	37	chr19	57085888	57085888	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tacaggaacctagtttcagtGggtaagagtatcttcctcct	9	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:57085888G>T	uc002qnl.3	+	4	862	c.186G>T	c.(184-186)GTG>GTT	p.V62V	ZNF470_uc010etn.2_RNA	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	62	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		TAGTTTCAGTGGGTAAGAGTA	0.408													5	86	---	---	---	---	PASS	T	57085888	T	T	57085888	2	4	4	1	0	0	0	0	0	0	0	1	17926	1362	47	3		3	ZNF470	19	57085888	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	25504	57085888	2043095	3562	4153										
ZNF71	58491	broad.mit.edu	37	chr19	57133813	57133813	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagccctacgagtgctacatCtgcaagaagcacttcacggg	10	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:57133813C>T	uc002qnm.3	+	3	1396	c.1158C>T	c.(1156-1158)ATC>ATT	p.I386I		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	386	C2H2-type 10.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		AGTGCTACATCTGCAAGAAGC	0.632													18	47	---	---	---	---	PASS	T	57133813	T	T	57133813	2	4	4	1	0	0	0	0	0	0	0	1	18111	903	32	2		2	ZNF71	19	57133813	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	47925	57133813	1995170	3563	4154										
ZNF835	90485	broad.mit.edu	37	chr19	57176237	57176237	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcccgcagtccccgcatttCcacggcttcttggggcctcc	9	18	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:57176237C>T	uc010ygo.1	-	2	396	c.396G>A	c.(394-396)TGG>TGA	p.W132*	ZNF835_uc010ygn.1_Nonsense_Mutation_p.W110*	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						CCCCGCATTTCCACGGCTTCT	0.637													7	50	---	---	---	---	PASS	T	57176237	T	T	57176237	4	4	4	1	0	0	0	0	0	1	0	0	18183	856	30	2	1285	2	ZNF835	19	57176237	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	42424	57176237	1952746	3564	4155										
ZNF835	90485	broad.mit.edu	37	chr19	57176473	57176473	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctggctctggacagctttCctggttttcctgcaggtcct	10	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:57176473C>T	uc010ygo.1	-	2	160	c.160G>A	c.(160-162)GAA>AAA	p.E54K	ZNF835_uc010ygn.1_Missense_Mutation_p.E32K	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						GGACAGCTTTCCTGGTTTTCC	0.587													13	28	---	---	---	---	PASS	T	57176473	T	T	57176473	3	4	4	1	0	0	0	0	1	0	0	0	18183	864	30	2	1521	2	ZNF835	19	57176473	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	236	57176473	1952510	3565	4156										
PEG3	5178	broad.mit.edu	37	chr19	57328601	57328601	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcctttttgatcgtgaatCgagcccttcccatctgtgtc	8	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:57328601C>T	uc002qnu.2	-	7	1560	c.1209G>A	c.(1207-1209)TCG>TCA	p.S403S	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.S374S|PEG3_uc002qnv.2_Silent_p.S403S|PEG3_uc002qnw.2_Silent_p.S279S|PEG3_uc002qnx.2_Silent_p.S277S|PEG3_uc010etr.2_Silent_p.S403S	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	403					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GATCGTGAATCGAGCCCTTCC	0.478													16	76	---	---	---	---	PASS	T	57328601	T	T	57328601	2	4	4	1	0	0	0	0	0	0	0	1	11720	871	31	2		2	PEG3	19	57328601	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	152128	57328601	1800382	3566	4157										
USP29	57663	broad.mit.edu	37	chr19	57642683	57642683	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcactctgggtatatcttCttttacatgcacaatgggat	7	9	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:57642683C>T	uc002qny.2	+	4	2996	c.2640C>T	c.(2638-2640)TTC>TTT	p.F880F		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	880					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GGTATATCTTCTTTTACATGC	0.473													18	32	---	---	---	---	PASS	T	57642683	T	T	57642683	2	4	4	1	0	0	0	0	0	0	0	1	17056	912	32	2		2	USP29	19	57642683	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	314082	57642683	1486300	3567	4158										
ZIM3	114026	broad.mit.edu	37	chr19	57649966	57649966	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcctcgaaggtcactcttcCctgtaacaacagattcccga	6	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:57649966C>T	uc002qnz.1	-	3	402	c.16G>A	c.(16-18)GGA>AGA	p.G6R		NM_052882	NP_443114	Q96PE6	ZIM3_HUMAN	zinc finger, imprinted 3	6					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.243)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GTCACTCTTCCCTGTAACAAC	0.478													13	47	---	---	---	---	PASS	T	57649966	T	T	57649966	3	4	4	1	0	0	0	0	1	0	0	0	17682	637	22	3	1414	3	ZIM3	19	57649966	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	7283	57649966	1479017	3568	4159										
ZNF304	57343	broad.mit.edu	37	chr19	57869017	57869017	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgagtgcagtgaatgtgggAaattctttagccgcaactct	11	7	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:57869017A>G	uc010ygw.1	+	3	2168	c.1780A>G	c.(1780-1782)AAA>GAA	p.K594E	ZNF304_uc010etw.2_Missense_Mutation_p.K641E|ZNF304_uc010etx.2_Missense_Mutation_p.K552E	NM_020657	NP_065708	Q9HCX3	ZN304_HUMAN	zinc finger protein 304	594	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0265)		TGAATGTGGGAAATTCTTTAG	0.478													13	50	---	---	---	---	PASS	G	57869017	G	G	57869017	3	3	4	1	0	0	0	0	1	0	0	0	17830	247	9	5	1790	5	ZNF304	19	57869017	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	219051	57869017	1259966	3569	4160										
VN1R1	57191	broad.mit.edu	37	chr19	57967657	57967657	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attaagttataaaaacaaagGagaaaggaatttcccaggat	8	4	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:57967657G>A	uc002qos.1	-	1	198	c.198C>T	c.(196-198)CTC>CTT	p.L66L	ZNF547_uc002qpm.3_Intron	NM_020633	NP_065684	Q9GZP7	VN1R1_HUMAN	vomeronasal 1 receptor 1	66	Helical; Name=1; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)|Breast(46;0.222)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)|Lung(386;0.171)		AAAAACAAAGGAGAAAGGAAT	0.418													9	35	---	---	---	---	PASS	A	57967657	A	A	57967657	2	1	4	1	0	0	0	0	0	0	0	1	17175	1161	41	2		2	VN1R1	19	57967657	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	98640	57967657	1161326	3570	4161										
ZNF550	162972	broad.mit.edu	37	chr19	58059242	58059242	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcctcatccctagctctccCcaacctcgaatcacttgagg	5	17	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:58059242C>A	uc002qpe.1	-	2	247	c.247G>T	c.(247-249)GGG>TGG	p.G83W	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF550_uc002qpc.2_RNA|ZNF550_uc010eue.1_RNA|ZNF550_uc002qpd.2_RNA	NM_001039654	NP_001034743	Q7Z398	ZN550_HUMAN	zinc finger protein 550	124					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CTAGCTCTCCCCAACCTCGAA	0.532													6	146	---	---	---	---	PASS	A	58059242	A	A	58059242	3	1	4	1	0	0	0	0	1	0	0	0	17979	623	22	3	902	3	ZNF550	19	58059242	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	91585	58059242	1069741	3571	4162										
ZNF416	55659	broad.mit.edu	37	chr19	58083606	58083606	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgttgtgtaaaggacttccCacatttgccacactcatatg	8	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:58083606C>A	uc002qpf.2	-	4	1837	c.1666G>T	c.(1666-1668)GGG>TGG	p.G556W	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	556	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		AAGGACTTCCCACATTTGCCA	0.498													5	92	---	---	---	---	PASS	A	58083606	A	A	58083606	3	1	4	1	0	0	0	0	1	0	0	0	17890	594	21	3	122	3	ZNF416	19	58083606	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	24364	58083606	1045377	3572	4163										
ZNF671	79891	broad.mit.edu	37	chr19	58232072	58232072	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaatgagtttggagatgcagCtgaaagctttaccacatctg	11	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:58232072C>T	uc002qpz.3	-	4	1481	c.1382G>A	c.(1381-1383)AGC>AAC	p.S461N	ZNF776_uc002qpx.2_Intron|ZNF671_uc010eug.2_Missense_Mutation_p.S384N|ZNF671_uc010yhf.1_Missense_Mutation_p.S363N	NM_024833	NP_079109	Q8TAW3	ZN671_HUMAN	zinc finger protein 671	461	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GGAGATGCAGCTGAAAGCTTT	0.468													27	45	---	---	---	---	PASS	T	58232072	T	T	58232072	3	4	4	1	0	0	0	0	1	0	0	0	18075	797	28	3	226	3	ZNF671	19	58232072	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	148466	58232072	896911	3573	4164										
ZNF776	284309	broad.mit.edu	37	chr19	58265935	58265935	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcagtctcattcgacatcaGcagattcactctggagaaag	10	10	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:58265935G>A	uc002qpx.2	+	3	1660	c.1437G>A	c.(1435-1437)CAG>CAA	p.Q479Q	ZNF587_uc002qqb.2_Intron|ZNF776_uc002qqa.2_Silent_p.Q479Q	NM_173632	NP_775903	Q68DI1	ZN776_HUMAN	zinc finger protein 776	479	C2H2-type 10; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0256)		TTCGACATCAGCAGATTCACT	0.453													36	44	---	---	---	---	PASS	A	58265935	A	A	58265935	2	1	4	1	0	0	0	0	0	0	0	1	18146	962	34	3		3	ZNF776	19	58265935	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	33863	58265935	863048	3574	4165										
ZSCAN18	65982	broad.mit.edu	37	chr19	58601296	58601296	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccttcttgcagctctcaggGtactgtgccaccacccaggg	11	15	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:58601296G>A	uc002qri.2	-	2	648	c.339C>T	c.(337-339)TAC>TAT	p.Y113Y	ZSCAN18_uc002qrj.3_Silent_p.Y113Y|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Silent_p.Y113Y|ZSCAN18_uc010yht.1_Silent_p.Y169Y|ZSCAN18_uc002qrk.1_Silent_p.Y113Y|ZSCAN18_uc002qrl.2_Silent_p.Y113Y	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	113	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		AGCTCTCAGGGTACTGTGCCA	0.632													9	51	---	---	---	---	PASS	A	58601296	A	A	58601296	2	1	4	1	0	0	0	0	0	0	0	1	18227	1256	44	3		3	ZSCAN18	19	58601296	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	335361	58601296	527687	3575	4166										
ZSCAN18	65982	broad.mit.edu	37	chr19	58601475	58601475	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcctcctggtagacaaattCccggaaacgcaggcgggaga	13	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr19:58601475C>T	uc002qri.2	-	2	469	c.160G>A	c.(160-162)GAA>AAA	p.E54K	ZSCAN18_uc002qrj.3_Missense_Mutation_p.E54K|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Missense_Mutation_p.E54K|ZSCAN18_uc010yht.1_Missense_Mutation_p.E110K|ZSCAN18_uc002qrk.1_Missense_Mutation_p.E54K|ZSCAN18_uc002qrl.2_Missense_Mutation_p.E54K	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	54	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TAGACAAATTCCCGGAAACGC	0.677													11	14	---	---	---	---	PASS	T	58601475	T	T	58601475	3	4	4	1	0	0	0	0	1	0	0	0	18227	864	30	2	1396	2	ZSCAN18	19	58601475	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	179	58601475	527508	3576	4167										
PSMF1	9491	broad.mit.edu	37	chr20	1115883	1115883	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccgggagttcccccctgctaCcgccagagaggtggacccac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:1115883C>T	uc002wel.3	+	5	653	c.485C>T	c.(484-486)ACC>ATC	p.T162I	PSMF1_uc010zpo.1_Missense_Mutation_p.T74I|PSMF1_uc002wem.3_Missense_Mutation_p.T162I|PSMF1_uc010zpp.1_Intron|PSMF1_uc002wen.3_Missense_Mutation_p.T162I|PSMF1_uc002wep.3_Missense_Mutation_p.T113I	NM_178578	NP_848693	Q92530	PSMF1_HUMAN	proteasome inhibitor subunit 1	162	Pro-rich.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome core complex	endopeptidase inhibitor activity|protein binding				0						CCCCCTGCTACCGCCAGAGAG	0.587													20	16	---	---	---	---	PASS	T	1115883	T	T	1115883	3	4	4	1	0	0	0	0	1	0	0	0	12710	507	18	3	499	3	PSMF1	20	1115883	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08		1115883	61909637	3577	4168	179	2								
PSMF1	9491	broad.mit.edu	37	chr20	1115884	1115884	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgggagttcccccctgctacCgccagagaggtggacccact							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:1115884C>T	uc002wel.3	+	5	654	c.486C>T	c.(484-486)ACC>ACT	p.T162T	PSMF1_uc010zpo.1_Silent_p.T74T|PSMF1_uc002wem.3_Silent_p.T162T|PSMF1_uc010zpp.1_Intron|PSMF1_uc002wen.3_Silent_p.T162T|PSMF1_uc002wep.3_Silent_p.T113T	NM_178578	NP_848693	Q92530	PSMF1_HUMAN	proteasome inhibitor subunit 1	162	Pro-rich.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome core complex	endopeptidase inhibitor activity|protein binding				0						CCCCTGCTACCGCCAGAGAGG	0.582													20	16	---	---	---	---	PASS	T	1115884	T	T	1115884	2	4	4	1	0	0	0	0	0	0	0	1	12710	639	23	1		1	PSMF1	20	1115884	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	1115884	61909636	3578	4169	179	2								
PSMF1	9491	broad.mit.edu	37	chr20	1145091	1145091	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccaggagctcgctttgacccCtttggacccattgggaccag	11	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:1145091C>T	uc002wel.3	+	7	903	c.735C>T	c.(733-735)CCC>CCT	p.P245P	PSMF1_uc010zpo.1_Silent_p.P157P|PSMF1_uc002wem.3_Silent_p.P245P|PSMF1_uc010zpp.1_Silent_p.P183P|PSMF1_uc002wen.3_Silent_p.P245P|PSMF1_uc002wep.3_Silent_p.P196P	NM_178578	NP_848693	Q92530	PSMF1_HUMAN	proteasome inhibitor subunit 1	245	Pro-rich.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome core complex	endopeptidase inhibitor activity|protein binding				0						GCTTTGACCCCTTTGGACCCA	0.498													39	80	---	---	---	---	PASS	T	1145091	T	T	1145091	2	4	4	1	0	0	0	0	0	0	0	1	12710	668	24	3		3	PSMF1	20	1145091	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	29207	1145091	61880429	3579	4170										
SNPH	9751	broad.mit.edu	37	chr20	1277021	1277021	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggacccacagcctcatggcCatgtccctgccaggaagtag	11	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:1277021C>T	uc002wes.2	+	3	242	c.6C>T	c.(4-6)GCC>GCT	p.A2A	SNPH_uc002wet.2_Silent_p.A46A	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	2					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						GCCTCATGGCCATGTCCCTGC	0.692													14	18	---	---	---	---	PASS	T	1277021	T	T	1277021	2	4	4	1	0	0	0	0	0	0	0	1	14850	581	21	3		3	SNPH	20	1277021	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	131930	1277021	61748499	3580	4171										
CPXM1	56265	broad.mit.edu	37	chr20	2776894	2776894	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcatgctgggtggcctaccCggtggtaggcgatctcatag	14	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:2776894C>A	uc002wgu.2	-	9	1305	c.1241G>T	c.(1240-1242)CGG>CTG	p.R414L	CPXM1_uc010gas.2_Missense_Mutation_p.R414L	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	414					cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						GTGGCCTACCCGGTGGTAGGC	0.622													4	44	---	---	---	---	PASS	A	2776894	A	A	2776894	3	1	4	1	0	0	0	0	1	0	0	0	3837	666	23	1	987	1	CPXM1	20	2776894	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1499873	2776894	60248626	3581	4172										
VPS16	64601	broad.mit.edu	37	chr20	2843558	2843558	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgttcgggactatcacatcGggatcccgctcacctatagc	9	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:2843558G>T	uc002whe.2	+	13	1357	c.1309G>T	c.(1309-1311)GGG>TGG	p.G437W	VPS16_uc002whh.2_RNA|PTPRA_uc002whj.2_5'Flank|VPS16_uc002whf.2_Intron|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_Missense_Mutation_p.G123W|VPS16_uc002whi.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	437					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						CTATCACATCGGGATCCCGCT	0.582													5	130	---	---	---	---	PASS	T	2843558	T	T	2843558	3	4	4	1	0	0	0	0	1	0	0	0	17190	1116	39	1	1359	1	VPS16	20	2843558	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	66664	2843558	60181962	3582	4173										
VPS16	64601	broad.mit.edu	37	chr20	2847114	2847114	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatgtggccatcgaacaccGgaatgaggctgagctgagcc	14	10	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:2847114G>T	uc002whe.2	+	24	2462	c.2414G>T	c.(2413-2415)CGG>CTG	p.R805L	VPS16_uc002whh.2_Intron|PTPRA_uc002whj.2_Intron|VPS16_uc002whf.2_Missense_Mutation_p.R661L|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_Missense_Mutation_p.R491L|VPS16_uc002whi.2_Missense_Mutation_p.R289L	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	805					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						ATCGAACACCGGAATGAGGCT	0.597													5	75	---	---	---	---	PASS	T	2847114	T	T	2847114	3	4	4	1	0	0	0	0	1	0	0	0	17190	1116	39	1	2508	1	VPS16	20	2847114	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3556	2847114	60178406	3583	4174										
ATRN	8455	broad.mit.edu	37	chr20	3543878	3543878	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccattcttaaggacagccgaTttttccgttacttgcacaca	6	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:3543878T>A	uc002wim.2	+	10	1744	c.1654T>A	c.(1654-1656)TTT>ATT	p.F552I	ATRN_uc002wil.2_Missense_Mutation_p.F552I	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	552	Extracellular (Potential).|Kelch 4.				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						GGACAGCCGATTTTTCCGTTA	0.378													40	60	---	---	---	---	PASS	A	3543878	A	A	3543878	3	1	4	1	0	0	0	0	1	0	0	0	1206	1493	52	5	1692	5	ATRN	20	3543878	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	696764	3543878	59481642	3584	4175										
ADAM33	80332	broad.mit.edu	37	chr20	3655426	3655426	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcccagagctcacctcatcCcagagcaggtgcagaggact	10	15	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:3655426C>T	uc002wit.2	-	5	491	c.404G>A	c.(403-405)GGG>GAG	p.G135E	ADAM33_uc002wir.1_Missense_Mutation_p.G135E|ADAM33_uc002wis.2_5'Flank|ADAM33_uc002wiu.2_Missense_Mutation_p.G135E|ADAM33_uc002wiw.1_RNA|ADAM33_uc010gba.1_Intron|ADAM33_uc010gbb.1_Intron|ADAM33_uc002wix.1_Intron|ADAM33_uc010zqg.1_Missense_Mutation_p.G147E|ADAM33_uc010zqh.1_Missense_Mutation_p.G135E	NM_025220	NP_079496	Q9BZ11	ADA33_HUMAN	ADAM metallopeptidase domain 33 isoform alpha	135	Extracellular (Potential).|Cysteine switch (By similarity).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|ovary(1)|skin(1)	4						TCACCTCATCCCAGAGCAGGT	0.627													16	22	---	---	---	---	PASS	T	3655426	T	T	3655426	3	4	4	1	0	0	0	0	1	0	0	0	250	623	22	3	2109	3	ADAM33	20	3655426	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	111548	3655426	59370094	3585	4176										
SIGLEC1	6614	broad.mit.edu	37	chr20	3675063	3675063	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggtggaggccacaaggcgatCcccgtggagcagccgcagct	16	13	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:3675063C>T	uc002wja.2	-	12	3061	c.3061G>A	c.(3061-3063)GAT>AAT	p.D1021N	SIGLEC1_uc002wjb.1_5'Flank|SIGLEC1_uc002wiz.3_Missense_Mutation_p.D1021N	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1021	Ig-like C2-type 10.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						ACAAGGCGATCCCCGTGGAGC	0.662													4	11	---	---	---	---	PASS	T	3675063	T	T	3675063	3	4	4	1	0	0	0	0	1	0	0	0	14305	855	30	2	2108	2	SIGLEC1	20	3675063	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	19637	3675063	59350457	3586	4177										
CDC25B	994	broad.mit.edu	37	chr20	3781422	3781422	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccacagccccgtgcttcgGaacatcaccaactcccaggc	9	18	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:3781422G>A	uc002wjn.2	+	6	1270	c.492G>A	c.(490-492)CGG>CGA	p.R164R	CDC25B_uc010zqk.1_Silent_p.R100R|CDC25B_uc010zql.1_Silent_p.R86R|CDC25B_uc010zqm.1_Silent_p.R100R|CDC25B_uc002wjl.2_Silent_p.R52R|CDC25B_uc002wjm.2_Silent_p.R52R|CDC25B_uc002wjo.2_Silent_p.R150R|CDC25B_uc002wjp.2_Intron|CDC25B_uc002wjq.2_Intron|CDC25B_uc010gbc.2_5'Flank	NM_021873	NP_068659	P30305	MPIP2_HUMAN	cell division cycle 25B isoform 1	164					cell division|G2/M transition of mitotic cell cycle|mitosis|positive regulation of cell proliferation	cytosol|microtubule organizing center|nucleoplasm	protein binding|protein tyrosine phosphatase activity			lung(3)|ovary(2)	5						CCGTGCTTCGGAACATCACCA	0.667													19	19	---	---	---	---	PASS	A	3781422	A	A	3781422	2	1	4	1	0	0	0	0	0	0	0	1	3063	1161	41	2		2	CDC25B	20	3781422	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	106359	3781422	59244098	3587	4178										
CHGB	1114	broad.mit.edu	37	chr20	5903242	5903242	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgacagccaagtctctgaagAagtgaagacacgccattctg	10	11	2	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:5903242A>G	uc002wmg.2	+	4	758	c.452A>G	c.(451-453)GAA>GGA	p.E151G	CHGB_uc010zqz.1_5'UTR	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	151						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						GTCTCTGAAGAAGTGAAGACA	0.572													24	22	---	---	---	---	PASS	G	5903242	G	G	5903242	3	3	4	1	0	0	0	0	1	0	0	0	3339	246	9	5	466	5	CHGB	20	5903242	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2121820	5903242	57122278	3588	4179										
CHGB	1114	broad.mit.edu	37	chr20	5903364	5903364	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaacaccttgaagagccaGgagagacacaaaacgctttt	9	9	0	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:5903364G>A	uc002wmg.2	+	4	880	c.574G>A	c.(574-576)GGA>AGA	p.G192R	CHGB_uc010zqz.1_5'UTR	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	192						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						TGAAGAGCCAGGAGAGACACA	0.488													30	92	---	---	---	---	PASS	A	5903364	A	A	5903364	3	1	4	1	0	0	0	0	1	0	0	0	3339	1001	35	3	588	3	CHGB	20	5903364	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	122	5903364	57122156	3589	4180										
CRLS1	54675	broad.mit.edu	37	chr20	5990442	5990442	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaaaacccatggacaatcCcgaatatgttgtcaatgacg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:5990442C>T	uc002wmn.3	+	2	482	c.328C>T	c.(328-330)CCG>TCG	p.P110S	CRLS1_uc010gbq.2_RNA|CRLS1_uc010gbr.2_Missense_Mutation_p.P11S|CRLS1_uc010gbs.1_5'UTR	NM_019095	NP_061968	Q9UJA2	CRLS1_HUMAN	cardiolipin synthase 1 isoform 1	110	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphotransferase activity, for other substituted phosphate groups				0						ATGGACAATCCCGAATATGTT	0.318													13	36	---	---	---	---	PASS	T	5990442	T	T	5990442	3	4	4	1	0	0	0	0	1	0	0	0	3889	623	22	3	347	3	CRLS1	20	5990442	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	87078	5990442	57035078	3590	4181	180	2								
CRLS1	54675	broad.mit.edu	37	chr20	5990443	5990443	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaaaacccatggacaatccCgaatatgttgtcaatgacga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:5990443C>T	uc002wmn.3	+	2	483	c.329C>T	c.(328-330)CCG>CTG	p.P110L	CRLS1_uc010gbq.2_RNA|CRLS1_uc010gbr.2_Missense_Mutation_p.P11L|CRLS1_uc010gbs.1_5'UTR	NM_019095	NP_061968	Q9UJA2	CRLS1_HUMAN	cardiolipin synthase 1 isoform 1	110	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphotransferase activity, for other substituted phosphate groups				0						TGGACAATCCCGAATATGTTG	0.318													13	36	---	---	---	---	PASS	T	5990443	T	T	5990443	3	4	4	1	0	0	0	0	1	0	0	0	3889	652	23	1	348	1	CRLS1	20	5990443	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	5990443	57035077	3591	4182	180	2								
LRRN4	164312	broad.mit.edu	37	chr20	6022121	6022121	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcgccgacgtgtccgtggtCtccgtcaccccctgcagcct	11	18	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:6022121C>A	uc002wmo.2	-	5	1994	c.1770G>T	c.(1768-1770)GAG>GAT	p.E590D		NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	590	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				skin(3)	3						TGTCCGTGGTCTCCGTCACCC	0.711													19	32	---	---	---	---	PASS	A	6022121	A	A	6022121	3	1	4	1	0	0	0	0	1	0	0	0	9037	912	32	2	456	2	LRRN4	20	6022121	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	31678	6022121	57003399	3592	4183										
PLCB1	23236	broad.mit.edu	37	chr20	8862318	8862318	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agacaaattcaaaagactgcCcctcgagattttggaattcg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:8862318C>T	uc002wnb.2	+	32	3476	c.3473C>T	c.(3472-3474)CCC>CTC	p.P1158L	PLCB1_uc002wna.2_3'UTR	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	1158					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						AAAAGACTGCCCCTCGAGATT	0.478													71	159	---	---	---	---	PASS	T	8862318	T	T	8862318	3	4	4	1	0	0	0	0	1	0	0	0	12027	623	22	3	3702	3	PLCB1	20	8862318	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2840197	8862318	54163202	3593	4184	181	2								
PLCB1	23236	broad.mit.edu	37	chr20	8862319	8862319	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacaaattcaaaagactgccCctcgagattttggaattcgt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:8862319C>T	uc002wnb.2	+	32	3477	c.3474C>T	c.(3472-3474)CCC>CCT	p.P1158P	PLCB1_uc002wna.2_3'UTR	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	1158					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						AAAGACTGCCCCTCGAGATTT	0.473													72	160	---	---	---	---	PASS	T	8862319	T	T	8862319	2	4	4	1	0	0	0	0	0	0	0	1	12027	610	22	3		3	PLCB1	20	8862319	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	8862319	54163201	3594	4185	181	2								
PLCB4	5332	broad.mit.edu	37	chr20	9424652	9424652	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaacttatccctcaagtaaGgatagaagacttaaagcaga	8	7	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:9424652G>A	uc002wnf.2	+	29	2889	c.2753G>A	c.(2752-2754)AGG>AAG	p.R918K	PLCB4_uc010gbw.1_Missense_Mutation_p.R918K|PLCB4_uc010gbx.2_Missense_Mutation_p.R930K|PLCB4_uc002wne.2_Missense_Mutation_p.R918K|PLCB4_uc002wnh.2_Missense_Mutation_p.R765K	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	918					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						CCTCAAGTAAGGATAGAAGAC	0.299													20	57	---	---	---	---	PASS	A	9424652	A	A	9424652	3	1	4	1	0	0	0	0	1	0	0	0	12030	1000	35	3	2899	3	PLCB4	20	9424652	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	562333	9424652	53600868	3595	4186										
SEL1L2	80343	broad.mit.edu	37	chr20	13846116	13846116	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taggcaaagtaagctgtcagGaatttctcagcccagtggcc	11	10	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:13846116G>A	uc010gcf.2	-	16	1531	c.1449C>T	c.(1447-1449)TTC>TTT	p.F483F	SEL1L2_uc002woq.3_Silent_p.F344F|SEL1L2_uc010zrl.1_Intron|SEL1L2_uc002wor.2_Intron	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	483	Extracellular (Potential).					integral to membrane	binding			ovary(2)	2						AAGCTGTCAGGAATTTCTCAG	0.433													30	49	---	---	---	---	PASS	A	13846116	A	A	13846116	2	1	4	1	0	0	0	0	0	0	0	1	14011	1165	41	2		2	SEL1L2	20	13846116	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	4421464	13846116	49179404	3596	4187										
CSRP2BP	57325	broad.mit.edu	37	chr20	18123429	18123429	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacgctcctgatcgtcgaatCcgaggatcaggcatcagtgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:18123429C>T	uc002wqj.2	+	2	747	c.125C>T	c.(124-126)TCC>TTC	p.S42F	CSRP2BP_uc002wqk.2_5'Flank	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	42					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						ATCGTCGAATCCGAGGATCAG	0.547													28	41	---	---	---	---	PASS	T	18123429	T	T	18123429	3	4	4	1	0	0	0	0	1	0	0	0	3968	855	30	2	127	2	CSRP2BP	20	18123429	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4277313	18123429	44902091	3597	4188	182	2								
CSRP2BP	57325	broad.mit.edu	37	chr20	18123430	18123430	+	Silent	SNP	C	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acgctcctgatcgtcgaatcCgaggatcaggcatcagtgga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:18123430C>A	uc002wqj.2	+	2	748	c.126C>A	c.(124-126)TCC>TCA	p.S42S	CSRP2BP_uc002wqk.2_5'Flank	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	42					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						TCGTCGAATCCGAGGATCAGG	0.547													28	42	---	---	---	---	PASS	A	18123430	A	A	18123430	2	1	4	1	0	0	0	0	0	0	0	1	3968	639	23	1		1	CSRP2BP	20	18123430	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	18123430	44902090	3598	4189	182	2								
SEC23B	10483	broad.mit.edu	37	chr20	18505185	18505185	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatgtccctgagtcttcttCctccagatgctctggtgggt	11	11	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:18505185C>T	uc002wqz.1	+	5	918	c.475C>T	c.(475-477)CCT>TCT	p.P159S	SEC23B_uc002wra.1_Missense_Mutation_p.P159S|SEC23B_uc002wrb.1_Missense_Mutation_p.P159S|SEC23B_uc010zsb.1_Missense_Mutation_p.P141S|SEC23B_uc002wrc.1_Missense_Mutation_p.P159S	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	159					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						GAGTCTTCTTCCTCCAGATGC	0.493													37	56	---	---	---	---	PASS	T	18505185	T	T	18505185	3	4	4	1	0	0	0	0	1	0	0	0	13992	855	30	2	489	2	SEC23B	20	18505185	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	381755	18505185	44520335	3599	4190										
C20orf79	140856	broad.mit.edu	37	chr20	18794465	18794465	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gactagcacaggaagatgtgGaagagaagtgaccatcaacc	12	8	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:18794465G>A	uc002wrk.2	+	1	96	c.6G>A	c.(4-6)TGG>TGA	p.W2*	uc002wrj.1_Intron	NM_178483	NP_848578	Q9UJQ7	CT079_HUMAN	hypothetical protein LOC140856	2							sterol binding			skin(3)	3						GGAAGATGTGGAAGAGAAGTG	0.512													27	51	---	---	---	---	PASS	A	18794465	A	A	18794465	4	1	4	1	0	0	0	0	0	1	0	0	2119	1183	41	2	8	2	C20orf79	20	18794465	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	289280	18794465	44231055	3600	4191										
C20orf26	26074	broad.mit.edu	37	chr20	20071504	20071504	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagggtggaagaccatgacGatctcatgccaatatttatg	10	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:20071504G>A	uc002wru.2	+	7	659	c.583G>A	c.(583-585)GAT>AAT	p.D195N	C20orf26_uc010gcw.1_Missense_Mutation_p.D149N|C20orf26_uc010zse.1_Missense_Mutation_p.D195N|C20orf26_uc010zsf.1_Missense_Mutation_p.D195N	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	195										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		AGACCATGACGATCTCATGCC	0.333													42	91	---	---	---	---	PASS	A	20071504	A	A	20071504	3	1	4	1	0	0	0	0	1	0	0	0	2106	1058	37	2	605	2	C20orf26	20	20071504	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1277039	20071504	42954016	3601	4192										
RALGAPA2	57186	broad.mit.edu	37	chr20	20571878	20571878	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaggtgctgctgctccgaaGgacctgctgctgctgtccca	14	13	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:20571878G>A	uc002wrz.2	-	17	2427	c.2284C>T	c.(2284-2286)CTT>TTT	p.L762F	RALGAPA2_uc010gcx.2_Missense_Mutation_p.L466F|RALGAPA2_uc010zsg.1_Missense_Mutation_p.L210F	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	762					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CTGCTCCGAAGGACCTGCTGC	0.507													13	27	---	---	---	---	PASS	A	20571878	A	A	20571878	3	1	4	1	0	0	0	0	1	0	0	0	13014	1000	35	3	3429	3	RALGAPA2	20	20571878	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	500374	20571878	42453642	3602	4193										
XRN2	22803	broad.mit.edu	37	chr20	21349207	21349207	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgcttttgagaggacaagccCagattccaaaacttatgtca	8	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:21349207C>T	uc002wsf.1	+	27	2658	c.2563C>T	c.(2563-2565)CAG>TAG	p.Q855*	XRN2_uc002wsg.1_Nonsense_Mutation_p.Q779*|XRN2_uc010zsk.1_Nonsense_Mutation_p.Q801*	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	855					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						AGGACAAGCCCAGATTCCAAA	0.398													30	62	---	---	---	---	PASS	T	21349207	T	T	21349207	4	4	4	1	0	0	0	0	0	1	0	0	17457	595	21	3	2669	3	XRN2	20	21349207	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	777329	21349207	41676313	3603	4194										
CST8	10047	broad.mit.edu	37	chr20	23472424	23472424	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaattaaaacccgtcaatgcCtcaaatgccaacgtgaagca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:23472424C>T	uc002wth.1	+	2	477	c.120C>T	c.(118-120)GCC>GCT	p.A40A		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	40						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					CCGTCAATGCCTCAAATGCCA	0.502													45	119	---	---	---	---	PASS	T	23472424	T	T	23472424	2	4	4	1	0	0	0	0	0	0	0	1	3978	668	24	3		3	CST8	20	23472424	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2123217	23472424	39553096	3604	4195	183	2								
CST8	10047	broad.mit.edu	37	chr20	23472433	23472433	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccgtcaatgcctcaaatgcCaacgtgaagcagtgtctgtg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:23472433C>T	uc002wth.1	+	2	486	c.129C>T	c.(127-129)GCC>GCT	p.A43A		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	43						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					CCTCAAATGCCAACGTGAAGC	0.507													48	128	---	---	---	---	PASS	T	23472433	T	T	23472433	2	4	4	1	0	0	0	0	0	0	0	1	3978	581	21	3		3	CST8	20	23472433	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	9	23472433	39553087	3605	4196	183	2								
CST4	1472	broad.mit.edu	37	chr20	23666597	23666597	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagggaacttcgtagatctcGaaagagcacaactgtttctg	10	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:23666597G>A	uc002wto.1	-	3	416	c.360C>T	c.(358-360)TTC>TTT	p.F120F		NM_001899	NP_001890	P01036	CYTS_HUMAN	cystatin S precursor	120						extracellular region	cysteine-type endopeptidase inhibitor activity			breast(1)	1	Lung NSC(19;0.0789)|Colorectal(13;0.0993)|all_lung(19;0.169)					CGTAGATCTCGAAAGAGCACA	0.537													15	24	---	---	---	---	PASS	A	23666597	A	A	23666597	2	1	4	1	0	0	0	0	0	0	0	1	3974	1049	37	2		2	CST4	20	23666597	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	194164	23666597	39358923	3606	4197										
CST5	1473	broad.mit.edu	37	chr20	23856875	23856875	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggaaattttatcctcccaggGaacttcattgatctggaaag	9	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:23856875G>A	uc002wtr.1	-	3	446	c.379C>T	c.(379-381)CCC>TCC	p.P127S		NM_001900	NP_001891	P28325	CYTD_HUMAN	cystatin D precursor	127						extracellular region	cysteine-type endopeptidase inhibitor activity|protein binding				0						TCCTCCCAGGGAACTTCATTG	0.478													18	44	---	---	---	---	PASS	A	23856875	A	A	23856875	3	1	4	1	0	0	0	0	1	0	0	0	3975	1174	41	2	53	2	CST5	20	23856875	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	190278	23856875	39168645	3607	4198										
C20orf3	57136	broad.mit.edu	37	chr20	24952185	24952185	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacggatacccaggggtctcCcacacacaggctcatcatct	8	16	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:24952185C>T	uc002wty.2	-	5	550	c.449G>A	c.(448-450)GGG>GAG	p.G150E	C20orf3_uc002wtz.2_Missense_Mutation_p.G150E|C20orf3_uc010zsw.1_Missense_Mutation_p.G150E	NM_020531	NP_065392	Q9HDC9	APMAP_HUMAN	chromosome 20 open reading frame 3	150	Extracellular (Potential).				biosynthetic process	cell surface|integral to membrane	arylesterase activity|strictosidine synthase activity			ovary(1)	1						CAGGGGTCTCCCACACACAGG	0.493													33	63	---	---	---	---	PASS	T	24952185	T	T	24952185	3	4	4	1	0	0	0	0	1	0	0	0	2109	623	22	3	821	3	C20orf3	20	24952185	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1095310	24952185	38073335	3608	4199										
ENTPD6	955	broad.mit.edu	37	chr20	25198193	25198193	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcactgcggatgtttaacaGgacctacaagctctattcct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:25198193G>A	uc002wuj.2	+	9	1034	c.854G>A	c.(853-855)AGG>AAG	p.R285K	ENTPD6_uc010zsy.1_Missense_Mutation_p.R285K|ENTPD6_uc010gdj.1_Missense_Mutation_p.R257K|ENTPD6_uc010zsz.1_Missense_Mutation_p.R67K|ENTPD6_uc002wum.2_Missense_Mutation_p.R268K|ENTPD6_uc010zta.1_Missense_Mutation_p.R285K|ENTPD6_uc002wun.2_Missense_Mutation_p.R285K|ENTPD6_uc002wuk.2_Missense_Mutation_p.R284K|ENTPD6_uc002wul.2_Missense_Mutation_p.R284K|ENTPD6_uc010ztb.1_Missense_Mutation_p.R257K|ENTPD6_uc010ztc.1_Missense_Mutation_p.R257K|ENTPD6_uc002wuo.2_Missense_Mutation_p.R37K|ENTPD6_uc010ztd.1_Missense_Mutation_p.R67K	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	285	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						ATGTTTAACAGGACCTACAAG	0.597													21	37	---	---	---	---	PASS	A	25198193	A	A	25198193	3	1	4	1	0	0	0	0	1	0	0	0	5143	1000	35	3	891	3	ENTPD6	20	25198193	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	246008	25198193	37827327	3609	4200	184	2								
ENTPD6	955	broad.mit.edu	37	chr20	25198194	25198194	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcactgcggatgtttaacagGacctacaagctctattccta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:25198194G>A	uc002wuj.2	+	9	1035	c.855G>A	c.(853-855)AGG>AGA	p.R285R	ENTPD6_uc010zsy.1_Silent_p.R285R|ENTPD6_uc010gdj.1_Silent_p.R257R|ENTPD6_uc010zsz.1_Silent_p.R67R|ENTPD6_uc002wum.2_Silent_p.R268R|ENTPD6_uc010zta.1_Silent_p.R285R|ENTPD6_uc002wun.2_Silent_p.R285R|ENTPD6_uc002wuk.2_Silent_p.R284R|ENTPD6_uc002wul.2_Silent_p.R284R|ENTPD6_uc010ztb.1_Silent_p.R257R|ENTPD6_uc010ztc.1_Silent_p.R257R|ENTPD6_uc002wuo.2_Silent_p.R37R|ENTPD6_uc010ztd.1_Silent_p.R67R	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	285	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						TGTTTAACAGGACCTACAAGC	0.597													22	36	---	---	---	---	PASS	A	25198194	A	A	25198194	2	1	4	1	0	0	0	0	0	0	0	1	5143	1165	41	2		2	ENTPD6	20	25198194	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	25198194	37827326	3610	4201	184	2								
DEFB116	245930	broad.mit.edu	37	chr20	29891155	29891155	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atttgggcaggttaagtattGgatttcatattctctgcagg	11	5	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:29891155G>A	uc010ztm.1	-	2	169	c.169C>T	c.(169-171)CAA>TAA	p.Q57*		NM_001037731	NP_001032820	Q30KQ4	DB116_HUMAN	beta-defensin 116 precursor	57					defense response to bacterium	extracellular region					0	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			GTTAAGTATTGGATTTCATAT	0.438													76	145	---	---	---	---	PASS	A	29891155	A	A	29891155	4	1	4	1	0	0	0	0	0	1	0	0	4405	1357	47	3	142	3	DEFB116	20	29891155	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4692961	29891155	33134365	3611	4202										
DEFB119	245932	broad.mit.edu	37	chr20	29965061	29965061	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accagcactcaaggtagtctTggccactgcttctcataaga	8	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:29965061T>A	uc002wvt.2	-	2	363	c.243A>T	c.(241-243)CCA>CCT	p.P81P	DEFB119_uc002wvs.2_3'UTR	NM_153289	NP_695021	Q8N690	DB119_HUMAN	defensin, beta 119 isoform a precursor	81					defense response to bacterium	extracellular region					0	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			AAGGTAGTCTTGGCCACTGCT	0.483													36	59	---	---	---	---	PASS	A	29965061	A	A	29965061	2	1	4	1	0	0	0	0	0	0	0	1	4407	1799	63	5		5	DEFB119	20	29965061	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	73906	29965061	33060459	3612	4203										
REM1	28954	broad.mit.edu	37	chr20	30070255	30070255	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatcctcgtgggcaacaagGcagacttggcccgctgccga	12	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:30070255G>A	uc002wwa.2	+	4	873	c.589G>A	c.(589-591)GCA>ACA	p.A197T		NM_014012	NP_054731	O75628	REM1_HUMAN	RAS-like GTP-binding protein REM	197	GTP (By similarity).				small GTPase mediated signal transduction	membrane	calmodulin binding|GTP binding|GTPase activity			lung(2)|pancreas(2)	4	all_cancers(5;0.000119)|Lung NSC(7;1.32e-05)|all_lung(7;2.14e-05)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			GGGCAACAAGGCAGACTTGGC	0.632													8	39	---	---	---	---	PASS	A	30070255	A	A	30070255	3	1	4	1	0	0	0	0	1	0	0	0	13222	1203	42	3	599	3	REM1	20	30070255	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	105194	30070255	32955265	3613	4204										
DUSP15	128853	broad.mit.edu	37	chr20	30450427	30450427	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgctgcctaaagcctgggtTggggttggcgatgggcctgg	18	9	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:30450427T>C	uc002wwu.1	-	6	450	c.373A>G	c.(373-375)AAC>GAC	p.N125D	DUSP15_uc002wwv.1_Missense_Mutation_p.N25D|DUSP15_uc002www.1_Missense_Mutation_p.N25D|DUSP15_uc002wwx.1_Missense_Mutation_p.N128D			Q9H1R2	DUS15_HUMAN	RecName: Full=Dual specificity protein phosphatase 15;          EC=3.1.3.48;          EC=3.1.3.16; AltName: Full=Vaccinia virus VH1-related dual-specific protein phosphatase Y; AltName: Full=VH1-related member Y;	125	Tyrosine-protein phosphatase.					cytoplasm|plasma membrane	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			AAGCCTGGGTTGGGGTTGGCG	0.612													20	60	---	---	---	---	PASS	C	30450427	C	C	30450427	3	2	4	1	0	0	0	0	1	0	0	0	4815	1812	63	5	333	5	DUSP15	20	30450427	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	380172	30450427	32575093	3614	4205										
XKR7	343702	broad.mit.edu	37	chr20	30584351	30584351	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgtctctggcctggacgctGgcctcctaccagaaggtgct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:30584351G>A	uc002wxe.2	+	3	1005	c.831G>A	c.(829-831)CTG>CTA	p.L277L		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	277	Helical; (Potential).					integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			CCTGGACGCTGGCCTCCTACC	0.697													9	10	---	---	---	---	PASS	A	30584351	A	A	30584351	2	1	4	1	0	0	0	0	0	0	0	1	17433	1335	47	3		3	XKR7	20	30584351	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	133924	30584351	32441169	3615	4206	185	2								
XKR7	343702	broad.mit.edu	37	chr20	30584352	30584352	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtctctggcctggacgctgGcctcctaccagaaggtgctg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:30584352G>A	uc002wxe.2	+	3	1006	c.832G>A	c.(832-834)GCC>ACC	p.A278T		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	278	Helical; (Potential).					integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			CTGGACGCTGGCCTCCTACCA	0.697													10	10	---	---	---	---	PASS	A	30584352	A	A	30584352	3	1	4	1	0	0	0	0	1	0	0	0	17433	1203	42	3	842	3	XKR7	20	30584352	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	30584352	32441168	3616	4207	185	2								
ASXL1	171023	broad.mit.edu	37	chr20	31021323	31021323	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggttgctaaggatgcaaaatCtgtggcctcagatgttcccc	11	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:31021323C>T	uc002wxs.2	+	11	1748	c.1322C>T	c.(1321-1323)TCT>TTT	p.S441F	ASXL1_uc010geb.2_Missense_Mutation_p.S332F	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	441					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						GATGCAAAATCTGTGGCCTCA	0.537			F|N|Mis		MDS|CMML								53	78	---	---	---	---	PASS	T	31021323	T	T	31021323	3	4	4	1	0	0	0	0	1	0	0	0	1066	913	32	2	1374	2	ASXL1	20	31021323	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	436971	31021323	32004197	3617	4208										
ASXL1	171023	broad.mit.edu	37	chr20	31023865	31023865	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttgctgcagggtagcttgcCcctagagaaggttcttccac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:31023865C>T	uc002wxs.2	+	12	3776	c.3350C>T	c.(3349-3351)CCC>CTC	p.P1117L	ASXL1_uc010geb.2_Missense_Mutation_p.P1008L	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	1117					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						GGTAGCTTGCCCCTAGAGAAG	0.557			F|N|Mis		MDS|CMML								18	36	---	---	---	---	PASS	T	31023865	T	T	31023865	3	4	4	1	0	0	0	0	1	0	0	0	1066	623	22	3	3406	3	ASXL1	20	31023865	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2542	31023865	32001655	3618	4209	186	2								
ASXL1	171023	broad.mit.edu	37	chr20	31023866	31023866	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgctgcagggtagcttgccCctagagaaggttcttccacc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:31023866C>T	uc002wxs.2	+	12	3777	c.3351C>T	c.(3349-3351)CCC>CCT	p.P1117P	ASXL1_uc010geb.2_Silent_p.P1008P	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	1117					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						GTAGCTTGCCCCTAGAGAAGG	0.557			F|N|Mis		MDS|CMML								18	38	---	---	---	---	PASS	T	31023866	T	T	31023866	2	4	4	1	0	0	0	0	0	0	0	1	1066	610	22	3		3	ASXL1	20	31023866	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	31023866	32001654	3619	4210	186	2								
C20orf185	359710	broad.mit.edu	37	chr20	31659915	31659915	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtgttctgttgcagggatcGcgtttagaagaatggctcag	14	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:31659915G>A	uc002wym.1	+	13	1266	c.1266G>A	c.(1264-1266)TCG>TCA	p.S422S		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	422					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						TGCAGGGATCGCGTTTAGAAG	0.567													19	24	---	---	---	---	PASS	A	31659915	A	A	31659915	2	1	4	1	0	0	0	0	0	0	0	1	2097	1074	38	1		1	C20orf185	20	31659915	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	636049	31659915	31365605	3620	4211										
C20orf70	140683	broad.mit.edu	37	chr20	31757060	31757060	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaatgtcgtggataagctgGaacctgttcttcacgaggga	13	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:31757060G>A	uc002wyo.1	+	2	180	c.109G>A	c.(109-111)GAA>AAA	p.E37K		NM_080574	NP_542141	Q96DR5	SPLC2_HUMAN	chromosome 20 open reading frame 70 precursor	37						extracellular region	lipid binding			ovary(1)|central_nervous_system(1)	2						GGATAAGCTGGAACCTGTTCT	0.458													27	53	---	---	---	---	PASS	A	31757060	A	A	31757060	3	1	4	1	0	0	0	0	1	0	0	0	2116	1175	41	2	111	2	C20orf70	20	31757060	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	97145	31757060	31268460	3621	4212										
C20orf70	140683	broad.mit.edu	37	chr20	31763316	31763316	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	accagcctgttgccgtcctgGgagaatgcgccagtgaccca	12	14	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:31763316G>A	uc002wyo.1	+	5	585	c.514G>A	c.(514-516)GGA>AGA	p.G172R		NM_080574	NP_542141	Q96DR5	SPLC2_HUMAN	chromosome 20 open reading frame 70 precursor	172				G -> R (in Ref. 1; AAL28113).		extracellular region	lipid binding			ovary(1)|central_nervous_system(1)	2						TGCCGTCCTGGGAGAATGCGC	0.527													58	90	---	---	---	---	PASS	A	31763316	A	A	31763316	3	1	4	1	0	0	0	0	1	0	0	0	2116	1233	43	3	528	3	C20orf70	20	31763316	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6256	31763316	31262204	3622	4213										
ZNF341	84905	broad.mit.edu	37	chr20	32340998	32340998	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcagcctgaacatgcattcCgtgcccagctacctcaccca	7	17	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:32340998C>T	uc002wzy.2	+	5	530	c.510C>T	c.(508-510)TCC>TCT	p.S170S	ZNF341_uc002wzx.2_Silent_p.S170S|ZNF341_uc010geq.2_Silent_p.S80S|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	170	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ACATGCATTCCGTGCCCAGCT	0.289													21	50	---	---	---	---	PASS	T	32340998	T	T	32340998	2	4	4	1	0	0	0	0	0	0	0	1	17854	639	23	1		1	ZNF341	20	32340998	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	577682	32340998	30684522	3623	4214										
ITCH	83737	broad.mit.edu	37	chr20	33067442	33067442	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttttgatttcagagaatggTtctttcttttgtcacatgaa	7	6	4	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:33067442T>A	uc010geu.1	+	19	1981	c.1789T>A	c.(1789-1791)TTC>ATC	p.F597I	ITCH_uc002xak.2_Missense_Mutation_p.F556I|ITCH_uc010zuj.1_Missense_Mutation_p.F446I	NM_031483	NP_113671	Q96J02	ITCH_HUMAN	itchy homolog E3 ubiquitin protein ligase	597	HECT.				apoptosis|entry of virus into host cell|inflammatory response|innate immune response|negative regulation of apoptosis|negative regulation of defense response to virus|negative regulation of JNK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cell growth|regulation of protein deubiquitination|response to virus	cytosol|nucleus|plasma membrane	CXCR chemokine receptor binding|ribonucleoprotein binding|ubiquitin-protein ligase activity			breast(4)|lung(1)|central_nervous_system(1)	6						CAGAGAATGGTTCTTTCTTTT	0.368													23	29	---	---	---	---	PASS	A	33067442	A	A	33067442	3	1	4	1	0	0	0	0	1	0	0	0	7868	1725	60	5	1728	5	ITCH	20	33067442	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	726444	33067442	29958078	3624	4215										
NCOA6	23054	broad.mit.edu	37	chr20	33330887	33330887	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtcggggttcagggggcccCttggaggatggacattttga	17	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:33330887C>T	uc002xav.2	-	12	5744	c.3173G>A	c.(3172-3174)AGG>AAG	p.R1058K	NCOA6_uc002xaw.2_Missense_Mutation_p.R1058K	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1058	NCOA1-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						CAGGGGGCCCCTTGGAGGATG	0.483													48	55	---	---	---	---	PASS	T	33330887	T	T	33330887	3	4	4	1	0	0	0	0	1	0	0	0	10233	681	24	3	3038	3	NCOA6	20	33330887	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	263445	33330887	29694633	3625	4216										
GGT7	2686	broad.mit.edu	37	chr20	33449261	33449261	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccccaccttggtctcccagGatctttgcagggtctcttcc	8	16	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:33449261G>A	uc002xay.2	-	4	705	c.662C>T	c.(661-663)TCC>TTC	p.S221F	GGT7_uc002xaz.1_Missense_Mutation_p.S238F|GGT7_uc002xba.1_Missense_Mutation_p.S221F	NM_178026	NP_821158	Q9UJ14	GGT7_HUMAN	gamma-glutamyltransferase 7	221	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(1)	1						GGTCTCCCAGGATCTTTGCAG	0.527													13	35	---	---	---	---	PASS	A	33449261	A	A	33449261	3	1	4	1	0	0	0	0	1	0	0	0	6364	1174	41	2	1374	2	GGT7	20	33449261	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	118374	33449261	29576259	3626	4217										
MYH7B	57644	broad.mit.edu	37	chr20	33575706	33575706	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctggacatcgctgggtttGagatctttgaggtgaggaca	14	6	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:33575706G>A	uc002xbi.1	+	16	1623	c.1531G>A	c.(1531-1533)GAG>AAG	p.E511K	MIR499_hsa-mir-499|MI0003183_5'Flank	NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	469	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			CGCTGGGTTTGAGATCTTTGA	0.602													34	54	---	---	---	---	PASS	A	33575706	A	A	33575706	3	1	4	1	0	0	0	0	1	0	0	0	10040	1291	45	2	1593	2	MYH7B	20	33575706	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	126445	33575706	29449814	3627	4218										
FAM83C	128876	broad.mit.edu	37	chr20	33875038	33875038	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcccacttctcgggctctgGggaaggggacaaggagatcc	14	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:33875038G>A	uc010zux.1	-	4	1662	c.1544C>T	c.(1543-1545)CCC>CTC	p.P515L	EIF6_uc002xbv.1_5'Flank|EIF6_uc002xbx.1_5'Flank|EIF6_uc002xbz.1_5'Flank|EIF6_uc002xby.1_5'Flank|FAM83C_uc002xcb.1_Missense_Mutation_p.P170L	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	515										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TCGGGCTCTGGGGAAGGGGAC	0.632													18	30	---	---	---	---	PASS	A	33875038	A	A	33875038	3	1	4	1	0	0	0	0	1	0	0	0	5635	1232	43	3	703	3	FAM83C	20	33875038	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	299332	33875038	29150482	3628	4219										
GDF5	8200	broad.mit.edu	37	chr20	34025560	34025560	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgttccgggccagggggggcCtctccttggcctctgctttg	15	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:34025560C>T	uc002xck.1	-	1	468	c.149G>A	c.(148-150)AGG>AAG	p.R50K	GDF5_uc010gfc.1_Missense_Mutation_p.R50K|GDF5_uc010zvc.1_Missense_Mutation_p.R50K	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	50					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			CAGGGGGGGCCTCTCCTTGGC	0.652													8	8	---	---	---	---	PASS	T	34025560	T	T	34025560	3	4	4	1	0	0	0	0	1	0	0	0	6316	681	24	3	1364	3	GDF5	20	34025560	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	150522	34025560	28999960	3629	4220										
CPNE1	8904	broad.mit.edu	37	chr20	34219078	34219078	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccatcacatagtccagaaaGgagtactctgtttctacctg	7	12	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:34219078G>A	uc002xdf.2	-	12	1182	c.819C>T	c.(817-819)TCC>TCT	p.S273S	CPNE1_uc002xdc.2_5'UTR|CPNE1_uc010zvj.1_Silent_p.S278S|CPNE1_uc002xde.2_Silent_p.S249S|CPNE1_uc002xdg.2_Silent_p.S273S|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Silent_p.S273S|CPNE1_uc002xdi.2_Silent_p.S273S|CPNE1_uc002xdj.2_Silent_p.S273S|CPNE1_uc002xdk.2_Silent_p.S273S|CPNE1_uc002xdl.2_Silent_p.S273S|CPNE1_uc002xdm.2_Silent_p.S273S|CPNE1_uc010gfk.1_Silent_p.S273S	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	273					lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			AGTCCAGAAAGGAGTACTCTG	0.502													85	132	---	---	---	---	PASS	A	34219078	A	A	34219078	2	1	4	1	0	0	0	0	0	0	0	1	3811	987	35	3		3	CPNE1	20	34219078	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	193518	34219078	28806442	3630	4221										
DLGAP4	22839	broad.mit.edu	37	chr20	35060414	35060414	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcccaagccaccaagatcaaCcggctgcccgccaacctcct	7	20	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:35060414C>T	uc002xff.2	+	3	729	c.294C>T	c.(292-294)AAC>AAT	p.N98N	DLGAP4_uc010zvp.1_Silent_p.N98N	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	98					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				CCAAGATCAACCGGCTGCCCG	0.642													9	20	---	---	---	---	PASS	T	35060414	T	T	35060414	2	4	4	1	0	0	0	0	0	0	0	1	4562	506	18	3		3	DLGAP4	20	35060414	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	841336	35060414	27965106	3631	4222										
C20orf117	140710	broad.mit.edu	37	chr20	35437024	35437024	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagttgtgcttgaattgctgGgactcctgcaccagcatgtt	11	9	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:35437024G>A	uc002xgd.1	-	8	2319	c.1992C>T	c.(1990-1992)TCC>TCT	p.S664S	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	664											0		Myeloproliferative disorder(115;0.00874)				TGAATTGCTGGGACTCCTGCA	0.582											OREG0025909	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	12	---	---	---	---	PASS	A	35437024	A	A	35437024	2	1	4	1	0	0	0	0	0	0	0	1	2083	1219	43	3		3	C20orf117	20	35437024	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	376610	35437024	27588496	3632	4223										
KIAA1755	85449	broad.mit.edu	37	chr20	36856635	36856635	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgccagccccttggctttatCttcaggcctgtgggtggtaa	12	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:36856635C>G	uc002xhy.1	-	6	2151	c.1879G>C	c.(1879-1881)GAT>CAT	p.D627H	KIAA1755_uc002xhz.1_Missense_Mutation_p.D627H	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	627										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				TTGGCTTTATCTTCAGGCCTG	0.617													8	6	---	---	---	---	PASS	G	36856635	G	G	36856635	3	3	4	1	0	0	0	0	1	0	0	0	8257	913	32	2	1759	2	KIAA1755	20	36856635	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1419611	36856635	26168885	3633	4224										
RALGAPB	57148	broad.mit.edu	37	chr20	37121775	37121775	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagaatctttttgtaccaaGgtaagctatacctgtctatc	6	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:37121775G>A	uc002xiw.2	+	3	646	c.389G>A	c.(388-390)AGA>AAA	p.R130K	RALGAPB_uc010zvz.1_Missense_Mutation_p.R130K|RALGAPB_uc002xix.2_Missense_Mutation_p.R130K|RALGAPB_uc002xiy.1_Missense_Mutation_p.R130K|RALGAPB_uc002xiz.2_5'UTR	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	130					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						TTTGTACCAAGGTAAGCTATA	0.338													7	21	---	---	---	---	PASS	A	37121775	A	A	37121775	3	1	4	1	0	0	0	0	1	0	0	0	13015	1014	35	3	395	3	RALGAPB	20	37121775	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	265140	37121775	25903745	3634	4225										
CHD6	84181	broad.mit.edu	37	chr20	40052232	40052232	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccgacttcttgtccaaacgGgaaatgatgcggaactgtgt	11	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:40052232G>A	uc002xka.1	-	30	4633	c.4455C>T	c.(4453-4455)TCC>TCT	p.S1485S		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1485					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TGTCCAAACGGGAAATGATGC	0.448													72	137	---	---	---	---	PASS	A	40052232	A	A	40052232	2	1	4	1	0	0	0	0	0	0	0	1	3329	1219	43	3		3	CHD6	20	40052232	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2930457	40052232	22973288	3635	4226										
PTPRT	11122	broad.mit.edu	37	chr20	41419926	41419926	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acacattccacacagggttcCcttgggggccaccattcacc	8	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:41419926C>T	uc002xkg.2	-	3	579	c.395G>A	c.(394-396)GGG>GAG	p.G132E	PTPRT_uc010ggj.2_Missense_Mutation_p.G132E	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	132	Extracellular (Potential).|MAM.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CACAGGGTTCCCTTGGGGGCC	0.572													39	92	---	---	---	---	PASS	T	41419926	T	T	41419926	3	4	4	1	0	0	0	0	1	0	0	0	12812	623	22	3	4107	3	PTPRT	20	41419926	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1367694	41419926	21605594	3636	4227										
GDAP1L1	78997	broad.mit.edu	37	chr20	42885898	42885898	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcatgcggctcaacctgggcGaggaggtgcccgtcatcatc	13	13	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:42885898G>A	uc002xlq.2	+	2	353	c.286G>A	c.(286-288)GAG>AAG	p.E96K	GDAP1L1_uc002xlp.1_Missense_Mutation_p.E96K|GDAP1L1_uc010zwl.1_Missense_Mutation_p.E96K|GDAP1L1_uc010zwm.1_Missense_Mutation_p.E96K|GDAP1L1_uc010zwn.1_Intron	NM_024034	NP_076939	Q96MZ0	GD1L1_HUMAN	ganglioside-induced differentiation-associated	96	GST N-terminal.									large_intestine(1)	1		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			CAACCTGGGCGAGGAGGTGCC	0.612													11	12	---	---	---	---	PASS	A	42885898	A	A	42885898	3	1	4	1	0	0	0	0	1	0	0	0	6308	1059	37	2	292	2	GDAP1L1	20	42885898	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1465972	42885898	20139622	3637	4228										
GDAP1L1	78997	broad.mit.edu	37	chr20	42907844	42907844	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctttccggctggtcaagagGaaacccccatccttcttcgg	10	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:42907844G>A	uc002xlq.2	+	6	1075	c.1008G>A	c.(1006-1008)AGG>AGA	p.R336R	GDAP1L1_uc010zwl.1_Silent_p.R355R|GDAP1L1_uc010zwm.1_Silent_p.R278R|GDAP1L1_uc010zwn.1_Silent_p.R144R	NM_024034	NP_076939	Q96MZ0	GD1L1_HUMAN	ganglioside-induced differentiation-associated	336	GST C-terminal.									large_intestine(1)	1		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			TGGTCAAGAGGAAACCCCCAT	0.577													31	66	---	---	---	---	PASS	A	42907844	A	A	42907844	2	1	4	1	0	0	0	0	0	0	0	1	6308	1165	41	2		2	GDAP1L1	20	42907844	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	21946	42907844	20117676	3638	4229										
SEMG1	6406	broad.mit.edu	37	chr20	43836056	43836056	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caagtgaattttcccaatttCcacacggacaaaagggccag	8	11	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:43836056C>T	uc002xni.2	+	2	175	c.118C>T	c.(118-120)CCA>TCA	p.P40S	SEMG1_uc002xnj.2_Missense_Mutation_p.P40S|SEMG2_uc010ggz.2_Intron|SEMG1_uc002xnh.2_Missense_Mutation_p.P40S	NM_003007	NP_002998	P04279	SEMG1_HUMAN	semenogelin I preproprotein	40					insemination|sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(2)	2		Myeloproliferative disorder(115;0.0122)				TTCCCAATTTCCACACGGACA	0.393													34	85	---	---	---	---	PASS	T	43836056	T	T	43836056	3	4	4	1	0	0	0	0	1	0	0	0	14044	855	30	2	124	2	SEMG1	20	43836056	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	928212	43836056	19189464	3639	4230										
WFDC11	259239	broad.mit.edu	37	chr20	44277967	44277967	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgtctttacatctaaaggCtttagaacacttattggtac	6	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:44277967C>T	uc002xpa.2	-	4	367	c.172G>A	c.(172-174)GCC>ACC	p.A58T		NM_147197	NP_671730	Q8NEX6	WFD11_HUMAN	WAP four-disulfide core domain 11 precursor	58						extracellular region					0		Myeloproliferative disorder(115;0.0122)				CATCTAAAGGCTTTAGAACAC	0.398													40	73	---	---	---	---	PASS	T	44277967	T	T	44277967	3	4	4	1	0	0	0	0	1	0	0	0	17346	797	28	3	99	3	WFDC11	20	44277967	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	441911	44277967	18747553	3640	4231										
ACOT8	10005	broad.mit.edu	37	chr20	44472967	44472967	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctctgcagctggctcaggGgggatgggtttactggcttg	16	8	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:44472967G>A	uc002xqa.1	-	4	662	c.581C>T	c.(580-582)CCC>CTC	p.P194L	ACOT8_uc010zxe.1_Missense_Mutation_p.P194L|ACOT8_uc002xqc.1_Missense_Mutation_p.P141L|ACOT8_uc010zxf.1_Missense_Mutation_p.P74L	NM_005469	NP_005460	O14734	ACOT8_HUMAN	peroxisomal acyl-CoA thioesterase 1 isoform a	194					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|interspecies interaction between organisms|peroxisome organization	peroxisomal matrix	acetyl-CoA hydrolase activity|acyl-CoA thioesterase activity|carboxylesterase activity|choloyl-CoA hydrolase activity|protein binding			skin(1)	1		Myeloproliferative disorder(115;0.0122)				CTGGCTCAGGGGGGATGGGTT	0.547													9	30	---	---	---	---	PASS	A	44472967	A	A	44472967	3	1	4	1	0	0	0	0	1	0	0	0	156	1232	43	3	390	3	ACOT8	20	44472967	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	195000	44472967	18552553	3641	4232										
ZSWIM3	140831	broad.mit.edu	37	chr20	44506190	44506190	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatcctttaaaaggctcatGaaggaagccctgcgggaggc	12	11	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:44506190G>A	uc002xqd.2	+	2	1196	c.993G>A	c.(991-993)ATG>ATA	p.M331I	ZSWIM3_uc010zxg.1_Missense_Mutation_p.M325I	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	331							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				AAAGGCTCATGAAGGAAGCCC	0.512													16	45	---	---	---	---	PASS	A	44506190	A	A	44506190	3	1	4	1	0	0	0	0	1	0	0	0	18239	1290	45	2	999	2	ZSWIM3	20	44506190	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	33223	44506190	18519330	3642	4233										
ZNF334	55713	broad.mit.edu	37	chr20	45133369	45133369	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcacagtcaggtcctggaatGaaactggtatctgaaagaaa	10	7	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:45133369G>A	uc002xsc.2	-	3	216	c.32C>T	c.(31-33)TCA>TTA	p.S11L	ZNF334_uc002xsa.2_Silent_p.F16F|ZNF334_uc002xsb.2_5'UTR|ZNF334_uc002xsd.2_5'UTR|ZNF334_uc010ghl.2_Missense_Mutation_p.S10L	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	11	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				GTCCTGGAATGAAACTGGTAT	0.443													29	45	---	---	---	---	PASS	A	45133369	A	A	45133369	3	1	4	1	0	0	0	0	1	0	0	0	17848	1294	45	2	2022	2	ZNF334	20	45133369	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	627179	45133369	17892151	3643	4234										
EYA2	2139	broad.mit.edu	37	chr20	45633653	45633653	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccagacgcagtacagtgcGgggatccagcaggctacccc	14	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:45633653G>A	uc002xsm.2	+	4	602	c.228G>A	c.(226-228)GCG>GCA	p.A76A	EYA2_uc010ghp.2_Silent_p.A76A|EYA2_uc002xsn.2_Silent_p.A81A|EYA2_uc002xso.2_Silent_p.A76A|EYA2_uc002xsp.2_Silent_p.A76A|EYA2_uc002xsq.2_Silent_p.A76A	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a	76					DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)				AGTACAGTGCGGGGATCCAGC	0.552													19	30	---	---	---	---	PASS	A	45633653	A	A	45633653	2	1	4	1	0	0	0	0	0	0	0	1	5329	1103	39	1		1	EYA2	20	45633653	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	500284	45633653	17391867	3644	4235										
CSE1L	1434	broad.mit.edu	37	chr20	47710733	47710733	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgaaattcagaaggtatctgGaaatgtagagaaaaagatct	10	3	3	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:47710733G>A	uc002xty.2	+	23	2638	c.2504G>A	c.(2503-2505)GGA>GAA	p.G835E	CSE1L_uc010zyg.1_Missense_Mutation_p.G618E|CSE1L_uc010ghx.2_Missense_Mutation_p.G779E|CSE1L_uc010ghy.2_Missense_Mutation_p.G456E|CSE1L_uc010zyh.1_Missense_Mutation_p.G484E	NM_001316	NP_001307	P55060	XPO2_HUMAN	CSE1 chromosome segregation 1-like protein	835					apoptosis|cell proliferation|intracellular protein transport	cytoplasm|nucleus	importin-alpha export receptor activity			large_intestine(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000491)|Colorectal(8;0.198)			AAGGTATCTGGAAATGTAGAG	0.318													18	42	---	---	---	---	PASS	A	47710733	A	A	47710733	3	1	4	1	0	0	0	0	1	0	0	0	3930	1174	41	2	2590	2	CSE1L	20	47710733	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2077080	47710733	15314787	3645	4236										
SLC9A8	23315	broad.mit.edu	37	chr20	48497523	48497523	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctacctcctgaatttcttCcgggatcataaaatcacacc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:48497523C>T	uc002xuv.1	+	13	1431	c.1221C>T	c.(1219-1221)TTC>TTT	p.F407F	SLC9A8_uc010zym.1_Silent_p.F107F|SLC9A8_uc010gic.2_Silent_p.F107F|SLC9A8_uc010gid.2_Silent_p.F31F	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	407						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			TGAATTTCTTCCGGGATCATA	0.408													20	38	---	---	---	---	PASS	T	48497523	T	T	48497523	2	4	4	1	0	0	0	0	0	0	0	1	14720	854	30	2		2	SLC9A8	20	48497523	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	786790	48497523	14527997	3646	4237	187	2								
SLC9A8	23315	broad.mit.edu	37	chr20	48497524	48497524	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctacctcctgaatttcttcCgggatcataaaatcacaccg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:48497524C>T	uc002xuv.1	+	13	1432	c.1222C>T	c.(1222-1224)CGG>TGG	p.R408W	SLC9A8_uc010zym.1_Missense_Mutation_p.R108W|SLC9A8_uc010gic.2_Missense_Mutation_p.R108W|SLC9A8_uc010gid.2_Missense_Mutation_p.R32W	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	408						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			GAATTTCTTCCGGGATCATAA	0.413													19	38	---	---	---	---	PASS	T	48497524	T	T	48497524	3	4	4	1	0	0	0	0	1	0	0	0	14720	643	23	1	1272	1	SLC9A8	20	48497524	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	48497524	14527996	3647	4238	187	2								
FAM65C	140876	broad.mit.edu	37	chr20	49236648	49236648	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaggcattcgcgatctcacGgagttcctgttgatggactt	12	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:49236648G>A	uc002xvm.2	-	3	450	c.132C>T	c.(130-132)TCC>TCT	p.S44S	FAM65C_uc010zyt.1_Silent_p.S48S|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Silent_p.S44S	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	44										ovary(2)	2						GCGATCTCACGGAGTTCCTGT	0.537													24	60	---	---	---	---	PASS	A	49236648	A	A	49236648	2	1	4	1	0	0	0	0	0	0	0	1	5601	1103	39	1		1	FAM65C	20	49236648	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	739124	49236648	13788872	3648	4239										
MOCS3	27304	broad.mit.edu	37	chr20	49576168	49576168	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccttggaagtgctgaaaatCgctgcgggtctgggcccctc	14	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:49576168C>T	uc002xvy.1	+	1	806	c.789C>T	c.(787-789)ATC>ATT	p.I263I	DPM1_uc002xvw.1_5'Flank|DPM1_uc002xvx.1_5'Flank	NM_014484	NP_055299	O95396	MOCS3_HUMAN	molybdenum cofactor synthesis 3	263					enzyme active site formation via L-cysteine persulfide|Mo-molybdopterin cofactor biosynthetic process|tRNA thio-modification|tRNA wobble uridine modification|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|nucleotidyltransferase activity|protein binding|thiosulfate sulfurtransferase activity|URM1 activating enzyme activity			skin(2)|ovary(1)	3						TGCTGAAAATCGCTGCGGGTC	0.642													15	30	---	---	---	---	PASS	T	49576168	T	T	49576168	2	4	4	1	0	0	0	0	0	0	0	1	9692	874	31	2		2	MOCS3	20	49576168	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	339520	49576168	13449352	3649	4240										
SALL4	57167	broad.mit.edu	37	chr20	50406824	50406824	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggcaggacccactttccctGgggcatctaaggaagccatc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:50406824G>A	uc002xwh.3	-	2	2299	c.2198C>T	c.(2197-2199)CCA>CTA	p.P733L	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	733					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CACTTTCCCTGGGGCATCTAA	0.607													9	18	---	---	---	---	PASS	A	50406824	A	A	50406824	3	1	4	1	0	0	0	0	1	0	0	0	13813	1348	47	3	975	3	SALL4	20	50406824	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	830656	50406824	12618696	3650	4241	188	2								
SALL4	57167	broad.mit.edu	37	chr20	50406825	50406825	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcaggacccactttccctgGggcatctaaggaagccatca							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:50406825G>A	uc002xwh.3	-	2	2298	c.2197C>T	c.(2197-2199)CCA>TCA	p.P733S	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	733					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ACTTTCCCTGGGGCATCTAAG	0.607													9	17	---	---	---	---	PASS	A	50406825	A	A	50406825	3	1	4	1	0	0	0	0	1	0	0	0	13813	1232	43	3	976	3	SALL4	20	50406825	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	50406825	12618695	3651	4242	188	2								
ZNF831	128611	broad.mit.edu	37	chr20	57767367	57767367	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacaacgtgcggccccggaaGaccgggctgtccaaacaggg	15	13	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:57767367G>A	uc002yan.2	+	1	1293	c.1293G>A	c.(1291-1293)AAG>AAA	p.K431K		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	431						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGCCCCGGAAGACCGGGCTGT	0.647													7	6	---	---	---	---	PASS	A	57767367	A	A	57767367	2	1	4	1	0	0	0	0	0	0	0	1	18182	933	33	2		2	ZNF831	20	57767367	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	7360542	57767367	5258153	3652	4243										
ZNF831	128611	broad.mit.edu	37	chr20	57768720	57768720	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgggcgagcctctggagtcCtctggagcctccttggctgc	15	13	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:57768720C>T	uc002yan.2	+	1	2646	c.2646C>T	c.(2644-2646)TCC>TCT	p.S882S		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	882						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CTCTGGAGTCCTCTGGAGCCT	0.657													5	10	---	---	---	---	PASS	T	57768720	T	T	57768720	2	4	4	1	0	0	0	0	0	0	0	1	18182	668	24	3		3	ZNF831	20	57768720	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1353	57768720	5256800	3653	4244										
ZNF831	128611	broad.mit.edu	37	chr20	57769121	57769121	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgttccaggccacaggatgGgagaaaaggggcacagttgg	16	8	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:57769121G>A	uc002yan.2	+	1	3047	c.3047G>A	c.(3046-3048)GGG>GAG	p.G1016E		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1016						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CCACAGGATGGGAGAAAAGGG	0.672													10	10	---	---	---	---	PASS	A	57769121	A	A	57769121	3	1	4	1	0	0	0	0	1	0	0	0	18182	1232	43	3	3049	3	ZNF831	20	57769121	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	401	57769121	5256399	3654	4245										
SYCP2	10388	broad.mit.edu	37	chr20	58475292	58475292	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgatttttcctttaaactAacgagctcttctccgactgg	6	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:58475292A>G	uc002yaz.2	-	17	1444	c.1305T>C	c.(1303-1305)GTT>GTC	p.V435V	SYCP2_uc010gju.1_Silent_p.V336V	NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	435					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			CCTTTAAACTAACGAGCTCTT	0.343													15	29	---	---	---	---	PASS	G	58475292	G	G	58475292	2	3	4	1	0	0	0	0	0	0	0	1	15429	349	13	5		5	SYCP2	20	58475292	Silent	SNP	A	TCGA-18-3409-01A-01D-0983-08	706171	58475292	4550228	3655	4246										
CDH4	1002	broad.mit.edu	37	chr20	60470012	60470012	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcaggccacagatatggaagGaaatctcaactatggcctct	9	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:60470012G>A	uc002ybn.1	+	8	1111	c.1097G>A	c.(1096-1098)GGA>GAA	p.G366E	CDH4_uc002ybp.1_Missense_Mutation_p.G292E	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	366	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GATATGGAAGGAAATCTCAAC	0.473													46	79	---	---	---	---	PASS	A	60470012	A	A	60470012	3	1	4	1	0	0	0	0	1	0	0	0	3112	1174	41	2	1127	2	CDH4	20	60470012	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1994720	60470012	2555508	3656	4247										
C20orf166	128826	broad.mit.edu	37	chr20	61167762	61167762	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agccccagccccacagtgctCcagtgtgtgaagggcaacag	12	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:61167762C>T	uc011aaj.1	+	4	1011	c.232C>T	c.(232-234)CCA>TCA	p.P78S		NM_178463	NP_848558	Q9H1L0	CT166_HUMAN	hypothetical protein LOC128826	78											0	Breast(26;1.04e-08)		BRCA - Breast invasive adenocarcinoma(19;7.17e-06)			CCACAGTGCTCCAGTGTGTGA	0.522													11	32	---	---	---	---	PASS	T	61167762	T	T	61167762	3	4	4	1	0	0	0	0	1	0	0	0	2095	855	30	2	242	2	C20orf166	20	61167762	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	697750	61167762	1857758	3657	4248										
C20orf20	55257	broad.mit.edu	37	chr20	61430920	61430920	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagacaagcggaagcgcagCcgggtcaccgacaaagtcct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:61430920C>T	uc002ydi.2	+	5	611	c.540C>T	c.(538-540)AGC>AGT	p.S180S		NM_018270	NP_060740	Q9NV56	MRGBP_HUMAN	MRG-binding protein	180					chromatin modification|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	H4/H2A histone acetyltransferase complex					0	Breast(26;3.65e-08)					GGAAGCGCAGCCGGGTCACCG	0.587													27	68	---	---	---	---	PASS	T	61430920	T	T	61430920	2	4	4	1	0	0	0	0	0	0	0	1	2103	738	26	3		3	C20orf20	20	61430920	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	263158	61430920	1594600	3658	4249	189	2								
C20orf20	55257	broad.mit.edu	37	chr20	61430921	61430921	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagacaagcggaagcgcagcCgggtcaccgacaaagtcctg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:61430921C>T	uc002ydi.2	+	5	612	c.541C>T	c.(541-543)CGG>TGG	p.R181W		NM_018270	NP_060740	Q9NV56	MRGBP_HUMAN	MRG-binding protein	181					chromatin modification|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	H4/H2A histone acetyltransferase complex					0	Breast(26;3.65e-08)					GAAGCGCAGCCGGGTCACCGA	0.582													27	68	---	---	---	---	PASS	T	61430921	T	T	61430921	3	4	4	1	0	0	0	0	1	0	0	0	2103	643	23	1	559	1	C20orf20	20	61430921	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	61430921	1594599	3659	4250	189	2								
COL9A3	1299	broad.mit.edu	37	chr20	61460130	61460130	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccagggcatgccgggcaaGgacggccagaatggcgtgcc	16	14	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:61460130G>A	uc002ydm.2	+	18	918	c.915G>A	c.(913-915)AAG>AAA	p.K305K		NM_001853	NP_001844	Q14050	CO9A3_HUMAN	alpha 3 type IX collagen precursor	305	Triple-helical region 3 (COL3).				axon guidance	collagen type IX					0	Breast(26;5.68e-08)					TGCCGGGCAAGGACGGCCAGA	0.697													4	12	---	---	---	---	PASS	A	61460130	A	A	61460130	2	1	4	1	0	0	0	0	0	0	0	1	3709	991	35	3		3	COL9A3	20	61460130	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	29209	61460130	1565390	3660	4251										
COL9A3	1299	broad.mit.edu	37	chr20	61467684	61467684	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacggggaagccgggagttcCggtacgtcgcttttccggct	15	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:61467684C>T	uc002ydm.2	+	28	1550	c.1547C>T	c.(1546-1548)CCG>CTG	p.P516L	COL9A3_uc002ydn.2_5'Flank	NM_001853	NP_001844	Q14050	CO9A3_HUMAN	alpha 3 type IX collagen precursor	516	Triple-helical region 3 (COL3).				axon guidance	collagen type IX					0	Breast(26;5.68e-08)					CCGGGAGTTCCGGTACGTCGC	0.627													10	26	---	---	---	---	PASS	T	61467684	T	T	61467684	3	4	4	1	0	0	0	0	1	0	0	0	3709	666	23	1	1657	1	COL9A3	20	61467684	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	7554	61467684	1557836	3661	4252										
CHRNA4	1137	broad.mit.edu	37	chr20	61981026	61981026	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagaagtctgtgtcttcggcCttcaggtggtctgcaatgta	13	8	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:61981026C>T	uc002yes.2	-	5	1915	c.1737G>A	c.(1735-1737)AAG>AAA	p.K579K	CHRNA4_uc002yet.1_Silent_p.K403K|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Silent_p.K508K|CHRNA4_uc002yev.1_Silent_p.K403K|CHRNA4_uc010gkf.1_Silent_p.K403K	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	579	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	TGTCTTCGGCCTTCAGGTGGT	0.657													14	26	---	---	---	---	PASS	T	61981026	T	T	61981026	2	4	4	1	0	0	0	0	0	0	0	1	3385	680	24	3		3	CHRNA4	20	61981026	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	513342	61981026	1044494	3662	4253										
CHRNA4	1137	broad.mit.edu	37	chr20	61982311	61982311	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtaaatggccgggggagtcCactgcacccgcccgtcatgg	14	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:61982311C>A	uc002yes.2	-	5	630	c.452G>T	c.(451-453)TGG>TTG	p.W151L	CHRNA4_uc002yet.1_5'UTR|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.W80L|CHRNA4_uc002yev.1_5'UTR|CHRNA4_uc010gkf.1_5'UTR	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	151	Extracellular (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	CGGGGGAGTCCACTGCACCCG	0.602													14	31	---	---	---	---	PASS	A	61982311	A	A	61982311	3	1	4	1	0	0	0	0	1	0	0	0	3385	595	21	3	1439	3	CHRNA4	20	61982311	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1285	61982311	1043209	3663	4254										
PRIC285	85441	broad.mit.edu	37	chr20	62198494	62198494	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgcagcggtagttctcgtgGaagaccaggcggctctgccg	16	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:62198494G>A	uc002yfm.2	-	7	3109	c.2217C>T	c.(2215-2217)TTC>TTT	p.F739F	PRIC285_uc002yfl.1_Silent_p.F170F	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	739					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			AGTTCTCGTGGAAGACCAGGC	0.672													17	46	---	---	---	---	PASS	A	62198494	A	A	62198494	2	1	4	1	0	0	0	0	0	0	0	1	12485	1165	41	2		2	PRIC285	20	62198494	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	216183	62198494	827026	3664	4255										
RTEL1	51750	broad.mit.edu	37	chr20	62319071	62319071	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggcgtccgctccctcatcCttaccagcggcacgctggcc	11	18	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:62319071C>T	uc002yfu.1	+	17	1772	c.1429C>T	c.(1429-1431)CTT>TTT	p.L477F	RTEL1_uc011abc.1_RNA|RTEL1_uc002yft.1_Missense_Mutation_p.L477F|RTEL1_uc011abd.1_Missense_Mutation_p.L501F|RTEL1_uc011abe.1_Missense_Mutation_p.L254F|RTEL1_uc002yfw.2_RNA|RTEL1_uc002yfx.1_5'Flank	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1	477					DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)			CTCCCTCATCCTTACCAGCGG	0.677													4	5	---	---	---	---	PASS	T	62319071	T	T	62319071	3	4	4	1	0	0	0	0	1	0	0	0	13720	681	24	3	1491	3	RTEL1	20	62319071	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	120577	62319071	706449	3665	4256										
TPD52L2	7165	broad.mit.edu	37	chr20	62520563	62520563	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaactctgcgaccttcaagtCgtttgaggaccgagttggga	13	9	2	1	rs150777439		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr20:62520563C>T	uc002yhc.2	+	6	626	c.497C>T	c.(496-498)TCG>TTG	p.S166L	TPD52L2_uc002ygy.2_Missense_Mutation_p.S189L|TPD52L2_uc002ygz.2_Missense_Mutation_p.S180L|TPD52L2_uc002yha.2_Missense_Mutation_p.S169L|TPD52L2_uc002yhb.2_Missense_Mutation_p.S160L|TPD52L2_uc002yhd.2_Missense_Mutation_p.S146L|TPD52L2_uc011abk.1_Missense_Mutation_p.S117L|TPD52L2_uc011abl.1_Missense_Mutation_p.S123L|TPD52L2_uc002yhe.2_Missense_Mutation_p.S65L	NM_003288	NP_003279	O43399	TPD54_HUMAN	tumor protein D52-like 2 isoform e	166					regulation of cell proliferation	perinuclear region of cytoplasm	protein binding|protein homodimerization activity	p.S189L(1)		ovary(1)|skin(1)	2	all_cancers(38;1.3e-12)|all_epithelial(29;2.23e-14)|Lung NSC(23;5.92e-10)|all_lung(23;2.08e-09)					ACCTTCAAGTCGTTTGAGGAC	0.483													5	22	---	---	---	---	PASS	T	62520563	T	T	62520563	3	4	4	1	0	0	0	0	1	0	0	0	16396	893	31	2	596	2	TPD52L2	20	62520563	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	201492	62520563	504957	3666	4257										
TPTE	7179	broad.mit.edu	37	chr21	10908843	10908843	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctgttattttcaataaaaGatgtgtgcaaccagaagtaa	7	6	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:10908843G>A	uc002yip.1	-	23	1870	c.1502C>T	c.(1501-1503)TCT>TTT	p.S501F	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.S483F|TPTE_uc002yir.1_Missense_Mutation_p.S463F|TPTE_uc010gkv.1_Missense_Mutation_p.S363F	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	501	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTCAATAAAAGATGTGTGCAA	0.299													8	47	---	---	---	---	PASS	A	10908843	A	A	10908843	3	1	4	1	0	0	0	0	1	0	0	0	16427	942	33	2	161	2	TPTE	21	10908843	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08		10908843	37221052	3667	4258										
TPTE	7179	broad.mit.edu	37	chr21	10914364	10914364	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcacatgttttctcttaccGaacattttcctaatgaaata	3	9	2	1	rs147105244		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:10914364G>A	uc002yip.1	-	21	1723	c.1355C>T	c.(1354-1356)TCG>TTG	p.S452L	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.S434L|TPTE_uc002yir.1_Missense_Mutation_p.S414L|TPTE_uc010gkv.1_Missense_Mutation_p.S314L	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	452	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTCTCTTACCGAACATTTTCC	0.323													6	57	---	---	---	---	PASS	A	10914364	A	A	10914364	3	1	4	1	0	0	0	0	1	0	0	0	16427	1072	37	2	316	2	TPTE	21	10914364	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5521	10914364	37215531	3668	4259										
TPTE	7179	broad.mit.edu	37	chr21	10920086	10920086	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttaaaaagaaaacttacctGagaaggagtttttactccct	6	7	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:10920086G>T	uc002yip.1	-	19	1536	c.1168C>A	c.(1168-1170)CAG>AAG	p.Q390K	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.Q372K|TPTE_uc002yir.1_Missense_Mutation_p.Q352K|TPTE_uc010gkv.1_Missense_Mutation_p.Q252K	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	390	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		AAACTTACCTGAGAAGGAGTT	0.378													11	61	---	---	---	---	PASS	T	10920086	T	T	10920086	3	4	4	1	0	0	0	0	1	0	0	0	16427	1299	45	2	511	2	TPTE	21	10920086	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5722	10920086	37209809	3669	4260										
TPTE	7179	broad.mit.edu	37	chr21	10941939	10941939	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctatagaaagactgccttCcagaagatggaaatgacata	8	7	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:10941939C>T	uc002yip.1	-	14	1132	c.764G>A	c.(763-765)GGA>GAA	p.G255E	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.G237E|TPTE_uc002yir.1_Missense_Mutation_p.G217E|TPTE_uc010gkv.1_Missense_Mutation_p.G117E	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	255	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		AGACTGCCTTCCAGAAGATGG	0.289													14	182	---	---	---	---	PASS	T	10941939	T	T	10941939	3	4	4	1	0	0	0	0	1	0	0	0	16427	855	30	2	935	2	TPTE	21	10941939	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	21853	10941939	37187956	3670	4261										
LIPI	149998	broad.mit.edu	37	chr21	15538721	15538721	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacagccaggttgtttatttCctccatttggataaaaatct	7	8	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:15538721C>T	uc002yjm.2	-	5	768	c.758G>A	c.(757-759)GGA>GAA	p.G253E	LIPI_uc010gkw.1_Intron	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	232					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		TTGTTTATTTCCTCCATTTGG	0.343													18	47	---	---	---	---	PASS	T	15538721	T	T	15538721	3	4	4	1	0	0	0	0	1	0	0	0	8825	855	30	2	711	2	LIPI	21	15538721	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4596782	15538721	32591174	3671	4262										
NRIP1	8204	broad.mit.edu	37	chr21	16337376	16337376	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcattcttctccgcatcagtGataacccacttaatgggtcc	6	13	4	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:16337376G>A	uc002yjx.2	-	4	3736	c.3138C>T	c.(3136-3138)ATC>ATT	p.I1046I		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	1046					androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		CCGCATCAGTGATAACCCACT	0.443													9	34	---	---	---	---	PASS	A	16337376	A	A	16337376	2	1	4	1	0	0	0	0	0	0	0	1	10652	1280	45	2		2	NRIP1	21	16337376	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	798655	16337376	31792519	3672	4263										
USP25	29761	broad.mit.edu	37	chr21	17163870	17163870	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcatgtttgaagaggacaCctacagaagtttggagggat	13	5	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:17163870C>T	uc002yjy.1	+	5	659	c.442C>T	c.(442-444)CCT>TCT	p.P148S	USP25_uc011aby.1_Missense_Mutation_p.P148S|USP25_uc002yjz.1_Missense_Mutation_p.P148S|USP25_uc010gla.1_Missense_Mutation_p.P148S	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	148					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		GAAGAGGACACCTACAGAAGT	0.388													25	57	---	---	---	---	PASS	T	17163870	T	T	17163870	3	4	4	1	0	0	0	0	1	0	0	0	17053	507	18	3	460	3	USP25	21	17163870	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	826494	17163870	30966025	3673	4264										
CHODL	140578	broad.mit.edu	37	chr21	19629007	19629007	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagagcatgttgcaaaacctGacaaaacccgggacagggat	12	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:19629007G>T	uc002ykv.2	+	2	652	c.261G>T	c.(259-261)CTG>CTT	p.L87L	CHODL_uc002ykr.2_Silent_p.L46L|CHODL_uc002yks.2_Silent_p.L46L|CHODL_uc002ykt.2_Silent_p.L46L|CHODL_uc002yku.2_Silent_p.L46L	NM_024944	NP_079220	Q9H9P2	CHODL_HUMAN	chondrolectin precursor	87	Extracellular (Potential).|C-type lectin.				muscle organ development	integral to membrane|perinuclear region of cytoplasm	sugar binding			upper_aerodigestive_tract(1)	1		all_epithelial(11;0.21)		Epithelial(23;0.000191)|all cancers(11;0.000827)|LUSC - Lung squamous cell carcinoma(23;0.00646)|Lung(58;0.0129)|OV - Ovarian serous cystadenocarcinoma(11;0.017)|COAD - Colon adenocarcinoma(22;0.03)|Colorectal(24;0.0917)		TGCAAAACCTGACAAAACCCG	0.507													26	62	---	---	---	---	PASS	T	19629007	T	T	19629007	2	4	4	1	0	0	0	0	0	0	0	1	3364	1277	45	2		2	CHODL	21	19629007	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2465137	19629007	28500888	3674	4265										
TMPRSS15	5651	broad.mit.edu	37	chr21	19775824	19775824	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attccttgattgtcaggcagGatactgcaattaatccagca	8	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:19775824G>A	uc002ykw.2	-	1	147	c.116C>T	c.(115-117)TCC>TTC	p.S39F		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	39	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TGTCAGGCAGGATACTGCAAT	0.448													16	38	---	---	---	---	PASS	A	19775824	A	A	19775824	3	1	4	1	0	0	0	0	1	0	0	0	16243	1174	41	2	3043	2	TMPRSS15	21	19775824	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	146817	19775824	28354071	3675	4266										
NCAM2	4685	broad.mit.edu	37	chr21	22658606	22658606	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagaaaaactcactttcagaGaagtggtatctccacaagaa	7	9	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:22658606G>A	uc002yld.1	+	4	604	c.355G>A	c.(355-357)GAA>AAA	p.E119K	NCAM2_uc011acb.1_Intron|NCAM2_uc011acc.1_Missense_Mutation_p.E144K	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	119	Ig-like C2-type 2.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		CACTTTCAGAGAAGTGGTATC	0.343													7	9	---	---	---	---	PASS	A	22658606	A	A	22658606	3	1	4	1	0	0	0	0	1	0	0	0	10203	943	33	2	369	2	NCAM2	21	22658606	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2882782	22658606	25471289	3676	4267										
KRTAP13-4	284827	broad.mit.edu	37	chr21	31802915	31802915	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgctactcgctgggaaatGgatccagtggcttcagattc	12	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:31802915G>A	uc011acw.1	+	1	322	c.322G>A	c.(322-324)GGA>AGA	p.G108R		NM_181600	NP_853631	Q3LI77	KR134_HUMAN	keratin associated protein 13-4	108						intermediate filament					0						GCTGGGAAATGGATCCAGTGG	0.532													8	15	---	---	---	---	PASS	A	31802915	A	A	31802915	3	1	4	1	0	0	0	0	1	0	0	0	8525	1349	47	3	324	3	KRTAP13-4	21	31802915	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	9144309	31802915	16326980	3677	4268										
KRTAP19-3	337970	broad.mit.edu	37	chr21	31864251	31864251	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagccatagcccaggcctcCatagtagctgccgtagtagc	10	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:31864251C>T	uc002yog.1	-	1	25	c.25G>A	c.(25-27)GGA>AGA	p.G9R		NM_181609	NP_853640	Q7Z4W3	KR193_HUMAN	keratin associated protein 19-3	9						intermediate filament					0						CCCAGGCCTCCATAGTAGCTG	0.562													22	60	---	---	---	---	PASS	T	31864251	T	T	31864251	3	4	4	1	0	0	0	0	1	0	0	0	8530	603	21	3	224	3	KRTAP19-3	21	31864251	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	61336	31864251	16265644	3678	4269										
KRTAP6-3	337968	broad.mit.edu	37	chr21	31964882	31964882	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttatggcggctgtggctatGggtgctgtggctacggaggc	19	7	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:31964882G>A	uc002yom.2	+	1	124	c.118G>A	c.(118-120)GGG>AGG	p.G40R		NM_181605	NP_853636			keratin associated protein 6-3												0						ctgtggctatgggtgctgtgg	0.124													17	21	---	---	---	---	PASS	A	31964882	A	A	31964882	3	1	4	1	0	0	0	0	1	0	0	0	8571	1348	47	3	120	3	KRTAP6-3	21	31964882	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	100631	31964882	16165013	3679	4270										
KRTAP20-2	337976	broad.mit.edu	37	chr21	32007668	32007668	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggctgtggctgtggttatgGccatggctatggaggcctgg	18	7	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:32007668G>A	uc011adg.1	+	1	86	c.86G>A	c.(85-87)GGC>GAC	p.G29D		NM_181616	NP_853647	Q3LI61	KR202_HUMAN	keratin associated protein 20-2	29						intermediate filament				central_nervous_system(1)	1						TGTGGTTATGGCCATGGCTAT	0.552													5	24	---	---	---	---	PASS	A	32007668	A	A	32007668	3	1	4	1	0	0	0	0	1	0	0	0	8537	1203	42	3	88	3	KRTAP20-2	21	32007668	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	42786	32007668	16122227	3680	4271										
TIAM1	7074	broad.mit.edu	37	chr21	32638620	32638620	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttggctctctgacaggtgctGagctgccgcggactcgcccg	14	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:32638620G>A	uc002yow.1	-	5	1141	c.669C>T	c.(667-669)CTC>CTT	p.L223L	TIAM1_uc011adk.1_Silent_p.L223L|TIAM1_uc011adl.1_Silent_p.L223L|TIAM1_uc002yox.1_Intron	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	223					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						GACAGGTGCTGAGCTGCCGCG	0.552													18	26	---	---	---	---	PASS	A	32638620	A	A	32638620	2	1	4	1	0	0	0	0	0	0	0	1	15887	1277	45	2		2	TIAM1	21	32638620	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	630952	32638620	15491275	3681	4272										
SFRS15	57466	broad.mit.edu	37	chr21	33074193	33074193	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtttggagtggcttgtgtggGaggttcagaagaaactttta	15	3	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:33074193G>A	uc002ypd.2	-	6	922	c.496C>T	c.(496-498)CCC>TCC	p.P166S	SFRS15_uc002ype.2_Missense_Mutation_p.P166S|SFRS15_uc010glu.2_Missense_Mutation_p.P151S|SFRS15_uc002ypf.1_5'UTR|SFRS15_uc002ypg.2_Missense_Mutation_p.P166S	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	166						nucleus	nucleotide binding|RNA binding				0						GCTTGTGTGGGAGGTTCAGAA	0.453													9	50	---	---	---	---	PASS	A	33074193	A	A	33074193	3	1	4	1	0	0	0	0	1	0	0	0	14171	1174	41	2	3007	2	SFRS15	21	33074193	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	435573	33074193	15055702	3682	4273										
HUNK	30811	broad.mit.edu	37	chr21	33371063	33371063	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgtggatcgcgacgaccacGtagaagtgctgtctccctct	11	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:33371063G>A	uc002yph.2	+	11	2071	c.1711G>A	c.(1711-1713)GTA>ATA	p.V571I		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	571					multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						CGACGACCACGTAGAAGTGCT	0.612													14	23	---	---	---	---	PASS	A	33371063	A	A	33371063	3	1	4	1	0	0	0	0	1	0	0	0	7458	1145	40	1	1753	1	HUNK	21	33371063	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	296870	33371063	14758832	3683	4274										
SYNJ1	8867	broad.mit.edu	37	chr21	34053869	34053869	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgattgaatcaccattcacGgaccacattgaccgaaaaac	6	12	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:34053869G>A	uc002yqh.2	-	11	1407	c.1407C>T	c.(1405-1407)TCC>TCT	p.S469S	SYNJ1_uc011ads.1_Silent_p.S430S|SYNJ1_uc002yqf.2_Silent_p.S430S|SYNJ1_uc002yqg.2_Silent_p.S430S|SYNJ1_uc002yqi.2_Silent_p.S469S	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	430	SAC.						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						CACCATTCACGGACCACATTG	0.398													18	59	---	---	---	---	PASS	A	34053869	A	A	34053869	2	1	4	1	0	0	0	0	0	0	0	1	15449	1103	39	1		1	SYNJ1	21	34053869	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	682806	34053869	14076026	3684	4275										
SON	6651	broad.mit.edu	37	chr21	34924260	34924260	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agattctgctatgttgggttCaaaatctcctgatccctata	7	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:34924260C>T	uc002yse.1	+	3	2772	c.2723C>T	c.(2722-2724)TCA>TTA	p.S908L	SON_uc002ysb.1_Missense_Mutation_p.S908L|SON_uc002ysc.2_Missense_Mutation_p.S908L|SON_uc002ysd.2_Intron|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	908					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						ATGTTGGGTTCAAAATCTCCT	0.473													8	24	---	---	---	---	PASS	T	34924260	T	T	34924260	3	4	4	1	0	0	0	0	1	0	0	0	14926	838	29	2	2733	2	SON	21	34924260	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	870391	34924260	13205635	3685	4276										
ITSN1	6453	broad.mit.edu	37	chr21	35208892	35208892	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaagtggggctcttcccatCcaattatgtgaagctgacca	9	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:35208892C>T	uc002yta.1	+	29	3885	c.3617C>T	c.(3616-3618)TCC>TTC	p.S1206F	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_RNA|ITSN1_uc002ysz.2_Missense_Mutation_p.S1130F|ITSN1_uc010gmg.2_Missense_Mutation_p.S1093F|ITSN1_uc010gmh.2_RNA|ITSN1_uc002ysw.2_Missense_Mutation_p.S1206F|ITSN1_uc010gmi.2_Missense_Mutation_p.S1169F|ITSN1_uc010gmj.2_Missense_Mutation_p.S1085F|ITSN1_uc002ysy.2_Missense_Mutation_p.S1201F|ITSN1_uc002ysx.2_Missense_Mutation_p.S1164F|ITSN1_uc002ytb.1_Missense_Mutation_p.S1201F|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Missense_Mutation_p.S1098F|ITSN1_uc010gml.2_RNA|ITSN1_uc002ytj.2_Missense_Mutation_p.S1201F|ITSN1_uc010gmm.1_RNA|ITSN1_uc002yte.2_Missense_Mutation_p.S1069F|ITSN1_uc002yti.1_RNA	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	1206	SH3 5.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						CTCTTCCCATCCAATTATGTG	0.532													28	52	---	---	---	---	PASS	T	35208892	T	T	35208892	3	4	4	1	0	0	0	0	1	0	0	0	7926	855	30	2	3727	2	ITSN1	21	35208892	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	284632	35208892	12921003	3686	4277										
SLC5A3	6526	broad.mit.edu	37	chr21	35468224	35468224	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caaattcttgtaatgtctccCctaagaaagaagccctgaaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:35468224C>T	uc002yto.2	+	2	1239	c.727C>T	c.(727-729)CCT>TCT	p.P243S	MRPS6_uc002ytp.2_Intron	NM_006933	NP_008864	P53794	SC5A3_HUMAN	solute carrier family 5 (inositol transporters),	243	Cytoplasmic (Potential).					integral to plasma membrane	myo-inositol:sodium symporter activity			ovary(2)	2						TAATGTCTCCCCTAAGAAAGA	0.448													17	67	---	---	---	---	PASS	T	35468224	T	T	35468224	3	4	4	1	0	0	0	0	1	0	0	0	14666	623	22	3	729	3	SLC5A3	21	35468224	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	259332	35468224	12661671	3687	4278	190	2								
SLC5A3	6526	broad.mit.edu	37	chr21	35468225	35468225	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaattcttgtaatgtctcccCtaagaaagaagccctgaaaa							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:35468225C>T	uc002yto.2	+	2	1240	c.728C>T	c.(727-729)CCT>CTT	p.P243L	MRPS6_uc002ytp.2_Intron	NM_006933	NP_008864	P53794	SC5A3_HUMAN	solute carrier family 5 (inositol transporters),	243	Cytoplasmic (Potential).					integral to plasma membrane	myo-inositol:sodium symporter activity			ovary(2)	2						AATGTCTCCCCTAAGAAAGAA	0.448													17	67	---	---	---	---	PASS	T	35468225	T	T	35468225	3	4	4	1	0	0	0	0	1	0	0	0	14666	681	24	3	730	3	SLC5A3	21	35468225	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	35468225	12661670	3688	4279	190	2								
CHAF1B	8208	broad.mit.edu	37	chr21	37788602	37788602	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagacgctcagggcagtcccCcagagctaaagcggcccaga	13	14	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:37788602C>T	uc002yvj.2	+	14	1756	c.1618C>T	c.(1618-1620)CCA>TCA	p.P540S		NM_005441	NP_005432	Q13112	CAF1B_HUMAN	chromatin assembly factor 1 subunit B	540					cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|cytoplasm	chromatin binding|histone binding|unfolded protein binding			ovary(1)|skin(1)	2						GGGCAGTCCCCCAGAGCTAAA	0.527													8	15	---	---	---	---	PASS	T	37788602	T	T	37788602	3	4	4	1	0	0	0	0	1	0	0	0	3312	623	22	3	1668	3	CHAF1B	21	37788602	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2320377	37788602	10341293	3689	4280										
DYRK1A	1859	broad.mit.edu	37	chr21	38858793	38858793	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	taaaggcatatgatcgtgtgGagcaagaatgggttgccatt	13	5	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:38858793G>A	uc002ywk.2	+	5	616	c.541G>A	c.(541-543)GAG>AAG	p.E181K	DYRK1A_uc002ywh.1_Missense_Mutation_p.E143K|DYRK1A_uc002ywi.2_Missense_Mutation_p.E181K|DYRK1A_uc002ywj.2_Missense_Mutation_p.E172K|DYRK1A_uc002ywl.2_Missense_Mutation_p.E181K|DYRK1A_uc002ywm.2_Missense_Mutation_p.E181K|DYRK1A_uc011aei.1_5'Flank	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	181	Protein kinase.				nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						TGATCGTGTGGAGCAAGAATG	0.313													16	35	---	---	---	---	PASS	A	38858793	A	A	38858793	3	1	4	1	0	0	0	0	1	0	0	0	4854	1175	41	2	559	2	DYRK1A	21	38858793	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1070191	38858793	9271102	3690	4281										
KCNJ6	3763	broad.mit.edu	37	chr21	39086760	39086760	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttggctctgatggaagcctCcacaatgtgggaattcctaa	10	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:39086760C>T	uc011aej.1	-	3	753	c.700G>A	c.(700-702)GAG>AAG	p.E234K	KCNJ6_uc002ywo.2_Missense_Mutation_p.E234K	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	234	Cytoplasmic (By similarity).				synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	ATGGAAGCCTCCACAATGTGG	0.527													14	35	---	---	---	---	PASS	T	39086760	T	T	39086760	3	4	4	1	0	0	0	0	1	0	0	0	8055	864	30	2	579	2	KCNJ6	21	39086760	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	227967	39086760	9043135	3691	4282										
DSCAM	1826	broad.mit.edu	37	chr21	41450784	41450784	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaactgtggtcccaaagggcCtgtactctagtgtgaaggag	13	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:41450784C>T	uc002yyq.1	-	26	4993	c.4541G>A	c.(4540-4542)AGG>AAG	p.R1514K	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1514	Extracellular (Potential).|Fibronectin type-III 6.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CCCAAAGGGCCTGTACTCTAG	0.562													9	17	---	---	---	---	PASS	T	41450784	T	T	41450784	3	4	4	1	0	0	0	0	1	0	0	0	4768	681	24	3	1529	3	DSCAM	21	41450784	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2364024	41450784	6679111	3692	4283										
DSCAM	1826	broad.mit.edu	37	chr21	41710112	41710112	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtactccccctcgtccacttCcttttgcacatctgaaagtt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:41710112C>T	uc002yyq.1	-	8	2151	c.1699G>A	c.(1699-1701)GAA>AAA	p.E567K	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	567	Extracellular (Potential).|Ig-like C2-type 6.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TCGTCCACTTCCTTTTGCACA	0.493													19	45	---	---	---	---	PASS	T	41710112	T	T	41710112	3	4	4	1	0	0	0	0	1	0	0	0	4768	864	30	2	4443	2	DSCAM	21	41710112	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	259328	41710112	6419783	3693	4284	191	2								
DSCAM	1826	broad.mit.edu	37	chr21	41710113	41710113	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tactccccctcgtccacttcCttttgcacatctgaaagttt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:41710113C>T	uc002yyq.1	-	8	2150	c.1698G>A	c.(1696-1698)AAG>AAA	p.K566K	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	566	Extracellular (Potential).|Ig-like C2-type 6.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CGTCCACTTCCTTTTGCACAT	0.488													18	47	---	---	---	---	PASS	T	41710113	T	T	41710113	2	4	4	1	0	0	0	0	0	0	0	1	4768	680	24	3		3	DSCAM	21	41710113	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	41710113	6419782	3694	4285	191	2								
TMPRSS2	7113	broad.mit.edu	37	chr21	42843869	42843869	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgaaagattgtctcaaaatCcccgcaaatgccgtccaatg	7	11	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:42843869C>T	uc002yzj.2	-	10	1073	c.939G>A	c.(937-939)GGG>GGA	p.G313G	TMPRSS2_uc010gor.2_Silent_p.G350G|TMPRSS2_uc010gos.1_Silent_p.G313G	NM_005656	NP_005647	O15393	TMPS2_HUMAN	transmembrane protease, serine 2 isoform 2	313	Peptidase S1.|Extracellular (Potential).				proteolysis	cytoplasm|extracellular region|integral to plasma membrane	scavenger receptor activity|serine-type endopeptidase activity		TMPRSS2/ERG(2499)|TMPRSS2/ETV1(24)	prostate(2523)|central_nervous_system(1)	2524		Prostate(19;4.48e-07)|all_epithelial(19;0.031)				GTCTCAAAATCCCCGCAAATG	0.428			T	ERG|ETV1|ETV4|ETV5	prostate 								17	33	---	---	---	---	PASS	T	42843869	T	T	42843869	2	4	4	1	0	0	0	0	0	0	0	1	16244	842	30	2		2	TMPRSS2	21	42843869	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1133756	42843869	5286026	3695	4286										
UMODL1	89766	broad.mit.edu	37	chr21	43496237	43496237	+	Nonsense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgcggcggctggatcccctGgaggcggtgccctaagatgg							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:43496237G>A	uc002zaf.1	+	2	200	c.200G>A	c.(199-201)TGG>TAG	p.W67*	UMODL1_uc002zad.1_5'UTR|UMODL1_uc002zae.1_5'UTR|UMODL1_uc002zag.1_Nonsense_Mutation_p.W67*|uc002zah.1_RNA	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	67	Extracellular (Potential).|EMI.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						TGGATCCCCTGGAGGCGGTGC	0.597													10	29	---	---	---	---	PASS	A	43496237	A	A	43496237	4	1	4	1	0	0	0	0	0	1	0	0	16977	1357	47	3	206	3	UMODL1	21	43496237	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	652368	43496237	4633658	3696	4287	192	2								
UMODL1	89766	broad.mit.edu	37	chr21	43496238	43496238	+	Nonsense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgcggcggctggatcccctgGaggcggtgccctaagatggt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:43496238G>A	uc002zaf.1	+	2	201	c.201G>A	c.(199-201)TGG>TGA	p.W67*	UMODL1_uc002zad.1_5'UTR|UMODL1_uc002zae.1_5'UTR|UMODL1_uc002zag.1_Nonsense_Mutation_p.W67*|uc002zah.1_RNA	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	67	Extracellular (Potential).|EMI.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						GGATCCCCTGGAGGCGGTGCC	0.602													10	29	---	---	---	---	PASS	A	43496238	A	A	43496238	4	1	4	1	0	0	0	0	0	1	0	0	16977	1183	41	2	207	2	UMODL1	21	43496238	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	43496238	4633657	3697	4288	192	2								
UMODL1	89766	broad.mit.edu	37	chr21	43547287	43547287	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aacctcaaggtggtcctgacGgagtgctgggcaaccccgtc	13	13	1	1	rs147967794	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:43547287G>T	uc002zaf.1	+	19	3465	c.3465G>T	c.(3463-3465)ACG>ACT	p.T1155T	UMODL1_uc002zad.1_Silent_p.T1083T|UMODL1_uc002zae.1_Silent_p.T1211T|UMODL1_uc002zag.1_Silent_p.T1283T|UMODL1_uc002zal.1_Silent_p.T105T|UMODL1_uc010gpa.1_5'Flank	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	1155	Extracellular (Potential).|ZP.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						TGGTCCTGACGGAGTGCTGGG	0.567													14	38	---	---	---	---	PASS	T	43547287	T	T	43547287	2	4	4	1	0	0	0	0	0	0	0	1	16977	1103	39	1		1	UMODL1	21	43547287	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	51049	43547287	4582608	3698	4289										
PDE9A	5152	broad.mit.edu	37	chr21	44108093	44108093	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atcgaccccaccatgcccgcGaattcagaacggtaagaggc	10	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:44108093G>A	uc002zbm.2	+	3	270	c.207G>A	c.(205-207)GCG>GCA	p.A69A	PDE9A_uc002zbn.2_Intron|PDE9A_uc002zbo.2_Silent_p.A69A|PDE9A_uc002zbp.2_Intron|PDE9A_uc002zbq.2_Missense_Mutation_p.E46K|PDE9A_uc002zbs.2_Intron|PDE9A_uc002zbr.2_Intron|PDE9A_uc002zbt.2_Intron|PDE9A_uc002zbu.2_Silent_p.A28A|PDE9A_uc002zbv.2_Intron|PDE9A_uc002zbw.2_Intron|PDE9A_uc002zbx.2_Silent_p.A69A|PDE9A_uc002zby.2_Intron|PDE9A_uc002zbz.2_5'UTR|PDE9A_uc002zca.2_Silent_p.A28A|PDE9A_uc002zcb.2_Intron|PDE9A_uc002zcc.2_Silent_p.A28A|PDE9A_uc002zcd.2_Intron|PDE9A_uc002zce.2_Intron|PDE9A_uc002zcf.2_5'UTR|PDE9A_uc002zcg.2_Intron	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a	69					platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						CCATGCCCGCGAATTCAGAAC	0.582													13	34	---	---	---	---	PASS	A	44108093	A	A	44108093	2	1	4	1	0	0	0	0	0	0	0	1	11655	1059	37	2		2	PDE9A	21	44108093	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	560806	44108093	4021802	3699	4290										
PDE9A	5152	broad.mit.edu	37	chr21	44190846	44190846	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttgaggagatcatgctgcagCcactttgggaatcccgagat	12	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:44190846C>A	uc002zbm.2	+	18	1687	c.1624C>A	c.(1624-1626)CCA>ACA	p.P542T	PDE9A_uc002zbn.2_Missense_Mutation_p.P415T|PDE9A_uc002zbo.2_Missense_Mutation_p.P489T|PDE9A_uc002zbp.2_Missense_Mutation_p.P335T|PDE9A_uc002zbq.2_Missense_Mutation_p.P440T|PDE9A_uc002zbs.2_Missense_Mutation_p.P335T|PDE9A_uc002zbr.2_Missense_Mutation_p.P335T|PDE9A_uc002zbt.2_Missense_Mutation_p.P414T|PDE9A_uc002zbu.2_Missense_Mutation_p.P408T|PDE9A_uc002zbv.2_Missense_Mutation_p.P382T|PDE9A_uc002zbw.2_Missense_Mutation_p.P325T|PDE9A_uc002zbx.2_Missense_Mutation_p.P482T|PDE9A_uc002zby.2_Missense_Mutation_p.P325T|PDE9A_uc002zbz.2_Missense_Mutation_p.P434T|PDE9A_uc002zca.2_Missense_Mutation_p.P501T|PDE9A_uc002zcb.2_Missense_Mutation_p.P516T|PDE9A_uc002zcc.2_Missense_Mutation_p.P441T|PDE9A_uc002zcd.2_Missense_Mutation_p.P456T|PDE9A_uc002zce.2_Missense_Mutation_p.P475T|PDE9A_uc002zcf.2_Missense_Mutation_p.P335T|PDE9A_uc002zcg.2_Missense_Mutation_p.P335T|PDE9A_uc002zch.2_Missense_Mutation_p.P325T	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a	542	Catalytic (By similarity).				platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						CATGCTGCAGCCACTTTGGGA	0.517													9	17	---	---	---	---	PASS	A	44190846	A	A	44190846	3	1	4	1	0	0	0	0	1	0	0	0	11655	739	26	3	1774	3	PDE9A	21	44190846	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	82753	44190846	3939049	3700	4291										
CBS	875	broad.mit.edu	37	chr21	44492175	44492175	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcggagcatcgggccggatCcacaggggctccttggcttc	14	14	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:44492175C>T	uc002zcu.2	-	3	374	c.129G>A	c.(127-129)TGG>TGA	p.W43*	CBS_uc002zct.2_Nonsense_Mutation_p.W43*|CBS_uc002zcw.3_Nonsense_Mutation_p.W43*|CBS_uc002zcv.2_Nonsense_Mutation_p.W43*	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	43					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	CGGGCCGGATCCACAGGGGCT	0.672													13	25	---	---	---	---	PASS	T	44492175	T	T	44492175	4	4	4	1	0	0	0	0	0	1	0	0	2711	856	30	2	1586	2	CBS	21	44492175	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	301329	44492175	3637720	3701	4292										
PDXK	8566	broad.mit.edu	37	chr21	45173564	45173564	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacctgtttgctgccatgctCctggcgtggacacacaagca	11	13	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:45173564C>T	uc002zdm.3	+	9	921	c.723C>T	c.(721-723)CTC>CTT	p.L241L	PDXK_uc010gpj.2_Silent_p.L241L|PDXK_uc002zdn.3_Silent_p.L213L|PDXK_uc002zdq.3_Silent_p.L168L	NM_003681	NP_003672	O00764	PDXK_HUMAN	pyridoxal kinase	241					cell proliferation|pyridoxal 5'-phosphate salvage	cytosol	ATP binding|lithium ion binding|magnesium ion binding|potassium ion binding|protein homodimerization activity|pyridoxal kinase activity|pyridoxal phosphate binding|sodium ion binding|zinc ion binding				0				Colorectal(79;0.109)|READ - Rectum adenocarcinoma(84;0.161)|STAD - Stomach adenocarcinoma(101;0.18)	Pyridoxal(DB00147)|Pyridoxine(DB00165)	CTGCCATGCTCCTGGCGTGGA	0.617													17	36	---	---	---	---	PASS	T	45173564	T	T	45173564	2	4	4	1	0	0	0	0	0	0	0	1	11697	842	30	2		2	PDXK	21	45173564	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	681389	45173564	2956331	3702	4293										
C21orf29	54084	broad.mit.edu	37	chr21	45950965	45950965	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctcctccggctgccgacgaaGaatcgagctcctttcactga	9	15	1	2	rs150521283	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:45950965G>A	uc002zfe.1	-	4	660	c.594C>T	c.(592-594)TTC>TTT	p.F198F	C21orf29_uc010gpv.1_Silent_p.F130F	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	198	TSP N-terminal.				cell adhesion	extracellular region	structural molecule activity				0						TGCCGACGAAGAATCGAGCTC	0.597													5	17	---	---	---	---	PASS	A	45950965	A	A	45950965	2	1	4	1	0	0	0	0	0	0	0	1	2124	933	33	2		2	C21orf29	21	45950965	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	777401	45950965	2178930	3703	4294										
C21orf29	54084	broad.mit.edu	37	chr21	45953714	45953714	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccggccgtgtcctcgcgaagGaacaggaagtgcagctgggc	16	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:45953714G>A	uc002zfe.1	-	3	462	c.396C>T	c.(394-396)TTC>TTT	p.F132F	C21orf29_uc010gpv.1_Silent_p.F64F	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	132	TSP N-terminal.				cell adhesion	extracellular region	structural molecule activity				0						CCTCGCGAAGGAACAGGAAGT	0.677													4	11	---	---	---	---	PASS	A	45953714	A	A	45953714	2	1	4	1	0	0	0	0	0	0	0	1	2124	1165	41	2		2	C21orf29	21	45953714	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	2749	45953714	2176181	3704	4295										
KRTAP10-12	386685	broad.mit.edu	37	chr21	46117566	46117566	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcctccccgtgtcaacagtcCtgctgtgtgcccgtctgctg	10	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:46117566C>T	uc002zfw.1	+	1	480	c.450C>T	c.(448-450)TCC>TCT	p.S150S	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198699	NP_941972	P60413	KR10C_HUMAN	keratin associated protein 10-12	150	19 X 5 AA repeats of C-C-X(3).					keratin filament					0						GTCAACAGTCCTGCTGTGTGC	0.612													71	122	---	---	---	---	PASS	T	46117566	T	T	46117566	2	4	4	1	0	0	0	0	0	0	0	1	8508	668	24	3		3	KRTAP10-12	21	46117566	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	163852	46117566	2012329	3705	4296										
COL6A2	1292	broad.mit.edu	37	chr21	47546007	47546007	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagtgacggccatcggcatcGgggacatgttccacgagaag	14	11	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:47546007G>A	uc002zia.1	+	26	2360	c.2278G>A	c.(2278-2280)GGG>AGG	p.G760R	COL6A2_uc002zhy.1_Missense_Mutation_p.G760R|COL6A2_uc002zhz.1_Missense_Mutation_p.G760R|COL6A2_uc002zib.1_Missense_Mutation_p.G166R|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	760	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		CATCGGCATCGGGGACATGTT	0.627													57	99	---	---	---	---	PASS	A	47546007	A	A	47546007	3	1	4	1	0	0	0	0	1	0	0	0	3700	1116	39	1	2376	1	COL6A2	21	47546007	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1428441	47546007	583888	3706	4297										
MCM3AP	8888	broad.mit.edu	37	chr21	47663398	47663398	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgatgtaacaggaagccgGgggggcgtccagtctctcag	15	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:47663398G>A	uc002zir.1	-	24	5313	c.5277C>T	c.(5275-5277)CCC>CCT	p.P1759P	MCM3APAS_uc002zim.2_Intron|MCM3APAS_uc002zin.2_Intron|MCM3AP_uc002zio.1_Silent_p.P254P|MCM3AP_uc002zip.1_Silent_p.P500P|MCM3AP_uc002ziq.1_Silent_p.P686P|MCM3APAS_uc002zis.1_Intron	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1759					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					CAGGAAGCCGGGGGGGCGTCC	0.532													31	60	---	---	---	---	PASS	A	47663398	A	A	47663398	2	1	4	1	0	0	0	0	0	0	0	1	9388	1219	43	3		3	MCM3AP	21	47663398	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	117391	47663398	466497	3707	4298										
PCNT	5116	broad.mit.edu	37	chr21	47769664	47769664	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gttacgtgaagacctgcagtCcgagcacggccggtgtttag	14	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr21:47769664C>T	uc002zji.3	+	8	1381	c.1274C>T	c.(1273-1275)TCC>TTC	p.S425F	PCNT_uc002zjj.2_Missense_Mutation_p.S307F|PCNT_uc010gqk.1_RNA	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	425	Glu-rich.|Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					GACCTGCAGTCCGAGCACGGC	0.468													22	56	---	---	---	---	PASS	T	47769664	T	T	47769664	3	4	4	1	0	0	0	0	1	0	0	0	11590	855	30	2	1304	2	PCNT	21	47769664	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	106266	47769664	360231	3708	4299										
CCT8L2	150160	broad.mit.edu	37	chr22	17071927	17071927	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaccacctcagccactgctCgaaatccttgggctttgact	8	15	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:17071927C>T	uc002zlp.1	-	1	1774	c.1514G>A	c.(1513-1515)CGA>CAA	p.R505Q		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	505					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				AGCCACTGCTCGAAATCCTTG	0.507													68	56	---	---	---	---	PASS	T	17071927	T	T	17071927	3	4	4	1	0	0	0	0	1	0	0	0	2961	884	31	2	163	2	CCT8L2	22	17071927	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08		17071927	34232639	3709	4300										
CCT8L2	150160	broad.mit.edu	37	chr22	17073174	17073174	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtttgtcctgcttcccggagGagccatgctgctgggtgctc	14	12	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:17073174G>A	uc002zlp.1	-	1	527	c.267C>T	c.(265-267)CTC>CTT	p.L89L		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	89					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				CTTCCCGGAGGAGCCATGCTG	0.612													11	40	---	---	---	---	PASS	A	17073174	A	A	17073174	2	1	4	1	0	0	0	0	0	0	0	1	2961	1161	41	2		2	CCT8L2	22	17073174	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1247	17073174	34231392	3710	4301										
CCT8L2	150160	broad.mit.edu	37	chr22	17073361	17073361	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaggtggggctcctcctctTctggactcctcgggctctcc	12	16	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:17073361T>C	uc002zlp.1	-	1	340	c.80A>G	c.(79-81)GAA>GGA	p.E27G		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	27					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				CTCCTCCTCTTCTGGACTCCT	0.662													28	13	---	---	---	---	PASS	C	17073361	C	C	17073361	3	2	4	1	0	0	0	0	1	0	0	0	2961	1783	62	5	1597	5	CCT8L2	22	17073361	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	187	17073361	34231205	3711	4302										
XKR3	150165	broad.mit.edu	37	chr22	17288864	17288864	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgagaagataatgctaaaagGaaagcttagatggagtctct	11	4	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:17288864G>A	uc002zlv.2	-	2	198	c.100C>T	c.(100-102)CCT>TCT	p.P34S	XKR3_uc011agf.1_Missense_Mutation_p.P34S	NM_175878	NP_787074	Q5GH77	XKR3_HUMAN	X Kell blood group precursor-related family,	34						integral to membrane|plasma membrane				large_intestine(1)|ovary(1)|skin(1)	3	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				ATGCTAAAAGGAAAGCTTAGA	0.388													32	55	---	---	---	---	PASS	A	17288864	A	A	17288864	3	1	4	1	0	0	0	0	1	0	0	0	17429	1174	41	2	1291	2	XKR3	22	17288864	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	215503	17288864	34015702	3712	4303										
IL17RA	23765	broad.mit.edu	37	chr22	17578719	17578719	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgacagctggattcaccctCgaaacctgaccccctcctcc	6	18	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:17578719C>T	uc002zly.2	+	3	329	c.196C>T	c.(196-198)CGA>TGA	p.R66*	IL17RA_uc010gqt.2_Nonsense_Mutation_p.R66*	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	66	Extracellular (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		GATTCACCCTCGAAACCTGAC	0.577													5	35	---	---	---	---	PASS	T	17578719	T	T	17578719	4	4	4	1	0	0	0	0	0	1	0	0	7639	876	31	2	206	2	IL17RA	22	17578719	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	289855	17578719	33725847	3713	4304										
IL17RA	23765	broad.mit.edu	37	chr22	17584437	17584437	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcacactcactctacgcaaCcttaaagggtgctgtcgcca	8	14	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:17584437C>T	uc002zly.2	+	8	949	c.816C>T	c.(814-816)AAC>AAT	p.N272N	IL17RA_uc010gqt.2_Silent_p.N272N	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	272	Extracellular (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		CTCTACGCAACCTTAAAGGGT	0.557													14	10	---	---	---	---	PASS	T	17584437	T	T	17584437	2	4	4	1	0	0	0	0	0	0	0	1	7639	506	18	3		3	IL17RA	22	17584437	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	5718	17584437	33720129	3714	4305										
CECR5	27440	broad.mit.edu	37	chr22	17619484	17619484	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggggcggcccagccccgcctCtccgcctgtcgcctgatcag	13	19	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:17619484C>A	uc002zmf.2	-	7	919	c.891G>T	c.(889-891)GAG>GAT	p.E297D	CECR5_uc002zmd.2_Missense_Mutation_p.E108D|CECR5_uc002zme.2_Missense_Mutation_p.E89D|CECR5_uc002zmg.2_Intron|CECR5_uc002zmh.2_Missense_Mutation_p.E267D	NM_033070	NP_149061	Q9BXW7	CECR5_HUMAN	cat eye syndrome chromosome region, candidate 5	297				E -> G (in Ref. 2; BAA91475).			hydrolase activity				0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)				AGCCCCGCCTCTCCGCCTGTC	0.602													25	87	---	---	---	---	PASS	A	17619484	A	A	17619484	3	1	4	1	0	0	0	0	1	0	0	0	3207	912	32	2	388	2	CECR5	22	17619484	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	35047	17619484	33685082	3715	4306										
BCL2L13	23786	broad.mit.edu	37	chr22	18178929	18178929	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagtgacatatcaggcatttCgggaatgtacactggagacc	11	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:18178929C>T	uc002zmw.2	+	5	627	c.409C>T	c.(409-411)CGG>TGG	p.R137W	BCL2L13_uc002zmu.2_Missense_Mutation_p.R137W|BCL2L13_uc002zmv.2_Missense_Mutation_p.R137W|BCL2L13_uc002zmx.2_5'UTR|BCL2L13_uc002zmy.2_Intron|BCL2L13_uc010gqy.2_Intron|BCL2L13_uc011agk.1_Intron|BCL2L13_uc010gqz.2_Intron|BCL2L13_uc002zmz.2_Intron	NM_015367	NP_056182	Q9BXK5	B2L13_HUMAN	BCL2-like 13 (apoptosis facilitator)	137					induction of apoptosis	integral to membrane|mitochondrial membrane|nucleus	caspase activator activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4		all_epithelial(15;0.123)		Lung(27;0.199)		TCAGGCATTTCGGGAATGTAC	0.368													28	22	---	---	---	---	PASS	T	18178929	T	T	18178929	3	4	4	1	0	0	0	0	1	0	0	0	1371	875	31	2	423	2	BCL2L13	22	18178929	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	559445	18178929	33125637	3716	4307										
MICAL3	57553	broad.mit.edu	37	chr22	18387540	18387540	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctcaataacaaccaccttGgcccccagtaaggataagtc	6	13	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:18387540G>A	uc002zng.3	-	3	683	c.330C>T	c.(328-330)GCC>GCT	p.A110A	MICAL3_uc011agl.1_Silent_p.A110A|MICAL3_uc002znh.2_Silent_p.A110A|MICAL3_uc002znj.1_5'Flank|MICAL3_uc002znk.1_Silent_p.A110A|MICAL3_uc002znl.1_5'UTR|MICAL3_uc010grf.2_Silent_p.A110A|MICAL3_uc011agm.1_Silent_p.A110A	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	110	FAD (Potential).					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		CAACCACCTTGGCCCCCAGTA	0.537													49	48	---	---	---	---	PASS	A	18387540	A	A	18387540	2	1	4	1	0	0	0	0	0	0	0	1	9571	1335	47	3		3	MICAL3	22	18387540	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	208611	18387540	32917026	3717	4308										
TXNRD2	10587	broad.mit.edu	37	chr22	19903294	19903294	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtcagatgctcacctctttCccacctttggcaacgccgca	7	16	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:19903294C>T	uc011ahc.1	-	6	555	c.522G>A	c.(520-522)GGG>GGA	p.G174G	TXNRD2_uc002zql.1_5'UTR|TXNRD2_uc002zqm.1_RNA|TXNRD2_uc002zqn.1_RNA|TXNRD2_uc002zqo.1_RNA|TXNRD2_uc002zqp.1_RNA|TXNRD2_uc002zqr.1_Silent_p.G173G|TXNRD2_uc010grv.1_Silent_p.G174G|TXNRD2_uc002zqj.1_RNA|TXNRD2_uc002zqs.2_Silent_p.G142G	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor	174					cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					TCACCTCTTTCCCACCTTTGG	0.483													18	18	---	---	---	---	PASS	T	19903294	T	T	19903294	2	4	4	1	0	0	0	0	0	0	0	1	16805	842	30	2		2	TXNRD2	22	19903294	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1515754	19903294	31401272	3718	4309										
ZNF74	7625	broad.mit.edu	37	chr22	20761087	20761087	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcccttggccatccagttCaacaaacacctgctcagcac	6	16	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:20761087C>T	uc010gsm.2	+	6	1976	c.1764C>T	c.(1762-1764)TTC>TTT	p.F588F	ZNF74_uc002zsg.2_Silent_p.F517F|ZNF74_uc002zsh.2_Silent_p.F588F|ZNF74_uc002zsi.2_Silent_p.F517F|ZNF74_uc010gsn.2_Silent_p.F517F	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	588					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			Ccatccagttcaacaaacacc	0.368													22	20	---	---	---	---	PASS	T	20761087	T	T	20761087	2	4	4	1	0	0	0	0	0	0	0	1	18124	825	29	2		2	ZNF74	22	20761087	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	857793	20761087	30543479	3719	4310										
SERPIND1	3053	broad.mit.edu	37	chr22	21133804	21133804	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaaaacaccgtcaccaacgaCtggattccagagggggagga	13	10	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:21133804C>A	uc002ztb.1	+	2	271	c.204C>A	c.(202-204)GAC>GAA	p.D68E	PI4KA_uc002zsz.3_Intron|SERPIND1_uc002ztc.2_Missense_Mutation_p.D96E	NM_000185	NP_000176	P05546	HEP2_HUMAN	heparin cofactor II precursor	68	Chemotactic activity.				blood coagulation|chemotaxis|regulation of proteolysis	extracellular region	heparin binding|serine-type endopeptidase inhibitor activity				0	all_cancers(11;6.16e-25)|all_epithelial(7;1.02e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)		Ardeparin(DB00407)	TCACCAACGACTGGATTCCAG	0.512													7	36	---	---	---	---	PASS	A	21133804	A	A	21133804	3	1	4	1	0	0	0	0	1	0	0	0	14110	564	20	3	206	3	SERPIND1	22	21133804	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	372717	21133804	30170762	3720	4311										
SLC7A4	6545	broad.mit.edu	37	chr22	21385699	21385699	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggtagccactccaggcacGggccacggcggcgccaccga							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:21385699G>A	uc002zud.2	-	2	471	c.403C>T	c.(403-405)CGT>TGT	p.R135C	SLC7A4_uc002zue.2_Missense_Mutation_p.R135C	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	135					cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	CTCCAGGCACGGGCCACGGCG	0.602													5	12	---	---	---	---	PASS	A	21385699	A	A	21385699	3	1	4	1	0	0	0	0	1	0	0	0	14699	1116	39	1	1520	1	SLC7A4	22	21385699	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	251895	21385699	29918867	3721	4312	193	2								
SLC7A4	6545	broad.mit.edu	37	chr22	21385700	21385700	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtagccactccaggcacgGgccacggcggcgccaccgat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:21385700G>A	uc002zud.2	-	2	470	c.402C>T	c.(400-402)GCC>GCT	p.A134A	SLC7A4_uc002zue.2_Silent_p.A134A	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	134					cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	TCCAGGCACGGGCCACGGCGG	0.607													5	13	---	---	---	---	PASS	A	21385700	A	A	21385700	2	1	4	1	0	0	0	0	0	0	0	1	14699	1219	43	3		3	SLC7A4	22	21385700	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	21385700	29918866	3722	4313	193	2								
CCDC116	164592	broad.mit.edu	37	chr22	21991155	21991155	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acagagccctgccgctccctCtacaccaacttgccagccag	7	19	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:21991155C>T	uc002zve.2	+	5	1731	c.1638C>T	c.(1636-1638)CTC>CTT	p.L546L		NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(1)|skin(1)	2	Colorectal(54;0.105)					GCCGCTCCCTCTACACCAACT	0.647													15	24	---	---	---	---	PASS	T	21991155	T	T	21991155	2	4	4	1	0	0	0	0	0	0	0	1	2753	900	32	2		2	CCDC116	22	21991155	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	605455	21991155	29313411	3723	4314										
TOP3B	8940	broad.mit.edu	37	chr22	22316834	22316834	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctccatgagcgtgatgagctCggcctccgtcaggtagtcgg	14	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:22316834C>T	uc002zvs.2	-	13	1927	c.1492G>A	c.(1492-1494)GAG>AAG	p.E498K	TOP3B_uc010gtm.1_Missense_Mutation_p.E43K|TOP3B_uc002zvr.2_Missense_Mutation_p.E223K|TOP3B_uc010gtl.2_Missense_Mutation_p.E498K|TOP3B_uc002zvt.3_Missense_Mutation_p.E498K	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	498					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		GTGATGAGCTCGGCCTCCGTC	0.642													13	40	---	---	---	---	PASS	T	22316834	T	T	22316834	3	4	4	1	0	0	0	0	1	0	0	0	16365	893	31	2	1120	2	TOP3B	22	22316834	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	325679	22316834	28987732	3724	4315										
TOP3B	8940	broad.mit.edu	37	chr22	22322062	22322062	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actcggtcccagtccaaaagGagagatctgtctttgtcagt	10	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:22322062G>A	uc002zvs.2	-	8	1200	c.765C>T	c.(763-765)CTC>CTT	p.L255L	TOP3B_uc010gtm.1_5'UTR|TOP3B_uc002zvr.2_5'UTR|TOP3B_uc010gtl.2_Silent_p.L255L|TOP3B_uc002zvt.3_Silent_p.L255L	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	255					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		AGTCCAAAAGGAGAGATCTGT	0.498													38	42	---	---	---	---	PASS	A	22322062	A	A	22322062	2	1	4	1	0	0	0	0	0	0	0	1	16365	1161	41	2		2	TOP3B	22	22322062	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	5228	22322062	28982504	3725	4316										
ZNF280A	129025	broad.mit.edu	37	chr22	22869822	22869822	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catcccgacaaagagaacttCagcatctctatgtacatgct	6	12	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:22869822C>T	uc002zwe.2	-	2	386	c.133G>A	c.(133-135)GAA>AAA	p.E45K	LOC96610_uc011aim.1_Intron	NM_080740	NP_542778	P59817	Z280A_HUMAN	zinc finger protein 280A	45					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		AAGAGAACTTCAGCATCTCTA	0.413													45	51	---	---	---	---	PASS	T	22869822	T	T	22869822	3	4	4	1	0	0	0	0	1	0	0	0	17811	835	29	2	1499	2	ZNF280A	22	22869822	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	547760	22869822	28434744	3726	4317										
PRAME	23532	broad.mit.edu	37	chr22	22890618	22890618	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aactcacacagcaactccctGagcctggcatgcagataggc	9	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:22890618G>A	uc002zwf.2	-	5	1557	c.1401C>T	c.(1399-1401)CTC>CTT	p.L467L	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Silent_p.L451L|PRAME_uc010gtr.2_Silent_p.L467L|PRAME_uc002zwg.2_Silent_p.L467L|PRAME_uc002zwh.2_Silent_p.L467L|PRAME_uc002zwi.2_Silent_p.L467L|PRAME_uc002zwj.2_Silent_p.L467L|PRAME_uc002zwk.2_Silent_p.L467L	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	467	Mediates interaction with RARA.				apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		GCAACTCCCTGAGCCTGGCAT	0.592													17	43	---	---	---	---	PASS	A	22890618	A	A	22890618	2	1	4	1	0	0	0	0	0	0	0	1	12424	1277	45	2		2	PRAME	22	22890618	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	20796	22890618	28413948	3727	4318										
GNAZ	2781	broad.mit.edu	37	chr22	23438057	23438057	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agatgaagatcatccacagcGgcggcttcaacctggaggcc	12	12	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:23438057G>T	uc002zwu.1	+	2	712	c.175G>T	c.(175-177)GGC>TGC	p.G59C	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	59						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		CATCCACAGCGGCGGCTTCAA	0.602													5	86	---	---	---	---	PASS	T	23438057	T	T	23438057	3	4	4	1	0	0	0	0	1	0	0	0	6514	1116	39	1	177	1	GNAZ	22	23438057	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	547439	23438057	27866509	3728	4319										
BCR	613	broad.mit.edu	37	chr22	23656897	23656897	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggtccttggaggtcatgtCccaggtatgggaagacaggc	15	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:23656897C>T	uc002zww.2	+	22	4318	c.3722C>T	c.(3721-3723)TCC>TTC	p.S1241F	BCR_uc002zwx.2_Missense_Mutation_p.S1197F|BCR_uc011aiy.1_Missense_Mutation_p.S830F	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	1241	Rho-GAP.				regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						GAGGTCATGTCCCAGGTATGG	0.627			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								10	12	---	---	---	---	PASS	T	23656897	T	T	23656897	3	4	4	1	0	0	0	0	1	0	0	0	1388	855	30	2	3808	2	BCR	22	23656897	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	218840	23656897	27647669	3729	4320										
RGL4	266747	broad.mit.edu	37	chr22	24034555	24034555	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attttgttcaactggcccccCgaaaacacttcagtttacta	5	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:24034555C>A	uc002zxn.2	+	2	1383	c.213C>A	c.(211-213)CCC>CCA	p.P71P	LOC91316_uc002zxh.3_RNA|LOC91316_uc002zxi.3_RNA|LOC91316_uc002zxk.3_Intron|LOC91316_uc010gua.2_Intron|LOC91316_uc002zxl.3_Intron|LOC91316_uc011aiz.1_Intron|LOC91316_uc002zxm.3_Intron|RGL4_uc002zxo.2_Silent_p.P71P|RGL4_uc002zxp.1_5'UTR|RGL4_uc002zxq.2_5'UTR	NM_153615	NP_705843	Q8IZJ4	RGDSR_HUMAN	ral guanine nucleotide dissociation	71					small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle	guanyl-nucleotide exchange factor activity			ovary(1)	1						ACTGGCCCCCCGAAAACACTT	0.577													5	155	---	---	---	---	PASS	A	24034555	A	A	24034555	2	1	4	1	0	0	0	0	0	0	0	1	13279	639	23	1		1	RGL4	22	24034555	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	377658	24034555	27270011	3730	4321										
SUSD2	56241	broad.mit.edu	37	chr22	24580109	24580109	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctcccctgcccagtgcacCccaacaaagtgtcaatgatg	7	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:24580109C>T	uc002zzn.1	+	4	489	c.445C>T	c.(445-447)CCC>TCC	p.P149S		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	149	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CCCAGTGCACCCCAACAAAGT	0.632													39	41	---	---	---	---	PASS	T	24580109	T	T	24580109	3	4	4	1	0	0	0	0	1	0	0	0	15405	623	22	3	459	3	SUSD2	22	24580109	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	545554	24580109	26724457	3731	4322										
ADORA2A	135	broad.mit.edu	37	chr22	24829655	24829655	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgcagagctccatcttcagtCtcctggccatcgccattgac	8	16	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:24829655C>T	uc002zzx.2	+	4	1046	c.283C>T	c.(283-285)CTC>TTC	p.L95F	ADORA2A_uc002zzy.3_Missense_Mutation_p.L95F|ADORA2A_uc011ajs.1_Intron|C22orf45_uc003aaa.1_5'Flank|ADORA2A_uc010guo.1_Missense_Mutation_p.S114F|ADORA2A_uc010gup.2_Missense_Mutation_p.L95F|ADORA2A_uc010guq.2_Missense_Mutation_p.L95F|ADORA2A_uc003aab.2_Missense_Mutation_p.L95F|ADORA2A_uc003aac.2_5'UTR	NM_000675	NP_000666	P29274	AA2AR_HUMAN	adenosine A2a receptor	95	Helical; Name=3.				apoptosis|blood coagulation|cAMP biosynthetic process|cellular defense response|inflammatory response|nerve growth factor receptor signaling pathway|phagocytosis|sensory perception	integral to plasma membrane|membrane fraction	enzyme binding				0	Colorectal(2;0.196)				Caffeine(DB00201)|Defibrotide(DB04932)|Pegademase bovine(DB00061)|Theophylline(DB00277)	CATCTTCAGTCTCCTGGCCAT	0.612													15	15	---	---	---	---	PASS	T	24829655	T	T	24829655	3	4	4	1	0	0	0	0	1	0	0	0	327	913	32	2	285	2	ADORA2A	22	24829655	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	249546	24829655	26474911	3732	4323										
ADORA2A	135	broad.mit.edu	37	chr22	24837072	24837072	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caccaattcggttgtgaatcCcttcatctacgcctaccgta	6	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:24837072C>T	uc002zzx.2	+	5	1617	c.854C>T	c.(853-855)CCC>CTC	p.P285L	ADORA2A_uc002zzy.3_Missense_Mutation_p.P285L|ADORA2A_uc011ajs.1_Missense_Mutation_p.P146L|ADORA2A_uc010gup.2_Missense_Mutation_p.P285L|ADORA2A_uc010guq.2_Missense_Mutation_p.P285L|ADORA2A_uc003aab.2_Missense_Mutation_p.P285L|ADORA2A_uc003aac.2_Missense_Mutation_p.P146L|C22orf45_uc003aad.1_Intron	NM_000675	NP_000666	P29274	AA2AR_HUMAN	adenosine A2a receptor	285	Helical; Name=7.				apoptosis|blood coagulation|cAMP biosynthetic process|cellular defense response|inflammatory response|nerve growth factor receptor signaling pathway|phagocytosis|sensory perception	integral to plasma membrane|membrane fraction	enzyme binding				0	Colorectal(2;0.196)				Caffeine(DB00201)|Defibrotide(DB04932)|Pegademase bovine(DB00061)|Theophylline(DB00277)	GTTGTGAATCCCTTCATCTAC	0.572													9	31	---	---	---	---	PASS	T	24837072	T	T	24837072	3	4	4	1	0	0	0	0	1	0	0	0	327	623	22	3	860	3	ADORA2A	22	24837072	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	7417	24837072	26467494	3733	4324										
SGSM1	129049	broad.mit.edu	37	chr22	25264494	25264494	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttggacccgccactgtggtcCcagaggggtaaggtgagtga	16	9	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:25264494C>T	uc003abg.2	+	11	1303	c.1146C>T	c.(1144-1146)TCC>TCT	p.S382S	SGSM1_uc003abh.2_Silent_p.S382S|SGSM1_uc010guu.1_Silent_p.S382S|SGSM1_uc003abj.2_Silent_p.S382S|SGSM1_uc003abi.1_Silent_p.S357S	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	382						Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						CACTGTGGTCCCAGAGGGGTA	0.627													7	31	---	---	---	---	PASS	T	25264494	T	T	25264494	2	4	4	1	0	0	0	0	0	0	0	1	14222	610	22	3		3	SGSM1	22	25264494	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	427422	25264494	26040072	3734	4325										
MYO18B	84700	broad.mit.edu	37	chr22	26164576	26164576	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggccaaggaactgtggcactGaaaaaaggcgaggagggtca	16	7	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:26164576G>A	uc003abz.1	+	4	943	c.693G>A	c.(691-693)CTG>CTA	p.L231L	MYO18B_uc003aca.1_Silent_p.L112L|MYO18B_uc010guy.1_Silent_p.L112L|MYO18B_uc010guz.1_Silent_p.L112L|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_5'Flank	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	231						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CTGTGGCACTGAAAAAAGGCG	0.617													4	13	---	---	---	---	PASS	A	26164576	A	A	26164576	2	1	4	1	0	0	0	0	0	0	0	1	10066	1277	45	2		2	MYO18B	22	26164576	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	900082	26164576	25139990	3735	4326										
MYO18B	84700	broad.mit.edu	37	chr22	26166090	26166090	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctcaggctcctgaggacaGatggtatgaggcagagaaag	14	7	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:26166090G>A	uc003abz.1	+	5	1776	c.1526G>A	c.(1525-1527)AGA>AAA	p.R509K	MYO18B_uc003aca.1_Missense_Mutation_p.R390K|MYO18B_uc010guy.1_Missense_Mutation_p.R390K|MYO18B_uc010guz.1_Missense_Mutation_p.R390K|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_Missense_Mutation_p.R22K	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	509						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CCTGAGGACAGATGGTATGAG	0.502													32	41	---	---	---	---	PASS	A	26166090	A	A	26166090	3	1	4	1	0	0	0	0	1	0	0	0	10066	942	33	2	1540	2	MYO18B	22	26166090	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1514	26166090	25138476	3736	4327										
MYO18B	84700	broad.mit.edu	37	chr22	26422503	26422503	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtccacagcaagacctcagGagacaagcctgtttctcccc	8	15	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:26422503G>A	uc003abz.1	+	43	6813	c.6563G>A	c.(6562-6564)GGA>GAA	p.G2188E	MYO18B_uc003aca.1_Missense_Mutation_p.G2069E|MYO18B_uc010guy.1_Missense_Mutation_p.G2070E|MYO18B_uc010guz.1_Missense_Mutation_p.G2068E|MYO18B_uc011aka.1_Missense_Mutation_p.G1342E|MYO18B_uc011akb.1_Missense_Mutation_p.G1701E|MYO18B_uc010gva.1_Missense_Mutation_p.G171E|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2188						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						AAGACCTCAGGAGACAAGCCT	0.557													29	33	---	---	---	---	PASS	A	26422503	A	A	26422503	3	1	4	1	0	0	0	0	1	0	0	0	10066	1174	41	2	6729	2	MYO18B	22	26422503	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	256413	26422503	24882063	3737	4328										
SEZ6L	23544	broad.mit.edu	37	chr22	26761418	26761418	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acaagcgactctacctgccaGgagagtccctcaccttcatg	8	15	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:26761418G>A	uc003acb.2	+	13	2836	c.2680G>A	c.(2680-2682)GGA>AGA	p.G894R	SEZ6L_uc003acc.2_Missense_Mutation_p.G894R|SEZ6L_uc011akc.1_Missense_Mutation_p.G894R|SEZ6L_uc003acd.2_Missense_Mutation_p.G830R|SEZ6L_uc011akd.1_Missense_Mutation_p.G894R|SEZ6L_uc003ace.2_Intron|SEZ6L_uc003acf.1_Missense_Mutation_p.G667R|SEZ6L_uc010gvc.1_Intron|SEZ6L_uc011ake.1_RNA	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	894	Sushi 5.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CTACCTGCCAGGAGAGTCCCT	0.567													9	52	---	---	---	---	PASS	A	26761418	A	A	26761418	3	1	4	1	0	0	0	0	1	0	0	0	14143	1001	35	3	2730	3	SEZ6L	22	26761418	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	338915	26761418	24543148	3738	4329										
CHEK2	11200	broad.mit.edu	37	chr22	29092948	29092948	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	attctctggctttaagtcacGgtgtataataccgttttcat	7	8	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:29092948G>C	uc003adu.1	-	10	1108	c.1036C>G	c.(1036-1038)CGT>GGT	p.R346G	CHEK2_uc003ads.1_Missense_Mutation_p.R125G|CHEK2_uc010gvh.1_Missense_Mutation_p.R255G|CHEK2_uc010gvi.1_Intron|CHEK2_uc010gvj.1_Intron|CHEK2_uc003adr.1_RNA|CHEK2_uc010gvk.1_RNA|CHEK2_uc003adt.1_Missense_Mutation_p.R389G|CHEK2_uc003adv.1_Intron|CHEK2_uc003adw.1_Missense_Mutation_p.R346G|CHEK2_uc003adx.1_Missense_Mutation_p.R125G|CHEK2_uc003ady.1_Missense_Mutation_p.R346G|CHEK2_uc003adz.1_Missense_Mutation_p.R150G	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a	346	Protein kinase.				cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity	p.R346H(1)		central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						TTTAAGTCACGGTGTATAATA	0.383			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				5	27	---	---	---	---	PASS	C	29092948	C	C	29092948	3	2	4	1	0	0	0	0	1	0	0	0	3335	1116	39	4	619	4	CHEK2	22	29092948	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	2331530	29092948	22211618	3739	4330										
ZNRF3	84133	broad.mit.edu	37	chr22	29445418	29445418	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cgcagacccccgcctacatcCgcagctacccacccctccac	5	24	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:29445418C>T	uc003aeg.2	+	8	1114	c.949C>T	c.(949-951)CGC>TGC	p.R317C	ZNRF3_uc003aeh.1_Missense_Mutation_p.R317C	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	417	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						CGCCTACATCCGCAGCTACCC	0.692													6	3	---	---	---	---	PASS	T	29445418	T	T	29445418	3	4	4	1	0	0	0	0	1	0	0	0	18210	652	23	1	975	1	ZNRF3	22	29445418	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	352470	29445418	21859148	3740	4331										
NEFH	4744	broad.mit.edu	37	chr22	29885616	29885616	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaggaagaggccaagtccCctgagaaggccaagtcccca	12	12	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:29885616C>T	uc003afo.2	+	4	2058	c.1987C>T	c.(1987-1989)CCT>TCT	p.P663S	NEFH_uc003afp.2_5'UTR	NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	669	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.|15.				cell death|nervous system development	neurofilament					0						GGCCAAGTCCCCTGAGAAGGC	0.572													93	88	---	---	---	---	PASS	T	29885616	T	T	29885616	3	4	4	1	0	0	0	0	1	0	0	0	10314	623	22	3	2001	3	NEFH	22	29885616	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	440198	29885616	21418950	3741	4332										
MTMR3	8897	broad.mit.edu	37	chr22	30415629	30415629	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggccctggagaggatcccCtttctgccgacagcctaggg	13	14	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:30415629C>T	uc003agv.3	+	17	2309	c.1981C>T	c.(1981-1983)CTT>TTT	p.L661F	MTMR3_uc003agu.3_Missense_Mutation_p.L661F|MTMR3_uc003agw.3_Missense_Mutation_p.L661F	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	661					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			AGAGGATCCCCTTTCTGCCGA	0.657													19	38	---	---	---	---	PASS	T	30415629	T	T	30415629	3	4	4	1	0	0	0	0	1	0	0	0	9945	681	24	3	2039	3	MTMR3	22	30415629	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	530013	30415629	20888937	3742	4333										
TBC1D10A	83874	broad.mit.edu	37	chr22	30688370	30688370	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttagctgccagggttacaaGtaggtgtcctcactctcttg	10	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:30688370G>A	uc011akt.1	-	11	1545	c.1521C>T	c.(1519-1521)TAC>TAT	p.Y507Y	GATSL3_uc003ahc.2_5'Flank|GATSL3_uc003ahe.2_5'Flank|GATSL3_uc003ahd.2_5'Flank|GATSL3_uc003ahf.2_Intron|GATSL3_uc003ahg.2_Intron|GATSL3_uc003ahh.2_Intron|GATSL3_uc010gvq.2_Intron|GATSL3_uc003ahi.2_Intron|GATSL3_uc010gvr.2_5'Flank|GATSL3_uc010gvs.2_5'Flank|TBC1D10A_uc003ahj.3_Silent_p.Y419Y|TBC1D10A_uc010gvu.2_Silent_p.Y514Y|TBC1D10A_uc003ahk.3_Silent_p.Y507Y	NM_031937	NP_114143	Q9BXI6	TB10A_HUMAN	TBC1 domain family, member 10A	507	Binding to the PDZ domain of EBP50.					intracellular|microvillus	guanyl-nucleotide exchange factor activity|PDZ domain binding|Rab GTPase activator activity			ovary(1)	1						AGGGTTACAAGTAGGTGTCCT	0.597													55	76	---	---	---	---	PASS	A	30688370	A	A	30688370	2	1	4	1	0	0	0	0	0	0	0	1	15595	1024	36	3		3	TBC1D10A	22	30688370	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	272741	30688370	20616196	3743	4334										
TBC1D10A	83874	broad.mit.edu	37	chr22	30688692	30688692	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggttgtagggcaggccggGgaccaggttctgcatccaag	16	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:30688692G>A	uc011akt.1	-	11	1223	c.1199C>T	c.(1198-1200)CCC>CTC	p.P400L	GATSL3_uc003ahf.2_Intron|GATSL3_uc003ahg.2_Intron|GATSL3_uc003ahh.2_Intron|GATSL3_uc010gvq.2_Intron|GATSL3_uc003ahi.2_Intron|TBC1D10A_uc003ahj.3_Missense_Mutation_p.P312L|TBC1D10A_uc010gvu.2_Missense_Mutation_p.P407L|TBC1D10A_uc003ahk.3_Missense_Mutation_p.P400L	NM_031937	NP_114143	Q9BXI6	TB10A_HUMAN	TBC1 domain family, member 10A	400						intracellular|microvillus	guanyl-nucleotide exchange factor activity|PDZ domain binding|Rab GTPase activator activity			ovary(1)	1						GGCAGGCCGGGGACCAGGTTC	0.662													17	23	---	---	---	---	PASS	A	30688692	A	A	30688692	3	1	4	1	0	0	0	0	1	0	0	0	15595	1232	43	3	331	3	TBC1D10A	22	30688692	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	322	30688692	20615874	3744	4335										
CCDC157	550631	broad.mit.edu	37	chr22	30762204	30762204	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccccgagttcacgcagctgtCccatgccgtgctgctggagc	12	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:30762204C>T	uc011aku.1	+	3	875	c.215C>T	c.(214-216)TCC>TTC	p.S72F	CCDC157_uc011akv.1_Missense_Mutation_p.S72F	NM_001017437	NP_001017437	Q569K6	CC157_HUMAN	coiled-coil domain containing 157	72										central_nervous_system(1)	1						ACGCAGCTGTCCCATGCCGTG	0.617													22	70	---	---	---	---	PASS	T	30762204	T	T	30762204	3	4	4	1	0	0	0	0	1	0	0	0	2789	855	30	2	217	2	CCDC157	22	30762204	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	73512	30762204	20542362	3745	4336										
SEC14L2	23541	broad.mit.edu	37	chr22	30795663	30795663	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtccaggatgtgctgccggCcctgccgaatccagatgact							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:30795663C>T	uc003ahr.2	+	2	259	c.86C>T	c.(85-87)GCC>GTC	p.A29V	SEC14L2_uc003ahq.2_Missense_Mutation_p.A29V|SEC14L2_uc011akx.1_Intron|SEC14L2_uc003ahs.2_Intron|SEC14L2_uc011aky.1_Missense_Mutation_p.A29V	NM_012429	NP_036561	O76054	S14L2_HUMAN	SEC14-like 2 isoform 1	29					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	phospholipid binding|transporter activity|vitamin E binding				0					Vitamin E(DB00163)	GTGCTGCCGGCCCTGCCGAAT	0.627													10	12	---	---	---	---	PASS	T	30795663	T	T	30795663	3	4	4	1	0	0	0	0	1	0	0	0	13982	739	26	3	92	3	SEC14L2	22	30795663	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	33459	30795663	20508903	3746	4337	194	3								
SEC14L2	23541	broad.mit.edu	37	chr22	30795664	30795664	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtccaggatgtgctgccggcCctgccgaatccagatgacta							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:30795664C>T	uc003ahr.2	+	2	260	c.87C>T	c.(85-87)GCC>GCT	p.A29A	SEC14L2_uc003ahq.2_Silent_p.A29A|SEC14L2_uc011akx.1_Intron|SEC14L2_uc003ahs.2_Intron|SEC14L2_uc011aky.1_Silent_p.A29A	NM_012429	NP_036561	O76054	S14L2_HUMAN	SEC14-like 2 isoform 1	29					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	phospholipid binding|transporter activity|vitamin E binding				0					Vitamin E(DB00163)	TGCTGCCGGCCCTGCCGAATC	0.622													10	12	---	---	---	---	PASS	T	30795664	T	T	30795664	2	4	4	1	0	0	0	0	0	0	0	1	13982	610	22	3		3	SEC14L2	22	30795664	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	30795664	20508902	3747	4338	194	3								
SEC14L2	23541	broad.mit.edu	37	chr22	30795665	30795665	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tccaggatgtgctgccggccCtgccgaatccagatgactat							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:30795665C>T	uc003ahr.2	+	2	261	c.88C>T	c.(88-90)CTG>TTG	p.L30L	SEC14L2_uc003ahq.2_Silent_p.L30L|SEC14L2_uc011akx.1_Intron|SEC14L2_uc003ahs.2_Intron|SEC14L2_uc011aky.1_Silent_p.L30L	NM_012429	NP_036561	O76054	S14L2_HUMAN	SEC14-like 2 isoform 1	30					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	phospholipid binding|transporter activity|vitamin E binding				0					Vitamin E(DB00163)	GCTGCCGGCCCTGCCGAATCC	0.617													11	12	---	---	---	---	PASS	T	30795665	T	T	30795665	2	4	4	1	0	0	0	0	0	0	0	1	13982	680	24	3		3	SEC14L2	22	30795665	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	30795665	20508901	3748	4339	194	3								
SLC35E4	339665	broad.mit.edu	37	chr22	31043001	31043001	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggctgtggcggagggaccagCccagcaagggtctttgagac	17	10	1	1	rs148051825		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:31043001C>T	uc003ais.1	+	2	1681	c.1036C>T	c.(1036-1038)CCC>TCC	p.P346S	SLC35E4_uc003ait.2_Intron	NM_001001479	NP_001001479	Q6ICL7	S35E4_HUMAN	solute carrier family 35, member E4	346						integral to membrane					0						GAGGGACCAGCCCAGCAAGGG	0.617													3	17	---	---	---	---	PASS	T	31043001	T	T	31043001	3	4	4	1	0	0	0	0	1	0	0	0	14587	739	26	3	1042	3	SLC35E4	22	31043001	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	247336	31043001	20261565	3749	4340										
MORC2	22880	broad.mit.edu	37	chr22	31324124	31324124	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctcggaggccttggcccggGagtcagcacggctctggtag	16	13	2	0	rs142559213	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:31324124G>A	uc003aje.1	-	26	4090	c.2726C>T	c.(2725-2727)TCC>TTC	p.S909F		NM_014941	NP_055756	Q9Y6X9	MORC2_HUMAN	MORC family CW-type zinc finger 2	971	Potential.						ATP binding|zinc ion binding			ovary(1)|pancreas(1)	2						CTTGGCCCGGGAGTCAGCACG	0.577													4	22	---	---	---	---	PASS	A	31324124	A	A	31324124	3	1	4	1	0	0	0	0	1	0	0	0	9702	1174	41	2	194	2	MORC2	22	31324124	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	281123	31324124	19980442	3750	4341										
PATZ1	23598	broad.mit.edu	37	chr22	31722996	31722996	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gagagacatgttctgctgagGagagaaaggtgagccaaggg	17	5	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:31722996G>A	uc003akq.2	-	5	2606	c.1945C>T	c.(1945-1947)CCT>TCT	p.P649S	PATZ1_uc003akp.2_3'UTR|PATZ1_uc003akr.2_Missense_Mutation_p.P603S	NM_014323	NP_055138	Q9HBE1	PATZ1_HUMAN	POZ (BTB) and AT hook containing zinc finger 1	649					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/PATZ1(2)	soft_tissue(2)	2						TTCTGCTGAGGAGAGAAAGGT	0.552													12	49	---	---	---	---	PASS	A	31722996	A	A	31722996	3	1	4	1	0	0	0	0	1	0	0	0	11476	1174	41	2	122	2	PATZ1	22	31722996	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	398872	31722996	19581570	3751	4342										
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31864273	31864273	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaggcatgccacttctcaggGtcccagacaccatcactaca	8	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:31864273G>A	uc003akz.1	-	4	350	c.186C>T	c.(184-186)GAC>GAT	p.D62D	EIF4ENIF1_uc003ala.1_Silent_p.D62D|EIF4ENIF1_uc003alb.1_Silent_p.D62D|EIF4ENIF1_uc003alc.1_Silent_p.D62D	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	62						nucleus	protein binding|protein transporter activity			ovary(1)	1						ACTTCTCAGGGTCCCAGACAC	0.498													20	31	---	---	---	---	PASS	A	31864273	A	A	31864273	2	1	4	1	0	0	0	0	0	0	0	1	5035	1252	44	3		3	EIF4ENIF1	22	31864273	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	141277	31864273	19440293	3752	4343										
RFPL2	10739	broad.mit.edu	37	chr22	32586779	32586779	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttatttggcctccccaggacGgactggagcatcagtagtgc	12	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:32586779G>A	uc003amg.3	-	5	2053	c.1117C>T	c.(1117-1119)CGT>TGT	p.R373C	RFPL2_uc003ame.3_Missense_Mutation_p.R312C|RFPL2_uc003amf.3_Missense_Mutation_p.R283C|RFPL2_uc003amh.3_Missense_Mutation_p.R283C	NM_001098527	NP_001091997	O75678	RFPL2_HUMAN	ret finger protein-like 2 isoform 2	373							zinc ion binding			skin(1)	1						TCCCCAGGACGGACTGGAGCA	0.458													41	65	---	---	---	---	PASS	A	32586779	A	A	32586779	3	1	4	1	0	0	0	0	1	0	0	0	13254	1116	39	1	23	1	RFPL2	22	32586779	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	722506	32586779	18717787	3753	4344										
FBXO7	25793	broad.mit.edu	37	chr22	32894464	32894464	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcggccccaatgacagatttCcctttagacccagcaggggt	11	13	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:32894464C>T	uc003amq.2	+	9	1799	c.1516C>T	c.(1516-1518)CCC>TCC	p.P506S	FBXO7_uc003amr.2_Missense_Mutation_p.P392S|FBXO7_uc003ams.2_Missense_Mutation_p.P350S|FBXO7_uc003amt.2_Missense_Mutation_p.P427S|FBXO7_uc003amu.2_Missense_Mutation_p.P392S|FBXO7_uc003amv.2_Missense_Mutation_p.P205S	NM_012179	NP_036311	Q9Y3I1	FBX7_HUMAN	F-box only protein 7 isoform 1	506					cell death|regulation of protein stability|ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)	1						TGACAGATTTCCCTTTAGACC	0.512													14	36	---	---	---	---	PASS	T	32894464	T	T	32894464	3	4	4	1	0	0	0	0	1	0	0	0	5760	855	30	2	1591	2	FBXO7	22	32894464	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	307685	32894464	18410102	3754	4345										
LARGE	9215	broad.mit.edu	37	chr22	33700276	33700276	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtcagacaggaacatgtaggGagtgctgatgtgcttcatgg	15	6	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:33700276G>A	uc003and.3	-	13	2248	c.1669C>T	c.(1669-1671)CCC>TCC	p.P557S	LARGE_uc011amd.1_Missense_Mutation_p.P356S|LARGE_uc003ane.3_Missense_Mutation_p.P557S|LARGE_uc010gwp.2_Missense_Mutation_p.P505S|LARGE_uc011ame.1_Missense_Mutation_p.P489S|LARGE_uc011amf.1_Missense_Mutation_p.P557S	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	557	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				AACATGTAGGGAGTGCTGATG	0.572													13	62	---	---	---	---	PASS	A	33700276	A	A	33700276	3	1	4	1	0	0	0	0	1	0	0	0	8627	1174	41	2	617	2	LARGE	22	33700276	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	805812	33700276	17604290	3755	4346										
ISX	91464	broad.mit.edu	37	chr22	35478585	35478585	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgagctggagaagatcttcCactttacccactacccagac	7	13	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:35478585C>T	uc003anj.2	+	2	1255	c.304C>T	c.(304-306)CAC>TAC	p.H102Y	ISX_uc011amg.1_Missense_Mutation_p.H90Y	NM_001008494	NP_001008494	Q2M1V0	ISX_HUMAN	intestine-specific homeobox	102	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)	5						GAAGATCTTCCACTTTACCCA	0.577													25	35	---	---	---	---	PASS	T	35478585	T	T	35478585	3	4	4	1	0	0	0	0	1	0	0	0	7865	594	21	3	310	3	ISX	22	35478585	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1778309	35478585	15825981	3756	4347										
HMOX1	3162	broad.mit.edu	37	chr22	35783130	35783130	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccgcagtcaggcagagggtGatagaagaggccaagactgc	15	10	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:35783130G>A	uc003ant.1	+	3	677	c.597G>A	c.(595-597)GTG>GTA	p.V199V		NM_002133	NP_002124	P09601	HMOX1_HUMAN	heme oxygenase (decyclizing) 1	199					angiogenesis|anti-apoptosis|cell death|cellular iron ion homeostasis|endothelial cell proliferation|erythrocyte homeostasis|heme catabolic process|heme oxidation|intracellular protein kinase cascade|low-density lipoprotein particle clearance|negative regulation of leukocyte migration|negative regulation of smooth muscle cell proliferation|positive regulation of chemokine biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of smooth muscle cell proliferation|protein homooligomerization|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hydrogen peroxide|response to nicotine|smooth muscle hyperplasia|transmembrane transport|wound healing involved in inflammatory response	endoplasmic reticulum membrane|extracellular space|microsome	enzyme binding|heme binding|heme oxygenase (decyclizing) activity|protein homodimerization activity|signal transducer activity			ovary(1)	1					NADH(DB00157)	GGCAGAGGGTGATAGAAGAGG	0.607													18	72	---	---	---	---	PASS	A	35783130	A	A	35783130	2	1	4	1	0	0	0	0	0	0	0	1	7243	1277	45	2		2	HMOX1	22	35783130	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	304545	35783130	15521436	3757	4348										
RASD2	23551	broad.mit.edu	37	chr22	35948035	35948035	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatcaaggccaaggtccttCgggaaggccaggcccgtgag	14	12	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:35948035C>T	uc003anx.2	+	3	962	c.757C>T	c.(757-759)CGG>TGG	p.R253W	RASD2_uc003any.2_Missense_Mutation_p.R253W	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	253					locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3						CAAGGTCCTTCGGGAAGGCCA	0.657													18	14	---	---	---	---	PASS	T	35948035	T	T	35948035	3	4	4	1	0	0	0	0	1	0	0	0	13067	875	31	2	763	2	RASD2	22	35948035	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	164905	35948035	15356531	3758	4349										
APOL5	80831	broad.mit.edu	37	chr22	36124924	36124924	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaagaaaggggagacaggcCccgggaagacaccgacaatg	15	10	0	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:36124924C>T	uc003aof.2	+	4	1281	c.1281C>T	c.(1279-1281)GCC>GCT	p.A427A		NM_030642	NP_085145	Q9BWW9	APOL5_HUMAN	apolipoprotein L5	427					lipid metabolic process|lipid transport|lipoprotein metabolic process	cytoplasm|extracellular region	high-density lipoprotein particle binding|lipid binding|protein binding				0						GGAGACAGGCCCCGGGAAGAC	0.612													15	16	---	---	---	---	PASS	T	36124924	T	T	36124924	2	4	4	1	0	0	0	0	0	0	0	1	809	610	22	3		3	APOL5	22	36124924	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	176889	36124924	15179642	3759	4350										
CSF2RB	1439	broad.mit.edu	37	chr22	37322029	37322029	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccgtgtcctctcccaacagGgacctcctggagccagtgtc	11	16	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:37322029G>A	uc003aqa.3	+	4	418	c.201G>A	c.(199-201)GAG>GAA	p.E67E	CSF2RB_uc003aqc.3_Silent_p.E67E	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	67	Extracellular (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	CTCCCAACAGGGACCTCCTGG	0.443													6	22	---	---	---	---	PASS	A	37322029	A	A	37322029	2	1	4	1	0	0	0	0	0	0	0	1	3935	1246	43	3		3	CSF2RB	22	37322029	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1197105	37322029	13982537	3760	4351										
CSF2RB	1439	broad.mit.edu	37	chr22	37328925	37328925	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acatttgagatccagtacagGaaagacacggccacgtggaa	11	9	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:37328925G>A	uc003aqa.3	+	9	1348	c.1131G>A	c.(1129-1131)AGG>AGA	p.R377R	CSF2RB_uc003aqc.3_Silent_p.R383R	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	377	Extracellular (Potential).|Fibronectin type-III 2.				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	TCCAGTACAGGAAAGACACGG	0.557													18	20	---	---	---	---	PASS	A	37328925	A	A	37328925	2	1	4	1	0	0	0	0	0	0	0	1	3935	1165	41	2		2	CSF2RB	22	37328925	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	6896	37328925	13975641	3761	4352										
CYTH4	27128	broad.mit.edu	37	chr22	37692055	37692055	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacagccggatggcccagaaGgagaaggagctgtgtattgg	16	8	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:37692055G>A	uc003arf.2	+	4	299	c.183G>A	c.(181-183)AAG>AAA	p.K61K	CYTH4_uc003ard.3_Silent_p.K61K|CYTH4_uc003are.2_Silent_p.K61K|CYTH4_uc011amw.1_Silent_p.K4K|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	61	Potential.|SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						TGGCCCAGAAGGAGAAGGAGC	0.632													4	11	---	---	---	---	PASS	A	37692055	A	A	37692055	2	1	4	1	0	0	0	0	0	0	0	1	4206	991	35	3		3	CYTH4	22	37692055	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	363130	37692055	13612511	3762	4353										
PDXP	57026	broad.mit.edu	37	chr22	38055295	38055295	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgcgcgcacctgcgcgaccCcgagtgcctactcgtggcca	13	17	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:38055295C>T	uc003atm.1	+	1	559	c.506C>T	c.(505-507)CCC>CTC	p.P169L	SH3BP1_uc003atj.1_Intron|uc003atl.1_5'Flank	NM_020315	NP_064711	Q96GD0	PLPP_HUMAN	pyridoxal phosphatase	169					actin rod assembly|cellular response to ATP|positive regulation of actin filament depolymerization|protein dephosphorylation|regulation of cytokinesis|regulation of mitosis	cytosol	heat shock protein binding|metal ion binding|phosphoprotein phosphatase activity|pyridoxal phosphatase activity			ovary(2)	2	Melanoma(58;0.0574)				Pyridoxal(DB00147)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)	CTGCGCGACCCCGAGTGCCTA	0.577													6	3	---	---	---	---	PASS	T	38055295	T	T	38055295	3	4	4	1	0	0	0	0	1	0	0	0	11698	623	22	3	508	3	PDXP	22	38055295	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	363240	38055295	13249271	3763	4354										
TRIOBP	11078	broad.mit.edu	37	chr22	38120911	38120911	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caatcccaggacctcctctcCcaatagagccacacgagaca	6	17	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:38120911C>A	uc003atr.2	+	7	2619	c.2348C>A	c.(2347-2349)CCC>CAC	p.P783H	TRIOBP_uc003atu.2_Missense_Mutation_p.P611H|TRIOBP_uc003atq.1_Missense_Mutation_p.P783H|TRIOBP_uc003ats.1_Missense_Mutation_p.P611H	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	783					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					ACCTCCTCTCCCAATAGAGCC	0.567													5	106	---	---	---	---	PASS	A	38120911	A	A	38120911	3	1	4	1	0	0	0	0	1	0	0	0	16550	623	22	3	2366	3	TRIOBP	22	38120911	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	65616	38120911	13183655	3764	4355										
TRIOBP	11078	broad.mit.edu	37	chr22	38121560	38121564	+	Frame_Shift_Del	DEL	CTATG	-	-													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcacctgtgtaccccgctgcCtatggggctcccctgacctc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:38121560_38121564delCTATG	uc003atr.2	+	7	3268_3272	c.2997_3001delCTATG	c.(2995-3003)GCCTATGGGfs	p.A999fs	TRIOBP_uc003atu.2_Frame_Shift_Del_p.A827fs|TRIOBP_uc003atq.1_Frame_Shift_Del_p.A999fs|TRIOBP_uc003ats.1_Frame_Shift_Del_p.A827fs	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	999_1001					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					ACCCCGCTGCCTATGGGGCTCCCCT	0.644													76	44	---	---	---	---		-	38121564	-	-	38121560	7	5	4	1	0	1	0	1	0	0	0	0	16550	668	24	0	3015	0	TRIOBP	22	38121560	Frame_Shift_Del	DEL	CTATG	TCGA-18-3409-01A-01D-0983-08	649	38121560	13183006	3765	4356										
TRIOBP	11078	broad.mit.edu	37	chr22	38122137	38122137	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccctcttcttccaggatcccCctggaactagtatggagagc	9	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:38122137C>T	uc003atr.2	+	7	3845	c.3574C>T	c.(3574-3576)CCT>TCT	p.P1192S	TRIOBP_uc003atu.2_Missense_Mutation_p.P1020S|TRIOBP_uc003atq.1_Missense_Mutation_p.P1192S|TRIOBP_uc003ats.1_Missense_Mutation_p.P1020S	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1192					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CCAGGATCCCCCTGGAACTAG	0.642													8	48	---	---	---	---	PASS	T	38122137	T	T	38122137	3	4	4	1	0	0	0	0	1	0	0	0	16550	623	22	3	3592	3	TRIOBP	22	38122137	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	577	38122137	13182429	3766	4357										
EIF3L	51386	broad.mit.edu	37	chr22	38273863	38273863	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agttactcctgccccaagttCctgtcgcctgtagtgcccaa	8	15	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:38273863C>T	uc003auf.2	+	11	1347	c.1260C>T	c.(1258-1260)TTC>TTT	p.F420F	EIF3L_uc003aue.1_Silent_p.F420F|EIF3L_uc011ann.1_Silent_p.F372F|EIF3L_uc003aug.2_Silent_p.F312F|EIF3L_uc003auh.2_Silent_p.F153F	NM_016091	NP_057175	Q9Y262	EIF3L_HUMAN	eukaryotic translation initiation factor 3	420						eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1						GCCCCAAGTTCCTGTCGCCTG	0.502													22	19	---	---	---	---	PASS	T	38273863	T	T	38273863	2	4	4	1	0	0	0	0	0	0	0	1	5022	854	30	2		2	EIF3L	22	38273863	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	151726	38273863	13030703	3767	4358										
PLA2G6	8398	broad.mit.edu	37	chr22	38536119	38536119	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggcaggccaggtgcagcgGggtcagcccttggttattca	15	11	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:38536119G>A	uc003auy.1	-	5	803	c.667C>T	c.(667-669)CCG>TCG	p.P223S	PLA2G6_uc003auz.1_Missense_Mutation_p.P223S|PLA2G6_uc003ava.1_Missense_Mutation_p.P223S|PLA2G6_uc003avb.2_Missense_Mutation_p.P223S|PLA2G6_uc010gxk.1_RNA|PLA2G6_uc011ano.1_Intron	NM_003560	NP_003551	O60733	PA2G6_HUMAN	phospholipase A2, group VI isoform a	223	ANK 3.				cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)	AGGTGCAGCGGGGTCAGCCCT	0.587													14	10	---	---	---	---	PASS	A	38536119	A	A	38536119	3	1	4	1	0	0	0	0	1	0	0	0	12008	1232	43	3	1805	3	PLA2G6	22	38536119	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	262256	38536119	12768447	3768	4359										
CACNA1I	8911	broad.mit.edu	37	chr22	39966849	39966849	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagcccggaccccggagccCcccatcctccccgccaggcc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:39966849C>T	uc003ayc.2	+	1	92	c.92C>T	c.(91-93)CCC>CTC	p.P31L	CACNA1I_uc003ayd.2_Missense_Mutation_p.P31L	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	31	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CCCCGGAGCCCCCCATCCTCC	0.677													13	12	---	---	---	---	PASS	T	39966849	T	T	39966849	3	4	4	1	0	0	0	0	1	0	0	0	2546	623	22	3	94	3	CACNA1I	22	39966849	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1430730	39966849	11337717	3769	4360	195	2								
CACNA1I	8911	broad.mit.edu	37	chr22	39966850	39966850	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcccggaccccggagcccCccatcctccccgccaggcct							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:39966850C>T	uc003ayc.2	+	1	93	c.93C>T	c.(91-93)CCC>CCT	p.P31P	CACNA1I_uc003ayd.2_Silent_p.P31P	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	31	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CCCGGAGCCCCCCATCCTCCC	0.677													14	13	---	---	---	---	PASS	T	39966850	T	T	39966850	2	4	4	1	0	0	0	0	0	0	0	1	2546	610	22	3		3	CACNA1I	22	39966850	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	39966850	11337716	3770	4361	195	2								
MKL1	57591	broad.mit.edu	37	chr22	40819620	40819620	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggcagcagaggtgggggagGcagaggaggctgctctgcca	20	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:40819620G>A	uc003ayv.1	-	6	754	c.547C>T	c.(547-549)CCT>TCT	p.P183S	MKL1_uc003ayw.1_Missense_Mutation_p.P183S|MKL1_uc010gye.1_Missense_Mutation_p.P183S|MKL1_uc010gyf.1_Intron	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	183	Mediates interaction with SCAI and ACTB (By similarity).				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GGTGGGGGAGGCAGAGGAGGC	0.552			T	RBM15	acute megakaryocytic leukemia								5	33	---	---	---	---	PASS	A	40819620	A	A	40819620	3	1	4	1	0	0	0	0	1	0	0	0	9601	1203	42	3	2276	3	MKL1	22	40819620	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	852770	40819620	10484946	3771	4362										
MKL1	57591	broad.mit.edu	37	chr22	40820341	40820341	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcatcgctgctgtcctcatCgaaggaagagctgtctgcta	12	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:40820341C>T	uc003ayv.1	-	5	553	c.346G>A	c.(346-348)GAT>AAT	p.D116N	MKL1_uc003ayw.1_Missense_Mutation_p.D116N|MKL1_uc010gye.1_Missense_Mutation_p.D116N|MKL1_uc010gyf.1_Missense_Mutation_p.D116N	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	116	Mediates interaction with SCAI and ACTB (By similarity).				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CTGTCCTCATCGAAGGAAGAG	0.587			T	RBM15	acute megakaryocytic leukemia								25	20	---	---	---	---	PASS	T	40820341	T	T	40820341	3	4	4	1	0	0	0	0	1	0	0	0	9601	884	31	2	2481	2	MKL1	22	40820341	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	721	40820341	10484225	3772	4363										
MCHR1	2847	broad.mit.edu	37	chr22	41077494	41077494	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gacactgacctctactggttCaccctgtaccagtttttcct	6	14	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:41077494C>T	uc003ayz.2	+	2	1099	c.831C>T	c.(829-831)TTC>TTT	p.F277F	MCHR1_uc003aza.2_Silent_p.F166F	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	277	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						TCTACTGGTTCACCCTGTACC	0.602													34	29	---	---	---	---	PASS	T	41077494	T	T	41077494	2	4	4	1	0	0	0	0	0	0	0	1	9382	825	29	2		2	MCHR1	22	41077494	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	257153	41077494	10227072	3773	4364										
EP300	2033	broad.mit.edu	37	chr22	41572364	41572364	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatggtcgggatgcgtttctCacgctggcaagggacaagca	15	9	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:41572364C>T	uc003azl.3	+	30	5288	c.4893C>T	c.(4891-4893)CTC>CTT	p.L1631L		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1631	Binding region for E1A adenovirus.				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						ATGCGTTTCTCACGCTGGCAA	0.597			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				38	46	---	---	---	---	PASS	T	41572364	T	T	41572364	2	4	4	1	0	0	0	0	0	0	0	1	5148	813	29	2		2	EP300	22	41572364	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	494870	41572364	9732202	3774	4365										
EP300	2033	broad.mit.edu	37	chr22	41574204	41574204	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cccatgggagggatgagcccCcaggctcagcagatgaacat	13	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:41574204C>T	uc003azl.3	+	31	6884	c.6489C>T	c.(6487-6489)CCC>CCT	p.P2163P		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	2163	Interaction with HTLV-1 Tax.|Interaction with NCOA2.				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						GGATGAGCCCCCAGGCTCAGC	0.567			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				30	31	---	---	---	---	PASS	T	41574204	T	T	41574204	2	4	4	1	0	0	0	0	0	0	0	1	5148	610	22	3		3	EP300	22	41574204	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1840	41574204	9730362	3775	4366										
MEI1	150365	broad.mit.edu	37	chr22	42166870	42166870	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcagctatgaggaactggatGatgtcacctctgctgggcag	14	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:42166870G>A	uc003baz.1	+	20	2474	c.2449G>A	c.(2449-2451)GAT>AAT	p.D817N	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc011apd.1_RNA|MEI1_uc003bbb.1_Missense_Mutation_p.D203N|MEI1_uc003bbc.1_Missense_Mutation_p.D185N|MEI1_uc010gym.1_Missense_Mutation_p.D185N|MEI1_uc003bbd.1_Missense_Mutation_p.D60N	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	817							binding			central_nervous_system(1)|skin(1)	2						GGAACTGGATGATGTCACCTC	0.537													23	74	---	---	---	---	PASS	A	42166870	A	A	42166870	3	1	4	1	0	0	0	0	1	0	0	0	9465	1290	45	2	2527	2	MEI1	22	42166870	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	592666	42166870	9137696	3776	4367										
SEPT3	55964	broad.mit.edu	37	chr22	42388703	42388703	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttgctgtggtgggaagtgaCaaggagtaccaagtgaatgg	16	4	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:42388703C>T	uc003bbr.3	+	8	939	c.801C>T	c.(799-801)GAC>GAT	p.D267D	WBP2NL_uc011ape.1_Intron|SEPT3_uc003bbs.3_Silent_p.D267D|SEPT3_uc010gyr.2_Silent_p.D203D|SEPT3_uc011apj.1_Silent_p.D203D|SEPT3_uc010gys.2_Silent_p.D47D	NM_145733	NP_663786	Q9UH03	SEPT3_HUMAN	septin 3 isoform A	267					cell cycle|cytokinesis	cell junction|septin complex	GTP binding				0						TGGGAAGTGACAAGGAGTACC	0.522													13	9	---	---	---	---	PASS	T	42388703	T	T	42388703	2	4	4	1	0	0	0	0	0	0	0	1	14065	477	17	3		3	SEPT3	22	42388703	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	221833	42388703	8915863	3777	4368										
FAM109B	150368	broad.mit.edu	37	chr22	42473757	42473757	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctcatcctggaagtctgttGccagccgctgtaagccccag	11	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:42473757G>T	uc003bbz.2	+	3	647	c.460G>T	c.(460-462)GCC>TCC	p.A154S	C22orf32_uc003bca.2_5'Flank	NM_001002034	NP_001002034	Q6ICB4	SESQ2_HUMAN	hypothetical protein LOC150368	154					endosome organization|receptor recycling|retrograde transport, endosome to Golgi	clathrin-coated vesicle|early endosome|recycling endosome|trans-Golgi network	protein homodimerization activity				0						GAAGTCTGTTGCCAGCCGCTG	0.622													5	35	---	---	---	---	PASS	T	42473757	T	T	42473757	3	4	4	1	0	0	0	0	1	0	0	0	5395	1319	46	3	462	3	FAM109B	22	42473757	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	85054	42473757	8830809	3778	4369										
CYB5R3	1727	broad.mit.edu	37	chr22	43024195	43024195	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcagcccactggggccccgGaactcaatggtgtctccaat	11	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:43024195G>A	uc003bcz.2	-	5	510	c.426C>T	c.(424-426)TTC>TTT	p.F142F	CYB5R3_uc010gzc.1_Silent_p.F16F|CYB5R3_uc003bcw.2_Silent_p.F132F|CYB5R3_uc011aps.1_Silent_p.F175F|CYB5R3_uc003bcy.2_Silent_p.F119F|CYB5R3_uc003bcx.2_Silent_p.F119F	NM_000398	NP_000389	P00387	NB5R3_HUMAN	cytochrome b5 reductase 3 isoform m	142	FAD (By similarity).|FAD-binding FR-type.				blood circulation|cholesterol biosynthetic process|water-soluble vitamin metabolic process	endoplasmic reticulum membrane|hemoglobin complex|mitochondrial outer membrane	cytochrome-b5 reductase activity			skin(1)	1					NADH(DB00157)	TGGGGCCCCGGAACTCAATGG	0.562													87	70	---	---	---	---	PASS	A	43024195	A	A	43024195	2	1	4	1	0	0	0	0	0	0	0	1	4128	1165	41	2		2	CYB5R3	22	43024195	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	550438	43024195	8280371	3779	4370										
SMC1B	27127	broad.mit.edu	37	chr22	45789578	45789578	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctcttttgctgacgttttCcctcatgggtatcaatccca	6	13	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:45789578C>T	uc003bgc.2	-	9	1533	c.1481G>A	c.(1480-1482)GGA>GAA	p.G494E	SMC1B_uc003bgd.2_Missense_Mutation_p.G494E|SMC1B_uc003bge.1_Missense_Mutation_p.G277E	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	494	Flexible hinge.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		CTGACGTTTTCCCTCATGGGT	0.328													16	26	---	---	---	---	PASS	T	45789578	T	T	45789578	3	4	4	1	0	0	0	0	1	0	0	0	14782	855	30	2	2294	2	SMC1B	22	45789578	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2765383	45789578	5514988	3780	4371										
ATXN10	25814	broad.mit.edu	37	chr22	46136353	46136353	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctccaatgtggccaatgggTttaagtctcatctcattcgt	8	10	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:46136353T>C	uc003bgm.1	+	9	1365	c.1108T>C	c.(1108-1110)TTT>CTT	p.F370L	ATXN10_uc011aqt.1_Missense_Mutation_p.F306L|ATXN10_uc003bgn.1_Missense_Mutation_p.F181L	NM_013236	NP_037368	Q9UBB4	ATX10_HUMAN	ataxin 10	370					cell death|neuron projection development	dendrite|neuronal cell body|perinuclear region of cytoplasm				ovary(1)|kidney(1)	2		Ovarian(80;0.00973)|all_neural(38;0.0417)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0223)		GGCCAATGGGTTTAAGTCTCA	0.383													15	52	---	---	---	---	PASS	C	46136353	C	C	46136353	3	2	4	1	0	0	0	0	1	0	0	0	1210	1725	60	5	1142	5	ATXN10	22	46136353	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	346775	46136353	5168213	3781	4372										
PKDREJ	10343	broad.mit.edu	37	chr22	46656603	46656603	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttctcatttctgaagagctGgttgataccccacttttcaa	6	10	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:46656603G>A	uc003bhh.2	-	1	2617	c.2617C>T	c.(2617-2619)CAG>TAG	p.Q873*		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	873	Extracellular (Potential).|REJ.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		CTGAAGAGCTGGTTGATACCC	0.408													22	36	---	---	---	---	PASS	A	46656603	A	A	46656603	4	1	4	1	0	0	0	0	0	1	0	0	11970	1357	47	3	4148	3	PKDREJ	22	46656603	Nonsense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	520250	46656603	4647963	3782	4373										
GTSE1	51512	broad.mit.edu	37	chr22	46708110	46708110	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaatcccaccgggatgttCtccctgacaaacctgccccg	9	16	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:46708110C>T	uc011aqy.1	+	5	1047	c.835C>T	c.(835-837)CTC>TTC	p.L279F	GTSE1_uc011aqz.1_Missense_Mutation_p.L126F	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	260					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		CCGGGATGTTCTCCCTGACAA	0.537													13	29	---	---	---	---	PASS	T	46708110	T	T	46708110	3	4	4	1	0	0	0	0	1	0	0	0	6885	913	32	2	849	2	GTSE1	22	46708110	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	51507	46708110	4596456	3783	4374										
GTSE1	51512	broad.mit.edu	37	chr22	46725379	46725379	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcacacgtggctgtaggatCtgaaagcaggcctctgatcg	13	10	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:46725379C>T	uc011aqy.1	+	11	2263	c.2051C>T	c.(2050-2052)TCT>TTT	p.S684F	GTSE1_uc011aqz.1_Missense_Mutation_p.S531F|GTSE1_uc003bhn.2_RNA|uc011ara.1_5'Flank|uc003bho.3_5'Flank	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	665					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		GCTGTAGGATCTGAAAGCAGG	0.542													72	62	---	---	---	---	PASS	T	46725379	T	T	46725379	3	4	4	1	0	0	0	0	1	0	0	0	6885	913	32	2	2089	2	GTSE1	22	46725379	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	17269	46725379	4579187	3784	4375										
CELSR1	9620	broad.mit.edu	37	chr22	46930004	46930004	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcatcagggtcgttagcacGaatctttgccaccaccgacc	8	14	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:46930004G>A	uc003bhw.1	-	1	3064	c.3064C>T	c.(3064-3066)CGT>TGT	p.R1022C		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1022	Extracellular (Potential).|Cadherin 8.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TCGTTAGCACGAATCTTTGCC	0.517													19	33	---	---	---	---	PASS	A	46930004	A	A	46930004	3	1	4	1	0	0	0	0	1	0	0	0	3221	1058	37	2	6120	2	CELSR1	22	46930004	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	204625	46930004	4374562	3785	4376										
GRAMD4	23151	broad.mit.edu	37	chr22	47033853	47033853	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccttattggaaaaacatttCttacgtgagtaccagaaagc	8	8	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:47033853C>T	uc003bhx.2	+	2	318	c.279C>T	c.(277-279)TTC>TTT	p.F93F	GRAMD4_uc010had.2_Silent_p.F32F	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	93	Potential.				apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		AAAAACATTTCTTACGTGAGT	0.517													16	66	---	---	---	---	PASS	T	47033853	T	T	47033853	2	4	4	1	0	0	0	0	0	0	0	1	6752	912	32	2		2	GRAMD4	22	47033853	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	103849	47033853	4270713	3786	4377										
ZBED4	9889	broad.mit.edu	37	chr22	50278157	50278157	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cacttccaaagagcacctctGggtccaggagaaggtccgct	11	13	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:50278157G>A	uc003bix.2	+	2	1317	c.847G>A	c.(847-849)GGG>AGG	p.G283R		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	283						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		GAGCACCTCTGGGTCCAGGAG	0.572													58	53	---	---	---	---	PASS	A	50278157	A	A	50278157	3	1	4	1	0	0	0	0	1	0	0	0	17517	1348	47	3	849	3	ZBED4	22	50278157	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3244304	50278157	1026409	3787	4378										
SBF1	6305	broad.mit.edu	37	chr22	50893807	50893807	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctccagcgtgcggtagaagGggtctgagagcagctgcacc	15	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:50893807G>A	uc003blh.2	-	33	4595	c.4400C>T	c.(4399-4401)CCC>CTC	p.P1467L	SBF1_uc003ble.2_5'UTR|SBF1_uc003blf.2_5'UTR|SBF1_uc011arx.1_Missense_Mutation_p.P1105L	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1441	Myotubularin phosphatase.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		GCGGTAGAAGGGGTCTGAGAG	0.687													25	26	---	---	---	---	PASS	A	50893807	A	A	50893807	3	1	4	1	0	0	0	0	1	0	0	0	13858	1232	43	3	1317	3	SBF1	22	50893807	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	615650	50893807	410759	3788	4379										
NCAPH2	29781	broad.mit.edu	37	chr22	50956661	50956661	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttggagccagagggcatgtcCcccatggaaccagcgggcgt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:50956661C>T	uc003blr.3	+	7	722	c.600C>T	c.(598-600)TCC>TCT	p.S200S	NCAPH2_uc003blq.3_Silent_p.S200S|NCAPH2_uc003blv.2_Silent_p.S200S|NCAPH2_uc010hbb.2_Silent_p.S51S|NCAPH2_uc003blu.3_RNA|NCAPH2_uc003bls.3_RNA|NCAPH2_uc003blt.3_RNA|NCAPH2_uc003blw.3_RNA|NCAPH2_uc003blx.3_Silent_p.S200S|NCAPH2_uc003bly.3_RNA	NM_152299	NP_689512	Q6IBW4	CNDH2_HUMAN	kleisin beta isoform 2	200					chromosome condensation	chromosome|nucleus				ovary(1)|skin(1)	2		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.212)		AGGGCATGTCCCCCATGGAAC	0.642													24	24	---	---	---	---	PASS	T	50956661	T	T	50956661	2	4	4	1	0	0	0	0	0	0	0	1	10210	610	22	3		3	NCAPH2	22	50956661	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	62854	50956661	347905	3789	4380	196	2								
NCAPH2	29781	broad.mit.edu	37	chr22	50956662	50956662	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggagccagagggcatgtccCccatggaaccagcgggcgtt							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:50956662C>T	uc003blr.3	+	7	723	c.601C>T	c.(601-603)CCC>TCC	p.P201S	NCAPH2_uc003blq.3_Missense_Mutation_p.P201S|NCAPH2_uc003blv.2_Missense_Mutation_p.P201S|NCAPH2_uc010hbb.2_Missense_Mutation_p.P52S|NCAPH2_uc003blu.3_RNA|NCAPH2_uc003bls.3_RNA|NCAPH2_uc003blt.3_RNA|NCAPH2_uc003blw.3_RNA|NCAPH2_uc003blx.3_Missense_Mutation_p.P201S|NCAPH2_uc003bly.3_RNA	NM_152299	NP_689512	Q6IBW4	CNDH2_HUMAN	kleisin beta isoform 2	201					chromosome condensation	chromosome|nucleus				ovary(1)|skin(1)	2		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.212)		GGGCATGTCCCCCATGGAACC	0.642													35	13	---	---	---	---	PASS	T	50956662	T	T	50956662	3	4	4	1	0	0	0	0	1	0	0	0	10210	623	22	3	627	3	NCAPH2	22	50956662	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	50956662	347904	3790	4381	196	2								
ARSA	410	broad.mit.edu	37	chr22	51065164	51065164	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acgctctgcaaagctctgccCactgaactgagggtagtggg	13	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chr22:51065164C>T	uc003bnb.3	-	5	956	c.703G>A	c.(703-705)GGG>AGG	p.G235R	ARSA_uc003bna.3_Missense_Mutation_p.G151R|ARSA_uc003bnc.3_Missense_Mutation_p.G235R|ARSA_uc003bnd.3_Missense_Mutation_p.G235R|ARSA_uc003bmz.3_Missense_Mutation_p.G235R|ARSA_uc010hbf.2_3'UTR	NM_001085426	NP_001078895	P15289	ARSA_HUMAN	arylsulfatase A isoform a precursor	235						lysosome	arylsulfatase activity|calcium ion binding|cerebroside-sulfatase activity			pancreas(1)|skin(1)	2		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)	Micafungin(DB01141)	AAGCTCTGCCCACTGAACTGA	0.617													16	51	---	---	---	---	PASS	T	51065164	T	T	51065164	3	4	4	1	0	0	0	0	1	0	0	0	987	594	21	3	840	3	ARSA	22	51065164	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	108502	51065164	239402	3791	4382										
PLCXD1	55344	broad.mit.edu	37	chrX	215781	215781	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	caggagggttgttcgtggccGgcatcaacctcacggagaac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:215781G>A	uc004cpc.2	+	7	1063	c.751G>A	c.(751-753)GGC>AGC	p.G251S	PLCXD1_uc011mgx.1_RNA	NM_018390	NP_060860	Q9NUJ7	PLCX1_HUMAN	phosphatidylinositol-specific phospholipase C, X	251					intracellular signal transduction|lipid metabolic process		phospholipase C activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GTTCGTGGCCGGCATCAACCT	0.617													14	13	---	---	---	---	PASS	A	215781	A	A	215781	3	1	4	1	0	0	0	0	1	0	0	0	12041	1116	39	1	773	1	PLCXD1	23	215781	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08		215781	155054779	3792	4383	197	2								
PLCXD1	55344	broad.mit.edu	37	chrX	215782	215782	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggagggttgttcgtggccgGcatcaacctcacggagaacc					rs145500475		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:215782G>A	uc004cpc.2	+	7	1064	c.752G>A	c.(751-753)GGC>GAC	p.G251D	PLCXD1_uc011mgx.1_RNA	NM_018390	NP_060860	Q9NUJ7	PLCX1_HUMAN	phosphatidylinositol-specific phospholipase C, X	251					intracellular signal transduction|lipid metabolic process		phospholipase C activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TTCGTGGCCGGCATCAACCTC	0.622													15	12	---	---	---	---	PASS	A	215782	A	A	215782	3	1	4	1	0	0	0	0	1	0	0	0	12041	1203	42	3	774	3	PLCXD1	23	215782	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	215782	155054778	3793	4384	197	2								
CRLF2	64109	broad.mit.edu	37	chrX	1321372	1321372	+	RNA	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcactgcatcctgatgccacGaaaatctcacgtgcttcggg	9	13	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:1321372G>A	uc004cpm.1	-	4		c.383C>T						Q9HC73	CRLF2_HUMAN	Homo sapiens mRNA for IL-XR, complete cds.							extracellular region|integral to membrane|plasma membrane	receptor activity			haematopoietic_and_lymphoid_tissue(7)	7		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				CTGATGCCACGAAAATCTCAC	0.547			Mis|T	P2RY8|IGH@	B-ALL|Downs associated ALL								59	122	---	---	---	---	PASS	A	1321372	A	A	1321372	1	1	4	0	1	0	0	0	0	0	0	0	3887	1059	37	2		2	CRLF2	23	1321372	RNA	SNP	G	TCGA-18-3409-01A-01D-0983-08	1105590	1321372	153949188	3794	4385										
ASMTL	8623	broad.mit.edu	37	chrX	1531735	1531735	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cagcgctggggagggggtccCtgaaaaagtcacctggttta	15	9	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:1531735C>A	uc004cpx.1	-	12	1646	c.1535G>T	c.(1534-1536)AGG>ATG	p.R512M	NCRNA00105_uc004cpv.2_RNA|NCRNA00105_uc004cpw.2_RNA|ASMTL_uc011mhe.1_Missense_Mutation_p.R436M|ASMTL_uc004cpy.1_Missense_Mutation_p.R496M|ASMTL_uc011mhf.1_Missense_Mutation_p.R454M	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	512	ASMT-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GAGGGGGTCCCTGAAAAAGTC	0.582													5	94	---	---	---	---	PASS	A	1531735	A	A	1531735	3	1	4	1	0	0	0	0	1	0	0	0	1046	681	24	3	338	3	ASMTL	23	1531735	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	210363	1531735	153738825	3795	4386										
ASMTL	8623	broad.mit.edu	37	chrX	1536906	1536906	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	actgcctgcggtccggggggTtggaagtgggcggccagctc	19	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:1536906T>C	uc004cpx.1	-	11	1593	c.1482A>G	c.(1480-1482)CAA>CAG	p.Q494Q	ASMTL_uc011mhe.1_Silent_p.Q418Q|ASMTL_uc004cpy.1_Silent_p.Q478Q|ASMTL_uc011mhf.1_Silent_p.Q436Q	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	494	ASMT-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GTCCGGGGGGTTGGAAGTGGG	0.602													10	27	---	---	---	---	PASS	C	1536906	C	C	1536906	2	2	4	1	0	0	0	0	0	0	0	1	1046	1722	60	5		5	ASMTL	23	1536906	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	5171	1536906	153733654	3796	4387										
ZBED1	9189	broad.mit.edu	37	chrX	2408485	2408485	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcttcagcttggagaaggcGgtggcgaaggcttcacgcat	16	9	2	1	rs143939578		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:2408485G>T	uc004cqg.2	-	2	477	c.276C>A	c.(274-276)ACC>ACA	p.T92T	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Silent_p.T92T	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	92						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TGGAGAAGGCGGTGGCGAAGG	0.632													4	55	---	---	---	---	PASS	T	2408485	T	T	2408485	2	4	4	1	0	0	0	0	0	0	0	1	17514	1103	39	1		1	ZBED1	23	2408485	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	871579	2408485	152862075	3797	4388										
ZBED1	9189	broad.mit.edu	37	chrX	2408626	2408626	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccatgcagatgcggcagtaGattttcttccactgcaggat	11	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:2408626G>A	uc004cqg.2	-	2	336	c.135C>T	c.(133-135)ATC>ATT	p.I45I	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Silent_p.I45I	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	45	BED-type.					nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TGCGGCAGTAGATTTTCTTCC	0.582													28	44	---	---	---	---	PASS	A	2408626	A	A	2408626	2	1	4	1	0	0	0	0	0	0	0	1	17514	932	33	2		2	ZBED1	23	2408626	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	141	2408626	152861934	3798	4389										
ARSF	416	broad.mit.edu	37	chrX	3021844	3021844	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggaaggtggaatccgcgtcCcaggaattgtccgatggcct	15	10	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:3021844C>T	uc004cre.1	+	9	1365	c.1144C>T	c.(1144-1146)CCA>TCA	p.P382S	ARSF_uc004crf.1_Missense_Mutation_p.P382S	NM_004042	NP_004033	P54793	ARSF_HUMAN	arylsulfatase F precursor	382						extracellular region	arylsulfatase activity|metal ion binding			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AATCCGCGTCCCAGGAATTGT	0.448													15	4	---	---	---	---	PASS	T	3021844	T	T	3021844	3	4	4	1	0	0	0	0	1	0	0	0	991	623	22	3	1174	3	ARSF	23	3021844	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	613218	3021844	152248716	3799	4390										
NLGN4X	57502	broad.mit.edu	37	chrX	5811208	5811208	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtctcatggcgcctcttgtCctttttgtagtacagcgccg	10	12	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:5811208C>T	uc010ndh.2	-	6	2602	c.2101G>A	c.(2101-2103)GAC>AAC	p.D701N	NLGN4X_uc004crp.2_Missense_Mutation_p.D721N|NLGN4X_uc004crq.2_Missense_Mutation_p.D701N|NLGN4X_uc010ndi.2_Missense_Mutation_p.D738N|NLGN4X_uc004crr.2_Missense_Mutation_p.D701N|NLGN4X_uc010ndj.2_Missense_Mutation_p.D701N	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	701	Cytoplasmic (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						CGCCTCTTGTCCTTTTTGTAG	0.507													19	13	---	---	---	---	PASS	T	5811208	T	T	5811208	3	4	4	1	0	0	0	0	1	0	0	0	10464	855	30	2	353	2	NLGN4X	23	5811208	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2789364	5811208	149459352	3800	4391										
GLRA2	2742	broad.mit.edu	37	chrX	14625263	14625263	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tttacctcagttgggtacacGatgaatgacctgatatttga	9	7	1	4	rs113271440		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:14625263G>A	uc010nep.2	+	7	920	c.588G>A	c.(586-588)ACG>ACA	p.T196T	GLRA2_uc010neq.2_Silent_p.T196T|GLRA2_uc004cwe.3_Silent_p.T196T|GLRA2_uc011mio.1_Silent_p.T107T|GLRA2_uc011mip.1_Silent_p.T174T	NM_001118885	NP_001112357	P23416	GLRA2_HUMAN	glycine receptor, alpha 2 isoform A	196	Extracellular (Probable).				neuropeptide signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(1)|lung(1)	2	Hepatocellular(33;0.128)				Ethanol(DB00898)|Glycine(DB00145)	TTGGGTACACGATGAATGACC	0.388													35	15	---	---	---	---	PASS	A	14625263	A	A	14625263	2	1	4	1	0	0	0	0	0	0	0	1	6455	1045	37	2		2	GLRA2	23	14625263	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	8814055	14625263	140645297	3801	4392										
MOSPD2	158747	broad.mit.edu	37	chrX	14933878	14933878	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtggatatagttgtgtctcCccatgggggtgagttgtcac	14	7	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:14933878C>T	uc004cwi.2	+	12	1266	c.1178C>T	c.(1177-1179)CCC>CTC	p.P393L	MOSPD2_uc004cwj.2_Missense_Mutation_p.P330L	NM_152581	NP_689794	Q8NHP6	MSPD2_HUMAN	motile sperm domain containing 2	393	MSP.					integral to membrane	structural molecule activity			lung(1)	1	Hepatocellular(33;0.183)					GTTGTGTCTCCCCATGGGGGT	0.517													52	20	---	---	---	---	PASS	T	14933878	T	T	14933878	3	4	4	1	0	0	0	0	1	0	0	0	9716	623	22	3	1224	3	MOSPD2	23	14933878	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	308615	14933878	140336682	3802	4393										
FIGF	2277	broad.mit.edu	37	chrX	15364280	15364280	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattctttcggctgtggggcCcctgggcagcccttttctcc	12	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:15364280C>T	uc004cwt.1	-	7	1549	c.1040G>A	c.(1039-1041)GGG>GAG	p.G347E		NM_004469	NP_004460	O43915	VEGFD_HUMAN	vascular endothelial growth factor D	347					angiogenesis|cell differentiation|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of cell proliferation|positive regulation of mast cell chemotaxis|vascular endothelial growth factor receptor signaling pathway	extracellular space|membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity|platelet-derived growth factor receptor binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Hepatocellular(33;0.183)					GCTGTGGGGCCCCTGGGCAGC	0.498													37	19	---	---	---	---	PASS	T	15364280	T	T	15364280	3	4	4	1	0	0	0	0	1	0	0	0	5889	623	22	3	28	3	FIGF	23	15364280	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	430402	15364280	139906280	3803	4394										
CNKSR2	22866	broad.mit.edu	37	chrX	21549974	21549974	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttactctaacctttctttagGgatgaaaaaggaaaccttcc	6	9	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:21549974G>A	uc004czx.1	+	11	1128	c.1092G>A	c.(1090-1092)AGG>AGA	p.R364R	CNKSR2_uc004czw.2_Silent_p.R364R|CNKSR2_uc011mjn.1_Silent_p.R315R|CNKSR2_uc011mjo.1_Silent_p.R364R|CNKSR2_uc004czy.2_5'UTR	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	364	DUF1170.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						CTTTCTTTAGGGATGAAAAAG	0.373													7	9	---	---	---	---	PASS	A	21549974	A	A	21549974	2	1	4	1	0	0	0	0	0	0	0	1	3607	1246	43	3		3	CNKSR2	23	21549974	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	6185694	21549974	133720586	3804	4395										
PTCHD1	139411	broad.mit.edu	37	chrX	23398342	23398342	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgggaaatataattccacctTcctgggagtccctttcgtca	8	11	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:23398342T>C	uc004dal.3	+	2	994	c.986T>C	c.(985-987)TTC>TCC	p.F329S	PTCHD1_uc010nfu.1_Missense_Mutation_p.F329S	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	329	Helical; (Potential).|SSD.				cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						AATTCCACCTTCCTGGGAGTC	0.502													32	23	---	---	---	---	PASS	C	23398342	C	C	23398342	3	2	4	1	0	0	0	0	1	0	0	0	12732	1783	62	5	992	5	PTCHD1	23	23398342	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1848368	23398342	131872218	3805	4396										
POLA1	5422	broad.mit.edu	37	chrX	24741283	24741283	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttctttcaggtgtggtatttCtgtttgggaaagtttggatt	12	3	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:24741283C>T	uc004dbl.2	+	11	1104	c.1081C>T	c.(1081-1083)CTG>TTG	p.L361L	POLA1_uc004dbm.2_Silent_p.L367L|POLA1_uc004dbn.2_Silent_p.L225L	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	361					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	TGTGGTATTTCTGTTTGGGAA	0.393													28	23	---	---	---	---	PASS	T	24741283	T	T	24741283	2	4	4	1	0	0	0	0	0	0	0	1	12187	912	32	2		2	POLA1	23	24741283	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1342941	24741283	130529277	3806	4397										
MAGEB18	286514	broad.mit.edu	37	chrX	26157987	26157987	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gccaagatacatgataccgtCcctagtgccttcccatcctg	7	15	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:26157987C>T	uc004dbq.1	+	2	1072	c.885C>T	c.(883-885)GTC>GTT	p.V295V		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	295	MAGE.						protein binding			central_nervous_system(1)	1						ATGATACCGTCCCTAGTGCCT	0.522													15	8	---	---	---	---	PASS	T	26157987	T	T	26157987	2	4	4	1	0	0	0	0	0	0	0	1	9175	842	30	2		2	MAGEB18	23	26157987	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1416704	26157987	129112573	3807	4398										
CXorf21	80231	broad.mit.edu	37	chrX	30578032	30578032	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggccatattcaaaactgctCtcagagggaaaatctgttgt	10	8	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:30578032C>T	uc004dcg.1	-	3	717	c.441G>A	c.(439-441)GAG>GAA	p.E147E		NM_025159	NP_079435	Q9HAI6	CX021_HUMAN	hypothetical protein LOC80231	147										ovary(1)	1						CAAAACTGCTCTCAGAGGGAA	0.423													16	10	---	---	---	---	PASS	T	30578032	T	T	30578032	2	4	4	1	0	0	0	0	0	0	0	1	4101	912	32	2		2	CXorf21	23	30578032	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4420045	30578032	124692528	3808	4399										
DMD	1756	broad.mit.edu	37	chrX	31893359	31893359	+	Silent	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttataaatttccaactgattCctaataggagataaccacag							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:31893359C>T	uc004dda.1	-	48	7288	c.7044G>A	c.(7042-7044)AGG>AGA	p.R2348R	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Silent_p.R1004R|DMD_uc004dcx.2_Silent_p.R1007R|DMD_uc004dcz.2_Silent_p.R2225R|DMD_uc004dcy.1_Silent_p.R2344R|DMD_uc004ddb.1_Silent_p.R2340R|DMD_uc010ngn.1_RNA	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2348			Missing (in DMD).		muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CCAACTGATTCCTAATAGGAG	0.338													4	2	---	---	---	---	PASS	T	31893359	T	T	31893359	2	4	4	1	0	0	0	0	0	0	0	1	4580	854	30	2		2	DMD	23	31893359	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	1315327	31893359	123377201	3809	4400	198	2								
DMD	1756	broad.mit.edu	37	chrX	31893360	31893360	+	Missense_Mutation	SNP	C	T	T													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tataaatttccaactgattcCtaataggagataaccacagc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:31893360C>T	uc004dda.1	-	48	7287	c.7043G>A	c.(7042-7044)AGG>AAG	p.R2348K	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Missense_Mutation_p.R1004K|DMD_uc004dcx.2_Missense_Mutation_p.R1007K|DMD_uc004dcz.2_Missense_Mutation_p.R2225K|DMD_uc004dcy.1_Missense_Mutation_p.R2344K|DMD_uc004ddb.1_Missense_Mutation_p.R2340K|DMD_uc010ngn.1_RNA	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2348			Missing (in DMD).		muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CAACTGATTCCTAATAGGAGA	0.343													4	3	---	---	---	---	PASS	T	31893360	T	T	31893360	3	4	4	1	0	0	0	0	1	0	0	0	4580	681	24	3	4290	3	DMD	23	31893360	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1	31893360	123377200	3810	4401	198	2								
DMD	1756	broad.mit.edu	37	chrX	31893406	31893406	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgatttaactgctcttcaaGgtcttcaagctttttttcaa	5	8	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:31893406G>A	uc004dda.1	-	48	7241	c.6997C>T	c.(6997-6999)CTT>TTT	p.L2333F	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Missense_Mutation_p.L989F|DMD_uc004dcx.2_Missense_Mutation_p.L992F|DMD_uc004dcz.2_Missense_Mutation_p.L2210F|DMD_uc004dcy.1_Missense_Mutation_p.L2329F|DMD_uc004ddb.1_Missense_Mutation_p.L2325F|DMD_uc010ngn.1_RNA	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2333			Missing (in DMD).		muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGCTCTTCAAGGTCTTCAAGC	0.378													6	3	---	---	---	---	PASS	A	31893406	A	A	31893406	3	1	4	1	0	0	0	0	1	0	0	0	4580	1000	35	3	4336	3	DMD	23	31893406	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	46	31893406	123377154	3811	4402										
DMD	1756	broad.mit.edu	37	chrX	32404508	32404508	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggattttccgtctgctttttCtgtacaatctgacgtccagt	8	10	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:32404508C>T	uc004dda.1	-	33	4837	c.4593G>A	c.(4591-4593)CAG>CAA	p.Q1531Q	DMD_uc004dcw.2_Silent_p.Q187Q|DMD_uc004dcx.2_Silent_p.Q190Q|DMD_uc004dcz.2_Silent_p.Q1408Q|DMD_uc004dcy.1_Silent_p.Q1527Q|DMD_uc004ddb.1_Silent_p.Q1523Q|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1531	Spectrin 10.|Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TCTGCTTTTTCTGTACAATCT	0.373													37	16	---	---	---	---	PASS	T	32404508	T	T	32404508	2	4	4	1	0	0	0	0	0	0	0	1	4580	912	32	2		2	DMD	23	32404508	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	511102	32404508	122866052	3812	4403										
DMD	1756	broad.mit.edu	37	chrX	32429976	32429976	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gattaagtgtaaggatttttCagtctcctgggcagactgga	12	6	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:32429976C>T	uc004dda.1	-	30	4370	c.4126G>A	c.(4126-4128)GAA>AAA	p.E1376K	DMD_uc004dcw.2_Missense_Mutation_p.E32K|DMD_uc004dcx.2_Missense_Mutation_p.E35K|DMD_uc004dcz.2_Missense_Mutation_p.E1253K|DMD_uc004dcy.1_Missense_Mutation_p.E1372K|DMD_uc004ddb.1_Missense_Mutation_p.E1368K|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1376					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AAGGATTTTTCAGTCTCCTGG	0.433													11	9	---	---	---	---	PASS	T	32429976	T	T	32429976	3	4	4	1	0	0	0	0	1	0	0	0	4580	835	29	2	7279	2	DMD	23	32429976	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	25468	32429976	122840584	3813	4404										
MAGEB16	139604	broad.mit.edu	37	chrX	35820350	35820350	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agagtccacgatgcacacatGatcagcaccttcagaccttc	7	14	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:35820350G>A	uc010ngt.1	+	2	316	c.37G>A	c.(37-39)GAT>AAT	p.D13N		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	13										lung(3)|ovary(2)|breast(1)|skin(1)	7						ATGCACACATGATCAGCACCT	0.557													16	14	---	---	---	---	PASS	A	35820350	A	A	35820350	3	1	4	1	0	0	0	0	1	0	0	0	9174	1290	45	2	39	2	MAGEB16	23	35820350	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3390374	35820350	119450210	3814	4405										
FAM47C	442444	broad.mit.edu	37	chrX	37029130	37029130	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctgagtgcagagcaacctatCaagaccaaaagaataagaag	9	8	1	5			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:37029130C>T	uc004ddl.1	+	1	2661	c.2647C>T	c.(2647-2649)CAA>TAA	p.Q883*		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	883										ovary(3)	3						AGCAACCTATCAAGACCAAAA	0.453													49	19	---	---	---	---	PASS	T	37029130	T	T	37029130	4	4	4	1	0	0	0	0	0	1	0	0	5571	827	29	2	2649	2	FAM47C	23	37029130	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1208780	37029130	118241430	3815	4406										
EFHC2	80258	broad.mit.edu	37	chrX	44091790	44091790	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcattgagcaaacgaaatagGtaaccattcacattcaccgt	7	10	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:44091790G>A	uc004dgb.3	-	11	1647	c.1557C>T	c.(1555-1557)TAC>TAT	p.Y519Y		NM_025184	NP_079460	Q5JST6	EFHC2_HUMAN	EF-hand domain (C-terminal) containing 2	519	DM10 3.						calcium ion binding			breast(3)|ovary(2)|central_nervous_system(1)	6						AACGAAATAGGTAACCATTCA	0.388													4	1	---	---	---	---	PASS	A	44091790	A	A	44091790	2	1	4	1	0	0	0	0	0	0	0	1	4947	1256	44	3		3	EFHC2	23	44091790	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	7062660	44091790	111178770	3816	4407										
DUSP21	63904	broad.mit.edu	37	chrX	44703484	44703484	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtttctcagcaatggtgtgGccgccaacgacaaactcctt	9	12	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:44703484G>T	uc004dgd.2	+	1	236	c.106G>T	c.(106-108)GCC>TCC	p.A36S		NM_022076	NP_071359	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	36	Tyrosine-protein phosphatase.					cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			large_intestine(1)|lung(1)	2						CAATGGTGTGGCCGCCAACGA	0.517													4	29	---	---	---	---	PASS	T	44703484	T	T	44703484	3	4	4	1	0	0	0	0	1	0	0	0	4820	1203	42	3	108	3	DUSP21	23	44703484	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	611694	44703484	110567076	3817	4408										
ZNF630	57232	broad.mit.edu	37	chrX	47918009	47918009	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	catctgtgatttccagaaaaAagtcattccagactcagcac	6	11	3	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:47918009A>T	uc004div.3	-	5	2074	c.1822T>A	c.(1822-1824)TTT>ATT	p.F608I	ZNF630_uc010nhz.1_Intron|ZNF630_uc004diw.2_Missense_Mutation_p.F484I	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	608	C2H2-type 13; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2						TTCCAGAAAAAAGTCATTCCA	0.443													14	14	---	---	---	---	PASS	T	47918009	T	T	47918009	3	4	4	1	0	0	0	0	1	0	0	0	18051	14	1	5	155	5	ZNF630	23	47918009	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	3214525	47918009	107352551	3818	4409										
XAGE5	170627	broad.mit.edu	37	chrX	52841655	52841655	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acttgctcagctggttgggcCtatgcttgtgagtgacttca	12	9	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:52841655C>T	uc004drd.1	+	2	130	c.65C>T	c.(64-66)CCT>CTT	p.P22L		NM_130775	NP_570131	Q8WWM1	GAGD5_HUMAN	X antigen family, member 5	22										ovary(1)	1						CTGGTTGGGCCTATGCTTGTG	0.363													25	10	---	---	---	---	PASS	T	52841655	T	T	52841655	3	4	4	1	0	0	0	0	1	0	0	0	17418	681	24	3	67	3	XAGE5	23	52841655	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	4923646	52841655	102428905	3819	4410										
SMC1A	8243	broad.mit.edu	37	chrX	53439105	53439105	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcttctgagcattctgcagaGacttcttggctgcttccagc	10	12	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:53439105G>A	uc004dsg.2	-	6	1022	c.953C>T	c.(952-954)TCT>TTT	p.S318F	SMC1A_uc011moe.1_Missense_Mutation_p.S296F|SMC1A_uc011mof.1_Intron	NM_006306	NP_006297	Q14683	SMC1A_HUMAN	structural maintenance of chromosomes 1A	318	Potential.				cell cycle checkpoint|cell division|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic sister chromatid cohesion|mitotic spindle organization|negative regulation of DNA endoreduplication|nuclear mRNA splicing, via spliceosome|response to radiation|signal transduction in response to DNA damage	cohesin core heterodimer|condensed chromosome kinetochore|condensed nuclear chromosome|cytoplasm|meiotic cohesin complex|nucleoplasm	ATP binding|chromatin binding|microtubule motor activity|protein heterodimerization activity			ovary(5)|central_nervous_system(1)	6						ATTCTGCAGAGACTTCTTGGC	0.498													7	12	---	---	---	---	PASS	A	53439105	A	A	53439105	3	1	4	1	0	0	0	0	1	0	0	0	14781	942	33	2	2828	2	SMC1A	23	53439105	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	597450	53439105	101831455	3820	4411										
PFKFB1	5207	broad.mit.edu	37	chrX	54971969	54971969	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttcataggtcatctcctcaCagacaccctgagaaaaagta	6	12	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:54971969C>A	uc004dty.1	-	10	1072	c.1001G>T	c.(1000-1002)TGT>TTT	p.C334F	PFKFB1_uc010nkd.1_Missense_Mutation_p.C142F|PFKFB1_uc011mol.1_Missense_Mutation_p.C269F	NM_002625	NP_002616	P16118	F261_HUMAN	6-phosphofructo-2-kinase/fructose-2,	334	Fructose-2,6-bisphosphatase.				energy reserve metabolic process|fructose 2,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|intracellular protein kinase cascade	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(1)	1						CATCTCCTCACAGACACCCTG	0.428													8	3	---	---	---	---	PASS	A	54971969	A	A	54971969	3	1	4	1	0	0	0	0	1	0	0	0	11760	478	17	3	434	3	PFKFB1	23	54971969	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1532864	54971969	100298591	3821	4412										
MTMR8	55613	broad.mit.edu	37	chrX	63444242	63444242	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tggtgttttaggtagctaatCaacatgggaggaatatccag	12	5	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:63444242C>T	uc011mou.1	-	11	2123	c.2055G>A	c.(2053-2055)TTG>TTA	p.L685L	ASB12_uc004dvp.1_Silent_p.L301L|ASB12_uc004dvq.1_Silent_p.L310L|ASB12_uc004dvr.1_Silent_p.L310L	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	Error:Variant_position_missing_in_Q96EF0_after_alignment						nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						GGTAGCTAATCAACATGGGAG	0.522													24	10	---	---	---	---	PASS	T	63444242	T	T	63444242	2	4	4	1	0	0	0	0	0	0	0	1	9949	825	29	2		2	MTMR8	23	63444242	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	8472273	63444242	91826318	3822	4413										
P2RY4	5030	broad.mit.edu	37	chrX	69478397	69478397	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttacaatctatctgccctagGagtagagcagctactgtcct	8	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:69478397G>A	uc004dxz.1	-	1	1258	c.1078C>T	c.(1078-1080)CCT>TCT	p.P360S		NM_002565	NP_002556	P51582	P2RY4_HUMAN	pyrimidinergic receptor P2Y4	360	Cytoplasmic (Potential).			Missing: Abolishes agonist-induced phosphorylation. Prevents agonist-induced desensitization and loss of cell surface receptors.|Missing: No functional effect.|Missing: No effect on agonist-induced phosphorylation, no functional effect.	activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1						TCTGCCCTAGGAGTAGAGCAG	0.602													14	5	---	---	---	---	PASS	A	69478397	A	A	69478397	3	1	4	1	0	0	0	0	1	0	0	0	11353	1174	41	2	23	2	P2RY4	23	69478397	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	6034155	69478397	85792163	3823	4414										
CDX4	1046	broad.mit.edu	37	chrX	72667453	72667453	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acttgggccctgtgggcggtGgaactagcggcagcagccta	16	11	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:72667453G>A	uc011mqk.1	+	1	364	c.364G>A	c.(364-366)GGA>AGA	p.G122R		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	122						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(35;0.156)					TGTGGGCGGTGGAACTAGCGG	0.677													4	3	---	---	---	---	PASS	A	72667453	A	A	72667453	3	1	4	1	0	0	0	0	1	0	0	0	3184	1349	47	3	366	3	CDX4	23	72667453	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	3189056	72667453	82603107	3824	4415										
KIAA2022	340533	broad.mit.edu	37	chrX	73961213	73961213	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagagtggcggaatttgtcaGgggtgaagttggatatatcc	15	4	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:73961213G>A	uc004eby.2	-	3	3796	c.3179C>T	c.(3178-3180)CCT>CTT	p.P1060L		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1060					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GAATTTGTCAGGGGTGAAGTT	0.502													23	13	---	---	---	---	PASS	A	73961213	A	A	73961213	3	1	4	1	0	0	0	0	1	0	0	0	8269	1000	35	3	1379	3	KIAA2022	23	73961213	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1293760	73961213	81309347	3825	4416										
KIAA2022	340533	broad.mit.edu	37	chrX	73962755	73962755	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tcttctcacctttaaagcgaTtaatgatgatatatttgata	5	6	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:73962755T>A	uc004eby.2	-	3	2254	c.1637A>T	c.(1636-1638)AAT>ATT	p.N546I		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	546					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						TTTAAAGCGATTAATGATGAT	0.408													18	15	---	---	---	---	PASS	A	73962755	A	A	73962755	3	1	4	1	0	0	0	0	1	0	0	0	8269	1493	52	5	2921	5	KIAA2022	23	73962755	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	1542	73962755	81307805	3826	4417										
ZDHHC15	158866	broad.mit.edu	37	chrX	74644526	74644526	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgacaagccaacaatggtAaccaaagagaatcacaaggc	9	10	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:74644526A>C	uc004ecg.2	-	8	1175	c.697T>G	c.(697-699)TAC>GAC	p.Y233D	ZDHHC15_uc004ech.2_Missense_Mutation_p.Y224D|ZDHHC15_uc011mqo.1_RNA	NM_144969	NP_659406	Q96MV8	ZDH15_HUMAN	zinc finger, DHHC-type containing 15 isoform 1	233						integral to membrane	zinc ion binding			ovary(2)	2						CAACAATGGTAACCAAAGAGA	0.393													13	6	---	---	---	---	PASS	C	74644526	C	C	74644526	3	2	4	1	0	0	0	0	1	0	0	0	17602	362	13	5	332	5	ZDHHC15	23	74644526	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	681771	74644526	80626034	3827	4418										
ATP7A	538	broad.mit.edu	37	chrX	77271290	77271290	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gaacttgtacaacgtggagaTatcattaaagtagttccagg	10	6	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:77271290T>A	uc004ecx.3	+	12	2698	c.2538T>A	c.(2536-2538)GAT>GAA	p.D846E		NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	846	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						AACGTGGAGATATCATTAAAG	0.403													36	24	---	---	---	---	PASS	A	77271290	A	A	77271290	3	1	4	1	0	0	0	0	1	0	0	0	1190	1403	49	5	2580	5	ATP7A	23	77271290	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	2626764	77271290	77999270	3828	4419										
LPAR4	2846	broad.mit.edu	37	chrX	78011400	78011400	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctttgaccacaaagccttCccttccagctattcaagagg	6	14	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:78011400C>T	uc010nme.2	+	2	1439	c.1034C>T	c.(1033-1035)TCC>TTC	p.S345F		NM_005296	NP_005287	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	345	Cytoplasmic (Potential).					integral to plasma membrane	lipid binding|purinergic nucleotide receptor activity, G-protein coupled			ovary(3)	3						ACAAAGCCTTCCCTTCCAGCT	0.408													35	19	---	---	---	---	PASS	T	78011400	T	T	78011400	3	4	4	1	0	0	0	0	1	0	0	0	8907	855	30	2	1036	2	LPAR4	23	78011400	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	740110	78011400	77259160	3829	4420										
TBX22	50945	broad.mit.edu	37	chrX	79279581	79279581	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggcggatgttcccctctgttCgggtcaaggtgaaagggttg	16	8	2	1	rs145161769		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:79279581C>T	uc010nmg.1	+	4	510	c.376C>T	c.(376-378)CGG>TGG	p.R126W	TBX22_uc004edi.1_Missense_Mutation_p.R6W|TBX22_uc004edj.1_Missense_Mutation_p.R126W	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	126	T-box.				multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity	p.R126W(1)		lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						CCCCTCTGTTCGGGTCAAGGT	0.488													26	12	---	---	---	---	PASS	T	79279581	T	T	79279581	3	4	4	1	0	0	0	0	1	0	0	0	15655	875	31	2	386	2	TBX22	23	79279581	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1268181	79279581	75990979	3830	4421										
TBX22	50945	broad.mit.edu	37	chrX	79286288	79286288	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatggaagtgcctatgttatCttccctgggggtcaccaatt	11	9	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:79286288C>T	uc010nmg.1	+	9	1375	c.1241C>T	c.(1240-1242)TCT>TTT	p.S414F	TBX22_uc004edi.1_Missense_Mutation_p.S294F|TBX22_uc004edj.1_Missense_Mutation_p.S414F	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	414					multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						CCTATGTTATCTTCCCTGGGG	0.438													40	25	---	---	---	---	PASS	T	79286288	T	T	79286288	3	4	4	1	0	0	0	0	1	0	0	0	15655	913	32	2	1271	2	TBX22	23	79286288	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	6707	79286288	75984272	3831	4422										
SYTL4	94121	broad.mit.edu	37	chrX	99945580	99945580	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cttttctacttgagatttggGagcagacatcttcttccatt	7	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:99945580G>A	uc004egd.3	-	9	1053	c.697C>T	c.(697-699)CCC>TCC	p.P233S	SYTL4_uc010nnb.2_5'UTR|SYTL4_uc010nnc.2_Missense_Mutation_p.P233S|SYTL4_uc004ege.3_Missense_Mutation_p.P233S|SYTL4_uc004egf.3_Missense_Mutation_p.P233S|SYTL4_uc004egg.3_Missense_Mutation_p.P233S	NM_080737	NP_542775	Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	233					exocytosis|intracellular protein transport	extrinsic to membrane|plasma membrane|synaptic vesicle|transport vesicle membrane	neurexin binding|phospholipid binding|Rab GTPase binding|transporter activity|zinc ion binding			ovary(2)	2					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TGAGATTTGGGAGCAGACATC	0.303													8	2	---	---	---	---	PASS	A	99945580	A	A	99945580	3	1	4	1	0	0	0	0	1	0	0	0	15482	1174	41	2	1362	2	SYTL4	23	99945580	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	20659292	99945580	55324980	3832	4423										
XKRX	402415	broad.mit.edu	37	chrX	100170053	100170053	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccataggtgacagataccagGgaaaataccattagcacaac	8	10	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:100170053G>A	uc004egn.2	-	3	1229	c.624C>T	c.(622-624)TCC>TCT	p.S208S	XKRX_uc011mre.1_Silent_p.S4S	NM_212559	NP_997724	Q6PP77	XKR2_HUMAN	XK, Kell blood group complex subunit-related,	208	Helical; (Potential).					integral to membrane|plasma membrane				breast(1)	1						CAGATACCAGGGAAAATACCA	0.403													28	12	---	---	---	---	PASS	A	100170053	A	A	100170053	2	1	4	1	0	0	0	0	0	0	0	1	17436	1219	43	3		3	XKRX	23	100170053	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	224473	100170053	55100507	3833	4424										
ARMCX2	9823	broad.mit.edu	37	chrX	100911283	100911283	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgatcatgtttgcaataattGggaggcctcccaatttgcgg	11	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:100911283G>T	uc004eid.2	-	3	1647	c.1292C>A	c.(1291-1293)CCA>CAA	p.P431Q	ARMCX2_uc004eie.3_Missense_Mutation_p.P431Q|ARMCX2_uc004eif.3_Missense_Mutation_p.P431Q|ARMCX2_uc004eig.3_Missense_Mutation_p.P431Q|ARMCX2_uc010nnt.2_Missense_Mutation_p.P431Q	NM_177949	NP_808818	Q7L311	ARMX2_HUMAN	ALEX2 protein	431	ARM 2.					integral to membrane	binding			ovary(6)	6						TGCAATAATTGGGAGGCCTCC	0.413													4	44	---	---	---	---	PASS	T	100911283	T	T	100911283	3	4	4	1	0	0	0	0	1	0	0	0	960	1348	47	3	610	3	ARMCX2	23	100911283	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	741230	100911283	54359277	3834	4425										
MUM1L1	139221	broad.mit.edu	37	chrX	105450669	105450669	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agtgataaaaagtatcagacGaaaagagaggaaagcaagtg	12	3	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:105450669G>A	uc004emf.1	+	4	1893	c.1244G>A	c.(1243-1245)CGA>CAA	p.R415Q	MUM1L1_uc004emg.1_Missense_Mutation_p.R415Q	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	415	PWWP.									ovary(2)|pancreas(1)|skin(1)	4						AGTATCAGACGAAAAGAGAGG	0.323													19	10	---	---	---	---	PASS	A	105450669	A	A	105450669	3	1	4	1	0	0	0	0	1	0	0	0	9986	1058	37	2	1246	2	MUM1L1	23	105450669	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	4539386	105450669	49819891	3835	4426										
RNF128	79589	broad.mit.edu	37	chrX	105970510	105970510	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggttggccctcatccaacgcGgcgggggctgcaccttcgca	14	15	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:105970510G>A	uc004eml.2	+	1	617	c.367G>A	c.(367-369)GGC>AGC	p.G123S	RNF128_uc004emk.2_Intron	NM_194463	NP_919445	Q8TEB7	RN128_HUMAN	ring finger protein 128 isoform 1	123	PA.					endomembrane system|integral to membrane|perinuclear region of cytoplasm	zinc ion binding			ovary(1)|central_nervous_system(1)	2						CATCCAACGCGGCGGGGGCTG	0.607													18	7	---	---	---	---	PASS	A	105970510	A	A	105970510	3	1	4	1	0	0	0	0	1	0	0	0	13436	1116	39	1	779	1	RNF128	23	105970510	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	519841	105970510	49300050	3836	4427										
COL4A6	1288	broad.mit.edu	37	chrX	107408618	107408618	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	acctcgttctccatctaggcCtggtcgcccggggtcaccag	11	16	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:107408618C>T	uc004enw.3	-	38	3896	c.3793G>A	c.(3793-3795)GGC>AGC	p.G1265S	COL4A6_uc004env.3_Missense_Mutation_p.G1264S|COL4A6_uc011msn.1_Missense_Mutation_p.G1240S|COL4A6_uc010npk.2_Missense_Mutation_p.G1240S|COL4A6_uc010npj.2_5'Flank	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1265	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						CCATCTAGGCCTGGTCGCCCG	0.592									Alport_syndrome_with_Diffuse_Leiomyomatosis				5	54	---	---	---	---	PASS	T	107408618	T	T	107408618	3	4	4	1	0	0	0	0	1	0	0	0	3695	681	24	3	1314	3	COL4A6	23	107408618	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1438108	107408618	47861942	3837	4428										
TMEM164	84187	broad.mit.edu	37	chrX	109414719	109414719	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctggcctcatgttcttttatCacttcagcgtcttgcagatc	7	12	5	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:109414719C>T	uc004eom.2	+	6	977	c.658C>T	c.(658-660)CAC>TAC	p.H220Y	TMEM164_uc004eol.2_Missense_Mutation_p.H71Y|TMEM164_uc010npq.2_Missense_Mutation_p.H181Y	NM_032227	NP_115603	Q5U3C3	TM164_HUMAN	transmembrane protein 164 isoform b	220	Helical; (Potential).					integral to membrane				large_intestine(1)|lung(1)|skin(1)	3						GTTCTTTTATCACTTCAGCGT	0.507													85	31	---	---	---	---	PASS	T	109414719	T	T	109414719	3	4	4	1	0	0	0	0	1	0	0	0	16076	826	29	2	676	2	TMEM164	23	109414719	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2006101	109414719	45855841	3838	4429										
RGAG1	57529	broad.mit.edu	37	chrX	109694723	109694723	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aagcacccaaaactctggggGaatacctaccccgctcatgt	8	14	2	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:109694723G>A	uc004eor.1	+	3	1124	c.878G>A	c.(877-879)GGA>GAA	p.G293E	RGAG1_uc011msr.1_Missense_Mutation_p.G293E	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	293										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						AACTCTGGGGGAATACCTACC	0.483													62	31	---	---	---	---	PASS	A	109694723	A	A	109694723	3	1	4	1	0	0	0	0	1	0	0	0	13274	1174	41	2	880	2	RGAG1	23	109694723	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	280004	109694723	45575837	3839	4430										
RGAG1	57529	broad.mit.edu	37	chrX	109697128	109697128	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctttggagtgatgtccactCcggaaatcaaagccacagac	9	12	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:109697128C>T	uc004eor.1	+	3	3529	c.3283C>T	c.(3283-3285)CCG>TCG	p.P1095S	RGAG1_uc011msr.1_Missense_Mutation_p.P1095S	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	1095										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GATGTCCACTCCGGAAATCAA	0.537													54	23	---	---	---	---	PASS	T	109697128	T	T	109697128	3	4	4	1	0	0	0	0	1	0	0	0	13274	855	30	2	3285	2	RGAG1	23	109697128	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2405	109697128	45573432	3840	4431										
CHRDL1	91851	broad.mit.edu	37	chrX	109931896	109931896	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatacttgcaggggtatcgaTtggggcagtggattttctta	14	5	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:109931896T>C	uc004eou.3	-	9	1263	c.914A>G	c.(913-915)AAT>AGT	p.N305S	CHRDL1_uc004eov.2_Missense_Mutation_p.N299S|CHRDL1_uc004eow.2_Missense_Mutation_p.N304S|CHRDL1_uc010nps.2_Missense_Mutation_p.N304S|CHRDL1_uc004eot.2_Missense_Mutation_p.N225S|CHRDL1_uc011mss.1_Missense_Mutation_p.N219S	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	298	VWFC 3.				BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						GGGGTATCGATTGGGGCAGTG	0.478													49	39	---	---	---	---	PASS	C	109931896	C	C	109931896	3	2	4	1	0	0	0	0	1	0	0	0	3373	1493	52	5	478	5	CHRDL1	23	109931896	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	234768	109931896	45338664	3841	4432										
TRPC5	7224	broad.mit.edu	37	chrX	111155915	111155915	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cggatctggtggggccgtggGatagtgacccgtttttggac	17	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:111155915G>A	uc004epl.1	-	3	1423	c.504C>T	c.(502-504)ATC>ATT	p.I168I	TRPC5_uc004epm.1_Silent_p.I168I	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	168	Cytoplasmic (Potential).|ANK 4.				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						GGGGCCGTGGGATAGTGACCC	0.522													29	14	---	---	---	---	PASS	A	111155915	A	A	111155915	2	1	4	1	0	0	0	0	0	0	0	1	16579	1164	41	2		2	TRPC5	23	111155915	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	1224019	111155915	44114645	3842	4433										
HTR2C	3358	broad.mit.edu	37	chrX	114141439	114141439	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggaagagaactctgcaaacCctaaccaagaccagaacgca	8	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:114141439C>T	uc004epu.1	+	6	1566	c.838C>T	c.(838-840)CCT>TCT	p.P280S	HTR2C_uc010nqc.1_Missense_Mutation_p.P280S|HTR2C_uc004epv.1_Missense_Mutation_p.P248L	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	280	Cytoplasmic (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	CTCTGCAAACCCTAACCAAGA	0.517													56	20	---	---	---	---	PASS	T	114141439	T	T	114141439	3	4	4	1	0	0	0	0	1	0	0	0	7443	623	22	3	852	3	HTR2C	23	114141439	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2985524	114141439	41129121	3843	4434										
THOC2	57187	broad.mit.edu	37	chrX	122747266	122747266	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttacctttttgccaccggagGagattttatccatcttctca	6	11	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:122747266G>A	uc004etu.2	-	36	4693	c.4661C>T	c.(4660-4662)TCC>TTC	p.S1554F	THOC2_uc004etv.3_5'Flank|THOC2_uc010nqt.1_RNA|THOC2_uc004etw.1_Missense_Mutation_p.S375F	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1554	Lys-rich.				intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						GCCACCGGAGGAGATTTTATC	0.289													11	8	---	---	---	---	PASS	A	122747266	A	A	122747266	3	1	4	1	0	0	0	0	1	0	0	0	15862	1174	41	2	132	2	THOC2	23	122747266	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	8605827	122747266	32523294	3844	4435										
ODZ1	10178	broad.mit.edu	37	chrX	123518520	123518520	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaatcgtaattaattacactGaattttccaaactgctctgt	4	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:123518520G>A	uc004euj.2	-	29	6304	c.6240C>T	c.(6238-6240)TTC>TTT	p.F2080F	ODZ1_uc011muj.1_Silent_p.F2086F|ODZ1_uc010nqy.2_Silent_p.F2087F	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2080	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TAATTACACTGAATTTTCCAA	0.378													32	14	---	---	---	---	PASS	A	123518520	A	A	123518520	2	1	4	1	0	0	0	0	0	0	0	1	10834	1281	45	2		2	ODZ1	23	123518520	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	771254	123518520	31752040	3845	4436										
ODZ1	10178	broad.mit.edu	37	chrX	123805542	123805542	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatcactgtaccttttttctCtgatttatcagaaacttttc	4	9	3	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:123805542C>T	uc004euj.2	-	6	1223	c.1159G>A	c.(1159-1161)GAG>AAG	p.E387K	ODZ1_uc011muj.1_Missense_Mutation_p.E386K|ODZ1_uc010nqy.2_Missense_Mutation_p.E387K	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	387	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CCTTTTTTCTCTGATTTATCA	0.383													37	22	---	---	---	---	PASS	T	123805542	T	T	123805542	3	4	4	1	0	0	0	0	1	0	0	0	10834	922	32	2	7147	2	ODZ1	23	123805542	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	287022	123805542	31465018	3846	4437										
OCRL	4952	broad.mit.edu	37	chrX	128710350	128710350	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaaagactctgtaaccatcCtgaactcgggagaagataag	10	9	1	4			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:128710350C>T	uc004euq.2	+	18	2101	c.1936C>T	c.(1936-1938)CTG>TTG	p.L646L	OCRL_uc004eur.2_Silent_p.L646L	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	646					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TGTAACCATCCTGAACTCGGG	0.408													23	20	---	---	---	---	PASS	T	128710350	T	T	128710350	2	4	4	1	0	0	0	0	0	0	0	1	10823	680	24	3		3	OCRL	23	128710350	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	4904808	128710350	26560210	3847	4438										
UTP14A	10813	broad.mit.edu	37	chrX	129053249	129053249	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	cctgtggaaaaggcctctctCcgagccatgagcctagaaga	11	12	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:129053249C>T	uc004euz.2	+	7	664	c.636C>T	c.(634-636)CTC>CTT	p.L212L	UTP14A_uc011mup.1_Silent_p.L160L|UTP14A_uc011muq.1_Silent_p.L158L|UTP14A_uc004eva.1_5'Flank	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	212					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						AGGCCTCTCTCCGAGCCATGA	0.542													48	17	---	---	---	---	PASS	T	129053249	T	T	129053249	2	4	4	1	0	0	0	0	0	0	0	1	17092	842	30	2		2	UTP14A	23	129053249	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	342899	129053249	26217311	3848	4439										
ARHGAP36	158763	broad.mit.edu	37	chrX	130220569	130220569	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atggaagaggatgcactactTtctgatccagtggaaacctc	10	9	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:130220569T>A	uc004evz.2	+	11	1761	c.1416T>A	c.(1414-1416)CTT>CTA	p.L472L	ARHGAP36_uc004ewa.2_Silent_p.L460L|ARHGAP36_uc004ewb.2_Silent_p.L441L|ARHGAP36_uc004ewc.2_Silent_p.L336L	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	472					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity	p.L472I(1)		ovary(3)	3						ATGCACTACTTTCTGATCCAG	0.473													41	18	---	---	---	---	PASS	A	130220569	A	A	130220569	2	1	4	1	0	0	0	0	0	0	0	1	883	1828	64	5		5	ARHGAP36	23	130220569	Silent	SNP	T	TCGA-18-3409-01A-01D-0983-08	1167320	130220569	25049991	3849	4440										
IGSF1	3547	broad.mit.edu	37	chrX	130416678	130416678	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccatttggaccacagcactgGgccgagcaagtagccaggtc	12	13	0	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:130416678G>A	uc004ewd.2	-	7	1224	c.986C>T	c.(985-987)CCC>CTC	p.P329L	IGSF1_uc004ewe.3_Missense_Mutation_p.P318L|IGSF1_uc004ewf.2_Missense_Mutation_p.P309L	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	329	Ig-like C2-type 4.|Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						CACAGCACTGGGCCGAGCAAG	0.493													24	11	---	---	---	---	PASS	A	130416678	A	A	130416678	3	1	4	1	0	0	0	0	1	0	0	0	7596	1232	43	3	3095	3	IGSF1	23	130416678	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	196109	130416678	24853882	3850	4441										
USP26	83844	broad.mit.edu	37	chrX	132159856	132159856	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tatctaaaatgtctttgtttCttggattcttattggaaccc	6	7	4	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:132159856C>T	uc010nrm.1	-	6	2863	c.2393G>A	c.(2392-2394)AGA>AAA	p.R798K	USP26_uc011mvf.1_Missense_Mutation_p.R798K	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	798					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					GTCTTTGTTTCTTGGATTCTT	0.383													37	25	---	---	---	---	PASS	T	132159856	T	T	132159856	3	4	4	1	0	0	0	0	1	0	0	0	17054	913	32	2	351	2	USP26	23	132159856	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1743178	132159856	23110704	3851	4442										
CD40LG	959	broad.mit.edu	37	chrX	135741238	135741238	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggatactacaccatgagcaaCaacttggtaaccctggaaaa	8	10	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:135741238C>G	uc004faa.2	+	5	522	c.450C>G	c.(448-450)AAC>AAG	p.N150K	CD40LG_uc010nsd.2_Missense_Mutation_p.N129K	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	150	Extracellular (Potential).				anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	CCATGAGCAACAACTTGGTAA	0.433									Immune_Deficiency_with_Hyper-IgM				121	88	---	---	---	---	PASS	G	135741238	G	G	135741238	3	3	4	1	0	0	0	0	1	0	0	0	3016	477	17	4	468	4	CD40LG	23	135741238	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	3581382	135741238	19529322	3852	4443										
CD40LG	959	broad.mit.edu	37	chrX	135741253	135741253	+	Silent	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agcaacaacttggtaaccctGgaaaatgggaaacagctgac							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:135741253G>A	uc004faa.2	+	5	537	c.465G>A	c.(463-465)CTG>CTA	p.L155L	CD40LG_uc010nsd.2_Silent_p.L134L	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	155	Extracellular (Potential).		L -> P (in HIGM1).		anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	TGGTAACCCTGGAAAATGGGA	0.443									Immune_Deficiency_with_Hyper-IgM				132	88	---	---	---	---	PASS	A	135741253	A	A	135741253	2	1	4	1	0	0	0	0	0	0	0	1	3016	1335	47	3		3	CD40LG	23	135741253	Silent	SNP	G	TCGA-18-3409-01A-01D-0983-08	15	135741253	19529307	3853	4444	199	2								
CD40LG	959	broad.mit.edu	37	chrX	135741254	135741254	+	Missense_Mutation	SNP	G	A	A													0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gcaacaacttggtaaccctgGaaaatgggaaacagctgacc							TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:135741254G>A	uc004faa.2	+	5	538	c.466G>A	c.(466-468)GAA>AAA	p.E156K	CD40LG_uc010nsd.2_Missense_Mutation_p.E135K	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	156	Extracellular (Potential).				anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	GGTAACCCTGGAAAATGGGAA	0.443									Immune_Deficiency_with_Hyper-IgM				131	88	---	---	---	---	PASS	A	135741254	A	A	135741254	3	1	4	1	0	0	0	0	1	0	0	0	3016	1175	41	2	484	2	CD40LG	23	135741254	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	1	135741254	19529306	3854	4445	199	2								
MCF2	4168	broad.mit.edu	37	chrX	138699718	138699718	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtcctgctgagttgtatcCgttttgcttttatctcatta	8	8	1	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:138699718C>T	uc004fau.2	-	8	1247	c.953G>A	c.(952-954)CGG>CAG	p.R318Q	MCF2_uc004fav.2_Missense_Mutation_p.R318Q|MCF2_uc011mwl.1_Missense_Mutation_p.R279Q|MCF2_uc010nsh.1_Missense_Mutation_p.R318Q|MCF2_uc011mwm.1_Missense_Mutation_p.R279Q|MCF2_uc011mwn.1_Missense_Mutation_p.R463Q|MCF2_uc004faw.2_Missense_Mutation_p.R378Q|MCF2_uc011mwo.1_Missense_Mutation_p.R378Q	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	318	Spectrin.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					GAGTTGTATCCGTTTTGCTTT	0.383													57	16	---	---	---	---	PASS	T	138699718	T	T	138699718	3	4	4	1	0	0	0	0	1	0	0	0	9378	652	23	1	1976	1	MCF2	23	138699718	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	2958464	138699718	16570842	3855	4446										
MAGEC3	139081	broad.mit.edu	37	chrX	140985241	140985241	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gggcagctgtgtccccgaggAggtcatctgggaagtgttga	17	8	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:140985241A>C	uc011mwp.1	+	7	1697	c.1697A>C	c.(1696-1698)GAG>GCG	p.E566A	MAGEC3_uc004fbs.2_Missense_Mutation_p.E268A|MAGEC3_uc010nsj.2_Missense_Mutation_p.E268A	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	566	MAGE 2.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GTCCCCGAGGAGGTCATCTGG	0.498													40	22	---	---	---	---	PASS	C	140985241	C	C	140985241	3	2	4	1	0	0	0	0	1	0	0	0	9182	304	11	5	1952	5	MAGEC3	23	140985241	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	2285523	140985241	14285319	3856	4447										
MAGEC1	9947	broad.mit.edu	37	chrX	140995733	140995733	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tctttccaagagttcccctgAgagtcctctccagagtcctg	8	14	2	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:140995733A>G	uc004fbt.2	+	4	2829	c.2543A>G	c.(2542-2544)GAG>GGG	p.E848G	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	848							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AGTTCCCCTGAGAGTCCTCTC	0.522										HNSCC(15;0.026)			61	19	---	---	---	---	PASS	G	140995733	G	G	140995733	3	3	4	1	0	0	0	0	1	0	0	0	9180	304	11	5	2549	5	MAGEC1	23	140995733	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	10492	140995733	14274827	3857	4448										
SPANXN3	139067	broad.mit.edu	37	chrX	142596772	142596772	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ttcacatgggcctaggtcttCatcctcatttgaagatcctt	7	11	4	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:142596772C>T	uc004fbw.2	-	2	386	c.298G>A	c.(298-300)GAA>AAA	p.E100K		NM_001009609	NP_001009609	Q5MJ09	SPXN3_HUMAN	SPANX-N3 protein	100										ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CCTAGGTCTTCATCCTCATTT	0.463													35	14	---	---	---	---	PASS	T	142596772	T	T	142596772	3	4	4	1	0	0	0	0	1	0	0	0	14992	835	29	2	131	2	SPANXN3	23	142596772	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	1601039	142596772	12673788	3858	4449										
SPANXN1	494118	broad.mit.edu	37	chrX	144337190	144337190	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctctccctgttttcttaacaGatgcaggagacaccaaacag	7	12	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:144337190G>A	uc004fcb.2	+	2	76	c.76_splice	c.e2-1	p.M26_splice		NM_001009614	NP_001009614	Q5VSR9	SPXN1_HUMAN	SPANX-N1 protein												0	Acute lymphoblastic leukemia(192;6.56e-05)					TTTCTTAACAGATGCAGGAGA	0.443													22	14	---	---	---	---	PASS	A	144337190	A	A	144337190	5	1	4	1	0	0	0	0	0	0	1	0	14990	956	33	2	81	2	SPANXN1	23	144337190	Splice_Site	SNP	G	TCGA-18-3409-01A-01D-0983-08	1740418	144337190	10933370	3859	4450										
SLITRK2	84631	broad.mit.edu	37	chrX	144904756	144904756	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agaaaaagtgccagtgattcCagtcagaggggcagccatgc	13	9	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:144904756C>T	uc004fcd.2	+	5	1803	c.813C>T	c.(811-813)TCC>TCT	p.S271S	SLITRK2_uc010nsp.2_Silent_p.S271S|SLITRK2_uc010nso.2_Silent_p.S271S|SLITRK2_uc011mwq.1_Silent_p.S271S|SLITRK2_uc011mwr.1_Silent_p.S271S|SLITRK2_uc011mws.1_Silent_p.S271S|SLITRK2_uc004fcg.2_Silent_p.S271S|SLITRK2_uc011mwt.1_Silent_p.S271S	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	271	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					CCAGTGATTCCAGTCAGAGGG	0.567													29	26	---	---	---	---	PASS	T	144904756	T	T	144904756	2	4	4	1	0	0	0	0	0	0	0	1	14743	581	21	3		3	SLITRK2	23	144904756	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	567566	144904756	10365804	3860	4451										
GPR50	9248	broad.mit.edu	37	chrX	150349046	150349046	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gtgatattcgtgagatgcagGaggcccgtaccctggcccgc	14	12	0	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:150349046G>A	uc010ntg.1	+	2	1126	c.991G>A	c.(991-993)GAG>AAG	p.E331K	uc004fes.1_5'Flank|GPR50_uc011myc.1_3'UTR	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	331	Cytoplasmic (Potential).|Pro-rich.				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TGAGATGCAGGAGGCCCGTAC	0.557													39	16	---	---	---	---	PASS	A	150349046	A	A	150349046	3	1	4	1	0	0	0	0	1	0	0	0	6697	1175	41	2	997	2	GPR50	23	150349046	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	5444290	150349046	4921514	3861	4452										
ZNF275	10838	broad.mit.edu	37	chrX	152612881	152612881	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aaggcgtgcagcagggatttCctggatcgccaggagcttct	14	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:152612881C>T	uc004fhg.1	+	4	915	c.738C>T	c.(736-738)TTC>TTT	p.F246F	ZNF275_uc011mym.1_Silent_p.F246F|ZNF275_uc011myn.1_Silent_p.F183F			A6NFS0	A6NFS0_HUMAN	SubName: Full=cDNA FLJ16723 fis, clone UTERU3004418, highly similar to Zinc finger protein 275; SubName: Full=Putative uncharacterized protein ZNF275;	246						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCAGGGATTTCCTGGATCGCC	0.592													27	13	---	---	---	---	PASS	T	152612881	T	T	152612881	2	4	4	1	0	0	0	0	0	0	0	1	17807	854	30	2		2	ZNF275	23	152612881	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	2263835	152612881	2657679	3862	4453										
FLNA	2316	broad.mit.edu	37	chrX	153577261	153577261	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctgcctgggatgtgctcgtCcccccatttgaccaccagtg	11	15	0	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:153577261C>T	uc004fkk.2	-	48	8149	c.7900G>A	c.(7900-7902)GAC>AAC	p.D2634N	FLNA_uc004fki.2_Missense_Mutation_p.D674N|FLNA_uc011mzn.1_Missense_Mutation_p.D767N|FLNA_uc010nuu.1_Missense_Mutation_p.D2626N	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2634	Self-association site, tail.|Filamin 24.			D -> H (in Ref. 2; CAA37495).	actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ATGTGCTCGTCCCCCCATTTG	0.667													17	7	---	---	---	---	PASS	T	153577261	T	T	153577261	3	4	4	1	0	0	0	0	1	0	0	0	5933	855	30	2	47	2	FLNA	23	153577261	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	964380	153577261	1693299	3863	4454										
FLNA	2316	broad.mit.edu	37	chrX	153587670	153587670	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	tgtaggtgccagcctcataaGggatgtactcgaccgagcag	13	10	1	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:153587670G>A	uc004fkk.2	-	25	4496	c.4247C>T	c.(4246-4248)CCT>CTT	p.P1416L	FLNA_uc011mzn.1_5'Flank|FLNA_uc010nuu.1_Missense_Mutation_p.P1416L	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1416	Filamin 12.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AGCCTCATAAGGGATGTACTC	0.642													19	10	---	---	---	---	PASS	A	153587670	A	A	153587670	3	1	4	1	0	0	0	0	1	0	0	0	5933	1000	35	3	3792	3	FLNA	23	153587670	Missense_Mutation	SNP	G	TCGA-18-3409-01A-01D-0983-08	10409	153587670	1682890	3864	4455										
TAZ	6901	broad.mit.edu	37	chrX	153648062	153648062	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	agggaaagtgaacatgagttCcgaattcctgcgtttcaagt	11	7	1	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:153648062C>T	uc004fkx.2	+	7	864	c.560C>T	c.(559-561)TCC>TTC	p.S187F	TAZ_uc004fky.2_Intron|TAZ_uc004fkz.2_RNA|TAZ_uc004fla.2_Missense_Mutation_p.S157F|TAZ_uc004flb.2_Intron|TAZ_uc010nuy.2_Intron|TAZ_uc004flc.3_Intron	NM_000116	NP_000107	Q16635	TAZ_HUMAN	tafazzin isoform 1	187	Hydrophilic.				cardiac muscle contraction|cardiac muscle tissue development|cardiolipin biosynthetic process|cristae formation|hemopoiesis|mitochondrial ATP synthesis coupled electron transport|mitochondrial respiratory chain complex I assembly|skeletal muscle tissue development	integral to membrane|mitochondrion	1-acylglycerophosphocholine O-acyltransferase activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AACATGAGTTCCGAATTCCTG	0.652													16	9	---	---	---	---	PASS	T	153648062	T	T	153648062	3	4	4	1	0	0	0	0	1	0	0	0	15593	855	30	2	586	2	TAZ	23	153648062	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	60392	153648062	1622498	3865	4456										
GDI1	2664	broad.mit.edu	37	chrX	153668416	153668416	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ccagcatgcgtgacgtctacCggaagtttgatctgggccag	13	11	2	2			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:153668416C>A	uc004fli.3	+	5	859	c.517C>A	c.(517-519)CGG>AGG	p.R173R	GDI1_uc011mzo.1_Silent_p.R173R|GDI1_uc004flj.2_5'Flank	NM_001493	NP_001484	P31150	GDIA_HUMAN	GDP dissociation inhibitor 1	173					protein transport|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|midbody	GTPase activator activity|protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGACGTCTACCGGAAGTTTGA	0.577													5	180	---	---	---	---	PASS	A	153668416	A	A	153668416	2	1	4	1	0	0	0	0	0	0	0	1	6320	643	23	1		1	GDI1	23	153668416	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	20354	153668416	1602144	3866	4457										
GDI1	2664	broad.mit.edu	37	chrX	153668445	153668445	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gatctgggccaggatgtcatCgatttcactggccatgccct	11	12	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:153668445C>T	uc004fli.3	+	5	888	c.546C>T	c.(544-546)ATC>ATT	p.I182I	GDI1_uc011mzo.1_Silent_p.I182I|GDI1_uc004flj.2_5'Flank	NM_001493	NP_001484	P31150	GDIA_HUMAN	GDP dissociation inhibitor 1	182					protein transport|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|midbody	GTPase activator activity|protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AGGATGTCATCGATTTCACTG	0.617													95	53	---	---	---	---	PASS	T	153668445	T	T	153668445	2	4	4	1	0	0	0	0	0	0	0	1	6320	874	31	2		2	GDI1	23	153668445	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	29	153668445	1602115	3867	4458										
RAB39B	116442	broad.mit.edu	37	chrX	154490470	154490470	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ggttggtaatgtcaaataagAgaagaccacctactgagttc	10	7	1	3			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:154490470A>C	uc004fne.2	-	2	539	c.260T>G	c.(259-261)CTC>CGC	p.L87R		NM_171998	NP_741995	Q96DA2	RB39B_HUMAN	RAB39B, member RAS oncogene family	87					protein transport|small GTPase mediated signal transduction|synapse organization|vesicle-mediated transport	Golgi apparatus|plasma membrane	GTP binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GTCAAATAAGAGAAGACCACC	0.438													90	50	---	---	---	---	PASS	C	154490470	C	C	154490470	3	2	4	1	0	0	0	0	1	0	0	0	12930	304	11	5	385	5	RAB39B	23	154490470	Missense_Mutation	SNP	A	TCGA-18-3409-01A-01D-0983-08	822025	154490470	780090	3868	4459										
SPRY3	10251	broad.mit.edu	37	chrX	155004226	155004226	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	atgagcctcatctccctcttCctaccctgcctgtgctgcta	6	17	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:155004226C>T	uc004fnq.1	+	2	1147	c.693C>T	c.(691-693)TTC>TTT	p.F231F	SPRY3_uc010nvl.1_Silent_p.F132F	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	231	SPR.|Cys-rich.				multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TCTCCCTCTTCCTACCCTGCC	0.597													31	97	---	---	---	---	PASS	T	155004226	T	T	155004226	2	4	4	1	0	0	0	0	0	0	0	1	15106	854	30	2		2	SPRY3	23	155004226	Silent	SNP	C	TCGA-18-3409-01A-01D-0983-08	513756	155004226	266334	3869	4460										
IL9R	3581	broad.mit.edu	37	chrX	155233218	155233218	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	gctccagcccctggctcctcTtcaccaggtgagcatggagg	12	15	2	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrX:155233218T>C	uc004fnv.1	+	3	426	c.247T>C	c.(247-249)TTC>CTC	p.F83L	IL9R_uc010nvn.2_Missense_Mutation_p.F62L|IL9R_uc004fnu.1_Missense_Mutation_p.F130L	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor	83	Extracellular (Potential).				cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CTGGCTCCTCTTCACCAGGTG	0.597													9	19	---	---	---	---	PASS	C	155233218	C	C	155233218	3	2	4	1	0	0	0	0	1	0	0	0	7708	1609	56	5	257	5	IL9R	23	155233218	Missense_Mutation	SNP	T	TCGA-18-3409-01A-01D-0983-08	228992	155233218	37342	3870	4461										
TBL1Y	90665	broad.mit.edu	37	chrY	6893165	6893165	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	aggtgaactttctggtttatCggtatctccaggagtcaggt	12	7	3	1			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrY:6893165C>T	uc004frb.2	+	6	687	c.40C>T	c.(40-42)CGG>TGG	p.R14W	TBL1Y_uc004frc.2_Missense_Mutation_p.R14W|TBL1Y_uc004frd.2_Missense_Mutation_p.R14W|TBL1Y_uc011nap.1_Intron	NM_033284	NP_150600	Q9BQ87	TBL1Y_HUMAN	transducin beta-like 1Y	14	LisH.				transcription, DNA-dependent						0						TCTGGTTTATCGGTATCTCCA	0.448													23	14	---	---	---	---	PASS	T	6893165	T	T	6893165	3	4	4	1	0	0	0	0	1	0	0	0	15638	875	31	2	42	2	TBL1Y	24	6893165	Missense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08		6893165	52480401	3871	4462										
KDM5D	8284	broad.mit.edu	37	chrY	21868707	21868707	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.152925170068027	562	6.98844502045414e-14	1.37906211597246	0.678600284177973	1.38674415002006	1.41740141587041e-299	2.50880050609063e-297	154	ctttcctggagccatgttctCaggactggtcacactgtctc	9	13	3	0			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa733cb0-37a9-4fef-8d40-d57596ce9e51	c56da82c-b77a-44ef-a4c0-85de66f118cc	g.chrY:21868707C>A	uc004fug.2	-	25	4330	c.4042G>T	c.(4042-4044)GAG>TAG	p.E1348*	KDM5D_uc011naz.1_Nonsense_Mutation_p.E1379*|KDM5D_uc010nwy.2_Nonsense_Mutation_p.E1291*|KDM5D_uc004fuf.2_Nonsense_Mutation_p.E523*	NM_004653	NP_004644	Q9BY66	KDM5D_HUMAN	jumonji, AT rich interactive domain 1D isoform	1348					chromatin modification|spermatogenesis	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1					Vitamin C(DB00126)	GCCATGTTCTCAGGACTGGTC	0.468													21	6	---	---	---	---	PASS	A	21868707	A	A	21868707	4	1	4	1	0	0	0	0	0	1	0	0	8136	835	29	2	589	2	KDM5D	24	21868707	Nonsense_Mutation	SNP	C	TCGA-18-3409-01A-01D-0983-08	14975542	21868707	37504859	3872	4463										
MIB2	142678	broad.mit.edu	37	chr1	1562240	1562240	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctgggccgcgtcgggaaggtGgtgaaagtgtttggagacgg	20	6	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:1562240G>T	uc001agg.2	+	10	1402	c.1275G>T	c.(1273-1275)GTG>GTT	p.V425V	MIB2_uc001agh.2_Silent_p.V411V|MIB2_uc001agi.2_Silent_p.V421V|MIB2_uc001agj.2_Silent_p.V266V|MIB2_uc001agk.2_Silent_p.V360V|MIB2_uc001agl.1_Silent_p.V381V|MIB2_uc001agm.2_Silent_p.V302V|MIB2_uc010nyq.1_Silent_p.V381V|MIB2_uc009vkh.2_Silent_p.V231V|MIB2_uc001agn.2_Silent_p.V57V|MIB2_uc001ago.2_5'Flank	NM_080875	NP_543151	Q96AX9	MIB2_HUMAN	mindbomb homolog 2	425					Notch signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade	endosome	actin binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;5.26e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.54e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|BRCA - Breast invasive adenocarcinoma(365;0.00786)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		TCGGGAAGGTGGTGAAAGTGT	0.711													3	6	---	---	---	---	PASS	T	1562240	T	T	1562240	2	4	5	1	0	0	0	0	0	0	0	1	9567	1335	47	3		3	MIB2	1	1562240	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08		1562240	247688381	1	4464										
ARHGEF16	27237	broad.mit.edu	37	chr1	3389665	3389665	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cttcgaggacctggagcagcGgcacaaggcccaggtgctgg	16	12	0	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:3389665G>A	uc001akg.3	+	7	1294	c.1046G>A	c.(1045-1047)CGG>CAG	p.R349Q	ARHGEF16_uc001aki.2_Missense_Mutation_p.R61Q|ARHGEF16_uc001akj.2_Missense_Mutation_p.R61Q|ARHGEF16_uc009vli.1_Missense_Mutation_p.R53Q|ARHGEF16_uc010nzh.1_Missense_Mutation_p.R53Q	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	349	DH.|Required for RHOG activation and mediates interaction with EPHA2.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		CTGGAGCAGCGGCACAAGGCC	0.627													20	11	---	---	---	---	PASS	A	3389665	A	A	3389665	3	1	5	1	0	0	0	0	1	0	0	0	899	1116	39	1	1068	1	ARHGEF16	1	3389665	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	1827425	3389665	245860956	2	4465										
TAS1R1	80835	broad.mit.edu	37	chr1	6636553	6636553	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atgacaacagagatcccctcAgtagctataacataattgcc	6	11	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:6636553A>T	uc001ant.2	+	4	1339	c.1339A>T	c.(1339-1341)AGT>TGT	p.S447C	TAS1R1_uc001anu.2_Missense_Mutation_p.S193C|TAS1R1_uc001anv.2_Missense_Mutation_p.S193C|TAS1R1_uc001anw.2_Intron	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	447	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)		AGATCCCCTCAGTAGCTATAA	0.468													46	74	---	---	---	---	PASS	T	6636553	T	T	6636553	3	4	5	1	0	0	0	0	1	0	0	0	15559	188	7	5	1353	5	TAS1R1	1	6636553	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	3246888	6636553	242614068	3	4466										
SLC45A1	50651	broad.mit.edu	37	chr1	8398050	8398050	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cttcagtgctgccttctactCaggtacccgctgccagccag	9	16	3	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:8398050C>G	uc001apb.2	+	6	1772	c.1772C>G	c.(1771-1773)TCA>TGA	p.S591*	SLC45A1_uc001apc.2_Nonsense_Mutation_p.S289*	NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	591	Helical; (Potential).				carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		GCCTTCTACTCAGGTACCCGC	0.577													5	26	---	---	---	---	PASS	G	8398050	G	G	8398050	4	3	5	1	0	0	0	0	0	1	0	0	14640	838	29	2	1794	2	SLC45A1	1	8398050	Nonsense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1761497	8398050	240852571	4	4467										
GRHL3	57822	broad.mit.edu	37	chr1	24663009	24663009	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aatatgagacggacctcactCcccttgaaagccccacacac	6	16	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:24663009C>A	uc001biy.2	+	4	365	c.319C>A	c.(319-321)CCC>ACC	p.P107T	GRHL3_uc001bix.2_Missense_Mutation_p.P102T|GRHL3_uc001biz.2_Missense_Mutation_p.P9T	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	102					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		GGACCTCACTCCCCTTGAAAG	0.502													21	82	---	---	---	---	PASS	A	24663009	A	A	24663009	3	1	5	1	0	0	0	0	1	0	0	0	6765	855	30	2	354	2	GRHL3	1	24663009	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	16264959	24663009	224587612	5	4468										
BSDC1	55108	broad.mit.edu	37	chr1	32841982	32841982	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tggctggaggcctgggctctGggccgccggtgtggccagca	19	12	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:32841982G>A	uc001bvh.3	-	9	1084	c.1037C>T	c.(1036-1038)CCA>CTA	p.P346L	BSDC1_uc010ohg.1_Missense_Mutation_p.P363L|BSDC1_uc010ohh.1_Missense_Mutation_p.P290L|BSDC1_uc010ohi.1_Missense_Mutation_p.P251L|BSDC1_uc001bvg.3_RNA|BSDC1_uc001bvj.2_Missense_Mutation_p.P242L|BSDC1_uc001bvi.2_Missense_Mutation_p.P363L	NM_018045	NP_060515	Q9NW68	BSDC1_HUMAN	BSD domain containing 1 isoform b	346							protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CCTGGGCTCTGGGCCGCCGGT	0.622													11	29	---	---	---	---	PASS	A	32841982	A	A	32841982	3	1	5	1	0	0	0	0	1	0	0	0	1528	1348	47	3	267	3	BSDC1	1	32841982	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	8178973	32841982	216408639	6	4469										
SNIP1	79753	broad.mit.edu	37	chr1	38003387	38003387	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttcctcctcctcctcatcctCgtcatctttcctgtctattt	2	17	4	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:38003387C>A	uc001cbi.2	-	4	1226	c.1153G>T	c.(1153-1155)GAG>TAG	p.E385*	SNIP1_uc010oid.1_RNA	NM_024700	NP_078976	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein	385	Poly-Glu.				production of miRNAs involved in gene silencing by miRNA	nucleus	protein binding			upper_aerodigestive_tract(1)|lung(1)	2		Myeloproliferative disorder(586;0.0393)				TCCTCATCCTCGTCATCTTTC	0.423													5	86	---	---	---	---	PASS	A	38003387	A	A	38003387	4	1	5	1	0	0	0	0	0	1	0	0	14848	893	31	2	41	2	SNIP1	1	38003387	Nonsense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	5161405	38003387	211247234	7	4470										
STIL	6491	broad.mit.edu	37	chr1	47717492	47717492	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atagcatttgcctccatgctCaaatccacaccattggggct	7	13	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:47717492C>G	uc001crc.1	-	17	3335	c.3180G>C	c.(3178-3180)TTG>TTC	p.L1060F	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Missense_Mutation_p.L1014F|STIL_uc010omo.1_Missense_Mutation_p.L1043F|STIL_uc001crd.1_Missense_Mutation_p.L1061F|STIL_uc001cre.1_Missense_Mutation_p.L1060F	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	1060					cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				CCTCCATGCTCAAATCCACAC	0.428													15	63	---	---	---	---	PASS	G	47717492	G	G	47717492	3	3	5	1	0	0	0	0	1	0	0	0	15281	825	29	2	687	2	STIL	1	47717492	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	9714105	47717492	201533129	8	4471										
CMPK1	51727	broad.mit.edu	37	chr1	47838719	47838719	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gacaaccttcaaggatggaaCaagaccatggatgggaaggc	13	8	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:47838719C>G	uc001cri.2	+	3	560	c.411C>G	c.(409-411)AAC>AAG	p.N137K	CMPK1_uc010omp.1_Missense_Mutation_p.N88K|CMPK1_uc010omq.1_RNA	NM_016308	NP_057392	P30085	KCY_HUMAN	UMP-CMP kinase 1 isoform a	105					nucleobase, nucleoside and nucleotide interconversion	cytosol|nucleus	ATP binding|cytidylate kinase activity|nucleoside phosphate kinase activity|uridine kinase activity			ovary(1)	1					Gemcitabine(DB00441)	AAGGATGGAACAAGACCATGG	0.388													25	28	---	---	---	---	PASS	G	47838719	G	G	47838719	3	3	5	1	0	0	0	0	1	0	0	0	3580	477	17	4	421	4	CMPK1	1	47838719	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	121227	47838719	201411902	9	4472										
ZFYVE9	9372	broad.mit.edu	37	chr1	52803487	52803487	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gcagagaacatggattccttGaggcaggcactgcgagagat	14	8	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:52803487G>C	uc001cto.2	+	16	3886	c.3714G>C	c.(3712-3714)TTG>TTC	p.L1238F	ZFYVE9_uc001ctp.2_Missense_Mutation_p.L1179F	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	1238					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						TGGATTCCTTGAGGCAGGCAC	0.517													3	44	---	---	---	---	PASS	C	52803487	C	C	52803487	3	2	5	1	0	0	0	0	1	0	0	0	17668	1281	45	2	3779	2	ZFYVE9	1	52803487	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	4964768	52803487	196447134	10	4473										
CDCP2	200008	broad.mit.edu	37	chr1	54610191	54610191	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gccacatgcttgtccgagtgGaagatgacagacatgacatg	12	9	0	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:54610191G>C	uc001cwv.1	-	2	1223	c.375C>G	c.(373-375)TTC>TTG	p.F125L		NM_201546	NP_963840	Q5VXM1	CDCP2_HUMAN	CUB domain containing protein 2 precursor	125	CUB 1.					extracellular region				ovary(1)	1						TGTCCGAGTGGAAGATGACAG	0.552													8	27	---	---	---	---	PASS	C	54610191	C	C	54610191	3	2	5	1	0	0	0	0	1	0	0	0	3094	1165	41	2	986	2	CDCP2	1	54610191	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	1806704	54610191	194640430	11	4474										
PTGFR	5737	broad.mit.edu	37	chr1	78958457	78958457	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gaacaattccaaacagctagTgtctcctgcagctgcgcttc	8	13	1	0	rs115647706	byFrequency	TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:78958457T>A	uc001din.2	+	2	295	c.29T>A	c.(28-30)GTG>GAG	p.V10E	PTGFR_uc001dim.2_Missense_Mutation_p.V10E	NM_000959	NP_000950	P43088	PF2R_HUMAN	prostaglandin F receptor isoform a precursor	10	Extracellular (Potential).				parturition	extracellular region|integral to plasma membrane	prostaglandin F receptor activity			ovary(3)|breast(2)|skin(1)	6				Colorectal(170;0.248)	Bimatoprost(DB00905)|Latanoprost(DB00654)|Travoprost(DB00287)	AAACAGCTAGTGTCTCCTGCA	0.448													7	29	---	---	---	---	PASS	A	78958457	A	A	78958457	3	1	5	1	0	0	0	0	1	0	0	0	12749	1696	59	5	31	5	PTGFR	1	78958457	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	24348266	78958457	170292164	12	4475										
WDR63	126820	broad.mit.edu	37	chr1	85573813	85573813	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttgaaattccttttgatgtaCcatctacttttttgcatctg	5	8	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:85573813C>G	uc001dkt.2	+	15	1842	c.1651C>G	c.(1651-1653)CCA>GCA	p.P551A	WDR63_uc009wcl.2_Missense_Mutation_p.P512A	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	551										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		TTTTGATGTACCATCTACTTT	0.373													7	41	---	---	---	---	PASS	G	85573813	G	G	85573813	3	3	5	1	0	0	0	0	1	0	0	0	17311	507	18	4	1705	4	WDR63	1	85573813	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	6615356	85573813	163676808	13	4476										
SYDE2	84144	broad.mit.edu	37	chr1	85655743	85655743	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tatatgatcatttttacctgCaaaaggagatttcaacatgg	7	6	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:85655743C>A	uc009wcm.2	-	2	1487	c.1438G>T	c.(1438-1440)GCA>TCA	p.A480S	SYDE2_uc001dku.3_Missense_Mutation_p.A480S	NM_032184	NP_115560	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2	480					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|central_nervous_system(1)	2				all cancers(265;0.0126)|Epithelial(280;0.0336)		TTTTTACCTGCAAAAGGAGAT	0.328													46	53	---	---	---	---	PASS	A	85655743	A	A	85655743	3	1	5	1	0	0	0	0	1	0	0	0	15433	710	25	3	2170	3	SYDE2	1	85655743	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	81930	85655743	163594878	14	4477										
PKN2	5586	broad.mit.edu	37	chr1	89279297	89279297	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	agtgtaaggcatccctttttGgtgaacctttttgcatgttt	9	7	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:89279297G>T	uc001dmn.2	+	16	2502	c.2160G>T	c.(2158-2160)TTG>TTT	p.L720F	PKN2_uc010osp.1_Missense_Mutation_p.L704F|PKN2_uc010osq.1_Missense_Mutation_p.L563F|PKN2_uc009wcv.2_Missense_Mutation_p.L672F|PKN2_uc010osr.1_Missense_Mutation_p.L385F	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	720	Protein kinase.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		ATCCCTTTTTGGTGAACCTTT	0.338													5	83	---	---	---	---	PASS	T	89279297	T	T	89279297	3	4	5	1	0	0	0	0	1	0	0	0	11980	1339	47	3	2222	3	PKN2	1	89279297	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	3623554	89279297	159971324	15	4478										
PTPN22	26191	broad.mit.edu	37	chr1	114380790	114380790	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccaaatccaaactttgatgcTtctgaagaggctccccaact	6	13	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:114380790T>C	uc001eds.2	-	13	1362	c.1232A>G	c.(1231-1233)AAG>AGG	p.K411R	PTPN22_uc009wgq.2_Missense_Mutation_p.K356R|PTPN22_uc010owo.1_Missense_Mutation_p.K167R|PTPN22_uc001edt.2_Intron|PTPN22_uc009wgr.2_Missense_Mutation_p.K411R|PTPN22_uc009wgs.2_Missense_Mutation_p.K284R|PTPN22_uc001edu.2_Missense_Mutation_p.K411R	NM_015967	NP_057051	Q9Y2R2	PTN22_HUMAN	protein tyrosine phosphatase, non-receptor type	411					negative regulation of T cell activation|negative regulation of T cell receptor signaling pathway|phosphoanandamide dephosphorylation|regulation of B cell receptor signaling pathway|regulation of natural killer cell proliferation|T cell differentiation	internal side of plasma membrane|nucleus|perinuclear region of cytoplasm	kinase binding|protein tyrosine phosphatase activity|SH3 domain binding			kidney(2)|lung(1)|skin(1)	4	Lung SC(450;0.184)	all_cancers(81;1.93e-08)|all_epithelial(167;4.37e-08)|all_lung(203;5.22e-06)|Lung NSC(69;8.94e-06)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACTTTGATGCTTCTGAAGAGG	0.378													27	30	---	---	---	---	PASS	C	114380790	C	C	114380790	3	2	5	1	0	0	0	0	1	0	0	0	12787	1609	56	5	1250	5	PTPN22	1	114380790	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	25101493	114380790	134869831	16	4479										
SPAG17	200162	broad.mit.edu	37	chr1	118554983	118554983	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tatgacaactttgtcttctcGagttgtcataacctgaacat	6	9	3	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:118554983G>T	uc001ehk.2	-	30	4368	c.4300C>A	c.(4300-4302)CGA>AGA	p.R1434R		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1434						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TTGTCTTCTCGAGTTGTCATA	0.388													4	47	---	---	---	---	PASS	T	118554983	T	T	118554983	2	4	5	1	0	0	0	0	0	0	0	1	14979	1066	37	2		2	SPAG17	1	118554983	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	4174193	118554983	130695638	17	4480										
C1orf54	79630	broad.mit.edu	37	chr1	150248195	150248195	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgattactccatatttgagtCagaggacaggctggtgagtg	13	6	1	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:150248195C>T	uc001eud.2	+	3	214	c.176C>T	c.(175-177)TCA>TTA	p.S59L	C1orf54_uc001euc.2_Missense_Mutation_p.S59L|C1orf54_uc001eue.2_Missense_Mutation_p.S59L|C1orf54_uc001euf.2_Missense_Mutation_p.S59L|C1orf54_uc001eug.2_Missense_Mutation_p.S59L	NM_024579	NP_078855	Q8WWF1	CA054_HUMAN	hypothetical protein LOC79630 precursor	59						extracellular region					0	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			ATATTTGAGTCAGAGGACAGG	0.284													4	24	---	---	---	---	PASS	T	150248195	T	T	150248195	3	4	5	1	0	0	0	0	1	0	0	0	2046	838	29	2	186	2	C1orf54	1	150248195	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	31693212	150248195	99002426	18	4481										
PRPF3	9129	broad.mit.edu	37	chr1	150305169	150305169	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gagcagatcaaacagatgatGgaggcagcaacacgacaaat	11	8	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:150305169G>T	uc001eum.3	+	5	600	c.438G>T	c.(436-438)ATG>ATT	p.M146I	PRPF3_uc009wlp.2_RNA|PRPF3_uc010pca.1_Missense_Mutation_p.M105I|PRPF3_uc010pcb.1_Missense_Mutation_p.M97I|PRPF3_uc009wlq.1_5'Flank	NM_004698	NP_004689	O43395	PRPF3_HUMAN	PRP3 pre-mRNA processing factor 3 homolog	146					nuclear mRNA splicing, via spliceosome	Cajal body|cytoplasm|nuclear speck|spliceosomal complex	protein binding			ovary(1)	1	Lung NSC(24;5.57e-29)|Breast(34;0.000844)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)	Colorectal(1306;0.0149)		AACAGATGATGGAGGCAGCAA	0.418													15	72	---	---	---	---	PASS	T	150305169	T	T	150305169	3	4	5	1	0	0	0	0	1	0	0	0	12565	1348	47	3	452	3	PRPF3	1	150305169	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	56974	150305169	98945452	19	4482										
UBAP2L	9898	broad.mit.edu	37	chr1	154229595	154229595	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcctccagcactttttccacCacatccagcacagtctctgc	4	18	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:154229595C>T	uc001fep.3	+	19	2381	c.2214C>T	c.(2212-2214)ACC>ACT	p.T738T	UBAP2L_uc009wot.2_Silent_p.T738T|UBAP2L_uc010pek.1_Silent_p.T730T|UBAP2L_uc010pel.1_Silent_p.T748T|UBAP2L_uc010pen.1_Silent_p.T652T|UBAP2L_uc001feq.2_5'UTR|UBAP2L_uc001fer.2_5'UTR	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	738					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)			CTTTTTCCACCACATCCAGCA	0.537													23	23	---	---	---	---	PASS	T	154229595	T	T	154229595	2	4	5	1	0	0	0	0	0	0	0	1	16835	581	21	3		3	UBAP2L	1	154229595	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	3924426	154229595	95021026	20	4483										
ETV3L	440695	broad.mit.edu	37	chr1	157062453	157062453	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctctctagttaaggaggatcCaagggccacactgctttgag	11	10	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:157062453C>A	uc001fqq.1	-	5	1359	c.1074G>T	c.(1072-1074)TTG>TTT	p.L358F		NM_001004341	NP_001004341	Q6ZN32	ETV3L_HUMAN	ets variant 3-like	358						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Hepatocellular(266;0.158)	Prostate(1639;0.184)				AAGGAGGATCCAAGGGCCACA	0.572													12	37	---	---	---	---	PASS	A	157062453	A	A	157062453	3	1	5	1	0	0	0	0	1	0	0	0	5280	593	21	3	15	3	ETV3L	1	157062453	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2832858	157062453	92188168	21	4484										
KIRREL	55243	broad.mit.edu	37	chr1	158057941	158057941	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcagcactttagtaaatgtcCactgtgagtagctgggaggg	13	7	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:158057941C>A	uc001frn.3	+	7	1317	c.913C>A	c.(913-915)CAC>AAC	p.H305N	KIRREL_uc010pib.1_Missense_Mutation_p.H205N|KIRREL_uc009wsq.2_Missense_Mutation_p.H141N|KIRREL_uc001fro.3_Missense_Mutation_p.H103N	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	305	Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					AGTAAATGTCCACTGTGAGTA	0.532											OREG0013906	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	75	---	---	---	---	PASS	A	158057941	A	A	158057941	3	1	5	1	0	0	0	0	1	0	0	0	8324	594	21	3	939	3	KIRREL	1	158057941	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	995488	158057941	91192680	22	4485										
ATP1A2	477	broad.mit.edu	37	chr1	160100080	160100080	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggacttggggagcgtgtgctGggtgagaggccagaaacagg	20	6	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:160100080G>T	uc001fvc.2	+	12	1782	c.1650G>T	c.(1648-1650)CTG>CTT	p.L550L	ATP1A2_uc001fvb.2_Silent_p.L550L|ATP1A2_uc001fvd.2_Silent_p.L286L|ATP1A2_uc009wtg.1_Silent_p.L238L	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	550	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			AGCGTGTGCTGGGTGAGAGGC	0.622													20	19	---	---	---	---	PASS	T	160100080	T	T	160100080	2	4	5	1	0	0	0	0	0	0	0	1	1129	1362	47	3		3	ATP1A2	1	160100080	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	2042139	160100080	89150541	23	4486										
APOA2	336	broad.mit.edu	37	chr1	161192260	161192260	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gaagttaaccagttccgttcCagccttcttgatcaggggtg	11	10	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:161192260C>A	uc001fzc.1	-	4	296	c.238G>T	c.(238-240)GGA>TGA	p.G80*	APOA2_uc001fzb.1_RNA	NM_001643	NP_001634	P02652	APOA2_HUMAN	apolipoprotein A-II preproprotein	80					cholesterol efflux|cholesterol homeostasis|diacylglycerol catabolic process|high-density lipoprotein particle assembly|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|interspecies interaction between organisms|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of cholesterol import|negative regulation of cholesterol transporter activity|negative regulation of cytokine secretion involved in immune response|negative regulation of lipase activity|negative regulation of lipid catabolic process|negative regulation of very-low-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|phospholipid catabolic process|phospholipid efflux|positive regulation of cholesterol esterification|positive regulation of interleukin-8 biosynthetic process|positive regulation of lipid catabolic process|protein folding|regulation of protein stability|response to glucose stimulus|reverse cholesterol transport|triglyceride metabolic process|triglyceride-rich lipoprotein particle remodeling	chylomicron|endoplasmic reticulum lumen|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	apolipoprotein receptor binding|cholesterol binding|high-density lipoprotein particle receptor binding|lipase inhibitor activity|phosphatidylcholine binding|phosphatidylcholine-sterol O-acyltransferase activator activity|protein heterodimerization activity|protein homodimerization activity			skin(1)	1	all_cancers(52;1.86e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			AGTTCCGTTCCAGCCTTCTTG	0.502													6	150	---	---	---	---	PASS	A	161192260	A	A	161192260	4	1	5	1	0	0	0	0	0	1	0	0	782	603	21	3	68	3	APOA2	1	161192260	Nonsense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1092180	161192260	88058361	24	4487										
PAPPA2	60676	broad.mit.edu	37	chr1	176564494	176564494	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	acaccgggttgtgcttgtgaActgtgagcccagcaagattg	13	9	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:176564494A>G	uc001gkz.2	+	3	2918	c.1754A>G	c.(1753-1755)AAC>AGC	p.N585S	PAPPA2_uc001gky.1_Missense_Mutation_p.N585S|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	585	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GTGCTTGTGAACTGTGAGCCC	0.602													18	50	---	---	---	---	PASS	G	176564494	G	G	176564494	3	3	5	1	0	0	0	0	1	0	0	0	11433	43	2	5	1760	5	PAPPA2	1	176564494	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	15372234	176564494	72686127	25	4488										
PAPPA2	60676	broad.mit.edu	37	chr1	176668281	176668281	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cgagccaagcttacaggcctGgagccctgaggtccacctgt	12	14	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:176668281G>T	uc001gkz.2	+	8	3956	c.2792G>T	c.(2791-2793)TGG>TTG	p.W931L	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	931					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TTACAGGCCTGGAGCCCTGAG	0.562													5	48	---	---	---	---	PASS	T	176668281	T	T	176668281	3	4	5	1	0	0	0	0	1	0	0	0	11433	1357	47	3	2871	3	PAPPA2	1	176668281	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	103787	176668281	72582340	26	4489										
RNASEL	6041	broad.mit.edu	37	chr1	182554630	182554630	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	acacgcttccagagtctgctCacagagggtgacacacacaa	9	13	2	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:182554630C>A	uc001gpj.1	-	1	1479	c.1312G>T	c.(1312-1314)GAG>TAG	p.E438*	RNASEL_uc009wxz.1_Nonsense_Mutation_p.E438*|RNASEL_uc001gpk.2_Nonsense_Mutation_p.E438*|RNASEL_uc009wya.1_Nonsense_Mutation_p.E438*	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	438	Protein kinase.|C6-type; atypical.				mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						AGAGTCTGCTCACAGAGGGTG	0.488									Hereditary_Prostate_Cancer				20	21	---	---	---	---	PASS	A	182554630	A	A	182554630	4	1	5	1	0	0	0	0	0	1	0	0	13416	835	29	2	937	2	RNASEL	1	182554630	Nonsense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	5886349	182554630	66695991	27	4490										
NFASC	23114	broad.mit.edu	37	chr1	204948542	204948542	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	caacctggggtctggcatgaCcattccaagtaccccggcag	11	14	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:204948542C>A	uc001hbj.2	+	19	2359	c.2031C>A	c.(2029-2031)GAC>GAA	p.D677E	NFASC_uc010pra.1_Missense_Mutation_p.D673E|NFASC_uc001hbi.2_Missense_Mutation_p.D673E|NFASC_uc010prb.1_Missense_Mutation_p.D688E|NFASC_uc010prc.1_Missense_Mutation_p.D244E|NFASC_uc001hbk.1_Missense_Mutation_p.D483E|NFASC_uc001hbl.1_5'Flank	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	677	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			TCTGGCATGACCATTCCAAGT	0.547													18	30	---	---	---	---	PASS	A	204948542	A	A	204948542	3	1	5	1	0	0	0	0	1	0	0	0	10359	506	18	3	2181	3	NFASC	1	204948542	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	22393912	204948542	44302079	28	4491										
RBBP5	5929	broad.mit.edu	37	chr1	205064080	205064080	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aaacctctgtcccctttgtaGagtttcggtttaaatggaga	9	8	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:205064080G>C	uc001hbu.1	-	13	1639	c.1509C>G	c.(1507-1509)CTC>CTG	p.L503L	RBBP5_uc010prd.1_Silent_p.L538L|RBBP5_uc001hbv.1_Intron|RBBP5_uc010pre.1_Silent_p.L370L	NM_005057	NP_005048	Q15291	RBBP5_HUMAN	retinoblastoma binding protein 5	503					histone H3-K4 methylation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription, DNA-dependent	MLL1 complex|Set1C/COMPASS complex	methylated histone residue binding|transcription regulatory region DNA binding			lung(1)	1	Breast(84;0.0505)		BRCA - Breast invasive adenocarcinoma(75;0.0923)			CCCCTTTGTAGAGTTTCGGTT	0.493													29	43	---	---	---	---	PASS	C	205064080	C	C	205064080	2	2	5	1	0	0	0	0	0	0	0	1	13102	929	33	2		2	RBBP5	1	205064080	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	115538	205064080	44186541	29	4492										
C1orf65	164127	broad.mit.edu	37	chr1	223568618	223568618	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggagagaggagagagcgcctCccaacagctcccttgatcag	13	12	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:223568618C>G	uc001hoa.2	+	1	1904	c.1801C>G	c.(1801-1803)CCC>GCC	p.P601A		NM_152610	NP_689823	Q8N715	CA065_HUMAN	hypothetical protein LOC164127	601										central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0704)		GAGAGCGCCTCCCAACAGCTC	0.577													17	17	---	---	---	---	PASS	G	223568618	G	G	223568618	3	3	5	1	0	0	0	0	1	0	0	0	2055	855	30	2	1803	2	C1orf65	1	223568618	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	18504538	223568618	25682003	30	4493										
URB2	9816	broad.mit.edu	37	chr1	229772214	229772214	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	acttgggcccaggtggacgcTatgttcagtttgaactgtag	13	8	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr1:229772214T>C	uc001hts.1	+	4	1990	c.1854T>C	c.(1852-1854)GCT>GCC	p.A618A	URB2_uc009xfd.1_Silent_p.A618A	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	618						nucleolus				central_nervous_system(2)|ovary(1)	3						AGGTGGACGCTATGTTCAGTT	0.562													64	68	---	---	---	---	PASS	C	229772214	C	C	229772214	2	2	5	1	0	0	0	0	0	0	0	1	17022	1509	53	5		5	URB2	1	229772214	Silent	SNP	T	TCGA-18-3410-01A-01D-0983-08	6203596	229772214	19478407	31	4494										
WDR35	57539	broad.mit.edu	37	chr2	20137518	20137518	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	acttaccttctgtccatctcGagatacgttctttcagcctc	5	14	4	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:20137518G>T	uc002rdi.2	-	20	2394	c.2286C>A	c.(2284-2286)CTC>CTA	p.L762L	WDR35_uc002rdj.2_Silent_p.L751L|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Silent_p.L327L|WDR35_uc002rdk.3_Silent_p.L327L	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	762										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGTCCATCTCGAGATACGTTC	0.423													4	83	---	---	---	---	PASS	T	20137518	T	T	20137518	2	4	5	1	0	0	0	0	0	0	0	1	17286	1045	37	2		2	WDR35	2	20137518	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08		20137518	223061855	32	4495										
UBXN2A	165324	broad.mit.edu	37	chr2	24222688	24222688	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tttacagaatgctgtcatcaTtcagagactccaaaaaactg	6	9	3	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:24222688T>A	uc010exy.2	+	8	1199	c.731T>A	c.(730-732)ATT>AAT	p.I244N	UBXN2A_uc002rem.2_RNA|UBXN2A_uc002ren.2_Missense_Mutation_p.I244N|UBXN2A_uc010ykj.1_Missense_Mutation_p.I191N	NM_181713	NP_859064	P68543	UBX2A_HUMAN	UBX domain containing 4	244	UBX.										0						GCTGTCATCATTCAGAGACTC	0.418													10	52	---	---	---	---	PASS	A	24222688	A	A	24222688	3	1	5	1	0	0	0	0	1	0	0	0	16911	1493	52	5	753	5	UBXN2A	2	24222688	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	4085170	24222688	218976685	33	4496										
C2orf56	55471	broad.mit.edu	37	chr2	37474646	37474646	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtcttaattgccccaggaacAgcagatctaacagctgatgt	9	10	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:37474646A>T	uc002rqa.3	+	9	1059	c.984A>T	c.(982-984)ACA>ACT	p.T328T	C2orf56_uc010ynj.1_RNA|C2orf56_uc002rqc.3_Silent_p.T230T|C2orf56_uc010ynk.1_Silent_p.T257T|C2orf56_uc010ynl.1_Silent_p.T301T|C2orf56_uc010fah.2_RNA	NM_144736	NP_653337	Q7L592	MIDA_HUMAN	hypothetical protein LOC55471 isoform 1	328					mitochondrial respiratory chain complex I assembly	mitochondrion	enzyme binding|methyltransferase activity			central_nervous_system(1)	1		all_hematologic(82;0.21)				CCCCAGGAACAGCAGATCTAA	0.388													17	43	---	---	---	---	PASS	T	37474646	T	T	37474646	2	4	5	1	0	0	0	0	0	0	0	1	2177	175	7	5		5	C2orf56	2	37474646	Silent	SNP	A	TCGA-18-3410-01A-01D-0983-08	13251958	37474646	205724727	34	4497										
LRRTM1	347730	broad.mit.edu	37	chr2	80530055	80530055	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tccaagagttgaggatccggGgctcgatgtaggtgaggcgg	18	7	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:80530055G>T	uc002sok.1	-	2	1160	c.890C>A	c.(889-891)CCC>CAC	p.P297H	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	297	LRR 9.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GAGGATCCGGGGCTCGATGTA	0.622										HNSCC(69;0.2)			6	24	---	---	---	---	PASS	T	80530055	T	T	80530055	3	4	5	1	0	0	0	0	1	0	0	0	9039	1232	43	3	682	3	LRRTM1	2	80530055	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	43055409	80530055	162669318	35	4498										
TMEM131	23505	broad.mit.edu	37	chr2	98375392	98375392	+	Missense_Mutation	SNP	C	A	A													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggggagccggaactggctggCcaggaaggactgggatctgt							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:98375392C>A	uc002syh.3	-	40	5560	c.5331G>T	c.(5329-5331)TGG>TGT	p.W1777C	TMEM131_uc002syg.2_Missense_Mutation_p.W157C	NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1777	Ser-rich.					integral to membrane				ovary(4)|central_nervous_system(2)	6						AACTGGCTGGCCAGGAAGGAC	0.617													5	6	---	---	---	---	PASS	A	98375392	A	A	98375392	3	1	5	1	0	0	0	0	1	0	0	0	16041	740	26	3	328	3	TMEM131	2	98375392	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	17845337	98375392	144823981	36	4499	200	2								
TMEM131	23505	broad.mit.edu	37	chr2	98375393	98375393	+	Missense_Mutation	SNP	C	A	A													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gggagccggaactggctggcCaggaaggactgggatctgtc							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:98375393C>A	uc002syh.3	-	40	5559	c.5330G>T	c.(5329-5331)TGG>TTG	p.W1777L	TMEM131_uc002syg.2_Missense_Mutation_p.W157L	NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1777	Ser-rich.					integral to membrane				ovary(4)|central_nervous_system(2)	6						ACTGGCTGGCCAGGAAGGACT	0.617													6	8	---	---	---	---	PASS	A	98375393	A	A	98375393	3	1	5	1	0	0	0	0	1	0	0	0	16041	595	21	3	329	3	TMEM131	2	98375393	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1	98375393	144823980	37	4500	200	2								
LRP1B	53353	broad.mit.edu	37	chr2	141299491	141299491	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccgaccagaatatataattgTcataaacagccaaactgagg	7	9	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:141299491T>A	uc002tvj.1	-	44	8216	c.7244A>T	c.(7243-7245)GAC>GTC	p.D2415V		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2415	Extracellular (Potential).|LDL-receptor class B 26.				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)		TATATAATTGTCATAAACAGC	0.358										TSP Lung(27;0.18)			9	28	---	---	---	---	PASS	A	141299491	A	A	141299491	3	1	5	1	0	0	0	0	1	0	0	0	8955	1667	58	5	6747	5	LRP1B	2	141299491	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	42924098	141299491	101899882	38	4501										
TTN	7273	broad.mit.edu	37	chr2	179495591	179495591	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gcgtggatatcatcttcagaGatttcggtttcaaagcgtgc	11	8	4	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:179495591G>C	uc010zfg.1	-	187	36614	c.36390C>G	c.(36388-36390)ATC>ATG	p.I12130M	TTN_uc010zfh.1_Missense_Mutation_p.I5825M|TTN_uc010zfi.1_Missense_Mutation_p.I5758M|TTN_uc010zfj.1_Missense_Mutation_p.I5633M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13057							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)			CATCTTCAGAGATTTCGGTTT	0.493													19	90	---	---	---	---	PASS	C	179495591	C	C	179495591	3	2	5	1	0	0	0	0	1	0	0	0	16732	932	33	2	64099	2	TTN	2	179495591	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	38196100	179495591	63703782	39	4502										
FAM171B	165215	broad.mit.edu	37	chr2	187627145	187627145	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aggcactcctttatagacctGaaaaagggcaagagaaccca	9	10	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:187627145G>C	uc002ups.2	+	8	2188	c.2076G>C	c.(2074-2076)CTG>CTC	p.L692L	FAM171B_uc002upr.1_Silent_p.L659L|FAM171B_uc002upt.2_Silent_p.L161L	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	692	Cytoplasmic (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						TTATAGACCTGAAAAAGGGCA	0.507													9	35	---	---	---	---	PASS	C	187627145	C	C	187627145	2	2	5	1	0	0	0	0	0	0	0	1	5491	1277	45	2		2	FAM171B	2	187627145	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	8131554	187627145	55572228	40	4503										
ASNSD1	54529	broad.mit.edu	37	chr2	190530930	190530930	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gatttaaaagaggacttactAtataatcttaaacagcgggg	9	5	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:190530930A>G	uc002uqt.2	+	4	506	c.72A>G	c.(70-72)CTA>CTG	p.L24L		NM_019048	NP_061921	Q9NWL6	ASND1_HUMAN	asparagine synthetase domain containing 1	24	Glutamine amidotransferase type-2.				asparagine biosynthetic process|glutamine metabolic process		asparagine synthase (glutamine-hydrolyzing) activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0449)|all cancers(119;0.118)			AGGACTTACTATATAATCTTA	0.358													21	53	---	---	---	---	PASS	G	190530930	G	G	190530930	2	3	5	1	0	0	0	0	0	0	0	1	1049	436	16	5		5	ASNSD1	2	190530930	Silent	SNP	A	TCGA-18-3410-01A-01D-0983-08	2903785	190530930	52668443	41	4504										
ANKAR	150709	broad.mit.edu	37	chr2	190569878	190569878	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gattcactttgccgctttctAtgacaacgtttgcatcatta	6	10	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:190569878A>G	uc002uqw.1	+	7	1625	c.1625A>G	c.(1624-1626)TAT>TGT	p.Y542C	ANKAR_uc002uqu.2_RNA	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	613	ANK 3.					integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			GCCGCTTTCTATGACAACGTT	0.413													25	62	---	---	---	---	PASS	G	190569878	G	G	190569878	3	3	5	1	0	0	0	0	1	0	0	0	623	449	16	5	1864	5	ANKAR	2	190569878	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	38948	190569878	52629495	42	4505										
DNAH7	56171	broad.mit.edu	37	chr2	196756523	196756523	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgaactttgttttcttccatTagccccttaatgaaaaaaaa	4	8	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:196756523T>G	uc002utj.3	-	31	5003	c.4902A>C	c.(4900-4902)CTA>CTC	p.L1634L		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1634	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TTTCTTCCATTAGCCCCTTAA	0.239													7	10	---	---	---	---	PASS	G	196756523	G	G	196756523	2	3	5	1	0	0	0	0	0	0	0	1	4606	1741	61	5		5	DNAH7	2	196756523	Silent	SNP	T	TCGA-18-3410-01A-01D-0983-08	6186645	196756523	46442850	43	4506										
CCDC150	284992	broad.mit.edu	37	chr2	197530317	197530317	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	agacaactggctcaggagaaGtaccttagggaatctttaga	11	7	2	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:197530317G>T	uc002utp.1	+	6	807	c.672G>T	c.(670-672)AAG>AAT	p.K224N	CCDC150_uc002uto.1_Missense_Mutation_p.K224N|CCDC150_uc010zgq.1_Intron|CCDC150_uc010zgr.1_Intron|CCDC150_uc010zgs.1_Intron	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150	224	Potential.										0						CTCAGGAGAAGTACCTTAGGG	0.403													14	23	---	---	---	---	PASS	T	197530317	T	T	197530317	3	4	5	1	0	0	0	0	1	0	0	0	2785	1020	36	3	694	3	CCDC150	2	197530317	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	773794	197530317	45669056	44	4507										
CRYGA	1418	broad.mit.edu	37	chr2	209027951	209027951	+	Missense_Mutation	SNP	G	T	T													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aggaattatacggcaggattGgaccgagtcgctgaggccca							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:209027951G>T	uc002vcq.3	-	2	246	c.229C>A	c.(229-231)CAA>AAA	p.Q77K		NM_014617	NP_055432	P11844	CRGA_HUMAN	crystallin, gamma A	77	Beta/gamma crystallin 'Greek key' 2.				visual perception		structural constituent of eye lens				0				Epithelial(149;0.067)|LUSC - Lung squamous cell carcinoma(261;0.0708)|Lung(261;0.135)		CGGCAGGATTGGACCGAGTCG	0.498													20	32	---	---	---	---	PASS	T	209027951	T	T	209027951	3	4	5	1	0	0	0	0	1	0	0	0	3914	1357	47	3	303	3	CRYGA	2	209027951	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	11497634	209027951	34171422	45	4508	201	2								
CRYGA	1418	broad.mit.edu	37	chr2	209027952	209027952	+	Silent	SNP	G	T	T													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggaattatacggcaggattgGaccgagtcgctgaggcccat							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:209027952G>T	uc002vcq.3	-	2	245	c.228C>A	c.(226-228)GTC>GTA	p.V76V		NM_014617	NP_055432	P11844	CRGA_HUMAN	crystallin, gamma A	76	Beta/gamma crystallin 'Greek key' 2.				visual perception		structural constituent of eye lens				0				Epithelial(149;0.067)|LUSC - Lung squamous cell carcinoma(261;0.0708)|Lung(261;0.135)		GGCAGGATTGGACCGAGTCGC	0.502													20	32	---	---	---	---	PASS	T	209027952	T	T	209027952	2	4	5	1	0	0	0	0	0	0	0	1	3914	1161	41	2		2	CRYGA	2	209027952	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	1	209027952	34171421	46	4509	201	2								
TUBA4A	7277	broad.mit.edu	37	chr2	220115571	220115571	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctctgccaccgacagctgctCgtggtatgccttttctgcag	10	14	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:220115571C>A	uc002vkt.1	-	4	908	c.850G>T	c.(850-852)GAG>TAG	p.E284*	TUBA4A_uc010zkz.1_Nonsense_Mutation_p.E269*|TUBA4B_uc002vku.2_5'Flank|TUBA4B_uc002vkv.1_5'Flank	NM_006000	NP_005991	P68366	TBA4A_HUMAN	tubulin, alpha 4a	284					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|platelet activation|platelet degranulation|protein polymerization	cytosol|extracellular region|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)	3		Renal(207;0.0474)		Epithelial(149;1.16e-06)|all cancers(144;0.000191)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GACAGCTGCTCGTGGTATGCC	0.582													4	81	---	---	---	---	PASS	A	220115571	A	A	220115571	4	1	5	1	0	0	0	0	0	1	0	0	16746	893	31	2	500	2	TUBA4A	2	220115571	Nonsense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	11087619	220115571	23083802	47	4510										
MOGAT1	116255	broad.mit.edu	37	chr2	223559869	223559869	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgtttaaacaaactgacaacCctgaaggatcatggattaga	8	7	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:223559869C>A	uc010fws.1	+	5	763	c.715C>A	c.(715-717)CCT>ACT	p.P239T	MOGAT1_uc010fwt.1_Missense_Mutation_p.P199T	NM_058165	NP_477513	Q96PD6	MOGT1_HUMAN	monoacylglycerol O-acyltransferase 1	239					glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			breast(1)	1		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;2.06e-07)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0105)		AACTGACAACCCTGAAGGATC	0.423													8	22	---	---	---	---	PASS	A	223559869	A	A	223559869	3	1	5	1	0	0	0	0	1	0	0	0	9694	623	22	3	733	3	MOGAT1	2	223559869	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	3444298	223559869	19639504	48	4511										
ING5	84289	broad.mit.edu	37	chr2	242662685	242662685	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccacgaaacccaaaggaaaaTggtgagtgtggggacgctcg	14	9	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:242662685T>C	uc002wcd.2	+	7	704	c.679T>C	c.(679-681)TGG>CGG	p.W227R		NM_032329	NP_115705	Q8WYH8	ING5_HUMAN	inhibitor of growth family, member 5	227	PHD-type.				DNA replication|histone H3 acetylation|negative regulation of cell proliferation|negative regulation of growth|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;2.16e-33)|all cancers(36;4.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.6e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.65e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0839)		CAAAGGAAAATGGTGAGTGTG	0.552													38	108	---	---	---	---	PASS	C	242662685	C	C	242662685	3	2	5	1	0	0	0	0	1	0	0	0	7739	1478	51	5	705	5	ING5	2	242662685	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	19102816	242662685	536688	49	4512										
NEU4	129807	broad.mit.edu	37	chr2	242755806	242755806	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cctgctggcctttgtggagcAgcggctcagccctgacgact	13	14	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr2:242755806A>G	uc010fzr.2	+	2	211	c.125A>G	c.(124-126)CAG>CGG	p.Q42R	NEU4_uc002wcl.2_RNA|NEU4_uc002wcm.2_Missense_Mutation_p.Q42R|NEU4_uc002wcn.1_Missense_Mutation_p.Q54R|NEU4_uc002wco.1_Missense_Mutation_p.Q42R|NEU4_uc002wcp.1_Missense_Mutation_p.Q54R	NM_080741	NP_542779	Q8WWR8	NEUR4_HUMAN	sialidase 4	42						lysosomal lumen|organelle inner membrane	exo-alpha-sialidase activity|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;3.84e-33)|all cancers(36;8.08e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.41e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0825)		TTTGTGGAGCAGCGGCTCAGC	0.741													3	5	---	---	---	---	PASS	G	242755806	G	G	242755806	3	3	5	1	0	0	0	0	1	0	0	0	10344	188	7	5	170	5	NEU4	2	242755806	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	93121	242755806	443567	50	4513										
EFHB	151651	broad.mit.edu	37	chr3	19924172	19924172	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgtcactgatgcgacgaattCggggagcaggaatgtcagat	14	7	2	2	rs149572350	byFrequency	TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:19924172C>T	uc003cbl.3	-	12	2394	c.2198G>A	c.(2197-2199)CGA>CAA	p.R733Q	EFHB_uc003cbm.2_Missense_Mutation_p.R603Q	NM_144715	NP_653316	Q8N7U6	EFHB_HUMAN	EF hand domain family, member B	733					signal transduction	proteinaceous extracellular matrix	calcium ion binding				0						GCGACGAATTCGGGGAGCAGG	0.403													15	14	---	---	---	---	PASS	T	19924172	T	T	19924172	3	4	5	1	0	0	0	0	1	0	0	0	4945	884	31	2	311	2	EFHB	3	19924172	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08		19924172	178098258	51	4514										
TRANK1	9881	broad.mit.edu	37	chr3	36898233	36898233	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgtgtcctccacatagcagcGaggtatacgcttttgaattt	9	9	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:36898233G>T	uc003cgj.2	-	3	1500	c.1198C>A	c.(1198-1200)CGC>AGC	p.R400S		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	950					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						ACATAGCAGCGAGGTATACGC	0.498													5	126	---	---	---	---	PASS	T	36898233	T	T	36898233	3	4	5	1	0	0	0	0	1	0	0	0	16451	1058	37	2	5977	2	TRANK1	3	36898233	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	16974061	36898233	161124197	52	4515										
CSPG5	10675	broad.mit.edu	37	chr3	47618715	47618715	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcatcataaaaggatgtggtGgggtagaaatcagattcatc	11	5	4	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:47618715G>T	uc003crp.3	-	2	977	c.801C>A	c.(799-801)CCC>CCA	p.P267P	CSPG5_uc003crn.2_Silent_p.P129P|CSPG5_uc003cro.3_Silent_p.P267P|CSPG5_uc011bbb.1_Silent_p.P129P	NM_006574	NP_006565	O95196	CSPG5_HUMAN	chondroitin sulfate proteoglycan 5 (neuroglycan	267	Interaction with TNC and TNR (By similarity).|Extracellular (Potential).				cell differentiation|intracellular transport|nervous system development|regulation of growth	endoplasmic reticulum membrane|Golgi-associated vesicle membrane|integral to plasma membrane|membrane fraction	growth factor activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000266)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		AGGATGTGGTGGGGTAGAAAT	0.343													3	6	---	---	---	---	PASS	T	47618715	T	T	47618715	2	4	5	1	0	0	0	0	0	0	0	1	3961	1335	47	3		3	CSPG5	3	47618715	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	10720482	47618715	150403715	53	4516										
GRM2	2912	broad.mit.edu	37	chr3	51749755	51749755	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccctgctcaccaagaccaacCgcattgcacgcatcttcggt	7	17	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:51749755C>A	uc010hlv.2	+	4	2205	c.1966C>A	c.(1966-1968)CGC>AGC	p.R656S	GRM2_uc003dbo.3_Missense_Mutation_p.R38S|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	656	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	CAAGACCAACCGCATTGCACG	0.612													15	6	---	---	---	---	PASS	A	51749755	A	A	51749755	3	1	5	1	0	0	0	0	1	0	0	0	6797	652	23	1	1976	1	GRM2	3	51749755	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	4131040	51749755	146272675	54	4517										
TWF2	11344	broad.mit.edu	37	chr3	52265552	52265552	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cgcgtacagcatcttcagccGcacctgaagggcaagggcca	12	14	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:52265552G>C	uc003ddd.2	-	4	437	c.286C>G	c.(286-288)CGG>GGG	p.R96G	TLR9_uc003ddb.2_5'Flank|TLR9_uc003ddc.1_5'Flank|TWF2_uc010hmc.2_Missense_Mutation_p.R96G	NM_007284	NP_009215	Q6IBS0	TWF2_HUMAN	twinfilin-like protein	96	ADF-H 1.					cytoskeleton|perinuclear region of cytoplasm	actin binding|ATP binding			stomach(1)|ovary(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;2.43e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		ATCTTCAGCCGCACCTGAAGG	0.607											OREG0015610	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	29	---	---	---	---	PASS	C	52265552	C	C	52265552	3	2	5	1	0	0	0	0	1	0	0	0	16779	1086	38	4	787	4	TWF2	3	52265552	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	515797	52265552	145756878	55	4518										
OR5AC2	81050	broad.mit.edu	37	chr3	97806719	97806719	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgaaaaaaaagtctgaaaagGgcagaagcaaagccttctcc	9	8	2	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:97806719G>T	uc011bgs.1	+	1	703	c.703G>T	c.(703-705)GGC>TGC	p.G235C		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GTCTGAAAAGGGCAGAAGCAA	0.398													22	19	---	---	---	---	PASS	T	97806719	T	T	97806719	3	4	5	1	0	0	0	0	1	0	0	0	11141	1232	43	3	705	3	OR5AC2	3	97806719	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	45541167	97806719	100215711	56	4519										
DCBLD2	131566	broad.mit.edu	37	chr3	98518583	98518583	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cctgccctggtgagttgtaaGgatctaggtctgcatagcct	12	10	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:98518583G>T	uc003dtd.2	-	16	2324	c.1961C>A	c.(1960-1962)CCT>CAT	p.P654H	DCBLD2_uc003dte.2_Missense_Mutation_p.P668H	NM_080927	NP_563615	Q96PD2	DCBD2_HUMAN	discoidin, CUB and LCCL domain containing 2	654	Cytoplasmic (Potential).				cell adhesion|intracellular receptor mediated signaling pathway|negative regulation of cell growth|wound healing	cell surface|integral to plasma membrane				ovary(2)|central_nervous_system(1)	3						TGAGTTGTAAGGATCTAGGTC	0.468													5	72	---	---	---	---	PASS	T	98518583	T	T	98518583	3	4	5	1	0	0	0	0	1	0	0	0	4281	1000	35	3	370	3	DCBLD2	3	98518583	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	711864	98518583	99503847	57	4520										
BTLA	151888	broad.mit.edu	37	chr3	112198390	112198390	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gacccattgtcattaggaagCactggttcaaaatgtagaat	9	7	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:112198390C>G	uc003dza.3	-	2	518	c.315G>C	c.(313-315)GTG>GTC	p.V105V	BTLA_uc003dzb.3_Silent_p.V105V	NM_181780	NP_861445	Q7Z6A9	BTLA_HUMAN	B and T lymphocyte associated isoform 1	105	Ig-like V-type.|Extracellular (Potential).			V -> M (in Ref. 1; AAP44003).	T cell costimulation		receptor activity				0		Acute lymphoblastic leukemia(4;1.34e-07)|all_hematologic(4;0.000361)				CATTAGGAAGCACTGGTTCAA	0.373													58	103	---	---	---	---	PASS	G	112198390	G	G	112198390	2	3	5	1	0	0	0	0	0	0	0	1	1558	697	25	4		4	BTLA	3	112198390	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	13679807	112198390	85824040	58	4521										
ATP6V1A	523	broad.mit.edu	37	chr3	113524215	113524215	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttctaggttctgcccattctAcaagacagtagggatgctgt	10	9	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:113524215A>G	uc003eao.2	+	14	1670	c.1604A>G	c.(1603-1605)TAC>TGC	p.Y535C	ATP6V1A_uc011bik.1_Missense_Mutation_p.Y502C	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	535					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						TGCCCATTCTACAAGACAGTA	0.363													21	35	---	---	---	---	PASS	G	113524215	G	G	113524215	3	3	5	1	0	0	0	0	1	0	0	0	1177	391	14	5	1654	5	ATP6V1A	3	113524215	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	1325825	113524215	84498215	59	4522										
IQCB1	9657	broad.mit.edu	37	chr3	121489331	121489331	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgtgcttcagggttgtgagaTgggcctgcttggccttggct	16	8	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:121489331T>C	uc010hre.1	-	15	1873	c.1658A>G	c.(1657-1659)CAT>CGT	p.H553R	IQCB1_uc003eek.2_Missense_Mutation_p.H420R|IQCB1_uc010hrf.1_RNA	NM_001023570	NP_001018864	Q15051	IQCB1_HUMAN	IQ motif containing B1 isoform a	553					cilium assembly|maintenance of organ identity|photoreceptor cell maintenance	centrosome|photoreceptor connecting cilium	calmodulin binding				0				GBM - Glioblastoma multiforme(114;0.0983)		GGTTGTGAGATGGGCCTGCTT	0.502													42	72	---	---	---	---	PASS	C	121489331	C	C	121489331	3	2	5	1	0	0	0	0	1	0	0	0	7803	1464	51	5	142	5	IQCB1	3	121489331	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	7965116	121489331	76533099	60	4523										
HEG1	57493	broad.mit.edu	37	chr3	124738345	124738345	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtgcagtgatctctccacctCtcatgggtgcgactgaccta	10	13	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:124738345C>A	uc003ehs.3	-	5	1417	c.1349G>T	c.(1348-1350)AGA>ATA	p.R450I	HEG1_uc011bke.1_Missense_Mutation_p.R450I	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	450	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						CTCTCCACCTCTCATGGGTGC	0.507													7	250	---	---	---	---	PASS	A	124738345	A	A	124738345	3	1	5	1	0	0	0	0	1	0	0	0	7044	913	32	2	2848	2	HEG1	3	124738345	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	3249014	124738345	73284085	61	4524										
COL6A6	131873	broad.mit.edu	37	chr3	130305389	130305389	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgttgctctggatggacctgCtgattcaagtgacttggctg	13	8	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:130305389C>T	uc010htl.2	+	10	4041	c.4010C>T	c.(4009-4011)GCT>GTT	p.A1337V	COL6A6_uc003eni.3_5'UTR	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1337	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GATGGACCTGCTGATTCAAGT	0.448													78	115	---	---	---	---	PASS	T	130305389	T	T	130305389	3	4	5	1	0	0	0	0	1	0	0	0	3703	797	28	3	4048	3	COL6A6	3	130305389	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	5567044	130305389	67717041	62	4525										
ESYT3	83850	broad.mit.edu	37	chr3	138189849	138189849	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aggcctggacagcctcatctCcatgaggctggtgcttcggg	14	12	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:138189849C>T	uc003esk.2	+	17	1947	c.1721C>T	c.(1720-1722)TCC>TTC	p.S574F	ESYT3_uc010hug.2_RNA	NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain	574						integral to membrane|plasma membrane					0						AGCCTCATCTCCATGAGGCTG	0.597													11	67	---	---	---	---	PASS	T	138189849	T	T	138189849	3	4	5	1	0	0	0	0	1	0	0	0	5266	855	30	2	1787	2	ESYT3	3	138189849	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	7884460	138189849	59832581	63	4526										
PLCH1	23007	broad.mit.edu	37	chr3	155208639	155208639	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	caatccaataatttcaacttCaacaaaagggtcaatgatct	4	9	4	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:155208639C>G	uc011bok.1	-	18	2567	c.2290G>C	c.(2290-2292)GAA>CAA	p.E764Q	PLCH1_uc011boj.1_Missense_Mutation_p.E764Q|PLCH1_uc011bol.1_Missense_Mutation_p.E746Q	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	764	C2.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			ATTTCAACTTCAACAAAAGGG	0.299													11	39	---	---	---	---	PASS	G	155208639	G	G	155208639	3	3	5	1	0	0	0	0	1	0	0	0	12037	835	29	2	2830	2	PLCH1	3	155208639	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	17018790	155208639	42813791	64	4527										
PLD1	5337	broad.mit.edu	37	chr3	171377037	171377037	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gatcctctgggcaatggcatCgcctatcttgttgaacacaa	9	11	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:171377037C>T	uc003fhs.2	-	21	2511	c.2395G>A	c.(2395-2397)GAT>AAT	p.D799N	PLD1_uc003fht.2_Missense_Mutation_p.D761N|PLD1_uc003fhu.3_Missense_Mutation_p.D93N|PLD1_uc003fhv.1_Missense_Mutation_p.D124N	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	799	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	GCAATGGCATCGCCTATCTTG	0.388													24	229	---	---	---	---	PASS	T	171377037	T	T	171377037	3	4	5	1	0	0	0	0	1	0	0	0	12045	884	31	2	857	2	PLD1	3	171377037	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	16168398	171377037	26645393	65	4528										
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atcctctctctgaaatcactGagcaggagaaagattttcta	7	9	4	4	rs104886003		TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			5	38	---	---	---	---	PASS	A	178936091	A	A	178936091	3	1	5	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	7559054	178936091	19086339	66	4529										
MAP3K13	9175	broad.mit.edu	37	chr3	185181425	185181425	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggttagatgaagaactgattCgaaggcgcagagaagagctc	14	6	0	6			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:185181425C>A	uc010hyf.2	+	9	1632	c.1366C>A	c.(1366-1368)CGA>AGA	p.R456R	MAP3K13_uc011brt.1_Silent_p.R249R|MAP3K13_uc011bru.1_Silent_p.R312R|MAP3K13_uc003fpi.2_Silent_p.R456R|MAP3K13_uc010hyg.2_Silent_p.R146R	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	456					activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			AGAACTGATTCGAAGGCGCAG	0.468													4	103	---	---	---	---	PASS	A	185181425	A	A	185181425	2	1	5	1	0	0	0	0	0	0	0	1	9247	876	31	2		2	MAP3K13	3	185181425	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	6245334	185181425	12841005	67	4530										
LSG1	55341	broad.mit.edu	37	chr3	194379714	194379714	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	caccattcaggggaatggctCcggccaaagctgaccagaaa	11	12	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:194379714C>G	uc003fui.2	-	7	1046	c.731G>C	c.(730-732)GGA>GCA	p.G244A		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	244					nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		GGGAATGGCTCCGGCCAAAGC	0.463													47	153	---	---	---	---	PASS	G	194379714	G	G	194379714	3	3	5	1	0	0	0	0	1	0	0	0	9049	855	30	2	1277	2	LSG1	3	194379714	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	9198289	194379714	3642716	68	4531										
WDR53	348793	broad.mit.edu	37	chr3	196281625	196281625	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atttcttctgtttcatcctcCtgtaaatttgtaatccagag	5	9	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:196281625C>A	uc003fwt.2	-	4	1005	c.534G>T	c.(532-534)CAG>CAT	p.Q178H		NM_182627	NP_872433	Q7Z5U6	WDR53_HUMAN	WD repeat domain 53	178										breast(1)|skin(1)	2	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.6e-23)|all cancers(36;1.54e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.29e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		TTTCATCCTCCTGTAAATTTG	0.428													6	187	---	---	---	---	PASS	A	196281625	A	A	196281625	3	1	5	1	0	0	0	0	1	0	0	0	17302	680	24	3	546	3	WDR53	3	196281625	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1901911	196281625	1740805	69	4532										
LRCH3	84859	broad.mit.edu	37	chr3	197592992	197592992	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgctaatttagttcatcattCccctgcatattcttttcctg	4	11	3	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr3:197592992C>G	uc011bul.1	+	17	1780	c.1775C>G	c.(1774-1776)TCC>TGC	p.S592C	LRCH3_uc003fyj.1_Missense_Mutation_p.S592C|LRCH3_uc011bum.1_Missense_Mutation_p.S540C|LRCH3_uc011bun.1_Missense_Mutation_p.S438C|LRCH3_uc003fyk.2_Missense_Mutation_p.S187C	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	592						extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		GTTCATCATTCCCCTGCATAT	0.368													25	50	---	---	---	---	PASS	G	197592992	G	G	197592992	3	3	5	1	0	0	0	0	1	0	0	0	8934	855	30	2	1841	2	LRCH3	3	197592992	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1311367	197592992	429438	70	4533										
HTT	3064	broad.mit.edu	37	chr4	3208226	3208226	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atcatatttttccttagtgtCagaacctccatgactccgag	6	11	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:3208226C>G	uc011bvq.1	+	44	5873	c.5728C>G	c.(5728-5730)CAG>GAG	p.Q1910E		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1908					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		TCCTTAGTGTCAGAACCTCCA	0.423													13	63	---	---	---	---	PASS	G	3208226	G	G	3208226	3	3	5	1	0	0	0	0	1	0	0	0	7457	827	29	2	5892	2	HTT	4	3208226	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08		3208226	187946050	71	4534										
JAKMIP1	152789	broad.mit.edu	37	chr4	6043916	6043916	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tccaggtccagcatcttctgGgtcagggcggcctcggtccc	13	15	3	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:6043916G>A	uc010idb.1	-	17	2553	c.2067C>T	c.(2065-2067)ACC>ACT	p.T689T	JAKMIP1_uc010idc.1_Silent_p.T504T|JAKMIP1_uc010idd.1_Intron	NM_001099433	NP_001092903	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GCATCTTCTGGGTCAGGGCGG	0.557													28	38	---	---	---	---	PASS	A	6043916	A	A	6043916	2	1	5	1	0	0	0	0	0	0	0	1	7940	1219	43	3		3	JAKMIP1	4	6043916	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	2835690	6043916	185110360	72	4535										
BOD1L	259282	broad.mit.edu	37	chr4	13601318	13601318	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttgtgcccctcctcggtgctCactgccaacacgggacccgg	11	17	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:13601318C>G	uc003gmz.1	-	10	7323	c.7206G>C	c.(7204-7206)GTG>GTC	p.V2402V	BOD1L_uc010idr.1_Silent_p.V1739V	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2402							DNA binding			ovary(5)|breast(1)	6						CCTCGGTGCTCACTGCCAACA	0.587													5	120	---	---	---	---	PASS	G	13601318	G	G	13601318	2	3	5	1	0	0	0	0	0	0	0	1	1483	813	29	2		2	BOD1L	4	13601318	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	7557402	13601318	177552958	73	4536										
LAP3	51056	broad.mit.edu	37	chr4	17590574	17590574	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aacgaaccacccctggtgttTgttgggaaaggaattacctt	10	9	0	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:17590574T>C	uc003gph.1	+	7	999	c.837T>C	c.(835-837)TTT>TTC	p.F279F		NM_015907	NP_056991	P28838	AMPL_HUMAN	leucine aminopeptidase 3	279					proteolysis	nucleus	aminopeptidase activity|magnesium ion binding|manganese ion binding|metalloexopeptidase activity|zinc ion binding				0						CCCTGGTGTTTGTTGGGAAAG	0.433													27	40	---	---	---	---	PASS	C	17590574	C	C	17590574	2	2	5	1	0	0	0	0	0	0	0	1	8623	1809	63	5		5	LAP3	4	17590574	Silent	SNP	T	TCGA-18-3410-01A-01D-0983-08	3989256	17590574	173563702	74	4537										
TBC1D19	55296	broad.mit.edu	37	chr4	26667970	26667970	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttcagaaagaatgctttgtgGaacttggcttaaatatagga	10	4	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:26667970G>T	uc003gsf.3	+	9	877	c.607G>T	c.(607-609)GAA>TAA	p.E203*	TBC1D19_uc010iew.2_Nonsense_Mutation_p.E203*|TBC1D19_uc011bxu.1_Nonsense_Mutation_p.E138*	NM_018317	NP_060787	Q8N5T2	TBC19_HUMAN	TBC1 domain family, member 19	203						intracellular	Rab GTPase activator activity			breast(1)	1		Breast(46;0.0503)				ATGCTTTGTGGAACTTGGCTT	0.343													12	54	---	---	---	---	PASS	T	26667970	T	T	26667970	4	4	5	1	0	0	0	0	0	1	0	0	15604	1175	41	2	641	2	TBC1D19	4	26667970	Nonsense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	9077396	26667970	164486306	75	4538										
GNPDA2	132789	broad.mit.edu	37	chr4	44705119	44705119	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cagtttccatctttcatactGaatagtggatccacaagttt	6	9	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:44705119G>A	uc003gwy.2	-	7	967	c.810C>T	c.(808-810)TTC>TTT	p.F270F	GNPDA2_uc010iga.2_Silent_p.F236F|GNPDA2_uc011bzb.1_Silent_p.F200F	NM_138335	NP_612208	Q8TDQ7	GNPI2_HUMAN	glucosamine-6-phosphate deaminase 2	270					N-acetylglucosamine metabolic process	cytoplasm	glucosamine-6-phosphate deaminase activity|hydrolase activity			ovary(1)	1						CTTTCATACTGAATAGTGGAT	0.323													10	32	---	---	---	---	PASS	A	44705119	A	A	44705119	2	1	5	1	0	0	0	0	0	0	0	1	6543	1281	45	2		2	GNPDA2	4	44705119	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	18037149	44705119	146449157	76	4539										
CLOCK	9575	broad.mit.edu	37	chr4	56316315	56316315	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgaactccgagaagaggcagAaggggttgggctgtgatcaa	16	6	1	5			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:56316315A>C	uc003haz.1	-	17	2217	c.1291T>G	c.(1291-1293)TCT>GCT	p.S431A	CLOCK_uc003hba.1_Missense_Mutation_p.S431A|CLOCK_uc010igu.1_5'Flank	NM_004898	NP_004889	O15516	CLOCK_HUMAN	clock	431					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			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)			GAAGAGGCAGAAGGGGTTGGG	0.458													25	52	---	---	---	---	PASS	C	56316315	C	C	56316315	3	2	5	1	0	0	0	0	1	0	0	0	3549	246	9	5	1281	5	CLOCK	4	56316315	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	11611196	56316315	134837961	77	4540										
REST	5978	broad.mit.edu	37	chr4	57797217	57797217	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cagaaggagcctgttcagatGgagctgtctcctcccatgga	12	11	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:57797217G>T	uc003hch.2	+	4	2540	c.2193G>T	c.(2191-2193)ATG>ATT	p.M731I	REST_uc003hci.2_Missense_Mutation_p.M731I|REST_uc010ihf.2_Missense_Mutation_p.M405I	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	731	Pro-rich.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					CTGTTCAGATGGAGCTGTCTC	0.562													8	326	---	---	---	---	PASS	T	57797217	T	T	57797217	3	4	5	1	0	0	0	0	1	0	0	0	13234	1348	47	3	2203	3	REST	4	57797217	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	1480902	57797217	133357059	78	4541										
EPHA5	2044	broad.mit.edu	37	chr4	66270172	66270172	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	acagcaattacaggaatctgGctttgatcgctggatgctgc	11	9	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:66270172G>T	uc003hcy.2	-	8	1903	c.1710C>A	c.(1708-1710)AGC>AGA	p.S570R	EPHA5_uc003hcx.2_Missense_Mutation_p.S502R|EPHA5_uc003hcz.2_Missense_Mutation_p.S570R|EPHA5_uc011cah.1_Missense_Mutation_p.S571R|EPHA5_uc011cai.1_Missense_Mutation_p.S571R|EPHA5_uc003hda.2_Missense_Mutation_p.S571R	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	570	Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CAGGAATCTGGCTTTGATCGC	0.438										TSP Lung(17;0.13)			25	32	---	---	---	---	PASS	T	66270172	T	T	66270172	3	4	5	1	0	0	0	0	1	0	0	0	5170	1194	42	3	1447	3	EPHA5	4	66270172	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	8472955	66270172	124884104	79	4542										
ALB	213	broad.mit.edu	37	chr4	74279238	74279238	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gaaaaatcccactgcattgcCgaagtggaaaatgatgagat	10	7	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:74279238C>T	uc003hgs.3	+	8	1018	c.945C>T	c.(943-945)GCC>GCT	p.A315A	ALB_uc003hgw.3_Silent_p.A123A|ALB_uc011cbe.1_5'UTR|ALB_uc003hgt.3_Silent_p.A315A|ALB_uc010iii.2_Silent_p.A200A|ALB_uc003hgu.3_Silent_p.A165A|ALB_uc003hgv.3_5'UTR|ALB_uc011cbf.1_Silent_p.A205A|ALB_uc010iij.2_RNA|ALB_uc003hgx.3_5'UTR	NM_000477	NP_000468	P02768	ALBU_HUMAN	albumin preproprotein	315	Albumin 2.				bile acid and bile salt transport|bile acid metabolic process|cellular response to starvation|hemolysis by symbiont of host erythrocytes|lipoprotein metabolic process|maintenance of mitochondrion location|negative regulation of apoptosis|platelet activation|platelet degranulation|sodium-independent organic anion transport|transmembrane transport	extracellular space|platelet alpha granule lumen|protein complex	antioxidant activity|chaperone binding|copper ion binding|DNA binding|drug binding|fatty acid binding|pyridoxal phosphate binding|toxin binding			ovary(3)|skin(3)	6	Breast(15;0.00102)		Epithelial(6;4.8e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000263)|all cancers(17;0.000472)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Acenocoumarol(DB01418)|Acitretin(DB00459)|Alfentanil(DB00802)|Aluminium(DB01370)|Auranofin(DB00995)|Bismuth(DB01402)|Captopril(DB01197)|Carboplatin(DB00958)|Cefalotin(DB00456)|Cefazolin(DB01327)|Cefonicid(DB01328)|Cefoperazone(DB01329)|Chlorpheniramine(DB01114)|Chlorpromazine(DB00477)|Ciprofloxacin(DB00537)|Clonazepam(DB01068)|Cloxacillin(DB01147)|Cytarabine(DB00987)|Dantrolene(DB01219)|Diclofenac(DB00586)|Diflunisal(DB00861)|Digitoxin(DB01396)|Estrone(DB00655)|Ethacrynic acid(DB00903)|Etodolac(DB00749)|Flurbiprofen(DB00712)|Gadobenate Dimeglumine(DB00743)|Gatifloxacin(DB01044)|Gliclazide(DB01120)|Halothane(DB01159)|Human Serum Albumin(DB00062)|Hyaluronidase(DB00070)|Ibuprofen(DB01050)|Insulin-detemir(DB01307)|Insulin-glargine(DB01308)|Iodipamide(DB04711)|Ketoprofen(DB01009)|Levamisole(DB00848)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Mefenamic acid(DB00784)|Mephenytoin(DB00532)|Methotrexate(DB00563)|Nortriptyline(DB00540)|Oxazepam(DB00842)|Paclitaxel(DB01229)|Phenprocoumon(DB00946)|Probenecid(DB01032)|Propofol(DB00818)|Pyridoxine(DB00165)|Salicyclic acid(DB00936)|Saquinavir(DB01232)|Serum albumin(DB00096)|Serum albumin iodonated(DB00064)|Sodium lauryl sulfate(DB00815)|Sucralfate(DB00364)|Sulfamethizole(DB00576)|Sulindac(DB00605)|Suprofen(DB00870)|Testosterone(DB00624)|Xanthophyll(DB00137)	ACTGCATTGCCGAAGTGGAAA	0.418													4	105	---	---	---	---	PASS	T	74279238	T	T	74279238	2	4	5	1	0	0	0	0	0	0	0	1	486	639	23	1		1	ALB	4	74279238	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	8009066	74279238	116875038	80	4543										
TSPAN5	10098	broad.mit.edu	37	chr4	99408000	99408000	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	caaactgggtcaaagccgccGagatcggtgatggaagagat	14	8	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:99408000G>T	uc003hub.2	-	3	518	c.168C>A	c.(166-168)CTC>CTA	p.L56L	TSPAN5_uc011cdz.1_5'UTR	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	56	Extracellular (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)		CAAAGCCGCCGAGATCGGTGA	0.512													5	129	---	---	---	---	PASS	T	99408000	T	T	99408000	2	4	5	1	0	0	0	0	0	0	0	1	16647	1045	37	2		2	TSPAN5	4	99408000	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	25128762	99408000	91746276	81	4544										
TACR3	6870	broad.mit.edu	37	chr4	104640772	104640772	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cgaggcggtcaggttcacggCgtctgcacccacgcctccac	12	17	3	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:104640772C>A	uc003hxe.1	-	1	204	c.61G>T	c.(61-63)GCC>TCC	p.A21S		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	21	Extracellular (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		AGGTTCACGGCGTCTGCACCC	0.677													7	18	---	---	---	---	PASS	A	104640772	A	A	104640772	3	1	5	1	0	0	0	0	1	0	0	0	15504	768	27	1	1356	1	TACR3	4	104640772	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	5232772	104640772	86513504	82	4545										
ANK2	287	broad.mit.edu	37	chr4	114257120	114257120	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gacagcaatctgattggcccAgaaggaggtgtactgagcag	14	8	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:114257120A>T	uc003ibe.3	+	30	3598	c.3498A>T	c.(3496-3498)CCA>CCT	p.P1166P	ANK2_uc003ibd.3_Silent_p.P1157P|ANK2_uc003ibf.3_Silent_p.P1166P|ANK2_uc011cgc.1_Silent_p.P342P|ANK2_uc003ibg.3_Silent_p.P161P|ANK2_uc003ibc.2_Silent_p.P1142P|ANK2_uc011cgb.1_Silent_p.P1181P	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1133					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TGATTGGCCCAGAAGGAGGTG	0.567													28	48	---	---	---	---	PASS	T	114257120	T	T	114257120	2	4	5	1	0	0	0	0	0	0	0	1	621	175	7	5		5	ANK2	4	114257120	Silent	SNP	A	TCGA-18-3410-01A-01D-0983-08	9616348	114257120	76897156	83	4546										
PRDM5	11107	broad.mit.edu	37	chr4	121828652	121828652	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccacatcaacctgtaatccaTattttcatccaagtcttcag	3	13	4	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:121828652T>C	uc003idn.2	-	2	404	c.154A>G	c.(154-156)ATG>GTG	p.M52V	PRDM5_uc003ido.2_Missense_Mutation_p.M52V|PRDM5_uc010ine.2_Missense_Mutation_p.M52V|PRDM5_uc010inf.2_Missense_Mutation_p.M52V|PRDM5_uc003idp.1_Missense_Mutation_p.M52V	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	52	SET.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						CTGTAATCCATATTTTCATCC	0.333													24	50	---	---	---	---	PASS	C	121828652	C	C	121828652	3	2	5	1	0	0	0	0	1	0	0	0	12460	1406	49	5	1798	5	PRDM5	4	121828652	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	7571532	121828652	69325624	84	4547										
KIAA1109	84162	broad.mit.edu	37	chr4	123156042	123156042	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtaactggcctagatttcttCaaacttgaagagttgacacc	8	9	2	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:123156042C>G	uc003ieh.2	+	25	3483	c.3438C>G	c.(3436-3438)TTC>TTG	p.F1146L	KIAA1109_uc003iei.1_Missense_Mutation_p.F899L|KIAA1109_uc010ins.1_Missense_Mutation_p.F489L	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1146					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TAGATTTCTTCAAACTTGAAG	0.443													8	66	---	---	---	---	PASS	G	123156042	G	G	123156042	3	3	5	1	0	0	0	0	1	0	0	0	8208	825	29	2	3536	2	KIAA1109	4	123156042	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1327390	123156042	67998234	85	4548										
PHF17	79960	broad.mit.edu	37	chr4	129767537	129767537	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcttcctttccaggtgtttaGgacagacctgatcactgcca	8	12	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:129767537G>T	uc003igk.2	+	4	426	c.146G>T	c.(145-147)AGG>ATG	p.R49M	PHF17_uc003igj.2_Missense_Mutation_p.R49M|PHF17_uc003igl.2_Missense_Mutation_p.R49M|PHF17_uc011cgy.1_Missense_Mutation_p.R49M|PHF17_uc003igm.2_Missense_Mutation_p.R49M	NM_199320	NP_955352	Q6IE81	JADE1_HUMAN	PHD finger protein 17 long isoform	49					apoptosis|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell growth|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	histone acetyltransferase complex|mitochondrion	protein binding|zinc ion binding				0						CAGGTGTTTAGGACAGACCTG	0.468													6	113	---	---	---	---	PASS	T	129767537	T	T	129767537	3	4	5	1	0	0	0	0	1	0	0	0	11828	1000	35	3	156	3	PHF17	4	129767537	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	6611495	129767537	61386739	86	4549										
TBC1D9	23158	broad.mit.edu	37	chr4	141592024	141592024	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtcatcctgtttcgggtgctGatggataagggactggggag	17	6	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:141592024G>C	uc010ioj.2	-	7	1388	c.1116C>G	c.(1114-1116)ATC>ATG	p.I372M		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	372						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				TTCGGGTGCTGATGGATAAGG	0.433													27	125	---	---	---	---	PASS	C	141592024	C	C	141592024	3	2	5	1	0	0	0	0	1	0	0	0	15624	1280	45	2	2744	2	TBC1D9	4	141592024	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	11824487	141592024	49562252	87	4550										
FHDC1	85462	broad.mit.edu	37	chr4	153893693	153893693	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aaattcaacaaagcagttaaGgtacatctggcagcatctgt	8	8	3	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:153893693G>T	uc003inf.2	+	10	1458	c.1383G>T	c.(1381-1383)AAG>AAT	p.K461N		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	461	FH2.				actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					AAGCAGTTAAGGTACATCTGG	0.383													6	100	---	---	---	---	PASS	T	153893693	T	T	153893693	3	4	5	1	0	0	0	0	1	0	0	0	5876	1014	35	3	1421	3	FHDC1	4	153893693	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	12301669	153893693	37260583	88	4551										
RAPGEF2	9693	broad.mit.edu	37	chr4	160267955	160267955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tatcagtgcctaagaatcctGgtgacaaaaagcctgtcaaa	8	9	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:160267955G>T	uc003iqg.3	+	19	3344	c.3034G>T	c.(3034-3036)GGT>TGT	p.G1012C		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1012					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		TAAGAATCCTGGTGACAAAAA	0.458													6	162	---	---	---	---	PASS	T	160267955	T	T	160267955	3	4	5	1	0	0	0	0	1	0	0	0	13044	1348	47	3	3108	3	RAPGEF2	4	160267955	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	6374262	160267955	30886321	89	4552										
NEK1	4750	broad.mit.edu	37	chr4	170428227	170428227	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttttctctctcataagcctcCtttctctttcgttctagttg	4	12	4	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:170428227C>A	uc003isb.1	-	21	2376	c.1884G>T	c.(1882-1884)AAG>AAT	p.K628N	NEK1_uc003isc.1_Missense_Mutation_p.K584N|NEK1_uc003isd.1_Missense_Mutation_p.K656N|NEK1_uc003ise.1_Missense_Mutation_p.K612N|NEK1_uc003isf.1_Missense_Mutation_p.K559N	NM_012224	NP_036356	Q96PY6	NEK1_HUMAN	NIMA-related kinase 1	628					cell division|cilium assembly|mitosis	nucleus|pericentriolar material	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(3)|ovary(2)|large_intestine(1)	6		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)|KIRC - Kidney renal clear cell carcinoma(143;0.0325)|Kidney(143;0.0385)|LUSC - Lung squamous cell carcinoma(193;0.14)		CATAAGCCTCCTTTCTCTTTC	0.358													16	18	---	---	---	---	PASS	A	170428227	A	A	170428227	3	1	5	1	0	0	0	0	1	0	0	0	10321	680	24	3	1948	3	NEK1	4	170428227	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	10160272	170428227	20726049	90	4553										
ODZ3	55714	broad.mit.edu	37	chr4	183245358	183245358	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gcggctgctttacggcaacaGagtgaaggatttggttcaca	13	8	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr4:183245358G>A	uc003ivd.1	+	1	222	c.185G>A	c.(184-186)AGA>AAA	p.R62K	ODZ3_uc010irv.1_Missense_Mutation_p.R62K	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	62	Cytoplasmic (Potential).|Teneurin N-terminal.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TACGGCAACAGAGTGAAGGAT	0.473													4	73	---	---	---	---	PASS	A	183245358	A	A	183245358	3	1	5	1	0	0	0	0	1	0	0	0	10836	942	33	2	187	2	ODZ3	4	183245358	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	12817131	183245358	7908918	91	4554										
ZDHHC11	79844	broad.mit.edu	37	chr5	837482	837482	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cagagagacaggtggtacctGgagaactcctttgtccattt	11	9	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:837482G>T	uc011cma.1	-	6	1282	c.898C>A	c.(898-900)CAG>AAG	p.Q300K	ZDHHC11_uc003jbj.2_RNA|ZDHHC11_uc010itd.1_RNA	NM_024786	NP_079062	Q9H8X9	ZDH11_HUMAN	zinc finger, DHHC-type containing 11	300						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)|pancreas(1)	2			Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)			GGTGGTACCTGGAGAACTCCT	0.483													6	134	---	---	---	---	PASS	T	837482	T	T	837482	3	4	5	1	0	0	0	0	1	0	0	0	17598	1357	47	3	368	3	ZDHHC11	5	837482	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08		837482	180077778	92	4555										
CDH12	1010	broad.mit.edu	37	chr5	22078737	22078737	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tagtggtgttaggagacctcCatcaaacagaacccagagaa	10	9	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:22078737C>A	uc010iuc.2	-	2	507	c.49G>T	c.(49-51)GGA>TGA	p.G17*	CDH12_uc011cno.1_Nonsense_Mutation_p.G17*|CDH12_uc003jgk.2_Nonsense_Mutation_p.G17*	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	17					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						AGGAGACCTCCATCAAACAGA	0.453										HNSCC(59;0.17)			6	145	---	---	---	---	PASS	A	22078737	A	A	22078737	4	1	5	1	0	0	0	0	0	1	0	0	3098	603	21	3	2379	3	CDH12	5	22078737	Nonsense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	21241255	22078737	158836523	93	4556										
PDZD2	23037	broad.mit.edu	37	chr5	31983569	31983569	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccctgaacttggaaacggccAtgtctttcagctagaaaatg	9	10	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:31983569A>G	uc003jhl.2	+	3	1173	c.785A>G	c.(784-786)CAT>CGT	p.H262R	PDZD2_uc003jhm.2_Missense_Mutation_p.H262R|PDZD2_uc011cnx.1_Missense_Mutation_p.H88R	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	262					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GGAAACGGCCATGTCTTTCAG	0.557													37	52	---	---	---	---	PASS	G	31983569	G	G	31983569	3	3	5	1	0	0	0	0	1	0	0	0	11701	217	8	5	791	5	PDZD2	5	31983569	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	9904832	31983569	148931691	94	4557										
PDZD2	23037	broad.mit.edu	37	chr5	32088214	32088214	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctctgtcatccatgtatggcGatgctgaggattcttcttct	9	10	5	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:32088214G>A	uc003jhl.2	+	20	5048	c.4660G>A	c.(4660-4662)GAT>AAT	p.D1554N	PDZD2_uc003jhm.2_Missense_Mutation_p.D1554N	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1554					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CATGTATGGCGATGCTGAGGA	0.542													20	50	---	---	---	---	PASS	A	32088214	A	A	32088214	3	1	5	1	0	0	0	0	1	0	0	0	11701	1058	37	2	4734	2	PDZD2	5	32088214	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	104645	32088214	148827046	95	4558										
UGT3A1	133688	broad.mit.edu	37	chr5	35955849	35955849	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttttggctactactcggaccAtgtttccatgctggtctcca	8	12	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:35955849A>T	uc003jjv.1	-	6	1350	c.1193T>A	c.(1192-1194)ATG>AAG	p.M398K	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.M398K|UGT3A1_uc011cor.1_Missense_Mutation_p.M364K	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	398	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TACTCGGACCATGTTTCCATG	0.478													38	59	---	---	---	---	PASS	T	35955849	T	T	35955849	3	4	5	1	0	0	0	0	1	0	0	0	16960	217	8	5	386	5	UGT3A1	5	35955849	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	3867635	35955849	144959411	96	4559										
NUP155	9631	broad.mit.edu	37	chr5	37350302	37350302	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgtagcaaggaaggaacaagGaaagaaagtgagctctttga	13	4	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:37350302G>A	uc003jku.1	-	7	907	c.789C>T	c.(787-789)TTC>TTT	p.F263F	NUP155_uc003jkt.1_Silent_p.F204F|NUP155_uc010iuz.1_Silent_p.F263F	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	263					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AAGGAACAAGGAAAGAAAGTG	0.358													10	73	---	---	---	---	PASS	A	37350302	A	A	37350302	2	1	5	1	0	0	0	0	0	0	0	1	10756	1165	41	2		2	NUP155	5	37350302	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	1394453	37350302	143564958	97	4560										
C9	735	broad.mit.edu	37	chr5	39316013	39316013	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cagctttatttgtttcagtgGgtgtaaattttagagatata	9	3	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:39316013G>T	uc003jlv.3	-	6	823	c.734C>A	c.(733-735)CCC>CAC	p.P245H		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	245	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			TGTTTCAGTGGGTGTAAATTT	0.333													5	64	---	---	---	---	PASS	T	39316013	T	T	39316013	3	4	5	1	0	0	0	0	1	0	0	0	2443	1232	43	3	969	3	C9	5	39316013	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	1965711	39316013	141599247	98	4561										
HCN1	348980	broad.mit.edu	37	chr5	45262343	45262343	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gggctgcgaggcggagagtgGcctgacttcccgggtcaggt	19	10	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:45262343G>T	uc003jok.2	-	8	2378	c.2353C>A	c.(2353-2355)CCA>ACA	p.P785T		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	785	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GCGGAGAGTGGCCTGACTTCC	0.627													9	28	---	---	---	---	PASS	T	45262343	T	T	45262343	3	4	5	1	0	0	0	0	1	0	0	0	6996	1203	42	3	323	3	HCN1	5	45262343	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	5946330	45262343	135652917	99	4562										
CCDC125	202243	broad.mit.edu	37	chr5	68616126	68616126	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gagggaatgtatcttgctggCtcttatgcttggaatactga	12	6	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:68616126C>T	uc003jvv.1	-	1	285	c.242G>A	c.(241-243)AGC>AAC	p.S81N	CCDC125_uc003jvx.1_Missense_Mutation_p.S81N|CCDC125_uc003jvy.1_RNA|CCDC125_uc003jvw.2_5'UTR|CCDC125_uc003jvz.1_Missense_Mutation_p.S81N	NM_176816	NP_789786	Q86Z20	CC125_HUMAN	coiled-coil domain containing 125	81						cytoplasm					0		Lung NSC(167;7.26e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.2e-56)|Epithelial(20;2.31e-52)|all cancers(19;5.85e-48)|Lung(70;0.0183)		ATCTTGCTGGCTCTTATGCTT	0.408													66	47	---	---	---	---	PASS	T	68616126	T	T	68616126	3	4	5	1	0	0	0	0	1	0	0	0	2761	797	28	3	1337	3	CCDC125	5	68616126	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	23353783	68616126	112299134	100	4563										
BDP1	55814	broad.mit.edu	37	chr5	70856009	70856009	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aagaaagaactgatgctgctCctaagtctcagcaaatggat	9	8	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:70856009C>G	uc003kbp.1	+	37	7704	c.7441C>G	c.(7441-7443)CCT>GCT	p.P2481A	BDP1_uc003kbq.1_RNA|BDP1_uc003kbr.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	2481					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		TGATGCTGCTCCTAAGTCTCA	0.403													10	25	---	---	---	---	PASS	G	70856009	G	G	70856009	3	3	5	1	0	0	0	0	1	0	0	0	1395	855	30	2	7587	2	BDP1	5	70856009	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2239883	70856009	110059251	101	4564										
MCC	4163	broad.mit.edu	37	chr5	112363013	112363013	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgctgattaaagcgaagtttCattggtgtgtggcctggagt	14	5	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:112363013C>G	uc003kqj.3	-	17	3006	c.2476G>C	c.(2476-2478)GAA>CAA	p.E826Q	MCC_uc003kqk.3_RNA|MCC_uc003kql.3_Missense_Mutation_p.E1016Q	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2	826					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		AGCGAAGTTTCATTGGTGTGT	0.532													13	28	---	---	---	---	PASS	G	112363013	G	G	112363013	3	3	5	1	0	0	0	0	1	0	0	0	9373	835	29	2	17	2	MCC	5	112363013	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	41507004	112363013	68552247	102	4565										
FEM1C	56929	broad.mit.edu	37	chr5	114879045	114879045	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgtcaaggtgcccatacctgGcggccatcaagagtggcgtg	14	11	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:114879045G>C	uc003krb.1	-	2	708	c.146C>G	c.(145-147)GCC>GGC	p.A49G		NM_020177	NP_064562	Q96JP0	FEM1C_HUMAN	feminization 1 homolog a	49	ANK 2.					cytoplasm				breast(2)|ovary(1)	3		all_cancers(142;0.000575)|all_epithelial(76;9.98e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;2.5e-07)|Epithelial(69;2.66e-07)|all cancers(49;1.39e-05)		CCCATACCTGGCGGCCATCAA	0.507													17	6	---	---	---	---	PASS	C	114879045	C	C	114879045	3	2	5	1	0	0	0	0	1	0	0	0	5811	1203	42	4	1715	4	FEM1C	5	114879045	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	2516032	114879045	66036215	103	4566										
AFAP1L1	134265	broad.mit.edu	37	chr5	148700003	148700003	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctgagccccgagtctatgatGatgttccttatgaaaagatg	10	8	1	5			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:148700003G>A	uc003lqh.2	+	14	1806	c.1675G>A	c.(1675-1677)GAT>AAT	p.D559N	AFAP1L1_uc010jgy.2_Missense_Mutation_p.D559N|AFAP1L1_uc003lqi.1_Missense_Mutation_p.D174N	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	559							protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTCTATGATGATGTTCCTTA	0.428													11	21	---	---	---	---	PASS	A	148700003	A	A	148700003	3	1	5	1	0	0	0	0	1	0	0	0	354	1290	45	2	1729	2	AFAP1L1	5	148700003	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	33820958	148700003	32215257	104	4567										
GRM6	2916	broad.mit.edu	37	chr5	178413281	178413281	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tagctgagggtcgtgcccagGcccaggaagagcctgcgggc	17	12	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr5:178413281G>T	uc003mjr.2	-	8	2153	c.1974C>A	c.(1972-1974)GGC>GGA	p.G658G	GRM6_uc003mjq.2_5'Flank|GRM6_uc010jla.1_Silent_p.G241G|GRM6_uc003mjs.1_Silent_p.G278G	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	658	Helical; Name=3; (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		TCGTGCCCAGGCCCAGGAAGA	0.637													7	3	---	---	---	---	PASS	T	178413281	T	T	178413281	2	4	5	1	0	0	0	0	0	0	0	1	6801	1190	42	3		3	GRM6	5	178413281	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	29713278	178413281	2501979	105	4568										
ZNF192	7745	broad.mit.edu	37	chr6	28116249	28116249	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	accagactcctgaagaggatCttgtaatcgtcaaggtagag	11	8	2	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:28116249C>G	uc003nkn.1	+	2	248	c.64C>G	c.(64-66)CTT>GTT	p.L22V	ZNF192_uc010jqx.1_Missense_Mutation_p.L22V|ZNF192_uc010jqy.1_Translation_Start_Site|ZNF192_uc011dkz.1_Translation_Start_Site	NM_006298	NP_006289	Q15776	ZN192_HUMAN	zinc finger protein 192	22					viral reproduction	cytoplasm|nucleolus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TGAAGAGGATCTTGTAATCGT	0.502													13	57	---	---	---	---	PASS	G	28116249	G	G	28116249	3	3	5	1	0	0	0	0	1	0	0	0	17753	913	32	2	66	2	ZNF192	6	28116249	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08		28116249	142998818	106	4569										
GPX5	2880	broad.mit.edu	37	chr6	28499635	28499635	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gcaaccaatttggaaagcaaGaaccaggagataacaaagag	10	7	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:28499635G>C	uc003nll.2	+	3	324	c.322G>C	c.(322-324)GAA>CAA	p.E108Q	GPX5_uc003nlm.2_Intron|GPX5_uc003nln.2_Intron	NM_001509	NP_001500	O75715	GPX5_HUMAN	glutathione peroxidase 5 isoform 1 precursor	108					lipid metabolic process|response to oxidative stress	extracellular region	glutathione peroxidase activity			skin(1)	1					Glutathione(DB00143)	TGGAAAGCAAGAACCAGGAGA	0.488													42	156	---	---	---	---	PASS	C	28499635	C	C	28499635	3	2	5	1	0	0	0	0	1	0	0	0	6743	943	33	2	332	2	GPX5	6	28499635	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	383386	28499635	142615432	107	4570										
HLA-B	3106	broad.mit.edu	37	chr6	31322940	31322940	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cagctccgatgaccacaactGctaggacagccaggccagca	10	15	0	1	rs9264619		TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:31322940G>T	uc003nth.2	-	5	1010	c.956C>A	c.(955-957)GCA>GAA	p.A319E	HLA-C_uc003ntb.2_Intron|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_Intron|HLA-B_uc011dnk.1_RNA|HLA-B_uc003ntf.2_Intron|HLA-B_uc003ntg.1_Missense_Mutation_p.A198E|HLA-B_uc003nti.1_Intron	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B	319	Helical; (Potential).				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				0						GACCACAACTGCTAGGACAGC	0.607									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				23	54	---	---	---	---	PASS	T	31322940	T	T	31322940	3	4	5	1	0	0	0	0	1	0	0	0	7196	1319	46	3	144	3	HLA-B	6	31322940	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	2823305	31322940	139792127	108	4571										
LTB	4050	broad.mit.edu	37	chr6	31548838	31548838	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggtaatagaggccgtcctgcGggagcgccagcccctcggcg	16	14	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:31548838G>T	uc003nuk.2	-	4	391	c.383C>A	c.(382-384)CCG>CAG	p.P128Q	LTB_uc003nul.2_3'UTR	NM_002341	NP_002332	Q06643	TNFC_HUMAN	lymphotoxin-beta isoform a	128	Extracellular (Potential).				cell-cell signaling|immune response|positive regulation of interleukin-12 biosynthetic process|signal transduction	extracellular space|integral to membrane	cytokine activity|tumor necrosis factor receptor binding				0					Infliximab(DB00065)|Simvastatin(DB00641)	GCCGTCCTGCGGGAGCGCCAG	0.582													3	6	---	---	---	---	PASS	T	31548838	T	T	31548838	3	4	5	1	0	0	0	0	1	0	0	0	9070	1116	39	1	355	1	LTB	6	31548838	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	225898	31548838	139566229	109	4572										
DNAH8	1769	broad.mit.edu	37	chr6	38854590	38854590	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	actaatgagattgtgcgacaGatgatggaaatggaaggaat	13	3	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:38854590G>C	uc003ooe.1	+	55	8232	c.7632G>C	c.(7630-7632)CAG>CAC	p.Q2544H		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTGTGCGACAGATGATGGAAA	0.378													18	56	---	---	---	---	PASS	C	38854590	C	C	38854590	3	2	5	1	0	0	0	0	1	0	0	0	4607	933	33	2	7842	2	DNAH8	6	38854590	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	7305752	38854590	132260477	110	4573										
C6orf153	88745	broad.mit.edu	37	chr6	42996841	42996841	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtcatttagctgagcagcgcCagttggcactagctgagaag	13	9	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:42996841C>A	uc003otp.1	+	7	663	c.655C>A	c.(655-657)CAG>AAG	p.Q219K		NM_033112	NP_149103	Q96EU6	RRP36_HUMAN	hypothetical protein LOC88745	219					ribosomal small subunit biogenesis|rRNA processing	nucleolus					0			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			TGAGCAGCGCCAGTTGGCACT	0.483													7	222	---	---	---	---	PASS	A	42996841	A	A	42996841	3	1	5	1	0	0	0	0	1	0	0	0	2338	595	21	3	681	3	C6orf153	6	42996841	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	4142251	42996841	128118226	111	4574										
FAM83B	222584	broad.mit.edu	37	chr6	54735463	54735463	+	Frame_Shift_Del	DEL	G	-	-													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tacgataaaagaaactattcGgaagatgataaaagaagcaa							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:54735463delG	uc003pck.2	+	2	535	c.419delG	c.(418-420)CGGfs	p.R140fs		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	140								p.R140R(1)		ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					GAAACTATTCGGAAGATGATA	0.358													42	22	---	---	---	---		-	54735463	-	-	54735463	7	5	5	1	0	1	0	1	0	0	0	0	5634	1116	39	0	421	0	FAM83B	6	54735463	Frame_Shift_Del	DEL	G	TCGA-18-3410-01A-01D-0983-08	11738622	54735463	116379604	112	4575										
RIMS1	22999	broad.mit.edu	37	chr6	72975123	72975123	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cctgcacatactaagaccaaAtcagtgactagacaggacat	7	11	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:72975123A>G	uc003pga.2	+	21	3302	c.3225A>G	c.(3223-3225)AAA>AAG	p.K1075K	RIMS1_uc011dyb.1_Intron|RIMS1_uc003pgc.2_Intron|RIMS1_uc010kaq.2_Intron|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Intron|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Intron|RIMS1_uc003pge.2_Intron|RIMS1_uc011dye.1_Intron|RIMS1_uc011dyf.1_Intron|RIMS1_uc010kas.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1075					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)				CTAAGACCAAATCAGTGACTA	0.289													27	28	---	---	---	---	PASS	G	72975123	G	G	72975123	2	3	5	1	0	0	0	0	0	0	0	1	13367	98	4	5		5	RIMS1	6	72975123	Silent	SNP	A	TCGA-18-3410-01A-01D-0983-08	18239660	72975123	98139944	113	4576										
FILIP1	27145	broad.mit.edu	37	chr6	76023089	76023089	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atttccgtatgaatacagctGgcgtttcttcctctgctgct	8	11	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:76023089G>C	uc003pia.2	-	5	2832	c.2459C>G	c.(2458-2460)CCA>CGA	p.P820R	FILIP1_uc003phy.1_Missense_Mutation_p.P820R|FILIP1_uc003phz.2_Missense_Mutation_p.P721R|FILIP1_uc010kbe.2_Missense_Mutation_p.P823R|FILIP1_uc003pib.1_Missense_Mutation_p.P572R	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	820										skin(3)|ovary(1)	4						GAATACAGCTGGCGTTTCTTC	0.463													5	133	---	---	---	---	PASS	C	76023089	C	C	76023089	3	2	5	1	0	0	0	0	1	0	0	0	5894	1348	47	4	1190	4	FILIP1	6	76023089	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	3047966	76023089	95091978	114	4577										
IBTK	25998	broad.mit.edu	37	chr6	82882108	82882108	+	Missense_Mutation	SNP	C	A	A													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gttatttacctgaatcagagCcaacggtttttctcgacttc							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:82882108C>A	uc003pjl.1	-	28	4446	c.3919G>T	c.(3919-3921)GCT>TCT	p.A1307S	IBTK_uc011dyu.1_Missense_Mutation_p.A258S|IBTK_uc011dyv.1_Missense_Mutation_p.A1292S|IBTK_uc011dyw.1_Missense_Mutation_p.A1106S|IBTK_uc010kbi.1_Missense_Mutation_p.A1001S	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	1307					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		TGAATCAGAGCCAACGGTTTT	0.373													5	31	---	---	---	---	PASS	A	82882108	A	A	82882108	3	1	5	1	0	0	0	0	1	0	0	0	7476	739	26	3	150	3	IBTK	6	82882108	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	6859019	82882108	88232959	115	4578	202	2								
IBTK	25998	broad.mit.edu	37	chr6	82882109	82882109	+	Missense_Mutation	SNP	C	A	A													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttatttacctgaatcagagcCaacggtttttctcgacttct							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:82882109C>A	uc003pjl.1	-	28	4445	c.3918G>T	c.(3916-3918)TTG>TTT	p.L1306F	IBTK_uc011dyu.1_Missense_Mutation_p.L257F|IBTK_uc011dyv.1_Missense_Mutation_p.L1291F|IBTK_uc011dyw.1_Missense_Mutation_p.L1105F|IBTK_uc010kbi.1_Missense_Mutation_p.L1000F	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	1306					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		GAATCAGAGCCAACGGTTTTT	0.368													5	30	---	---	---	---	PASS	A	82882109	A	A	82882109	3	1	5	1	0	0	0	0	1	0	0	0	7476	593	21	3	151	3	IBTK	6	82882109	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1	82882109	88232958	116	4579	202	2								
IBTK	25998	broad.mit.edu	37	chr6	82922461	82922461	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cttcagtttattaccagtgtTcttggcaataacattaattt	5	7	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:82922461T>C	uc003pjl.1	-	13	2781	c.2254A>G	c.(2254-2256)AAC>GAC	p.N752D	IBTK_uc011dyv.1_Missense_Mutation_p.N752D|IBTK_uc011dyw.1_Missense_Mutation_p.N551D|IBTK_uc010kbi.1_Missense_Mutation_p.N446D|IBTK_uc003pjm.2_Missense_Mutation_p.N752D	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	752					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		TTACCAGTGTTCTTGGCAATA	0.299													6	32	---	---	---	---	PASS	C	82922461	C	C	82922461	3	2	5	1	0	0	0	0	1	0	0	0	7476	1783	62	5	1875	5	IBTK	6	82922461	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	40352	82922461	88192606	117	4580										
QRSL1	55278	broad.mit.edu	37	chr6	107111000	107111000	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	catacttggagttcatcaaaGaggacaacagaacccgaagt	9	9	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:107111000G>C	uc003prm.2	+	10	1422	c.1306G>C	c.(1306-1308)GAG>CAG	p.E436Q		NM_018292	NP_060762	Q9H0R6	QRSL1_HUMAN	glutaminyl-tRNA synthase	436					translation		ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;0.00768)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.248)	Epithelial(6;0.000334)|all cancers(7;0.00157)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0152)	BRCA - Breast invasive adenocarcinoma(108;0.118)|all cancers(137;0.167)|Epithelial(106;0.176)		GTTCATCAAAGAGGACAACAG	0.413													13	29	---	---	---	---	PASS	C	107111000	C	C	107111000	3	2	5	1	0	0	0	0	1	0	0	0	12881	943	33	2	1344	2	QRSL1	6	107111000	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	24188539	107111000	64004067	118	4581										
FAM54A	113115	broad.mit.edu	37	chr6	136560824	136560824	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tggctggagagatgaaaactGaggaggaagtggtggaggag	20	2	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:136560824G>C	uc010kgp.1	-	6	1039	c.649C>G	c.(649-651)CAG>GAG	p.Q217E	FAM54A_uc003qgt.1_Missense_Mutation_p.Q217E|FAM54A_uc003qgu.1_Missense_Mutation_p.Q174E	NM_001099286	NP_001092756	Q6P444	FA54A_HUMAN	DUF729 domain containing 1	217	Pro-rich.									skin(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00228)|OV - Ovarian serous cystadenocarcinoma(155;0.00504)		GATGAAAACTgaggaggaagt	0.408													7	29	---	---	---	---	PASS	C	136560824	C	C	136560824	3	2	5	1	0	0	0	0	1	0	0	0	5582	1299	45	2	520	2	FAM54A	6	136560824	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	29449824	136560824	34554243	119	4582										
NUP43	348995	broad.mit.edu	37	chr6	150067096	150067096	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctgtaaatccattacatcacCatggtgtctgatatcacaca	5	11	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:150067096C>A	uc003qmz.2	-	2	280	c.223G>T	c.(223-225)GGT>TGT	p.G75C	NUP43_uc011eee.1_RNA|NUP43_uc011eef.1_Missense_Mutation_p.G75C	NM_198887	NP_942590	Q8NFH3	NUP43_HUMAN	nucleoporin 43kDa	75	WD 2.				carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			upper_aerodigestive_tract(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;4.71e-13)|GBM - Glioblastoma multiforme(68;0.101)		ATTACATCACCATGGTGTCTG	0.353													84	74	---	---	---	---	PASS	A	150067096	A	A	150067096	3	1	5	1	0	0	0	0	1	0	0	0	10765	594	21	3	947	3	NUP43	6	150067096	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	13506272	150067096	21047971	120	4583										
C6orf211	79624	broad.mit.edu	37	chr6	151773689	151773689	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcgcggaaagtgatggctgtCgtcccggcgtctctctcagg	14	12	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:151773689C>A	uc003qok.1	+	1	268	c.9C>A	c.(7-9)GTC>GTA	p.V3V	C6orf211_uc011ees.1_5'UTR|RMND1_uc003qoi.2_5'Flank	NM_024573	NP_078849	Q9H993	CF211_HUMAN	hypothetical protein LOC79624	3							protein binding				0			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)		TGATGGCTGTCGTCCCGGCGT	0.632													15	67	---	---	---	---	PASS	A	151773689	A	A	151773689	2	1	5	1	0	0	0	0	0	0	0	1	2354	871	31	2		2	C6orf211	6	151773689	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	1706593	151773689	19341378	121	4584										
MYCT1	80177	broad.mit.edu	37	chr6	153042995	153042995	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gccagtgctcccatctcacaGtggagttcaagcaggagatc	11	12	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:153042995G>A	uc003qpd.3	+	2	323	c.315G>A	c.(313-315)CAG>CAA	p.Q105Q	MYCT1_uc010kjc.1_Intron|MYCT1_uc003qpc.3_Silent_p.Q105Q	NM_025107	NP_079383	Q8N699	MYCT1_HUMAN	myc target 1	105	Bipartite nuclear localization signal (Potential).					nucleus				ovary(1)	1		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;1.33e-10)|BRCA - Breast invasive adenocarcinoma(81;0.143)		CCATCTCACAGTGGAGTTCAA	0.507													82	54	---	---	---	---	PASS	A	153042995	A	A	153042995	2	1	5	1	0	0	0	0	0	0	0	1	10022	1020	36	3		3	MYCT1	6	153042995	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	1269306	153042995	18072072	122	4585										
SLC22A1	6580	broad.mit.edu	37	chr6	160553335	160553335	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gggcgtgctcatggccttctCgcccaactacatgtccatgc	10	15	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr6:160553335C>A	uc003qtc.2	+	3	692	c.587C>A	c.(586-588)TCG>TAG	p.S196*	SLC22A1_uc003qtd.2_Nonsense_Mutation_p.S196*	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	196	Helical; (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		ATGGCCTTCTCGCCCAACTAC	0.577													5	155	---	---	---	---	PASS	A	160553335	A	A	160553335	4	1	5	1	0	0	0	0	0	1	0	0	14440	893	31	2	597	2	SLC22A1	6	160553335	Nonsense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	7510340	160553335	10561732	123	4586										
AMZ1	155185	broad.mit.edu	37	chr7	2740387	2740387	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gcacatctacctacagccgaTaggtacgggacgcctgcagc	11	14	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr7:2740387T>C	uc003smr.1	+	2	663	c.302T>C	c.(301-303)ATA>ACA	p.I101T	AMZ1_uc003sms.1_Missense_Mutation_p.I101T|AMZ1_uc011jwa.1_5'Flank	NM_133463	NP_597720	Q400G9	AMZ1_HUMAN	archaelysin family metallopeptidase 1	101							metallopeptidase activity|zinc ion binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;5.03e-14)		CTACAGCCGATAGGTACGGGA	0.632													14	19	---	---	---	---	PASS	C	2740387	C	C	2740387	3	2	5	1	0	0	0	0	1	0	0	0	596	1406	49	5	304	5	AMZ1	7	2740387	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08		2740387	156398276	124	4587										
MRPL32	64983	broad.mit.edu	37	chr7	42972006	42972006	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atggcgctggccatgctggtCttggtggtttcgccgtggtc	16	10	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr7:42972006C>G	uc003tia.2	+	1	68	c.21C>G	c.(19-21)GTC>GTG	p.V7V	C7orf25_uc010kxr.2_5'Flank|PSMA2_uc003thy.2_5'Flank|PSMA2_uc010kxt.2_5'Flank|PSMA2_uc003thz.1_5'Flank|MRPL32_uc003tib.2_RNA|MRPL32_uc003tic.2_5'UTR	NM_031903	NP_114109	Q9BYC8	RM32_HUMAN	mitochondrial ribosomal protein L32 precursor	7					translation	large ribosomal subunit|mitochondrial ribosome	structural constituent of ribosome				0						CCATGCTGGTCTTGGTGGTTT	0.652													15	19	---	---	---	---	PASS	G	42972006	G	G	42972006	2	3	5	1	0	0	0	0	0	0	0	1	9795	900	32	2		2	MRPL32	7	42972006	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	40231619	42972006	116166657	125	4588										
SRCRB4D	136853	broad.mit.edu	37	chr7	76023195	76023195	+	Frame_Shift_Del	DEL	G	-	-													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggtgagcagtgctgtctcccGggaaggctgggggccaactc							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr7:76023195delG	uc003ufb.2	-	8	1321	c.973delC	c.(973-975)CGGfs	p.R325fs	SRCRB4D_uc003ufa.2_5'Flank	NM_080744	NP_542782	Q8WTU2	SRB4D_HUMAN	scavenger receptor cysteine rich domain	325						extracellular region|membrane	scavenger receptor activity			pancreas(1)	1						GCTGTCTCCCGGGAAGGCTGG	0.682													4	2	---	---	---	---		-	76023195	-	-	76023195	7	5	5	1	0	1	0	1	0	0	0	0	15136	1115	39	0	770	0	SRCRB4D	7	76023195	Frame_Shift_Del	DEL	G	TCGA-18-3410-01A-01D-0983-08	33051189	76023195	83115468	126	4589										
ZNF804B	219578	broad.mit.edu	37	chr7	88963091	88963091	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	actgcagataagtgcaagtgCtgcaggtttgcaaataaaga	11	6	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr7:88963091C>T	uc011khi.1	+	4	1333	c.795C>T	c.(793-795)TGC>TGT	p.C265C		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	265						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AGTGCAAGTGCTGCAGGTTTG	0.368										HNSCC(36;0.09)			19	19	---	---	---	---	PASS	T	88963091	T	T	88963091	2	4	5	1	0	0	0	0	0	0	0	1	18168	805	28	3		3	ZNF804B	7	88963091	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	12939896	88963091	70175572	127	4590										
TRRAP	8295	broad.mit.edu	37	chr7	98506544	98506544	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tccgttccaagagcgagcagGagagtggcaatgggagagac	16	8	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr7:98506544G>C	uc003upp.2	+	14	1518	c.1309G>C	c.(1309-1311)GAG>CAG	p.E437Q	TRRAP_uc011kis.1_Missense_Mutation_p.E437Q|TRRAP_uc003upr.2_Missense_Mutation_p.E129Q	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	437					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GAGCGAGCAGGAGAGTGGCAA	0.542													3	31	---	---	---	---	PASS	C	98506544	C	C	98506544	3	2	5	1	0	0	0	0	1	0	0	0	16598	1175	41	2	1359	2	TRRAP	7	98506544	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	9543453	98506544	60632119	128	4591										
RELN	5649	broad.mit.edu	37	chr7	103629586	103629586	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgcggtacctaccatggtatTcttgtcccggaacgtagtag	11	10	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr7:103629586T>G	uc003vca.2	-	1	378	c.218A>C	c.(217-219)GAA>GCA	p.E73A	RELN_uc010liz.2_Missense_Mutation_p.E73A	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	73	Reelin.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		ACCATGGTATTCTTGTCCCGG	0.642													20	23	---	---	---	---	PASS	G	103629586	G	G	103629586	3	3	5	1	0	0	0	0	1	0	0	0	13220	1783	62	5	10424	5	RELN	7	103629586	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	5123042	103629586	55509077	129	4592										
LAMB4	22798	broad.mit.edu	37	chr7	107706244	107706244	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	caattgcagattacatctgaGctccacagattctgataaca	6	10	2	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr7:107706244G>T	uc010ljo.1	-	21	2883	c.2799C>A	c.(2797-2799)AGC>AGA	p.S933R	LAMB4_uc003vey.2_Missense_Mutation_p.S933R|LAMB4_uc010ljp.1_5'Flank	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	933	Laminin EGF-like 9.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						TTACATCTGAGCTCCACAGAT	0.418													20	66	---	---	---	---	PASS	T	107706244	T	T	107706244	3	4	5	1	0	0	0	0	1	0	0	0	8613	962	34	3	2542	3	LAMB4	7	107706244	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	4076658	107706244	51432419	130	4593										
KCND2	3751	broad.mit.edu	37	chr7	119915186	119915186	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cgccttgcccaccatgactgCaaggcagagggtctggaggg	15	12	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr7:119915186C>T	uc003vjj.1	+	1	1465	c.500C>T	c.(499-501)GCA>GTA	p.A167V		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	167	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					ACCATGACTGCAAGGCAGAGG	0.607													13	37	---	---	---	---	PASS	T	119915186	T	T	119915186	3	4	5	1	0	0	0	0	1	0	0	0	8019	710	25	3	502	3	KCND2	7	119915186	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	12208942	119915186	39223477	131	4594										
C7orf45	136263	broad.mit.edu	37	chr7	129855864	129855864	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gcaaagacagtgcctgggatCcctcacaaacaatgaagaaa	9	10	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr7:129855864C>T	uc003vpp.2	+	3	336	c.289C>T	c.(289-291)CCC>TCC	p.P97S		NM_145268	NP_660311	Q8WWF3	CG045_HUMAN	hypothetical protein LOC136263	97						integral to membrane					0	Melanoma(18;0.0435)					TGCCTGGGATCCCTCACAAAC	0.428													32	50	---	---	---	---	PASS	T	129855864	T	T	129855864	3	4	5	1	0	0	0	0	1	0	0	0	2395	855	30	2	299	2	C7orf45	7	129855864	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	9940678	129855864	29282799	132	4595										
TSGA13	114960	broad.mit.edu	37	chr7	130353950	130353950	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gttctggtgggcatgtcttcCaagagcgatgcgagtgtcag	15	8	3	1	rs149212840		TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr7:130353950C>A	uc003vqi.2	-	8	1189	c.732G>T	c.(730-732)TTG>TTT	p.L244F	COPG2_uc003vqh.1_5'Flank|TSGA13_uc003vqj.2_Missense_Mutation_p.L244F	NM_052933	NP_443165	Q96PP4	TSG13_HUMAN	testis specific, 13	244										ovary(2)	2	Melanoma(18;0.0435)					GCATGTCTTCCAAGAGCGATG	0.582													5	54	---	---	---	---	PASS	A	130353950	A	A	130353950	3	1	5	1	0	0	0	0	1	0	0	0	16616	593	21	3	99	3	TSGA13	7	130353950	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	498086	130353950	28784713	133	4596										
AMAC1L2	83650	broad.mit.edu	37	chr8	11189484	11189484	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cgctgtcctgcattccgaggTggttgtggcccttatactgc	12	12	0	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:11189484T>C	uc003wtp.1	+	1	990	c.869T>C	c.(868-870)GTG>GCG	p.V290A		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	290	DUF6 2.|Helical; (Potential).					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		CATTCCGAGGTGGTTGTGGCC	0.577													7	53	---	---	---	---	PASS	C	11189484	C	C	11189484	3	2	5	1	0	0	0	0	1	0	0	0	560	1696	59	5	871	5	AMAC1L2	8	11189484	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08		11189484	135174538	134	4597										
PSD3	23362	broad.mit.edu	37	chr8	18730071	18730071	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtaacactgtcgagcccagaGtggcagccagtaagaggctg	14	10	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:18730071G>A	uc003wza.2	-	3	406	c.303C>T	c.(301-303)CAC>CAT	p.H101H		NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	101					regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		CGAGCCCAGAGTGGCAGCCAG	0.522													11	15	---	---	---	---	PASS	A	18730071	A	A	18730071	2	1	5	1	0	0	0	0	0	0	0	1	12648	1020	36	3		3	PSD3	8	18730071	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	7540587	18730071	127633951	135	4598										
XPO7	23039	broad.mit.edu	37	chr8	21856683	21856683	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gggcatctccatctgcttctCcatgctgaaggctgctctca	9	14	4	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:21856683C>A	uc003xaa.3	+	23	2612	c.2510C>A	c.(2509-2511)TCC>TAC	p.S837Y	XPO7_uc010lti.2_Missense_Mutation_p.S846Y|XPO7_uc010ltk.2_Missense_Mutation_p.S838Y	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	837					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		ATCTGCTTCTCCATGCTGAAG	0.502													8	304	---	---	---	---	PASS	A	21856683	A	A	21856683	3	1	5	1	0	0	0	0	1	0	0	0	17446	855	30	2	2652	2	XPO7	8	21856683	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	3126612	21856683	124507339	136	4599										
SLC25A37	51312	broad.mit.edu	37	chr8	23423786	23423786	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccatgtattttgcctgctatGaaaacatgaaaaggacttta	7	7	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:23423786G>C	uc003xdo.2	+	2	529	c.376G>C	c.(376-378)GAA>CAA	p.E126Q	SLC25A37_uc003xdn.1_Missense_Mutation_p.E126Q|SLC25A37_uc003xdp.2_RNA|SLC25A37_uc010ltz.2_RNA|SLC25A37_uc003xdq.2_5'Flank	NM_016612	NP_057696	Q9NYZ2	MFRN1_HUMAN	solute carrier family 25, member 37	126	Solcar 1.				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Prostate(55;0.114)		Colorectal(74;0.0198)|COAD - Colon adenocarcinoma(73;0.0751)		TGCCTGCTATGAAAACATGAA	0.488													17	64	---	---	---	---	PASS	C	23423786	C	C	23423786	3	2	5	1	0	0	0	0	1	0	0	0	14501	1291	45	2	382	2	SLC25A37	8	23423786	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	1567103	23423786	122940236	137	4600										
SCARA5	286133	broad.mit.edu	37	chr8	27737097	27737097	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gcgccttaccttgcccgaatCgagctgtgcggtacacctcc	10	16	0	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:27737097C>G	uc003xgj.2	-	8	1780	c.1340G>C	c.(1339-1341)CGA>CCA	p.R447P	SCARA5_uc010luz.2_Missense_Mutation_p.R222P	NM_173833	NP_776194	Q6ZMJ2	SCAR5_HUMAN	scavenger receptor class A, member 5	447	SRCR.|Extracellular (Potential).				cellular iron ion homeostasis|endocytosis|iron ion transmembrane transport|protein homotrimerization	integral to plasma membrane	ferritin receptor activity|scavenger receptor activity			central_nervous_system(1)|skin(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)|Colorectal(74;0.228)		TTGCCCGAATCGAGCTGTGCG	0.527													10	65	---	---	---	---	PASS	G	27737097	G	G	27737097	3	3	5	1	0	0	0	0	1	0	0	0	13880	884	31	2	155	2	SCARA5	8	27737097	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	4313311	27737097	118626925	138	4601										
RP1	6101	broad.mit.edu	37	chr8	55539799	55539799	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gcaggtgttccctttcattcTgcaatatgtaattcatccac	6	11	3	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:55539799T>C	uc003xsd.1	+	4	3505	c.3357T>C	c.(3355-3357)TCT>TCC	p.S1119S	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1119					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CCTTTCATTCTGCAATATGTA	0.423													14	33	---	---	---	---	PASS	C	55539799	C	C	55539799	2	2	5	1	0	0	0	0	0	0	0	1	13532	1567	55	5		5	RP1	8	55539799	Silent	SNP	T	TCGA-18-3410-01A-01D-0983-08	27802702	55539799	90824223	139	4602										
CHD7	55636	broad.mit.edu	37	chr8	61749418	61749418	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggccgagtaagaggcaacctCcgccaggcagctatcgacag	13	13	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:61749418C>A	uc003xue.2	+	17	4509	c.4032C>A	c.(4030-4032)CTC>CTA	p.L1344L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1344	Helicase C-terminal.				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)			GAGGCAACCTCCGCCAGGCAG	0.498													7	167	---	---	---	---	PASS	A	61749418	A	A	61749418	2	1	5	1	0	0	0	0	0	0	0	1	3330	842	30	2		2	CHD7	8	61749418	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	6209619	61749418	84614604	140	4603										
ZFHX4	79776	broad.mit.edu	37	chr8	77618478	77618478	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gcaacctcagtattcatatgCagtcggacaagcacctgaac	8	12	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:77618478C>T	uc003yav.2	+	2	2542	c.2155C>T	c.(2155-2157)CAG>TAG	p.Q719*	ZFHX4_uc003yat.1_Nonsense_Mutation_p.Q719*|ZFHX4_uc003yau.1_Nonsense_Mutation_p.Q719*|ZFHX4_uc003yaw.1_Nonsense_Mutation_p.Q719*	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	719	C2H2-type 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TATTCATATGCAGTCGGACAA	0.517										HNSCC(33;0.089)			19	36	---	---	---	---	PASS	T	77618478	T	T	77618478	4	4	5	1	0	0	0	0	0	1	0	0	17632	711	25	3	2157	3	ZFHX4	8	77618478	Nonsense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	15869060	77618478	68745544	141	4604										
MMP16	4325	broad.mit.edu	37	chr8	89086966	89086966	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tttctcactcgccaaaaccaCtggtcctgcaaaccaagcaa	5	15	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:89086966C>G	uc003yeb.3	-	7	1371	c.1089G>C	c.(1087-1089)CAG>CAC	p.Q363H	MMP16_uc003yec.2_Missense_Mutation_p.Q363H	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	363	Extracellular (Potential).|Hemopexin-like 1.				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						GCCAAAACCACTGGTCCTGCA	0.493													51	90	---	---	---	---	PASS	G	89086966	G	G	89086966	3	3	5	1	0	0	0	0	1	0	0	0	9655	564	20	4	906	4	MMP16	8	89086966	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	11468488	89086966	57277056	142	4605										
UBR5	51366	broad.mit.edu	37	chr8	103299702	103299702	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctgcagtgacaacgcttctgCgcccactagcattatcttgg	9	13	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:103299702C>G	uc003ykr.1	-	37	4949	c.4916G>C	c.(4915-4917)CGC>CCC	p.R1639P	UBR5_uc003yks.1_Missense_Mutation_p.R1639P	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1639					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			AACGCTTCTGCGCCCACTAGC	0.443													25	40	---	---	---	---	PASS	G	103299702	G	G	103299702	3	3	5	1	0	0	0	0	1	0	0	0	16902	768	27	4	3575	4	UBR5	8	103299702	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	14212736	103299702	43064320	143	4606										
EIF3E	3646	broad.mit.edu	37	chr8	109215290	109215290	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctaaaggaaaggcttttggtCttttcaatcacttgctgata	8	7	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:109215290C>A	uc003ymu.2	-	12	1249	c.1221G>T	c.(1219-1221)AAG>AAT	p.K407N	EIF3E_uc003ymt.2_Missense_Mutation_p.K358N|EIF3E_uc003ymv.2_Missense_Mutation_p.K314N	NM_001568	NP_001559	P60228	EIF3E_HUMAN	eukaryotic translation initiation factor 3,	407	Sufficient for interaction with MCM7.				negative regulation of translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|eukaryotic translation initiation factor 3 complex|PML body	protein N-terminus binding			ovary(2)|kidney(1)	3			OV - Ovarian serous cystadenocarcinoma(57;6.84e-10)			GGCTTTTGGTCTTTTCAATCA	0.388													34	48	---	---	---	---	PASS	A	109215290	A	A	109215290	3	1	5	1	0	0	0	0	1	0	0	0	5015	912	32	2	124	2	EIF3E	8	109215290	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	5915588	109215290	37148732	144	4607										
WDR67	93594	broad.mit.edu	37	chr8	124146370	124146370	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ataggtatatatgagagatcGagaaattgctgccacagcca	10	7	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:124146370G>T	uc003ypp.1	+	17	2513	c.2423G>T	c.(2422-2424)CGA>CTA	p.R808L	WDR67_uc011lig.1_Intron|WDR67_uc011lih.1_Missense_Mutation_p.R698L|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Missense_Mutation_p.R442L|WDR67_uc003ypt.1_Missense_Mutation_p.R265L|WDR67_uc003ypu.1_Missense_Mutation_p.R265L	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	808	Potential.					centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			ATGAGAGATCGAGAAATTGCT	0.328													6	134	---	---	---	---	PASS	T	124146370	T	T	124146370	3	4	5	1	0	0	0	0	1	0	0	0	17315	1058	37	2	2489	2	WDR67	8	124146370	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	14931080	124146370	22217652	145	4608										
CYP11B2	1585	broad.mit.edu	37	chr8	143995723	143995723	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gttccatagagttggccttgAtggcttctagtgacagttcc	11	9	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:143995723A>G	uc003yxk.1	-	5	914	c.911T>C	c.(910-912)ATC>ACC	p.I304T		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	304					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	GTTGGCCTTGATGGCTTCTAG	0.587									Familial_Hyperaldosteronism_type_I				16	26	---	---	---	---	PASS	G	143995723	G	G	143995723	3	3	5	1	0	0	0	0	1	0	0	0	4146	333	12	5	620	5	CYP11B2	8	143995723	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	19849353	143995723	2368299	146	4609										
PARP10	84875	broad.mit.edu	37	chr8	145058587	145058587	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	agccgcctggcaggaagcctGggctccacagagctgcaggg	16	13	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr8:145058587G>A	uc003zal.3	-	6	1579	c.1471C>T	c.(1471-1473)CAG>TAG	p.Q491*	PARP10_uc003zak.3_Nonsense_Mutation_p.Q197*|PARP10_uc011lku.1_Nonsense_Mutation_p.Q503*|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Nonsense_Mutation_p.Q491*	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	491						Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CAGGAAGCCTGGGCTCCACAG	0.602													8	17	---	---	---	---	PASS	A	145058587	A	A	145058587	4	1	5	1	0	0	0	0	0	1	0	0	11455	1357	47	3	1630	3	PARP10	8	145058587	Nonsense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	1062864	145058587	1305435	147	4610										
GLDC	2731	broad.mit.edu	37	chr9	6604779	6604779	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aggtcagtagcacagcaggcCaggctctagaaaggaagtga	14	8	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr9:6604779C>T	uc003zkc.2	-	7	1060	c.867G>A	c.(865-867)CTG>CTA	p.L289L		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	289					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	CACAGCAGGCCAGGCTCTAGA	0.502													89	53	---	---	---	---	PASS	T	6604779	T	T	6604779	2	4	5	1	0	0	0	0	0	0	0	1	6433	581	21	3		3	GLDC	9	6604779	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08		6604779	134608652	148	4611										
HAUS6	54801	broad.mit.edu	37	chr9	19058888	19058888	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctctttgattgtgcaacacaGgtaatgattctggcaatact	8	8	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr9:19058888G>T	uc003znk.2	-	16	2130	c.1877C>A	c.(1876-1878)CCT>CAT	p.P626H	HAUS6_uc011lmz.1_Missense_Mutation_p.P346H|HAUS6_uc003znl.1_Missense_Mutation_p.P490H	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	626					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						GTGCAACACAGGTAATGATTC	0.363													5	21	---	---	---	---	PASS	T	19058888	T	T	19058888	3	4	5	1	0	0	0	0	1	0	0	0	6970	1000	35	3	998	3	HAUS6	9	19058888	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	12454109	19058888	122154543	149	4612										
SMU1	55234	broad.mit.edu	37	chr9	33053169	33053169	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtgtttgatctgttgcacacCacaaagtgctcagggttttt	10	8	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr9:33053169C>A	uc003zsf.1	-	10	1350	c.1242G>T	c.(1240-1242)GTG>GTT	p.V414V	SMU1_uc010mjo.1_Silent_p.V414V|SMU1_uc010mjp.1_Intron|SMU1_uc011lnu.1_Silent_p.V253V	NM_018225	NP_060695	Q2TAY7	SMU1_HUMAN	smu-1 suppressor of mec-8 and unc-52 homolog	414	WD 5.					cytoplasm|nucleus				ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0227)	GBM - Glioblastoma multiforme(74;0.11)		TGTTGCACACCACAAAGTGCT	0.483													6	127	---	---	---	---	PASS	A	33053169	A	A	33053169	2	1	5	1	0	0	0	0	0	0	0	1	14817	581	21	3		3	SMU1	9	33053169	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	13994281	33053169	108160262	150	4613										
TRPM3	80036	broad.mit.edu	37	chr9	73736162	73736162	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gatggtccagtttaggggtcGaggagcatcagcctgattca	14	8	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr9:73736162G>T	uc004aid.2	-	1	353	c.109C>A	c.(109-111)CGA>AGA	p.R37R	TRPM3_uc004aic.2_Silent_p.R37R|TRPM3_uc010mor.2_Silent_p.R37R|TRPM3_uc004aii.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	37	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						TTTAGGGGTCGAGGAGCATCA	0.498													5	65	---	---	---	---	PASS	T	73736162	T	T	73736162	2	4	5	1	0	0	0	0	0	0	0	1	16584	1066	37	2		2	TRPM3	9	73736162	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	40682993	73736162	67477269	151	4614										
VPS13A	23230	broad.mit.edu	37	chr9	79896842	79896842	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aatgttttacaattgattaaGgtatgagtagataatttatt	7	1	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr9:79896842G>T	uc004akr.2	+	28	3224	c.2964G>T	c.(2962-2964)AAG>AAT	p.K988N	VPS13A_uc004akp.3_Missense_Mutation_p.K988N|VPS13A_uc004akq.3_Missense_Mutation_p.K988N|VPS13A_uc004aks.2_Missense_Mutation_p.K988N	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	988					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						AATTGATTAAGGTATGAGTAG	0.259													13	2	---	---	---	---	PASS	T	79896842	T	T	79896842	3	4	5	1	0	0	0	0	1	0	0	0	17186	1014	35	3	3074	3	VPS13A	9	79896842	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	6160680	79896842	61316589	152	4615										
IPPK	64768	broad.mit.edu	37	chr9	95400369	95400369	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccggactcagggtgcctgccCggcccttgtccgagccactc	12	18	1	0	rs148738677		TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr9:95400369C>T	uc004asl.1	-	9	1107	c.830G>A	c.(829-831)CGG>CAG	p.R277Q	IPPK_uc004ask.1_5'Flank	NM_022755	NP_073592	Q9H8X2	IPPK_HUMAN	inositol 1,3,4,5,6-pentakisphosphate 2-kinase	277					inositol or phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol pentakisphosphate 2-kinase activity			ovary(2)	2						GGTGCCTGCCCGGCCCTTGTC	0.682													7	4	---	---	---	---	PASS	T	95400369	T	T	95400369	3	4	5	1	0	0	0	0	1	0	0	0	7801	652	23	1	665	1	IPPK	9	95400369	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	15503527	95400369	45813062	153	4616										
ZNF462	58499	broad.mit.edu	37	chr9	109685872	109685872	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aggatgaatttgccattgcaGaagatttatcaggtaaatct	9	5	2	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr9:109685872G>C	uc004bcz.2	+	2	497	c.208G>C	c.(208-210)GAA>CAA	p.E70Q	ZNF462_uc010mto.2_5'Flank|ZNF462_uc004bda.2_5'Flank	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	70					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						TGCCATTGCAGAAGATTTATC	0.403													7	57	---	---	---	---	PASS	C	109685872	C	C	109685872	3	2	5	1	0	0	0	0	1	0	0	0	17923	943	33	2	210	2	ZNF462	9	109685872	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	14285503	109685872	31527559	154	4617										
TLR4	7099	broad.mit.edu	37	chr9	120475852	120475852	+	Frame_Shift_Del	DEL	T	-	-													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttgaaaatggctggcaattcTttccaggaaaacttccttcc							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr9:120475852delT	uc004bjz.2	+	3	1737	c.1446delT	c.(1444-1446)TCTfs	p.S482fs	TLR4_uc004bka.2_Frame_Shift_Del_p.S442fs|TLR4_uc004bkb.2_Frame_Shift_Del_p.S282fs	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	482	LRR 15.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						CTGGCAATTCTTTCCAGGAAA	0.443													26	34	---	---	---	---		-	120475852	-	-	120475852	7	5	5	1	0	1	0	1	0	0	0	0	15950	1596	56	0	1456	0	TLR4	9	120475852	Frame_Shift_Del	DEL	T	TCGA-18-3410-01A-01D-0983-08	10789980	120475852	20737579	155	4618										
FNBP1	23048	broad.mit.edu	37	chr9	132689609	132689609	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	acaatcctcctttcctccatCtcttgtattttctgcaacat	2	14	2	0	rs41279170		TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr9:132689609C>T	uc004byw.1	-	8	873	c.654G>A	c.(652-654)GAG>GAA	p.E218E	FNBP1_uc011mbv.1_Silent_p.E218E|FNBP1_uc011mbw.1_Silent_p.E218E|FNBP1_uc004bza.2_Silent_p.E218E|FNBP1_uc004byz.1_Silent_p.E218E|FNBP1_uc004byx.1_Silent_p.E139E|FNBP1_uc004byy.1_Silent_p.E139E	NM_015033	NP_055848	Q96RU3	FNBP1_HUMAN	formin binding protein 1	218	Interaction with microtubules (By similarity).|Self-association, lipid-binding and induction of membrane tubulation.				endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|lysosome|plasma membrane	identical protein binding|lipid binding				0		Ovarian(14;0.000536)		GBM - Glioblastoma multiforme(294;0.0378)		TTTCCTCCATCTCTTGTATTT	0.393			T	MLL	AML								38	137	---	---	---	---	PASS	T	132689609	T	T	132689609	2	4	5	1	0	0	0	0	0	0	0	1	5965	912	32	2		2	FNBP1	9	132689609	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	12213757	132689609	8523822	156	4619										
C9orf171	389799	broad.mit.edu	37	chr9	135357713	135357713	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtaggctgccggcccggcctCggtgggaacctcttattctg	14	13	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr9:135357713C>A	uc004cbn.2	+	2	260	c.212C>A	c.(211-213)TCG>TAG	p.S71*	C9orf171_uc004cbo.2_Intron	NM_207417	NP_997300	Q6ZQR2	CI171_HUMAN	hypothetical protein LOC389799	71										ovary(4)|large_intestine(1)	5						GGCCCGGCCTCGGTGGGAACC	0.522													4	35	---	---	---	---	PASS	A	135357713	A	A	135357713	4	1	5	1	0	0	0	0	0	1	0	0	2470	893	31	2	218	2	C9orf171	9	135357713	Nonsense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2668104	135357713	5855718	157	4620										
FCN1	2219	broad.mit.edu	37	chr9	137802992	137802992	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cactcacccgcactgcccccGacaaaggctcccagtaccag	7	20	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr9:137802992G>T	uc004cfi.2	-	8	812	c.720C>A	c.(718-720)GTC>GTA	p.V240V		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	240	Fibrinogen C-terminal.				opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		CACTGCCCCCGACAAAGGCTC	0.468													5	150	---	---	---	---	PASS	T	137802992	T	T	137802992	2	4	5	1	0	0	0	0	0	0	0	1	5791	1045	37	2		2	FCN1	9	137802992	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	2445279	137802992	3410439	158	4621										
NET1	10276	broad.mit.edu	37	chr10	5494346	5494346	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tacccttcgtggtgaccacaGatccccagcctctgcccaga	8	17	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr10:5494346G>C	uc001iia.2	+	5	527	c.389G>C	c.(388-390)AGA>ACA	p.R130T	NET1_uc010qar.1_5'UTR|NET1_uc001iib.2_Missense_Mutation_p.R76T|NET1_uc010qas.1_5'UTR	NM_001047160	NP_001040625	Q7Z628	ARHG8_HUMAN	neuroepithelial cell transforming gene 1 isoform	130					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1						GGTGACCACAGATCCCCAGCC	0.428													5	16	---	---	---	---	PASS	C	5494346	C	C	5494346	3	2	5	1	0	0	0	0	1	0	0	0	10338	942	33	2	504	2	NET1	10	5494346	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08		5494346	130040401	159	4622										
PRKCQ	5588	broad.mit.edu	37	chr10	6549443	6549443	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	attcattagcattcggccttGaggtttcagctctaactggt	9	9	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr10:6549443G>C	uc001ijj.1	-	4	409	c.334C>G	c.(334-336)CAA>GAA	p.Q112E	PRKCQ_uc009xim.1_Missense_Mutation_p.Q112E|PRKCQ_uc001iji.1_Missense_Mutation_p.Q145E|PRKCQ_uc009xin.1_Missense_Mutation_p.Q76E|PRKCQ_uc010qax.1_Intron	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	112	C2.				axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						ATTCGGCCTTGAGGTTTCAGC	0.478													37	117	---	---	---	---	PASS	C	6549443	C	C	6549443	3	2	5	1	0	0	0	0	1	0	0	0	12515	1299	45	2	1846	2	PRKCQ	10	6549443	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	1055097	6549443	128985304	160	4623										
GPR158	57512	broad.mit.edu	37	chr10	25888200	25888200	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atctgggatagttttaaagtGtagcatctccaggaagaaga	11	5	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr10:25888200G>T	uc001isj.2	+	11	3705	c.3645G>T	c.(3643-3645)GTG>GTT	p.V1215V	GPR158_uc001isk.2_Silent_p.V590V	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1215	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GTTTTAAAGTGTAGCATCTCC	0.418													12	32	---	---	---	---	PASS	T	25888200	T	T	25888200	2	4	5	1	0	0	0	0	0	0	0	1	6663	1364	48	3		3	GPR158	10	25888200	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	19338757	25888200	109646547	161	4624										
SVIL	6840	broad.mit.edu	37	chr10	29821624	29821624	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtccttatacttcaaggcctGgagctgaggggggcctgtga	15	9	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr10:29821624G>T	uc001iut.1	-	8	2425	c.1672C>A	c.(1672-1674)CAG>AAG	p.Q558K	SVIL_uc001iuu.1_Intron|SVIL_uc009xld.1_Missense_Mutation_p.Q558K	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	558					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TTCAAGGCCTGGAGCTGAGGG	0.572													5	70	---	---	---	---	PASS	T	29821624	T	T	29821624	3	4	5	1	0	0	0	0	1	0	0	0	15418	1357	47	3	5096	3	SVIL	10	29821624	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	3933424	29821624	105713123	162	4625										
ZEB1	6935	broad.mit.edu	37	chr10	31812972	31812972	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	agacagaaaatggaatgtatGcttgtgatttgtgtgacaag	12	3	0	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr10:31812972G>C	uc001ivs.3	+	8	2776	c.2713G>C	c.(2713-2715)GCT>CCT	p.A905P	ZEB1_uc001ivr.3_Missense_Mutation_p.A687P|ZEB1_uc010qee.1_Missense_Mutation_p.A687P|ZEB1_uc010qef.1_Missense_Mutation_p.A687P|ZEB1_uc009xlk.1_Missense_Mutation_p.A687P|ZEB1_uc001ivt.3_Missense_Mutation_p.A687P|ZEB1_uc001ivu.3_Missense_Mutation_p.A906P|ZEB1_uc001ivv.3_Missense_Mutation_p.A885P|ZEB1_uc010qeh.1_Missense_Mutation_p.A838P|ZEB1_uc009xlp.2_Missense_Mutation_p.A889P	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	905	C2H2-type 5.		A -> T (in FECD6).		cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				TGGAATGTATGCTTGTGATTT	0.368													10	51	---	---	---	---	PASS	C	31812972	C	C	31812972	3	2	5	1	0	0	0	0	1	0	0	0	17620	1319	46	4	2757	4	ZEB1	10	31812972	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	1991348	31812972	103721775	163	4626										
RPP30	10556	broad.mit.edu	37	chr10	92660332	92660332	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctgtttgttttacagaaactAgaaaaactgcttttggaatt	7	5	0	2	rs139597628		TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr10:92660332A>G	uc009xtx.2	+	11	738	c.703A>G	c.(703-705)AGA>GGA	p.R235G	RPP30_uc001khd.2_Missense_Mutation_p.R235G	NM_006413	NP_006404	P78346	RPP30_HUMAN	ribonuclease P/MRP 30kDa subunit isoform b	235					tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity				0						TACAGAAACTAGAAAAACTGC	0.383													84	50	---	---	---	---	PASS	G	92660332	G	G	92660332	3	3	5	1	0	0	0	0	1	0	0	0	13612	412	15	5	745	5	RPP30	10	92660332	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	60847360	92660332	42874415	164	4627										
LGI1	9211	broad.mit.edu	37	chr10	95557020	95557020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tccttacacgcgtggtacagGgacactgatgtggaatatct	11	9	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr10:95557020G>T	uc001kjc.3	+	8	1470	c.1134G>T	c.(1132-1134)AGG>AGT	p.R378S	LGI1_uc010qnv.1_Missense_Mutation_p.R330S|LGI1_uc001kjd.3_Intron|LGI1_uc009xui.2_RNA|LGI1_uc001kje.2_Intron	NM_005097	NP_005088	O95970	LGI1_HUMAN	leucine-rich, glioma inactivated 1 precursor	378	EAR 4.				axon guidance|cell proliferation|positive regulation of cell growth|positive regulation of synaptic transmission	cell junction|extracellular space|synapse	receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4		Colorectal(252;0.124)				CGTGGTACAGGGACACTGATG	0.418													5	36	---	---	---	---	PASS	T	95557020	T	T	95557020	3	4	5	1	0	0	0	0	1	0	0	0	8751	1223	43	3	1164	3	LGI1	10	95557020	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	2896688	95557020	39977727	165	4628										
PLCE1	51196	broad.mit.edu	37	chr10	95931253	95931253	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctggtgatgaggtttaatgaGgtaagaagccactttttgat	12	4	0	5			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr10:95931253G>T	uc001kjk.2	+	4	2443	c.1809G>T	c.(1807-1809)GAG>GAT	p.E603D	PLCE1_uc010qnx.1_Missense_Mutation_p.E603D|PLCE1_uc001kjm.2_Missense_Mutation_p.E295D	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	603	Ras-GEF.				activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GGTTTAATGAGGTAAGAAGCC	0.453													17	16	---	---	---	---	PASS	T	95931253	T	T	95931253	3	4	5	1	0	0	0	0	1	0	0	0	12034	1014	35	3	2105	3	PLCE1	10	95931253	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	374233	95931253	39603494	166	4629										
NRAP	4892	broad.mit.edu	37	chr10	115350345	115350345	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gaggtggctcacatcactctGcagctggtgggccttctgag	14	11	4	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr10:115350345G>A	uc001laj.2	-	40	5112	c.4948C>T	c.(4948-4950)CAG>TAG	p.Q1650*	NRAP_uc009xyb.2_Nonsense_Mutation_p.Q403*|NRAP_uc001lak.2_Nonsense_Mutation_p.Q1615*|NRAP_uc001lal.3_Nonsense_Mutation_p.Q1650*	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	1650	Nebulin 44.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		ACATCACTCTGCAGCTGGTGG	0.622													5	18	---	---	---	---	PASS	A	115350345	A	A	115350345	4	1	5	1	0	0	0	0	0	1	0	0	10638	1328	46	3	256	3	NRAP	10	115350345	Nonsense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	19419092	115350345	20184402	167	4630										
TDRD1	56165	broad.mit.edu	37	chr10	115970710	115970710	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccagccattggtgatatatgTtgtgctcagttctcaggtaa	10	8	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr10:115970710T>C	uc001lbg.1	+	13	1797	c.1644T>C	c.(1642-1644)TGT>TGC	p.C548C	TDRD1_uc001lbf.2_Silent_p.C539C|TDRD1_uc001lbh.1_Silent_p.C539C|TDRD1_uc001lbi.1_Silent_p.C539C|TDRD1_uc010qsc.1_Silent_p.C209C|TDRD1_uc001lbj.2_Silent_p.C257C	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	548	Tudor 2.				DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		GTGATATATGTTGTGCTCAGT	0.353													9	41	---	---	---	---	PASS	C	115970710	C	C	115970710	2	2	5	1	0	0	0	0	0	0	0	1	15727	1731	60	5		5	TDRD1	10	115970710	Silent	SNP	T	TCGA-18-3410-01A-01D-0983-08	620365	115970710	19564037	168	4631										
GLRX3	10539	broad.mit.edu	37	chr10	131958268	131958268	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttattttaaagttggaagctGaaggtgttcctgaagtatct	10	4	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr10:131958268G>A	uc001lkm.1	+	3	233	c.211G>A	c.(211-213)GAA>AAA	p.E71K	GLRX3_uc001lkn.1_Missense_Mutation_p.E71K|GLRX3_uc001lko.2_RNA	NM_006541	NP_006532	O76003	GLRX3_HUMAN	glutaredoxin 3	71	Thioredoxin.				cell redox homeostasis|negative regulation of cardiac muscle hypertrophy|regulation of the force of heart contraction	cell cortex	electron carrier activity|iron-sulfur cluster binding|metal ion binding|protein disulfide oxidoreductase activity				0		all_cancers(35;9.59e-07)|all_epithelial(44;1.48e-06)|Lung NSC(174;0.00566)|all_lung(145;0.00949)|Colorectal(57;0.142)|all_neural(114;0.16)|Breast(234;0.173)|Glioma(114;0.222)		OV - Ovarian serous cystadenocarcinoma(35;0.00218)		GTTGGAAGCTGAAGGTGTTCC	0.318													8	36	---	---	---	---	PASS	A	131958268	A	A	131958268	3	1	5	1	0	0	0	0	1	0	0	0	6461	1291	45	2	221	2	GLRX3	10	131958268	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	15987558	131958268	3576479	169	4632										
OR52E6	390078	broad.mit.edu	37	chr11	5862792	5862792	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gccaccaatacgatgctctcCatgacagtgaagaaatggat	9	10	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:5862792C>A	uc010qzq.1	-	1	336	c.336G>T	c.(334-336)ATG>ATT	p.M112I	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CGATGCTCTCCATGACAGTGA	0.448													6	135	---	---	---	---	PASS	A	5862792	A	A	5862792	3	1	5	1	0	0	0	0	1	0	0	0	11117	594	21	3	607	3	OR52E6	11	5862792	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08		5862792	129143724	170	4633										
SPTY2D1	144108	broad.mit.edu	37	chr11	18637425	18637425	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gactctgcgtgattgtactcGaggaattcattctcttcttc	8	10	4	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:18637425G>T	uc001moy.2	-	3	612	c.396C>A	c.(394-396)CTC>CTA	p.L132L	SPTY2D1_uc010rdi.1_Silent_p.L132L	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	132	Potential.									breast(1)	1						GATTGTACTCGAGGAATTCAT	0.473													6	91	---	---	---	---	PASS	T	18637425	T	T	18637425	2	4	5	1	0	0	0	0	0	0	0	1	15125	1045	37	2		2	SPTY2D1	11	18637425	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	12774633	18637425	116369091	171	4634										
EHF	26298	broad.mit.edu	37	chr11	34680224	34680224	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	agtggctcagctatggggtaAaaagaagaacaacagcagca	12	7	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:34680224A>G	uc001mvr.1	+	8	863	c.752A>G	c.(751-753)AAA>AGA	p.K251R	EHF_uc009yke.1_Missense_Mutation_p.K228R|EHF_uc009ykf.1_Missense_Mutation_p.K254R	NM_012153	NP_036285	Q9NZC4	EHF_HUMAN	ets homologous factor	251	ETS.				cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)			CTATGGGGTAAAAAGAAGAAC	0.453													33	49	---	---	---	---	PASS	G	34680224	G	G	34680224	3	3	5	1	0	0	0	0	1	0	0	0	4981	14	1	5	778	5	EHF	11	34680224	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	16042799	34680224	100326292	172	4635										
PRR5L	79899	broad.mit.edu	37	chr11	36472839	36472839	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	caagtggtttctcctttcctCggcatcagcggggaccgtag	12	12	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:36472839C>A	uc001mwo.3	+	8	1055	c.666C>A	c.(664-666)CTC>CTA	p.L222L	PRR5L_uc001mwp.2_Silent_p.L222L|PRR5L_uc009ykk.2_Silent_p.L94L|PRR5L_uc010rfc.1_Intron	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	222										ovary(1)	1						CTCCTTTCCTCGGCATCAGCG	0.542													5	84	---	---	---	---	PASS	A	36472839	A	A	36472839	2	1	5	1	0	0	0	0	0	0	0	1	12602	871	31	2		2	PRR5L	11	36472839	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	1792615	36472839	98533677	173	4636										
MADD	8567	broad.mit.edu	37	chr11	47311834	47311834	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cttttggagattgcccagacCcactactatagtaaaggtag	9	9	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:47311834C>A	uc001ner.1	+	19	3329	c.3138C>A	c.(3136-3138)ACC>ACA	p.T1046T	MADD_uc001neq.2_Silent_p.T1026T|MADD_uc001nev.1_Silent_p.T983T|MADD_uc001nes.1_Silent_p.T1003T|MADD_uc001net.1_Silent_p.T1046T|MADD_uc009yln.1_Silent_p.T983T|MADD_uc001neu.1_Silent_p.T983T|MADD_uc001nex.2_Silent_p.T1046T|MADD_uc001nez.2_Silent_p.T983T|MADD_uc001new.2_Silent_p.T1026T|MADD_uc009ylo.2_5'Flank	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	1046					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		TTGCCCAGACCCACTACTATA	0.532													5	29	---	---	---	---	PASS	A	47311834	A	A	47311834	2	1	5	1	0	0	0	0	0	0	0	1	9152	610	22	3		3	MADD	11	47311834	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	10838995	47311834	87694682	174	4637										
AGBL2	79841	broad.mit.edu	37	chr11	47726218	47726218	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcgaagacgtgggtttacttCatccaactcatcataaagaa	7	9	3	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:47726218C>T	uc001ngg.2	-	6	563	c.463G>A	c.(463-465)GAA>AAA	p.E155K	AGBL2_uc010rhq.1_Missense_Mutation_p.E117K|AGBL2_uc001ngh.1_Missense_Mutation_p.E99K	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	155					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						GGGTTTACTTCATCCAACTCA	0.443													17	70	---	---	---	---	PASS	T	47726218	T	T	47726218	3	4	5	1	0	0	0	0	1	0	0	0	376	835	29	2	2297	2	AGBL2	11	47726218	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	414384	47726218	87280298	175	4638										
OR4C46	119749	broad.mit.edu	37	chr11	51515752	51515752	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tttcttcatgcaaccatacaGatcctcttcatcttccaatt	2	13	5	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:51515752G>T	uc010ric.1	+	1	471	c.471G>T	c.(469-471)CAG>CAT	p.Q157H		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CAACCATACAGATCCTCTTCA	0.473													18	58	---	---	---	---	PASS	T	51515752	T	T	51515752	3	4	5	1	0	0	0	0	1	0	0	0	11051	933	33	2	473	2	OR4C46	11	51515752	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	3789534	51515752	83490764	176	4639										
OR5M11	219487	broad.mit.edu	37	chr11	56310527	56310527	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tttgatgtatagcacaaatcCacaaaggctaagttagtgag	9	6	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:56310527C>A	uc010rjl.1	-	1	207	c.207G>T	c.(205-207)GTG>GTT	p.V69V		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGCACAAATCCACAAAGGCTA	0.453													48	93	---	---	---	---	PASS	A	56310527	A	A	56310527	2	1	5	1	0	0	0	0	0	0	0	1	11174	581	21	3		3	OR5M11	11	56310527	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	4794775	56310527	78695989	177	4640										
SCGB2A1	4246	broad.mit.edu	37	chr11	61976227	61976227	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aagctgctgatggtcctcatGctggcggccctcctcctgca	11	15	1	1	rs143379489	byFrequency	TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:61976227G>A	uc001nta.2	+	1	88	c.24G>A	c.(22-24)ATG>ATA	p.M8I		NM_002407	NP_002398	O75556	SG2A1_HUMAN	secretoglobin, family 2A, member 1 precursor	8						extracellular region	androgen binding				0						TGGTCCTCATGCTGGCGGCCC	0.602													34	55	---	---	---	---	PASS	A	61976227	A	A	61976227	3	1	5	1	0	0	0	0	1	0	0	0	13899	1319	46	3	26	3	SCGB2A1	11	61976227	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	5665700	61976227	73030289	178	4641										
PYGM	5837	broad.mit.edu	37	chr11	64518818	64518818	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tttctcggccagtgagactcGgtagttctccaggaagatga	12	9	2	3	rs114073621	by1000genomes	TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:64518818G>C	uc001oax.3	-	16	2765	c.1948C>G	c.(1948-1950)CGA>GGA	p.R650G	PYGM_uc001oay.3_Missense_Mutation_p.R562G	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	650					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	AGTGAGACTCGGTAGTTCTCC	0.577													14	23	---	---	---	---	PASS	C	64518818	C	C	64518818	3	2	5	1	0	0	0	0	1	0	0	0	12862	1124	39	4	600	4	PYGM	11	64518818	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	2542591	64518818	70487698	179	4642										
MEN1	4221	broad.mit.edu	37	chr11	64572546	64572546	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gggactgcacaagaaaggtgGcccagcccacatgcagcaca	12	13	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:64572546G>T	uc001obj.2	-	9	1398	c.1325C>A	c.(1324-1326)GCC>GAC	p.A442D	MAP4K2_uc001obh.2_5'Flank|MAP4K2_uc001obi.2_5'Flank|MAP4K2_uc010rnp.1_5'Flank|MEN1_uc001obk.2_Missense_Mutation_p.A442D|MEN1_uc001obl.2_Missense_Mutation_p.A402D|MEN1_uc001obm.2_Missense_Mutation_p.A437D|MEN1_uc001obn.2_Missense_Mutation_p.A442D|MEN1_uc001obo.2_Missense_Mutation_p.A442D|MEN1_uc001obp.2_Missense_Mutation_p.A437D|MEN1_uc001obq.2_Missense_Mutation_p.A442D|MEN1_uc001obr.2_Missense_Mutation_p.A442D	NM_130800	NP_570712	O00255	MEN1_HUMAN	menin isoform 1	442					DNA repair|histone lysine methylation|MAPKKK cascade|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of JNK cascade|negative regulation of osteoblast differentiation|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of telomerase activity|negative regulation of transcription from RNA polymerase II promoter|osteoblast development|positive regulation of protein binding|positive regulation of transforming growth factor beta receptor signaling pathway|response to gamma radiation|response to UV|transcription, DNA-dependent	chromatin|cleavage furrow|cytosol|histone methyltransferase complex|nuclear matrix|soluble fraction	double-stranded DNA binding|four-way junction DNA binding|protein binding, bridging|protein N-terminus binding|R-SMAD binding|transcription regulatory region DNA binding|Y-form DNA binding	p.Q442*(1)		parathyroid(105)|pancreas(64)|gastrointestinal_tract_(site_indeterminate)(15)|small_intestine(13)|lung(9)|pituitary(7)|NS(7)|adrenal_gland(5)|soft_tissue(4)|central_nervous_system(4)|thymus(2)|stomach(1)|retroperitoneum(1)|skin(1)	238						AAGAAAGGTGGCCCAGCCCAC	0.622			D|Mis|N|F|S		parathyroid tumors|Pancreatic neuroendocrine tumors	parathyroid adenoma|pituitary adenoma|pancreatic islet cell|carcinoid			Hyperparathyroidism_Familial_Isolated|Multiple_Endocrine_Neoplasia_type_1				4	36	---	---	---	---	PASS	T	64572546	T	T	64572546	3	4	5	1	0	0	0	0	1	0	0	0	9472	1203	42	3	530	3	MEN1	11	64572546	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	53728	64572546	70433970	180	4643										
SYT12	91683	broad.mit.edu	37	chr11	66816119	66816119	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccgtggggacaacgtgggccAtgtcatcattgggccgtcag	15	11	3	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:66816119A>G	uc009yrl.2	+	8	1387	c.1157A>G	c.(1156-1158)CAT>CGT	p.H386R	SYT12_uc001oju.2_Missense_Mutation_p.H386R	NM_177963	NP_808878	Q8IV01	SYT12_HUMAN	synaptotagmin XII	386	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane				ovary(1)	1						AACGTGGGCCATGTCATCATT	0.642													13	22	---	---	---	---	PASS	G	66816119	G	G	66816119	3	3	5	1	0	0	0	0	1	0	0	0	15465	217	8	5	1183	5	SYT12	11	66816119	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	2243573	66816119	68190397	181	4644										
ANKRD13D	338692	broad.mit.edu	37	chr11	67067552	67067552	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	caacttcagcctggagtcacGgaacattggccgccccatcg	10	15	2	0	rs78983123	by1000genomes	TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:67067552G>T	uc001okc.1	+	11	1281	c.770G>T	c.(769-771)CGG>CTG	p.R257L	ANKRD13D_uc001okd.1_Missense_Mutation_p.R344L|ANKRD13D_uc001oke.1_Missense_Mutation_p.R257L|ANKRD13D_uc001okg.1_Missense_Mutation_p.R40L|ANKRD13D_uc001okh.1_Missense_Mutation_p.R40L|ANKRD13D_uc001oki.1_5'Flank	NM_207354	NP_997237	Q6ZTN6	AN13D_HUMAN	ankyrin repeat domain 13 family, member D	257										ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			CTGGAGTCACGGAACATTGGC	0.637													24	56	---	---	---	---	PASS	T	67067552	T	T	67067552	3	4	5	1	0	0	0	0	1	0	0	0	644	1116	39	1	1069	1	ANKRD13D	11	67067552	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	251433	67067552	67938964	182	4645										
NDUFV1	4723	broad.mit.edu	37	chr11	67379866	67379866	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctgatccgccactttcggccGgagctcgaggagcggatgca	14	13	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:67379866G>A	uc001omj.2	+	10	1485	c.1332G>A	c.(1330-1332)CCG>CCA	p.P444P	NDUFV1_uc010rpv.1_Silent_p.P343P|NDUFV1_uc001oml.2_Silent_p.P437P|NDUFV1_uc001omk.3_Silent_p.P435P|NDUFV1_uc010rpw.1_Silent_p.P153P	NM_007103	NP_009034	P49821	NDUV1_HUMAN	NADH dehydrogenase ubiquinone flavoprotein 1	444					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|FMN binding|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity			skin(1)	1					NADH(DB00157)	ACTTTCGGCCGGAGCTCGAGG	0.647													4	5	---	---	---	---	PASS	A	67379866	A	A	67379866	2	1	5	1	0	0	0	0	0	0	0	1	10299	1103	39	1		1	NDUFV1	11	67379866	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	312314	67379866	67626650	183	4646										
ANO1	55107	broad.mit.edu	37	chr11	69957845	69957845	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgctggccaatggtgtgtacGcggctgcatacccactgcac	12	13	0	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:69957845G>A	uc001opj.2	+	7	1137	c.832G>A	c.(832-834)GCG>ACG	p.A278T	ANO1_uc001opk.1_Missense_Mutation_p.A250T|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.A13T	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	278	Cytoplasmic (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						TGGTGTGTACGCGGCTGCATA	0.562													43	774	---	---	---	---	PASS	A	69957845	A	A	69957845	3	1	5	1	0	0	0	0	1	0	0	0	695	1087	38	1	858	1	ANO1	11	69957845	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	2577979	69957845	65048671	184	4647										
PPFIA1	8500	broad.mit.edu	37	chr11	70224135	70224135	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttttgttccttaatttaccaGgatgatgataaaagctttag	7	5	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:70224135G>T	uc001opo.2	+	26	3583	c.3385_splice	c.e26-1	p.D1129_splice	PPFIA1_uc001opn.1_Splice_Site_p.D1129_splice|PPFIA1_uc001opp.2_Splice_Site|PPFIA1_uc001opr.2_Splice_Site_p.D268_splice|PPFIA1_uc001ops.2_Splice_Site_p.D168_splice|uc001opt.1_Intron	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b						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)			TAATTTACCAGGATGATGATA	0.378													9	448	---	---	---	---	PASS	T	70224135	T	T	70224135	5	4	5	1	0	0	0	0	0	0	1	0	12309	1014	35	3	3482	3	PPFIA1	11	70224135	Splice_Site	SNP	G	TCGA-18-3410-01A-01D-0983-08	266290	70224135	64782381	185	4648										
PICALM	8301	broad.mit.edu	37	chr11	85701343	85701343	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tagtaaaagtagatacatctGaagaaatggaaaggtgaaca	10	3	1	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:85701343G>C	uc001pbm.2	-	13	1644	c.1358C>G	c.(1357-1359)TCA>TGA	p.S453*	PICALM_uc001pbl.2_Intron|PICALM_uc001pbn.2_Nonsense_Mutation_p.S446*|PICALM_uc010rtl.1_Intron|PICALM_uc010rtk.1_Intron|PICALM_uc001pbo.1_Nonsense_Mutation_p.S85*	NM_007166	NP_009097	Q13492	PICAL_HUMAN	phosphatidylinositol-binding clathrin assembly	453					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)				AGATACATCTGAAGAAATGGA	0.363			T	MLLT10|MLL	TALL|AML|								14	66	---	---	---	---	PASS	C	85701343	C	C	85701343	4	2	5	1	0	0	0	0	0	1	0	0	11880	1294	45	2	660	2	PICALM	11	85701343	Nonsense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	15477208	85701343	49305173	186	4649										
EED	8726	broad.mit.edu	37	chr11	85977186	85977186	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggatcattctcttaaactttGgaggatcaattcaaagagaa	8	6	4	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:85977186G>T	uc001pbp.2	+	8	1245	c.788G>T	c.(787-789)TGG>TTG	p.W263L	EED_uc010rtm.1_Missense_Mutation_p.W263L|EED_uc001pbq.2_Missense_Mutation_p.W263L|EED_uc001pbr.2_Missense_Mutation_p.W263L|EED_uc001pbs.2_Intron|EED_uc010rtn.1_RNA	NM_003797	NP_003788	O75530	EED_HUMAN	embryonic ectoderm development isoform a	263	Interaction with EZH2 (By similarity).|WD 4.|Required for interaction with the matrix protein MA of HIV-1.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	histone methyltransferase activity|identical protein binding			skin(1)|pancreas(1)	2		Acute lymphoblastic leukemia(157;7.24e-07)|all_hematologic(158;0.00092)				CTTAAACTTTGGAGGATCAAT	0.289													5	79	---	---	---	---	PASS	T	85977186	T	T	85977186	3	4	5	1	0	0	0	0	1	0	0	0	4922	1357	47	3	818	3	EED	11	85977186	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	275843	85977186	49029330	187	4650										
TRIM49	57093	broad.mit.edu	37	chr11	89531505	89531505	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	agactgcattgaatgtcattCttaacacacccaagaagaaa	6	9	2	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:89531505C>T	uc001pdb.2	-	8	1481	c.1152G>A	c.(1150-1152)AAG>AAA	p.K384K		NM_020358	NP_065091	P0CI25	TRI49_HUMAN	ring finger protein 18	384	B30.2/SPRY.					intracellular	zinc ion binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				GAATGTCATTCTTAACACACC	0.428													8	78	---	---	---	---	PASS	T	89531505	T	T	89531505	2	4	5	1	0	0	0	0	0	0	0	1	16521	912	32	2		2	TRIM49	11	89531505	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	3554319	89531505	45475011	188	4651										
GRIA4	2893	broad.mit.edu	37	chr11	105732836	105732836	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtgtggaaaattttaatgatGtcagctataggcaacttcta	9	5	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:105732836G>T	uc001pix.2	+	5	1020	c.574G>T	c.(574-576)GTC>TTC	p.V192F	GRIA4_uc001piu.1_Missense_Mutation_p.V192F|GRIA4_uc001piw.2_Missense_Mutation_p.V192F|GRIA4_uc001piv.2_Missense_Mutation_p.V192F|GRIA4_uc009yxk.1_Missense_Mutation_p.V192F	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	192	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	TTTTAATGATGTCAGCTATAG	0.368													13	28	---	---	---	---	PASS	T	105732836	T	T	105732836	3	4	5	1	0	0	0	0	1	0	0	0	6770	1377	48	3	588	3	GRIA4	11	105732836	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	16201331	105732836	29273680	189	4652										
EXPH5	23086	broad.mit.edu	37	chr11	108383320	108383320	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atgccttatttttccttttcCtctttcattcctaaaaggag	4	10	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:108383320C>G	uc001pkk.2	-	6	3025	c.2914G>C	c.(2914-2916)GGA>CGA	p.G972R	EXPH5_uc010rvy.1_Missense_Mutation_p.G784R|EXPH5_uc010rvz.1_Missense_Mutation_p.G816R|EXPH5_uc010rwa.1_Missense_Mutation_p.G896R	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	972					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		TTTCCTTTTCCTCTTTCATTC	0.393													19	70	---	---	---	---	PASS	G	108383320	G	G	108383320	3	3	5	1	0	0	0	0	1	0	0	0	5322	690	24	4	3059	4	EXPH5	11	108383320	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2650484	108383320	26623196	190	4653										
POU2AF1	5450	broad.mit.edu	37	chr11	111228206	111228206	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	agtggcggagaggcataggtCaacactgaggagggccccac	16	10	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:111228206C>G	uc001plg.3	-	4	675	c.420G>C	c.(418-420)TTG>TTC	p.L140F		NM_006235	NP_006226	Q16633	OBF1_HUMAN	POU class 2 associating factor 1	140					humoral immune response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			kidney(1)	1		all_cancers(61;1.36e-12)|all_epithelial(67;1.87e-07)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|all_neural(223;0.0146)|Medulloblastoma(222;0.0245)|Breast(348;0.0389)		Epithelial(105;1.01e-06)|BRCA - Breast invasive adenocarcinoma(274;3.12e-06)|all cancers(92;1.8e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0364)		AGGCATAGGTCAACACTGAGG	0.572			T	BCL6	NHL								7	33	---	---	---	---	PASS	G	111228206	G	G	111228206	3	3	5	1	0	0	0	0	1	0	0	0	12270	825	29	2	358	2	POU2AF1	11	111228206	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2844886	111228206	23778310	191	4654										
MLL	4297	broad.mit.edu	37	chr11	118344238	118344238	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atttctgttagtcctcttgcCactagtgccttaaacccaac	5	13	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:118344238C>A	uc001pta.2	+	3	2387	c.2364C>A	c.(2362-2364)GCC>GCA	p.A788A	MLL_uc001ptb.2_Silent_p.A788A|MLL_uc001psz.1_Silent_p.A821A|MLL_uc001ptd.1_Intron	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	788					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GTCCTCTTGCCACTAGTGCCT	0.473			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								5	97	---	---	---	---	PASS	A	118344238	A	A	118344238	2	1	5	1	0	0	0	0	0	0	0	1	9620	581	21	3		3	MLL	11	118344238	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	7116032	118344238	16662278	192	4655										
OR10G8	219869	broad.mit.edu	37	chr11	123900835	123900835	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tttccatttgccctactgtgGacccaactggatccagcact	7	14	0	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:123900835G>C	uc001pzp.1	+	1	506	c.506G>C	c.(505-507)GGA>GCA	p.G169A		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		CCCTACTGTGGACCCAACTGG	0.532													46	93	---	---	---	---	PASS	C	123900835	C	C	123900835	3	2	5	1	0	0	0	0	1	0	0	0	10903	1174	41	2	508	2	OR10G8	11	123900835	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	5556597	123900835	11105681	193	4656										
ACAD8	27034	broad.mit.edu	37	chr11	134130962	134130962	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggtggaactcccagccaacaCgagctgtgatcttcgaagac	11	12	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr11:134130962C>T	uc001qhk.2	+	7	791	c.730C>T	c.(730-732)CGA>TGA	p.R244*	ACAD8_uc010sco.1_3'UTR|ACAD8_uc010scp.1_RNA|ACAD8_uc010scq.1_Nonsense_Mutation_p.R167*|ACAD8_uc001qhl.2_Nonsense_Mutation_p.R117*|ACAD8_uc010scr.1_3'UTR|ACAD8_uc009zde.1_3'UTR	NM_014384	NP_055199	Q9UKU7	ACAD8_HUMAN	acyl-Coenzyme A dehydrogenase family, member 8	244					branched chain family amino acid catabolic process|lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding				0	all_hematologic(175;0.127)	all_cancers(12;8e-23)|all_epithelial(12;2.59e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|all_neural(223;0.0189)|Medulloblastoma(222;0.0245)|Esophageal squamous(93;0.0559)		Epithelial(10;1.92e-10)|all cancers(11;2.26e-09)|BRCA - Breast invasive adenocarcinoma(10;8.73e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00154)|Lung(977;0.21)		CCAGCCAACACGAGCTGTGAT	0.612													4	10	---	---	---	---	PASS	T	134130962	T	T	134130962	4	4	5	1	0	0	0	0	0	1	0	0	110	528	19	1	756	1	ACAD8	11	134130962	Nonsense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	10230127	134130962	875554	194	4657										
ABCC9	10060	broad.mit.edu	37	chr12	22046974	22046974	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttcagtgcataccttatgatGgctttgactgcaaatctgac	8	9	2	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:22046974G>C	uc001rfi.1	-	12	1814	c.1794C>G	c.(1792-1794)GCC>GCG	p.A598A	ABCC9_uc001rfh.2_Silent_p.A598A|ABCC9_uc001rfj.1_Silent_p.A598A	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	598	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ACCTTATGATGGCTTTGACTG	0.323													17	47	---	---	---	---	PASS	C	22046974	C	C	22046974	2	2	5	1	0	0	0	0	0	0	0	1	59	1335	47	4		4	ABCC9	12	22046974	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08		22046974	111804921	195	4658										
KIAA0528	9847	broad.mit.edu	37	chr12	22678604	22678604	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atttaaatcattgaagaggtCtactttgacaactacattga	6	6	2	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:22678604C>G	uc001rfq.2	-	5	613	c.385G>C	c.(385-387)GAC>CAC	p.D129H	KIAA0528_uc010sir.1_5'UTR|KIAA0528_uc010sis.1_Missense_Mutation_p.D129H|KIAA0528_uc010sit.1_Missense_Mutation_p.D129H|KIAA0528_uc010siu.1_Missense_Mutation_p.D129H|KIAA0528_uc001rfr.2_Missense_Mutation_p.D129H|KIAA0528_uc009ziy.1_Missense_Mutation_p.D129H	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	129							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						TTGAAGAGGTCTACTTTGACA	0.294													19	134	---	---	---	---	PASS	G	22678604	G	G	22678604	3	3	5	1	0	0	0	0	1	0	0	0	8182	913	32	2	2701	2	KIAA0528	12	22678604	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	631630	22678604	111173291	196	4659										
ITPR2	3709	broad.mit.edu	37	chr12	26709212	26709212	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcttgcatcgcttccctcagGgaacagcagttctggactgt	10	12	3	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:26709212G>T	uc001rhg.2	-	36	5335	c.4918C>A	c.(4918-4920)CCT>ACT	p.P1640T		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1640	Cytoplasmic (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)					CTTCCCTCAGGGAACAGCAGT	0.483													6	110	---	---	---	---	PASS	T	26709212	T	T	26709212	3	4	5	1	0	0	0	0	1	0	0	0	7921	1232	43	3	3275	3	ITPR2	12	26709212	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	4030608	26709212	107142683	197	4660										
YAF2	10138	broad.mit.edu	37	chr12	42554480	42554480	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgtgttatcagagctagagcCgctttgactgtgttgatctg	12	7	2	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:42554480C>T	uc001rmv.2	-	4	522	c.454G>A	c.(454-456)GGC>AGC	p.G152S	YAF2_uc001rmw.2_Missense_Mutation_p.G176S|YAF2_uc010sko.1_Missense_Mutation_p.G143S|YAF2_uc010skp.1_Missense_Mutation_p.G110S	NM_005748	NP_005739	Q8IY57	YAF2_HUMAN	YY1 associated factor 2	152					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription coactivator activity|transcription corepressor activity|zinc ion binding				0	all_cancers(12;0.000425)	Lung NSC(34;0.0402)|all_lung(34;0.057)		GBM - Glioblastoma multiforme(48;0.0514)		GAGCTAGAGCCGCTTTGACTG	0.428													14	24	---	---	---	---	PASS	T	42554480	T	T	42554480	3	4	5	1	0	0	0	0	1	0	0	0	17462	652	23	1	92	1	YAF2	12	42554480	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	15845268	42554480	91297415	198	4661										
LMBR1L	55716	broad.mit.edu	37	chr12	49495909	49495909	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gctggtatacctaccgtcagCaccagcaagcacagcatagc	9	14	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:49495909C>A	uc001rth.3	-	11	1266	c.924G>T	c.(922-924)GTG>GTT	p.V308V	LMBR1L_uc001rtg.3_Silent_p.V303V|LMBR1L_uc001rti.3_Silent_p.V308V|LMBR1L_uc001rtj.1_Silent_p.V152V|LMBR1L_uc009zld.1_Silent_p.V181V	NM_018113	NP_060583	Q6UX01	LMBRL_HUMAN	lipocalin-interacting membrane receptor	308	Helical; (Potential).				endocytosis	integral to membrane|plasma membrane	receptor activity			pancreas(1)	1						CTACCGTCAGCACCAGCAAGC	0.597													18	42	---	---	---	---	PASS	A	49495909	A	A	49495909	2	1	5	1	0	0	0	0	0	0	0	1	8841	697	25	3		3	LMBR1L	12	49495909	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	6941429	49495909	84355986	199	4662										
TENC1	23371	broad.mit.edu	37	chr12	53455039	53455039	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgctctcagataatgtccccCaaaccccaggtataaaggcc	7	14	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:53455039C>G	uc001sbp.2	+	20	3484	c.3349C>G	c.(3349-3351)CAA>GAA	p.Q1117E	TENC1_uc001sbl.2_Missense_Mutation_p.Q993E|TENC1_uc001sbn.2_Missense_Mutation_p.Q1127E|TENC1_uc001sbq.2_Missense_Mutation_p.Q515E|TENC1_uc001sbr.2_RNA|TENC1_uc009zmr.2_Missense_Mutation_p.Q612E|TENC1_uc001sbs.2_5'Flank	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	1117	Pro-rich.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						TAATGTCCCCCAAACCCCAGG	0.597													15	57	---	---	---	---	PASS	G	53455039	G	G	53455039	3	3	5	1	0	0	0	0	1	0	0	0	15755	595	21	4	3536	4	TENC1	12	53455039	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	3959130	53455039	80396856	200	4663										
MAP3K12	7786	broad.mit.edu	37	chr12	53881050	53881050	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	agtacacactgggtaggcgtCaggtccttctcgggagtgca	14	10	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:53881050C>T	uc001sdm.1	-	2	224	c.126G>A	c.(124-126)CTG>CTA	p.L42L	MAP3K12_uc001sdn.1_Silent_p.L42L	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	42					histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						GGGTAGGCGTCAGGTCCTTCT	0.627													9	72	---	---	---	---	PASS	T	53881050	T	T	53881050	2	4	5	1	0	0	0	0	0	0	0	1	9246	813	29	2		2	MAP3K12	12	53881050	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	426011	53881050	79970845	201	4664										
PIP4K2C	79837	broad.mit.edu	37	chr12	57988919	57988919	+	Frame_Shift_Del	DEL	C	-	-													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgaatttcagggaaaatctgCccagtcatttcaagttcaag							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:57988919delC	uc001sou.2	+	3	414	c.283delC	c.(283-285)CCCfs	p.P95fs	PIP4K2C_uc001sot.2_Frame_Shift_Del_p.P95fs|PIP4K2C_uc010srs.1_Intron|PIP4K2C_uc010srt.1_Frame_Shift_Del_p.P95fs	NM_001146258	NP_001139730	Q8TBX8	PI42C_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	95	PIPK.					cytoplasm|membrane	1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|identical protein binding			central_nervous_system(2)|lung(1)	3	Melanoma(17;0.122)					GGAAAATCTGCCCAGTCATTT	0.294													90	51	---	---	---	---		-	57988919	-	-	57988919	7	5	5	1	0	1	0	1	0	0	0	0	11938	739	26	0	293	0	PIP4K2C	12	57988919	Frame_Shift_Del	DEL	C	TCGA-18-3410-01A-01D-0983-08	4107869	57988919	75862976	202	4665										
DPY19L2	283417	broad.mit.edu	37	chr12	63974449	63974449	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aatacctacacacctgatgtGgtactgtatttgatccactg	7	10	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:63974449G>T	uc001srp.1	-	19	2074	c.1893C>A	c.(1891-1893)ACC>ACA	p.T631T	DPY19L2_uc010sso.1_Silent_p.T78T	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	631					multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		CACCTGATGTGGTACTGTATT	0.313													5	78	---	---	---	---	PASS	T	63974449	T	T	63974449	2	4	5	1	0	0	0	0	0	0	0	1	4741	1335	47	3		3	DPY19L2	12	63974449	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	5985530	63974449	69877446	203	4666										
DYRK2	8445	broad.mit.edu	37	chr12	68051497	68051497	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gcggaggagatccgaatcctGgaacacctgcggaagcagga	15	10	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:68051497G>T	uc001str.3	+	3	1212	c.810G>T	c.(808-810)CTG>CTT	p.L270L	DYRK2_uc001sts.3_Silent_p.L197L	NM_006482	NP_006473	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	270	Protein kinase.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|positive regulation of glycogen biosynthetic process|smoothened signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|manganese ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(1)|central_nervous_system(1)	4			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		TCCGAATCCTGGAACACCTGC	0.527													6	87	---	---	---	---	PASS	T	68051497	T	T	68051497	2	4	5	1	0	0	0	0	0	0	0	1	4856	1335	47	3		3	DYRK2	12	68051497	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	4077048	68051497	65800398	204	4667										
RAB3IP	117177	broad.mit.edu	37	chr12	70150363	70150363	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgagtactgatagtctgtctCgtttacgaagcccatctgtt	9	9	3	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:70150363C>A	uc001svp.2	+	3	925	c.478C>A	c.(478-480)CGT>AGT	p.R160S	RAB3IP_uc001svl.1_Missense_Mutation_p.R144S|RAB3IP_uc001svm.2_Missense_Mutation_p.R144S|RAB3IP_uc001svn.2_Missense_Mutation_p.R144S|RAB3IP_uc001svo.2_RNA|RAB3IP_uc001svq.2_Missense_Mutation_p.R160S|RAB3IP_uc001svr.2_RNA|RAB3IP_uc001svs.2_RNA	NM_175623	NP_783322	Q96QF0	RAB3I_HUMAN	RAB3A interacting protein isoform alpha 2	160					cilium assembly|Golgi to plasma membrane transport|protein localization to organelle|protein transport	actin cortical patch|centrosome|cytosol|lamellipodium|microtubule basal body|nucleus	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Esophageal squamous(21;0.187)		Lung(24;0.000381)|OV - Ovarian serous cystadenocarcinoma(12;0.00168)|STAD - Stomach adenocarcinoma(21;0.00694)			TAGTCTGTCTCGTTTACGAAG	0.393													4	113	---	---	---	---	PASS	A	70150363	A	A	70150363	3	1	5	1	0	0	0	0	1	0	0	0	12938	884	31	2	488	2	RAB3IP	12	70150363	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2098866	70150363	63701532	205	4668										
NAV3	89795	broad.mit.edu	37	chr12	78511809	78511809	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	taatatttgtctttatagctGaggacagattcagagaaacg	9	5	2	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:78511809G>A	uc001syp.2	+	14	2945	c.2772G>A	c.(2770-2772)CTG>CTA	p.L924L	NAV3_uc001syo.2_Silent_p.L924L|NAV3_uc010sub.1_Silent_p.L424L|NAV3_uc009zsf.2_5'UTR	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	924				L -> V (in Ref. 3; AAM73757).		nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CTTTATAGCTGAGGACAGATT	0.368										HNSCC(70;0.22)			26	154	---	---	---	---	PASS	A	78511809	A	A	78511809	2	1	5	1	0	0	0	0	0	0	0	1	10185	1277	45	2		2	NAV3	12	78511809	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	8361446	78511809	55340086	206	4669										
CEP290	80184	broad.mit.edu	37	chr12	88484529	88484529	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tagtctagcagttgcattctGagggactctacttccttgtc	9	10	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:88484529G>C	uc001tar.2	-	30	3893	c.3549C>G	c.(3547-3549)CTC>CTG	p.L1183L	CEP290_uc001taq.2_Silent_p.L243L	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1183	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						GTTGCATTCTGAGGGACTCTA	0.383													3	6	---	---	---	---	PASS	C	88484529	C	C	88484529	2	2	5	1	0	0	0	0	0	0	0	1	3253	1277	45	2		2	CEP290	12	88484529	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	9972720	88484529	45367366	207	4670										
GIT2	9815	broad.mit.edu	37	chr12	110376235	110376235	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aagagctcctgtatgtttttGgtgatctgttcagtcttcct	9	8	3	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:110376235G>T	uc001tps.2	-	18	2118	c.1953C>A	c.(1951-1953)ACC>ACA	p.T651T	TCHP_uc001tpo.1_Intron|GIT2_uc001tpr.2_Silent_p.T191T|GIT2_uc001tpq.2_Silent_p.T621T|GIT2_uc001tpv.2_Silent_p.T573T|GIT2_uc001tpu.2_Silent_p.T571T|GIT2_uc001tpt.2_Silent_p.T523T|GIT2_uc010sxu.1_Silent_p.T559T	NM_057169	NP_476510	Q14161	GIT2_HUMAN	G protein-coupled receptor kinase interacting	651					regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	nucleoplasm	ARF GTPase activator activity|protein binding|zinc ion binding			central_nervous_system(1)	1						GTATGTTTTTGGTGATCTGTT	0.512													6	104	---	---	---	---	PASS	T	110376235	T	T	110376235	2	4	5	1	0	0	0	0	0	0	0	1	6397	1335	47	3		3	GIT2	12	110376235	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	21891706	110376235	23475660	208	4671										
TPCN1	53373	broad.mit.edu	37	chr12	113704132	113704132	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tctccctgtgcgaggcccccGccgtccccgcactccggctt	10	21	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:113704132G>T	uc001tuw.2	+	4	682	c.385G>T	c.(385-387)GCC>TCC	p.A129S	TPCN1_uc001tux.2_Missense_Mutation_p.A201S|TPCN1_uc010syt.1_Missense_Mutation_p.A61S	NM_017901	NP_060371	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1 isoform 2	129	Helical; Name=S1 of repeat I; (Potential).					endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated ion channel activity			skin(2)|ovary(1)	3						CGAGGCCCCCGCCGTCCCCGC	0.642													67	84	---	---	---	---	PASS	T	113704132	T	T	113704132	3	4	5	1	0	0	0	0	1	0	0	0	16392	1087	38	1	615	1	TPCN1	12	113704132	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	3327897	113704132	20147763	209	4672										
DNAH10	196385	broad.mit.edu	37	chr12	124267811	124267811	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	caactgaagaagacacctcaGgtagtttgtgcagggctttc	11	9	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:124267811G>T	uc001uft.3	+	7	841	c.816G>T	c.(814-816)CAG>CAT	p.Q272H		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	272	Stem (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)		AGACACCTCAGGTAGTTTGTG	0.532													5	52	---	---	---	---	PASS	T	124267811	T	T	124267811	3	4	5	1	0	0	0	0	1	0	0	0	4598	1014	35	3	842	3	DNAH10	12	124267811	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	10563679	124267811	9584084	210	4673										
NCOR2	9612	broad.mit.edu	37	chr12	124840062	124840062	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggcgggttggagatggtgggTgggcgcggcaggacgggccg	25	7	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr12:124840062T>A	uc010tba.1	-	24	3438	c.3321A>T	c.(3319-3321)CCA>CCT	p.P1107P	NCOR2_uc010tay.1_Silent_p.P1106P|NCOR2_uc010taz.1_Silent_p.P1090P|NCOR2_uc010tbb.1_Silent_p.P1099P|NCOR2_uc010tbc.1_Silent_p.P1089P|NCOR2_uc001ugj.1_Silent_p.P1107P	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1107					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		AGATGGTGGGTGGGCGCGGCA	0.647													9	14	---	---	---	---	PASS	A	124840062	A	A	124840062	2	1	5	1	0	0	0	0	0	0	0	1	10236	1683	59	5		5	NCOR2	12	124840062	Silent	SNP	T	TCGA-18-3410-01A-01D-0983-08	572251	124840062	9011833	211	4674										
FREM2	341640	broad.mit.edu	37	chr13	39265581	39265581	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctttgaaaatatcacactggGcatgaattttacccaggatg	8	8	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr13:39265581G>C	uc001uwv.2	+	1	4409	c.4100G>C	c.(4099-4101)GGC>GCC	p.G1367A		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1367	Extracellular (Potential).|CSPG 9.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		ATCACACTGGGCATGAATTTT	0.393													26	14	---	---	---	---	PASS	C	39265581	C	C	39265581	3	2	5	1	0	0	0	0	1	0	0	0	6045	1203	42	4	4102	4	FREM2	13	39265581	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08		39265581	75904297	212	4675										
MYCBP2	23077	broad.mit.edu	37	chr13	77669539	77669539	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	aggcattttcacaggaagatCctcagaaatgccttctttta	7	9	3	2	rs141165449		TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr13:77669539C>A	uc001vkf.2	-	59	10130	c.10039G>T	c.(10039-10041)GAT>TAT	p.D3347Y	MYCBP2_uc010aev.2_Missense_Mutation_p.D2751Y|MYCBP2_uc001vke.2_5'Flank	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3347					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		ACAGGAAGATCCTCAGAAATG	0.428													22	5	---	---	---	---	PASS	A	77669539	A	A	77669539	3	1	5	1	0	0	0	0	1	0	0	0	10018	855	30	2	3987	2	MYCBP2	13	77669539	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	38403958	77669539	37500339	213	4676										
PCID2	55795	broad.mit.edu	37	chr13	113832545	113832545	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gacaggggaggaaatgggttCtgcttgctgaccaccagctt	14	9	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr13:113832545C>G	uc010tju.1	-	14	1248	c.1167G>C	c.(1165-1167)CAG>CAC	p.Q389H	PCID2_uc001vtb.2_Missense_Mutation_p.Q222H|PCID2_uc010tjv.1_Missense_Mutation_p.Q389H|PCID2_uc010tjw.1_Missense_Mutation_p.Q389H|PCID2_uc001vte.2_Missense_Mutation_p.Q282H|PCID2_uc001vtd.2_Missense_Mutation_p.Q282H|PCID2_uc001vtf.2_Missense_Mutation_p.Q282H	NM_001127203	NP_001120675	Q5JVF3	PCID2_HUMAN	PCI domain containing 2	389					negative regulation of apoptosis|negative regulation of cysteine-type endopeptidase activity|positive regulation of mitotic cell cycle spindle assembly checkpoint|positive regulation of transcription, DNA-dependent|regulation of mRNA stability|spleen development		protein binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.216)|all_epithelial(44;0.234)	all cancers(43;0.104)			GAAATGGGTTCTGCTTGCTGA	0.527													17	25	---	---	---	---	PASS	G	113832545	G	G	113832545	3	3	5	1	0	0	0	0	1	0	0	0	11579	912	32	2	36	2	PCID2	13	113832545	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	36163006	113832545	1337333	214	4677										
PCNX	22990	broad.mit.edu	37	chr14	71524297	71524297	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccctacagcacagcctctgtGgtgatttgctactaggacgg	11	12	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr14:71524297G>T	uc001xmo.2	+	26	5154	c.4708G>T	c.(4708-4710)GGT>TGT	p.G1570C	PCNX_uc010are.1_Missense_Mutation_p.G1459C|PCNX_uc010arf.1_Intron	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1570						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)		CAGCCTCTGTGGTGATTTGCT	0.388													6	182	---	---	---	---	PASS	T	71524297	T	T	71524297	3	4	5	1	0	0	0	0	1	0	0	0	11591	1348	47	3	4810	3	PCNX	14	71524297	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08		71524297	35825243	215	4678										
MLH3	27030	broad.mit.edu	37	chr14	75485636	75485636	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgaggacagagcttcaataaGgcggcaactttcctgtaagc	11	9	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr14:75485636G>C	uc001xrd.1	-	12	4354	c.4138C>G	c.(4138-4140)CTT>GTT	p.L1380V	MLH3_uc001xre.1_Missense_Mutation_p.L1356V	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	1380					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		GCTTCAATAAGGCGGCAACTT	0.453								MMR					11	34	---	---	---	---	PASS	C	75485636	C	C	75485636	3	2	5	1	0	0	0	0	1	0	0	0	9618	1000	35	4	231	4	MLH3	14	75485636	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	3961339	75485636	31863904	216	4679										
MOAP1	64112	broad.mit.edu	37	chr14	93650307	93650307	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tattatctgggtcagggggcTtaaagatcactctccagata	10	8	4	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr14:93650307T>C	uc001ybj.2	-	3	651	c.281A>G	c.(280-282)AAG>AGG	p.K94R	C14orf109_uc001ybk.3_5'Flank|C14orf109_uc010auo.2_5'Flank	NM_022151	NP_071434	Q96BY2	MOAP1_HUMAN	modulator of apoptosis 1	94					activation of caspase activity|apoptotic nuclear change	cytoplasm	protein homodimerization activity			skin(2)|ovary(1)	3		all_cancers(154;0.00528)|Acute lymphoblastic leukemia(33;0.0497)|all_epithelial(191;0.125)|all_neural(303;0.13)		Epithelial(152;0.178)|all cancers(159;0.2)|COAD - Colon adenocarcinoma(157;0.204)		gtcagggggcttaaagatcac	0													20	40	---	---	---	---	PASS	C	93650307	C	C	93650307	3	2	5	1	0	0	0	0	1	0	0	0	9680	1609	56	5	778	5	MOAP1	14	93650307	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	18164671	93650307	13699233	217	4680										
BDKRB2	624	broad.mit.edu	37	chr14	96707262	96707262	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctggtgttccggaccatgaaGgagtacagcgatgagggcca	15	9	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr14:96707262G>T	uc010avm.1	+	3	793	c.597G>T	c.(595-597)AAG>AAT	p.K199N	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Missense_Mutation_p.K172N|BDKRB2_uc001yfg.2_Missense_Mutation_p.K199N	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	199	Extracellular (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		GGACCATGAAGGAGTACAGCG	0.597													5	35	---	---	---	---	PASS	T	96707262	T	T	96707262	3	4	5	1	0	0	0	0	1	0	0	0	1393	991	35	3	603	3	BDKRB2	14	96707262	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	3056955	96707262	10642278	218	4681										
AHNAK2	113146	broad.mit.edu	37	chr14	105405270	105405270	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtttgaatctctgacgtgggGatctctgattcccgcacaat	10	10	2	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr14:105405270G>T	uc010axc.1	-	7	16638	c.16518C>A	c.(16516-16518)ATC>ATA	p.I5506I	AHNAK2_uc001ypx.2_Silent_p.I5406I	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5506						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)			CTGACGTGGGGATCTCTGATT	0.453													4	19	---	---	---	---	PASS	T	105405270	T	T	105405270	2	4	5	1	0	0	0	0	0	0	0	1	415	1164	41	2		2	AHNAK2	14	105405270	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	8698008	105405270	1944270	219	4682										
ATP8B4	79895	broad.mit.edu	37	chr15	50226290	50226290	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcatgaactttgggatcaccCattttaatggattccatcag	7	9	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr15:50226290C>G	uc001zxu.2	-	15	1519	c.1377G>C	c.(1375-1377)ATG>ATC	p.M459I	ATP8B4_uc010ber.2_Missense_Mutation_p.M332I|ATP8B4_uc010ufd.1_Missense_Mutation_p.M332I|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	459	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		TGGGATCACCCATTTTAATGG	0.408													34	54	---	---	---	---	PASS	G	50226290	G	G	50226290	3	3	5	1	0	0	0	0	1	0	0	0	1197	594	21	4	2257	4	ATP8B4	15	50226290	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08		50226290	52305102	220	4683										
USP8	9101	broad.mit.edu	37	chr15	50757333	50757333	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctcgaagaatgcaggattatCaggattcctgtattttacat	8	7	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr15:50757333C>G	uc001zym.3	+	8	1131	c.631C>G	c.(631-633)CAG>GAG	p.Q211E	USP8_uc001zyk.1_Translation_Start_Site|USP8_uc001zyl.3_Missense_Mutation_p.Q211E|USP8_uc001zyn.3_Missense_Mutation_p.Q211E|USP8_uc010ufh.1_Missense_Mutation_p.Q134E|USP8_uc010bev.1_Intron	NM_001128611	NP_001122083	P40818	UBP8_HUMAN	ubiquitin specific peptidase 8	211	Rhodanese.				cell cycle|cell proliferation|endosome organization|protein K48-linked deubiquitination|protein K63-linked deubiquitination|ubiquitin-dependent protein catabolic process	cytosol|early endosome|extrinsic to plasma membrane|nucleus	cysteine-type endopeptidase activity|SH3 domain binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)|central_nervous_system(1)	2				all cancers(107;0.000225)|GBM - Glioblastoma multiforme(94;0.000771)		GCAGGATTATCAGGATTCCTG	0.383													14	57	---	---	---	---	PASS	G	50757333	G	G	50757333	3	3	5	1	0	0	0	0	1	0	0	0	17086	827	29	2	653	2	USP8	15	50757333	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	531043	50757333	51774059	221	4684										
KIAA1370	56204	broad.mit.edu	37	chr15	52902292	52902292	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	acactttcaggtgccatggtCcaagtttgtttgctacacag	9	10	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr15:52902292C>T	uc002acg.3	-	6	972	c.819G>A	c.(817-819)TGG>TGA	p.W273*	KIAA1370_uc002ach.3_RNA|KIAA1370_uc010bfg.1_Nonsense_Mutation_p.W185*|KIAA1370_uc010ugf.1_Nonsense_Mutation_p.W280*	NM_019600	NP_062546	Q32MH5	K1370_HUMAN	hypothetical protein LOC56204	273											0				all cancers(107;0.0803)		GTGCCATGGTCCAAGTTTGTT	0.408													19	35	---	---	---	---	PASS	T	52902292	T	T	52902292	4	4	5	1	0	0	0	0	0	1	0	0	8226	856	30	2	2443	2	KIAA1370	15	52902292	Nonsense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2144959	52902292	49629100	222	4685										
CGNL1	84952	broad.mit.edu	37	chr15	57730732	57730732	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtaattggctaaaaacgttgAcagaagaaggcatcaacaat	9	6	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr15:57730732A>G	uc002aeg.2	+	2	611	c.535A>G	c.(535-537)ACA>GCA	p.T179A	CGNL1_uc010bfw.2_Missense_Mutation_p.T179A	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	179	Head.					myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		AAAAACGTTGACAGAAGAAGG	0.458													57	101	---	---	---	---	PASS	G	57730732	G	G	57730732	3	3	5	1	0	0	0	0	1	0	0	0	3304	275	10	5	537	5	CGNL1	15	57730732	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	4828440	57730732	44800660	223	4686										
SNX1	6642	broad.mit.edu	37	chr15	64422135	64422135	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctgccacgtgccgtgggtacCcagacattgagtggtgctgg	15	11	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr15:64422135C>A	uc002amv.2	+	9	864	c.828C>A	c.(826-828)ACC>ACA	p.T276T	SNX1_uc010bgv.2_5'UTR|SNX1_uc010uio.1_Silent_p.T276T|SNX1_uc002amw.2_Silent_p.T276T|SNX1_uc002amx.2_Silent_p.T211T|SNX1_uc002amy.2_Silent_p.T205T|SNX1_uc010bgw.2_Silent_p.T178T	NM_003099	NP_003090	Q13596	SNX1_HUMAN	sorting nexin 1 isoform a	276					cell communication|early endosome to Golgi transport|endocytosis|intracellular protein transport	early endosome membrane|Golgi apparatus	phosphatidylinositol binding|protein binding|protein transporter activity				0						CCGTGGGTACCCAGACATTGA	0.468													6	91	---	---	---	---	PASS	A	64422135	A	A	64422135	2	1	5	1	0	0	0	0	0	0	0	1	14880	610	22	3		3	SNX1	15	64422135	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	6691403	64422135	38109257	224	4687										
DENND4A	10260	broad.mit.edu	37	chr15	66010252	66010252	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcttggatttccaaatctatCatgtgcaacctctttccaga	5	11	4	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr15:66010252C>T	uc002aph.2	-	13	2049	c.1671G>A	c.(1669-1671)ATG>ATA	p.M557I	DENND4A_uc002api.2_Missense_Mutation_p.M557I|DENND4A_uc002apj.3_Missense_Mutation_p.M557I|DENND4A_uc010ujj.1_Missense_Mutation_p.M557I	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	557					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CCAAATCTATCATGTGCAACC	0.383													4	13	---	---	---	---	PASS	T	66010252	T	T	66010252	3	4	5	1	0	0	0	0	1	0	0	0	4433	826	29	2	4133	2	DENND4A	15	66010252	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1588117	66010252	36521140	225	4688										
WHAMM	123720	broad.mit.edu	37	chr15	83486821	83486822	+	Frame_Shift_Del	DEL	AG	-	-													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	agttgtgtttaaatcacaaaAgagctgaaattcagggaaag							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr15:83486821_83486822delAG	uc002bje.2	+	4	1590_1591	c.1084_1085delAG	c.(1084-1086)AGAfs	p.R362fs		NM_001080435	NP_001073904	Q8TF30	WHAMM_HUMAN	WAS protein homolog associated with actin, golgi	362						cytoplasmic vesicle membrane|ER-Golgi intermediate compartment|Golgi apparatus	actin binding				0						AAATCACAAAAGAGCTGAAATT	0.317													5	5	---	---	---	---		-	83486822	-	-	83486821	7	5	5	1	0	1	0	1	0	0	0	0	17358	64	3	0	1098	0	WHAMM	15	83486821	Frame_Shift_Del	DEL	AG	TCGA-18-3410-01A-01D-0983-08	17476569	83486821	19044571	226	4689										
SPATA8	145946	broad.mit.edu	37	chr15	97328309	97328309	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cactgattcagaagataaacAggagaagtgtcctgtttcac	9	8	2	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr15:97328309A>G	uc002bue.2	+	3	490	c.280A>G	c.(280-282)AGG>GGG	p.R94G	uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8	94										ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			GAAGATAAACAGGAGAAGTGT	0.453													36	47	---	---	---	---	PASS	G	97328309	G	G	97328309	3	3	5	1	0	0	0	0	1	0	0	0	15014	179	7	5	290	5	SPATA8	15	97328309	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	13841488	97328309	5203083	227	4690										
OR4F15	390649	broad.mit.edu	37	chr15	102358897	102358897	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tggtagatttacctttttgtGgtcctaatatctttgacagt	8	6	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr15:102358897G>T	uc010uts.1	+	1	508	c.508G>T	c.(508-510)GGT>TGT	p.G170C		NM_001001674	NP_001001674	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			ACCTTTTTGTGGTCCTAATAT	0.423													7	135	---	---	---	---	PASS	T	102358897	T	T	102358897	3	4	5	1	0	0	0	0	1	0	0	0	11061	1348	47	3	510	3	OR4F15	15	102358897	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	5030588	102358897	172495	228	4691										
WDR90	197335	broad.mit.edu	37	chr16	711941	711941	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggggctggagagctgacctcGctctgctacggggcacctcc	15	14	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr16:711941G>C	uc002cii.1	+	32	3969	c.3915G>C	c.(3913-3915)TCG>TCC	p.S1305S	WDR90_uc002cij.1_Intron|WDR90_uc002cik.1_Silent_p.S832S|WDR90_uc002cil.1_RNA|WDR90_uc002cim.1_Silent_p.S479S|WDR90_uc002cin.1_5'UTR	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	1305	WD 15.									ovary(1)	1		Hepatocellular(780;0.0218)				AGCTGACCTCGCTCTGCTACG	0.662													32	14	---	---	---	---	PASS	C	711941	C	C	711941	2	2	5	1	0	0	0	0	0	0	0	1	17334	1074	38	4		4	WDR90	16	711941	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08		711941	89642812	229	4692										
ABAT	18	broad.mit.edu	37	chr16	8868838	8868838	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gcactggggcctggatgaccCagcagacgtgatgaccttca	13	12	1	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr16:8868838C>T	uc002czc.3	+	13	1212	c.1046C>T	c.(1045-1047)CCA>CTA	p.P349L	ABAT_uc002czd.3_Missense_Mutation_p.P349L|ABAT_uc010buh.2_Missense_Mutation_p.P291L|ABAT_uc010bui.2_Missense_Mutation_p.P349L	NM_020686	NP_065737	P80404	GABT_HUMAN	4-aminobutyrate aminotransferase precursor	349					behavioral response to cocaine|gamma-aminobutyric acid catabolic process|neurotransmitter catabolic process|neurotransmitter secretion	4-aminobutyrate transaminase complex|mitochondrial matrix	(S)-3-amino-2-methylpropionate transaminase activity|4-aminobutyrate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|succinate-semialdehyde dehydrogenase binding			upper_aerodigestive_tract(1)	1					Divalproex sodium(DB00510)|Isoniazid(DB00951)|L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)|Tiagabine(DB00906)|Valproic Acid(DB00313)|Vigabatrin(DB01080)	CTGGATGACCCAGCAGACGTG	0.597													14	26	---	---	---	---	PASS	T	8868838	T	T	8868838	3	4	5	1	0	0	0	0	1	0	0	0	27	594	21	3	1092	3	ABAT	16	8868838	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	8156897	8868838	81485915	230	4693										
GRIN2A	2903	broad.mit.edu	37	chr16	10031952	10031952	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gccaatgccgtccctcactcTcgcctccaggctgtagtccc	8	19	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr16:10031952T>C	uc002czo.3	-	3	1419	c.871A>G	c.(871-873)AGA>GGA	p.R291G	GRIN2A_uc010uym.1_Missense_Mutation_p.R291G|GRIN2A_uc010uyn.1_Missense_Mutation_p.R134G|GRIN2A_uc002czr.3_Missense_Mutation_p.R291G	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	291	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TCCCTCACTCTCGCCTCCAGG	0.567													16	8	---	---	---	---	PASS	C	10031952	C	C	10031952	3	2	5	1	0	0	0	0	1	0	0	0	6779	1559	54	5	3567	5	GRIN2A	16	10031952	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	1163114	10031952	80322801	231	4694										
ABCC6	368	broad.mit.edu	37	chr16	16302587	16302587	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgacctccacccacttacctCcgggctgcactgcggttcct	8	18	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr16:16302587C>G	uc002den.3	-	7	829	c.792G>C	c.(790-792)CGG>CGC	p.R264R	ABCC6_uc010bvo.2_RNA|ABCC6_uc010uzz.1_Silent_p.R276R	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	264	Cytoplasmic (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		CCACTTACCTCCGGGCTGCAC	0.398													18	46	---	---	---	---	PASS	G	16302587	G	G	16302587	2	3	5	1	0	0	0	0	0	0	0	1	57	842	30	2		2	ABCC6	16	16302587	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	6270635	16302587	74052166	232	4695										
SMG1	23049	broad.mit.edu	37	chr16	18847327	18847327	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccatccaggtcttccactgtTcaattcgatgtttctgaaat	6	11	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr16:18847327T>C	uc002dfm.2	-	48	8348	c.7985A>G	c.(7984-7986)GAA>GGA	p.E2662G	SMG1_uc010bwb.2_Missense_Mutation_p.E2522G|SMG1_uc010bwa.2_Missense_Mutation_p.E1393G	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2662					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						CTTCCACTGTTCAATTCGATG	0.473													8	4	---	---	---	---	PASS	C	18847327	C	C	18847327	3	2	5	1	0	0	0	0	1	0	0	0	14795	1783	62	5	3064	5	SMG1	16	18847327	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	2544740	18847327	71507426	233	4696										
GPRC5B	51704	broad.mit.edu	37	chr16	19883784	19883784	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	agcgcaaagaggacgccccaGaggaagcggcggacagagca	16	11	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr16:19883784G>T	uc002dgt.2	-	2	492	c.384C>A	c.(382-384)CTC>CTA	p.L128L	GPRC5B_uc010vav.1_Silent_p.L154L	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	128	Helical; Name=3; (Potential).							p.L128F(1)		lung(1)|breast(1)|skin(1)	3						GGACGCCCCAGAGGAAGCGGC	0.662													4	9	---	---	---	---	PASS	T	19883784	T	T	19883784	2	4	5	1	0	0	0	0	0	0	0	1	6725	929	33	2		2	GPRC5B	16	19883784	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	1036457	19883784	70470969	234	4697										
CCDC113	29070	broad.mit.edu	37	chr16	58293772	58293772	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttttaggataatatgaaggaGaaattacgtttgaaaaatgt	9	1	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr16:58293772G>C	uc002ene.2	+	5	640	c.561G>C	c.(559-561)GAG>GAC	p.E187D	CCDC113_uc010vid.1_Missense_Mutation_p.E133D	NM_014157	NP_054876	Q9H0I3	CC113_HUMAN	coiled-coil domain containing 113 isoform 1	187	Potential.					protein complex					0						ATATGAAGGAGAAATTACGTT	0.348													10	23	---	---	---	---	PASS	C	58293772	C	C	58293772	3	2	5	1	0	0	0	0	1	0	0	0	2750	933	33	2	579	2	CCDC113	16	58293772	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	38409988	58293772	32060981	235	4698										
CDH8	1006	broad.mit.edu	37	chr16	61891136	61891136	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcgcagtgacgttagtgacaGatgtacctaataaaatagag	10	6	0	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr16:61891136G>A	uc002eog.1	-	4	806	c.554C>T	c.(553-555)TCT>TTT	p.S185F	CDH8_uc002eoh.2_5'UTR	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	185	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		GTTAGTGACAGATGTACCTAA	0.353													11	25	---	---	---	---	PASS	A	61891136	A	A	61891136	3	1	5	1	0	0	0	0	1	0	0	0	3116	942	33	2	1881	2	CDH8	16	61891136	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	3597364	61891136	28463617	236	4699										
CKLF	51192	broad.mit.edu	37	chr16	66592182	66592182	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggatttgaagtcaccgttatCttatttttcatacttttata	5	6	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr16:66592182C>G	uc002eow.2	+	2	315	c.168C>G	c.(166-168)ATC>ATG	p.I56M	CKLF_uc002eox.1_Missense_Mutation_p.I56M|CKLF_uc002eot.2_Missense_Mutation_p.I56M|CKLF_uc002eou.2_Intron|CKLF_uc002eov.2_Intron	NM_016951	NP_058647	Q9UBR5	CKLF_HUMAN	chemokine-like factor isoform a	56	Helical; (Potential).|MARVEL.				cell proliferation|lymphocyte chemotaxis|macrophage chemotaxis|neutrophil chemotaxis|secretion by cell	extracellular space|integral to membrane	chemokine activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0689)|Epithelial(162;0.217)		TCACCGTTATCTTATTTTTCA	0.338													33	51	---	---	---	---	PASS	G	66592182	G	G	66592182	3	3	5	1	0	0	0	0	1	0	0	0	3447	903	32	2	174	2	CKLF	16	66592182	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	4701046	66592182	23762571	237	4700										
SLC7A6OS	84138	broad.mit.edu	37	chr16	68338045	68338045	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atcgtgtttttgttcttcctGgcgcctgactcctggtccat	9	12	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr16:68338045G>T	uc002evw.1	-	3	581	c.562C>A	c.(562-564)CAG>AAG	p.Q188K		NM_032178	NP_115554	Q96CW6	S7A6O_HUMAN	solute carrier family 7, member 6 opposite	188					protein transport	cytoplasm|nucleus				ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.106)		TGTTCTTCCTGGCGCCTGACT	0.493													5	84	---	---	---	---	PASS	T	68338045	T	T	68338045	3	4	5	1	0	0	0	0	1	0	0	0	14702	1357	47	3	379	3	SLC7A6OS	16	68338045	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	1745863	68338045	22016708	238	4701										
CALB2	794	broad.mit.edu	37	chr16	71417890	71417890	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cagctacggatgtttgacttGaacggggatggcaaattggg	15	6	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr16:71417890G>A	uc002faa.3	+	7	565	c.495G>A	c.(493-495)TTG>TTA	p.L165L	CALB2_uc010vme.1_RNA|CALB2_uc002fac.3_Silent_p.L165L	NM_001740	NP_001731	P22676	CALB2_HUMAN	calbindin 2 isoform 1	165	4 (Probable).|EF-hand 4.						calcium ion binding				0		Ovarian(137;0.125)				TGTTTGACTTGAACGGGGATG	0.532													51	19	---	---	---	---	PASS	A	71417890	A	A	71417890	2	1	5	1	0	0	0	0	0	0	0	1	2574	1281	45	2		2	CALB2	16	71417890	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	3079845	71417890	18936863	239	4702										
SPATA22	84690	broad.mit.edu	37	chr17	3352127	3352127	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggtgttgtcttctggaatatCatccaacatttgtttcttat	7	7	4	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:3352127C>A	uc002fvm.2	-	6	883	c.646G>T	c.(646-648)GAT>TAT	p.D216Y	SPATA22_uc010vrg.1_Missense_Mutation_p.D200Y|SPATA22_uc010vrf.1_Missense_Mutation_p.D216Y|SPATA22_uc002fvn.2_Missense_Mutation_p.D216Y|SPATA22_uc002fvo.2_Missense_Mutation_p.D216Y|SPATA22_uc002fvp.2_Missense_Mutation_p.D216Y|SPATA22_uc010ckf.2_Missense_Mutation_p.D173Y	NM_032598	NP_115987	Q8NHS9	SPT22_HUMAN	spermatogenesis associated 22	216											0						TCTGGAATATCATCCAACATT	0.303													36	16	---	---	---	---	PASS	A	3352127	A	A	3352127	3	1	5	1	0	0	0	0	1	0	0	0	15007	826	29	2	461	2	SPATA22	17	3352127	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08		3352127	77843083	240	4703										
AMAC1L3	643664	broad.mit.edu	37	chr17	7386172	7386172	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cgctgtcctgcattccgaggTggtggtggcccttatactgc	13	12	0	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:7386172T>C	uc010cmj.1	+	2	984	c.869T>C	c.(868-870)GTG>GCG	p.V290A	ZBTB4_uc002ghd.3_Intron|POLR2A_uc002ghe.2_5'Flank|POLR2A_uc002ghf.3_5'Flank	NM_001102614	NP_001096084	P0C7Q6	AMCL3_HUMAN	acyl-malonyl condensing enzyme 1-like 3	290	DUF6 2.|Helical; (Potential).					integral to membrane					0		Prostate(122;0.173)				CATTCCGAGGTGGTGGTGGCC	0.592													15	94	---	---	---	---	PASS	C	7386172	C	C	7386172	3	2	5	1	0	0	0	0	1	0	0	0	561	1696	59	5	875	5	AMAC1L3	17	7386172	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	4034045	7386172	73809038	241	4704										
TP53	7157	broad.mit.edu	37	chr17	7578212	7578212	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gggcaccaccacactatgtcGaaaagtgtttctgtcatcca	8	12	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:7578212G>C	uc002gim.2	-	6	831	c.637C>G	c.(637-639)CGA>GGA	p.R213G	TP53_uc002gig.1_Missense_Mutation_p.R213G|TP53_uc002gih.2_Missense_Mutation_p.R213G|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R81G|TP53_uc010cng.1_Missense_Mutation_p.R81G|TP53_uc002gii.1_Missense_Mutation_p.R81G|TP53_uc010cnh.1_Missense_Mutation_p.R213G|TP53_uc010cni.1_Missense_Mutation_p.R213G|TP53_uc002gij.2_Missense_Mutation_p.R213G|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.R120G|TP53_uc002gio.2_Missense_Mutation_p.R81G|TP53_uc010vug.1_Missense_Mutation_p.R174G	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	213	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(186)|p.R213L(25)|p.R213Q(22)|p.R213fs*34(10)|p.0?(7)|p.R213P(5)|p.R81*(2)|p.R120*(2)|p.R213G(2)|p.K164_P219del(1)|p.D208_V216delDRNTFRHSV(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R213*33(1)|p.D208fs*1(1)|p.R213>L(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(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)		ACACTATGTCGAAAAGTGTTT	0.532		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)			10	11	---	---	---	---	PASS	C	7578212	C	C	7578212	3	2	5	1	0	0	0	0	1	0	0	0	16378	1066	37	2	657	2	TP53	17	7578212	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	192040	7578212	73616998	242	4705										
MYH8	4626	broad.mit.edu	37	chr17	10309369	10309369	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gattgttacctcctttgcaaCatcttctgatattctaccct	4	12	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:10309369C>A	uc002gmm.2	-	21	2516	c.2421G>T	c.(2419-2421)ATG>ATT	p.M807I	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	807	IQ.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TCCTTTGCAACATCTTCTGAT	0.358									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				22	19	---	---	---	---	PASS	A	10309369	A	A	10309369	3	1	5	1	0	0	0	0	1	0	0	0	10041	478	17	3	3472	3	MYH8	17	10309369	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2731157	10309369	70885841	243	4706										
DNAH9	1770	broad.mit.edu	37	chr17	11738145	11738145	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gaaacagaagcagaaggactGtgaggaggacctggcaaagg	16	6	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:11738145G>A	uc002gne.2	+	49	9505	c.9437G>A	c.(9436-9438)TGT>TAT	p.C3146Y	DNAH9_uc010coo.2_Missense_Mutation_p.C2440Y	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3146	Stalk (By similarity).|Potential.				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CAGAAGGACTGTGAGGAGGAC	0.547													15	13	---	---	---	---	PASS	A	11738145	A	A	11738145	3	1	5	1	0	0	0	0	1	0	0	0	4608	1377	48	3	9631	3	DNAH9	17	11738145	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	1428776	11738145	69457065	244	4707										
ALDH3A1	218	broad.mit.edu	37	chr17	19646725	19646725	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gagcttctggatcatgtactCgatctcctctaggacgtaca	9	11	4	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:19646725C>A	uc010cqu.2	-	2	544	c.214G>T	c.(214-216)GAG>TAG	p.E72*	ALDH3A1_uc010vzd.1_Nonsense_Mutation_p.E72*|ALDH3A1_uc002gwj.2_Nonsense_Mutation_p.E72*|ALDH3A1_uc010cqv.2_Nonsense_Mutation_p.E72*|ALDH3A1_uc002gwk.2_5'UTR|ALDH3A1_uc002gwl.1_5'UTR	NM_001135168	NP_001128640	P30838	AL3A1_HUMAN	aldehyde dehydrogenase 3A1	72					cellular aldehyde metabolic process	cytosol|endoplasmic reticulum	alcohol dehydrogenase (NADP+) activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(1)|pancreas(1)	2	all_cancers(12;4.01e-05)|all_epithelial(12;0.00301)|Breast(13;0.186)			Colorectal(15;0.0829)	NADH(DB00157)	ATCATGTACTCGATCTCCTCT	0.607													5	95	---	---	---	---	PASS	A	19646725	A	A	19646725	4	1	5	1	0	0	0	0	0	1	0	0	497	893	31	2	1183	2	ALDH3A1	17	19646725	Nonsense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	7908580	19646725	61548485	245	4708										
TAOK1	57551	broad.mit.edu	37	chr17	27809300	27809300	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctcttggaataacatgtattGaactaggtaagcattgttct	8	6	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:27809300G>C	uc002hdz.1	+	8	843	c.649G>C	c.(649-651)GAA>CAA	p.E217Q	TAOK1_uc010wbe.1_Missense_Mutation_p.E217Q|TAOK1_uc010wbf.1_Missense_Mutation_p.E217Q|TAOK1_uc002heb.1_Missense_Mutation_p.E43Q	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	217	Protein kinase.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			AACATGTATTGAACTAGGTAA	0.323													20	107	---	---	---	---	PASS	C	27809300	C	C	27809300	3	2	5	1	0	0	0	0	1	0	0	0	15544	1291	45	2	675	2	TAOK1	17	27809300	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	8162575	27809300	53385910	246	4709										
SLFN12	55106	broad.mit.edu	37	chr17	33749131	33749131	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cacagcagaagcgctccactCtgagtgcacagacatatcca	8	14	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:33749131C>A	uc002hji.3	-	2	1294	c.917G>T	c.(916-918)AGA>ATA	p.R306I	SLFN12_uc002hjj.3_Missense_Mutation_p.R306I|SLFN12_uc010cts.2_Missense_Mutation_p.R306I	NM_018042	NP_060512	Q8IYM2	SLN12_HUMAN	schlafen family member 12	306							ATP binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GCGCTCCACTCTGAGTGCACA	0.433													5	42	---	---	---	---	PASS	A	33749131	A	A	33749131	3	1	5	1	0	0	0	0	1	0	0	0	14734	913	32	2	831	2	SLFN12	17	33749131	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	5939831	33749131	47446079	247	4710										
GGNBP2	79893	broad.mit.edu	37	chr17	34942339	34942339	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggaagggagtgaaacaggttCtcgggagggttcggatgttg	19	4	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:34942339C>T	uc002hnb.2	+	11	1685	c.1436C>T	c.(1435-1437)TCT>TTT	p.S479F	GGNBP2_uc002hna.2_3'UTR|GGNBP2_uc002hnc.1_Missense_Mutation_p.S308F	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	479					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		GAAACAGGTTCTCGGGAGGGT	0.423													20	27	---	---	---	---	PASS	T	34942339	T	T	34942339	3	4	5	1	0	0	0	0	1	0	0	0	6359	913	32	2	1474	2	GGNBP2	17	34942339	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1193208	34942339	46252871	248	4711										
PNMT	5409	broad.mit.edu	37	chr17	37826627	37826627	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtcttcttcgcctgggctcaGaaggttgggctgtgagggct	16	9	3	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:37826627G>T	uc002hsi.1	+	3	1056	c.834G>T	c.(832-834)CAG>CAT	p.Q278H		NM_002686	NP_002677	P11086	PNMT_HUMAN	phenylethanolamine N-methyltransferase	278					catecholamine biosynthetic process|hormone biosynthetic process	cytosol	phenylethanolamine N-methyltransferase activity			ovary(1)	1	all_cancers(6;6.59e-85)|all_epithelial(6;2.89e-103)|Breast(7;1.05e-86)|Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;3.87e-45)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CCTGGGCTCAGAAGGTTGGGC	0.562													3	5	---	---	---	---	PASS	T	37826627	T	T	37826627	3	4	5	1	0	0	0	0	1	0	0	0	12159	933	33	2	844	2	PNMT	17	37826627	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	2884288	37826627	43368583	249	4712										
CNTNAP1	8506	broad.mit.edu	37	chr17	40842122	40842122	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccagctttgtataaggaatcCtgtgaggcttatcggctcag	11	9	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:40842122C>A	uc002iay.2	+	12	1968	c.1752C>A	c.(1750-1752)TCC>TCA	p.S584S	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	584	Extracellular (Potential).|Fibrinogen C-terminal.				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		ATAAGGAATCCTGTGAGGCTT	0.383													6	115	---	---	---	---	PASS	A	40842122	A	A	40842122	2	1	5	1	0	0	0	0	0	0	0	1	3646	668	24	3		3	CNTNAP1	17	40842122	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	3015495	40842122	40353088	250	4713										
MAP3K14	9020	broad.mit.edu	37	chr17	43350976	43350976	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gacaggagcacgttgtcagcTgccaggccgccccggggagg	17	13	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:43350976T>A	uc002iiw.1	-	10	1662	c.1553_splice	c.e10-1	p.A518_splice	MAP3K14_uc002iiu.1_Silent_p.A47A|MAP3K14_uc010daj.1_Splice_Site|MAP3K14_uc002iiv.1_Splice_Site_p.A102_splice	NM_003954	NP_003945	Q99558	M3K14_HUMAN	mitogen-activated protein kinase kinase kinase						cellular response to mechanical stimulus|I-kappaB kinase/NF-kappaB cascade|immune response|positive regulation of I-kappaB kinase/NF-kappaB cascade|T cell costimulation	cytosol	ATP binding|MAP kinase kinase kinase activity|NF-kappaB-inducing kinase activity|protein binding			central_nervous_system(3)|breast(2)|lung(1)|ovary(1)|stomach(1)	8						CGTTGTCAGCTGCCAGGCCGC	0.617													7	13	---	---	---	---	PASS	A	43350976	A	A	43350976	5	1	5	1	0	0	0	0	0	0	1	0	9248	1594	55	5	1324	5	MAP3K14	17	43350976	Splice_Site	SNP	T	TCGA-18-3410-01A-01D-0983-08	2508854	43350976	37844234	251	4714										
CCDC47	57003	broad.mit.edu	37	chr17	61824274	61824274	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	actttgatttgtttcattttCatttgcttcttttccaactt	3	8	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:61824274C>G	uc002jbs.3	-	13	1755	c.1419G>C	c.(1417-1419)ATG>ATC	p.M473I	CCDC47_uc010ddx.2_Missense_Mutation_p.M473I	NM_020198	NP_064583	Q96A33	CCD47_HUMAN	coiled-coil domain containing 47 precursor	473	Potential.					integral to membrane	protein binding				0						GTTTCATTTTCATTTGCTTCT	0.413													15	43	---	---	---	---	PASS	G	61824274	G	G	61824274	3	3	5	1	0	0	0	0	1	0	0	0	2818	826	29	2	36	2	CCDC47	17	61824274	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	18473298	61824274	19370936	252	4715										
QRICH2	84074	broad.mit.edu	37	chr17	74287975	74287975	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	taaatcatgcaaatatgcacCaggttgtaccaaaccaagag	7	9	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr17:74287975C>A	uc002jrd.1	-	4	2515	c.2335G>T	c.(2335-2337)GGT>TGT	p.G779C	QRICH2_uc010wsz.1_Missense_Mutation_p.G705C|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	779							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						AAATATGCACCAGGTTGTACC	0.498													6	138	---	---	---	---	PASS	A	74287975	A	A	74287975	3	1	5	1	0	0	0	0	1	0	0	0	12880	594	21	3	2720	3	QRICH2	17	74287975	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	12463701	74287975	6907235	253	4716										
NDC80	10403	broad.mit.edu	37	chr18	2595474	2595474	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tacagaatatcattgacaacCagaagtactcagttgcagac	7	9	2	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr18:2595474C>A	uc002kli.2	+	11	1257	c.1075C>A	c.(1075-1077)CAG>AAG	p.Q359K		NM_006101	NP_006092	O14777	NDC80_HUMAN	kinetochore associated 2	359	Interaction with the N-terminus of CDCA1.|Potential.|Interaction with NEK2 and ZWINT.|Interaction with SMC1A.				attachment of spindle microtubules to kinetochore|cell division|establishment of mitotic spindle orientation|mitotic prometaphase|mitotic sister chromatid segregation|mitotic spindle organization|phosphatidylinositol-mediated signaling	condensed nuclear chromosome outer kinetochore|cytosol|Ndc80 complex	protein binding			ovary(1)	1						CATTGACAACCAGAAGTACTC	0.333													5	70	---	---	---	---	PASS	A	2595474	A	A	2595474	3	1	5	1	0	0	0	0	1	0	0	0	10242	595	21	3	1113	3	NDC80	18	2595474	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08		2595474	75481774	254	4717										
SMCHD1	23347	broad.mit.edu	37	chr18	2740761	2740761	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	attttcaccaagttctttatCttctttgtcaattgctgggg	7	8	5	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr18:2740761C>G	uc002klm.3	+	28	3764	c.3575C>G	c.(3574-3576)TCT>TGT	p.S1192C	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	1192					chromosome organization		ATP binding				0						AGTTCTTTATCTTCTTTGTCA	0.303													16	43	---	---	---	---	PASS	G	2740761	G	G	2740761	3	3	5	1	0	0	0	0	1	0	0	0	14788	913	32	2	3685	2	SMCHD1	18	2740761	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	145287	2740761	75336487	255	4718										
TMEM200C	645369	broad.mit.edu	37	chr18	5891948	5891948	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cttgcctttcaccaccaccaCgtcgttcttgcgcctcttct	5	18	4	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr18:5891948C>T	uc002kmx.1	-	1	156	c.115G>A	c.(115-117)GTG>ATG	p.V39M		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	39						integral to membrane					0						ACCACCACCACGTCGTTCTTG	0.607													8	24	---	---	---	---	PASS	T	5891948	T	T	5891948	3	4	5	1	0	0	0	0	1	0	0	0	16122	536	19	1	1754	1	TMEM200C	18	5891948	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	3151187	5891948	72185300	256	4719										
OSBPL1A	114876	broad.mit.edu	37	chr18	21819282	21819282	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	catgatgttcagtggccagcGtctccagtgcttctgacaag	11	11	3	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr18:21819282G>A	uc002kve.2	-	16	1520	c.1346C>T	c.(1345-1347)ACG>ATG	p.T449M	OSBPL1A_uc002kvd.2_Translation_Start_Site|OSBPL1A_uc010xbc.1_Missense_Mutation_p.T67M|OSBPL1A_uc002kvf.3_Missense_Mutation_p.T229M	NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	449	Potential.				cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					AGTGGCCAGCGTCTCCAGTGC	0.443													6	28	---	---	---	---	PASS	A	21819282	A	A	21819282	3	1	5	1	0	0	0	0	1	0	0	0	11277	1145	40	1	1558	1	OSBPL1A	18	21819282	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	15927334	21819282	56257966	257	4720										
RNF125	54941	broad.mit.edu	37	chr18	29617122	29617122	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccagtctaaagaacaacaagTggacctgtccttattgccgg	9	11	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr18:29617122T>C	uc002kxf.1	+	2	590	c.208T>C	c.(208-210)TGG>CGG	p.W70R		NM_017831	NP_060301	Q96EQ8	RN125_HUMAN	ring finger protein 125	70	RING-type.				negative regulation of type I interferon production	intracellular	ligase activity|zinc ion binding				0						GAACAACAAGTGGACCTGTCC	0.438													86	98	---	---	---	---	PASS	C	29617122	C	C	29617122	3	2	5	1	0	0	0	0	1	0	0	0	13434	1696	59	5	214	5	RNF125	18	29617122	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	7797840	29617122	48460126	258	4721										
TCEB3C	162699	broad.mit.edu	37	chr18	44555280	44555280	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	agcgttcactctgcgtccagGgaaagcagcttcctcctgga	11	13	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr18:44555280G>T	uc010xdb.1	-	1	1170	c.934C>A	c.(934-936)CCT>ACT	p.P312T	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	312	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						CTGCGTCCAGGGAAAGCAGCT	0.652													11	385	---	---	---	---	PASS	T	44555280	T	T	44555280	3	4	5	1	0	0	0	0	1	0	0	0	15680	1232	43	3	2353	3	TCEB3C	18	44555280	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	14938158	44555280	33521968	259	4722										
ZADH2	284273	broad.mit.edu	37	chr18	72914002	72914002	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttttcccttccgacagtcctCcgagctctttcaggctgatg	8	14	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr18:72914002C>A	uc002llx.2	-	2	771	c.503G>T	c.(502-504)GGA>GTA	p.G168V	ZADH2_uc010dqv.2_Missense_Mutation_p.G45V	NM_175907	NP_787103	Q8N4Q0	ZADH2_HUMAN	zinc binding alcohol dehydrogenase domain	168						peroxisome	oxidoreductase activity|zinc ion binding				0		Esophageal squamous(42;0.131)|Prostate(75;0.155)		READ - Rectum adenocarcinoma(2;0.0276)|BRCA - Breast invasive adenocarcinoma(31;0.216)		CGACAGTCCTCCGAGCTCTTT	0.532													10	370	---	---	---	---	PASS	A	72914002	A	A	72914002	3	1	5	1	0	0	0	0	1	0	0	0	17508	855	30	2	634	2	ZADH2	18	72914002	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	28358722	72914002	5163246	260	4723										
SLC39A3	29985	broad.mit.edu	37	chr19	2733429	2733429	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gaagcccagcaggaggatggTttcggccagcgggtagtcgg	18	9	0	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:2733429T>C	uc002lwg.2	-	3	519	c.265A>G	c.(265-267)ACC>GCC	p.T89A	SLC39A3_uc010xgy.1_Missense_Mutation_p.T89A	NM_144564	NP_653165	Q9BRY0	S39A3_HUMAN	solute carrier family 39 (zinc transporter),	89	Helical; (Potential).					integral to membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGAGGATGGTTTCGGCCAGC	0.612													28	46	---	---	---	---	PASS	C	2733429	C	C	2733429	3	2	5	1	0	0	0	0	1	0	0	0	14619	1725	60	5	683	5	SLC39A3	19	2733429	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08		2733429	56395554	261	4724										
FUT3	2525	broad.mit.edu	37	chr19	5844194	5844194	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgggagcgtccgtacacgtcCaccttgagatgagcctgcag	13	12	0	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:5844194C>A	uc002mdk.2	-	2	754	c.657G>T	c.(655-657)GTG>GTT	p.V219V	FUT3_uc002mdm.2_Silent_p.V219V|FUT3_uc002mdj.2_Silent_p.V219V|FUT3_uc002mdl.2_Silent_p.V219V	NM_001097641	NP_001091110	P21217	FUT3_HUMAN	fucosyltransferase 3	219	Lumenal (Potential).				protein glycosylation	Golgi cisterna membrane|integral to membrane|membrane fraction	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity				0						CGTACACGTCCACCTTGAGAT	0.627													5	68	---	---	---	---	PASS	A	5844194	A	A	5844194	2	1	5	1	0	0	0	0	0	0	0	1	6105	581	21	3		3	FUT3	19	5844194	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	3110765	5844194	53284789	262	4725										
RFX2	5990	broad.mit.edu	37	chr19	6040087	6040087	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cccgcgctggagacgatgggGctccccccgacatccatggt	13	16	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:6040087G>C	uc002meb.2	-	5	695	c.426C>G	c.(424-426)AGC>AGG	p.S142R	RFX2_uc002mec.2_Missense_Mutation_p.S142R|RFX2_uc010xiy.1_Missense_Mutation_p.S97R	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						AGACGATGGGGCTCCCCCCGA	0.697													5	22	---	---	---	---	PASS	C	6040087	C	C	6040087	3	2	5	1	0	0	0	0	1	0	0	0	13263	1194	42	4	1801	4	RFX2	19	6040087	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	195893	6040087	53088896	263	4726										
MUC16	94025	broad.mit.edu	37	chr19	9091388	9091388	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gagtgtgtatgtagatgcttCtttggtaaaatttccttctg	10	5	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:9091388C>G	uc002mkp.2	-	1	631	c.427G>C	c.(427-429)GAA>CAA	p.E143Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	143	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTAGATGCTTCTTTGGTAAAA	0.488													9	74	---	---	---	---	PASS	G	9091388	G	G	9091388	3	3	5	1	0	0	0	0	1	0	0	0	9973	922	32	2	43432	2	MUC16	19	9091388	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	3051301	9091388	50037595	264	4727										
RDH8	50700	broad.mit.edu	37	chr19	10131451	10131451	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gggattcttcgaaagcctcgCtatccagctgctgcagttca	10	12	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:10131451C>T	uc002mmr.2	+	4	758	c.509C>T	c.(508-510)GCT>GTT	p.A170V		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	170	Helical; (Potential).				estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	GAAAGCCTCGCTATCCAGCTG	0.577													13	13	---	---	---	---	PASS	T	10131451	T	T	10131451	3	4	5	1	0	0	0	0	1	0	0	0	13196	797	28	3	523	3	RDH8	19	10131451	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1040063	10131451	48997532	265	4728										
ZNF98	148198	broad.mit.edu	37	chr19	22575630	22575630	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	taagtccattgtaacattctTtgtgcaccttacactcatcc	4	12	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:22575630T>C	uc002nqt.2	-	4	529	c.407A>G	c.(406-408)AAA>AGA	p.K136R		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	136					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				GTAACATTCTTTGTGCACCTT	0.294													8	32	---	---	---	---	PASS	C	22575630	C	C	22575630	3	2	5	1	0	0	0	0	1	0	0	0	18200	1841	64	5	1315	5	ZNF98	19	22575630	Missense_Mutation	SNP	T	TCGA-18-3410-01A-01D-0983-08	12444179	22575630	36553353	266	4729										
ZNF99	7652	broad.mit.edu	37	chr19	22940929	22940929	+	Frame_Shift_Del	DEL	T	-	-													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gctttgccacattcttcacaTttgtagggtttctccccagt							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:22940929delT	uc010xrh.1	-	5	1509	c.1509delA	c.(1507-1509)AAAfs	p.K503fs		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)				ATTCTTCACATTTGTAGGGTT	0.373													51	47	---	---	---	---		-	22940929	-	-	22940929	7	5	5	1	0	1	0	1	0	0	0	0	18201	1490	52	0	1615	0	ZNF99	19	22940929	Frame_Shift_Del	DEL	T	TCGA-18-3410-01A-01D-0983-08	365299	22940929	36188054	267	4730										
ZNF91	7644	broad.mit.edu	37	chr19	23545174	23545174	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggacttctctgtaatataaaCgcatttatgttgggttttgt	9	5	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:23545174C>T	uc002nre.2	-	4	720	c.607G>A	c.(607-609)GTT>ATT	p.V203I	ZNF91_uc010xrj.1_Missense_Mutation_p.V171I	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	203						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				GTAATATAAACGCATTTATGT	0.318													6	50	---	---	---	---	PASS	T	23545174	T	T	23545174	3	4	5	1	0	0	0	0	1	0	0	0	18197	536	19	1	2972	1	ZNF91	19	23545174	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	604245	23545174	35583809	268	4731										
TSHZ3	57616	broad.mit.edu	37	chr19	31769798	31769798	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttccttcagaggcactttttGgtagtgttttgttttgatca	9	6	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:31769798G>T	uc002nsy.3	-	2	966	c.901C>A	c.(901-903)CAA>AAA	p.Q301K		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	301					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					GGCACTTTTTGGTAGTGTTTT	0.537													6	79	---	---	---	---	PASS	T	31769798	T	T	31769798	3	4	5	1	0	0	0	0	1	0	0	0	16622	1357	47	3	2348	3	TSHZ3	19	31769798	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	8224624	31769798	27359185	269	4732										
ZNF585A	199704	broad.mit.edu	37	chr19	37642521	37642521	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctgctctgatggacgctgaaCactgatttctgaacgaagcc	10	11	2	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:37642521C>A	uc002ofo.1	-	5	2511	c.2280G>T	c.(2278-2280)GTG>GTT	p.V760V	ZNF585A_uc002ofm.1_Silent_p.V705V|ZNF585A_uc002ofn.1_Silent_p.V705V	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	760	C2H2-type 22.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GGACGCTGAACACTGATTTCT	0.483													21	81	---	---	---	---	PASS	A	37642521	A	A	37642521	2	1	5	1	0	0	0	0	0	0	0	1	18014	465	17	3		3	ZNF585A	19	37642521	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	5872723	37642521	21486462	270	4733										
FBXO27	126433	broad.mit.edu	37	chr19	39521752	39521752	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tctaggtccaagacctgcttCttgcaacaccagctgggaat	9	12	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:39521752C>G	uc002okh.2	-	4	571	c.489G>C	c.(487-489)AAG>AAC	p.K163N		NM_178820	NP_849142	Q8NI29	FBX27_HUMAN	F-box protein 27	163	FBA.				protein catabolic process	SCF ubiquitin ligase complex	glycoprotein binding			ovary(1)	1	all_cancers(60;3.79e-07)|all_lung(34;1.26e-07)|Lung NSC(34;1.46e-07)|all_epithelial(25;4.69e-07)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			AGACCTGCTTCTTGCAACACC	0.532													34	159	---	---	---	---	PASS	G	39521752	G	G	39521752	3	3	5	1	0	0	0	0	1	0	0	0	5737	912	32	2	374	2	FBXO27	19	39521752	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1879231	39521752	19607231	271	4734										
EXOSC5	56915	broad.mit.edu	37	chr19	41903110	41903110	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	caggaaggaagcagagccatCtggccgcgacagcaggttct	14	11	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:41903110C>T	uc002oqo.2	-	1	147	c.124G>A	c.(124-126)GAT>AAT	p.D42N	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Intron|BCKDHA_uc002oqp.1_5'Flank|BCKDHA_uc002oqq.2_5'Flank|BCKDHA_uc002oqr.2_5'Flank|BCKDHA_uc010xvz.1_5'Flank	NM_020158	NP_064543	Q9NQT4	EXOS5_HUMAN	exosome component Rrp46	42					DNA deamination|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5'-exoribonuclease activity|protein binding|RNA binding				0						GCAGAGCCATCTGGCCGCGAC	0.587													37	161	---	---	---	---	PASS	T	41903110	T	T	41903110	3	4	5	1	0	0	0	0	1	0	0	0	5318	913	32	2	607	2	EXOSC5	19	41903110	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2381358	41903110	17225873	272	4735										
CEACAM3	1084	broad.mit.edu	37	chr19	42314027	42314027	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	agcatccagcgtgacctcaaGgagcagcagccccaagccct	10	16	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:42314027G>T	uc002orn.1	+	4	643	c.567G>T	c.(565-567)AAG>AAT	p.K189N	CEACAM3_uc010eia.1_Intron|CEACAM3_uc002oro.1_RNA	NM_001815	NP_001806	P40198	CEAM3_HUMAN	carcinoembryonic antigen-related cell adhesion	189	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						GTGACCTCAAGGAGCAGCAGC	0.592													10	394	---	---	---	---	PASS	T	42314027	T	T	42314027	3	4	5	1	0	0	0	0	1	0	0	0	3193	991	35	3	581	3	CEACAM3	19	42314027	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	410917	42314027	16814956	273	4736										
GSK3A	2931	broad.mit.edu	37	chr19	42740845	42740845	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcgggcacatattccagcacCagatttaggtaaagctcgtc	9	11	0	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:42740845C>A	uc002otb.1	-	4	698	c.579G>T	c.(577-579)CTG>CTT	p.L193L	GSK3A_uc002ota.1_Silent_p.L111L|GSK3A_uc002otc.2_RNA	NM_019884	NP_063937	P49840	GSK3A_HUMAN	glycogen synthase kinase 3 alpha	193	Protein kinase.				insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of insulin receptor signaling pathway|negative regulation of transferase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein catabolic process	beta-catenin destruction complex|cytosol	ATP binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|tau-protein kinase activity			ovary(2)|lung(2)	4		Prostate(69;0.00682)				ATTCCAGCACCAGATTTAGGT	0.557													6	142	---	---	---	---	PASS	A	42740845	A	A	42740845	2	1	5	1	0	0	0	0	0	0	0	1	6823	581	21	3		3	GSK3A	19	42740845	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	426818	42740845	16388138	274	4737										
PSG8	440533	broad.mit.edu	37	chr19	43262247	43262247	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgcagtgtactttgtgacacCcaatagaaagagggtcctgt	11	8	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:43262247C>A	uc002ouo.2	-	3	714	c.616G>T	c.(616-618)GGT>TGT	p.G206C	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc010eim.2_RNA|PSG8_uc002oui.2_Missense_Mutation_p.G45C|PSG8_uc002ouh.2_Missense_Mutation_p.G206C|PSG8_uc010ein.2_Missense_Mutation_p.G84C|PSG8_uc002ouj.3_Intron|PSG8_uc002ouk.3_Missense_Mutation_p.G45C|PSG8_uc002oul.3_Missense_Mutation_p.G206C|PSG8_uc002oum.3_Intron|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Intron	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	206	Ig-like C2-type 1.					extracellular region					0		Prostate(69;0.00899)				TTTGTGACACCCAATAGAAAG	0.522													11	541	---	---	---	---	PASS	A	43262247	A	A	43262247	3	1	5	1	0	0	0	0	1	0	0	0	12661	623	22	3	697	3	PSG8	19	43262247	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	521402	43262247	15866736	275	4738										
ZNF235	9310	broad.mit.edu	37	chr19	44793188	44793188	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gggggaatcatggtgcttggGgaactgagagctctttcctt	15	7	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:44793188G>T	uc002oza.3	-	5	503	c.400C>A	c.(400-402)CCC>ACC	p.P134T	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF235_uc002ozb.3_Missense_Mutation_p.P130T|ZNF235_uc010xwx.1_Missense_Mutation_p.P48T	NM_004234	NP_004225	Q14590	ZN235_HUMAN	zinc finger protein 93 homolog	134					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)	3		Prostate(69;0.0352)|all_neural(266;0.116)				TGGTGCTTGGGGAACTGAGAG	0.458													8	191	---	---	---	---	PASS	T	44793188	T	T	44793188	3	4	5	1	0	0	0	0	1	0	0	0	17785	1232	43	3	1820	3	ZNF235	19	44793188	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	1530941	44793188	14335795	276	4739										
ZNF229	7772	broad.mit.edu	37	chr19	44932748	44932748	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tggcatctgtatggcttctcGccagtgtgcactctcttatg	10	11	3	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:44932748G>A	uc002oze.1	-	6	2642	c.2208C>T	c.(2206-2208)GGC>GGT	p.G736G	ZNF229_uc010ejk.1_Silent_p.G390G|ZNF229_uc010ejl.1_Silent_p.G730G	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	736					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				ATGGCTTCTCGCCAGTGTGCA	0.488													20	48	---	---	---	---	PASS	A	44932748	A	A	44932748	2	1	5	1	0	0	0	0	0	0	0	1	17779	1074	38	1		1	ZNF229	19	44932748	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	139560	44932748	14196235	277	4740										
ZNF229	7772	broad.mit.edu	37	chr19	44932971	44932971	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atgtgcacctaaagccctttCcgcactcttggcatctgtaa	7	13	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:44932971C>T	uc002oze.1	-	6	2419	c.1985G>A	c.(1984-1986)GGA>GAA	p.G662E	ZNF229_uc010ejk.1_Missense_Mutation_p.G316E|ZNF229_uc010ejl.1_Missense_Mutation_p.G656E	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	662	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				AAAGCCCTTTCCGCACTCTTG	0.493													31	161	---	---	---	---	PASS	T	44932971	T	T	44932971	3	4	5	1	0	0	0	0	1	0	0	0	17779	855	30	2	496	2	ZNF229	19	44932971	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	223	44932971	14196012	278	4741										
IGFL2	147920	broad.mit.edu	37	chr19	46664046	46664046	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gagctctgctgtcttgattcCtttggcctcacaaacgattt	8	11	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:46664046C>A	uc010xxv.1	+	3	285	c.249C>A	c.(247-249)TCC>TCA	p.S83S	IGFL2_uc002peb.2_Silent_p.S94S	NM_001135113	NP_001128585	Q6UWQ7	IGFL2_HUMAN	IGF-like family member 2 isoform b	83						extracellular region	protein binding				0		Ovarian(192;0.0908)|all_neural(266;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(486;0.031)|Epithelial(262;0.247)		GTCTTGATTCCTTTGGCCTCA	0.527													8	373	---	---	---	---	PASS	A	46664046	A	A	46664046	2	1	5	1	0	0	0	0	0	0	0	1	7587	668	24	3		3	IGFL2	19	46664046	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	1731075	46664046	12464937	279	4742										
BCAT2	587	broad.mit.edu	37	chr19	49310325	49310325	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gacagagagaagctttcgtgCccagatctgggtggagaaag	15	7	1	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:49310325C>A	uc002pkr.2	-	2	68	c.31G>T	c.(31-33)GCA>TCA	p.A11S	BCAT2_uc002pkp.2_5'UTR|BCAT2_uc002pkq.3_5'UTR|BCAT2_uc002pks.2_5'UTR|BCAT2_uc002pkt.2_Intron|BCAT2_uc010emh.1_Missense_Mutation_p.A11S|BCAT2_uc010emi.1_Intron|BCAT2_uc002pku.1_5'UTR|BCAT2_uc010emj.1_RNA	NM_001190	NP_001181	O15382	BCAT2_HUMAN	branched chain aminotransferase 2, mitochondrial	11						mitochondrial matrix	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			ovary(1)	1		all_epithelial(76;7e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000138)|all cancers(93;0.000366)|Epithelial(262;0.0195)|GBM - Glioblastoma multiforme(486;0.0224)	L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|Pyridoxal Phosphate(DB00114)	AGCTTTCGTGCCCAGATCTGG	0.587													12	15	---	---	---	---	PASS	A	49310325	A	A	49310325	3	1	5	1	0	0	0	0	1	0	0	0	1355	739	26	3	1187	3	BCAT2	19	49310325	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2646279	49310325	9818658	280	4743										
TULP2	7288	broad.mit.edu	37	chr19	49398264	49398264	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccctaaattaccaggtcgttGgtgggcttgccaacccttgc	10	13	0	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:49398264G>T	uc002pkz.2	-	6	656	c.505C>A	c.(505-507)CAA>AAA	p.Q169K		NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	169					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		CCAGGTCGTTGGTGGGCTTGC	0.488													4	23	---	---	---	---	PASS	T	49398264	T	T	49398264	3	4	5	1	0	0	0	0	1	0	0	0	16771	1357	47	3	1089	3	TULP2	19	49398264	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	87939	49398264	9730719	281	4744										
NUCB1	4924	broad.mit.edu	37	chr19	49416395	49416395	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ggagcagagaaaggaggcggAgaggaagctggaagagcaac	19	5	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:49416395A>T	uc002plb.3	+	6	680	c.608A>T	c.(607-609)GAG>GTG	p.E203V	NUCB1_uc002pla.2_Missense_Mutation_p.E203V|NUCB1_uc002plc.2_Missense_Mutation_p.E203V	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	203	Potential.|Potential.					ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		AAGGAGGCGGAGAGGAAGCTG	0.572													24	14	---	---	---	---	PASS	T	49416395	T	T	49416395	3	4	5	1	0	0	0	0	1	0	0	0	10718	304	11	5	626	5	NUCB1	19	49416395	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	18131	49416395	9712588	282	4745										
CACNG7	59284	broad.mit.edu	37	chr19	54416243	54416243	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gaccaccgaggtcaagatggCcctgcacgccggcctctggc	13	16	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:54416243C>T	uc002qcr.1	+	1	173	c.158C>T	c.(157-159)GCC>GTC	p.A53V	CACNG7_uc010era.1_Missense_Mutation_p.A53V	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	53					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	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;0.0711)		GTCAAGATGGCCCTGCACGCC	0.592													5	35	---	---	---	---	PASS	T	54416243	T	T	54416243	3	4	5	1	0	0	0	0	1	0	0	0	2562	739	26	3	160	3	CACNG7	19	54416243	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	4999848	54416243	4712740	283	4746										
LENG9	94059	broad.mit.edu	37	chr19	54973455	54973455	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtgggggtgcagctgccctgGagactgtagtgtactcagcc	16	10	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:54973455G>C	uc010yez.1	-	1	1440	c.1321C>G	c.(1321-1323)CCA>GCA	p.P441A		NM_198988	NP_945339	Q96B70	LENG9_HUMAN	leukocyte receptor cluster (LRC) member 9	441					RNA metabolic process	intracellular	catalytic activity|nucleic acid binding|zinc ion binding				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.134)		AGCTGCCCTGGAGACTGTAGT	0.642													15	45	---	---	---	---	PASS	C	54973455	C	C	54973455	3	2	5	1	0	0	0	0	1	0	0	0	8725	1174	41	2	188	2	LENG9	19	54973455	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	557212	54973455	4155528	284	4747										
NLRP13	126204	broad.mit.edu	37	chr19	56423991	56423991	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ttcacttgagtcatcaaagtGtctcatgaaatatacccgta	6	9	4	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:56423991G>T	uc010ygg.1	-	5	1217	c.1192C>A	c.(1192-1194)CAC>AAC	p.H398N		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	398	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)		TCATCAAAGTGTCTCATGAAA	0.448													43	48	---	---	---	---	PASS	T	56423991	T	T	56423991	3	4	5	1	0	0	0	0	1	0	0	0	10475	1377	48	3	1965	3	NLRP13	19	56423991	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	1450536	56423991	2704992	285	4748										
ZFP28	140612	broad.mit.edu	37	chr19	57066051	57066051	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcagcatcagttctcagcttGccactcatcagagaatccat	6	13	5	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:57066051G>A	uc002qnj.2	+	8	1968	c.1897G>A	c.(1897-1899)GCC>ACC	p.A633T	uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	633	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		TTCTCAGCTTGCCACTCATCA	0.453													39	98	---	---	---	---	PASS	A	57066051	A	A	57066051	3	1	5	1	0	0	0	0	1	0	0	0	17639	1319	46	3	1927	3	ZFP28	19	57066051	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	642060	57066051	2062932	286	4749										
ZNF543	125919	broad.mit.edu	37	chr19	57839995	57839995	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcattcaacactacattatcCacactggggagaagccctat	6	12	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr19:57839995C>A	uc002qoi.1	+	4	1510	c.1165C>A	c.(1165-1167)CAC>AAC	p.H389N		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	389	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		CTACATTATCCACACTGGGGA	0.502													5	68	---	---	---	---	PASS	A	57839995	A	A	57839995	3	1	5	1	0	0	0	0	1	0	0	0	17973	594	21	3	1179	3	ZNF543	19	57839995	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	773944	57839995	1288988	287	4750										
RBCK1	10616	broad.mit.edu	37	chr20	409639	409639	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	atgcgctgcccccagtgccaGatcgtggtacagaagaagga	13	11	0	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr20:409639G>A	uc002wdp.3	+	11	2046	c.1353G>A	c.(1351-1353)CAG>CAA	p.Q451Q	RBCK1_uc002wdq.3_Silent_p.Q409Q|RBCK1_uc010fzy.2_RNA|RBCK1_uc002wdr.3_Silent_p.Q281Q	NM_031229	NP_112506	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing	451	IBR-type 2.				interspecies interaction between organisms|negative regulation of NF-kappaB transcription factor activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|proteasomal ubiquitin-dependent protein catabolic process|protein linear polyubiquitination|T cell receptor signaling pathway	LUBAC complex	protein binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)				CCCAGTGCCAGATCGTGGTAC	0.701													7	24	---	---	---	---	PASS	A	409639	A	A	409639	2	1	5	1	0	0	0	0	0	0	0	1	13107	933	33	2		2	RBCK1	20	409639	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08		409639	62615881	288	4751										
C20orf194	25943	broad.mit.edu	37	chr20	3268434	3268434	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgatttggcgatacaccatcCatctggaaaggtaaaaggta	10	7	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr20:3268434C>A	uc002wii.2	-	27	2381	c.2330G>T	c.(2329-2331)TGG>TTG	p.W777L	C20orf194_uc002wij.3_Missense_Mutation_p.W516L|C20orf194_uc002wik.2_Missense_Mutation_p.W451L	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	777											0						ATACACCATCCATCTGGAAAG	0.507													5	91	---	---	---	---	PASS	A	3268434	A	A	3268434	3	1	5	1	0	0	0	0	1	0	0	0	2099	595	21	3	1247	3	C20orf194	20	3268434	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2858795	3268434	59757086	289	4752										
MACROD2	140733	broad.mit.edu	37	chr20	13982995	13982995	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tacctaagagactatattccCctgaacagcattctatcatg	5	11	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr20:13982995C>T	uc002wou.2	+	2	372	c.108C>T	c.(106-108)CCC>CCT	p.P36P	MACROD2_uc002wot.2_Silent_p.P36P|MACROD2_uc002wos.2_RNA	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	36											0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				ACTATATTCCCCTGAACAGCA	0.368													35	43	---	---	---	---	PASS	T	13982995	T	T	13982995	2	4	5	1	0	0	0	0	0	0	0	1	9146	610	22	3		3	MACROD2	20	13982995	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	10714561	13982995	49042525	290	4753										
NINL	22981	broad.mit.edu	37	chr20	25462703	25462703	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cgcccacaggccttccagctCagcttgcagctcatcgttgc	9	17	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr20:25462703C>G	uc002wux.1	-	14	1785	c.1711G>C	c.(1711-1713)GAG>CAG	p.E571Q	NINL_uc010gdn.1_Missense_Mutation_p.E571Q|NINL_uc010gdo.1_Missense_Mutation_p.E354Q	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	571	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CCTTCCAGCTCAGCTTGCAGC	0.687													9	31	---	---	---	---	PASS	G	25462703	G	G	25462703	3	3	5	1	0	0	0	0	1	0	0	0	10420	835	29	2	2481	2	NINL	20	25462703	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	11479708	25462703	37562817	291	4754										
TRPC4AP	26133	broad.mit.edu	37	chr20	33593519	33593519	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tttcatatccacctggttttCaaatcggtccagggacagag	9	10	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr20:33593519C>G	uc002xbk.2	-	16	1949	c.1915G>C	c.(1915-1917)GAA>CAA	p.E639Q	TRPC4AP_uc002xbj.2_RNA|TRPC4AP_uc010zuq.1_Missense_Mutation_p.E230Q|TRPC4AP_uc002xbl.2_Missense_Mutation_p.E631Q|TRPC4AP_uc010zur.1_Missense_Mutation_p.E600Q	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	639					protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			ACCTGGTTTTCAAATCGGTCC	0.517													60	84	---	---	---	---	PASS	G	33593519	G	G	33593519	3	3	5	1	0	0	0	0	1	0	0	0	16578	835	29	2	494	2	TRPC4AP	20	33593519	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	8130816	33593519	29432001	292	4755										
TRPC4AP	26133	broad.mit.edu	37	chr20	33593586	33593586	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tccaccagggagctgttgatCtgcttcaggaatacctggaa	11	10	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr20:33593586C>G	uc002xbk.2	-	16	1882	c.1848G>C	c.(1846-1848)CAG>CAC	p.Q616H	TRPC4AP_uc002xbj.2_RNA|TRPC4AP_uc010zuq.1_Missense_Mutation_p.Q207H|TRPC4AP_uc002xbl.2_Missense_Mutation_p.Q608H|TRPC4AP_uc010zur.1_Missense_Mutation_p.Q577H	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	616					protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			AGCTGTTGATCTGCTTCAGGA	0.522													42	73	---	---	---	---	PASS	G	33593586	G	G	33593586	3	3	5	1	0	0	0	0	1	0	0	0	16578	912	32	2	561	2	TRPC4AP	20	33593586	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	67	33593586	29431934	293	4756										
TPTE	7179	broad.mit.edu	37	chr21	10942775	10942775	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cgccttttgttttctgaaacCtgacagtttaaaatcgtcat	6	9	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr21:10942775C>A	uc002yip.1	-	13	1035	c.667_splice	c.e13-1	p.V223_splice	TPTE_uc002yis.1_Splice_Site|TPTE_uc002yiq.1_Splice_Site_p.V205_splice|TPTE_uc002yir.1_Splice_Site_p.V185_splice|TPTE_uc010gkv.1_Splice_Site_p.V85_splice	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTTCTGAAACCTGACAGTTTA	0.348													8	380	---	---	---	---	PASS	A	10942775	A	A	10942775	5	1	5	1	0	0	0	0	0	0	1	0	16427	695	24	3	1037	3	TPTE	21	10942775	Splice_Site	SNP	C	TCGA-18-3410-01A-01D-0983-08		10942775	37187120	294	4757										
DONSON	29980	broad.mit.edu	37	chr21	34956954	34956954	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgaccaaggacttgtctttcCagccatttttctatcagctc	6	12	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr21:34956954C>T	uc002ysk.2	-	4	794	c.727G>A	c.(727-729)GGA>AGA	p.G243R	DONSON_uc002ysn.1_Missense_Mutation_p.G126R|DONSON_uc002ysi.1_Missense_Mutation_p.G3R|DONSON_uc002ysj.2_5'UTR|DONSON_uc002ysl.2_5'UTR|DONSON_uc010gme.2_Missense_Mutation_p.G216R|DONSON_uc002ysm.2_Missense_Mutation_p.G243R	NM_017613	NP_060083	Q9NYP3	DONS_HUMAN	downstream neighbor of SON	243					multicellular organismal development	nucleus				ovary(1)|central_nervous_system(1)	2						CTTGTCTTTCCAGCCATTTTT	0.428													4	37	---	---	---	---	PASS	T	34956954	T	T	34956954	3	4	5	1	0	0	0	0	1	0	0	0	4706	603	21	3	1001	3	DONSON	21	34956954	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	24014179	34956954	13172941	295	4758										
TTC3	7267	broad.mit.edu	37	chr21	38459592	38459592	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tgagggagatttcactgtggCggattatgccttgttagaag	14	5	1	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr21:38459592C>A	uc002yvz.2	+	2	140	c.35C>A	c.(34-36)GCG>GAG	p.A12E	TTC3_uc011aee.1_Intron|TTC3_uc002ywa.2_Missense_Mutation_p.A12E|TTC3_uc002ywb.2_Missense_Mutation_p.A12E|TTC3_uc010gnf.2_5'UTR|TTC3_uc011aed.1_Intron|TTC3_uc010gne.1_Missense_Mutation_p.A12E	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	12					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				TTCACTGTGGCGGATTATGCC	0.403													6	114	---	---	---	---	PASS	A	38459592	A	A	38459592	3	1	5	1	0	0	0	0	1	0	0	0	16694	768	27	1	37	1	TTC3	21	38459592	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	3502638	38459592	9670303	296	4759										
BRWD1	54014	broad.mit.edu	37	chr21	40572204	40572204	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gattgctgcttctggatagcCcactgcgtgaggaggattca	13	9	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr21:40572204C>A	uc002yxk.1	-	39	4833	c.4694G>T	c.(4693-4695)GGG>GTG	p.G1565V	BRWD1_uc010goc.1_Missense_Mutation_p.G208V|BRWD1_uc002yxl.2_Missense_Mutation_p.G1565V	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1565					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				TCTGGATAGCCCACTGCGTGA	0.438													6	107	---	---	---	---	PASS	A	40572204	A	A	40572204	3	1	5	1	0	0	0	0	1	0	0	0	1525	623	22	3	2523	3	BRWD1	21	40572204	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2112612	40572204	7557691	297	4760										
SNAP29	9342	broad.mit.edu	37	chr22	21224807	21224807	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cagaatggcaccctcacctcCcagcccaacaacaggtgagt	8	16	1	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr22:21224807C>A	uc011ahw.1	+	2	527	c.420C>A	c.(418-420)TCC>TCA	p.S140S		NM_004782	NP_004773	O95721	SNP29_HUMAN	synaptosomal-associated protein 29	140					cellular membrane fusion|exocytosis|protein transport|vesicle targeting	cell junction|cytoplasm|nucleus|synapse|synaptosome	SNAP receptor activity				0	all_cancers(11;2.77e-25)|all_epithelial(7;8.92e-24)|Lung NSC(8;1.49e-15)|all_lung(8;2.54e-14)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000592)|Lung(15;0.0117)			CCCTCACCTCCCAGCCCAACA	0.488													4	18	---	---	---	---	PASS	A	21224807	A	A	21224807	2	1	5	1	0	0	0	0	0	0	0	1	14831	610	22	3		3	SNAP29	22	21224807	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08		21224807	30079759	298	4761										
AP1B1	162	broad.mit.edu	37	chr22	29727776	29727776	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ctgccctgcccggaacccacCtggaggttgttcagaggctc	12	15	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr22:29727776C>T	uc003afj.2	-	18	2623	c.2439G>A	c.(2437-2439)CAG>CAA	p.Q813Q	AP1B1_uc003afi.2_Silent_p.Q806Q|AP1B1_uc003afk.2_Silent_p.Q806Q|AP1B1_uc003afl.2_Silent_p.Q786Q|AP1B1_uc003afh.2_Silent_p.Q10Q|AP1B1_uc011ako.1_Silent_p.Q366Q	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	813					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						CGGAACCCACCTGGAGGTTGT	0.627													8	23	---	---	---	---	PASS	T	29727776	T	T	29727776	2	4	5	1	0	0	0	0	0	0	0	1	731	695	24	3		3	AP1B1	22	29727776	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	8502969	29727776	21576790	299	4762										
PES1	23481	broad.mit.edu	37	chr22	30975749	30975749	+	Missense_Mutation	SNP	C	T	T													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cccgctcacctgggtcctctCcccgctgcagagccagcagc							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr22:30975749C>T	uc003aij.1	-	12	1417	c.1343G>A	c.(1342-1344)GGA>GAA	p.G448E	PES1_uc003aik.1_Missense_Mutation_p.G443E|PES1_uc003ail.1_Missense_Mutation_p.G431E|PES1_uc003aim.1_Missense_Mutation_p.G448E|PES1_uc003ain.1_Missense_Mutation_p.G309E|PES1_uc003aio.1_Missense_Mutation_p.G309E	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain	448					cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						TGGGTCCTCTCCCCGCTGCAG	0.617													10	33	---	---	---	---	PASS	T	30975749	T	T	30975749	3	4	5	1	0	0	0	0	1	0	0	0	11733	855	30	2	439	2	PES1	22	30975749	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1247973	30975749	20328817	300	4763	203	2								
PES1	23481	broad.mit.edu	37	chr22	30975750	30975750	+	Missense_Mutation	SNP	C	T	T													0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	ccgctcacctgggtcctctcCccgctgcagagccagcagct							TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr22:30975750C>T	uc003aij.1	-	12	1416	c.1342G>A	c.(1342-1344)GGA>AGA	p.G448R	PES1_uc003aik.1_Missense_Mutation_p.G443R|PES1_uc003ail.1_Missense_Mutation_p.G431R|PES1_uc003aim.1_Missense_Mutation_p.G448R|PES1_uc003ain.1_Missense_Mutation_p.G309R|PES1_uc003aio.1_Missense_Mutation_p.G309R	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain	448					cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						GGGTCCTCTCCCCGCTGCAGA	0.622													10	33	---	---	---	---	PASS	T	30975750	T	T	30975750	3	4	5	1	0	0	0	0	1	0	0	0	11733	632	22	3	440	3	PES1	22	30975750	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	1	30975750	20328816	301	4764	203	2								
TRIOBP	11078	broad.mit.edu	37	chr22	38121252	38121252	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	acaatcccaggaattcatctCcccatcgtactaacaaagac	4	14	2	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr22:38121252C>T	uc003atr.2	+	7	2960	c.2689C>T	c.(2689-2691)CCC>TCC	p.P897S	TRIOBP_uc003atu.2_Missense_Mutation_p.P725S|TRIOBP_uc003atq.1_Missense_Mutation_p.P897S|TRIOBP_uc003ats.1_Missense_Mutation_p.P725S	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	897					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GAATTCATCTCCCCATCGTAC	0.547													43	110	---	---	---	---	PASS	T	38121252	T	T	38121252	3	4	5	1	0	0	0	0	1	0	0	0	16550	855	30	2	2707	2	TRIOBP	22	38121252	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	7145502	38121252	13183314	302	4765										
SEPT3	55964	broad.mit.edu	37	chr22	42383754	42383754	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cctttacttcatctctcccaCaggacactcgtatgtaccaa	4	15	2	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr22:42383754C>A	uc003bbr.3	+	5	680	c.542C>A	c.(541-543)ACA>AAA	p.T181K	WBP2NL_uc011ape.1_Intron|SEPT3_uc003bbs.3_Missense_Mutation_p.T181K|SEPT3_uc010gyr.2_Missense_Mutation_p.T117K|SEPT3_uc011apj.1_Missense_Mutation_p.T117K|SEPT3_uc010gys.2_5'UTR	NM_145733	NP_663786	Q9UH03	SEPT3_HUMAN	septin 3 isoform A	181					cell cycle|cytokinesis	cell junction|septin complex	GTP binding				0						ATCTCTCCCACAGGACACTCG	0.517													5	26	---	---	---	---	PASS	A	42383754	A	A	42383754	3	1	5	1	0	0	0	0	1	0	0	0	14065	478	17	3	560	3	SEPT3	22	42383754	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	4262502	42383754	8920812	303	4766										
PRR5-ARHGAP8	553158	broad.mit.edu	37	chr22	45198006	45198006	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	acgttcagctgctgccggatGccaccctcccacgagctgga	11	16	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr22:45198006G>T	uc003bfd.2	+	9	1163	c.891G>T	c.(889-891)ATG>ATT	p.M297I	PRR5-ARHGAP8_uc003bfc.2_Missense_Mutation_p.M174I|PRR5-ARHGAP8_uc011aqi.1_Missense_Mutation_p.M165I|PRR5-ARHGAP8_uc011aqj.1_Missense_Mutation_p.M79I|ARHGAP8_uc003bfi.2_Missense_Mutation_p.M43I|ARHGAP8_uc010gzv.2_Missense_Mutation_p.M43I|ARHGAP8_uc003bfj.2_Missense_Mutation_p.M43I|ARHGAP8_uc003bfk.2_Missense_Mutation_p.M43I|ARHGAP8_uc003bfl.2_Intron|PRR5-ARHGAP8_uc003bfg.1_Missense_Mutation_p.M79I	NM_181335	NP_851852			Rho GTPase activating protein 8 isoform 2											skin(2)	2						GCTGCCGGATGCCACCCTCCC	0.582													27	26	---	---	---	---	PASS	T	45198006	T	T	45198006	3	4	5	1	0	0	0	0	1	0	0	0	12601	1319	46	3	517	3	PRR5-ARHGAP8	22	45198006	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	2814252	45198006	6106560	304	4767										
FAM116B	414918	broad.mit.edu	37	chr22	50754502	50754502	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gactcggacttgtccaccctGgatgggatgcgcacctggga	14	12	0	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chr22:50754502G>A	uc011aru.1	-	9	726	c.654C>T	c.(652-654)TCC>TCT	p.S218S	FAM116B_uc011arv.1_Silent_p.S218S	NM_001001794	NP_001001794	Q8NEG7	F116B_HUMAN	family with sequence similarity 116, member B	218											0		all_cancers(38;4.34e-09)|all_epithelial(38;3.03e-08)|all_lung(38;0.00141)|Breast(42;0.00387)|Lung NSC(38;0.0199)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TGTCCACCCTGGATGGGATGC	0.622													19	64	---	---	---	---	PASS	A	50754502	A	A	50754502	2	1	5	1	0	0	0	0	0	0	0	1	5408	1335	47	3		3	FAM116B	22	50754502	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	5556496	50754502	550064	305	4768										
REPS2	9185	broad.mit.edu	37	chrX	17043189	17043189	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tggttctttgaagcaggaaaCacagtctcccacgatgtcac	9	11	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chrX:17043189C>A	uc004cxv.1	+	4	725	c.554C>A	c.(553-555)ACA>AAA	p.T185K	REPS2_uc004cxw.1_Missense_Mutation_p.T184K|REPS2_uc011miw.1_Missense_Mutation_p.T44K	NM_004726	NP_004717	Q8NFH8	REPS2_HUMAN	RALBP1 associated Eps domain containing 2	185					epidermal growth factor receptor signaling pathway|protein complex assembly	cytoplasm	calcium ion binding|protein binding			skin(2)|central_nervous_system(1)	3	Hepatocellular(33;0.183)					AAGCAGGAAACACAGTCTCCC	0.572													13	30	---	---	---	---	PASS	A	17043189	A	A	17043189	3	1	5	1	0	0	0	0	1	0	0	0	13229	478	17	3	568	3	REPS2	23	17043189	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08		17043189	138227371	306	4769										
PDHA1	5160	broad.mit.edu	37	chrX	19368220	19368220	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtggtttctgtcacttgtgtGatggtcaggtgagtggtagg	17	4	3	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chrX:19368220G>T	uc004czg.3	+	3	428	c.283G>T	c.(283-285)GAT>TAT	p.D95Y	PDHA1_uc004czh.3_Missense_Mutation_p.D130Y|PDHA1_uc011mjc.1_Missense_Mutation_p.D92Y|PDHA1_uc011mjd.1_Missense_Mutation_p.D92Y|PDHA1_uc010nfk.2_Missense_Mutation_p.D92Y	NM_000284	NP_000275	P08559	ODPA_HUMAN	pyruvate dehydrogenase E1 alpha 1 precursor	95					glycolysis|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	protein binding|pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)	1	Hepatocellular(33;0.183)				NADH(DB00157)	TCACTTGTGTGATGGTCAGGT	0.423													47	13	---	---	---	---	PASS	T	19368220	T	T	19368220	3	4	5	1	0	0	0	0	1	0	0	0	11664	1290	45	2	411	2	PDHA1	23	19368220	Missense_Mutation	SNP	G	TCGA-18-3410-01A-01D-0983-08	2325031	19368220	135902340	307	4770										
FAM47A	158724	broad.mit.edu	37	chrX	34149721	34149721	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	actccagtctcaggaggctcCgggcggagactggacaccgg	15	13	1	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chrX:34149721C>T	uc004ddg.2	-	1	708	c.675G>A	c.(673-675)CCG>CCA	p.P225P		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	225	Pro-rich.							p.P225P(1)		ovary(4)|central_nervous_system(1)	5						CAGGAGGCTCCGGGCGGAGAC	0.657													18	4	---	---	---	---	PASS	T	34149721	T	T	34149721	2	4	5	1	0	0	0	0	0	0	0	1	5569	639	23	1		1	FAM47A	23	34149721	Silent	SNP	C	TCGA-18-3410-01A-01D-0983-08	14781501	34149721	121120839	308	4771										
SERPINA7	6906	broad.mit.edu	37	chrX	105280577	105280577	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tggagaagtcggtagaaaagActtcagtctcatagagggtc	13	6	2	4			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chrX:105280577A>T	uc004eme.1	-	1	489	c.473T>A	c.(472-474)GTC>GAC	p.V158D	SERPINA7_uc010npd.2_Missense_Mutation_p.V158D|SERPINA7_uc010npe.1_Missense_Mutation_p.V158D	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	158					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	GGTAGAAAAGACTTCAGTCTC	0.438													77	23	---	---	---	---	PASS	T	105280577	T	T	105280577	3	4	5	1	0	0	0	0	1	0	0	0	14094	275	10	5	790	5	SERPINA7	23	105280577	Missense_Mutation	SNP	A	TCGA-18-3410-01A-01D-0983-08	71130856	105280577	49989983	309	4772										
GUCY2F	2986	broad.mit.edu	37	chrX	108635314	108635314	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tcaactgtgcagccctttttGagagattcagcaactgatct	8	10	3	3			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chrX:108635314G>C	uc004eod.3	-	14	2883	c.2607C>G	c.(2605-2607)CTC>CTG	p.L869L	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	869	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						AGCCCTTTTTGAGAGATTCAG	0.463													10	22	---	---	---	---	PASS	C	108635314	C	C	108635314	2	2	5	1	0	0	0	0	0	0	0	1	6898	1277	45	2		2	GUCY2F	23	108635314	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	3354737	108635314	46635246	310	4773										
TRPC5	7224	broad.mit.edu	37	chrX	111025218	111025218	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cgtcagggtctcttttggggCagaaggtgttgttgaaccag	15	7	2	2			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chrX:111025218C>G	uc004epl.1	-	8	2964	c.2045G>C	c.(2044-2046)TGC>TCC	p.C682S	TRPC5_uc004epm.1_Missense_Mutation_p.C682S	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	682	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						TCTTTTGGGGCAGAAGGTGTT	0.403													56	22	---	---	---	---	PASS	G	111025218	G	G	111025218	3	3	5	1	0	0	0	0	1	0	0	0	16579	710	25	4	892	4	TRPC5	23	111025218	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	2389904	111025218	44245342	311	4774										
RBMX2	51634	broad.mit.edu	37	chrX	129545364	129545364	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	tggatcatgtgtctaactatCgggctcctaaggactcagaa	10	9	3	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chrX:129545364C>T	uc004evt.2	+	5	410	c.346C>T	c.(346-348)CGG>TGG	p.R116W		NM_016024	NP_057108	Q9Y388	RBMX2_HUMAN	RNA binding motif protein, X-linked 2	116							nucleotide binding|RNA binding			breast(3)|ovary(1)	4						GTCTAACTATCGGGCTCCTAA	0.488													11	45	---	---	---	---	PASS	T	129545364	T	T	129545364	3	4	5	1	0	0	0	0	1	0	0	0	13152	875	31	2	364	2	RBMX2	23	129545364	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	18520146	129545364	25725196	312	4775										
MAGEA10	4109	broad.mit.edu	37	chrX	151303874	151303874	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	gtctcatcatcagcagaaacCtcctctggggtgcttggtat	10	11	4	1			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chrX:151303874C>A	uc004ffk.2	-	5	627	c.219G>T	c.(217-219)GAG>GAT	p.E73D	MAGEA10_uc004ffl.2_Missense_Mutation_p.E73D	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	73											0	Acute lymphoblastic leukemia(192;6.56e-05)					CAGCAGAAACCTCCTCTGGGG	0.388													5	66	---	---	---	---	PASS	A	151303874	A	A	151303874	3	1	5	1	0	0	0	0	1	0	0	0	9164	680	24	3	894	3	MAGEA10	23	151303874	Missense_Mutation	SNP	C	TCGA-18-3410-01A-01D-0983-08	21758510	151303874	3966686	313	4776										
DNASE1L1	1774	broad.mit.edu	37	chrX	153631373	153631373	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.180645161290323	56	1.11596301590237e-12	2.77396280400572	3.69574547490203	1.76439130730976	0.000174102918678229	0.00440231665800665	36	cgctccccgtgcagcacgacGcggtcataggtgcagtgggt	15	13	1	0			TCGA-18-3410-01A-01D-0983-08	TCGA-18-3410-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e6382c3-368a-43a5-9812-c58f54ceba3f	8a207aee-58f5-439c-8445-f42e9f27023f	g.chrX:153631373G>A	uc004fks.1	-	7	875	c.684C>T	c.(682-684)CGC>CGT	p.R228R	RPL10_uc004fkq.1_Intron|RPL10_uc004fkr.1_Intron|DNASE1L1_uc004fkt.1_Silent_p.R228R|DNASE1L1_uc004fku.1_Silent_p.R228R|DNASE1L1_uc004fkv.1_Silent_p.R228R|DNASE1L1_uc004fkw.1_Silent_p.R228R	NM_006730	NP_006721	P49184	DNSL1_HUMAN	deoxyribonuclease I-like 1 precursor	228					DNA catabolic process	endoplasmic reticulum	DNA binding|endodeoxyribonuclease activity, producing 5'-phosphomonoesters				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GCAGCACGACGCGGTCATAGG	0.647													10	15	---	---	---	---	PASS	A	153631373	A	A	153631373	2	1	5	1	0	0	0	0	0	0	0	1	4661	1074	38	1		1	DNASE1L1	23	153631373	Silent	SNP	G	TCGA-18-3410-01A-01D-0983-08	2327499	153631373	1639187	314	4777										
CCDC27	148870	broad.mit.edu	37	chr1	3686367	3686367	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctcgagaggttaaggaataaGatcatccaggccacctttag	10	9	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:3686367G>A	uc001akv.2	+	11	1845	c.1764G>A	c.(1762-1764)AAG>AAA	p.K588K	LOC388588_uc001akw.3_5'Flank	NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	588										skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		TAAGGAATAAGATCATCCAGG	0.542													8	44	---	---	---	---	PASS	A	3686367	A	A	3686367	2	1	6	1	0	0	0	0	0	0	0	1	2801	933	33	2		2	CCDC27	1	3686367	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08		3686367	245564254	1	4778										
PRAMEF1	65121	broad.mit.edu	37	chr1	12854302	12854302	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agtgggtttaccaaaggagaGgtttagtacacctgtgctgt	13	6	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:12854302G>A	uc001auj.1	+	3	629	c.526G>A	c.(526-528)GGT>AGT	p.G176S		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	176											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCAAAGGAGAGGTTTAGTACA	0.408													33	161	---	---	---	---	PASS	A	12854302	A	A	12854302	3	1	6	1	0	0	0	0	1	0	0	0	12425	1000	35	3	532	3	PRAMEF1	1	12854302	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	9167935	12854302	236396319	2	4779										
EPHA2	1969	broad.mit.edu	37	chr1	16458597	16458597	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctcggggtcgtcctccagcaCgcgggacaggccaaagtcag	14	14	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:16458597C>T	uc001aya.1	-	13	2424	c.2287G>A	c.(2287-2289)GTG>ATG	p.V763M		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	763	Mediates interaction with ARHGEF16 and ELMO2.|Protein kinase.|Cytoplasmic (Potential).				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	TCCTCCAGCACGCGGGACAGG	0.612													9	39	---	---	---	---	PASS	T	16458597	T	T	16458597	3	4	6	1	0	0	0	0	1	0	0	0	5167	536	19	1	663	1	EPHA2	1	16458597	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	3604295	16458597	232792024	3	4780										
CELA3A	10136	broad.mit.edu	37	chr1	22336260	22336260	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggctggcaggtccacggtgtGaccagctttgtttctgcctt	13	11	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:22336260G>T	uc001bfl.2	+	7	724	c.705G>T	c.(703-705)GTG>GTT	p.V235V		NM_005747	NP_005738	P09093	CEL3A_HUMAN	elastase 3A, pancreatic preproprotein	235	Peptidase S1.				cholesterol metabolic process|digestion|proteolysis		serine-type endopeptidase activity			haematopoietic_and_lymphoid_tissue(1)	1						TCCACGGTGTGACCAGCTTTG	0.592													4	25	---	---	---	---	PASS	T	22336260	T	T	22336260	2	4	6	1	0	0	0	0	0	0	0	1	3213	1277	45	2		2	CELA3A	1	22336260	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	5877663	22336260	226914361	4	4781										
CLSPN	63967	broad.mit.edu	37	chr1	36204180	36204180	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	acaagtccatctgggaagcaTcatctaaacaaagagtgaag	9	8	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:36204180T>C	uc001bzi.2	-	21	3514	c.3434A>G	c.(3433-3435)GAT>GGT	p.D1145G	CLSPN_uc009vux.2_Missense_Mutation_p.D1081G	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	1145					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CTGGGAAGCATCATCTAAACA	0.433													11	34	---	---	---	---	PASS	C	36204180	C	C	36204180	3	2	6	1	0	0	0	0	1	0	0	0	3560	1435	50	5	605	5	CLSPN	1	36204180	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	13867920	36204180	213046441	5	4782										
MACF1	23499	broad.mit.edu	37	chr1	39799732	39799732	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgacagaggtcttttggagaGagaggaggccgttcgtttgt	16	5	1	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:39799732G>T	uc010oiu.1	+	1	2923	c.2792G>T	c.(2791-2793)AGA>ATA	p.R931I	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2496					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)			CTTTTGGAGAGAGAGGAGGCC	0.403													5	99	---	---	---	---	PASS	T	39799732	T	T	39799732	3	4	6	1	0	0	0	0	1	0	0	0	9144	942	33	2	7563	2	MACF1	1	39799732	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	3595552	39799732	209450889	6	4783										
DAB1	1600	broad.mit.edu	37	chr1	57602295	57602295	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtttgtgttctcctttggaaCgagcgccagcaacaacgccc	10	13	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:57602295C>T	uc001cys.1	-	6	901	c.227G>A	c.(226-228)CGT>CAT	p.R76H	DAB1_uc001cyt.1_Missense_Mutation_p.R76H|DAB1_uc001cyq.1_Missense_Mutation_p.R76H|DAB1_uc001cyr.1_Missense_Mutation_p.R76H|DAB1_uc009vzw.1_Missense_Mutation_p.R76H|DAB1_uc009vzx.1_Missense_Mutation_p.R76H	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	76	PID.				cell differentiation|nervous system development					skin(2)|ovary(1)	3						TCCTTTGGAACGAGCGCCAGC	0.403													5	20	---	---	---	---	PASS	T	57602295	T	T	57602295	3	4	6	1	0	0	0	0	1	0	0	0	4217	536	19	1	1484	1	DAB1	1	57602295	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	17802563	57602295	191648326	7	4784										
C1orf173	127254	broad.mit.edu	37	chr1	75037053	75037053	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccctctgacccttcctcttgCtcctgtcctagccctgaggt	7	18	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:75037053C>G	uc001dgg.2	-	14	4560	c.4341G>C	c.(4339-4341)GAG>GAC	p.E1447D		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1447	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTTCCTCTTGCTCCTGTCCTA	0.587													11	46	---	---	---	---	PASS	G	75037053	G	G	75037053	3	3	6	1	0	0	0	0	1	0	0	0	2014	796	28	4	255	4	C1orf173	1	75037053	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	17434758	75037053	174213568	8	4785										
AK5	26289	broad.mit.edu	37	chr1	77752691	77752691	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gaatacttggaaagttgtttAcaaaaagtaaaggaactggg	11	3	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:77752691A>C	uc001dhn.2	+	2	383	c.126A>C	c.(124-126)TTA>TTC	p.L42F	AK5_uc001dho.2_Missense_Mutation_p.L16F|AK5_uc001dhm.1_Missense_Mutation_p.L42F	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	42					ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						AAAGTTGTTTACAAAAAGTAA	0.378													9	57	---	---	---	---	PASS	C	77752691	C	C	77752691	3	2	6	1	0	0	0	0	1	0	0	0	443	388	14	5	132	5	AK5	1	77752691	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	2715638	77752691	171497930	9	4786										
MAGI3	260425	broad.mit.edu	37	chr1	114184866	114184866	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgcaagtgagcagagagtatCcatggcatcgtcaggcagct	13	9	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:114184866C>A	uc001edk.2	+	10	1875	c.1694C>A	c.(1693-1695)TCC>TAC	p.S565Y	MAGI3_uc001edh.3_Missense_Mutation_p.S590Y|MAGI3_uc001edi.3_Missense_Mutation_p.S565Y|MAGI3_uc010owm.1_Missense_Mutation_p.S590Y|MAGI3_uc001edj.2_Missense_Mutation_p.S286Y	NM_001142782	NP_001136254	Q5TCQ9	MAGI3_HUMAN	membrane-associated guanylate kinase-related  3	590					apoptosis|interspecies interaction between organisms|intracellular signal transduction	nucleus|tight junction	ATP binding|guanylate kinase activity|protein binding			lung(3)|ovary(2)|central_nervous_system(1)	6	Lung SC(450;0.184)	all_cancers(81;2.34e-09)|all_epithelial(167;7.41e-09)|all_lung(203;7.13e-06)|Lung NSC(69;1.2e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CAGAGAGTATCCATGGCATCG	0.502													19	99	---	---	---	---	PASS	A	114184866	A	A	114184866	3	1	6	1	0	0	0	0	1	0	0	0	9192	855	30	2	1732	2	MAGI3	1	114184866	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	36432175	114184866	135065755	10	4787										
BCL2L15	440603	broad.mit.edu	37	chr1	114424399	114424399	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gccccaacaaacttacccaaCctccctggccctggatgaac	6	18	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:114424399C>T	uc001edw.2	-	3	642	c.470G>A	c.(469-471)GGT>GAT	p.G157D	uc001edv.1_Intron|BCL2L15_uc001edx.2_Intron|BCL2L15_uc001edy.2_Intron|BCL2L15_uc001edz.1_RNA	NM_001010922	NP_001010922	Q5TBC7	B2L15_HUMAN	pro-apoptotic Bcl-2 protein	157					apoptosis					ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.95e-08)|all_epithelial(167;9.95e-08)|all_lung(203;1.31e-05)|Lung NSC(69;2.46e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACTTACCCAACCTCCCTGGCC	0.483													13	19	---	---	---	---	PASS	T	114424399	T	T	114424399	3	4	6	1	0	0	0	0	1	0	0	0	1373	507	18	3	29	3	BCL2L15	1	114424399	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	239533	114424399	134826222	11	4788										
CD101	9398	broad.mit.edu	37	chr1	117559924	117559924	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cctatggggtacccagttacCatggcaacacaaggctggag	12	11	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:117559924C>A	uc010oxb.1	+	5	1499	c.1441C>A	c.(1441-1443)CAT>AAT	p.H481N	CD101_uc009whd.2_Missense_Mutation_p.H481N|CD101_uc010oxc.1_Missense_Mutation_p.H481N|CD101_uc010oxd.1_Missense_Mutation_p.H419N	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	481	Extracellular (Potential).|Ig-like C2-type 4.				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						ACCCAGTTACCATGGCAACAC	0.572													6	149	---	---	---	---	PASS	A	117559924	A	A	117559924	3	1	6	1	0	0	0	0	1	0	0	0	2962	594	21	3	1459	3	CD101	1	117559924	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	3135525	117559924	131690697	12	4789										
MAN1A2	10905	broad.mit.edu	37	chr1	118039520	118039520	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgtttgcactaggagcagatGgttccagagcagataaagct	12	7	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:118039520G>T	uc001ehd.1	+	10	2141	c.1420G>T	c.(1420-1422)GGT>TGT	p.G474C	MAN1A2_uc009whg.1_Missense_Mutation_p.G264C	NM_006699	NP_006690	O60476	MA1A2_HUMAN	mannosidase, alpha, class 1A, member 2	474	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity				0	Lung SC(450;0.225)	all_cancers(81;7.9e-06)|all_epithelial(167;7.39e-07)|all_lung(203;2.84e-06)|Lung NSC(69;1.99e-05)		Lung(183;0.0688)|Kidney(133;0.114)|LUSC - Lung squamous cell carcinoma(189;0.223)|KIRC - Kidney renal clear cell carcinoma(1967;0.237)|Colorectal(144;0.243)		AGGAGCAGATGGTTCCAGAGC	0.423													7	133	---	---	---	---	PASS	T	118039520	T	T	118039520	3	4	6	1	0	0	0	0	1	0	0	0	9211	1348	47	3	1458	3	MAN1A2	1	118039520	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	479596	118039520	131211101	13	4790										
HMGCS2	3158	broad.mit.edu	37	chr1	120293471	120293471	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggcgatgctgctcgtccactCgctccaggtaccaagtacct	10	15	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:120293471C>G	uc001eid.2	-	9	1532	c.1481G>C	c.(1480-1482)CGA>CCA	p.R494P	HMGCS2_uc010oxj.1_Missense_Mutation_p.R452P|HMGCS2_uc001eie.2_Missense_Mutation_p.R402P	NM_005518	NP_005509	P54868	HMCS2_HUMAN	hydroxymethylglutaryl-CoA synthase 2 isoform 1	494					acetoacetic acid biosynthetic process|cholesterol biosynthetic process|isoprenoid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA synthase activity			ovary(2)	2	all_cancers(5;6.38e-10)|all_epithelial(5;1.1e-10)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;1.29e-06)|Lung NSC(69;9.35e-06)|all_epithelial(167;0.00124)		Lung(183;0.0112)|LUSC - Lung squamous cell carcinoma(189;0.0595)		CTCGTCCACTCGCTCCAGGTA	0.512													3	44	---	---	---	---	PASS	G	120293471	G	G	120293471	3	3	6	1	0	0	0	0	1	0	0	0	7233	884	31	2	49	2	HMGCS2	1	120293471	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2253951	120293471	128957150	14	4791										
PDE4DIP	9659	broad.mit.edu	37	chr1	144912276	144912276	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tctttccattaaggcttgcaCcaacttctctgcagcagcct	6	14	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:144912276C>G	uc001elw.3	-	15	2290	c.1999G>C	c.(1999-2001)GTG>CTG	p.V667L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.V733L|PDE4DIP_uc001emc.1_Missense_Mutation_p.V667L|PDE4DIP_uc001emd.1_Missense_Mutation_p.V667L|PDE4DIP_uc001emb.1_Missense_Mutation_p.V830L|PDE4DIP_uc001eme.1_Missense_Mutation_p.V196L|PDE4DIP_uc001emf.1_Missense_Mutation_p.V452L	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	667	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding	p.V667L(1)		ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		AAGGCTTGCACCAACTTCTCT	0.383			T	PDGFRB	MPD								4	59	---	---	---	---	PASS	G	144912276	G	G	144912276	3	3	6	1	0	0	0	0	1	0	0	0	11643	507	18	4	5171	4	PDE4DIP	1	144912276	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	24618805	144912276	104338345	15	4792										
HRNR	388697	broad.mit.edu	37	chr1	152187842	152187842	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cactgctggaagaccgaccgGagccagacccatgtcggcca	12	15	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:152187842G>C	uc001ezt.1	-	3	6339	c.6263C>G	c.(6262-6264)TCC>TGC	p.S2088C		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2088	23.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGACCGACCGGAGCCAGACCC	0.617													31	90	---	---	---	---	PASS	C	152187842	C	C	152187842	3	2	6	1	0	0	0	0	1	0	0	0	7359	1174	41	2	2293	2	HRNR	1	152187842	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	7275566	152187842	97062779	16	4793										
FLG	2312	broad.mit.edu	37	chr1	152281741	152281741	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agtgcctggagccgtctcctGattgtttctcattacgtgtt	10	10	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:152281741G>A	uc001ezu.1	-	3	5657	c.5621C>T	c.(5620-5622)TCA>TTA	p.S1874L		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1874	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCCGTCTCCTGATTGTTTCTC	0.572									Ichthyosis				106	240	---	---	---	---	PASS	A	152281741	A	A	152281741	3	1	6	1	0	0	0	0	1	0	0	0	5922	1294	45	2	6568	2	FLG	1	152281741	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	93899	152281741	96968880	17	4794										
LCE1E	353135	broad.mit.edu	37	chr1	152759781	152759781	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtacctactgccgagatgtcCtgccagcagagccagcagca	11	14	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:152759781C>G	uc001fan.2	+	2	59	c.6C>G	c.(4-6)TCC>TCG	p.S2S		NM_178353	NP_848130	Q5T753	LCE1E_HUMAN	late cornified envelope 1E	2					keratinization						0	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCGAGATGTCCTGCCAGCAGA	0.488													18	168	---	---	---	---	PASS	G	152759781	G	G	152759781	2	3	6	1	0	0	0	0	0	0	0	1	8663	668	24	4		4	LCE1E	1	152759781	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	478040	152759781	96490840	18	4795										
NUP210L	91181	broad.mit.edu	37	chr1	154098875	154098875	+	Missense_Mutation	SNP	C	A	A													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cttttactatatggtaagatCcattcacggtagttagttgc							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:154098875C>A	uc001fdw.2	-	10	1322	c.1250G>T	c.(1249-1251)GGA>GTA	p.G417V	NUP210L_uc009woq.2_5'UTR|NUP210L_uc010peh.1_Missense_Mutation_p.G417V	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	417						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			ATGGTAAGATCCATTCACGGT	0.398													17	56	---	---	---	---	PASS	A	154098875	A	A	154098875	3	1	6	1	0	0	0	0	1	0	0	0	10761	855	30	2	4540	2	NUP210L	1	154098875	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	1339094	154098875	95151746	19	4796	204	2								
NUP210L	91181	broad.mit.edu	37	chr1	154098876	154098876	+	Nonsense_Mutation	SNP	C	A	A													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttttactatatggtaagatcCattcacggtagttagttgct							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:154098876C>A	uc001fdw.2	-	10	1321	c.1249G>T	c.(1249-1251)GGA>TGA	p.G417*	NUP210L_uc009woq.2_5'UTR|NUP210L_uc010peh.1_Nonsense_Mutation_p.G417*	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	417						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TGGTAAGATCCATTCACGGTA	0.398													17	57	---	---	---	---	PASS	A	154098876	A	A	154098876	4	1	6	1	0	0	0	0	0	1	0	0	10761	603	21	3	4541	3	NUP210L	1	154098876	Nonsense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	1	154098876	95151745	20	4797	204	2								
FLAD1	80308	broad.mit.edu	37	chr1	154962919	154962919	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgtccttatgggcacccgccGgactgacccctactcctgta	9	16	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:154962919G>A	uc001fgf.1	+	5	1823	c.1469G>A	c.(1468-1470)CGG>CAG	p.R490Q	FLAD1_uc001fgd.1_3'UTR|FLAD1_uc001fge.1_Missense_Mutation_p.R393Q|FLAD1_uc001fgg.1_Missense_Mutation_p.R393Q|FLAD1_uc001fgh.1_Intron	NM_025207	NP_079483	Q8NFF5	FAD1_HUMAN	flavin adenine dinucleotide synthetase isoform	490	FAD synthase.				FAD biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|FMN adenylyltransferase activity			ovary(2)|skin(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			GGCACCCGCCGGACTGACCCC	0.622													4	24	---	---	---	---	PASS	A	154962919	A	A	154962919	3	1	6	1	0	0	0	0	1	0	0	0	5920	1116	39	1	1627	1	FLAD1	1	154962919	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	864043	154962919	94287702	21	4798										
ARHGEF2	9181	broad.mit.edu	37	chr1	155921325	155921325	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	accaatcgctgtaacgcctcCtgaggacagacagggtggga	13	11	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:155921325C>A	uc001fmt.2	-	19	2327	c.2209_splice	c.e19-1	p.E737_splice	ARHGEF2_uc001fmq.2_5'Flank|ARHGEF2_uc001fmr.2_Splice_Site_p.E709_splice|ARHGEF2_uc001fms.2_Splice_Site_p.E736_splice|ARHGEF2_uc001fmu.2_Splice_Site_p.E781_splice	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2						actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					GTAACGCCTCCTGAGGACAGA	0.557													6	100	---	---	---	---	PASS	A	155921325	A	A	155921325	5	1	6	1	0	0	0	0	0	0	1	0	903	695	24	3	768	3	ARHGEF2	1	155921325	Splice_Site	SNP	C	TCGA-18-3411-01A-01D-0983-08	958406	155921325	93329296	22	4799										
IQGAP3	128239	broad.mit.edu	37	chr1	156507028	156507028	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gaacttatcagtcatggcgaGgaggttgcgtagggcgatgt	16	6	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:156507028G>A	uc001fpf.2	-	27	3442	c.3367C>T	c.(3367-3369)CTC>TTC	p.L1123F		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1123	Ras-GAP.				small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTCATGGCGAGGAGGTTGCGT	0.552													43	32	---	---	---	---	PASS	A	156507028	A	A	156507028	3	1	6	1	0	0	0	0	1	0	0	0	7816	1000	35	3	1576	3	IQGAP3	1	156507028	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	585703	156507028	92743593	23	4800										
CD1D	912	broad.mit.edu	37	chr1	158151308	158151308	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cttcgccaatagcagctggaCgcgcaccgacggcttggcgt	13	14	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:158151308C>A	uc001frr.2	+	3	624	c.125C>A	c.(124-126)ACG>AAG	p.T42K	CD1D_uc009wsr.1_Missense_Mutation_p.T42K|CD1D_uc009wss.2_Missense_Mutation_p.T42K|CD1D_uc009wst.1_5'UTR	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	42	Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					AGCAGCTGGACGCGCACCGAC	0.632													95	84	---	---	---	---	PASS	A	158151308	A	A	158151308	3	1	6	1	0	0	0	0	1	0	0	0	2977	536	19	1	131	1	CD1D	1	158151308	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	1644280	158151308	91099313	24	4801										
SPTA1	6708	broad.mit.edu	37	chr1	158609467	158609467	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctgatctttcatggccagcaAtgtctctgcctggaaataga	9	10	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:158609467A>G	uc001fst.1	-	35	5084	c.4885T>C	c.(4885-4887)TTG>CTG	p.L1629L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1629	Spectrin 16.				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)					ATGGCCAGCAATGTCTCTGCC	0.468													27	62	---	---	---	---	PASS	G	158609467	G	G	158609467	2	3	6	1	0	0	0	0	0	0	0	1	15115	98	4	5		5	SPTA1	1	158609467	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	458159	158609467	90641154	25	4802										
RGS5	8490	broad.mit.edu	37	chr1	163138133	163138133	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tggcttctggaggagaattcCcaacttgatcttaatctcct	8	10	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:163138133C>A	uc001gcn.2	-	2	317	c.70G>T	c.(70-72)GGA>TGA	p.G24*	RGS5_uc009wvb.2_Intron	NM_003617	NP_003608	O15539	RGS5_HUMAN	regulator of G-protein signalling 5	24					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity				0			LUSC - Lung squamous cell carcinoma(543;0.187)			AGGAGAATTCCCAACTTGATC	0.448													6	132	---	---	---	---	PASS	A	163138133	A	A	163138133	4	1	6	1	0	0	0	0	0	1	0	0	13308	632	22	3	491	3	RGS5	1	163138133	Nonsense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	4528666	163138133	86112488	26	4803										
FMO4	2329	broad.mit.edu	37	chr1	171303694	171303694	+	Silent	SNP	G	C	C													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gaagaaaacattgatgttgtGatcttcactacaggatatac							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:171303694G>C	uc001gho.2	+	8	1189	c.972G>C	c.(970-972)GTG>GTC	p.V324V		NM_002022	NP_002013	P31512	FMO4_HUMAN	flavin containing monooxygenase 4	324					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			kidney(2)|skin(1)	3	all_cancers(6;3.9e-08)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					TTGATGTTGTGATCTTCACTA	0.373													8	98	---	---	---	---	PASS	C	171303694	C	C	171303694	2	2	6	1	0	0	0	0	0	0	0	1	5957	1277	45	2		2	FMO4	1	171303694	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	8165561	171303694	77946927	27	4804	205	2								
FMO4	2329	broad.mit.edu	37	chr1	171303698	171303698	+	Missense_Mutation	SNP	T	G	G													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aaaacattgatgttgtgatcTtcactacaggatatacattt							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:171303698T>G	uc001gho.2	+	8	1193	c.976T>G	c.(976-978)TTC>GTC	p.F326V		NM_002022	NP_002013	P31512	FMO4_HUMAN	flavin containing monooxygenase 4	326					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			kidney(2)|skin(1)	3	all_cancers(6;3.9e-08)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					TGTTGTGATCTTCACTACAGG	0.363													7	96	---	---	---	---	PASS	G	171303698	G	G	171303698	3	3	6	1	0	0	0	0	1	0	0	0	5957	1609	56	5	998	5	FMO4	1	171303698	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	4	171303698	77946923	28	4805	205	2								
RFWD2	64326	broad.mit.edu	37	chr1	176012899	176012899	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atcccataaaataacagtgcCttcataatcactgctagcta	4	11	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:176012899C>A	uc001gku.1	-	13	1733	c.1477G>T	c.(1477-1479)GGC>TGC	p.G493C	RFWD2_uc001gkv.1_Missense_Mutation_p.G469C|RFWD2_uc001gkw.1_Missense_Mutation_p.G253C|RFWD2_uc009wwv.2_Missense_Mutation_p.G292C|RFWD2_uc001gkt.1_Missense_Mutation_p.G332C	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	493	WD 2.				DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						ATAACAGTGCCTTCATAATCA	0.328													7	192	---	---	---	---	PASS	A	176012899	A	A	176012899	3	1	6	1	0	0	0	0	1	0	0	0	13260	681	24	3	750	3	RFWD2	1	176012899	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	4709201	176012899	73237722	29	4806										
RASAL2	9462	broad.mit.edu	37	chr1	178425846	178425846	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tccaattagggtgaaaattcCttcctacaggcgaccgtggc	10	11	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:178425846C>A	uc001glr.2	+	11	1904	c.1779C>A	c.(1777-1779)TCC>TCA	p.S593S	RASAL2_uc001glq.2_Intron|RASAL2_uc009wxc.2_Silent_p.S107S	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	593					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						GTGAAAATTCCTTCCTACAGG	0.468													9	336	---	---	---	---	PASS	A	178425846	A	A	178425846	2	1	6	1	0	0	0	0	0	0	0	1	13064	668	24	3		3	RASAL2	1	178425846	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	2412947	178425846	70824775	30	4807										
IVNS1ABP	10625	broad.mit.edu	37	chr1	185270621	185270621	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgcttagggctttgtactgtAgcatttggagaagagagaca	13	5	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:185270621A>C	uc001grl.2	-	9	1463	c.840T>G	c.(838-840)GCT>GCG	p.A280A	IVNS1ABP_uc001gri.2_5'UTR|IVNS1ABP_uc001grj.2_5'UTR|IVNS1ABP_uc009wyj.2_Silent_p.A62A|IVNS1ABP_uc009wyk.2_RNA|IVNS1ABP_uc001grm.2_5'UTR	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	280	Sufficient for AHR interaction and signaling.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						TTTGTACTGTAGCATTTGGAG	0.398													37	69	---	---	---	---	PASS	C	185270621	C	C	185270621	2	2	6	1	0	0	0	0	0	0	0	1	7930	407	15	5		5	IVNS1ABP	1	185270621	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	6844775	185270621	63980000	31	4808										
FAM5C	339479	broad.mit.edu	37	chr1	190195245	190195245	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtcactgttgtaagctttccAggtttcagttattcgaagaa	9	7	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:190195245A>T	uc001gse.1	-	6	1160	c.928T>A	c.(928-930)TGG>AGG	p.W310R	FAM5C_uc010pot.1_Missense_Mutation_p.W208R	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	310						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TAAGCTTTCCAGGTTTCAGTT	0.368													22	18	---	---	---	---	PASS	T	190195245	T	T	190195245	3	4	6	1	0	0	0	0	1	0	0	0	5594	188	7	5	1384	5	FAM5C	1	190195245	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	4924624	190195245	59055376	32	4809										
CHIT1	1118	broad.mit.edu	37	chr1	203191413	203191413	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cgtgaccttctcccaagagcCatggaagtcgtaggccataa	10	12	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:203191413C>A	uc001gzn.2	-	7	742	c.646G>T	c.(646-648)GGC>TGC	p.G216C	FMOD_uc010pqi.1_Intron|CHIT1_uc001gzm.1_RNA|CHIT1_uc009xal.1_Missense_Mutation_p.G7C|CHIT1_uc009xam.1_RNA|CHIT1_uc009xan.1_RNA|CHIT1_uc001gzo.2_Missense_Mutation_p.G207C	NM_003465	NP_003456	Q13231	CHIT1_HUMAN	chitotriosidase precursor	216					chitin catabolic process|immune response|response to bacterium	extracellular space|lysosome	cation binding|chitin binding|endochitinase activity				0						TCCCAAGAGCCATGGAAGTCG	0.562													13	25	---	---	---	---	PASS	A	203191413	A	A	203191413	3	1	6	1	0	0	0	0	1	0	0	0	3346	594	21	3	774	3	CHIT1	1	203191413	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	12996168	203191413	46059208	33	4810										
LAX1	54900	broad.mit.edu	37	chr1	203740494	203740494	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atctctctcattgccttgcaGgacaagttccttacctccga	6	14	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:203740494G>T	uc001haa.2	+	3	610	c.200_splice	c.e3-1	p.R67_splice	LAX1_uc010pql.1_Splice_Site_p.R51_splice|LAX1_uc001hab.2_Splice_Site	NM_017773	NP_060243	Q8IWV1	LAX1_HUMAN	lymphocyte transmembrane adaptor 1 isoform a						B cell activation|immune response|inactivation of MAPK activity|intracellular signal transduction|negative regulation of T cell activation	Golgi apparatus|integral to membrane|plasma membrane	protein kinase binding|SH2 domain binding			central_nervous_system(2)	2	all_cancers(21;0.0915)		BRCA - Breast invasive adenocarcinoma(75;0.109)			TTGCCTTGCAGGACAAGTTCC	0.507													7	284	---	---	---	---	PASS	T	203740494	T	T	203740494	5	4	6	1	0	0	0	0	0	0	1	0	8648	1014	35	3	254	3	LAX1	1	203740494	Splice_Site	SNP	G	TCGA-18-3411-01A-01D-0983-08	549081	203740494	45510127	34	4811										
USH2A	7399	broad.mit.edu	37	chr1	216262403	216262403	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gccaaaagcctgatgcctaaTagcaattatttcatgccatt	6	10	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:216262403T>C	uc001hku.1	-	23	5224	c.4837A>G	c.(4837-4839)ATT>GTT	p.I1613V		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1613	Laminin G-like 1.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGATGCCTAATAGCAATTATT	0.368										HNSCC(13;0.011)			9	104	---	---	---	---	PASS	C	216262403	C	C	216262403	3	2	6	1	0	0	0	0	1	0	0	0	17033	1406	49	5	10971	5	USH2A	1	216262403	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	12521909	216262403	32988218	35	4812										
EPRS	2058	broad.mit.edu	37	chr1	220179558	220179558	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tggaataggaagagcatgtgTagtctctgcaagccaagtga	13	6	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:220179558T>C	uc001hly.1	-	15	2110	c.1840A>G	c.(1840-1842)ACA>GCA	p.T614A	EPRS_uc010puf.1_Missense_Mutation_p.T365A|EPRS_uc001hlz.1_Missense_Mutation_p.T621A|EPRS_uc009xdt.1_Intron	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	614	Glutamyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	AGAGCATGTGTAGTCTCTGCA	0.388													23	69	---	---	---	---	PASS	C	220179558	C	C	220179558	3	2	6	1	0	0	0	0	1	0	0	0	5191	1638	57	5	2770	5	EPRS	1	220179558	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	3917155	220179558	29071063	36	4813										
MIA3	375056	broad.mit.edu	37	chr1	222835412	222835412	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctcaaggatcagtggacgggCctctacctcatcctcgatgg	11	13	4	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:222835412C>A	uc001hnl.2	+	25	5137	c.5128C>A	c.(5128-5130)CCT>ACT	p.P1710T	MIA3_uc001hnm.2_Missense_Mutation_p.P588T	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	1710	Pro-rich.|Cytoplasmic (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		AGTGGACGGGCCTCTACCTCA	0.433													11	59	---	---	---	---	PASS	A	222835412	A	A	222835412	3	1	6	1	0	0	0	0	1	0	0	0	9565	739	26	3	5226	3	MIA3	1	222835412	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2655854	222835412	26415209	37	4814										
SUSD4	55061	broad.mit.edu	37	chr1	223396739	223396739	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agctcagaagagcctgagacGctgtcacaggtttctgactc	11	11	3	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:223396739G>T	uc001hnx.2	-	7	1930	c.1296C>A	c.(1294-1296)AGC>AGA	p.S432R	SUSD4_uc001hny.3_Missense_Mutation_p.S432R|SUSD4_uc010puw.1_Missense_Mutation_p.S272R	NM_017982	NP_060452	Q5VX71	SUSD4_HUMAN	sushi domain containing 4 isoform a	432	Cytoplasmic (Potential).					integral to membrane					0				GBM - Glioblastoma multiforme(131;0.0611)		AGCCTGAGACGCTGTCACAGG	0.617													22	15	---	---	---	---	PASS	T	223396739	T	T	223396739	3	4	6	1	0	0	0	0	1	0	0	0	15407	1078	38	1	184	1	SUSD4	1	223396739	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	561327	223396739	25853882	38	4815										
RYR2	6262	broad.mit.edu	37	chr1	237991683	237991683	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtttttatttaacaccaggtCtaattattgatgcttttgga	7	5	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:237991683C>T	uc001hyl.1	+	102	14713	c.14593C>T	c.(14593-14595)CTA>TTA	p.L4865L	RYR2_uc010pyb.1_Silent_p.L298L	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4865	Helical; Name=M10; (Potential).				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)			AACACCAGGTCTAATTATTGA	0.388													5	14	---	---	---	---	PASS	T	237991683	T	T	237991683	2	4	6	1	0	0	0	0	0	0	0	1	13769	912	32	2		2	RYR2	1	237991683	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	14594944	237991683	11258938	39	4816										
RGS7	6000	broad.mit.edu	37	chr1	241031891	241031891	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgcgacgcttgcttaccacgGgcctgtgcacgtcccagaac	11	15	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:241031891G>C	uc001hyv.2	-	9	935	c.605C>G	c.(604-606)CCC>CGC	p.P202R	RGS7_uc010pyh.1_Missense_Mutation_p.P176R|RGS7_uc010pyj.1_Missense_Mutation_p.P118R|RGS7_uc001hyu.2_Missense_Mutation_p.P202R|RGS7_uc009xgn.1_Missense_Mutation_p.P149R|RGS7_uc001hyw.2_Missense_Mutation_p.P202R|RGS7_uc001hyt.2_Missense_Mutation_p.P34R	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	202					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			GCTTACCACGGGCCTGTGCAC	0.507													9	135	---	---	---	---	PASS	C	241031891	C	C	241031891	3	2	6	1	0	0	0	0	1	0	0	0	13310	1232	43	4	898	4	RGS7	1	241031891	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	3040208	241031891	8218730	40	4817										
CNST	163882	broad.mit.edu	37	chr1	246784903	246784903	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cgaggtgaagttgagcagttGgattcaagagcacttcccct	12	9	1	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:246784903G>T	uc001ibp.2	+	3	930	c.552G>T	c.(550-552)TTG>TTT	p.L184F	CNST_uc001ibo.3_Missense_Mutation_p.L184F	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	184					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						TTGAGCAGTTGGATTCAAGAG	0.453													8	303	---	---	---	---	PASS	T	246784903	T	T	246784903	3	4	6	1	0	0	0	0	1	0	0	0	3634	1339	47	3	558	3	CNST	1	246784903	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	5753012	246784903	2465718	41	4818										
NLRP3	114548	broad.mit.edu	37	chr1	247607428	247607428	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gactcttgcaccccgactgcAagcttcaggtgttggagtaa	11	11	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:247607428A>T	uc001icr.2	+	9	2962	c.2824A>T	c.(2824-2826)AAG>TAG	p.K942*	NLRP3_uc001ics.2_Nonsense_Mutation_p.K885*|NLRP3_uc001icu.2_Nonsense_Mutation_p.K942*|NLRP3_uc001icw.2_Nonsense_Mutation_p.K885*|NLRP3_uc001icv.2_Nonsense_Mutation_p.K828*|NLRP3_uc010pyw.1_Nonsense_Mutation_p.K920*	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	942	LRR 8.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding	p.K942N(1)		lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			CCCCGACTGCAAGCTTCAGGT	0.507													37	59	---	---	---	---	PASS	T	247607428	T	T	247607428	4	4	6	1	0	0	0	0	0	1	0	0	10478	131	5	5	2850	5	NLRP3	1	247607428	Nonsense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	822525	247607428	1643193	42	4819										
OR2T4	127074	broad.mit.edu	37	chr1	248525863	248525863	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atctatagtcttaggaataaGgatgtcatgggggctctgaa	12	5	4	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr1:248525863G>T	uc001ieh.1	+	1	981	c.981G>T	c.(979-981)AAG>AAT	p.K327N		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	327	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTAGGAATAAGGATGTCATGG	0.428													77	92	---	---	---	---	PASS	T	248525863	T	T	248525863	3	4	6	1	0	0	0	0	1	0	0	0	11027	991	35	3	983	3	OR2T4	1	248525863	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	918435	248525863	724758	43	4820										
SNTG2	54221	broad.mit.edu	37	chr2	1263159	1263159	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	caggtgagcacattcgattgGgtgcgagcagaaaggaccta	14	8	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:1263159G>T	uc002qwq.2	+	13	1151	c.1023G>T	c.(1021-1023)TGG>TGT	p.W341C	SNTG2_uc010ewi.2_Missense_Mutation_p.W214C	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	341	PH.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		CATTCGATTGGGTGCGAGCAG	0.393													5	72	---	---	---	---	PASS	T	1263159	T	T	1263159	3	4	6	1	0	0	0	0	1	0	0	0	14875	1241	43	3	1073	3	SNTG2	2	1263159	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08		1263159	241936214	44	4821										
TTC15	51112	broad.mit.edu	37	chr2	3392340	3392340	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cctggcttcccggcgaggctAcgcgtggagtcctgcgggcc	16	15	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:3392340A>G	uc002qxm.1	+	2	1152	c.946A>G	c.(946-948)ACG>GCG	p.T316A	TTC15_uc002qxn.1_Missense_Mutation_p.T316A|TTC15_uc010ewm.1_Missense_Mutation_p.T316A|TTC15_uc002qxl.1_Missense_Mutation_p.T316A	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15	316							binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		CGGCGAGGCTACGCGTGGAGT	0.662													3	4	---	---	---	---	PASS	G	3392340	G	G	3392340	3	3	6	1	0	0	0	0	1	0	0	0	16679	391	14	5	948	5	TTC15	2	3392340	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	2129181	3392340	239807033	45	4822										
NBAS	51594	broad.mit.edu	37	chr2	15378795	15378795	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctttctagtcatctctttacGggcttccacagacagcttaa	6	12	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:15378795G>A	uc002rcc.1	-	45	5766	c.5740C>T	c.(5740-5742)CGT>TGT	p.R1914C	NBAS_uc002rcb.1_5'UTR|NBAS_uc010exl.1_Missense_Mutation_p.R986C|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1914										ovary(2)|liver(1)|skin(1)	4						ATCTCTTTACGGGCTTCCACA	0.368													7	28	---	---	---	---	PASS	A	15378795	A	A	15378795	3	1	6	1	0	0	0	0	1	0	0	0	10186	1116	39	1	1407	1	NBAS	2	15378795	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	11986455	15378795	227820578	46	4823										
SMC6	79677	broad.mit.edu	37	chr2	17896303	17896303	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agattcaatagccaaagcaaGttctgggtcccgaagatgaa	10	8	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:17896303G>A	uc002rco.2	-	16	1851	c.1555C>T	c.(1555-1557)CTT>TTT	p.L519F	SMC6_uc010exo.2_Missense_Mutation_p.L519F|SMC6_uc002rcn.2_Missense_Mutation_p.L519F|SMC6_uc002rcp.1_Missense_Mutation_p.L545F|SMC6_uc002rcq.2_Missense_Mutation_p.L545F	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	519	Flexible hinge.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GCCAAAGCAAGTTCTGGGTCC	0.393													67	55	---	---	---	---	PASS	A	17896303	A	A	17896303	3	1	6	1	0	0	0	0	1	0	0	0	14787	1029	36	3	1772	3	SMC6	2	17896303	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	2517508	17896303	225303070	47	4824										
APOB	338	broad.mit.edu	37	chr2	21227276	21227276	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tggtagcgcagatggagatcGgtgaacgctgggcttttgat	16	6	0	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:21227276G>A	uc002red.2	-	28	12080	c.11952C>T	c.(11950-11952)ACC>ACT	p.T3984T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3984					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GATGGAGATCGGTGAACGCTG	0.512													10	62	---	---	---	---	PASS	A	21227276	A	A	21227276	2	1	6	1	0	0	0	0	0	0	0	1	785	1103	39	1		1	APOB	2	21227276	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	3330973	21227276	221972097	48	4825										
RAB10	10890	broad.mit.edu	37	chr2	26257592	26257592	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atgccttcaatactacctttAtttccaccataggtaagacc	4	12	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:26257592A>T	uc002rgv.2	+	1	864	c.115A>T	c.(115-117)ATT>TTT	p.I39F		NM_016131	NP_057215	P61026	RAB10_HUMAN	ras-related GTP-binding protein RAB10	39	Effector region (By similarity).				protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TACTACCTTTATTTCCACCAT	0.493													18	97	---	---	---	---	PASS	T	26257592	T	T	26257592	3	4	6	1	0	0	0	0	1	0	0	0	12890	449	16	5	117	5	RAB10	2	26257592	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	5030316	26257592	216941781	49	4826										
SLC30A3	7781	broad.mit.edu	37	chr2	27481650	27481650	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccccagccatgaagacaaagCaaacggcacaggcagcatat	9	13	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:27481650C>A	uc002rjk.2	-	2	434	c.248G>T	c.(247-249)TGC>TTC	p.C83F	SLC30A3_uc002rjj.2_5'Flank|SLC30A3_uc010ylh.1_Missense_Mutation_p.C78F	NM_003459	NP_003450	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter),	83	Helical; (Potential).				regulation of sequestering of zinc ion	cell junction|integral to plasma membrane|late endosome|membrane fraction|synaptic vesicle membrane	zinc transporting ATPase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAAGACAAAGCAAACGGCACA	0.612													32	33	---	---	---	---	PASS	A	27481650	A	A	27481650	3	1	6	1	0	0	0	0	1	0	0	0	14556	710	25	3	946	3	SLC30A3	2	27481650	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	1224058	27481650	215717723	50	4827										
FAM179A	165186	broad.mit.edu	37	chr2	29259412	29259412	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctgtttcttcaataggtcttTgatgctttcaccccaaggct	7	11	4	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:29259412T>C	uc010ezl.2	+	18	2775	c.2424T>C	c.(2422-2424)TTT>TTC	p.F808F	FAM179A_uc010ymm.1_Silent_p.F753F|FAM179A_uc002rmr.3_Silent_p.F335F|FAM179A_uc002rms.1_Silent_p.F106F	NM_199280	NP_954974	Q6ZUX3	F179A_HUMAN	hypothetical protein LOC165186	808							binding			ovary(3)|skin(1)	4						AATAGGTCTTTGATGCTTTCA	0.552													30	21	---	---	---	---	PASS	C	29259412	C	C	29259412	2	2	6	1	0	0	0	0	0	0	0	1	5505	1809	63	5		5	FAM179A	2	29259412	Silent	SNP	T	TCGA-18-3411-01A-01D-0983-08	1777762	29259412	213939961	51	4828										
C2orf71	388939	broad.mit.edu	37	chr2	29296932	29296932	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tttagctgtggtttggttccTcctgggacttggctgctcct	12	10	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:29296932T>G	uc002rmt.1	-	1	196	c.196A>C	c.(196-198)AGG>CGG	p.R66R		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	66					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						GTTTGGTTCCTCCTGGGACTT	0.527													18	32	---	---	---	---	PASS	G	29296932	G	G	29296932	2	3	6	1	0	0	0	0	0	0	0	1	2191	1550	54	5		5	C2orf71	2	29296932	Silent	SNP	T	TCGA-18-3411-01A-01D-0983-08	37520	29296932	213902441	52	4829										
TTC7A	57217	broad.mit.edu	37	chr2	47273469	47273469	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cacagcctgatgttcaccaaGgtgaagctggagcaggtgct	13	10	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:47273469G>T	uc002rvo.2	+	16	2186	c.1818G>T	c.(1816-1818)AAG>AAT	p.K606N	TTC7A_uc002rvm.2_Missense_Mutation_p.K572N|TTC7A_uc002rvn.1_Intron|TTC7A_uc010fbb.2_Missense_Mutation_p.K606N|TTC7A_uc010fbc.2_Missense_Mutation_p.K252N|TTC7A_uc002rvp.2_Missense_Mutation_p.K487N|TTC7A_uc002rvq.2_Missense_Mutation_p.K346N|TTC7A_uc002rvr.2_Missense_Mutation_p.K55N	NM_020458	NP_065191	Q9ULT0	TTC7A_HUMAN	tetratricopeptide repeat domain 7A	606							binding			breast(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)			TGTTCACCAAGGTGAAGCTGG	0.632													4	27	---	---	---	---	PASS	T	47273469	T	T	47273469	3	4	6	1	0	0	0	0	1	0	0	0	16709	991	35	3	1880	3	TTC7A	2	47273469	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	17976537	47273469	195925904	53	4830										
PSME4	23198	broad.mit.edu	37	chr2	54175569	54175569	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aatacttacttaggaaaccaAtttaatcctaggtgctctgt	6	8	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:54175569A>G	uc002rxp.2	-	3	545	c.489T>C	c.(487-489)AAT>AAC	p.N163N	PSME4_uc010yop.1_Silent_p.N49N|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_5'UTR|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	163					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|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|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TAGGAAACCAATTTAATCCTA	0.358													13	84	---	---	---	---	PASS	G	54175569	G	G	54175569	2	3	6	1	0	0	0	0	0	0	0	1	12709	98	4	5		5	PSME4	2	54175569	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	6902100	54175569	189023804	54	4831										
SPTBN1	6711	broad.mit.edu	37	chr2	54882236	54882236	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atctgttgaactcttaatgaAtaatcatcaaggcatcaaag	6	7	5	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:54882236A>G	uc002rxu.2	+	28	6101	c.5852A>G	c.(5851-5853)AAT>AGT	p.N1951S	SPTBN1_uc002rxx.2_Missense_Mutation_p.N1938S|SPTBN1_uc002rxy.2_Missense_Mutation_p.N96S|SPTBN1_uc010you.1_5'Flank	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1951	Spectrin 16.|Interaction with ANK2.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			CTCTTAATGAATAATCATCAA	0.373													16	15	---	---	---	---	PASS	G	54882236	G	G	54882236	3	3	6	1	0	0	0	0	1	0	0	0	15118	101	4	5	6071	5	SPTBN1	2	54882236	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	706667	54882236	188317137	55	4832										
AHSA2	130872	broad.mit.edu	37	chr2	61413610	61413610	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aagaagatcatcatgaaatgGagatgtgggaactggccaga	13	5	2	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:61413610G>T	uc002sbc.1	+	5	1808	c.222G>T	c.(220-222)TGG>TGT	p.W74C	AHSA2_uc002sbb.1_RNA	NM_152392	NP_689605	Q719I0	AHSA2_HUMAN	AHA1, activator of heat shock 90kDa protein	236					response to stress	cytoplasm	ATPase activator activity|chaperone binding			breast(1)	1			Epithelial(17;0.0994)			TCATGAAATGGAGATGTGGGA	0.358													5	66	---	---	---	---	PASS	T	61413610	T	T	61413610	3	4	6	1	0	0	0	0	1	0	0	0	419	1183	41	2	232	2	AHSA2	2	61413610	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	6531374	61413610	181785763	56	4833										
GMCL1	64395	broad.mit.edu	37	chr2	70082087	70082087	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgaacaagatgctgtagtacCttcaggtaagagaacataat	9	6	1	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:70082087C>A	uc002sfu.2	+	9	1274	c.1067C>A	c.(1066-1068)CCT>CAT	p.P356H		NM_178439	NP_848526	Q96IK5	GMCL1_HUMAN	germ cell-less	356					cell differentiation|multicellular organismal development|spermatogenesis	nuclear matrix				ovary(3)	3						GCTGTAGTACCTTCAGGTAAG	0.279													6	63	---	---	---	---	PASS	A	70082087	A	A	70082087	3	1	6	1	0	0	0	0	1	0	0	0	6485	681	24	3	1101	3	GMCL1	2	70082087	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	8668477	70082087	173117286	57	4834										
CTNNA2	1496	broad.mit.edu	37	chr2	80136767	80136767	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttcagcgaggccaggttccgGccgtccctggaggagaggct	16	12	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:80136767G>A	uc010ysh.1	+	6	905	c.900G>A	c.(898-900)CGG>CGA	p.R300R	CTNNA2_uc010yse.1_Silent_p.R300R|CTNNA2_uc010ysf.1_Silent_p.R300R|CTNNA2_uc010ysg.1_Silent_p.R300R	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	300					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						CCAGGTTCCGGCCGTCCCTGG	0.597													6	39	---	---	---	---	PASS	A	80136767	A	A	80136767	2	1	6	1	0	0	0	0	0	0	0	1	4013	1190	42	3		3	CTNNA2	2	80136767	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	10054680	80136767	163062606	58	4835										
KDM3A	55818	broad.mit.edu	37	chr2	86683959	86683959	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gaaaattgttgatccgtcacTgattcatgttgaagttgtac	9	6	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:86683959T>A	uc002sri.3	+	7	1040	c.713T>A	c.(712-714)CTG>CAG	p.L238Q	KDM3A_uc010ytj.1_Missense_Mutation_p.L238Q|KDM3A_uc010ytk.1_Missense_Mutation_p.L186Q	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	238					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						GATCCGTCACTGATTCATGTT	0.343													17	16	---	---	---	---	PASS	A	86683959	A	A	86683959	3	1	6	1	0	0	0	0	1	0	0	0	8126	1580	55	5	735	5	KDM3A	2	86683959	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	6547192	86683959	156515414	59	4836										
RPIA	22934	broad.mit.edu	37	chr2	89028822	89028822	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cagctcatcctgcagtatggCttgaccctcagtgatctgga	10	12	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:89028822C>A	uc002ste.2	+	4	470	c.429C>A	c.(427-429)GGC>GGA	p.G143G		NM_144563	NP_653164	P49247	RPIA_HUMAN	ribose 5-phosphate isomerase A	143					pentose-phosphate shunt, non-oxidative branch	cytosol	ribose-5-phosphate isomerase activity	p.G143D(1)		ovary(1)	1		Acute lymphoblastic leukemia(2;0.000456)|all_hematologic(2;0.00287)				TGCAGTATGGCTTGACCCTCA	0.498													4	23	---	---	---	---	PASS	A	89028822	A	A	89028822	2	1	6	1	0	0	0	0	0	0	0	1	13553	784	28	3		3	RPIA	2	89028822	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	2344863	89028822	154170551	60	4837										
ADRA2B	151	broad.mit.edu	37	chr2	96781011	96781011	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cctcttcagcttcatcctctGgagatgccccacaaacaccc	5	18	4	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:96781011G>A	uc002svi.2	-	1	878	c.878C>T	c.(877-879)CCA>CTA	p.P293L		NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor	293	Cytoplasmic (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	TTCATCCTCTGGAGATGCCCC	0.557													4	8	---	---	---	---	PASS	A	96781011	A	A	96781011	3	1	6	1	0	0	0	0	1	0	0	0	338	1348	47	3	469	3	ADRA2B	2	96781011	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	7752189	96781011	146418362	61	4838										
SNRNP200	23020	broad.mit.edu	37	chr2	96952549	96952549	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cttgaggagaaaatactcatGgtgcagaatcacctcgctgt	10	9	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:96952549G>T	uc002svu.2	-	28	3792	c.3706C>A	c.(3706-3708)CAT>AAT	p.H1236N	SNRNP200_uc002svt.2_5'Flank|SNRNP200_uc010yuj.1_5'Flank|SNRNP200_uc002svv.1_5'Flank|SNRNP200_uc002svw.1_Missense_Mutation_p.H308N	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1236	SEC63 1.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						AAATACTCATGGTGCAGAATC	0.522													5	81	---	---	---	---	PASS	T	96952549	T	T	96952549	3	4	6	1	0	0	0	0	1	0	0	0	14852	1348	47	3	2776	3	SNRNP200	2	96952549	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	171538	96952549	146246824	62	4839										
CNNM3	26505	broad.mit.edu	37	chr2	97492658	97492658	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttgttcaaggtgtctgatgaTgaatataaagtaacaatctc	8	5	3	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:97492658T>G	uc002swy.2	+	3	1482	c.1458T>G	c.(1456-1458)GAT>GAG	p.D486E	CNNM3_uc002swz.2_Missense_Mutation_p.D438E	NM_017623	NP_060093	Q8NE01	CNNM3_HUMAN	cyclin M3 isoform 1	486					ion transport	integral to membrane|plasma membrane	protein binding			ovary(1)	1						TGTCTGATGATGAATATAAAG	0.562													9	58	---	---	---	---	PASS	G	97492658	G	G	97492658	3	3	6	1	0	0	0	0	1	0	0	0	3614	1461	51	5	1468	5	CNNM3	2	97492658	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	540109	97492658	145706715	63	4840										
CHST10	9486	broad.mit.edu	37	chr2	101010038	101010038	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggtctagccatctgtggttcGgatcgccgaggtagcgcacg	15	11	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:101010038G>A	uc002tam.2	-	7	1099	c.740C>T	c.(739-741)CCG>CTG	p.P247L		NM_004854	NP_004845	O43529	CHSTA_HUMAN	HNK-1 sulfotransferase	247	Lumenal (Potential).				carbohydrate biosynthetic process|cell adhesion	Golgi membrane|integral to membrane|membrane fraction				ovary(1)	1						TCTGTGGTTCGGATCGCCGAG	0.512													19	137	---	---	---	---	PASS	A	101010038	A	A	101010038	3	1	6	1	0	0	0	0	1	0	0	0	3398	1116	39	1	334	1	CHST10	2	101010038	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	3517380	101010038	142189335	64	4841										
LIMS1	3987	broad.mit.edu	37	chr2	109300362	109300362	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aataagtttgtggagtttgaCatgaagccagtctgtaagaa	11	4	1	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:109300362C>G	uc002teg.2	+	10	1004	c.885C>G	c.(883-885)GAC>GAG	p.D295E	LIMS1_uc002tef.2_Missense_Mutation_p.D307E|LIMS1_uc002teh.2_Missense_Mutation_p.D295E|LIMS1_uc002tei.2_Missense_Mutation_p.D295E|LIMS1_uc002tej.2_Missense_Mutation_p.D332E|LIMS1_uc002tek.3_Missense_Mutation_p.D357E|uc002tel.2_5'Flank	NM_004987	NP_004978	P48059	LIMS1_HUMAN	LIM and senescent cell antigen-like domains 1	295	LIM zinc-binding 5.				cell aging|cell junction assembly|cellular response to transforming growth factor beta stimulus|negative regulation of transcription, DNA-dependent	cytosol|focal adhesion|perinuclear region of cytoplasm	protein binding|zinc ion binding				0						TGGAGTTTGACATGAAGCCAG	0.313													7	34	---	---	---	---	PASS	G	109300362	G	G	109300362	3	3	6	1	0	0	0	0	1	0	0	0	8803	477	17	4	919	4	LIMS1	2	109300362	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	8290324	109300362	133899011	65	4842										
TUBA3E	112714	broad.mit.edu	37	chr2	130953819	130953819	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttgaaggagtcgtccccgccAccaatggttttatcacttgg	10	11	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:130953819A>G	uc002tqv.2	-	2	230	c.129T>C	c.(127-129)GGT>GGC	p.G43G		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	43					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					CGTCCCCGCCACCAATGGTTT	0.562													13	72	---	---	---	---	PASS	G	130953819	G	G	130953819	2	3	6	1	0	0	0	0	0	0	0	1	16745	146	6	5		5	TUBA3E	2	130953819	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	21653457	130953819	112245554	66	4843										
LRP1B	53353	broad.mit.edu	37	chr2	141771263	141771263	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agtccagaacacataatttcCatgatgcgacagtccgaaag	8	10	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:141771263C>A	uc002tvj.1	-	14	3214	c.2242G>T	c.(2242-2244)GGA>TGA	p.G748*	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	748	Extracellular (Potential).|LDL-receptor class B 8.				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)		ACATAATTTCCATGATGCGAC	0.383										TSP Lung(27;0.18)			5	61	---	---	---	---	PASS	A	141771263	A	A	141771263	4	1	6	1	0	0	0	0	0	1	0	0	8955	603	21	3	11869	3	LRP1B	2	141771263	Nonsense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	10817444	141771263	101428110	67	4844										
UPP2	151531	broad.mit.edu	37	chr2	158974404	158974404	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aaattactccaccatgcacgGtgctgcgatgtcaccattat	7	12	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:158974404G>C	uc002tzp.2	+	4	602	c.408G>C	c.(406-408)CGG>CGC	p.R136R	UPP2_uc002tzo.2_Silent_p.R193R	NM_173355	NP_775491	O95045	UPP2_HUMAN	uridine phosphorylase 2 isoform a	136					nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage|uridine metabolic process	cytosol|type III intermediate filament	uridine phosphorylase activity				0						ACCATGCACGGTGCTGCGATG	0.428													15	105	---	---	---	---	PASS	C	158974404	C	C	158974404	2	2	6	1	0	0	0	0	0	0	0	1	17010	1248	44	4		4	UPP2	2	158974404	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	17203141	158974404	84224969	68	4845										
FAP	2191	broad.mit.edu	37	chr2	163082006	163082006	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tacataccatggttctattaCtcaaaatggtatatgattgt	6	6	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:163082006C>A	uc002ucd.2	-	4	480	c.272G>T	c.(271-273)AGT>ATT	p.S91I	FAP_uc010zct.1_Missense_Mutation_p.S91I|FAP_uc010fpd.2_Intron|FAP_uc010fpe.1_Missense_Mutation_p.S58I	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	91	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						GGTTCTATTACTCAAAATGGT	0.343													8	37	---	---	---	---	PASS	A	163082006	A	A	163082006	3	1	6	1	0	0	0	0	1	0	0	0	5673	565	20	3	2102	3	FAP	2	163082006	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	4107602	163082006	80117367	69	4846										
GCA	25801	broad.mit.edu	37	chr2	163212953	163212953	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gaatatgttttacagccttcAgtttggaaacctgcagaatt	8	7	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:163212953A>T	uc002ucg.2	+	4	444	c.268A>T	c.(268-270)AGT>TGT	p.S90C	GCA_uc010zcu.1_Missense_Mutation_p.S71C	NM_012198	NP_036330	P28676	GRAN_HUMAN	grancalcin, EF-hand calcium binding protein	90	EF-hand 2.				cellular membrane fusion	cytoplasm|plasma membrane	calcium ion binding|protein homodimerization activity				0						TACAGCCTTCAGTTTGGAAAC	0.284													36	14	---	---	---	---	PASS	T	163212953	T	T	163212953	3	4	6	1	0	0	0	0	1	0	0	0	6283	188	7	5	282	5	GCA	2	163212953	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	130947	163212953	79986420	70	4847										
SCN1A	6323	broad.mit.edu	37	chr2	166892733	166892733	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cactgctgccagttcctataCcacttgtagttccatttaca	5	13	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:166892733C>A	uc010zcz.1	-	16	3239	c.3221G>T	c.(3220-3222)GGT>GTT	p.G1074V	SCN1A_uc002udo.3_Missense_Mutation_p.G954V|SCN1A_uc010fpk.2_Missense_Mutation_p.G926V	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1085						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AGTTCCTATACCACTTGTAGT	0.353													36	16	---	---	---	---	PASS	A	166892733	A	A	166892733	3	1	6	1	0	0	0	0	1	0	0	0	13914	507	18	3	2819	3	SCN1A	2	166892733	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	3679780	166892733	76306640	71	4848										
NFE2L2	4780	broad.mit.edu	37	chr2	178098945	178098945	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	actgaagtcaaatacttctcGacttactccaagatctatat	4	10	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:178098945G>C	uc002ulh.3	-	2	655	c.100C>G	c.(100-102)CGA>GGA	p.R34G	NFE2L2_uc002ulg.3_Missense_Mutation_p.R18G|NFE2L2_uc010zfa.1_Missense_Mutation_p.R18G|NFE2L2_uc002uli.3_Missense_Mutation_p.R18G|NFE2L2_uc010fra.2_Missense_Mutation_p.R18G|NFE2L2_uc010frb.2_Missense_Mutation_p.R18G	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	34					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			AATACTTCTCGACTTACTCCA	0.368			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			23	15	---	---	---	---	PASS	C	178098945	C	C	178098945	3	2	6	1	0	0	0	0	1	0	0	0	10368	1066	37	2	1733	2	NFE2L2	2	178098945	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	11206212	178098945	65100428	72	4849										
TTN	7273	broad.mit.edu	37	chr2	179592919	179592919	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	taatttgcagtatcttctaaTtccagattattaacttccag	4	8	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:179592919T>G	uc010zfg.1	-	64	16124	c.15900A>C	c.(15898-15900)GAA>GAC	p.E5300D	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E1961D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6227							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)			TATCTTCTAATTCCAGATTAT	0.378													11	29	---	---	---	---	PASS	G	179592919	G	G	179592919	3	3	6	1	0	0	0	0	1	0	0	0	16732	1490	52	5	85081	5	TTN	2	179592919	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	1493974	179592919	63606454	73	4850										
TTN	7273	broad.mit.edu	37	chr2	179610662	179610662	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gaccaattcttccattaaacTgcttaaagtcactttgcttt	4	10	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:179610662T>G	uc002unb.2	-	46	16689	c.16465A>C	c.(16465-16467)AGT>CGT	p.S5489R	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TCCATTAAACTGCTTAAAGTC	0.403													30	69	---	---	---	---	PASS	G	179610662	G	G	179610662	3	3	6	1	0	0	0	0	1	0	0	0	16732	1580	55	5	93832	5	TTN	2	179610662	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	17743	179610662	63588711	74	4851										
ZC3H15	55854	broad.mit.edu	37	chr2	187368929	187368929	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gaaatttcattagaagatctAattgagagagaggtaactgg	11	3	2	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:187368929A>G	uc002upo.2	+	6	930	c.705A>G	c.(703-705)CTA>CTG	p.L235L		NM_018471	NP_060941	Q8WU90	ZC3HF_HUMAN	erythropoietin 4 immediate early response	235	Potential.					cytoplasm|nucleolus|plasma membrane	nucleic acid binding|zinc ion binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Epithelial(96;0.0922)|all cancers(119;0.233)			TAGAAGATCTAATTGAGAGAG	0.333													35	24	---	---	---	---	PASS	G	187368929	G	G	187368929	2	3	6	1	0	0	0	0	0	0	0	1	17564	349	13	5		5	ZC3H15	2	187368929	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	7758267	187368929	55830444	75	4852										
HSPD1	3329	broad.mit.edu	37	chr2	198358104	198358104	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	acatcttcagcgattatgacCaaaggcttacggtgagcatt	9	9	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:198358104C>A	uc002uui.2	-	7	950	c.813G>T	c.(811-813)TTG>TTT	p.L271F	HSPD1_uc002uuj.2_Missense_Mutation_p.L269F|HSPD1_uc010zgx.1_Missense_Mutation_p.L262F|HSPD1_uc010fsm.2_Missense_Mutation_p.L82F|HSPD1_uc002uuk.2_Missense_Mutation_p.L271F	NM_002156	NP_002147	P10809	CH60_HUMAN	chaperonin	271					'de novo' protein folding|activation of caspase activity|B cell cytokine production|B cell proliferation|chaperone-mediated protein complex assembly|interspecies interaction between organisms|isotype switching to IgG isotypes|MyD88-dependent toll-like receptor signaling pathway|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of interferon-alpha production|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of macrophage activation|positive regulation of T cell activation|positive regulation of T cell mediated immune response to tumor cell|protein maturation|protein refolding|protein stabilization|response to unfolded protein|T cell activation	cell surface|coated pit|coated vesicle|cytosol|early endosome|extracellular space|lipopolysaccharide receptor complex|mitochondrial inner membrane|mitochondrial matrix|stored secretory granule	ATP binding|ATPase activity|cell surface binding|chaperone binding|DNA replication origin binding|lipopolysaccharide binding|p53 binding|single-stranded DNA binding				0			Epithelial(96;0.225)			CGATTATGACCAAAGGCTTAC	0.388													5	96	---	---	---	---	PASS	A	198358104	A	A	198358104	3	1	6	1	0	0	0	0	1	0	0	0	7428	593	21	3	932	3	HSPD1	2	198358104	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	10989175	198358104	44841269	76	4853										
NDUFS1	4719	broad.mit.edu	37	chr2	207011634	207011634	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aaataaaagataccttgtttCccaaggccgggcagtaaagg	10	8	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:207011634C>T	uc002vbe.2	-	8	857	c.730G>A	c.(730-732)GAA>AAA	p.E244K	NDUFS1_uc010ziq.1_Missense_Mutation_p.E258K|NDUFS1_uc010zir.1_Missense_Mutation_p.E208K|NDUFS1_uc010zis.1_Missense_Mutation_p.E187K|NDUFS1_uc010zit.1_Missense_Mutation_p.E133K|NDUFS1_uc010ziu.1_Missense_Mutation_p.E128K	NM_005006	NP_004997	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1,	244					apoptosis|ATP metabolic process|mitochondrial electron transport, NADH to ubiquinone|reactive oxygen species metabolic process|regulation of mitochondrial membrane potential|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	TACCTTGTTTCCCAAGGCCGG	0.363													10	59	---	---	---	---	PASS	T	207011634	T	T	207011634	3	4	6	1	0	0	0	0	1	0	0	0	10291	864	30	2	1501	2	NDUFS1	2	207011634	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	8653530	207011634	36187739	77	4854										
CCDC108	255101	broad.mit.edu	37	chr2	219895545	219895545	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctttatgctcaccagcagctGggcgcacttggctggggcag	14	12	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:219895545G>A	uc002vjl.1	-	9	1111	c.1027C>T	c.(1027-1029)CAG>TAG	p.Q343*	CCDC108_uc010fwa.1_5'Flank|CCDC108_uc010zkp.1_Nonsense_Mutation_p.Q332*|CCDC108_uc010zkq.1_Nonsense_Mutation_p.Q278*	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	343						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACCAGCAGCTGGGCGCACTTG	0.637													14	20	---	---	---	---	PASS	A	219895545	A	A	219895545	4	1	6	1	0	0	0	0	0	1	0	0	2743	1357	47	3	4858	3	CCDC108	2	219895545	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	12883911	219895545	23303828	78	4855										
PAX3	5077	broad.mit.edu	37	chr2	223085966	223085966	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggaatagatgtgggctggtaAgaggtctccgacagctggta	16	6	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:223085966A>G	uc010fwo.2	-	6	1299	c.933T>C	c.(931-933)TCT>TCC	p.S311S	PAX3_uc002vmt.1_Silent_p.S311S|PAX3_uc002vmy.1_Silent_p.S310S|PAX3_uc002vmv.1_Silent_p.S311S|PAX3_uc002vmw.1_Silent_p.S311S|PAX3_uc002vmx.1_Silent_p.S311S	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	311					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)		TGGGCTGGTAAGAGGTCTCCG	0.507			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						59	144	---	---	---	---	PASS	G	223085966	G	G	223085966	2	3	6	1	0	0	0	0	0	0	0	1	11480	59	3	5		5	PAX3	2	223085966	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	3190421	223085966	20113407	79	4856										
DOCK10	55619	broad.mit.edu	37	chr2	225638050	225638050	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tattctcttcttcacgtaggGgaacaggtgactcgctgtac	10	10	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:225638050G>C	uc010fwz.1	-	53	6267	c.6028C>G	c.(6028-6030)CCC>GCC	p.P2010A	DOCK10_uc002vob.2_Missense_Mutation_p.P2004A|DOCK10_uc002voa.2_Missense_Mutation_p.P666A	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	2010	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		TTCACGTAGGGGAACAGGTGA	0.438													28	22	---	---	---	---	PASS	C	225638050	C	C	225638050	3	2	6	1	0	0	0	0	1	0	0	0	4685	1232	43	4	548	4	DOCK10	2	225638050	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	2552084	225638050	17561323	80	4857										
SPHKAP	80309	broad.mit.edu	37	chr2	228846483	228846483	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	actcagtctcccatccttctGctcctcatgcattttgcagt	5	15	4	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr2:228846483G>T	uc002vpq.2	-	12	5100	c.5053C>A	c.(5053-5055)CAG>AAG	p.Q1685K	SPHKAP_uc002vpp.2_Missense_Mutation_p.Q1656K|SPHKAP_uc010zlx.1_3'UTR	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1685						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CCATCCTTCTGCTCCTCATGC	0.448													15	27	---	---	---	---	PASS	T	228846483	T	T	228846483	3	4	6	1	0	0	0	0	1	0	0	0	15047	1328	46	3	53	3	SPHKAP	2	228846483	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	3208433	228846483	14352890	81	4858										
SYN2	6854	broad.mit.edu	37	chr3	12187261	12187261	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	acttccgccacctgatcattGgtatgcagtatgcaggcctc	9	13	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:12187261G>T	uc003bwm.2	+	8	774	c.610G>T	c.(610-612)GGT>TGT	p.G204C	SYN2_uc003bwl.1_Missense_Mutation_p.G204C	NM_133625	NP_598328	Q92777	SYN2_HUMAN	synapsin II isoform IIa	204					neurotransmitter secretion	synaptic vesicle	ATP binding|ligase activity			ovary(1)|central_nervous_system(1)	2						CCTGATCATTGGTATGCAGTA	0.557													6	62	---	---	---	---	PASS	T	12187261	T	T	12187261	3	4	6	1	0	0	0	0	1	0	0	0	15438	1348	47	3	625	3	SYN2	3	12187261	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08		12187261	185835169	82	4859										
AZI2	64343	broad.mit.edu	37	chr3	28379458	28379458	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttccacctctgtcctcagctGgaggagttctacttctttag	8	12	4	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:28379458G>T	uc003ceb.2	-	4	941	c.409C>A	c.(409-411)CAG>AAG	p.Q137K	AZI2_uc003cec.2_Missense_Mutation_p.Q25K|AZI2_uc003ced.2_Missense_Mutation_p.Q137K|AZI2_uc003cee.3_Missense_Mutation_p.Q137K|AZI2_uc003ceg.2_Missense_Mutation_p.Q137K|AZI2_uc011axd.1_Missense_Mutation_p.Q137K|AZI2_uc003cef.2_Missense_Mutation_p.Q137K	NM_022461	NP_071906	Q9H6S1	AZI2_HUMAN	5-azacytidine induced 2 isoform a	137	Potential.					mitochondrion|plasma membrane				ovary(2)	2						GTCCTCAGCTGGAGGAGTTCT	0.333													4	21	---	---	---	---	PASS	T	28379458	T	T	28379458	3	4	6	1	0	0	0	0	1	0	0	0	1241	1357	47	3	878	3	AZI2	3	28379458	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	16192197	28379458	169642972	83	4860										
OSBPL10	114884	broad.mit.edu	37	chr3	31725157	31725157	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atagagacccccacggacatGcccatgaacttgcttttggt	9	12	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:31725157G>C	uc003cev.2	-	9	2076	c.1695C>G	c.(1693-1695)GGC>GGG	p.G565G	OSBPL10_uc003ceu.1_Silent_p.G322G|OSBPL10_uc011axf.1_Silent_p.G501G	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	565					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		CCACGGACATGCCCATGAACT	0.488													44	12	---	---	---	---	PASS	C	31725157	C	C	31725157	2	2	6	1	0	0	0	0	0	0	0	1	11275	1306	46	4		4	OSBPL10	3	31725157	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	3345699	31725157	166297273	84	4861										
TRANK1	9881	broad.mit.edu	37	chr3	36872547	36872547	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aatggccgggtccaccttctCgtggaaaaattctgagtatt	10	9	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:36872547C>A	uc003cgj.2	-	12	7047	c.6745G>T	c.(6745-6747)GAG>TAG	p.E2249*		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2799					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TCCACCTTCTCGTGGAAAAAT	0.532													4	101	---	---	---	---	PASS	A	36872547	A	A	36872547	4	1	6	1	0	0	0	0	0	1	0	0	16451	893	31	2	394	2	TRANK1	3	36872547	Nonsense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	5147390	36872547	161149883	85	4862										
OXSR1	9943	broad.mit.edu	37	chr3	38263138	38263138	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	taaagtgagaaagacctttgTtggcaccccttgttggatgg	12	7	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:38263138T>C	uc003chy.2	+	6	902	c.560T>C	c.(559-561)GTT>GCT	p.V187A	OXSR1_uc010hhb.2_Missense_Mutation_p.V121A|OXSR1_uc010hha.1_Missense_Mutation_p.V119A	NM_005109	NP_005100	O95747	OXSR1_HUMAN	oxidative-stress responsive 1	187	Protein kinase.				intracellular protein kinase cascade|response to oxidative stress		ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		AAGACCTTTGTTGGCACCCCT	0.383													16	63	---	---	---	---	PASS	C	38263138	C	C	38263138	3	2	6	1	0	0	0	0	1	0	0	0	11336	1725	60	5	582	5	OXSR1	3	38263138	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	1390591	38263138	159759292	86	4863										
SCN11A	11280	broad.mit.edu	37	chr3	38888793	38888793	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gacaacaatgagaaaggagaTgataatgtaactgacaaagt	10	4	0	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:38888793T>C	uc011ays.1	-	26	4967	c.4768A>G	c.(4768-4770)ATC>GTC	p.I1590V		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1590	IV.|Helical; Name=S6 of repeat IV; (By similarity).				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	AGAAAGGAGATGATAATGTAA	0.433													11	36	---	---	---	---	PASS	C	38888793	C	C	38888793	3	2	6	1	0	0	0	0	1	0	0	0	13913	1464	51	5	611	5	SCN11A	3	38888793	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	625655	38888793	159133637	87	4864										
KBTBD8	84541	broad.mit.edu	37	chr3	67054263	67054263	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttctgaaatgatcatatgttTtgatgctgcccacaaacact	6	9	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:67054263T>G	uc003dmy.2	+	3	925	c.872T>G	c.(871-873)TTT>TGT	p.F291C	KBTBD8_uc011bfv.1_Intron	NM_032505	NP_115894	Q8NFY9	KBTB8_HUMAN	T-cell activation kelch repeat protein	291										ovary(2)|large_intestine(1)|breast(1)	4		Lung NSC(201;0.0765)		BRCA - Breast invasive adenocarcinoma(55;6.02e-06)|KIRC - Kidney renal clear cell carcinoma(39;0.105)|Kidney(39;0.125)		ATCATATGTTTTGATGCTGCC	0.443													17	54	---	---	---	---	PASS	G	67054263	G	G	67054263	3	3	6	1	0	0	0	0	1	0	0	0	7999	1841	64	5	882	5	KBTBD8	3	67054263	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	28165470	67054263	130968167	88	4865										
ROBO1	6091	broad.mit.edu	37	chr3	79174687	79174687	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccccctctctacatcttcagGgtctgtcggaaacaacacca	6	16	4	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:79174687G>T	uc003dqe.2	-	3	299	c.91C>A	c.(91-93)CCT>ACT	p.P31T		NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	31	Extracellular (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		ACATCTTCAGGGTCTGTCGGA	0.502													10	7	---	---	---	---	PASS	T	79174687	T	T	79174687	3	4	6	1	0	0	0	0	1	0	0	0	13513	1232	43	3	5052	3	ROBO1	3	79174687	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	12120424	79174687	118847743	89	4866										
ZNF654	55279	broad.mit.edu	37	chr3	88190171	88190171	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cacaaaagaaatgtcagacaCtctttggatttgattcagat	7	7	3	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:88190171C>G	uc003dqv.2	+	1	1910	c.1711C>G	c.(1711-1713)CTC>GTC	p.L571V	CGGBP1_uc003dqu.2_5'UTR	NM_018293	NP_060763	Q8IZM8	ZN654_HUMAN	zinc finger protein 654	571					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(201;0.0283)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		ATGTCAGACACTCTTTGGATT	0.348													8	26	---	---	---	---	PASS	G	88190171	G	G	88190171	3	3	6	1	0	0	0	0	1	0	0	0	18064	565	20	4	1713	4	ZNF654	3	88190171	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	9015484	88190171	109832259	90	4867										
KIAA1524	57650	broad.mit.edu	37	chr3	108300321	108300321	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	acaaagatttgccaataatcCtagacaaggcatttttaact	5	8	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:108300321C>A	uc003dxb.3	-	5	759	c.490G>T	c.(490-492)GGA>TGA	p.G164*	KIAA1524_uc003dxc.1_Nonsense_Mutation_p.G5*|KIAA1524_uc010hpw.1_Nonsense_Mutation_p.G5*	NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	164						cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						GCCAATAATCCTAGACAAGGC	0.289													16	23	---	---	---	---	PASS	A	108300321	A	A	108300321	4	1	6	1	0	0	0	0	0	1	0	0	8239	690	24	3	2295	3	KIAA1524	3	108300321	Nonsense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	20110150	108300321	89722109	91	4868										
POPDC2	64091	broad.mit.edu	37	chr3	119367422	119367422	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcccagcagagccgagaagaGgcaggagatgtatcgctctt	13	10	1	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:119367422G>A	uc003ecx.1	-	3	828	c.694C>T	c.(694-696)CTC>TTC	p.L232F	POPDC2_uc010hqw.1_Missense_Mutation_p.L232F|POPDC2_uc003ecy.1_Missense_Mutation_p.L50F	NM_022135	NP_071418	Q9HBU9	POPD2_HUMAN	popeye protein 2	232						integral to membrane				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.242)		GCCGAGAAGAGGCAGGAGATG	0.507													8	37	---	---	---	---	PASS	A	119367422	A	A	119367422	3	1	6	1	0	0	0	0	1	0	0	0	12255	1000	35	3	408	3	POPDC2	3	119367422	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	11067101	119367422	78655008	92	4869										
GOLGB1	2804	broad.mit.edu	37	chr3	121417220	121417220	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	taatttccttagctttctcaTctaaatttttctcatagatt	2	8	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:121417220T>C	uc003eei.3	-	13	2261	c.2135A>G	c.(2134-2136)GAT>GGT	p.D712G	GOLGB1_uc010hrc.2_Missense_Mutation_p.D717G|GOLGB1_uc003eej.3_Missense_Mutation_p.D678G|GOLGB1_uc011bjm.1_Missense_Mutation_p.D598G|GOLGB1_uc010hrd.1_Missense_Mutation_p.D676G	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	712	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		AGCTTTCTCATCTAAATTTTT	0.363													18	25	---	---	---	---	PASS	C	121417220	C	C	121417220	3	2	6	1	0	0	0	0	1	0	0	0	6565	1435	50	5	7684	5	GOLGB1	3	121417220	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	2049798	121417220	76605210	93	4870										
MYLK	4638	broad.mit.edu	37	chr3	123382998	123382998	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgcctgctgcccagcttgttCtccaccagcagtgtgtagca	10	14	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:123382998C>T	uc003ego.2	-	23	4221	c.3939G>A	c.(3937-3939)GAG>GAA	p.E1313E	MYLK_uc010hrr.2_5'UTR|MYLK_uc011bjv.1_Silent_p.E113E|MYLK_uc011bjw.1_Silent_p.E1313E|MYLK_uc003egp.2_Silent_p.E1244E|MYLK_uc003egq.2_Silent_p.E1313E|MYLK_uc003egr.2_Silent_p.E1244E|MYLK_uc003egs.2_Silent_p.E1137E	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1313	Actin-binding (calcium/calmodulin- insensitive) (By similarity).|Ig-like C2-type 8.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CCAGCTTGTTCTCCACCAGCA	0.632													12	60	---	---	---	---	PASS	T	123382998	T	T	123382998	2	4	6	1	0	0	0	0	0	0	0	1	10056	912	32	2		2	MYLK	3	123382998	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	1965778	123382998	74639432	94	4871										
EEFSEC	60678	broad.mit.edu	37	chr3	128060451	128060451	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccaaggatttgacaccagcaGtgacagacaatgatgaggcc	11	10	0	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:128060451G>A	uc003eki.2	+	5	1200	c.1162G>A	c.(1162-1164)GTG>ATG	p.V388M	EEFSEC_uc003ekj.2_Missense_Mutation_p.V333M	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,	388						cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						GACACCAGCAGTGACAGACAA	0.537													9	18	---	---	---	---	PASS	A	128060451	A	A	128060451	3	1	6	1	0	0	0	0	1	0	0	0	4931	1029	36	3	1180	3	EEFSEC	3	128060451	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	4677453	128060451	69961979	95	4872										
CLSTN2	64084	broad.mit.edu	37	chr3	140281693	140281693	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tatgagcaggtgctacatcaCatccgctaccgcaactggcg	10	13	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:140281693C>T	uc003etn.2	+	14	2443	c.2253C>T	c.(2251-2253)CAC>CAT	p.H751H		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	751	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						TGCTACATCACATCCGCTACC	0.552										HNSCC(16;0.037)			5	21	---	---	---	---	PASS	T	140281693	T	T	140281693	2	4	6	1	0	0	0	0	0	0	0	1	3562	477	17	3		3	CLSTN2	3	140281693	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	12221242	140281693	57740737	96	4873										
PAQR9	344838	broad.mit.edu	37	chr3	142681705	142681705	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccgtagtagctgatggacgcGtagtccaggtagaagaaggc	15	8	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:142681705G>A	uc003evg.2	-	1	474	c.474C>T	c.(472-474)TAC>TAT	p.Y158Y	PAQR9_uc003evf.1_5'Flank	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	158	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						TGATGGACGCGTAGTCCAGGT	0.612													6	14	---	---	---	---	PASS	A	142681705	A	A	142681705	2	1	6	1	0	0	0	0	0	0	0	1	11442	1140	40	1		1	PAQR9	3	142681705	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	2400012	142681705	55340725	97	4874										
CPA3	1359	broad.mit.edu	37	chr3	148614379	148614379	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cacatttgcctttgagctccGagataaaggcaaatttggtt	9	8	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:148614379G>T	uc003ewm.2	+	11	1191	c.1139G>T	c.(1138-1140)CGA>CTA	p.R380L		NM_001870	NP_001861	P15088	CBPA3_HUMAN	carboxypeptidase A3 precursor	380					proteolysis	stored secretory granule|transport vesicle	metallocarboxypeptidase activity|zinc ion binding			breast(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			TTTGAGCTCCGAGATAAAGGC	0.418													4	76	---	---	---	---	PASS	T	148614379	T	T	148614379	3	4	6	1	0	0	0	0	1	0	0	0	3791	1058	37	2	1181	2	CPA3	3	148614379	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	5932674	148614379	49408051	98	4875										
GFM1	85476	broad.mit.edu	37	chr3	158363992	158363992	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gttggtgctgtcatggattcCatggaactagagagacaaag	13	6	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:158363992C>A	uc003fce.2	+	3	380	c.273C>A	c.(271-273)TCC>TCA	p.S91S	GFM1_uc003fcd.2_Silent_p.S91S|GFM1_uc003fcf.2_RNA|GFM1_uc003fcg.2_Silent_p.S3S	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor	91					mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			TCATGGATTCCATGGAACTAG	0.413													5	76	---	---	---	---	PASS	A	158363992	A	A	158363992	2	1	6	1	0	0	0	0	0	0	0	1	6341	581	21	3		3	GFM1	3	158363992	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	9749613	158363992	39658438	99	4876										
SERPINI2	5276	broad.mit.edu	37	chr3	167184891	167184891	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tatcatctctgcacaagcctTtgcatcttgaaaatccacca	4	13	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:167184891T>C	uc003fer.1	-	2	488	c.430A>G	c.(430-432)AAG>GAG	p.K144E	SERPINI2_uc003fes.1_Missense_Mutation_p.K154E|SERPINI2_uc003fet.1_Missense_Mutation_p.K144E	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),	144					cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						GCACAAGCCTTTGCATCTTGA	0.358													9	46	---	---	---	---	PASS	C	167184891	C	C	167184891	3	2	6	1	0	0	0	0	1	0	0	0	14119	1850	64	5	815	5	SERPINI2	3	167184891	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	8820899	167184891	30837539	100	4877										
DCUN1D1	54165	broad.mit.edu	37	chr3	182679132	182679132	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atctgggcctttagtttttcTatgctgtcacatctgcgtcg	9	10	4	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:182679132T>C	uc003fld.1	-	4	451	c.402A>G	c.(400-402)ATA>ATG	p.I134M	DCUN1D1_uc011bqn.1_Translation_Start_Site	NM_020640	NP_065691	Q96GG9	DCNL1_HUMAN	RP42 homolog	134	DCUN1.			I -> T (in Ref. 2; AAL78673).		ubiquitin ligase complex	protein binding			ovary(1)	1	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;2.54e-44)|Epithelial(37;4.71e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			TTAGTTTTTCTATGCTGTCAC	0.308													105	350	---	---	---	---	PASS	C	182679132	C	C	182679132	3	2	6	1	0	0	0	0	1	0	0	0	4313	1512	53	5	393	5	DCUN1D1	3	182679132	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	15494241	182679132	15343298	101	4878										
EPHB3	2049	broad.mit.edu	37	chr3	184298901	184298901	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agattgtcaataccctggacAagctcatccgcaatgctgcc	8	13	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:184298901A>G	uc003foz.2	+	14	3117	c.2680A>G	c.(2680-2682)AAG>GAG	p.K894E		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	894	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			TACCCTGGACAAGCTCATCCG	0.592													43	117	---	---	---	---	PASS	G	184298901	G	G	184298901	3	3	6	1	0	0	0	0	1	0	0	0	5176	131	5	5	2734	5	EPHB3	3	184298901	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	1619769	184298901	13723529	102	4879										
VPS8	23355	broad.mit.edu	37	chr3	184612617	184612617	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggaatcacaccccaagtaatGaaagacttgattgttcattt	7	8	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:184612617G>T	uc003fpb.1	+	22	2073	c.1902G>T	c.(1900-1902)ATG>ATT	p.M634I	VPS8_uc010hyd.1_Intron|VPS8_uc010hye.1_Missense_Mutation_p.M63I	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	636							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			CCCAAGTAATGAAAGACTTGA	0.358													13	32	---	---	---	---	PASS	T	184612617	T	T	184612617	3	4	6	1	0	0	0	0	1	0	0	0	17215	1290	45	2	1990	2	VPS8	3	184612617	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	313716	184612617	13409813	103	4880										
ZDHHC19	131540	broad.mit.edu	37	chr3	195937539	195937539	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agtgaaacaagactgaagaaGgtaaggacaaagagggagcc	14	5	0	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr3:195937539G>T	uc003fwc.2	-	2	330	c.216C>A	c.(214-216)ACC>ACA	p.T72T	ZDHHC19_uc010hzz.2_RNA|ZDHHC19_uc010iaa.2_Intron|ZDHHC19_uc010iab.2_RNA	NM_001039617	NP_001034706	Q8WVZ1	ZDH19_HUMAN	zinc finger, DHHC domain containing 19	72	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			ovary(3)	3	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.89e-25)|all cancers(36;1.46e-23)|OV - Ovarian serous cystadenocarcinoma(49;2.1e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0022)		GACTGAAGAAGGTAAGGACAA	0.557													5	47	---	---	---	---	PASS	T	195937539	T	T	195937539	2	4	6	1	0	0	0	0	0	0	0	1	17606	987	35	3		3	ZDHHC19	3	195937539	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	11324922	195937539	2084891	104	4881										
SLC34A2	10568	broad.mit.edu	37	chr4	25677955	25677955	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gcctctcgctggccggctggCgggtgctggttggtgtcggg	20	11	1	0	rs115500754	by1000genomes	TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:25677955C>T	uc003grr.2	+	13	1738	c.1657C>T	c.(1657-1659)CGG>TGG	p.R553W	SLC34A2_uc003grs.2_Missense_Mutation_p.R552W|SLC34A2_uc010iev.2_Missense_Mutation_p.R552W	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	553	Helical; Name=M8; (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				GGCCGGCTGGCGGGTGCTGGT	0.597													13	38	---	---	---	---	PASS	T	25677955	T	T	25677955	3	4	6	1	0	0	0	0	1	0	0	0	14568	759	27	1	1703	1	SLC34A2	4	25677955	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08		25677955	165476321	105	4882										
ARAP2	116984	broad.mit.edu	37	chr4	36093640	36093640	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gatgcttcccagtgtactccGgtctgtaaagtacagcatta	9	10	1	0	rs143499964		TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:36093640G>A	uc003gsq.1	-	28	4626	c.4288C>T	c.(4288-4290)CGG>TGG	p.R1430W		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1430					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						AGTGTACTCCGGTCTGTAAAG	0.308													14	37	---	---	---	---	PASS	A	36093640	A	A	36093640	3	1	6	1	0	0	0	0	1	0	0	0	839	1115	39	1	850	1	ARAP2	4	36093640	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	10415685	36093640	155060636	106	4883										
WDR19	57728	broad.mit.edu	37	chr4	39241945	39241945	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tatgagaaaggaataacaggTgataataaggtaaccttgga	11	3	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:39241945T>C	uc003gtv.2	+	21	2566	c.2412T>C	c.(2410-2412)GGT>GGC	p.G804G	WDR19_uc011byi.1_Silent_p.G644G|WDR19_uc003gtw.1_Silent_p.G401G	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19	804	TPR 2.				cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1						GAATAACAGGTGATAATAAGG	0.249													5	2	---	---	---	---	PASS	C	39241945	C	C	39241945	2	2	6	1	0	0	0	0	0	0	0	1	17276	1683	59	5		5	WDR19	4	39241945	Silent	SNP	T	TCGA-18-3411-01A-01D-0983-08	3148305	39241945	151912331	107	4884										
PDS5A	23244	broad.mit.edu	37	chr4	39878748	39878748	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atgtctctgcagagtggaacGaggtaggatgtgtaaaagac	14	5	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:39878748G>T	uc003guv.3	-	19	2558	c.2018C>A	c.(2017-2019)TCG>TAG	p.S673*	PDS5A_uc010ifo.2_Nonsense_Mutation_p.S633*	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	673					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						AGAGTGGAACGAGGTAGGATG	0.373													5	191	---	---	---	---	PASS	T	39878748	T	T	39878748	4	4	6	1	0	0	0	0	0	1	0	0	11691	1059	37	2	2055	2	PDS5A	4	39878748	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	636803	39878748	151275528	108	4885										
RHOH	399	broad.mit.edu	37	chr4	40245213	40245213	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gacgccttcagaagcatccgGcccctgtcctaccagcaggc	10	17	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:40245213G>A	uc003guz.2	+	3	931	c.207G>A	c.(205-207)CGG>CGA	p.R69R		NM_004310	NP_004301	Q15669	RHOH_HUMAN	ras homolog gene family, member H precursor	69					negative regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|T cell differentiation	cytosol|mitochondrion|plasma membrane	GTP binding|GTPase inhibitor activity|kinase inhibitor activity|Rho GTPase binding			ovary(1)|lung(1)	2						GAAGCATCCGGCCCCTGTCCT	0.542													8	46	---	---	---	---	PASS	A	40245213	A	A	40245213	2	1	6	1	0	0	0	0	0	0	0	1	13340	1190	42	3		3	RHOH	4	40245213	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	366465	40245213	150909063	109	4886										
GRXCR1	389207	broad.mit.edu	37	chr4	42965024	42965024	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aaagattttccaaaaccatcGcgtaaaatttgaagagaaaa	6	6	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:42965024G>A	uc003gwt.2	+	2	500	c.500G>A	c.(499-501)CGC>CAC	p.R167H		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	167	Glutaredoxin.				cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						CAAAACCATCGCGTAAAATTT	0.428													68	233	---	---	---	---	PASS	A	42965024	A	A	42965024	3	1	6	1	0	0	0	0	1	0	0	0	6812	1087	38	1	506	1	GRXCR1	4	42965024	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	2719811	42965024	148189252	110	4887										
GABRA2	2555	broad.mit.edu	37	chr4	46307592	46307592	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	taattttactaacctgtactGgatttaattgtctcctttcc	4	9	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:46307592G>T	uc003gxc.3	-	6	1369	c.696C>A	c.(694-696)TCC>TCA	p.S232S	GABRA2_uc010igc.2_Silent_p.S232S|GABRA2_uc011bzc.1_Silent_p.S177S|GABRA2_uc003gxe.2_Silent_p.S232S	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	232	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	AACCTGTACTGGATTTAATTG	0.373													5	94	---	---	---	---	PASS	T	46307592	T	T	46307592	2	4	6	1	0	0	0	0	0	0	0	1	6161	1335	47	3		3	GABRA2	4	46307592	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	3342568	46307592	144846684	111	4888										
LPHN3	23284	broad.mit.edu	37	chr4	62542559	62542559	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttcagatgcaataacagaacCcagtgtgcagtggtggcagg	13	8	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:62542559C>A	uc010ihh.2	+	3	458	c.285C>A	c.(283-285)ACC>ACA	p.T95T	LPHN3_uc003hcq.3_Silent_p.T95T|LPHN3_uc010ihg.1_Silent_p.T163T	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	95	SUEL-type lectin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						ATAACAGAACCCAGTGTGCAG	0.373													54	105	---	---	---	---	PASS	A	62542559	A	A	62542559	2	1	6	1	0	0	0	0	0	0	0	1	8917	610	22	3		3	LPHN3	4	62542559	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	16234967	62542559	128611717	112	4889										
TMPRSS11B	132724	broad.mit.edu	37	chr4	69100335	69100335	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgcacatttgaaccattggcAttaggcctagaaacaacaga	8	9	0	3	rs138592272		TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:69100335A>T	uc003hdw.3	-	5	451	c.315T>A	c.(313-315)AAT>AAA	p.N105K		NM_182502	NP_872308	Q86T26	TM11B_HUMAN	transmembrane protease, serine 11B	105	SEA.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						AACCATTGGCATTAGGCCTAG	0.333													26	23	---	---	---	---	PASS	T	69100335	T	T	69100335	3	4	6	1	0	0	0	0	1	0	0	0	16237	214	8	5	959	5	TMPRSS11B	4	69100335	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	6557776	69100335	122053941	113	4890										
SDAD1	55153	broad.mit.edu	37	chr4	76911921	76911921	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccacctcctcgatgtaggccGgcgggtctcgcttgattaga	12	13	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:76911921G>C	uc003hje.3	-	1	193	c.74C>G	c.(73-75)CCG>CGG	p.P25R	SDAD1_uc003hjf.3_5'UTR|SDAD1_uc011cbr.1_Missense_Mutation_p.P25R	NM_018115	NP_060585	Q9NVU7	SDA1_HUMAN	SDA1 domain containing 1	25					protein transport|ribosomal large subunit biogenesis	nucleolus	protein binding			ovary(1)	1			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			GATGTAGGCCGGCGGGTCTCG	0.597													32	42	---	---	---	---	PASS	C	76911921	C	C	76911921	3	2	6	1	0	0	0	0	1	0	0	0	13950	1116	39	4	2077	4	SDAD1	4	76911921	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	7811586	76911921	114242355	114	4891										
SYNPO2	171024	broad.mit.edu	37	chr4	119952527	119952527	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gggaccatccaatgagcttcCaggaatgagtgggagaggag	16	7	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:119952527C>A	uc003icm.3	+	4	2793	c.2597C>A	c.(2596-2598)CCA>CAA	p.P866Q	SYNPO2_uc010ina.2_Missense_Mutation_p.P866Q|SYNPO2_uc010inb.2_Missense_Mutation_p.P866Q|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Missense_Mutation_p.P794Q	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	866						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						AATGAGCTTCCAGGAATGAGT	0.527													9	61	---	---	---	---	PASS	A	119952527	A	A	119952527	3	1	6	1	0	0	0	0	1	0	0	0	15454	594	21	3	2611	3	SYNPO2	4	119952527	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	43040606	119952527	71201749	115	4892										
KIAA1109	84162	broad.mit.edu	37	chr4	123260427	123260427	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgcatgttaaagctgccatcCctggatttggtgttttcttc	9	9	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:123260427C>A	uc003ieh.2	+	70	12261	c.12216C>A	c.(12214-12216)TCC>TCA	p.S4072S	KIAA1109_uc003iem.2_Silent_p.S428S|KIAA1109_uc003ien.2_Silent_p.S6S	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4072					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGCTGCCATCCCTGGATTTGG	0.423													5	50	---	---	---	---	PASS	A	123260427	A	A	123260427	2	1	6	1	0	0	0	0	0	0	0	1	8208	610	22	3		3	KIAA1109	4	123260427	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	3307900	123260427	67893849	116	4893										
LRBA	987	broad.mit.edu	37	chr4	151749635	151749635	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	caccaggaggtgctgtgtgaGgagttacttccacatggctt	13	9	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:151749635G>T	uc010ipj.2	-	30	5342	c.4868C>A	c.(4867-4869)CCT>CAT	p.P1623H	LRBA_uc003ilt.3_Missense_Mutation_p.P282H|LRBA_uc003ilu.3_Missense_Mutation_p.P1623H	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1623						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TGCTGTGTGAGGAGTTACTTC	0.483													6	142	---	---	---	---	PASS	T	151749635	T	T	151749635	3	4	6	1	0	0	0	0	1	0	0	0	8931	1000	35	3	3839	3	LRBA	4	151749635	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	28489208	151749635	39404641	117	4894										
NPY1R	4886	broad.mit.edu	37	chr4	164247530	164247530	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aagatgattatgatcaaggcCaggtttccagagacaccaag	10	8	1	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:164247530C>A	uc003iqm.1	-	2	443	c.177G>T	c.(175-177)CTG>CTT	p.L59L	NPY1R_uc011cjj.1_Intron	NM_000909	NP_000900	P25929	NPY1R_HUMAN	neuropeptide Y receptor Y1	59	Helical; Name=1; (Potential).				inhibition of adenylate cyclase activity by G-protein signaling pathway|outflow tract morphogenesis	integral to plasma membrane	protein binding			lung(1)|pancreas(1)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TGATCAAGGCCAGGTTTCCAG	0.408													45	34	---	---	---	---	PASS	A	164247530	A	A	164247530	2	1	6	1	0	0	0	0	0	0	0	1	10608	581	21	3		3	NPY1R	4	164247530	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	12497895	164247530	26906746	118	4895										
ADAM29	11086	broad.mit.edu	37	chr4	175897894	175897894	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgtgggaatggtgttgttgaAgaaggagaagagtgtgactg	18	1	0	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:175897894A>T	uc003iuc.2	+	5	1888	c.1218A>T	c.(1216-1218)GAA>GAT	p.E406D	ADAM29_uc003iud.2_Missense_Mutation_p.E406D|ADAM29_uc010irr.2_Missense_Mutation_p.E406D|ADAM29_uc011cki.1_Missense_Mutation_p.E406D	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	406	Disintegrin.|Extracellular (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		GTGTTGTTGAAGAAGGAGAAG	0.413													10	75	---	---	---	---	PASS	T	175897894	T	T	175897894	3	4	6	1	0	0	0	0	1	0	0	0	247	69	3	5	1220	5	ADAM29	4	175897894	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	11650364	175897894	15256382	119	4896										
VEGFC	7424	broad.mit.edu	37	chr4	177608422	177608422	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	attcacaggcacattttccaGgatttaggggttgatttctg	10	7	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:177608422G>T	uc003ius.1	-	6	1494	c.1064C>A	c.(1063-1065)CCT>CAT	p.P355H		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	355	4 X 16 AA repeats of C-X(10)-C-X-C- X(1,3)-C.|4.				angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		ACATTTTCCAGGATTTAGGGG	0.438													5	106	---	---	---	---	PASS	T	177608422	T	T	177608422	3	4	6	1	0	0	0	0	1	0	0	0	17149	1000	35	3	206	3	VEGFC	4	177608422	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	1710528	177608422	13545854	120	4897										
C4orf41	60684	broad.mit.edu	37	chr4	184585192	184585192	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tttctttcaaggtgctcccaGgtgaccatgagtatcccaaa	8	11	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr4:184585192G>T	uc003ivx.2	+	2	348	c.172G>T	c.(172-174)GGT>TGT	p.G58C	C4orf41_uc003ivw.2_Missense_Mutation_p.G58C|C4orf41_uc010isc.2_Intron	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	58											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		GGTGCTCCCAGGTGACCATGA	0.463													5	41	---	---	---	---	PASS	T	184585192	T	T	184585192	3	4	6	1	0	0	0	0	1	0	0	0	2270	1000	35	3	174	3	C4orf41	4	184585192	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	6976770	184585192	6569084	121	4898										
DNAH5	1767	broad.mit.edu	37	chr5	13721111	13721111	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tagactattcagccttacgtTcgccatggtctgctgcaaga	9	11	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:13721111T>C	uc003jfd.2	-	71	12319	c.12277A>G	c.(12277-12279)AAC>GAC	p.N4093D	DNAH5_uc003jfc.2_Missense_Mutation_p.N261D	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4093	AAA 6 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGCCTTACGTTCGCCATGGTC	0.418									Kartagener_syndrome				8	53	---	---	---	---	PASS	C	13721111	C	C	13721111	3	2	6	1	0	0	0	0	1	0	0	0	4604	1783	62	5	1633	5	DNAH5	5	13721111	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08		13721111	167194149	122	4899										
DNAH5	1767	broad.mit.edu	37	chr5	13913947	13913947	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aaagatgtctattatcttggCaaggcgtcggtgaaaagttt	11	5	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:13913947C>T	uc003jfd.2	-	11	1483	c.1441G>A	c.(1441-1443)GCC>ACC	p.A481T	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	481	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					ATTATCTTGGCAAGGCGTCGG	0.368									Kartagener_syndrome				8	56	---	---	---	---	PASS	T	13913947	T	T	13913947	3	4	6	1	0	0	0	0	1	0	0	0	4604	710	25	3	12709	3	DNAH5	5	13913947	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	192836	13913947	167001313	123	4900										
CDH18	1016	broad.mit.edu	37	chr5	19747097	19747097	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	acaatgtatggtccatctgtGaattttggagcgttgtcatt	10	6	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:19747097G>C	uc003jgc.2	-	3	854	c.477C>G	c.(475-477)TTC>TTG	p.F159L	CDH18_uc003jgd.2_Missense_Mutation_p.F159L|CDH18_uc011cnm.1_Missense_Mutation_p.F159L	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	159	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					GTCCATCTGTGAATTTTGGAG	0.348													9	84	---	---	---	---	PASS	C	19747097	C	C	19747097	3	2	6	1	0	0	0	0	1	0	0	0	3103	1281	45	2	1935	2	CDH18	5	19747097	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	5833150	19747097	161168163	124	4901										
CDH10	1008	broad.mit.edu	37	chr5	24488018	24488018	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atgaaatcccggacgtccgtGttatctggagctgtaggagt	13	8	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:24488018G>T	uc003jgr.1	-	12	2453	c.2121C>A	c.(2119-2121)AAC>AAA	p.N707K	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	707	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		GGACGTCCGTGTTATCTGGAG	0.483										HNSCC(23;0.051)			11	49	---	---	---	---	PASS	T	24488018	T	T	24488018	3	4	6	1	0	0	0	0	1	0	0	0	3096	1368	48	3	249	3	CDH10	5	24488018	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	4740921	24488018	156427242	125	4902										
CDH10	1008	broad.mit.edu	37	chr5	24488077	24488077	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cgtttctggaataatatctcGccggagctttttttcctcaa	7	10	3	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:24488077G>T	uc003jgr.1	-	12	2394	c.2062C>A	c.(2062-2064)CGA>AGA	p.R688R	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	688	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ATAATATCTCGCCGGAGCTTT	0.483										HNSCC(23;0.051)			25	17	---	---	---	---	PASS	T	24488077	T	T	24488077	2	4	6	1	0	0	0	0	0	0	0	1	3096	1095	38	1		1	CDH10	5	24488077	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	59	24488077	156427183	126	4903										
CDH10	1008	broad.mit.edu	37	chr5	24509858	24509858	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atggtcctaggtaataaaaaCggggatctacatgggtgttt	12	5	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:24509858C>T	uc003jgr.1	-	7	1405	c.1073G>A	c.(1072-1074)CGT>CAT	p.R358H	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	358	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		GTAATAAAAACGGGGATCTAC	0.363										HNSCC(23;0.051)			25	24	---	---	---	---	PASS	T	24509858	T	T	24509858	3	4	6	1	0	0	0	0	1	0	0	0	3096	536	19	1	1317	1	CDH10	5	24509858	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	21781	24509858	156405402	127	4904										
PDZD2	23037	broad.mit.edu	37	chr5	32074686	32074686	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccatgcgatctggactcgagAgtccaggccacttctgtcaa	10	13	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:32074686A>C	uc003jhl.2	+	18	3862	c.3474A>C	c.(3472-3474)AGA>AGC	p.R1158S	PDZD2_uc003jhm.2_Missense_Mutation_p.R1158S|PDZD2_uc011cnx.1_Missense_Mutation_p.R984S	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1158					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						TGGACTCGAGAGTCCAGGCCA	0.547													18	10	---	---	---	---	PASS	C	32074686	C	C	32074686	3	2	6	1	0	0	0	0	1	0	0	0	11701	301	11	5	3540	5	PDZD2	5	32074686	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	7564828	32074686	148840574	128	4905										
IL7R	3575	broad.mit.edu	37	chr5	35876119	35876119	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tttcaatcctgaaagtttccTggactgccagattcataggg	9	9	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:35876119T>A	uc003jjs.2	+	8	1000	c.911T>A	c.(910-912)CTG>CAG	p.L304Q	IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	304	Cytoplasmic (Potential).				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			GAAAGTTTCCTGGACTGCCAG	0.408													6	60	---	---	---	---	PASS	A	35876119	A	A	35876119	3	1	6	1	0	0	0	0	1	0	0	0	7705	1580	55	5	941	5	IL7R	5	35876119	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	3801433	35876119	145039141	129	4906										
UGT3A2	167127	broad.mit.edu	37	chr5	36035961	36035961	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctgaaagacatagggcttgaGgtgcgtcgcgccccctgtct	13	12	1	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:36035961G>T	uc003jjz.1	-	7	1504	c.1411C>A	c.(1411-1413)CTC>ATC	p.L471I	UGT3A2_uc011cos.1_Missense_Mutation_p.L437I|UGT3A2_uc011cot.1_Missense_Mutation_p.L169I	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	471	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TAGGGCTTGAGGTGCGTCGCG	0.617													4	21	---	---	---	---	PASS	T	36035961	T	T	36035961	3	4	6	1	0	0	0	0	1	0	0	0	16961	1000	35	3	164	3	UGT3A2	5	36035961	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	159842	36035961	144879299	130	4907										
LMBRD2	92255	broad.mit.edu	37	chr5	36122985	36122985	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	taccagacttttttcacttgGatagatactatgcttttcat	5	8	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:36122985G>T	uc003jkb.1	-	8	1316	c.901C>A	c.(901-903)CCA>ACA	p.P301T		NM_001007527	NP_001007528	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	301	Cytoplasmic (Potential).					integral to membrane					0	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TTTTCACTTGGATAGATACTA	0.274													4	23	---	---	---	---	PASS	T	36122985	T	T	36122985	3	4	6	1	0	0	0	0	1	0	0	0	8843	1174	41	2	1230	2	LMBRD2	5	36122985	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	87024	36122985	144792275	131	4908										
C5orf33	133686	broad.mit.edu	37	chr5	36226629	36226629	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	acagtctcttcatcatattcTctcctctttactagacgaac	3	13	5	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:36226629T>A	uc003jkf.3	-	3	426	c.426A>T	c.(424-426)AGA>AGT	p.R142S	C5orf33_uc010iux.2_5'Flank|C5orf33_uc003jkg.3_5'UTR|C5orf33_uc011cov.1_5'UTR	NM_001085411	NP_001078880	Q4G0N4	NAKD1_HUMAN	hypothetical protein LOC133686 isoform 1	142							NAD+ kinase activity				0	all_lung(31;5.63e-05)		Epithelial(62;0.0254)|all cancers(62;0.0805)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CATCATATTCTCTCCTCTTTA	0.348													61	44	---	---	---	---	PASS	A	36226629	A	A	36226629	3	1	6	1	0	0	0	0	1	0	0	0	2292	1548	54	5	942	5	C5orf33	5	36226629	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	103644	36226629	144688631	132	4909										
NIPBL	25836	broad.mit.edu	37	chr5	37000926	37000926	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttgttcgttttagttgctagGaaaatgaagaaaaaagaaaa	9	2	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:37000926G>A	uc003jkl.3	+	13	4009	c.3510G>A	c.(3508-3510)AGG>AGA	p.R1170R	NIPBL_uc003jkk.3_Silent_p.R1170R	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1170					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			TAGTTGCTAGGAAAATGAAGA	0.294													34	22	---	---	---	---	PASS	A	37000926	A	A	37000926	2	1	6	1	0	0	0	0	0	0	0	1	10428	1165	41	2		2	NIPBL	5	37000926	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	774297	37000926	143914334	133	4910										
FYB	2533	broad.mit.edu	37	chr5	39202039	39202039	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aggcaatggcttctgtttcgGggtggctgaattcttgtctc	13	8	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:39202039G>A	uc003jls.2	-	1	1091	c.1024C>T	c.(1024-1026)CCG>TCG	p.P342S	FYB_uc003jlt.2_Missense_Mutation_p.P342S|FYB_uc003jlu.2_Missense_Mutation_p.P342S|FYB_uc011cpl.1_Missense_Mutation_p.P352S	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	342					cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			TTCTGTTTCGGGGTGGCTGAA	0.532													7	73	---	---	---	---	PASS	A	39202039	A	A	39202039	3	1	6	1	0	0	0	0	1	0	0	0	6124	1232	43	3	1537	3	FYB	5	39202039	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	2201113	39202039	141713221	134	4911										
HTR1A	3350	broad.mit.edu	37	chr5	63257447	63257447	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agaggtgatcacttggtagcTgacggtcacgtcggagatac	14	8	2	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:63257447T>A	uc011cqt.1	-	1	100	c.100A>T	c.(100-102)AGC>TGC	p.S34C		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	34	Extracellular (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	ACTTGGTAGCTGACGGTCACG	0.617													10	29	---	---	---	---	PASS	A	63257447	A	A	63257447	3	1	6	1	0	0	0	0	1	0	0	0	7436	1580	55	5	1171	5	HTR1A	5	63257447	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	24055408	63257447	117657813	135	4912										
BDP1	55814	broad.mit.edu	37	chr5	70805959	70805959	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aaatggagacagatttgaacGcaactggaagagagagttct	12	5	1	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:70805959G>A	uc003kbp.1	+	17	3303	c.3040G>A	c.(3040-3042)GCA>ACA	p.A1014T	BDP1_uc003kbn.1_Missense_Mutation_p.A1014T|BDP1_uc003kbo.2_Missense_Mutation_p.A1014T	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1014	4.|9 X 55 AA repeats of G-R-R-X-I-S-P-X-E-N- G-X-E-E-V-K-P-X-X-E-M-E-T-D-L-K-X-T-G-R- E-X-X-X-R-E-K-T-X-E-X-X-D-A-X-E-E-I-D-X- D-L-E-E-T.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AGATTTGAACGCAACTGGAAG	0.428													14	72	---	---	---	---	PASS	A	70805959	A	A	70805959	3	1	6	1	0	0	0	0	1	0	0	0	1395	1087	38	1	3106	1	BDP1	5	70805959	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	7548512	70805959	110109301	136	4913										
MEF2C	4208	broad.mit.edu	37	chr5	88119587	88119587	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atccataatcctcgtaatctGaatcttttttctccccatag	3	12	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:88119587G>C	uc003kjj.2	-	2	692	c.19C>G	c.(19-21)CAG>GAG	p.Q7E	MEF2C_uc003kji.2_Missense_Mutation_p.Q7E|MEF2C_uc003kjk.2_Missense_Mutation_p.Q7E|MEF2C_uc003kjm.2_Missense_Mutation_p.Q7E|MEF2C_uc003kjl.2_Missense_Mutation_p.Q7E	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	7	Lys-rich (basic).|MADS-box.				apoptosis|B cell proliferation|innate immune response|learning or memory|muscle cell differentiation|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|neuron development|positive regulation of muscle cell differentiation|positive regulation of survival gene product expression|positive regulation of transcription from RNA polymerase II promoter|regulation of germinal center formation|regulation of megakaryocyte differentiation|regulation of synaptic activity|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	nuclear speck	activating transcription factor binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(3)|breast(2)|ovary(1)|large_intestine(1)	7		all_cancers(142;6.67e-05)|all_epithelial(76;7.77e-07)|Lung NSC(167;0.00566)|all_lung(232;0.00732)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;1.04e-33)|Epithelial(54;1.6e-28)|all cancers(79;2.9e-25)		CTCGTAATCTGAATCTTTTTT	0.343										HNSCC(66;0.2)			105	44	---	---	---	---	PASS	C	88119587	C	C	88119587	3	2	6	1	0	0	0	0	1	0	0	0	9457	1299	45	2	1584	2	MEF2C	5	88119587	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	17313628	88119587	92795673	137	4914										
FAM114A2	10827	broad.mit.edu	37	chr5	153409093	153409093	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggtagagaatacaccaaatgCcccagccactggggaggagt	13	10	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:153409093C>A	uc003lvb.2	-	5	1039	c.451G>T	c.(451-453)GCA>TCA	p.A151S	FAM114A2_uc003lvc.2_Missense_Mutation_p.A151S|FAM114A2_uc003lvd.2_Missense_Mutation_p.A151S|FAM114A2_uc003lve.2_5'UTR|FAM114A2_uc011dda.1_Missense_Mutation_p.A81S	NM_018691	NP_061161	Q9NRY5	F1142_HUMAN	hypothetical protein LOC10827	151							purine nucleotide binding				0						ACACCAAATGCCCCAGCCACT	0.448													8	10	---	---	---	---	PASS	A	153409093	A	A	153409093	3	1	6	1	0	0	0	0	1	0	0	0	5404	739	26	3	1106	3	FAM114A2	5	153409093	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	65289506	153409093	27506167	138	4915										
ATP10B	23120	broad.mit.edu	37	chr5	160097667	160097667	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gcacttctgcacataggtctGctcttttcttgggtgagaga	11	9	4	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr5:160097667G>T	uc003lym.1	-	7	1325	c.478C>A	c.(478-480)CAG>AAG	p.Q160K	ATP10B_uc003lyp.2_Missense_Mutation_p.Q160K|ATP10B_uc011deg.1_Missense_Mutation_p.Q204K|ATP10B_uc003lyo.2_Missense_Mutation_p.Q132K	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	160	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACATAGGTCTGCTCTTTTCTT	0.458													24	18	---	---	---	---	PASS	T	160097667	T	T	160097667	3	4	6	1	0	0	0	0	1	0	0	0	1117	1328	46	3	3987	3	ATP10B	5	160097667	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	6688574	160097667	20817593	139	4916										
HIST1H3I	8354	broad.mit.edu	37	chr6	27840015	27840015	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggtggccggagcgctcttgcGagccgccttggtggccagct	17	13	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:27840015G>A	uc003njy.2	-	1	85	c.79C>T	c.(79-81)CGC>TGC	p.R27C		NM_003533	NP_003524	P68431	H31_HUMAN	histone cluster 1, H3i	27					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1						GCGCTCTTGCGAGCCGCCTTG	0.667													4	13	---	---	---	---	PASS	A	27840015	A	A	27840015	3	1	6	1	0	0	0	0	1	0	0	0	7163	1058	37	2	335	2	HIST1H3I	6	27840015	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08		27840015	143275052	140	4917										
ZKSCAN3	80317	broad.mit.edu	37	chr6	28327630	28327630	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gagcagatcctggagctgctGgtgctggagcagttcctgac	15	10	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:28327630G>T	uc003nle.3	+	2	483	c.267G>T	c.(265-267)CTG>CTT	p.L89L	ZKSCAN3_uc010jrc.2_Silent_p.L89L|ZKSCAN3_uc003nlf.3_Intron	NM_024493	NP_077819	Q9BRR0	ZKSC3_HUMAN	zinc finger with KRAB and SCAN domains 3	89	SCAN box.				positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	chromatin binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						TGGAGCTGCTGGTGCTGGAGC	0.652													5	22	---	---	---	---	PASS	T	28327630	T	T	28327630	2	4	6	1	0	0	0	0	0	0	0	1	17685	1335	47	3		3	ZKSCAN3	6	28327630	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	487615	28327630	142787437	141	4918										
WDR46	9277	broad.mit.edu	37	chr6	33255475	33255475	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gggcagccacatgacctcggCgccctccaaaagccaggtgt	12	15	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:33255475C>T	uc003ods.2	-	7	688	c.644G>A	c.(643-645)CGC>CAC	p.R215H	WDR46_uc011dra.1_Missense_Mutation_p.R161H|WDR46_uc010juo.1_RNA|PFDN6_uc003odt.1_5'Flank|PFDN6_uc010jup.1_5'Flank	NM_005452	NP_005443	O15213	WDR46_HUMAN	WD repeat domain 46 isoform 1	215	WD 1.										0						ATGACCTCGGCGCCCTCCAAA	0.602													10	9	---	---	---	---	PASS	T	33255475	T	T	33255475	3	4	6	1	0	0	0	0	1	0	0	0	17296	768	27	1	1224	1	WDR46	6	33255475	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	4927845	33255475	137859592	142	4919										
RGL2	5863	broad.mit.edu	37	chr6	33262480	33262480	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctgacctccaactcatccttGgaggctgcatccagcatcac	7	16	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:33262480G>A	uc003odv.2	-	11	1471	c.1338C>T	c.(1336-1338)TCC>TCT	p.S446S	RGL2_uc003odu.2_Silent_p.S6S|RGL2_uc010jur.2_Silent_p.S6S|RGL2_uc003odw.2_Silent_p.S364S|RGL2_uc011drb.1_Silent_p.S364S	NM_004761	NP_004752	O15211	RGL2_HUMAN	ral guanine nucleotide dissociation	446	Ras-GEF.				Ras protein signal transduction|regulation of small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity			skin(3)|lung(1)|breast(1)|pancreas(1)	6						ACTCATCCTTGGAGGCTGCAT	0.582													5	12	---	---	---	---	PASS	A	33262480	A	A	33262480	2	1	6	1	0	0	0	0	0	0	0	1	13277	1335	47	3		3	RGL2	6	33262480	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	7005	33262480	137852587	143	4920										
TAF11	6882	broad.mit.edu	37	chr6	34850791	34850791	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tattttcagttttttggctgCaggattaagtaatgatgagt	10	3	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:34850791C>T	uc003ojw.1	-	2	323	c.238G>A	c.(238-240)GCA>ACA	p.A80T	UHRF1BP1_uc010jvm.1_RNA|TAF11_uc011dsr.1_Missense_Mutation_p.A80T	NM_005643	NP_005634	Q15544	TAF11_HUMAN	TBP-associated factor 11	80					positive regulation by host of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	transcription factor TFIID complex	protein N-terminus binding|thyroid hormone receptor binding|transcription coactivator activity|vitamin D receptor binding				0						TTTTTGGCTGCAGGATTAAGT	0.348													23	33	---	---	---	---	PASS	T	34850791	T	T	34850791	3	4	6	1	0	0	0	0	1	0	0	0	15512	710	25	3	413	3	TAF11	6	34850791	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	1588311	34850791	136264276	144	4921										
TCP11	6954	broad.mit.edu	37	chr6	35089954	35089954	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gcactgcttcatctcgaactGgtgcacacagcaaagccatc	8	14	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:35089954G>T	uc003okd.2	-	5	738	c.557C>A	c.(556-558)CCA>CAA	p.P186Q	TCP11_uc003ojz.1_Missense_Mutation_p.P111Q|TCP11_uc003oka.2_Missense_Mutation_p.P111Q|TCP11_uc003okb.2_Missense_Mutation_p.P110Q|TCP11_uc003okc.2_Missense_Mutation_p.P110Q|TCP11_uc011dsu.1_Missense_Mutation_p.P168Q|TCP11_uc011dsv.1_Missense_Mutation_p.P135Q|TCP11_uc011dsw.1_Missense_Mutation_p.P140Q	NM_001093728	NP_001087197	Q8WWU5	TCP11_HUMAN	t-complex 11 isoform 1	173					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(3)|skin(2)	5						ATCTCGAACTGGTGCACACAG	0.478													5	81	---	---	---	---	PASS	T	35089954	T	T	35089954	3	4	6	1	0	0	0	0	1	0	0	0	15710	1348	47	3	1017	3	TCP11	6	35089954	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	239163	35089954	136025113	145	4922										
TJAP1	93643	broad.mit.edu	37	chr6	43471417	43471417	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctcctcaagtgcaacaagtcCcacttccgaaaccacaagtt	5	15	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:43471417C>T	uc003ovd.2	+	10	928	c.552C>T	c.(550-552)TCC>TCT	p.S184S	TJAP1_uc003ovf.2_Silent_p.S174S|TJAP1_uc003ove.2_Silent_p.S174S|TJAP1_uc003ovc.2_Silent_p.S174S|TJAP1_uc010jyp.2_Silent_p.S143S|TJAP1_uc011dvh.1_Silent_p.S174S|TJAP1_uc003ovg.2_Silent_p.S50S|TJAP1_uc011dvi.1_Silent_p.S184S|TJAP1_uc011dvj.1_5'UTR|TJAP1_uc003ovi.2_Silent_p.S50S	NM_001146016	NP_001139488	Q5JTD0	TJAP1_HUMAN	tight junction associated protein 1 isoform a	184						Golgi apparatus|tight junction	protein binding				0	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0122)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			GCAACAAGTCCCACTTCCGAA	0.562													11	87	---	---	---	---	PASS	T	43471417	T	T	43471417	2	4	6	1	0	0	0	0	0	0	0	1	15925	610	22	3		3	TJAP1	6	43471417	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	8381463	43471417	127643650	146	4923										
GPR111	222611	broad.mit.edu	37	chr6	47650109	47650109	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggacatgaccaaagccctccTggccttcgtgatcccagctt	9	15	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:47650109T>A	uc010jzj.1	+	6	1815	c.1814T>A	c.(1813-1815)CTG>CAG	p.L605Q	GPR111_uc010jzk.1_Missense_Mutation_p.L537Q|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	605	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						AAAGCCCTCCTGGCCTTCGTG	0.537													27	29	---	---	---	---	PASS	A	47650109	A	A	47650109	3	1	6	1	0	0	0	0	1	0	0	0	6628	1580	55	5	1628	5	GPR111	6	47650109	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	4178692	47650109	123464958	147	4924										
PKHD1	5314	broad.mit.edu	37	chr6	51640631	51640631	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gttcctgggtcaatatgaatTccattcatacggtcacaaaa	7	9	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:51640631T>G	uc003pah.1	-	54	8805	c.8529A>C	c.(8527-8529)GGA>GGC	p.G2843G	PKHD1_uc010jzn.1_Silent_p.G826G|PKHD1_uc003pai.2_Silent_p.G2843G	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2843	G8 2.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CAATATGAATTCCATTCATAC	0.333													6	46	---	---	---	---	PASS	G	51640631	G	G	51640631	2	3	6	1	0	0	0	0	0	0	0	1	11971	1770	62	5		5	PKHD1	6	51640631	Silent	SNP	T	TCGA-18-3411-01A-01D-0983-08	3990522	51640631	119474436	148	4925										
DOPEY1	23033	broad.mit.edu	37	chr6	83818789	83818789	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gcttagaagaaggatcagagTactatgagaggtaagatcat	12	4	2	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:83818789T>C	uc003pjs.1	+	5	741	c.481T>C	c.(481-483)TAC>CAC	p.Y161H	DOPEY1_uc011dyy.1_Missense_Mutation_p.Y161H|DOPEY1_uc010kbl.1_Missense_Mutation_p.Y161H	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	161					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)		AGGATCAGAGTACTATGAGAG	0.358													9	48	---	---	---	---	PASS	C	83818789	C	C	83818789	3	2	6	1	0	0	0	0	1	0	0	0	4707	1638	57	5	491	5	DOPEY1	6	83818789	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	32178158	83818789	87296278	149	4926										
CNR1	1268	broad.mit.edu	37	chr6	88854625	88854625	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtgaaggtgcccagcgtgagGgacaggactgcaatggccag	17	9	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:88854625G>T	uc011dzq.1	-	2	3932	c.369C>A	c.(367-369)TCC>TCA	p.S123S	CNR1_uc010kbz.2_Silent_p.S123S|CNR1_uc011dzr.1_Silent_p.S123S|CNR1_uc011dzs.1_Silent_p.S123S|CNR1_uc003pmq.3_Silent_p.S123S|CNR1_uc011dzt.1_Silent_p.S123S|CNR1_uc010kca.2_Silent_p.S90S	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	123	Helical; Name=1; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	CCAGCGTGAGGGACAGGACTG	0.587													6	13	---	---	---	---	PASS	T	88854625	T	T	88854625	2	4	6	1	0	0	0	0	0	0	0	1	3631	1219	43	3		3	CNR1	6	88854625	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	5035836	88854625	82260442	150	4927										
EPHA7	2045	broad.mit.edu	37	chr6	94120471	94120471	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cactttgacagaaaccaaagCtatgcaagcccctacatcct	5	14	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:94120471C>G	uc003poe.2	-	3	821	c.580G>C	c.(580-582)GCT>CCT	p.A194P	EPHA7_uc003pof.2_Missense_Mutation_p.A194P|EPHA7_uc011eac.1_Missense_Mutation_p.A194P|EPHA7_uc003pog.3_Missense_Mutation_p.A194P	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	194	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		GAAACCAAAGCTATGCAAGCC	0.408													12	27	---	---	---	---	PASS	G	94120471	G	G	94120471	3	3	6	1	0	0	0	0	1	0	0	0	5172	797	28	4	2476	4	EPHA7	6	94120471	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	5265846	94120471	76994596	151	4928										
KIAA0776	23376	broad.mit.edu	37	chr6	96984166	96984166	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggacgcttacgaggcactgtGgttggtgggagacaggataa	17	6	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:96984166G>T	uc003por.2	+	8	750	c.702G>T	c.(700-702)GTG>GTT	p.V234V	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	234	Involved in CDK5RAP3-binding.				negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		GAGGCACTGTGGTTGGTGGGA	0.433													5	51	---	---	---	---	PASS	T	96984166	T	T	96984166	2	4	6	1	0	0	0	0	0	0	0	1	8193	1335	47	3		3	KIAA0776	6	96984166	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	2863695	96984166	74130901	152	4929										
OSTM1	28962	broad.mit.edu	37	chr6	108375753	108375753	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tagattaaggaaatatactgTgctgtttgataattcttcac	7	5	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:108375753T>A	uc003psd.2	-	3	642	c.556A>T	c.(556-558)ACA>TCA	p.T186S		NM_014028	NP_054747	Q86WC4	OSTM1_HUMAN	osteopetrosis associated transmembrane protein 1	186	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1		all_cancers(87;3.82e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000195)|Colorectal(196;0.0293)|all_lung(197;0.0938)		BRCA - Breast invasive adenocarcinoma(108;0.0131)|Epithelial(106;0.0438)|OV - Ovarian serous cystadenocarcinoma(136;0.0571)|all cancers(137;0.0581)		AAATATACTGTGCTGTTTGAT	0.264													6	12	---	---	---	---	PASS	A	108375753	A	A	108375753	3	1	6	1	0	0	0	0	1	0	0	0	11298	1696	59	5	464	5	OSTM1	6	108375753	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	11391587	108375753	62739314	153	4930										
ROS1	6098	broad.mit.edu	37	chr6	117632279	117632279	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aggtgagtaaaggaccataaAactgtaagaaatgaaagaaa	10	3	0	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:117632279A>T	uc003pxp.1	-	39	6336	c.6137T>A	c.(6136-6138)TTT>TAT	p.F2046Y	ROS1_uc011ebi.1_RNA	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	2046	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		AGGACCATAAAACTGTAAGAA	0.279			T	GOPC|ROS1	glioblastoma|NSCLC								16	18	---	---	---	---	PASS	T	117632279	T	T	117632279	3	4	6	1	0	0	0	0	1	0	0	0	13531	28	1	5	926	5	ROS1	6	117632279	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	9256526	117632279	53482788	154	4931										
TAAR8	83551	broad.mit.edu	37	chr6	132874419	132874419	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	caaattattgtaagtcaaggCtgggtgttgatagattttct	10	4	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:132874419C>T	uc011ecj.1	+	1	588	c.588C>T	c.(586-588)GGC>GGT	p.G196G		NM_053278	NP_444508	Q969N4	TAAR8_HUMAN	trace amine associated receptor 8	196	Helical; Name=5; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00412)|GBM - Glioblastoma multiforme(226;0.00792)		TAAGTCAAGGCTGGGTGTTGA	0.378													14	42	---	---	---	---	PASS	T	132874419	T	T	132874419	2	4	6	1	0	0	0	0	0	0	0	1	15490	784	28	3		3	TAAR8	6	132874419	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	15242140	132874419	38240648	155	4932										
AHI1	54806	broad.mit.edu	37	chr6	135784438	135784438	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	actgtgtcaccagagatggtCaatgtactacaaatataatc	7	8	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:135784438C>T	uc003qgi.2	-	8	1140	c.756G>A	c.(754-756)TTG>TTA	p.L252L	AHI1_uc003qgh.2_Silent_p.L252L|AHI1_uc003qgj.2_Silent_p.L252L|AHI1_uc003qgk.3_RNA|AHI1_uc003qgl.3_Silent_p.L252L	NM_001134831	NP_001128303	Q8N157	AHI1_HUMAN	Abelson helper integration site 1 isoform a	252						adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		CAGAGATGGTCAATGTACTAC	0.323													23	36	---	---	---	---	PASS	T	135784438	T	T	135784438	2	4	6	1	0	0	0	0	0	0	0	1	413	825	29	2		2	AHI1	6	135784438	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	2910019	135784438	35330629	156	4933										
STXBP5	134957	broad.mit.edu	37	chr6	147685233	147685233	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tttaccaacaatggacaagcAttataccttgtttcacctac	4	11	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:147685233A>G	uc003qlz.2	+	25	3173	c.3012A>G	c.(3010-3012)GCA>GCG	p.A1004A	STXBP5_uc010khz.1_Silent_p.A968A|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Silent_p.A659A	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	1004	WD 14.				exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		ATGGACAAGCATTATACCTTG	0.363													16	31	---	---	---	---	PASS	G	147685233	G	G	147685233	2	3	6	1	0	0	0	0	0	0	0	1	15355	204	8	5		5	STXBP5	6	147685233	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	11900795	147685233	23429834	157	4934										
SYNE1	23345	broad.mit.edu	37	chr6	152605154	152605154	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cgaggctttcatcctgatggTggacattcgctcggctaaga	12	10	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr6:152605154T>C	uc010kiw.2	-	96	18768	c.18166A>G	c.(18166-18168)ACC>GCC	p.T6056A	SYNE1_uc010kiv.2_Missense_Mutation_p.T580A|SYNE1_uc003qos.3_Missense_Mutation_p.T580A|SYNE1_uc003qot.3_Missense_Mutation_p.T5985A|SYNE1_uc003qou.3_Missense_Mutation_p.T6056A|SYNE1_uc010kiy.1_Missense_Mutation_p.T235A	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6056	Spectrin 20.|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)		ATCCTGATGGTGGACATTCGC	0.532										HNSCC(10;0.0054)			7	25	---	---	---	---	PASS	C	152605154	C	C	152605154	3	2	6	1	0	0	0	0	1	0	0	0	15442	1696	59	5	8504	5	SYNE1	6	152605154	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	4919921	152605154	18509913	158	4935										
MAD1L1	8379	broad.mit.edu	37	chr7	2259027	2259027	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccgactccaggcgcttcaccCgcatctcctggtccatcacg	8	19	3	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:2259027C>T	uc003slh.1	-	6	802	c.536G>A	c.(535-537)CGG>CAG	p.R179Q	MAD1L1_uc003slf.1_Missense_Mutation_p.R179Q|MAD1L1_uc003slg.1_Missense_Mutation_p.R179Q|MAD1L1_uc010ksh.1_Missense_Mutation_p.R179Q|MAD1L1_uc003sli.1_Missense_Mutation_p.R87Q|MAD1L1_uc010ksi.1_Missense_Mutation_p.R132Q|MAD1L1_uc010ksj.2_Missense_Mutation_p.R179Q	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	179	Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		GCGCTTCACCCGCATCTCCTG	0.632													4	12	---	---	---	---	PASS	T	2259027	T	T	2259027	3	4	6	1	0	0	0	0	1	0	0	0	9147	652	23	1	1676	1	MAD1L1	7	2259027	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08		2259027	156879636	159	4936										
SNX13	23161	broad.mit.edu	37	chr7	17915137	17915137	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggggaagtgcacactagatcAcggcaaacctccttctccat	9	13	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:17915137A>T	uc003stw.1	-	7	843	c.630T>A	c.(628-630)CGT>CGA	p.R210R	SNX13_uc003stv.2_Silent_p.R210R|SNX13_uc010kuc.2_Silent_p.R7R|SNX13_uc003stx.1_Silent_p.R130R			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;	210	PXA.				cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					ACACTAGATCACGGCAAACCT	0.358													17	32	---	---	---	---	PASS	T	17915137	T	T	17915137	2	4	6	1	0	0	0	0	0	0	0	1	14884	146	6	5		5	SNX13	7	17915137	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	15656110	17915137	141223526	160	4937										
SNX13	23161	broad.mit.edu	37	chr7	17930108	17930108	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctcaaggaaaactggataacCtataacaaaaatattggaaa	6	6	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:17930108C>A	uc003stw.1	-	5	532	c.319_splice	c.e5-1	p.V107_splice	SNX13_uc003stv.2_Splice_Site_p.V107_splice|SNX13_uc010kuc.2_Splice_Site|SNX13_uc003stx.1_Splice_Site_p.V27_splice|SNX13_uc003sty.2_Splice_Site_p.V107_splice			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;						cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					ACTGGATAACCTATAACAAAA	0.289													5	50	---	---	---	---	PASS	A	17930108	A	A	17930108	5	1	6	1	0	0	0	0	0	0	1	0	14884	695	24	3	2643	3	SNX13	7	17930108	Splice_Site	SNP	C	TCGA-18-3411-01A-01D-0983-08	14971	17930108	141208555	161	4938										
INMT	11185	broad.mit.edu	37	chr7	30793552	30793552	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gcctgtgagctggaaggaaaCaggtaggggtgcagaggttg	19	5	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:30793552C>G	uc003tbs.1	+	2	376	c.360C>G	c.(358-360)AAC>AAG	p.N120K	FAM188B_uc010kwe.2_5'UTR|INMT_uc010kwc.1_RNA|INMT_uc010kwd.1_Missense_Mutation_p.N119K	NM_006774	NP_006765	O95050	INMT_HUMAN	indolethylamine N-methyltransferase	120						cytoplasm	amine N-methyltransferase activity				0						TGGAAGGAAACAGGTAGGGGT	0.572													9	52	---	---	---	---	PASS	G	30793552	G	G	30793552	3	3	6	1	0	0	0	0	1	0	0	0	7745	477	17	4	366	4	INMT	7	30793552	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	12863444	30793552	128345111	162	4939										
ADCYAP1R1	117	broad.mit.edu	37	chr7	31142865	31142865	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cgacaggcgactggcccggtCcaccctgctgctcatcccac	10	19	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:31142865C>A	uc003tca.1	+	14	1284	c.1061C>A	c.(1060-1062)TCC>TAC	p.S354Y	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.S333Y|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.S382Y|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.S382Y|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.S381Y|ADCYAP1R1_uc003tcf.1_Missense_Mutation_p.S112Y	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	354	Helical; Name=6; (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						CTGGCCCGGTCCACCCTGCTG	0.582													32	59	---	---	---	---	PASS	A	31142865	A	A	31142865	3	1	6	1	0	0	0	0	1	0	0	0	303	855	30	2	1111	2	ADCYAP1R1	7	31142865	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	349313	31142865	127995798	163	4940										
ZNF479	90827	broad.mit.edu	37	chr7	57187734	57187734	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	attcttcacatgtgtagggtCtctctccagtatgaattctc	7	10	5	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:57187734C>A	uc010kzo.2	-	5	1659	c.1388G>T	c.(1387-1389)AGA>ATA	p.R463I		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	463					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TGTGTAGGGTCTCTCTCCAGT	0.418													34	55	---	---	---	---	PASS	A	57187734	A	A	57187734	3	1	6	1	0	0	0	0	1	0	0	0	17930	913	32	2	190	2	ZNF479	7	57187734	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	26044869	57187734	101950929	164	4941										
ZNF117	51351	broad.mit.edu	37	chr7	64439401	64439401	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cttcagtatgaattctcttaTgtctaataaggtgtgaggtc	9	6	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:64439401T>A	uc003ttr.2	-	4	1833	c.548A>T	c.(547-549)CAT>CTT	p.H183L		NM_015852	NP_056936	Q03924	ZN117_HUMAN	zinc finger protein 117	183	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Lung NSC(55;0.0295)|all_lung(88;0.0691)				AATTCTCTTATGTCTAATAAG	0.348													5	54	---	---	---	---	PASS	A	64439401	A	A	64439401	3	1	6	1	0	0	0	0	1	0	0	0	17714	1464	51	5	907	5	ZNF117	7	64439401	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	7251667	64439401	94699262	165	4942										
ZNF92	168374	broad.mit.edu	37	chr7	64863284	64863284	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcattttgcccaagatgtttGgccagagcacagcataaaag	9	9	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:64863284G>A	uc003ttz.2	+	4	400	c.257G>A	c.(256-258)TGG>TAG	p.W86*	ZNF92_uc003tua.2_Nonsense_Mutation_p.W17*|ZNF92_uc010kzu.2_Nonsense_Mutation_p.W54*|ZNF92_uc003tub.2_Nonsense_Mutation_p.W10*	NM_152626	NP_689839	Q03936	ZNF92_HUMAN	zinc finger protein 92 isoform 2	86						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(55;0.159)				CAAGATGTTTGGCCAGAGCAC	0.308													7	53	---	---	---	---	PASS	A	64863284	A	A	64863284	4	1	6	1	0	0	0	0	0	1	0	0	18198	1357	47	3	271	3	ZNF92	7	64863284	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	423883	64863284	94275379	166	4943										
POM121	9883	broad.mit.edu	37	chr7	72400567	72400567	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctcttccatgagctccttgaCaggcgcttacgcaagtggca	10	13	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:72400567C>G	uc003twk.2	+	5	1193	c.1193C>G	c.(1192-1194)ACA>AGA	p.T398R	POM121_uc003twj.2_Missense_Mutation_p.T133R|POM121_uc010lam.1_Missense_Mutation_p.T133R	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	398	Ser-rich.|Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				AGCTCCTTGACAGGCGCTTAC	0.507													26	161	---	---	---	---	PASS	G	72400567	G	G	72400567	3	3	6	1	0	0	0	0	1	0	0	0	12239	478	17	4	412	4	POM121	7	72400567	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	7537283	72400567	86738096	167	4944										
GTF2IRD1	9569	broad.mit.edu	37	chr7	73969722	73969722	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cgatgccatcttgggtcccaGgaactgcctcctcacttggc	10	15	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:73969722G>C	uc003uaq.2	+	19	2360	c.1967_splice	c.e19-1	p.G656_splice	GTF2IRD1_uc010lbq.2_Intron|GTF2IRD1_uc003uap.2_Intron|GTF2IRD1_uc003uar.1_Intron	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1							nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						TTGGGTCCCAGGAACTGCCTC	0.632													4	21	---	---	---	---	PASS	C	73969722	C	C	73969722	5	2	6	1	0	0	0	0	0	0	1	0	6868	1014	35	4	2036	4	GTF2IRD1	7	73969722	Splice_Site	SNP	G	TCGA-18-3411-01A-01D-0983-08	1569155	73969722	85168941	168	4945										
STYXL1	51657	broad.mit.edu	37	chr7	75630284	75630284	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggctgataccttgggtggaaAagatcagaatgacagagcca	13	7	1	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:75630284A>T	uc003uej.3	-	8	907	c.734T>A	c.(733-735)TTT>TAT	p.F245Y	STYXL1_uc003uef.2_Intron|STYXL1_uc011kgf.1_Intron|STYXL1_uc011kgg.1_Intron|STYXL1_uc003ueh.2_Missense_Mutation_p.F107Y|STYXL1_uc003uek.3_Missense_Mutation_p.F149Y|STYXL1_uc003uel.2_Missense_Mutation_p.F245Y|STYXL1_uc003uem.2_Missense_Mutation_p.F245Y|STYXL1_uc010ldg.1_Intron|STYXL1_uc010ldh.1_Missense_Mutation_p.F245Y|STYXL1_uc003uen.1_Intron	NM_016086	NP_057170	Q9Y6J8	STYL1_HUMAN	map kinase phosphatase-like protein MK-STYX	245	Tyrosine-protein phosphatase.				intracellular signal transduction|protein dephosphorylation	intracellular	protein binding|protein tyrosine/serine/threonine phosphatase activity				0						TTGGGTGGAAAAGATCAGAAT	0.562													5	73	---	---	---	---	PASS	T	75630284	T	T	75630284	3	4	6	1	0	0	0	0	1	0	0	0	15360	14	1	5	215	5	STYXL1	7	75630284	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	1660562	75630284	83508379	169	4946										
CACNA2D1	781	broad.mit.edu	37	chr7	81591298	81591298	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttgttcagtaatgcagctctGcttggacagggaggccgtga	14	8	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:81591298G>A	uc003uhr.1	-	36	3134	c.2878C>T	c.(2878-2880)CAG>TAG	p.Q960*	CACNA2D1_uc011kgy.1_Nonsense_Mutation_p.Q172*	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	972	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	ATGCAGCTCTGCTTGGACAGG	0.448													9	54	---	---	---	---	PASS	A	81591298	A	A	81591298	4	1	6	1	0	0	0	0	0	1	0	0	2548	1328	46	3	413	3	CACNA2D1	7	81591298	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	5961014	81591298	77547365	170	4947										
SEMA3E	9723	broad.mit.edu	37	chr7	83037796	83037796	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctgtagagtccagcaaacaaTtcactacctacacgggagca	8	12	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:83037796T>C	uc003uhy.1	-	6	1024	c.558A>G	c.(556-558)GAA>GAG	p.E186E		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	186	Sema.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				CAGCAAACAATTCACTACCTA	0.423													14	24	---	---	---	---	PASS	C	83037796	C	C	83037796	2	2	6	1	0	0	0	0	0	0	0	1	14028	1490	52	5		5	SEMA3E	7	83037796	Silent	SNP	T	TCGA-18-3411-01A-01D-0983-08	1446498	83037796	76100867	171	4948										
DMTF1	9988	broad.mit.edu	37	chr7	86823124	86823124	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	attcagactgttgccacagaGgacatcacttcttccatatc	6	12	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:86823124G>T	uc003uih.2	+	16	2060	c.1734G>T	c.(1732-1734)GAG>GAT	p.E578D	DMTF1_uc003uii.2_Missense_Mutation_p.E312D|DMTF1_uc003uij.2_Missense_Mutation_p.E312D|DMTF1_uc011khb.1_Missense_Mutation_p.E490D|DMTF1_uc003uik.2_RNA|DMTF1_uc003uil.2_Missense_Mutation_p.E578D|DMTF1_uc003uin.2_Missense_Mutation_p.E312D	NM_001142327	NP_001135799	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	578	Interaction with CCND1, CCND2 and CCND3 (By similarity).|Required for transcriptional activation (By similarity).				cell cycle	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(14;0.0058)					TTGCCACAGAGGACATCACTT	0.423													7	103	---	---	---	---	PASS	T	86823124	T	T	86823124	3	4	6	1	0	0	0	0	1	0	0	0	4592	991	35	3	1788	3	DMTF1	7	86823124	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	3785328	86823124	72315539	172	4949										
STEAP2	261729	broad.mit.edu	37	chr7	89854850	89854850	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gatttaatgttgtctcagctTgggcacttcagttaggacct	10	8	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:89854850T>A	uc003ujz.2	+	2	847	c.454T>A	c.(454-456)TGG>AGG	p.W152R	STEAP2_uc003ujy.2_Missense_Mutation_p.W194R|STEAP2_uc010len.2_Missense_Mutation_p.W152R|STEAP2_uc003uka.2_Missense_Mutation_p.W152R|STEAP2_uc003ukb.2_Missense_Mutation_p.W152R|STEAP2_uc003ukc.2_Missense_Mutation_p.W152R|STEAP2_uc003ukd.2_Missense_Mutation_p.W152R	NM_152999	NP_694544	Q8NFT2	STEA2_HUMAN	six transmembrane epithelial antigen of the	152					electron transport chain|endocytosis|Golgi to plasma membrane transport|ion transport|iron ion homeostasis|regulated secretory pathway|response to hormone stimulus	cytosol|early endosome|endosome membrane|integral to Golgi membrane|plasma membrane|trans-Golgi network transport vesicle|vesicular fraction	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity|transporter activity			ovary(2)	2	all_hematologic(106;0.112)					TGTCTCAGCTTGGGCACTTCA	0.363													21	86	---	---	---	---	PASS	A	89854850	A	A	89854850	3	1	6	1	0	0	0	0	1	0	0	0	15277	1812	63	5	456	5	STEAP2	7	89854850	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	3031726	89854850	69283813	173	4950										
COL1A2	1278	broad.mit.edu	37	chr7	94038087	94038087	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctgctttgatttcagggtccCattgggtctgctggccctcc	11	13	2	1	rs1800227		TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:94038087C>T	uc003ung.1	+	16	1215	c.744C>T	c.(742-744)CCC>CCT	p.P248P	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	248					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TTCAGGGTCCCATTGGGTCTG	0.443										HNSCC(75;0.22)			10	20	---	---	---	---	PASS	T	94038087	T	T	94038087	2	4	6	1	0	0	0	0	0	0	0	1	3678	581	21	3		3	COL1A2	7	94038087	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	4183237	94038087	65100576	174	4951										
DYNC1I1	1780	broad.mit.edu	37	chr7	95606829	95606829	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctttcttttttctagaggatGaggaagatgaggaaatggtg	13	3	2	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:95606829G>T	uc003uoc.3	+	7	824	c.547G>T	c.(547-549)GAG>TAG	p.E183*	DYNC1I1_uc003uod.3_Nonsense_Mutation_p.E166*|DYNC1I1_uc003uob.2_Nonsense_Mutation_p.E146*|DYNC1I1_uc003uoe.3_Nonsense_Mutation_p.E163*|DYNC1I1_uc010lfl.2_Nonsense_Mutation_p.E172*	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	183					vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			TCTAGAGGATGAGGAAGATGA	0.378													4	27	---	---	---	---	PASS	T	95606829	T	T	95606829	4	4	6	1	0	0	0	0	0	1	0	0	4842	1291	45	2	569	2	DYNC1I1	7	95606829	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	1568742	95606829	63531834	175	4952										
PIK3CG	5294	broad.mit.edu	37	chr7	106545676	106545676	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aaagaagacattgaatatatCcgggatgccctcacagtggg	11	8	1	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:106545676C>T	uc003vdv.3	+	11	3238	c.3153C>T	c.(3151-3153)ATC>ATT	p.I1051I	PIK3CG_uc003vdu.2_Silent_p.I1051I|PIK3CG_uc003vdw.2_Silent_p.I1051I	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	1051	PI3K/PI4K.				G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding	p.I1051I(1)		lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						TTGAATATATCCGGGATGCCC	0.433													10	113	---	---	---	---	PASS	T	106545676	T	T	106545676	2	4	6	1	0	0	0	0	0	0	0	1	11916	845	30	2		2	PIK3CG	7	106545676	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	10938847	106545676	52592987	176	4953										
CTTNBP2	83992	broad.mit.edu	37	chr7	117432706	117432706	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctcctctatgactttgcctgAgagctgcttgcactctttga	8	12	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:117432706A>G	uc003vjf.2	-	4	636	c.544T>C	c.(544-546)TCA>CCA	p.S182P		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	182	Potential.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		ACTTTGCCTGAGAGCTGCTTG	0.517													6	77	---	---	---	---	PASS	G	117432706	G	G	117432706	3	3	6	1	0	0	0	0	1	0	0	0	4045	304	11	5	4527	5	CTTNBP2	7	117432706	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	10887030	117432706	41705957	177	4954										
ING3	54556	broad.mit.edu	37	chr7	120593375	120593375	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tagatgcaatggatcaactaGaacaaagagtcagtgaattc	9	6	2	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:120593375G>C	uc003vjn.2	+	3	252	c.118G>C	c.(118-120)GAA>CAA	p.E40Q	ING3_uc011knr.1_Missense_Mutation_p.E40Q|ING3_uc003vjl.2_Missense_Mutation_p.E40Q|ING3_uc003vjm.1_Missense_Mutation_p.E40Q|ING3_uc003vjo.2_5'UTR|ING3_uc003vjp.2_Missense_Mutation_p.E40Q|ING3_uc011kns.1_Missense_Mutation_p.E25Q	NM_019071	NP_061944	Q9NXR8	ING3_HUMAN	inhibitor of growth family, member 3 isoform 1	40					histone H2A acetylation|histone H4 acetylation|positive regulation of apoptosis|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|Piccolo NuA4 histone acetyltransferase complex	zinc ion binding			ovary(1)	1	all_neural(327;0.117)					GGATCAACTAGAACAAAGAGT	0.308													9	59	---	---	---	---	PASS	C	120593375	C	C	120593375	3	2	6	1	0	0	0	0	1	0	0	0	7737	943	33	2	128	2	ING3	7	120593375	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	3160669	120593375	38545288	178	4955										
TAS2R16	50833	broad.mit.edu	37	chr7	122635112	122635112	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gagaaagatggtggaggccaGgaacaggatgaaaggaataa	16	3	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:122635112G>A	uc003vkl.1	-	1	643	c.577C>T	c.(577-579)CTG>TTG	p.L193L		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	193	Helical; Name=5; (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						GTGGAGGCCAGGAACAGGATG	0.448													24	90	---	---	---	---	PASS	A	122635112	A	A	122635112	2	1	6	1	0	0	0	0	0	0	0	1	15566	991	35	3		3	TAS2R16	7	122635112	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	2041737	122635112	36503551	179	4956										
CNOT4	4850	broad.mit.edu	37	chr7	135073610	135073610	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtaatgaatgggaagaggttGacagtggcatggtcgaaacc	15	5	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:135073610G>T	uc003vsv.1	-	11	1971	c.1664C>A	c.(1663-1665)TCA>TAA	p.S555*	CNOT4_uc003vss.2_Intron|CNOT4_uc011kpz.1_Intron|CNOT4_uc003vst.2_Intron|CNOT4_uc003vsu.1_Nonsense_Mutation_p.S552*|CNOT4_uc011kpy.1_Intron	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	555					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						GGAAGAGGTTGACAGTGGCAT	0.463													12	56	---	---	---	---	PASS	T	135073610	T	T	135073610	4	4	6	1	0	0	0	0	0	1	0	0	3621	1294	45	2	373	2	CNOT4	7	135073610	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	12438498	135073610	24065053	180	4957										
CHRM2	1129	broad.mit.edu	37	chr7	136700851	136700851	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtgctcattaacaccttttgTgcaccttgcatccccaacac	5	15	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:136700851T>C	uc003vtf.1	+	4	1862	c.1239T>C	c.(1237-1239)TGT>TGC	p.C413C	CHRM2_uc003vtg.1_Silent_p.C413C|CHRM2_uc003vtj.1_Silent_p.C413C|CHRM2_uc003vtk.1_Silent_p.C413C|CHRM2_uc003vtl.1_Silent_p.C413C|CHRM2_uc003vtm.1_Silent_p.C413C|CHRM2_uc003vti.1_Silent_p.C413C|CHRM2_uc003vto.1_Silent_p.C413C|CHRM2_uc003vtn.1_Silent_p.C413C|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	413	Extracellular (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	ACACCTTTTGTGCACCTTGCA	0.473													17	64	---	---	---	---	PASS	C	136700851	C	C	136700851	2	2	6	1	0	0	0	0	0	0	0	1	3377	1702	59	5		5	CHRM2	7	136700851	Silent	SNP	T	TCGA-18-3411-01A-01D-0983-08	1627241	136700851	22437812	181	4958										
TRPV5	56302	broad.mit.edu	37	chr7	142627186	142627186	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	acatgtggtgggctcaaagaCcagctctggggcagcctcca	13	12	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:142627186C>T	uc003wby.1	-	3	580	c.316G>A	c.(316-318)GTC>ATC	p.V106I	TRPV5_uc003wbz.2_Missense_Mutation_p.V106I	NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	106	Cytoplasmic (Potential).|ANK 2.				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					GGCTCAAAGACCAGCTCTGGG	0.557													7	53	---	---	---	---	PASS	T	142627186	T	T	142627186	3	4	6	1	0	0	0	0	1	0	0	0	16596	507	18	3	1925	3	TRPV5	7	142627186	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	5926335	142627186	16511477	182	4959										
ABCF2	10061	broad.mit.edu	37	chr7	150921189	150921189	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cttcccaatagcagagagcaGcatggactttcctgagaggg	12	10	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:150921189G>A	uc003wjp.2	-	4	490	c.379C>T	c.(379-381)CTG>TTG	p.L127L	ABCF2_uc003wjo.1_Silent_p.L127L	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	127	ABC transporter 1.					ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCAGAGAGCAGCATGGACTTT	0.547													29	27	---	---	---	---	PASS	A	150921189	A	A	150921189	2	1	6	1	0	0	0	0	0	0	0	1	66	962	34	3		3	ABCF2	7	150921189	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	8294003	150921189	8217474	183	4960										
ABCF2	10061	broad.mit.edu	37	chr7	150921902	150921902	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aggccataacgacggcctgaGtttaattccagtttggtgtc	11	9	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr7:150921902G>A	uc003wjp.2	-	3	438	c.327C>T	c.(325-327)AAC>AAT	p.N109N	ABCF2_uc003wjo.1_Silent_p.N109N	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	109	ABC transporter 1.					ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GACGGCCTGAGTTTAATTCCA	0.488													36	45	---	---	---	---	PASS	A	150921902	A	A	150921902	2	1	6	1	0	0	0	0	0	0	0	1	66	1020	36	3		3	ABCF2	7	150921902	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	713	150921902	8216761	184	4961										
SH2D4A	63898	broad.mit.edu	37	chr8	19214747	19214747	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cttcaagaaatattcaacaaAtgttggcagattcaatcaat	5	7	4	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:19214747A>G	uc003wzb.2	+	5	883	c.547A>G	c.(547-549)ATG>GTG	p.M183V	SH2D4A_uc011kym.1_Missense_Mutation_p.M138V|SH2D4A_uc003wzc.2_Missense_Mutation_p.M183V	NM_022071	NP_071354	Q9H788	SH24A_HUMAN	SH2 domain containing 4A	183						cytoplasm|nucleus	protein binding				0				Colorectal(111;0.0732)		TATTCAACAAATGTTGGCAGA	0.403													32	18	---	---	---	---	PASS	G	19214747	G	G	19214747	3	3	6	1	0	0	0	0	1	0	0	0	14235	101	4	5	611	5	SH2D4A	8	19214747	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08		19214747	127149275	185	4962										
PPP3CC	5533	broad.mit.edu	37	chr8	22368619	22368619	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtcgaatcaaatattcggaaCaggtgtatgatgcctgtatg	11	6	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:22368619C>T	uc003xbs.2	+	5	832	c.505C>T	c.(505-507)CAG>TAG	p.Q169*	PPP3CC_uc003xbr.1_Nonsense_Mutation_p.Q169*|PPP3CC_uc011kzi.1_Nonsense_Mutation_p.Q169*|PPP3CC_uc003xbt.2_Nonsense_Mutation_p.Q169*	NM_005605	NP_005596	P48454	PP2BC_HUMAN	protein phosphatase 3, catalytic subunit, gamma	169					activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals	cytosol	calmodulin binding|metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		Prostate(55;0.104)		BRCA - Breast invasive adenocarcinoma(99;0.00756)|Colorectal(74;0.0238)|COAD - Colon adenocarcinoma(73;0.0835)		ATATTCGGAACAGGTGTATGA	0.398													10	87	---	---	---	---	PASS	T	22368619	T	T	22368619	4	4	6	1	0	0	0	0	0	1	0	0	12399	479	17	3	523	3	PPP3CC	8	22368619	Nonsense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	3153872	22368619	123995403	186	4963										
NRG1	3084	broad.mit.edu	37	chr8	32599566	32599566	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gagcaagatgtactgagaatGtgcccatgaaagtccaaaac	10	8	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:32599566G>T	uc003xiv.2	+	7	1190	c.673G>T	c.(673-675)GTG>TTG	p.V225L	NRG1_uc003xip.2_Intron|NRG1_uc010lvn.2_Intron|NRG1_uc003xis.2_Intron|NRG1_uc011lbf.1_Intron|NRG1_uc010lvo.2_Intron|NRG1_uc003xiu.2_Intron|NRG1_uc003xiw.2_Intron|NRG1_uc003xit.2_Missense_Mutation_p.V225L|NRG1_uc010lvr.2_Intron|NRG1_uc010lvs.2_Intron|NRG1_uc010lvp.2_Intron|NRG1_uc010lvq.2_Intron|NRG1_uc003xix.2_Missense_Mutation_p.V115L|NRG1_uc003xiy.2_Intron|NRG1_uc010lvt.2_Intron|NRG1_uc011lbg.1_Missense_Mutation_p.V71L|NRG1_uc011lbh.1_Intron|NRG1_uc003xiz.1_RNA|NRG1_uc003xja.2_Missense_Mutation_p.V28L	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	225	Extracellular (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		TACTGAGAATGTGCCCATGAA	0.403													33	12	---	---	---	---	PASS	T	32599566	T	T	32599566	3	4	6	1	0	0	0	0	1	0	0	0	10647	1377	48	3	2169	3	NRG1	8	32599566	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	10230947	32599566	113764456	187	4964										
POLB	5423	broad.mit.edu	37	chr8	42196567	42196567	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aagaacgtgagccaagctatCcacaagtacaatgcttacag	8	10	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:42196567C>T	uc003xoz.1	+	2	212	c.99C>T	c.(97-99)ATC>ATT	p.I33I	POLB_uc003xpa.1_Silent_p.I33I|POLB_uc011lcs.1_Intron	NM_002690	NP_002681	P06746	DPOLB_HUMAN	DNA-directed DNA polymerase beta	33					DNA-dependent DNA replication	cytoplasm|nucleoplasm|spindle microtubule	DNA-(apurinic or apyrimidinic site) lyase activity|DNA-directed DNA polymerase activity|enzyme binding|metal ion binding|microtubule binding			ovary(1)|breast(1)	2	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;2.58e-12)|Lung NSC(13;4.24e-11)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.1)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;3.18e-11)|Lung(22;0.00467)|OV - Ovarian serous cystadenocarcinoma(14;0.00523)|LUSC - Lung squamous cell carcinoma(45;0.024)		Cytarabine(DB00987)	GCCAAGCTATCCACAAGTACA	0.483								DNA_polymerases_(catalytic_subunits)					6	33	---	---	---	---	PASS	T	42196567	T	T	42196567	2	4	6	1	0	0	0	0	0	0	0	1	12189	845	30	2		2	POLB	8	42196567	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	9597001	42196567	104167455	188	4965										
RNF170	81790	broad.mit.edu	37	chr8	42729125	42729125	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cttactagctcctggttttcTgggtgaatgttttgatgtac	10	7	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:42729125T>C	uc003xpo.2	-	3	639	c.162A>G	c.(160-162)CCA>CCG	p.P54P	RNF170_uc011lcx.1_Silent_p.P54P|RNF170_uc010lxp.2_5'UTR|RNF170_uc003xpm.2_Silent_p.P54P|RNF170_uc003xpp.2_5'UTR|RNF170_uc003xpn.2_5'UTR|RNF170_uc003xpq.3_Silent_p.P54P	NM_001160223	NP_001153695	Q96K19	RN170_HUMAN	ring finger protein 170 isoform a	54						integral to membrane	zinc ion binding				0	all_lung(13;1.25e-11)|Lung NSC(13;3.55e-10)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00645)|Lung NSC(58;0.0176)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			CCTGGTTTTCTGGGTGAATGT	0.328													7	39	---	---	---	---	PASS	C	42729125	C	C	42729125	2	2	6	1	0	0	0	0	0	0	0	1	13462	1567	55	5		5	RNF170	8	42729125	Silent	SNP	T	TCGA-18-3411-01A-01D-0983-08	532558	42729125	103634897	189	4966										
HGSNAT	138050	broad.mit.edu	37	chr8	43033220	43033220	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aactagattctttttaggttTgtatttattatgggatcttc	7	4	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:43033220T>C	uc003xpx.3	+	10	903	c.855T>C	c.(853-855)TTT>TTC	p.F285F		NM_152419	NP_689632	Q68CP4	HGNAT_HUMAN	heparan-alpha-glucosaminide N-acetyltransferase	313	Helical; (Potential).				lysosomal transport|protein oligomerization	integral to membrane|lysosomal membrane	heparan-alpha-glucosaminide N-acetyltransferase activity				0	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			TTTTTAGGTTTGTATTTATTA	0.328													53	51	---	---	---	---	PASS	C	43033220	C	C	43033220	2	2	6	1	0	0	0	0	0	0	0	1	7088	1809	63	5		5	HGSNAT	8	43033220	Silent	SNP	T	TCGA-18-3411-01A-01D-0983-08	304095	43033220	103330802	190	4967										
PXDNL	137902	broad.mit.edu	37	chr8	52320691	52320691	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aagatcctcaaagttcttaaCtgaagtcaaattacagaaaa	5	7	3	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:52320691C>A	uc003xqu.3	-	17	3594	c.3493G>T	c.(3493-3495)GTT>TTT	p.V1165F	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1165					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				AAGTTCTTAACTGAAGTCAAA	0.398													8	45	---	---	---	---	PASS	A	52320691	A	A	52320691	3	1	6	1	0	0	0	0	1	0	0	0	12848	565	20	3	926	3	PXDNL	8	52320691	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	9287471	52320691	94043331	191	4968										
OPRK1	4986	broad.mit.edu	37	chr8	54142385	54142385	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aaggagcactcaatgacatcGacgtctggaggagggcaata	13	8	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:54142385G>A	uc003xrh.1	-	3	990	c.615C>T	c.(613-615)GTC>GTT	p.V205V	OPRK1_uc003xri.1_Silent_p.V205V|OPRK1_uc010lyc.1_Silent_p.V116V	NM_000912	NP_000903	P41145	OPRK_HUMAN	opioid receptor, kappa 1	205	Extracellular (Potential).				behavior|immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception|synaptic transmission|viral genome replication	integral to plasma membrane	kappa-opioid receptor activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Buprenorphine(DB00921)|Butorphanol(DB00611)|Cocaine(DB00907)|Codeine(DB00318)|Dezocine(DB01209)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Meperidine(DB00454)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Tramadol(DB00193)	CAATGACATCGACGTCTGGAG	0.423													5	42	---	---	---	---	PASS	A	54142385	A	A	54142385	2	1	6	1	0	0	0	0	0	0	0	1	10885	1045	37	2		2	OPRK1	8	54142385	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	1821694	54142385	92221637	192	4969										
NKAIN3	286183	broad.mit.edu	37	chr8	63659590	63659590	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgctgcctccctcagcccatGgcatgatggacgattacacg	10	14	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:63659590G>T	uc010lyq.1	+	4	505	c.373G>T	c.(373-375)GGC>TGC	p.G125C		NM_173688	NP_775959	Q8N8D7	NKAI3_HUMAN	Na+/K+ transporting ATPase interacting 3	125						integral to membrane|plasma membrane					0	Breast(64;0.127)	Lung NSC(129;0.187)				CTCAGCCCATGGCATGATGGA	0.507													7	37	---	---	---	---	PASS	T	63659590	T	T	63659590	3	4	6	1	0	0	0	0	1	0	0	0	10437	1348	47	3	387	3	NKAIN3	8	63659590	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	9517205	63659590	82704432	193	4970										
TRPA1	8989	broad.mit.edu	37	chr8	72948636	72948636	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggcagcacaaaaatgatgccCgtcgtgtagataatccattc	9	10	0	2	rs146434598	byFrequency	TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:72948636C>G	uc003xza.2	-	21	2617	c.2442G>C	c.(2440-2442)ACG>ACC	p.T814T	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	814	Helical; Name=3; (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AAATGATGCCCGTCGTGTAGA	0.353													5	44	---	---	---	---	PASS	G	72948636	G	G	72948636	2	3	6	1	0	0	0	0	0	0	0	1	16574	639	23	4		4	TRPA1	8	72948636	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	9289046	72948636	73415386	194	4971										
ZFHX4	79776	broad.mit.edu	37	chr8	77775400	77775400	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcgtctcctgccctgtctctCagcagtgcccccaccaaacc	6	20	3	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:77775400C>A	uc003yav.2	+	11	9702	c.9315C>A	c.(9313-9315)CTC>CTA	p.L3105L		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3101	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCCTGTCTCTCAGCAGTGCCC	0.423										HNSCC(33;0.089)			6	6	---	---	---	---	PASS	A	77775400	A	A	77775400	2	1	6	1	0	0	0	0	0	0	0	1	17632	813	29	2		2	ZFHX4	8	77775400	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	4826764	77775400	68588622	195	4972										
FAM92A1	137392	broad.mit.edu	37	chr8	94717142	94717142	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aatgccaatttgcaggatgaCctcaaagcaacactcacagc	7	12	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:94717142C>T	uc010maq.2	+	4	439	c.336C>T	c.(334-336)GAC>GAT	p.D112D	FAM92A1_uc003yfu.1_RNA|FAM92A1_uc003yfv.3_RNA	NM_145269	NP_660312	A1XBS5	F92A1_HUMAN	hypothetical protein LOC137392	112	Potential.										0	Breast(36;2.4e-06)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			TGCAGGATGACCTCAAAGCAA	0.308													22	49	---	---	---	---	PASS	T	94717142	T	T	94717142	2	4	6	1	0	0	0	0	0	0	0	1	5652	506	18	3		3	FAM92A1	8	94717142	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	16941742	94717142	51646880	196	4973										
VPS13B	157680	broad.mit.edu	37	chr8	100050736	100050736	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gacaaaactgggttcagaacCagtggtaattaccatcaata	8	8	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:100050736C>A	uc003yiv.2	+	3	344	c.233C>A	c.(232-234)CCA>CAA	p.P78Q	VPS13B_uc003yiw.2_Missense_Mutation_p.P78Q|VPS13B_uc003yit.2_Missense_Mutation_p.P78Q|VPS13B_uc003yiu.1_Missense_Mutation_p.P78Q|VPS13B_uc003yis.2_Missense_Mutation_p.P78Q|VPS13B_uc011lgy.1_5'UTR	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	78					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			GGTTCAGAACCAGTGGTAATT	0.318													4	29	---	---	---	---	PASS	A	100050736	A	A	100050736	3	1	6	1	0	0	0	0	1	0	0	0	17187	594	21	3	239	3	VPS13B	8	100050736	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	5333594	100050736	46313286	197	4974										
PABPC1	26986	broad.mit.edu	37	chr8	101719181	101719181	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tctcatagtactaaatggtgGtctaggagcagctgggcgga	14	7	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:101719181G>C	uc003yjs.1	-	10	1885	c.1381C>G	c.(1381-1383)CCA>GCA	p.P461A	PABPC1_uc011lhc.1_Missense_Mutation_p.P429A|PABPC1_uc011lhd.1_Missense_Mutation_p.P416A|PABPC1_uc003yjt.1_Missense_Mutation_p.P458A|PABPC1_uc003yju.2_Intron	NM_002568	NP_002559	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	461					mRNA polyadenylation|mRNA stabilization|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|translation	catalytic step 2 spliceosome|cytosol	nucleotide binding|poly(A) RNA binding|protein C-terminus binding|translation activator activity				0	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			CTAAATGGTGGTCTAGGAGCA	0.418													12	95	---	---	---	---	PASS	C	101719181	C	C	101719181	3	2	6	1	0	0	0	0	1	0	0	0	11363	1261	44	4	549	4	PABPC1	8	101719181	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	1668445	101719181	44644841	198	4975										
PKHD1L1	93035	broad.mit.edu	37	chr8	110461578	110461578	+	Frame_Shift_Del	DEL	G	-	-													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cttcactagggagctttggtGggggtcaaaccatgactgtg							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:110461578delG	uc003yne.2	+	40	6141	c.6037delG	c.(6037-6039)GGGfs	p.G2013fs		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2013	Extracellular (Potential).|IPT/TIG 13.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GAGCTTTGGTGGGGGTCAAAC	0.333										HNSCC(38;0.096)			20	12	---	---	---	---		-	110461578	-	-	110461578	7	5	6	1	0	1	0	1	0	0	0	0	11972	1348	47	0	6195	0	PKHD1L1	8	110461578	Frame_Shift_Del	DEL	G	TCGA-18-3411-01A-01D-0983-08	8742397	110461578	35902444	199	4976										
PKHD1L1	93035	broad.mit.edu	37	chr8	110495260	110495260	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atggaattccacattcaataTataaaactaagctctcagaa	4	8	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:110495260T>C	uc003yne.2	+	57	9606	c.9502T>C	c.(9502-9504)TAT>CAT	p.Y3168H		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3168	Extracellular (Potential).|G8 2.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ACATTCAATATATAAAACTAA	0.408										HNSCC(38;0.096)			18	26	---	---	---	---	PASS	C	110495260	C	C	110495260	3	2	6	1	0	0	0	0	1	0	0	0	11972	1406	49	5	9728	5	PKHD1L1	8	110495260	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	33682	110495260	35868762	200	4977										
RAD21	5885	broad.mit.edu	37	chr8	117862949	117862949	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tattagctgacagatatttgGaggttcttctgggggaagct	13	5	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:117862949G>T	uc003yod.2	-	12	1816	c.1528C>A	c.(1528-1530)CCA>ACA	p.P510T		NM_006265	NP_006256	O60216	RAD21_HUMAN	RAD21 homolog	510	Pro-rich.				apoptosis|cell division|chromosome segregation|double-strand break repair|mitotic metaphase/anaphase transition|mitotic prometaphase|protein localization to chromatin|reciprocal meiotic recombination|regulation of transcription from RNA polymerase II promoter	chromosome, centromeric region|cohesin complex|nuclear chromosome|nucleoplasm	protein binding			lung(1)|skin(1)	2	all_cancers(13;1.21e-21)|Lung NSC(37;0.000134)|Ovarian(258;0.0172)					CAGATATTTGGAGGTTCTTCT	0.328													6	71	---	---	---	---	PASS	T	117862949	T	T	117862949	3	4	6	1	0	0	0	0	1	0	0	0	12981	1174	41	2	379	2	RAD21	8	117862949	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	7367689	117862949	28501073	201	4978										
TAF2	6873	broad.mit.edu	37	chr8	120831664	120831664	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctaaatcattgatccttactCggtatattctacactgtttg	5	9	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:120831664C>A	uc003you.2	-	3	491	c.221G>T	c.(220-222)CGA>CTA	p.R74L		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	74					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GATCCTTACTCGGTATATTCT	0.343													5	100	---	---	---	---	PASS	A	120831664	A	A	120831664	3	1	6	1	0	0	0	0	1	0	0	0	15521	884	31	2	3474	2	TAF2	8	120831664	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2968715	120831664	25532358	202	4979										
LRRC6	23639	broad.mit.edu	37	chr8	133673830	133673830	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcctccagggaaaaaatgacAcagtcgttgtgttcagcatt	9	9	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:133673830A>G	uc003ytk.2	-	2	128	c.54T>C	c.(52-54)TGT>TGC	p.C18C	LRRC6_uc003ytl.2_RNA	NM_012472	NP_036604	Q86X45	LRRC6_HUMAN	leucine rich repeat containing 6	18						cytoplasm				ovary(1)|kidney(1)	2	Ovarian(258;0.00352)|Esophageal squamous(12;0.00507)|all_neural(3;0.0052)|Medulloblastoma(3;0.0922)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			AAAAAATGACACAGTCGTTGT	0.363													13	39	---	---	---	---	PASS	G	133673830	G	G	133673830	2	3	6	1	0	0	0	0	0	0	0	1	9016	157	6	5		5	LRRC6	8	133673830	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	12842166	133673830	12690192	203	4980										
TG	7038	broad.mit.edu	37	chr8	133900281	133900281	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gctttcctcaggacggtgcaGgccctgctctctaactccag	10	15	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:133900281G>T	uc003ytw.2	+	10	2270	c.2229G>T	c.(2227-2229)CAG>CAT	p.Q743H		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	743	Thyroglobulin type-1 7.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GGACGGTGCAGGCCCTGCTCT	0.532													9	33	---	---	---	---	PASS	T	133900281	T	T	133900281	3	4	6	1	0	0	0	0	1	0	0	0	15810	991	35	3	2267	3	TG	8	133900281	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	226451	133900281	12463741	204	4981										
SLC45A4	57210	broad.mit.edu	37	chr8	142228949	142228949	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gccgggctcctcagcgctgcGctcctgctgcgggctgtact	14	16	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr8:142228949G>A	uc003ywd.1	-	4	945	c.637C>T	c.(637-639)CGC>TGC	p.R213C	SLC45A4_uc003ywc.1_Missense_Mutation_p.R213C|SLC45A4_uc010meq.1_Missense_Mutation_p.R211C	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	264					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|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;0.0493)			TCAGCGCTGCGCTCCTGCTGC	0.662													26	35	---	---	---	---	PASS	A	142228949	A	A	142228949	3	1	6	1	0	0	0	0	1	0	0	0	14643	1087	38	1	1779	1	SLC45A4	8	142228949	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	8328668	142228949	4135073	205	4982										
CDKN2A	1029	broad.mit.edu	37	chr9	21971019	21971019	+	Frame_Shift_Del	DEL	C	-	-													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcctcagccaggtccacgggCagacggccccaggcatcgcg							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr9:21971019delC	uc003zpk.2	-	2	551	c.339delG	c.(337-339)CTGfs	p.L113fs	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Frame_Shift_Del_p.A169fs	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	113	ANK 4.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(13)|p.H83fs*2(2)|p.L113L(1)|p.L113M(1)|p.A68fs*3(1)|p.L113P(1)|p.R112fs*32(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		GGTCCACGGGCAGACGGCCCC	0.726		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			7	5	---	---	---	---		-	21971019	-	-	21971019	7	5	6	1	0	1	0	1	0	0	0	0	3161	710	25	0	139	0	CDKN2A	9	21971019	Frame_Shift_Del	DEL	C	TCGA-18-3411-01A-01D-0983-08		21971019	119242412	206	4983										
PCSK5	5125	broad.mit.edu	37	chr9	78794566	78794566	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgacgggccaggaccagaccActgcaatgactgtttgcact	11	12	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr9:78794566A>C	uc004ajz.2	+	15	2493	c.1955A>C	c.(1954-1956)CAC>CCC	p.H652P	PCSK5_uc004aka.2_RNA|PCSK5_uc004akb.2_5'Flank	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	652	CRM (Cys-rich motif).				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						GGACCAGACCACTGCAATGAC	0.478													5	25	---	---	---	---	PASS	C	78794566	C	C	78794566	3	2	6	1	0	0	0	0	1	0	0	0	11603	159	6	5	2013	5	PCSK5	9	78794566	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	56823547	78794566	62418865	207	4984										
FLJ46321	389763	broad.mit.edu	37	chr9	84609023	84609023	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccagttaaagttggtccagaGgaagcatagccaacctcaga	10	10	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr9:84609023G>T	uc004amn.2	+	4	3685	c.3638G>T	c.(3637-3639)AGG>ATG	p.R1213M		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1213						integral to membrane					0						TTGGTCCAGAGGAAGCATAGC	0.403													6	122	---	---	---	---	PASS	T	84609023	T	T	84609023	3	4	6	1	0	0	0	0	1	0	0	0	5932	1000	35	3	3652	3	FLJ46321	9	84609023	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	5814457	84609023	56604408	208	4985										
NR4A3	8013	broad.mit.edu	37	chr9	102626002	102626002	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aagggacaggctctggagccCaccgagtccaaggtcctggg	15	12	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr9:102626002C>A	uc004baf.1	+	8	2463	c.1734C>A	c.(1732-1734)CCC>CCA	p.P578P	NR4A3_uc004bag.1_Silent_p.P578P|NR4A3_uc004bai.2_Silent_p.P589P	NM_006981	NP_008912	Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	578					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		EWSR1/NR4A3(140)|TAF15/NR4A3(33)	bone(173)	173		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				CTCTGGAGCCCACCGAGTCCA	0.517			T	EWSR1	extraskeletal myxoid chondrosarcoma								13	19	---	---	---	---	PASS	A	102626002	A	A	102626002	2	1	6	1	0	0	0	0	0	0	0	1	10634	581	21	3		3	NR4A3	9	102626002	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	18016979	102626002	38587429	209	4986										
OR13C4	138804	broad.mit.edu	37	chr9	107289280	107289280	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggaggaggttgtatagcagaTatccaggaaagagaggttgc	16	4	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr9:107289280T>A	uc011lvn.1	-	1	211	c.211A>T	c.(211-213)ATC>TTC	p.I71F		NM_001001919	NP_001001919	Q8NGS5	O13C4_HUMAN	olfactory receptor, family 13, subfamily C,	71	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GTATAGCAGATATCCAGGAAA	0.438													11	71	---	---	---	---	PASS	A	107289280	A	A	107289280	3	1	6	1	0	0	0	0	1	0	0	0	10936	1406	49	5	747	5	OR13C4	9	107289280	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	4663278	107289280	33924151	210	4987										
SLC25A25	114789	broad.mit.edu	37	chr9	130854346	130854346	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	caccattttgctggtggttgGacctgcagagcagtttccta	11	10	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr9:130854346G>T	uc004btd.2	+	1	219	c.197G>T	c.(196-198)GGA>GTA	p.G66V	SLC25A25_uc004btb.2_Intron|SLC25A25_uc004btc.2_Missense_Mutation_p.G66V	NM_001006642	NP_001006643	Q6KCM7	SCMC2_HUMAN	solute carrier family 25, member 25 isoform c	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding				0						CTGGTGGTTGGACCTGCAGAG	0.542													35	20	---	---	---	---	PASS	T	130854346	T	T	130854346	3	4	6	1	0	0	0	0	1	0	0	0	14488	1174	41	2	464	2	SLC25A25	9	130854346	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	23565066	130854346	10359085	211	4988										
SPTAN1	6709	broad.mit.edu	37	chr9	131374420	131374420	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gccttagctgaccagtggcaGttcttggtgcaaaagtcagc	12	10	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr9:131374420G>A	uc004bvl.3	+	38	5036	c.4923G>A	c.(4921-4923)CAG>CAA	p.Q1641Q	SPTAN1_uc004bvm.3_Silent_p.Q1646Q|SPTAN1_uc004bvn.3_Silent_p.Q1621Q	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1641	Spectrin 17.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						ACCAGTGGCAGTTCTTGGTGC	0.493													16	60	---	---	---	---	PASS	A	131374420	A	A	131374420	2	1	6	1	0	0	0	0	0	0	0	1	15116	1020	36	3		3	SPTAN1	9	131374420	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	520074	131374420	9839011	212	4989										
GTF3C4	9329	broad.mit.edu	37	chr9	135554019	135554019	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tattgtggggagtgcttttgGacccataaaaattcttcctg	10	7	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr9:135554019G>T	uc010mzv.2	+	2	1271	c.1013G>T	c.(1012-1014)GGA>GTA	p.G338V	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	338					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		AGTGCTTTTGGACCCATAAAA	0.413													5	67	---	---	---	---	PASS	T	135554019	T	T	135554019	3	4	6	1	0	0	0	0	1	0	0	0	6875	1174	41	2	1019	2	GTF3C4	9	135554019	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	4179599	135554019	5659412	213	4990										
RXRA	6256	broad.mit.edu	37	chr9	137328331	137328331	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aggttcgctaagctcttgctCcgcctgccggctctgcgctc	11	16	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr9:137328331C>T	uc004cfb.2	+	10	1422	c.1260C>T	c.(1258-1260)CTC>CTT	p.L420L	RXRA_uc004cfc.1_Silent_p.L323L	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	420	Ligand-binding.				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)	AGCTCTTGCTCCGCCTGCCGG	0.612													38	14	---	---	---	---	PASS	T	137328331	T	T	137328331	2	4	6	1	0	0	0	0	0	0	0	1	13763	842	30	2		2	RXRA	9	137328331	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	1774312	137328331	3885100	214	4991										
CAMSAP1	157922	broad.mit.edu	37	chr9	138710429	138710429	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcgcgccgcgccttctcctcCtccttccgcacccggtcttc	7	22	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr9:138710429C>A	uc004cgr.3	-	13	3993	c.3993G>T	c.(3991-3993)GAG>GAT	p.E1331D	CAMSAP1_uc004cgq.3_Missense_Mutation_p.E1221D|CAMSAP1_uc010nbg.2_Missense_Mutation_p.E1053D	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1331						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		CCTTCTCCTCCTCCTTCCGCA	0.647													4	23	---	---	---	---	PASS	A	138710429	A	A	138710429	3	1	6	1	0	0	0	0	1	0	0	0	2611	680	24	3	835	3	CAMSAP1	9	138710429	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	1382098	138710429	2503002	215	4992										
DIP2C	22982	broad.mit.edu	37	chr10	373117	373117	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gacaagtccagccctcgcgcCtggagatgatgacagagaaa	12	11	0	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr10:373117C>A	uc001ifp.2	-	31	3844	c.3754_splice	c.e31-1	p.A1252_splice		NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C							nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GCCCTCGCGCCTGGAGATGAT	0.567													20	8	---	---	---	---	PASS	A	373117	A	A	373117	5	1	6	1	0	0	0	0	0	0	1	0	4529	695	24	3	945	3	DIP2C	10	373117	Splice_Site	SNP	C	TCGA-18-3411-01A-01D-0983-08		373117	135161630	216	4993										
STAM	8027	broad.mit.edu	37	chr10	17746497	17746497	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgatgatcagccagacctacCagagctgcttcatcttgaag	9	11	3	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr10:17746497C>A	uc001ipj.1	+	10	1196	c.980C>A	c.(979-981)CCA>CAA	p.P327Q	STAM_uc009xjw.1_Missense_Mutation_p.Q25K	NM_003473	NP_003464	Q92783	STAM1_HUMAN	signal transducing adaptor molecule 1	327					cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	SH3/SH2 adaptor activity			large_intestine(1)|ovary(1)	2						CCAGACCTACCAGAGCTGCTT	0.373													5	57	---	---	---	---	PASS	A	17746497	A	A	17746497	3	1	6	1	0	0	0	0	1	0	0	0	15247	594	21	3	1018	3	STAM	10	17746497	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	17373380	17746497	117788250	217	4994										
KIAA1462	57608	broad.mit.edu	37	chr10	30316392	30316392	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gggctctccggcacccacatCctcggctgtggctcaaccct	10	18	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr10:30316392C>T	uc001iux.2	-	2	2744	c.2685G>A	c.(2683-2685)AGG>AGA	p.R895R	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Silent_p.R757R|KIAA1462_uc009xle.1_Silent_p.R895R	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	895										ovary(4)	4						GCACCCACATCCTCGGCTGTG	0.637													10	42	---	---	---	---	PASS	T	30316392	T	T	30316392	2	4	6	1	0	0	0	0	0	0	0	1	8234	854	30	2		2	KIAA1462	10	30316392	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	12569895	30316392	105218355	218	4995										
PARD3	56288	broad.mit.edu	37	chr10	34625161	34625161	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tccactgtattgagtttagtCtcgtcagctactgttaaaag	8	8	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr10:34625161C>T	uc010qej.1	-	18	2580	c.2580G>A	c.(2578-2580)GAG>GAA	p.E860E	PARD3_uc010qek.1_Silent_p.E857E|PARD3_uc010qel.1_Silent_p.E860E|PARD3_uc010qem.1_Silent_p.E844E|PARD3_uc010qen.1_Silent_p.E814E|PARD3_uc010qeo.1_Silent_p.E814E|PARD3_uc010qep.1_Silent_p.E770E|PARD3_uc010qeq.1_Intron|PARD3_uc001ixo.1_Silent_p.E573E|PARD3_uc001ixp.1_Silent_p.E691E|PARD3_uc001ixq.1_Silent_p.E814E|PARD3_uc001ixr.1_Silent_p.E857E|PARD3_uc001ixt.1_Silent_p.E678E|PARD3_uc001ixu.1_Silent_p.E802E|PARD3_uc001ixs.1_Silent_p.E483E	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	860	Interacts with PRKCZ (By similarity).				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)				TGAGTTTAGTCTCGTCAGCTA	0.408													13	11	---	---	---	---	PASS	T	34625161	T	T	34625161	2	4	6	1	0	0	0	0	0	0	0	1	11443	912	32	2		2	PARD3	10	34625161	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	4308769	34625161	100909586	219	4996										
ZNF33B	7582	broad.mit.edu	37	chr10	43089100	43089100	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtttctgccctgtgtgtgttCtctgatgtttagtgaggtca	12	7	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr10:43089100C>T	uc001jaf.1	-	5	1413	c.1298G>A	c.(1297-1299)AGA>AAA	p.R433K	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Missense_Mutation_p.R321K|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	433	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TGTGTGTGTTCTCTGATGTTT	0.418													15	54	---	---	---	---	PASS	T	43089100	T	T	43089100	3	4	6	1	0	0	0	0	1	0	0	0	17852	913	32	2	1042	2	ZNF33B	10	43089100	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	8463939	43089100	92445647	220	4997										
P4HA1	5033	broad.mit.edu	37	chr10	74831843	74831843	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cactccactcagtattcagaCgtttcattaatttgaatgca	5	10	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr10:74831843C>T	uc010qka.1	-	5	603	c.269G>A	c.(268-270)CGT>CAT	p.R90H	P4HA1_uc001jtg.2_Missense_Mutation_p.R90H|P4HA1_uc001jth.2_Missense_Mutation_p.R90H|P4HA1_uc010qkb.1_Missense_Mutation_p.R90H|P4HA1_uc001jti.2_RNA	NM_001142595	NP_001136067	P13674	P4HA1_HUMAN	prolyl 4-hydroxylase, alpha I subunit isoform 2	90						endoplasmic reticulum lumen|mitochondrion	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			ovary(1)	1	Prostate(51;0.0198)				Hydralazine(DB01275)|L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	AGTATTCAGACGTTTCATTAA	0.408													14	61	---	---	---	---	PASS	T	74831843	T	T	74831843	3	4	6	1	0	0	0	0	1	0	0	0	11356	536	19	1	1458	1	P4HA1	10	74831843	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	31742743	74831843	60702904	221	4998										
ANXA11	311	broad.mit.edu	37	chr10	81928846	81928847	+	Frame_Shift_Ins	INS	-	G	G													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agggtaggtcactggtggctINSgcccagggtaggcccctggg							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr10:81928846_81928847insG	uc001kbq.1	-	6	1264_1265	c.439_440insC	c.(439-441)CAGfs	p.Q147fs	ANXA11_uc010qlx.1_Frame_Shift_Ins_p.Q247fs|ANXA11_uc001kbr.1_Frame_Shift_Ins_p.Q147fs|ANXA11_uc001kbs.1_Frame_Shift_Ins_p.Q147fs|ANXA11_uc001kbt.1_Frame_Shift_Ins_p.Q147fs|ANXA11_uc010qly.1_Frame_Shift_Ins_p.Q114fs|ANXA11_uc009xsq.1_Frame_Shift_Ins_p.Q147fs|ANXA11_uc001kbu.1_Frame_Shift_Ins_p.Q147fs	NM_145869	NP_665876	P50995	ANX11_HUMAN	annexin A11	147					cell cycle|cytokinesis, completion of separation|phagocytosis|response to calcium ion	azurophil granule|melanosome|midbody|nuclear envelope|nucleoplasm|phagocytic vesicle|specific granule|spindle	calcium-dependent phospholipid binding|calcium-dependent protein binding|S100 alpha binding			ovary(1)	1	Prostate(51;0.00985)|all_epithelial(25;0.0951)		Colorectal(32;0.109)			CACTGGTGGCTGCCCAGGGTAG	0.698													4	2	---	---	---	---		G	81928847	G	G	81928846	7	5	6	1	0	1	1	0	0	0	0	0	716	1580	55	0	1125	0	ANXA11	10	81928846	Frame_Shift_Ins	INS	-	TCGA-18-3411-01A-01D-0983-08	7097003	81928846	53605901	222	4999										
NRG3	10718	broad.mit.edu	37	chr10	84745267	84745267	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cagtgcaagcgaaaacacagCctttctccccctgagtccca	7	16	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr10:84745267C>A	uc001kco.2	+	9	2024	c.1997C>A	c.(1996-1998)GCC>GAC	p.A666D	NRG3_uc010qlz.1_Missense_Mutation_p.A665D|NRG3_uc001kcp.2_Missense_Mutation_p.A469D|NRG3_uc001kcq.2_Missense_Mutation_p.A316D|NRG3_uc001kcr.2_Missense_Mutation_p.A340D	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	690	Cytoplasmic (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)		GAAAACACAGCCTTTCTCCCC	0.493													5	37	---	---	---	---	PASS	A	84745267	A	A	84745267	3	1	6	1	0	0	0	0	1	0	0	0	10649	739	26	3	2275	3	NRG3	10	84745267	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2816421	84745267	50789480	223	5000										
CUTC	51076	broad.mit.edu	37	chr10	101503802	101503802	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttctttttatagctatttgcCgccctctgccagtcactttc	5	13	3	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr10:101503802C>G	uc001kqd.3	+	5	560	c.412C>G	c.(412-414)CGC>GGC	p.R138G	CUTC_uc010qpk.1_Missense_Mutation_p.R138G|CUTC_uc001kqe.3_RNA	NM_015960	NP_057044	Q9NTM9	CUTC_HUMAN	cutC copper transporter homolog	138					copper ion homeostasis|copper ion transport|protein tetramerization	cytoplasm|nucleus	copper ion binding			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3e-10)|all cancers(201;2.37e-08)		AGCTATTTGCCGCCCTCTGCC	0.338													5	30	---	---	---	---	PASS	G	101503802	G	G	101503802	3	3	6	1	0	0	0	0	1	0	0	0	4063	652	23	4	430	4	CUTC	10	101503802	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	16758535	101503802	34030945	224	5001										
SH3PXD2A	9644	broad.mit.edu	37	chr10	105372887	105372887	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aggttcttcttccgggttggCaggtcatccttggccttctt	11	11	4	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr10:105372887C>A	uc001kxj.1	-	11	1037	c.897G>T	c.(895-897)CTG>CTT	p.L299L	SH3PXD2A_uc010qqr.1_Silent_p.L189L|SH3PXD2A_uc010qqs.1_Silent_p.L134L|SH3PXD2A_uc010qqt.1_Silent_p.L176L|SH3PXD2A_uc009xxn.1_Silent_p.L134L|SH3PXD2A_uc010qqu.1_Silent_p.L242L	NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	327					cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)		TCCGGGTTGGCAGGTCATCCT	0.557													36	29	---	---	---	---	PASS	A	105372887	A	A	105372887	2	1	6	1	0	0	0	0	0	0	0	1	14256	697	25	3		3	SH3PXD2A	10	105372887	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	3869085	105372887	30161860	225	5002										
COL17A1	1308	broad.mit.edu	37	chr10	105807833	105807833	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gatgagtgaccaacctcttgGgccttggtgtccgtctgggc	14	11	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr10:105807833G>A	uc001kxr.2	-	30	2426	c.2257C>T	c.(2257-2259)CCA>TCA	p.P753S		NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	753	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		CAACCTCTTGGGCCTTGGTGT	0.582													29	117	---	---	---	---	PASS	A	105807833	A	A	105807833	3	1	6	1	0	0	0	0	1	0	0	0	3674	1232	43	3	2344	3	COL17A1	10	105807833	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	434946	105807833	29726914	226	5003										
FAM160B1	57700	broad.mit.edu	37	chr10	116595985	116595985	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agctgaaacaggacccctacCtggttaactttttcctagag	8	11	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr10:116595985C>A	uc001lcb.2	+	5	837	c.502C>A	c.(502-504)CTG>ATG	p.L168M	FAM160B1_uc001lcc.2_Missense_Mutation_p.L168M	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	168										lung(1)	1						GGACCCCTACCTGGTTAACTT	0.328													6	124	---	---	---	---	PASS	A	116595985	A	A	116595985	3	1	6	1	0	0	0	0	1	0	0	0	5470	680	24	3	520	3	FAM160B1	10	116595985	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	10788152	116595985	18938762	227	5004										
TNNI2	7136	broad.mit.edu	37	chr11	1862288	1862288	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	acatgaaccagaagctatttGatctgcggggcaagttcaag	11	8	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:1862288G>T	uc010qxe.1	+	5	326	c.304G>T	c.(304-306)GAT>TAT	p.D102Y	TNNI2_uc010qxc.1_Missense_Mutation_p.D100Y|TNNI2_uc010qxd.1_Missense_Mutation_p.D100Y	NM_001145841	NP_001139313	P48788	TNNI2_HUMAN	fast-twitch skeletal muscle troponin I isoform	102	Involved in binding TNC and actin.				muscle filament sliding|positive regulation of transcription, DNA-dependent|skeletal muscle contraction	cytosol|nucleus|troponin complex	actin binding|troponin T binding				0		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GAAGCTATTTGATCTGCGGGG	0.592													10	4	---	---	---	---	PASS	T	1862288	T	T	1862288	3	4	6	1	0	0	0	0	1	0	0	0	16324	1290	45	2	341	2	TNNI2	11	1862288	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08		1862288	133144228	228	5005										
TNNT3	7140	broad.mit.edu	37	chr11	1959678	1959678	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccatttgcagcagcaagaagGctgggaccccagccaagggc	13	13	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:1959678G>C	uc001luu.3	+	16	945	c.733G>C	c.(733-735)GCT>CCT	p.A245P	TNNT3_uc001luw.3_Missense_Mutation_p.A237P|TNNT3_uc001luo.3_Missense_Mutation_p.A237P|TNNT3_uc001lup.3_Missense_Mutation_p.A243P|TNNT3_uc001luq.3_Missense_Mutation_p.A237P|TNNT3_uc001lur.2_Missense_Mutation_p.A237P|TNNT3_uc010qxf.1_Missense_Mutation_p.A243P|TNNT3_uc010qxg.1_Missense_Mutation_p.A177P	NM_006757	NP_006748	P45378	TNNT3_HUMAN	troponin T3, skeletal, fast isoform 1	256					muscle filament sliding|regulation of ATPase activity|regulation of striated muscle contraction|skeletal muscle contraction	cytosol|troponin complex	calcium-dependent protein binding|tropomyosin binding|troponin C binding|troponin I binding			ovary(1)	1		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00253)|Lung(200;0.0333)|LUSC - Lung squamous cell carcinoma(625;0.0826)		CAGCAAGAAGGCTGGGACCCC	0.662													4	26	---	---	---	---	PASS	C	1959678	C	C	1959678	3	2	6	1	0	0	0	0	1	0	0	0	16329	1203	42	4	877	4	TNNT3	11	1959678	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	97390	1959678	133046838	229	5006										
OR52B4	143496	broad.mit.edu	37	chr11	4388990	4388990	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggccaatgtgttcacaaaagGtgtgtggaataatattattc	10	5	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:4388990G>A	uc010qye.1	-	1	536	c.536C>T	c.(535-537)ACC>ATC	p.T179I		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	179	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0249)|all_neural(188;0.0577)		Epithelial(150;1.57e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0826)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTCACAAAAGGTGTGTGGAAT	0.348													43	14	---	---	---	---	PASS	A	4388990	A	A	4388990	3	1	6	1	0	0	0	0	1	0	0	0	11112	1261	44	3	412	3	OR52B4	11	4388990	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	2429312	4388990	130617526	230	5007										
OR10A4	283297	broad.mit.edu	37	chr11	6898522	6898522	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tctctttcctttcttgctgaTcctgggatcctatgtccgca	7	13	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:6898522T>A	uc010rat.1	+	1	644	c.644T>A	c.(643-645)ATC>AAC	p.I215N		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	215	Helical; Name=5; (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)		TTCTTGCTGATCCTGGGATCC	0.522													34	19	---	---	---	---	PASS	A	6898522	A	A	6898522	3	1	6	1	0	0	0	0	1	0	0	0	10892	1435	50	5	646	5	OR10A4	11	6898522	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	2509532	6898522	128107994	231	5008										
PDE3B	5140	broad.mit.edu	37	chr11	14666331	14666331	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtgggtctccttcaccagccTcgggtcgctgccctccgccc	11	19	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:14666331T>C	uc001mln.2	+	1	1063	c.710T>C	c.(709-711)CTC>CCC	p.L237P	PDE3B_uc001mlm.2_Missense_Mutation_p.L237P|PDE3B_uc010rcr.1_Missense_Mutation_p.L237P|PSMA1_uc001mll.2_5'Flank	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	237	Helical; (Potential).				cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						TTCACCAGCCTCGGGTCGCTG	0.692													7	2	---	---	---	---	PASS	C	14666331	C	C	14666331	3	2	6	1	0	0	0	0	1	0	0	0	11638	1551	54	5	712	5	PDE3B	11	14666331	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	7767809	14666331	120340185	232	5009										
LDHC	3948	broad.mit.edu	37	chr11	18456380	18456380	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tctagactctgcccgtttccGttacctaattggagaaaagt	8	10	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:18456380G>A	uc001mon.3	+	5	624	c.512G>A	c.(511-513)CGT>CAT	p.R171H	LDHC_uc001mom.3_Missense_Mutation_p.R171H|LDHC_uc009yhp.2_Missense_Mutation_p.R171H|LDHC_uc001moo.3_Missense_Mutation_p.R55H|LDHC_uc009yhq.2_RNA|LDHC_uc009yhr.2_Missense_Mutation_p.R55H	NM_017448	NP_059144	P07864	LDHC_HUMAN	L-lactate dehydrogenase C	171					glycolysis	cytoplasm	binding|L-lactate dehydrogenase activity				0					NADH(DB00157)	GCCCGTTTCCGTTACCTAATT	0.373													42	23	---	---	---	---	PASS	A	18456380	A	A	18456380	3	1	6	1	0	0	0	0	1	0	0	0	8702	1145	40	1	526	1	LDHC	11	18456380	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	3790049	18456380	116550136	233	5010										
TSPAN18	90139	broad.mit.edu	37	chr11	44939553	44939553	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcatcctgatcatcttcctgGcagagctctcagcagccatc	7	15	4	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:44939553G>T	uc001mye.3	+	4	450	c.289G>T	c.(289-291)GCA>TCA	p.A97S	TP53I11_uc001myf.1_Intron|TSPAN18_uc001myg.2_Missense_Mutation_p.A97S	NM_130783	NP_570139	Q96SJ8	TSN18_HUMAN	tetraspanin 18 isoform 2	97	Helical; (Potential).					integral to membrane					0						CATCTTCCTGGCAGAGCTCTC	0.582													29	18	---	---	---	---	PASS	T	44939553	T	T	44939553	3	4	6	1	0	0	0	0	1	0	0	0	16639	1203	42	3	299	3	TSPAN18	11	44939553	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	26483173	44939553	90066963	234	5011										
RAPSN	5913	broad.mit.edu	37	chr11	47464329	47464329	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	catagttgttgacaagctctGccgccttgcaggggaagaac	12	10	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:47464329G>T	uc001nfi.1	-	3	783	c.569C>A	c.(568-570)GCA>GAA	p.A190E	RAPSN_uc001nfj.1_Missense_Mutation_p.A190E|RAPSN_uc009yls.1_Missense_Mutation_p.A190E	NM_005055	NP_005046	Q13702	RAPSN_HUMAN	43 kD receptor-associated protein of the synapse	190	TPR 4.				synaptic transmission, cholinergic	cell junction|cytoskeleton|postsynaptic membrane	acetylcholine receptor binding|zinc ion binding			ovary(1)	1						GACAAGCTCTGCCGCCTTGCA	0.612													4	70	---	---	---	---	PASS	T	47464329	T	T	47464329	3	4	6	1	0	0	0	0	1	0	0	0	13051	1319	46	3	693	3	RAPSN	11	47464329	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	2524776	47464329	87542187	235	5012										
OR4A15	81328	broad.mit.edu	37	chr11	55136154	55136154	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gaagggaaacgaaaagctttCtacacctgtgcatcccacgt	9	11	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:55136154C>A	uc010rif.1	+	1	795	c.795C>A	c.(793-795)TTC>TTA	p.F265L		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	265	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GAAAAGCTTTCTACACCTGTG	0.428													66	30	---	---	---	---	PASS	A	55136154	A	A	55136154	3	1	6	1	0	0	0	0	1	0	0	0	11040	912	32	2	797	2	OR4A15	11	55136154	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	7671825	55136154	79870362	236	5013										
OR4C15	81309	broad.mit.edu	37	chr11	55322087	55322087	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gctaattgtagtaaccattcTcagcagccctgctcttctgg	8	12	3	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:55322087T>C	uc010rig.1	+	1	305	c.305T>C	c.(304-306)CTC>CCC	p.L102P		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	48	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GTAACCATTCTCAGCAGCCCT	0.428										HNSCC(20;0.049)			59	32	---	---	---	---	PASS	C	55322087	C	C	55322087	3	2	6	1	0	0	0	0	1	0	0	0	11048	1551	54	5	307	5	OR4C15	11	55322087	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	185933	55322087	79684429	237	5014										
OR5J2	282775	broad.mit.edu	37	chr11	55944825	55944825	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttctccacctgtgcctctcaCctgactgctgtgaccatatt	6	15	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:55944825C>A	uc010rjb.1	+	1	732	c.732C>A	c.(730-732)CAC>CAA	p.H244Q		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					GTGCCTCTCACCTGACTGCTG	0.443													53	19	---	---	---	---	PASS	A	55944825	A	A	55944825	3	1	6	1	0	0	0	0	1	0	0	0	11165	506	18	3	734	3	OR5J2	11	55944825	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	622738	55944825	79061691	238	5015										
OR5T1	390155	broad.mit.edu	37	chr11	56043229	56043229	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aatttgatgtgcaagtcttcCtatttttattatttttagca	5	5	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:56043229C>A	uc001nio.1	+	1	115	c.115C>A	c.(115-117)CTA>ATA	p.L39I		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					GCAAGTCTTCCTATTTTTATT	0.333													5	61	---	---	---	---	PASS	A	56043229	A	A	56043229	3	1	6	1	0	0	0	0	1	0	0	0	11181	680	24	3	117	3	OR5T1	11	56043229	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	98404	56043229	78963287	239	5016										
OR8J1	219477	broad.mit.edu	37	chr11	56128066	56128066	+	Missense_Mutation	SNP	T	G	G													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgtatcggaggtaatcatgcTggctttgatggcctatgacc							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:56128066T>G	uc010rjh.1	+	1	344	c.344T>G	c.(343-345)CTG>CGG	p.L115R		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GTAATCATGCTGGCTTTGATG	0.473													50	31	---	---	---	---	PASS	G	56128066	G	G	56128066	3	3	6	1	0	0	0	0	1	0	0	0	11241	1580	55	5	346	5	OR8J1	11	56128066	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	84837	56128066	78878450	240	5017	206	2								
OR8J1	219477	broad.mit.edu	37	chr11	56128067	56128067	+	Silent	SNP	G	T	T													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtatcggaggtaatcatgctGgctttgatggcctatgaccg							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:56128067G>T	uc010rjh.1	+	1	345	c.345G>T	c.(343-345)CTG>CTT	p.L115L		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TAATCATGCTGGCTTTGATGG	0.468													47	34	---	---	---	---	PASS	T	56128067	T	T	56128067	2	4	6	1	0	0	0	0	0	0	0	1	11241	1335	47	3		3	OR8J1	11	56128067	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	1	56128067	78878449	241	5018	206	2								
FAM111B	374393	broad.mit.edu	37	chr11	58893299	58893299	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctactggtttgatttatttaAttggtcatcctgaaggccag	9	7	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:58893299A>G	uc001nnl.2	+	4	1972	c.1729A>G	c.(1729-1731)ATT>GTT	p.I577V	FAM111B_uc001nnm.2_Missense_Mutation_p.I547V|FAM111B_uc010rko.1_Missense_Mutation_p.I547V	NM_198947	NP_945185	Q6SJ93	F111B_HUMAN	hypothetical protein LOC374393 isoform a	577							catalytic activity			ovary(2)	2						GATTTATTTAATTGGTCATCC	0.363													9	42	---	---	---	---	PASS	G	58893299	G	G	58893299	3	3	6	1	0	0	0	0	1	0	0	0	5400	101	4	5	1735	5	FAM111B	11	58893299	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	2765232	58893299	76113217	242	5019										
ZBTB3	79842	broad.mit.edu	37	chr11	62520528	62520528	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggtgcccgcagatgtggtgcGtcaacctccatgccaggctg	14	13	1	1	rs148738930		TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:62520528G>A	uc001nuz.2	-	2	881	c.759C>T	c.(757-759)GAC>GAT	p.D253D		NM_024784	NP_079060	Q9H5J0	ZBTB3_HUMAN	zinc finger and BTB domain containing 3	253	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3						GATGTGGTGCGTCAACCTCCA	0.552													5	21	---	---	---	---	PASS	A	62520528	A	A	62520528	2	1	6	1	0	0	0	0	0	0	0	1	17531	1136	40	1		1	ZBTB3	11	62520528	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	3627229	62520528	72485988	243	5020										
RPS6KA4	8986	broad.mit.edu	37	chr11	64126861	64126861	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgcccacagccaacctgaccGggcacgaggagaaggtgagc	14	13	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:64126861G>T	uc001oae.2	+	2	150	c.67G>T	c.(67-69)GGG>TGG	p.G23W	RPS6KA4_uc001oad.2_Missense_Mutation_p.G23W|RPS6KA4_uc010rnl.1_5'UTR|RPS6KA4_uc001oaf.2_Missense_Mutation_p.G23W|RPS6KA4_uc009ypp.2_Missense_Mutation_p.G23W	NM_003942	NP_003933	O75676	KS6A4_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	23					axon guidance|histone phosphorylation|interleukin-1-mediated signaling pathway|intracellular protein kinase cascade|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|magnesium ion binding|mitogen-activated protein kinase p38 binding|ribosomal protein S6 kinase activity			lung(3)|ovary(1)|breast(1)	5						CAACCTGACCGGGCACGAGGA	0.711													3	4	---	---	---	---	PASS	T	64126861	T	T	64126861	3	4	6	1	0	0	0	0	1	0	0	0	13653	1116	39	1	73	1	RPS6KA4	11	64126861	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	1606333	64126861	70879655	244	5021										
MUS81	80198	broad.mit.edu	37	chr11	65632525	65632525	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccgcccctggggaacccctgGgaaccctgaatcaggggcca	13	16	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:65632525G>T	uc001ofv.3	+	13	1663	c.1310G>T	c.(1309-1311)GGG>GTG	p.G437V	MUS81_uc001ofw.3_Intron|MUS81_uc001ofx.3_5'UTR	NM_025128	NP_079404	Q96NY9	MUS81_HUMAN	MUS81 endonuclease homolog	437					DNA recombination|DNA repair	nucleolus	3'-flap endonuclease activity|DNA binding|metal ion binding|protein binding				0				READ - Rectum adenocarcinoma(159;0.166)		GGAACCCCTGGGAACCCTGAA	0.602								Homologous_recombination					6	151	---	---	---	---	PASS	T	65632525	T	T	65632525	3	4	6	1	0	0	0	0	1	0	0	0	9988	1232	43	3	1360	3	MUS81	11	65632525	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	1505664	65632525	69373991	245	5022										
C2CD3	26005	broad.mit.edu	37	chr11	73768589	73768589	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tccgctctgtcaaggggctcCctgaaatagaataaagtgca	10	10	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:73768589C>A	uc001ouu.2	-	25	5179	c.4952G>T	c.(4951-4953)GGG>GTG	p.G1651V	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1651	C2 2.					centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					CAAGGGGCTCCCTGAAATAGA	0.458													6	60	---	---	---	---	PASS	A	73768589	A	A	73768589	3	1	6	1	0	0	0	0	1	0	0	0	2154	637	22	3	967	3	C2CD3	11	73768589	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	8136064	73768589	61237927	246	5023										
SFRS2B	10929	broad.mit.edu	37	chr11	94800939	94800939	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gatctcgctacagggaatctCgctacggcggatctcactac	10	13	3	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:94800939C>A	uc001pff.2	+	2	885	c.550C>A	c.(550-552)CGC>AGC	p.R184S	SFRS2B_uc001pfg.1_5'Flank	NM_032102	NP_115285	Q9BRL6	SRSF8_HUMAN	splicing factor, arginine/serine-rich 2B	184	Arg-rich.				mRNA processing|RNA splicing	nucleus	nucleotide binding|RNA binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CAGGGAATCTCGCTACGGCGG	0.567													5	61	---	---	---	---	PASS	A	94800939	A	A	94800939	3	1	6	1	0	0	0	0	1	0	0	0	14176	871	31	2	551	2	SFRS2B	11	94800939	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	21032350	94800939	40205577	247	5024										
DSCAML1	57453	broad.mit.edu	37	chr11	117321399	117321399	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tttgatgccagcagggggacCtggaactgagcagggagaag	17	7	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:117321399C>T	uc001prh.1	-	20	3756	c.3754G>A	c.(3754-3756)GGT>AGT	p.G1252S		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1192	Extracellular (Potential).|Fibronectin type-III 4.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GCAGGGGGACCTGGAACTGAG	0.567													4	22	---	---	---	---	PASS	T	117321399	T	T	117321399	3	4	6	1	0	0	0	0	1	0	0	0	4769	681	24	3	2643	3	DSCAML1	11	117321399	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	22520460	117321399	17685117	248	5025										
OR10S1	219873	broad.mit.edu	37	chr11	123848350	123848350	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gctcaccacagtctggttggGgttctccgttgtcatggtca	12	11	5	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:123848350G>A	uc001pzm.1	-	1	49	c.49C>T	c.(49-51)CCC>TCC	p.P17S		NM_001004474	NP_001004474	Q8NGN2	O10S1_HUMAN	olfactory receptor, family 10, subfamily S,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GTCTGGTTGGGGTTCTCCGTT	0.478													42	18	---	---	---	---	PASS	A	123848350	A	A	123848350	3	1	6	1	0	0	0	0	1	0	0	0	10918	1232	43	3	950	3	OR10S1	11	123848350	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	6526951	123848350	11158166	249	5026										
OR10G9	219870	broad.mit.edu	37	chr11	123893737	123893737	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gaaatgtccaagaccagcctCgtgacagcgttcatcctcac	8	14	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:123893737C>G	uc010sad.1	+	1	18	c.18C>G	c.(16-18)CTC>CTG	p.L6L		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		AGACCAGCCTCGTGACAGCGT	0.532													61	38	---	---	---	---	PASS	G	123893737	G	G	123893737	2	3	6	1	0	0	0	0	0	0	0	1	10904	871	31	2		2	OR10G9	11	123893737	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	45387	123893737	11112779	250	5027										
OR8D2	283160	broad.mit.edu	37	chr11	124189744	124189744	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cataacggtcatattccatgGctgtcagaaggtagccttct	9	10	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:124189744G>T	uc010sah.1	-	1	350	c.350C>A	c.(349-351)GCC>GAC	p.A117D		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0525)		ATATTCCATGGCTGTCAGAAG	0.403													9	45	---	---	---	---	PASS	T	124189744	T	T	124189744	3	4	6	1	0	0	0	0	1	0	0	0	11232	1203	42	3	588	3	OR8D2	11	124189744	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	296007	124189744	10816772	251	5028										
FLI1	2313	broad.mit.edu	37	chr11	128628020	128628020	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggccctgcaggaggctctgtCggtggtgagcgacgaccagt	17	11	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:128628020C>A	uc010sbu.1	+	2	370	c.29C>A	c.(28-30)TCG>TAG	p.S10*	FLI1_uc010sbt.1_5'UTR|FLI1_uc010sbv.1_5'UTR|FLI1_uc009zci.2_5'UTR|FLI1_uc001qen.2_5'UTR	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1	10					hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		GAGGCTCTGTCGGTGGTGAGC	0.612			T	EWSR1	Ewing sarcoma								8	2	---	---	---	---	PASS	A	128628020	A	A	128628020	4	1	6	1	0	0	0	0	0	1	0	0	5924	893	31	2	35	2	FLI1	11	128628020	Nonsense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	4438276	128628020	6378496	252	5029										
SNX19	399979	broad.mit.edu	37	chr11	130781571	130781571	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggtttctcctccagacgggtCtgcagattcaagaactcccg	10	13	3	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr11:130781571C>A	uc001qgk.3	-	2	2318	c.1770G>T	c.(1768-1770)CAG>CAT	p.Q590H	SNX19_uc010sce.1_5'UTR|SNX19_uc010scf.1_Missense_Mutation_p.Q33H|SNX19_uc010scg.1_5'UTR|SNX19_uc001qgl.3_Missense_Mutation_p.Q590H|SNX19_uc009zcx.1_RNA	NM_014758	NP_055573	Q92543	SNX19_HUMAN	sorting nexin 19	590	PX.				cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|lung(2)	4	all_hematologic(175;0.0597)	Lung NSC(97;0.000272)|all_lung(97;0.000608)|Breast(109;0.000962)|all_neural(223;0.0298)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;0.0195)|Lung(977;0.233)		CCAGACGGGTCTGCAGATTCA	0.552													31	16	---	---	---	---	PASS	A	130781571	A	A	130781571	3	1	6	1	0	0	0	0	1	0	0	0	14890	912	32	2	1248	2	SNX19	11	130781571	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2153551	130781571	4224945	253	5030										
WNK1	65125	broad.mit.edu	37	chr12	988914	988914	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gattcccatatcaactcctcAtgtgtctacggctcagacag	7	13	4	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:988914A>G	uc001qio.3	+	11	3056	c.2549A>G	c.(2548-2550)CAT>CGT	p.H850R	WNK1_uc001qip.3_Intron|WNK1_uc001qir.3_Intron	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	850					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			TCAACTCCTCATGTGTCTACG	0.537													53	53	---	---	---	---	PASS	G	988914	G	G	988914	3	3	6	1	0	0	0	0	1	0	0	0	17374	217	8	5	4093	5	WNK1	12	988914	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08		988914	132862981	254	5031										
WNK1	65125	broad.mit.edu	37	chr12	1005592	1005592	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aggaccagtggcatctcctcCttttatggatttggaacaag	10	9	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:1005592C>G	uc001qio.3	+	24	6446	c.5939C>G	c.(5938-5940)CCT>CGT	p.P1980R	WNK1_uc001qip.3_Missense_Mutation_p.P1732R|WNK1_uc001qir.3_Missense_Mutation_p.P1153R	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1980					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GCATCTCCTCCTTTTATGGAT	0.448													97	79	---	---	---	---	PASS	G	1005592	G	G	1005592	3	3	6	1	0	0	0	0	1	0	0	0	17374	681	24	4	7535	4	WNK1	12	1005592	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	16678	1005592	132846303	255	5032										
PRMT8	56341	broad.mit.edu	37	chr12	3701428	3701428	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccctacacccactggaagcaGaccgtcttctacttggaaga	8	14	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:3701428G>T	uc001qmf.2	+	9	1378	c.1011G>T	c.(1009-1011)CAG>CAT	p.Q337H	PRMT8_uc009zed.2_Missense_Mutation_p.Q328H|PRMT8_uc001qmg.2_Missense_Mutation_p.Q151H|PRMT8_uc001qmh.2_RNA	NM_019854	NP_062828	Q9NR22	ANM8_HUMAN	HMT1 hnRNP methyltransferase-like 4	337					regulation of protein binding	cytoplasm|plasma membrane	histone-arginine N-methyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity			ovary(3)|central_nervous_system(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(31;0.0109)|COAD - Colon adenocarcinoma(12;0.0264)			ACTGGAAGCAGACCGTCTTCT	0.537													88	81	---	---	---	---	PASS	T	3701428	T	T	3701428	3	4	6	1	0	0	0	0	1	0	0	0	12542	933	33	2	1045	2	PRMT8	12	3701428	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	2695836	3701428	130150467	256	5033										
ANO2	57101	broad.mit.edu	37	chr12	5744332	5744332	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cagtaccaattttggtgagcCacttggccacagcgccgtag	11	12	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:5744332C>A	uc001qnm.2	-	17	1874	c.1802G>T	c.(1801-1803)TGG>TTG	p.W601L		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	606	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						TTTGGTGAGCCACTTGGCCAC	0.498													4	23	---	---	---	---	PASS	A	5744332	A	A	5744332	3	1	6	1	0	0	0	0	1	0	0	0	697	595	21	3	1234	3	ANO2	12	5744332	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2042904	5744332	128107563	257	5034										
GRIN2B	2904	broad.mit.edu	37	chr12	13717533	13717533	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gggagttcattacagactggCgctcctcgatcgccacccca	10	15	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:13717533C>T	uc001rbt.2	-	13	2818	c.2639G>A	c.(2638-2640)CGC>CAC	p.R880H		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	880	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TACAGACTGGCGCTCCTCGAT	0.537													12	89	---	---	---	---	PASS	T	13717533	T	T	13717533	3	4	6	1	0	0	0	0	1	0	0	0	6780	768	27	1	1819	1	GRIN2B	12	13717533	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	7973201	13717533	120134362	258	5035										
GRIN2B	2904	broad.mit.edu	37	chr12	13768055	13768055	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	acccatcatttacctaagaaGgcagaaggtgagacagtccc	9	11	1	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:13768055G>T	uc001rbt.2	-	7	1826	c.1647C>A	c.(1645-1647)GCC>GCA	p.A549A		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	549	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TACCTAAGAAGGCAGAAGGTG	0.502													6	101	---	---	---	---	PASS	T	13768055	T	T	13768055	2	4	6	1	0	0	0	0	0	0	0	1	6780	987	35	3		3	GRIN2B	12	13768055	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	50522	13768055	120083840	259	5036										
PTPRO	5800	broad.mit.edu	37	chr12	15669838	15669838	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccctgctacaatgacatcagAgtggaccacctactatgaaa	7	12	1	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:15669838A>G	uc001rcv.1	+	9	1901	c.1727A>G	c.(1726-1728)GAG>GGG	p.E576G	PTPRO_uc001rcw.1_Missense_Mutation_p.E576G|PTPRO_uc001rcu.1_Missense_Mutation_p.E576G	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	576	Fibronectin type-III 6.|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)				ATGACATCAGAGTGGACCACC	0.448													14	84	---	---	---	---	PASS	G	15669838	G	G	15669838	3	3	6	1	0	0	0	0	1	0	0	0	12809	304	11	5	1761	5	PTPRO	12	15669838	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	1901783	15669838	118182057	260	5037										
PIK3C2G	5288	broad.mit.edu	37	chr12	18691185	18691185	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcaagattttgtggaactttGctgtcgtgcttataatatta	8	5	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:18691185G>T	uc001rdt.2	+	24	3412	c.3296G>T	c.(3295-3297)TGC>TTC	p.C1099F	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.C1140F|PIK3C2G_uc010sic.1_Missense_Mutation_p.C918F	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	1099	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				GTGGAACTTTGCTGTCGTGCT	0.383													37	31	---	---	---	---	PASS	T	18691185	T	T	18691185	3	4	6	1	0	0	0	0	1	0	0	0	11911	1319	46	3	3386	3	PIK3C2G	12	18691185	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	3021347	18691185	115160710	261	5038										
PLEKHA5	54477	broad.mit.edu	37	chr12	19511295	19511295	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggagaagaaaaaagggttaaAtgttatcggtgcttcagacc	12	5	1	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:19511295A>G	uc001reb.2	+	21	2860	c.2774A>G	c.(2773-2775)AAT>AGT	p.N925S	PLEKHA5_uc010sie.1_Missense_Mutation_p.N1086S|PLEKHA5_uc001rea.2_Missense_Mutation_p.N983S|PLEKHA5_uc009zin.2_Missense_Mutation_p.N683S|PLEKHA5_uc010sif.1_Missense_Mutation_p.N914S|PLEKHA5_uc010sig.1_Missense_Mutation_p.N907S|PLEKHA5_uc010sih.1_Missense_Mutation_p.N880S|PLEKHA5_uc001rec.1_Missense_Mutation_p.N734S|PLEKHA5_uc009zio.2_Missense_Mutation_p.N191S	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	925							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					AAAGGGTTAAATGTTATCGGT	0.398													8	48	---	---	---	---	PASS	G	19511295	G	G	19511295	3	3	6	1	0	0	0	0	1	0	0	0	12059	101	4	5	3174	5	PLEKHA5	12	19511295	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	820110	19511295	114340600	262	5039										
PDE3A	5139	broad.mit.edu	37	chr12	20766412	20766412	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	attactgtggacatcgccgtCatgggcgaggcccacggcct	13	13	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:20766412C>G	uc001reh.1	+	3	1069	c.1047C>G	c.(1045-1047)GTC>GTG	p.V349V		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	349					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding	p.V349I(1)		ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	ACATCGCCGTCATGGGCGAGG	0.522													9	60	---	---	---	---	PASS	G	20766412	G	G	20766412	2	3	6	1	0	0	0	0	0	0	0	1	11637	813	29	2		2	PDE3A	12	20766412	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	1255117	20766412	113085483	263	5040										
PDE3A	5139	broad.mit.edu	37	chr12	20766502	20766502	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tccttgagagccgtgagcaaCttgctcagcacacagctcac	9	14	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:20766502C>G	uc001reh.1	+	3	1159	c.1137C>G	c.(1135-1137)AAC>AAG	p.N379K		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	379					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	CCGTGAGCAACTTGCTCAGCA	0.552													18	65	---	---	---	---	PASS	G	20766502	G	G	20766502	3	3	6	1	0	0	0	0	1	0	0	0	11637	564	20	4	1147	4	PDE3A	12	20766502	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	90	20766502	113085393	264	5041										
SLCO1B3	28234	broad.mit.edu	37	chr12	21011372	21011372	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ataattttgttttttttctaGgaaatttgcttgtgattgta	7	2	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:21011372G>T	uc001rek.2	+	4	353	c.227_splice	c.e4-1	p.G76_splice	SLCO1B3_uc001rel.2_Splice_Site_p.G76_splice|SLCO1B3_uc010sil.1_Splice_Site_p.G76_splice|LST-3TM12_uc010sim.1_Splice_Site_p.G76_splice	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,						bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TTTTTTTCTAGGAAATTTGCT	0.274													17	10	---	---	---	---	PASS	T	21011372	T	T	21011372	5	4	6	1	0	0	0	0	0	0	1	0	14724	1014	35	3	236	3	SLCO1B3	12	21011372	Splice_Site	SNP	G	TCGA-18-3411-01A-01D-0983-08	244870	21011372	112840523	265	5042										
LST-3TM12	338821	broad.mit.edu	37	chr12	21207483	21207483	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aagagatgatgcttgtacaaGgaaatcttacgtttattttg	9	4	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:21207483G>T	uc010sin.1	+	10	1454	c.1454G>T	c.(1453-1455)AGG>ATG	p.R485M	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Missense_Mutation_p.R532M	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	485						membrane	transporter activity				0						GCTTGTACAAGGAAATCTTAC	0.393													25	15	---	---	---	---	PASS	T	21207483	T	T	21207483	3	4	6	1	0	0	0	0	1	0	0	0	9066	1000	35	3	1492	3	LST-3TM12	12	21207483	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	196111	21207483	112644412	266	5043										
OVCH1	341350	broad.mit.edu	37	chr12	29648370	29648370	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgtactccccagaagtcacaGttatattcttcagctgcttc	6	12	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:29648370G>A	uc001rix.1	-	4	302	c.302C>T	c.(301-303)ACT>ATT	p.T101I		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	101	Peptidase S1 1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					AGAAGTCACAGTTATATTCTT	0.368													11	37	---	---	---	---	PASS	A	29648370	A	A	29648370	3	1	6	1	0	0	0	0	1	0	0	0	11323	1029	36	3	3202	3	OVCH1	12	29648370	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	8440887	29648370	104203525	267	5044										
C12orf35	55196	broad.mit.edu	37	chr12	32137484	32137484	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccatcaagaactcatcttcaGaggaagagaaacaaaaagag	8	8	4	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:32137484G>T	uc001rks.2	+	4	4009	c.3595G>T	c.(3595-3597)GAG>TAG	p.E1199*	C12orf35_uc001rkt.2_5'Flank	NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	1199										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			CTCATCTTCAGAGGAAGAGAA	0.418													15	59	---	---	---	---	PASS	T	32137484	T	T	32137484	4	4	6	1	0	0	0	0	0	1	0	0	1682	943	33	2	3597	2	C12orf35	12	32137484	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	2489114	32137484	101714411	268	5045										
ABCD2	225	broad.mit.edu	37	chr12	40013232	40013232	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtgcaatgcagtatttctgtGttctctgcagcagggtaagc	12	8	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:40013232G>T	uc001rmb.2	-	1	612	c.186C>A	c.(184-186)AAC>AAA	p.N62K		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	62	Interaction with PEX19.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						GTATTTCTGTGTTCTCTGCAG	0.448													12	54	---	---	---	---	PASS	T	40013232	T	T	40013232	3	4	6	1	0	0	0	0	1	0	0	0	61	1368	48	3	2076	3	ABCD2	12	40013232	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	7875748	40013232	93838663	269	5046										
MLL2	8085	broad.mit.edu	37	chr12	49425673	49425673	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cccctagctcctggagggggCctgtctgtggtccagggaag	16	12	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:49425673C>T	uc001rta.3	-	39	12815	c.12815G>A	c.(12814-12816)GGC>GAC	p.G4272D		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4272	Pro-rich.|Gln-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTGGAGGGGGCCTGTCTGTGG	0.687			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			6	8	---	---	---	---	PASS	T	49425673	T	T	49425673	3	4	6	1	0	0	0	0	1	0	0	0	9621	739	26	3	3862	3	MLL2	12	49425673	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	9412441	49425673	84426222	270	5047										
PRPH	5630	broad.mit.edu	37	chr12	49691473	49691473	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cctctaggatctccgtgcccGtccattcttttgcctcctta	6	16	3	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:49691473G>A	uc001rtu.2	+	7	1306	c.1231G>A	c.(1231-1233)GTC>ATC	p.V411I		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	411	Tail.						structural molecule activity				0						CTCCGTGCCCGTCCATTCTTT	0.428													6	45	---	---	---	---	PASS	A	49691473	A	A	49691473	3	1	6	1	0	0	0	0	1	0	0	0	12576	1145	40	1	1257	1	PRPH	12	49691473	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	265800	49691473	84160422	271	5048										
KCNH3	23416	broad.mit.edu	37	chr12	49934881	49934881	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gccctggacgagcacaaggaGttcaaggctgagctgatcct	13	11	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:49934881G>T	uc001ruh.1	+	2	536	c.276G>T	c.(274-276)GAG>GAT	p.E92D	KCNH3_uc010smj.1_Missense_Mutation_p.E32D	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	92	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						AGCACAAGGAGTTCAAGGCTG	0.632													12	13	---	---	---	---	PASS	T	49934881	T	T	49934881	3	4	6	1	0	0	0	0	1	0	0	0	8033	1020	36	3	282	3	KCNH3	12	49934881	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	243408	49934881	83917014	272	5049										
TMEM5	10329	broad.mit.edu	37	chr12	64199137	64199137	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	caggcactaatgaacattttGaaaaaagatgggaacgataa	9	5	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:64199137G>C	uc001srq.1	+	5	971	c.867G>C	c.(865-867)TTG>TTC	p.L289F	TMEM5_uc001srr.1_Missense_Mutation_p.L186F|TMEM5_uc001srs.1_Missense_Mutation_p.L29F	NM_014254	NP_055069	Q9Y2B1	TMEM5_HUMAN	transmembrane protein 5	289	Extracellular (Potential).					integral to plasma membrane					0		Myeloproliferative disorder(1001;0.0255)	BRCA - Breast invasive adenocarcinoma(9;0.0985)	GBM - Glioblastoma multiforme(28;9e-08)|BRCA - Breast invasive adenocarcinoma(357;0.000175)		TGAACATTTTGAAAAAAGATG	0.358													12	59	---	---	---	---	PASS	C	64199137	C	C	64199137	3	2	6	1	0	0	0	0	1	0	0	0	16171	1281	45	2	885	2	TMEM5	12	64199137	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	14264256	64199137	69652758	273	5050										
DYRK2	8445	broad.mit.edu	37	chr12	68051114	68051114	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gctccacctctctaaagtccAtggaaggcatggggaaggtg	13	10	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:68051114A>G	uc001str.3	+	3	829	c.427A>G	c.(427-429)ATG>GTG	p.M143V	DYRK2_uc001sts.3_Missense_Mutation_p.M70V	NM_006482	NP_006473	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	143					apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|positive regulation of glycogen biosynthetic process|smoothened signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|manganese ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(1)|central_nervous_system(1)	4			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		TCTAAAGTCCATGGAAGGCAT	0.527													8	10	---	---	---	---	PASS	G	68051114	G	G	68051114	3	3	6	1	0	0	0	0	1	0	0	0	4856	217	8	5	437	5	DYRK2	12	68051114	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	3851977	68051114	65800781	274	5051										
EEA1	8411	broad.mit.edu	37	chr12	93221723	93221723	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agaaagtttgagttgtaaatCagccacttgttgttctttat	8	5	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:93221723C>A	uc001tck.2	-	12	1634	c.1369G>T	c.(1369-1371)GAT>TAT	p.D457Y		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	457	Gln/Glu/Lys-rich.|Potential.				early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						AGTTGTAAATCAGCCACTTGT	0.403													10	72	---	---	---	---	PASS	A	93221723	A	A	93221723	3	1	6	1	0	0	0	0	1	0	0	0	4921	826	29	2	2938	2	EEA1	12	93221723	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	25170609	93221723	40630172	275	5052										
ANO4	121601	broad.mit.edu	37	chr12	101514370	101514370	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctgcagttttggcatgtcctAgctgctcgattagcttttat	9	9	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:101514370A>G	uc010svm.1	+	26	3215	c.2643A>G	c.(2641-2643)CTA>CTG	p.L881L	ANO4_uc001thw.2_Silent_p.L846L|ANO4_uc001thx.2_Silent_p.L881L|ANO4_uc001thy.2_Silent_p.L401L	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	881	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						GGCATGTCCTAGCTGCTCGAT	0.408										HNSCC(74;0.22)			9	13	---	---	---	---	PASS	G	101514370	G	G	101514370	2	3	6	1	0	0	0	0	0	0	0	1	699	407	15	5		5	ANO4	12	101514370	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	8292647	101514370	32337525	276	5053										
MYBPC1	4604	broad.mit.edu	37	chr12	102045125	102045125	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gaaaatggactaaaaatggcCtacctgttcaggagagtgac	11	7	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:102045125C>A	uc001tii.2	+	14	1507	c.1405C>A	c.(1405-1407)CTA>ATA	p.L469I	MYBPC1_uc001tif.1_Missense_Mutation_p.L482I|MYBPC1_uc001tig.2_Missense_Mutation_p.L494I|MYBPC1_uc010svq.1_Missense_Mutation_p.L456I|MYBPC1_uc001tih.2_Missense_Mutation_p.L494I|MYBPC1_uc001tij.2_Missense_Mutation_p.L469I|MYBPC1_uc010svr.1_Missense_Mutation_p.L469I|MYBPC1_uc010svs.1_Missense_Mutation_p.L469I|MYBPC1_uc010svt.1_Missense_Mutation_p.L457I|MYBPC1_uc010svu.1_Missense_Mutation_p.L450I|MYBPC1_uc001tik.2_Missense_Mutation_p.L443I	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	469	Ig-like C2-type 4.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						TAAAAATGGCCTACCTGTTCA	0.453													6	172	---	---	---	---	PASS	A	102045125	A	A	102045125	3	1	6	1	0	0	0	0	1	0	0	0	10011	680	24	3	1542	3	MYBPC1	12	102045125	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	530755	102045125	31806770	277	5054										
HCFC2	29915	broad.mit.edu	37	chr12	104487333	104487333	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgtggtggatatgctaaggaAaaatgaaggtatatggatga	14	1	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:104487333A>G	uc001tkj.3	+	10	1557	c.1454A>G	c.(1453-1455)AAA>AGA	p.K485R	HCFC2_uc009zul.2_RNA	NM_013320	NP_037452	Q9Y5Z7	HCFC2_HUMAN	host cell factor C2	485					regulation of transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus	transcription coactivator activity			ovary(2)|central_nervous_system(1)	3						ATGCTAAGGAAAAATGAAGGT	0.318													7	34	---	---	---	---	PASS	G	104487333	G	G	104487333	3	3	6	1	0	0	0	0	1	0	0	0	6993	14	1	5	1492	5	HCFC2	12	104487333	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	2442208	104487333	29364562	278	5055										
IFT81	28981	broad.mit.edu	37	chr12	110565897	110565897	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gccagagcagacagccaaacGaatgttgagccttcttggta	11	10	1	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:110565897G>A	uc001tqi.2	+	3	321	c.191G>A	c.(190-192)CGA>CAA	p.R64Q	IFT81_uc001tqh.2_Missense_Mutation_p.R64Q|IFT81_uc001tqj.2_RNA|IFT81_uc001tqg.2_Missense_Mutation_p.R64Q	NM_001143779	NP_001137251	Q8WYA0	IFT81_HUMAN	intraflagellar transport 81-like isoform 1	64					cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1						ACAGCCAAACGAATGTTGAGC	0.343													6	51	---	---	---	---	PASS	A	110565897	A	A	110565897	3	1	6	1	0	0	0	0	1	0	0	0	7565	1058	37	2	197	2	IFT81	12	110565897	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	6078564	110565897	23285998	279	5056										
C12orf51	283450	broad.mit.edu	37	chr12	112673472	112673472	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcatcaggggcagcgccgccCggcacagctggagaataata	13	12	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:112673472C>T	uc009zwc.2	-	29	4313	c.4295G>A	c.(4294-4296)CGG>CAG	p.R1432Q		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CAGCGCCGCCCGGCACAGCTG	0.587													16	29	---	---	---	---	PASS	T	112673472	T	T	112673472	3	4	6	1	0	0	0	0	1	0	0	0	1696	652	23	1	7859	1	C12orf51	12	112673472	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2107575	112673472	21178423	280	5057										
OAS2	4939	broad.mit.edu	37	chr12	113435444	113435444	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gacattgctgaaggcgtcagAaccgtactggagctgatcaa	12	9	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:113435444A>G	uc001tuj.2	+	4	887	c.747A>G	c.(745-747)AGA>AGG	p.R249R	OAS2_uc001tui.1_Silent_p.R249R	NM_016817	NP_058197	P29728	OAS2_HUMAN	2'-5'-oligoadenylate synthetase 2 isoform 1	249	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|membrane|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(1)	1						AAGGCGTCAGAACCGTACTGG	0.498													8	28	---	---	---	---	PASS	G	113435444	G	G	113435444	2	3	6	1	0	0	0	0	0	0	0	1	10800	243	9	5		5	OAS2	12	113435444	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	761972	113435444	20416451	281	5058										
TMEM132D	121256	broad.mit.edu	37	chr12	130184572	130184572	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gatgtcactgtggcctgtccGgatcccattgcttctcctcg	10	14	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:130184572G>A	uc009zyl.1	-	2	1079	c.751C>T	c.(751-753)CGG>TGG	p.R251W		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	251	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TGGCCTGTCCGGATCCCATTG	0.617													24	21	---	---	---	---	PASS	A	130184572	A	A	130184572	3	1	6	1	0	0	0	0	1	0	0	0	16044	1115	39	1	2580	1	TMEM132D	12	130184572	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	16749128	130184572	3667323	282	5059										
POLE	5426	broad.mit.edu	37	chr12	133220500	133220500	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gatgtgttcctggtacatgtCctctggcactgaatactcat	9	10	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr12:133220500C>T	uc001uks.1	-	33	4257	c.4213G>A	c.(4213-4215)GAC>AAC	p.D1405N	POLE_uc001ukq.1_5'Flank|POLE_uc001ukr.1_Missense_Mutation_p.D209N|POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Missense_Mutation_p.D1378N	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1405					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		TGGTACATGTCCTCTGGCACT	0.537								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					15	55	---	---	---	---	PASS	T	133220500	T	T	133220500	3	4	6	1	0	0	0	0	1	0	0	0	12196	855	30	2	2715	2	POLE	12	133220500	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	3035928	133220500	631395	283	5060										
ATP8A2	51761	broad.mit.edu	37	chr13	26436473	26436473	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgtctggggaagcatgctgaCctggctggtgttttttggca	15	7	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr13:26436473C>T	uc001uqk.2	+	33	3252	c.3110C>T	c.(3109-3111)ACC>ATC	p.T1037I	ATP8A2_uc010tdi.1_Missense_Mutation_p.T972I|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.T587I	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	997	Helical; (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		AGCATGCTGACCTGGCTGGTG	0.532													26	10	---	---	---	---	PASS	T	26436473	T	T	26436473	3	4	6	1	0	0	0	0	1	0	0	0	1193	507	18	3	3240	3	ATP8A2	13	26436473	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08		26436473	88733405	284	5061										
SLC7A1	6541	broad.mit.edu	37	chr13	30091888	30091888	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tctaactcgtcggaagtactGgccatctggtataccaggtt	10	10	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr13:30091888G>C	uc001uso.2	-	10	1719	c.1332C>G	c.(1330-1332)GCC>GCG	p.A444A		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	444	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	CGGAAGTACTGGCCATCTGGT	0.502													6	41	---	---	---	---	PASS	C	30091888	C	C	30091888	2	2	6	1	0	0	0	0	0	0	0	1	14692	1335	47	4		4	SLC7A1	13	30091888	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	3655415	30091888	85077990	285	5062										
POSTN	10631	broad.mit.edu	37	chr13	38143490	38143490	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	caaataaatgaccatcaccaCcttcaatgaatttggtgacc	5	11	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr13:38143490C>T	uc001uwo.3	-	21	2496	c.2378G>A	c.(2377-2379)GGT>GAT	p.G793D	POSTN_uc010tet.1_Missense_Mutation_p.G294D|POSTN_uc001uwp.3_Missense_Mutation_p.G736D|POSTN_uc001uwr.2_Intron|POSTN_uc001uwq.2_Intron|POSTN_uc010teu.1_Missense_Mutation_p.G766D|POSTN_uc010tev.1_Missense_Mutation_p.G706D|POSTN_uc010tew.1_Intron	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	793					cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		ACCATCACCACCTTCAATGAA	0.363													23	11	---	---	---	---	PASS	T	38143490	T	T	38143490	3	4	6	1	0	0	0	0	1	0	0	0	12259	507	18	3	144	3	POSTN	13	38143490	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	8051602	38143490	77026388	286	5063										
NHLRC3	387921	broad.mit.edu	37	chr13	39612853	39612853	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tttgcattcgcgtttttgtgGctctccagtgagttgggtag	13	7	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr13:39612853G>A	uc001uxc.2	+	1	399	c.77G>A	c.(76-78)GGC>GAC	p.G26D	C13orf23_uc001uwy.2_5'Flank|C13orf23_uc001uwz.2_5'Flank|NHLRC3_uc001uxa.1_Missense_Mutation_p.G26D|NHLRC3_uc001uxb.1_Missense_Mutation_p.G26D|NHLRC3_uc001uxd.2_Missense_Mutation_p.G26D|NHLRC3_uc001uxe.2_Intron	NM_001012754	NP_001012772	Q5JS37	NHLC3_HUMAN	NHL repeat containing 3 isoform a	26						extracellular region				skin(1)	1		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;2.37e-08)|Epithelial(112;3.14e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00101)|BRCA - Breast invasive adenocarcinoma(63;0.00335)|GBM - Glioblastoma multiforme(144;0.0128)		CGTTTTTGTGGCTCTCCAGTG	0.587													14	43	---	---	---	---	PASS	A	39612853	A	A	39612853	3	1	6	1	0	0	0	0	1	0	0	0	10407	1203	42	3	79	3	NHLRC3	13	39612853	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	1469363	39612853	75557025	287	5064										
OR4M1	441670	broad.mit.edu	37	chr14	20249004	20249004	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tctgtgggcccaatgagttaGacagttacttctgtgacatc	10	9	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:20249004G>A	uc010tku.1	+	1	523	c.523G>A	c.(523-525)GAC>AAC	p.D175N		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	175	Extracellular (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)		CAATGAGTTAGACAGTTACTT	0.488													8	158	---	---	---	---	PASS	A	20249004	A	A	20249004	3	1	6	1	0	0	0	0	1	0	0	0	11075	942	33	2	525	2	OR4M1	14	20249004	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08		20249004	87100536	288	5065										
OR4K1	79544	broad.mit.edu	37	chr14	20403995	20403995	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttttgactcccatttgaactCtcctatgtacttcttgctca	4	12	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:20403995C>T	uc001vwj.1	+	1	170	c.170C>T	c.(169-171)TCT>TTT	p.S57F		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	57	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		CATTTGAACTCTCCTATGTAC	0.363													81	95	---	---	---	---	PASS	T	20403995	T	T	20403995	3	4	6	1	0	0	0	0	1	0	0	0	11067	913	32	2	172	2	OR4K1	14	20403995	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	154991	20403995	86945545	289	5066										
SUPT16H	11198	broad.mit.edu	37	chr14	21831050	21831050	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agatcttcatttcccgaataTgtggttccttaggcatcaga	8	9	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:21831050T>C	uc001wao.2	-	14	1907	c.1568A>G	c.(1567-1569)CAT>CGT	p.H523R		NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	523					DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		TTCCCGAATATGTGGTTCCTT	0.408													54	40	---	---	---	---	PASS	C	21831050	C	C	21831050	3	2	6	1	0	0	0	0	1	0	0	0	15393	1464	51	5	1627	5	SUPT16H	14	21831050	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	1427055	21831050	85518490	290	5067										
RNF31	55072	broad.mit.edu	37	chr14	24618034	24618034	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgcagctttcagaatttgacCccctattgagagagattgct	9	9	1	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:24618034C>G	uc001wmn.1	+	5	829	c.580C>G	c.(580-582)CCC>GCC	p.P194A	PSME2_uc001wmj.2_5'Flank|PSME2_uc001wmk.2_5'Flank|RNF31_uc001wml.1_Missense_Mutation_p.P43A|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_Missense_Mutation_p.P9A|RNF31_uc001wmo.1_5'Flank|RNF31_uc001wmp.2_5'Flank	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	194	Polyubiquitin-binding.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		AGAATTTGACCCCCTATTGAG	0.473													23	132	---	---	---	---	PASS	G	24618034	G	G	24618034	3	3	6	1	0	0	0	0	1	0	0	0	13487	623	22	4	598	4	RNF31	14	24618034	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2786984	24618034	82731506	291	5068										
SSTR1	6751	broad.mit.edu	37	chr14	38679162	38679162	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgctatcgctgctcgtcatcCtgcccatcgtggtcttctct	8	15	3	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:38679162C>A	uc001wul.1	+	3	1185	c.568C>A	c.(568-570)CTG>ATG	p.L190M	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	190	Helical; Name=4; (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	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;0.00444)	Octreotide(DB00104)	GCTCGTCATCCTGCCCATCGT	0.662													18	29	---	---	---	---	PASS	A	38679162	A	A	38679162	3	1	6	1	0	0	0	0	1	0	0	0	15196	680	24	3	570	3	SSTR1	14	38679162	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	14061128	38679162	68670378	292	5069										
LRFN5	145581	broad.mit.edu	37	chr14	42356638	42356638	+	Silent	SNP	T	C	C													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gcttctcctccacttttaacTggccgctacttttggtcaat							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:42356638T>C	uc001wvm.2	+	3	2008	c.810T>C	c.(808-810)ACT>ACC	p.T270T	LRFN5_uc010ana.2_Silent_p.T270T	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	270	Extracellular (Potential).|LRRCT.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		CACTTTTAACTGGCCGCTACT	0.468										HNSCC(30;0.082)			15	90	---	---	---	---	PASS	C	42356638	C	C	42356638	2	2	6	1	0	0	0	0	0	0	0	1	8941	1567	55	5		5	LRFN5	14	42356638	Silent	SNP	T	TCGA-18-3411-01A-01D-0983-08	3677476	42356638	64992902	293	5070	207	2								
LRFN5	145581	broad.mit.edu	37	chr14	42356639	42356639	+	Missense_Mutation	SNP	G	T	T													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cttctcctccacttttaactGgccgctacttttggtcaatt							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:42356639G>T	uc001wvm.2	+	3	2009	c.811G>T	c.(811-813)GGC>TGC	p.G271C	LRFN5_uc010ana.2_Missense_Mutation_p.G271C	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	271	Extracellular (Potential).|LRRCT.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		ACTTTTAACTGGCCGCTACTT	0.473										HNSCC(30;0.082)			18	88	---	---	---	---	PASS	T	42356639	T	T	42356639	3	4	6	1	0	0	0	0	1	0	0	0	8941	1348	47	3	813	3	LRFN5	14	42356639	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	1	42356639	64992901	294	5071	207	2								
FAM179B	23116	broad.mit.edu	37	chr14	45540921	45540921	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttctttttgtttagacaattActtacttctacagccatttt	3	8	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:45540921A>T	uc001wvv.2	+	18	5026	c.4817A>T	c.(4816-4818)TAC>TTC	p.Y1606F	FAM179B_uc001wvw.2_Missense_Mutation_p.Y1659F|FAM179B_uc010anc.2_RNA	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	1606							binding			skin(2)|upper_aerodigestive_tract(1)	3						TTAGACAATTACTTACTTCTA	0.313													19	27	---	---	---	---	PASS	T	45540921	T	T	45540921	3	4	6	1	0	0	0	0	1	0	0	0	5506	391	14	5	4887	5	FAM179B	14	45540921	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	3184282	45540921	61808619	295	5072										
ARID4A	5926	broad.mit.edu	37	chr14	58817845	58817845	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttaaaaaggaaattgaagaaGagaaaacagaagacaaatta	8	2	0	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:58817845G>T	uc001xdp.2	+	16	1713	c.1459G>T	c.(1459-1461)GAG>TAG	p.E487*	ARID4A_uc001xdo.2_Nonsense_Mutation_p.E487*|ARID4A_uc001xdq.2_Nonsense_Mutation_p.E487*|ARID4A_uc010apg.1_Nonsense_Mutation_p.E165*	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	487					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						AATTGAAGAAGAGAAAACAGA	0.328													5	78	---	---	---	---	PASS	T	58817845	T	T	58817845	4	4	6	1	0	0	0	0	0	1	0	0	919	943	33	2	1517	2	ARID4A	14	58817845	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	13276924	58817845	48531695	296	5073										
DCAF4	26094	broad.mit.edu	37	chr14	73425438	73425438	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agtgtggccttctcgtcgcgGctggggggctcccggggcgc	19	13	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:73425438G>T	uc001xng.2	+	14	1633	c.1413G>T	c.(1411-1413)CGG>CGT	p.R471R	DCAF4_uc001xnj.2_Silent_p.R465R|DCAF4_uc010ttr.1_Silent_p.R450R|DCAF4_uc001xnh.2_Silent_p.R371R|DCAF4_uc010tts.1_Silent_p.R411R|DCAF4_uc010ttt.1_Silent_p.R257R|DCAF4_uc001xni.2_Silent_p.R301R	NM_015604	NP_056419	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4 isoform 1	471						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)|skin(1)	3						TCTCGTCGCGGCTGGGGGGCT	0.647													14	37	---	---	---	---	PASS	T	73425438	T	T	73425438	2	4	6	1	0	0	0	0	0	0	0	1	4270	1190	42	3		3	DCAF4	14	73425438	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	14607593	73425438	33924102	297	5074										
C14orf115	55237	broad.mit.edu	37	chr14	74824319	74824319	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggagctgctcaaccgtgaacCtggcctcagctactctcacc	9	16	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:74824319C>A	uc001xpw.3	+	2	1024	c.833C>A	c.(832-834)CCT>CAT	p.P278H		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	278					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		AACCGTGAACCTGGCCTCAGC	0.652													25	17	---	---	---	---	PASS	A	74824319	A	A	74824319	3	1	6	1	0	0	0	0	1	0	0	0	1740	681	24	3	835	3	C14orf115	14	74824319	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	1398881	74824319	32525221	298	5075										
KIAA1737	85457	broad.mit.edu	37	chr14	77580133	77580133	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cccagcgccaaacttgccgaGgactcagctctgcagggtgt	12	14	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:77580133G>T	uc001xtd.2	+	4	851	c.672G>T	c.(670-672)GAG>GAT	p.E224D	KIAA1737_uc001xtc.1_Missense_Mutation_p.E126D	NM_033426	NP_219494	Q9C0C6	K1737_HUMAN	KIAA1737 protein	224											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		AACTTGCCGAGGACTCAGCTC	0.602													5	58	---	---	---	---	PASS	T	77580133	T	T	77580133	3	4	6	1	0	0	0	0	1	0	0	0	8255	991	35	3	682	3	KIAA1737	14	77580133	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	2755814	77580133	29769407	299	5076										
FLRT2	23768	broad.mit.edu	37	chr14	86088550	86088550	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	caccttcagccatctcaccaAgctcaaggaattttcaattg	5	13	4	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:86088550A>T	uc001xvr.2	+	2	1459	c.692A>T	c.(691-693)AAG>ATG	p.K231M	FLRT2_uc010atd.2_Missense_Mutation_p.K231M	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	231	Extracellular (Potential).|LRR 8.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		CATCTCACCAAGCTCAAGGAA	0.522													16	90	---	---	---	---	PASS	T	86088550	T	T	86088550	3	4	6	1	0	0	0	0	1	0	0	0	5939	72	3	5	694	5	FLRT2	14	86088550	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	8508417	86088550	21260990	300	5077										
PPP4R4	57718	broad.mit.edu	37	chr14	94712742	94712742	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cactcacagctgctgaacagCgagctgcagcctctttaaaa	8	13	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr14:94712742C>A	uc001ycs.1	+	14	1631	c.1477C>A	c.(1477-1479)CGA>AGA	p.R493R		NM_058237	NP_478144	Q6NUP7	PP4R4_HUMAN	HEAT-like repeat-containing protein isoform 1	493						cytoplasm|protein serine/threonine phosphatase complex	protein binding			skin(3)|upper_aerodigestive_tract(1)	4						TGCTGAACAGCGAGCTGCAGC	0.403													15	45	---	---	---	---	PASS	A	94712742	A	A	94712742	2	1	6	1	0	0	0	0	0	0	0	1	12405	760	27	1		1	PPP4R4	14	94712742	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	8624192	94712742	12636798	301	5078										
GABRB3	2562	broad.mit.edu	37	chr15	26812801	26812801	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gacagaatcgttatcagtatAgagggcatataagtctgaag	11	5	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr15:26812801A>T	uc001zaz.2	-	7	904	c.762T>A	c.(760-762)TCT>TCA	p.S254S	GABRB3_uc010uae.1_Silent_p.S169S|GABRB3_uc001zba.2_Silent_p.S254S|GABRB3_uc001zbb.2_Silent_p.S310S	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	254	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)	TTATCAGTATAGAGGGCATAT	0.423													19	35	---	---	---	---	PASS	T	26812801	T	T	26812801	2	4	6	1	0	0	0	0	0	0	0	1	6168	407	15	5		5	GABRB3	15	26812801	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08		26812801	75718591	302	5079										
SLC27A2	11001	broad.mit.edu	37	chr15	50526174	50526174	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tacctacctagttatgcaagGccccggtttctaagaataca	7	11	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr15:50526174G>T	uc001zxw.2	+	9	1897	c.1665G>T	c.(1663-1665)AGG>AGT	p.R555S	SLC27A2_uc010bes.2_Missense_Mutation_p.R502S|SLC27A2_uc001zxx.2_Missense_Mutation_p.R320S	NM_003645	NP_003636	O14975	S27A2_HUMAN	solute carrier family 27 (fatty acid	555	Cytoplasmic (Potential).				bile acid biosynthetic process|fatty acid alpha-oxidation	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity|phytanate-CoA ligase activity|pristanate-CoA ligase activity			ovary(1)|skin(1)	2		all_lung(180;0.00177)		all cancers(107;1.16e-06)|GBM - Glioblastoma multiforme(94;0.000113)		GTTATGCAAGGCCCCGGTTTC	0.433													39	16	---	---	---	---	PASS	T	50526174	T	T	50526174	3	4	6	1	0	0	0	0	1	0	0	0	14526	1194	42	3	1699	3	SLC27A2	15	50526174	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	23713373	50526174	52005218	303	5080										
CCPG1	9236	broad.mit.edu	37	chr15	55652654	55652654	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcagaacgctgctgttcgaaGgttagcttccgttccagctc	10	12	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr15:55652654G>T	uc002acv.1	-	8	1482	c.1317C>A	c.(1315-1317)ACC>ACA	p.T439T	CCPG1_uc002acy.2_Silent_p.T439T|CCPG1_uc002acu.1_Silent_p.T295T|CCPG1_uc002acw.1_Silent_p.T164T|CCPG1_uc002acx.2_Intron|CCPG1_uc010bfk.1_Silent_p.T439T|CCPG1_uc002acz.1_Silent_p.T439T	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2	439	Potential.|Lumenal (Potential).				cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		GCTGTTCGAAGGTTAGCTTCC	0.413													7	142	---	---	---	---	PASS	T	55652654	T	T	55652654	2	4	6	1	0	0	0	0	0	0	0	1	2938	987	35	3		3	CCPG1	15	55652654	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	5126480	55652654	46878738	304	5081										
FAM81A	145773	broad.mit.edu	37	chr15	59752205	59752205	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	catctgtaagcctcgtggagCagctggaagacaggatcctc	12	11	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr15:59752205C>A	uc002agc.2	+	3	281	c.94C>A	c.(94-96)CAG>AAG	p.Q32K	FAM81A_uc010uha.1_Missense_Mutation_p.Q32K	NM_152450	NP_689663	Q8TBF8	FA81A_HUMAN	hypothetical protein LOC145773	32										ovary(1)	1						CCTCGTGGAGCAGCTGGAAGA	0.532													14	27	---	---	---	---	PASS	A	59752205	A	A	59752205	3	1	6	1	0	0	0	0	1	0	0	0	5628	711	25	3	100	3	FAM81A	15	59752205	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	4099551	59752205	42779187	305	5082										
HCN4	10021	broad.mit.edu	37	chr15	73624553	73624553	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aactgcaggcagccgtcccaGtggcagagcaggagcatcat	13	12	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr15:73624553G>C	uc002avp.2	-	3	2284	c.1290C>G	c.(1288-1290)CAC>CAG	p.H430Q		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	430	Helical; Name=Segment S5; (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		AGCCGTCCCAGTGGCAGAGCA	0.612													3	32	---	---	---	---	PASS	C	73624553	C	C	73624553	3	2	6	1	0	0	0	0	1	0	0	0	6999	1020	36	4	2345	4	HCN4	15	73624553	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	13872348	73624553	28906839	306	5083										
C15orf27	123591	broad.mit.edu	37	chr15	76449078	76449078	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcctgactctggaacttctaAtagatataaagcttctccag	6	10	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr15:76449078A>G	uc002bbq.2	+	4	516	c.361A>G	c.(361-363)ATA>GTA	p.I121V	C15orf27_uc010bkp.2_Intron|C15orf27_uc002bbr.2_Intron	NM_152335	NP_689548	Q2M3C6	CO027_HUMAN	hypothetical protein LOC123591	121	Helical; (Potential).					integral to membrane					0						GGAACTTCTAATAGATATAAA	0.433													9	34	---	---	---	---	PASS	G	76449078	G	G	76449078	3	3	6	1	0	0	0	0	1	0	0	0	1788	101	4	5	371	5	C15orf27	15	76449078	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	2824525	76449078	26082314	307	5084										
TM6SF1	53346	broad.mit.edu	37	chr15	83795599	83795599	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gctgcttatcctaaaattcaGgtcaagtagttatgaagcct	8	8	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr15:83795599G>C	uc002bjp.2	+	8	910	c.801G>C	c.(799-801)CAG>CAC	p.Q267H	TM6SF1_uc010bmq.2_Intron|TM6SF1_uc002bjq.2_Intron|TM6SF1_uc010bmr.2_Intron|TM6SF1_uc002bjr.2_Missense_Mutation_p.Q119H	NM_023003	NP_075379	Q9BZW5	TM6S1_HUMAN	transmembrane 6 superfamily member 1 isoform 1	267	Helical; (Potential).					integral to membrane				ovary(1)	1						CTAAAATTCAGGTCAAGTAGT	0.299													33	104	---	---	---	---	PASS	C	83795599	C	C	83795599	3	2	6	1	0	0	0	0	1	0	0	0	15969	1014	35	4	831	4	TM6SF1	15	83795599	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	7346521	83795599	18735793	308	5085										
AGBL1	123624	broad.mit.edu	37	chr15	86800204	86800204	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gcagtgcctatgccttcccgGtccccgggtgcatcaccact	10	17	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr15:86800204G>T	uc002blz.1	+	7	798	c.718G>T	c.(718-720)GTC>TTC	p.V240F		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	240					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						TGCCTTCCCGGTCCCCGGGTG	0.507													8	56	---	---	---	---	PASS	T	86800204	T	T	86800204	3	4	6	1	0	0	0	0	1	0	0	0	375	1261	44	3	740	3	AGBL1	15	86800204	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	3004605	86800204	15731188	309	5086										
OR4F6	390648	broad.mit.edu	37	chr15	102346508	102346508	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gcatagagacctacacattgGgattcatggttactgccaat	9	9	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr15:102346508G>C	uc010utr.1	+	1	586	c.586G>C	c.(586-588)GGA>CGA	p.G196R		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	196	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			CTACACATTGGGATTCATGGT	0.358													38	159	---	---	---	---	PASS	C	102346508	C	C	102346508	3	2	6	1	0	0	0	0	1	0	0	0	11066	1233	43	4	588	4	OR4F6	15	102346508	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	15546304	102346508	184884	310	5087										
CCNF	899	broad.mit.edu	37	chr16	2505515	2505515	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cgactggagcctggactgctGctctggctatgaaggcgacc	14	12	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:2505515G>T	uc002cqd.1	+	16	1923	c.1835G>T	c.(1834-1836)TGC>TTC	p.C612F	CCNF_uc002cqe.1_Missense_Mutation_p.C304F	NM_001761	NP_001752	P41002	CCNF_HUMAN	cyclin F	612	PEST.				cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)				CTGGACTGCTGCTCTGGCTAT	0.642													3	10	---	---	---	---	PASS	T	2505515	T	T	2505515	3	4	6	1	0	0	0	0	1	0	0	0	2922	1319	46	3	1897	3	CCNF	16	2505515	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08		2505515	87849238	311	5088										
CREBBP	1387	broad.mit.edu	37	chr16	3900926	3900926	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cagcatctggaacaaggttcCcactgtttaaaaggcctaat	8	10	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:3900926C>A	uc002cvv.2	-	2	374	c.170G>T	c.(169-171)GGG>GTG	p.G57V	CREBBP_uc002cvw.2_Missense_Mutation_p.G57V	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	57					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)		AACAAGGTTCCCACTGTTTAA	0.428			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				6	56	---	---	---	---	PASS	A	3900926	A	A	3900926	3	1	6	1	0	0	0	0	1	0	0	0	3861	623	22	3	7278	3	CREBBP	16	3900926	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	1395411	3900926	86453827	312	5089										
SRL	6345	broad.mit.edu	37	chr16	4247818	4247818	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	acctgtatagagctgatagcGagtattttccagcccaagga	10	9	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:4247818G>C	uc002cvz.3	-	4	371	c.358C>G	c.(358-360)CGC>GGC	p.R120G	SRL_uc002cvy.3_RNA	NM_001098814	NP_001092284	Q86TD4	SRCA_HUMAN	sarcalumenin	579						sarcoplasmic reticulum lumen	GTP binding|GTPase activity			ovary(3)|skin(2)	5						AGCTGATAGCGAGTATTTTCC	0.383													30	16	---	---	---	---	PASS	C	4247818	C	C	4247818	3	2	6	1	0	0	0	0	1	0	0	0	15149	1058	37	2	1075	2	SRL	16	4247818	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	346892	4247818	86106935	313	5090										
CPPED1	55313	broad.mit.edu	37	chr16	12758807	12758807	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tctcactcagctcatctagaCtgtagtatcggtgaacaatt	7	10	4	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:12758807C>A	uc002dca.3	-	4	992	c.881G>T	c.(880-882)AGT>ATT	p.S294I	CPPED1_uc002dcb.3_Missense_Mutation_p.S152I|CPPED1_uc002dbz.3_RNA	NM_018340	NP_060810	Q9BRF8	CPPED_HUMAN	calcineurin-like phosphoesterase domain	294							hydrolase activity|metal ion binding				0						CTCATCTAGACTGTAGTATCG	0.507													12	51	---	---	---	---	PASS	A	12758807	A	A	12758807	3	1	6	1	0	0	0	0	1	0	0	0	3822	565	20	3	67	3	CPPED1	16	12758807	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	8510989	12758807	77595946	314	5091										
MYH11	4629	broad.mit.edu	37	chr16	15814079	15814079	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtcggcctgaagctccaggtCtttcaggtccccttccagct	10	15	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:15814079C>T	uc002ddy.2	-	34	4989	c.4882G>A	c.(4882-4884)GAC>AAC	p.D1628N	MYH11_uc002ddv.2_Missense_Mutation_p.D1635N|MYH11_uc002ddw.2_Missense_Mutation_p.D1628N|MYH11_uc002ddx.2_Missense_Mutation_p.D1635N|MYH11_uc010bvg.2_Missense_Mutation_p.D1460N|NDE1_uc010uzy.1_Intron|NDE1_uc002dds.2_Intron|MYH11_uc010bvh.2_Missense_Mutation_p.D334N|NDE1_uc002ddz.1_5'Flank	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1628	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						AGCTCCAGGTCTTTCAGGTCC	0.587			T	CBFB	AML								6	48	---	---	---	---	PASS	T	15814079	T	T	15814079	3	4	6	1	0	0	0	0	1	0	0	0	10031	913	32	2	1103	2	MYH11	16	15814079	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	3055272	15814079	74540674	315	5092										
XPO6	23214	broad.mit.edu	37	chr16	28109925	28109925	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tagtagcgcaggtcgttgacCagcctgtgcacattctgggt	13	10	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:28109925C>A	uc002dpa.1	-	24	3813	c.3312G>T	c.(3310-3312)CTG>CTT	p.L1104L	XPO6_uc002dpb.1_Silent_p.L1090L|XPO6_uc010vcp.1_Silent_p.L1103L	NM_015171	NP_055986	Q96QU8	XPO6_HUMAN	exportin 6	1104					protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2						GGTCGTTGACCAGCCTGTGCA	0.607													16	8	---	---	---	---	PASS	A	28109925	A	A	28109925	2	1	6	1	0	0	0	0	0	0	0	1	17445	581	21	3		3	XPO6	16	28109925	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	12295846	28109925	62244828	316	5093										
SULT1A1	6817	broad.mit.edu	37	chr16	28619685	28619685	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcttcaggagtcgtggggccGgtgtgtctttcagagtctcc	14	10	5	1	rs142537541		TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:28619685G>A	uc002dqi.2	-	3	772	c.299C>T	c.(298-300)CCG>CTG	p.P100L	uc010vct.1_Intron|SULT1A1_uc002dqj.2_Missense_Mutation_p.P100L|SULT1A1_uc002dqk.2_Missense_Mutation_p.P100L|SULT1A1_uc002dql.2_Missense_Mutation_p.P100L|SULT1A1_uc002dqm.2_Intron|SULT1A1_uc002dqn.2_Missense_Mutation_p.P191L|SULT1A1_uc002dqo.2_Missense_Mutation_p.P100L|SULT1A1_uc002dqp.2_Missense_Mutation_p.P100L	NM_177534	NP_803878	P50225	ST1A1_HUMAN	sulfotransferase family, cytosolic, 1A,	100					3'-phosphoadenosine 5'-phosphosulfate metabolic process|catecholamine metabolic process|flavonoid metabolic process|steroid metabolic process|sulfation|xenobiotic metabolic process	cytosol	aryl sulfotransferase activity|flavonol 3-sulfotransferase activity				0						TCGTGGGGCCGGTGTGTCTTT	0.537													21	73	---	---	---	---	PASS	A	28619685	A	A	28619685	3	1	6	1	0	0	0	0	1	0	0	0	15371	1116	39	1	608	1	SULT1A1	16	28619685	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	509760	28619685	61735068	317	5094										
SEZ6L2	26470	broad.mit.edu	37	chr16	29888689	29888689	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcgggcccagaggagagaagGcggcggcgcggctgaggtcc	20	11	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:29888689G>A	uc002duq.3	-	11	2052	c.1812C>T	c.(1810-1812)CGC>CGT	p.R604R	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Silent_p.R534R|SEZ6L2_uc002dur.3_Silent_p.R534R|SEZ6L2_uc002dus.3_Silent_p.R490R|SEZ6L2_uc010vec.1_Silent_p.R604R|SEZ6L2_uc010ved.1_Silent_p.R560R	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	604	CUB 3.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						AGGAGAGAAGGCGGCGGCGCG	0.662													6	0	---	---	---	---	PASS	A	29888689	A	A	29888689	2	1	6	1	0	0	0	0	0	0	0	1	14144	1190	42	3		3	SEZ6L2	16	29888689	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	1269004	29888689	60466064	318	5095										
SETD1A	9739	broad.mit.edu	37	chr16	30975589	30975589	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctcagtcctcccaaggaaccCcctacacgtctcggggcagc	9	18	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:30975589C>T	uc002ead.1	+	6	1500	c.814C>T	c.(814-816)CCC>TCC	p.P272S	SETD1A_uc002eae.1_Missense_Mutation_p.P272S	NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	272	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						CCAAGGAACCCCCTACACGTC	0.632													10	35	---	---	---	---	PASS	T	30975589	T	T	30975589	3	4	6	1	0	0	0	0	1	0	0	0	14130	623	22	3	832	3	SETD1A	16	30975589	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	1086900	30975589	59379164	319	5096										
CDH16	1014	broad.mit.edu	37	chr16	66950320	66950320	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctggccttcagccccctcacGgggcagcggcaactgatgga	13	15	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:66950320G>A	uc002eql.2	-	4	215	c.142C>T	c.(142-144)CGT>TGT	p.R48C	CDH16_uc010cdy.2_Missense_Mutation_p.R48C|CDH16_uc002eqm.2_Missense_Mutation_p.R48C	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	48	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		GCCCCCTCACGGGGCAGCGGC	0.552													7	18	---	---	---	---	PASS	A	66950320	A	A	66950320	3	1	6	1	0	0	0	0	1	0	0	0	3101	1116	39	1	2407	1	CDH16	16	66950320	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	35974731	66950320	23404433	320	5097										
NRN1L	123904	broad.mit.edu	37	chr16	67920066	67920068	+	In_Frame_Del	DEL	GCT	-	-													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tccgaaaccaaccaggagacGctgcgggctacagcgcctgc							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:67920066_67920068delGCT	uc002euu.2	+	3	428_430	c.402_404delGCT	c.(400-405)ACGCTG>ACG	p.L135del	EDC4_uc002eut.1_3'UTR	NM_198443	NP_940845	Q496H8	NRN1L_HUMAN	neuritin 1-like precursor	135						anchored to membrane|plasma membrane				central_nervous_system(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00415)|Epithelial(162;0.0182)|all cancers(182;0.119)		ACCAGGAGACGCTGCGGGCTACA	0.675													7	9	---	---	---	---		-	67920068	-	-	67920066	7	5	6	1	0	1	0	1	0	0	0	0	10659	1074	38	0	412	0	NRN1L	16	67920066	In_Frame_Del	DEL	GCT	TCGA-18-3411-01A-01D-0983-08	969746	67920066	22434687	321	5098										
HYDIN	54768	broad.mit.edu	37	chr16	71103239	71103239	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atggtgaattcttttggtttCattgaggatatttcttcctt	8	5	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:71103239C>T	uc002ezr.2	-	14	2033	c.1905G>A	c.(1903-1905)ATG>ATA	p.M635I	HYDIN_uc010cfz.1_Missense_Mutation_p.M380I|HYDIN_uc002ezv.2_Missense_Mutation_p.M635I|HYDIN_uc010vmc.1_Missense_Mutation_p.M652I|HYDIN_uc010vmd.1_Missense_Mutation_p.M662I|HYDIN_uc002ezw.3_Missense_Mutation_p.M652I	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	635										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CTTTTGGTTTCATTGAGGATA	0.483													8	54	---	---	---	---	PASS	T	71103239	T	T	71103239	3	4	6	1	0	0	0	0	1	0	0	0	7467	826	29	2	13761	2	HYDIN	16	71103239	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	3183173	71103239	19251514	322	5099										
PMFBP1	83449	broad.mit.edu	37	chr16	72159293	72159293	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aggctctttgtctctgaggtCacgtgattgagcttccggaa	12	9	3	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:72159293C>G	uc002fcc.3	-	16	2452	c.2280G>C	c.(2278-2280)GTG>GTC	p.V760V	PMFBP1_uc002fcd.2_Silent_p.V755V|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Silent_p.V610V|PMFBP1_uc010cgo.1_Silent_p.V51V	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	760										ovary(2)	2		Ovarian(137;0.179)				TCTCTGAGGTCACGTGATTGA	0.488											OREG0023927	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	93	---	---	---	---	PASS	G	72159293	G	G	72159293	2	3	6	1	0	0	0	0	0	0	0	1	12134	813	29	2		2	PMFBP1	16	72159293	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	1056054	72159293	18195460	323	5100										
RFWD3	55159	broad.mit.edu	37	chr16	74666541	74666541	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgtactgactgctcttcatgTtggcagtactcaacatctta	7	10	4	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:74666541T>C	uc002fda.2	-	9	1555	c.1457A>G	c.(1456-1458)AAC>AGC	p.N486S	RFWD3_uc010vmx.1_Missense_Mutation_p.N6S|RFWD3_uc010cgq.2_Missense_Mutation_p.N486S	NM_018124	NP_060594	Q6PCD5	RFWD3_HUMAN	ring finger and WD repeat domain 3	486					DNA repair|mitotic cell cycle G1/S transition DNA damage checkpoint|response to ionizing radiation	nucleus	MDM2 binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|breast(1)	3						GCTCTTCATGTTGGCAGTACT	0.433													6	28	---	---	---	---	PASS	C	74666541	C	C	74666541	3	2	6	1	0	0	0	0	1	0	0	0	13261	1725	60	5	887	5	RFWD3	16	74666541	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	2507248	74666541	15688212	324	5101										
VAT1L	57687	broad.mit.edu	37	chr16	77850871	77850871	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agggaatattgacaaccctcCcaagactcccctggtgccag	9	14	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:77850871C>T	uc002ffg.1	+	2	384	c.287C>T	c.(286-288)CCC>CTC	p.P96L		NM_020927	NP_065978	Q9HCJ6	VAT1L_HUMAN	vesicle amine transport protein 1 homolog (T.	96							oxidoreductase activity|zinc ion binding			central_nervous_system(1)	1						GACAACCCTCCCAAGACTCCC	0.438													11	56	---	---	---	---	PASS	T	77850871	T	T	77850871	3	4	6	1	0	0	0	0	1	0	0	0	17127	623	22	3	293	3	VAT1L	16	77850871	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	3184330	77850871	12503882	325	5102										
LRRC50	123872	broad.mit.edu	37	chr16	84188191	84188191	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctttttgttaggttttgatcGcattgagaacctggaagagt	11	5	0	3	rs34897947		TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:84188191G>A	uc002fhl.3	+	4	543	c.362G>A	c.(361-363)CGC>CAC	p.R121H	LRRC50_uc010chi.1_RNA	NM_178452	NP_848547	Q8NEP3	DAAF1_HUMAN	leucine rich repeat containing 50	121	LRR 1.				axonemal dynein complex assembly|cilium morphogenesis	cilium axoneme|cytoplasm|spindle pole	dynein binding				0						GGTTTTGATCGCATTGAGAAC	0.478									Kartagener_syndrome				5	30	---	---	---	---	PASS	A	84188191	A	A	84188191	3	1	6	1	0	0	0	0	1	0	0	0	9009	1087	38	1	376	1	LRRC50	16	84188191	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	6337320	84188191	6166562	326	5103										
FOXF1	2294	broad.mit.edu	37	chr16	86544553	86544553	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cactactggaccatcgacccGgccagcgagttcatgttcga	10	14	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:86544553G>C	uc002fjl.2	+	1	421	c.378G>C	c.(376-378)CCG>CCC	p.P126P	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	126	Fork-head.				branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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 factor binding				0						CCATCGACCCGGCCAGCGAGT	0.632													28	21	---	---	---	---	PASS	C	86544553	C	C	86544553	2	2	6	1	0	0	0	0	0	0	0	1	6005	1103	39	4		4	FOXF1	16	86544553	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	2356362	86544553	3810200	327	5104										
ZNF778	197320	broad.mit.edu	37	chr16	89294627	89294627	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aacccacaccggtgagaaacCctacatatgtaaggagtgtg	10	10	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr16:89294627C>A	uc002fmv.2	+	6	2186	c.1847C>A	c.(1846-1848)CCC>CAC	p.P616H	ZNF778_uc010vpf.1_Intron|ZNF778_uc002fmw.1_Missense_Mutation_p.P574H|ZNF778_uc010vpg.1_Missense_Mutation_p.P379H	NM_182531	NP_872337	Q96MU6	ZN778_HUMAN	zinc finger protein 778	616					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0269)		GGTGAGAAACCCTACATATGT	0.463													19	70	---	---	---	---	PASS	A	89294627	A	A	89294627	3	1	6	1	0	0	0	0	1	0	0	0	18148	623	22	3	1865	3	ZNF778	16	89294627	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2750074	89294627	1060126	328	5105										
RAP1GAP2	23108	broad.mit.edu	37	chr17	2866729	2866729	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tggtttgtcttgcaggacgaCtatatcccataccccagcat	8	12	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:2866729C>A	uc010ckd.2	+	6	342	c.252C>A	c.(250-252)GAC>GAA	p.D84E	RAP1GAP2_uc010cke.2_Missense_Mutation_p.D69E	NM_015085	NP_055900	Q684P5	RPGP2_HUMAN	RAP1 GTPase activating protein 2 isoform 1	84					regulation of small GTPase mediated signal transduction	centrosome|cytosol|perinuclear region of cytoplasm	GTPase activator activity			ovary(1)	1						TGCAGGACGACTATATCCCAT	0.587													25	69	---	---	---	---	PASS	A	2866729	A	A	2866729	3	1	6	1	0	0	0	0	1	0	0	0	13038	564	20	3	274	3	RAP1GAP2	17	2866729	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08		2866729	78328481	329	5106										
TP53	7157	broad.mit.edu	37	chr17	7577046	7577046	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agtgctccctgggggcagctCgtggtgaggctcccctttct	14	13	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:7577046C>A	uc002gim.2	-	8	1086	c.892G>T	c.(892-894)GAG>TAG	p.E298*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.E298*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.E166*|TP53_uc010cng.1_Nonsense_Mutation_p.E166*|TP53_uc002gii.1_Nonsense_Mutation_p.E166*|TP53_uc010cnh.1_Nonsense_Mutation_p.E298*|TP53_uc010cni.1_Nonsense_Mutation_p.E298*|TP53_uc002gij.2_Nonsense_Mutation_p.E298*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	298	Interaction with HIPK1 (By similarity).		E -> V (in sporadic cancers; somatic mutation).|E -> Q (in sporadic cancers; somatic mutation).|E -> A (in a sporadic cancer; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).|E -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.E298*(35)|p.0?(7)|p.E298K(2)|p.?(2)|p.E298V(2)|p.L299fs*2(1)|p.L265_K305del41(1)|p.E298A(1)|p.E298fs*53(1)|p.G293fs*1(1)|p.E298fs*47(1)|p.E298E(1)|p.E298Q(1)|p.E298_P301delELPP(1)|p.H296_S303delHHELPPGS(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)		GGGGGCAGCTCGTGGTGAGGC	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			20	12	---	---	---	---	PASS	A	7577046	A	A	7577046	4	1	6	1	0	0	0	0	0	1	0	0	16378	893	31	2	394	2	TP53	17	7577046	Nonsense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	4710317	7577046	73618164	330	5107										
CNTROB	116840	broad.mit.edu	37	chr17	7840130	7840130	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agctcaccagaagcaagcagCaggaggtgagcgccctggag	15	11	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:7840130C>A	uc002gjq.2	+	7	1742	c.823C>A	c.(823-825)CAG>AAG	p.Q275K	CNTROB_uc002gjp.2_Missense_Mutation_p.Q275K|CNTROB_uc002gjr.2_Missense_Mutation_p.Q177K|CNTROB_uc010vum.1_5'Flank	NM_053051	NP_444279	Q8N137	CNTRB_HUMAN	centrobin, centrosomal BRCA2 interacting protein	275	Potential.				centriole replication|centrosome separation|cytokinesis	centriole	protein domain specific binding			breast(1)|central_nervous_system(1)	2		Prostate(122;0.173)				AAGCAAGCAGCAGGAGGTGAG	0.547													21	10	---	---	---	---	PASS	A	7840130	A	A	7840130	3	1	6	1	0	0	0	0	1	0	0	0	3651	711	25	3	845	3	CNTROB	17	7840130	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	263084	7840130	73355080	331	5108										
MYH2	4620	broad.mit.edu	37	chr17	10426947	10426947	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctccaggtgggcgctggtgtCctgctccttcttcagctcct	11	15	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:10426947C>A	uc010coi.2	-	37	5466	c.5338G>T	c.(5338-5340)GAC>TAC	p.D1780Y	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.D1780Y|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1780	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GCGCTGGTGTCCTGCTCCTTC	0.507													34	25	---	---	---	---	PASS	A	10426947	A	A	10426947	3	1	6	1	0	0	0	0	1	0	0	0	10035	855	30	2	503	2	MYH2	17	10426947	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2586817	10426947	70768263	332	5109										
FAM83G	644815	broad.mit.edu	37	chr17	18891670	18891670	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tttcctcttgaagccggcgtCcagcaggtccttgaagatgt	11	11	1	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:18891670C>G	uc002guw.2	-	3	747	c.580G>C	c.(580-582)GAC>CAC	p.D194H	SLC5A10_uc002gur.1_Intron|SLC5A10_uc002guu.1_Intron|SLC5A10_uc002gut.1_Intron|SLC5A10_uc002guv.1_Intron|SLC5A10_uc010vyl.1_Intron	NM_001039999	NP_001035088	A6ND36	FA83G_HUMAN	hypothetical protein LOC644815	194										ovary(1)|central_nervous_system(1)	2						AAGCCGGCGTCCAGCAGGTCC	0.557													7	84	---	---	---	---	PASS	G	18891670	G	G	18891670	3	3	6	1	0	0	0	0	1	0	0	0	5639	855	30	2	1907	2	FAM83G	17	18891670	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	8464723	18891670	62303540	333	5110										
ATAD5	79915	broad.mit.edu	37	chr17	29162409	29162409	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgaaaaatgtctatatgaagTaggaagagatgataattcta	9	2	2	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:29162409T>A	uc002hfs.1	+	2	1656	c.1310T>A	c.(1309-1311)GTA>GAA	p.V437E	ATAD5_uc002hft.1_Missense_Mutation_p.V334E	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	437					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				CTATATGAAGTAGGAAGAGAT	0.313													30	44	---	---	---	---	PASS	A	29162409	A	A	29162409	3	1	6	1	0	0	0	0	1	0	0	0	1076	1638	57	5	1316	5	ATAD5	17	29162409	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	10270739	29162409	52032801	334	5111										
MYO1D	4642	broad.mit.edu	37	chr17	31098203	31098203	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agggatttctggagatgtagAgagcgtagcatttgttctga	14	4	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:31098203A>G	uc002hho.1	-	6	666	c.654T>C	c.(652-654)TCT>TCC	p.S218S	MYO1D_uc002hhp.1_Silent_p.S218S|MYO1D_uc010wcb.1_Silent_p.S218S	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	218	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			GGAGATGTAGAGAGCGTAGCA	0.363													5	37	---	---	---	---	PASS	G	31098203	G	G	31098203	2	3	6	1	0	0	0	0	0	0	0	1	10071	291	11	5		5	MYO1D	17	31098203	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	1935794	31098203	50097007	335	5112										
NLE1	54475	broad.mit.edu	37	chr17	33463218	33463218	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttgtatcggctcagagccctCtccttcaactcctgcactgt	7	15	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:33463218C>T	uc002hiy.1	-	9	1009	c.981G>A	c.(979-981)GAG>GAA	p.E327E	NLE1_uc010ctn.1_Silent_p.E35E|NLE1_uc002hiz.1_Silent_p.E35E	NM_018096	NP_060566	Q9NVX2	NLE1_HUMAN	Notchless gene homolog isoform a	327	WD 5.					nucleolus				breast(3)|ovary(1)	4		Ovarian(249;0.17)				TCAGAGCCCTCTCCTTCAACT	0.537													10	177	---	---	---	---	PASS	T	33463218	T	T	33463218	2	4	6	1	0	0	0	0	0	0	0	1	10460	912	32	2		2	NLE1	17	33463218	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	2365015	33463218	47731992	336	5113										
PEX12	5193	broad.mit.edu	37	chr17	33904432	33904432	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggagaccagcactagccaatCtctgagacttgtgagtgtcc	11	11	1	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:33904432C>A	uc002hjp.2	-	2	921	c.305G>T	c.(304-306)AGA>ATA	p.R102I		NM_000286	NP_000277	O00623	PEX12_HUMAN	peroxisomal biogenesis factor 12	102	Cytoplasmic (Potential).				protein import into peroxisome matrix	integral to peroxisomal membrane	protein C-terminus binding|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		ACTAGCCAATCTCTGAGACTT	0.438													74	106	---	---	---	---	PASS	A	33904432	A	A	33904432	3	1	6	1	0	0	0	0	1	0	0	0	11740	913	32	2	782	2	PEX12	17	33904432	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	441214	33904432	47290778	337	5114										
KRTAP9-2	83899	broad.mit.edu	37	chr17	39382974	39382974	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cacctgctgcaggaccacctGctggaagcccaccactgtga	10	16	0	1	rs149082553	byFrequency	TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:39382974G>T	uc002hwf.2	+	1	75	c.68G>T	c.(67-69)TGC>TTC	p.C23F		NM_031961	NP_114167	Q9BYQ4	KRA92_HUMAN	keratin associated protein 9.2	23	17 X 5 AA repeats of C-C-[RQVSGE]-[SPTQ]- [TASP].					keratin filament	protein binding	p.C23*(1)		upper_aerodigestive_tract(1)	1		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			AGGACCACCTGCTGGAAGCCC	0.647													5	79	---	---	---	---	PASS	T	39382974	T	T	39382974	3	4	6	1	0	0	0	0	1	0	0	0	8573	1319	46	3	70	3	KRTAP9-2	17	39382974	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	5478542	39382974	41812236	338	5115										
KRTAP9-4	85280	broad.mit.edu	37	chr17	39406040	39406040	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cacctgctgcaggaccacctGctggaagcccaccactgtga	10	16	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:39406040G>T	uc002hwi.2	+	1	102	c.68G>T	c.(67-69)TGC>TTC	p.C23F	KRTAP9-9_uc010wfq.1_Intron	NM_033191	NP_149461	Q9BYQ2	KRA94_HUMAN	keratin associated protein 9-4	23	15 X 5 AA repeats of C-C-[RQVGE]-[SPTN]- [TASPF].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			AGGACCACCTGCTGGAAGCCC	0.627													27	63	---	---	---	---	PASS	T	39406040	T	T	39406040	3	4	6	1	0	0	0	0	1	0	0	0	8575	1319	46	3	70	3	KRTAP9-4	17	39406040	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	23066	39406040	41789170	339	5116										
KRT32	3882	broad.mit.edu	37	chr17	39623327	39623327	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccccttcgctgtaccagctgCcggggcccatggagccggag	14	16	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:39623327C>T	uc002hwr.2	-	1	312	c.251G>A	c.(250-252)GGC>GAC	p.G84D		NM_002278	NP_002269	Q14532	K1H2_HUMAN	keratin 32	84	Head.				epidermis development	intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000812)				GTACCAGCTGCCGGGGCCCAT	0.622													6	38	---	---	---	---	PASS	T	39623327	T	T	39623327	3	4	6	1	0	0	0	0	1	0	0	0	8468	739	26	3	1123	3	KRT32	17	39623327	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	217287	39623327	41571883	340	5117										
FKBP10	60681	broad.mit.edu	37	chr17	39974690	39974690	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctctggttggctgatcaaggGcatggaccaggggctgctgg	17	9	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:39974690G>A	uc002hxv.2	+	4	963	c.638G>A	c.(637-639)GGC>GAC	p.G213D	FKBP10_uc002hxw.1_5'Flank	NM_021939	NP_068758	Q96AY3	FKB10_HUMAN	FK506 binding protein 10 precursor	213	PPIase FKBP-type 2.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Breast(137;0.00122)		BRCA - Breast invasive adenocarcinoma(366;0.148)		CTGATCAAGGGCATGGACCAG	0.587													18	24	---	---	---	---	PASS	A	39974690	A	A	39974690	3	1	6	1	0	0	0	0	1	0	0	0	5902	1203	42	3	652	3	FKBP10	17	39974690	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	351363	39974690	41220520	341	5118										
GPATCH8	23131	broad.mit.edu	37	chr17	42478425	42478425	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cctaccttctgcagtccttgGtcagaactcttctcatcggg	8	14	4	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:42478425G>A	uc002igw.1	-	8	1084	c.1020C>T	c.(1018-1020)GAC>GAT	p.D340D	GPATCH8_uc002igv.1_Silent_p.D262D|GPATCH8_uc010wiz.1_Silent_p.D262D	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	340						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)		GCAGTCCTTGGTCAGAACTCT	0.483											OREG0024461	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	54	56	---	---	---	---	PASS	A	42478425	A	A	42478425	2	1	6	1	0	0	0	0	0	0	0	1	6594	1252	44	3		3	GPATCH8	17	42478425	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	2503735	42478425	38716785	342	5119										
CDC27	996	broad.mit.edu	37	chr17	45219266	45219266	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggcccttccaatttggcacaGtacccaaccagtattgtagt	8	12	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:45219266G>A	uc002ild.3	-	12	1631	c.1504C>T	c.(1504-1506)CTG>TTG	p.L502L	CDC27_uc002ile.3_Silent_p.L508L|CDC27_uc002ilf.3_Silent_p.L501L|CDC27_uc010wkp.1_Silent_p.L441L|CDC27_uc010wkq.1_Intron	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2	502	TPR 3.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5						ATTTGGCACAGTACCCAACCA	0.348													8	172	---	---	---	---	PASS	A	45219266	A	A	45219266	2	1	6	1	0	0	0	0	0	0	0	1	3066	1020	36	3		3	CDC27	17	45219266	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	2740841	45219266	35975944	343	5120										
PDK2	5164	broad.mit.edu	37	chr17	48185764	48185764	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcatggtggccttgggtgagGaagatctgtccatcaaggta	14	7	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:48185764G>T	uc002iqc.2	+	8	948	c.844G>T	c.(844-846)GAA>TAA	p.E282*	PDK2_uc002iqb.2_Nonsense_Mutation_p.E218*	NM_002611	NP_002602	Q15119	PDK2_HUMAN	pyruvate dehydrogenase kinase 2 precursor	282	Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|nucleus	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			central_nervous_system(3)	3						CTTGGGTGAGGAAGATCTGTC	0.577									Autosomal_Dominant_Polycystic_Kidney_Disease				7	19	---	---	---	---	PASS	T	48185764	T	T	48185764	4	4	6	1	0	0	0	0	0	1	0	0	11676	1175	41	2	874	2	PDK2	17	48185764	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	2966498	48185764	33009446	344	5121										
OR4D2	124538	broad.mit.edu	37	chr17	56247070	56247070	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tttgtcttcctggggctctcGcagactcgggagctccagcg	13	13	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:56247070G>A	uc010wnp.1	+	1	54	c.54G>A	c.(52-54)TCG>TCA	p.S18S		NM_001004707	NP_001004707	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						TGGGGCTCTCGCAGACTCGGG	0.468													42	56	---	---	---	---	PASS	A	56247070	A	A	56247070	2	1	6	1	0	0	0	0	0	0	0	1	11056	1074	38	1		1	OR4D2	17	56247070	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	8061306	56247070	24948140	345	5122										
EPX	8288	broad.mit.edu	37	chr17	56270463	56270463	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gcagaggccaagttgctggtGgatgctgcctacaattggac	14	9	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:56270463G>A	uc002ivq.2	+	2	227	c.141G>A	c.(139-141)GTG>GTA	p.V47V		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	47					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						AGTTGCTGGTGGATGCTGCCT	0.607													24	49	---	---	---	---	PASS	A	56270463	A	A	56270463	2	1	6	1	0	0	0	0	0	0	0	1	5200	1335	47	3		3	EPX	17	56270463	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	23393	56270463	24924747	346	5123										
MTMR4	9110	broad.mit.edu	37	chr17	56573053	56573053	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tttggcaggcagcactcggtGggttgcaaacggtgctgagg	17	8	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:56573053G>A	uc002iwj.2	-	16	2560	c.2450C>T	c.(2449-2451)CCA>CTA	p.P817L		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	817						cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AGCACTCGGTGGGTTGCAAAC	0.562													13	61	---	---	---	---	PASS	A	56573053	A	A	56573053	3	1	6	1	0	0	0	0	1	0	0	0	9946	1348	47	3	1153	3	MTMR4	17	56573053	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	302590	56573053	24622157	347	5124										
CLTC	1213	broad.mit.edu	37	chr17	57743957	57743957	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttagaacatttcactgatttAtatgatataaaacgtgcagt	6	5	1	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:57743957A>G	uc002ixq.1	+	12	2342	c.1899A>G	c.(1897-1899)TTA>TTG	p.L633L	CLTC_uc002ixp.2_Silent_p.L633L|CLTC_uc002ixr.1_Silent_p.L637L	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	633	Heavy chain arm.|Distal segment.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TCACTGATTTATATGATATAA	0.398			T	ALK|TFE3	ALCL|renal 								20	26	---	---	---	---	PASS	G	57743957	G	G	57743957	2	3	6	1	0	0	0	0	0	0	0	1	3566	446	16	5		5	CLTC	17	57743957	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	1170904	57743957	23451253	348	5125										
RNFT1	51136	broad.mit.edu	37	chr17	58040613	58040613	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cccttaaatactttttctctGacccagatgtctttgcttca	4	12	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:58040613G>A	uc002iya.2	-	2	182	c.89C>T	c.(88-90)TCA>TTA	p.S30L	uc002iye.1_5'Flank|RNFT1_uc002iyb.2_RNA|RNFT1_uc002iyc.2_5'UTR|RNFT1_uc010wop.1_Missense_Mutation_p.S30L|RNFT1_uc002iyd.3_Missense_Mutation_p.S30L	NM_016125	NP_057209	Q5M7Z0	RNFT1_HUMAN	PTD016 protein	30						integral to membrane	zinc ion binding				0	all_cancers(5;1.58e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;7.95e-12)|all cancers(12;1.34e-10)			CTTTTTCTCTGACCCAGATGT	0.443													17	73	---	---	---	---	PASS	A	58040613	A	A	58040613	3	1	6	1	0	0	0	0	1	0	0	0	13501	1294	45	2	1250	2	RNFT1	17	58040613	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	296656	58040613	23154597	349	5126										
ABCA6	23460	broad.mit.edu	37	chr17	67077276	67077276	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gggcagcttataggttaacaAagaggaatacctgaaaacag	11	6	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:67077276A>T	uc002jhw.1	-	37	4802	c.4627T>A	c.(4627-4629)TTG>ATG	p.L1543M		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	1543					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					TAGGTTAACAAAGAGGAATAC	0.373													13	57	---	---	---	---	PASS	T	67077276	T	T	67077276	3	4	6	1	0	0	0	0	1	0	0	0	36	11	1	5	238	5	ABCA6	17	67077276	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	9036663	67077276	14117934	350	5127										
RHBDF2	79651	broad.mit.edu	37	chr17	74473789	74473789	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgccccatcgaccacatcctCctccaggaagctcgggaagg	10	16	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:74473789C>A	uc002jrq.1	-	7	1131	c.838G>T	c.(838-840)GAG>TAG	p.E280*	RHBDF2_uc002jrp.1_Nonsense_Mutation_p.E251*|RHBDF2_uc002jrr.1_Nonsense_Mutation_p.E132*|RHBDF2_uc010wtf.1_Nonsense_Mutation_p.E251*|RHBDF2_uc002jrs.1_Nonsense_Mutation_p.E275*	NM_024599	NP_078875	Q6PJF5	RHDF2_HUMAN	rhomboid, veinlet-like 6 isoform 1	280	Cytoplasmic (Potential).				negative regulation of protein secretion|protein transport|proteolysis	endoplasmic reticulum membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity				0						ACCACATCCTCCTCCAGGAAG	0.637													6	91	---	---	---	---	PASS	A	74473789	A	A	74473789	4	1	6	1	0	0	0	0	0	1	0	0	13320	864	30	2	1784	2	RHBDF2	17	74473789	Nonsense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	7396513	74473789	6721421	351	5128										
ENGASE	64772	broad.mit.edu	37	chr17	77082341	77082341	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggccaggatcgtcgcatggaAtttctggtggagcctgtccc	14	11	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:77082341A>G	uc002jwv.2	+	14	2150	c.2142A>G	c.(2140-2142)GAA>GAG	p.E714E	ENGASE_uc002jww.2_Silent_p.E419E	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	714						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						GTCGCATGGAATTTCTGGTGG	0.617													8	20	---	---	---	---	PASS	G	77082341	G	G	77082341	2	3	6	1	0	0	0	0	0	0	0	1	5118	98	4	5		5	ENGASE	17	77082341	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	2608552	77082341	4112869	352	5129										
ZNF750	79755	broad.mit.edu	37	chr17	80790192	80790192	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aatcgagtttttacaaagacCatacttcatgtgattaaaaa	5	6	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr17:80790192C>A	uc002kga.2	-	2	450	c.139G>T	c.(139-141)GGT>TGT	p.G47C	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	47						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			TTACAAAGACCATACTTCATG	0.423													5	94	---	---	---	---	PASS	A	80790192	A	A	80790192	3	1	6	1	0	0	0	0	1	0	0	0	18129	594	21	3	2040	3	ZNF750	17	80790192	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	3707851	80790192	405018	353	5130										
COLEC12	81035	broad.mit.edu	37	chr18	346412	346412	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	taacctcgacctcatcaaatCttgttgcatcctgagagaaa	6	11	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:346412C>G	uc002kkm.2	-	5	1425	c.1210G>C	c.(1210-1212)GAT>CAT	p.D404H		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	404	Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				CTCATCAAATCTTGTTGCATC	0.428													14	75	---	---	---	---	PASS	G	346412	G	G	346412	3	3	6	1	0	0	0	0	1	0	0	0	3712	913	32	2	1042	2	COLEC12	18	346412	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08		346412	77730836	354	5131										
MYOM1	8736	broad.mit.edu	37	chr18	3189056	3189056	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctttaattctttcttcttccGtatcagtaattccactgaca	3	11	4	1	rs140845661	by1000genomes	TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:3189056G>A	uc002klp.2	-	4	795	c.461C>T	c.(460-462)ACG>ATG	p.T154M	MYOM1_uc002klq.2_Missense_Mutation_p.T154M	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	154						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						TTCTTCTTCCGTATCAGTAAT	0.383													12	109	---	---	---	---	PASS	A	3189056	A	A	3189056	3	1	6	1	0	0	0	0	1	0	0	0	10091	1145	40	1	4736	1	MYOM1	18	3189056	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	2842644	3189056	74888192	355	5132										
APCDD1	147495	broad.mit.edu	37	chr18	10485545	10485545	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctgcccccaaaggcagacctGaccatcggcctgcacgggga	12	16	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:10485545G>C	uc002kom.3	+	4	1215	c.861G>C	c.(859-861)CTG>CTC	p.L287L		NM_153000	NP_694545	Q8J025	APCD1_HUMAN	adenomatosis polyposis coli down-regulated 1	287	Extracellular (Potential).				hair follicle development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to plasma membrane	Wnt-protein binding				0				READ - Rectum adenocarcinoma(15;0.08)		AGGCAGACCTGACCATCGGCC	0.597													7	46	---	---	---	---	PASS	C	10485545	C	C	10485545	2	2	6	1	0	0	0	0	0	0	0	1	765	1277	45	2		2	APCDD1	18	10485545	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	7296489	10485545	67591703	356	5133										
DSC3	1825	broad.mit.edu	37	chr18	28612167	28612167	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aaatttctcacctctgccaaTtattttgtctgcctctagtt	4	11	4	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:28612167T>G	uc002kwj.3	-	2	300	c.145A>C	c.(145-147)ATT>CTT	p.I49L	DSC3_uc002kwi.3_Missense_Mutation_p.I49L	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	49					homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			CCTCTGCCAATTATTTTGTCT	0.343													8	26	---	---	---	---	PASS	G	28612167	G	G	28612167	3	3	6	1	0	0	0	0	1	0	0	0	4767	1493	52	5	2636	5	DSC3	18	28612167	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	18126622	28612167	49465081	357	5134										
KIAA1012	22878	broad.mit.edu	37	chr18	29487430	29487430	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atagaataccaaccaaggcaCcagctgcataaagcattgct	7	11	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:29487430C>G	uc002kxc.3	-	9	1746	c.1382G>C	c.(1381-1383)GGT>GCT	p.G461A	KIAA1012_uc002kxb.3_Missense_Mutation_p.G407A|KIAA1012_uc002kxd.3_RNA|KIAA1012_uc002kxe.2_Missense_Mutation_p.G461A	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	461					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						AACCAAGGCACCAGCTGCATA	0.338													6	75	---	---	---	---	PASS	G	29487430	G	G	29487430	3	3	6	1	0	0	0	0	1	0	0	0	8204	507	18	4	3009	4	KIAA1012	18	29487430	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	875263	29487430	48589818	358	5135										
ASXL3	80816	broad.mit.edu	37	chr18	31324142	31324142	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tggacaaaaattcagggcctCgaaacagggcagataattct	10	8	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:31324142C>A	uc010dmg.1	+	12	4385	c.4330C>A	c.(4330-4332)CGA>AGA	p.R1444R	ASXL3_uc002kxq.2_Silent_p.R1151R	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1444					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TTCAGGGCCTCGAAACAGGGC	0.468											OREG0024911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	190	---	---	---	---	PASS	A	31324142	A	A	31324142	2	1	6	1	0	0	0	0	0	0	0	1	1068	876	31	2		2	ASXL3	18	31324142	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	1836712	31324142	46753106	359	5136										
NOL4	8715	broad.mit.edu	37	chr18	31432874	31432874	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	taaaaatgcagctgattctcGatatcctgcaacaagctgtc	7	10	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:31432874G>T	uc010dmi.2	-	11	2078	c.1849C>A	c.(1849-1851)CGA>AGA	p.R617R	NOL4_uc010xbs.1_Silent_p.R332R|NOL4_uc002kxr.3_Silent_p.R389R|NOL4_uc010xbt.1_Silent_p.R543R|NOL4_uc010dmh.2_Silent_p.R479R|NOL4_uc010xbu.1_Silent_p.R553R|NOL4_uc002kxt.3_Silent_p.R515R	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	617						nucleolus	RNA binding			ovary(3)	3						GCTGATTCTCGATATCCTGCA	0.458													18	41	---	---	---	---	PASS	T	31432874	T	T	31432874	2	4	6	1	0	0	0	0	0	0	0	1	10524	1066	37	2		2	NOL4	18	31432874	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	108732	31432874	46644374	360	5137										
DTNA	1837	broad.mit.edu	37	chr18	32455336	32455336	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctccctcacaggagtaggggGagatgtacaagaggcatttg	14	8	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:32455336G>A	uc010dmn.1	+	17	1797	c.1796G>A	c.(1795-1797)GGA>GAA	p.G599E	DTNA_uc002kxw.2_Missense_Mutation_p.G542E|DTNA_uc010dmj.2_Missense_Mutation_p.G539E|DTNA_uc002kxz.2_Missense_Mutation_p.G546E|DTNA_uc002kxy.2_Missense_Mutation_p.G539E|DTNA_uc010xby.1_Missense_Mutation_p.G289E|DTNA_uc010xbz.1_Missense_Mutation_p.G308E|DTNA_uc010xca.1_Missense_Mutation_p.G251E|DTNA_uc002kye.2_Missense_Mutation_p.G247E	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	599					neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						GGAGTAGGGGGAGATGTACAA	0.527													22	10	---	---	---	---	PASS	A	32455336	A	A	32455336	3	1	6	1	0	0	0	0	1	0	0	0	4788	1174	41	2	1952	2	DTNA	18	32455336	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	1022462	32455336	45621912	361	5138										
POLI	11201	broad.mit.edu	37	chr18	51820157	51820157	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atttttctaaagaaaaagacAttaatgaattcccactctgt	4	7	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:51820157A>G	uc002lfj.3	+	10	1611	c.1543A>G	c.(1543-1545)ATT>GTT	p.I515V	POLI_uc010xds.1_Missense_Mutation_p.I436V|POLI_uc002lfk.3_Missense_Mutation_p.I412V|POLI_uc010dpg.2_Missense_Mutation_p.I111V	NM_007195	NP_009126	Q9UNA4	POLI_HUMAN	DNA polymerase iota	515					DNA repair|DNA replication	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding|protein binding			ovary(2)|kidney(1)	3				Colorectal(16;0.0234)|READ - Rectum adenocarcinoma(59;0.197)		AGAAAAAGACATTAATGAATT	0.378								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					10	18	---	---	---	---	PASS	G	51820157	G	G	51820157	3	3	6	1	0	0	0	0	1	0	0	0	12203	217	8	5	1581	5	POLI	18	51820157	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	19364821	51820157	26257091	362	5139										
TCF4	6925	broad.mit.edu	37	chr18	52924583	52924583	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cttcataattaggagacgatGaggcctgtcctccatttcta	8	10	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:52924583G>A	uc002lfz.2	-	14	1721	c.1109C>T	c.(1108-1110)TCA>TTA	p.S370L	TCF4_uc002lfw.3_Missense_Mutation_p.S210L|TCF4_uc010xdu.1_Missense_Mutation_p.S240L|TCF4_uc010xdv.1_Missense_Mutation_p.S240L|TCF4_uc002lfx.2_Missense_Mutation_p.S299L|TCF4_uc010xdw.1_Missense_Mutation_p.S240L|TCF4_uc002lfy.2_Missense_Mutation_p.S328L|TCF4_uc010xdx.1_Missense_Mutation_p.S346L|TCF4_uc010dph.1_Missense_Mutation_p.S370L|TCF4_uc010xdy.1_Missense_Mutation_p.S346L|TCF4_uc002lga.2_Missense_Mutation_p.S472L|TCF4_uc002lgb.1_Missense_Mutation_p.S210L|TCF4_uc010dpi.2_Missense_Mutation_p.S376L|TCF4_uc002lfv.2_Missense_Mutation_p.S153L	NM_003199	NP_003190	P15884	ITF2_HUMAN	transcription factor 4 isoform b	370					positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)		AGGAGACGATGAGGCCTGTCC	0.418													36	51	---	---	---	---	PASS	A	52924583	A	A	52924583	3	1	6	1	0	0	0	0	1	0	0	0	15692	1294	45	2	930	2	TCF4	18	52924583	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	1104426	52924583	25152665	363	5140										
KIAA1468	57614	broad.mit.edu	37	chr18	59972682	59972682	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgcaagcttagtgagtgaagAtacaaagaccaagtttttga	10	5	0	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:59972682A>C	uc002lil.2	+	29	3781	c.3566A>C	c.(3565-3567)GAT>GCT	p.D1189A	KIAA1468_uc010xel.1_Missense_Mutation_p.D1189A|KIAA1468_uc002lim.2_Missense_Mutation_p.D867A	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	1189							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				GTGAGTGAAGATACAAAGACC	0.323													20	98	---	---	---	---	PASS	C	59972682	C	C	59972682	3	2	6	1	0	0	0	0	1	0	0	0	8236	333	12	5	3680	5	KIAA1468	18	59972682	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	7048099	59972682	18104566	364	5141										
ZNF407	55628	broad.mit.edu	37	chr18	72632562	72632562	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctgtcccaagtgtgactacgGgaccaacgtcccggtggagt	13	12	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:72632562G>T	uc002llw.2	+	7	5399	c.5342G>T	c.(5341-5343)GGG>GTG	p.G1781V	ZNF407_uc010dqu.1_Missense_Mutation_p.G1781V	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1781	C2H2-type 22.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		TGTGACTACGGGACCAACGTC	0.493													4	35	---	---	---	---	PASS	T	72632562	T	T	72632562	3	4	6	1	0	0	0	0	1	0	0	0	17884	1232	43	3	5478	3	ZNF407	18	72632562	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	12659880	72632562	5444686	365	5142										
SALL3	27164	broad.mit.edu	37	chr18	76756945	76756945	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccgcgagacgcggccgccgcCtgtctgtggagaaccccatg	14	16	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:76756945C>A	uc002lmt.2	+	3	3526	c.3526C>A	c.(3526-3528)CTG>ATG	p.L1176M	SALL3_uc010dra.2_Missense_Mutation_p.L711M	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1176					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CGGCCGCCGCCTGTCTGTGGA	0.617													6	15	---	---	---	---	PASS	A	76756945	A	A	76756945	3	1	6	1	0	0	0	0	1	0	0	0	13812	680	24	3	3536	3	SALL3	18	76756945	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	4124383	76756945	1320303	366	5143										
SALL3	27164	broad.mit.edu	37	chr18	76757113	76757113	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgaagaacaacgagatctccGtcatccagaacggcggcatc	10	12	2	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr18:76757113G>A	uc002lmt.2	+	3	3694	c.3694G>A	c.(3694-3696)GTC>ATC	p.V1232I	SALL3_uc010dra.2_Missense_Mutation_p.V767I	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1232					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CGAGATCTCCGTCATCCAGAA	0.622													6	71	---	---	---	---	PASS	A	76757113	A	A	76757113	3	1	6	1	0	0	0	0	1	0	0	0	13812	1145	40	1	3704	1	SALL3	18	76757113	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	168	76757113	1320135	367	5144										
REXO1	57455	broad.mit.edu	37	chr19	1828009	1828009	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gctcactgccgcgggagcccCggggccgcttggcggcccgc	17	18	1	0	rs143118600		TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:1828009C>A	uc002lua.3	-	2	874	c.779G>T	c.(778-780)CGG>CTG	p.R260L	REXO1_uc010dsr.1_Missense_Mutation_p.R214L	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3	260						nucleus	exonuclease activity|nucleic acid binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGGGAGCCCCGGGGCCGCTT	0.652													4	9	---	---	---	---	PASS	A	1828009	A	A	1828009	3	1	6	1	0	0	0	0	1	0	0	0	13241	652	23	1	2946	1	REXO1	19	1828009	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08		1828009	57300974	368	5145										
INSR	3643	broad.mit.edu	37	chr19	7125485	7125485	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cagctctcgaaggagggtgaTcttctctcgagacacctccc	10	14	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:7125485T>C	uc002mgd.1	-	17	3176	c.3067A>G	c.(3067-3069)ATC>GTC	p.I1023V	INSR_uc002mge.1_Missense_Mutation_p.I1011V	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	1023	Protein kinase.|Cytoplasmic (Potential).		I -> F.		activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AGGAGGGTGATCTTCTCTCGA	0.577													13	32	---	---	---	---	PASS	C	7125485	C	C	7125485	3	2	6	1	0	0	0	0	1	0	0	0	7773	1435	50	5	1105	5	INSR	19	7125485	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	5297476	7125485	52003498	369	5146										
KIAA1543	57662	broad.mit.edu	37	chr19	7675433	7675433	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agctcgtgcaggatttctgtGcctctcgccttcctcgtggc	11	14	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:7675433G>A	uc002mgv.3	+	6	933	c.832G>A	c.(832-834)GCC>ACC	p.A278T	KIAA1543_uc002mgu.3_Missense_Mutation_p.A305T	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	278	CH.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						GGATTTCTGTGCCTCTCGCCT	0.632													16	54	---	---	---	---	PASS	A	7675433	A	A	7675433	3	1	6	1	0	0	0	0	1	0	0	0	8243	1319	46	3	943	3	KIAA1543	19	7675433	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	549948	7675433	51453550	370	5147										
MUC16	94025	broad.mit.edu	37	chr19	9065831	9065831	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	attggtgatgtggctttggaTgtctctgagtcagctaaggc	14	6	2	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:9065831T>A	uc002mkp.2	-	3	21819	c.21615A>T	c.(21613-21615)ACA>ACT	p.T7205T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7207	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGGCTTTGGATGTCTCTGAGT	0.488													22	78	---	---	---	---	PASS	A	9065831	A	A	9065831	2	1	6	1	0	0	0	0	0	0	0	1	9973	1451	51	5		5	MUC16	19	9065831	Silent	SNP	T	TCGA-18-3411-01A-01D-0983-08	1390398	9065831	50063152	371	5148										
MUC16	94025	broad.mit.edu	37	chr19	9071159	9071159	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gatttatgtccagacccggaAgtccctacattggtcactgc	9	12	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:9071159A>T	uc002mkp.2	-	3	16491	c.16287T>A	c.(16285-16287)ACT>ACA	p.T5429T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5431	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGACCCGGAAGTCCCTACAT	0.527													50	173	---	---	---	---	PASS	T	9071159	T	T	9071159	2	4	6	1	0	0	0	0	0	0	0	1	9973	59	3	5		5	MUC16	19	9071159	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	5328	9071159	50057824	372	5149										
OR7G3	390883	broad.mit.edu	37	chr19	9237355	9237355	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggcagcctgtgtaattgatgGattgagcctgtgcctggatg	15	7	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:9237355G>T	uc010xkl.1	-	1	272	c.272C>A	c.(271-273)TCC>TAC	p.S91Y		NM_001001958	NP_001001958	Q8NG95	OR7G3_HUMAN	olfactory receptor, family 7, subfamily G,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTAATTGATGGATTGAGCCTG	0.483													30	53	---	---	---	---	PASS	T	9237355	T	T	9237355	3	4	6	1	0	0	0	0	1	0	0	0	11224	1174	41	2	669	2	OR7G3	19	9237355	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	166196	9237355	49891628	373	5150										
DNMT1	1786	broad.mit.edu	37	chr19	10251824	10251824	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tttccagggctacgggcatgGttgggaggatcttcaaagct	14	8	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:10251824G>T	uc002mng.2	-	30	3483	c.3303C>A	c.(3301-3303)AAC>AAA	p.N1101K	DNMT1_uc002mne.2_5'Flank|DNMT1_uc002mnf.2_Missense_Mutation_p.N25K|DNMT1_uc010xlc.1_Missense_Mutation_p.N1117K|DNMT1_uc002mnh.2_Missense_Mutation_p.N996K|DNMT1_uc010xld.1_Missense_Mutation_p.N1101K	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	1101					chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	TACGGGCATGGTTGGGAGGAT	0.468													11	69	---	---	---	---	PASS	T	10251824	T	T	10251824	3	4	6	1	0	0	0	0	1	0	0	0	4675	1252	44	3	1591	3	DNMT1	19	10251824	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	1014469	10251824	48877159	374	5151										
TYK2	7297	broad.mit.edu	37	chr19	10477140	10477140	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gggatgccatggcggagagcGaggtgacagaggtgcagaaa	19	6	0	4	rs147934502		TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:10477140G>T	uc002moc.3	-	6	960	c.582C>A	c.(580-582)CTC>CTA	p.L194L	TYK2_uc010dxe.2_Silent_p.L9L|TYK2_uc002mod.2_Silent_p.L194L	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	194	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			GGCGGAGAGCGAGGTGACAGA	0.597													4	70	---	---	---	---	PASS	T	10477140	T	T	10477140	2	4	6	1	0	0	0	0	0	0	0	1	16807	1045	37	2		2	TYK2	19	10477140	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	225316	10477140	48651843	375	5152										
AKAP8	10270	broad.mit.edu	37	chr19	15484801	15484801	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccttggcggcctcccacgagGctgggccgtagctgtaggtt	15	13	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:15484801G>C	uc002nav.2	-	4	228	c.167C>G	c.(166-168)GCC>GGC	p.A56G	AKAP8_uc010dzy.2_5'Flank|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Intron	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	56					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						CTCCCACGAGGCTGGGCCGTA	0.622													8	69	---	---	---	---	PASS	C	15484801	C	C	15484801	3	2	6	1	0	0	0	0	1	0	0	0	457	1203	42	4	1955	4	AKAP8	19	15484801	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	5007661	15484801	43644182	376	5153										
IL12RB1	3594	broad.mit.edu	37	chr19	18186641	18186641	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cgtcgtcggagctggaattcCtgggccacattcatctccag	11	13	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:18186641C>A	uc002nhw.1	-	7	682	c.618G>T	c.(616-618)CAG>CAT	p.Q206H	IL12RB1_uc010xqb.1_Missense_Mutation_p.Q206H|IL12RB1_uc002nhx.1_Missense_Mutation_p.Q246H|IL12RB1_uc002nhy.2_Missense_Mutation_p.Q206H	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1	206	Extracellular (Potential).|Fibronectin type-III 2.				cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1						GCTGGAATTCCTGGGCCACAT	0.572													4	38	---	---	---	---	PASS	A	18186641	A	A	18186641	3	1	6	1	0	0	0	0	1	0	0	0	7626	680	24	3	1543	3	IL12RB1	19	18186641	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2701840	18186641	40942342	377	5154										
NCAN	1463	broad.mit.edu	37	chr19	19338799	19338799	+	Silent	SNP	G	C	C													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcagtgtacagcaaagggctGgatgcaagttccccatctgc							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:19338799G>C	uc002nlz.2	+	8	2469	c.2370G>C	c.(2368-2370)CTG>CTC	p.L790L	NCAN_uc010ecc.1_Silent_p.L354L	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	790					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GCAAAGGGCTGGATGCAAGTT	0.577													46	23	---	---	---	---	PASS	C	19338799	C	C	19338799	2	2	6	1	0	0	0	0	0	0	0	1	10204	1335	47	4		4	NCAN	19	19338799	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	1152158	19338799	39790184	378	5155	208	2								
NCAN	1463	broad.mit.edu	37	chr19	19338800	19338800	+	Missense_Mutation	SNP	G	T	T													0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cagtgtacagcaaagggctgGatgcaagttccccatctgcc							TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:19338800G>T	uc002nlz.2	+	8	2470	c.2371G>T	c.(2371-2373)GAT>TAT	p.D791Y	NCAN_uc010ecc.1_Missense_Mutation_p.D355Y	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	791					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			CAAAGGGCTGGATGCAAGTTC	0.582													44	23	---	---	---	---	PASS	T	19338800	T	T	19338800	3	4	6	1	0	0	0	0	1	0	0	0	10204	1174	41	2	2397	2	NCAN	19	19338800	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	1	19338800	39790183	379	5156	208	2								
ZNF253	56242	broad.mit.edu	37	chr19	20003536	20003536	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atcttttaaatgttcctccaCttttaattagcataagataa	3	7	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:20003536C>A	uc002noj.2	+	4	1572	c.1480C>A	c.(1480-1482)CTT>ATT	p.L494I	ZNF253_uc002nok.2_Missense_Mutation_p.L418I|ZNF253_uc002nol.2_RNA	NM_021047	NP_066385	O75346	ZN253_HUMAN	zinc finger protein 253	494					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGTTCCTCCACTTTTAATTAG	0.343													9	69	---	---	---	---	PASS	A	20003536	A	A	20003536	3	1	6	1	0	0	0	0	1	0	0	0	17794	565	20	3	1494	3	ZNF253	19	20003536	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	664736	20003536	39125447	380	5157										
ZNF43	7594	broad.mit.edu	37	chr19	21990988	21990988	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	catttgtagggttttcctccAgtatgaatttttttatgtgt	8	5	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:21990988A>T	uc002nqj.2	-	4	1981	c.1851T>A	c.(1849-1851)ACT>ACA	p.T617T	ZNF43_uc010ecv.2_Silent_p.T611T|ZNF43_uc002nql.2_Silent_p.T611T|ZNF43_uc002nqm.2_Silent_p.T611T|ZNF43_uc002nqk.2_Silent_p.T547T	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	617					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		GTTTTCCTCCAGTATGAATTT	0.338													5	78	---	---	---	---	PASS	T	21990988	T	T	21990988	2	4	6	1	0	0	0	0	0	0	0	1	17900	175	7	5		5	ZNF43	19	21990988	Silent	SNP	A	TCGA-18-3411-01A-01D-0983-08	1987452	21990988	37137995	381	5158										
ZNF208	7757	broad.mit.edu	37	chr19	22154213	22154213	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gatatctaagggttgagggcCacttataggctttgccacat	11	8	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:22154213C>T	uc002nqp.2	-	6	3388	c.3239G>A	c.(3238-3240)TGG>TAG	p.W1080*	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GGTTGAGGGCCACTTATAGGC	0.393													82	60	---	---	---	---	PASS	T	22154213	T	T	22154213	4	4	6	1	0	0	0	0	0	1	0	0	17763	595	21	3	223	3	ZNF208	19	22154213	Nonsense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	163225	22154213	36974770	382	5159										
ZNF676	163223	broad.mit.edu	37	chr19	22362957	22362957	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tatgaattatcttatgttcaGtaaggatcgaggaccagctg	10	6	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:22362957G>T	uc002nqs.1	-	3	1880	c.1562C>A	c.(1561-1563)ACT>AAT	p.T521N		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	521	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CTTATGTTCAGTAAGGATCGA	0.398													8	184	---	---	---	---	PASS	T	22362957	T	T	22362957	3	4	6	1	0	0	0	0	1	0	0	0	18080	1029	36	3	208	3	ZNF676	19	22362957	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	208744	22362957	36766026	383	5160										
ZNF91	7644	broad.mit.edu	37	chr19	23542365	23542365	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	actggttaaaggctttgccaCatttttcacatttgtagggt	9	7	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:23542365C>G	uc002nre.2	-	4	3529	c.3416G>C	c.(3415-3417)TGT>TCT	p.C1139S	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.C1107S	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	1139	C2H2-type 36.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				GGCTTTGCCACATTTTTCACA	0.279													15	29	---	---	---	---	PASS	G	23542365	G	G	23542365	3	3	6	1	0	0	0	0	1	0	0	0	18197	478	17	4	163	4	ZNF91	19	23542365	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	1179408	23542365	35586618	384	5161										
ZNF536	9745	broad.mit.edu	37	chr19	30935497	30935497	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cggtggcgagcagtcggccaAcgagttccgctgcgaggtgt	17	11	0	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:30935497A>G	uc002nsu.1	+	2	1166	c.1028A>G	c.(1027-1029)AAC>AGC	p.N343S	ZNF536_uc010edd.1_Missense_Mutation_p.N343S	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	343					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CAGTCGGCCAACGAGTTCCGC	0.647													11	101	---	---	---	---	PASS	G	30935497	G	G	30935497	3	3	6	1	0	0	0	0	1	0	0	0	17971	43	2	5	1030	5	ZNF536	19	30935497	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	7393132	30935497	28193486	385	5162										
ZNF536	9745	broad.mit.edu	37	chr19	30935825	30935825	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctgagcgagcccagccagctCtatggcaagggcgagctgcc	14	14	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:30935825C>G	uc002nsu.1	+	2	1494	c.1356C>G	c.(1354-1356)CTC>CTG	p.L452L	ZNF536_uc010edd.1_Silent_p.L452L	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	452					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CCAGCCAGCTCTATGGCAAGG	0.657													5	21	---	---	---	---	PASS	G	30935825	G	G	30935825	2	3	6	1	0	0	0	0	0	0	0	1	17971	900	32	2		2	ZNF536	19	30935825	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	328	30935825	28193158	386	5163										
ZNF536	9745	broad.mit.edu	37	chr19	31039661	31039661	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtcaactgcaaagaccaagcCcgggaggcgagtaagatggc	14	10	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:31039661C>T	uc002nsu.1	+	4	3273	c.3135C>T	c.(3133-3135)GCC>GCT	p.A1045A	ZNF536_uc010edd.1_Silent_p.A1045A	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1045					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					AAGACCAAGCCCGGGAGGCGA	0.537													15	44	---	---	---	---	PASS	T	31039661	T	T	31039661	2	4	6	1	0	0	0	0	0	0	0	1	17971	610	22	3		3	ZNF536	19	31039661	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	103836	31039661	28089322	387	5164										
FXYD1	5348	broad.mit.edu	37	chr19	35630999	35630999	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ggacaatggcgtctcttggcCacatcttggttttctgtgtg	12	9	3	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:35630999C>A	uc002nyc.2	+	2	87	c.16C>A	c.(16-18)CAC>AAC	p.H6N	LGI4_uc002nxy.1_Intron|FXYD1_uc002nyb.1_RNA|FXYD1_uc002nyd.2_Missense_Mutation_p.H6N	NM_021902	NP_068702	O00168	PLM_HUMAN	phospholemman precursor	6					muscle contraction	chloride channel complex|integral to plasma membrane	chloride channel activity				0	all_lung(56;7.56e-09)|Lung NSC(56;1.1e-08)|Esophageal squamous(110;0.162)		Epithelial(14;2.32e-21)|OV - Ovarian serous cystadenocarcinoma(14;3.17e-20)|all cancers(14;2.43e-18)|LUSC - Lung squamous cell carcinoma(66;0.0849)			GTCTCTTGGCCACATCTTGGT	0.612													24	26	---	---	---	---	PASS	A	35630999	A	A	35630999	3	1	6	1	0	0	0	0	1	0	0	0	6117	594	21	3	18	3	FXYD1	19	35630999	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	4591338	35630999	23497984	388	5165										
MLL4	9757	broad.mit.edu	37	chr19	36218350	36218350	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctatcctagatgaagactacGagatcctttcaggactgcca	8	11	1	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:36218350G>T	uc010eei.2	+	17	4129	c.4129G>T	c.(4129-4131)GAG>TAG	p.E1377*		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1377	PHD-type 3.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGAAGACTACGAGATCCTTTC	0.622													6	211	---	---	---	---	PASS	T	36218350	T	T	36218350	4	4	6	1	0	0	0	0	0	1	0	0	9623	1059	37	2	4191	2	MLL4	19	36218350	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	587351	36218350	22910633	389	5166										
TYROBP	7305	broad.mit.edu	37	chr19	36398473	36398473	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cgcccgggctcaccgtagagCaactgcaatctgcagcacag	11	15	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:36398473C>A	uc002ocm.2	-	3	160	c.104G>T	c.(103-105)TGC>TTC	p.C35F	TYROBP_uc002ocn.2_Missense_Mutation_p.C35F	NM_003332	NP_003323	O43914	TYOBP_HUMAN	TYRO protein tyrosine kinase binding protein	35	Extracellular (Potential).				axon guidance|cell junction assembly|cellular defense response|intracellular signal transduction|regulation of immune response	integral to plasma membrane|intracellular	identical protein binding|receptor signaling protein activity				0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CACCGTAGAGCAACTGCAATC	0.642													10	23	---	---	---	---	PASS	A	36398473	A	A	36398473	3	1	6	1	0	0	0	0	1	0	0	0	16812	710	25	3	249	3	TYROBP	19	36398473	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	180123	36398473	22730510	390	5167										
ZNF461	92283	broad.mit.edu	37	chr19	37130589	37130589	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ttctgtgcattctttacattCagaaagttctttagaatgag	7	6	4	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:37130589C>G	uc002oem.2	-	6	886	c.658G>C	c.(658-660)GAA>CAA	p.E220Q	ZNF461_uc002oen.2_Missense_Mutation_p.E189Q|ZNF461_uc010xtj.1_Missense_Mutation_p.E197Q	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	220					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TCTTTACATTCAGAAAGTTCT	0.299													29	42	---	---	---	---	PASS	G	37130589	G	G	37130589	3	3	6	1	0	0	0	0	1	0	0	0	17922	835	29	2	1037	2	ZNF461	19	37130589	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	732116	37130589	21998394	391	5168										
ZNF461	92283	broad.mit.edu	37	chr19	37149309	37149309	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agagacatctatagccacatCtctgaacatcaccaactcct	4	14	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:37149309C>A	uc002oem.2	-	3	256	c.28G>T	c.(28-30)GAT>TAT	p.D10Y	ZNF461_uc002oen.2_5'UTR|ZNF461_uc010xtj.1_Missense_Mutation_p.D10Y	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	10	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			ATAGCCACATCTCTGAACATC	0.363													6	35	---	---	---	---	PASS	A	37149309	A	A	37149309	3	1	6	1	0	0	0	0	1	0	0	0	17922	913	32	2	1679	2	ZNF461	19	37149309	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	18720	37149309	21979674	392	5169										
ZNF585A	199704	broad.mit.edu	37	chr19	37643905	37643905	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atttgccacagttactgcacTcatatggtttttctccagta	6	10	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:37643905T>A	uc002ofo.1	-	5	1127	c.896A>T	c.(895-897)GAG>GTG	p.E299V	ZNF585A_uc002ofm.1_Missense_Mutation_p.E244V|ZNF585A_uc002ofn.1_Missense_Mutation_p.E244V	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	299	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTTACTGCACTCATATGGTTT	0.438													120	99	---	---	---	---	PASS	A	37643905	A	A	37643905	3	1	6	1	0	0	0	0	1	0	0	0	18014	1551	54	5	1417	5	ZNF585A	19	37643905	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	494596	37643905	21485078	393	5170										
ZNF613	79898	broad.mit.edu	37	chr19	52443504	52443504	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tggctgtggagttcacttggGaggagtggcagctcctcggc	17	9	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:52443504G>T	uc002pxz.1	+	4	481	c.58G>T	c.(58-60)GAG>TAG	p.E20*	ZNF613_uc002pya.1_5'UTR	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	20	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		GTTCACTTGGGAGGAGTGGCA	0.498													6	116	---	---	---	---	PASS	T	52443504	T	T	52443504	4	4	6	1	0	0	0	0	0	1	0	0	18035	1175	41	2	64	2	ZNF613	19	52443504	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	14799599	52443504	6685479	394	5171										
ZNF813	126017	broad.mit.edu	37	chr19	53989949	53989949	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aggagtggaaatgcctggacCctgctcagaggactctatac	12	10	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:53989949C>T	uc002qbu.2	+	3	207	c.79C>T	c.(79-81)CCT>TCT	p.P27S	ZNF813_uc010eqq.1_RNA	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	27	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		ATGCCTGGACCCTGCTCAGAG	0.483													13	190	---	---	---	---	PASS	T	53989949	T	T	53989949	3	4	6	1	0	0	0	0	1	0	0	0	18172	623	22	3	85	3	ZNF813	19	53989949	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	1546445	53989949	5139034	395	5172										
LILRA6	79168	broad.mit.edu	37	chr19	54742916	54742916	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aacaccaggaccaagcctgcCatgcccatgcggatgagatt	10	13	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:54742916C>A	uc002qeu.1	-	8	1483	c.1359G>T	c.(1357-1359)ATG>ATT	p.M453I	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Intron|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Intron|LILRA6_uc002qem.1_Intron|LILRB3_uc002qen.1_Intron|LILRB3_uc002qeo.1_Intron|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Intron|LILRB3_uc002qer.1_Intron|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Intron|LILRA6_uc010yeq.1_Intron|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Missense_Mutation_p.M297I	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	453	Helical; (Potential).					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CCAAGCCTGCCATGCCCATGC	0.572													6	97	---	---	---	---	PASS	A	54742916	A	A	54742916	3	1	6	1	0	0	0	0	1	0	0	0	8789	594	21	3	90	3	LILRA6	19	54742916	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	752967	54742916	4386067	396	5173										
LILRA4	23547	broad.mit.edu	37	chr19	54848965	54848965	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gagggagggcttcctagacaCgcctggagggaaagatgagt	17	7	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:54848965C>A	uc002qfj.2	-	5	715	c.658G>T	c.(658-660)GTG>TTG	p.V220L	LILRA4_uc002qfi.2_Missense_Mutation_p.V154L	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	220	Extracellular (Potential).					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		TTCCTAGACACGCCTGGAGGG	0.597													9	11	---	---	---	---	PASS	A	54848965	A	A	54848965	3	1	6	1	0	0	0	0	1	0	0	0	8787	536	19	1	857	1	LILRA4	19	54848965	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	106049	54848965	4280018	397	5174										
LILRA2	11027	broad.mit.edu	37	chr19	55086465	55086465	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gaactctccctatgtgtggtCtctacccagtgatctcctgg	9	13	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:55086465C>G	uc002qgg.3	+	4	709	c.620C>G	c.(619-621)TCT>TGT	p.S207C	LILRA2_uc010ern.2_Missense_Mutation_p.S207C|LILRA2_uc002qgf.2_Missense_Mutation_p.S207C|LILRA2_uc010yfe.1_Missense_Mutation_p.S207C|LILRA2_uc010yff.1_Missense_Mutation_p.S195C|LILRA2_uc010ero.2_Missense_Mutation_p.S195C|LILRA2_uc010yfg.1_Missense_Mutation_p.S207C	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	207	Extracellular (Potential).|Ig-like C2-type 2.				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		TATGTGTGGTCTCTACCCAGT	0.587													97	73	---	---	---	---	PASS	G	55086465	G	G	55086465	3	3	6	1	0	0	0	0	1	0	0	0	8785	913	32	2	634	2	LILRA2	19	55086465	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	237500	55086465	4042518	398	5175										
NLRP4	147945	broad.mit.edu	37	chr19	56369120	56369120	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agtctgtcactgagattcacCtatactttgaggaggaagtc	10	8	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:56369120C>A	uc002qmd.3	+	3	783	c.361C>A	c.(361-363)CTA>ATA	p.L121I	NLRP4_uc002qmf.2_Missense_Mutation_p.L46I|NLRP4_uc010etf.2_5'UTR	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	121							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)		TGAGATTCACCTATACTTTGA	0.473													7	163	---	---	---	---	PASS	A	56369120	A	A	56369120	3	1	6	1	0	0	0	0	1	0	0	0	10479	680	24	3	367	3	NLRP4	19	56369120	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	1282655	56369120	2759863	399	5176										
PEG3	5178	broad.mit.edu	37	chr19	57327637	57327637	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agattcagtgaatggcccacTatgaatgacagatttctcat	8	8	2	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr19:57327637T>C	uc002qnu.2	-	7	2524	c.2173A>G	c.(2173-2175)AGT>GGT	p.S725G	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.S696G|PEG3_uc002qnv.2_Missense_Mutation_p.S725G|PEG3_uc002qnw.2_Missense_Mutation_p.S601G|PEG3_uc002qnx.2_Missense_Mutation_p.S599G|PEG3_uc010etr.2_Missense_Mutation_p.S725G	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	725					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		AATGGCCCACTATGAATGACA	0.433													31	74	---	---	---	---	PASS	C	57327637	C	C	57327637	3	2	6	1	0	0	0	0	1	0	0	0	11720	1522	53	5	2597	5	PEG3	19	57327637	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	958517	57327637	1801346	400	5177										
ANGPT4	51378	broad.mit.edu	37	chr20	855022	855022	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gcaggaccaggctgctctggCgccctgctgagccgctgtac	14	15	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr20:855022C>A	uc002wei.2	-	8	1359	c.1256G>T	c.(1255-1257)CGC>CTC	p.R419L	ANGPT4_uc010zpn.1_Intron	NM_015985	NP_057069	Q9Y264	ANGP4_HUMAN	angiopoietin 4 precursor	419	Fibrinogen C-terminal.				anti-apoptosis|blood coagulation|cellular response to hypoxia|leukocyte migration|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of peptidyl-tyrosine phosphorylation|signal transduction	extracellular space	receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			ovary(2)	2						GCTGCTCTGGCGCCCTGCTGA	0.612													25	31	---	---	---	---	PASS	A	855022	A	A	855022	3	1	6	1	0	0	0	0	1	0	0	0	612	768	27	1	263	1	ANGPT4	20	855022	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08		855022	62170498	401	5178										
PROKR2	128674	broad.mit.edu	37	chr20	5283148	5283148	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gtgaccacagggcccacgaaCtcgacaccaaagatgaagag	11	12	0	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr20:5283148C>A	uc010zqw.1	-	2	693	c.693G>T	c.(691-693)GAG>GAT	p.E231D	PROKR2_uc010zqx.1_Missense_Mutation_p.E231D|PROKR2_uc010zqy.1_Missense_Mutation_p.E231D	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	231	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GGCCCACGAACTCGACACCAA	0.547										HNSCC(71;0.22)			31	34	---	---	---	---	PASS	A	5283148	A	A	5283148	3	1	6	1	0	0	0	0	1	0	0	0	12553	564	20	3	464	3	PROKR2	20	5283148	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	4428126	5283148	57742372	402	5179										
FERMT1	55612	broad.mit.edu	37	chr20	6078203	6078203	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aaagatcaacatttcttcctCtgtgcaatcaatttcttcta	3	10	6	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr20:6078203C>T	uc002wmr.2	-	7	1714	c.925G>A	c.(925-927)GAG>AAG	p.E309K	FERMT1_uc010gbt.2_Missense_Mutation_p.E52K|FERMT1_uc002wms.2_Missense_Mutation_p.E309K|FERMT1_uc002wmt.2_Missense_Mutation_p.E52K	NM_017671	NP_060141	Q9BQL6	FERM1_HUMAN	kindlin-1	309	FERM.				cell adhesion|establishment of epithelial cell polarity|keratinocyte migration|keratinocyte proliferation	cytosol|focal adhesion|ruffle membrane	binding			ovary(1)|pancreas(1)|skin(1)	3						ATTTCTTCCTCTGTGCAATCA	0.418													17	63	---	---	---	---	PASS	T	6078203	T	T	6078203	3	4	6	1	0	0	0	0	1	0	0	0	5817	922	32	2	1144	2	FERMT1	20	6078203	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	795055	6078203	56947317	403	5180										
RRBP1	6238	broad.mit.edu	37	chr20	17641085	17641085	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcgacaccaggaagatgccaAtggcagaaacaaccatgaat	9	10	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr20:17641085A>C	uc010zrq.1	-	3	422	c.68T>G	c.(67-69)ATT>AGT	p.I23S	RRBP1_uc002wpu.2_5'Flank|RRBP1_uc002wpv.1_Missense_Mutation_p.I23S|RRBP1_uc002wpw.1_Missense_Mutation_p.I23S|RRBP1_uc010gcl.1_Intron|RRBP1_uc010zrr.1_Missense_Mutation_p.I23S			Q9P2E9	RRBP1_HUMAN	SubName: Full=RRBP1 protein; Flags: Fragment;	23	Helical; (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						GAAGATGCCAATGGCAGAAAC	0.473													31	47	---	---	---	---	PASS	C	17641085	C	C	17641085	3	2	6	1	0	0	0	0	1	0	0	0	13678	101	4	5	2961	5	RRBP1	20	17641085	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	11562882	17641085	45384435	404	5181										
RALGAPA2	57186	broad.mit.edu	37	chr20	20610174	20610174	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agaatggcttttgtcctgctCcgtgggcccaccaccatcca	9	15	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr20:20610174C>T	uc002wrz.2	-	10	1209	c.1066G>A	c.(1066-1068)GAG>AAG	p.E356K	RALGAPA2_uc010gcx.2_Missense_Mutation_p.E60K|RALGAPA2_uc010zsg.1_5'UTR	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	356					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						TTGTCCTGCTCCGTGGGCCCA	0.547													32	38	---	---	---	---	PASS	T	20610174	T	T	20610174	3	4	6	1	0	0	0	0	1	0	0	0	13014	864	30	2	4675	2	RALGAPA2	20	20610174	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2969089	20610174	42415346	405	5182										
SSTR4	6754	broad.mit.edu	37	chr20	23016630	23016630	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aagctcatcaacctgggcgtGtggctggcatccctgttggt	13	11	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr20:23016630G>A	uc002wsr.2	+	1	574	c.510G>A	c.(508-510)GTG>GTA	p.V170V		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	170	Helical; Name=4; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					ACCTGGGCGTGTGGCTGGCAT	0.697													11	38	---	---	---	---	PASS	A	23016630	A	A	23016630	2	1	6	1	0	0	0	0	0	0	0	1	15199	1364	48	3		3	SSTR4	20	23016630	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	2406456	23016630	40008890	406	5183										
TM9SF4	9777	broad.mit.edu	37	chr20	30745749	30745749	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cggcagatccccgagcagcgGtggtacatgaaccgatttgt	13	11	0	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr20:30745749G>A	uc002wxj.2	+	14	1717	c.1482G>A	c.(1480-1482)CGG>CGA	p.R494R	TM9SF4_uc010zts.1_Silent_p.R401R|TM9SF4_uc002wxk.2_Silent_p.R477R|TM9SF4_uc010gdz.2_Silent_p.R373R	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	494						integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CCGAGCAGCGGTGGTACATGA	0.617													12	49	---	---	---	---	PASS	A	30745749	A	A	30745749	2	1	6	1	0	0	0	0	0	0	0	1	15977	1248	44	3		3	TM9SF4	20	30745749	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	7729119	30745749	32279771	407	5184										
PTPRT	11122	broad.mit.edu	37	chr20	40864878	40864878	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcgatacttacaagtaatagGagtaggaataagcatttctt	8	5	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr20:40864878G>C	uc002xkg.2	-	15	2517	c.2333C>G	c.(2332-2334)TCC>TGC	p.S778C	PTPRT_uc010ggj.2_Missense_Mutation_p.S797C	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	778	Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CAAGTAATAGGAGTAGGAATA	0.388													17	70	---	---	---	---	PASS	C	40864878	C	C	40864878	3	2	6	1	0	0	0	0	1	0	0	0	12812	1174	41	2	2060	2	PTPRT	20	40864878	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	10119129	40864878	22160642	408	5185										
CBLN4	140689	broad.mit.edu	37	chr20	54573767	54573767	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gagtaacatctttgtcccccGcaaaggcagatattactggt	9	10	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr20:54573767G>T	uc002xxa.2	-	3	1237	c.452C>A	c.(451-453)GCG>GAG	p.A151E		NM_080617	NP_542184	Q9NTU7	CBLN4_HUMAN	cerebellin 4 precursor	151	C1q.					cell junction|extracellular region|synapse				ovary(3)|pancreas(1)	4			Colorectal(105;0.202)			TTTGTCCCCCGCAAAGGCAGA	0.358													25	13	---	---	---	---	PASS	T	54573767	T	T	54573767	3	4	6	1	0	0	0	0	1	0	0	0	2707	1087	38	1	157	1	CBLN4	20	54573767	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	13708889	54573767	8451753	409	5186										
SFRS15	57466	broad.mit.edu	37	chr21	33044507	33044507	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gggcctctgtgcatcatgtgCggtggcatgggacggggcgg	20	9	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr21:33044507C>T	uc002ypd.2	-	20	3075	c.2649G>A	c.(2647-2649)CCG>CCA	p.P883P	SFRS15_uc002ype.2_Silent_p.P861P|SFRS15_uc010glu.2_Silent_p.P868P	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	883						nucleus	nucleotide binding|RNA binding				0						GCATCATGTGCGGTGGCATGG	0.642													25	10	---	---	---	---	PASS	T	33044507	T	T	33044507	2	4	6	1	0	0	0	0	0	0	0	1	14171	755	27	1		1	SFRS15	21	33044507	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08		33044507	15085388	410	5187										
SFRS15	57466	broad.mit.edu	37	chr21	33058012	33058012	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aagcaggcggctggagagcaCcaactacaggtggacccggt	15	11	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr21:33058012C>A	uc002ypd.2	-	17	2504	c.2078G>T	c.(2077-2079)GGT>GTT	p.G693V	SFRS15_uc002ype.2_Missense_Mutation_p.G693V|SFRS15_uc010glu.2_Missense_Mutation_p.G678V|SFRS15_uc002ypf.1_Missense_Mutation_p.G367V	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	693						nucleus	nucleotide binding|RNA binding				0						CTGGAGAGCACCAACTACAGG	0.547													17	10	---	---	---	---	PASS	A	33058012	A	A	33058012	3	1	6	1	0	0	0	0	1	0	0	0	14171	507	18	3	1381	3	SFRS15	21	33058012	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	13505	33058012	15071883	411	5188										
SON	6651	broad.mit.edu	37	chr21	34926741	34926741	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	taatgaagcagatttagtgaGaccgttacttcctaaggaca	9	7	0	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr21:34926741G>A	uc002yse.1	+	3	5253	c.5204G>A	c.(5203-5205)AGA>AAA	p.R1735K	SON_uc002ysb.1_Missense_Mutation_p.R1735K|SON_uc002ysc.2_Missense_Mutation_p.R1735K|SON_uc002ysd.2_Missense_Mutation_p.R726K|SON_uc002ysf.1_Intron|SON_uc002ysg.2_Missense_Mutation_p.R726K	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	1735					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						GATTTAGTGAGACCGTTACTT	0.448													17	80	---	---	---	---	PASS	A	34926741	A	A	34926741	3	1	6	1	0	0	0	0	1	0	0	0	14926	942	33	2	5214	2	SON	21	34926741	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	1868729	34926741	13203154	412	5189										
FTCD	10841	broad.mit.edu	37	chr21	47571482	47571482	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	acggggtcacctggtccttcCcgcggccctgctcccgcagg	13	18	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr21:47571482C>G	uc002zif.2	-	5	670	c.626G>C	c.(625-627)GGG>GCG	p.G209A	FTCD_uc002zig.2_Missense_Mutation_p.G209A|FTCD_uc002zih.2_Missense_Mutation_p.G209A|FTCD_uc010gqf.2_Missense_Mutation_p.G209A|FTCD_uc010gqg.1_Missense_Mutation_p.G78A	NM_006657	NP_006648	O95954	FTCD_HUMAN	formiminotransferase cyclodeaminase	209	Formiminotransferase C-subdomain (By similarity).				folic acid-containing compound metabolic process|histidine catabolic process	centriole|cytosol|Golgi apparatus	folic acid binding|formimidoyltetrahydrofolate cyclodeaminase activity|glutamate formimidoyltransferase activity			pancreas(1)|skin(1)	2	Breast(49;0.214)			Colorectal(79;0.235)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CTGGTCCTTCCCGCGGCCCTG	0.652													11	7	---	---	---	---	PASS	G	47571482	G	G	47571482	3	3	6	1	0	0	0	0	1	0	0	0	6081	623	22	4	1039	4	FTCD	21	47571482	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	12644741	47571482	558413	413	5190										
AIFM3	150209	broad.mit.edu	37	chr22	21330039	21330039	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	caaggagtttttccgagcctAtggcatcgaggtgctcaccg	12	11	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr22:21330039A>G	uc002ztj.2	+	9	997	c.779A>G	c.(778-780)TAT>TGT	p.Y260C	AIFM3_uc002ztk.2_Missense_Mutation_p.Y260C|AIFM3_uc002ztl.2_Missense_Mutation_p.Y266C|AIFM3_uc011ahx.1_Missense_Mutation_p.Y248C|AIFM3_uc002ztm.1_Missense_Mutation_p.Y72C	NM_144704	NP_653305	Q96NN9	AIFM3_HUMAN	apoptosis-inducing factor,	260					activation of caspase activity by cytochrome c|cell redox homeostasis|electron transport chain|induction of apoptosis|mitochondrial depolarization|transport	endoplasmic reticulum|mitochondrial inner membrane	2 iron, 2 sulfur cluster binding|caspase activator activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity|protein binding			ovary(2)|lung(2)	4	all_cancers(11;3.71e-26)|all_epithelial(7;1.59e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0367)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			TTCCGAGCCTATGGCATCGAG	0.592													8	55	---	---	---	---	PASS	G	21330039	G	G	21330039	3	3	6	1	0	0	0	0	1	0	0	0	428	449	16	5	827	5	AIFM3	22	21330039	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08		21330039	29974527	414	5191										
C22orf13	83606	broad.mit.edu	37	chr22	24943946	24943946	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gcctcacgccaaagtggtgcAtcaggtaggccaggtcgatg	14	11	2	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr22:24943946A>C	uc003aah.2	-	3	540	c.224T>G	c.(223-225)ATG>AGG	p.M75R	C22orf13_uc003aal.2_Missense_Mutation_p.M131R|C22orf13_uc003aai.3_Missense_Mutation_p.M75R|C22orf13_uc003aaj.3_Missense_Mutation_p.M75R|C22orf13_uc003aak.3_Missense_Mutation_p.M131R	NM_031444	NP_113632	Q96NT3	CV013_HUMAN	chromosome 22 open reading frame 13	75											0						AAAGTGGTGCATCAGGTAGGC	0.607													32	42	---	---	---	---	PASS	C	24943946	C	C	24943946	3	2	6	1	0	0	0	0	1	0	0	0	2135	217	8	5	514	5	C22orf13	22	24943946	Missense_Mutation	SNP	A	TCGA-18-3411-01A-01D-0983-08	3613907	24943946	26360620	415	5192										
GAS2L1	10634	broad.mit.edu	37	chr22	29706908	29706908	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cctgctagcccagtccctggGagtgagcgccggggctcccg	15	16	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr22:29706908G>C	uc003afa.1	+	5	1129	c.930G>C	c.(928-930)GGG>GGC	p.G310G	GAS2L1_uc010gvm.1_Silent_p.G310G|GAS2L1_uc003afb.1_Silent_p.G310G|GAS2L1_uc003afc.1_Silent_p.G310G|GAS2L1_uc003afd.1_Silent_p.G310G|GAS2L1_uc003afe.1_Silent_p.G310G	NM_152236	NP_689422	Q99501	GA2L1_HUMAN	growth arrest-specific 2 like 1 isoform a	310					cell cycle arrest	cytoplasm|cytoskeleton					0						CAGTCCCTGGGAGTGAGCGCC	0.672													35	37	---	---	---	---	PASS	C	29706908	C	C	29706908	2	2	6	1	0	0	0	0	0	0	0	1	6246	1161	41	2		2	GAS2L1	22	29706908	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	4762962	29706908	21597658	416	5193										
NEFH	4744	broad.mit.edu	37	chr22	29885319	29885319	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	aggcaaagtcaccgcctgagGccaagtccccagagaaggag	13	12	1	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr22:29885319G>C	uc003afo.2	+	4	1761	c.1690G>C	c.(1690-1692)GCC>CCC	p.A564P	NEFH_uc003afp.2_Intron	NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	564	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|5.|Tail.				cell death|nervous system development	neurofilament					0						ACCGCCTGAGGCCAAGTCCCC	0.567													20	145	---	---	---	---	PASS	C	29885319	C	C	29885319	3	2	6	1	0	0	0	0	1	0	0	0	10314	1203	42	4	1704	4	NEFH	22	29885319	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	178411	29885319	21419247	417	5194										
LARGE	9215	broad.mit.edu	37	chr22	33733695	33733695	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcccgcctcagaagattgccGtcatactccaggaaggtcag	10	13	3	2			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr22:33733695G>T	uc003and.3	-	11	1803	c.1224C>A	c.(1222-1224)GAC>GAA	p.D408E	LARGE_uc011amd.1_Missense_Mutation_p.D207E|LARGE_uc003ane.3_Missense_Mutation_p.D408E|LARGE_uc010gwp.2_Intron|LARGE_uc011ame.1_Missense_Mutation_p.D340E|LARGE_uc011amf.1_Missense_Mutation_p.D408E|LARGE_uc010gwq.1_RNA	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	408	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				GAAGATTGCCGTCATACTCCA	0.562													15	30	---	---	---	---	PASS	T	33733695	T	T	33733695	3	4	6	1	0	0	0	0	1	0	0	0	8627	1136	40	1	1070	1	LARGE	22	33733695	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	3848376	33733695	17570871	418	5195										
L3MBTL2	83746	broad.mit.edu	37	chr22	41605724	41605724	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccccatcttcagaaccaatgGaggaagaggaagatgacgac	11	10	2	4			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr22:41605724G>T	uc003azo.2	+	2	103	c.49G>T	c.(49-51)GAG>TAG	p.E17*	L3MBTL2_uc010gyi.1_5'UTR|L3MBTL2_uc003azn.2_RNA|uc003azp.1_RNA	NM_031488	NP_113676	Q969R5	LMBL2_HUMAN	l(3)mbt-like 2	17	Poly-Glu.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	methylated histone residue binding|transcription corepressor activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3						AGAACCAATGGAGGAAGAGGA	0.488													6	181	---	---	---	---	PASS	T	41605724	T	T	41605724	4	4	6	1	0	0	0	0	0	1	0	0	8592	1175	41	2	55	2	L3MBTL2	22	41605724	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	7872029	41605724	9698842	419	5196										
SCUBE1	80274	broad.mit.edu	37	chr22	43614411	43614411	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cttgcgcagggtcttgatggCggcctgcaggctctgttctg	15	11	3	1	rs139119420		TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr22:43614411C>A	uc003bdt.1	-	15	1829	c.1741G>T	c.(1741-1743)GCC>TCC	p.A581S		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	581					adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				GTCTTGATGGCGGCCTGCAGG	0.607													45	72	---	---	---	---	PASS	A	43614411	A	A	43614411	3	1	6	1	0	0	0	0	1	0	0	0	13944	768	27	1	1257	1	SCUBE1	22	43614411	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2008687	43614411	7690155	420	5197										
TUBGCP6	85378	broad.mit.edu	37	chr22	50682676	50682676	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ctcaagtcaaaggacaacatGaggatcttgtttctcgctgg	10	9	4	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chr22:50682676G>C	uc003bkb.1	-	1	725	c.213C>G	c.(211-213)CTC>CTG	p.L71L	TUBGCP6_uc010har.1_Silent_p.L71L|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hau.1_Silent_p.L71L	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	71					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		AGGACAACATGAGGATCTTGT	0.517													8	77	---	---	---	---	PASS	C	50682676	C	C	50682676	2	2	6	1	0	0	0	0	0	0	0	1	16767	1277	45	2		2	TUBGCP6	22	50682676	Silent	SNP	G	TCGA-18-3411-01A-01D-0983-08	7068265	50682676	621890	421	5198										
GPR64	10149	broad.mit.edu	37	chrX	19025356	19025356	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	cactggcctctccccacctgGctcgggttgatgtgctttaa	10	14	1	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chrX:19025356G>T	uc004cyx.2	-	20	1850	c.1686C>A	c.(1684-1686)AGC>AGA	p.S562R	GPR64_uc004cyy.2_Missense_Mutation_p.S559R|GPR64_uc004cyz.2_Missense_Mutation_p.S548R|GPR64_uc004czb.2_Missense_Mutation_p.S562R|GPR64_uc004czc.2_Missense_Mutation_p.S546R|GPR64_uc004czd.2_Missense_Mutation_p.S538R|GPR64_uc004cze.2_Missense_Mutation_p.S532R|GPR64_uc004czf.2_Missense_Mutation_p.S524R|GPR64_uc004cza.2_Missense_Mutation_p.S540R|GPR64_uc004cyw.2_Missense_Mutation_p.S546R|GPR64_uc010nfj.2_Intron	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	562	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					TCCCCACCTGGCTCGGGTTGA	0.498													16	10	---	---	---	---	PASS	T	19025356	T	T	19025356	3	4	6	1	0	0	0	0	1	0	0	0	6705	1194	42	3	1407	3	GPR64	23	19025356	Missense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08		19025356	136245204	422	5199										
PRDX4	10549	broad.mit.edu	37	chrX	23689672	23689672	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	agccagcgccctactgggaaGgaacagctgtgatcgatgga	14	10	0	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chrX:23689672G>T	uc004dam.2	+	2	311	c.268G>T	c.(268-270)GGA>TGA	p.G90*		NM_006406	NP_006397	Q13162	PRDX4_HUMAN	peroxiredoxin 4	90	Thioredoxin.				cell redox homeostasis|I-kappaB phosphorylation		thioredoxin peroxidase activity			upper_aerodigestive_tract(1)	1						CTACTGGGAAGGAACAGCTGT	0.383													4	33	---	---	---	---	PASS	T	23689672	T	T	23689672	4	4	6	1	0	0	0	0	0	1	0	0	12467	1001	35	3	274	3	PRDX4	23	23689672	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	4664316	23689672	131580888	423	5200										
MAGEB6	158809	broad.mit.edu	37	chrX	26212607	26212607	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gaagtttgagaagaaagagtCcattttgaaggcagacatgc	12	5	0	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chrX:26212607C>A	uc004dbr.2	+	2	793	c.644C>A	c.(643-645)TCC>TAC	p.S215Y	MAGEB6_uc010ngc.1_5'UTR	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	215	MAGE.									ovary(3)	3						AAGAAAGAGTCCATTTTGAAG	0.468													26	32	---	---	---	---	PASS	A	26212607	A	A	26212607	3	1	6	1	0	0	0	0	1	0	0	0	9179	855	30	2	646	2	MAGEB6	23	26212607	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	2522935	26212607	129057953	424	5201										
MAGEB4	4115	broad.mit.edu	37	chrX	30260685	30260685	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tcatcagcaaaaagtacaagGagcacttccctgagatcttc	7	11	3	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chrX:30260685G>T	uc004dcb.2	+	1	517	c.433G>T	c.(433-435)GAG>TAG	p.E145*	MAGEB1_uc004dcc.2_5'Flank|MAGEB1_uc004dcd.2_5'Flank	NM_002367	NP_002358	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	145	MAGE.									ovary(1)	1						AAAGTACAAGGAGCACTTCCC	0.478													6	9	---	---	---	---	PASS	T	30260685	T	T	30260685	4	4	6	1	0	0	0	0	0	1	0	0	9178	1175	41	2	435	2	MAGEB4	23	30260685	Nonsense_Mutation	SNP	G	TCGA-18-3411-01A-01D-0983-08	4048078	30260685	125009875	425	5202										
KDM6A	7403	broad.mit.edu	37	chrX	44922694	44922694	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	caacaggagttgcacaggtaCgatctactggaattcctaat	9	9	1	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chrX:44922694C>T	uc004dge.3	+	16	1930	c.1555C>T	c.(1555-1557)CGA>TGA	p.R519*	KDM6A_uc010nhk.2_Nonsense_Mutation_p.R485*|KDM6A_uc011mkz.1_Nonsense_Mutation_p.R571*|KDM6A_uc011mla.1_Nonsense_Mutation_p.R474*|KDM6A_uc011mlb.1_Nonsense_Mutation_p.R526*|KDM6A_uc011mlc.1_Nonsense_Mutation_p.R223*|KDM6A_uc011mld.1_Nonsense_Mutation_p.R158*	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	519					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						TGCACAGGTACGATCTACTGG	0.463			D|N|F|S		renal|oesophageal SCC|MM								26	18	---	---	---	---	PASS	T	44922694	T	T	44922694	4	4	6	1	0	0	0	0	0	1	0	0	8137	528	19	1	1617	1	KDM6A	23	44922694	Nonsense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	14662009	44922694	110347866	426	5203										
SPIN4	139886	broad.mit.edu	37	chrX	62570653	62570653	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	ccttttcttcatcaggtatgCggacacgccatctaccccca	6	16	4	0			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chrX:62570653C>T	uc004dvf.2	-	1	566	c.46G>A	c.(46-48)GCA>ACA	p.A16T		NM_001012968	NP_001012986	Q56A73	SPIN4_HUMAN	spindlin family, member 4	16					gamete generation					ovary(1)|lung(1)	2						ATCAGGTATGCGGACACGCCA	0.567													9	13	---	---	---	---	PASS	T	62570653	T	T	62570653	3	4	6	1	0	0	0	0	1	0	0	0	15055	768	27	1	707	1	SPIN4	23	62570653	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	17647959	62570653	92699907	427	5204										
RAB41	347517	broad.mit.edu	37	chrX	69502420	69502420	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	atcagccgcttcatgtacaaCagcttcggctgcgcctgcca	9	15	2	0	rs140771923		TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chrX:69502420C>G	uc004dyc.2	+	2	162	c.162C>G	c.(160-162)AAC>AAG	p.N54K	RAB41_uc010nkv.2_Missense_Mutation_p.N43K	NM_001032726	NP_001027898	Q5JT25	RAB41_HUMAN	RAB41, member RAS oncogene family	54					protein transport|small GTPase mediated signal transduction		GTP binding			ovary(2)|breast(2)	4						TCATGTACAACAGCTTCGGCT	0.527													9	4	---	---	---	---	PASS	G	69502420	G	G	69502420	3	3	6	1	0	0	0	0	1	0	0	0	12943	477	17	4	165	4	RAB41	23	69502420	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	6931767	69502420	85768140	428	5205										
ZMYM3	9203	broad.mit.edu	37	chrX	70464694	70464694	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	gacacatcctcaggccctacCaggccacaatcaaagaggaa	8	14	2	1			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chrX:70464694C>A	uc004dzh.1	-	19	3144	c.3057G>T	c.(3055-3057)CTG>CTT	p.L1019L	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Silent_p.L1019L|ZMYM3_uc004dzj.1_Silent_p.L1007L	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	1019					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					CAGGCCCTACCAGGCCACAAT	0.453													4	18	---	---	---	---	PASS	A	70464694	A	A	70464694	2	1	6	1	0	0	0	0	0	0	0	1	17698	581	21	3		3	ZMYM3	23	70464694	Silent	SNP	C	TCGA-18-3411-01A-01D-0983-08	962274	70464694	84805866	429	5206										
ZCCHC12	170261	broad.mit.edu	37	chrX	117959988	117959988	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tagtgatcggcagtgctgacTgcaatgtgatagagatagat	13	5	0	5			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chrX:117959988T>A	uc004equ.2	+	4	1254	c.781T>A	c.(781-783)TGC>AGC	p.C261S		NM_173798	NP_776159	Q6PEW1	ZCH12_HUMAN	zinc finger, CCHC domain containing 12	261					regulation of transcription, DNA-dependent|transcription, DNA-dependent		nucleic acid binding|zinc ion binding			ovary(1)	1						CAGTGCTGACTGCAATGTGAT	0.557													18	19	---	---	---	---	PASS	A	117959988	A	A	117959988	3	1	6	1	0	0	0	0	1	0	0	0	17578	1580	55	5	783	5	ZCCHC12	23	117959988	Missense_Mutation	SNP	T	TCGA-18-3411-01A-01D-0983-08	47495294	117959988	37310572	430	5207										
FRMD7	90167	broad.mit.edu	37	chrX	131219751	131219751	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0657276995305164	28	0.277596311808808	1.16883576803896	1.5605884155685	0.983643607388627	0.492738621885636	0.81842946137857	0	tgtcagattcagctgggctcCtgccactgaaaggggaaaga	13	9	2	3			TCGA-18-3411-01A-01D-0983-08	TCGA-18-3411-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6a9cc303-c7fd-4f40-8933-1636dea99252	5d18da80-61b7-438b-9ad1-ac2e98d0e820	g.chrX:131219751C>A	uc004ewn.2	-	7	681	c.503G>T	c.(502-504)AGG>ATG	p.R168M	FRMD7_uc011muy.1_Missense_Mutation_p.R153M	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	168	FERM.				regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					AGCTGGGCTCCTGCCACTGAA	0.502													4	20	---	---	---	---	PASS	A	131219751	A	A	131219751	3	1	6	1	0	0	0	0	1	0	0	0	6055	681	24	3	1665	3	FRMD7	23	131219751	Missense_Mutation	SNP	C	TCGA-18-3411-01A-01D-0983-08	13259763	131219751	24050809	431	5208										
TCEB3	6924	broad.mit.edu	37	chr1	24083610	24083610	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tgatcctaggaaacccactgTgaagagtaagtaacttggag	11	7	0	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:24083610T>C	uc001bho.2	+	10	2390	c.2330T>C	c.(2329-2331)GTG>GCG	p.V777A		NM_003198	NP_003189	Q14241	ELOA1_HUMAN	elongin A	777					positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|viral reproduction	integral to membrane	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.42e-24)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;4.74e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|KIRC - Kidney renal clear cell carcinoma(1967;0.00334)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		AAACCCACTGTGAAGAGTAAG	0.458													36	7	---	---	---	---	PASS	C	24083610	C	C	24083610	3	2	7	1	0	0	0	0	1	0	0	0	15678	1696	59	5	2368	5	TCEB3	1	24083610	Missense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08		24083610	225167011	1	5209										
CSMD2	114784	broad.mit.edu	37	chr1	34049275	34049275	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aaactcatcatattgcttctCgctgaggaagtactccactg	7	11	3	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:34049275C>A	uc001bxn.1	-	48	7242	c.7213G>T	c.(7213-7215)GAG>TAG	p.E2405*	CSMD2_uc001bxm.1_Nonsense_Mutation_p.E2403*	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2405	CUB 14.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TATTGCTTCTCGCTGAGGAAG	0.413													4	81	---	---	---	---	PASS	A	34049275	A	A	34049275	4	1	7	1	0	0	0	0	0	1	0	0	3945	893	31	2	3338	2	CSMD2	1	34049275	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	9965665	34049275	215201346	2	5210										
CAP1	10487	broad.mit.edu	37	chr1	40530017	40530017	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gtcagctgtcagcgaaagtaTccaggccctgggctgggtgg	16	10	2	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:40530017T>C	uc001cfa.3	+	5	642	c.413T>C	c.(412-414)ATC>ACC	p.I138T	CAP1_uc001cey.3_Missense_Mutation_p.I138T|CAP1_uc001cez.3_Missense_Mutation_p.I138T|CAP1_uc009vvz.2_Missense_Mutation_p.I138T|CAP1_uc010oje.1_Missense_Mutation_p.I55T	NM_006367	NP_006358	Q01518	CAP1_HUMAN	adenylyl cyclase-associated protein	138					activation of adenylate cyclase activity|axon guidance|establishment or maintenance of cell polarity|platelet activation|platelet degranulation|signal transduction	plasma membrane	actin binding			ovary(1)	1	Lung NSC(20;5.03e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;4.63e-18)|Epithelial(16;1.27e-16)|all cancers(16;2.3e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AGCGAAAGTATCCAGGCCCTG	0.517													36	11	---	---	---	---	PASS	C	40530017	C	C	40530017	3	2	7	1	0	0	0	0	1	0	0	0	2619	1435	50	5	427	5	CAP1	1	40530017	Missense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08	6480742	40530017	208720604	3	5211										
EIF2B3	8891	broad.mit.edu	37	chr1	45444122	45444122	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tgaacatccctggttgtaacCacaatgacttctataggaca	7	10	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:45444122C>A	uc001cmt.1	-	3	286	c.159G>T	c.(157-159)GTG>GTT	p.V53V	EIF2B3_uc001cmu.1_Silent_p.V53V|EIF2B3_uc001cmv.1_Silent_p.V53V|EIF2B3_uc001cmw.2_Silent_p.V53V	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,	53					negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TGGTTGTAACCACAATGACTT	0.348													5	117	---	---	---	---	PASS	A	45444122	A	A	45444122	2	1	7	1	0	0	0	0	0	0	0	1	5002	581	21	3		3	EIF2B3	1	45444122	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	4914105	45444122	203806499	4	5212										
GPBP1L1	60313	broad.mit.edu	37	chr1	46099321	46099321	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gggtggtgctggagggactcTgggcaaataccacaaacagg	16	8	1	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:46099321T>A	uc001coq.2	-	10	2247	c.886_splice	c.e10-1	p.S296_splice	GPBP1L1_uc001coo.2_Splice_Site_p.S40_splice	NM_021639	NP_067652	Q9HC44	GPBL1_HUMAN	GC-rich promoter binding protein 1-like 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GGAGGGACTCTGGGCAAATAC	0.502													16	3	---	---	---	---	PASS	A	46099321	A	A	46099321	5	1	7	1	0	0	0	0	0	0	1	0	6596	1594	55	5	556	5	GPBP1L1	1	46099321	Splice_Site	SNP	T	TCGA-18-3412-01A-01D-0983-08	655199	46099321	203151300	5	5213										
PRKAA2	5563	broad.mit.edu	37	chr1	57140174	57140174	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tcaaaatctaaaactctttcGtcatcctcatattatcaaac	1	11	6	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:57140174G>A	uc001cyk.3	+	2	286	c.215G>A	c.(214-216)CGT>CAT	p.R72H		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	72	Protein kinase.				carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						AAACTCTTTCGTCATCCTCAT	0.269													18	38	---	---	---	---	PASS	A	57140174	A	A	57140174	3	1	7	1	0	0	0	0	1	0	0	0	12494	1145	40	1	221	1	PRKAA2	1	57140174	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	11040853	57140174	192110447	6	5214										
FGGY	55277	broad.mit.edu	37	chr1	60139733	60139733	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atgcctgtggtcctgtcgcaAgaggtggagtccgttcttgt	14	9	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:60139733A>T	uc001czi.3	+	14	1652	c.1440A>T	c.(1438-1440)CAA>CAT	p.Q480H	FGGY_uc001czh.2_RNA|FGGY_uc009wac.2_Missense_Mutation_p.Q504H|FGGY_uc001czj.3_Missense_Mutation_p.Q479H|FGGY_uc001czk.3_Missense_Mutation_p.Q368H|FGGY_uc001czl.3_Missense_Mutation_p.Q392H|FGGY_uc001czm.3_Missense_Mutation_p.Q181H	NM_018291	NP_060761	Q96C11	FGGY_HUMAN	FGGY carbohydrate kinase domain containing	480					carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)					TCCTGTCGCAAGAGGTGGAGT	0.612													4	10	---	---	---	---	PASS	T	60139733	T	T	60139733	3	4	7	1	0	0	0	0	1	0	0	0	5871	69	3	5	1566	5	FGGY	1	60139733	Missense_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08	2999559	60139733	189110888	7	5215										
DOCK7	85440	broad.mit.edu	37	chr1	63100504	63100504	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaaaaaattgctgatcttgcCagggtagtaatggcagcagg	13	6	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:63100504C>A	uc001daq.2	-	9	1009	c.975G>T	c.(973-975)CTG>CTT	p.L325L	DOCK7_uc001dan.2_Silent_p.L217L|DOCK7_uc001dao.2_Silent_p.L217L|DOCK7_uc001dap.2_Silent_p.L325L|DOCK7_uc009wah.1_Silent_p.L325L	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	325					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						CTGATCTTGCCAGGGTAGTAA	0.299													5	99	---	---	---	---	PASS	A	63100504	A	A	63100504	2	1	7	1	0	0	0	0	0	0	0	1	4692	581	21	3		3	DOCK7	1	63100504	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	2960771	63100504	186150117	8	5216										
KCNA10	3744	broad.mit.edu	37	chr1	111060834	111060834	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tggatgtcattggtgggtagCagtgtttcagggtctttgat	15	4	3	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:111060834C>T	uc001dzt.1	-	1	964	c.576G>A	c.(574-576)CTG>CTA	p.L192L		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	192						voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		TGGTGGGTAGCAGTGTTTCAG	0.527													18	7	---	---	---	---	PASS	T	111060834	T	T	111060834	2	4	7	1	0	0	0	0	0	0	0	1	8002	697	25	3		3	KCNA10	1	111060834	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	47960330	111060834	138189787	9	5217										
NBPF15	284565	broad.mit.edu	37	chr1	148594604	148594604	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ttgacggtgacaagtctccaCctggtgttccagatgggagt	13	9	1	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:148594604C>G	uc001esc.2	+	19	2466	c.1977C>G	c.(1975-1977)CAC>CAG	p.H659Q		NM_173638	NP_775909	Q8N660	NBPFF_HUMAN	hypothetical protein LOC284565	659	NBPF 6.					cytoplasm					0	all_hematologic(923;0.032)					CAAGTCTCCACCTGGTGTTCC	0.453													4	81	---	---	---	---	PASS	G	148594604	G	G	148594604	3	3	7	1	0	0	0	0	1	0	0	0	10195	506	18	4	2035	4	NBPF15	1	148594604	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	37533770	148594604	100656017	10	5218										
FLG	2312	broad.mit.edu	37	chr1	152286268	152286268	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atgatgcagtctgtccacgaGaggaagtctctgcgtgacga	13	9	2	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:152286268G>T	uc001ezu.1	-	3	1130	c.1094C>A	c.(1093-1095)TCT>TAT	p.S365Y	uc001ezv.2_RNA	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	365	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGTCCACGAGAGGAAGTCTC	0.562									Ichthyosis				7	270	---	---	---	---	PASS	T	152286268	T	T	152286268	3	4	7	1	0	0	0	0	1	0	0	0	5922	942	33	2	11095	2	FLG	1	152286268	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	3691664	152286268	96964353	11	5219										
ARHGEF11	9826	broad.mit.edu	37	chr1	156913790	156913790	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ggggctgaaggtctgcttgcTgtctgaggagcccacagcag	16	10	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:156913790T>A	uc001fqo.2	-	31	4092	c.3052A>T	c.(3052-3054)AGC>TGC	p.S1018C	ARHGEF11_uc010phu.1_Missense_Mutation_p.S434C|ARHGEF11_uc001fqn.2_Missense_Mutation_p.S1058C	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	1018	PH.				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)					GTCTGCTTGCTGTCTGAGGAG	0.592													23	27	---	---	---	---	PASS	A	156913790	A	A	156913790	3	1	7	1	0	0	0	0	1	0	0	0	896	1580	55	5	1556	5	ARHGEF11	1	156913790	Missense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08	4627522	156913790	92336831	12	5220										
OR6K3	391114	broad.mit.edu	37	chr1	158687691	158687691	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaatggtggctgtggtgtacCagatctccagaaaggaaaat	13	6	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:158687691C>A	uc010pip.1	-	1	263	c.263G>T	c.(262-264)TGG>TTG	p.W88L		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	88	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					TGTGGTGTACCAGATCTCCAG	0.423													59	71	---	---	---	---	PASS	A	158687691	A	A	158687691	3	1	7	1	0	0	0	0	1	0	0	0	11203	595	21	3	734	3	OR6K3	1	158687691	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	1773901	158687691	90562930	13	5221										
OR10J5	127385	broad.mit.edu	37	chr1	159505361	159505361	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaccaatgccaaaggacccaCacaccagctgggcacatagt	9	14	0	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:159505361C>G	uc010piw.1	-	1	437	c.437G>C	c.(436-438)TGT>TCT	p.C146S		NM_001004469	NP_001004469	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J,	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_hematologic(112;0.0429)					AAAGGACCCACACACCAGCTG	0.512													23	33	---	---	---	---	PASS	G	159505361	G	G	159505361	3	3	7	1	0	0	0	0	1	0	0	0	10912	478	17	4	494	4	OR10J5	1	159505361	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	817670	159505361	89745260	14	5222										
KCNJ9	3765	broad.mit.edu	37	chr1	160057308	160057308	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aagctcggagctcctacctgGtagacgaggtgctgtggggc	16	10	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:160057308G>T	uc001fuy.1	+	3	1125	c.883G>T	c.(883-885)GTA>TTA	p.V295L		NM_004983	NP_004974	Q92806	IRK9_HUMAN	potassium inwardly-rectifying channel subfamily	295	Cytoplasmic (By similarity).				synaptic transmission	integral to membrane|plasma membrane	G-protein activated inward rectifier potassium channel activity|protein binding			ovary(1)|skin(1)	2	all_cancers(52;5.86e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CTCCTACCTGGTAGACGAGGT	0.582													4	44	---	---	---	---	PASS	T	160057308	T	T	160057308	3	4	7	1	0	0	0	0	1	0	0	0	8057	1261	44	3	889	3	KCNJ9	1	160057308	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	551947	160057308	89193313	15	5223										
HMCN1	83872	broad.mit.edu	37	chr1	186106962	186106962	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	agctggtcggaatggagtctTtgggaagaatgcacaaggag	16	5	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:186106962T>C	uc001grq.1	+	89	14011	c.13782T>C	c.(13780-13782)CTT>CTC	p.L4594L	HMCN1_uc001grs.1_Silent_p.L163L	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4594	TSP type-1 2.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AATGGAGTCTTTGGGAAGAAT	0.488													34	42	---	---	---	---	PASS	C	186106962	C	C	186106962	2	2	7	1	0	0	0	0	0	0	0	1	7220	1828	64	5		5	HMCN1	1	186106962	Silent	SNP	T	TCGA-18-3412-01A-01D-0983-08	26049654	186106962	63143659	16	5224										
RASSF5	83593	broad.mit.edu	37	chr1	206711563	206711563	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	agttggactgcagtcagcagGagggtttatcccgggacaga	15	8	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:206711563G>C	uc001hed.2	+	2	577	c.520G>C	c.(520-522)GAG>CAG	p.E174Q	RASSF5_uc001hec.1_Missense_Mutation_p.E174Q|RASSF5_uc001hee.2_Missense_Mutation_p.E174Q	NM_182663	NP_872604	Q8WWW0	RASF5_HUMAN	Ras association (RalGDS/AF-6) domain family 5	174					apoptosis|intracellular signal transduction	cytoplasm|microtubule	metal ion binding|protein binding			ovary(1)	1	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			CAGTCAGCAGGAGGGTTTATC	0.547													13	60	---	---	---	---	PASS	C	206711563	C	C	206711563	3	2	7	1	0	0	0	0	1	0	0	0	13089	1175	41	2	526	2	RASSF5	1	206711563	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	20604601	206711563	42539058	17	5225										
OR2T8	343172	broad.mit.edu	37	chr1	248085236	248085236	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gacaaggtgtatgggtcggtGtgtggccttaagtcgtgaat	16	5	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:248085236G>T	uc010pzc.1	+	1	917	c.917G>T	c.(916-918)TGT>TTT	p.C306F		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	306	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			ATGGGTCGGTGTGTGGCCTTA	0.423													26	60	---	---	---	---	PASS	T	248085236	T	T	248085236	3	4	7	1	0	0	0	0	1	0	0	0	11030	1377	48	3	919	3	OR2T8	1	248085236	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	41373673	248085236	1165385	18	5226										
FAM84A	151354	broad.mit.edu	37	chr2	14774177	14774177	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aggggacccgtcggggattgAaaaggacgaactgcgggtcg	18	8	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:14774177A>T	uc002rbz.1	+	2	316	c.74A>T	c.(73-75)GAA>GTA	p.E25V	FAM84A_uc002rca.1_5'Flank	NM_145175	NP_660158	Q96KN4	FA84A_HUMAN	family with sequence similarity 84, member A	25										pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)		GBM - Glioblastoma multiforme(1;0.00969)			TCGGGGATTGAAAAGGACGAA	0.622													7	24	---	---	---	---	PASS	T	14774177	T	T	14774177	3	4	7	1	0	0	0	0	1	0	0	0	5641	246	9	5	76	5	FAM84A	2	14774177	Missense_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08		14774177	228425196	19	5227										
RAD51AP2	729475	broad.mit.edu	37	chr2	17697653	17697653	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tttcaaaaatcggaaaacctGtattttgagttgtcatactg	7	6	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:17697653G>T	uc002rcl.1	-	1	2054	c.2030C>A	c.(2029-2031)ACA>AAA	p.T677K	RAD51AP2_uc010exn.1_Missense_Mutation_p.T668K	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	677										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CGGAAAACCTGTATTTTGAGT	0.274													5	36	---	---	---	---	PASS	T	17697653	T	T	17697653	3	4	7	1	0	0	0	0	1	0	0	0	12987	1377	48	3	1461	3	RAD51AP2	2	17697653	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	2923476	17697653	225501720	20	5228										
APOB	338	broad.mit.edu	37	chr2	21236080	21236080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cacagagtcagccttcatgtGgtaacgagcccgaaggctga	12	11	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:21236080G>T	uc002red.2	-	25	4296	c.4168C>A	c.(4168-4170)CAC>AAC	p.H1390N		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1390					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GCCTTCATGTGGTAACGAGCC	0.532													6	167	---	---	---	---	PASS	T	21236080	T	T	21236080	3	4	7	1	0	0	0	0	1	0	0	0	785	1348	47	3	9543	3	APOB	2	21236080	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	3538427	21236080	221963293	21	5229										
UBXN2A	165324	broad.mit.edu	37	chr2	24199905	24199905	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	acgatttcagaagttattccGatggtgccagtcagcagttt	10	8	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:24199905G>A	uc010exy.2	+	5	715	c.247G>A	c.(247-249)GAT>AAT	p.D83N	UBXN2A_uc002rem.2_RNA|UBXN2A_uc002ren.2_Missense_Mutation_p.D83N|UBXN2A_uc010ykj.1_Missense_Mutation_p.D83N	NM_181713	NP_859064	P68543	UBX2A_HUMAN	UBX domain containing 4	83	SEP.										0						AAGTTATTCCGATGGTGCCAG	0.284													6	74	---	---	---	---	PASS	A	24199905	A	A	24199905	3	1	7	1	0	0	0	0	1	0	0	0	16911	1058	37	2	257	2	UBXN2A	2	24199905	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	2963825	24199905	218999468	22	5230										
PNPT1	87178	broad.mit.edu	37	chr2	55895077	55895077	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tctattatttcatatggatcGgcttctggaaatttttctat	6	6	4	0	rs147013543		TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:55895077G>C	uc002rzf.2	-	12	1046	c.993C>G	c.(991-993)GCC>GCG	p.A331A	PNPT1_uc002rzg.2_RNA	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1	331					mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			CATATGGATCGGCTTCTGGAA	0.279													8	23	---	---	---	---	PASS	C	55895077	C	C	55895077	2	2	7	1	0	0	0	0	0	0	0	1	12173	1103	39	4		4	PNPT1	2	55895077	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	31695172	55895077	187304296	23	5231										
WDR54	84058	broad.mit.edu	37	chr2	74652764	74652764	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tgctcgattttgtgattcctCaggcaactcctttgctgtga	9	10	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:74652764C>A	uc002slb.2	+	10	1001	c.941C>A	c.(940-942)TCA>TAA	p.S314*		NM_032118	NP_115494	Q9H977	WDR54_HUMAN	WD repeat domain 54	314											0						TGTGATTCCTCAGGCAACTCC	0.557													6	175	---	---	---	---	PASS	A	74652764	A	A	74652764	4	1	7	1	0	0	0	0	0	1	0	0	17303	838	29	2	975	2	WDR54	2	74652764	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	18757687	74652764	168546609	24	5232										
IL1R2	7850	broad.mit.edu	37	chr2	102632492	102632492	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ttcacccgtgacaaaactgaCgtgaagattcaatggtacaa	8	9	2	4			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:102632492C>T	uc002tbm.2	+	4	721	c.492C>T	c.(490-492)GAC>GAT	p.D164D	IL1R2_uc002tbn.2_Silent_p.D164D|IL1R2_uc002tbo.1_Silent_p.D164D	NM_004633	NP_004624	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II precursor	164	Extracellular (Potential).|Ig-like C2-type 2.				immune response	integral to membrane|plasma membrane	interleukin-1, Type II, blocking receptor activity			ovary(1)|breast(1)	2					Anakinra(DB00026)	ACAAAACTGACGTGAAGATTC	0.378													7	24	---	---	---	---	PASS	T	102632492	T	T	102632492	2	4	7	1	0	0	0	0	0	0	0	1	7659	535	19	1		1	IL1R2	2	102632492	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	27979728	102632492	140566881	25	5233										
GPR39	2863	broad.mit.edu	37	chr2	133402844	133402844	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gctcggtcatcaacccgctcCtgtacacggtgtcctcgcag	10	16	2	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:133402844C>A	uc002ttl.2	+	2	1496	c.1027C>A	c.(1027-1029)CTG>ATG	p.L343M	LYPD1_uc002ttm.3_3'UTR|LYPD1_uc002ttn.2_3'UTR|LYPD1_uc002tto.2_3'UTR	NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	343	Helical; Name=7; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						CAACCCGCTCCTGTACACGGT	0.622													5	54	---	---	---	---	PASS	A	133402844	A	A	133402844	3	1	7	1	0	0	0	0	1	0	0	0	6693	680	24	3	1033	3	GPR39	2	133402844	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	30770352	133402844	109796529	26	5234										
BAZ2B	29994	broad.mit.edu	37	chr2	160294950	160294950	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cttgatttaccaaagataaaGgtttcacattggacaccaat	6	8	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:160294950G>T	uc002uao.2	-	8	1509	c.1157C>A	c.(1156-1158)CCT>CAT	p.P386H	BAZ2B_uc002uap.2_Missense_Mutation_p.P384H|BAZ2B_uc002uas.1_Missense_Mutation_p.P323H|BAZ2B_uc002uau.1_Missense_Mutation_p.P384H|BAZ2B_uc002uaq.1_Missense_Mutation_p.P314H|BAZ2B_uc002uat.3_3'UTR|BAZ2B_uc010fop.1_Missense_Mutation_p.P384H	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	386					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CAAAGATAAAGGTTTCACATT	0.383													6	53	---	---	---	---	PASS	T	160294950	T	T	160294950	3	4	7	1	0	0	0	0	1	0	0	0	1332	1000	35	3	5469	3	BAZ2B	2	160294950	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	26892106	160294950	82904423	27	5235										
CSRNP3	80034	broad.mit.edu	37	chr2	166532891	166532891	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tggatgacatttctgatgatGacattgacctggacaacaca	9	8	1	5			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:166532891G>A	uc002udf.2	+	6	854	c.478G>A	c.(478-480)GAC>AAC	p.D160N	CSRNP3_uc002udg.2_Missense_Mutation_p.D160N	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	160					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						TTCTGATGATGACATTGACCT	0.423													46	212	---	---	---	---	PASS	A	166532891	A	A	166532891	3	1	7	1	0	0	0	0	1	0	0	0	3965	1290	45	2	488	2	CSRNP3	2	166532891	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	6237941	166532891	76666482	28	5236										
CHN1	1123	broad.mit.edu	37	chr2	175664914	175664914	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gataccgtatatcattcaatGcagccatggcgtctagttct	8	10	4	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:175664914G>A	uc002uji.2	-	13	1840	c.1310C>T	c.(1309-1311)GCA>GTA	p.A437V	CHN1_uc010zeq.1_Missense_Mutation_p.A411V|CHN1_uc002ujj.2_Missense_Mutation_p.A212V|CHN1_uc002ujg.2_Missense_Mutation_p.A312V	NM_001822	NP_001813	P15882	CHIN_HUMAN	chimerin (chimaerin) 1 isoform a	437	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.226)			ATCATTCAATGCAGCCATGGC	0.403			T	TAF15	extraskeletal myxoid chondrosarcoma								8	43	---	---	---	---	PASS	A	175664914	A	A	175664914	3	1	7	1	0	0	0	0	1	0	0	0	3362	1319	46	3	73	3	CHN1	2	175664914	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	9132023	175664914	67534459	29	5237										
ZSWIM2	151112	broad.mit.edu	37	chr2	187709452	187709452	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cccaaaacttacattcatggTtccttggaagcttgaatttt	6	9	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:187709452T>A	uc002upu.1	-	3	315	c.275A>T	c.(274-276)AAC>ATC	p.N92I		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	92					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			ACATTCATGGTTCCTTGGAAG	0.254													25	28	---	---	---	---	PASS	A	187709452	A	A	187709452	3	1	7	1	0	0	0	0	1	0	0	0	18238	1725	60	5	1654	5	ZSWIM2	2	187709452	Missense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08	12044538	187709452	55489921	30	5238										
HECW2	57520	broad.mit.edu	37	chr2	197087045	197087045	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctcttcatcaaggtattctaGgtcactcaggtcacatagac	7	11	7	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:197087045G>T	uc002utm.1	-	24	4219	c.4036C>A	c.(4036-4038)CTA>ATA	p.L1346I	HECW2_uc002utl.1_Missense_Mutation_p.L990I	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	1346	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						AGGTATTCTAGGTCACTCAGG	0.408													5	68	---	---	---	---	PASS	T	197087045	T	T	197087045	3	4	7	1	0	0	0	0	1	0	0	0	7043	991	35	3	706	3	HECW2	2	197087045	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	9377593	197087045	46112328	31	5239										
NBEAL1	65065	broad.mit.edu	37	chr2	204032030	204032030	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	acaatttaagaagatcagccCttgagatttttcatgttgac	7	7	2	4			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:204032030C>T	uc002uzt.3	+	37	6190	c.5857C>T	c.(5857-5859)CTT>TTT	p.L1953F	NBEAL1_uc002uzs.3_Missense_Mutation_p.L663F	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	1953							binding			ovary(1)|skin(1)	2						AAGATCAGCCCTTGAGATTTT	0.363													16	51	---	---	---	---	PASS	T	204032030	T	T	204032030	3	4	7	1	0	0	0	0	1	0	0	0	10188	681	24	3	5999	3	NBEAL1	2	204032030	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	6944985	204032030	39167343	32	5240										
FN1	2335	broad.mit.edu	37	chr2	216247035	216247035	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ggctgcaagccttcaatagtCatttctgtttgatctgcaaa	8	9	4	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:216247035C>T	uc002vfa.2	-	32	5330	c.5064G>A	c.(5062-5064)ATG>ATA	p.M1688I	FN1_uc002vfb.2_Missense_Mutation_p.M1597I|FN1_uc002vfc.2_Missense_Mutation_p.M1597I|FN1_uc002vfd.2_Missense_Mutation_p.M1688I|FN1_uc002vfe.2_Missense_Mutation_p.M1597I|FN1_uc002vff.2_Missense_Mutation_p.M1597I|FN1_uc002vfg.2_Missense_Mutation_p.M1597I|FN1_uc002vfh.2_Missense_Mutation_p.M1597I|FN1_uc002vfi.2_Missense_Mutation_p.M1688I|FN1_uc002vfj.2_Missense_Mutation_p.M1688I|FN1_uc002vez.2_5'UTR|FN1_uc010zjp.1_Missense_Mutation_p.M315I|FN1_uc010fvc.1_Missense_Mutation_p.M50I|FN1_uc010fvd.1_Missense_Mutation_p.M50I	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTTCAATAGTCATTTCTGTTT	0.453													6	35	---	---	---	---	PASS	T	216247035	T	T	216247035	3	4	7	1	0	0	0	0	1	0	0	0	5962	826	29	2	2429	2	FN1	2	216247035	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	12215005	216247035	26952338	33	5241										
COL4A4	1286	broad.mit.edu	37	chr2	227920724	227920725	+	Frame_Shift_Ins	INS	-	T	T													0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cctgggattcctgggaggccINStgggggaccatgtgccccag							TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:227920724_227920725insT	uc010zlt.1	-	30	3306_3307	c.2652_2653insA	c.(2650-2655)CCAGGCfs	p.P884fs		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	884_885	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CCTGGGAGGCCTGGGGGACCAT	0.619													22	10	---	---	---	---		T	227920725	T	T	227920724	7	5	7	1	0	1	1	0	0	0	0	0	3693	681	24	0	2495	0	COL4A4	2	227920724	Frame_Shift_Ins	INS	-	TCGA-18-3412-01A-01D-0983-08	11673689	227920724	15278649	34	5242										
DGKD	8527	broad.mit.edu	37	chr2	234347023	234347023	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atgaacggaggcccacacctCgggtaggaagcttgtaaaat	12	9	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:234347023C>A	uc002vui.1	+	9	1095	c.1083C>A	c.(1081-1083)CTC>CTA	p.L361L	DGKD_uc002vuj.1_Silent_p.L317L|DGKD_uc010fyh.1_Silent_p.L228L|DGKD_uc010fyi.1_RNA|DGKD_uc002vuk.1_Silent_p.L228L	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	361	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	GCCCACACCTCGGGTAGGAAG	0.413													4	98	---	---	---	---	PASS	A	234347023	A	A	234347023	2	1	7	1	0	0	0	0	0	0	0	1	4467	871	31	2		2	DGKD	2	234347023	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	6426299	234347023	8852350	35	5243										
ITPR1	3708	broad.mit.edu	37	chr3	4817034	4817034	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctggaggccttggtcttctgGgcttgtatataaatgaaaag	12	6	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:4817034G>T	uc003bqa.2	+	44	6292	c.5944G>T	c.(5944-5946)GGC>TGC	p.G1982C	ITPR1_uc010hca.1_Missense_Mutation_p.G1967C|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.G952C	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	2030	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding	p.L1982L(1)		lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		TGGTCTTCTGGGCTTGTATAT	0.433													6	81	---	---	---	---	PASS	T	4817034	T	T	4817034	3	4	7	1	0	0	0	0	1	0	0	0	7920	1232	43	3	6266	3	ITPR1	3	4817034	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08		4817034	193205396	36	5244										
PRSS45	377047	broad.mit.edu	37	chr3	46785594	46785594	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctgaagttcatgggctgcagCttggaggtgccaagcaccac	13	11	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:46785594C>T	uc010hjl.2	-	2	150	c.150G>A	c.(148-150)AAG>AAA	p.K50K	PRSS45_uc011bam.1_RNA	NM_199183	NP_954652	Q7RTY3	PRS45_HUMAN	testis serine protease 5	50	Peptidase S1.				proteolysis		serine-type endopeptidase activity				0						TGGGCTGCAGCTTGGAGGTGC	0.577													4	4	---	---	---	---	PASS	T	46785594	T	T	46785594	2	4	7	1	0	0	0	0	0	0	0	1	12629	796	28	3		3	PRSS45	3	46785594	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	41968560	46785594	151236836	37	5245										
COL6A6	131873	broad.mit.edu	37	chr3	130282213	130282213	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aggacttatttctctgcaccCgcaaatgggagagacaagaa	10	9	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:130282213C>A	uc010htl.2	+	2	397	c.366C>A	c.(364-366)CCC>CCA	p.P122P		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	122	Nonhelical region.|VWFA 1.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TCTCTGCACCCGCAAATGGGA	0.507													8	12	---	---	---	---	PASS	A	130282213	A	A	130282213	2	1	7	1	0	0	0	0	0	0	0	1	3703	639	23	1		1	COL6A6	3	130282213	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	83496619	130282213	67740217	38	5246										
EPHB1	2047	broad.mit.edu	37	chr3	134851709	134851709	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	agaccgccggagctgctcccGctgtgacgacaatgtggagt	14	12	0	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:134851709G>T	uc003eqt.2	+	5	1335	c.1115G>T	c.(1114-1116)CGC>CTC	p.R372L	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_3'UTR|EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	372	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						AGCTGCTCCCGCTGTGACGAC	0.617													19	13	---	---	---	---	PASS	T	134851709	T	T	134851709	3	4	7	1	0	0	0	0	1	0	0	0	5174	1087	38	1	1133	1	EPHB1	3	134851709	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	4569496	134851709	63170721	39	5247										
EIF2A	83939	broad.mit.edu	37	chr3	150301010	150301010	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctgaaagcaatcgaacaactGaaagaacaagcagcaactgg	9	9	0	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:150301010G>A	uc003eya.2	+	13	1666	c.1650G>A	c.(1648-1650)CTG>CTA	p.L550L	SERP1_uc003exz.2_Intron|EIF2A_uc003eyb.2_Silent_p.L423L|EIF2A_uc003eyc.2_Silent_p.L423L|EIF2A_uc011bnv.1_Silent_p.L525L|EIF2A_uc011bnw.1_Silent_p.L489L|EIF2A_uc003eyd.2_Silent_p.L325L|uc003eye.1_Intron	NM_032025	NP_114414	Q9BY44	EIF2A_HUMAN	eukaryotic translation initiation factor 2A	550	Potential.				regulation of translation|ribosome assembly	eukaryotic translation initiation factor 2 complex	ribosome binding|translation initiation factor activity|tRNA binding				0		Melanoma(1037;0.0575)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			TCGAACAACTGAAAGAACAAG	0.368													22	190	---	---	---	---	PASS	A	150301010	A	A	150301010	2	1	7	1	0	0	0	0	0	0	0	1	4995	1277	45	2		2	EIF2A	3	150301010	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	15449301	150301010	47721420	40	5248										
SI	6476	broad.mit.edu	37	chr3	164739162	164739162	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ttcatatctcttcttttgggGatcataaatctattgcagat	6	7	5	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:164739162G>A	uc003fei.2	-	27	3171	c.3109C>T	c.(3109-3111)CCC>TCC	p.P1037S		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1037	Sucrase.|Lumenal.				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)	TTCTTTTGGGGATCATAAATC	0.328										HNSCC(35;0.089)			9	273	---	---	---	---	PASS	A	164739162	A	A	164739162	3	1	7	1	0	0	0	0	1	0	0	0	14297	1174	41	2	2462	2	SI	3	164739162	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	14438152	164739162	33283268	41	5249										
SI	6476	broad.mit.edu	37	chr3	164792369	164792369	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tattctcacattgacaggatCatttaacacatttggacatt	5	8	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:164792369C>A	uc003fei.2	-	3	267	c.205G>T	c.(205-207)GAT>TAT	p.D69Y		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	69	Lumenal.|P-type 1.				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)	TTGACAGGATCATTTAACACA	0.333										HNSCC(35;0.089)			17	72	---	---	---	---	PASS	A	164792369	A	A	164792369	3	1	7	1	0	0	0	0	1	0	0	0	14297	826	29	2	5462	2	SI	3	164792369	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	53207	164792369	33230061	42	5250										
BCHE	590	broad.mit.edu	37	chr3	165504037	165504037	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctgtattcaaggttagatatTtttgttcagtgcttttgaag	9	4	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:165504037T>C	uc003fem.3	-	3	1740	c.1580A>G	c.(1579-1581)AAA>AGA	p.K527R	BCHE_uc003fen.3_RNA	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	527					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	GGTTAGATATTTTTGTTCAGT	0.333													23	51	---	---	---	---	PASS	C	165504037	C	C	165504037	3	2	7	1	0	0	0	0	1	0	0	0	1358	1841	64	5	236	5	BCHE	3	165504037	Missense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08	711668	165504037	32518393	43	5251										
HTR3E	285242	broad.mit.edu	37	chr3	183818359	183818359	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tgaattcagtgtttaatagaAagcccttccgtccggtcacc	8	11	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:183818359A>C	uc010hxq.2	+	2	620	c.154A>C	c.(154-156)AAG>CAG	p.K52Q	HTR3E_uc003fml.3_Missense_Mutation_p.K52Q|HTR3E_uc003fmm.2_Missense_Mutation_p.K67Q|HTR3E_uc010hxr.2_Missense_Mutation_p.K67Q|HTR3E_uc003fmn.2_Missense_Mutation_p.K67Q	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	52	Extracellular (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			GTTTAATAGAAAGCCCTTCCG	0.537													37	305	---	---	---	---	PASS	C	183818359	C	C	183818359	3	2	7	1	0	0	0	0	1	0	0	0	7448	15	1	5	201	5	HTR3E	3	183818359	Missense_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08	18314322	183818359	14204071	44	5252										
EIF4G1	1981	broad.mit.edu	37	chr3	184045465	184045465	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aaatccaaggctatcattgaGgaatatctccatctcaatga	6	9	3	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:184045465G>T	uc003fnp.2	+	25	3951	c.3753G>T	c.(3751-3753)GAG>GAT	p.E1251D	EIF4G1_uc003fnt.2_Missense_Mutation_p.E962D|EIF4G1_uc003fnq.2_Missense_Mutation_p.E1164D|EIF4G1_uc003fnr.2_Missense_Mutation_p.E1087D|EIF4G1_uc010hxx.2_Missense_Mutation_p.E1258D|EIF4G1_uc003fns.2_Missense_Mutation_p.E1211D|EIF4G1_uc010hxy.2_Missense_Mutation_p.E1258D|EIF4G1_uc003fnv.3_Missense_Mutation_p.E1252D|EIF4G1_uc003fnu.3_Missense_Mutation_p.E1251D|EIF4G1_uc003fnw.2_Missense_Mutation_p.E1258D|EIF4G1_uc003fnx.2_Missense_Mutation_p.E1056D|EIF4G1_uc003fny.3_Missense_Mutation_p.E1055D|EIF4G1_uc003foa.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1251	MI.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CTATCATTGAGGAATATCTCC	0.562													7	176	---	---	---	---	PASS	T	184045465	T	T	184045465	3	4	7	1	0	0	0	0	1	0	0	0	5036	991	35	3	3843	3	EIF4G1	3	184045465	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	227106	184045465	13976965	45	5253										
MAGEF1	64110	broad.mit.edu	37	chr3	184429384	184429384	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctccgccaccgtccgattcaGccggcggtaggccctgcgcc	12	19	1	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:184429384G>A	uc003fpa.2	-	1	453	c.226C>T	c.(226-228)CTG>TTG	p.L76L		NM_022149	NP_071432	Q9HAY2	MAGF1_HUMAN	melanoma antigen family F, 1	76	MAGE.									ovary(1)	1	all_cancers(143;4.61e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;5.64e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.56e-22)			GTCCGATTCAGCCGGCGGTAG	0.642													24	129	---	---	---	---	PASS	A	184429384	A	A	184429384	2	1	7	1	0	0	0	0	0	0	0	1	9187	962	34	3		3	MAGEF1	3	184429384	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	383919	184429384	13593046	46	5254										
VPS8	23355	broad.mit.edu	37	chr3	184675210	184675210	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctgcaaatatctccttgtatCacagagcagttcattgagct	7	10	3	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:184675210C>A	uc003fpb.1	+	36	3249	c.3078C>A	c.(3076-3078)ATC>ATA	p.I1026I	VPS8_uc010hyd.1_Silent_p.I936I|VPS8_uc010hye.1_Silent_p.I455I	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	1028							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			CTCCTTGTATCACAGAGCAGT	0.373													8	65	---	---	---	---	PASS	A	184675210	A	A	184675210	2	1	7	1	0	0	0	0	0	0	0	1	17215	816	29	2		2	VPS8	3	184675210	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	245826	184675210	13347220	47	5255										
LSG1	55341	broad.mit.edu	37	chr3	194366966	194366966	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	catgcgctgtcatgaatcctCgcatgtctgtggagagaaaa	11	9	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:194366966C>A	uc003fui.2	-	12	1865	c.1550G>T	c.(1549-1551)CGA>CTA	p.R517L		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	517					nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		CATGAATCCTCGCATGTCTGT	0.448													5	197	---	---	---	---	PASS	A	194366966	A	A	194366966	3	1	7	1	0	0	0	0	1	0	0	0	9049	884	31	2	438	2	LSG1	3	194366966	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	9691756	194366966	3655464	48	5256										
MUC4	4585	broad.mit.edu	37	chr3	195484025	195484025	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tcccaacactcacctccaggGaggagttgcccaccctgctg	9	17	1	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:195484025G>T	uc011bto.1	-	19	15237	c.14777C>A	c.(14776-14778)TCC>TAC	p.S4926Y	MUC4_uc003fuz.2_Missense_Mutation_p.S652Y|MUC4_uc003fva.2_Missense_Mutation_p.S534Y|MUC4_uc003fvb.2_Missense_Mutation_p.S570Y|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.S570Y|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.S534Y|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.S618Y|MUC4_uc011bti.1_Missense_Mutation_p.S618Y|MUC4_uc011btj.1_Missense_Mutation_p.S795Y|MUC4_uc011btk.1_Missense_Mutation_p.S534Y|MUC4_uc011btl.1_Missense_Mutation_p.S563Y|MUC4_uc011btm.1_Missense_Mutation_p.S743Y|MUC4_uc011btn.1_Missense_Mutation_p.S534Y|MUC4_uc003fvo.2_Missense_Mutation_p.S818Y|MUC4_uc003fvp.2_Missense_Mutation_p.S767Y	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1811					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		CACCTCCAGGGAGGAGTTGCC	0.572													7	184	---	---	---	---	PASS	T	195484025	T	T	195484025	3	4	7	1	0	0	0	0	1	0	0	0	9978	1174	41	2	1109	2	MUC4	3	195484025	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	1117059	195484025	2538405	49	5257										
UBXN7	26043	broad.mit.edu	37	chr3	196083658	196083658	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aatttccttcgaggaaagttGgtgagaagttcaaaacgttc	10	6	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:196083658G>T	uc003fwm.3	-	11	1443	c.1368C>A	c.(1366-1368)ACC>ACA	p.T456T	UBXN7_uc003fwn.3_Silent_p.T308T|UBXN7_uc010iae.2_Silent_p.T294T	NM_015562	NP_056377	O94888	UBXN7_HUMAN	UBX domain containing 7	456	UBX.						protein binding			ovary(2)|pancreas(1)	3						GAGGAAAGTTGGTGAGAAGTT	0.393													6	130	---	---	---	---	PASS	T	196083658	T	T	196083658	2	4	7	1	0	0	0	0	0	0	0	1	16915	1335	47	3		3	UBXN7	3	196083658	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	599633	196083658	1938772	50	5258										
FAM193A	8603	broad.mit.edu	37	chr4	2696737	2696737	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	acccacagcaggatgatgggGacgagagtgcagatgaggac	16	8	0	4			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:2696737G>A	uc010icl.2	+	15	2635	c.2284G>A	c.(2284-2286)GAC>AAC	p.D762N	FAM193A_uc010ick.2_Missense_Mutation_p.D962N|FAM193A_uc003gfd.2_Missense_Mutation_p.D762N|FAM193A_uc011bvm.1_Missense_Mutation_p.D784N|FAM193A_uc011bvn.1_Missense_Mutation_p.D762N|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Missense_Mutation_p.D616N	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	762										ovary(3)	3						GGATGATGGGGACGAGAGTGC	0.587													4	7	---	---	---	---	PASS	A	2696737	A	A	2696737	3	1	7	1	0	0	0	0	1	0	0	0	5524	1174	41	2	2334	2	FAM193A	4	2696737	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08		2696737	188457539	51	5259										
EVC2	132884	broad.mit.edu	37	chr4	5578179	5578179	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ttcctctccaactcctggagCtcctacacaaggaaggggca	9	14	1	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:5578179C>G	uc003gij.2	-	18	3114	c.3060G>C	c.(3058-3060)GAG>GAC	p.E1020D	EVC2_uc011bwb.1_Missense_Mutation_p.E460D|EVC2_uc003gik.2_Missense_Mutation_p.E940D	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1020	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						ACTCCTGGAGCTCCTACACAA	0.627													4	2	---	---	---	---	PASS	G	5578179	G	G	5578179	3	3	7	1	0	0	0	0	1	0	0	0	5286	796	28	4	886	4	EVC2	4	5578179	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	2881442	5578179	185576097	52	5260										
BEND4	389206	broad.mit.edu	37	chr4	42145969	42145969	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aatttaagaggctaagaactCgactgcactgctgggcaaag	11	8	0	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:42145969C>G	uc003gwn.2	-	3	1110	c.530G>C	c.(529-531)CGA>CCA	p.R177P	BEND4_uc003gwm.2_Missense_Mutation_p.R177P|BEND4_uc011byy.1_Missense_Mutation_p.R177P	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	177											0						GCTAAGAACTCGACTGCACTG	0.438													18	6	---	---	---	---	PASS	G	42145969	G	G	42145969	3	3	7	1	0	0	0	0	1	0	0	0	1400	884	31	2	1090	2	BEND4	4	42145969	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	36567790	42145969	149008307	53	5261										
FRYL	285527	broad.mit.edu	37	chr4	48566052	48566052	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	agcggtccacagcccagtacAtcaggttgctctgatcaggg	12	12	3	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:48566052A>G	uc003gyh.1	-	31	4114	c.3509T>C	c.(3508-3510)ATG>ACG	p.M1170T	FRYL_uc003gyk.2_Missense_Mutation_p.M1170T|FRYL_uc003gyi.1_Missense_Mutation_p.M59T	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	1170					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						AGCCCAGTACATCAGGTTGCT	0.527													9	63	---	---	---	---	PASS	G	48566052	G	G	48566052	3	3	7	1	0	0	0	0	1	0	0	0	6064	217	8	5	5668	5	FRYL	4	48566052	Missense_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08	6420083	48566052	142588224	54	5262										
PPEF2	5470	broad.mit.edu	37	chr4	76805858	76805858	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tctctactgaatccttgcctCgatccacaaagtcaccgttg	6	14	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:76805858C>A	uc003hix.2	-	8	992	c.635G>T	c.(634-636)CGA>CTA	p.R212L	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Missense_Mutation_p.R212L	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	212	Catalytic.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			ATCCTTGCCTCGATCCACAAA	0.458													5	176	---	---	---	---	PASS	A	76805858	A	A	76805858	3	1	7	1	0	0	0	0	1	0	0	0	12308	884	31	2	1666	2	PPEF2	4	76805858	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	28239806	76805858	114348418	55	5263										
ANK2	287	broad.mit.edu	37	chr4	114251433	114251433	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gttttatggtggatgcccgaGgtggtgctatgcgaggatgc	17	6	0	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:114251433G>A	uc003ibe.3	+	27	3032	c.2932G>A	c.(2932-2934)GGT>AGT	p.G978S	ANK2_uc003ibd.3_Missense_Mutation_p.G969S|ANK2_uc003ibf.3_Missense_Mutation_p.G978S|ANK2_uc011cgc.1_Missense_Mutation_p.G187S|ANK2_uc003ibg.3_Missense_Mutation_p.G6S|ANK2_uc003ibc.2_Missense_Mutation_p.G954S|ANK2_uc011cgb.1_Missense_Mutation_p.G993S	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	978	ZU5.|Interaction with SPTBN1.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GGATGCCCGAGGTGGTGCTAT	0.448													9	9	---	---	---	---	PASS	A	114251433	A	A	114251433	3	1	7	1	0	0	0	0	1	0	0	0	621	1000	35	3	3103	3	ANK2	4	114251433	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	37445575	114251433	76902843	56	5264										
RAPGEF2	9693	broad.mit.edu	37	chr4	160274672	160274672	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atgtccgagggccgaggcttAtatgctacagctacagtaat	11	9	0	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:160274672A>T	uc003iqg.3	+	22	3952	c.3642A>T	c.(3640-3642)TTA>TTT	p.L1214F		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1214					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GCCGAGGCTTATATGCTACAG	0.443													24	26	---	---	---	---	PASS	T	160274672	T	T	160274672	3	4	7	1	0	0	0	0	1	0	0	0	13044	446	16	5	3728	5	RAPGEF2	4	160274672	Missense_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08	46023239	160274672	30879604	57	5265										
KLHL2	11275	broad.mit.edu	37	chr4	166215563	166215563	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaatttctcaatcttggcatCgaacaagtgtgcagcttaat	8	8	2	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:166215563C>G	uc003irb.2	+	6	856	c.597C>G	c.(595-597)ATC>ATG	p.I199M	KLHL2_uc011cjm.1_Missense_Mutation_p.I203M|KLHL2_uc003irc.2_Missense_Mutation_p.I111M|KLHL2_uc010ira.2_Translation_Start_Site	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	199					intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		ATCTTGGCATCGAACAAGTGT	0.353													4	15	---	---	---	---	PASS	G	166215563	G	G	166215563	3	3	7	1	0	0	0	0	1	0	0	0	8374	874	31	2	661	2	KLHL2	4	166215563	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	5940891	166215563	24938713	58	5266										
GLRA3	8001	broad.mit.edu	37	chr4	175598344	175598344	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tgatccagaatgaaacccagGatagaataacaatcaggaga	9	7	1	5			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:175598344G>T	uc003ity.1	-	7	1315	c.812C>A	c.(811-813)TCC>TAC	p.S271Y	GLRA3_uc003itz.1_Missense_Mutation_p.S271Y	NM_006529	NP_006520	O75311	GLRA3_HUMAN	glycine receptor, alpha 3 isoform a	271	Helical; (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(3)	3		Prostate(90;0.00601)|Breast(14;0.0091)|Melanoma(52;0.00959)|Renal(120;0.0183)|all_neural(102;0.0891)|all_hematologic(60;0.107)		all cancers(43;4.99e-18)|Epithelial(43;1.18e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.88e-09)|STAD - Stomach adenocarcinoma(60;0.00442)|GBM - Glioblastoma multiforme(59;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0421)	Glycine(DB00145)	TGAAACCCAGGATAGAATAAC	0.468													4	19	---	---	---	---	PASS	T	175598344	T	T	175598344	3	4	7	1	0	0	0	0	1	0	0	0	6456	1174	41	2	598	2	GLRA3	4	175598344	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	9382781	175598344	15555932	59	5267										
ASB5	140458	broad.mit.edu	37	chr4	177136878	177136878	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ggtaaagagagcttggggtaGctacaagaagacatgaatct	13	5	1	4			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:177136878G>C	uc003iuq.1	-	7	879	c.863C>G	c.(862-864)GCT>GGT	p.A288G	ASB5_uc003iup.1_Missense_Mutation_p.A235G	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	288	SOCS box.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		GCTTGGGGTAGCTACAAGAAG	0.353													8	19	---	---	---	---	PASS	C	177136878	C	C	177136878	3	2	7	1	0	0	0	0	1	0	0	0	1026	985	34	4	130	4	ASB5	4	177136878	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	1538534	177136878	14017398	60	5268										
FAT1	2195	broad.mit.edu	37	chr4	187630181	187630181	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gcatatgctgggtccctgtcCagttctgatggtgacaatgt	12	9	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:187630181C>A	uc003izf.2	-	2	989	c.801G>T	c.(799-801)CTG>CTT	p.L267L	FAT1_uc010iso.1_Silent_p.L267L	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	267	Extracellular (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GGTCCCTGTCCAGTTCTGATG	0.522										HNSCC(5;0.00058)			7	262	---	---	---	---	PASS	A	187630181	A	A	187630181	2	1	7	1	0	0	0	0	0	0	0	1	5689	581	21	3		3	FAT1	4	187630181	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	10493303	187630181	3524095	61	5269										
KIAA0947	23379	broad.mit.edu	37	chr5	5463104	5463104	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	agtgaaataggagaaaaataCagaaagcaaccctgtgagga	11	5	0	4			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:5463104C>A	uc003jdm.3	+	13	3879	c.3657C>A	c.(3655-3657)TAC>TAA	p.Y1219*		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1219										ovary(1)|central_nervous_system(1)	2						GAGAAAAATACAGAAAGCAAC	0.363													4	51	---	---	---	---	PASS	A	5463104	A	A	5463104	4	1	7	1	0	0	0	0	0	1	0	0	8202	489	17	3	3707	3	KIAA0947	5	5463104	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08		5463104	175452156	62	5270										
PRLR	5618	broad.mit.edu	37	chr5	35065919	35065919	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ttcaggattctctggcttctCaatgacctcaggatcataga	8	10	5	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:35065919C>T	uc003jjm.2	-	10	1671	c.1141G>A	c.(1141-1143)GAG>AAG	p.E381K	PRLR_uc003jjg.1_Intron|PRLR_uc003jjh.1_Intron|PRLR_uc003jji.1_Intron|PRLR_uc003jjj.1_Intron|PRLR_uc003jjk.1_Intron|PRLR_uc003jjl.3_Missense_Mutation_p.E280K	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	381	Cytoplasmic (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	TCTGGCTTCTCAATGACCTCA	0.517													18	51	---	---	---	---	PASS	T	35065919	T	T	35065919	3	4	7	1	0	0	0	0	1	0	0	0	12531	835	29	2	731	2	PRLR	5	35065919	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	29602815	35065919	145849341	63	5271										
HCN1	348980	broad.mit.edu	37	chr5	45262556	45262556	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ggcatagtggaaagttcgagCggccagagggctctgtacag	16	8	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:45262556C>A	uc003jok.2	-	8	2165	c.2140G>T	c.(2140-2142)GCT>TCT	p.A714S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	714	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						AAAGTTCGAGCGGCCAGAGGG	0.483													6	16	---	---	---	---	PASS	A	45262556	A	A	45262556	3	1	7	1	0	0	0	0	1	0	0	0	6996	768	27	1	536	1	HCN1	5	45262556	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	10196637	45262556	135652704	64	5272										
SNX18	112574	broad.mit.edu	37	chr5	53814757	53814757	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctgtacgcgcgcctggcggaGaagttcccggtcatctccgt	13	14	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:53814757G>C	uc003jpj.3	+	1	1165	c.975G>C	c.(973-975)GAG>GAC	p.E325D	SNX18_uc011cqg.1_Missense_Mutation_p.E325D|SNX18_uc003jpi.3_Missense_Mutation_p.E325D	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	325	PX.				cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)				GCCTGGCGGAGAAGTTCCCGG	0.632													6	16	---	---	---	---	PASS	C	53814757	C	C	53814757	3	2	7	1	0	0	0	0	1	0	0	0	14889	933	33	2	977	2	SNX18	5	53814757	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	8552201	53814757	127100503	65	5273										
SNX18	112574	broad.mit.edu	37	chr5	53814938	53814938	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tgacgtgccccagcagcaccGacgagaaagcctggaagcag	13	13	0	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:53814938G>T	uc003jpj.3	+	1	1346	c.1156G>T	c.(1156-1158)GAC>TAC	p.D386Y	SNX18_uc011cqg.1_Missense_Mutation_p.D386Y|SNX18_uc003jpi.3_Missense_Mutation_p.D386Y	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	386	PX.				cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)				CAGCAGCACCGACGAGAAAGC	0.642													5	12	---	---	---	---	PASS	T	53814938	T	T	53814938	3	4	7	1	0	0	0	0	1	0	0	0	14889	1058	37	2	1158	2	SNX18	5	53814938	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	181	53814938	127100322	66	5274										
APC	324	broad.mit.edu	37	chr5	112175468	112175468	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gatgtacttctgtcagttcaCttgatagttttgagagtcgt	10	6	3	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:112175468C>A	uc010jby.2	+	16	4557	c.4177C>A	c.(4177-4179)CTT>ATT	p.L1393I	APC_uc011cvt.1_Missense_Mutation_p.L1375I|APC_uc003kpz.3_Missense_Mutation_p.L1393I|APC_uc003kpy.3_Missense_Mutation_p.L1393I|APC_uc010jbz.2_Missense_Mutation_p.L1110I|APC_uc010jca.2_Missense_Mutation_p.L693I	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1393	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.D1394fs*1(3)|p.L1393P(1)|p.Y1376fs*41(1)|p.K1192fs*3(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGTCAGTTCACTTGATAGTTT	0.468		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			21	33	---	---	---	---	PASS	A	112175468	A	A	112175468	3	1	7	1	0	0	0	0	1	0	0	0	763	565	20	3	4235	3	APC	5	112175468	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	58360530	112175468	68739792	67	5275										
DDX46	9879	broad.mit.edu	37	chr5	134143584	134143584	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atagctgccccaaccattatGaggattatgtacacagagca	8	10	0	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:134143584G>T	uc003kzw.2	+	16	2269	c.2101G>T	c.(2101-2103)GAG>TAG	p.E701*	DDX46_uc003kzv.1_RNA	NM_014829	NP_055644	Q7L014	DDX46_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46	701	Helicase C-terminal.				mRNA processing|RNA splicing	Cajal body|nuclear speck	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CAACCATTATGAGGATTATGT	0.398													6	38	---	---	---	---	PASS	T	134143584	T	T	134143584	4	4	7	1	0	0	0	0	0	1	0	0	4364	1291	45	2	2163	2	DDX46	5	134143584	Nonsense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	21968116	134143584	46771676	68	5276										
TIFAB	497189	broad.mit.edu	37	chr5	134785627	134785627	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aggacggtgaggggcttctcCatggaagaagtcctgggaag	17	7	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:134785627C>A	uc003law.3	-	2	204	c.3G>T	c.(1-3)ATG>ATT	p.M1I	C5orf20_uc003lav.2_5'Flank	NM_001099221	NP_001092691	Q6ZNK6	TIFAB_HUMAN	TIFA-related protein TIFAB	1											0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GGGGCTTCTCCATGGAAGAAG	0.597													4	38	---	---	---	---	PASS	A	134785627	A	A	134785627	3	1	7	1	0	0	0	0	1	0	0	0	15892	594	21	3	486	3	TIFAB	5	134785627	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	642043	134785627	46129633	69	5277										
SIL1	64374	broad.mit.edu	37	chr5	138356904	138356904	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aacgcagcatactccttcacGaggggctctgtgctgttcag	11	12	3	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:138356904G>T	uc003ldm.2	-	6	740	c.723C>A	c.(721-723)CTC>CTA	p.L241L	SIL1_uc003ldn.2_Silent_p.L240L|SIL1_uc003ldo.2_Silent_p.L241L|SIL1_uc003ldp.2_Silent_p.L241L|SIL1_uc003ldq.1_Silent_p.L34L	NM_022464	NP_071909	Q9H173	SIL1_HUMAN	SIL1 protein precursor	241	Interaction with HSPA5 and localization to the endoplasmic reticulum (By similarity).				intracellular protein transport|protein folding|transmembrane transport	endoplasmic reticulum lumen	unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ACTCCTTCACGAGGGGCTCTG	0.537									Marinesco-Sj_gren_syndrome				4	43	---	---	---	---	PASS	T	138356904	T	T	138356904	2	4	7	1	0	0	0	0	0	0	0	1	14321	1045	37	2		2	SIL1	5	138356904	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	3571277	138356904	42558356	70	5278										
RBM27	54439	broad.mit.edu	37	chr5	145649058	145649058	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atataatgaagactttgaaaGagcttggagagaagatctca	10	4	1	6			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:145649058G>A	uc003lnz.3	+	17	2768	c.2602G>A	c.(2602-2604)GAG>AAG	p.E868K	RBM27_uc003lny.2_Missense_Mutation_p.E813K	NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	868	Potential.				mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GACTTTGAAAGAGCTTGGAGA	0.308													17	31	---	---	---	---	PASS	A	145649058	A	A	145649058	3	1	7	1	0	0	0	0	1	0	0	0	13127	943	33	2	2668	2	RBM27	5	145649058	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	7292154	145649058	35266202	71	5279										
PPARGC1B	133522	broad.mit.edu	37	chr5	149216148	149216148	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctgcaaaggaaggtgctgagGtcctgggagccgtctggggt	18	8	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:149216148G>A	uc003lrc.2	+	8	2172	c.2130G>A	c.(2128-2130)AGG>AGA	p.R710R	PPARGC1B_uc003lrb.1_Silent_p.R710R|PPARGC1B_uc003lrd.2_Silent_p.R671R|PPARGC1B_uc003lrf.2_Silent_p.R689R|PPARGC1B_uc003lre.1_Silent_p.R689R	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	710					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			AGGTGCTGAGGTCCTGGGAGC	0.637													10	19	---	---	---	---	PASS	A	149216148	A	A	149216148	2	1	7	1	0	0	0	0	0	0	0	1	12301	1252	44	3		3	PPARGC1B	5	149216148	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	3567090	149216148	31699112	72	5280										
SYNPO	11346	broad.mit.edu	37	chr5	150028164	150028164	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	actgttgtcccacagagcctGccactttctagcatccaaca	6	15	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:150028164G>T	uc003lsn.2	+	3	1433	c.1059G>T	c.(1057-1059)CTG>CTT	p.L353L	SYNPO_uc003lso.3_Silent_p.L109L|SYNPO_uc003lsp.2_Silent_p.L109L	NM_001109974	NP_001103444	Q8N3V7	SYNPO_HUMAN	synaptopodin isoform B	353					positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CACAGAGCCTGCCACTTTCTA	0.567													5	102	---	---	---	---	PASS	T	150028164	T	T	150028164	2	4	7	1	0	0	0	0	0	0	0	1	15453	1306	46	3		3	SYNPO	5	150028164	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	812016	150028164	30887096	73	5281										
GABRA6	2559	broad.mit.edu	37	chr5	161116753	161116753	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gtatgatctgattggacaaaCagtatctagtgagacaatta	9	5	2	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:161116753C>G	uc003lyu.2	+	6	979	c.641C>G	c.(640-642)ACA>AGA	p.T214R	GABRA6_uc003lyv.2_5'UTR	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	214	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity	p.T214I(1)		ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ATTGGACAAACAGTATCTAGT	0.363										TCGA Ovarian(5;0.080)			17	29	---	---	---	---	PASS	G	161116753	G	G	161116753	3	3	7	1	0	0	0	0	1	0	0	0	6165	478	17	4	663	4	GABRA6	5	161116753	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	11088589	161116753	19798507	74	5282										
TBC1D9B	23061	broad.mit.edu	37	chr5	179320369	179320369	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaggaacatggagaagaagaGctcctggtcgcgggtgtcca	16	8	0	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:179320369G>A	uc003mlh.2	-	5	713	c.676C>T	c.(676-678)CTC>TTC	p.L226F	TBC1D9B_uc003mli.2_Missense_Mutation_p.L226F|TBC1D9B_uc003mlj.2_Missense_Mutation_p.L226F	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	226						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GAGAAGAAGAGCTCCTGGTCG	0.607													11	28	---	---	---	---	PASS	A	179320369	A	A	179320369	3	1	7	1	0	0	0	0	1	0	0	0	15625	971	34	3	3148	3	TBC1D9B	5	179320369	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	18203616	179320369	1594891	75	5283										
HDGFL1	154150	broad.mit.edu	37	chr6	22569818	22569818	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	accagctatgtcggcctacgGcatgcccatgtacaagagcg	11	13	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:22569818G>T	uc003nds.2	+	1	141	c.14G>T	c.(13-15)GGC>GTC	p.G5V		NM_138574	NP_612641	Q5TGJ6	HDGL1_HUMAN	hepatoma derived growth factor-like 1	5											0	Ovarian(93;0.163)					TCGGCCTACGGCATGCCCATG	0.647													17	2	---	---	---	---	PASS	T	22569818	T	T	22569818	3	4	7	1	0	0	0	0	1	0	0	0	7019	1203	42	3	16	3	HDGFL1	6	22569818	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08		22569818	148545249	76	5284										
GSTA4	2941	broad.mit.edu	37	chr6	52849319	52849319	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tgggccatgttaaccacttcCttttgctgatcatctggttt	8	10	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:52849319C>A	uc003pbc.2	-	4	421	c.357G>T	c.(355-357)AAG>AAT	p.K119N	GSTA4_uc003pbd.2_Missense_Mutation_p.K26N|GSTA4_uc003pbe.2_Missense_Mutation_p.K26N|GSTA4_uc003pbf.2_Missense_Mutation_p.K119N	NM_001512	NP_001503	O15217	GSTA4_HUMAN	glutathione S-transferase alpha 4	119	GST C-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity|protein homodimerization activity				0	Lung NSC(77;0.103)				Glutathione(DB00143)	TAACCACTTCCTTTTGCTGAT	0.428													5	58	---	---	---	---	PASS	A	52849319	A	A	52849319	3	1	7	1	0	0	0	0	1	0	0	0	6833	680	24	3	323	3	GSTA4	6	52849319	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	30279501	52849319	118265748	77	5285										
RAB23	51715	broad.mit.edu	37	chr6	57075140	57075140	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	actgctccattccctacaacCaccatctttatggcgacttc	4	16	1	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:57075140C>A	uc003pds.2	-	2	245	c.39G>T	c.(37-39)GTG>GTT	p.V13V	RAB23_uc003pdt.2_Silent_p.V13V|RAB23_uc010kac.2_Silent_p.V13V|RAB23_uc010kad.2_RNA	NM_183227	NP_899050	Q9ULC3	RAB23_HUMAN	Ras-related protein Rab-23	13			Missing.		protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			skin(1)	1	Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TCCCTACAACCACCATCTTTA	0.383													6	124	---	---	---	---	PASS	A	57075140	A	A	57075140	2	1	7	1	0	0	0	0	0	0	0	1	12910	581	21	3		3	RAB23	6	57075140	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	4225821	57075140	114039927	78	5286										
CD109	135228	broad.mit.edu	37	chr6	74520791	74520791	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aaggacaaatatccaagtgaCcgtgacggggcctagctcac	11	11	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:74520791C>T	uc003php.2	+	28	4048	c.3623C>T	c.(3622-3624)ACC>ATC	p.T1208I	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Missense_Mutation_p.T1208I|CD109_uc010kba.2_Missense_Mutation_p.T1131I	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	1208						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						ATCCAAGTGACCGTGACGGGG	0.468													17	48	---	---	---	---	PASS	T	74520791	T	T	74520791	3	4	7	1	0	0	0	0	1	0	0	0	2963	507	18	3	3733	3	CD109	6	74520791	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	17445651	74520791	96594276	79	5287										
COL12A1	1303	broad.mit.edu	37	chr6	75814968	75814968	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	caacgctgtcctgtgtacatGtgcaagaatttggaaaagca	10	8	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:75814968G>T	uc003phs.2	-	54	8385	c.8219C>A	c.(8218-8220)ACA>AAA	p.T2740K	COL12A1_uc003pht.2_Missense_Mutation_p.T1576K	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2740	Nonhelical region (NC3).				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CTGTGTACATGTGCAAGAATT	0.393													7	15	---	---	---	---	PASS	T	75814968	T	T	75814968	3	4	7	1	0	0	0	0	1	0	0	0	3669	1377	48	3	1024	3	COL12A1	6	75814968	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	1294177	75814968	95300099	80	5288										
C6orf97	80129	broad.mit.edu	37	chr6	151917703	151917703	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gccaaactggccgacaccaaTgaactgaaggcaagtgcttg	11	11	0	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:151917703T>G	uc003qol.2	+	9	1790	c.1701T>G	c.(1699-1701)AAT>AAG	p.N567K		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	567	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		CCGACACCAATGAACTGAAGG	0.478													30	56	---	---	---	---	PASS	G	151917703	G	G	151917703	3	3	7	1	0	0	0	0	1	0	0	0	2374	1461	51	5	1735	5	C6orf97	6	151917703	Missense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08	76102735	151917703	19197364	81	5289										
THBS2	7058	broad.mit.edu	37	chr6	169621534	169621534	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cctgccctcacctgatgtagCcagtcttgggcctgtgagtc	11	14	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:169621534C>G	uc003qwt.2	-	21	3610	c.3362G>C	c.(3361-3363)GGC>GCC	p.G1121A		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	1121	TSP C-terminal.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CCTGATGTAGCCAGTCTTGGG	0.527													8	70	---	---	---	---	PASS	G	169621534	G	G	169621534	3	3	7	1	0	0	0	0	1	0	0	0	15851	739	26	4	168	4	THBS2	6	169621534	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	17703831	169621534	1493533	82	5290										
COX19	90639	broad.mit.edu	37	chr7	1009037	1009037	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tttttttgcctctgattttcCactagtcaagtctccaaatc	4	11	3	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:1009037C>A	uc003sjp.1	-	3	340	c.250G>T	c.(250-252)GGA>TGA	p.G84*	ADAP1_uc010ksc.2_Intron	NM_001031617	NP_001026788	Q49B96	COX19_HUMAN	COX19 cytochrome c oxidase assembly homolog	84						cytosol					0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;2.15e-15)		TCTGATTTTCCACTAGTCAAG	0.473													9	287	---	---	---	---	PASS	A	1009037	A	A	1009037	4	1	7	1	0	0	0	0	0	1	0	0	3768	603	21	3	26	3	COX19	7	1009037	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08		1009037	158129626	83	5291										
CTTNBP2	83992	broad.mit.edu	37	chr7	117431826	117431826	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ggttgtcacgacttgtaggcGagacatctcttgacggagga	14	8	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:117431826G>T	uc003vjf.2	-	4	1516	c.1424C>A	c.(1423-1425)TCG>TAG	p.S475*		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	475	Pro-rich.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		ACTTGTAGGCGAGACATCTCT	0.483													7	287	---	---	---	---	PASS	T	117431826	T	T	117431826	4	4	7	1	0	0	0	0	0	1	0	0	4045	1059	37	2	3647	2	CTTNBP2	7	117431826	Nonsense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	116422789	117431826	41706837	84	5292										
TAS2R16	50833	broad.mit.edu	37	chr7	122635530	122635530	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tgtagacagaagcgagagatGcccaggctgatgagaatcat	13	7	1	5			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:122635530G>A	uc003vkl.1	-	1	225	c.159C>T	c.(157-159)GGC>GGT	p.G53G		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	53	Helical; Name=2; (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						AGCGAGAGATGCCCAGGCTGA	0.438													16	60	---	---	---	---	PASS	A	122635530	A	A	122635530	2	1	7	1	0	0	0	0	0	0	0	1	15566	1306	46	3		3	TAS2R16	7	122635530	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	5203704	122635530	36503133	85	5293										
ASB15	142685	broad.mit.edu	37	chr7	123256317	123256317	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aacagaaaacttgtggaggcCataaaacaaggtaaatgggt	11	5	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:123256317C>A	uc003vku.1	+	5	442	c.150C>A	c.(148-150)GCC>GCA	p.A50A	ASB15_uc003vkv.1_Silent_p.A50A|ASB15_uc003vkw.1_Silent_p.A50A	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	50					intracellular signal transduction					skin(2)|lung(1)	3						TTGTGGAGGCCATAAAACAAG	0.353													9	58	---	---	---	---	PASS	A	123256317	A	A	123256317	2	1	7	1	0	0	0	0	0	0	0	1	1019	581	21	3		3	ASB15	7	123256317	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	620787	123256317	35882346	86	5294										
NUP205	23165	broad.mit.edu	37	chr7	135307641	135307641	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ccctcatggaagtggtctgtCgagatgcttgtgatggtcat	13	8	3	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:135307641C>T	uc003vsw.2	+	31	4478	c.4447C>T	c.(4447-4449)CGA>TGA	p.R1483*	NUP205_uc003vsx.2_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1483					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						AGTGGTCTGTCGAGATGCTTG	0.383													19	43	---	---	---	---	PASS	T	135307641	T	T	135307641	4	4	7	1	0	0	0	0	0	1	0	0	10759	876	31	2	4569	2	NUP205	7	135307641	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	12051324	135307641	23831022	87	5295										
TRPV5	56302	broad.mit.edu	37	chr7	142605706	142605706	+	Frame_Shift_Del	DEL	C	-	-													0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atggtagacctcctctccatCcccctcactaaggttcagtc							TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:142605706delC	uc003wby.1	-	15	2428	c.2164delG	c.(2164-2166)GATfs	p.D722fs		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	722	Cytoplasmic (Potential).|Involved in Ca(2+)-dependent inactivation (By similarity).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					TCCTCTCCATCCCCCTCACTA	0.572													39	29	---	---	---	---		-	142605706	-	-	142605706	7	5	7	1	0	1	0	1	0	0	0	0	16596	855	30	0	29	0	TRPV5	7	142605706	Frame_Shift_Del	DEL	C	TCGA-18-3412-01A-01D-0983-08	7298065	142605706	16532957	88	5296										
PDIA4	9601	broad.mit.edu	37	chr7	148718111	148718111	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tttgtcagccacaaaattatCaaagtttgcatcatttagga	6	7	3	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:148718111C>G	uc003wff.2	-	2	499	c.217G>C	c.(217-219)GAT>CAT	p.D73H		NM_004911	NP_004902	P13667	PDIA4_HUMAN	protein disulfide isomerase A4 precursor	73	Thioredoxin 1.				cell redox homeostasis|glycerol ether metabolic process|protein secretion	endoplasmic reticulum lumen|melanosome	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			lung(5)|ovary(1)	6	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00385)			ACAAAATTATCAAAGTTTGCA	0.348													10	33	---	---	---	---	PASS	G	148718111	G	G	148718111	3	3	7	1	0	0	0	0	1	0	0	0	11670	826	29	2	1756	2	PDIA4	7	148718111	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	6112405	148718111	10420552	89	5297										
PDIA4	9601	broad.mit.edu	37	chr7	148718159	148718159	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tccattttcttccttaacttCcaagtcgtcttcttcctcat	2	14	4	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:148718159C>A	uc003wff.2	-	2	451	c.169G>T	c.(169-171)GAA>TAA	p.E57*		NM_004911	NP_004902	P13667	PDIA4_HUMAN	protein disulfide isomerase A4 precursor	57	Thioredoxin 1.				cell redox homeostasis|glycerol ether metabolic process|protein secretion	endoplasmic reticulum lumen|melanosome	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			lung(5)|ovary(1)	6	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00385)			TCCTTAACTTCCAAGTCGtct	0.308													5	32	---	---	---	---	PASS	A	148718159	A	A	148718159	4	1	7	1	0	0	0	0	0	1	0	0	11670	864	30	2	1804	2	PDIA4	7	148718159	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	48	148718159	10420504	90	5298										
ZNF786	136051	broad.mit.edu	37	chr7	148769401	148769401	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tagggtagattcactggggcCgcaggctagtggtggaggag	19	6	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:148769401C>A	uc003wfh.2	-	4	600	c.463G>T	c.(463-465)GGC>TGC	p.G155C	ZNF786_uc011kuk.1_Missense_Mutation_p.G118C|ZNF786_uc003wfi.2_Missense_Mutation_p.G69C	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TCACTGGGGCCGCAGGCTAGT	0.592													9	12	---	---	---	---	PASS	A	148769401	A	A	148769401	3	1	7	1	0	0	0	0	1	0	0	0	18155	652	23	1	1889	1	ZNF786	7	148769401	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	51242	148769401	10369262	91	5299										
ABP1	26	broad.mit.edu	37	chr7	150555890	150555890	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gacactgcagatgaagctagAaaacatcaccaacccctgga	8	12	1	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:150555890A>G	uc003why.1	+	4	5828	c.1610A>G	c.(1609-1611)GAA>GGA	p.E537G	ABP1_uc003whz.1_Missense_Mutation_p.E537G|ABP1_uc003wia.1_Missense_Mutation_p.E537G	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	537					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	ATGAAGCTAGAAAACATCACC	0.562													7	41	---	---	---	---	PASS	G	150555890	G	G	150555890	3	3	7	1	0	0	0	0	1	0	0	0	98	246	9	5	1616	5	ABP1	7	150555890	Missense_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08	1786489	150555890	8582773	92	5300										
CSMD1	64478	broad.mit.edu	37	chr8	3224667	3224667	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tcgtatgaggcaacaccgacCcggtgagcctggcaacgggc	14	13	0	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr8:3224667C>A	uc011kwk.1	-	20	3395	c.3005G>T	c.(3004-3006)GGG>GTG	p.G1002V	CSMD1_uc011kwj.1_Missense_Mutation_p.G394V|CSMD1_uc003wqe.2_Missense_Mutation_p.G158V	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1002	Extracellular (Potential).|CUB 6.					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)		CAACACCGACCCGGTGAGCCT	0.478													6	12	---	---	---	---	PASS	A	3224667	A	A	3224667	3	1	7	1	0	0	0	0	1	0	0	0	3944	623	22	3	7896	3	CSMD1	8	3224667	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08		3224667	143139355	93	5301										
ADAM7	8756	broad.mit.edu	37	chr8	24342874	24342874	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tattccaccagtatcattaaGgtgggctgtgttttatttat	8	6	1	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr8:24342874G>C	uc003xeb.2	+	10	1073	c.960G>C	c.(958-960)AAG>AAC	p.K320N	ADAM7_uc003xec.2_Missense_Mutation_p.K92N	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	320	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		GTATCATTAAGGTGGGCTGTG	0.368													5	13	---	---	---	---	PASS	C	24342874	C	C	24342874	3	2	7	1	0	0	0	0	1	0	0	0	251	1014	35	4	998	4	ADAM7	8	24342874	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	21118207	24342874	122021148	94	5302										
POTEA	340441	broad.mit.edu	37	chr8	43171087	43171087	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cacaaaggcttaaaggaagtGaaaatagtcagcatgaggca	11	6	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr8:43171087G>C	uc003xpz.1	+	7	1001	c.958G>C	c.(958-960)GAA>CAA	p.E320Q	POTEA_uc003xqa.1_Missense_Mutation_p.E274Q	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	320										ovary(1)	1						TAAAGGAAGTGAAAATAGTCA	0.308													17	39	---	---	---	---	PASS	C	43171087	C	C	43171087	3	2	7	1	0	0	0	0	1	0	0	0	12261	1291	45	2	984	2	POTEA	8	43171087	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	18828213	43171087	103192935	95	5303										
PSKH2	85481	broad.mit.edu	37	chr8	87076814	87076814	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ggtcttctgctctaccctgaCaaccctgctgaaactgcctg	8	15	3	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr8:87076814C>A	uc011lfy.1	-	2	232	c.232G>T	c.(232-234)GTC>TTC	p.V78F		NM_033126	NP_149117	Q96QS6	KPSH2_HUMAN	protein serine kinase H2	78	Protein kinase.						ATP binding|protein serine/threonine kinase activity			stomach(2)|lung(2)|ovary(1)	5			STAD - Stomach adenocarcinoma(118;0.129)			TCTACCCTGACAACCCTGCTG	0.448													29	34	---	---	---	---	PASS	A	87076814	A	A	87076814	3	1	7	1	0	0	0	0	1	0	0	0	12665	478	17	3	931	3	PSKH2	8	87076814	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	43905727	87076814	59287208	96	5304										
MTERFD1	51001	broad.mit.edu	37	chr8	97263208	97263208	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aatgctcccagttggttatcCtctatacccacatctttaag	5	12	2	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr8:97263208C>A	uc003yhs.1	-	4	681	c.603G>T	c.(601-603)GAG>GAT	p.E201D	MTERFD1_uc003yhr.1_Missense_Mutation_p.E80D|MTERFD1_uc010mbd.1_Missense_Mutation_p.E201D	NM_015942	NP_057026	Q96E29	MTER1_HUMAN	MTERF domain containing 1 precursor	201					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion	transcription regulatory region DNA binding			ovary(1)	1	Breast(36;5.16e-05)					GTTGGTTATCCTCTATACCCA	0.368													6	81	---	---	---	---	PASS	A	97263208	A	A	97263208	3	1	7	1	0	0	0	0	1	0	0	0	9919	680	24	3	670	3	MTERFD1	8	97263208	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	10186394	97263208	49100814	97	5305										
SMARCA2	6595	broad.mit.edu	37	chr9	2039694	2039694	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ttataaaatgctggcccgagGccagcccctccccgaaacgc	9	16	0	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:2039694G>T	uc003zhc.2	+	4	683	c.584G>T	c.(583-585)GGC>GTC	p.G195V	SMARCA2_uc003zhd.2_Missense_Mutation_p.G195V|SMARCA2_uc010mha.2_Missense_Mutation_p.G186V	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	195					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		CTGGCCCGAGGCCAGCCCCTC	0.463													20	2	---	---	---	---	PASS	T	2039694	T	T	2039694	3	4	7	1	0	0	0	0	1	0	0	0	14769	1203	42	3	594	3	SMARCA2	9	2039694	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08		2039694	139173737	98	5306										
CDKN2A	1029	broad.mit.edu	37	chr9	21971035	21971035	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cgggcagacggccccaggcaTcgcgcacgtccagccgcgcc	14	19	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:21971035T>C	uc003zpk.2	-	2	535	c.323A>G	c.(322-324)GAT>GGT	p.D108G	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Silent_p.R163R	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	108			D -> Y (in a head and neck tumor).|D -> H (in a bladder tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.D108Y(14)|p.?(13)|p.D108H(9)|p.D108N(5)|p.H83fs*2(2)|p.D105fs*8(1)|p.A68fs*3(1)|p.R107fs*33(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		GCCCCAGGCATCGCGCACGTC	0.741		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			4	1	---	---	---	---	PASS	C	21971035	C	C	21971035	3	2	7	1	0	0	0	0	1	0	0	0	3161	1435	50	5	155	5	CDKN2A	9	21971035	Missense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08	19931341	21971035	119242396	99	5307										
FLJ46321	389763	broad.mit.edu	37	chr9	84604698	84604698	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gtcttttgttctcagcatcaGggcagagccaagaggagaag	13	8	3	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:84604698G>T	uc004amn.2	+	2	239	c.192G>T	c.(190-192)CAG>CAT	p.Q64H		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	64						integral to membrane					0						CTCAGCATCAGGGCAGAGCCA	0.398													23	19	---	---	---	---	PASS	T	84604698	T	T	84604698	3	4	7	1	0	0	0	0	1	0	0	0	5932	991	35	3	198	3	FLJ46321	9	84604698	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	62633663	84604698	56608733	100	5308										
FLJ46321	389763	broad.mit.edu	37	chr9	84608634	84608634	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaaagtgtccggacaacagaGgatggcagacagacttttct	12	8	1	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:84608634G>T	uc004amn.2	+	4	3296	c.3249G>T	c.(3247-3249)GAG>GAT	p.E1083D		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1083						integral to membrane					0						GGACAACAGAGGATGGCAGAC	0.507													5	61	---	---	---	---	PASS	T	84608634	T	T	84608634	3	4	7	1	0	0	0	0	1	0	0	0	5932	991	35	3	3263	3	FLJ46321	9	84608634	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	3936	84608634	56604797	101	5309										
PTCH1	5727	broad.mit.edu	37	chr9	98232095	98232095	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	acagcagtctgaaaatgtacCttgtaaaacagcagaaaata	7	7	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:98232095C>A	uc004avk.3	-	13	2035	c.1847G>T	c.(1846-1848)AGC>ATC	p.S616I	PTCH1_uc010mro.2_Missense_Mutation_p.S465I|PTCH1_uc010mrp.2_Missense_Mutation_p.S465I|PTCH1_uc010mrq.2_Missense_Mutation_p.S465I|PTCH1_uc004avl.3_Missense_Mutation_p.S465I|PTCH1_uc010mrr.2_Missense_Mutation_p.S550I|PTCH1_uc004avm.3_Missense_Mutation_p.S615I|PTCH1_uc010mrs.1_Missense_Mutation_p.S284I	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	616	Cytoplasmic (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity	p.S616N(1)		skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				GAAAATGTACCTTGTAAAACA	0.438									Basal_Cell_Nevus_syndrome				7	252	---	---	---	---	PASS	A	98232095	A	A	98232095	3	1	7	1	0	0	0	0	1	0	0	0	12730	695	24	3	2540	3	PTCH1	9	98232095	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	13623461	98232095	42981336	102	5310										
ABCA1	19	broad.mit.edu	37	chr9	107565591	107565591	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tcattcacccagatcttgttCtttaagctgcagagacaaag	7	10	4	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:107565591C>A	uc004bcl.2	-	33	4879	c.4566G>T	c.(4564-4566)AAG>AAT	p.K1522N		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1522	Extracellular.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AGATCTTGTTCTTTAAGCTGC	0.408													6	185	---	---	---	---	PASS	A	107565591	A	A	107565591	3	1	7	1	0	0	0	0	1	0	0	0	28	912	32	2	2291	2	ABCA1	9	107565591	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	9333496	107565591	33647840	103	5311										
VAV2	7410	broad.mit.edu	37	chr9	136661648	136661648	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ggaccttcagtgtgcactccTgggagggcgacagggcgatg	17	10	1	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:136661648T>A	uc004ces.2	-	11	983	c.937_splice	c.e11-1	p.E313_splice	VAV2_uc004cer.2_Splice_Site_p.E308_splice	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform						angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		TGTGCACTCCTGGGAGGGCGA	0.597													7	3	---	---	---	---	PASS	A	136661648	A	A	136661648	5	1	7	1	0	0	0	0	0	0	1	0	17129	1594	55	5	1781	5	VAV2	9	136661648	Splice_Site	SNP	T	TCGA-18-3412-01A-01D-0983-08	29096057	136661648	4551783	104	5312										
NRP1	8829	broad.mit.edu	37	chr10	33502401	33502401	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ttgaacttcctcatgaacacCttgttctctcggtgcttccc	6	14	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr10:33502401C>A	uc001iwx.3	-	9	2050	c.1527G>T	c.(1525-1527)AAG>AAT	p.K509N	NRP1_uc001iwv.3_Missense_Mutation_p.K509N|NRP1_uc009xlz.2_Missense_Mutation_p.K509N|NRP1_uc001iww.3_Missense_Mutation_p.K328N|NRP1_uc001iwy.3_Missense_Mutation_p.K509N|NRP1_uc001iwz.2_Missense_Mutation_p.K509N|NRP1_uc001ixa.2_Missense_Mutation_p.K509N|NRP1_uc001ixb.1_Missense_Mutation_p.K509N|NRP1_uc001ixc.1_Missense_Mutation_p.K509N	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	509	Extracellular (Potential).|F5/8 type C 2.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	TCATGAACACCTTGTTCTCTC	0.532													6	102	---	---	---	---	PASS	A	33502401	A	A	33502401	3	1	7	1	0	0	0	0	1	0	0	0	10660	680	24	3	1291	3	NRP1	10	33502401	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08		33502401	102032346	105	5313										
MBL2	4153	broad.mit.edu	37	chr10	54531335	54531335	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atcctcacaggtcacagtttCtgagtaagacgctgccacca	8	13	3	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr10:54531335C>A	uc001jjt.2	-	1	126	c.61G>T	c.(61-63)GAA>TAA	p.E21*		NM_000242	NP_000233	P11226	MBL2_HUMAN	soluble mannose-binding lectin precursor	21	Cys-rich.				acute-phase response|complement activation, classical pathway|complement activation, lectin pathway|defense response to Gram-positive bacterium|negative regulation of growth of symbiont in host|opsonization|response to oxidative stress	collagen|extracellular space	bacterial cell surface binding|calcium-dependent protein binding|eukaryotic cell surface binding|mannose binding|receptor binding			ovary(1)	1						GTCACAGTTTCTGAGTAAGAC	0.532													6	14	---	---	---	---	PASS	A	54531335	A	A	54531335	4	1	7	1	0	0	0	0	0	1	0	0	9350	922	32	2	701	2	MBL2	10	54531335	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	21028934	54531335	81003412	106	5314										
PDZD8	118987	broad.mit.edu	37	chr10	119044409	119044409	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gcttttcaacgagaacatctGgttctgcctgatttggagca	10	9	3	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr10:119044409G>T	uc001lde.1	-	5	2034	c.1835C>A	c.(1834-1836)CCA>CAA	p.P612Q		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	612	Pro-rich.				intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		GAGAACATCTGGTTCTGCCTG	0.483													5	65	---	---	---	---	PASS	T	119044409	T	T	119044409	3	4	7	1	0	0	0	0	1	0	0	0	11705	1348	47	3	1633	3	PDZD8	10	119044409	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	64513074	119044409	16490338	107	5315										
EIF3A	8661	broad.mit.edu	37	chr10	120810778	120810778	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctctgtcttcaagcattcgtGacattcgattcttatgttca	6	10	5	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr10:120810778G>T	uc001ldu.2	-	15	2398	c.2252C>A	c.(2251-2253)TCA>TAA	p.S751*	EIF3A_uc010qsu.1_Nonsense_Mutation_p.S717*|EIF3A_uc009xzg.1_5'Flank	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	751	Interaction with EIF3B.|Glu-rich.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		AAGCATTCGTGACATTCGATT	0.363													5	53	---	---	---	---	PASS	T	120810778	T	T	120810778	4	4	7	1	0	0	0	0	0	1	0	0	5012	1294	45	2	1928	2	EIF3A	10	120810778	Nonsense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	1766369	120810778	14723969	108	5316										
STIM1	6786	broad.mit.edu	37	chr11	4104567	4104567	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	acagatcgagatcctctgtgGcttccagattgtcaacaacc	8	12	2	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:4104567G>C	uc001lyv.2	+	10	1881	c.1313G>C	c.(1312-1314)GGC>GCC	p.G438A	STIM1_uc009yef.2_Missense_Mutation_p.G438A|STIM1_uc009yeg.2_Missense_Mutation_p.G265A	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	438	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		ATCCTCTGTGGCTTCCAGATT	0.582													13	28	---	---	---	---	PASS	C	4104567	C	C	4104567	3	2	7	1	0	0	0	0	1	0	0	0	15282	1203	42	4	1351	4	STIM1	11	4104567	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08		4104567	130901949	109	5317										
TRIM68	55128	broad.mit.edu	37	chr11	4624558	4624558	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cttcagatgttcgagggcctCatgaagttcccactgcaaga	10	11	2	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:4624558C>T	uc001lzf.1	-	3	677	c.439G>A	c.(439-441)GAG>AAG	p.E147K	TRIM68_uc001lzg.1_5'UTR|TRIM68_uc010qyj.1_RNA|TRIM68_uc009yek.1_Missense_Mutation_p.E147K	NM_018073	NP_060543	Q6AZZ1	TRI68_HUMAN	ring finger protein 137	147					protein autoubiquitination|regulation of androgen receptor signaling pathway	Golgi apparatus|nucleolus|perinuclear region of cytoplasm	androgen receptor binding|histone acetyltransferase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;9.49e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		TCGAGGGCCTCATGAAGTTCC	0.552													15	25	---	---	---	---	PASS	T	4624558	T	T	4624558	3	4	7	1	0	0	0	0	1	0	0	0	16538	835	29	2	1038	2	TRIM68	11	4624558	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	519991	4624558	130381958	110	5318										
SYT9	143425	broad.mit.edu	37	chr11	7335113	7335113	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tggtggtggatcacttcctaGacttggctgatttccccagg	12	10	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:7335113G>C	uc001mfe.2	+	3	1222	c.985G>C	c.(985-987)GAC>CAC	p.D329H	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_Intron	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	329	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		TCACTTCCTAGACTTGGCTGA	0.478													35	82	---	---	---	---	PASS	C	7335113	C	C	7335113	3	2	7	1	0	0	0	0	1	0	0	0	15478	942	33	2	995	2	SYT9	11	7335113	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	2710555	7335113	127671403	111	5319										
ANO5	203859	broad.mit.edu	37	chr11	22239812	22239812	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cctgcaaagcgattcaatttGttcctgaggcggcggcttat	11	10	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:22239812G>T	uc001mqi.2	+	4	476	c.159G>T	c.(157-159)TTG>TTT	p.L53F	ANO5_uc001mqj.2_Missense_Mutation_p.L52F	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	53	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						GATTCAATTTGTTCCTGAGGC	0.403													16	17	---	---	---	---	PASS	T	22239812	T	T	22239812	3	4	7	1	0	0	0	0	1	0	0	0	700	1368	48	3	173	3	ANO5	11	22239812	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	14904699	22239812	112766704	112	5320										
ANO3	63982	broad.mit.edu	37	chr11	26621132	26621132	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	actgcagtgtttggagttgtGgtgtaccgcctggttgtcat	14	7	1	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:26621132G>T	uc001mqt.3	+	17	1852	c.1707G>T	c.(1705-1707)GTG>GTT	p.V569V	ANO3_uc010rdr.1_Silent_p.V553V|ANO3_uc010rds.1_Silent_p.V408V|ANO3_uc010rdt.1_Silent_p.V423V	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	569	Helical; (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TTGGAGTTGTGGTGTACCGCC	0.398													5	57	---	---	---	---	PASS	T	26621132	T	T	26621132	2	4	7	1	0	0	0	0	0	0	0	1	698	1335	47	3		3	ANO3	11	26621132	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	4381320	26621132	108385384	113	5321										
PRR5L	79899	broad.mit.edu	37	chr11	36484109	36484109	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atggccaccatgatgcactcGggcctgggggaggaggccag	17	11	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:36484109G>T	uc001mwo.3	+	9	1319	c.930G>T	c.(928-930)TCG>TCT	p.S310S	PRR5L_uc001mwp.2_Silent_p.S310S|PRR5L_uc009ykk.2_Silent_p.S182S|PRR5L_uc010rfc.1_3'UTR	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	310										ovary(1)	1						TGATGCACTCGGGCCTGGGGG	0.667													3	2	---	---	---	---	PASS	T	36484109	T	T	36484109	2	4	7	1	0	0	0	0	0	0	0	1	12602	1103	39	1		1	PRR5L	11	36484109	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	9862977	36484109	98522407	114	5322										
OR4C16	219428	broad.mit.edu	37	chr11	55339800	55339800	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cttccttttctacttatcctTatctgatacttgcctctcta	2	13	3	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:55339800T>A	uc010rih.1	+	1	197	c.197T>A	c.(196-198)TTA>TAA	p.L66*		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				TACTTATCCTTATCTGATACT	0.413													26	71	---	---	---	---	PASS	A	55339800	A	A	55339800	4	1	7	1	0	0	0	0	0	1	0	0	11049	1764	61	5	199	5	OR4C16	11	55339800	Nonsense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08	18855691	55339800	79666716	115	5323										
OR4P4	81300	broad.mit.edu	37	chr11	55406117	55406117	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaccatttcctataataactGtatgatacaactctttacca	3	10	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:55406117G>C	uc010rij.1	+	1	284	c.284G>C	c.(283-285)TGT>TCT	p.C95S		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	95	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TATAATAACTGTATGATACAA	0.438													32	44	---	---	---	---	PASS	C	55406117	C	C	55406117	3	2	7	1	0	0	0	0	1	0	0	0	11080	1377	48	4	286	4	OR4P4	11	55406117	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	66317	55406117	79600399	116	5324										
OR5D16	390144	broad.mit.edu	37	chr11	55607001	55607001	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atcttccatggcaccatcctCttcctctactgtgtacccaa	4	16	3	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:55607001C>A	uc010rio.1	+	1	774	c.774C>A	c.(772-774)CTC>CTA	p.L258L		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	258	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				GCACCATCCTCTTCCTCTACT	0.532													5	57	---	---	---	---	PASS	A	55607001	A	A	55607001	2	1	7	1	0	0	0	0	0	0	0	1	11156	900	32	2		2	OR5D16	11	55607001	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	200884	55607001	79399515	117	5325										
OR5B21	219968	broad.mit.edu	37	chr11	58274946	58274946	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atgaagaagtaagaaataagGatgaccaggagggtgaaaaa	13	2	0	5			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:58274946G>T	uc010rki.1	-	1	633	c.633C>A	c.(631-633)ATC>ATA	p.I211I		NM_001005218	NP_001005218	A6NL26	OR5BL_HUMAN	olfactory receptor, family 5, subfamily B,	211	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AAGAAATAAGGATGACCAGGA	0.488													11	17	---	---	---	---	PASS	T	58274946	T	T	58274946	2	4	7	1	0	0	0	0	0	0	0	1	11151	1164	41	2		2	OR5B21	11	58274946	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	2667945	58274946	76731570	118	5326										
MS4A3	932	broad.mit.edu	37	chr11	59834551	59834551	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tcactcttcatcagagtcacCggacctatgcaattacatgg	7	12	5	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:59834551C>T	uc001nom.2	+	5	607	c.479C>T	c.(478-480)CCG>CTG	p.P160L	MS4A3_uc001non.2_Missense_Mutation_p.P114L|MS4A3_uc001noo.2_Missense_Mutation_p.P37L	NM_006138	NP_006129	Q96HJ5	MS4A3_HUMAN	membrane-spanning 4-domains, subfamily A, member	160	Extracellular (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm	protein binding|receptor activity			ovary(2)|skin(1)	3		all_epithelial(135;0.245)				TCAGAGTCACCGGACCTATGC	0.358													6	7	---	---	---	---	PASS	T	59834551	T	T	59834551	3	4	7	1	0	0	0	0	1	0	0	0	9861	652	23	1	493	1	MS4A3	11	59834551	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	1559605	59834551	75171965	119	5327										
AHNAK	79026	broad.mit.edu	37	chr11	62291567	62291567	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tggggcctttaaagtcacctTctaaattgggacctgcaata	9	9	2	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:62291567T>G	uc001ntl.2	-	5	10622	c.10322A>C	c.(10321-10323)GAA>GCA	p.E3441A	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3441					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				AAAGTCACCTTCTAAATTGGG	0.413													18	33	---	---	---	---	PASS	G	62291567	G	G	62291567	3	3	7	1	0	0	0	0	1	0	0	0	414	1783	62	5	7470	5	AHNAK	11	62291567	Missense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08	2457016	62291567	72714949	120	5328										
PLCB3	5331	broad.mit.edu	37	chr11	64026124	64026124	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	acgtgctggaggccattgccGagactgccttcaagacctcg	12	13	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:64026124G>T	uc001nzb.2	+	11	1192	c.1192G>T	c.(1192-1194)GAG>TAG	p.E398*	PLCB3_uc009ypg.1_Nonsense_Mutation_p.E398*|PLCB3_uc009yph.1_Nonsense_Mutation_p.E331*|PLCB3_uc009ypi.2_Nonsense_Mutation_p.E398*	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	398	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						GGCCATTGCCGAGACTGCCTT	0.627													4	48	---	---	---	---	PASS	T	64026124	T	T	64026124	4	4	7	1	0	0	0	0	0	1	0	0	12029	1059	37	2	1234	2	PLCB3	11	64026124	Nonsense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	1734557	64026124	70980392	121	5329										
ANO1	55107	broad.mit.edu	37	chr11	70003075	70003075	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tgacaaagtgaagctgacatGgagagatcggttcccagcct	12	9	0	4			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:70003075G>T	uc001opj.2	+	16	1831	c.1526G>T	c.(1525-1527)TGG>TTG	p.W509L	ANO1_uc001opk.1_Missense_Mutation_p.W451L|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.W218L	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	509	Cytoplasmic (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						AAGCTGACATGGAGAGATCGG	0.498													6	147	---	---	---	---	PASS	T	70003075	T	T	70003075	3	4	7	1	0	0	0	0	1	0	0	0	695	1357	47	3	1588	3	ANO1	11	70003075	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	5976951	70003075	65003441	122	5330										
CTTN	2017	broad.mit.edu	37	chr11	70277370	70277370	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aaccgaggagaggctgccctCgagccccgtctatgaggttg	14	12	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:70277370C>A	uc001opv.3	+	15	1456	c.1250C>A	c.(1249-1251)TCG>TAG	p.S417*	CTTN_uc001opu.2_Nonsense_Mutation_p.S380*|CTTN_uc001opw.3_Nonsense_Mutation_p.S380*|CTTN_uc010rqm.1_Nonsense_Mutation_p.S101*|CTTN_uc001opx.2_Nonsense_Mutation_p.S101*	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	417						cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		AGGCTGCCCTCGAGCCCCGTC	0.567													5	151	---	---	---	---	PASS	A	70277370	A	A	70277370	4	1	7	1	0	0	0	0	0	1	0	0	4044	893	31	2	1300	2	CTTN	11	70277370	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	274295	70277370	64729146	123	5331										
CBL	867	broad.mit.edu	37	chr11	119103295	119103295	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aagatggagacacttggagaAaatgagtattttagggtgtt	13	2	0	4			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:119103295A>G	uc001pwe.2	+	2	471	c.333A>G	c.(331-333)GAA>GAG	p.E111E		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral	111	Cbl-PTB.|4H.				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		CACTTGGAGAAAATGAGTATT	0.393									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome				25	43	---	---	---	---	PASS	G	119103295	G	G	119103295	2	3	7	1	0	0	0	0	0	0	0	1	2700	11	1	5		5	CBL	11	119103295	Silent	SNP	A	TCGA-18-3412-01A-01D-0983-08	48825925	119103295	15903221	124	5332										
C11orf63	79864	broad.mit.edu	37	chr11	122828115	122828115	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaatatgcaaaacaagtcaaGgagtacaacatgaagacact	8	7	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:122828115G>T	uc001pym.2	+	8	2352	c.2055G>T	c.(2053-2055)AAG>AAT	p.K685N		NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	685										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		AACAAGTCAAGGAGTACAACA	0.373													5	72	---	---	---	---	PASS	T	122828115	T	T	122828115	3	4	7	1	0	0	0	0	1	0	0	0	1654	991	35	3	2145	3	C11orf63	11	122828115	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	3724820	122828115	12178401	125	5333										
FLI1	2313	broad.mit.edu	37	chr11	128628202	128628202	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tcaacgtcaagcgggagtatGaccacatgaatggatccagg	12	9	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:128628202G>A	uc010sbu.1	+	2	552	c.211G>A	c.(211-213)GAC>AAC	p.D71N	FLI1_uc010sbt.1_5'UTR|FLI1_uc010sbv.1_Missense_Mutation_p.D38N|FLI1_uc009zci.2_5'UTR|FLI1_uc001qen.2_Missense_Mutation_p.D38N	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1	71					hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		GCGGGAGTATGACCACATGAA	0.577			T	EWSR1	Ewing sarcoma								7	14	---	---	---	---	PASS	A	128628202	A	A	128628202	3	1	7	1	0	0	0	0	1	0	0	0	5924	1290	45	2	217	2	FLI1	11	128628202	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	5800087	128628202	6378314	126	5334										
TMEM45B	120224	broad.mit.edu	37	chr11	129724601	129724601	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaattggcagcacagcaccaTgtacctattctttgcagtct	8	11	2	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:129724601T>C	uc001qfe.1	+	3	336	c.275T>C	c.(274-276)ATG>ACG	p.M92T	TMEM45B_uc001qff.1_Missense_Mutation_p.M92T	NM_138788	NP_620143	Q96B21	TM45B_HUMAN	transmembrane protein 45B	92						integral to membrane					0	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.012)|Lung(977;0.179)|LUSC - Lung squamous cell carcinoma(976;0.189)		CACAGCACCATGTACCTATTC	0.522													12	25	---	---	---	---	PASS	C	129724601	C	C	129724601	3	2	7	1	0	0	0	0	1	0	0	0	16167	1464	51	5	281	5	TMEM45B	11	129724601	Missense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08	1096399	129724601	5281915	127	5335										
CD163L1	283316	broad.mit.edu	37	chr12	7519883	7519883	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cttgaggcaggtctccatctCatggaataaattctcctcga	8	11	3	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr12:7519883C>T	uc001qsy.2	-	18	4254	c.4228G>A	c.(4228-4230)GAG>AAG	p.E1410K	CD163L1_uc010sge.1_Missense_Mutation_p.E1420K	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	1410	Cytoplasmic (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						GTCTCCATCTCATGGAATAAA	0.488													11	36	---	---	---	---	PASS	T	7519883	T	T	7519883	3	4	7	1	0	0	0	0	1	0	0	0	2968	835	29	2	141	2	CD163L1	12	7519883	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08		7519883	126332012	128	5336										
SLC2A14	144195	broad.mit.edu	37	chr12	7985369	7985369	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tagccaaactggaaagagccGattgtagcaactgtgatggc	12	8	0	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr12:7985369G>T	uc001qtk.2	-	8	922	c.129C>A	c.(127-129)ATC>ATA	p.I43I	SLC2A14_uc001qtl.2_Silent_p.I20I|SLC2A14_uc001qtm.2_Silent_p.I20I|SLC2A14_uc010sgg.1_5'UTR|SLC2A14_uc001qtn.2_Silent_p.I43I|SLC2A14_uc001qto.2_Intron|SLC2A14_uc010sgh.1_Silent_p.I58I	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14	43	Helical; Name=1; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		GGAAAGAGCCGATTGTAGCAA	0.473											OREG0021654	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	44	---	---	---	---	PASS	T	7985369	T	T	7985369	2	4	7	1	0	0	0	0	0	0	0	1	14543	1048	37	2		2	SLC2A14	12	7985369	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	465486	7985369	125866526	129	5337										
SMARCC2	6601	broad.mit.edu	37	chr12	56580987	56580987	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tcaccggcagtttagtgagcGgtgcattgctgacatgtttg	13	8	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr12:56580987G>A	uc001skb.2	-	2	321	c.215C>T	c.(214-216)CCG>CTG	p.P72L	SMARCC2_uc001skd.2_Missense_Mutation_p.P72L|SMARCC2_uc001ska.2_Missense_Mutation_p.P72L|SMARCC2_uc001skc.2_Missense_Mutation_p.P72L|SMARCC2_uc010sqf.1_5'UTR	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	72					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)			TTTAGTGAGCGGTGCATTGCT	0.463													21	71	---	---	---	---	PASS	A	56580987	A	A	56580987	3	1	7	1	0	0	0	0	1	0	0	0	14776	1116	39	1	3634	1	SMARCC2	12	56580987	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	48595618	56580987	77270908	130	5338										
STAB2	55576	broad.mit.edu	37	chr12	104033910	104033910	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gtctactgaagtctcactgcGagtgtaaggagcattaccag	11	9	2	1	rs12319476	byFrequency	TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr12:104033910G>T	uc001tjw.2	+	9	1102	c.916G>T	c.(916-918)GAG>TAG	p.E306*		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	306	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GTCTCACTGCGAGTGTAAGGA	0.383													4	79	---	---	---	---	PASS	T	104033910	T	T	104033910	4	4	7	1	0	0	0	0	0	1	0	0	15237	1059	37	2	950	2	STAB2	12	104033910	Nonsense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	47452923	104033910	29817985	131	5339										
PLBD2	196463	broad.mit.edu	37	chr12	113824871	113824871	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cagtcactggtacaagacatGgactccatggtcaggctgat	11	10	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr12:113824871G>T	uc001tve.2	+	10	1451	c.1416G>T	c.(1414-1416)ATG>ATT	p.M472I	PLBD2_uc001tvf.2_Missense_Mutation_p.M440I	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	472					lipid catabolic process	lysosomal lumen	hydrolase activity				0						TACAAGACATGGACTCCATGG	0.597													5	68	---	---	---	---	PASS	T	113824871	T	T	113824871	3	4	7	1	0	0	0	0	1	0	0	0	12026	1348	47	3	1454	3	PLBD2	12	113824871	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	9790961	113824871	20027024	132	5340										
GLT1D1	144423	broad.mit.edu	37	chr12	129442181	129442181	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cacagggctactgttttccaAtcctcaggtaaagaaaagtt	8	9	1	1	rs143132819		TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr12:129442181A>T	uc010tbh.1	+	12	896	c.887A>T	c.(886-888)AAT>ATT	p.N296I	GLT1D1_uc001uhx.1_Missense_Mutation_p.N211I|GLT1D1_uc001uhy.1_RNA	NM_144669	NP_653270	Q96MS3	GL1D1_HUMAN	glycosyltransferase 1 domain containing 1	291					biosynthetic process	extracellular region	transferase activity, transferring glycosyl groups				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.97e-06)|Epithelial(86;3.97e-05)|all cancers(50;0.00019)		CTGTTTTCCAATCCTCAGGTA	0.448													7	17	---	---	---	---	PASS	T	129442181	T	T	129442181	3	4	7	1	0	0	0	0	1	0	0	0	6465	101	4	5	658	5	GLT1D1	12	129442181	Missense_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08	15617310	129442181	4409714	133	5341										
POSTN	10631	broad.mit.edu	37	chr13	38160416	38160416	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tgtccgatgtgatggcagctGcctgaaacacaaatgtgctt	11	9	0	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr13:38160416G>A	uc001uwo.3	-	7	873	c.755C>T	c.(754-756)GCA>GTA	p.A252V	POSTN_uc001uwp.3_Missense_Mutation_p.A252V|POSTN_uc001uwr.2_Missense_Mutation_p.A252V|POSTN_uc001uwq.2_Missense_Mutation_p.A252V|POSTN_uc010teu.1_Missense_Mutation_p.A252V|POSTN_uc010tev.1_Missense_Mutation_p.A252V|POSTN_uc010tew.1_Missense_Mutation_p.A252V|POSTN_uc010tex.1_Missense_Mutation_p.A167V	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	252	FAS1 2.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		GATGGCAGCTGCCTGAAACAC	0.458													11	35	---	---	---	---	PASS	A	38160416	A	A	38160416	3	1	7	1	0	0	0	0	1	0	0	0	12259	1333	46	3	1823	3	POSTN	13	38160416	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08		38160416	77009462	134	5342										
C13orf23	80209	broad.mit.edu	37	chr13	39587739	39587739	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	acaggcaatgtcaggggagtGgaagttgagttagccacggg	17	6	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr13:39587739G>A	uc001uwy.2	-	11	2523	c.1650C>T	c.(1648-1650)TCC>TCT	p.S550S	C13orf23_uc001uwz.2_Silent_p.S528S	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	550	Ser-rich.									ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		TCAGGGGAGTGGAAGTTGAGT	0.587													20	58	---	---	---	---	PASS	A	39587739	A	A	39587739	2	1	7	1	0	0	0	0	0	0	0	1	1721	1335	47	3		3	C13orf23	13	39587739	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	1427323	39587739	75582139	135	5343										
ELF1	1997	broad.mit.edu	37	chr13	41517101	41517101	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cgcatacctgagtgctcttcCcatggtctcataattcatat	6	12	3	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr13:41517101C>T	uc001uxs.2	-	7	1166	c.793G>A	c.(793-795)GGA>AGA	p.G265R	ELF1_uc010tfc.1_Missense_Mutation_p.G241R|ELF1_uc010acd.2_Missense_Mutation_p.G158R	NM_172373	NP_758961	P32519	ELF1_HUMAN	E74-like factor 1 (ets domain transcription	265	ETS.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung NSC(96;8.3e-05)|Prostate(109;0.0233)|Breast(139;0.0296)|Lung SC(185;0.0367)		all cancers(112;1.87e-08)|Epithelial(112;8.45e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000202)|GBM - Glioblastoma multiforme(144;0.00266)|BRCA - Breast invasive adenocarcinoma(63;0.072)		AGTGCTCTTCCCATGGTCTCA	0.358													13	32	---	---	---	---	PASS	T	41517101	T	T	41517101	3	4	7	1	0	0	0	0	1	0	0	0	5053	632	22	3	1078	3	ELF1	13	41517101	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	1929362	41517101	73652777	136	5344										
NEK5	341676	broad.mit.edu	37	chr13	52693485	52693485	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	attgaagaaggctacaatgtTgggatgtttcatcttttcca	9	6	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr13:52693485T>C	uc001vge.2	-	4	324	c.184A>G	c.(184-186)AAC>GAC	p.N62D	NEK5_uc001vgf.2_Missense_Mutation_p.N62D	NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	62	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		GCTACAATGTTGGGATGTTTC	0.294													19	22	---	---	---	---	PASS	C	52693485	C	C	52693485	3	2	7	1	0	0	0	0	1	0	0	0	10327	1812	63	5	2018	5	NEK5	13	52693485	Missense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08	11176384	52693485	62476393	137	5345										
SLITRK6	84189	broad.mit.edu	37	chr13	86369450	86369450	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ccttcttcaagaacttcaatAcgattgtttcccaagtgaag	6	10	3	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr13:86369450A>G	uc001vll.1	-	2	1653	c.1194T>C	c.(1192-1194)CGT>CGC	p.R398R	SLITRK6_uc010afe.1_Intron	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	398	Extracellular (Potential).|LRR 7.					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		GAACTTCAATACGATTGTTTC	0.353													12	30	---	---	---	---	PASS	G	86369450	G	G	86369450	2	3	7	1	0	0	0	0	0	0	0	1	14747	378	14	5		5	SLITRK6	13	86369450	Silent	SNP	A	TCGA-18-3412-01A-01D-0983-08	33675965	86369450	28800428	138	5346										
AKAP6	9472	broad.mit.edu	37	chr14	33291404	33291404	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	agaagaattacaaggaaaacAtgatgtgtttacattttatg	8	3	0	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr14:33291404A>C	uc001wrq.2	+	13	4555	c.4385A>C	c.(4384-4386)CAT>CCT	p.H1462P		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1462					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CAAGGAAAACATGATGTGTTT	0.368													6	32	---	---	---	---	PASS	C	33291404	C	C	33291404	3	2	7	1	0	0	0	0	1	0	0	0	455	217	8	5	4431	5	AKAP6	14	33291404	Missense_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08		33291404	74058136	139	5347										
PLEKHG3	26030	broad.mit.edu	37	chr14	65207982	65207982	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gcagcgaggaggaagaagaaAtgggaggtgccgcccaggag	19	7	0	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr14:65207982A>T	uc001xho.1	+	16	2016	c.1747A>T	c.(1747-1749)ATG>TTG	p.M583L	PLEKHG3_uc001xhn.1_Missense_Mutation_p.M527L|PLEKHG3_uc001xhp.2_Missense_Mutation_p.M704L|PLEKHG3_uc010aqh.1_Missense_Mutation_p.M125L|PLEKHG3_uc001xhq.1_Missense_Mutation_p.M88L	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	583					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GGAAGAAGAAATGGGAGGTGC	0.627													13	16	---	---	---	---	PASS	T	65207982	T	T	65207982	3	4	7	1	0	0	0	0	1	0	0	0	12070	101	4	5	1629	5	PLEKHG3	14	65207982	Missense_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08	31916578	65207982	42141558	140	5348										
DICER1	23405	broad.mit.edu	37	chr14	95590801	95590801	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tttaggagttacaaatttcaGgtcaagtgaggcaggtgaga	13	4	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr14:95590801G>T	uc001ydw.2	-	9	1290	c.1108C>A	c.(1108-1110)CTG>ATG	p.L370M	DICER1_uc001ydv.2_Missense_Mutation_p.L360M|DICER1_uc001ydx.2_Missense_Mutation_p.L370M	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	370	Required for interaction with PRKRA and TARBP2.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		ACAAATTTCAGGTCAAGTGAG	0.383			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				6	124	---	---	---	---	PASS	T	95590801	T	T	95590801	3	4	7	1	0	0	0	0	1	0	0	0	4521	991	35	3	4740	3	DICER1	14	95590801	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	30382819	95590801	11758739	141	5349										
DYNC1H1	1778	broad.mit.edu	37	chr14	102474667	102474667	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaacattccaaccccaactaCgacaagagtaagacacctct	5	14	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr14:102474667C>A	uc001yks.2	+	29	6134	c.5970C>A	c.(5968-5970)TAC>TAA	p.Y1990*		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1990	AAA 1 (By similarity).				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						ACCCCAACTACGACAAGAGTA	0.458													7	25	---	---	---	---	PASS	A	102474667	A	A	102474667	4	1	7	1	0	0	0	0	0	1	0	0	4841	547	19	1	6084	1	DYNC1H1	14	102474667	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	6883866	102474667	4874873	142	5350										
RCOR1	23186	broad.mit.edu	37	chr14	103174886	103174886	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aaactagtgtgatggatcgcCatgcccggaaacaaaaacgg	11	9	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr14:103174886C>A	uc001ymb.2	+	6	736	c.736C>A	c.(736-738)CAT>AAT	p.H246N		NM_015156	NP_055971	Q9UKL0	RCOR1_HUMAN	REST corepressor 1	246	Interaction with HDAC1.|Potential.				blood coagulation|histone H4 deacetylation|interspecies interaction between organisms	transcriptional repressor complex	protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription regulatory region DNA binding			ovary(1)	1						GATGGATCGCCATGCCCGGAA	0.443													7	219	---	---	---	---	PASS	A	103174886	A	A	103174886	3	1	7	1	0	0	0	0	1	0	0	0	13182	594	21	3	758	3	RCOR1	14	103174886	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	700219	103174886	4174654	143	5351										
ATP10A	57194	broad.mit.edu	37	chr15	25959028	25959028	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gtgcagccgctccacaagcaCgcagttgtaggctctggccg	13	14	1	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:25959028C>T	uc010ayu.2	-	10	2243	c.2137G>A	c.(2137-2139)GTG>ATG	p.V713M		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	713	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TCCACAAGCACGCAGTTGTAG	0.647													4	17	---	---	---	---	PASS	T	25959028	T	T	25959028	3	4	7	1	0	0	0	0	1	0	0	0	1116	536	19	1	2410	1	ATP10A	15	25959028	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08		25959028	76572364	144	5352										
GABRB3	2562	broad.mit.edu	37	chr15	26812774	26812774	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tcataattgatccagaaggaCacccacgacagaatcgttat	7	10	1	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	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													10	23	---	---	---	---	PASS	A	26812774	A	A	26812774	2	1	7	1	0	0	0	0	0	0	0	1	6168	465	17	3		3	GABRB3	15	26812774	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	853746	26812774	75718618	145	5353										
APBA2	321	broad.mit.edu	37	chr15	29398955	29398955	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaagctgagcatcggggaccAgatcatgtccatcaatggca	12	10	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:29398955A>T	uc001zck.2	+	11	2057	c.1850A>T	c.(1849-1851)CAG>CTG	p.Q617L	APBA2_uc010azj.2_Missense_Mutation_p.Q605L|APBA2_uc010uat.1_Missense_Mutation_p.Q605L|APBA2_uc001zcl.2_Missense_Mutation_p.Q605L	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	617	PDZ 1.				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)		ATCGGGGACCAGATCATGTCC	0.662													12	11	---	---	---	---	PASS	T	29398955	T	T	29398955	3	4	7	1	0	0	0	0	1	0	0	0	757	188	7	5	1884	5	APBA2	15	29398955	Missense_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08	2586181	29398955	73132437	146	5354										
EHD4	30844	broad.mit.edu	37	chr15	42246101	42246101	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gtctgtggtgggctccggacCaatcctcatgcctgggaaat	13	11	2	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:42246101C>A	uc001zot.2	-	2	337	c.274G>T	c.(274-276)GGT>TGT	p.G92C	EHD4_uc001zou.2_Missense_Mutation_p.G92C	NM_139265	NP_644670	Q9H223	EHD4_HUMAN	EH-domain containing 4	92					endocytic recycling|protein homooligomerization	early endosome membrane|endoplasmic reticulum|nucleus|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			ovary(2)	2		all_cancers(109;2.54e-12)|all_epithelial(112;6.59e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		OV - Ovarian serous cystadenocarcinoma(18;1.6e-19)|GBM - Glioblastoma multiforme(94;3.77e-06)|COAD - Colon adenocarcinoma(120;0.0474)|Colorectal(105;0.0538)		GGCTCCGGACCAATCCTCATG	0.522													4	38	---	---	---	---	PASS	A	42246101	A	A	42246101	3	1	7	1	0	0	0	0	1	0	0	0	4980	594	21	3	1371	3	EHD4	15	42246101	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	12847146	42246101	60285291	147	5355										
MNS1	55329	broad.mit.edu	37	chr15	56756394	56756394	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ttttttgcagtagttttcatCtactaatttctgatgccttt	5	7	3	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:56756394C>G	uc002adr.2	-	2	220	c.55G>C	c.(55-57)GAT>CAT	p.D19H	MNS1_uc010bfo.2_5'UTR	NM_018365	NP_060835	Q8NEH6	MNS1_HUMAN	meiosis-specific nuclear structural 1	19					meiosis					ovary(1)	1				all cancers(107;0.0196)|GBM - Glioblastoma multiforme(80;0.101)		TAGTTTTCATCTACTAATTTC	0.333													25	54	---	---	---	---	PASS	G	56756394	G	G	56756394	3	3	7	1	0	0	0	0	1	0	0	0	9677	913	32	2	1468	2	MNS1	15	56756394	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	14510293	56756394	45774998	148	5356										
KIAA1024	23251	broad.mit.edu	37	chr15	79750567	79750567	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tagcgggagcaacagtgaaaGcctgcgggtcaaggccttaa	14	9	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:79750567G>A	uc002bew.1	+	2	2153	c.2078G>A	c.(2077-2079)AGC>AAC	p.S693N	KIAA1024_uc010unk.1_Missense_Mutation_p.S693N	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	693						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						AACAGTGAAAGCCTGCGGGTC	0.547													42	79	---	---	---	---	PASS	A	79750567	A	A	79750567	3	1	7	1	0	0	0	0	1	0	0	0	8205	971	34	3	2080	3	KIAA1024	15	79750567	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	22994173	79750567	22780825	149	5357										
FAM154B	283726	broad.mit.edu	37	chr15	82575397	82575397	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	attattcctgcagtgaaggcCttctaataaccaaaatgtgc	7	9	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:82575397C>G	uc002bgv.2	+	3	1260	c.1191C>G	c.(1189-1191)GCC>GCG	p.A397A	FAM154B_uc010unr.1_Silent_p.A382A|FAM154B_uc010uns.1_RNA	NM_001008226	NP_001008227	Q658L1	F154B_HUMAN	hypothetical protein LOC283726	397										skin(2)	2						CAGTGAAGGCCTTCTAATAAC	0.333													8	19	---	---	---	---	PASS	G	82575397	G	G	82575397	2	3	7	1	0	0	0	0	0	0	0	1	5464	668	24	4		4	FAM154B	15	82575397	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	2824830	82575397	19955995	150	5358										
SLC28A1	9154	broad.mit.edu	37	chr15	85478700	85478700	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctccaagtacaagcaacgccGcctggcaggggccgaggagt	14	13	0	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:85478700G>A	uc002blg.2	+	15	1734	c.1532G>A	c.(1531-1533)CGC>CAC	p.R511H	SLC28A1_uc010bnb.2_Missense_Mutation_p.R511H|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Missense_Mutation_p.R511H|SLC28A1_uc010upg.1_Missense_Mutation_p.R511H	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	511					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			AAGCAACGCCGCCTGGCAGGG	0.617													5	42	---	---	---	---	PASS	A	85478700	A	A	85478700	3	1	7	1	0	0	0	0	1	0	0	0	14531	1087	38	1	1653	1	SLC28A1	15	85478700	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	2903303	85478700	17052692	151	5359										
MSLN	10232	broad.mit.edu	37	chr16	814042	814042	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gcctctcccctcgccaactcCttggcttcccgtgtgcggag	10	18	1	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:814042C>T	uc002cjw.1	+	5	250	c.199C>T	c.(199-201)CTT>TTT	p.L67F	MSLN_uc002cjt.1_Missense_Mutation_p.L67F|MSLN_uc002cju.1_Missense_Mutation_p.L67F|MSLN_uc010brd.1_Missense_Mutation_p.L66F|MSLN_uc002cjv.1_Missense_Mutation_p.L67F|MSLN_uc002cjx.1_Missense_Mutation_p.L67F|MSLN_uc002cjy.1_5'Flank	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein	67					cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)				TCGCCAACTCCTTGGCTTCCC	0.662													8	8	---	---	---	---	PASS	T	814042	T	T	814042	3	4	7	1	0	0	0	0	1	0	0	0	9881	681	24	3	213	3	MSLN	16	814042	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08		814042	89540711	152	5360										
CLDN9	9080	broad.mit.edu	37	chr16	3063982	3063982	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	actccatcccctcccgctcgGgtgcatctggactggacaag	10	16	1	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:3063982G>T	uc010uwo.1	+	1	1526	c.619G>T	c.(619-621)GGT>TGT	p.G207C		NM_020982	NP_066192	O95484	CLD9_HUMAN	claudin 9	207	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CTCCCGCTCGGGTGCATCTGG	0.701													5	51	---	---	---	---	PASS	T	3063982	T	T	3063982	3	4	7	1	0	0	0	0	1	0	0	0	3492	1232	43	3	621	3	CLDN9	16	3063982	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	2249940	3063982	87290771	153	5361										
CREBBP	1387	broad.mit.edu	37	chr16	3777896	3777896	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atggtgactgcgagtccgggGtggggggaaccagtctgggg	21	7	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:3777896G>T	uc002cvv.2	-	31	7356	c.7152C>A	c.(7150-7152)CAC>CAA	p.H2384Q	CREBBP_uc002cvw.2_Missense_Mutation_p.H2346Q	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2384					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)		CGAGTCCGGGGTGGGGGGAAC	0.647			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				9	36	---	---	---	---	PASS	T	3777896	T	T	3777896	3	4	7	1	0	0	0	0	1	0	0	0	3861	1252	44	3	180	3	CREBBP	16	3777896	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	713914	3777896	86576857	154	5362										
SEC14L5	9717	broad.mit.edu	37	chr16	5053517	5053517	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaggacaattacccagagacCctgggtcggctgctcatcgt	12	12	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:5053517C>T	uc002cye.2	+	11	1425	c.1245C>T	c.(1243-1245)ACC>ACT	p.T415T		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	415	CRAL-TRIO.					integral to membrane|intracellular	transporter activity				0						ACCCAGAGACCCTGGGTCGGC	0.647													10	7	---	---	---	---	PASS	T	5053517	T	T	5053517	2	4	7	1	0	0	0	0	0	0	0	1	13985	610	22	3		3	SEC14L5	16	5053517	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	1275621	5053517	85301236	155	5363										
PDXDC1	23042	broad.mit.edu	37	chr16	15098131	15098131	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	actctggacaaagagaagctGagaaaacttacaactaggat	9	7	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:15098131G>T	uc002dda.3	+	5	554	c.330G>T	c.(328-330)CTG>CTT	p.L110L	PDXDC1_uc010uzl.1_Silent_p.L95L|PDXDC1_uc010uzm.1_Intron|PDXDC1_uc010bvc.1_Silent_p.L51L|PDXDC1_uc002dcz.2_Silent_p.L110L|PDXDC1_uc002ddb.3_Silent_p.L83L|PDXDC1_uc010uzn.1_Silent_p.L82L|PDXDC1_uc002ddc.2_Silent_p.L110L	NM_015027	NP_055842	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain	110					carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	AAGAGAAGCTGAGAAAACTTA	0.373													6	179	---	---	---	---	PASS	T	15098131	T	T	15098131	2	4	7	1	0	0	0	0	0	0	0	1	11696	1277	45	2		2	PDXDC1	16	15098131	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	10044614	15098131	75256622	156	5364										
OGFOD1	55239	broad.mit.edu	37	chr16	56496445	56496445	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atcttttgtttacatttctaGgaaaattctgtttgaagatt	6	4	3	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:56496445G>T	uc002ejb.2	+	4	449	c.348_splice	c.e4-1	p.R116_splice	OGFOD1_uc002ejc.2_Splice_Site	NM_018233	NP_060703	Q8N543	OGFD1_HUMAN	2-oxoglutarate and iron-dependent oxygenase								iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)	1					Vitamin C(DB00126)	TACATTTCTAGGAAAATTCTG	0.378													4	33	---	---	---	---	PASS	T	56496445	T	T	56496445	5	4	7	1	0	0	0	0	0	0	1	0	10841	1014	35	3	361	3	OGFOD1	16	56496445	Splice_Site	SNP	G	TCGA-18-3412-01A-01D-0983-08	41398314	56496445	33858308	157	5365										
ADAMTS18	170692	broad.mit.edu	37	chr16	77401602	77401602	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gatgaggaattcattttttcGtgtccttattaaacctgact	7	7	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:77401602G>C	uc002ffc.3	-	4	933	c.514C>G	c.(514-516)CGA>GGA	p.R172G	ADAMTS18_uc002ffe.1_5'UTR|ADAMTS18_uc010vni.1_RNA	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	172					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TCATTTTTTCGTGTCCTTATT	0.463													30	18	---	---	---	---	PASS	C	77401602	C	C	77401602	3	2	7	1	0	0	0	0	1	0	0	0	263	1153	40	4	3231	4	ADAMTS18	16	77401602	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	20905157	77401602	12953151	158	5366										
PRDM7	11105	broad.mit.edu	37	chr16	90126948	90126948	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cacagcctggcctaatgactCggcaggttctatagaagatc	10	11	1	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:90126948C>T	uc010cje.2	-	9	1054	c.1034G>A	c.(1033-1035)CGA>CAA	p.R345Q	PRDM7_uc002fqo.2_Intron|PRDM7_uc010cjf.2_Intron|PRDM7_uc010cjg.1_Missense_Mutation_p.R139Q	NM_001098173	NP_001091643	Q9NQW5	PRDM7_HUMAN	PR domain containing 7 isoform 1	345	SET.					chromosome|nucleus	nucleic acid binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0278)		CCTAATGACTCGGCAGGTTCT	0.547													15	38	---	---	---	---	PASS	T	90126948	T	T	90126948	3	4	7	1	0	0	0	0	1	0	0	0	12461	884	31	2	452	2	PRDM7	16	90126948	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	12725346	90126948	227805	159	5367										
ALOX12B	242	broad.mit.edu	37	chr17	7979001	7979001	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ccctccacggctgcgtcactCgggtaataataggtgatgat	11	11	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:7979001C>A	uc002gjy.1	-	12	1827	c.1566G>T	c.(1564-1566)CCG>CCT	p.P522P		NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	522	Lipoxygenase.				epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						CTGCGTCACTCGGGTAATAAT	0.577										Multiple Myeloma(8;0.094)			5	144	---	---	---	---	PASS	A	7979001	A	A	7979001	2	1	7	1	0	0	0	0	0	0	0	1	537	871	31	2		2	ALOX12B	17	7979001	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08		7979001	73216209	160	5368										
NF1	4763	broad.mit.edu	37	chr17	29684312	29684312	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	actggtaaaatataccacagAtgagtttgatcaacgaattc	7	7	1	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:29684312A>T	uc002hgg.2	+	54	8228	c.7895A>T	c.(7894-7896)GAT>GTT	p.D2632V	NF1_uc002hgh.2_Missense_Mutation_p.D2611V|NF1_uc010cso.2_Missense_Mutation_p.D820V|NF1_uc010wbt.1_Missense_Mutation_p.D110V|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2632					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.D2632E(1)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TATACCACAGATGAGTTTGAT	0.358			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			24	22	---	---	---	---	PASS	T	29684312	T	T	29684312	3	4	7	1	0	0	0	0	1	0	0	0	10356	333	12	5	8170	5	NF1	17	29684312	Missense_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08	21705311	29684312	51510898	161	5369										
MED1	5469	broad.mit.edu	37	chr17	37565935	37565935	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	agagtcactactggggcttcCagcagcatctgcaataagat	10	10	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:37565935C>T	uc002hrv.3	-	17	2751	c.2539G>A	c.(2539-2541)GGA>AGA	p.G847R	MED1_uc010wee.1_Missense_Mutation_p.G675R|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	847	Interaction with ESR1.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		CTGGGGCTTCCAGCAGCATCT	0.408										HNSCC(31;0.082)			17	49	---	---	---	---	PASS	T	37565935	T	T	37565935	3	4	7	1	0	0	0	0	1	0	0	0	9425	603	21	3	2210	3	MED1	17	37565935	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	7881623	37565935	43629275	162	5370										
CD300LG	146894	broad.mit.edu	37	chr17	41931189	41931189	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ttgtagcttctcctgggctcTacccggcagccaccacagcc	9	17	2	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:41931189T>A	uc002iem.2	+	4	537	c.496T>A	c.(496-498)TAC>AAC	p.Y166N	CD300LG_uc002iel.1_Intron|CD300LG_uc010czk.2_Missense_Mutation_p.Y166N|CD300LG_uc010wil.1_Missense_Mutation_p.Y132N|CD300LG_uc010czl.2_Intron	NM_145273	NP_660316	Q6UXG3	CLM9_HUMAN	CD300 molecule-like family member g precursor	166	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|multivesicular body membrane	receptor activity				0		Breast(137;0.0199)		BRCA - Breast invasive adenocarcinoma(366;0.115)		TCCTGGGCTCTACCCGGCAGC	0.597													14	8	---	---	---	---	PASS	A	41931189	A	A	41931189	3	1	7	1	0	0	0	0	1	0	0	0	3002	1522	53	5	510	5	CD300LG	17	41931189	Missense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08	4365254	41931189	39264021	163	5371										
BRIP1	83990	broad.mit.edu	37	chr17	59821870	59821870	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ttgttttttctcctccctgtGgttctacaatgactgtcttc	6	11	3	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:59821870G>T	uc002izk.1	-	15	2321	c.2180C>A	c.(2179-2181)CCA>CAA	p.P727Q	BRIP1_uc002izl.1_Missense_Mutation_p.P108Q	NM_032043	NP_114432	Q9BX63	FANCJ_HUMAN	BRCA1 interacting protein C-terminal helicase 1	727					DNA damage checkpoint|double-strand break repair|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(1)	1						TCCTCCCTGTGGTTCTACAAT	0.358			F|N|Mis			AML|leukemia|breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				7	143	---	---	---	---	PASS	T	59821870	T	T	59821870	3	4	7	1	0	0	0	0	1	0	0	0	1514	1348	47	3	1593	3	BRIP1	17	59821870	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	17890681	59821870	21373340	164	5372										
GH2	2689	broad.mit.edu	37	chr17	61958850	61958850	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ccaggacaggcagagcaggcCaaaagccaggagcagggacg	16	11	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:61958850C>A	uc002jco.1	-	2	102	c.40G>T	c.(40-42)GGC>TGC	p.G14C	GH2_uc002jcj.2_Missense_Mutation_p.G14C|CSH2_uc002jck.2_Intron|GH2_uc002jcl.1_Missense_Mutation_p.G14C|GH2_uc002jcm.1_Missense_Mutation_p.G14C|GH2_uc002jcn.1_Missense_Mutation_p.G14C	NM_002059	NP_002050	P01242	SOM2_HUMAN	growth hormone 2 isoform 1	14						extracellular region	hormone activity			upper_aerodigestive_tract(2)|pancreas(1)	3						CAGAGCAGGCCAAAAGCCAGG	0.622													6	128	---	---	---	---	PASS	A	61958850	A	A	61958850	3	1	7	1	0	0	0	0	1	0	0	0	6368	594	21	3	966	3	GH2	17	61958850	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	2136980	61958850	19236360	165	5373										
SCN4A	6329	broad.mit.edu	37	chr17	62018542	62018542	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gccatgaacttctcctccatGgtctgcttgagggcgtccat	10	13	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:62018542G>T	uc002jds.1	-	24	5177	c.5100C>A	c.(5098-5100)ACC>ACA	p.T1700T		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1700					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	TCTCCTCCATGGTCTGCTTGA	0.587													5	82	---	---	---	---	PASS	T	62018542	T	T	62018542	2	4	7	1	0	0	0	0	0	0	0	1	13920	1335	47	3		3	SCN4A	17	62018542	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	59692	62018542	19176668	166	5374										
RGS9	8787	broad.mit.edu	37	chr17	63221324	63221324	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	agagctcatcgggcttggagCagaaaggggagtgcagcggg	19	7	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:63221324C>A	uc002jfe.2	+	18	1722	c.1612C>A	c.(1612-1614)CAG>AAG	p.Q538K	RGS9_uc010dem.2_Missense_Mutation_p.Q535K|RGS9_uc002jfd.2_Missense_Mutation_p.Q535K|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Missense_Mutation_p.Q309K	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	538					intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						GGGCTTGGAGCAGAAAGGGGA	0.682													12	96	---	---	---	---	PASS	A	63221324	A	A	63221324	3	1	7	1	0	0	0	0	1	0	0	0	13313	711	25	3	1737	3	RGS9	17	63221324	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	1202782	63221324	17973886	167	5375										
DLGAP1	9229	broad.mit.edu	37	chr18	3534460	3534460	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gagccctgaatgctgactgtGgaggtgctggcatcgcggga	17	9	0	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr18:3534460G>T	uc002kmf.2	-	7	2278	c.2211C>A	c.(2209-2211)TCC>TCA	p.S737S	DLGAP1_uc010wyz.1_Silent_p.S737S|DLGAP1_uc002kme.1_Silent_p.S435S|DLGAP1_uc010dkn.2_Silent_p.S445S|DLGAP1_uc010wyw.1_Silent_p.S443S|DLGAP1_uc010wyx.1_Silent_p.S459S|DLGAP1_uc010wyy.1_Silent_p.S421S|DLGAP1_uc002kmg.2_Silent_p.S435S	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	737					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				TGCTGACTGTGGAGGTGCTGG	0.527													4	27	---	---	---	---	PASS	T	3534460	T	T	3534460	2	4	7	1	0	0	0	0	0	0	0	1	4559	1335	47	3		3	DLGAP1	18	3534460	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08		3534460	74542788	168	5376										
SPIRE1	56907	broad.mit.edu	37	chr18	12449639	12449639	+	Nonstop_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	agctgaaaggcacgaggctcAgatctcactgatcgtcctct	10	12	3	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr18:12449639A>G	uc002kre.2	-	17	2316	c.2269T>C	c.(2269-2271)TGA>CGA	p.*757R	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Nonstop_Mutation_p.*623R|SPIRE1_uc010wzx.1_Nonstop_Mutation_p.*546R|SPIRE1_uc010wzy.1_Nonstop_Mutation_p.*743R	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	757						cytoskeleton|perinuclear region of cytoplasm	actin binding				0						CACGAGGCTCAGATCTCACTG	0.542													7	11	---	---	---	---	PASS	G	12449639	G	G	12449639	4	3	7	1	0	0	0	0	0	0	0	0	15070	201	7	5	5	5	SPIRE1	18	12449639	Nonstop_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08	8915179	12449639	65627609	169	5377										
DSC3	1825	broad.mit.edu	37	chr18	28598040	28598040	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	attatacattactgtaccttTacaacagaaagaacaccttc	3	10	0	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr18:28598040T>A	uc002kwj.3	-	9	1415	c.1260A>T	c.(1258-1260)GTA>GTT	p.V420V	DSC3_uc002kwi.3_Silent_p.V420V	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	420	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			ACTGTACCTTTACAACAGAAA	0.269													14	48	---	---	---	---	PASS	A	28598040	A	A	28598040	2	1	7	1	0	0	0	0	0	0	0	1	4767	1741	61	5		5	DSC3	18	28598040	Silent	SNP	T	TCGA-18-3412-01A-01D-0983-08	16148401	28598040	49479208	170	5378										
MEP1B	4225	broad.mit.edu	37	chr18	29793244	29793244	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ccctcatcatatctggcataTaaggaatttcacacagttca	5	11	5	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr18:29793244T>C	uc002kxj.3	+	11	1348	c.1301T>C	c.(1300-1302)ATA>ACA	p.I434T		NM_005925	NP_005916	Q16820	MEP1B_HUMAN	meprin A beta precursor	434	Extracellular (Potential).|MATH.				digestion|proteolysis	extracellular space|integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)	2						ATCTGGCATATAAGGAATTTC	0.423													8	88	---	---	---	---	PASS	C	29793244	C	C	29793244	3	2	7	1	0	0	0	0	1	0	0	0	9476	1406	49	5	1343	5	MEP1B	18	29793244	Missense_Mutation	SNP	T	TCGA-18-3412-01A-01D-0983-08	1195204	29793244	48284004	171	5379										
ZNF516	9658	broad.mit.edu	37	chr18	74091542	74091542	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cacttttggaccccggcatcCcccctggcacctgagtgcgg	11	17	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr18:74091542C>A	uc010dqx.1	-	3	2763	c.2528G>T	c.(2527-2529)GGG>GTG	p.G843V	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	843					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CCCCGGCATCCCCCCTGGCAC	0.637													4	25	---	---	---	---	PASS	A	74091542	A	A	74091542	3	1	7	1	0	0	0	0	1	0	0	0	17957	623	22	3	980	3	ZNF516	18	74091542	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	44298298	74091542	3985706	172	5380										
DCAF15	90379	broad.mit.edu	37	chr19	14069902	14069902	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gtatgaccacagcacctgccCcctggcgcctgccagccccc	9	21	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:14069902C>T	uc002mxt.2	+	7	836	c.830C>T	c.(829-831)CCC>CTC	p.P277L	DCAF15_uc002mxu.2_5'Flank	NM_138353	NP_612362	Q66K64	DCA15_HUMAN	DDB1 and CUL4 associated factor 15	277										central_nervous_system(1)	1						AGCACCTGCCCCCTGGCGCCT	0.657													7	79	---	---	---	---	PASS	T	14069902	T	T	14069902	3	4	7	1	0	0	0	0	1	0	0	0	4267	623	22	3	856	3	DCAF15	19	14069902	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08		14069902	45059081	173	5381										
UNC13A	23025	broad.mit.edu	37	chr19	17759368	17759368	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	actcgtagcagtaggtgggcGtggtggccgtccacacttcg	15	11	0	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:17759368G>A	uc002nhd.2	-	16	1952	c.1952C>T	c.(1951-1953)ACG>ATG	p.T651M		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	563	Phorbol-ester/DAG-type.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						GTAGGTGGGCGTGGTGGCCGT	0.602													7	28	---	---	---	---	PASS	A	17759368	A	A	17759368	3	1	7	1	0	0	0	0	1	0	0	0	16981	1145	40	1	3535	1	UNC13A	19	17759368	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	3689466	17759368	41369615	174	5382										
ELL	8178	broad.mit.edu	37	chr19	18555600	18555600	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctgccgctggtcgtactcggCgatgagcctcttgatgtggg	15	11	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:18555600C>T	uc002njh.2	-	12	1900	c.1828G>A	c.(1828-1830)GCC>ACC	p.A610T	ELL_uc010ebq.2_Missense_Mutation_p.A553T|ELL_uc002njg.2_Missense_Mutation_p.A477T	NM_006532	NP_006523	P55199	ELL_HUMAN	elongation factor RNA polymerase II	610					positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	Cajal body|nuclear speck|transcription elongation factor complex	protein binding			lung(1)	1				GBM - Glioblastoma multiforme(1328;7.81e-07)		TCGTACTCGGCGATGAGCCTC	0.637			T	MLL	AL								11	13	---	---	---	---	PASS	T	18555600	T	T	18555600	3	4	7	1	0	0	0	0	1	0	0	0	5062	768	27	1	41	1	ELL	19	18555600	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	796232	18555600	40573383	175	5383										
ZNF792	126375	broad.mit.edu	37	chr19	35451839	35451839	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aggagtctctgagcctcatcGaggagcacccactcctcctg	10	15	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:35451839G>T	uc002nxh.1	-	2	480	c.93C>A	c.(91-93)CTC>CTA	p.L31L		NM_175872	NP_787068	Q3KQV3	ZN792_HUMAN	zinc finger protein 792	31	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;4.18e-08)|Lung NSC(56;6.62e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			GAGCCTCATCGAGGAGCACCC	0.557													5	246	---	---	---	---	PASS	T	35451839	T	T	35451839	2	4	7	1	0	0	0	0	0	0	0	1	18161	1045	37	2		2	ZNF792	19	35451839	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	16896239	35451839	23677144	176	5384										
CD22	933	broad.mit.edu	37	chr19	35822955	35822955	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cacgacaccatgcatctcctCggcccctggctcctgctcct	7	20	1	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:35822955C>A	uc010edt.2	+	2	89	c.12C>A	c.(10-12)CTC>CTA	p.L4L	CD22_uc010xst.1_5'UTR|CD22_uc010edu.2_Silent_p.L4L|CD22_uc010edv.2_Silent_p.L4L|CD22_uc002nzb.3_Silent_p.L4L	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	4					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)	TGCATCTCCTCGGCCCCTGGC	0.592													6	349	---	---	---	---	PASS	A	35822955	A	A	35822955	2	1	7	1	0	0	0	0	0	0	0	1	2985	871	31	2		2	CD22	19	35822955	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	371116	35822955	23306028	177	5385										
COX6B1	1340	broad.mit.edu	37	chr19	36142160	36142160	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	agcaccatggcggaagacatGgagaccaaaatcaagaacta	10	9	1	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:36142160G>T	uc002oav.2	+	2	177	c.15G>T	c.(13-15)ATG>ATT	p.M5I		NM_001863	NP_001854	P14854	CX6B1_HUMAN	cytochrome c oxidase subunit VIb polypeptide 1	5					respiratory electron transport chain	mitochondrial inner membrane|mitochondrial intermembrane space	cytochrome-c oxidase activity				0	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CGGAAGACATGGAGACCAAAA	0.567													6	176	---	---	---	---	PASS	T	36142160	T	T	36142160	3	4	7	1	0	0	0	0	1	0	0	0	3776	1348	47	3	17	3	COX6B1	19	36142160	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	319205	36142160	22986823	178	5386										
HKR1	284459	broad.mit.edu	37	chr19	37853645	37853645	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tttacgtggaagtcaaacctGatcacacatcagaggacaca	8	10	3	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:37853645G>C	uc002ogb.2	+	6	1217	c.948G>C	c.(946-948)CTG>CTC	p.L316L	HKR1_uc002ofx.2_Silent_p.L32L|HKR1_uc002ofy.2_Silent_p.L32L|HKR1_uc002oga.2_Silent_p.L298L|HKR1_uc010xto.1_Silent_p.L298L|HKR1_uc002ogc.2_Silent_p.L297L|HKR1_uc010xtp.1_Silent_p.L255L|HKR1_uc002ogd.2_Silent_p.L255L	NM_181786	NP_861451	P10072	HKR1_HUMAN	GLI-Kruppel family member HKR1	316	C2H2-type 1.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGTCAAACCTGATCACACATC	0.498													11	202	---	---	---	---	PASS	C	37853645	C	C	37853645	2	2	7	1	0	0	0	0	0	0	0	1	7194	1277	45	2		2	HKR1	19	37853645	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	1711485	37853645	21275338	179	5387										
ZNF527	84503	broad.mit.edu	37	chr19	37880525	37880525	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aagtcatgcaggagagaaacCctatgaatgtaacaaatgtg	10	6	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:37880525C>A	uc010efk.1	+	5	1685	c.1574C>A	c.(1573-1575)CCC>CAC	p.P525H	ZNF527_uc002ogf.3_Missense_Mutation_p.P493H|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	525					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GGAGAGAAACCCTATGAATGT	0.393													7	196	---	---	---	---	PASS	A	37880525	A	A	37880525	3	1	7	1	0	0	0	0	1	0	0	0	17965	623	22	3	1588	3	ZNF527	19	37880525	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	26880	37880525	21248458	180	5388										
ZNF540	163255	broad.mit.edu	37	chr19	38103316	38103316	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aacacagaagaactcatgcaGgtaagaaaccttatgaatgt	8	7	1	4			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:38103316G>T	uc002ogq.2	+	5	1467	c.1135G>T	c.(1135-1137)GGT>TGT	p.G379C	ZNF540_uc002ogu.2_Missense_Mutation_p.G379C|ZNF540_uc010efq.2_Missense_Mutation_p.G347C	NM_152606	NP_689819	Q8NDQ6	ZN540_HUMAN	zinc finger protein 540	379					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AACTCATGCAGGTAAGAAACC	0.368													8	120	---	---	---	---	PASS	T	38103316	T	T	38103316	3	4	7	1	0	0	0	0	1	0	0	0	17972	1000	35	3	1149	3	ZNF540	19	38103316	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	222791	38103316	21025667	181	5389										
MAP4K1	11184	broad.mit.edu	37	chr19	39090611	39090611	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atggagtacacccacgtagtCcggctaggaaagagctgcag	13	10	0	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:39090611C>G	uc002oix.1	-	22	1731	c.1623G>C	c.(1621-1623)CGG>CGC	p.R541R	MAP4K1_uc002oiw.1_Silent_p.R128R|MAP4K1_uc002oiy.1_Silent_p.R541R|MAP4K1_uc010xug.1_Intron	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	541	CNH.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCCACGTAGTCCGGCTAGGAA	0.602													26	151	---	---	---	---	PASS	G	39090611	G	G	39090611	2	3	7	1	0	0	0	0	0	0	0	1	9259	842	30	2		2	MAP4K1	19	39090611	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	987295	39090611	20038372	182	5390			1	4		3	3	160	C		5.66675e-07
MAP4K1	11184	broad.mit.edu	37	chr19	39090744	39090744	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	agcgtggcctcctggtcattCcggttcaggatgaagatgcc	13	11	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:39090744C>G	uc002oix.1	-	21	1689	c.1581G>C	c.(1579-1581)CGG>CGC	p.R527R	MAP4K1_uc002oiw.1_Silent_p.R114R|MAP4K1_uc002oiy.1_Silent_p.R527R|MAP4K1_uc010xug.1_Silent_p.R189R	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	527	CNH.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCTGGTCATTCCGGTTCAGGA	0.632													6	41	---	---	---	---	PASS	G	39090744	G	G	39090744	2	3	7	1	0	0	0	0	0	0	0	1	9259	842	30	2		2	MAP4K1	19	39090744	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	133	39090744	20038239	183	5391			1	4		3	3	160	C		5.66675e-07
MAP4K1	11184	broad.mit.edu	37	chr19	39090770	39090770	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	caggatgaagatgccttcctCtgcccccaggagcaggtgct	12	13	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:39090770C>G	uc002oix.1	-	21	1663	c.1555G>C	c.(1555-1557)GAG>CAG	p.E519Q	MAP4K1_uc002oiw.1_Missense_Mutation_p.E106Q|MAP4K1_uc002oiy.1_Missense_Mutation_p.E519Q|MAP4K1_uc010xug.1_Missense_Mutation_p.E181Q	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	519	CNH.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			ATGCCTTCCTCTGCCCCCAGG	0.622													6	40	---	---	---	---	PASS	G	39090770	G	G	39090770	3	3	7	1	0	0	0	0	1	0	0	0	9259	922	32	2	1056	2	MAP4K1	19	39090770	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	26	39090770	20038213	184	5392			1	4		3	3	160	C		5.66675e-07
CCDC8	83987	broad.mit.edu	37	chr19	46915941	46915941	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gccctcttcttccaggaactGggtcagccgctcccgaaatt	9	15	3	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:46915941G>C	uc002pep.2	-	1	979	c.127C>G	c.(127-129)CAG>GAG	p.Q43E		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	43						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		tccaggaactgggtcagccgc	0.129													23	5	---	---	---	---	PASS	C	46915941	C	C	46915941	3	2	7	1	0	0	0	0	1	0	0	0	2853	1357	47	4	1493	4	CCDC8	19	46915941	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	7825171	46915941	12213042	185	5393										
NLRP8	126205	broad.mit.edu	37	chr19	56467436	56467436	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaacttcatgaacgtgtggaAgctcagctccagctcccatc	9	13	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:56467436A>T	uc002qmh.2	+	3	2083	c.2012A>T	c.(2011-2013)AAG>ATG	p.K671M	NLRP8_uc010etg.2_Missense_Mutation_p.K671M	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	671						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)		AACGTGTGGAAGCTCAGCTCC	0.532													31	8	---	---	---	---	PASS	T	56467436	T	T	56467436	3	4	7	1	0	0	0	0	1	0	0	0	10483	72	3	5	2022	5	NLRP8	19	56467436	Missense_Mutation	SNP	A	TCGA-18-3412-01A-01D-0983-08	9551495	56467436	2661547	186	5394										
ZNF582	147948	broad.mit.edu	37	chr19	56901403	56901403	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tccagacaccactctctccaCcatccagggctctttgcctt	5	18	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:56901403C>A	uc002qmz.1	-	4	358	c.199G>T	c.(199-201)GTG>TTG	p.V67L	ZNF582_uc002qmy.2_Missense_Mutation_p.V98L	NM_144690	NP_653291	Q96NG8	ZN582_HUMAN	zinc finger protein 582	67	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|large_intestine(1)	4		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0547)		ACTCTCTCCACCATCCAGGGC	0.483													3	26	---	---	---	---	PASS	A	56901403	A	A	56901403	3	1	7	1	0	0	0	0	1	0	0	0	18011	507	18	3	1362	3	ZNF582	19	56901403	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	433967	56901403	2227580	187	5395										
SPTLC3	55304	broad.mit.edu	37	chr20	13090814	13090814	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gtcatctatggccagcctcgAacccgcagagcttggaaaaa	10	12	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr20:13090814A>G	uc002wod.1	+	7	1171	c.882A>G	c.(880-882)CGA>CGG	p.R294R		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	294					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	GCCAGCCTCGAACCCGCAGAG	0.438													9	20	---	---	---	---	PASS	G	13090814	G	G	13090814	2	3	7	1	0	0	0	0	0	0	0	1	15124	233	9	5		5	SPTLC3	20	13090814	Silent	SNP	A	TCGA-18-3412-01A-01D-0983-08		13090814	49934706	188	5396										
SNAI1	6615	broad.mit.edu	37	chr20	48600418	48600418	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gctggcagccatcccacctcCggagatcctcaaccccaccg	8	20	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr20:48600418C>T	uc002xuz.2	+	2	210	c.140C>T	c.(139-141)CCG>CTG	p.P47L		NM_005985	NP_005976	O95863	SNAI1_HUMAN	snail 1 homolog	47					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)			ATCCCACCTCCGGAGATCCTC	0.597													17	29	---	---	---	---	PASS	T	48600418	T	T	48600418	3	4	7	1	0	0	0	0	1	0	0	0	14826	652	23	1	146	1	SNAI1	20	48600418	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	35509604	48600418	14425102	189	5397										
ZNF280A	129025	broad.mit.edu	37	chr22	22868913	22868913	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	atcaatgtgacactgtagctGgaagggagtgggaaactgcc	14	7	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr22:22868913G>T	uc002zwe.2	-	2	1295	c.1042C>A	c.(1042-1044)CAG>AAG	p.Q348K	LOC96610_uc011aim.1_Intron	NM_080740	NP_542778	P59817	Z280A_HUMAN	zinc finger protein 280A	348	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		CACTGTAGCTGGAAGGGAGTG	0.493													6	67	---	---	---	---	PASS	T	22868913	T	T	22868913	3	4	7	1	0	0	0	0	1	0	0	0	17811	1357	47	3	590	3	ZNF280A	22	22868913	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08		22868913	28435653	190	5398										
CABIN1	23523	broad.mit.edu	37	chr22	24434905	24434905	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	cttggaggcgagcctgctgcGggaggtgaggcatcagcagg	19	9	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr22:24434905G>A	uc002zzi.1	+	4	333	c.206G>A	c.(205-207)CGG>CAG	p.R69Q	CABIN1_uc002zzj.1_Missense_Mutation_p.R69Q|CABIN1_uc002zzl.1_Missense_Mutation_p.R69Q|CABIN1_uc010guk.1_Missense_Mutation_p.R69Q|CABIN1_uc002zzk.1_Missense_Mutation_p.R69Q	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	69	TPR 1.				cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						AGCCTGCTGCGGGAGGTGAGG	0.358													23	21	---	---	---	---	PASS	A	24434905	A	A	24434905	3	1	7	1	0	0	0	0	1	0	0	0	2528	1116	39	1	216	1	CABIN1	22	24434905	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	1565992	24434905	26869661	191	5399										
GCAT	23464	broad.mit.edu	37	chr22	38211693	38211693	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gctacacgacagggcctgggCccctggtgtccctgctgcgg	15	15	0	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr22:38211693C>T	uc003atz.2	+	7	858	c.838C>T	c.(838-840)CCC>TCC	p.P280S	GCAT_uc003aua.1_Missense_Mutation_p.P306S	NM_014291	NP_055106	O75600	KBL_HUMAN	glycine C-acetyltransferase precursor	280					biosynthetic process|cellular amino acid metabolic process		glycine C-acetyltransferase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups				0	Melanoma(58;0.045)				Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	AGGGCCTGGGCCCCTGGTGTC	0.652													15	49	---	---	---	---	PASS	T	38211693	T	T	38211693	3	4	7	1	0	0	0	0	1	0	0	0	6284	739	26	3	942	3	GCAT	22	38211693	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	13776788	38211693	13092873	192	5400										
TNRC6B	23112	broad.mit.edu	37	chr22	40660695	40660695	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gatgatctgttccccagactCaacccttggaggtgctgctg	11	12	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr22:40660695C>G	uc011aor.1	+	5	672	c.461C>G	c.(460-462)TCA>TGA	p.S154*	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Nonsense_Mutation_p.S154*|TNRC6B_uc003ayo.2_5'UTR	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	154					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						TCCCCAGACTCAACCCTTGGA	0.498													7	40	---	---	---	---	PASS	G	40660695	G	G	40660695	4	3	7	1	0	0	0	0	0	1	0	0	16338	838	29	2	600	2	TNRC6B	22	40660695	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	2449002	40660695	10643871	193	5401										
MED14	9282	broad.mit.edu	37	chrX	40534580	40534580	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tacagaccttcttcgagcatCctgattgctgtcaacaaaca	6	12	2	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:40534580C>T	uc004dex.3	-	22	3054	c.2914G>A	c.(2914-2916)GAT>AAT	p.D972N		NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	972					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						CTTCGAGCATCCTGATTGCTG	0.358													4	3	---	---	---	---	PASS	T	40534580	T	T	40534580	3	4	7	1	0	0	0	0	1	0	0	0	9432	855	30	2	1490	2	MED14	23	40534580	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08		40534580	114735980	194	5402										
SATL1	340562	broad.mit.edu	37	chrX	84362697	84362697	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ggactcttgtttggttgcctCgggactggttggctcaggcc	15	10	2	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:84362697C>A	uc011mqx.1	-	1	1278	c.1278G>T	c.(1276-1278)CCG>CCT	p.P426P	SATL1_uc004een.2_Silent_p.P426P	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	239	Gln-rich.			P -> L (in Ref. 2; AAI26402).			N-acetyltransferase activity			breast(2)	2						TTGGTTGCCTCGGGACTGGTT	0.562													4	109	---	---	---	---	PASS	A	84362697	A	A	84362697	2	1	7	1	0	0	0	0	0	0	0	1	13855	871	31	2		2	SATL1	23	84362697	Silent	SNP	C	TCGA-18-3412-01A-01D-0983-08	43828117	84362697	70907863	195	5403										
POF1B	79983	broad.mit.edu	37	chrX	84560850	84560850	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tctcaagttttttaccatctCcgtgtagtggttgccaatct	7	10	3	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:84560850C>A	uc004eer.2	-	13	1530	c.1384G>T	c.(1384-1386)GAG>TAG	p.E462*	POF1B_uc004ees.2_Nonsense_Mutation_p.E462*	NM_024921	NP_079197	Q8WVV4	POF1B_HUMAN	premature ovarian failure, 1B	462							actin binding				0						TTTACCATCTCCGTGTAGTGG	0.408													9	405	---	---	---	---	PASS	A	84560850	A	A	84560850	4	1	7	1	0	0	0	0	0	1	0	0	12182	864	30	2	405	2	POF1B	23	84560850	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	198153	84560850	70709710	196	5404										
CENPI	2491	broad.mit.edu	37	chrX	100387224	100387224	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tcctgtataagagccttcctCtctgggatggcctttgttgt	10	10	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:100387224C>A	uc004egx.2	+	13	1603	c.1333C>A	c.(1333-1335)CTC>ATC	p.L445I	CENPI_uc011mrg.1_Missense_Mutation_p.L445I|CENPI_uc004egy.2_Missense_Mutation_p.L445I	NM_006733	NP_006724	Q92674	CENPI_HUMAN	centromere protein I	445					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	cytosol|kinetochore|nucleoplasm	protein binding			skin(1)	1						GAGCCTTCCTCTCTGGGATGG	0.398													8	366	---	---	---	---	PASS	A	100387224	A	A	100387224	3	1	7	1	0	0	0	0	1	0	0	0	3233	913	32	2	1379	2	CENPI	23	100387224	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	15826374	100387224	54883336	197	5405										
TAF7L	54457	broad.mit.edu	37	chrX	100547911	100547911	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tcggcgctgctttcataggtGgtttcagacccacggtcgac	12	12	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:100547911G>T	uc004ehb.2	-	1	135	c.123C>A	c.(121-123)ACC>ACA	p.T41T	TAF7L_uc004ehc.1_5'Flank	NM_024885	NP_079161	Q5H9L4	TAF7L_HUMAN	TATA box binding protein-associated factor, RNA	41					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription initiation from RNA polymerase II promoter	cytoplasm|transcription factor TFIID complex	binding			breast(1)	1						TTTCATAGGTGGTTTCAGACC	0.527													11	490	---	---	---	---	PASS	T	100547911	T	T	100547911	2	4	7	1	0	0	0	0	0	0	0	1	15530	1335	47	3		3	TAF7L	23	100547911	Silent	SNP	G	TCGA-18-3412-01A-01D-0983-08	160687	100547911	54722649	198	5406										
GPRASP2	114928	broad.mit.edu	37	chrX	101972177	101972177	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tcagtaacattataaaaagtGgaaagatgtccttaattgat	7	4	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:101972177G>T	uc004ejk.2	+	4	3714	c.2380G>T	c.(2380-2382)GGA>TGA	p.G794*	GPRASP2_uc004ejl.2_Nonsense_Mutation_p.G794*|GPRASP2_uc004ejm.2_Nonsense_Mutation_p.G794*|GPRASP2_uc011mrp.1_Nonsense_Mutation_p.G133*	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	794						cytoplasm	protein binding			ovary(1)	1						TATAAAAAGTGGAAAGATGTC	0.308													8	468	---	---	---	---	PASS	T	101972177	T	T	101972177	4	4	7	1	0	0	0	0	0	1	0	0	6723	1349	47	3	2382	3	GPRASP2	23	101972177	Nonsense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	1424266	101972177	53298383	199	5407										
IL1RAPL2	26280	broad.mit.edu	37	chrX	105011134	105011134	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tgagtgtacagaattaaaagGgaaagtgaattgccaggaag	13	3	0	3			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:105011134G>T	uc004elz.1	+	11	2297	c.1541G>T	c.(1540-1542)GGG>GTG	p.G514V		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	514	Cytoplasmic (Potential).|TIR.				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						GAATTAAAAGGGAAAGTGAAT	0.403													10	342	---	---	---	---	PASS	T	105011134	T	T	105011134	3	4	7	1	0	0	0	0	1	0	0	0	7662	1232	43	3	1579	3	IL1RAPL2	23	105011134	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	3038957	105011134	50259426	200	5408										
NRK	203447	broad.mit.edu	37	chrX	105167219	105167219	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ccggaatgattggttaactcCggcacctgtcattcagccac	9	13	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:105167219C>T	uc004emd.2	+	18	3023	c.2720C>T	c.(2719-2721)CCG>CTG	p.P907L	NRK_uc010npc.1_Missense_Mutation_p.P575L	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	907							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						TGGTTAACTCCGGCACCTGTC	0.343										HNSCC(51;0.14)			12	140	---	---	---	---	PASS	T	105167219	T	T	105167219	3	4	7	1	0	0	0	0	1	0	0	0	10655	652	23	1	2790	1	NRK	23	105167219	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	156085	105167219	50103341	201	5409										
COL4A6	1288	broad.mit.edu	37	chrX	107446160	107446160	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	tcaaatagagagacttaccgGgaagcctggagggccactta	12	9	1	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:107446160G>T	uc004enw.3	-	13	938	c.835C>A	c.(835-837)CCG>ACG	p.P279T	COL4A6_uc004env.3_Missense_Mutation_p.P278T|COL4A6_uc011msn.1_Missense_Mutation_p.P278T|COL4A6_uc010npk.2_Missense_Mutation_p.P278T	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	279	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						AGACTTACCGGGAAGCCTGGA	0.463									Alport_syndrome_with_Diffuse_Leiomyomatosis				11	554	---	---	---	---	PASS	T	107446160	T	T	107446160	3	4	7	1	0	0	0	0	1	0	0	0	3695	1232	43	3	4372	3	COL4A6	23	107446160	Missense_Mutation	SNP	G	TCGA-18-3412-01A-01D-0983-08	2278941	107446160	47824400	202	5410										
GUCY2F	2986	broad.mit.edu	37	chrX	108619384	108619384	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aatcagccagaaggtttcctCtgtgcctttgcccttattat	7	11	2	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:108619384C>A	uc004eod.3	-	18	3439	c.3163G>T	c.(3163-3165)GAG>TAG	p.E1055*	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	1055	Cytoplasmic (Potential).		E -> D (in a lung squamous cell carcinoma sample; somatic mutation).		intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity	p.E1055D(1)		lung(4)|breast(3)|central_nervous_system(1)	8						AAGGTTTCCTCTGTGCCTTTG	0.408													7	279	---	---	---	---	PASS	A	108619384	A	A	108619384	4	1	7	1	0	0	0	0	0	1	0	0	6898	922	32	2	171	2	GUCY2F	23	108619384	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	1173224	108619384	46651176	203	5411										
CHRDL1	91851	broad.mit.edu	37	chrX	109963156	109963156	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	accacaatacacgtttccctCctgccaaggagaaacagaat	6	13	0	2			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:109963156C>A	uc004eou.3	-	6	797	c.448G>T	c.(448-450)GAG>TAG	p.E150*	CHRDL1_uc004eov.2_Nonsense_Mutation_p.E144*|CHRDL1_uc004eow.2_Nonsense_Mutation_p.E149*|CHRDL1_uc010nps.2_Nonsense_Mutation_p.E149*|CHRDL1_uc004eot.2_Intron|CHRDL1_uc011mss.1_Intron|CHRDL1_uc004eox.3_Nonsense_Mutation_p.E143*	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	143	VWFC 2.				BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						ACGTTTCCCTCCTGCCAAGGA	0.463													7	166	---	---	---	---	PASS	A	109963156	A	A	109963156	4	1	7	1	0	0	0	0	0	1	0	0	3373	869	30	2	956	2	CHRDL1	23	109963156	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	1343772	109963156	45307404	204	5412										
CAPN6	827	broad.mit.edu	37	chrX	110494322	110494322	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	aagttgcggcaaaagtcctcCaagctcatcctgaatggaag	10	10	1	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:110494322C>A	uc004epc.1	-	8	1149	c.981G>T	c.(979-981)TTG>TTT	p.L327F	CAPN6_uc011msu.1_Missense_Mutation_p.L72F	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	327	Calpain catalytic.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						AAAAGTCCTCCAAGCTCATCC	0.443													9	757	---	---	---	---	PASS	A	110494322	A	A	110494322	3	1	7	1	0	0	0	0	1	0	0	0	2630	593	21	3	968	3	CAPN6	23	110494322	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	531166	110494322	44776238	205	5413										
LHFPL1	340596	broad.mit.edu	37	chrX	111903881	111903881	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gaaattgattggagacattcCcacatgtttgcattatctcc	7	9	1	2	rs147016809		TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:111903881C>A	uc004epq.2	-	3	788	c.455G>T	c.(454-456)GGG>GTG	p.G152V	LHFPL1_uc004epp.2_Missense_Mutation_p.G175V|LHFPL1_uc010nqa.2_Intron|LHFPL1_uc010nqb.2_Intron	NM_178175	NP_835469	Q86WI0	LHPL1_HUMAN	lipoma HMGIC fusion partner-like 1 precursor	152						integral to membrane					0						GGAGACATTCCCACATGTTTG	0.463													11	648	---	---	---	---	PASS	A	111903881	A	A	111903881	3	1	7	1	0	0	0	0	1	0	0	0	8764	623	22	3	215	3	LHFPL1	23	111903881	Missense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	1409559	111903881	43366679	206	5414										
AMOT	154796	broad.mit.edu	37	chrX	112021836	112021836	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	ctctgcatcaggctcttgtcCcaggatctgaatgggagttt	11	10	4	1			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:112021836C>A	uc004epr.2	-	11	3214	c.3214G>T	c.(3214-3216)GGA>TGA	p.G1072*	AMOT_uc004eps.2_Nonsense_Mutation_p.G663*	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	1072					actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						GGCTCTTGTCCCAGGATCTGA	0.408													11	484	---	---	---	---	PASS	A	112021836	A	A	112021836	4	1	7	1	0	0	0	0	0	1	0	0	582	632	22	3	44	3	AMOT	23	112021836	Nonsense_Mutation	SNP	C	TCGA-18-3412-01A-01D-0983-08	117955	112021836	43248724	207	5415										
SLC6A14	11254	broad.mit.edu	37	chrX	115577987	115577987	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0769230769230769	16	0.0835546233678799	1.52054421768707	2.04688644688645	1.20952380952381	1	1	0	gcaactctggagggtgcttcAaaaggcatttcatactatat	9	8	3	0			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:115577987A>C	uc004eqi.2	+	7	974	c.870A>C	c.(868-870)TCA>TCC	p.S290S	SLC6A14_uc011mtm.1_RNA	NM_007231	NP_009162	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid	290					cellular amino acid metabolic process|response to toxin	integral to membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)|pancreas(1)	3					L-Proline(DB00172)	AGGGTGCTTCAAAAGGCATTT	0.393													14	206	---	---	---	---	PASS	C	115577987	C	C	115577987	2	2	7	1	0	0	0	0	0	0	0	1	14677	117	5	5		5	SLC6A14	23	115577987	Silent	SNP	A	TCGA-18-3412-01A-01D-0983-08	3556151	115577987	39692573	208	5416										
ACOT7	11332	broad.mit.edu	37	chr1	6354951	6354951	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gatcttgtcatgaaaattaaTggcgtccacggaagctgtga	11	7	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:6354951T>C	uc001ams.2	-	7	989	c.832A>G	c.(832-834)ATT>GTT	p.I278V	ACOT7_uc010nzq.1_Missense_Mutation_p.I163V|ACOT7_uc001amt.2_Missense_Mutation_p.I268V|ACOT7_uc001amu.2_RNA|ACOT7_uc001amv.2_RNA|ACOT7_uc001amq.2_Missense_Mutation_p.I227V|ACOT7_uc001amr.2_Missense_Mutation_p.I248V	NM_181864	NP_863654	O00154	BACH_HUMAN	acyl-CoA thioesterase 7 isoform hBACHb	278	Acyl coenzyme A hydrolase 2.					mitochondrion|nucleus	carboxylesterase activity|fatty-acyl-CoA binding|palmitoyl-CoA hydrolase activity				0	Ovarian(185;0.0634)|all_lung(157;0.175)	all_cancers(23;1.42e-38)|all_epithelial(116;3.96e-23)|all_lung(118;3.69e-08)|Lung NSC(185;8.52e-07)|all_hematologic(16;6.92e-06)|Colorectal(325;4.53e-05)|Acute lymphoblastic leukemia(12;5e-05)|all_neural(13;0.000164)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0393)|Medulloblastoma(700;0.211)		Epithelial(90;9.16e-37)|GBM - Glioblastoma multiforme(13;5.89e-29)|OV - Ovarian serous cystadenocarcinoma(86;7.63e-19)|Colorectal(212;1.27e-07)|COAD - Colon adenocarcinoma(227;2.06e-05)|Kidney(185;7.74e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00129)|BRCA - Breast invasive adenocarcinoma(365;0.00132)|STAD - Stomach adenocarcinoma(132;0.00195)|READ - Rectum adenocarcinoma(331;0.0481)		TGAAAATTAATGGCGTCCACG	0.542													9	37	---	---	---	---	PASS	C	6354951	C	C	6354951	3	2	8	1	0	0	0	0	1	0	0	0	155	1464	51	5	322	5	ACOT7	1	6354951	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08		6354951	242895670	1	5417										
ACOT7	11332	broad.mit.edu	37	chr1	6409851	6409851	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cgggtgctgatgatggcgccTgcctcctcgatcatcttcag	12	13	3	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:6409851T>A	uc001ams.2	-	2	406	c.249A>T	c.(247-249)GCA>GCT	p.A83A	ACOT7_uc010nzq.1_Intron|ACOT7_uc001amt.2_Silent_p.A73A|ACOT7_uc001amu.2_RNA|ACOT7_uc001amv.2_RNA|ACOT7_uc001amq.2_Silent_p.A32A|ACOT7_uc001amr.2_Silent_p.A53A	NM_181864	NP_863654	O00154	BACH_HUMAN	acyl-CoA thioesterase 7 isoform hBACHb	83	Acyl coenzyme A hydrolase 1.					mitochondrion|nucleus	carboxylesterase activity|fatty-acyl-CoA binding|palmitoyl-CoA hydrolase activity				0	Ovarian(185;0.0634)|all_lung(157;0.175)	all_cancers(23;1.42e-38)|all_epithelial(116;3.96e-23)|all_lung(118;3.69e-08)|Lung NSC(185;8.52e-07)|all_hematologic(16;6.92e-06)|Colorectal(325;4.53e-05)|Acute lymphoblastic leukemia(12;5e-05)|all_neural(13;0.000164)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0393)|Medulloblastoma(700;0.211)		Epithelial(90;9.16e-37)|GBM - Glioblastoma multiforme(13;5.89e-29)|OV - Ovarian serous cystadenocarcinoma(86;7.63e-19)|Colorectal(212;1.27e-07)|COAD - Colon adenocarcinoma(227;2.06e-05)|Kidney(185;7.74e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00129)|BRCA - Breast invasive adenocarcinoma(365;0.00132)|STAD - Stomach adenocarcinoma(132;0.00195)|READ - Rectum adenocarcinoma(331;0.0481)		TGATGGCGCCTGCCTCCTCGA	0.622													10	17	---	---	---	---	PASS	A	6409851	A	A	6409851	2	1	8	1	0	0	0	0	0	0	0	1	155	1567	55	5		5	ACOT7	1	6409851	Silent	SNP	T	TCGA-18-3414-01A-01D-0983-08	54900	6409851	242840770	2	5418										
LUZP1	7798	broad.mit.edu	37	chr1	23418882	23418882	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgcaggttgattaaccccttCtttatgtgaggttgaaaatc	9	7	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:23418882C>G	uc001bgk.2	-	4	2257	c.1873G>C	c.(1873-1875)GAA>CAA	p.E625Q	LUZP1_uc010odv.1_Missense_Mutation_p.E625Q|LUZP1_uc001bgl.2_Missense_Mutation_p.E625Q|LUZP1_uc001bgm.1_Missense_Mutation_p.E625Q	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	625						nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		TTAACCCCTTCTTTATGTGAG	0.468													34	115	---	---	---	---	PASS	G	23418882	G	G	23418882	3	3	8	1	0	0	0	0	1	0	0	0	9086	922	32	2	1365	2	LUZP1	1	23418882	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	17009031	23418882	225831739	3	5419										
CSMD2	114784	broad.mit.edu	37	chr1	34158623	34158623	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cgggtgacagcacctgccccGacacctctcctctcactgtc	8	19	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:34158623G>A	uc001bxn.1	-	25	3868	c.3839C>T	c.(3838-3840)TCG>TTG	p.S1280L	CSMD2_uc001bxm.1_Missense_Mutation_p.S1320L|CSMD2_uc001bxo.1_Missense_Mutation_p.S193L	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1280	CUB 8.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CACCTGCCCCGACACCTCTCC	0.572													61	67	---	---	---	---	PASS	A	34158623	A	A	34158623	3	1	8	1	0	0	0	0	1	0	0	0	3945	1059	37	2	6804	2	CSMD2	1	34158623	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	10739741	34158623	215091998	4	5420										
DLGAP3	58512	broad.mit.edu	37	chr1	35351752	35351752	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcttgagagcagccggcctgGatggcccggaggtagctgtg	17	10	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:35351752G>A	uc001byc.2	-	4	1521	c.1521C>T	c.(1519-1521)ATC>ATT	p.I507I		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	507					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				AGCCGGCCTGGATGGCCCGGA	0.692													5	5	---	---	---	---	PASS	A	35351752	A	A	35351752	2	1	8	1	0	0	0	0	0	0	0	1	4561	1164	41	2		2	DLGAP3	1	35351752	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	1193129	35351752	213898869	5	5421										
CSF3R	1441	broad.mit.edu	37	chr1	36933539	36933539	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggccatggaggacaaagccaCgggaggaggcattcaggatg	17	8	1	0	rs148104401	byFrequency	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:36933539C>A	uc001caw.1	-	14	1926	c.1748G>T	c.(1747-1749)CGT>CTT	p.R583L	CSF3R_uc001cat.1_Missense_Mutation_p.R146L|CSF3R_uc009vvc.1_Missense_Mutation_p.R112L|CSF3R_uc001cau.1_5'UTR|CSF3R_uc001cav.1_Missense_Mutation_p.R583L|CSF3R_uc001cax.1_Missense_Mutation_p.R583L|CSF3R_uc001cay.1_Missense_Mutation_p.R583L	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	583	Fibronectin type-III 5.|Extracellular (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	GACAAAGCCACGGGAGGAGGC	0.637													11	13	---	---	---	---	PASS	A	36933539	A	A	36933539	3	1	8	1	0	0	0	0	1	0	0	0	3937	536	19	1	968	1	CSF3R	1	36933539	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1581787	36933539	212317082	6	5422										
ZC3H12A	80149	broad.mit.edu	37	chr1	37947224	37947224	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cagcacatcctgcgggaactGgagaagaagaagatcctggt	13	9	0	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:37947224G>T	uc001cbb.3	+	4	756	c.606G>T	c.(604-606)CTG>CTT	p.L202L	ZC3H12A_uc001cbc.1_5'UTR	NM_025079	NP_079355	Q5D1E8	ZC12A_HUMAN	zinc finger CCCH-type containing 12A	202					angiogenesis|apoptosis|cell differentiation	cytoplasm|nucleus|plasma membrane	endonuclease activity|metal ion binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TGCGGGAACTGGAGAAGAAGA	0.597													5	80	---	---	---	---	PASS	T	37947224	T	T	37947224	2	4	8	1	0	0	0	0	0	0	0	1	17558	1335	47	3		3	ZC3H12A	1	37947224	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	1013685	37947224	211303397	7	5423										
MACF1	23499	broad.mit.edu	37	chr1	39833823	39833823	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccttgtttgcttgacaggagCtcaatttggaaatggaagac	11	7	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:39833823C>T	uc010oiu.1	+	14	8226	c.8095C>T	c.(8095-8097)CTC>TTC	p.L2699F	MACF1_uc010ois.1_Missense_Mutation_p.L2197F|MACF1_uc001cda.1_Missense_Mutation_p.L2105F|MACF1_uc001cdc.1_Missense_Mutation_p.L1284F|MACF1_uc001cdb.1_Missense_Mutation_p.L1284F	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	4264	LRR 15.				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)			TTGACAGGAGCTCAATTTGGA	0.423													13	33	---	---	---	---	PASS	T	39833823	T	T	39833823	3	4	8	1	0	0	0	0	1	0	0	0	9144	797	28	3	12918	3	MACF1	1	39833823	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1886599	39833823	209416798	8	5424										
LEPR	3953	broad.mit.edu	37	chr1	66067350	66067350	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aatgccatcatcgctatgctGaattatatgtgattggtaag	9	6	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:66067350G>T	uc001dci.2	+	9	1472	c.1270G>T	c.(1270-1272)GAA>TAA	p.E424*	LEPR_uc001dcg.2_Nonsense_Mutation_p.E424*|LEPR_uc001dch.2_Nonsense_Mutation_p.E424*|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Nonsense_Mutation_p.E424*|LEPR_uc001dck.2_Nonsense_Mutation_p.E424*	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	424	Extracellular (Potential).|Ig-like.				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)		TCGCTATGCTGAATTATATGT	0.353													7	11	---	---	---	---	PASS	T	66067350	T	T	66067350	4	4	8	1	0	0	0	0	0	1	0	0	8728	1291	45	2	1296	2	LEPR	1	66067350	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	26233527	66067350	183183271	9	5425										
MSH4	4438	broad.mit.edu	37	chr1	76342658	76342658	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	taacacacctttattaagagCttactatggttccttggaag	7	8	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:76342658C>A	uc001dhd.1	+	10	1384	c.1343C>A	c.(1342-1344)GCT>GAT	p.A448D		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	448					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						TTATTAAGAGCTTACTATGGT	0.279								MMR					8	19	---	---	---	---	PASS	A	76342658	A	A	76342658	3	1	8	1	0	0	0	0	1	0	0	0	9872	797	28	3	1381	3	MSH4	1	76342658	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	10275308	76342658	172907963	10	5426										
PRKACB	5567	broad.mit.edu	37	chr1	84663425	84663425	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tttataggtcacagactttgGgtttgccaaaagagttaaag	10	5	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:84663425G>T	uc001djj.2	+	7	824	c.560G>T	c.(559-561)GGG>GTG	p.G187V	PRKACB_uc001djl.2_Missense_Mutation_p.G234V|PRKACB_uc010ort.1_Missense_Mutation_p.G194V|PRKACB_uc001djn.2_Missense_Mutation_p.G191V|PRKACB_uc010oru.1_Missense_Mutation_p.G175V|PRKACB_uc001djp.2_Missense_Mutation_p.G193V|PRKACB_uc001djq.2_Missense_Mutation_p.G157V|PRKACB_uc010orv.1_Missense_Mutation_p.G174V|PRKACB_uc001dji.2_Missense_Mutation_p.G187V|PRKACB_uc001djk.2_Missense_Mutation_p.G234V|PRKACB_uc009wcf.1_Missense_Mutation_p.G193V	NM_002731	NP_002722	P22694	KAPCB_HUMAN	cAMP-dependent protein kinase catalytic subunit	187	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|regulation of insulin secretion|synaptic transmission|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|magnesium ion binding|protein binding			lung(2)|ovary(1)	3				all cancers(265;0.00536)|Epithelial(280;0.0161)|OV - Ovarian serous cystadenocarcinoma(397;0.141)		ACAGACTTTGGGTTTGCCAAA	0.318													5	32	---	---	---	---	PASS	T	84663425	T	T	84663425	3	4	8	1	0	0	0	0	1	0	0	0	12498	1232	43	3	777	3	PRKACB	1	84663425	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	8320767	84663425	164587196	11	5427										
LRRC8D	55144	broad.mit.edu	37	chr1	90400188	90400188	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acctccaagagctccacctcTgccactgccctgcaaaagtt	6	17	1	1	rs112842021		TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:90400188T>C	uc001dnm.2	+	3	1986	c.1561T>C	c.(1561-1563)TGC>CGC	p.C521R	LRRC8D_uc001dnn.2_Missense_Mutation_p.C521R	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	521	LRR 1.					integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		GCTCCACCTCTGCCACTGCCC	0.453													36	53	---	---	---	---	PASS	C	90400188	C	C	90400188	3	2	8	1	0	0	0	0	1	0	0	0	9024	1580	55	5	1563	5	LRRC8D	1	90400188	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	5736763	90400188	158850433	12	5428										
PIAS3	10401	broad.mit.edu	37	chr1	145580518	145580518	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caagtagaattactccttgtCtgtgtacctggtgaggcagt	11	8	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:145580518C>G	uc001eoc.1	+	7	909	c.818C>G	c.(817-819)TCT>TGT	p.S273C	NBPF10_uc001emp.3_Intron|PIAS3_uc010oyy.1_3'UTR|PIAS3_uc001eod.1_5'UTR	NM_006099	NP_006090	Q9Y6X2	PIAS3_HUMAN	protein inhibitor of activated STAT, 3	273	PINIT.				positive regulation of protein sumoylation|protein sumoylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	enzyme binding|nucleic acid binding|protein C-terminus binding|zinc ion binding			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TACTCCTTGTCTGTGTACCTG	0.512													31	43	---	---	---	---	PASS	G	145580518	G	G	145580518	3	3	8	1	0	0	0	0	1	0	0	0	11877	913	32	2	844	2	PIAS3	1	145580518	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	55180330	145580518	103670103	13	5429										
HIST2H2BE	8349	broad.mit.edu	37	chr1	149858024	149858024	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgatgcccatggccttggacGagatgccggtgtcggggtgg	18	9	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:149858024G>T	uc001etc.2	-	1	209	c.167C>A	c.(166-168)TCG>TAG	p.S56*	HIST2H2AC_uc001etd.2_5'Flank	NM_003528	NP_003519	Q16778	H2B2E_HUMAN	histone cluster 2, H2be	56					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			ovary(1)	1	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			GGCCTTGGACGAGATGCCGGT	0.592													6	196	---	---	---	---	PASS	T	149858024	T	T	149858024	4	4	8	1	0	0	0	0	0	1	0	0	7179	1059	37	2	217	2	HIST2H2BE	1	149858024	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	4277506	149858024	99392597	14	5430										
SELENBP1	8991	broad.mit.edu	37	chr1	151337409	151337409	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtctgcttctcacctgatgaGatcagggtaaaactgcttgt	10	9	3	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:151337409G>C	uc001exx.2	-	11	1296	c.1249C>G	c.(1249-1251)CTC>GTC	p.L417V	SELENBP1_uc010pcy.1_Missense_Mutation_p.L459V|SELENBP1_uc001exy.2_Missense_Mutation_p.L314V|SELENBP1_uc001exz.2_Missense_Mutation_p.L314V|SELENBP1_uc010pcz.1_Missense_Mutation_p.L355V|SELENBP1_uc009wms.2_Missense_Mutation_p.L253V|SELENBP1_uc009wmt.2_Missense_Mutation_p.L314V|SELENBP1_uc001eya.2_Missense_Mutation_p.L353V|SELENBP1_uc009wmu.2_3'UTR	NM_003944	NP_003935	Q13228	SBP1_HUMAN	selenium binding protein 1	417					protein transport	cytosol|membrane|nucleolus	protein binding|selenium binding				0	Lung SC(34;0.00471)|Ovarian(49;0.00871)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CACCTGATGAGATCAGGGTAA	0.572													4	23	---	---	---	---	PASS	C	151337409	C	C	151337409	3	2	8	1	0	0	0	0	1	0	0	0	14014	942	33	2	177	2	SELENBP1	1	151337409	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1479385	151337409	97913212	15	5431										
BCAN	63827	broad.mit.edu	37	chr1	156626131	156626131	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atgcttggaggaggaggaagGggtccgctgcctatgtctgc	17	8	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:156626131G>T	uc001fpp.2	+	9	2336	c.2000G>T	c.(1999-2001)GGG>GTG	p.G667V		NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	667	EGF-like.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GAGGAGGAAGGGGTCCGCTGC	0.642													31	33	---	---	---	---	PASS	T	156626131	T	T	156626131	3	4	8	1	0	0	0	0	1	0	0	0	1345	1232	43	3	2104	3	BCAN	1	156626131	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	5288722	156626131	92624490	16	5432										
FCRL3	115352	broad.mit.edu	37	chr1	157650786	157650786	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctcaccattgctgtacattgGctccagctccattggggcta	9	13	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:157650786G>A	uc001frb.2	-	12	2234	c.1942C>T	c.(1942-1944)CCA>TCA	p.P648S	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.P648S|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Missense_Mutation_p.P374S|FCRL3_uc001frc.1_Missense_Mutation_p.P648S	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	648	ITIM motif 1.|Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					CTGTACATTGGCTCCAGCTCC	0.587													4	49	---	---	---	---	PASS	A	157650786	A	A	157650786	3	1	8	1	0	0	0	0	1	0	0	0	5796	1203	42	3	278	3	FCRL3	1	157650786	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1024655	157650786	91599835	17	5433										
FCRL1	115350	broad.mit.edu	37	chr1	157773754	157773754	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cgatctggagcttgggggagCtgctccagcctgggcccaag	16	12	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:157773754C>A	uc001frg.2	-	3	313	c.200G>T	c.(199-201)AGC>ATC	p.S67I	FCRL1_uc001frf.2_5'Flank|FCRL1_uc001frh.2_Missense_Mutation_p.S67I|FCRL1_uc001fri.2_Missense_Mutation_p.S67I|FCRL1_uc001frj.2_RNA	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	67	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CTTGGGGGAGCTGCTCCAGCC	0.562													35	34	---	---	---	---	PASS	A	157773754	A	A	157773754	3	1	8	1	0	0	0	0	1	0	0	0	5794	797	28	3	1191	3	FCRL1	1	157773754	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	122968	157773754	91476867	18	5434										
SPTA1	6708	broad.mit.edu	37	chr1	158619725	158619725	+	Frame_Shift_Del	DEL	G	-	-													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cctctgcaaagaaccccagcGggaattcaattcctaaaaga							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:158619725delG	uc001fst.1	-	25	3689	c.3490delC	c.(3490-3492)CGCfs	p.R1164fs		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1164	Spectrin 11.				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)					GAACCCCAGCGGGAATTCAAT	0.443													23	10	---	---	---	---		-	158619725	-	-	158619725	7	5	8	1	0	1	0	1	0	0	0	0	15115	1116	39	0	3881	0	SPTA1	1	158619725	Frame_Shift_Del	DEL	G	TCGA-18-3414-01A-01D-0983-08	845971	158619725	90630896	19	5435										
CCDC19	25790	broad.mit.edu	37	chr1	159856431	159856431	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tttttggatctgctgcttctCcaggatttgggcatcccgga	11	10	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:159856431C>T	uc001fui.2	-	6	655	c.637G>A	c.(637-639)GAG>AAG	p.E213K	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.E128K|CCDC19_uc001ful.2_Missense_Mutation_p.E128K|CCDC19_uc009wtc.1_Missense_Mutation_p.E213K	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	213	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			TGCTGCTTCTCCAGGATTTGG	0.478													9	257	---	---	---	---	PASS	T	159856431	T	T	159856431	3	4	8	1	0	0	0	0	1	0	0	0	2795	864	30	2	1046	2	CCDC19	1	159856431	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1236706	159856431	89394190	20	5436										
HSPA6	3310	broad.mit.edu	37	chr1	161495234	161495234	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agcgggaacaagcgtgccctGcgcaggctgcgcacagcctg	15	14	0	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:161495234G>T	uc001gap.2	+	2	1446	c.786G>T	c.(784-786)CTG>CTT	p.L262L	HSPA6_uc001gaq.2_Silent_p.L262L	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	262					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			AGCGTGCCCTGCGCAGGCTGC	0.632													7	9	---	---	---	---	PASS	T	161495234	T	T	161495234	2	4	8	1	0	0	0	0	0	0	0	1	7415	1306	46	3		3	HSPA6	1	161495234	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	1638803	161495234	87755387	21	5437										
KIFAP3	22920	broad.mit.edu	37	chr1	169993642	169993642	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cagctcaaaattgtcccgatCaagggctttcaccaacatgt	7	12	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:169993642C>G	uc001ggv.2	-	9	1208	c.937G>C	c.(937-939)GAT>CAT	p.D313H	KIFAP3_uc010plx.1_Missense_Mutation_p.D15H	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	313					blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TTGTCCCGATCAAGGGCTTTC	0.358													5	25	---	---	---	---	PASS	G	169993642	G	G	169993642	3	3	8	1	0	0	0	0	1	0	0	0	8311	826	29	2	1489	2	KIFAP3	1	169993642	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	8498408	169993642	79256979	22	5438										
MYOC	4653	broad.mit.edu	37	chr1	171605340	171605340	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtttgtctcccaggtttgttCgagttccagattctctgggt	11	9	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:171605340C>T	uc001ghu.2	-	3	1262	c.1240G>A	c.(1240-1242)GAA>AAA	p.E414K	MYOC_uc010pmk.1_Missense_Mutation_p.E356K	NM_000261	NP_000252	Q99972	MYOC_HUMAN	myocilin precursor	414	Olfactomedin-like.		E -> K.		anatomical structure morphogenesis	cilium|extracellular space|rough endoplasmic reticulum	structural molecule activity			lung(1)	1	all_cancers(6;5.47e-10)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					CAGGTTTGTTCGAGTTCCAGA	0.527													35	87	---	---	---	---	PASS	T	171605340	T	T	171605340	3	4	8	1	0	0	0	0	1	0	0	0	10086	893	31	2	278	2	MYOC	1	171605340	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1611698	171605340	77645281	23	5439										
METTL13	51603	broad.mit.edu	37	chr1	171753518	171753518	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cagctgcgccgcaaggccagGctggggagtgtgtctctgga	17	11	1	0	rs149343407	byFrequency	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:171753518G>T	uc001ghz.2	+	2	1139	c.792G>T	c.(790-792)AGG>AGT	p.R264S	METTL13_uc001gia.2_Missense_Mutation_p.R178S|METTL13_uc001gib.2_Intron|METTL13_uc010pml.1_Missense_Mutation_p.R263S	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	264							methyltransferase activity|protein binding			kidney(1)	1						GCAAGGCCAGGCTGGGGAGTG	0.677													7	21	---	---	---	---	PASS	T	171753518	T	T	171753518	3	4	8	1	0	0	0	0	1	0	0	0	9497	1194	42	3	798	3	METTL13	1	171753518	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	148178	171753518	77497103	24	5440										
TNN	63923	broad.mit.edu	37	chr1	175052998	175052998	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tacaagctgcgatatggcccCatgacaggacaggaggtagc	13	10	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:175052998C>T	uc001gkl.1	+	5	1274	c.1161C>T	c.(1159-1161)CCC>CCT	p.P387P	TNN_uc010pmx.1_Silent_p.P387P	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	387	Fibronectin type-III 2.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GATATGGCCCCATGACAGGAC	0.537													24	39	---	---	---	---	PASS	T	175052998	T	T	175052998	2	4	8	1	0	0	0	0	0	0	0	1	16320	581	21	3		3	TNN	1	175052998	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	3299480	175052998	74197623	25	5441										
TNR	7143	broad.mit.edu	37	chr1	175372563	175372563	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttgggcaccggagttcggaaCagtcatccccgctgtactcg	12	13	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:175372563C>T	uc001gkp.1	-	2	770	c.689G>A	c.(688-690)TGT>TAT	p.C230Y	TNR_uc009wwu.1_Missense_Mutation_p.C230Y|TNR_uc010pmz.1_Missense_Mutation_p.C230Y	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	230	Cys-rich.|EGF-like 2.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GAGTTCGGAACAGTCATCCCC	0.632													38	78	---	---	---	---	PASS	T	175372563	T	T	175372563	3	4	8	1	0	0	0	0	1	0	0	0	16335	478	17	3	3467	3	TNR	1	175372563	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	319565	175372563	73878058	26	5442										
ABL2	27	broad.mit.edu	37	chr1	179078459	179078459	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agctgaagaagccccccttcCtatccctggtgaagcatgtc	9	14	0	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:179078459C>A	uc001gmj.3	-	12	2230	c.1943G>T	c.(1942-1944)AGG>ATG	p.R648M	ABL2_uc010pnf.1_Missense_Mutation_p.R648M|ABL2_uc010png.1_Missense_Mutation_p.R627M|ABL2_uc010pnh.1_Missense_Mutation_p.R627M|ABL2_uc001gmg.3_Missense_Mutation_p.R633M|ABL2_uc001gmi.3_Missense_Mutation_p.R633M|ABL2_uc001gmh.3_Missense_Mutation_p.R612M|ABL2_uc010pne.1_Missense_Mutation_p.R612M	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	648					axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	GCCCCCCTTCCTATCCCTGGT	0.537			T	ETV6	AML								9	165	---	---	---	---	PASS	A	179078459	A	A	179078459	3	1	8	1	0	0	0	0	1	0	0	0	93	681	24	3	1609	3	ABL2	1	179078459	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	3705896	179078459	70172162	27	5443										
CACNA1E	777	broad.mit.edu	37	chr1	181740495	181740495	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acaacaacttccggagtttcTttgggtccctaatgctactc	7	12	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:181740495T>C	uc001gow.2	+	36	5113	c.4948T>C	c.(4948-4950)TTT>CTT	p.F1650L	CACNA1E_uc009wxs.2_Missense_Mutation_p.F1538L|CACNA1E_uc001gox.1_Missense_Mutation_p.F876L|CACNA1E_uc009wxt.2_Missense_Mutation_p.F876L	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1650	Extracellular (Potential).|IV.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CCGGAGTTTCTTTGGGTCCCT	0.473													3	12	---	---	---	---	PASS	C	181740495	C	C	181740495	3	2	8	1	0	0	0	0	1	0	0	0	2542	1609	56	5	5090	5	CACNA1E	1	181740495	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	2662036	181740495	67510126	28	5444										
KIF21B	23046	broad.mit.edu	37	chr1	200946364	200946364	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	taagctcccagatgcggacgGcattgcccgaggcggcgtac	14	13	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:200946364G>A	uc001gvs.1	-	31	4618	c.4301C>T	c.(4300-4302)GCC>GTC	p.A1434V	KIF21B_uc001gvr.1_Missense_Mutation_p.A1421V|KIF21B_uc009wzl.1_Missense_Mutation_p.A1434V|KIF21B_uc010ppn.1_Missense_Mutation_p.A1421V	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	1434	WD 3.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						GATGCGGACGGCATTGCCCGA	0.632													29	79	---	---	---	---	PASS	A	200946364	A	A	200946364	3	1	8	1	0	0	0	0	1	0	0	0	8289	1203	42	3	632	3	KIF21B	1	200946364	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	19205869	200946364	48304257	29	5445										
PPP1R12B	4660	broad.mit.edu	37	chr1	202400696	202400696	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctagtagctccagctcagagGaggaggaaggtgaagatgaa	15	6	1	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:202400696G>T	uc001gya.1	+	8	1234	c.1090G>T	c.(1090-1092)GAG>TAG	p.E364*	PPP1R12B_uc001gxy.2_Nonsense_Mutation_p.E364*|PPP1R12B_uc009xad.1_Nonsense_Mutation_p.E170*|PPP1R12B_uc009xae.1_Nonsense_Mutation_p.E364*|PPP1R12B_uc001gxz.1_Nonsense_Mutation_p.E364*	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	364	Glu-rich.				regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			CAGCTCAGAGGAGGAGGAAGG	0.418													69	88	---	---	---	---	PASS	T	202400696	T	T	202400696	4	4	8	1	0	0	0	0	0	1	0	0	12355	1175	41	2	1120	2	PPP1R12B	1	202400696	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1454332	202400696	46849925	30	5446										
SPATA17	128153	broad.mit.edu	37	chr1	218036154	218036154	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccatcatttgagctcttctcAaagtatggaaaattatattc	5	8	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:218036154A>G	uc001hlh.1	+	10	1070	c.1044A>G	c.(1042-1044)TCA>TCG	p.S348S	SPATA17_uc001hli.2_Silent_p.S348S	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	348						cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		AGCTCTTCTCAAAGTATGGAA	0.284													43	52	---	---	---	---	PASS	G	218036154	G	G	218036154	2	3	8	1	0	0	0	0	0	0	0	1	15001	117	5	5		5	SPATA17	1	218036154	Silent	SNP	A	TCGA-18-3414-01A-01D-0983-08	15635458	218036154	31214467	31	5447										
OBSCN	84033	broad.mit.edu	37	chr1	228456387	228456387	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gagttccagctcgaaagtgcGcgtggaggccgtgggctgca	17	10	0	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:228456387G>T	uc009xez.1	+	17	5062	c.5018G>T	c.(5017-5019)CGC>CTC	p.R1673L	OBSCN_uc001hsn.2_Missense_Mutation_p.R1673L|OBSCN_uc001hso.2_Missense_Mutation_p.R119L	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1673	Ig-like 17.			RV -> HM (in Ref. 1; CAC85750).	apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TCGAAAGTGCGCGTGGAGGCC	0.687													41	44	---	---	---	---	PASS	T	228456387	T	T	228456387	3	4	8	1	0	0	0	0	1	0	0	0	10812	1087	38	1	5080	1	OBSCN	1	228456387	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	10420233	228456387	20794234	32	5448										
NUP133	55746	broad.mit.edu	37	chr1	229596457	229596457	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgctgagaaatgggctgagaTaataatttgcctcgctttcc	10	8	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:229596457T>A	uc001htn.2	-	20	2837	c.2745A>T	c.(2743-2745)TTA>TTT	p.L915F		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	915					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				TGGGCTGAGATAATAATTTGC	0.348													22	51	---	---	---	---	PASS	A	229596457	A	A	229596457	3	1	8	1	0	0	0	0	1	0	0	0	10754	1403	49	5	753	5	NUP133	1	229596457	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	1140070	229596457	19654164	33	5449										
TAF5L	27097	broad.mit.edu	37	chr1	229730434	229730434	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tggcctgtgaaaagcctcacCgagttcccctgctgagcgct	11	14	1	2	rs148664199		TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:229730434C>T	uc001htq.2	-	5	1546	c.1380G>A	c.(1378-1380)TCG>TCA	p.S460S		NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	460	WD 4.				histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				AAAGCCTCACCGAGTTCCCCT	0.582													21	113	---	---	---	---	PASS	T	229730434	T	T	229730434	2	4	8	1	0	0	0	0	0	0	0	1	15526	639	23	1		1	TAF5L	1	229730434	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	133977	229730434	19520187	34	5450										
LYST	1130	broad.mit.edu	37	chr1	235840490	235840490	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	actttgtacatagcataaccTgaaagaaaaaagacatgaat	6	6	0	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:235840490T>A	uc001hxj.2	-	50	11116	c.10941_splice	c.e50-1	p.R3647_splice	LYST_uc001hxi.2_Splice_Site_p.R871_splice	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator						defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TAGCATAACCTGAAAGAAAAA	0.363									Chediak-Higashi_syndrome				21	23	---	---	---	---	PASS	A	235840490	A	A	235840490	5	1	8	1	0	0	0	0	0	0	1	0	9128	1594	55	5	482	5	LYST	1	235840490	Splice_Site	SNP	T	TCGA-18-3414-01A-01D-0983-08	6110056	235840490	13410131	35	5451										
GPR137B	7107	broad.mit.edu	37	chr1	236343287	236343287	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cattttctcagaacaagagcGtccattcctttgattatgac	6	10	1	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:236343287G>A	uc001hxq.2	+	4	887	c.796G>A	c.(796-798)GTC>ATC	p.V266I	GPR137B_uc001hxr.1_Missense_Mutation_p.V48I|GPR137B_uc009xge.2_RNA	NM_003272	NP_003263	O60478	G137B_HUMAN	G protein-coupled receptor 137B	266	Extracellular (Potential).					integral to plasma membrane|membrane fraction					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.197)|Prostate(94;0.219)|Acute lymphoblastic leukemia(190;0.226)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			GAACAAGAGCGTCCATTCCTT	0.468													20	71	---	---	---	---	PASS	A	236343287	A	A	236343287	3	1	8	1	0	0	0	0	1	0	0	0	6646	1145	40	1	810	1	GPR137B	1	236343287	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	502797	236343287	12907334	36	5452										
HNRNPU	3192	broad.mit.edu	37	chr1	245020153	245020153	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gccatttgcttcttaaaaccTgccacctatattcaaaagtt	4	11	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:245020153T>A	uc001iaz.1	-	9	1838	c.1620A>T	c.(1618-1620)GCA>GCT	p.A540A	HNRNPU_uc001iaw.1_RNA|HNRNPU_uc001iax.1_RNA|HNRNPU_uc001iay.1_Silent_p.A264A|HNRNPU_uc001iba.1_Silent_p.A521A|HNRNPU_uc001ibb.1_Silent_p.A228A	NM_031844	NP_114032	Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U	540					CRD-mediated mRNA stabilization	catalytic step 2 spliceosome|cell surface|CRD-mediated mRNA stability complex|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	ATP binding|DNA binding|protein binding|RNA binding				0	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			TCTTAAAACCTGCCACCTATA	0.363													34	70	---	---	---	---	PASS	A	245020153	A	A	245020153	2	1	8	1	0	0	0	0	0	0	0	1	7273	1567	55	5		5	HNRNPU	1	245020153	Silent	SNP	T	TCGA-18-3414-01A-01D-0983-08	8676866	245020153	4230468	37	5453										
AHCTF1	25909	broad.mit.edu	37	chr1	247050612	247050612	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aaagattcaatgggagtgtcTgttttgttgggaaaggaata	13	2	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:247050612T>C	uc001ibu.1	-	19	2380	c.2373A>G	c.(2371-2373)ACA>ACG	p.T791T	AHCTF1_uc001ibv.1_Silent_p.T800T|AHCTF1_uc009xgs.1_5'UTR	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	791	Necessary for cytoplasmic localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			TGGGAGTGTCTGTTTTGTTGG	0.353													44	40	---	---	---	---	PASS	C	247050612	C	C	247050612	2	2	8	1	0	0	0	0	0	0	0	1	408	1567	55	5		5	AHCTF1	1	247050612	Silent	SNP	T	TCGA-18-3414-01A-01D-0983-08	2030459	247050612	2200009	38	5454										
OR2W5	441932	broad.mit.edu	37	chr1	247654714	247654714	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gagaagaccatcacctaccaCggctgtgtggcccaactcta	9	14	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:247654714C>T	uc001icz.1	+	1	285	c.285C>T	c.(283-285)CAC>CAT	p.H95H		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	95					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TCACCTACCACGGCTGTGTGG	0.557													42	36	---	---	---	---	PASS	T	247654714	T	T	247654714	2	4	8	1	0	0	0	0	0	0	0	1	11034	535	19	1		1	OR2W5	1	247654714	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	604102	247654714	1595907	39	5455										
OR2G2	81470	broad.mit.edu	37	chr1	247752503	247752503	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caagtttgtttctctcttctAcactgtggtaacccgcatgc	7	12	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:247752503A>T	uc010pyy.1	+	1	842	c.842A>T	c.(841-843)TAC>TTC	p.Y281F		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	281	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TCTCTCTTCTACACTGTGGTA	0.358													72	100	---	---	---	---	PASS	T	247752503	T	T	247752503	3	4	8	1	0	0	0	0	1	0	0	0	10998	391	14	5	844	5	OR2G2	1	247752503	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	97789	247752503	1498118	40	5456										
OR2L8	391190	broad.mit.edu	37	chr1	248112725	248112725	+	Missense_Mutation	SNP	T	A	A													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aatggtgactctggcctgcaTggacacctgggtctatgagg							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:248112725T>A	uc001idt.1	+	1	566	c.566T>A	c.(565-567)ATG>AAG	p.M189K	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			CTGGCCTGCATGGACACCTGG	0.468													16	33	---	---	---	---	PASS	A	248112725	A	A	248112725	3	1	8	1	0	0	0	0	1	0	0	0	11009	1464	51	5	568	5	OR2L8	1	248112725	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	360222	248112725	1137896	41	5457	209	2								
OR2L8	391190	broad.mit.edu	37	chr1	248112726	248112726	+	Missense_Mutation	SNP	G	T	T													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atggtgactctggcctgcatGgacacctgggtctatgaggg							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr1:248112726G>T	uc001idt.1	+	1	567	c.567G>T	c.(565-567)ATG>ATT	p.M189I	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TGGCCTGCATGGACACCTGGG	0.473													16	32	---	---	---	---	PASS	T	248112726	T	T	248112726	3	4	8	1	0	0	0	0	1	0	0	0	11009	1348	47	3	569	3	OR2L8	1	248112726	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1	248112726	1137895	42	5458	209	2								
DNMT3A	1788	broad.mit.edu	37	chr2	25467478	25467478	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agatggtgcagtaggactggTagccgtcgtcgtcgtactgg	16	8	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:25467478T>C	uc002rgc.2	-	14	1855	c.1598A>G	c.(1597-1599)TAC>TGC	p.Y533C	DNMT3A_uc002rgd.2_Missense_Mutation_p.Y533C|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Missense_Mutation_p.Y344C	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	533	Interaction with the PRC2/EED-EZH2 complex (By similarity).|ADD.				regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTAGGACTGGTAGCCGTCGTC	0.602			Mis|F|N|S		AML								15	3	---	---	---	---	PASS	C	25467478	C	C	25467478	3	2	8	1	0	0	0	0	1	0	0	0	4676	1638	57	5	1180	5	DNMT3A	2	25467478	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08		25467478	217731895	43	5459										
LTBP1	4052	broad.mit.edu	37	chr2	33525541	33525541	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttgatgaatgtcagcaagggAatctatgtgtaaacgggcag	13	5	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:33525541A>G	uc002ros.2	+	21	3262	c.3262A>G	c.(3262-3264)AAT>GAT	p.N1088D	LTBP1_uc002rot.2_Missense_Mutation_p.N762D|LTBP1_uc002rou.2_Missense_Mutation_p.N761D|LTBP1_uc002rov.2_Missense_Mutation_p.N708D|LTBP1_uc010ymz.1_Missense_Mutation_p.N761D|LTBP1_uc010yna.1_Missense_Mutation_p.N708D|LTBP1_uc010ynb.1_Missense_Mutation_p.N27D	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1087	EGF-like 9; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				TCAGCAAGGGAATCTATGTGT	0.488													39	23	---	---	---	---	PASS	G	33525541	G	G	33525541	3	3	8	1	0	0	0	0	1	0	0	0	9073	246	9	5	3396	5	LTBP1	2	33525541	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	8058063	33525541	209673832	44	5460										
DYNC2LI1	51626	broad.mit.edu	37	chr2	44016793	44016793	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caaaagatatcgctcactttTgggaactcggtggaggaacc	11	9	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:44016793T>C	uc002rtk.2	+	5	349	c.253T>C	c.(253-255)TGG>CGG	p.W85R	DYNC2LI1_uc002rth.2_Missense_Mutation_p.W85R|DYNC2LI1_uc002rti.2_Missense_Mutation_p.W85R|DYNC2LI1_uc002rtj.2_Missense_Mutation_p.W85R|DYNC2LI1_uc002rtl.2_Missense_Mutation_p.W85R|DYNC2LI1_uc010ynz.1_5'UTR	NM_016008	NP_057092	Q8TCX1	DC2L1_HUMAN	dynein 2 light intermediate chain isoform 1	85						apical part of cell|axonemal dynein complex|cilium axoneme|cytoplasm|microtubule|motile primary cilium	motor activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CGCTCACTTTTGGGAACTCGG	0.378													34	13	---	---	---	---	PASS	C	44016793	C	C	44016793	3	2	8	1	0	0	0	0	1	0	0	0	4847	1812	63	5	271	5	DYNC2LI1	2	44016793	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	10491252	44016793	199182580	45	5461										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48808748	48808748	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttaaagagatacagcttgatCcatattgtaggctttctgaa	8	6	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:48808748C>T	uc010yol.1	+	1	1023	c.976C>T	c.(976-978)CCA>TCA	p.P326S	STON1_uc002rwo.3_Missense_Mutation_p.P326S|STON1_uc010fbm.2_Missense_Mutation_p.P326S|STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.P326S|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Missense_Mutation_p.P326S	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	326					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ACAGCTTGATCCATATTGTAG	0.378													7	265	---	---	---	---	PASS	T	48808748	T	T	48808748	3	4	8	1	0	0	0	0	1	0	0	0	15316	855	30	2	978	2	STON1-GTF2A1L	2	48808748	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	4791955	48808748	194390625	46	5462										
FSHR	2492	broad.mit.edu	37	chr2	49210251	49210251	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acttacagctcatctagttgGgttccattgaatgcacagtt	8	9	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:49210251G>T	uc002rww.2	-	7	653	c.579C>A	c.(577-579)ACC>ACA	p.T193T	FSHR_uc002rwx.2_Silent_p.T193T|FSHR_uc010fbn.2_Silent_p.T167T|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	193	LRR 7.|Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	CATCTAGTTGGGTTCCATTGA	0.368									Gonadal_Dysgenesis_46_XX				11	72	---	---	---	---	PASS	T	49210251	T	T	49210251	2	4	8	1	0	0	0	0	0	0	0	1	6073	1219	43	3		3	FSHR	2	49210251	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	401503	49210251	193989122	47	5463										
CCDC88A	55704	broad.mit.edu	37	chr2	55576722	55576722	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tttacaatccaacaactgctCagtcttttcctcccttaaat	2	13	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:55576722C>T	uc002ryv.2	-	9	1656	c.814G>A	c.(814-816)GAG>AAG	p.E272K	CCDC88A_uc010yoz.1_Missense_Mutation_p.E272K|CCDC88A_uc010ypa.1_Missense_Mutation_p.E272K|CCDC88A_uc010ypb.1_Missense_Mutation_p.E174K	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	272	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						AACAACTGCTCAGTCTTTTCC	0.328													11	23	---	---	---	---	PASS	T	55576722	T	T	55576722	3	4	8	1	0	0	0	0	1	0	0	0	2863	835	29	2	4897	2	CCDC88A	2	55576722	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	6366471	55576722	187622651	48	5464										
CCDC85A	114800	broad.mit.edu	37	chr2	56603032	56603032	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gcttcagtggacatgccacaCcttcccagcagcctgaacct	8	16	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:56603032C>G	uc002rzn.2	+	5	2036	c.1534C>G	c.(1534-1536)CCT>GCT	p.P512A		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	512										breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			ACATGCCACACCTTCCCAGCA	0.473													21	50	---	---	---	---	PASS	G	56603032	G	G	56603032	3	3	8	1	0	0	0	0	1	0	0	0	2859	507	18	4	1552	4	CCDC85A	2	56603032	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1026310	56603032	186596341	49	5465										
KIAA1841	84542	broad.mit.edu	37	chr2	61319611	61319611	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttctccagagataagacatgGgatgttcatgagtatttgaa	10	5	2	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:61319611G>T	uc002saw.3	+	11	1404	c.1101G>T	c.(1099-1101)TGG>TGT	p.W367C	KIAA1841_uc002sax.3_Missense_Mutation_p.W221C|KIAA1841_uc002say.2_Missense_Mutation_p.W367C	NM_001129993	NP_001123465	Q6NSI8	K1841_HUMAN	KIAA1841 protein isoform a	367											0			Epithelial(17;0.193)			ATAAGACATGGGATGTTCATG	0.284													8	384	---	---	---	---	PASS	T	61319611	T	T	61319611	3	4	8	1	0	0	0	0	1	0	0	0	8261	1241	43	3	1135	3	KIAA1841	2	61319611	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	4716579	61319611	181879762	50	5466										
USP34	9736	broad.mit.edu	37	chr2	61459593	61459593	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atatttttccttacctgtctCacaatttgattagggcactt	5	9	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:61459593C>T	uc002sbe.2	-	58	7129	c.7107G>A	c.(7105-7107)GTG>GTA	p.V2369V	USP34_uc002sbf.2_Silent_p.V519V	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2369					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TTACCTGTCTCACAATTTGAT	0.308													81	149	---	---	---	---	PASS	T	61459593	T	T	61459593	2	4	8	1	0	0	0	0	0	0	0	1	17062	813	29	2		2	USP34	2	61459593	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	139982	61459593	181739780	51	5467										
USP34	9736	broad.mit.edu	37	chr2	61459646	61459646	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cattggccaccagtcgtcatCagccatacgatctaaaaacc	6	14	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:61459646C>G	uc002sbe.2	-	58	7076	c.7054G>C	c.(7054-7056)GAT>CAT	p.D2352H	USP34_uc002sbf.2_Missense_Mutation_p.D502H	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2352					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			CAGTCGTCATCAGCCATACGA	0.308													69	152	---	---	---	---	PASS	G	61459646	G	G	61459646	3	3	8	1	0	0	0	0	1	0	0	0	17062	826	29	2	3678	2	USP34	2	61459646	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	53	61459646	181739727	52	5468										
APLF	200558	broad.mit.edu	37	chr2	68772369	68772369	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccatcctggtgatagtgattAtggaggtgtacaaatcgtgg	13	6	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:68772369A>T	uc002sep.2	+	8	1384	c.1211A>T	c.(1210-1212)TAT>TTT	p.Y404F	APLF_uc002seq.1_RNA|APLF_uc010fdf.2_Missense_Mutation_p.Y380F|APLF_uc002ser.1_Missense_Mutation_p.Y135F	NM_173545	NP_775816	Q8IW19	APLF_HUMAN	aprataxin and PNKP like factor	404					double-strand break repair|single strand break repair	cytosol|nucleus	3'-5' exonuclease activity|DNA-(apurinic or apyrimidinic site) lyase activity|endodeoxyribonuclease activity|metal ion binding|nucleotide binding|protein binding			ovary(2)	2						GATAGTGATTATGGAGGTGTA	0.413													21	38	---	---	---	---	PASS	T	68772369	T	T	68772369	3	4	8	1	0	0	0	0	1	0	0	0	776	449	16	5	1241	5	APLF	2	68772369	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	7312723	68772369	174427004	53	5469										
ARHGAP25	9938	broad.mit.edu	37	chr2	69046265	69046265	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgtctttcagggactcctcaGatccaaagagtgatgactat	9	9	3	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:69046265G>T	uc002seu.2	+	9	1375	c.1011G>T	c.(1009-1011)CAG>CAT	p.Q337H	ARHGAP25_uc010fdg.2_Missense_Mutation_p.Q338H|ARHGAP25_uc010yql.1_Missense_Mutation_p.Q298H|ARHGAP25_uc002sev.2_Missense_Mutation_p.Q331H|ARHGAP25_uc002sew.2_Missense_Mutation_p.Q330H|ARHGAP25_uc002sex.2_Missense_Mutation_p.Q331H|ARHGAP25_uc002sey.2_Missense_Mutation_p.Q64H	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	337	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						GGACTCCTCAGATCCAAAGAG	0.498													8	341	---	---	---	---	PASS	T	69046265	T	T	69046265	3	4	8	1	0	0	0	0	1	0	0	0	874	933	33	2	1088	2	ARHGAP25	2	69046265	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	273896	69046265	174153108	54	5470										
DCTN1	1639	broad.mit.edu	37	chr2	74593698	74593698	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctgccacctcctgcagcacaGccacgacccacgtcaagtgt	8	18	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:74593698G>A	uc002skx.2	-	22	2827	c.2516C>T	c.(2515-2517)GCT>GTT	p.A839V	DCTN1_uc002skt.1_5'Flank|DCTN1_uc002skv.2_Missense_Mutation_p.A705V|DCTN1_uc002sku.2_Missense_Mutation_p.A705V|DCTN1_uc002skw.1_Missense_Mutation_p.A815V|DCTN1_uc010ffd.2_Missense_Mutation_p.A819V|DCTN1_uc002sky.2_Missense_Mutation_p.A802V	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	839					cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						CTGCAGCACAGCCACGACCCA	0.582													53	136	---	---	---	---	PASS	A	74593698	A	A	74593698	3	1	8	1	0	0	0	0	1	0	0	0	4306	971	34	3	1364	3	DCTN1	2	74593698	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	5547433	74593698	168605675	55	5471										
TMEM150A	129303	broad.mit.edu	37	chr2	85826823	85826823	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgcagagacctggcatgatcCacctgggcccagagaagggc	14	12	0	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:85826823C>A	uc002spw.1	-	6	1120	c.399G>T	c.(397-399)GTG>GTT	p.V133V	TMEM150A_uc002spx.1_Silent_p.V49V|TMEM150A_uc002spz.1_Silent_p.V80V|TMEM150A_uc002sqa.1_Silent_p.V49V|TMEM150A_uc002spy.1_Silent_p.V133V	NM_001031738	NP_001026908	Q86TG1	T150A_HUMAN	transmembrane protein 150A isoform 1	133	Extracellular (Potential).					integral to membrane|plasma membrane					0						TGGCATGATCCACCTGGGCCC	0.607													5	59	---	---	---	---	PASS	A	85826823	A	A	85826823	2	1	8	1	0	0	0	0	0	0	0	1	16064	581	21	3		3	TMEM150A	2	85826823	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	11233125	85826823	157372550	56	5472										
EIF2AK3	9451	broad.mit.edu	37	chr2	88857340	88857340	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caaggagcgagacctctgtcTgagcactgtttttcctggaa	11	10	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:88857340T>C	uc002stc.3	-	17	3467	c.3265A>G	c.(3265-3267)AGA>GGA	p.R1089G		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	1089	Cytoplasmic (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						GACCTCTGTCTGAGCACTGTT	0.453													42	29	---	---	---	---	PASS	C	88857340	C	C	88857340	3	2	8	1	0	0	0	0	1	0	0	0	4998	1588	55	5	89	5	EIF2AK3	2	88857340	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	3030517	88857340	154342033	57	5473										
KIAA1310	55683	broad.mit.edu	37	chr2	97276805	97276805	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tttaccacattcttacccctCtggggccatccacagtaagc	6	15	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:97276805C>T	uc002swn.3	-	10	1303	c.1157G>A	c.(1156-1158)AGA>AAA	p.R386K	KIAA1310_uc002swh.3_Missense_Mutation_p.R274K|KIAA1310_uc002swi.3_Missense_Mutation_p.R287K|KIAA1310_uc002swj.3_RNA|KIAA1310_uc002swk.3_Missense_Mutation_p.R299K|KIAA1310_uc010fhz.2_Missense_Mutation_p.R180K|KIAA1310_uc002swl.3_Missense_Mutation_p.R287K|KIAA1310_uc002swm.3_RNA|KIAA1310_uc010yur.1_Missense_Mutation_p.R180K|KIAA1310_uc002swp.1_Missense_Mutation_p.R287K|KIAA1310_uc002swq.1_Missense_Mutation_p.R158K|KIAA1310_uc010fhy.1_Missense_Mutation_p.R287K	NM_001115016	NP_001108488	Q9P2N6	K1310_HUMAN	hypothetical protein LOC55683 isoform a	386											0						TCTTACCCCTCTGGGGCCATC	0.512													49	70	---	---	---	---	PASS	T	97276805	T	T	97276805	3	4	8	1	0	0	0	0	1	0	0	0	8222	913	32	2	1527	2	KIAA1310	2	97276805	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	8419465	97276805	145922568	58	5474										
MAP4K4	9448	broad.mit.edu	37	chr2	102452415	102452415	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttctcattcccagaaaccctCctccccggctgaagtcaaaa	5	16	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:102452415C>T	uc002tbg.2	+	9	803	c.748C>T	c.(748-750)CCT>TCT	p.P250S	MAP4K4_uc002tbc.2_Missense_Mutation_p.P250S|MAP4K4_uc002tbd.2_Missense_Mutation_p.P250S|MAP4K4_uc002tbe.2_Missense_Mutation_p.P250S|MAP4K4_uc002tbf.2_Missense_Mutation_p.P250S|MAP4K4_uc010yvy.1_Missense_Mutation_p.P250S|MAP4K4_uc002tbh.2_Missense_Mutation_p.P250S|MAP4K4_uc002tbi.2_Intron|MAP4K4_uc010yvz.1_Missense_Mutation_p.P230S|MAP4K4_uc010fiw.1_Missense_Mutation_p.P92S|MAP4K4_uc002tbj.1_Missense_Mutation_p.P146S	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	250	Protein kinase.				intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CAGAAACCCTCCTCCCCGGCT	0.408													6	22	---	---	---	---	PASS	T	102452415	T	T	102452415	3	4	8	1	0	0	0	0	1	0	0	0	9262	855	30	2	782	2	MAP4K4	2	102452415	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	5175610	102452415	140746958	59	5475										
SLC9A4	389015	broad.mit.edu	37	chr2	103142717	103142717	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctttctacttgctacccacaGgctggcaccaagaatatccg	7	14	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:103142717G>A	uc002tbz.3	+	11	2408	c.1951_splice	c.e11-1	p.A651_splice		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen						regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						GCTACCCACAGGCTGGCACCA	0.418													36	72	---	---	---	---	PASS	A	103142717	A	A	103142717	5	1	8	1	0	0	0	0	0	0	1	0	14716	1014	35	3	1992	3	SLC9A4	2	103142717	Splice_Site	SNP	G	TCGA-18-3414-01A-01D-0983-08	690302	103142717	140056656	60	5476										
RANBP2	5903	broad.mit.edu	37	chr2	109384025	109384025	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caaaactctacagatatgatAaagatgttggtcaatggaaa	8	5	2	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:109384025A>G	uc002tem.3	+	20	7156	c.7030A>G	c.(7030-7032)AAA>GAA	p.K2344E		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2344	RanBD1 3.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						CAGATATGATAAAGATGTTGG	0.363													109	145	---	---	---	---	PASS	G	109384025	G	G	109384025	3	3	8	1	0	0	0	0	1	0	0	0	13028	363	13	5	7108	5	RANBP2	2	109384025	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	6241308	109384025	133815348	61	5477										
DPP10	57628	broad.mit.edu	37	chr2	116572495	116572495	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggaagtggattccagggtctGaaaattttgcaggagattca	13	5	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:116572495G>A	uc002tla.1	+	20	2284	c.1827G>A	c.(1825-1827)CTG>CTA	p.L609L	DPP10_uc002tlb.1_Silent_p.L559L|DPP10_uc002tlc.1_Silent_p.L605L|DPP10_uc002tle.2_Silent_p.L613L|DPP10_uc002tlf.1_Silent_p.L602L	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	609	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TCCAGGGTCTGAAAATTTTGC	0.383													15	59	---	---	---	---	PASS	A	116572495	A	A	116572495	2	1	8	1	0	0	0	0	0	0	0	1	4727	1277	45	2		2	DPP10	2	116572495	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	7188470	116572495	126626878	62	5478										
CNTNAP5	129684	broad.mit.edu	37	chr2	125671847	125671847	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aacacagtgagcgagtgtaaAcgggaatatttcatctgaga	11	6	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:125671847A>C	uc002tno.2	+	24	4267	c.3903A>C	c.(3901-3903)AAA>AAC	p.K1301N	CNTNAP5_uc010flu.2_Missense_Mutation_p.K1302N	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	1301	Cytoplasmic (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GCGAGTGTAAACGGGAATATT	0.408													17	33	---	---	---	---	PASS	C	125671847	C	C	125671847	3	2	8	1	0	0	0	0	1	0	0	0	3650	40	2	5	3997	5	CNTNAP5	2	125671847	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	9099352	125671847	117527526	63	5479										
POLR2D	5433	broad.mit.edu	37	chr2	128610593	128610593	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gacttctgagagctcctgttCgtcctctgcactctcattct	7	14	4	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:128610593C>A	uc002tpj.2	-	2	215	c.160G>T	c.(160-162)GAA>TAA	p.E54*	POLR2D_uc002tpk.2_Nonsense_Mutation_p.E54*	NM_004805	NP_004796	O15514	RPB4_HUMAN	DNA directed RNA polymerase II polypeptide D	54					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA-directed RNA polymerase activity|nucleotide binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0675)		AGCTCCTGTTCGTCCTCTGCA	0.418													9	68	---	---	---	---	PASS	A	128610593	A	A	128610593	4	1	8	1	0	0	0	0	0	1	0	0	12217	893	31	2	280	2	POLR2D	2	128610593	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	2938746	128610593	114588780	64	5480										
SAP130	79595	broad.mit.edu	37	chr2	128707902	128707902	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tggggaggcaccaggtggtaGgtcacttgtaggcatggaca	17	7	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:128707902G>A	uc002tpp.2	-	16	2608	c.2476C>T	c.(2476-2478)CTA>TTA	p.L826L	SAP130_uc002tpn.2_Silent_p.L586L|SAP130_uc002tpo.2_Silent_p.L606L|SAP130_uc010fmd.2_Silent_p.L861L	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	826	Pro-rich.				histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		CCAGGTGGTAGGTCACTTGTA	0.488													37	47	---	---	---	---	PASS	A	128707902	A	A	128707902	2	1	8	1	0	0	0	0	0	0	0	1	13831	991	35	3		3	SAP130	2	128707902	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	97309	128707902	114491471	65	5481										
SAP130	79595	broad.mit.edu	37	chr2	128747236	128747236	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctgagtgaattccctgtgtgCcaagtggtgcaggctgtatc	13	9	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:128747236C>G	uc002tpp.2	-	13	1892	c.1760G>C	c.(1759-1761)GGC>GCC	p.G587A	SAP130_uc002tpn.2_Missense_Mutation_p.G348A|SAP130_uc002tpo.2_Missense_Mutation_p.G332A|SAP130_uc010fmd.2_Missense_Mutation_p.G587A|SAP130_uc002tpq.1_Missense_Mutation_p.G560A	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	587					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		TCCCTGTGTGCCAAGTGGTGC	0.567													22	42	---	---	---	---	PASS	G	128747236	G	G	128747236	3	3	8	1	0	0	0	0	1	0	0	0	13831	739	26	4	1527	4	SAP130	2	128747236	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	39334	128747236	114452137	66	5482										
UGGT1	56886	broad.mit.edu	37	chr2	128913974	128913974	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acctttgttcaggaatgtccTccaaggaaatctatggtaac	8	9	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:128913974T>A	uc002tps.2	+	21	2423	c.2245T>A	c.(2245-2247)TCC>ACC	p.S749T	UGGT1_uc010fme.1_Missense_Mutation_p.S624T|UGGT1_uc002tpr.2_Missense_Mutation_p.S725T	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	749					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						AGGAATGTCCTCCAAGGAAAT	0.299													14	28	---	---	---	---	PASS	A	128913974	A	A	128913974	3	1	8	1	0	0	0	0	1	0	0	0	16938	1551	54	5	2327	5	UGGT1	2	128913974	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	166738	128913974	114285399	67	5483										
MGAT5	4249	broad.mit.edu	37	chr2	135180449	135180449	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctgttgacctcaacaatcagGaggaagtagaggatgcagtg	13	7	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:135180449G>C	uc002ttv.1	+	13	1898	c.1753G>C	c.(1753-1755)GAG>CAG	p.E585Q		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	585	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		CAACAATCAGGAGGAAGTAGA	0.433													6	62	---	---	---	---	PASS	C	135180449	C	C	135180449	3	2	8	1	0	0	0	0	1	0	0	0	9548	1175	41	2	1803	2	MGAT5	2	135180449	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	6266475	135180449	108018924	68	5484										
LRP1B	53353	broad.mit.edu	37	chr2	141072507	141072507	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gacaatgaaatatttacctaGaactgatggtacgcaagttc	8	7	0	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:141072507G>T	uc002tvj.1	-	83	13774	c.12802C>A	c.(12802-12804)CTA>ATA	p.L4268I		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4268	Extracellular (Potential).|EGF-like 11.				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)		TATTTACCTAGAACTGATGGT	0.353										TSP Lung(27;0.18)			15	22	---	---	---	---	PASS	T	141072507	T	T	141072507	3	4	8	1	0	0	0	0	1	0	0	0	8955	933	33	2	1033	2	LRP1B	2	141072507	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	5892058	141072507	102126866	69	5485										
LRP1B	53353	broad.mit.edu	37	chr2	141081480	141081480	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acaatctagttgtttataacGatgagatatcaaaacacctt	5	7	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:141081480G>A	uc002tvj.1	-	81	13468	c.12496C>T	c.(12496-12498)CGT>TGT	p.R4166C		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4166	Extracellular (Potential).				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)		TGTTTATAACGATGAGATATC	0.244										TSP Lung(27;0.18)			6	13	---	---	---	---	PASS	A	141081480	A	A	141081480	3	1	8	1	0	0	0	0	1	0	0	0	8955	1058	37	2	1347	2	LRP1B	2	141081480	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	8973	141081480	102117893	70	5486										
LRP1B	53353	broad.mit.edu	37	chr2	141533709	141533709	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gactttcatatgaactacccCagaagtcttattccgtagga	7	10	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:141533709C>T	uc002tvj.1	-	33	6430	c.5458G>A	c.(5458-5460)GGG>AGG	p.G1820R		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1820	Extracellular (Potential).|LDL-receptor class B 18.				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)		TGAACTACCCCAGAAGTCTTA	0.418										TSP Lung(27;0.18)			7	32	---	---	---	---	PASS	T	141533709	T	T	141533709	3	4	8	1	0	0	0	0	1	0	0	0	8955	594	21	3	8577	3	LRP1B	2	141533709	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	452229	141533709	101665664	71	5487										
NEB	4703	broad.mit.edu	37	chr2	152427088	152427088	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gacatcacagcccgccttcaTttcatcccagccctcacggt	6	18	4	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:152427088T>C	uc010fnx.2	-	80	12129	c.11938A>G	c.(11938-11940)ATG>GTG	p.M3980V	NEB_uc002txr.2_Missense_Mutation_p.M403V	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3980					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CCCGCCTTCATTTCATCCCAG	0.483													5	9	---	---	---	---	PASS	C	152427088	C	C	152427088	3	2	8	1	0	0	0	0	1	0	0	0	10302	1493	52	5	8945	5	NEB	2	152427088	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	10893379	152427088	90772285	72	5488										
SCN2A	6326	broad.mit.edu	37	chr2	166210793	166210793	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	taacgaaatgaataatctccAgattgctgtgggaaggatgc	11	6	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:166210793A>G	uc002udc.2	+	17	3301	c.3011A>G	c.(3010-3012)CAG>CGG	p.Q1004R	SCN2A_uc002udd.2_Missense_Mutation_p.Q1004R|SCN2A_uc002ude.2_Missense_Mutation_p.Q1004R	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1004	II.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	AATAATCTCCAGATTGCTGTG	0.383													27	75	---	---	---	---	PASS	G	166210793	G	G	166210793	3	3	8	1	0	0	0	0	1	0	0	0	13916	188	7	5	3169	5	SCN2A	2	166210793	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	13783705	166210793	76988580	73	5489										
SCN1A	6323	broad.mit.edu	37	chr2	166870332	166870332	+	Missense_Mutation	SNP	C	A	A													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcaactattcggaaacacgtCcttctcaggttccaccattg							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:166870332C>A	uc010zcz.1	-	18	3612	c.3594G>T	c.(3592-3594)AGG>AGT	p.R1198S	SCN1A_uc002udo.3_Missense_Mutation_p.R1078S|SCN1A_uc010fpk.2_Missense_Mutation_p.R1050S	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1209	III.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GGAAACACGTCCTTCTCAGGT	0.398													13	19	---	---	---	---	PASS	A	166870332	A	A	166870332	3	1	8	1	0	0	0	0	1	0	0	0	13914	854	30	2	2438	2	SCN1A	2	166870332	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	659539	166870332	76329041	74	5490	210	2								
SCN1A	6323	broad.mit.edu	37	chr2	166870333	166870333	+	Missense_Mutation	SNP	C	T	T													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caactattcggaaacacgtcCttctcaggttccaccattgt							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:166870333C>T	uc010zcz.1	-	18	3611	c.3593G>A	c.(3592-3594)AGG>AAG	p.R1198K	SCN1A_uc002udo.3_Missense_Mutation_p.R1078K|SCN1A_uc010fpk.2_Missense_Mutation_p.R1050K	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1209	III.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GAAACACGTCCTTCTCAGGTT	0.398													13	20	---	---	---	---	PASS	T	166870333	T	T	166870333	3	4	8	1	0	0	0	0	1	0	0	0	13914	681	24	3	2439	3	SCN1A	2	166870333	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1	166870333	76329040	75	5491	210	2								
TTN	7273	broad.mit.edu	37	chr2	179605328	179605328	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttgaagactgtggataattcCcttcaggttcagctaataaa	8	7	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:179605328C>A	uc010zfh.1	-	46	12343	c.12119G>T	c.(12118-12120)GGG>GTG	p.G4040V	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.G3973V|TTN_uc010zfj.1_Missense_Mutation_p.G3848V|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TGGATAATTCCCTTCAGGTTC	0.388													15	71	---	---	---	---	PASS	A	179605328	A	A	179605328	3	1	8	1	0	0	0	0	1	0	0	0	16732	623	22	3	92157	3	TTN	2	179605328	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	12734995	179605328	63594045	76	5492										
TTN	7273	broad.mit.edu	37	chr2	179665403	179665403	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gaacgaagttgggtggtgctGtctcagctgcggggacaaga	17	7	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:179665403G>A	uc002und.2	-	4	527	c.302C>T	c.(301-303)ACA>ATA	p.T101I	TTN_uc010zfg.1_Missense_Mutation_p.T101I|TTN_uc010zfh.1_Missense_Mutation_p.T101I|TTN_uc010zfi.1_Missense_Mutation_p.T101I|TTN_uc010zfj.1_Missense_Mutation_p.T101I|TTN_uc002unb.2_Missense_Mutation_p.T101I			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	101							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)			GGGTGGTGCTGTCTCAGCTGC	0.498													20	40	---	---	---	---	PASS	A	179665403	A	A	179665403	3	1	8	1	0	0	0	0	1	0	0	0	16732	1377	48	3	111122	3	TTN	2	179665403	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	60075	179665403	63533970	77	5493										
COL3A1	1281	broad.mit.edu	37	chr2	189876412	189876412	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcgaacacgcaaggctgtgaGactacctattgtagatattg	10	8	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:189876412G>T	uc002uqj.1	+	51	4430	c.4313G>T	c.(4312-4314)AGA>ATA	p.R1438I		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	1438	Fibrillar collagen NC1.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	AAGGCTGTGAGACTACCTATT	0.393													9	30	---	---	---	---	PASS	T	189876412	T	T	189876412	3	4	8	1	0	0	0	0	1	0	0	0	3688	942	33	2	4515	2	COL3A1	2	189876412	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	10211009	189876412	53322961	78	5494										
GLS	2744	broad.mit.edu	37	chr2	191795262	191795262	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctcctcctctggataagatgGgcaacagtgttaagggaatt	11	8	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:191795262G>T	uc002usf.2	+	13	1789	c.1525G>T	c.(1525-1527)GGC>TGC	p.G509C	GLS_uc002use.2_Missense_Mutation_p.G509C|GLS_uc002usg.1_Missense_Mutation_p.G170C|GLS_uc002ush.2_Missense_Mutation_p.G170C|GLS_uc010zgi.1_Missense_Mutation_p.G80C|GLS_uc010zgj.1_Missense_Mutation_p.G14C	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	509					cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GGATAAGATGGGCAACAGTGT	0.398													16	52	---	---	---	---	PASS	T	191795262	T	T	191795262	3	4	8	1	0	0	0	0	1	0	0	0	6463	1232	43	3	1575	3	GLS	2	191795262	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1918850	191795262	51404111	79	5495										
TRAK2	66008	broad.mit.edu	37	chr2	202250994	202250994	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gcaggaagatccctgttactGgcttggatgttgaaagtttc	12	7	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:202250994G>T	uc002uyb.3	-	14	2356	c.1910C>A	c.(1909-1911)CCA>CAA	p.P637Q		NM_015049	NP_055864	O60296	TRAK2_HUMAN	trafficking protein, kinesin binding 2	637				Missing (in Ref. 2).		early endosome|plasma membrane	GABA receptor binding				0						CCCTGTTACTGGCTTGGATGT	0.418													4	26	---	---	---	---	PASS	T	202250994	T	T	202250994	3	4	8	1	0	0	0	0	1	0	0	0	16447	1348	47	3	846	3	TRAK2	2	202250994	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	10455732	202250994	40948379	80	5496										
ABCA12	26154	broad.mit.edu	37	chr2	215843761	215843761	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgcatttgcatttaaatttgGactctaagagagaaaagtag	9	4	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:215843761G>A	uc002vew.2	-	32	4964	c.4744C>T	c.(4744-4746)CCA>TCA	p.P1582S	ABCA12_uc002vev.2_Missense_Mutation_p.P1264S|ABCA12_uc010zjn.1_Missense_Mutation_p.P509S	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1582					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TTTAAATTTGGACTCTAAGAG	0.458													12	38	---	---	---	---	PASS	A	215843761	A	A	215843761	3	1	8	1	0	0	0	0	1	0	0	0	30	1174	41	2	3131	2	ABCA12	2	215843761	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	13592767	215843761	27355612	81	5497										
RHBDD1	84236	broad.mit.edu	37	chr2	227773574	227773574	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgttggttacccaggacggcAatactactttaatagttcag	9	8	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:227773574A>C	uc002voi.2	+	5	813	c.692A>C	c.(691-693)CAA>CCA	p.Q231P	RHBDD1_uc010fxc.2_Missense_Mutation_p.Q231P|RHBDD1_uc002voj.2_Missense_Mutation_p.Q62P	NM_032276	NP_115652	Q8TEB9	RHBD1_HUMAN	rhomboid domain containing 1	231						integral to membrane	serine-type endopeptidase activity			ovary(1)	1		Renal(207;0.023)|all_lung(227;0.13)|Esophageal squamous(248;0.23)|all_hematologic(139;0.248)		Epithelial(121;1.47e-11)|all cancers(144;1.52e-08)|Lung(261;0.0128)|LUSC - Lung squamous cell carcinoma(224;0.0175)		CCAGGACGGCAATACTACTTT	0.318													12	28	---	---	---	---	PASS	C	227773574	C	C	227773574	3	2	8	1	0	0	0	0	1	0	0	0	13316	130	5	5	706	5	RHBDD1	2	227773574	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	11929813	227773574	15425799	82	5498										
SPHKAP	80309	broad.mit.edu	37	chr2	228884383	228884383	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	catcctgcagcacggattctGctaaatttgtagcatacttg	8	10	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:228884383G>T	uc002vpq.2	-	7	1234	c.1187C>A	c.(1186-1188)GCA>GAA	p.A396E	SPHKAP_uc002vpp.2_Missense_Mutation_p.A396E|SPHKAP_uc010zlx.1_Missense_Mutation_p.A396E	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	396						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CACGGATTCTGCTAAATTTGT	0.448													19	37	---	---	---	---	PASS	T	228884383	T	T	228884383	3	4	8	1	0	0	0	0	1	0	0	0	15047	1319	46	3	3939	3	SPHKAP	2	228884383	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1110809	228884383	14314990	83	5499										
SPHKAP	80309	broad.mit.edu	37	chr2	228996713	228996713	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	taccttcttacaggctgtgaTggagttccccgggccgcttc	11	13	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:228996713T>C	uc002vpq.2	-	2	168	c.121A>G	c.(121-123)ATC>GTC	p.I41V	SPHKAP_uc002vpp.2_Missense_Mutation_p.I41V|SPHKAP_uc010zlx.1_Missense_Mutation_p.I41V	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	41						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CAGGCTGTGATGGAGTTCCCC	0.473													12	28	---	---	---	---	PASS	C	228996713	C	C	228996713	3	2	8	1	0	0	0	0	1	0	0	0	15047	1464	51	5	5025	5	SPHKAP	2	228996713	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	112330	228996713	14202660	84	5500										
ALPP	250	broad.mit.edu	37	chr2	233245354	233245354	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tctctttgagcctggagacaTgaaatacgagatccaccgag	10	10	1	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:233245354T>G	uc002vsq.2	+	8	1052	c.887T>G	c.(886-888)ATG>AGG	p.M296R	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	296						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		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;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		CCTGGAGACATGAAATACGAG	0.627													4	36	---	---	---	---	PASS	G	233245354	G	G	233245354	3	3	8	1	0	0	0	0	1	0	0	0	548	1464	51	5	917	5	ALPP	2	233245354	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	4248641	233245354	9954019	85	5501										
UGT1A3	54659	broad.mit.edu	37	chr2	234638577	234638577	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgatggactaccccaggccaAtcatgcccaacatggtcttc	8	14	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:234638577A>G	uc002vuy.2	+	1	805	c.805A>G	c.(805-807)ATC>GTC	p.I269V	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Missense_Mutation_p.I269V	NM_019093	NP_061966	P35503	UD13_HUMAN	UDP glycosyltransferase 1 family, polypeptide A3	269					flavonoid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding			ovary(1)	1		Breast(86;0.000765)|all_lung(227;0.00266)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0456)|Lung SC(224;0.128)		Epithelial(121;2.4e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000476)|Lung(119;0.00243)|LUSC - Lung squamous cell carcinoma(224;0.00599)		CCCCAGGCCAATCATGCCCAA	0.507													31	78	---	---	---	---	PASS	G	234638577	G	G	234638577	3	3	8	1	0	0	0	0	1	0	0	0	16943	101	4	5	807	5	UGT1A3	2	234638577	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	1393223	234638577	8560796	86	5502										
COL6A3	1293	broad.mit.edu	37	chr2	238277716	238277716	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggggccgatgttgagtcttcGaacaatcctgctaacaaaat	10	9	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:238277716G>A	uc002vwl.2	-	10	4675	c.4390C>T	c.(4390-4392)CGA>TGA	p.R1464*	COL6A3_uc002vwo.2_Nonsense_Mutation_p.R1258*|COL6A3_uc010znj.1_Nonsense_Mutation_p.R857*	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1464	VWFA 8.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TTGAGTCTTCGAACAATCCTG	0.473													5	33	---	---	---	---	PASS	A	238277716	A	A	238277716	4	1	8	1	0	0	0	0	0	1	0	0	3701	1066	37	2	5283	2	COL6A3	2	238277716	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	3639139	238277716	4921657	87	5503										
FARP2	9855	broad.mit.edu	37	chr2	242407665	242407665	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aaggagtttgagctgcagaaGgtctgctacttgcctctcaa	11	9	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr2:242407665G>A	uc002wbi.1	+	18	2121	c.2004G>A	c.(2002-2004)AAG>AAA	p.K668K		NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	668	DH.				axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		AGCTGCAGAAGGTCTGCTACT	0.552													28	48	---	---	---	---	PASS	A	242407665	A	A	242407665	2	1	8	1	0	0	0	0	0	0	0	1	5677	991	35	3		3	FARP2	2	242407665	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	4129949	242407665	791708	88	5504										
MYH15	22989	broad.mit.edu	37	chr3	108147433	108147433	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccagtttctgcttgacctgcTgtagattttctacctggccc	8	13	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:108147433T>A	uc003dxa.1	-	28	3725	c.3668A>T	c.(3667-3669)CAG>CTG	p.Q1223L		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1223	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CTTGACCTGCTGTAGATTTTC	0.483													30	85	---	---	---	---	PASS	A	108147433	A	A	108147433	3	1	8	1	0	0	0	0	1	0	0	0	10034	1580	55	5	2232	5	MYH15	3	108147433	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08		108147433	89874997	89	5505										
DPPA2	151871	broad.mit.edu	37	chr3	109023411	109023411	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aagaagagagaaatcatcctCctgtgagtggtaggcaccca	11	9	1	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:109023411C>A	uc003dxo.2	-	7	1012	c.765G>T	c.(763-765)AGG>AGT	p.R255S		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	255						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						AAATCATCCTCCTGTGAGTGG	0.517													5	67	---	---	---	---	PASS	A	109023411	A	A	109023411	3	1	8	1	0	0	0	0	1	0	0	0	4734	854	30	2	139	2	DPPA2	3	109023411	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	875978	109023411	88999019	90	5506										
ABHD10	55347	broad.mit.edu	37	chr3	111698038	111698038	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggatacctcagcgggcgccaCggtggctcccaggtcagtgt	15	13	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:111698038C>G	uc003dyk.3	+	1	211	c.130C>G	c.(130-132)CGG>GGG	p.R44G	ABHD10_uc011bhq.1_5'UTR	NM_018394	NP_060864	Q9NUJ1	ABHDA_HUMAN	abhydrolase domain containing 10 precursor	44						mitochondrion	serine-type peptidase activity				0						GCGGGCGCCACGGTGGCTCCC	0.662													14	24	---	---	---	---	PASS	G	111698038	G	G	111698038	3	3	8	1	0	0	0	0	1	0	0	0	74	527	19	4	132	4	ABHD10	3	111698038	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	2674627	111698038	86324392	91	5507										
DTX3L	151636	broad.mit.edu	37	chr3	122288682	122288682	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aagtgcaagcatgaattctgCgccccttgtatcaacaaagc	8	11	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:122288682C>T	uc003efk.2	+	3	1835	c.1746C>T	c.(1744-1746)TGC>TGT	p.C582C	DTX3L_uc010hrj.2_Intron	NM_138287	NP_612144	Q8TDB6	DTX3L_HUMAN	deltex 3-like	582	RING-type.				histone monoubiquitination|response to DNA damage stimulus	cytoplasm|nucleus	histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)	4				GBM - Glioblastoma multiforme(114;0.0459)		ATGAATTCTGCGCCCCTTGTA	0.453													7	155	---	---	---	---	PASS	T	122288682	T	T	122288682	2	4	8	1	0	0	0	0	0	0	0	1	4796	776	27	1		1	DTX3L	3	122288682	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	10590644	122288682	75733748	92	5508										
SEMA5B	54437	broad.mit.edu	37	chr3	122645282	122645282	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gatgaggtcctgctccggcaAgtggaaggcactctgcagct	14	11	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:122645282A>G	uc003efz.1	-	9	1397	c.1093T>C	c.(1093-1095)TTG>CTG	p.L365L	SEMA5B_uc011bju.1_Silent_p.L307L|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Silent_p.L365L|SEMA5B_uc010hro.1_Silent_p.L307L|SEMA5B_uc010hrp.1_RNA	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	365	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		TGCTCCGGCAAGTGGAAGGCA	0.602													11	18	---	---	---	---	PASS	G	122645282	G	G	122645282	2	3	8	1	0	0	0	0	0	0	0	1	14038	69	3	5		5	SEMA5B	3	122645282	Silent	SNP	A	TCGA-18-3414-01A-01D-0983-08	356600	122645282	75377148	93	5509										
ALG1L	200810	broad.mit.edu	37	chr3	125651529	125651529	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aagagaaggaaggttgtgtcCatcaagagtaagttgttcaa	12	4	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:125651529C>A	uc003eig.1	-	3	288	c.124G>T	c.(124-126)GGA>TGA	p.G42*		NM_001015050	NP_001015050	Q6GMV1	ALG1L_HUMAN	asparagine-linked glycosylation 1-like	42							transferase activity, transferring glycosyl groups				0						AGGTTGTGTCCATCAAGAGTA	0.373													5	84	---	---	---	---	PASS	A	125651529	A	A	125651529	4	1	8	1	0	0	0	0	0	1	0	0	517	603	21	3	455	3	ALG1L	3	125651529	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	3006247	125651529	72370901	94	5510										
SOX14	8403	broad.mit.edu	37	chr3	137483975	137483975	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgcccgtgggggcctccgacGgcctcctgagcgcgcccgag	16	17	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:137483975G>C	uc003erm.1	+	1	397	c.349G>C	c.(349-351)GGC>CGC	p.G117R		NM_004189	NP_004180	O95416	SOX14_HUMAN	SRY-box 14	117					negative regulation of transcription from RNA polymerase II promoter|nervous system development|transcription, DNA-dependent	nucleus	sequence-specific DNA binding				0						GGCCTCCGACGGCCTCCTGAG	0.692													15	6	---	---	---	---	PASS	C	137483975	C	C	137483975	3	2	8	1	0	0	0	0	1	0	0	0	14945	1116	39	4	351	4	SOX14	3	137483975	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	11832446	137483975	60538455	95	5511										
CLSTN2	64084	broad.mit.edu	37	chr3	140281797	140281797	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tagcaatgagttcaacttggAggtgagtgggtcctgccatt	13	7	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:140281797A>C	uc003etn.2	+	14	2547	c.2357A>C	c.(2356-2358)GAG>GCG	p.E786A		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	786	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						TTCAACTTGGAGGTGAGTGGG	0.552										HNSCC(16;0.037)			11	28	---	---	---	---	PASS	C	140281797	C	C	140281797	3	2	8	1	0	0	0	0	1	0	0	0	3562	318	11	5	2411	5	CLSTN2	3	140281797	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	2797822	140281797	57740633	96	5512										
SLITRK3	22865	broad.mit.edu	37	chr3	164906580	164906580	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gcagcttctttcgacgccttCggagcacgtaggcaaagagg	13	11	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:164906580C>A	uc003fej.3	-	2	2483	c.2039G>T	c.(2038-2040)CGA>CTA	p.R680L	SLITRK3_uc003fek.2_Missense_Mutation_p.R680L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	680	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						TCGACGCCTTCGGAGCACGTA	0.522										HNSCC(40;0.11)			48	36	---	---	---	---	PASS	A	164906580	A	A	164906580	3	1	8	1	0	0	0	0	1	0	0	0	14744	884	31	2	898	2	SLITRK3	3	164906580	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	24624783	164906580	33115850	97	5513										
GOLIM4	27333	broad.mit.edu	37	chr3	167758633	167758633	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cactacaagttgttcatgctCggagagtaaattcttatgct	8	8	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:167758633C>A	uc003ffe.2	-	7	969	c.625G>T	c.(625-627)GAG>TAG	p.E209*	GOLIM4_uc011bpe.1_Nonsense_Mutation_p.E209*|GOLIM4_uc011bpf.1_Intron|GOLIM4_uc011bpg.1_Intron	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	209	Potential.|Golgi targeting.|Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						TGTTCATGCTCGGAGAGTAAA	0.413													4	106	---	---	---	---	PASS	A	167758633	A	A	167758633	4	1	8	1	0	0	0	0	0	1	0	0	6566	893	31	2	1505	2	GOLIM4	3	167758633	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	2852053	167758633	30263797	98	5514										
SAMD7	344658	broad.mit.edu	37	chr3	169644749	169644749	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccagacattgaagcacccagCaaccagaagtcaagtgaaac	8	12	1	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:169644749C>G	uc003fgd.2	+	6	966	c.699C>G	c.(697-699)AGC>AGG	p.S233R	SAMD7_uc003fge.2_Missense_Mutation_p.S233R|SAMD7_uc011bpo.1_Missense_Mutation_p.S134R	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	233										skin(1)	1	all_cancers(22;1.55e-22)|all_epithelial(15;2.41e-27)|all_lung(20;3.52e-17)|Lung NSC(18;1.44e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0106)			AAGCACCCAGCAACCAGAAGT	0.483													75	86	---	---	---	---	PASS	G	169644749	G	G	169644749	3	3	8	1	0	0	0	0	1	0	0	0	13824	709	25	4	713	4	SAMD7	3	169644749	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1886116	169644749	28377681	99	5515										
PRKCI	5584	broad.mit.edu	37	chr3	170002300	170002300	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aattatcttcatgagcgaggGataatttatagagatttgaa	9	3	2	3	rs146346249		TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:170002300G>A	uc003fgs.2	+	12	1357	c.1119G>A	c.(1117-1119)GGG>GGA	p.G373G		NM_002740	NP_002731	P41743	KPCI_HUMAN	protein kinase C, iota	373	Protein kinase.				anti-apoptosis|cellular membrane organization|cellular response to insulin stimulus|establishment or maintenance of epithelial cell apical/basal polarity|intracellular signal transduction|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|protein targeting to membrane|secretion|tight junction assembly|vesicle-mediated transport	cytosol|endosome|nucleus|polarisome	ATP binding|phospholipid binding|protein binding|protein kinase C activity|zinc ion binding			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			ATGAGCGAGGGATAATTTATA	0.318													20	41	---	---	---	---	PASS	A	170002300	A	A	170002300	2	1	8	1	0	0	0	0	0	0	0	1	12514	1161	41	2		2	PRKCI	3	170002300	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	357551	170002300	28020130	100	5516										
PIK3CA	5290	broad.mit.edu	37	chr3	178917478	178917478	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tttatgtaattttattaaagGttttgctatcggcatgccag	8	5	0	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:178917478G>A	uc003fjk.2	+	3	510	c.353G>A	c.(352-354)GGT>GAT	p.G118D		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	118					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.G118D(6)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TTTATTAAAGGTTTTGCTATC	0.338		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			9	21	---	---	---	---	PASS	A	178917478	A	A	178917478	3	1	8	1	0	0	0	0	1	0	0	0	11913	1275	44	3	359	3	PIK3CA	3	178917478	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	8915178	178917478	19104952	101	5517										
ACTL6A	86	broad.mit.edu	37	chr3	179287884	179287884	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cctacagctattggtatggtGgtagaaagagatgacggaag	14	5	0	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:179287884G>T	uc003fjw.2	+	3	305	c.132G>T	c.(130-132)GTG>GTT	p.V44V	ACTL6A_uc003fjx.2_Silent_p.V2V|ACTL6A_uc003fjy.2_Silent_p.V2V	NM_004301	NP_004292	O96019	ACL6A_HUMAN	actin-like 6A isoform 1	44					chromatin remodeling|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|nervous system development|regulation of growth|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	Ino80 complex|npBAF complex|NuA4 histone acetyltransferase complex|plasma membrane|SWI/SNF complex	ATP binding|chromatin binding			ovary(1)	1	all_cancers(143;3.94e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)			TTGGTATGGTGGTAGAAAGAG	0.408													5	94	---	---	---	---	PASS	T	179287884	T	T	179287884	2	4	8	1	0	0	0	0	0	0	0	1	198	1335	47	3		3	ACTL6A	3	179287884	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	370406	179287884	18734546	102	5518										
MUC4	4585	broad.mit.edu	37	chr3	195515841	195515841	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gagagggtgggatgaaaggtGccggggacgatcgaagacgc	20	6	0	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:195515841G>A	uc011bto.1	-	2	3070	c.2610C>T	c.(2608-2610)GGC>GGT	p.G870G	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Silent_p.G752G	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	875	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GATGAAAGGTGCCGGGGACGA	0.592													9	18	---	---	---	---	PASS	A	195515841	A	A	195515841	2	1	8	1	0	0	0	0	0	0	0	1	9978	1306	46	3		3	MUC4	3	195515841	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	16227957	195515841	2506589	103	5519										
RNF168	165918	broad.mit.edu	37	chr3	196199439	196199439	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acttaagacacataactcttTcccatgattgcttggtcttg	6	10	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr3:196199439T>C	uc003fwq.2	-	6	1505	c.967A>G	c.(967-969)AAA>GAA	p.K323E	RNF168_uc010iah.2_Missense_Mutation_p.K156E|uc010iag.1_5'Flank	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	323					double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		CATAACTCTTTCCCATGATTG	0.468													9	59	---	---	---	---	PASS	C	196199439	C	C	196199439	3	2	8	1	0	0	0	0	1	0	0	0	13459	1792	62	5	752	5	RNF168	3	196199439	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	683598	196199439	1822991	104	5520										
NCAPG	64151	broad.mit.edu	37	chr4	17826672	17826672	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cagctgatgtaagaaagaaaGaactcaaggtaagtctcttt	9	6	2	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:17826672G>A	uc003gpp.2	+	10	1641	c.1465G>A	c.(1465-1467)GAA>AAA	p.E489K	NCAPG_uc011bxj.1_5'UTR	NM_022346	NP_071741	Q9BPX3	CND3_HUMAN	chromosome condensation protein G	489					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	protein binding			large_intestine(1)	1				STAD - Stomach adenocarcinoma(129;0.18)		AAGAAAGAAAGAACTCAAGGT	0.388													4	9	---	---	---	---	PASS	A	17826672	A	A	17826672	3	1	8	1	0	0	0	0	1	0	0	0	10207	943	33	2	1503	2	NCAPG	4	17826672	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08		17826672	173327604	105	5521										
DHX15	1665	broad.mit.edu	37	chr4	24578074	24578074	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctgcatgtccggcatgcgttGaatgagcagaatgtgttgaa	13	7	0	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:24578074G>C	uc003gqx.2	-	2	467	c.299C>G	c.(298-300)TCA>TGA	p.S100*		NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	100					mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				GGCATGCGTTGAATGAGCAGA	0.453													35	73	---	---	---	---	PASS	C	24578074	C	C	24578074	4	2	8	1	0	0	0	0	0	1	0	0	4501	1294	45	2	2140	2	DHX15	4	24578074	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	6751402	24578074	166576202	106	5522										
SLC34A2	10568	broad.mit.edu	37	chr4	25677904	25677904	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccgtcttctacctgatcatcTtcttcttcctgatcccgctg	5	16	6	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:25677904T>A	uc003grr.2	+	13	1687	c.1606T>A	c.(1606-1608)TTC>ATC	p.F536I	SLC34A2_uc003grs.2_Missense_Mutation_p.F535I|SLC34A2_uc010iev.2_Missense_Mutation_p.F535I	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	536	Helical; Name=M7; (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				CCTGATCATCTTCTTCTTCCT	0.607													52	85	---	---	---	---	PASS	A	25677904	A	A	25677904	3	1	8	1	0	0	0	0	1	0	0	0	14568	1609	56	5	1652	5	SLC34A2	4	25677904	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	1099830	25677904	165476372	107	5523										
UGDH	7358	broad.mit.edu	37	chr4	39511414	39511414	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agaaacttgtttccaattctCtggtccattccaatcgctgt	6	11	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:39511414C>A	uc003guk.1	-	6	1093	c.777G>T	c.(775-777)CAG>CAT	p.Q259H	UGDH_uc011byp.1_Missense_Mutation_p.Q162H|UGDH_uc003gul.1_Missense_Mutation_p.Q192H	NM_003359	NP_003350	O60701	UGDH_HUMAN	UDP-glucose dehydrogenase	259					glycosaminoglycan biosynthetic process|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	electron carrier activity|NAD binding|UDP-glucose 6-dehydrogenase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4					NADH(DB00157)	TTCCAATTCTCTGGTCCATTC	0.323													19	25	---	---	---	---	PASS	A	39511414	A	A	39511414	3	1	8	1	0	0	0	0	1	0	0	0	16937	912	32	2	735	2	UGDH	4	39511414	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	13833510	39511414	151642862	108	5524										
YIPF7	285525	broad.mit.edu	37	chr4	44631420	44631420	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgcttcctgtgacacattacCagaagcaaggtggctcccag	10	12	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:44631420C>G	uc010ifx.1	-	4	515	c.498G>C	c.(496-498)CTG>CTC	p.L166L	YIPF7_uc010ify.1_3'UTR	NM_182592	NP_872398	Q8N8F6	YIPF7_HUMAN	Yip1 domain family, member 7	166	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane					0						GACACATTACCAGAAGCAAGG	0.438													5	9	---	---	---	---	PASS	G	44631420	G	G	44631420	2	3	8	1	0	0	0	0	0	0	0	1	17480	608	21	4		4	YIPF7	4	44631420	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	5120006	44631420	146522856	109	5525										
COX7B2	170712	broad.mit.edu	37	chr4	46736995	46736995	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tccactcttttggggtaactCtgccaacaggggataggttc	11	10	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:46736995C>A	uc003gxf.2	-	3	395	c.215G>T	c.(214-216)AGA>ATA	p.R72I	COX7B2_uc010ige.2_RNA	NM_130902	NP_570972	Q8TF08	CX7B2_HUMAN	cytochrome c oxidase subunit VIIb2 precursor	72	Mitochondrial intermembrane (By similarity).					integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity				0						TGGGGTAACTCTGCCAACAGG	0.428													16	27	---	---	---	---	PASS	A	46736995	A	A	46736995	3	1	8	1	0	0	0	0	1	0	0	0	3783	913	32	2	34	2	COX7B2	4	46736995	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	2105575	46736995	144417281	110	5526										
ATP10D	57205	broad.mit.edu	37	chr4	47548682	47548682	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aggaagctgtctctgaagatGaagattttatagacacagtc	10	6	1	5			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:47548682G>C	uc003gxk.1	+	10	1602	c.1438G>C	c.(1438-1440)GAA>CAA	p.E480Q	ATP10D_uc003gxl.1_5'UTR|ATP10D_uc003gxj.3_Missense_Mutation_p.E465Q	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	480	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						CTCTGAAGATGAAGATTTTAT	0.468													5	83	---	---	---	---	PASS	C	47548682	C	C	47548682	3	2	8	1	0	0	0	0	1	0	0	0	1118	1291	45	2	1472	2	ATP10D	4	47548682	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	811687	47548682	143605594	111	5527										
EREG	2069	broad.mit.edu	37	chr4	75246733	75246733	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tttccacttcttttacagttCagacagaagacaatccacgt	5	11	2	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:75246733C>G	uc003hie.1	+	3	323	c.157C>G	c.(157-159)CAG>GAG	p.Q53E	EREG_uc003hid.2_Missense_Mutation_p.Q47E	NM_001432	NP_001423	O14944	EREG_HUMAN	epiregulin preproprotein	53					angiogenesis|cell-cell signaling|cytokine-mediated signaling pathway|epidermal growth factor receptor signaling pathway|female meiosis|keratinocyte differentiation|keratinocyte proliferation|luteinizing hormone signaling pathway|mRNA transcription|negative regulation of epithelial cell proliferation|negative regulation of smooth muscle cell differentiation|negative regulation of transcription, DNA-dependent|oocyte maturation|organ morphogenesis|ovarian cumulus expansion|ovulation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of DNA replication|positive regulation of epidermal growth factor receptor activity|positive regulation of fibroblast proliferation|positive regulation of innate immune response|positive regulation of interleukin-6 biosynthetic process|positive regulation of mitosis|positive regulation of phosphorylation|positive regulation of smooth muscle cell proliferation|primary follicle stage|wound healing	extracellular space|integral to plasma membrane	epidermal growth factor receptor binding|growth factor activity			breast(1)|skin(1)	2			Lung(101;0.196)			TTTTACAGTTCAGACAGAAGA	0.398													17	55	---	---	---	---	PASS	G	75246733	G	G	75246733	3	3	8	1	0	0	0	0	1	0	0	0	5220	827	29	2	167	2	EREG	4	75246733	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	27698051	75246733	115907543	112	5528										
NAAA	27163	broad.mit.edu	37	chr4	76852392	76852392	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcatcaccagaaactgtaaaCttgtgtgggctctggccagt	10	10	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:76852392C>T	uc003hjb.2	-	4	628	c.564G>A	c.(562-564)AAG>AAA	p.K188K	NAAA_uc003hja.2_Silent_p.K188K|NAAA_uc003hjc.3_Silent_p.K188K|NAAA_uc003hjd.3_RNA|NAAA_uc011cbq.1_Silent_p.K87K	NM_014435	NP_055250	Q02083	NAAA_HUMAN	N-acylethanolamine acid amidase isoform 1	188					lipid metabolic process	lysosome	hydrolase activity			skin(1)	1						AAACTGTAAACTTGTGTGGGC	0.393													10	22	---	---	---	---	PASS	T	76852392	T	T	76852392	2	4	8	1	0	0	0	0	0	0	0	1	10127	564	20	3		3	NAAA	4	76852392	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	1605659	76852392	114301884	113	5529										
QRFPR	84109	broad.mit.edu	37	chr4	122301679	122301679	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gagggccagcttggcgcgtcCcggcagctctggggtgtaga	18	11	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:122301679C>A	uc010inj.1	-	1	503	c.124G>T	c.(124-126)GGA>TGA	p.G42*	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Nonsense_Mutation_p.G42*|QRFPR_uc010inl.1_Nonsense_Mutation_p.G42*	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	42	Extracellular (Potential).					plasma membrane	neuropeptide Y receptor activity				0						TTGGCGCGTCCCGGCAGCTCT	0.657													7	3	---	---	---	---	PASS	A	122301679	A	A	122301679	4	1	8	1	0	0	0	0	0	1	0	0	12878	632	22	3	1195	3	QRFPR	4	122301679	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	45449287	122301679	68852597	114	5530										
TRPC3	7222	broad.mit.edu	37	chr4	122825537	122825537	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atgttgagtaaaacgaccacCatagttacattgtatattcc	6	8	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:122825537C>A	uc003ieg.2	-	8	2267	c.2193G>T	c.(2191-2193)ATG>ATT	p.M731I	TRPC3_uc010inr.2_Missense_Mutation_p.M603I|TRPC3_uc003ief.2_Missense_Mutation_p.M658I|TRPC3_uc011cgl.1_Missense_Mutation_p.M395I	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	646	Helical; (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						AAACGACCACCATAGTTACAT	0.328													8	15	---	---	---	---	PASS	A	122825537	A	A	122825537	3	1	8	1	0	0	0	0	1	0	0	0	16576	594	21	3	592	3	TRPC3	4	122825537	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	523858	122825537	68328739	115	5531										
TBC1D9	23158	broad.mit.edu	37	chr4	141592006	141592006	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aagttggcaaataggaaggtCatcctgtttcgggtgctgat	13	6	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:141592006C>T	uc010ioj.2	-	7	1406	c.1134G>A	c.(1132-1134)ATG>ATA	p.M378I		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	378						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				ATAGGAAGGTCATCCTGTTTC	0.448													10	88	---	---	---	---	PASS	T	141592006	T	T	141592006	3	4	8	1	0	0	0	0	1	0	0	0	15624	826	29	2	2726	2	TBC1D9	4	141592006	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	18766469	141592006	49562270	116	5532										
TMEM144	55314	broad.mit.edu	37	chr4	159136383	159136383	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctttgtgctgccatatggttGgttgccttggttgtcaatct	11	8	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:159136383G>T	uc003ipx.2	+	4	670	c.150G>T	c.(148-150)TTG>TTT	p.L50F	TMEM144_uc010iqi.2_RNA	NM_018342	NP_060812	Q7Z5S9	TM144_HUMAN	transmembrane protein 144	50	Helical; (Potential).					integral to membrane					0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0539)		CCATATGGTTGGTTGCCTTGG	0.398													5	61	---	---	---	---	PASS	T	159136383	T	T	159136383	3	4	8	1	0	0	0	0	1	0	0	0	16055	1339	47	3	156	3	TMEM144	4	159136383	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	17544377	159136383	32017893	117	5533										
KLKB1	3818	broad.mit.edu	37	chr4	187159519	187159519	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cctgtgccctttcagaaattGgtaattgtaggactacttca	8	9	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr4:187159519G>T	uc003iyy.2	+	6	669	c.598G>T	c.(598-600)GGT>TGT	p.G200C	KLKB1_uc011clc.1_5'UTR|KLKB1_uc011cld.1_Missense_Mutation_p.G162C	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	200					blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		TTCAGAAATTGGTAATTGTAG	0.289													19	22	---	---	---	---	PASS	T	187159519	T	T	187159519	3	4	8	1	0	0	0	0	1	0	0	0	8412	1362	47	3	616	3	KLKB1	4	187159519	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	28023136	187159519	3994757	118	5534										
SLC9A3	6550	broad.mit.edu	37	chr5	485314	485314	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtcacgttgtcacctcccagCgccacgaaagattcaaacac	7	15	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:485314C>G	uc003jbe.2	-	4	820	c.708G>C	c.(706-708)GCG>GCC	p.A236A	SLC9A3_uc011clx.1_Silent_p.A236A	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	236	Extracellular (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CACCTCCCAGCGCCACGAAAG	0.632													95	39	---	---	---	---	PASS	G	485314	G	G	485314	2	3	8	1	0	0	0	0	0	0	0	1	14713	755	27	4		4	SLC9A3	5	485314	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08		485314	180429946	119	5535										
SEMA5A	9037	broad.mit.edu	37	chr5	9202306	9202306	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	actgcattttctcggaaaaaGaagtaggtaaaatttccgat	8	6	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:9202306G>C	uc003jek.2	-	9	1405	c.693C>G	c.(691-693)TTC>TTG	p.F231L		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	231	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						CTCGGAAAAAGAAGTAGGTAA	0.433													18	105	---	---	---	---	PASS	C	9202306	C	C	9202306	3	2	8	1	0	0	0	0	1	0	0	0	14037	933	33	2	2591	2	SEMA5A	5	9202306	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	8716992	9202306	171712954	120	5536										
DNAH5	1767	broad.mit.edu	37	chr5	13714594	13714594	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caccgcctcccgggtctcatCccctccaccagaggtgtcct	8	20	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:13714594C>A	uc003jfd.2	-	75	13087	c.13045G>T	c.(13045-13047)GAT>TAT	p.D4349Y	DNAH5_uc003jfc.2_Missense_Mutation_p.D517Y	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4349					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CGGGTCTCATCCCCTCCACCA	0.587									Kartagener_syndrome				11	123	---	---	---	---	PASS	A	13714594	A	A	13714594	3	1	8	1	0	0	0	0	1	0	0	0	4604	855	30	2	849	2	DNAH5	5	13714594	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	4512288	13714594	167200666	121	5537										
CDH18	1016	broad.mit.edu	37	chr5	19591282	19591282	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agcatttgagccagtgtcagCatcatttgccttgattttcc	8	10	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:19591282C>G	uc003jgc.2	-	6	1260	c.883G>C	c.(883-885)GCT>CCT	p.A295P	CDH18_uc003jgd.2_Missense_Mutation_p.A295P|CDH18_uc011cnm.1_Missense_Mutation_p.A295P	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	295	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CCAGTGTCAGCATCATTTGCC	0.403													18	37	---	---	---	---	PASS	G	19591282	G	G	19591282	3	3	8	1	0	0	0	0	1	0	0	0	3103	710	25	4	1517	4	CDH18	5	19591282	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	5876688	19591282	161323978	122	5538										
OSMR	9180	broad.mit.edu	37	chr5	38919038	38919038	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gttcagagctccattccattCcagcaccagccaacagcaca	6	16	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:38919038C>G	uc003jln.1	+	11	1826	c.1459C>G	c.(1459-1461)CCA>GCA	p.P487A	OSMR_uc011cpj.1_5'UTR	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	487	Fibronectin type-III 2.|Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					CCATTCCATTCCAGCACCAGC	0.438													19	135	---	---	---	---	PASS	G	38919038	G	G	38919038	3	3	8	1	0	0	0	0	1	0	0	0	11292	855	30	2	1535	2	OSMR	5	38919038	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	19327756	38919038	141996222	123	5539										
PLCXD3	345557	broad.mit.edu	37	chr5	41382017	41382017	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	accacctgagatataaaaaaCgatcccttctttcttctctc	3	13	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:41382017C>T	uc003jmm.1	-	2	825	c.723G>A	c.(721-723)TCG>TCA	p.S241S		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	241					intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						ATATAAAAAACGATCCCTTCT	0.502													19	112	---	---	---	---	PASS	T	41382017	T	T	41382017	2	4	8	1	0	0	0	0	0	0	0	1	12043	523	19	1		1	PLCXD3	5	41382017	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	2462979	41382017	139533243	124	5540										
FAM169A	26049	broad.mit.edu	37	chr5	74101044	74101044	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tattcgctggtaccagtgtcCaacaccttcaacttcccaaa	5	14	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:74101044C>G	uc003kdm.2	-	7	779	c.736G>C	c.(736-738)GGA>CGA	p.G246R	FAM169A_uc010izm.2_Missense_Mutation_p.G186R|FAM169A_uc003kdl.2_Missense_Mutation_p.G64R	NM_015566	NP_056381	Q9Y6X4	F169A_HUMAN	hypothetical protein LOC26049	246											0						TACCAGTGTCCAACACCTTCA	0.383													16	8	---	---	---	---	PASS	G	74101044	G	G	74101044	3	3	8	1	0	0	0	0	1	0	0	0	5487	603	21	4	1304	4	FAM169A	5	74101044	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	32719027	74101044	106814216	125	5541										
FTMT	94033	broad.mit.edu	37	chr5	121187749	121187749	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gctgcttcgcgctcccgctgCgttgggccccggggcgcccc	15	19	0	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:121187749C>T	uc003kss.2	+	1	100	c.91C>T	c.(91-93)CGT>TGT	p.R31C		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	31					cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		GCTCCCGCTGCGTTGGGCCCC	0.766													8	1	---	---	---	---	PASS	T	121187749	T	T	121187749	3	4	8	1	0	0	0	0	1	0	0	0	6085	768	27	1	93	1	FTMT	5	121187749	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	47086705	121187749	59727511	126	5542										
HARS	3035	broad.mit.edu	37	chr5	140056476	140056476	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cgagcaaggctcaggtcaaaGgagatctgtggagataagaa	14	6	3	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:140056476G>T	uc003lgv.2	-	10	1039	c.957C>A	c.(955-957)TCC>TCA	p.S319S	HARS_uc003lgu.2_Silent_p.S250S|HARS_uc011czm.1_Silent_p.S279S|HARS_uc003lgw.2_Silent_p.S299S|HARS_uc011czn.1_Silent_p.S259S|HARS_uc010jfu.2_Silent_p.S319S|HARS_uc011czo.1_Silent_p.S245S|HARS_uc011czp.1_Silent_p.S205S|HARS_uc011czq.1_Silent_p.S209S	NM_002109	NP_002100	P12081	SYHC_HUMAN	histidyl-tRNA synthetase	319					histidyl-tRNA aminoacylation	cytosol	ATP binding|histidine-tRNA ligase activity			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		L-Histidine(DB00117)	TCAGGTCAAAGGAGATCTGTG	0.552													5	82	---	---	---	---	PASS	T	140056476	T	T	140056476	2	4	8	1	0	0	0	0	0	0	0	1	6959	987	35	3		3	HARS	5	140056476	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	18868727	140056476	40858784	127	5543										
PCDHB13	56123	broad.mit.edu	37	chr5	140594237	140594237	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccccaactcctattttcgggTcctcacccgcaaacgcagtg	7	17	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:140594237T>A	uc003lja.1	+	1	729	c.542T>A	c.(541-543)GTC>GAC	p.V181D		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	181	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TATTTTCGGGTCCTCACCCGC	0.498													7	34	---	---	---	---	PASS	A	140594237	A	A	140594237	3	1	8	1	0	0	0	0	1	0	0	0	11538	1667	58	5	544	5	PCDHB13	5	140594237	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	537761	140594237	40321023	128	5544										
PCDHGB3	56102	broad.mit.edu	37	chr5	140750236	140750236	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgtgagcgaccgtatagaccGagaggagatttgtggcaaga	15	6	0	5			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:140750236G>A	uc003ljw.1	+	1	275	c.275G>A	c.(274-276)CGA>CAA	p.R92Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc011dat.1_Missense_Mutation_p.R92Q	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	92	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTATAGACCGAGAGGAGATT	0.443													15	164	---	---	---	---	PASS	A	140750236	A	A	140750236	3	1	8	1	0	0	0	0	1	0	0	0	11564	1058	37	2	277	2	PCDHGB3	5	140750236	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	155999	140750236	40165024	129	5545										
GLRA1	2741	broad.mit.edu	37	chr5	151239385	151239385	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcccattccgggagatccttAgcaatttgttgtctgtggtg	11	9	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:151239385A>T	uc003lut.2	-	4	724	c.437T>A	c.(436-438)CTA>CAA	p.L146Q	GLRA1_uc003lur.2_Missense_Mutation_p.L146Q|GLRA1_uc003lus.2_Missense_Mutation_p.L63Q	NM_001146040	NP_001139512	P23415	GLRA1_HUMAN	glycine receptor, alpha 1 isoform 1 precursor	146	Extracellular (Probable).				muscle contraction|negative regulation of transmission of nerve impulse|neuropeptide signaling pathway|positive regulation of acrosome reaction|regulation of membrane potential|startle response	cell junction|chloride channel complex|integral to plasma membrane|intracellular membrane-bounded organelle|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|protein binding|receptor activity|taurine binding|transmitter-gated ion channel activity			ovary(1)|central_nervous_system(1)	2		all_hematologic(541;0.0341)|Medulloblastoma(196;0.0912)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Ethanol(DB00898)|Glycine(DB00145)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	GGAGATCCTTAGCAATTTGTT	0.527													26	32	---	---	---	---	PASS	T	151239385	T	T	151239385	3	4	8	1	0	0	0	0	1	0	0	0	6454	420	15	5	960	5	GLRA1	5	151239385	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	10489149	151239385	29675875	130	5546										
GEMIN5	25929	broad.mit.edu	37	chr5	154316660	154316660	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acagtcccatcgtcggagctGgtggcacagaggttgtactg	14	10	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:154316660G>T	uc003lvx.3	-	2	335	c.252C>A	c.(250-252)ACC>ACA	p.T84T	GEMIN5_uc011ddk.1_Silent_p.T84T	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	84	WD 1.				ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CGTCGGAGCTGGTGGCACAGA	0.473													5	70	---	---	---	---	PASS	T	154316660	T	T	154316660	2	4	8	1	0	0	0	0	0	0	0	1	6331	1335	47	3		3	GEMIN5	5	154316660	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	3077275	154316660	26598600	131	5547										
SGCD	6444	broad.mit.edu	37	chr5	156186285	156186285	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgcctcatggatcctacacgCctacaggaacgaggcagaag	11	12	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:156186285C>A	uc003lwd.3	+	8	1230	c.754C>A	c.(754-756)CCT>ACT	p.P252T	SGCD_uc003lwc.3_Missense_Mutation_p.P253T	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	252	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ATCCTACACGCCTACAGGAAC	0.493													44	24	---	---	---	---	PASS	A	156186285	A	A	156186285	3	1	8	1	0	0	0	0	1	0	0	0	14201	739	26	3	859	3	SGCD	5	156186285	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1869625	156186285	24728975	132	5548										
TIMD4	91937	broad.mit.edu	37	chr5	156381726	156381726	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acagggcaaagtcacccggtGacccaaaacctccgtcacaa	8	15	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:156381726G>A	uc003lwh.2	-	2	157	c.100C>T	c.(100-102)CAC>TAC	p.H34Y	TIMD4_uc010jii.2_Missense_Mutation_p.H34Y	NM_138379	NP_612388	Q96H15	TIMD4_HUMAN	T-cell immunoglobulin and mucin domain	34	Ig-like V-type.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GTCACCCGGTGACCCAAAACC	0.512													11	4	---	---	---	---	PASS	A	156381726	A	A	156381726	3	1	8	1	0	0	0	0	1	0	0	0	15900	1290	45	2	1068	2	TIMD4	5	156381726	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	195441	156381726	24533534	133	5549										
ATP10B	23120	broad.mit.edu	37	chr5	160097495	160097495	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtgagaagcccttcacgacaCatctttgcttgaggtttgtc	10	10	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:160097495C>T	uc003lym.1	-	7	1497	c.650G>A	c.(649-651)TGT>TAT	p.C217Y	ATP10B_uc003lyp.2_Missense_Mutation_p.C217Y|ATP10B_uc011deg.1_Missense_Mutation_p.C261Y|ATP10B_uc003lyo.2_Missense_Mutation_p.C189Y	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	217	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTTCACGACACATCTTTGCTT	0.463													37	54	---	---	---	---	PASS	T	160097495	T	T	160097495	3	4	8	1	0	0	0	0	1	0	0	0	1117	478	17	3	3815	3	ATP10B	5	160097495	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	3715769	160097495	20817765	134	5550										
ODZ2	57451	broad.mit.edu	37	chr5	167671566	167671566	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tctggctgcccagcagcgggCtggcagctgtcaacgtgtca	14	13	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:167671566C>A	uc010jjd.2	+	26	5635	c.5635C>A	c.(5635-5637)CTG>ATG	p.L1879M	ODZ2_uc003lzr.3_Missense_Mutation_p.L1649M|ODZ2_uc003lzt.3_Missense_Mutation_p.L1252M|ODZ2_uc010jje.2_Missense_Mutation_p.L1143M	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		CAGCAGCGGGCTGGCAGCTGT	0.577													29	14	---	---	---	---	PASS	A	167671566	A	A	167671566	3	1	8	1	0	0	0	0	1	0	0	0	10835	796	28	3	5737	3	ODZ2	5	167671566	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	7574071	167671566	13243694	135	5551										
FOXI1	2299	broad.mit.edu	37	chr5	169535450	169535450	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	accttcaactccttctccccGctcaccaacctcagcaacca	2	21	4	0	rs56128152	byFrequency	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr5:169535450G>T	uc003mai.3	+	2	1017	c.972G>T	c.(970-972)CCG>CCT	p.P324P	FOXI1_uc003maj.3_Silent_p.P229P	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	324					epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCTTCTCCCCGCTCACCAACC	0.622									Pendred_syndrome				15	12	---	---	---	---	PASS	T	169535450	T	T	169535450	2	4	8	1	0	0	0	0	0	0	0	1	6009	1074	38	1		1	FOXI1	5	169535450	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	1863884	169535450	11379810	136	5552										
F13A1	2162	broad.mit.edu	37	chr6	6224962	6224962	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acccagcattggccataccgGactggattctcagagctccg	10	14	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:6224962G>T	uc003mwv.2	-	7	1053	c.930C>A	c.(928-930)GTC>GTA	p.V310V	F13A1_uc011dib.1_Silent_p.V247V	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	310					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	GGCCATACCGGACTGGATTCT	0.443													49	82	---	---	---	---	PASS	T	6224962	T	T	6224962	2	4	8	1	0	0	0	0	0	0	0	1	5340	1161	41	2		2	F13A1	6	6224962	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08		6224962	164890105	137	5553										
RREB1	6239	broad.mit.edu	37	chr6	7231198	7231198	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atttggccactcccagcgaaGccaagaagcctgaggaggag	13	11	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:7231198G>T	uc003mxc.2	+	10	3256	c.2866G>T	c.(2866-2868)GCC>TCC	p.A956S	RREB1_uc003mxb.2_Missense_Mutation_p.A956S|RREB1_uc010jnx.2_Missense_Mutation_p.A956S	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	956					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				TCCCAGCGAAGCCAAGAAGCC	0.612													8	9	---	---	---	---	PASS	T	7231198	T	T	7231198	3	4	8	1	0	0	0	0	1	0	0	0	13679	971	34	3	2892	3	RREB1	6	7231198	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1006236	7231198	163883869	138	5554										
HIST1H3B	8358	broad.mit.edu	37	chr6	26032069	26032069	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cttgaagtcttgggcgatttCtcgcaccaggcgctggaacg	13	11	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:26032069C>T	uc003nfs.1	-	1	220	c.220G>A	c.(220-222)GAA>AAA	p.E74K		NM_003537	NP_003528	P68431	H31_HUMAN	histone cluster 1, H3b	74					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						TGGGCGATTTCTCGCACCAGG	0.607													24	48	---	---	---	---	PASS	T	26032069	T	T	26032069	3	4	8	1	0	0	0	0	1	0	0	0	7156	922	32	2	194	2	HIST1H3B	6	26032069	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	18800871	26032069	145082998	139	5555										
ZNF323	64288	broad.mit.edu	37	chr6	28297448	28297448	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cttaagatcgtactgttcctCtgttgaagccattcctgggg	10	10	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:28297448C>T	uc003nla.2	-	2	413	c.13G>A	c.(13-15)GAG>AAG	p.E5K	ZNF323_uc003nld.2_Missense_Mutation_p.E5K|ZNF323_uc010jra.2_Missense_Mutation_p.E5K|ZNF323_uc003nlb.2_Intron|ZNF323_uc010jrb.2_Intron|ZNF323_uc003nlc.2_Missense_Mutation_p.E5K	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	5					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TACTGTTCCTCTGTTGAAGCC	0.423													23	40	---	---	---	---	PASS	T	28297448	T	T	28297448	3	4	8	1	0	0	0	0	1	0	0	0	17840	922	32	2	1219	2	ZNF323	6	28297448	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	2265379	28297448	142817619	140	5556										
OR14J1	442191	broad.mit.edu	37	chr6	29274902	29274902	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtaggcatgcagtgatagctGtgtggattgctgggggcctc	17	7	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:29274902G>A	uc011dln.1	+	1	436	c.436G>A	c.(436-438)GTG>ATG	p.V146M		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AGTGATAGCTGTGTGGATTGC	0.483													34	45	---	---	---	---	PASS	A	29274902	A	A	29274902	3	1	8	1	0	0	0	0	1	0	0	0	10948	1377	48	3	438	3	OR14J1	6	29274902	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	977454	29274902	141840165	141	5557										
STK19	8859	broad.mit.edu	37	chr6	31948290	31948290	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gagctggtggctagctgtgcCtggagctgggagattcatca	16	8	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:31948290C>T	uc003nyv.2	+	6	1006	c.878C>T	c.(877-879)CCT>CTT	p.P293L	STK19_uc003nyt.2_Missense_Mutation_p.P246L|STK19_uc011dox.1_Missense_Mutation_p.P250L|STK19_uc003nyw.2_Missense_Mutation_p.P289L|STK19_uc010jtn.1_RNA|C4A_uc011doy.1_5'Flank|C4A_uc011doz.1_5'Flank|C4A_uc011dpa.1_5'Flank	NM_032454	NP_115830	P49842	STK19_HUMAN	serine/threonine kinase 19 isoform 2	293						nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			skin(4)	4						CTAGCTGTGCCTGGAGCTGGG	0.587													9	12	---	---	---	---	PASS	T	31948290	T	T	31948290	3	4	8	1	0	0	0	0	1	0	0	0	15291	681	24	3	900	3	STK19	6	31948290	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	2673388	31948290	139166777	142	5558										
MEP1A	4224	broad.mit.edu	37	chr6	46787396	46787396	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	accacgagcagtcaaggacgGaccgggatgattatgtgaac	13	9	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:46787396G>A	uc010jzh.1	+	7	553	c.511G>A	c.(511-513)GAC>AAC	p.D171N	MEP1A_uc011dwg.1_5'UTR|MEP1A_uc011dwh.1_Missense_Mutation_p.D199N|MEP1A_uc011dwi.1_Missense_Mutation_p.D71N	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	171	Extracellular (Potential).|Metalloprotease.				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			GTCAAGGACGGACCGGGATGA	0.478													6	135	---	---	---	---	PASS	A	46787396	A	A	46787396	3	1	8	1	0	0	0	0	1	0	0	0	9475	1174	41	2	537	2	MEP1A	6	46787396	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	14839106	46787396	124327671	143	5559										
GPR116	221395	broad.mit.edu	37	chr6	46826157	46826157	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcctcccagttgagccaacaGacattcttcctcgtatagac	6	14	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:46826157G>A	uc003oyo.3	-	17	3772	c.3483C>T	c.(3481-3483)GTC>GTT	p.V1161V	GPR116_uc011dwj.1_Silent_p.V716V|GPR116_uc011dwk.1_Silent_p.V590V|GPR116_uc003oyp.3_Silent_p.V1019V|GPR116_uc003oyq.3_Silent_p.V1161V|GPR116_uc010jzi.1_Silent_p.V833V	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	1161	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			TGAGCCAACAGACATTCTTCC	0.547													15	19	---	---	---	---	PASS	A	46826157	A	A	46826157	2	1	8	1	0	0	0	0	0	0	0	1	6633	929	33	2		2	GPR116	6	46826157	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	38761	46826157	124288910	144	5560										
TFAP2D	83741	broad.mit.edu	37	chr6	50740417	50740417	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agctctaagcactttccaaaCagttctcagtgaaatgctga	7	10	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:50740417C>A	uc003paf.2	+	8	1711	c.1199C>A	c.(1198-1200)ACA>AAA	p.T400K	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	400	H-S-H (helix-span-helix), dimerization.						DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					ACTTTCCAAACAGTTCTCAGT	0.458													16	33	---	---	---	---	PASS	A	50740417	A	A	50740417	3	1	8	1	0	0	0	0	1	0	0	0	15787	478	17	3	1229	3	TFAP2D	6	50740417	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	3914260	50740417	120374650	145	5561										
GCLC	2729	broad.mit.edu	37	chr6	53372322	53372322	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tctctttatctatcgtcaagTcgatgtcattatatttctca	4	9	5	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:53372322T>C	uc003pbw.1	-	9	1428	c.1040A>G	c.(1039-1041)GAC>GGC	p.D347G	GCLC_uc003pbv.1_Missense_Mutation_p.D71G	NM_001498	NP_001489	P48506	GSH1_HUMAN	glutamate-cysteine ligase, catalytic subunit	347					anti-apoptosis|cell redox homeostasis|cysteine metabolic process|glutamate metabolic process|glutathione biosynthetic process|negative regulation of transcription, DNA-dependent|regulation of blood vessel size|response to heat|response to hormone stimulus|response to oxidative stress|xenobiotic metabolic process	cytosol	ADP binding|ATP binding|coenzyme binding|glutamate binding|glutamate-cysteine ligase activity|magnesium ion binding			ovary(1)|central_nervous_system(1)	2	Lung NSC(77;0.0137)				L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)	TATCGTCAAGTCGATGTCATT	0.383													14	45	---	---	---	---	PASS	C	53372322	C	C	53372322	3	2	8	1	0	0	0	0	1	0	0	0	6295	1667	58	5	905	5	GCLC	6	53372322	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	2631905	53372322	117742745	146	5562										
RIMS1	22999	broad.mit.edu	37	chr6	72974741	72974741	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttattacagagcagttctcaCtggaatatttacaggtaaga	8	6	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:72974741C>G	uc003pga.2	+	20	3257	c.3180C>G	c.(3178-3180)CAC>CAG	p.H1060Q	RIMS1_uc011dyb.1_Intron|RIMS1_uc003pgc.2_Intron|RIMS1_uc010kaq.2_Intron|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Intron|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Missense_Mutation_p.H277Q|RIMS1_uc003pge.2_Intron|RIMS1_uc011dye.1_Intron|RIMS1_uc011dyf.1_Intron|RIMS1_uc010kas.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1060					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)				GCAGTTCTCACTGGAATATTT	0.383													3	7	---	---	---	---	PASS	G	72974741	G	G	72974741	3	3	8	1	0	0	0	0	1	0	0	0	13367	564	20	4	3421	4	RIMS1	6	72974741	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	19602419	72974741	98140326	147	5563										
KHDC1	80759	broad.mit.edu	37	chr6	73951416	73951416	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gaccaggtcatcgttggtcaGaggctggcttcggacacgtt	14	10	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:73951416G>C	uc003pgo.2	-	5	1051	c.550C>G	c.(550-552)CTG>GTG	p.L184V	KHDC1_uc011dyl.1_Intron|KHDC1_uc003pgn.3_Missense_Mutation_p.L111V	NM_030568	NP_085045	Q4VXA5	KHDC1_HUMAN	KH homology domain containing 1	184						integral to membrane	RNA binding			skin(1)	1						TCGTTGGTCAGAGGCTGGCTT	0.567													6	65	---	---	---	---	PASS	C	73951416	C	C	73951416	3	2	8	1	0	0	0	0	1	0	0	0	8144	933	33	2	167	2	KHDC1	6	73951416	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	976675	73951416	97163651	148	5564										
CNR1	1268	broad.mit.edu	37	chr6	88854319	88854319	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttgggcctggtgacaatcctCttataggccaggggcctgtg	14	10	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:88854319C>T	uc011dzq.1	-	2	4238	c.675G>A	c.(673-675)AAG>AAA	p.K225K	CNR1_uc010kbz.2_Silent_p.K225K|CNR1_uc011dzr.1_Silent_p.K225K|CNR1_uc011dzs.1_Silent_p.K225K|CNR1_uc003pmq.3_Silent_p.K225K|CNR1_uc011dzt.1_Silent_p.K225K|CNR1_uc010kca.2_Silent_p.K192K	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	225	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	TGACAATCCTCTTATAGGCCA	0.597													10	17	---	---	---	---	PASS	T	88854319	T	T	88854319	2	4	8	1	0	0	0	0	0	0	0	1	3631	912	32	2		2	CNR1	6	88854319	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	14902903	88854319	82260748	149	5565										
ASCC3	10973	broad.mit.edu	37	chr6	101103640	101103640	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	catccgtacataaagataagTgtaacttatccacttcactg	5	10	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:101103640T>C	uc003pqk.2	-	17	3087	c.2758A>G	c.(2758-2760)ACT>GCT	p.T920A	ASCC3_uc011eai.1_Missense_Mutation_p.T822A	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	920					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		TAAAGATAAGTGTAACTTATC	0.333													5	16	---	---	---	---	PASS	C	101103640	C	C	101103640	3	2	8	1	0	0	0	0	1	0	0	0	1033	1696	59	5	3954	5	ASCC3	6	101103640	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	12249321	101103640	70011427	150	5566										
LAMA4	3910	broad.mit.edu	37	chr6	112463333	112463333	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtgcttacgtttttgcttccGaggtacaggataaactgatc	10	8	0	1	rs35772073	byFrequency	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:112463333G>A	uc003pvu.2	-	20	2964	c.2655C>T	c.(2653-2655)CTC>CTT	p.L885L	LAMA4_uc003pvv.2_Silent_p.L878L|LAMA4_uc003pvt.2_Silent_p.L878L	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	885	Laminin G-like 1.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		TTTTGCTTCCGAGGTACAGGA	0.453													23	48	---	---	---	---	PASS	A	112463333	A	A	112463333	2	1	8	1	0	0	0	0	0	0	0	1	8608	1045	37	2		2	LAMA4	6	112463333	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	11359693	112463333	58651734	151	5567										
GJA1	2697	broad.mit.edu	37	chr6	121767995	121767995	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caggtggtgcccaggcaacaTgggtgactggagcgccttag	16	10	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:121767995T>A	uc003pyr.2	+	2	252	c.2T>A	c.(1-3)ATG>AAG	p.M1K	GJA1_uc011ebo.1_5'UTR|GJA1_uc011ebp.1_5'UTR	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	1					cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	CCAGGCAACATGGGTGACTGG	0.443													48	68	---	---	---	---	PASS	A	121767995	A	A	121767995	3	1	8	1	0	0	0	0	1	0	0	0	6400	1464	51	5	4	5	GJA1	6	121767995	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	9304662	121767995	49347072	152	5568										
C6orf58	352999	broad.mit.edu	37	chr6	127901587	127901587	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aatgaacaagtggaacacctTttaccaggttccttctttat	6	9	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:127901587T>C	uc003qbh.2	+	3	578	c.566T>C	c.(565-567)TTT>TCT	p.F189S		NM_001010905	NP_001010905	Q6P5S2	CF058_HUMAN	hypothetical protein LOC352999 precursor	189						extracellular region					0				GBM - Glioblastoma multiforme(226;0.0405)|all cancers(137;0.156)		TGGAACACCTTTTACCAGGTT	0.378													7	17	---	---	---	---	PASS	C	127901587	C	C	127901587	3	2	8	1	0	0	0	0	1	0	0	0	2367	1841	64	5	576	5	C6orf58	6	127901587	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	6133592	127901587	43213480	153	5569										
L3MBTL3	84456	broad.mit.edu	37	chr6	130363886	130363886	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acaagtggtcaagagtttgaTgtgttcagtgttatggactg	13	4	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:130363886T>A	uc003qbt.2	+	3	212	c.42T>A	c.(40-42)GAT>GAA	p.D14E	L3MBTL3_uc003qbu.2_Missense_Mutation_p.D14E	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	14					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		AAGAGTTTGATGTGTTCAGTG	0.388													11	24	---	---	---	---	PASS	A	130363886	A	A	130363886	3	1	8	1	0	0	0	0	1	0	0	0	8593	1461	51	5	44	5	L3MBTL3	6	130363886	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	2462299	130363886	40751181	154	5570										
PHACTR2	9749	broad.mit.edu	37	chr6	144093534	144093534	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccaatgactctgactcggacGggcctatcttgtacaccgat	9	13	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:144093534G>T	uc003qjq.3	+	7	1469	c.1339G>T	c.(1339-1341)GGG>TGG	p.G447W	PHACTR2_uc010khh.2_Missense_Mutation_p.G367W|PHACTR2_uc010khi.2_Missense_Mutation_p.G458W|PHACTR2_uc003qjr.3_Missense_Mutation_p.G378W	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3	447							actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		TGACTCGGACGGGCCTATCTT	0.517													8	15	---	---	---	---	PASS	T	144093534	T	T	144093534	3	4	8	1	0	0	0	0	1	0	0	0	11810	1116	39	1	1415	1	PHACTR2	6	144093534	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	13729648	144093534	27021533	155	5571										
UTRN	7402	broad.mit.edu	37	chr6	144768768	144768768	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aagacatggaaatgaagcgtCaaacattggatcagctgagt	11	6	2	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:144768768C>T	uc003qkt.2	+	15	1845	c.1753C>T	c.(1753-1755)CAA>TAA	p.Q585*	UTRN_uc010khq.1_Nonsense_Mutation_p.Q585*	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	585	Interaction with SYNM.|Spectrin 4.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		AATGAAGCGTCAAACATTGGA	0.388													23	59	---	---	---	---	PASS	T	144768768	T	T	144768768	4	4	8	1	0	0	0	0	0	1	0	0	17100	827	29	2	1811	2	UTRN	6	144768768	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	675234	144768768	26346299	156	5572										
SYNE1	23345	broad.mit.edu	37	chr6	152642923	152642923	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aatattctttcgtttcctgaAcccaacatttcacagaattg	4	10	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:152642923A>T	uc010kiw.2	-	83	16618	c.16016T>A	c.(16015-16017)GTT>GAT	p.V5339D	SYNE1_uc003qot.3_Missense_Mutation_p.V5268D|SYNE1_uc003qou.3_Missense_Mutation_p.V5339D|SYNE1_uc010kiz.2_Missense_Mutation_p.V1094D	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5339	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)		CGTTTCCTGAACCCAACATTT	0.398										HNSCC(10;0.0054)			12	26	---	---	---	---	PASS	T	152642923	T	T	152642923	3	4	8	1	0	0	0	0	1	0	0	0	15442	43	2	5	10706	5	SYNE1	6	152642923	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	7874155	152642923	18472144	157	5573										
IGF2R	3482	broad.mit.edu	37	chr6	160491005	160491005	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gagagatggcataattgtccTgaaatacgttgatggcgact	12	6	0	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:160491005T>A	uc003qta.2	+	31	4506	c.4358T>A	c.(4357-4359)CTG>CAG	p.L1453Q		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1453	10.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		ATAATTGTCCTGAAATACGTT	0.557													11	9	---	---	---	---	PASS	A	160491005	A	A	160491005	3	1	8	1	0	0	0	0	1	0	0	0	7576	1580	55	5	4480	5	IGF2R	6	160491005	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	7848082	160491005	10624062	158	5574										
PDE10A	10846	broad.mit.edu	37	chr6	165752791	165752791	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccttgggggacttcatccttCttgtctctgtccatcatagg	9	12	4	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr6:165752791C>T	uc003qun.2	-	21	2365	c.2124G>A	c.(2122-2124)AAG>AAA	p.K708K	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Silent_p.K638K|PDE10A_uc003quo.2_Silent_p.K718K	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	708					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	CTTCATCCTTCTTGTCTCTGT	0.353													7	36	---	---	---	---	PASS	T	165752791	T	T	165752791	2	4	8	1	0	0	0	0	0	0	0	1	11630	912	32	2		2	PDE10A	6	165752791	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	5261786	165752791	5362276	159	5575										
PAPOLB	56903	broad.mit.edu	37	chr7	4900374	4900374	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aagagtttggaccactctgcCttacttagcaaaatctcgtg	8	10	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:4900374C>A	uc003snk.2	-	1	1252	c.1068G>T	c.(1066-1068)AAG>AAT	p.K356N	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	355					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		ACCACTCTGCCTTACTTAGCA	0.403													35	38	---	---	---	---	PASS	A	4900374	A	A	4900374	3	1	8	1	0	0	0	0	1	0	0	0	11430	680	24	3	849	3	PAPOLB	7	4900374	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08		4900374	154238289	160	5576										
ISPD	729920	broad.mit.edu	37	chr7	16341084	16341084	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccgcatagagatctcgtttgTaggtcacctaaaggacagat	10	9	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:16341084T>C	uc010ktx.2	-	5	797	c.797A>G	c.(796-798)TAC>TGC	p.Y266C	ISPD_uc010kty.2_Missense_Mutation_p.Y216C	NM_001101426	NP_001094896	A4D126	ISPD_HUMAN	notch1-induced protein isoform a	266					isoprenoid biosynthetic process		nucleotidyltransferase activity			ovary(1)	1						ATCTCGTTTGTAGGTCACCTA	0.383										Multiple Myeloma(15;0.18)			16	11	---	---	---	---	PASS	C	16341084	C	C	16341084	3	2	8	1	0	0	0	0	1	0	0	0	7864	1638	57	5	582	5	ISPD	7	16341084	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	11440710	16341084	142797579	161	5577										
ABCB5	340273	broad.mit.edu	37	chr7	20795082	20795082	+	Frame_Shift_Del	DEL	G	-	-													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gcccttgataaagccaggacGggaaggacatgcctagtggt					rs61999295	byFrequency	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:20795082delG	uc003suw.3	+	19	2820	c.2274delG	c.(2272-2274)ACGfs	p.T758fs	ABCB5_uc010kuh.2_Frame_Shift_Del_p.T1203fs	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	758	Cytoplasmic (Potential).|ABC transporter 2.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						AAGCCAGGACGGGAAGGACAT	0.448													25	13	---	---	---	---		-	20795082	-	-	20795082	7	5	8	1	0	1	0	1	0	0	0	0	44	1103	39	0	3756	0	ABCB5	7	20795082	Frame_Shift_Del	DEL	G	TCGA-18-3414-01A-01D-0983-08	4453998	20795082	138343581	162	5578										
DNAH11	8701	broad.mit.edu	37	chr7	21892087	21892087	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tttcttggtttttattagttGgtattgacaaagcaccaaaa	7	5	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:21892087G>T	uc003svc.2	+	68	10951	c.10920G>T	c.(10918-10920)TTG>TTT	p.L3640F		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3640	AAA 5 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TTTATTAGTTGGTATTGACAA	0.294									Kartagener_syndrome				4	36	---	---	---	---	PASS	T	21892087	T	T	21892087	3	4	8	1	0	0	0	0	1	0	0	0	4599	1339	47	3	11187	3	DNAH11	7	21892087	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1097005	21892087	137246576	163	5579										
DBNL	28988	broad.mit.edu	37	chr7	44100498	44100498	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gcatgttccctgccaactacGtggagctcattgagtgaggc	12	11	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:44100498G>A	uc003tjp.3	+	13	1374	c.1276G>A	c.(1276-1278)GTG>ATG	p.V426M	DBNL_uc003tjo.3_Missense_Mutation_p.V427M|DBNL_uc003tjr.3_Missense_Mutation_p.V299M|DBNL_uc003tjq.3_Missense_Mutation_p.V435M|DBNL_uc011kbm.1_Missense_Mutation_p.V402M|DBNL_uc011kbn.1_Missense_Mutation_p.V323M|DBNL_uc011kbo.1_Missense_Mutation_p.V327M|DBNL_uc011kbp.1_Missense_Mutation_p.V378M|DBNL_uc011kbq.1_Missense_Mutation_p.V351M|DBNL_uc011kbr.1_Missense_Mutation_p.V375M|DBNL_uc011kbs.1_Missense_Mutation_p.V331M	NM_001014436	NP_001014436	Q9UJU6	DBNL_HUMAN	drebrin-like isoform b	426	SH3.				activation of JUN kinase activity|cellular component disassembly involved in apoptosis|endocytosis|Rac protein signal transduction	cell cortex|cytoskeleton|cytosol|lamellipodium	actin binding|enzyme activator activity|identical protein binding			skin(1)	1						TGCCAACTACGTGGAGCTCAT	0.577													11	22	---	---	---	---	PASS	A	44100498	A	A	44100498	3	1	8	1	0	0	0	0	1	0	0	0	4255	1145	40	1	1353	1	DBNL	7	44100498	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	22208411	44100498	115038165	164	5580										
AEBP1	165	broad.mit.edu	37	chr7	44153224	44153224	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gattactggcgaatcttgaaCccgggtgagtaccgcgtgac	13	10	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:44153224C>A	uc003tkb.2	+	21	3146	c.2841C>A	c.(2839-2841)AAC>AAA	p.N947K	AEBP1_uc003tkc.3_Missense_Mutation_p.N522K|AEBP1_uc003tkd.2_Missense_Mutation_p.N197K	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	947	Interaction with PTEN (By similarity).|Required for transcriptional repression (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GAATCTTGAACCCGGGTGAGT	0.512													4	38	---	---	---	---	PASS	A	44153224	A	A	44153224	3	1	8	1	0	0	0	0	1	0	0	0	349	506	18	3	2923	3	AEBP1	7	44153224	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	52726	44153224	114985439	165	5581										
ADCY1	107	broad.mit.edu	37	chr7	45697428	45697428	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttgcgcaagtggcagtacgaCgtgtggtccaatgatgtgac	14	8	0	2	rs142228376	byFrequency	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:45697428C>T	uc003tne.3	+	6	1269	c.1251C>T	c.(1249-1251)GAC>GAT	p.D417D	ADCY1_uc003tnd.2_Silent_p.D192D	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	417	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GGCAGTACGACGTGTGGTCCA	0.627													9	13	---	---	---	---	PASS	T	45697428	T	T	45697428	2	4	8	1	0	0	0	0	0	0	0	1	292	535	19	1		1	ADCY1	7	45697428	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	1544204	45697428	113441235	166	5582										
ZNF479	90827	broad.mit.edu	37	chr7	57188613	57188613	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttttatctctattggaatttGaaaatttaccaaagactttg	5	5	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:57188613G>T	uc010kzo.2	-	5	780	c.509C>A	c.(508-510)TCA>TAA	p.S170*		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	170					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			ATTGGAATTTGAAAATTTACC	0.299													11	20	---	---	---	---	PASS	T	57188613	T	T	57188613	4	4	8	1	0	0	0	0	0	1	0	0	17930	1294	45	2	1069	2	ZNF479	7	57188613	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	11491185	57188613	101950050	167	5583										
PCLO	27445	broad.mit.edu	37	chr7	82579540	82579540	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttctcctactcacatagctcCgatctgtggcatcttcgtca	6	14	5	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:82579540C>T	uc003uhx.2	-	6	10653	c.10364G>A	c.(10363-10365)CGG>CAG	p.R3455Q	PCLO_uc003uhv.2_Missense_Mutation_p.R3455Q|PCLO_uc010lec.2_Missense_Mutation_p.R420Q	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3386					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CACATAGCTCCGATCTGTGGC	0.428													28	38	---	---	---	---	PASS	T	82579540	T	T	82579540	3	4	8	1	0	0	0	0	1	0	0	0	11583	652	23	1	5161	1	PCLO	7	82579540	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	25390927	82579540	76559123	168	5584										
ABCB4	5244	broad.mit.edu	37	chr7	87053341	87053341	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	attcagtttcaggaccttcaGaaaggacactggtggcacat	10	9	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:87053341G>A	uc003uiv.1	-	17	2168	c.2092C>T	c.(2092-2094)CTG>TTG	p.L698L	ABCB4_uc003uiw.1_Silent_p.L698L|ABCB4_uc003uix.1_Silent_p.L698L	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	698	Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					AGGACCTTCAGAAAGGACACT	0.398													43	64	---	---	---	---	PASS	A	87053341	A	A	87053341	2	1	8	1	0	0	0	0	0	0	0	1	43	933	33	2		2	ABCB4	7	87053341	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	4473801	87053341	72085322	169	5585										
SAMD9	54809	broad.mit.edu	37	chr7	92733928	92733928	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtcaaggtctaacctgccatTgcagaaaatccagctgggtt	10	10	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:92733928T>G	uc003umf.2	-	3	1739	c.1483A>C	c.(1483-1485)AAT>CAT	p.N495H	SAMD9_uc003umg.2_Missense_Mutation_p.N495H	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	495						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			AACCTGCCATTGCAGAAAATC	0.383													18	38	---	---	---	---	PASS	G	92733928	G	G	92733928	3	3	8	1	0	0	0	0	1	0	0	0	13826	1812	63	5	3290	5	SAMD9	7	92733928	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	5680587	92733928	66404735	170	5586										
PON1	5444	broad.mit.edu	37	chr7	95025658	95025658	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggaccagcgccacgagcttcCccatggtctcggggtgccca	13	16	1	0	rs146627952	byFrequency	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:95025658C>G	uc011kih.1	-	1	30	c.5G>C	c.(4-6)GGG>GCG	p.G2A	PON3_uc003unt.2_Missense_Mutation_p.G2A|PON3_uc011kii.1_Missense_Mutation_p.G2A			P27169	PON1_HUMAN	SubName: Full=cDNA FLJ57644, highly similar to Serum paraoxonase/arylesterase 1 (EC 3.1.1.2);	2					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	CACGAGCTTCCCCATGGTCTC	0.701													16	34	---	---	---	---	PASS	G	95025658	G	G	95025658	3	3	8	1	0	0	0	0	1	0	0	0	12248	623	22	4		4	PON1	7	95025658	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	2291730	95025658	64113005	171	5587										
OCM2	4951	broad.mit.edu	37	chr7	97619402	97619402	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atgtcatcagcactgagcacGtccgtgatgctcattttcta	8	11	4	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:97619402G>T	uc003upc.2	-	1	15	c.15C>A	c.(13-15)GAC>GAA	p.D5E		NM_006188	NP_006179	P0CE71	OCM2_HUMAN	oncomodulin-like	5							calcium ion binding				0						CACTGAGCACGTCCGTGATGC	0.557													14	44	---	---	---	---	PASS	T	97619402	T	T	97619402	3	4	8	1	0	0	0	0	1	0	0	0	10822	1136	40	1	330	1	OCM2	7	97619402	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	2593744	97619402	61519261	172	5588										
ZAN	7455	broad.mit.edu	37	chr7	100346014	100346014	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gactgggtccagacttccggGgatggtggacactgggccct	16	11	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:100346014G>T	uc003uwj.2	+	11	1335	c.1170G>T	c.(1168-1170)GGG>GGT	p.G390G	ZAN_uc003uwk.2_Silent_p.G390G|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	390	MAM 3.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AGACTTCCGGGGATGGTGGAC	0.542													28	25	---	---	---	---	PASS	T	100346014	T	T	100346014	2	4	8	1	0	0	0	0	0	0	0	1	17510	1219	43	3		3	ZAN	7	100346014	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	2726612	100346014	58792649	173	5589										
MUC17	140453	broad.mit.edu	37	chr7	100683043	100683043	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gttgacaccagcatacctgtCaccacttctactgaagccag	7	14	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:100683043C>A	uc003uxp.1	+	3	8399	c.8346C>A	c.(8344-8346)GTC>GTA	p.V2782V	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2782	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|45.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GCATACCTGTCACCACTTCTA	0.473													65	197	---	---	---	---	PASS	A	100683043	A	A	100683043	2	1	8	1	0	0	0	0	0	0	0	1	9974	813	29	2		2	MUC17	7	100683043	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	337029	100683043	58455620	174	5590										
CADPS2	93664	broad.mit.edu	37	chr7	122047709	122047709	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtaaataaagcccaaaatttCtctgcatgttcagccaataa	5	9	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:122047709C>A	uc010lkp.2	-	19	2794	c.2631G>T	c.(2629-2631)GAG>GAT	p.E877D	CADPS2_uc011knx.1_Missense_Mutation_p.E252D|CADPS2_uc003vkg.3_Missense_Mutation_p.E571D|CADPS2_uc010lkq.2_Missense_Mutation_p.E871D	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	877	Interaction with DRD2.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						CCCAAAATTTCTCTGCATGTT	0.383													15	25	---	---	---	---	PASS	A	122047709	A	A	122047709	3	1	8	1	0	0	0	0	1	0	0	0	2571	912	32	2	1322	2	CADPS2	7	122047709	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	21364666	122047709	37090954	175	5591										
TAS2R16	50833	broad.mit.edu	37	chr7	122635373	122635373	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atgggtgaaagaagagacctTgatgcagtagaacacggtaa	13	5	0	5			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:122635373T>C	uc003vkl.1	-	1	382	c.316A>G	c.(316-318)AAG>GAG	p.K106E		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	106	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						GAAGAGACCTTGATGCAGTAG	0.378													18	39	---	---	---	---	PASS	C	122635373	C	C	122635373	3	2	8	1	0	0	0	0	1	0	0	0	15566	1821	63	5	563	5	TAS2R16	7	122635373	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	587664	122635373	36503290	176	5592										
METTL2B	55798	broad.mit.edu	37	chr7	128141953	128141953	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gcaaatactgcaagccccttCtgtccagcaccagctaagag	8	14	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:128141953C>G	uc003vnf.2	+	9	1157	c.1120C>G	c.(1120-1122)CTG>GTG	p.L374V	METTL2B_uc003vng.2_Missense_Mutation_p.L309V|METTL2B_uc011kop.1_Missense_Mutation_p.L238V	NM_018396	NP_060866	Q6P1Q9	MTL2B_HUMAN	methyltransferase like 2B	374							methyltransferase activity			skin(1)	1						CAAGCCCCTTCTGTCCAGCAC	0.458													59	108	---	---	---	---	PASS	G	128141953	G	G	128141953	3	3	8	1	0	0	0	0	1	0	0	0	9500	912	32	2	1154	2	METTL2B	7	128141953	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	5506580	128141953	30996710	177	5593										
FAM71F1	84691	broad.mit.edu	37	chr7	128359064	128359064	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aaaggggctgtccatcaccaCcaaagaccctaggattcttg	9	12	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:128359064C>G	uc003vno.1	+	3	667	c.614C>G	c.(613-615)ACC>AGC	p.T205S	FAM71F1_uc010llo.1_Missense_Mutation_p.T106S|FAM71F1_uc011koq.1_Missense_Mutation_p.T97S|FAM71F1_uc003vnm.1_RNA|FAM71F1_uc003vnn.1_Missense_Mutation_p.T106S|FAM71F1_uc010llp.1_RNA|FAM71F1_uc003vnp.1_Missense_Mutation_p.T205S	NM_032599	NP_115988	Q96KD3	F71F1_HUMAN	testes development-related NYD-SP18	205										skin(1)	1						TCCATCACCACCAAAGACCCT	0.507													34	74	---	---	---	---	PASS	G	128359064	G	G	128359064	3	3	8	1	0	0	0	0	1	0	0	0	5612	507	18	4	624	4	FAM71F1	7	128359064	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	217111	128359064	30779599	178	5594										
PLXNA4	91584	broad.mit.edu	37	chr7	131864554	131864554	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gcgtttataggcaatgagcaCggccacgatgaaaatgatga	12	7	0	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:131864554C>A	uc003vra.3	-	20	3995	c.3766G>T	c.(3766-3768)GTG>TTG	p.V1256L		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1256	Helical; (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GCAATGAGCACGGCCACGATG	0.622													6	11	---	---	---	---	PASS	A	131864554	A	A	131864554	3	1	8	1	0	0	0	0	1	0	0	0	12122	536	19	1	1970	1	PLXNA4	7	131864554	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	3505490	131864554	27274109	179	5595										
ZNF746	155061	broad.mit.edu	37	chr7	149191588	149191588	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cgtggctgccatcgtccacgGagaaatctttcagaaacaaa	9	11	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:149191588G>A	uc003wfw.2	-	2	302	c.31C>T	c.(31-33)CCG>TCG	p.P11S	ZNF746_uc010lpi.2_Missense_Mutation_p.P11S	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2	11					negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			ATCGTCCACGGAGAAATCTTT	0.547													21	53	---	---	---	---	PASS	A	149191588	A	A	149191588	3	1	8	1	0	0	0	0	1	0	0	0	18126	1174	41	2	1930	2	ZNF746	7	149191588	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	17327034	149191588	9947075	180	5596										
GIMAP8	155038	broad.mit.edu	37	chr7	150171512	150171512	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atgatcatacttcttaccagGaaagaagatttaggggatca	9	6	3	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:150171512G>C	uc003whj.2	+	4	1425	c.1095G>C	c.(1093-1095)AGG>AGC	p.R365S		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	365						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		TTCTTACCAGGAAAGAAGATT	0.383													46	85	---	---	---	---	PASS	C	150171512	C	C	150171512	3	2	8	1	0	0	0	0	1	0	0	0	6385	1165	41	2	1105	2	GIMAP8	7	150171512	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	979924	150171512	8967151	181	5597										
GALNTL5	168391	broad.mit.edu	37	chr7	151699823	151699823	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgttctggtgttcctggacaGccactgtgaggtgaacagag	14	8	1	3	rs149988530		TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:151699823G>T	uc003wkp.2	+	6	906	c.683G>T	c.(682-684)AGC>ATC	p.S228I	GALNTL5_uc003wkq.2_5'UTR|GALNTL5_uc003wkr.2_RNA|GALNTL5_uc003wks.2_RNA|GALNTL5_uc010lqf.2_Missense_Mutation_p.S117I	NM_145292	NP_660335	Q7Z4T8	GLTL5_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	228	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2	all_neural(206;0.187)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00427)	UCEC - Uterine corpus endometrioid carcinoma (81;0.18)|BRCA - Breast invasive adenocarcinoma(188;0.166)		TTCCTGGACAGCCACTGTGAG	0.502													15	19	---	---	---	---	PASS	T	151699823	T	T	151699823	3	4	8	1	0	0	0	0	1	0	0	0	6224	971	34	3	701	3	GALNTL5	7	151699823	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1528311	151699823	7438840	182	5598										
PTPRN2	5799	broad.mit.edu	37	chr7	157926395	157926395	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tctgtcacgatgtagccccgCgcctcttcctcggaaggctg	11	15	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr7:157926395C>T	uc003wno.2	-	9	1651	c.1530G>A	c.(1528-1530)GCG>GCA	p.A510A	PTPRN2_uc003wnp.2_Silent_p.A493A|PTPRN2_uc003wnq.2_Silent_p.A510A|PTPRN2_uc003wnr.2_Silent_p.A472A|PTPRN2_uc011kwa.1_Silent_p.A533A	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	510	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		TGTAGCCCCGCGCCTCTTCCT	0.662													23	42	---	---	---	---	PASS	T	157926395	T	T	157926395	2	4	8	1	0	0	0	0	0	0	0	1	12808	755	27	1		1	PTPRN2	7	157926395	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	6226572	157926395	1212268	183	5599										
EPB49	2039	broad.mit.edu	37	chr8	21937755	21937755	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggcaggaccaccctgagccgGgtaaggtctcaggaccagag	15	12	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:21937755G>C	uc011kyt.1	+	11	1129	c.900G>C	c.(898-900)CGG>CGC	p.R300R	EPB49_uc010ltl.2_Silent_p.R300R|EPB49_uc011kys.1_Silent_p.R260R|EPB49_uc010ltn.2_Silent_p.R275R|EPB49_uc011kyu.1_Silent_p.R300R|EPB49_uc011kyv.1_Silent_p.R300R|EPB49_uc010ltq.2_Silent_p.R300R	NM_001114136	NP_001107608	Q08495	DEMA_HUMAN	erythrocyte membrane protein band 4.9 isoform 1	300	Interaction with RASGRF2.				actin filament bundle assembly|actin filament capping	actin cytoskeleton|nucleus	actin binding			central_nervous_system(1)	1				Colorectal(74;9.05e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0631)		CCCTGAGCCGGGTAAGGTCTC	0.587													39	47	---	---	---	---	PASS	C	21937755	C	C	21937755	2	2	8	1	0	0	0	0	0	0	0	1	5159	1246	43	4		4	EPB49	8	21937755	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08		21937755	124426267	184	5600										
NRG1	3084	broad.mit.edu	37	chr8	32463185	32463185	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agtgcctctgccaatatcacCatcgtggaatcaaacggtaa	8	11	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:32463185C>A	uc003xiv.2	+	3	901	c.384C>A	c.(382-384)ACC>ACA	p.T128T	NRG1_uc003xip.2_Silent_p.T343T|NRG1_uc003xir.2_Silent_p.T128T|NRG1_uc010lvl.2_Silent_p.T128T|NRG1_uc010lvm.2_Silent_p.T128T|NRG1_uc010lvn.2_Silent_p.T128T|NRG1_uc003xis.2_Silent_p.T128T|NRG1_uc011lbf.1_Silent_p.T128T|NRG1_uc010lvo.2_Silent_p.T128T|NRG1_uc003xiu.2_Silent_p.T128T|NRG1_uc003xiw.2_Silent_p.T128T|NRG1_uc003xit.2_Silent_p.T128T|NRG1_uc010lvr.2_5'UTR|NRG1_uc010lvs.2_5'UTR|NRG1_uc010lvp.2_Silent_p.T94T|NRG1_uc010lvq.2_Silent_p.T94T|NRG1_uc003xix.2_Silent_p.T18T	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	128	Extracellular (Potential).|Ig-like C2-type.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		CCAATATCACCATCGTGGAAT	0.403													5	64	---	---	---	---	PASS	A	32463185	A	A	32463185	2	1	8	1	0	0	0	0	0	0	0	1	10647	581	21	3		3	NRG1	8	32463185	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	10525430	32463185	113900837	185	5601										
C8orf22	492307	broad.mit.edu	37	chr8	49985441	49985441	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tagccagaaatcagtattatCgaagtaagttgcatcatcat	7	7	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:49985441C>T	uc003xqq.3	+	2	235	c.52C>T	c.(52-54)CGA>TGA	p.R18*		NM_001007176	NP_001007177	Q8WWR9	PDPFL_HUMAN	hypothetical protein LOC492307	18											0		all_cancers(86;0.0452)|all_epithelial(80;0.000863)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				TCAGTATTATCGAAGTAAGTT	0.413													69	69	---	---	---	---	PASS	T	49985441	T	T	49985441	4	4	8	1	0	0	0	0	0	1	0	0	2419	876	31	2	54	2	C8orf22	8	49985441	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	17522256	49985441	96378581	186	5602										
PCMTD1	115294	broad.mit.edu	37	chr8	52773466	52773466	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cttcccaggttaagaaaagaCaatcctggttgaagtttcaa	8	8	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:52773466C>G	uc003xqx.3	-	2	587	c.246G>C	c.(244-246)TTG>TTC	p.L82F	PCMTD1_uc003xqw.3_Missense_Mutation_p.L82F|PCMTD1_uc011ldn.1_Intron|PCMTD1_uc010lya.2_Intron|PCMTD1_uc011ldo.1_Missense_Mutation_p.L82F	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	82						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				TAAGAAAAGACAATCCTGGTT	0.328													25	23	---	---	---	---	PASS	G	52773466	G	G	52773466	3	3	8	1	0	0	0	0	1	0	0	0	11586	477	17	4	847	4	PCMTD1	8	52773466	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	2788025	52773466	93590556	187	5603										
C8orf34	116328	broad.mit.edu	37	chr8	69699678	69699678	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ataaatgtgttcttttgcagGatgaatccttaaagcaattg	8	5	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:69699678G>C	uc010lyz.2	+	12	1247	c.1198G>C	c.(1198-1200)GAT>CAT	p.D400H	C8orf34_uc003xyb.2_Missense_Mutation_p.D375H	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	400					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)			TCTTTTGCAGGATGAATCCTT	0.348													8	22	---	---	---	---	PASS	C	69699678	C	C	69699678	3	2	8	1	0	0	0	0	1	0	0	0	2422	1188	41	2	1165	2	C8orf34	8	69699678	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	16926212	69699678	76664344	188	5604										
ZFHX4	79776	broad.mit.edu	37	chr8	77776369	77776369	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cagtcaagcttgcacaaagaGaaaacaatcaaacaagcaat	6	9	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:77776369G>T	uc003yav.2	+	11	10671	c.10284G>T	c.(10282-10284)GAG>GAT	p.E3428D		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3424						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TGCACAAAGAGAAAACAATCA	0.448										HNSCC(33;0.089)			53	55	---	---	---	---	PASS	T	77776369	T	T	77776369	3	4	8	1	0	0	0	0	1	0	0	0	17632	933	33	2	10457	2	ZFHX4	8	77776369	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	8076691	77776369	68587653	189	5605										
ZFAND1	79752	broad.mit.edu	37	chr8	82630427	82630427	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cttaacttaccaaaatattcCtgaacaatcatcacacacaa	1	12	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:82630427C>T	uc003ycj.1	-	2	102	c.88G>A	c.(88-90)GGA>AGA	p.G30R	ZFAND1_uc010lzx.1_Missense_Mutation_p.G30R|ZFAND1_uc003yck.1_5'UTR	NM_024699	NP_078975	Q8TCF1	ZFAN1_HUMAN	zinc finger, AN1-type domain 1	30	AN1-type 1.						zinc ion binding			ovary(1)	1						CAAAATATTCCTGAACAATCA	0.264													10	36	---	---	---	---	PASS	T	82630427	T	T	82630427	3	4	8	1	0	0	0	0	1	0	0	0	17623	690	24	3	794	3	ZFAND1	8	82630427	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	4854058	82630427	63733595	190	5606										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885761	88885761	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tggagtatctgcaagtcccaCgaagcacagcagaaggtggg	14	9	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:88885761C>A	uc003ydz.2	-	1	536	c.439G>T	c.(439-441)GTG>TTG	p.V147L		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	147										ovary(1)	1						GCAAGTCCCACGAAGCACAGC	0.542													43	28	---	---	---	---	PASS	A	88885761	A	A	88885761	3	1	8	1	0	0	0	0	1	0	0	0	4272	536	19	1	752	1	DCAF4L2	8	88885761	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	6255334	88885761	57478261	191	5607										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885967	88885967	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggtcagtgttggtattcgccAgtatgcggttaaatcggtcg	14	7	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:88885967A>G	uc003ydz.2	-	1	330	c.233T>C	c.(232-234)CTG>CCG	p.L78P		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	78										ovary(1)	1						GGTATTCGCCAGTATGCGGTT	0.542													52	54	---	---	---	---	PASS	G	88885967	G	G	88885967	3	3	8	1	0	0	0	0	1	0	0	0	4272	188	7	5	958	5	DCAF4L2	8	88885967	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	206	88885967	57478055	192	5608										
EIF3E	3646	broad.mit.edu	37	chr8	109226865	109226865	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atacactggtggatgcgacaGaaagtctcaaatatgaagag	11	6	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:109226865G>A	uc003ymu.2	-	10	1060	c.1032C>T	c.(1030-1032)TTC>TTT	p.F344F	EIF3E_uc003ymt.2_Silent_p.F295F|EIF3E_uc003ymv.2_Silent_p.F251F|EIF3E_uc010mci.1_Intron	NM_001568	NP_001559	P60228	EIF3E_HUMAN	eukaryotic translation initiation factor 3,	344	PCI.				negative regulation of translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|eukaryotic translation initiation factor 3 complex|PML body	protein N-terminus binding			ovary(2)|kidney(1)	3			OV - Ovarian serous cystadenocarcinoma(57;6.84e-10)			GGATGCGACAGAAAGTCTCAA	0.353													31	36	---	---	---	---	PASS	A	109226865	A	A	109226865	2	1	8	1	0	0	0	0	0	0	0	1	5015	933	33	2		2	EIF3E	8	109226865	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	20340898	109226865	37137157	193	5609										
CSMD3	114788	broad.mit.edu	37	chr8	113240998	113240998	+	Missense_Mutation	SNP	G	A	A													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agcttacctttgtttataaaGataaaatccaaatcctgcaa							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:113240998G>A	uc003ynu.2	-	70	11110	c.10951C>T	c.(10951-10953)CTT>TTT	p.L3651F	CSMD3_uc003yns.2_Missense_Mutation_p.L2853F|CSMD3_uc003ynt.2_Missense_Mutation_p.L3611F|CSMD3_uc011lhx.1_Missense_Mutation_p.L3482F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3651	Helical; (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						TGTTTATAAAGATAAAATCCA	0.299										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			21	29	---	---	---	---	PASS	A	113240998	A	A	113240998	3	1	8	1	0	0	0	0	1	0	0	0	3946	942	33	2	180	2	CSMD3	8	113240998	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	4014133	113240998	33123024	194	5610	211	2								
CSMD3	114788	broad.mit.edu	37	chr8	113240999	113240999	+	Nonsense_Mutation	SNP	A	T	T													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gcttacctttgtttataaagAtaaaatccaaatcctgcaaa							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:113240999A>T	uc003ynu.2	-	70	11109	c.10950T>A	c.(10948-10950)TAT>TAA	p.Y3650*	CSMD3_uc003yns.2_Nonsense_Mutation_p.Y2852*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.Y3610*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.Y3481*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3650	Helical; (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						GTTTATAAAGATAAAATCCAA	0.303										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			23	28	---	---	---	---	PASS	T	113240999	T	T	113240999	4	4	8	1	0	0	0	0	0	1	0	0	3946	340	12	5	181	5	CSMD3	8	113240999	Nonsense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	1	113240999	33123023	195	5611	211	2								
CSMD3	114788	broad.mit.edu	37	chr8	113564935	113564935	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgatgattctcctttaaaacGacctccacattcagctgata	5	11	2	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:113564935G>A	uc003ynu.2	-	26	4408	c.4249C>T	c.(4249-4251)CGT>TGT	p.R1417C	CSMD3_uc003yns.2_Missense_Mutation_p.R689C|CSMD3_uc003ynt.2_Missense_Mutation_p.R1377C|CSMD3_uc011lhx.1_Missense_Mutation_p.R1313C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1417	Extracellular (Potential).|CUB 8.					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						CCTTTAAAACGACCTCCACAT	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			11	45	---	---	---	---	PASS	A	113564935	A	A	113564935	3	1	8	1	0	0	0	0	1	0	0	0	3946	1058	37	2	7058	2	CSMD3	8	113564935	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	323936	113564935	32799087	196	5612										
ZHX2	22882	broad.mit.edu	37	chr8	123965654	123965654	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cccttcgccagcaattgcaaAaagtcaagaacaggttcatc	7	12	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:123965654A>G	uc003ypk.1	+	3	2471	c.1904A>G	c.(1903-1905)AAA>AGA	p.K635R		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	635	Homeobox 4.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			GCAATTGCAAAAAGTCAAGAA	0.567													22	78	---	---	---	---	PASS	G	123965654	G	G	123965654	3	3	8	1	0	0	0	0	1	0	0	0	17673	14	1	5	1906	5	ZHX2	8	123965654	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	10400719	123965654	22398368	197	5613										
ADCY8	114	broad.mit.edu	37	chr8	131812772	131812772	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agtccgcaaatcctgggatgGaggcaaacatcaccccaaca	9	13	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:131812772G>T	uc003ytd.3	-	15	3216	c.2960C>A	c.(2959-2961)TCC>TAC	p.S987Y	ADCY8_uc010mds.2_Missense_Mutation_p.S856Y	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	987	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TCCTGGGATGGAGGCAAACAT	0.493										HNSCC(32;0.087)			61	58	---	---	---	---	PASS	T	131812772	T	T	131812772	3	4	8	1	0	0	0	0	1	0	0	0	300	1174	41	2	811	2	ADCY8	8	131812772	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	7847118	131812772	14551250	198	5614										
FAM135B	51059	broad.mit.edu	37	chr8	139160773	139160773	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tagaactcaccatccaggccAtggacacagacaaccaggtg	9	13	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:139160773A>T	uc003yuy.2	-	14	3609	c.3438T>A	c.(3436-3438)CAT>CAA	p.H1146Q	FAM135B_uc003yux.2_Missense_Mutation_p.H1047Q|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.H708Q|FAM135B_uc003yvb.2_Missense_Mutation_p.W674R	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1146										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)			CATCCAGGCCATGGACACAGA	0.348										HNSCC(54;0.14)			26	24	---	---	---	---	PASS	T	139160773	T	T	139160773	3	4	8	1	0	0	0	0	1	0	0	0	5449	214	8	5	810	5	FAM135B	8	139160773	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	7348001	139160773	7203249	199	5615										
BAI1	575	broad.mit.edu	37	chr8	143624780	143624780	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gcagcggcggaagtcgcggtAtgcagaactggactttgagg	17	8	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr8:143624780A>G	uc003ywm.2	+	28	4613	c.4430A>G	c.(4429-4431)TAT>TGT	p.Y1477C		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1477	Cytoplasmic (Potential).|Necessary for interaction with MAGI1.				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					AAGTCGCGGTATGCAGAACTG	0.632													13	19	---	---	---	---	PASS	G	143624780	G	G	143624780	3	3	8	1	0	0	0	0	1	0	0	0	1298	449	16	5	4540	5	BAI1	8	143624780	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	4464007	143624780	2739242	200	5616										
KIAA1432	57589	broad.mit.edu	37	chr9	5770270	5770270	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgccttcttgtcacctttatCtaataaaggtaaatgtaatt	5	7	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr9:5770270C>G	uc003zji.2	+	22	3464	c.3371C>G	c.(3370-3372)TCT>TGT	p.S1124C	KIAA1432_uc003zjl.3_Missense_Mutation_p.S1087C|ERMP1_uc011lme.1_Intron	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	1203						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		TCACCTTTATCTAATAAAGGT	0.393													9	65	---	---	---	---	PASS	G	5770270	G	G	5770270	3	3	8	1	0	0	0	0	1	0	0	0	8233	913	32	2	3531	2	KIAA1432	9	5770270	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08		5770270	135443161	201	5617										
TYRP1	7306	broad.mit.edu	37	chr9	12695754	12695754	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gggtaggacaggaaagctttGgtgaagtggatttctctcat	14	5	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr9:12695754G>T	uc003zkv.3	+	3	803	c.625G>T	c.(625-627)GGT>TGT	p.G209C		NM_000550	NP_000541	P17643	TYRP1_HUMAN	tyrosinase-related protein 1 precursor	209	Lumenal, melanosome (Potential).				melanin biosynthetic process	clathrin-coated endocytic vesicle membrane|endosome membrane|integral to membrane|melanosome membrane	copper ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, another compound as one donor, and incorporation of one atom of oxygen|protein heterodimerization activity|protein homodimerization activity			lung(1)	1		all_cancers(3;3.1e-05)|all_lung(3;1.7e-06)|Lung NSC(3;2.09e-06)|all_epithelial(3;0.000695)|all_hematologic(3;0.0033)|Acute lymphoblastic leukemia(23;0.0744)		GBM - Glioblastoma multiforme(50;9.85e-06)		GGAAAGCTTTGGTGAAGTGGA	0.433									Oculocutaneous_Albinism				4	47	---	---	---	---	PASS	T	12695754	T	T	12695754	3	4	8	1	0	0	0	0	1	0	0	0	16813	1348	47	3	631	3	TYRP1	9	12695754	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	6925484	12695754	128517677	202	5618										
BNC2	54796	broad.mit.edu	37	chr9	16436420	16436420	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tggttggaatgatgggactgGttgggagggaggttggagga	22	1	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr9:16436420G>T	uc003zml.2	-	6	1912	c.1772C>A	c.(1771-1773)ACC>AAC	p.T591N	BNC2_uc011lmw.1_Missense_Mutation_p.T496N|BNC2_uc003zmm.2_Missense_Mutation_p.T549N|BNC2_uc003zmq.1_Missense_Mutation_p.T605N|BNC2_uc003zmr.1_Missense_Mutation_p.T628N|BNC2_uc003zmp.1_Missense_Mutation_p.T619N|BNC2_uc010mij.1_Missense_Mutation_p.T513N|BNC2_uc011lmv.1_Missense_Mutation_p.T417N|BNC2_uc003zmo.1_Missense_Mutation_p.T513N|BNC2_uc003zmj.2_Missense_Mutation_p.T356N|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.T356N|BNC2_uc003zmn.1_Missense_Mutation_p.T356N	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	591	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		GATGGGACTGGTTGGGAGGGA	0.527													44	25	---	---	---	---	PASS	T	16436420	T	T	16436420	3	4	8	1	0	0	0	0	1	0	0	0	1475	1261	44	3	1535	3	BNC2	9	16436420	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	3740666	16436420	124777011	203	5619										
KLHL9	55958	broad.mit.edu	37	chr9	21333994	21333994	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agatcgaatggcagttctatCtgactgcatcactggctgca	10	10	3	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr9:21333994C>T	uc003zoy.2	-	1	1436	c.865G>A	c.(865-867)GAT>AAT	p.D289N	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	289					cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		GCAGTTCTATCTGACTGCATC	0.423													7	56	---	---	---	---	PASS	T	21333994	T	T	21333994	3	4	8	1	0	0	0	0	1	0	0	0	8396	913	32	2	992	2	KLHL9	9	21333994	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	4897574	21333994	119879437	204	5620										
UBAP2	55833	broad.mit.edu	37	chr9	33923422	33923422	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	accactggcctgctggaaggGaggtgtgggagtgctgaggt	19	7	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr9:33923422G>T	uc003ztq.1	-	25	2964	c.2851C>A	c.(2851-2853)CCC>ACC	p.P951T	UBAP2_uc011loc.1_Missense_Mutation_p.P860T|UBAP2_uc011lod.1_Missense_Mutation_p.P684T|UBAP2_uc011loe.1_Missense_Mutation_p.P706T|UBAP2_uc011lof.1_Missense_Mutation_p.P876T|UBAP2_uc003ztn.1_Missense_Mutation_p.P190T|UBAP2_uc003zto.1_Missense_Mutation_p.P190T|UBAP2_uc003ztp.1_Missense_Mutation_p.P190T	NM_018449	NP_060919	Q5T6F2	UBAP2_HUMAN	ubiquitin associated protein 2	951										ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)		TGCTGGAAGGGAGGTGTGGGA	0.587													7	209	---	---	---	---	PASS	T	33923422	T	T	33923422	3	4	8	1	0	0	0	0	1	0	0	0	16834	1174	41	2	528	2	UBAP2	9	33923422	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	12589428	33923422	107290009	205	5621										
CREB3	10488	broad.mit.edu	37	chr9	35736623	35736623	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cttctcagagcctctctgccGaggtcccatcctccccctgc	7	20	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr9:35736623G>A	uc003zxv.2	+	9	1469	c.1016G>A	c.(1015-1017)CGA>CAA	p.R339Q	CREB3_uc010mla.2_Missense_Mutation_p.R258Q	NM_006368	NP_006359	O43889	CREB3_HUMAN	cAMP responsive element binding protein 3	363	Lumenal (Potential).|Pro-rich.				chemotaxis|induction of positive chemotaxis|interspecies interaction between organisms|negative regulation of cell cycle|positive regulation of calcium ion transport|positive regulation of cell migration|positive regulation of transcription, DNA-dependent|reactivation of latent virus|regulation of cell proliferation	cytosol|endoplasmic reticulum|endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|integral to membrane|nucleus|nucleus	cAMP response element binding protein binding|CCR1 chemokine receptor binding|DNA binding|protein dimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity				0	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)	GBM - Glioblastoma multiforme(74;0.0285)		CCTCTCTGCCGAGGTCCCATC	0.582											OREG0019176	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	126	---	---	---	---	PASS	A	35736623	A	A	35736623	3	1	8	1	0	0	0	0	1	0	0	0	3855	1058	37	2	1050	2	CREB3	9	35736623	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1813201	35736623	105476808	206	5622										
ZNF79	7633	broad.mit.edu	37	chr9	130197393	130197393	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccacattcttcagcagtgtgAcggtagcttttgcacaggaa	10	10	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr9:130197393A>G	uc004bqw.3	+	3	544	c.130A>G	c.(130-132)ACG>GCG	p.T44A	ZNF79_uc011maf.1_Missense_Mutation_p.T20A|ZNF79_uc011mag.1_Missense_Mutation_p.T20A	NM_007135	NP_009066	Q15937	ZNF79_HUMAN	zinc finger protein 79	44	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						CAGCAGTGTGACGGTAGCTTT	0.512													39	18	---	---	---	---	PASS	G	130197393	G	G	130197393	3	3	8	1	0	0	0	0	1	0	0	0	18158	275	10	5	140	5	ZNF79	9	130197393	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	94460770	130197393	11016038	207	5623										
MAN1B1	11253	broad.mit.edu	37	chr9	140002866	140002866	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcgggtggctattcttccatCaacaatgtccaggatcctca	8	12	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr9:140002866C>T	uc004cld.2	+	13	1958	c.1923C>T	c.(1921-1923)ATC>ATT	p.I641I	MAN1B1_uc011mep.1_3'UTR|MAN1B1_uc010ncc.2_RNA|MAN1B1_uc004clf.1_Silent_p.I314I|MAN1B1_uc004clg.1_RNA	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	641	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		ATTCTTCCATCAACAATGTCC	0.602													8	79	---	---	---	---	PASS	T	140002866	T	T	140002866	2	4	8	1	0	0	0	0	0	0	0	1	9212	816	29	2		2	MAN1B1	9	140002866	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	9805473	140002866	1210565	208	5624										
CACNA1B	774	broad.mit.edu	37	chr9	140773552	140773552	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccatcatcgccaactgcatcGtgctggccctggagcagcac	10	16	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr9:140773552G>A	uc004cog.2	+	2	476	c.331G>A	c.(331-333)GTG>ATG	p.V111M	uc004cof.1_Intron	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	111	Helical; Name=S1 of repeat I; (Potential).|I.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	CAACTGCATCGTGCTGGCCCT	0.647													5	39	---	---	---	---	PASS	A	140773552	A	A	140773552	3	1	8	1	0	0	0	0	1	0	0	0	2539	1145	40	1	337	1	CACNA1B	9	140773552	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	770686	140773552	439879	209	5625										
UPF2	26019	broad.mit.edu	37	chr10	12077311	12077311	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agtgagcttgatatcgtcttTtggcctctccttgctgctca	9	11	3	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:12077311T>A	uc001ila.2	-	1	586	c.112A>T	c.(112-114)AAA>TAA	p.K38*	UPF2_uc001ilb.2_Nonsense_Mutation_p.K38*|UPF2_uc001ilc.2_Nonsense_Mutation_p.K38*|UPF2_uc009xiz.1_Nonsense_Mutation_p.K38*	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	38	Glu/Lys-rich.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				ATATCGTCTTTTGGCCTCTCC	0.453													49	52	---	---	---	---	PASS	A	12077311	A	A	12077311	4	1	8	1	0	0	0	0	0	1	0	0	17001	1850	64	5	3790	5	UPF2	10	12077311	Nonsense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08		12077311	123457436	210	5626										
ITGA8	8516	broad.mit.edu	37	chr10	15600177	15600177	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caaaaaggcgctgagctcagGggtgtcctctggggaggcag	17	9	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:15600177G>A	uc001ioc.1	-	26	2662	c.2662C>T	c.(2662-2664)CCT>TCT	p.P888S	ITGA8_uc010qcb.1_Missense_Mutation_p.P873S	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	888	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						CTGAGCTCAGGGGTGTCCTCT	0.458													14	17	---	---	---	---	PASS	A	15600177	A	A	15600177	3	1	8	1	0	0	0	0	1	0	0	0	7882	1232	43	3	549	3	ITGA8	10	15600177	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	3522866	15600177	119934570	211	5627										
CUBN	8029	broad.mit.edu	37	chr10	16873262	16873262	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atgtcttaccagagggtgatGaagtccagatgatttcatat	10	6	2	5			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:16873262G>A	uc001ioo.2	-	65	10569	c.10517C>T	c.(10516-10518)TCA>TTA	p.S3506L		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3506	CUB 26.				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)	AGAGGGTGATGAAGTCCAGAT	0.368													5	48	---	---	---	---	PASS	A	16873262	A	A	16873262	3	1	8	1	0	0	0	0	1	0	0	0	4051	1294	45	2	366	2	CUBN	10	16873262	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1273085	16873262	118661485	212	5628										
GPR158	57512	broad.mit.edu	37	chr10	25886869	25886869	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcagccggcagtgctctaaaGaggacaaggagggcgccgac	15	11	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:25886869G>A	uc001isj.2	+	11	2374	c.2314G>A	c.(2314-2316)GAG>AAG	p.E772K	GPR158_uc001isk.2_Missense_Mutation_p.E147K	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	772	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GTGCTCTAAAGAGGACAAGGA	0.572													13	117	---	---	---	---	PASS	A	25886869	A	A	25886869	3	1	8	1	0	0	0	0	1	0	0	0	6663	943	33	2	2356	2	GPR158	10	25886869	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	9013607	25886869	109647878	213	5629										
GAD2	2572	broad.mit.edu	37	chr10	26569943	26569943	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atttctttattttagggccaActctgtgacgtggaatccac	8	9	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:26569943A>T	uc001isp.2	+	12	1666	c.1163A>T	c.(1162-1164)AAC>ATC	p.N388I	GAD2_uc001isq.2_Missense_Mutation_p.N388I	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	388					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	TTTAGGGCCAACTCTGTGACG	0.498													34	64	---	---	---	---	PASS	T	26569943	T	T	26569943	3	4	8	1	0	0	0	0	1	0	0	0	6180	43	2	5	1209	5	GAD2	10	26569943	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	683074	26569943	108964804	214	5630										
APBB1IP	54518	broad.mit.edu	37	chr10	26830582	26830582	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tatgggactcagcataaaatGaaatataaagcgcccactga	8	8	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:26830582G>A	uc001iss.2	+	11	1437	c.1116G>A	c.(1114-1116)ATG>ATA	p.M372I	APBB1IP_uc009xks.1_Missense_Mutation_p.M372I	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	372	PH.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						AGCATAAAATGAAATATAAAG	0.303													9	26	---	---	---	---	PASS	A	26830582	A	A	26830582	3	1	8	1	0	0	0	0	1	0	0	0	760	1290	45	2	1150	2	APBB1IP	10	26830582	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	260639	26830582	108704165	215	5631										
KIAA1462	57608	broad.mit.edu	37	chr10	30318360	30318360	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atttccgtgcaactcaggctCtcgggggaaagaactctagg	12	10	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:30318360C>T	uc001iux.2	-	2	776	c.717G>A	c.(715-717)GAG>GAA	p.E239E	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Silent_p.E101E|KIAA1462_uc009xle.1_Silent_p.E239E	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	239										ovary(4)	4						AACTCAGGCTCTCGGGGGAAA	0.458													34	68	---	---	---	---	PASS	T	30318360	T	T	30318360	2	4	8	1	0	0	0	0	0	0	0	1	8234	912	32	2		2	KIAA1462	10	30318360	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	3487778	30318360	105216387	216	5632										
ZNF37A	7587	broad.mit.edu	37	chr10	38407328	38407328	+	Missense_Mutation	SNP	G	A	A													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cttatgaatgtaatgaatgtGggaagtcattctctgagaag							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:38407328G>A	uc001izk.2	+	8	2068	c.1249G>A	c.(1249-1251)GGG>AGG	p.G417R	ZNF37A_uc001izl.2_Missense_Mutation_p.G417R|ZNF37A_uc001izm.2_Missense_Mutation_p.G417R	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	417	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						TAATGAATGTGGGAAGTCATT	0.363													12	26	---	---	---	---	PASS	A	38407328	A	A	38407328	3	1	8	1	0	0	0	0	1	0	0	0	17869	1348	47	3	1263	3	ZNF37A	10	38407328	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	8088968	38407328	97127419	217	5633	212	2								
ZNF37A	7587	broad.mit.edu	37	chr10	38407329	38407329	+	Missense_Mutation	SNP	G	T	T													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttatgaatgtaatgaatgtgGgaagtcattctctgagaagt							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:38407329G>T	uc001izk.2	+	8	2069	c.1250G>T	c.(1249-1251)GGG>GTG	p.G417V	ZNF37A_uc001izl.2_Missense_Mutation_p.G417V|ZNF37A_uc001izm.2_Missense_Mutation_p.G417V	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	417	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						AATGAATGTGGGAAGTCATTC	0.368													13	25	---	---	---	---	PASS	T	38407329	T	T	38407329	3	4	8	1	0	0	0	0	1	0	0	0	17869	1232	43	3	1264	3	ZNF37A	10	38407329	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1	38407329	97127418	218	5634	212	2								
C10orf72	196740	broad.mit.edu	37	chr10	50285339	50285339	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cagaatgctgaggatccccaCgcagcacacgaggacagcat	11	13	0	2	rs45489505	byFrequency	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:50285339C>A	uc001jhf.2	-	4	588	c.559G>T	c.(559-561)GTG>TTG	p.V187L		NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	187	Helical; (Potential).					integral to membrane|plasma membrane					0						AGGATCCCCACGCAGCACACG	0.522													12	29	---	---	---	---	PASS	A	50285339	A	A	50285339	3	1	8	1	0	0	0	0	1	0	0	0	1615	536	19	1	423	1	C10orf72	10	50285339	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	11878010	50285339	85249408	219	5635										
CHAT	1103	broad.mit.edu	37	chr10	50824633	50824633	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aagatggcagcaaaaactccCagcagtgaggagtctgtgag	13	8	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:50824633C>T	uc001jhz.2	+	2	525	c.372C>T	c.(370-372)CCC>CCT	p.P124P	CHAT_uc001jhv.1_Silent_p.P6P|CHAT_uc001jhx.1_Silent_p.P6P|CHAT_uc001jhy.1_Silent_p.P6P|CHAT_uc001jia.2_Silent_p.P6P|CHAT_uc010qgs.1_Silent_p.P6P	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	124					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	CAAAAACTCCCAGCAGTGAGG	0.567													5	10	---	---	---	---	PASS	T	50824633	T	T	50824633	2	4	8	1	0	0	0	0	0	0	0	1	3313	581	21	3		3	CHAT	10	50824633	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	539294	50824633	84710114	220	5636										
PCDH15	65217	broad.mit.edu	37	chr10	55569209	55569209	+	Missense_Mutation	SNP	T	C	C													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tccatgttgtgtatgtaggcTcagctgctggtggtttttcg							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:55569209T>C	uc010qhs.1	-	37	5011	c.4616A>G	c.(4615-4617)GAG>GGG	p.E1539G	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qht.1_Missense_Mutation_p.E1532G|PCDH15_uc010qhu.1_3'UTR	NM_001142769	NP_001136241	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GTATGTAGGCTCAGCTGCTGG	0.398										HNSCC(58;0.16)			35	45	---	---	---	---	PASS	C	55569209	C	C	55569209	3	2	8	1	0	0	0	0	1	0	0	0	11511	1551	54	5	1315	5	PCDH15	10	55569209	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	4744576	55569209	79965538	221	5637	213	2								
PCDH15	65217	broad.mit.edu	37	chr10	55569211	55569211	+	Silent	SNP	A	T	T													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	catgttgtgtatgtaggctcAgctgctggtggtttttcgat							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:55569211A>T	uc010qhs.1	-	37	5009	c.4614T>A	c.(4612-4614)GCT>GCA	p.A1538A	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qht.1_Silent_p.A1531A|PCDH15_uc010qhu.1_3'UTR	NM_001142769	NP_001136241	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ATGTAGGCTCAGCTGCTGGTG	0.393										HNSCC(58;0.16)			38	49	---	---	---	---	PASS	T	55569211	T	T	55569211	2	4	8	1	0	0	0	0	0	0	0	1	11511	175	7	5		5	PCDH15	10	55569211	Silent	SNP	A	TCGA-18-3414-01A-01D-0983-08	2	55569211	79965536	222	5638	213	2								
DDIT4	54541	broad.mit.edu	37	chr10	74034808	74034808	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctggactcacgactctggccCaagatccaggggctgtttag	12	12	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:74034808C>G	uc001jsx.1	+	3	763	c.561C>G	c.(559-561)CCC>CCG	p.P187P		NM_019058	NP_061931	Q9NX09	DDIT4_HUMAN	RTP801	187					apoptosis					pancreas(1)	1						GACTCTGGCCCAAGATCCAGG	0.637											OREG0020262	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	13	---	---	---	---	PASS	G	74034808	G	G	74034808	2	3	8	1	0	0	0	0	0	0	0	1	4331	581	21	4		4	DDIT4	10	74034808	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	18465597	74034808	61499939	223	5639										
CDHR1	92211	broad.mit.edu	37	chr10	85973009	85973009	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acaacatcacacctggaaggGactgcctatggtccctagag	10	12	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:85973009G>T	uc001kcv.2	+	16	1945	c.1945G>T	c.(1945-1947)GAC>TAC	p.D649Y	CDHR1_uc001kcw.2_Missense_Mutation_p.D649Y|CDHR1_uc009xst.2_Missense_Mutation_p.D353Y|CDHR1_uc001kcx.2_5'UTR	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	649	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						ACCTGGAAGGGACTGCCTATG	0.577													24	61	---	---	---	---	PASS	T	85973009	T	T	85973009	3	4	8	1	0	0	0	0	1	0	0	0	3118	1174	41	2	2007	2	CDHR1	10	85973009	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	11938201	85973009	49561738	224	5640										
WAPAL	23063	broad.mit.edu	37	chr10	88260398	88260398	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttgtttccttgatttcagaaGccactgtagtttctgcattg	8	8	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:88260398G>C	uc001kdo.2	-	3	1044	c.602C>G	c.(601-603)GCT>GGT	p.A201G	WAPAL_uc001kdn.2_Missense_Mutation_p.A244G|WAPAL_uc009xsw.2_Missense_Mutation_p.A201G	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	201	Mediates interaction with the cohesin complex.				cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						GATTTCAGAAGCCACTGTAGT	0.373													24	36	---	---	---	---	PASS	C	88260398	C	C	88260398	3	2	8	1	0	0	0	0	1	0	0	0	17245	971	34	4	3038	4	WAPAL	10	88260398	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	2287389	88260398	47274349	225	5641										
LIPA	3988	broad.mit.edu	37	chr10	91005508	91005508	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tccatcttctgtctcaactaGgtattcctcactagggaatc	6	12	4	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:91005508G>T	uc001kga.3	-	3	322	c.154C>A	c.(154-156)CTA>ATA	p.L52I	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|LIPA_uc009xtq.2_Missense_Mutation_p.L52I	NM_000235	NP_000226	P38571	LICH_HUMAN	lipase A precursor	52					lipid catabolic process	lysosome	lipase activity|sterol esterase activity				0		Colorectal(252;0.0162)		GBM - Glioblastoma multiforme(2;0.00406)		GTCTCAACTAGGTATTCCTCA	0.418													4	34	---	---	---	---	PASS	T	91005508	T	T	91005508	3	4	8	1	0	0	0	0	1	0	0	0	8819	991	35	3	1077	3	LIPA	10	91005508	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	2745110	91005508	44529239	226	5642										
LBX1	10660	broad.mit.edu	37	chr10	102987414	102987414	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgcgcgatttggtcgcgatcGgcgggggacaggtacttctg	17	9	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:102987414G>A	uc001ksx.2	-	2	604	c.459C>T	c.(457-459)GCC>GCT	p.A153A	uc010qpy.1_5'Flank	NM_006562	NP_006553	P52954	LBX1_HUMAN	ladybird homeobox 1	153	Homeobox.				muscle organ development		sequence-specific DNA binding				0		Colorectal(252;0.234)		Epithelial(162;3.22e-09)|all cancers(201;1.79e-07)		GGTCGCGATCGGCGGGGGACA	0.582													10	68	---	---	---	---	PASS	A	102987414	A	A	102987414	2	1	8	1	0	0	0	0	0	0	0	1	8653	1103	39	1		1	LBX1	10	102987414	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	11981906	102987414	32547333	227	5643										
SORCS3	22986	broad.mit.edu	37	chr10	106960916	106960916	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggagaaaggaaaatattcaaGaaacgtaagccaggagctca	11	6	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:106960916G>A	uc001kyi.1	+	16	2393	c.2166G>A	c.(2164-2166)AAG>AAA	p.K722K	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	722	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		AAATATTCAAGAAACGTAAGC	0.478													16	34	---	---	---	---	PASS	A	106960916	A	A	106960916	2	1	8	1	0	0	0	0	0	0	0	1	14932	933	33	2		2	SORCS3	10	106960916	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	3973502	106960916	28573831	228	5644										
C10orf96	374355	broad.mit.edu	37	chr10	118084555	118084555	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtccctgtttcagcacatcaTcttcaccgagcatcaggcgg	9	14	5	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:118084555T>C	uc001lck.2	+	2	283	c.32T>C	c.(31-33)ATC>ACC	p.I11T		NM_198515	NP_940917	P0C7W6	CJ096_HUMAN	hypothetical protein LOC374355	11										ovary(2)	2		Lung NSC(174;0.204)|all_lung(145;0.248)		all cancers(201;0.014)		CAGCACATCATCTTCACCGAG	0.522													6	22	---	---	---	---	PASS	C	118084555	C	C	118084555	3	2	8	1	0	0	0	0	1	0	0	0	1627	1435	50	5	34	5	C10orf96	10	118084555	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	11123639	118084555	17450192	229	5645										
PNLIPRP3	119548	broad.mit.edu	37	chr10	118236315	118236315	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aaatggtgataaatacatctGggaaatatggatataagtaa	9	2	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:118236315G>T	uc001lcl.3	+	11	1425	c.1324G>T	c.(1324-1326)GGG>TGG	p.G442W		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	442	PLAT.				lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		AAATACATCTGGGAAATATGG	0.303													11	22	---	---	---	---	PASS	T	118236315	T	T	118236315	3	4	8	1	0	0	0	0	1	0	0	0	12152	1348	47	3	1366	3	PNLIPRP3	10	118236315	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	151760	118236315	17298432	230	5646										
HSPA12A	259217	broad.mit.edu	37	chr10	118440730	118440730	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgatggactgtcaggtctacGgtgccaccgccactgtccac	11	14	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:118440730G>A	uc001lct.2	-	9	1065	c.960C>T	c.(958-960)ACC>ACT	p.T320T	HSPA12A_uc001lcu.2_Silent_p.T237T	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	320							ATP binding			ovary(1)	1				all cancers(201;0.0158)		TCAGGTCTACGGTGCCACCGC	0.488													10	23	---	---	---	---	PASS	A	118440730	A	A	118440730	2	1	8	1	0	0	0	0	0	0	0	1	7404	1103	39	1		1	HSPA12A	10	118440730	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	204415	118440730	17094017	231	5647										
RGS10	6001	broad.mit.edu	37	chr10	121285580	121285580	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	attttcttaaaatcttcacaTgctagccaaaacaaaacatt	2	9	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:121285580T>C	uc001lee.2	-	2	195	c.195A>G	c.(193-195)GCA>GCG	p.A65A	RGS10_uc001lef.2_Silent_p.A59A|RGS10_uc001leg.2_Silent_p.A73A	NM_002925	NP_002916	O43665	RGS10_HUMAN	regulator of G-protein signaling 10 isoform b	65	RGS.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|protein binding|signal transducer activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00105)|GBM - Glioblastoma multiforme(135;0.195)		AATCTTCACATGCTAGCCAAA	0.303													7	52	---	---	---	---	PASS	C	121285580	C	C	121285580	2	2	8	1	0	0	0	0	0	0	0	1	13293	1451	51	5		5	RGS10	10	121285580	Silent	SNP	T	TCGA-18-3414-01A-01D-0983-08	2844850	121285580	14249167	232	5648										
PWWP2B	170394	broad.mit.edu	37	chr10	134219163	134219163	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgtcttctggaagttcgggtGaggacgatgacttcaagagc	14	7	3	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr10:134219163G>A	uc001lll.3	+	2	1188	c.1159G>A	c.(1159-1161)GAG>AAG	p.E387K	PWWP2B_uc009ybe.2_Missense_Mutation_p.E387K	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	387											0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		AAGTTCGGGTGAGGACGATGA	0.667													7	40	---	---	---	---	PASS	A	134219163	A	A	134219163	3	1	8	1	0	0	0	0	1	0	0	0	12846	1291	45	2	1165	2	PWWP2B	10	134219163	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	12933583	134219163	1315584	233	5649										
NLRP6	171389	broad.mit.edu	37	chr11	278571	278571	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccagggaggaagagaccccaTggaccagccagaggccccct	13	15	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:278571T>C	uc010qvs.1	+	1	2	c.2T>C	c.(1-3)ATG>ACG	p.M1T	NLRP6_uc010qvt.1_Missense_Mutation_p.M1T	NM_138329	NP_612202	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	1	DAPIN.					cytoplasm	ATP binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.28e-28)|Epithelial(43;2.47e-27)|OV - Ovarian serous cystadenocarcinoma(40;4.66e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.0485)|LUSC - Lung squamous cell carcinoma(625;0.122)		AGAGACCCCATGGACCAGCCA	0.647													24	20	---	---	---	---	PASS	C	278571	C	C	278571	3	2	8	1	0	0	0	0	1	0	0	0	10481	1478	51	5	4	5	NLRP6	11	278571	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08		278571	134727945	234	5650										
SIGIRR	59307	broad.mit.edu	37	chr11	408162	408162	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cagtgctggtcacgttgaccCccaggacactggacacaagc	11	14	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:408162C>T	uc001lpd.2	-	4	581	c.251G>A	c.(250-252)GGG>GAG	p.G84E	SIGIRR_uc001lpf.2_Missense_Mutation_p.G84E|SIGIRR_uc001lpe.1_Missense_Mutation_p.G84E|SIGIRR_uc001lpg.2_Missense_Mutation_p.G84E	NM_001135054	NP_001128526	Q6IA17	SIGIR_HUMAN	single Ig IL-1R-related molecule	84	Ig-like C2-type.|Extracellular (Potential).				acute-phase response|innate immune response|negative regulation of chemokine biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of lipopolysaccharide-mediated signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity	integral to membrane	protein binding|transmembrane receptor activity				0		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CACGTTGACCCCCAGGACACT	0.587													10	49	---	---	---	---	PASS	T	408162	T	T	408162	3	4	8	1	0	0	0	0	1	0	0	0	14304	623	22	3	1009	3	SIGIRR	11	408162	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	129591	408162	134598354	235	5651										
HRAS	3265	broad.mit.edu	37	chr11	534286	534286	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cagcgcactcttgcccacacCgccggcgcccaccaccacca	7	23	1	0	rs104894228		TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:534286C>A	uc001lpv.2	-	2	225	c.37G>T	c.(37-39)GGT>TGT	p.G13C	HRAS_uc010qvw.1_Missense_Mutation_p.G13C|HRAS_uc010qvx.1_Missense_Mutation_p.G13C|HRAS_uc010qvy.1_RNA	NM_005343	NP_005334	P01112	RASH_HUMAN	v-Ha-ras Harvey rat sarcoma viral oncogene	13	GTP.		G -> D (in FCSS).|G -> C (in FCSS).		activation of MAPKK activity|axon guidance|blood coagulation|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|Ras protein signal transduction|synaptic transmission	cytosol|Golgi membrane|plasma membrane	GTP binding|GTPase activity|protein C-terminus binding	p.G13R(34)|p.G13V(10)|p.G13D(9)|p.G13S(9)|p.G13C(6)|p.G13G(1)|p.G12_G13insAG(1)		urinary_tract(174)|thyroid(155)|skin(126)|upper_aerodigestive_tract(112)|soft_tissue(37)|prostate(29)|salivary_gland(24)|cervix(23)|stomach(14)|pituitary(10)|lung(9)|haematopoietic_and_lymphoid_tissue(9)|breast(6)|testis(5)|endometrium(4)|bone(3)|large_intestine(2)|oesophagus(2)|penis(2)|kidney(1)|adrenal_gland(1)|thymus(1)	749		all_cancers(49;4.37e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;7.63e-28)|Epithelial(43;7.29e-27)|OV - Ovarian serous cystadenocarcinoma(40;7.15e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Sulindac(DB00605)	TTGCCCACACCGCCGGCGCCC	0.642		6	Mis		infrequent sarcomas|rare other types	rhadomyosarcoma|ganglioneuroblastoma|bladder			Costello_syndrome	HNSCC(11;0.0054)			13	7	---	---	---	---	PASS	A	534286	A	A	534286	3	1	8	1	0	0	0	0	1	0	0	0	7348	652	23	1	615	1	HRAS	11	534286	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	126124	534286	134472230	236	5652										
KRTAP5-6	440023	broad.mit.edu	37	chr11	1718593	1718593	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gctgctgcaagcccgtgtgcTgctgtgtgccagcctgttcc	13	14	0	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:1718593T>G	uc001lua.2	+	1	169	c.118T>G	c.(118-120)TGC>GGC	p.C40G		NM_001012416	NP_001012416	Q6L8G9	KRA56_HUMAN	keratin associated protein 5-6	40	3.|6 X 4 AA repeats of C-C-X-P.					keratin filament					0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GCCCGTGTGCTGCTGTGTGCC	0.667													32	36	---	---	---	---	PASS	G	1718593	G	G	1718593	3	3	8	1	0	0	0	0	1	0	0	0	8565	1580	55	5	120	5	KRTAP5-6	11	1718593	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	1184307	1718593	133287923	237	5653										
ART5	116969	broad.mit.edu	37	chr11	3660919	3660919	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tacaggtctgattatagctcCagagagtcaccaagctctgg	10	10	3	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:3660919C>A	uc001lyb.1	-	2	1133	c.740G>T	c.(739-741)TGG>TTG	p.W247L	ART5_uc001lyc.1_Missense_Mutation_p.W247L|ART5_uc001lyd.2_Intron|ART5_uc009yea.2_Intron	NM_053017	NP_443750	Q96L15	NAR5_HUMAN	ADP-ribosyltransferase 5 precursor	247						extracellular region	NAD(P)+-protein-arginine ADP-ribosyltransferase activity			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0336)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATTATAGCTCCAGAGAGTCAC	0.527													6	69	---	---	---	---	PASS	A	3660919	A	A	3660919	3	1	8	1	0	0	0	0	1	0	0	0	1000	595	21	3	147	3	ART5	11	3660919	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1942326	3660919	131345597	238	5654										
OR52E8	390079	broad.mit.edu	37	chr11	5878375	5878375	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agacgggcaatgcccatgtgCtcacaataagtatgagggat	12	8	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:5878375C>A	uc010qzr.1	-	1	558	c.558G>T	c.(556-558)GAG>GAT	p.E186D	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGCCCATGTGCTCACAATAAG	0.483													5	58	---	---	---	---	PASS	A	5878375	A	A	5878375	3	1	8	1	0	0	0	0	1	0	0	0	11118	796	28	3	397	3	OR52E8	11	5878375	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	2217456	5878375	129128141	239	5655										
OR52E4	390081	broad.mit.edu	37	chr11	5905533	5905533	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgctgggagaatgccttctaTcaatgacacccacttctatc	7	12	3	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:5905533T>C	uc010qzs.1	+	1	11	c.11T>C	c.(10-12)ATC>ACC	p.I4T	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	4	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATGCCTTCTATCAATGACACC	0.428													23	29	---	---	---	---	PASS	C	5905533	C	C	5905533	3	2	8	1	0	0	0	0	1	0	0	0	11116	1435	50	5	13	5	OR52E4	11	5905533	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	27158	5905533	129100983	240	5656										
OR52B2	255725	broad.mit.edu	37	chr11	6190722	6190722	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cactgccacataaagattggCcagcaagatatggacatgtt	9	9	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:6190722C>A	uc010qzy.1	-	1	835	c.835G>T	c.(835-837)GCC>TCC	p.A279S		NM_001004052	NP_001004052	Q96RD2	O52B2_HUMAN	olfactory receptor, family 52, subfamily B,	279	Helical; Name=7; (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;3.69e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TAAAGATTGGCCAGCAAGATA	0.448													12	17	---	---	---	---	PASS	A	6190722	A	A	6190722	3	1	8	1	0	0	0	0	1	0	0	0	11111	739	26	3	139	3	OR52B2	11	6190722	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	285189	6190722	128815794	241	5657										
DCHS1	8642	broad.mit.edu	37	chr11	6655522	6655522	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gccaaatgggccactatccgCgtctgtggctgtcacctagg	12	13	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:6655522C>T	uc001mem.1	-	3	2223	c.1813G>A	c.(1813-1815)GCG>ACG	p.A605T		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	605	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCACTATCCGCGTCTGTGGCT	0.572													13	14	---	---	---	---	PASS	T	6655522	T	T	6655522	3	4	8	1	0	0	0	0	1	0	0	0	4287	768	27	1	8159	1	DCHS1	11	6655522	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	464800	6655522	128350994	242	5658										
HTATIP2	10553	broad.mit.edu	37	chr11	20398241	20398241	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aggagctgataaatcaagcaAttttttatatctacaagtta	6	5	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:20398241A>G	uc009yia.1	+	4	485	c.419A>G	c.(418-420)AAT>AGT	p.N140S	HTATIP2_uc009yib.1_Missense_Mutation_p.N140S|HTATIP2_uc001mpx.2_Missense_Mutation_p.N174S|HTATIP2_uc001mpz.2_Missense_Mutation_p.N140S	NM_006410	NP_006401	Q9BUP3	HTAI2_HUMAN	HIV-1 Tat interactive protein 2, 30kDa isoform	140					angiogenesis|anti-apoptosis|apoptosis|cell differentiation|cellular amino acid metabolic process|induction of apoptosis|interspecies interaction between organisms|nuclear import|regulation of angiogenesis|regulation of transcription from RNA polymerase II promoter	cytoplasm|nuclear envelope	NAD binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor|protein binding|transcription coactivator activity				0						AAATCAAGCAATTTTTTATAT	0.363													11	34	---	---	---	---	PASS	G	20398241	G	G	20398241	3	3	8	1	0	0	0	0	1	0	0	0	7432	101	4	5	634	5	HTATIP2	11	20398241	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	13742719	20398241	114608275	243	5659										
OR4X2	119764	broad.mit.edu	37	chr11	48267476	48267476	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cacagtgataaccgcgatccTgaaccctgtcatctactctc	6	15	3	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:48267476T>C	uc001ngs.1	+	1	821	c.821T>C	c.(820-822)CTG>CCG	p.L274P		NM_001004727	NP_001004727	Q8NGF9	OR4X2_HUMAN	olfactory receptor, family 4, subfamily X,	274	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACCGCGATCCTGAACCCTGTC	0.478													21	45	---	---	---	---	PASS	C	48267476	C	C	48267476	3	2	8	1	0	0	0	0	1	0	0	0	11085	1580	55	5	823	5	OR4X2	11	48267476	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	27869235	48267476	86739040	244	5660										
OR4S1	256148	broad.mit.edu	37	chr11	48328071	48328071	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aatggctgcatgacccagctCttttctgcccacttctttgg	8	13	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:48328071C>G	uc010rhu.1	+	1	297	c.297C>G	c.(295-297)CTC>CTG	p.L99L		NM_001004725	NP_001004725	Q8NGB4	OR4S1_HUMAN	olfactory receptor, family 4, subfamily S,	99	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TGACCCAGCTCTTTTCTGCCC	0.493													3	49	---	---	---	---	PASS	G	48328071	G	G	48328071	2	3	8	1	0	0	0	0	0	0	0	1	11082	900	32	2		2	OR4S1	11	48328071	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	60595	48328071	86678445	245	5661										
OR4A15	81328	broad.mit.edu	37	chr11	55136005	55136005	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgtatcccttattgaaacttGcttgcaccaatacctatgtc	5	11	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:55136005G>T	uc010rif.1	+	1	646	c.646G>T	c.(646-648)GCT>TCT	p.A216S		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	216	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						ATTGAAACTTGCTTGCACCAA	0.418													21	27	---	---	---	---	PASS	T	55136005	T	T	55136005	3	4	8	1	0	0	0	0	1	0	0	0	11040	1319	46	3	648	3	OR4A15	11	55136005	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	6807934	55136005	79870511	246	5662										
OR5D18	219438	broad.mit.edu	37	chr11	55587663	55587663	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgtgagttctcctcactactCtccctttcttgctctgatac	5	14	5	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:55587663C>T	uc010rin.1	+	1	558	c.558C>T	c.(556-558)CTC>CTT	p.L186L		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				CCTCACTACTCTCCCTTTCTT	0.408													19	58	---	---	---	---	PASS	T	55587663	T	T	55587663	2	4	8	1	0	0	0	0	0	0	0	1	11157	900	32	2		2	OR5D18	11	55587663	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	451658	55587663	79418853	247	5663										
ZFP91	80829	broad.mit.edu	37	chr11	58384716	58384716	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acaaaaggcatctcttaattGgcacatgaagaaacatgatg	8	7	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:58384716G>A	uc001nmx.3	+	11	1418	c.1250G>A	c.(1249-1251)TGG>TAG	p.W417*	ZFP91_uc001nmy.3_Nonsense_Mutation_p.W416*|ZFP91-CNTF_uc010rkm.1_RNA	NM_053023	NP_444251	Q96JP5	ZFP91_HUMAN	zinc finger protein 91	417	C2H2-type 4.				activation of NF-kappaB-inducing kinase activity|protein K63-linked ubiquitination	nucleus	nucleic acid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				TCTCTTAATTGGCACATGAAG	0.413													14	38	---	---	---	---	PASS	A	58384716	A	A	58384716	4	1	8	1	0	0	0	0	0	1	0	0	17652	1357	47	3	1292	3	ZFP91	11	58384716	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	2797053	58384716	76621800	248	5664										
OR5A1	219982	broad.mit.edu	37	chr11	59211431	59211431	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cagcccttttcgtgtacttgCgacccagctccagctacttg	8	15	0	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:59211431C>T	uc001nnx.1	+	1	790	c.790C>T	c.(790-792)CGA>TGA	p.R264*		NM_001004728	NP_001004728	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2						CGTGTACTTGCGACCCAGCTC	0.527													40	82	---	---	---	---	PASS	T	59211431	T	T	59211431	4	4	8	1	0	0	0	0	0	1	0	0	11139	760	27	1	792	1	OR5A1	11	59211431	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	826715	59211431	75795085	249	5665										
GANAB	23193	broad.mit.edu	37	chr11	62402444	62402444	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agccatggttaactccacacTgttctcatcacgaccagaga	7	13	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:62402444T>A	uc001nub.2	-	5	442	c.409A>T	c.(409-411)AGT>TGT	p.S137C	GANAB_uc001nua.2_Missense_Mutation_p.S137C|GANAB_uc001nuc.2_Missense_Mutation_p.S40C|GANAB_uc010rma.1_Missense_Mutation_p.S23C|GANAB_uc010rmb.1_Missense_Mutation_p.S23C	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2	137					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5						AACTCCACACTGTTCTCATCA	0.463													46	41	---	---	---	---	PASS	A	62402444	A	A	62402444	3	1	8	1	0	0	0	0	1	0	0	0	6233	1580	55	5	2575	5	GANAB	11	62402444	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	3191013	62402444	72604072	250	5666										
SLC22A12	116085	broad.mit.edu	37	chr11	64359261	64359261	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cctcctggctatttccatccCgccgggccccaaccagaggc	9	19	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:64359261C>A	uc001oam.1	+	1	980	c.233C>A	c.(232-234)CCG>CAG	p.P78Q	SLC22A12_uc009ypr.1_Missense_Mutation_p.P78Q|SLC22A12_uc001oal.1_5'UTR|SLC22A12_uc009yps.1_Missense_Mutation_p.P78Q|SLC22A12_uc001oan.1_Missense_Mutation_p.P78Q|SLC22A12_uc009ypt.2_5'Flank	NM_144585	NP_653186	Q96S37	S22AC_HUMAN	urate anion exchanger 1 isoform a	78					cellular homeostasis|response to drug|urate metabolic process	apical plasma membrane|brush border membrane|integral to membrane	PDZ domain binding|urate transmembrane transporter activity			ovary(1)	1						ATTTCCATCCCGCCGGGCCCC	0.692													8	11	---	---	---	---	PASS	A	64359261	A	A	64359261	3	1	8	1	0	0	0	0	1	0	0	0	14443	652	23	1	235	1	SLC22A12	11	64359261	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1956817	64359261	70647255	251	5667										
KDM2A	22992	broad.mit.edu	37	chr11	66983395	66983395	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctttggtggtacctctgtttGgtatcacatccatcaagggg	11	9	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:66983395G>T	uc001ojw.2	+	8	1526	c.662G>T	c.(661-663)TGG>TTG	p.W221L	KDM2A_uc001ojx.2_RNA|KDM2A_uc001ojy.2_5'UTR	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	221	JmjC.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	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|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						ACCTCTGTTTGGTATCACATC	0.428													6	164	---	---	---	---	PASS	T	66983395	T	T	66983395	3	4	8	1	0	0	0	0	1	0	0	0	8124	1357	47	3	688	3	KDM2A	11	66983395	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	2624134	66983395	68023121	252	5668										
MYEOV	26579	broad.mit.edu	37	chr11	69063118	69063118	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acccggcaggctggacacttCgtggagggctccaaagccgg	15	13	0	0	rs139486495		TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:69063118C>A	uc001oov.2	+	3	651	c.201C>A	c.(199-201)TTC>TTA	p.F67L	MYEOV_uc001oox.2_Intron|MYEOV_uc009ysl.2_Missense_Mutation_p.F67L|MYEOV_uc001oow.2_Missense_Mutation_p.F9L	NM_138768	NP_620123	Q96EZ4	MYEOV_HUMAN	myeloma overexpressed	67											0	all_lung(4;2.21e-19)|Lung NSC(4;6.13e-19)|Melanoma(5;0.00128)		LUSC - Lung squamous cell carcinoma(11;3.33e-11)|STAD - Stomach adenocarcinoma(18;0.00654)|LUAD - Lung adenocarcinoma(13;0.0713)	Kidney(183;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.00361)|LUSC - Lung squamous cell carcinoma(976;0.0153)		CTGGACACTTCGTGGAGGGCT	0.582													4	50	---	---	---	---	PASS	A	69063118	A	A	69063118	3	1	8	1	0	0	0	0	1	0	0	0	10025	883	31	2	207	2	MYEOV	11	69063118	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	2079723	69063118	65943398	253	5669										
PGM2L1	283209	broad.mit.edu	37	chr11	74062614	74062614	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgatctgagcaccagtttccCagtaaacctagatgataagt	8	9	1	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:74062614C>T	uc001ovb.1	-	6	859	c.563G>A	c.(562-564)TGG>TAG	p.W188*		NM_173582	NP_775853	Q6PCE3	PGM2L_HUMAN	phosphoglucomutase 2-like 1	188					glucose 1-phosphate metabolic process	cytosol	glucose-1,6-bisphosphate synthase activity|phosphoglucomutase activity			ovary(1)	1	Breast(11;3.32e-06)					ACCAGTTTCCCAGTAAACCTA	0.328													8	22	---	---	---	---	PASS	T	74062614	T	T	74062614	4	4	8	1	0	0	0	0	0	1	0	0	11799	595	21	3	1341	3	PGM2L1	11	74062614	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	4999496	74062614	60943902	254	5670										
ODZ4	26011	broad.mit.edu	37	chr11	78380545	78380545	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cactccagctgccagcccggTtgtaggccttgatgagcagg	13	13	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:78380545T>A	uc001ozl.3	-	32	7308	c.6845A>T	c.(6844-6846)AAC>ATC	p.N2282I	ODZ4_uc001ozk.3_Missense_Mutation_p.N507I|ODZ4_uc009yvb.1_Missense_Mutation_p.N866I	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2282	Extracellular (Potential).|YD 21.				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						GCCAGCCCGGTTGTAGGCCTT	0.592													22	48	---	---	---	---	PASS	A	78380545	A	A	78380545	3	1	8	1	0	0	0	0	1	0	0	0	10837	1725	60	5	1476	5	ODZ4	11	78380545	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	4317931	78380545	56625971	255	5671										
SYTL2	54843	broad.mit.edu	37	chr11	85415985	85415985	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aaatcaagttccacctccccTaggaaactattgcgcttaaa	5	12	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:85415985T>C	uc010rth.1	-	14	2466	c.2190A>G	c.(2188-2190)CTA>CTG	p.L730L	SYTL2_uc010rtg.1_Silent_p.L731L|SYTL2_uc010rti.1_Silent_p.L706L|SYTL2_uc010rtj.1_Silent_p.L698L|SYTL2_uc001pav.2_Silent_p.L172L|SYTL2_uc010rte.1_Silent_p.L132L|SYTL2_uc001pax.2_Silent_p.L172L|SYTL2_uc001paz.2_Silent_p.L51L|SYTL2_uc001pba.2_Silent_p.L115L|SYTL2_uc001pay.2_Silent_p.L161L|SYTL2_uc001paw.2_Silent_p.L132L|SYTL2_uc009yvj.2_RNA|SYTL2_uc001pbd.2_Silent_p.L1028L|SYTL2_uc001pbb.2_Silent_p.L1068L|SYTL2_uc001pbc.2_Silent_p.L1052L|SYTL2_uc010rtf.1_Silent_p.L548L	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	730	C2 1.				intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		CCACCTCCCCTAGGAAACTAT	0.388													24	33	---	---	---	---	PASS	C	85415985	C	C	85415985	2	2	8	1	0	0	0	0	0	0	0	1	15480	1509	53	5		5	SYTL2	11	85415985	Silent	SNP	T	TCGA-18-3414-01A-01D-0983-08	7035440	85415985	49590531	256	5672										
PICALM	8301	broad.mit.edu	37	chr11	85701428	85701428	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atcatcaacagcatctacagTagcagagaaaggatctgtgc	9	9	4	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:85701428T>C	uc001pbm.2	-	13	1559	c.1273A>G	c.(1273-1275)ACT>GCT	p.T425A	PICALM_uc001pbl.2_Intron|PICALM_uc001pbn.2_Intron|PICALM_uc010rtl.1_Intron|PICALM_uc010rtk.1_Intron|PICALM_uc001pbo.1_Missense_Mutation_p.T57A	NM_007166	NP_009097	Q13492	PICAL_HUMAN	phosphatidylinositol-binding clathrin assembly	425					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)				GCATCTACAGTAGCAGAGAAA	0.338			T	MLLT10|MLL	TALL|AML|								6	19	---	---	---	---	PASS	C	85701428	C	C	85701428	3	2	8	1	0	0	0	0	1	0	0	0	11880	1638	57	5	745	5	PICALM	11	85701428	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	285443	85701428	49305088	257	5673										
EED	8726	broad.mit.edu	37	chr11	85988171	85988171	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atgaggttttctatggatttCtggcaaaaggtatcaacata	9	5	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:85988171C>A	uc001pbp.2	+	10	1573	c.1116C>A	c.(1114-1116)TTC>TTA	p.F372L	EED_uc010rtm.1_Missense_Mutation_p.F372L|EED_uc001pbq.2_Missense_Mutation_p.F372L|EED_uc001pbr.2_Missense_Mutation_p.F397L|EED_uc001pbs.2_Missense_Mutation_p.F292L|EED_uc010rtn.1_RNA	NM_003797	NP_003788	O75530	EED_HUMAN	embryonic ectoderm development isoform a	372	Interaction with EZH2 (By similarity).|Required for interaction with the matrix protein MA of HIV-1.|WD 6.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	histone methyltransferase activity|identical protein binding			skin(1)|pancreas(1)	2		Acute lymphoblastic leukemia(157;7.24e-07)|all_hematologic(158;0.00092)				CTATGGATTTCTGGCAAAAGG	0.333													11	28	---	---	---	---	PASS	A	85988171	A	A	85988171	3	1	8	1	0	0	0	0	1	0	0	0	4922	912	32	2	1154	2	EED	11	85988171	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	286743	85988171	49018345	258	5674										
NAALAD2	10003	broad.mit.edu	37	chr11	89911209	89911209	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caagactatgcagaagctttGaaaaactatgcagcaagtat	8	7	0	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:89911209G>A	uc001pdf.3	+	16	1891	c.1782G>A	c.(1780-1782)TTG>TTA	p.L594L	NAALAD2_uc009yvx.2_Silent_p.L561L|NAALAD2_uc009yvy.2_Intron	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	594	Extracellular (Potential).				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				CAGAAGCTTTGAAAAACTATG	0.338													26	32	---	---	---	---	PASS	A	89911209	A	A	89911209	2	1	8	1	0	0	0	0	0	0	0	1	10128	1281	45	2		2	NAALAD2	11	89911209	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	3923038	89911209	45095307	259	5675										
ANGPTL5	253935	broad.mit.edu	37	chr11	101762074	101762074	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cagatttaatcttgacaggtGagttgtttttggtccacgtg	11	6	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:101762074G>T	uc001pgl.2	-	9	1699	c.1103C>A	c.(1102-1104)TCA>TAA	p.S368*		NM_178127	NP_835228	Q86XS5	ANGL5_HUMAN	angiopoietin-like 5 precursor	368	Fibrinogen C-terminal.				signal transduction	extracellular space	receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.043)		BRCA - Breast invasive adenocarcinoma(274;0.0328)		CTTGACAGGTGAGTTGTTTTT	0.333													23	47	---	---	---	---	PASS	T	101762074	T	T	101762074	4	4	8	1	0	0	0	0	0	1	0	0	617	1294	45	2	67	2	ANGPTL5	11	101762074	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	11850865	101762074	33244442	260	5676										
EXPH5	23086	broad.mit.edu	37	chr11	108384542	108384542	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtctcattaccatgtgatacCaccatgctatccagtgtgga	8	11	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:108384542C>A	uc001pkk.2	-	6	1803	c.1692G>T	c.(1690-1692)GTG>GTT	p.V564V	EXPH5_uc010rvy.1_Silent_p.V376V|EXPH5_uc010rvz.1_Silent_p.V408V|EXPH5_uc010rwa.1_Silent_p.V488V	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	564					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		CATGTGATACCACCATGCTAT	0.438													4	31	---	---	---	---	PASS	A	108384542	A	A	108384542	2	1	8	1	0	0	0	0	0	0	0	1	5322	581	21	3		3	EXPH5	11	108384542	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	6622468	108384542	26621974	261	5677										
DSCAML1	57453	broad.mit.edu	37	chr11	117351887	117351887	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agggtggggcaggtgaaggtAccttgcacagtgagttggat	18	5	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:117351887A>T	uc001prh.1	-	13	2838	c.2836_splice	c.e13+1	p.E946_splice		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1						axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		AGGTGAAGGTACCTTGCACAG	0.627													6	23	---	---	---	---	PASS	T	117351887	T	T	117351887	5	4	8	1	0	0	0	0	0	0	1	0	4769	405	14	5	3587	5	DSCAML1	11	117351887	Splice_Site	SNP	A	TCGA-18-3414-01A-01D-0983-08	8967345	117351887	17654629	262	5678										
KCNJ1	3758	broad.mit.edu	37	chr11	128709173	128709173	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	actgtcttgctaaagttatgGaaatccactcggtatttccc	7	10	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:128709173G>T	uc001qeo.1	-	2	1074	c.1023C>A	c.(1021-1023)TTC>TTA	p.F341L	KCNJ1_uc001qep.1_Missense_Mutation_p.F322L|KCNJ1_uc001qeq.1_Missense_Mutation_p.F322L|KCNJ1_uc001qer.1_Missense_Mutation_p.F322L|KCNJ1_uc001qes.1_Missense_Mutation_p.F322L	NM_000220	NP_000211	P48048	IRK1_HUMAN	potassium inwardly-rectifying channel J1 isoform	341	Cytoplasmic (By similarity).				excretion	voltage-gated potassium channel complex	ATP binding|inward rectifier potassium channel activity			ovary(3)|breast(1)	4	all_hematologic(175;0.0641)	all_lung(97;4.89e-06)|Lung NSC(97;9.34e-06)|Breast(109;0.00123)|all_hematologic(192;0.00793)|Renal(330;0.0112)|all_neural(223;0.0189)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;4.05e-06)|LUSC - Lung squamous cell carcinoma(976;0.008)|Lung(977;0.00942)	Acetohexamide(DB00414)|Chlorpropamide(DB00672)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Glimepiride(DB00222)|Glipizide(DB01067)|Glycodiazine(DB01382)|Minoxidil(DB00350)|Nateglinide(DB00731)|Repaglinide(DB00912)|Tolazamide(DB00839)|Tolbutamide(DB01124)	TAAAGTTATGGAAATCCACTC	0.483													14	23	---	---	---	---	PASS	T	128709173	T	T	128709173	3	4	8	1	0	0	0	0	1	0	0	0	8043	1165	41	2	156	2	KCNJ1	11	128709173	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	11357286	128709173	6297343	263	5679										
NTM	50863	broad.mit.edu	37	chr11	132016281	132016281	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gatcctcgcgtggtccttctGagcaacacccaaacgcagta	9	14	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:132016281G>T	uc001qgp.2	+	2	937	c.273G>T	c.(271-273)CTG>CTT	p.L91L	NTM_uc001qgm.2_Silent_p.L91L|NTM_uc010sch.1_Silent_p.L82L|NTM_uc010sci.1_Silent_p.L91L|NTM_uc010scj.1_Silent_p.L50L|NTM_uc001qgo.2_Silent_p.L91L|NTM_uc001qgq.2_Silent_p.L91L	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	91	Ig-like C2-type 1.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						TGGTCCTTCTGAGCAACACCC	0.567													22	43	---	---	---	---	PASS	T	132016281	T	T	132016281	2	4	8	1	0	0	0	0	0	0	0	1	10699	1277	45	2		2	NTM	11	132016281	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	3307108	132016281	2990235	264	5680										
NTM	50863	broad.mit.edu	37	chr11	132180054	132180054	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tacaggtgtccccgtgggacAaaaggggacactgcagtgtg	15	9	0	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:132180054A>C	uc001qgp.2	+	5	1374	c.710A>C	c.(709-711)CAA>CCA	p.Q237P	NTM_uc001qgm.2_Missense_Mutation_p.Q237P|NTM_uc010sch.1_Missense_Mutation_p.Q228P|NTM_uc010sci.1_Missense_Mutation_p.Q237P|NTM_uc010scj.1_Missense_Mutation_p.Q196P|NTM_uc001qgo.2_Missense_Mutation_p.Q237P|NTM_uc001qgq.2_Missense_Mutation_p.Q237P|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	237	Ig-like C2-type 3.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						CCCGTGGGACAAAAGGGGACA	0.483													42	83	---	---	---	---	PASS	C	132180054	C	C	132180054	3	2	8	1	0	0	0	0	1	0	0	0	10699	130	5	5	814	5	NTM	11	132180054	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	163773	132180054	2826462	265	5681										
B3GAT1	27087	broad.mit.edu	37	chr11	134253897	134253897	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggccatgcgcgtcagctcggCcttctgcaccgggcggctgt	15	15	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr11:134253897C>T	uc001qhq.2	-	4	559	c.298G>A	c.(298-300)GCC>ACC	p.A100T	B3GAT1_uc001qhr.2_Missense_Mutation_p.A100T|B3GAT1_uc010scv.1_Missense_Mutation_p.A113T	NM_018644	NP_061114	Q9P2W7	B3GA1_HUMAN	beta-1,3-glucuronyltransferase 1	100	Lumenal (Potential).				carbohydrate metabolic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.39e-23)|all_epithelial(12;7.17e-17)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|Medulloblastoma(222;0.0125)|all_neural(223;0.0137)|Esophageal squamous(93;0.0559)		Epithelial(10;2.58e-11)|all cancers(11;5.75e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.000879)|Lung(977;0.0864)		GTCAGCTCGGCCTTCTGCACC	0.716													6	5	---	---	---	---	PASS	T	134253897	T	T	134253897	3	4	8	1	0	0	0	0	1	0	0	0	1253	739	26	3	718	3	B3GAT1	11	134253897	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	2073843	134253897	752619	266	5682										
TULP3	7289	broad.mit.edu	37	chr12	3048522	3048522	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acgtgtggcagatgacgtgtTcacactggattacaactacc	10	10	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:3048522T>A	uc010seh.1	+	11	1322	c.1241T>A	c.(1240-1242)TTC>TAC	p.F414Y	TULP3_uc009zec.1_Missense_Mutation_p.F141Y|TULP3_uc010seg.1_RNA|TULP3_uc001qlj.2_Missense_Mutation_p.F414Y|TULP3_uc010sei.1_Missense_Mutation_p.F238Y	NM_003324	NP_003315	O75386	TULP3_HUMAN	tubby like protein 3 isoform 1	414					G-protein coupled receptor protein signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|extracellular region|nucleus|plasma membrane	phosphatidylinositol-4,5-bisphosphate binding				0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GATGACGTGTTCACACTGGAT	0.433													54	77	---	---	---	---	PASS	A	3048522	A	A	3048522	3	1	8	1	0	0	0	0	1	0	0	0	16772	1783	62	5	1283	5	TULP3	12	3048522	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08		3048522	130803373	267	5683										
CHD4	1108	broad.mit.edu	37	chr12	6696922	6696922	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atagttcctcagtgccaaatTtgaggatatcatcaagctcc	7	10	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:6696922T>C	uc001qpo.2	-	24	3823	c.3659A>G	c.(3658-3660)AAA>AGA	p.K1220R	CHD4_uc001qpn.2_Missense_Mutation_p.K1213R|CHD4_uc001qpp.2_Missense_Mutation_p.K1217R	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1220					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						AGTGCCAAATTTGAGGATATC	0.493													24	32	---	---	---	---	PASS	C	6696922	C	C	6696922	3	2	8	1	0	0	0	0	1	0	0	0	3327	1841	64	5	2147	5	CHD4	12	6696922	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	3648400	6696922	127154973	268	5684										
CLEC1A	51267	broad.mit.edu	37	chr12	10224077	10224077	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggatggccacacagtctctgCttcttgggctggtgacatct	12	11	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:10224077C>T	uc001qxb.2	-	6	782	c.698G>A	c.(697-699)AGC>AAC	p.S233N	CLEC1A_uc009zhf.2_Missense_Mutation_p.S145N|CLEC1A_uc001qxc.2_Missense_Mutation_p.S145N|CLEC1A_uc001qxd.2_Missense_Mutation_p.S190N|CLEC1A_uc010sgx.1_Missense_Mutation_p.S131N	NM_016511	NP_057595	Q8NC01	CLC1A_HUMAN	C-type lectin-like receptor-1	233	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane|intracellular	sugar binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2						ACAGTCTCTGCTTCTTGGGCT	0.383													33	83	---	---	---	---	PASS	T	10224077	T	T	10224077	3	4	8	1	0	0	0	0	1	0	0	0	3505	797	28	3	148	3	CLEC1A	12	10224077	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	3527155	10224077	123627818	269	5685										
PRB2	653247	broad.mit.edu	37	chr12	11546665	11546665	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggggtggtccttgtggctttCctggaggagatcggggactt	18	7	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:11546665C>G	uc010shk.1	-	3	382	c.347G>C	c.(346-348)GGA>GCA	p.G116A		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			TTGTGGCTTTCCTGGAGGAGA	0.597													10	372	---	---	---	---	PASS	G	11546665	G	G	11546665	3	3	8	1	0	0	0	0	1	0	0	0	12443	855	30	2	907	2	PRB2	12	11546665	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1322588	11546665	122305230	270	5686										
GPRC5A	9052	broad.mit.edu	37	chr12	13061863	13061863	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cattgccatctgggtggcctGgatcaccctgctcatgcttc	10	14	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:13061863G>T	uc001rba.2	+	2	1330	c.680G>T	c.(679-681)TGG>TTG	p.W227L	GPRC5A_uc001raz.2_Missense_Mutation_p.W227L	NM_003979	NP_003970	Q8NFJ5	RAI3_HUMAN	G protein-coupled receptor, family C, group 5,	227	Helical; Name=6; (Potential).					cytoplasmic vesicle membrane|Golgi apparatus|integral to plasma membrane	G-protein coupled receptor activity				0		Prostate(47;0.141)		BRCA - Breast invasive adenocarcinoma(232;0.0708)	Tretinoin(DB00755)	TGGGTGGCCTGGATCACCCTG	0.572													33	49	---	---	---	---	PASS	T	13061863	T	T	13061863	3	4	8	1	0	0	0	0	1	0	0	0	6724	1357	47	3	682	3	GPRC5A	12	13061863	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1515198	13061863	120790032	271	5687										
GRIN2B	2904	broad.mit.edu	37	chr12	13724888	13724888	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aagggggtgagaagtcattaGgtctctggaactggagagag	17	4	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:13724888G>C	uc001rbt.2	-	10	2200	c.2021C>G	c.(2020-2022)CCT>CGT	p.P674R		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	674	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GAAGTCATTAGGTCTCTGGAA	0.323													10	12	---	---	---	---	PASS	C	13724888	C	C	13724888	3	2	8	1	0	0	0	0	1	0	0	0	6780	1000	35	4	2449	4	GRIN2B	12	13724888	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	663025	13724888	120127007	272	5688										
SLCO1B3	28234	broad.mit.edu	37	chr12	21229461	21229461	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtggtccaccaacagctgtgGagcacgaggggcttgtagga	16	9	0	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:21229461G>T	uc010sil.1	+	15	2071	c.2006G>T	c.(2005-2007)GGA>GTA	p.G669V	LST-3TM12_uc010sim.1_Missense_Mutation_p.G608V|LST-3TM12_uc010sin.1_Missense_Mutation_p.G561V			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					AACAGCTGTGGAGCACGAGGG	0.348													41	70	---	---	---	---	PASS	T	21229461	T	T	21229461	3	4	8	1	0	0	0	0	1	0	0	0	14724	1174	41	2		2	SLCO1B3	12	21229461	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	7504573	21229461	112622434	273	5689										
GYS2	2998	broad.mit.edu	37	chr12	21712602	21712602	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	taccttaataatgcatcataGagtttttttccaaacttttc	3	8	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:21712602G>C	uc001rfb.2	-	9	1467	c.1212C>G	c.(1210-1212)CTC>CTG	p.L404L		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	404					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						ATGCATCATAGAGTTTTTTTC	0.279													4	12	---	---	---	---	PASS	C	21712602	C	C	21712602	2	2	8	1	0	0	0	0	0	0	0	1	6913	929	33	2		2	GYS2	12	21712602	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	483141	21712602	112139293	274	5690										
PPFIBP1	8496	broad.mit.edu	37	chr12	27832534	27832534	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccgcctccatctccagattcCaaaaagaaatccagaggtat	6	13	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:27832534C>A	uc001ric.1	+	19	2123	c.1746C>A	c.(1744-1746)TCC>TCA	p.S582S	PPFIBP1_uc010sjr.1_Silent_p.S413S|PPFIBP1_uc001rib.1_Silent_p.S576S|PPFIBP1_uc001ria.2_Silent_p.S551S|PPFIBP1_uc001rid.1_Silent_p.S429S|PPFIBP1_uc001rif.1_Silent_p.S89S	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	582					cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					CTCCAGATTCCAAAAAGAAAT	0.458													6	148	---	---	---	---	PASS	A	27832534	A	A	27832534	2	1	8	1	0	0	0	0	0	0	0	1	12313	581	21	3		3	PPFIBP1	12	27832534	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	6119932	27832534	106019361	275	5691										
MLL2	8085	broad.mit.edu	37	chr12	49420600	49420600	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acaggtccaggtccaggttcAgcagacgggcaggcccatca	13	13	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:49420600A>C	uc001rta.3	-	48	15149	c.15149T>G	c.(15148-15150)CTG>CGG	p.L5050R		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5050					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GTCCAGGTTCAGCAGACGGGC	0.622			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			6	54	---	---	---	---	PASS	C	49420600	C	C	49420600	3	2	8	1	0	0	0	0	1	0	0	0	9621	188	7	5	1492	5	MLL2	12	49420600	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	21588066	49420600	84431295	276	5692										
ITGA5	3678	broad.mit.edu	37	chr12	54794636	54794636	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gttcaggatctcacctccagGccctttgggttaatggggtg	13	10	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:54794636G>A	uc001sga.2	-	25	2705	c.2637C>T	c.(2635-2637)GGC>GGT	p.G879G		NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	879	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						TCACCTCCAGGCCCTTTGGGT	0.572													12	19	---	---	---	---	PASS	A	54794636	A	A	54794636	2	1	8	1	0	0	0	0	0	0	0	1	7879	1190	42	3		3	ITGA5	12	54794636	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	5374036	54794636	79057259	277	5693										
AGAP2	116986	broad.mit.edu	37	chr12	58135800	58135800	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agcctgcttggccacctcatGtcgtctgacttctgctctca	8	15	4	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:58135800G>T	uc001spr.2	-	1	141	c.55C>A	c.(55-57)CAT>AAT	p.H19N	TSPAN31_uc001spt.2_5'Flank|TSPAN31_uc009zqb.2_5'Flank	NM_014770	NP_055585	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-S	Error:Variant_position_missing_in_Q99490_after_alignment					axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						GCCACCTCATGTCGTCTGACT	0.587													22	46	---	---	---	---	PASS	T	58135800	T	T	58135800	3	4	8	1	0	0	0	0	1	0	0	0	368	1377	48	3	3763	3	AGAP2	12	58135800	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	3341164	58135800	75716095	278	5694										
LEMD3	23592	broad.mit.edu	37	chr12	65633948	65633948	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtcataatgaagcctgccagGaaaacaaagatttacaacct	7	9	1	2	rs147072982	byFrequency	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:65633948G>T	uc001ssl.1	+	8	2062	c.2056G>T	c.(2056-2058)GAA>TAA	p.E686*	LEMD3_uc009zqo.1_Nonsense_Mutation_p.E685*	NM_014319	NP_055134	Q9Y2U8	MAN1_HUMAN	LEM domain containing 3	686					negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway	integral to nuclear inner membrane|membrane fraction	DNA binding|nucleotide binding|protein binding			central_nervous_system(3)|ovary(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0104)		AGCCTGCCAGGAAAACAAAGA	0.328													13	29	---	---	---	---	PASS	T	65633948	T	T	65633948	4	4	8	1	0	0	0	0	0	1	0	0	8721	1175	41	2	2086	2	LEMD3	12	65633948	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	7498148	65633948	68217947	279	5695										
HELB	92797	broad.mit.edu	37	chr12	66700214	66700214	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctcgacactttaaatggatcAtagggtcaggttctaaagag	10	7	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:66700214A>T	uc001sti.2	+	3	725	c.697A>T	c.(697-699)ATA>TTA	p.I233L	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	233					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		TAAATGGATCATAGGGTCAGG	0.358													18	35	---	---	---	---	PASS	T	66700214	T	T	66700214	3	4	8	1	0	0	0	0	1	0	0	0	7045	217	8	5	707	5	HELB	12	66700214	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	1066266	66700214	67151681	280	5696										
PPFIA2	8499	broad.mit.edu	37	chr12	81769626	81769626	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcattttctagtttatcattCatgtcatgtatggaggtaga	8	5	5	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:81769626C>T	uc001szo.1	-	10	1241	c.1080G>A	c.(1078-1080)ATG>ATA	p.M360I	PPFIA2_uc010sue.1_Missense_Mutation_p.M260I|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	286										ovary(3)|lung(2)|pancreas(1)	6						GTTTATCATTCATGTCATGTA	0.408													8	15	---	---	---	---	PASS	T	81769626	T	T	81769626	3	4	8	1	0	0	0	0	1	0	0	0	12310	826	29	2	2785	2	PPFIA2	12	81769626	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	15069412	81769626	52082269	281	5697										
RASSF9	9182	broad.mit.edu	37	chr12	86199616	86199616	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aaacgtagcctcatgttcctCaagcaaagcctggatgacat	8	11	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:86199616C>T	uc001taf.1	-	2	511	c.172G>A	c.(172-174)GAG>AAG	p.E58K		NM_005447	NP_005438	O75901	RASF9_HUMAN	Ras association (RalGDS/AF-6) domain family	58	Ras-associating.				endosome transport|protein targeting|signal transduction	cytosol|endosome|trans-Golgi network transport vesicle membrane	protein binding|transporter activity			ovary(1)	1						TCATGTTCCTCAAGCAAAGCC	0.488													39	91	---	---	---	---	PASS	T	86199616	T	T	86199616	3	4	8	1	0	0	0	0	1	0	0	0	13093	835	29	2	1139	2	RASSF9	12	86199616	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	4429990	86199616	47652279	282	5698										
MYO1H	283446	broad.mit.edu	37	chr12	109849790	109849790	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caaacatgcacacttcgaaaCgtacatactttattttacca	3	11	0	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:109849790C>T	uc010sxn.1	+	13	1454	c.1454C>T	c.(1453-1455)ACC>ATC	p.T485I		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						CACTTCGAAACGTACATACTT	0.393													6	7	---	---	---	---	PASS	T	109849790	T	T	109849790	3	4	8	1	0	0	0	0	1	0	0	0	10075	550	19	1	1504	1	MYO1H	12	109849790	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	23650174	109849790	24002105	283	5699										
DNAH10	196385	broad.mit.edu	37	chr12	124401007	124401007	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cctcccttctcttccaggtcGcttcctttaatgaccctgac	5	17	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:124401007G>A	uc001uft.3	+	62	10397	c.10372G>A	c.(10372-10374)GCT>ACT	p.A3458T		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	3458	AAA 5 (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)		CTTCCAGGTCGCTTCCTTTAA	0.507													44	76	---	---	---	---	PASS	A	124401007	A	A	124401007	3	1	8	1	0	0	0	0	1	0	0	0	4598	1087	38	1	10618	1	DNAH10	12	124401007	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	14551217	124401007	9450888	284	5700										
ANKLE2	23141	broad.mit.edu	37	chr12	133327335	133327335	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caaattcctctagcaaatttCtcagcgtcttctctggtaga	6	11	4	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr12:133327335C>G	uc001ukx.2	-	3	808	c.741G>C	c.(739-741)GAG>GAC	p.E247D	ANKLE2_uc001uky.3_Missense_Mutation_p.E185D	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	247						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		TAGCAAATTTCTCAGCGTCTT	0.393													12	33	---	---	---	---	PASS	G	133327335	G	G	133327335	3	3	8	1	0	0	0	0	1	0	0	0	633	912	32	2	2119	2	ANKLE2	12	133327335	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	8926328	133327335	524560	285	5701										
POSTN	10631	broad.mit.edu	37	chr13	38154048	38154048	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttcccttaaaagcatcattgGttggcacaaataatgtccag	7	9	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr13:38154048G>T	uc001uwo.3	-	12	1728	c.1610C>A	c.(1609-1611)ACC>AAC	p.T537N	POSTN_uc010tet.1_Missense_Mutation_p.T65N|POSTN_uc001uwp.3_Missense_Mutation_p.T537N|POSTN_uc001uwr.2_Missense_Mutation_p.T537N|POSTN_uc001uwq.2_Missense_Mutation_p.T537N|POSTN_uc010teu.1_Missense_Mutation_p.T537N|POSTN_uc010tev.1_Missense_Mutation_p.T537N|POSTN_uc010tew.1_Missense_Mutation_p.T537N|POSTN_uc010tex.1_Missense_Mutation_p.T452N	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	537	FAS1 4.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		AGCATCATTGGTTGGCACAAA	0.408													14	29	---	---	---	---	PASS	T	38154048	T	T	38154048	3	4	8	1	0	0	0	0	1	0	0	0	12259	1261	44	3	948	3	POSTN	13	38154048	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08		38154048	77015830	286	5702										
TRPC4	7223	broad.mit.edu	37	chr13	38357173	38357173	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttttctgatagcatgtaataGagcatctccaacatagacat	6	8	2	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr13:38357173G>T	uc001uws.2	-	2	533	c.298C>A	c.(298-300)CTA>ATA	p.L100I	TRPC4_uc010abv.2_5'UTR|TRPC4_uc001uwt.2_Missense_Mutation_p.L100I|TRPC4_uc010tey.1_Missense_Mutation_p.L100I|TRPC4_uc010abw.2_Missense_Mutation_p.L100I|TRPC4_uc010abx.2_Missense_Mutation_p.L100I|TRPC4_uc010aby.2_Missense_Mutation_p.L100I	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	100	ANK 3.|Cytoplasmic (Potential).|Multimerization domain (By similarity).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		GCATGTAATAGAGCATCTCCA	0.264													11	20	---	---	---	---	PASS	T	38357173	T	T	38357173	3	4	8	1	0	0	0	0	1	0	0	0	16577	933	33	2	2690	2	TRPC4	13	38357173	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	203125	38357173	76812705	287	5703										
PCDH8	5100	broad.mit.edu	37	chr13	53419706	53419706	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aaatggtgttgaaggagtgtCctttccacaccgccacaggg	12	10	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr13:53419706C>G	uc001vhi.2	-	2	2896	c.2693G>C	c.(2692-2694)GGA>GCA	p.G898A	PCDH8_uc001vhj.2_Missense_Mutation_p.G801A	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	898	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GAAGGAGTGTCCTTTCCACAC	0.587													11	29	---	---	---	---	PASS	G	53419706	G	G	53419706	3	3	8	1	0	0	0	0	1	0	0	0	11517	855	30	2	527	2	PCDH8	13	53419706	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	15062533	53419706	61750172	288	5704										
DIAPH3	81624	broad.mit.edu	37	chr13	60590048	60590048	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	taattacgtatgtacataccTgcgtattcatcagggctttt	7	8	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr13:60590048T>A	uc001vht.2	-	7	989	c.770A>T	c.(769-771)CAG>CTG	p.Q257L	DIAPH3_uc001vhu.2_5'Flank|DIAPH3_uc001vhw.1_Missense_Mutation_p.Q246L|DIAPH3_uc010aed.1_Missense_Mutation_p.Q211L|DIAPH3_uc010aee.1_Missense_Mutation_p.Q187L|uc001vhx.2_Intron|uc001vhy.2_Intron	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	257	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		TGTACATACCTGCGTATTCAT	0.313													4	6	---	---	---	---	PASS	A	60590048	A	A	60590048	3	1	8	1	0	0	0	0	1	0	0	0	4520	1594	55	5	2919	5	DIAPH3	13	60590048	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	7170342	60590048	54579830	289	5705										
UCHL3	7347	broad.mit.edu	37	chr13	76179926	76179926	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgatgaactaagatttaatgCgattgctctttctgcagcat	8	7	2	3	rs139878255		TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr13:76179926C>T	uc001vjq.2	+	9	701	c.671C>T	c.(670-672)GCG>GTG	p.A224V	UCHL3_uc001vjr.2_Missense_Mutation_p.A188V	NM_006002	NP_005993	P15374	UCHL3_HUMAN	ubiquitin carboxyl-terminal esterase L3	224	Interaction with ubiquitin.				ubiquitin-dependent protein catabolic process	cytoplasm	cysteine-type peptidase activity|ubiquitin binding|ubiquitin thiolesterase activity				0				GBM - Glioblastoma multiforme(99;0.0125)		AGATTTAATGCGATTGCTCTT	0.338													5	21	---	---	---	---	PASS	T	76179926	T	T	76179926	3	4	8	1	0	0	0	0	1	0	0	0	16918	768	27	1	705	1	UCHL3	13	76179926	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	15589878	76179926	38989952	290	5706										
FAM155A	728215	broad.mit.edu	37	chr13	107822900	107822900	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgatgcctccaaagctcagtCcggctgtgttctgtgctgcc	11	13	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr13:107822900C>T	uc001vql.2	-	3	1838	c.1322G>A	c.(1321-1323)GGA>GAA	p.G441E		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	441						integral to membrane	binding			skin(1)	1						AAAGCTCAGTCCGGCTGTGTT	0.527													15	25	---	---	---	---	PASS	T	107822900	T	T	107822900	3	4	8	1	0	0	0	0	1	0	0	0	5465	855	30	2	58	2	FAM155A	13	107822900	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	31642974	107822900	7346978	291	5707										
MYO16	23026	broad.mit.edu	37	chr13	109704819	109704819	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caagaattatctagaacttaGtaaggtaggagtttttatga	9	3	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr13:109704819G>T	uc001vqt.1	+	25	3104	c.2978G>T	c.(2977-2979)AGT>ATT	p.S993I	MYO16_uc010agk.1_Missense_Mutation_p.S1015I|MYO16_uc001vqu.1_Missense_Mutation_p.S793I|MYO16_uc010tjh.1_Missense_Mutation_p.S505I	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	993	Myosin head-like 2.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			CTAGAACTTAGTAAGGTAGGA	0.279													20	26	---	---	---	---	PASS	T	109704819	T	T	109704819	3	4	8	1	0	0	0	0	1	0	0	0	10064	1029	36	3	3072	3	MYO16	13	109704819	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1881919	109704819	5465059	292	5708										
CARKD	55739	broad.mit.edu	37	chr13	111290867	111290867	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccgccttcagcaagctctttGaaacctgagcccgcgcagac	9	16	2	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr13:111290867G>C	uc001vrb.2	+	10	1050	c.1036G>C	c.(1036-1038)GAA>CAA	p.E346Q	CARKD_uc010tjj.1_Missense_Mutation_p.E328Q|CARKD_uc001vqz.2_RNA|CARKD_uc001vra.2_RNA|CARKD_uc010tjk.1_Missense_Mutation_p.E236Q|CARKD_uc010tjl.1_Missense_Mutation_p.E215Q|CARKD_uc001vrc.2_Nonstop_Mutation_p.*391S			Q8IW45	CARKD_HUMAN	RecName: Full=Carbohydrate kinase domain-containing protein; Flags: Precursor;	346										skin(1)	1						CAAGCTCTTTGAAACCTGAGC	0.617													3	32	---	---	---	---	PASS	C	111290867	C	C	111290867	3	2	8	1	0	0	0	0	1	0	0	0	2654	1285	45	2	1210	2	CARKD	13	111290867	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1586048	111290867	3879011	293	5709										
ZNF828	283489	broad.mit.edu	37	chr13	115091162	115091162	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gaagatactttatttccttcCtcaaagaagctcaagaaaga	6	8	2	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr13:115091162C>A	uc010ahb.2	+	3	2174	c.1845C>A	c.(1843-1845)TCC>TCA	p.S615S	ZNF828_uc001vuv.2_Silent_p.S615S|ZNF828_uc010tko.1_Silent_p.S615S	NM_001164144	NP_001157616	Q96JM3	ZN828_HUMAN	zinc finger protein 828	615	Mediates localization to the chromosome and the spindle and negatively regulates chromosome alignment.				attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|protein localization to kinetochore|protein localization to microtubule|sister chromatid biorientation	condensed chromosome kinetochore|cytoplasm|nucleus|spindle	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_epithelial(44;0.122)|all_lung(25;0.123)	BRCA - Breast invasive adenocarcinoma(86;0.104)	OV - Ovarian serous cystadenocarcinoma(48;0.193)|Epithelial(10;0.197)		TATTTCCTTCCTCAAAGAAGC	0.373													6	140	---	---	---	---	PASS	A	115091162	A	A	115091162	2	1	8	1	0	0	0	0	0	0	0	1	18178	668	24	3		3	ZNF828	13	115091162	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	3800295	115091162	78716	294	5710										
OR4Q3	441669	broad.mit.edu	37	chr14	20216261	20216261	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tatgctatcatcctgatcacCctgagaacacacttctgcca	5	14	3	2	rs140842827	byFrequency	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr14:20216261C>A	uc010tkt.1	+	1	675	c.675C>A	c.(673-675)ACC>ACA	p.T225T		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	225	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCCTGATCACCCTGAGAACAC	0.493													6	100	---	---	---	---	PASS	A	20216261	A	A	20216261	2	1	8	1	0	0	0	0	0	0	0	1	11081	610	22	3		3	OR4Q3	14	20216261	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08		20216261	87133279	295	5711										
METT11D1	64745	broad.mit.edu	37	chr14	21464794	21464794	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agcctgtccttaaacggcctCgccatgtgcattgtcacttg	9	13	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr14:21464794C>T	uc001vyn.2	+	13	1386	c.1189C>T	c.(1189-1191)CGC>TGC	p.R397C	METT11D1_uc001vym.2_Missense_Mutation_p.R397C|METT11D1_uc001vyo.2_Missense_Mutation_p.R397C|METT11D1_uc001vyp.2_Missense_Mutation_p.R239C|METT11D1_uc001vyq.2_Missense_Mutation_p.R239C|SLC39A2_uc001vyr.2_5'Flank|SLC39A2_uc001vys.2_5'Flank	NM_022734	NP_073571	Q9H7H0	MET17_HUMAN	methyltransferase 11 domain containing 1 isoform	397					translation	mitochondrion|ribosome	copper ion binding|methyltransferase activity				0	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0191)		TAAACGGCCTCGCCATGTGCA	0.572													15	20	---	---	---	---	PASS	T	21464794	T	T	21464794	3	4	8	1	0	0	0	0	1	0	0	0	9491	884	31	2	1239	2	METT11D1	14	21464794	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1248533	21464794	85884746	296	5712										
LRP10	26020	broad.mit.edu	37	chr14	23345565	23345565	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cctgcaagctctatgccattCgcacccaggagtacaggtca	9	14	2	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr14:23345565C>G	uc001whd.2	+	5	1961	c.1408C>G	c.(1408-1410)CGC>GGC	p.R470G	LRP10_uc001whe.2_Missense_Mutation_p.R346G	NM_014045	NP_054764	Q7Z4F1	LRP10_HUMAN	low density lipoprotein receptor-related protein	470	Cytoplasmic (Potential).				endocytosis	coated pit|integral to membrane				central_nervous_system(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.00549)		CTATGCCATTCGCACCCAGGA	0.607													3	39	---	---	---	---	PASS	G	23345565	G	G	23345565	3	3	8	1	0	0	0	0	1	0	0	0	8952	884	31	2	1426	2	LRP10	14	23345565	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1880771	23345565	84003975	297	5713										
JPH4	84502	broad.mit.edu	37	chr14	24040344	24040344	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gaactgtcgctgcagcctccGaggagtggggaaccgtctct	14	12	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr14:24040344G>T	uc001wkq.2	-	6	2514	c.1596C>A	c.(1594-1596)CTC>CTA	p.L532L	JPH4_uc010tnr.1_Silent_p.L197L|JPH4_uc001wkr.2_Silent_p.L532L	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	532	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		TGCAGCCTCCGAGGAGTGGGG	0.677													6	148	---	---	---	---	PASS	T	24040344	T	T	24040344	2	4	8	1	0	0	0	0	0	0	0	1	7963	1045	37	2		2	JPH4	14	24040344	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	694779	24040344	83309196	298	5714										
AKAP6	9472	broad.mit.edu	37	chr14	33014470	33014470	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tctaacagaagtggatgactCaggacaattaaccatcaaat	7	8	3	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr14:33014470C>G	uc001wrq.2	+	4	781	c.611C>G	c.(610-612)TCA>TGA	p.S204*	AKAP6_uc010aml.2_Nonsense_Mutation_p.S201*	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	204					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		GTGGATGACTCAGGACAATTA	0.408													6	62	---	---	---	---	PASS	G	33014470	G	G	33014470	4	3	8	1	0	0	0	0	0	1	0	0	455	838	29	2	621	2	AKAP6	14	33014470	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	8974126	33014470	74335070	299	5715										
NID2	22795	broad.mit.edu	37	chr14	52520416	52520416	+	Frame_Shift_Del	DEL	G	-	-													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tttcttcttcaggatgagctGggggaacatccatttccgaa							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr14:52520416delG	uc001wzo.2	-	5	1544	c.1310delC	c.(1309-1311)CCAfs	p.P437fs	NID2_uc010tqs.1_Frame_Shift_Del_p.P437fs|NID2_uc010tqt.1_Frame_Shift_Del_p.P437fs|NID2_uc001wzp.2_Frame_Shift_Del_p.P437fs	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	437						basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					AGGATGAGCTGGGGGAACATC	0.547													46	26	---	---	---	---		-	52520416	-	-	52520416	7	5	8	1	0	1	0	1	0	0	0	0	10415	1348	47	0	2889	0	NID2	14	52520416	Frame_Shift_Del	DEL	G	TCGA-18-3414-01A-01D-0983-08	19505946	52520416	54829124	300	5716										
SYNE2	23224	broad.mit.edu	37	chr14	64450532	64450532	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggaaatattctatctaaagaAgagaaagcaactgttgagtt	9	4	2	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr14:64450532A>G	uc001xgm.2	+	18	2309	c.2079A>G	c.(2077-2079)GAA>GAG	p.E693E	SYNE2_uc001xgl.2_Silent_p.E693E	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	693	Cytoplasmic (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)		TATCTAAAGAAGAGAAAGCAA	0.284													7	19	---	---	---	---	PASS	G	64450532	G	G	64450532	2	3	8	1	0	0	0	0	0	0	0	1	15443	69	3	5		5	SYNE2	14	64450532	Silent	SNP	A	TCGA-18-3414-01A-01D-0983-08	11930116	64450532	42899008	301	5717										
SIPA1L1	26037	broad.mit.edu	37	chr14	72138262	72138262	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	attgaacaggaaacaaagagCgtggtcttcaattgttcctg	10	7	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr14:72138262C>T	uc001xms.2	+	8	3030	c.2682C>T	c.(2680-2682)AGC>AGT	p.S894S	SIPA1L1_uc001xmt.2_Silent_p.S894S|SIPA1L1_uc001xmu.2_Silent_p.S894S|SIPA1L1_uc001xmv.2_Silent_p.S894S|SIPA1L1_uc010ttm.1_Silent_p.S369S	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	894					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		AAACAAAGAGCGTGGTCTTCA	0.463													25	52	---	---	---	---	PASS	T	72138262	T	T	72138262	2	4	8	1	0	0	0	0	0	0	0	1	14329	767	27	1		1	SIPA1L1	14	72138262	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	7687730	72138262	35211278	302	5718										
SPATA7	55812	broad.mit.edu	37	chr14	88892994	88892995	+	Frame_Shift_Ins	INS	-	A	A													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tattatacacctgccaaaagINSaaaaaaggattttacagatc							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr14:88892994_88892995insA	uc001xwq.2	+	6	942_943	c.791_792insA	c.(790-792)AGAfs	p.R264fs	SPATA7_uc001xwr.2_Frame_Shift_Ins_p.R232fs|SPATA7_uc001xws.2_Frame_Shift_Ins_p.R200fs|SPATA7_uc001xwt.2_Frame_Shift_Ins_p.R158fs|SPATA7_uc001xwu.2_5'Flank	NM_018418	NP_060888	Q9P0W8	SPAT7_HUMAN	spermatogenesis-associated protein 7 isoform a	264					response to stimulus|visual perception					ovary(1)	1						CCTGCCAAAAGAAAAAAGGATT	0.366													34	19	---	---	---	---		A	88892995	A	A	88892994	7	5	8	1	0	1	1	0	0	0	0	0	15013	942	33	0	813	0	SPATA7	14	88892994	Frame_Shift_Ins	INS	-	TCGA-18-3414-01A-01D-0983-08	16754732	88892994	18456546	303	5719										
DYNC1H1	1778	broad.mit.edu	37	chr14	102452390	102452390	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aataccagacccagctgatcCagcgcgtgaaagatgacatt	9	11	0	5			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr14:102452390C>A	uc001yks.2	+	8	1992	c.1828C>A	c.(1828-1830)CAG>AAG	p.Q610K		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	610	Interaction with DYNC1I2 (By similarity).|Stem (By similarity).				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						CCAGCTGATCCAGCGCGTGAA	0.507													4	38	---	---	---	---	PASS	A	102452390	A	A	102452390	3	1	8	1	0	0	0	0	1	0	0	0	4841	595	21	3	1858	3	DYNC1H1	14	102452390	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	13559396	102452390	4897150	304	5720										
PPP1R13B	23368	broad.mit.edu	37	chr14	104251226	104251226	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttctgaagatgttcgtacatCatatgatcaaagggtatggg	11	5	3	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr14:104251226C>G	uc001yof.1	-	3	466	c.183G>C	c.(181-183)ATG>ATC	p.M61I	PPP1R13B_uc001yog.1_5'UTR	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	61					apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				GTTCGTACATCATATGATCAA	0.388													4	51	---	---	---	---	PASS	G	104251226	G	G	104251226	3	3	8	1	0	0	0	0	1	0	0	0	12357	826	29	2	3149	2	PPP1R13B	14	104251226	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1798836	104251226	3098314	305	5721										
OCA2	4948	broad.mit.edu	37	chr15	28230328	28230328	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cacccgtccccgggagagccGgtatgcctggccacacacac	11	18	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr15:28230328G>C	uc001zbh.3	-	13	1356	c.1246C>G	c.(1246-1248)CGG>GGG	p.R416G	OCA2_uc010ayv.2_Missense_Mutation_p.R392G	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	416	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		CGGGAGAGCCGGTATGCCTGG	0.567									Oculocutaneous_Albinism				8	16	---	---	---	---	PASS	C	28230328	C	C	28230328	3	2	8	1	0	0	0	0	1	0	0	0	10815	1115	39	4	1318	4	OCA2	15	28230328	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08		28230328	74301064	306	5722										
RYR3	6263	broad.mit.edu	37	chr15	34042220	34042220	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgagaactatcacaatatctGggccaagaagaagaagctgg	11	7	2	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr15:34042220G>A	uc001zhi.2	+	56	8310	c.8240G>A	c.(8239-8241)TGG>TAG	p.W2747*	RYR3_uc010bar.2_Nonsense_Mutation_p.W2747*	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2747	4.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CACAATATCTGGGCCAAGAAG	0.512													9	14	---	---	---	---	PASS	A	34042220	A	A	34042220	4	1	8	1	0	0	0	0	0	1	0	0	13770	1357	47	3	8462	3	RYR3	15	34042220	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	5811892	34042220	68489172	307	5723										
SPG11	80208	broad.mit.edu	37	chr15	44912449	44912449	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acaggaagtattctggttaaTaacatcaacagtcagaaggg	10	6	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr15:44912449T>G	uc001ztx.2	-	15	2804	c.2773A>C	c.(2773-2775)ATT>CTT	p.I925L	SPG11_uc010ueh.1_Missense_Mutation_p.I925L|SPG11_uc010uei.1_Missense_Mutation_p.I925L|SPG11_uc001ztz.1_Missense_Mutation_p.I84L	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	925	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		TTCTGGTTAATAACATCAACA	0.358													3	62	---	---	---	---	PASS	G	44912449	G	G	44912449	3	3	8	1	0	0	0	0	1	0	0	0	15040	1406	49	5	4662	5	SPG11	15	44912449	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	10870229	44912449	57618943	308	5724										
SHC4	399694	broad.mit.edu	37	chr15	49148318	49148318	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tggctatcaatatgcacctcCtcactgtgaaggaaaaaaga	8	9	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr15:49148318C>A	uc001zxb.1	-	8	1503	c.1074G>T	c.(1072-1074)GAG>GAT	p.E358D	SHC4_uc010uey.1_Missense_Mutation_p.E115D|SHC4_uc010uez.1_Missense_Mutation_p.E72D	NM_203349	NP_976224	Q6S5L8	SHC4_HUMAN	rai-like protein	358	PID.				intracellular signal transduction	cell junction|postsynaptic membrane				ovary(3)|pancreas(2)	5		all_lung(180;0.00466)		all cancers(107;9.4e-08)|GBM - Glioblastoma multiforme(94;5.94e-07)		TATGCACCTCCTCACTGTGAA	0.438													5	78	---	---	---	---	PASS	A	49148318	A	A	49148318	3	1	8	1	0	0	0	0	1	0	0	0	14273	680	24	3	838	3	SHC4	15	49148318	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	4235869	49148318	53383074	309	5725										
MNS1	55329	broad.mit.edu	37	chr15	56739137	56739137	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cttctccaattctctaagctCaatgctgtttaaaaaaacaa	3	10	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr15:56739137C>G	uc002adr.2	-	4	523	c.358G>C	c.(358-360)GAG>CAG	p.E120Q	MNS1_uc010bfo.2_5'UTR	NM_018365	NP_060835	Q8NEH6	MNS1_HUMAN	meiosis-specific nuclear structural 1	120	Potential.|Glu-rich.				meiosis					ovary(1)	1				all cancers(107;0.0196)|GBM - Glioblastoma multiforme(80;0.101)		TCTCTAAGCTCAATGCTGTTT	0.254													5	18	---	---	---	---	PASS	G	56739137	G	G	56739137	3	3	8	1	0	0	0	0	1	0	0	0	9677	835	29	2	1157	2	MNS1	15	56739137	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	7590819	56739137	45792255	310	5726										
IGDCC4	57722	broad.mit.edu	37	chr15	65684253	65684253	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tctccgtcttgcccttccacActgctgcatagccatcctca	5	18	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr15:65684253A>C	uc002aou.1	-	12	2399	c.2189T>G	c.(2188-2190)GTG>GGG	p.V730G	IGDCC4_uc002aot.1_Missense_Mutation_p.V318G	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	730	Extracellular (Potential).|Fibronectin type-III 3.					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						GCCCTTCCACACTGCTGCATA	0.622													43	78	---	---	---	---	PASS	C	65684253	C	C	65684253	3	2	8	1	0	0	0	0	1	0	0	0	7569	159	6	5	1599	5	IGDCC4	15	65684253	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	8945116	65684253	36847139	311	5727										
DIS3L	115752	broad.mit.edu	37	chr15	66621462	66621462	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aggaggagttccatcattacGgtgaatcataccatattcct	8	9	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr15:66621462G>A	uc010ujm.1	+	13	2371	c.2356G>A	c.(2356-2358)GGT>AGT	p.G786S	DIS3L_uc002app.2_Missense_Mutation_p.G703S|DIS3L_uc010bho.2_Missense_Mutation_p.G652S	NM_001143688	NP_001137160	Q8TF46	DI3L1_HUMAN	DIS3 mitotic control homolog (S.	786					rRNA catabolic process	cytoplasm|exosome (RNase complex)	exonuclease activity|protein binding|ribonuclease activity|RNA binding			ovary(2)	2						CCATCATTACGGTGAATCATA	0.433													15	25	---	---	---	---	PASS	A	66621462	A	A	66621462	3	1	8	1	0	0	0	0	1	0	0	0	4536	1130	39	1	2406	1	DIS3L	15	66621462	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	937209	66621462	35909930	312	5728										
SH2D7	646892	broad.mit.edu	37	chr15	78385066	78385066	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cttcattctgcagaacggtgCcctgcctccctggtttcatg	9	14	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr15:78385066C>A	uc010blb.1	+	1	140	c.140C>A	c.(139-141)GCC>GAC	p.A47D		NM_001101404	NP_001094874	A6NKC9	SH2D7_HUMAN	SH2 domain containing 7	47											0						CAGAACGGTGCCCTGCCTCCC	0.607													5	10	---	---	---	---	PASS	A	78385066	A	A	78385066	3	1	8	1	0	0	0	0	1	0	0	0	14239	739	26	3	142	3	SH2D7	15	78385066	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	11763604	78385066	24146326	313	5729										
IQGAP1	8826	broad.mit.edu	37	chr15	91010776	91010776	+	Frame_Shift_Del	DEL	T	-	-													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gaaggaggatgggatgaaccTccaaattttgtgcaaaattc					rs1505936	byFrequency	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr15:91010776delT	uc002bpl.1	+	18	2231	c.2130delT	c.(2128-2130)CCTfs	p.P710fs		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	710	WW.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			GGGatgaacctccaaattttg	0.323													49	52	---	---	---	---		-	91010776	-	-	91010776	7	5	8	1	0	1	0	1	0	0	0	0	7814	1538	54	0	2200	0	IQGAP1	15	91010776	Frame_Shift_Del	DEL	T	TCGA-18-3414-01A-01D-0983-08	12625710	91010776	11520616	314	5730										
SRRM2	23524	broad.mit.edu	37	chr16	2812505	2812505	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agctagacgtggccgctcacGctccagaaccccagccagac	10	17	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr16:2812505G>T	uc002crk.2	+	11	2525	c.1976G>T	c.(1975-1977)CGC>CTC	p.R659L	SRRM2_uc002crj.1_Missense_Mutation_p.R563L|SRRM2_uc002crl.1_Missense_Mutation_p.R659L|SRRM2_uc010bsu.1_Missense_Mutation_p.R563L	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	659	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GGCCGCTCACGCTCCAGAACC	0.622													24	62	---	---	---	---	PASS	T	2812505	T	T	2812505	3	4	8	1	0	0	0	0	1	0	0	0	15168	1087	38	1	2014	1	SRRM2	16	2812505	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08		2812505	87542248	315	5731										
SRRM2	23524	broad.mit.edu	37	chr16	2813279	2813279	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	taggtcatcatctccacaacCcaaagtgaaggcaataatat	6	10	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr16:2813279C>T	uc002crk.2	+	11	3299	c.2750C>T	c.(2749-2751)CCC>CTC	p.P917L	SRRM2_uc002crj.1_Missense_Mutation_p.P821L|SRRM2_uc002crl.1_Missense_Mutation_p.P917L|SRRM2_uc010bsu.1_Missense_Mutation_p.P821L	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	917	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						TCTCCACAACCCAAAGTGAAG	0.512													21	44	---	---	---	---	PASS	T	2813279	T	T	2813279	3	4	8	1	0	0	0	0	1	0	0	0	15168	623	22	3	2788	3	SRRM2	16	2813279	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	774	2813279	87541474	316	5732										
CLDN6	9074	broad.mit.edu	37	chr16	3066004	3066004	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caggacgactcccaggatctGcattccggcagaggccatgg	13	13	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr16:3066004G>T	uc002csu.3	-	2	79	c.19C>A	c.(19-21)CAG>AAG	p.Q7K		NM_021195	NP_067018	P56747	CLD6_HUMAN	claudin 6	7	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CCCAGGATCTGCATTCCGGCA	0.602													7	17	---	---	---	---	PASS	T	3066004	T	T	3066004	3	4	8	1	0	0	0	0	1	0	0	0	3489	1328	46	3	647	3	CLDN6	16	3066004	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	252725	3066004	87288749	317	5733										
MKL2	57496	broad.mit.edu	37	chr16	14340860	14340860	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	caggagaaagagaagcaaatCgaagagctgaagaggaaact	13	5	0	5	rs148779363	byFrequency	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr16:14340860C>T	uc010uza.1	+	12	1898	c.1743C>T	c.(1741-1743)ATC>ATT	p.I581I	MKL2_uc002dcg.2_Silent_p.I581I|MKL2_uc002dcj.2_5'Flank	NM_014048	NP_054767	Q9ULH7	MKL2_HUMAN	megakaryoblastic leukemia 2 protein	570	Required for interaction with itself and with MKL1.|Potential.				cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5						AGAAGCAAATCGAAGAGCTGA	0.507													5	49	---	---	---	---	PASS	T	14340860	T	T	14340860	2	4	8	1	0	0	0	0	0	0	0	1	9602	874	31	2		2	MKL2	16	14340860	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	11274856	14340860	76013893	318	5734										
ERN2	10595	broad.mit.edu	37	chr16	23712343	23712343	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtgaggctagctgccagcagGtcttggggtcccagccccaa	14	13	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr16:23712343G>T	uc002dma.3	-	12	1609	c.1440C>A	c.(1438-1440)GAC>GAA	p.D480E	ERN2_uc010bxp.2_Intron|ERN2_uc010bxq.1_Missense_Mutation_p.D288E	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	432	Helical; (Potential).				apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		CTGCCAGCAGGTCTTGGGGTC	0.572													24	37	---	---	---	---	PASS	T	23712343	T	T	23712343	3	4	8	1	0	0	0	0	1	0	0	0	5238	1252	44	3	1528	3	ERN2	16	23712343	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	9371483	23712343	66642410	319	5735										
PRKCB	5579	broad.mit.edu	37	chr16	24196462	24196462	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	atcagccctatgggaagtccGtggattggtgggcatttgga	15	7	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr16:24196462G>T	uc002dmd.2	+	14	1761	c.1564G>T	c.(1564-1566)GTG>TTG	p.V522L	PRKCB_uc002dme.2_Missense_Mutation_p.V522L	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	522	Protein kinase.				apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	TGGGAAGTCCGTGGATTGGTG	0.458													28	34	---	---	---	---	PASS	T	24196462	T	T	24196462	3	4	8	1	0	0	0	0	1	0	0	0	12508	1145	40	1	1618	1	PRKCB	16	24196462	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	484119	24196462	66158291	320	5736										
ABCC11	85320	broad.mit.edu	37	chr16	48234333	48234333	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acggtcggaatagacggcgcGggccaggctgatcctctgtt	15	11	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr16:48234333G>A	uc002eff.1	-	14	2286	c.1936C>T	c.(1936-1938)CGC>TGC	p.R646C	ABCC11_uc002efg.1_Missense_Mutation_p.R646C|ABCC11_uc002efh.1_Missense_Mutation_p.R646C|ABCC11_uc010vgk.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	646	ABC transporter 1.|Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				TAGACGGCGCGGGCCAGGCTG	0.582									Cerumen_Type				20	24	---	---	---	---	PASS	A	48234333	A	A	48234333	3	1	8	1	0	0	0	0	1	0	0	0	51	1116	39	1	2276	1	ABCC11	16	48234333	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	24037871	48234333	42120420	321	5737										
CES7	221223	broad.mit.edu	37	chr16	55883659	55883659	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctgaggccggtgccgaaactCatagaagtagacaggtgcac	13	10	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr16:55883659C>T	uc002eip.2	-	11	1449	c.1300G>A	c.(1300-1302)GAG>AAG	p.E434K	CES7_uc002eio.2_Intron|CES7_uc002eiq.2_Missense_Mutation_p.E195K|CES7_uc002eir.2_Missense_Mutation_p.E328K	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	434						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		TGCCGAAACTCATAGAAGTAG	0.567													6	112	---	---	---	---	PASS	T	55883659	T	T	55883659	3	4	8	1	0	0	0	0	1	0	0	0	3272	835	29	2	439	2	CES7	16	55883659	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	7649326	55883659	34471094	322	5738										
GAN	8139	broad.mit.edu	37	chr16	81397433	81397433	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cggaattgtggagatagatgGgatgctgtacattttgggag	16	3	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr16:81397433G>T	uc002fgo.2	+	7	1269	c.1121G>T	c.(1120-1122)GGG>GTG	p.G374V		NM_022041	NP_071324	Q9H2C0	GAN_HUMAN	gigaxonin	374	Kelch 2.				cell death	cytoplasm|neurofilament	protein binding			ovary(2)	2		Colorectal(91;0.153)				GAGATAGATGGGATGCTGTAC	0.398													6	91	---	---	---	---	PASS	T	81397433	T	T	81397433	3	4	8	1	0	0	0	0	1	0	0	0	6232	1232	43	3	1147	3	GAN	16	81397433	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	25513774	81397433	8957320	323	5739										
JPH3	57338	broad.mit.edu	37	chr16	87678227	87678227	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctcctttcgcagcgaggcggGcatgagcaccgtcagctcca	12	15	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr16:87678227G>A	uc002fkd.2	+	2	1000	c.746G>A	c.(745-747)GGC>GAC	p.G249D	JPH3_uc010vou.1_RNA	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	249	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		AGCGAGGCGGGCATGAGCACC	0.672													4	71	---	---	---	---	PASS	A	87678227	A	A	87678227	3	1	8	1	0	0	0	0	1	0	0	0	7962	1203	42	3	752	3	JPH3	16	87678227	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	6280794	87678227	2676526	324	5740										
SPIRE2	84501	broad.mit.edu	37	chr16	89936621	89936621	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcctcaacactacgccacgaCgcagtcgccagacccaatcc	6	19	1	1	rs144349271		TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr16:89936621C>T	uc002foz.1	+	15	2138	c.2086C>T	c.(2086-2088)CGC>TGC	p.R696C	SPIRE2_uc010ciw.1_Missense_Mutation_p.R648C|SPIRE2_uc002fpa.1_Missense_Mutation_p.R648C|SPIRE2_uc010cix.1_Missense_Mutation_p.R563C	NM_032451	NP_115827	Q8WWL2	SPIR2_HUMAN	spire homolog 2	696					transport	cytoplasm|cytoskeleton	actin binding			central_nervous_system(1)	1		Lung NSC(15;5.15e-06)|all_lung(18;8.38e-06)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0286)		TACGCCACGACGCAGTCGCCA	0.607													8	2	---	---	---	---	PASS	T	89936621	T	T	89936621	3	4	8	1	0	0	0	0	1	0	0	0	15071	536	19	1	2144	1	SPIRE2	16	89936621	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	2258394	89936621	418132	325	5741										
VPS53	55275	broad.mit.edu	37	chr17	534816	534816	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gccctgggaaggaaacgcttCttcaaaatctgccaggattt	10	10	3	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr17:534816C>T	uc002frn.2	-	8	808	c.661G>A	c.(661-663)GAA>AAA	p.E221K	VPS53_uc002frk.2_5'UTR|VPS53_uc010cjo.1_Missense_Mutation_p.E221K|VPS53_uc002frl.2_RNA|VPS53_uc002frm.2_Missense_Mutation_p.E192K|VPS53_uc002fro.2_Missense_Mutation_p.E23K|VPS53_uc010cjp.1_Intron	NM_018289	NP_060759	Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 isoform 2	221					protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)		GGAAACGCTTCTTCAAAATCT	0.498													7	44	---	---	---	---	PASS	T	534816	T	T	534816	3	4	8	1	0	0	0	0	1	0	0	0	17212	922	32	2	1912	2	VPS53	17	534816	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08		534816	80660394	326	5742										
CTNS	1497	broad.mit.edu	37	chr17	3563244	3563244	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggcagcttcagcctcctgcaGatgttcctccagtcctacaa	8	15	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr17:3563244G>A	uc002fwb.2	+	11	1538	c.945G>A	c.(943-945)CAG>CAA	p.Q315Q	CTNS_uc002fwa.2_Silent_p.Q315Q|CTNS_uc010ckj.2_Silent_p.Q315Q|CTNS_uc010vrv.1_Silent_p.Q168Q|CTNS_uc010vrw.1_Silent_p.Q207Q	NM_004937	NP_004928	O60931	CTNS_HUMAN	cystinosin isoform 2	315	Helical; (Potential).|PQ-loop 2.				ATP metabolic process|brain development|cognition|glutathione metabolic process	integral to membrane|late endosome|lysosomal membrane	L-cystine transmembrane transporter activity				0				COAD - Colon adenocarcinoma(5;0.0829)	L-Cystine(DB00138)	GCCTCCTGCAGATGTTCCTCC	0.627													6	9	---	---	---	---	PASS	A	3563244	A	A	3563244	2	1	8	1	0	0	0	0	0	0	0	1	4021	933	33	2		2	CTNS	17	3563244	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	3028428	3563244	77631966	327	5743										
TP53	7157	broad.mit.edu	37	chr17	7577120	7577120	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcccaggacaggcacaaacaCgcacctcaaagctgttccgt	8	15	1	0	rs28934576	by1000genomes	TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr17:7577120C>A	uc002gim.2	-	8	1012	c.818G>T	c.(817-819)CGT>CTT	p.R273L	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141L|TP53_uc010cng.1_Missense_Mutation_p.R141L|TP53_uc002gii.1_Missense_Mutation_p.R141L|TP53_uc010cnh.1_Missense_Mutation_p.R273L|TP53_uc010cni.1_Missense_Mutation_p.R273L|TP53_uc002gij.2_Missense_Mutation_p.R273L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(469)|p.R273C(394)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(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)		GGCACAAACACGCACCTCAAA	0.542	R273H(NCIH1793_LUNG)|R273H(MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PANC1_PANCREAS)|R273H(NCIH508_LARGE_INTESTINE)|R273H(NCIH1975_LUNG)|R273H(U251MG_CENTRAL_NERVOUS_SYSTEM)|R273H(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273H(NCIH2405_LUNG)|R273H(HEC59_ENDOMETRIUM)|R273H(NCIH1155_LUNG)|R273H(HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(EN_ENDOMETRIUM)|R273H(SNB19_CENTRAL_NERVOUS_SYSTEM)|R273H(MDAMB468_BREAST)|R273H(SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW620_LARGE_INTESTINE)|R273H(SUIT2_PANCREAS)|R273H(SW480_LARGE_INTESTINE)|R273H(SKMEL30_SKIN)|R273H(OC314_OVARY)|R273H(HEC6_ENDOMETRIUM)|R273H(HT29_LARGE_INTESTINE)	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)			7	7	---	---	---	---	PASS	A	7577120	A	A	7577120	3	1	8	1	0	0	0	0	1	0	0	0	16378	536	19	1	468	1	TP53	17	7577120	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	4013876	7577120	73618090	328	5744										
CCL3	6348	broad.mit.edu	37	chr17	34416024	34416024	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agcttctggacccctcaggcActcagctccaggtcgctgac	10	16	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr17:34416024A>T	uc002hkv.2	-	3	375	c.273T>A	c.(271-273)AGT>AGA	p.S91R		NM_002983	NP_002974	P10147	CCL3_HUMAN	chemokine (C-C motif) ligand 3	91					cell-cell signaling|cellular calcium ion homeostasis|cellular component movement|cytoskeleton organization|exocytosis|G-protein coupled receptor protein signaling pathway|immune response|inflammatory response|regulation of viral genome replication	extracellular space|soluble fraction	chemoattractant activity|chemokine activity|signal transducer activity				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCCCTCAGGCACTCAGCTCCA	0.627													21	23	---	---	---	---	PASS	T	34416024	T	T	34416024	3	4	8	1	0	0	0	0	1	0	0	0	2901	156	6	5	9	5	CCL3	17	34416024	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	26838904	34416024	46779186	329	5745										
SLC25A39	51629	broad.mit.edu	37	chr17	42398095	42398095	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agctcatagttgaaccagtaCagggcttggggtgggggatg	17	6	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr17:42398095C>G	uc002ign.2	-	9	850	c.696G>C	c.(694-696)CTG>CTC	p.L232L	SLC25A39_uc002igm.2_Silent_p.L224L|SLC25A39_uc002igo.2_Silent_p.L224L|SLC25A39_uc010wiw.1_Silent_p.L209L|SLC25A39_uc010czu.2_Silent_p.L100L|SLC25A39_uc010wix.1_3'UTR|SLC25A39_uc010wiy.1_3'UTR	NM_001143780	NP_001137252	Q9BZJ4	S2539_HUMAN	solute carrier family 25, member 39 isoform a	232	Helical; Name=4; (Potential).|Solcar 2.				heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane				upper_aerodigestive_tract(1)	1		Prostate(33;0.0233)		BRCA - Breast invasive adenocarcinoma(366;0.189)		TGAACCAGTACAGGGCTTGGG	0.582													35	13	---	---	---	---	PASS	G	42398095	G	G	42398095	2	3	8	1	0	0	0	0	0	0	0	1	14503	465	17	4		4	SLC25A39	17	42398095	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	7982071	42398095	38797115	330	5746										
GRN	2896	broad.mit.edu	37	chr17	42429158	42429158	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agtggggctgctgtccaatcCcagaggtatatgggagggga	17	7	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr17:42429158C>A	uc002igp.1	+	10	1393	c.1174C>A	c.(1174-1176)CCA>ACA	p.P392T	GRN_uc002igr.1_Missense_Mutation_p.P186T	NM_002087	NP_002078	P28799	GRN_HUMAN	granulin precursor	392					signal transduction	extracellular space	cytokine activity|growth factor activity			ovary(2)|central_nervous_system(2)|skin(1)	5		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		CTGTCCAATCCCAGAGGTATA	0.582													4	22	---	---	---	---	PASS	A	42429158	A	A	42429158	3	1	8	1	0	0	0	0	1	0	0	0	6804	623	22	3	1208	3	GRN	17	42429158	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	31063	42429158	38766052	331	5747										
TBX21	30009	broad.mit.edu	37	chr17	45822322	45822322	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acagctatgaggctgagtttCgagcagtcagcatgaagcct	12	9	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr17:45822322C>T	uc002ilv.1	+	6	1409	c.1198C>T	c.(1198-1200)CGA>TGA	p.R400*		NM_013351	NP_037483	Q9UL17	TBX21_HUMAN	T-box 21	400					lymphocyte migration|multicellular organismal development|positive regulation of transcription, DNA-dependent|response to virus	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						GGCTGAGTTTCGAGCAGTCAG	0.652													10	24	---	---	---	---	PASS	T	45822322	T	T	45822322	4	4	8	1	0	0	0	0	0	1	0	0	15654	876	31	2	1220	2	TBX21	17	45822322	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	3393164	45822322	35372888	332	5748										
SFRS1	6426	broad.mit.edu	37	chr17	56083716	56083716	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acactcaccagagacaaccaCtctgttttcagaccgcctgg	7	15	3	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr17:56083716C>G	uc002ivi.2	-	2	576	c.367G>C	c.(367-369)GTG>CTG	p.V123L	SFRS1_uc002ivj.2_Missense_Mutation_p.V123L	NM_006924	NP_008855	Q07955	SRSF1_HUMAN	splicing factor, arginine/serine-rich 1 isoform	123	RRM 2.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA 5'-splice site recognition|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytoplasm|nuclear speck	nucleotide binding|RNA binding				0		Colorectal(1115;0.0691)		LUAD - Lung adenocarcinoma(1115;0.247)		GAGACAACCACTCTGTTTTCA	0.552													38	12	---	---	---	---	PASS	G	56083716	G	G	56083716	3	3	8	1	0	0	0	0	1	0	0	0	14165	565	20	4	445	4	SFRS1	17	56083716	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	10261394	56083716	25111494	333	5749										
PRKCA	5578	broad.mit.edu	37	chr17	64738846	64738847	+	Frame_Shift_Ins	INS	-	C	C													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tggagtcacgaccaggacctINStctgtgggactccagattat							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr17:64738846_64738847insC	uc002jfp.1	+	13	1536_1537	c.1492_1493insC	c.(1492-1494)TTCfs	p.F498fs	PRKCA_uc002jfo.1_Frame_Shift_Ins_p.F369fs	NM_002737	NP_002728	P17252	KPCA_HUMAN	protein kinase C, alpha	498	Protein kinase.				activation of phospholipase C activity|energy reserve metabolic process|induction of apoptosis by extracellular signals|intracellular signal transduction|mRNA metabolic process|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of blood vessel endothelial cell migration|regulation of insulin secretion|response to interleukin-1|synaptic transmission	cytosol|endoplasmic reticulum|membrane fraction|nucleoplasm|plasma membrane	ATP binding|enzyme binding|histone kinase activity (H3-T6 specific)|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(1)|stomach(1)|lung(1)|breast(1)|ovary(1)	9			BRCA - Breast invasive adenocarcinoma(6;4.68e-09)		Phosphatidylserine(DB00144)|Vitamin E(DB00163)	GACCAGGACCTTCTGTGGGACT	0.475													22	39	---	---	---	---		C	64738847	C	C	64738846	7	5	8	1	0	1	1	0	0	0	0	0	12507	1609	56	0	1542	0	PRKCA	17	64738846	Frame_Shift_Ins	INS	-	TCGA-18-3414-01A-01D-0983-08	8655130	64738846	16456364	334	5750										
ACOX1	51	broad.mit.edu	37	chr17	73945424	73945424	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tctgaaaagagcttaactacCacatagtggcaatgtgccta	8	9	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr17:73945424C>A	uc002jqf.2	-	12	1892	c.1602G>T	c.(1600-1602)GTG>GTT	p.V534V	ACOX1_uc010wsq.1_Silent_p.V496V|ACOX1_uc002jqe.2_Silent_p.V534V|ACOX1_uc010wsr.1_Silent_p.V466V	NM_007292	NP_009223	Q15067	ACOX1_HUMAN	acyl-Coenzyme A oxidase 1 isoform b	534				VV -> GL (in Ref. 1; AAA19113 and 2; AAA18595).	fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1						GCTTAACTACCACATAGTGGC	0.358													5	110	---	---	---	---	PASS	A	73945424	A	A	73945424	2	1	8	1	0	0	0	0	0	0	0	1	158	581	21	3		3	ACOX1	17	73945424	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	9206578	73945424	7249786	335	5751										
RNF213	57674	broad.mit.edu	37	chr17	78319717	78319717	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tagctgcctgcaatccatacCggaagcactctgaggagatg	11	11	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr17:78319717C>T	uc002jyh.1	+	4	2024	c.1801C>T	c.(1801-1803)CGG>TGG	p.R601W		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)			CAATCCATACCGGAAGCACTC	0.527													30	11	---	---	---	---	PASS	T	78319717	T	T	78319717	3	4	8	1	0	0	0	0	1	0	0	0	13477	643	23	1	8011	1	RNF213	17	78319717	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	4374293	78319717	2875493	336	5752										
NDUFV2	4729	broad.mit.edu	37	chr18	9122569	9122569	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgaagtagcaactttttataCaatgtataatcgaaagccag	7	6	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr18:9122569C>T	uc002knu.2	+	5	426	c.359C>T	c.(358-360)ACA>ATA	p.T120I		NM_021074	NP_066552	P19404	NDUV2_HUMAN	NADH dehydrogenase ubiquinone flavoprotein 2	120					cardiac muscle tissue development|mitochondrial electron transport, NADH to ubiquinone|nervous system development|transport	mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|electron carrier activity|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity			ovary(1)	1					NADH(DB00157)	ACTTTTTATACAATGTATAAT	0.363													9	63	---	---	---	---	PASS	T	9122569	T	T	9122569	3	4	8	1	0	0	0	0	1	0	0	0	10300	478	17	3	377	3	NDUFV2	18	9122569	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08		9122569	68954679	337	5753										
ZNF521	25925	broad.mit.edu	37	chr18	22805745	22805745	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aaaggtgtgcatgtccagcaGgtgtttctgaaggtcatcca	12	8	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr18:22805745G>T	uc002kvk.2	-	4	2384	c.2137C>A	c.(2137-2139)CTG>ATG	p.L713M	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.L713M|ZNF521_uc002kvl.2_Missense_Mutation_p.L493M	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	713	C2H2-type 16.				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)					ATGTCCAGCAGGTGTTTCTGA	0.453			T	PAX5	ALL								5	75	---	---	---	---	PASS	T	22805745	T	T	22805745	3	4	8	1	0	0	0	0	1	0	0	0	17962	991	35	3	1818	3	ZNF521	18	22805745	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	13683176	22805745	55271503	338	5754										
CDH7	1005	broad.mit.edu	37	chr18	63477173	63477173	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aaaattcaggatatcaacgaCaatgaacccaaatttttgga	6	7	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr18:63477173C>A	uc002ljz.2	+	3	769	c.444C>A	c.(442-444)GAC>GAA	p.D148E	CDH7_uc002lka.2_Missense_Mutation_p.D148E|CDH7_uc002lkb.2_Missense_Mutation_p.D148E	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	148	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				ATATCAACGACAATGAACCCA	0.507													4	71	---	---	---	---	PASS	A	63477173	A	A	63477173	3	1	8	1	0	0	0	0	1	0	0	0	3115	477	17	3	450	3	CDH7	18	63477173	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	40671428	63477173	14600075	339	5755										
CTDP1	9150	broad.mit.edu	37	chr18	77477810	77477810	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcgttctcttcctccgacagGgagaacagccctgcggcctt	10	15	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr18:77477810G>T	uc002lnh.1	+	10	2358	c.2211G>T	c.(2209-2211)AGG>AGT	p.R737S	CTDP1_uc002lni.1_Missense_Mutation_p.R737S|CTDP1_uc010drd.1_Missense_Mutation_p.R737S	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	737					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		CCTCCGACAGGGAGAACAGCC	0.677													19	4	---	---	---	---	PASS	T	77477810	T	T	77477810	3	4	8	1	0	0	0	0	1	0	0	0	4002	1246	43	3	2249	3	CTDP1	18	77477810	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	14000637	77477810	599438	340	5756										
CCDC94	55702	broad.mit.edu	37	chr19	4254382	4254382	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aaaacacagactacaccatgGagcatggagccacgcggaat	10	11	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:4254382G>C	uc002lzv.3	+	4	334	c.301G>C	c.(301-303)GAG>CAG	p.E101Q		NM_018074	NP_060544	Q9BW85	CCD94_HUMAN	coiled-coil domain containing 94	101											0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0348)|STAD - Stomach adenocarcinoma(1328;0.183)		CTACACCATGGAGCATGGAGC	0.403													22	36	---	---	---	---	PASS	C	4254382	C	C	4254382	3	2	8	1	0	0	0	0	1	0	0	0	2873	1175	41	2	315	2	CCDC94	19	4254382	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08		4254382	54874601	341	5757										
DPP9	91039	broad.mit.edu	37	chr19	4704256	4704257	+	Frame_Shift_Ins	INS	-	C	C													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gtgatgccgaagacccccagINSgcgtttccgctccctcagca							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:4704256_4704257insC	uc002mba.2	-	6	744_745	c.486_487insG	c.(484-489)CGCCTGfs	p.R162fs	DPP9_uc002mbb.2_Frame_Shift_Ins_p.R162fs|DPP9_uc002mbc.2_Frame_Shift_Ins_p.R162fs	NM_139159	NP_631898	Q86TI2	DPP9_HUMAN	dipeptidylpeptidase 9	133_134					proteolysis	cytosol|membrane	aminopeptidase activity|serine-type peptidase activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00884)		AAGACCCCCAGGCGTTTCCGCT	0.644													37	22	---	---	---	---		C	4704257	C	C	4704256	7	5	8	1	0	1	1	0	0	0	0	0	4733	991	35	0	2259	0	DPP9	19	4704256	Frame_Shift_Ins	INS	-	TCGA-18-3414-01A-01D-0983-08	449874	4704256	54424727	342	5758										
TMEM146	257062	broad.mit.edu	37	chr19	5751819	5751819	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctcatggaccctgaactccaCgttggaaagtgcaaggtatg	11	10	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:5751819C>T	uc002mda.2	+	12	1210	c.1149C>T	c.(1147-1149)CAC>CAT	p.H383H	TMEM146_uc010duj.1_Silent_p.H41H	NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	383	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						CTGAACTCCACGTTGGAAAGT	0.378													14	28	---	---	---	---	PASS	T	5751819	T	T	5751819	2	4	8	1	0	0	0	0	0	0	0	1	16057	535	19	1		1	TMEM146	19	5751819	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	1047563	5751819	53377164	343	5759										
PNPLA6	10908	broad.mit.edu	37	chr19	7625941	7625941	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggcttcactgacttggcagaGattgtgtcccggattgagcc	13	10	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:7625941G>C	uc010xjq.1	+	32	4083	c.3888G>C	c.(3886-3888)GAG>GAC	p.E1296D	PNPLA6_uc002mgq.1_Missense_Mutation_p.E1248D|PNPLA6_uc010xjp.1_Missense_Mutation_p.E1221D|PNPLA6_uc002mgr.1_Missense_Mutation_p.E1248D|PNPLA6_uc002mgs.2_Missense_Mutation_p.E1286D|PNPLA6_uc002mgt.1_RNA	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	1287	Cytoplasmic (Potential).			E -> G (in Ref. 5; CAB43674).	cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						ACTTGGCAGAGATTGTGTCCC	0.642													4	8	---	---	---	---	PASS	C	7625941	C	C	7625941	3	2	8	1	0	0	0	0	1	0	0	0	12169	933	33	2	4010	2	PNPLA6	19	7625941	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1874122	7625941	51503042	344	5760										
MUC16	94025	broad.mit.edu	37	chr19	9072086	9072086	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttggtctcttctgtgtttatAgaaggaaaaatttcctttgt	8	5	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:9072086A>G	uc002mkp.2	-	3	15564	c.15360T>C	c.(15358-15360)TCT>TCC	p.S5120S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5122	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGTGTTTATAGAAGGAAAAA	0.443													44	49	---	---	---	---	PASS	G	9072086	G	G	9072086	2	3	8	1	0	0	0	0	0	0	0	1	9973	407	15	5		5	MUC16	19	9072086	Silent	SNP	A	TCGA-18-3414-01A-01D-0983-08	1446145	9072086	50056897	345	5761										
ZNF440	126070	broad.mit.edu	37	chr19	11943153	11943153	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gttcccttcgatatcatgaaAggactcacactggagagaaa	9	9	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:11943153A>G	uc002msp.1	+	4	1318	c.1162A>G	c.(1162-1164)AGG>GGG	p.R388G		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	388	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATATCATGAAAGGACTCACAC	0.443													30	38	---	---	---	---	PASS	G	11943153	G	G	11943153	3	3	8	1	0	0	0	0	1	0	0	0	17910	63	3	5	1176	5	ZNF440	19	11943153	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	2871067	11943153	47185830	346	5762										
ZNF536	9745	broad.mit.edu	37	chr19	30934940	30934940	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acgcacacgggcgagaagccCttcaagtgcccgtactgcga	12	14	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:30934940C>T	uc002nsu.1	+	2	609	c.471C>T	c.(469-471)CCC>CCT	p.P157P	ZNF536_uc010edd.1_Silent_p.P157P	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	157					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCGAGAAGCCCTTCAAGTGCC	0.652													16	32	---	---	---	---	PASS	T	30934940	T	T	30934940	2	4	8	1	0	0	0	0	0	0	0	1	17971	668	24	3		3	ZNF536	19	30934940	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	18991787	30934940	28194043	347	5763										
ZNF181	339318	broad.mit.edu	37	chr19	35232191	35232191	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tattgaatgtgggaaggcctTtagccatgtctcatcactta	9	8	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:35232191T>C	uc002nvu.3	+	4	1368	c.905T>C	c.(904-906)TTT>TCT	p.F302S	ZNF181_uc010xsa.1_Missense_Mutation_p.F301S|ZNF181_uc010xsb.1_Missense_Mutation_p.F301S|ZNF181_uc010xsc.1_Missense_Mutation_p.F237S	NM_001029997	NP_001025168	Q2M3W8	ZN181_HUMAN	zinc finger protein 181 isoform 1	302	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			GGGAAGGCCTTTAGCCATGTC	0.428													7	62	---	---	---	---	PASS	C	35232191	C	C	35232191	3	2	8	1	0	0	0	0	1	0	0	0	17746	1841	64	5	919	5	ZNF181	19	35232191	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	4297251	35232191	23896792	348	5764										
ZNF571	51276	broad.mit.edu	37	chr19	38055702	38055702	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcagatgttcagtaaggtgtGagccacgaataaaagccttc	10	8	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:38055702G>C	uc002ogt.2	-	4	1729	c.1628C>G	c.(1627-1629)TCA>TGA	p.S543*	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Nonsense_Mutation_p.S543*	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	543	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGTAAGGTGTGAGCCACGAAT	0.423													4	29	---	---	---	---	PASS	C	38055702	C	C	38055702	4	2	8	1	0	0	0	0	0	1	0	0	18000	1294	45	2	205	2	ZNF571	19	38055702	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	2823511	38055702	21073281	349	5765										
PPP1R14A	94274	broad.mit.edu	37	chr19	38742961	38742961	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctcacctcgacaggtttcccAcatgacttcaggagtcccta	7	15	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:38742961A>C	uc002ohq.2	-	3	493	c.300T>G	c.(298-300)TGT>TGG	p.C100W	PPP1R14A_uc010efv.2_Missense_Mutation_p.C73W	NM_033256	NP_150281	Q96A00	PP14A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	100	Inhibitory.				regulation of phosphorylation	cytoplasm	protein binding|protein phosphatase inhibitor activity				0	all_cancers(60;9.57e-07)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CAGGTTTCCCACATGACTTCA	0.522													11	11	---	---	---	---	PASS	C	38742961	C	C	38742961	3	2	8	1	0	0	0	0	1	0	0	0	12359	157	6	5	151	5	PPP1R14A	19	38742961	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	687259	38742961	20386022	350	5766										
GPR77	27202	broad.mit.edu	37	chr19	47844500	47844500	+	Silent	SNP	G	A	A													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tggtctacggttcagcgggcGtgcggggtgcaggtggcctg							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:47844500G>A	uc010ela.1	+	2	662	c.444G>A	c.(442-444)GCG>GCA	p.A148A	GPR77_uc002pgk.1_Silent_p.A148A	NM_018485	NP_060955	Q9P296	C5ARL_HUMAN	G protein-coupled receptor 77	148	Cytoplasmic (Potential).				chemotaxis	integral to membrane|plasma membrane	C5a anaphylatoxin receptor activity			ovary(1)	1		all_cancers(25;1.72e-06)|all_lung(116;2.15e-05)|all_epithelial(76;3.44e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.0652)|Ovarian(192;0.086)		all cancers(93;0.000129)|OV - Ovarian serous cystadenocarcinoma(262;0.000415)|Epithelial(262;0.0109)|GBM - Glioblastoma multiforme(486;0.0138)		TTCAGCGGGCGTGCGGGGTGC	0.677													50	30	---	---	---	---	PASS	A	47844500	A	A	47844500	2	1	8	1	0	0	0	0	0	0	0	1	6709	1132	40	1		1	GPR77	19	47844500	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	9101539	47844500	11284483	351	5767	214	2								
GPR77	27202	broad.mit.edu	37	chr19	47844501	47844501	+	Missense_Mutation	SNP	T	A	A													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggtctacggttcagcgggcgTgcggggtgcaggtggcctgt							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:47844501T>A	uc010ela.1	+	2	663	c.445T>A	c.(445-447)TGC>AGC	p.C149S	GPR77_uc002pgk.1_Missense_Mutation_p.C149S	NM_018485	NP_060955	Q9P296	C5ARL_HUMAN	G protein-coupled receptor 77	149	Cytoplasmic (Potential).				chemotaxis	integral to membrane|plasma membrane	C5a anaphylatoxin receptor activity			ovary(1)	1		all_cancers(25;1.72e-06)|all_lung(116;2.15e-05)|all_epithelial(76;3.44e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.0652)|Ovarian(192;0.086)		all cancers(93;0.000129)|OV - Ovarian serous cystadenocarcinoma(262;0.000415)|Epithelial(262;0.0109)|GBM - Glioblastoma multiforme(486;0.0138)		TCAGCGGGCGTGCGGGGTGCA	0.682													48	30	---	---	---	---	PASS	A	47844501	A	A	47844501	3	1	8	1	0	0	0	0	1	0	0	0	6709	1696	59	5	447	5	GPR77	19	47844501	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	1	47844501	11284482	352	5768	214	2								
FPR2	2358	broad.mit.edu	37	chr19	52272195	52272195	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agaaaaatggccttttggctGgttcctgtgtaagttaattc	10	6	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:52272195G>C	uc002pxr.2	+	2	329	c.284G>C	c.(283-285)TGG>TCG	p.W95S	FPR2_uc002pxs.3_Missense_Mutation_p.W95S|FPR2_uc010epf.2_Missense_Mutation_p.W95S	NM_001005738	NP_001005738	P25090	FPR2_HUMAN	formyl peptide receptor-like 1	95	Extracellular (Potential).				cell adhesion|cellular component movement|chemotaxis|inflammatory response	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(3)|ovary(1)	4						CCTTTTGGCTGGTTCCTGTGT	0.473													57	44	---	---	---	---	PASS	C	52272195	C	C	52272195	3	2	8	1	0	0	0	0	1	0	0	0	6039	1357	47	4	286	4	FPR2	19	52272195	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	4427694	52272195	6856788	353	5769										
ZNF28	7576	broad.mit.edu	37	chr19	53304795	53304795	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcatttgtttcatcttctttCcactgaaactggaagccatg	6	10	4	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:53304795C>T	uc002qad.2	-	4	423	c.303G>A	c.(301-303)TGG>TGA	p.W101*	ZNF28_uc002qac.2_Nonsense_Mutation_p.W48*|ZNF28_uc010eqe.2_Nonsense_Mutation_p.W47*	NM_006969	NP_008900	P17035	ZNF28_HUMAN	zinc finger protein 28	101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)		CATCTTCTTTCCACTGAAACT	0.428													57	132	---	---	---	---	PASS	T	53304795	T	T	53304795	4	4	8	1	0	0	0	0	0	1	0	0	17810	856	30	2	1857	2	ZNF28	19	53304795	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1032600	53304795	5824188	354	5770										
LILRB5	10990	broad.mit.edu	37	chr19	54758611	54758611	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccctcacctgagaccacgagCtcctgggggtaactagggct	12	14	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:54758611C>G	uc002qex.2	-	6	1353	c.1242G>C	c.(1240-1242)GAG>GAC	p.E414D	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.E405D|LILRB5_uc002qey.2_Missense_Mutation_p.E414D|LILRB5_uc002qez.2_Missense_Mutation_p.E314D|LILRB5_uc002qfa.1_Missense_Mutation_p.E304D|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	414	Ig-like C2-type 4.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		AGACCACGAGCTCCTGGGGGT	0.632													32	22	---	---	---	---	PASS	G	54758611	G	G	54758611	3	3	8	1	0	0	0	0	1	0	0	0	8794	796	28	4	565	4	LILRB5	19	54758611	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1453816	54758611	4370372	355	5771										
LILRB2	10288	broad.mit.edu	37	chr19	54782923	54782923	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctttccccaggggccacgacAggacccggctgcactgagag	13	15	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:54782923A>G	uc002qfb.2	-	6	965	c.699T>C	c.(697-699)CCT>CCC	p.P233P	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Silent_p.P233P|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Silent_p.P233P|LILRB2_uc010yet.1_Silent_p.P117P|LILRB2_uc010yeu.1_Intron	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	233	Extracellular (Potential).|Ig-like C2-type 3.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GGGCCACGACAGGACCCGGCT	0.577													36	47	---	---	---	---	PASS	G	54782923	G	G	54782923	2	3	8	1	0	0	0	0	0	0	0	1	8791	175	7	5		5	LILRB2	19	54782923	Silent	SNP	A	TCGA-18-3414-01A-01D-0983-08	24312	54782923	4346060	356	5772										
LILRA1	11024	broad.mit.edu	37	chr19	55106308	55106308	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	attgtgaagaagggccagttCcccatcccatccatcacctg	8	14	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:55106308C>T	uc002qgh.1	+	4	431	c.249C>T	c.(247-249)TTC>TTT	p.F83F	LILRA2_uc010yfg.1_Intron|LILRA1_uc010yfh.1_Silent_p.F83F	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	83	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		AGGGCCAGTTCCCCATCCCAT	0.567													7	129	---	---	---	---	PASS	T	55106308	T	T	55106308	2	4	8	1	0	0	0	0	0	0	0	1	8784	854	30	2		2	LILRA1	19	55106308	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	323385	55106308	4022675	357	5773										
LILRB1	10859	broad.mit.edu	37	chr19	55143129	55143129	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cttgtgaagaagggccagttCcccatcccatccatcacctg	8	15	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:55143129C>T	uc002qgj.2	+	5	589	c.249C>T	c.(247-249)TTC>TTT	p.F83F	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Silent_p.F83F|LILRB1_uc002qgk.2_Silent_p.F83F|LILRB1_uc002qgm.2_Silent_p.F83F|LILRB1_uc010erq.2_Silent_p.F83F|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	83	Ig-like C2-type 1.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		AGGGCCAGTTCCCCATCCCAT	0.567										HNSCC(37;0.09)			59	70	---	---	---	---	PASS	T	55143129	T	T	55143129	2	4	8	1	0	0	0	0	0	0	0	1	8790	854	30	2		2	LILRB1	19	55143129	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	36821	55143129	3985854	358	5774										
KIR2DS4	3809	broad.mit.edu	37	chr19	55351040	55351040	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcaacggaacattccaggccGactttcctctgggccctgcc	9	16	2	0	rs3189418		TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:55351040G>A	uc002qhm.1	+	5	596	c.550G>A	c.(550-552)GAC>AAC	p.D184N	KIR2DS4_uc010yfj.1_Silent_p.P169P|KIR2DS4_uc010yfk.1_RNA|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_Silent_p.P176P|KIR2DS4_uc002qhn.1_Intron	NM_012314	NP_036446	P43632	KI2S4_HUMAN	killer cell immunoglobulin-like receptor, two	184	Extracellular (Potential).|Ig-like C2-type 2.					integral to plasma membrane	receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		ATTCCAGGCCGACTTTCCTCT	0.587													53	46	---	---	---	---	PASS	A	55351040	A	A	55351040	3	1	8	1	0	0	0	0	1	0	0	0	8319	1045	37	2	542	2	KIR2DS4	19	55351040	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	207911	55351040	3777943	359	5775										
NLRP7	199713	broad.mit.edu	37	chr19	55451776	55451776	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcaatgtctccttgccaaaaGgtgttcttccagaccaaaga	7	11	3	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:55451776G>T	uc002qih.3	-	4	487	c.411C>A	c.(409-411)ACC>ACA	p.T137T	NLRP7_uc002qig.3_Silent_p.T137T|NLRP7_uc002qii.3_Silent_p.T137T|NLRP7_uc010esk.2_Silent_p.T137T|NLRP7_uc010esl.2_Silent_p.T165T	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	137							ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CTTGCCAAAAGGTGTTCTTCC	0.453													218	208	---	---	---	---	PASS	T	55451776	T	T	55451776	2	4	8	1	0	0	0	0	0	0	0	1	10482	987	35	3		3	NLRP7	19	55451776	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	100736	55451776	3677207	360	5776										
TNNT1	7138	broad.mit.edu	37	chr19	55652325	55652325	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggctctctctgaccggcgccGctcctgggaaacggagaagc	14	14	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:55652325G>A	uc002qjb.3	-	9	402	c.313C>T	c.(313-315)CGG>TGG	p.R105W	TNNT1_uc002qiz.3_Missense_Mutation_p.R35W|TNNT1_uc002qja.3_Missense_Mutation_p.R35W|TNNT1_uc002qjc.3_Missense_Mutation_p.R105W|TNNT1_uc002qje.3_Missense_Mutation_p.R94W|TNNT1_uc002qjd.3_Missense_Mutation_p.R94W|TNNT1_uc002qjf.2_Missense_Mutation_p.R101W	NM_003283	NP_003274	P13805	TNNT1_HUMAN	troponin T1, skeletal, slow isoform a	105					muscle filament sliding|negative regulation of muscle contraction	cytosol|troponin complex	tropomyosin binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.047)		GACCGGCGCCGCTCCTGGGAA	0.607											OREG0025677	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	20	---	---	---	---	PASS	A	55652325	A	A	55652325	3	1	8	1	0	0	0	0	1	0	0	0	16327	1086	38	1	547	1	TNNT1	19	55652325	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	200549	55652325	3476658	361	5777										
NLRP5	126206	broad.mit.edu	37	chr19	56515098	56515098	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	taagtcttgtcactctttccAcaggtcctacttgctctata	5	12	4	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr19:56515098A>T	uc002qmj.2	+	2	79	c.79A>T	c.(79-81)ACA>TCA	p.T27S	NLRP5_uc002qmi.2_Missense_Mutation_p.T27S	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	27						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)		CACTCTTTCCACAGGTCCTAC	0.418													48	34	---	---	---	---	PASS	T	56515098	T	T	56515098	3	4	8	1	0	0	0	0	1	0	0	0	10480	159	6	5	85	5	NLRP5	19	56515098	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	862773	56515098	2613885	362	5778										
SIRPG	55423	broad.mit.edu	37	chr20	1616857	1616857	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggatggcctcagacaagttgGcagtcccacgaagagggtcc	14	11	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:1616857G>C	uc002wfm.1	-	3	790	c.725C>G	c.(724-726)GCC>GGC	p.A242G	SIRPG_uc002wfn.1_Missense_Mutation_p.A242G|SIRPG_uc002wfo.1_Intron|uc002wfp.1_Intron	NM_018556	NP_061026	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma isoform 1	242	Extracellular (Potential).|Ig-like C1-type 1.				blood coagulation|cell adhesion|cell junction assembly|cell-cell signaling|intracellular signal transduction|leukocyte migration|negative regulation of cell proliferation|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to membrane|intracellular|plasma membrane	protein binding			ovary(1)	1						AGACAAGTTGGCAGTCCCACG	0.637													20	32	---	---	---	---	PASS	C	1616857	C	C	1616857	3	2	8	1	0	0	0	0	1	0	0	0	14336	1203	42	4	450	4	SIRPG	20	1616857	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08		1616857	61408663	363	5779										
SIRPA	140885	broad.mit.edu	37	chr20	1915374	1915374	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tttttaggttgcatgagcccGagaagaatgccagagaaata	11	6	0	4	rs141454528		TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:1915374G>T	uc002wfq.2	+	8	1600	c.1240G>T	c.(1240-1242)GAG>TAG	p.E414*	SIRPA_uc010zps.1_Nonsense_Mutation_p.E394*|SIRPA_uc002wfr.2_Nonsense_Mutation_p.E414*|SIRPA_uc002wfs.2_Nonsense_Mutation_p.E414*|SIRPA_uc002wft.2_Nonsense_Mutation_p.E414*	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	414	Cytoplasmic (Potential).				blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		GCATGAGCCCGAGAAGAATGC	0.338													51	59	---	---	---	---	PASS	T	1915374	T	T	1915374	4	4	8	1	0	0	0	0	0	1	0	0	14332	1059	37	2	1266	2	SIRPA	20	1915374	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	298517	1915374	61110146	364	5780										
SLC4A11	83959	broad.mit.edu	37	chr20	3218266	3218266	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gcagaaaggtcaccagccccAtggaccaagccctggacctc	10	16	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:3218266A>G	uc002wig.2	-	1	108	c.60T>C	c.(58-60)CAT>CAC	p.H20H	SLC4A11_uc010zqe.1_Intron|SLC4A11_uc002wih.2_Intron|SLC4A11_uc010zqf.1_Intron	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	20	Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						CACCAGCCCCATGGACCAAGC	0.592													8	87	---	---	---	---	PASS	G	3218266	G	G	3218266	2	3	8	1	0	0	0	0	0	0	0	1	14652	214	8	5		5	SLC4A11	20	3218266	Silent	SNP	A	TCGA-18-3414-01A-01D-0983-08	1302892	3218266	59807254	365	5781										
HSPA12B	116835	broad.mit.edu	37	chr20	3725561	3725561	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctccgcaggaaatgggagggCggagacccgggcgtggccca	18	12	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:3725561C>A	uc002wjd.2	+	5	382	c.279C>A	c.(277-279)GGC>GGA	p.G93G	HSPA12B_uc010zqi.1_Silent_p.G93G|HSPA12B_uc002wje.2_Silent_p.G6G|HSPA12B_uc010zqj.1_5'UTR	NM_052970	NP_443202	Q96MM6	HS12B_HUMAN	heat shock 70kD protein 12B	93							ATP binding				0						AATGGGAGGGCGGAGACCCGG	0.532													25	37	---	---	---	---	PASS	A	3725561	A	A	3725561	2	1	8	1	0	0	0	0	0	0	0	1	7405	755	27	1		1	HSPA12B	20	3725561	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	507295	3725561	59299959	366	5782										
PRNP	5621	broad.mit.edu	37	chr20	4680514	4680514	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gttgagcagatgtgtatcacCcagtacgagagggaatctca	12	8	2	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:4680514C>A	uc002wku.2	+	2	1011	c.648C>A	c.(646-648)ACC>ACA	p.T216T	PRNP_uc002wkv.2_Silent_p.T216T|PRNP_uc002wkw.2_Silent_p.T216T|PRNP_uc002wkx.2_Silent_p.T216T|PRNP_uc002wkt.1_Silent_p.T186T|PRNP_uc002wky.2_Silent_p.T216T|PRNP_uc010gbe.1_Silent_p.T216T	NM_001080122	NP_001073591	P04156	PRIO_HUMAN	prion protein preproprotein	216	Interaction with GRB2, ERI3 and SYN1 (By similarity).				axon guidance|cell cycle arrest|cellular copper ion homeostasis|metabolic process|negative regulation of activated T cell proliferation|negative regulation of calcineurin-NFAT signaling pathway|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-2 production|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell receptor signaling pathway|protein homooligomerization|response to oxidative stress	anchored to membrane|endoplasmic reticulum|extrinsic to membrane|Golgi apparatus|membrane raft|nucleus|plasma membrane	copper ion binding|identical protein binding|microtubule binding			central_nervous_system(1)	1					Tetracycline(DB00759)	TGTGTATCACCCAGTACGAGA	0.532													5	66	---	---	---	---	PASS	A	4680514	A	A	4680514	2	1	8	1	0	0	0	0	0	0	0	1	12544	610	22	3		3	PRNP	20	4680514	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	954953	4680514	58345006	367	5783										
RALGAPA2	57186	broad.mit.edu	37	chr20	20493389	20493389	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggttagggaaggttcatttaGatttagctgtgacggtaaaa	13	3	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:20493389G>C	uc002wrz.2	-	32	4767	c.4624C>G	c.(4624-4626)CTA>GTA	p.L1542V	RALGAPA2_uc010gcx.2_Missense_Mutation_p.L1246V|RALGAPA2_uc010zsg.1_Missense_Mutation_p.L990V|RALGAPA2_uc002wsa.1_Missense_Mutation_p.L314V	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1542					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						GGTTCATTTAGATTTAGCTGT	0.413													32	120	---	---	---	---	PASS	C	20493389	C	C	20493389	3	2	8	1	0	0	0	0	1	0	0	0	13014	933	33	2	1029	2	RALGAPA2	20	20493389	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	15812875	20493389	42532131	368	5784										
TMEM90B	79953	broad.mit.edu	37	chr20	24523840	24523840	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aaacttgatggccgagagcaGagatggtctggtgtctgttt	14	6	2	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:24523840G>C	uc002wtw.1	+	2	740	c.107G>C	c.(106-108)AGA>ACA	p.R36T		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	36	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						GCCGAGAGCAGAGATGGTCTG	0.562													5	90	---	---	---	---	PASS	C	24523840	C	C	24523840	3	2	8	1	0	0	0	0	1	0	0	0	16216	942	33	2	109	2	TMEM90B	20	24523840	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	4030451	24523840	38501680	369	5785										
ZNF337	26152	broad.mit.edu	37	chr20	25656728	25656728	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acacaaaaggcttctcccctGagtgtgttctctggtgtctg	10	11	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:25656728G>A	uc002wva.2	-	4	1718	c.1196C>T	c.(1195-1197)TCA>TTA	p.S399L	uc002wuz.2_RNA|ZNF337_uc010ztg.1_Missense_Mutation_p.S367L|ZNF337_uc002wvb.2_Missense_Mutation_p.S399L|ZNF337_uc002wvc.2_Missense_Mutation_p.S399L	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	399					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTCTCCCCTGAGTGTGTTCT	0.498													24	75	---	---	---	---	PASS	A	25656728	A	A	25656728	3	1	8	1	0	0	0	0	1	0	0	0	17850	1294	45	2	1063	2	ZNF337	20	25656728	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1132888	25656728	37368792	370	5786										
PLUNC	51297	broad.mit.edu	37	chr20	31825574	31825574	+	Silent	SNP	C	A	A													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctgttagcccagaccatggcCcagtttggaggcctgcccgt							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:31825574C>A	uc002wyv.2	+	2	127	c.57C>A	c.(55-57)GCC>GCA	p.A19A	PLUNC_uc002wyt.3_Silent_p.A19A|PLUNC_uc002wyu.3_Silent_p.A19A	NM_130852	NP_570913	Q9NP55	PLUNC_HUMAN	palate, lung and nasal epithelium associated	19					innate immune response	extracellular region	lipid binding				0						AGACCATGGCCCAGTTTGGAG	0.552													15	32	---	---	---	---	PASS	A	31825574	A	A	31825574	2	1	8	1	0	0	0	0	0	0	0	1	12115	610	22	3		3	PLUNC	20	31825574	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	6168846	31825574	31199946	371	5787	215	2								
PLUNC	51297	broad.mit.edu	37	chr20	31825575	31825575	+	Nonsense_Mutation	SNP	C	T	T													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgttagcccagaccatggccCagtttggaggcctgcccgtg							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:31825575C>T	uc002wyv.2	+	2	128	c.58C>T	c.(58-60)CAG>TAG	p.Q20*	PLUNC_uc002wyt.3_Nonsense_Mutation_p.Q20*|PLUNC_uc002wyu.3_Nonsense_Mutation_p.Q20*	NM_130852	NP_570913	Q9NP55	PLUNC_HUMAN	palate, lung and nasal epithelium associated	20					innate immune response	extracellular region	lipid binding				0						GACCATGGCCCAGTTTGGAGG	0.547													17	32	---	---	---	---	PASS	T	31825575	T	T	31825575	4	4	8	1	0	0	0	0	0	1	0	0	12115	595	21	3	60	3	PLUNC	20	31825575	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1	31825575	31199945	372	5788	215	2								
CHMP4B	128866	broad.mit.edu	37	chr20	32439921	32439921	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ttagaagaactagaacaggaGgaactagacaagaatttgct	10	5	0	5			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:32439921G>T	uc002xaa.2	+	4	678	c.522G>T	c.(520-522)GAG>GAT	p.E174D		NM_176812	NP_789782	Q9H444	CHM4B_HUMAN	chromatin modifying protein 4B	174	Potential.				cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			ovary(1)|central_nervous_system(1)	2						TAGAACAGGAGGAACTAGACA	0.507													6	121	---	---	---	---	PASS	T	32439921	T	T	32439921	3	4	8	1	0	0	0	0	1	0	0	0	3357	991	35	3	536	3	CHMP4B	20	32439921	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	614346	32439921	30585599	373	5789										
MYH7B	57644	broad.mit.edu	37	chr20	33575001	33575001	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggatgagaaatgtgcctgctAtaagatcgtgggcgccctcc	13	10	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:33575001A>G	uc002xbi.1	+	14	1276	c.1184A>G	c.(1183-1185)TAT>TGT	p.Y395C		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	353	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			TGTGCCTGCTATAAGATCGTG	0.607													36	68	---	---	---	---	PASS	G	33575001	G	G	33575001	3	3	8	1	0	0	0	0	1	0	0	0	10040	449	16	5	1238	5	MYH7B	20	33575001	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	1135080	33575001	29450519	374	5790										
FAM83D	81610	broad.mit.edu	37	chr20	37580566	37580566	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctccagagcagaaaggccatTgacgctgccactcaaacaga	9	13	1	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:37580566T>C	uc002xjg.2	+	4	1292	c.1251T>C	c.(1249-1251)ATT>ATC	p.I417I		NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	387					cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				GAAAGGCCATTGACGCTGCCA	0.567													15	22	---	---	---	---	PASS	C	37580566	C	C	37580566	2	2	8	1	0	0	0	0	0	0	0	1	5636	1800	63	5		5	FAM83D	20	37580566	Silent	SNP	T	TCGA-18-3414-01A-01D-0983-08	4005565	37580566	25444954	375	5791										
MATN4	8785	broad.mit.edu	37	chr20	43932922	43932922	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctggatgaggtcgaaggactCtacgaggaagacgtgctcgt	15	8	1	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:43932922C>A	uc002xnn.2	-	3	776	c.589G>T	c.(589-591)GAG>TAG	p.E197*	MATN4_uc002xno.2_Nonsense_Mutation_p.E197*|MATN4_uc002xnp.2_Nonsense_Mutation_p.E197*|MATN4_uc010zwr.1_Nonsense_Mutation_p.E145*|MATN4_uc002xnr.1_Nonsense_Mutation_p.E197*|RBPJL_uc002xns.2_5'Flank|RBPJL_uc002xnt.2_5'Flank	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	197	VWFA 1.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				TCGAAGGACTCTACGAGGAAG	0.627													5	80	---	---	---	---	PASS	A	43932922	A	A	43932922	4	1	8	1	0	0	0	0	0	1	0	0	9336	922	32	2	1188	2	MATN4	20	43932922	Nonsense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	6352356	43932922	19092598	376	5792										
SLC35C2	51006	broad.mit.edu	37	chr20	44986276	44986276	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acctacctgtgggagccactCttctgaggtagtcggcccag	12	13	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:44986276C>A	uc002xro.2	-	3	798	c.257G>T	c.(256-258)AGA>ATA	p.R86I	SLC35C2_uc002xrp.2_Missense_Mutation_p.R86I|SLC35C2_uc002xrq.2_Missense_Mutation_p.R86I|SLC35C2_uc002xrr.2_Missense_Mutation_p.R86I|SLC35C2_uc010zxn.1_5'UTR|SLC35C2_uc010zxo.1_5'UTR|SLC35C2_uc010zxp.1_Missense_Mutation_p.R115I	NM_173179	NP_775271	Q9NQQ7	S35C2_HUMAN	solute carrier family 35, member C2 isoform a	86					transport	integral to membrane				ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GGGAGCCACTCTTCTGAGGTA	0.627													27	57	---	---	---	---	PASS	A	44986276	A	A	44986276	3	1	8	1	0	0	0	0	1	0	0	0	14580	913	32	2	872	2	SLC35C2	20	44986276	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1053354	44986276	18039244	377	5793										
NCOA3	8202	broad.mit.edu	37	chr20	46254215	46254215	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	taaagactccttaggaccgcTtttacttcaggcaagtataa	7	9	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:46254215T>G	uc002xtk.2	+	5	552	c.347T>G	c.(346-348)CTT>CGT	p.L116R	NCOA3_uc010ght.1_Missense_Mutation_p.L116R|NCOA3_uc002xtl.2_Missense_Mutation_p.L116R|NCOA3_uc002xtm.2_Missense_Mutation_p.L116R|NCOA3_uc002xtn.2_Missense_Mutation_p.L116R|NCOA3_uc010zyc.1_5'Flank	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	116	PAS.				androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						TTAGGACCGCTTTTACTTCAG	0.348													5	52	---	---	---	---	PASS	G	46254215	G	G	46254215	3	3	8	1	0	0	0	0	1	0	0	0	10230	1609	56	5	357	5	NCOA3	20	46254215	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	1267939	46254215	16771305	378	5794										
TSHZ2	128553	broad.mit.edu	37	chr20	51872343	51872343	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	gagtcctcgcaagcacaatcTtgtatgtccccacctcagaa	7	14	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:51872343T>C	uc002xwo.2	+	2	3302	c.2346T>C	c.(2344-2346)TCT>TCC	p.S782S		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	782					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			AAGCACAATCTTGTATGTCCC	0.572													42	88	---	---	---	---	PASS	C	51872343	C	C	51872343	2	2	8	1	0	0	0	0	0	0	0	1	16621	1596	56	5		5	TSHZ2	20	51872343	Silent	SNP	T	TCGA-18-3414-01A-01D-0983-08	5618128	51872343	11153177	379	5795										
SPO11	23626	broad.mit.edu	37	chr20	55906898	55906898	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tattgtttcagttctgaggtTcttgcatctatagaaaatat	7	5	4	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:55906898T>C	uc002xye.2	+	2	234	c.141T>C	c.(139-141)GTT>GTC	p.V47V	SPO11_uc002xyf.2_Intron	NM_012444	NP_036576	Q9Y5K1	SPO11_HUMAN	meiotic recombination protein SPO11 isoform a	47					female gamete generation|reciprocal meiotic recombination	chromosome|nucleus	ATP binding|DNA binding|hydrolase activity			breast(2)|skin(1)	3	Lung NSC(12;0.0066)|all_lung(29;0.0188)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;1.73e-14)|Epithelial(14;9.02e-10)|all cancers(14;9.31e-09)			GTTCTGAGGTTCTTGCATCTA	0.328								Editing_and_processing_nucleases					7	152	---	---	---	---	PASS	C	55906898	C	C	55906898	2	2	8	1	0	0	0	0	0	0	0	1	15076	1770	62	5		5	SPO11	20	55906898	Silent	SNP	T	TCGA-18-3414-01A-01D-0983-08	4034555	55906898	7118622	380	5796										
ZNF831	128611	broad.mit.edu	37	chr20	57768671	57768671	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgccgatcccggggaggtgcCagggggctcaaaggagagtg	19	9	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:57768671C>T	uc002yan.2	+	1	2597	c.2597C>T	c.(2596-2598)CCA>CTA	p.P866L		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	866						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGGGAGGTGCCAGGGGGCTCA	0.652													20	22	---	---	---	---	PASS	T	57768671	T	T	57768671	3	4	8	1	0	0	0	0	1	0	0	0	18182	594	21	3	2599	3	ZNF831	20	57768671	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1861773	57768671	5256849	381	5797										
CDH26	60437	broad.mit.edu	37	chr20	58581786	58581786	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aggcttacccagatgccacaAtgcacagacaactcctggct	8	14	0	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:58581786A>G	uc002ybe.2	+	17	2539	c.2239A>G	c.(2239-2241)ATG>GTG	p.M747V	CDH26_uc002ybf.1_Missense_Mutation_p.M286V|CDH26_uc010zzy.1_RNA|CDH26_uc002ybg.2_Missense_Mutation_p.M238V|CDH26_uc002ybh.2_Missense_Mutation_p.M80V|CDH26_uc002ybi.2_Missense_Mutation_p.M39V	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	706	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			AGATGCCACAATGCACAGACA	0.557													22	60	---	---	---	---	PASS	G	58581786	G	G	58581786	3	3	8	1	0	0	0	0	1	0	0	0	3110	101	4	5	2327	5	CDH26	20	58581786	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	813115	58581786	4443734	382	5798										
CDH4	1002	broad.mit.edu	37	chr20	60504842	60504842	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	accattggcgcagtggcagcGgctggtctgggcaccggtgc	17	12	1	0	rs151300553		TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:60504842G>A	uc002ybn.1	+	13	2195	c.2181G>A	c.(2179-2181)GCG>GCA	p.A727A	CDH4_uc002ybp.1_Silent_p.A653A	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	727	Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			CAGTGGCAGCGGCTGGTCTGG	0.607													12	34	---	---	---	---	PASS	A	60504842	A	A	60504842	2	1	8	1	0	0	0	0	0	0	0	1	3112	1103	39	1		1	CDH4	20	60504842	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	1923056	60504842	2520678	383	5799										
LAMA5	3911	broad.mit.edu	37	chr20	60885614	60885614	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agtctcttcacacagccgctGaacccgacggtcacctatag	8	15	3	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:60885614G>A	uc002ycq.2	-	76	10528	c.10461C>T	c.(10459-10461)TTC>TTT	p.F3487F		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3487	Laminin G-like 4.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CACAGCCGCTGAACCCGACGG	0.682													25	23	---	---	---	---	PASS	A	60885614	A	A	60885614	2	1	8	1	0	0	0	0	0	0	0	1	8609	1281	45	2		2	LAMA5	20	60885614	Silent	SNP	G	TCGA-18-3414-01A-01D-0983-08	380772	60885614	2139906	384	5800										
SLCO4A1	28231	broad.mit.edu	37	chr20	61288084	61288084	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cggctggtgggccttcgcacCgccgtgcctgcaggtcctca	14	16	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:61288084C>T	uc002ydb.1	+	2	483	c.278C>T	c.(277-279)CCG>CTG	p.P93L	SLCO4A1_uc002ydc.1_RNA	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	93	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)			GCCTTCGCACCGCCGTGCCTG	0.662													15	8	---	---	---	---	PASS	T	61288084	T	T	61288084	3	4	8	1	0	0	0	0	1	0	0	0	14729	652	23	1	280	1	SLCO4A1	20	61288084	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	402470	61288084	1737436	385	5801										
DIDO1	11083	broad.mit.edu	37	chr20	61525406	61525406	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggcaacttcaggcacagcctCcggcatcacctcatcagctg	9	16	4	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr20:61525406C>T	uc002ydr.1	-	12	2977	c.2713G>A	c.(2713-2715)GAG>AAG	p.E905K	DIDO1_uc002yds.1_Missense_Mutation_p.E905K|DIDO1_uc002ydt.1_Missense_Mutation_p.E905K|DIDO1_uc002ydu.1_Missense_Mutation_p.E905K	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	905					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GGCACAGCCTCCGGCATCACC	0.502													36	116	---	---	---	---	PASS	T	61525406	T	T	61525406	3	4	8	1	0	0	0	0	1	0	0	0	4522	864	30	2	4058	2	DIDO1	20	61525406	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	237322	61525406	1500114	386	5802										
RCAN1	1827	broad.mit.edu	37	chr21	35893803	35893803	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	agggccctgctcacctggccCcagcttggagatggcatata	12	13	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr21:35893803C>A	uc002yue.2	-	3	652	c.580G>T	c.(580-582)GGG>TGG	p.G194W	RCAN1_uc002yuc.2_Missense_Mutation_p.G113W|RCAN1_uc002yud.2_Missense_Mutation_p.G59W|RCAN1_uc002yub.2_Missense_Mutation_p.G139W|RCAN1_uc011adx.1_Missense_Mutation_p.G139W	NM_004414	NP_004405	P53805	RCAN1_HUMAN	calcipressin 1 isoform a	194					blood circulation|calcium-mediated signaling|central nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0						TCACCTGGCCCCAGCTTGGAG	0.612													10	22	---	---	---	---	PASS	A	35893803	A	A	35893803	3	1	8	1	0	0	0	0	1	0	0	0	13168	623	22	3	186	3	RCAN1	21	35893803	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08		35893803	12236092	387	5803										
DGCR2	9993	broad.mit.edu	37	chr22	19055686	19055686	+	Silent	SNP	C	A	A													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cctcctctggcccgcccctgCcgcggatccacagcctcctt							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr22:19055686C>A	uc002zoq.1	-	3	503	c.255G>T	c.(253-255)CGG>CGT	p.R85R	DGCR2_uc002zor.1_5'UTR|DGCR2_uc011agr.1_Silent_p.R44R	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	85	Extracellular (Potential).				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					CCCGCCCCTGCCGCGGATCCA	0.632													5	14	---	---	---	---	PASS	A	19055686	A	A	19055686	2	1	8	1	0	0	0	0	0	0	0	1	4461	726	26	3		3	DGCR2	22	19055686	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08		19055686	32248880	388	5804	216	2								
DGCR2	9993	broad.mit.edu	37	chr22	19055687	19055687	+	Missense_Mutation	SNP	C	A	A													0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctcctctggcccgcccctgcCgcggatccacagcctccttc							TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr22:19055687C>A	uc002zoq.1	-	3	502	c.254G>T	c.(253-255)CGG>CTG	p.R85L	DGCR2_uc002zor.1_5'UTR|DGCR2_uc011agr.1_Missense_Mutation_p.R44L	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	85	Extracellular (Potential).				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					CCGCCCCTGCCGCGGATCCAC	0.627													6	12	---	---	---	---	PASS	A	19055687	A	A	19055687	3	1	8	1	0	0	0	0	1	0	0	0	4461	652	23	1	1430	1	DGCR2	22	19055687	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1	19055687	32248879	389	5805	216	2								
KLHL22	84861	broad.mit.edu	37	chr22	20812204	20812204	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ccgccacagcgtagatgtacCtgcctacaacacacacggac	8	16	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr22:20812204C>A	uc002zsl.1	-	5	1305	c.1196G>T	c.(1195-1197)AGG>ATG	p.R399M	KLHL22_uc011ahr.1_Missense_Mutation_p.R256M|KLHL22_uc002zsm.1_Missense_Mutation_p.R399M	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	399	Kelch 2.				cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GTAGATGTACCTGCCTACAAC	0.612													4	21	---	---	---	---	PASS	A	20812204	A	A	20812204	3	1	8	1	0	0	0	0	1	0	0	0	8377	681	24	3	720	3	KLHL22	22	20812204	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	1756517	20812204	30492362	390	5806										
SLC2A11	66035	broad.mit.edu	37	chr22	24225966	24225966	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tctgcctttgcagtgtgtggTaatcgagagggtgggtcggc	17	7	1	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr22:24225966T>C	uc002zyn.3	+	9	1091	c.992T>C	c.(991-993)GTA>GCA	p.V331A	SLC2A11_uc002zyl.1_3'UTR|SLC2A11_uc002zym.3_Missense_Mutation_p.V338A|SLC2A11_uc002zyo.3_RNA|SLC2A11_uc011ajc.1_Intron|SLC2A11_uc002zyp.3_Missense_Mutation_p.V334A	NM_001024938	NP_001020109	Q9BYW1	GTR11_HUMAN	glucose transporter protein 10 isoform c	331	Helical; Name=8; (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity			ovary(1)	1						CAGTGTGTGGTAATCGAGAGG	0.612													6	72	---	---	---	---	PASS	C	24225966	C	C	24225966	3	2	8	1	0	0	0	0	1	0	0	0	14540	1638	57	5	1106	5	SLC2A11	22	24225966	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	3413762	24225966	27078600	391	5807										
RFPL2	10739	broad.mit.edu	37	chr22	32588926	32588926	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cttgggttcatctgcagaatCttcttcagcttgggctccag	10	11	5	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr22:32588926C>A	uc003amg.3	-	4	1455	c.519G>T	c.(517-519)AAG>AAT	p.K173N	RFPL2_uc003ame.3_Missense_Mutation_p.K112N|RFPL2_uc003amf.3_Missense_Mutation_p.K83N|RFPL2_uc003amh.3_Missense_Mutation_p.K83N	NM_001098527	NP_001091997	O75678	RFPL2_HUMAN	ret finger protein-like 2 isoform 2	173	B30.2/SPRY.						zinc ion binding			skin(1)	1						TCTGCAGAATCTTCTTCAGCT	0.512													50	135	---	---	---	---	PASS	A	32588926	A	A	32588926	3	1	8	1	0	0	0	0	1	0	0	0	13254	912	32	2	625	2	RFPL2	22	32588926	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	8362960	32588926	18715640	392	5808										
MCM5	4174	broad.mit.edu	37	chr22	35796559	35796559	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggagttcctgcggcagtaccGagtgggcaccgaccgcacgg	16	13	0	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr22:35796559G>T	uc003anu.3	+	2	222	c.128G>T	c.(127-129)CGA>CTA	p.R43L	MCM5_uc010gwr.2_5'UTR|MCM5_uc003anv.3_Missense_Mutation_p.R43L	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	43					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						CGGCAGTACCGAGTGGGCACC	0.672													10	20	---	---	---	---	PASS	T	35796559	T	T	35796559	3	4	8	1	0	0	0	0	1	0	0	0	9390	1058	37	2	130	2	MCM5	22	35796559	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	3207633	35796559	15508007	393	5809										
RASD2	23551	broad.mit.edu	37	chr22	35943063	35943063	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cgcggcgacatgtaccagctCgacatcctggatacctctgg	11	14	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr22:35943063C>G	uc003anx.2	+	2	412	c.207C>G	c.(205-207)CTC>CTG	p.L69L	RASD2_uc003any.2_Silent_p.L69L	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	69					locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3						TGTACCAGCTCGACATCCTGG	0.617													31	32	---	---	---	---	PASS	G	35943063	G	G	35943063	2	3	8	1	0	0	0	0	0	0	0	1	13067	871	31	2		2	RASD2	22	35943063	Silent	SNP	C	TCGA-18-3414-01A-01D-0983-08	146504	35943063	15361503	394	5810										
APOL5	80831	broad.mit.edu	37	chr22	36122449	36122449	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	attttcctttgcacaagtttGagctagaacagaacatcaaa	6	8	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr22:36122449G>C	uc003aof.2	+	3	334	c.334G>C	c.(334-336)GAG>CAG	p.E112Q		NM_030642	NP_085145	Q9BWW9	APOL5_HUMAN	apolipoprotein L5	112					lipid metabolic process|lipid transport|lipoprotein metabolic process	cytoplasm|extracellular region	high-density lipoprotein particle binding|lipid binding|protein binding				0						GCACAAGTTTGAGCTAGAACA	0.458													6	66	---	---	---	---	PASS	C	36122449	C	C	36122449	3	2	8	1	0	0	0	0	1	0	0	0	809	1291	45	2	344	2	APOL5	22	36122449	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	179386	36122449	15182117	395	5811										
CELSR1	9620	broad.mit.edu	37	chr22	46835291	46835291	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	acagcggcctgagcgggcatCcacctcacagtgctctcctg	11	16	2	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr22:46835291C>G	uc003bhw.1	-	3	4201	c.4201G>C	c.(4201-4203)GAT>CAT	p.D1401H		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1401	Extracellular (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GAGCGGGCATCCACCTCACAG	0.647													6	16	---	---	---	---	PASS	G	46835291	G	G	46835291	3	3	8	1	0	0	0	0	1	0	0	0	3221	855	30	2	4975	2	CELSR1	22	46835291	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	10712842	46835291	4469275	396	5812										
PLXNB2	23654	broad.mit.edu	37	chr22	50728775	50728775	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	actggctggcctcgatgggcGgcgtgcacttcttgttgtcc	14	12	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chr22:50728775G>A	uc003bkv.3	-	3	345	c.239C>T	c.(238-240)CCG>CTG	p.P80L		NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	80	Extracellular (Potential).|Sema.				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CTCGATGGGCGGCGTGCACTT	0.652													9	15	---	---	---	---	PASS	A	50728775	A	A	50728775	3	1	8	1	0	0	0	0	1	0	0	0	12124	1116	39	1	5417	1	PLXNB2	22	50728775	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	3893484	50728775	575791	397	5813										
SHOX	6473	broad.mit.edu	37	chrX	601814	601814	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tgggagccttacggatgcctTtccaacaggtagctcacttt	10	11	1	0			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chrX:601814T>C	uc004cph.1	+	5	1316	c.625T>C	c.(625-627)TTC>CTC	p.F209L	SHOX_uc004cpi.2_Missense_Mutation_p.F209L	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	209					skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ACGGATGCCTTTCCAACAGGT	0.567													24	18	---	---	---	---	PASS	C	601814	C	C	601814	3	2	8	1	0	0	0	0	1	0	0	0	14288	1841	64	5	639	5	SHOX	23	601814	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08		601814	154668746	398	5814										
CSF2RA	1438	broad.mit.edu	37	chrX	1428351	1428351	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ggctaccgcgaagaggtcttGaccgtgaaggaaattacctg	13	9	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chrX:1428351G>C	uc010nct.2	+	14	1504	c.1182G>C	c.(1180-1182)TTG>TTC	p.L394F	CSF2RA_uc004cpq.2_3'UTR|CSF2RA_uc004cpn.2_Missense_Mutation_p.L394F|CSF2RA_uc004cpo.2_Missense_Mutation_p.L394F|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Missense_Mutation_p.L261F|CSF2RA_uc004cpp.2_Missense_Mutation_p.D335H|CSF2RA_uc010ncv.2_Missense_Mutation_p.L428F|CSF2RA_uc004cpr.2_3'UTR	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	394	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	AAGAGGTCTTGACCGTGAAGG	0.527													6	133	---	---	---	---	PASS	C	1428351	C	C	1428351	3	2	8	1	0	0	0	0	1	0	0	0	3934	1290	45	2	1442	2	CSF2RA	23	1428351	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	826537	1428351	153842209	399	5815										
ASMT	438	broad.mit.edu	37	chrX	1743268	1743268	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aggaccagctaccggtgctgGggccacctggcagacgccgt	15	14	0	1			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chrX:1743268G>A	uc004cqd.2	+	4	496	c.351G>A	c.(349-351)TGG>TGA	p.W117*	ASMT_uc010ncy.2_Nonsense_Mutation_p.W117*|ASMT_uc004cqe.2_Nonsense_Mutation_p.W117*	NM_004043	NP_004034	P46597	HIOM_HUMAN	acetylserotonin O-methyltransferase	117					melatonin biosynthetic process|translation	cytosol	acetylserotonin O-methyltransferase activity|S-methyltransferase activity			skin(1)	1		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ACCGGTGCTGGGGCCACCTGG	0.662													9	80	---	---	---	---	PASS	A	1743268	A	A	1743268	4	1	8	1	0	0	0	0	0	1	0	0	1045	1241	43	3	361	3	ASMT	23	1743268	Nonsense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	314917	1743268	153527292	400	5816										
MAGEB1	4112	broad.mit.edu	37	chrX	30269565	30269565	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aagagagagcccaagtccgaTccagtgttagagccaggcgt	13	10	0	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chrX:30269565T>A	uc004dcc.2	+	4	1275	c.955T>A	c.(955-957)TCC>ACC	p.S319T	MAGEB1_uc004dcd.2_Missense_Mutation_p.S319T|MAGEB1_uc004dce.2_Missense_Mutation_p.S319T	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	319											0						CCAAGTCCGATCCAGTGTTAG	0.547													34	13	---	---	---	---	PASS	A	30269565	A	A	30269565	3	1	8	1	0	0	0	0	1	0	0	0	9172	1435	50	5	957	5	MAGEB1	23	30269565	Missense_Mutation	SNP	T	TCGA-18-3414-01A-01D-0983-08	28526297	30269565	125000995	401	5817										
CXorf22	170063	broad.mit.edu	37	chrX	35969926	35969926	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	actttatattacagggtacaGatattcaacaaagaacagat	6	6	1	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chrX:35969926G>C	uc004ddj.2	+	6	951	c.892G>C	c.(892-894)GAT>CAT	p.D298H	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	298										large_intestine(1)|lung(1)|ovary(1)	3						ACAGGGTACAGATATTCAACA	0.269													9	5	---	---	---	---	PASS	C	35969926	C	C	35969926	3	2	8	1	0	0	0	0	1	0	0	0	4102	942	33	2	914	2	CXorf22	23	35969926	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	5700361	35969926	119300634	402	5818										
SUV39H1	6839	broad.mit.edu	37	chrX	48564683	48564683	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	cctcagaggaggcagagcggCggggccagatctacgaccgt	16	12	2	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chrX:48564683C>T	uc004dkn.2	+	4	901	c.856C>T	c.(856-858)CGG>TGG	p.R286W	SUV39H1_uc011mmf.1_Missense_Mutation_p.R297W|SUV39H1_uc011mmg.1_RNA	NM_003173	NP_003164	O43463	SUV91_HUMAN	suppressor of variegation 3-9 homolog 1	286	Mediates interaction with MECOM (By similarity).|SET.				cell cycle|cell differentiation|chromatin silencing at rDNA|interspecies interaction between organisms|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|chromosome, centromeric region|condensed nuclear chromosome|rDNA heterochromatin	chromatin binding|histone methyltransferase activity (H3-K9 specific)|protein N-terminus binding|zinc ion binding				0						GGCAGAGCGGCGGGGCCAGAT	0.592													5	21	---	---	---	---	PASS	T	48564683	T	T	48564683	3	4	8	1	0	0	0	0	1	0	0	0	15409	759	27	1	870	1	SUV39H1	23	48564683	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	12594757	48564683	106705877	403	5819										
KIAA2022	340533	broad.mit.edu	37	chrX	73963358	73963358	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	tcttagactctcgcttggggCaggtagtaaagacgctggga	14	8	2	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chrX:73963358C>A	uc004eby.2	-	3	1651	c.1034G>T	c.(1033-1035)TGC>TTC	p.C345F		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	345					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						TCGCTTGGGGCAGGTAGTAAA	0.463													27	7	---	---	---	---	PASS	A	73963358	A	A	73963358	3	1	8	1	0	0	0	0	1	0	0	0	8269	710	25	3	3524	3	KIAA2022	23	73963358	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	25398675	73963358	81307202	404	5820										
CXorf26	51260	broad.mit.edu	37	chrX	75397617	75397617	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	aacaccaagaatggaggagaGaaaggagctgatagtggaga	15	4	0	4			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chrX:75397617G>C	uc004ecl.1	+	6	779	c.576G>C	c.(574-576)GAG>GAC	p.E192D		NM_016500	NP_057584	Q9BVG4	CX026_HUMAN	hypothetical protein LOC51260	192											0						atggaggagagaaaggagctg	0.04													14	5	---	---	---	---	PASS	C	75397617	C	C	75397617	3	2	8	1	0	0	0	0	1	0	0	0	4104	933	33	2	598	2	CXorf26	23	75397617	Missense_Mutation	SNP	G	TCGA-18-3414-01A-01D-0983-08	1434259	75397617	79872943	405	5821										
DCX	1641	broad.mit.edu	37	chrX	110574147	110574147	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctcaccgtcttggtcgttacCtgagtcagctggagacttgc	11	12	3	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chrX:110574147C>T	uc004epd.2	-	5	1346	c.1174G>A	c.(1174-1176)GCA>ACA	p.A392T	DCX_uc011msv.1_Missense_Mutation_p.G392S|DCX_uc004epe.2_Missense_Mutation_p.A311T|DCX_uc004epf.2_Missense_Mutation_p.G311S|DCX_uc004epg.2_Missense_Mutation_p.A311T	NM_000555	NP_000546	O43602	DCX_HUMAN	doublecortin isoform a	392	Pro/Ser-rich.				axon guidance|central nervous system development|intracellular signal transduction	cytosol|microtubule associated complex	microtubule binding			central_nervous_system(2)|lung(1)|skin(1)	4						TGGTCGTTACCTGAGTCAGCT	0.527													75	30	---	---	---	---	PASS	T	110574147	T	T	110574147	3	4	8	1	0	0	0	0	1	0	0	0	4318	695	24	3	178	3	DCX	23	110574147	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	35176530	110574147	44696413	406	5822										
CXorf61	203413	broad.mit.edu	37	chrX	115593069	115593069	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	taaaatatcccgagagaggtCgtagactgcaagattgttgt	11	6	0	3			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chrX:115593069C>A	uc004eqj.1	-	2	301	c.181G>T	c.(181-183)GAC>TAC	p.D61Y		NM_001017978	NP_001017978	Q5H943	KKLC1_HUMAN	chromosome X open reading frame 61	61	Extracellular (Potential).					integral to membrane|plasma membrane					0						CGAGAGAGGTCGTAGACTGCA	0.418													26	8	---	---	---	---	PASS	A	115593069	A	A	115593069	3	1	8	1	0	0	0	0	1	0	0	0	4116	884	31	2	164	2	CXorf61	23	115593069	Missense_Mutation	SNP	C	TCGA-18-3414-01A-01D-0983-08	5018922	115593069	39677491	407	5823										
NKAP	79576	broad.mit.edu	37	chrX	119064021	119064021	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.1475	59	7.02594807381804e-09	2.22668690215154	3.07396013864818	1.80655141297965	0.505739187232621	0.81842946137857	33	ctgagcattcaaatgatgcaAtttcttcacttgtcaagcca	6	10	4	2			TCGA-18-3414-01A-01D-0983-08	TCGA-18-3414-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	239deee9-2791-4163-b777-fdf8c49c9e33	dc33f835-cd00-493e-98a9-48aa6b4ef73f	g.chrX:119064021A>C	uc004esh.2	-	8	1198	c.1031T>G	c.(1030-1032)ATT>AGT	p.I344S	NKAP_uc004esg.2_Missense_Mutation_p.I231S	NM_024528	NP_078804	Q8N5F7	NKAP_HUMAN	NFKB activating protein	344	Necessary for interaction with HDAC3 and transcriptional repression.				negative regulation of transcription, DNA-dependent|Notch signaling pathway|positive regulation of alpha-beta T cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	chromatin binding|protein binding			ovary(2)	2						AAATGATGCAATTTCTTCACT	0.393													13	42	---	---	---	---	PASS	C	119064021	C	C	119064021	3	2	8	1	0	0	0	0	1	0	0	0	10439	101	4	5	224	5	NKAP	23	119064021	Missense_Mutation	SNP	A	TCGA-18-3414-01A-01D-0983-08	3470952	119064021	36206539	408	5824										
WDR8	49856	broad.mit.edu	37	chr1	3553570	3553570	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	acgccttacccgcaggagctGccaatcactgcagacgaaga	10	14	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:3553570G>A	uc001ako.2	-	5	613	c.505C>T	c.(505-507)CAG>TAG	p.Q169*	WDR8_uc001akn.3_Nonsense_Mutation_p.Q169*|WDR8_uc010nzi.1_Nonsense_Mutation_p.Q169*	NM_017818	NP_060288	Q9P2S5	WRP73_HUMAN	WD repeat domain 8	169						centrosome	protein binding				0	all_cancers(77;0.0128)|all_epithelial(69;0.00526)|Ovarian(185;0.0634)|Lung NSC(156;0.162)|all_lung(157;0.172)	all_epithelial(116;7.37e-22)|all_lung(118;8.23e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;4.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;4.16e-22)|GBM - Glioblastoma multiforme(42;1.05e-14)|Colorectal(212;1.19e-05)|BRCA - Breast invasive adenocarcinoma(365;2.67e-05)|COAD - Colon adenocarcinoma(227;5.82e-05)|Kidney(185;0.000364)|KIRC - Kidney renal clear cell carcinoma(229;0.00223)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		CGCAGGAGCTGCCAATCACTG	0.562													5	17	---	---	---	---	PASS	A	3553570	A	A	3553570	4	1	9	1	0	0	0	0	0	1	0	0	17326	1328	46	3	909	3	WDR8	1	3553570	Nonsense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08		3553570	245697051	1	5825										
PLEKHM2	23207	broad.mit.edu	37	chr1	16054794	16054794	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agcaccgggcacatggagggCaacctgcagctgctgtacgt	14	12	0	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:16054794C>A	uc010obo.1	+	11	2090	c.1863C>A	c.(1861-1863)GGC>GGA	p.G621G		NM_015164	NP_055979	Q8IWE5	PKHM2_HUMAN	pleckstrin homology domain containing, family M	621					Golgi organization	cytoplasm	kinesin binding			ovary(1)	1		Colorectal(325;0.000259)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00057)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		ACATGGAGGGCAACCTGCAGC	0.672													8	9	---	---	---	---	PASS	A	16054794	A	A	16054794	2	1	9	1	0	0	0	0	0	0	0	1	12081	697	25	3		3	PLEKHM2	1	16054794	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	12501224	16054794	233195827	2	5826										
USP48	84196	broad.mit.edu	37	chr1	22063027	22063027	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttataccattcaccagactgTggatctttcacgtgggcgat	9	10	3	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:22063027T>C	uc001bfb.2	-	9	1321	c.1083A>G	c.(1081-1083)CCA>CCG	p.P361P	USP48_uc010odq.1_Silent_p.P361P|USP48_uc009vqc.2_Silent_p.P361P|USP48_uc001bfc.2_Silent_p.P361P|USP48_uc001bfe.1_Silent_p.P361P|USP48_uc001bff.2_Silent_p.P361P	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	361					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		CACCAGACTGTGGATCTTTCA	0.443													14	40	---	---	---	---	PASS	C	22063027	C	C	22063027	2	2	9	1	0	0	0	0	0	0	0	1	17076	1683	59	5		5	USP48	1	22063027	Silent	SNP	T	TCGA-18-3415-01A-01D-0983-08	6008233	22063027	227187594	3	5827										
S100PBP	64766	broad.mit.edu	37	chr1	33321622	33321622	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	atcggttccagcgtctcccaGacttctcgtacagttaattt	7	12	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:33321622G>T	uc001bvz.2	+	7	1487	c.1210G>T	c.(1210-1212)GAC>TAC	p.D404Y	S100PBP_uc001bwc.2_Missense_Mutation_p.D404Y|S100PBP_uc001bwd.2_RNA	NM_022753	NP_073590	Q96BU1	S1PBP_HUMAN	S100P binding protein isoform a	404						nucleus	calcium-dependent protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				GCGTCTCCCAGACTTCTCGTA	0.493													7	33	---	---	---	---	PASS	T	33321622	T	T	33321622	3	4	9	1	0	0	0	0	1	0	0	0	13791	942	33	2	1237	2	S100PBP	1	33321622	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	11258595	33321622	215928999	4	5828										
GRIK3	2899	broad.mit.edu	37	chr1	37307519	37307519	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tagcgtcctgtctgatttccGaaacatgacgaagggctcct	10	11	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:37307519G>A	uc001caz.2	-	10	1483	c.1348C>T	c.(1348-1350)CGG>TGG	p.R450W	GRIK3_uc001cba.1_Missense_Mutation_p.R450W	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	450	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	TCTGATTTCCGAAACATGACG	0.567													22	79	---	---	---	---	PASS	A	37307519	A	A	37307519	3	1	9	1	0	0	0	0	1	0	0	0	6775	1057	37	2	1439	2	GRIK3	1	37307519	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	3985897	37307519	211943102	5	5829										
DOCK7	85440	broad.mit.edu	37	chr1	62973692	62973692	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgcttctgtagccaggtttcCatcaatcagtgcttcgtgtt	9	10	3	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:62973692C>T	uc001daq.2	-	35	4424	c.4390G>A	c.(4390-4392)GGA>AGA	p.G1464R	DOCK7_uc001dan.2_Missense_Mutation_p.G1325R|DOCK7_uc001dao.2_Missense_Mutation_p.G1325R|DOCK7_uc001dap.2_Missense_Mutation_p.G1442R|DOCK7_uc001dam.2_Missense_Mutation_p.G644R|DOCK7_uc010oov.1_Missense_Mutation_p.G203R	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1473					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						GCCAGGTTTCCATCAATCAGT	0.303													6	22	---	---	---	---	PASS	T	62973692	T	T	62973692	3	4	9	1	0	0	0	0	1	0	0	0	4692	603	21	3	2069	3	DOCK7	1	62973692	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	25666173	62973692	186276929	6	5830										
LEPR	3953	broad.mit.edu	37	chr1	66102541	66102541	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctgtttattcacggacatcaGagttctccaggacagttgct	9	10	3	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:66102541G>A	uc001dci.2	+	20	3543	c.3341G>A	c.(3340-3342)AGA>AAA	p.R1114K	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	1114	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)		ACGGACATCAGAGTTCTCCAG	0.433													8	25	---	---	---	---	PASS	A	66102541	A	A	66102541	3	1	9	1	0	0	0	0	1	0	0	0	8728	942	33	2	3641	2	LEPR	1	66102541	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	3128849	66102541	183148080	7	5831										
PDE4B	5142	broad.mit.edu	37	chr1	66713282	66713282	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttctctacagatcagacagcGactatgacttgtcaccaaag	7	11	3	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:66713282G>T	uc001dcn.2	+	4	612	c.421G>T	c.(421-423)GAC>TAC	p.D141Y	PDE4B_uc009war.2_Missense_Mutation_p.D49Y|PDE4B_uc001dco.2_Missense_Mutation_p.D141Y|PDE4B_uc001dcp.2_Missense_Mutation_p.D126Y	NM_001037341	NP_001032418	Q07343	PDE4B_HUMAN	phosphodiesterase 4B isoform 1	141					signal transduction	cytosol|insoluble fraction|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Adenosine monophosphate(DB00131)|Amrinone(DB01427)|Caffeine(DB00201)|Cilostazol(DB01166)|Dyphylline(DB00651)|Enprofylline(DB00824)|Papaverine(DB01113)|Pentoxifylline(DB00806)|Theophylline(DB00277)	ATCAGACAGCGACTATGACTT	0.522													20	48	---	---	---	---	PASS	T	66713282	T	T	66713282	3	4	9	1	0	0	0	0	1	0	0	0	11640	1058	37	2	671	2	PDE4B	1	66713282	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	610741	66713282	182537339	8	5832										
DIRAS3	9077	broad.mit.edu	37	chr1	68512321	68512321	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	atgcacttgtcaagcagcttCtcagtggtgttgggcatctg	12	9	3	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:68512321C>T	uc001ded.2	-	2	955	c.660G>A	c.(658-660)GAG>GAA	p.E220E	uc001deb.1_Intron|uc001dec.1_Intron	NM_004675	NP_004666	O95661	DIRA3_HUMAN	DIRAS family, GTP-binding RAS-like 3	220					regulation of cyclin-dependent protein kinase activity|regulation of gene expression by genetic imprinting|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						CAAGCAGCTTCTCAGTGGTGT	0.507													9	51	---	---	---	---	PASS	T	68512321	T	T	68512321	2	4	9	1	0	0	0	0	0	0	0	1	4532	912	32	2		2	DIRAS3	1	68512321	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	1799039	68512321	180738300	9	5833										
LRRC7	57554	broad.mit.edu	37	chr1	70503937	70503937	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gacaactggactgatggctcGcattatgacaacacagggtt	11	9	0	2	rs12567778	byFrequency	TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:70503937G>C	uc001dep.2	+	19	2346	c.2316G>C	c.(2314-2316)TCG>TCC	p.S772S	LRRC7_uc009wbg.2_Silent_p.S56S|LRRC7_uc001deq.2_Silent_p.S13S	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	772						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CTGATGGCTCGCATTATGACA	0.507													18	64	---	---	---	---	PASS	C	70503937	C	C	70503937	2	2	9	1	0	0	0	0	0	0	0	1	9020	1074	38	4		4	LRRC7	1	70503937	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	1991616	70503937	178746684	10	5834										
FPGT	8790	broad.mit.edu	37	chr1	74670749	74670749	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgaggcagagaatatttcatCttcttaaaggaacatcacta	7	7	4	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:74670749C>T	uc001dgb.1	+	4	1055	c.1018C>T	c.(1018-1020)CTT>TTT	p.L340F	TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron|FPGT_uc010oqt.1_Intron|FPGT_uc010oqu.1_Intron|FPGT_uc010oqv.1_Intron	NM_003838	NP_003829	O14772	FPGT_HUMAN	fucose-1-phosphate guanyltransferase	340					fucose metabolic process	cytoplasm	fucose-1-phosphate guanylyltransferase activity|GTP binding			skin(1)	1						AATATTTCATCTTCTTAAAGG	0.353													14	30	---	---	---	---	PASS	T	74670749	T	T	74670749	3	4	9	1	0	0	0	0	1	0	0	0	6037	913	32	2	1032	2	FPGT	1	74670749	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	4166812	74670749	174579872	11	5835										
COL11A1	1301	broad.mit.edu	37	chr1	103470046	103470046	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	caatttctccatcttctcccTgtcattgacaaaatgaatga	4	11	4	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:103470046T>C	uc001dul.2	-	20	2218	c.1900_splice	c.e20-1	p.G634_splice	COL11A1_uc001duk.2_Splice_Site|COL11A1_uc001dum.2_Splice_Site_p.G646_splice|COL11A1_uc001dun.2_Splice_Site_p.G595_splice|COL11A1_uc009weh.2_Splice_Site_p.G518_splice	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A						collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		ATCTTCTCCCTGTCATTGACA	0.284													3	13	---	---	---	---	PASS	C	103470046	C	C	103470046	5	2	9	1	0	0	0	0	0	0	1	0	3667	1594	55	5	3714	5	COL11A1	1	103470046	Splice_Site	SNP	T	TCGA-18-3415-01A-01D-0983-08	28799297	103470046	145780575	12	5836										
FLG	2312	broad.mit.edu	37	chr1	152282314	152282314	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctgctgactgctggtggcggGatccatgtctttctcctgga	13	11	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:152282314G>A	uc001ezu.1	-	3	5084	c.5048C>T	c.(5047-5049)TCC>TTC	p.S1683F		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1683	Ser-rich.|Filaggrin 10.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGGTGGCGGGATCCATGTCT	0.562									Ichthyosis				232	287	---	---	---	---	PASS	A	152282314	A	A	152282314	3	1	9	1	0	0	0	0	1	0	0	0	5922	1174	41	2	7141	2	FLG	1	152282314	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	48812268	152282314	96968307	13	5837										
GPR161	23432	broad.mit.edu	37	chr1	168065986	168065986	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctcagaggcgatgacaaccaTgtaggggccccaggtgacca	13	12	1	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:168065986T>C	uc001gfc.2	-	5	1173	c.859A>G	c.(859-861)ATG>GTG	p.M287V	GPR161_uc001gfb.2_Missense_Mutation_p.M155V|GPR161_uc010pll.1_Missense_Mutation_p.M197V|GPR161_uc010plm.1_Missense_Mutation_p.M173V|GPR161_uc009wvo.2_Missense_Mutation_p.M304V|GPR161_uc001gfd.2_Missense_Mutation_p.M287V|GPR161_uc010pln.1_Missense_Mutation_p.M307V|GPR161_uc001gfe.1_Missense_Mutation_p.M287V	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2	287	Helical; Name=6; (Potential).				multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)					ATGACAACCATGTAGGGGCCC	0.612													28	88	---	---	---	---	PASS	C	168065986	C	C	168065986	3	2	9	1	0	0	0	0	1	0	0	0	6665	1464	51	5	746	5	GPR161	1	168065986	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	15783672	168065986	81184635	14	5838										
ARID4B	51742	broad.mit.edu	37	chr1	235331905	235331905	+	Silent	SNP	A	G	G													0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgacggttcagctaaagttaAcataacagcagctgttatgg							TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:235331905A>G	uc001hwq.2	-	24	4372	c.3874T>C	c.(3874-3876)TTA>CTA	p.L1292L	ARID4B_uc001hwr.2_Silent_p.L1206L|ARID4B_uc001hwp.2_RNA	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	1292	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			GCTAAAGTTAACATAACAGCA	0.443													4	33	---	---	---	---	PASS	G	235331905	G	G	235331905	2	3	9	1	0	0	0	0	0	0	0	1	920	40	2	5		5	ARID4B	1	235331905	Silent	SNP	A	TCGA-18-3415-01A-01D-0983-08	67265919	235331905	13918716	15	5839	217	2								
ARID4B	51742	broad.mit.edu	37	chr1	235331906	235331906	+	Missense_Mutation	SNP	C	A	A													0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gacggttcagctaaagttaaCataacagcagctgttatgga							TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:235331906C>A	uc001hwq.2	-	24	4371	c.3873G>T	c.(3871-3873)ATG>ATT	p.M1291I	ARID4B_uc001hwr.2_Missense_Mutation_p.M1205I|ARID4B_uc001hwp.2_RNA	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	1291	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			CTAAAGTTAACATAACAGCAG	0.438													4	34	---	---	---	---	PASS	A	235331906	A	A	235331906	3	1	9	1	0	0	0	0	1	0	0	0	920	478	17	3	69	3	ARID4B	1	235331906	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	1	235331906	13918715	16	5840	217	2								
RYR2	6262	broad.mit.edu	37	chr1	237758806	237758806	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tttgaaattcagcatcaaacGcagcaactgctatatggtat	7	8	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:237758806G>C	uc001hyl.1	+	34	4565	c.4445G>C	c.(4444-4446)CGC>CCC	p.R1482P		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1482	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AGCATCAAACGCAGCAACTGC	0.443													21	46	---	---	---	---	PASS	C	237758806	C	C	237758806	3	2	9	1	0	0	0	0	1	0	0	0	13769	1087	38	4	4579	4	RYR2	1	237758806	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	2426900	237758806	11491815	17	5841										
RYR2	6262	broad.mit.edu	37	chr1	237774129	237774129	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ccccgtgccgcagtgcccccCgcgcctccacgtgcagttcc	10	22	0	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:237774129C>T	uc001hyl.1	+	36	4871	c.4751C>T	c.(4750-4752)CCG>CTG	p.P1584L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1584	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CAGTGCCCCCCGCGCCTCCAC	0.542													9	22	---	---	---	---	PASS	T	237774129	T	T	237774129	3	4	9	1	0	0	0	0	1	0	0	0	13769	652	23	1	4893	1	RYR2	1	237774129	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	15323	237774129	11476492	18	5842										
CNST	163882	broad.mit.edu	37	chr1	246829021	246829021	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gatgaagttggaggtggctcCtgtattttgctggtcttgct	14	6	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:246829021C>T	uc001ibp.2	+	11	2370	c.1992C>T	c.(1990-1992)TCC>TCT	p.S664S		NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	664					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						GAGGTGGCTCCTGTATTTTGC	0.428													15	45	---	---	---	---	PASS	T	246829021	T	T	246829021	2	4	9	1	0	0	0	0	0	0	0	1	3634	668	24	3		3	CNST	1	246829021	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	9054892	246829021	2421600	19	5843										
AHCTF1	25909	broad.mit.edu	37	chr1	247025278	247025278	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	taccccaggaatccattttgGgtggacatcttcttccacaa	7	12	2	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:247025278G>A	uc001ibu.1	-	27	3725	c.3718C>T	c.(3718-3720)CCA>TCA	p.P1240S	AHCTF1_uc001ibv.1_Missense_Mutation_p.P1249S|AHCTF1_uc009xgs.1_Missense_Mutation_p.P101S|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	1240	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			ATCCATTTTGGGTGGACATCT	0.358													23	30	---	---	---	---	PASS	A	247025278	A	A	247025278	3	1	9	1	0	0	0	0	1	0	0	0	408	1232	43	3	3118	3	AHCTF1	1	247025278	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	196257	247025278	2225343	20	5844										
OR2L3	391192	broad.mit.edu	37	chr1	248224555	248224555	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gactctggcctgcatggacaCctgggtctatgagggcacag	14	11	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr1:248224555C>A	uc001idx.1	+	1	572	c.572C>A	c.(571-573)ACC>AAC	p.T191N	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TGCATGGACACCTGGGTCTAT	0.478													23	125	---	---	---	---	PASS	A	248224555	A	A	248224555	3	1	9	1	0	0	0	0	1	0	0	0	11008	507	18	3	574	3	OR2L3	1	248224555	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	1199277	248224555	1026066	21	5845										
WDR35	57539	broad.mit.edu	37	chr2	20153629	20153629	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttttcgagaccgtgtgatctGattaatttccaatgctgtga	9	7	1	4			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:20153629G>C	uc002rdi.2	-	13	1507	c.1399C>G	c.(1399-1401)CAG>GAG	p.Q467E	WDR35_uc002rdj.2_Missense_Mutation_p.Q456E|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Missense_Mutation_p.Q32E|WDR35_uc002rdk.3_Missense_Mutation_p.Q32E	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	467										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGTGTGATCTGATTAATTTCC	0.383													53	93	---	---	---	---	PASS	C	20153629	C	C	20153629	3	2	9	1	0	0	0	0	1	0	0	0	17286	1299	45	2	2210	2	WDR35	2	20153629	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08		20153629	223045744	22	5846										
DHX57	90957	broad.mit.edu	37	chr2	39095469	39095469	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agatttactggcgtgactccTgcctcctcttcctcctctag	7	15	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:39095469T>C	uc002rrf.2	-	2	178	c.79A>G	c.(79-81)AGG>GGG	p.R27G	DHX57_uc002rre.2_5'Flank|DHX57_uc002rrg.2_Missense_Mutation_p.R27G	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	27	Gly-rich.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				GCGTGACTCCTGCCTCCTCTT	0.368													17	96	---	---	---	---	PASS	C	39095469	C	C	39095469	3	2	9	1	0	0	0	0	1	0	0	0	4513	1579	55	5	4173	5	DHX57	2	39095469	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	18941840	39095469	204103904	23	5847										
SRBD1	55133	broad.mit.edu	37	chr2	45778336	45778336	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tcccattaaggtgcgccctgGaacagggcttgttaaaagga	12	9	0	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:45778336G>A	uc002rus.2	-	12	1679	c.1603C>T	c.(1603-1605)CCA>TCA	p.P535S	SRBD1_uc010yoc.1_Missense_Mutation_p.P54S	NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	535					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			GTGCGCCCTGGAACAGGGCTT	0.403													9	48	---	---	---	---	PASS	A	45778336	A	A	45778336	3	1	9	1	0	0	0	0	1	0	0	0	15132	1174	41	2	1424	2	SRBD1	2	45778336	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	6682867	45778336	197421037	24	5848										
RTN4	57142	broad.mit.edu	37	chr2	55253647	55253647	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgttaaattatctgttgtgaCataatctgtctcagaatcct	6	7	3	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:55253647C>G	uc002rye.2	-	3	1886	c.1588G>C	c.(1588-1590)GTC>CTC	p.V530L	RTN4_uc002ryd.2_Missense_Mutation_p.V324L|RTN4_uc002ryf.2_Intron|RTN4_uc002ryg.2_Intron	NM_020532	NP_065393	Q9NQC3	RTN4_HUMAN	reticulon 4 isoform A	530	Cytoplasmic (Potential).				apoptosis|axonal fasciculation|cerebral cortex radial glia guided migration|endoplasmic reticulum tubular network organization|negative regulation of anti-apoptosis|negative regulation of axon extension|nerve growth factor receptor signaling pathway|regulation of apoptosis|regulation of branching morphogenesis of a nerve|regulation of cell migration	integral to endoplasmic reticulum membrane|nuclear envelope|plasma membrane	protein binding			ovary(2)|large_intestine(1)	3						TCTGTTGTGACATAATCTGTC	0.398													28	66	---	---	---	---	PASS	G	55253647	G	G	55253647	3	3	9	1	0	0	0	0	1	0	0	0	13728	478	17	4	2056	4	RTN4	2	55253647	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	9475311	55253647	187945726	25	5849										
C2orf78	388960	broad.mit.edu	37	chr2	74042819	74042819	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tcaggtgcaggaaaagtcatGtgtcataaagggtcactctg	12	7	5	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:74042819G>T	uc002sjr.1	+	3	1590	c.1469G>T	c.(1468-1470)TGT>TTT	p.C490F		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	490										ovary(2)	2						GAAAAGTCATGTGTCATAAAG	0.463													20	62	---	---	---	---	PASS	T	74042819	T	T	74042819	3	4	9	1	0	0	0	0	1	0	0	0	2195	1377	48	3	1479	3	C2orf78	2	74042819	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	18789172	74042819	169156554	26	5850										
SLC20A1	6574	broad.mit.edu	37	chr2	113405026	113405026	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aggagggtgtcaagtggtctGaactgataaaaattggtatg	14	3	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:113405026G>C	uc002tib.2	+	3	906	c.460G>C	c.(460-462)GAA>CAA	p.E154Q	uc010fkq.1_5'Flank	NM_005415	NP_005406	Q8WUM9	S20A1_HUMAN	solute carrier family 20 (phosphate	154	Extracellular (Potential).				phosphate metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to plasma membrane	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity			ovary(2)	2						CAAGTGGTCTGAACTGATAAA	0.418													47	121	---	---	---	---	PASS	C	113405026	C	C	113405026	3	2	9	1	0	0	0	0	1	0	0	0	14438	1291	45	2	466	2	SLC20A1	2	113405026	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	39362207	113405026	129794347	27	5851										
LRP1B	53353	broad.mit.edu	37	chr2	141457889	141457889	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tttccaaagtgtgcatcactGtaaaagattcggttggtacc	9	8	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:141457889G>T	uc002tvj.1	-	41	7701	c.6729C>A	c.(6727-6729)TAC>TAA	p.Y2243*		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2243	Extracellular (Potential).|LDL-receptor class B 23.				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)		GTGCATCACTGTAAAAGATTC	0.343										TSP Lung(27;0.18)			20	63	---	---	---	---	PASS	T	141457889	T	T	141457889	4	4	9	1	0	0	0	0	0	1	0	0	8955	1372	48	3	7274	3	LRP1B	2	141457889	Nonsense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	28052863	141457889	101741484	28	5852										
SCN2A	6326	broad.mit.edu	37	chr2	166165204	166165204	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttacaggaatttatacttttGaatcacttattaaaatactt	3	5	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:166165204G>C	uc002udc.2	+	5	795	c.505G>C	c.(505-507)GAA>CAA	p.E169Q	SCN2A_uc002udd.2_Missense_Mutation_p.E169Q|SCN2A_uc002ude.2_Missense_Mutation_p.E169Q	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	169	I.|Helical; Name=S2 of repeat I; (Potential).				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	TTATACTTTTGAATCACTTAT	0.318													26	38	---	---	---	---	PASS	C	166165204	C	C	166165204	3	2	9	1	0	0	0	0	1	0	0	0	13916	1291	45	2	519	2	SCN2A	2	166165204	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	24707315	166165204	77034169	29	5853										
NFE2L2	4780	broad.mit.edu	37	chr2	178098953	178098953	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	caaatacttctcgacttactCcaagatctatatcttgcctc	3	13	3	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:178098953C>G	uc002ulh.3	-	2	647	c.92G>C	c.(91-93)GGA>GCA	p.G31A	NFE2L2_uc002ulg.3_Missense_Mutation_p.G15A|NFE2L2_uc010zfa.1_Missense_Mutation_p.G15A|NFE2L2_uc002uli.3_Missense_Mutation_p.G15A|NFE2L2_uc010fra.2_Missense_Mutation_p.G15A|NFE2L2_uc010frb.2_Missense_Mutation_p.G15A	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	31					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	p.G31R(1)		central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			TCGACTTACTCCAAGATCTAT	0.363			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			8	44	---	---	---	---	PASS	G	178098953	G	G	178098953	3	3	9	1	0	0	0	0	1	0	0	0	10368	855	30	2	1741	2	NFE2L2	2	178098953	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	11933749	178098953	65100420	30	5854										
TTN	7273	broad.mit.edu	37	chr2	179434029	179434029	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gagtctttggtgatttctgtGactttcaggttaacaggtgg	13	5	3	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:179434029G>T	uc010zfg.1	-	275	69350	c.69126C>A	c.(69124-69126)GTC>GTA	p.V23042V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.V16737V|TTN_uc010zfi.1_Silent_p.V16670V|TTN_uc010zfj.1_Silent_p.V16545V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23969							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)			TGATTTCTGTGACTTTCAGGT	0.403													50	187	---	---	---	---	PASS	T	179434029	T	T	179434029	2	4	9	1	0	0	0	0	0	0	0	1	16732	1277	45	2		2	TTN	2	179434029	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	1335076	179434029	63765344	31	5855										
TTN	7273	broad.mit.edu	37	chr2	179606435	179606435	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gtttggggatgccaatgacaGttacagacagtgtagccaca	12	8	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:179606435G>A	uc010zfh.1	-	46	11236	c.11012C>T	c.(11011-11013)ACT>ATT	p.T3671I	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.T3604I|TTN_uc010zfj.1_Missense_Mutation_p.T3479I|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	3643							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)			GCCAATGACAGTTACAGACAG	0.403													8	42	---	---	---	---	PASS	A	179606435	A	A	179606435	3	1	9	1	0	0	0	0	1	0	0	0	16732	1029	36	3	93264	3	TTN	2	179606435	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	172406	179606435	63592938	32	5856										
DNAH7	56171	broad.mit.edu	37	chr2	196759756	196759756	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	acgatatgcactagtttttcCtccaaatggttctccaacaa	5	11	1	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:196759756C>T	uc002utj.3	-	30	4941	c.4840G>A	c.(4840-4842)GGA>AGA	p.G1614R		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1614	ATP (Potential).|AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CTAGTTTTTCCTCCAAATGGT	0.318													3	27	---	---	---	---	PASS	T	196759756	T	T	196759756	3	4	9	1	0	0	0	0	1	0	0	0	4606	690	24	3	7378	3	DNAH7	2	196759756	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	17153321	196759756	46439617	33	5857										
STK17B	9262	broad.mit.edu	37	chr2	197004392	197004392	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	taaagtctgtggccagctgtGaaactgatgaaaaagtttct	10	6	2	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:197004392G>A	uc002utk.2	-	7	1112	c.788C>T	c.(787-789)TCA>TTA	p.S263L	STK17B_uc010fsh.2_Missense_Mutation_p.S263L	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	263	Protein kinase.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			GGCCAGCTGTGAAACTGATGA	0.294													13	45	---	---	---	---	PASS	A	197004392	A	A	197004392	3	1	9	1	0	0	0	0	1	0	0	0	15290	1294	45	2	338	2	STK17B	2	197004392	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	244636	197004392	46194981	34	5858										
CPS1	1373	broad.mit.edu	37	chr2	211521310	211521310	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgtccactcgggagatgccaCtctgatgctgcccacacaaa	9	14	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr2:211521310C>A	uc002vee.3	+	30	3752	c.3620C>A	c.(3619-3621)ACT>AAT	p.T1207N	CPS1_uc010fur.2_Missense_Mutation_p.T1213N|CPS1_uc010fus.2_Missense_Mutation_p.T756N	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1207	ATP-grasp 2.				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)		GGAGATGCCACTCTGATGCTG	0.403													15	42	---	---	---	---	PASS	A	211521310	A	A	211521310	3	1	9	1	0	0	0	0	1	0	0	0	3823	565	20	3	3760	3	CPS1	2	211521310	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	14516918	211521310	31678063	35	5859										
SEC13	6396	broad.mit.edu	37	chr3	10347307	10347307	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cttgatgtaattgggtttctGccccgatgggtggtctatga	13	7	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:10347307G>A	uc003bvn.2	-	6	639	c.520C>T	c.(520-522)CAG>TAG	p.Q174*	SEC13_uc003bvl.2_Nonsense_Mutation_p.Q106*|SEC13_uc003bvm.2_Nonsense_Mutation_p.Q160*|SEC13_uc003bvp.2_Nonsense_Mutation_p.Q177*|SEC13_uc003bvo.2_Nonsense_Mutation_p.Q220*|SEC13_uc003bvq.1_Nonsense_Mutation_p.Q160*|SEC13_uc003bvr.1_Nonsense_Mutation_p.Q160*	NM_183352	NP_899195	P55735	SEC13_HUMAN	SEC13 protein isoform 1	174	WD 4.				COPII vesicle coating|intracellular protein transport|mitotic prometaphase|mRNA transport|post-translational protein modification|protein N-linked glycosylation via asparagine|transmembrane transport	cytosol|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Nup107-160 complex	protein binding			ovary(1)	1						TTGGGTTTCTGCCCCGATGGG	0.532													29	77	---	---	---	---	PASS	A	10347307	A	A	10347307	4	1	9	1	0	0	0	0	0	1	0	0	13980	1328	46	3	464	3	SEC13	3	10347307	Nonsense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08		10347307	187675123	36	5860										
FGD5	152273	broad.mit.edu	37	chr3	14862234	14862234	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttataccctcggtcgttctcCgtggaaggccgagagattcc	11	12	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:14862234C>T	uc003bzc.2	+	1	1766	c.1656C>T	c.(1654-1656)TCC>TCT	p.S552S	FGD5_uc011avk.1_Silent_p.S552S	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	552					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						GGTCGTTCTCCGTGGAAGGCC	0.552													12	21	---	---	---	---	PASS	T	14862234	T	T	14862234	2	4	9	1	0	0	0	0	0	0	0	1	5836	639	23	1		1	FGD5	3	14862234	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	4514927	14862234	183160196	37	5861										
NGLY1	55768	broad.mit.edu	37	chr3	25777608	25777608	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	acagtgcagccaccgctgctGagaaggagaatagacttctg	12	10	1	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:25777608G>T	uc003cdl.2	-	7	1144	c.1036C>A	c.(1036-1038)CAG>AAG	p.Q346K	NGLY1_uc010hfg.2_Intron|NGLY1_uc003cdm.2_Missense_Mutation_p.Q346K|NGLY1_uc011awo.1_Missense_Mutation_p.Q304K|NGLY1_uc003cdk.2_RNA	NM_018297	NP_060767	Q96IV0	NGLY1_HUMAN	N-glycanase 1 isoform 1	346					glycoprotein catabolic process	cytoplasm	metal ion binding|peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase activity|protein binding			breast(1)	1						CACCGCTGCTGAGAAGGAGAA	0.413													7	21	---	---	---	---	PASS	T	25777608	T	T	25777608	3	4	9	1	0	0	0	0	1	0	0	0	10398	1299	45	2	952	2	NGLY1	3	25777608	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	10915374	25777608	172244822	38	5862										
OSBPL10	114884	broad.mit.edu	37	chr3	31871555	31871555	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tctgacttcgtgaagctggcCggaatactgactcttggctc	11	11	2	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:31871555C>T	uc003cev.2	-	5	1087	c.706G>A	c.(706-708)GGC>AGC	p.G236S	OSBPL10_uc003ceu.1_5'UTR|OSBPL10_uc011axf.1_Intron	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	236					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		TGAAGCTGGCCGGAATACTGA	0.597													7	20	---	---	---	---	PASS	T	31871555	T	T	31871555	3	4	9	1	0	0	0	0	1	0	0	0	11275	652	23	1	1624	1	OSBPL10	3	31871555	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	6093947	31871555	166150875	39	5863										
XIRP1	165904	broad.mit.edu	37	chr3	39227557	39227557	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ccccaggcagccctctgggtAgtgcttgctcttccctactg	10	16	2	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:39227557A>T	uc003cjk.1	-	2	3601	c.3380T>A	c.(3379-3381)CTA>CAA	p.L1127Q	XIRP1_uc003cji.2_Intron|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	1127							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CCCTCTGGGTAGTGCTTGCTC	0.602													21	27	---	---	---	---	PASS	T	39227557	T	T	39227557	3	4	9	1	0	0	0	0	1	0	0	0	17426	420	15	5	2155	5	XIRP1	3	39227557	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	7356002	39227557	158794873	40	5864										
TRAK1	22906	broad.mit.edu	37	chr3	42133051	42133051	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctcattcggacaaacgcctgTggtaagtttgtttgccaggt	11	9	1	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:42133051T>A	uc003cky.2	+	1	306	c.90T>A	c.(88-90)TGT>TGA	p.C30*	TRAK1_uc011azh.1_Nonsense_Mutation_p.C30*|TRAK1_uc011azi.1_Nonsense_Mutation_p.C30*	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	30					endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						CAAACGCCTGTGGTAAGTTTG	0.527													5	5	---	---	---	---	PASS	A	42133051	A	A	42133051	4	1	9	1	0	0	0	0	0	1	0	0	16446	1710	59	5	92	5	TRAK1	3	42133051	Nonsense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	2905494	42133051	155889379	41	5865										
PDE12	201626	broad.mit.edu	37	chr3	57545540	57545540	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgaaaagtgcttgtggtgaaCctgcttacacaaattatgtt	9	6	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:57545540C>A	uc003diw.3	+	3	1765	c.1639C>A	c.(1639-1641)CCT>ACT	p.P547T	PDE12_uc003div.2_3'UTR	NM_177966	NP_808881	Q6L8Q7	PDE12_HUMAN	phosphodiesterase 12	547							hydrolase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.011)|Kidney(284;0.0127)		TTGTGGTGAACCTGCTTACAC	0.403													46	45	---	---	---	---	PASS	A	57545540	A	A	57545540	3	1	9	1	0	0	0	0	1	0	0	0	11632	507	18	3	1649	3	PDE12	3	57545540	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	15412489	57545540	140476890	42	5866										
STXBP5L	9515	broad.mit.edu	37	chr3	121100357	121100357	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gatgaacaaaggtttacagaGccagtcatggtattgccaag	11	7	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:121100357G>T	uc003eec.3	+	23	2777	c.2637G>T	c.(2635-2637)GAG>GAT	p.E879D	STXBP5L_uc011bji.1_Missense_Mutation_p.E855D	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	879	WD 11.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		GGTTTACAGAGCCAGTCATGG	0.358													51	40	---	---	---	---	PASS	T	121100357	T	T	121100357	3	4	9	1	0	0	0	0	1	0	0	0	15356	962	34	3	2723	3	STXBP5L	3	121100357	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	63554817	121100357	76922073	43	5867										
COPG	22820	broad.mit.edu	37	chr3	128996139	128996139	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttctctcttcccttctaggtGtgttccggggtggtcatgac	11	11	4	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:128996139G>A	uc003els.2	+	24	2597	c.2497G>A	c.(2497-2499)GTG>ATG	p.V833M	COPG_uc010htb.2_Missense_Mutation_p.V739M|C3orf37_uc003elt.2_5'Flank|C3orf37_uc003elu.2_5'Flank|C3orf37_uc003elv.2_5'Flank|C3orf37_uc003elw.2_5'Flank	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	833	Interaction with ZNF289/ARFGAP2.				COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						CCTTCTAGGTGTGTTCCGGGG	0.502													5	102	---	---	---	---	PASS	A	128996139	A	A	128996139	3	1	9	1	0	0	0	0	1	0	0	0	3731	1377	48	3	2591	3	COPG	3	128996139	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	7895782	128996139	69026291	44	5868										
GPR87	53836	broad.mit.edu	37	chr3	151012086	151012086	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cttgaaaatgacctacacatGaaaaagtaaattattggatc	6	6	0	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:151012086G>T	uc003eyt.2	-	3	1309	c.948C>A	c.(946-948)TTC>TTA	p.F316L	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_023915	NP_076404	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	316	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ACCTACACATGAAAAAGTAAA	0.348													58	80	---	---	---	---	PASS	T	151012086	T	T	151012086	3	4	9	1	0	0	0	0	1	0	0	0	6716	1281	45	2	132	2	GPR87	3	151012086	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	22015947	151012086	47010344	45	5869										
NMD3	51068	broad.mit.edu	37	chr3	160965101	160965101	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	atgtcaacaaaatgaactcaGatagagttccagatgtggta	9	6	2	4			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:160965101G>A	uc003feb.1	+	13	1305	c.1186G>A	c.(1186-1188)GAT>AAT	p.D396N	NMD3_uc003fec.2_Missense_Mutation_p.D396N|NMD3_uc003fed.1_Missense_Mutation_p.D396N|NMD3_uc010hwh.2_Missense_Mutation_p.D216N	NM_015938	NP_057022	Q96D46	NMD3_HUMAN	NMD3 homolog	396					protein transport	cytoplasm|nucleolus|nucleoplasm				ovary(1)	1			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			AATGAACTCAGATAGAGTTCC	0.363													4	61	---	---	---	---	PASS	A	160965101	A	A	160965101	3	1	9	1	0	0	0	0	1	0	0	0	10488	942	33	2	1232	2	NMD3	3	160965101	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	9953015	160965101	37057329	46	5870										
C3orf59	151963	broad.mit.edu	37	chr3	192516538	192516538	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aaataattggggcacatcttGttgaccagacagtgttgcag	11	7	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:192516538G>T	uc011bsp.1	-	2	1434	c.1113C>A	c.(1111-1113)AAC>AAA	p.N371K		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	371											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		GGCACATCTTGTTGACCAGAC	0.532													7	52	---	---	---	---	PASS	T	192516538	T	T	192516538	3	4	9	1	0	0	0	0	1	0	0	0	2237	1368	48	3	366	3	C3orf59	3	192516538	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	31551437	192516538	5505892	47	5871										
ACAP2	23527	broad.mit.edu	37	chr3	195027347	195027347	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgcctggagcatgcaacttcTaaaaggaaataacatattgt	8	7	1	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr3:195027347T>A	uc003fun.3	-	13	1252	c.1011_splice	c.e13-1	p.K337_splice		NM_012287	NP_036419	Q15057	ACAP2_HUMAN	centaurin, beta 2						regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)	2						ATGCAACTTCTAAAAGGAAAT	0.373													79	90	---	---	---	---	PASS	A	195027347	A	A	195027347	5	1	9	1	0	0	0	0	0	0	1	0	119	1536	53	5	1371	5	ACAP2	3	195027347	Splice_Site	SNP	T	TCGA-18-3415-01A-01D-0983-08	2510809	195027347	2995083	48	5872										
ABLIM2	84448	broad.mit.edu	37	chr4	8046942	8046942	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctggaagcagggacagaaatGatgctctctgaggaagttct	13	7	2	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr4:8046942G>T	uc003gko.2	-	9	992	c.849C>A	c.(847-849)ATC>ATA	p.I283I	ABLIM2_uc003gkl.2_Silent_p.I33I|ABLIM2_uc003gkj.3_Silent_p.I283I|ABLIM2_uc003gkm.3_Silent_p.I283I|ABLIM2_uc003gkp.2_Silent_p.I283I|ABLIM2_uc003gkq.2_Silent_p.I283I|ABLIM2_uc003gkr.2_Silent_p.I283I|ABLIM2_uc003gks.3_Silent_p.I283I|ABLIM2_uc011bwl.1_Silent_p.I288I	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	283					axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3						GGACAGAAATGATGCTCTCTG	0.537													16	49	---	---	---	---	PASS	T	8046942	T	T	8046942	2	4	9	1	0	0	0	0	0	0	0	1	95	1280	45	2		2	ABLIM2	4	8046942	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08		8046942	183107334	49	5873										
RELL1	768211	broad.mit.edu	37	chr4	37633048	37633048	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttctctcttcacaggtgttgCcggcacctccccattgacgg	9	15	3	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr4:37633048C>G	uc003gsz.2	-	6	868	c.778G>C	c.(778-780)GCA>CCA	p.A260P	RELL1_uc010ifc.2_Missense_Mutation_p.A260P	NM_001085399	NP_001078868	Q8IUW5	RELL1_HUMAN	receptor expressed in lymphoid tissues like 1	260	Cytoplasmic (Potential).					cytoplasm|integral to membrane|microtubule cytoskeleton|plasma membrane					0						ACAGGTGTTGCCGGCACCTCC	0.532													22	58	---	---	---	---	PASS	G	37633048	G	G	37633048	3	3	9	1	0	0	0	0	1	0	0	0	13218	739	26	4	41	4	RELL1	4	37633048	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	29586106	37633048	153521228	50	5874										
REST	5978	broad.mit.edu	37	chr4	57797830	57797830	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cagagggtgaaactttaaatGgtaaacatcagactgacagt	10	6	1	4			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr4:57797830G>T	uc003hch.2	+	4	3153	c.2806G>T	c.(2806-2808)GGT>TGT	p.G936C	REST_uc003hci.2_Missense_Mutation_p.G936C|REST_uc010ihf.2_Missense_Mutation_p.G610C	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	936					cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					AACTTTAAATGGTAAACATCA	0.388													4	37	---	---	---	---	PASS	T	57797830	T	T	57797830	3	4	9	1	0	0	0	0	1	0	0	0	13234	1348	47	3	2816	3	REST	4	57797830	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	20164782	57797830	133356446	51	5875										
ANKRD56	345079	broad.mit.edu	37	chr4	77816829	77816829	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aaatgggcttgccccgaggaGctcccaacagctgccatatt	10	13	0	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr4:77816829G>T	uc003hki.2	-	1	2174	c.2174C>A	c.(2173-2175)GCT>GAT	p.A725D		NM_001029870	NP_001025041	A6NEL2	ANR56_HUMAN	ankyrin repeat domain 56	725											0						GCCCCGAGGAGCTCCCAACAG	0.507													42	142	---	---	---	---	PASS	T	77816829	T	T	77816829	3	4	9	1	0	0	0	0	1	0	0	0	682	971	34	3	211	3	ANKRD56	4	77816829	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	20018999	77816829	113337447	52	5876										
NEUROG2	63973	broad.mit.edu	37	chr4	113436154	113436154	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctcggtgagtgcccagatgtAgttgtgggcgaagcgcaggg	18	8	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr4:113436154A>G	uc003ias.2	-	2	805	c.478T>C	c.(478-480)TAC>CAC	p.Y160H		NM_024019	NP_076924	Q9H2A3	NGN2_HUMAN	neurogenin 2	160	Helix-loop-helix motif.				positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent	nucleus	E-box binding			skin(2)|central_nervous_system(1)	3		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.00168)		GCCCAGATGTAGTTGTGGGCG	0.537													11	22	---	---	---	---	PASS	G	113436154	G	G	113436154	3	3	9	1	0	0	0	0	1	0	0	0	10353	420	15	5	344	5	NEUROG2	4	113436154	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	35619325	113436154	77718122	53	5877										
NDST4	64579	broad.mit.edu	37	chr4	115773882	115773882	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cacaattggctatttttaccTgttttttgtggaccaattac	6	8	0	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr4:115773882T>C	uc003ibu.2	-	8	2494	c.1815A>G	c.(1813-1815)ACA>ACG	p.T605T	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	605	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 4.|PAPS (By similarity).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TATTTTTACCTGTTTTTTGTG	0.303													5	8	---	---	---	---	PASS	C	115773882	C	C	115773882	2	2	9	1	0	0	0	0	0	0	0	1	10258	1594	55	5		5	NDST4	4	115773882	Silent	SNP	T	TCGA-18-3415-01A-01D-0983-08	2337728	115773882	75380394	54	5878										
NDST4	64579	broad.mit.edu	37	chr4	115997337	115997337	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgacaagaaggagatggcatCtatgaagatgagcttgtgca	13	5	1	6			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr4:115997337C>G	uc003ibu.2	-	2	1535	c.856G>C	c.(856-858)GAT>CAT	p.D286H	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	286	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		GAGATGGCATCTATGAAGATG	0.443													47	49	---	---	---	---	PASS	G	115997337	G	G	115997337	3	3	9	1	0	0	0	0	1	0	0	0	10258	913	32	2	1814	2	NDST4	4	115997337	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	223455	115997337	75156939	55	5879										
PLRG1	5356	broad.mit.edu	37	chr4	155458514	155458514	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	atcgactttcagactgatcaAaagcacaagcaaatattcct	5	10	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr4:155458514A>G	uc003iny.2	-	14	1472	c.1409T>C	c.(1408-1410)TTT>TCT	p.F470S	PLRG1_uc003inz.2_Missense_Mutation_p.F461S	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	470	WD 7.					catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				AGACTGATCAAAAGCACAAGC	0.423													10	34	---	---	---	---	PASS	G	155458514	G	G	155458514	3	3	9	1	0	0	0	0	1	0	0	0	12106	14	1	5	143	5	PLRG1	4	155458514	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	39461177	155458514	35695762	56	5880										
TMEM144	55314	broad.mit.edu	37	chr4	159140530	159140530	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aaattacattggagctgggcTatcagtagtaaggtacacag	11	6	1	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr4:159140530T>A	uc003ipx.2	+	6	921	c.401T>A	c.(400-402)CTA>CAA	p.L134Q	TMEM144_uc010iqi.2_RNA	NM_018342	NP_060812	Q7Z5S9	TM144_HUMAN	transmembrane protein 144	134	Helical; (Potential).					integral to membrane					0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0539)		GGAGCTGGGCTATCAGTAGTA	0.363													20	35	---	---	---	---	PASS	A	159140530	A	A	159140530	3	1	9	1	0	0	0	0	1	0	0	0	16055	1522	53	5	415	5	TMEM144	4	159140530	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	3682016	159140530	32013746	57	5881										
ADAMTS16	170690	broad.mit.edu	37	chr5	5182171	5182171	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttccagtcaggcatgatacgAacagaagaggcagattactt	10	8	1	4			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:5182171A>T	uc003jdl.2	+	4	654	c.516A>T	c.(514-516)CGA>CGT	p.R172R	ADAMTS16_uc003jdk.1_Silent_p.R172R|ADAMTS16_uc003jdj.1_Silent_p.R172R	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	172					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GCATGATACGAACAGAAGAGG	0.463													14	120	---	---	---	---	PASS	T	5182171	T	T	5182171	2	4	9	1	0	0	0	0	0	0	0	1	261	233	9	5		5	ADAMTS16	5	5182171	Silent	SNP	A	TCGA-18-3415-01A-01D-0983-08		5182171	175733089	58	5882										
RNASEN	29102	broad.mit.edu	37	chr5	31526873	31526873	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aagtggtggaaggggcacttGgaggttcatattgatattgc	15	4	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:31526873G>T	uc003jhg.2	-	4	526	c.167C>A	c.(166-168)CCA>CAA	p.P56Q	RNASEN_uc003jhh.2_Missense_Mutation_p.P56Q|RNASEN_uc003jhi.2_Missense_Mutation_p.P56Q|RNASEN_uc010iui.1_Missense_Mutation_p.P47Q	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	56	Pro-rich.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						AGGGGCACTTGGAGGTTCATA	0.562													3	14	---	---	---	---	PASS	T	31526873	T	T	31526873	3	4	9	1	0	0	0	0	1	0	0	0	13417	1348	47	3	4085	3	RNASEN	5	31526873	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	26344702	31526873	149388387	59	5883										
ADAMTS12	81792	broad.mit.edu	37	chr5	33534964	33534964	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttttcttgcaggcctgctggTtgcattttttgaattctgga	10	7	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:33534964T>A	uc003jia.1	-	23	4743	c.4580A>T	c.(4579-4581)AAC>ATC	p.N1527I	ADAMTS12_uc010iuq.1_Missense_Mutation_p.N1442I	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1527	TSP type-1 8.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GGCCTGCTGGTTGCATTTTTT	0.463										HNSCC(64;0.19)			13	90	---	---	---	---	PASS	A	33534964	A	A	33534964	3	1	9	1	0	0	0	0	1	0	0	0	257	1725	60	5	212	5	ADAMTS12	5	33534964	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	2008091	33534964	147380296	60	5884										
LMBRD2	92255	broad.mit.edu	37	chr5	36143415	36143415	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aaataatgccagaaaaaagaCaaaaacaatctcaagtccca	4	9	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:36143415C>A	uc003jkb.1	-	2	452	c.37G>T	c.(37-39)GTC>TTC	p.V13F		NM_001007527	NP_001007528	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	13	Helical; (Potential).					integral to membrane					0	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AGAAAAAAGACAAAAACAATC	0.363													12	64	---	---	---	---	PASS	A	36143415	A	A	36143415	3	1	9	1	0	0	0	0	1	0	0	0	8843	478	17	3	2118	3	LMBRD2	5	36143415	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	2608451	36143415	144771845	61	5885										
CARD6	84674	broad.mit.edu	37	chr5	40852859	40852859	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agaatcctcaacacacttctCagccctgcccagttgaaatt	5	14	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:40852859C>T	uc003jmg.2	+	3	1500	c.1425C>T	c.(1423-1425)CTC>CTT	p.L475L		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	475					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						ACACACTTCTCAGCCCTGCCC	0.428													11	45	---	---	---	---	PASS	T	40852859	T	T	40852859	2	4	9	1	0	0	0	0	0	0	0	1	2650	813	29	2		2	CARD6	5	40852859	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	4709444	40852859	140062401	62	5886										
PLCXD3	345557	broad.mit.edu	37	chr5	41382440	41382440	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tcggggtctctgggcttggtGgaaattcgaagatcaaaata	13	6	2	1	rs146343766		TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:41382440G>T	uc003jmm.1	-	2	402	c.300C>A	c.(298-300)TCC>TCA	p.S100S		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	100	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity	p.S100S(1)		skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						TGGGCTTGGTGGAAATTCGAA	0.453													7	53	---	---	---	---	PASS	T	41382440	T	T	41382440	2	4	9	1	0	0	0	0	0	0	0	1	12043	1335	47	3		3	PLCXD3	5	41382440	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	529581	41382440	139532820	63	5887										
NNT	23530	broad.mit.edu	37	chr5	43650653	43650653	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	caacttctcagggccttgctGctcttgctgcattcatatcc	7	14	3	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:43650653G>T	uc003joe.2	+	12	1936	c.1681G>T	c.(1681-1683)GCT>TCT	p.A561S	NNT_uc003jof.2_Missense_Mutation_p.A561S	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	561	Helical; (Potential).				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	GGGCCTTGCTGCTCTTGCTGC	0.428													8	42	---	---	---	---	PASS	T	43650653	T	T	43650653	3	4	9	1	0	0	0	0	1	0	0	0	10510	1319	46	3	1723	3	NNT	5	43650653	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	2268213	43650653	137264607	64	5888										
DMXL1	1657	broad.mit.edu	37	chr5	118529647	118529647	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tttccatctccaggaacattCtaattcaaattcatataggt	4	9	4	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:118529647C>G	uc003ksd.2	+	30	7620	c.7439C>G	c.(7438-7440)TCT>TGT	p.S2480C	DMXL1_uc010jcl.1_Missense_Mutation_p.S2480C	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2480										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		CAGGAACATTCTAATTCAAAT	0.194													6	17	---	---	---	---	PASS	G	118529647	G	G	118529647	3	3	9	1	0	0	0	0	1	0	0	0	4594	913	32	2	7557	2	DMXL1	5	118529647	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	74878994	118529647	62385613	65	5889										
PHAX	51808	broad.mit.edu	37	chr5	125960471	125960471	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agtcacaggaaggacatgcaGaagccaagttggaggcagag	15	7	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:125960471G>A	uc003kua.1	+	5	1142	c.1120G>A	c.(1120-1122)GAA>AAA	p.E374K		NM_032177	NP_115553	Q9H814	PHAX_HUMAN	RNA U, small nuclear RNA export adaptor	374					ncRNA metabolic process|protein transport|snRNA export from nucleus|spliceosomal snRNP assembly	Cajal body|cytosol	RNA binding				0						AGGACATGCAGAAGCCAAGTT	0.408													11	63	---	---	---	---	PASS	A	125960471	A	A	125960471	3	1	9	1	0	0	0	0	1	0	0	0	11813	943	33	2	1138	2	PHAX	5	125960471	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	7430824	125960471	54954789	66	5890										
CDC23	8697	broad.mit.edu	37	chr5	137527989	137527989	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ggcccgtctataataataaaGgcagtaaaatggcatcttaa	8	7	2	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:137527989G>T	uc003lcl.2	-	11	1286	c.1255C>A	c.(1255-1257)CTT>ATT	p.L419I		NM_004661	NP_004652	Q9UJX2	CDC23_HUMAN	cell division cycle protein 23	419	TPR 7.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1 phase of mitotic cell cycle|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase plate congression|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of exit from mitosis	anaphase-promoting complex|cytosol|nucleoplasm	binding|ubiquitin-protein ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TAATAATAAAGGCAGTAAAAT	0.438													4	45	---	---	---	---	PASS	T	137527989	T	T	137527989	3	4	9	1	0	0	0	0	1	0	0	0	3061	1000	35	3	562	3	CDC23	5	137527989	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	11567518	137527989	43387271	67	5891										
SH3RF2	153769	broad.mit.edu	37	chr5	145393529	145393529	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cttcagggcgccatatggtaGagatcagcaccccagtgctc	11	13	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:145393529G>A	uc003lnt.2	+	5	1202	c.964G>A	c.(964-966)GAG>AAG	p.E322K	SH3RF2_uc011dbl.1_Missense_Mutation_p.E322K	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	322							ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCATATGGTAGAGATCAGCAC	0.572													21	88	---	---	---	---	PASS	A	145393529	A	A	145393529	3	1	9	1	0	0	0	0	1	0	0	0	14259	943	33	2	978	2	SH3RF2	5	145393529	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	7865540	145393529	35521731	68	5892										
CLK4	57396	broad.mit.edu	37	chr5	178043908	178043908	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	atgatcaatgcactctacaaCtttgccaaaggctccttcac	5	13	3	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:178043908C>G	uc003mjf.1	-	5	625	c.517G>C	c.(517-519)GTT>CTT	p.V173L	CLK4_uc003mjg.1_Missense_Mutation_p.V137L|CLK4_uc010jku.1_5'UTR|CLK4_uc003mjh.1_5'UTR|CLK4_uc010jkv.1_RNA|CLK4_uc011dgg.1_Missense_Mutation_p.V173L|CLK4_uc011dgh.1_5'UTR	NM_020666	NP_065717	Q9HAZ1	CLK4_HUMAN	CDC-like kinase 4	173	ATP (By similarity).|Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(1)	1	all_cancers(89;0.000969)|Renal(175;0.000159)|all_epithelial(37;0.000451)|Lung NSC(126;0.00545)|all_lung(126;0.00918)	all_cancers(40;0.0272)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.235)		CACTCTACAACTTTGCCAAAG	0.378													12	21	---	---	---	---	PASS	G	178043908	G	G	178043908	3	3	9	1	0	0	0	0	1	0	0	0	3539	565	20	4	964	4	CLK4	5	178043908	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	32650379	178043908	2871352	69	5893										
CLK4	57396	broad.mit.edu	37	chr5	178043926	178043926	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aactttgccaaaggctccttCacccaaagtgtccacgattt	6	13	1	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr5:178043926C>T	uc003mjf.1	-	5	607	c.499G>A	c.(499-501)GAA>AAA	p.E167K	CLK4_uc003mjg.1_Missense_Mutation_p.E131K|CLK4_uc010jku.1_5'UTR|CLK4_uc003mjh.1_5'UTR|CLK4_uc010jkv.1_RNA|CLK4_uc011dgg.1_Missense_Mutation_p.E167K|CLK4_uc011dgh.1_5'UTR	NM_020666	NP_065717	Q9HAZ1	CLK4_HUMAN	CDC-like kinase 4	167	ATP (By similarity).|Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(1)	1	all_cancers(89;0.000969)|Renal(175;0.000159)|all_epithelial(37;0.000451)|Lung NSC(126;0.00545)|all_lung(126;0.00918)	all_cancers(40;0.0272)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.235)		AAGGCTCCTTCACCCAAAGTG	0.388													12	23	---	---	---	---	PASS	T	178043926	T	T	178043926	3	4	9	1	0	0	0	0	1	0	0	0	3539	835	29	2	982	2	CLK4	5	178043926	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	18	178043926	2871334	70	5894										
HIST1H3B	8358	broad.mit.edu	37	chr6	26032069	26032069	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cttgaagtcttgggcgatttCtcgcaccaggcgctggaacg	13	11	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr6:26032069C>T	uc003nfs.1	-	1	220	c.220G>A	c.(220-222)GAA>AAA	p.E74K		NM_003537	NP_003528	P68431	H31_HUMAN	histone cluster 1, H3b	74					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						TGGGCGATTTCTCGCACCAGG	0.607													24	61	---	---	---	---	PASS	T	26032069	T	T	26032069	3	4	9	1	0	0	0	0	1	0	0	0	7156	922	32	2	194	2	HIST1H3B	6	26032069	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08		26032069	145082998	71	5895										
BTN3A3	10384	broad.mit.edu	37	chr6	26452620	26452620	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gaaccataagctacaggcacGcactgaagcactttactgat	8	11	0	2	rs144256388		TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr6:26452620G>A	uc003nhz.2	+	11	1916	c.1736G>A	c.(1735-1737)CGC>CAC	p.R579H	BTN3A3_uc003nia.2_Missense_Mutation_p.R537H|BTN3A3_uc011dkn.1_Missense_Mutation_p.R530H	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	579	Cytoplasmic (Potential).					integral to membrane					0						CTACAGGcacgcactgaagca	0.264													4	19	---	---	---	---	PASS	A	26452620	A	A	26452620	3	1	9	1	0	0	0	0	1	0	0	0	1564	1087	38	1	1770	1	BTN3A3	6	26452620	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	420551	26452620	144662447	72	5896										
RNF8	9025	broad.mit.edu	37	chr6	37328291	37328291	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tctgccccctgatgatttctCgaaaccactgtgttttgaag	8	11	2	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr6:37328291C>A	uc003onq.3	+	2	374	c.181C>A	c.(181-183)CGA>AGA	p.R61R	RNF8_uc003onr.3_Silent_p.R61R|RNF8_uc011dtx.1_5'UTR	NM_003958	NP_003949	O76064	RNF8_HUMAN	ring finger protein 8 isoform 1	61	FHA.				cell division|double-strand break repair|histone H2A ubiquitination|histone H2B ubiquitination|mitosis|positive regulation of DNA repair|response to ionizing radiation	midbody|nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1						GATGATTTCTCGAAACCACTG	0.413													4	69	---	---	---	---	PASS	A	37328291	A	A	37328291	2	1	9	1	0	0	0	0	0	0	0	1	13500	876	31	2		2	RNF8	6	37328291	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	10875671	37328291	133786776	73	5897										
KIAA0240	23506	broad.mit.edu	37	chr6	42823596	42823596	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ggtttgttttgtctttaggtGgagagtcattcgggaggaca	15	4	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr6:42823596G>T	uc003osn.1	+	9	2200	c.2049G>T	c.(2047-2049)GTG>GTT	p.V683V	KIAA0240_uc011duw.1_Silent_p.V683V|KIAA0240_uc003osp.1_Silent_p.V683V	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	683										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			GTCTTTAGGTGGAGAGTCATT	0.358													5	190	---	---	---	---	PASS	T	42823596	T	T	42823596	2	4	9	1	0	0	0	0	0	0	0	1	8164	1335	47	3		3	KIAA0240	6	42823596	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	5495305	42823596	128291471	74	5898										
PHF3	23469	broad.mit.edu	37	chr6	64395298	64395298	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttgataaggagccaaagattCagagttgcaattctggggtt	12	5	2	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr6:64395298C>T	uc003pep.1	+	3	1701	c.1675C>T	c.(1675-1677)CAG>TAG	p.Q559*	PHF3_uc010kaf.1_Nonsense_Mutation_p.Q559*|PHF3_uc003pem.2_Nonsense_Mutation_p.Q512*|PHF3_uc010kag.1_Nonsense_Mutation_p.Q471*|PHF3_uc010kah.1_Nonsense_Mutation_p.Q373*|PHF3_uc003pen.2_Nonsense_Mutation_p.Q471*|PHF3_uc011dxs.1_Intron|PHF3_uc003peo.2_Nonsense_Mutation_p.Q559*	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	559					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			GCCAAAGATTCAGAGTTGCAA	0.343													8	38	---	---	---	---	PASS	T	64395298	T	T	64395298	4	4	9	1	0	0	0	0	0	1	0	0	11836	827	29	2	1685	2	PHF3	6	64395298	Nonsense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	21571702	64395298	106719769	75	5899										
MED23	9439	broad.mit.edu	37	chr6	131917168	131917168	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aagcaactctaaaaatctgtGgattactatatcaaatactg	5	7	3	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr6:131917168G>T	uc003qcs.1	-	22	3088	c.2914C>A	c.(2914-2916)CAC>AAC	p.H972N	MED23_uc003qcq.2_Missense_Mutation_p.H978N|MED23_uc003qcr.1_5'Flank|MED23_uc011eca.1_Missense_Mutation_p.H613N	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	972					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		AAAAATCTGTGGATTACTATA	0.408													5	115	---	---	---	---	PASS	T	131917168	T	T	131917168	3	4	9	1	0	0	0	0	1	0	0	0	9441	1348	47	3	1231	3	MED23	6	131917168	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	67521870	131917168	39197899	76	5900										
C7orf31	136895	broad.mit.edu	37	chr7	25176259	25176259	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tttagaactgggtacaaaggTatgaaaattacacaaaactc	7	6	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr7:25176259T>C	uc003sxn.1	-	10	1666	c.1105A>G	c.(1105-1107)ACC>GCC	p.T369A	C7orf31_uc003sxm.1_Missense_Mutation_p.T211A	NM_138811	NP_620166	Q8N865	CG031_HUMAN	hypothetical protein LOC136895	369											0						GGTACAAAGGTATGAAAATTA	0.423													38	54	---	---	---	---	PASS	C	25176259	C	C	25176259	3	2	9	1	0	0	0	0	1	0	0	0	2387	1638	57	5	671	5	C7orf31	7	25176259	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08		25176259	133962404	77	5901										
CCDC129	223075	broad.mit.edu	37	chr7	31682731	31682731	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgcaggacagttttgtgaggCctgagggagctggcaaagtg	17	6	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr7:31682731C>A	uc003tcj.1	+	11	2740	c.1747C>A	c.(1747-1749)CCT>ACT	p.P583T	CCDC129_uc011kad.1_Missense_Mutation_p.P593T|CCDC129_uc003tci.1_Missense_Mutation_p.P434T|CCDC129_uc011kae.1_Missense_Mutation_p.P609T|CCDC129_uc003tck.1_Missense_Mutation_p.P491T	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	583											0						TTTTGTGAGGCCTGAGGGAGC	0.483													30	215	---	---	---	---	PASS	A	31682731	A	A	31682731	3	1	9	1	0	0	0	0	1	0	0	0	2764	739	26	3	1785	3	CCDC129	7	31682731	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	6506472	31682731	127455932	78	5902										
ABCA13	154664	broad.mit.edu	37	chr7	48315064	48315064	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgtcccaccttcaataaatcAaactagggatagcatctctg	6	11	3	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr7:48315064A>T	uc003toq.2	+	17	5826	c.5801A>T	c.(5800-5802)CAA>CTA	p.Q1934L	ABCA13_uc010kyr.2_Missense_Mutation_p.Q1437L	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1934					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TCAATAAATCAAACTAGGGAT	0.358													26	103	---	---	---	---	PASS	T	48315064	T	T	48315064	3	4	9	1	0	0	0	0	1	0	0	0	31	130	5	5	5696	5	ABCA13	7	48315064	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	16632333	48315064	110823599	79	5903										
POM121L12	285877	broad.mit.edu	37	chr7	53104213	53104213	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agctgcagtagggtctccttCgccctcgaggtcacccagtc	11	15	2	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr7:53104213C>G	uc003tpz.2	+	1	865	c.849C>G	c.(847-849)TTC>TTG	p.F283L		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	283											0						GGGTCTCCTTCGCCCTCGAGG	0.617													10	22	---	---	---	---	PASS	G	53104213	G	G	53104213	3	3	9	1	0	0	0	0	1	0	0	0	12241	883	31	2	851	2	POM121L12	7	53104213	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	4789149	53104213	106034450	80	5904										
ADAM22	53616	broad.mit.edu	37	chr7	87800867	87800867	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gtccatgaaaagaaactatcGagaacagaggtatgtaatac	9	6	0	4			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr7:87800867G>A	uc003ujn.2	+	26	2370	c.2291G>A	c.(2290-2292)CGA>CAA	p.R764Q	ADAM22_uc003ujk.1_Missense_Mutation_p.R764Q|ADAM22_uc003ujl.1_Missense_Mutation_p.R764Q|ADAM22_uc003ujm.2_Missense_Mutation_p.R764Q|ADAM22_uc003ujo.2_Missense_Mutation_p.R764Q|ADAM22_uc003ujp.1_Missense_Mutation_p.R816Q	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	764	Cytoplasmic (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			AGAAACTATCGAGAACAGAGG	0.333													7	42	---	---	---	---	PASS	A	87800867	A	A	87800867	3	1	9	1	0	0	0	0	1	0	0	0	244	1058	37	2	2393	2	ADAM22	7	87800867	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	34696654	87800867	71337796	81	5905										
NRCAM	4897	broad.mit.edu	37	chr7	107824715	107824715	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	atcaccaaattatcaggctcTgatcccagtccttccacagc	5	15	3	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr7:107824715T>C	uc003vfb.2	-	22	2745	c.2274A>G	c.(2272-2274)TCA>TCG	p.S758S	NRCAM_uc003vfc.2_Silent_p.S742S|NRCAM_uc011kmk.1_Silent_p.S753S|NRCAM_uc003vfd.2_Silent_p.S734S|NRCAM_uc003vfe.2_Silent_p.S734S	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	758	Fibronectin type-III 2.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						TATCAGGCTCTGATCCCAGTC	0.388													4	32	---	---	---	---	PASS	C	107824715	C	C	107824715	2	2	9	1	0	0	0	0	0	0	0	1	10644	1567	55	5		5	NRCAM	7	107824715	Silent	SNP	T	TCGA-18-3415-01A-01D-0983-08	20023848	107824715	51313948	82	5906										
CFTR	1080	broad.mit.edu	37	chr7	117180378	117180378	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	acaaacatggtatgactctcTtggagcaataaacaaaatac	6	8	1	1	rs76727851		TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr7:117180378T>C	uc003vjd.2	+	8	1226	c.1094T>C	c.(1093-1095)CTT>CCT	p.L365P	CFTR_uc011knq.1_5'UTR	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	365	Cytoplasmic (Potential).|ABC transmembrane type-1 1.				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	TATGACTCTCTTGGAGCAATA	0.383									Cystic_Fibrosis				13	62	---	---	---	---	PASS	C	117180378	C	C	117180378	3	2	9	1	0	0	0	0	1	0	0	0	3294	1609	56	5	1124	5	CFTR	7	117180378	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	9355663	117180378	41958285	83	5907										
CADPS2	93664	broad.mit.edu	37	chr7	121985692	121985692	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gaagaatatcttggttttgcCgaacaaacataatataggtg	9	5	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr7:121985692C>G	uc010lkp.2	-	27	3711	c.3548G>C	c.(3547-3549)CGG>CCG	p.R1183P	CADPS2_uc011knx.1_Missense_Mutation_p.R558P|CADPS2_uc003vkg.3_Missense_Mutation_p.R837P|CADPS2_uc010lkq.2_Missense_Mutation_p.R1142P	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	1183					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						TTGGTTTTGCCGAACAAACAT	0.373													12	81	---	---	---	---	PASS	G	121985692	G	G	121985692	3	3	9	1	0	0	0	0	1	0	0	0	2571	652	23	4	354	4	CADPS2	7	121985692	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	4805314	121985692	37152971	84	5908										
SLC13A1	6561	broad.mit.edu	37	chr7	122755644	122755644	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aggtcaaacatgggtacaatCcaagtacatatgccaagcat	8	9	1	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr7:122755644C>T	uc003vkm.2	-	15	1741	c.1716G>A	c.(1714-1716)TGG>TGA	p.W572*	SLC13A1_uc010lks.2_Nonsense_Mutation_p.W448*	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	572	Helical; (Potential).					integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	TGGGTACAATCCAAGTACATA	0.433													15	56	---	---	---	---	PASS	T	122755644	T	T	122755644	4	4	9	1	0	0	0	0	0	1	0	0	14391	856	30	2	75	2	SLC13A1	7	122755644	Nonsense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	769952	122755644	36383019	85	5909										
SND1	27044	broad.mit.edu	37	chr7	127544839	127544839	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ggattgcatagcaagaaggaAgtgcctatccaccgtgttgc	12	9	0	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr7:127544839A>G	uc003vmi.2	+	14	1720	c.1494A>G	c.(1492-1494)GAA>GAG	p.E498E	SND1_uc010lle.2_Silent_p.E151E	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	498					gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						GCAAGAAGGAAGTGCCTATCC	0.458													8	65	---	---	---	---	PASS	G	127544839	G	G	127544839	2	3	9	1	0	0	0	0	0	0	0	1	14844	69	3	5		5	SND1	7	127544839	Silent	SNP	A	TCGA-18-3415-01A-01D-0983-08	4789195	127544839	31593824	86	5910										
DENND2A	27147	broad.mit.edu	37	chr7	140255464	140255464	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agaggctgaagcatcccaggCggctcacaatgcagtaaact	11	11	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr7:140255464C>A	uc010lnj.2	-	10	2154	c.2009G>T	c.(2008-2010)CGC>CTC	p.R670L	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.R670L|DENND2A_uc003vvw.2_Missense_Mutation_p.R670L|DENND2A_uc003vvx.2_Missense_Mutation_p.R670L	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	670	DENN.									ovary(3)|breast(1)	4	Melanoma(164;0.00956)					GCATCCCAGGCGGCTCACAAT	0.527													48	79	---	---	---	---	PASS	A	140255464	A	A	140255464	3	1	9	1	0	0	0	0	1	0	0	0	4429	768	27	1	1056	1	DENND2A	7	140255464	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	12710625	140255464	18883199	87	5911										
OR9A2	135924	broad.mit.edu	37	chr7	142723325	142723325	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	acagcagcgtttcatcccatCtcggagggcctctttgactt	9	13	3	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr7:142723325C>A	uc003wcc.1	-	1	895	c.895G>T	c.(895-897)GAT>TAT	p.D299Y		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					TTCATCCCATCTCGGAGGGCC	0.428													28	51	---	---	---	---	PASS	A	142723325	A	A	142723325	3	1	9	1	0	0	0	0	1	0	0	0	11248	913	32	2	41	2	OR9A2	7	142723325	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	2467861	142723325	16415338	88	5912										
CSMD1	64478	broad.mit.edu	37	chr8	3257006	3257006	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aatatcctggccatccaggaGgcaaaatgactccgctggac	10	12	0	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr8:3257006G>T	uc011kwk.1	-	16	2705	c.2315C>A	c.(2314-2316)CCT>CAT	p.P772H	CSMD1_uc011kwj.1_Missense_Mutation_p.P164H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	772	Extracellular (Potential).|CUB 5.					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)		CCATCCAGGAGGCAAAATGAC	0.403													7	39	---	---	---	---	PASS	T	3257006	T	T	3257006	3	4	9	1	0	0	0	0	1	0	0	0	3944	1000	35	3	8602	3	CSMD1	8	3257006	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08		3257006	143107016	89	5913										
MSR1	4481	broad.mit.edu	37	chr8	15978098	15978098	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gccgctcccaccgaccagtcGaactttcgtaaatggagctg	10	14	0	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr8:15978098G>T	uc003wwz.2	-	9	1249	c.1051C>A	c.(1051-1053)CGA>AGA	p.R351R	MSR1_uc010lsu.2_Silent_p.R369R|MSR1_uc003wxa.2_Intron	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	351	SRCR.|Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		CCGACCAGTCGAACTTTCGTA	0.453													16	26	---	---	---	---	PASS	T	15978098	T	T	15978098	2	4	9	1	0	0	0	0	0	0	0	1	9886	1066	37	2		2	MSR1	8	15978098	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	12721092	15978098	130385924	90	5914										
UNC5D	137970	broad.mit.edu	37	chr8	35608158	35608158	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctgccttttggacccctttgCgtgtcatgtgctcctggaca	10	13	1	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr8:35608158C>A	uc003xjr.1	+	13	2322	c.1994C>A	c.(1993-1995)GCG>GAG	p.A665E	UNC5D_uc003xjs.1_Missense_Mutation_p.A660E|UNC5D_uc003xju.1_Missense_Mutation_p.A241E	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	665	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		GACCCCTTTGCGTGTCATGTG	0.488													14	57	---	---	---	---	PASS	A	35608158	A	A	35608158	3	1	9	1	0	0	0	0	1	0	0	0	16992	768	27	1	2044	1	UNC5D	8	35608158	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	19630060	35608158	110755864	91	5915										
CHRNA6	8973	broad.mit.edu	37	chr8	42611507	42611507	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aaacacagtcagagaaagcaGgactgaaatacaaagcgtca	9	8	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr8:42611507G>T	uc003xpj.2	-	5	881	c.835C>A	c.(835-837)CTG>ATG	p.L279M	CHRNA6_uc011lcw.1_Missense_Mutation_p.L264M	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	279	Helical; (Potential).					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			AGAGAAAGCAGGACTGAAATA	0.448													5	89	---	---	---	---	PASS	T	42611507	T	T	42611507	3	4	9	1	0	0	0	0	1	0	0	0	3387	991	35	3	657	3	CHRNA6	8	42611507	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	7003349	42611507	103752515	92	5916										
PRKDC	5591	broad.mit.edu	37	chr8	48824970	48824970	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttcagattcaaagcccttacCtgatcaacatcacacgcaag	5	13	4	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr8:48824970C>A	uc003xqi.2	-	25	2991	c.2934G>T	c.(2932-2934)CAG>CAT	p.Q978H	PRKDC_uc003xqj.2_Missense_Mutation_p.Q978H|PRKDC_uc011ldh.1_Missense_Mutation_p.Q978H	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	978					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AAGCCCTTACCTGATCAACAT	0.413								NHEJ					6	166	---	---	---	---	PASS	A	48824970	A	A	48824970	3	1	9	1	0	0	0	0	1	0	0	0	12521	695	24	3	9699	3	PRKDC	8	48824970	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	6213463	48824970	97539052	93	5917										
CHD7	55636	broad.mit.edu	37	chr8	61735123	61735123	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctatccagtccattacatttCtctatgagatatatttgaaa	4	8	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr8:61735123C>T	uc003xue.2	+	12	3496	c.3019C>T	c.(3019-3021)CTC>TTC	p.L1007F	CHD7_uc003xuf.2_Missense_Mutation_p.L120F	NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1007	Helicase ATP-binding.				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)			CATTACATTTCTCTATGAGAT	0.388													30	100	---	---	---	---	PASS	T	61735123	T	T	61735123	3	4	9	1	0	0	0	0	1	0	0	0	3330	913	32	2	3061	2	CHD7	8	61735123	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	12910153	61735123	84628899	94	5918										
NCOA2	10499	broad.mit.edu	37	chr8	71078966	71078966	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gctgttccgcctcggaggttCgccagaccaagatcccccat	10	16	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr8:71078966C>A	uc003xyn.1	-	7	727	c.565G>T	c.(565-567)GAA>TAA	p.E189*		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	189					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			CTCGGAGGTTCGCCAGACCAA	0.428			T	RUNXBP2	AML								33	179	---	---	---	---	PASS	A	71078966	A	A	71078966	4	1	9	1	0	0	0	0	0	1	0	0	10229	893	31	2	3897	2	NCOA2	8	71078966	Nonsense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	9343843	71078966	75285056	95	5919										
ZFHX4	79776	broad.mit.edu	37	chr8	77763355	77763355	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	atgtctacaagtatcgctgtAaccattgtagcttggctttc	8	9	1	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr8:77763355A>G	uc003yav.2	+	10	4450	c.4063A>G	c.(4063-4065)AAC>GAC	p.N1355D	ZFHX4_uc003yau.1_Missense_Mutation_p.N1400D|ZFHX4_uc003yaw.1_Missense_Mutation_p.N1355D	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1355	C2H2-type 10.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GTATCGCTGTAACCATTGTAG	0.453										HNSCC(33;0.089)			9	41	---	---	---	---	PASS	G	77763355	G	G	77763355	3	3	9	1	0	0	0	0	1	0	0	0	17632	362	13	5	4232	5	ZFHX4	8	77763355	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	6684389	77763355	68600667	96	5920										
RALYL	138046	broad.mit.edu	37	chr8	85785583	85785583	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	atcaaaactaaaattgactcCttgctagggcgcctggagaa	9	9	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr8:85785583C>T	uc003ycq.3	+	8	1052	c.636C>T	c.(634-636)TCC>TCT	p.S212S	RALYL_uc003ycr.3_Silent_p.S212S|RALYL_uc003ycs.3_Silent_p.S212S|RALYL_uc010lzy.2_Silent_p.S201S|RALYL_uc003yct.3_Silent_p.S225S|RALYL_uc003ycu.3_Silent_p.S139S|RALYL_uc003ycv.3_Silent_p.S124S	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2	212	Potential.						identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						AAATTGACTCCTTGCTAGGGC	0.428													7	21	---	---	---	---	PASS	T	85785583	T	T	85785583	2	4	9	1	0	0	0	0	0	0	0	1	13020	668	24	3		3	RALYL	8	85785583	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	8022228	85785583	60578439	97	5921										
SLC7A13	157724	broad.mit.edu	37	chr8	87235284	87235284	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctacagtcaccagaggtaacGcagtaaatatgcatttggga	10	8	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr8:87235284G>A	uc003ydq.1	-	2	832	c.734C>T	c.(733-735)GCG>GTG	p.A245V	SLC7A13_uc003ydr.1_Missense_Mutation_p.A236V	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	245	Helical; Name=7; (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						CAGAGGTAACGCAGTAAATAT	0.383													26	110	---	---	---	---	PASS	A	87235284	A	A	87235284	3	1	9	1	0	0	0	0	1	0	0	0	14695	1087	38	1	690	1	SLC7A13	8	87235284	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	1449701	87235284	59128738	98	5922										
SLC26A7	115111	broad.mit.edu	37	chr8	92307881	92307881	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gcttatccgactttgaaatgCaaaggatccacgttgctgca	9	10	0	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr8:92307881C>T	uc003yex.2	+	5	705	c.427C>T	c.(427-429)CAA>TAA	p.Q143*	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Nonsense_Mutation_p.Q143*|SLC26A7_uc003yfa.2_Nonsense_Mutation_p.Q143*	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	143	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)			CTTTGAAATGCAAAGGATCCA	0.498													16	45	---	---	---	---	PASS	T	92307881	T	T	92307881	4	4	9	1	0	0	0	0	0	1	0	0	14522	711	25	3	437	3	SLC26A7	8	92307881	Nonsense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	5072597	92307881	54056141	99	5923										
GLDC	2731	broad.mit.edu	37	chr9	6540093	6540093	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cacatccacagcctcaatatTtgcagactttttgaagggtc	7	11	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr9:6540093T>A	uc003zkc.2	-	22	2816	c.2623A>T	c.(2623-2625)AAT>TAT	p.N875Y		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	875					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	GCCTCAATATTTGCAGACTTT	0.453													12	59	---	---	---	---	PASS	A	6540093	A	A	6540093	3	1	9	1	0	0	0	0	1	0	0	0	6433	1841	64	5	455	5	GLDC	9	6540093	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08		6540093	134673338	100	5924										
ACER2	340485	broad.mit.edu	37	chr9	19424709	19424709	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgattctaggaattggatccGtctacttccatgcaaccctt	7	11	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr9:19424709G>A	uc003zny.1	+	3	393	c.235G>A	c.(235-237)GTC>ATC	p.V79I	ACER2_uc003znx.1_RNA|ACER2_uc003znz.1_Missense_Mutation_p.V30I	NM_001010887	NP_001010887	Q5QJU3	ACER2_HUMAN	alkaline ceramidase 2	79	Helical; (Potential).				ceramide metabolic process|negative regulation of cell adhesion mediated by integrin|negative regulation of cell-matrix adhesion|negative regulation of protein glycosylation in Golgi|positive regulation of cell proliferation|response to retinoic acid|sphingosine biosynthetic process	integral to Golgi membrane	ceramidase activity			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2						AATTGGATCCGTCTACTTCCA	0.428													13	53	---	---	---	---	PASS	A	19424709	A	A	19424709	3	1	9	1	0	0	0	0	1	0	0	0	139	1145	40	1	245	1	ACER2	9	19424709	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	12884616	19424709	121788722	101	5925										
SLC24A2	25769	broad.mit.edu	37	chr9	19576937	19576937	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctcacccacgtggttggcagCcccattctgcctctcgttct	8	17	4	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr9:19576937C>A	uc003zoa.1	-	5	1275	c.1213G>T	c.(1213-1215)GCT>TCT	p.A405S	SLC24A2_uc003zob.1_Missense_Mutation_p.A388S	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	405	Cytoplasmic (Potential).				visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		TGGTTGGCAGCCCCATTCTGC	0.537													11	46	---	---	---	---	PASS	A	19576937	A	A	19576937	3	1	9	1	0	0	0	0	1	0	0	0	14466	739	26	3	796	3	SLC24A2	9	19576937	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	152228	19576937	121636494	102	5926										
C9orf79	286234	broad.mit.edu	37	chr9	90499950	90499950	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gcatgggaaatgcatgcaagAtccgtctcctgccagcttgt	11	11	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr9:90499950A>T	uc004app.3	+	4	583	c.548A>T	c.(547-549)GAT>GTT	p.D183V	C9orf79_uc004apo.1_Intron	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	183	Pro-rich.					integral to membrane				ovary(3)	3						TGCATGCAAGATCCGTCTCCT	0.627													39	31	---	---	---	---	PASS	T	90499950	T	T	90499950	3	4	9	1	0	0	0	0	1	0	0	0	2497	333	12	5	562	5	C9orf79	9	90499950	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	70923013	90499950	50713481	103	5927										
SEMA4D	10507	broad.mit.edu	37	chr9	92006320	92006320	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cggatcacgtcagcaaacacGaaactaggctctgcagagag	11	11	3	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr9:92006320G>A	uc004aqo.1	-	11	1205	c.633C>T	c.(631-633)TTC>TTT	p.F211F	SEMA4D_uc011ltm.1_Silent_p.F211F|SEMA4D_uc011ltn.1_RNA|SEMA4D_uc011lto.1_RNA|SEMA4D_uc004aqp.1_Silent_p.F209F	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	211	Sema.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						CAGCAAACACGAAACTAGGCT	0.557													16	58	---	---	---	---	PASS	A	92006320	A	A	92006320	2	1	9	1	0	0	0	0	0	0	0	1	14034	1049	37	2		2	SEMA4D	9	92006320	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	1506370	92006320	49207111	104	5928										
KIAA1958	158405	broad.mit.edu	37	chr9	115337436	115337436	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctgtgaggtagccctttctcCctcagttaacacagagccag	9	13	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr9:115337436C>A	uc004bgf.1	+	2	1251	c.1076C>A	c.(1075-1077)CCC>CAC	p.P359H	KIAA1958_uc011lwx.1_Missense_Mutation_p.P359H	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	359										skin(1)	1						GCCCTTTCTCCCTCAGTTAAC	0.582													5	102	---	---	---	---	PASS	A	115337436	A	A	115337436	3	1	9	1	0	0	0	0	1	0	0	0	8264	623	22	3	1078	3	KIAA1958	9	115337436	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	23331116	115337436	25875995	105	5929										
KIF12	113220	broad.mit.edu	37	chr9	116857503	116857503	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cgcttaagtaccatgagggtGaccccgcgccctcccagtga	11	15	0	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr9:116857503G>T	uc004bif.2	-	7	829	c.591C>A	c.(589-591)GTC>GTA	p.V197V	KIF12_uc004big.2_RNA	NM_138424	NP_612433	Q96FN5	KIF12_HUMAN	kinesin family member 12	330					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						CCATGAGGGTGACCCCGCGCC	0.647													11	51	---	---	---	---	PASS	T	116857503	T	T	116857503	2	4	9	1	0	0	0	0	0	0	0	1	8273	1277	45	2		2	KIF12	9	116857503	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	1520067	116857503	24355928	106	5930										
PHF19	26147	broad.mit.edu	37	chr9	123629244	123629244	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gcagcatccgcaggtaccatCtggagagacagaggagccaa	13	11	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr9:123629244C>T	uc004bks.1	-	7	868	c.615_splice	c.e7-1	p.E205_splice	PHF19_uc011lyf.1_Splice_Site|PHF19_uc004bkr.2_Splice_Site	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						CAGGTACCATCTGGAGAGACA	0.567													12	25	---	---	---	---	PASS	T	123629244	T	T	123629244	5	4	9	1	0	0	0	0	0	0	1	0	11829	927	32	2	1164	2	PHF19	9	123629244	Splice_Site	SNP	C	TCGA-18-3415-01A-01D-0983-08	6771741	123629244	17584187	107	5931										
DBH	1621	broad.mit.edu	37	chr9	136508547	136508547	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cctcacagtacgagcccatcGtcaccaagggcaatgaggcc	10	15	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr9:136508547G>A	uc004cel.2	+	4	766	c.757G>A	c.(757-759)GTC>ATC	p.V253I		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	253	Intragranular (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	CGAGCCCATCGTCACCAAGGG	0.592													15	34	---	---	---	---	PASS	A	136508547	A	A	136508547	3	1	9	1	0	0	0	0	1	0	0	0	4250	1145	40	1	771	1	DBH	9	136508547	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	12879303	136508547	4704884	108	5932										
UPF2	26019	broad.mit.edu	37	chr10	11997500	11997500	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cctctgattaaatttaggttGattaacctaaaaggcaacaa	6	7	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr10:11997500G>C	uc001ila.2	-	13	3055	c.2581C>G	c.(2581-2583)CAA>GAA	p.Q861E	UPF2_uc001ilb.2_Missense_Mutation_p.Q861E|UPF2_uc001ilc.2_Missense_Mutation_p.Q861E|UPF2_uc009xiz.1_Missense_Mutation_p.Q861E	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	861	Sufficient for interaction with UPF3A and UPF3B.|MIF4G 3.|Sufficient for interaction with EIF4A1 and EIF1.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				AATTTAGGTTGATTAACCTAA	0.343													19	26	---	---	---	---	PASS	C	11997500	C	C	11997500	3	2	9	1	0	0	0	0	1	0	0	0	17001	1299	45	2	1273	2	UPF2	10	11997500	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08		11997500	123537247	109	5933										
C1QL3	389941	broad.mit.edu	37	chr10	16562655	16562655	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgagcacctcgtagccttcaTgctgccgcttgaggccggcg	13	14	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr10:16562655T>A	uc001ioj.1	-	1	1350	c.410A>T	c.(409-411)CAT>CTT	p.H137L		NM_001010908	NP_001010908	Q5VWW1	C1QL3_HUMAN	complement component 1, q subcomponent-like 3	137	C1q.					collagen				ovary(1)	1						GTAGCCTTCATGCTGCCGCTT	0.582													6	44	---	---	---	---	PASS	A	16562655	A	A	16562655	3	1	9	1	0	0	0	0	1	0	0	0	1960	1464	51	5	365	5	C1QL3	10	16562655	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	4565155	16562655	118972092	110	5934										
MRC1	4360	broad.mit.edu	37	chr10	18112280	18112280	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	caaaaagtgaatttcagaaaTgggagtgcaaaaatgacaca	9	5	1	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr10:18112280T>C	uc001ipm.2	+	2	401	c.298T>C	c.(298-300)TGG>CGG	p.W100R		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	100	Extracellular (Potential).|Ricin B-type lectin.				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						ATTTCAGAAATGGGAGTGCAA	0.378													47	34	---	---	---	---	PASS	C	18112280	C	C	18112280	3	2	9	1	0	0	0	0	1	0	0	0	9756	1464	51	5	4795	5	MRC1	10	18112280	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	1549625	18112280	117422467	111	5935										
SEC23IP	11196	broad.mit.edu	37	chr10	121663646	121663646	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gcacggatggagggcgctacGatgtttacctctatgaccga	13	10	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr10:121663646G>T	uc001leu.1	+	4	1030	c.958G>T	c.(958-960)GAT>TAT	p.D320Y	SEC23IP_uc010qtc.1_Missense_Mutation_p.D109Y	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	320	Interaction with SEC23A.				Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		AGGGCGCTACGATGTTTACCT	0.493													3	42	---	---	---	---	PASS	T	121663646	T	T	121663646	3	4	9	1	0	0	0	0	1	0	0	0	13993	1058	37	2	972	2	SEC23IP	10	121663646	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	103551366	121663646	13871101	112	5936										
ART1	417	broad.mit.edu	37	chr11	3680845	3680845	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cccatcacacgacgagacctCttctctcaagagattcagct	6	15	5	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:3680845C>G	uc001lye.1	+	3	197	c.96C>G	c.(94-96)CTC>CTG	p.L32L	ART1_uc009yeb.1_Silent_p.L32L	NM_004314	NP_004305	P52961	NAR1_HUMAN	ADP-ribosyltransferase 1 precursor	32					protein ADP-ribosylation	anchored to membrane|integral to plasma membrane|sarcoplasmic reticulum membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity				0		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0351)|LUSC - Lung squamous cell carcinoma(625;0.195)	Becaplermin(DB00102)	GACGAGACCTCTTCTCTCAAG	0.602													4	42	---	---	---	---	PASS	G	3680845	G	G	3680845	2	3	9	1	0	0	0	0	0	0	0	1	997	900	32	2		2	ART1	11	3680845	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08		3680845	131325671	113	5937										
OR52R1	119695	broad.mit.edu	37	chr11	4825066	4825066	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tcagcacagccatgtgctcaCagtatgactggggaatggct	12	10	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:4825066C>A	uc010qym.1	-	1	782	c.782G>T	c.(781-783)TGT>TTT	p.C261F		NM_001005177	NP_001005177	Q8NGF1	O52R1_HUMAN	olfactory receptor, family 52, subfamily R,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0184)|all_neural(188;0.0227)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		CATGTGCTCACAGTATGACTG	0.527													14	75	---	---	---	---	PASS	A	4825066	A	A	4825066	3	1	9	1	0	0	0	0	1	0	0	0	11131	478	17	3	405	3	OR52R1	11	4825066	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	1144221	4825066	130181450	114	5938										
TRIM3	10612	broad.mit.edu	37	chr11	6471848	6471848	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgttcacagccacaaaatggGgccctgaaaatacaaagtgg	10	9	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:6471848G>A	uc001mdh.2	-	11	2261	c.1874C>T	c.(1873-1875)CCC>CTC	p.P625L	TRIM3_uc001mdi.2_Missense_Mutation_p.P625L|TRIM3_uc010raj.1_Missense_Mutation_p.P506L|TRIM3_uc009yfd.2_Missense_Mutation_p.P625L|TRIM3_uc010rak.1_Missense_Mutation_p.P625L	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	625	NHL 4.				nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding			central_nervous_system(2)|large_intestine(1)|ovary(1)|skin(1)	5		all_lung(207;9.97e-06)|Lung NSC(207;1.74e-05)|Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;9.34e-10)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.133)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CACAAAATGGGGCCCTGAAAA	0.483													21	23	---	---	---	---	PASS	A	6471848	A	A	6471848	3	1	9	1	0	0	0	0	1	0	0	0	16501	1232	43	3	372	3	TRIM3	11	6471848	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	1646782	6471848	128534668	115	5939										
WEE1	7465	broad.mit.edu	37	chr11	9608356	9608356	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agaaagagtgcagaacaattAcgaatagaattgaatgccga	10	5	0	5			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:9608356A>T	uc001mhs.2	+	10	1993	c.1740A>T	c.(1738-1740)TTA>TTT	p.L580F	WEE1_uc001mht.2_Missense_Mutation_p.L366F	NM_003390	NP_003381	P30291	WEE1_HUMAN	WEE1 tyrosine kinase isoform 1	580					blood coagulation|cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|S phase of mitotic cell cycle	nucleoplasm	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	5				all cancers(16;4.59e-09)|Epithelial(150;3.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0484)		CAGAACAATTACGAATAGAAT	0.353													22	23	---	---	---	---	PASS	T	9608356	T	T	9608356	3	4	9	1	0	0	0	0	1	0	0	0	17341	388	14	5	1778	5	WEE1	11	9608356	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	3136508	9608356	125398160	116	5940										
COPB1	1315	broad.mit.edu	37	chr11	14490962	14490962	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gcattccttattgaaaatgtCattcattaaaggtgaacatt	6	6	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:14490962C>T	uc001mli.2	-	15	2192	c.1885G>A	c.(1885-1887)GAC>AAC	p.D629N	COPB1_uc001mlg.2_Missense_Mutation_p.D629N|COPB1_uc001mlh.2_Missense_Mutation_p.D629N	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	629					COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						TTGAAAATGTCATTCATTAAA	0.383													57	100	---	---	---	---	PASS	T	14490962	T	T	14490962	3	4	9	1	0	0	0	0	1	0	0	0	3728	826	29	2	1008	2	COPB1	11	14490962	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	4882606	14490962	120515554	117	5941										
LGR4	55366	broad.mit.edu	37	chr11	27390143	27390143	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agtgagtttaatagcactaaCgttacagtgaatcctaatga	8	6	0	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:27390143C>T	uc001mrj.3	-	18	2612	c.2127G>A	c.(2125-2127)ACG>ACA	p.T709T	LGR4_uc001mrk.3_Silent_p.T685T	NM_018490	NP_060960	Q9BXB1	LGR4_HUMAN	leucine-rich repeat-containing G protein-coupled	709	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1						ATAGCACTAACGTTACAGTGA	0.398													22	87	---	---	---	---	PASS	T	27390143	T	T	27390143	2	4	9	1	0	0	0	0	0	0	0	1	8756	523	19	1		1	LGR4	11	27390143	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	12899181	27390143	107616373	118	5942										
OR4C3	256144	broad.mit.edu	37	chr11	48346985	48346985	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctaccatcatgaccaggcatCtctgtgccatgcttgtaggg	10	12	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:48346985C>G	uc010rhv.1	+	1	493	c.493C>G	c.(493-495)CTC>GTC	p.L165V		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	138	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GACCAGGCATCTCTGTGCCAT	0.532													16	79	---	---	---	---	PASS	G	48346985	G	G	48346985	3	3	9	1	0	0	0	0	1	0	0	0	11050	913	32	2	495	2	OR4C3	11	48346985	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	20956842	48346985	86659531	119	5943										
OR4C46	119749	broad.mit.edu	37	chr11	51515731	51515731	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ggagtggtgtggatgggaggCtttcttcatgcaaccataca	14	7	2	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:51515731C>T	uc010ric.1	+	1	450	c.450C>T	c.(448-450)GGC>GGT	p.G150G		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GGATGGGAGGCTTTCTTCATG	0.458													27	47	---	---	---	---	PASS	T	51515731	T	T	51515731	2	4	9	1	0	0	0	0	0	0	0	1	11051	784	28	3		3	OR4C46	11	51515731	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	3168746	51515731	83490785	120	5944										
OR4C16	219428	broad.mit.edu	37	chr11	55340086	55340086	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttagttcagatttttcttgcCctgagtttgccattctgtgg	9	8	3	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:55340086C>A	uc010rih.1	+	1	483	c.483C>A	c.(481-483)GCC>GCA	p.A161A		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	161	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				TTTTTCTTGCCCTGAGTTTGC	0.473													12	74	---	---	---	---	PASS	A	55340086	A	A	55340086	2	1	9	1	0	0	0	0	0	0	0	1	11049	610	22	3		3	OR4C16	11	55340086	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	3824355	55340086	79666430	121	5945										
OR5D18	219438	broad.mit.edu	37	chr11	55587702	55587702	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	acttacatcaaccagtggctGctattctttcttgccacctt	5	13	3	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:55587702G>T	uc010rin.1	+	1	597	c.597G>T	c.(595-597)CTG>CTT	p.L199L		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	199	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				ACCAGTGGCTGCTATTCTTTC	0.403													4	73	---	---	---	---	PASS	T	55587702	T	T	55587702	2	4	9	1	0	0	0	0	0	0	0	1	11157	1306	46	3		3	OR5D18	11	55587702	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	247616	55587702	79418814	122	5946										
OR8H3	390152	broad.mit.edu	37	chr11	55890545	55890545	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgaaaattaattccacttcaGgaaagcagaaagctttctct	6	8	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:55890545G>A	uc001nii.1	+	1	697	c.697G>A	c.(697-699)GGA>AGA	p.G233R		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	233	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					TTCCACTTCAGGAAAGCAGAA	0.398													19	64	---	---	---	---	PASS	A	55890545	A	A	55890545	3	1	9	1	0	0	0	0	1	0	0	0	11239	1001	35	3	699	3	OR8H3	11	55890545	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	302843	55890545	79115971	123	5947										
OR5B2	390190	broad.mit.edu	37	chr11	58190360	58190360	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gtggtgtagtgtaggggtttGcacactgctgcatagcggtc	16	7	0	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:58190360G>A	uc010rkg.1	-	1	375	c.375C>T	c.(373-375)TGC>TGT	p.C125C		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GTAGGGGTTTGCACACTGCTG	0.507													28	38	---	---	---	---	PASS	A	58190360	A	A	58190360	2	1	9	1	0	0	0	0	0	0	0	1	11150	1311	46	3		3	OR5B2	11	58190360	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	2299815	58190360	76816156	124	5948										
MS4A14	84689	broad.mit.edu	37	chr11	60183423	60183423	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	catcccaagctctaccagtaGaaggcctgtcagaacaaacc	7	14	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:60183423G>A	uc001npj.2	+	5	1547	c.982G>A	c.(982-984)GAA>AAA	p.E328K	MS4A14_uc001npi.2_Missense_Mutation_p.E216K|MS4A14_uc001npn.2_Missense_Mutation_p.E66K|MS4A14_uc001npk.2_Missense_Mutation_p.E311K|MS4A14_uc001npl.2_Missense_Mutation_p.E66K|MS4A14_uc001npm.2_Missense_Mutation_p.E66K	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	328						integral to membrane	receptor activity			breast(1)	1						TCTACCAGTAGAAGGCCTGTC	0.458													12	73	---	---	---	---	PASS	A	60183423	A	A	60183423	3	1	9	1	0	0	0	0	1	0	0	0	9858	943	33	2	1000	2	MS4A14	11	60183423	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	1993063	60183423	74823093	125	5949										
CCDC87	55231	broad.mit.edu	37	chr11	66359641	66359641	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tagctgggcagcgacaccatCtgtgaggaactgatgtcgat	13	9	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:66359641C>A	uc001oiq.3	-	1	914	c.846G>T	c.(844-846)CAG>CAT	p.Q282H	CCS_uc001oir.2_5'Flank	NM_018219	NP_060689	Q9NVE4	CCD87_HUMAN	coiled-coil domain containing 87	282										ovary(1)|skin(1)	2						GCGACACCATCTGTGAGGAAC	0.572													14	24	---	---	---	---	PASS	A	66359641	A	A	66359641	3	1	9	1	0	0	0	0	1	0	0	0	2862	912	32	2	1707	2	CCDC87	11	66359641	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	6176218	66359641	68646875	126	5950										
SPTBN2	6712	broad.mit.edu	37	chr11	66460763	66460763	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctcgcagggcatcctccagtCgcttccctcgaagttccagc	9	17	0	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:66460763C>T	uc001ojd.2	-	23	4820	c.4748G>A	c.(4747-4749)CGA>CAA	p.R1583Q		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1583	Spectrin 12.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						ATCCTCCAGTCGCTTCCCTCG	0.637													11	43	---	---	---	---	PASS	T	66460763	T	T	66460763	3	4	9	1	0	0	0	0	1	0	0	0	15119	884	31	2	2484	2	SPTBN2	11	66460763	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	101122	66460763	68545753	127	5951										
LRRC32	2615	broad.mit.edu	37	chr11	76372514	76372514	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gggagcaccgaggggacctgGagcaggcccagaacctggca	17	12	0	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:76372514G>C	uc001oxq.3	-	3	366	c.123C>G	c.(121-123)CTC>CTG	p.L41L	LRRC32_uc001oxr.3_Silent_p.L41L|LRRC32_uc010rsf.1_Silent_p.L41L	NM_005512	NP_005503	Q14392	LRC32_HUMAN	leucine rich repeat containing 32 precursor	41	Extracellular (Potential).					integral to plasma membrane					0						AGGGGACCTGGAGCAGGCCCA	0.622													5	10	---	---	---	---	PASS	C	76372514	C	C	76372514	2	2	9	1	0	0	0	0	0	0	0	1	8987	1161	41	2		2	LRRC32	11	76372514	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	9911751	76372514	58634002	128	5952										
CCDC81	60494	broad.mit.edu	37	chr11	86125862	86125862	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aaagagcgaaatttttaaaaGataagatggaagaaacacag	9	3	0	4			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:86125862G>C	uc001pbx.1	+	12	1851	c.1423G>C	c.(1423-1425)GAT>CAT	p.D475H	CCDC81_uc001pbw.1_Missense_Mutation_p.D385H|CCDC81_uc010rtq.1_Missense_Mutation_p.D258H|CCDC81_uc001pby.1_Missense_Mutation_p.D210H	NM_001156474	NP_001149946	Q6ZN84	CCD81_HUMAN	coiled-coil domain containing 81 isoform 1	475	Potential.									skin(1)	1		Acute lymphoblastic leukemia(157;5.51e-06)|all_hematologic(158;0.00535)				ATTTTTAAAAGATAAGATGGA	0.353													9	24	---	---	---	---	PASS	C	86125862	C	C	86125862	3	2	9	1	0	0	0	0	1	0	0	0	2855	942	33	2	1469	2	CCDC81	11	86125862	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	9753348	86125862	48880654	129	5953										
OR8B4	283162	broad.mit.edu	37	chr11	124294666	124294666	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cccaccacagtgaacacataGatccctaagaatagaaggaa	7	11	0	4			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr11:124294666G>T	uc010sak.1	-	1	102	c.102C>A	c.(100-102)ATC>ATA	p.I34I		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	34	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		TGAACACATAGATCCCTAAGA	0.458													17	57	---	---	---	---	PASS	T	124294666	T	T	124294666	2	4	9	1	0	0	0	0	0	0	0	1	11229	932	33	2		2	OR8B4	11	124294666	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	38168804	124294666	10711850	130	5954										
CACNA1C	775	broad.mit.edu	37	chr12	2602441	2602441	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aacggcacggtgtgcaagccCggctgggatggtcccaagca	15	12	0	0	rs112002520		TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:2602441C>T	uc009zdu.1	+	7	1315	c.1002C>T	c.(1000-1002)CCC>CCT	p.P334P	CACNA1C_uc009zdv.1_Silent_p.P331P|CACNA1C_uc001qkb.2_Silent_p.P334P|CACNA1C_uc001qkc.2_Silent_p.P334P|CACNA1C_uc001qke.2_Silent_p.P334P|CACNA1C_uc001qkf.2_Silent_p.P334P|CACNA1C_uc001qjz.2_Silent_p.P334P|CACNA1C_uc001qkd.2_Silent_p.P334P|CACNA1C_uc001qkg.2_Silent_p.P334P|CACNA1C_uc009zdw.1_Silent_p.P334P|CACNA1C_uc001qkh.2_Silent_p.P334P|CACNA1C_uc001qkl.2_Silent_p.P334P|CACNA1C_uc001qkn.2_Silent_p.P334P|CACNA1C_uc001qko.2_Silent_p.P334P|CACNA1C_uc001qkp.2_Silent_p.P334P|CACNA1C_uc001qkr.2_Silent_p.P334P|CACNA1C_uc001qku.2_Silent_p.P334P|CACNA1C_uc001qkq.2_Silent_p.P334P|CACNA1C_uc001qks.2_Silent_p.P334P|CACNA1C_uc001qkt.2_Silent_p.P334P|CACNA1C_uc001qka.1_5'UTR|CACNA1C_uc001qki.1_Silent_p.P70P|CACNA1C_uc001qkj.1_Silent_p.P70P|CACNA1C_uc001qkk.1_Silent_p.P70P|CACNA1C_uc001qkm.1_Silent_p.P70P	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	334	I.|Extracellular (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	TGTGCAAGCCCGGCTGGGATG	0.602													23	106	---	---	---	---	PASS	T	2602441	T	T	2602441	2	4	9	1	0	0	0	0	0	0	0	1	2540	639	23	1		1	CACNA1C	12	2602441	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08		2602441	131249454	131	5955										
KIAA0528	9847	broad.mit.edu	37	chr12	22623791	22623791	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cttttcaacaggggtttttgTggtttgtaaagcctgatttt	10	5	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:22623791T>A	uc001rfq.2	-	21	2641	c.2413A>T	c.(2413-2415)ACA>TCA	p.T805S	KIAA0528_uc010sir.1_Missense_Mutation_p.T620S|KIAA0528_uc010sis.1_Missense_Mutation_p.T805S|KIAA0528_uc010sit.1_Missense_Mutation_p.T807S|KIAA0528_uc010siu.1_Missense_Mutation_p.T805S|KIAA0528_uc001rfr.2_Missense_Mutation_p.T796S	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	805							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						GGGGTTTTTGTGGTTTGTAAA	0.338													8	26	---	---	---	---	PASS	A	22623791	A	A	22623791	3	1	9	1	0	0	0	0	1	0	0	0	8182	1696	59	5	609	5	KIAA0528	12	22623791	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	20021350	22623791	111228104	132	5956										
ABCD2	225	broad.mit.edu	37	chr12	40013001	40013001	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttgatgatgaaagtccgaggCttcttttccacaatgctttt	8	8	1	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:40013001C>A	uc001rmb.2	-	1	843	c.417G>T	c.(415-417)AAG>AAT	p.K139N		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	139	ABC transmembrane type-1.|Interaction with PEX19.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						AAGTCCGAGGCTTCTTTTCCA	0.438													11	70	---	---	---	---	PASS	A	40013001	A	A	40013001	3	1	9	1	0	0	0	0	1	0	0	0	61	796	28	3	1845	3	ABCD2	12	40013001	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	17389210	40013001	93838894	133	5957										
AMHR2	269	broad.mit.edu	37	chr12	53819613	53819613	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gaacttccaggcctacagcaCgaccacattgtccgatttat	7	13	0	0	rs115267458	by1000genomes	TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:53819613C>T	uc001scx.1	+	6	840	c.762C>T	c.(760-762)CAC>CAT	p.H254H	AMHR2_uc009zmy.1_Silent_p.H254H	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	254	Cytoplasmic (Potential).|Protein kinase.				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	GCCTACAGCACGACCACATTG	0.587									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				5	24	---	---	---	---	PASS	T	53819613	T	T	53819613	2	4	9	1	0	0	0	0	0	0	0	1	573	535	19	1		1	AMHR2	12	53819613	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	13806612	53819613	80032282	134	5958										
SHMT2	6472	broad.mit.edu	37	chr12	57626301	57626301	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cgacttttccggccacggctCatcatagctggcaccagcgc	10	16	2	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:57626301C>G	uc001snf.1	+	6	670	c.660C>G	c.(658-660)CTC>CTG	p.L220L	SHMT2_uc001sng.1_Silent_p.L116L|SHMT2_uc001snh.1_Silent_p.L59L|SHMT2_uc009zpk.1_Silent_p.L210L|SHMT2_uc001sni.1_Silent_p.L199L|SHMT2_uc010srg.1_Silent_p.L229L|SHMT2_uc001snj.1_Silent_p.L124L|SHMT2_uc010srh.1_Silent_p.L199L|SHMT2_uc001snk.1_Silent_p.L124L|SHMT2_uc010sri.1_Silent_p.L199L|SHMT2_uc001snl.2_Silent_p.L124L|SHMT2_uc010srj.1_5'Flank	NM_005412	NP_005403	P34897	GLYM_HUMAN	serine hydroxymethyltransferase 2	220						microtubule cytoskeleton|mitochondrial nucleoid	glycine hydroxymethyltransferase activity|methyltransferase activity			ovary(1)|central_nervous_system(1)	2					Glycine(DB00145)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	GGCCACGGCTCATCATAGCTG	0.597													18	87	---	---	---	---	PASS	G	57626301	G	G	57626301	2	3	9	1	0	0	0	0	0	0	0	1	14286	813	29	2		2	SHMT2	12	57626301	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	3806688	57626301	76225594	135	5959										
AGAP2	116986	broad.mit.edu	37	chr12	58135755	58135755	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttcggggtcgtccaccctctCtgccagcttcctgaggcggt	12	15	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:58135755C>G	uc001spr.2	-	1	186	c.100G>C	c.(100-102)GAG>CAG	p.E34Q		NM_014770	NP_055585	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-S	Error:Variant_position_missing_in_Q99490_after_alignment					axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						TCCACCCTCTCTGCCAGCTTC	0.567													15	77	---	---	---	---	PASS	G	58135755	G	G	58135755	3	3	9	1	0	0	0	0	1	0	0	0	368	922	32	2	3718	2	AGAP2	12	58135755	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	509454	58135755	75716140	136	5960										
HELB	92797	broad.mit.edu	37	chr12	66700160	66700160	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	taatgacagctttgcagtttCcgaagataatggaattcctt	8	7	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:66700160C>T	uc001sti.2	+	3	671	c.643C>T	c.(643-645)CCG>TCG	p.P215S	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	215					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		TTTGCAGTTTCCGAAGATAAT	0.348													13	45	---	---	---	---	PASS	T	66700160	T	T	66700160	3	4	9	1	0	0	0	0	1	0	0	0	7045	855	30	2	653	2	HELB	12	66700160	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	8564405	66700160	67151735	137	5961										
PPFIA2	8499	broad.mit.edu	37	chr12	82147871	82147871	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ccgaagggtgtctagaagacGatccctttcatctagcatat	9	10	3	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:82147871G>T	uc001szo.1	-	3	291	c.130C>A	c.(130-132)CGT>AGT	p.R44S	PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(3)|lung(2)|pancreas(1)	6						TCTAGAAGACGATCCCTTTCA	0.527													9	35	---	---	---	---	PASS	T	82147871	T	T	82147871	3	4	9	1	0	0	0	0	1	0	0	0	12310	1058	37	2	3763	2	PPFIA2	12	82147871	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	15447711	82147871	51704024	138	5962										
SOCS2	8835	broad.mit.edu	37	chr12	93968716	93968716	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aatccaagcttaaacaatttGacagtgtggttcatctgatc	7	8	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:93968716G>C	uc001tcw.1	+	3	948	c.358G>C	c.(358-360)GAC>CAC	p.D120H	SOCS2_uc001tcx.1_Missense_Mutation_p.D120H|SOCS2_uc009zsu.2_3'UTR|SOCS2_uc001tcy.1_Missense_Mutation_p.D120H|SOCS2_uc001tcz.2_3'UTR	NM_003877	NP_003868	O14508	SOCS2_HUMAN	suppressor of cytokine signaling-2	120	SH2.				anti-apoptosis|growth hormone receptor signaling pathway|JAK-STAT cascade|negative regulation of signal transduction|regulation of cell growth|response to estradiol stimulus	cytoplasm	growth hormone receptor binding|insulin-like growth factor receptor binding|JAK pathway signal transduction adaptor activity|prolactin receptor binding|SH3/SH2 adaptor activity			lung(1)	1						TAAACAATTTGACAGTGTGGT	0.433													4	38	---	---	---	---	PASS	C	93968716	C	C	93968716	3	2	9	1	0	0	0	0	1	0	0	0	14914	1290	45	2	364	2	SOCS2	12	93968716	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	11820845	93968716	39883179	139	5963										
C12orf63	374467	broad.mit.edu	37	chr12	97087548	97087548	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	attttgtttctggaatttgtCaagacataacaagaaatcta	6	5	3	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:97087548C>T	uc001tet.1	+	12	1666	c.1588C>T	c.(1588-1590)CAA>TAA	p.Q530*		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	530										skin(6)|ovary(1)	7						TGGAATTTGTCAAGACATAAC	0.294													8	44	---	---	---	---	PASS	T	97087548	T	T	97087548	4	4	9	1	0	0	0	0	0	1	0	0	1706	827	29	2	1630	2	C12orf63	12	97087548	Nonsense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	3118832	97087548	36764347	140	5964										
ANKS1B	56899	broad.mit.edu	37	chr12	99478771	99478771	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	attaaggattccaatttccaAcaaatcctgatcttccataa	3	10	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:99478771A>G	uc001tge.1	-	16	2974	c.2557T>C	c.(2557-2559)TTG>CTG	p.L853L	ANKS1B_uc001tgf.1_Silent_p.L429L|ANKS1B_uc001tgk.2_Silent_p.L150L|ANKS1B_uc001tgd.1_Silent_p.L79L|ANKS1B_uc001tgi.2_Silent_p.L79L|ANKS1B_uc009ztr.2_Silent_p.L79L|ANKS1B_uc001tgj.2_Silent_p.L79L|ANKS1B_uc001tgg.3_Silent_p.L22L|ANKS1B_uc010svg.1_Silent_p.L48L|ANKS1B_uc009zts.1_Silent_p.L79L|ANKS1B_uc001tgm.1_Silent_p.L79L	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	853	SAM 1.					Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		CCAATTTCCAACAAATCCTGA	0.363													3	12	---	---	---	---	PASS	G	99478771	G	G	99478771	2	3	9	1	0	0	0	0	0	0	0	1	689	40	2	5		5	ANKS1B	12	99478771	Silent	SNP	A	TCGA-18-3415-01A-01D-0983-08	2391223	99478771	34373124	141	5965										
C12orf51	283450	broad.mit.edu	37	chr12	112632695	112632695	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aagccaagttttacctgggaGaggaggtgcgaggagctgat	16	6	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:112632695G>A	uc009zwc.2	-	49	7495	c.7477C>T	c.(7477-7479)CTC>TTC	p.L2493F		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TTACCTGGGAGAGGAGGTGCG	0.567													4	12	---	---	---	---	PASS	A	112632695	A	A	112632695	3	1	9	1	0	0	0	0	1	0	0	0	1696	942	33	2	4597	2	C12orf51	12	112632695	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	13153924	112632695	21219200	142	5966			1	5		2	2	14	G		8.818389e-05
C12orf51	283450	broad.mit.edu	37	chr12	112632708	112632708	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cctgggagaggaggtgcgagGagctgattggacagcagttg	19	6	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:112632708G>A	uc009zwc.2	-	49	7482	c.7464C>T	c.(7462-7464)CTC>CTT	p.L2488L		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						GAGGTGCGAGGAGCTGATTGG	0.567													6	12	---	---	---	---	PASS	A	112632708	A	A	112632708	2	1	9	1	0	0	0	0	0	0	0	1	1696	1161	41	2		2	C12orf51	12	112632708	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	13	112632708	21219187	143	5967			1	5		2	2	14	G		8.818389e-05
NOS1	4842	broad.mit.edu	37	chr12	117665253	117665253	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cacctcgagtgcggtaggaaAcgatggccacagtgaggtgc	15	10	0	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:117665253A>C	uc001twm.1	-	23	4285	c.3599T>G	c.(3598-3600)GTT>GGT	p.V1200G		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1200	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GCGGTAGGAAACGATGGCCAC	0.612													7	18	---	---	---	---	PASS	C	117665253	C	C	117665253	3	2	9	1	0	0	0	0	1	0	0	0	10541	43	2	5	733	5	NOS1	12	117665253	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	5032545	117665253	16186642	144	5968										
PIWIL1	9271	broad.mit.edu	37	chr12	130839091	130839091	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctcttgagcagcaatacaacCaagagatcaccgacttgaag	8	11	2	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:130839091C>A	uc001uik.2	+	10	1144	c.1054C>A	c.(1054-1056)CAA>AAA	p.Q352K	PIWIL1_uc001uij.1_Missense_Mutation_p.Q352K	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	352	PAZ.				gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		GCAATACAACCAAGAGATCAC	0.522													5	108	---	---	---	---	PASS	A	130839091	A	A	130839091	3	1	9	1	0	0	0	0	1	0	0	0	11957	595	21	3	1088	3	PIWIL1	12	130839091	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	13173838	130839091	3012804	145	5969										
RIMBP2	23504	broad.mit.edu	37	chr12	130935867	130935867	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	caccgatcgcagagctgcctCcaatagcgctctcctgacct	8	17	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr12:130935867C>T	uc001uil.2	-	5	490	c.326G>A	c.(325-327)GGA>GAA	p.G109E	RIMBP2_uc001uim.2_Missense_Mutation_p.G17E	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	109						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		AGAGCTGCCTCCAATAGCGCT	0.562													10	9	---	---	---	---	PASS	T	130935867	T	T	130935867	3	4	9	1	0	0	0	0	1	0	0	0	13363	855	30	2	2892	2	RIMBP2	12	130935867	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	96776	130935867	2916028	146	5970										
MTRF1	9617	broad.mit.edu	37	chr13	41828703	41828703	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gattttttgatcaatggtttGcctttcttccagtgcaagtt	8	7	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr13:41828703G>T	uc001uxx.2	-	5	939	c.469C>A	c.(469-471)CAA>AAA	p.Q157K	MTRF1_uc001uxy.2_Missense_Mutation_p.Q157K|MTRF1_uc001uxz.2_5'UTR|MTRF1_uc010tff.1_Missense_Mutation_p.Q170K|MTRF1_uc001uyc.1_Missense_Mutation_p.Q157K	NM_004294	NP_004285	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	157					regulation of translational termination	mitochondrion	translation release factor activity, codon specific				0		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)		TCAATGGTTTGCCTTTCTTCC	0.333													4	23	---	---	---	---	PASS	T	41828703	T	T	41828703	3	4	9	1	0	0	0	0	1	0	0	0	9959	1328	46	3	900	3	MTRF1	13	41828703	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08		41828703	73341175	147	5971										
TSC22D1	8848	broad.mit.edu	37	chr13	45147368	45147368	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	acgggaaaagagaagcagagGctgctaggctgctgctactc	14	9	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr13:45147368G>T	uc001uzn.3	-	1	3334	c.2843C>A	c.(2842-2844)GCC>GAC	p.A948D	TSC22D1_uc001uzo.1_Intron	NM_183422	NP_904358	Q15714	T22D1_HUMAN	TSC22 domain family, member 1 isoform 1	948					transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(4;8.74e-08)|Acute lymphoblastic leukemia(4;1.78e-07)|Lung NSC(96;2.21e-05)|Breast(139;0.000625)|Prostate(109;0.000947)|Hepatocellular(98;0.0202)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000522)|BRCA - Breast invasive adenocarcinoma(63;0.118)		AGAAGCAGAGGCTGCTAGGCT	0.537													9	25	---	---	---	---	PASS	T	45147368	T	T	45147368	3	4	9	1	0	0	0	0	1	0	0	0	16604	1203	42	3	519	3	TSC22D1	13	45147368	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	3318665	45147368	70022510	148	5972										
LRCH1	23143	broad.mit.edu	37	chr13	47275295	47275295	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	caggacatggatatagcaatGatcgagcagctgagagaagc	13	7	0	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr13:47275295G>C	uc001vbj.2	+	11	1589	c.1353G>C	c.(1351-1353)ATG>ATC	p.M451I	LRCH1_uc010acp.2_Missense_Mutation_p.M451I|LRCH1_uc001vbk.2_Missense_Mutation_p.M451I|LRCH1_uc001vbl.3_Missense_Mutation_p.M451I	NM_015116	NP_055931	Q9Y2L9	LRCH1_HUMAN	leucine-rich repeats and calponin homology (CH)	451										ovary(1)|central_nervous_system(1)	2		all_lung(13;5.61e-07)|Lung NSC(96;0.000117)|Breast(56;0.000141)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000123)		ATATAGCAATGATCGAGCAGC	0.378													8	39	---	---	---	---	PASS	C	47275295	C	C	47275295	3	2	9	1	0	0	0	0	1	0	0	0	8932	1290	45	2	1395	2	LRCH1	13	47275295	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	2127927	47275295	67894583	149	5973										
KCNRG	283518	broad.mit.edu	37	chr13	50590025	50590025	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tttggctcttgcagcaaaacAattgagatgctaacagggag	11	7	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr13:50590025A>G	uc001vdu.2	+	1	636	c.396A>G	c.(394-396)ACA>ACG	p.T132T	DLEU2_uc001vdn.1_Intron|DLEU2_uc001vdo.1_Intron|KCNRG_uc001vdt.2_Silent_p.T132T|TRIM13_uc001vdp.1_3'UTR|TRIM13_uc001vdq.1_3'UTR|TRIM13_uc001vdr.1_3'UTR|TRIM13_uc001vds.1_3'UTR	NM_173605	NP_775876	Q8N5I3	KCNRG_HUMAN	potassium channel regulator isoform 1	132						voltage-gated potassium channel complex	identical protein binding|voltage-gated potassium channel activity				0		Acute lymphoblastic leukemia(7;3.41e-06)|Lung NSC(96;3.08e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.48e-10)|COAD - Colon adenocarcinoma(199;0.204)		GCAGCAAAACAATTGAGATGC	0.473													47	82	---	---	---	---	PASS	G	50590025	G	G	50590025	2	3	9	1	0	0	0	0	0	0	0	1	8087	117	5	5		5	KCNRG	13	50590025	Silent	SNP	A	TCGA-18-3415-01A-01D-0983-08	3314730	50590025	64579853	150	5974										
RNASEH2B	79621	broad.mit.edu	37	chr13	51501612	51501612	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aaaactggttaacccctgttCaggtaagttctcttctcata	6	10	3	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr13:51501612C>T	uc001vfa.3	+	2	455	c.134C>T	c.(133-135)TCA>TTA	p.S45L	RNASEH2B_uc001vfb.3_Missense_Mutation_p.S45L	NM_024570	NP_078846	Q5TBB1	RNH2B_HUMAN	ribonuclease H2, subunit B isoform 1	45					RNA catabolic process	nucleus|ribonuclease H2 complex					0		Acute lymphoblastic leukemia(7;1.03e-07)|Breast(56;0.00122)|Lung NSC(96;0.00143)|Prostate(109;0.0047)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;9e-08)		AACCCCTGTTCAGGTAAGTTC	0.308													10	49	---	---	---	---	PASS	T	51501612	T	T	51501612	3	4	9	1	0	0	0	0	1	0	0	0	13413	838	29	2	140	2	RNASEH2B	13	51501612	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	911587	51501612	63668266	151	5975										
KLHL1	57626	broad.mit.edu	37	chr13	70456529	70456529	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gcatggaagatggtttcttcAtcaggaacattgacatcatc	9	8	4	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr13:70456529A>T	uc001vip.2	-	5	1907	c.1113T>A	c.(1111-1113)GAT>GAA	p.D371E	KLHL1_uc010thm.1_Missense_Mutation_p.D310E	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	371					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		TGGTTTCTTCATCAGGAACAT	0.418													30	35	---	---	---	---	PASS	T	70456529	T	T	70456529	3	4	9	1	0	0	0	0	1	0	0	0	8365	214	8	5	1161	5	KLHL1	13	70456529	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	18954917	70456529	44713349	152	5976										
TBC1D4	9882	broad.mit.edu	37	chr13	75936518	75936518	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgggtccggaccgcgctgctCcccttggatcttcaggcgct	13	15	2	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr13:75936518C>T	uc001vjl.1	-	2	1071	c.724G>A	c.(724-726)GAG>AAG	p.E242K	TBC1D4_uc010aer.2_Missense_Mutation_p.E242K|TBC1D4_uc010aes.2_Missense_Mutation_p.E242K	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	242						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		CCGCGCTGCTCCCCTTGGATC	0.647													9	42	---	---	---	---	PASS	T	75936518	T	T	75936518	3	4	9	1	0	0	0	0	1	0	0	0	15619	864	30	2	3252	2	TBC1D4	13	75936518	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	5479989	75936518	39233360	153	5977										
NALCN	259232	broad.mit.edu	37	chr13	101763536	101763536	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	acctctcctttgcgggctgcCcctcaaatgatccgctcagc	8	17	3	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr13:101763536C>T	uc001vox.1	-	19	2423	c.2234G>A	c.(2233-2235)GGG>GAG	p.G745E		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	745	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TGCGGGCTGCCCCTCAAATGA	0.488													45	48	---	---	---	---	PASS	T	101763536	T	T	101763536	3	4	9	1	0	0	0	0	1	0	0	0	10148	623	22	3	3086	3	NALCN	13	101763536	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	25827018	101763536	13406342	154	5978										
OR4K15	81127	broad.mit.edu	37	chr14	20443959	20443959	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gcaaacctgtcatttatagaCgtatgtgttgcctcttttgc	8	9	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr14:20443959C>T	uc010tkx.1	+	1	282	c.282C>T	c.(280-282)GAC>GAT	p.D94D		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	94	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CATTTATAGACGTATGTGTTG	0.453													44	42	---	---	---	---	PASS	T	20443959	T	T	20443959	2	4	9	1	0	0	0	0	0	0	0	1	11070	535	19	1		1	OR4K15	14	20443959	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08		20443959	86905581	155	5979										
OR4K13	390433	broad.mit.edu	37	chr14	20502611	20502611	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cccacccaggaggtgcataaAgaacatctgggaataacatc	9	11	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr14:20502611A>T	uc010tkz.1	-	1	307	c.307T>A	c.(307-309)TTT>ATT	p.F103I		NM_001004714	NP_001004714	Q8NH42	OR4KD_HUMAN	olfactory receptor, family 4, subfamily K,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		AGGTGCATAAAGAACATCTGG	0.453													49	54	---	---	---	---	PASS	T	20502611	T	T	20502611	3	4	9	1	0	0	0	0	1	0	0	0	11068	72	3	5	609	5	OR4K13	14	20502611	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	58652	20502611	86846929	156	5980										
FANCM	57697	broad.mit.edu	37	chr14	45668130	45668130	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttttcatctgtgaaaaggatGgctaacaggtatgtctgttg	11	5	3	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr14:45668130G>T	uc001wwd.3	+	22	6099	c.6000G>T	c.(5998-6000)ATG>ATT	p.M2000I	FANCM_uc010anf.2_Missense_Mutation_p.M1974I|FANCM_uc001wwe.3_Missense_Mutation_p.M1536I|FANCM_uc010ang.2_Missense_Mutation_p.M1249I	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	2000	Interaction with FAAP24 and EME1.				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						TGAAAAGGATGGCTAACAGGT	0.284								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				11	8	---	---	---	---	PASS	T	45668130	T	T	45668130	3	4	9	1	0	0	0	0	1	0	0	0	5671	1348	47	3	6086	3	FANCM	14	45668130	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	25165519	45668130	61681410	157	5981										
RPL10L	140801	broad.mit.edu	37	chr14	47120363	47120363	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gtacttgactccacaaccatCagggatgaggcacttcttgg	10	11	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr14:47120363C>T	uc001wwg.2	-	1	666	c.577G>A	c.(577-579)GAT>AAT	p.D193N		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	193					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						CCACAACCATCAGGGATGAGG	0.517													57	38	---	---	---	---	PASS	T	47120363	T	T	47120363	3	4	9	1	0	0	0	0	1	0	0	0	13556	826	29	2	71	2	RPL10L	14	47120363	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	1452233	47120363	60229177	158	5982										
PELI2	57161	broad.mit.edu	37	chr14	56757088	56757088	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ggggcttcaccgaggagtccCagcccggggtctggcgcgag	18	13	2	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr14:56757088C>A	uc001xch.2	+	5	896	c.610C>A	c.(610-612)CAG>AAG	p.Q204K		NM_021255	NP_067078	Q9HAT8	PELI2_HUMAN	pellino 2	204					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1						CGAGGAGTCCCAGCCCGGGGT	0.587													44	72	---	---	---	---	PASS	A	56757088	A	A	56757088	3	1	9	1	0	0	0	0	1	0	0	0	11722	595	21	3	628	3	PELI2	14	56757088	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	9636725	56757088	50592452	159	5983										
DYNC1H1	1778	broad.mit.edu	37	chr14	102460520	102460520	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	atttcggctttggttggctaGgtgggtgtacattacgaatt	13	5	0	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr14:102460520G>C	uc001yks.2	+	12	3180	c.3016_splice	c.e12-1	p.V1006_splice		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1						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						TGGTTGGCTAGGTGGGTGTAC	0.403													39	92	---	---	---	---	PASS	C	102460520	C	C	102460520	5	2	9	1	0	0	0	0	0	0	1	0	4841	1014	35	4	3061	4	DYNC1H1	14	102460520	Splice_Site	SNP	G	TCGA-18-3415-01A-01D-0983-08	45703432	102460520	4889020	160	5984										
DYNC1H1	1778	broad.mit.edu	37	chr14	102460647	102460647	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgggcattgtatctgaagttGaacagtatgtcaaggtaaga	12	4	2	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr14:102460647G>C	uc001yks.2	+	12	3306	c.3142G>C	c.(3142-3144)GAA>CAA	p.E1048Q		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1048	Stem (By similarity).				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						ATCTGAAGTTGAACAGTATGT	0.398													36	63	---	---	---	---	PASS	C	102460647	C	C	102460647	3	2	9	1	0	0	0	0	1	0	0	0	4841	1291	45	2	3188	2	DYNC1H1	14	102460647	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	127	102460647	4888893	161	5985										
NDN	4692	broad.mit.edu	37	chr15	23931855	23931855	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tccagctcctcgggctccagCgctttgaccagcgcaaactc	9	17	0	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr15:23931855C>G	uc001ywk.2	-	1	596	c.510G>C	c.(508-510)GCG>GCC	p.A170A		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	170	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		CGGGCTCCAGCGCTTTGACCA	0.652									Prader-Willi_syndrome				7	16	---	---	---	---	PASS	G	23931855	G	G	23931855	2	3	9	1	0	0	0	0	0	0	0	1	10247	755	27	4		4	NDN	15	23931855	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08		23931855	78599537	162	5986										
RNF111	54778	broad.mit.edu	37	chr15	59323210	59323210	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aatagtaaagtggggaatgaAttctctcacctgtgtgatga	11	5	2	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr15:59323210A>C	uc002afv.2	+	2	468	c.189A>C	c.(187-189)GAA>GAC	p.E63D	RNF111_uc002afs.2_Missense_Mutation_p.E63D|RNF111_uc002aft.2_Missense_Mutation_p.E63D|RNF111_uc002afu.2_Missense_Mutation_p.E63D|RNF111_uc002afw.2_Missense_Mutation_p.E63D	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	63					multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		TGGGGAATGAATTCTCTCACC	0.418													5	48	---	---	---	---	PASS	C	59323210	C	C	59323210	3	2	9	1	0	0	0	0	1	0	0	0	13425	98	4	5	191	5	RNF111	15	59323210	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	35391355	59323210	43208182	163	5987										
KIF23	9493	broad.mit.edu	37	chr15	69715541	69715541	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cagatatgataactgtacaaGaattctgcaaagcagaagag	9	6	1	5			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr15:69715541G>C	uc002asb.2	+	7	724	c.607G>C	c.(607-609)GAA>CAA	p.E203Q	KIF23_uc002asc.2_Missense_Mutation_p.E203Q|KIF23_uc010bii.2_Missense_Mutation_p.E93Q|KIF23_uc010ukc.1_Missense_Mutation_p.E6Q|KIF23_uc010bih.1_RNA	NM_138555	NP_612565	Q02241	KIF23_HUMAN	kinesin family member 23 isoform 1	203	Kinesin-motor.				blood coagulation|cytokinesis|microtubule-based movement|mitosis|mitotic spindle elongation	cytosol|kinesin complex|microtubule|midbody|nucleoplasm|spindle	ATP binding|microtubule motor activity|protein binding				0						AACTGTACAAGAATTCTGCAA	0.284													29	60	---	---	---	---	PASS	C	69715541	C	C	69715541	3	2	9	1	0	0	0	0	1	0	0	0	8291	943	33	2	633	2	KIF23	15	69715541	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	10392331	69715541	32815851	164	5988										
BBS4	585	broad.mit.edu	37	chr15	73028217	73028217	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gtgctgctgtacaaccagggCgagaagaagaacgccctggc	14	11	0	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr15:73028217C>T	uc002avb.2	+	14	1201	c.1158C>T	c.(1156-1158)GGC>GGT	p.G386G	BBS4_uc010ukv.1_Silent_p.G374G|BBS4_uc002avc.2_Silent_p.G214G|BBS4_uc002avd.2_Silent_p.G394G	NM_033028	NP_149017	Q96RK4	BBS4_HUMAN	Bardet-Biedl syndrome 4	386	TPR 10.|Required for localization to centrosomes.				adult behavior|brain morphogenesis|cell cycle cytokinesis|centrosome organization|cerebral cortex development|convergent extension involved in gastrulation|dendrite development|fat cell differentiation|heart looping|hippocampus development|intracellular transport|maintenance of protein location in nucleus|melanosome transport|microtubule anchoring at centrosome|neural tube closure|nonmotile primary cilium assembly|photoreceptor cell maintenance|pigment granule aggregation in cell center|positive regulation of flagellum assembly|regulation of cilium beat frequency involved in ciliary motility|regulation of cytokinesis|regulation of lipid metabolic process|retina homeostasis|retinal rod cell development|sensory perception of smell|sensory processing|spermatid development|striatum development	BBSome|centriolar satellite|centriole|cilium membrane|microtubule basal body|motile cilium|nonmotile primary cilium|nucleus|pericentriolar material	alpha-tubulin binding|beta-tubulin binding|dynactin binding|microtubule motor activity				0						ACAACCAGGGCGAGAAGAAGA	0.483									Bardet-Biedl_syndrome				11	129	---	---	---	---	PASS	T	73028217	T	T	73028217	2	4	9	1	0	0	0	0	0	0	0	1	1339	755	27	1		1	BBS4	15	73028217	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	3312676	73028217	29503175	165	5989										
KIAA0430	9665	broad.mit.edu	37	chr16	15730188	15730188	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	acagcaactttcttgttctcCatgtactctttctgagaaaa	5	10	4	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr16:15730188C>A	uc002ddr.2	-	3	349	c.156G>T	c.(154-156)ATG>ATT	p.M52I	KIAA0430_uc002ddq.2_Missense_Mutation_p.M51I|KIAA0430_uc010uzv.1_Missense_Mutation_p.M51I|KIAA0430_uc010uzw.1_Missense_Mutation_p.M51I|KIAA0430_uc010uzx.1_Missense_Mutation_p.M51I	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	51						peroxisome	nucleotide binding|RNA binding				0						TCTTGTTCTCCATGTACTCTT	0.388													4	64	---	---	---	---	PASS	A	15730188	A	A	15730188	3	1	9	1	0	0	0	0	1	0	0	0	8177	594	21	3	5175	3	KIAA0430	16	15730188	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08		15730188	74624565	166	5990										
GTF3C1	2975	broad.mit.edu	37	chr16	27495561	27495561	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agataggcctgtgggtttttGactatgtagcgagctcttcg	13	7	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr16:27495561G>A	uc002dov.1	-	25	4012	c.3972C>T	c.(3970-3972)GTC>GTT	p.V1324V	GTF3C1_uc002dou.2_Silent_p.V1324V	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1324						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						GTGGGTTTTTGACTATGTAGC	0.488													22	67	---	---	---	---	PASS	A	27495561	A	A	27495561	2	1	9	1	0	0	0	0	0	0	0	1	6872	1277	45	2		2	GTF3C1	16	27495561	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	11765373	27495561	62859192	167	5991										
RNF40	9810	broad.mit.edu	37	chr16	30773931	30773931	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agggcccccggaaaagaagcTgagtcgtgaggagaagacca	15	9	0	5			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr16:30773931T>C	uc002dzq.2	+	2	188	c.65T>C	c.(64-66)CTG>CCG	p.L22P	C16orf93_uc002dzm.2_5'Flank|C16orf93_uc002dzn.2_5'Flank|C16orf93_uc002dzo.2_5'Flank|C16orf93_uc002dzp.2_5'Flank|RNF40_uc010caa.2_Missense_Mutation_p.L22P|RNF40_uc010cab.2_Missense_Mutation_p.L22P|RNF40_uc010vfa.1_Intron|RNF40_uc002dzr.2_Missense_Mutation_p.L22P|RNF40_uc010vfb.1_Missense_Mutation_p.L22P	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	22					histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			GAAAAGAAGCTGAGTCGTGAG	0.632													3	25	---	---	---	---	PASS	C	30773931	C	C	30773931	3	2	9	1	0	0	0	0	1	0	0	0	13493	1580	55	5	67	5	RNF40	16	30773931	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	3278370	30773931	59580822	168	5992										
ATP2C2	9914	broad.mit.edu	37	chr16	84492924	84492924	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctgtccaccgtgttcaacctGcccagccccctcaacgccat	6	20	2	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr16:84492924G>T	uc002fhx.2	+	23	2354	c.2265G>T	c.(2263-2265)CTG>CTT	p.L755L	ATP2C2_uc010chj.2_Silent_p.L755L|ATP2C2_uc002fhy.2_Silent_p.L772L|ATP2C2_uc002fhz.2_Silent_p.L604L|ATP2C2_uc002fia.2_5'Flank	NM_014861	NP_055676	O75185	AT2C2_HUMAN	ATPase, Ca++ transporting, type 2C, member 2	755	Helical; Name=6; (Potential).				ATP biosynthetic process	Golgi membrane|integral to membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			breast(1)|central_nervous_system(1)	2						TGTTCAACCTGCCCAGCCCCC	0.647													15	35	---	---	---	---	PASS	T	84492924	T	T	84492924	2	4	9	1	0	0	0	0	0	0	0	1	1144	1306	46	3		3	ATP2C2	16	84492924	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	53718993	84492924	5861829	169	5993										
IL17C	27189	broad.mit.edu	37	chr16	88705514	88705514	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tcggctgaggaactgcccctCggccaggcccccccacacct	10	20	0	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr16:88705514C>T	uc002fla.2	+	2	181	c.132C>T	c.(130-132)CTC>CTT	p.L44L		NM_013278	NP_037410	Q9P0M4	IL17C_HUMAN	interleukin 17C precursor	44					cell surface receptor linked signaling pathway|cell-cell signaling|inflammatory response	extracellular space|soluble fraction	cytokine activity				0				BRCA - Breast invasive adenocarcinoma(80;0.0477)		AACTGCCCCTCGGCCAGGCCC	0.687													23	17	---	---	---	---	PASS	T	88705514	T	T	88705514	2	4	9	1	0	0	0	0	0	0	0	1	7636	871	31	2		2	IL17C	16	88705514	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	4212590	88705514	1649239	170	5994										
RPL13	6137	broad.mit.edu	37	chr16	89628749	89628749	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tcattcaccaacaggctgaaGaactgaaactggccacccag	8	13	2	3	rs140485395		TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr16:89628749G>A	uc002fnm.1	+	5	478	c.427G>A	c.(427-429)GAA>AAA	p.E143K	RPL13_uc010vpj.1_Missense_Mutation_p.E96K|RPL13_uc002fnn.1_Missense_Mutation_p.E143K|RPL13_uc002fno.1_3'UTR	NM_000977	NP_000968	P26373	RL13_HUMAN	ribosomal protein L13	143					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic ribosome	protein binding|RNA binding|structural constituent of ribosome				0		all_hematologic(23;0.0748)		all cancers(4;1.15e-07)|OV - Ovarian serous cystadenocarcinoma(4;7.8e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0139)		ACAGGCTGAAGAACTGAAACT	0.562													22	14	---	---	---	---	PASS	A	89628749	A	A	89628749	3	1	9	1	0	0	0	0	1	0	0	0	13559	943	33	2	441	2	RPL13	16	89628749	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	923235	89628749	726004	171	5995										
OR1E2	8388	broad.mit.edu	37	chr17	3336248	3336248	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttcctcaggctgtagatgaaGggggtcagcataggggtcac	15	8	3	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:3336248G>T	uc010vre.1	-	1	888	c.888C>A	c.(886-888)CCC>CCA	p.P296P		NM_003554	NP_003545	P47887	OR1E2_HUMAN	olfactory receptor, family 1, subfamily E,	296	Helical; Name=7; (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			large_intestine(1)	1						TGTAGATGAAGGGGGTCAGCA	0.458													39	33	---	---	---	---	PASS	T	3336248	T	T	3336248	2	4	9	1	0	0	0	0	0	0	0	1	10955	987	35	3		3	OR1E2	17	3336248	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08		3336248	77858962	172	5996										
USP6	9098	broad.mit.edu	37	chr17	5048769	5048769	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tccatgggcagctaagatctCaagtcaaatgcaagacatgt	9	9	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:5048769C>G	uc002gau.1	+	27	4292	c.2062C>G	c.(2062-2064)CAA>GAA	p.Q688E	USP6_uc002gav.1_Missense_Mutation_p.Q688E|USP6_uc010ckz.1_Missense_Mutation_p.Q371E	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	688					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						GCTAAGATCTCAAGTCAAATG	0.378			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								28	35	---	---	---	---	PASS	G	5048769	G	G	5048769	3	3	9	1	0	0	0	0	1	0	0	0	17083	827	29	2	2132	2	USP6	17	5048769	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	1712521	5048769	76146441	173	5997										
TP53	7157	broad.mit.edu	37	chr17	7577092	7577092	+	Silent	SNP	C	G	G													0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agattctcttcctctgtgcgCcggtctctcccaggacaggc							TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:7577092C>G	uc002gim.2	-	8	1040	c.846G>C	c.(844-846)CGG>CGC	p.R282R	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Silent_p.R282R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Silent_p.R150R|TP53_uc010cng.1_Silent_p.R150R|TP53_uc002gii.1_Silent_p.R150R|TP53_uc010cnh.1_Silent_p.R282R|TP53_uc010cni.1_Silent_p.R282R|TP53_uc002gij.2_Silent_p.R282R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	282	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|DR -> EW (in sporadic cancers; somatic mutation).|R -> Q (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> H (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R282W(365)|p.R282G(26)|p.R282Q(20)|p.R282P(14)|p.R282R(8)|p.0?(7)|p.R282L(3)|p.R283fs*63(2)|p.D281fs*63(2)|p.?(2)|p.R282fs*24(2)|p.D281_R282>EW(2)|p.A276_R283delACPGRDRR(1)|p.R283del(1)|p.R282_E287delRRTEEE(1)|p.G279fs*59(1)|p.S269fs*21(1)|p.C275_R283delCACPGRDRR(1)|p.D281_R282insXX(1)|p.L265_K305del41(1)|p.R282H(1)|p.R283_T284>T(1)|p.V272_K292del21(1)|p.R282fs*63(1)|p.C275fs*20(1)|p.D281_R282delDR(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)		CCTCTGTGCGCCGGTCTCTCC	0.557		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	14	---	---	---	---	PASS	G	7577092	G	G	7577092	2	3	9	1	0	0	0	0	0	0	0	1	16378	726	26	4		4	TP53	17	7577092	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	2528323	7577092	73618118	174	5998	218	2								
TP53	7157	broad.mit.edu	37	chr17	7577093	7577093	+	Missense_Mutation	SNP	C	T	T													0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gattctcttcctctgtgcgcCggtctctcccaggacaggca							TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:7577093C>T	uc002gim.2	-	8	1039	c.845G>A	c.(844-846)CGG>CAG	p.R282Q	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R282Q|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R150Q|TP53_uc010cng.1_Missense_Mutation_p.R150Q|TP53_uc002gii.1_Missense_Mutation_p.R150Q|TP53_uc010cnh.1_Missense_Mutation_p.R282Q|TP53_uc010cni.1_Missense_Mutation_p.R282Q|TP53_uc002gij.2_Missense_Mutation_p.R282Q	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	282	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|DR -> EW (in sporadic cancers; somatic mutation).|R -> Q (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> H (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R282W(365)|p.R282G(26)|p.R282Q(21)|p.R282P(14)|p.R282R(8)|p.0?(7)|p.R282L(3)|p.D281fs*63(2)|p.?(2)|p.R282fs*24(2)|p.D281_R282>EW(2)|p.A276_R283delACPGRDRR(1)|p.R283fs*62(1)|p.R282_E287delRRTEEE(1)|p.G279fs*59(1)|p.S269fs*21(1)|p.C275_R283delCACPGRDRR(1)|p.D281_R282insXX(1)|p.L265_K305del41(1)|p.R282H(1)|p.R283_T284>T(1)|p.V272_K292del21(1)|p.R282fs*63(1)|p.C275fs*20(1)|p.D281_R282delDR(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)		CTCTGTGCGCCGGTCTCTCCC	0.557		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)			7	14	---	---	---	---	PASS	T	7577093	T	T	7577093	3	4	9	1	0	0	0	0	1	0	0	0	16378	652	23	1	441	1	TP53	17	7577093	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	1	7577093	73618117	175	5999	218	2								
PIGS	94005	broad.mit.edu	37	chr17	26885558	26885558	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	atgtccaaatagtagctggaGgaagctgagtcaaagcgggg	15	6	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:26885558G>A	uc002hbo.2	-	8	1243	c.870C>T	c.(868-870)TCC>TCT	p.S290S	PIGS_uc002hbn.2_Silent_p.S282S|PIGS_uc010wap.1_Silent_p.S229S	NM_033198	NP_149975	Q96S52	PIGS_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	290	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			breast(2)|urinary_tract(1)|kidney(1)	4	Lung NSC(42;0.00431)					AGTAGCTGGAGGAAGCTGAGT	0.458													5	24	---	---	---	---	PASS	A	26885558	A	A	26885558	2	1	9	1	0	0	0	0	0	0	0	1	11898	987	35	3		3	PIGS	17	26885558	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	19308465	26885558	54309652	176	6000										
RASL10B	91608	broad.mit.edu	37	chr17	34068269	34068269	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cgcccgttgcaagcacgtgcAcgctgccctgcgcttccagg	12	17	0	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:34068269A>G	uc002hju.2	+	4	923	c.557A>G	c.(556-558)CAC>CGC	p.H186R		NM_033315	NP_201572	Q96S79	RSLAB_HUMAN	RAS-like, family 10, member B precursor	186	Small GTPase-like.				small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			lung(2)|breast(2)	4				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		AAGCACGTGCACGCTGCCCTG	0.692													5	10	---	---	---	---	PASS	G	34068269	G	G	34068269	3	3	9	1	0	0	0	0	1	0	0	0	13080	159	6	5	567	5	RASL10B	17	34068269	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	7182711	34068269	47126941	177	6001										
DUSP14	11072	broad.mit.edu	37	chr17	35872857	35872857	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tggaggcaactgatagactaCgagcgccagctctttgggaa	13	9	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:35872857C>T	uc002hnx.2	+	3	777	c.483C>T	c.(481-483)TAC>TAT	p.Y161Y	DUSP14_uc002hny.2_Silent_p.Y148Y|DUSP14_uc002hnz.2_Silent_p.Y148Y	NM_007026	NP_008957	O95147	DUS14_HUMAN	dual specificity phosphatase 14	161							MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Breast(25;0.00637)|Ovarian(249;0.15)				TGATAGACTACGAGCGCCAGC	0.537													15	44	---	---	---	---	PASS	T	35872857	T	T	35872857	2	4	9	1	0	0	0	0	0	0	0	1	4814	547	19	1		1	DUSP14	17	35872857	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	1804588	35872857	45322353	178	6002										
WNK4	65266	broad.mit.edu	37	chr17	40948204	40948204	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gaaattgaagatttgtacagCcggctggggaagcagccccc	13	10	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:40948204C>A	uc002ibj.2	+	17	3516	c.3495C>A	c.(3493-3495)AGC>AGA	p.S1165R	WNK4_uc010wgx.1_Missense_Mutation_p.S829R|CCDC56_uc010wgz.1_Intron|CNTD1_uc002ibm.3_5'Flank|CNTD1_uc010wha.1_5'Flank	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	1165					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		ATTTGTACAGCCGGCTGGGGA	0.592													11	50	---	---	---	---	PASS	A	40948204	A	A	40948204	3	1	9	1	0	0	0	0	1	0	0	0	17377	738	26	3	3561	3	WNK4	17	40948204	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	5075347	40948204	40247006	179	6003										
HDAC5	10014	broad.mit.edu	37	chr17	42162413	42162413	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gcacttgctaagcaggcctgTctcctgcagccgggaccaga	12	14	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:42162413T>C	uc002ifd.1	-	15	2372	c.2161A>G	c.(2161-2163)ACA>GCA	p.T721A	HDAC5_uc002ife.1_Missense_Mutation_p.T721A|HDAC5_uc002iff.1_Missense_Mutation_p.T722A|HDAC5_uc010czp.1_Intron|HDAC5_uc002ifg.1_Missense_Mutation_p.T31A|HDAC5_uc002ifh.2_Missense_Mutation_p.T721A	NM_005474	NP_005465	Q9UQL6	HDAC5_HUMAN	histone deacetylase 5 isoform 1	721	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|chromatin remodeling|chromatin silencing|inflammatory response|negative regulation of cell migration involved in sprouting angiogenesis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			ovary(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.118)		AGCAGGCCTGTCTCCTGCAGC	0.552													14	40	---	---	---	---	PASS	C	42162413	C	C	42162413	3	2	9	1	0	0	0	0	1	0	0	0	7010	1667	58	5	1259	5	HDAC5	17	42162413	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	1214209	42162413	39032797	180	6004										
MRPL10	124995	broad.mit.edu	37	chr17	45901685	45901685	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gtggtcagctggaggggctgGtgctggagcagggagtgggt	23	5	1	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:45901685G>T	uc002ilz.2	-	5	698	c.672C>A	c.(670-672)CAC>CAA	p.H224Q	OSBPL7_uc002ilx.1_5'Flank|MRPL10_uc010wky.1_Missense_Mutation_p.H185Q|MRPL10_uc002ily.2_Missense_Mutation_p.H234Q	NM_145255	NP_660298	Q7Z7H8	RM10_HUMAN	mitochondrial ribosomal protein L10 precursor	224					ribosome biogenesis|translation	mitochondrial large ribosomal subunit	structural constituent of ribosome			ovary(1)	1						GGAGGGGCTGGTGCTGGAGCA	0.602													5	32	---	---	---	---	PASS	T	45901685	T	T	45901685	3	4	9	1	0	0	0	0	1	0	0	0	9775	1252	44	3	117	3	MRPL10	17	45901685	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	3739272	45901685	35293525	181	6005										
CDK5RAP3	80279	broad.mit.edu	37	chr17	46056209	46056209	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tggcagctccagaaggtgttGccaggggcccagatgccctg	15	12	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:46056209G>T	uc002imr.2	+	11	1087	c.1003G>T	c.(1003-1005)GCC>TCC	p.A335S	CDK5RAP3_uc010wlc.1_Missense_Mutation_p.A355S|CDK5RAP3_uc002imq.1_Missense_Mutation_p.A110S|CDK5RAP3_uc002imu.2_Missense_Mutation_p.A179S|CDK5RAP3_uc002ims.2_Missense_Mutation_p.A248S|CDK5RAP3_uc002imv.2_Missense_Mutation_p.A179S|CDK5RAP3_uc002imw.2_Missense_Mutation_p.A177S|CDK5RAP3_uc002imx.2_Missense_Mutation_p.A110S	NM_176096	NP_788276	Q96JB5	CK5P3_HUMAN	CDK5 regulatory subunit associated protein 3	335					brain development|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation		neuronal Cdc2-like kinase binding				0						AGAAGGTGTTGCCAGGGGCCC	0.517											OREG0024508	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	46	---	---	---	---	PASS	T	46056209	T	T	46056209	3	4	9	1	0	0	0	0	1	0	0	0	3147	1319	46	3	1045	3	CDK5RAP3	17	46056209	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	154524	46056209	35139001	182	6006										
UBE2Z	65264	broad.mit.edu	37	chr17	47004450	47004450	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agaaatggactctgatagcaGttcatctgggacagagacag	12	7	3	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:47004450G>T	uc002ioi.2	+	7	1118	c.1019G>T	c.(1018-1020)AGT>ATT	p.S340I		NM_023079	NP_075567	Q9H832	UBE2Z_HUMAN	ubiquitin-conjugating enzyme E2Z	340					apoptosis	cytoplasm|nucleus	ATP binding|ubiquitin-protein ligase activity				0						TCTGATAGCAGTTCATCTGGG	0.532													23	28	---	---	---	---	PASS	T	47004450	T	T	47004450	3	4	9	1	0	0	0	0	1	0	0	0	16875	1029	36	3	1045	3	UBE2Z	17	47004450	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	948241	47004450	34190760	183	6007										
MPO	4353	broad.mit.edu	37	chr17	56348128	56348128	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttgttcttagacacggtggtGatgcctgtgttgtcgcagat	13	7	1	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:56348128G>A	uc002ivu.1	-	12	2304	c.2127C>T	c.(2125-2127)ATC>ATT	p.I709I		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	709					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	ACACGGTGGTGATGCCTGTGT	0.547													13	22	---	---	---	---	PASS	A	56348128	A	A	56348128	2	1	9	1	0	0	0	0	0	0	0	1	9732	1280	45	2		2	MPO	17	56348128	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	9343678	56348128	24847082	184	6008										
NOL11	25926	broad.mit.edu	37	chr17	65720260	65720260	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gacgaaaactctgttataaaGagttttactgcatctgtaga	8	6	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:65720260G>C	uc002jgd.1	+	6	618	c.615G>C	c.(613-615)AAG>AAC	p.K205N	NOL11_uc010wql.1_Missense_Mutation_p.K23N|NOL11_uc010deu.1_5'UTR	NM_015462	NP_056277	Q9H8H0	NOL11_HUMAN	nucleolar protein 11	205						nucleolus					0	all_cancers(12;1.54e-10)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0518)|COAD - Colon adenocarcinoma(4;0.0977)|LUSC - Lung squamous cell carcinoma(166;0.24)			CTGTTATAAAGAGTTTTACTG	0.313													13	43	---	---	---	---	PASS	C	65720260	C	C	65720260	3	2	9	1	0	0	0	0	1	0	0	0	10521	933	33	2	637	2	NOL11	17	65720260	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	9372132	65720260	15474950	185	6009										
NARF	26502	broad.mit.edu	37	chr17	80442724	80442724	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ggaggacaaagtgacgcgtcAtgatggagccagctcagacg	15	9	2	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr17:80442724A>G	uc002kfg.3	+	9	1009	c.869A>G	c.(868-870)CAT>CGT	p.H290R	NARF_uc002kff.3_Missense_Mutation_p.H231R|NARF_uc010wvp.1_3'UTR|NARF_uc010dit.2_Missense_Mutation_p.H336R|NARF_uc002kfj.3_Missense_Mutation_p.H242R|NARF_uc002kfi.3_RNA|NARF_uc002kfh.3_Missense_Mutation_p.H336R|NARF_uc002kfk.2_RNA	NM_012336	NP_036468	Q9UHQ1	NARF_HUMAN	nuclear prelamin A recognition factor isoform a	290						lamin filament	lamin binding			skin(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			GTGACGCGTCATGATGGAGCC	0.517													25	23	---	---	---	---	PASS	G	80442724	G	G	80442724	3	3	9	1	0	0	0	0	1	0	0	0	10167	217	8	5	1045	5	NARF	17	80442724	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	14722464	80442724	752486	186	6010										
ASXL3	80816	broad.mit.edu	37	chr18	31324466	31324466	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	caaaacaagacagtaaaacaTtgccggccacctgcacaagt	7	12	0	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr18:31324466T>C	uc010dmg.1	+	12	4709	c.4654T>C	c.(4654-4656)TTG>CTG	p.L1552L	ASXL3_uc002kxq.2_Silent_p.L1259L	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1552					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CAGTAAAACATTGCCGGCCAC	0.493											OREG0024911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	24	---	---	---	---	PASS	C	31324466	C	C	31324466	2	2	9	1	0	0	0	0	0	0	0	1	1068	1490	52	5		5	ASXL3	18	31324466	Silent	SNP	T	TCGA-18-3415-01A-01D-0983-08		31324466	46752782	187	6011										
SLC14A2	8170	broad.mit.edu	37	chr18	43219767	43219767	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tatggctgtgacaatccctgGacaggcggcgtgttcctggt	14	10	0	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr18:43219767G>T	uc010dnj.2	+	8	1221	c.900G>T	c.(898-900)TGG>TGT	p.W300C	SLC14A2_uc002lbb.2_Missense_Mutation_p.W300C|SLC14A2_uc002lbe.2_Missense_Mutation_p.W300C	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	300						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						ACAATCCCTGGACAGGCGGCG	0.547													10	65	---	---	---	---	PASS	T	43219767	T	T	43219767	3	4	9	1	0	0	0	0	1	0	0	0	14397	1183	41	2	922	2	SLC14A2	18	43219767	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	11895301	43219767	34857481	188	6012										
PIAS2	9063	broad.mit.edu	37	chr18	44470757	44470757	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tggattccagccacggccaaGtcaggttctacaggtgatga	12	10	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr18:44470757G>A	uc002lck.2	-	2	443	c.285C>T	c.(283-285)GAC>GAT	p.D95D	PIAS2_uc010dnp.2_5'UTR|PIAS2_uc002lcl.2_Silent_p.D95D|PIAS2_uc010xda.1_Intron|PIAS2_uc002lcm.2_Silent_p.D95D|PIAS2_uc002lcn.1_Silent_p.D99D	NM_004671	NP_004662	O75928	PIAS2_HUMAN	protein inhibitor of activated STAT X isoform	95					androgen receptor signaling pathway|negative regulation of androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|PML body	androgen receptor binding|DNA binding|protein binding|SUMO ligase activity|transcription coactivator activity|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						CCACGGCCAAGTCAGGTTCTA	0.483													14	25	---	---	---	---	PASS	A	44470757	A	A	44470757	2	1	9	1	0	0	0	0	0	0	0	1	11876	1020	36	3		3	PIAS2	18	44470757	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	1250990	44470757	33606491	189	6013										
CCBE1	147372	broad.mit.edu	37	chr18	57103325	57103325	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cagctcagtgatgtcattgcGgatgtcagccagcataagta	11	9	3	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr18:57103325G>A	uc002lib.2	-	11	1106	c.1036C>T	c.(1036-1038)CGC>TGC	p.R346C	CCBE1_uc010dpq.2_Missense_Mutation_p.R75C|CCBE1_uc002lia.2_Missense_Mutation_p.R199C	NM_133459	NP_597716	Q6UXH8	CCBE1_HUMAN	collagen and calcium binding EGF domains 1	346					lymphangiogenesis|sprouting angiogenesis|venous blood vessel morphogenesis	collagen	calcium ion binding			skin(2)|ovary(1)	3		Colorectal(73;0.175)				ATGTCATTGCGGATGTCAGCC	0.522													32	103	---	---	---	---	PASS	A	57103325	A	A	57103325	3	1	9	1	0	0	0	0	1	0	0	0	2731	1116	39	1	188	1	CCBE1	18	57103325	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	12632568	57103325	20973923	190	6014										
ZNF554	115196	broad.mit.edu	37	chr19	2834406	2834406	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgcgggaaagccttcaacagGatctcatcgctgactcagca	10	12	3	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr19:2834406G>C	uc002lwm.2	+	5	1371	c.1173G>C	c.(1171-1173)AGG>AGC	p.R391S	ZNF554_uc002lwl.2_Missense_Mutation_p.R340S	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	391	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTTCAACAGGATCTCATCGC	0.542													11	44	---	---	---	---	PASS	C	2834406	C	C	2834406	3	2	9	1	0	0	0	0	1	0	0	0	17982	1165	41	2	1191	2	ZNF554	19	2834406	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08		2834406	56294577	191	6015										
LRG1	116844	broad.mit.edu	37	chr19	4538952	4538952	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ttctagaaacatggggttgaAtgccccctgggctgcaggca	13	10	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr19:4538952A>G	uc002mau.2	-	2	55	c.44T>C	c.(43-45)ATT>ACT	p.I15T	PLIN5_uc002mat.1_Intron	NM_052972	NP_443204	P02750	A2GL_HUMAN	leucine-rich alpha-2-glycoprotein 1 precursor	15						extracellular region|membrane				ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		ATGGGGTTGAATGCCCCCTGG	0.468													21	42	---	---	---	---	PASS	G	4538952	G	G	4538952	3	3	9	1	0	0	0	0	1	0	0	0	8942	101	4	5	1003	5	LRG1	19	4538952	Missense_Mutation	SNP	A	TCGA-18-3415-01A-01D-0983-08	1704546	4538952	54590031	192	6016										
MUC16	94025	broad.mit.edu	37	chr19	9091636	9091636	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gactggccaaggtcttatctGgggaagtaaagggcagagta	15	6	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr19:9091636G>A	uc002mkp.2	-	1	383	c.179C>T	c.(178-180)CCA>CTA	p.P60L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	60	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTCTTATCTGGGGAAGTAAA	0.512													48	38	---	---	---	---	PASS	A	9091636	A	A	9091636	3	1	9	1	0	0	0	0	1	0	0	0	9973	1348	47	3	43680	3	MUC16	19	9091636	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	4552684	9091636	50037347	193	6017										
ZNF562	54811	broad.mit.edu	37	chr19	9763810	9763810	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	atagggtttctctccagtgtGatttcgtatgtgtatagcaa	10	6	1	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr19:9763810G>C	uc010xks.1	-	6	1259	c.1096C>G	c.(1096-1098)CAC>GAC	p.H366D	ZNF562_uc002mly.2_Missense_Mutation_p.H366D|ZNF562_uc002mlx.2_Missense_Mutation_p.H294D|ZNF562_uc010xkt.1_Missense_Mutation_p.H329D|ZNF562_uc010xku.1_Missense_Mutation_p.H297D|ZNF562_uc010xkv.1_Missense_Mutation_p.H365D|ZNF562_uc010xkw.1_Missense_Mutation_p.H250D	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	366	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTCCAGTGTGATTTCGTATG	0.428													16	73	---	---	---	---	PASS	C	9763810	C	C	9763810	3	2	9	1	0	0	0	0	1	0	0	0	17990	1290	45	2	188	2	ZNF562	19	9763810	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	672174	9763810	49365173	194	6018										
ZNF562	54811	broad.mit.edu	37	chr19	9763923	9763923	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	catgttgagtaaggtgagttGatctagtgaaggctttccca	12	6	1	4			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr19:9763923G>C	uc010xks.1	-	6	1146	c.983C>G	c.(982-984)TCA>TGA	p.S328*	ZNF562_uc002mly.2_Nonsense_Mutation_p.S328*|ZNF562_uc002mlx.2_Nonsense_Mutation_p.S256*|ZNF562_uc010xkt.1_Nonsense_Mutation_p.S291*|ZNF562_uc010xku.1_Nonsense_Mutation_p.S259*|ZNF562_uc010xkv.1_Nonsense_Mutation_p.S327*|ZNF562_uc010xkw.1_Nonsense_Mutation_p.S212*	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	328	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAGGTGAGTTGATCTAGTGAA	0.398													18	74	---	---	---	---	PASS	C	9763923	C	C	9763923	4	2	9	1	0	0	0	0	0	1	0	0	17990	1294	45	2	301	2	ZNF562	19	9763923	Nonsense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	113	9763923	49365060	195	6019										
ZNF20	7568	broad.mit.edu	37	chr19	12243726	12243726	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	aatgcttttccacattgcttAcattcatggggcttctctcc	6	12	2	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr19:12243726A>G	uc002mtf.1	-	4	1418	c.1275T>C	c.(1273-1275)TGT>TGC	p.C425C	ZNF20_uc002mte.1_Silent_p.C390C|ZNF20_uc002mtg.1_Silent_p.C425C	NM_021143	NP_066966	P17024	ZNF20_HUMAN	zinc finger protein 20	425	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACATTGCTTACATTCATGGG	0.403													24	43	---	---	---	---	PASS	G	12243726	G	G	12243726	2	3	9	1	0	0	0	0	0	0	0	1	17758	389	14	5		5	ZNF20	19	12243726	Silent	SNP	A	TCGA-18-3415-01A-01D-0983-08	2479803	12243726	46885257	196	6020										
ZNF100	163227	broad.mit.edu	37	chr19	21910559	21910559	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gaatttgaaaatgtatgaaaGacttttgcagatggatcaca	9	4	1	4			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr19:21910559G>T	uc002nqi.2	-	5	754	c.555C>A	c.(553-555)GTC>GTA	p.V185V	ZNF100_uc002nqh.2_Silent_p.V121V	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	185	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGTATGAAAGACTTTTGCAG	0.303													8	95	---	---	---	---	PASS	T	21910559	T	T	21910559	2	4	9	1	0	0	0	0	0	0	0	1	17710	929	33	2		2	ZNF100	19	21910559	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	9666833	21910559	37218424	197	6021										
LSR	51599	broad.mit.edu	37	chr19	35757275	35757275	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctcacagtgtatgccgccggCaaagcagccacctcaggtgt	11	14	2	0			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr19:35757275C>A	uc002nyl.2	+	6	1159	c.936C>A	c.(934-936)GGC>GGA	p.G312G	LSR_uc002nym.2_Silent_p.G293G|LSR_uc002nyn.2_Silent_p.G244G|LSR_uc002nyo.2_Silent_p.G293G|LSR_uc010xsr.1_Silent_p.G204G|LSR_uc002nyp.2_Silent_p.G275G|USF2_uc010xss.1_5'Flank|USF2_uc002nyq.1_5'Flank|USF2_uc002nyr.1_5'Flank|USF2_uc002nys.1_5'Flank|USF2_uc002nyt.1_5'Flank	NM_205834	NP_991403	Q86X29	LSR_HUMAN	lipolysis stimulated lipoprotein receptor	312	Cytoplasmic (Potential).				embryo development|liver development	chylomicron|integral to membrane|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle	receptor activity				0	all_lung(56;3.91e-09)|Lung NSC(56;5.64e-09)|Esophageal squamous(110;0.162)		Epithelial(14;1.33e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.29e-18)|all cancers(14;7.11e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			ATGCCGCCGGCAAAGCAGCCA	0.617													4	73	---	---	---	---	PASS	A	35757275	A	A	35757275	2	1	9	1	0	0	0	0	0	0	0	1	9064	697	25	3		3	LSR	19	35757275	Silent	SNP	C	TCGA-18-3415-01A-01D-0983-08	13846716	35757275	23371708	198	6022										
ZNF473	25888	broad.mit.edu	37	chr19	50550136	50550136	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	agaattcacacaggggagaaGccttactcctgtaatgtgtg	11	8	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr19:50550136G>A	uc002prn.2	+	5	2673	c.2436G>A	c.(2434-2436)AAG>AAA	p.K812K	ZNF473_uc002prm.2_Silent_p.K812K|ZNF473_uc010ybo.1_Silent_p.K800K	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	812					histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		CAGGGGAGAAGCCTTACTCCT	0.493											OREG0025632	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	46	---	---	---	---	PASS	A	50550136	A	A	50550136	2	1	9	1	0	0	0	0	0	0	0	1	17928	962	34	3		3	ZNF473	19	50550136	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	14792861	50550136	8578847	199	6023										
LILRA2	11027	broad.mit.edu	37	chr19	55086982	55086982	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cacaacctctcctccgagtgGtcggcccccagtgaccccct	8	20	1	1	rs143337690		TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr19:55086982G>T	uc002qgg.3	+	5	1004	c.915G>T	c.(913-915)TGG>TGT	p.W305C	LILRA2_uc010ern.2_Missense_Mutation_p.W305C|LILRA2_uc002qgf.2_Missense_Mutation_p.W305C|LILRA2_uc010yfe.1_Missense_Mutation_p.W305C|LILRA2_uc010yff.1_Missense_Mutation_p.W293C|LILRA2_uc010ero.2_Missense_Mutation_p.W293C|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	305	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)		CCTCCGAGTGGTCGGCCCCCA	0.672													4	55	---	---	---	---	PASS	T	55086982	T	T	55086982	3	4	9	1	0	0	0	0	1	0	0	0	8785	1270	44	3	933	3	LILRA2	19	55086982	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	4536846	55086982	4042001	200	6024										
KIR2DL3	3804	broad.mit.edu	37	chr19	55255266	55255266	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tatatgagaaaccttctctcTcagcccagccgggccccacg	8	16	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr19:55255266T>G	uc002qgv.2	+	4	412	c.394T>G	c.(394-396)TCA>GCA	p.S132A	KIR2DL3_uc002qgx.2_Missense_Mutation_p.S132A|KIR2DL3_uc002qgy.2_Intron|KIR2DL3_uc010erw.1_Missense_Mutation_p.S132A|KIR2DL1_uc002qgz.1_Missense_Mutation_p.S42A|KIR2DL3_uc002qha.1_Intron	NM_015868	NP_056952	P43628	KI2L3_HUMAN	killer cell immunoglobulin-like receptor, two	132	Extracellular (Potential).				immune response|regulation of immune response	integral to plasma membrane	antigen binding|protein binding|receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		ACCTTCTCTCTCAGCCCAGCC	0.562													41	21	---	---	---	---	PASS	G	55255266	G	G	55255266	3	3	9	1	0	0	0	0	1	0	0	0	8317	1551	54	5	408	5	KIR2DL3	19	55255266	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	168284	55255266	3873717	201	6025										
PLCB1	23236	broad.mit.edu	37	chr20	8707972	8707972	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tcagaaagaaataaaagtttTgaaatgtcttccttcgtgga	8	5	2	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr20:8707972T>C	uc002wnb.2	+	17	1698	c.1695T>C	c.(1693-1695)TTT>TTC	p.F565F	PLCB1_uc010zrb.1_Silent_p.F464F|PLCB1_uc002wna.2_Silent_p.F565F|PLCB1_uc002wnc.1_Silent_p.F464F|PLCB1_uc002wnd.1_Silent_p.F142F	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	565	PI-PLC Y-box.				activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						ATAAAAGTTTTGAAATGTCTT	0.328													5	37	---	---	---	---	PASS	C	8707972	C	C	8707972	2	2	9	1	0	0	0	0	0	0	0	1	12027	1809	63	5		5	PLCB1	20	8707972	Silent	SNP	T	TCGA-18-3415-01A-01D-0983-08		8707972	54317548	202	6026										
MYH7B	57644	broad.mit.edu	37	chr20	33572514	33572514	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gcaatttctggcaacaaagaCgggggtgagtatggggccaa	15	7	1	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr20:33572514C>T	uc002xbi.1	+	9	862	c.770C>T	c.(769-771)ACG>ATG	p.T257M		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	215	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			GCAACAAAGACGGGGGTGAGT	0.647													6	33	---	---	---	---	PASS	T	33572514	T	T	33572514	3	4	9	1	0	0	0	0	1	0	0	0	10040	536	19	1	804	1	MYH7B	20	33572514	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	24864542	33572514	29453006	203	6027										
UQCC	55245	broad.mit.edu	37	chr20	33894581	33894581	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	catgatcatctgaaaggatcCcctggaacatacagcacagc	8	12	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr20:33894581C>A	uc002xcd.2	-	9	720	c.653G>T	c.(652-654)GGG>GTG	p.G218V	UQCC_uc010zuy.1_Missense_Mutation_p.G119V|UQCC_uc010zuz.1_Missense_Mutation_p.G63V|UQCC_uc010zva.1_Missense_Mutation_p.G81V|UQCC_uc002xce.2_Missense_Mutation_p.G191V|UQCC_uc002xcg.2_Missense_Mutation_p.G84V|UQCC_uc010gfb.2_Missense_Mutation_p.G192V|UQCC_uc010zvb.1_Missense_Mutation_p.G150V|UQCC_uc002xcf.2_Missense_Mutation_p.G106V|UQCC_uc002xch.2_5'Flank|UQCC_uc002xcc.2_Missense_Mutation_p.G31V	NM_018244	NP_060714	Q9NVA1	UQCC_HUMAN	basic FGF-repressed Zic binding protein isoform	218						cytoplasmic membrane-bounded vesicle				breast(1)	1			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TGAAAGGATCCCCTGGAACAT	0.522											OREG0025889	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	28	---	---	---	---	PASS	A	33894581	A	A	33894581	3	1	9	1	0	0	0	0	1	0	0	0	17012	637	22	3	254	3	UQCC	20	33894581	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	322067	33894581	29130939	204	6028										
SERINC3	10955	broad.mit.edu	37	chr20	43129878	43129878	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctggtagttgtatcaccaagGatgacgctgtcactccctga	10	11	2	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr20:43129878G>A	uc002xme.2	-	9	1253	c.1119C>T	c.(1117-1119)ATC>ATT	p.I373I	SERINC3_uc002xmf.1_Silent_p.I373I|SERINC3_uc010ggs.1_Silent_p.I366I|SERINC3_uc010zwp.1_Silent_p.I318I	NM_198941	NP_945179	Q13530	SERC3_HUMAN	tumor differentially expressed protein 1	373	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			skin(3)	3		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.000291)|COAD - Colon adenocarcinoma(18;0.00189)			TATCACCAAGGATGACGCTGT	0.517													15	35	---	---	---	---	PASS	A	43129878	A	A	43129878	2	1	9	1	0	0	0	0	0	0	0	1	14081	1164	41	2		2	SERINC3	20	43129878	Silent	SNP	G	TCGA-18-3415-01A-01D-0983-08	9235297	43129878	19895642	205	6029										
SON	6651	broad.mit.edu	37	chr21	34927341	34927341	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gagtcggagtcatactccaaGtcgtcgacgaaggtctagat	12	9	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr21:34927341G>A	uc002yse.1	+	3	5853	c.5804G>A	c.(5803-5805)AGT>AAT	p.S1935N	SON_uc002ysb.1_Missense_Mutation_p.S1935N|SON_uc002ysc.2_Missense_Mutation_p.S1935N|SON_uc002ysd.2_Missense_Mutation_p.S926N|SON_uc002ysf.1_Intron|SON_uc002ysg.2_Missense_Mutation_p.S926N	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	1935	2 X 19 AA repeats of P-S-R-R-R-R-S-R-S-V- V-R-R-R-S-F-S-I-S.|3-1.|7 X 7 AA repeats of P-S-R-R-S-R-[TS].				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						CATACTCCAAGTCGTCGACGA	0.373													7	51	---	---	---	---	PASS	A	34927341	A	A	34927341	3	1	9	1	0	0	0	0	1	0	0	0	14926	1029	36	3	5814	3	SON	21	34927341	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08		34927341	13202554	206	6030										
SETD4	54093	broad.mit.edu	37	chr21	37408483	37408483	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	gagaatctttagctcttccgTccacaaggattccaccaaag	7	12	2	1			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr21:37408483T>A	uc002yuw.1	-	10	2628	c.1255A>T	c.(1255-1257)ACG>TCG	p.T419S	SETD4_uc002yux.1_Missense_Mutation_p.T395S|SETD4_uc002yuu.2_RNA|SETD4_uc002yuv.2_Missense_Mutation_p.T419S	NM_017438	NP_059134	Q9NVD3	SETD4_HUMAN	SET domain containing 4 isoform a	419				EILVKYLPSTDKQMDKKISILKDHGYIENLTFGWDGPSWRL LTALKLLCLEAEKFTCWKKVLLGEVISDTNEKTSLDIAQKI CYYFIEETNAVLQKVSHMKDEKEALINQLTLVESLWTEELK ILRASAETLHSLQTAFT -> GWNQLCS (in Ref. 5; AAH02898).						large_intestine(1)|ovary(1)	2						AGCTCTTCCGTCCACAAGGAT	0.408													41	63	---	---	---	---	PASS	A	37408483	A	A	37408483	3	1	9	1	0	0	0	0	1	0	0	0	14133	1667	58	5	71	5	SETD4	21	37408483	Missense_Mutation	SNP	T	TCGA-18-3415-01A-01D-0983-08	2481142	37408483	10721412	207	6031										
FAM3B	54097	broad.mit.edu	37	chr21	42720533	42720533	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	ctgcagactgaataacgatgCcaagaatgccatagaagcac	9	10	0	4			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr21:42720533C>G	uc002yzb.1	+	7	646	c.500C>G	c.(499-501)GCC>GGC	p.A167G	FAM3B_uc002yza.2_RNA|FAM3B_uc002yzc.1_Missense_Mutation_p.A119G|FAM3B_uc002yzd.1_Missense_Mutation_p.A190G	NM_058186	NP_478066	P58499	FAM3B_HUMAN	family with sequence similarity 3, member B	167					apoptosis|insulin secretion	extracellular space	cytokine activity				0		Prostate(19;1.57e-07)|all_epithelial(19;0.0404)				AATAACGATGCCAAGAATGCC	0.468													8	36	---	---	---	---	PASS	G	42720533	G	G	42720533	3	3	9	1	0	0	0	0	1	0	0	0	5557	739	26	4	526	4	FAM3B	21	42720533	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08	5312050	42720533	5409362	208	6032										
XRCC6	2547	broad.mit.edu	37	chr22	42032651	42032651	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tctgtgccaacctctttagtGatgtccaattcaagatgagt	8	9	3	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chr22:42032651G>A	uc003bao.1	+	5	536	c.466G>A	c.(466-468)GAT>AAT	p.D156N	XRCC6_uc003bap.1_Missense_Mutation_p.D115N|XRCC6_uc011apc.1_Missense_Mutation_p.D106N|XRCC6_uc003baq.1_Missense_Mutation_p.D156N|XRCC6_uc003bar.1_Missense_Mutation_p.D156N|XRCC6_uc003bas.1_Missense_Mutation_p.D106N	NM_001469	NP_001460	P12956	XRCC6_HUMAN	ATP-dependent DNA helicase II, 70 kDa subunit	156					DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5						CCTCTTTAGTGATGTCCAATT	0.507								Direct_reversal_of_damage|NHEJ					7	64	---	---	---	---	PASS	A	42032651	A	A	42032651	3	1	9	1	0	0	0	0	1	0	0	0	17454	1290	45	2	480	2	XRCC6	22	42032651	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08		42032651	9271915	209	6033										
MXRA5	25878	broad.mit.edu	37	chrX	3248704	3248704	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	cctgaagagagctgaggtctCttaaagctccatcggggatg	13	9	1	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chrX:3248704C>A	uc004crg.3	-	3	456	c.299G>T	c.(298-300)AGA>ATA	p.R100I		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	100	LRR 2.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GCTGAGGTCTCTTAAAGCTCC	0.438													4	45	---	---	---	---	PASS	A	3248704	A	A	3248704	3	1	9	1	0	0	0	0	1	0	0	0	10003	913	32	2	8207	2	MXRA5	23	3248704	Missense_Mutation	SNP	C	TCGA-18-3415-01A-01D-0983-08		3248704	152021856	210	6034										
ZNF711	7552	broad.mit.edu	37	chrX	84526736	84526736	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	tgatatcaatacatacaaaaGactatccacacaggtgtgaa	6	8	1	3			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chrX:84526736G>A	uc004eeo.2	+	9	2535	c.2188G>A	c.(2188-2190)GAC>AAC	p.D730N	ZNF711_uc004eep.2_Missense_Mutation_p.D730N|ZNF711_uc004eeq.2_Missense_Mutation_p.D776N|ZNF711_uc011mqy.1_Missense_Mutation_p.D329N	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	730					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						ACATACAAAAGACTATCCACA	0.388													5	56	---	---	---	---	PASS	A	84526736	A	A	84526736	3	1	9	1	0	0	0	0	1	0	0	0	18113	942	33	2	2214	2	ZNF711	23	84526736	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	81278032	84526736	70743824	211	6035										
ALG13	79868	broad.mit.edu	37	chrX	110970887	110970887	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.204761904761905	43	2.0126516172665e-09	2.66935435254401	3.83331700626959	2.15203761755486	0.431887667001096	0.801770950033723	27	atgagttgtgtgaataaggaGtcccagtatggatttacccc	11	7	0	2			TCGA-18-3415-01A-01D-0983-08	TCGA-18-3415-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad0365d1-10b1-41e6-b838-9c5794b9ad42	f060d74c-e8d1-4498-b733-232465202974	g.chrX:110970887G>T	uc011msy.1	+	18	2170	c.2136G>T	c.(2134-2136)GAG>GAT	p.E712D	ALG13_uc011msx.1_Missense_Mutation_p.E608D|ALG13_uc011msz.1_Missense_Mutation_p.E634D|ALG13_uc011mta.1_Missense_Mutation_p.E608D|ALG13_uc011mtb.1_Missense_Mutation_p.E608D			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	712					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						TGAATAAGGAGTCCCAGTATG	0.383													22	9	---	---	---	---	PASS	T	110970887	T	T	110970887	3	4	9	1	0	0	0	0	1	0	0	0	515	1020	36	3	2348	3	ALG13	23	110970887	Missense_Mutation	SNP	G	TCGA-18-3415-01A-01D-0983-08	26444151	110970887	44299673	212	6036										
AGRN	375790	broad.mit.edu	37	chr1	977425	977425	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcgaccgcgtcacctgtgacGgggcctacaggcccgtgtgt	15	14	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:977425G>T	uc001ack.1	+	7	1317	c.1267G>T	c.(1267-1269)GGG>TGG	p.G423W		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	423	Kazal-like 4.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		CACCTGTGACGGGGCCTACAG	0.697													17	4	---	---	---	---	PASS	T	977425	T	T	977425	3	4	10	1	0	0	0	0	1	0	0	0	397	1116	39	1	1293	1	AGRN	1	977425	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08		977425	248273196	1	6037										
CCNL2	81669	broad.mit.edu	37	chr1	1325625	1325625	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctcacccagcttgggggcagGagagaaccccgaggtaccat	13	13	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:1325625G>C	uc001afi.2	-	8	1023	c.991C>G	c.(991-993)CCT>GCT	p.P331A	CCNL2_uc010nym.1_RNA|CCNL2_uc001aff.1_Missense_Mutation_p.P109A|CCNL2_uc001afg.1_Missense_Mutation_p.P109A|CCNL2_uc001afh.2_3'UTR|CCNL2_uc001afj.2_3'UTR|CCNL2_uc001afk.2_3'UTR	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A	331					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		TTGGGGGCAGGAGAGAACCCC	0.587													6	70	---	---	---	---	PASS	C	1325625	C	C	1325625	3	2	10	1	0	0	0	0	1	0	0	0	2932	1174	41	2	587	2	CCNL2	1	1325625	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	348200	1325625	247924996	2	6038										
CCNL2	81669	broad.mit.edu	37	chr1	1325636	1325636	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgggggcaggagagaaccccGaggtaccatccagcacctgt	14	12	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:1325636G>A	uc001afi.2	-	8	1012	c.980C>T	c.(979-981)TCG>TTG	p.S327L	CCNL2_uc010nym.1_RNA|CCNL2_uc001aff.1_Missense_Mutation_p.S105L|CCNL2_uc001afg.1_Missense_Mutation_p.S105L|CCNL2_uc001afh.2_3'UTR|CCNL2_uc001afj.2_3'UTR|CCNL2_uc001afk.2_3'UTR	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A	327					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		AGAGAACCCCGAGGTACCATC	0.592													8	72	---	---	---	---	PASS	A	1325636	A	A	1325636	3	1	10	1	0	0	0	0	1	0	0	0	2932	1059	37	2	598	2	CCNL2	1	1325636	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	11	1325636	247924985	3	6039										
CDK11A	728642	broad.mit.edu	37	chr1	1636454	1636454	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atcttcagccgctttagagcCacaatttcatctgtgaagaa	7	10	4	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:1636454C>A	uc009vks.2	-	13	1455	c.1347G>T	c.(1345-1347)GTG>GTT	p.V449V	CDK11B_uc001ags.1_Intron|CDK11B_uc001agt.1_Intron|CDK11B_uc001aha.1_Intron|CDK11B_uc001agw.1_Intron|CDK11B_uc001agv.1_Intron|CDK11B_uc001agy.1_Intron|CDK11B_uc001agx.1_Intron|CDK11B_uc001agz.1_Intron|SLC35E2B_uc001ahh.3_Intron|SLC35E2_uc009vkm.1_Intron|CDK11A_uc001ahj.3_5'UTR|CDK11A_uc009vkp.2_Silent_p.V66V|CDK11A_uc009vkq.2_RNA|CDK11A_uc009vkr.2_Silent_p.V439V|CDK11A_uc010nys.1_Silent_p.V439V|CDK11A_uc010nyt.1_Silent_p.V449V	NM_024011	NP_076916	Q9UQ88	CD11A_HUMAN	cell division cycle 2-like 2 isoform 1	452	Protein kinase.				apoptosis|mitosis|regulation of cell growth|regulation of mRNA processing|regulation of transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity|protein binding			stomach(1)	1						GCTTTAGAGCCACAATTTCAT	0.532													6	129	---	---	---	---	PASS	A	1636454	A	A	1636454	2	1	10	1	0	0	0	0	0	0	0	1	3126	581	21	3		3	CDK11A	1	1636454	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	310818	1636454	247614167	4	6040										
CHD5	26038	broad.mit.edu	37	chr1	6206373	6206373	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agggggtccttgttcttcctCttctcgctcttgccgtcttc	9	14	5	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:6206373C>A	uc001amb.1	-	11	1801	c.1701G>T	c.(1699-1701)AAG>AAT	p.K567N	CHD5_uc001ama.1_5'Flank|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	567					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		TGTTCTTCCTCTTCTCGCTCT	0.527													5	52	---	---	---	---	PASS	A	6206373	A	A	6206373	3	1	10	1	0	0	0	0	1	0	0	0	3328	912	32	2	4287	2	CHD5	1	6206373	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	4569919	6206373	243044248	5	6041										
TNFRSF9	3604	broad.mit.edu	37	chr1	7995201	7995201	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagactttccatccaaagaaCagcttagacagttcaatgaa	6	10	1	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:7995201C>A	uc001aot.2	-	6	544	c.416G>T	c.(415-417)TGT>TTT	p.C139F		NM_001561	NP_001552	Q07011	TNR9_HUMAN	tumor necrosis factor receptor superfamily,	139	Extracellular (Potential).|TNFR-Cys 4.				induction of apoptosis|negative regulation of cell proliferation	integral to plasma membrane	binding|receptor activity			large_intestine(1)|lung(1)|ovary(1)|skin(1)	4	Ovarian(185;0.0634)|all_lung(157;0.151)	all_epithelial(116;9.63e-21)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.000625)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.93e-71)|GBM - Glioblastoma multiforme(8;3.72e-37)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;7.71e-06)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000419)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00103)|READ - Rectum adenocarcinoma(331;0.0649)		ATCCAAAGAACAGCTTAGACA	0.433													5	32	---	---	---	---	PASS	A	7995201	A	A	7995201	3	1	10	1	0	0	0	0	1	0	0	0	16297	478	17	3	363	3	TNFRSF9	1	7995201	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1788828	7995201	241255420	6	6042										
PTCHD2	57540	broad.mit.edu	37	chr1	11589653	11589653	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cccacaagccccccttccacGggcgcgtatgcatggcaccc	9	20	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:11589653G>C	uc001ash.3	+	14	2977	c.2839G>C	c.(2839-2841)GGG>CGG	p.G947R		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	947	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CCCCTTCCACGGGCGCGTATG	0.627													8	41	---	---	---	---	PASS	C	11589653	C	C	11589653	3	2	10	1	0	0	0	0	1	0	0	0	12733	1116	39	4	2889	4	PTCHD2	1	11589653	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	3594452	11589653	237660968	7	6043										
MUL1	79594	broad.mit.edu	37	chr1	20827489	20827489	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atgaagaagagggtggcacaTgtggcaaagccaaaaaccag	13	7	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:20827489T>A	uc001bdi.3	-	4	910	c.753A>T	c.(751-753)ACA>ACT	p.T251T		NM_024544	NP_078820	Q969V5	MUL1_HUMAN	mitochondrial ubiquitin ligase activator of NFKB	251	Helical; (Potential).				activation of caspase activity|activation of JUN kinase activity|induction of apoptosis|mitochondrial fission|mitochondrion localization|negative regulation of cell growth|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to mitochondrial outer membrane|nucleus|peroxisome	identical protein binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00748)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000137)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)		GGGTGGCACATGTGGCAAAGC	0.592													11	62	---	---	---	---	PASS	A	20827489	A	A	20827489	2	1	10	1	0	0	0	0	0	0	0	1	9984	1451	51	5		5	MUL1	1	20827489	Silent	SNP	T	TCGA-18-3416-01A-01D-0983-08	9237836	20827489	228423132	8	6044										
EPHB2	2048	broad.mit.edu	37	chr1	23236992	23236992	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcaaccaccggcccaagttcGgccaaattgtcaacacgcta	8	15	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:23236992G>A	uc009vqj.1	+	14	2765	c.2620G>A	c.(2620-2622)GGC>AGC	p.G874S	EPHB2_uc001bge.2_Missense_Mutation_p.G875S|EPHB2_uc001bgf.2_Missense_Mutation_p.G874S|EPHB2_uc010odu.1_Missense_Mutation_p.G816S	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	874	Cytoplasmic (Potential).|Protein kinase.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		GCCCAAGTTCGGCCAAATTGT	0.627									Hereditary_Prostate_Cancer				8	21	---	---	---	---	PASS	A	23236992	A	A	23236992	3	1	10	1	0	0	0	0	1	0	0	0	5175	1116	39	1	2677	1	EPHB2	1	23236992	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	2409503	23236992	226013629	9	6045										
ASAP3	55616	broad.mit.edu	37	chr1	23763444	23763444	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcaggtccaaggtgagtgacTgcatgcgcgaaaagcgcacg	15	10	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:23763444T>A	uc001bha.2	-	15	1560	c.1436A>T	c.(1435-1437)CAG>CTG	p.Q479L	ASAP3_uc001bgy.1_5'Flank|ASAP3_uc001bgz.1_RNA|ASAP3_uc010odz.1_Missense_Mutation_p.Q348L|ASAP3_uc010oea.1_Missense_Mutation_p.Q470L|ASAP3_uc001bhb.2_Missense_Mutation_p.Q2L	NM_017707	NP_060177	Q8TDY4	ASAP3_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	479	Arf-GAP.				regulation of ARF GTPase activity	cytoplasm	ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						GGTGAGTGACTGCATGCGCGA	0.657													3	6	---	---	---	---	PASS	A	23763444	A	A	23763444	3	1	10	1	0	0	0	0	1	0	0	0	1012	1580	55	5	1319	5	ASAP3	1	23763444	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	526452	23763444	225487177	10	6046										
HMGCL	3155	broad.mit.edu	37	chr1	24143192	24143192	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcgaagcctttcaaatttggGgtcaggactgggtagttgat	13	6	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:24143192G>T	uc001bib.2	-	4	365	c.321C>A	c.(319-321)ACC>ACA	p.T107T	HMGCL_uc010oec.1_Silent_p.T107T|HMGCL_uc009vqr.2_Intron|HMGCL_uc001bic.2_Silent_p.T82T|HMGCL_uc009vqs.1_Silent_p.T107T|HMGCL_uc001bid.1_Silent_p.T107T	NM_000191	NP_000182	P35914	HMGCL_HUMAN	3-hydroxy-3-methylglutaryl CoA lyase isoform 1	107					acetoacetic acid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA lyase activity|metal ion binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.0044)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.38e-24)|Colorectal(126;5.58e-08)|COAD - Colon adenocarcinoma(152;3.12e-06)|GBM - Glioblastoma multiforme(114;4.9e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000982)|KIRC - Kidney renal clear cell carcinoma(1967;0.0034)|STAD - Stomach adenocarcinoma(196;0.0128)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0856)|LUSC - Lung squamous cell carcinoma(448;0.188)		TCAAATTTGGGGTCAGGACTG	0.517													7	145	---	---	---	---	PASS	T	24143192	T	T	24143192	2	4	10	1	0	0	0	0	0	0	0	1	7229	1219	43	3		3	HMGCL	1	24143192	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	379748	24143192	225107429	11	6047										
MYOM3	127294	broad.mit.edu	37	chr1	24418729	24418729	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggcggggcccaagtcaggatGaggcagtctctgttcacatc	14	11	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:24418729G>T	uc001bin.3	-	11	1330	c.1167C>A	c.(1165-1167)CTC>CTA	p.L389L	MYOM3_uc001bim.3_Silent_p.L46L|MYOM3_uc001bio.2_Silent_p.L389L|MYOM3_uc001bip.1_Silent_p.L46L	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	389	Fibronectin type-III 1.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		AAGTCAGGATGAGGCAGTCTC	0.657													4	15	---	---	---	---	PASS	T	24418729	T	T	24418729	2	4	10	1	0	0	0	0	0	0	0	1	10093	1277	45	2		2	MYOM3	1	24418729	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	275537	24418729	224831892	12	6048										
COL16A1	1307	broad.mit.edu	37	chr1	32138087	32138087	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcccaacacagccaggatctCcctcactgttgtcaccctgg	7	17	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:32138087C>A	uc001btk.1	-	47	3400	c.3035G>T	c.(3034-3036)GGA>GTA	p.G1012V	COL16A1_uc001bti.1_5'Flank|COL16A1_uc001btj.1_Missense_Mutation_p.G825V	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	1012	Triple-helical region 2 (COL2) with 2 imperfections.				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		GCCAGGATCTCCCTCACTGTT	0.597													22	19	---	---	---	---	PASS	A	32138087	A	A	32138087	3	1	10	1	0	0	0	0	1	0	0	0	3673	855	30	2	1879	2	COL16A1	1	32138087	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	7719358	32138087	217112534	13	6049										
C1orf94	84970	broad.mit.edu	37	chr1	34667845	34667845	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtgttcacgaatcactctacCttcttgcagtatcaggtcag	8	11	6	0	rs114850350	by1000genomes	TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:34667845C>A	uc001bxs.3	+	4	1260	c.861C>A	c.(859-861)ACC>ACA	p.T287T	C1orf94_uc001bxt.2_Silent_p.T477T	NM_032884	NP_116273	Q6P1W5	CA094_HUMAN	hypothetical protein LOC84970 isoform b	287							protein binding				0		Myeloproliferative disorder(586;0.0393)				ATCACTCTACCTTCTTGCAGT	0.552													5	63	---	---	---	---	PASS	A	34667845	A	A	34667845	2	1	10	1	0	0	0	0	0	0	0	1	2071	668	24	3		3	C1orf94	1	34667845	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	2529758	34667845	214582776	14	6050										
MAP7D1	55700	broad.mit.edu	37	chr1	36636743	36636743	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggaaccagagagcccctcagGgcaggtcgggcctaggccag	16	13	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:36636743G>T	uc001bzz.2	+	2	434	c.218G>T	c.(217-219)GGG>GTG	p.G73V	MAP7D1_uc001caa.2_Missense_Mutation_p.G73V|MAP7D1_uc001cab.2_Missense_Mutation_p.G73V|MAP7D1_uc001cac.2_5'Flank	NM_018067	NP_060537	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	73	Pro-rich.					cytoplasm|spindle				ovary(3)|breast(2)	5		Myeloproliferative disorder(586;0.0393)				AGCCCCTCAGGGCAGGTCGGG	0.657													6	33	---	---	---	---	PASS	T	36636743	T	T	36636743	3	4	10	1	0	0	0	0	1	0	0	0	9267	1232	43	3	224	3	MAP7D1	1	36636743	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1968898	36636743	212613878	15	6051										
MTF1	4520	broad.mit.edu	37	chr1	38323190	38323190	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcctgctcaataagaacagtGgtcctatcataaacagttcc	6	11	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:38323190G>T	uc001cce.1	-	2	282	c.141C>A	c.(139-141)ACC>ACA	p.T47T	MTF1_uc009vvj.1_5'UTR	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	47						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TAAGAACAGTGGTCCTATCAT	0.498													5	49	---	---	---	---	PASS	T	38323190	T	T	38323190	2	4	10	1	0	0	0	0	0	0	0	1	9922	1335	47	3		3	MTF1	1	38323190	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	1686447	38323190	210927431	16	6052										
MACF1	23499	broad.mit.edu	37	chr1	39844973	39844973	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aggaaagccttcaggctatcCtcaacagaatggaggaggtt	12	8	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:39844973C>A	uc010oiu.1	+	18	8826	c.8695C>A	c.(8695-8697)CTC>ATC	p.L2899I	MACF1_uc010ois.1_Missense_Mutation_p.L2397I|MACF1_uc001cda.1_Missense_Mutation_p.L2284I|MACF1_uc001cdc.1_Missense_Mutation_p.L1463I	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	4464					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)			TCAGGCTATCCTCAACAGAAT	0.478													9	248	---	---	---	---	PASS	A	39844973	A	A	39844973	3	1	10	1	0	0	0	0	1	0	0	0	9144	681	24	3	13534	3	MACF1	1	39844973	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1521783	39844973	209405648	17	6053										
AKR1A1	10327	broad.mit.edu	37	chr1	46034829	46034829	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cctcaggtgtttgacttcacCtttagcccagaagagatgaa	9	10	2	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:46034829C>A	uc001cod.2	+	9	1304	c.840C>A	c.(838-840)ACC>ACA	p.T280T	AKR1A1_uc001coe.2_Silent_p.T280T|AKR1A1_uc001cof.2_Silent_p.T86T|AKR1A1_uc001cog.2_RNA	NM_006066	NP_006057	P14550	AK1A1_HUMAN	aldo-keto reductase family 1, member A1	280					glucose metabolic process		alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					TTGACTTCACCTTTAGCCCAG	0.473													7	72	---	---	---	---	PASS	A	46034829	A	A	46034829	2	1	10	1	0	0	0	0	0	0	0	1	465	668	24	3		3	AKR1A1	1	46034829	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	6189856	46034829	203215792	18	6054										
FAF1	11124	broad.mit.edu	37	chr1	50957443	50957443	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ataggcctcatcttgctctcTcttcacattttctctggctt	5	13	6	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:50957443T>C	uc009vyx.1	-	17	1588	c.1525A>G	c.(1525-1527)AGA>GGA	p.R509G	FAF1_uc009vyw.1_RNA|FAF1_uc001cse.1_Missense_Mutation_p.R509G|FAF1_uc010onc.1_Missense_Mutation_p.R267G	NM_007051	NP_008982	Q9UNN5	FAF1_HUMAN	FAS-associated factor 1	509					apoptosis|cytoplasmic sequestering of NF-kappaB|positive regulation of apoptosis|positive regulation of protein complex assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of protein catabolic process	CD95 death-inducing signaling complex|cytosol|perinuclear region of cytoplasm	heat shock protein binding|NF-kappaB binding|protein kinase binding|protein kinase regulator activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)		TCTTGCTCTCTCTTCACATTT	0.338													15	68	---	---	---	---	PASS	C	50957443	C	C	50957443	3	2	10	1	0	0	0	0	1	0	0	0	5369	1559	54	5	443	5	FAF1	1	50957443	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	4922614	50957443	198293178	19	6055										
CC2D1B	200014	broad.mit.edu	37	chr1	52821867	52821867	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggccttggtacctcacagtcTggaatgtcttcaactcaaag	9	11	5	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:52821867T>G	uc001ctq.1	-	18	2201	c.2063A>C	c.(2062-2064)CAG>CCG	p.Q688P	CC2D1B_uc001ctr.2_Missense_Mutation_p.Q228P|CC2D1B_uc001cts.2_Missense_Mutation_p.Q373P	NM_032449	NP_115825	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B	688	C2.									ovary(2)	2						CCTCACAGTCTGGAATGTCTT	0.612													16	23	---	---	---	---	PASS	G	52821867	G	G	52821867	3	3	10	1	0	0	0	0	1	0	0	0	2727	1580	55	5	541	5	CC2D1B	1	52821867	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	1864424	52821867	196428754	20	6056										
C8A	731	broad.mit.edu	37	chr1	57333307	57333307	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	taagacgggcagctacacccGcagcagttacctgccagctg	11	14	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:57333307G>A	uc001cyo.2	+	2	235	c.103G>A	c.(103-105)GCA>ACA	p.A35T		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	35					complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						AGCTACACCCGCAGCAGTTAC	0.448													6	28	---	---	---	---	PASS	A	57333307	A	A	57333307	3	1	10	1	0	0	0	0	1	0	0	0	2416	1087	38	1	109	1	C8A	1	57333307	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	4511440	57333307	191917314	21	6057										
C8A	731	broad.mit.edu	37	chr1	57378134	57378134	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggggcctctggaggccaagcGccagaacctgcgccgcgcct	15	16	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:57378134G>T	uc001cyo.2	+	10	1571	c.1439G>T	c.(1438-1440)CGC>CTC	p.R480L		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	480	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						GAGGCCAAGCGCCAGAACCTG	0.622													15	25	---	---	---	---	PASS	T	57378134	T	T	57378134	3	4	10	1	0	0	0	0	1	0	0	0	2416	1087	38	1	1477	1	C8A	1	57378134	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	44827	57378134	191872487	22	6058										
HOOK1	51361	broad.mit.edu	37	chr1	60325921	60325921	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcttacagcaagaaggctctGagaatgaacgtattgaggaa	12	6	1	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:60325921G>T	uc009wad.2	+	16	1555	c.1453G>T	c.(1453-1455)GAG>TAG	p.E485*	HOOK1_uc001czo.2_Nonsense_Mutation_p.E485*|HOOK1_uc001czp.2_RNA|HOOK1_uc010oor.1_Nonsense_Mutation_p.E443*	NM_015888	NP_056972	Q9UJC3	HOOK1_HUMAN	hook homolog 1	485	Sufficient for interaction with microtubules.|Potential.				early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|multicellular organismal development|protein transport	FHF complex|microtubule	identical protein binding			ovary(1)|breast(1)	2	all_cancers(7;0.000129)					AGAAGGCTCTGAGAATGAACG	0.373													6	159	---	---	---	---	PASS	T	60325921	T	T	60325921	4	4	10	1	0	0	0	0	0	1	0	0	7282	1291	45	2	1511	2	HOOK1	1	60325921	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	2947787	60325921	188924700	23	6059										
NFIA	4774	broad.mit.edu	37	chr1	61554058	61554058	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atatccgacccgaatatcgaGaggattttgttcttacagtt	8	8	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:61554058G>T	uc001czw.2	+	2	749	c.265G>T	c.(265-267)GAG>TAG	p.E89*	NFIA_uc001czy.2_Nonsense_Mutation_p.E81*|NFIA_uc010oos.1_Nonsense_Mutation_p.E134*|NFIA_uc001czv.2_Nonsense_Mutation_p.E89*	NM_001134673	NP_001128145	Q12857	NFIA_HUMAN	nuclear factor I/A isoform 1	89	CTF/NF-I.				DNA replication|viral genome replication	cell junction|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)|skin(1)	2						CGAATATCGAGAGGATTTTGT	0.463													7	124	---	---	---	---	PASS	T	61554058	T	T	61554058	4	4	10	1	0	0	0	0	0	1	0	0	10370	943	33	2	417	2	NFIA	1	61554058	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1228137	61554058	187696563	24	6060										
L1TD1	54596	broad.mit.edu	37	chr1	62675520	62675520	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agtgatggcttgagcttcctAtttcttaaagaagtaaaagt	9	5	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:62675520A>T	uc001dae.3	+	4	1376	c.1074A>T	c.(1072-1074)CTA>CTT	p.L358L		NM_019079	NP_061952	Q5T7N2	LITD1_HUMAN	LINE-1 type transposase domain containing 1	358										ovary(1)|skin(1)	2						TGAGCTTCCTATTTCTTAAAG	0.383													24	116	---	---	---	---	PASS	T	62675520	T	T	62675520	2	4	10	1	0	0	0	0	0	0	0	1	8589	436	16	5		5	L1TD1	1	62675520	Silent	SNP	A	TCGA-18-3416-01A-01D-0983-08	1121462	62675520	186575101	25	6061										
PDE4B	5142	broad.mit.edu	37	chr1	66379032	66379032	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gagtgtgatgacggtgatggCtgatgatgtaagtttcaaaa	14	3	1	5	rs12038033		TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:66379032C>G	uc001dcn.2	+	2	226	c.35C>G	c.(34-36)GCT>GGT	p.A12G	PDE4B_uc009war.2_5'UTR|PDE4B_uc001dco.2_Missense_Mutation_p.A12G	NM_001037341	NP_001032418	Q07343	PDE4B_HUMAN	phosphodiesterase 4B isoform 1	12					signal transduction	cytosol|insoluble fraction|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Adenosine monophosphate(DB00131)|Amrinone(DB01427)|Caffeine(DB00201)|Cilostazol(DB01166)|Dyphylline(DB00651)|Enprofylline(DB00824)|Papaverine(DB01113)|Pentoxifylline(DB00806)|Theophylline(DB00277)	ACGGTGATGGCTGATGATGTA	0.398													16	33	---	---	---	---	PASS	G	66379032	G	G	66379032	3	3	10	1	0	0	0	0	1	0	0	0	11640	797	28	4	37	4	PDE4B	1	66379032	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	3703512	66379032	182871589	26	6062										
C1orf173	127254	broad.mit.edu	37	chr1	75037158	75037158	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tctgctgctggcacttcctcCccactccgtgctaattcctc	6	18	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:75037158C>T	uc001dgg.2	-	14	4455	c.4236G>A	c.(4234-4236)GGG>GGA	p.G1412G		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1412	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						GCACTTCCTCCCCACTCCGTG	0.557													17	55	---	---	---	---	PASS	T	75037158	T	T	75037158	2	4	10	1	0	0	0	0	0	0	0	1	2014	610	22	3		3	C1orf173	1	75037158	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	8658126	75037158	174213463	27	6063										
C1orf173	127254	broad.mit.edu	37	chr1	75065401	75065401	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgtttatcctcttccagttcActctcagagcatccatcatt	4	13	4	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:75065401A>C	uc001dgg.2	-	11	1923	c.1704T>G	c.(1702-1704)AGT>AGG	p.S568R	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.S362R	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	568	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTTCCAGTTCACTCTCAGAGC	0.388													26	36	---	---	---	---	PASS	C	75065401	C	C	75065401	3	2	10	1	0	0	0	0	1	0	0	0	2014	156	6	5	2904	5	C1orf173	1	75065401	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	28243	75065401	174185220	28	6064										
C1orf173	127254	broad.mit.edu	37	chr1	75107029	75107029	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	actcaccagtgctaacggacTggaatgtccttcatcaacca	7	13	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:75107029T>A	uc001dgg.2	-	5	649	c.430A>T	c.(430-432)AGT>TGT	p.S144C		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	144										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						GCTAACGGACTGGAATGTCCT	0.428													6	36	---	---	---	---	PASS	A	75107029	A	A	75107029	3	1	10	1	0	0	0	0	1	0	0	0	2014	1580	55	5	4202	5	C1orf173	1	75107029	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	41628	75107029	174143592	29	6065										
ZZZ3	26009	broad.mit.edu	37	chr1	78097971	78097971	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agctgaaacacagtctagaaCaggagatggttcaggttctc	11	8	3	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:78097971C>A	uc001dhq.2	-	5	1545	c.1069G>T	c.(1069-1071)GTT>TTT	p.V357F	ZZZ3_uc001dhr.2_Intron|ZZZ3_uc009wbz.1_Missense_Mutation_p.V357F|ZZZ3_uc001dhp.2_Missense_Mutation_p.V357F	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	357					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						CAGTCTAGAACAGGAGATGGT	0.468													17	51	---	---	---	---	PASS	A	78097971	A	A	78097971	3	1	10	1	0	0	0	0	1	0	0	0	18253	478	17	3	1686	3	ZZZ3	1	78097971	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	2990942	78097971	171152650	30	6066										
WDR63	126820	broad.mit.edu	37	chr1	85559204	85559204	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	attgatgactggaaatacctCgcagaagaagaaggcacctt	10	8	0	5			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:85559204C>A	uc001dkt.2	+	9	1112	c.921C>A	c.(919-921)CTC>CTA	p.L307L	WDR63_uc009wcl.2_Silent_p.L268L	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	307										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		GGAAATACCTCGCAGAAGAAG	0.388													7	158	---	---	---	---	PASS	A	85559204	A	A	85559204	2	1	10	1	0	0	0	0	0	0	0	1	17311	871	31	2		2	WDR63	1	85559204	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	7461233	85559204	163691417	31	6067										
CCBL2	56267	broad.mit.edu	37	chr1	89414865	89414865	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agtaaacgtaccatccgatcTctttttacttctaactcttt	3	11	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:89414865T>A	uc001dmp.2	-	11	1427	c.1050A>T	c.(1048-1050)AGA>AGT	p.R350S	CCBL2_uc001dmq.2_Missense_Mutation_p.R316S|CCBL2_uc001dmr.2_Missense_Mutation_p.R186S	NM_001008661	NP_001008661	Q6YP21	KAT3_HUMAN	kynurenine aminotransferase III isoform 1	350					biosynthetic process|kynurenine metabolic process|tryptophan catabolic process		cysteine-S-conjugate beta-lyase activity|kynurenine-glyoxylate transaminase activity|kynurenine-oxoglutarate transaminase activity|pyridoxal phosphate binding			ovary(1)	1		Lung NSC(277;0.123)		all cancers(265;0.0117)|Epithelial(280;0.0341)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CCATCCGATCTCTTTTTACTT	0.408													13	24	---	---	---	---	PASS	A	89414865	A	A	89414865	3	1	10	1	0	0	0	0	1	0	0	0	2733	1548	54	5	330	5	CCBL2	1	89414865	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	3855661	89414865	159835756	32	6068										
GBP1	2633	broad.mit.edu	37	chr1	89523674	89523674	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agtactaggaaggggacttaCgaggcccgttgacctggatg	15	8	0	1	rs139189718	byFrequency	TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:89523674C>T	uc001dmx.2	-	6	1094	c.874_splice	c.e6+1	p.R292_splice		NM_002053	NP_002044	P32455	GBP1_HUMAN	guanylate binding protein 1,						interferon-gamma-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0156)|Epithelial(280;0.0291)		AGGGGACTTACGAGGCCCGTT	0.423													35	39	---	---	---	---	PASS	T	89523674	T	T	89523674	5	4	10	1	0	0	0	0	0	0	1	0	6273	550	19	1	927	1	GBP1	1	89523674	Splice_Site	SNP	C	TCGA-18-3416-01A-01D-0983-08	108809	89523674	159726947	33	6069										
EVI5	7813	broad.mit.edu	37	chr1	93070917	93070917	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttcagccacagcagctatgcTatctgcttcccgaagcctca	7	15	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:93070917T>C	uc001dox.2	-	16	1979	c.1969A>G	c.(1969-1971)AGC>GGC	p.S657G	EVI5_uc010otf.1_Missense_Mutation_p.S668G|EVI5_uc001doy.1_RNA	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	657	Targeting to the centrosomes.|Potential.|Dimerization.|Interaction with AURKB and INCENP.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		GCAGCTATGCTATCTGCTTCC	0.333													27	55	---	---	---	---	PASS	C	93070917	C	C	93070917	3	2	10	1	0	0	0	0	1	0	0	0	5289	1522	53	5	475	5	EVI5	1	93070917	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	3547243	93070917	156179704	34	6070										
MTF2	22823	broad.mit.edu	37	chr1	93602335	93602335	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agaagagcactccagactcaGaactcagaaattgtaaaaga	8	8	2	6			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:93602335G>T	uc009wdj.2	+	15	1825	c.1533G>T	c.(1531-1533)CAG>CAT	p.Q511H	MTF2_uc010oth.1_Missense_Mutation_p.Q409H|MTF2_uc009wdk.2_Missense_Mutation_p.Q454H|MTF2_uc001dpi.3_Missense_Mutation_p.Q238H|MTF2_uc010oti.1_Missense_Mutation_p.Q409H|MTF2_uc001dpj.3_Missense_Mutation_p.Q409H|MTF2_uc001dpl.3_Missense_Mutation_p.Q409H|MTF2_uc001dpm.3_Missense_Mutation_p.Q180H	NM_007358	NP_031384	Q9Y483	MTF2_HUMAN	metal response element binding transcription	511						nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_lung(203;0.00196)|Lung NSC(277;0.00902)|Melanoma(281;0.099)|Ovarian(761;0.109)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00076)|GBM - Glioblastoma multiforme(16;0.00157)|Epithelial(280;0.0886)		TCCAGACTCAGAACTCAGAAA	0.418													16	72	---	---	---	---	PASS	T	93602335	T	T	93602335	3	4	10	1	0	0	0	0	1	0	0	0	9923	933	33	2	1591	2	MTF2	1	93602335	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	531418	93602335	155648286	35	6071										
DPH5	51611	broad.mit.edu	37	chr1	101460686	101460686	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttgattagattttccaaagaCtgctcctttactttgatgtc	6	8	0	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:101460686C>A	uc001dts.2	-	6	657	c.510G>T	c.(508-510)CAG>CAT	p.Q170H	DPH5_uc001dtr.2_Missense_Mutation_p.Q170H|DPH5_uc001dtq.2_RNA|DPH5_uc001dtt.2_Missense_Mutation_p.Q170H|DPH5_uc001dtu.2_RNA|DPH5_uc001dtv.2_RNA|DPH5_uc001dtw.2_RNA|DPH5_uc001dtx.2_Missense_Mutation_p.Q170H|DPH5_uc001dty.2_Missense_Mutation_p.Q49H|DPH5_uc001dtz.2_RNA	NM_015958	NP_057042	Q9H2P9	DPH5_HUMAN	diphthine synthase isoform a	170					peptidyl-diphthamide biosynthetic process from peptidyl-histidine		diphthine synthase activity				0		all_epithelial(167;3.1e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0385)|all cancers(265;0.043)|COAD - Colon adenocarcinoma(174;0.151)|Colorectal(144;0.173)|Lung(183;0.198)		TTTCCAAAGACTGCTCCTTTA	0.294													7	16	---	---	---	---	PASS	A	101460686	A	A	101460686	3	1	10	1	0	0	0	0	1	0	0	0	4723	564	20	3	359	3	DPH5	1	101460686	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	7858351	101460686	147789935	36	6072										
PRMT6	55170	broad.mit.edu	37	chr1	107600083	107600083	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cggcgaggacgtgctggcccGgccgcagcgctttgctcagc	16	15	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:107600083G>A	uc010ous.1	+	1	817	c.746G>A	c.(745-747)CGG>CAG	p.R249Q		NM_018137	NP_060607	Q96LA8	ANM6_HUMAN	protein arginine methyltransferase 6	249					base-excision repair|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone binding|histone methyltransferase activity (H2A-R3 specific)|histone methyltransferase activity (H3-R2 specific)|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity				0		all_epithelial(167;0.000429)|all_lung(203;0.00122)|Lung NSC(277;0.00185)		Lung(183;0.0305)|Epithelial(280;0.0765)|Colorectal(144;0.0998)|all cancers(265;0.14)|LUSC - Lung squamous cell carcinoma(189;0.173)|BRCA - Breast invasive adenocarcinoma(282;0.242)		GTGCTGGCCCGGCCGCAGCGC	0.687													6	13	---	---	---	---	PASS	A	107600083	A	A	107600083	3	1	10	1	0	0	0	0	1	0	0	0	12540	1116	39	1	748	1	PRMT6	1	107600083	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	6139397	107600083	141650538	37	6073										
SLC25A24	29957	broad.mit.edu	37	chr1	108700228	108700228	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tctggaatagttaagctatcCcctatgtcaattccctgtaa	6	10	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:108700228C>A	uc001dvn.3	-	5	739	c.525G>T	c.(523-525)GGG>GGT	p.G175G	SLC25A24_uc001dvm.2_Silent_p.G156G	NM_013386	NP_037518	Q6NUK1	SCMC1_HUMAN	solute carrier family 25 member 24 isoform 1	175	Mitochondrial intermembrane (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)	1		all_epithelial(167;3.72e-05)|all_lung(203;0.000567)|Lung NSC(277;0.0011)|Melanoma(281;0.211)		Colorectal(144;0.0345)|Lung(183;0.0971)|COAD - Colon adenocarcinoma(174;0.127)|Epithelial(280;0.134)		TTAAGCTATCCCCTATGTCAA	0.403													7	109	---	---	---	---	PASS	A	108700228	A	A	108700228	2	1	10	1	0	0	0	0	0	0	0	1	14487	610	22	3		3	SLC25A24	1	108700228	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	1100145	108700228	140550393	38	6074										
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112999276	112999276	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggcccaagagaaaccagtgGagaatggtgggtgtcctgtg	16	7	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:112999276G>A	uc001ebx.2	+	6	1390	c.1162G>A	c.(1162-1164)GAG>AAG	p.E388K	CTTNBP2NL_uc001ebz.2_5'Flank	NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	388						actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAAACCAGTGGAGAATGGTGG	0.552													22	72	---	---	---	---	PASS	A	112999276	A	A	112999276	3	1	10	1	0	0	0	0	1	0	0	0	4046	1175	41	2	1176	2	CTTNBP2NL	1	112999276	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	4299048	112999276	136251345	39	6075										
PTPN22	26191	broad.mit.edu	37	chr1	114381218	114381218	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttggagagtgtgatttttctCaggaatacaatgctttgctt	10	5	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:114381218C>A	uc001eds.2	-	12	1070	c.940G>T	c.(940-942)GAG>TAG	p.E314*	PTPN22_uc009wgq.2_Nonsense_Mutation_p.E259*|PTPN22_uc010owo.1_Nonsense_Mutation_p.E70*|PTPN22_uc001edt.2_Intron|PTPN22_uc009wgr.2_Nonsense_Mutation_p.E314*|PTPN22_uc009wgs.2_Nonsense_Mutation_p.E187*|PTPN22_uc001edu.2_Nonsense_Mutation_p.E314*	NM_015967	NP_057051	Q9Y2R2	PTN22_HUMAN	protein tyrosine phosphatase, non-receptor type	314					negative regulation of T cell activation|negative regulation of T cell receptor signaling pathway|phosphoanandamide dephosphorylation|regulation of B cell receptor signaling pathway|regulation of natural killer cell proliferation|T cell differentiation	internal side of plasma membrane|nucleus|perinuclear region of cytoplasm	kinase binding|protein tyrosine phosphatase activity|SH3 domain binding			kidney(2)|lung(1)|skin(1)	4	Lung SC(450;0.184)	all_cancers(81;1.93e-08)|all_epithelial(167;4.37e-08)|all_lung(203;5.22e-06)|Lung NSC(69;8.94e-06)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGATTTTTCTCAGGAATACAA	0.328													5	52	---	---	---	---	PASS	A	114381218	A	A	114381218	4	1	10	1	0	0	0	0	0	1	0	0	12787	835	29	2	1546	2	PTPN22	1	114381218	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1381942	114381218	134869403	40	6076										
TRIM33	51592	broad.mit.edu	37	chr1	114949569	114949569	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagtgggagcttaccatgcaAgcactcctcctgccatcctc	8	16	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:114949569A>C	uc001eew.2	-	14	2496	c.2412T>G	c.(2410-2412)GCT>GCG	p.A804A	TRIM33_uc010owr.1_Silent_p.A418A|TRIM33_uc010ows.1_Silent_p.A436A|TRIM33_uc001eex.2_Silent_p.A804A|TRIM33_uc001eey.1_5'UTR	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	804					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTACCATGCAAGCACTCCTCC	0.433			T	RET	papillary thyroid								17	63	---	---	---	---	PASS	C	114949569	C	C	114949569	2	2	10	1	0	0	0	0	0	0	0	1	16504	59	3	5		5	TRIM33	1	114949569	Silent	SNP	A	TCGA-18-3416-01A-01D-0983-08	568351	114949569	134301052	41	6077										
NBPF7	343505	broad.mit.edu	37	chr1	120386969	120386969	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaagccggccatttgagttaCaagaaatttctgcttcatgt	9	8	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:120386969C>T	uc010oxk.1	-	1	811	c.190G>A	c.(190-192)GTA>ATA	p.V64I		NM_001047980	NP_001041445	P0C2Y1	NBPF7_HUMAN	hypothetical protein LOC343505	64						cytoplasm				ovary(1)|skin(1)	2	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;3.66e-05)|Lung NSC(69;0.000192)|all_epithelial(167;0.0347)		Lung(183;0.0103)|LUSC - Lung squamous cell carcinoma(189;0.0544)		ATTTGAGTTACAAGAAATTTC	0.423											OREG0013730	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	86	---	---	---	---	PASS	T	120386969	T	T	120386969	3	4	10	1	0	0	0	0	1	0	0	0	10198	478	17	3	1106	3	NBPF7	1	120386969	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	5437400	120386969	128863652	42	6078										
PDE4DIP	9659	broad.mit.edu	37	chr1	144886153	144886153	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atttgagcctttagctccttCagttcctcctcagctttcct	5	14	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:144886153C>T	uc001elw.3	-	23	3372	c.3081G>A	c.(3079-3081)CTG>CTA	p.L1027L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Silent_p.L1093L|PDE4DIP_uc001elv.3_Silent_p.L34L	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1027	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TTAGCTCCTTCAGTTCCTCCT	0.522			T	PDGFRB	MPD								21	117	---	---	---	---	PASS	T	144886153	T	T	144886153	2	4	10	1	0	0	0	0	0	0	0	1	11643	813	29	2		2	PDE4DIP	1	144886153	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	24499184	144886153	104364468	43	6079										
ACP6	51205	broad.mit.edu	37	chr1	147120111	147120111	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aggtgctggtaaagttccatGgtcaggtcaacagcaaacgg	13	8	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:147120111G>T	uc001epr.2	-	9	1544	c.1080C>A	c.(1078-1080)ACC>ACA	p.T360T		NM_016361	NP_057445	Q9NPH0	PPA6_HUMAN	acid phosphatase 6, lysophosphatidic precursor	360					lipid metabolic process	extracellular region|mitochondrion	acid phosphatase activity|protein binding			ovary(4)	4	all_hematologic(923;0.0276)					AAAGTTCCATGGTCAGGTCAA	0.512													5	54	---	---	---	---	PASS	T	147120111	T	T	147120111	2	4	10	1	0	0	0	0	0	0	0	1	165	1335	47	3		3	ACP6	1	147120111	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	2233958	147120111	102130510	44	6080										
SV2A	9900	broad.mit.edu	37	chr1	149879602	149879602	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtccccacatacttgtcattGaagtactgcccgcctcggtg	9	14	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:149879602G>T	uc001etg.2	-	9	2027	c.1536C>A	c.(1534-1536)TTC>TTA	p.F512L	SV2A_uc009wlk.2_5'Flank|SV2A_uc001eth.2_Missense_Mutation_p.F512L	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	512	Extracellular (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	ACTTGTCATTGAAGTACTGCC	0.488													26	59	---	---	---	---	PASS	T	149879602	T	T	149879602	3	4	10	1	0	0	0	0	1	0	0	0	15414	1281	45	2	712	2	SV2A	1	149879602	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	2759491	149879602	99371019	45	6081										
TCHHL1	126637	broad.mit.edu	37	chr1	152057617	152057617	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggctgtagttgaaaaagacAgaacaatctgagatctcact	9	7	2	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:152057617A>T	uc001ezo.1	-	3	2606	c.2541T>A	c.(2539-2541)TCT>TCA	p.S847S		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	847							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			TGAAAAAGACAGAACAATCTG	0.502													30	51	---	---	---	---	PASS	T	152057617	T	T	152057617	2	4	10	1	0	0	0	0	0	0	0	1	15698	175	7	5		5	TCHHL1	1	152057617	Silent	SNP	A	TCGA-18-3416-01A-01D-0983-08	2178015	152057617	97193004	46	6082										
LCE2D	353141	broad.mit.edu	37	chr1	152636867	152636867	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccgattgctgtgagagtgaaCcttctggggcctctggctgc	14	11	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:152636867C>T	uc001fag.2	+	2	341	c.286C>T	c.(286-288)CCT>TCT	p.P96S		NM_178430	NP_848517	Q5TA82	LCE2D_HUMAN	late cornified envelope 2D	96	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGAGAGTGAACCTTCTGGGGC	0.642													13	35	---	---	---	---	PASS	T	152636867	T	T	152636867	3	4	10	1	0	0	0	0	1	0	0	0	8668	507	18	3	288	3	LCE2D	1	152636867	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	579250	152636867	96613754	47	6083										
NUP210L	91181	broad.mit.edu	37	chr1	153984787	153984787	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	acagttgaattgagggtattGgtgagataagtcttgaggtc	14	3	1	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:153984787G>T	uc001fdw.2	-	34	4785	c.4713C>A	c.(4711-4713)ACC>ACA	p.T1571T	NUP210L_uc009woq.2_Silent_p.T480T|NUP210L_uc010peh.1_Silent_p.T1571T	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	1571						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TGAGGGTATTGGTGAGATAAG	0.403													6	104	---	---	---	---	PASS	T	153984787	T	T	153984787	2	4	10	1	0	0	0	0	0	0	0	1	10761	1335	47	3		3	NUP210L	1	153984787	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	1347920	153984787	95265834	48	6084										
TDRD10	126668	broad.mit.edu	37	chr1	154514508	154514508	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttttcttcccaggtgttggaGaaggcttctggtgaaggatt	13	6	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:154514508G>T	uc009wow.2	+	7	1216	c.378G>T	c.(376-378)GAG>GAT	p.E126D	TDRD10_uc001ffd.2_Missense_Mutation_p.E126D|TDRD10_uc001ffe.2_Missense_Mutation_p.E47D	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	126							nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGGTGTTGGAGAAGGCTTCTG	0.488													6	23	---	---	---	---	PASS	T	154514508	T	T	154514508	3	4	10	1	0	0	0	0	1	0	0	0	15728	933	33	2	400	2	TDRD10	1	154514508	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	529721	154514508	94736113	49	6085										
TRIM46	80128	broad.mit.edu	37	chr1	155148375	155148375	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cacccacaggctttgggacaTaccctgggaggaagcgaggt	14	11	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:155148375T>C	uc001fhs.1	+	3	420	c.337T>C	c.(337-339)TAC>CAC	p.Y113H	RAG1AP1_uc010pey.1_Intron|KRTCAP2_uc001fho.2_5'Flank|KRTCAP2_uc001fhp.1_5'Flank|TRIM46_uc009wpe.1_RNA|TRIM46_uc010pez.1_Missense_Mutation_p.Y100H|TRIM46_uc001fhq.2_RNA|TRIM46_uc001fhr.2_Missense_Mutation_p.Y113H|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_5'UTR|TRIM46_uc001fhu.1_Missense_Mutation_p.Y90H|TRIM46_uc009wpg.1_Missense_Mutation_p.Y100H|TRIM46_uc009wpf.2_3'UTR|TRIM46_uc001fhv.3_Missense_Mutation_p.Y100H|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	113						intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CTTTGGGACATACCCTGGGAG	0.552													40	94	---	---	---	---	PASS	C	155148375	C	C	155148375	3	2	10	1	0	0	0	0	1	0	0	0	16518	1406	49	5	347	5	TRIM46	1	155148375	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	633867	155148375	94102246	50	6086										
FCER1A	2205	broad.mit.edu	37	chr1	159275910	159275910	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggtgaagctctcaagtactGgtatgagaaccacaacatct	9	9	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:159275910G>T	uc001ftq.2	+	5	563	c.464G>T	c.(463-465)TGG>TTG	p.W155L		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	155	Ig-like 2.|Extracellular (Potential).					integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	CTCAAGTACTGGTATGAGAAC	0.493													5	83	---	---	---	---	PASS	T	159275910	T	T	159275910	3	4	10	1	0	0	0	0	1	0	0	0	5774	1357	47	3	478	3	FCER1A	1	159275910	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	4127535	159275910	89974711	51	6087										
VSIG8	391123	broad.mit.edu	37	chr1	159827692	159827692	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cccccactggcatagcacttCagcaccacatcgttgccata	6	17	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:159827692C>T	uc001fuh.2	-	4	631	c.495G>A	c.(493-495)CTG>CTA	p.L165L	C1orf204_uc001fuf.1_5'Flank|C1orf204_uc001fug.1_5'Flank	NM_001013661	NP_001013683	Q5VU13	VSIG8_HUMAN	V-set and immunoglobulin domain containing 8	165	Extracellular (Potential).|Ig-like V-type 2.					integral to membrane				central_nervous_system(1)	1	all_hematologic(112;0.0597)					CATAGCACTTCAGCACCACAT	0.592													4	16	---	---	---	---	PASS	T	159827692	T	T	159827692	2	4	10	1	0	0	0	0	0	0	0	1	17223	813	29	2		2	VSIG8	1	159827692	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	551782	159827692	89422929	52	6088										
ATP1A2	477	broad.mit.edu	37	chr1	160109474	160109474	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cctggaggagacggcgttggCtgcctttctctcttactgcc	12	13	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:160109474C>A	uc001fvc.2	+	21	3017	c.2885C>A	c.(2884-2886)GCT>GAT	p.A962D	ATP1A2_uc001fvd.2_Missense_Mutation_p.A681D	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	962	Helical; (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			ACGGCGTTGGCTGCCTTTCTC	0.577													11	28	---	---	---	---	PASS	A	160109474	A	A	160109474	3	1	10	1	0	0	0	0	1	0	0	0	1129	797	28	3	2967	3	ATP1A2	1	160109474	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	281782	160109474	89141147	53	6089										
PVRL4	81607	broad.mit.edu	37	chr1	161042499	161042499	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tagatgccattgcccgtgggCttggcccgtagggtcccatt	13	12	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:161042499C>A	uc001fxo.2	-	9	1784	c.1485G>T	c.(1483-1485)AAG>AAT	p.K495N	ARHGAP30_uc001fxk.2_5'Flank|ARHGAP30_uc001fxl.2_5'Flank|ARHGAP30_uc001fxm.2_5'Flank|ARHGAP30_uc009wtx.2_5'Flank|ARHGAP30_uc001fxn.1_5'Flank|PVRL4_uc010pjy.1_Missense_Mutation_p.K149N|PVRL4_uc010pjz.1_Missense_Mutation_p.K204N	NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	495	Cytoplasmic (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			TGCCCGTGGGCTTGGCCCGTA	0.597													24	36	---	---	---	---	PASS	A	161042499	A	A	161042499	3	1	10	1	0	0	0	0	1	0	0	0	12842	796	28	3	51	3	PVRL4	1	161042499	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	933025	161042499	88208122	54	6090										
C1orf111	284680	broad.mit.edu	37	chr1	162344105	162344105	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgctgtgctgggtgccacctGgaagccattaggatgtcctg	14	10	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:162344105G>T	uc001gbx.2	-	3	583	c.519C>A	c.(517-519)TCC>TCA	p.S173S		NM_182581	NP_872387	Q5T0L3	CA111_HUMAN	hypothetical protein LOC284680	173										ovary(1)	1	all_hematologic(112;0.15)		BRCA - Breast invasive adenocarcinoma(70;0.0938)			GGTGCCACCTGGAAGCCATTA	0.582													7	185	---	---	---	---	PASS	T	162344105	T	T	162344105	2	4	10	1	0	0	0	0	0	0	0	1	1984	1335	47	3		3	C1orf111	1	162344105	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	1301606	162344105	86906516	55	6091										
UAP1	6675	broad.mit.edu	37	chr1	162551080	162551080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gctattttgttttccagatgGgaatggtggtctttatcggg	13	5	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:162551080G>T	uc001gce.3	+	5	994	c.665G>T	c.(664-666)GGG>GTG	p.G222V		NM_003115	NP_003106	Q16222	UAP1_HUMAN	UDP-N-acetylglucosamine pyrophosphorylase 1	222					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol|nucleus|plasma membrane	UDP-N-acetylglucosamine diphosphorylase activity			ovary(2)|skin(2)|kidney(1)	5	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			TTTCCAGATGGGAATGGTGGT	0.388													7	142	---	---	---	---	PASS	T	162551080	T	T	162551080	3	4	10	1	0	0	0	0	1	0	0	0	16822	1232	43	3	679	3	UAP1	1	162551080	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	206975	162551080	86699541	56	6092										
ILDR2	387597	broad.mit.edu	37	chr1	166905975	166905975	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	caggccaacaaacacccactCtggaaggatgcacaaagaaa	8	12	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:166905975C>A	uc001gdx.1	-	5	613	c.557_splice	c.e5-1	p.E186_splice		NM_199351	NP_955383	Q71H61	ILDR2_HUMAN	immunoglobulin-like domain containing receptor							integral to membrane				ovary(1)	1						AACACCCACTCTGGAAGGATG	0.602													5	24	---	---	---	---	PASS	A	166905975	A	A	166905975	5	1	10	1	0	0	0	0	0	0	1	0	7710	927	32	2	1387	2	ILDR2	1	166905975	Splice_Site	SNP	C	TCGA-18-3416-01A-01D-0983-08	4354895	166905975	82344646	57	6093										
MAEL	84944	broad.mit.edu	37	chr1	166963298	166963298	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aggatttcgatttcattgtcAggctgcaagtaagtataaag	10	5	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:166963298A>T	uc001gdy.1	+	5	586	c.515A>T	c.(514-516)CAG>CTG	p.Q172L	MAEL_uc001gdz.1_Missense_Mutation_p.Q141L|MAEL_uc009wvf.1_RNA	NM_032858	NP_116247	Q96JY0	MAEL_HUMAN	maelstrom homolog	172					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|multicellular organismal development|piRNA metabolic process|spermatogenesis	piP-body	DNA binding			skin(1)	1						TTTCATTGTCAGGCTGCAAGT	0.323													5	11	---	---	---	---	PASS	T	166963298	T	T	166963298	3	4	10	1	0	0	0	0	1	0	0	0	9154	188	7	5	533	5	MAEL	1	166963298	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	57323	166963298	82287323	58	6094										
DNM3	26052	broad.mit.edu	37	chr1	172050971	172050971	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtgtttctctttgacttataGgtattgctattgattgacat	8	5	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:172050971G>T	uc001gie.2	+	12	1599	c.1423_splice	c.e12-1	p.V475_splice	DNM3_uc001gid.3_Splice_Site_p.V475_splice|DNM3_uc009wwb.2_Splice_Site_p.V475_splice|DNM3_uc001gif.2_Splice_Site_p.V475_splice	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a						endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						TTGACTTATAGGTATTGCTAT	0.338													6	72	---	---	---	---	PASS	T	172050971	T	T	172050971	5	4	10	1	0	0	0	0	0	0	1	0	4673	1014	35	3	1468	3	DNM3	1	172050971	Splice_Site	SNP	G	TCGA-18-3416-01A-01D-0983-08	5087673	172050971	77199650	59	6095										
TNN	63923	broad.mit.edu	37	chr1	175092614	175092614	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctcctgggacccggttcaggCcaccattgacaagtacatgg	11	13	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:175092614C>A	uc001gkl.1	+	12	2842	c.2729C>A	c.(2728-2730)GCC>GAC	p.A910D		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	910	Fibronectin type-III 8.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		CCGGTTCAGGCCACCATTGAC	0.537													19	40	---	---	---	---	PASS	A	175092614	A	A	175092614	3	1	10	1	0	0	0	0	1	0	0	0	16320	739	26	3	2771	3	TNN	1	175092614	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	3041643	175092614	74158007	60	6096										
TNR	7143	broad.mit.edu	37	chr1	175334299	175334299	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	catcatctcttcctcctcatCcctggggctgtagttaagaa	7	13	3	1	rs139055042		TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:175334299C>G	uc001gkp.1	-	10	2515	c.2434G>C	c.(2434-2436)GAT>CAT	p.D812H	TNR_uc009wwu.1_Missense_Mutation_p.D812H	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	812	Fibronectin type-III 6.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TCCTCCTCATCCCTGGGGCTG	0.517													19	34	---	---	---	---	PASS	G	175334299	G	G	175334299	3	3	10	1	0	0	0	0	1	0	0	0	16335	855	30	2	1690	2	TNR	1	175334299	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	241685	175334299	73916322	61	6097										
CACNA1E	777	broad.mit.edu	37	chr1	181767670	181767670	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	accgagtcttccaactctccGcacccccagcagagccaaca	6	19	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:181767670G>C	uc001gow.2	+	47	6678	c.6513G>C	c.(6511-6513)CCG>CCC	p.P2171P	CACNA1E_uc009wxs.2_Silent_p.P2059P|CACNA1E_uc009wxt.2_Silent_p.P1440P	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	2214	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CCAACTCTCCGCACCCCCAGC	0.622													3	24	---	---	---	---	PASS	C	181767670	C	C	181767670	2	2	10	1	0	0	0	0	0	0	0	1	2542	1074	38	4		4	CACNA1E	1	181767670	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	6433371	181767670	67482951	62	6098										
CFHR5	81494	broad.mit.edu	37	chr1	196967353	196967353	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttaatcataattctagaataCgttacagatgttcagacatc	5	7	3	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:196967353C>A	uc001gts.3	+	7	1194	c.1066C>A	c.(1066-1068)CGT>AGT	p.R356S		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	356	Sushi 6.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						TTCTAGAATACGTTACAGATG	0.348													11	19	---	---	---	---	PASS	A	196967353	A	A	196967353	3	1	10	1	0	0	0	0	1	0	0	0	3288	536	19	1	1092	1	CFHR5	1	196967353	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	15199683	196967353	52283268	63	6099										
KDM5B	10765	broad.mit.edu	37	chr1	202700083	202700083	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agcttcggtcagtctgctgaGcagggcttggctttgcaagt	14	9	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:202700083G>T	uc001gyf.2	-	25	4246	c.4130C>A	c.(4129-4131)GCT>GAT	p.A1377D	KDM5B_uc009xag.2_Missense_Mutation_p.A1413D|KDM5B_uc001gyg.1_Missense_Mutation_p.A1219D	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1377					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						AGTCTGCTGAGCAGGGCTTGG	0.532													14	22	---	---	---	---	PASS	T	202700083	T	T	202700083	3	4	10	1	0	0	0	0	1	0	0	0	8134	971	34	3	516	3	KDM5B	1	202700083	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	5732730	202700083	46550538	64	6100										
ATP2B4	493	broad.mit.edu	37	chr1	203652420	203652420	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggctgcacagtaatggaactGaggaagctcatggagctgcg	15	8	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:203652420G>T	uc001gzw.2	+	2	971	c.87G>T	c.(85-87)CTG>CTT	p.L29L	ATP2B4_uc001gzv.2_Silent_p.L29L|ATP2B4_uc009xaq.2_Silent_p.L29L	NM_001684	NP_001675	P23634	AT2B4_HUMAN	plasma membrane calcium ATPase 4 isoform 4b	29	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|skin(1)	3	all_cancers(21;0.071)|all_epithelial(62;0.228)		BRCA - Breast invasive adenocarcinoma(75;0.109)			TAATGGAACTGAGGAAGCTCA	0.522													6	152	---	---	---	---	PASS	T	203652420	T	T	203652420	2	4	10	1	0	0	0	0	0	0	0	1	1142	1277	45	2		2	ATP2B4	1	203652420	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	952337	203652420	45598201	65	6101										
SYT14	255928	broad.mit.edu	37	chr1	210334198	210334198	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tttgtctttcaagtggccctAtttcagctttctgatgtgac	8	9	4	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:210334198A>G	uc009xcv.2	+	8	1551	c.1479A>G	c.(1477-1479)CTA>CTG	p.L493L	SYT14_uc001hhs.3_Silent_p.L557L|SYT14_uc001hht.3_Silent_p.L512L|SYT14_uc001hhu.3_RNA|SYT14_uc010psn.1_Silent_p.L538L|SYT14_uc010pso.1_Silent_p.L455L|SYT14_uc010psp.1_Silent_p.L31L	NM_153262	NP_694994	Q8NB59	SYT14_HUMAN	synaptotagmin XIV isoform 4	493	Cytoplasmic (Potential).|C2 2.					integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)		AAGTGGCCCTATTTCAGCTTT	0.418													23	71	---	---	---	---	PASS	G	210334198	G	G	210334198	2	3	10	1	0	0	0	0	0	0	0	1	15467	436	16	5		5	SYT14	1	210334198	Silent	SNP	A	TCGA-18-3416-01A-01D-0983-08	6681778	210334198	38916423	66	6102										
GPATCH2	55105	broad.mit.edu	37	chr1	217793409	217793409	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tctactgccatgcgttttacCtttctcctcctgcgcagagt	7	14	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:217793409C>A	uc001hlf.1	-	2	585	c.489G>T	c.(487-489)AAG>AAT	p.K163N	GPATCH2_uc001hlg.3_Missense_Mutation_p.K163N	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	163						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		TGCGTTTTACCTTTCTCCTCC	0.453													7	101	---	---	---	---	PASS	A	217793409	A	A	217793409	3	1	10	1	0	0	0	0	1	0	0	0	6591	680	24	3	1133	3	GPATCH2	1	217793409	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	7459211	217793409	31457212	67	6103										
IARS2	55699	broad.mit.edu	37	chr1	220276788	220276788	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tctcctaaaattttatgttaGgtatgctgttgtgaaatgtt	8	4	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:220276788G>T	uc001hmc.2	+	8	1055	c.951_splice	c.e8-1	p.K317_splice		NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase						isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	TTTTATGTTAGGTATGCTGTT	0.313													5	60	---	---	---	---	PASS	T	220276788	T	T	220276788	5	4	10	1	0	0	0	0	0	0	1	0	7474	1014	35	3	980	3	IARS2	1	220276788	Splice_Site	SNP	G	TCGA-18-3416-01A-01D-0983-08	2483379	220276788	28973833	68	6104										
C1orf65	164127	broad.mit.edu	37	chr1	223568305	223568305	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggcgcgcaggggagtcagaGgaacagaggaagatgcgcaa	18	7	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:223568305G>T	uc001hoa.2	+	1	1591	c.1488G>T	c.(1486-1488)GAG>GAT	p.E496D		NM_152610	NP_689823	Q8N715	CA065_HUMAN	hypothetical protein LOC164127	496	Potential.									central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0704)		GGGAGTCAGAGGAACAGAGGA	0.607													18	28	---	---	---	---	PASS	T	223568305	T	T	223568305	3	4	10	1	0	0	0	0	1	0	0	0	2055	991	35	3	1490	3	C1orf65	1	223568305	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	3291517	223568305	25682316	69	6105										
PARP1	142	broad.mit.edu	37	chr1	226556023	226556023	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctgctgccctgagacaccgcCtggagaggaggggacagaag	16	11	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:226556023C>A	uc001hqd.3	-	16	2326	c.2155_splice	c.e16-1	p.A719_splice		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1						cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		GAGACACCGCCTGGAGAGGAG	0.587								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					21	30	---	---	---	---	PASS	A	226556023	A	A	226556023	5	1	10	1	0	0	0	0	0	0	1	0	11454	695	24	3	922	3	PARP1	1	226556023	Splice_Site	SNP	C	TCGA-18-3416-01A-01D-0983-08	2987718	226556023	22694598	70	6106										
PSEN2	5664	broad.mit.edu	37	chr1	227079536	227079536	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	caggggaggagctggaggaaGaggaggaaagtaaggtgccc	20	5	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:227079536G>A	uc009xeo.1	+	11	1490	c.1063G>A	c.(1063-1065)GAG>AAG	p.E355K	PSEN2_uc009xep.1_Missense_Mutation_p.E354K|PSEN2_uc001hqk.2_RNA	NM_000447	NP_000438	P49810	PSN2_HUMAN	presenilin 2 isoform 1	355	Cytoplasmic (Potential).				amyloid precursor protein catabolic process|anti-apoptosis|apoptosis|beta-amyloid metabolic process|calcium ion transport|induction of apoptosis by extracellular signals|intracellular signal transduction|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear inner membrane|perinuclear region of cytoplasm|Z disc	aspartic-type endopeptidase activity|protein binding			lung(2)	2		Prostate(94;0.0771)				GCTGGAGGAAGAGGAGGAAAG	0.602													9	19	---	---	---	---	PASS	A	227079536	A	A	227079536	3	1	10	1	0	0	0	0	1	0	0	0	12651	943	33	2	1093	2	PSEN2	1	227079536	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	523513	227079536	22171085	71	6107										
CDC42BPA	8476	broad.mit.edu	37	chr1	227400857	227400857	+	Frame_Shift_Del	DEL	C	-	-													0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctcagctcttttcagcatttCccatttattcaatattttca							TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:227400857delC	uc001hqr.2	-	3	1277	c.334delG	c.(334-336)GAAfs	p.E112fs	CDC42BPA_uc001hqs.2_Frame_Shift_Del_p.E112fs|CDC42BPA_uc009xes.2_Frame_Shift_Del_p.E112fs|CDC42BPA_uc010pvs.1_Frame_Shift_Del_p.E112fs	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	112	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TTCAGCATTTCCCATTTATTC	0.239													36	16	---	---	---	---		-	227400857	-	-	227400857	7	5	10	1	0	1	0	1	0	0	0	0	3072	864	30	0	4961	0	CDC42BPA	1	227400857	Frame_Shift_Del	DEL	C	TCGA-18-3416-01A-01D-0983-08	321321	227400857	21849764	72	6108										
OBSCN	84033	broad.mit.edu	37	chr1	228473926	228473926	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cctgcatgccaacgagctcaAtgagatcgatgcccagcccg	10	15	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:228473926A>G	uc009xez.1	+	34	9196	c.9152A>G	c.(9151-9153)AAT>AGT	p.N3051S	OBSCN_uc001hsn.2_Missense_Mutation_p.N3051S|OBSCN_uc001hsq.1_Missense_Mutation_p.N307S	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3051	Ig-like 30.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AACGAGCTCAATGAGATCGAT	0.652													5	7	---	---	---	---	PASS	G	228473926	G	G	228473926	3	3	10	1	0	0	0	0	1	0	0	0	10812	101	4	5	9282	5	OBSCN	1	228473926	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	1073069	228473926	20776695	73	6109										
SIPA1L2	57568	broad.mit.edu	37	chr1	232581528	232581528	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gatccggcagagctctgaacAccctctgttgggccaagaag	12	12	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:232581528A>G	uc001hvg.2	-	9	3258	c.3100T>C	c.(3100-3102)TGT>CGT	p.C1034R	SIPA1L2_uc001hvf.2_Missense_Mutation_p.C108R	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1034					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				AGCTCTGAACACCCTCTGTTG	0.552													36	66	---	---	---	---	PASS	G	232581528	G	G	232581528	3	3	10	1	0	0	0	0	1	0	0	0	14330	159	6	5	2120	5	SIPA1L2	1	232581528	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	4107602	232581528	16669093	74	6110										
FMN2	56776	broad.mit.edu	37	chr1	240497432	240497432	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gctggaaaagaacagtgcctCtttccactgccagaacccca	8	14	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:240497432C>A	uc010pyd.1	+	13	4893	c.4668C>A	c.(4666-4668)CTC>CTA	p.L1556L	FMN2_uc010pye.1_Silent_p.L1560L|FMN2_uc010pyf.1_Silent_p.L202L|FMN2_uc010pyg.1_Silent_p.L152L	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1556	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AACAGTGCCTCTTTCCACTGC	0.358													75	73	---	---	---	---	PASS	A	240497432	A	A	240497432	2	1	10	1	0	0	0	0	0	0	0	1	5950	900	32	2		2	FMN2	1	240497432	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	7915904	240497432	8753189	75	6111										
ZNF496	84838	broad.mit.edu	37	chr1	247492858	247492858	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tttccttcggagccaagactCgggggcacagggctgtgggc	16	11	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:247492858C>A	uc001ico.2	-	3	488	c.23G>T	c.(22-24)CGA>CTA	p.R8L	ZNF496_uc009xgv.2_Missense_Mutation_p.R8L|ZNF496_uc001icp.2_Missense_Mutation_p.R8L|ZNF496_uc010pyv.1_Missense_Mutation_p.R8L	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	8					positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			AGCCAAGACTCGGGGGCACAG	0.582													16	60	---	---	---	---	PASS	A	247492858	A	A	247492858	3	1	10	1	0	0	0	0	1	0	0	0	17942	884	31	2	1768	2	ZNF496	1	247492858	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	6995426	247492858	1757763	76	6112										
NLRP3	114548	broad.mit.edu	37	chr1	247588563	247588563	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atctctcagcaaatcaggctGgagctgctgaaatggattga	11	8	3	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:247588563G>A	uc001icr.2	+	5	1956	c.1818G>A	c.(1816-1818)CTG>CTA	p.L606L	NLRP3_uc001ics.2_Silent_p.L606L|NLRP3_uc001icu.2_Silent_p.L606L|NLRP3_uc001icw.2_Silent_p.L606L|NLRP3_uc001icv.2_Silent_p.L606L|NLRP3_uc010pyw.1_Silent_p.L604L|NLRP3_uc001ict.1_Silent_p.L604L	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	606					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			AAATCAGGCTGGAGCTGCTGA	0.458													17	54	---	---	---	---	PASS	A	247588563	A	A	247588563	2	1	10	1	0	0	0	0	0	0	0	1	10478	1335	47	3		3	NLRP3	1	247588563	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	95705	247588563	1662058	77	6113										
OR2B11	127623	broad.mit.edu	37	chr1	247614643	247614643	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gagagaaggatgagagccagGggcaccaacacgaagaaggc	16	8	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:247614643G>C	uc010pyx.1	-	1	642	c.642C>G	c.(640-642)CCC>CCG	p.P214P		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TGAGAGCCAGGGGCACCAACA	0.577													13	25	---	---	---	---	PASS	C	247614643	C	C	247614643	2	2	10	1	0	0	0	0	0	0	0	1	10988	1219	43	4		4	OR2B11	1	247614643	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	26080	247614643	1635978	78	6114										
OR2W5	441932	broad.mit.edu	37	chr1	247655290	247655290	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cgtcattcccagcatcaaccCcctcatctacactttgagga	5	16	4	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:247655290C>A	uc001icz.1	+	1	861	c.861C>A	c.(859-861)CCC>CCA	p.P287P		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	287					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			AGCATCAACCCCCTCATCTAC	0.532													34	63	---	---	---	---	PASS	A	247655290	A	A	247655290	2	1	10	1	0	0	0	0	0	0	0	1	11034	610	22	3		3	OR2W5	1	247655290	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	40647	247655290	1595331	79	6115										
OR2W3	343171	broad.mit.edu	37	chr1	248059311	248059311	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atcatgaaccccaggctctgCcggggcttggtgtcagtgac	13	12	3	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr1:248059311C>A	uc001idp.1	+	3	692	c.423C>A	c.(421-423)TGC>TGA	p.C141*	OR2W3_uc010pzb.1_Nonsense_Mutation_p.C141*	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CCAGGCTCTGCCGGGGCTTGG	0.627													17	19	---	---	---	---	PASS	A	248059311	A	A	248059311	4	1	10	1	0	0	0	0	0	1	0	0	11033	747	26	3	425	3	OR2W3	1	248059311	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	404021	248059311	1191310	80	6116										
ASAP2	8853	broad.mit.edu	37	chr2	9475236	9475236	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttaaagatcaaacaggcccaGgatgaagaaagaaggcagtt	11	6	1	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:9475236G>T	uc002qzh.2	+	9	1117	c.777G>T	c.(775-777)CAG>CAT	p.Q259H	ASAP2_uc002qzi.2_Missense_Mutation_p.Q259H	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	259	Potential.				regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						AACAGGCCCAGGATGAAGAAA	0.413													6	61	---	---	---	---	PASS	T	9475236	T	T	9475236	3	4	10	1	0	0	0	0	1	0	0	0	1011	991	35	3	811	3	ASAP2	2	9475236	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08		9475236	233724137	81	6117										
DDX1	1653	broad.mit.edu	37	chr2	15770898	15770898	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttgttatttgtgtgtgatgcAggtggaagctataaaggcca	13	4	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:15770898A>T	uc002rce.2	+	26	2381	c.2093_splice	c.e26-2	p.G698_splice		NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1						DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		TGTGTGATGCAGGTGGAAGCT	0.408													84	88	---	---	---	---	PASS	T	15770898	T	T	15770898	5	4	10	1	0	0	0	0	0	0	1	0	4341	202	7	5	2193	5	DDX1	2	15770898	Splice_Site	SNP	A	TCGA-18-3416-01A-01D-0983-08	6295662	15770898	227428475	82	6118										
APOB	338	broad.mit.edu	37	chr2	21232877	21232877	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	taacatcaatagcctcaatgTgttgttttaactttccagct	5	9	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:21232877T>A	uc002red.2	-	26	6991	c.6863A>T	c.(6862-6864)CAC>CTC	p.H2288L		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2288					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AGCCTCAATGTGTTGTTTTAA	0.348													24	126	---	---	---	---	PASS	A	21232877	A	A	21232877	3	1	10	1	0	0	0	0	1	0	0	0	785	1696	59	5	6844	5	APOB	2	21232877	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	5461979	21232877	221966496	83	6119										
NCOA1	8648	broad.mit.edu	37	chr2	24930637	24930637	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttaagatcaactccaaacctGagcctggatgatgtaaaggt	9	8	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:24930637G>C	uc002rfk.2	+	11	2556	c.2298G>C	c.(2296-2298)CTG>CTC	p.L766L	NCOA1_uc010eye.2_Silent_p.L766L|NCOA1_uc002rfi.2_Silent_p.L615L|NCOA1_uc002rfj.2_Silent_p.L766L|NCOA1_uc002rfl.2_Silent_p.L766L	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	766									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTCCAAACCTGAGCCTGGATG	0.383			T	PAX3	alveolar rhadomyosarcoma								20	32	---	---	---	---	PASS	C	24930637	C	C	24930637	2	2	10	1	0	0	0	0	0	0	0	1	10228	1277	45	2		2	NCOA1	2	24930637	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	3697760	24930637	218268736	84	6120										
DNMT3A	1788	broad.mit.edu	37	chr2	25468908	25468908	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccctcaatgttccggcacttCtgccgcacctcgtacaccag	7	18	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:25468908C>G	uc002rgc.2	-	12	1712	c.1455G>C	c.(1453-1455)CAG>CAC	p.Q485H	DNMT3A_uc002rgd.2_Missense_Mutation_p.Q485H|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Missense_Mutation_p.Q296H	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	485	ADD.				regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCGGCACTTCTGCCGCACCT	0.612			Mis|F|N|S		AML								9	43	---	---	---	---	PASS	G	25468908	G	G	25468908	3	3	10	1	0	0	0	0	1	0	0	0	4676	912	32	2	1331	2	DNMT3A	2	25468908	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	538271	25468908	217730465	85	6121										
MEMO1	51072	broad.mit.edu	37	chr2	32145975	32145975	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aggcccaaggatgaaaattcTccggctaggagatacacaac	10	10	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:32145975T>A	uc002rnx.2	-	4	599	c.217A>T	c.(217-219)AGA>TGA	p.R73*	MEMO1_uc010ymu.1_Nonsense_Mutation_p.R50*|MEMO1_uc010ezq.2_Nonsense_Mutation_p.R73*|MEMO1_uc002rny.2_RNA|MEMO1_uc002rnz.2_RNA|MEMO1_uc010ymv.1_RNA	NM_015955	NP_057039	Q9Y316	MEMO1_HUMAN	mediator of cell motility 1 isoform 1	73					regulation of microtubule-based process	cytosol|nucleus				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)					ATGAAAATTCTCCGGCTAGGA	0.378													22	35	---	---	---	---	PASS	A	32145975	A	A	32145975	4	1	10	1	0	0	0	0	0	1	0	0	9471	1559	54	5	700	5	MEMO1	2	32145975	Nonsense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	6677067	32145975	211053398	86	6122										
MAP4K3	8491	broad.mit.edu	37	chr2	39509664	39509664	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tagtacttacatgcactttaGgtgttggaggaagaccatta	10	6	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:39509664G>T	uc002rro.2	-	22	1710	c.1619C>A	c.(1618-1620)CCT>CAT	p.P540H	MAP4K3_uc002rrp.2_Missense_Mutation_p.P519H|MAP4K3_uc010yns.1_Missense_Mutation_p.P93H	NM_003618	NP_003609	Q8IVH8	M4K3_HUMAN	mitogen-activated protein kinase kinase kinase	540					JNK cascade		ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(3)|lung(3)|stomach(1)|pancreas(1)	8		all_hematologic(82;0.211)				ATGCACTTTAGGTGTTGGAGG	0.323													5	43	---	---	---	---	PASS	T	39509664	T	T	39509664	3	4	10	1	0	0	0	0	1	0	0	0	9261	1000	35	3	1117	3	MAP4K3	2	39509664	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	7363689	39509664	203689709	87	6123										
MSH6	2956	broad.mit.edu	37	chr2	48027425	48027425	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggttgatacttgccatactcCttttggtaagcggctcctaa	9	10	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:48027425C>A	uc002rwd.3	+	4	2455	c.2303C>A	c.(2302-2304)CCT>CAT	p.P768H	MSH6_uc002rwc.2_Missense_Mutation_p.P768H|MSH6_uc010fbj.2_Missense_Mutation_p.P466H|MSH6_uc010yoi.1_Missense_Mutation_p.P638H|MSH6_uc010yoj.1_Missense_Mutation_p.P466H	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	768					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TGCCATACTCCTTTTGGTAAG	0.423			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				10	248	---	---	---	---	PASS	A	48027425	A	A	48027425	3	1	10	1	0	0	0	0	1	0	0	0	9874	681	24	3	2317	3	MSH6	2	48027425	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	8517761	48027425	195171948	88	6124										
FBXO11	80204	broad.mit.edu	37	chr2	48040932	48040932	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atgacagattaaacataccaGaattataaactagaattcca	4	7	0	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:48040932G>A	uc010fbl.2	-	17	1943	c.1829C>T	c.(1828-1830)TCT>TTT	p.S610F	FBXO11_uc002rwe.2_Missense_Mutation_p.S610F|FBXO11_uc002rwf.2_Missense_Mutation_p.S610F|FBXO11_uc010fbk.2_Missense_Mutation_p.S118F	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	694	PbH1 14.				ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AAACATACCAGAATTATAAAC	0.274													18	33	---	---	---	---	PASS	A	48040932	A	A	48040932	3	1	10	1	0	0	0	0	1	0	0	0	5727	942	33	2	816	2	FBXO11	2	48040932	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	13507	48040932	195158441	89	6125										
FSHR	2492	broad.mit.edu	37	chr2	49191003	49191003	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aatcctctgctgtagctggaCtcattgtcttctgccagaga	9	11	4	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:49191003C>T	uc002rww.2	-	10	1031	c.957G>A	c.(955-957)GAG>GAA	p.E319E	FSHR_uc002rwx.2_Silent_p.E257E|FSHR_uc010fbn.2_Silent_p.E293E	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	319	Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	TGTAGCTGGACTCATTGTCTT	0.443									Gonadal_Dysgenesis_46_XX				113	117	---	---	---	---	PASS	T	49191003	T	T	49191003	2	4	10	1	0	0	0	0	0	0	0	1	6073	564	20	3		3	FSHR	2	49191003	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	1150071	49191003	194008370	90	6126										
CHAC2	494143	broad.mit.edu	37	chr2	54001477	54001477	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	attatcttggtcctgcacctCtggaagacattgctgaacaa	8	10	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:54001477C>A	uc002rxk.1	+	3	465	c.370C>A	c.(370-372)CTG>ATG	p.L124M	ASB3_uc002rxg.1_Intron|ASB3_uc002rxh.1_Intron|ASB3_uc002rxi.3_Intron|ASB3_uc010yoo.1_Intron	NM_001008708	NP_001008708	Q8WUX2	CHAC2_HUMAN	ChaC, cation transport regulator-like 2	124											0			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TCCTGCACCTCTGGAAGACAT	0.358													6	110	---	---	---	---	PASS	A	54001477	A	A	54001477	3	1	10	1	0	0	0	0	1	0	0	0	3309	912	32	2	380	2	CHAC2	2	54001477	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	4810474	54001477	189197896	91	6127										
C2orf63	130162	broad.mit.edu	37	chr2	55449476	55449476	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atgtatctttgcacactttcCaaaaattccttgtcacttct	3	11	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:55449476C>A	uc002ryi.2	-	3	418	c.72G>T	c.(70-72)TTG>TTT	p.L24F	C2orf63_uc002ryh.2_5'UTR|C2orf63_uc002ryj.2_Intron	NM_152385	NP_689598	Q8NHS4	CB063_HUMAN	hypothetical protein LOC130162 isoform 1	24							binding			ovary(2)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(58;0.179)|Lung(47;0.189)			GCACACTTTCCAAAAATTCCT	0.363													6	99	---	---	---	---	PASS	A	55449476	A	A	55449476	3	1	10	1	0	0	0	0	1	0	0	0	2182	593	21	3	1732	3	C2orf63	2	55449476	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1447999	55449476	187749897	92	6128										
USP34	9736	broad.mit.edu	37	chr2	61475683	61475683	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tttcccataagaaaatcttcTgtatagggcgtcatgtccaa	7	9	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:61475683T>A	uc002sbe.2	-	49	6379	c.6357A>T	c.(6355-6357)ACA>ACT	p.T2119T	USP34_uc002sbf.2_Silent_p.T269T	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2119					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			GAAAATCTTCTGTATAGGGCG	0.358													19	33	---	---	---	---	PASS	A	61475683	A	A	61475683	2	1	10	1	0	0	0	0	0	0	0	1	17062	1567	55	5		5	USP34	2	61475683	Silent	SNP	T	TCGA-18-3416-01A-01D-0983-08	6026207	61475683	181723690	93	6129										
PPP3R1	5534	broad.mit.edu	37	chr2	68415796	68415796	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aagcttcttaaatctctttcCtagccttttaatttcatccg	3	11	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:68415796C>A	uc002sei.1	-	3	462	c.70G>T	c.(70-72)GGA>TGA	p.G24*		NM_000945	NP_000936	P63098	CANB1_HUMAN	protein phosphatase 3, regulatory subunit B,	24	EF-hand 1.				activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals	calcineurin complex|cytosol	calcium ion binding|calcium-dependent protein serine/threonine phosphatase activity|calmodulin binding				0					Pimecrolimus(DB00337)	AATCTCTTTCCTAGCCTTTTA	0.368													5	53	---	---	---	---	PASS	A	68415796	A	A	68415796	4	1	10	1	0	0	0	0	0	1	0	0	12400	690	24	3	458	3	PPP3R1	2	68415796	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	6940113	68415796	174783577	94	6130										
GKN2	200504	broad.mit.edu	37	chr2	69173541	69173541	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtctttgatcagagactccaGagggttgtacttgacccagg	12	9	2	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:69173541G>T	uc002sfa.2	-	5	476	c.367C>A	c.(367-369)CTG>ATG	p.L123M	GKN2_uc002sfb.3_Missense_Mutation_p.L123M	NM_182536	NP_872342	Q86XP6	GKN2_HUMAN	trefoil factor interactions(z) 1 precursor	123	BRICHOS.					extracellular region					0						AGAGACTCCAGAGGGTTGTAC	0.413													7	179	---	---	---	---	PASS	T	69173541	T	T	69173541	3	4	10	1	0	0	0	0	1	0	0	0	6425	933	33	2	195	2	GKN2	2	69173541	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	757745	69173541	174025832	95	6131										
DYSF	8291	broad.mit.edu	37	chr2	71709007	71709007	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gccttttctctttttcttccAgggatttgaatgggacctca	8	10	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:71709007A>T	uc002sie.2	+	3	521	c.145_splice	c.e3-2	p.G49_splice	DYSF_uc010feg.2_Splice_Site_p.G49_splice|DYSF_uc010feh.2_Splice_Site_p.G49_splice|DYSF_uc002sig.3_Splice_Site_p.G49_splice|DYSF_uc010yqx.1_Splice_Site|DYSF_uc010fee.2_Splice_Site_p.G49_splice|DYSF_uc010fef.2_Splice_Site_p.G49_splice|DYSF_uc010fei.2_Splice_Site_p.G49_splice|DYSF_uc010fek.2_Splice_Site_p.G50_splice|DYSF_uc010fej.2_Splice_Site_p.G50_splice|DYSF_uc010fel.2_Splice_Site_p.G50_splice|DYSF_uc010feo.2_Splice_Site_p.G50_splice|DYSF_uc010fem.2_Splice_Site_p.G50_splice|DYSF_uc010fen.2_Splice_Site_p.G50_splice|DYSF_uc002sif.2_Splice_Site_p.G50_splice	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8							cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						TTTTTCTTCCAGGGATTTGAA	0.323													7	18	---	---	---	---	PASS	T	71709007	T	T	71709007	5	4	10	1	0	0	0	0	0	0	1	0	4859	202	7	5	248	5	DYSF	2	71709007	Splice_Site	SNP	A	TCGA-18-3416-01A-01D-0983-08	2535466	71709007	171490366	96	6132										
TET3	200424	broad.mit.edu	37	chr2	74275351	74275351	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggggctgtgactgtgctctcAaccacctgcttccattcaga	10	13	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:74275351A>T	uc002skb.3	+	1	1902	c.1902A>T	c.(1900-1902)TCA>TCT	p.S634S	TET3_uc010fez.1_Silent_p.S634S	NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	634							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CTGTGCTCTCAACCACCTGCT	0.577													4	22	---	---	---	---	PASS	T	74275351	T	T	74275351	2	4	10	1	0	0	0	0	0	0	0	1	15768	117	5	5		5	TET3	2	74275351	Silent	SNP	A	TCGA-18-3416-01A-01D-0983-08	2566344	74275351	168924022	97	6133										
TEKT4	150483	broad.mit.edu	37	chr2	95542369	95542369	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaagcttctagaagcggagcAgtccctgcgcaacctcgagg	13	12	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:95542369A>G	uc002stw.1	+	6	1256	c.1163A>G	c.(1162-1164)CAG>CGG	p.Q388R	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	388	Potential.				cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						GAAGCGGAGCAGTCCCTGCGC	0.597													9	16	---	---	---	---	PASS	G	95542369	G	G	95542369	3	3	10	1	0	0	0	0	1	0	0	0	15752	188	7	5	1185	5	TEKT4	2	95542369	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	21267018	95542369	147657004	98	6134										
RANBP2	5903	broad.mit.edu	37	chr2	109365585	109365585	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atttgactagatacgatgttGgtaagttatatgtttcagag	10	3	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:109365585G>T	uc002tem.3	+	9	1399	c.1273G>T	c.(1273-1275)GGT>TGT	p.G425C		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	425					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						ATACGATGTTGGTAAGTTATA	0.269													7	166	---	---	---	---	PASS	T	109365585	T	T	109365585	3	4	10	1	0	0	0	0	1	0	0	0	13028	1362	47	3	1307	3	RANBP2	2	109365585	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	13823216	109365585	133833788	99	6135										
CKAP2L	150468	broad.mit.edu	37	chr2	113514469	113514469	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcataaagtctatacatttaCcatttccttgatctgttaac	3	9	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:113514469C>A	uc002tie.2	-	4	558	c.479G>T	c.(478-480)GGT>GTT	p.G160V	CKAP2L_uc002tif.2_Splice_Site_p.M1_splice|CKAP2L_uc010yxp.1_5'UTR|CKAP2L_uc010yxq.1_5'UTR	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	160						centrosome					0						TATACATTTACCATTTCCTTG	0.343													10	40	---	---	---	---	PASS	A	113514469	A	A	113514469	3	1	10	1	0	0	0	0	1	0	0	0	3443	507	18	3	1782	3	CKAP2L	2	113514469	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	4148884	113514469	129684904	100	6136										
DDX18	8886	broad.mit.edu	37	chr2	118579815	118579815	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gggtttgaagaggaattaaaGcaaattattaaacttttgcc	9	4	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:118579815G>C	uc002tlh.1	+	7	1143	c.1044G>C	c.(1042-1044)AAG>AAC	p.K348N		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	348	Helicase ATP-binding.						ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4						AGGAATTAAAGCAAATTATTA	0.358													10	37	---	---	---	---	PASS	C	118579815	C	C	118579815	3	2	10	1	0	0	0	0	1	0	0	0	4345	962	34	4	1070	4	DDX18	2	118579815	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	5065346	118579815	124619558	101	6137										
ZRANB3	84083	broad.mit.edu	37	chr2	135965099	135965099	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	acgtaaaaagagttcttgtgCgttcacattacagagctgac	9	8	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:135965099C>A	uc002tum.2	-	19	3031	c.2914G>T	c.(2914-2916)GCA>TCA	p.A972S	ZRANB3_uc002tuk.2_Missense_Mutation_p.A515S|ZRANB3_uc002tul.2_Missense_Mutation_p.A970S	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	972						intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		AGTTCTTGTGCGTTCACATTA	0.413													5	138	---	---	---	---	PASS	A	135965099	A	A	135965099	3	1	10	1	0	0	0	0	1	0	0	0	18221	768	27	1	337	1	ZRANB3	2	135965099	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	17385284	135965099	107234274	102	6138										
LRP1B	53353	broad.mit.edu	37	chr2	141359117	141359117	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccaggccgagtctggtccacAgtgtgtctggtgatggatga	15	9	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:141359117A>T	uc002tvj.1	-	42	7863	c.6891T>A	c.(6889-6891)ACT>ACA	p.T2297T		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2297	Extracellular (Potential).|LDL-receptor class B 24.				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)		TCTGGTCCACAGTGTGTCTGG	0.512										TSP Lung(27;0.18)			6	17	---	---	---	---	PASS	T	141359117	T	T	141359117	2	4	10	1	0	0	0	0	0	0	0	1	8955	175	7	5		5	LRP1B	2	141359117	Silent	SNP	A	TCGA-18-3416-01A-01D-0983-08	5394018	141359117	101840256	103	6139										
KYNU	8942	broad.mit.edu	37	chr2	143798134	143798134	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gttgtgaacataattactccGtctcatgtagaggagcgggg	13	7	1	2	rs145299669		TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:143798134G>T	uc002tvl.2	+	13	1309	c.1179G>T	c.(1177-1179)CCG>CCT	p.P393P	KYNU_uc010fnm.2_Silent_p.P393P	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	393					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	TAATTACTCCGTCTCATGTAG	0.393													9	27	---	---	---	---	PASS	T	143798134	T	T	143798134	2	4	10	1	0	0	0	0	0	0	0	1	8587	1132	40	1		1	KYNU	2	143798134	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	2439017	143798134	99401239	104	6140										
ARHGAP15	55843	broad.mit.edu	37	chr2	144244987	144244987	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cgatacaagcgacaaaaatcGagttaaaagcagattaaaga	8	6	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:144244987G>T	uc002tvm.3	+	9	900	c.749G>T	c.(748-750)CGA>CTA	p.R250L	ARHGAP15_uc002tvn.2_Missense_Mutation_p.R16L	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	250					regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		GACAAAAATCGAGTTAAAAGC	0.338													4	63	---	---	---	---	PASS	T	144244987	T	T	144244987	3	4	10	1	0	0	0	0	1	0	0	0	866	1058	37	2	779	2	ARHGAP15	2	144244987	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	446853	144244987	98954386	105	6141										
NEB	4703	broad.mit.edu	37	chr2	152512796	152512796	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgggcatcctttgcagccgtGacactgagcatgtcggcagg	14	11	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:152512796G>C	uc010fnx.2	-	49	6557	c.6366C>G	c.(6364-6366)GTC>GTG	p.V2122V		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2122	Nebulin 56.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TTGCAGCCGTGACACTGAGCA	0.473													41	86	---	---	---	---	PASS	C	152512796	C	C	152512796	2	2	10	1	0	0	0	0	0	0	0	1	10302	1277	45	2		2	NEB	2	152512796	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	8267809	152512796	90686577	106	6142										
TTC21B	79809	broad.mit.edu	37	chr2	166802149	166802149	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ataaggctttctctccagctCctttacgttgttccttcact	5	13	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:166802149C>A	uc002udk.2	-	4	447	c.314G>T	c.(313-315)GGA>GTA	p.G105V	TTC21B_uc002udl.2_Missense_Mutation_p.G105V|uc002udm.1_Intron	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	105						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						CTCTCCAGCTCCTTTACGTTG	0.368													13	26	---	---	---	---	PASS	A	166802149	A	A	166802149	3	1	10	1	0	0	0	0	1	0	0	0	16685	855	30	2	3740	2	TTC21B	2	166802149	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	14289353	166802149	76397224	107	6143										
LRP2	4036	broad.mit.edu	37	chr2	170127413	170127413	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	acacacacaaacctttctcaCctgtgccatcaatcttttgc	3	15	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:170127413C>A	uc002ues.2	-	16	2533	c.2320_splice	c.e16+1	p.G774_splice	LRP2_uc010zdf.1_Intron	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2						hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ACCTTTCTCACCTGTGCCATC	0.279													4	24	---	---	---	---	PASS	A	170127413	A	A	170127413	5	1	10	1	0	0	0	0	0	0	1	0	8956	521	18	3	11902	3	LRP2	2	170127413	Splice_Site	SNP	C	TCGA-18-3416-01A-01D-0983-08	3325264	170127413	73071960	108	6144										
PDE11A	50940	broad.mit.edu	37	chr2	178592803	178592803	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tccccagctccatgaacatcCggagagcagctgtgatcatg	10	13	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:178592803C>A	uc002ulq.2	-	11	2204	c.1886G>T	c.(1885-1887)CGG>CTG	p.R629L	PDE11A_uc002ulp.2_Missense_Mutation_p.R185L|PDE11A_uc002ulr.2_Missense_Mutation_p.R379L|PDE11A_uc002uls.1_Missense_Mutation_p.R271L|PDE11A_uc002ult.1_Missense_Mutation_p.R379L|PDE11A_uc002ulu.1_Missense_Mutation_p.R271L	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	629					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			CATGAACATCCGGAGAGCAGC	0.418									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				69	38	---	---	---	---	PASS	A	178592803	A	A	178592803	3	1	10	1	0	0	0	0	1	0	0	0	11631	652	23	1	955	1	PDE11A	2	178592803	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	8465390	178592803	64606570	109	6145										
RBM45	129831	broad.mit.edu	37	chr2	178988945	178988945	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aaaagctcctgctgaaactcCtgtgaaagaaagacttttta	7	8	0	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:178988945C>A	uc002ulv.2	+	8	1252	c.1160C>A	c.(1159-1161)CCT>CAT	p.P387H		NM_152945	NP_694453	Q8IUH3	RBM45_HUMAN	RNA binding motif protein 45	389					cell differentiation|nervous system development	cytoplasm|nucleus	nucleotide binding|RNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.00957)|all cancers(119;0.037)			GCTGAAACTCCTGTGAAAGAA	0.343													6	161	---	---	---	---	PASS	A	178988945	A	A	178988945	3	1	10	1	0	0	0	0	1	0	0	0	13139	681	24	3	1190	3	RBM45	2	178988945	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	396142	178988945	64210428	110	6146										
TTN	7273	broad.mit.edu	37	chr2	179399281	179399281	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gatattctcaatgatctgttGgttagtttcagccaggaatg	10	6	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:179399281G>T	uc010zfg.1	-	307	94581	c.94357C>A	c.(94357-94359)CAA>AAA	p.Q31453K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q25148K|TTN_uc010zfi.1_Missense_Mutation_p.Q25081K|TTN_uc010zfj.1_Missense_Mutation_p.Q24956K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32380							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)			ATGATCTGTTGGTTAGTTTCA	0.418													7	172	---	---	---	---	PASS	T	179399281	T	T	179399281	3	4	10	1	0	0	0	0	1	0	0	0	16732	1357	47	3	5938	3	TTN	2	179399281	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	410336	179399281	63800092	111	6147										
TTN	7273	broad.mit.edu	37	chr2	179468828	179468828	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccagtagccagtaattggagAgccaccattgtccaaaggag	11	10	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:179468828A>G	uc010zfg.1	-	231	47106	c.46882T>C	c.(46882-46884)TCT>CCT	p.S15628P	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S9323P|TTN_uc010zfi.1_Missense_Mutation_p.S9256P|TTN_uc010zfj.1_Missense_Mutation_p.S9131P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16555							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)			GTAATTGGAGAGCCACCATTG	0.493													15	180	---	---	---	---	PASS	G	179468828	G	G	179468828	3	3	10	1	0	0	0	0	1	0	0	0	16732	304	11	5	53431	5	TTN	2	179468828	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	69547	179468828	63730545	112	6148			1	6		4	4	3533	N	G_C_A	3.177614e-05
TTN	7273	broad.mit.edu	37	chr2	179469536	179469536	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ataatgggtgatttcactgcCaccattatcaagaggggcat	10	8	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:179469536C>A	uc010zfg.1	-	230	46800	c.46576G>T	c.(46576-46578)GGC>TGC	p.G15526C	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G9221C|TTN_uc010zfi.1_Missense_Mutation_p.G9154C|TTN_uc010zfj.1_Missense_Mutation_p.G9029C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16453							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)			ATTTCACTGCCACCATTATCA	0.443													7	147	---	---	---	---	PASS	A	179469536	A	A	179469536	3	1	10	1	0	0	0	0	1	0	0	0	16732	594	21	3	53741	3	TTN	2	179469536	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	708	179469536	63729837	113	6149			1	6		4	4	3533	N	G_C_A	3.177614e-05
TTN	7273	broad.mit.edu	37	chr2	179471753	179471753	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aaccttctcttttacctagtGgatcaactgcaagaattggt	7	9	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:179471753G>T	uc010zfg.1	-	227	46096	c.45872C>A	c.(45871-45873)CCA>CAA	p.P15291Q	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P8986Q|TTN_uc010zfi.1_Missense_Mutation_p.P8919Q|TTN_uc010zfj.1_Missense_Mutation_p.P8794Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16218							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)			TTTACCTAGTGGATCAACTGC	0.393													7	179	---	---	---	---	PASS	T	179471753	T	T	179471753	3	4	10	1	0	0	0	0	1	0	0	0	16732	1348	47	3	54457	3	TTN	2	179471753	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	2217	179471753	63727620	114	6150			1	6		4	4	3533	N	G_C_A	3.177614e-05
TTN	7273	broad.mit.edu	37	chr2	179472360	179472360	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	attctaagagtcttcccagcCattatttgtattccaccctt	4	12	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:179472360C>A	uc010zfg.1	-	226	45575	c.45351G>T	c.(45349-45351)ATG>ATT	p.M15117I	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.M8812I|TTN_uc010zfi.1_Missense_Mutation_p.M8745I|TTN_uc010zfj.1_Missense_Mutation_p.M8620I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16044							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)			TCTTCCCAGCCATTATTTGTA	0.448													6	142	---	---	---	---	PASS	A	179472360	A	A	179472360	3	1	10	1	0	0	0	0	1	0	0	0	16732	594	21	3	54982	3	TTN	2	179472360	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	607	179472360	63727013	115	6151			1	6		4	4	3533	N	G_C_A	3.177614e-05
TTN	7273	broad.mit.edu	37	chr2	179577134	179577134	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	catcctctactgtgctacttGgaatttccaggattgccgat	8	11	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:179577134G>T	uc010zfg.1	-	92	24007	c.23783C>A	c.(23782-23784)CCA>CAA	p.P7928Q	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P4589Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8855							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)			TGTGCTACTTGGAATTTCCAG	0.403													9	244	---	---	---	---	PASS	T	179577134	T	T	179577134	3	4	10	1	0	0	0	0	1	0	0	0	16732	1348	47	3	77086	3	TTN	2	179577134	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	104774	179577134	63622239	116	6152										
TTN	7273	broad.mit.edu	37	chr2	179617883	179617883	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tctcaatctcttgttcaatcCtctcatgcaaaattgattca	3	11	5	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:179617883C>T	uc010zfg.1	-	45	10552	c.10328G>A	c.(10327-10329)AGG>AAG	p.R3443K	TTN_uc010zfh.1_Missense_Mutation_p.R3589K|TTN_uc010zfi.1_Missense_Mutation_p.R3522K|TTN_uc010zfj.1_Missense_Mutation_p.R3397K|TTN_uc002umz.1_Missense_Mutation_p.R104K|TTN_uc002unb.2_Missense_Mutation_p.R3443K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TTGTTCAATCCTCTCATGCAA	0.299													8	66	---	---	---	---	PASS	T	179617883	T	T	179617883	3	4	10	1	0	0	0	0	1	0	0	0	16732	681	24	3	99973	3	TTN	2	179617883	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	40749	179617883	63581490	117	6153										
TTN	7273	broad.mit.edu	37	chr2	179654793	179654793	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cttgttctttgactttgggtGtggcaactatgactttaggt	11	6	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:179654793G>A	uc010zfg.1	-	12	2074	c.1850C>T	c.(1849-1851)ACA>ATA	p.T617I	TTN_uc010zfh.1_Missense_Mutation_p.T571I|TTN_uc010zfi.1_Missense_Mutation_p.T571I|TTN_uc010zfj.1_Missense_Mutation_p.T571I|TTN_uc002unb.2_Missense_Mutation_p.T617I|TTN_uc010frg.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	617							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)			GACTTTGGGTGTGGCAACTAT	0.333													68	29	---	---	---	---	PASS	A	179654793	A	A	179654793	3	1	10	1	0	0	0	0	1	0	0	0	16732	1377	48	3	109542	3	TTN	2	179654793	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	36910	179654793	63544580	118	6154										
CCDC141	285025	broad.mit.edu	37	chr2	179742795	179742795	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cgagtcagaacaatgcttggCtttagcatcatcctgctcct	8	12	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:179742795C>T	uc002unf.1	-	2	127	c.70G>A	c.(70-72)GCC>ACC	p.A24T	CCDC141_uc002ung.2_Missense_Mutation_p.A599T	NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	24							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			CAATGCTTGGCTTTAGCATCA	0.363													53	41	---	---	---	---	PASS	T	179742795	T	T	179742795	3	4	10	1	0	0	0	0	1	0	0	0	2775	797	28	3	2605	3	CCDC141	2	179742795	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	88002	179742795	63456578	119	6155										
C2orf66	401027	broad.mit.edu	37	chr2	197672176	197672176	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agaagaaactttcagcctttGagataattgtgaaaggagtt	10	4	1	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:197672176G>C	uc002utv.2	-	2	1234	c.345C>G	c.(343-345)CTC>CTG	p.L115L		NM_213608	NP_998773	Q6UXQ4	CB066_HUMAN	hypothetical protein LOC401027 precursor	115						extracellular region					0						TTCAGCCTTTGAGATAATTGT	0.388													16	84	---	---	---	---	PASS	C	197672176	C	C	197672176	2	2	10	1	0	0	0	0	0	0	0	1	2185	1277	45	2		2	C2orf66	2	197672176	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	17929381	197672176	45527197	120	6156										
SGOL2	151246	broad.mit.edu	37	chr2	201436176	201436176	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gctgacatggatttaactgcTagtgaagtcagcaaaattgt	10	6	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:201436176T>C	uc002uvw.2	+	7	1220	c.1107T>C	c.(1105-1107)GCT>GCC	p.A369A	SGOL2_uc010zhd.1_Silent_p.A369A|SGOL2_uc010zhe.1_Silent_p.A369A	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	369					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						ATTTAACTGCTAGTGAAGTCA	0.343													10	34	---	---	---	---	PASS	C	201436176	C	C	201436176	2	2	10	1	0	0	0	0	0	0	0	1	14217	1509	53	5		5	SGOL2	2	201436176	Silent	SNP	T	TCGA-18-3416-01A-01D-0983-08	3764000	201436176	41763197	121	6157										
FAM126B	285172	broad.mit.edu	37	chr2	201857011	201857011	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gataataacttaccaatagtGgttgagaaaaaagctctagc	8	6	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:201857011G>T	uc002uws.3	-	10	1012	c.824C>A	c.(823-825)CCA>CAA	p.P275Q	FAM126B_uc002uwu.2_Missense_Mutation_p.P193Q|FAM126B_uc002uwv.2_Missense_Mutation_p.P275Q	NM_173822	NP_776183	Q8IXS8	F126B_HUMAN	hypothetical protein LOC285172	275						intracellular				ovary(1)	1						TACCAATAGTGGTTGAGAAAA	0.338													5	76	---	---	---	---	PASS	T	201857011	T	T	201857011	3	4	10	1	0	0	0	0	1	0	0	0	5430	1348	47	3	780	3	FAM126B	2	201857011	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	420835	201857011	41342362	122	6158										
ALS2CR4	65062	broad.mit.edu	37	chr2	202494079	202494079	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gctgatctcctgctagaacaTatatcacaacaatattccac	4	12	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:202494079T>C	uc002uyh.1	-	10	844	c.743A>G	c.(742-744)TAT>TGT	p.Y248C	ALS2CR4_uc002uyg.1_Missense_Mutation_p.Y240C|ALS2CR4_uc010zho.1_Missense_Mutation_p.Y43C|ALS2CR4_uc010zhp.1_RNA	NM_001044385	NP_001037850	Q96Q45	TM237_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	272						integral to membrane	protein binding				0						TGCTAGAACATATATCACAAC	0.408													24	21	---	---	---	---	PASS	C	202494079	C	C	202494079	3	2	10	1	0	0	0	0	1	0	0	0	554	1406	49	5	503	5	ALS2CR4	2	202494079	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	637068	202494079	40705294	123	6159										
C2orf80	389073	broad.mit.edu	37	chr2	209046009	209046009	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tacgatttggatatatgggtCtgccatggagtggtattttc	12	5	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:209046009C>A	uc002vcr.2	-	5	399	c.227G>T	c.(226-228)AGA>ATA	p.R76I		NM_001099334	NP_001092804	Q0P641	CB080_HUMAN	hypothetical protein LOC389073	76										skin(1)	1						ATATATGGGTCTGCCATGGAG	0.353													18	29	---	---	---	---	PASS	A	209046009	A	A	209046009	3	1	10	1	0	0	0	0	1	0	0	0	2197	913	32	2	374	2	C2orf80	2	209046009	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	6551930	209046009	34153364	124	6160										
PTH2R	5746	broad.mit.edu	37	chr2	209358352	209358352	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aatctaacccagacactgaaGgatgccaaggagaaactgag	10	9	1	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:209358352G>T	uc002vdb.2	+	13	1834	c.1621G>T	c.(1621-1623)GGA>TGA	p.G541*	PTH2R_uc010zjb.1_Nonsense_Mutation_p.G552*|PTH2R_uc010fuo.1_Intron	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	541	Cytoplasmic (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		AGACACTGAAGGATGCCAAGG	0.498													17	70	---	---	---	---	PASS	T	209358352	T	T	209358352	4	4	10	1	0	0	0	0	0	1	0	0	12760	1001	35	3	1671	3	PTH2R	2	209358352	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	312343	209358352	33841021	125	6161										
C2orf67	151050	broad.mit.edu	37	chr2	211019273	211019273	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	caaagatgaaaagctgatacCctttgctgttgcctccctca	7	12	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:211019273C>A	uc002vds.2	-	2	242	c.34G>T	c.(34-36)GGT>TGT	p.G12C	C2orf67_uc002vdt.2_Missense_Mutation_p.G12C|C2orf67_uc002vdw.2_Missense_Mutation_p.G12C|C2orf67_uc002vdy.1_Missense_Mutation_p.G12C|C2orf67_uc002vdv.2_Missense_Mutation_p.G12C|C2orf67_uc002vdx.1_Missense_Mutation_p.G12C	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	12										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		AAGCTGATACCCTTTGCTGTT	0.413													8	176	---	---	---	---	PASS	A	211019273	A	A	211019273	3	1	10	1	0	0	0	0	1	0	0	0	2186	623	22	3	2985	3	C2orf67	2	211019273	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1660921	211019273	32180100	126	6162										
ACADL	33	broad.mit.edu	37	chr2	211081131	211081131	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atttgcctgcagtcatctggGgaataaagtgcttaatctgt	10	7	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:211081131G>T	uc002vdz.3	-	4	704	c.476C>A	c.(475-477)CCC>CAC	p.P159H		NM_001608	NP_001599	P28330	ACADL_HUMAN	long-chain acyl-CoA dehydrogenase precursor	159					carnitine catabolic process|carnitine metabolic process, CoA-linked|fatty acid beta-oxidation using acyl-CoA dehydrogenase|negative regulation of fatty acid biosynthetic process|negative regulation of fatty acid oxidation|regulation of cholesterol metabolic process|temperature homeostasis	mitochondrial matrix	long-chain-acyl-CoA dehydrogenase activity|palmitoyl-CoA oxidase activity				0		Renal(323;0.202)		Epithelial(149;0.00631)|Lung(261;0.0438)|LUSC - Lung squamous cell carcinoma(261;0.0466)|all cancers(144;0.0621)		AGTCATCTGGGGAATAAAGTG	0.398													7	117	---	---	---	---	PASS	T	211081131	T	T	211081131	3	4	10	1	0	0	0	0	1	0	0	0	112	1232	43	3	848	3	ACADL	2	211081131	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	61858	211081131	32118242	127	6163										
WDR69	164781	broad.mit.edu	37	chr2	228770955	228770955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttatttttgtgttgtaggaaGgtaaatatcttaattggtca	9	2	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:228770955G>T	uc002vpn.1	+	9	838	c.759G>T	c.(757-759)AAG>AAT	p.K253N	WDR69_uc010zlw.1_Missense_Mutation_p.K238N|WDR69_uc002vpo.1_RNA	NM_178821	NP_849143	Q8N136	WDR69_HUMAN	WD repeat domain 69	253	WD 4.									breast(1)	1		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;1.22e-10)|all cancers(144;8.11e-08)|Lung(261;0.011)|LUSC - Lung squamous cell carcinoma(224;0.0148)		GTTGTAGGAAGGTAAATATCT	0.358													5	63	---	---	---	---	PASS	T	228770955	T	T	228770955	3	4	10	1	0	0	0	0	1	0	0	0	17316	991	35	3	793	3	WDR69	2	228770955	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	17689824	228770955	14428418	128	6164										
SPHKAP	80309	broad.mit.edu	37	chr2	228883619	228883619	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagggtctgagactttgaagCagtttccatgattctcctgt	10	9	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:228883619C>A	uc002vpq.2	-	7	1998	c.1951G>T	c.(1951-1953)GCT>TCT	p.A651S	SPHKAP_uc002vpp.2_Missense_Mutation_p.A651S|SPHKAP_uc010zlx.1_Missense_Mutation_p.A651S	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	651						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GACTTTGAAGCAGTTTCCATG	0.463													18	58	---	---	---	---	PASS	A	228883619	A	A	228883619	3	1	10	1	0	0	0	0	1	0	0	0	15047	710	25	3	3175	3	SPHKAP	2	228883619	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	112664	228883619	14315754	129	6165										
INPP5D	3635	broad.mit.edu	37	chr2	234094557	234094557	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agctggtggtgaagtttggtGagactcttccaaaggtaatt	13	5	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:234094557G>A	uc010zmo.1	+	20	2497	c.2344G>A	c.(2344-2346)GAG>AAG	p.E782K	INPP5D_uc010zmp.1_Missense_Mutation_p.E781K	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	782					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		GAAGTTTGGTGAGACTCTTCC	0.488													12	12	---	---	---	---	PASS	A	234094557	A	A	234094557	3	1	10	1	0	0	0	0	1	0	0	0	7756	1291	45	2	1934	2	INPP5D	2	234094557	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	5210938	234094557	9104816	130	6166										
SPP2	6694	broad.mit.edu	37	chr2	234969103	234969103	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gctggtcctcctccacgtctGagtcttacagcagcgaagag	11	13	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:234969103G>T	uc002vvk.1	+	4	509	c.424G>T	c.(424-426)GAG>TAG	p.E142*	SPP2_uc010fyl.1_Nonsense_Mutation_p.E62*	NM_006944	NP_008875	Q13103	SPP24_HUMAN	secreted phosphoprotein 2, 24kDa precursor	142					bone remodeling|skeletal system development	extracellular region	endopeptidase inhibitor activity				0		Breast(86;0.0109)|Renal(207;0.019)|all_lung(227;0.13)|all_hematologic(139;0.182)		Epithelial(121;5.73e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000166)|Lung(119;0.00539)|LUSC - Lung squamous cell carcinoma(224;0.00846)		CTCCACGTCTGAGTCTTACAG	0.562													13	20	---	---	---	---	PASS	T	234969103	T	T	234969103	4	4	10	1	0	0	0	0	0	1	0	0	15086	1291	45	2	438	2	SPP2	2	234969103	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	874546	234969103	8230270	131	6167										
COL6A3	1293	broad.mit.edu	37	chr2	238285988	238285988	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagaatgtctcgcttgctctCtgcaatgaaggtagattagg	11	8	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:238285988C>T	uc002vwl.2	-	7	2783	c.2498_splice	c.e7-1	p.E833_splice	COL6A3_uc002vwo.2_Splice_Site_p.E627_splice|COL6A3_uc010znj.1_Splice_Site_p.E226_splice|COL6A3_uc002vwq.2_Splice_Site_p.E627_splice|COL6A3_uc002vwr.2_Splice_Site_p.E426_splice|COL6A3_uc010znk.1_Intron	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor						axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CGCTTGCTCTCTGCAATGAAG	0.478													30	25	---	---	---	---	PASS	T	238285988	T	T	238285988	5	4	10	1	0	0	0	0	0	0	1	0	3701	927	32	2	7235	2	COL6A3	2	238285988	Splice_Site	SNP	C	TCGA-18-3416-01A-01D-0983-08	3316885	238285988	4913385	132	6168										
PRR21	643905	broad.mit.edu	37	chr2	240982214	240982214	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aagggacatgggtgaagagcCgtggatgaagggccgtgggt	20	5	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:240982214C>T	uc010zod.1	-	1	186	c.186G>A	c.(184-186)ACG>ACA	p.T62T		NM_001080835	NP_001074304	Q8WXC7	PRR21_HUMAN	proline rich 21	62	Pro-rich.									ovary(1)|skin(1)	2						GGTGAAGAGCCGTGGATGAAG	0.612													10	13	---	---	---	---	PASS	T	240982214	T	T	240982214	2	4	10	1	0	0	0	0	0	0	0	1	12592	639	23	1		1	PRR21	2	240982214	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	2696226	240982214	2217159	133	6169										
MYEOV2	150678	broad.mit.edu	37	chr2	241066130	241066130	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	acctctcgcctgcttcttgtGgttctgagcacctctagata	8	13	4	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr2:241066130G>T	uc002vyu.1	-	5	609	c.609C>A	c.(607-609)ACC>ACA	p.T203T		NM_138336	NP_612209	Q8WXC6	MYOV2_HUMAN	hypothetical protein LOC150678 isoform 1	Error:Variant_position_missing_in_Q8WXC6_after_alignment											0		all_epithelial(40;1.56e-11)|Breast(86;0.0002)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.81e-30)|all cancers(36;1.1e-27)|OV - Ovarian serous cystadenocarcinoma(60;2.74e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;8.54e-06)|Lung(119;0.00361)|LUSC - Lung squamous cell carcinoma(224;0.0153)|Colorectal(34;0.0202)|COAD - Colon adenocarcinoma(134;0.143)		TGCTTCTTGTGGTTCTGAGCA	0.468													5	62	---	---	---	---	PASS	T	241066130	T	T	241066130	2	4	10	1	0	0	0	0	0	0	0	1	10026	1335	47	3		3	MYEOV2	2	241066130	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	83916	241066130	2133243	134	6170										
IL17RE	132014	broad.mit.edu	37	chr3	9956415	9956415	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcactgctggccctcctcacCctactgggtgttgttctggc	11	15	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:9956415C>A	uc003btu.2	+	16	1518	c.1401C>A	c.(1399-1401)ACC>ACA	p.T467T	CIDEC_uc003bto.2_Intron|IL17RC_uc010hcr.2_5'Flank|IL17RC_uc011ato.1_5'Flank|IL17RC_uc010hcs.2_5'Flank|IL17RC_uc003btz.2_5'Flank|IL17RC_uc011atp.1_5'Flank|IL17RC_uc003bud.2_5'Flank|IL17RC_uc003bua.2_5'Flank|IL17RC_uc003bub.2_5'Flank|IL17RC_uc010hct.2_5'Flank|IL17RC_uc010hcu.2_5'Flank|IL17RC_uc010hcv.2_5'Flank|IL17RC_uc011atq.1_5'Flank|IL17RC_uc003buc.2_5'Flank|IL17RE_uc003btw.2_Silent_p.T467T|IL17RE_uc003btx.2_Silent_p.T351T|IL17RE_uc010hcq.2_Missense_Mutation_p.P492T|IL17RE_uc003bty.2_RNA	NM_153483	NP_705616	Q8NFR9	I17RE_HUMAN	interleukin 17 receptor E isoform 1	467	Helical; (Potential).					cytoplasm|extracellular region|integral to membrane	receptor activity			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(96;5.34e-64)		CCCTCCTCACCCTACTGGGTG	0.612													5	40	---	---	---	---	PASS	A	9956415	A	A	9956415	2	1	10	1	0	0	0	0	0	0	0	1	7643	610	22	3		3	IL17RE	3	9956415	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08		9956415	188066015	135	6171										
RAF1	5894	broad.mit.edu	37	chr3	12633208	12633208	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccgccagctttctactcaccGcagaacagccacctcattcc	5	19	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:12633208G>T	uc003bxf.3	-	11	1607	c.1192C>A	c.(1192-1194)CGC>AGC	p.R398S	RAF1_uc011aut.1_Missense_Mutation_p.R183S|RAF1_uc011auu.1_Missense_Mutation_p.R316S	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	398	Protein kinase.				activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	TCTACTCACCGCAGAACAGCC	0.547			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				18	13	---	---	---	---	PASS	T	12633208	T	T	12633208	3	4	10	1	0	0	0	0	1	0	0	0	13002	1101	38	1	782	1	RAF1	3	12633208	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	2676793	12633208	185389222	136	6172										
SLC4A7	9497	broad.mit.edu	37	chr3	27439274	27439274	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agaaatacagcaaaatcactGattgtcgatcgcacctatgt	7	9	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:27439274G>T	uc003cdv.2	-	18	2648	c.2577C>A	c.(2575-2577)ATC>ATA	p.I859I	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Silent_p.I740I|SLC4A7_uc011aww.1_Silent_p.I868I|SLC4A7_uc011awx.1_Silent_p.I855I|SLC4A7_uc011awy.1_Silent_p.I851I|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Silent_p.I740I|SLC4A7_uc011axb.1_Silent_p.I855I|SLC4A7_uc010hfl.2_Silent_p.I409I|SLC4A7_uc003cdw.2_Silent_p.I735I	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	859	Cytoplasmic (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						CAAAATCACTGATTGTCGATC	0.303													4	20	---	---	---	---	PASS	T	27439274	T	T	27439274	2	4	10	1	0	0	0	0	0	0	0	1	14658	1280	45	2		2	SLC4A7	3	27439274	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	14806066	27439274	170583156	137	6173										
SCN5A	6331	broad.mit.edu	37	chr3	38655263	38655263	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctgatatagttttcagggccCggaggactcggaaggtgcgt	15	8	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:38655263C>T	uc003cio.2	-	6	868	c.674G>A	c.(673-675)CGG>CAG	p.R225Q	SCN5A_uc003cin.2_Missense_Mutation_p.R225Q|SCN5A_uc003cil.3_Intron|SCN5A_uc010hhi.2_Intron|SCN5A_uc010hhk.2_Intron|SCN5A_uc011ayr.1_Intron|SCN5A_uc010hhl.1_Intron	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	225	Helical; Voltage-sensor; Name=S4 of repeat I; (Potential).		R -> W (in PFHB1A).|R -> Q (in LQT3).		blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	TTTCAGGGCCCGGAGGACTCG	0.498													6	3	---	---	---	---	PASS	T	38655263	T	T	38655263	3	4	10	1	0	0	0	0	1	0	0	0	13922	652	23	1	5468	1	SCN5A	3	38655263	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	11215989	38655263	159367167	138	6174										
WDR48	57599	broad.mit.edu	37	chr3	39136189	39136189	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtgaaacacttcatatggaaGagcggtggagacctcaccct	11	10	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:39136189G>C	uc003cit.2	+	19	1999	c.1989G>C	c.(1987-1989)AAG>AAC	p.K663N	WDR48_uc011ayt.1_Missense_Mutation_p.K654N|WDR48_uc011ayu.1_Missense_Mutation_p.K581N|WDR48_uc011ayv.1_Missense_Mutation_p.K388N|WDR48_uc003ciu.2_RNA	NM_020839	NP_065890	Q8TAF3	WDR48_HUMAN	WD repeat domain 48	663					interspecies interaction between organisms|protein deubiquitination	lysosome|nucleus	protein binding			ovary(1)|breast(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		TCATATGGAAGAGCGGTGGAG	0.418													18	33	---	---	---	---	PASS	C	39136189	C	C	39136189	3	2	10	1	0	0	0	0	1	0	0	0	17298	933	33	2	2063	2	WDR48	3	39136189	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	480926	39136189	158886241	139	6175										
NKTR	4820	broad.mit.edu	37	chr3	42681131	42681131	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggatgatgatagccagtccaGgagtccaagtagatctcgaa	12	8	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:42681131G>T	uc003clo.2	+	13	4082	c.3935G>T	c.(3934-3936)AGG>ATG	p.R1312M	NKTR_uc003clm.1_Missense_Mutation_p.R1059M|NKTR_uc003clp.2_Missense_Mutation_p.R1059M|NKTR_uc011azp.1_Intron|NKTR_uc003clq.1_Missense_Mutation_p.R1202M|NKTR_uc003clr.1_Missense_Mutation_p.R1059M|NKTR_uc003cls.2_Missense_Mutation_p.R1012M	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	1312	Arg/Ser tandem repeat-rich.				protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		AGCCAGTCCAGGAGTCCAAGT	0.448													5	53	---	---	---	---	PASS	T	42681131	T	T	42681131	3	4	10	1	0	0	0	0	1	0	0	0	10448	1000	35	3	3981	3	NKTR	3	42681131	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	3544942	42681131	155341299	140	6176										
KIF15	56992	broad.mit.edu	37	chr3	44893441	44893441	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaagaaagagagagaacatcCcaggtgtgctagtgtgttgg	15	5	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:44893441C>A	uc003cnx.3	+	33	4118	c.3969C>A	c.(3967-3969)TCC>TCA	p.S1323S	KIF15_uc010hiq.2_Silent_p.S1226S|KIF15_uc010hir.2_Silent_p.S371S	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	1323	Potential.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		AGAGAACATCCCAGGTGTGCT	0.383													6	70	---	---	---	---	PASS	A	44893441	A	A	44893441	2	1	10	1	0	0	0	0	0	0	0	1	8277	610	22	3		3	KIF15	3	44893441	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	2212310	44893441	153128989	141	6177										
SCAP	22937	broad.mit.edu	37	chr3	47465535	47465535	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	acaaggtaggggaaaatctcGctggggacagagaaggagaa	16	5	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:47465535G>T	uc003crh.1	-	9	1293	c.1038C>A	c.(1036-1038)GGC>GGA	p.G346G	SCAP_uc011baz.1_Silent_p.G91G|SCAP_uc003crg.2_5'UTR	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	346	SSD.|Helical; Name=4; (Potential).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		GGAAAATCTCGCTGGGGACAG	0.567													6	7	---	---	---	---	PASS	T	47465535	T	T	47465535	2	4	10	1	0	0	0	0	0	0	0	1	13877	1101	38	1		1	SCAP	3	47465535	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	2572094	47465535	150556895	142	6178										
NCKIPSD	51517	broad.mit.edu	37	chr3	48717141	48717141	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agcagccgcagtgatgctcgGtgttcctggcagggaaccct	14	12	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:48717141G>T	uc003cun.2	-	8	1450	c.1356C>A	c.(1354-1356)CAC>CAA	p.H452Q	NCKIPSD_uc003cum.2_Missense_Mutation_p.H445Q	NM_016453	NP_057537	Q9NZQ3	SPN90_HUMAN	NCK interacting protein with SH3 domain isoform	452	Leu-rich.				cytoskeleton organization|NLS-bearing substrate import into nucleus|signal transduction	intermediate filament|nucleus	cytoskeletal protein binding|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GTGATGCTCGGTGTTCCTGGC	0.587													20	14	---	---	---	---	PASS	T	48717141	T	T	48717141	3	4	10	1	0	0	0	0	1	0	0	0	10225	1252	44	3	836	3	NCKIPSD	3	48717141	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1251606	48717141	149305289	143	6179										
NISCH	11188	broad.mit.edu	37	chr3	52525432	52525432	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tacctgacgcactgcttcctCcagcacctcatggtcgtgct	8	16	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:52525432C>A	uc011beg.1	+	21	3879	c.3807C>A	c.(3805-3807)CTC>CTA	p.L1269L	NISCH_uc003ded.3_Silent_p.L1269L|NISCH_uc003dee.3_Silent_p.L758L|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_Silent_p.L18L	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	1269					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		ACTGCTTCCTCCAGCACCTCA	0.622													10	10	---	---	---	---	PASS	A	52525432	A	A	52525432	2	1	10	1	0	0	0	0	0	0	0	1	10432	842	30	2		2	NISCH	3	52525432	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	3808291	52525432	145496998	144	6180										
ATXN7	6314	broad.mit.edu	37	chr3	63973883	63973883	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcagcctctcagggacccgcAtcccgcccctcctagaacgt	9	19	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:63973883A>T	uc003dlw.3	+	9	1797	c.1244A>T	c.(1243-1245)CAT>CTT	p.H415L	ATXN7_uc003dlv.2_Missense_Mutation_p.H415L|ATXN7_uc010hnv.2_Missense_Mutation_p.H415L|ATXN7_uc011bfn.1_Missense_Mutation_p.H270L	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	415	Pro-rich.				cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		AGGGACCCGCATCCCGCCCCT	0.512													23	37	---	---	---	---	PASS	T	63973883	T	T	63973883	3	4	10	1	0	0	0	0	1	0	0	0	1215	217	8	5	1338	5	ATXN7	3	63973883	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	11448451	63973883	134048547	145	6181										
ABI3BP	25890	broad.mit.edu	37	chr3	100567705	100567705	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aggtgtagaagggatagatgTagtttgctggggagctgaaa	17	2	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:100567705T>A	uc003dun.2	-	16	1475	c.1390A>T	c.(1390-1392)ACA>TCA	p.T464S	ABI3BP_uc003duo.2_Missense_Mutation_p.T506S|ABI3BP_uc011bhd.1_5'Flank|ABI3BP_uc003dum.2_5'Flank	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	464	Pro-rich.					extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						GGGATAGATGTAGTTTGCTGG	0.368													11	55	---	---	---	---	PASS	A	100567705	A	A	100567705	3	1	10	1	0	0	0	0	1	0	0	0	91	1638	57	5	1917	5	ABI3BP	3	100567705	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	36593822	100567705	97454725	146	6182										
DPPA2	151871	broad.mit.edu	37	chr3	109033356	109033356	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttctattagaatgaaacttaCcttcttgctgctatccaaat	4	9	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:109033356C>A	uc003dxo.2	-	2	280	c.33_splice	c.e2+1	p.K11_splice		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2							nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						ATGAAACTTACCTTCTTGCTG	0.388													8	22	---	---	---	---	PASS	A	109033356	A	A	109033356	5	1	10	1	0	0	0	0	0	0	1	0	4734	521	18	3	890	3	DPPA2	3	109033356	Splice_Site	SNP	C	TCGA-18-3416-01A-01D-0983-08	8465651	109033356	88989074	147	6183										
GPR156	165829	broad.mit.edu	37	chr3	119886143	119886143	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagcctgagggcactgggggCcacagctgccactgttcagg	15	13	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:119886143C>A	uc011bjf.1	-	9	2181	c.2181G>T	c.(2179-2181)TGG>TGT	p.W727C	GPR156_uc011bjg.1_Missense_Mutation_p.W723C	NM_153002	NP_694547	Q8NFN8	GP156_HUMAN	G protein-coupled receptor 156	727	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.19)		GCACTGGGGGCCACAGCTGCC	0.602													4	15	---	---	---	---	PASS	A	119886143	A	A	119886143	3	1	10	1	0	0	0	0	1	0	0	0	6661	740	26	3	267	3	GPR156	3	119886143	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	10852787	119886143	78136287	148	6184										
ZXDC	79364	broad.mit.edu	37	chr3	126185161	126185161	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctacgagcggagaacctcgcGcaacatcctggaacaaaaag	10	12	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:126185161G>A	uc003eiv.2	-	5	1332	c.1278C>T	c.(1276-1278)TGC>TGT	p.C426C	ZXDC_uc010hsh.2_RNA|ZXDC_uc003eix.2_Silent_p.C426C	NM_025112	NP_079388	Q2QGD7	ZXDC_HUMAN	ZXD family zinc finger C isoform 1	426	C2H2-type 9.				positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|LRR domain binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.155)		AGAACCTCGCGCAACATCCTG	0.502													13	13	---	---	---	---	PASS	A	126185161	A	A	126185161	2	1	10	1	0	0	0	0	0	0	0	1	18249	1079	38	1		1	ZXDC	3	126185161	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	6299018	126185161	71837269	149	6185										
ACAD9	28976	broad.mit.edu	37	chr3	128627878	128627878	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggccggaggcttcgggactCcctgggccgaactgtggacc	16	13	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:128627878C>A	uc003ela.3	+	14	1623	c.1421C>A	c.(1420-1422)TCC>TAC	p.S474Y	ACAD9_uc010hsw.1_3'UTR|ACAD9_uc011bks.1_Missense_Mutation_p.S351Y|ACAD9_uc003elb.2_Missense_Mutation_p.S351Y|ACAD9_uc003eld.1_RNA|ACAD9_uc003ele.2_Missense_Mutation_p.S126Y	NM_014049	NP_054768	Q9H845	ACAD9_HUMAN	acyl-Coenzyme A dehydrogenase family, member 9	474						mitochondrion	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding			ovary(2)|central_nervous_system(1)	3						CTTCGGGACTCCCTGGGCCGA	0.582													6	22	---	---	---	---	PASS	A	128627878	A	A	128627878	3	1	10	1	0	0	0	0	1	0	0	0	111	855	30	2	1475	2	ACAD9	3	128627878	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	2442717	128627878	69394552	150	6186										
EPHB1	2047	broad.mit.edu	37	chr3	134873037	134873037	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	caccaagtcagtgccactatGaggagcatcaccttgtcatg	9	12	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:134873037G>T	uc003eqt.2	+	6	1561	c.1341G>T	c.(1339-1341)ATG>ATT	p.M447I	EPHB1_uc003equ.2_Missense_Mutation_p.M8I	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	447	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GTGCCACTATGAGGAGCATCA	0.542													6	114	---	---	---	---	PASS	T	134873037	T	T	134873037	3	4	10	1	0	0	0	0	1	0	0	0	5174	1290	45	2	1363	2	EPHB1	3	134873037	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	6245159	134873037	63149393	151	6187										
GPR87	53836	broad.mit.edu	37	chr3	151012966	151012966	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcccgtcgctcctgttgcctGaattgtgactctcttggccg	11	14	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:151012966G>C	uc003eyt.2	-	3	429	c.68C>G	c.(67-69)TCA>TGA	p.S23*	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_023915	NP_076404	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	23	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CCTGTTGCCTGAATTGTGACT	0.502													10	101	---	---	---	---	PASS	C	151012966	C	C	151012966	4	2	10	1	0	0	0	0	0	1	0	0	6716	1294	45	2	1012	2	GPR87	3	151012966	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	16139929	151012966	47009464	152	6188										
SLITRK3	22865	broad.mit.edu	37	chr3	164906744	164906744	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aggtgagaatctccaggctgGgctggggattctccagctgg	16	9	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:164906744G>T	uc003fej.3	-	2	2319	c.1875C>A	c.(1873-1875)GCC>GCA	p.A625A	SLITRK3_uc003fek.2_Silent_p.A625A	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	625	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						CTCCAGGCTGGGCTGGGGATT	0.547										HNSCC(40;0.11)			37	19	---	---	---	---	PASS	T	164906744	T	T	164906744	2	4	10	1	0	0	0	0	0	0	0	1	14744	1219	43	3		3	SLITRK3	3	164906744	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	13893778	164906744	33115686	153	6189										
SLITRK3	22865	broad.mit.edu	37	chr3	164906901	164906901	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggtttcgatccactgtttaAaggggaccaggtcacaggtg	13	8	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:164906901A>T	uc003fej.3	-	2	2162	c.1718T>A	c.(1717-1719)TTT>TAT	p.F573Y	SLITRK3_uc003fek.2_Missense_Mutation_p.F573Y	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	573	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						CCACTGTTTAAAGGGGACCAG	0.522										HNSCC(40;0.11)			91	28	---	---	---	---	PASS	T	164906901	T	T	164906901	3	4	10	1	0	0	0	0	1	0	0	0	14744	14	1	5	1219	5	SLITRK3	3	164906901	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	157	164906901	33115529	154	6190										
SERPINI2	5276	broad.mit.edu	37	chr3	167189509	167189509	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atgttgtccttatgagataaGgaaacctcttgataaagatc	8	6	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:167189509G>T	uc003fer.1	-	1	172	c.114C>A	c.(112-114)TCC>TCA	p.S38S	SERPINI2_uc003fes.1_Silent_p.S48S|SERPINI2_uc003fet.1_Silent_p.S38S	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),	38					cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						TATGAGATAAGGAAACCTCTT	0.393													8	201	---	---	---	---	PASS	T	167189509	T	T	167189509	2	4	10	1	0	0	0	0	0	0	0	1	14119	987	35	3		3	SERPINI2	3	167189509	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	2282608	167189509	30832921	155	6191										
SERPINI1	5274	broad.mit.edu	37	chr3	167543034	167543034	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tttacttctgaaccaatacaGgtacaattctattcatggga	6	8	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:167543034G>T	uc003ffa.3	+	9	1355	c.1157_splice	c.e9-1	p.G386_splice	SERPINI1_uc003ffb.3_Splice_Site_p.G386_splice	NM_001122752	NP_001116224	Q99574	NEUS_HUMAN	neuroserpin precursor						central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1						AACCAATACAGGTACAATTCT	0.303													8	171	---	---	---	---	PASS	T	167543034	T	T	167543034	5	4	10	1	0	0	0	0	0	0	1	0	14118	1014	35	3	1186	3	SERPINI1	3	167543034	Splice_Site	SNP	G	TCGA-18-3416-01A-01D-0983-08	353525	167543034	30479396	156	6192										
MECOM	2122	broad.mit.edu	37	chr3	168810787	168810787	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gattggctgccatggttgctGttcccaatgaaatttcgaat	10	8	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:168810787G>C	uc003ffi.3	-	13	2828	c.2559C>G	c.(2557-2559)AAC>AAG	p.N853K	MECOM_uc010hwk.1_Missense_Mutation_p.N867K|MECOM_uc003ffj.3_Missense_Mutation_p.N918K|MECOM_uc011bpi.1_Missense_Mutation_p.N845K|MECOM_uc003ffn.3_Missense_Mutation_p.N853K|MECOM_uc003ffk.2_Missense_Mutation_p.N844K|MECOM_uc003ffl.2_Missense_Mutation_p.N1004K|MECOM_uc011bpj.1_Missense_Mutation_p.N1041K|MECOM_uc011bpk.1_Missense_Mutation_p.N843K	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	853					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						CATGGTTGCTGTTCCCAATGA	0.413													7	98	---	---	---	---	PASS	C	168810787	C	C	168810787	3	2	10	1	0	0	0	0	1	0	0	0	9422	1368	48	4	612	4	MECOM	3	168810787	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1267753	168810787	29211643	157	6193										
ECT2	1894	broad.mit.edu	37	chr3	172520750	172520750	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gagaacaagtaactctcttcCtcttcaatgattgcctagag	7	10	3	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:172520750C>A	uc003fii.2	+	19	2131	c.1993C>A	c.(1993-1995)CTC>ATC	p.L665I	ECT2_uc010hwv.1_Missense_Mutation_p.L696I|ECT2_uc003fih.2_Missense_Mutation_p.L664I|ECT2_uc003fij.1_Missense_Mutation_p.L665I|ECT2_uc003fik.1_Missense_Mutation_p.L665I|ECT2_uc003fil.1_Missense_Mutation_p.L696I|ECT2_uc003fim.1_5'UTR	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	665	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			AACTCTCTTCCTCTTCAATGA	0.378													7	150	---	---	---	---	PASS	A	172520750	A	A	172520750	3	1	10	1	0	0	0	0	1	0	0	0	4901	681	24	3	2063	3	ECT2	3	172520750	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	3709963	172520750	25501680	158	6194										
TBL1XR1	79718	broad.mit.edu	37	chr3	176743300	176743300	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtagcgctatttccgaaggtCtaatacacaaacctgtaaga	8	9	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:176743300C>G	uc003fiw.3	-	16	1791	c.1531G>C	c.(1531-1533)GAC>CAC	p.D511H	TBL1XR1_uc003fix.3_Missense_Mutation_p.D511H|TBL1XR1_uc011bpz.1_Missense_Mutation_p.D183H	NM_024665	NP_078941	Q9BZK7	TBL1R_HUMAN	transducin (beta)-like 1 X-linked receptor 1	511	WD 8.				canonical Wnt receptor signaling pathway|cellular lipid metabolic process|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein N-terminus binding|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(143;1.44e-17)|Ovarian(172;0.00163)|Breast(254;0.214)	Acute lymphoblastic leukemia(1;0.00599)|all_hematologic(1;0.0632)|Prostate(884;0.215)	OV - Ovarian serous cystadenocarcinoma(80;9.83e-31)			TTCCGAAGGTCTAATACACAA	0.348													19	64	---	---	---	---	PASS	G	176743300	G	G	176743300	3	3	10	1	0	0	0	0	1	0	0	0	15637	913	32	2	17	2	TBL1XR1	3	176743300	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	4222550	176743300	21279130	159	6195										
TTC14	151613	broad.mit.edu	37	chr3	180320739	180320739	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atctccaaaaaagcggatctGctttttgcactttcctggaa	7	10	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:180320739G>T	uc003fkk.2	+	2	354	c.222G>T	c.(220-222)CTG>CTT	p.L74L	TTC14_uc003fkl.2_Silent_p.L74L|TTC14_uc003fkm.2_Silent_p.L74L	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	74							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AAGCGGATCTGCTTTTTGCAC	0.343													91	19	---	---	---	---	PASS	T	180320739	T	T	180320739	2	4	10	1	0	0	0	0	0	0	0	1	16678	1306	46	3		3	TTC14	3	180320739	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	3577439	180320739	17701691	160	6196										
CCDC39	339829	broad.mit.edu	37	chr3	180372659	180372659	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tctcaaactctgtgttattcCcaatctcactttccaaaaac	2	13	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:180372659C>T	uc010hxe.2	-	7	936	c.821G>A	c.(820-822)GGG>GAG	p.G274E	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	274					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TGTGTTATTCCCAATCTCACT	0.333													5	63	---	---	---	---	PASS	T	180372659	T	T	180372659	3	4	10	1	0	0	0	0	1	0	0	0	2811	623	22	3	2060	3	CCDC39	3	180372659	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	51920	180372659	17649771	161	6197										
CRYGS	1427	broad.mit.edu	37	chr3	186256664	186256664	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctctcgcatgtgaaattgctCcatgatggaagggcaatctt	10	9	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:186256664C>A	uc003fqe.2	-	3	410	c.358G>T	c.(358-360)GAG>TAG	p.E120*	CRYGS_uc003fqf.2_Nonsense_Mutation_p.E120*	NM_017541	NP_060011	P22914	CRBS_HUMAN	crystallin, gamma S	120	Beta/gamma crystallin 'Greek key' 3.						structural constituent of eye lens				0	all_cancers(143;3.75e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.5e-22)	GBM - Glioblastoma multiforme(93;0.0906)		TGAAATTGCTCCATGATGGAA	0.478													8	64	---	---	---	---	PASS	A	186256664	A	A	186256664	4	1	10	1	0	0	0	0	0	1	0	0	3919	864	30	2	182	2	CRYGS	3	186256664	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	5884005	186256664	11765766	162	6198										
AHSG	197	broad.mit.edu	37	chr3	186338633	186338633	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgtcgcacccccggaaaacaCgcacagtggtgcagcctagt	11	14	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:186338633C>A	uc003fqk.3	+	7	1099	c.1018C>A	c.(1018-1020)CGC>AGC	p.R340S	AHSG_uc003fql.3_Missense_Mutation_p.R341S|AHSG_uc003fqm.3_Missense_Mutation_p.R339S|AHSG_uc010hyp.2_Missense_Mutation_p.R303S	NM_001622	NP_001613	P02765	FETUA_HUMAN	alpha-2-HS-glycoprotein	340					acute-phase response|negative regulation of bone mineralization|negative regulation of insulin receptor signaling pathway|pinocytosis|positive regulation of phagocytosis|regulation of inflammatory response|skeletal system development	extracellular space	cysteine-type endopeptidase inhibitor activity|protein binding				0	all_cancers(143;3.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.27e-20)	GBM - Glioblastoma multiforme(93;0.0463)		CCGGAAAACACGCACAGTGGT	0.602													9	57	---	---	---	---	PASS	A	186338633	A	A	186338633	3	1	10	1	0	0	0	0	1	0	0	0	420	536	19	1	1044	1	AHSG	3	186338633	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	81969	186338633	11683797	163	6199										
ATP13A4	84239	broad.mit.edu	37	chr3	193183867	193183867	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	catcccaatggtggctgttcCtacaaggcacaggaggaacc	11	12	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:193183867C>A	uc003ftd.2	-	11	1327	c.1219G>T	c.(1219-1221)GGA>TGA	p.G407*	ATP13A4_uc003fte.1_Nonsense_Mutation_p.G407*|ATP13A4_uc011bsr.1_Intron|ATP13A4_uc010hzi.2_RNA|ATP13A4_uc003ftf.3_Nonsense_Mutation_p.G113*	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	407	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)		GTGGCTGTTCCTACAAGGCAC	0.458													9	246	---	---	---	---	PASS	A	193183867	A	A	193183867	4	1	10	1	0	0	0	0	0	1	0	0	1126	690	24	3	2451	3	ATP13A4	3	193183867	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	6845234	193183867	4838563	164	6200										
OPA1	4976	broad.mit.edu	37	chr3	193349400	193349400	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aaaattattttaaacatttaGgtgtcagacaaagagaaaat	6	3	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr3:193349400G>T	uc003ftm.2	+	6	859	c.625_splice	c.e6-1	p.V209_splice	OPA1_uc003ftg.2_Splice_Site_p.V264_splice|OPA1_uc003fth.2_Splice_Site_p.V228_splice|OPA1_uc003fti.2_Splice_Site_p.V246_splice|OPA1_uc003ftj.2_Splice_Site_p.V227_splice|OPA1_uc003ftk.2_Splice_Site_p.V210_splice|OPA1_uc003ftl.2_Splice_Site_p.V191_splice|OPA1_uc003ftn.2_Splice_Site_p.V173_splice	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1						apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		TAAACATTTAGGTGTCAGACA	0.279													6	113	---	---	---	---	PASS	T	193349400	T	T	193349400	5	4	10	1	0	0	0	0	0	0	1	0	10871	1014	35	3	819	3	OPA1	3	193349400	Splice_Site	SNP	G	TCGA-18-3416-01A-01D-0983-08	165533	193349400	4673030	165	6201										
PIGG	54872	broad.mit.edu	37	chr4	502758	502758	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tctgcgtttgaaaggaaaccCggtgagaatttaggaatgtt	12	5	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:502758C>T	uc003gak.3	+	5	1036	c.900C>T	c.(898-900)CCC>CCT	p.P300P	PIGG_uc003gaj.3_Silent_p.P300P|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Silent_p.P167P|PIGG_uc003gal.3_Silent_p.P211P|PIGG_uc003gai.2_RNA|PIGG_uc011buw.1_Silent_p.P178P|PIGG_uc003gam.2_Silent_p.P211P|PIGG_uc003gan.2_Silent_p.P211P	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	300	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						AAAGGAAACCCGGTGAGAATT	0.393													28	11	---	---	---	---	PASS	T	502758	T	T	502758	2	4	10	1	0	0	0	0	0	0	0	1	11888	666	23	1		1	PIGG	4	502758	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08		502758	190651518	166	6202										
TNIP2	79155	broad.mit.edu	37	chr4	2746619	2746619	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgcgcatggagccccctcacGtattcgtccctgctggcgtt	11	15	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:2746619G>A	uc003gfg.2	-	4	798	c.711C>T	c.(709-711)TAC>TAT	p.Y237Y	TNIP2_uc003gff.2_Silent_p.Y130Y|TNIP2_uc003gfh.2_Intron	NM_024309	NP_077285	Q8NFZ5	TNIP2_HUMAN	A20-binding inhibitor of NF-kappaB activation 2	237						cytosol	protein binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GCCCCCTCACGTATTCGTCCC	0.597													7	21	---	---	---	---	PASS	A	2746619	A	A	2746619	2	1	10	1	0	0	0	0	0	0	0	1	16312	1140	40	1		1	TNIP2	4	2746619	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	2243861	2746619	188407657	167	6203										
CPZ	8532	broad.mit.edu	37	chr4	8609097	8609097	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggtggtgtcctaccccttcgActtctccaagcacccccagg	9	17	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:8609097A>T	uc003glm.2	+	7	1298	c.1172A>T	c.(1171-1173)GAC>GTC	p.D391V	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Missense_Mutation_p.D254V|CPZ_uc003glo.2_Missense_Mutation_p.D380V|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	391					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						TACCCCTTCGACTTCTCCAAG	0.602											OREG0016100	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	9	---	---	---	---	PASS	T	8609097	T	T	8609097	3	4	10	1	0	0	0	0	1	0	0	0	3839	275	10	5	1198	5	CPZ	4	8609097	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	5862478	8609097	182545179	168	6204										
C1QTNF7	114905	broad.mit.edu	37	chr4	15437385	15437385	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aagatgtttgtcttgctctaTgttacaagttttgccatttg	8	6	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:15437385T>C	uc011bxb.1	+	2	245	c.18T>C	c.(16-18)TAT>TAC	p.Y6Y	C1QTNF7_uc003gno.2_Silent_p.Y13Y|C1QTNF7_uc003gnp.2_Silent_p.Y6Y	NM_001135171	NP_001128643	Q9BXJ2	C1QT7_HUMAN	C1q and tumor necrosis factor related protein 7	6						collagen					0						TCTTGCTCTATGTTACAAGTT	0.463													25	24	---	---	---	---	PASS	C	15437385	C	C	15437385	2	2	10	1	0	0	0	0	0	0	0	1	1968	1471	51	5		5	C1QTNF7	4	15437385	Silent	SNP	T	TCGA-18-3416-01A-01D-0983-08	6828288	15437385	175716891	169	6205										
KCNIP4	80333	broad.mit.edu	37	chr4	20852248	20852248	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaagctcaagggcttcaggcCgatgcctgacggtggccatc	14	12	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:20852248C>A	uc003gqe.2	-	2	239	c.155G>T	c.(154-156)CGG>CTG	p.R52L	KCNIP4_uc003gqf.1_Missense_Mutation_p.R48L|KCNIP4_uc003gqg.1_Missense_Mutation_p.R7L|KCNIP4_uc003gqh.1_Missense_Mutation_p.R44L|KCNIP4_uc003gqi.1_Missense_Mutation_p.R7L|KCNIP4_uc010iel.2_Missense_Mutation_p.R49L|KCNIP4_uc003gqd.3_Missense_Mutation_p.R32L	NM_147182	NP_671711	Q6PIL6	KCIP4_HUMAN	Kv channel interacting protein 4 isoform 3	69	EF-hand 1; degenerate.					plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)				GGCTTCAGGCCGATGCCTGAC	0.473													16	19	---	---	---	---	PASS	A	20852248	A	A	20852248	3	1	10	1	0	0	0	0	1	0	0	0	8042	652	23	1	574	1	KCNIP4	4	20852248	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	5414863	20852248	170302028	170	6206										
GBA3	57733	broad.mit.edu	37	chr4	22750521	22750521	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtttccccagagtgacccagCgcctcttgatgacactcaac	8	15	2	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:22750521C>G	uc003gqp.3	+	4	1236	c.1145C>G	c.(1144-1146)GCG>GGG	p.A382G	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Missense_Mutation_p.A383G	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	382					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						AGTGACCCAGCGCCTCTTGAT	0.373													8	6	---	---	---	---	PASS	G	22750521	G	G	22750521	3	3	10	1	0	0	0	0	1	0	0	0	6268	768	27	4	1159	4	GBA3	4	22750521	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1898273	22750521	168403755	171	6207										
PPARGC1A	10891	broad.mit.edu	37	chr4	23886493	23886493	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agtcgttcacatctagttcaGaaagatcaagttcaggaaga	9	7	5	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:23886493G>C	uc003gqs.2	-	2	236	c.116C>G	c.(115-117)TCT>TGT	p.S39C	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_5'Flank|PPARGC1A_uc010ier.1_RNA|PPARGC1A_uc003gqu.3_Missense_Mutation_p.S39C	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	39					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				ATCTAGTTCAGAAAGATCAAG	0.428													15	11	---	---	---	---	PASS	C	23886493	C	C	23886493	3	2	10	1	0	0	0	0	1	0	0	0	12300	942	33	2	2328	2	PPARGC1A	4	23886493	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1135972	23886493	167267783	172	6208										
DHX15	1665	broad.mit.edu	37	chr4	24541881	24541881	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atcatcatttaaagcagccaGgtaattcaaaagttccaggg	8	8	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:24541881G>T	uc003gqx.2	-	10	1804	c.1636C>A	c.(1636-1638)CTG>ATG	p.L546M	DHX15_uc003gqw.2_5'Flank	NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	546					mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				AAAGCAGCCAGGTAATTCAAA	0.418													6	58	---	---	---	---	PASS	T	24541881	T	T	24541881	3	4	10	1	0	0	0	0	1	0	0	0	4501	991	35	3	771	3	DHX15	4	24541881	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	655388	24541881	166612395	173	6209										
CWH43	80157	broad.mit.edu	37	chr4	49034612	49034612	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tttgtcaagatacccaattgTgaaatctgagcatcaccttc	6	10	3	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:49034612T>A	uc003gyv.2	+	12	1720	c.1538T>A	c.(1537-1539)GTG>GAG	p.V513E	CWH43_uc011bzl.1_Missense_Mutation_p.V486E	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	513					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						TACCCAATTGTGAAATCTGAG	0.468													96	82	---	---	---	---	PASS	A	49034612	A	A	49034612	3	1	10	1	0	0	0	0	1	0	0	0	4073	1696	59	5	1584	5	CWH43	4	49034612	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	24492731	49034612	142119664	174	6210										
EPHA5	2044	broad.mit.edu	37	chr4	66197847	66197847	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctgccaataaattagatactCtaaaacacataaaacataaa	2	8	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:66197847C>T	uc003hcy.2	-	17	3046	c.2853_splice	c.e17-1	p.R951_splice	EPHA5_uc003hcx.2_Splice_Site_p.R883_splice|EPHA5_uc003hcz.2_Splice_Site_p.R929_splice|EPHA5_uc011cah.1_Splice_Site_p.R952_splice|EPHA5_uc011cai.1_Splice_Site_p.R930_splice|EPHA5_uc003hda.2_Intron	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor						cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						ATTAGATACTCTAAAACACAT	0.338										TSP Lung(17;0.13)			8	18	---	---	---	---	PASS	T	66197847	T	T	66197847	5	4	10	1	0	0	0	0	0	0	1	0	5170	927	32	2	269	2	EPHA5	4	66197847	Splice_Site	SNP	C	TCGA-18-3416-01A-01D-0983-08	17163235	66197847	124956429	175	6211										
EPHA5	2044	broad.mit.edu	37	chr4	66467453	66467453	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcggcgctgcagtgcattttGggaggttcatcggtcacaga	14	9	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:66467453G>T	uc003hcy.2	-	3	1009	c.816C>A	c.(814-816)CCC>CCA	p.P272P	EPHA5_uc003hcx.2_Silent_p.P203P|EPHA5_uc003hcz.2_Silent_p.P272P|EPHA5_uc011cah.1_Silent_p.P272P|EPHA5_uc011cai.1_Silent_p.P272P|EPHA5_uc003hda.2_Silent_p.P272P	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	272	Extracellular (Potential).|Cys-rich.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						AGTGCATTTTGGGAGGTTCAT	0.522										TSP Lung(17;0.13)			13	33	---	---	---	---	PASS	T	66467453	T	T	66467453	2	4	10	1	0	0	0	0	0	0	0	1	5170	1335	47	3		3	EPHA5	4	66467453	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	269606	66467453	124686823	176	6212										
ANKRD17	26057	broad.mit.edu	37	chr4	73963958	73963958	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	catcgctgcagctggaaatcCtcatgttatcactgtcccca	7	14	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:73963958C>G	uc003hgp.2	-	26	4970	c.4853G>C	c.(4852-4854)AGG>ACG	p.R1618T	ANKRD17_uc003hgo.2_Missense_Mutation_p.R1505T|ANKRD17_uc003hgq.2_Missense_Mutation_p.R1367T|ANKRD17_uc003hgr.2_Missense_Mutation_p.R1617T	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1618	Ser-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GCTGGAAATCCTCATGTTATC	0.473													54	113	---	---	---	---	PASS	G	73963958	G	G	73963958	3	3	10	1	0	0	0	0	1	0	0	0	646	681	24	4	2994	4	ANKRD17	4	73963958	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	7496505	73963958	117190318	177	6213										
FAM175A	84142	broad.mit.edu	37	chr4	84403359	84403359	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgggaatcagtaatgctgttCttggcttcaccttttacttc	8	9	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:84403359C>G	uc003hou.2	-	2	191	c.126G>C	c.(124-126)AAG>AAC	p.K42N	FAM175A_uc003hov.2_5'UTR	NM_139076	NP_620775	Q6UWZ7	F175A_HUMAN	coiled-coil domain containing 98	42	MPN-like.				chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of DNA repair|response to ionizing radiation	BRCA1-A complex	polyubiquitin binding			kidney(1)	1						TAATGCTGTTCTTGGCTTCAC	0.328													7	58	---	---	---	---	PASS	G	84403359	G	G	84403359	3	3	10	1	0	0	0	0	1	0	0	0	5497	912	32	2	1135	2	FAM175A	4	84403359	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	10439401	84403359	106750917	178	6214										
CDS1	1040	broad.mit.edu	37	chr4	85553014	85553014	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tttggtgaagaaacattatcGtctgcagttttatatggtgt	10	4	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:85553014G>T	uc011ccv.1	+	6	1121	c.623G>T	c.(622-624)CGT>CTT	p.R208L	CDS1_uc010ike.1_Missense_Mutation_p.R12L	NM_001263	NP_001254	Q92903	CDS1_HUMAN	CDP-diacylglycerol synthase 1	208					signal transduction|visual perception	endoplasmic reticulum membrane|integral to membrane	diacylglycerol cholinephosphotransferase activity|phosphatidate cytidylyltransferase activity			large_intestine(2)|ovary(1)|breast(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.00101)		AAACATTATCGTCTGCAGTTT	0.328													30	87	---	---	---	---	PASS	T	85553014	T	T	85553014	3	4	10	1	0	0	0	0	1	0	0	0	3177	1145	40	1	645	1	CDS1	4	85553014	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1149655	85553014	105601262	179	6215										
NUDT9	53343	broad.mit.edu	37	chr4	88356326	88356326	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ataagcctgtggaatacactGcagtctctgtcttggctgga	11	9	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:88356326G>A	uc003hqq.2	+	2	624	c.301G>A	c.(301-303)GCA>ACA	p.A101T	NUDT9_uc003hqr.2_Missense_Mutation_p.A51T|NUDT9_uc010ikl.2_Missense_Mutation_p.A101T	NM_024047	NP_076952	Q9BW91	NUDT9_HUMAN	nudix-type motif 9 isoform a	101						mitochondrion	ADP-ribose diphosphatase activity				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000937)		GGAATACACTGCAGTCTCTGT	0.483													16	54	---	---	---	---	PASS	A	88356326	A	A	88356326	3	1	10	1	0	0	0	0	1	0	0	0	10746	1319	46	3	307	3	NUDT9	4	88356326	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	2803312	88356326	102797950	180	6216										
MMRN1	22915	broad.mit.edu	37	chr4	90857906	90857906	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtaaatcttaccacagtcctGataggccggactcaaagaaa	8	10	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:90857906G>C	uc003hst.2	+	6	3146	c.3075G>C	c.(3073-3075)CTG>CTC	p.L1025L	MMRN1_uc010iku.2_Intron|MMRN1_uc011cds.1_Silent_p.L767L	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	1025					cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		CCACAGTCCTGATAGGCCGGA	0.348													23	51	---	---	---	---	PASS	C	90857906	C	C	90857906	2	2	10	1	0	0	0	0	0	0	0	1	9670	1277	45	2		2	MMRN1	4	90857906	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	2501580	90857906	100296370	181	6217										
ENPEP	2028	broad.mit.edu	37	chr4	111470983	111470983	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagaaaacttcattagctcaAgaaaaagaaaaactgctgta	6	7	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:111470983A>T	uc003iab.3	+	17	2784	c.2442A>T	c.(2440-2442)CAA>CAT	p.Q814H		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	814	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	CATTAGCTCAAGAAAAAGAAA	0.363													20	39	---	---	---	---	PASS	T	111470983	T	T	111470983	3	4	10	1	0	0	0	0	1	0	0	0	5128	69	3	5	2508	5	ENPEP	4	111470983	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	20613077	111470983	79683293	182	6218										
KIAA1109	84162	broad.mit.edu	37	chr4	123122179	123122179	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgcagttccacatcaatgccAgctacccccgaatatggaac	7	14	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:123122179A>T	uc003ieh.2	+	13	1441	c.1396A>T	c.(1396-1398)AGC>TGC	p.S466C	KIAA1109_uc003iei.1_Missense_Mutation_p.S220C|KIAA1109_uc010ins.1_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	466					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CATCAATGCCAGCTACCCCCG	0.393													13	29	---	---	---	---	PASS	T	123122179	T	T	123122179	3	4	10	1	0	0	0	0	1	0	0	0	8208	188	7	5	1446	5	KIAA1109	4	123122179	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	11651196	123122179	68032097	183	6219										
FAT4	79633	broad.mit.edu	37	chr4	126402738	126402738	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcttggactaccacatgagtCagaatgagaagcgggaatat	12	7	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:126402738C>T	uc003ifj.3	+	15	12661	c.12661C>T	c.(12661-12663)CAG>TAG	p.Q4221*	FAT4_uc011cgp.1_Nonsense_Mutation_p.Q2462*|FAT4_uc003ifi.1_Nonsense_Mutation_p.Q1699*	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4221	Laminin G-like 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CCACATGAGTCAGAATGAGAA	0.438													18	62	---	---	---	---	PASS	T	126402738	T	T	126402738	4	4	10	1	0	0	0	0	0	1	0	0	5692	827	29	2	12719	2	FAT4	4	126402738	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	3280559	126402738	64751538	184	6220										
INPP4B	8821	broad.mit.edu	37	chr4	143003250	143003250	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggtgctcatctctcaagattGagcattgttcaagtgtcact	9	9	5	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:143003250G>C	uc003iix.3	-	26	3171	c.2576C>G	c.(2575-2577)TCA>TGA	p.S859*	INPP4B_uc003iiw.3_Nonsense_Mutation_p.S859*|INPP4B_uc011chm.1_RNA|INPP4B_uc011chn.1_Nonsense_Mutation_p.S674*|INPP4B_uc011cho.1_RNA	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	859					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					TCTCAAGATTGAGCATTGTTC	0.398													13	53	---	---	---	---	PASS	C	143003250	C	C	143003250	4	2	10	1	0	0	0	0	0	1	0	0	7753	1294	45	2	206	2	INPP4B	4	143003250	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	16600512	143003250	48151026	185	6221										
NR3C2	4306	broad.mit.edu	37	chr4	149357659	149357659	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgttggttctgctgctcataGgaatagtcagcatctcttac	9	9	4	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:149357659G>T	uc003ilj.3	-	2	688	c.354C>A	c.(352-354)TCC>TCA	p.S118S	NR3C2_uc003ilk.3_Silent_p.S118S|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	118	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	GCTGCTCATAGGAATAGTCAG	0.398													6	76	---	---	---	---	PASS	T	149357659	T	T	149357659	2	4	10	1	0	0	0	0	0	0	0	1	10631	987	35	3		3	NR3C2	4	149357659	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	6354409	149357659	41796617	186	6222										
KIAA0922	23240	broad.mit.edu	37	chr4	154557706	154557706	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tttcccactgtctagagactCgagttactgtgggaatgtgt	11	8	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:154557706C>A	uc003inm.3	+	35	4860	c.4808C>A	c.(4807-4809)TCG>TAG	p.S1603*	KIAA0922_uc010ipp.2_Nonsense_Mutation_p.S1604*|KIAA0922_uc010ipq.2_Nonsense_Mutation_p.S1372*	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	1603	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				TCTAGAGACTCGAGTTACTGT	0.398													4	69	---	---	---	---	PASS	A	154557706	A	A	154557706	4	1	10	1	0	0	0	0	0	1	0	0	8201	893	31	2	4949	2	KIAA0922	4	154557706	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	5200047	154557706	36596570	187	6223										
NPY2R	4887	broad.mit.edu	37	chr4	156135450	156135450	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gggggagtggaaaatgggtcCtgtcctgtgccacctggtgc	17	9	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr4:156135450C>G	uc003ioq.2	+	2	854	c.359C>G	c.(358-360)CCT>CGT	p.P120R	NPY2R_uc003ior.2_Missense_Mutation_p.P120R	NM_000910	NP_000901	P49146	NPY2R_HUMAN	neuropeptide Y receptor Y2	120	Extracellular (Potential).				cardiac left ventricle morphogenesis|inhibition of adenylate cyclase activity by G-protein signaling pathway|locomotory behavior|outflow tract morphogenesis	integral to plasma membrane	calcium channel regulator activity			lung(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0854)				AAAATGGGTCCTGTCCTGTGC	0.517													6	23	---	---	---	---	PASS	G	156135450	G	G	156135450	3	3	10	1	0	0	0	0	1	0	0	0	10609	681	24	4	361	4	NPY2R	4	156135450	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1577744	156135450	35018826	188	6224										
PDZD2	23037	broad.mit.edu	37	chr5	32101345	32101345	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcattaaaagagtgtacaaaGgtaatgttctagacaactca	7	6	3	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:32101345G>T	uc003jhl.2	+	24	8741	c.8353G>T	c.(8353-8355)GGT>TGT	p.G2785C	PDZD2_uc003jhm.2_Missense_Mutation_p.G2785C|PDZD2_uc003jhn.2_RNA	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2785	PDZ 6.				cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						AGTGTACAAAGGTAATGTTCT	0.448													5	29	---	---	---	---	PASS	T	32101345	T	T	32101345	3	4	10	1	0	0	0	0	1	0	0	0	11701	1014	35	3	8443	3	PDZD2	5	32101345	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08		32101345	148813915	189	6225										
NUP155	9631	broad.mit.edu	37	chr5	37293025	37293025	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggattctcaacatatcttatCaataatacatgtatacaatc	3	8	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:37293025C>T	uc003jku.1	-	34	4111	c.3993G>A	c.(3991-3993)TTG>TTA	p.L1331L	NUP155_uc003jkt.1_Silent_p.L1272L|NUP155_uc010iuz.1_Silent_p.L1267L	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	1331					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CATATCTTATCAATAATACAT	0.303													13	57	---	---	---	---	PASS	T	37293025	T	T	37293025	2	4	10	1	0	0	0	0	0	0	0	1	10756	825	29	2		2	NUP155	5	37293025	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	5191680	37293025	143622235	190	6226										
EGFLAM	133584	broad.mit.edu	37	chr5	38350668	38350668	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agcatagcagcttacagccaGgctggcaaagggcggctgag	15	10	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:38350668G>T	uc003jlc.1	+	4	681	c.357G>T	c.(355-357)CAG>CAT	p.Q119H	EGFLAM_uc003jlb.1_Missense_Mutation_p.Q119H	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	119	Fibronectin type-III 1.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					CTTACAGCCAGGCTGGCAAAG	0.478													10	43	---	---	---	---	PASS	T	38350668	T	T	38350668	3	4	10	1	0	0	0	0	1	0	0	0	4966	991	35	3	371	3	EGFLAM	5	38350668	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1057643	38350668	142564592	191	6227										
CARD6	84674	broad.mit.edu	37	chr5	40852638	40852638	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgtcaaacatgtatcagtgcCagtttgctcttcccctgcta	7	12	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:40852638C>A	uc003jmg.2	+	3	1279	c.1204C>A	c.(1204-1206)CAG>AAG	p.Q402K		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	402					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						GTATCAGTGCCAGTTTGCTCT	0.453													22	31	---	---	---	---	PASS	A	40852638	A	A	40852638	3	1	10	1	0	0	0	0	1	0	0	0	2650	595	21	3	1214	3	CARD6	5	40852638	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	2501970	40852638	140062622	192	6228										
C6	729	broad.mit.edu	37	chr5	41172358	41172358	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tctgacagcttgttggtggtGcacctatgttccacttttgt	10	9	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:41172358G>T	uc003jmk.2	-	9	1470	c.1260C>A	c.(1258-1260)TGC>TGA	p.C420*	C6_uc003jml.1_Nonsense_Mutation_p.C420*	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	420	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TGTTGGTGGTGCACCTATGTT	0.428													15	34	---	---	---	---	PASS	T	41172358	T	T	41172358	4	4	10	1	0	0	0	0	0	1	0	0	2315	1311	46	3	1584	3	C6	5	41172358	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	319720	41172358	139742902	193	6229										
PLCXD3	345557	broad.mit.edu	37	chr5	41382435	41382435	+	Missense_Mutation	SNP	T	A	A													0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cattgtcggggtctctgggcTtggtggaaattcgaagatca							TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:41382435T>A	uc003jmm.1	-	2	407	c.305A>T	c.(304-306)AAG>ATG	p.K102M		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	102	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						GTCTCTGGGCTTGGTGGAAAT	0.448													22	25	---	---	---	---	PASS	A	41382435	A	A	41382435	3	1	10	1	0	0	0	0	1	0	0	0	12043	1609	56	5	668	5	PLCXD3	5	41382435	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	210077	41382435	139532825	194	6230	219	2								
PLCXD3	345557	broad.mit.edu	37	chr5	41382437	41382437	+	Silent	SNP	G	A	A													0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttgtcggggtctctgggcttGgtggaaattcgaagatcaaa							TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:41382437G>A	uc003jmm.1	-	2	405	c.303C>T	c.(301-303)ACC>ACT	p.T101T		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	101	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						CTCTGGGCTTGGTGGAAATTC	0.448													22	26	---	---	---	---	PASS	A	41382437	A	A	41382437	2	1	10	1	0	0	0	0	0	0	0	1	12043	1335	47	3		3	PLCXD3	5	41382437	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	2	41382437	139532823	195	6231	219	2								
C5orf34	375444	broad.mit.edu	37	chr5	43506176	43506176	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aaagtttctttggatttcatGatctggcaatgaaactcatt	7	6	4	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:43506176G>T	uc003jnz.1	-	5	923	c.606C>A	c.(604-606)ATC>ATA	p.I202I	C5orf34_uc011cpx.1_Silent_p.I88I	NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	202										breast(1)	1	Lung NSC(6;2.07e-05)					TGGATTTCATGATCTGGCAAT	0.373													31	58	---	---	---	---	PASS	T	43506176	T	T	43506176	2	4	10	1	0	0	0	0	0	0	0	1	2293	1280	45	2		2	C5orf34	5	43506176	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	2123739	43506176	137409084	196	6232										
ERBB2IP	55914	broad.mit.edu	37	chr5	65349881	65349881	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgatggaaaaaatatagtcaGgagcaagtctgccacactgt	10	7	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:65349881G>T	uc003juk.1	+	21	3043	c.2735G>T	c.(2734-2736)AGG>ATG	p.R912M	ERBB2IP_uc003jui.1_Missense_Mutation_p.R912M|ERBB2IP_uc003juj.1_Missense_Mutation_p.R912M|ERBB2IP_uc011cqx.1_Missense_Mutation_p.R912M|ERBB2IP_uc011cqy.1_Missense_Mutation_p.R912M|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Missense_Mutation_p.R908M|ERBB2IP_uc003jul.1_Missense_Mutation_p.R908M	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	912					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		AATATAGTCAGGAGCAAGTCT	0.383													11	516	---	---	---	---	PASS	T	65349881	T	T	65349881	3	4	10	1	0	0	0	0	1	0	0	0	5207	1000	35	3	2809	3	ERBB2IP	5	65349881	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	21843705	65349881	115565379	197	6233										
MAP1B	4131	broad.mit.edu	37	chr5	71495083	71495083	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaaaagaccaccagccccccCgaagtgagtggttacagcta	10	13	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:71495083C>T	uc003kbw.3	+	5	6142	c.5901C>T	c.(5899-5901)CCC>CCT	p.P1967P	MAP1B_uc010iyw.1_Silent_p.P1984P|MAP1B_uc010iyx.1_Silent_p.P1841P|MAP1B_uc010iyy.1_Silent_p.P1841P	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1967	MAP1B 6.					microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		CCAGCCCCCCCGAAGTGAGTG	0.478													47	29	---	---	---	---	PASS	T	71495083	T	T	71495083	2	4	10	1	0	0	0	0	0	0	0	1	9228	639	23	1		1	MAP1B	5	71495083	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	6145202	71495083	109420177	198	6234										
CKMT2	1160	broad.mit.edu	37	chr5	80554960	80554960	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tagaacggttaatccaagaaCgaggctgggagttcatgtgg	14	6	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:80554960C>T	uc003khc.3	+	9	1143	c.901C>T	c.(901-903)CGA>TGA	p.R301*	RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Nonsense_Mutation_p.R301*|CKMT2_uc003khd.3_Nonsense_Mutation_p.R301*|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816	P17540	KCRS_HUMAN	sarcomeric mitochondrial creatine kinase	301	Phosphagen kinase C-terminal.				creatine metabolic process|muscle contraction	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;2.29e-44)|Epithelial(54;1.05e-38)|all cancers(79;4.15e-34)	Creatine(DB00148)	AATCCAAGAACGAGGCTGGGA	0.473													39	46	---	---	---	---	PASS	T	80554960	T	T	80554960	4	4	10	1	0	0	0	0	0	1	0	0	3451	528	19	1	927	1	CKMT2	5	80554960	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	9059877	80554960	100360300	199	6235										
GPR98	84059	broad.mit.edu	37	chr5	89999498	89999498	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcaggagaaattttacaattCcatgtgataagaactttccc	7	8	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:89999498C>G	uc003kju.2	+	35	8268	c.8172C>G	c.(8170-8172)TTC>TTG	p.F2724L	GPR98_uc003kjt.2_Missense_Mutation_p.F430L|GPR98_uc003kjv.2_Missense_Mutation_p.F324L	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2724	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TTTTACAATTCCATGTGATAA	0.328													3	4	---	---	---	---	PASS	G	89999498	G	G	89999498	3	3	10	1	0	0	0	0	1	0	0	0	6721	854	30	2	8310	2	GPR98	5	89999498	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	9444538	89999498	90915762	200	6236										
PCDHA6	56142	broad.mit.edu	37	chr5	140208255	140208255	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gatgacaataaacaaattggGctcttattaaagaaatcctt	6	6	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:140208255G>A	uc003lho.2	+	1	606	c.579G>A	c.(577-579)GGG>GGA	p.G193G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.G193G|PCDHA6_uc011dab.1_Silent_p.G193G	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	193	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACAAATTGGGCTCTTATTAA	0.428													28	31	---	---	---	---	PASS	A	140208255	A	A	140208255	2	1	10	1	0	0	0	0	0	0	0	1	11528	1190	42	3		3	PCDHA6	5	140208255	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	50208757	140208255	40707005	201	6237										
PCDHB8	56128	broad.mit.edu	37	chr5	140558864	140558864	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tagacagagaaagcagagccGagtacaacgtcactatcacc	9	11	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:140558864G>T	uc011dai.1	+	1	1435	c.1249G>T	c.(1249-1251)GAG>TAG	p.E417*	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	417	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAGCAGAGCCGAGTACAACGT	0.507													10	205	---	---	---	---	PASS	T	140558864	T	T	140558864	4	4	10	1	0	0	0	0	0	1	0	0	11548	1059	37	2	1251	2	PCDHB8	5	140558864	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	350609	140558864	40356396	202	6238										
PCDHB12	56124	broad.mit.edu	37	chr5	140590630	140590630	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtgcggctgtgcaggaggagCagggcggccccggtcggtcg	21	11	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:140590630C>A	uc003liz.2	+	1	2340	c.2151C>A	c.(2149-2151)AGC>AGA	p.S717R	PCDHB12_uc011dak.1_Missense_Mutation_p.S380R|PCDHB13_uc003lja.1_5'Flank	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	717	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCAGGAGGAGCAGGGCGGCCC	0.662													27	33	---	---	---	---	PASS	A	140590630	A	A	140590630	3	1	10	1	0	0	0	0	1	0	0	0	11537	709	25	3	2153	3	PCDHB12	5	140590630	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	31766	140590630	40324630	203	6239										
DPYSL3	1809	broad.mit.edu	37	chr5	146778759	146778759	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggatacaggttgaagatcttGgcagcgtttgtgcttgtcac	13	7	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:146778759G>T	uc003lon.1	-	11	1277	c.1167C>A	c.(1165-1167)GCC>GCA	p.A389A	DPYSL3_uc003loo.2_Silent_p.A503A	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	389					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAAGATCTTGGCAGCGTTTG	0.448													7	120	---	---	---	---	PASS	T	146778759	T	T	146778759	2	4	10	1	0	0	0	0	0	0	0	1	4748	1335	47	3		3	DPYSL3	5	146778759	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	6188129	146778759	34136501	204	6240										
CCNG1	900	broad.mit.edu	37	chr5	162866308	162866308	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	actctcagaaactgctacacCagctgaatgccctgttggaa	8	12	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:162866308C>A	uc003lzb.2	+	3	180	c.46C>A	c.(46-48)CAG>AAG	p.Q16K	CCNG1_uc011dek.1_Intron|CCNG1_uc011del.1_Intron|CCNG1_uc003lzc.2_RNA	NM_199246	NP_954854	P51959	CCNG1_HUMAN	cyclin G1	16					cell division|mitosis|regulation of cyclin-dependent protein kinase activity	nucleus				lung(1)|kidney(1)	2	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0597)|OV - Ovarian serous cystadenocarcinoma(192;0.107)|Epithelial(171;0.164)		ACTGCTACACCAGCTGAATGC	0.443													5	75	---	---	---	---	PASS	A	162866308	A	A	162866308	3	1	10	1	0	0	0	0	1	0	0	0	2923	595	21	3	48	3	CCNG1	5	162866308	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	16087549	162866308	18048952	205	6241										
SLIT3	6586	broad.mit.edu	37	chr5	168096832	168096832	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agccgggctggcacaggcagTagggctccccttggtctgag	16	12	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:168096832T>A	uc003mab.2	-	35	4712	c.4292A>T	c.(4291-4293)TAC>TTC	p.Y1431F	SLIT3_uc010jjg.2_Missense_Mutation_p.Y1438F	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	1431	EGF-like 9.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCACAGGCAGTAGGGCTCCCC	0.552													10	14	---	---	---	---	PASS	A	168096832	A	A	168096832	3	1	10	1	0	0	0	0	1	0	0	0	14741	1638	57	5	287	5	SLIT3	5	168096832	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	5230524	168096832	12818428	206	6242										
CPEB4	80315	broad.mit.edu	37	chr5	173317590	173317590	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	taacaaacccccctctccgtGgagcagctaccagagtccgt	8	16	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:173317590G>T	uc003mcs.3	+	1	2260	c.854G>T	c.(853-855)TGG>TTG	p.W285L	CPEB4_uc010jju.1_Missense_Mutation_p.W285L|CPEB4_uc010jjv.2_Missense_Mutation_p.W285L|CPEB4_uc011dfg.1_Missense_Mutation_p.W285L|CPEB4_uc003mct.3_5'Flank|CPEB4_uc003mcu.3_5'Flank	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	285							nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CCCTCTCCGTGGAGCAGCTAC	0.582													6	143	---	---	---	---	PASS	T	173317590	T	T	173317590	3	4	10	1	0	0	0	0	1	0	0	0	3803	1357	47	3	856	3	CPEB4	5	173317590	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	5220758	173317590	7597670	207	6243										
HK3	3101	broad.mit.edu	37	chr5	176317909	176317909	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cacaggctgcgcatccaggaActcagacaggcagtgggcag	14	12	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr5:176317909A>T	uc003mfa.2	-	5	540	c.448T>A	c.(448-450)TTC>ATC	p.F150I	HK3_uc003mez.2_5'Flank	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	150	Regulatory.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCATCCAGGAACTCAGACAGG	0.607													15	16	---	---	---	---	PASS	T	176317909	T	T	176317909	3	4	10	1	0	0	0	0	1	0	0	0	7192	43	2	5	2383	5	HK3	5	176317909	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	3000319	176317909	4597351	208	6244										
STK38	11329	broad.mit.edu	37	chr6	36483123	36483123	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cccccccaataccttgctgtCcaaaagaaggttgtctggtt	8	13	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:36483123C>T	uc003omg.2	-	6	1249	c.661G>A	c.(661-663)GAC>AAC	p.D221N	STK38_uc003omh.2_Missense_Mutation_p.D221N|STK38_uc003omi.2_Missense_Mutation_p.D221N	NM_007271	NP_009202	Q15208	STK38_HUMAN	serine/threonine kinase 38	221	Protein kinase.				intracellular protein kinase cascade|negative regulation of MAP kinase activity	cytoplasm|MLL5-L complex	ATP binding|magnesium ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6						ACCTTGCTGTCCAAAAGAAGG	0.468													24	24	---	---	---	---	PASS	T	36483123	T	T	36483123	3	4	10	1	0	0	0	0	1	0	0	0	15302	855	30	2	768	2	STK38	6	36483123	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08		36483123	134631944	209	6245										
DAAM2	23500	broad.mit.edu	37	chr6	39836641	39836641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaagtctgggccggtaccggGatgaagtgaatctgaaaaca	14	7	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:39836641G>T	uc003oow.2	+	7	961	c.805G>T	c.(805-807)GAT>TAT	p.D269Y	DAAM2_uc010jxc.2_Missense_Mutation_p.D269Y|DAAM2_uc003oox.2_Missense_Mutation_p.D269Y	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	269	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CCGGTACCGGGATGAAGTGAA	0.562													6	11	---	---	---	---	PASS	T	39836641	T	T	39836641	3	4	10	1	0	0	0	0	1	0	0	0	4216	1174	41	2	827	2	DAAM2	6	39836641	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	3353518	39836641	131278426	210	6246										
PKHD1	5314	broad.mit.edu	37	chr6	51613076	51613076	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagaccaaagcagttcacaaGaggagcacttgtggcctcgg	12	11	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:51613076G>T	uc003pah.1	-	58	9614	c.9338C>A	c.(9337-9339)TCT>TAT	p.S3113Y	PKHD1_uc010jzn.1_Missense_Mutation_p.S1096Y|PKHD1_uc003pai.2_Missense_Mutation_p.S3113Y	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3113	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CAGTTCACAAGAGGAGCACTT	0.483													9	303	---	---	---	---	PASS	T	51613076	T	T	51613076	3	4	10	1	0	0	0	0	1	0	0	0	11971	942	33	2	2965	2	PKHD1	6	51613076	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	11776435	51613076	119501991	211	6247										
BMP5	653	broad.mit.edu	37	chr6	55684595	55684595	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aatttgggtaagatcaaatcGaaattctttgtaatgccttc	7	6	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:55684595G>A	uc003pcq.2	-	2	1253	c.541C>T	c.(541-543)CGA>TGA	p.R181*	BMP5_uc011dxf.1_Nonsense_Mutation_p.R181*	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	181					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			AGATCAAATCGAAATTCTTTG	0.388													9	9	---	---	---	---	PASS	A	55684595	A	A	55684595	4	1	10	1	0	0	0	0	0	1	0	0	1463	1066	37	2	847	2	BMP5	6	55684595	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	4071519	55684595	115430472	212	6248										
DST	667	broad.mit.edu	37	chr6	56426228	56426228	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cattgcacttgattcttcctGagccttttgcaatttggaga	8	9	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:56426228G>C	uc003pdf.2	-	51	7859	c.7831C>G	c.(7831-7833)CAG>GAG	p.Q2611E	DST_uc003pcz.3_Missense_Mutation_p.Q2433E|DST_uc011dxj.1_Missense_Mutation_p.Q2462E|DST_uc011dxk.1_Missense_Mutation_p.Q2473E|DST_uc003pcy.3_Missense_Mutation_p.Q2107E	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	4519	Spectrin 4.				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)			GATTCTTCCTGAGCCTTTTGC	0.418													28	33	---	---	---	---	PASS	C	56426228	C	C	56426228	3	2	10	1	0	0	0	0	1	0	0	0	4783	1299	45	2	9384	2	DST	6	56426228	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	741633	56426228	114688839	213	6249										
DST	667	broad.mit.edu	37	chr6	56462639	56462639	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	attaacttcatcctcttctcCaattgctgacttgccatcac	3	14	4	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:56462639C>A	uc003pdf.2	-	41	5765	c.5737G>T	c.(5737-5739)GGA>TGA	p.G1913*	DST_uc003pcz.3_Nonsense_Mutation_p.G1735*|DST_uc011dxj.1_Nonsense_Mutation_p.G1764*|DST_uc011dxk.1_Nonsense_Mutation_p.G1775*|DST_uc003pcy.3_Nonsense_Mutation_p.G1409*|DST_uc010kaa.1_RNA	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	3821					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)			TCCTCTTCTCCAATTGCTGAC	0.423													35	37	---	---	---	---	PASS	A	56462639	A	A	56462639	4	1	10	1	0	0	0	0	0	1	0	0	4783	603	21	3	11518	3	DST	6	56462639	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	36411	56462639	114652428	214	6250										
BAI3	577	broad.mit.edu	37	chr6	69653823	69653823	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	catgcacacctcctcagtatGgaggaaggccgtgtgaagga	13	10	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:69653823G>T	uc003pev.3	+	6	1580	c.1132G>T	c.(1132-1134)GGA>TGA	p.G378*	BAI3_uc010kak.2_Nonsense_Mutation_p.G378*	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	378	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)				TCCTCAGTATGGAGGAAGGCC	0.453													5	50	---	---	---	---	PASS	T	69653823	T	T	69653823	4	4	10	1	0	0	0	0	0	1	0	0	1300	1349	47	3	1146	3	BAI3	6	69653823	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	13191184	69653823	101461244	215	6251										
COL19A1	1310	broad.mit.edu	37	chr6	70900066	70900066	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aagaagtatattaatcaagaGgtcctaaggatttttgaagg	10	3	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:70900066G>T	uc003pfc.1	+	48	3192	c.3075G>T	c.(3073-3075)GAG>GAT	p.E1025D		NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	1025					cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TTAATCAAGAGGTCCTAAGGA	0.209													13	21	---	---	---	---	PASS	T	70900066	T	T	70900066	3	4	10	1	0	0	0	0	1	0	0	0	3676	991	35	3	3261	3	COL19A1	6	70900066	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1246243	70900066	100215001	216	6252										
FILIP1	27145	broad.mit.edu	37	chr6	76023132	76023132	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	accgctgactgcatcagtttGgactccagttgacgtcacag	10	12	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:76023132G>T	uc003pia.2	-	5	2789	c.2416C>A	c.(2416-2418)CAA>AAA	p.Q806K	FILIP1_uc003phy.1_Missense_Mutation_p.Q806K|FILIP1_uc003phz.2_Missense_Mutation_p.Q707K|FILIP1_uc010kbe.2_Missense_Mutation_p.Q809K|FILIP1_uc003pib.1_Missense_Mutation_p.Q558K	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	806										skin(3)|ovary(1)	4						GCATCAGTTTGGACTCCAGTT	0.473													7	115	---	---	---	---	PASS	T	76023132	T	T	76023132	3	4	10	1	0	0	0	0	1	0	0	0	5894	1357	47	3	1233	3	FILIP1	6	76023132	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	5123066	76023132	95091935	217	6253										
GJA10	84694	broad.mit.edu	37	chr6	90605195	90605195	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggacagctccatgttcacagCccgtgtccctgggctggcag	13	14	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:90605195C>T	uc011eaa.1	+	1	1008	c.1008C>T	c.(1006-1008)AGC>AGT	p.S336S		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	336	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		ATGTTCACAGCCCGTGTCCCT	0.532											OREG0004442	type=TRANSCRIPTION FACTOR BINDING SITE|Gene=CX62|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	17	23	---	---	---	---	PASS	T	90605195	T	T	90605195	2	4	10	1	0	0	0	0	0	0	0	1	6401	738	26	3		3	GJA10	6	90605195	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	14582063	90605195	80509872	218	6254										
CCNC	892	broad.mit.edu	37	chr6	99997415	99997415	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atgaaaggaggatacagtagGcaaagatccgttctgtaggt	13	5	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:99997415G>A	uc003pqe.2	-	9	854	c.567C>T	c.(565-567)TGC>TGT	p.C189C	uc003pqc.2_Intron|CCNC_uc003pqd.2_Silent_p.C104C|CCNC_uc010kcr.2_RNA|CCNC_uc010kcs.2_Silent_p.C188C|CCNC_uc011eah.1_Silent_p.C104C	NM_005190	NP_005181	P24863	CCNC_HUMAN	cyclin C isoform a	189					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	DNA-directed RNA polymerase II, holoenzyme	protein kinase binding				0		all_cancers(76;8.46e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.064)		GATACAGTAGGCAAAGATCCG	0.328													4	19	---	---	---	---	PASS	A	99997415	A	A	99997415	2	1	10	1	0	0	0	0	0	0	0	1	2915	1195	42	3		3	CCNC	6	99997415	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	9392220	99997415	71117652	219	6255										
CLVS2	134829	broad.mit.edu	37	chr6	123332129	123332129	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtacttttctgtcgccgataGgtacacactggtggatattt	10	8	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:123332129G>T	uc003pzi.1	+	3	1259	c.390_splice	c.e3-1	p.R130_splice		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2						lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GTCGCCGATAGGTACACACTG	0.353													5	74	---	---	---	---	PASS	T	123332129	T	T	123332129	5	4	10	1	0	0	0	0	0	0	1	0	3572	1014	35	3	395	3	CLVS2	6	123332129	Splice_Site	SNP	G	TCGA-18-3416-01A-01D-0983-08	23334714	123332129	47782938	220	6256										
GRM1	2911	broad.mit.edu	37	chr6	146351083	146351083	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcaaccggtgtctgcctgacGgccagtccctccccccaggc	10	19	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:146351083G>T	uc010khw.1	+	2	900	c.430G>T	c.(430-432)GGC>TGC	p.G144C	GRM1_uc010khu.1_Missense_Mutation_p.G144C|GRM1_uc010khv.1_Missense_Mutation_p.G144C|GRM1_uc003qll.2_Missense_Mutation_p.G144C|GRM1_uc011edz.1_Missense_Mutation_p.G144C|GRM1_uc011eea.1_Missense_Mutation_p.G144C	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	144	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	TCTGCCTGACGGCCAGTCCCT	0.567													35	19	---	---	---	---	PASS	T	146351083	T	T	146351083	3	4	10	1	0	0	0	0	1	0	0	0	6796	1116	39	1	432	1	GRM1	6	146351083	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	23018954	146351083	24763984	221	6257										
SASH1	23328	broad.mit.edu	37	chr6	148711341	148711341	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tacaacacctgtttctccgaCgtgtgcgagaggatggagga	13	9	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:148711341C>T	uc003qme.1	+	2	703	c.228C>T	c.(226-228)GAC>GAT	p.D76D		NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	76							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		GTTTCTCCGACGTGTGCGAGA	0.562													19	52	---	---	---	---	PASS	T	148711341	T	T	148711341	2	4	10	1	0	0	0	0	0	0	0	1	13848	535	19	1		1	SASH1	6	148711341	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	2360258	148711341	22403726	222	6258										
SYNE1	23345	broad.mit.edu	37	chr6	152665276	152665276	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cttggctctaaatccggctgGactgcagaaagccaggcctg	12	12	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:152665276G>T	uc010kiw.2	-	74	12767	c.12165C>A	c.(12163-12165)GTC>GTA	p.V4055V	SYNE1_uc003qot.3_Silent_p.V3984V|SYNE1_uc003qou.3_Silent_p.V4055V|SYNE1_uc010kja.1_Silent_p.V760V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4055	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)		AATCCGGCTGGACTGCAGAAA	0.478										HNSCC(10;0.0054)			39	18	---	---	---	---	PASS	T	152665276	T	T	152665276	2	4	10	1	0	0	0	0	0	0	0	1	15442	1161	41	2		2	SYNE1	6	152665276	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	3953935	152665276	18449791	223	6259										
SYNE1	23345	broad.mit.edu	37	chr6	152708431	152708431	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttgtaagggatgttctatttTttgatccactgattccatcc	7	8	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:152708431T>A	uc010kiw.2	-	54	8865	c.8263A>T	c.(8263-8265)AAA>TAA	p.K2755*	SYNE1_uc003qot.3_Nonsense_Mutation_p.K2762*|SYNE1_uc003qou.3_Nonsense_Mutation_p.K2755*|SYNE1_uc010kjb.1_Nonsense_Mutation_p.K2738*	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2755	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)		TGTTCTATTTTTTGATCCACT	0.448										HNSCC(10;0.0054)			37	27	---	---	---	---	PASS	A	152708431	A	A	152708431	4	1	10	1	0	0	0	0	0	1	0	0	15442	1850	64	5	18575	5	SYNE1	6	152708431	Nonsense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	43155	152708431	18406636	224	6260										
SYNE1	23345	broad.mit.edu	37	chr6	152757184	152757184	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcggtatctctgaagcttccTttacaaggttctcagcctgg	10	11	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:152757184T>G	uc010kiw.2	-	33	4804	c.4202A>C	c.(4201-4203)AAG>ACG	p.K1401T	SYNE1_uc003qot.3_Missense_Mutation_p.K1408T|SYNE1_uc003qou.3_Missense_Mutation_p.K1401T|SYNE1_uc010kjb.1_Missense_Mutation_p.K1384T|SYNE1_uc003qow.2_Missense_Mutation_p.K696T|SYNE1_uc003qox.1_Missense_Mutation_p.K917T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1401	Potential.|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)		TGAAGCTTCCTTTACAAGGTT	0.388										HNSCC(10;0.0054)			9	70	---	---	---	---	PASS	G	152757184	G	G	152757184	3	3	10	1	0	0	0	0	1	0	0	0	15442	1609	56	5	22720	5	SYNE1	6	152757184	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	48753	152757184	18357883	225	6261										
SNX9	51429	broad.mit.edu	37	chr6	158327175	158327175	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	attagatttcctggatttgcGaaacctggcacggaacagta	10	8	0	1	rs138249048		TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:158327175G>A	uc003qqv.1	+	7	809	c.636G>A	c.(634-636)GCG>GCA	p.A212A		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	212	Critical for tubulation activity.				cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)		CTGGATTTGCGAAACCTGGCA	0.333													6	29	---	---	---	---	PASS	A	158327175	A	A	158327175	2	1	10	1	0	0	0	0	0	0	0	1	14909	1045	37	2		2	SNX9	6	158327175	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	5569991	158327175	12787892	226	6262										
UNC93A	54346	broad.mit.edu	37	chr6	167717471	167717471	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cccatacgagatgttcagcgGgaaagtgaaggagagaagaa	14	6	1	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr6:167717471G>T	uc003qvq.2	+	5	865	c.690G>T	c.(688-690)CGG>CGT	p.R230R	UNC93A_uc003qvr.2_Silent_p.R188R	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	230						integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		ATGTTCAGCGGGAAAGTgaag	0.294													7	81	---	---	---	---	PASS	T	167717471	T	T	167717471	2	4	10	1	0	0	0	0	0	0	0	1	16993	1219	43	3		3	UNC93A	6	167717471	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	9390296	167717471	3397596	227	6263										
SDK1	221935	broad.mit.edu	37	chr7	4169550	4169550	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gataccacagatcctgttccGggccaaagacctggatcccg	10	14	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:4169550G>T	uc003smx.2	+	27	4089	c.3950G>T	c.(3949-3951)CGG>CTG	p.R1317L	SDK1_uc010kso.2_Missense_Mutation_p.R593L|SDK1_uc003smy.2_5'UTR	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1317	Fibronectin type-III 7.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		ATCCTGTTCCGGGCCAAAGAC	0.647													31	23	---	---	---	---	PASS	T	4169550	T	T	4169550	3	4	10	1	0	0	0	0	1	0	0	0	13968	1116	39	1	4056	1	SDK1	7	4169550	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08		4169550	154969113	228	6264										
WIPI2	26100	broad.mit.edu	37	chr7	5262287	5262287	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gacaaaaactctttgagtttCggagaggagtaaagaggtaa	12	4	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:5262287C>A	uc003snv.2	+	8	940	c.724C>A	c.(724-726)CGG>AGG	p.R242R	WIPI2_uc003snw.2_Silent_p.R242R|WIPI2_uc003snx.2_Silent_p.R224R|WIPI2_uc003sny.2_Silent_p.R224R|WIPI2_uc010ksv.2_Silent_p.R98R|WIPI2_uc003soa.2_Silent_p.R183R|WIPI2_uc003sob.2_5'UTR	NM_015610	NP_056425	Q9Y4P8	WIPI2_HUMAN	WD repeat domain, phosphoinositide interacting 2	242					autophagic vacuole assembly	cytosol|PAS complex|pre-autophagosomal structure membrane	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding			ovary(2)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0925)|OV - Ovarian serous cystadenocarcinoma(56;2.59e-14)		CTTTGAGTTTCGGAGAGGAGT	0.373													5	167	---	---	---	---	PASS	A	5262287	A	A	5262287	2	1	10	1	0	0	0	0	0	0	0	1	17368	875	31	2		2	WIPI2	7	5262287	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	1092737	5262287	153876376	229	6265										
TWISTNB	221830	broad.mit.edu	37	chr7	19738049	19738049	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tttctttttatggtcactttGgtaaccactggagtcactgc	8	9	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:19738049G>T	uc003sup.1	-	4	928	c.907C>A	c.(907-909)CAA>AAA	p.Q303K		NM_001002926	NP_001002926	Q3B726	RPA43_HUMAN	TWIST neighbor	303	Lys-rich.					microtubule cytoskeleton|nucleolus	DNA-directed RNA polymerase activity			ovary(1)	1						TGGTCACTTTGGTAACCACTG	0.418													12	722	---	---	---	---	PASS	T	19738049	T	T	19738049	3	4	10	1	0	0	0	0	1	0	0	0	16781	1357	47	3	113	3	TWISTNB	7	19738049	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	14475762	19738049	139400614	230	6266										
SP4	6671	broad.mit.edu	37	chr7	21550868	21550868	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agcaactcccaatgtttcaaCcaacatggaagaattctgaa	6	10	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:21550868C>A	uc003sva.2	+	6	2517	c.2336C>A	c.(2335-2337)ACC>AAC	p.T779N	SP4_uc003svb.2_Missense_Mutation_p.T466N	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	779					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						AATGTTTCAACCAACATGGAA	0.428													51	19	---	---	---	---	PASS	A	21550868	A	A	21550868	3	1	10	1	0	0	0	0	1	0	0	0	14966	507	18	3	2358	3	SP4	7	21550868	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1812819	21550868	137587795	231	6267										
DNAH11	8701	broad.mit.edu	37	chr7	21757524	21757524	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	taaaaccatcacttcaattcCtgagagtagcctggtgcagg	9	10	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:21757524C>A	uc003svc.2	+	44	7167	c.7136C>A	c.(7135-7137)CCT>CAT	p.P2379H		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2379					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						ACTTCAATTCCTGAGAGTAGC	0.398									Kartagener_syndrome				11	389	---	---	---	---	PASS	A	21757524	A	A	21757524	3	1	10	1	0	0	0	0	1	0	0	0	4599	681	24	3	7307	3	DNAH11	7	21757524	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	206656	21757524	137381139	232	6268										
CDCA7L	55536	broad.mit.edu	37	chr7	21945920	21945920	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aaaataccccaattgtcttcCttcttcggaagctgtaaaac	5	11	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:21945920C>A	uc010kuk.2	-	6	1028	c.908G>T	c.(907-909)AGG>ATG	p.R303M	CDCA7L_uc003sve.3_Missense_Mutation_p.R269M|CDCA7L_uc010kul.2_Missense_Mutation_p.R257M|CDCA7L_uc003svf.3_Missense_Mutation_p.R302M	NM_018719	NP_061189	Q96GN5	CDA7L_HUMAN	cell division cycle associated 7-like isoform 1	303					positive regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus					0						AATTGTCTTCCTTCTTCGGAA	0.443													9	365	---	---	---	---	PASS	A	21945920	A	A	21945920	3	1	10	1	0	0	0	0	1	0	0	0	3091	681	24	3	476	3	CDCA7L	7	21945920	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	188396	21945920	137192743	233	6269										
STK31	56164	broad.mit.edu	37	chr7	23775395	23775395	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaacctcaaaagccccattcCtttgtgggggcatagatcaa	9	11	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:23775395C>A	uc003sws.3	+	7	789	c.722C>A	c.(721-723)CCT>CAT	p.P241H	STK31_uc003swt.3_Missense_Mutation_p.P218H|STK31_uc011jze.1_Missense_Mutation_p.P241H|STK31_uc010kuq.2_Missense_Mutation_p.P218H	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	241							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						AGCCCCATTCCTTTGTGGGGG	0.453													8	219	---	---	---	---	PASS	A	23775395	A	A	23775395	3	1	10	1	0	0	0	0	1	0	0	0	15295	681	24	3	748	3	STK31	7	23775395	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1829475	23775395	135363268	234	6270										
ABCA13	154664	broad.mit.edu	37	chr7	48266877	48266877	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agatggatctcaataagaccGaggaggtaatattgaaactg	11	5	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:48266877G>T	uc003toq.2	+	6	512	c.487G>T	c.(487-489)GAG>TAG	p.E163*	ABCA13_uc003top.2_Nonsense_Mutation_p.E163*|ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	163					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CAATAAGACCGAGGAGGTAAT	0.398													5	116	---	---	---	---	PASS	T	48266877	T	T	48266877	4	4	10	1	0	0	0	0	0	1	0	0	31	1059	37	2	338	2	ABCA13	7	48266877	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	24491482	48266877	110871786	235	6271										
VWC2	375567	broad.mit.edu	37	chr7	49842319	49842319	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgtttcaggtgtctccatgcGagaggtgtcgctgtgaagcc	14	9	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:49842319G>T	uc003tot.1	+	3	1265	c.709G>T	c.(709-711)GAG>TAG	p.E237*		NM_198570	NP_940972	Q2TAL6	VWC2_HUMAN	von Willebrand factor C domain containing 2	237	VWFC 2.				negative regulation of BMP signaling pathway|positive regulation of neuron differentiation	basement membrane|extracellular space					0						GTCTCCATGCGAGAGGTGTCG	0.473													37	42	---	---	---	---	PASS	T	49842319	T	T	49842319	4	4	10	1	0	0	0	0	0	1	0	0	17240	1059	37	2	715	2	VWC2	7	49842319	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1575442	49842319	109296344	236	6272										
GNAT3	346562	broad.mit.edu	37	chr7	80108231	80108231	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	attcctggatctctccacagCcgttttattacctcagccag	6	14	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:80108231C>T	uc011kgu.1	-	4	387	c.387G>A	c.(385-387)CGG>CGA	p.R129R	CD36_uc003uhc.2_Intron	NM_001102386	NP_001095856	A8MTJ3	GNAT3_HUMAN	guanine nucleotide binding protein, alpha	129					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction|sensory perception of sweet taste|sensory perception of umami taste	cytoplasm|heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						CTCTCCACAGCCGTTTTATTA	0.443													19	109	---	---	---	---	PASS	T	80108231	T	T	80108231	2	4	10	1	0	0	0	0	0	0	0	1	6513	726	26	3		3	GNAT3	7	80108231	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	30265912	80108231	79030432	237	6273										
SEMA3C	10512	broad.mit.edu	37	chr7	80418629	80418629	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctcaaatatttacctgttccGagaaacaggacatggtatct	7	9	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:80418629G>T	uc003uhj.2	-	12	1909	c.1347C>A	c.(1345-1347)CTC>CTA	p.L449L	SEMA3C_uc011kgw.1_Silent_p.L467L	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	449	Sema.				immune response|response to drug	membrane	receptor activity			ovary(1)	1						TACCTGTTCCGAGAAACAGGA	0.393													5	86	---	---	---	---	PASS	T	80418629	T	T	80418629	2	4	10	1	0	0	0	0	0	0	0	1	14026	1045	37	2		2	SEMA3C	7	80418629	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	310398	80418629	78720034	238	6274										
PCLO	27445	broad.mit.edu	37	chr7	82580167	82580167	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccatgatcttttcttgttctCggaacctttgaatttcctga	6	10	3	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:82580167C>A	uc003uhx.2	-	6	10026	c.9737G>T	c.(9736-9738)CGA>CTA	p.R3246L	PCLO_uc003uhv.2_Missense_Mutation_p.R3246L|PCLO_uc010lec.2_Missense_Mutation_p.R211L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3177	Gln-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTCTTGTTCTCGGAACCTTTG	0.473													4	94	---	---	---	---	PASS	A	82580167	A	A	82580167	3	1	10	1	0	0	0	0	1	0	0	0	11583	884	31	2	5788	2	PCLO	7	82580167	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	2161538	82580167	76558496	239	6275										
SAMD9L	219285	broad.mit.edu	37	chr7	92763543	92763543	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gataaatatgtgagtttacaGagatacacaacatattttcc	6	6	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:92763543G>A	uc003umh.1	-	5	2958	c.1742C>T	c.(1741-1743)TCT>TTT	p.S581F	SAMD9L_uc003umj.1_Missense_Mutation_p.S581F|SAMD9L_uc003umi.1_Missense_Mutation_p.S581F|SAMD9L_uc010lfb.1_Missense_Mutation_p.S581F|SAMD9L_uc003umk.1_Missense_Mutation_p.S581F|SAMD9L_uc010lfc.1_Missense_Mutation_p.S581F|SAMD9L_uc010lfd.1_Missense_Mutation_p.S581F|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	581										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			TGAGTTTACAGAGATACACAA	0.353													13	66	---	---	---	---	PASS	A	92763543	A	A	92763543	3	1	10	1	0	0	0	0	1	0	0	0	13827	942	33	2	3016	2	SAMD9L	7	92763543	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	10183376	92763543	66375120	240	6276										
AGFG2	3268	broad.mit.edu	37	chr7	100151098	100151098	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgatcctgcaccgtctctctCagttgctgcctccacctcga	7	17	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:100151098C>G	uc003uvf.2	+	4	696	c.560C>G	c.(559-561)TCA>TGA	p.S187*	AGFG2_uc003uvg.1_Intron|AGFG2_uc010lgy.2_Missense_Mutation_p.Q49E	NM_006076	NP_006067	O95081	AGFG2_HUMAN	ArfGAP with FG repeats 2	187					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			central_nervous_system(1)	1						CCGTCTCTCTCAGTTGCTGCC	0.542													11	64	---	---	---	---	PASS	G	100151098	G	G	100151098	4	3	10	1	0	0	0	0	0	1	0	0	381	838	29	2	574	2	AGFG2	7	100151098	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	7387555	100151098	58987565	241	6277										
MUC17	140453	broad.mit.edu	37	chr7	100677488	100677488	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctccattaacaagtatgcctGacagcaccacgccggtagtc	8	14	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:100677488G>C	uc003uxp.1	+	3	2844	c.2791G>C	c.(2791-2793)GAC>CAC	p.D931H	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	931	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|13.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AAGTATGCCTGACAGCACCAC	0.507													111	222	---	---	---	---	PASS	C	100677488	C	C	100677488	3	2	10	1	0	0	0	0	1	0	0	0	9974	1290	45	2	2801	2	MUC17	7	100677488	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	526390	100677488	58461175	242	6278										
LRRC17	10234	broad.mit.edu	37	chr7	102585004	102585004	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atgaatgggaaaaaaaacatAgagatcacaccgcaaagaag	9	6	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:102585004A>G	uc003vau.2	+	4	1665	c.1276A>G	c.(1276-1278)AGA>GGA	p.R426G	FBXL13_uc010liq.1_Intron|FBXL13_uc003vaq.2_Intron|FBXL13_uc010lir.1_Intron|FBXL13_uc003var.2_Intron|FBXL13_uc003vas.2_Intron|LRRC17_uc003vat.2_3'UTR	NM_001031692	NP_001026862	Q8N6Y2	LRC17_HUMAN	leucine rich repeat containing 17 isoform 1	426					bone marrow development|negative regulation of osteoclast differentiation|ossification	extracellular space				ovary(1)	1						AAAAAAACATAGAGATCACAC	0.338													13	61	---	---	---	---	PASS	G	102585004	G	G	102585004	3	3	10	1	0	0	0	0	1	0	0	0	8973	412	15	5	1304	5	LRRC17	7	102585004	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	1907516	102585004	56553659	243	6279										
RELN	5649	broad.mit.edu	37	chr7	103180820	103180820	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccacgagaggccaccgttgaGagaatactgtaggagcacgg	14	10	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:103180820G>C	uc003vca.2	-	44	6914	c.6754C>G	c.(6754-6756)CTC>GTC	p.L2252V	RELN_uc010liz.2_Missense_Mutation_p.L2252V	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2252	BNR 10.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCACCGTTGAGAGAATACTGT	0.502													48	69	---	---	---	---	PASS	C	103180820	C	C	103180820	3	2	10	1	0	0	0	0	1	0	0	0	13220	942	33	2	3716	2	RELN	7	103180820	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	595816	103180820	55957843	244	6280										
RELN	5649	broad.mit.edu	37	chr7	103205825	103205825	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atgcagacagccaatggttgGaggaacacactcttcggtga	12	9	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:103205825G>A	uc003vca.2	-	34	5270	c.5110C>T	c.(5110-5112)CCA>TCA	p.P1704S	RELN_uc010liz.2_Missense_Mutation_p.P1704S	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1704					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCAATGGTTGGAGGAACACAC	0.493													10	36	---	---	---	---	PASS	A	103205825	A	A	103205825	3	1	10	1	0	0	0	0	1	0	0	0	13220	1174	41	2	5400	2	RELN	7	103205825	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	25005	103205825	55932838	245	6281										
RELN	5649	broad.mit.edu	37	chr7	103230190	103230190	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggtaacagccttctttcaccAgaaaccaggacataccagca	7	13	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:103230190A>G	uc003vca.2	-	28	4158	c.3998T>C	c.(3997-3999)CTG>CCG	p.L1333P	RELN_uc010liz.2_Missense_Mutation_p.L1333P	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1333	BNR 5.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TTCTTTCACCAGAAACCAGGA	0.468													37	79	---	---	---	---	PASS	G	103230190	G	G	103230190	3	3	10	1	0	0	0	0	1	0	0	0	13220	188	7	5	6536	5	RELN	7	103230190	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	24365	103230190	55908473	246	6282										
LRRN3	54674	broad.mit.edu	37	chr7	110764903	110764903	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agcaggaaaagaaaaaagtaCatcactgaaagtaaaagcaa	8	5	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:110764903C>G	uc003vft.3	+	4	3121	c.2075C>G	c.(2074-2076)ACA>AGA	p.T692R	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.T692R|LRRN3_uc003vfs.3_Missense_Mutation_p.T692R	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	692	Cytoplasmic (Potential).					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		GAAAAAAGTACATCACTGAAA	0.353													9	41	---	---	---	---	PASS	G	110764903	G	G	110764903	3	3	10	1	0	0	0	0	1	0	0	0	9036	478	17	4	2077	4	LRRN3	7	110764903	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	7534713	110764903	48373760	247	6283										
PPP1R3A	5506	broad.mit.edu	37	chr7	113519652	113519652	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agatccttcttctgttgattCtttgagacatgccgacgtat	8	9	3	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:113519652C>G	uc010ljy.1	-	4	1526	c.1495G>C	c.(1495-1497)GAA>CAA	p.E499Q		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	499					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TCTGTTGATTCTTTGAGACAT	0.318													16	31	---	---	---	---	PASS	G	113519652	G	G	113519652	3	3	10	1	0	0	0	0	1	0	0	0	12371	922	32	2	1877	2	PPP1R3A	7	113519652	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	2754749	113519652	45619011	248	6284										
PTPRZ1	5803	broad.mit.edu	37	chr7	121668637	121668637	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agactgcacacttttacttaGaggacagtacatcccctaga	7	11	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:121668637G>T	uc003vjy.2	+	14	5415	c.5020G>T	c.(5020-5022)GAG>TAG	p.E1674*	PTPRZ1_uc003vjz.2_Nonsense_Mutation_p.E814*|PTPRZ1_uc011knt.1_Nonsense_Mutation_p.E264*	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1674	Cytoplasmic (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						CTTTTACTTAGAGGACAGTAC	0.388													5	33	---	---	---	---	PASS	T	121668637	T	T	121668637	4	4	10	1	0	0	0	0	0	1	0	0	12814	943	33	2	5074	2	PTPRZ1	7	121668637	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	8148985	121668637	37470026	249	6285										
FEZF1	389549	broad.mit.edu	37	chr7	121944015	121944015	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cctcggttcaggtagcacaaGgcgcccatggcgtggaatga	14	11	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:121944015G>T	uc003vkd.2	-	1	551	c.477C>A	c.(475-477)GCC>GCA	p.A159A	FEZF1_uc003vkc.2_Intron|uc010lko.1_RNA|uc003vkf.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	159					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						GGTAGCACAAGGCGCCCATGG	0.657													5	3	---	---	---	---	PASS	T	121944015	T	T	121944015	2	4	10	1	0	0	0	0	0	0	0	1	5825	987	35	3		3	FEZF1	7	121944015	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	275378	121944015	37194648	250	6286										
AKR1B15	441282	broad.mit.edu	37	chr7	134253033	134253033	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aagccatccaagagaagatcCaagagaaggctgtgatgcgg	13	8	0	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:134253033C>A	uc011kpr.1	+	4	573	c.274C>A	c.(274-276)CAA>AAA	p.Q92K	AKR1B15_uc003vrt.2_Missense_Mutation_p.Q64K|AKR1B15_uc011kps.1_Missense_Mutation_p.Q64K	NM_001080538	NP_001074007	C9JRZ8	AK1BF_HUMAN	aldo-keto reductase family 1, member B15	92							oxidoreductase activity			ovary(1)	1						AGAGAAGATCCAAGAGAAGGC	0.512													8	152	---	---	---	---	PASS	A	134253033	A	A	134253033	3	1	10	1	0	0	0	0	1	0	0	0	468	595	21	3	280	3	AKR1B15	7	134253033	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	12309018	134253033	24885630	251	6287										
CHRM2	1129	broad.mit.edu	37	chr7	136699829	136699829	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cctgtgctgaccttatcataGgtgttttctccatgaacttg	8	10	2	2	rs11773032		TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:136699829G>T	uc003vtf.1	+	4	840	c.217G>T	c.(217-219)GGT>TGT	p.G73C	CHRM2_uc003vtg.1_Missense_Mutation_p.G73C|CHRM2_uc003vtj.1_Missense_Mutation_p.G73C|CHRM2_uc003vtk.1_Missense_Mutation_p.G73C|CHRM2_uc003vtl.1_Missense_Mutation_p.G73C|CHRM2_uc003vtm.1_Missense_Mutation_p.G73C|CHRM2_uc003vti.1_Missense_Mutation_p.G73C|CHRM2_uc003vto.1_Missense_Mutation_p.G73C|CHRM2_uc003vtn.1_Missense_Mutation_p.G73C|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	73	Helical; Name=2; (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	CCTTATCATAGGTGTTTTCTC	0.478													6	89	---	---	---	---	PASS	T	136699829	T	T	136699829	3	4	10	1	0	0	0	0	1	0	0	0	3377	1000	35	3	219	3	CHRM2	7	136699829	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	2446796	136699829	22438834	252	6288										
DGKI	9162	broad.mit.edu	37	chr7	137172424	137172424	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tccacgcacaactagaatacCcagaggtatcgctaagggtg	10	11	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:137172424C>A	uc003vtt.2	-	23	2315	c.2314G>T	c.(2314-2316)GGT>TGT	p.G772C	DGKI_uc003vtu.2_Missense_Mutation_p.G472C	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	772					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						ACTAGAATACCCAGAGGTATC	0.363													8	161	---	---	---	---	PASS	A	137172424	A	A	137172424	3	1	10	1	0	0	0	0	1	0	0	0	4471	623	22	3	931	3	DGKI	7	137172424	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	472595	137172424	21966239	253	6289										
ZNF786	136051	broad.mit.edu	37	chr7	148769495	148769495	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aaggaaacaaaggatccaaaGgaacactggctttcaggatc	10	8	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:148769495G>T	uc003wfh.2	-	4	506	c.369C>A	c.(367-369)TCC>TCA	p.S123S	ZNF786_uc011kuk.1_Silent_p.S86S|ZNF786_uc003wfi.2_Silent_p.S37S	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	123					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			AGGATCCAAAGGAACACTGGC	0.507													4	18	---	---	---	---	PASS	T	148769495	T	T	148769495	2	4	10	1	0	0	0	0	0	0	0	1	18155	987	35	3		3	ZNF786	7	148769495	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	11597071	148769495	10369168	254	6290										
NCAPG2	54892	broad.mit.edu	37	chr7	158439183	158439183	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cgaagactttattattattcCtattaaacaccttgaaaatg	4	7	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr7:158439183C>A	uc003wnv.1	-	25	3293	c.3148G>T	c.(3148-3150)GGA>TGA	p.G1050*	NCAPG2_uc010lqu.1_Nonsense_Mutation_p.G795*|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Nonsense_Mutation_p.G1050*|NCAPG2_uc011kwe.1_Nonsense_Mutation_p.G1050*|NCAPG2_uc011kwc.1_Nonsense_Mutation_p.G504*|NCAPG2_uc011kwd.1_Nonsense_Mutation_p.G493*	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	1050					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		ATTATTATTCCTATTAAACAC	0.398													6	38	---	---	---	---	PASS	A	158439183	A	A	158439183	4	1	10	1	0	0	0	0	0	1	0	0	10208	690	24	3	299	3	NCAPG2	7	158439183	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	9669688	158439183	699480	255	6291										
SLC18A1	6570	broad.mit.edu	37	chr8	20031914	20031914	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tccaatgccttgaagggttcGggccacaaagagtagagtat	12	8	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:20031914G>C	uc011kyq.1	-	6	1060	c.589C>G	c.(589-591)CGA>GGA	p.R197G	SLC18A1_uc003wzl.2_5'Flank|SLC18A1_uc003wzm.2_Missense_Mutation_p.R197G|SLC18A1_uc011kyr.1_Missense_Mutation_p.R197G|SLC18A1_uc003wzn.2_Missense_Mutation_p.R197G|SLC18A1_uc010ltf.2_RNA|SLC18A1_uc003wzo.2_Missense_Mutation_p.R197G	NM_001135691	NP_001129163	P54219	VMAT1_HUMAN	solute carrier family 18 (vesicular monoamine),	197	Lumenal, vesicle (Potential).				neurotransmitter transport	clathrin sculpted monoamine transport vesicle membrane|integral to membrane|membrane fraction	drug transmembrane transporter activity|monoamine transmembrane transporter activity			ovary(2)	2				Colorectal(74;0.0747)		TGAAGGGTTCGGGCCACAAAG	0.473													16	17	---	---	---	---	PASS	C	20031914	C	C	20031914	3	2	10	1	0	0	0	0	1	0	0	0	14425	1124	39	4	1036	4	SLC18A1	8	20031914	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08		20031914	126332108	256	6292										
RHOBTB2	23221	broad.mit.edu	37	chr8	22862901	22862901	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccaggtgctggaacgctcccGagacgtggtagatgatgtca	14	10	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:22862901G>T	uc003xcq.2	+	3	746	c.209G>T	c.(208-210)CGA>CTA	p.R70L	RHOBTB2_uc003xcp.2_Missense_Mutation_p.R92L|RHOBTB2_uc011kzp.1_Missense_Mutation_p.R77L	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	70	Rho-like.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		GAACGCTCCCGAGACGTGGTA	0.607													4	40	---	---	---	---	PASS	T	22862901	T	T	22862901	3	4	10	1	0	0	0	0	1	0	0	0	13334	1058	37	2	300	2	RHOBTB2	8	22862901	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	2830987	22862901	123501121	257	6293										
NEFM	4741	broad.mit.edu	37	chr8	24775752	24775752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgataaaggtgccaagggatCcaggaaggaagacatagctg	14	6	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:24775752C>A	uc003xed.3	+	3	2417	c.2384C>A	c.(2383-2385)TCC>TAC	p.S795Y	NEFM_uc011lac.1_Intron|NEFM_uc010lue.2_Missense_Mutation_p.S419Y	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	795	Tail.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		gccaagggatccaggaaggaa	0.01													3	3	---	---	---	---	PASS	A	24775752	A	A	24775752	3	1	10	1	0	0	0	0	1	0	0	0	10316	855	30	2	2394	2	NEFM	8	24775752	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1912851	24775752	121588270	258	6294										
WRN	7486	broad.mit.edu	37	chr8	31007883	31007883	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tacggttgaaaacgtaaaaaGgattgatggtgtttctgaag	12	3	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:31007883G>T	uc003xio.3	+	31	4387	c.3599G>T	c.(3598-3600)AGG>ATG	p.R1200M	WRN_uc010lvk.2_Missense_Mutation_p.R667M	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	1200	HRDC.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		AACGTAAAAAGGATTGATGGT	0.353			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				5	51	---	---	---	---	PASS	T	31007883	T	T	31007883	3	4	10	1	0	0	0	0	1	0	0	0	17399	1000	35	3	3717	3	WRN	8	31007883	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	6232131	31007883	115356139	259	6295										
ASH2L	9070	broad.mit.edu	37	chr8	37986347	37986347	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcaaaaagggaaccaagttcCaccagtccattggcaaacac	8	12	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:37986347C>A	uc003xkt.3	+	12	1463	c.1405C>A	c.(1405-1407)CAC>AAC	p.H469N	ASH2L_uc011lbk.1_Missense_Mutation_p.H330N|ASH2L_uc003xku.3_Missense_Mutation_p.H375N|ASH2L_uc010lwa.2_Missense_Mutation_p.H375N	NM_004674	NP_004665	Q9UBL3	ASH2L_HUMAN	ash2-like isoform a	469	B30.2/SPRY.				hemopoiesis|histone H3-K4 methylation|positive regulation of cell proliferation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription from RNA polymerase II promoter	Set1C/COMPASS complex	metal ion binding|protein binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2	Colorectal(12;0.000501)	Lung NSC(58;0.0295)|all_lung(54;0.0413)				AACCAAGTTCCACCAGTCCAT	0.423													9	383	---	---	---	---	PASS	A	37986347	A	A	37986347	3	1	10	1	0	0	0	0	1	0	0	0	1042	594	21	3	1451	3	ASH2L	8	37986347	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	6978464	37986347	108377675	260	6296										
PXDNL	137902	broad.mit.edu	37	chr8	52252201	52252201	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aacctgctctctgagtgctgTgatggtttcctgaatttccg	10	10	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:52252201T>C	uc003xqu.3	-	21	4230	c.4129A>G	c.(4129-4131)ACA>GCA	p.T1377A	PXDNL_uc003xqt.3_Intron	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1377					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CTGAGTGCTGTGATGGTTTCC	0.388													28	59	---	---	---	---	PASS	C	52252201	C	C	52252201	3	2	10	1	0	0	0	0	1	0	0	0	12848	1696	59	5	274	5	PXDNL	8	52252201	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	14265854	52252201	94111821	261	6297										
RRS1	23212	broad.mit.edu	37	chr8	67342384	67342384	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agaggaaagggggcttgggaGgcaagatgaattctgggccg	19	5	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:67342384G>T	uc003xwa.2	+	1	1122	c.1018G>T	c.(1018-1020)GGC>TGC	p.G340C	ADHFE1_uc003xwb.3_5'Flank|ADHFE1_uc003xwd.3_5'Flank|ADHFE1_uc003xwc.3_5'Flank|ADHFE1_uc003xwe.3_5'Flank|ADHFE1_uc003xwf.3_5'Flank|ADHFE1_uc011les.1_5'Flank|ADHFE1_uc011leq.1_5'Flank|ADHFE1_uc011ler.1_5'Flank	NM_015169	NP_055984	Q15050	RRS1_HUMAN	homolog of yeast ribosome biogenesis regulatory	340	Arg/Gly/Lys-rich.				mitotic metaphase plate congression|ribosome biogenesis	condensed nuclear chromosome|nucleolus					0		Lung NSC(129;0.197)	Epithelial(68;0.0391)|all cancers(69;0.0898)|BRCA - Breast invasive adenocarcinoma(89;0.111)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			GGGCTTGGGAGGCAAGATGAA	0.617													5	61	---	---	---	---	PASS	T	67342384	T	T	67342384	3	4	10	1	0	0	0	0	1	0	0	0	13692	1000	35	3	1020	3	RRS1	8	67342384	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	15090183	67342384	79021638	262	6298										
COPS5	10987	broad.mit.edu	37	chr8	67970422	67970422	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agggtggctatgataccaccCgattgcattttcaaggcggc	12	10	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:67970422C>A	uc003xxe.2	-	3	734	c.403G>T	c.(403-405)GGG>TGG	p.G135W	COPS5_uc003xxd.2_Missense_Mutation_p.G71W|COPS5_uc003xxf.2_Missense_Mutation_p.G180W|COPS5_uc010lyu.1_5'Flank|COPS5_uc010lyv.1_Missense_Mutation_p.G135W	NM_006837	NP_006828	Q92905	CSN5_HUMAN	COP9 signalosome subunit 5	135	MPN.				cullin deneddylation|transcription from RNA polymerase II promoter	eukaryotic translation initiation factor 3 complex|signalosome	metal ion binding|metallopeptidase activity|protein binding|transcription coactivator activity|translation initiation factor activity			ovary(1)|skin(1)	2	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00389)|OV - Ovarian serous cystadenocarcinoma(28;0.00691)|all cancers(69;0.0205)|BRCA - Breast invasive adenocarcinoma(89;0.153)			TGATACCACCCGATTGCATTT	0.423													19	31	---	---	---	---	PASS	A	67970422	A	A	67970422	3	1	10	1	0	0	0	0	1	0	0	0	3736	652	23	1	625	1	COPS5	8	67970422	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	628038	67970422	78393600	263	6299										
ZFHX4	79776	broad.mit.edu	37	chr8	77767585	77767585	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cttcatcgattaatacggcaAtcagtgacgccaccaccgga	8	13	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:77767585A>G	uc003yav.2	+	10	8680	c.8293A>G	c.(8293-8295)ATC>GTC	p.I2765V	ZFHX4_uc003yau.1_Missense_Mutation_p.I2810V|ZFHX4_uc003yaw.1_Missense_Mutation_p.I2765V	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2765						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TAATACGGCAATCAGTGACGC	0.468										HNSCC(33;0.089)			17	55	---	---	---	---	PASS	G	77767585	G	G	77767585	3	3	10	1	0	0	0	0	1	0	0	0	17632	101	4	5	8462	5	ZFHX4	8	77767585	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	9797163	77767585	68596437	264	6300										
RIPK2	8767	broad.mit.edu	37	chr8	90782012	90782012	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccttacagattgcagattttGgtttatcaaagtggcgcatg	10	7	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:90782012G>T	uc003yee.2	+	4	810	c.496G>T	c.(496-498)GGT>TGT	p.G166C	RIPK2_uc003yef.2_Missense_Mutation_p.G29C	NM_003821	NP_003812	O43353	RIPK2_HUMAN	receptor-interacting serine-threonine kinase 2	166	Protein kinase.				activation of MAPK activity|anti-apoptosis|apoptosis|inflammatory response|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|CARD domain binding|LIM domain binding|protein homodimerization activity|protein serine/threonine kinase activity|signal transducer activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.0474)			TGCAGATTTTGGTTTATCAAA	0.363													6	127	---	---	---	---	PASS	T	90782012	T	T	90782012	3	4	10	1	0	0	0	0	1	0	0	0	13381	1348	47	3	510	3	RIPK2	8	90782012	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	13014427	90782012	55582010	265	6301										
RUNX1T1	862	broad.mit.edu	37	chr8	93017415	93017415	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaggagtcaacaggtgaggtGgtgctggcatccagaagcag	17	7	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:93017415G>T	uc003yfd.2	-	5	753	c.669C>A	c.(667-669)ACC>ACA	p.T223T	RUNX1T1_uc003yfc.1_Silent_p.T196T|RUNX1T1_uc003yfe.1_Silent_p.T186T|RUNX1T1_uc010mao.2_Silent_p.T196T|RUNX1T1_uc011lgi.1_Silent_p.T234T|RUNX1T1_uc003yfb.1_Silent_p.T186T|RUNX1T1_uc003yff.1_Silent_p.T186T	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	223					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			CAGGTGAGGTGGTGCTGGCAT	0.592													31	68	---	---	---	---	PASS	T	93017415	T	T	93017415	2	4	10	1	0	0	0	0	0	0	0	1	13747	1335	47	3		3	RUNX1T1	8	93017415	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	2235403	93017415	53346607	266	6302										
ANKRD46	157567	broad.mit.edu	37	chr8	101540109	101540109	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tttgcatggtctccagtttcGagtgggttcctctgttaaat	10	8	2	0	rs140674239		TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:101540109G>T	uc003yjm.2	-	4	638	c.434C>A	c.(433-435)TCG>TAG	p.S145*	ANKRD46_uc003yjn.1_Nonsense_Mutation_p.S145*|ANKRD46_uc003yjo.1_Nonsense_Mutation_p.S145*|ANKRD46_uc003yjp.1_Nonsense_Mutation_p.S145*	NM_198401	NP_940683	Q86W74	ANR46_HUMAN	ankyrin repeat domain 46	145						integral to membrane					0	all_cancers(14;5.07e-05)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000353)|all_lung(17;0.000998)		Epithelial(11;2.61e-11)|all cancers(13;5.03e-09)|OV - Ovarian serous cystadenocarcinoma(57;4.49e-06)|STAD - Stomach adenocarcinoma(118;0.0957)			CTCCAGTTTCGAGTGGGTTCC	0.368													6	76	---	---	---	---	PASS	T	101540109	T	T	101540109	4	4	10	1	0	0	0	0	0	1	0	0	674	1059	37	2	260	2	ANKRD46	8	101540109	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	8522694	101540109	44823913	267	6303										
RIMS2	9699	broad.mit.edu	37	chr8	104898026	104898026	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcaaagatctatatcagaacGtagagctgccatggaaaatc	9	8	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:104898026G>T	uc003yls.2	+	2	774	c.533G>T	c.(532-534)CGT>CTT	p.R178L	RIMS2_uc003ylp.2_Missense_Mutation_p.R400L|RIMS2_uc003ylw.2_Missense_Mutation_p.R208L|RIMS2_uc003ylq.2_Missense_Mutation_p.R208L|RIMS2_uc003ylr.2_Missense_Mutation_p.R208L	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	431					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			ATATCAGAACGTAGAGCTGCC	0.433										HNSCC(12;0.0054)			12	23	---	---	---	---	PASS	T	104898026	T	T	104898026	3	4	10	1	0	0	0	0	1	0	0	0	13368	1145	40	1	1339	1	RIMS2	8	104898026	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	3357917	104898026	41465996	268	6304										
TRHR	7201	broad.mit.edu	37	chr8	110131291	110131291	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccctaggtcaccaagatgctGgcagtggttgtaattctgtt	11	9	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:110131291G>T	uc003ymz.3	+	2	820	c.804G>T	c.(802-804)CTG>CTT	p.L268L		NM_003301	NP_003292	P34981	TRFR_HUMAN	thyrotropin-releasing hormone receptor	268	Helical; Name=6; (Potential).					integral to plasma membrane	thyrotropin-releasing hormone receptor activity			skin(2)|lung(1)	3			OV - Ovarian serous cystadenocarcinoma(57;2.3e-11)			CCAAGATGCTGGCAGTGGTTG	0.403													6	152	---	---	---	---	PASS	T	110131291	T	T	110131291	2	4	10	1	0	0	0	0	0	0	0	1	16477	1335	47	3		3	TRHR	8	110131291	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	5233265	110131291	36232731	269	6305										
DEPDC6	64798	broad.mit.edu	37	chr8	120940802	120940802	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atgcagaaattagcagaccgGggcattattcaccatggtga	11	8	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:120940802G>C	uc003yow.3	+	2	472	c.285G>C	c.(283-285)CGG>CGC	p.R95R	DEPDC6_uc011lid.1_Intron	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	95	DEP 1.				intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TAGCAGACCGGGGCATTATTC	0.433													34	65	---	---	---	---	PASS	C	120940802	C	C	120940802	2	2	10	1	0	0	0	0	0	0	0	1	4443	1219	43	4		4	DEPDC6	8	120940802	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	10809511	120940802	25423220	270	6306										
KCNQ3	3786	broad.mit.edu	37	chr8	133150161	133150161	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aggtactttatcctggaaagCatgtcgagatgcccggcaga	12	9	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:133150161C>G	uc003ytj.2	-	12	1896	c.1671G>C	c.(1669-1671)ATG>ATC	p.M557I	KCNQ3_uc010mdt.2_Missense_Mutation_p.M557I	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	557					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			TCCTGGAAAGCATGTCGAGAT	0.458													45	85	---	---	---	---	PASS	G	133150161	G	G	133150161	3	3	10	1	0	0	0	0	1	0	0	0	8084	710	25	4	963	4	KCNQ3	8	133150161	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	12209359	133150161	13213861	271	6307										
COL22A1	169044	broad.mit.edu	37	chr8	139635985	139635985	+	Frame_Shift_Del	DEL	G	-	-													0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agtcctttaccggctctccaGggggacccggctttccatct							TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:139635985delG	uc003yvd.2	-	52	4208	c.3761delC	c.(3760-3762)CCTfs	p.P1254fs	COL22A1_uc011ljo.1_Frame_Shift_Del_p.P534fs	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1254	Pro-rich.|Gly-rich.|Collagen-like 12.				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)			CGGCTCTCCAGGGGGACCCGG	0.378										HNSCC(7;0.00092)			149	69	---	---	---	---		-	139635985	-	-	139635985	7	5	10	1	0	1	0	1	0	0	0	0	3681	1000	35	0	1175	0	COL22A1	8	139635985	Frame_Shift_Del	DEL	G	TCGA-18-3416-01A-01D-0983-08	6485824	139635985	6728037	272	6308										
FLJ43860	389690	broad.mit.edu	37	chr8	142477649	142477649	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtgagctgctgcatgatatcCtgtacagcgggggtggagag	17	7	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:142477649C>G	uc003ywi.2	-	18	2254	c.2173_splice	c.e18-1	p.D725_splice	FLJ43860_uc011ljs.1_Splice_Site|FLJ43860_uc010meu.1_Splice_Site	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690								binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GCATGATATCCTGTACAGCGG	0.642													4	35	---	---	---	---	PASS	G	142477649	G	G	142477649	5	3	10	1	0	0	0	0	0	0	1	0	5930	695	24	4	1836	4	FLJ43860	8	142477649	Splice_Site	SNP	C	TCGA-18-3416-01A-01D-0983-08	2841664	142477649	3886373	273	6309										
ZNF696	79943	broad.mit.edu	37	chr8	144378212	144378212	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcgggggcagctggaaggggCggcctttcccgtgcggcgcc	20	13	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:144378212C>A	uc003yxy.3	+	3	776	c.367C>A	c.(367-369)CGG>AGG	p.R123R		NM_030895	NP_112157	Q9H7X3	ZN696_HUMAN	zinc finger protein 696	123					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			CTGGAAGGGGCGGCCTTTCCC	0.677													3	10	---	---	---	---	PASS	A	144378212	A	A	144378212	2	1	10	1	0	0	0	0	0	0	0	1	18096	759	27	1		1	ZNF696	8	144378212	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	1900563	144378212	1985810	274	6310										
TOP1MT	116447	broad.mit.edu	37	chr8	144406177	144406177	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aaggccgcataccttatcgaTgaaatacagggccaccgccc	9	14	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:144406177T>C	uc003yxz.2	-	7	971	c.952A>G	c.(952-954)ATC>GTC	p.I318V	TOP1MT_uc011lkd.1_Missense_Mutation_p.I220V|TOP1MT_uc011lke.1_Missense_Mutation_p.I220V|TOP1MT_uc010mfb.2_Missense_Mutation_p.I220V|TOP1MT_uc011lkf.1_Missense_Mutation_p.I113V|TOP1MT_uc010mfd.1_Missense_Mutation_p.I113V	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	318					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	ACCTTATCGATGAAATACAGG	0.607													12	36	---	---	---	---	PASS	C	144406177	C	C	144406177	3	2	10	1	0	0	0	0	1	0	0	0	16361	1464	51	5	885	5	TOP1MT	8	144406177	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	27965	144406177	1957845	275	6311										
PLEC	5339	broad.mit.edu	37	chr8	144997715	144997715	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agccgcctgtgcctgagcccGggcctgtgcctgctcctctg	13	17	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr8:144997715G>A	uc003zaf.1	-	31	6963	c.6793C>T	c.(6793-6795)CGG>TGG	p.R2265W	PLEC_uc003zab.1_Missense_Mutation_p.R2128W|PLEC_uc003zac.1_Missense_Mutation_p.R2132W|PLEC_uc003zad.2_Missense_Mutation_p.R2128W|PLEC_uc003zae.1_Missense_Mutation_p.R2096W|PLEC_uc003zag.1_Missense_Mutation_p.R2106W|PLEC_uc003zah.2_Missense_Mutation_p.R2114W|PLEC_uc003zaj.2_Missense_Mutation_p.R2155W	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2265	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						GCCTGAGCCCGGGCCTGTGCC	0.746													5	4	---	---	---	---	PASS	A	144997715	A	A	144997715	3	1	10	1	0	0	0	0	1	0	0	0	12052	1115	39	1	7269	1	PLEC	8	144997715	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	591538	144997715	1366307	276	6312										
DOCK8	81704	broad.mit.edu	37	chr9	312050	312050	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcagcctgcagcctgacaagCggctagaaaacctcctgcag	11	14	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:312050C>T	uc003zgf.2	+	6	737	c.625C>T	c.(625-627)CGG>TGG	p.R209W	DOCK8_uc011lls.1_Missense_Mutation_p.R209W|DOCK8_uc010mgu.2_5'UTR|DOCK8_uc010mgv.2_Missense_Mutation_p.R141W|DOCK8_uc010mgt.2_Missense_Mutation_p.R141W|DOCK8_uc003zgg.2_Missense_Mutation_p.R141W|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	209					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		GCCTGACAAGCGGCTAGAAAA	0.602													58	28	---	---	---	---	PASS	T	312050	T	T	312050	3	4	10	1	0	0	0	0	1	0	0	0	4693	759	27	1	647	1	DOCK8	9	312050	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08		312050	140901381	277	6313										
RFX3	5991	broad.mit.edu	37	chr9	3270516	3270516	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggaagtcgactttctatttcActcagattgctggtgtgaat	10	7	3	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:3270516A>C	uc003zhr.2	-	12	1524	c.1212T>G	c.(1210-1212)AGT>AGG	p.S404R	RFX3_uc010mhd.2_Missense_Mutation_p.S404R|RFX3_uc003zhs.1_Missense_Mutation_p.S404R	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	404					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		TTTCTATTTCACTCAGATTGC	0.353													41	15	---	---	---	---	PASS	C	3270516	C	C	3270516	3	2	10	1	0	0	0	0	1	0	0	0	13264	156	6	5	1221	5	RFX3	9	3270516	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	2958466	3270516	137942915	278	6314										
ERMP1	79956	broad.mit.edu	37	chr9	5811144	5811144	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctgcaaaaattttttgcccaGgtacaaaacaacacccatta	4	11	0	0	rs139768756	byFrequency	TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:5811144G>T	uc003zjm.1	-	7	1348	c.1294C>A	c.(1294-1296)CTG>ATG	p.L432M	ERMP1_uc011lme.1_RNA|ERMP1_uc010mhs.1_Missense_Mutation_p.L46M	NM_024896	NP_079172	Q7Z2K6	ERMP1_HUMAN	aminopeptidase Fxna	432	Cytoplasmic (Potential).				proteolysis	endoplasmic reticulum membrane|integral to membrane	metal ion binding|metallopeptidase activity			ovary(1)	1		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00115)|Lung(218;0.111)		TTTTTGCCCAGGTACAAAACA	0.403													5	77	---	---	---	---	PASS	T	5811144	T	T	5811144	3	4	10	1	0	0	0	0	1	0	0	0	5236	991	35	3	1456	3	ERMP1	9	5811144	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	2540628	5811144	135402287	279	6315										
RANBP6	26953	broad.mit.edu	37	chr9	6014019	6014019	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggacaaatttttcttctattGtatctgcaactgatgcaatg	7	7	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:6014019G>A	uc003zjr.2	-	1	1600	c.1589C>T	c.(1588-1590)ACA>ATA	p.T530I	RANBP6_uc011lmf.1_Missense_Mutation_p.T178I|RANBP6_uc003zjs.2_Missense_Mutation_p.T118I	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	530					protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		TTCTTCTATTGTATCTGCAAC	0.388													51	27	---	---	---	---	PASS	A	6014019	A	A	6014019	3	1	10	1	0	0	0	0	1	0	0	0	13031	1377	48	3	1732	3	RANBP6	9	6014019	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	202875	6014019	135199412	280	6316										
RRAGA	10670	broad.mit.edu	37	chr9	19049819	19049819	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcccacgtccgattcctaggGaacctggtgctgaacctgtg	11	13	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:19049819G>A	uc003znj.2	+	1	448	c.162G>A	c.(160-162)GGG>GGA	p.G54G		NM_006570	NP_006561	Q7L523	RRAGA_HUMAN	Ras-related GTP binding A	54					apoptosis|cellular protein localization|cellular response to amino acid stimulus|positive regulation of cytolysis|positive regulation of TOR signaling cascade|virus-host interaction	Golgi apparatus|lysosome|nucleus	GTP binding|phosphoprotein binding|protein heterodimerization activity|protein homodimerization activity				0						GATTCCTAGGGAACCTGGTGC	0.547													17	10	---	---	---	---	PASS	A	19049819	A	A	19049819	2	1	10	1	0	0	0	0	0	0	0	1	13672	1161	41	2		2	RRAGA	9	19049819	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	13035800	19049819	122163612	281	6317										
CDKN2A	1029	broad.mit.edu	37	chr9	21971003	21971003	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atcgcgatggcccagctcctCagccaggtccacgggcagac	12	16	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:21971003C>A	uc003zpk.2	-	2	567	c.355G>T	c.(355-357)GAG>TAG	p.E119*	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Nonstop_Mutation_p.*174L	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	119	ANK 4.		E -> Q (in a biliary tract tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(13)|p.E119Q(2)|p.E119*(2)|p.A118fs*10(1)|p.A118fs*27(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCCAGCTCCTCAGCCAGGTCC	0.726		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			10	6	---	---	---	---	PASS	A	21971003	A	A	21971003	4	1	10	1	0	0	0	0	0	1	0	0	3161	838	29	2	123	2	CDKN2A	9	21971003	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	2921184	21971003	119242428	282	6318										
TRPM6	140803	broad.mit.edu	37	chr9	77377029	77377029	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccaaaaggatgtgtttggctGaagccatggtcccacctctg	11	11	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:77377029G>T	uc004ajl.1	-	26	4796	c.4558C>A	c.(4558-4560)CAG>AAG	p.Q1520K	TRPM6_uc004ajk.1_Missense_Mutation_p.Q1515K|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajj.1_Missense_Mutation_p.Q476K	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1520	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						GTGTTTGGCTGAAGCCATGGT	0.488													5	62	---	---	---	---	PASS	T	77377029	T	T	77377029	3	4	10	1	0	0	0	0	1	0	0	0	16587	1299	45	2	1566	2	TRPM6	9	77377029	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	55406026	77377029	63836402	283	6319										
TRPM6	140803	broad.mit.edu	37	chr9	77431640	77431640	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggcaatgtccaccctgtccCaagccattgccagatttaat	7	13	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:77431640C>G	uc004ajl.1	-	11	1491	c.1253G>C	c.(1252-1254)TGG>TCG	p.W418S	TRPM6_uc004ajk.1_Missense_Mutation_p.W413S|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.W418S|TRPM6_uc010mpd.1_Missense_Mutation_p.W418S|TRPM6_uc010mpe.1_Intron	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	418	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						CACCCTGTCCCAAGCCATTGC	0.353													21	49	---	---	---	---	PASS	G	77431640	G	G	77431640	3	3	10	1	0	0	0	0	1	0	0	0	16587	595	21	4	4931	4	TRPM6	9	77431640	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	54611	77431640	63781791	284	6320										
PRUNE2	158471	broad.mit.edu	37	chr9	79259819	79259819	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggccagaatctttgttggctGtgggatcttctggaaacaaa	12	7	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:79259819G>C	uc010mpk.2	-	12	8688	c.8564C>G	c.(8563-8565)ACA>AGA	p.T2855R	PRUNE2_uc011lsk.1_Missense_Mutation_p.T104R|PRUNE2_uc011lsl.1_Missense_Mutation_p.T119R|PRUNE2_uc011lsm.1_Missense_Mutation_p.T120R|PRUNE2_uc004akj.3_Missense_Mutation_p.T309R|PRUNE2_uc010mpl.1_Missense_Mutation_p.T309R	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	2855					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TTTGTTGGCTGTGGGATCTTC	0.493													15	25	---	---	---	---	PASS	C	79259819	C	C	79259819	3	2	10	1	0	0	0	0	1	0	0	0	12641	1377	48	4	734	4	PRUNE2	9	79259819	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1828179	79259819	61953612	285	6321										
FLJ46321	389763	broad.mit.edu	37	chr9	84610038	84610038	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agtgctaaaagccctgtgttTagtgatgtgcctttcctaac	9	9	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:84610038T>C	uc004amn.2	+	4	4700	c.4653T>C	c.(4651-4653)TTT>TTC	p.F1551F		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1551						integral to membrane					0						GCCCTGTGTTTAGTGATGTGC	0.502													5	12	---	---	---	---	PASS	C	84610038	C	C	84610038	2	2	10	1	0	0	0	0	0	0	0	1	5932	1751	61	5		5	FLJ46321	9	84610038	Silent	SNP	T	TCGA-18-3416-01A-01D-0983-08	5350219	84610038	56603393	286	6322										
C9orf3	84909	broad.mit.edu	37	chr9	97844894	97844894	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctacggggagctgatggtgaGtgaggacgccagacagcagc	17	9	0	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:97844894G>T	uc004ava.2	+	15	2492	c.2357G>T	c.(2356-2358)AGT>ATT	p.S786I	C9orf3_uc004auy.2_Missense_Mutation_p.S687I|C9orf3_uc004avc.2_Intron|C9orf3_uc011luj.1_Missense_Mutation_p.S148I|C9orf3_uc011luk.1_Missense_Mutation_p.S127I|C9orf3_uc004avd.2_Missense_Mutation_p.S148I|MIR23B_hsa-mir-23b|MI0000439_5'Flank|uc004avg.3_5'Flank|MIR27B_hsa-mir-27b|MI0000440_5'Flank	NM_032823	NP_116212	Q8N6M6	AMPO_HUMAN	aminopeptidase O	786					leukotriene biosynthetic process|proteolysis	cytoplasm	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(323;0.000275)		CTGATGGTGAGTGAGGACGCC	0.602													14	19	---	---	---	---	PASS	T	97844894	T	T	97844894	3	4	10	1	0	0	0	0	1	0	0	0	2477	1029	36	3	2110	3	C9orf3	9	97844894	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	13234856	97844894	43368537	287	6323										
HEMGN	55363	broad.mit.edu	37	chr9	100692888	100692888	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tagcctttaggcacatctggTtttggatatgcttgaagaga	11	6	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:100692888T>A	uc004axy.2	-	3	897	c.789A>T	c.(787-789)AAA>AAT	p.K263N	HEMGN_uc004axz.2_Missense_Mutation_p.K263N	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	263					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				GCACATCTGGTTTTGGATATG	0.443													53	108	---	---	---	---	PASS	A	100692888	A	A	100692888	3	1	10	1	0	0	0	0	1	0	0	0	7050	1722	60	5	673	5	HEMGN	9	100692888	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	2847994	100692888	40520543	288	6324										
HEMGN	55363	broad.mit.edu	37	chr9	100693092	100693092	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggagagttgtcttcaggttcCttcatgtcttggcatatttt	10	7	4	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:100693092C>A	uc004axy.2	-	3	693	c.585G>T	c.(583-585)AAG>AAT	p.K195N	HEMGN_uc004axz.2_Missense_Mutation_p.K195N	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	195					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				CTTCAGGTTCCTTCATGTCTT	0.388													8	224	---	---	---	---	PASS	A	100693092	A	A	100693092	3	1	10	1	0	0	0	0	1	0	0	0	7050	680	24	3	877	3	HEMGN	9	100693092	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	204	100693092	40520339	289	6325										
ALG2	85365	broad.mit.edu	37	chr9	101980729	101980729	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cttccacgcagctgtactagGgcttccagtgccaaagtcag	10	13	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:101980729G>A	uc004azf.2	-	2	808	c.738C>T	c.(736-738)GCC>GCT	p.A246A	ALG2_uc004azg.2_Silent_p.A153A	NM_033087	NP_149078	Q9H553	ALG2_HUMAN	alpha-1,3-mannosyltransferase ALG2	246					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in endoplasmic reticulum|protein N-linked glycosylation via asparagine|response to calcium ion	endoplasmic reticulum membrane|integral to membrane|membrane fraction|nucleus|perinuclear region of cytoplasm	alpha-1,3-mannosyltransferase activity|calcium-dependent protein binding|glycolipid 3-alpha-mannosyltransferase activity|protein anchor|protein heterodimerization activity|protein N-terminus binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.0559)				GCTGTACTAGGGCTTCCAGTG	0.488													21	114	---	---	---	---	PASS	A	101980729	A	A	101980729	2	1	10	1	0	0	0	0	0	0	0	1	519	1219	43	3		3	ALG2	9	101980729	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	1287637	101980729	39232702	290	6326										
OR13C8	138802	broad.mit.edu	37	chr9	107331952	107331952	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tttgcaatgcagttaccattCtgtgctaataatgtcattaa	6	7	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:107331952C>G	uc011lvo.1	+	1	504	c.504C>G	c.(502-504)TTC>TTG	p.F168L		NM_001004483	NP_001004483	Q8NGS7	O13C8_HUMAN	olfactory receptor, family 13, subfamily C,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AGTTACCATTCTGTGCTAATA	0.448													17	49	---	---	---	---	PASS	G	107331952	G	G	107331952	3	3	10	1	0	0	0	0	1	0	0	0	10938	912	32	2	506	2	OR13C8	9	107331952	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	5351223	107331952	33881479	291	6327										
ABCA1	19	broad.mit.edu	37	chr9	107550224	107550224	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aaacaccacaggaggcccgcCgatcaaagccatggctgtag	11	13	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:107550224C>T	uc004bcl.2	-	46	6494	c.6181G>A	c.(6181-6183)GGC>AGC	p.G2061S	NIPSNAP3B_uc004bcj.1_RNA	NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	2061	ABC transporter 2.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GGAGGCCCGCCGATCAAAGCC	0.478													19	46	---	---	---	---	PASS	T	107550224	T	T	107550224	3	4	10	1	0	0	0	0	1	0	0	0	28	652	23	1	624	1	ABCA1	9	107550224	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	218272	107550224	33663207	292	6328										
SVEP1	79987	broad.mit.edu	37	chr9	113241915	113241915	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aatgaccactattgatgtacCatttttcccagggtcgtctc	7	11	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:113241915C>T	uc010mtz.2	-	13	2824	c.2487G>A	c.(2485-2487)ATG>ATA	p.M829I	SVEP1_uc010mua.1_Missense_Mutation_p.M829I|SVEP1_uc004beu.2_Missense_Mutation_p.M829I	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	829					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						ATTGATGTACCATTTTTCCCA	0.388													56	154	---	---	---	---	PASS	T	113241915	T	T	113241915	3	4	10	1	0	0	0	0	1	0	0	0	15417	608	21	3	8372	3	SVEP1	9	113241915	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	5691691	113241915	27971516	293	6329										
ZFP37	7539	broad.mit.edu	37	chr9	115806333	115806333	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcttgagtgatcaggtaaatCtaaattctgtttcaaaattt	6	5	5	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:115806333C>A	uc004bgm.1	-	4	593	c.565G>T	c.(565-567)GAT>TAT	p.D189Y	ZFP37_uc011lwz.1_Missense_Mutation_p.D204Y|ZFP37_uc011lxa.1_Missense_Mutation_p.D190Y	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	189						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TCAGGTAAATCTAAATTCTGT	0.318													34	51	---	---	---	---	PASS	A	115806333	A	A	115806333	3	1	10	1	0	0	0	0	1	0	0	0	17645	913	32	2	1331	2	ZFP37	9	115806333	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	2564418	115806333	25407098	294	6330										
FKBP15	23307	broad.mit.edu	37	chr9	115956357	115956357	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gacacaacaggatcagcagaGaggttgtcagcaccagggat	13	9	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:115956357G>T	uc004bgs.2	-	10	1075	c.957C>A	c.(955-957)CTC>CTA	p.L319L	FKBP15_uc010muu.1_Silent_p.L383L|FKBP15_uc011lxd.1_Silent_p.L251L|FKBP15_uc010mut.1_Silent_p.L187L|FKBP15_uc004bgt.2_Silent_p.L319L	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	319					endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						GATCAGCAGAGAGGTTGTCAG	0.463													6	81	---	---	---	---	PASS	T	115956357	T	T	115956357	2	4	10	1	0	0	0	0	0	0	0	1	5905	929	33	2		2	FKBP15	9	115956357	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	150024	115956357	25257074	295	6331										
COL27A1	85301	broad.mit.edu	37	chr9	116984503	116984503	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggtctctctctatctgcagGgagaactgggcctgccaggc	13	12	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:116984503G>T	uc011lxl.1	+	14	2422	c.2422G>T	c.(2422-2424)GGA>TGA	p.G808*	COL27A1_uc004bii.2_RNA	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	808	Pro-rich.|Triple-helical region.|Collagen-like 4.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						CTATCTGCAGGGAGAACTGGG	0.607													5	52	---	---	---	---	PASS	T	116984503	T	T	116984503	4	4	10	1	0	0	0	0	0	1	0	0	3685	1246	43	3	2476	3	COL27A1	9	116984503	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1028146	116984503	24228928	296	6332										
GSN	2934	broad.mit.edu	37	chr9	124083615	124083615	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atggacagttctatggaggcGacagctacatcattctgtac	10	9	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:124083615G>T	uc004blf.1	+	10	1475	c.1414G>T	c.(1414-1416)GAC>TAC	p.D472Y	GSN_uc004bld.1_Missense_Mutation_p.D421Y|GSN_uc010mvq.1_Missense_Mutation_p.D432Y|GSN_uc010mvr.1_Missense_Mutation_p.D432Y|GSN_uc010mvu.1_Missense_Mutation_p.D421Y|GSN_uc010mvt.1_Missense_Mutation_p.D421Y|GSN_uc010mvs.1_Missense_Mutation_p.D421Y|GSN_uc004ble.1_Missense_Mutation_p.D421Y|GSN_uc010mvv.1_Missense_Mutation_p.D421Y|GSN_uc011lyh.1_Missense_Mutation_p.D438Y|GSN_uc011lyi.1_Missense_Mutation_p.D421Y|GSN_uc011lyj.1_Missense_Mutation_p.D445Y|GSN_uc004blg.1_Missense_Mutation_p.D203Y	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	472	Actin-binding, Ca-sensitive (Potential).|Gelsolin-like 4.				actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						CTATGGAGGCGACAGCTACAT	0.547													12	19	---	---	---	---	PASS	T	124083615	T	T	124083615	3	4	10	1	0	0	0	0	1	0	0	0	6825	1058	37	2	1480	2	GSN	9	124083615	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	7099112	124083615	17129816	297	6333										
DENND1A	57706	broad.mit.edu	37	chr9	126144461	126144461	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggctggagcagttcagtgggGccttgggggacaacaccagg	18	9	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:126144461G>A	uc004bnz.1	-	22	2513	c.2280C>T	c.(2278-2280)GGC>GGT	p.G760G	DENND1A_uc011lzl.1_Silent_p.G578G|DENND1A_uc004bny.1_Silent_p.G542G|DENND1A_uc011lzm.1_Silent_p.G771G|DENND1A_uc010mwh.1_Silent_p.G181G	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	760	Pro-rich.					cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						GTTCAGTGGGGCCTTGGGGGA	0.706													4	4	---	---	---	---	PASS	A	126144461	A	A	126144461	2	1	10	1	0	0	0	0	0	0	0	1	4426	1190	42	3		3	DENND1A	9	126144461	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	2060846	126144461	15068970	298	6334										
FAM129B	64855	broad.mit.edu	37	chr9	130287409	130287409	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tttgtagcctgcactgttgaTgacggctcgtggtgggacct	14	9	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:130287409T>C	uc004brh.2	-	4	551	c.349A>G	c.(349-351)ATC>GTC	p.I117V	FAM129B_uc004bri.2_Missense_Mutation_p.I104V|FAM129B_uc004brj.3_Missense_Mutation_p.I117V	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	117	PH.						protein binding				0						GCACTGTTGATGACGGCTCGT	0.582													8	22	---	---	---	---	PASS	C	130287409	C	C	130287409	3	2	10	1	0	0	0	0	1	0	0	0	5437	1464	51	5	1935	5	FAM129B	9	130287409	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	4142948	130287409	10926022	299	6335										
GLE1	2733	broad.mit.edu	37	chr9	131287581	131287581	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	accagagcctgcgaagacaaGaggaggcaggatgaagaaga	15	7	0	6			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:131287581G>C	uc004bvj.2	+	7	1122	c.1008G>C	c.(1006-1008)AAG>AAC	p.K336N	GLE1_uc004bvi.2_Missense_Mutation_p.K336N|GLE1_uc010myd.2_Missense_Mutation_p.K82N	NM_001003722	NP_001003722	Q53GS7	GLE1_HUMAN	GLE1 RNA export mediator homolog isoform 1	336	Potential.				poly(A)+ mRNA export from nucleus|protein transport|transmembrane transport	cytoplasm|nuclear pore	protein binding				0						GCGAAGACAAGAGGAGGCAGG	0.612													18	30	---	---	---	---	PASS	C	131287581	C	C	131287581	3	2	10	1	0	0	0	0	1	0	0	0	6435	933	33	2	1034	2	GLE1	9	131287581	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1000172	131287581	9925850	300	6336										
SETX	23064	broad.mit.edu	37	chr9	135202449	135202449	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agtttataattgtcattctcCatttgtgaacataaatccat	4	7	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:135202449C>A	uc004cbk.2	-	10	4719	c.4536G>T	c.(4534-4536)ATG>ATT	p.M1512I	SETX_uc004cbj.2_Missense_Mutation_p.M1131I|SETX_uc010mzt.2_Missense_Mutation_p.M1131I	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1512					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		TGTCATTCTCCATTTGTGAAC	0.368													23	61	---	---	---	---	PASS	A	135202449	A	A	135202449	3	1	10	1	0	0	0	0	1	0	0	0	14141	594	21	3	3565	3	SETX	9	135202449	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	3914868	135202449	6010982	301	6337										
TTF1	7270	broad.mit.edu	37	chr9	135273606	135273606	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aggatatctgtccgtgtacaGcagcttgtctgcactctcaa	9	11	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr9:135273606G>T	uc004cbl.2	-	4	1751	c.1699C>A	c.(1699-1701)CTG>ATG	p.L567M	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Missense_Mutation_p.L52M	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	567					negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		TCCGTGTACAGCAGCTTGTCT	0.378													5	42	---	---	---	---	PASS	T	135273606	T	T	135273606	3	4	10	1	0	0	0	0	1	0	0	0	16715	962	34	3	1050	3	TTF1	9	135273606	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	71157	135273606	5939825	302	6338										
GTPBP4	23560	broad.mit.edu	37	chr10	1053023	1053023	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggaaataaagtgaatgaggtGctgaatagactgcacctggc	13	6	0	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:1053023G>T	uc001ift.2	+	10	1139	c.1068G>T	c.(1066-1068)GTG>GTT	p.V356V	GTPBP4_uc010qac.1_Silent_p.V147V|GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Silent_p.V240V|GTPBP4_uc010qae.1_Silent_p.V309V	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	356					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		TGAATGAGGTGCTGAATAGAC	0.502													17	53	---	---	---	---	PASS	T	1053023	T	T	1053023	2	4	10	1	0	0	0	0	0	0	0	1	6882	1306	46	3		3	GTPBP4	10	1053023	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08		1053023	134481724	303	6339										
C10orf140	387640	broad.mit.edu	37	chr10	21805197	21805197	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccagctctgcagattccactCcgccggcgactccgctttga	9	17	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:21805197C>G	uc009xkd.2	-	4	3808	c.1555G>C	c.(1555-1557)GAG>CAG	p.E519Q	uc001iqp.1_RNA	NM_207371	NP_997254	Q1XH10	DLN1_HUMAN	hypothetical protein LOC387640	438						nucleus	nucleotide binding			ovary(1)	1						AGATTCCACTCCGCCGGCGAC	0.612													14	15	---	---	---	---	PASS	G	21805197	G	G	21805197	3	3	10	1	0	0	0	0	1	0	0	0	1595	864	30	2	1175	2	C10orf140	10	21805197	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	20752174	21805197	113729550	304	6340										
THNSL1	79896	broad.mit.edu	37	chr10	25312955	25312955	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgatggtggcctctttgttcCtgcaaaggagtttccaaaat	10	8	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:25312955C>A	uc001isi.3	+	3	1132	c.803C>A	c.(802-804)CCT>CAT	p.P268H	ENKUR_uc001ish.1_Intron	NM_024838	NP_079114	Q8IYQ7	THNS1_HUMAN	threonine synthase-like 1	268					threonine biosynthetic process		ATP binding|pyridoxal phosphate binding|shikimate kinase activity|threonine synthase activity			pancreas(1)	1					L-Threonine(DB00156)|Pyridoxal Phosphate(DB00114)	CTCTTTGTTCCTGCAAAGGAG	0.448													5	43	---	---	---	---	PASS	A	25312955	A	A	25312955	3	1	10	1	0	0	0	0	1	0	0	0	15859	681	24	3	805	3	THNSL1	10	25312955	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	3507758	25312955	110221792	305	6341										
ZNF239	8187	broad.mit.edu	37	chr10	44053470	44053470	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atctagttcaggctccccatCcacttcccctcgatgattca	5	16	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:44053470C>A	uc001jaw.3	-	2	711	c.58G>T	c.(58-60)GAT>TAT	p.D20Y	ZNF239_uc001jax.3_Missense_Mutation_p.D20Y|ZNF239_uc009xmj.2_Missense_Mutation_p.D20Y|ZNF239_uc009xmk.2_Missense_Mutation_p.D20Y	NM_005674	NP_005665	Q16600	ZN239_HUMAN	zinc finger protein 239	20					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|RNA binding|zinc ion binding				0						GGCTCCCCATCCACTTCCCCT	0.468													10	18	---	---	---	---	PASS	A	44053470	A	A	44053470	3	1	10	1	0	0	0	0	1	0	0	0	17788	855	30	2	1322	2	ZNF239	10	44053470	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	18740515	44053470	91481277	306	6342										
OR13A1	79290	broad.mit.edu	37	chr10	45799862	45799862	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atcaggtgactctccatccaCagcttcatgtgatttcagag	8	11	4	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:45799862C>A	uc001jcc.1	-	4	318	c.9G>T	c.(7-9)CTG>CTT	p.L3L	OR13A1_uc001jcd.1_5'UTR	NM_001004297	NP_001004297	Q8NGR1	O13A1_HUMAN	olfactory receptor, family 13, subfamily A,	3	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCTCCATCCACAGCTTCATGT	0.502													12	41	---	---	---	---	PASS	A	45799862	A	A	45799862	2	1	10	1	0	0	0	0	0	0	0	1	10933	465	17	3		3	OR13A1	10	45799862	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	1746392	45799862	89734885	307	6343										
PCDH15	65217	broad.mit.edu	37	chr10	55616991	55616991	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggaggcacattggaaacaatGacttgcatatccagctgatt	10	8	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:55616991G>A	uc001jju.1	-	28	4145	c.3750C>T	c.(3748-3750)GTC>GTT	p.V1250V	PCDH15_uc010qhq.1_Silent_p.V1255V|PCDH15_uc010qhr.1_Silent_p.V1250V|PCDH15_uc010qhs.1_Silent_p.V1262V|PCDH15_uc010qht.1_Silent_p.V1257V|PCDH15_uc010qhu.1_Silent_p.V1250V|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.V1250V|PCDH15_uc010qhw.1_Silent_p.V1213V|PCDH15_uc010qhx.1_Silent_p.V1179V|PCDH15_uc010qhy.1_Silent_p.V1255V|PCDH15_uc010qhz.1_Silent_p.V1250V|PCDH15_uc010qia.1_Silent_p.V1228V|PCDH15_uc010qib.1_Silent_p.V1228V	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1250	Cadherin 11.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TGGAAACAATGACTTGCATAT	0.328										HNSCC(58;0.16)			14	65	---	---	---	---	PASS	A	55616991	A	A	55616991	2	1	10	1	0	0	0	0	0	0	0	1	11511	1277	45	2		2	PCDH15	10	55616991	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	9817129	55616991	79917756	308	6344										
FAM13C	220965	broad.mit.edu	37	chr10	61029736	61029736	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctctggctttggctgaagatGgagcatcgtggcgacagcag	15	9	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:61029736G>T	uc001jkn.2	-	8	860	c.726C>A	c.(724-726)TCC>TCA	p.S242S	FAM13C_uc001jko.2_Silent_p.S242S|FAM13C_uc010qid.1_Silent_p.S159S|FAM13C_uc010qie.1_Silent_p.S159S|FAM13C_uc010qif.1_Silent_p.S264S|FAM13C_uc001jkp.2_Silent_p.S159S	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	242										ovary(2)	2						GGCTGAAGATGGAGCATCGTG	0.522													4	27	---	---	---	---	PASS	T	61029736	T	T	61029736	2	4	10	1	0	0	0	0	0	0	0	1	5454	1335	47	3		3	FAM13C	10	61029736	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	5412745	61029736	74505011	309	6345										
HERC4	26091	broad.mit.edu	37	chr10	69804216	69804216	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gccaagctgtccatcagaatCgagaccccaagcatacacct	7	15	1	2	rs148764489		TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:69804216C>G	uc001jng.3	-	4	642	c.331G>C	c.(331-333)GAT>CAT	p.D111H	HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Missense_Mutation_p.D111H|HERC4_uc009xpr.2_Missense_Mutation_p.D111H|HERC4_uc001jni.3_Intron|HERC4_uc001jnj.2_Missense_Mutation_p.D111H	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	111	RCC1 3.				cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						CCATCAGAATCGAGACCCCAA	0.458													8	44	---	---	---	---	PASS	G	69804216	G	G	69804216	3	3	10	1	0	0	0	0	1	0	0	0	7060	884	31	2	2934	2	HERC4	10	69804216	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	8774480	69804216	65730531	310	6346										
TACR2	6865	broad.mit.edu	37	chr10	71175996	71175996	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agtgccagttgccagctgggCatggagaaggctgtgatgcc	16	9	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:71175996C>A	uc001jpn.2	-	1	679	c.84G>T	c.(82-84)ATG>ATT	p.M28I		NM_001057	NP_001048	P21452	NK2R_HUMAN	tachykinin receptor 2	28	Extracellular (Potential).				excretion|muscle contraction	integral to plasma membrane	tachykinin receptor activity			prostate(1)	1					Clonidine(DB00575)|Octreotide(DB00104)	GCCAGCTGGGCATGGAGAAGG	0.597													14	34	---	---	---	---	PASS	A	71175996	A	A	71175996	3	1	10	1	0	0	0	0	1	0	0	0	15503	710	25	3	1132	3	TACR2	10	71175996	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1371780	71175996	64358751	311	6347										
SGPL1	8879	broad.mit.edu	37	chr10	72604314	72604314	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atggacattgcaccaagtatGagccctggcagctaattgca	10	10	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:72604314G>C	uc001jrm.2	+	3	334	c.112G>C	c.(112-114)GAG>CAG	p.E38Q		NM_003901	NP_003892	O95470	SGPL1_HUMAN	sphingosine-1-phosphate lyase 1	38	Lumenal (Potential).				apoptosis|carboxylic acid metabolic process|ceramide metabolic process|sphingolipid catabolic process	integral to endoplasmic reticulum membrane	carboxy-lyase activity|pyridoxal phosphate binding|sphinganine-1-phosphate aldolase activity				0					Pyridoxal Phosphate(DB00114)	CACCAAGTATGAGCCCTGGCA	0.448													11	22	---	---	---	---	PASS	C	72604314	C	C	72604314	3	2	10	1	0	0	0	0	1	0	0	0	14218	1291	45	2	118	2	SGPL1	10	72604314	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1428318	72604314	62930433	312	6348										
SFTPA2	729238	broad.mit.edu	37	chr10	81317816	81317816	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gggtccccttacctccccttGtctgcaggatttgatgtctg	10	13	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:81317816G>T	uc001kal.3	-	5	459	c.362C>A	c.(361-363)ACA>AAA	p.T121K	SFTPA2_uc001kan.3_Missense_Mutation_p.T121K	NM_006926	NP_008857	Q8IWL1	SFPA2_HUMAN	RecName: Full=Pulmonary surfactant-associated protein A2;          Short=SP-A2;          Short=SP-A;          Short=PSP-A;          Short=PSPA; AltName: Full=Alveolar proteinosis protein; AltName: Full=35 kDa pulmonary surfactant-associated protein; Flags: Precursor;	121					cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			ACCTCCCCTTGTCTGCAGGAT	0.547									Pulmonary_Fibrosis_Idiopathic				13	104	---	---	---	---	PASS	T	81317816	T	T	81317816	3	4	10	1	0	0	0	0	1	0	0	0	14190	1377	48	3	392	3	SFTPA2	10	81317816	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	8713502	81317816	54216931	313	6349										
LRIT1	26103	broad.mit.edu	37	chr10	85992387	85992387	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gggtccagtggccaggacagCgggtttgggaatctggggga	20	7	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:85992387C>T	uc001kcz.1	-	4	1190	c.1168G>A	c.(1168-1170)GCT>ACT	p.A390T		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	390	Lumenal (Potential).					integral to endoplasmic reticulum membrane					0						GCCAGGACAGCGGGTTTGGGA	0.622													7	4	---	---	---	---	PASS	T	85992387	T	T	85992387	3	4	10	1	0	0	0	0	1	0	0	0	8947	768	27	1	707	1	LRIT1	10	85992387	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	4674571	85992387	49542360	314	6350										
PLCE1	51196	broad.mit.edu	37	chr10	96005734	96005734	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gagatttgttggattcagacAatgacatctttgagcaatcc	9	7	2	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:96005734A>G	uc001kjk.2	+	8	3086	c.2452A>G	c.(2452-2454)AAT>GAT	p.N818D	PLCE1_uc010qnx.1_Missense_Mutation_p.N818D|PLCE1_uc001kjm.2_Missense_Mutation_p.N510D	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	818					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GGATTCAGACAATGACATCTT	0.413													23	37	---	---	---	---	PASS	G	96005734	G	G	96005734	3	3	10	1	0	0	0	0	1	0	0	0	12034	130	5	5	2764	5	PLCE1	10	96005734	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	10013347	96005734	39529013	315	6351										
CYP2C19	1557	broad.mit.edu	37	chr10	96609752	96609752	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	acccagagatgtttgaccctCgtcactttctggatgaaggt	10	10	2	3	rs17879685	byFrequency	TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:96609752C>T	uc010qnz.1	+	8	1228	c.1228C>T	c.(1228-1230)CGT>TGT	p.R410C	CYP2C19_uc010qny.1_Missense_Mutation_p.R388C	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	410					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	GTTTGACCCTCGTCACTTTCT	0.393													28	101	---	---	---	---	PASS	T	96609752	T	T	96609752	3	4	10	1	0	0	0	0	1	0	0	0	4166	884	31	2	1258	2	CYP2C19	10	96609752	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	604018	96609752	38924995	316	6352										
TCTN3	26123	broad.mit.edu	37	chr10	97440243	97440243	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	acttacctgtatagactggcActggtataggaatcgaactc	9	9	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:97440243A>T	uc001klb.3	-	13	1820	c.1576T>A	c.(1576-1578)TGC>AGC	p.C526S	TCTN3_uc001kla.3_Missense_Mutation_p.C370S|TCTN3_uc010qoi.1_Missense_Mutation_p.C378S	NM_015631	NP_056446	Q6NUS6	TECT3_HUMAN	tectonic 3 isoform a precursor	526	Extracellular (Potential).				apoptosis	integral to membrane					0		Colorectal(252;0.0815)		Epithelial(162;1.69e-07)|all cancers(201;5.63e-06)		ATAGACTGGCACTGGTATAGG	0.423													48	143	---	---	---	---	PASS	T	97440243	T	T	97440243	3	4	10	1	0	0	0	0	1	0	0	0	15721	159	6	5	255	5	TCTN3	10	97440243	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	830491	97440243	38094504	317	6353										
ABCC2	1244	broad.mit.edu	37	chr10	101603605	101603605	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gatgacatcagaaatagagaCcaacattgtggctgttgagc	11	7	1	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:101603605C>T	uc001kqf.2	+	27	3930	c.3791C>T	c.(3790-3792)ACC>ATC	p.T1264I		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	1264	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GAAATAGAGACCAACATTGTG	0.418													112	199	---	---	---	---	PASS	T	101603605	T	T	101603605	3	4	10	1	0	0	0	0	1	0	0	0	53	507	18	3	3897	3	ABCC2	10	101603605	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	4163362	101603605	33931142	318	6354										
FAM178A	55719	broad.mit.edu	37	chr10	102676494	102676494	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttatagaagctttcatgaaaGgtgttaaagagcaccatgaa	9	5	1	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:102676494G>T	uc001krt.3	+	3	894	c.352G>T	c.(352-354)GGT>TGT	p.G118C	FAM178A_uc001krr.1_Missense_Mutation_p.G118C|FAM178A_uc001krs.2_Missense_Mutation_p.G118C|FAM178A_uc001kru.1_Missense_Mutation_p.G54C	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	118											0						TTTCATGAAAGGTGTTAAAGA	0.413													5	52	---	---	---	---	PASS	T	102676494	T	T	102676494	3	4	10	1	0	0	0	0	1	0	0	0	5503	1000	35	3	362	3	FAM178A	10	102676494	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1072889	102676494	32858253	319	6355										
CCDC147	159686	broad.mit.edu	37	chr10	106160462	106160462	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcagtgagagagatatcctgGggtctcagcttgttcggcgc	14	9	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:106160462G>C	uc001kyh.2	+	13	1974	c.1840G>C	c.(1840-1842)GGG>CGG	p.G614R		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	614										ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		AGATATCCTGGGGTCTCAGCT	0.478													22	39	---	---	---	---	PASS	C	106160462	C	C	106160462	3	2	10	1	0	0	0	0	1	0	0	0	2781	1232	43	4	1890	4	CCDC147	10	106160462	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	3483968	106160462	29374285	320	6356										
PNLIP	5406	broad.mit.edu	37	chr10	118315626	118315626	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgcctcttacaacgtcttcaCtgcagtaagtagactccacc	6	14	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:118315626C>A	uc001lcm.2	+	9	969	c.926C>A	c.(925-927)ACT>AAT	p.T309N		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	309					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	AACGTCTTCACTGCAGTAAGT	0.428													20	64	---	---	---	---	PASS	A	118315626	A	A	118315626	3	1	10	1	0	0	0	0	1	0	0	0	12149	565	20	3	956	3	PNLIP	10	118315626	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	12155164	118315626	17219121	321	6357										
PDZD8	118987	broad.mit.edu	37	chr10	119043185	119043185	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agcccctgtacagatcacgaCcaatttctttaactgcaatg	6	12	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:119043185C>A	uc001lde.1	-	5	3258	c.3059G>T	c.(3058-3060)GGT>GTT	p.G1020V		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	1020					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		CAGATCACGACCAATTTCTTT	0.428													25	69	---	---	---	---	PASS	A	119043185	A	A	119043185	3	1	10	1	0	0	0	0	1	0	0	0	11705	507	18	3	409	3	PDZD8	10	119043185	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	727559	119043185	16491562	322	6358										
FAM24A	118670	broad.mit.edu	37	chr10	124671179	124671179	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gatgtttgatctcaggacgaAgatcatgatcggcatcggaa	12	7	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:124671179A>G	uc001lgv.2	+	2	150	c.29A>G	c.(28-30)AAG>AGG	p.K10R		NM_001029888	NP_001025059	A6NFZ4	FA24A_HUMAN	family with sequence similarity 24, member A	10						extracellular region				ovary(2)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.124)|COAD - Colon adenocarcinoma(40;0.141)		CTCAGGACGAAGATCATGATC	0.488													42	117	---	---	---	---	PASS	G	124671179	G	G	124671179	3	3	10	1	0	0	0	0	1	0	0	0	5547	72	3	5	31	5	FAM24A	10	124671179	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	5627994	124671179	10863568	323	6359										
BCCIP	56647	broad.mit.edu	37	chr10	127529887	127529887	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaggattggaaccagttccgAtacagcacaatggttggtct	12	8	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:127529887A>G	uc001ljd.3	+	7	861	c.838A>G	c.(838-840)ATA>GTA	p.I280V	DHX32_uc001lje.1_Intron|DHX32_uc001ljf.1_Intron|DHX32_uc001ljg.1_Intron|BCCIP_uc010qui.1_Missense_Mutation_p.I278V|BCCIP_uc001ljc.3_Missense_Mutation_p.I280V|BCCIP_uc010quj.1_Missense_Mutation_p.I250V	NM_016567	NP_057651	Q9P287	BCCIP_HUMAN	BRCA2 and CDKN1A-interacting protein isoform	Error:Variant_position_missing_in_Q9P287_after_alignment					cell cycle|DNA repair|neuroendocrine cell differentiation|regulation of cyclin-dependent protein kinase activity	nuclear cyclin-dependent protein kinase holoenzyme complex	kinase regulator activity|protein binding			ovary(1)|breast(1)	2		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				ACCAGTTCCGATACAGCACAA	0.428													7	27	---	---	---	---	PASS	G	127529887	G	G	127529887	3	3	10	1	0	0	0	0	1	0	0	0	1356	333	12	5	1039	5	BCCIP	10	127529887	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	2858708	127529887	8004860	324	6360										
MKI67	4288	broad.mit.edu	37	chr10	129907439	129907439	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttcttcactcttactttccaCaggtagcttctgtatattcc	4	12	4	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:129907439C>T	uc001lke.2	-	13	2860	c.2665G>A	c.(2665-2667)GTG>ATG	p.V889M	MKI67_uc001lkf.2_Missense_Mutation_p.V529M|MKI67_uc009yav.1_Missense_Mutation_p.V464M|MKI67_uc009yaw.1_Missense_Mutation_p.V39M	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	889					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TTACTTTCCACAGGTAGCTTC	0.403													19	73	---	---	---	---	PASS	T	129907439	T	T	129907439	3	4	10	1	0	0	0	0	1	0	0	0	9598	478	17	3	7117	3	MKI67	10	129907439	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	2377552	129907439	5627308	325	6361										
TUBGCP2	10844	broad.mit.edu	37	chr10	135106682	135106682	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tccttcaccagggtgcgcatGgcggccgccagggcgtggtt	16	13	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr10:135106682G>T	uc001lmg.1	-	7	1242	c.885C>A	c.(883-885)GCC>GCA	p.A295A	TUBGCP2_uc001lmf.1_5'Flank|TUBGCP2_uc010qvc.1_Silent_p.A323A|TUBGCP2_uc009ybk.1_Silent_p.A295A|TUBGCP2_uc010qvd.1_Silent_p.A165A|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	295					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		GGGTGCGCATGGCGGCCGCCA	0.567													4	14	---	---	---	---	PASS	T	135106682	T	T	135106682	2	4	10	1	0	0	0	0	0	0	0	1	16763	1335	47	3		3	TUBGCP2	10	135106682	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	5199243	135106682	428065	326	6362										
OR51T1	401665	broad.mit.edu	37	chr11	4904106	4904106	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaggggtcttaggggaagatGggattgaaggtaggaaattg	19	1	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:4904106G>T	uc010qyp.1	+	1	1058	c.1058G>T	c.(1057-1059)TGG>TTG	p.W353L		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	326	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGGGGAAGATGGGATTGAAGG	0.463													10	9	---	---	---	---	PASS	T	4904106	T	T	4904106	3	4	10	1	0	0	0	0	1	0	0	0	11106	1357	47	3	1060	3	OR51T1	11	4904106	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08		4904106	130102410	327	6363										
OR51G2	81282	broad.mit.edu	37	chr11	4936671	4936671	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcaaagggagagacccaggtCaatcagagccagcatggaca	13	10	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:4936671C>A	uc001lzr.1	-	1	223	c.223G>T	c.(223-225)GAC>TAC	p.D75Y		NM_001005238	NP_001005238	Q8NGK0	O51G2_HUMAN	olfactory receptor, family 51, subfamily G,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGACCCAGGTCAATCAGAGCC	0.478													22	19	---	---	---	---	PASS	A	4936671	A	A	4936671	3	1	10	1	0	0	0	0	1	0	0	0	11099	826	29	2	725	2	OR51G2	11	4936671	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	32565	4936671	130069845	328	6364										
OR56A3	390083	broad.mit.edu	37	chr11	5969056	5969056	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	accagaaatgtgcttatgacTctgcccatccccatcctttc	5	15	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:5969056T>A	uc010qzt.1	+	1	480	c.480T>A	c.(478-480)ACT>ACA	p.T160T		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	160	Helical; Name=4; (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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGCTTATGACTCTGCCCATCC	0.448													24	33	---	---	---	---	PASS	A	5969056	A	A	5969056	2	1	10	1	0	0	0	0	0	0	0	1	11134	1538	54	5		5	OR56A3	11	5969056	Silent	SNP	T	TCGA-18-3416-01A-01D-0983-08	1032385	5969056	129037460	329	6365										
OR56B4	196335	broad.mit.edu	37	chr11	6129644	6129644	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctgatgctagcatgggtcttGgttgggagtgatatggctct	15	6	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:6129644G>T	uc010qzx.1	+	1	636	c.636G>T	c.(634-636)TTG>TTT	p.L212F		NM_001005181	NP_001005181	Q8NH76	O56B4_HUMAN	olfactory receptor, family 56, subfamily B,	212	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.31e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CATGGGTCTTGGTTGGGAGTG	0.473													7	105	---	---	---	---	PASS	T	6129644	T	T	6129644	3	4	10	1	0	0	0	0	1	0	0	0	11138	1339	47	3	638	3	OR56B4	11	6129644	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	160588	6129644	128876872	330	6366										
DCHS1	8642	broad.mit.edu	37	chr11	6651379	6651379	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctgggaggcgcacgcgtgacGgcgaggcgaagacaggcgcg	20	11	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:6651379G>A	uc001mem.1	-	10	5056	c.4646C>T	c.(4645-4647)CCG>CTG	p.P1549L		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1549	Cadherin 15.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CACGCGTGACGGCGAGGCGAA	0.716													4	5	---	---	---	---	PASS	A	6651379	A	A	6651379	3	1	10	1	0	0	0	0	1	0	0	0	4287	1116	39	1	5298	1	DCHS1	11	6651379	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	521735	6651379	128355137	331	6367										
C11orf41	25758	broad.mit.edu	37	chr11	33689492	33689492	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctctccctccaggcttcctcGtcagtacagccagccagcca	7	19	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:33689492G>A	uc001mup.3	+	20	5484	c.5360G>A	c.(5359-5361)CGT>CAT	p.R1787H		NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	1781						integral to membrane				ovary(2)	2						AGGCTTCCTCGTCAGTACAGC	0.682													11	21	---	---	---	---	PASS	A	33689492	A	A	33689492	3	1	10	1	0	0	0	0	1	0	0	0	1640	1145	40	1	5438	1	C11orf41	11	33689492	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	27038113	33689492	101317024	332	6368										
NUP160	23279	broad.mit.edu	37	chr11	47843340	47843340	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atgccacagggcccagatatCcgtggaagttaaggcaaagt	12	9	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:47843340C>A	uc001ngm.2	-	9	1298	c.1213G>T	c.(1213-1215)GAT>TAT	p.D405Y	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	405					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						GCCCAGATATCCGTGGAAGTT	0.418													7	44	---	---	---	---	PASS	A	47843340	A	A	47843340	3	1	10	1	0	0	0	0	1	0	0	0	10757	855	30	2	3209	2	NUP160	11	47843340	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	14153848	47843340	87163176	333	6369										
PTPRJ	5795	broad.mit.edu	37	chr11	48146592	48146592	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgatgagtccctcgtgggacCtgtggacccatcctccggcc	12	15	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:48146592C>T	uc001ngp.3	+	6	1302	c.947C>T	c.(946-948)CCT>CTT	p.P316L	PTPRJ_uc001ngo.3_Missense_Mutation_p.P316L	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	316	Extracellular (Potential).|Fibronectin type-III 3.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						CTCGTGGGACCTGTGGACCCA	0.587													21	43	---	---	---	---	PASS	T	48146592	T	T	48146592	3	4	10	1	0	0	0	0	1	0	0	0	12804	681	24	3	969	3	PTPRJ	11	48146592	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	303252	48146592	86859924	334	6370										
OR4X1	390113	broad.mit.edu	37	chr11	48285947	48285947	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggaccactacttctgtgatGtccacccagtgctggagctg	11	12	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:48285947G>A	uc010rht.1	+	1	535	c.535G>A	c.(535-537)GTC>ATC	p.V179I		NM_001004726	NP_001004726	Q8NH49	OR4X1_HUMAN	olfactory receptor, family 4, subfamily X,	179	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3						CTTCTGTGATGTCCACCCAGT	0.562													14	16	---	---	---	---	PASS	A	48285947	A	A	48285947	3	1	10	1	0	0	0	0	1	0	0	0	11084	1377	48	3	537	3	OR4X1	11	48285947	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	139355	48285947	86720569	335	6371										
OR4A15	81328	broad.mit.edu	37	chr11	55135842	55135842	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgtaagcctcttcatgaattGatcaccatgaatcgtcgagt	8	9	3	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:55135842G>A	uc010rif.1	+	1	483	c.483G>A	c.(481-483)TTG>TTA	p.L161L		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	161	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTCATGAATTGATCACCATGA	0.418													47	131	---	---	---	---	PASS	A	55135842	A	A	55135842	2	1	10	1	0	0	0	0	0	0	0	1	11040	1281	45	2		2	OR4A15	11	55135842	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	6849895	55135842	79870674	336	6372										
OR4S2	219431	broad.mit.edu	37	chr11	55418457	55418457	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gagattgagaaagtttgtttTgtggtgttttctttcttcta	10	3	3	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:55418457T>G	uc001nhs.1	+	1	78	c.78T>G	c.(76-78)TTT>TTG	p.F26L		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	26	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				AAGTTTGTTTTGTGGTGTTTT	0.388													7	50	---	---	---	---	PASS	G	55418457	G	G	55418457	3	3	10	1	0	0	0	0	1	0	0	0	11083	1809	63	5	80	5	OR4S2	11	55418457	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	282615	55418457	79588059	337	6373										
OR5D13	390142	broad.mit.edu	37	chr11	55541730	55541730	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctaaaacttctagcctcataGttacagtggcttctgtgttt	7	9	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:55541730G>A	uc010ril.1	+	1	817	c.817G>A	c.(817-819)GTT>ATT	p.V273I		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	273	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				TAGCCTCATAGTTACAGTGGC	0.408													22	48	---	---	---	---	PASS	A	55541730	A	A	55541730	3	1	10	1	0	0	0	0	1	0	0	0	11154	1029	36	3	819	3	OR5D13	11	55541730	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	123273	55541730	79464786	338	6374										
OR8H3	390152	broad.mit.edu	37	chr11	55890051	55890051	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttttttccttactcacctgtCatttattgacctcagttact	3	11	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:55890051C>A	uc001nii.1	+	1	203	c.203C>A	c.(202-204)TCA>TAA	p.S68*		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					ACTCACCTGTCATTTATTGAC	0.438													8	255	---	---	---	---	PASS	A	55890051	A	A	55890051	4	1	10	1	0	0	0	0	0	1	0	0	11239	838	29	2	205	2	OR8H3	11	55890051	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	348321	55890051	79116465	339	6375										
LRRC55	219527	broad.mit.edu	37	chr11	56954786	56954786	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccgctcttctcactcactgaGgagagcttcaaggcctgcca	9	15	4	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:56954786G>T	uc001njl.1	+	2	1005	c.858G>T	c.(856-858)GAG>GAT	p.E286D	LRRC55_uc001njm.1_5'Flank	NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	256	LRRCT.					integral to membrane					0						CACTCACTGAGGAGAGCTTCA	0.587													11	47	---	---	---	---	PASS	T	56954786	T	T	56954786	3	4	10	1	0	0	0	0	1	0	0	0	9011	991	35	3	864	3	LRRC55	11	56954786	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1064735	56954786	78051730	340	6376										
P2RX3	5024	broad.mit.edu	37	chr11	57135888	57135888	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	caccatcatcagctctgtggCggcctttacttctgtgggag	11	12	4	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:57135888C>A	uc001nju.2	+	10	1056	c.980C>A	c.(979-981)GCG>GAG	p.A327E		NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3	327	Helical; Name=2; (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						AGCTCTGTGGCGGCCTTTACT	0.622													18	78	---	---	---	---	PASS	A	57135888	A	A	57135888	3	1	10	1	0	0	0	0	1	0	0	0	11341	768	27	1	1018	1	P2RX3	11	57135888	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	181102	57135888	77870628	341	6377										
CPSF7	79869	broad.mit.edu	37	chr11	61183967	61183967	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagcagaatcactagaatctCgggaatgggcccgtggaggt	14	9	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:61183967C>A	uc001nrq.2	-	6	709	c.575G>T	c.(574-576)CGA>CTA	p.R192L	CPSF7_uc001nro.2_Missense_Mutation_p.R183L|CPSF7_uc001nrp.2_Missense_Mutation_p.R235L|CPSF7_uc001nrr.2_Missense_Mutation_p.R183L|CPSF7_uc001nrs.1_Missense_Mutation_p.R93L	NM_001136040	NP_001129512	Q8N684	CPSF7_HUMAN	pre-mRNA cleavage factor I, 59 kDa subunit	192					mRNA 3'-end processing|nuclear mRNA splicing, via spliceosome|protein tetramerization|termination of RNA polymerase II transcription	mRNA cleavage factor complex	nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						ACTAGAATCTCGGGAATGGGC	0.522													5	87	---	---	---	---	PASS	A	61183967	A	A	61183967	3	1	10	1	0	0	0	0	1	0	0	0	3830	884	31	2	856	2	CPSF7	11	61183967	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	4048079	61183967	73822549	342	6378										
SYT7	9066	broad.mit.edu	37	chr11	61323677	61323677	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	caggacgtcgcgcgagggcgCccctggggaggacaggtaca	18	12	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:61323677C>G	uc001nrv.2	-	2	40	c.34G>C	c.(34-36)GCG>CCG	p.A12P	SYT7_uc009ynr.2_Missense_Mutation_p.A12P|SYT7_uc001nrx.1_RNA	NM_004200	NP_004191	O43581	SYT7_HUMAN	synaptotagmin VII	12	Vesicular (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|pancreas(1)	4						CGCGAGGGCGCCCCTGGGGAG	0.652													4	9	---	---	---	---	PASS	G	61323677	G	G	61323677	3	3	10	1	0	0	0	0	1	0	0	0	15476	739	26	4	1209	4	SYT7	11	61323677	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	139710	61323677	73682839	343	6379										
FLRT1	23769	broad.mit.edu	37	chr11	63885079	63885079	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	catccacgtgaaggccctgaCggcagactccatccgcatca	9	16	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:63885079C>T	uc001nyi.1	+	2	1681	c.1340C>T	c.(1339-1341)ACG>ATG	p.T447M	MACROD1_uc001nyh.2_Intron	NM_013280	NP_037412	Q9NZU1	FLRT1_HUMAN	fibronectin leucine rich transmembrane protein	419	Fibronectin type-III.|Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity				0						AAGGCCCTGACGGCAGACTCC	0.672													5	9	---	---	---	---	PASS	T	63885079	T	T	63885079	3	4	10	1	0	0	0	0	1	0	0	0	5938	536	19	1	1342	1	FLRT1	11	63885079	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	2561402	63885079	71121437	344	6380										
PLCB3	5331	broad.mit.edu	37	chr11	64027528	64027528	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagctctgacagctgcccagGcctgagcaatggggaggagg	16	11	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:64027528G>T	uc001nzb.2	+	14	1553	c.1553G>T	c.(1552-1554)GGC>GTC	p.G518V	PLCB3_uc009ypg.1_Missense_Mutation_p.G518V|PLCB3_uc009yph.1_Missense_Mutation_p.G451V|PLCB3_uc009ypi.2_Missense_Mutation_p.G518V	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	518					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						AGCTGCCCAGGCCTGAGCAAT	0.617													8	5	---	---	---	---	PASS	T	64027528	T	T	64027528	3	4	10	1	0	0	0	0	1	0	0	0	12029	1203	42	3	1607	3	PLCB3	11	64027528	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	142449	64027528	70978988	345	6381										
PPFIA1	8500	broad.mit.edu	37	chr11	70170596	70170596	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgctgaactgaaagcagaaaGgaataacaccagggtgagtg	13	6	0	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:70170596G>T	uc001opo.2	+	3	551	c.353G>T	c.(352-354)AGG>ATG	p.R118M	PPFIA1_uc001opn.1_Missense_Mutation_p.R118M|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_5'Flank	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	118	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			AAAGCAGAAAGGAATAACACC	0.493													16	686	---	---	---	---	PASS	T	70170596	T	T	70170596	3	4	10	1	0	0	0	0	1	0	0	0	12309	1000	35	3	359	3	PPFIA1	11	70170596	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	6143068	70170596	64835920	346	6382										
PPFIA1	8500	broad.mit.edu	37	chr11	70172786	70172786	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atcataagtaagcagtcaagGgaacagagccaaatgaaaga	10	6	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:70172786G>T	uc001opo.2	+	7	990	c.792G>T	c.(790-792)AGG>AGT	p.R264S	PPFIA1_uc001opn.1_Missense_Mutation_p.R264S|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	264	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			AGCAGTCAAGGGAACAGAGCC	0.438													17	897	---	---	---	---	PASS	T	70172786	T	T	70172786	3	4	10	1	0	0	0	0	1	0	0	0	12309	1223	43	3	814	3	PPFIA1	11	70172786	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	2190	70172786	64833730	347	6383										
P4HA3	283208	broad.mit.edu	37	chr11	73978304	73978304	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gccaacagttcagtcttcagGgctggagctgcagggtctgc	14	11	4	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:73978304G>T	uc001ouz.2	-	13	1667	c.1624C>A	c.(1624-1626)CCT>ACT	p.P542T	P4HA3_uc001ouy.3_RNA|P4HA3_uc010rrj.1_Silent_p.A539A	NM_182904	NP_878907	Q7Z4N8	P4HA3_HUMAN	prolyl 4-hydroxylase, alpha III subunit	542						endoplasmic reticulum lumen	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			skin(1)	1	Breast(11;2.31e-05)					CAGTCTTCAGGGCTGGAGCTG	0.557													9	13	---	---	---	---	PASS	T	73978304	T	T	73978304	3	4	10	1	0	0	0	0	1	0	0	0	11358	1232	43	3	14	3	P4HA3	11	73978304	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	3805518	73978304	61028212	348	6384										
C11orf30	56946	broad.mit.edu	37	chr11	76207466	76207466	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcaacagcctcagcagtctcCtttgccacctggtattaaac	7	14	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:76207466C>A	uc001oxl.2	+	9	1459	c.1316C>A	c.(1315-1317)CCT>CAT	p.P439H	C11orf30_uc009yuj.1_Missense_Mutation_p.P454H|C11orf30_uc010rsa.1_Missense_Mutation_p.P389H|C11orf30_uc001oxm.2_Intron|C11orf30_uc010rsb.1_Missense_Mutation_p.P454H|C11orf30_uc010rsc.1_Missense_Mutation_p.P454H|C11orf30_uc001oxn.2_Missense_Mutation_p.P440H|C11orf30_uc010rsd.1_Missense_Mutation_p.P453H	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	439	Interaction with BRCA2.|Gln-rich.				chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						CAGCAGTCTCCTTTGCCACCT	0.428													6	72	---	---	---	---	PASS	A	76207466	A	A	76207466	3	1	10	1	0	0	0	0	1	0	0	0	1636	681	24	3	1346	3	C11orf30	11	76207466	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	2229162	76207466	58799050	349	6385										
INTS4	92105	broad.mit.edu	37	chr11	77705659	77705659	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aaccactttcgtgaattcctCataaacccgcttcttaaggt	5	12	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:77705659C>A	uc001oys.2	-	1	59	c.31G>T	c.(31-33)GAG>TAG	p.E11*	INTS4_uc001oyt.2_RNA|INTS4_uc001oyu.1_Nonsense_Mutation_p.E11*|INTS4_uc001oyv.1_RNA	NM_033547	NP_291025	Q96HW7	INT4_HUMAN	integrator complex subunit 4	11					snRNA processing	integrator complex	protein binding			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			GTGAATTCCTCATAAACCCGC	0.572													4	23	---	---	---	---	PASS	A	77705659	A	A	77705659	4	1	10	1	0	0	0	0	0	1	0	0	7780	835	29	2	2952	2	INTS4	11	77705659	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1498193	77705659	57300857	350	6386										
SLC36A4	120103	broad.mit.edu	37	chr11	92881960	92881960	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgtgctgctgctcacagctcCaacgaaggaaatcacaatgt	9	11	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:92881960C>A	uc001pdn.2	-	11	1355	c.1258G>T	c.(1258-1260)GGA>TGA	p.G420*	uc001pdl.1_5'Flank|SLC36A4_uc001pdm.2_Nonsense_Mutation_p.G285*	NM_152313	NP_689526	Q6YBV0	S36A4_HUMAN	solute carrier family 36 (proton/amino acid	420	Helical; (Potential).				L-alanine transport|proline transport|tryptophan transport	integral to membrane	symporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CTCACAGCTCCAACGAAGGAA	0.353													5	58	---	---	---	---	PASS	A	92881960	A	A	92881960	4	1	10	1	0	0	0	0	0	1	0	0	14596	603	21	3	260	3	SLC36A4	11	92881960	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	15176301	92881960	42124556	351	6387										
KDM4D	55693	broad.mit.edu	37	chr11	94731244	94731244	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctcttcccaggcagttcccgGggttgtggggccttcctgcg	14	14	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:94731244G>C	uc001pfe.2	+	3	1540	c.708G>C	c.(706-708)CGG>CGC	p.R236R		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	236	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GCAGTTCCCGGGGTTGTGGGG	0.602													13	16	---	---	---	---	PASS	C	94731244	C	C	94731244	2	2	10	1	0	0	0	0	0	0	0	1	8131	1219	43	4		4	KDM4D	11	94731244	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	1849284	94731244	40275272	352	6388										
SESN3	143686	broad.mit.edu	37	chr11	94922999	94922999	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgctagcagcttattaatttCattaagatttttcagtcttt	5	6	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:94922999C>T	uc001pfk.1	-	4	691	c.469G>A	c.(469-471)GAA>AAA	p.E157K	SESN3_uc010rug.1_Intron|SESN3_uc001pfl.2_Missense_Mutation_p.E157K	NM_144665	NP_653266	P58005	SESN3_HUMAN	sestrin 3	157					cell cycle arrest	nucleus					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.234)		TTATTAATTTCATTAAGATTT	0.353													11	21	---	---	---	---	PASS	T	94922999	T	T	94922999	3	4	10	1	0	0	0	0	1	0	0	0	14126	835	29	2	1037	2	SESN3	11	94922999	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	191755	94922999	40083517	353	6389										
KIAA1377	57562	broad.mit.edu	37	chr11	101815132	101815132	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atgttcctctttcacagcggAggaaagcaggtgccttaatt	10	9	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:101815132A>T	uc001pgm.2	+	3	655	c.385A>T	c.(385-387)AGG>TGG	p.R129W	KIAA1377_uc001pgn.2_Missense_Mutation_p.R85W|KIAA1377_uc009yxa.1_5'UTR	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	129							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		TTCACAGCGGAGGAAAGCAGG	0.343													15	11	---	---	---	---	PASS	T	101815132	T	T	101815132	3	4	10	1	0	0	0	0	1	0	0	0	8227	295	11	5	395	5	KIAA1377	11	101815132	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	6892133	101815132	33191384	354	6390										
ATM	472	broad.mit.edu	37	chr11	108175517	108175517	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	acatgttcagggatttttcaCcagctgtcttcgacacttct	7	11	4	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:108175517C>T	uc001pkb.1	+	37	5997	c.5612C>T	c.(5611-5613)ACC>ATC	p.T1871I	ATM_uc009yxr.1_Missense_Mutation_p.T1871I|ATM_uc001pke.1_Missense_Mutation_p.T523I|ATM_uc001pkg.1_Missense_Mutation_p.T228I|ATM_uc009yxt.1_Silent_p.H14H	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1871					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		GGATTTTTCACCAGCTGTCTT	0.373			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			12	14	---	---	---	---	PASS	T	108175517	T	T	108175517	3	4	10	1	0	0	0	0	1	0	0	0	1109	507	18	3	5754	3	ATM	11	108175517	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	6360385	108175517	26830999	355	6391										
DSCAML1	57453	broad.mit.edu	37	chr11	117310040	117310040	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccagtgttggtggccgtgcaCgtgtagtagccagagtcctc	14	11	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:117310040C>G	uc001prh.1	-	23	4268	c.4266G>C	c.(4264-4266)ACG>ACC	p.T1422T		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1362	Extracellular (Potential).|Ig-like C2-type 10.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TGGCCGTGCACGTGTAGTAGC	0.597													10	30	---	---	---	---	PASS	G	117310040	G	G	117310040	2	3	10	1	0	0	0	0	0	0	0	1	4769	523	19	4		4	DSCAML1	11	117310040	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	9134523	117310040	17696476	356	6392										
HINFP	25988	broad.mit.edu	37	chr11	119001518	119001518	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcatccgccatgtctacttcCactgctaccacaccaagctg	5	17	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:119001518C>A	uc001pvp.2	+	4	454	c.265C>A	c.(265-267)CAC>AAC	p.H89N	HINFP_uc010rzb.1_Missense_Mutation_p.H89N|HINFP_uc001pvq.2_Missense_Mutation_p.H89N|HINFP_uc001pvr.2_5'Flank	NM_015517	NP_056332	Q9BQA5	HINFP_HUMAN	MBD2 (methyl-CpG-binding protein)-interacting	89					DNA damage checkpoint|DNA repair|establishment of protein localization|in utero embryonic development|myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	enzyme binding|histone binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						TGTCTACTTCCACTGCTACCA	0.542													5	56	---	---	---	---	PASS	A	119001518	A	A	119001518	3	1	10	1	0	0	0	0	1	0	0	0	7110	594	21	3	271	3	HINFP	11	119001518	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1691478	119001518	16004998	357	6393										
GRAMD1B	57476	broad.mit.edu	37	chr11	123464819	123464819	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cccacctacaagcagagaaaTgaagacttcagaaagctctt	7	11	2	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:123464819T>A	uc001pyx.2	+	4	614	c.285T>A	c.(283-285)AAT>AAA	p.N95K	GRAMD1B_uc001pyw.2_Missense_Mutation_p.N102K|GRAMD1B_uc010rzw.1_Missense_Mutation_p.N55K|GRAMD1B_uc010rzx.1_Missense_Mutation_p.N55K|GRAMD1B_uc009zbe.1_Missense_Mutation_p.N91K	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	95						integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		AGCAGAGAAATGAAGACTTCA	0.527													22	24	---	---	---	---	PASS	A	123464819	A	A	123464819	3	1	10	1	0	0	0	0	1	0	0	0	6748	1461	51	5	299	5	GRAMD1B	11	123464819	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	4463301	123464819	11541697	358	6394										
OR4D5	219875	broad.mit.edu	37	chr11	123810687	123810687	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgactgtcatggcgtatgacCgctacattgccatttcccag	9	12	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:123810687C>A	uc001pzk.1	+	1	364	c.364C>A	c.(364-366)CGC>AGC	p.R122S		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GGCGTATGACCGCTACATTGC	0.517													24	23	---	---	---	---	PASS	A	123810687	A	A	123810687	3	1	10	1	0	0	0	0	1	0	0	0	11057	652	23	1	366	1	OR4D5	11	123810687	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	345868	123810687	11195829	359	6395										
FAM118B	79607	broad.mit.edu	37	chr11	126126696	126126696	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gagatgactatgccgatcttCcagaatatttcaagcgactg	9	9	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr11:126126696C>A	uc001qdf.2	+	7	1114	c.931C>A	c.(931-933)CCA>ACA	p.P311T	FAM118B_uc009zca.2_Missense_Mutation_p.P315T|FAM118B_uc001qdg.2_Missense_Mutation_p.P311T	NM_024556	NP_078832	Q9BPY3	F118B_HUMAN	hypothetical protein LOC79607	311											0	all_hematologic(175;0.145)	Breast(109;0.00156)|Lung NSC(97;0.00948)|all_lung(97;0.0101)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0784)		TGCCGATCTTCCAGAATATTT	0.448													103	108	---	---	---	---	PASS	A	126126696	A	A	126126696	3	1	10	1	0	0	0	0	1	0	0	0	5412	855	30	2	949	2	FAM118B	11	126126696	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	2316009	126126696	8879820	360	6396										
RAD52	5893	broad.mit.edu	37	chr12	1039000	1039000	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctcaccttcagctggaccctCacaaatgcacagactcccac	5	18	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:1039000C>A	uc001qis.1	-	5	447	c.333G>T	c.(331-333)GTG>GTT	p.V111V	RAD52_uc001qit.1_RNA|RAD52_uc010sdt.1_Silent_p.V34V|RAD52_uc001qiu.1_Silent_p.V111V|RAD52_uc001qiv.1_RNA|RAD52_uc001qiw.1_Intron|RAD52_uc010sdu.1_Silent_p.V111V|RAD52_uc001qix.1_Silent_p.V111V	NM_134424	NP_602296	P43351	RAD52_HUMAN	RAD52 homolog	111					DNA recombinase assembly|mitotic recombination|reciprocal meiotic recombination	nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1	all_cancers(10;0.0119)|all_epithelial(11;0.0171)|all_lung(10;0.0521)|Ovarian(42;0.0816)|Lung NSC(10;0.0987)		OV - Ovarian serous cystadenocarcinoma(31;0.00123)|BRCA - Breast invasive adenocarcinoma(9;0.0323)			GCTGGACCCTCACAAATGCAC	0.542								Homologous_recombination					8	253	---	---	---	---	PASS	A	1039000	A	A	1039000	2	1	10	1	0	0	0	0	0	0	0	1	12991	813	29	2		2	RAD52	12	1039000	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08		1039000	132812895	361	6397										
DCP1B	196513	broad.mit.edu	37	chr12	2058392	2058392	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctggcctcccacaggcaagaGgccgctctccctttcctttg	9	17	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:2058392G>A	uc001qjx.1	-	8	1713	c.1633C>T	c.(1633-1635)CTC>TTC	p.L545F	DCP1B_uc010sdy.1_Missense_Mutation_p.L443F	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	545					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			ACAGGCAAGAGGCCGCTCTCC	0.647													6	15	---	---	---	---	PASS	A	2058392	A	A	2058392	3	1	10	1	0	0	0	0	1	0	0	0	4299	1000	35	3	228	3	DCP1B	12	2058392	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1019392	2058392	131793503	362	6398										
NANOG	79923	broad.mit.edu	37	chr12	7942325	7942325	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aagaaaactatccatccttgCaaatgtcttctgctgagatg	7	9	2	2	rs140243232	byFrequency	TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:7942325C>T	uc009zfy.1	+	1	331	c.115C>T	c.(115-117)CAA>TAA	p.Q39*		NM_024865	NP_079141	Q9H9S0	NANOG_HUMAN	Nanog homeobox	39					cell proliferation|embryo development|somatic stem cell maintenance	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				Kidney(36;0.0872)		TCCATCCTTGCAAATGTCTTC	0.453													19	114	---	---	---	---	PASS	T	7942325	T	T	7942325	4	4	10	1	0	0	0	0	0	1	0	0	10150	711	25	3	117	3	NANOG	12	7942325	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	5883933	7942325	125909570	363	6399										
SLC2A3	6515	broad.mit.edu	37	chr12	8082312	8082312	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agagagctgctgagagagctGgagcacaatggaaatgatga	15	5	0	5			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:8082312G>T	uc001qtr.2	-	6	1091	c.829C>A	c.(829-831)CAG>AAG	p.Q277K	SLC2A3_uc001qts.2_3'UTR	NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	277	Defines substrate specificity (By similarity).|Helical; Name=7; (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		TGAGAGAGCTGGAGCACAATG	0.413													4	28	---	---	---	---	PASS	T	8082312	T	T	8082312	3	4	10	1	0	0	0	0	1	0	0	0	14545	1357	47	3	681	3	SLC2A3	12	8082312	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	139987	8082312	125769583	364	6400										
DUSP16	80824	broad.mit.edu	37	chr12	12630882	12630882	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctggttcttaatcttcttctCatagtccaggagttggccca	8	11	4	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:12630882C>T	uc001rao.1	-	7	1515	c.883G>A	c.(883-885)GAG>AAG	p.E295K	DUSP16_uc001ram.1_5'Flank|DUSP16_uc001ran.1_Missense_Mutation_p.E147K	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	295					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		ATCTTCTTCTCATAGTCCAGG	0.438													26	99	---	---	---	---	PASS	T	12630882	T	T	12630882	3	4	10	1	0	0	0	0	1	0	0	0	4816	835	29	2	1118	2	DUSP16	12	12630882	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	4548570	12630882	121221013	365	6401										
PDE6H	5149	broad.mit.edu	37	chr12	15132142	15132142	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgacattccaggaatggaggGgctaggaacaggtaagccat	14	7	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:15132142G>T	uc001rcr.2	+	3	248	c.164G>T	c.(163-165)GGG>GTG	p.G55V		NM_006205	NP_006196	Q13956	CNCG_HUMAN	phosphodiesterase 6H	55					visual perception		3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|enzyme inhibitor activity			ovary(1)|skin(1)	2						GGAATGGAGGGGCTAGGAACA	0.413													10	21	---	---	---	---	PASS	T	15132142	T	T	15132142	3	4	10	1	0	0	0	0	1	0	0	0	11650	1232	43	3	170	3	PDE6H	12	15132142	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	2501260	15132142	118719753	366	6402										
STRAP	11171	broad.mit.edu	37	chr12	16047010	16047010	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aaattagtggtcatacttctGgtataaaaaaagctctgtgg	9	5	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:16047010G>T	uc001rdc.3	+	5	787	c.433G>T	c.(433-435)GGT>TGT	p.G145C	STRAP_uc010shw.1_Missense_Mutation_p.G158C|STRAP_uc001rdd.3_Missense_Mutation_p.G51C	NM_007178	NP_009109	Q9Y3F4	STRAP_HUMAN	serine/threonine kinase receptor associated	145	WD 4.				mRNA processing|RNA splicing	cell junction|mitochondrion|spliceosomal complex	identical protein binding			skin(1)	1		Hepatocellular(102;0.121)				TCATACTTCTGGTATAAAAAA	0.279													5	86	---	---	---	---	PASS	T	16047010	T	T	16047010	3	4	10	1	0	0	0	0	1	0	0	0	15325	1348	47	3	451	3	STRAP	12	16047010	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	914868	16047010	117804885	367	6403										
PLEKHA5	54477	broad.mit.edu	37	chr12	19413942	19413942	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtgctttctgacctttgcctCttttattatagaggtaagtt	8	7	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:19413942C>A	uc001reb.2	+	7	683	c.597C>A	c.(595-597)CTC>CTA	p.L199L	PLEKHA5_uc010sie.1_Silent_p.L199L|PLEKHA5_uc001rea.2_Silent_p.L199L|PLEKHA5_uc009zin.2_Intron|PLEKHA5_uc010sif.1_Silent_p.L91L|PLEKHA5_uc010sig.1_Silent_p.L91L|PLEKHA5_uc010sih.1_Silent_p.L91L	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	199	PH.						1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					ACCTTTGCCTCTTTTATTATA	0.303													7	192	---	---	---	---	PASS	A	19413942	A	A	19413942	2	1	10	1	0	0	0	0	0	0	0	1	12059	900	32	2		2	PLEKHA5	12	19413942	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	3366932	19413942	114437953	368	6404										
C12orf35	55196	broad.mit.edu	37	chr12	32138194	32138194	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aagtctgtagacacgaaagcGagttcatctaaatttagtag	9	6	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:32138194G>T	uc001rks.2	+	4	4719	c.4305G>T	c.(4303-4305)GCG>GCT	p.A1435A	C12orf35_uc001rkt.2_5'Flank	NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	1435										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			ACACGAAAGCGAGTTCATCTA	0.353													5	120	---	---	---	---	PASS	T	32138194	T	T	32138194	2	4	10	1	0	0	0	0	0	0	0	1	1682	1045	37	2		2	C12orf35	12	32138194	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	12724252	32138194	101713701	369	6405										
LRRK2	120892	broad.mit.edu	37	chr12	40692163	40692163	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctctcgaaatgacattggacCctcagtggttttagatccta	8	10	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:40692163C>A	uc001rmg.3	+	24	3336	c.3215C>A	c.(3214-3216)CCC>CAC	p.P1072H	LRRK2_uc001rmh.1_Missense_Mutation_p.P694H|LRRK2_uc009zjw.2_5'UTR	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1072	LRR 4.				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)				GACATTGGACCCTCAGTGGTT	0.368													9	45	---	---	---	---	PASS	A	40692163	A	A	40692163	3	1	10	1	0	0	0	0	1	0	0	0	9033	623	22	3	3309	3	LRRK2	12	40692163	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	8553969	40692163	93159732	370	6406										
TMEM117	84216	broad.mit.edu	37	chr12	44338016	44338016	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	taatatttgtatttcaggtcAgttgctccgattaaaaatgt	7	5	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:44338016A>T	uc001rod.2	+	3	347	c.281A>T	c.(280-282)CAG>CTG	p.Q94L	TMEM117_uc001roe.2_Silent_p.S23S|TMEM117_uc009zkc.2_Missense_Mutation_p.Q94L	NM_032256	NP_115632	Q9H0C3	TM117_HUMAN	transmembrane protein 117	94						endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		ATTTCAGGTCAGTTGCTCCGA	0.299													16	21	---	---	---	---	PASS	T	44338016	T	T	44338016	3	4	10	1	0	0	0	0	1	0	0	0	16028	188	7	5	287	5	TMEM117	12	44338016	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	3645853	44338016	89513879	371	6407										
SFRS2IP	9169	broad.mit.edu	37	chr12	46320689	46320689	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aatgagatctggacctagacCactttctggttctcctttct	7	11	4	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:46320689C>A	uc001rox.2	-	11	3082	c.2795G>T	c.(2794-2796)TGG>TTG	p.W932L	SFRS2IP_uc001row.2_Missense_Mutation_p.W617L|SFRS2IP_uc001roy.1_Missense_Mutation_p.W1006L	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	932	Arg-rich.				spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		GGACCTAGACCACTTTCTGGT	0.453													6	92	---	---	---	---	PASS	A	46320689	A	A	46320689	3	1	10	1	0	0	0	0	1	0	0	0	14177	595	21	3	1616	3	SFRS2IP	12	46320689	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1982673	46320689	87531206	372	6408										
SFRS2IP	9169	broad.mit.edu	37	chr12	46321720	46321720	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgttcagtaatttctactagGgaactctctgttattttttc	6	7	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:46321720G>T	uc001rox.2	-	11	2051	c.1764C>A	c.(1762-1764)TCC>TCA	p.S588S	SFRS2IP_uc001row.2_Silent_p.S273S|SFRS2IP_uc001roy.1_Silent_p.S662S	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	588					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		TTTCTACTAGGGAACTCTCTG	0.368													6	65	---	---	---	---	PASS	T	46321720	T	T	46321720	2	4	10	1	0	0	0	0	0	0	0	1	14177	1219	43	3		3	SFRS2IP	12	46321720	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	1031	46321720	87530175	373	6409										
MLL2	8085	broad.mit.edu	37	chr12	49442950	49442950	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccgtcctctaccacgtcctcCatgggctcctccacgaggcc	8	20	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:49442950C>A	uc001rta.3	-	12	3958	c.3958G>T	c.(3958-3960)GGA>TGA	p.G1320*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1320	Arg-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CCACGTCCTCCATGGGCTCCT	0.572			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			8	7	---	---	---	---	PASS	A	49442950	A	A	49442950	4	1	10	1	0	0	0	0	0	1	0	0	9621	603	21	3	12827	3	MLL2	12	49442950	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	3121230	49442950	84408945	374	6410										
ESPL1	9700	broad.mit.edu	37	chr12	53662832	53662832	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcctgtccaaccctccagctGgttttcccagcagccgatct	7	17	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:53662832G>T	uc001sck.2	+	3	197	c.106G>T	c.(106-108)GGT>TGT	p.G36C	ESPL1_uc001scj.2_5'UTR	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	36					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CCCTCCAGCTGGTTTTCCCAG	0.502													4	23	---	---	---	---	PASS	T	53662832	T	T	53662832	3	4	10	1	0	0	0	0	1	0	0	0	5253	1348	47	3	112	3	ESPL1	12	53662832	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	4219882	53662832	80189063	375	6411										
OR6C65	403282	broad.mit.edu	37	chr12	55794584	55794584	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tacaggagacacaaccatttCctataatgcttccatggccc	6	13	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:55794584C>T	uc010spl.1	+	1	272	c.272C>T	c.(271-273)TCC>TTC	p.S91F		NM_001005518	NP_001005518	A6NJZ3	O6C65_HUMAN	olfactory receptor, family 6, subfamily C,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACAACCATTTCCTATAATGCT	0.353													21	32	---	---	---	---	PASS	T	55794584	T	T	55794584	3	4	10	1	0	0	0	0	1	0	0	0	11195	855	30	2	274	2	OR6C65	12	55794584	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	2131752	55794584	78057311	376	6412										
NAV3	89795	broad.mit.edu	37	chr12	78444760	78444760	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcgaggttcatgtataccacGcctctccgtcgagctgctgt	10	13	2	0	rs35997153	by1000genomes	TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:78444760G>C	uc001syp.2	+	11	2522	c.2349G>C	c.(2347-2349)ACG>ACC	p.T783T	NAV3_uc001syo.2_Silent_p.T783T|NAV3_uc010sub.1_Silent_p.T283T	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	783						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TGTATACCACGCCTCTCCGTC	0.552										HNSCC(70;0.22)			5	19	---	---	---	---	PASS	C	78444760	C	C	78444760	2	2	10	1	0	0	0	0	0	0	0	1	10185	1074	38	4		4	NAV3	12	78444760	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	22650176	78444760	55407135	377	6413										
PLEKHG7	440107	broad.mit.edu	37	chr12	93147929	93147929	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agctgctagtggccccactaCagaggctcactcgatatccg	10	14	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:93147929C>T	uc001tcj.2	+	6	609	c.379C>T	c.(379-381)CAG>TAG	p.Q127*		NM_001004330	NP_001004330	Q6ZR37	PKHG7_HUMAN	pleckstrin homology domain containing, family G	127	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1						GGCCCCACTACAGAGGCTCAC	0.493													19	30	---	---	---	---	PASS	T	93147929	T	T	93147929	4	4	10	1	0	0	0	0	0	1	0	0	12075	479	17	3	397	3	PLEKHG7	12	93147929	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	14703169	93147929	40703966	378	6414										
SLC17A8	246213	broad.mit.edu	37	chr12	100806558	100806558	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccatttgcaggttttggcatGgaggcaaccttactcctggt	11	10	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:100806558G>T	uc010svi.1	+	10	1510	c.1197G>T	c.(1195-1197)ATG>ATT	p.M399I	SLC17A8_uc009ztx.2_Missense_Mutation_p.M349I	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	399	Helical; (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						GTTTTGGCATGGAGGCAACCT	0.408													5	67	---	---	---	---	PASS	T	100806558	T	T	100806558	3	4	10	1	0	0	0	0	1	0	0	0	14423	1348	47	3	1235	3	SLC17A8	12	100806558	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	7658629	100806558	33045337	379	6415										
ANO4	121601	broad.mit.edu	37	chr12	101488070	101488070	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccctgcttctgacgaatttaGgtgagtggaatcctttctat	9	9	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:101488070G>T	uc010svm.1	+	18	2310	c.1738G>T	c.(1738-1740)GAA>TAA	p.E580*	ANO4_uc001thw.2_Nonsense_Mutation_p.E545*|ANO4_uc001thx.2_Nonsense_Mutation_p.E580*|ANO4_uc001thy.2_Nonsense_Mutation_p.E100*	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	580	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						GACGAATTTAGGTGAGTGGAA	0.338										HNSCC(74;0.22)			6	38	---	---	---	---	PASS	T	101488070	T	T	101488070	4	4	10	1	0	0	0	0	0	1	0	0	699	1014	35	3	1695	3	ANO4	12	101488070	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	681512	101488070	32363825	380	6416										
UTP20	27340	broad.mit.edu	37	chr12	101685795	101685795	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agtctctccacatcttgctgGgagaccctcttggatgtaat	9	11	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:101685795G>T	uc001tia.1	+	10	1242	c.1086G>T	c.(1084-1086)TGG>TGT	p.W362C		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	362					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						CATCTTGCTGGGAGACCCTCT	0.393													7	141	---	---	---	---	PASS	T	101685795	T	T	101685795	3	4	10	1	0	0	0	0	1	0	0	0	17096	1241	43	3	1124	3	UTP20	12	101685795	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	197725	101685795	32166100	381	6417										
UTP20	27340	broad.mit.edu	37	chr12	101763508	101763508	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtttttttcaggtgatcacaGgtgctttacagtgcctcatc	9	9	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:101763508G>T	uc001tia.1	+	49	6550	c.6394G>T	c.(6394-6396)GGT>TGT	p.G2132C		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	2132					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						GGTGATCACAGGTGCTTTACA	0.448													6	74	---	---	---	---	PASS	T	101763508	T	T	101763508	3	4	10	1	0	0	0	0	1	0	0	0	17096	1000	35	3	6588	3	UTP20	12	101763508	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	77713	101763508	32088387	382	6418										
RFX4	5992	broad.mit.edu	37	chr12	107103163	107103163	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggatgagtggctaaaagtgGctctccacgacctcccagaa	11	11	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:107103163G>A	uc001tlr.2	+	9	955	c.889G>A	c.(889-891)GCT>ACT	p.A297T	RFX4_uc010swv.1_RNA|RFX4_uc001tls.2_Missense_Mutation_p.A306T|RFX4_uc001tlt.2_Missense_Mutation_p.A306T|RFX4_uc001tlv.2_Missense_Mutation_p.A203T	NM_213594	NP_998759	Q33E94	RFX4_HUMAN	regulatory factor X4 isoform c	297					transcription, DNA-dependent	nucleus	DNA binding			upper_aerodigestive_tract(1)	1						GCTAAAAGTGGCTCTCCACGA	0.418													8	35	---	---	---	---	PASS	A	107103163	A	A	107103163	3	1	10	1	0	0	0	0	1	0	0	0	13265	1203	42	3	1096	3	RFX4	12	107103163	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	5339655	107103163	26748732	383	6419										
WSCD2	9671	broad.mit.edu	37	chr12	108589946	108589946	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	actacggtggagcctggagcCgagccctcaaggggagggtt	17	10	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:108589946C>G	uc001tms.2	+	2	1081	c.337C>G	c.(337-339)CGA>GGA	p.R113G	WSCD2_uc001tmt.2_Missense_Mutation_p.R113G	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	113						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						AGCCTGGAGCCGAGCCCTCAA	0.597													8	28	---	---	---	---	PASS	G	108589946	G	G	108589946	3	3	10	1	0	0	0	0	1	0	0	0	17404	644	23	4	339	4	WSCD2	12	108589946	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1486783	108589946	25261949	384	6420										
SSH1	54434	broad.mit.edu	37	chr12	109210857	109210857	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcccagcaagatattctcctCggtgtcctggcgcccgctgc	10	16	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:109210857C>A	uc001tnm.2	-	5	445	c.358G>T	c.(358-360)GAG>TAG	p.E120*	SSH1_uc010sxg.1_Nonsense_Mutation_p.E131*|SSH1_uc001tnn.3_Nonsense_Mutation_p.E120*|SSH1_uc001tno.1_Nonsense_Mutation_p.E47*	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	120					actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						ATATTCTCCTCGGTGTCCTGG	0.602													6	106	---	---	---	---	PASS	A	109210857	A	A	109210857	4	1	10	1	0	0	0	0	0	1	0	0	15183	893	31	2	3021	2	SSH1	12	109210857	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	620911	109210857	24641038	385	6421										
UBE3B	89910	broad.mit.edu	37	chr12	109962291	109962291	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcctgacgctgtcttacgacGaggacgtcatgggtcaggta	14	10	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:109962291G>T	uc001top.2	+	23	3154	c.2551G>T	c.(2551-2553)GAG>TAG	p.E851*	UBE3B_uc001toq.2_Nonsense_Mutation_p.E851*|UBE3B_uc001tos.2_Nonsense_Mutation_p.E278*|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Nonsense_Mutation_p.E851*	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	851	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						GTCTTACGACGAGGACGTCAT	0.547													17	20	---	---	---	---	PASS	T	109962291	T	T	109962291	4	4	10	1	0	0	0	0	0	1	0	0	16877	1059	37	2	2633	2	UBE3B	12	109962291	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	751434	109962291	23889604	386	6422										
PXN	5829	broad.mit.edu	37	chr12	120653417	120653417	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccgccgtcccgaggccagccGgccgcccagcaccgctcccc	11	24	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:120653417G>A	uc001txt.2	-	7	1010	c.879C>T	c.(877-879)GCC>GCT	p.A293A	PXN_uc001txu.2_Silent_p.A57A|PXN_uc001txv.2_Intron|PXN_uc001txx.2_Intron|PXN_uc001txy.2_Intron|PXN_uc001txz.2_RNA	NM_001080855	NP_001074324	P49023	PAXI_HUMAN	paxillin isoform 1	293					cell junction assembly|cell-matrix adhesion|cellular response to reactive oxygen species|epidermal growth factor receptor signaling pathway|growth hormone receptor signaling pathway|muscle contraction|signal complex assembly	cytoplasm|focal adhesion|lamellipodium|microtubule associated complex	beta-catenin binding|vinculin binding|zinc ion binding			ovary(1)|breast(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GAGGCCAGCCGGCCGCCCAGC	0.622													9	13	---	---	---	---	PASS	A	120653417	A	A	120653417	2	1	10	1	0	0	0	0	0	0	0	1	12852	1103	39	1		1	PXN	12	120653417	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	10691126	120653417	13198478	387	6423										
P2RX7	5027	broad.mit.edu	37	chr12	121615214	121615214	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggtcaacgaatactactacAggaagaagtgcgagtccatt	10	8	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:121615214A>T	uc001tzm.2	+	11	1249	c.1153A>T	c.(1153-1155)AGG>TGG	p.R385W	P2RX7_uc001tzn.2_Missense_Mutation_p.R295W|P2RX7_uc001tzo.2_RNA|P2RX7_uc001tzp.2_Missense_Mutation_p.R96W|P2RX7_uc001tzq.2_Missense_Mutation_p.R215W	NM_002562	NP_002553	Q99572	P2RX7_HUMAN	purinergic receptor P2X7	385						integral to membrane	ATP binding|ion channel activity|receptor activity			large_intestine(2)|lung(1)|breast(1)|skin(1)	5	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ATACTACTACAGGAAGAAGTG	0.507													22	22	---	---	---	---	PASS	T	121615214	T	T	121615214	3	4	10	1	0	0	0	0	1	0	0	0	11345	179	7	5	1195	5	P2RX7	12	121615214	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	961797	121615214	12236681	388	6424										
WDR66	144406	broad.mit.edu	37	chr12	122437833	122437833	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcgaagagaggacttcctgaGactgctcgttactaaaggta	11	8	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr12:122437833G>C	uc009zxk.2	+	20	3360	c.3218G>C	c.(3217-3219)AGA>ACA	p.R1073T		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	1073							calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		GACTTCCTGAGACTGCTCGTT	0.498													12	49	---	---	---	---	PASS	C	122437833	C	C	122437833	3	2	10	1	0	0	0	0	1	0	0	0	17314	942	33	2	3351	2	WDR66	12	122437833	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	822619	122437833	11414062	389	6425										
FLT1	2321	broad.mit.edu	37	chr13	29008091	29008091	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggacatctatgattgtattGgctgcaagcataagagagaa	11	5	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr13:29008091G>C	uc001usb.3	-	6	963	c.678C>G	c.(676-678)ACC>ACG	p.T226T	FLT1_uc010aar.1_Silent_p.T226T|FLT1_uc001usc.3_Silent_p.T226T|FLT1_uc010tdp.1_Silent_p.T226T	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	226	Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	TGATTGTATTGGCTGCAAGCA	0.378													25	36	---	---	---	---	PASS	C	29008091	C	C	29008091	2	2	10	1	0	0	0	0	0	0	0	1	5941	1362	47	4		4	FLT1	13	29008091	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08		29008091	86161787	390	6426										
FAM48A	55578	broad.mit.edu	37	chr13	37593482	37593482	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagtatttcaggtttacctgGagtagatttaagggcctgag	12	6	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr13:37593482G>T	uc001uwg.2	-	22	2117	c.1869C>A	c.(1867-1869)CTC>CTA	p.L623L	FAM48A_uc010abt.2_Silent_p.L624L|FAM48A_uc001uwh.2_Silent_p.L624L|FAM48A_uc001uwi.2_Silent_p.L623L|FAM48A_uc001uwj.2_Silent_p.L624L|FAM48A_uc001uwk.2_Silent_p.L702L|FAM48A_uc001uwd.2_Silent_p.L110L|FAM48A_uc001uwe.2_Silent_p.L107L|FAM48A_uc001uwf.2_Silent_p.L201L	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A	623					autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		GGTTTACCTGGAGTAGATTTA	0.294													5	38	---	---	---	---	PASS	T	37593482	T	T	37593482	2	4	10	1	0	0	0	0	0	0	0	1	5572	1161	41	2		2	FAM48A	13	37593482	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	8585391	37593482	77576396	391	6427										
PCDH8	5100	broad.mit.edu	37	chr13	53419021	53419021	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcaggatgggctccagcagcGgtcagagtggcccaggatct	16	11	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr13:53419021G>A	uc001vhi.2	-	3	3090	c.2887C>T	c.(2887-2889)CGC>TGC	p.R963C	PCDH8_uc001vhj.2_Missense_Mutation_p.R866C	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	963	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		CTCCAGCAGCGGTCAGAGTGG	0.557													7	14	---	---	---	---	PASS	A	53419021	A	A	53419021	3	1	10	1	0	0	0	0	1	0	0	0	11517	1116	39	1	329	1	PCDH8	13	53419021	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	15825539	53419021	61750857	392	6428										
PCDH20	64881	broad.mit.edu	37	chr13	61987742	61987742	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggaggagatggaaacgctgcCgctccacgcagtccctccac	12	15	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr13:61987742C>T	uc001vid.3	-	2	854	c.490G>A	c.(490-492)GGC>AGC	p.G164S	PCDH20_uc010thj.1_Missense_Mutation_p.G164S	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	137	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		GAAACGCTGCCGCTCCACGCA	0.562													18	13	---	---	---	---	PASS	T	61987742	T	T	61987742	3	4	10	1	0	0	0	0	1	0	0	0	11515	652	23	1	2369	1	PCDH20	13	61987742	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	8568721	61987742	53182136	393	6429										
KLF5	688	broad.mit.edu	37	chr13	73636323	73636323	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcaccagtatattcagctcaCaccagaccgcagctccagag	7	15	3	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr13:73636323C>A	uc001vje.2	+	2	910	c.586C>A	c.(586-588)CAC>AAC	p.H196N	KLF5_uc001vjd.2_Missense_Mutation_p.H105N	NM_001730	NP_001721	Q13887	KLF5_HUMAN	Kruppel-like factor 5	196					transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|pancreas(1)	3		Prostate(6;0.00187)|Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.0011)		ATTCAGCTCACACCAGACCGC	0.532													18	25	---	---	---	---	PASS	A	73636323	A	A	73636323	3	1	10	1	0	0	0	0	1	0	0	0	8349	478	17	3	592	3	KLF5	13	73636323	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	11648581	73636323	41533555	394	6430										
HS6ST3	266722	broad.mit.edu	37	chr13	97485376	97485376	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcagcgagagcacagggaccAccagtggcccaaagaagatg	14	11	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr13:97485376A>T	uc001vmw.2	+	2	1364	c.1340A>T	c.(1339-1341)CAC>CTC	p.H447L		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	447	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					CACAGGGACCACCAGTGGCCC	0.632													9	9	---	---	---	---	PASS	T	97485376	T	T	97485376	3	4	10	1	0	0	0	0	1	0	0	0	7372	159	6	5	1346	5	HS6ST3	13	97485376	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	23849053	97485376	17684502	395	6431										
POTEG	404785	broad.mit.edu	37	chr14	19553744	19553744	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gccactgcttcccctgctgcAgggggagcggcaagagcaaa	14	13	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:19553744A>T	uc001vuz.1	+	1	380	c.328A>T	c.(328-330)AGG>TGG	p.R110W	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	110										ovary(1)	1						CCCCTGCTGCAGGGGGAGCGG	0.592													17	188	---	---	---	---	PASS	T	19553744	T	T	19553744	3	4	10	1	0	0	0	0	1	0	0	0	12266	179	7	5	330	5	POTEG	14	19553744	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08		19553744	87795796	396	6432										
OR4N2	390429	broad.mit.edu	37	chr14	20295680	20295680	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cccagtctcaagatattcagCtcctggtctttgtgctagtt	8	11	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:20295680C>A	uc010tkv.1	+	1	73	c.73C>A	c.(73-75)CTC>ATC	p.L25I		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	25	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.L25L(1)		ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AGATATTCAGCTCCTGGTCTT	0.438													39	94	---	---	---	---	PASS	A	20295680	A	A	20295680	3	1	10	1	0	0	0	0	1	0	0	0	11077	797	28	3	75	3	OR4N2	14	20295680	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	741936	20295680	87053860	397	6433										
RNASE4	6038	broad.mit.edu	37	chr14	21167824	21167824	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgcaagaacggcaagatgaaCtgccatgagggtgtagtgaa	14	6	0	5			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:21167824C>A	uc001vxy.3	+	2	857	c.294C>A	c.(292-294)AAC>AAA	p.N98K	RNASE4_uc001vxx.3_RNA|RNASE4_uc001vya.2_Missense_Mutation_p.N98K	NM_002937	NP_002928	P34096	RNAS4_HUMAN	ribonuclease, RNase A family, 4 precursor	98					mRNA cleavage	extracellular region	nucleic acid binding|pancreatic ribonuclease activity			central_nervous_system(1)	1	all_cancers(95;0.00304)		Epithelial(56;5.13e-07)|all cancers(55;4.73e-06)	GBM - Glioblastoma multiforme(265;0.0133)		GCAAGATGAACTGCCATGAGG	0.498													16	62	---	---	---	---	PASS	A	21167824	A	A	21167824	3	1	10	1	0	0	0	0	1	0	0	0	13406	564	20	3	296	3	RNASE4	14	21167824	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	872144	21167824	86181716	398	6434										
TGM1	7051	broad.mit.edu	37	chr14	24731311	24731311	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gccggcgggagtctgagcccCgggagccaggtcttcgagtg	18	12	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:24731311C>A	uc001wod.2	-	2	372	c.248G>T	c.(247-249)CGG>CTG	p.R83L	TGM1_uc010tog.1_Intron	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	83	Membrane anchorage region.				cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	GTCTGAGCCCCGGGAGCCAGG	0.647													13	14	---	---	---	---	PASS	A	24731311	A	A	24731311	3	1	10	1	0	0	0	0	1	0	0	0	15826	652	23	1	2261	1	TGM1	14	24731311	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	3563487	24731311	82618229	399	6435										
FSCB	84075	broad.mit.edu	37	chr14	44975152	44975152	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tggaggcagaatttcagccaGaagctctacagaaggagact	12	8	2	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:44975152G>T	uc001wvn.2	-	1	1348	c.1039C>A	c.(1039-1041)CTG>ATG	p.L347M		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	347	Pro-rich.					cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		ATTTCAGCCAGAAGCTCTACA	0.502													39	64	---	---	---	---	PASS	T	44975152	T	T	44975152	3	4	10	1	0	0	0	0	1	0	0	0	6066	933	33	2	1442	2	FSCB	14	44975152	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	20243841	44975152	62374388	400	6436										
FRMD6	122786	broad.mit.edu	37	chr14	52171516	52171516	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggcacctgagaaaacaagttCttcattctcagtgtgtgctc	9	10	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:52171516C>G	uc001wzd.2	+	6	706	c.421C>G	c.(421-423)CTT>GTT	p.L141V	FRMD6_uc001wzb.2_Missense_Mutation_p.L133V|FRMD6_uc001wzc.2_Missense_Mutation_p.L133V|FRMD6_uc001wze.2_Missense_Mutation_p.L64V	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	141	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					AAAACAAGTTCTTCATTCTCA	0.428													10	42	---	---	---	---	PASS	G	52171516	G	G	52171516	3	3	10	1	0	0	0	0	1	0	0	0	6054	913	32	2	415	2	FRMD6	14	52171516	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	7196364	52171516	55178024	401	6437										
ARID4A	5926	broad.mit.edu	37	chr14	58796253	58796253	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcttgataattagttactctAtagcaagaaaggacattaag	7	5	2	2	rs138296226	byFrequency	TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:58796253A>G	uc001xdp.2	+	10	924	c.670A>G	c.(670-672)ATA>GTA	p.I224V	ARID4A_uc001xdo.2_Missense_Mutation_p.I224V|ARID4A_uc001xdq.2_Missense_Mutation_p.I224V|ARID4A_uc010apg.1_5'Flank	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	224					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						TAGTTACTCTATAGCAAGAAA	0.299													14	26	---	---	---	---	PASS	G	58796253	G	G	58796253	3	3	10	1	0	0	0	0	1	0	0	0	919	449	16	5	704	5	ARID4A	14	58796253	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	6624737	58796253	48553287	402	6438										
TOMM20L	387990	broad.mit.edu	37	chr14	58869446	58869446	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgcaagaacttttcttgcaaGaggtacggatgggagaactt	12	6	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:58869446G>T	uc001xdr.1	+	3	261	c.229G>T	c.(229-231)GAG>TAG	p.E77*	TOMM20L_uc010trq.1_Intron	NM_207377	NP_997260	Q6UXN7	TO20L_HUMAN	translocase of outer mitochondrial membrane 20	77	Cytoplasmic (Potential).				protein targeting	integral to membrane|mitochondrial outer membrane translocase complex					0						TTTCTTGCAAGAGGTACGGAT	0.313													6	98	---	---	---	---	PASS	T	58869446	T	T	58869446	4	4	10	1	0	0	0	0	0	1	0	0	16352	943	33	2	239	2	TOMM20L	14	58869446	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	73193	58869446	48480094	403	6439										
RAB15	376267	broad.mit.edu	37	chr14	65417054	65417054	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tccacttacctgctgcccttGctctcttcccacctgccgtt	5	19	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:65417054G>T	uc001xhz.2	-	5	615	c.534C>A	c.(532-534)AGC>AGA	p.S178R	FNTB_uc010tsl.1_Intron|FNTB_uc010tsm.1_Intron|RAB15_uc010aqk.2_RNA	NM_198686	NP_941959	P59190	RAB15_HUMAN	RAB15, member RAS onocogene family	Error:Variant_position_missing_in_P59190_after_alignment					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)	1				all cancers(60;0.00136)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.0102)		TGCTGCCCTTGCTCTCTTCCC	0.587													67	104	---	---	---	---	PASS	T	65417054	T	T	65417054	3	4	10	1	0	0	0	0	1	0	0	0	12901	1310	46	3	104	3	RAB15	14	65417054	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	6547608	65417054	41932486	404	6440										
ADAM20	8748	broad.mit.edu	37	chr14	70989667	70989667	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctttcacctcaccaatatcaGgtatagccatccctaaatga	4	13	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:70989667G>T	uc001xme.2	-	2	2203	c.1958C>A	c.(1957-1959)CCT>CAT	p.P653H		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	603	Cys-rich.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		ACCAATATCAGGTATAGCCAT	0.458													6	103	---	---	---	---	PASS	T	70989667	T	T	70989667	3	4	10	1	0	0	0	0	1	0	0	0	242	1000	35	3	376	3	ADAM20	14	70989667	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	5572613	70989667	36359873	405	6441										
TTLL5	23093	broad.mit.edu	37	chr14	76232418	76232418	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tatttagtgattacccaaccAgctgaaatgaatgttaaaac	6	7	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:76232418A>G	uc001xrx.2	+	20	1927	c.1722A>G	c.(1720-1722)CCA>CCG	p.P574P	TTLL5_uc010ask.1_Silent_p.P588P|TTLL5_uc001xrz.2_Silent_p.P149P|TTLL5_uc001xry.1_RNA	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	574					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		TTACCCAACCAGCTGAAATGA	0.388													15	35	---	---	---	---	PASS	G	76232418	G	G	76232418	2	3	10	1	0	0	0	0	0	0	0	1	16727	175	7	5		5	TTLL5	14	76232418	Silent	SNP	A	TCGA-18-3416-01A-01D-0983-08	5242751	76232418	31117122	406	6442										
ASB2	51676	broad.mit.edu	37	chr14	94419793	94419793	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agtccaggtggcccctgcacGttgccaagtaaacggctgtt	12	12	0	0	rs113529772		TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:94419793G>C	uc001ycc.1	-	3	884	c.395C>G	c.(394-396)ACG>AGG	p.T132R	ASB2_uc001ycd.2_Missense_Mutation_p.T180R|ASB2_uc001yce.1_Missense_Mutation_p.T78R	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	132	ANK 3.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		GCCCCTGCACGTTGCCAAGTA	0.587													6	24	---	---	---	---	PASS	C	94419793	C	C	94419793	3	2	10	1	0	0	0	0	1	0	0	0	1023	1145	40	4	1392	4	ASB2	14	94419793	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	18187375	94419793	12929747	407	6443										
DICER1	23405	broad.mit.edu	37	chr14	95570126	95570126	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tatttcctgcttgtagtaatTtagctgatttccttggcaaa	7	7	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:95570126T>A	uc001ydw.2	-	22	3789	c.3607A>T	c.(3607-3609)AAT>TAT	p.N1203Y	DICER1_uc010avh.1_Missense_Mutation_p.N101Y|DICER1_uc001ydv.2_Missense_Mutation_p.N1193Y|DICER1_uc001ydx.2_Missense_Mutation_p.N1203Y|DICER1_uc001ydy.1_Missense_Mutation_p.N55Y	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1203					negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		TTGTAGTAATTTAGCTGATTT	0.403			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				28	54	---	---	---	---	PASS	A	95570126	A	A	95570126	3	1	10	1	0	0	0	0	1	0	0	0	4521	1841	64	5	2189	5	DICER1	14	95570126	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	1150333	95570126	11779414	408	6444										
SIVA1	10572	broad.mit.edu	37	chr14	105222016	105222016	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcccaggcctacctggaccaCgtgtgggatgaaggctgtgc	15	12	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:105222016C>G	uc001yph.2	+	2	237	c.168C>G	c.(166-168)CAC>CAG	p.H56Q	INF2_uc010tyi.1_Intron|SIVA1_uc010tyj.1_Missense_Mutation_p.H56Q|SIVA1_uc001ypg.1_Missense_Mutation_p.H56Q|SIVA1_uc001ypi.2_Intron	NM_006427	NP_006418	O15304	SIVA_HUMAN	CD27-binding (Siva) protein isoform 1	56					activation of caspase activity by cytochrome c|activation-induced cell death of T cells|apoptosis|induction of apoptosis|interspecies interaction between organisms|negative regulation of anti-apoptosis|negative regulation of NF-kappaB transcription factor activity	cytoplasm|mitochondrion|nucleoplasm|nucleus	caspase activator activity|CD27 receptor binding|metal ion binding|viral receptor activity|zinc ion binding				0		all_cancers(154;0.14)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.173)		ACCTGGACCACGTGTGGGATG	0.607													8	15	---	---	---	---	PASS	G	105222016	G	G	105222016	3	3	10	1	0	0	0	0	1	0	0	0	14345	535	19	4	174	4	SIVA1	14	105222016	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	9651890	105222016	2127524	409	6445										
AHNAK2	113146	broad.mit.edu	37	chr14	105413877	105413877	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttggctgtcacacccttgtcGgccagggacaggtccccctc	11	16	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr14:105413877G>C	uc010axc.1	-	7	8031	c.7911C>G	c.(7909-7911)GCC>GCG	p.A2637A	AHNAK2_uc001ypx.2_Silent_p.A2537A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2637						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)			CACCCTTGTCGGCCAGGGACA	0.607													28	171	---	---	---	---	PASS	C	105413877	C	C	105413877	2	2	10	1	0	0	0	0	0	0	0	1	415	1103	39	4		4	AHNAK2	14	105413877	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	191861	105413877	1935663	410	6446										
NDN	4692	broad.mit.edu	37	chr15	23931540	23931540	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	accctggccaggaactccatGatttgcatcttggtgatttc	9	11	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:23931540G>T	uc001ywk.2	-	1	911	c.825C>A	c.(823-825)ATC>ATA	p.I275I		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	275	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		GGAACTCCATGATTTGCATCT	0.582									Prader-Willi_syndrome				6	11	---	---	---	---	PASS	T	23931540	T	T	23931540	2	4	10	1	0	0	0	0	0	0	0	1	10247	1280	45	2		2	NDN	15	23931540	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08		23931540	78599852	411	6447										
ATP10A	57194	broad.mit.edu	37	chr15	25925069	25925069	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cttcctggtcaactgacgtgCcagctgaagttgtgtgggga	14	9	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:25925069C>A	uc010ayu.2	-	21	4025	c.3919G>T	c.(3919-3921)GCA>TCA	p.A1307S		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1307	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		AACTGACGTGCCAGCTGAAGT	0.507													32	30	---	---	---	---	PASS	A	25925069	A	A	25925069	3	1	10	1	0	0	0	0	1	0	0	0	1116	739	26	3	584	3	ATP10A	15	25925069	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1993529	25925069	76606323	412	6448										
FSIP1	161835	broad.mit.edu	37	chr15	39910398	39910398	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttgtttaagtatgcattcatCcagaagacactttaactgtt	6	7	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:39910398C>A	uc001zki.2	-	11	1455	c.1237G>T	c.(1237-1239)GAT>TAT	p.D413Y		NM_152597	NP_689810	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1	413										ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		ATGCATTCATCCAGAAGACAC	0.368													20	22	---	---	---	---	PASS	A	39910398	A	A	39910398	3	1	10	1	0	0	0	0	1	0	0	0	6074	855	30	2	516	2	FSIP1	15	39910398	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	13985329	39910398	62620994	413	6449										
CHP	11261	broad.mit.edu	37	chr15	41570972	41570972	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cttggtcttccaggtgctacGcatgatggtcggagtaaata	12	8	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:41570972G>T	uc001znl.2	+	6	563	c.419G>T	c.(418-420)CGC>CTC	p.R140L	CHP_uc010bcd.1_5'Flank	NM_007236	NP_009167	Q99653	CHP1_HUMAN	calcium binding protein P22	140	EF-hand 3.				potassium ion transport|small GTPase mediated signal transduction		potassium channel regulator activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;5.87e-16)|Lung NSC(122;8.86e-12)|all_lung(180;2.47e-10)|Melanoma(134;0.0574)|Colorectal(260;0.0946)|Ovarian(310;0.143)		GBM - Glioblastoma multiforme(113;1.68e-06)|LUSC - Lung squamous cell carcinoma(244;0.008)|Lung(196;0.00802)|BRCA - Breast invasive adenocarcinoma(123;0.169)		CAGGTGCTACGCATGATGGTC	0.478													16	11	---	---	---	---	PASS	T	41570972	T	T	41570972	3	4	10	1	0	0	0	0	1	0	0	0	3366	1087	38	1	441	1	CHP	15	41570972	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1660574	41570972	60960420	414	6450										
TYRO3	7301	broad.mit.edu	37	chr15	41862286	41862286	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtggtccttggtgtgctaacGgccctggtgacggctgctgc	16	11	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:41862286G>A	uc001zof.1	+	10	1538	c.1314G>A	c.(1312-1314)ACG>ACA	p.T438T		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	438	Helical; (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GTGTGCTAACGGCCCTGGTGA	0.627													16	5	---	---	---	---	PASS	A	41862286	A	A	41862286	2	1	10	1	0	0	0	0	0	0	0	1	16811	1103	39	1		1	TYRO3	15	41862286	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	291314	41862286	60669106	415	6451										
CAPN3	825	broad.mit.edu	37	chr15	42702687	42702687	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cctctggaacaagattaaggCctggcaggtgggaagagaaa	14	7	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:42702687C>T	uc001zpn.1	+	20	2483	c.2177C>T	c.(2176-2178)GCC>GTC	p.A726V	CAPN3_uc001zpk.1_Missense_Mutation_p.A493V|CAPN3_uc001zpl.1_Missense_Mutation_p.A633V|CAPN3_uc010udf.1_Missense_Mutation_p.A639V|CAPN3_uc010udg.1_Missense_Mutation_p.A591V|CAPN3_uc001zpo.1_Missense_Mutation_p.A720V|CAPN3_uc001zpp.1_Missense_Mutation_p.A634V|CAPN3_uc001zpq.1_Missense_Mutation_p.A214V|CAPN3_uc010bcv.1_Missense_Mutation_p.A61V|CAPN3_uc001zpr.1_Missense_Mutation_p.A61V|CAPN3_uc001zps.1_Missense_Mutation_p.A61V|CAPN3_uc001zpt.1_Missense_Mutation_p.A61V	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	726	EF-hand 3.|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)		AAGATTAAGGCCTGGCAGGTG	0.502													18	26	---	---	---	---	PASS	T	42702687	T	T	42702687	3	4	10	1	0	0	0	0	1	0	0	0	2628	739	26	3	2307	3	CAPN3	15	42702687	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	840401	42702687	59828705	416	6452										
CEP152	22995	broad.mit.edu	37	chr15	49064722	49064722	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttcatccttcttcacttggtGgagatcttcaattttcttat	5	9	6	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:49064722G>T	uc001zwy.2	-	13	1778	c.1744C>A	c.(1744-1746)CAC>AAC	p.H582N	CEP152_uc001zwz.2_Missense_Mutation_p.H582N|CEP152_uc001zxa.1_Missense_Mutation_p.H489N	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	582					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		TTCACTTGGTGGAGATCTTCA	0.363													5	68	---	---	---	---	PASS	T	49064722	T	T	49064722	3	4	10	1	0	0	0	0	1	0	0	0	3248	1348	47	3	3276	3	CEP152	15	49064722	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	6362035	49064722	53466670	417	6453										
ATP8B4	79895	broad.mit.edu	37	chr15	50152498	50152498	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ataatgtgtcttttccagccCtgatgttgggggtggatttt	12	6	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:50152498C>T	uc001zxu.2	-	28	3614	c.3472G>A	c.(3472-3474)GGG>AGG	p.G1158R	ATP8B4_uc010ber.2_Missense_Mutation_p.G1031R|ATP8B4_uc010ufd.1_Missense_Mutation_p.G968R|ATP8B4_uc010ufe.1_RNA|ATP8B4_uc001zxt.2_Missense_Mutation_p.G161R	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	1158	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		TTTTCCAGCCCTGATGTTGGG	0.418													30	23	---	---	---	---	PASS	T	50152498	T	T	50152498	3	4	10	1	0	0	0	0	1	0	0	0	1197	681	24	3	110	3	ATP8B4	15	50152498	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1087776	50152498	52378894	418	6454										
RORA	6095	broad.mit.edu	37	chr15	60919479	60919479	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtgtgggtgtggcagacattCtggcctgtccagttcgaaga	15	8	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:60919479C>G	uc002agv.2	-	1	251	c.95G>C	c.(94-96)AGA>ACA	p.R32T	RORA_uc002agw.2_Missense_Mutation_p.R32T|RORA_uc002agx.2_Intron	NM_134260	NP_599022	P35398	RORA_HUMAN	RAR-related orphan receptor A isoform b	32	Modulating.				positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			large_intestine(1)|ovary(1)	2						GGCAGACATTCTGGCCTGTCC	0.373													11	16	---	---	---	---	PASS	G	60919479	G	G	60919479	3	3	10	1	0	0	0	0	1	0	0	0	13528	913	32	2	1796	2	RORA	15	60919479	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	10766981	60919479	41611913	419	6455										
SPESP1	246777	broad.mit.edu	37	chr15	69238616	69238616	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcttagtgacaccagcaaccCagcatatagagaagatattg	8	9	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:69238616C>A	uc002arn.1	+	2	871	c.743C>A	c.(742-744)CCA>CAA	p.P248Q	NOX5_uc002arp.1_Intron|NOX5_uc002arq.1_Intron|NOX5_uc010bid.1_Intron|NOX5_uc002aro.2_Intron	NM_145658	NP_663633	Q6UW49	SPESP_HUMAN	sperm equatorial segment protein 1 precursor	248					multicellular organismal development	acrosomal vesicle					0						ACCAGCAACCCAGCATATAGA	0.373													24	34	---	---	---	---	PASS	A	69238616	A	A	69238616	3	1	10	1	0	0	0	0	1	0	0	0	15039	594	21	3	749	3	SPESP1	15	69238616	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	8319137	69238616	33292776	420	6456										
NEIL1	79661	broad.mit.edu	37	chr15	75644693	75644693	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tccccccctttgagaaggccCgctcggtcctggaggccctg	12	17	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:75644693C>T	uc002bad.2	+	4	1089	c.583C>T	c.(583-585)CGC>TGC	p.R195C	NEIL1_uc002bae.2_Missense_Mutation_p.R281C	NM_024608	NP_078884	Q96FI4	NEIL1_HUMAN	nei endonuclease VIII-like 1	195					base-excision repair|negative regulation of nuclease activity|nucleotide-excision repair|response to oxidative stress	cytoplasm|nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|protein C-terminus binding|zinc ion binding			ovary(1)	1						TGAGAAGGCCCGCTCGGTCCT	0.657								BER_DNA_glycosylases					9	13	---	---	---	---	PASS	T	75644693	T	T	75644693	3	4	10	1	0	0	0	0	1	0	0	0	10318	652	23	1	593	1	NEIL1	15	75644693	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	6406077	75644693	26886699	421	6457										
ALPK3	57538	broad.mit.edu	37	chr15	85400738	85400738	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gggacccccactcagagtcaCccaccagaaaccatggccac	8	18	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:85400738C>G	uc002ble.2	+	6	3542	c.3375C>G	c.(3373-3375)CAC>CAG	p.H1125Q		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1125					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CTCAGAGTCACCCACCAGAAA	0.662													8	17	---	---	---	---	PASS	G	85400738	G	G	85400738	3	3	10	1	0	0	0	0	1	0	0	0	546	506	18	4	3397	4	ALPK3	15	85400738	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	9756045	85400738	17130654	422	6458										
PRC1	9055	broad.mit.edu	37	chr15	91528042	91528042	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagacatactatggactcctCcgccagcacctcactgaaaa	6	15	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr15:91528042C>A	uc002bqm.2	-	2	182	c.25G>T	c.(25-27)GAG>TAG	p.E9*	PRC1_uc002bqn.2_Nonsense_Mutation_p.E9*|PRC1_uc002bqo.2_Nonsense_Mutation_p.E9*|PRC1_uc010uqs.1_Nonsense_Mutation_p.E9*|PRC1_uc010uqt.1_Intron	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	9	Dimerization.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					ATGGACTCCTCCGCCAGCACC	0.453													34	58	---	---	---	---	PASS	A	91528042	A	A	91528042	4	1	10	1	0	0	0	0	0	1	0	0	12446	864	30	2	1893	2	PRC1	15	91528042	Nonsense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	6127304	91528042	11003350	423	6459										
CACNA1H	8912	broad.mit.edu	37	chr16	1250520	1250520	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggtgactccaacccccacaaCggtgccatcaacttcgacaa	7	16	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr16:1250520C>T	uc002cks.2	+	7	1316	c.1068C>T	c.(1066-1068)AAC>AAT	p.N356N	CACNA1H_uc002ckt.2_Silent_p.N356N	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	356	Extracellular (Potential).|I.				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	ACCCCCACAACGGTGCCATCA	0.657													10	30	---	---	---	---	PASS	T	1250520	T	T	1250520	2	4	10	1	0	0	0	0	0	0	0	1	2545	535	19	1		1	CACNA1H	16	1250520	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08		1250520	89104233	424	6460										
ABCA3	21	broad.mit.edu	37	chr16	2331210	2331210	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cacggccaggaggggcacccGctgctcgtacacctgcaggc	14	16	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr16:2331210G>T	uc002cpy.1	-	28	4889	c.4177C>A	c.(4177-4179)CGG>AGG	p.R1393R	ABCA3_uc010bsk.1_Silent_p.R1335R	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1393	ABC transporter 2.				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				AGGGGCACCCGCTGCTCGTAC	0.632													17	11	---	---	---	---	PASS	T	2331210	T	T	2331210	2	4	10	1	0	0	0	0	0	0	0	1	33	1086	38	1		1	ABCA3	16	2331210	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	1080690	2331210	88023543	425	6461										
NDUFAB1	4706	broad.mit.edu	37	chr16	23607476	23607476	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	taaggccggctgcaaagtccCgagcctcgtctgggtccccg	13	15	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr16:23607476C>G	uc002dlw.2	-	1	164	c.136G>C	c.(136-138)GGG>CGG	p.G46R		NM_005003	NP_004994	O14561	ACPM_HUMAN	NADH dehydrogenase (ubiquinone) 1, alpha/beta	46					fatty acid biosynthetic process|mitochondrial electron transport, NADH to ubiquinone	mitochondrial matrix|mitochondrial respiratory chain complex I	acyl carrier activity|calcium ion binding|cofactor binding|fatty acid binding|NADH dehydrogenase (ubiquinone) activity|phosphopantetheine binding				0				GBM - Glioblastoma multiforme(48;0.0339)	NADH(DB00157)	TGCAAAGTCCCGAGCCTCGTC	0.726													3	10	---	---	---	---	PASS	G	23607476	G	G	23607476	3	3	10	1	0	0	0	0	1	0	0	0	10273	652	23	4	350	4	NDUFAB1	16	23607476	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	21276266	23607476	66747277	426	6462										
GSG1L	146395	broad.mit.edu	37	chr16	27818807	27818807	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	acccacaaacaggccacttaCgggcagggtatctctcgtgg	11	13	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr16:27818807C>T	uc002doz.2	-	6	983	c.898_splice	c.e6+1	p.R300_splice	GSG1L_uc010bya.1_Splice_Site_p.R249_splice|GSG1L_uc010bxz.1_Splice_Site_p.R163_splice|GSG1L_uc002doy.2_Splice_Site_p.R145_splice	NM_001109763	NP_001103233	Q6UXU4	GSG1L_HUMAN	GSG1-like isoform 1							integral to membrane				ovary(1)	1						AGGCCACTTACGGGCAGGGTA	0.532													4	19	---	---	---	---	PASS	T	27818807	T	T	27818807	5	4	10	1	0	0	0	0	0	0	1	0	6821	550	19	1	104	1	GSG1L	16	27818807	Splice_Site	SNP	C	TCGA-18-3416-01A-01D-0983-08	4211331	27818807	62535946	427	6463										
NOD2	64127	broad.mit.edu	37	chr16	50744691	50744691	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cacccctggccacctcaatgAcgatgcggacactgtgctgg	11	15	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr16:50744691A>T	uc002egm.1	+	4	974	c.869A>T	c.(868-870)GAC>GTC	p.D290V	NOD2_uc010cbk.1_Missense_Mutation_p.D263V|NOD2_uc002egl.1_Missense_Mutation_p.D68V|NOD2_uc010cbl.1_Missense_Mutation_p.D68V|NOD2_uc010cbm.1_Missense_Mutation_p.D68V|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	290					activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				CACCTCAATGACGATGCGGAC	0.662													7	9	---	---	---	---	PASS	T	50744691	T	T	50744691	3	4	10	1	0	0	0	0	1	0	0	0	10517	275	10	5	883	5	NOD2	16	50744691	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	22925884	50744691	39610062	428	6464										
C16orf57	79650	broad.mit.edu	37	chr16	58036523	58036523	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cttcccccacgagcgaggcaActgggccacccacgtctatg	10	17	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr16:58036523A>G	uc002emz.2	+	2	322	c.239A>G	c.(238-240)AAC>AGC	p.N80S	ZNF319_uc002emx.1_5'Flank|C16orf57_uc010via.1_Missense_Mutation_p.N80S|C16orf57_uc002emy.2_RNA|C16orf57_uc010vib.1_Missense_Mutation_p.N80S|C16orf57_uc010vic.1_Missense_Mutation_p.N29S	NM_024598	NP_078874	Q9BQ65	CP057_HUMAN	hypothetical protein LOC79650	80											0						GAGCGAGGCAACTGGGCCACC	0.592													8	11	---	---	---	---	PASS	G	58036523	G	G	58036523	3	3	10	1	0	0	0	0	1	0	0	0	1821	43	2	5	245	5	C16orf57	16	58036523	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	7291832	58036523	32318230	429	6465										
ZNF23	7571	broad.mit.edu	37	chr16	71487152	71487152	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgtacctcccttaccagtctGgaggccctggaggcctgttc	11	14	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr16:71487152G>T	uc002faf.2	-	5	950	c.136C>A	c.(136-138)CAG>AAG	p.Q46K	ZNF23_uc002fad.2_5'UTR|ZNF23_uc002fae.2_5'UTR|ZNF23_uc010vmf.1_Intron|ZNF23_uc002fag.2_5'UTR|ZNF23_uc002fah.2_Missense_Mutation_p.Q46K|ZNF23_uc002fai.2_Missense_Mutation_p.Q84K	NM_145911	NP_666016	P17027	ZNF23_HUMAN	zinc finger protein 23	46					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(137;0.00768)		BRCA - Breast invasive adenocarcinoma(221;0.0686)		TTACCAGTCTGGAGGCCCTGG	0.488													4	8	---	---	---	---	PASS	T	71487152	T	T	71487152	3	4	10	1	0	0	0	0	1	0	0	0	17780	1357	47	3	1803	3	ZNF23	16	71487152	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	13450629	71487152	18867601	430	6466										
CDYL2	124359	broad.mit.edu	37	chr16	80718954	80718954	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccacgtgtcctcggtgctccCgtagcctttccatcggataa	9	15	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr16:80718954C>G	uc002ffs.2	-	2	202	c.97G>C	c.(97-99)GGG>CGG	p.G33R		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	33	Chromo.					nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						TCGGTGCTCCCGTAGCCTTTC	0.478													34	21	---	---	---	---	PASS	G	80718954	G	G	80718954	3	3	10	1	0	0	0	0	1	0	0	0	3186	652	23	4	1447	4	CDYL2	16	80718954	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	9231802	80718954	9635799	431	6467										
POLR2A	5430	broad.mit.edu	37	chr17	7415644	7415644	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gagatccccaccaatatcccCggcctgggggctgctggacg	13	15	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:7415644C>T	uc002ghf.3	+	26	4707	c.4473C>T	c.(4471-4473)CCC>CCT	p.P1491P		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1491					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				CCAATATCCCCGGCCTGGGGG	0.652													11	6	---	---	---	---	PASS	T	7415644	T	T	7415644	2	4	10	1	0	0	0	0	0	0	0	1	12214	639	23	1		1	POLR2A	17	7415644	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08		7415644	73779566	432	6468										
TP53	7157	broad.mit.edu	37	chr17	7577550	7577550	+	Frame_Shift_Del	DEL	C	-	-													0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgggcctccggttcatgccgCccatgcaggaactgttacac					rs28934572		TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:7577550delC	uc002gim.2	-	7	925	c.731delG	c.(730-732)GGCfs	p.G244fs	TP53_uc002gig.1_Frame_Shift_Del_p.G244fs|TP53_uc002gih.2_Frame_Shift_Del_p.G244fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.G112fs|TP53_uc010cng.1_Frame_Shift_Del_p.G112fs|TP53_uc002gii.1_Frame_Shift_Del_p.G112fs|TP53_uc010cnh.1_Frame_Shift_Del_p.G244fs|TP53_uc010cni.1_Frame_Shift_Del_p.G244fs|TP53_uc002gij.2_Frame_Shift_Del_p.G244fs|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Frame_Shift_Del_p.G151fs|TP53_uc002gio.2_Frame_Shift_Del_p.G112fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	244	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		G -> A (in sporadic cancers; somatic mutation).|G -> S (in sporadic cancers; somatic mutation).|G -> R (in sporadic cancers; somatic mutation).|MG -> IC (in a sporadic cancer; somatic mutation).|G -> E (in a sporadic cancer; somatic mutation).|G -> C (in sporadic cancers; somatic mutation).|MG -> IS (in a sporadic cancer; somatic mutation).|G -> V (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G244S(35)|p.G244C(34)|p.G244D(32)|p.G244V(14)|p.G244G(13)|p.G244A(9)|p.0?(7)|p.G244fs*3(5)|p.G244R(3)|p.M243_G244>IC(1)|p.G244fs*19(1)|p.G244fs*17(1)|p.M243fs*18(1)|p.G244E(1)|p.S241_G245delSCMGG(1)|p.C242fs*98(1)|p.C242_M246>L(1)|p.G244del(1)|p.C238_M246delCNSSCMGGM(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)		GTTCATGCCGCCCATGCAGGA	0.577		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			30	22	---	---	---	---		-	7577550	-	-	7577550	7	5	10	1	0	1	0	1	0	0	0	0	16378	739	26	0	559	0	TP53	17	7577550	Frame_Shift_Del	DEL	C	TCGA-18-3416-01A-01D-0983-08	161906	7577550	73617660	433	6469										
SLC25A35	399512	broad.mit.edu	37	chr17	8193298	8193298	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttgctgagaacttggggactCggttctgtgagggggaaaag	17	5	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:8193298C>A	uc002gku.1	-	5	779	c.734G>T	c.(733-735)CGA>CTA	p.R245L	SLC25A35_uc002gkt.2_Missense_Mutation_p.R245L|RANGRF_uc002gkv.2_3'UTR|RANGRF_uc002gkw.2_3'UTR|RANGRF_uc002gky.2_3'UTR|RANGRF_uc002gkx.2_3'UTR|SLC25A35_uc002gkz.1_RNA	NM_201520	NP_958928	Q3KQZ1	S2535_HUMAN	solute carrier family 25, member 35	Error:Variant_position_missing_in_Q3KQZ1_after_alignment					transport	integral to membrane|mitochondrial inner membrane					0						CTTGGGGACTCGGTTCTGTGA	0.468													5	135	---	---	---	---	PASS	A	8193298	A	A	8193298	3	1	10	1	0	0	0	0	1	0	0	0	14499	884	31	2	161	2	SLC25A35	17	8193298	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	615748	8193298	73001912	434	6470										
MYH13	8735	broad.mit.edu	37	chr17	10215277	10215277	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtctctaactggtccaccacCtcctcataggcattcctcat	5	16	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:10215277C>T	uc002gmk.1	-	32	4572	c.4482G>A	c.(4480-4482)GAG>GAA	p.E1494E		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1494	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GGTCCACCACCTCCTCATAGG	0.532													9	42	---	---	---	---	PASS	T	10215277	T	T	10215277	2	4	10	1	0	0	0	0	0	0	0	1	10032	680	24	3		3	MYH13	17	10215277	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	2021979	10215277	70979933	435	6471										
ZNF624	57547	broad.mit.edu	37	chr17	16526040	16526040	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttacatttaaatggtttctcTccagtatgtgttctttgatg	7	6	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:16526040T>C	uc010cpi.1	-	6	2243	c.2160A>G	c.(2158-2160)GGA>GGG	p.G720G		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	720					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		ATGGTTTCTCTCCAGTATGTG	0.388													34	23	---	---	---	---	PASS	C	16526040	C	C	16526040	2	2	10	1	0	0	0	0	0	0	0	1	18045	1538	54	5		5	ZNF624	17	16526040	Silent	SNP	T	TCGA-18-3416-01A-01D-0983-08	6310763	16526040	64669170	436	6472										
EVI2B	2124	broad.mit.edu	37	chr17	29632186	29632186	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctggacagatgatgattgttGagtaaaagtatagacaaatg	11	3	0	5			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:29632186G>T	uc002hgk.2	-	2	597	c.442C>A	c.(442-444)CAA>AAA	p.Q148K	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2B_uc010csq.2_Missense_Mutation_p.Q163K	NM_006495	NP_006486	P34910	EVI2B_HUMAN	ecotropic viral integration site 2B precursor	148	Extracellular (Potential).					cytoplasm|integral to plasma membrane				ovary(2)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;6.88e-13)|Epithelial(4;8.95e-12)|OV - Ovarian serous cystadenocarcinoma(4;1.01e-11)|GBM - Glioblastoma multiforme(4;0.184)		GATGATTGTTGAGTAAAAGTA	0.433													6	131	---	---	---	---	PASS	T	29632186	T	T	29632186	3	4	10	1	0	0	0	0	1	0	0	0	5288	1299	45	2	908	2	EVI2B	17	29632186	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	13106146	29632186	51563024	437	6473										
KRTAP3-1	83896	broad.mit.edu	37	chr17	39165091	39165091	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cataggtggtcaggttgatcCcactcagtccgggagtcggg	15	10	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:39165091C>G	uc002hvt.1	-	1	276	c.236G>C	c.(235-237)GGG>GCG	p.G79A		NM_031958	NP_114164	Q9BYR8	KRA31_HUMAN	keratin associated protein 3.1	79						keratin filament	structural molecule activity				0		Breast(137;0.00043)				CAGGTTGATCCCACTCAGTCC	0.597													3	7	---	---	---	---	PASS	G	39165091	G	G	39165091	3	3	10	1	0	0	0	0	1	0	0	0	8545	623	22	4	64	4	KRTAP3-1	17	39165091	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	9532905	39165091	42030119	438	6474										
KRTAP4-5	85289	broad.mit.edu	37	chr17	39305582	39305582	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cggccacagactggacgcacGcagcagcaggggcggcagca	16	14	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:39305582G>T	uc002hwb.2	-	1	473	c.438C>A	c.(436-438)TGC>TGA	p.C146*		NM_033188	NP_149445	Q9BYR2	KRA45_HUMAN	keratin associated protein 4-5	151	27 X 5 AA repeats of C-C-[GRQVCHIEK]- [SPTR]-[VSTQYC].|27.					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			CTGGACGCACgcagcagcagg	0.378													3	9	---	---	---	---	PASS	T	39305582	T	T	39305582	4	4	10	1	0	0	0	0	0	1	0	0	8554	1079	38	1	111	1	KRTAP4-5	17	39305582	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	140491	39305582	41889628	439	6475										
CDC27	996	broad.mit.edu	37	chr17	45219285	45219285	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agtacccaaccagtattgtaGtggtgagaaggtagatggct	13	6	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:45219285G>C	uc002ild.3	-	12	1612	c.1485C>G	c.(1483-1485)CAC>CAG	p.H495Q	CDC27_uc002ile.3_Missense_Mutation_p.H501Q|CDC27_uc002ilf.3_Missense_Mutation_p.H494Q|CDC27_uc010wkp.1_Missense_Mutation_p.H434Q|CDC27_uc010wkq.1_Intron	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2	495					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5						CAGTATTGTAGTGGTGAGAAG	0.373													7	188	---	---	---	---	PASS	C	45219285	C	C	45219285	3	2	10	1	0	0	0	0	1	0	0	0	3066	1020	36	4	1021	4	CDC27	17	45219285	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	5913703	45219285	35975925	440	6476										
CACNA1G	8913	broad.mit.edu	37	chr17	48704077	48704077	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aagatgtgctgagtctctccGgtttatcctctgacccagca	9	12	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:48704077G>A	uc002irk.1	+	38	7471	c.7099G>A	c.(7099-7101)GGT>AGT	p.G2367S	CACNA1G_uc002irj.1_Missense_Mutation_p.G2161S|CACNA1G_uc002irl.1_Missense_Mutation_p.G2251S|CACNA1G_uc002irm.1_Missense_Mutation_p.G2288S|CACNA1G_uc002irn.1_Missense_Mutation_p.G2233S|CACNA1G_uc002iro.1_Missense_Mutation_p.G2240S|CACNA1G_uc002irp.1_Missense_Mutation_p.G2322S|CACNA1G_uc002irq.1_Missense_Mutation_p.G2344S|CACNA1G_uc002irr.1_Missense_Mutation_p.G2274S|CACNA1G_uc002irs.1_Missense_Mutation_p.G2311S|CACNA1G_uc002irt.1_Missense_Mutation_p.G2256S|CACNA1G_uc002irv.1_Missense_Mutation_p.G2263S|CACNA1G_uc002irw.1_Missense_Mutation_p.G2296S|CACNA1G_uc002iru.1_Missense_Mutation_p.G2333S|CACNA1G_uc002irx.1_Missense_Mutation_p.G2108S|CACNA1G_uc002iry.1_Missense_Mutation_p.G2097S|CACNA1G_uc002irz.1_Missense_Mutation_p.G2180S|CACNA1G_uc002isa.1_Missense_Mutation_p.G2153S|CACNA1G_uc002isb.1_Missense_Mutation_p.G2194S|CACNA1G_uc002isc.1_Missense_Mutation_p.G2269S|CACNA1G_uc002isd.1_Missense_Mutation_p.G2162S|CACNA1G_uc002ise.1_Missense_Mutation_p.G2190S|CACNA1G_uc002isf.1_Missense_Mutation_p.G2217S|CACNA1G_uc002isg.1_Missense_Mutation_p.G2135S|CACNA1G_uc002ish.1_Missense_Mutation_p.G2142S|CACNA1G_uc002isi.1_Missense_Mutation_p.G2130S	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	2367	Cytoplasmic (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GAGTCTCTCCGGTTTATCCTC	0.622											OREG0024569	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	99	---	---	---	---	PASS	A	48704077	A	A	48704077	3	1	10	1	0	0	0	0	1	0	0	0	2544	1116	39	1	7516	1	CACNA1G	17	48704077	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	3484792	48704077	32491133	441	6477										
ANKFN1	162282	broad.mit.edu	37	chr17	54451996	54451996	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccaaccaatgtctgtctcatGgtaaccagcagcacatcact	6	14	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:54451996G>T	uc002iun.1	+	7	875	c.840G>T	c.(838-840)ATG>ATT	p.M280I		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	280	Fibronectin type-III.									large_intestine(1)|ovary(1)	2						TCTGTCTCATGGTAACCAGCA	0.468													8	192	---	---	---	---	PASS	T	54451996	T	T	54451996	3	4	10	1	0	0	0	0	1	0	0	0	625	1348	47	3	866	3	ANKFN1	17	54451996	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	5747919	54451996	26743214	442	6478										
MPO	4353	broad.mit.edu	37	chr17	56350171	56350171	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcaggtccagcccaatcctcAtgacctgctcaaacaatcgc	7	16	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:56350171A>T	uc002ivu.1	-	10	1907	c.1730T>A	c.(1729-1731)ATG>AAG	p.M577K		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	577					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	CCCAATCCTCATGACCTGCTC	0.617													29	61	---	---	---	---	PASS	T	56350171	T	T	56350171	3	4	10	1	0	0	0	0	1	0	0	0	9732	217	8	5	519	5	MPO	17	56350171	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	1898175	56350171	24845039	443	6479										
STRADA	92335	broad.mit.edu	37	chr17	61788144	61788144	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgtctgcaataaaagtggctCgatatggcacgatattggga	12	6	1	0	rs141081057		TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:61788144C>A	uc002jbm.2	-	7	560	c.401G>T	c.(400-402)CGA>CTA	p.R134L	STRADA_uc002jbn.2_Missense_Mutation_p.R76L|STRADA_uc002jbo.2_Missense_Mutation_p.R97L|STRADA_uc002jbp.2_Missense_Mutation_p.R97L|STRADA_uc002jbq.2_Missense_Mutation_p.R76L|STRADA_uc010wpq.1_Missense_Mutation_p.R90L|STRADA_uc010wpr.1_Missense_Mutation_p.R105L|STRADA_uc010ddw.2_Missense_Mutation_p.R105L|STRADA_uc002jbr.2_Missense_Mutation_p.R76L	NM_001003787	NP_001003787	Q7RTN6	STRAA_HUMAN	STE20-related kinase adaptor alpha isoform 1	134	Protein kinase.				activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|kinase binding|protein kinase activity			ovary(1)	1						AAAAGTGGCTCGATATGGCAC	0.478													4	59	---	---	---	---	PASS	A	61788144	A	A	61788144	3	1	10	1	0	0	0	0	1	0	0	0	15323	884	31	2	980	2	STRADA	17	61788144	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	5437973	61788144	19407066	444	6480										
DDX42	11325	broad.mit.edu	37	chr17	61885120	61885120	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	taagtggtagagacatgattGgtattgccaaaacaggtagt	12	4	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:61885120G>T	uc002jbu.2	+	10	1140	c.883G>T	c.(883-885)GGT>TGT	p.G295C	DDX42_uc002jbv.2_Missense_Mutation_p.G295C|DDX42_uc002jbw.1_Missense_Mutation_p.G31C|DDX42_uc002jbx.2_Missense_Mutation_p.G31C	NM_007372	NP_031398	Q86XP3	DDX42_HUMAN	DEAD box polypeptide 42 protein	295	Helicase ATP-binding.				protein localization|regulation of anti-apoptosis	Cajal body|cytoplasm|nuclear speck	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)|large_intestine(1)	5						AGACATGATTGGTATTGCCAA	0.403													7	157	---	---	---	---	PASS	T	61885120	T	T	61885120	3	4	10	1	0	0	0	0	1	0	0	0	4362	1348	47	3	913	3	DDX42	17	61885120	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	96976	61885120	19310090	445	6481										
BPTF	2186	broad.mit.edu	37	chr17	65918974	65918974	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agaaacgcctacacctcagaGgaaaggccttcgatcaagtg	10	11	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:65918974G>T	uc002jgf.2	+	14	5637	c.5576G>T	c.(5575-5577)AGG>ATG	p.R1859M	BPTF_uc002jge.2_Missense_Mutation_p.R1985M	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1985					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			ACACCTCAGAGGAAAGGCCTT	0.413													6	113	---	---	---	---	PASS	T	65918974	T	T	65918974	3	4	10	1	0	0	0	0	1	0	0	0	1495	1000	35	3	6016	3	BPTF	17	65918974	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	4033854	65918974	15276236	446	6482										
KCNJ2	3759	broad.mit.edu	37	chr17	68171272	68171272	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggcagttgcaaatggctttgGgaacgggaagagtaaagtcc	15	6	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:68171272G>T	uc010dfg.2	+	2	493	c.92G>T	c.(91-93)GGG>GTG	p.G31V	KCNJ2_uc002jir.2_Missense_Mutation_p.G31V	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	31	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					AATGGCTTTGGGAACGGGAAG	0.512													5	60	---	---	---	---	PASS	T	68171272	T	T	68171272	3	4	10	1	0	0	0	0	1	0	0	0	8051	1232	43	3	94	3	KCNJ2	17	68171272	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	2252298	68171272	13023938	447	6483										
AATK	9625	broad.mit.edu	37	chr17	79094857	79094857	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccagctccgcaaaggcctggGgctcacacccttcctgcgcc	10	19	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:79094857G>T	uc010dia.2	-	11	2959	c.2879C>A	c.(2878-2880)CCC>CAC	p.P960H	AATK_uc010dhz.2_Intron	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	960						integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			AAAGGCCTGGGGCTCACACCC	0.647													8	3	---	---	---	---	PASS	T	79094857	T	T	79094857	3	4	10	1	0	0	0	0	1	0	0	0	26	1232	43	3	1261	3	AATK	17	79094857	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	10923585	79094857	2100353	448	6484										
AZI1	22994	broad.mit.edu	37	chr17	79163715	79163715	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggctggccacagggactcacCtcatgttgtgtccggaggct	14	12	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr17:79163715C>A	uc002jzp.1	-	25	3377	c.3177G>T	c.(3175-3177)GAG>GAT	p.E1059D	AZI1_uc002jzm.1_Missense_Mutation_p.E491D|AZI1_uc002jzn.1_Missense_Mutation_p.E1056D|AZI1_uc002jzo.1_Missense_Mutation_p.E1020D|AZI1_uc010wum.1_Missense_Mutation_p.E1023D|AZI1_uc002jzq.2_Missense_Mutation_p.E207D	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	1059					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			AGGGACTCACCTCATGTTGTG	0.672													18	9	---	---	---	---	PASS	A	79163715	A	A	79163715	3	1	10	1	0	0	0	0	1	0	0	0	1240	695	24	3	82	3	AZI1	17	79163715	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	68858	79163715	2031495	449	6485										
MYOM1	8736	broad.mit.edu	37	chr18	3215013	3215013	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cgtgctgcgaggcctgctgcTgggaggaggaggcggacgcc	20	11	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr18:3215013T>A	uc002klp.2	-	2	543	c.209A>T	c.(208-210)CAG>CTG	p.Q70L	MYOM1_uc002klq.2_Missense_Mutation_p.Q70L	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	70						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GGCCTGCTGCTGGGAGGAGGA	0.692													12	12	---	---	---	---	PASS	A	3215013	A	A	3215013	3	1	10	1	0	0	0	0	1	0	0	0	10091	1580	55	5	4996	5	MYOM1	18	3215013	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08		3215013	74862235	450	6486										
ATP5A1	498	broad.mit.edu	37	chr18	43666187	43666187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggcaaaagcagcaacctcacGatactgagccaattccagct	8	13	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr18:43666187G>T	uc002lbr.1	-	10	1411	c.1321C>A	c.(1321-1323)CGT>AGT	p.R441S	ATP5A1_uc010dnl.1_Missense_Mutation_p.R391S|ATP5A1_uc002lbs.1_Missense_Mutation_p.R391S|ATP5A1_uc002lbt.1_Missense_Mutation_p.R441S	NM_004046	NP_004037	P25705	ATPA_HUMAN	ATP synthase, H+ transporting, mitochondrial F1	441					ATP hydrolysis coupled proton transport|embryo development|lipid metabolic process|negative regulation of endothelial cell proliferation|respiratory electron transport chain	mitochondrial matrix|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism				0						GCAACCTCACGATACTGAGCC	0.458													4	56	---	---	---	---	PASS	T	43666187	T	T	43666187	3	4	10	1	0	0	0	0	1	0	0	0	1147	1058	37	2	352	2	ATP5A1	18	43666187	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	40451174	43666187	34411061	451	6487										
KATNAL2	83473	broad.mit.edu	37	chr18	44595926	44595926	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttctttaacatttctgcatcCaccattgtcagcaaatggag	6	10	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr18:44595926C>A	uc002lco.2	+	10	941	c.747C>A	c.(745-747)TCC>TCA	p.S249S	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lcp.3_Silent_p.S176S	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2	321						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						TTTCTGCATCCACCATTGTCA	0.373													5	48	---	---	---	---	PASS	A	44595926	A	A	44595926	2	1	10	1	0	0	0	0	0	0	0	1	7986	581	21	3		3	KATNAL2	18	44595926	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	929739	44595926	33481322	452	6488										
MBD1	4152	broad.mit.edu	37	chr18	47799296	47799296	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tctgggtcaggtggctcttgCttcacagaaggcaggcctgg	15	10	4	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr18:47799296C>T	uc010dow.1	-	14	2051	c.1614G>A	c.(1612-1614)AAG>AAA	p.K538K	MBD1_uc002lef.2_Silent_p.K243K|MBD1_uc002leg.2_Silent_p.K488K|MBD1_uc010xdi.1_Silent_p.K589K|MBD1_uc002leh.3_Silent_p.K482K|MBD1_uc002len.2_Silent_p.K492K|MBD1_uc002lei.3_Silent_p.K538K|MBD1_uc002lej.3_Silent_p.K436K|MBD1_uc002lek.3_Silent_p.K489K|MBD1_uc002lel.3_Silent_p.K469K|MBD1_uc002lem.3_Silent_p.K538K|MBD1_uc010xdj.1_Silent_p.K436K|MBD1_uc010xdk.1_Silent_p.K563K|MBD1_uc010dox.1_Silent_p.K469K|MBD1_uc002leo.2_Silent_p.K492K	NM_015846	NP_056671	Q9UIS9	MBD1_HUMAN	methyl-CpG binding domain protein 1 isoform 1	538	TRD.			K->A: Abolishes sumoylation; when associated with A-499.	negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|nuclear speck	methyl-CpG binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GTGGCTCTTGCTTCACAGAAG	0.562													19	32	---	---	---	---	PASS	T	47799296	T	T	47799296	2	4	10	1	0	0	0	0	0	0	0	1	9342	796	28	3		3	MBD1	18	47799296	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	3203370	47799296	30277952	453	6489										
ZNF236	7776	broad.mit.edu	37	chr18	74649197	74649197	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagaacctggtcatgtcctcGtcgggcgtgggaggtgacgc	16	11	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr18:74649197G>T	uc002lmi.2	+	26	4872	c.4674G>T	c.(4672-4674)TCG>TCT	p.S1558S	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1558					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TCATGTCCTCGTCGGGCGTGG	0.542													31	23	---	---	---	---	PASS	T	74649197	T	T	74649197	2	4	10	1	0	0	0	0	0	0	0	1	17786	1132	40	1		1	ZNF236	18	74649197	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	26849901	74649197	3428051	454	6490										
PIAS4	51588	broad.mit.edu	37	chr19	4012940	4012940	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaacatggtgatgagttttcGagtctccgaccttcagatgc	11	9	2	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:4012940G>T	uc002lzg.2	+	2	57	c.47G>T	c.(46-48)CGA>CTA	p.R16L		NM_015897	NP_056981	Q8N2W9	PIAS4_HUMAN	protein inhibitor of activated STAT, 4	16	SAP.				positive regulation of protein sumoylation|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|PML body	DNA binding|SUMO ligase activity|ubiquitin protein ligase binding|zinc ion binding			pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		ATGAGTTTTCGAGTCTCCGAC	0.597													5	68	---	---	---	---	PASS	T	4012940	T	T	4012940	3	4	10	1	0	0	0	0	1	0	0	0	11878	1058	37	2	53	2	PIAS4	19	4012940	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08		4012940	55116043	455	6491										
SEMA6B	10501	broad.mit.edu	37	chr19	4552448	4552448	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gctgacctgttgctgggcgtGgaaaaaacggccaggaccac	14	11	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:4552448G>T	uc010duc.1	-	9	1013	c.975C>A	c.(973-975)TCC>TCA	p.S325S	SEMA6B_uc010dud.2_Silent_p.S325S|SEMA6B_uc010xih.1_Silent_p.S325S	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	325	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		TGCTGGGCGTGGAAAAAACGG	0.617													3	6	---	---	---	---	PASS	T	4552448	T	T	4552448	2	4	10	1	0	0	0	0	0	0	0	1	14040	1335	47	3		3	SEMA6B	19	4552448	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	539508	4552448	54576535	456	6492										
MLLT1	4298	broad.mit.edu	37	chr19	6222149	6222149	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cacctcggacttgaaggaggCctcgtcctctgagttggact	12	12	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:6222149C>A	uc002mek.2	-	6	1257	c.1093G>T	c.(1093-1095)GCC>TCC	p.A365S		NM_005934	NP_005925	Q03111	ENL_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	365					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|protein binding			skin(1)	1						TTGAAGGAGGCCTCGTCCTCT	0.587			T	MLL	AL								6	6	---	---	---	---	PASS	A	6222149	A	A	6222149	3	1	10	1	0	0	0	0	1	0	0	0	9625	739	26	3	614	3	MLLT1	19	6222149	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1669701	6222149	52906834	457	6493										
EMR1	2015	broad.mit.edu	37	chr19	6906479	6906479	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtaaggaagatgtgatacccGataataagcagatccagcaa	10	7	0	3	rs151096072		TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:6906479G>T	uc002mfw.2	+	9	1023	c.985G>T	c.(985-987)GAT>TAT	p.D329Y	EMR1_uc010dvc.2_Missense_Mutation_p.D329Y|EMR1_uc010dvb.2_Missense_Mutation_p.D277Y|EMR1_uc010xji.1_Missense_Mutation_p.D188Y|EMR1_uc010xjj.1_Missense_Mutation_p.D152Y	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	329	Ser/Thr-rich.|Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					TGTGATACCCGATAATAAGCA	0.393													27	45	---	---	---	---	PASS	T	6906479	T	T	6906479	3	4	10	1	0	0	0	0	1	0	0	0	5104	1058	37	2	1019	2	EMR1	19	6906479	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	684330	6906479	52222504	458	6494										
ELAVL1	1994	broad.mit.edu	37	chr19	8045966	8045966	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtggtgatcagatccctttaCcttaatggtttttgactgga	10	7	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:8045966C>A	uc002mjb.2	-	3	443	c.276_splice	c.e3+1	p.K92_splice		NM_001419	NP_001410	Q15717	ELAV1_HUMAN	ELAV-like 1						3'-UTR-mediated mRNA stabilization|multicellular organismal development	cytoplasm|nucleoplasm	identical protein binding|mRNA binding|nucleotide binding				0						GATCCCTTTACCTTAATGGTT	0.557													16	16	---	---	---	---	PASS	A	8045966	A	A	8045966	5	1	10	1	0	0	0	0	0	0	1	0	5049	521	18	3	719	3	ELAVL1	19	8045966	Splice_Site	SNP	C	TCGA-18-3416-01A-01D-0983-08	1139487	8045966	51083017	459	6495										
FBN3	84467	broad.mit.edu	37	chr19	8156451	8156451	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gccaaagaggcagaggttggGctcctctgagcactcgtcga	14	11	1	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:8156451G>A	uc002mjf.2	-	47	5950	c.5929C>T	c.(5929-5931)CCC>TCC	p.P1977S	FBN3_uc002mje.2_5'Flank	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1977	EGF-like 32; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CAGAGGTTGGGCTCCTCTGAG	0.592													25	43	---	---	---	---	PASS	A	8156451	A	A	8156451	3	1	10	1	0	0	0	0	1	0	0	0	5704	1203	42	3	2568	3	FBN3	19	8156451	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	110485	8156451	50972532	460	6496										
FBN3	84467	broad.mit.edu	37	chr19	8161784	8161784	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cccacacaagccccgcctggCgacagtttgtaccctcgggt	10	17	0	0	rs80293030	byFrequency	TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:8161784C>G	uc002mjf.2	-	42	5415	c.5394G>C	c.(5392-5394)TCG>TCC	p.S1798S		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1798	EGF-like 27; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CCCCGCCTGGCGACAGTTTGT	0.617													12	37	---	---	---	---	PASS	G	8161784	G	G	8161784	2	3	10	1	0	0	0	0	0	0	0	1	5704	755	27	4		4	FBN3	19	8161784	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	5333	8161784	50967199	461	6497										
MUC16	94025	broad.mit.edu	37	chr19	9061578	9061578	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	acgtggctaatatttcagctGaggtgctgctcaaatttgga	11	7	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:9061578G>T	uc002mkp.2	-	3	26072	c.25868C>A	c.(25867-25869)TCA>TAA	p.S8623*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8625	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TATTTCAGCTGAGGTGCTGCT	0.458													5	79	---	---	---	---	PASS	T	9061578	T	T	9061578	4	4	10	1	0	0	0	0	0	1	0	0	9973	1294	45	2	17983	2	MUC16	19	9061578	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	899794	9061578	50067405	462	6498										
MUC16	94025	broad.mit.edu	37	chr19	9089069	9089069	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agctctgagctcactcactaGgtgggatgaagagaactgag	13	8	3	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:9089069G>C	uc002mkp.2	-	1	2950	c.2746C>G	c.(2746-2748)CTA>GTA	p.L916V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	916	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCACTCACTAGGTGGGATGAA	0.522													6	28	---	---	---	---	PASS	C	9089069	C	C	9089069	3	2	10	1	0	0	0	0	1	0	0	0	9973	991	35	4	41113	4	MUC16	19	9089069	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	27491	9089069	50039914	463	6499										
ZNF443	10224	broad.mit.edu	37	chr19	12541030	12541030	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcaaatgctttcccacattcCttacattcatatgggttctc	5	12	2	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:12541030C>A	uc002mtu.2	-	4	2154	c.1956G>T	c.(1954-1956)AAG>AAT	p.K652N		NM_005815	NP_005806	Q9Y2A4	ZN443_HUMAN	zinc finger protein 443	652	C2H2-type 19.				induction of apoptosis|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						TCCCACATTCCTTACATTCAT	0.383													5	63	---	---	---	---	PASS	A	12541030	A	A	12541030	3	1	10	1	0	0	0	0	1	0	0	0	17913	680	24	3	63	3	ZNF443	19	12541030	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	3451961	12541030	46587953	464	6500										
TNPO2	30000	broad.mit.edu	37	chr19	12830132	12830132	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gttgttgaagtcaggaaactGattgagttgtttgagtttct	12	3	2	4			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:12830132G>C	uc002muo.2	-	3	303	c.118C>G	c.(118-120)CAG>GAG	p.Q40E	TNPO2_uc002mup.2_Missense_Mutation_p.Q132E|TNPO2_uc002muq.2_Missense_Mutation_p.Q40E|TNPO2_uc002mur.2_Missense_Mutation_p.Q40E	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	40	Importin N-terminal.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						TCAGGAAACTGATTGAGTTGT	0.512													7	27	---	---	---	---	PASS	C	12830132	C	C	12830132	3	2	10	1	0	0	0	0	1	0	0	0	16333	1299	45	2	2663	2	TNPO2	19	12830132	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	289102	12830132	46298851	465	6501										
CACNA1A	773	broad.mit.edu	37	chr19	13397689	13397689	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gttgtcaatatcctctgccaGgggtgggtcttggcggccca	14	11	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:13397689G>C	uc010dze.2	-	20	3420	c.3184C>G	c.(3184-3186)CTG>GTG	p.L1062V	CACNA1A_uc010dzc.2_Missense_Mutation_p.L587V|CACNA1A_uc002mwy.3_Missense_Mutation_p.L1061V|CACNA1A_uc010xne.1_Missense_Mutation_p.L590V	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1062	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	TCCTCTGCCAGGGGTGGGTCT	0.672													8	11	---	---	---	---	PASS	C	13397689	C	C	13397689	3	2	10	1	0	0	0	0	1	0	0	0	2538	991	35	4	4553	4	CACNA1A	19	13397689	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	567557	13397689	45731294	466	6502										
WIZ	58525	broad.mit.edu	37	chr19	15535691	15535691	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggcgcccaccttctggggccGgtgtttgatccactcgctca	12	15	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:15535691G>T	uc002nbc.2	-	6	2307	c.2284C>A	c.(2284-2286)CGG>AGG	p.R762R	WIZ_uc002nba.3_Silent_p.R629R|WIZ_uc002nbb.3_Silent_p.R588R	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	1445						nucleus	zinc ion binding				0						TTCTGGGGCCGGTGTTTGATC	0.667													3	4	---	---	---	---	PASS	T	15535691	T	T	15535691	2	4	10	1	0	0	0	0	0	0	0	1	17372	1115	39	1		1	WIZ	19	15535691	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	2138002	15535691	43593292	467	6503										
EPS15L1	58513	broad.mit.edu	37	chr19	16506271	16506271	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	acaaggctttatttttgaaaGgatcatcctacaattttgtg	7	6	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:16506271G>C	uc002ndz.1	-	17	1805	c.1799C>G	c.(1798-1800)CCT>CGT	p.P600R	EPS15L1_uc002ndx.2_Missense_Mutation_p.P600R|EPS15L1_uc002ndy.2_RNA|EPS15L1_uc010xpe.1_Missense_Mutation_p.P490R|EPS15L1_uc010xpf.1_Missense_Mutation_p.P503R|EPS15L1_uc002nea.1_Missense_Mutation_p.P600R|EPS15L1_uc010eah.1_Missense_Mutation_p.P602R	NM_021235	NP_067058	Q9UBC2	EP15R_HUMAN	epidermal growth factor receptor pathway	600					endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|nucleus|plasma membrane	calcium ion binding			ovary(3)|skin(2)	5						ATTTTTGAAAGGATCATCCTA	0.373													22	100	---	---	---	---	PASS	C	16506271	C	C	16506271	3	2	10	1	0	0	0	0	1	0	0	0	5193	1000	35	4	823	4	EPS15L1	19	16506271	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	970580	16506271	42622712	468	6504										
JAK3	3718	broad.mit.edu	37	chr19	17949144	17949144	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tattgggattggggctgaacCaaggatgatgtgggtgggct	18	4	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:17949144C>A	uc002nhn.3	-	11	1597	c.1497G>T	c.(1495-1497)TTG>TTT	p.L499F	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Missense_Mutation_p.L499F|JAK3_uc010xpx.1_3'UTR	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	499					B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						GGGGCTGAACCAAGGATGATG	0.517		2	Mis		acute megakaryocytic leukemia|								6	102	---	---	---	---	PASS	A	17949144	A	A	17949144	3	1	10	1	0	0	0	0	1	0	0	0	7939	593	21	3	1933	3	JAK3	19	17949144	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	1442873	17949144	41179839	469	6505										
ZNF486	90649	broad.mit.edu	37	chr19	20308008	20308008	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggtaaatatgtgaaagtcttTcatcaattttcaaattcaaa	5	5	5	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:20308008T>C	uc002nou.2	+	4	546	c.489T>C	c.(487-489)TTT>TTC	p.F163F		NM_052852	NP_443084	Q96H40	ZN486_HUMAN	zinc finger protein 486	163	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGAAAGTCTTTCATCAATTTT	0.313													17	64	---	---	---	---	PASS	C	20308008	C	C	20308008	2	2	10	1	0	0	0	0	0	0	0	1	17936	1780	62	5		5	ZNF486	19	20308008	Silent	SNP	T	TCGA-18-3416-01A-01D-0983-08	2358864	20308008	38820975	470	6506										
ZNF208	7757	broad.mit.edu	37	chr19	22154698	22154698	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccagcatgagttgccttatgTtcagtaaggcttgagggcca	12	9	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:22154698T>A	uc002nqp.2	-	6	2903	c.2754A>T	c.(2752-2754)GAA>GAT	p.E918D	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTGCCTTATGTTCAGTAAGGC	0.438													42	62	---	---	---	---	PASS	A	22154698	A	A	22154698	3	1	10	1	0	0	0	0	1	0	0	0	17763	1722	60	5	708	5	ZNF208	19	22154698	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	1846690	22154698	36974285	471	6507										
ZNF99	7652	broad.mit.edu	37	chr19	22939259	22939259	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cacactcttcacatttgtagGgtttctttccagtatgaatt	6	9	3	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:22939259G>C	uc010xrh.1	-	7	2912	c.2912C>G	c.(2911-2913)CCC>CGC	p.P971R		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)				ACATTTGTAGGGTTTCTTTCC	0.373													10	22	---	---	---	---	PASS	C	22939259	C	C	22939259	3	2	10	1	0	0	0	0	1	0	0	0	18201	1232	43	4	204	4	ZNF99	19	22939259	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	784561	22939259	36189724	472	6508										
ZNF114	163071	broad.mit.edu	37	chr19	48789340	48789340	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agacaatgtatcctaacacgTgactcaagtattttcaagta	6	8	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:48789340T>A	uc002pil.1	+	6	956	c.459T>A	c.(457-459)CGT>CGA	p.R153R	ZNF114_uc010elv.1_Silent_p.R153R|ZNF114_uc002pim.1_Silent_p.R153R|ZNF114_uc002pin.2_Silent_p.R119R	NM_153608	NP_705836	Q8NC26	ZN114_HUMAN	zinc finger protein 114	153					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_epithelial(76;8.01e-05)|all_lung(116;0.000112)|Lung NSC(112;0.000192)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;7.56e-05)|all cancers(93;0.000113)|Epithelial(262;0.00962)|GBM - Glioblastoma multiforme(486;0.0153)		TCCTAACACGTGACTCAAGTA	0.408													29	29	---	---	---	---	PASS	A	48789340	A	A	48789340	2	1	10	1	0	0	0	0	0	0	0	1	17713	1683	59	5		5	ZNF114	19	48789340	Silent	SNP	T	TCGA-18-3416-01A-01D-0983-08	25850081	48789340	10339643	473	6509										
GPR32	2854	broad.mit.edu	37	chr19	51274370	51274370	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtgtggctcctggccgccgcCttgtgctctgcgcacctgaa	13	15	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:51274370C>T	uc010ycf.1	+	1	513	c.513C>T	c.(511-513)GCC>GCT	p.A171A		NM_001506	NP_001497	O75388	GPR32_HUMAN	G protein-coupled receptor 32	171	Helical; Name=4; (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		TGGCCGCCGCCTTGTGCTCTG	0.592													12	18	---	---	---	---	PASS	T	51274370	T	T	51274370	2	4	10	1	0	0	0	0	0	0	0	1	6688	668	24	3		3	GPR32	19	51274370	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	2485030	51274370	7854613	474	6510										
KLK6	5653	broad.mit.edu	37	chr19	51470440	51470440	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctcacggttttttgcagtggGcagctgtgaggacccacagt	13	10	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:51470440G>C	uc002pui.2	-	4	442	c.182C>G	c.(181-183)GCC>GGC	p.A61G	KLK6_uc010eoj.2_Missense_Mutation_p.A61G|KLK6_uc002puh.2_Missense_Mutation_p.A70G|KLK6_uc002puj.2_5'UTR|KLK6_uc010ycn.1_Intron|KLK6_uc002pul.2_Missense_Mutation_p.A61G|KLK6_uc002pum.2_Intron	NM_001012964	NP_001012982	Q92876	KLK6_HUMAN	kallikrein-related peptidase 6 isoform A	61	Peptidase S1.				amyloid precursor protein metabolic process|central nervous system development|collagen catabolic process|hormone metabolic process|myelination|positive regulation of G-protein coupled receptor protein signaling pathway|protein autoprocessing|proteolysis|regulation of cell differentiation|tissue regeneration	endoplasmic reticulum|extracellular region|microsome|mitochondrion|nucleolus	protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00372)|GBM - Glioblastoma multiforme(134;0.00871)		TTTGCAGTGGGCAGCTGTGAG	0.537													15	12	---	---	---	---	PASS	C	51470440	C	C	51470440	3	2	10	1	0	0	0	0	1	0	0	0	8408	1203	42	4	568	4	KLK6	19	51470440	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	196070	51470440	7658543	475	6511										
ZNF813	126017	broad.mit.edu	37	chr19	53994668	53994668	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgtggcaagaccttcagtcaGgagttaacccttaaatgcca	9	10	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:53994668G>A	uc002qbu.2	+	4	1310	c.1182G>A	c.(1180-1182)CAG>CAA	p.Q394Q	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	394	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		CCTTCAGTCAGGAGTTAACCC	0.418													12	52	---	---	---	---	PASS	A	53994668	A	A	53994668	2	1	10	1	0	0	0	0	0	0	0	1	18172	991	35	3		3	ZNF813	19	53994668	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	2524228	53994668	5134315	476	6512										
ZNF667	63934	broad.mit.edu	37	chr19	56952833	56952833	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atgttgggcgaggtgtgcacTctggctgaaggccttcccac	14	11	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:56952833T>A	uc002qnd.2	-	5	1693	c.1531A>T	c.(1531-1533)AGT>TGT	p.S511C	ZNF667_uc010etl.2_Missense_Mutation_p.S293C|ZNF667_uc002qne.2_Missense_Mutation_p.S511C|ZNF667_uc010etm.2_Missense_Mutation_p.S454C	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	511	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		AGGTGTGCACTCTGGCTGAAG	0.448													19	13	---	---	---	---	PASS	A	56952833	A	A	56952833	3	1	10	1	0	0	0	0	1	0	0	0	18071	1551	54	5	305	5	ZNF667	19	56952833	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	2958165	56952833	2176150	477	6513										
ZSCAN4	201516	broad.mit.edu	37	chr19	58187556	58187556	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tatttcagtgtgaaccatccGagaataatcttggatcagaa	8	7	3	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr19:58187556G>T	uc002qpu.2	+	3	740	c.43G>T	c.(43-45)GAG>TAG	p.E15*		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	15					telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGAACCATCCGAGAATAATCT	0.393													4	53	---	---	---	---	PASS	T	58187556	T	T	58187556	4	4	10	1	0	0	0	0	0	1	0	0	18234	1059	37	2	45	2	ZSCAN4	19	58187556	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1234723	58187556	941427	478	6514										
TMC2	117532	broad.mit.edu	37	chr20	2597739	2597739	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	atgggctccttctatgctccAggcctggtgggcattaatgt	12	10	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr20:2597739A>T	uc002wgf.1	+	16	1977	c.1962A>T	c.(1960-1962)CCA>CCT	p.P654P	TMC2_uc002wgg.1_Silent_p.P638P	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	654	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						TCTATGCTCCAGGCCTGGTGG	0.567													18	16	---	---	---	---	PASS	T	2597739	T	T	2597739	2	4	10	1	0	0	0	0	0	0	0	1	15982	175	7	5		5	TMC2	20	2597739	Silent	SNP	A	TCGA-18-3416-01A-01D-0983-08		2597739	60427781	479	6515										
BMP2	650	broad.mit.edu	37	chr20	6759229	6759229	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gccaaccatggattcgtggtGgaagtggcccacttggagga	15	9	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr20:6759229G>T	uc002wmu.1	+	3	1469	c.684G>T	c.(682-684)GTG>GTT	p.V228V		NM_001200	NP_001191	P12643	BMP2_HUMAN	bone morphogenetic protein 2 preproprotein	228					BMP signaling pathway involved in heart induction|bone mineralization involved in bone maturation|cardiac cell differentiation|cardiac epithelial to mesenchymal transition|cartilage development|growth|negative regulation of cell cycle|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|pathway-restricted SMAD protein phosphorylation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cartilage development|positive regulation of endothelial cell proliferation|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of phosphatase activity|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	activin receptor activity, type II|BMP receptor binding|cytokine activity|growth factor activity|phosphatase activator activity|protein heterodimerization activity|SMAD binding|transforming growth factor beta receptor binding			ovary(1)|breast(1)	2					Simvastatin(DB00641)	GATTCGTGGTGGAAGTGGCCC	0.522													4	18	---	---	---	---	PASS	T	6759229	T	T	6759229	2	4	10	1	0	0	0	0	0	0	0	1	1459	1335	47	3		3	BMP2	20	6759229	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	4161490	6759229	56266291	480	6516										
DTD1	92675	broad.mit.edu	37	chr20	18576691	18576691	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcgtgtatttgaggatgagaGtgggaagcactggtcgaaga	17	4	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr20:18576691G>T	uc002wrf.3	+	3	337	c.176G>T	c.(175-177)AGT>ATT	p.S59I		NM_080820	NP_543010	Q8TEA8	DTD1_HUMAN	D-tyrosyl-tRNA deacylase 1	59					D-amino acid catabolic process	cytoplasm	hydrolase activity, acting on ester bonds			ovary(2)	2						GAGGATGAGAGTGGGAAGCAC	0.498													29	17	---	---	---	---	PASS	T	18576691	T	T	18576691	3	4	10	1	0	0	0	0	1	0	0	0	4786	1029	36	3	186	3	DTD1	20	18576691	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	11817462	18576691	44448829	481	6517										
C20orf26	26074	broad.mit.edu	37	chr20	20269413	20269413	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cctcaccaaattctccaataGatactactcaaatgagtgga	5	11	3	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr20:20269413G>A	uc002wru.2	+	23	3033	c.2957G>A	c.(2956-2958)AGA>AAA	p.R986K	C20orf26_uc002wrw.2_Intron	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	986										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TTCTCCAATAGATACTACTCA	0.458													28	19	---	---	---	---	PASS	A	20269413	A	A	20269413	3	1	10	1	0	0	0	0	1	0	0	0	2106	942	33	2	3075	2	C20orf26	20	20269413	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1692722	20269413	42756107	482	6518										
CSTL1	128817	broad.mit.edu	37	chr20	23424661	23424661	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcaattcttcctgccccctgCaaagcaagaagctgagaaag	9	12	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr20:23424661C>G	uc002wte.2	+	3	556	c.310C>G	c.(310-312)CAA>GAA	p.Q104E	CSTL1_uc010zsu.1_RNA|CSTL1_uc010zsv.1_RNA	NM_138283	NP_612140	Q9H114	CST1L_HUMAN	cystatin-like 1 precursor	104						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0993)|Lung NSC(19;0.235)					CTGCCCCCTGCAAAGCAAGAA	0.468													31	15	---	---	---	---	PASS	G	23424661	G	G	23424661	3	3	10	1	0	0	0	0	1	0	0	0	3987	711	25	4	316	4	CSTL1	20	23424661	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	3155248	23424661	39600859	483	6519										
MYLK2	85366	broad.mit.edu	37	chr20	30409459	30409459	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cctcgagggggattgagttcCaggctgttccctcagagaaa	13	10	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr20:30409459C>A	uc002wwq.2	+	4	793	c.691C>A	c.(691-693)CAG>AAG	p.Q231K		NM_033118	NP_149109	Q9H1R3	MYLK2_HUMAN	skeletal myosin light chain kinase	231					cardiac muscle tissue morphogenesis|regulation of muscle filament sliding		ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			lung(2)|skin(2)|ovary(1)|central_nervous_system(1)	6			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			GATTGAGTTCCAGGCTGTTCC	0.607													5	52	---	---	---	---	PASS	A	30409459	A	A	30409459	3	1	10	1	0	0	0	0	1	0	0	0	10057	595	21	3	701	3	MYLK2	20	30409459	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	6984798	30409459	32616061	484	6520										
KIAA1755	85449	broad.mit.edu	37	chr20	36874360	36874360	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ttctcgcacttgctcacacaGgcgcttggcagggatcagga	12	12	3	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr20:36874360G>T	uc002xhy.1	-	2	444	c.172C>A	c.(172-174)CTG>ATG	p.L58M	KIAA1755_uc002xhz.1_Missense_Mutation_p.L58M	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	58										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				TGCTCACACAGGCGCTTGGCA	0.587													5	29	---	---	---	---	PASS	T	36874360	T	T	36874360	3	4	10	1	0	0	0	0	1	0	0	0	8257	991	35	3	3482	3	KIAA1755	20	36874360	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	6464901	36874360	26151160	485	6521										
SALL4	57167	broad.mit.edu	37	chr20	50408097	50408097	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagagtgaagggtgccagccCtggggacagggagctggtgg	20	8	0	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr20:50408097C>A	uc002xwh.3	-	2	1026	c.925G>T	c.(925-927)GGG>TGG	p.G309W	SALL4_uc010gii.2_Missense_Mutation_p.G309W|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	309					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GGTGCCAGCCCTGGGGACAGG	0.632													7	11	---	---	---	---	PASS	A	50408097	A	A	50408097	3	1	10	1	0	0	0	0	1	0	0	0	13813	681	24	3	2248	3	SALL4	20	50408097	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	13533737	50408097	12617423	486	6522										
TH1L	51497	broad.mit.edu	37	chr20	57564617	57564617	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cagcagctagaagtgttctcGagagtgctccggacctctct	11	12	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr20:57564617G>T	uc002yag.2	+	6	633	c.606G>T	c.(604-606)TCG>TCT	p.S202S	TH1L_uc010zzu.1_Silent_p.S202S|TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Silent_p.S202S	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	202					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			AAGTGTTCTCGAGAGTGCTCC	0.463													8	155	---	---	---	---	PASS	T	57564617	T	T	57564617	2	4	10	1	0	0	0	0	0	0	0	1	15836	1045	37	2		2	TH1L	20	57564617	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	7156520	57564617	5460903	487	6523										
CDH26	60437	broad.mit.edu	37	chr20	58564203	58564203	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aacttttaatgccatggatcCagacagccagataaggtgag	10	8	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr20:58564203C>A	uc002ybe.2	+	9	1568	c.1268C>A	c.(1267-1269)CCA>CAA	p.P423Q	CDH26_uc002ybf.1_Missense_Mutation_p.P3Q|CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	423	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			GCCATGGATCCAGACAGCCAG	0.522													6	144	---	---	---	---	PASS	A	58564203	A	A	58564203	3	1	10	1	0	0	0	0	1	0	0	0	3110	594	21	3	1302	3	CDH26	20	58564203	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	999586	58564203	4461317	488	6524										
PRPF6	24148	broad.mit.edu	37	chr20	62660759	62660759	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggtctgaggccatcttcctcGaggcaaggccccagaggagg	15	12	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr20:62660759G>T	uc002yho.2	+	19	2629	c.2461G>T	c.(2461-2463)GAG>TAG	p.E821*	PRPF6_uc002yhp.2_Nonsense_Mutation_p.E781*	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	821					assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					CATCTTCCTCGAGGCAAGGCC	0.572													4	47	---	---	---	---	PASS	T	62660759	T	T	62660759	4	4	10	1	0	0	0	0	0	1	0	0	12574	1059	37	2	2535	2	PRPF6	20	62660759	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	4096556	62660759	364761	489	6525										
TPTE	7179	broad.mit.edu	37	chr21	10944758	10944758	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	taatggcagtatctaaaatgTtaaataagtcagaaaaatac	6	4	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr21:10944758T>A	uc002yip.1	-	11	844	c.476A>T	c.(475-477)AAC>ATC	p.N159I	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.N141I|TPTE_uc002yir.1_Missense_Mutation_p.N121I|TPTE_uc010gkv.1_Missense_Mutation_p.N21I	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	159					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ATCTAAAATGTTAAATAAGTC	0.318													14	68	---	---	---	---	PASS	A	10944758	A	A	10944758	3	1	10	1	0	0	0	0	1	0	0	0	16427	1725	60	5	1235	5	TPTE	21	10944758	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08		10944758	37185137	490	6526										
HUNK	30811	broad.mit.edu	37	chr21	33371371	33371371	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ggcatcggacagatgttaagGaagcgccatcagagtctgca	13	9	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr21:33371371G>T	uc002yph.2	+	11	2379	c.2019G>T	c.(2017-2019)AGG>AGT	p.R673S		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	673					multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						AGATGTTAAGGAAGCGCCATC	0.612													13	27	---	---	---	---	PASS	T	33371371	T	T	33371371	3	4	10	1	0	0	0	0	1	0	0	0	7458	1165	41	2	2061	2	HUNK	21	33371371	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	22426613	33371371	14758524	491	6527										
IFNAR1	3454	broad.mit.edu	37	chr21	34715845	34715845	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tatatttgtgttataggaaaGgattgaaaatatttattcca	7	2	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr21:34715845G>T	uc002yrn.2	+	5	683	c.536G>T	c.(535-537)AGG>ATG	p.R179M	IFNAR1_uc011adv.1_Missense_Mutation_p.R110M	NM_000629	NP_000620	P17181	INAR1_HUMAN	interferon-alpha receptor 1 precursor	179	Fibronectin type-III 1.|Extracellular (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	integral to plasma membrane	type I interferon receptor activity			central_nervous_system(1)|skin(1)	2					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	TTATAGGAAAGGATTGAAAAT	0.284													5	30	---	---	---	---	PASS	T	34715845	T	T	34715845	3	4	10	1	0	0	0	0	1	0	0	0	7544	1000	35	3	554	3	IFNAR1	21	34715845	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1344474	34715845	13414050	492	6528										
MX2	4600	broad.mit.edu	37	chr21	42771143	42771143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	aaaatcaagatgtttaatcaGgacatcgaaaagttagtaga	8	4	2	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr21:42771143G>T	uc002yzf.1	+	10	1397	c.1293G>T	c.(1291-1293)CAG>CAT	p.Q431H	MX2_uc002yzg.1_Missense_Mutation_p.Q154H|MX2_uc010gop.1_Intron	NM_002463	NP_002454	P20592	MX2_HUMAN	myxovirus resistance protein 2	431					response to virus|type I interferon-mediated signaling pathway	cytoplasm|nucleus	GTP binding|GTPase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0222)				TGTTTAATCAGGACATCGAAA	0.383													5	63	---	---	---	---	PASS	T	42771143	T	T	42771143	3	4	10	1	0	0	0	0	1	0	0	0	9998	991	35	3	1327	3	MX2	21	42771143	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	8055298	42771143	5358752	493	6529										
TPST2	8459	broad.mit.edu	37	chr22	26937263	26937263	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	acggccagacttggaccaggCctggcgcatggccagcacgc	14	15	0	1	rs142901851	byFrequency	TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr22:26937263C>A	uc003acv.2	-	2	502	c.334G>T	c.(334-336)GCC>TCC	p.A112S	TPST2_uc003acw.2_Missense_Mutation_p.A112S|TPST2_uc003acx.2_Missense_Mutation_p.A112S|TPST2_uc011akf.1_Missense_Mutation_p.A112S	NM_003595	NP_003586	O60704	TPST2_HUMAN	tyrosylprotein sulfotransferase 2	112	Lumenal (Potential).				peptidyl-tyrosine sulfation	endoplasmic reticulum|Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity			central_nervous_system(1)	1						TTGGACCAGGCCTGGCGCATG	0.687													5	9	---	---	---	---	PASS	A	26937263	A	A	26937263	3	1	10	1	0	0	0	0	1	0	0	0	16425	739	26	3	815	3	TPST2	22	26937263	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08		26937263	24367303	494	6530										
NF2	4771	broad.mit.edu	37	chr22	30035117	30035117	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcaaaggaagaaccagtcacCtttcacttcttggccaaatt	6	11	4	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr22:30035117C>A	uc003age.3	+	3	722	c.279C>A	c.(277-279)ACC>ACA	p.T93T	NF2_uc003afy.3_Silent_p.T93T|NF2_uc003afz.3_Intron|NF2_uc003agf.3_Silent_p.T93T|NF2_uc003agb.3_Silent_p.T16T|NF2_uc003agc.3_Silent_p.T55T|NF2_uc003agd.3_Intron|NF2_uc003agg.3_Silent_p.T93T|NF2_uc003aga.3_Silent_p.T51T|NF2_uc003agh.3_Intron|NF2_uc003agi.3_Intron|NF2_uc003agj.3_Silent_p.T93T|NF2_uc003agk.3_Silent_p.T55T	NM_000268	NP_000259	P35240	MERL_HUMAN	neurofibromin 2 isoform 1	93	FERM.				actin cytoskeleton organization|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of cell-matrix adhesion|negative regulation of DNA replication|negative regulation of tyrosine phosphorylation of Stat3 protein|negative regulation of tyrosine phosphorylation of Stat5 protein|positive regulation of stress fiber assembly|regulation of hippo signaling cascade|Schwann cell proliferation	cytoskeleton|early endosome|extrinsic to membrane|filopodium membrane|nucleolus|perinuclear region of cytoplasm|ruffle membrane	cytoskeletal protein binding|protein binding	p.H84_F100del(1)|p.V86_Q111>E(1)|p.F94fs*27(1)		meninges(372)|soft_tissue(284)|central_nervous_system(20)|kidney(10)|pleura(9)|skin(7)|large_intestine(5)|breast(5)|urinary_tract(3)|thyroid(2)|endometrium(2)|ovary(2)|lung(2)|stomach(2)|bone(2)|pituitary(1)	728						AACCAGTCACCTTTCACTTCT	0.433			D|Mis|N|F|S|O		meningioma|acoustic neuroma|renal 	meningioma|acoustic neuroma			Neurofibromatosis_type_2				5	58	---	---	---	---	PASS	A	30035117	A	A	30035117	2	1	10	1	0	0	0	0	0	0	0	1	10357	668	24	3		3	NF2	22	30035117	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	3097854	30035117	21269449	495	6531										
C22orf33	339669	broad.mit.edu	37	chr22	37397983	37397983	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gtgggcgtgctcctctggtcCtgagcccccaagctgggacc	14	15	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr22:37397983C>T	uc003aqf.2	-	3	530	c.384G>A	c.(382-384)CAG>CAA	p.Q128Q	C22orf33_uc003aqe.2_Silent_p.Q43Q	NM_001163857	NP_001157329	O43247	EAN57_HUMAN	hypothetical protein LOC339669 isoform 1	128											0						TCCTCTGGTCCTGAGCCCCCA	0.622													4	8	---	---	---	---	PASS	T	37397983	T	T	37397983	2	4	10	1	0	0	0	0	0	0	0	1	2145	680	24	3		3	C22orf33	22	37397983	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	7362866	37397983	13906583	496	6532										
NOL12	79159	broad.mit.edu	37	chr22	38084982	38084982	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tctcgggggcccggctgctcGggctgaccccacctgaggtg	16	15	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr22:38084982G>T	uc003atp.2	+	4	420	c.364G>T	c.(364-366)GGG>TGG	p.G122W	NOL12_uc011anm.1_Missense_Mutation_p.G122W|NOL12_uc003ato.1_RNA|TRIOBP_uc003atq.1_5'UTR	NM_024313	NP_077289	Q9UGY1	NOL12_HUMAN	nucleolar protein 12	122						nucleolus	rRNA binding				0	Melanoma(58;0.0574)					CCGGCTGCTCGGGCTGACCCC	0.647													19	31	---	---	---	---	PASS	T	38084982	T	T	38084982	3	4	10	1	0	0	0	0	1	0	0	0	10522	1116	39	1	378	1	NOL12	22	38084982	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	686999	38084982	13219584	497	6533										
MEI1	150365	broad.mit.edu	37	chr22	42172170	42172170	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gattagcctgaggaccttccTgaggaggaatgaggatatcc	13	8	0	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr22:42172170T>G	uc003baz.1	+	21	2634	c.2609T>G	c.(2608-2610)CTG>CGG	p.L870R	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc011apd.1_RNA|MEI1_uc003bbb.1_Missense_Mutation_p.L256R|MEI1_uc003bbc.1_Missense_Mutation_p.L238R|MEI1_uc010gym.1_Missense_Mutation_p.L238R|MEI1_uc003bbd.1_Missense_Mutation_p.L113R|MEI1_uc010gyn.1_RNA|MEI1_uc003bbe.1_RNA	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	870							binding			central_nervous_system(1)|skin(1)	2						AGGACCTTCCTGAGGAGGAAT	0.552													12	48	---	---	---	---	PASS	G	42172170	G	G	42172170	3	3	10	1	0	0	0	0	1	0	0	0	9465	1580	55	5	2691	5	MEI1	22	42172170	Missense_Mutation	SNP	T	TCGA-18-3416-01A-01D-0983-08	4087188	42172170	9132396	498	6534										
WNT7B	7477	broad.mit.edu	37	chr22	46327162	46327162	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cgcggtcgcagccgcagttgCtcaggttcccttggctgcag	14	14	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr22:46327162C>T	uc003bgo.2	-	3	760	c.386G>A	c.(385-387)AGC>AAC	p.S129N	WNT7B_uc010haa.2_Missense_Mutation_p.S133N	NM_058238	NP_478679	P56706	WNT7B_HUMAN	wingless-type MMTV integration site family,	129					activation of JUN kinase activity|anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|central nervous system vasculogenesis|chorio-allantoic fusion|developmental growth involved in morphogenesis|embryonic placenta morphogenesis|establishment or maintenance of polarity of embryonic epithelium|fibroblast proliferation|forebrain regionalization|inner medullary collecting duct development|lens fiber cell development|lobar bronchus development|lung epithelium development|lung morphogenesis|lung-associated mesenchyme development|mammary gland epithelium development|metanephric collecting duct development|metanephric loop of Henle development|metanephros morphogenesis|negative regulation of smoothened signaling pathway|outer medullary collecting duct development|oxygen homeostasis|positive regulation of JNK cascade|positive regulation of osteoblast differentiation|renal inner medulla development|renal outer medulla development|stem cell proliferation|synapse organization|trachea cartilage morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled binding|signal transducer activity			lung(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|LUAD - Lung adenocarcinoma(64;0.247)		GCCGCAGTTGCTCAGGTTCCC	0.682													4	16	---	---	---	---	PASS	T	46327162	T	T	46327162	3	4	10	1	0	0	0	0	1	0	0	0	17392	797	28	3	671	3	WNT7B	22	46327162	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	4154992	46327162	4977404	499	6535										
TUBGCP6	85378	broad.mit.edu	37	chr22	50678788	50678788	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tcttcccactgatccacactCggtgggacctggagacacag	10	14	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chr22:50678788C>A	uc003bkb.1	-	2	1262	c.750G>T	c.(748-750)CCG>CCT	p.P250P	TUBGCP6_uc010har.1_Silent_p.P250P|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hau.1_Silent_p.P250P	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	250					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GATCCACACTCGGTGGGACCT	0.547													3	16	---	---	---	---	PASS	A	50678788	A	A	50678788	2	1	10	1	0	0	0	0	0	0	0	1	16767	871	31	2		2	TUBGCP6	22	50678788	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	4351626	50678788	625778	500	6536										
TMEM27	57393	broad.mit.edu	37	chrX	15657828	15657828	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaagggatttttaaaaattcCagagtttggtcatttagaaa	9	3	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrX:15657828C>A	uc004cxc.1	-	5	625	c.369G>T	c.(367-369)CTG>CTT	p.L123L		NM_020665	NP_065716	Q9HBJ8	TMM27_HUMAN	transmembrane protein 27 precursor	123	Extracellular (Potential).				proteolysis	integral to membrane	metallopeptidase activity|peptidyl-dipeptidase activity			ovary(1)	1	Hepatocellular(33;0.183)					TTAAAAATTCCAGAGTTTGGT	0.333													5	82	---	---	---	---	PASS	A	15657828	A	A	15657828	2	1	10	1	0	0	0	0	0	0	0	1	16149	581	21	3		3	TMEM27	23	15657828	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08		15657828	139612732	501	6537										
DCAF8L1	139425	broad.mit.edu	37	chrX	27998521	27998521	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cctgaggtcaatggtgaacaCaacggcatcttcacctgaag	10	11	3	3			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrX:27998521C>A	uc004dbx.1	-	1	1046	c.931G>T	c.(931-933)GTG>TTG	p.V311L		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	311	WD 3.									ovary(3)|skin(1)	4						ATGGTGAACACAACGGCATCT	0.483													22	16	---	---	---	---	PASS	A	27998521	A	A	27998521	3	1	10	1	0	0	0	0	1	0	0	0	4277	478	17	3	875	3	DCAF8L1	23	27998521	Missense_Mutation	SNP	C	TCGA-18-3416-01A-01D-0983-08	12340693	27998521	127272039	502	6538										
FAM47B	170062	broad.mit.edu	37	chrX	34961693	34961693	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctcgcgcatctcatctccgcGtggatcctcccgagactgga	10	16	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrX:34961693G>A	uc004ddi.1	+	1	763	c.745G>A	c.(745-747)GTG>ATG	p.V249M		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	249	Pro-rich.									ovary(3)|breast(1)	4						TCATCTCCGCGTGGATCCTCC	0.627													27	17	---	---	---	---	PASS	A	34961693	A	A	34961693	3	1	10	1	0	0	0	0	1	0	0	0	5570	1145	40	1	747	1	FAM47B	23	34961693	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	6963172	34961693	120308867	503	6539										
AKAP4	8852	broad.mit.edu	37	chrX	49957417	49957417	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gaacacttgttctcaccttcGcatggatcctcacatttgaa	6	12	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrX:49957417G>A	uc004dow.1	-	5	2071	c.1947C>T	c.(1945-1947)TGC>TGT	p.C649C	AKAP4_uc004dov.1_Silent_p.C266C|AKAP4_uc010njp.1_Silent_p.C471C|AKAP4_uc004dou.1_Silent_p.C640C	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	649					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					TCTCACCTTCGCATGGATCCT	0.463													29	13	---	---	---	---	PASS	A	49957417	A	A	49957417	2	1	10	1	0	0	0	0	0	0	0	1	453	1079	38	1		1	AKAP4	23	49957417	Silent	SNP	G	TCGA-18-3416-01A-01D-0983-08	14995724	49957417	105313143	504	6540										
MAGEE1	57692	broad.mit.edu	37	chrX	75649158	75649158	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tgctgcccgccgcctctgacGgacaaagcatctccttggtg	11	15	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrX:75649158G>T	uc004ecm.1	+	1	1042	c.835G>T	c.(835-837)GGA>TGA	p.G279*		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	279	Pro-rich.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						CGCCTCTGACGGACAAAGCAT	0.706													3	4	---	---	---	---	PASS	T	75649158	T	T	75649158	4	4	10	1	0	0	0	0	0	1	0	0	9185	1117	39	1	837	1	MAGEE1	23	75649158	Nonsense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	25691741	75649158	79621402	505	6541										
POU3F4	5456	broad.mit.edu	37	chrX	82763671	82763671	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	cacactaaccaccccaacgcCtggggggccagcccggcacc	10	20	0	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrX:82763671C>T	uc004eeg.2	+	1	403	c.339C>T	c.(337-339)GCC>GCT	p.A113A		NM_000307	NP_000298	P49335	PO3F4_HUMAN	POU domain, class 3, transcription factor 4	113					sensory perception of sound	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						ACCCCAACGCCTGGGGGGCCA	0.652													7	3	---	---	---	---	PASS	T	82763671	T	T	82763671	2	4	10	1	0	0	0	0	0	0	0	1	12277	668	24	3		3	POU3F4	23	82763671	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	7114513	82763671	72506889	506	6542										
NXF3	56000	broad.mit.edu	37	chrX	102335086	102335086	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctcttctcaccttacaggttGgtaacctcttgtgggcttca	8	12	4	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrX:102335086G>T	uc004eju.2	-	11	1057	c.986C>A	c.(985-987)CCA>CAA	p.P329Q	NXF3_uc010noi.1_Missense_Mutation_p.P179Q	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	329						cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3						CTTACAGGTTGGTAACCTCTT	0.537													8	198	---	---	---	---	PASS	T	102335086	T	T	102335086	3	4	10	1	0	0	0	0	1	0	0	0	10785	1348	47	3	645	3	NXF3	23	102335086	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	19571415	102335086	52935474	507	6543										
IL1RAPL2	26280	broad.mit.edu	37	chrX	105011289	105011289	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	agaaaaaagaaatgctacctCggtgccatgttctggactcc	9	10	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrX:105011289C>A	uc004elz.1	+	11	2452	c.1696C>A	c.(1696-1698)CGG>AGG	p.R566R		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	566	Cytoplasmic (Potential).				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						AATGCTACCTCGGTGCCATGT	0.438													5	127	---	---	---	---	PASS	A	105011289	A	A	105011289	2	1	10	1	0	0	0	0	0	0	0	1	7662	875	31	2		2	IL1RAPL2	23	105011289	Silent	SNP	C	TCGA-18-3416-01A-01D-0983-08	2676203	105011289	50259271	508	6544										
LONRF3	79836	broad.mit.edu	37	chrX	118116786	118116786	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gctaatgtttccttccaggcAcatttcagaaaagcccaagc	7	12	1	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrX:118116786A>T	uc004eqw.2	+	3	970	c.939A>T	c.(937-939)GCA>GCT	p.A313A	LONRF3_uc004eqx.2_Intron|LONRF3_uc004eqy.2_RNA|LONRF3_uc004eqz.2_Silent_p.A5A	NM_001031855	NP_001027026	Q496Y0	LONF3_HUMAN	LON peptidase N-terminal domain and ring finger	313	TPR 4.				proteolysis		ATP-dependent peptidase activity|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)	2						CCTTCCAGGCACATTTCAGAA	0.423													42	22	---	---	---	---	PASS	T	118116786	T	T	118116786	2	4	10	1	0	0	0	0	0	0	0	1	8896	146	6	5		5	LONRF3	23	118116786	Silent	SNP	A	TCGA-18-3416-01A-01D-0983-08	13105497	118116786	37153774	509	6545										
DCAF12L1	139170	broad.mit.edu	37	chrX	125685298	125685298	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ccagttgtagcagtgggtgtAgagcgcattgggaaacactt	14	7	0	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrX:125685298A>T	uc004eul.2	-	1	1545	c.1294T>A	c.(1294-1296)TAC>AAC	p.Y432N		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	432										skin(3)|ovary(1)	4						CAGTGGGTGTAGAGCGCATTG	0.557													44	28	---	---	---	---	PASS	T	125685298	T	T	125685298	3	4	10	1	0	0	0	0	1	0	0	0	4264	420	15	5	101	5	DCAF12L1	23	125685298	Missense_Mutation	SNP	A	TCGA-18-3416-01A-01D-0983-08	7568512	125685298	29585262	510	6546										
F8	2157	broad.mit.edu	37	chrX	154182254	154182254	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	gcgttgtatattctctgtgaGgtaccagcttcggttctcat	10	9	2	1			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrX:154182254G>T	uc004fmt.2	-	12	1987	c.1816C>A	c.(1816-1818)CTC>ATC	p.L606I		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	606	F5/8 type A 2.|Plastocyanin-like 4.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TTCTCTGTGAGGTACCAGCTT	0.428													7	123	---	---	---	---	PASS	T	154182254	T	T	154182254	3	4	10	1	0	0	0	0	1	0	0	0	5350	1000	35	3	5327	3	F8	23	154182254	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	28496956	154182254	1088306	511	6547										
IL9R	3581	broad.mit.edu	37	chrX	155232571	155232571	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	ctcagcccagtcccttgcagGctggaccttggagagtgagg	14	12	1	2			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrX:155232571G>T	uc004fnv.1	+	2	208	c.29G>T	c.(28-30)GGC>GTC	p.G10V	IL9R_uc010nvn.2_5'UTR|IL9R_uc004fnu.1_Missense_Mutation_p.G57V	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor	10					cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TCCCTTGCAGGCTGGACCTTG	0.622													11	54	---	---	---	---	PASS	T	155232571	T	T	155232571	3	4	10	1	0	0	0	0	1	0	0	0	7708	1217	42	3	35	3	IL9R	23	155232571	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08	1050317	155232571	37989	512	6548										
PCDH11Y	83259	broad.mit.edu	37	chrY	4924872	4924872	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.07421875	38	0.00289471807095185	1.6417446521279	2.37882777744529	1.11296762744368	0.185273590023067	0.528926216678756	15	tttgttaacatgcatgtttaGggttggcttcttaataattt	8	4	1	0			TCGA-18-3416-01A-01D-0983-08	TCGA-18-3416-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	e03577e7-37be-460b-96e8-5f6e0b49b3aa	039cc9b2-bb06-4af8-a7c1-cfecf25753be	g.chrY:4924872G>T	uc004fqo.2	+	1	742	c.8G>T	c.(7-9)AGG>ATG	p.R3M	PCDH11Y_uc010nwg.1_Intron|PCDH11Y_uc004fql.1_Intron|PCDH11Y_uc004fqm.1_Intron|PCDH11Y_uc004fqn.1_Missense_Mutation_p.R3M	NM_032973	NP_116755	Q9BZA8	PC11Y_HUMAN	protocadherin 11 Y-linked isoform c	3					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						TGCATGTTTAGGGTTGGCTTC	0.328													9	8	---	---	---	---	PASS	T	4924872	T	T	4924872	3	4	10	1	0	0	0	0	1	0	0	0	11509	1000	35	3	46	3	PCDH11Y	24	4924872	Missense_Mutation	SNP	G	TCGA-18-3416-01A-01D-0983-08		4924872	54448694	513	6549										
B3GALT6	126792	broad.mit.edu	37	chr1	1168120	1168120	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gccttcgagttcgtgctcaaGgcggacgacgactccttcgc	12	14	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:1168120G>A	uc001adk.2	+	1	492	c.462G>A	c.(460-462)AAG>AAA	p.K154K	SDF4_uc001adh.3_5'Flank|SDF4_uc001adi.3_5'Flank|SDF4_uc009vjv.2_5'Flank|SDF4_uc009vjw.2_5'Flank	NM_080605	NP_542172	Q96L58	B3GT6_HUMAN	beta-1,3-galactosyltransferase 6	154	Lumenal (Potential).				glycosaminoglycan biosynthetic process|protein glycosylation	Golgi cisterna membrane|Golgi medial cisterna|integral to membrane	galactosylxylosylprotein 3-beta-galactosyltransferase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;2.22e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		TCGTGCTCAAGGCGGACGACG	0.567													12	15	---	---	---	---	PASS	A	1168120	A	A	1168120	2	1	11	1	0	0	0	0	0	0	0	1	1251	991	35	3		3	B3GALT6	1	1168120	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08		1168120	248082501	1	6550										
C1orf187	374946	broad.mit.edu	37	chr1	11766366	11766366	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	atgctgttcctcgtcctcctGctgcccctggagctgagcct	10	16	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:11766366G>T	uc001asr.1	+	2	191	c.51G>T	c.(49-51)CTG>CTT	p.L17L		NM_198545	NP_940947	Q8NBI3	DRAXI_HUMAN	chromosome 1 open reading frame 187 precursor	17					axon guidance|commissural neuron differentiation in spinal cord|dorsal spinal cord development|forebrain development|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region					0	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.48e-06)|COAD - Colon adenocarcinoma(227;0.000283)|BRCA - Breast invasive adenocarcinoma(304;0.000316)|Kidney(185;0.000841)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|STAD - Stomach adenocarcinoma(313;0.00754)|READ - Rectum adenocarcinoma(331;0.0651)		TCGTCCTCCTGCTGCCCCTGG	0.657													9	12	---	---	---	---	PASS	T	11766366	T	T	11766366	2	4	11	1	0	0	0	0	0	0	0	1	2021	1306	46	3		3	C1orf187	1	11766366	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	10598246	11766366	237484255	2	6551										
LUZP1	7798	broad.mit.edu	37	chr1	23419271	23419271	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccttcagtccgctctcggtgCctggcttggaagtccccttc	10	16	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:23419271C>A	uc001bgk.2	-	4	1868	c.1484G>T	c.(1483-1485)GGC>GTC	p.G495V	LUZP1_uc010odv.1_Missense_Mutation_p.G495V|LUZP1_uc001bgl.2_Missense_Mutation_p.G495V|LUZP1_uc001bgm.1_Missense_Mutation_p.G495V	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	495						nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		GCTCTCGGTGCCTGGCTTGGA	0.572													35	255	---	---	---	---	PASS	A	23419271	A	A	23419271	3	1	11	1	0	0	0	0	1	0	0	0	9086	739	26	3	1754	3	LUZP1	1	23419271	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	11652905	23419271	225831350	3	6552										
CLSPN	63967	broad.mit.edu	37	chr1	36205073	36205073	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tccccatcatactcatcttcGcttcccacatcacttcctga	2	18	4	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:36205073G>A	uc001bzi.2	-	19	3281	c.3201C>T	c.(3199-3201)AGC>AGT	p.S1067S	CLSPN_uc009vux.2_Silent_p.S1003S	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	1067					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				ACTCATCTTCGCTTCCCACAT	0.398													14	215	---	---	---	---	PASS	A	36205073	A	A	36205073	2	1	11	1	0	0	0	0	0	0	0	1	3560	1078	38	1		1	CLSPN	1	36205073	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	12785802	36205073	213045548	4	6553										
GPBP1L1	60313	broad.mit.edu	37	chr1	46106068	46106068	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gagggttgcttggcactaggCgggttttctgtgaagtacaa	15	6	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:46106068C>A	uc001coq.2	-	8	1919	c.558G>T	c.(556-558)CCG>CCT	p.P186P		NM_021639	NP_067652	Q9HC44	GPBL1_HUMAN	GC-rich promoter binding protein 1-like 1	186					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TGGCACTAGGCGGGTTTTCTG	0.443													4	271	---	---	---	---	PASS	A	46106068	A	A	46106068	2	1	11	1	0	0	0	0	0	0	0	1	6596	755	27	1		1	GPBP1L1	1	46106068	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	9900995	46106068	203144553	5	6554										
TTC39A	22996	broad.mit.edu	37	chr1	51771650	51771650	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	atggaggaggagcactcaccAggttgaaggcccctacacca	12	12	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:51771650A>T	uc001csl.2	-	7	800	c.695T>A	c.(694-696)CTG>CAG	p.L232Q	TTC39A_uc001csk.2_Missense_Mutation_p.L197Q|TTC39A_uc010ond.1_Missense_Mutation_p.L169Q|TTC39A_uc010one.1_Missense_Mutation_p.L196Q|TTC39A_uc010onf.1_Missense_Mutation_p.L200Q|TTC39A_uc001csn.2_Missense_Mutation_p.L231Q|TTC39A_uc001cso.1_Missense_Mutation_p.L228Q|TTC39A_uc009vyy.1_Missense_Mutation_p.L169Q	NM_001080494	NP_001073963	Q5SRH9	TT39A_HUMAN	tetratricopeptide repeat domain 39A isoform 2	232							binding			skin(1)	1						AGCACTCACCAGGTTGAAGGC	0.567													10	73	---	---	---	---	PASS	T	51771650	T	T	51771650	3	4	11	1	0	0	0	0	1	0	0	0	16704	202	7	5	1194	5	TTC39A	1	51771650	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	5665582	51771650	197478971	6	6555										
KTI12	112970	broad.mit.edu	37	chr1	52498725	52498725	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccccgccaggggcaacggctCctctaggcccaccaaagtga	11	17	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:52498725C>A	uc001ctj.1	-	1	748	c.709G>T	c.(709-711)GAG>TAG	p.E237*	TXNDC12_uc001cti.2_Intron	NM_138417	NP_612426	Q96EK9	KTI12_HUMAN	KTI12 homolog, chromatin associated	237							ATP binding			central_nervous_system(2)	2						GGCAACGGCTCCTCTAGGCCC	0.637													35	82	---	---	---	---	PASS	A	52498725	A	A	52498725	4	1	11	1	0	0	0	0	0	1	0	0	8584	864	30	2	359	2	KTI12	1	52498725	Nonsense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	727075	52498725	196751896	7	6556										
FAM159A	348378	broad.mit.edu	37	chr1	53108627	53108627	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctgctacctgttcatcagctCtaagccccacacaaagttgg	7	14	3	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:53108627C>A	uc001cuf.2	+	2	375	c.275C>A	c.(274-276)TCT>TAT	p.S92Y	FAM159A_uc001cug.1_RNA|FAM159A_uc001cuh.2_RNA	NM_001042693	NP_001036158	Q6UWV7	F159A_HUMAN	hypothetical protein LOC348378	92						integral to membrane					0						TTCATCAGCTCTAAGCCCCAC	0.522													4	206	---	---	---	---	PASS	A	53108627	A	A	53108627	3	1	11	1	0	0	0	0	1	0	0	0	5468	913	32	2	281	2	FAM159A	1	53108627	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	609902	53108627	196141994	8	6557										
YIPF1	54432	broad.mit.edu	37	chr1	54344035	54344035	+	Missense_Mutation	SNP	C	A	A													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ataacctcacaaagtttttcCcgggtattggcaaaagagat							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:54344035C>A	uc001cvu.2	-	6	654	c.317G>T	c.(316-318)GGG>GTG	p.G106V	YIPF1_uc001cvv.2_RNA|YIPF1_uc001cvw.2_RNA|YIPF1_uc001cvx.2_RNA|YIPF1_uc001cvy.2_RNA	NM_018982	NP_061855	Q9Y548	YIPF1_HUMAN	Yip1 domain family, member 1	106	Cytoplasmic (Potential).					integral to membrane|transport vesicle				large_intestine(1)|ovary(1)	2						AAAGTTTTTCCCGGGTATTGG	0.348													69	196	---	---	---	---	PASS	A	54344035	A	A	54344035	3	1	11	1	0	0	0	0	1	0	0	0	17474	623	22	3	623	3	YIPF1	1	54344035	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1235408	54344035	194906586	9	6558	220	2								
YIPF1	54432	broad.mit.edu	37	chr1	54344036	54344036	+	Missense_Mutation	SNP	C	T	T													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	taacctcacaaagtttttccCgggtattggcaaaagagatc							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:54344036C>T	uc001cvu.2	-	6	653	c.316G>A	c.(316-318)GGG>AGG	p.G106R	YIPF1_uc001cvv.2_RNA|YIPF1_uc001cvw.2_RNA|YIPF1_uc001cvx.2_RNA|YIPF1_uc001cvy.2_RNA	NM_018982	NP_061855	Q9Y548	YIPF1_HUMAN	Yip1 domain family, member 1	106	Cytoplasmic (Potential).					integral to membrane|transport vesicle				large_intestine(1)|ovary(1)	2						AAGTTTTTCCCGGGTATTGGC	0.348													67	193	---	---	---	---	PASS	T	54344036	T	T	54344036	3	4	11	1	0	0	0	0	1	0	0	0	17474	652	23	1	624	1	YIPF1	1	54344036	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1	54344036	194906585	10	6559	220	2								
BSND	7809	broad.mit.edu	37	chr1	55470715	55470715	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	atcaccttcgtccctgctgaCtctgactttcaaggcatcct	6	15	3	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:55470715C>T	uc001cye.2	+	2	441	c.198C>T	c.(196-198)GAC>GAT	p.D66D		NM_057176	NP_476517	Q8WZ55	BSND_HUMAN	barttin	66	Cytoplasmic (Potential).					basolateral plasma membrane|cytoplasm|integral to plasma membrane|protein complex				ovary(1)|skin(1)	2						TCCCTGCTGACTCTGACTTTC	0.592													4	115	---	---	---	---	PASS	T	55470715	T	T	55470715	2	4	11	1	0	0	0	0	0	0	0	1	1531	564	20	3		3	BSND	1	55470715	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	1126679	55470715	193779906	11	6560										
BSND	7809	broad.mit.edu	37	chr1	55473948	55473948	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tccaagatgacctggacatgGactccagtgaaggcagcagc	12	11	0	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:55473948G>C	uc001cye.2	+	4	853	c.610G>C	c.(610-612)GAC>CAC	p.D204H		NM_057176	NP_476517	Q8WZ55	BSND_HUMAN	barttin	204	Cytoplasmic (Potential).					basolateral plasma membrane|cytoplasm|integral to plasma membrane|protein complex				ovary(1)|skin(1)	2						CCTGGACATGGACTCCAGTGA	0.567													6	53	---	---	---	---	PASS	C	55473948	C	C	55473948	3	2	11	1	0	0	0	0	1	0	0	0	1531	1174	41	2	624	2	BSND	1	55473948	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	3233	55473948	193776673	12	6561										
C8B	732	broad.mit.edu	37	chr1	57420497	57420497	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gaagtctgcggtttacacacCttcctagaatggagaaagag	11	8	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:57420497C>A	uc001cyp.2	-	4	462	c.395G>T	c.(394-396)AGG>ATG	p.R132M	C8B_uc010oon.1_Missense_Mutation_p.R70M|C8B_uc010ooo.1_Missense_Mutation_p.R80M	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	132	LDL-receptor class A.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						GTTTACACACCTTCCTAGAAT	0.428													7	100	---	---	---	---	PASS	A	57420497	A	A	57420497	3	1	11	1	0	0	0	0	1	0	0	0	2417	681	24	3	1416	3	C8B	1	57420497	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1946549	57420497	191830124	13	6562										
LEPR	3953	broad.mit.edu	37	chr1	66102465	66102465	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tcacctcaatcaaaaagagaGagagtggtgtgcttttgact	10	7	3	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:66102465G>T	uc001dci.2	+	20	3467	c.3265G>T	c.(3265-3267)GAG>TAG	p.E1089*	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	1089	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)		CAAAAAGAGAGAGAGTGGTGT	0.418													37	88	---	---	---	---	PASS	T	66102465	T	T	66102465	4	4	11	1	0	0	0	0	0	1	0	0	8728	943	33	2	3565	2	LEPR	1	66102465	Nonsense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	8681968	66102465	183148156	14	6563										
TNNI3K	51086	broad.mit.edu	37	chr1	74665362	74665362	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aaataggcaaacttgtagcaCgtggagaattctgggacata	11	6	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:74665362C>G	uc001dge.1	+	2	113	c.97C>G	c.(97-99)CGT>GGT	p.R33G	LRRIQ3_uc001dfy.3_5'Flank|LRRIQ3_uc001dfz.3_5'Flank|TNNI3K_uc001dgc.1_Missense_Mutation_p.R33G|TNNI3K_uc001dgd.2_Missense_Mutation_p.R33G|FPGT_uc010oqt.1_5'UTR|FPGT_uc010oqu.1_Missense_Mutation_p.R33G|FPGT_uc001dgb.1_Missense_Mutation_p.R33G|FPGT_uc010oqv.1_Missense_Mutation_p.R33G	NM_001112808	NP_001106279	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform a	Error:Variant_position_missing_in_Q59H18_after_alignment						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						ACTTGTAGCACGTGGAGAATT	0.373													10	97	---	---	---	---	PASS	G	74665362	G	G	74665362	3	3	11	1	0	0	0	0	1	0	0	0	16326	536	19	4	103	4	TNNI3K	1	74665362	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	8562897	74665362	174585259	15	6564										
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112999369	112999369	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cactgtctcccagcagcactGcctcctcctctctaacatcc	4	20	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:112999369G>A	uc001ebx.2	+	6	1483	c.1255G>A	c.(1255-1257)GCC>ACC	p.A419T	CTTNBP2NL_uc001ebz.2_5'Flank	NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	419						actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CAGCAGCACTGCCTCCTCCTC	0.567													139	263	---	---	---	---	PASS	A	112999369	A	A	112999369	3	1	11	1	0	0	0	0	1	0	0	0	4046	1319	46	3	1269	3	CTTNBP2NL	1	112999369	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	38334007	112999369	136251252	16	6565										
HIST2H2BF	440689	broad.mit.edu	37	chr1	149783693	149783693	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tcgttgacgaaggagttcatGatgcccatggccttggacga	13	9	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:149783693G>T	uc001esr.2	-	1	236	c.186C>A	c.(184-186)ATC>ATA	p.I62I	HIST2H2BF_uc010pbj.1_Silent_p.I62I|HIST2H2BF_uc010pbk.1_Silent_p.I62I	NM_001024599	NP_001019770	Q5QNW6	H2B2F_HUMAN	histone cluster 2, H2bf isoform a	62					nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)					AGGAGTTCATGATGCCCATGG	0.612													4	321	---	---	---	---	PASS	T	149783693	T	T	149783693	2	4	11	1	0	0	0	0	0	0	0	1	7180	1280	45	2		2	HIST2H2BF	1	149783693	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	36784324	149783693	99466928	17	6566										
HRNR	388697	broad.mit.edu	37	chr1	152188497	152188497	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agactcatggtgaccaaatcCagaagactgacctgagccag	10	11	1	6			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:152188497C>G	uc001ezt.1	-	3	5684	c.5608G>C	c.(5608-5610)GGA>CGA	p.G1870R		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1870	20.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGACCAAATCCAGAAGACTGA	0.577													15	802	---	---	---	---	PASS	G	152188497	G	G	152188497	3	3	11	1	0	0	0	0	1	0	0	0	7359	603	21	4	2948	4	HRNR	1	152188497	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	2404804	152188497	97062124	18	6567										
GON4L	54856	broad.mit.edu	37	chr1	155736467	155736467	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tctagcaccatcagccatgtGccgcagttcttcctggatgg	10	13	3	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:155736467G>T	uc001flz.2	-	21	2894	c.2797C>A	c.(2797-2799)CAC>AAC	p.H933N	GON4L_uc009wrg.1_RNA|GON4L_uc001fly.1_Missense_Mutation_p.H933N|GON4L_uc009wrh.1_Missense_Mutation_p.H933N|GON4L_uc001fma.1_Missense_Mutation_p.H933N|GON4L_uc001fmb.3_Missense_Mutation_p.H129N|GON4L_uc001fmc.2_Missense_Mutation_p.H933N|GON4L_uc001fmd.3_Missense_Mutation_p.H933N|GON4L_uc009wri.2_Missense_Mutation_p.H519N	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	933					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TCAGCCATGTGCCGCAGTTCT	0.428													4	161	---	---	---	---	PASS	T	155736467	T	T	155736467	3	4	11	1	0	0	0	0	1	0	0	0	6572	1319	46	3	4090	3	GON4L	1	155736467	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	3547970	155736467	93514154	19	6568										
ATP1A4	480	broad.mit.edu	37	chr1	160143418	160143418	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	attacagctaaggccattgcCaagggtgtgggcatcatctc	11	10	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:160143418C>A	uc001fve.3	+	13	2381	c.1902C>A	c.(1900-1902)GCC>GCA	p.A634A	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Silent_p.A137A	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	634	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AGGCCATTGCCAAGGGTGTGG	0.542													79	223	---	---	---	---	PASS	A	160143418	A	A	160143418	2	1	11	1	0	0	0	0	0	0	0	1	1131	581	21	3		3	ATP1A4	1	160143418	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	4406951	160143418	89107203	20	6569										
FCGR2A	2212	broad.mit.edu	37	chr1	161487886	161487886	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggcacctactgacgatgataAaaacatctacctgactcttc	6	12	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:161487886A>T	uc001gan.2	+	7	955	c.902A>T	c.(901-903)AAA>ATA	p.K301I	FCGR2A_uc001gam.2_Missense_Mutation_p.K300I|FCGR2A_uc001gao.2_RNA	NM_001136219	NP_001129691	P12318	FCG2A_HUMAN	Fc fragment of IgG, low affinity IIa, receptor	301	Cytoplasmic (Potential).					integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GACGATGATAAAAACATCTAC	0.398													64	586	---	---	---	---	PASS	T	161487886	T	T	161487886	3	4	11	1	0	0	0	0	1	0	0	0	5781	14	1	5	928	5	FCGR2A	1	161487886	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	1344468	161487886	87762735	21	6570										
TNN	63923	broad.mit.edu	37	chr1	175092665	175092665	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctctgctgacggagagaccaGggaggttccggtggggaagg	19	8	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:175092665G>T	uc001gkl.1	+	12	2893	c.2780G>T	c.(2779-2781)AGG>ATG	p.R927M		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	927	Fibronectin type-III 8.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GGAGAGACCAGGGAGGTTCCG	0.622													60	85	---	---	---	---	PASS	T	175092665	T	T	175092665	3	4	11	1	0	0	0	0	1	0	0	0	16320	1000	35	3	2822	3	TNN	1	175092665	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	13604779	175092665	74157956	22	6571										
DHX9	1660	broad.mit.edu	37	chr1	182823280	182823280	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agaaaagatccaaggagaatAtaagtacacccaagtgggtc	10	7	0	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:182823280A>G	uc001gpr.2	+	6	756	c.593A>G	c.(592-594)TAT>TGT	p.Y198C	DHX9_uc001gps.2_Translation_Start_Site	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9	198	DRBM 2.|Interaction with CREBBP.				CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						CAAGGAGAATATAAGTACACC	0.378													92	125	---	---	---	---	PASS	G	182823280	G	G	182823280	3	3	11	1	0	0	0	0	1	0	0	0	4516	449	16	5	611	5	DHX9	1	182823280	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	7730615	182823280	66427341	23	6572										
GNPAT	8443	broad.mit.edu	37	chr1	231403566	231403566	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tctgcttcagaaccggccatCcatggactttgatgctctgg	10	12	3	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:231403566C>T	uc001hup.3	+	9	1402	c.1196C>T	c.(1195-1197)TCC>TTC	p.S399F	GNPAT_uc009xfp.2_Missense_Mutation_p.S338F	NM_014236	NP_055051	O15228	GNPAT_HUMAN	glyceronephosphate O-acyltransferase	399					ether lipid biosynthetic process|fatty acid metabolic process|organ morphogenesis	peroxisomal matrix|peroxisomal membrane	glycerone-phosphate O-acyltransferase activity			ovary(3)|breast(1)	4	Breast(184;0.0871)	all_cancers(173;0.2)|Prostate(94;0.183)				AACCGGCCATCCATGGACTTT	0.458													84	74	---	---	---	---	PASS	T	231403566	T	T	231403566	3	4	11	1	0	0	0	0	1	0	0	0	6541	855	30	2	1230	2	GNPAT	1	231403566	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	48580286	231403566	17847055	24	6573										
TARBP1	6894	broad.mit.edu	37	chr1	234614038	234614038	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgtccgcctggcccagccccGcctgcaccgtcctccagaag	10	21	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:234614038G>T	uc001hwd.2	-	1	812	c.812C>A	c.(811-813)GCG>GAG	p.A271E		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	271					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			GCCCAGCCCCGCCTGCACCGT	0.527													2	2	---	---	---	---	PASS	T	234614038	T	T	234614038	3	4	11	1	0	0	0	0	1	0	0	0	15552	1087	38	1	4173	1	TARBP1	1	234614038	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	3210472	234614038	14636583	25	6574										
FMN2	56776	broad.mit.edu	37	chr1	240256727	240256727	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgtctcagtcccctaatcagAgccccaggatcaagaggcgg	11	14	3	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr1:240256727A>T	uc010pyd.1	+	1	1543	c.1318A>T	c.(1318-1320)AGC>TGC	p.S440C	FMN2_uc010pye.1_Missense_Mutation_p.S440C	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	440					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CCCTAATCAGAGCCCCAGGAT	0.662													42	64	---	---	---	---	PASS	T	240256727	T	T	240256727	3	4	11	1	0	0	0	0	1	0	0	0	5950	304	11	5	1320	5	FMN2	1	240256727	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	5642689	240256727	8993894	26	6575										
MYT1L	23040	broad.mit.edu	37	chr2	1812859	1812859	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggtgctcaccgttgctggccCgctgtttgatggtcagcatc	13	12	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:1812859C>T	uc002qxe.2	-	22	3988	c.3161G>A	c.(3160-3162)CGG>CAG	p.R1054Q	MYT1L_uc002qxd.2_Missense_Mutation_p.R1052Q|MYT1L_uc010ewk.2_Missense_Mutation_p.R50Q	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	1054					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		GTTGCTGGCCCGCTGTTTGAT	0.597													10	129	---	---	---	---	PASS	T	1812859	T	T	1812859	3	4	11	1	0	0	0	0	1	0	0	0	10107	652	23	1	415	1	MYT1L	2	1812859	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08		1812859	241386514	27	6576										
C2orf39	92749	broad.mit.edu	37	chr2	26624930	26624930	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgtccacccagattctcgcgCcctcggtccactccgacaac	7	19	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:26624930C>T	uc002rhg.2	+	1	147	c.73C>T	c.(73-75)CCC>TCC	p.P25S	C2orf39_uc010eym.1_RNA	NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	25											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GATTCTCGCGCCCTCGGTCCA	0.632													13	28	---	---	---	---	PASS	T	26624930	T	T	26624930	3	4	11	1	0	0	0	0	1	0	0	0	2164	739	26	3	75	3	C2orf39	2	26624930	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	24812071	26624930	216574443	28	6577										
SPAST	6683	broad.mit.edu	37	chr2	32361636	32361636	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	taatgctttgttttaggtggGagaaggagagaaattggtga	15	1	0	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:32361636G>C	uc002roc.2	+	10	1471	c.1250G>C	c.(1249-1251)GGA>GCA	p.G417A	SPAST_uc002rod.2_Missense_Mutation_p.G385A	NM_014946	NP_055761	Q9UBP0	SPAST_HUMAN	spastin isoform 1	417	Sufficient for microtubule severing.				cell cycle|cell death|cell differentiation|cytokinesis, completion of separation|ER to Golgi vesicle-mediated transport|microtubule bundle formation|microtubule severing|nervous system development|protein hexamerization|protein homooligomerization	endoplasmic reticulum|endosome|integral to membrane|microtubule|microtubule organizing center|nucleus|perinuclear region of cytoplasm|spindle	alpha-tubulin binding|ATP binding|beta-tubulin binding|microtubule binding|microtubule-severing ATPase activity			breast(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TTTTAGGTGGGAGAAGGAGAG	0.308													69	149	---	---	---	---	PASS	C	32361636	C	C	32361636	3	2	11	1	0	0	0	0	1	0	0	0	14996	1174	41	2	1288	2	SPAST	2	32361636	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	5736706	32361636	210837737	29	6578										
SLC8A1	6546	broad.mit.edu	37	chr2	40387975	40387975	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccaaccacaagggccaggttTgtcttcttaatgagtttgtc	9	10	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:40387975T>C	uc002rrx.2	-	8	2223	c.2199A>G	c.(2197-2199)ACA>ACG	p.T733T	uc002rrw.2_Intron|SLC8A1_uc002rry.2_Silent_p.T728T|SLC8A1_uc002rrz.2_Silent_p.T720T|SLC8A1_uc002rsa.2_Silent_p.T697T|SLC8A1_uc002rsd.3_Silent_p.T697T	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	733	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	GGGCCAGGTTTGTCTTCTTAA	0.413													64	98	---	---	---	---	PASS	C	40387975	C	C	40387975	2	2	11	1	0	0	0	0	0	0	0	1	14706	1799	63	5		5	SLC8A1	2	40387975	Silent	SNP	T	TCGA-18-3417-01A-01D-1441-08	8026339	40387975	202811398	30	6579										
SLC8A1	6546	broad.mit.edu	37	chr2	40656127	40656127	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gttagtcaaatcaccacctcTgcggataatggtaagggcca	10	10	3	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:40656127T>A	uc002rrx.2	-	1	1318	c.1294A>T	c.(1294-1296)AGA>TGA	p.R432*	SLC8A1_uc002rry.2_Nonsense_Mutation_p.R432*|SLC8A1_uc002rrz.2_Nonsense_Mutation_p.R432*|SLC8A1_uc002rsa.2_Nonsense_Mutation_p.R432*|SLC8A1_uc002rsd.3_Nonsense_Mutation_p.R432*|SLC8A1_uc002rsb.1_Nonsense_Mutation_p.R432*|SLC8A1_uc010fan.1_Nonsense_Mutation_p.R432*|SLC8A1_uc002rsc.1_Nonsense_Mutation_p.R432*	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	432	Calx-beta 1.|Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	TCACCACCTCTGCGGATAATG	0.433													65	112	---	---	---	---	PASS	A	40656127	A	A	40656127	4	1	11	1	0	0	0	0	0	1	0	0	14706	1588	55	5	1775	5	SLC8A1	2	40656127	Nonsense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	268152	40656127	202543246	31	6580										
PLEKHH2	130271	broad.mit.edu	37	chr2	43926841	43926841	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gttctagaaaacaacagaggCcagagaacattgcatcaaac	8	9	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:43926841C>T	uc010yny.1	+	8	827	c.744C>T	c.(742-744)GGC>GGT	p.G248G	PLEKHH2_uc002rte.3_Silent_p.G248G|PLEKHH2_uc002rtf.3_Silent_p.G247G	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	248						cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				ACAACAGAGGCCAGAGAACAT	0.418													26	147	---	---	---	---	PASS	T	43926841	T	T	43926841	2	4	11	1	0	0	0	0	0	0	0	1	12077	726	26	3		3	PLEKHH2	2	43926841	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	3270714	43926841	199272532	32	6581										
FBXO11	80204	broad.mit.edu	37	chr2	48059965	48059965	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agggctacaatttactgtaaTctctaagcagtggtgtgcat	10	7	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:48059965T>A	uc010fbl.2	-	9	958	c.844A>T	c.(844-846)ATT>TTT	p.I282F	FBXO11_uc002rwe.2_Missense_Mutation_p.I282F|FBXO11_uc002rwf.2_Missense_Mutation_p.I282F|FBXO11_uc002rwg.1_Missense_Mutation_p.I282F|FBXO11_uc010fbk.2_5'Flank	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	366					ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TTTACTGTAATCTCTAAGCAG	0.313													43	288	---	---	---	---	PASS	A	48059965	A	A	48059965	3	1	11	1	0	0	0	0	1	0	0	0	5727	1435	50	5	1837	5	FBXO11	2	48059965	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	4133124	48059965	195139408	33	6582										
FANCL	55120	broad.mit.edu	37	chr2	58425768	58425768	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	caaaatggaacaggaaaatcCacaaaataatctggtgattc	7	7	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:58425768C>A	uc002rzw.3	-	7	568	c.501G>T	c.(499-501)GTG>GTT	p.V167V	FANCL_uc002rzx.3_Silent_p.V167V|FANCL_uc010fce.2_Silent_p.V167V|FANCL_uc010fcf.1_Silent_p.V108V	NM_018062	NP_060532	Q9NW38	FANCL_HUMAN	Fanconi anemia, complementation group L isoform	167					DNA repair	cytoplasm|nucleoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CAGGAAAATCCACAAAATAAT	0.299								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				33	56	---	---	---	---	PASS	A	58425768	A	A	58425768	2	1	11	1	0	0	0	0	0	0	0	1	5670	581	21	3		3	FANCL	2	58425768	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	10365803	58425768	184773605	34	6583										
CEP68	23177	broad.mit.edu	37	chr2	65298860	65298860	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggcagcagtctccagggtcaCcaggagagggcggagcctcg	17	12	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:65298860C>A	uc002sdl.3	+	3	844	c.630C>A	c.(628-630)CAC>CAA	p.H210Q	CEP68_uc002sdj.2_Missense_Mutation_p.H210Q|CEP68_uc010yqb.1_Missense_Mutation_p.H210Q|CEP68_uc002sdk.3_Missense_Mutation_p.H210Q|CEP68_uc010yqc.1_Missense_Mutation_p.H210Q|CEP68_uc010yqd.1_Missense_Mutation_p.H210Q	NM_015147	NP_055962	Q76N32	CEP68_HUMAN	centrosomal protein 68kDa	210					centrosome organization	centrosome				skin(1)	1						TCCAGGGTCACCAGGAGAGGG	0.647													3	104	---	---	---	---	PASS	A	65298860	A	A	65298860	3	1	11	1	0	0	0	0	1	0	0	0	3258	506	18	3	636	3	CEP68	2	65298860	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	6873092	65298860	177900513	35	6584										
FAM136A	84908	broad.mit.edu	37	chr2	70528037	70528037	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cagaggcacatggcagcgctCgatgcactggtgcacctgct	13	13	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:70528037C>A	uc002sgq.3	-	2	240	c.163G>T	c.(163-165)GAG>TAG	p.E55*	FAM136A_uc010fdp.2_RNA	NM_032822	NP_116211	Q96C01	F136A_HUMAN	hypothetical protein LOC84908	55						mitochondrion	protein binding				0						TGGCAGCGCTCGATGCACTGG	0.572													5	319	---	---	---	---	PASS	A	70528037	A	A	70528037	4	1	11	1	0	0	0	0	0	1	0	0	5450	893	31	2	261	2	FAM136A	2	70528037	Nonsense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	5229177	70528037	172671336	36	6585										
CCT7	10574	broad.mit.edu	37	chr2	73477477	73477477	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccaaggccaagacatgcaccTtcattctccgtggcggcgcc	10	16	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:73477477T>C	uc002siz.2	+	10	1216	c.1114T>C	c.(1114-1116)TTC>CTC	p.F372L	CCT7_uc002sja.2_Missense_Mutation_p.F168L|CCT7_uc010yrf.1_Missense_Mutation_p.F328L|CCT7_uc010feu.2_Missense_Mutation_p.F330L|CCT7_uc010yrg.1_Missense_Mutation_p.F272L|CCT7_uc010yrh.1_Missense_Mutation_p.F244L|CCT7_uc010yri.1_Missense_Mutation_p.F285L	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	372					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						GACATGCACCTTCATTCTCCG	0.527													98	156	---	---	---	---	PASS	C	73477477	C	C	73477477	3	2	11	1	0	0	0	0	1	0	0	0	2959	1609	56	5	1152	5	CCT7	2	73477477	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	2949440	73477477	169721896	37	6586										
LRP1B	53353	broad.mit.edu	37	chr2	141643896	141643896	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agaaaagatgatgaatgcttCaaaaggatctgaaattaaat	8	3	2	5			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:141643896C>T	uc002tvj.1	-	24	4747	c.3775G>A	c.(3775-3777)GAA>AAA	p.E1259K	LRP1B_uc010fnl.1_Missense_Mutation_p.E441K	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1259	Extracellular (Potential).				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)		ATGAATGCTTCAAAAGGATCT	0.284										TSP Lung(27;0.18)			23	67	---	---	---	---	PASS	T	141643896	T	T	141643896	3	4	11	1	0	0	0	0	1	0	0	0	8955	835	29	2	10296	2	LRP1B	2	141643896	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	68166419	141643896	101555477	38	6587										
KIF5C	3800	broad.mit.edu	37	chr2	149850999	149850999	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggaacagaagaggaggcagcTagaagagtcccaggactcgc	15	9	0	4			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:149850999T>A	uc010zbu.1	+	17	2338	c.1970T>A	c.(1969-1971)CTA>CAA	p.L657Q	KIF5C_uc002tws.1_RNA|KIF5C_uc002twt.2_Missense_Mutation_p.L209Q	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	657					microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		AGGAGGCAGCTAGAAGAGTCC	0.493													4	4	---	---	---	---	PASS	A	149850999	A	A	149850999	3	1	11	1	0	0	0	0	1	0	0	0	8307	1522	53	5	1958	5	KIF5C	2	149850999	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	8207103	149850999	93348374	39	6588										
NEB	4703	broad.mit.edu	37	chr2	152520196	152520196	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cttcttggctgccaccacacTgagcatgtccaccggggtgt	11	14	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:152520196T>A	uc010fnx.2	-	45	5820	c.5629A>T	c.(5629-5631)AGT>TGT	p.S1877C		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1877	Nebulin 49.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GCCACCACACTGAGCATGTCC	0.517													4	56	---	---	---	---	PASS	A	152520196	A	A	152520196	3	1	11	1	0	0	0	0	1	0	0	0	10302	1580	55	5	20609	5	NEB	2	152520196	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	2669197	152520196	90679177	40	6589										
PARD3B	117583	broad.mit.edu	37	chr2	206050578	206050578	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gggattgggcctcgaagattAcagccacaggtattgataaa	12	7	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:206050578A>T	uc002var.1	+	14	2222	c.2015A>T	c.(2014-2016)TAC>TTC	p.Y672F	PARD3B_uc010fub.1_Missense_Mutation_p.Y672F|PARD3B_uc002vao.1_Missense_Mutation_p.Y672F|PARD3B_uc002vap.1_Missense_Mutation_p.Y610F|PARD3B_uc002vaq.1_Missense_Mutation_p.Y672F	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	672					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		CTCGAAGATTACAGCCACAGG	0.423													62	78	---	---	---	---	PASS	T	206050578	T	T	206050578	3	4	11	1	0	0	0	0	1	0	0	0	11444	391	14	5	2069	5	PARD3B	2	206050578	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	53530382	206050578	37148795	41	6590										
FN1	2335	broad.mit.edu	37	chr2	216269278	216269278	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cttcgggtaaggcccacggtCagtcggtatcctgttatctg	12	11	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:216269278C>T	uc002vfa.2	-	20	3353	c.3087G>A	c.(3085-3087)CTG>CTA	p.L1029L	FN1_uc002vfb.2_Silent_p.L1029L|FN1_uc002vfc.2_Silent_p.L1029L|FN1_uc002vfd.2_Silent_p.L1029L|FN1_uc002vfe.2_Silent_p.L1029L|FN1_uc002vff.2_Silent_p.L1029L|FN1_uc002vfg.2_Silent_p.L1029L|FN1_uc002vfh.2_Silent_p.L1029L|FN1_uc002vfi.2_Silent_p.L1029L|FN1_uc002vfj.2_Silent_p.L1029L	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1029	|Fibronectin type-III 5.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGCCCACGGTCAGTCGGTATC	0.537													35	147	---	---	---	---	PASS	T	216269278	T	T	216269278	2	4	11	1	0	0	0	0	0	0	0	1	5962	813	29	2		2	FN1	2	216269278	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	10218700	216269278	26930095	42	6591										
SLC11A1	6556	broad.mit.edu	37	chr2	219254677	219254677	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aggccaccatcgccctgtccGtctcctttatcatcaacctc	5	18	3	0	rs140981969	byFrequency	TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr2:219254677G>A	uc002vhv.2	+	9	1220	c.880G>A	c.(880-882)GTC>ATC	p.V294I	SLC11A1_uc010fvp.1_Missense_Mutation_p.V294I|SLC11A1_uc010fvq.1_Missense_Mutation_p.V227I|SLC11A1_uc010zkc.1_Missense_Mutation_p.V227I|SLC11A1_uc002vhu.1_Missense_Mutation_p.V89I|SLC11A1_uc002vhw.2_Missense_Mutation_p.V176I|SLC11A1_uc010fvr.2_Missense_Mutation_p.V89I	NM_000578	NP_000569	P49279	NRAM1_HUMAN	natural resistance-associated macrophage protein	294	Helical; (Potential).				activation of protein kinase activity|antigen processing and presentation of peptide antigen|cadmium ion transmembrane transport|cellular cadmium ion homeostasis|cellular iron ion homeostasis|defense response to Gram-negative bacterium|defense response to protozoan|divalent metal ion export|inflammatory response|interleukin-2 production|interleukin-3 production|iron ion transport|L-arginine import|macrophage activation|MHC class II biosynthetic process|mRNA stabilization|multicellular organismal iron ion homeostasis|negative regulation of cytokine production|nitrite transport|phagocytosis|positive regulation of dendritic cell antigen processing and presentation|positive regulation of interferon-gamma production|positive regulation of phagocytosis|positive regulation of T-helper 1 type immune response|positive regulation of transcription from RNA polymerase II promoter|respiratory burst|response to interferon-gamma|response to lipopolysaccharide|T cell cytokine production|T cell proliferation involved in immune response|vacuolar acidification|wound healing	integral to plasma membrane|late endosome membrane|lysosome|phagocytic vesicle membrane|tertiary granule membrane	manganese ion transmembrane transporter activity|metal ion:hydrogen antiporter activity|protein homodimerization activity			ovary(3)|central_nervous_system(1)	4		Renal(207;0.0474)		Epithelial(149;1.16e-06)|all cancers(144;0.000195)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CGCCCTGTCCGTCTCCTTTAT	0.547													23	40	---	---	---	---	PASS	A	219254677	A	A	219254677	3	1	11	1	0	0	0	0	1	0	0	0	14380	1145	40	1	914	1	SLC11A1	2	219254677	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	2985399	219254677	23944696	43	6592										
IL5RA	3568	broad.mit.edu	37	chr3	3143397	3143397	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tggtggggcatgaagttcagCagaagcccagctgctggcca	15	10	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:3143397C>A	uc011ask.1	-	6	990	c.346G>T	c.(346-348)GCT>TCT	p.A116S	IL5RA_uc010hbq.2_Missense_Mutation_p.A116S|IL5RA_uc010hbr.2_Missense_Mutation_p.A116S|IL5RA_uc010hbs.2_Missense_Mutation_p.A116S|IL5RA_uc011asl.1_Missense_Mutation_p.A116S|IL5RA_uc011asm.1_Missense_Mutation_p.A116S|IL5RA_uc010hbt.2_Missense_Mutation_p.A116S|IL5RA_uc011asn.1_Missense_Mutation_p.A116S|IL5RA_uc010hbu.2_Missense_Mutation_p.A116S	NM_000564	NP_000555	Q01344	IL5RA_HUMAN	interleukin 5 receptor, alpha isoform 1	116	Extracellular (Potential).				cell proliferation	extracellular space|integral to membrane|plasma membrane	interleukin-5 receptor activity			ovary(1)	1				Epithelial(13;0.00278)|all cancers(10;0.00809)|OV - Ovarian serous cystadenocarcinoma(96;0.00944)		TGAAGTTCAGCAGAAGCCCAG	0.463													21	87	---	---	---	---	PASS	A	3143397	A	A	3143397	3	1	11	1	0	0	0	0	1	0	0	0	7700	710	25	3	974	3	IL5RA	3	3143397	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08		3143397	194879033	44	6593										
GRM7	2917	broad.mit.edu	37	chr3	7721755	7721755	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gctctacatacaaactaccaCgcttacaatctccatgaacc	3	15	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:7721755C>T	uc003bqm.2	+	9	2745	c.2471C>T	c.(2470-2472)ACG>ATG	p.T824M	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.T824M|GRM7_uc003bql.2_Missense_Mutation_p.T824M|GRM7_uc003bqn.1_Missense_Mutation_p.T407M	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	824	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	CAAACTACCACGCTTACAATC	0.438													26	56	---	---	---	---	PASS	T	7721755	T	T	7721755	3	4	11	1	0	0	0	0	1	0	0	0	6802	536	19	1	2505	1	GRM7	3	7721755	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	4578358	7721755	190300675	45	6594										
CAMK1	8536	broad.mit.edu	37	chr3	9803340	9803340	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tatcccggagttccacaggcGgtggagagcacactgcccgg	14	13	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:9803340G>C	uc003bst.2	-	6	709	c.531C>G	c.(529-531)ACC>ACG	p.T177T	OGG1_uc003bsk.2_Intron|OGG1_uc003bsl.2_Intron|OGG1_uc003bsm.2_Intron|OGG1_uc003bsn.2_Intron|OGG1_uc003bso.2_Intron|CAMK1_uc003bsu.2_RNA|CAMK1_uc003bss.2_5'Flank|uc003bsv.1_RNA	NM_003656	NP_003647	Q14012	KCC1A_HUMAN	calcium/calmodulin-dependent protein kinase I	177	Protein kinase.			T->A: Loss of activation by CaMKK1.|T->D: Partial activation in absence of CaMKK1.	cell differentiation|nervous system development|positive regulation of muscle cell differentiation|signal transduction	cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|skin(1)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.0475)		TTCCACAGGCGGTGGAGAGCA	0.587													28	69	---	---	---	---	PASS	C	9803340	C	C	9803340	2	2	11	1	0	0	0	0	0	0	0	1	2596	1103	39	4		4	CAMK1	3	9803340	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	2081585	9803340	188219090	46	6595										
STAC	6769	broad.mit.edu	37	chr3	36485038	36485038	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctgacgtccacacccgccagGgctggtctgcatccaggtgg	13	15	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:36485038G>T	uc003cgh.1	+	2	333	c.294G>T	c.(292-294)AGG>AGT	p.R98S	STAC_uc010hgd.1_RNA|STAC_uc011aya.1_Missense_Mutation_p.R98S	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	98					intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						CACCCGCCAGGGCTGGTCTGC	0.557													89	122	---	---	---	---	PASS	T	36485038	T	T	36485038	3	4	11	1	0	0	0	0	1	0	0	0	15238	1223	43	3	300	3	STAC	3	36485038	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	26681698	36485038	161537392	47	6596										
DCLK3	85443	broad.mit.edu	37	chr3	36763059	36763059	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gagctacgtaagttggggtcCcacacacagtaaatataggt	11	8	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:36763059C>G	uc003cgi.2	-	3	2035	c.1544G>C	c.(1543-1545)GGG>GCG	p.G515A		NM_033403	NP_208382	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	515	Protein kinase.					cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			lung(3)|large_intestine(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	9						AGTTGGGGTCCCACACACAGT	0.408													64	227	---	---	---	---	PASS	G	36763059	G	G	36763059	3	3	11	1	0	0	0	0	1	0	0	0	4293	623	22	4	414	4	DCLK3	3	36763059	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	278021	36763059	161259371	48	6597										
ZNF445	353274	broad.mit.edu	37	chr3	44488820	44488820	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttctctccagtgtgaactctCtgatggatgaggaggaatga	12	7	2	4			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:44488820C>A	uc003cnf.2	-	8	2691	c.2343G>T	c.(2341-2343)CAG>CAT	p.Q781H	ZNF445_uc011azv.1_Missense_Mutation_p.Q769H|ZNF445_uc011azw.1_Missense_Mutation_p.Q781H	NM_181489	NP_852466	P59923	ZN445_HUMAN	zinc finger protein 445	781	C2H2-type 8.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		TGTGAACTCTCTGATGGATGA	0.507													3	54	---	---	---	---	PASS	A	44488820	A	A	44488820	3	1	11	1	0	0	0	0	1	0	0	0	17915	912	32	2	756	2	ZNF445	3	44488820	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	7725761	44488820	153533610	49	6598										
SEMA3F	6405	broad.mit.edu	37	chr3	50197101	50197101	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gggcttccctactgaccgggGcctggccatccttccccacc	10	19	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:50197101G>T	uc003cyj.2	+	2	244	c.46G>T	c.(46-48)GCC>TCC	p.A16S	SEMA3F_uc003cyk.2_Missense_Mutation_p.A16S	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	16					axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		ACTGACCGGGGCCTGGCCATC	0.602													27	49	---	---	---	---	PASS	T	50197101	T	T	50197101	3	4	11	1	0	0	0	0	1	0	0	0	14029	1203	42	3	48	3	SEMA3F	3	50197101	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	5708281	50197101	147825329	50	6599										
PBRM1	55193	broad.mit.edu	37	chr3	52621527	52621527	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gccatacaaccatttttcacCtcaaaaatggggggtggggg	12	9	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:52621527C>T	uc003des.2	-	19	2978	c.2966_splice	c.e19-1	p.G989_splice	PBRM1_uc003dex.2_Splice_Site|PBRM1_uc003deq.2_Splice_Site_p.G989_splice|PBRM1_uc003der.2_Splice_Site_p.G957_splice|PBRM1_uc003det.2_Splice_Site_p.G1004_splice|PBRM1_uc003deu.2_Splice_Site_p.G1004_splice|PBRM1_uc003dev.2_Splice_Site|PBRM1_uc003dew.2_Splice_Site_p.G989_splice|PBRM1_uc010hmk.1_Intron|PBRM1_uc003dey.2_Intron|PBRM1_uc003dez.1_Splice_Site_p.G988_splice|PBRM1_uc003dfb.1_Splice_Site_p.G901_splice|PBRM1_uc003dfa.1_Splice_Site_p.G335_splice	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4						chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		CATTTTTCACCTCAAAAATGG	0.313			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								54	48	---	---	---	---	PASS	T	52621527	T	T	52621527	5	4	11	1	0	0	0	0	0	0	1	0	11491	695	24	3	1983	3	PBRM1	3	52621527	Splice_Site	SNP	C	TCGA-18-3417-01A-01D-1441-08	2424426	52621527	145400903	51	6600										
PBRM1	55193	broad.mit.edu	37	chr3	52685796	52685796	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggtcttgagatctataggctCcttaattattgcataataat	7	6	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:52685796C>G	uc003des.2	-	6	688	c.676G>C	c.(676-678)GAG>CAG	p.E226Q	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.E226Q|PBRM1_uc003der.2_Missense_Mutation_p.E226Q|PBRM1_uc003det.2_Missense_Mutation_p.E226Q|PBRM1_uc003deu.2_Missense_Mutation_p.E226Q|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.E226Q|PBRM1_uc010hmk.1_Missense_Mutation_p.E226Q|PBRM1_uc003dey.2_Missense_Mutation_p.E226Q|PBRM1_uc003dez.1_Missense_Mutation_p.E226Q|PBRM1_uc003dfb.1_Missense_Mutation_p.E124Q	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	226	Bromo 2.		E -> G (found in hematopoietic and lymphoid cancer cell lines).		chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TCTATAGGCTCCTTAATTATT	0.368			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								96	103	---	---	---	---	PASS	G	52685796	G	G	52685796	3	3	11	1	0	0	0	0	1	0	0	0	11491	864	30	2	4324	2	PBRM1	3	52685796	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	64269	52685796	145336634	52	6601										
ITIH1	3697	broad.mit.edu	37	chr3	52822040	52822040	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgcagccttctcctactcatTccagctccaatacccagcgg	6	17	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:52822040T>A	uc003dfs.2	+	17	1987	c.1963T>A	c.(1963-1965)TCC>ACC	p.S655T	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Missense_Mutation_p.S256T|ITIH1_uc010hmo.1_Missense_Mutation_p.S209T|ITIH1_uc003dfu.2_Missense_Mutation_p.S21T	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	655	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		TCCTACTCATTCCAGCTCCAA	0.617													48	212	---	---	---	---	PASS	A	52822040	A	A	52822040	3	1	11	1	0	0	0	0	1	0	0	0	7903	1783	62	5	2029	5	ITIH1	3	52822040	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	136244	52822040	145200390	53	6602										
FAM19A1	407738	broad.mit.edu	37	chr3	68466452	68466452	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggagggacgtgtgaagtgatAgcagcacaccgatgttgtaa	15	6	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:68466452A>G	uc003dnd.2	+	3	357	c.141A>G	c.(139-141)ATA>ATG	p.I47M	FAM19A1_uc003dne.2_Missense_Mutation_p.I47M|FAM19A1_uc003dng.2_Missense_Mutation_p.I47M	NM_213609	NP_998774	Q7Z5A9	F19A1_HUMAN	family with sequence similarity 19 (chemokine	47						endoplasmic reticulum|extracellular region				ovary(1)	1		Lung NSC(201;0.0117)		BRCA - Breast invasive adenocarcinoma(55;7.7e-05)|Epithelial(33;0.000937)|KIRC - Kidney renal clear cell carcinoma(39;0.0579)|Kidney(39;0.0743)		GTGAAGTGATAGCAGCACACC	0.478													18	47	---	---	---	---	PASS	G	68466452	G	G	68466452	3	3	11	1	0	0	0	0	1	0	0	0	5531	410	15	5	147	5	FAM19A1	3	68466452	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	15644412	68466452	129555978	54	6603										
GPR27	2850	broad.mit.edu	37	chr3	71804003	71804003	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agggccgggccgcggcgcgcGccgcctcctcgtgctggaag	18	16	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:71804003G>T	uc011bge.1	+	1	803	c.803G>T	c.(802-804)CGC>CTC	p.R268L	EIF4E3_uc003dox.2_5'Flank|EIF4E3_uc011bgd.1_5'Flank|EIF4E3_uc010hoc.2_5'Flank	NM_018971	NP_061844	Q9NS67	GPR27_HUMAN	G protein-coupled receptor 27	268	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Prostate(10;0.00899)		BRCA - Breast invasive adenocarcinoma(55;1.78e-05)|Epithelial(33;5.75e-05)|Lung(16;0.0012)|LUSC - Lung squamous cell carcinoma(21;0.00156)		cgcggcgcgcgccgccTCCTC	0.557													9	13	---	---	---	---	PASS	T	71804003	T	T	71804003	3	4	11	1	0	0	0	0	1	0	0	0	6685	1087	38	1	805	1	GPR27	3	71804003	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	3337551	71804003	126218427	55	6604										
EPHA6	285220	broad.mit.edu	37	chr3	97194270	97194270	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttggcggattcactctcctcGtcatcctcactttattcttc	5	14	5	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:97194270G>A	uc010how.1	+	8	2012	c.1969G>A	c.(1969-1971)GTC>ATC	p.V657I	EPHA6_uc011bgo.1_RNA|EPHA6_uc011bgp.1_Missense_Mutation_p.V23I|EPHA6_uc003drs.3_Missense_Mutation_p.V49I|EPHA6_uc003drr.3_Missense_Mutation_p.V49I|EPHA6_uc003drt.2_Missense_Mutation_p.V49I|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	562	Helical; (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CACTCTCCTCGTCATCCTCAC	0.403													4	31	---	---	---	---	PASS	A	97194270	A	A	97194270	3	1	11	1	0	0	0	0	1	0	0	0	5171	1145	40	1	2067	1	EPHA6	3	97194270	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	25390267	97194270	100828160	56	6605										
CEP97	79598	broad.mit.edu	37	chr3	101481404	101481404	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttcagattcctttggaaccaGgtaaactccctcctgctgat	7	12	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:101481404G>T	uc003dvk.1	+	10	1920	c.1893G>T	c.(1891-1893)CAG>CAT	p.Q631H	CEP97_uc011bhf.1_Missense_Mutation_p.Q572H|CEP97_uc003dvl.1_Missense_Mutation_p.Q327H|CEP97_uc003dvm.1_Missense_Mutation_p.Q469H	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	631	CEP110 binding.					centrosome|nucleus	protein binding			ovary(2)	2						TTTGGAACCAGGTAAACTCCC	0.313													51	123	---	---	---	---	PASS	T	101481404	T	T	101481404	3	4	11	1	0	0	0	0	1	0	0	0	3263	1014	35	3	1931	3	CEP97	3	101481404	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	4287134	101481404	96541026	57	6606										
ZBTB20	26137	broad.mit.edu	37	chr3	114058223	114058223	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	catgtgcttgataaggtaatCctttaaggagaaggagcgcc	12	7	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:114058223C>G	uc003ebi.2	-	5	2035	c.1855G>C	c.(1855-1857)GAT>CAT	p.D619H	ZBTB20_uc003ebj.2_Missense_Mutation_p.D546H|ZBTB20_uc010hqp.2_Missense_Mutation_p.D546H|ZBTB20_uc003ebk.2_Missense_Mutation_p.D546H|ZBTB20_uc003ebl.2_Missense_Mutation_p.D546H|ZBTB20_uc003ebm.2_Missense_Mutation_p.D546H|ZBTB20_uc003ebn.2_Missense_Mutation_p.D546H	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	619	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		ATAAGGTAATCCTTTAAGGAG	0.512													29	132	---	---	---	---	PASS	G	114058223	G	G	114058223	3	3	11	1	0	0	0	0	1	0	0	0	17526	855	30	2	374	2	ZBTB20	3	114058223	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	12576819	114058223	83964207	58	6607										
POLQ	10721	broad.mit.edu	37	chr3	121208879	121208879	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gaaattacaattaaaggaacTtgtatgctctctacttttat	5	6	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:121208879T>C	uc003eee.3	-	16	3028	c.2899A>G	c.(2899-2901)AGT>GGT	p.S967G	POLQ_uc003eed.2_Missense_Mutation_p.S139G	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	967					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TTAAAGGAACTTGTATGCTCT	0.299								DNA_polymerases_(catalytic_subunits)					21	86	---	---	---	---	PASS	C	121208879	C	C	121208879	3	2	11	1	0	0	0	0	1	0	0	0	12208	1609	56	5	4933	5	POLQ	3	121208879	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	7150656	121208879	76813551	59	6608										
COPG	22820	broad.mit.edu	37	chr3	128987831	128987831	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aagtggcagctaccaggcagGagatcttccagggtgagtca	14	9	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:128987831G>T	uc003els.2	+	18	1931	c.1831G>T	c.(1831-1833)GAG>TAG	p.E611*	COPG_uc010htb.2_Nonsense_Mutation_p.E517*	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	611	Interaction with ZNF289/ARFGAP2.				COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						TACCAGGCAGGAGATCTTCCA	0.468													44	128	---	---	---	---	PASS	T	128987831	T	T	128987831	4	4	11	1	0	0	0	0	0	1	0	0	3731	1175	41	2	1901	2	COPG	3	128987831	Nonsense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	7778952	128987831	69034599	60	6609										
PLXND1	23129	broad.mit.edu	37	chr3	129284817	129284817	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgttgagtagtgaggagaacAagctaattccctcttccatg	10	8	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:129284817A>G	uc003emx.2	-	24	4335	c.4235T>C	c.(4234-4236)TTG>TCG	p.L1412S	PLXND1_uc011blb.1_Missense_Mutation_p.L80S	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1412	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						TGAGGAGAACAAGCTAATTCC	0.562													9	48	---	---	---	---	PASS	G	129284817	G	G	129284817	3	3	11	1	0	0	0	0	1	0	0	0	12127	131	5	5	1594	5	PLXND1	3	129284817	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	296986	129284817	68737613	61	6610										
NPHP3	27031	broad.mit.edu	37	chr3	132440894	132440894	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aactcctggttcttgctgacGcgaaagatctcgtactcctt	8	12	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:132440894G>A	uc003epe.1	-	1	383	c.306C>T	c.(304-306)CGC>CGT	p.R102R	NCRNA00119_uc003epg.1_5'Flank|NPHP3_uc003epf.1_5'UTR|NCRNA00119_uc010htu.1_5'Flank	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	102	Potential.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						TCTTGCTGACGCGAAAGATCT	0.647													12	85	---	---	---	---	PASS	A	132440894	A	A	132440894	2	1	11	1	0	0	0	0	0	0	0	1	10580	1074	38	1		1	NPHP3	3	132440894	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	3156077	132440894	65581536	62	6611										
C3orf58	205428	broad.mit.edu	37	chr3	143691417	143691417	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gaggcgtggggccgcttgcgCctgctggacttcctcaacgt	15	13	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:143691417C>A	uc003evo.2	+	1	778	c.243C>A	c.(241-243)CGC>CGA	p.R81R	C3orf58_uc011bnl.1_5'Flank	NM_173552	NP_775823	Q8NDZ4	CC058_HUMAN	hypothetical protein LOC205428 isoform a	81						COPI vesicle coat|extracellular region				ovary(1)	1						GCCGCTTGCGCCTGCTGGACT	0.682													27	70	---	---	---	---	PASS	A	143691417	A	A	143691417	2	1	11	1	0	0	0	0	0	0	0	1	2236	726	26	3		3	C3orf58	3	143691417	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	11250523	143691417	54331013	63	6612										
NAALADL2	254827	broad.mit.edu	37	chr3	174815049	174815049	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tatcaagagattctcaagacAatccaggcagaagatattaa	7	7	2	4			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:174815049A>C	uc003fit.2	+	2	600	c.513A>C	c.(511-513)ACA>ACC	p.T171T	NAALADL2_uc003fiu.1_Silent_p.T164T	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	171	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		TTCTCAAGACAATCCAGGCAG	0.378													8	315	---	---	---	---	PASS	C	174815049	C	C	174815049	2	2	11	1	0	0	0	0	0	0	0	1	10130	117	5	5		5	NAALADL2	3	174815049	Silent	SNP	A	TCGA-18-3417-01A-01D-1441-08	31123632	174815049	23207381	64	6613										
PEX5L	51555	broad.mit.edu	37	chr3	179529588	179529588	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tttgcacttagcttcctttaCctctggagggcgacaatagc	9	11	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:179529588C>T	uc003fki.1	-	11	1284	c.1154_splice	c.e11+1	p.R385_splice	PEX5L_uc011bqd.1_Splice_Site_p.R342_splice|PEX5L_uc011bqe.1_Splice_Site_p.R193_splice|PEX5L_uc011bqf.1_Splice_Site_p.R277_splice|PEX5L_uc003fkj.1_Splice_Site_p.R350_splice|PEX5L_uc010hxd.1_Splice_Site_p.R383_splice|PEX5L_uc011bqg.1_Splice_Site_p.R361_splice|PEX5L_uc011bqh.1_Splice_Site_p.R326_splice	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like						protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			GCTTCCTTTACCTCTGGAGGG	0.428													127	148	---	---	---	---	PASS	T	179529588	T	T	179529588	5	4	11	1	0	0	0	0	0	0	1	0	11749	521	18	3	745	3	PEX5L	3	179529588	Splice_Site	SNP	C	TCGA-18-3417-01A-01D-1441-08	4714539	179529588	18492842	65	6614										
MCCC1	56922	broad.mit.edu	37	chr3	182775130	182775130	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cctcaatgatcttctgatgtCgcctctgcacactacagtct	6	14	5	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:182775130C>A	uc003fle.2	-	8	979	c.842G>T	c.(841-843)CGA>CTA	p.R281L	MCCC1_uc010hxi.2_RNA|MCCC1_uc011bqo.1_RNA|MCCC1_uc003flf.2_Missense_Mutation_p.R164L|MCCC1_uc003flg.2_Missense_Mutation_p.R172L|MCCC1_uc011bqp.1_Missense_Mutation_p.R234L|MCCC1_uc011bqq.1_Missense_Mutation_p.R172L	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	281	Biotin carboxylation.|ATP-grasp.				biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	CTTCTGATGTCGCCTCTGCAC	0.428													31	35	---	---	---	---	PASS	A	182775130	A	A	182775130	3	1	11	1	0	0	0	0	1	0	0	0	9374	884	31	2	1383	2	MCCC1	3	182775130	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	3245542	182775130	15247300	66	6615										
MCCC1	56922	broad.mit.edu	37	chr3	182775210	182775210	+	Missense_Mutation	SNP	C	A	A													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aacacctggacttctacatgCctatataaaagcaaacatgt					rs149389595		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:182775210C>A	uc003fle.2	-	8	899	c.762G>T	c.(760-762)AGG>AGT	p.R254S	MCCC1_uc010hxi.2_RNA|MCCC1_uc011bqo.1_RNA|MCCC1_uc003flf.2_Missense_Mutation_p.R137S|MCCC1_uc003flg.2_Missense_Mutation_p.R145S|MCCC1_uc011bqp.1_Missense_Mutation_p.R207S|MCCC1_uc011bqq.1_Missense_Mutation_p.R145S	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	254	Biotin carboxylation.|ATP-grasp.				biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	CTTCTACATGCCTATATAAAA	0.393													11	41	---	---	---	---	PASS	A	182775210	A	A	182775210	3	1	11	1	0	0	0	0	1	0	0	0	9374	753	26	3	1463	3	MCCC1	3	182775210	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	80	182775210	15247220	67	6616	221	2								
MCCC1	56922	broad.mit.edu	37	chr3	182775211	182775211	+	Splice_Site	SNP	C	A	A													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	acacctggacttctacatgcCtatataaaagcaaacatgta							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:182775211C>A	uc003fle.2	-	8	899	c.762_splice	c.e8-1	p.R254_splice	MCCC1_uc010hxi.2_Splice_Site|MCCC1_uc011bqo.1_Splice_Site|MCCC1_uc003flf.2_Splice_Site_p.R137_splice|MCCC1_uc003flg.2_Splice_Site_p.R145_splice|MCCC1_uc011bqp.1_Splice_Site_p.R207_splice|MCCC1_uc011bqq.1_Splice_Site_p.R145_splice	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)						biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	TTCTACATGCCTATATAAAAG	0.388													11	40	---	---	---	---	PASS	A	182775211	A	A	182775211	5	1	11	1	0	0	0	0	0	0	1	0	9374	695	24	3	1464	3	MCCC1	3	182775211	Splice_Site	SNP	C	TCGA-18-3417-01A-01D-1441-08	1	182775211	15247219	68	6617	221	2								
IGF2BP2	10644	broad.mit.edu	37	chr3	185393116	185393116	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	catatcattttcaaaggcctCacgcagcttcttcataatct	4	12	6	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:185393116C>T	uc003fpo.2	-	9	1118	c.1039G>A	c.(1039-1041)GAG>AAG	p.E347K	IGF2BP2_uc010hyi.2_Missense_Mutation_p.E290K|IGF2BP2_uc010hyj.2_Missense_Mutation_p.E284K|IGF2BP2_uc010hyk.2_Missense_Mutation_p.E211K|IGF2BP2_uc010hyl.2_Missense_Mutation_p.E284K|IGF2BP2_uc003fpp.2_Missense_Mutation_p.E347K|IGF2BP2_uc003fpq.2_Missense_Mutation_p.E352K	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	347					anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			TCAAAGGCCTCACGCAGCTTC	0.453													40	251	---	---	---	---	PASS	T	185393116	T	T	185393116	3	4	11	1	0	0	0	0	1	0	0	0	7574	835	29	2	792	2	IGF2BP2	3	185393116	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	2617905	185393116	12629314	69	6618										
LPP	4026	broad.mit.edu	37	chr3	188242542	188242542	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agcatcttggctgaccttgaGtgcagctccccctataagcc	9	14	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:188242542G>C	uc003frs.1	+	5	642	c.396G>C	c.(394-396)GAG>GAC	p.E132D	LPP_uc011bsg.1_Missense_Mutation_p.E132D|LPP_uc011bsi.1_Missense_Mutation_p.E132D|LPP_uc003frt.2_Missense_Mutation_p.E132D	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	132	Pro-rich.				cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		CTGACCTTGAGTGCAGCTCCC	0.542			T	HMGA2|MLL|C12orf9	lipoma|leukemia								14	299	---	---	---	---	PASS	C	188242542	C	C	188242542	3	2	11	1	0	0	0	0	1	0	0	0	8923	1020	36	4	406	4	LPP	3	188242542	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	2849426	188242542	9779888	70	6619										
LRRC33	375387	broad.mit.edu	37	chr3	196387954	196387954	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctgggggcattgccagactgCccattccaagggacctccct	11	15	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr3:196387954C>A	uc003fwv.2	+	3	1544	c.1440C>A	c.(1438-1440)TGC>TGA	p.C480*		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	480	Extracellular (Potential).|LRR 16.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		TGCCAGACTGCCCATTCCAAG	0.597													74	139	---	---	---	---	PASS	A	196387954	A	A	196387954	4	1	11	1	0	0	0	0	0	1	0	0	8988	747	26	3	1446	3	LRRC33	3	196387954	Nonsense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	8145412	196387954	1634476	71	6620										
KDR	3791	broad.mit.edu	37	chr4	55972058	55972058	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctttgttgaccgcttcacatTtgtacaaagctgacacattt	6	10	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:55972058T>A	uc003has.2	-	12	1888	c.1586A>T	c.(1585-1587)AAA>ATA	p.K529I	KDR_uc003hat.1_Missense_Mutation_p.K529I|KDR_uc011bzx.1_Missense_Mutation_p.K529I	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	529	Ig-like C2-type 5.|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)	CGCTTCACATTTGTACAAAGC	0.488			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			53	347	---	---	---	---	PASS	A	55972058	A	A	55972058	3	1	11	1	0	0	0	0	1	0	0	0	8139	1841	64	5	2560	5	KDR	4	55972058	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08		55972058	135182218	72	6621										
CEP135	9662	broad.mit.edu	37	chr4	56841063	56841063	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctagagagactccaacatatAatacagcgaagatcttgctc	7	10	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:56841063A>G	uc003hbi.2	+	11	1635	c.1401A>G	c.(1399-1401)ATA>ATG	p.I467M	CEP135_uc003hbj.2_Missense_Mutation_p.I173M	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	467	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					TCCAACATATAATACAGCGAA	0.373													60	143	---	---	---	---	PASS	G	56841063	G	G	56841063	3	3	11	1	0	0	0	0	1	0	0	0	3247	352	13	5	1439	5	CEP135	4	56841063	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	869005	56841063	134313213	73	6622										
AASDH	132949	broad.mit.edu	37	chr4	57215750	57215750	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cccaataagaactggagaatTtaagcctttcaaattttgaa	6	7	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:57215750T>C	uc003hbn.2	-	11	2320	c.2167A>G	c.(2167-2169)AAT>GAT	p.N723D	AASDH_uc010ihb.2_Missense_Mutation_p.N238D|AASDH_uc011caa.1_Missense_Mutation_p.N570D|AASDH_uc003hbo.2_Missense_Mutation_p.N623D|AASDH_uc011cab.1_Missense_Mutation_p.N238D|AASDH_uc010ihc.2_Missense_Mutation_p.N723D|AASDH_uc003hbp.2_Missense_Mutation_p.N723D	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	723					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				ACTGGAGAATTTAAGCCTTTC	0.398													18	128	---	---	---	---	PASS	C	57215750	C	C	57215750	3	2	11	1	0	0	0	0	1	0	0	0	22	1841	64	5	1149	5	AASDH	4	57215750	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	374687	57215750	133938526	74	6623										
LPHN3	23284	broad.mit.edu	37	chr4	62775413	62775413	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gcctcctagatgtacagcttCggaacttgaccccaggtgga	11	12	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:62775413C>T	uc010ihh.2	+	9	1992	c.1819C>T	c.(1819-1821)CGG>TGG	p.R607W	LPHN3_uc003hcq.3_Missense_Mutation_p.R607W|LPHN3_uc003hct.2_Missense_Mutation_p.R13W|LPHN3_uc003hcs.1_Missense_Mutation_p.R436W	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	607	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						TGTACAGCTTCGGAACTTGAC	0.428													4	14	---	---	---	---	PASS	T	62775413	T	T	62775413	3	4	11	1	0	0	0	0	1	0	0	0	8917	875	31	2	1853	2	LPHN3	4	62775413	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	5559663	62775413	128378863	75	6624										
AMBN	258	broad.mit.edu	37	chr4	71467291	71467291	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttcagcctccaattcacctgGgacatctgcccttgcaggaa	8	14	3	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:71467291G>C	uc003hfl.2	+	6	526	c.451G>C	c.(451-453)GGA>CGA	p.G151R		NM_016519	NP_057603	Q9NP70	AMBN_HUMAN	ameloblastin precursor	151					bone mineralization|cell adhesion|cell proliferation|odontogenesis of dentine-containing tooth	proteinaceous extracellular matrix	growth factor activity|structural constituent of tooth enamel			ovary(3)|skin(1)	4			Lung(101;0.235)			AATTCACCTGGGACATCTGCC	0.537											OREG0016218	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	55	139	---	---	---	---	PASS	C	71467291	C	C	71467291	3	2	11	1	0	0	0	0	1	0	0	0	563	1233	43	4	473	4	AMBN	4	71467291	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	8691878	71467291	119686985	76	6625										
SLC4A4	8671	broad.mit.edu	37	chr4	72420899	72420899	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	atggtgtgttcctgtatatgGgagtagcatcccttaatggt	12	6	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:72420899G>A	uc003hfy.2	+	21	2854	c.2737G>A	c.(2737-2739)GGA>AGA	p.G913R	SLC4A4_uc010iic.2_Missense_Mutation_p.G913R|SLC4A4_uc010iib.2_Missense_Mutation_p.G829R|SLC4A4_uc003hfz.2_Missense_Mutation_p.G913R|SLC4A4_uc003hgc.3_Missense_Mutation_p.G869R|SLC4A4_uc010iid.2_Missense_Mutation_p.G117R	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	913	Cytoplasmic (Potential).			G -> R (in Ref. 3; AAF21719).		basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			CCTGTATATGGGAGTAGCATC	0.343													87	262	---	---	---	---	PASS	A	72420899	A	A	72420899	3	1	11	1	0	0	0	0	1	0	0	0	14656	1233	43	3	2936	3	SLC4A4	4	72420899	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	953608	72420899	118733377	77	6626										
PPEF2	5470	broad.mit.edu	37	chr4	76808007	76808007	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	taatttgaacattcatacctTataaaatataaagattaagt	3	4	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:76808007T>C	uc003hix.2	-	7	934	c.577A>G	c.(577-579)AAG>GAG	p.K193E	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Missense_Mutation_p.K193E	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	193	Catalytic.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			ATTCATACCTTATAAAATATA	0.299													9	134	---	---	---	---	PASS	C	76808007	C	C	76808007	3	2	11	1	0	0	0	0	1	0	0	0	12308	1763	61	5	1728	5	PPEF2	4	76808007	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	4387108	76808007	114346269	78	6627										
HPSE	10855	broad.mit.edu	37	chr4	84230076	84230076	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttgtttctcctaaccagaccTtcttgccaggcctggtgctc	8	14	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:84230076T>C	uc003hoj.3	-	8	1112	c.1013A>G	c.(1012-1014)AAG>AGG	p.K338R	HPSE_uc010ika.2_Missense_Mutation_p.K280R|HPSE_uc011ccq.1_RNA|HPSE_uc011ccr.1_RNA|HPSE_uc011ccs.1_Missense_Mutation_p.K81R|HPSE_uc011cct.1_Intron|HPSE_uc003hok.3_Missense_Mutation_p.K338R	NM_001098540	NP_001092010	Q9Y251	HPSE_HUMAN	heparanase precursor	338					carbohydrate metabolic process|cell adhesion|proteoglycan metabolic process	extracellular region|lysosomal membrane|nucleus	beta-glucuronidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.114)		COAD - Colon adenocarcinoma(81;0.141)	Heparin(DB01109)	TAACCAGACCTTCTTGCCAGG	0.498													7	106	---	---	---	---	PASS	C	84230076	C	C	84230076	3	2	11	1	0	0	0	0	1	0	0	0	7344	1609	56	5	638	5	HPSE	4	84230076	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	7422069	84230076	106924200	79	6628										
MMRN1	22915	broad.mit.edu	37	chr4	90830444	90830444	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	taggaattggtgtgcttatgTacataccaggttatctccca	9	8	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:90830444T>A	uc003hst.2	+	2	712	c.641T>A	c.(640-642)GTA>GAA	p.V214E	MMRN1_uc010iku.2_Missense_Mutation_p.V180E|MMRN1_uc011cds.1_5'UTR	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	214	EMI.				cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		TGTGCTTATGTACATACCAGG	0.403													44	121	---	---	---	---	PASS	A	90830444	A	A	90830444	3	1	11	1	0	0	0	0	1	0	0	0	9670	1638	57	5	647	5	MMRN1	4	90830444	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	6600368	90830444	100323832	80	6629										
GRID2	2895	broad.mit.edu	37	chr4	94344033	94344033	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	actacctgggttttaactacGaaatttacgtagcaccggat	8	9	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:94344033G>C	uc011cdt.1	+	10	1717	c.1459G>C	c.(1459-1461)GAA>CAA	p.E487Q	GRID2_uc011cdu.1_Missense_Mutation_p.E392Q	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	487	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	TTTTAACTACGAAATTTACGT	0.418													25	87	---	---	---	---	PASS	C	94344033	C	C	94344033	3	2	11	1	0	0	0	0	1	0	0	0	6772	1059	37	2	1497	2	GRID2	4	94344033	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	3513589	94344033	96810243	81	6630										
C4orf21	55345	broad.mit.edu	37	chr4	113539940	113539940	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	accatcattttctgcactgcTacaagtaacctgtaagctac	5	12	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:113539940T>A	uc003iau.2	-	6	1469	c.1258A>T	c.(1258-1260)AGC>TGC	p.S420C	C4orf21_uc003iaw.2_Missense_Mutation_p.S420C	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		TCTGCACTGCTACAAGTAACC	0.343													30	183	---	---	---	---	PASS	A	113539940	A	A	113539940	3	1	11	1	0	0	0	0	1	0	0	0	2254	1522	53	5	5148	5	C4orf21	4	113539940	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	19195907	113539940	77614336	82	6631										
BBS12	166379	broad.mit.edu	37	chr4	123665001	123665001	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gtagaatttttaattcagacAtttcaaataaactggagcag	7	5	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:123665001A>T	uc003ieu.2	+	2	2147	c.1954A>T	c.(1954-1956)ATT>TTT	p.I652F		NM_152618	NP_689831	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	652					cellular protein metabolic process	cilium	ATP binding			ovary(2)	2						TAATTCAGACATTTCAAATAA	0.368									Bardet-Biedl_syndrome				33	82	---	---	---	---	PASS	T	123665001	T	T	123665001	3	4	11	1	0	0	0	0	1	0	0	0	1337	217	8	5	1956	5	BBS12	4	123665001	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	10125061	123665001	67489275	83	6632										
PCDH10	57575	broad.mit.edu	37	chr4	134071448	134071448	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	attacaaaactttcggctcgCgggtttcagacggtgcccaa	10	11	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:134071448C>G	uc003iha.2	+	1	979	c.153C>G	c.(151-153)CGC>CGG	p.R51R	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.R51R	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	51	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TTTCGGCTCGCGGGTTTCAGA	0.522													16	128	---	---	---	---	PASS	G	134071448	G	G	134071448	2	3	11	1	0	0	0	0	0	0	0	1	11507	755	27	4		4	PCDH10	4	134071448	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	10406447	134071448	57082828	84	6633										
NR3C2	4306	broad.mit.edu	37	chr4	149075852	149075852	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aatgttttcaaggaccataaCgggggaaggtgtgagcgctc	14	7	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:149075852C>A	uc003ilj.3	-	5	2549	c.2215G>T	c.(2215-2217)GTT>TTT	p.V739F	NR3C2_uc003ilk.3_Intron|NR3C2_uc010iph.2_Intron	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	739	Steroid-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	AGGACCATAACGGGGGAAGGT	0.502													64	138	---	---	---	---	PASS	A	149075852	A	A	149075852	3	1	11	1	0	0	0	0	1	0	0	0	10631	536	19	1	759	1	NR3C2	4	149075852	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	15004404	149075852	42078424	85	6634										
WDR17	116966	broad.mit.edu	37	chr4	177084335	177084335	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	catacctgattcgcggaaatGaactggagttggcagtctgt	12	8	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:177084335G>A	uc003iuj.2	+	23	3109	c.2953G>A	c.(2953-2955)GAA>AAA	p.E985K	WDR17_uc003iuk.2_Missense_Mutation_p.E961K|WDR17_uc003ium.3_Missense_Mutation_p.E961K|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.E204K	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	985										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TCGCGGAAATGAACTGGAGTT	0.463													35	104	---	---	---	---	PASS	A	177084335	A	A	177084335	3	1	11	1	0	0	0	0	1	0	0	0	17274	1291	45	2	3039	2	WDR17	4	177084335	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	28008483	177084335	14069941	86	6635										
FAT1	2195	broad.mit.edu	37	chr4	187535499	187535499	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	atagtgtctgaatataaagtCtgcaaagagtttaaacaaaa	7	4	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr4:187535499C>G	uc003izf.2	-	12	9264	c.9076_splice	c.e12-1	p.T3026_splice		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor						actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AATATAAAGTCTGCAAAGAGT	0.378										HNSCC(5;0.00058)			23	48	---	---	---	---	PASS	G	187535499	G	G	187535499	5	3	11	1	0	0	0	0	0	0	1	0	5689	927	32	2	4755	2	FAT1	4	187535499	Splice_Site	SNP	C	TCGA-18-3417-01A-01D-1441-08	10451164	187535499	3618777	87	6636										
SDHA	6389	broad.mit.edu	37	chr5	251216	251216	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gcacctgaagacgttcgaccGgggtgagcagacagtgggct	16	10	0	4			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:251216G>A	uc003jao.3	+	12	1776	c.1661G>A	c.(1660-1662)CGG>CAG	p.R554Q	SDHA_uc011clv.1_Missense_Mutation_p.R554Q|SDHA_uc011clw.1_Missense_Mutation_p.R506Q|SDHA_uc003jap.3_Intron|SDHA_uc003jaq.3_Missense_Mutation_p.R329Q|SDHA_uc003jar.3_Missense_Mutation_p.R148Q	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	554			R -> W (in LS).		nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	ACGTTCGACCGGGGTGAGCAG	0.562									Familial_Paragangliomas				11	275	---	---	---	---	PASS	A	251216	A	A	251216	3	1	11	1	0	0	0	0	1	0	0	0	13963	1116	39	1	1707	1	SDHA	5	251216	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08		251216	180664044	88	6637										
ADAMTS16	170690	broad.mit.edu	37	chr5	5242217	5242217	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cctgggaatactccatgcctCgcttggggaccgagaagcag	13	12	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:5242217C>T	uc003jdl.2	+	17	2713	c.2575C>T	c.(2575-2577)CGC>TGC	p.R859C	ADAMTS16_uc003jdk.1_Missense_Mutation_p.R859C	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	859	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CTCCATGCCTCGCTTGGGGAC	0.552													6	214	---	---	---	---	PASS	T	5242217	T	T	5242217	3	4	11	1	0	0	0	0	1	0	0	0	261	884	31	2	2641	2	ADAMTS16	5	5242217	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	4991001	5242217	175673043	89	6638										
TAS2R1	50834	broad.mit.edu	37	chr5	9629847	9629847	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cttggcacaatagaaaacgcCgagccatgtggcaagccaaa	10	11	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:9629847C>T	uc003jem.1	-	1	617	c.298G>A	c.(298-300)GGC>AGC	p.G100S		NM_019599	NP_062545	Q9NYW7	TA2R1_HUMAN	taste receptor T2R1	100	Helical; Name=3; (Potential).				chemosensory behavior|sensory perception of taste	integral to membrane	taste receptor activity			ovary(3)	3						TAGAAAACGCCGAGCCATGTG	0.443													4	78	---	---	---	---	PASS	T	9629847	T	T	9629847	3	4	11	1	0	0	0	0	1	0	0	0	15562	652	23	1	605	1	TAS2R1	5	9629847	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	4387630	9629847	171285413	90	6639										
DNAH5	1767	broad.mit.edu	37	chr5	13917329	13917329	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	attgtcctttgcttcattagTtgcatcagtgattcgaatat	7	7	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:13917329T>C	uc003jfd.2	-	8	1054	c.1012A>G	c.(1012-1014)ACT>GCT	p.T338A	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	338	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GCTTCATTAGTTGCATCAGTG	0.368									Kartagener_syndrome				17	175	---	---	---	---	PASS	C	13917329	C	C	13917329	3	2	11	1	0	0	0	0	1	0	0	0	4604	1725	60	5	13150	5	DNAH5	5	13917329	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	4287482	13917329	166997931	91	6640										
CDH10	1008	broad.mit.edu	37	chr5	24593422	24593422	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttcttcaagtaagaaaaattGattccacatccaaccacgtt	4	10	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:24593422G>A	uc003jgr.1	-	2	510	c.178C>T	c.(178-180)CAA>TAA	p.Q60*	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	60	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AAGAAAAATTGATTCCACATC	0.383										HNSCC(23;0.051)			95	288	---	---	---	---	PASS	A	24593422	A	A	24593422	4	1	11	1	0	0	0	0	0	1	0	0	3096	1299	45	2	2232	2	CDH10	5	24593422	Nonsense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	10676093	24593422	156321838	92	6641										
RAI14	26064	broad.mit.edu	37	chr5	34823967	34823967	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctctagaggatgtcacagctGaatatatccataaagcagag	9	8	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:34823967G>A	uc003jir.2	+	15	2216	c.2020G>A	c.(2020-2022)GAA>AAA	p.E674K	RAI14_uc010iur.2_Missense_Mutation_p.E645K|RAI14_uc011coj.1_Missense_Mutation_p.E674K|RAI14_uc003jis.2_Missense_Mutation_p.E677K|RAI14_uc003jit.2_Missense_Mutation_p.E674K|RAI14_uc011cok.1_Missense_Mutation_p.E666K	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	674	Potential.					cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					TGTCACAGCTGAATATATCCA	0.448													14	123	---	---	---	---	PASS	A	34823967	A	A	34823967	3	1	11	1	0	0	0	0	1	0	0	0	13008	1291	45	2	2139	2	RAI14	5	34823967	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	10230545	34823967	146091293	93	6642										
PRLR	5618	broad.mit.edu	37	chr5	35065589	35065589	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctcctggggcagcagccaggGcgtatcctggtcagtctcag	14	13	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:35065589G>A	uc003jjm.2	-	10	2001	c.1471C>T	c.(1471-1473)CCC>TCC	p.P491S	PRLR_uc003jjg.1_Intron|PRLR_uc003jjh.1_Intron|PRLR_uc003jji.1_Intron|PRLR_uc003jjj.1_Intron|PRLR_uc003jjk.1_Intron|PRLR_uc003jjl.3_Missense_Mutation_p.P390S	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	491	Cytoplasmic (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	AGCAGCCAGGGCGTATCCTGG	0.483													86	241	---	---	---	---	PASS	A	35065589	A	A	35065589	3	1	11	1	0	0	0	0	1	0	0	0	12531	1203	42	3	401	3	PRLR	5	35065589	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	241622	35065589	145849671	94	6643										
C5orf34	375444	broad.mit.edu	37	chr5	43487036	43487036	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttcactttttagagtttgatAgaagacagtcaatatcgtga	8	5	2	5			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:43487036A>C	uc003jnz.1	-	14	2215	c.1898T>G	c.(1897-1899)CTA>CGA	p.L633R		NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	633										breast(1)	1	Lung NSC(6;2.07e-05)					AGAGTTTGATAGAAGACAGTC	0.308													68	147	---	---	---	---	PASS	C	43487036	C	C	43487036	3	2	11	1	0	0	0	0	1	0	0	0	2293	420	15	5	22	5	C5orf34	5	43487036	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	8421447	43487036	137428224	95	6644										
ARRDC3	57561	broad.mit.edu	37	chr5	90667245	90667245	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aggggcaggatggtctatcaTctgctgactgatcaggattt	13	7	4	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:90667245T>C	uc003kjz.2	-	8	1457	c.1217A>G	c.(1216-1218)GAT>GGT	p.D406G		NM_020801	NP_065852	Q96B67	ARRD3_HUMAN	arrestin domain containing 3	406					signal transduction	cytoplasm	protein binding			ovary(1)|breast(1)	2		all_cancers(142;2.22e-05)|all_epithelial(76;1.58e-07)|all_lung(232;0.000521)|Lung NSC(167;0.000548)|Ovarian(174;0.0798)|Colorectal(57;0.207)		OV - Ovarian serous cystadenocarcinoma(54;4.56e-30)|Epithelial(54;7.55e-26)|all cancers(79;3.63e-22)		TGGTCTATCATCTGCTGACTG	0.413													15	43	---	---	---	---	PASS	C	90667245	C	C	90667245	3	2	11	1	0	0	0	0	1	0	0	0	984	1435	50	5	31	5	ARRDC3	5	90667245	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	47180209	90667245	90248015	96	6645										
AQPEP	206338	broad.mit.edu	37	chr5	115298562	115298562	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgagctagcggtgacgaccaCcccgagcaactggcgacccc	12	17	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:115298562C>A	uc003kro.2	+	1	412	c.248C>A	c.(247-249)ACC>AAC	p.T83N	AQPEP_uc003krp.2_RNA|uc003krn.1_5'UTR	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	83	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						GTGACGACCACCCCGAGCAAC	0.692													15	38	---	---	---	---	PASS	A	115298562	A	A	115298562	3	1	11	1	0	0	0	0	1	0	0	0	834	507	18	3	250	3	AQPEP	5	115298562	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	24631317	115298562	65616698	97	6646										
FTMT	94033	broad.mit.edu	37	chr5	121187708	121187708	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gcacatcagcccttcgctggCgtctctgcgcccggtgcgct	12	17	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:121187708C>T	uc003kss.2	+	1	59	c.50C>T	c.(49-51)GCG>GTG	p.A17V		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	17					cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		CCTTCGCTGGCGTCTCTGCGC	0.726													13	40	---	---	---	---	PASS	T	121187708	T	T	121187708	3	4	11	1	0	0	0	0	1	0	0	0	6085	768	27	1	52	1	FTMT	5	121187708	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	5889146	121187708	59727552	98	6647										
PCDHA10	56139	broad.mit.edu	37	chr5	140235897	140235897	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	attttgtttgtgaattctcgGattgaccgcgaggagctgtg	13	6	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:140235897G>T	uc003lhx.2	+	1	264	c.264G>T	c.(262-264)CGG>CGT	p.R88R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Silent_p.R88R|PCDHA10_uc011dad.1_Silent_p.R88R	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	88	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAATTCTCGGATTGACCGCG	0.592													81	183	---	---	---	---	PASS	T	140235897	T	T	140235897	2	4	11	1	0	0	0	0	0	0	0	1	11520	1161	41	2		2	PCDHA10	5	140235897	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	19048189	140235897	40679363	99	6648										
PCDHGB4	8641	broad.mit.edu	37	chr5	140767900	140767900	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgagtctgcacagcctggcaCacgatttatattaggatctg	10	9	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:140767900C>T	uc003lkc.1	+	1	449	c.449C>T	c.(448-450)ACA>ATA	p.T150I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.T150I	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	150	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCCTGGCACACGATTTATA	0.423													19	61	---	---	---	---	PASS	T	140767900	T	T	140767900	3	4	11	1	0	0	0	0	1	0	0	0	11565	478	17	3	451	3	PCDHGB4	5	140767900	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	532003	140767900	40147360	100	6649										
PDGFRB	5159	broad.mit.edu	37	chr5	149514533	149514533	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tcagttatttccgtgagaaaGatgaatagttcctcggcatc	9	8	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:149514533G>C	uc003lro.2	-	4	880	c.411C>G	c.(409-411)ATC>ATG	p.I137M	PDGFRB_uc010jhd.2_Translation_Start_Site|PDGFRB_uc011dcg.1_Missense_Mutation_p.I137M	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	137	Extracellular (Potential).|Ig-like C2-type 2.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CCGTGAGAAAGATGAATAGTT	0.453			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								29	84	---	---	---	---	PASS	C	149514533	C	C	149514533	3	2	11	1	0	0	0	0	1	0	0	0	11662	932	33	2	2989	2	PDGFRB	5	149514533	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	8746633	149514533	31400727	101	6650										
GRIA1	2890	broad.mit.edu	37	chr5	153029961	153029961	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aggtgacagcagtcaacattTtgacaaccacagaggaggga	12	8	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:153029961T>A	uc003lva.3	+	4	897	c.532T>A	c.(532-534)TTG>ATG	p.L178M	GRIA1_uc003luy.3_Missense_Mutation_p.L178M|GRIA1_uc003luz.3_Missense_Mutation_p.L83M|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.L98M|GRIA1_uc011dcx.1_Missense_Mutation_p.L109M|GRIA1_uc011dcy.1_Missense_Mutation_p.L188M|GRIA1_uc011dcz.1_Missense_Mutation_p.L188M|GRIA1_uc010jia.1_Missense_Mutation_p.L158M	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	178	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AGTCAACATTTTGACAACCAC	0.498													21	66	---	---	---	---	PASS	A	153029961	A	A	153029961	3	1	11	1	0	0	0	0	1	0	0	0	6767	1838	64	5	546	5	GRIA1	5	153029961	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	3515428	153029961	27885299	102	6651										
HK3	3101	broad.mit.edu	37	chr5	176314610	176314610	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccagggtctcctccagcaggCgccggtgggcagccagacgg	16	15	1	1	rs61741552	byFrequency	TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:176314610C>T	uc003mfa.2	-	11	1534	c.1442G>A	c.(1441-1443)CGC>CAC	p.R481H	HK3_uc003mez.2_Missense_Mutation_p.R37H	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	481	Regulatory.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTCCAGCAGGCGCCGGTGGGC	0.662													11	23	---	---	---	---	PASS	T	176314610	T	T	176314610	3	4	11	1	0	0	0	0	1	0	0	0	7192	768	27	1	1365	1	HK3	5	176314610	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	23284649	176314610	4600650	103	6652										
FGFR4	2264	broad.mit.edu	37	chr5	176517820	176517820	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgaataggcacagttaccccCagcaaggtcagtaggtctcc	10	13	2	0	rs74633199		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr5:176517820C>G	uc003mfl.2	+	4	597	c.430C>G	c.(430-432)CAG>GAG	p.Q144E	FGFR4_uc003mfm.2_Missense_Mutation_p.Q144E|FGFR4_uc011dfu.1_Missense_Mutation_p.Q144E|FGFR4_uc011dfv.1_RNA|FGFR4_uc003mfn.1_Missense_Mutation_p.Q144E|FGFR4_uc011dfw.1_Missense_Mutation_p.Q144E|FGFR4_uc003mfo.2_Missense_Mutation_p.Q144E	NM_002011	NP_002002	P22455	FGFR4_HUMAN	fibroblast growth factor receptor 4 isoform 1	144	Extracellular (Potential).				insulin receptor signaling pathway|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity			lung(11)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|prostate(1)	16	all_cancers(89;5.93e-05)|Renal(175;0.000269)|Lung NSC(126;0.0088)|all_lung(126;0.0142)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Palifermin(DB00039)	CAGTTACCCCCAGCAAGGTCA	0.562										TSP Lung(9;0.080)			14	54	---	---	---	---	PASS	G	176517820	G	G	176517820	3	3	11	1	0	0	0	0	1	0	0	0	5868	595	21	4	440	4	FGFR4	5	176517820	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	203210	176517820	4397440	104	6653										
TRIM38	10475	broad.mit.edu	37	chr6	25967059	25967059	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggagagcagttccacctgttCtgcgaagacgaggggcagct	15	10	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:25967059C>T	uc003nfm.2	+	3	744	c.309C>T	c.(307-309)TTC>TTT	p.F103F	TRIM38_uc003nfn.2_Silent_p.F103F	NM_006355	NP_006346	O00635	TRI38_HUMAN	tripartite motif-containing 38	103	B box-type.				positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular	signal transducer activity|zinc ion binding				0						TCCACCTGTTCTGCGAAGACG	0.567													24	68	---	---	---	---	PASS	T	25967059	T	T	25967059	2	4	11	1	0	0	0	0	0	0	0	1	16509	912	32	2		2	TRIM38	6	25967059	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08		25967059	145148008	105	6654										
ZKSCAN3	80317	broad.mit.edu	37	chr6	28327584	28327584	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccgagagctctgccgacagtGgctgcagcctgagatgcaca	13	13	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:28327584G>T	uc003nle.3	+	2	437	c.221G>T	c.(220-222)TGG>TTG	p.W74L	ZKSCAN3_uc010jrc.2_Missense_Mutation_p.W74L|ZKSCAN3_uc003nlf.3_Intron	NM_024493	NP_077819	Q9BRR0	ZKSC3_HUMAN	zinc finger with KRAB and SCAN domains 3	74	SCAN box.				positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	chromatin binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						TGCCGACAGTGGCTGCAGCCT	0.677													10	35	---	---	---	---	PASS	T	28327584	T	T	28327584	3	4	11	1	0	0	0	0	1	0	0	0	17685	1357	47	3	223	3	ZKSCAN3	6	28327584	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	2360525	28327584	142787483	106	6655										
WDR46	9277	broad.mit.edu	37	chr6	33247137	33247137	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgatgctgctgctgaaggctCtgccggaccttgtcctgggg	15	11	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:33247137C>A	uc003ods.2	-	15	1793	c.1749G>T	c.(1747-1749)CAG>CAT	p.Q583H	WDR46_uc011dra.1_Missense_Mutation_p.Q529H	NM_005452	NP_005443	O15213	WDR46_HUMAN	WD repeat domain 46 isoform 1	583											0						GCTGAAGGCTCTGCCGGACCT	0.642													4	185	---	---	---	---	PASS	A	33247137	A	A	33247137	3	1	11	1	0	0	0	0	1	0	0	0	17296	912	32	2	87	2	WDR46	6	33247137	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	4919553	33247137	137867930	107	6656										
SCUBE3	222663	broad.mit.edu	37	chr6	35201038	35201038	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggtccccggtgcggctgccaTatcaagtttgtgctccatac	11	13	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:35201038T>A	uc003okf.1	+	6	678	c.672T>A	c.(670-672)CAT>CAA	p.H224Q	SCUBE3_uc003okg.1_Missense_Mutation_p.H223Q|SCUBE3_uc003okh.1_Missense_Mutation_p.H95Q	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	224	EGF-like 5.				protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						GCGGCTGCCATATCAAGTTTG	0.607													9	20	---	---	---	---	PASS	A	35201038	A	A	35201038	3	1	11	1	0	0	0	0	1	0	0	0	13946	1403	49	5	694	5	SCUBE3	6	35201038	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	1953901	35201038	135914029	108	6657										
DNAH8	1769	broad.mit.edu	37	chr6	38899660	38899660	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tactacgaagttaccaaatcCtgcctttaccccagagatta	5	12	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:38899660C>T	uc003ooe.1	+	74	11297	c.10697C>T	c.(10696-10698)CCT>CTT	p.P3566L	DNAH8_uc003oog.1_Missense_Mutation_p.P15L|uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTACCAAATCCTGCCTTTACC	0.328													14	245	---	---	---	---	PASS	T	38899660	T	T	38899660	3	4	11	1	0	0	0	0	1	0	0	0	4607	681	24	3	10983	3	DNAH8	6	38899660	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	3698622	38899660	132215407	109	6658										
TCTE1	202500	broad.mit.edu	37	chr6	44253968	44253968	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	accggcggaaggaactgatcGacgtggaccctgcgcacgta	14	12	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:44253968G>A	uc003oxi.2	-	3	735	c.579C>T	c.(577-579)GTC>GTT	p.V193V	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_182539	NP_872345	Q5JU00	TCTE1_HUMAN	t-complex-associated testis expressed 1	193										ovary(2)|skin(2)	4	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GGAACTGATCGACGTGGACCC	0.652													5	53	---	---	---	---	PASS	A	44253968	A	A	44253968	2	1	11	1	0	0	0	0	0	0	0	1	15714	1045	37	2		2	TCTE1	6	44253968	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	5354308	44253968	126861099	110	6659										
PKHD1	5314	broad.mit.edu	37	chr6	51618128	51618128	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agccaaacgaatgtgtcggcCatcctccgtgacatgtacac	9	13	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:51618128C>T	uc003pah.1	-	57	9097	c.8821G>A	c.(8821-8823)GGC>AGC	p.G2941S	PKHD1_uc010jzn.1_Missense_Mutation_p.G924S|PKHD1_uc003pai.2_Missense_Mutation_p.G2941S	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2941	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					ATGTGTCGGCCATCCTCCGTG	0.468													19	71	---	---	---	---	PASS	T	51618128	T	T	51618128	3	4	11	1	0	0	0	0	1	0	0	0	11971	594	21	3	3486	3	PKHD1	6	51618128	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	7364160	51618128	119496939	111	6660										
COL19A1	1310	broad.mit.edu	37	chr6	70812096	70812096	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	acaggacctcccggaaaaccAggacccccaggaccacctgt	9	17	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:70812096A>G	uc003pfc.1	+	16	1377	c.1260A>G	c.(1258-1260)CCA>CCG	p.P420P	COL19A1_uc010kam.1_Silent_p.P316P	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	420	Triple-helical region 2 (COL2).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CCGGAAAACCAGGACCCCCAG	0.393													32	147	---	---	---	---	PASS	G	70812096	G	G	70812096	2	3	11	1	0	0	0	0	0	0	0	1	3676	175	7	5		5	COL19A1	6	70812096	Silent	SNP	A	TCGA-18-3417-01A-01D-1441-08	19193968	70812096	100302971	112	6661										
PNRC1	10957	broad.mit.edu	37	chr6	89793726	89793726	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	attaaaaattcgcatttgaaGaaatcagcatttctaactga	5	6	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:89793726G>T	uc003pmv.2	+	2	980	c.795G>T	c.(793-795)AAG>AAT	p.K265N	PNRC1_uc003pmx.2_Missense_Mutation_p.K80N	NM_006813	NP_006804	Q12796	PNRC1_HUMAN	proline-rich nuclear receptor coactivator 1	265					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding				0		all_cancers(76;3.64e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.102)		CGCATTTGAAGAAATCAGCAT	0.373										Multiple Myeloma(7;0.094)			35	149	---	---	---	---	PASS	T	89793726	T	T	89793726	3	4	11	1	0	0	0	0	1	0	0	0	12174	933	33	2	801	2	PNRC1	6	89793726	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	18981630	89793726	81321341	113	6662										
TRDN	10345	broad.mit.edu	37	chr6	123539864	123539864	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgtacccatccaagtagacaCactggaagaaactgatggga	10	9	0	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:123539864C>A	uc003pzj.1	-	41	2094	c.2072G>T	c.(2071-2073)TGT>TTT	p.C691F	TRDN_uc010kem.1_Missense_Mutation_p.C192F	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	691	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		CAAGTAGACACACTGGAAGAA	0.398													3	13	---	---	---	---	PASS	A	123539864	A	A	123539864	3	1	11	1	0	0	0	0	1	0	0	0	16465	478	17	3	121	3	TRDN	6	123539864	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	33746138	123539864	47575203	114	6663										
VNN1	8876	broad.mit.edu	37	chr6	133013397	133013397	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cccttccacagtgtgcagtcCgtcaaatgcccctagagcgt	9	15	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:133013397C>G	uc003qdo.2	-	5	1173	c.1153G>C	c.(1153-1155)GGA>CGA	p.G385R		NM_004666	NP_004657	O95497	VNN1_HUMAN	vanin 1 precursor	385					acute inflammatory response|anti-apoptosis|cell-cell adhesion|cellular component movement|chronic inflammatory response|innate immune response|pantothenate metabolic process|positive regulation of T cell differentiation in thymus|response to oxidative stress	anchored to membrane|integral to membrane|plasma membrane	GPI anchor binding|pantetheine hydrolase activity			ovary(3)	3	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.0027)|GBM - Glioblastoma multiforme(226;0.0189)		GTGTGCAGTCCGTCAAATGCC	0.308													35	184	---	---	---	---	PASS	G	133013397	G	G	133013397	3	3	11	1	0	0	0	0	1	0	0	0	17179	661	23	4	400	4	VNN1	6	133013397	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	9473533	133013397	38101670	115	6664										
FBXO30	84085	broad.mit.edu	37	chr6	146126164	146126164	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgcagatggaagtgaaaaagTctgagtcccaacgtcaatgt	11	7	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:146126164T>C	uc003qla.2	-	2	1577	c.1378A>G	c.(1378-1380)ACT>GCT	p.T460A	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	460							ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		AGTGAAAAAGTCTGAGTCCCA	0.443													49	254	---	---	---	---	PASS	C	146126164	C	C	146126164	3	2	11	1	0	0	0	0	1	0	0	0	5740	1667	58	5	867	5	FBXO30	6	146126164	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	13112767	146126164	24988903	116	6665										
ESR1	2099	broad.mit.edu	37	chr6	152265432	152265432	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gccaacctttggccaagcccGctcatgatcaaacgctctaa	7	15	3	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:152265432G>T	uc003qom.3	+	6	1255	c.885G>T	c.(883-885)CCG>CCT	p.P295P	ESR1_uc010kin.2_Silent_p.P295P|ESR1_uc010kio.2_Silent_p.P297P|ESR1_uc010kip.2_Silent_p.P294P|ESR1_uc003qon.3_Silent_p.P295P|ESR1_uc003qoo.3_Silent_p.P295P|ESR1_uc010kiq.2_Intron|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Intron|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Intron|ESR1_uc011eex.1_Silent_p.P76P|ESR1_uc010kit.1_Silent_p.P32P|ESR1_uc011eey.1_Silent_p.P32P	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	295	Interaction with AKAP13.|Hinge.|Mediates interaction with DNTTIP2.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	GGCCAAGCCCGCTCATGATCA	0.562													28	137	---	---	---	---	PASS	T	152265432	T	T	152265432	2	4	11	1	0	0	0	0	0	0	0	1	5256	1074	38	1		1	ESR1	6	152265432	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	6139268	152265432	18849635	117	6666										
SYNE1	23345	broad.mit.edu	37	chr6	152668193	152668193	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gaatgttctgggggcactcaCcctctgagctgtgctgcaga	13	11	3	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:152668193C>A	uc010kiw.2	-	73	12680	c.12078_splice	c.e73+1	p.R4026_splice	SYNE1_uc003qot.3_Splice_Site_p.R3955_splice|SYNE1_uc003qou.3_Splice_Site_p.R4026_splice|SYNE1_uc010kja.1_Splice_Site_p.R731_splice	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1						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)		GGGGCACTCACCCTCTGAGCT	0.483										HNSCC(10;0.0054)			17	76	---	---	---	---	PASS	A	152668193	A	A	152668193	5	1	11	1	0	0	0	0	0	0	1	0	15442	521	18	3	14683	3	SYNE1	6	152668193	Splice_Site	SNP	C	TCGA-18-3417-01A-01D-1441-08	402761	152668193	18446874	118	6667										
SYNE1	23345	broad.mit.edu	37	chr6	152746553	152746553	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tggtaaatctctccatctctCatccaactgctccaaatgta	4	13	3	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:152746553C>T	uc010kiw.2	-	39	5832	c.5230G>A	c.(5230-5232)GAG>AAG	p.E1744K	SYNE1_uc003qot.3_Missense_Mutation_p.E1751K|SYNE1_uc003qou.3_Missense_Mutation_p.E1744K|SYNE1_uc010kjb.1_Missense_Mutation_p.E1727K	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1744	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)		CTCCATCTCTCATCCAACTGC	0.318										HNSCC(10;0.0054)			44	162	---	---	---	---	PASS	T	152746553	T	T	152746553	3	4	11	1	0	0	0	0	1	0	0	0	15442	835	29	2	21668	2	SYNE1	6	152746553	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	78360	152746553	18368514	119	6668										
SYNE1	23345	broad.mit.edu	37	chr6	152762360	152762360	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttgaaaaaggtatcttactaCtgtttctttgtttgtttcaa	6	5	3	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr6:152762360C>A	uc010kiw.2	-	32	4656	c.4054G>T	c.(4054-4056)GTA>TTA	p.V1352L	SYNE1_uc003qot.3_Missense_Mutation_p.V1359L|SYNE1_uc003qou.3_Missense_Mutation_p.V1352L|SYNE1_uc010kjb.1_Missense_Mutation_p.V1335L|SYNE1_uc003qow.2_Missense_Mutation_p.V647L|SYNE1_uc003qox.1_Missense_Mutation_p.V868L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1352	Potential.|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)		TATCTTACTACTGTTTCTTTG	0.323										HNSCC(10;0.0054)			8	32	---	---	---	---	PASS	A	152762360	A	A	152762360	3	1	11	1	0	0	0	0	1	0	0	0	15442	565	20	3	22872	3	SYNE1	6	152762360	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	15807	152762360	18352707	120	6669										
GET4	51608	broad.mit.edu	37	chr7	926205	926205	+	Splice_Site	SNP	G	A	A													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gtgtgttgctttctcttgtaGcaaaacagtgcagcagactt							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:926205G>A	uc003sjl.1	+	3	327	c.235_splice	c.e3-1	p.Q79_splice	GET4_uc003sjj.1_Splice_Site	NM_015949	NP_057033	Q7L5D6	GET4_HUMAN	hypothetical protein LOC51608						tail-anchored membrane protein insertion into ER membrane|transport	BAT3 complex	protein binding				0						TTCTCTTGTAGCAAAACAGTG	0.562													24	205	---	---	---	---	PASS	A	926205	A	A	926205	5	1	11	1	0	0	0	0	0	0	1	0	6336	985	34	3	244	3	GET4	7	926205	Splice_Site	SNP	G	TCGA-18-3417-01A-01D-1441-08		926205	158212458	121	6670	222	2								
GET4	51608	broad.mit.edu	37	chr7	926206	926206	+	Nonsense_Mutation	SNP	C	T	T													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgtgttgctttctcttgtagCaaaacagtgcagcagacttg							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:926206C>T	uc003sjl.1	+	3	327	c.235C>T	c.(235-237)CAA>TAA	p.Q79*	GET4_uc003sjj.1_RNA	NM_015949	NP_057033	Q7L5D6	GET4_HUMAN	hypothetical protein LOC51608	79					tail-anchored membrane protein insertion into ER membrane|transport	BAT3 complex	protein binding				0						TCTCTTGTAGCAAAACAGTGC	0.557													25	205	---	---	---	---	PASS	T	926206	T	T	926206	4	4	11	1	0	0	0	0	0	1	0	0	6336	724	25	3	245	3	GET4	7	926206	Nonsense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1	926206	158212457	122	6671	222	2								
THSD7A	221981	broad.mit.edu	37	chr7	11464333	11464333	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tttgtcttacctcacttttcGggtttgcacgccctctccac	6	15	3	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:11464333G>A	uc003ssf.3	-	15	3625	c.3373C>T	c.(3373-3375)CGA>TGA	p.R1125*		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1125	TSP type-1 11.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		CTCACTTTTCGGGTTTGCACG	0.488										HNSCC(18;0.044)			142	271	---	---	---	---	PASS	A	11464333	A	A	11464333	4	1	11	1	0	0	0	0	0	1	0	0	15876	1124	39	1	1652	1	THSD7A	7	11464333	Nonsense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	10538127	11464333	147674330	123	6672										
HOXA3	3200	broad.mit.edu	37	chr7	27148028	27148028	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gctgttgaccagcgaatgcaTagagttcagatagccaccgg	12	10	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:27148028T>A	uc011jzl.1	-	3	1038	c.838A>T	c.(838-840)ATG>TTG	p.M280L	HOXA3_uc011jzk.1_Missense_Mutation_p.M122L|HOXA3_uc003syk.2_Missense_Mutation_p.M280L	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	280					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						AGCGAATGCATAGAGTTCAGA	0.657													72	48	---	---	---	---	PASS	A	27148028	A	A	27148028	3	1	11	1	0	0	0	0	1	0	0	0	7293	1406	49	5	497	5	HOXA3	7	27148028	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	15683695	27148028	131990635	124	6673										
ZNF479	90827	broad.mit.edu	37	chr7	57187553	57187553	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tggactttgccatattattcAcatttgtagggtttctctcc	7	9	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:57187553A>G	uc010kzo.2	-	5	1840	c.1569T>C	c.(1567-1569)TGT>TGC	p.C523C		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	523					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			CATATTATTCACATTTGTAGG	0.353													8	54	---	---	---	---	PASS	G	57187553	G	G	57187553	2	3	11	1	0	0	0	0	0	0	0	1	17930	157	6	5		5	ZNF479	7	57187553	Silent	SNP	A	TCGA-18-3417-01A-01D-1441-08	30039525	57187553	101951110	125	6674										
FKBP6	8468	broad.mit.edu	37	chr7	72744195	72744195	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gctgggccttctgagcatgcGgagaggagagctggccaggt	18	9	1	3	rs3950376		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:72744195G>A	uc003tya.2	+	4	440	c.308G>A	c.(307-309)CGG>CAG	p.R103Q	FKBP6_uc003twz.2_Intron|FKBP6_uc011kew.1_Missense_Mutation_p.R98Q|FKBP6_uc010lbe.1_RNA|TRIM50_uc003txy.1_5'Flank|TRIM50_uc003txz.1_5'Flank	NM_003602	NP_003593	O75344	FKBP6_HUMAN	FK506 binding protein 6 isoform a	103	PPIase FKBP-type.				protein folding	membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				CTGAGCATGCGGAGAGGAGAG	0.473													7	54	---	---	---	---	PASS	A	72744195	A	A	72744195	3	1	11	1	0	0	0	0	1	0	0	0	5912	1116	39	1	368	1	FKBP6	7	72744195	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	15556642	72744195	86394468	126	6675			1	7		3	3	122	G		8.293022e-07
FKBP6	8468	broad.mit.edu	37	chr7	72744255	72744255	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgcctatggaacgctgggctGccctcccttgatccccccaa	9	18	0	1	rs1064197		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:72744255G>C	uc003tya.2	+	4	500	c.368G>C	c.(367-369)TGC>TCC	p.C123S	FKBP6_uc003twz.2_Intron|FKBP6_uc011kew.1_Missense_Mutation_p.C118S|FKBP6_uc010lbe.1_RNA|TRIM50_uc003txy.1_5'Flank|TRIM50_uc003txz.1_5'Flank	NM_003602	NP_003593	O75344	FKBP6_HUMAN	FK506 binding protein 6 isoform a	123	PPIase FKBP-type.				protein folding	membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				ACGCTGGGCTGCCCTCCCTTG	0.547													10	81	---	---	---	---	PASS	C	72744255	C	C	72744255	3	2	11	1	0	0	0	0	1	0	0	0	5912	1319	46	4	428	4	FKBP6	7	72744255	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	60	72744255	86394408	127	6676			1	7		3	3	122	G		8.293022e-07
FKBP6	8468	broad.mit.edu	37	chr7	72744316	72744316	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	attgagctgcttgacttcctGgactgtgctgagtcagacaa	11	9	1	4			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:72744316G>A	uc003tya.2	+	4	561	c.429G>A	c.(427-429)CTG>CTA	p.L143L	FKBP6_uc003twz.2_Intron|FKBP6_uc011kew.1_Silent_p.L138L|FKBP6_uc010lbe.1_RNA|TRIM50_uc003txy.1_5'Flank|TRIM50_uc003txz.1_5'Flank	NM_003602	NP_003593	O75344	FKBP6_HUMAN	FK506 binding protein 6 isoform a	143	PPIase FKBP-type.				protein folding	membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				TTGACTTCCTGGACTGTGCTG	0.498													14	73	---	---	---	---	PASS	A	72744316	A	A	72744316	2	1	11	1	0	0	0	0	0	0	0	1	5912	1335	47	3		3	FKBP6	7	72744316	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	61	72744316	86394347	128	6677			1	7		3	3	122	G		8.293022e-07
WBSCR22	114049	broad.mit.edu	37	chr7	73101371	73101371	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agagggagacctgctgctggGggatatgggccagggcatcc	18	9	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:73101371G>A	uc003tyt.2	+	5	366	c.308G>A	c.(307-309)GGG>GAG	p.G103E	WBSCR22_uc010lbi.1_Intron|WBSCR22_uc003tyu.2_Missense_Mutation_p.G103E|WBSCR22_uc003tyv.2_Missense_Mutation_p.G65E|WBSCR22_uc003tyw.1_Intron	NM_017528	NP_059998	O43709	WBS22_HUMAN	Williams Beuren syndrome chromosome region 22	103						nucleus	methyltransferase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				CTGCTGCTGGGGGATATGGGC	0.453													5	197	---	---	---	---	PASS	A	73101371	A	A	73101371	3	1	11	1	0	0	0	0	1	0	0	0	17262	1232	43	3	326	3	WBSCR22	7	73101371	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	357055	73101371	86037292	129	6678										
PCLO	27445	broad.mit.edu	37	chr7	82764123	82764123	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgtaggctgtgatttgggggCatcagtaatacttcccagat	12	7	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:82764123C>A	uc003uhx.2	-	3	3032	c.2743G>T	c.(2743-2745)GCC>TCC	p.A915S	PCLO_uc003uhv.2_Missense_Mutation_p.A915S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	861	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GATTTGGGGGCATCAGTAATA	0.502													117	106	---	---	---	---	PASS	A	82764123	A	A	82764123	3	1	11	1	0	0	0	0	1	0	0	0	11583	710	25	3	12794	3	PCLO	7	82764123	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	9662752	82764123	76374540	130	6679										
GRM3	2913	broad.mit.edu	37	chr7	86416093	86416093	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccctggagctggcctcccagCctgtccgccagttcgaccgc	11	19	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:86416093C>A	uc003uid.2	+	3	2084	c.985C>A	c.(985-987)CCT>ACT	p.P329T	GRM3_uc010lef.2_Missense_Mutation_p.P327T|GRM3_uc010leg.2_Missense_Mutation_p.P201T|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	329	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GGCCTCCCAGCCTGTCCGCCA	0.642													23	16	---	---	---	---	PASS	A	86416093	A	A	86416093	3	1	11	1	0	0	0	0	1	0	0	0	6798	739	26	3	991	3	GRM3	7	86416093	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	3651970	86416093	72722570	131	6680										
ZNF804B	219578	broad.mit.edu	37	chr7	88965674	88965674	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agaactatgcagaaacctgaCaaagtcgaagacggattaga	10	7	0	5			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:88965674C>A	uc011khi.1	+	4	3916	c.3378C>A	c.(3376-3378)GAC>GAA	p.D1126E		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1126						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AGAAACCTGACAAAGTCGAAG	0.338										HNSCC(36;0.09)			89	98	---	---	---	---	PASS	A	88965674	A	A	88965674	3	1	11	1	0	0	0	0	1	0	0	0	18168	477	17	3	3392	3	ZNF804B	7	88965674	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	2549581	88965674	70172989	132	6681										
TRIM4	89122	broad.mit.edu	37	chr7	99490142	99490142	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	actatctctactctcaacttCccagtaatgtttccctgagg	5	13	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:99490142C>G	uc003usd.2	-	7	1277	c.1147G>C	c.(1147-1149)GAA>CAA	p.E383Q	TRIM4_uc003use.2_Missense_Mutation_p.E357Q|TRIM4_uc011kjc.1_Missense_Mutation_p.E213Q	NM_033017	NP_148977	Q9C037	TRIM4_HUMAN	tripartite motif protein TRIM4 isoform alpha	383	B30.2/SPRY.				protein trimerization	cytoplasm|plasma membrane	zinc ion binding			ovary(1)|kidney(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)	Ovarian(593;0.238)				CTCTCAACTTCCCAGTAATGT	0.468													57	219	---	---	---	---	PASS	G	99490142	G	G	99490142	3	3	11	1	0	0	0	0	1	0	0	0	16511	864	30	2	359	2	TRIM4	7	99490142	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	10524468	99490142	59648521	133	6682										
C7orf47	221908	broad.mit.edu	37	chr7	100032996	100032996	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttggggtctacgcttcccatCgcctcagtgtccggtgcatg	12	13	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:100032996C>T	uc003uuy.1	-	4	846	c.749G>A	c.(748-750)CGA>CAA	p.R250Q	C7orf47_uc003uux.1_Missense_Mutation_p.R148Q	NM_145030	NP_659467	Q8TAP8	CG047_HUMAN	hypothetical protein LOC221908	250										ovary(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CGCTTCCCATCGCCTCAGTGT	0.507													4	88	---	---	---	---	PASS	T	100032996	T	T	100032996	3	4	11	1	0	0	0	0	1	0	0	0	2397	884	31	2	16	2	C7orf47	7	100032996	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	542854	100032996	59105667	134	6683										
PNPLA8	50640	broad.mit.edu	37	chr7	108142996	108142996	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccctttcactggatccacatAgccaattagggccaaaattt	6	12	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:108142996A>G	uc003vff.1	-	6	1704	c.1297T>C	c.(1297-1299)TAT>CAT	p.Y433H	PNPLA8_uc003vfg.1_RNA|PNPLA8_uc003vfh.1_Missense_Mutation_p.Y433H|PNPLA8_uc003vfi.1_Missense_Mutation_p.Y333H|PNPLA8_uc003vfj.1_Missense_Mutation_p.Y433H|PNPLA8_uc003vfk.1_Missense_Mutation_p.Y333H	NM_015723	NP_056538	Q9NP80	PLPL8_HUMAN	patatin-like phospholipase domain containing 8	433					fatty acid metabolic process|lipid catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|membrane fraction|perinuclear region of cytoplasm|peroxisomal membrane	ATP binding|calcium-independent phospholipase A2 activity|lysophospholipase activity			breast(2)	2						GGATCCACATAGCCAATTAGG	0.353													3	180	---	---	---	---	PASS	G	108142996	G	G	108142996	3	3	11	1	0	0	0	0	1	0	0	0	12171	420	15	5	1079	5	PNPLA8	7	108142996	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	8110000	108142996	50995667	135	6684										
TMEM209	84928	broad.mit.edu	37	chr7	129813706	129813706	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	caaagtgctgagaagtaaaaGtttttccgtcgggatacttc	10	7	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:129813706G>T	uc003vpn.2	-	12	1541	c.1418C>A	c.(1417-1419)ACT>AAT	p.T473N	TMEM209_uc010lmc.1_Missense_Mutation_p.T431N	NM_032842	NP_116231	Q96SK2	TM209_HUMAN	transmembrane protein 209	473						integral to membrane				ovary(2)|large_intestine(1)	3	Melanoma(18;0.0435)					AGAAGTAAAAGTTTTTCCGTC	0.368													161	184	---	---	---	---	PASS	T	129813706	T	T	129813706	3	4	11	1	0	0	0	0	1	0	0	0	16131	1029	36	3	283	3	TMEM209	7	129813706	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	21670710	129813706	29324957	136	6685										
WDR91	29062	broad.mit.edu	37	chr7	134890771	134890771	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctcttctggctgttgctcctCtttcttcagtcggtggattt	9	11	5	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:134890771C>T	uc003vsp.2	-	5	696	c.634G>A	c.(634-636)GAG>AAG	p.E212K	WDR91_uc010lmq.2_5'UTR|WDR91_uc010lmr.2_RNA	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91	212	Potential.									breast(2)|ovary(1)|skin(1)	4						TGTTGCTCCTCTTTCTTCAGT	0.517													8	300	---	---	---	---	PASS	T	134890771	T	T	134890771	3	4	11	1	0	0	0	0	1	0	0	0	17335	922	32	2	1653	2	WDR91	7	134890771	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	5077065	134890771	24247892	137	6686										
TAS2R4	50832	broad.mit.edu	37	chr7	141478538	141478538	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cagtctacctgtctgcttttTttgtgttgtgtttcatgttt	8	7	3	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:141478538T>C	uc003vwq.1	+	1	250	c.250T>C	c.(250-252)TTT>CTT	p.F84L		NM_016944	NP_058640	Q9NYW5	TA2R4_HUMAN	taste receptor T2R4	84	Helical; Name=3; (Potential).				sensory perception of taste	cilium membrane	taste receptor activity				0	Melanoma(164;0.0171)			BRCA - Breast invasive adenocarcinoma(188;0.196)		GTCTGCTTTTTTTGTGTTGTG	0.428													118	233	---	---	---	---	PASS	C	141478538	C	C	141478538	3	2	11	1	0	0	0	0	1	0	0	0	15574	1841	64	5	252	5	TAS2R4	7	141478538	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	6587767	141478538	17660125	138	6687										
ZNF282	8427	broad.mit.edu	37	chr7	148910796	148910796	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tctttccatgacaacagagtCtctcatctcagcacatgaca	5	13	4	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:148910796C>G	uc003wfm.2	+	7	1175	c.1070C>G	c.(1069-1071)TCT>TGT	p.S357C	ZNF282_uc011kun.1_Missense_Mutation_p.S357C|ZNF282_uc003wfn.2_Missense_Mutation_p.S297C|ZNF282_uc003wfo.2_Intron	NM_003575	NP_003566	Q9UDV7	ZN282_HUMAN	zinc finger protein 282	357					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)	Lung(243;0.145)		ACAACAGAGTCTCTCATCTCA	0.498													19	29	---	---	---	---	PASS	G	148910796	G	G	148910796	3	3	11	1	0	0	0	0	1	0	0	0	17816	913	32	2	1096	2	ZNF282	7	148910796	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	7432258	148910796	10227867	139	6688										
SSPO	23145	broad.mit.edu	37	chr7	149486368	149486368	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggagatggcacggatgagccGagctatccgtgcccccaggg	16	12	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:149486368G>A	uc010lpk.2	+	30	4344	c.4344G>A	c.(4342-4344)CCG>CCA	p.P1448P		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	1448	LDL-receptor class A 2.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CGGATGAGCCGAGCTATCCGT	0.687													12	28	---	---	---	---	PASS	A	149486368	A	A	149486368	2	1	11	1	0	0	0	0	0	0	0	1	15188	1045	37	2		2	SSPO	7	149486368	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	575572	149486368	9652295	140	6689										
GIMAP6	474344	broad.mit.edu	37	chr7	150324861	150324861	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gcttcctcagattccttctgGatctgggacagtccttccag	9	13	3	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:150324861G>T	uc003whn.2	-	3	1249	c.825C>A	c.(823-825)ATC>ATA	p.I275I	GIMAP6_uc003whm.2_Silent_p.I195I	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	275							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ATTCCTTCTGGATCTGGGACA	0.567													100	90	---	---	---	---	PASS	T	150324861	T	T	150324861	2	4	11	1	0	0	0	0	0	0	0	1	6383	1164	41	2		2	GIMAP6	7	150324861	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	838493	150324861	8813802	141	6690										
GIMAP2	26157	broad.mit.edu	37	chr7	150389460	150389460	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gctgagaatcatcctggtggGcaaaacaggaactggcaaaa	12	8	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:150389460G>A	uc003who.2	+	3	174	c.86G>A	c.(85-87)GGC>GAC	p.G29D	GIMAP1_uc003whp.2_Intron	NM_015660	NP_056475	Q9UG22	GIMA2_HUMAN	GTPase, IMAP family member 2	29	GTP (Potential).					integral to membrane	GTP binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ATCCTGGTGGGCAAAACAGGA	0.507													13	78	---	---	---	---	PASS	A	150389460	A	A	150389460	3	1	11	1	0	0	0	0	1	0	0	0	6380	1203	42	3	92	3	GIMAP2	7	150389460	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	64599	150389460	8749203	142	6691										
MLL3	58508	broad.mit.edu	37	chr7	152009027	152009027	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tatattctgctgaggagatcGttctctgaaaataaaataaa	7	5	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr7:152009027G>A	uc003wla.2	-	5	814	c.595C>T	c.(595-597)CGA>TGA	p.R199*		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	199					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TGAGGAGATCGTTCTCTGAAA	0.348			N		medulloblastoma								41	144	---	---	---	---	PASS	A	152009027	A	A	152009027	4	1	11	1	0	0	0	0	0	1	0	0	9622	1153	40	1	14360	1	MLL3	7	152009027	Nonsense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	1619567	152009027	7129636	143	6692										
CSMD1	64478	broad.mit.edu	37	chr8	2820851	2820851	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agctgtaacttatgctggagCcccagcggaaatcacttccc	9	13	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:2820851C>A	uc011kwk.1	-	60	9740	c.9350G>T	c.(9349-9351)GGC>GTC	p.G3117V	CSMD1_uc011kwj.1_Missense_Mutation_p.G2446V|CSMD1_uc010lrg.2_Missense_Mutation_p.G1008V	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3117	Sushi 25.|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)		TATGCTGGAGCCCCAGCGGAA	0.562													57	147	---	---	---	---	PASS	A	2820851	A	A	2820851	3	1	11	1	0	0	0	0	1	0	0	0	3944	739	26	3	1391	3	CSMD1	8	2820851	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08		2820851	143543171	144	6693										
CSMD1	64478	broad.mit.edu	37	chr8	3263612	3263612	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttgcagtatgcaggtaatggActcggatccctgggtcttga	13	8	1	1	rs115440730	by1000genomes	TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:3263612A>T	uc011kwk.1	-	15	2596	c.2206T>A	c.(2206-2208)TCC>ACC	p.S736T	CSMD1_uc011kwj.1_Missense_Mutation_p.S128T	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	736	Sushi 4.|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)		CAGGTAATGGACTCGGATCCC	0.552													6	56	---	---	---	---	PASS	T	3263612	T	T	3263612	3	4	11	1	0	0	0	0	1	0	0	0	3944	275	10	5	8715	5	CSMD1	8	3263612	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	442761	3263612	143100410	145	6694										
DEFB136	613210	broad.mit.edu	37	chr8	11832058	11832058	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	acgcccactgtcttacctgaAggcagtaagatcaccaggaa	9	12	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:11832058A>G	uc011kxm.1	-	1	51	c.51T>C	c.(49-51)CCT>CCC	p.P17P		NM_001033018	NP_001028190	Q30KP8	DB136_HUMAN	beta-defensin 136 precursor	17					defense response to bacterium	extracellular region					0			STAD - Stomach adenocarcinoma(15;0.033)	COAD - Colon adenocarcinoma(149;0.163)		TCTTACCTGAAGGCAGTAAGA	0.483													41	220	---	---	---	---	PASS	G	11832058	G	G	11832058	2	3	11	1	0	0	0	0	0	0	0	1	4420	59	3	5		5	DEFB136	8	11832058	Silent	SNP	A	TCGA-18-3417-01A-01D-1441-08	8568446	11832058	134531964	146	6695										
DLC1	10395	broad.mit.edu	37	chr8	12957578	12957578	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgggtcctcgtaacagggctGggcgtgctgaccgcgctgct	16	13	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:12957578G>T	uc003wwm.2	-	9	2712	c.2268C>A	c.(2266-2268)CCC>CCA	p.P756P	DLC1_uc003wwk.1_Silent_p.P319P|DLC1_uc003wwl.1_Silent_p.P353P|DLC1_uc011kxx.1_Silent_p.P245P	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	756					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TAACAGGGCTGGGCGTGCTGA	0.582													4	59	---	---	---	---	PASS	T	12957578	T	T	12957578	2	4	11	1	0	0	0	0	0	0	0	1	4550	1335	47	3		3	DLC1	8	12957578	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	1125520	12957578	133406444	147	6696										
TMEM66	51669	broad.mit.edu	37	chr8	29927357	29927357	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctcatgttacaggaatccgcCgaggaccacttataataata	7	10	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:29927357C>A	uc003xhs.2	-	3	685	c.501G>T	c.(499-501)TCG>TCT	p.S167S	TMEM66_uc003xht.2_Silent_p.S167S|TMEM66_uc003xhu.2_Silent_p.S131S|TMEM66_uc003xhv.2_5'UTR	NM_016127	NP_057211	Q96BY9	TMM66_HUMAN	transmembrane protein 66 precursor	167						integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(542;0.0993)|Kidney(114;0.119)		AGGAATCCGCCGAGGACCACT	0.438													13	108	---	---	---	---	PASS	A	29927357	A	A	29927357	2	1	11	1	0	0	0	0	0	0	0	1	16192	639	23	1		1	TMEM66	8	29927357	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	16969779	29927357	116436665	148	6697										
PROSC	11212	broad.mit.edu	37	chr8	37623233	37623233	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgttttgaccttttaggttcAggaactgctagaaaaagcat	9	6	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:37623233A>C	uc003xkh.2	+	3	289	c.212A>C	c.(211-213)CAG>CCG	p.Q71P		NM_007198	NP_009129	O94903	PROSC_HUMAN	proline synthetase co-transcribed homolog	71							pyridoxal phosphate binding			central_nervous_system(1)	1		Lung NSC(58;0.174)	BRCA - Breast invasive adenocarcinoma(5;6.14e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)		L-Proline(DB00172)|Pyridoxal Phosphate(DB00114)	TTTTAGGTTCAGGAACTGCTA	0.393													84	313	---	---	---	---	PASS	C	37623233	C	C	37623233	3	2	11	1	0	0	0	0	1	0	0	0	12559	188	7	5	222	5	PROSC	8	37623233	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	7695876	37623233	108740789	149	6698										
PCMTD1	115294	broad.mit.edu	37	chr8	52732955	52732955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gtaagcttttaaagattcagGgaggggcagcttcatgattt	12	5	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:52732955G>T	uc003xqx.3	-	6	1371	c.1030C>A	c.(1030-1032)CCT>ACT	p.P344T	PCMTD1_uc011ldm.1_Missense_Mutation_p.P214T|PCMTD1_uc003xqw.3_Missense_Mutation_p.P344T|PCMTD1_uc011ldn.1_Missense_Mutation_p.P156T|PCMTD1_uc010lya.2_Missense_Mutation_p.P268T	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	344						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				AAAGATTCAGGGAGGGGCAGC	0.308													4	150	---	---	---	---	PASS	T	52732955	T	T	52732955	3	4	11	1	0	0	0	0	1	0	0	0	11586	1232	43	3	47	3	PCMTD1	8	52732955	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	15109722	52732955	93631067	150	6699										
CNGB3	54714	broad.mit.edu	37	chr8	87656009	87656009	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccccatcatacacccatctaGtagtgccaattccttcatag	4	15	3	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:87656009G>T	uc003ydx.2	-	10	1194	c.1148C>A	c.(1147-1149)ACT>AAT	p.T383N	CNGB3_uc010maj.2_Missense_Mutation_p.T245N	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	383	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						CACCCATCTAGTAGTGCCAAT	0.343													39	236	---	---	---	---	PASS	T	87656009	T	T	87656009	3	4	11	1	0	0	0	0	1	0	0	0	3601	1029	36	3	1317	3	CNGB3	8	87656009	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	34923054	87656009	58708013	151	6700										
MMP16	4325	broad.mit.edu	37	chr8	89179936	89179936	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctagtgtccatggctcatctGagtcaaaatgggtatctcct	9	10	4	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:89179936G>T	uc003yeb.3	-	4	953	c.671C>A	c.(670-672)TCA>TAA	p.S224*	MMP16_uc003yec.2_Nonsense_Mutation_p.S224*	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	224	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						TGGCTCATCTGAGTCAAAATG	0.413													61	88	---	---	---	---	PASS	T	89179936	T	T	89179936	4	4	11	1	0	0	0	0	0	1	0	0	9655	1294	45	2	1336	2	MMP16	8	89179936	Nonsense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	1523927	89179936	57184086	152	6701										
VPS13B	157680	broad.mit.edu	37	chr8	100836079	100836079	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gttatgtcagttctgcatttCctccatggtacagcaaggta	9	9	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:100836079C>T	uc003yiv.2	+	51	9389	c.9278C>T	c.(9277-9279)TCC>TTC	p.S3093F	VPS13B_uc003yiw.2_Missense_Mutation_p.S3068F	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3093					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TTCTGCATTTCCTCCATGGTA	0.289													14	415	---	---	---	---	PASS	T	100836079	T	T	100836079	3	4	11	1	0	0	0	0	1	0	0	0	17187	855	30	2	9670	2	VPS13B	8	100836079	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	11656143	100836079	45527943	153	6702										
RRM2B	50484	broad.mit.edu	37	chr8	103251071	103251071	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttacctcatcctgatccagcCcggccgcttccggcctttcc	7	19	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:103251071C>G	uc003ykn.2	-	1	276	c.32G>C	c.(31-33)GGG>GCG	p.G11A	RRM2B_uc003yko.2_5'Flank|RRM2B_uc010mbv.1_Missense_Mutation_p.G11A|RRM2B_uc010mbw.1_Missense_Mutation_p.G11A|RRM2B_uc010mbx.1_RNA|RRM2B_uc010mby.1_RNA	NM_015713	NP_056528	Q7LG56	RIR2B_HUMAN	ribonucleotide reductase M2 B (TP53 inducible)	11					deoxyribonucleoside diphosphate metabolic process|DNA repair|nucleobase, nucleoside and nucleotide interconversion	nucleoplasm	ribonucleoside-diphosphate reductase activity|transition metal ion binding			ovary(2)	2	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000728)			CTGATCCAGCCCGGCCGCTTC	0.617								Direct_reversal_of_damage|Modulation_of_nucleotide_pools					40	44	---	---	---	---	PASS	G	103251071	G	G	103251071	3	3	11	1	0	0	0	0	1	0	0	0	13683	623	22	4	1327	4	RRM2B	8	103251071	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	2414992	103251071	43112951	154	6703										
RIMS2	9699	broad.mit.edu	37	chr8	105105769	105105769	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	atcttcggacagtgatgtaaGtgatatatctgcggtttcaa	10	6	3	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:105105769G>T	uc003yls.2	+	21	3033	c.2792G>T	c.(2791-2793)AGT>ATT	p.S931I	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Missense_Mutation_p.S1004I|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGTGATGTAAGTGATATATCT	0.428										HNSCC(12;0.0054)			26	264	---	---	---	---	PASS	T	105105769	T	T	105105769	3	4	11	1	0	0	0	0	1	0	0	0	13368	1044	36	3		3	RIMS2	8	105105769	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	1854698	105105769	41258253	155	6704										
EIF3E	3646	broad.mit.edu	37	chr8	109241403	109241403	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tccccagagtgaacttaaagCatttctatctgttgctggaa	8	9	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:109241403C>T	uc003ymu.2	-	6	521	c.493G>A	c.(493-495)GCT>ACT	p.A165T	EIF3E_uc003ymt.2_Missense_Mutation_p.A116T|EIF3E_uc003ymv.2_Missense_Mutation_p.A72T|EIF3E_uc010mci.1_Missense_Mutation_p.A165T	NM_001568	NP_001559	P60228	EIF3E_HUMAN	eukaryotic translation initiation factor 3,	165	Sufficient for interaction with TRIM27.				negative regulation of translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|eukaryotic translation initiation factor 3 complex|PML body	protein N-terminus binding			ovary(2)|kidney(1)	3			OV - Ovarian serous cystadenocarcinoma(57;6.84e-10)			GAACTTAAAGCATTTCTATCT	0.348													71	83	---	---	---	---	PASS	T	109241403	T	T	109241403	3	4	11	1	0	0	0	0	1	0	0	0	5015	710	25	3	876	3	EIF3E	8	109241403	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	4135634	109241403	37122619	156	6705										
CSMD3	114788	broad.mit.edu	37	chr8	113662392	113662392	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgtcaaatgagttattaccaTcacaggttggaagtggatga	11	5	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:113662392T>A	uc003ynu.2	-	19	3350	c.3191A>T	c.(3190-3192)GAT>GTT	p.D1064V	CSMD3_uc003yns.2_Missense_Mutation_p.D336V|CSMD3_uc003ynt.2_Missense_Mutation_p.D1024V|CSMD3_uc011lhx.1_Missense_Mutation_p.D960V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1064	Extracellular (Potential).|Sushi 5.					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						GTTATTACCATCACAGGTTGG	0.333										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			75	95	---	---	---	---	PASS	A	113662392	A	A	113662392	3	1	11	1	0	0	0	0	1	0	0	0	3946	1435	50	5	8144	5	CSMD3	8	113662392	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	4420989	113662392	32701630	157	6706										
WDYHV1	55093	broad.mit.edu	37	chr8	124440252	124440252	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	atgctgtcttcatatctaatGagaggaagatggtaagttgg	12	4	3	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:124440252G>C	uc003yqn.1	+	2	297	c.172G>C	c.(172-174)GAG>CAG	p.E58Q	WDYHV1_uc011lij.1_5'UTR|WDYHV1_uc003yqo.1_5'Flank	NM_018024	NP_060494	Q96HA8	NTAQ1_HUMAN	WDYHV motif containing 1	58					protein modification process	cytosol|nucleus	protein binding|protein N-terminal glutamine amidohydrolase activity			ovary(1)|skin(1)	2						CATATCTAATGAGAGGAAGAT	0.303													45	288	---	---	---	---	PASS	C	124440252	C	C	124440252	3	2	11	1	0	0	0	0	1	0	0	0	17340	1291	45	2	178	2	WDYHV1	8	124440252	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	10777860	124440252	21923770	158	6707										
SQLE	6713	broad.mit.edu	37	chr8	126011677	126011677	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tctgggcattgccactttcaCctatttttataagaagttcg	7	9	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:126011677C>A	uc011liq.1	+	1	958	c.32C>A	c.(31-33)ACC>AAC	p.T11N		NM_003129	NP_003120	Q14534	ERG1_HUMAN	squalene epoxidase	11					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome	flavin adenine dinucleotide binding|squalene monooxygenase activity			ovary(1)|breast(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)		Butenafine(DB01091)|Naftifine(DB00735)|Terbinafine(DB00857)	GCCACTTTCACCTATTTTTAT	0.522													22	32	---	---	---	---	PASS	A	126011677	A	A	126011677	3	1	11	1	0	0	0	0	1	0	0	0	15127	507	18	3	34	3	SQLE	8	126011677	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1571425	126011677	20352345	159	6708										
ADCY8	114	broad.mit.edu	37	chr8	131792917	131792917	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gatttttccttcctgttcacTgatacccttcacatagatct	4	12	3	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:131792917T>C	uc003ytd.3	-	18	3731	c.3475A>G	c.(3475-3477)AGT>GGT	p.S1159G	ADCY8_uc010mds.2_Missense_Mutation_p.S1028G	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1159	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TCCTGTTCACTGATACCCTTC	0.507										HNSCC(32;0.087)			18	244	---	---	---	---	PASS	C	131792917	C	C	131792917	3	2	11	1	0	0	0	0	1	0	0	0	300	1580	55	5	284	5	ADCY8	8	131792917	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	5781240	131792917	14571105	160	6709										
ADCY8	114	broad.mit.edu	37	chr8	131949360	131949360	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agacccatttcaacacagcaGtgggcatggtcctggcgggg	14	11	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr8:131949360G>T	uc003ytd.3	-	5	1696	c.1440C>A	c.(1438-1440)CAC>CAA	p.H480Q	ADCY8_uc010mds.2_Missense_Mutation_p.H480Q	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	480	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CAACACAGCAGTGGGCATGGT	0.517										HNSCC(32;0.087)			58	86	---	---	---	---	PASS	T	131949360	T	T	131949360	3	4	11	1	0	0	0	0	1	0	0	0	300	1020	36	3	2371	3	ADCY8	8	131949360	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	156443	131949360	14414662	161	6710										
CER1	9350	broad.mit.edu	37	chr9	14720297	14720297	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggaggtatgggagtgctgcgCggctccaggaaaatgaacag	17	7	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr9:14720297C>T	uc003zlj.2	-	2	640	c.595G>A	c.(595-597)GCG>ACG	p.A199T		NM_005454	NP_005445	O95813	CER1_HUMAN	cerberus 1 precursor	199	CTCK.				BMP signaling pathway	extracellular space	cytokine activity				0				GBM - Glioblastoma multiforme(50;3.16e-06)		GAGTGCTGCGCGGCTCCAGGA	0.488													21	59	---	---	---	---	PASS	T	14720297	T	T	14720297	3	4	11	1	0	0	0	0	1	0	0	0	3265	768	27	1	212	1	CER1	9	14720297	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08		14720297	126493134	162	6711										
ZNF462	58499	broad.mit.edu	37	chr9	109687239	109687239	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttaccctcagatgaagccgaAgtcacctcacaattctggtc	7	13	4	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr9:109687239A>C	uc004bcz.2	+	3	1335	c.1046A>C	c.(1045-1047)AAG>ACG	p.K349T	ZNF462_uc010mto.2_Missense_Mutation_p.K197T|ZNF462_uc004bda.2_Missense_Mutation_p.K197T	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	349					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						ATGAAGCCGAAGTCACCTCAC	0.478													16	44	---	---	---	---	PASS	C	109687239	C	C	109687239	3	2	11	1	0	0	0	0	1	0	0	0	17923	72	3	5	1052	5	ZNF462	9	109687239	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	94966942	109687239	31526192	163	6712										
ACTL7B	10880	broad.mit.edu	37	chr9	111617377	111617377	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tccgggagctcgtagtccacGcgcagctcctccgggaccag	13	16	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr9:111617377G>A	uc004bdi.2	-	1	899	c.834C>T	c.(832-834)CGC>CGT	p.R278R		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	278						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						CGTAGTCCACGCGCAGCTCCT	0.627													17	45	---	---	---	---	PASS	A	111617377	A	A	111617377	2	1	11	1	0	0	0	0	0	0	0	1	201	1074	38	1		1	ACTL7B	9	111617377	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	1930138	111617377	29596054	164	6713										
SLC31A2	1318	broad.mit.edu	37	chr9	115925107	115925107	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tacttcatcatgctggccgtAatgtcctacaacacctggat	7	12	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr9:115925107A>G	uc004bgq.2	+	4	459	c.342A>G	c.(340-342)GTA>GTG	p.V114V		NM_001860	NP_001851	O15432	COPT2_HUMAN	solute carrier family 31 (copper transporters),	114	Helical; (Potential).					integral to plasma membrane	copper ion transmembrane transporter activity				0						TGCTGGCCGTAATGTCCTACA	0.493													64	156	---	---	---	---	PASS	G	115925107	G	G	115925107	2	3	11	1	0	0	0	0	0	0	0	1	14564	349	13	5		5	SLC31A2	9	115925107	Silent	SNP	A	TCGA-18-3417-01A-01D-1441-08	4307730	115925107	25288324	165	6714										
KIF12	113220	broad.mit.edu	37	chr9	116854706	116854706	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	caacatctctgccaggactcGggtctgagtccagtcactgt	10	13	3	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr9:116854706G>T	uc004bif.2	-	15	1547	c.1309C>A	c.(1309-1311)CGA>AGA	p.R437R	KIF12_uc004big.2_RNA	NM_138424	NP_612433	Q96FN5	KIF12_HUMAN	kinesin family member 12	570	Pro-rich.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						GCCAGGACTCGGGTCTGAGTC	0.612													4	94	---	---	---	---	PASS	T	116854706	T	T	116854706	2	4	11	1	0	0	0	0	0	0	0	1	8273	1124	39	1		1	KIF12	9	116854706	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	929599	116854706	24358725	166	6715										
MEGF9	1955	broad.mit.edu	37	chr9	123367532	123367532	+	Missense_Mutation	SNP	C	T	T													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cattgggagccacttcattgCcatcatcttccaacaatccc							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr9:123367532C>T	uc004bkj.1	-	8	1856	c.1856G>A	c.(1855-1857)GGC>GAC	p.G619D	MEGF9_uc011lyb.1_Missense_Mutation_p.G574D	NM_001080497	NP_001073966	Q9H1U4	MEGF9_HUMAN	multiple EGF-like-domains 9	582	Cytoplasmic (Potential).					integral to membrane	calcium ion binding				0						CACTTCATTGCCATCATCTTC	0.468													55	129	---	---	---	---	PASS	T	123367532	T	T	123367532	3	4	11	1	0	0	0	0	1	0	0	0	9464	739	26	3	67	3	MEGF9	9	123367532	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	6512826	123367532	17845899	167	6716	223	2								
MEGF9	1955	broad.mit.edu	37	chr9	123367533	123367533	+	Missense_Mutation	SNP	C	G	G													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	attgggagccacttcattgcCatcatcttccaacaatcccg							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr9:123367533C>G	uc004bkj.1	-	8	1855	c.1855G>C	c.(1855-1857)GGC>CGC	p.G619R	MEGF9_uc011lyb.1_Missense_Mutation_p.G574R	NM_001080497	NP_001073966	Q9H1U4	MEGF9_HUMAN	multiple EGF-like-domains 9	582	Cytoplasmic (Potential).					integral to membrane	calcium ion binding				0						ACTTCATTGCCATCATCTTCC	0.468													55	134	---	---	---	---	PASS	G	123367533	G	G	123367533	3	3	11	1	0	0	0	0	1	0	0	0	9464	594	21	4	68	4	MEGF9	9	123367533	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1	123367533	17845898	168	6717	223	2								
CALML5	51806	broad.mit.edu	37	chr10	5541104	5541104	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggcccgcctgagctcgtccaCggtgatgtggccgtcgccat	14	15	0	2	rs147358772		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:5541104C>A	uc001iic.2	-	1	430	c.298G>T	c.(298-300)GTG>TTG	p.V100L		NM_017422	NP_059118	Q9NZT1	CALL5_HUMAN	calmodulin-like 5	100	EF-hand 3.|3 (Potential).				epidermis development|signal transduction		calcium ion binding|protein binding				0						AGCTCGTCCACGGTGATGTGG	0.726													5	22	---	---	---	---	PASS	A	5541104	A	A	5541104	3	1	11	1	0	0	0	0	1	0	0	0	2589	536	19	1	146	1	CALML5	10	5541104	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08		5541104	129993643	169	6718										
FAM171A1	221061	broad.mit.edu	37	chr10	15296787	15296787	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tccgaaggggagctggcggcCgtgagaaacgcggtcaggtc	18	10	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:15296787C>A	uc001iob.2	-	4	517	c.510G>T	c.(508-510)ACG>ACT	p.T170T		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	170	Extracellular (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						AGCTGGCGGCCGTGAGAAACG	0.542													8	69	---	---	---	---	PASS	A	15296787	A	A	15296787	2	1	11	1	0	0	0	0	0	0	0	1	5490	639	23	1		1	FAM171A1	10	15296787	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	9755683	15296787	120237960	170	6719										
ITGA8	8516	broad.mit.edu	37	chr10	15600085	15600085	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	taactcaccagtatttttgcAgggctctgtctgtggaattc	9	9	3	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:15600085A>C	uc001ioc.1	-	26	2754	c.2754T>G	c.(2752-2754)CCT>CCG	p.P918P	ITGA8_uc010qcb.1_Silent_p.P903P	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	918	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						GTATTTTTGCAGGGCTCTGTC	0.453													30	164	---	---	---	---	PASS	C	15600085	C	C	15600085	2	2	11	1	0	0	0	0	0	0	0	1	7882	175	7	5		5	ITGA8	10	15600085	Silent	SNP	A	TCGA-18-3417-01A-01D-1441-08	303298	15600085	119934662	171	6720										
RSU1	6251	broad.mit.edu	37	chr10	16737123	16737123	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggattgttctctgctttgaaTacctgcttctggccagttaa	9	9	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:16737123T>A	uc001iok.2	-	7	932	c.630A>T	c.(628-630)GTA>GTT	p.V210V	RSU1_uc001iol.2_Silent_p.V210V|RSU1_uc001iom.2_Silent_p.V157V	NM_152724	NP_689937	Q15404	RSU1_HUMAN	ras suppressor protein 1 isoform 2	210					cell junction assembly|signal transduction	cytosol	protein binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(1;7.54e-08)		CTGCTTTGAATACCTGCTTCT	0.463													33	52	---	---	---	---	PASS	A	16737123	A	A	16737123	2	1	11	1	0	0	0	0	0	0	0	1	13716	1393	49	5		5	RSU1	10	16737123	Silent	SNP	T	TCGA-18-3417-01A-01D-1441-08	1137038	16737123	118797624	172	6721										
GPR158	57512	broad.mit.edu	37	chr10	25840014	25840014	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgtcactctcaaacttcacaGgtatatacattttattcatc	3	10	4	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:25840014G>C	uc001isj.2	+	6	1574	c.1514G>C	c.(1513-1515)AGG>ACG	p.R505T		NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	505	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						AAACTTCACAGGTATATACAT	0.408													36	209	---	---	---	---	PASS	C	25840014	C	C	25840014	3	2	11	1	0	0	0	0	1	0	0	0	6663	1014	35	4	1536	4	GPR158	10	25840014	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	9102891	25840014	109694733	173	6722										
ACBD5	91452	broad.mit.edu	37	chr10	27507019	27507019	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aactggcatgaatgtcattcTgtatatcctgaacaaagcca	7	9	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:27507019T>C	uc010qdp.1	-	7	910	c.719A>G	c.(718-720)CAG>CGG	p.Q240R	ACBD5_uc010qdm.1_Missense_Mutation_p.Q238R|ACBD5_uc010qdn.1_Missense_Mutation_p.Q131R|ACBD5_uc010qdo.1_Intron|ACBD5_uc001ito.2_Missense_Mutation_p.Q205R|ACBD5_uc001itp.2_Missense_Mutation_p.Q131R|ACBD5_uc001itq.2_Missense_Mutation_p.Q131R|ACBD5_uc001itr.1_Missense_Mutation_p.Q29R	NM_145698	NP_663736	Q5T8D3	ACBD5_HUMAN	acyl-Coenzyme A binding domain containing 5	249					transport	integral to membrane|peroxisomal membrane	fatty-acyl-CoA binding				0						AATGTCATTCTGTATATCCTG	0.388													46	265	---	---	---	---	PASS	C	27507019	C	C	27507019	3	2	11	1	0	0	0	0	1	0	0	0	125	1580	55	5	886	5	ACBD5	10	27507019	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	1667005	27507019	108027728	174	6723										
ZNF33A	7581	broad.mit.edu	37	chr10	38343954	38343954	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tggggtatctatgaaacactAtgattgtggtgaaagtggga	14	3	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:38343954A>G	uc001izh.2	+	5	1077	c.899A>G	c.(898-900)TAT>TGT	p.Y300C	ZNF33A_uc001izg.2_Missense_Mutation_p.Y301C|ZNF33A_uc010qev.1_Missense_Mutation_p.Y307C|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	300						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						ATGAAACACTATGATTGTGGT	0.383													36	174	---	---	---	---	PASS	G	38343954	G	G	38343954	3	3	11	1	0	0	0	0	1	0	0	0	17851	449	16	5	916	5	ZNF33A	10	38343954	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	10836935	38343954	97190793	175	6724										
PGBD3	267004	broad.mit.edu	37	chr10	50723928	50723928	+	Nonsense_Mutation	SNP	G	T	T													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	acactgttatcattccatctGcagacaatattgcctttgcc							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:50723928G>T	uc001jht.2	-	2	1488	c.1233C>A	c.(1231-1233)TGC>TGA	p.C411*	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Nonsense_Mutation_p.C879*|PGBD3_uc001jhu.2_Nonsense_Mutation_p.C879*	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	411										pancreas(1)|breast(1)|skin(1)	3						CATTCCATCTGCAGACAATAT	0.408													50	163	---	---	---	---	PASS	T	50723928	T	T	50723928	4	4	11	1	0	0	0	0	0	1	0	0	11782	1311	46	3	552	3	PGBD3	10	50723928	Nonsense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	12379974	50723928	84810819	176	6725	224	2								
PGBD3	267004	broad.mit.edu	37	chr10	50723929	50723929	+	Missense_Mutation	SNP	C	T	T													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cactgttatcattccatctgCagacaatattgcctttgcca							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:50723929C>T	uc001jht.2	-	2	1487	c.1232G>A	c.(1231-1233)TGC>TAC	p.C411Y	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Missense_Mutation_p.C879Y|PGBD3_uc001jhu.2_Missense_Mutation_p.C879Y	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	411										pancreas(1)|breast(1)|skin(1)	3						ATTCCATCTGCAGACAATATT	0.413													48	165	---	---	---	---	PASS	T	50723929	T	T	50723929	3	4	11	1	0	0	0	0	1	0	0	0	11782	710	25	3	553	3	PGBD3	10	50723929	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1	50723929	84810818	177	6726	224	2								
OGDHL	55753	broad.mit.edu	37	chr10	50957775	50957775	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctgggcatggcacccacctcGtccgccgcctccagcttggg	12	18	0	0	rs35599320		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:50957775G>A	uc001jie.2	-	8	1126	c.984C>T	c.(982-984)GAC>GAT	p.D328D	OGDHL_uc009xog.2_Silent_p.D355D|OGDHL_uc010qgt.1_Silent_p.D271D|OGDHL_uc010qgu.1_Silent_p.D119D|OGDHL_uc009xoh.2_Silent_p.D119D	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	328					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						CACCCACCTCGTCCGCCGCCT	0.647													8	7	---	---	---	---	PASS	A	50957775	A	A	50957775	2	1	11	1	0	0	0	0	0	0	0	1	10840	1136	40	1		1	OGDHL	10	50957775	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	233846	50957775	84576972	178	6727										
CCDC6	8030	broad.mit.edu	37	chr10	61574417	61574417	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agactaaacaaaccgcttttCagcttcaagcttatccatcc	4	13	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:61574417C>T	uc001jks.3	-	4	1315	c.679G>A	c.(679-681)GAA>AAA	p.E227K		NM_005436	NP_005427	Q16204	CCDC6_HUMAN	coiled-coil domain containing 6	227	5.|5 X 29 AA tandem repeats.|Potential.					cytoplasm|cytoskeleton	SH3 domain binding|structural constituent of cytoskeleton			ovary(3)|breast(1)	4				Kidney(211;0.0597)		AACCGCTTTTCAGCTTCAAGC	0.383													30	101	---	---	---	---	PASS	T	61574417	T	T	61574417	3	4	11	1	0	0	0	0	1	0	0	0	2830	835	29	2	769	2	CCDC6	10	61574417	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	10616642	61574417	73960330	179	6728										
DDIT4	54541	broad.mit.edu	37	chr10	74034470	74034470	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cagacacggcttacctggatGgggtgtcgttgcccgacttc	13	12	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:74034470G>C	uc001jsx.1	+	3	425	c.223G>C	c.(223-225)GGG>CGG	p.G75R		NM_019058	NP_061931	Q9NX09	DDIT4_HUMAN	RTP801	75					apoptosis					pancreas(1)	1						TTACCTGGATGGGGTGTCGTT	0.587													85	151	---	---	---	---	PASS	C	74034470	C	C	74034470	3	2	11	1	0	0	0	0	1	0	0	0	4331	1348	47	4	229	4	DDIT4	10	74034470	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	12460053	74034470	61500277	180	6729										
GRID1	2894	broad.mit.edu	37	chr10	87373301	87373301	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cagcttgagggatttgccgtCggcctgggcgctggcatggc	17	11	0	1	rs143982305		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:87373301C>T	uc001kdl.1	-	15	2565	c.2464G>A	c.(2464-2466)GAC>AAC	p.D822N	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.D393N	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	822	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	GATTTGCCGTCGGCCTGGGCG	0.657										Multiple Myeloma(13;0.14)			10	61	---	---	---	---	PASS	T	87373301	T	T	87373301	3	4	11	1	0	0	0	0	1	0	0	0	6771	884	31	2	573	2	GRID1	10	87373301	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	13338831	87373301	48161446	181	6730										
PTEN	5728	broad.mit.edu	37	chr10	89692898	89692898	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	caattcactgtaaagctggaAagggacgaactggtgtaatg	12	6	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:89692898A>C	uc001kfb.2	+	6	1413	c.382A>C	c.(382-384)AAG>CAG	p.K128Q		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	128	Phosphatase tensin-type.			K->M: 85% reduction in phosphatase activity towards PtdIns(3,4,5)P3.|K->R: Does not reduce phosphatase activity towards PtdIns(3,4,5)P3.	activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.R55fs*1(4)|p.K128N(4)|p.K128_R130del(3)|p.?(2)|p.Y27fs*1(2)|p.Y27_N212>Y(2)|p.K128fs*47(1)|p.A121_F145del(1)|p.G127fs*5(1)|p.F56fs*2(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TAAAGCTGGAAAGGGACGAAC	0.418		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			74	114	---	---	---	---	PASS	C	89692898	C	C	89692898	3	2	11	1	0	0	0	0	1	0	0	0	12738	15	1	5	400	5	PTEN	10	89692898	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	2319597	89692898	45841849	182	6731										
CYP26A1	1592	broad.mit.edu	37	chr10	94834612	94834612	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgaggaagtgggcagcagccTggagcagtggctgagctgcg	19	9	0	1	rs148053802		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:94834612T>C	uc001kil.2	+	3	536	c.491T>C	c.(490-492)CTG>CCG	p.L164P	CYP26A1_uc001kik.1_Missense_Mutation_p.L95P|CYP26A1_uc001kim.1_Missense_Mutation_p.L62P	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	164					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				GGCAGCAGCCTGGAGCAGTGG	0.652													11	58	---	---	---	---	PASS	C	94834612	C	C	94834612	3	2	11	1	0	0	0	0	1	0	0	0	4155	1580	55	5	501	5	CYP26A1	10	94834612	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	5141714	94834612	40700135	183	6732										
PKD2L1	9033	broad.mit.edu	37	chr10	102089039	102089039	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tggtcttgatataaagttccCggttctcagctgtgttctca	9	9	3	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr10:102089039C>A	uc001kqx.1	-	2	661	c.278G>T	c.(277-279)CGG>CTG	p.R93L	PKD2L1_uc009xwm.1_Missense_Mutation_p.R46L	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	93	Cytoplasmic (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		ATAAAGTTCCCGGTTCTCAGC	0.502													47	100	---	---	---	---	PASS	A	102089039	A	A	102089039	3	1	11	1	0	0	0	0	1	0	0	0	11967	652	23	1	2199	1	PKD2L1	10	102089039	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	7254427	102089039	33445708	184	6733										
OR51L1	119682	broad.mit.edu	37	chr11	5020437	5020437	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gcagtgaatgacctggggatGtccctgtctacacttcccac	10	13	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:5020437G>T	uc010qyu.1	+	1	225	c.225G>T	c.(223-225)ATG>ATT	p.M75I		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACCTGGGGATGTCCCTGTCTA	0.463													25	144	---	---	---	---	PASS	T	5020437	T	T	5020437	3	4	11	1	0	0	0	0	1	0	0	0	11102	1377	48	3	227	3	OR51L1	11	5020437	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08		5020437	129986079	185	6734										
OR52A5	390054	broad.mit.edu	37	chr11	5153675	5153675	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	atgtctgtggctgccaacatGgccaaaaaaatgtacatggg	11	8	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:5153675G>T	uc010qyx.1	-	1	198	c.198C>A	c.(196-198)GCC>GCA	p.A66A		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		CTGCCAACATGGCCAAAAAAA	0.383													14	74	---	---	---	---	PASS	T	5153675	T	T	5153675	2	4	11	1	0	0	0	0	0	0	0	1	11110	1335	47	3		3	OR52A5	11	5153675	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	133238	5153675	129852841	186	6735										
OR2D3	120775	broad.mit.edu	37	chr11	6943116	6943116	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aatgatatctgtgttctataCagcggtgactccaatgttga	9	7	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:6943116C>A	uc010rav.1	+	1	884	c.884C>A	c.(883-885)ACA>AAA	p.T295K		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	295	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GTGTTCTATACAGCGGTGACT	0.408													16	137	---	---	---	---	PASS	A	6943116	A	A	6943116	3	1	11	1	0	0	0	0	1	0	0	0	10995	478	17	3	886	3	OR2D3	11	6943116	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1789441	6943116	128063400	187	6736										
NLRP14	338323	broad.mit.edu	37	chr11	7059857	7059857	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cttctttctttcctgattttGggctgctattgtatttggag	9	7	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:7059857G>T	uc001mfb.1	+	2	363	c.40G>T	c.(40-42)GGG>TGG	p.G14W		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	14	DAPIN.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		TCCTGATTTTGGGCTGCTATT	0.403													22	175	---	---	---	---	PASS	T	7059857	T	T	7059857	3	4	11	1	0	0	0	0	1	0	0	0	10476	1348	47	3	42	3	NLRP14	11	7059857	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	116741	7059857	127946659	188	6737										
OR5P2	120065	broad.mit.edu	37	chr11	7818326	7818326	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agtggctcagaaagaaatacAtaggatgatggagctgagaa	13	4	1	4			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:7818326A>G	uc001mfp.1	-	1	164	c.164T>C	c.(163-165)ATG>ACG	p.M55T		NM_153444	NP_703145	Q8WZ92	OR5P2_HUMAN	olfactory receptor, family 5, subfamily P,	55	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AAAGAAATACATAGGATGATG	0.408													14	68	---	---	---	---	PASS	G	7818326	G	G	7818326	3	3	11	1	0	0	0	0	1	0	0	0	11178	217	8	5	808	5	OR5P2	11	7818326	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	758469	7818326	127188190	189	6738										
USP47	55031	broad.mit.edu	37	chr11	11969555	11969555	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	caaacaacatttagagccctTtgttggagttttgtcctctc	7	10	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:11969555T>G	uc001mjs.2	+	21	3918	c.3155T>G	c.(3154-3156)TTT>TGT	p.F1052C	USP47_uc001mjr.2_Missense_Mutation_p.F984C|USP47_uc009ygi.2_5'Flank	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	1072					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		TTAGAGCCCTTTGTTGGAGTT	0.393													29	173	---	---	---	---	PASS	G	11969555	G	G	11969555	3	3	11	1	0	0	0	0	1	0	0	0	17075	1841	64	5	3029	5	USP47	11	11969555	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	4151229	11969555	123036961	190	6739										
ELP4	26610	broad.mit.edu	37	chr11	31531381	31531381	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgccgcgagtactgggtctgCagtggcgacagccagcaaga	15	11	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:31531381C>T	uc001mtb.2	+	1	85	c.50C>T	c.(49-51)GCA>GTA	p.A17V	IMMP1L_uc001msy.1_5'Flank|IMMP1L_uc001msz.1_5'Flank|ELP4_uc001mta.1_RNA|ELP4_uc001mtc.2_Missense_Mutation_p.A17V|ELP4_uc010rdz.1_Missense_Mutation_p.A17V|IMMP1L_uc009yjo.2_5'Flank|IMMP1L_uc009yjp.2_5'Flank	NM_019040	NP_061913	Q96EB1	ELP4_HUMAN	elongation protein 4 homolog	17					histone acetylation|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|Elongator holoenzyme complex|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|prostate(1)	3	Lung SC(675;0.225)					ACTGGGTCTGCAGTGGCGACA	0.597													8	50	---	---	---	---	PASS	T	31531381	T	T	31531381	3	4	11	1	0	0	0	0	1	0	0	0	5082	710	25	3	52	3	ELP4	11	31531381	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	19561826	31531381	103475135	191	6740										
FOLH1	2346	broad.mit.edu	37	chr11	49168457	49168457	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aattcctgggaatgactcccCtgcatacttgttgtggctgc	10	11	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:49168457C>T	uc001ngy.2	-	19	2365	c.2104G>A	c.(2104-2106)GGG>AGG	p.G702R	FOLH1_uc001ngx.2_Silent_p.Q101Q|FOLH1_uc001ngz.2_Missense_Mutation_p.G671R|FOLH1_uc009yly.2_Missense_Mutation_p.G687R|FOLH1_uc009ylz.2_Missense_Mutation_p.G656R|FOLH1_uc009yma.2_Missense_Mutation_p.G394R	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	702	Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	AATGACTCCCCTGCATACTTG	0.423													14	105	---	---	---	---	PASS	T	49168457	T	T	49168457	3	4	11	1	0	0	0	0	1	0	0	0	5979	681	24	3	152	3	FOLH1	11	49168457	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	17637076	49168457	85838059	192	6741										
OR5D13	390142	broad.mit.edu	37	chr11	55541644	55541644	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gaaaactttctccacctgtgCctcccacctgacagccatca	5	17	2	1	rs76632744	by1000genomes	TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:55541644C>T	uc010ril.1	+	1	731	c.731C>T	c.(730-732)GCC>GTC	p.A244V		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				TCCACCTGTGCCTCCCACCTG	0.423													17	108	---	---	---	---	PASS	T	55541644	T	T	55541644	3	4	11	1	0	0	0	0	1	0	0	0	11154	739	26	3	733	3	OR5D13	11	55541644	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	6373187	55541644	79464872	193	6742										
OR5D18	219438	broad.mit.edu	37	chr11	55587827	55587827	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gcgccgcaaagccttctccaCctgtgcctcccacctgactg	8	19	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:55587827C>A	uc010rin.1	+	1	722	c.722C>A	c.(721-723)ACC>AAC	p.T241N		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				GCCTTCTCCACCTGTGCCTCC	0.507													7	87	---	---	---	---	PASS	A	55587827	A	A	55587827	3	1	11	1	0	0	0	0	1	0	0	0	11157	507	18	3	724	3	OR5D18	11	55587827	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	46183	55587827	79418689	194	6743										
SPRYD5	84767	broad.mit.edu	37	chr11	55657498	55657498	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	catcactggactgctggacaGcctcagtggattcagaggtg	13	10	3	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:55657498G>A	uc010rip.1	+	6	934	c.842G>A	c.(841-843)AGC>AAC	p.S281N	SPRYD5_uc010riq.1_Missense_Mutation_p.S138N	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	281	B30.2/SPRY.					intracellular	zinc ion binding				0		all_epithelial(135;0.226)				CTGCTGGACAGCCTCAGTGGA	0.502													10	50	---	---	---	---	PASS	A	55657498	A	A	55657498	3	1	11	1	0	0	0	0	1	0	0	0	15110	971	34	3	860	3	SPRYD5	11	55657498	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	69671	55657498	79349018	195	6744										
OR8K5	219453	broad.mit.edu	37	chr11	55927594	55927594	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aattaccaagatcaacaaaaGccaaatgtctgatagaaaag	6	7	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:55927594G>T	uc010rja.1	-	1	200	c.200C>A	c.(199-201)GCT>GAT	p.A67D		NM_001004058	NP_001004058	Q8NH50	OR8K5_HUMAN	olfactory receptor, family 8, subfamily K,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(21;0.00693)	Lung NSC(402;0.197)|all_epithelial(135;0.236)				ATCAACAAAAGCCAAATGTCT	0.393													14	131	---	---	---	---	PASS	T	55927594	T	T	55927594	3	4	11	1	0	0	0	0	1	0	0	0	11245	971	34	3	726	3	OR8K5	11	55927594	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	270096	55927594	79078922	196	6745										
OR8K1	390157	broad.mit.edu	37	chr11	56113543	56113543	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgtggtaaaacacaatcacaCggcagtgaccaaggtgactg	11	9	1	2	rs140629640		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:56113543C>A	uc010rjg.1	+	1	29	c.29C>A	c.(28-30)ACG>AAG	p.T10K		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					CACAATCACACGGCAGTGACC	0.373										HNSCC(65;0.19)			17	71	---	---	---	---	PASS	A	56113543	A	A	56113543	3	1	11	1	0	0	0	0	1	0	0	0	11243	536	19	1	31	1	OR8K1	11	56113543	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	185949	56113543	78892973	197	6746										
UBE2L6	9246	broad.mit.edu	37	chr11	57319921	57319921	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgtgtcagcaggtcagcgagGtccatccgcaggggctccct	14	13	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:57319921G>T	uc001nkn.1	-	4	468	c.372C>A	c.(370-372)GAC>GAA	p.D124E	UBE2L6_uc001nko.1_Missense_Mutation_p.D58E	NM_004223	NP_004214	O14933	UB2L6_HUMAN	ubiquitin-conjugating enzyme E2L 6 isoform 1	124					negative regulation of type I interferon production	cytosol	protein binding|ubiquitin-protein ligase activity			ovary(1)	1						GGTCAGCGAGGTCCATCCGCA	0.567													35	258	---	---	---	---	PASS	T	57319921	T	T	57319921	3	4	11	1	0	0	0	0	1	0	0	0	16861	1252	44	3	93	3	UBE2L6	11	57319921	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	1206378	57319921	77686595	198	6747										
MS4A10	341116	broad.mit.edu	37	chr11	60557884	60557884	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggcaagtcctcagcccagtcCagccctggcagacaagtgca	11	15	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:60557884C>T	uc001npz.1	+	2	172	c.76C>T	c.(76-78)CAG>TAG	p.Q26*		NM_206893	NP_996776	Q96PG2	M4A10_HUMAN	membrane-spanning 4-domains, subfamily A, member	26	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(1)|skin(1)	2						CAGCCCAGTCCAGCCCTGGCA	0.592													23	126	---	---	---	---	PASS	T	60557884	T	T	60557884	4	4	11	1	0	0	0	0	0	1	0	0	9855	595	21	3	78	3	MS4A10	11	60557884	Nonsense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	3237963	60557884	74448632	199	6748										
HNRNPUL2	221092	broad.mit.edu	37	chr11	62490109	62490109	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	acatcattctccccaaaagtCtggccaaattcctcaaattg	4	13	4	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:62490109C>G	uc001nuw.2	-	6	1252	c.1059G>C	c.(1057-1059)CAG>CAC	p.Q353H	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	353	B30.2/SPRY.				cell killing	nucleus	ATP binding|nucleic acid binding				0						CCCCAAAAGTCTGGCCAAATT	0.428													14	117	---	---	---	---	PASS	G	62490109	G	G	62490109	3	3	11	1	0	0	0	0	1	0	0	0	7275	912	32	2	1220	2	HNRNPUL2	11	62490109	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1932225	62490109	72516407	200	6749										
POLA2	23649	broad.mit.edu	37	chr11	65062070	65062070	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tccataaacggagtgatcttCggcttgacatccacagatct	8	11	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:65062070C>T	uc001odj.2	+	15	1749	c.1407C>T	c.(1405-1407)TTC>TTT	p.F469F	POLA2_uc010rod.1_Silent_p.F261F|POLA2_uc001odk.2_Silent_p.F166F	NM_002689	NP_002680	Q14181	DPOA2_HUMAN	DNA-directed DNA polymerase alpha 2	469					DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	nucleoplasm	DNA binding				0					Dacarbazine(DB00851)	GAGTGATCTTCGGCTTGACAT	0.493													11	114	---	---	---	---	PASS	T	65062070	T	T	65062070	2	4	11	1	0	0	0	0	0	0	0	1	12188	883	31	2		2	POLA2	11	65062070	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	2571961	65062070	69944446	201	6750										
CTSW	1521	broad.mit.edu	37	chr11	65648993	65648993	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccattcagtgacctcacaggTaccattaacccttctggctc	6	15	3	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:65648993T>G	uc001ogc.1	+	3	328	c.286_splice	c.e3+2	p.E96_splice	CTSW_uc001ogb.1_Splice_Site_p.E96_splice	NM_001335	NP_001326	P56202	CATW_HUMAN	cathepsin W preproprotein						immune response|proteolysis		cysteine-type endopeptidase activity			central_nervous_system(1)	1				READ - Rectum adenocarcinoma(159;0.168)		ACCTCACAGGTACCATTAACC	0.577													116	719	---	---	---	---	PASS	G	65648993	G	G	65648993	5	3	11	1	0	0	0	0	0	0	1	0	4042	1652	57	5	298	5	CTSW	11	65648993	Splice_Site	SNP	T	TCGA-18-3417-01A-01D-1441-08	586923	65648993	69357523	202	6751										
NPAS4	266743	broad.mit.edu	37	chr11	66191103	66191103	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggtgaggctacaggccaagaCtggaggctgggcatggattt	17	7	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:66191103C>T	uc001ohx.1	+	6	1039	c.863C>T	c.(862-864)ACT>ATT	p.T288I	NPAS4_uc010rpc.1_Missense_Mutation_p.T78I	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	288	PAC.				transcription, DNA-dependent		DNA binding|signal transducer activity				0						CAGGCCAAGACTGGAGGCTGG	0.522													13	90	---	---	---	---	PASS	T	66191103	T	T	66191103	3	4	11	1	0	0	0	0	1	0	0	0	10565	565	20	3	885	3	NPAS4	11	66191103	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	542110	66191103	68815413	203	6752										
TCIRG1	10312	broad.mit.edu	37	chr11	67818063	67818063	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	atctttgccgcctttgccgtGatgaccgtggctatcctgct	10	13	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:67818063G>T	uc001one.2	+	19	2454	c.2346G>T	c.(2344-2346)GTG>GTT	p.V782V	TCIRG1_uc001ong.2_Silent_p.V566V|TCIRG1_uc001onh.2_Silent_p.V484V|TCIRG1_uc001oni.2_Silent_p.V286V|TCIRG1_uc009ysd.2_Intron	NM_006019	NP_006010	Q13488	VPP3_HUMAN	T-cell, immune regulator 1 isoform a	782	Helical; (Potential).				ATP hydrolysis coupled proton transport|cellular defense response|cellular iron ion homeostasis|insulin receptor signaling pathway|positive regulation of cell proliferation|transferrin transport	apical plasma membrane|endosome membrane|integral to plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity			ovary(1)	1						CCTTTGCCGTGATGACCGTGG	0.667													17	93	---	---	---	---	PASS	T	67818063	T	T	67818063	2	4	11	1	0	0	0	0	0	0	0	1	15700	1277	45	2		2	TCIRG1	11	67818063	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	1626960	67818063	67188453	204	6753										
MRGPRD	116512	broad.mit.edu	37	chr11	68748106	68748106	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agcgctgggtgctgatggccGtcagcaggctcaggcccact	15	13	2	1	rs147515740		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:68748106G>A	uc010rqf.1	-	1	350	c.350C>T	c.(349-351)ACG>ATG	p.T117M		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	117	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			GCTGATGGCCGTCAGCAGGCT	0.592													7	42	---	---	---	---	PASS	A	68748106	A	A	68748106	3	1	11	1	0	0	0	0	1	0	0	0	9763	1145	40	1	618	1	MRGPRD	11	68748106	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	930043	68748106	66258410	205	6754										
MMP8	4317	broad.mit.edu	37	chr11	102592384	102592384	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gttgatatctgcctctccctGtgagatcctggtgaagatga	11	9	2	5			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:102592384G>T	uc001phe.2	-	3	556	c.457C>A	c.(457-459)CAG>AAG	p.Q153K	MMP8_uc010rut.1_Missense_Mutation_p.Q88K|MMP8_uc010ruu.1_Missense_Mutation_p.Q130K	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	153					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		GCCTCTCCCTGTGAGATCCTG	0.463													22	62	---	---	---	---	PASS	T	102592384	T	T	102592384	3	4	11	1	0	0	0	0	1	0	0	0	9668	1386	48	3	978	3	MMP8	11	102592384	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	33844278	102592384	32414132	206	6755										
CWF19L2	143884	broad.mit.edu	37	chr11	107309855	107309855	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	actacagtcttcaggtggaaGacctgtcccaccatccttcc	7	15	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:107309855G>C	uc010rvp.1	-	6	655	c.625C>G	c.(625-627)CTT>GTT	p.L209V	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	209	Potential.						catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		TCAGGTGGAAGACCTGTCCCA	0.308													3	30	---	---	---	---	PASS	C	107309855	C	C	107309855	3	2	11	1	0	0	0	0	1	0	0	0	4072	942	33	2	2111	2	CWF19L2	11	107309855	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	4717471	107309855	27696661	207	6756										
ATM	472	broad.mit.edu	37	chr11	108170460	108170460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gaggctgttggaagctgcttGggagaagtgggtcctataga	17	5	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:108170460G>T	uc001pkb.1	+	34	5410	c.5025G>T	c.(5023-5025)TTG>TTT	p.L1675F	ATM_uc009yxr.1_Missense_Mutation_p.L1675F|ATM_uc001pke.1_Missense_Mutation_p.L327F|ATM_uc001pkg.1_Missense_Mutation_p.L32F	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1675					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		GAAGCTGCTTGGGAGAAGTGG	0.333			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			20	157	---	---	---	---	PASS	T	108170460	T	T	108170460	3	4	11	1	0	0	0	0	1	0	0	0	1109	1339	47	3	5155	3	ATM	11	108170460	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	860605	108170460	26836056	208	6757										
SCN3B	55800	broad.mit.edu	37	chr11	123516345	123516345	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gaaccattccaccaccgtggTggcctccacctcctctctct	6	19	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:123516345T>A	uc001pza.1	-	3	576	c.169A>T	c.(169-171)ACC>TCC	p.T57S	SCN3B_uc001pzb.1_Missense_Mutation_p.T57S	NM_001040151	NP_001035241	Q9NY72	SCN3B_HUMAN	voltage-gated sodium channel beta-3 subunit	57	Ig-like C2-type.|Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	voltage-gated sodium channel activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0227)		ACCACCGTGGTGGCCTCCACC	0.587													30	138	---	---	---	---	PASS	A	123516345	A	A	123516345	3	1	11	1	0	0	0	0	1	0	0	0	13919	1696	59	5	494	5	SCN3B	11	123516345	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	15345885	123516345	11490171	209	6758										
CHEK1	1111	broad.mit.edu	37	chr11	125523664	125523664	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	actatatcaacaactgatagGagaaacaataaactcatttt	4	7	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:125523664G>T	uc009zbo.2	+	12	2149	c.1257G>T	c.(1255-1257)AGG>AGT	p.R419S	CHEK1_uc010sbh.1_Missense_Mutation_p.R435S|CHEK1_uc010sbi.1_Intron|CHEK1_uc001qcf.3_Missense_Mutation_p.R419S|CHEK1_uc009zbp.2_Missense_Mutation_p.R419S|CHEK1_uc001qcg.3_Missense_Mutation_p.R419S|CHEK1_uc009zbq.2_Missense_Mutation_p.R375S|CHEK1_uc001qci.1_RNA|CHEK1_uc001qcj.2_Missense_Mutation_p.R67S	NM_001114122	NP_001107594	O14757	CHK1_HUMAN	checkpoint kinase 1	419	Autoinhibitory region.				cellular response to mechanical stimulus|DNA repair|DNA replication|gamete generation|negative regulation of cell proliferation|reciprocal meiotic recombination|regulation of cyclin-dependent protein kinase activity|replicative senescence	condensed nuclear chromosome|microtubule organizing center|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|skin(1)	6	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0748)		CAACTGATAGGAGAAACAATA	0.254								Other_conserved_DNA_damage_response_genes					27	155	---	---	---	---	PASS	T	125523664	T	T	125523664	3	4	11	1	0	0	0	0	1	0	0	0	3334	1165	41	2	1299	2	CHEK1	11	125523664	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	2007319	125523664	9482852	210	6759										
RPUSD4	84881	broad.mit.edu	37	chr11	126075365	126075365	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gaaaagtgacactctcaccaGtgatgggctggagctccacg	12	11	1	2	rs149309585		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr11:126075365G>A	uc001qde.2	-	5	848	c.794C>T	c.(793-795)ACT>ATT	p.T265I	RPUSD4_uc010sbl.1_Missense_Mutation_p.T72I|RPUSD4_uc009zbz.2_Missense_Mutation_p.T234I|RPUSD4_uc009zby.2_RNA	NM_032795	NP_116184	Q96CM3	RUSD4_HUMAN	RNA pseudouridylate synthase domain containing 4	265					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			breast(1)	1	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0761)		ACTCTCACCAGTGATGGGCTG	0.577													22	56	---	---	---	---	PASS	A	126075365	A	A	126075365	3	1	11	1	0	0	0	0	1	0	0	0	13669	1029	36	3	351	3	RPUSD4	11	126075365	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	551701	126075365	8931151	211	6760										
GALNT8	26290	broad.mit.edu	37	chr12	4874620	4874620	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccagtgctagtgatcgctgcCtgacagaccctggcaaggcg	13	13	0	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:4874620C>A	uc001qne.1	+	10	1761	c.1669C>A	c.(1669-1671)CTG>ATG	p.L557M		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	557	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						TGATCGCTGCCTGACAGACCC	0.433													4	198	---	---	---	---	PASS	A	4874620	A	A	4874620	3	1	11	1	0	0	0	0	1	0	0	0	6219	680	24	3	1707	3	GALNT8	12	4874620	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08		4874620	128977275	212	6761										
ANO2	57101	broad.mit.edu	37	chr12	5853393	5853393	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aggtggctggcctgcgcggtCccacaggctgagctgaggtt	17	11	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:5853393C>G	uc001qnm.2	-	12	1341	c.1269G>C	c.(1267-1269)GGG>GGC	p.G423G		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	428	Extracellular (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						CCTGCGCGGTCCCACAGGCTG	0.537													116	67	---	---	---	---	PASS	G	5853393	G	G	5853393	2	3	11	1	0	0	0	0	0	0	0	1	697	842	30	2		2	ANO2	12	5853393	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	978773	5853393	127998502	213	6762										
CHD4	1108	broad.mit.edu	37	chr12	6707131	6707131	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgatagaagcgttcctccatCtctgcaaatttagggtcctt	8	11	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:6707131C>T	uc001qpo.2	-	12	1985	c.1821G>A	c.(1819-1821)GAG>GAA	p.E607E	CHD4_uc001qpn.2_Silent_p.E600E|CHD4_uc001qpp.2_Silent_p.E604E	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	607					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						GTTCCTCCATCTCTGCAAATT	0.502													68	511	---	---	---	---	PASS	T	6707131	T	T	6707131	2	4	11	1	0	0	0	0	0	0	0	1	3327	912	32	2		2	CHD4	12	6707131	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	853738	6707131	127144764	214	6763										
TAS2R30	259293	broad.mit.edu	37	chr12	11286736	11286736	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aaggagatcttttgtctcttGacccactcaatggaatttac	7	9	3	2	rs112605675		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:11286736G>A	uc009zhs.1	-	1	108	c.108C>T	c.(106-108)GTC>GTT	p.V36V	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_001097643	NP_001091112			type 2 taste receptor member 30												0						TTTGTCTCTTGACCCACTCAA	0.388													25	186	---	---	---	---	PASS	A	11286736	A	A	11286736	2	1	11	1	0	0	0	0	0	0	0	1	15570	1277	45	2		2	TAS2R30	12	11286736	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	4579605	11286736	122565159	215	6764										
KIAA1467	57613	broad.mit.edu	37	chr12	13214634	13214634	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agctgatgccaggaagcttgGctgaaaccatctgccttgtg	12	10	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:13214634G>C	uc001rbi.2	+	4	681	c.658G>C	c.(658-660)GCT>CCT	p.A220P	KIAA1467_uc009zhx.1_RNA	NM_020853	NP_065904	A2RU67	K1467_HUMAN	hypothetical protein LOC57613	220						integral to membrane				central_nervous_system(2)|skin(1)	3		Prostate(47;0.184)		BRCA - Breast invasive adenocarcinoma(232;0.157)		AGGAAGCTTGGCTGAAACCAT	0.488													9	125	---	---	---	---	PASS	C	13214634	C	C	13214634	3	2	11	1	0	0	0	0	1	0	0	0	8235	1203	42	4	672	4	KIAA1467	12	13214634	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	1927898	13214634	120637261	216	6765										
PTPRO	5800	broad.mit.edu	37	chr12	15742454	15742454	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cttgcagcacattcgggatcAtgagtttgttgacatcttag	10	8	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:15742454A>C	uc001rcv.1	+	25	3650	c.3476A>C	c.(3475-3477)CAT>CCT	p.H1159P	PTPRO_uc001rcw.1_Missense_Mutation_p.H1131P|PTPRO_uc001rcx.1_Missense_Mutation_p.H348P|PTPRO_uc001rcy.1_Missense_Mutation_p.H348P|PTPRO_uc001rcz.1_Missense_Mutation_p.H320P|PTPRO_uc001rda.1_Missense_Mutation_p.H320P	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	1159	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					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)				ATTCGGGATCATGAGTTTGTT	0.443													89	349	---	---	---	---	PASS	C	15742454	C	C	15742454	3	2	11	1	0	0	0	0	1	0	0	0	12809	217	8	5	3574	5	PTPRO	12	15742454	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	2527820	15742454	118109441	217	6766										
SLCO1B1	10599	broad.mit.edu	37	chr12	21327532	21327532	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aaatttgcttgtgattgtatTtgtgagttactttggatcca	9	4	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:21327532T>G	uc001req.3	+	4	352	c.248T>G	c.(247-249)TTT>TGT	p.F83C		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	83	Helical; Name=2; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	GTGATTGTATTTGTGAGTTAC	0.358													25	160	---	---	---	---	PASS	G	21327532	G	G	21327532	3	3	11	1	0	0	0	0	1	0	0	0	14723	1841	64	5	258	5	SLCO1B1	12	21327532	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	5585078	21327532	112524363	218	6767										
ITPR2	3709	broad.mit.edu	37	chr12	26628297	26628297	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	accatcatctccaccctcatCatccccatggtcacattcca	2	19	5	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:26628297C>G	uc001rhg.2	-	45	6691	c.6274G>C	c.(6274-6276)GAT>CAT	p.D2092H	ITPR2_uc009zjg.1_Missense_Mutation_p.D243H	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	2092	Cytoplasmic (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)					CCACCCTCATCATCCCCATGG	0.373													13	166	---	---	---	---	PASS	G	26628297	G	G	26628297	3	3	11	1	0	0	0	0	1	0	0	0	7921	826	29	2	1883	2	ITPR2	12	26628297	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	5300765	26628297	107223598	219	6768										
SLC2A13	114134	broad.mit.edu	37	chr12	40265601	40265601	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tctttatccagccacctaccTgctaaactaccaaaggtaag	5	13	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:40265601T>C	uc010skm.1	-	5	1248	c.1197A>G	c.(1195-1197)GCA>GCG	p.A399A	C12orf40_uc009zjv.1_Intron|SLC2A13_uc001rme.1_Silent_p.A46A	NM_052885	NP_443117	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose	399	Helical; Name=9; (Potential).					integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)				GCCACCTACCTGCTAAACTAC	0.373										HNSCC(50;0.14)			22	82	---	---	---	---	PASS	C	40265601	C	C	40265601	2	2	11	1	0	0	0	0	0	0	0	1	14542	1594	55	5		5	SLC2A13	12	40265601	Silent	SNP	T	TCGA-18-3417-01A-01D-1441-08	13637304	40265601	93586294	220	6769										
AQP6	363	broad.mit.edu	37	chr12	50368590	50368590	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cggccctgccatcatcattgGgaagttcacagtccactggg	11	13	3	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:50368590G>C	uc001rvr.1	+	3	960	c.623G>C	c.(622-624)GGG>GCG	p.G208A	AQP6_uc001rvp.1_Missense_Mutation_p.G34A|AQP6_uc001rvq.1_RNA	NM_001652	NP_001643	Q13520	AQP6_HUMAN	aquaporin 6	208	Extracellular (Potential).				excretion|odontogenesis	integral to plasma membrane|transport vesicle membrane	anion channel activity|water channel activity				0						ATCATCATTGGGAAGTTCACA	0.602											OREG0021809	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	38	---	---	---	---	PASS	C	50368590	C	C	50368590	3	2	11	1	0	0	0	0	1	0	0	0	830	1232	43	4	633	4	AQP6	12	50368590	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	10102989	50368590	83483305	221	6770										
KRT6B	3854	broad.mit.edu	37	chr12	52841594	52841594	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccctccagcagcttgcggtaGgtggcgatctccacatccag	11	15	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:52841594G>T	uc001sak.2	-	7	1440	c.1392C>A	c.(1390-1392)ACC>ACA	p.T464T		NM_005555	NP_005546	P04259	K2C6B_HUMAN	keratin 6B	464	Rod.|Coil 2.				ectoderm development	keratin filament	structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.083)		GCTTGCGGTAGGTGGCGATCT	0.597													72	111	---	---	---	---	PASS	T	52841594	T	T	52841594	2	4	11	1	0	0	0	0	0	0	0	1	8481	987	35	3		3	KRT6B	12	52841594	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	2473004	52841594	81010301	222	6771										
SP1	6667	broad.mit.edu	37	chr12	53804855	53804855	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tttgcccctggacagtggggCaggttcagaaggcagtggca	16	9	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:53804855C>A	uc001scw.2	+	6	2286	c.2189C>A	c.(2188-2190)GCA>GAA	p.A730E	SP1_uc010sog.1_Missense_Mutation_p.A723E	NM_138473	NP_612482	P08047	SP1_HUMAN	Sp1 transcription factor isoform a	730	Domain D.|VZV IE62-binding.				positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)		GACAGTGGGGCAGGTTCAGAA	0.557													4	203	---	---	---	---	PASS	A	53804855	A	A	53804855	3	1	11	1	0	0	0	0	1	0	0	0	14959	710	25	3	2211	3	SP1	12	53804855	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	963261	53804855	80047040	223	6772										
OR6C75	390323	broad.mit.edu	37	chr12	55759232	55759232	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggtgacagaattttaccttcTggctgccatgtcctatgacc	9	11	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:55759232T>C	uc010spk.1	+	1	338	c.338T>C	c.(337-339)CTG>CCG	p.L113P		NM_001005497	NP_001005497	A6NL08	O6C75_HUMAN	olfactory receptor, family 6, subfamily C,	113	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3						TTTTACCTTCTGGCTGCCATG	0.448													31	121	---	---	---	---	PASS	C	55759232	C	C	55759232	3	2	11	1	0	0	0	0	1	0	0	0	11199	1580	55	5	340	5	OR6C75	12	55759232	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	1954377	55759232	78092663	224	6773										
MDM1	56890	broad.mit.edu	37	chr12	68707531	68707531	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctgaggatacagaagaatctGacctataaattgaaacaatc	7	7	1	5			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:68707531G>C	uc001stz.2	-	10	1638	c.1502C>G	c.(1501-1503)TCA>TGA	p.S501*	MDM1_uc010stc.1_Nonsense_Mutation_p.S466*|MDM1_uc009zqv.1_Nonsense_Mutation_p.S221*	NM_017440	NP_059136	Q8TC05	MDM1_HUMAN	mouse Mdm1 nuclear protein homolog isoform 1	501						nucleus				ovary(3)|skin(2)	5			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000174)		AGAAGAATCTGACCTATAAAT	0.373													43	66	---	---	---	---	PASS	C	68707531	C	C	68707531	4	2	11	1	0	0	0	0	0	1	0	0	9412	1294	45	2	662	2	MDM1	12	68707531	Nonsense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	12948299	68707531	65144364	225	6774										
TRHDE	29953	broad.mit.edu	37	chr12	72956688	72956688	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agaagtaatggatcagtggaCactccagatgggttatcctg	12	7	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:72956688C>G	uc001sxa.2	+	9	1805	c.1775C>G	c.(1774-1776)ACA>AGA	p.T592R		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	592	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						GATCAGTGGACACTCCAGATG	0.313													94	130	---	---	---	---	PASS	G	72956688	G	G	72956688	3	3	11	1	0	0	0	0	1	0	0	0	16476	478	17	4	1809	4	TRHDE	12	72956688	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	4249157	72956688	60895207	226	6775										
ANKS1B	56899	broad.mit.edu	37	chr12	99898341	99898341	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gagatcacacagaaagttctCattttctgaaggaaatgtat	8	6	3	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:99898341C>G	uc001tge.1	-	10	1768	c.1351G>C	c.(1351-1353)GAG>CAG	p.E451Q	ANKS1B_uc001tgf.1_Missense_Mutation_p.E31Q|ANKS1B_uc009ztt.1_Missense_Mutation_p.E417Q	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	451						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		AGAAAGTTCTCATTTTCTGAA	0.373													32	30	---	---	---	---	PASS	G	99898341	G	G	99898341	3	3	11	1	0	0	0	0	1	0	0	0	689	835	29	2	2751	2	ANKS1B	12	99898341	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	26941653	99898341	33953554	227	6776										
GCN1L1	10985	broad.mit.edu	37	chr12	120622646	120622646	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cctatatcgatgcagagtcaAgcagaacaatttgcagagcc	9	10	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:120622646A>C	uc001txo.2	-	3	179	c.166T>G	c.(166-168)TTG>GTG	p.L56V		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	56					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGCAGAGTCAAGCAGAACAAT	0.423													8	140	---	---	---	---	PASS	C	120622646	C	C	120622646	3	2	11	1	0	0	0	0	1	0	0	0	6299	69	3	5	8073	5	GCN1L1	12	120622646	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	20724305	120622646	13229249	228	6777										
CHFR	55743	broad.mit.edu	37	chr12	133435727	133435727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	catcttgtctggcttcccagCcgctgctctgacgtcctcgt	9	16	3	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr12:133435727C>A	uc001ulf.2	-	8	958	c.874G>T	c.(874-876)GCT>TCT	p.A292S	CHFR_uc001ulc.1_RNA|CHFR_uc001ule.2_Missense_Mutation_p.A280S|CHFR_uc010tbs.1_Missense_Mutation_p.A292S|CHFR_uc001uld.2_Missense_Mutation_p.A251S|CHFR_uc010tbt.1_Missense_Mutation_p.A200S	NM_001161344	NP_001154816	Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains	292					cell division|mitosis|mitotic cell cycle checkpoint|modification-dependent protein catabolic process|protein polyubiquitination	PML body	nucleotide binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00552)|all_epithelial(31;0.226)		OV - Ovarian serous cystadenocarcinoma(86;2.59e-08)|Epithelial(86;6.38e-07)|all cancers(50;1.56e-05)		GGCTTCCCAGCCGCTGCTCTG	0.592													39	40	---	---	---	---	PASS	A	133435727	A	A	133435727	3	1	11	1	0	0	0	0	1	0	0	0	3337	739	26	3	1164	3	CHFR	12	133435727	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	12813081	133435727	416168	229	6778										
ATP8A2	51761	broad.mit.edu	37	chr13	26434350	26434350	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cagatactgtgttgacaagtGgtcatgctaccgactattta	9	8	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr13:26434350G>T	uc001uqk.2	+	31	3116	c.2974G>T	c.(2974-2976)GGT>TGT	p.G992C	ATP8A2_uc010tdi.1_Missense_Mutation_p.G927C|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.G542C	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	952	Extracellular (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		GTTGACAAGTGGTCATGCTAC	0.358													10	96	---	---	---	---	PASS	T	26434350	T	T	26434350	3	4	11	1	0	0	0	0	1	0	0	0	1193	1348	47	3	3096	3	ATP8A2	13	26434350	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08		26434350	88735528	230	6779										
FRY	10129	broad.mit.edu	37	chr13	32711022	32711022	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cctcaggccttgtaccccctGgtgacctgtttgctctgtgt	10	14	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr13:32711022G>T	uc001utx.2	+	11	1588	c.1092G>T	c.(1090-1092)CTG>CTT	p.L364L	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	364					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		TGTACCCCCTGGTGACCTGTT	0.458													15	100	---	---	---	---	PASS	T	32711022	T	T	32711022	2	4	11	1	0	0	0	0	0	0	0	1	6063	1335	47	3		3	FRY	13	32711022	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	6276672	32711022	82458856	231	6780										
PCDH20	64881	broad.mit.edu	37	chr13	61986903	61986903	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggagtgttaacgggttccagTtctttcagataaaccacacc	9	10	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr13:61986903T>C	uc001vid.3	-	2	1693	c.1329A>G	c.(1327-1329)GAA>GAG	p.E443E	PCDH20_uc010thj.1_Silent_p.E443E	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	416	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		CGGGTTCCAGTTCTTTCAGAT	0.423													8	99	---	---	---	---	PASS	C	61986903	C	C	61986903	2	2	11	1	0	0	0	0	0	0	0	1	11515	1722	60	5		5	PCDH20	13	61986903	Silent	SNP	T	TCGA-18-3417-01A-01D-1441-08	29275881	61986903	53182975	232	6781										
PCDH20	64881	broad.mit.edu	37	chr13	61986932	61986932	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ataaaccacaccatctatctCgtttgctatgtaacgaggga	7	10	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr13:61986932C>A	uc001vid.3	-	2	1664	c.1300G>T	c.(1300-1302)GAG>TAG	p.E434*	PCDH20_uc010thj.1_Nonsense_Mutation_p.E434*	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	407	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		CCATCTATCTCGTTTGCTATG	0.418													21	102	---	---	---	---	PASS	A	61986932	A	A	61986932	4	1	11	1	0	0	0	0	0	1	0	0	11515	893	31	2	1559	2	PCDH20	13	61986932	Nonsense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	29	61986932	53182946	233	6782										
TBC1D4	9882	broad.mit.edu	37	chr13	75936724	75936724	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctttagataattgccttatgCtgctaataacatcaggaacc	6	9	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr13:75936724C>T	uc001vjl.1	-	2	865	c.518G>A	c.(517-519)AGC>AAC	p.S173N	TBC1D4_uc010aer.2_Missense_Mutation_p.S173N|TBC1D4_uc010aes.2_Missense_Mutation_p.S173N	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	173	PID 1.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		TTGCCTTATGCTGCTAATAAC	0.393													4	293	---	---	---	---	PASS	T	75936724	T	T	75936724	3	4	11	1	0	0	0	0	1	0	0	0	15619	797	28	3	3458	3	TBC1D4	13	75936724	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	13949792	75936724	39233154	234	6783										
SLC10A2	6555	broad.mit.edu	37	chr13	103718330	103718330	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gcctggagcgggaggatgtcAaaggccaccgacaggatgaa	16	9	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr13:103718330A>G	uc001vpy.3	-	1	867	c.270T>C	c.(268-270)TTT>TTC	p.F90F		NM_000452	NP_000443	Q12908	NTCP2_HUMAN	solute carrier family 10 (sodium/bile acid	90	Helical; (Potential).				bile acid metabolic process|organic anion transport	integral to plasma membrane	bile acid:sodium symporter activity			ovary(3)|skin(1)	4	all_neural(89;0.0662)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					GGAGGATGTCAAAGGCCACCG	0.542													15	127	---	---	---	---	PASS	G	103718330	G	G	103718330	2	3	11	1	0	0	0	0	0	0	0	1	14374	127	5	5		5	SLC10A2	13	103718330	Silent	SNP	A	TCGA-18-3417-01A-01D-1441-08	27781606	103718330	11451548	235	6784										
COL4A1	1282	broad.mit.edu	37	chr13	110804799	110804799	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	acttctaaactcctccaggcAggagccgggggacgccaggg	14	13	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr13:110804799A>T	uc001vqw.3	-	51	4932	c.4810T>A	c.(4810-4812)TGC>AGC	p.C1604S	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1604	Collagen IV NC1.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			TCCTCCAGGCAGGAGCCGGGG	0.597													11	38	---	---	---	---	PASS	T	110804799	T	T	110804799	3	4	11	1	0	0	0	0	1	0	0	0	3689	188	7	5	207	5	COL4A1	13	110804799	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	7086469	110804799	4365079	236	6785										
OR4N2	390429	broad.mit.edu	37	chr14	20296181	20296181	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tcaagctggcctgcaccgacAcatttgtggtggagcttctg	12	11	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr14:20296181A>G	uc010tkv.1	+	1	574	c.574A>G	c.(574-576)ACA>GCA	p.T192A		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	192	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CTGCACCGACACATTTGTGGT	0.537													26	307	---	---	---	---	PASS	G	20296181	G	G	20296181	3	3	11	1	0	0	0	0	1	0	0	0	11077	159	6	5	576	5	OR4N2	14	20296181	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08		20296181	87053359	237	6786										
OR4K1	79544	broad.mit.edu	37	chr14	20404520	20404520	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccgatgcaggtcctccagtgGgtcatctaaggctctttcta	10	12	4	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr14:20404520G>T	uc001vwj.1	+	1	695	c.695G>T	c.(694-696)GGG>GTG	p.G232V		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		TCCTCCAGTGGGTCATCTAAG	0.433													30	210	---	---	---	---	PASS	T	20404520	T	T	20404520	3	4	11	1	0	0	0	0	1	0	0	0	11067	1232	43	3	697	3	OR4K1	14	20404520	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	108339	20404520	86945020	238	6787										
MYH7	4625	broad.mit.edu	37	chr14	23894206	23894206	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	acccccatgaaggcccgaatGttccactggattaccagcag	9	14	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr14:23894206G>A	uc001wjx.2	-	22	2557	c.2451C>T	c.(2449-2451)AAC>AAT	p.N817N		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	817					adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		AGGCCCGAATGTTCCACTGGA	0.542													34	107	---	---	---	---	PASS	A	23894206	A	A	23894206	2	1	11	1	0	0	0	0	0	0	0	1	10039	1368	48	3		3	MYH7	14	23894206	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	3489686	23894206	83455334	239	6788										
G2E3	55632	broad.mit.edu	37	chr14	31058674	31058674	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agatatcaggaaggaagtgaAtagagcttctaaactggtaa	11	4	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr14:31058674A>G	uc001wqk.2	+	4	375	c.221A>G	c.(220-222)AAT>AGT	p.N74S	G2E3_uc010tpe.1_Missense_Mutation_p.N28S|G2E3_uc010tpf.1_Missense_Mutation_p.N28S	NM_017769	NP_060239	Q7L622	G2E3_HUMAN	G2/M-phase specific E3 ubiquitin ligase	74					apoptosis|multicellular organismal development|protein modification process	Golgi apparatus|nucleolus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						AAGGAAGTGAATAGAGCTTCT	0.308													42	172	---	---	---	---	PASS	G	31058674	G	G	31058674	3	3	11	1	0	0	0	0	1	0	0	0	6140	101	4	5	231	5	G2E3	14	31058674	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	7164468	31058674	76290866	240	6789										
LRFN5	145581	broad.mit.edu	37	chr14	42360885	42360885	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gcccagtgttgtaaagctacCagtgacaatgtgattcaatc	9	9	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr14:42360885C>A	uc001wvm.2	+	4	3016	c.1818C>A	c.(1816-1818)ACC>ACA	p.T606T	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	606	Cytoplasmic (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		GTAAAGCTACCAGTGACAATG	0.493										HNSCC(30;0.082)			12	55	---	---	---	---	PASS	A	42360885	A	A	42360885	2	1	11	1	0	0	0	0	0	0	0	1	8941	581	21	3		3	LRFN5	14	42360885	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	11302211	42360885	64988655	241	6790										
FANCM	57697	broad.mit.edu	37	chr14	45636188	45636188	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cagtccaacaaaagaagtatAtataaagctatttcaagtaa	5	6	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr14:45636188A>G	uc001wwd.3	+	11	1923	c.1824A>G	c.(1822-1824)ATA>ATG	p.I608M	FANCM_uc001wwc.2_Missense_Mutation_p.I608M|FANCM_uc010anf.2_Missense_Mutation_p.I582M|FANCM_uc001wwe.3_Missense_Mutation_p.I144M	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	608	Helicase C-terminal.				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						AAAGAAGTATATATAAAGCTA	0.289								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				3	243	---	---	---	---	PASS	G	45636188	G	G	45636188	3	3	11	1	0	0	0	0	1	0	0	0	5671	439	16	5	1866	5	FANCM	14	45636188	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	3275303	45636188	61713352	242	6791										
ARID4A	5926	broad.mit.edu	37	chr14	58820393	58820393	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cagggaagaaactgaaagcaAatgtgactctgaaggagagg	14	5	1	5			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr14:58820393A>G	uc001xdp.2	+	17	1927	c.1673A>G	c.(1672-1674)AAA>AGA	p.K558R	ARID4A_uc001xdo.2_Missense_Mutation_p.K558R|ARID4A_uc001xdq.2_Missense_Mutation_p.K558R|ARID4A_uc010apg.1_Missense_Mutation_p.K236R	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	558					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						ACTGAAAGCAAATGTGACTCT	0.363													23	83	---	---	---	---	PASS	G	58820393	G	G	58820393	3	3	11	1	0	0	0	0	1	0	0	0	919	14	1	5	1735	5	ARID4A	14	58820393	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	13184205	58820393	48529147	243	6792										
KIAA0586	9786	broad.mit.edu	37	chr14	58915141	58915141	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agagcagtggaaaagtattcCgtaaaaccagaacaccctaa	8	9	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr14:58915141C>T	uc001xdv.3	+	7	1164	c.891C>T	c.(889-891)TCC>TCT	p.S297S	KIAA0586_uc010trr.1_Silent_p.S338S|KIAA0586_uc001xdt.3_Silent_p.S253S|KIAA0586_uc001xdu.3_Silent_p.S282S|KIAA0586_uc010trs.1_Silent_p.S212S|KIAA0586_uc010trt.1_Silent_p.S157S|KIAA0586_uc010tru.1_Silent_p.S157S	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	297										ovary(1)	1						AAAAGTATTCCGTAAAACCAG	0.353													37	96	---	---	---	---	PASS	T	58915141	T	T	58915141	2	4	11	1	0	0	0	0	0	0	0	1	8186	639	23	1		1	KIAA0586	14	58915141	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	94748	58915141	48434399	244	6793										
DDX24	57062	broad.mit.edu	37	chr14	94545633	94545633	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cctttatttttcttctttttTggagcagtttggaccaggtt	8	7	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr14:94545633T>A	uc001ycj.2	-	2	555	c.456A>T	c.(454-456)CCA>CCT	p.P152P	DDX24_uc010twq.1_Silent_p.P109P|DDX24_uc010twr.1_Intron|IFI27L1_uc001ycl.2_5'Flank|IFI27L1_uc001yck.2_5'Flank	NM_020414	NP_065147	Q9GZR7	DDX24_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 24	152					RNA metabolic process	cytoplasm|nucleolus|nucleolus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|skin(1)	4		all_cancers(154;0.12)		Epithelial(152;0.114)|all cancers(159;0.19)|COAD - Colon adenocarcinoma(157;0.207)		TCTTCTTTTTTGGAGCAGTTT	0.478													34	163	---	---	---	---	PASS	A	94545633	A	A	94545633	2	1	11	1	0	0	0	0	0	0	0	1	4351	1799	63	5		5	DDX24	14	94545633	Silent	SNP	T	TCGA-18-3417-01A-01D-1441-08	35630492	94545633	12803907	245	6794										
SERPINA4	5267	broad.mit.edu	37	chr14	95033443	95033443	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cttcatgacagatacttgccCtgctcggtgctacggatgga	11	11	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr14:95033443C>A	uc001ydk.2	+	3	852	c.786C>A	c.(784-786)CCC>CCA	p.P262P	SERPINA4_uc010avd.2_Silent_p.P299P|SERPINA4_uc001ydl.2_Silent_p.P262P	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	262					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		GATACTTGCCCTGCTCGGTGC	0.493													12	78	---	---	---	---	PASS	A	95033443	A	A	95033443	2	1	11	1	0	0	0	0	0	0	0	1	14091	668	24	3		3	SERPINA4	14	95033443	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	487810	95033443	12316097	246	6795										
OR4M2	390538	broad.mit.edu	37	chr15	22369097	22369097	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttctgtgggcccaatgagttAgacagttacttctgtgacat	10	8	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:22369097A>G	uc010tzu.1	+	1	522	c.522A>G	c.(520-522)TTA>TTG	p.L174L	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	174	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CCAATGAGTTAGACAGTTACT	0.502													31	486	---	---	---	---	PASS	G	22369097	G	G	22369097	2	3	11	1	0	0	0	0	0	0	0	1	11076	417	15	5		5	OR4M2	15	22369097	Silent	SNP	A	TCGA-18-3417-01A-01D-1441-08		22369097	80162295	247	6796										
TUBGCP5	114791	broad.mit.edu	37	chr15	22868847	22868847	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctttctcttccaagattctaCacagtacagggctggagttt	8	10	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:22868847C>T	uc001yur.3	+	20	2849	c.2719C>T	c.(2719-2721)CAC>TAC	p.H907Y	TUBGCP5_uc001yuq.2_Missense_Mutation_p.H907Y	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	907					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		CAAGATTCTACACAGTACAGG	0.403													31	74	---	---	---	---	PASS	T	22868847	T	T	22868847	3	4	11	1	0	0	0	0	1	0	0	0	16766	478	17	3	2797	3	TUBGCP5	15	22868847	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	499750	22868847	79662545	248	6797										
RYR3	6263	broad.mit.edu	37	chr15	34032171	34032171	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tggatgcggatggcaactttGacccaaaacctattaacacc	8	11	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:34032171G>A	uc001zhi.2	+	51	7865	c.7795G>A	c.(7795-7797)GAC>AAC	p.D2599N	RYR3_uc010bar.2_Missense_Mutation_p.D2599N	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2599	3.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGGCAACTTTGACCCAAAACC	0.458													14	27	---	---	---	---	PASS	A	34032171	A	A	34032171	3	1	11	1	0	0	0	0	1	0	0	0	13770	1290	45	2	7997	2	RYR3	15	34032171	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	11163324	34032171	68499221	249	6798										
ACTC1	70	broad.mit.edu	37	chr15	35083437	35083437	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	atacaggtccttgcggatatCaatgtcacacttcatgatgc	8	10	3	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:35083437C>A	uc001ziu.1	-	6	1111	c.868G>T	c.(868-870)GAT>TAT	p.D290Y	uc001zit.1_Intron	NM_005159	NP_005150	P68032	ACTC_HUMAN	cardiac muscle alpha actin 1 proprotein	290					apoptosis|cardiac muscle tissue morphogenesis|cardiac myofibril assembly|muscle filament sliding|skeletal muscle thin filament assembly	actomyosin, actin part|cytosol|I band	ATP binding|ATPase activity|myosin binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(180;2.3e-08)		all cancers(64;5.83e-19)|GBM - Glioblastoma multiforme(113;1.98e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		TTGCGGATATCAATGTCACAC	0.393													34	276	---	---	---	---	PASS	A	35083437	A	A	35083437	3	1	11	1	0	0	0	0	1	0	0	0	195	826	29	2	273	2	ACTC1	15	35083437	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1051266	35083437	67447955	250	6799										
TUBGCP4	27229	broad.mit.edu	37	chr15	43690255	43690255	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gcagatgctactcaggcaagAgaagggccttctcgggaaac	13	10	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:43690255A>G	uc001zro.2	+	13	1539	c.1299A>G	c.(1297-1299)AGA>AGG	p.R433R	TUBGCP4_uc001zrn.2_Silent_p.R432R|TUBGCP4_uc010bdh.2_RNA	NM_014444	NP_055259	Q9UGJ1	GCP4_HUMAN	tubulin, gamma complex associated protein 4	433					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	structural constituent of cytoskeleton			ovary(3)	3		all_cancers(109;1.27e-10)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.72e-06)|all_lung(180;1.59e-05)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;3.53e-07)		CTCAGGCAAGAGAAGGGCCTT	0.443													87	142	---	---	---	---	PASS	G	43690255	G	G	43690255	2	3	11	1	0	0	0	0	0	0	0	1	16765	301	11	5		5	TUBGCP4	15	43690255	Silent	SNP	A	TCGA-18-3417-01A-01D-1441-08	8606818	43690255	58841137	251	6800										
STRC	161497	broad.mit.edu	37	chr15	43896852	43896852	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tctcgaaggtccatacccaaGaacagactcctgcaatagca	7	13	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:43896852G>C	uc001zsf.2	-	20	4201	c.4123C>G	c.(4123-4125)CTT>GTT	p.L1375V	STRC_uc010bdl.2_Missense_Mutation_p.L602V|STRC_uc001zse.2_5'UTR	NM_153700	NP_714544	Q7RTU9	STRC_HUMAN	stereocilin precursor	1375					sensory perception of sound	cell surface					0		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		CCATACCCAAGAACAGACTCC	0.507													4	108	---	---	---	---	PASS	C	43896852	C	C	43896852	3	2	11	1	0	0	0	0	1	0	0	0	15327	942	33	2	1244	2	STRC	15	43896852	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	206597	43896852	58634540	252	6801										
THSD4	79875	broad.mit.edu	37	chr15	72020962	72020962	+	Nonsense_Mutation	SNP	G	T	T													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gaccaggaaaatacgagggcGgagggaccatgttcacctac							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:72020962G>T	uc002atb.1	+	8	1511	c.1432G>T	c.(1432-1434)GGA>TGA	p.G478*	THSD4_uc002atd.1_Nonsense_Mutation_p.G152*|THSD4_uc010ukg.1_Nonsense_Mutation_p.G118*|THSD4_uc002ate.2_Nonsense_Mutation_p.G118*	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	478						proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						ATACGAGGGCGGAGGGACCAT	0.502													29	223	---	---	---	---	PASS	T	72020962	T	T	72020962	4	4	11	1	0	0	0	0	0	1	0	0	15875	1117	39	1	1462	1	THSD4	15	72020962	Nonsense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	28124110	72020962	30510430	253	6802	225	2								
THSD4	79875	broad.mit.edu	37	chr15	72020963	72020963	+	Missense_Mutation	SNP	G	A	A													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	accaggaaaatacgagggcgGagggaccatgttcacctaca							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:72020963G>A	uc002atb.1	+	8	1512	c.1433G>A	c.(1432-1434)GGA>GAA	p.G478E	THSD4_uc002atd.1_Missense_Mutation_p.G152E|THSD4_uc010ukg.1_Missense_Mutation_p.G118E|THSD4_uc002ate.2_Missense_Mutation_p.G118E	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	478						proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						TACGAGGGCGGAGGGACCATG	0.507													31	222	---	---	---	---	PASS	A	72020963	A	A	72020963	3	1	11	1	0	0	0	0	1	0	0	0	15875	1174	41	2	1463	2	THSD4	15	72020963	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	1	72020963	30510429	254	6803	225	2								
CSK	1445	broad.mit.edu	37	chr15	75091700	75091700	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttcctggtgcgggagagcacCaactaccccggagactacac	11	14	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:75091700C>T	uc010bkb.1	+	6	513	c.330C>T	c.(328-330)ACC>ACT	p.T110T	CSK_uc002ays.2_Silent_p.T110T|CSK_uc010bkc.1_5'UTR	NM_001127190	NP_001120662	P41240	CSK_HUMAN	c-src tyrosine kinase	110	SH2.				blood coagulation|epidermal growth factor receptor signaling pathway|T cell costimulation|T cell receptor signaling pathway	centrosome|cytosol|Golgi apparatus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein C-terminus binding			lung(2)|central_nervous_system(1)	3						GGGAGAGCACCAACTACCCCG	0.627													15	65	---	---	---	---	PASS	T	75091700	T	T	75091700	2	4	11	1	0	0	0	0	0	0	0	1	3943	581	21	3		3	CSK	15	75091700	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	3070737	75091700	27439692	255	6804										
ACAN	176	broad.mit.edu	37	chr15	89400049	89400049	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cctggagtagaggagatcagCgggcttccttctggagaagt	15	8	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:89400049C>A	uc010upo.1	+	12	4607	c.4233C>A	c.(4231-4233)AGC>AGA	p.S1411R	ACAN_uc010upp.1_Missense_Mutation_p.S1411R|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	1411					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			AGGAGATCAGCGGGCTTCCTT	0.537													50	112	---	---	---	---	PASS	A	89400049	A	A	89400049	3	1	11	1	0	0	0	0	1	0	0	0	117	767	27	1	4275	1	ACAN	15	89400049	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	14308349	89400049	13131343	256	6805										
ANPEP	290	broad.mit.edu	37	chr15	90334210	90334210	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aaaagcttcttccagttgctCtggacaaagtcccagaccag	8	12	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:90334210C>A	uc002bop.3	-	19	2935	c.2643G>T	c.(2641-2643)CAG>CAT	p.Q881H		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	881	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	TCCAGTTGCTCTGGACAAAGT	0.582													41	80	---	---	---	---	PASS	A	90334210	A	A	90334210	3	1	11	1	0	0	0	0	1	0	0	0	710	912	32	2	272	2	ANPEP	15	90334210	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	934161	90334210	12197182	257	6806										
RGMA	56963	broad.mit.edu	37	chr15	93588839	93588839	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gtgcttgtccccaccgttctTagagccatccacgaaggcgg	11	14	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:93588839T>A	uc002bss.1	-	4	1014	c.742A>T	c.(742-744)AAG>TAG	p.K248*	RGMA_uc002bsq.1_Nonsense_Mutation_p.K232*|RGMA_uc010boi.1_Nonsense_Mutation_p.K139*|RGMA_uc002bsr.1_Nonsense_Mutation_p.K139*|RGMA_uc010urc.1_Nonsense_Mutation_p.K256*	NM_020211	NP_064596	Q96B86	RGMA_HUMAN	RGM domain family, member A precursor	248					axon guidance	anchored to membrane|endoplasmic reticulum|plasma membrane					0	Lung NSC(78;0.0542)|all_lung(78;0.0786)		BRCA - Breast invasive adenocarcinoma(143;0.0312)|OV - Ovarian serous cystadenocarcinoma(32;0.108)			CCACCGTTCTTAGAGCCATCC	0.582													6	96	---	---	---	---	PASS	A	93588839	A	A	93588839	4	1	11	1	0	0	0	0	0	1	0	0	13280	1763	61	5	614	5	RGMA	15	93588839	Nonsense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	3254629	93588839	8942553	258	6807										
ARRDC4	91947	broad.mit.edu	37	chr15	98509152	98509152	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gtcacctcgtttactgggaaAtatggaagcattcagtactg	10	8	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:98509152A>T	uc010bom.2	+	3	561	c.402A>T	c.(400-402)AAA>AAT	p.K134N	ARRDC4_uc002bui.3_Missense_Mutation_p.K47N	NM_183376	NP_899232	Q8NCT1	ARRD4_HUMAN	arrestin domain containing 4	134					signal transduction						0	Melanoma(26;0.00539)|Lung NSC(78;0.0125)|all_lung(78;0.0222)		OV - Ovarian serous cystadenocarcinoma(32;0.0417)			TTACTGGGAAATATGGAAGCA	0.418													11	173	---	---	---	---	PASS	T	98509152	T	T	98509152	3	4	11	1	0	0	0	0	1	0	0	0	985	98	4	5	412	5	ARRDC4	15	98509152	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	4920313	98509152	4022240	259	6808										
FAM169B	283777	broad.mit.edu	37	chr15	98984300	98984300	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gtgatatagtatcaccatacCttgctgccgtctccaggggc	10	12	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr15:98984300C>T	uc002buk.1	-	6	709	c.459G>A	c.(457-459)AAG>AAA	p.K153K		NM_182562	NP_872368	Q8N8A8	F169B_HUMAN	hypothetical protein LOC283777	153											0						ATCACCATACCTTGCTGCCGT	0.557													21	48	---	---	---	---	PASS	T	98984300	T	T	98984300	2	4	11	1	0	0	0	0	0	0	0	1	5488	695	24	3		3	FAM169B	15	98984300	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	475148	98984300	3547092	260	6809										
IFT140	9742	broad.mit.edu	37	chr16	1652378	1652378	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgtgttgactcaccctgtccCcagacagcaggcagtttcca	9	15	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:1652378C>A	uc002cmb.2	-	4	724	c.362G>T	c.(361-363)GGG>GTG	p.G121V		NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	121	WD 3.									ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				CACCCTGTCCCCAGACAGCAG	0.542													12	52	---	---	---	---	PASS	A	1652378	A	A	1652378	3	1	11	1	0	0	0	0	1	0	0	0	7556	623	22	3	4138	3	IFT140	16	1652378	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08		1652378	88702375	261	6810										
PKD1	5310	broad.mit.edu	37	chr16	2153483	2153483	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccgctcgatggggatctgggCgccggcctgtgtctggaatg	17	11	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:2153483C>A	uc002cos.1	-	23	8784	c.8575G>T	c.(8575-8577)GCC>TCC	p.A2859S	PKD1_uc002cot.1_Missense_Mutation_p.A2859S|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2859	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GGGATCTGGGCGCCGGCCTGT	0.627													4	69	---	---	---	---	PASS	A	2153483	A	A	2153483	3	1	11	1	0	0	0	0	1	0	0	0	11963	768	27	1	4432	1	PKD1	16	2153483	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	501105	2153483	88201270	262	6811										
RAB26	25837	broad.mit.edu	37	chr16	2202841	2202841	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gcctggctgaccgagatccaCgagtacgcccagcacgacgt	12	15	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:2202841C>A	uc002cou.2	+	6	623	c.489C>A	c.(487-489)CAC>CAA	p.H163Q	RAB26_uc010bsf.2_Missense_Mutation_p.H97Q|TRAF7_uc002cow.2_5'Flank	NM_014353	NP_055168	Q9ULW5	RAB26_HUMAN	RAB26, member RAS oncogene family	163					exocrine system development|protein transport|regulation of exocytosis|small GTPase mediated signal transduction	intrinsic to plasma membrane	GTP binding|protein binding				0						CCGAGATCCACGAGTACGCCC	0.682													4	21	---	---	---	---	PASS	A	2202841	A	A	2202841	3	1	11	1	0	0	0	0	1	0	0	0	12913	535	19	1	511	1	RAB26	16	2202841	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	49358	2202841	88151912	263	6812										
ABCA3	21	broad.mit.edu	37	chr16	2347370	2347370	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agcgaggacccgcagcactgCagctcccccttggccatgat	11	16	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:2347370C>A	uc002cpy.1	-	17	2935	c.2223G>T	c.(2221-2223)CTG>CTT	p.L741L	ABCA3_uc010bsk.1_Silent_p.L683L|ABCA3_uc010bsl.1_Silent_p.L741L	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	741	ABC transporter 1.				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				CGCAGCACTGCAGCTCCCCCT	0.642													29	58	---	---	---	---	PASS	A	2347370	A	A	2347370	2	1	11	1	0	0	0	0	0	0	0	1	33	697	25	3		3	ABCA3	16	2347370	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	144529	2347370	88007383	264	6813										
ABAT	18	broad.mit.edu	37	chr16	8862807	8862807	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttgtgaaagagaaccaacagGaggaggcccgctgtctggaa	14	8	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:8862807G>T	uc002czc.3	+	11	959	c.793G>T	c.(793-795)GAG>TAG	p.E265*	ABAT_uc002czd.3_Nonsense_Mutation_p.E265*|ABAT_uc010buh.2_Nonsense_Mutation_p.E207*|ABAT_uc010bui.2_Nonsense_Mutation_p.E265*	NM_020686	NP_065737	P80404	GABT_HUMAN	4-aminobutyrate aminotransferase precursor	265					behavioral response to cocaine|gamma-aminobutyric acid catabolic process|neurotransmitter catabolic process|neurotransmitter secretion	4-aminobutyrate transaminase complex|mitochondrial matrix	(S)-3-amino-2-methylpropionate transaminase activity|4-aminobutyrate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|succinate-semialdehyde dehydrogenase binding			upper_aerodigestive_tract(1)	1					Divalproex sodium(DB00510)|Isoniazid(DB00951)|L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)|Tiagabine(DB00906)|Valproic Acid(DB00313)|Vigabatrin(DB01080)	GAACCAACAGGAGGAGGCCCG	0.557													36	195	---	---	---	---	PASS	T	8862807	T	T	8862807	4	4	11	1	0	0	0	0	0	1	0	0	27	1175	41	2	831	2	ABAT	16	8862807	Nonsense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	6515437	8862807	81491946	265	6814										
GDE1	51573	broad.mit.edu	37	chr16	19519024	19519024	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gttaccttgtagataacttcTggcaagaaagaacagaccac	8	9	1	4			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:19519024T>C	uc002dgh.2	-	4	785	c.621A>G	c.(619-621)CCA>CCG	p.P207P	GDE1_uc002dgi.2_Silent_p.P97P	NM_016641	NP_057725	Q9NZC3	GDE1_HUMAN	glycerophosphodiester phosphodiesterase 1	207	Lumenal (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	cytoplasm|integral to membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol glycerophosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3						AGATAACTTCTGGCAAGAAAG	0.368													44	138	---	---	---	---	PASS	C	19519024	C	C	19519024	2	2	11	1	0	0	0	0	0	0	0	1	6310	1567	55	5		5	GDE1	16	19519024	Silent	SNP	T	TCGA-18-3417-01A-01D-1441-08	10656217	19519024	70835729	266	6815										
C16orf62	57020	broad.mit.edu	37	chr16	19580760	19580760	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tcacaggtcacagagtcaaaGacaaagaaagtgaaccggaa	10	8	3	4			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:19580760G>C	uc002dgn.1	+	3	144	c.132G>C	c.(130-132)AAG>AAC	p.K44N	C16orf62_uc002dgo.1_Missense_Mutation_p.K44N|C16orf62_uc010vas.1_5'UTR|C16orf62_uc002dgm.1_Missense_Mutation_p.K44N	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	44						integral to membrane				ovary(1)	1						CAGAGTCAAAGACAAAGAAAG	0.532													16	48	---	---	---	---	PASS	C	19580760	C	C	19580760	3	2	11	1	0	0	0	0	1	0	0	0	1825	933	33	2	142	2	C16orf62	16	19580760	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	61736	19580760	70773993	267	6816										
CD19	930	broad.mit.edu	37	chr16	28948961	28948961	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	acagctgagtcttatgagaaCgaggatgaagagctgaccca	12	8	1	5			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:28948961C>T	uc002drs.2	+	11	1451	c.1389C>T	c.(1387-1389)AAC>AAT	p.N463N	uc010vct.1_Intron|CD19_uc010byo.1_Silent_p.N463N	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	463	Cytoplasmic (Potential).				cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						CTTATGAGAACGAGGATGAAG	0.587													16	94	---	---	---	---	PASS	T	28948961	T	T	28948961	2	4	11	1	0	0	0	0	0	0	0	1	2973	535	19	1		1	CD19	16	28948961	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	9368201	28948961	61405792	268	6817										
SRCAP	10847	broad.mit.edu	37	chr16	30732749	30732749	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cagtgccagctccgactcctGcaccacagcgcctcattcta	7	18	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:30732749G>A	uc002dze.1	+	21	3878	c.3493G>A	c.(3493-3495)GCA>ACA	p.A1165T	SRCAP_uc002dzf.2_Intron|SRCAP_uc002dzg.1_Missense_Mutation_p.A1022T|SRCAP_uc010bzz.1_Missense_Mutation_p.A735T	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1165	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			TCCGACTCCTGCACCACAGCG	0.602													20	95	---	---	---	---	PASS	A	30732749	A	A	30732749	3	1	11	1	0	0	0	0	1	0	0	0	15134	1319	46	3	3567	3	SRCAP	16	30732749	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	1783788	30732749	59622004	269	6818										
SETD1A	9739	broad.mit.edu	37	chr16	30980721	30980721	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gcaagacccagggcaagcacCgcaagtcctttgctctggac	11	14	1	1	rs150435865		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:30980721C>T	uc002ead.1	+	11	3552	c.2866C>T	c.(2866-2868)CGC>TGC	p.R956C		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	956	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						GGGCAAGCACCGCAAGTCCTT	0.662													13	33	---	---	---	---	PASS	T	30980721	T	T	30980721	3	4	11	1	0	0	0	0	1	0	0	0	14130	652	23	1	2904	1	SETD1A	16	30980721	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	247972	30980721	59374032	270	6819										
MYST1	84148	broad.mit.edu	37	chr16	31131695	31131695	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	acgagtgggtagacaagaacCggctggcgctgaccaagaca	14	10	0	4			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:31131695C>T	uc002eay.2	+	3	340	c.322C>T	c.(322-324)CGG>TGG	p.R108W	MYST1_uc002eax.2_Missense_Mutation_p.R108W	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	108	Chromo.				histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						AGACAAGAACCGGCTGGCGCT	0.577													26	84	---	---	---	---	PASS	T	31131695	T	T	31131695	3	4	11	1	0	0	0	0	1	0	0	0	10102	643	23	1	332	1	MYST1	16	31131695	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	150974	31131695	59223058	271	6820										
N4BP1	9683	broad.mit.edu	37	chr16	48596134	48596134	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aggttctctttattttcaaaGagctttacaaattgttgaat	6	5	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:48596134G>A	uc002efp.2	-	2	657	c.420C>T	c.(418-420)CTC>CTT	p.L140L		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	140					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				TATTTTCAAAGAGCTTTACAA	0.433													27	115	---	---	---	---	PASS	A	48596134	A	A	48596134	2	1	11	1	0	0	0	0	0	0	0	1	10109	929	33	2		2	N4BP1	16	48596134	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	17464439	48596134	41758619	272	6821										
BCAR1	9564	broad.mit.edu	37	chr16	75263896	75263896	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctatgggccgtgacacctccTgttccagtcgttcaaactgc	9	14	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr16:75263896T>A	uc002fdv.2	-	7	2249	c.2126A>T	c.(2125-2127)CAG>CTG	p.Q709L	BCAR1_uc002fdt.2_Missense_Mutation_p.Q162L|BCAR1_uc002fdu.2_Missense_Mutation_p.Q499L|BCAR1_uc010cgu.2_Missense_Mutation_p.Q698L|BCAR1_uc010vna.1_Missense_Mutation_p.Q707L|BCAR1_uc010vnb.1_Missense_Mutation_p.Q755L|BCAR1_uc002fdw.2_Missense_Mutation_p.Q709L|BCAR1_uc010vnc.1_Missense_Mutation_p.Q561L|BCAR1_uc010vnd.1_Missense_Mutation_p.Q727L|BCAR1_uc002fdx.2_Missense_Mutation_p.Q727L	NM_014567	NP_055382	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	709					actin filament organization|B cell receptor signaling pathway|blood coagulation|cell adhesion|cell division|cell migration|cell proliferation|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|integrin-mediated signaling pathway|nerve growth factor receptor signaling pathway|platelet-derived growth factor receptor signaling pathway|positive regulation of cell migration|regulation of apoptosis|regulation of cell growth|T cell receptor signaling pathway	cytosol|focal adhesion|membrane fraction|ruffle	protein kinase binding|protein phosphatase binding|SH3 domain binding|signal transducer activity			central_nervous_system(5)|breast(2)|prostate(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.169)		TGACACCTCCTGTTCCAGTCG	0.672													57	52	---	---	---	---	PASS	A	75263896	A	A	75263896	3	1	11	1	0	0	0	0	1	0	0	0	1348	1580	55	5	490	5	BCAR1	16	75263896	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	26667762	75263896	15090857	273	6822										
TMEM102	284114	broad.mit.edu	37	chr17	7339208	7339208	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgcatggcttccgcagtctgGgggagtgccccctggtgggg	18	12	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr17:7339208G>T	uc002ggx.1	+	2	291	c.18G>T	c.(16-18)TGG>TGT	p.W6C	FGF11_uc010vtw.1_Intron|TMEM102_uc002ggy.1_Missense_Mutation_p.W6C	NM_178518	NP_848613	Q8N9M5	TM102_HUMAN	transmembrane protein 102	6	Extracellular (Potential).				regulation of apoptosis|response to cytokine stimulus|signal transduction	cell surface|integral to membrane|intracellular	protein binding				0		Prostate(122;0.173)				CCGCAGTCTGGGGGAGTGCCC	0.557													12	52	---	---	---	---	PASS	T	7339208	T	T	7339208	3	4	11	1	0	0	0	0	1	0	0	0	16014	1241	43	3	20	3	TMEM102	17	7339208	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08		7339208	73856002	274	6823										
TP53	7157	broad.mit.edu	37	chr17	7579312	7579312	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agcccctcagggcaactgacCgtgcaagtcacagacttggc	11	14	2	2	rs55863639		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr17:7579312C>A	uc002gim.2	-	4	569	c.375G>T	c.(373-375)ACG>ACT	p.T125T	TP53_uc002gig.1_Silent_p.T125T|TP53_uc002gih.2_Silent_p.T125T|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Silent_p.T125T|TP53_uc010cni.1_Silent_p.T125T|TP53_uc002gij.2_Silent_p.T125T|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Silent_p.T86T|TP53_uc010cnk.1_Silent_p.T140T	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	125	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		T -> A (in a sporadic cancer; somatic mutation).|T -> M (in sporadic cancers; somatic mutation).|T -> R (in sporadic cancers; somatic mutation).|T -> P (in a sporadic cancer; somatic mutation).|T -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.T125T(15)|p.0?(7)|p.T125M(7)|p.T125K(3)|p.T125R(3)|p.?(2)|p.V73fs*9(1)|p.T125P(1)|p.G105_T125del21(1)|p.Y126fs*11(1)|p.T125fs*45(1)|p.T125fs*24(1)|p.T125A(1)|p.P13fs*18(1)|p.T125_Y126insX(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)		GGCAACTGACCGTGCAAGTCA	0.537		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)			46	77	---	---	---	---	PASS	A	7579312	A	A	7579312	2	1	11	1	0	0	0	0	0	0	0	1	16378	666	23	1		1	TP53	17	7579312	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	240104	7579312	73615898	275	6824										
TMEM132E	124842	broad.mit.edu	37	chr17	32956213	32956213	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggatgtgcaagccatcctgcCcctggccatggtgagcaggc	14	13	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr17:32956213C>T	uc002hif.2	+	5	1386	c.1058C>T	c.(1057-1059)CCC>CTC	p.P353L		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	353	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		GCCATCCTGCCCCTGGCCATG	0.577													10	30	---	---	---	---	PASS	T	32956213	T	T	32956213	3	4	11	1	0	0	0	0	1	0	0	0	16045	623	22	3	1076	3	TMEM132E	17	32956213	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	25376901	32956213	48238997	276	6825										
KCNH6	81033	broad.mit.edu	37	chr17	61621687	61621687	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aggaaatgcccccaaggcacAgcccccaaagccctcaggaa	9	16	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr17:61621687A>T	uc002jay.2	+	12	2499	c.2419A>T	c.(2419-2421)AGC>TGC	p.S807C	KCNH6_uc010wpl.1_Missense_Mutation_p.S648C|KCNH6_uc010wpm.1_Missense_Mutation_p.S771C|KCNH6_uc002jaz.1_Missense_Mutation_p.S718C	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	807	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	CCCAAGGCACAGCCCCCAAAG	0.607													34	44	---	---	---	---	PASS	T	61621687	T	T	61621687	3	4	11	1	0	0	0	0	1	0	0	0	8036	188	7	5	2465	5	KCNH6	17	61621687	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	28665474	61621687	19573523	277	6826										
GH2	2689	broad.mit.edu	37	chr17	61958285	61958285	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agcagcagggagatgcggagCagctctaggttctgcagggg	18	8	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr17:61958285C>A	uc002jco.1	-	4	365	c.303G>T	c.(301-303)CTG>CTT	p.L101L	GH2_uc002jcj.2_Silent_p.L101L|CSH2_uc002jck.2_Intron|GH2_uc002jcl.1_Silent_p.L101L|GH2_uc002jcm.1_Silent_p.L101L|GH2_uc002jcn.1_Silent_p.L86L	NM_002059	NP_002050	P01242	SOM2_HUMAN	growth hormone 2 isoform 1	101						extracellular region	hormone activity			upper_aerodigestive_tract(2)|pancreas(1)	3						AGATGCGGAGCAGCTCTAGGT	0.647													47	59	---	---	---	---	PASS	A	61958285	A	A	61958285	2	1	11	1	0	0	0	0	0	0	0	1	6368	697	25	3		3	GH2	17	61958285	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	336598	61958285	19236925	278	6827										
PRKAR1A	5573	broad.mit.edu	37	chr17	66519945	66519945	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gctgttttcacatcttgatgAtaatgagagaaggtaggaac	11	5	2	4			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr17:66519945A>T	uc002jhg.2	+	4	608	c.428A>T	c.(427-429)GAT>GTT	p.D143V	PRKAR1A_uc002jhh.2_Missense_Mutation_p.D143V|PRKAR1A_uc002jhi.2_Missense_Mutation_p.D143V|PRKAR1A_uc002jhj.2_Missense_Mutation_p.D143V|PRKAR1A_uc002jhk.2_Missense_Mutation_p.D19V|PRKAR1A_uc002jhl.2_Missense_Mutation_p.D143V|PRKAR1A_uc002jhm.2_Missense_Mutation_p.D143V	NM_212471	NP_997636	P10644	KAP0_HUMAN	cAMP-dependent protein kinase, regulatory	143	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity|protein binding			adrenal_gland(4)|lung(3)|thyroid(2)|soft_tissue(2)|breast(1)	12	Breast(10;1.64e-13)					CATCTTGATGATAATGAGAGA	0.373			T|Mis|N|F|S	RET	papillary thyroid	myxoma|endocrine|papillary thyroid			Carney_Complex|Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial|Cardiac_Myxomas_Familial_Clustering_of				37	98	---	---	---	---	PASS	T	66519945	T	T	66519945	3	4	11	1	0	0	0	0	1	0	0	0	12503	333	12	5	438	5	PRKAR1A	17	66519945	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	4561660	66519945	14675265	279	6828										
EPB41L3	23136	broad.mit.edu	37	chr18	5419732	5419732	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttccctcgtgccggatggccGagatgggcgtgacttcttcc	13	13	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr18:5419732G>A	uc002kmt.1	-	12	1570	c.1484C>T	c.(1483-1485)TCG>TTG	p.S495L	EPB41L3_uc010wzh.1_Missense_Mutation_p.S513L|EPB41L3_uc002kmu.1_Missense_Mutation_p.S513L|EPB41L3_uc010dkq.1_Missense_Mutation_p.S404L|EPB41L3_uc002kms.1_5'UTR|EPB41L3_uc010wze.1_5'UTR|EPB41L3_uc010wzf.1_5'UTR|EPB41L3_uc010wzg.1_5'UTR|EPB41L3_uc010dkr.2_Missense_Mutation_p.S74L	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	495	Hydrophilic.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						CCGGATGGCCGAGATGGGCGT	0.363													30	103	---	---	---	---	PASS	A	5419732	A	A	5419732	3	1	11	1	0	0	0	0	1	0	0	0	5154	1059	37	2	1823	2	EPB41L3	18	5419732	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08		5419732	72657516	280	6829										
DCC	1630	broad.mit.edu	37	chr18	50278670	50278670	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	acaccacaagccagatgaggGactttaccaatgtgaggcat	10	10	0	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr18:50278670G>T	uc002lfe.1	+	2	925	c.338G>T	c.(337-339)GGA>GTA	p.G113V	DCC_uc010xdr.1_5'UTR	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	113	Extracellular (Potential).|Ig-like C2-type 1.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		CCAGATGAGGGACTTTACCAA	0.413													22	86	---	---	---	---	PASS	T	50278670	T	T	50278670	3	4	11	1	0	0	0	0	1	0	0	0	4282	1174	41	2	344	2	DCC	18	50278670	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	44858938	50278670	27798578	281	6830										
NARS	4677	broad.mit.edu	37	chr18	55276599	55276599	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	atccactcacctgcttgcccTttggggtaagatttagcatt	8	11	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr18:55276599T>G	uc002lgs.2	-	7	797	c.569A>C	c.(568-570)AAG>ACG	p.K190T	NARS_uc002lgt.2_Missense_Mutation_p.K189T|NARS_uc010xea.1_Intron|NARS_uc010xeb.1_RNA|NARS_uc010xec.1_Missense_Mutation_p.K190T|NARS_uc010xed.1_Missense_Mutation_p.K157T	NM_004539	NP_004530	O43776	SYNC_HUMAN	asparaginyl-tRNA synthetase	190					asparaginyl-tRNA aminoacylation	cytosol|soluble fraction	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding				0		Colorectal(73;0.227)			L-Asparagine(DB00174)	CTGCTTGCCCTTTGGGGTAAG	0.398													24	152	---	---	---	---	PASS	G	55276599	G	G	55276599	3	3	11	1	0	0	0	0	1	0	0	0	10170	1609	56	5	1109	5	NARS	18	55276599	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	4997929	55276599	22800649	282	6831										
CDH7	1005	broad.mit.edu	37	chr18	63547658	63547658	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gttgatcctccttatcgtcaCtatgagaagacggaaaaaag	9	8	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr18:63547658C>T	uc002ljz.2	+	12	2211	c.1886C>T	c.(1885-1887)ACT>ATT	p.T629I	CDH7_uc002lkb.2_Missense_Mutation_p.T629I	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	629	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				CTTATCGTCACTATGAGAAGA	0.443													6	86	---	---	---	---	PASS	T	63547658	T	T	63547658	3	4	11	1	0	0	0	0	1	0	0	0	3115	565	20	3	1928	3	CDH7	18	63547658	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	8271059	63547658	14529590	283	6832										
OR4F17	81099	broad.mit.edu	37	chr19	110698	110698	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tatggtgactgaattcatttTtctgggtctctctgattctc	8	8	5	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:110698T>C	uc002loc.1	+	1	20	c.20T>C	c.(19-21)TTT>TCT	p.F7S	OR4F17_uc002lob.1_Missense_Mutation_p.F7S	NM_001005240	NP_001005240	Q8NGA8	O4F17_HUMAN	olfactory receptor, family 4, subfamily F,	7	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		all_cancers(10;1.05e-30)|all_epithelial(18;3.04e-19)|Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;2.49e-05)|all_lung(49;4.36e-05)|Breast(49;0.000304)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAATTCATTTTTCTGGGTCTC	0.393													15	527	---	---	---	---	PASS	C	110698	C	C	110698	3	2	11	1	0	0	0	0	1	0	0	0	11062	1841	64	5	22	5	OR4F17	19	110698	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08		110698	59018285	284	6833										
ATCAY	85300	broad.mit.edu	37	chr19	3907875	3907875	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agcaagagcaccgtatagacCtgcacatgatccggccttac	9	13	0	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:3907875C>A	uc002lyy.3	+	5	932	c.502C>A	c.(502-504)CTG>ATG	p.L168M	ATCAY_uc010xhz.1_Missense_Mutation_p.L174M|ATCAY_uc010dts.2_5'Flank	NM_033064	NP_149053	Q86WG3	ATCAY_HUMAN	caytaxin	168					transport		protein binding			breast(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00485)|STAD - Stomach adenocarcinoma(1328;0.183)		CCGTATAGACCTGCACATGAT	0.672													11	18	---	---	---	---	PASS	A	3907875	A	A	3907875	3	1	11	1	0	0	0	0	1	0	0	0	1077	680	24	3	516	3	ATCAY	19	3907875	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	3797177	3907875	55221108	285	6834										
ACSBG2	81616	broad.mit.edu	37	chr19	6151739	6151739	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgggtttggagcgtttccacGgagttggtatcctggggttt	16	6	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:6151739G>T	uc002mef.1	+	4	546	c.319G>T	c.(319-321)GGA>TGA	p.G107*	ACSBG2_uc002mee.1_5'UTR|ACSBG2_uc002meg.1_Nonsense_Mutation_p.G107*|ACSBG2_uc002meh.1_Nonsense_Mutation_p.G107*|ACSBG2_uc002mei.1_Nonsense_Mutation_p.G57*|ACSBG2_uc010xiz.1_Nonsense_Mutation_p.G107*	NM_030924	NP_112186	Q5FVE4	ACBG2_HUMAN	bubblegum-related acyl-CoA synthetase 2	107					cell differentiation|fatty acid metabolic process|multicellular organismal development|spermatogenesis	membrane|microsome|mitochondrion	acyl-CoA thioesterase activity|ATP binding|long-chain fatty acid-CoA ligase activity			ovary(1)	1						GCGTTTCCACGGAGTTGGTAT	0.453													2	14	---	---	---	---	PASS	T	6151739	T	T	6151739	4	4	11	1	0	0	0	0	0	1	0	0	174	1117	39	1	329	1	ACSBG2	19	6151739	Nonsense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	2243864	6151739	52977244	286	6835										
MLLT1	4298	broad.mit.edu	37	chr19	6230582	6230582	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aggggcggggcacactcaccCcgccggcccgcaggagcttg	16	16	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:6230582C>A	uc002mek.2	-	4	583	c.419G>T	c.(418-420)GGG>GTG	p.G140V		NM_005934	NP_005925	Q03111	ENL_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	140					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|protein binding			skin(1)	1						CACACTCACCCCGCCGGCCCG	0.697			T	MLL	AL								17	26	---	---	---	---	PASS	A	6230582	A	A	6230582	3	1	11	1	0	0	0	0	1	0	0	0	9625	637	22	3	1296	3	MLLT1	19	6230582	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	78843	6230582	52898401	287	6836										
ZNF358	140467	broad.mit.edu	37	chr19	7585294	7585294	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggccttcggccaggcctccaGcctcaccaagcacaaacggg	11	17	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:7585294G>T	uc002mgn.2	+	2	1336	c.1166G>T	c.(1165-1167)AGC>ATC	p.S389I	MCOLN1_uc010dvh.1_5'Flank|MCOLN1_uc002mgo.2_5'Flank|MCOLN1_uc002mgp.2_5'Flank	NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	389	C2H2-type 9.				embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						CAGGCCTCCAGCCTCACCAAG	0.498													3	8	---	---	---	---	PASS	T	7585294	T	T	7585294	3	4	11	1	0	0	0	0	1	0	0	0	17864	971	34	3	1168	3	ZNF358	19	7585294	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	1354712	7585294	51543689	288	6837										
TYK2	7297	broad.mit.edu	37	chr19	10476245	10476245	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	accactggatgccaccagtgCctgtcaccagcacctcgtgg	10	16	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:10476245C>A	uc002moc.3	-	7	1337	c.959G>T	c.(958-960)GGC>GTC	p.G320V	TYK2_uc010dxe.2_Missense_Mutation_p.G135V|TYK2_uc002mod.2_Missense_Mutation_p.G320V	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	320	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			GCCACCAGTGCCTGTCACCAG	0.672													25	63	---	---	---	---	PASS	A	10476245	A	A	10476245	3	1	11	1	0	0	0	0	1	0	0	0	16807	739	26	3	2680	3	TYK2	19	10476245	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	2890951	10476245	48652738	289	6838										
ZNF536	9745	broad.mit.edu	37	chr19	30936440	30936440	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgtgtccacaagcgggaccgCaagggcgaggaggatgggct	18	10	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:30936440C>A	uc002nsu.1	+	2	2109	c.1971C>A	c.(1969-1971)CGC>CGA	p.R657R	ZNF536_uc010edd.1_Silent_p.R657R	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	657					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					AGCGGGACCGCAAGGGCGAGG	0.687													61	79	---	---	---	---	PASS	A	30936440	A	A	30936440	2	1	11	1	0	0	0	0	0	0	0	1	17971	697	25	3		3	ZNF536	19	30936440	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	20460195	30936440	28192543	290	6839										
TSHZ3	57616	broad.mit.edu	37	chr19	31768908	31768908	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttgggcatgggggacgtctgGctgctgggtggagagaccag	20	7	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:31768908G>A	uc002nsy.3	-	2	1856	c.1791C>T	c.(1789-1791)AGC>AGT	p.S597S		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	597					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					GGGACGTCTGGCTGCTGGGTG	0.552													46	209	---	---	---	---	PASS	A	31768908	A	A	31768908	2	1	11	1	0	0	0	0	0	0	0	1	16622	1194	42	3		3	TSHZ3	19	31768908	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	832468	31768908	27360075	291	6840										
PEPD	5184	broad.mit.edu	37	chr19	33878831	33878831	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aaagcgctgcaggacctcgcGgttaaggaaggaggcgcggg	18	9	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:33878831G>A	uc002nur.3	-	14	1444	c.1309C>T	c.(1309-1311)CGC>TGC	p.R437C	PEPD_uc010xrr.1_Missense_Mutation_p.R396C|PEPD_uc010xrs.1_Missense_Mutation_p.R373C|PEPD_uc002nuq.3_Missense_Mutation_p.R116C	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	437					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)					AGGACCTCGCGGTTAAGGAAG	0.657													3	6	---	---	---	---	PASS	A	33878831	A	A	33878831	3	1	11	1	0	0	0	0	1	0	0	0	11728	1116	39	1	180	1	PEPD	19	33878831	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	2109923	33878831	25250152	292	6841										
ZNF790	388536	broad.mit.edu	37	chr19	37314233	37314233	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctcaaaatcttccagggctcTttccctttctccaataaaga	4	13	4	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:37314233T>C	uc002oew.2	-	4	302	c.183A>G	c.(181-183)AAA>AAG	p.K61K	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	61	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TCCAGGGCTCTTTCCCTTTCT	0.458													19	74	---	---	---	---	PASS	C	37314233	C	C	37314233	2	2	11	1	0	0	0	0	0	0	0	1	18159	1606	56	5		5	ZNF790	19	37314233	Silent	SNP	T	TCGA-18-3417-01A-01D-1441-08	3435402	37314233	21814750	293	6842										
PLEKHG2	64857	broad.mit.edu	37	chr19	39914665	39914665	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	caagaaggccccctgcacctCcaggtgccggctcttacaac	9	17	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:39914665C>T	uc010xuz.1	+	19	3217	c.2892C>T	c.(2890-2892)CTC>CTT	p.L964L	PLEKHG2_uc010xuy.1_Silent_p.L905L|PLEKHG2_uc002olj.2_Intron|PLEKHG2_uc010xva.1_Silent_p.L742L	NM_022835	NP_073746	Q9H7P9	PKHG2_HUMAN	common-site lymphoma/leukemia guanine nucleotide	964					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			skin(2)|pancreas(1)|breast(1)	4	all_cancers(60;3.08e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;6.57e-07)|Ovarian(47;0.0569)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			CCCTGCACCTCCAGGTGCCGG	0.557													31	107	---	---	---	---	PASS	T	39914665	T	T	39914665	2	4	11	1	0	0	0	0	0	0	0	1	12069	842	30	2		2	PLEKHG2	19	39914665	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	2600432	39914665	19214318	294	6843										
HNRNPUL1	11100	broad.mit.edu	37	chr19	41785042	41785042	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agcctgacccccacgtggtcCgtatcggctggtccctggac	12	16	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:41785042C>T	uc002oqb.3	+	6	1136	c.847C>T	c.(847-849)CGT>TGT	p.R283C	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Missense_Mutation_p.R183C|HNRNPUL1_uc002oqa.3_Missense_Mutation_p.R183C|HNRNPUL1_uc010ehm.2_Missense_Mutation_p.R283C|HNRNPUL1_uc002oqc.3_Intron|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Missense_Mutation_p.R183C|HNRNPUL1_uc010ehn.2_Missense_Mutation_p.R183C|HNRNPUL1_uc010eho.2_Missense_Mutation_p.R183C|HNRNPUL1_uc010xvy.1_Missense_Mutation_p.R183C|HNRNPUL1_uc010ehp.2_Missense_Mutation_p.R139C|HNRNPUL1_uc010ehl.1_Missense_Mutation_p.R183C	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	283	B30.2/SPRY.|Necessary for interaction with TP53.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						CCACGTGGTCCGTATCGGCTG	0.547													56	153	---	---	---	---	PASS	T	41785042	T	T	41785042	3	4	11	1	0	0	0	0	1	0	0	0	7274	652	23	1	869	1	HNRNPUL1	19	41785042	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1870377	41785042	17343941	295	6844										
CEACAM4	1089	broad.mit.edu	37	chr19	42132258	42132258	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agtagaagaacatcctttccCtctgcagcactggacggcag	10	12	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:42132258C>A	uc002orh.1	-	2	252	c.141G>T	c.(139-141)GAG>GAT	p.E47D	CEACAM4_uc010xwd.1_Missense_Mutation_p.E47D	NM_001817	NP_001808	O75871	CEAM4_HUMAN	carcinoembryonic antigen-related cell adhesion	47	Extracellular (Potential).|Ig-like V-type.					integral to plasma membrane|membrane fraction					0						CATCCTTTCCCTCTGCAGCAC	0.507													58	136	---	---	---	---	PASS	A	42132258	A	A	42132258	3	1	11	1	0	0	0	0	1	0	0	0	3194	680	24	3	617	3	CEACAM4	19	42132258	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	347216	42132258	16996725	296	6845										
CADM4	199731	broad.mit.edu	37	chr19	44127512	44127512	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aattcctctttcctcttgtgTccgtcgctgccattgaggaa	8	12	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:44127512T>C	uc002oxc.1	-	9	1186	c.1137A>G	c.(1135-1137)GGA>GGG	p.G379G		NM_145296	NP_660339	Q8NFZ8	CADM4_HUMAN	cell adhesion molecule 4 precursor	379	Cytoplasmic (Potential).				cell adhesion	integral to membrane					0		Prostate(69;0.0199)				TCCTCTTGTGTCCGTCGCTGC	0.607													63	234	---	---	---	---	PASS	C	44127512	C	C	44127512	2	2	11	1	0	0	0	0	0	0	0	1	2569	1654	58	5		5	CADM4	19	44127512	Silent	SNP	T	TCGA-18-3417-01A-01D-1441-08	1995254	44127512	15001471	297	6846										
KCNN4	3783	broad.mit.edu	37	chr19	44280704	44280704	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctgccctacctggacctcttTggcatgaaaggccacgatga	10	13	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:44280704T>C	uc002oxl.2	-	2	640	c.244A>G	c.(244-246)AAA>GAA	p.K82E	KCNN4_uc010eiz.2_5'Flank|KCNN4_uc010eja.1_RNA	NM_002250	NP_002241	O15554	KCNN4_HUMAN	intermediate conductance calcium-activated	82					defense response	voltage-gated potassium channel complex	calcium-activated potassium channel activity|calmodulin binding			ovary(2)	2		Prostate(69;0.0352)			Clotrimazole(DB00257)|Halothane(DB01159)|Quinine(DB00468)	TGGACCTCTTTGGCATGAAAG	0.602													18	70	---	---	---	---	PASS	C	44280704	C	C	44280704	3	2	11	1	0	0	0	0	1	0	0	0	8081	1821	63	5	1067	5	KCNN4	19	44280704	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	153192	44280704	14848279	298	6847										
ZNF229	7772	broad.mit.edu	37	chr19	44934632	44934632	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tcacctgccacctcttcccaGattttgcatgaggagagctc	8	14	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:44934632G>C	uc002oze.1	-	6	758	c.324C>G	c.(322-324)ATC>ATG	p.I108M	ZNF229_uc010ejk.1_Translation_Start_Site|ZNF229_uc010ejl.1_Missense_Mutation_p.I102M	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	108	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				CCTCTTCCCAGATTTTGCATG	0.428													37	131	---	---	---	---	PASS	C	44934632	C	C	44934632	3	2	11	1	0	0	0	0	1	0	0	0	17779	932	33	2	2157	2	ZNF229	19	44934632	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	653928	44934632	14194351	299	6848										
RSPH6A	81492	broad.mit.edu	37	chr19	46313864	46313864	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctgactggctcactcaccacCtcctcctccatctcctgttc	4	20	3	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:46313864C>A	uc002pdm.2	-	2	1028	c.885G>T	c.(883-885)GAG>GAT	p.E295D	RSPH6A_uc002pdl.2_Missense_Mutation_p.E31D	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	295						intracellular				ovary(1)|central_nervous_system(1)	2						CACTCACCACCTCCTCCTCCA	0.617													99	244	---	---	---	---	PASS	A	46313864	A	A	46313864	3	1	11	1	0	0	0	0	1	0	0	0	13707	680	24	3	1288	3	RSPH6A	19	46313864	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1379232	46313864	12815119	300	6849										
ALDH16A1	126133	broad.mit.edu	37	chr19	49967959	49967959	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cctctccaagaacctgaactAtgacacctttggcctcgctg	7	15	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:49967959A>G	uc002pnt.2	+	12	1624	c.1508A>G	c.(1507-1509)TAT>TGT	p.Y503C	ALDH16A1_uc010yar.1_Missense_Mutation_p.Y452C|ALDH16A1_uc010yas.1_Missense_Mutation_p.Y338C|ALDH16A1_uc010yat.1_Missense_Mutation_p.Y340C	NM_153329	NP_699160	Q8IZ83	A16A1_HUMAN	aldehyde dehydrogenase 16 family, member A1	503							oxidoreductase activity|protein binding			skin(1)	1		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00156)|GBM - Glioblastoma multiforme(486;0.0251)		AACCTGAACTATGACACCTTT	0.622													114	294	---	---	---	---	PASS	G	49967959	G	G	49967959	3	3	11	1	0	0	0	0	1	0	0	0	488	449	16	5	1554	5	ALDH16A1	19	49967959	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	3654095	49967959	9161024	301	6850										
CPT1C	126129	broad.mit.edu	37	chr19	50208306	50208306	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgcctctgcaggcagctcgcGctgggaatgccgtccatgcc	13	16	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:50208306G>T	uc002ppj.2	+	8	1019	c.814G>T	c.(814-816)GCT>TCT	p.A272S	CPT1C_uc002ppl.3_Missense_Mutation_p.A238S|CPT1C_uc002ppi.2_Missense_Mutation_p.A189S|CPT1C_uc002ppk.2_Missense_Mutation_p.A261S|CPT1C_uc010eng.2_Missense_Mutation_p.A272S|CPT1C_uc010enh.2_Missense_Mutation_p.A272S|CPT1C_uc010ybc.1_Missense_Mutation_p.A110S|CPT1C_uc010eni.1_5'Flank	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	272	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		GGCAGCTCGCGCTGGGAATGC	0.647													36	106	---	---	---	---	PASS	T	50208306	T	T	50208306	3	4	11	1	0	0	0	0	1	0	0	0	3833	1087	38	1	840	1	CPT1C	19	50208306	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	240347	50208306	8920677	302	6851										
AP2A1	160	broad.mit.edu	37	chr19	50303388	50303388	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgatgacgtccagggctatgCcgccaagaccgtctttgagg	13	11	1	4			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:50303388C>G	uc002ppn.2	+	11	1647	c.1436C>G	c.(1435-1437)GCC>GGC	p.A479G	AP2A1_uc010enj.1_RNA|AP2A1_uc002ppo.2_Missense_Mutation_p.A479G|AP2A1_uc002ppp.1_5'Flank	NM_014203	NP_055018	O95782	AP2A1_HUMAN	adaptor-related protein complex 2, alpha 1	479					axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|Golgi to endosome transport|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|clathrin coat of trans-Golgi network vesicle|cytosol	protein binding|protein transporter activity			ovary(2)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0023)|GBM - Glioblastoma multiforme(134;0.0157)		CAGGGCTATGCCGCCAAGACC	0.612													7	22	---	---	---	---	PASS	G	50303388	G	G	50303388	3	3	11	1	0	0	0	0	1	0	0	0	739	739	26	4	1478	4	AP2A1	19	50303388	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	95082	50303388	8825595	303	6852										
ZNF528	84436	broad.mit.edu	37	chr19	52919096	52919096	+	Frame_Shift_Del	DEL	G	-	-													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cttacagttgtaataaatgtGgcaaggtctttagtcgccat							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:52919096delG	uc002pzh.2	+	7	1417	c.991delG	c.(991-993)GGCfs	p.G331fs	ZNF528_uc002pzi.2_Frame_Shift_Del_p.G98fs	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	331	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		TAATAAATGTGGCAAGGTCTT	0.373													93	45	---	---	---	---		-	52919096	-	-	52919096	7	5	11	1	0	1	0	1	0	0	0	0	17966	1348	47	0	1005	0	ZNF528	19	52919096	Frame_Shift_Del	DEL	G	TCGA-18-3417-01A-01D-1441-08	2615708	52919096	6209887	304	6853										
ZNF320	162967	broad.mit.edu	37	chr19	53385189	53385189	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gtggatcacttctgtattgcCttgccctgttgatgacaatg	10	9	2	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:53385189C>T	uc002qag.2	-	4	381	c.190G>A	c.(190-192)GGC>AGC	p.G64S	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.G10S|ZNF320_uc002qai.2_Missense_Mutation_p.G64S	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	64	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		TCTGTATTGCCTTGCCCTGTT	0.373													101	249	---	---	---	---	PASS	T	53385189	T	T	53385189	3	4	11	1	0	0	0	0	1	0	0	0	17836	681	24	3	1343	3	ZNF320	19	53385189	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	466093	53385189	5743794	305	6854										
PRKCG	5582	broad.mit.edu	37	chr19	54401253	54401253	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttcctctcccatcccctcccCttcccctagtcccaccgacc	2	25	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:54401253C>A	uc002qcq.1	+	10	1262	c.980C>A	c.(979-981)CCT>CAT	p.P327H	PRKCG_uc010yef.1_Missense_Mutation_p.L298I|PRKCG_uc010yeg.1_Missense_Mutation_p.P327H|PRKCG_uc010yeh.1_Missense_Mutation_p.P214H	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	327					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)		atcccctccccttccccTAGT	0.468													41	92	---	---	---	---	PASS	A	54401253	A	A	54401253	3	1	11	1	0	0	0	0	1	0	0	0	12512	681	24	3	1018	3	PRKCG	19	54401253	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	1016064	54401253	4727730	306	6855										
LILRB2	10288	broad.mit.edu	37	chr19	54783386	54783386	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgggtgttcttcttctccttCcttacacagaatgaagccgc	8	12	3	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:54783386C>A	uc002qfb.2	-	5	738	c.472G>T	c.(472-474)GAA>TAA	p.E158*	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Nonsense_Mutation_p.E158*|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Nonsense_Mutation_p.E158*|LILRB2_uc010yet.1_Nonsense_Mutation_p.E42*|LILRB2_uc010yeu.1_RNA	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	158	Extracellular (Potential).|Ig-like C2-type 2.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TCTTCTCCTTCCTTACACAGA	0.622													41	89	---	---	---	---	PASS	A	54783386	A	A	54783386	4	1	11	1	0	0	0	0	0	1	0	0	8791	864	30	2	1364	2	LILRB2	19	54783386	Nonsense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	382133	54783386	4345597	307	6856										
SLC27A5	10998	broad.mit.edu	37	chr19	59010244	59010244	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gtcgaaagtctggccgggggCtagctgcacagcagccatgc	15	12	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr19:59010244C>T	uc002qtc.2	-	9	1914	c.1804G>A	c.(1804-1806)GCC>ACC	p.A602T	SLC27A5_uc002qtb.2_RNA	NM_012254	NP_036386	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid	602	Cytoplasmic (Probable).				bile acid and bile salt transport|bile acid biosynthetic process|very long-chain fatty acid metabolic process	endoplasmic reticulum membrane|integral to membrane	ATP binding|cholate-CoA ligase activity|long-chain fatty acid-CoA ligase activity				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.181)		TGGCCGGGGGCTAGCTGCACA	0.622													4	86	---	---	---	---	PASS	T	59010244	T	T	59010244	3	4	11	1	0	0	0	0	1	0	0	0	14529	797	28	3	276	3	SLC27A5	19	59010244	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	4226858	59010244	118739	308	6857										
SEL1L2	80343	broad.mit.edu	37	chr20	13868588	13868588	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agaatattttgtttacaaacCaaaatcatctgggacatcat	5	7	3	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr20:13868588C>T	uc010gcf.2	-	7	745	c.663G>A	c.(661-663)TTG>TTA	p.L221L	SEL1L2_uc002woq.3_Silent_p.L82L|SEL1L2_uc010zrl.1_Silent_p.L221L|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	221	Sel1-like 4.|Extracellular (Potential).					integral to membrane	binding			ovary(2)	2						GTTTACAAACCAAAATCATCT	0.358													32	124	---	---	---	---	PASS	T	13868588	T	T	13868588	2	4	11	1	0	0	0	0	0	0	0	1	14011	608	21	3		3	SEL1L2	20	13868588	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08		13868588	49156932	309	6858										
PCSK2	5126	broad.mit.edu	37	chr20	17446118	17446118	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tacggggtccttgatgcaggTgccatggtgaaaatggctaa	14	7	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr20:17446118T>A	uc002wpm.2	+	11	1670	c.1350T>A	c.(1348-1350)GGT>GGA	p.G450G	PCSK2_uc002wpl.2_Silent_p.G431G|PCSK2_uc010zrm.1_Silent_p.G415G|PCSK2_uc002wpn.2_Silent_p.G104G	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	450					enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TTGATGCAGGTGCCATGGTGA	0.567													13	60	---	---	---	---	PASS	A	17446118	A	A	17446118	2	1	11	1	0	0	0	0	0	0	0	1	11601	1683	59	5		5	PCSK2	20	17446118	Silent	SNP	T	TCGA-18-3417-01A-01D-1441-08	3577530	17446118	45579402	310	6859										
NINL	22981	broad.mit.edu	37	chr20	25481510	25481510	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgccattctgaatcccctccTgggtccacatggccaggacc	9	16	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr20:25481510T>A	uc002wux.1	-	8	1072	c.998A>T	c.(997-999)CAG>CTG	p.Q333L	NINL_uc010gdn.1_Missense_Mutation_p.Q333L|NINL_uc010gdo.1_Intron|NINL_uc010ztf.1_Missense_Mutation_p.Q349L	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	333					G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						AATCCCCTCCTGGGTCCACAT	0.597													13	66	---	---	---	---	PASS	A	25481510	A	A	25481510	3	1	11	1	0	0	0	0	1	0	0	0	10420	1580	55	5	3218	5	NINL	20	25481510	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	8035392	25481510	37544010	311	6860										
MYLK2	85366	broad.mit.edu	37	chr20	30419933	30419933	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aaatacctcatgaagaggcgCtggaaggtaccgctggattc	12	9	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr20:30419933C>T	uc002wwq.2	+	12	1806	c.1704C>T	c.(1702-1704)CGC>CGT	p.R568R	MYLK2_uc002wws.2_Silent_p.R185R|MYLK2_uc010gdw.1_RNA	NM_033118	NP_149109	Q9H1R3	MYLK2_HUMAN	skeletal myosin light chain kinase	568					cardiac muscle tissue morphogenesis|regulation of muscle filament sliding		ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			lung(2)|skin(2)|ovary(1)|central_nervous_system(1)	6			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			TGAAGAGGCGCTGGAAGGTAC	0.587													8	17	---	---	---	---	PASS	T	30419933	T	T	30419933	2	4	11	1	0	0	0	0	0	0	0	1	10057	784	28	3		3	MYLK2	20	30419933	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	4938423	30419933	32605587	312	6861										
PLAGL2	5326	broad.mit.edu	37	chr20	30785030	30785030	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gctcctgcgagtggctcttcTtgacatgacgcgtcaggtgg	14	11	3	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr20:30785030T>C	uc002wxn.2	-	3	933	c.716A>G	c.(715-717)AAG>AGG	p.K239R		NM_002657	NP_002648	Q9UPG8	PLAL2_HUMAN	pleiomorphic adenoma gene-like 2	239	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			GTGGCTCTTCTTGACATGACG	0.582													19	31	---	---	---	---	PASS	C	30785030	C	C	30785030	3	2	11	1	0	0	0	0	1	0	0	0	12020	1609	56	5	778	5	PLAGL2	20	30785030	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	365097	30785030	32240490	313	6862										
PTPRT	11122	broad.mit.edu	37	chr20	41101061	41101061	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cctcggcctcgtactgctgcTggttgaacacatactggtac	10	13	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr20:41101061T>A	uc002xkg.2	-	8	1479	c.1295A>T	c.(1294-1296)CAG>CTG	p.Q432L	PTPRT_uc010ggj.2_Missense_Mutation_p.Q432L	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	432	Extracellular (Potential).|Fibronectin type-III 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GTACTGCTGCTGGTTGAACAC	0.627													57	81	---	---	---	---	PASS	A	41101061	A	A	41101061	3	1	11	1	0	0	0	0	1	0	0	0	12812	1580	55	5	3187	5	PTPRT	20	41101061	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08	10316031	41101061	21924459	314	6863										
AURKA	6790	broad.mit.edu	37	chr20	54963223	54963223	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tcaatttaccttaacaggtcCtgaaatgcagttttctttag	6	8	2	1	rs6069717		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr20:54963223C>A	uc002xxd.1	-	4	597	c.31G>T	c.(31-33)GGA>TGA	p.G11*	AURKA_uc002xxe.1_Nonsense_Mutation_p.G11*|AURKA_uc002xxf.1_Nonsense_Mutation_p.G11*|AURKA_uc002xxg.1_Nonsense_Mutation_p.G11*|AURKA_uc002xxh.1_Nonsense_Mutation_p.G11*|AURKA_uc002xxi.1_Nonsense_Mutation_p.G11*|AURKA_uc002xxj.1_Nonsense_Mutation_p.G11*|AURKA_uc002xxk.1_Nonsense_Mutation_p.G11*|AURKA_uc010zzd.1_RNA	NM_198433	NP_940835	O14965	AURKA_HUMAN	serine/threonine protein kinase 6	11					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|phosphatidylinositol-mediated signaling|regulation of protein stability|spindle organization	cytosol|nucleus|perinuclear region of cytoplasm|spindle microtubule|spindle pole centrosome	ATP binding|protein kinase binding|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(1)|large_intestine(1)|skin(1)	8			Colorectal(105;0.202)			TTAACAGGTCCTGAAATGCAG	0.383													12	231	---	---	---	---	PASS	A	54963223	A	A	54963223	4	1	11	1	0	0	0	0	0	1	0	0	1221	690	24	3	1212	3	AURKA	20	54963223	Nonsense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	13862162	54963223	8062297	315	6864										
OSBPL2	9885	broad.mit.edu	37	chr20	60835156	60835156	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aaactggggagaggccctctCaagagaacggaattcagaaa	12	8	2	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr20:60835156C>T	uc002yck.1	+	3	359	c.157C>T	c.(157-159)CAA>TAA	p.Q53*	OSBPL2_uc002ycl.1_Nonsense_Mutation_p.Q41*|OSBPL2_uc011aah.1_Intron	NM_144498	NP_653081	Q9H1P3	OSBL2_HUMAN	oxysterol-binding protein-like protein 2 isoform	53					lipid transport		lipid binding			ovary(1)|central_nervous_system(1)	2	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;1.33e-06)			GAGGCCCTCTCAAGAGAACGG	0.438													20	141	---	---	---	---	PASS	T	60835156	T	T	60835156	4	4	11	1	0	0	0	0	0	1	0	0	11278	827	29	2	163	2	OSBPL2	20	60835156	Nonsense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	5871933	60835156	2190364	316	6865										
ZGPAT	84619	broad.mit.edu	37	chr20	62340111	62340111	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cctggtgtctgtcaggaagaGcagcttgttggccgcgctgg	16	10	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr20:62340111G>C	uc002ygk.2	+	2	357	c.179G>C	c.(178-180)AGC>ACC	p.S60T	ARFRP1_uc002yga.2_5'Flank|ARFRP1_uc002ygc.2_5'Flank|ARFRP1_uc002ygh.3_5'Flank|ARFRP1_uc011abf.1_5'Flank|ARFRP1_uc011abg.1_5'Flank|ARFRP1_uc002yge.2_5'Flank|ARFRP1_uc002ygd.2_5'Flank|ARFRP1_uc002ygf.2_5'Flank|ARFRP1_uc002ygg.2_5'Flank|ARFRP1_uc011abh.1_5'Flank|ZGPAT_uc002ygi.2_Missense_Mutation_p.S60T|ZGPAT_uc002ygj.2_Missense_Mutation_p.S60T|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Missense_Mutation_p.S60T|ZGPAT_uc002ygm.2_Missense_Mutation_p.S60T|ZGPAT_uc002ygn.3_RNA	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	60					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					GTCAGGAAGAGCAGCTTGTTG	0.657													20	111	---	---	---	---	PASS	C	62340111	C	C	62340111	3	2	11	1	0	0	0	0	1	0	0	0	17671	971	34	4	181	4	ZGPAT	20	62340111	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	1504955	62340111	685409	317	6866										
NRIP1	8204	broad.mit.edu	37	chr21	16337882	16337882	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gtgattgtttgcagcatcaaCaatgttgtttttcatctttt	7	6	3	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr21:16337882C>A	uc002yjx.2	-	4	3230	c.2632G>T	c.(2632-2634)GTT>TTT	p.V878F		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	878	Repression domain 3.				androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		GCAGCATCAACAATGTTGTTT	0.363													62	220	---	---	---	---	PASS	A	16337882	A	A	16337882	3	1	11	1	0	0	0	0	1	0	0	0	10652	478	17	3	848	3	NRIP1	21	16337882	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08		16337882	31792013	318	6867										
USP25	29761	broad.mit.edu	37	chr21	17242405	17242405	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aggagtggcatcaggattatAggaaattcagggaaacaact	12	5	2	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr21:17242405A>T	uc002yjy.1	+	21	2831	c.2614A>T	c.(2614-2616)AGG>TGG	p.R872W	USP25_uc011aby.1_Missense_Mutation_p.R942W|USP25_uc002yjz.1_Missense_Mutation_p.R904W|USP25_uc010gla.1_Missense_Mutation_p.R267W	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	872					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		TCAGGATTATAGGAAATTCAG	0.308													44	160	---	---	---	---	PASS	T	17242405	T	T	17242405	3	4	11	1	0	0	0	0	1	0	0	0	17053	411	15	5	2696	5	USP25	21	17242405	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	904523	17242405	30887490	319	6868										
KRTAP13-4	284827	broad.mit.edu	37	chr21	31802905	31802905	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ggatctaggtgctgctactcGctgggaaatggatccagtgg	15	8	1	0	rs150222104		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr21:31802905G>T	uc011acw.1	+	1	312	c.312G>T	c.(310-312)TCG>TCT	p.S104S		NM_181600	NP_853631	Q3LI77	KR134_HUMAN	keratin associated protein 13-4	104						intermediate filament					0						GCTGCTACTCGCTGGGAAATG	0.532													9	27	---	---	---	---	PASS	T	31802905	T	T	31802905	2	4	11	1	0	0	0	0	0	0	0	1	8525	1074	38	1		1	KRTAP13-4	21	31802905	Silent	SNP	G	TCGA-18-3417-01A-01D-1441-08	14560500	31802905	16326990	320	6869										
PWP2	5822	broad.mit.edu	37	chr21	45535237	45535237	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctatgcactggggggacataAggatgccatcgtggcctgct	14	10	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr21:45535237A>T	uc002zeb.2	+	6	653	c.563A>T	c.(562-564)AAG>ATG	p.K188M		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	188	WD 5.					cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		GGGGGACATAAGGATGCCATC	0.547													50	132	---	---	---	---	PASS	T	45535237	T	T	45535237	3	4	11	1	0	0	0	0	1	0	0	0	12844	72	3	5	585	5	PWP2	21	45535237	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	13732332	45535237	2594658	321	6870										
MCM3AP	8888	broad.mit.edu	37	chr21	47704633	47704633	+	Missense_Mutation	SNP	C	A	A													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ttgaggaaaagagaaaggggCcaggcctccaggtgcactac							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr21:47704633C>A	uc002zir.1	-	1	604	c.568G>T	c.(568-570)GCC>TCC	p.A190S	C21orf57_uc002zit.1_5'Flank|C21orf57_uc002ziu.1_5'Flank|C21orf57_uc002ziv.2_5'Flank|C21orf57_uc002ziw.2_5'Flank|C21orf57_uc002zix.2_5'Flank|C21orf57_uc010gqh.2_5'Flank|C21orf57_uc002ziy.2_5'Flank	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	190					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					GAGAAAGGGGCCAGGCCTCCA	0.413													36	69	---	---	---	---	PASS	A	47704633	A	A	47704633	3	1	11	1	0	0	0	0	1	0	0	0	9388	739	26	3	5486	3	MCM3AP	21	47704633	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	2169396	47704633	425262	322	6871	226	2								
MCM3AP	8888	broad.mit.edu	37	chr21	47704634	47704634	+	Silent	SNP	C	A	A													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgaggaaaagagaaaggggcCaggcctccaggtgcactact							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr21:47704634C>A	uc002zir.1	-	1	603	c.567G>T	c.(565-567)CTG>CTT	p.L189L	C21orf57_uc002zit.1_5'Flank|C21orf57_uc002ziu.1_5'Flank|C21orf57_uc002ziv.2_5'Flank|C21orf57_uc002ziw.2_5'Flank|C21orf57_uc002zix.2_5'Flank|C21orf57_uc010gqh.2_5'Flank|C21orf57_uc002ziy.2_5'Flank	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	189					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					AGAAAGGGGCCAGGCCTCCAG	0.413													36	68	---	---	---	---	PASS	A	47704634	A	A	47704634	2	1	11	1	0	0	0	0	0	0	0	1	9388	581	21	3		3	MCM3AP	21	47704634	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	1	47704634	425261	323	6872	226	2								
DIP2A	23181	broad.mit.edu	37	chr21	47970476	47970476	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gccattgatagcatccaccaGgtgggcgtgtactgtctggc	13	11	1	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr21:47970476G>T	uc002zjo.2	+	23	2841	c.2658G>T	c.(2656-2658)CAG>CAT	p.Q886H	DIP2A_uc011afy.1_Missense_Mutation_p.Q822H|DIP2A_uc011afz.1_Missense_Mutation_p.Q882H	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	886					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		GCATCCACCAGGTGGGCGTGT	0.582													5	19	---	---	---	---	PASS	T	47970476	T	T	47970476	3	4	11	1	0	0	0	0	1	0	0	0	4527	991	35	3	2830	3	DIP2A	21	47970476	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	265842	47970476	159419	324	6873										
SEZ6L	23544	broad.mit.edu	37	chr22	26692894	26692894	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cgatggggaactgctctccaTccgcggggtggacggcccta	15	13	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr22:26692894T>C	uc003acb.2	+	4	1166	c.1010T>C	c.(1009-1011)ATC>ACC	p.I337T	SEZ6L_uc003acc.2_Missense_Mutation_p.I337T|SEZ6L_uc011akc.1_Missense_Mutation_p.I337T|SEZ6L_uc003acd.2_Missense_Mutation_p.I337T|SEZ6L_uc011akd.1_Missense_Mutation_p.I337T|SEZ6L_uc003ace.2_Missense_Mutation_p.I337T|SEZ6L_uc003acf.1_Missense_Mutation_p.I110T|SEZ6L_uc010gvc.1_Missense_Mutation_p.I110T	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	337	CUB 1.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CTGCTCTCCATCCGCGGGGTG	0.592													18	26	---	---	---	---	PASS	C	26692894	C	C	26692894	3	2	11	1	0	0	0	0	1	0	0	0	14143	1435	50	5	1024	5	SEZ6L	22	26692894	Missense_Mutation	SNP	T	TCGA-18-3417-01A-01D-1441-08		26692894	24611672	325	6874										
TAB1	10454	broad.mit.edu	37	chr22	39824179	39824179	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cctggacgaagccacccccaCcctcaccaagtaagtccctt	6	19	1	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chr22:39824179C>T	uc003axt.2	+	10	1347	c.1298C>T	c.(1297-1299)ACC>ATC	p.T433I	TAB1_uc003axr.2_Missense_Mutation_p.T509I|TAB1_uc011aok.1_Missense_Mutation_p.T267I|TAB1_uc003axu.1_Missense_Mutation_p.T433I	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	433					activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|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|endosome membrane	catalytic activity|protein binding			breast(1)	1						GCCACCCCCACCCTCACCAAG	0.642													11	54	---	---	---	---	PASS	T	39824179	T	T	39824179	3	4	11	1	0	0	0	0	1	0	0	0	15492	507	18	3	1336	3	TAB1	22	39824179	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	13131285	39824179	11480387	326	6875										
AMELX	265	broad.mit.edu	37	chrX	11316885	11316885	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ccaccagccaaacctccctcCgcccgcccagcagccctacc	5	25	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chrX:11316885C>T	uc004cut.2	+	5	430	c.362C>T	c.(361-363)CCG>CTG	p.P121L	ARHGAP6_uc004cup.1_Intron|ARHGAP6_uc004cuo.1_Intron|ARHGAP6_uc004cur.1_Intron|ARHGAP6_uc004cun.1_Intron|ARHGAP6_uc011mif.1_Intron|AMELX_uc004cus.2_Missense_Mutation_p.P135L|AMELX_uc004cuu.2_Missense_Mutation_p.P105L	NM_001142	NP_001133	Q99217	AMELX_HUMAN	amelogenin (X chromosome) isoform 1 precursor	121					cell adhesion|cell proliferation|chondrocyte differentiation|enamel mineralization|epithelial to mesenchymal transition|ion homeostasis|odontogenesis of dentine-containing tooth|osteoblast differentiation|positive regulation of collagen biosynthetic process|positive regulation of tooth mineralization|signal transduction	proteinaceous extracellular matrix	cell surface binding|growth factor activity|hydroxyapatite binding|identical protein binding|structural constituent of tooth enamel				0						AACCTCCCTCCGCCCGCCCAG	0.662													4	9	---	---	---	---	PASS	T	11316885	T	T	11316885	3	4	11	1	0	0	0	0	1	0	0	0	569	652	23	1	422	1	AMELX	23	11316885	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08		11316885	143953675	327	6876										
PHEX	5251	broad.mit.edu	37	chrX	22208614	22208614	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctacagtgcatccaccaaccAgatccgtgagtacgggttcc	9	14	0	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chrX:22208614A>T	uc004dah.2	+	15	1843	c.1640A>T	c.(1639-1641)CAG>CTG	p.Q547L	PHEX_uc011mjr.1_Missense_Mutation_p.Q547L|PHEX_uc011mjs.1_Missense_Mutation_p.Q450L	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	547	Extracellular (Potential).				biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						TCCACCAACCAGATCCGTGAG	0.423													31	70	---	---	---	---	PASS	T	22208614	T	T	22208614	3	4	11	1	0	0	0	0	1	0	0	0	11819	188	7	5	1698	5	PHEX	23	22208614	Missense_Mutation	SNP	A	TCGA-18-3417-01A-01D-1441-08	10891729	22208614	133061946	328	6877										
MAGEB16	139604	broad.mit.edu	37	chrX	35820595	35820595	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	agcaatcaagaagaggaagaTagtccaagctcctcagagga	11	8	2	4			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chrX:35820595T>C	uc010ngt.1	+	2	561	c.282T>C	c.(280-282)GAT>GAC	p.D94D		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	94										lung(3)|ovary(2)|breast(1)|skin(1)	7						AAGAGGAAGATAGTCCAAGCT	0.488													4	9	---	---	---	---	PASS	C	35820595	C	C	35820595	2	2	11	1	0	0	0	0	0	0	0	1	9174	1403	49	5		5	MAGEB16	23	35820595	Silent	SNP	T	TCGA-18-3417-01A-01D-1441-08	13611981	35820595	119449965	329	6878										
CXorf59	286464	broad.mit.edu	37	chrX	36156569	36156569	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctttatgaaattgactttgaCgtggaaatacaggtgggtgc	12	5	0	3	rs138587803		TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chrX:36156569C>G	uc004ddk.1	+	10	1434	c.1248C>G	c.(1246-1248)GAC>GAG	p.D416E		NM_173695	NP_775966	Q8N9S7	CX059_HUMAN	hypothetical protein LOC286464	416						integral to membrane				central_nervous_system(1)	1						TTGACTTTGACGTGGAAATAC	0.294													17	55	---	---	---	---	PASS	G	36156569	G	G	36156569	3	3	11	1	0	0	0	0	1	0	0	0	4115	535	19	4	1282	4	CXorf59	23	36156569	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	335974	36156569	119113991	330	6879										
FAM47C	442444	broad.mit.edu	37	chrX	37028587	37028587	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctgagactggagtgtcccgtCtccacccagagcctcccaag	10	16	1	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chrX:37028587C>T	uc004ddl.1	+	1	2118	c.2104C>T	c.(2104-2106)CTC>TTC	p.L702F		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	702										ovary(3)	3						AGTGTCCCGTCTCCACCCAGA	0.642													12	22	---	---	---	---	PASS	T	37028587	T	T	37028587	3	4	11	1	0	0	0	0	1	0	0	0	5571	913	32	2	2106	2	FAM47C	23	37028587	Missense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	872018	37028587	118241973	331	6880										
BCOR	54880	broad.mit.edu	37	chrX	39932785	39932785	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tgctgctactgtgcttggcaGgagtggccgggggctggccc	18	11	0	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chrX:39932785G>T	uc004den.3	-	4	2106	c.1814C>A	c.(1813-1815)CCT>CAT	p.P605H	BCOR_uc004dep.3_Missense_Mutation_p.P605H|BCOR_uc004deo.3_Missense_Mutation_p.P605H|BCOR_uc004dem.3_Missense_Mutation_p.P605H|BCOR_uc004deq.3_Missense_Mutation_p.P605H	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	605					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						GTGCTTGGCAGGAGTGGCCGG	0.582													15	32	---	---	---	---	PASS	T	39932785	T	T	39932785	3	4	11	1	0	0	0	0	1	0	0	0	1386	1000	35	3	3501	3	BCOR	23	39932785	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	2904198	39932785	115337775	332	6881										
ITGB1BP2	26548	broad.mit.edu	37	chrX	70524054	70524054	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	tagctcccagcatcttgccgCcatgattggcaccagacaga	9	14	1	3			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chrX:70524054C>A	uc004dzr.1	+	9	686	c.657C>A	c.(655-657)CGC>CGA	p.R219R	BCYRN1_uc011mpt.1_Intron|ITGB1BP2_uc004dzs.1_Silent_p.R201R	NM_012278	NP_036410	Q9UKP3	ITBP2_HUMAN	integrin beta 1 binding protein 2	219	CS.				muscle organ development|signal transduction		SH3 domain binding			ovary(1)	1	Renal(35;0.156)					CATCTTGCCGCCATGATTGGC	0.468													3	52	---	---	---	---	PASS	A	70524054	A	A	70524054	2	1	11	1	0	0	0	0	0	0	0	1	7892	726	26	3		3	ITGB1BP2	23	70524054	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08	30591269	70524054	84746506	333	6882										
MUM1L1	139221	broad.mit.edu	37	chrX	105449469	105449469	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	caactggaaagaccagttgtGgccagcaaaagttttgtcca	10	9	0	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chrX:105449469G>T	uc004emf.1	+	4	693	c.44G>T	c.(43-45)TGG>TTG	p.W15L	MUM1L1_uc004emg.1_Missense_Mutation_p.W15L	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	15										ovary(2)|pancreas(1)|skin(1)	4						GACCAGTTGTGGCCAGCAAAA	0.378													3	7	---	---	---	---	PASS	T	105449469	T	T	105449469	3	4	11	1	0	0	0	0	1	0	0	0	9986	1357	47	3	46	3	MUM1L1	23	105449469	Missense_Mutation	SNP	G	TCGA-18-3417-01A-01D-1441-08	34925415	105449469	49821091	334	6883										
TRPC5	7224	broad.mit.edu	37	chrX	111095583	111095583	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	aggtagagggagttcattgcAaaatccatcaggttccacca	10	9	2	1			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chrX:111095583A>G	uc004epl.1	-	5	2239	c.1320T>C	c.(1318-1320)TTT>TTC	p.F440F	TRPC5_uc004epm.1_Silent_p.F440F	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	440	Helical; (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						AGTTCATTGCAAAATCCATCA	0.423													35	58	---	---	---	---	PASS	G	111095583	G	G	111095583	2	3	11	1	0	0	0	0	0	0	0	1	16579	127	5	5		5	TRPC5	23	111095583	Silent	SNP	A	TCGA-18-3417-01A-01D-1441-08	5646114	111095583	44174977	335	6884										
IGSF1	3547	broad.mit.edu	37	chrX	130419264	130419264	+	Frame_Shift_Del	DEL	T	-	-													0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	ctcaggtgtcaggttgtcaaTggagaatatggccattgtcc							TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chrX:130419264delT	uc004ewd.2	-	5	794	c.556delA	c.(556-558)ATTfs	p.I186fs	IGSF1_uc004ewe.3_Frame_Shift_Del_p.I175fs|IGSF1_uc004ewf.2_Frame_Shift_Del_p.I166fs|IGSF1_uc004ewg.2_Frame_Shift_Del_p.I186fs	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	186	Ig-like C2-type 2.|Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						AGGTTGTCAATGGAGAATATG	0.522													66	51	---	---	---	---		-	130419264	-	-	130419264	7	5	11	1	0	1	0	1	0	0	0	0	7596	1464	51	0	3595	0	IGSF1	23	130419264	Frame_Shift_Del	DEL	T	TCGA-18-3417-01A-01D-1441-08	19323681	130419264	24851296	336	6885										
RPS4Y1	6192	broad.mit.edu	37	chrY	2712180	2712180	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	cttcctctgatcgtcttcctCaggaatagactcaagtatgc	7	12	4	2			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chrY:2712180C>T	uc004fqi.2	+	3	187	c.144C>T	c.(142-144)CTC>CTT	p.L48L		NM_001008	NP_000999	P22090	RS4Y1_HUMAN	ribosomal protein S4, Y-linked 1 Y isoform	48	S4 RNA-binding.				endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|polysome	rRNA binding|structural constituent of ribosome				0						TCGTCTTCCTCAGGAATAGAC	0.448													62	147	---	---	---	---	PASS	T	2712180	T	T	2712180	2	4	11	1	0	0	0	0	0	0	0	1	13646	813	29	2		2	RPS4Y1	24	2712180	Silent	SNP	C	TCGA-18-3417-01A-01D-1441-08		2712180	56661386	337	6886										
KDM5D	8284	broad.mit.edu	37	chrY	21901521	21901521	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0876132930513595	29	0.00795897362762441	1.66705124426292	2.30543202927104	1.39448416751788	0.352370510885821	0.753662828188879	12	gtattccttatcttttacctCattgtcaaacgggtgtgtgt	8	8	3	0			TCGA-18-3417-01A-01D-1441-08	TCGA-18-3417-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	024d8a82-06c5-4b82-9a27-c52bc4fd450a	c75bcb71-2c05-4efd-9e2c-6d6615d2b3b5	g.chrY:21901521C>A	uc004fug.2	-	6	838	c.550G>T	c.(550-552)GAG>TAG	p.E184*	KDM5D_uc011naz.1_Nonsense_Mutation_p.E184*|KDM5D_uc010nwy.2_Nonsense_Mutation_p.E127*|KDM5D_uc011nba.1_Nonsense_Mutation_p.E184*|KDM5D_uc004fuh.2_Intron	NM_004653	NP_004644	Q9BY66	KDM5D_HUMAN	jumonji, AT rich interactive domain 1D isoform	184					chromatin modification|spermatogenesis	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1					Vitamin C(DB00126)	TCTTTTACCTCATTGTCAAAC	0.398													10	15	---	---	---	---	PASS	A	21901521	A	A	21901521	4	1	11	1	0	0	0	0	0	1	0	0	8136	835	29	2	4254	2	KDM5D	24	21901521	Nonsense_Mutation	SNP	C	TCGA-18-3417-01A-01D-1441-08	19189341	21901521	37472045	338	6887										
TAS1R1	80835	broad.mit.edu	37	chr1	6634893	6634893	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	actggagaaccaggccactgGtcaggggatctgcattgctt	13	10	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	6634893	T	T	6634893	3	4	12	1	0	0	0	0	1	0	0	0	15559	1261	44	3	711	3	TAS1R1	1	6634893	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08		6634893	242615728	1	6888										
HNRNPR	10236	broad.mit.edu	37	chr1	23637423	23637423	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atagtcgtgataatcataacCatagtaatcatcatagtaat	5	6	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	23637423	A	A	23637423	3	1	12	1	0	0	0	0	1	0	0	0	7272	594	21	3	479	3	HNRNPR	1	23637423	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	17002530	23637423	225613198	2	6889										
CATSPER4	378807	broad.mit.edu	37	chr1	26524831	26524831	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cattcgtgcccaagcatttcCagaacatacaggttgcgctg	9	12	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	26524831	A	A	26524831	3	1	12	1	0	0	0	0	1	0	0	0	2690	595	21	3	755	3	CATSPER4	1	26524831	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2887408	26524831	222725790	3	6890										
ARID1A	8289	broad.mit.edu	37	chr1	27057765	27057765	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tactcccagcaaccaccgtcCcagacccctcatgcccaacc	4	22	1	1			TCGA-18-3419-01A-01D-0983-08	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	A	27057765	A	A	27057765	2	1	12	1	0	0	0	0	0	0	0	1	913	610	22	3		3	ARID1A	1	27057765	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	532934	27057765	222192856	4	6891										
PUM1	9698	broad.mit.edu	37	chr1	31465245	31465245	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cacacacagtacctgttgttGagaattgtagtcaaaaagtc	8	8	1	1			TCGA-18-3419-01A-01D-0983-08	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	C	31465245	C	C	31465245	3	2	12	1	0	0	0	0	1	0	0	0	12825	1299	45	2	2480	2	PUM1	1	31465245	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	4407480	31465245	217785376	5	6892										
PUM1	9698	broad.mit.edu	37	chr1	31465307	31465307	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccacaggtacctgcgtgcctGaataatcaaactgaagaggc	10	11	1	3			TCGA-18-3419-01A-01D-0983-08	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	C	31465307	C	C	31465307	4	2	12	1	0	0	0	0	0	1	0	0	12825	1294	45	2	2542	2	PUM1	1	31465307	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	62	31465307	217785314	6	6893										
BAI2	576	broad.mit.edu	37	chr1	32221657	32221657	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccccgagtgcaaatcggcctCagcaggtggggctgggcccc	15	15	1	0			TCGA-18-3419-01A-01D-0983-08	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	T	32221657	T	T	32221657	3	4	12	1	0	0	0	0	1	0	0	0	1299	835	29	2	4096	2	BAI2	1	32221657	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	756350	32221657	217028964	7	6894										
PHC2	1912	broad.mit.edu	37	chr1	33820487	33820487	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atgacagctgaagtgtgctgGaacctgcgttgaggggtgtg	17	6	0	3			TCGA-18-3419-01A-01D-0983-08	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	C	33820487	C	C	33820487	3	2	12	1	0	0	0	0	1	0	0	0	11817	1165	41	2	1264	2	PHC2	1	33820487	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1598830	33820487	215430134	8	6895										
DLGAP3	58512	broad.mit.edu	37	chr1	35334288	35334288	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttctccacctctgcccgcagCatcttgatgaaccactcgcc	6	18	3	2			TCGA-18-3419-01A-01D-0983-08	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	G	35334288	G	G	35334288	3	3	12	1	0	0	0	0	1	0	0	0	4561	710	25	4	552	4	DLGAP3	1	35334288	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1513801	35334288	213916333	9	6896										
MACF1	23499	broad.mit.edu	37	chr1	39917952	39917952	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aggacagctccaggaactgaGcactcgctgggacactgtct	12	12	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	39917952	T	T	39917952	3	4	12	1	0	0	0	0	1	0	0	0	9144	971	34	3	20843	3	MACF1	1	39917952	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	4583664	39917952	209332669	10	6897										
SMAP2	64744	broad.mit.edu	37	chr1	40872518	40872518	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	taaagtcagttaacctcgacCagtggactcaagaacagatt	8	9	2	2			TCGA-18-3419-01A-01D-0983-08	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	A	40872518	A	A	40872518	3	1	12	1	0	0	0	0	1	0	0	0	14767	595	21	3	220	3	SMAP2	1	40872518	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	954566	40872518	208378103	11	6898										
SMAP2	64744	broad.mit.edu	37	chr1	40879887	40879887	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agctccccgaaatccacagcGcctgtcatggatttgttggg	11	12	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	40879887	A	A	40879887	2	1	12	1	0	0	0	0	0	0	0	1	14767	1074	38	1		1	SMAP2	1	40879887	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	7369	40879887	208370734	12	6899										
MAST2	23139	broad.mit.edu	37	chr1	46494545	46494545	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttatcctgtatgagttcctgGtgggctgcgtcccttttttt	10	9	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	46494545	T	T	46494545	3	4	12	1	0	0	0	0	1	0	0	0	9325	1261	44	3	2228	3	MAST2	1	46494545	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	5614658	46494545	202756076	13	6900										
LRRC41	10489	broad.mit.edu	37	chr1	46763281	46763281	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcagttcatcccagagtcggCgccagatggcctgagttgag	13	11	2	4			TCGA-18-3419-01A-01D-0983-08	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	G	46763281	G	G	46763281	3	3	12	1	0	0	0	0	1	0	0	0	8999	768	27	4	2159	4	LRRC41	1	46763281	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	268736	46763281	202487340	14	6901										
C1orf87	127795	broad.mit.edu	37	chr1	60503689	60503689	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gctatgagtgccatgactctCagtttttctcaggtctgcag	10	10	3	2			TCGA-18-3419-01A-01D-0983-08	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	T	60503689	T	T	60503689	3	4	12	1	0	0	0	0	1	0	0	0	2064	835	29	2	830	2	C1orf87	1	60503689	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	13740408	60503689	188746932	15	6902										
LEPR	3953	broad.mit.edu	37	chr1	66102686	66102686	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atggaaaacaagatgtgtgaCctaactgtgtaatttcactg	9	6	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	66102686	T	T	66102686	2	4	12	1	0	0	0	0	0	0	0	1	8728	506	18	3		3	LEPR	1	66102686	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	5598997	66102686	183147935	16	6903										
SERBP1	26135	broad.mit.edu	37	chr1	67895690	67895690	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccttctttcttaagcgccacGggcggctgcgtctcctcttt	9	15	4	0			TCGA-18-3419-01A-01D-0983-08	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	A	67895690	A	A	67895690	2	1	12	1	0	0	0	0	0	0	0	1	14075	1103	39	1		1	SERBP1	1	67895690	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	1793004	67895690	181354931	17	6904										
TNNI3K	51086	broad.mit.edu	37	chr1	75009592	75009592	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acttcttttctgatgcaggcTatgtatccgatcccatgagc	8	11	2	2			TCGA-18-3419-01A-01D-0983-08	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	C	75009592	C	C	75009592	3	2	12	1	0	0	0	0	1	0	0	0	16326	1522	53	5	2887	5	TNNI3K	1	75009592	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	7113902	75009592	174241029	18	6905										
RABGGTB	5876	broad.mit.edu	37	chr1	76259838	76259838	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttggaagacttcattggattGatagagagaaactgcgtaat	11	4	1	4			TCGA-18-3419-01A-01D-0983-08	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	T	76259838	T	T	76259838	3	4	12	1	0	0	0	0	1	0	0	0	12968	1290	45	2	805	2	RABGGTB	1	76259838	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1250246	76259838	172990783	19	6906										
ELTD1	64123	broad.mit.edu	37	chr1	79403931	79403931	+	Nonsense_Mutation	SNP	G	A	A													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agaatttctatagacttcttGtagcaaagccacaggttctt							TCGA-18-3419-01A-01D-0983-08	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	A	79403931	A	A	79403931	4	1	12	1	0	0	0	0	0	1	0	0	5084	1386	48	3	1686	3	ELTD1	1	79403931	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	3144093	79403931	169846690	20	6907	227	2								
ELTD1	64123	broad.mit.edu	37	chr1	79403932	79403932	+	Silent	SNP	T	A	A													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaatttctatagacttcttgTagcaaagccacaggttcttt							TCGA-18-3419-01A-01D-0983-08	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	A	79403932	A	A	79403932	2	1	12	1	0	0	0	0	0	0	0	1	5084	1625	57	5		5	ELTD1	1	79403932	Silent	SNP	T	TCGA-18-3419-01A-01D-0983-08	1	79403932	169846689	21	6908	227	2								
COL24A1	255631	broad.mit.edu	37	chr1	86437076	86437076	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcctctatttccaaggagtcCctataaaagcaatataaatg	5	9	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	86437076	A	A	86437076	4	1	12	1	0	0	0	0	0	1	0	0	3683	637	22	3	2939	3	COL24A1	1	86437076	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	7033144	86437076	162813545	22	6909										
BTBD8	284697	broad.mit.edu	37	chr1	92612763	92612763	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cccagaacattgacgtctatActagaatgcctgattattgc	7	10	1	4			TCGA-18-3419-01A-01D-0983-08	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	G	92612763	G	G	92612763	3	3	12	1	0	0	0	0	1	0	0	0	1547	381	14	5	987	5	BTBD8	1	92612763	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	6175687	92612763	156637858	23	6910										
CCDC18	343099	broad.mit.edu	37	chr1	93704969	93704969	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaaaataaagcaatgcacctCtctcaattagatatgatctt	5	8	3	2			TCGA-18-3419-01A-01D-0983-08	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	A	93704969	A	A	93704969	2	1	12	1	0	0	0	0	0	0	0	1	2794	900	32	2		2	CCDC18	1	93704969	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	1092206	93704969	155545652	24	6911										
SLC35A3	23443	broad.mit.edu	37	chr1	100477020	100477020	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	catgtttttcaagtggctttGctggggtttactttgagaaa	11	5	1	1			TCGA-18-3419-01A-01D-0983-08	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	C	100477020	C	C	100477020	3	2	12	1	0	0	0	0	1	0	0	0	14572	1319	46	4	579	4	SLC35A3	1	100477020	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	6772051	100477020	148773601	25	6912										
OLFM3	118427	broad.mit.edu	37	chr1	102270020	102270020	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agtgggagttggtgacatacAgtgtcccacagatcatgaaa	12	7	1	3			TCGA-18-3419-01A-01D-0983-08	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	C	102270020	C	C	102270020	3	2	12	1	0	0	0	0	1	0	0	0	10854	188	7	5	229	5	OLFM3	1	102270020	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	1793000	102270020	146980601	26	6913										
AKNAD1	254268	broad.mit.edu	37	chr1	109394803	109394803	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gagttctggggtttgttcttTtggccaagaattcttattat	10	5	3	1			TCGA-18-3419-01A-01D-0983-08	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	C	109394803	C	C	109394803	3	2	12	1	0	0	0	0	1	0	0	0	464	1850	64	5	2086	5	AKNAD1	1	109394803	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	7124783	109394803	139855818	27	6914										
KCNA3	3738	broad.mit.edu	37	chr1	111215804	111215804	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccgttttgaaaggggtctggGggaaagcgctatggttcata	15	6	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	111215804	A	A	111215804	3	1	12	1	0	0	0	0	1	0	0	0	8004	1232	43	3	103	3	KCNA3	1	111215804	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1821001	111215804	138034817	28	6915										
FAM46C	54855	broad.mit.edu	37	chr1	118166109	118166109	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atcccatctctgagcacttcCaccccaccgtgattggggag	9	15	1	2			TCGA-18-3419-01A-01D-0983-08	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	A	118166109	A	A	118166109	3	1	12	1	0	0	0	0	1	0	0	0	5567	594	21	3	621	3	FAM46C	1	118166109	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	6950305	118166109	131084512	29	6916										
UBAP2L	9898	broad.mit.edu	37	chr1	154221798	154221798	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcccagttcttggagcaattCaagactgcccaagccctggc	9	14	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	154221798	T	T	154221798	2	4	12	1	0	0	0	0	0	0	0	1	16835	825	29	2		2	UBAP2L	1	154221798	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	36055689	154221798	95028823	30	6917										
GBA	2629	broad.mit.edu	37	chr1	155208008	155208008	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttcccattcaccgctccattGgtcttgagccaagtgggtga	10	12	2	2			TCGA-18-3419-01A-01D-0983-08	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	A	155208008	A	A	155208008	2	1	12	1	0	0	0	0	0	0	0	1	6266	1335	47	3		3	GBA	1	155208008	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	986210	155208008	94042613	31	6918										
SMG5	23381	broad.mit.edu	37	chr1	156223290	156223290	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gagcctgttccgacgagcttCctcctgtgcctatgagggaa	12	12	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	156223290	T	T	156223290	3	4	12	1	0	0	0	0	1	0	0	0	14796	864	30	2	622	2	SMG5	1	156223290	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1015282	156223290	93027331	32	6919										
ARHGEF11	9826	broad.mit.edu	37	chr1	156931483	156931483	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccttaccgcatttttctccaGgaaaatattccagatgtctt	5	11	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	156931483	T	T	156931483	3	4	12	1	0	0	0	0	1	0	0	0	896	991	35	3	3575	3	ARHGEF11	1	156931483	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	708193	156931483	92319138	33	6920										
SPTA1	6708	broad.mit.edu	37	chr1	158609764	158609764	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atttgttctctcaagcagatGatcccaatgttccttcagct	6	11	3	2			TCGA-18-3419-01A-01D-0983-08	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	A	158609764	A	A	158609764	3	1	12	1	0	0	0	0	1	0	0	0	15115	1290	45	2	2564	2	SPTA1	1	158609764	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1678281	158609764	90640857	34	6921										
OR6K2	81448	broad.mit.edu	37	chr1	158669494	158669494	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tatcttacttgaggtccctgGtcttacggaaaaaaatatct	7	8	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	158669494	A	A	158669494	3	1	12	1	0	0	0	0	1	0	0	0	11202	1261	44	3	29	3	OR6K2	1	158669494	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	59730	158669494	90581127	35	6922										
OR10J1	26476	broad.mit.edu	37	chr1	159410499	159410499	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctgtgcagggctgttggtggGaagttttcctgaccatgtag	15	7	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	159410499	T	T	159410499	2	4	12	1	0	0	0	0	0	0	0	1	10910	1161	41	2		2	OR10J1	1	159410499	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	741005	159410499	89840122	36	6923										
ASTN1	460	broad.mit.edu	37	chr1	177030384	177030384	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gcgcaccaaagggatatcctCtgtgttccctgagatctcta	9	12	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	177030384	A	A	177030384	4	1	12	1	0	0	0	0	0	1	0	0	1064	922	32	2	3675	2	ASTN1	1	177030384	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	17619885	177030384	72220237	37	6924										
CEP350	9857	broad.mit.edu	37	chr1	180068043	180068043	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agttgttcagtcttaaaaagGagccaaaccacaaaacagat	7	8	2	1			TCGA-18-3419-01A-01D-0983-08	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	C	180068043	C	C	180068043	3	2	12	1	0	0	0	0	1	0	0	0	3254	1175	41	2	9254	2	CEP350	1	180068043	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	3037659	180068043	69182578	38	6925										
TPR	7175	broad.mit.edu	37	chr1	186283765	186283765	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tatgtcagaaattcacctctCtgtctgttaaactgacgacc	6	11	4	2			TCGA-18-3419-01A-01D-0983-08	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	G	186283765	G	G	186283765	3	3	12	1	0	0	0	0	1	0	0	0	16413	912	32	2	67	2	TPR	1	186283765	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	6215722	186283765	62966856	39	6926										
FAM5C	339479	broad.mit.edu	37	chr1	190067764	190067764	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acactggctccaaggtgctgTttttagttaagcaaatctgt	9	8	1	0			TCGA-18-3419-01A-01D-0983-08	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	G	190067764	G	G	190067764	3	3	12	1	0	0	0	0	1	0	0	0	5594	1725	60	5	619	5	FAM5C	1	190067764	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	3783999	190067764	59182857	40	6927										
CFHR5	81494	broad.mit.edu	37	chr1	196952178	196952178	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	actcgcataacatgcacagaAgaaggatggtcaccaacacc	8	12	1	2			TCGA-18-3419-01A-01D-0983-08	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	G	196952178	G	G	196952178	2	3	12	1	0	0	0	0	0	0	0	1	3288	69	3	5		5	CFHR5	1	196952178	Silent	SNP	A	TCGA-18-3419-01A-01D-0983-08	6884414	196952178	52298443	41	6928										
PPFIA4	8497	broad.mit.edu	37	chr1	203013100	203013100	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgcctggtgtcccgccatgaAcggtcactgcggatgactgt	13	12	1	2			TCGA-18-3419-01A-01D-0983-08	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	G	203013100	G	G	203013100	2	3	12	1	0	0	0	0	0	0	0	1	12312	58	2	5		5	PPFIA4	1	203013100	Silent	SNP	A	TCGA-18-3419-01A-01D-0983-08	6060922	203013100	46237521	42	6929										
MDM4	4194	broad.mit.edu	37	chr1	204507405	204507405	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gatatccccacactgcctacCtcagagcataaatgcataca	5	14	1	1			TCGA-18-3419-01A-01D-0983-08	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	A	204507405	A	A	204507405	2	1	12	1	0	0	0	0	0	0	0	1	9414	668	24	3		3	MDM4	1	204507405	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	1494305	204507405	44743216	43	6930										
CNTN2	6900	broad.mit.edu	37	chr1	205039002	205039002	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gacggcttcggctacctgctGtccttccgcaggcagggcag	14	14	0	0			TCGA-18-3419-01A-01D-0983-08	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	A	205039002	A	A	205039002	2	1	12	1	0	0	0	0	0	0	0	1	3641	1364	48	3		3	CNTN2	1	205039002	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	531597	205039002	44211619	44	6931										
CR1	1378	broad.mit.edu	37	chr1	207785045	207785045	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtcagccgcctccagaaatcCtgcatggtgagcatacccta	9	14	1	2			TCGA-18-3419-01A-01D-0983-08	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	A	207785045	A	A	207785045	3	1	12	1	0	0	0	0	1	0	0	0	3840	680	24	3	6469	3	CR1	1	207785045	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2746043	207785045	41465576	45	6932										
ITPKB	3707	broad.mit.edu	37	chr1	226835066	226835066	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcaggatcctgccattggcaGctgccttgaaactccctgga	10	13	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	226835066	T	T	226835066	3	4	12	1	0	0	0	0	1	0	0	0	7918	971	34	3	812	3	ITPKB	1	226835066	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	19050021	226835066	22415555	46	6933										
ABCB10	23456	broad.mit.edu	37	chr1	229667459	229667459	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cccagtcctttcatcagctcCgagtagaaagagctcagacc	8	14	3	3			TCGA-18-3419-01A-01D-0983-08	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	T	229667459	T	T	229667459	2	4	12	1	0	0	0	0	0	0	0	1	41	639	23	1		1	ABCB10	1	229667459	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	2832393	229667459	19583162	47	6934										
RYR2	6262	broad.mit.edu	37	chr1	237729895	237729895	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gccgaagtgtgcagcggcacCggggaaaggttccgaatctt	15	10	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	237729895	A	A	237729895	2	1	12	1	0	0	0	0	0	0	0	1	13769	639	23	1		1	RYR2	1	237729895	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	8062436	237729895	11520726	48	6935										
RYR2	6262	broad.mit.edu	37	chr1	237947823	237947823	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgaagaagcagatgaaaaaaGtaaaaaagatgaccgtgaag	11	3	0	7			TCGA-18-3419-01A-01D-0983-08	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	T	237947823	T	T	237947823	3	4	12	1	0	0	0	0	1	0	0	0	13769	1029	36	3	13169	3	RYR2	1	237947823	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	217928	237947823	11302798	49	6936										
CNST	163882	broad.mit.edu	37	chr1	246811036	246811036	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggttctgagaatgtgctctgTggaaataatcaaatatctga	10	5	4	2			TCGA-18-3419-01A-01D-0983-08	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	C	246811036	C	C	246811036	2	2	12	1	0	0	0	0	0	0	0	1	3634	1702	59	5		5	CNST	1	246811036	Silent	SNP	T	TCGA-18-3419-01A-01D-0983-08	8863213	246811036	2439585	50	6937										
C1orf150	148823	broad.mit.edu	37	chr1	247737551	247737551	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgatgatggctatgagaacaTtgactccctcacaaggaaag	10	8	1	4			TCGA-18-3419-01A-01D-0983-08	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	A	247737551	A	A	247737551	3	1	12	1	0	0	0	0	1	0	0	0	2004	1493	52	5	293	5	C1orf150	1	247737551	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	926515	247737551	1513070	51	6938										
ASAP2	8853	broad.mit.edu	37	chr2	9528581	9528581	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atcttgcagaatgagacttaCggagccctcctgagtggcag	12	10	1	3			TCGA-18-3419-01A-01D-0983-08	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	T	9528581	T	T	9528581	2	4	12	1	0	0	0	0	0	0	0	1	1011	547	19	1		1	ASAP2	2	9528581	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08		9528581	233670792	52	6939										
GREB1	9687	broad.mit.edu	37	chr2	11752682	11752682	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttacttggagctggagggtcTgccttgcatcctgatcttca	11	10	3	1			TCGA-18-3419-01A-01D-0983-08	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	G	11752682	G	G	11752682	3	3	12	1	0	0	0	0	1	0	0	0	6760	1580	55	5	3246	5	GREB1	2	11752682	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	2224101	11752682	231446691	53	6940										
NBAS	51594	broad.mit.edu	37	chr2	15564444	15564444	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gccatttcccctcacctgccGagcataatgctctatttcct	5	16	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	15564444	T	T	15564444	2	4	12	1	0	0	0	0	0	0	0	1	10186	1057	37	2		2	NBAS	2	15564444	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	3811762	15564444	227634929	54	6941										
GEN1	348654	broad.mit.edu	37	chr2	17953948	17953948	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gatgcagattatgtaaaagtGataaatattgtgagccacat	9	4	0	3			TCGA-18-3419-01A-01D-0983-08	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	A	17953948	A	A	17953948	3	1	12	1	0	0	0	0	1	0	0	0	6335	1290	45	2	876	2	GEN1	2	17953948	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2389504	17953948	225245425	55	6942										
C2orf44	80304	broad.mit.edu	37	chr2	24261180	24261180	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aaaattagtaatagttggtcTgtcaagaaacatatcccttt	6	6	2	1			TCGA-18-3419-01A-01D-0983-08	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	G	24261180	G	G	24261180	2	3	12	1	0	0	0	0	0	0	0	1	2168	1567	55	5		5	C2orf44	2	24261180	Silent	SNP	T	TCGA-18-3419-01A-01D-0983-08	6307232	24261180	218938193	56	6943										
EIF2B4	8890	broad.mit.edu	37	chr2	27591276	27591276	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agagttttgtctgctgtactGgggtaggtgagagaagagac	16	4	1	4			TCGA-18-3419-01A-01D-0983-08	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	A	27591276	A	A	27591276	4	1	12	1	0	0	0	0	0	1	0	0	5003	1357	47	3	1050	3	EIF2B4	2	27591276	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	3330096	27591276	215608097	57	6944										
RBKS	64080	broad.mit.edu	37	chr2	28050574	28050574	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caagagcactaatgcagcctCcccagcatctgcagcgctgc	9	16	1	1	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	A	28050574	A	A	28050574	4	1	12	1	0	0	0	0	0	1	0	0	13108	864	30	2	321	2	RBKS	2	28050574	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	459298	28050574	215148799	58	6945										
WDR43	23160	broad.mit.edu	37	chr2	29165192	29165192	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttccaggtaacagcatcagaGaagacaaagggagcaacttc	10	9	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	29165192	T	T	29165192	3	4	12	1	0	0	0	0	1	0	0	0	17292	933	33	2	1811	2	WDR43	2	29165192	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1114618	29165192	214034181	59	6946										
YPEL5	51646	broad.mit.edu	37	chr2	30381650	30381650	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aaggccgcgtgatcctggaaCgtgctctagttcgagagagt	14	9	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	30381650	T	T	30381650	3	4	12	1	0	0	0	0	1	0	0	0	17490	536	19	1	313	1	YPEL5	2	30381650	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1216458	30381650	212817723	60	6947										
BIRC6	57448	broad.mit.edu	37	chr2	32740388	32740388	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tagactcaggtttgccttctCttcttgtgaggagtctggct	11	9	4	2			TCGA-18-3419-01A-01D-0983-08	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	G	32740388	G	G	32740388	3	3	12	1	0	0	0	0	1	0	0	0	1438	913	32	2	11118	2	BIRC6	2	32740388	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2358738	32740388	210458985	61	6948										
STRN	6801	broad.mit.edu	37	chr2	37126694	37126694	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tatcaatgacgcttttctctCttccatcaacatcatcatct	2	13	7	1			TCGA-18-3419-01A-01D-0983-08	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	G	37126694	G	G	37126694	3	3	12	1	0	0	0	0	1	0	0	0	15328	913	32	2	1627	2	STRN	2	37126694	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	4386306	37126694	206072679	62	6949										
PEX13	5194	broad.mit.edu	37	chr2	61258923	61258923	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gatgctaccttttcagctgtCtataacagtttcagggctgt	9	9	3	0			TCGA-18-3419-01A-01D-0983-08	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	G	61258923	G	G	61258923	2	3	12	1	0	0	0	0	0	0	0	1	11741	900	32	2		2	PEX13	2	61258923	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	24132229	61258923	181940450	63	6950										
ZNF638	27332	broad.mit.edu	37	chr2	71577240	71577240	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttcccattcggtctccctttGgtattgtgaaagcatcctgg	9	11	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	71577240	T	T	71577240	3	4	12	1	0	0	0	0	1	0	0	0	18052	1348	47	3	1158	3	ZNF638	2	71577240	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	10318317	71577240	171622133	64	6951										
TET3	200424	broad.mit.edu	37	chr2	74328275	74328275	+	Frame_Shift_Del	DEL	G	-	-													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agaggactaacggtgtgggtGgcagctggggtgtgttctcg							TCGA-18-3419-01A-01D-0983-08	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	---	---	---	---		-	74328275	-	-	74328275	7	5	12	1	0	1	0	1	0	0	0	0	15768	1348	47	0	3989	0	TET3	2	74328275	Frame_Shift_Del	DEL	G	TCGA-18-3419-01A-01D-0983-08	2751035	74328275	168871098	65	6952										
IMMT	10989	broad.mit.edu	37	chr2	86371396	86371396	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aaatcttcctaaacctcactCtggctgcacctgagtggttc	7	13	3	1			TCGA-18-3419-01A-01D-0983-08	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	G	86371396	G	G	86371396	3	3	12	1	0	0	0	0	1	0	0	0	7718	922	32	2	8	2	IMMT	2	86371396	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	12043121	86371396	156827977	66	6953										
IMMT	10989	broad.mit.edu	37	chr2	86371740	86371740	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	catcaatcattgctacccttCgggccagtttttgaacagca	7	12	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	86371740	T	T	86371740	3	4	12	1	0	0	0	0	1	0	0	0	7718	884	31	2	352	2	IMMT	2	86371740	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	344	86371740	156827633	67	6954										
ITPRIPL1	150771	broad.mit.edu	37	chr2	96993213	96993213	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtgagaaactcctaggggacGtgctgtgcctggtgcaccac	14	11	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	96993213	A	A	96993213	3	1	12	1	0	0	0	0	1	0	0	0	7924	1145	40	1	884	1	ITPRIPL1	2	96993213	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	10621473	96993213	146206160	68	6955										
CKAP2L	150468	broad.mit.edu	37	chr2	113509924	113509924	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttgtgctttcttttcttcctCttctttttcaatgctcttcc	3	12	6	0			TCGA-18-3419-01A-01D-0983-08	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	A	113509924	A	A	113509924	4	1	12	1	0	0	0	0	0	1	0	0	3443	922	32	2	735	2	CKAP2L	2	113509924	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	16516711	113509924	129689449	69	6956										
PCDP1	200373	broad.mit.edu	37	chr2	120388460	120388460	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tagccatgtctctagattatGatcctctgtatgtttttgta	7	7	2	2			TCGA-18-3419-01A-01D-0983-08	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	A	120388460	A	A	120388460	3	1	12	1	0	0	0	0	1	0	0	0	11572	1290	45	2	1141	2	PCDP1	2	120388460	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	6878536	120388460	122810913	70	6957										
CFC1B	653275	broad.mit.edu	37	chr2	131356251	131356251	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggagtaggggagcggctcctCcggcccccagccctcggcgc	16	17	0	0			TCGA-18-3419-01A-01D-0983-08	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	A	131356251	A	A	131356251	4	1	12	1	0	0	0	0	0	1	0	0	3280	864	30	2	1172	2	CFC1B	2	131356251	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	10967791	131356251	111843122	71	6958										
ZRANB3	84083	broad.mit.edu	37	chr2	135975078	135975078	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttgttgctttgtgatctcttCcaaagcaagaattgggctac	9	8	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	135975078	T	T	135975078	3	4	12	1	0	0	0	0	1	0	0	0	18221	864	30	2	807	2	ZRANB3	2	135975078	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	4618827	135975078	107224295	72	6959										
LRP1B	53353	broad.mit.edu	37	chr2	141739765	141739765	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atctgtctggtcaccacagtCgtcttccctgtcacacagcc	7	16	5	0			TCGA-18-3419-01A-01D-0983-08	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	A	141739765	A	A	141739765	3	1	12	1	0	0	0	0	1	0	0	0	8955	884	31	2	11244	2	LRP1B	2	141739765	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	5764687	141739765	101459608	73	6960										
NR4A2	4929	broad.mit.edu	37	chr2	157182288	157182288	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agtgtccaggaaaagtttgtCaattattgctggcggtggca	13	6	1	0			TCGA-18-3419-01A-01D-0983-08	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	G	157182288	G	G	157182288	3	3	12	1	0	0	0	0	1	0	0	0	10633	826	29	2	35	2	NR4A2	2	157182288	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	15442523	157182288	86017085	74	6961										
TTN	7273	broad.mit.edu	37	chr2	179593231	179593231	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gggtgaagatacaaacctagCactcttaagtaggcatcaca	9	9	2	2			TCGA-18-3419-01A-01D-0983-08	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	T	179593231	T	T	179593231	2	4	12	1	0	0	0	0	0	0	0	1	16732	697	25	3		3	TTN	2	179593231	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	22410943	179593231	63606142	75	6962										
TTN	7273	broad.mit.edu	37	chr2	179634819	179634819	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gttttgctttgcattccaatTgcccgaccacagctgtgtat	8	11	0	0			TCGA-18-3419-01A-01D-0983-08	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	A	179634819	A	A	179634819	3	1	12	1	0	0	0	0	1	0	0	0	16732	1812	63	5	102687	5	TTN	2	179634819	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	41588	179634819	63564554	76	6963										
TTN	7273	broad.mit.edu	37	chr2	179647559	179647559	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cagccagatagcaggatgtgCtgacggttccagcctcattt	11	11	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	179647559	T	T	179647559	3	4	12	1	0	0	0	0	1	0	0	0	16732	797	28	3	108294	3	TTN	2	179647559	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	12740	179647559	63551814	77	6964										
MFSD6	54842	broad.mit.edu	37	chr2	191353382	191353382	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cctgctcttcttcctctccaGgagtgacacacgcggccatc	8	17	3	1			TCGA-18-3419-01A-01D-0983-08	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	T	191353382	T	T	191353382	5	4	12	1	0	0	0	0	0	0	1	0	9535	1014	35	3	1640	3	MFSD6	2	191353382	Splice_Site	SNP	G	TCGA-18-3419-01A-01D-0983-08	11705823	191353382	51845991	78	6965										
MAP2	4133	broad.mit.edu	37	chr2	210559200	210559200	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aagcaaagaggaagaacagaTagagaaagtaaaagctactg	11	4	0	4			TCGA-18-3419-01A-01D-0983-08	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	C	210559200	C	C	210559200	3	2	12	1	0	0	0	0	1	0	0	0	9235	1406	49	5	2320	5	MAP2	2	210559200	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	19205818	210559200	32640173	79	6966										
CPS1	1373	broad.mit.edu	37	chr2	211469956	211469956	+	Missense_Mutation	SNP	T	A	A													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	catggaaaatgttgatgccaTgggtgttcacacaggtaggc							TCGA-18-3419-01A-01D-0983-08	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	A	211469956	A	A	211469956	3	1	12	1	0	0	0	0	1	0	0	0	3823	1464	51	5	2055	5	CPS1	2	211469956	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	910756	211469956	31729417	80	6967	228	2								
CPS1	1373	broad.mit.edu	37	chr2	211469957	211469957	+	Missense_Mutation	SNP	G	T	T													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atggaaaatgttgatgccatGggtgttcacacaggtaggca							TCGA-18-3419-01A-01D-0983-08	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	T	211469957	T	T	211469957	3	4	12	1	0	0	0	0	1	0	0	0	3823	1348	47	3	2056	3	CPS1	2	211469957	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1	211469957	31729416	81	6968	228	2								
CXCR2	3579	broad.mit.edu	37	chr2	218999763	218999763	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cttatacagcagggtcggccGctccgtcactgatgtctacc	10	14	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	218999763	A	A	218999763	3	1	12	1	0	0	0	0	1	0	0	0	4091	1087	38	1	241	1	CXCR2	2	218999763	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	7529806	218999763	24199610	82	6969										
TTLL4	9654	broad.mit.edu	37	chr2	219603028	219603028	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaagatcccatctccactctCttcctcctataagcccatgc	4	17	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	219603028	A	A	219603028	3	1	12	1	0	0	0	0	1	0	0	0	16726	913	32	2	631	2	TTLL4	2	219603028	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	603265	219603028	23596345	83	6970										
EPHA4	2043	broad.mit.edu	37	chr2	222428692	222428692	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tagaacacacggactgatacCagggcgatgcaggcccccac	11	14	0	2			TCGA-18-3419-01A-01D-0983-08	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	A	222428692	A	A	222428692	2	1	12	1	0	0	0	0	0	0	0	1	5169	581	21	3		3	EPHA4	2	222428692	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	2825664	222428692	20770681	84	6971										
PAX3	5077	broad.mit.edu	37	chr2	223086078	223086078	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tggccccagcttgcttcctcCatcttgcacggcggttgcta	10	15	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	223086078	A	A	223086078	3	1	12	1	0	0	0	0	1	0	0	0	11480	595	21	3	744	3	PAX3	2	223086078	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	657386	223086078	20113295	85	6972										
COL4A3	1285	broad.mit.edu	37	chr2	228135633	228135633	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atggaattcctggaactccgGgagtgaaaggattaccagga	13	7	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	228135633	T	T	228135633	4	4	12	1	0	0	0	0	0	1	0	0	3691	1233	43	3	1821	3	COL4A3	2	228135633	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	5049555	228135633	15063740	86	6973										
TRIP12	9320	broad.mit.edu	37	chr2	230638891	230638891	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agttcgatattgggaaacccTggcagagtgaaatccagtcc	11	9	0	2			TCGA-18-3419-01A-01D-0983-08	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	A	230638891	A	A	230638891	2	1	12	1	0	0	0	0	0	0	0	1	16553	1567	55	5		5	TRIP12	2	230638891	Silent	SNP	T	TCGA-18-3419-01A-01D-0983-08	2503258	230638891	12560482	87	6974										
CHRNG	1146	broad.mit.edu	37	chr2	233404757	233404757	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gcagacctgatgcaaaactaCgaccccaacctgcggcccgc	9	17	0	2			TCGA-18-3419-01A-01D-0983-08	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	A	233404757	A	A	233404757	4	1	12	1	0	0	0	0	0	1	0	0	3396	547	19	1	117	1	CHRNG	2	233404757	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2765866	233404757	9794616	88	6975										
TATDN2	9797	broad.mit.edu	37	chr3	10311830	10311830	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgcagcataaagatagggagGtggtgatggagcacccctct	14	8	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	10311830	T	T	10311830	3	4	12	1	0	0	0	0	1	0	0	0	15589	1261	44	3	974	3	TATDN2	3	10311830	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08		10311830	187710600	89	6976										
SYN2	6854	broad.mit.edu	37	chr3	12224840	12224840	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acttaaggatccggactcaaGcaagaccccacctcagcggc	9	15	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	12224840	T	T	12224840	3	4	12	1	0	0	0	0	1	0	0	0	15438	971	34	3	1380	3	SYN2	3	12224840	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1913010	12224840	185797590	90	6977										
NUP210	23225	broad.mit.edu	37	chr3	13395089	13395089	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggcagagctgaggtgggactCctggtagccagtggcagtgg	19	8	0	2			TCGA-18-3419-01A-01D-0983-08	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	A	13395089	A	A	13395089	4	1	12	1	0	0	0	0	0	1	0	0	10760	864	30	2	3162	2	NUP210	3	13395089	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1170249	13395089	184627341	91	6978										
ITGA9	3680	broad.mit.edu	37	chr3	37778403	37778403	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctttttcactagtatgaattCagcgtgatctttgatacaag	7	7	3	3			TCGA-18-3419-01A-01D-0983-08	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	T	37778403	T	T	37778403	2	4	12	1	0	0	0	0	0	0	0	1	7883	825	29	2		2	ITGA9	3	37778403	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	24383314	37778403	160244027	92	6979										
ZNF197	10168	broad.mit.edu	37	chr3	44670938	44670938	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgagcatcctgcctggggagAttcggacctgggtacagctc	14	11	0	2			TCGA-18-3419-01A-01D-0983-08	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	T	44670938	T	T	44670938	3	4	12	1	0	0	0	0	1	0	0	0	17756	333	12	5	294	5	ZNF197	3	44670938	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	6892535	44670938	153351492	93	6980										
PTPN23	25930	broad.mit.edu	37	chr3	47452148	47452148	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cagccccaaggattgggcccCagccccagccccatcctcag	9	20	1	0			TCGA-18-3419-01A-01D-0983-08	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	T	47452148	T	T	47452148	4	4	12	1	0	0	0	0	0	1	0	0	12788	595	21	3	2938	3	PTPN23	3	47452148	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2781210	47452148	150570282	94	6981										
ARIH2	10425	broad.mit.edu	37	chr3	49006060	49006060	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agaattgagagagaaatacaGgcgctacctcttcagggact	11	8	2	3			TCGA-18-3419-01A-01D-0983-08	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	T	49006060	T	T	49006060	3	4	12	1	0	0	0	0	1	0	0	0	924	1000	35	3	650	3	ARIH2	3	49006060	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1553912	49006060	149016370	95	6982										
MST1R	4486	broad.mit.edu	37	chr3	49935084	49935084	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caagggctccagttcacactCaaactcctctacaaagtctt	5	14	4	0			TCGA-18-3419-01A-01D-0983-08	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	G	49935084	G	G	49935084	3	3	12	1	0	0	0	0	1	0	0	0	9891	835	29	2	2347	2	MST1R	3	49935084	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	929024	49935084	148087346	96	6983										
SFMBT1	51460	broad.mit.edu	37	chr3	52966255	52966255	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aatccaagtgcttaaagagtCctggaaagcttgacattcta	8	8	1	2			TCGA-18-3419-01A-01D-0983-08	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	A	52966255	A	A	52966255	3	1	12	1	0	0	0	0	1	0	0	0	14157	855	30	2	2141	2	SFMBT1	3	52966255	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	3031171	52966255	145056175	97	6984										
ARHGEF3	50650	broad.mit.edu	37	chr3	56779335	56779335	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aggcggcttcttggaatatcGaggaaattccagagatctag	12	7	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	56779335	T	T	56779335	2	4	12	1	0	0	0	0	0	0	0	1	904	1045	37	2		2	ARHGEF3	3	56779335	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	3813080	56779335	141243095	98	6985										
PTPRG	5793	broad.mit.edu	37	chr3	62216897	62216897	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cttttgttttttgtccatttAgagggtgtaacaaaataaag	8	4	0	1			TCGA-18-3419-01A-01D-0983-08	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	G	62216897	G	G	62216897	5	3	12	1	0	0	0	0	0	0	1	0	12802	434	15	5	2341	5	PTPRG	3	62216897	Splice_Site	SNP	A	TCGA-18-3419-01A-01D-0983-08	5437562	62216897	135805533	99	6986										
PRICKLE2	166336	broad.mit.edu	37	chr3	64085478	64085478	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cgctccggaactgcatggacGagttaagagtgcccatgttg	13	10	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	64085478	T	T	64085478	4	4	12	1	0	0	0	0	0	1	0	0	12487	1059	37	2	754	2	PRICKLE2	3	64085478	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1868581	64085478	133936952	100	6987										
LRIG1	26018	broad.mit.edu	37	chr3	66430866	66430866	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgaagatgcaggctgtagctCtgtggagtccgggtgataca	15	7	1	3			TCGA-18-3419-01A-01D-0983-08	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	T	66430866	T	T	66430866	3	4	12	1	0	0	0	0	1	0	0	0	8944	922	32	2	182	2	LRIG1	3	66430866	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2345388	66430866	131591564	101	6988										
FOXP1	27086	broad.mit.edu	37	chr3	71015079	71015079	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctgcctggactgctgtcactCtcgttgctgttggtatgctc	11	12	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	71015079	T	T	71015079	2	4	12	1	0	0	0	0	0	0	0	1	6026	912	32	2		2	FOXP1	3	71015079	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	4584213	71015079	127007351	102	6989										
ARL6	84100	broad.mit.edu	37	chr3	97506911	97506911	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atgcagtgacatctgtaaaaGtgtctcagttgctgtgttta	10	6	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	97506911	T	T	97506911	3	4	12	1	0	0	0	0	1	0	0	0	941	1029	36	3	445	3	ARL6	3	97506911	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	26491832	97506911	100515519	103	6990										
OR5H15	403274	broad.mit.edu	37	chr3	97887902	97887902	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tctcttggcaacaatggcatAtgatcgctatgtagccatat	8	9	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	97887902	T	T	97887902	3	4	12	1	0	0	0	0	1	0	0	0	11161	449	16	5	361	5	OR5H15	3	97887902	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	380991	97887902	100134528	104	6991										
LNP1	348801	broad.mit.edu	37	chr3	100170718	100170718	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctggaatcaaaaggaagatcCcattccaaaattgagaaatt	7	7	1	2			TCGA-18-3419-01A-01D-0983-08	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	A	100170718	A	A	100170718	2	1	12	1	0	0	0	0	0	0	0	1	8863	610	22	3		3	LNP1	3	100170718	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	2282816	100170718	97851712	105	6992										
DPPA4	55211	broad.mit.edu	37	chr3	109047782	109047782	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tattgtcttcaaggtgcgggGgtggaaaattggaggcagga	17	4	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	109047782	T	T	109047782	3	4	12	1	0	0	0	0	1	0	0	0	4736	1232	43	3	89	3	DPPA4	3	109047782	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	8877064	109047782	88974648	106	6993										
WDR52	55779	broad.mit.edu	37	chr3	113122773	113122773	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctggttaatgggaccattgtGacatgacttgcttgtccctc	10	10	0	2			TCGA-18-3419-01A-01D-0983-08	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	A	113122773	A	A	113122773	3	1	12	1	0	0	0	0	1	0	0	0	17301	1290	45	2	4591	2	WDR52	3	113122773	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	4074991	113122773	84899657	107	6994										
ARHGAP31	57514	broad.mit.edu	37	chr3	119134028	119134028	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agcacttcgcctggagagcaCcccgcaaagttacagctaaa	9	13	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	119134028	T	T	119134028	2	4	12	1	0	0	0	0	0	0	0	1	880	506	18	3		3	ARHGAP31	3	119134028	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	6011255	119134028	78888402	108	6995										
KALRN	8997	broad.mit.edu	37	chr3	124397067	124397067	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcatggcatactctacgcatGagaaagcgggcggaagtgga	14	8	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	124397067	T	T	124397067	3	4	12	1	0	0	0	0	1	0	0	0	7975	1290	45	2	7578	2	KALRN	3	124397067	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	5263039	124397067	73625363	109	6996										
CCDC37	348807	broad.mit.edu	37	chr3	126132997	126132997	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggatttcttcttgctcagagAtcaggagcggaataaggctc	12	8	4	1			TCGA-18-3419-01A-01D-0983-08	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	G	126132997	G	G	126132997	3	3	12	1	0	0	0	0	1	0	0	0	2809	333	12	5	210	5	CCDC37	3	126132997	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	1735930	126132997	71889433	110	6997										
RAB43	339122	broad.mit.edu	37	chr3	128852967	128852967	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctcttcctcctcttcctcctCctcttccttttctcctcttg	1	20	5	0			TCGA-18-3419-01A-01D-0983-08	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	T	128852967	T	T	128852967	3	4	12	1	0	0	0	0	1	0	0	0	12945	864	30	2		2	RAB43	3	128852967	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2719970	128852967	69169463	111	6998										
MED12L	116931	broad.mit.edu	37	chr3	150876568	150876568	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gatgatcttcttaaactcttGctaccactaatgctgcaggt	7	10	3	1			TCGA-18-3419-01A-01D-0983-08	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	T	150876568	T	T	150876568	3	4	12	1	0	0	0	0	1	0	0	0	9429	1310	46	3	841	3	MED12L	3	150876568	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	22023601	150876568	47145862	112	6999										
SI	6476	broad.mit.edu	37	chr3	164773014	164773014	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atcatattgcacttcttgatGgaaaatactgcattcatttg	6	7	3	1			TCGA-18-3419-01A-01D-0983-08	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	T	164773014	T	T	164773014	3	4	12	1	0	0	0	0	1	0	0	0	14297	1348	47	3	4147	3	SI	3	164773014	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	13896446	164773014	33249416	113	7000										
GHSR	2693	broad.mit.edu	37	chr3	172163133	172163133	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtagaagaggacaaaggacaCgaggttgcagtactggctga	15	6	0	3			TCGA-18-3419-01A-01D-0983-08	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	T	172163133	T	T	172163133	3	4	12	1	0	0	0	0	1	0	0	0	6375	536	19	1	185	1	GHSR	3	172163133	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	7390119	172163133	25859297	114	7001										
YEATS2	55689	broad.mit.edu	37	chr3	183476656	183476656	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gccttgcttatcaggaagtcCtacaaacaagatctccacgg	8	12	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	183476656	A	A	183476656	3	1	12	1	0	0	0	0	1	0	0	0	17469	681	24	3	1605	3	YEATS2	3	183476656	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	11313523	183476656	14545774	115	7002										
HTR3C	170572	broad.mit.edu	37	chr3	183776363	183776363	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggcaacaacctatatgaccaGatcatgttttatgtgagtcc	8	9	1	3			TCGA-18-3419-01A-01D-0983-08	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	C	183776363	C	C	183776363	3	2	12	1	0	0	0	0	1	0	0	0	7446	933	33	2	730	2	HTR3C	3	183776363	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	299707	183776363	14246067	116	7003										
ATP13A4	84239	broad.mit.edu	37	chr3	193207607	193207607	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccttatagtcttcactaaacCacaaacagacactgaagagt	5	11	2	3			TCGA-18-3419-01A-01D-0983-08	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	A	193207607	A	A	193207607	3	1	12	1	0	0	0	0	1	0	0	0	1126	595	21	3	3036	3	ATP13A4	3	193207607	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	9431244	193207607	4814823	117	7004										
HAUS3	79441	broad.mit.edu	37	chr4	2241768	2241768	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcatttcttatgcttaccttGctggttaggctgtgaagact	9	8	2	2			TCGA-18-3419-01A-01D-0983-08	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	A	2241768	A	A	2241768	2	1	12	1	0	0	0	0	0	0	0	1	6967	1310	46	3		3	HAUS3	4	2241768	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08		2241768	188912508	118	7005										
FAM193A	8603	broad.mit.edu	37	chr4	2673998	2673998	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	accctgcactgcacctttacCctcacatccatggacatgtg	6	16	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	2673998	A	A	2673998	3	1	12	1	0	0	0	0	1	0	0	0	5524	623	22	3	1391	3	FAM193A	4	2673998	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	432230	2673998	188480278	119	7006										
STK32B	55351	broad.mit.edu	37	chr4	5448438	5448438	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgtacatggacagaggccccGgatactcgtaccctgtcgac	11	13	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	5448438	A	A	5448438	3	1	12	1	0	0	0	0	1	0	0	0	15297	1117	39	1	627	1	STK32B	4	5448438	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2774440	5448438	185705838	120	7007										
KCNIP4	80333	broad.mit.edu	37	chr4	20751284	20751284	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgaaaataatccagagcttaCctcgaaactcacagctccat	5	12	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	20751284	T	T	20751284	5	4	12	1	0	0	0	0	0	0	1	0	8042	521	18	3	342	3	KCNIP4	4	20751284	Splice_Site	SNP	C	TCGA-18-3419-01A-01D-0983-08	15302846	20751284	170402992	121	7008										
GPR125	166647	broad.mit.edu	37	chr4	22449131	22449131	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaaaacaaattccccgaaagGtttctgaaagacagaaaaca	7	8	1	3			TCGA-18-3419-01A-01D-0983-08	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	C	22449131	C	C	22449131	3	2	12	1	0	0	0	0	1	0	0	0	6639	1252	44	4	3548	4	GPR125	4	22449131	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1697847	22449131	168705145	122	7009										
PCDH7	5099	broad.mit.edu	37	chr4	30724912	30724912	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccccgtgctgcagggcagcaCtacggtgattgtgcaggtgg	16	11	0	1			TCGA-18-3419-01A-01D-0983-08	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	G	30724912	G	G	30724912	3	3	12	1	0	0	0	0	1	0	0	0	11516	565	20	4	1870	4	PCDH7	4	30724912	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	8275781	30724912	160429364	123	7010										
CORIN	10699	broad.mit.edu	37	chr4	47597740	47597740	+	Nonstop_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctctgatcatccttataattAgtttaggagaaaggtctgga	9	6	3	2			TCGA-18-3419-01A-01D-0983-08	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	T	47597740	T	T	47597740	4	4	12	1	0	0	0	0	0	0	0	0	3752	433	15	5	5	5	CORIN	4	47597740	Nonstop_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	16872828	47597740	143556536	124	7011										
KDR	3791	broad.mit.edu	37	chr4	55970835	55970835	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	actgtgagctgcctgaccacGcaatgtcttttcttggtctt	9	11	3	2			TCGA-18-3419-01A-01D-0983-08	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	T	55970835	T	T	55970835	4	4	12	1	0	0	0	0	0	1	0	0	8139	1079	38	1	2180	1	KDR	4	55970835	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	8373095	55970835	135183441	125	7012										
CLOCK	9575	broad.mit.edu	37	chr4	56308750	56308750	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgtaagagtgctctgtgtctGactgggtagagatgtttgct	14	5	2	3			TCGA-18-3419-01A-01D-0983-08	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	C	56308750	C	C	56308750	3	2	12	1	0	0	0	0	1	0	0	0	3549	1299	45	2	598	2	CLOCK	4	56308750	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	337915	56308750	134845526	126	7013										
C4orf35	85438	broad.mit.edu	37	chr4	71201572	71201572	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	actgtgtttgaactcactacCtctgctgaaaaagacaaaga	7	9	2	4			TCGA-18-3419-01A-01D-0983-08	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	A	71201572	A	A	71201572	2	1	12	1	0	0	0	0	0	0	0	1	2265	668	24	3		3	C4orf35	4	71201572	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	14892822	71201572	119952704	127	7014										
PARM1	25849	broad.mit.edu	37	chr4	75938085	75938085	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctcatccctatcaacctcacCacctgaggtcttttctgcct	4	17	5	1			TCGA-18-3419-01A-01D-0983-08	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	A	75938085	A	A	75938085	3	1	12	1	0	0	0	0	1	0	0	0	11452	594	21	3	500	3	PARM1	4	75938085	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	4736513	75938085	115216191	128	7015										
G3BP2	9908	broad.mit.edu	37	chr4	76570869	76570869	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tccacatttaaacgtacttcCcctcgaaacataatcggctt	4	13	0	0			TCGA-18-3419-01A-01D-0983-08	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	A	76570869	A	A	76570869	2	1	12	1	0	0	0	0	0	0	0	1	6142	610	22	3		3	G3BP2	4	76570869	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	632784	76570869	114583407	129	7016										
PLA2G12A	81579	broad.mit.edu	37	chr4	110635635	110635635	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acactgtcaaacaagagctcCactgttgtttcacatgctgc	7	12	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	110635635	A	A	110635635	2	1	12	1	0	0	0	0	0	0	0	1	11990	581	21	3		3	PLA2G12A	4	110635635	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	34064766	110635635	80518641	130	7017										
CAMK2D	817	broad.mit.edu	37	chr4	114378622	114378622	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctgccatccatgtactgtgtGagcctaatatatgctatgca	8	10	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	114378622	A	A	114378622	2	1	12	1	0	0	0	0	0	0	0	1	2601	1277	45	2		2	CAMK2D	4	114378622	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	3742987	114378622	76775654	131	7018										
GAB1	2549	broad.mit.edu	37	chr4	144387363	144387363	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gacttagattctgggaaatcCacaccaccacgtaaggtgag	10	10	1	2			TCGA-18-3419-01A-01D-0983-08	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	A	144387363	A	A	144387363	2	1	12	1	0	0	0	0	0	0	0	1	6148	581	21	3		3	GAB1	4	144387363	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	30008741	144387363	46766913	132	7019										
PRMT10	90826	broad.mit.edu	37	chr4	148605110	148605110	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cagcgccacccccggcgtctCggcgggacctgggccgcgag	16	18	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	148605110	A	A	148605110	3	1	12	1	0	0	0	0	1	0	0	0	12536	884	31	2	2556	2	PRMT10	4	148605110	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	4217747	148605110	42549166	133	7020										
SH3D19	152503	broad.mit.edu	37	chr4	152095916	152095916	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctgatgagatcgatgtccacCaagggcttgctctgcagaac	11	11	1	3			TCGA-18-3419-01A-01D-0983-08	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	A	152095916	A	A	152095916	3	1	12	1	0	0	0	0	1	0	0	0	14249	593	21	3	1832	3	SH3D19	4	152095916	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	3490806	152095916	39058360	134	7021										
FAM198B	51313	broad.mit.edu	37	chr4	159052033	159052033	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	accaaatgccttgggtcatgCtttcgctggataatgtgtgc	11	9	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	159052033	A	A	159052033	3	1	12	1	0	0	0	0	1	0	0	0	5529	796	28	3	310	3	FAM198B	4	159052033	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	6956117	159052033	32102243	135	7022										
C4orf46	201725	broad.mit.edu	37	chr4	159592877	159592877	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cgcccggggaagatgctgcaGaggcgtctgaagaggaggga	19	8	1	4			TCGA-18-3419-01A-01D-0983-08	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	C	159592877	C	C	159592877	3	2	12	1	0	0	0	0	1	0	0	0	2274	942	33	2	272	2	C4orf46	4	159592877	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	540844	159592877	31561399	136	7023										
C4orf39	152756	broad.mit.edu	37	chr4	165878325	165878325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acagaccttatacgctgaccGgcggccgccatggcagtgtc	12	14	0	2			TCGA-18-3419-01A-01D-0983-08	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	T	165878325	T	T	165878325	3	4	12	1	0	0	0	0	1	0	0	0	2268	1116	39	1	153	1	C4orf39	4	165878325	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	6285448	165878325	25275951	137	7024										
KIAA1712	80817	broad.mit.edu	37	chr4	175231093	175231093	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctgacttcgatagagaaaagGttagactgtttggaacaaaa	10	5	0	3			TCGA-18-3419-01A-01D-0983-08	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	T	175231093	T	T	175231093	3	4	12	1	0	0	0	0	1	0	0	0	8253	1252	44	3	793	3	KIAA1712	4	175231093	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	9352768	175231093	15923183	138	7025										
ANKH	56172	broad.mit.edu	37	chr5	14711350	14711350	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cacgatgtctgtcacctcctCtgtcggaggcatgtctgtca	10	13	5	0			TCGA-18-3419-01A-01D-0983-08	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	A	14711350	A	A	14711350	4	1	12	1	0	0	0	0	0	1	0	0	627	922	32	2	47	2	ANKH	5	14711350	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08		14711350	166203910	139	7026										
MAST4	375449	broad.mit.edu	37	chr5	66460893	66460893	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccgctcccacctgaagcttcCccctcaagggagaagccagg	10	17	1	2			TCGA-18-3419-01A-01D-0983-08	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	A	66460893	A	A	66460893	2	1	12	1	0	0	0	0	0	0	0	1	9327	610	22	3		3	MAST4	5	66460893	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	51749543	66460893	114454367	140	7027										
FER	2241	broad.mit.edu	37	chr5	108290449	108290449	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gctttctgatatgatctccaTcagtgagaagcctttggcag	10	9	3	3			TCGA-18-3419-01A-01D-0983-08	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	G	108290449	G	G	108290449	3	3	12	1	0	0	0	0	1	0	0	0	5813	1435	50	5	1387	5	FER	5	108290449	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	41829556	108290449	72624811	141	7028										
PJA2	9867	broad.mit.edu	37	chr5	108714608	108714608	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgtattgcctaatgattcctGgtatctactaccttccacga	6	11	1	1			TCGA-18-3419-01A-01D-0983-08	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	A	108714608	A	A	108714608	4	1	12	1	0	0	0	0	0	1	0	0	11962	1357	47	3	1574	3	PJA2	5	108714608	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	424159	108714608	72200652	142	7029										
YTHDC2	64848	broad.mit.edu	37	chr5	112899572	112899572	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttagacaatagatgcaatggAtacatgggaagatctgactg	11	5	1	4			TCGA-18-3419-01A-01D-0983-08	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	G	112899572	G	G	112899572	3	3	12	1	0	0	0	0	1	0	0	0	17494	333	12	5	2537	5	YTHDC2	5	112899572	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	4184964	112899572	68015688	143	7030										
AQPEP	206338	broad.mit.edu	37	chr5	115351326	115351326	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgaaaatgcacttttgcagaTatatggagtatgccatcagc	9	7	1	2			TCGA-18-3419-01A-01D-0983-08	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	C	115351326	C	C	115351326	3	2	12	1	0	0	0	0	1	0	0	0	834	1420	49	5	2690	5	AQPEP	5	115351326	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	2451754	115351326	65563934	144	7031										
FBN2	2201	broad.mit.edu	37	chr5	127597470	127597470	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atacttctcttctgcctgctGtctttcttagaatagccgtt	6	11	4	1			TCGA-18-3419-01A-01D-0983-08	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	T	127597470	T	T	127597470	3	4	12	1	0	0	0	0	1	0	0	0	5703	1368	48	3	424	3	FBN2	5	127597470	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	12246144	127597470	53317790	145	7032										
TGFBI	7045	broad.mit.edu	37	chr5	135388688	135388688	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccctggagggcacgacactgGaggtgggctgcagcggggac	19	11	0	0			TCGA-18-3419-01A-01D-0983-08	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	A	135388688	A	A	135388688	3	1	12	1	0	0	0	0	1	0	0	0	15817	1175	41	2	1036	2	TGFBI	5	135388688	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	7791218	135388688	45526572	146	7033										
KDM3B	51780	broad.mit.edu	37	chr5	137761207	137761207	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtagacttggtgaactgcagGaactgtgctataatttccga	11	7	0	2			TCGA-18-3419-01A-01D-0983-08	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	C	137761207	C	C	137761207	3	2	12	1	0	0	0	0	1	0	0	0	8127	1165	41	2	4413	2	KDM3B	5	137761207	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2372519	137761207	43154053	147	7034										
CYFIP2	26999	broad.mit.edu	37	chr5	156731318	156731318	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acattgtcaacatctgtgtgGattactacgagaacaagatg	9	7	2	2			TCGA-18-3419-01A-01D-0983-08	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	T	156731318	T	T	156731318	3	4	12	1	0	0	0	0	1	0	0	0	4138	1174	41	2	765	2	CYFIP2	5	156731318	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	18970111	156731318	24183942	148	7035										
ADRA1B	147	broad.mit.edu	37	chr5	159398990	159398990	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccatcatctacccatgctccAgcaaggagttcaagcgcgct	8	15	3	0			TCGA-18-3419-01A-01D-0983-08	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	C	159398990	C	C	159398990	3	2	12	1	0	0	0	0	1	0	0	0	335	188	7	5	1060	5	ADRA1B	5	159398990	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	2667672	159398990	21516270	149	7036										
GABRG2	2566	broad.mit.edu	37	chr5	161495049	161495049	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cacaggaagctcagtctactCgactcctgtattttcacaga	7	12	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	161495049	A	A	161495049	4	1	12	1	0	0	0	0	0	1	0	0	6172	893	31	2	46	2	GABRG2	5	161495049	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2096059	161495049	19420211	150	7037										
PANK3	79646	broad.mit.edu	37	chr5	167995926	167995926	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aacttcttcttgctcttcctCtgctgtgatatcaataggtt	6	10	5	1	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	A	167995926	A	A	167995926	4	1	12	1	0	0	0	0	0	1	0	0	11418	922	32	2	1030	2	PANK3	5	167995926	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	6500877	167995926	12919334	151	7038										
RANBP17	64901	broad.mit.edu	37	chr5	170337973	170337973	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgattttgtacttttttcagGtgtttgccaaacctttaaat	6	6	1	1			TCGA-18-3419-01A-01D-0983-08	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	A	170337973	A	A	170337973	3	1	12	1	0	0	0	0	1	0	0	0	13027	1275	44	3	621	3	RANBP17	5	170337973	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2342047	170337973	10577287	152	7039										
HMP19	51617	broad.mit.edu	37	chr5	173534370	173534370	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tactactcctcccaggacccCaattccagaagccgcttcta	5	17	1	1	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	G	173534370	G	G	173534370	2	3	12	1	0	0	0	0	0	0	0	1	7245	581	21	4		4	HMP19	5	173534370	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	3196397	173534370	7380890	153	7040										
SFXN1	94081	broad.mit.edu	37	chr5	174919163	174919163	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaacctcgatgggatcaaagCactttcattggacgagccaa	10	10	2	0			TCGA-18-3419-01A-01D-0983-08	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	G	174919163	G	G	174919163	3	3	12	1	0	0	0	0	1	0	0	0	14194	709	25	4	59	4	SFXN1	5	174919163	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1384793	174919163	5996097	154	7041										
ZNF454	285676	broad.mit.edu	37	chr5	178391831	178391831	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agtttgcagcgagtggtactCactcaccccaacaccccatc	7	16	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	178391831	T	T	178391831	2	4	12	1	0	0	0	0	0	0	0	1	17920	813	29	2		2	ZNF454	5	178391831	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	3472668	178391831	2523429	155	7042										
CDKAL1	54901	broad.mit.edu	37	chr6	20546619	20546619	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgatacactactggatgacaTcgaagatatcgtgtctcagg	10	8	1	3			TCGA-18-3419-01A-01D-0983-08	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	C	20546619	C	C	20546619	3	2	12	1	0	0	0	0	1	0	0	0	3152	1435	50	5	40	5	CDKAL1	6	20546619	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08		20546619	150568448	156	7043										
HIST1H2BM	8342	broad.mit.edu	37	chr6	27783015	27783015	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggctatgggaatcatgaactCcttcgtcaacgacatctttg	9	10	3	1			TCGA-18-3419-01A-01D-0983-08	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	G	27783015	G	G	27783015	3	3	12	1	0	0	0	0	1	0	0	0	7152	855	30	2	196	2	HIST1H2BM	6	27783015	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	7236396	27783015	143332052	157	7044										
GPX5	2880	broad.mit.edu	37	chr6	28493833	28493833	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tccatctgcttccccttctcCtagcctgctttgtgcaaaca	5	16	2	0			TCGA-18-3419-01A-01D-0983-08	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	A	28493833	A	A	28493833	3	1	12	1	0	0	0	0	1	0	0	0	6743	680	24	3	45	3	GPX5	6	28493833	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	710818	28493833	142621234	158	7045										
HLA-A	3105	broad.mit.edu	37	chr6	29911087	29911087	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtatggctgcgacgtggggtCggacgggcgcttcctccgcg	18	12	0	0			TCGA-18-3419-01A-01D-0983-08	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	A	29911087	A	A	29911087	4	1	12	1	0	0	0	0	0	1	0	0	7195	893	31	2	396	2	HLA-A	6	29911087	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1417254	29911087	141203980	159	7046										
APOM	55937	broad.mit.edu	37	chr6	31624395	31624395	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cagctccaccttcgtgctacCatccgcatgtgagtggtaag	10	13	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	31624395	A	A	31624395	2	1	12	1	0	0	0	0	0	0	0	1	812	581	21	3		3	APOM	6	31624395	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	1713308	31624395	139490672	160	7047										
HLA-DQA1	3117	broad.mit.edu	37	chr6	32610020	32610020	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggcctggaccagcctcttctGaaacactggggtaaggatga	13	10	2	2			TCGA-18-3419-01A-01D-0983-08	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	T	32610020	T	T	32610020	2	4	12	1	0	0	0	0	0	0	0	1	7204	1277	45	2		2	HLA-DQA1	6	32610020	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	985625	32610020	138505047	161	7048										
HLA-DQA2	3118	broad.mit.edu	37	chr6	32713839	32713839	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggcctggacgagcctcttctGaaacactggggtaaggatga	14	9	2	2			TCGA-18-3419-01A-01D-0983-08	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	T	32713839	T	T	32713839	2	4	12	1	0	0	0	0	0	0	0	1	7205	1277	45	2		2	HLA-DQA2	6	32713839	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	103819	32713839	138401228	162	7049										
HLA-DOB	3112	broad.mit.edu	37	chr6	32781028	32781028	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gagcagaacagctcttgagaCctggaggcacagtgatgaag	14	8	1	4			TCGA-18-3419-01A-01D-0983-08	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	A	32781028	A	A	32781028	3	1	12	1	0	0	0	0	1	0	0	0	7201	521	18	3	38	3	HLA-DOB	6	32781028	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	67189	32781028	138334039	163	7050										
PSMB8	5696	broad.mit.edu	37	chr6	32808780	32808780	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtgcagcaggtcactgacatCtgtactttctactttcaccc	7	13	4	1			TCGA-18-3419-01A-01D-0983-08	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	A	32808780	A	A	32808780	3	1	12	1	0	0	0	0	1	0	0	0	12683	913	32	2	47	2	PSMB8	6	32808780	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	27752	32808780	138306287	164	7051										
PPP2R5D	5528	broad.mit.edu	37	chr6	42974327	42974327	+	Frame_Shift_Del	DEL	C	-	-													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aaatcaagtactcaggggggCcccagattgtcaagaaggag							TCGA-18-3419-01A-01D-0983-08	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	---	---	---	---		-	42974327	-	-	42974327	7	5	12	1	0	1	0	1	0	0	0	0	12395	739	26	0	242	0	PPP2R5D	6	42974327	Frame_Shift_Del	DEL	C	TCGA-18-3419-01A-01D-0983-08	10165547	42974327	128140740	165	7052										
PGK2	5232	broad.mit.edu	37	chr6	49754273	49754273	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tttggctccaccaagtatagCcagaaagggtctcactgggt	11	10	1	1			TCGA-18-3419-01A-01D-0983-08	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	A	49754273	A	A	49754273	3	1	12	1	0	0	0	0	1	0	0	0	11791	739	26	3	629	3	PGK2	6	49754273	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	6779946	49754273	121360794	166	7053										
DST	667	broad.mit.edu	37	chr6	56334983	56334983	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tatgcatctttatttgggtgAagggctgctacaaattcata	9	6	2	1			TCGA-18-3419-01A-01D-0983-08	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	C	56334983	C	C	56334983	2	2	12	1	0	0	0	0	0	0	0	1	4783	233	9	5		5	DST	6	56334983	Silent	SNP	A	TCGA-18-3419-01A-01D-0983-08	6580710	56334983	114780084	167	7054										
BAI3	577	broad.mit.edu	37	chr6	69653726	69653726	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctttgctttattacagtacaCggagtatgggaggaatggtc	12	6	0	0			TCGA-18-3419-01A-01D-0983-08	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	T	69653726	T	T	69653726	2	4	12	1	0	0	0	0	0	0	0	1	1300	535	19	1		1	BAI3	6	69653726	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	13318743	69653726	101461341	168	7055										
RIMS1	22999	broad.mit.edu	37	chr6	72957822	72957822	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccccacaagtcttaccagggCaactttctgtatgtattttt	6	11	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	72957822	T	T	72957822	4	4	12	1	0	0	0	0	0	1	0	0	13367	711	25	3	2442	3	RIMS1	6	72957822	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	3304096	72957822	98157245	169	7056										
PHIP	55023	broad.mit.edu	37	chr6	79672829	79672829	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cttacctagtgtcatcaactGgtttattcctgccacaattc	5	12	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	79672829	T	T	79672829	3	4	12	1	0	0	0	0	1	0	0	0	11842	1357	47	3	1989	3	PHIP	6	79672829	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	6715007	79672829	91442238	170	7057										
DOPEY1	23033	broad.mit.edu	37	chr6	83861601	83861601	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgttcttccttatttttttaGgatgtaactcacaaaatagt	5	6	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	83861601	T	T	83861601	5	4	12	1	0	0	0	0	0	0	1	0	4707	1014	35	3	6010	3	DOPEY1	6	83861601	Splice_Site	SNP	G	TCGA-18-3419-01A-01D-0983-08	4188772	83861601	87253466	171	7058										
ORC3L	23595	broad.mit.edu	37	chr6	88362927	88362927	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caccttggcagcacagctaaGagaatagaggagttcctggc	12	10	0	2			TCGA-18-3419-01A-01D-0983-08	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	C	88362927	C	C	88362927	3	2	12	1	0	0	0	0	1	0	0	0	11263	933	33	2	1530	2	ORC3L	6	88362927	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	4501326	88362927	82752140	172	7059										
MDN1	23195	broad.mit.edu	37	chr6	90387321	90387321	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcctgagtgctgctgacgatGgacaatgcgctctggagatc	13	10	1	3			TCGA-18-3419-01A-01D-0983-08	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	T	90387321	T	T	90387321	2	4	12	1	0	0	0	0	0	0	0	1	9415	1335	47	3		3	MDN1	6	90387321	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	2024394	90387321	80727746	173	7060										
PRDM1	639	broad.mit.edu	37	chr6	106547368	106547368	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acttcttgtgtggtattgtcGggactttgcagaaaggcttc	12	7	1	1			TCGA-18-3419-01A-01D-0983-08	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	C	106547368	C	C	106547368	3	2	12	1	0	0	0	0	1	0	0	0	12450	1116	39	4	632	4	PRDM1	6	106547368	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	16160047	106547368	64567699	174	7061										
SYNE1	23345	broad.mit.edu	37	chr6	152746534	152746534	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	accttttgttaatgatctgtGgtaaatctctccatctctca	5	10	4	1			TCGA-18-3419-01A-01D-0983-08	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	T	152746534	T	T	152746534	3	4	12	1	0	0	0	0	1	0	0	0	15442	1348	47	3	21649	3	SYNE1	6	152746534	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	46199166	152746534	18368533	175	7062										
MAP3K4	4216	broad.mit.edu	37	chr6	161507647	161507647	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agcagcagaattcaggctttCagccccagttagagacctcc	9	13	2	2			TCGA-18-3419-01A-01D-0983-08	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	T	161507647	T	T	161507647	3	4	12	1	0	0	0	0	1	0	0	0	9252	838	29	2	2538	2	MAP3K4	6	161507647	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	8761113	161507647	9607420	176	7063										
TNRC18	84629	broad.mit.edu	37	chr7	5352184	5352184	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctgccgggctggcaggaaggCggcgatcttgggccggttct	18	11	2	0			TCGA-18-3419-01A-01D-0983-08	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	A	5352184	A	A	5352184	3	1	12	1	0	0	0	0	1	0	0	0	16336	768	27	1	584	1	TNRC18	7	5352184	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08		5352184	153786479	177	7064										
MIOS	54468	broad.mit.edu	37	chr7	7636041	7636041	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gctgtcgaaaaccacttcctCgatgtgcgctttgtctcatt	8	12	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	7636041	A	A	7636041	2	1	12	1	0	0	0	0	0	0	0	1	9589	876	31	2		2	MIOS	7	7636041	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	2283857	7636041	151502622	178	7065										
HOXA13	3209	broad.mit.edu	37	chr7	27237878	27237878	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	taaccctcctgttctggaacCagattgtgacctgccgctca	8	14	2	2			TCGA-18-3419-01A-01D-0983-08	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	A	27237878	A	A	27237878	3	1	12	1	0	0	0	0	1	0	0	0	7291	595	21	3	64	3	HOXA13	7	27237878	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	19601837	27237878	131900785	179	7066										
CCM2	83605	broad.mit.edu	37	chr7	45115438	45115438	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agaacttcctggagaccattGgcgtgaaggatggccgcggc	15	10	0	3			TCGA-18-3419-01A-01D-0983-08	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	T	45115438	T	T	45115438	3	4	12	1	0	0	0	0	1	0	0	0	2908	1348	47	3	1252	3	CCM2	7	45115438	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	17877560	45115438	114023225	180	7067										
CLIP2	7461	broad.mit.edu	37	chr7	73803542	73803542	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcccggaagacccatgacgcCtcgggccagctagtcctcat	10	16	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	73803542	T	T	73803542	2	4	12	1	0	0	0	0	0	0	0	1	3533	668	24	3		3	CLIP2	7	73803542	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	28688104	73803542	85335121	181	7068										
GTF2IRD1	9569	broad.mit.edu	37	chr7	73929890	73929890	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gctcagatgtgtaccttctgCggaagatggtagaggaggtg	16	6	2	3			TCGA-18-3419-01A-01D-0983-08	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	T	73929890	T	T	73929890	3	4	12	1	0	0	0	0	1	0	0	0	6868	759	27	1	395	1	GTF2IRD1	7	73929890	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	126348	73929890	85208773	182	7069										
DTX2	113878	broad.mit.edu	37	chr7	76112361	76112361	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acaccaccaacgcctggggcGcagctcctccttccctgggg	11	18	0	0			TCGA-18-3419-01A-01D-0983-08	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	C	76112361	C	C	76112361	3	2	12	1	0	0	0	0	1	0	0	0	4794	1087	38	4	811	4	DTX2	7	76112361	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2182471	76112361	83026302	183	7070										
HGF	3082	broad.mit.edu	37	chr7	81388038	81388038	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atagaggtcaaattcatggcCaaattcttttttcactccac	5	10	4	1			TCGA-18-3419-01A-01D-0983-08	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	T	81388038	T	T	81388038	3	4	12	1	0	0	0	0	1	0	0	0	7085	594	21	3	1933	3	HGF	7	81388038	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	5275677	81388038	77750625	184	7071										
CASD1	64921	broad.mit.edu	37	chr7	94178901	94178901	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tccaagtgttttgaactgaaAgggaatgtatatgaatggtg	12	3	0	3			TCGA-18-3419-01A-01D-0983-08	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	T	94178901	T	T	94178901	3	4	12	1	0	0	0	0	1	0	0	0	2664	69	3	5	1824	5	CASD1	7	94178901	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	12790863	94178901	64959762	185	7072										
LMTK2	22853	broad.mit.edu	37	chr7	97800947	97800947	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gatggcgtgcgaggtcgccgCggggctggccgccatgcaca	18	13	0	0			TCGA-18-3419-01A-01D-0983-08	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	T	97800947	T	T	97800947	3	4	12	1	0	0	0	0	1	0	0	0	8859	768	27	1	778	1	LMTK2	7	97800947	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	3622046	97800947	61337716	186	7073										
TFEC	22797	broad.mit.edu	37	chr7	115594691	115594691	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttttgctaaagctctagtgtCagtttctgatcaaaagaaaa	7	6	4	2			TCGA-18-3419-01A-01D-0983-08	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	T	115594691	T	T	115594691	3	4	12	1	0	0	0	0	1	0	0	0	15799	826	29	2	671	2	TFEC	7	115594691	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	17793744	115594691	43543972	187	7074										
TSPAN33	340348	broad.mit.edu	37	chr7	128806698	128806698	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctcagaagacaaccccagtcGagagcgctgctctgtgcctt	10	14	2	3			TCGA-18-3419-01A-01D-0983-08	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	T	128806698	T	T	128806698	3	4	12	1	0	0	0	0	1	0	0	0	16645	1058	37	2	561	2	TSPAN33	7	128806698	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	13212007	128806698	30331965	188	7075										
PLXNA4	91584	broad.mit.edu	37	chr7	131883284	131883284	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atccactaaagggctgcactCcacgccagcaaccttgacat	7	15	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	131883284	A	A	131883284	4	1	12	1	0	0	0	0	0	1	0	0	12122	864	30	2	3066	2	PLXNA4	7	131883284	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	3076586	131883284	27255379	189	7076										
TTC26	79989	broad.mit.edu	37	chr7	138819449	138819449	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gcagaggcgtacagcacactGacaaaagaaagaagaaaggt	12	7	0	5			TCGA-18-3419-01A-01D-0983-08	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	A	138819449	A	A	138819449	3	1	12	1	0	0	0	0	1	0	0	0	16691	1290	45	2	58	2	TTC26	7	138819449	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	6936165	138819449	20319214	190	7077										
ACTR3B	57180	broad.mit.edu	37	chr7	152517413	152517413	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tatgtaattggaagctgcatCaaacacatcccgattgcagg	9	9	1	0			TCGA-18-3419-01A-01D-0983-08	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	G	152517413	G	G	152517413	3	3	12	1	0	0	0	0	1	0	0	0	213	816	29	2	596	2	ACTR3B	7	152517413	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	13697964	152517413	6621250	191	7078										
CSMD1	64478	broad.mit.edu	37	chr8	3216692	3216692	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acccacacaccttggcagagGtgcactccacacacggcggc	10	17	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	3216692	T	T	3216692	3	4	12	1	0	0	0	0	1	0	0	0	3944	1261	44	3	7608	3	CSMD1	8	3216692	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08		3216692	143147330	192	7079										
CSMD1	64478	broad.mit.edu	37	chr8	3889546	3889546	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agctgtaccggattttgtctCctatgttgaatctcgttcca	8	10	2	1			TCGA-18-3419-01A-01D-0983-08	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	G	3889546	G	G	3889546	3	3	12	1	0	0	0	0	1	0	0	0	3944	855	30	2	10284	2	CSMD1	8	3889546	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	672854	3889546	142474476	193	7080										
LETM2	137994	broad.mit.edu	37	chr8	38257911	38257911	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cgatgcctctacacagctctCatcctacgtgaagcaggtgt	9	13	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	38257911	A	A	38257911	4	1	12	1	0	0	0	0	0	1	0	0	8735	838	29	2	488	2	LETM2	8	38257911	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	34368365	38257911	108106111	194	7081										
NSMAF	8439	broad.mit.edu	37	chr8	59514692	59514692	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cggaaggttcctggatttgaCaaatctataaacataaatca	7	7	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	59514692	A	A	59514692	3	1	12	1	0	0	0	0	1	0	0	0	10674	477	17	3	1775	3	NSMAF	8	59514692	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	21256781	59514692	86849330	195	7082										
CHD7	55636	broad.mit.edu	37	chr8	61765798	61765798	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agagggtactggaacaagccGaaggcaaagtggaggagcct	16	7	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	61765798	A	A	61765798	3	1	12	1	0	0	0	0	1	0	0	0	3330	1059	37	2	6632	2	CHD7	8	61765798	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2251106	61765798	84598224	196	7083										
C8orf34	116328	broad.mit.edu	37	chr8	69688634	69688634	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctcttcctctttacttctagGgagaagcctccagtggagta	9	11	3	1			TCGA-18-3419-01A-01D-0983-08	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	T	69688634	T	T	69688634	4	4	12	1	0	0	0	0	0	1	0	0	2422	1246	43	3	1110	3	C8orf34	8	69688634	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	7922836	69688634	76675388	197	7084										
CNGB3	54714	broad.mit.edu	37	chr8	87660080	87660080	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttaaacccaaagaagaggtaGcaaatatcaaatggtattat	7	5	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	87660080	T	T	87660080	4	4	12	1	0	0	0	0	0	1	0	0	3601	963	34	3	1534	3	CNGB3	8	87660080	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	17971446	87660080	58703942	198	7085										
SLC26A7	115111	broad.mit.edu	37	chr8	92330528	92330528	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caatgacaactggggctgccAcccatgtggtgacttcacaa	10	12	1	2			TCGA-18-3419-01A-01D-0983-08	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	G	92330528	G	G	92330528	3	3	12	1	0	0	0	0	1	0	0	0	14522	159	6	5	576	5	SLC26A7	8	92330528	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	4670448	92330528	54033494	199	7086										
LRP12	29967	broad.mit.edu	37	chr8	105509802	105509802	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtcaacacacgcaaaagcttGtgtggattctcctctaatcc	7	12	3	0	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	C	105509802	C	C	105509802	3	2	12	1	0	0	0	0	1	0	0	0	8954	1368	48	4	1613	4	LRP12	8	105509802	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	13179274	105509802	40854220	200	7087										
CSMD3	114788	broad.mit.edu	37	chr8	113237101	113237101	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	catgggattttcaaaagctgCttggccattgttattttcat	8	7	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	113237101	T	T	113237101	3	4	12	1	0	0	0	0	1	0	0	0	3946	797	28	3	104	3	CSMD3	8	113237101	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	7727299	113237101	33126921	201	7088										
FAM135B	51059	broad.mit.edu	37	chr8	139153478	139153478	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctgttgttgtacagggttccCaggtgaggcccagagagtga	15	8	0	3			TCGA-18-3419-01A-01D-0983-08	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	A	139153478	A	A	139153478	2	1	12	1	0	0	0	0	0	0	0	1	5449	581	21	3		3	FAM135B	8	139153478	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	25916377	139153478	7210544	202	7089										
COL22A1	169044	broad.mit.edu	37	chr8	139611024	139611024	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tccaactggtccattctcccCaggtagtccttggggaccca	9	15	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	139611024	A	A	139611024	3	1	12	1	0	0	0	0	1	0	0	0	3681	594	21	3	597	3	COL22A1	8	139611024	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	457546	139611024	6752998	203	7090										
DENND3	22898	broad.mit.edu	37	chr8	142161912	142161912	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttcctgatgggctgccatctCgaccacttcgaagaagtcag	10	12	2	2	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	A	142161912	A	A	142161912	2	1	12	1	0	0	0	0	0	0	0	1	4432	871	31	2		2	DENND3	8	142161912	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	2550888	142161912	4202110	204	7091										
MAPK15	225689	broad.mit.edu	37	chr8	144802438	144802438	+	Frame_Shift_Del	DEL	C	-	-													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caggctgccgtgcctctgtgCtgcaccagctggggtcccgg							TCGA-18-3419-01A-01D-0983-08	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	---	---	---	---		-	144802438	-	-	144802438	7	5	12	1	0	1	0	1	0	0	0	0	9277	796	28	0	790	0	MAPK15	8	144802438	Frame_Shift_Del	DEL	C	TCGA-18-3419-01A-01D-0983-08	2640526	144802438	1561584	205	7092										
PLEC	5339	broad.mit.edu	37	chr8	144998324	144998324	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cttcagcgccaggatctcctCctccacctgccgccgctgcc	8	21	2	0			TCGA-18-3419-01A-01D-0983-08	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	A	144998324	A	A	144998324	4	1	12	1	0	0	0	0	0	1	0	0	12052	864	30	2	7878	2	PLEC	8	144998324	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	195886	144998324	1365698	206	7093										
SLC39A4	55630	broad.mit.edu	37	chr8	145638176	145638176	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gctacgtagaggaacaggccGgtggccactgccaggatcca	14	12	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	145638176	A	A	145638176	2	1	12	1	0	0	0	0	0	0	0	1	14620	1103	39	1		1	SLC39A4	8	145638176	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	639852	145638176	725846	207	7094										
IFNA6	3443	broad.mit.edu	37	chr9	21350809	21350809	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cccaggctgtgggtctgaggCagatcacagtccagagagca	14	11	2	3			TCGA-18-3419-01A-01D-0983-08	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	T	21350809	T	T	21350809	2	4	12	1	0	0	0	0	0	0	0	1	7541	697	25	3		3	IFNA6	9	21350809	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08		21350809	119862622	208	7095										
LINGO2	158038	broad.mit.edu	37	chr9	27949203	27949203	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gctgtgaaggtatcattcccAgcagcattgctagcgatgca	11	10	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	27949203	T	T	27949203	2	4	12	1	0	0	0	0	0	0	0	1	8815	175	7	5		5	LINGO2	9	27949203	Silent	SNP	A	TCGA-18-3419-01A-01D-0983-08	6598394	27949203	113264228	209	7096										
ACO1	48	broad.mit.edu	37	chr9	32448965	32448965	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctggttgggatgggtgtgatCccacttgaatatctccctgg	13	9	1	2			TCGA-18-3419-01A-01D-0983-08	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	G	32448965	G	G	32448965	3	3	12	1	0	0	0	0	1	0	0	0	146	845	30	2	2516	2	ACO1	9	32448965	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	4499762	32448965	108764466	210	7097										
DCAF10	79269	broad.mit.edu	37	chr9	37861493	37861493	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggacgggtttctttgtatcaGccaaagttttaggcacaact	10	8	2	0			TCGA-18-3419-01A-01D-0983-08	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	A	37861493	A	A	37861493	2	1	12	1	0	0	0	0	0	0	0	1	4261	962	34	3		3	DCAF10	9	37861493	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	5412528	37861493	103351938	211	7098										
TRPM3	80036	broad.mit.edu	37	chr9	73225606	73225606	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gggattaaccggtgcttgctCtgaacttcctcttcatcctt	8	12	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	73225606	A	A	73225606	3	1	12	1	0	0	0	0	1	0	0	0	16584	912	32	2	2605	2	TRPM3	9	73225606	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	35364113	73225606	67987825	212	7099										
PRUNE2	158471	broad.mit.edu	37	chr9	79322116	79322116	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tattgactcttcaccaccgaCactgtcatcatcagaacctg	5	14	5	2			TCGA-18-3419-01A-01D-0983-08	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	A	79322116	A	A	79322116	3	1	12	1	0	0	0	0	1	0	0	0	12641	478	17	3	4240	3	PRUNE2	9	79322116	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	6096510	79322116	61891315	213	7100										
TLE4	7091	broad.mit.edu	37	chr9	82320816	82320816	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caatgcaggacagcgatggtGagaaaagtgatgacaacttg	13	6	0	3			TCGA-18-3419-01A-01D-0983-08	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	T	82320816	T	T	82320816	4	4	12	1	0	0	0	0	0	1	0	0	15938	1291	45	2	780	2	TLE4	9	82320816	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2998700	82320816	58892615	214	7101										
COL15A1	1306	broad.mit.edu	37	chr9	101810117	101810117	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agaatttggccttcccgggcGacctgtaggtatcagtgttc	12	10	1	1	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	T	101810117	T	T	101810117	3	4	12	1	0	0	0	0	1	0	0	0	3672	1058	37	2	2835	2	COL15A1	9	101810117	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	19489301	101810117	39403314	215	7102										
EPB41L4B	54566	broad.mit.edu	37	chr9	111938886	111938886	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aatggtctgcactgtggagaCggtctctgtcaaaggcctca	12	10	4	1			TCGA-18-3419-01A-01D-0983-08	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	T	111938886	T	T	111938886	3	4	12	1	0	0	0	0	1	0	0	0	5156	536	19	1	132	1	EPB41L4B	9	111938886	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	10128769	111938886	29274545	216	7103										
ZNF883	169834	broad.mit.edu	37	chr9	115760433	115760433	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	attcataaggtttttctccaAtatgtgttttctgatgctgg	8	6	3	1			TCGA-18-3419-01A-01D-0983-08	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	G	115760433	G	G	115760433	3	3	12	1	0	0	0	0	1	0	0	0	18195	101	4	5	1034	5	ZNF883	9	115760433	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	3821547	115760433	25452998	217	7104										
AKNA	80709	broad.mit.edu	37	chr9	117120298	117120298	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcatactactttggtgggatGctgcggacttggtgcctgga	14	8	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	117120298	A	A	117120298	3	1	12	1	0	0	0	0	1	0	0	0	463	1319	46	3	1721	3	AKNA	9	117120298	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1359865	117120298	24093133	218	7105										
GARNL3	84253	broad.mit.edu	37	chr9	130104531	130104533	+	In_Frame_Del	DEL	CAA	-	-													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aaaagccactttggaaacccCaacatttgcccagaaacgtc							TCGA-18-3419-01A-01D-0983-08	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	---	---	---	---		-	130104533	-	-	130104531	7	5	12	1	0	1	0	1	0	0	0	0	6241	594	21	0	1223	0	GARNL3	9	130104531	In_Frame_Del	DEL	CAA	TCGA-18-3419-01A-01D-0983-08	12984233	130104531	11108900	219	7106										
COL5A1	1289	broad.mit.edu	37	chr9	137714873	137714873	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggtccaaaaggtgctaagggCtcctcggtaagtaacatgct	12	9	0	0			TCGA-18-3419-01A-01D-0983-08	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	A	137714873	A	A	137714873	2	1	12	1	0	0	0	0	0	0	0	1	3696	784	28	3		3	COL5A1	9	137714873	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	7610342	137714873	3498558	220	7107										
ZMYND11	10771	broad.mit.edu	37	chr10	293350	293350	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gcccacagctaaaggtcactCaagaaccaagagcaaagaaa	8	11	2	3			TCGA-18-3419-01A-01D-0983-08	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	G	293350	G	G	293350	3	3	12	1	0	0	0	0	1	0	0	0	17703	827	29	2	1213	2	ZMYND11	10	293350	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08		293350	135241397	221	7108										
GDI2	2665	broad.mit.edu	37	chr10	5827861	5827861	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atgaccagtaaaatctataaCgtcttgacccaaatcaaatt	4	9	3	2			TCGA-18-3419-01A-01D-0983-08	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	T	5827861	T	T	5827861	3	4	12	1	0	0	0	0	1	0	0	0	6321	536	19	1	824	1	GDI2	10	5827861	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	5534511	5827861	129706886	222	7109										
CUBN	8029	broad.mit.edu	37	chr10	16949629	16949629	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cattgcttacattcacactaCtacacagtttctctagctgg	5	12	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	16949629	T	T	16949629	3	4	12	1	0	0	0	0	1	0	0	0	4051	565	20	3	3364	3	CUBN	10	16949629	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	11121768	16949629	118585118	223	7110										
ACBD5	91452	broad.mit.edu	37	chr10	27497281	27497281	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tctgctcattgaggctgcctCgggaccctctgtcggagccc	12	15	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	27497281	A	A	27497281	3	1	12	1	0	0	0	0	1	0	0	0	125	884	31	2	295	2	ACBD5	10	27497281	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	10547652	27497281	108037466	224	7111										
KIAA1462	57608	broad.mit.edu	37	chr10	30315269	30315269	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaagctcaggactctcatccGtgacactgagctcacctctt	8	14	4	2			TCGA-18-3419-01A-01D-0983-08	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	A	30315269	A	A	30315269	3	1	12	1	0	0	0	0	1	0	0	0	8234	1144	40	1	279	1	KIAA1462	10	30315269	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2817988	30315269	105219478	225	7112										
PARD3	56288	broad.mit.edu	37	chr10	34408612	34408612	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcctgccgctgccgctgcatCtgcacctccacggacaccga	9	19	1	0	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	G	34408612	G	G	34408612	3	3	12	1	0	0	0	0	1	0	0	0	11443	912	32	2	472	2	PARD3	10	34408612	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	4093343	34408612	101126135	226	7113										
ANKRD30A	91074	broad.mit.edu	37	chr10	37440993	37440993	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	attaaccttttatagatccgAtgttcccaccagaatccaaa	4	11	0	2			TCGA-18-3419-01A-01D-0983-08	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	T	37440993	T	T	37440993	3	4	12	1	0	0	0	0	1	0	0	0	658	333	12	5	1529	5	ANKRD30A	10	37440993	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	3032381	37440993	98093754	227	7114										
ANKRD30A	91074	broad.mit.edu	37	chr10	37442554	37442554	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtttacccaaggctacacatCaaaaagaaatagataaaata	5	7	1	2			TCGA-18-3419-01A-01D-0983-08	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	G	37442554	G	G	37442554	3	3	12	1	0	0	0	0	1	0	0	0	658	827	29	2	1644	2	ANKRD30A	10	37442554	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1561	37442554	98092193	228	7115										
ANKRD30A	91074	broad.mit.edu	37	chr10	37478449	37478449	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtttacccaaggctacgcatCaaaaagaaatagataaaata	6	7	1	2			TCGA-18-3419-01A-01D-0983-08	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	G	37478449	G	G	37478449	3	3	12	1	0	0	0	0	1	0	0	0	658	827	29	2	2406	2	ANKRD30A	10	37478449	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	35895	37478449	98056298	229	7116										
CDK1	983	broad.mit.edu	37	chr10	62544477	62544477	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tttcaggtacctatggagttGtgtataagggtagacacaaa	11	5	1	1			TCGA-18-3419-01A-01D-0983-08	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	C	62544477	C	C	62544477	3	2	12	1	0	0	0	0	1	0	0	0	3124	1377	48	4	58	4	CDK1	10	62544477	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	25066028	62544477	72990270	230	7117										
CTNNA3	29119	broad.mit.edu	37	chr10	68280473	68280473	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tacgcttgtacatttccatgGtgtttttgaccgcttgactt	8	9	0	2			TCGA-18-3419-01A-01D-0983-08	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	T	68280473	T	T	68280473	3	4	12	1	0	0	0	0	1	0	0	0	4014	1261	44	3	1286	3	CTNNA3	10	68280473	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	5735996	68280473	67254274	231	7118										
HERC4	26091	broad.mit.edu	37	chr10	69700823	69700823	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ataaattgctaagccacagaTaacaccaatcaaatggaaca	5	9	1	1			TCGA-18-3419-01A-01D-0983-08	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	A	69700823	A	A	69700823	3	1	12	1	0	0	0	0	1	0	0	0	7060	1406	49	5	796	5	HERC4	10	69700823	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	1420350	69700823	65833924	232	7119										
STOX1	219736	broad.mit.edu	37	chr10	70644923	70644923	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aaacaccccaagctccctgcTacacagcccatccccagaat	4	19	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	70644923	A	A	70644923	2	1	12	1	0	0	0	0	0	0	0	1	15318	1509	53	5		5	STOX1	10	70644923	Silent	SNP	T	TCGA-18-3419-01A-01D-0983-08	944100	70644923	64889824	233	7120										
NDST2	8509	broad.mit.edu	37	chr10	75562762	75562762	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtgtagttcagaaagggtgtGatacccaggaacttctggat	13	6	2	2			TCGA-18-3419-01A-01D-0983-08	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	C	75562762	C	C	75562762	3	2	12	1	0	0	0	0	1	0	0	0	10256	1280	45	2	272	2	NDST2	10	75562762	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	4917839	75562762	59971985	234	7121										
NRG3	10718	broad.mit.edu	37	chr10	84711279	84711279	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aatttcatgtatcatctttgGaattgtcatcgtgggcatgt	9	6	4	0			TCGA-18-3419-01A-01D-0983-08	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	A	84711279	A	A	84711279	3	1	12	1	0	0	0	0	1	0	0	0	10649	1174	41	2	1295	2	NRG3	10	84711279	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	9148517	84711279	50823468	235	7122										
SORBS1	10580	broad.mit.edu	37	chr10	97174445	97174445	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gggaatgaaatcatctagagTcgggaaggtcagaggtgagg	17	4	3	4			TCGA-18-3419-01A-01D-0983-08	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	G	97174445	G	G	97174445	3	3	12	1	0	0	0	0	1	0	0	0	14927	1667	58	5	3559	5	SORBS1	10	97174445	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	12463166	97174445	38360302	236	7123										
C10orf76	79591	broad.mit.edu	37	chr10	103792914	103792914	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agattccagcttgccttctaGgtactctaaattcacctgcc	6	13	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	103792914	A	A	103792914	2	1	12	1	0	0	0	0	0	0	0	1	1616	991	35	3		3	C10orf76	10	103792914	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	6618469	103792914	31741833	237	7124										
SMC3	9126	broad.mit.edu	37	chr10	112359487	112359487	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agtcattgaaagcagaactgGgaactgatttgctttctcaa	9	7	2	3			TCGA-18-3419-01A-01D-0983-08	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	T	112359487	T	T	112359487	4	4	12	1	0	0	0	0	0	1	0	0	14784	1233	43	3	2426	3	SMC3	10	112359487	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	8566573	112359487	23175260	238	7125										
ATRNL1	26033	broad.mit.edu	37	chr10	117226718	117226718	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggatatatcaattaatgcatCaaacaactttaatctcaaca	3	8	3	0			TCGA-18-3419-01A-01D-0983-08	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	G	117226718	G	G	117226718	4	3	12	1	0	0	0	0	0	1	0	0	1207	838	29	2	3542	2	ATRNL1	10	117226718	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	4867231	117226718	18308029	239	7126										
FGFR2	2263	broad.mit.edu	37	chr10	123263411	123263411	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aggcgtgttgttatcctcacCagcggggtgttggagttcat	14	8	2	0			TCGA-18-3419-01A-01D-0983-08	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	G	123263411	G	G	123263411	2	3	12	1	0	0	0	0	0	0	0	1	5866	581	21	4		4	FGFR2	10	123263411	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	6036693	123263411	12271336	240	7127										
DMBT1	1755	broad.mit.edu	37	chr10	124390741	124390741	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tctctggcagtgccggaaccGaggctggttctcccacaact	11	14	2	0	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	T	124390741	T	T	124390741	3	4	12	1	0	0	0	0	1	0	0	0	4577	1058	37	2	6085	2	DMBT1	10	124390741	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1127330	124390741	11144006	241	7128										
ZRANB1	54764	broad.mit.edu	37	chr10	126631403	126631403	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cttatcccaacgtaggaccaGgagtcctacagaatctcctc	7	14	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	126631403	T	T	126631403	3	4	12	1	0	0	0	0	1	0	0	0	18219	1000	35	3	343	3	ZRANB1	10	126631403	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2240662	126631403	8903344	242	7129										
LRRC27	80313	broad.mit.edu	37	chr10	134175004	134175004	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cacagatctgatagataacaGgaaagtaccactgaatccgc	8	10	1	4			TCGA-18-3419-01A-01D-0983-08	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	T	134175004	T	T	134175004	3	4	12	1	0	0	0	0	1	0	0	0	8981	1000	35	3	1426	3	LRRC27	10	134175004	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	7543601	134175004	1359743	243	7130										
OR51M1	390059	broad.mit.edu	37	chr11	5410783	5410783	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tatgtacatggttgccatctCaggcaattgtttcattctga	8	8	3	1			TCGA-18-3419-01A-01D-0983-08	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	T	5410783	T	T	5410783	3	4	12	1	0	0	0	0	1	0	0	0	11103	838	29	2	157	2	OR51M1	11	5410783	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08		5410783	129595733	244	7131										
OR51I1	390063	broad.mit.edu	37	chr11	5462289	5462289	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aagagagtggtgaaactcttGgtaaggatgcccagacccat	12	8	1	3			TCGA-18-3419-01A-01D-0983-08	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	T	5462289	T	T	5462289	2	4	12	1	0	0	0	0	0	0	0	1	11100	1335	47	3		3	OR51I1	11	5462289	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	51506	5462289	129544227	245	7132										
OR52N1	79473	broad.mit.edu	37	chr11	5809636	5809636	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gcaatgactgaattagtgagGatggtggcataacgcagagg	15	5	0	4			TCGA-18-3419-01A-01D-0983-08	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	A	5809636	A	A	5809636	2	1	12	1	0	0	0	0	0	0	0	1	11127	1164	41	2		2	OR52N1	11	5809636	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	347347	5809636	129196880	246	7133										
OR52W1	120787	broad.mit.edu	37	chr11	6221231	6221231	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttctggccttctacatacctGgtctcttctcctacctcaca	4	16	5	0			TCGA-18-3419-01A-01D-0983-08	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	T	6221231	T	T	6221231	3	4	12	1	0	0	0	0	1	0	0	0	11132	1348	47	3	780	3	OR52W1	11	6221231	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	411595	6221231	128785285	247	7134										
OR10A4	283297	broad.mit.edu	37	chr11	6898702	6898702	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttctgagagcaagaagctgcTgtcactctcttccacagtgg	10	11	3	2			TCGA-18-3419-01A-01D-0983-08	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	A	6898702	A	A	6898702	3	1	12	1	0	0	0	0	1	0	0	0	10892	1580	55	5	826	5	OR10A4	11	6898702	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	677471	6898702	128107814	248	7135										
SWAP70	23075	broad.mit.edu	37	chr11	9715738	9715738	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgctgaaggttcctcatgacCcagttgcccttgaagagcac	10	12	1	4			TCGA-18-3419-01A-01D-0983-08	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	A	9715738	A	A	9715738	3	1	12	1	0	0	0	0	1	0	0	0	15422	623	22	3	151	3	SWAP70	11	9715738	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2817036	9715738	125290778	249	7136										
SWAP70	23075	broad.mit.edu	37	chr11	9759834	9759834	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	actcaagtggaacttcaggcCaggttcagcacagagctgga	12	10	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	9759834	A	A	9759834	2	1	12	1	0	0	0	0	0	0	0	1	15422	581	21	3		3	SWAP70	11	9759834	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	44096	9759834	125246682	250	7137										
ABCC8	6833	broad.mit.edu	37	chr11	17430031	17430031	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaagtccttgagggtaccctCcctctggatggtgccatcct	11	13	1	1			TCGA-18-3419-01A-01D-0983-08	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	A	17430031	A	A	17430031	4	1	12	1	0	0	0	0	0	1	0	0	58	864	30	2	2085	2	ABCC8	11	17430031	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	7670197	17430031	117576485	251	7138										
USH1C	10083	broad.mit.edu	37	chr11	17554867	17554867	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcattttcaatcagaaaatcCacctggaaaatccaatagca	4	10	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	17554867	A	A	17554867	2	1	12	1	0	0	0	0	0	0	0	1	17031	581	21	3		3	USH1C	11	17554867	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	124836	17554867	117451649	252	7139										
E2F8	79733	broad.mit.edu	37	chr11	19246901	19246901	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cattaacagactctattcttGgagacacaggaacgattcca	7	10	2	2			TCGA-18-3419-01A-01D-0983-08	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	T	19246901	T	T	19246901	3	4	12	1	0	0	0	0	1	0	0	0	4873	1348	47	3	323	3	E2F8	11	19246901	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1692034	19246901	115759615	253	7140										
FNBP4	23360	broad.mit.edu	37	chr11	47767661	47767661	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggtatcttgttcctcttcctCctcactttctccagattgga	6	13	4	1			TCGA-18-3419-01A-01D-0983-08	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	G	47767661	G	G	47767661	3	3	12	1	0	0	0	0	1	0	0	0	5967	864	30	2	1905	2	FNBP4	11	47767661	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	28520760	47767661	87238855	254	7141										
OR5D16	390144	broad.mit.edu	37	chr11	55606318	55606318	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aactgcaaattcccctcttcTttgtatttctggcagtctac	5	12	4	0			TCGA-18-3419-01A-01D-0983-08	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	A	55606318	A	A	55606318	3	1	12	1	0	0	0	0	1	0	0	0	11156	1609	56	5	93	5	OR5D16	11	55606318	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	7838657	55606318	79400198	255	7142										
OR5D16	390144	broad.mit.edu	37	chr11	55606815	55606815	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcttaccctgactcttatctCagccagttgcttcttttcac	4	14	5	1			TCGA-18-3419-01A-01D-0983-08	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	T	55606815	T	T	55606815	2	4	12	1	0	0	0	0	0	0	0	1	11156	813	29	2		2	OR5D16	11	55606815	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	497	55606815	79399701	256	7143										
OR5M10	390167	broad.mit.edu	37	chr11	56344480	56344480	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgtcaggtgggaagcacacgTagaaaaggctttgtgcctgc	14	8	1	1			TCGA-18-3419-01A-01D-0983-08	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	A	56344480	A	A	56344480	3	1	12	1	0	0	0	0	1	0	0	0	11173	1638	57	5	233	5	OR5M10	11	56344480	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	737665	56344480	78662036	257	7144										
LRRC55	219527	broad.mit.edu	37	chr11	56949826	56949826	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctgccccggggcctcttcctCcatgccaagcgcttggcaca	10	18	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	56949826	A	A	56949826	2	1	12	1	0	0	0	0	0	0	0	1	9011	842	30	2		2	LRRC55	11	56949826	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	605346	56949826	78056690	258	7145										
OR1S1	219959	broad.mit.edu	37	chr11	57982933	57982933	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgcatcatcagagctgtcctGagagtatcttccacacaggg	10	11	3	2			TCGA-18-3419-01A-01D-0983-08	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	C	57982933	C	C	57982933	2	2	12	1	0	0	0	0	0	0	0	1	10972	1277	45	2		2	OR1S1	11	57982933	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	1033107	57982933	77023583	259	7146										
OR5B17	219965	broad.mit.edu	37	chr11	58126157	58126157	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttgtcatggtggtggtataaTgtagggggttacacactgct	14	5	1	0			TCGA-18-3419-01A-01D-0983-08	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	C	58126157	C	C	58126157	3	2	12	1	0	0	0	0	1	0	0	0	11149	1464	51	5	560	5	OR5B17	11	58126157	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	143224	58126157	76880359	260	7147										
VWCE	220001	broad.mit.edu	37	chr11	61026151	61026151	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggacacagtgacctccttacAtggtggactcttccccccga	9	15	1	1			TCGA-18-3419-01A-01D-0983-08	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	G	61026151	G	G	61026151	3	3	12	1	0	0	0	0	1	0	0	0	17242	217	8	5	7	5	VWCE	11	61026151	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	2899994	61026151	73980365	261	7148										
ROM1	6094	broad.mit.edu	37	chr11	62382190	62382190	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gacccagggctatctctttcCcagtgggctgaaagatatgc	11	11	1	2			TCGA-18-3419-01A-01D-0983-08	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	A	62382190	A	A	62382190	3	1	12	1	0	0	0	0	1	0	0	0	13521	623	22	3	945	3	ROM1	11	62382190	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1356039	62382190	72624326	262	7149										
METTL12	751071	broad.mit.edu	37	chr11	62433368	62433368	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccagatggccgcgctgcgtcGaatgctccacttgccgagcc	12	16	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	62433368	T	T	62433368	3	4	12	1	0	0	0	0	1	0	0	0	9496	1058	37	2	19	2	METTL12	11	62433368	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	51178	62433368	72573148	263	7150										
NUDT22	84304	broad.mit.edu	37	chr11	63997406	63997406	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcatcctctacaaccgggttCagggaagtcccactggagcg	11	13	3	0			TCGA-18-3419-01A-01D-0983-08	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	T	63997406	T	T	63997406	4	4	12	1	0	0	0	0	0	1	0	0	10739	827	29	2	874	2	NUDT22	11	63997406	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1564038	63997406	71009110	264	7151										
EHBP1L1	254102	broad.mit.edu	37	chr11	65357998	65357998	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caggaggaggtgctgatccaGgagtggttcaccctggtcaa	15	9	2	1			TCGA-18-3419-01A-01D-0983-08	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	C	65357998	C	C	65357998	3	2	12	1	0	0	0	0	1	0	0	0	4976	991	35	4	4280	4	EHBP1L1	11	65357998	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1360592	65357998	69648518	265	7152										
PPFIA1	8500	broad.mit.edu	37	chr11	70200458	70200458	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acaagacaaccataaagtgtGaaacctccccgccttcctcc	5	16	0	2			TCGA-18-3419-01A-01D-0983-08	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	A	70200458	A	A	70200458	3	1	12	1	0	0	0	0	1	0	0	0	12309	1291	45	2	2277	2	PPFIA1	11	70200458	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	4842460	70200458	64806058	266	7153										
SHANK2	22941	broad.mit.edu	37	chr11	70507712	70507712	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgctcttacctttggcccctCgaagcacgaatccaaagccc	7	16	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	70507712	A	A	70507712	3	1	12	1	0	0	0	0	1	0	0	0	14265	884	31	2	3668	2	SHANK2	11	70507712	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	307254	70507712	64498804	267	7154										
PICALM	8301	broad.mit.edu	37	chr11	85701351	85701351	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtagatacatctgaagaaatGgaaaggtgaacatcaccact	9	7	2	4			TCGA-18-3419-01A-01D-0983-08	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	A	85701351	A	A	85701351	2	1	12	1	0	0	0	0	0	0	0	1	11880	1335	47	3		3	PICALM	11	85701351	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	15193639	85701351	49305165	268	7155										
ZC3H12C	85463	broad.mit.edu	37	chr11	110036441	110036441	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gccgcagccattttagtggaGaaatcccagctgggttattg	12	9	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	110036441	T	T	110036441	3	4	12	1	0	0	0	0	1	0	0	0	17560	933	33	2	2653	2	ZC3H12C	11	110036441	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	24335090	110036441	24970075	269	7156										
USP28	57646	broad.mit.edu	37	chr11	113704153	113704153	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cttttgtacctgctgttcctCagatgatcggaatgctccct	8	12	1	2			TCGA-18-3419-01A-01D-0983-08	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	A	113704153	A	A	113704153	4	1	12	1	0	0	0	0	0	1	0	0	17055	835	29	2	2561	2	USP28	11	113704153	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	3667712	113704153	21302363	270	7157										
CEP164	22897	broad.mit.edu	37	chr11	117242073	117242073	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agcctctgaaaaggaagcacCagaggacacagtagatgcag	12	9	1	3			TCGA-18-3419-01A-01D-0983-08	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	A	117242073	A	A	117242073	3	1	12	1	0	0	0	0	1	0	0	0	3249	594	21	3	1069	3	CEP164	11	117242073	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	3537920	117242073	17764443	271	7158										
VSIG2	23584	broad.mit.edu	37	chr11	124617490	124617490	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggtgctggcagacgagggtcTttccaggaaccccttgctag	14	11	1	1			TCGA-18-3419-01A-01D-0983-08	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	A	124617490	A	A	124617490	4	1	12	1	0	0	0	0	0	1	0	0	17221	1617	56	5	62	5	VSIG2	11	124617490	Nonsense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	7375417	124617490	10389026	272	7159										
JAM3	83700	broad.mit.edu	37	chr11	134014177	134014177	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aaatactggggaagacatccCtgaagatctggaatgtgaca	11	7	1	4			TCGA-18-3419-01A-01D-0983-08	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	T	134014177	T	T	134014177	2	4	12	1	0	0	0	0	0	0	0	1	7944	680	24	3		3	JAM3	11	134014177	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	9396687	134014177	992339	273	7160										
VWF	7450	broad.mit.edu	37	chr12	6061676	6061676	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atcacagccatcctggagcgTctcatcacgctggaaggaaa	10	12	3	0			TCGA-18-3419-01A-01D-0983-08	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	C	6061676	C	C	6061676	3	2	12	1	0	0	0	0	1	0	0	0	17243	1667	58	5	461	5	VWF	12	6061676	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08		6061676	127790219	274	7161										
CD163	9332	broad.mit.edu	37	chr12	7635983	7635983	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctgtgcaattcactgcagcgTcttccttgtgcccacactca	7	15	3	0			TCGA-18-3419-01A-01D-0983-08	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	C	7635983	C	C	7635983	3	2	12	1	0	0	0	0	1	0	0	0	2967	1667	58	5	422	5	CD163	12	7635983	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	1574307	7635983	126215912	275	7162										
WBP11	51729	broad.mit.edu	37	chr12	14947471	14947471	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aaagaacagtcacttctcacCaagttcaggactatataaca	5	10	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	14947471	A	A	14947471	3	1	12	1	0	0	0	0	1	0	0	0	17255	608	21	3	1228	3	WBP11	12	14947471	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	7311488	14947471	118904424	276	7163										
PTPRO	5800	broad.mit.edu	37	chr12	15704492	15704492	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cttatctctttagttacagaGatgaatcccaatgtggtagt	8	7	1	2			TCGA-18-3419-01A-01D-0983-08	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	A	15704492	A	A	15704492	2	1	12	1	0	0	0	0	0	0	0	1	12809	933	33	2		2	PTPRO	12	15704492	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	757021	15704492	118147403	277	7164										
STRAP	11171	broad.mit.edu	37	chr12	16052959	16052959	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caaactgtggtaggaaaaacGtatggcctttggaaatgtgt	12	5	0	0	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	C	16052959	C	C	16052959	2	2	12	1	0	0	0	0	0	0	0	1	15325	1132	40	4		4	STRAP	12	16052959	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	348467	16052959	117798936	278	7165										
ITPR2	3709	broad.mit.edu	37	chr12	26572033	26572033	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aggcccagcatgcaaaccagGacatacgccacgtgatagag	11	12	0	2			TCGA-18-3419-01A-01D-0983-08	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	A	26572033	A	A	26572033	2	1	12	1	0	0	0	0	0	0	0	1	7921	1161	41	2		2	ITPR2	12	26572033	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	10519074	26572033	107279862	279	7166										
C12orf71	728858	broad.mit.edu	37	chr12	27235364	27235364	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cagagaggctcaggttggaaTtggatttggagctgtcgtcc	15	7	1	1			TCGA-18-3419-01A-01D-0983-08	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	C	27235364	C	C	27235364	3	2	12	1	0	0	0	0	1	0	0	0	1712	1493	52	5	764	5	C12orf71	12	27235364	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	663331	27235364	106616531	280	7167										
LRRK2	120892	broad.mit.edu	37	chr12	40671774	40671774	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	attcatttgacttagtaataTtccatcaaatgtcttccaat	3	8	3	1			TCGA-18-3419-01A-01D-0983-08	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	C	40671774	C	C	40671774	3	2	12	1	0	0	0	0	1	0	0	0	9033	1493	52	5	2092	5	LRRK2	12	40671774	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	13436410	40671774	93180121	281	7168										
SLC38A4	55089	broad.mit.edu	37	chr12	47163091	47163091	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaatccgaagatgtattttaTagttggcacaaggatgacca	10	6	0	2			TCGA-18-3419-01A-01D-0983-08	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	C	47163091	C	C	47163091	3	2	12	1	0	0	0	0	1	0	0	0	14606	1406	49	5	235	5	SLC38A4	12	47163091	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	6491317	47163091	86688804	282	7169										
FIGNL2	401720	broad.mit.edu	37	chr12	52216039	52216039	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aggaggttggaggcagtgagGgctgagatgtcgtcgtgtgc	20	5	0	2			TCGA-18-3419-01A-01D-0983-08	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	A	52216039	A	A	52216039	2	1	12	1	0	0	0	0	0	0	0	1	5893	1219	43	3		3	FIGNL2	12	52216039	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	5052948	52216039	81635856	283	7170										
SMARCC2	6601	broad.mit.edu	37	chr12	56575865	56575865	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgggatccacgtgtcgtaacTgccatgggaaattgagcaca	12	9	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	56575865	A	A	56575865	5	1	12	1	0	0	0	0	0	0	1	0	14776	1594	55	5	3194	5	SMARCC2	12	56575865	Splice_Site	SNP	T	TCGA-18-3419-01A-01D-0983-08	4359826	56575865	77276030	284	7171										
OS9	10956	broad.mit.edu	37	chr12	58089784	58089784	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agtcctctatctcggctactAccaatcagccttcgactggg	8	14	3	0			TCGA-18-3419-01A-01D-0983-08	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	G	58089784	G	G	58089784	3	3	12	1	0	0	0	0	1	0	0	0	11272	391	14	5	457	5	OS9	12	58089784	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	1513919	58089784	75762111	285	7172										
FAM119B	25895	broad.mit.edu	37	chr12	58174329	58174329	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gacagagagcttctttcagcAcctcctgccccagcatttcc	7	16	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	58174329	T	T	58174329	3	4	12	1	0	0	0	0	1	0	0	0	5414	159	6	5	734	5	FAM119B	12	58174329	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	84545	58174329	75677566	286	7173										
AVIL	10677	broad.mit.edu	37	chr12	58200197	58200197	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cgcagcagaaagacatcattGgagtttagggaggaggcaaa	14	6	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	58200197	T	T	58200197	2	4	12	1	0	0	0	0	0	0	0	1	1227	1335	47	3		3	AVIL	12	58200197	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	25868	58200197	75651698	287	7174										
RASSF9	9182	broad.mit.edu	37	chr12	86199048	86199048	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tttcctcatactgcaagtctAgattttgctcaacttcactg	5	11	4	1			TCGA-18-3419-01A-01D-0983-08	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	G	86199048	G	G	86199048	3	3	12	1	0	0	0	0	1	0	0	0	13093	420	15	5	571	5	RASSF9	12	86199048	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	27998851	86199048	47652847	288	7175										
C12orf63	374467	broad.mit.edu	37	chr12	97073530	97073530	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tatttcttgcacagacacaaGgtaaaatgcatgttctgtat	7	7	2	1	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	T	97073530	T	T	97073530	3	4	12	1	0	0	0	0	1	0	0	0	1706	1014	35	3	1013	3	C12orf63	12	97073530	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	10874482	97073530	36778365	289	7176										
NEDD1	121441	broad.mit.edu	37	chr12	97311443	97311443	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aattctacatctatgtatttGgtaagcggaggcctaaataa	8	6	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	97311443	T	T	97311443	3	4	12	1	0	0	0	0	1	0	0	0	10309	1339	47	3	311	3	NEDD1	12	97311443	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	237913	97311443	36540452	290	7177										
NFYB	4801	broad.mit.edu	37	chr12	104515090	104515090	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tccaccaattcccttttctcCtttcatagcctgaggaagga	6	13	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	104515090	A	A	104515090	4	1	12	1	0	0	0	0	0	1	0	0	10390	690	24	3	196	3	NFYB	12	104515090	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	7203647	104515090	29336805	291	7178										
RBM19	9904	broad.mit.edu	37	chr12	114395692	114395692	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	actggggtggcggaggaatcCtcttcctcggcctcactccc	12	15	2	0			TCGA-18-3419-01A-01D-0983-08	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	A	114395692	A	A	114395692	3	1	12	1	0	0	0	0	1	0	0	0	13121	680	24	3	2223	3	RBM19	12	114395692	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	9880602	114395692	19456203	292	7179										
KDM2B	84678	broad.mit.edu	37	chr12	121880003	121880003	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccgcatgcacacacacaggtCttggtggctgaggtagctga	13	11	1	2			TCGA-18-3419-01A-01D-0983-08	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	G	121880003	G	G	121880003	3	3	12	1	0	0	0	0	1	0	0	0	8125	913	32	2	841	2	KDM2B	12	121880003	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	7484311	121880003	11971892	293	7180										
DNAH10	196385	broad.mit.edu	37	chr12	124335508	124335508	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaaccccggctacgcaggccGcacggagctgcccgagtcgg	15	16	0	0			TCGA-18-3419-01A-01D-0983-08	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	A	124335508	A	A	124335508	3	1	12	1	0	0	0	0	1	0	0	0	4598	1087	38	1	5956	1	DNAH10	12	124335508	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2455505	124335508	9516387	294	7181										
AACS	65985	broad.mit.edu	37	chr12	125609519	125609519	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cactgaaagcccagagctacGagtatgtctacaggtgcatc	10	11	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	125609519	T	T	125609519	4	4	12	1	0	0	0	0	0	1	0	0	9	1059	37	2	1304	2	AACS	12	125609519	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1274011	125609519	8242376	295	7182										
GALNT9	50614	broad.mit.edu	37	chr12	132688051	132688051	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cggcctgtgggggactcaccGacatggggatgttccaggcc	16	12	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	132688051	A	A	132688051	3	1	12	1	0	0	0	0	1	0	0	0	6220	1072	37	2	569	2	GALNT9	12	132688051	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	7078532	132688051	1163844	296	7183										
FLT1	2321	broad.mit.edu	37	chr13	28880836	28880836	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caatcttgagcgaggccttgGgtttgctgtcagtccaggtg	14	9	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	28880836	T	T	28880836	3	4	12	1	0	0	0	0	1	0	0	0	5941	1232	43	3	230	3	FLT1	13	28880836	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08		28880836	86289042	297	7184										
MTUS2	23281	broad.mit.edu	37	chr13	29599505	29599505	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agaagacattgccagaccacGctgtcccggcagctttccct	9	15	0	3			TCGA-18-3419-01A-01D-0983-08	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	T	29599505	T	T	29599505	3	4	12	1	0	0	0	0	1	0	0	0	9966	1087	38	1	702	1	MTUS2	13	29599505	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	718669	29599505	85570373	298	7185										
DACH1	1602	broad.mit.edu	37	chr13	72204798	72204798	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttttcaccttcattgcttcaGcaatagctgcattggtagca	7	10	3	0			TCGA-18-3419-01A-01D-0983-08	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	A	72204798	A	A	72204798	3	1	12	1	0	0	0	0	1	0	0	0	4220	971	34	3	1140	3	DACH1	13	72204798	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	42605293	72204798	42965080	299	7186										
OR4M1	441670	broad.mit.edu	37	chr14	20249223	20249223	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cctgctattcccacattaccAttgtggtgctaatgtttggg	9	10	0	0			TCGA-18-3419-01A-01D-0983-08	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	T	20249223	T	T	20249223	3	4	12	1	0	0	0	0	1	0	0	0	11075	217	8	5	744	5	OR4M1	14	20249223	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08		20249223	87100317	300	7187										
OR11H6	122748	broad.mit.edu	37	chr14	20692525	20692525	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	actgagcttatctgttacacCttcaactcgatgattatctt	5	10	3	2			TCGA-18-3419-01A-01D-0983-08	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	T	20692525	T	T	20692525	2	4	12	1	0	0	0	0	0	0	0	1	10929	668	24	3		3	OR11H6	14	20692525	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	443302	20692525	86657015	301	7188										
SLC7A8	23428	broad.mit.edu	37	chr14	23607195	23607195	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agggcaacagaaatgggcatGatccaggccatgactcctag	12	10	0	3			TCGA-18-3419-01A-01D-0983-08	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	A	23607195	A	A	23607195	2	1	12	1	0	0	0	0	0	0	0	1	14704	1280	45	2		2	SLC7A8	14	23607195	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	2914670	23607195	83742345	302	7189										
CLEC14A	161198	broad.mit.edu	37	chr14	38724318	38724318	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgcagtggccggcgggcgccTggtgggcaccccggtccccc	17	17	0	0			TCGA-18-3419-01A-01D-0983-08	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	C	38724318	C	C	38724318	3	2	12	1	0	0	0	0	1	0	0	0	3499	1579	55	5	566	5	CLEC14A	14	38724318	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	15117123	38724318	68625222	303	7190										
PNN	5411	broad.mit.edu	37	chr14	39650180	39650180	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cttcagaaaatgaagctagcAaagaattggaaccagaaatg	9	6	1	4			TCGA-18-3419-01A-01D-0983-08	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	G	39650180	G	G	39650180	3	3	12	1	0	0	0	0	1	0	0	0	12160	131	5	5	1301	5	PNN	14	39650180	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	925862	39650180	67699360	304	7191										
FANCM	57697	broad.mit.edu	37	chr14	45605601	45605601	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaaagacctttattgccgccGtggtcatgtacaatttctac	8	10	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	45605601	T	T	45605601	3	4	12	1	0	0	0	0	1	0	0	0	5671	1145	40	1	369	1	FANCM	14	45605601	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	5955421	45605601	61743939	305	7192										
PTGDR	5729	broad.mit.edu	37	chr14	52735209	52735209	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cggcgccatgcgcaacctctAtgcgatgcaccggcggctgc	13	16	1	0			TCGA-18-3419-01A-01D-0983-08	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	G	52735209	G	G	52735209	3	3	12	1	0	0	0	0	1	0	0	0	12741	449	16	5	679	5	PTGDR	14	52735209	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	7129608	52735209	54614331	306	7193										
SYNE2	23224	broad.mit.edu	37	chr14	64593056	64593056	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttgattcaggaaaatatgacAgaagaagcatatatcaattt	7	4	2	4			TCGA-18-3419-01A-01D-0983-08	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	C	64593056	C	C	64593056	2	2	12	1	0	0	0	0	0	0	0	1	15443	175	7	5		5	SYNE2	14	64593056	Silent	SNP	A	TCGA-18-3419-01A-01D-0983-08	11857847	64593056	42756484	307	7194										
PLEKHH1	57475	broad.mit.edu	37	chr14	68052752	68052752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgcttgtgattagatctatcCcagacaagagctctggaaaa	9	8	2	4			TCGA-18-3419-01A-01D-0983-08	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	A	68052752	A	A	68052752	3	1	12	1	0	0	0	0	1	0	0	0	12076	623	22	3	3977	3	PLEKHH1	14	68052752	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	3459696	68052752	39296788	308	7195										
EXD2	55218	broad.mit.edu	37	chr14	69701606	69701606	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaatgagcagattgggagaaGaggttaatggggaagcaaca	16	3	0	4			TCGA-18-3419-01A-01D-0983-08	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	C	69701606	C	C	69701606	3	2	12	1	0	0	0	0	1	0	0	0	5298	943	33	2	542	2	EXD2	14	69701606	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1648854	69701606	37647934	309	7196										
PCNX	22990	broad.mit.edu	37	chr14	71444805	71444805	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tagggactatgtttgctttcGaggtgtttctggtaccaagc	12	7	1	0			TCGA-18-3419-01A-01D-0983-08	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	T	71444805	T	T	71444805	3	4	12	1	0	0	0	0	1	0	0	0	11591	1058	37	2	1773	2	PCNX	14	71444805	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1743199	71444805	35904735	310	7197										
TMEM90A	646658	broad.mit.edu	37	chr14	74876045	74876045	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	actcacctcctcttcctcctGgtcatcctcctggtcccgca	5	20	3	0			TCGA-18-3419-01A-01D-0983-08	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	T	74876045	T	T	74876045	3	4	12	1	0	0	0	0	1	0	0	0	16215	1357	47	3	325	3	TMEM90A	14	74876045	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	3431240	74876045	32473495	311	7198										
ATG2B	55102	broad.mit.edu	37	chr14	96797752	96797752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aagcttctgcaaacactgctCggaaagacttaaaatcttct	6	10	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	96797752	A	A	96797752	3	1	12	1	0	0	0	0	1	0	0	0	1094	884	31	2	4673	2	ATG2B	14	96797752	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	21921707	96797752	10551788	312	7199										
WARS	7453	broad.mit.edu	37	chr14	100803432	100803432	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcgagcttgtcgtcgtcctcGaggaagaaggtcaggtacat	13	9	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	100803432	T	T	100803432	2	4	12	1	0	0	0	0	0	0	0	1	17246	1045	37	2		2	WARS	14	100803432	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	4005680	100803432	6546108	313	7200										
DYNC1H1	1778	broad.mit.edu	37	chr14	102516143	102516143	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caggccaacagctggtccctGgaggagctctgcctggaagt	14	12	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	102516143	A	A	102516143	2	1	12	1	0	0	0	0	0	0	0	1	4841	1335	47	3		3	DYNC1H1	14	102516143	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	1712711	102516143	4833397	314	7201										
AHNAK2	113146	broad.mit.edu	37	chr14	105408151	105408151	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgggcatctccaccttgggcAggtgccctttgaggccggct	14	13	1	1			TCGA-18-3419-01A-01D-0983-08	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	G	105408151	G	G	105408151	3	3	12	1	0	0	0	0	1	0	0	0	415	188	7	5	3754	5	AHNAK2	14	105408151	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	2892008	105408151	1941389	315	7202										
GABRB3	2562	broad.mit.edu	37	chr15	26812774	26812774	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcataattgatccagaaggaCacccacgacagaatcgttat	7	10	1	3			TCGA-18-3419-01A-01D-0983-08	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	A	26812774	A	A	26812774	2	1	12	1	0	0	0	0	0	0	0	1	6168	465	17	3		3	GABRB3	15	26812774	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08		26812774	75718618	316	7203										
APBA2	321	broad.mit.edu	37	chr15	29346344	29346344	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cacctctgaggaggaggactAtgacgagggcctccctgagg	15	11	1	3			TCGA-18-3419-01A-01D-0983-08	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	G	29346344	G	G	29346344	3	3	12	1	0	0	0	0	1	0	0	0	757	449	16	5	259	5	APBA2	15	29346344	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	2533570	29346344	73185048	317	7204										
CAPN3	825	broad.mit.edu	37	chr15	42702161	42702161	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agacacacgggttcacactgGagtcctgccgtagcatgatt	11	11	1	2			TCGA-18-3419-01A-01D-0983-08	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	C	42702161	C	C	42702161	3	2	12	1	0	0	0	0	1	0	0	0	2628	1175	41	2	2209	2	CAPN3	15	42702161	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	13355817	42702161	59829231	318	7205										
UBR1	197131	broad.mit.edu	37	chr15	43367268	43367268	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctccacagtcacagaaccctCctccagtagaagtatgcatc	6	15	1	2			TCGA-18-3419-01A-01D-0983-08	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	A	43367268	A	A	43367268	3	1	12	1	0	0	0	0	1	0	0	0	16898	855	30	2	4988	2	UBR1	15	43367268	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	665107	43367268	59164124	319	7206										
SLC24A5	283652	broad.mit.edu	37	chr15	48426537	48426537	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaattagttactgctttcctAggtaaatattgctccttata	6	7	0	0			TCGA-18-3419-01A-01D-0983-08	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	G	48426537	G	G	48426537	2	3	12	1	0	0	0	0	0	0	0	1	14469	434	15	5		5	SLC24A5	15	48426537	Silent	SNP	A	TCGA-18-3419-01A-01D-0983-08	5059269	48426537	54104855	320	7207										
MAPK6	5597	broad.mit.edu	37	chr15	52353627	52353627	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caatttcaagccatccttttCatattgaagatgaagttgat	6	7	2	4			TCGA-18-3419-01A-01D-0983-08	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	G	52353627	G	G	52353627	3	3	12	1	0	0	0	0	1	0	0	0	9281	826	29	2	1011	2	MAPK6	15	52353627	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	3927090	52353627	50177765	321	7208										
RFX7	64864	broad.mit.edu	37	chr15	56385972	56385972	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgaccggtgctattacttttGgtgaggtaagatggtgtttg	14	4	0	3			TCGA-18-3419-01A-01D-0983-08	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	C	56385972	C	C	56385972	2	2	12	1	0	0	0	0	0	0	0	1	13268	1335	47	4		4	RFX7	15	56385972	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	4032345	56385972	46145420	322	7209										
ADAM10	102	broad.mit.edu	37	chr15	58971384	58971384	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gttcggtctttaatatatctCtctgctggctcaacataaaa	6	9	4	0			TCGA-18-3419-01A-01D-0983-08	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	G	58971384	G	G	58971384	3	3	12	1	0	0	0	0	1	0	0	0	234	912	32	2	1875	2	ADAM10	15	58971384	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2585412	58971384	43560008	323	7210										
CA12	771	broad.mit.edu	37	chr15	63634235	63634235	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccaggacagcgaggccttctGacttgttgctggcagtgctg	14	11	1	1			TCGA-18-3419-01A-01D-0983-08	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	A	63634235	A	A	63634235	3	1	12	1	0	0	0	0	1	0	0	0	2513	1294	45	2	601	2	CA12	15	63634235	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	4662851	63634235	38897157	324	7211										
HEXA	3073	broad.mit.edu	37	chr15	72639016	72639016	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atatagttcactggaatatcCtctcgccacacctgtatgat	6	11	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	72639016	A	A	72639016	3	1	12	1	0	0	0	0	1	0	0	0	7073	680	24	3	423	3	HEXA	15	72639016	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	9004781	72639016	29892376	325	7212										
AP3B2	8120	broad.mit.edu	37	chr15	83332678	83332678	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgacgcttctccttttctctCtggcaccttcttctttgtct	5	14	6	1			TCGA-18-3419-01A-01D-0983-08	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	G	83332678	G	G	83332678	3	3	12	1	0	0	0	0	1	0	0	0	745	922	32	2	1026	2	AP3B2	15	83332678	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	10693662	83332678	19198714	326	7213										
BNC1	646	broad.mit.edu	37	chr15	83935710	83935710	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	taggatttttaggcgaacggGgatggcctgggtcccataga	15	7	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	83935710	A	A	83935710	3	1	12	1	0	0	0	0	1	0	0	0	1474	1232	43	3	2683	3	BNC1	15	83935710	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	603032	83935710	18595682	327	7214										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84553954	84553954	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttctttccctgcactgtgacGtgtggaggaggtgaggccca	14	10	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	84553954	T	T	84553954	2	4	12	1	0	0	0	0	0	0	0	1	276	1132	40	1		1	ADAMTSL3	15	84553954	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	618244	84553954	17977438	328	7215										
NTRK3	4916	broad.mit.edu	37	chr15	88678483	88678483	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atctctccctcttggtagtaTtccacatggatgatcttgga	8	10	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	88678483	A	A	88678483	3	1	12	1	0	0	0	0	1	0	0	0	10708	1490	52	5	1772	5	NTRK3	15	88678483	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	4124529	88678483	13852909	329	7216										
ZSCAN10	84891	broad.mit.edu	37	chr16	3142733	3142733	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccggccgcagccagtggccgCagagctcccggagccggctc	15	18	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	3142733	A	A	3142733	3	1	12	1	0	0	0	0	1	0	0	0	18224	710	25	3	2156	3	ZSCAN10	16	3142733	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08		3142733	87212020	330	7217										
MEFV	4210	broad.mit.edu	37	chr16	3304583	3304583	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggccctccgaggccttctctCtgcgtttgctcaggggcttc	12	15	3	0			TCGA-18-3419-01A-01D-0983-08	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	G	3304583	G	G	3304583	3	3	12	1	0	0	0	0	1	0	0	0	9459	913	32	2	1896	2	MEFV	16	3304583	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	161850	3304583	87050170	331	7218										
CREBBP	1387	broad.mit.edu	37	chr16	3778059	3778059	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tggcgatctgctggccagggAgatgcgaggcctgtggctgt	18	9	1	1			TCGA-18-3419-01A-01D-0983-08	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	C	3778059	C	C	3778059	3	2	12	1	0	0	0	0	1	0	0	0	3861	304	11	5	343	5	CREBBP	16	3778059	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	473476	3778059	86576694	332	7219										
NOMO1	23420	broad.mit.edu	37	chr16	14960470	14960470	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agcctggaggtggaagtgctGgaggatgacatgtctgcagt	17	6	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	14960470	T	T	14960470	2	4	12	1	0	0	0	0	0	0	0	1	10531	1335	47	3		3	NOMO1	16	14960470	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	11182411	14960470	75394283	333	7220										
GTF3C1	2975	broad.mit.edu	37	chr16	27497327	27497327	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctggttggtaccttggtgttGaggacattgctggcaatgcg	15	7	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	27497327	T	T	27497327	2	4	12	1	0	0	0	0	0	0	0	1	6872	1277	45	2		2	GTF3C1	16	27497327	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	12536857	27497327	62857426	334	7221										
MAZ	4150	broad.mit.edu	37	chr16	29819136	29819136	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acaactgctcccactgtggcAagagcttctcccggtgtgca	10	14	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	29819136	T	T	29819136	4	4	12	1	0	0	0	0	0	1	0	0	9340	131	5	5	1036	5	MAZ	16	29819136	Nonsense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	2321809	29819136	60535617	335	7222										
ZNF267	10308	broad.mit.edu	37	chr16	31926601	31926601	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tactcaacatcagatcattcCtaccgaagagaaaccctgta	5	12	3	2			TCGA-18-3419-01A-01D-0983-08	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	A	31926601	A	A	31926601	3	1	12	1	0	0	0	0	1	0	0	0	17803	681	24	3	1045	3	ZNF267	16	31926601	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2107465	31926601	58428152	336	7223										
ZNF267	10308	broad.mit.edu	37	chr16	31927618	31927618	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tacacatcggagaagacataCtggagagagaccctacaaat	9	9	0	4			TCGA-18-3419-01A-01D-0983-08	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	G	31927618	G	G	31927618	3	3	12	1	0	0	0	0	1	0	0	0	17803	565	20	4	2062	4	ZNF267	16	31927618	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1017	31927618	58427135	337	7224										
CHD9	80205	broad.mit.edu	37	chr16	53279391	53279391	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gatctgaaaacagaggaacaGgtatcctattgctctttgta	9	7	2	2			TCGA-18-3419-01A-01D-0983-08	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	T	53279391	T	T	53279391	3	4	12	1	0	0	0	0	1	0	0	0	3332	1014	35	3	3248	3	CHD9	16	53279391	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	21351773	53279391	37075362	338	7225										
RPGRIP1L	23322	broad.mit.edu	37	chr16	53726041	53726041	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tctacgcccagtgttaatacGagattgtacattattgtatg	8	7	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	53726041	T	T	53726041	3	4	12	1	0	0	0	0	1	0	0	0	13550	1058	37	2	3577	2	RPGRIP1L	16	53726041	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	446650	53726041	36628712	339	7226										
IRX6	79190	broad.mit.edu	37	chr16	55361548	55361548	+	Frame_Shift_Del	DEL	G	-	-													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcgccgaaagaacgcgacccGggagaccaccagtacactca							TCGA-18-3419-01A-01D-0983-08	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	---	---	---	---		-	55361548	-	-	55361548	7	5	12	1	0	1	0	1	0	0	0	0	7848	1116	39	0	478	0	IRX6	16	55361548	Frame_Shift_Del	DEL	G	TCGA-18-3419-01A-01D-0983-08	1635507	55361548	34993205	340	7227										
NLRC5	84166	broad.mit.edu	37	chr16	57059801	57059801	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tagatgaggccctccagcctAtgggtcctgatggcccaggc	13	13	0	3			TCGA-18-3419-01A-01D-0983-08	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	G	57059801	G	G	57059801	3	3	12	1	0	0	0	0	1	0	0	0	10470	449	16	5	960	5	NLRC5	16	57059801	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	1698253	57059801	33294952	341	7228										
PDPR	55066	broad.mit.edu	37	chr16	70190383	70190383	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcctttctttcttagggcatGgatttcattggtcgcgacgc	10	10	3	0			TCGA-18-3419-01A-01D-0983-08	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	T	70190383	T	T	70190383	3	4	12	1	0	0	0	0	1	0	0	0	11689	1348	47	3	2307	3	PDPR	16	70190383	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	13130582	70190383	20164370	342	7229										
COG4	25839	broad.mit.edu	37	chr16	70543256	70543256	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tggcccataataggtctccaCtattggctggtgggtctcca	11	11	2	0			TCGA-18-3419-01A-01D-0983-08	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	A	70543256	A	A	70543256	3	1	12	1	0	0	0	0	1	0	0	0	3660	565	20	3	1541	3	COG4	16	70543256	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	352873	70543256	19811497	343	7230										
PMFBP1	83449	broad.mit.edu	37	chr16	72170400	72170400	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggtgaactccagctgcagctCctgcagccggcactgcagga	13	14	0	1	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	G	72170400	G	G	72170400	3	3	12	1	0	0	0	0	1	0	0	0	12134	864	30	2	1985	2	PMFBP1	16	72170400	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1627144	72170400	18184353	344	7231										
BCMO1	53630	broad.mit.edu	37	chr16	81298358	81298358	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtggaaaaggggaagacaaaGtatgtgatttttaagatccc	12	4	0	3	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	T	81298358	T	T	81298358	3	4	12	1	0	0	0	0	1	0	0	0	1384	1020	36	3	603	3	BCMO1	16	81298358	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	9127958	81298358	9056395	345	7232										
PLCG2	5336	broad.mit.edu	37	chr16	81819732	81819732	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cggagaaccgtccaggtgatCatggagacgcggcaggtggc	17	10	1	3			TCGA-18-3419-01A-01D-0983-08	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	T	81819732	T	T	81819732	2	4	12	1	0	0	0	0	0	0	0	1	12036	816	29	2		2	PLCG2	16	81819732	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	521374	81819732	8535021	346	7233										
SMYD4	114826	broad.mit.edu	37	chr17	1687711	1687711	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aggtggtccctgctgacggcGgattctgcacaagatctgct	13	11	2	2	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	A	1687711	A	A	1687711	2	1	12	1	0	0	0	0	0	0	0	1	14824	1103	39	1		1	SMYD4	17	1687711	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08		1687711	79507499	347	7234										
UBE2G1	7326	broad.mit.edu	37	chr17	4192629	4192629	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gatagggagccagcgttcctCtggcttttcataaccatact	9	11	2	0			TCGA-18-3419-01A-01D-0983-08	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	A	4192629	A	A	4192629	4	1	12	1	0	0	0	0	0	1	0	0	16853	922	32	2	198	2	UBE2G1	17	4192629	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2504918	4192629	77002581	348	7235										
ZNF594	84622	broad.mit.edu	37	chr17	5086471	5086471	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctgctcttccctaagctcctCatccttgctgaaggttttct	6	14	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	5086471	A	A	5086471	4	1	12	1	0	0	0	0	0	1	0	0	18021	835	29	2	1346	2	ZNF594	17	5086471	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	893842	5086471	76108739	349	7236										
TP53	7157	broad.mit.edu	37	chr17	7577505	7577505	+	Missense_Mutation	SNP	T	A	A													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aagtggctcctgacctggagTcttccagtgtgatgatggtg							TCGA-18-3419-01A-01D-0983-08	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	A	7577505	A	A	7577505	3	1	12	1	0	0	0	0	1	0	0	0	16378	1667	58	5	514	5	TP53	17	7577505	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	2491034	7577505	73617705	350	7237	229	2								
TP53	7157	broad.mit.edu	37	chr17	7577506	7577506	+	Missense_Mutation	SNP	C	A	A													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agtggctcctgacctggagtCttccagtgtgatgatggtga							TCGA-18-3419-01A-01D-0983-08	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	A	7577506	A	A	7577506	3	1	12	1	0	0	0	0	1	0	0	0	16378	913	32	2	515	2	TP53	17	7577506	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1	7577506	73617704	351	7238	229	2								
TOP3A	7156	broad.mit.edu	37	chr17	18196077	18196077	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tctgggcaaaggccccccagCgtggatcgggggtctgctgt	16	12	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	18196077	T	T	18196077	3	4	12	1	0	0	0	0	1	0	0	0	16364	768	27	1	1878	1	TOP3A	17	18196077	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	10618571	18196077	62999133	352	7239										
KCNH4	23415	broad.mit.edu	37	chr17	40332908	40332908	+	Missense_Mutation	SNP	G	T	T													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gcgttccgtcaaaacgggtgGcgatggtgtccaggaaggtg							TCGA-18-3419-01A-01D-0983-08	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	T	40332908	T	T	40332908	3	4	12	1	0	0	0	0	1	0	0	0	8034	1203	42	3	3061	3	KCNH4	17	40332908	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	22136831	40332908	40862302	353	7240	230	2								
KCNH4	23415	broad.mit.edu	37	chr17	40332909	40332909	+	Missense_Mutation	SNP	C	T	T													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cgttccgtcaaaacgggtggCgatggtgtccaggaaggtgt							TCGA-18-3419-01A-01D-0983-08	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	T	40332909	T	T	40332909	3	4	12	1	0	0	0	0	1	0	0	0	8034	768	27	1	3062	1	KCNH4	17	40332909	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1	40332909	40862301	354	7241	230	2								
PTRF	284119	broad.mit.edu	37	chr17	40575028	40575028	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cgacggctcctccgctgcctGagccccagcggaggaaggct	14	16	0	1			TCGA-18-3419-01A-01D-0983-08	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	C	40575028	C	C	40575028	3	2	12	1	0	0	0	0	1	0	0	0	12815	1299	45	2	1092	2	PTRF	17	40575028	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	242119	40575028	40620182	355	7242										
PTRF	284119	broad.mit.edu	37	chr17	40575045	40575045	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cctgagccccagcggaggaaGgctccggggcctcggcgtcg	17	15	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	40575045	A	A	40575045	3	1	12	1	0	0	0	0	1	0	0	0	12815	1000	35	3	1109	3	PTRF	17	40575045	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	17	40575045	40620165	356	7243										
BECN1	8678	broad.mit.edu	37	chr17	40966595	40966595	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gcatggagcagcaacacagtCtggccccaagcagcattaat	10	12	1	0			TCGA-18-3419-01A-01D-0983-08	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	G	40966595	G	G	40966595	3	3	12	1	0	0	0	0	1	0	0	0	1396	912	32	2	441	2	BECN1	17	40966595	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	391550	40966595	40228615	357	7244										
RUNDC1	146923	broad.mit.edu	37	chr17	41143505	41143505	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cgcagtgcagactcagaattGaaggccttggtgtgcatggc	14	9	1	3			TCGA-18-3419-01A-01D-0983-08	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	A	41143505	A	A	41143505	2	1	12	1	0	0	0	0	0	0	0	1	13742	1281	45	2		2	RUNDC1	17	41143505	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	176910	41143505	40051705	358	7245										
GPATCH8	23131	broad.mit.edu	37	chr17	42478693	42478693	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctttatctgtggagaattcaGatcccaggccacaagaagca	9	10	2	3			TCGA-18-3419-01A-01D-0983-08	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	T	42478693	T	T	42478693	3	4	12	1	0	0	0	0	1	0	0	0	6594	942	33	2	3760	2	GPATCH8	17	42478693	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1335188	42478693	38716517	359	7246										
ACBD4	79777	broad.mit.edu	37	chr17	43214419	43214419	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgcccctgggtgaggtggcaGaggacatgtttggttacttc	15	8	0	2			TCGA-18-3419-01A-01D-0983-08	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	C	43214419	C	C	43214419	3	2	12	1	0	0	0	0	1	0	0	0	124	943	33	2	342	2	ACBD4	17	43214419	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	735726	43214419	37980791	360	7247										
KIAA1267	284058	broad.mit.edu	37	chr17	44248240	44248240	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caggggtacatgacgctgctCgggatcagctctggtcagtt	14	10	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	44248240	A	A	44248240	4	1	12	1	0	0	0	0	0	1	0	0	8219	893	31	2	2103	2	KIAA1267	17	44248240	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1033821	44248240	36946970	361	7248										
RSAD1	55316	broad.mit.edu	37	chr17	48560734	48560734	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atttatgccccagggggctgGaggccacacccgggaggctc	15	13	0	0			TCGA-18-3419-01A-01D-0983-08	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	A	48560734	A	A	48560734	3	1	12	1	0	0	0	0	1	0	0	0	13694	1174	41	2	960	2	RSAD1	17	48560734	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	4312494	48560734	32634476	362	7249										
DGKE	8526	broad.mit.edu	37	chr17	54912380	54912380	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cagccagcccacctactgctGcgtgtgcgcgcagcacattc	10	17	0	0			TCGA-18-3419-01A-01D-0983-08	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	T	54912380	T	T	54912380	3	4	12	1	0	0	0	0	1	0	0	0	4468	1319	46	3	226	3	DGKE	17	54912380	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	6351646	54912380	26282830	363	7250										
BZRAP1	9256	broad.mit.edu	37	chr17	56387418	56387418	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcctcttcctcctcctcctcCtcctcttcctcttcctcctg	1	23	3	0			TCGA-18-3419-01A-01D-0983-08	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	T	56387418	T	T	56387418	2	4	12	1	0	0	0	0	0	0	0	1	1577	680	24	3		3	BZRAP1	17	56387418	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	1475038	56387418	24807792	364	7251										
BCAS3	54828	broad.mit.edu	37	chr17	59155868	59155868	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttttggattttgatacagatGatcttgatctcaacagtctc	7	7	3	4			TCGA-18-3419-01A-01D-0983-08	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	T	59155868	T	T	59155868	3	4	12	1	0	0	0	0	1	0	0	0	1352	1290	45	2	2432	2	BCAS3	17	59155868	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2768450	59155868	22039342	365	7252										
SCN4A	6329	broad.mit.edu	37	chr17	62034644	62034644	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caggatgcggaagacgatgaGgaaggagtggaagaaatcat	16	4	1	3			TCGA-18-3419-01A-01D-0983-08	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	T	62034644	T	T	62034644	3	4	12	1	0	0	0	0	1	0	0	0	13920	1000	35	3	3304	3	SCN4A	17	62034644	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2878776	62034644	19160566	366	7253										
DDX5	1655	broad.mit.edu	37	chr17	62500359	62500359	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccagggaaattggcttcataAaaatttagaactggcttcgg	10	7	1	1			TCGA-18-3419-01A-01D-0983-08	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	C	62500359	C	C	62500359	3	2	12	1	0	0	0	0	1	0	0	0	4367	11	1	5	1600	5	DDX5	17	62500359	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	465715	62500359	18694851	367	7254										
RNF213	57674	broad.mit.edu	37	chr17	78322000	78322000	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggctgtcgcaggagtactttCacagacagaggcacaactcc	11	12	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	78322000	T	T	78322000	3	4	12	1	0	0	0	0	1	0	0	0	13477	826	29	2	10294	2	RNF213	17	78322000	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	15821641	78322000	2873210	368	7255										
PYCR1	5831	broad.mit.edu	37	chr17	79891161	79891161	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agaaggtgacagagcggtccCtgcaggggagtccagcttca	15	10	1	3			TCGA-18-3419-01A-01D-0983-08	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	T	79891161	T	T	79891161	3	4	12	1	0	0	0	0	1	0	0	0	12855	681	24	3	162	3	PYCR1	17	79891161	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1569161	79891161	1304049	369	7256										
FASN	2194	broad.mit.edu	37	chr17	80053236	80053236	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	taggtgacttccagcagcagCcgcagctgagggtccatcgt	13	12	0	2			TCGA-18-3419-01A-01D-0983-08	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	T	80053236	T	T	80053236	2	4	12	1	0	0	0	0	0	0	0	1	5683	726	26	3		3	FASN	17	80053236	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	162075	80053236	1141974	370	7257										
C17orf101	79701	broad.mit.edu	37	chr17	80369398	80369398	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acctctgccgcactttcgggGagtgcagcctgtgaagggac	14	12	1	1			TCGA-18-3419-01A-01D-0983-08	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	A	80369398	A	A	80369398	3	1	12	1	0	0	0	0	1	0	0	0	1848	1174	41	2	851	2	C17orf101	17	80369398	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	316162	80369398	825812	371	7258										
LAMA1	284217	broad.mit.edu	37	chr18	6949175	6949175	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccctccacatccagcatggtTccatctcccaccacagtcac	4	20	2	0			TCGA-18-3419-01A-01D-0983-08	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	C	6949175	C	C	6949175	2	2	12	1	0	0	0	0	0	0	0	1	8605	1770	62	5		5	LAMA1	18	6949175	Silent	SNP	T	TCGA-18-3419-01A-01D-0983-08		6949175	71128073	372	7259										
ROCK1	6093	broad.mit.edu	37	chr18	18608740	18608740	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctgtttagcatacttacctaCgattgctataatatgtaaat	5	7	0	0			TCGA-18-3419-01A-01D-0983-08	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	T	18608740	T	T	18608740	3	4	12	1	0	0	0	0	1	0	0	0	13517	536	19	1	2952	1	ROCK1	18	18608740	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	11659565	18608740	59468508	373	7260										
ZNF521	25925	broad.mit.edu	37	chr18	22804669	22804669	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgcttggaacggaattctttGaggcaagatgcgcacttata	11	7	1	2			TCGA-18-3419-01A-01D-0983-08	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	C	22804669	C	C	22804669	2	2	12	1	0	0	0	0	0	0	0	1	17962	1277	45	2		2	ZNF521	18	22804669	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	4195929	22804669	55272579	374	7261										
RNF125	54941	broad.mit.edu	37	chr18	29648306	29648306	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttatccgaagagtcttagacCggtcacttcttgaatatgtg	9	8	3	3			TCGA-18-3419-01A-01D-0983-08	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	T	29648306	T	T	29648306	3	4	12	1	0	0	0	0	1	0	0	0	13434	643	23	1	680	1	RNF125	18	29648306	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	6843637	29648306	48428942	375	7262										
SYT4	6860	broad.mit.edu	37	chr18	40850348	40850348	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cacttggcaatttgtctcctGgggtagtcacagatctcttt	9	10	3	1			TCGA-18-3419-01A-01D-0983-08	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	A	40850348	A	A	40850348	2	1	12	1	0	0	0	0	0	0	0	1	15473	1335	47	3		3	SYT4	18	40850348	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	11202042	40850348	37226900	376	7263										
ME2	4200	broad.mit.edu	37	chr18	48434457	48434457	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tggcatttactttacaagaaCgacaaatgcttggtcttcaa	7	8	2	1	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	T	48434457	T	T	48434457	4	4	12	1	0	0	0	0	0	1	0	0	9418	528	19	1	139	1	ME2	18	48434457	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	7584109	48434457	29642791	377	7264										
STXBP2	6813	broad.mit.edu	37	chr19	7712063	7712063	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gccaggacgccgtggaggacCggctggacaggaacctgtgg	18	11	0	0			TCGA-18-3419-01A-01D-0983-08	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	T	7712063	T	T	7712063	3	4	12	1	0	0	0	0	1	0	0	0	15352	643	23	1	1534	1	STXBP2	19	7712063	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08		7712063	51416920	378	7265										
MUC16	94025	broad.mit.edu	37	chr19	8993007	8993007	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agcatcggttgaatactcacTgctggtggtgggtacagagc	14	8	1	2			TCGA-18-3419-01A-01D-0983-08	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	C	8993007	C	C	8993007	3	2	12	1	0	0	0	0	1	0	0	0	9973	1594	55	5	1843	5	MUC16	19	8993007	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	1280944	8993007	50135976	379	7266										
ZNF560	147741	broad.mit.edu	37	chr19	9577339	9577339	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aaagggtttctctcccatatGagttcttaaatgttgaatac	7	7	2	2			TCGA-18-3419-01A-01D-0983-08	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	C	9577339	C	C	9577339	3	2	12	1	0	0	0	0	1	0	0	0	17988	1290	45	2	92	2	ZNF560	19	9577339	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	584332	9577339	49551644	380	7267										
COL5A3	50509	broad.mit.edu	37	chr19	10083669	10083669	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agcagctccagatgggcctgAgtcccccttttcaccaatgt	9	14	1	2			TCGA-18-3419-01A-01D-0983-08	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	G	10083669	G	G	10083669	3	3	12	1	0	0	0	0	1	0	0	0	3698	304	11	5	1605	5	COL5A3	19	10083669	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	506330	10083669	49045314	381	7268										
DOCK6	57572	broad.mit.edu	37	chr19	11362852	11362852	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcctgctcaaagacctggcgGgggaggcccttctgtcgctc	13	14	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	11362852	A	A	11362852	2	1	12	1	0	0	0	0	0	0	0	1	4691	1219	43	3		3	DOCK6	19	11362852	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	1279183	11362852	47766131	382	7269										
CCDC151	115948	broad.mit.edu	37	chr19	11537557	11537557	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtaatgtgctcggcctcctgCgccttcatctgggccttctc	10	15	3	0			TCGA-18-3419-01A-01D-0983-08	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	G	11537557	G	G	11537557	2	3	12	1	0	0	0	0	0	0	0	1	2786	755	27	4		4	CCDC151	19	11537557	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	174705	11537557	47591426	383	7270										
ELAVL3	1995	broad.mit.edu	37	chr19	11577040	11577040	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gagggtgttgatggctttgtCtgcatcattggggtcagaat	15	5	3	2			TCGA-18-3419-01A-01D-0983-08	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	T	11577040	T	T	11577040	3	4	12	1	0	0	0	0	1	0	0	0	5051	913	32	2	843	2	ELAVL3	19	11577040	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	39483	11577040	47551943	384	7271										
FARSA	2193	broad.mit.edu	37	chr19	13041515	13041515	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccgggcaatctcctcgccctCcgcagtaagctcccagtgct	9	18	1	0			TCGA-18-3419-01A-01D-0983-08	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	T	13041515	T	T	13041515	3	4	12	1	0	0	0	0	1	0	0	0	5679	864	30	2	1378	2	FARSA	19	13041515	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1464475	13041515	46087468	385	7272										
OR7A10	390892	broad.mit.edu	37	chr19	14951900	14951900	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgtgtgtgaattgtgggtggCagcagaactaaggtacaccc	14	7	0	2			TCGA-18-3419-01A-01D-0983-08	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	G	14951900	G	G	14951900	3	3	12	1	0	0	0	0	1	0	0	0	11214	710	25	4	143	4	OR7A10	19	14951900	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1910385	14951900	44177083	386	7273										
SLC35E1	79939	broad.mit.edu	37	chr19	16664518	16664518	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	catagcggttcaaactgtacGagtttgggtagctctgccgg	13	9	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	16664518	T	T	16664518	4	4	12	1	0	0	0	0	0	1	0	0	14584	1059	37	2	31	2	SLC35E1	19	16664518	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1712618	16664518	42464465	387	7274										
SFRS14	10147	broad.mit.edu	37	chr19	19112431	19112431	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	attacgctcaccttctttttGgacatgggacgaccccgagg	10	12	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	19112431	T	T	19112431	2	4	12	1	0	0	0	0	0	0	0	1	14170	1335	47	3		3	SFRS14	19	19112431	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	2447913	19112431	40016552	388	7275										
ZNF99	7652	broad.mit.edu	37	chr19	22941187	22941187	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccacattcttcacatttgcaAggtttctcttccatatgaat	4	11	3	1			TCGA-18-3419-01A-01D-0983-08	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	T	22941187	T	T	22941187	2	4	12	1	0	0	0	0	0	0	0	1	18201	59	3	5		5	ZNF99	19	22941187	Silent	SNP	A	TCGA-18-3419-01A-01D-0983-08	3828756	22941187	36187796	389	7276										
CHST8	64377	broad.mit.edu	37	chr19	34262868	34262868	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tcttcttgccccaggacctcCcaccaggcggctcccaggat	9	18	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	34262868	T	T	34262868	3	4	12	1	0	0	0	0	1	0	0	0	3410	623	22	3	185	3	CHST8	19	34262868	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	11321681	34262868	24866115	390	7277										
CD22	933	broad.mit.edu	37	chr19	35823475	35823475	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaatacttggctttctctgaCtcaagtaaatgggtttttga	9	6	2	2			TCGA-18-3419-01A-01D-0983-08	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	A	35823475	A	A	35823475	3	1	12	1	0	0	0	0	1	0	0	0	2985	564	20	3	66	3	CD22	19	35823475	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1560607	35823475	23305508	391	7278										
ZNF585B	92285	broad.mit.edu	37	chr19	37680650	37680650	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cacctctggtttaggaacttGataccctgttcatgggaaat	9	9	2	1			TCGA-18-3419-01A-01D-0983-08	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	C	37680650	C	C	37680650	3	2	12	1	0	0	0	0	1	0	0	0	18015	1299	45	2	2112	2	ZNF585B	19	37680650	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1857175	37680650	21448333	392	7279										
ZNF383	163087	broad.mit.edu	37	chr19	37734138	37734138	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aacatcagagaattcatactGgtgagaaaccctatgagtgc	9	8	2	3			TCGA-18-3419-01A-01D-0983-08	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	T	37734138	T	T	37734138	3	4	12	1	0	0	0	0	1	0	0	0	17871	1348	47	3	1014	3	ZNF383	19	37734138	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	53488	37734138	21394845	393	7280										
RPS19	6223	broad.mit.edu	37	chr19	42373788	42373788	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gcggccgcaaactgacacctCagggacaaagagatctggac	12	12	2	2			TCGA-18-3419-01A-01D-0983-08	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	T	42373788	T	T	42373788	4	4	12	1	0	0	0	0	0	1	0	0	13629	827	29	2	390	2	RPS19	19	42373788	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	4639650	42373788	16755195	394	7281										
CLPTM1	1209	broad.mit.edu	37	chr19	45493665	45493665	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gcgcacagatatccagttctGgaacagccggcagtccctgg	12	13	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	45493665	T	T	45493665	3	4	12	1	0	0	0	0	1	0	0	0	3554	1357	47	3	1183	3	CLPTM1	19	45493665	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	3119877	45493665	13635318	395	7282										
PGLYRP1	8993	broad.mit.edu	37	chr19	46526200	46526200	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctatggggctgcagcaggccGggtcttctgtctcctgagcc	14	13	3	1			TCGA-18-3419-01A-01D-0983-08	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	T	46526200	T	T	46526200	3	4	12	1	0	0	0	0	1	0	0	0	11793	1116	39	1	522	1	PGLYRP1	19	46526200	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1032535	46526200	12602783	396	7283										
GRWD1	83743	broad.mit.edu	37	chr19	48949683	48949683	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	acatagtccgggatcacctgGgagacaaccggacagagctt	12	11	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	48949683	T	T	48949683	4	4	12	1	0	0	0	0	0	1	0	0	6811	1233	43	3	235	3	GRWD1	19	48949683	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	2423483	48949683	10179300	397	7284										
RCN3	57333	broad.mit.edu	37	chr19	50040310	50040310	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtgaagaatttcatgacgtgGaggatgcagagacctacaaa	12	6	1	4			TCGA-18-3419-01A-01D-0983-08	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	C	50040310	C	C	50040310	3	2	12	1	0	0	0	0	1	0	0	0	13181	1175	41	2	476	2	RCN3	19	50040310	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1090627	50040310	9088673	398	7285										
SIGLEC11	114132	broad.mit.edu	37	chr19	50463852	50463852	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttgctcaggaaactatgtctCacacggcttcctctctccac	6	15	3	0			TCGA-18-3419-01A-01D-0983-08	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	G	50463852	G	G	50463852	2	3	12	1	0	0	0	0	0	0	0	1	14307	813	29	2		2	SIGLEC11	19	50463852	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	423542	50463852	8665131	399	7286										
PRKCG	5582	broad.mit.edu	37	chr19	54401227	54401227	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccacagcgggtgcggatgggCccctcttcctctcccatccc	10	19	2	0			TCGA-18-3419-01A-01D-0983-08	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	A	54401227	A	A	54401227	2	1	12	1	0	0	0	0	0	0	0	1	12512	726	26	3		3	PRKCG	19	54401227	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	3937375	54401227	4727756	400	7287										
LILRA2	11027	broad.mit.edu	37	chr19	55086892	55086892	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tggcagccccaggctgggctCtcccaggccaacttcaccct	10	18	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	55086892	T	T	55086892	2	4	12	1	0	0	0	0	0	0	0	1	8785	900	32	2		2	LILRA2	19	55086892	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	685665	55086892	4042091	401	7288										
PTPRH	5794	broad.mit.edu	37	chr19	55713428	55713428	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggcgactgcctctcacctgtGgtggcatttcgagtctcccg	12	14	2	0			TCGA-18-3419-01A-01D-0983-08	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	T	55713428	T	T	55713428	2	4	12	1	0	0	0	0	0	0	0	1	12803	1335	47	3		3	PTPRH	19	55713428	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	626536	55713428	3415555	402	7289										
BRSK1	84446	broad.mit.edu	37	chr19	55813535	55813535	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttcagaaacatccttggtacCtgtgagtatggggtaactgg	12	7	1	2			TCGA-18-3419-01A-01D-0983-08	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	A	55813535	A	A	55813535	3	1	12	1	0	0	0	0	1	0	0	0	1523	695	24	3	890	3	BRSK1	19	55813535	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	100107	55813535	3315448	403	7290										
UBE2S	27338	broad.mit.edu	37	chr19	55912921	55912921	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gcccctcccgggccccctggGgccccagggtcggtggagga	17	17	0	0			TCGA-18-3419-01A-01D-0983-08	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	T	55912921	T	T	55912921	2	4	12	1	0	0	0	0	0	0	0	1	16869	1219	43	3		3	UBE2S	19	55912921	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	99386	55912921	3216062	404	7291										
NLRP4	147945	broad.mit.edu	37	chr19	56369237	56369237	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttcaaggaccacaaggaattGgaaaaacgacactcctgatg	9	9	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	56369237	T	T	56369237	4	4	12	1	0	0	0	0	0	1	0	0	10479	1349	47	3	484	3	NLRP4	19	56369237	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	456316	56369237	2759746	405	7292										
NLRP4	147945	broad.mit.edu	37	chr19	56372833	56372833	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctcagagagctccaggtgcaGgacagcaccctcagcgagtc	12	14	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	56372833	T	T	56372833	3	4	12	1	0	0	0	0	1	0	0	0	10479	991	35	3	1948	3	NLRP4	19	56372833	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	3596	56372833	2756150	406	7293										
NLRP4	147945	broad.mit.edu	37	chr19	56372849	56372849	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgcaggacagcaccctcagcGagtcgacctttgtgacctgg	12	13	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	56372849	T	T	56372849	4	4	12	1	0	0	0	0	0	1	0	0	10479	1059	37	2	1964	2	NLRP4	19	56372849	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	16	56372849	2756134	407	7294										
NLRP13	126204	broad.mit.edu	37	chr19	56423905	56423905	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaacatacggtccaacacacCatgggggcactgcaggaatg	12	11	0	0			TCGA-18-3419-01A-01D-0983-08	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	A	56423905	A	A	56423905	3	1	12	1	0	0	0	0	1	0	0	0	10475	594	21	3	1879	3	NLRP13	19	56423905	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	51056	56423905	2705078	408	7295										
NLRP8	126205	broad.mit.edu	37	chr19	56465898	56465898	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cggtataaatcgaatgtgatGgaaaagtttttccccatatg	9	6	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	56465898	T	T	56465898	3	4	12	1	0	0	0	0	1	0	0	0	10483	1348	47	3	484	3	NLRP8	19	56465898	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	41993	56465898	2663085	409	7296										
NLRP5	126206	broad.mit.edu	37	chr19	56549482	56549482	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgaaatctctgagcctggcaGgaaacaaggtgacagaccag	12	9	1	4			TCGA-18-3419-01A-01D-0983-08	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	T	56549482	T	T	56549482	4	4	12	1	0	0	0	0	0	1	0	0	10480	1001	35	3	2745	3	NLRP5	19	56549482	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	83584	56549482	2579501	410	7297										
GALP	85569	broad.mit.edu	37	chr19	56694541	56694541	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	caccctccacagccctccaaGaggaatgtgatggagacgtt	10	13	0	3			TCGA-18-3419-01A-01D-0983-08	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	T	56694541	T	T	56694541	3	4	12	1	0	0	0	0	1	0	0	0	6226	933	33	2	269	2	GALP	19	56694541	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	145059	56694541	2434442	411	7298										
ZSCAN5B	342933	broad.mit.edu	37	chr19	56701770	56701770	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaggctcttcttgggaaatgGaggaggcatctggtttgctt	15	6	3	0			TCGA-18-3419-01A-01D-0983-08	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	T	56701770	T	T	56701770	3	4	12	1	0	0	0	0	1	0	0	0	18236	1174	41	2	577	2	ZSCAN5B	19	56701770	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	7229	56701770	2427213	412	7299										
ZSCAN5A	79149	broad.mit.edu	37	chr19	56733294	56733294	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	attacattgaaagagtctctCgcctgtgtgtgatctcttgt	9	8	2	3	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	A	56733294	A	A	56733294	4	1	12	1	0	0	0	0	0	1	0	0	18235	893	31	2	353	2	ZSCAN5A	19	56733294	Nonsense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	31524	56733294	2395689	413	7300										
ZSCAN5A	79149	broad.mit.edu	37	chr19	56733549	56733549	+	Missense_Mutation	SNP	T	C	C													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tggtttgcttcttttgggacTgctcagattcagagcgtctc							TCGA-18-3419-01A-01D-0983-08	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	C	56733549	C	C	56733549	3	2	12	1	0	0	0	0	1	0	0	0	18235	1580	55	5	608	5	ZSCAN5A	19	56733549	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	255	56733549	2395434	414	7301	231	2								
ZSCAN5A	79149	broad.mit.edu	37	chr19	56733550	56733550	+	Missense_Mutation	SNP	G	T	T													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggtttgcttcttttgggactGctcagattcagagcgtctcc							TCGA-18-3419-01A-01D-0983-08	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	T	56733550	T	T	56733550	3	4	12	1	0	0	0	0	1	0	0	0	18235	1310	46	3	609	3	ZSCAN5A	19	56733550	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1	56733550	2395433	415	7302	231	2								
BTBD3	22903	broad.mit.edu	37	chr20	11899249	11899249	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ttatcccaccattagagagaGgtaagtgccgcgctagtcta	10	10	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	11899249	T	T	11899249	3	4	12	1	0	0	0	0	1	0	0	0	1544	1014	35	3	328	3	BTBD3	20	11899249	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08		11899249	51126271	416	7303										
SEL1L2	80343	broad.mit.edu	37	chr20	13971175	13971175	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tctattaacagagacaagggCttcatcttctcttaagcagc	7	10	4	1			TCGA-18-3419-01A-01D-0983-08	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	G	13971175	G	G	13971175	3	3	12	1	0	0	0	0	1	0	0	0	14011	796	28	4	2140	4	SEL1L2	20	13971175	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2071926	13971175	49054345	417	7304										
KIF16B	55614	broad.mit.edu	37	chr20	16360239	16360239	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cggcacgagcctccttcaccCgcaggagggattcccgaatg	12	15	1	0			TCGA-18-3419-01A-01D-0983-08	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	T	16360239	T	T	16360239	3	4	12	1	0	0	0	0	1	0	0	0	8278	652	23	1	1577	1	KIF16B	20	16360239	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	2389064	16360239	46665281	418	7305										
CST7	8530	broad.mit.edu	37	chr20	24938088	24938088	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtcccgcatcacaagggcccTagttcaggtaacggtctggg	13	12	3	0			TCGA-18-3419-01A-01D-0983-08	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	C	24938088	C	C	24938088	3	2	12	1	0	0	0	0	1	0	0	0	3977	1522	53	5	242	5	CST7	20	24938088	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	8577849	24938088	38087432	419	7306										
SUN5	140732	broad.mit.edu	37	chr20	31573704	31573704	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cagcaattgccaggtgtcacGttgggctagaagaggcaagt	14	8	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	31573704	T	T	31573704	3	4	12	1	0	0	0	0	1	0	0	0	15391	1136	40	1	416	1	SUN5	20	31573704	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	6635616	31573704	31451816	420	7307										
RBM12	10137	broad.mit.edu	37	chr20	34240640	34240640	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaaatctaaaatctcatcaaTagacacagtaaagggcatgt	7	7	3	1			TCGA-18-3419-01A-01D-0983-08	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	C	34240640	C	C	34240640	3	2	12	1	0	0	0	0	1	0	0	0	13113	1406	49	5	197	5	RBM12	20	34240640	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	2666936	34240640	28784880	421	7308										
C20orf117	140710	broad.mit.edu	37	chr20	35443706	35443706	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	agcacgctcaggcgcaccagGatggcatggatgagcttggt	15	10	1	1			TCGA-18-3419-01A-01D-0983-08	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	A	35443706	A	A	35443706	2	1	12	1	0	0	0	0	0	0	0	1	2083	1164	41	2		2	C20orf117	20	35443706	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	1203066	35443706	27581814	422	7309			1	8		3	3	713	G		5.359014e-05
C20orf117	140710	broad.mit.edu	37	chr20	35443718	35443718	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cgcaccaggatggcatggatGagcttggtgtccctggggcc	16	11	0	1			TCGA-18-3419-01A-01D-0983-08	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	C	35443718	C	C	35443718	2	2	12	1	0	0	0	0	0	0	0	1	2083	1277	45	2		2	C20orf117	20	35443718	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	12	35443718	27581802	423	7310			1	8		3	3	713	G		5.359014e-05
C20orf117	140710	broad.mit.edu	37	chr20	35444418	35444418	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccttcatgtcgtccatctcaGcccgcaggcctcggttctcc	8	18	3	0			TCGA-18-3419-01A-01D-0983-08	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	A	35444418	A	A	35444418	3	1	12	1	0	0	0	0	1	0	0	0	2083	971	34	3	3664	3	C20orf117	20	35444418	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	700	35444418	27581102	424	7311			1	8		3	3	713	G		5.359014e-05
RALGAPB	57148	broad.mit.edu	37	chr20	37137763	37137763	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cttcatttcctgcatttaaaGttcccgatgaagatgccagt	7	10	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	37137763	T	T	37137763	3	4	12	1	0	0	0	0	1	0	0	0	13015	1029	36	3	802	3	RALGAPB	20	37137763	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	1693345	37137763	25887757	425	7312										
RALGAPB	57148	broad.mit.edu	37	chr20	37146532	37146532	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cccggccactgcctgcccctCggagaccaaaggttaacagc	10	17	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	37146532	A	A	37146532	2	1	12	1	0	0	0	0	0	0	0	1	13015	875	31	2		2	RALGAPB	20	37146532	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	8769	37146532	25878988	426	7313										
KCNS1	3787	broad.mit.edu	37	chr20	43723776	43723776	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgccccctaggatgcagcctGaggctgccagcttgccagcc	12	16	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	43723776	T	T	43723776	4	4	12	1	0	0	0	0	0	1	0	0	8088	1294	45	2	268	2	KCNS1	20	43723776	Nonsense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	6577244	43723776	19301744	427	7314										
MATN4	8785	broad.mit.edu	37	chr20	43933243	43933243	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gtcctcgcggcgagagaacgCgcggagagggaagacgctct	17	11	1	3			TCGA-18-3419-01A-01D-0983-08	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	A	43933243	A	A	43933243	3	1	12	1	0	0	0	0	1	0	0	0	9336	768	27	1	1509	1	MATN4	20	43933243	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	209467	43933243	19092277	428	7315										
PIGT	51604	broad.mit.edu	37	chr20	44050036	44050036	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tacacagaggcccccccagtGcccttcctgcatgcccagcg	9	19	0	1			TCGA-18-3419-01A-01D-0983-08	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	T	44050036	T	T	44050036	2	4	12	1	0	0	0	0	0	0	0	1	11899	1306	46	3		3	PIGT	20	44050036	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	116793	44050036	18975484	429	7316										
PLTP	5360	broad.mit.edu	37	chr20	44533736	44533736	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggggaggctccagttcctctCagtcagggggaagaaggccc	16	11	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	44533736	T	T	44533736	3	4	12	1	0	0	0	0	1	0	0	0	12114	835	29	2	786	2	PLTP	20	44533736	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	483700	44533736	18491784	430	7317										
ZNF335	63925	broad.mit.edu	37	chr20	44581131	44581131	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gaggccagagcatctggactTgggaaggagatggagccatc	16	8	1	2			TCGA-18-3419-01A-01D-0983-08	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	A	44581131	A	A	44581131	2	1	12	1	0	0	0	0	0	0	0	1	17849	1799	63	5		5	ZNF335	20	44581131	Silent	SNP	T	TCGA-18-3419-01A-01D-0983-08	47395	44581131	18444389	431	7318										
SNAI1	6615	broad.mit.edu	37	chr20	48600442	48600442	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gatcctcaaccccaccgcctCgctgccaatgctcatctggg	8	18	3	0	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	T	48600442	T	T	48600442	3	4	12	1	0	0	0	0	1	0	0	0	14826	893	31	2	170	2	SNAI1	20	48600442	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	4019311	48600442	14425078	432	7319										
TAF4	6874	broad.mit.edu	37	chr20	60572686	60572686	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgctagtgctgtgaggttggCgtcccgctgtctcatttgtg	14	9	1	1			TCGA-18-3419-01A-01D-0983-08	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	G	60572686	G	G	60572686	3	3	12	1	0	0	0	0	1	0	0	0	15523	768	27	4	255	4	TAF4	20	60572686	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	11972244	60572686	2452834	433	7320										
TAF4	6874	broad.mit.edu	37	chr20	60589753	60589753	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgcccattctcacttcggacGaggaccattcctgcagacaa	8	14	1	1			TCGA-18-3419-01A-01D-0983-08	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	T	60589753	T	T	60589753	2	4	12	1	0	0	0	0	0	0	0	1	15523	1045	37	2		2	TAF4	20	60589753	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	17067	60589753	2435767	434	7321										
CLDN17	26285	broad.mit.edu	37	chr21	31538660	31538660	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	atgccaataagcagggcgatCaaggagagagcaacagccac	12	10	1	1			TCGA-18-3419-01A-01D-0983-08	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	G	31538660	G	G	31538660	3	3	12	1	0	0	0	0	1	0	0	0	3478	825	29	2	402	2	CLDN17	21	31538660	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08		31538660	16591235	435	7322										
SON	6651	broad.mit.edu	37	chr21	34921900	34921900	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	aaaaacaaaaagaagaaaaaGaagaaagaaaaggaaaaaaa	7	1	0	5			TCGA-18-3419-01A-01D-0983-08	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	T	34921900	T	T	34921900	3	4	12	1	0	0	0	0	1	0	0	0	14926	933	33	2	373	2	SON	21	34921900	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	3383240	34921900	13207995	436	7323										
RIPK4	54101	broad.mit.edu	37	chr21	43161628	43161628	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tggccctgccaggcagcgtaGtgcagtggcagccaggcatc	15	13	0	0			TCGA-18-3419-01A-01D-0983-08	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	A	43161628	A	A	43161628	2	1	12	1	0	0	0	0	0	0	0	1	13383	1020	36	3		3	RIPK4	21	43161628	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	8239728	43161628	4968267	437	7324										
DGCR8	54487	broad.mit.edu	37	chr22	20094896	20094896	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tttactgcgcatgtatggccGtgagagcagcaagatggtca	13	8	1	2			TCGA-18-3419-01A-01D-0983-08	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	T	20094896	T	T	20094896	3	4	12	1	0	0	0	0	1	0	0	0	4464	1145	40	1	2141	1	DGCR8	22	20094896	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08		20094896	31209670	438	7325										
HPS4	89781	broad.mit.edu	37	chr22	26860753	26860753	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ccaccctttggatggtgctgGgctgaaccatcctggagtcc	12	13	0	1			TCGA-18-3419-01A-01D-0983-08	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	A	26860753	A	A	26860753	2	1	12	1	0	0	0	0	0	0	0	1	7341	1219	43	3		3	HPS4	22	26860753	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	6765857	26860753	24443813	439	7326										
C22orf42	150297	broad.mit.edu	37	chr22	32555004	32555004	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cagcatcttcggcgtcttcgGgaggctgaggtactgcatga	14	10	2	2			TCGA-18-3419-01A-01D-0983-08	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	T	32555004	T	T	32555004	3	4	12	1	0	0	0	0	1	0	0	0	2149	1232	43	3	592	3	C22orf42	22	32555004	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	5694251	32555004	18749562	440	7327										
EP300	2033	broad.mit.edu	37	chr22	41565505	41565505	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	catttctcttcattttgtatAggagagtatacatatcttac	5	7	3	1			TCGA-18-3419-01A-01D-0983-08	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	G	41565505	G	G	41565505	5	3	12	1	0	0	0	0	0	0	1	0	5148	434	15	5	4273	5	EP300	22	41565505	Splice_Site	SNP	A	TCGA-18-3419-01A-01D-0983-08	9010501	41565505	9739061	441	7328										
PRR5	55615	broad.mit.edu	37	chr22	45133115	45133115	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gagggctctgggggccggcaGagtgtcgtgtgaggcctcac	19	10	2	2			TCGA-18-3419-01A-01D-0983-08	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	T	45133115	T	T	45133115	3	4	12	1	0	0	0	0	1	0	0	0	12600	933	33	2	1185	2	PRR5	22	45133115	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	3567610	45133115	6171451	442	7329										
KAL1	3730	broad.mit.edu	37	chrX	8503661	8503661	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gatctgggactgtgaaataaTgctgttgggtaggctgttct	14	5	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	8503661	A	A	8503661	3	1	12	1	0	0	0	0	1	0	0	0	7974	1464	51	5	241	5	KAL1	23	8503661	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08		8503661	146766899	443	7330										
GEMIN8	54960	broad.mit.edu	37	chrX	14027118	14027118	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cagctgcaccgcggcctccaTggcttggatcttggcagcac	12	15	1	0			TCGA-18-3419-01A-01D-0983-08	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	C	14027118	C	C	14027118	3	2	12	1	0	0	0	0	1	0	0	0	6334	1464	51	5	89	5	GEMIN8	23	14027118	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	5523457	14027118	141243442	444	7331										
BEND2	139105	broad.mit.edu	37	chrX	18189144	18189144	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ggagagcactaatcttattgGggtcaagggcacacaggcca	13	9	2	1			TCGA-18-3419-01A-01D-0983-08	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	T	18189144	T	T	18189144	3	4	12	1	0	0	0	0	1	0	0	0	1398	1232	43	3	271	3	BEND2	23	18189144	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	4162026	18189144	137081416	445	7332										
GPR64	10149	broad.mit.edu	37	chrX	19021038	19021038	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctttgacaagggccaggtacAtatggaatgcttctaggccc	11	10	1	1			TCGA-18-3419-01A-01D-0983-08	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	G	19021038	G	G	19021038	3	3	12	1	0	0	0	0	1	0	0	0	6705	217	8	5	921	5	GPR64	23	19021038	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08	831894	19021038	136249522	446	7333										
PPP1R3F	89801	broad.mit.edu	37	chrX	49143531	49143531	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	ctggtgcttgcgctgtgcctCtctctggcttggttctcata	11	12	3	0			TCGA-18-3419-01A-01D-0983-08	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	G	49143531	G	G	49143531	2	3	12	1	0	0	0	0	0	0	0	1	12375	900	32	2		2	PPP1R3F	23	49143531	Silent	SNP	C	TCGA-18-3419-01A-01D-0983-08	30122493	49143531	106127029	447	7334										
UBQLN2	29978	broad.mit.edu	37	chrX	56591546	56591546	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	cacagatgatgctgaatagcCcgctgtttactgcaaatcct	8	11	0	3			TCGA-18-3419-01A-01D-0983-08	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	T	56591546	T	T	56591546	3	4	12	1	0	0	0	0	1	0	0	0	16894	623	22	3	1242	3	UBQLN2	23	56591546	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	7448015	56591546	98679014	448	7335										
MAGEE1	57692	broad.mit.edu	37	chrX	75649174	75649174	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgacggacaaagcatctcctTggtgcccacccgcggtaagg	12	13	1	1			TCGA-18-3419-01A-01D-0983-08	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	C	75649174	C	C	75649174	3	2	12	1	0	0	0	0	1	0	0	0	9185	1821	63	5	853	5	MAGEE1	23	75649174	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	19057628	75649174	79621386	449	7336										
NAP1L3	4675	broad.mit.edu	37	chrX	92927345	92927345	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gcccgagcttgtcaacattcTttaaaacaatcagccaatag	6	11	3	0			TCGA-18-3419-01A-01D-0983-08	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	A	92927345	A	A	92927345	3	1	12	1	0	0	0	0	1	0	0	0	10158	1609	56	5	565	5	NAP1L3	23	92927345	Missense_Mutation	SNP	T	TCGA-18-3419-01A-01D-0983-08	17278171	92927345	62343215	450	7337										
NRK	203447	broad.mit.edu	37	chrX	105075047	105075047	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tttattttacttttttgcagGatccaactggaatattctca	5	7	1	0			TCGA-18-3419-01A-01D-0983-08	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	A	105075047	A	A	105075047	3	1	12	1	0	0	0	0	1	0	0	0	10655	1188	41	2	64	2	NRK	23	105075047	Missense_Mutation	SNP	G	TCGA-18-3419-01A-01D-0983-08	12147702	105075047	50195513	451	7338										
XPNPEP2	7512	broad.mit.edu	37	chrX	128902323	128902323	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gagaaggtgggtccagagctGcagaggcgccagctactaga	16	9	0	4			TCGA-18-3419-01A-01D-0983-08	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	T	128902323	T	T	128902323	2	4	12	1	0	0	0	0	0	0	0	1	17440	1306	46	3		3	XPNPEP2	23	128902323	Silent	SNP	G	TCGA-18-3419-01A-01D-0983-08	23827276	128902323	26368237	452	7339										
CXorf66	347487	broad.mit.edu	37	chrX	139038193	139038193	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgatcaccgtatgcattgttCctggaatctaacttacgaaa	7	9	2	1			TCGA-18-3419-01A-01D-0983-08	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	A	139038193	A	A	139038193	3	1	12	1	0	0	0	0	1	0	0	0	4118	854	30	2	141	2	CXorf66	23	139038193	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	10135870	139038193	16232367	453	7340										
MAGEC1	9947	broad.mit.edu	37	chrX	140995703	140995703	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	gagctccttcccctcctccaCttcatcgagtctttccaaga	5	17	2	1			TCGA-18-3419-01A-01D-0983-08	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	G	140995703	G	G	140995703	3	3	12	1	0	0	0	0	1	0	0	0	9180	565	20	4	2519	4	MAGEC1	23	140995703	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	1957510	140995703	14274857	454	7341										
CXorf1	9142	broad.mit.edu	37	chrX	144909203	144909203	+	Frame_Shift_Del	DEL	C	-	-													0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tgaaattatttgaatgtattCcagactattttatttaaaat							TCGA-18-3419-01A-01D-0983-08	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	---	---	---	---		-	144909203	-	-	144909203	7	5	12	1	0	1	0	1	0	0	0	0	4100	855	30	0	10	0	CXorf1	23	144909203	Frame_Shift_Del	DEL	C	TCGA-18-3419-01A-01D-0983-08	3913500	144909203	10361357	455	7342										
BGN	633	broad.mit.edu	37	chrX	152773715	152773715	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	tctgccttcaggtggtctatCtgcactccaacaacatcacc	6	15	5	0			TCGA-18-3419-01A-01D-0983-08	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	G	152773715	G	G	152773715	3	3	12	1	0	0	0	0	1	0	0	0	1418	912	32	2	945	2	BGN	23	152773715	Missense_Mutation	SNP	C	TCGA-18-3419-01A-01D-0983-08	7864512	152773715	2496845	456	7343										
USP9Y	8287	broad.mit.edu	37	chrY	14888737	14888737	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.148230088495575	67	2.73807439885897e-13	2.61211749314993	3.8433102289435	1.83982386797032	0.221619260305465	0.594342561728292	41	attaactgttataaaagagtAcattaatgaatgtgacagtg	8	3	0	3			TCGA-18-3419-01A-01D-0983-08	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	G	14888737	G	G	14888737	3	3	12	1	0	0	0	0	1	0	0	0	17088	391	14	5	2648	5	USP9Y	24	14888737	Missense_Mutation	SNP	A	TCGA-18-3419-01A-01D-0983-08		14888737	44484829	457	7344										
AGRN	375790	broad.mit.edu	37	chr1	979737	979737	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgcggctcagatggggtcacCtacagcaccgagtgtgagct	14	11	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:979737C>T	uc001ack.1	+	12	2222	c.2172C>T	c.(2170-2172)ACC>ACT	p.T724T		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	724	Kazal-like 8.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		ATGGGGTCACCTACAGCACCG	0.687													6	15	---	---	---	---	PASS	T	979737	T	T	979737	2	4	13	1	0	0	0	0	0	0	0	1	397	668	24	3		3	AGRN	1	979737	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08		979737	248270884	1	7345										
DFFB	1677	broad.mit.edu	37	chr1	3800107	3800107	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	accatcattcctacactggtGgaagcaattaaggaacaaga	8	9	1	1	rs144155925		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:3800107G>T	uc001alc.2	+	7	1142	c.819G>T	c.(817-819)GTG>GTT	p.V273V	DFFB_uc001ale.2_RNA|DFFB_uc009vlp.2_RNA|DFFB_uc001alb.2_RNA|DFFB_uc010nzn.1_Silent_p.V297V|DFFB_uc009vlq.2_RNA|DFFB_uc009vlr.2_Silent_p.V224V|DFFB_uc001ald.2_Silent_p.V209V	NM_004402	NP_004393	O76075	DFFB_HUMAN	DNA fragmentation factor, 40 kD, beta	273					apoptotic chromosome condensation|DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction	cytosol|nucleoplasm	deoxyribonuclease activity|enzyme binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;2.05e-30)|all_epithelial(116;6.22e-21)|all_lung(118;2.65e-08)|Lung NSC(185;6.25e-06)|Breast(487;0.000659)|Renal(390;0.00121)|all_neural(13;0.0019)|Hepatocellular(190;0.00705)|Colorectal(325;0.0113)|all_hematologic(16;0.0194)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0548)|Medulloblastoma(700;0.211)		Epithelial(90;1.18e-39)|OV - Ovarian serous cystadenocarcinoma(86;7.28e-23)|GBM - Glioblastoma multiforme(42;2.95e-17)|Colorectal(212;1.23e-05)|COAD - Colon adenocarcinoma(227;5.94e-05)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00038)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		CTACACTGGTGGAAGCAATTA	0.433													6	129	---	---	---	---	PASS	T	3800107	T	T	3800107	2	4	13	1	0	0	0	0	0	0	0	1	4453	1335	47	3		3	DFFB	1	3800107	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	2820370	3800107	245450514	2	7346										
TMEM201	199953	broad.mit.edu	37	chr1	9661495	9661495	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	acctgcctgctggcaatgctGctggctggccgcatcaggtg	14	13	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:9661495G>C	uc001apz.2	+	5	951	c.939G>C	c.(937-939)CTG>CTC	p.L313L	TMEM201_uc001apy.2_Silent_p.L313L	NM_001130924	NP_001124396	Q5SNT2	TM201_HUMAN	transmembrane protein 201 isoform 1	313	Helical; (Potential).					integral to membrane|nuclear inner membrane					0	all_lung(157;0.222)	all_epithelial(116;2.09e-14)|Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|STAD - Stomach adenocarcinoma(132;0.00345)|READ - Rectum adenocarcinoma(331;0.0419)		TGGCAATGCTGCTGGCTGGCC	0.667													6	25	---	---	---	---	PASS	C	9661495	C	C	9661495	2	2	13	1	0	0	0	0	0	0	0	1	16123	1306	46	4		4	TMEM201	1	9661495	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	5861388	9661495	239589126	3	7347										
KIF1B	23095	broad.mit.edu	37	chr1	10336422	10336422	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gttgctgctctgagccccgcGgatatcaactacgatgagac	11	12	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:10336422G>T	uc001aqx.3	+	12	1204	c.1002G>T	c.(1000-1002)GCG>GCT	p.A334A	KIF1B_uc001aqv.3_Silent_p.A328A|KIF1B_uc001aqw.3_Silent_p.A328A|KIF1B_uc001aqy.2_Silent_p.A334A|KIF1B_uc001aqz.2_Silent_p.A334A|KIF1B_uc001ara.2_Silent_p.A334A|KIF1B_uc001arb.2_Silent_p.A334A	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	334	Kinesin-motor.|Interaction with KBP.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		TGAGCCCCGCGGATATCAACT	0.398													11	12	---	---	---	---	PASS	T	10336422	T	T	10336422	2	4	13	1	0	0	0	0	0	0	0	1	8284	1103	39	1		1	KIF1B	1	10336422	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	674927	10336422	238914199	4	7348										
CASZ1	54897	broad.mit.edu	37	chr1	10720208	10720208	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttctgcatctggacactgctGtgcgacggcaggggcaggat	15	10	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:10720208G>A	uc001aro.2	-	6	1211	c.891C>T	c.(889-891)CAC>CAT	p.H297H	CASZ1_uc001arp.1_Silent_p.H297H|CASZ1_uc009vmx.2_Silent_p.H321H|CASZ1_uc001arq.1_Silent_p.H156H	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	297					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GGACACTGCTGTGCGACGGCA	0.657													37	46	---	---	---	---	PASS	A	10720208	A	A	10720208	2	1	13	1	0	0	0	0	0	0	0	1	2685	1368	48	3		3	CASZ1	1	10720208	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	383786	10720208	238530413	5	7349										
MTOR	2475	broad.mit.edu	37	chr1	11297904	11297904	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccatcacctcggttacctggAtgagcatcttgcgcaggaaa	10	12	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:11297904A>C	uc001asd.2	-	13	2325	c.2204T>G	c.(2203-2205)ATC>AGC	p.I735S		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	735					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GGTTACCTGGATGAGCATCTT	0.577													13	49	---	---	---	---	PASS	C	11297904	C	C	11297904	3	2	13	1	0	0	0	0	1	0	0	0	9954	333	12	5	5629	5	MTOR	1	11297904	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	577696	11297904	237952717	6	7350										
PADI3	51702	broad.mit.edu	37	chr1	17593278	17593278	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggtgaactgtgaccgtgatgAtccgagctgtgatgtccagg	15	8	0	5			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:17593278A>C	uc001bai.2	+	5	513	c.473A>C	c.(472-474)GAT>GCT	p.D158A		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	158					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	GACCGTGATGATCCGAGCTGT	0.607													12	56	---	---	---	---	PASS	C	17593278	C	C	17593278	3	2	13	1	0	0	0	0	1	0	0	0	11379	333	12	5	491	5	PADI3	1	17593278	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	6295374	17593278	231657343	7	7351										
USP48	84196	broad.mit.edu	37	chr1	22021658	22021658	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cttcggcgaataacttgcttTtgataggctatataattttg	8	6	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:22021658T>C	uc001bfb.2	-	23	3022	c.2784A>G	c.(2782-2784)CAA>CAG	p.Q928Q	USP48_uc001bfa.2_Intron|USP48_uc010odq.1_Silent_p.Q940Q|USP48_uc009vqc.2_Silent_p.Q862Q|USP48_uc001bfc.2_Intron|USP48_uc001bfd.1_Silent_p.Q53Q	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	928					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		TAACTTGCTTTTGATAGGCTA	0.368													14	57	---	---	---	---	PASS	C	22021658	C	C	22021658	2	2	13	1	0	0	0	0	0	0	0	1	17076	1838	64	5		5	USP48	1	22021658	Silent	SNP	T	TCGA-18-3421-01A-01D-0983-08	4428380	22021658	227228963	8	7352										
PUM1	9698	broad.mit.edu	37	chr1	31418279	31418279	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aaccacgtgattgccattctGatctttcacacacttcaaga	5	12	4	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:31418279G>C	uc001bsi.1	-	18	3015	c.2902C>G	c.(2902-2904)CAG>GAG	p.Q968E	PUM1_uc001bsf.1_Missense_Mutation_p.Q636E|PUM1_uc001bsg.1_Missense_Mutation_p.Q702E|PUM1_uc001bsh.1_Missense_Mutation_p.Q970E|PUM1_uc001bsj.1_Missense_Mutation_p.Q944E|PUM1_uc010oga.1_Missense_Mutation_p.Q826E|PUM1_uc001bsk.1_Missense_Mutation_p.Q1006E|PUM1_uc010ogb.1_Missense_Mutation_p.Q909E|SNORD103A_uc009vts.1_Intron	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	968	PUM-HD.|Pumilio 4.				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)		TTGCCATTCTGATCTTTCACA	0.443													9	47	---	---	---	---	PASS	C	31418279	C	C	31418279	3	2	13	1	0	0	0	0	1	0	0	0	12825	1299	45	2	678	2	PUM1	1	31418279	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	9396621	31418279	217832342	9	7353										
KHDRBS1	10657	broad.mit.edu	37	chr1	32502535	32502535	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgatggatgatatctgtcagGagcaatttctagagctgtcc	11	7	3	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:32502535G>C	uc001bub.2	+	5	902	c.796G>C	c.(796-798)GAG>CAG	p.E266Q	KHDRBS1_uc001bua.1_Missense_Mutation_p.E227Q|KHDRBS1_uc001buc.1_RNA	NM_006559	NP_006550	Q07666	KHDR1_HUMAN	KH domain containing, RNA binding, signal	266					cell cycle arrest|cell proliferation|cell surface receptor linked signaling pathway|G2/M transition of mitotic cell cycle|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of RNA export from nucleus|transcription, DNA-dependent	membrane|nucleus	DNA binding|RNA binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				TATCTGTCAGGAGCAATTTCT	0.512													16	64	---	---	---	---	PASS	C	32502535	C	C	32502535	3	2	13	1	0	0	0	0	1	0	0	0	8146	1175	41	2	814	2	KHDRBS1	1	32502535	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1084256	32502535	216748086	10	7354										
CSMD2	114784	broad.mit.edu	37	chr1	34008457	34008457	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggccatcactgaacacaactCgggcattacttggagtccca	9	13	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:34008457C>A	uc001bxn.1	-	57	8737	c.8708G>T	c.(8707-8709)CGA>CTA	p.R2903L	CSMD2_uc001bxm.1_Missense_Mutation_p.R3047L	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2903	Sushi 21.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GAACACAACTCGGGCATTACT	0.517													4	38	---	---	---	---	PASS	A	34008457	A	A	34008457	3	1	13	1	0	0	0	0	1	0	0	0	3945	884	31	2	1807	2	CSMD2	1	34008457	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	1505922	34008457	215242164	11	7355										
OSCP1	127700	broad.mit.edu	37	chr1	36886200	36886200	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gctcttctttagcaagagggTttggagcaatgctttcctgc	11	9	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:36886200T>A	uc001cap.2	-	9	948	c.866A>T	c.(865-867)AAC>ATC	p.N289I	OSCP1_uc001caq.2_Missense_Mutation_p.N279I	NM_145047	NP_659484	Q8WVF1	OSCP1_HUMAN	oxidored-nitro domain-containing protein isoform	289					transport	basal plasma membrane				ovary(2)|central_nervous_system(1)|pancreas(1)	4						AGCAAGAGGGTTTGGAGCAAT	0.468											OREG0013368	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	219	---	---	---	---	PASS	A	36886200	A	A	36886200	3	1	13	1	0	0	0	0	1	0	0	0	11286	1725	60	5	315	5	OSCP1	1	36886200	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	2877743	36886200	212364421	12	7356										
MACF1	23499	broad.mit.edu	37	chr1	39898246	39898246	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cagaactagcttgggttgctGaaacaaaacggaaactgatg	11	7	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:39898246G>A	uc010oiu.1	+	31	12828	c.12697G>A	c.(12697-12699)GAA>AAA	p.E4233K	MACF1_uc010ois.1_Missense_Mutation_p.E3731K|MACF1_uc001cda.1_Missense_Mutation_p.E3618K|MACF1_uc001cdc.1_Missense_Mutation_p.E2688K	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	5798	Spectrin 9.				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)			TTGGGTTGCTGAAACAAAACG	0.453													9	25	---	---	---	---	PASS	A	39898246	A	A	39898246	3	1	13	1	0	0	0	0	1	0	0	0	9144	1291	45	2	17588	2	MACF1	1	39898246	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	3012046	39898246	209352375	13	7357										
COL9A2	1298	broad.mit.edu	37	chr1	40777194	40777194	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggaaatccgcactgccttccAgaccctggatggttcccggg	12	14	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:40777194A>T	uc001cfh.1	-	10	567	c.497T>A	c.(496-498)CTG>CAG	p.L166Q	COL9A2_uc001cfi.1_5'UTR	NM_001852	NP_001843	Q14055	CO9A2_HUMAN	alpha 2 type IX collagen precursor	166	Nonhelical region 4 (NC4).				axon guidance|skeletal system development	collagen type IX				ovary(2)	2	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.08e-17)			ACTGCCTTCCAGACCCTGGAT	0.647													15	67	---	---	---	---	PASS	T	40777194	T	T	40777194	3	4	13	1	0	0	0	0	1	0	0	0	3708	188	7	5	1664	5	COL9A2	1	40777194	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	878948	40777194	208473427	14	7358										
RNF220	55182	broad.mit.edu	37	chr1	45101781	45101781	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccgctttgaggagtatgagtGgtgtggacagaagcggatac	16	6	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:45101781G>T	uc001clv.1	+	8	1433	c.1073G>T	c.(1072-1074)TGG>TTG	p.W358L	RNF220_uc001clw.1_Missense_Mutation_p.W358L|RNF220_uc010okx.1_Missense_Mutation_p.W119L|RNF220_uc010oky.1_Missense_Mutation_p.W145L|RNF220_uc010okz.1_Missense_Mutation_p.W100L|RNF220_uc001clx.1_Missense_Mutation_p.W74L|RNF220_uc001cly.1_Missense_Mutation_p.W37L|RNF220_uc001clz.1_Missense_Mutation_p.W37L|RNF220_uc001cma.1_Missense_Mutation_p.W37L|TMEM53_uc001cmb.1_3'UTR	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	358					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GAGTATGAGTGGTGTGGACAG	0.562													8	160	---	---	---	---	PASS	T	45101781	T	T	45101781	3	4	13	1	0	0	0	0	1	0	0	0	13483	1357	47	3	1099	3	RNF220	1	45101781	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	4324587	45101781	204148840	15	7359										
EIF2B3	8891	broad.mit.edu	37	chr1	45340357	45340357	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gggggaaacatacccttcctCcacagtgactgagttcatga	10	11	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:45340357C>G	uc001cmt.1	-	10	1322	c.1195G>C	c.(1195-1197)GAG>CAG	p.E399Q	EIF2B3_uc001cmu.1_Missense_Mutation_p.E399Q|EIF2B3_uc001cmv.1_Missense_Mutation_p.E373Q|EIF2B3_uc001cmw.2_Missense_Mutation_p.E399Q	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,	399					negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TACCCTTCCTCCACAGTGACT	0.284													16	67	---	---	---	---	PASS	G	45340357	G	G	45340357	3	3	13	1	0	0	0	0	1	0	0	0	5002	864	30	2	212	2	EIF2B3	1	45340357	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	238576	45340357	203910264	16	7360										
C8B	732	broad.mit.edu	37	chr1	57415411	57415411	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tactcttttaatatgaattcGtatttgccttgggtctaaag	7	6	2	1	rs138606922	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:57415411G>A	uc001cyp.2	-	6	748	c.681C>T	c.(679-681)TAC>TAT	p.Y227Y	C8B_uc010oon.1_Silent_p.Y165Y|C8B_uc010ooo.1_Silent_p.Y175Y	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	227	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						ATATGAATTCGTATTTGCCTT	0.284													9	19	---	---	---	---	PASS	A	57415411	A	A	57415411	2	1	13	1	0	0	0	0	0	0	0	1	2417	1140	40	1		1	C8B	1	57415411	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	12075054	57415411	191835210	17	7361										
KANK4	163782	broad.mit.edu	37	chr1	62739162	62739162	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttccctgggagattggaactGgtctcctccctccctgctgg	11	14	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:62739162G>T	uc001dah.3	-	3	1991	c.1614C>A	c.(1612-1614)ACC>ACA	p.T538T	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	538										ovary(3)|skin(2)|lung(1)	6						GATTGGAACTGGTCTCCTCCC	0.612													22	14	---	---	---	---	PASS	T	62739162	T	T	62739162	2	4	13	1	0	0	0	0	0	0	0	1	7979	1335	47	3		3	KANK4	1	62739162	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	5323751	62739162	186511459	18	7362										
SGIP1	84251	broad.mit.edu	37	chr1	67138998	67138998	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	atgacactacggcccttgctCctctctttggcccaccacta	6	17	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:67138998C>T	uc001dcr.2	+	12	812	c.595C>T	c.(595-597)CCT>TCT	p.P199S	SGIP1_uc010opd.1_5'UTR|SGIP1_uc001dcs.2_5'UTR|SGIP1_uc001dct.2_5'UTR|uc010ope.1_Intron|SGIP1_uc009wat.2_5'UTR	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	199	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						GGCCCTTGCTCCTCTCTTTGG	0.358													32	141	---	---	---	---	PASS	T	67138998	T	T	67138998	3	4	13	1	0	0	0	0	1	0	0	0	14206	855	30	2	641	2	SGIP1	1	67138998	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4399836	67138998	182111623	19	7363										
RPE65	6121	broad.mit.edu	37	chr1	68903988	68903988	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctaaatataagtaattataaAcaaactcaaatctgcaaaaa	2	6	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:68903988A>C	uc001dei.1	-	10	1064	c.1010T>G	c.(1009-1011)GTT>GGT	p.V337G		NM_000329	NP_000320	Q16518	RPE65_HUMAN	retinal pigment epithelium-specific protein	337					visual perception	cytoplasm|plasma membrane	all-trans-retinyl-palmitate hydrolase activity|metal ion binding|retinol isomerase activity			ovary(1)	1						GTAATTATAAACAAACTCAAA	0.353													8	13	---	---	---	---	PASS	C	68903988	C	C	68903988	3	2	13	1	0	0	0	0	1	0	0	0	13545	43	2	5	611	5	RPE65	1	68903988	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	1764990	68903988	180346633	20	7364										
LRRC7	57554	broad.mit.edu	37	chr1	70503946	70503946	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	actgatggctcgcattatgaCaacacagggtttgttgctga	11	8	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:70503946C>A	uc001dep.2	+	19	2355	c.2325C>A	c.(2323-2325)GAC>GAA	p.D775E	LRRC7_uc009wbg.2_Missense_Mutation_p.D59E|LRRC7_uc001deq.2_Missense_Mutation_p.D16E	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	775						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CGCATTATGACAACACAGGGT	0.517													39	50	---	---	---	---	PASS	A	70503946	A	A	70503946	3	1	13	1	0	0	0	0	1	0	0	0	9020	477	17	3	2399	3	LRRC7	1	70503946	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	1599958	70503946	178746675	21	7365										
TNNI3K	51086	broad.mit.edu	37	chr1	74836026	74836026	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtagatgttgccaaaggcatGgagtaccttcacaacctgac	10	10	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:74836026G>T	uc001dgf.1	+	17	1773	c.1722G>T	c.(1720-1722)ATG>ATT	p.M574I	TNNI3K_uc001dgc.1_Missense_Mutation_p.M675I|TNNI3K_uc001dgd.2_Missense_Mutation_p.M675I|TNNI3K_uc001dge.1_Missense_Mutation_p.M675I	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	574	Protein kinase.					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						CCAAAGGCATGGAGTACCTTC	0.348													4	18	---	---	---	---	PASS	T	74836026	T	T	74836026	3	4	13	1	0	0	0	0	1	0	0	0	16326	1348	47	3	2143	3	TNNI3K	1	74836026	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	4332080	74836026	174414595	22	7366										
LHX8	431707	broad.mit.edu	37	chr1	75622726	75622726	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgcctacgtgccccaagatgGaacgatgttaactgcgctgc	11	12	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:75622726G>T	uc001dgo.2	+	9	1623	c.959G>T	c.(958-960)GGA>GTA	p.G320V	LHX8_uc001dgq.2_Missense_Mutation_p.G259V	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	320						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CCCCAAGATGGAACGATGTTA	0.478													19	38	---	---	---	---	PASS	T	75622726	T	T	75622726	3	4	13	1	0	0	0	0	1	0	0	0	8776	1174	41	2	989	2	LHX8	1	75622726	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	786700	75622726	173627895	23	7367										
LPAR3	23566	broad.mit.edu	37	chr1	85331112	85331112	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttagcttcatgggtgtcctcCggcggctgatggacccactt	12	12	1	1	rs35745543	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:85331112C>A	uc001dkl.2	-	1	731	c.692G>T	c.(691-693)CGG>CTG	p.R231L	LPAR3_uc009wcj.1_Missense_Mutation_p.R231L	NM_012152	NP_036284	Q9UBY5	LPAR3_HUMAN	lysophosphatidic acid receptor 3	231	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane|intracellular membrane-bounded organelle				lung(3)|ovary(2)	5						GGGTGTCCTCCGGCGGCTGAT	0.463													11	22	---	---	---	---	PASS	A	85331112	A	A	85331112	3	1	13	1	0	0	0	0	1	0	0	0	8906	652	23	1	377	1	LPAR3	1	85331112	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	9708386	85331112	163919509	24	7368										
ZNF326	284695	broad.mit.edu	37	chr1	90482967	90482967	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gttcttcacatcaggaaacaTtagatcatatacagaaacaa	5	8	4	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:90482967T>G	uc001dnq.2	+	8	1157	c.1018T>G	c.(1018-1020)TTA>GTA	p.L340V	ZNF326_uc009wda.1_Missense_Mutation_p.L251V|ZNF326_uc001dnr.2_Missense_Mutation_p.L134V	NM_182976	NP_892021	Q5BKZ1	ZN326_HUMAN	zinc finger protein 326 isoform 1	340					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	DNA binding			ovary(1)	1		all_lung(203;0.0116)|Lung NSC(277;0.0417)		all cancers(265;0.00728)|Epithelial(280;0.0265)		TCAGGAAACATTAGATCATAT	0.299													8	33	---	---	---	---	PASS	G	90482967	G	G	90482967	3	3	13	1	0	0	0	0	1	0	0	0	17843	1490	52	5	1052	5	ZNF326	1	90482967	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	5151855	90482967	158767654	25	7369										
SLC44A3	126969	broad.mit.edu	37	chr1	95294132	95294132	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cactgtgtcccaggctaccaGttcctccaaggtaaaagctt	8	13	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:95294132G>T	uc001dqv.3	+	5	606	c.499G>T	c.(499-501)GTT>TTT	p.V167F	SLC44A3_uc001dqx.3_Missense_Mutation_p.V167F|SLC44A3_uc010otq.1_Missense_Mutation_p.V99F|SLC44A3_uc010otr.1_Missense_Mutation_p.V131F|SLC44A3_uc001dqw.3_Missense_Mutation_p.V119F|SLC44A3_uc010ots.1_Missense_Mutation_p.V87F|SLC44A3_uc009wds.2_Missense_Mutation_p.V70F|SLC44A3_uc010ott.1_Missense_Mutation_p.V87F|SLC44A3_uc010otu.1_RNA	NM_001114106	NP_001107578	Q8N4M1	CTL3_HUMAN	solute carrier family 44, member 3 isoform 1	167						integral to membrane|plasma membrane	choline transmembrane transporter activity			kidney(1)	1		all_lung(203;0.000712)|Lung NSC(277;0.00316)		all cancers(265;0.039)|Epithelial(280;0.124)	Choline(DB00122)	CAGGCTACCAGTTCCTCCAAG	0.294													4	72	---	---	---	---	PASS	T	95294132	T	T	95294132	3	4	13	1	0	0	0	0	1	0	0	0	14637	1029	36	3	517	3	SLC44A3	1	95294132	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	4811165	95294132	153956489	26	7370										
DBT	1629	broad.mit.edu	37	chr1	100681747	100681747	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cctgagccaacaacttcactCagcttaatctaaaaaatgat	4	11	3	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:100681747C>T	uc001dta.2	-	6	597	c.564G>A	c.(562-564)CTG>CTA	p.L188L	DBT_uc010oug.1_Silent_p.L7L	NM_001918	NP_001909	P11182	ODB2_HUMAN	dihydrolipoamide branched chain transacylase	188					branched chain family amino acid catabolic process|fatty-acyl-CoA biosynthetic process	microtubule cytoskeleton|mitochondrial alpha-ketoglutarate dehydrogenase complex|mitochondrial nucleoid	acyltransferase activity|cofactor binding|dihydrolipoyllysine-residue (2-methylpropanoyl)transferase activity|protein binding			pancreas(1)	1		all_epithelial(167;5.4e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0739)|all cancers(265;0.123)|COAD - Colon adenocarcinoma(174;0.154)|Lung(183;0.199)		CAACTTCACTCAGCTTAATCT	0.313													10	36	---	---	---	---	PASS	T	100681747	T	T	100681747	2	4	13	1	0	0	0	0	0	0	0	1	4258	813	29	2		2	DBT	1	100681747	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	5387615	100681747	148568874	27	7371										
COL11A1	1301	broad.mit.edu	37	chr1	103380328	103380328	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aggtccagcagctccaggtgGaccagcttcccctttctctc	9	16	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:103380328G>A	uc001dul.2	-	51	4174	c.3856C>T	c.(3856-3858)CCA>TCA	p.P1286S	COL11A1_uc001duk.2_Missense_Mutation_p.P482S|COL11A1_uc001dum.2_Missense_Mutation_p.P1298S|COL11A1_uc001dun.2_Missense_Mutation_p.P1247S|COL11A1_uc009weh.2_Missense_Mutation_p.P1170S	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1286	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GCTCCAGGTGGACCAGCTTCC	0.473													4	13	---	---	---	---	PASS	A	103380328	A	A	103380328	3	1	13	1	0	0	0	0	1	0	0	0	3667	1174	41	2	1632	2	COL11A1	1	103380328	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2698581	103380328	145870293	28	7372										
COL11A1	1301	broad.mit.edu	37	chr1	103471654	103471654	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggttctcctggcattcctctTcctccatctgcacctggacg	8	16	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:103471654T>C	uc001dul.2	-	17	2079	c.1761A>G	c.(1759-1761)GGA>GGG	p.G587G	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Silent_p.G599G|COL11A1_uc001dun.2_Silent_p.G548G|COL11A1_uc009weh.2_Silent_p.G471G	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	587	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GCATTCCTCTTCCTCCATCTG	0.363													8	32	---	---	---	---	PASS	C	103471654	C	C	103471654	2	2	13	1	0	0	0	0	0	0	0	1	3667	1770	62	5		5	COL11A1	1	103471654	Silent	SNP	T	TCGA-18-3421-01A-01D-0983-08	91326	103471654	145778967	29	7373										
GSTM5	2949	broad.mit.edu	37	chr1	110255769	110255769	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tatgacagaagccagtggctGaatgaaaaattcaagctggg	12	6	1	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:110255769G>T	uc001dyn.2	+	3	212	c.141G>T	c.(139-141)CTG>CTT	p.L47L	GSTM5_uc010ovu.1_5'UTR	NM_000851	NP_000842	P46439	GSTM5_HUMAN	glutathione S-transferase mu 5	47	Glutathione binding (By similarity).|GST N-terminal.				xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity			central_nervous_system(6)	6		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Colorectal(144;0.0131)|all cancers(265;0.0252)|Epithelial(280;0.0265)|Lung(183;0.0425)|COAD - Colon adenocarcinoma(174;0.0474)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	GCCAGTGGCTGAATGAAAAAT	0.567													16	34	---	---	---	---	PASS	T	110255769	T	T	110255769	2	4	13	1	0	0	0	0	0	0	0	1	6841	1277	45	2		2	GSTM5	1	110255769	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	6784115	110255769	138994852	30	7374										
ZNF697	90874	broad.mit.edu	37	chr1	120165764	120165764	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcttctcgcccgtgtgcacgCgctggtgcttcaccaagtcc	11	16	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:120165764C>T	uc001ehy.1	-	3	1316	c.1202G>A	c.(1201-1203)CGC>CAC	p.R401H		NM_001080470	NP_001073939	Q5TEC3	ZN697_HUMAN	zinc finger protein 697	401	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_neural(166;0.219)	all_lung(203;3.66e-05)|Lung NSC(69;0.000202)|all_epithelial(167;0.0266)		Lung(183;0.011)|LUSC - Lung squamous cell carcinoma(189;0.0577)		CGTGTGCACGCGCTGGTGCTT	0.667													6	9	---	---	---	---	PASS	T	120165764	T	T	120165764	3	4	13	1	0	0	0	0	1	0	0	0	18097	768	27	1	439	1	ZNF697	1	120165764	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	9909995	120165764	129084857	31	7375										
ANKRD34A	284615	broad.mit.edu	37	chr1	145474241	145474241	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cgcccccatgggcggagaaaGtgactagcgggggtcctctc	15	13	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:145474241G>C	uc001enq.1	+	4	2206	c.913G>C	c.(913-915)GTG>CTG	p.V305L	NBPF10_uc001emp.3_Intron|LIX1L_uc001enr.2_5'Flank	NM_001039888	NP_001034977	Q69YU3	AN34A_HUMAN	ankyrin repeat domain 34	305	Pro-rich.										0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GGCGGAGAAAGTGACTAGCGG	0.637													6	38	---	---	---	---	PASS	C	145474241	C	C	145474241	3	2	13	1	0	0	0	0	1	0	0	0	662	1029	36	4	915	4	ANKRD34A	1	145474241	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	25308477	145474241	103776380	32	7376										
BOLA1	51027	broad.mit.edu	37	chr1	149871805	149871805	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	acgcggtcccgcctggcagtGagactcacttccgcgtggct	13	15	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:149871805G>A	uc001etf.2	+	2	314	c.193G>A	c.(193-195)GAG>AAG	p.E65K		NM_016074	NP_057158	Q9Y3E2	BOLA1_HUMAN	bolA-like 1	65						extracellular region	protein binding			ovary(1)	1	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			GCCTGGCAGTGAGACTCACTT	0.677													7	17	---	---	---	---	PASS	A	149871805	A	A	149871805	3	1	13	1	0	0	0	0	1	0	0	0	1485	1291	45	2	195	2	BOLA1	1	149871805	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	4397564	149871805	99378816	33	7377										
FLG	2312	broad.mit.edu	37	chr1	152281417	152281417	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtccacgagaggaagactctGtgtgacgagtgcctgattgt	14	8	1	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:152281417G>T	uc001ezu.1	-	3	5981	c.5945C>A	c.(5944-5946)ACA>AAA	p.T1982K		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1982	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGAAGACTCTGTGTGACGAGT	0.572									Ichthyosis				190	209	---	---	---	---	PASS	T	152281417	T	T	152281417	3	4	13	1	0	0	0	0	1	0	0	0	5922	1377	48	3	6244	3	FLG	1	152281417	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2409612	152281417	96969204	34	7378										
FLG	2312	broad.mit.edu	37	chr1	152285257	152285257	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	catgtctttctcctgcacttGatcttgcctgttcatgggat	8	11	4	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:152285257G>C	uc001ezu.1	-	3	2141	c.2105C>G	c.(2104-2106)TCA>TGA	p.S702*	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	702	Filaggrin 4.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCTGCACTTGATCTTGCCTG	0.552									Ichthyosis				191	247	---	---	---	---	PASS	C	152285257	C	C	152285257	4	2	13	1	0	0	0	0	0	1	0	0	5922	1294	45	2	10084	2	FLG	1	152285257	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	3840	152285257	96965364	35	7379										
YY1AP1	55249	broad.mit.edu	37	chr1	155629621	155629621	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccagcgataggcactgttctCtgacaatccttcttggcact	8	13	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:155629621C>T	uc001fln.2	-	11	2242	c.2218G>A	c.(2218-2220)GAG>AAG	p.E740K	YY1AP1_uc001flg.2_Missense_Mutation_p.E479K|YY1AP1_uc010pgg.1_Missense_Mutation_p.E579K|YY1AP1_uc010pgh.1_Missense_Mutation_p.E683K|YY1AP1_uc010pgi.1_Missense_Mutation_p.E832K|YY1AP1_uc001flh.2_Missense_Mutation_p.E812K|YY1AP1_uc009wqt.2_Missense_Mutation_p.E663K|YY1AP1_uc001flk.2_Missense_Mutation_p.E683K|YY1AP1_uc001fll.2_Missense_Mutation_p.E694K|YY1AP1_uc009wqv.2_Missense_Mutation_p.E411K|YY1AP1_uc001flm.2_Missense_Mutation_p.E683K|YY1AP1_uc001fli.2_Missense_Mutation_p.E694K|YY1AP1_uc009wqu.2_Missense_Mutation_p.E527K|YY1AP1_uc001flj.2_Missense_Mutation_p.E674K|YY1AP1_uc009wqw.2_Missense_Mutation_p.E663K|YY1AP1_uc001flo.2_Missense_Mutation_p.E628K|YY1AP1_uc001flp.2_Missense_Mutation_p.E694K	NM_139118	NP_620829	Q9H869	YYAP1_HUMAN	YY1-associated protein isoform 2	740					regulation of cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					GCACTGTTCTCTGACAATCCT	0.537													18	61	---	---	---	---	PASS	T	155629621	T	T	155629621	3	4	13	1	0	0	0	0	1	0	0	0	17505	922	32	2	176	2	YY1AP1	1	155629621	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	3344364	155629621	93621000	36	7380										
TMEM79	84283	broad.mit.edu	37	chr1	156256056	156256056	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cccaactccacccagggatcCtggtgtacgggctgagcctg	12	15	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:156256056C>A	uc010phi.1	+	3	959	c.763C>A	c.(763-765)CTG>ATG	p.L255M	TMEM79_uc001fod.2_Missense_Mutation_p.L96M|TMEM79_uc009wrw.2_Missense_Mutation_p.L255M	NM_032323	NP_115699	Q9BSE2	TMM79_HUMAN	transmembrane protein 79	255	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1	Hepatocellular(266;0.158)					CCCAGGGATCCTGGTGTACGG	0.607													5	53	---	---	---	---	PASS	A	156256056	A	A	156256056	3	1	13	1	0	0	0	0	1	0	0	0	16200	680	24	3	769	3	TMEM79	1	156256056	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	626435	156256056	92994565	37	7381										
OR6N2	81442	broad.mit.edu	37	chr1	158747277	158747277	+	Frame_Shift_Del	DEL	C	-	-													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgtgcagagctgcatccagtCggatgactgagaagatgagc							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:158747277delC	uc010pir.1	-	1	149	c.149delG	c.(148-150)CGAfs	p.R50fs		NM_001005278	NP_001005278	Q8NGY6	OR6N2_HUMAN	olfactory receptor, family 6, subfamily N,	50	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_hematologic(112;0.0378)					TGCATCCAGTCGGATGACTGA	0.478													132	69	---	---	---	---		-	158747277	-	-	158747277	7	5	13	1	0	1	0	1	0	0	0	0	11207	884	31	0	807	0	OR6N2	1	158747277	Frame_Shift_Del	DEL	C	TCGA-18-3421-01A-01D-0983-08	2491221	158747277	90503344	38	7382										
OR10J5	127385	broad.mit.edu	37	chr1	159504988	159504988	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tacgtcactgagagaacaagGtctttttctattgaactttc	7	8	3	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:159504988G>T	uc010piw.1	-	1	810	c.810C>A	c.(808-810)GAC>GAA	p.D270E		NM_001004469	NP_001004469	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J,	270	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_hematologic(112;0.0429)					AGAGAACAAGGTCTTTTTCTA	0.483													15	24	---	---	---	---	PASS	T	159504988	T	T	159504988	3	4	13	1	0	0	0	0	1	0	0	0	10912	1252	44	3	121	3	OR10J5	1	159504988	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	757711	159504988	89745633	39	7383										
ITLN2	142683	broad.mit.edu	37	chr1	160920480	160920480	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gatgcccaggtccttggcctGgatgtcgtagtagccagggt	15	10	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:160920480G>C	uc001fxd.2	-	5	521	c.463C>G	c.(463-465)CAG>GAG	p.Q155E	ITLN2_uc009wts.2_Missense_Mutation_p.Q154E|ITLN2_uc010pju.1_Missense_Mutation_p.Q72E	NM_080878	NP_543154	Q8WWU7	ITLN2_HUMAN	intelectin 2 precursor	155	Fibrinogen C-terminal.				signal transduction	extracellular region	receptor binding|sugar binding			ovary(1)	1	all_cancers(52;2.99e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			TCCTTGGCCTGGATGTCGTAG	0.592													7	46	---	---	---	---	PASS	C	160920480	C	C	160920480	3	2	13	1	0	0	0	0	1	0	0	0	7911	1357	47	4	530	4	ITLN2	1	160920480	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1415492	160920480	88330141	40	7384										
F5	2153	broad.mit.edu	37	chr1	169519234	169519234	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcccctggttgaactgctctGatcatggtgttgttcctgcc	10	12	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:169519234G>C	uc001ggg.1	-	10	1561	c.1416C>G	c.(1414-1416)ATC>ATG	p.I472M	F5_uc010plr.1_RNA	NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	472	F5/8 type A 2.|Plastocyanin-like 3.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	GAACTGCTCTGATCATGGTGT	0.343													30	50	---	---	---	---	PASS	C	169519234	C	C	169519234	3	2	13	1	0	0	0	0	1	0	0	0	5348	1280	45	2	5322	2	F5	1	169519234	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	8598754	169519234	79731387	41	7385										
TNN	63923	broad.mit.edu	37	chr1	175046647	175046647	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccagccactctggagcctccCggctgcagcaacaaggagca	11	16	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:175046647C>A	uc001gkl.1	+	2	206	c.93C>A	c.(91-93)CCC>CCA	p.P31P	TNN_uc010pmx.1_Silent_p.P31P	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	31					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		TGGAGCCTCCCGGCTGCAGCA	0.602													16	18	---	---	---	---	PASS	A	175046647	A	A	175046647	2	1	13	1	0	0	0	0	0	0	0	1	16320	639	23	1		1	TNN	1	175046647	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	5527413	175046647	74203974	42	7386										
TNR	7143	broad.mit.edu	37	chr1	175306756	175306756	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gatggggtaaaccccactcaAagtgtctccattcatcaaat	7	11	4	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:175306756A>C	uc001gkp.1	-	17	3523	c.3442T>G	c.(3442-3444)TTG>GTG	p.L1148V	TNR_uc009wwu.1_Missense_Mutation_p.L1148V	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1148	Fibrinogen C-terminal.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ACCCCACTCAAAGTGTCTCCA	0.502													13	28	---	---	---	---	PASS	C	175306756	C	C	175306756	3	2	13	1	0	0	0	0	1	0	0	0	16335	11	1	5	654	5	TNR	1	175306756	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	260109	175306756	73943865	43	7387										
FAM5B	57795	broad.mit.edu	37	chr1	177249554	177249554	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctctgctccccaaggtccttGtcctactggtggaaccgaat	9	14	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:177249554G>T	uc001glf.2	+	8	1554	c.1242G>T	c.(1240-1242)TTG>TTT	p.L414F	FAM5B_uc001glg.2_Missense_Mutation_p.L309F	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	414						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CAAGGTCCTTGTCCTACTGGT	0.522													5	31	---	---	---	---	PASS	T	177249554	T	T	177249554	3	4	13	1	0	0	0	0	1	0	0	0	5593	1368	48	3	1268	3	FAM5B	1	177249554	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1942798	177249554	72001067	44	7388										
APOBEC4	403314	broad.mit.edu	37	chr1	183617058	183617058	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aaaaacaacaggagccctgaGgtctggaggtaggttgggtt	15	6	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:183617058G>T	uc001gqn.2	-	2	1131	c.859C>A	c.(859-861)CTC>ATC	p.L287I	RGL1_uc010pof.1_Intron|RGL1_uc001gqm.2_Intron|RGL1_uc010pog.1_Intron|RGL1_uc010poh.1_Intron	NM_203454	NP_982279	Q8WW27	ABEC4_HUMAN	apolipoprotein B	287					mRNA processing		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0						GGAGCCCTGAGGTCTGGAGGT	0.483													5	52	---	---	---	---	PASS	T	183617058	T	T	183617058	3	4	13	1	0	0	0	0	1	0	0	0	796	1000	35	3	248	3	APOBEC4	1	183617058	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	6367504	183617058	65633563	45	7389										
CHIT1	1118	broad.mit.edu	37	chr1	203192298	203192298	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	acctcgtatccagcatccacAtaggtctgcccagctggaac	8	15	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:203192298A>G	uc001gzn.2	-	6	666	c.570T>C	c.(568-570)TAT>TAC	p.Y190Y	FMOD_uc010pqi.1_Intron|CHIT1_uc001gzm.1_Intron|CHIT1_uc009xal.1_5'UTR|CHIT1_uc009xam.1_RNA|CHIT1_uc009xan.1_RNA|CHIT1_uc001gzo.2_Silent_p.Y181Y	NM_003465	NP_003456	Q13231	CHIT1_HUMAN	chitotriosidase precursor	190					chitin catabolic process|immune response|response to bacterium	extracellular space|lysosome	cation binding|chitin binding|endochitinase activity				0						CAGCATCCACATAGGTCTGCC	0.582													44	92	---	---	---	---	PASS	G	203192298	G	G	203192298	2	3	13	1	0	0	0	0	0	0	0	1	3346	224	8	5		5	CHIT1	1	203192298	Silent	SNP	A	TCGA-18-3421-01A-01D-0983-08	19575240	203192298	46058323	46	7390										
ZC3H11A	9877	broad.mit.edu	37	chr1	203809458	203809458	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agtttccaagtctcttaaggAgcgattaggcatgtcagctg	11	8	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:203809458A>T	uc001hac.2	+	14	1614	c.998A>T	c.(997-999)GAG>GTG	p.E333V	ZC3H11A_uc001had.2_Missense_Mutation_p.E333V|ZC3H11A_uc001hae.2_Missense_Mutation_p.E333V|ZC3H11A_uc001haf.2_Missense_Mutation_p.E333V|ZC3H11A_uc010pqm.1_Missense_Mutation_p.E279V|ZC3H11A_uc001hag.1_Missense_Mutation_p.E333V	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	333							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			TCTCTTAAGGAGCGATTAGGC	0.333													30	96	---	---	---	---	PASS	T	203809458	T	T	203809458	3	4	13	1	0	0	0	0	1	0	0	0	17557	304	11	5	1036	5	ZC3H11A	1	203809458	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	617160	203809458	45441163	47	7391										
PSEN2	5664	broad.mit.edu	37	chr1	227071548	227071548	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gatcatgctgtttgtgcctgTcactctgtgcatgatcgtgg	12	9	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:227071548T>C	uc009xeo.1	+	5	711	c.284T>C	c.(283-285)GTC>GCC	p.V95A	PSEN2_uc009xep.1_Missense_Mutation_p.V95A|PSEN2_uc001hqk.2_RNA	NM_000447	NP_000438	P49810	PSN2_HUMAN	presenilin 2 isoform 1	95	Helical; (Potential).				amyloid precursor protein catabolic process|anti-apoptosis|apoptosis|beta-amyloid metabolic process|calcium ion transport|induction of apoptosis by extracellular signals|intracellular signal transduction|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear inner membrane|perinuclear region of cytoplasm|Z disc	aspartic-type endopeptidase activity|protein binding			lung(2)	2		Prostate(94;0.0771)				TTTGTGCCTGTCACTCTGTGC	0.592													14	114	---	---	---	---	PASS	C	227071548	C	C	227071548	3	2	13	1	0	0	0	0	1	0	0	0	12651	1667	58	5	290	5	PSEN2	1	227071548	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	23262090	227071548	22179073	48	7392										
CDC42BPA	8476	broad.mit.edu	37	chr1	227203781	227203781	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcactcttaattcctcttacCatgggcagatctttcaggat	6	11	5	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:227203781C>A	uc001hqr.2	-	33	5695	c.4752G>T	c.(4750-4752)ATG>ATT	p.M1584I	CDC42BPA_uc001hqq.2_Missense_Mutation_p.M883I|CDC42BPA_uc001hqs.2_Missense_Mutation_p.M1503I|CDC42BPA_uc009xes.2_Missense_Mutation_p.M1556I|CDC42BPA_uc010pvs.1_Missense_Mutation_p.M1564I|CDC42BPA_uc001hqp.2_Missense_Mutation_p.M740I|CDC42BPA_uc001hqt.2_Missense_Mutation_p.M462I	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	1597					actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TTCCTCTTACCATGGGCAGAT	0.378													5	38	---	---	---	---	PASS	A	227203781	A	A	227203781	3	1	13	1	0	0	0	0	1	0	0	0	3072	608	21	3	423	3	CDC42BPA	1	227203781	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	132233	227203781	22046840	49	7393										
TRIM67	440730	broad.mit.edu	37	chr1	231344869	231344869	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggtacgacaaccacccagacCccgccttcggggtggccagg	13	16	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:231344869C>A	uc009xfn.1	+	8	2038	c.1996C>A	c.(1996-1998)CCC>ACC	p.P666T		NM_001004342	NP_001004342	Q6ZTA4	TRI67_HUMAN	tripartite motif-containing 67	666	B30.2/SPRY.					cytoplasm|cytoskeleton	zinc ion binding			ovary(2)|breast(1)|kidney(1)	4	Breast(184;0.0871)	all_cancers(173;0.189)|Prostate(94;0.167)				CCACCCAGACCCCGCCTTCGG	0.632													6	54	---	---	---	---	PASS	A	231344869	A	A	231344869	3	1	13	1	0	0	0	0	1	0	0	0	16537	623	22	3	2026	3	TRIM67	1	231344869	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4141088	231344869	17905752	50	7394										
RYR2	6262	broad.mit.edu	37	chr1	237756920	237756920	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttactctaggagatgaaaaaGgaaaagtgcatgaaaggtta	11	3	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:237756920G>C	uc001hyl.1	+	33	4540	c.4420G>C	c.(4420-4422)GGA>CGA	p.G1474R		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1474	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AGATGAAAAAGGAAAAGTGCA	0.383													4	43	---	---	---	---	PASS	C	237756920	C	C	237756920	3	2	13	1	0	0	0	0	1	0	0	0	13769	1001	35	4	4550	4	RYR2	1	237756920	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	6412051	237756920	11493701	51	7395										
ZP4	57829	broad.mit.edu	37	chr1	238050715	238050715	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agtaaatggaaactggaacaGaacaaaagcttgtgttgcca	10	6	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:238050715G>T	uc001hym.2	-	5	700	c.700C>A	c.(700-702)CTG>ATG	p.L234M	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	234	ZP.|Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			AACTGGAACAGAACAAAAGCT	0.517													18	104	---	---	---	---	PASS	T	238050715	T	T	238050715	3	4	13	1	0	0	0	0	1	0	0	0	18215	933	33	2	954	2	ZP4	1	238050715	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	293795	238050715	11199906	52	7396										
AHCTF1	25909	broad.mit.edu	37	chr1	247040362	247040362	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctgaacgctggcactggactGcaaaaatttcactaaacatt	7	10	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:247040362G>A	uc001ibu.1	-	22	2834	c.2827C>T	c.(2827-2829)CAG>TAG	p.Q943*	AHCTF1_uc001ibv.1_Nonsense_Mutation_p.Q952*|AHCTF1_uc009xgs.1_5'UTR|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	943	Necessary for cytoplasmic localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			GCACTGGACTGCAAAAATTTC	0.368													6	23	---	---	---	---	PASS	A	247040362	A	A	247040362	4	1	13	1	0	0	0	0	0	1	0	0	408	1328	46	3	4029	3	AHCTF1	1	247040362	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	8989647	247040362	2210259	53	7397										
OR6F1	343169	broad.mit.edu	37	chr1	247875683	247875683	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tagtgtaaaggatagcagatGgcaagacagcggtcataagc	13	6	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr1:247875683G>A	uc001idj.1	-	1	375	c.375C>T	c.(373-375)GCC>GCT	p.A125A		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			GATAGCAGATGGCAAGACAGC	0.517													6	30	---	---	---	---	PASS	A	247875683	A	A	247875683	2	1	13	1	0	0	0	0	0	0	0	1	11201	1335	47	3		3	OR6F1	1	247875683	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	835321	247875683	1374938	54	7398										
EHD3	30845	broad.mit.edu	37	chr2	31483532	31483532	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gatgcgagtggtgctgaacaAagctgaccagatcgagacgc	14	9	0	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:31483532A>C	uc002rnu.2	+	4	1267	c.659A>C	c.(658-660)AAA>ACA	p.K220T	EHD3_uc010ymt.1_Intron	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	220	Potential.	ATP (By similarity).			blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					GTGCTGAACAAAGCTGACCAG	0.552													3	45	---	---	---	---	PASS	C	31483532	C	C	31483532	3	2	13	1	0	0	0	0	1	0	0	0	4979	14	1	5	673	5	EHD3	2	31483532	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08		31483532	211715841	55	7399										
SOS1	6654	broad.mit.edu	37	chr2	39240652	39240652	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttgcaaaagatatgcatctcTttcaaaatcatagaagtggt	7	6	3	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:39240652T>A	uc002rrk.3	-	13	2157	c.2116A>T	c.(2116-2118)AGA>TGA	p.R706*	SOS1_uc002rrj.3_Nonsense_Mutation_p.R320*	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	706	N-terminal Ras-GEF.				apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				TATGCATCTCTTTCAAAATCA	0.323									Noonan_syndrome				8	40	---	---	---	---	PASS	A	39240652	A	A	39240652	4	1	13	1	0	0	0	0	0	1	0	0	14936	1617	56	5	1929	5	SOS1	2	39240652	Nonsense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	7757120	39240652	203958721	56	7400										
LHCGR	3973	broad.mit.edu	37	chr2	48915114	48915114	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gatgggataaaaaagaaccaGtaaaactttagagttggtta	10	3	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:48915114G>A	uc002rwu.3	-	11	1892	c.1822C>T	c.(1822-1824)CTG>TTG	p.L608L	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	608	Helical; Name=7; (Potential).		Missing (in LHR; Leydig cell hypoplasia type 1).		male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	AAAAGAACCAGTAAAACTTTA	0.373									Familial_Male-Limited_Precocious_Puberty				11	64	---	---	---	---	PASS	A	48915114	A	A	48915114	2	1	13	1	0	0	0	0	0	0	0	1	8762	1020	36	3		3	LHCGR	2	48915114	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	9674462	48915114	194284259	57	7401										
VPS54	51542	broad.mit.edu	37	chr2	64169644	64169644	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aacttagagaaaatatccttGagcagatcaaaccactgggg	9	8	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:64169644G>A	uc002scq.2	-	11	1516	c.1353C>T	c.(1351-1353)CTC>CTT	p.L451L	VPS54_uc002scp.2_Silent_p.L439L|VPS54_uc010fct.2_Silent_p.L298L	NM_016516	NP_057600	Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 isoform 1	451					protein transport|retrograde transport, endosome to Golgi						0						AAATATCCTTGAGCAGATCAA	0.328													5	11	---	---	---	---	PASS	A	64169644	A	A	64169644	2	1	13	1	0	0	0	0	0	0	0	1	17213	1277	45	2		2	VPS54	2	64169644	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	15254530	64169644	179029729	58	7402										
C2orf3	6936	broad.mit.edu	37	chr2	75923427	75923427	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gatccattgccacaggaaagAtctatgtctctttcctaaaa	6	10	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:75923427A>G	uc002sno.2	-	5	862	c.732T>C	c.(730-732)GAT>GAC	p.D244D	C2orf3_uc010ffs.2_5'UTR|C2orf3_uc002snn.2_Silent_p.D75D|C2orf3_uc010fft.2_Intron	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	244					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CACAGGAAAGATCTATGTCTC	0.249													20	21	---	---	---	---	PASS	G	75923427	G	G	75923427	2	3	13	1	0	0	0	0	0	0	0	1	2162	330	12	5		5	C2orf3	2	75923427	Silent	SNP	A	TCGA-18-3421-01A-01D-0983-08	11753783	75923427	167275946	59	7403										
MAP4K4	9448	broad.mit.edu	37	chr2	102499117	102499117	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agggatggacaaccgtagggGatttggaaggatgtgtacat	16	4	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:102499117G>A	uc002tbg.2	+	25	3110	c.3055G>A	c.(3055-3057)GAT>AAT	p.D1019N	MAP4K4_uc002tbc.2_Missense_Mutation_p.D1100N|MAP4K4_uc002tbd.2_Missense_Mutation_p.D992N|MAP4K4_uc002tbe.2_Missense_Mutation_p.D938N|MAP4K4_uc002tbf.2_Missense_Mutation_p.D1053N|MAP4K4_uc010yvy.1_Missense_Mutation_p.D1015N|MAP4K4_uc002tbh.2_Missense_Mutation_p.D937N|MAP4K4_uc002tbi.2_Missense_Mutation_p.D822N|MAP4K4_uc010yvz.1_Missense_Mutation_p.D1059N|MAP4K4_uc002tbk.2_Missense_Mutation_p.D474N|MAP4K4_uc002tbl.2_Missense_Mutation_p.D205N	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	1019	CNH.|Mediates interaction with RAP2A.				intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						AACCGTAGGGGATTTGGAAGG	0.333													44	73	---	---	---	---	PASS	A	102499117	A	A	102499117	3	1	13	1	0	0	0	0	1	0	0	0	9262	1174	41	2	3404	2	MAP4K4	2	102499117	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	26575690	102499117	140700256	60	7404										
GPR39	2863	broad.mit.edu	37	chr2	133402693	133402693	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gggctgattgttgtgacattGgccgtatgctggatgcccaa	14	8	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:133402693G>A	uc002ttl.2	+	2	1345	c.876G>A	c.(874-876)TTG>TTA	p.L292L	LYPD1_uc002ttm.3_3'UTR|LYPD1_uc002ttn.2_3'UTR|LYPD1_uc002tto.2_3'UTR	NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	292	Helical; Name=6; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						TTGTGACATTGGCCGTATGCT	0.512													12	36	---	---	---	---	PASS	A	133402693	A	A	133402693	2	1	13	1	0	0	0	0	0	0	0	1	6693	1339	47	3		3	GPR39	2	133402693	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	30903576	133402693	109796680	61	7405										
LCT	3938	broad.mit.edu	37	chr2	136575393	136575393	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cctgcgtggatcccagatgcTcacccctctcccaccctcgg	8	20	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:136575393T>G	uc002tuu.1	-	6	1236	c.1225A>C	c.(1225-1227)AGC>CGC	p.S409R		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	409	Extracellular (Potential).|4 X approximate repeats.|2.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TCCCAGATGCTCACCCCTCTC	0.627													17	34	---	---	---	---	PASS	G	136575393	G	G	136575393	3	3	13	1	0	0	0	0	1	0	0	0	8693	1551	54	5	4606	5	LCT	2	136575393	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	3172700	136575393	106623980	62	7406										
LRP1B	53353	broad.mit.edu	37	chr2	141055532	141055532	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccagtgcacagctgcaggtgGgtctccctattggaaacaat	11	11	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:141055532G>T	uc002tvj.1	-	84	13784	c.12812C>A	c.(12811-12813)CCC>CAC	p.P4271H		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4271	Extracellular (Potential).|EGF-like 11.				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)		GCTGCAGGTGGGTCTCCCTAT	0.343										TSP Lung(27;0.18)			12	60	---	---	---	---	PASS	T	141055532	T	T	141055532	3	4	13	1	0	0	0	0	1	0	0	0	8955	1232	43	3	1019	3	LRP1B	2	141055532	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	4480139	141055532	102143841	63	7407										
ZEB2	9839	broad.mit.edu	37	chr2	145157348	145157348	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttttttgcctggaaacagtaTtgtccacaatctgtagaacc	7	9	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:145157348T>A	uc002tvu.2	-	8	1886	c.1406A>T	c.(1405-1407)AAT>ATT	p.N469I	ZEB2_uc002tvv.2_Missense_Mutation_p.N463I|ZEB2_uc010zbm.1_Missense_Mutation_p.N440I|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.N498I	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	469	SMAD-MH2 binding domain (By similarity).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		GGAAACAGTATTGTCCACAAT	0.418													27	36	---	---	---	---	PASS	A	145157348	A	A	145157348	3	1	13	1	0	0	0	0	1	0	0	0	17621	1493	52	5	2250	5	ZEB2	2	145157348	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	4101816	145157348	98042025	64	7408										
SCN1A	6323	broad.mit.edu	37	chr2	166895999	166895999	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccaagttctaccaggctaagCgtcacaataaaaccgtcaaa	6	12	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:166895999C>A	uc010zcz.1	-	14	2508	c.2490G>T	c.(2488-2490)ACG>ACT	p.T830T	SCN1A_uc002udo.3_Silent_p.T710T|SCN1A_uc010fpk.2_Silent_p.T682T	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	841	II.|Helical; Name=S3 of repeat II; (By similarity).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CCAGGCTAAGCGTCACAATAA	0.363													20	36	---	---	---	---	PASS	A	166895999	A	A	166895999	2	1	13	1	0	0	0	0	0	0	0	1	13914	755	27	1		1	SCN1A	2	166895999	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	21738651	166895999	76303374	65	7409										
LRP2	4036	broad.mit.edu	37	chr2	170042418	170042418	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	caatatcaacacaagtccgcTtgtcagacatgagcttgtaa	7	10	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:170042418T>C	uc002ues.2	-	50	9653	c.9440A>G	c.(9439-9441)AAG>AGG	p.K3147R		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3147	EGF-like 11.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ACAAGTCCGCTTGTCAGACAT	0.463													26	55	---	---	---	---	PASS	C	170042418	C	C	170042418	3	2	13	1	0	0	0	0	1	0	0	0	8956	1609	56	5	4647	5	LRP2	2	170042418	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	3146419	170042418	73156955	66	7410										
TTN	7273	broad.mit.edu	37	chr2	179406245	179406245	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cgtcatcctctggtgggtacCaagtaagtgtcatgccatca	10	11	4	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:179406245C>G	uc010zfg.1	-	299	90079	c.89855G>C	c.(89854-89856)TGG>TCG	p.W29952S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.W23647S|TTN_uc010zfi.1_Missense_Mutation_p.W23580S|TTN_uc010zfj.1_Missense_Mutation_p.W23455S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30879							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)			TGGTGGGTACCAAGTAAGTGT	0.473													7	28	---	---	---	---	PASS	G	179406245	G	G	179406245	3	3	13	1	0	0	0	0	1	0	0	0	16732	595	21	4	10472	4	TTN	2	179406245	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	9363827	179406245	63793128	67	7411										
TTN	7273	broad.mit.edu	37	chr2	179479401	179479401	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcaggttttccggttacggtGgcaggaagttcaatcttggt	13	7	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:179479401G>T	uc010zfg.1	-	210	41360	c.41136C>A	c.(41134-41136)GCC>GCA	p.A13712A	uc002ump.1_RNA|TTN_uc010zfh.1_Silent_p.A7407A|TTN_uc010zfi.1_Silent_p.A7340A|TTN_uc010zfj.1_Silent_p.A7215A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14639							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)			CGGTTACGGTGGCAGGAAGTT	0.413													10	23	---	---	---	---	PASS	T	179479401	T	T	179479401	2	4	13	1	0	0	0	0	0	0	0	1	16732	1335	47	3		3	TTN	2	179479401	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	73156	179479401	63719972	68	7412										
TTN	7273	broad.mit.edu	37	chr2	179544074	179544074	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ataaggatgtaccttttgctGgcggaggcttctccttttta	10	8	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:179544074G>A	uc010zfg.1	-	139	30226	c.30002C>T	c.(30001-30003)CCA>CTA	p.P10001L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P6662L|TTN_uc010fre.1_Intron|TTN_uc002una.1_RNA|TTN_uc010frf.1_RNA	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10928							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)			ACCTTTTGCTGGCGGAGGCTT	0.408													8	19	---	---	---	---	PASS	A	179544074	A	A	179544074	3	1	13	1	0	0	0	0	1	0	0	0	16732	1348	47	3	70679	3	TTN	2	179544074	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	64673	179544074	63655299	69	7413										
TTN	7273	broad.mit.edu	37	chr2	179623783	179623783	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aacaaacgtgtaagttccttCatcttctggataagcttcgg	8	9	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:179623783C>T	uc010zfg.1	-	44	10455	c.10231G>A	c.(10231-10233)GAA>AAA	p.E3411K	TTN_uc010zfh.1_Missense_Mutation_p.E3365K|TTN_uc010zfi.1_Missense_Mutation_p.E3365K|TTN_uc010zfj.1_Missense_Mutation_p.E3365K|TTN_uc002umz.1_Missense_Mutation_p.E72K|TTN_uc002unb.2_Missense_Mutation_p.E3411K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TAAGTTCCTTCATCTTCTGGA	0.408													15	42	---	---	---	---	PASS	T	179623783	T	T	179623783	3	4	13	1	0	0	0	0	1	0	0	0	16732	835	29	2	101033	2	TTN	2	179623783	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	79709	179623783	63575590	70	7414										
ZSWIM2	151112	broad.mit.edu	37	chr2	187712502	187712502	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aatgtggaacagttacaaacGtgaggatttcctagaaaaac	9	6	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:187712502G>C	uc002upu.1	-	2	226	c.186C>G	c.(184-186)CAC>CAG	p.H62Q		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	62	SWIM-type.				apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			AGTTACAAACGTGAGGATTTC	0.343													22	31	---	---	---	---	PASS	C	187712502	C	C	187712502	3	2	13	1	0	0	0	0	1	0	0	0	18238	1136	40	4	1747	4	ZSWIM2	2	187712502	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	8088719	187712502	55486871	71	7415										
MAP2	4133	broad.mit.edu	37	chr2	210558495	210558495	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aattgaaaagagctcaattcAggaactttttgaaatgagag	9	4	2	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr2:210558495A>C	uc002vde.1	+	7	1849	c.1601A>C	c.(1600-1602)CAG>CCG	p.Q534P	MAP2_uc002vdc.1_Missense_Mutation_p.Q534P|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.Q530P	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	534					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)	AGCTCAATTCAGGAACTTTTT	0.388													16	47	---	---	---	---	PASS	C	210558495	C	C	210558495	3	2	13	1	0	0	0	0	1	0	0	0	9235	188	7	5	1615	5	MAP2	2	210558495	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	22845993	210558495	32640878	72	7416										
CNTN6	27255	broad.mit.edu	37	chr3	1363343	1363343	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	taactgtttagtccagtcccCgatattagttggagaaggtt	10	7	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:1363343C>T	uc003boz.2	+	8	1038	c.771C>T	c.(769-771)CCC>CCT	p.P257P	CNTN6_uc011asj.1_Silent_p.P185P|CNTN6_uc003bpa.2_Silent_p.P257P	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	257	Ig-like C2-type 3.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		GTCCAGTCCCCGATATTAGTT	0.418													17	11	---	---	---	---	PASS	T	1363343	T	T	1363343	2	4	13	1	0	0	0	0	0	0	0	1	3645	639	23	1		1	CNTN6	3	1363343	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08		1363343	196659087	73	7417										
SRGAP3	9901	broad.mit.edu	37	chr3	9027423	9027423	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cggtggaggagctgctgctgCggcgcatggcggcatcgggg	21	10	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:9027423C>A	uc003brf.1	-	22	3756	c.3080G>T	c.(3079-3081)CGC>CTC	p.R1027L	SRGAP3_uc003brg.1_Missense_Mutation_p.R1003L	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	1027					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		GCTGCTGCTGCGGCGCATGGC	0.721			T	RAF1	pilocytic astrocytoma								4	25	---	---	---	---	PASS	A	9027423	A	A	9027423	3	1	13	1	0	0	0	0	1	0	0	0	15146	768	27	1	223	1	SRGAP3	3	9027423	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	7664080	9027423	188995007	74	7418										
TMEM40	55287	broad.mit.edu	37	chr3	12780076	12780076	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttccccagagggtaccacctCtccaggagcatctgcacaga	9	15	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:12780076C>A	uc003bxg.1	-	6	494	c.367G>T	c.(367-369)GAG>TAG	p.E123*	TMEM40_uc003bxh.1_Nonsense_Mutation_p.E93*|TMEM40_uc003bxi.1_Nonsense_Mutation_p.E47*|TMEM40_uc011auv.1_Nonsense_Mutation_p.E139*	NM_018306	NP_060776	Q8WWA1	TMM40_HUMAN	transmembrane protein 40	123						integral to membrane					0						GGTACCACCTCTCCAGGAGCA	0.547													7	135	---	---	---	---	PASS	A	12780076	A	A	12780076	4	1	13	1	0	0	0	0	0	1	0	0	16160	922	32	2	362	2	TMEM40	3	12780076	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	3752653	12780076	185242354	75	7419										
GLB1	2720	broad.mit.edu	37	chr3	33109729	33109729	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgtaacaacctacctgggtcGgaggagcggagaagaataga	14	7	0	3	rs140353187	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:33109729G>A	uc003cfi.1	-	4	567	c.450C>T	c.(448-450)TCC>TCT	p.S150S	GLB1_uc003cfh.1_Silent_p.S120S|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Silent_p.S198S	NM_000404	NP_000395	P16278	BGAL_HUMAN	galactosidase, beta 1 isoform a preproprotein	150					carbohydrate metabolic process	lysosome|perinuclear region of cytoplasm	beta-galactosidase activity|cation binding|protein binding			large_intestine(1)	1		Melanoma(143;0.104)				TACCTGGGTCGGAGGAGCGGA	0.348													18	75	---	---	---	---	PASS	A	33109729	A	A	33109729	2	1	13	1	0	0	0	0	0	0	0	1	6427	1103	39	1		1	GLB1	3	33109729	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	20329653	33109729	164912701	76	7420										
CTNNB1	1499	broad.mit.edu	37	chr3	41266094	41266094	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	actggcagcaacagtcttacCtggactctggaatccattct	8	12	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:41266094C>A	uc010hia.1	+	4	247	c.91C>A	c.(91-93)CTG>ATG	p.L31M	CTNNB1_uc003ckp.2_Missense_Mutation_p.L31M|CTNNB1_uc003ckq.2_Missense_Mutation_p.L31M|CTNNB1_uc003ckr.2_Missense_Mutation_p.L31M|CTNNB1_uc011azf.1_Missense_Mutation_p.L24M|CTNNB1_uc011azg.1_Intron|uc010hib.1_RNA	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	31			Missing (in hepatocellular carcinoma).		adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.A5_A80del(63)|p.H24_S47del(9)|p.A5_Q143del(7)|p.A5_A80>D(7)|p.Q28_H134del(5)|p.WQQQSYLD25?(5)|p.L31L(4)|p.W25_D32del(4)|p.W25_I140del(4)|p.S23_S33del(3)|p.V22_G38del(3)|p.T3_A126del(2)|p.V22_S33del(2)|p.A5fs*7(2)|p.W25_H36del(2)|p.V22_L139>V(2)|p.M5_N141>D(2)|p.?(2)|p.L10_N141del(2)|p.A5_Y142>D(2)|p.Y30_S33del(2)|p.A20_Q143del(1)|p.A5_Q143>E(1)|p.A13_R151del(1)|p.A5_Q72del(1)|p.S29_H36del(1)|p.M14_S45del(1)|p.Q28_D32>H(1)|p.E9_S47del(1)|p.A5_G80>(1)|p.A20_N141del(1)|p.M8_G50del(1)|p.M1_A87del(1)|p.L31W(1)|p.D11_Y142>H(1)|p.D6_A43del(1)|p.A5_D144>D(1)|p.A5_T42del(1)|p.H24_G38del(1)|p.S23_I35del(1)|p.V22_G80>NNNNN(1)|p.H24_L31del(1)|p.Y30_A97del(1)|p.W25_S33del(1)|p.V22_T102del(1)|p.A20_A80del(1)|p.V22_S71>A(1)|p.D6_K133del(1)|p.Q28_A43del(1)|p.A5_T59del(1)|p.L31Q(1)|p.A20_I35del(1)|p.M1_V173del(1)|p.E15_I140>V(1)|p.W25_A80del(1)|p.A5_R90del(1)|p.S23_A39del(1)|p.D17_P128del(1)|p.H24_M131del(1)|p.A21_A80del(1)|p.A20_R151del(1)|p.Y30_A80del(1)|p.A5_T40del(1)|p.E9_A80del(1)|p.K19_Y142>V(1)|p.A5_E54del(1)|p.A20_L148del(1)|p.V22_A80del(1)|p.W25_I35del(1)|p.M8_A80del(1)|p.E9_I140del(1)|p.P16_K133del(1)|p.V22_Y64del(1)|p.A20_Q72del(1)|p.D6_I140del(1)|p.Q28_Q61del(1)|p.A20_S111del(1)|p.Y30_T40del(1)|p.Q28_I140del(1)|p.D17_A126del(1)|p.M1_T42del(1)|p.A5_I35del(1)|p.S23_I140del(1)|p.L7_I140del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	ACAGTCTTACCTGGACTCTGG	0.478		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				6	22	---	---	---	---	PASS	A	41266094	A	A	41266094	3	1	13	1	0	0	0	0	1	0	0	0	4016	680	24	3	97	3	CTNNB1	3	41266094	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	8156365	41266094	156756336	77	7421										
ZNF502	91392	broad.mit.edu	37	chr3	44763768	44763768	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aacatcatagaactcacactGgtgagaagctctataaatgt	7	8	3	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:44763768G>T	uc011baa.1	+	4	1714	c.1459G>T	c.(1459-1461)GGT>TGT	p.G487C	ZNF502_uc003cns.2_Missense_Mutation_p.G487C|ZNF502_uc011bab.1_Missense_Mutation_p.G487C|ZNF502_uc003cnt.2_Missense_Mutation_p.G487C	NM_001134440	NP_001127912	Q8TBZ5	ZN502_HUMAN	zinc finger protein 502	487					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00855)|KIRC - Kidney renal clear cell carcinoma(197;0.0471)|Kidney(197;0.0589)		AACTCACACTGGTGAGAAGCT	0.398													5	37	---	---	---	---	PASS	T	44763768	T	T	44763768	3	4	13	1	0	0	0	0	1	0	0	0	17947	1348	47	3	1465	3	ZNF502	3	44763768	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	3497674	44763768	153258662	78	7422										
NBEAL2	23218	broad.mit.edu	37	chr3	47030752	47030752	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctctccccacacctacagctGaaaggatgcccaccacccca	5	20	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:47030752G>T	uc003cqp.2	+	5	533	c.354G>T	c.(352-354)CTG>CTT	p.L118L	NBEAL2_uc003cqq.1_Silent_p.L111L	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	118							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		ACCTACAGCTGAAAGGATGCC	0.622													7	5	---	---	---	---	PASS	T	47030752	T	T	47030752	2	4	13	1	0	0	0	0	0	0	0	1	10189	1277	45	2		2	NBEAL2	3	47030752	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	2266984	47030752	150991678	79	7423										
P4HTM	54681	broad.mit.edu	37	chr3	49044337	49044337	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cgcgatgcgcgcgtggaactCtgagggaagagttagccccg	16	11	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:49044337C>G	uc003cvg.2	+	9	1855	c.1506C>G	c.(1504-1506)CTC>CTG	p.L502L	P4HTM_uc003cvh.2_Silent_p.L563L|WDR6_uc011bbx.1_5'Flank|WDR6_uc003cvj.2_5'Flank|WDR6_uc011bby.1_5'Flank|WDR6_uc010hkn.2_5'Flank|WDR6_uc011bbz.1_5'Flank	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	502	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|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			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	GCGTGGAACTCTGAGGGAAGA	0.657													5	5	---	---	---	---	PASS	G	49044337	G	G	49044337	2	3	13	1	0	0	0	0	0	0	0	1	11360	900	32	2		2	P4HTM	3	49044337	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	2013585	49044337	148978093	80	7424										
IMPDH2	3615	broad.mit.edu	37	chr3	49065169	49065169	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	caagaaacagtcatgttcctCctctttgagaaaatcaatgt	6	9	3	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:49065169C>T	uc003cvt.2	-	5	597	c.505G>A	c.(505-507)GAG>AAG	p.E169K		NM_000884	NP_000875	P12268	IMDH2_HUMAN	inosine monophosphate dehydrogenase 2	169	CBS 1.				GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	IMP dehydrogenase activity|metal ion binding|nucleotide binding|protein binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)	TCATGTTCCTCCTCTTTGAGA	0.537													33	36	---	---	---	---	PASS	T	49065169	T	T	49065169	3	4	13	1	0	0	0	0	1	0	0	0	7727	864	30	2	1079	2	IMPDH2	3	49065169	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	20832	49065169	148957261	81	7425										
GRM2	2912	broad.mit.edu	37	chr3	51746554	51746554	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcctctaccagtgccaagctGagtgacaagtcccgctatga	10	13	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:51746554G>T	uc010hlv.2	+	3	755	c.516G>T	c.(514-516)CTG>CTT	p.L172L	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	172	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	GTGCCAAGCTGAGTGACAAGT	0.542													5	65	---	---	---	---	PASS	T	51746554	T	T	51746554	2	4	13	1	0	0	0	0	0	0	0	1	6797	1277	45	2		2	GRM2	3	51746554	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	2681385	51746554	146275876	82	7426										
IQCF2	389123	broad.mit.edu	37	chr3	51897351	51897351	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	actgtgtggtcacagccactCacctgcagttccacattgag	9	13	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:51897351C>T	uc003dbt.1	+	3	498	c.460C>T	c.(460-462)CAC>TAC	p.H154Y	IQCF1_uc003dbq.3_Intron|IQCF2_uc003dbu.1_RNA	NM_203424	NP_982248	Q8IXL9	IQCF2_HUMAN	IQ motif containing F2	154											0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CACAGCCACTCACCTGCAGTT	0.547													55	59	---	---	---	---	PASS	T	51897351	T	T	51897351	3	4	13	1	0	0	0	0	1	0	0	0	7808	826	29	2	470	2	IQCF2	3	51897351	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	150797	51897351	146125079	83	7427										
ITIH1	3697	broad.mit.edu	37	chr3	52813520	52813520	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cagagcaaggtcacgtttcaGctgacttatgaggaagtgct	12	8	2	3	rs35394357	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:52813520G>C	uc003dfs.2	+	5	507	c.483G>C	c.(481-483)CAG>CAC	p.Q161H	ITIH1_uc010hmn.1_RNA	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	161	VIT.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		TCACGTTTCAGCTGACTTATG	0.498													14	55	---	---	---	---	PASS	C	52813520	C	C	52813520	3	2	13	1	0	0	0	0	1	0	0	0	7903	962	34	4	501	4	ITIH1	3	52813520	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	916169	52813520	145208910	84	7428										
ITIH3	3699	broad.mit.edu	37	chr3	52831910	52831910	+	Frame_Shift_Del	DEL	G	-	-													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttcatcaccaacgacctcctGggaagcgccctcaccaagtc							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:52831910delG	uc003dfv.2	+	6	663	c.627delG	c.(625-627)CTGfs	p.L209fs	ITIH3_uc011bek.1_Frame_Shift_Del_p.L209fs	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	209					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		ACGACCTCCTGGGAAGCGCCC	0.527													11	11	---	---	---	---		-	52831910	-	-	52831910	7	5	13	1	0	1	0	1	0	0	0	0	7905	1335	47	0	649	0	ITIH3	3	52831910	Frame_Shift_Del	DEL	G	TCGA-18-3421-01A-01D-0983-08	18390	52831910	145190520	85	7429										
PRKCD	5580	broad.mit.edu	37	chr3	53223900	53223900	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gggttgcagctctttgaaagGgaaccaaccaagaggctggg	15	8	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:53223900G>T	uc003dgl.2	+	18	2108	c.1755G>T	c.(1753-1755)AGG>AGT	p.R585S	PRKCD_uc003dgm.2_Missense_Mutation_p.R585S	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta	585	Protein kinase.				activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)		TCTTTGAAAGGGAACCAACCA	0.547													7	145	---	---	---	---	PASS	T	53223900	T	T	53223900	3	4	13	1	0	0	0	0	1	0	0	0	12509	1223	43	3	1817	3	PRKCD	3	53223900	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	391990	53223900	144798530	86	7430										
TKT	7086	broad.mit.edu	37	chr3	53275207	53275207	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	caggttcagcagctccgcctCggccaggaaaccagcttcag	11	15	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:53275207C>A	uc003dgo.2	-	3	390	c.280G>T	c.(280-282)GAG>TAG	p.E94*	TKT_uc011beo.1_Nonsense_Mutation_p.E47*|TKT_uc003dgq.2_Nonsense_Mutation_p.E94*|TKT_uc011beq.1_Nonsense_Mutation_p.E94*|TKT_uc011ber.1_5'UTR|TKT_uc011bep.1_Intron	NM_001135055	NP_001128527	P29401	TKT_HUMAN	transketolase isoform 1	94					energy reserve metabolic process|xylulose biosynthetic process	cytosol	protein binding|transketolase activity			ovary(2)	2		Prostate(884;0.0959)		BRCA - Breast invasive adenocarcinoma(193;0.000159)|OV - Ovarian serous cystadenocarcinoma(275;0.000314)|Kidney(197;0.00178)|KIRC - Kidney renal clear cell carcinoma(197;0.00201)	Thiamine(DB00152)	AGCTCCGCCTCGGCCAGGAAA	0.657													5	39	---	---	---	---	PASS	A	53275207	A	A	53275207	4	1	13	1	0	0	0	0	0	1	0	0	15931	893	31	2	1639	2	TKT	3	53275207	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	51307	53275207	144747223	87	7431										
EPHA3	2042	broad.mit.edu	37	chr3	89462338	89462338	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttgacccacatacatatgaaGaccctacccaagctgttcat	5	13	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:89462338G>T	uc003dqy.2	+	10	2035	c.1810G>T	c.(1810-1812)GAC>TAC	p.D604Y	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	604	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		TACATATGAAGACCCTACCCA	0.418										TSP Lung(6;0.00050)			6	17	---	---	---	---	PASS	T	89462338	T	T	89462338	3	4	13	1	0	0	0	0	1	0	0	0	5168	942	33	2	1874	2	EPHA3	3	89462338	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	36187131	89462338	108560092	88	7432										
GPR128	84873	broad.mit.edu	37	chr3	100373724	100373724	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgggttttggtcaatctgtgCatatcaatgttgattttcaa	9	5	4	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:100373724C>T	uc003duc.2	+	12	1693	c.1425C>T	c.(1423-1425)TGC>TGT	p.C475C	GPR128_uc011bhc.1_Silent_p.C176C|GPR128_uc003dud.2_5'UTR	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	475	Helical; Name=2; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						TCAATCTGTGCATATCAATGT	0.313													6	78	---	---	---	---	PASS	T	100373724	T	T	100373724	2	4	13	1	0	0	0	0	0	0	0	1	6641	718	25	3		3	GPR128	3	100373724	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	10911386	100373724	97648706	89	7433										
FAM55C	91775	broad.mit.edu	37	chr3	101540798	101540798	+	Nonstop_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtgtgccccttggaaacctaGcctgtcttggaagggactgg	14	10	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:101540798G>T	uc003dvn.2	+	8	2317	c.1680G>T	c.(1678-1680)TAG>TAT	p.*560Y	FAM55C_uc010hpn.2_Nonstop_Mutation_p.*560Y	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	560						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						TGGAAACCTAGCCTGTCTTGG	0.478													26	67	---	---	---	---	PASS	T	101540798	T	T	101540798	4	4	13	1	0	0	0	0	0	0	0	0	5586	966	34	3	1698	3	FAM55C	3	101540798	Nonstop_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1167074	101540798	96481632	90	7434										
MYH15	22989	broad.mit.edu	37	chr3	108163569	108163569	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gttcctccctctgaaactctGatttctccaaggctttctgt	6	13	4	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:108163569G>A	uc003dxa.1	-	23	2690	c.2633C>T	c.(2632-2634)TCA>TTA	p.S878L		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	878	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CTGAAACTCTGATTTCTCCAA	0.433													7	93	---	---	---	---	PASS	A	108163569	A	A	108163569	3	1	13	1	0	0	0	0	1	0	0	0	10034	1294	45	2	3287	2	MYH15	3	108163569	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	6622771	108163569	89858861	91	7435										
CD96	10225	broad.mit.edu	37	chr3	111296348	111296348	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcttttgctcttcttccttaGgaaaacagcagcacggattc	7	11	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:111296348G>T	uc003dxw.2	+	4	714	c.544_splice	c.e4-1	p.E182_splice	CD96_uc003dxv.2_Intron|CD96_uc003dxx.2_Intron|CD96_uc010hpy.1_Intron	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor						cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						TTCTTCCTTAGGAAAACAGCA	0.423									Opitz_Trigonocephaly_syndrome				9	203	---	---	---	---	PASS	T	111296348	T	T	111296348	5	4	13	1	0	0	0	0	0	0	1	0	3048	1014	35	3	557	3	CD96	3	111296348	Splice_Site	SNP	G	TCGA-18-3421-01A-01D-0983-08	3132779	111296348	86726082	92	7436										
PLCXD2	257068	broad.mit.edu	37	chr3	111427219	111427219	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgacgctgcgaactctgtggGagaagaactgccaggtagga	15	8	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:111427219G>A	uc003dya.2	+	2	1196	c.610G>A	c.(610-612)GAG>AAG	p.E204K	PLCXD2_uc003dyb.2_Missense_Mutation_p.E204K|PLCXD2_uc003dxz.2_Missense_Mutation_p.E204K	NM_001134478	NP_001127950	Q0VAA5	PLCX2_HUMAN	phosphatidylinositol-specific phospholipase C, X	204	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(1)	1						AACTCTGTGGGAGAAGAACTG	0.498													13	86	---	---	---	---	PASS	A	111427219	A	A	111427219	3	1	13	1	0	0	0	0	1	0	0	0	12042	1175	41	2	616	2	PLCXD2	3	111427219	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	130871	111427219	86595211	93	7437										
PHLDB2	90102	broad.mit.edu	37	chr3	111603433	111603433	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcttggagggctggaaggtcGgaaggcatctggctcgctcc	16	10	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:111603433G>C	uc010hqa.2	+	2	920	c.509G>C	c.(508-510)CGG>CCG	p.R170P	PHLDB2_uc003dyc.2_Missense_Mutation_p.R197P|PHLDB2_uc003dyd.2_Missense_Mutation_p.R170P|PHLDB2_uc003dyg.2_Missense_Mutation_p.R170P|PHLDB2_uc003dyh.2_Missense_Mutation_p.R170P|PHLDB2_uc003dye.3_Missense_Mutation_p.R170P|PHLDB2_uc003dyf.3_Missense_Mutation_p.R170P	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	170						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						CTGGAAGGTCGGAAGGCATCT	0.547													21	121	---	---	---	---	PASS	C	111603433	C	C	111603433	3	2	13	1	0	0	0	0	1	0	0	0	11852	1116	39	4	596	4	PHLDB2	3	111603433	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	176214	111603433	86418997	94	7438										
ADPRH	141	broad.mit.edu	37	chr3	119306567	119306567	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	atggtggagacagtgattctAcagctgccattgctggctgc	13	9	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:119306567A>G	uc003ecs.2	+	5	1214	c.916A>G	c.(916-918)ACA>GCA	p.T306A	ADPRH_uc010hqv.2_Missense_Mutation_p.T306A|ADPRH_uc011bjb.1_Missense_Mutation_p.T199A|ADPRH_uc003ect.2_Missense_Mutation_p.T306A	NM_001125	NP_001116	P54922	ADPRH_HUMAN	ADP-ribosylarginine hydrolase	306					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding			ovary(1)	1		Lung NSC(201;0.0977)		GBM - Glioblastoma multiforme(114;0.23)		CAGTGATTCTACAGCTGCCAT	0.512													38	30	---	---	---	---	PASS	G	119306567	G	G	119306567	3	3	13	1	0	0	0	0	1	0	0	0	331	391	14	5	926	5	ADPRH	3	119306567	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	7703134	119306567	78715863	95	7439										
ARGFX	503582	broad.mit.edu	37	chr3	121305099	121305099	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	accttcactgagagttctacCagtgacttccaaatgcaaga	7	11	2	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:121305099C>A	uc003eef.2	+	5	695	c.600C>A	c.(598-600)ACC>ACA	p.T200T		NM_001012659	NP_001012677	A6NJG6	ARGFX_HUMAN	arginine-fifty homeobox	200						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(114;0.152)		AGAGTTCTACCAGTGACTTCC	0.463													7	168	---	---	---	---	PASS	A	121305099	A	A	121305099	2	1	13	1	0	0	0	0	0	0	0	1	859	581	21	3		3	ARGFX	3	121305099	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	1998532	121305099	76717331	96	7440										
FBXO40	51725	broad.mit.edu	37	chr3	121341598	121341598	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gccagaacagttttcctctgGgacagtgctggctgacctaa	11	11	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:121341598G>T	uc003eeg.2	+	3	1532	c.1322G>T	c.(1321-1323)GGG>GTG	p.G441V		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	441					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		TTTTCCTCTGGGACAGTGCTG	0.532													7	98	---	---	---	---	PASS	T	121341598	T	T	121341598	3	4	13	1	0	0	0	0	1	0	0	0	5749	1232	43	3	1328	3	FBXO40	3	121341598	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	36499	121341598	76680832	97	7441										
GOLGB1	2804	broad.mit.edu	37	chr3	121414463	121414463	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cttccaccacatgctgaatcCtttctgcttcattactaaca	3	14	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:121414463C>A	uc003eei.3	-	13	5018	c.4892G>T	c.(4891-4893)AGG>ATG	p.R1631M	GOLGB1_uc010hrc.2_Missense_Mutation_p.R1636M|GOLGB1_uc003eej.3_Missense_Mutation_p.R1597M|GOLGB1_uc011bjm.1_Missense_Mutation_p.R1517M|GOLGB1_uc010hrd.1_Missense_Mutation_p.R1595M	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1631	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		ATGCTGAATCCTTTCTGCTTC	0.413													8	143	---	---	---	---	PASS	A	121414463	A	A	121414463	3	1	13	1	0	0	0	0	1	0	0	0	6565	681	24	3	4927	3	GOLGB1	3	121414463	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	72865	121414463	76607967	98	7442										
TMEM108	66000	broad.mit.edu	37	chr3	133098900	133098900	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tctgaaagctccctgtccacAgggcccgctccagcagccat	9	17	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:133098900A>G	uc003eph.2	+	4	619	c.345A>G	c.(343-345)ACA>ACG	p.T115T	TMEM108_uc003epi.2_Silent_p.T115T|TMEM108_uc003epj.1_Silent_p.T115T|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_Silent_p.T66T	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	115	Pro-rich.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						CCCTGTCCACAGGGCCCGCTC	0.667													8	40	---	---	---	---	PASS	G	133098900	G	G	133098900	2	3	13	1	0	0	0	0	0	0	0	1	16021	175	7	5		5	TMEM108	3	133098900	Silent	SNP	A	TCGA-18-3421-01A-01D-0983-08	11684437	133098900	64923530	99	7443										
PCCB	5096	broad.mit.edu	37	chr3	136012597	136012597	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tctggaaatcttttatttcaGgacacctcctacctgttcat	5	11	4	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:136012597G>T	uc003eqy.1	+	7	706	c.655_splice	c.e7-1	p.D219_splice	PCCB_uc003eqz.1_Splice_Site_p.D219_splice|PCCB_uc011bmc.1_Splice_Site_p.D239_splice|PCCB_uc011bmd.1_Splice_Site_p.D136_splice	NM_000532	NP_000523	P05166	PCCB_HUMAN	propionyl Coenzyme A carboxylase, beta						fatty acid beta-oxidation	mitochondrial matrix	ATP binding|propionyl-CoA carboxylase activity				0					Biotin(DB00121)|L-Valine(DB00161)	TTTTATTTCAGGACACCTCCT	0.493													7	213	---	---	---	---	PASS	T	136012597	T	T	136012597	5	4	13	1	0	0	0	0	0	0	1	0	11505	1014	35	3	744	3	PCCB	3	136012597	Splice_Site	SNP	G	TCGA-18-3421-01A-01D-0983-08	2913697	136012597	62009833	100	7444										
RBP2	5948	broad.mit.edu	37	chr3	139172003	139172003	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cacacctggtcaccacaggtCagctcctgcaacgtcagaaa	8	15	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:139172003C>A	uc003eth.2	-	4	411	c.360G>T	c.(358-360)CTG>CTT	p.L120L		NM_004164	NP_004155	P50120	RET2_HUMAN	retinol binding protein 2, cellular	120					epidermis development|retinoid metabolic process|steroid metabolic process|vitamin A metabolic process	cytosol	retinal binding|retinol binding|transporter activity			skin(1)	1					Vitamin A(DB00162)	CACCACAGGTCAGCTCCTGCA	0.582													10	60	---	---	---	---	PASS	A	139172003	A	A	139172003	2	1	13	1	0	0	0	0	0	0	0	1	13156	813	29	2		2	RBP2	3	139172003	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	3159406	139172003	58850427	101	7445										
TFDP2	7029	broad.mit.edu	37	chr3	141682763	141682763	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cgggccctggttttgctgctCattttgtcgatttctctgta	10	10	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:141682763C>A	uc003eun.3	-	10	1154	c.775G>T	c.(775-777)GAG>TAG	p.E259*	TFDP2_uc003euk.3_Nonsense_Mutation_p.E172*|TFDP2_uc010hur.2_Nonsense_Mutation_p.E199*|TFDP2_uc003eul.3_Nonsense_Mutation_p.E199*|TFDP2_uc011bnf.1_Nonsense_Mutation_p.E162*|TFDP2_uc011bng.1_Nonsense_Mutation_p.E123*|TFDP2_uc003eum.3_Nonsense_Mutation_p.E199*	NM_006286	NP_006277	Q14188	TFDP2_HUMAN	transcription factor Dp-2 (E2F dimerization	259	Dimerization (Potential).|DCB1.				cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1						TTTTGCTGCTCATTTTGTCGA	0.393													7	140	---	---	---	---	PASS	A	141682763	A	A	141682763	4	1	13	1	0	0	0	0	0	1	0	0	15795	835	29	2	581	2	TFDP2	3	141682763	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	2510760	141682763	56339667	102	7446										
TTC14	151613	broad.mit.edu	37	chr3	180322794	180322794	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctttaatgagaggcctacaaAggtatagtacatcagtatta	8	6	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:180322794A>T	uc003fkk.2	+	6	988	c.856A>T	c.(856-858)AGC>TGC	p.S286C	TTC14_uc003fkl.2_Missense_Mutation_p.S286C|TTC14_uc003fkm.2_Missense_Mutation_p.S286C	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	286							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AGGCCTACAAAGGTATAGTAC	0.413													10	22	---	---	---	---	PASS	T	180322794	T	T	180322794	3	4	13	1	0	0	0	0	1	0	0	0	16678	86	3	5	878	5	TTC14	3	180322794	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	38640031	180322794	17699636	103	7447										
ATP13A3	79572	broad.mit.edu	37	chr3	194168693	194168693	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtttaaaatcagttggtttgGgatacaatatggaacgaaca	10	4	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:194168693G>T	uc003fty.3	-	12	1598	c.1196C>A	c.(1195-1197)CCC>CAC	p.P399H	ATP13A3_uc003ftz.1_Missense_Mutation_p.P105H	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	399					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		AGTTGGTTTGGGATACAATAT	0.323													9	293	---	---	---	---	PASS	T	194168693	T	T	194168693	3	4	13	1	0	0	0	0	1	0	0	0	1125	1232	43	3	2568	3	ATP13A3	3	194168693	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	13845899	194168693	3853737	104	7448										
PIGZ	80235	broad.mit.edu	37	chr3	196675077	196675077	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggggaccacagcaaaggccaGaaaggtgggccggttgaaga	17	8	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr3:196675077G>C	uc003fxh.2	-	3	838	c.691C>G	c.(691-693)CTG>GTG	p.L231V		NM_025163	NP_079439	Q86VD9	PIGZ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	231	Helical; (Potential).				GPI anchor biosynthetic process	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			ovary(3)	3	all_cancers(143;1.05e-08)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.29e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00603)		GCAAAGGCCAGAAAGGTGGGC	0.657													26	18	---	---	---	---	PASS	C	196675077	C	C	196675077	3	2	13	1	0	0	0	0	1	0	0	0	11905	933	33	2	1052	2	PIGZ	3	196675077	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2506384	196675077	1347353	105	7449										
MFSD7	84179	broad.mit.edu	37	chr4	677144	677144	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cagggcaagggtctgtccctGcagctgggacacctgggagc	16	12	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:677144G>T	uc003gay.2	-	8	1066	c.1009C>A	c.(1009-1011)CAG>AAG	p.Q337K	MFSD7_uc003gaw.2_Missense_Mutation_p.Q79K|MFSD7_uc003gax.2_Missense_Mutation_p.Q336K|MFSD7_uc003gaz.2_Missense_Mutation_p.Q218K|MFSD7_uc003gba.2_Missense_Mutation_p.Q240K|MFSD7_uc003gbb.1_Missense_Mutation_p.Q272K	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	337	Helical; (Potential).				transmembrane transport	integral to membrane					0						GTCTGTCCCTGCAGCTGGGAC	0.667													9	19	---	---	---	---	PASS	T	677144	T	T	677144	3	4	13	1	0	0	0	0	1	0	0	0	9537	1328	46	3	685	3	MFSD7	4	677144	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08		677144	190477132	106	7450										
WHSC1	7468	broad.mit.edu	37	chr4	1936941	1936941	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	acagaagatgctgaagctgaGgacacacccaggaaaagact	11	9	0	5			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:1936941G>T	uc003gdz.3	+	7	1802	c.1626G>T	c.(1624-1626)GAG>GAT	p.E542D	WHSC1_uc003geb.3_Missense_Mutation_p.E542D|WHSC1_uc003gec.3_Missense_Mutation_p.E542D|WHSC1_uc003ged.3_Missense_Mutation_p.E542D|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gdy.1_Missense_Mutation_p.E542D|WHSC1_uc010icd.1_Missense_Mutation_p.E542D|WHSC1_uc003gea.1_Missense_Mutation_p.E542D|WHSC1_uc010ice.1_Missense_Mutation_p.E542D|WHSC1_uc003geh.1_Missense_Mutation_p.E542D	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	542					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		CTGAAGCTGAGGACACACCCA	0.458			T	IGH@	MM								6	77	---	---	---	---	PASS	T	1936941	T	T	1936941	3	4	13	1	0	0	0	0	1	0	0	0	17359	991	35	3	1648	3	WHSC1	4	1936941	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1259797	1936941	189217335	107	7451										
ZBTB49	166793	broad.mit.edu	37	chr4	4322746	4322746	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cctcatggagttagtgaccaGgagaagctgagtttggatcc	13	8	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:4322746G>T	uc003ghu.2	+	8	2176	c.2001G>T	c.(1999-2001)CAG>CAT	p.Q667H	uc003ghw.2_5'Flank|ZBTB49_uc003ghv.2_Missense_Mutation_p.Q150H|ZBTB49_uc010icy.2_RNA|ZBTB49_uc010icz.2_Missense_Mutation_p.Q245H	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	667					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TTAGTGACCAGGAGAAGCTGA	0.527													5	46	---	---	---	---	PASS	T	4322746	T	T	4322746	3	4	13	1	0	0	0	0	1	0	0	0	17547	991	35	3	2027	3	ZBTB49	4	4322746	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2385805	4322746	186831530	108	7452										
KIAA0232	9778	broad.mit.edu	37	chr4	6882641	6882641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gacaggctcagaaggcggagGcgagtgggtgggccctagtg	20	8	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:6882641G>T	uc003gjr.3	+	10	4599	c.4136G>T	c.(4135-4137)GGC>GTC	p.G1379V	KIAA0232_uc003gjq.3_Missense_Mutation_p.G1379V	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	1379							ATP binding			ovary(2)	2						GAAGGCGGAGGCGAGTGGGTG	0.488													8	55	---	---	---	---	PASS	T	6882641	T	T	6882641	3	4	13	1	0	0	0	0	1	0	0	0	8163	1203	42	3	4166	3	KIAA0232	4	6882641	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2559895	6882641	184271635	109	7453										
HTRA3	94031	broad.mit.edu	37	chr4	8271798	8271799	+	Frame_Shift_Del	DEL	CC	-	-													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gctgcgacgtgtcgcggtgtCccagcccccgctgccccggc							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:8271798_8271799delCC	uc003gla.2	+	1	307_308	c.103_104delCC	c.(103-105)CCCfs	p.P35fs	HTRA3_uc003gkz.2_Frame_Shift_Del_p.P35fs	NM_053044	NP_444272	P83110	HTRA3_HUMAN	HtrA serine peptidase 3 precursor	35	IGFBP N-terminal.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity			ovary(1)	1						GTCGCGGTGTCCCAGCCCCCGC	0.787													4	2	---	---	---	---		-	8271799	-	-	8271798	7	5	13	1	0	1	0	1	0	0	0	0	7455	855	30	0	105	0	HTRA3	4	8271798	Frame_Shift_Del	DEL	CC	TCGA-18-3421-01A-01D-0983-08	1389157	8271798	182882478	110	7454										
GRXCR1	389207	broad.mit.edu	37	chr4	42895358	42895358	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cggatcgcgtcctctcacagTgggcgagttctgaaggaagt	14	10	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:42895358T>C	uc003gwt.2	+	1	75	c.75T>C	c.(73-75)AGT>AGC	p.S25S		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	25					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						CCTCTCACAGTGGGCGAGTTC	0.512													33	40	---	---	---	---	PASS	C	42895358	C	C	42895358	2	2	13	1	0	0	0	0	0	0	0	1	6812	1693	59	5		5	GRXCR1	4	42895358	Silent	SNP	T	TCGA-18-3421-01A-01D-0983-08	34623560	42895358	148258918	111	7455										
SLAIN2	57606	broad.mit.edu	37	chr4	48422291	48422291	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccacctcctcacctgggcctCctatggttcagagcacagtc	8	17	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:48422291C>G	uc003gya.3	+	7	1654	c.1510C>G	c.(1510-1512)CCT>GCT	p.P504A		NM_020846	NP_065897	Q9P270	SLAI2_HUMAN	SLAIN motif family, member 2	504						centrosome					0						ACCTGGGCCTCCTATGGTTCA	0.507													29	117	---	---	---	---	PASS	G	48422291	G	G	48422291	3	3	13	1	0	0	0	0	1	0	0	0	14366	855	30	2	1536	2	SLAIN2	4	48422291	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	5526933	48422291	142731985	112	7456										
LPHN3	23284	broad.mit.edu	37	chr4	62598664	62598664	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgacttcattgctggaagacCaactacaacctacaagctcc	6	13	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:62598664C>A	uc010ihh.2	+	5	760	c.587C>A	c.(586-588)CCA>CAA	p.P196Q	LPHN3_uc003hcq.3_Missense_Mutation_p.P196Q|LPHN3_uc010ihg.1_Missense_Mutation_p.P264Q|LPHN3_uc003hcs.1_Missense_Mutation_p.P25Q	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	196	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GCTGGAAGACCAACTACAACC	0.458													11	22	---	---	---	---	PASS	A	62598664	A	A	62598664	3	1	13	1	0	0	0	0	1	0	0	0	8917	594	21	3	605	3	LPHN3	4	62598664	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	14176373	62598664	128555612	113	7457										
ANKRD17	26057	broad.mit.edu	37	chr4	74021826	74021826	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tttacacttcgcccttcaatGagtaactttcgcacagcatt	5	12	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:74021826G>T	uc003hgp.2	-	4	879	c.762C>A	c.(760-762)CTC>CTA	p.L254L	ANKRD17_uc003hgo.2_Silent_p.L141L|ANKRD17_uc003hgq.2_Silent_p.L254L|ANKRD17_uc003hgr.2_Silent_p.L254L|ANKRD17_uc011cbd.1_5'Flank	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	254	ANK 1.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GCCCTTCAATGAGTAACTTTC	0.418													4	18	---	---	---	---	PASS	T	74021826	T	T	74021826	2	4	13	1	0	0	0	0	0	0	0	1	646	1277	45	2		2	ANKRD17	4	74021826	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	11423162	74021826	117132450	114	7458										
RASGEF1B	153020	broad.mit.edu	37	chr4	82363503	82363503	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tggcccaagttttttttagtCgagagactgggctcatattc	10	8	1	1	rs151288385		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:82363503C>A	uc003hmi.1	-	9	1100	c.956G>T	c.(955-957)CGA>CTA	p.R319L	RASGEF1B_uc003hmj.1_Missense_Mutation_p.R318L|RASGEF1B_uc010ijq.1_Missense_Mutation_p.R277L	NM_152545	NP_689758	Q0VAM2	RGF1B_HUMAN	RasGEF domain family, member 1B	319	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						TTTTTTTAGTCGAGAGACTGG	0.368													4	30	---	---	---	---	PASS	A	82363503	A	A	82363503	3	1	13	1	0	0	0	0	1	0	0	0	13070	884	31	2	489	2	RASGEF1B	4	82363503	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	8341677	82363503	108790773	115	7459										
LEF1	51176	broad.mit.edu	37	chr4	109088716	109088716	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cagcggcccgctcacctcgtGtccgttgctggccgggatga	14	15	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:109088716G>C	uc003hyt.1	-	1	863	c.208C>G	c.(208-210)CAC>GAC	p.H70D	LEF1_uc011cfj.1_5'Flank|LEF1_uc011cfk.1_5'Flank|LEF1_uc003hyu.1_Missense_Mutation_p.H70D|LEF1_uc003hyv.1_Missense_Mutation_p.H70D|LEF1_uc010imb.1_RNA	NM_016269	NP_057353	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1 isoform 1	70					canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		CTCACCTCGTGTCCGTTGCTG	0.622													22	21	---	---	---	---	PASS	C	109088716	C	C	109088716	3	2	13	1	0	0	0	0	1	0	0	0	8714	1377	48	4	1132	4	LEF1	4	109088716	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	26725213	109088716	82065560	116	7460										
COL25A1	84570	broad.mit.edu	37	chr4	109765719	109765719	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	acctggtgggcctggtgggcCtatgatctgtatgtccaaaa	13	9	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:109765719C>A	uc003hze.1	-	29	2116	c.1585G>T	c.(1585-1587)GGC>TGC	p.G529C	COL25A1_uc003hzg.2_Missense_Mutation_p.G529C|COL25A1_uc003hzd.2_RNA|COL25A1_uc003hzf.2_Missense_Mutation_p.G287C	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	529	Extracellular (Potential).					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		cctggtgggcctATGATCTGT	0.279													23	21	---	---	---	---	PASS	A	109765719	A	A	109765719	3	1	13	1	0	0	0	0	1	0	0	0	3684	681	24	3	499	3	COL25A1	4	109765719	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	677003	109765719	81388557	117	7461										
KIAA1109	84162	broad.mit.edu	37	chr4	123161457	123161457	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cttgatctggatacaccaacCagtgaagaaagttcatcgtc	8	10	2	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:123161457C>A	uc003ieh.2	+	27	4665	c.4620C>A	c.(4618-4620)ACC>ACA	p.T1540T	KIAA1109_uc003iei.1_Silent_p.T1293T|KIAA1109_uc010ins.1_Silent_p.T883T|KIAA1109_uc003iek.2_Silent_p.T159T	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1540					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ATACACCAACCAGTGAAGAAA	0.363													5	66	---	---	---	---	PASS	A	123161457	A	A	123161457	2	1	13	1	0	0	0	0	0	0	0	1	8208	581	21	3		3	KIAA1109	4	123161457	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	13395738	123161457	67992819	118	7462										
SLC25A31	83447	broad.mit.edu	37	chr4	128688282	128688282	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	atgaaaatagcaaaatcagaTggaattgctggtttatacca	8	5	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:128688282T>A	uc003ifl.2	+	4	686	c.540T>A	c.(538-540)GAT>GAA	p.D180E		NM_031291	NP_112581	Q9H0C2	ADT4_HUMAN	solute carrier family 25 (mitochondrial carrier;	180	Helical; Name=4; (Potential).|Solcar 2.				transmembrane transport	cilium|flagellum|integral to membrane|mitochondrial inner membrane	binding|transporter activity				0						CAAAATCAGATGGAATTGCTG	0.368													20	44	---	---	---	---	PASS	A	128688282	A	A	128688282	3	1	13	1	0	0	0	0	1	0	0	0	14495	1461	51	5	554	5	SLC25A31	4	128688282	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	5526825	128688282	62465994	119	7463										
DCHS2	54798	broad.mit.edu	37	chr4	155156162	155156162	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgagttgaaagagctgcacaCcttacttcctgatcacctga	8	11	1	5			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:155156162C>T	uc003inw.2	-	25	8277	c.8277G>A	c.(8275-8277)AGG>AGA	p.R2759R		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2759					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GAGCTGCACACCTTACTTCCT	0.438													19	30	---	---	---	---	PASS	T	155156162	T	T	155156162	2	4	13	1	0	0	0	0	0	0	0	1	4288	506	18	3		3	DCHS2	4	155156162	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	26467880	155156162	35998114	120	7464										
DCHS2	54798	broad.mit.edu	37	chr4	155241661	155241661	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aaggagcccactgtgacatcCtctttgacatgggcattggg	12	10	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:155241661C>A	uc003inw.2	-	14	3525	c.3525G>T	c.(3523-3525)GAG>GAT	p.E1175D		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1175	Cadherin 10.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CTGTGACATCCTCTTTGACAT	0.458													5	52	---	---	---	---	PASS	A	155241661	A	A	155241661	3	1	13	1	0	0	0	0	1	0	0	0	4288	680	24	3	5273	3	DCHS2	4	155241661	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	85499	155241661	35912615	121	7465										
FGA	2243	broad.mit.edu	37	chr4	155510624	155510624	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcagaagggccagtctgaatCtttgcaggcagattgatgtc	13	8	2	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:155510624C>T	uc003iod.1	-	2	203	c.145G>A	c.(145-147)GAT>AAT	p.D49N	FGA_uc003ioe.1_Missense_Mutation_p.D49N|FGA_uc003iof.1_Missense_Mutation_p.D49N	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	49					platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	CAGTCTGAATCTTTGCAGGCA	0.527													35	41	---	---	---	---	PASS	T	155510624	T	T	155510624	3	4	13	1	0	0	0	0	1	0	0	0	5830	913	32	2	2519	2	FGA	4	155510624	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	268963	155510624	35643652	122	7466										
ETFDH	2110	broad.mit.edu	37	chr4	159627943	159627943	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aaccttaagggatgacagtaTacctgtaaatagaaatctgt	8	6	1	2	rs140184655		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:159627943T>C	uc003iqb.2	+	12	1963	c.1631T>C	c.(1630-1632)ATA>ACA	p.I544T	ETFDH_uc011cjg.1_Missense_Mutation_p.I497T|ETFDH_uc010iqr.2_Missense_Mutation_p.I141T|ETFDH_uc011cjh.1_Missense_Mutation_p.I483T|ETFDH_uc010iqs.2_Missense_Mutation_p.I466T	NM_004453	NP_004444	Q16134	ETFD_HUMAN	electron-transferring-flavoprotein dehydrogenase	544					fatty acid beta-oxidation using acyl-CoA dehydrogenase|respiratory electron transport chain|response to oxidative stress|transport	integral to mitochondrial inner membrane|mitochondrial matrix	4 iron, 4 sulfur cluster binding|electron carrier activity|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity, oxidizing metal ions with flavin as acceptor|ubiquinone binding			large_intestine(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0172)		GATGACAGTATACCTGTAAAT	0.413													32	51	---	---	---	---	PASS	C	159627943	C	C	159627943	3	2	13	1	0	0	0	0	1	0	0	0	5271	1406	49	5	1677	5	ETFDH	4	159627943	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	4117319	159627943	31526333	123	7467										
GALNTL6	442117	broad.mit.edu	37	chr4	173232904	173232904	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccagatattcgtcatgctaaGtgagtatcagcatatcagtg	9	8	3	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:173232904G>A	uc003isv.2	+	4	1122	c.386_splice	c.e4+1	p.N129_splice		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6							Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						GTCATGCTAAGTGAGTATCAG	0.363													15	56	---	---	---	---	PASS	A	173232904	A	A	173232904	5	1	13	1	0	0	0	0	0	0	1	0	6225	1043	36	3	397	3	GALNTL6	4	173232904	Splice_Site	SNP	G	TCGA-18-3421-01A-01D-0983-08	13604961	173232904	17921372	124	7468										
SORBS2	8470	broad.mit.edu	37	chr4	186578704	186578704	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agggggatagagctgctggtGgtgccatccagagactgcgc	17	9	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr4:186578704G>T	uc003iyl.2	-	6	999	c.141C>A	c.(139-141)ACC>ACA	p.T47T	SORBS2_uc003iyh.2_Silent_p.T226T|SORBS2_uc011ckw.1_Silent_p.T116T|SORBS2_uc003iyi.2_Silent_p.T133T|SORBS2_uc011ckx.1_Silent_p.T93T|SORBS2_uc003iyk.2_Silent_p.T133T|SORBS2_uc003iym.2_Silent_p.T147T|SORBS2_uc003iyn.1_Silent_p.T93T|SORBS2_uc011cky.1_Silent_p.T110T|SORBS2_uc003iyp.2_Silent_p.T147T|SORBS2_uc011cku.1_5'Flank|SORBS2_uc011ckv.1_5'Flank|SORBS2_uc003iyd.2_Silent_p.T226T|SORBS2_uc003iye.2_Silent_p.T47T|SORBS2_uc003iya.2_Silent_p.T47T|SORBS2_uc003iyb.2_Silent_p.T47T|SORBS2_uc003iyc.2_Silent_p.T47T|SORBS2_uc003iyg.2_Silent_p.T133T|SORBS2_uc003iyf.2_Silent_p.T110T|SORBS2_uc003iyo.1_5'Flank	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	47						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		AGCTGCTGGTGGTGCCATCCA	0.512													5	37	---	---	---	---	PASS	T	186578704	T	T	186578704	2	4	13	1	0	0	0	0	0	0	0	1	14928	1335	47	3		3	SORBS2	4	186578704	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	13345800	186578704	4575572	125	7469										
FAM105B	90268	broad.mit.edu	37	chr5	14690237	14690237	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaggcggaggaatatagcctCtatgaagctgtaaaatttct	11	6	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:14690237C>T	uc003jfk.2	+	6	836	c.684C>T	c.(682-684)CTC>CTT	p.L228L		NM_138348	NP_612357	Q96BN8	F105B_HUMAN	hypothetical protein LOC90268	228										ovary(2)	2	Lung NSC(4;0.00696)					AATATAGCCTCTATGAAGCTG	0.383													8	69	---	---	---	---	PASS	T	14690237	T	T	14690237	2	4	13	1	0	0	0	0	0	0	0	1	5388	900	32	2		2	FAM105B	5	14690237	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08		14690237	166225023	126	7470										
CDH10	1008	broad.mit.edu	37	chr5	24492992	24492992	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaaaaaaaatttctgtccacCtaaagggtcatctttgtcta	6	8	4	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:24492992C>T	uc003jgr.1	-	10	1890	c.1558G>A	c.(1558-1560)GGT>AGT	p.G520S	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	520	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TTCTGTCCACCTAAAGGGTCA	0.328										HNSCC(23;0.051)			19	88	---	---	---	---	PASS	T	24492992	T	T	24492992	3	4	13	1	0	0	0	0	1	0	0	0	3096	681	24	3	820	3	CDH10	5	24492992	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	9802755	24492992	156422268	127	7471										
RNASEN	29102	broad.mit.edu	37	chr5	31526339	31526339	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctcgcccatgactgtgatctCggtgcctgtggtcatcatag	11	12	3	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:31526339C>A	uc003jhg.2	-	4	1060	c.701G>T	c.(700-702)CGA>CTA	p.R234L	RNASEN_uc003jhh.2_Missense_Mutation_p.R234L|RNASEN_uc003jhi.2_Missense_Mutation_p.R234L|RNASEN_uc010iui.1_Missense_Mutation_p.R225L	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	234	Arg-rich.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						ACTGTGATCTCGGTGCCTGTG	0.577													4	68	---	---	---	---	PASS	A	31526339	A	A	31526339	3	1	13	1	0	0	0	0	1	0	0	0	13417	884	31	2	3551	2	RNASEN	5	31526339	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	7033347	31526339	149388921	128	7472										
UGT3A2	167127	broad.mit.edu	37	chr5	36035916	36035916	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cagaaacacaaaaacgtcgaGcaggtactgctcatgccagg	10	11	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:36035916G>T	uc003jjz.1	-	7	1549	c.1456C>A	c.(1456-1458)CTC>ATC	p.L486I	UGT3A2_uc011cos.1_Missense_Mutation_p.L452I|UGT3A2_uc011cot.1_Missense_Mutation_p.L184I	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	486	Helical; (Potential).			L -> F (in Ref. 1; AAQ88782).		integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AAAACGTCGAGCAGGTACTGC	0.607													8	47	---	---	---	---	PASS	T	36035916	T	T	36035916	3	4	13	1	0	0	0	0	1	0	0	0	16961	971	34	3	119	3	UGT3A2	5	36035916	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	4509577	36035916	144879344	129	7473										
FYB	2533	broad.mit.edu	37	chr5	39202153	39202153	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aggaggagtccctgaggccaActcttcctgatttattttgc	10	10	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:39202153A>T	uc003jls.2	-	1	977	c.910T>A	c.(910-912)TTG>ATG	p.L304M	FYB_uc003jlt.2_Missense_Mutation_p.L304M|FYB_uc003jlu.2_Missense_Mutation_p.L304M|FYB_uc011cpl.1_Missense_Mutation_p.L314M	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	304					cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			CCTGAGGCCAACTCTTCCTGA	0.507													10	69	---	---	---	---	PASS	T	39202153	T	T	39202153	3	4	13	1	0	0	0	0	1	0	0	0	6124	40	2	5	1651	5	FYB	5	39202153	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	3166237	39202153	141713107	130	7474										
HCN1	348980	broad.mit.edu	37	chr5	45262236	45262236	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aggcccgttccggggaccgcCgtcacgggttgagggatgga	18	11	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:45262236C>G	uc003jok.2	-	8	2485	c.2460G>C	c.(2458-2460)ACG>ACC	p.T820T		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	820	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CGGGGACCGCCGTCACGGGTT	0.682													9	17	---	---	---	---	PASS	G	45262236	G	G	45262236	2	3	13	1	0	0	0	0	0	0	0	1	6996	639	23	4		4	HCN1	5	45262236	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	6060083	45262236	135653024	131	7475										
PARP8	79668	broad.mit.edu	37	chr5	50090868	50090868	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gctccttgtccagcgatcccAgggcggagcaggctatgaca	13	13	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:50090868A>T	uc003jon.3	+	13	1227	c.1045A>T	c.(1045-1047)AGG>TGG	p.R349W	PARP8_uc011cpz.1_Missense_Mutation_p.R241W|PARP8_uc003joo.2_Missense_Mutation_p.R349W|PARP8_uc003jop.2_Missense_Mutation_p.R349W	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	349						intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				CAGCGATCCCAGGGCGGAGCA	0.512													25	57	---	---	---	---	PASS	T	50090868	T	T	50090868	3	4	13	1	0	0	0	0	1	0	0	0	11465	179	7	5	1091	5	PARP8	5	50090868	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	4828632	50090868	130824392	132	7476										
ITGA1	3672	broad.mit.edu	37	chr5	52223413	52223413	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctgtttgctttctcttcctaGgctatccaaaaagacagttg	7	10	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:52223413G>A	uc003jou.2	+	20	2666	c.2614_splice	c.e20-1	p.A872_splice	ITGA1_uc003jov.2_Splice_Site|ITGA1_uc003jow.2_Splice_Site_p.A403_splice	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor						axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				TCTCTTCCTAGGCTATCCAAA	0.398													7	41	---	---	---	---	PASS	A	52223413	A	A	52223413	5	1	13	1	0	0	0	0	0	0	1	0	7872	1014	35	3	2691	3	ITGA1	5	52223413	Splice_Site	SNP	G	TCGA-18-3421-01A-01D-0983-08	2132545	52223413	128691847	133	7477										
GZMA	3001	broad.mit.edu	37	chr5	54404139	54404139	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	acagaaaagtctgcaatgatCgaaatcactataattttaac	5	7	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:54404139C>T	uc003jpm.2	+	4	581	c.544C>T	c.(544-546)CGA>TGA	p.R182*		NM_006144	NP_006135	P12544	GRAA_HUMAN	granzyme A precursor	182	Peptidase S1.				cleavage of lamin|cytolysis|immune response|negative regulation of DNA binding|negative regulation of endodeoxyribonuclease activity|negative regulation of oxidoreductase activity|positive regulation of apoptosis	extracellular region|immunological synapse|nucleus	protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				CTGCAATGATCGAAATCACTA	0.428													5	41	---	---	---	---	PASS	T	54404139	T	T	54404139	4	4	13	1	0	0	0	0	0	1	0	0	6915	876	31	2	558	2	GZMA	5	54404139	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	2180726	54404139	126511121	134	7478										
ANKRD55	79722	broad.mit.edu	37	chr5	55422770	55422770	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgtcatccacatccagagccTgcaggttacactcagggact	9	13	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:55422770T>C	uc003jqu.2	-	8	928	c.776A>G	c.(775-777)CAG>CGG	p.Q259R		NM_024669	NP_078945	Q3KP44	ANR55_HUMAN	ankyrin repeat domain 55 isoform 1	258	ANK 7.									skin(1)	1		Lung NSC(810;8.69e-05)|Prostate(74;0.00634)|Breast(144;0.0334)|Ovarian(174;0.223)				ATCCAGAGCCTGCAGGTTACA	0.458													15	124	---	---	---	---	PASS	C	55422770	C	C	55422770	3	2	13	1	0	0	0	0	1	0	0	0	681	1580	55	5	1088	5	ANKRD55	5	55422770	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	1018631	55422770	125492490	135	7479										
TMEM174	134288	broad.mit.edu	37	chr5	72469360	72469360	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtgcaagttcaaaatgctctCctgccagttgtgcaaagaaa	9	9	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:72469360C>T	uc010izc.2	+	1	338	c.290C>T	c.(289-291)TCC>TTC	p.S97F		NM_153217	NP_694949	Q8WUU8	TM174_HUMAN	transmembrane protein 174	97						integral to membrane				ovary(1)	1		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.46e-54)		AAAATGCTCTCCTGCCAGTTG	0.527													22	34	---	---	---	---	PASS	T	72469360	T	T	72469360	3	4	13	1	0	0	0	0	1	0	0	0	16087	855	30	2	292	2	TMEM174	5	72469360	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	17046590	72469360	108445900	136	7480										
SV2C	22987	broad.mit.edu	37	chr5	75594662	75594662	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctgtaactttcaaagactctGtttttaagtcctgcaccttt	5	10	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:75594662G>C	uc003kei.1	+	10	1680	c.1546G>C	c.(1546-1548)GTT>CTT	p.V516L		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	516	Extracellular (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		CAAAGACTCTGTTTTTAAGTC	0.383													11	23	---	---	---	---	PASS	C	75594662	C	C	75594662	3	2	13	1	0	0	0	0	1	0	0	0	15416	1377	48	4	1580	4	SV2C	5	75594662	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	3125302	75594662	105320598	137	7481										
FAM170A	340069	broad.mit.edu	37	chr5	118970254	118970254	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tggctcagctgacaggcaacAtggaatcagagagcacccaa	11	11	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:118970254A>G	uc003ksm.2	+	3	1021	c.811A>G	c.(811-813)ATG>GTG	p.M271V	FAM170A_uc003ksl.2_Intron|FAM170A_uc003ksn.2_Missense_Mutation_p.M271V|FAM170A_uc003kso.2_Missense_Mutation_p.M224V	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	271						intracellular	zinc ion binding			skin(1)	1						GACAGGCAACATGGAATCAGA	0.353													87	67	---	---	---	---	PASS	G	118970254	G	G	118970254	3	3	13	1	0	0	0	0	1	0	0	0	5489	217	8	5	821	5	FAM170A	5	118970254	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	43375592	118970254	61945006	138	7482										
SNCAIP	9627	broad.mit.edu	37	chr5	121761083	121761083	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	acaatctagacaaaattcacGacgaaaatggaaacaatcta	5	8	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:121761083G>C	uc003ksw.1	+	5	1245	c.1039G>C	c.(1039-1041)GAC>CAC	p.D347H	SNCAIP_uc011cwl.1_Intron|SNCAIP_uc010jct.2_Missense_Mutation_p.D347H|SNCAIP_uc003ksx.1_Missense_Mutation_p.D394H|SNCAIP_uc003ksy.1_Intron|SNCAIP_uc003ksz.1_Intron|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Intron|SNCAIP_uc003kta.1_Intron|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.D41H|SNCAIP_uc010jcx.1_Intron	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	347					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		CAAAATTCACGACGAAAATGG	0.423													4	107	---	---	---	---	PASS	C	121761083	C	C	121761083	3	2	13	1	0	0	0	0	1	0	0	0	14841	1058	37	2	1053	2	SNCAIP	5	121761083	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2790829	121761083	59154177	139	7483										
WNT8A	7478	broad.mit.edu	37	chr5	137424656	137424656	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggaggctgcagcgacaatgtGgaatttggggaaaggatctc	16	6	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:137424656G>T	uc003lcd.1	+	5	413	c.408G>T	c.(406-408)GTG>GTT	p.V136V	BRD8_uc003lcc.1_Intron|WNT8A_uc011cyj.1_Silent_p.V154V|WNT8A_uc011cyk.1_Silent_p.V154V	NM_058244	NP_490645	Q9H1J5	WNT8A_HUMAN	wingless-type MMTV integration site family,	136					brain segmentation|canonical Wnt receptor signaling pathway involved in neural crest cell differentiation|cell migration involved in gastrulation|dorsal/ventral pattern formation|ectoderm development|endoderm development|eye development|hindbrain development|mesodermal cell fate commitment|negative regulation of Wnt receptor signaling pathway|neural crest cell fate commitment|neural plate pattern specification|notochord development|palate development|polarity specification of anterior/posterior axis|polarity specification of proximal/distal axis|positive regulation of fibroblast growth factor receptor signaling pathway|regulation of transcription involved in anterior/posterior axis specification|response to retinoic acid|somitogenesis|spinal cord anterior/posterior patterning|tail morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			ovary(1)|lung(1)|breast(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GCGACAATGTGGAATTTGGGG	0.532													6	95	---	---	---	---	PASS	T	137424656	T	T	137424656	2	4	13	1	0	0	0	0	0	0	0	1	17393	1335	47	3		3	WNT8A	5	137424656	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	15663573	137424656	43490604	140	7484										
REEP2	51308	broad.mit.edu	37	chr5	137781195	137781195	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtctaaggtccagcacaaacCcggcagattcccggacagag	11	13	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:137781195C>T	uc003lcz.2	+	7	720	c.598C>T	c.(598-600)CCG>TCG	p.P200S	REEP2_uc003lda.2_Missense_Mutation_p.P202S|REEP2_uc011cyt.1_Missense_Mutation_p.P161S	NM_016606	NP_057690	Q9BRK0	REEP2_HUMAN	receptor accessory protein 2	200						integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CAGCACAAACCCGGCAGATTC	0.577													25	29	---	---	---	---	PASS	T	137781195	T	T	137781195	3	4	13	1	0	0	0	0	1	0	0	0	13205	623	22	3	624	3	REEP2	5	137781195	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	356539	137781195	43134065	141	7485										
ZMAT2	153527	broad.mit.edu	37	chr5	140083567	140083567	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	actttctggatcacattaatGgaaagaaacgtaaggcttgg	10	6	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:140083567G>C	uc003lgy.1	+	4	315	c.301G>C	c.(301-303)GGA>CGA	p.G101R		NM_144723	NP_653324	Q96NC0	ZMAT2_HUMAN	zinc finger, matrin type 2	101	Matrin-type.					nucleus	DNA binding|zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCACATTAATGGAAAGAAACG	0.423													17	80	---	---	---	---	PASS	C	140083567	C	C	140083567	3	2	13	1	0	0	0	0	1	0	0	0	17689	1349	47	4	315	4	ZMAT2	5	140083567	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2302372	140083567	40831693	142	7486										
PCDHA10	56139	broad.mit.edu	37	chr5	140236732	140236732	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aagatgctcaagtgggcaccGtcattgccctaatcagcgtt	10	11	3	1	rs145115378	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:140236732G>A	uc003lhx.2	+	1	1099	c.1099G>A	c.(1099-1101)GTC>ATC	p.V367I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Missense_Mutation_p.V367I|PCDHA10_uc011dad.1_Missense_Mutation_p.V367I	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	367	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTGGGCACCGTCATTGCCCT	0.507													27	83	---	---	---	---	PASS	A	140236732	A	A	140236732	3	1	13	1	0	0	0	0	1	0	0	0	11520	1145	40	1	1101	1	PCDHA10	5	140236732	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	153165	140236732	40678528	143	7487										
PCDHA13	56136	broad.mit.edu	37	chr5	140263468	140263468	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agttccaggtgagcgcgcgcGactctggcgtgccgcctctg	15	14	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:140263468G>T	uc003lif.2	+	1	1615	c.1615G>T	c.(1615-1617)GAC>TAC	p.D539Y	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.D539Y|PCDHA13_uc003lid.2_Missense_Mutation_p.D539Y	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	539	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGCGCGCGCGACTCTGGCGT	0.682													5	96	---	---	---	---	PASS	T	140263468	T	T	140263468	3	4	13	1	0	0	0	0	1	0	0	0	11523	1058	37	2	1617	2	PCDHA13	5	140263468	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	26736	140263468	40651792	144	7488										
PCDHB7	56129	broad.mit.edu	37	chr5	140554148	140554148	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cctgcaccgagccgttgcccCgggcggccgagccgggctac	15	18	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:140554148C>A	uc003lit.2	+	1	1906	c.1732C>A	c.(1732-1734)CGG>AGG	p.R578R		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	578	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCGTTGCCCCGGGCGGCCGA	0.706													25	14	---	---	---	---	PASS	A	140554148	A	A	140554148	2	1	13	1	0	0	0	0	0	0	0	1	11547	643	23	1		1	PCDHB7	5	140554148	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	290680	140554148	40361112	145	7489										
PCDHGA7	56108	broad.mit.edu	37	chr5	140762746	140762746	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cgggcaggatagaccgggaaGagatctgcgctcagagtgcg	17	9	2	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:140762746G>C	uc003lka.1	+	1	280	c.280G>C	c.(280-282)GAG>CAG	p.E94Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.E94Q	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	94	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGACCGGGAAGAGATCTGCGC	0.512													54	37	---	---	---	---	PASS	C	140762746	C	C	140762746	3	2	13	1	0	0	0	0	1	0	0	0	11559	943	33	2	282	2	PCDHGA7	5	140762746	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	208598	140762746	40152514	146	7490										
PCDHGB5	56101	broad.mit.edu	37	chr5	140779539	140779539	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gagcccgggctcttcagcctGgggctgcgcacaggagaggt	17	12	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:140779539G>T	uc003lkf.1	+	1	1845	c.1845G>T	c.(1843-1845)CTG>CTT	p.L615L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Silent_p.L615L|PCDHGA9_uc011dax.1_5'Flank|PCDHGA9_uc003lkh.1_5'Flank	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	615	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTTCAGCCTGGGGCTGCGCA	0.687													26	13	---	---	---	---	PASS	T	140779539	T	T	140779539	2	4	13	1	0	0	0	0	0	0	0	1	11566	1335	47	3		3	PCDHGB5	5	140779539	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	16793	140779539	40135721	147	7491										
PCDH1	5097	broad.mit.edu	37	chr5	141243098	141243098	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgaacttgagggacttctgcAgcccggcctcatcctcgtcc	10	15	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:141243098A>T	uc003llq.2	-	3	2915	c.2798T>A	c.(2797-2799)CTG>CAG	p.L933Q	PCDH1_uc003llp.2_Missense_Mutation_p.L933Q|PCDH1_uc011dbf.1_Missense_Mutation_p.L911Q	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	933	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		GGACTTCTGCAGCCCGGCCTC	0.612													12	11	---	---	---	---	PASS	T	141243098	T	T	141243098	3	4	13	1	0	0	0	0	1	0	0	0	11506	188	7	5	1011	5	PCDH1	5	141243098	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	463559	141243098	39672162	148	7492										
SLC6A7	6534	broad.mit.edu	37	chr5	149583559	149583559	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcggtgttctcagggctcatCtgcgtggccatgtacctgat	13	11	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:149583559C>G	uc003lrr.2	+	10	1661	c.1290C>G	c.(1288-1290)ATC>ATG	p.I430M		NM_014228	NP_055043	Q99884	SC6A7_HUMAN	solute carrier family 6, member 7	430	Helical; Name=9; (Potential).					integral to plasma membrane|membrane fraction	neurotransmitter:sodium symporter activity|proline:sodium symporter activity				0		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Proline(DB00172)	CAGGGCTCATCTGCGTGGCCA	0.577													6	11	---	---	---	---	PASS	G	149583559	G	G	149583559	3	3	13	1	0	0	0	0	1	0	0	0	14689	903	32	2	1328	2	SLC6A7	5	149583559	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	8340461	149583559	31331701	149	7493										
KIF4B	285643	broad.mit.edu	37	chr5	154396080	154396080	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtcaccaaacttgaaaacagCctgagacagagcaaggccag	10	11	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:154396080C>A	uc010jih.1	+	1	2821	c.2661C>A	c.(2659-2661)AGC>AGA	p.S887R		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	887	Interaction with PRC1 (By similarity).|Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TTGAAAACAGCCTGAGACAGA	0.448													55	37	---	---	---	---	PASS	A	154396080	A	A	154396080	3	1	13	1	0	0	0	0	1	0	0	0	8304	738	26	3	2663	3	KIF4B	5	154396080	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4812521	154396080	26519180	150	7494										
ATP10B	23120	broad.mit.edu	37	chr5	160097524	160097524	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttgaggtttgtctctccatcCaagctggcagtttccagatg	10	10	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:160097524C>G	uc003lym.1	-	7	1468	c.621G>C	c.(619-621)TTG>TTC	p.L207F	ATP10B_uc003lyp.2_Missense_Mutation_p.L207F|ATP10B_uc011deg.1_Missense_Mutation_p.L251F|ATP10B_uc003lyo.2_Missense_Mutation_p.L179F	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	207	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCTCTCCATCCAAGCTGGCAG	0.443													45	59	---	---	---	---	PASS	G	160097524	G	G	160097524	3	3	13	1	0	0	0	0	1	0	0	0	1117	593	21	4	3844	4	ATP10B	5	160097524	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	5701444	160097524	20817736	151	7495										
MAPK9	5601	broad.mit.edu	37	chr5	179668078	179668078	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aacagtgatgtatgggtgacGcagagcttcgtctacagaga	13	7	1	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:179668078G>A	uc003mls.3	-	9	1220	c.949C>T	c.(949-951)CGT>TGT	p.R317C	MAPK9_uc003mlt.3_Missense_Mutation_p.R317C|MAPK9_uc010jlc.2_Missense_Mutation_p.R317C|MAPK9_uc003mlv.3_Missense_Mutation_p.R317C	NM_002752	NP_002743	P45984	MK09_HUMAN	mitogen-activated protein kinase 9 isoform JNK2	317	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|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|nucleoplasm	ATP binding|JUN kinase activity|protein binding|protein binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)	4	all_cancers(89;6.54e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0236)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TATGGGTGACGCAGAGCTTCG	0.423													82	89	---	---	---	---	PASS	A	179668078	A	A	179668078	3	1	13	1	0	0	0	0	1	0	0	0	9287	1087	38	1	346	1	MAPK9	5	179668078	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	19570554	179668078	1247182	152	7496										
GFPT2	9945	broad.mit.edu	37	chr5	179745898	179745898	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggagagtttcccatcagccaCtgcggcgatgtcatcgtcct	11	13	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr5:179745898C>G	uc003mlw.1	-	10	951	c.853G>C	c.(853-855)GTG>CTG	p.V285L		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	285	Glutamine amidotransferase type-2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	CCATCAGCCACTGCGGCGATG	0.572													3	22	---	---	---	---	PASS	G	179745898	G	G	179745898	3	3	13	1	0	0	0	0	1	0	0	0	6346	565	20	4	1235	4	GFPT2	5	179745898	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	77820	179745898	1169362	153	7497										
EXOC2	55770	broad.mit.edu	37	chr6	486758	486758	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aacttgttcaggagctcttcCagtaacctgcaggacggaga	11	10	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:486758C>A	uc003mtd.2	-	28	2822	c.2688G>T	c.(2686-2688)CTG>CTT	p.L896L	EXOC2_uc003mte.2_Silent_p.L896L|EXOC2_uc011dho.1_Silent_p.L491L	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	896					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		GGAGCTCTTCCAGTAACCTGC	0.517													5	59	---	---	---	---	PASS	A	486758	A	A	486758	2	1	13	1	0	0	0	0	0	0	0	1	5302	581	21	3		3	EXOC2	6	486758	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08		486758	170628309	154	7498										
HIST1H4E	8367	broad.mit.edu	37	chr6	26205085	26205085	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aacgtgattcgtgatgctgtGacttacacggagcacgccaa	11	10	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:26205085G>A	uc003ngy.2	+	1	213	c.213G>A	c.(211-213)GTG>GTA	p.V71V		NM_003545	NP_003536	P62805	H4_HUMAN	histone cluster 1, H4e	71				V -> A (in Ref. 14; AAH67496).	CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1		all_hematologic(11;0.196)				GTGATGCTGTGACTTACACGG	0.552													12	59	---	---	---	---	PASS	A	26205085	A	A	26205085	2	1	13	1	0	0	0	0	0	0	0	1	7169	1277	45	2		2	HIST1H4E	6	26205085	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	25718327	26205085	144909982	155	7499										
C6orf15	29113	broad.mit.edu	37	chr6	31079766	31079766	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cgcttcccccaggcggtcctCagccgcagcagccatcatct	9	19	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:31079766C>A	uc003nsk.1	-	2	370	c.370G>T	c.(370-372)GAG>TAG	p.E124*	PSORS1C1_uc003nsl.1_5'Flank|PSORS1C1_uc010jsj.1_5'Flank	NM_014070	NP_054789	Q6UXA7	CF015_HUMAN	STG protein precursor	124											0						AGGCGGTCCTCAGCCGCAGCA	0.652													6	23	---	---	---	---	PASS	A	31079766	A	A	31079766	4	1	13	1	0	0	0	0	0	1	0	0	2336	835	29	2	611	2	C6orf15	6	31079766	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4874681	31079766	140035301	156	7500										
BAT2	7916	broad.mit.edu	37	chr6	31599382	31599382	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agggggatgaaacccccaaaCccccaaagccagacccactc	8	17	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:31599382C>A	uc003nvb.3	+	16	3181	c.2932C>A	c.(2932-2934)CCC>ACC	p.P978T	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.P978T	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	978	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						AACCCCCAAACCCCCAAAGCC	0.597													3	18	---	---	---	---	PASS	A	31599382	A	A	31599382	3	1	13	1	0	0	0	0	1	0	0	0	1319	507	18	3	2990	3	BAT2	6	31599382	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	519616	31599382	139515685	157	7501										
DNAH8	1769	broad.mit.edu	37	chr6	38854588	38854588	+	Missense_Mutation	SNP	C	A	A													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	taactaatgagattgtgcgaCagatgatggaaatggaagga							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:38854588C>A	uc003ooe.1	+	55	8230	c.7630C>A	c.(7630-7632)CAG>AAG	p.Q2544K		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GATTGTGCGACAGATGATGGA	0.378													11	57	---	---	---	---	PASS	A	38854588	A	A	38854588	3	1	13	1	0	0	0	0	1	0	0	0	4607	479	17	3	7840	3	DNAH8	6	38854588	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	7255206	38854588	132260479	158	7502	232	2								
DNAH8	1769	broad.mit.edu	37	chr6	38854589	38854589	+	Missense_Mutation	SNP	A	G	G													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aactaatgagattgtgcgacAgatgatggaaatggaaggaa							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:38854589A>G	uc003ooe.1	+	55	8231	c.7631A>G	c.(7630-7632)CAG>CGG	p.Q2544R		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ATTGTGCGACAGATGATGGAA	0.378													11	57	---	---	---	---	PASS	G	38854589	G	G	38854589	3	3	13	1	0	0	0	0	1	0	0	0	4607	188	7	5	7841	5	DNAH8	6	38854589	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	1	38854589	132260478	159	7503	232	2								
GPR111	222611	broad.mit.edu	37	chr6	47649184	47649184	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttcatactatgggcaccaccAtatctggagataacattgga	8	9	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:47649184A>G	uc010jzj.1	+	6	890	c.889A>G	c.(889-891)ATA>GTA	p.I297V	GPR111_uc010jzk.1_Missense_Mutation_p.I229V|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	297	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						GGGCACCACCATATCTGGAGA	0.373													29	65	---	---	---	---	PASS	G	47649184	G	G	47649184	3	3	13	1	0	0	0	0	1	0	0	0	6628	217	8	5	703	5	GPR111	6	47649184	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	8794595	47649184	123465883	160	7504										
C6orf138	442213	broad.mit.edu	37	chr6	47847514	47847514	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctctatgtttgtgaatgggcTggcacccatgccaaaagtga	11	9	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:47847514T>A	uc011dwm.1	-	3	1100	c.1015A>T	c.(1015-1017)AGC>TGC	p.S339C	C6orf138_uc011dwn.1_Missense_Mutation_p.S103C	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	356	Helical; (Potential).|SSD.					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						GTGAATGGGCTGGCACCCATG	0.453													12	32	---	---	---	---	PASS	A	47847514	A	A	47847514	3	1	13	1	0	0	0	0	1	0	0	0	2332	1580	55	5	1478	5	C6orf138	6	47847514	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	198330	47847514	123267553	161	7505										
PKHD1	5314	broad.mit.edu	37	chr6	51612743	51612743	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tatctgttgatgtcaagttgGctgagtgcggcttcactttg	12	7	3	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:51612743G>T	uc003pah.1	-	58	9947	c.9671C>A	c.(9670-9672)GCC>GAC	p.A3224D	PKHD1_uc010jzn.1_Missense_Mutation_p.A1207D|PKHD1_uc003pai.2_Missense_Mutation_p.A3224D	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3224	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TGTCAAGTTGGCTGAGTGCGG	0.468													27	67	---	---	---	---	PASS	T	51612743	T	T	51612743	3	4	13	1	0	0	0	0	1	0	0	0	11971	1203	42	3	2632	3	PKHD1	6	51612743	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	3765229	51612743	119502324	162	7506										
BAI3	577	broad.mit.edu	37	chr6	70065752	70065752	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tagacattgcctgtcgatcaGgtaagaatatttagattttg	9	5	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:70065752G>C	uc003pev.3	+	28	4043	c.3595G>C	c.(3595-3597)GTT>CTT	p.V1199L	BAI3_uc010kak.2_Missense_Mutation_p.V1199L|BAI3_uc011dxx.1_Missense_Mutation_p.V405L	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1199	Cytoplasmic (Potential).				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)				CTGTCGATCAGGTAAGAATAT	0.289													11	32	---	---	---	---	PASS	C	70065752	C	C	70065752	3	2	13	1	0	0	0	0	1	0	0	0	1300	1014	35	4	3697	4	BAI3	6	70065752	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	18453009	70065752	101049315	163	7507										
TBX18	9096	broad.mit.edu	37	chr6	85446511	85446511	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctaagcaggtgcactccttcCacagggggcaacatctgccg	11	14	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:85446511C>A	uc003pkl.1	-	8	1716	c.1716G>T	c.(1714-1716)GTG>GTT	p.V572V	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	572					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		GCACTCCTTCCACAGGGGGCA	0.512													4	25	---	---	---	---	PASS	A	85446511	A	A	85446511	2	1	13	1	0	0	0	0	0	0	0	1	15650	581	21	3		3	TBX18	6	85446511	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	15380759	85446511	85668556	164	7508										
SYNCRIP	10492	broad.mit.edu	37	chr6	86324913	86324913	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	atggatcttcatatccaccaCgatagttatggtaatcataa	6	8	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:86324913C>T	uc003pla.2	-	11	1974	c.1433G>A	c.(1432-1434)CGT>CAT	p.R478H	SYNCRIP_uc003pku.2_Missense_Mutation_p.R478H|SYNCRIP_uc003pkw.2_Missense_Mutation_p.R443H|SYNCRIP_uc003pky.2_Missense_Mutation_p.R380H|SYNCRIP_uc003pkv.2_Missense_Mutation_p.R478H|SYNCRIP_uc003pkx.2_Missense_Mutation_p.R326H|SYNCRIP_uc003pkz.2_Missense_Mutation_p.R443H	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	478	Interaction with APOBEC1.|3 X 4 AA repeats of Y-Y-G-Y.|8 X 3 AA repeats of R-G-G.|1-3.				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		ATATCCACCACGATAGTTATG	0.428													8	17	---	---	---	---	PASS	T	86324913	T	T	86324913	3	4	13	1	0	0	0	0	1	0	0	0	15441	536	19	1	488	1	SYNCRIP	6	86324913	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	878402	86324913	84790154	165	7509										
KLHL32	114792	broad.mit.edu	37	chr6	97533046	97533046	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gatctgtacagacttgctgaCctctttaacctcactttgtt	6	11	3	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:97533046C>T	uc010kcm.1	+	6	928	c.456C>T	c.(454-456)GAC>GAT	p.D152D	KLHL32_uc003poy.2_Silent_p.D152D|KLHL32_uc011ead.1_Silent_p.D116D|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Silent_p.D83D|KLHL32_uc003ppa.2_RNA	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	152								p.D152D(1)		ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		GACTTGCTGACCTCTTTAACC	0.383													13	22	---	---	---	---	PASS	T	97533046	T	T	97533046	2	4	13	1	0	0	0	0	0	0	0	1	8386	506	18	3		3	KLHL32	6	97533046	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	11208133	97533046	73582021	166	7510										
USP45	85015	broad.mit.edu	37	chr6	99951668	99951668	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgttttagaagcatgtttctGgagaaaatcaactatctgag	9	5	3	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:99951668G>T	uc003ppx.2	-	5	984	c.451C>A	c.(451-453)CAG>AAG	p.Q151K	USP45_uc003ppw.2_5'UTR|USP45_uc003ppy.2_RNA|USP45_uc010kcq.1_Missense_Mutation_p.Q151K|USP45_uc003ppz.2_Missense_Mutation_p.Q151K|USP45_uc003pqa.2_Missense_Mutation_p.Q151K	NM_001080481	NP_001073950	Q70EL2	UBP45_HUMAN	ubiquitin specific peptidase 45	151					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|breast(1)	2		all_cancers(76;0.000208)|Acute lymphoblastic leukemia(125;8.41e-11)|all_hematologic(75;2.56e-07)|all_epithelial(107;0.122)|Colorectal(196;0.133)		BRCA - Breast invasive adenocarcinoma(108;0.0718)		GCATGTTTCTGGAGAAAATCA	0.279													5	51	---	---	---	---	PASS	T	99951668	T	T	99951668	3	4	13	1	0	0	0	0	1	0	0	0	17073	1357	47	3	2049	3	USP45	6	99951668	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2418622	99951668	71163399	167	7511										
SIM1	6492	broad.mit.edu	37	chr6	100895257	100895257	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccgtgtttcgccaggaacctGtagtacttggtggtcacctg	12	11	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:100895257G>T	uc003pqj.3	-	8	1092	c.885C>A	c.(883-885)TAC>TAA	p.Y295*	SIM1_uc010kcu.2_Nonsense_Mutation_p.Y295*	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	295	PAC.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		CCAGGAACCTGTAGTACTTGG	0.597													14	19	---	---	---	---	PASS	T	100895257	T	T	100895257	4	4	13	1	0	0	0	0	0	1	0	0	14323	1372	48	3	1431	3	SIM1	6	100895257	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	943589	100895257	70219810	168	7512										
L3MBTL3	84456	broad.mit.edu	37	chr6	130454629	130454629	+	Nonsense_Mutation	SNP	C	T	T													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aacccaccgtccagcaggcaCagcgtcggtcagctgtcttt							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:130454629C>T	uc003qbt.2	+	21	2169	c.1999C>T	c.(1999-2001)CAG>TAG	p.Q667*	L3MBTL3_uc003qbu.2_Nonsense_Mutation_p.Q642*	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	667					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		CCAGCAGGCACAGCGTCGGTC	0.527													11	20	---	---	---	---	PASS	T	130454629	T	T	130454629	4	4	13	1	0	0	0	0	0	1	0	0	8593	479	17	3	2073	3	L3MBTL3	6	130454629	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	29559372	130454629	40660438	169	7513	233	2								
L3MBTL3	84456	broad.mit.edu	37	chr6	130454633	130454633	+	Missense_Mutation	SNP	G	T	T													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	caccgtccagcaggcacagcGtcggtcagctgtctttctgt							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:130454633G>T	uc003qbt.2	+	21	2173	c.2003G>T	c.(2002-2004)CGT>CTT	p.R668L	L3MBTL3_uc003qbu.2_Missense_Mutation_p.R643L	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	668					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		CAGGCACAGCGTCGGTCAGCT	0.532													12	19	---	---	---	---	PASS	T	130454633	T	T	130454633	3	4	13	1	0	0	0	0	1	0	0	0	8593	1145	40	1	2077	1	L3MBTL3	6	130454633	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	4	130454633	40660434	170	7514	233	2								
SAMD3	154075	broad.mit.edu	37	chr6	130505658	130505658	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcctcatgctgtgatccgggCacttctgctctgctaacatg	9	13	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:130505658C>A	uc003qbv.2	-	7	820	c.494G>T	c.(493-495)TGC>TTC	p.C165F	SAMD3_uc003qbx.2_Missense_Mutation_p.C165F|SAMD3_uc003qbw.2_Missense_Mutation_p.C165F|SAMD3_uc010kfg.1_Missense_Mutation_p.C165F|SAMD3_uc003qby.2_Missense_Mutation_p.C165F|SAMD3_uc003qbz.1_Missense_Mutation_p.C124F	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	165										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		GTGATCCGGGCACTTCTGCTC	0.448													11	17	---	---	---	---	PASS	A	130505658	A	A	130505658	3	1	13	1	0	0	0	0	1	0	0	0	13820	710	25	3	1112	3	SAMD3	6	130505658	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	51025	130505658	40609409	171	7515										
ZBTB2	57621	broad.mit.edu	37	chr6	151687860	151687860	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gagaaaaggctccctggctgGcgaggctggcttcctgaatg	15	10	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:151687860G>C	uc003qoh.2	-	3	476	c.341C>G	c.(340-342)GCC>GGC	p.A114G		NM_020861	NP_065912	Q8N680	ZBTB2_HUMAN	zinc finger and BTB domain containing 2	114					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.63e-11)		TCCCTGGCTGGCGAGGCTGGC	0.532													13	39	---	---	---	---	PASS	C	151687860	C	C	151687860	3	2	13	1	0	0	0	0	1	0	0	0	17525	1203	42	4	1207	4	ZBTB2	6	151687860	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	21182202	151687860	19427207	172	7516										
SYNE1	23345	broad.mit.edu	37	chr6	152804220	152804220	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tttccaaccagaatttttacCttatgttgctcaagtttccg	5	10	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:152804220C>A	uc010kiw.2	-	14	1952	c.1350G>T	c.(1348-1350)AAG>AAT	p.K450N	SYNE1_uc003qot.3_Missense_Mutation_p.K457N|SYNE1_uc003qou.3_Missense_Mutation_p.K450N|SYNE1_uc010kjb.1_Missense_Mutation_p.K433N|SYNE1_uc003qpa.1_Missense_Mutation_p.K450N|SYNE1_uc003qox.1_Translation_Start_Site	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	450	Potential.|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)		GAATTTTTACCTTATGTTGCT	0.502										HNSCC(10;0.0054)			7	187	---	---	---	---	PASS	A	152804220	A	A	152804220	3	1	13	1	0	0	0	0	1	0	0	0	15442	695	24	3	25648	3	SYNE1	6	152804220	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	1116360	152804220	18310847	173	7517										
NOX3	50508	broad.mit.edu	37	chr6	155761124	155761124	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggccaggctgagaaagaagaCgatgaaaacatggtgtgtgt	15	5	0	4	rs143056669	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:155761124C>G	uc003qqm.2	-	6	737	c.634G>C	c.(634-636)GTC>CTC	p.V212L		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	212	Ferric oxidoreductase.|Helical; (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		AGAAAGAAGACGATGAAAACA	0.468													19	24	---	---	---	---	PASS	G	155761124	G	G	155761124	3	3	13	1	0	0	0	0	1	0	0	0	10557	536	19	4	1104	4	NOX3	6	155761124	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	2956904	155761124	15353943	174	7518										
SLC22A2	6582	broad.mit.edu	37	chr6	160670411	160670411	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	atatctccgcccaacaaattCtgtaactgcagagagaattt	6	10	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:160670411C>T	uc003qtf.2	-	4	849	c.679G>A	c.(679-681)GAA>AAA	p.E227K	SLC22A2_uc003qte.1_Missense_Mutation_p.E227K|SLC22A2_uc003qth.1_3'UTR	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	227	Helical; (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		CCAACAAATTCTGTAACTGCA	0.433													14	64	---	---	---	---	PASS	T	160670411	T	T	160670411	3	4	13	1	0	0	0	0	1	0	0	0	14450	922	32	2	1020	2	SLC22A2	6	160670411	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4909287	160670411	10444656	175	7519										
CCR6	1235	broad.mit.edu	37	chr6	167550498	167550498	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cgtgtaatcatagctgtggtGcttgtgtttctggcttgtca	12	7	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr6:167550498G>T	uc003qvl.2	+	13	3256	c.780G>T	c.(778-780)GTG>GTT	p.V260V	CCR6_uc010kkm.2_Silent_p.V260V|CCR6_uc003qvn.3_Silent_p.V260V|CCR6_uc003qvm.3_Silent_p.V260V	NM_031409	NP_113597	P51684	CCR6_HUMAN	chemokine (C-C motif) receptor 6	260	Helical; Name=6; (Potential).				cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|humoral immune response	integral to plasma membrane	C-C chemokine receptor activity			ovary(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;8.21e-20)|BRCA - Breast invasive adenocarcinoma(81;4.55e-06)|GBM - Glioblastoma multiforme(31;0.00507)		TAGCTGTGGTGCTTGTGTTTC	0.428													34	20	---	---	---	---	PASS	T	167550498	T	T	167550498	2	4	13	1	0	0	0	0	0	0	0	1	2945	1306	46	3		3	CCR6	6	167550498	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	6880087	167550498	3564569	176	7520										
CARD11	84433	broad.mit.edu	37	chr7	2968256	2968256	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gatggggcgcgtcctccttgTagcgtctgacgatggagtcg	16	10	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:2968256T>A	uc003smv.2	-	13	2134	c.1730A>T	c.(1729-1731)TAC>TTC	p.Y577F		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	577					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GTCCTCCTTGTAGCGTCTGAC	0.652			Mis		DLBCL								7	58	---	---	---	---	PASS	A	2968256	A	A	2968256	3	1	13	1	0	0	0	0	1	0	0	0	2645	1638	57	5	1786	5	CARD11	7	2968256	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08		2968256	156170407	177	7521										
COL28A1	340267	broad.mit.edu	37	chr7	7398270	7398270	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gccaatttacttgctcatccTtgaatgcaggtttcttgaca	7	10	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:7398270T>A	uc003src.1	-	35	3489	c.3372A>T	c.(3370-3372)CAA>CAT	p.Q1124H	COL28A1_uc011jxe.1_Missense_Mutation_p.Q807H	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	1124					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		TTGCTCATCCTTGAATGCAGG	0.353													30	58	---	---	---	---	PASS	A	7398270	A	A	7398270	3	1	13	1	0	0	0	0	1	0	0	0	3686	1606	56	5	9	5	COL28A1	7	7398270	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	4430014	7398270	151740393	178	7522										
TMEM195	392636	broad.mit.edu	37	chr7	15584478	15584478	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agtccatggagaatcccaagGcaaattgaacagcctgtagt	10	9	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:15584478G>C	uc003stb.1	-	3	498	c.328C>G	c.(328-330)CCT>GCT	p.P110A		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	110					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						GAATCCCAAGGCAAATTGAAC	0.408													34	75	---	---	---	---	PASS	C	15584478	C	C	15584478	3	2	13	1	0	0	0	0	1	0	0	0	16114	1203	42	4	1053	4	TMEM195	7	15584478	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	8186208	15584478	143554185	179	7523										
MACC1	346389	broad.mit.edu	37	chr7	20198760	20198760	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	actggagatatgttttttccAcccttcttaatatcagaaat	5	8	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:20198760A>G	uc003sus.3	-	5	1533	c.1224T>C	c.(1222-1224)GGT>GGC	p.G408G	MACC1_uc010kug.2_Silent_p.G408G	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	408					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						TGTTTTTTCCACCCTTCTTAA	0.363													6	22	---	---	---	---	PASS	G	20198760	G	G	20198760	2	3	13	1	0	0	0	0	0	0	0	1	9143	146	6	5		5	MACC1	7	20198760	Silent	SNP	A	TCGA-18-3421-01A-01D-0983-08	4614282	20198760	138939903	180	7524										
MACC1	346389	broad.mit.edu	37	chr7	20199112	20199112	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttcttacttcagccccaattTtcatctccagcaaaagggct	5	13	4	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:20199112T>C	uc003sus.3	-	5	1181	c.872A>G	c.(871-873)AAA>AGA	p.K291R	MACC1_uc010kug.2_Missense_Mutation_p.K291R	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	291					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						AGCCCCAATTTTCATCTCCAG	0.433													8	27	---	---	---	---	PASS	C	20199112	C	C	20199112	3	2	13	1	0	0	0	0	1	0	0	0	9143	1841	64	5	1698	5	MACC1	7	20199112	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	352	20199112	138939551	181	7525										
NPVF	64111	broad.mit.edu	37	chr7	25266476	25266476	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaggcaggttggctgttgctCcagcacttctttcttcttga	11	10	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:25266476C>G	uc003sxo.2	-	2	355	c.308G>C	c.(307-309)GGA>GCA	p.G103A		NM_022150	NP_071433	Q9HCQ7	RFRP_HUMAN	neuropeptide VF precursor	103					neuropeptide signaling pathway	extracellular region|membrane	G-protein coupled receptor activity			ovary(1)	1						GGCTGTTGCTCCAGCACTTCT	0.473													24	43	---	---	---	---	PASS	G	25266476	G	G	25266476	3	3	13	1	0	0	0	0	1	0	0	0	10605	855	30	2	290	2	NPVF	7	25266476	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	5067364	25266476	133872187	182	7526										
AMPH	273	broad.mit.edu	37	chr7	38431391	38431391	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aattcctgagaggcctccctTgcagatgctagctggtcagc	11	12	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:38431391T>A	uc003tgu.2	-	19	1905	c.1836A>T	c.(1834-1836)GCA>GCT	p.A612A	AMPH_uc003tgv.2_Silent_p.A570A|AMPH_uc003tgt.2_Silent_p.A497A|AMPH_uc003tgw.1_Silent_p.A635A|AMPH_uc010kxl.1_RNA	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	612					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						AGGCCTCCCTTGCAGATGCTA	0.522													19	47	---	---	---	---	PASS	A	38431391	A	A	38431391	2	1	13	1	0	0	0	0	0	0	0	1	588	1799	63	5		5	AMPH	7	38431391	Silent	SNP	T	TCGA-18-3421-01A-01D-0983-08	13164915	38431391	120707272	183	7527										
GCK	2645	broad.mit.edu	37	chr7	44193036	44193036	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttcaggtcctcctcctgcagCtggaactctgccaggatctg	10	14	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:44193036C>A	uc003tkl.2	-	2	542	c.72G>T	c.(70-72)CAG>CAT	p.Q24H	GCK_uc003tkj.1_Missense_Mutation_p.Q23H|GCK_uc003tkk.1_Missense_Mutation_p.Q25H	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	24					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						CCTCCTGCAGCTGGAACTCTG	0.632													90	150	---	---	---	---	PASS	A	44193036	A	A	44193036	3	1	13	1	0	0	0	0	1	0	0	0	6293	796	28	3	1361	3	GCK	7	44193036	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	5761645	44193036	114945627	184	7528										
PKD1L1	168507	broad.mit.edu	37	chr7	47947844	47947844	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cagccttgagcatatagactCcttctggaaaaataagaatg	8	8	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:47947844C>G	uc003tny.1	-	9	1232	c.1232G>C	c.(1231-1233)GGA>GCA	p.G411A		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	411	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CATATAGACTCCTTCTGGAAA	0.393													8	44	---	---	---	---	PASS	G	47947844	G	G	47947844	3	3	13	1	0	0	0	0	1	0	0	0	11964	855	30	2	7513	2	PKD1L1	7	47947844	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	3754808	47947844	111190819	185	7529										
FZD9	8326	broad.mit.edu	37	chr7	72849712	72849712	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccatcctctacacggtgcccGccacctgcgtcatcgtttgc	8	18	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:72849712G>T	uc003tyb.2	+	1	1604	c.1375G>T	c.(1375-1377)GCC>TCC	p.A459S		NM_003508	NP_003499	O00144	FZD9_HUMAN	frizzled 9 precursor	459	Helical; Name=6; (Potential).				B cell differentiation|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|neuroblast proliferation|vasculature development	cell surface|filopodium membrane|integral to membrane|perinuclear region of cytoplasm	G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				CACGGTGCCCGCCACCTGCGT	0.617													3	9	---	---	---	---	PASS	T	72849712	T	T	72849712	3	4	13	1	0	0	0	0	1	0	0	0	6137	1087	38	1	1377	1	FZD9	7	72849712	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	24901868	72849712	86288951	186	7530										
AKAP9	10142	broad.mit.edu	37	chr7	91660895	91660895	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttgaaaaacaataccaagaaCaattagaagaagaagtagct	7	5	0	5			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:91660895C>G	uc003ulg.2	+	16	4540	c.4315C>G	c.(4315-4317)CAA>GAA	p.Q1439E	AKAP9_uc003ule.2_Missense_Mutation_p.Q1451E|AKAP9_uc003ulf.2_Missense_Mutation_p.Q1439E|AKAP9_uc003uli.2_Missense_Mutation_p.Q1064E	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1451	Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			ATACCAAGAACAATTAGAAGA	0.303			T	BRAF	papillary thyroid								7	78	---	---	---	---	PASS	G	91660895	G	G	91660895	3	3	13	1	0	0	0	0	1	0	0	0	459	479	17	4	4377	4	AKAP9	7	91660895	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	18811183	91660895	67477768	187	7531										
STAG3	10734	broad.mit.edu	37	chr7	99783901	99783901	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agcttgttaactttttcatcCaatcttgcggatgtaaaggt	8	7	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:99783901C>A	uc003utx.1	+	5	570	c.415C>A	c.(415-417)CAA>AAA	p.Q139K	STAG3_uc010lgs.1_5'UTR|STAG3_uc011kjk.1_Intron	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	139					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CTTTTTCATCCAATCTTGCGG	0.398													6	124	---	---	---	---	PASS	A	99783901	A	A	99783901	3	1	13	1	0	0	0	0	1	0	0	0	15243	595	21	3	429	3	STAG3	7	99783901	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	8123006	99783901	59354762	188	7532										
STAG3	10734	broad.mit.edu	37	chr7	99809470	99809470	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agttagaaatccaggatgagTcaaatgaagaacggcaggat	12	5	1	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:99809470T>G	uc003utx.1	+	32	3723	c.3568T>G	c.(3568-3570)TCA>GCA	p.S1190A	STAG3_uc011kjk.1_Missense_Mutation_p.S1132A|GATS_uc003uty.3_RNA|GATS_uc003utz.3_Intron|GATS_uc003uua.3_Intron|GATS_uc010lgt.2_Intron|STAG3_uc003uub.1_Missense_Mutation_p.S415A|GATS_uc011kjl.1_RNA|GATS_uc010lgu.2_RNA	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	1190					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CCAGGATGAGTCAAATGAAGA	0.483													14	83	---	---	---	---	PASS	G	99809470	G	G	99809470	3	3	13	1	0	0	0	0	1	0	0	0	15243	1667	58	5	3690	5	STAG3	7	99809470	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	25569	99809470	59329193	189	7533										
AGFG2	3268	broad.mit.edu	37	chr7	100161511	100161511	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cttcccccaggcagtgccacCcactggggcctttgccagct	10	18	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:100161511C>A	uc003uvf.2	+	10	1362	c.1226C>A	c.(1225-1227)CCC>CAC	p.P409H	AGFG2_uc010lgy.2_Intron	NM_006076	NP_006067	O95081	AGFG2_HUMAN	ArfGAP with FG repeats 2	409	Pro-rich.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			central_nervous_system(1)	1						GCAGTGCCACCCACTGGGGCC	0.617											OREG0018204	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	48	---	---	---	---	PASS	A	100161511	A	A	100161511	3	1	13	1	0	0	0	0	1	0	0	0	381	623	22	3	1264	3	AGFG2	7	100161511	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	352041	100161511	58977152	190	7534										
MLL5	55904	broad.mit.edu	37	chr7	104742347	104742347	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aattaggaacaagcaaaagaAgaaaatgctagcaagccaac	8	7	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:104742347A>G	uc003vcm.2	+	17	2436	c.1902A>G	c.(1900-1902)GAA>GAG	p.E634E	MLL5_uc010ljc.2_Silent_p.E634E|MLL5_uc010lje.1_RNA	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	634					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						AAGCAAAAGAAGAAAATGCTA	0.353													36	20	---	---	---	---	PASS	G	104742347	G	G	104742347	2	3	13	1	0	0	0	0	0	0	0	1	9624	69	3	5		5	MLL5	7	104742347	Silent	SNP	A	TCGA-18-3421-01A-01D-0983-08	4580836	104742347	54396316	191	7535										
CDHR3	222256	broad.mit.edu	37	chr7	105641957	105641957	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aactgagtccaggaaccatcGtggccaatatcacagcggag	11	11	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:105641957G>T	uc003vdl.3	+	7	871	c.763G>T	c.(763-765)GTG>TTG	p.V255L	CDHR3_uc003vdk.2_Intron|CDHR3_uc011kls.1_RNA|CDHR3_uc003vdm.3_Missense_Mutation_p.V242L|CDHR3_uc011klt.1_Missense_Mutation_p.V167L|CDHR3_uc003vdn.2_5'UTR	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	255	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						AGGAACCATCGTGGCCAATAT	0.498													85	53	---	---	---	---	PASS	T	105641957	T	T	105641957	3	4	13	1	0	0	0	0	1	0	0	0	3120	1145	40	1	789	1	CDHR3	7	105641957	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	899610	105641957	53496706	192	7536										
NRCAM	4897	broad.mit.edu	37	chr7	107818549	107818549	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aatcttcaaagacgagggagCactggggacttacagtgaga	13	7	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:107818549C>T	uc003vfb.2	-	26	3331	c.2860G>A	c.(2860-2862)GCT>ACT	p.A954T	NRCAM_uc003vfc.2_Missense_Mutation_p.A938T|NRCAM_uc011kmk.1_Missense_Mutation_p.A949T|NRCAM_uc003vfd.2_Missense_Mutation_p.A930T|NRCAM_uc003vfe.2_Missense_Mutation_p.A930T|NRCAM_uc011kmj.1_5'Flank	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	954	Fibronectin type-III 4.|Extracellular (Potential).			A -> V (in Ref. 8; CAA04507).	angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding	p.L954L(1)		ovary(3)|breast(2)	5						GACGAGGGAGCACTGGGGACT	0.443													5	37	---	---	---	---	PASS	T	107818549	T	T	107818549	3	4	13	1	0	0	0	0	1	0	0	0	10644	710	25	3	1116	3	NRCAM	7	107818549	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	2176592	107818549	51320114	193	7537										
NRCAM	4897	broad.mit.edu	37	chr7	107822332	107822332	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcccagtgcacctcggctaaGgtactgttcaccacattcac	7	15	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:107822332G>T	uc003vfb.2	-	24	3051	c.2580C>A	c.(2578-2580)ACC>ACA	p.T860T	NRCAM_uc003vfc.2_Silent_p.T844T|NRCAM_uc011kmk.1_Silent_p.T855T|NRCAM_uc003vfd.2_Silent_p.T836T|NRCAM_uc003vfe.2_Silent_p.T836T	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	860	Fibronectin type-III 3.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						CCTCGGCTAAGGTACTGTTCA	0.478													5	52	---	---	---	---	PASS	T	107822332	T	T	107822332	2	4	13	1	0	0	0	0	0	0	0	1	10644	987	35	3		3	NRCAM	7	107822332	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	3783	107822332	51316331	194	7538										
CTTNBP2	83992	broad.mit.edu	37	chr7	117400707	117400707	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cacattccaagtcatcagaaCcatagttgcttggttcaatc	6	11	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:117400707C>T	uc003vjf.2	-	10	3046	c.2954G>A	c.(2953-2955)GGT>GAT	p.G985D		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	985										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GTCATCAGAACCATAGTTGCT	0.363													11	48	---	---	---	---	PASS	T	117400707	T	T	117400707	3	4	13	1	0	0	0	0	1	0	0	0	4045	507	18	3	2093	3	CTTNBP2	7	117400707	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	9578375	117400707	41737956	195	7539										
AASS	10157	broad.mit.edu	37	chr7	121731799	121731799	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcagactgcattacattcatCaaaactcccactggactcca	5	14	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:121731799C>G	uc003vka.2	-	17	2070	c.1974G>C	c.(1972-1974)TTG>TTC	p.L658F	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.L658F|AASS_uc011knw.1_Missense_Mutation_p.L146F	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	658	Saccharopine dehydrogenase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	TTACATTCATCAAAACTCCCA	0.423													4	17	---	---	---	---	PASS	G	121731799	G	G	121731799	3	3	13	1	0	0	0	0	1	0	0	0	24	825	29	2	834	2	AASS	7	121731799	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4331092	121731799	37406864	196	7540										
METTL2B	55798	broad.mit.edu	37	chr7	128141838	128141838	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaactggacacgcttttcacCactgctggactggaaaaagt	10	10	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:128141838C>A	uc003vnf.2	+	9	1042	c.1005C>A	c.(1003-1005)ACC>ACA	p.T335T	METTL2B_uc003vng.2_Silent_p.T270T|METTL2B_uc011kop.1_Silent_p.T199T	NM_018396	NP_060866	Q6P1Q9	MTL2B_HUMAN	methyltransferase like 2B	335							methyltransferase activity			skin(1)	1						CGCTTTTCACCACTGCTGGAC	0.433													6	95	---	---	---	---	PASS	A	128141838	A	A	128141838	2	1	13	1	0	0	0	0	0	0	0	1	9500	581	21	3		3	METTL2B	7	128141838	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	6410039	128141838	30996825	197	7541										
FAM71F2	346653	broad.mit.edu	37	chr7	128315900	128315900	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cacctggtgacgccccagtcAtcaacctcagcaggtaaagg	10	14	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:128315900A>G	uc003vnk.3	+	2	458	c.352A>G	c.(352-354)ATC>GTC	p.I118V	FAM71F2_uc010llm.1_Missense_Mutation_p.I109V|FAM71F2_uc003vnl.2_RNA|FAM71F2_uc010lln.1_RNA	NM_001012454	NP_001012457	Q6NXP2	F71F2_HUMAN	hypothetical protein LOC346653 isoform a	118											0						CGCCCCAGTCATCAACCTCAG	0.537													4	27	---	---	---	---	PASS	G	128315900	G	G	128315900	3	3	13	1	0	0	0	0	1	0	0	0	5613	217	8	5	358	5	FAM71F2	7	128315900	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	174062	128315900	30822763	198	7542										
FLNC	2318	broad.mit.edu	37	chr7	128493535	128493535	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcccccaggttatgggggctTggggctgagtattgaaggcc	16	9	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:128493535T>A	uc003vnz.3	+	38	6430	c.6221T>A	c.(6220-6222)TTG>TAG	p.L2074*	FLNC_uc003voa.3_Nonsense_Mutation_p.L2041*	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2074	Filamin 19.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						TATGGGGGCTTGGGGCTGAGT	0.592													25	11	---	---	---	---	PASS	A	128493535	A	A	128493535	4	1	13	1	0	0	0	0	0	1	0	0	5935	1821	63	5	6371	5	FLNC	7	128493535	Nonsense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	177635	128493535	30645128	199	7543										
KIAA1549	57670	broad.mit.edu	37	chr7	138552813	138552813	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gagccggtccttctcagcgtCggcaggacagccgttgacct	13	14	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:138552813C>A	uc011kql.1	-	15	4886	c.4837G>T	c.(4837-4839)GAC>TAC	p.D1613Y	KIAA1549_uc011kqi.1_Missense_Mutation_p.D397Y|KIAA1549_uc003vuk.3_Missense_Mutation_p.D1563Y|KIAA1549_uc011kqj.1_Missense_Mutation_p.D1613Y|KIAA1549_uc011kqk.1_Missense_Mutation_p.D397Y	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1613						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TTCTCAGCGTCGGCAGGACAG	0.577			O	BRAF	pilocytic astrocytoma								8	9	---	---	---	---	PASS	A	138552813	A	A	138552813	3	1	13	1	0	0	0	0	1	0	0	0	8244	884	31	2	1039	2	KIAA1549	7	138552813	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	10059278	138552813	20585850	200	7544										
RAB19	401409	broad.mit.edu	37	chr7	140111804	140111804	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gttcgagtccatccctcactGgattcatgagatagagaaat	9	9	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:140111804G>T	uc010lni.2	+	3	530	c.332G>T	c.(331-333)TGG>TTG	p.W111L	RAB19_uc011krc.1_Missense_Mutation_p.W111L	NM_001008749	NP_001008749	A4D1S5	RAB19_HUMAN	RAB19, member RAS oncogene family	111					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0	Melanoma(164;0.0142)					ATCCCTCACTGGATTCATGAG	0.493													6	116	---	---	---	---	PASS	T	140111804	T	T	140111804	3	4	13	1	0	0	0	0	1	0	0	0	12904	1357	47	3	338	3	RAB19	7	140111804	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1558991	140111804	19026859	201	7545										
TMEM176A	55365	broad.mit.edu	37	chr7	150501463	150501463	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tccccaggccttgttcagaaCccttcaggccatgctcttgg	9	15	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:150501463C>G	uc003whx.1	+	6	647	c.569C>G	c.(568-570)ACC>AGC	p.T190S		NM_018487	NP_060957	Q96HP8	T176A_HUMAN	hepatocellular carcinoma-associated antigen 112	190						integral to membrane				ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TTGTTCAGAACCCTTCAGGCC	0.557													4	46	---	---	---	---	PASS	G	150501463	G	G	150501463	3	3	13	1	0	0	0	0	1	0	0	0	16089	507	18	4	587	4	TMEM176A	7	150501463	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	10389659	150501463	8637200	202	7546										
ABP1	26	broad.mit.edu	37	chr7	150558048	150558048	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	caggacctggtggcctgggtGacggtgggcttcctgcacat	16	11	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr7:150558048G>A	uc003why.1	+	6	6225	c.2007G>A	c.(2005-2007)GTG>GTA	p.V669V	ABP1_uc003whz.1_Silent_p.V669V|ABP1_uc003wia.1_Silent_p.V688V	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	669					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	TGGCCTGGGTGACGGTGGGCT	0.597													7	37	---	---	---	---	PASS	A	150558048	A	A	150558048	2	1	13	1	0	0	0	0	0	0	0	1	98	1277	45	2		2	ABP1	7	150558048	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	56585	150558048	8580615	203	7547										
ERICH1	157697	broad.mit.edu	37	chr8	623443	623443	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccagcccatgtcgggtcttcCtcgctggcgtccgcaccgtc	11	18	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:623443C>A	uc003wph.2	-	4	974	c.909G>T	c.(907-909)GAG>GAT	p.E303D	ERICH1_uc011kwh.1_Missense_Mutation_p.E303D|ERICH1_uc003wpe.1_Missense_Mutation_p.E209D|ERICH1_uc003wpi.2_Missense_Mutation_p.E115D	NM_207332	NP_997215	Q86X53	ERIC1_HUMAN	glutamate-rich 1	303	Glu-rich.									large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		TCGGGTCTTCCTCGCTGGCGT	0.617													13	93	---	---	---	---	PASS	A	623443	A	A	623443	3	1	13	1	0	0	0	0	1	0	0	0	5230	680	24	3	434	3	ERICH1	8	623443	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08		623443	145740579	204	7548										
MCPH1	79648	broad.mit.edu	37	chr8	6302384	6302384	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agaggagcaccaggagatctAtcatgccgaggctgcagctg	14	10	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:6302384A>G	uc003wqi.2	+	8	1209	c.1141A>G	c.(1141-1143)ATC>GTC	p.I381V	MCPH1_uc003wqh.2_Missense_Mutation_p.I381V|MCPH1_uc011kwl.1_Missense_Mutation_p.I333V	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	381						microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		CAGGAGATCTATCATGCCGAG	0.532													11	38	---	---	---	---	PASS	G	6302384	G	G	6302384	3	3	13	1	0	0	0	0	1	0	0	0	9398	449	16	5	1171	5	MCPH1	8	6302384	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	5678941	6302384	140061638	205	7549										
PRSS55	203074	broad.mit.edu	37	chr8	10390507	10390507	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aagatgtttccaaaacttacCaaaaatatgctgtgtgccgg	8	8	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:10390507C>G	uc003wta.2	+	4	705	c.690C>G	c.(688-690)ACC>ACG	p.T230T	uc010lru.2_Intron|PRSS55_uc003wtb.2_RNA	NM_198464	NP_940866	Q6UWB4	PRS55_HUMAN	hypothetical protein LOC203074 precursor	230	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane	serine-type endopeptidase activity			ovary(1)	1						CAAAACTTACCAAAAATATGC	0.483													18	33	---	---	---	---	PASS	G	10390507	G	G	10390507	2	3	13	1	0	0	0	0	0	0	0	1	12634	581	21	4		4	PRSS55	8	10390507	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	4088123	10390507	135973515	206	7550										
TUSC3	7991	broad.mit.edu	37	chr8	15601052	15601052	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgacaactactgcagatgccGctatcaccatggggatggtt	11	10	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:15601052G>A	uc003wwt.2	+	8	1078	c.868G>A	c.(868-870)GCT>ACT	p.A290T	TUSC3_uc003wwu.2_Missense_Mutation_p.A290T|TUSC3_uc003wwv.2_Missense_Mutation_p.A290T|TUSC3_uc003www.2_Missense_Mutation_p.A290T|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Silent_p.P268P	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	290	Helical; (Potential).				cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		TGCAGATGCCGCTATCACCAT	0.393													13	46	---	---	---	---	PASS	A	15601052	A	A	15601052	3	1	13	1	0	0	0	0	1	0	0	0	16775	1087	38	1	898	1	TUSC3	8	15601052	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	5210545	15601052	130762970	207	7551										
PPP2R2A	5520	broad.mit.edu	37	chr8	26218532	26218532	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	atctaatggttgaggccagtCcacgaagaatatttgccaat	9	8	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:26218532C>T	uc003xeu.2	+	6	804	c.502C>T	c.(502-504)CCA>TCA	p.P168S	PPP2R2A_uc003xek.2_Intron|PPP2R2A_uc011laf.1_Missense_Mutation_p.P178S	NM_002717	NP_002708	P63151	2ABA_HUMAN	alpha isoform of regulatory subunit B55, protein	168					protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)		TGAGGCCAGTCCACGAAGAAT	0.348													4	24	---	---	---	---	PASS	T	26218532	T	T	26218532	3	4	13	1	0	0	0	0	1	0	0	0	12384	855	30	2	565	2	PPP2R2A	8	26218532	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	10617480	26218532	120145490	208	7552										
ZNF395	55893	broad.mit.edu	37	chr8	28210186	28210186	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	acttgtacatcaccttcacaGagttctacaggaaaggaaga	8	9	3	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:28210186G>A	uc003xgq.2	-	6	912	c.824C>T	c.(823-825)TCT>TTT	p.S275F	ZNF395_uc003xgt.2_Missense_Mutation_p.S275F|ZNF395_uc003xgr.2_Missense_Mutation_p.S275F|ZNF395_uc003xgs.2_Missense_Mutation_p.S275F	NM_018660	NP_061130	Q9H8N7	ZN395_HUMAN	zinc finger protein 395	275					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.102)|Kidney(114;0.123)|Colorectal(74;0.142)		CACCTTCACAGAGTTCTACAG	0.527													10	50	---	---	---	---	PASS	A	28210186	A	A	28210186	3	1	13	1	0	0	0	0	1	0	0	0	17878	942	33	2	737	2	ZNF395	8	28210186	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1991654	28210186	118153836	209	7553										
FBXO16	157574	broad.mit.edu	37	chr8	28321168	28321168	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctccgagggtccaggaaagaAaagatgtataaagataacac	10	7	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:28321168A>G	uc003xgu.2	-	4	401	c.303T>C	c.(301-303)TTT>TTC	p.F101F	ZNF395_uc003xgt.2_5'UTR|FBXO16_uc003xgv.2_Silent_p.F88F|FBXO16_uc003xgw.2_Silent_p.F88F	NM_172366	NP_758954	Q8IX29	FBX16_HUMAN	F-box only protein 16	101	F-box.									ovary(1)	1		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.121)|Kidney(114;0.144)|Colorectal(74;0.249)		CCAGGAAAGAAAAGATGTATA	0.458													4	29	---	---	---	---	PASS	G	28321168	G	G	28321168	2	3	13	1	0	0	0	0	0	0	0	1	5729	11	1	5		5	FBXO16	8	28321168	Silent	SNP	A	TCGA-18-3421-01A-01D-0983-08	110982	28321168	118042854	210	7554										
PRKDC	5591	broad.mit.edu	37	chr8	48855900	48855900	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcaggtgctaaactgagatgCatgcagggcaaataggcgca	14	8	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:48855900C>T	uc003xqi.2	-	10	892	c.835G>A	c.(835-837)GCA>ACA	p.A279T	PRKDC_uc003xqj.2_Missense_Mutation_p.A279T|PRKDC_uc011ldh.1_Missense_Mutation_p.A279T	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	279					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AACTGAGATGCATGCAGGGCA	0.428								NHEJ					12	22	---	---	---	---	PASS	T	48855900	T	T	48855900	3	4	13	1	0	0	0	0	1	0	0	0	12521	710	25	3	11858	3	PRKDC	8	48855900	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	20534732	48855900	97508122	211	7555										
PXDNL	137902	broad.mit.edu	37	chr8	52252215	52252215	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtgctgtgatggtttcctgaAtttccgctgcaaacgtgctg	12	9	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:52252215A>T	uc003xqu.3	-	21	4216	c.4115T>A	c.(4114-4116)ATT>AAT	p.I1372N	PXDNL_uc003xqt.3_Intron	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1372					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GGTTTCCTGAATTTCCGCTGC	0.378													20	63	---	---	---	---	PASS	T	52252215	T	T	52252215	3	4	13	1	0	0	0	0	1	0	0	0	12848	101	4	5	288	5	PXDNL	8	52252215	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	3396315	52252215	94111807	212	7556										
PCMTD1	115294	broad.mit.edu	37	chr8	52733117	52733117	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aataagctgattacccacaaAtacgtaagtgttaattctct	5	8	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:52733117A>G	uc003xqx.3	-	6	1209	c.868T>C	c.(868-870)TTT>CTT	p.F290L	PCMTD1_uc011ldm.1_Missense_Mutation_p.F160L|PCMTD1_uc003xqw.3_Missense_Mutation_p.F290L|PCMTD1_uc011ldn.1_Missense_Mutation_p.F102L|PCMTD1_uc010lya.2_Missense_Mutation_p.F214L	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	290						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				TTACCCACAAATACGTAAGTG	0.303													11	223	---	---	---	---	PASS	G	52733117	G	G	52733117	3	3	13	1	0	0	0	0	1	0	0	0	11586	101	4	5	209	5	PCMTD1	8	52733117	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	480902	52733117	93630905	213	7557										
ZFHX4	79776	broad.mit.edu	37	chr8	77767709	77767709	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tctggatactctgccaaaacCtgcaaccacacctaccacgg	6	16	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:77767709C>G	uc003yav.2	+	10	8804	c.8417C>G	c.(8416-8418)CCT>CGT	p.P2806R	ZFHX4_uc003yau.1_Missense_Mutation_p.P2851R|ZFHX4_uc003yaw.1_Missense_Mutation_p.P2806R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2806						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTGCCAAAACCTGCAACCACA	0.483										HNSCC(33;0.089)			24	79	---	---	---	---	PASS	G	77767709	G	G	77767709	3	3	13	1	0	0	0	0	1	0	0	0	17632	681	24	4	8586	4	ZFHX4	8	77767709	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	25034592	77767709	68596313	214	7558										
POP1	10940	broad.mit.edu	37	chr8	99148753	99148753	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agcgtgccagtgtgtggaacCcatcaaatcagctgtctgca	11	11	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:99148753C>A	uc003yij.3	+	8	1155	c.1055C>A	c.(1054-1056)CCC>CAC	p.P352H	POP1_uc011lgv.1_Missense_Mutation_p.P352H|POP1_uc003yik.2_Missense_Mutation_p.P352H	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	352					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			TGTGTGGAACCCATCAAATCA	0.358													9	248	---	---	---	---	PASS	A	99148753	A	A	99148753	3	1	13	1	0	0	0	0	1	0	0	0	12251	623	22	3	1081	3	POP1	8	99148753	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	21381044	99148753	47215269	215	7559										
KLF10	7071	broad.mit.edu	37	chr8	103664484	103664484	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgtaacaggtctgttttcaaCgtatttcttaaaatcagact	6	7	4	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:103664484C>G	uc011lhk.1	-	2	332	c.178G>C	c.(178-180)GTT>CTT	p.V60L	KLF10_uc011lhj.1_Missense_Mutation_p.V49L	NM_005655	NP_005646	Q13118	KLF10_HUMAN	Kruppel-like factor 10 isoform a	60					cell proliferation|cell-cell signaling|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|skeletal system development|transforming growth factor beta receptor signaling pathway	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_epithelial(15;5.63e-07)|Lung NSC(17;8.18e-05)|all_lung(17;0.000169)		OV - Ovarian serous cystadenocarcinoma(57;0.000112)|STAD - Stomach adenocarcinoma(118;0.0826)			CTGTTTTCAACGTATTTCTTA	0.383											OREG0018913	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	82	---	---	---	---	PASS	G	103664484	G	G	103664484	3	3	13	1	0	0	0	0	1	0	0	0	8338	536	19	4	1276	4	KLF10	8	103664484	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4515731	103664484	42699538	216	7560										
RAD21	5885	broad.mit.edu	37	chr8	117869513	117869513	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cattcccacatacctaatatTccaccatcatttccttctcc	0	17	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:117869513T>C	uc003yod.2	-	6	969	c.681A>G	c.(679-681)GGA>GGG	p.G227G		NM_006265	NP_006256	O60216	RAD21_HUMAN	RAD21 homolog	227					apoptosis|cell division|chromosome segregation|double-strand break repair|mitotic metaphase/anaphase transition|mitotic prometaphase|protein localization to chromatin|reciprocal meiotic recombination|regulation of transcription from RNA polymerase II promoter	chromosome, centromeric region|cohesin complex|nuclear chromosome|nucleoplasm	protein binding			lung(1)|skin(1)	2	all_cancers(13;1.21e-21)|Lung NSC(37;0.000134)|Ovarian(258;0.0172)					TACCTAATATTCCACCATCAT	0.323													30	35	---	---	---	---	PASS	C	117869513	C	C	117869513	2	2	13	1	0	0	0	0	0	0	0	1	12981	1770	62	5		5	RAD21	8	117869513	Silent	SNP	T	TCGA-18-3421-01A-01D-0983-08	14205029	117869513	28494509	217	7561										
ZHX2	22882	broad.mit.edu	37	chr8	123964361	123964361	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaaggtgcccaagaagcccgAggagatcacccccgagaacc	12	14	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:123964361A>T	uc003ypk.1	+	3	1178	c.611A>T	c.(610-612)GAG>GTG	p.E204V		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	204	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			AAGAAGCCCGAGGAGATCACC	0.587													85	86	---	---	---	---	PASS	T	123964361	T	T	123964361	3	4	13	1	0	0	0	0	1	0	0	0	17673	304	11	5	613	5	ZHX2	8	123964361	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	6094848	123964361	22399661	218	7562										
C8orf76	84933	broad.mit.edu	37	chr8	124238808	124238808	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tttatcttcaatttcctgctGagtccttaagttcctctcca	4	12	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:124238808G>T	uc003yqc.1	-	5	911	c.880C>A	c.(880-882)CAG>AAG	p.Q294K	C8orf76_uc003yqd.2_Missense_Mutation_p.Q262K	NM_032847	NP_116236	Q96K31	CH076_HUMAN	hypothetical protein LOC84933	294							binding			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			ATTTCCTGCTGAGTCCTTAAG	0.433													5	78	---	---	---	---	PASS	T	124238808	T	T	124238808	3	4	13	1	0	0	0	0	1	0	0	0	2437	1299	45	2	270	2	C8orf76	8	124238808	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	274447	124238808	22125214	219	7563										
C8orf76	84933	broad.mit.edu	37	chr8	124250108	124250108	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gacaccgagcctgaccttccTggacatcccttttcatggca	8	15	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:124250108T>C	uc003yqc.1	-	3	318	c.287A>G	c.(286-288)CAG>CGG	p.Q96R	C8orf76_uc003yqd.2_Missense_Mutation_p.Q64R	NM_032847	NP_116236	Q96K31	CH076_HUMAN	hypothetical protein LOC84933	96							binding			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			CTGACCTTCCTGGACATCCCT	0.418													8	49	---	---	---	---	PASS	C	124250108	C	C	124250108	3	2	13	1	0	0	0	0	1	0	0	0	2437	1580	55	5	871	5	C8orf76	8	124250108	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	11300	124250108	22113914	220	7564										
PHF20L1	51105	broad.mit.edu	37	chr8	133816063	133816063	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttttgtgtttttcctttggaGgattggatagctttagtcaa	10	4	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:133816063G>T	uc003ytt.2	+	7	833	c.508_splice	c.e7-1	p.D170_splice	PHF20L1_uc003ytr.2_Splice_Site_p.D144_splice|PHF20L1_uc010mdv.2_Splice_Site_p.D144_splice|PHF20L1_uc003yts.2_Splice_Site_p.D170_splice|PHF20L1_uc011lja.1_Splice_Site_p.D144_splice|PHF20L1_uc003ytu.1_Splice_Site|PHF20L1_uc003ytv.2_Missense_Mutation_p.E8D	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1								nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			TTCCTTTGGAGGATTGGATAG	0.333													3	4	---	---	---	---	PASS	T	133816063	T	T	133816063	5	4	13	1	0	0	0	0	0	0	1	0	11832	1014	35	3	529	3	PHF20L1	8	133816063	Splice_Site	SNP	G	TCGA-18-3421-01A-01D-0983-08	9565955	133816063	12547959	221	7565										
FAM135B	51059	broad.mit.edu	37	chr8	139164022	139164022	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cctttggggtttcctcaagtGctctatgaagagatctggtc	11	9	3	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:139164022G>A	uc003yuy.2	-	13	2867	c.2696C>T	c.(2695-2697)GCA>GTA	p.A899V	FAM135B_uc003yux.2_Missense_Mutation_p.A800V|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.A461V|FAM135B_uc003yvb.2_Missense_Mutation_p.A461V	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	899										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)			TTCCTCAAGTGCTCTATGAAG	0.463										HNSCC(54;0.14)			95	67	---	---	---	---	PASS	A	139164022	A	A	139164022	3	1	13	1	0	0	0	0	1	0	0	0	5449	1319	46	3	1556	3	FAM135B	8	139164022	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	5347959	139164022	7200000	222	7566										
FAM135B	51059	broad.mit.edu	37	chr8	139277998	139277998	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agaccacagcatcatttatgGgtacctcttcattccggtat	7	11	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:139277998G>C	uc003yuy.2	-	4	416	c.245C>G	c.(244-246)CCC>CGC	p.P82R	FAM135B_uc003yux.2_5'UTR|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	82										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)			ATCATTTATGGGTACCTCTTC	0.488										HNSCC(54;0.14)			9	50	---	---	---	---	PASS	C	139277998	C	C	139277998	3	2	13	1	0	0	0	0	1	0	0	0	5449	1232	43	4	4043	4	FAM135B	8	139277998	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	113976	139277998	7086024	223	7567										
FAM135B	51059	broad.mit.edu	37	chr8	139323156	139323156	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cttcaaggtcactcggatctGgtaatacctaagaaaagaga	9	8	3	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:139323156G>T	uc003yuy.2	-	3	256	c.85C>A	c.(85-87)CAG>AAG	p.Q29K	FAM135B_uc003yux.2_5'UTR|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	29										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)			ACTCGGATCTGGTAATACCTA	0.473										HNSCC(54;0.14)			6	75	---	---	---	---	PASS	T	139323156	T	T	139323156	3	4	13	1	0	0	0	0	1	0	0	0	5449	1357	47	3	4207	3	FAM135B	8	139323156	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	45158	139323156	7040866	224	7568										
ZNF16	7564	broad.mit.edu	37	chr8	146156985	146156985	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttctctccagtgtggaccctCtggtgcttcctcaggtgtgc	11	13	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr8:146156985C>T	uc003zet.2	-	4	1375	c.1188G>A	c.(1186-1188)CAG>CAA	p.Q396Q	ZNF16_uc003zeu.2_Silent_p.Q396Q	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	396	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		TGTGGACCCTCTGGTGCTTCC	0.532													24	91	---	---	---	---	PASS	T	146156985	T	T	146156985	2	4	13	1	0	0	0	0	0	0	0	1	17735	912	32	2		2	ZNF16	8	146156985	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	6833829	146156985	207037	225	7569										
C9orf93	203238	broad.mit.edu	37	chr9	15744423	15744423	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctggcagcctgtgcattaatGgctggtgccttatatcccct	10	12	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:15744423G>T	uc003zmd.2	+	17	2517	c.2202G>T	c.(2200-2202)ATG>ATT	p.M734I	C9orf93_uc010mih.1_Missense_Mutation_p.M742I|C9orf93_uc003zme.2_Missense_Mutation_p.M649I|C9orf93_uc011lmu.1_Missense_Mutation_p.M742I|C9orf93_uc003zmf.1_Missense_Mutation_p.M42I	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	734											0				GBM - Glioblastoma multiforme(50;4.84e-07)		GTGCATTAATGGCTGGTGCCT	0.453													4	33	---	---	---	---	PASS	T	15744423	T	T	15744423	3	4	13	1	0	0	0	0	1	0	0	0	2506	1348	47	3	2264	3	C9orf93	9	15744423	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08		15744423	125469008	226	7570										
TAF1L	138474	broad.mit.edu	37	chr9	32630224	32630224	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcagctggatagcagagaaaGgattgtctccttcttcgtca	10	9	4	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:32630224G>T	uc003zrg.1	-	1	5444	c.5354C>A	c.(5353-5355)CCT>CAT	p.P1785H		NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1785					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		AGCAGAGAAAGGATTGTCTCC	0.458													6	82	---	---	---	---	PASS	T	32630224	T	T	32630224	3	4	13	1	0	0	0	0	1	0	0	0	15520	1000	35	3	130	3	TAF1L	9	32630224	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	16885801	32630224	108583207	227	7571										
CCIN	881	broad.mit.edu	37	chr9	36169849	36169849	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tttcaacacaccacgccttcGagttcactgtaacgacttcc	5	15	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:36169849G>T	uc003zzb.3	+	1	461	c.350G>T	c.(349-351)CGA>CTA	p.R117L		NM_005893	NP_005884	Q13939	CALI_HUMAN	calicin	117	BTB.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			ovary(1)|skin(1)	2			STAD - Stomach adenocarcinoma(86;0.228)			CCACGCCTTCGAGTTCACTGT	0.507													4	63	---	---	---	---	PASS	T	36169849	T	T	36169849	3	4	13	1	0	0	0	0	1	0	0	0	2878	1058	37	2	352	2	CCIN	9	36169849	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	3539625	36169849	105043582	228	7572										
TRPM3	80036	broad.mit.edu	37	chr9	73151043	73151043	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctgatggagaagctcttcctGgtgtgtgcatatggcgcact	13	9	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:73151043G>T	uc004aid.2	-	25	5194	c.4950C>A	c.(4948-4950)ACC>ACA	p.T1650T	TRPM3_uc004ahu.2_Silent_p.T1492T|TRPM3_uc004ahv.2_Silent_p.T1452T|TRPM3_uc004ahw.2_Silent_p.T1522T|TRPM3_uc004ahx.2_Silent_p.T1509T|TRPM3_uc004ahy.2_Silent_p.T1512T|TRPM3_uc004ahz.2_Silent_p.T1499T|TRPM3_uc004aia.2_Silent_p.T1497T|TRPM3_uc004aib.2_Silent_p.T1487T|TRPM3_uc004aic.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1675	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						AGCTCTTCCTGGTGTGTGCAT	0.552													9	217	---	---	---	---	PASS	T	73151043	T	T	73151043	2	4	13	1	0	0	0	0	0	0	0	1	16584	1335	47	3		3	TRPM3	9	73151043	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	36981194	73151043	68062388	229	7573										
TRPM6	140803	broad.mit.edu	37	chr9	77377583	77377583	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	catactttgagtgtgcttgcCtgttaggagacaccccagaa	10	10	0	3	rs147802849		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:77377583C>A	uc004ajl.1	-	26	4242	c.4004G>T	c.(4003-4005)AGG>ATG	p.R1335M	TRPM6_uc004ajk.1_Missense_Mutation_p.R1330M|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajj.1_Missense_Mutation_p.R291M	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1335	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						GTGTGCTTGCCTGTTAGGAGA	0.438													70	59	---	---	---	---	PASS	A	77377583	A	A	77377583	3	1	13	1	0	0	0	0	1	0	0	0	16587	681	24	3	2120	3	TRPM6	9	77377583	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4226540	77377583	63835848	230	7574										
VPS13A	23230	broad.mit.edu	37	chr9	79983004	79983004	+	Frame_Shift_Del	DEL	T	-	-													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaactcaactatcagttccaTacaacatccgatctacagtc							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:79983004delT	uc004akr.2	+	62	8765	c.8505delT	c.(8503-8505)CATfs	p.H2835fs	VPS13A_uc004akp.3_Frame_Shift_Del_p.H2835fs|VPS13A_uc004akq.3_Frame_Shift_Del_p.H2835fs|VPS13A_uc004aks.2_Frame_Shift_Del_p.H2796fs	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2835					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ATCAGTTCCATACAACATCCG	0.323													4	2	---	---	---	---		-	79983004	-	-	79983004	7	5	13	1	0	1	0	1	0	0	0	0	17186	1403	49	0	8751	0	VPS13A	9	79983004	Frame_Shift_Del	DEL	T	TCGA-18-3421-01A-01D-0983-08	2605421	79983004	61230427	231	7575										
FAM22G	441457	broad.mit.edu	37	chr9	99699593	99699593	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	caacgggaaaagggcaaagtGgagcagccgcaggaagagga	17	7	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:99699593G>A	uc004awq.1	+	5	1945	c.1230G>A	c.(1228-1230)GTG>GTA	p.V410V	HIATL2_uc004awr.1_Intron	NM_001045477	NP_001038942	Q5VZR2	FA22G_HUMAN	hypothetical protein LOC441457	410										skin(1)	1		Acute lymphoblastic leukemia(62;0.0527)				AGGGCAAAGTGGAGCAGCCGC	0.592													15	20	---	---	---	---	PASS	A	99699593	A	A	99699593	2	1	13	1	0	0	0	0	0	0	0	1	5546	1335	47	3		3	FAM22G	9	99699593	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	19716589	99699593	41513838	232	7576										
SLC31A1	1317	broad.mit.edu	37	chr9	116021055	116021055	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agcccgagagagcctgctgcGtaagtcacaagtcagcattc	11	12	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:116021055G>T	uc004bgu.2	+	4	470	c.284G>T	c.(283-285)CGT>CTT	p.R95L	FKBP15_uc010muu.1_Intron|SLC31A1_uc004bgv.3_Missense_Mutation_p.R95L	NM_001859	NP_001850	O15431	COPT1_HUMAN	solute carrier family 31 (copper transporters),	95	Cytoplasmic (Potential).					integral to plasma membrane	copper ion transmembrane transporter activity				0						AGCCTGCTGCGTAAGTCACAA	0.448													4	49	---	---	---	---	PASS	T	116021055	T	T	116021055	3	4	13	1	0	0	0	0	1	0	0	0	14563	1145	40	1	294	1	SLC31A1	9	116021055	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	16321462	116021055	25192376	233	7577										
TLR4	7099	broad.mit.edu	37	chr9	120475065	120475065	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccctatgaactttatccaacCaggtgcatttaaagaaatta	5	9	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:120475065C>A	uc004bjz.2	+	3	950	c.659C>A	c.(658-660)CCA>CAA	p.P220Q	TLR4_uc004bka.2_Missense_Mutation_p.P180Q|TLR4_uc004bkb.2_Missense_Mutation_p.P20Q	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	220	LRR 7.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TTTATCCAACCAGGTGCATTT	0.353													19	19	---	---	---	---	PASS	A	120475065	A	A	120475065	3	1	13	1	0	0	0	0	1	0	0	0	15950	594	21	3	669	3	TLR4	9	120475065	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4454010	120475065	20738366	234	7578										
OR1L3	26735	broad.mit.edu	37	chr9	125437632	125437632	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgctgatatttgctacacaaCagtcatagtcccaaagatgc	7	10	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:125437632C>G	uc011lzb.1	+	1	224	c.224C>G	c.(223-225)ACA>AGA	p.T75R		NM_001005234	NP_001005234	Q8NH93	OR1L3_HUMAN	olfactory receptor, family 1, subfamily L,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGCTACACAACAGTCATAGTC	0.398													30	79	---	---	---	---	PASS	G	125437632	G	G	125437632	3	3	13	1	0	0	0	0	1	0	0	0	10964	478	17	4	226	4	OR1L3	9	125437632	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4962567	125437632	15775799	235	7579										
LCN1	3933	broad.mit.edu	37	chr9	138416976	138416976	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cctgtgcttccttttcctgcAgaaacctgctctccagggag	9	14	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:138416976A>G	uc004cfz.1	+	6	564	c.506_splice	c.e6-2	p.E169_splice	LCN1_uc004cga.1_Splice_Site_p.E169_splice	NM_002297	NP_002288	P31025	LCN1_HUMAN	lipocalin 1 precursor						proteolysis|response to stimulus|sensory perception of taste	extracellular region	cysteine-type endopeptidase inhibitor activity|transporter activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.54e-08)|Epithelial(140;5.25e-08)|all cancers(34;9.27e-07)|READ - Rectum adenocarcinoma(205;0.155)		CTTTTCCTGCAGAAACCTGCT	0.567													22	25	---	---	---	---	PASS	G	138416976	G	G	138416976	5	3	13	1	0	0	0	0	0	0	1	0	8680	202	7	5	526	5	LCN1	9	138416976	Splice_Site	SNP	A	TCGA-18-3421-01A-01D-0983-08	12979344	138416976	2796455	236	7580										
INPP5E	56623	broad.mit.edu	37	chr9	139333230	139333230	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agcttgtagtctgcaagatcCgagtcgaccttgtttgctgt	11	9	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:139333230C>A	uc004cho.2	-	1	1027	c.642G>T	c.(640-642)TCG>TCT	p.S214S	INPP5E_uc010nbm.2_Silent_p.S214S	NM_019892	NP_063945	Q9NRR6	INP5E_HUMAN	inositol polyphosphate-5-phosphatase E	214	13 X 4 AA repeats of P-X-X-P.					cilium axoneme|cytoskeleton|Golgi cisterna membrane	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity			skin(1)	1		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.36e-06)|Epithelial(140;1.4e-05)		CTGCAAGATCCGAGTCGACCT	0.731													8	4	---	---	---	---	PASS	A	139333230	A	A	139333230	2	1	13	1	0	0	0	0	0	0	0	1	7757	639	23	1		1	INPP5E	9	139333230	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	916254	139333230	1880201	237	7581										
NELF	26012	broad.mit.edu	37	chr9	140352952	140352952	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcccctacctgcgccgttgcGgttctcagggtgactctggg	14	14	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr9:140352952G>T	uc004cna.2	-	2	353	c.121C>A	c.(121-123)CGC>AGC	p.R41S	C9orf167_uc011mew.1_Intron|NELF_uc010nci.2_5'Flank|NELF_uc011mey.1_5'Flank|NELF_uc011mez.1_Missense_Mutation_p.R41S|NELF_uc004cmz.2_Missense_Mutation_p.R41S|NELF_uc004cnc.2_Missense_Mutation_p.R41S|NELF_uc004cnb.2_Missense_Mutation_p.R41S	NM_001130969	NP_001124441	Q6X4W1	NELF_HUMAN	nasal embryonic LHRH factor isoform a	41						nucleus|plasma membrane					0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000222)|Epithelial(140;0.000888)		GCGCCGTTGCGGTTCTCAGGG	0.692													3	3	---	---	---	---	PASS	T	140352952	T	T	140352952	3	4	13	1	0	0	0	0	1	0	0	0	10332	1116	39	1	1541	1	NELF	9	140352952	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1019722	140352952	860479	238	7582										
GTPBP4	23560	broad.mit.edu	37	chr10	1043236	1043236	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccaaatgttgggaagtccagCttcatcaacaaggttggtct	10	9	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:1043236C>A	uc001ift.2	+	5	620	c.549C>A	c.(547-549)AGC>AGA	p.S183R	GTPBP4_uc010qac.1_5'UTR|GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Missense_Mutation_p.S67R|GTPBP4_uc010qae.1_Missense_Mutation_p.S136R	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	183					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		GGAAGTCCAGCTTCATCAACA	0.458													24	74	---	---	---	---	PASS	A	1043236	A	A	1043236	3	1	13	1	0	0	0	0	1	0	0	0	6882	796	28	3	567	3	GTPBP4	10	1043236	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08		1043236	134491511	239	7583										
SVIL	6840	broad.mit.edu	37	chr10	29812458	29812458	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cagcctgtccctcaagtccaAgtttccttgtgcattcattt	6	13	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:29812458A>C	uc001iut.1	-	15	3838	c.3085T>G	c.(3085-3087)TTG>GTG	p.L1029V	SVIL_uc010qdw.1_5'Flank|SVIL_uc001iuu.1_Missense_Mutation_p.L603V	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1029					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				CTCAAGTCCAAGTTTCCTTGT	0.498													14	19	---	---	---	---	PASS	C	29812458	C	C	29812458	3	2	13	1	0	0	0	0	1	0	0	0	15418	69	3	5	3655	5	SVIL	10	29812458	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	28769222	29812458	105722289	240	7584										
ZNF239	8187	broad.mit.edu	37	chr10	44052891	44052891	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gctttgactgaagttcttacCacactgactacattcgtatt	6	10	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:44052891C>A	uc001jaw.3	-	2	1290	c.637G>T	c.(637-639)GGT>TGT	p.G213C	ZNF239_uc001jax.3_Missense_Mutation_p.G213C|ZNF239_uc009xmj.2_Missense_Mutation_p.G213C|ZNF239_uc009xmk.2_Missense_Mutation_p.G213C	NM_005674	NP_005665	Q16600	ZN239_HUMAN	zinc finger protein 239	213	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|RNA binding|zinc ion binding				0						AAGTTCTTACCACACTGACTA	0.423													5	48	---	---	---	---	PASS	A	44052891	A	A	44052891	3	1	13	1	0	0	0	0	1	0	0	0	17788	594	21	3	743	3	ZNF239	10	44052891	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	14240433	44052891	91481856	241	7585										
LRRC20	55222	broad.mit.edu	37	chr10	72061170	72061170	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	atgtcaaacttgatgagcggCggggcgatcacgcgcacctc	13	12	2	2	rs149319681		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:72061170C>T	uc001jqx.1	-	5	717	c.495G>A	c.(493-495)CCG>CCA	p.P165P	LRRC20_uc001jqy.1_Silent_p.P109P|LRRC20_uc001jqz.1_Silent_p.P115P	NM_207119	NP_997002	Q8TCA0	LRC20_HUMAN	leucine rich repeat containing 20 isoform 1	165	LRR 5.										0						TGATGAGCGGCGGGGCGATCA	0.632													34	15	---	---	---	---	PASS	T	72061170	T	T	72061170	2	4	13	1	0	0	0	0	0	0	0	1	8977	755	27	1		1	LRRC20	10	72061170	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	28008279	72061170	63473577	242	7586										
PTEN	5728	broad.mit.edu	37	chr10	89717678	89717678	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	attcaggacccacacgacggGaagacaagttcatgtacttt	9	10	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:89717678G>T	uc001kfb.2	+	8	1734	c.703G>T	c.(703-705)GAA>TAA	p.E235*		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	235	C2 tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.E235*(4)|p.R55fs*1(4)|p.N212fs*1(2)|p.Y27fs*1(2)|p.G165_*404del(1)|p.?(1)|p.E235fs*9(1)|p.G165_K342del(1)|p.E235fs*25(1)|p.E235G(1)|p.R234fs*9(1)|p.R233fs*20(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		CACACGACGGGAAGACAAGTT	0.418		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			36	24	---	---	---	---	PASS	T	89717678	T	T	89717678	4	4	13	1	0	0	0	0	0	1	0	0	12738	1175	41	2	729	2	PTEN	10	89717678	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	17656508	89717678	45817069	243	7587										
IFIT3	3437	broad.mit.edu	37	chr10	91099511	91099511	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cccatcagcgctactgcaacCttcagaaatataatgggaag	8	11	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:91099511C>A	uc001kgf.2	+	2	1328	c.1099C>A	c.(1099-1101)CTT>ATT	p.L367I	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron|IFIT3_uc001kgg.2_Missense_Mutation_p.L367I	NM_001549	NP_001540	O14879	IFIT3_HUMAN	interferon-induced protein with	367					type I interferon-mediated signaling pathway		protein binding			central_nervous_system(1)	1						CTACTGCAACCTTCAGAAATA	0.433													71	31	---	---	---	---	PASS	A	91099511	A	A	91099511	3	1	13	1	0	0	0	0	1	0	0	0	7524	681	24	3	1114	3	IFIT3	10	91099511	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	1381833	91099511	44435236	244	7588										
KIF20B	9585	broad.mit.edu	37	chr10	91486250	91486250	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aaaggagaattaatcaaaacCaaagaagagttaaaaaagag	8	3	1	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:91486250C>A	uc001kgs.1	+	16	2274	c.2202C>A	c.(2200-2202)ACC>ACA	p.T734T	KIF20B_uc001kgr.1_Silent_p.T694T|KIF20B_uc001kgt.1_5'UTR	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	734	Potential.				cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						TAATCAAAACCAAAGAAGAGT	0.303													4	22	---	---	---	---	PASS	A	91486250	A	A	91486250	2	1	13	1	0	0	0	0	0	0	0	1	8287	581	21	3		3	KIF20B	10	91486250	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	386739	91486250	44048497	245	7589										
SEC31B	25956	broad.mit.edu	37	chr10	102262016	102262016	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cttcaggcttcccaccttcaGgaactgccacagcatctttt	6	15	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:102262016G>T	uc001krc.1	-	11	1507	c.1405C>A	c.(1405-1407)CTG>ATG	p.L469M	SEC31B_uc010qpo.1_Missense_Mutation_p.L468M|SEC31B_uc001krd.1_Translation_Start_Site|SEC31B_uc001krf.1_Translation_Start_Site|SEC31B_uc001kre.1_Translation_Start_Site|SEC31B_uc001krg.1_Missense_Mutation_p.L38M	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B	469					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		CCCACCTTCAGGAACTGCCAC	0.512													7	140	---	---	---	---	PASS	T	102262016	T	T	102262016	3	4	13	1	0	0	0	0	1	0	0	0	13999	991	35	3	2198	3	SEC31B	10	102262016	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	10775766	102262016	33272731	246	7590										
SFXN2	118980	broad.mit.edu	37	chr10	104491932	104491932	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gctgcggccataggcatcacCcaagtagttatttctcggat	10	11	2	0	rs139737561	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:104491932C>A	uc001kwb.2	+	8	844	c.678C>A	c.(676-678)ACC>ACA	p.T226T	SFXN2_uc001kwc.2_Intron|SFXN2_uc001kwd.2_Intron	NM_178858	NP_849189	Q96NB2	SFXN2_HUMAN	sideroflexin 2	226					iron ion homeostasis	integral to membrane	cation transmembrane transporter activity				0		Colorectal(252;0.207)		Epithelial(162;4.53e-09)|all cancers(201;1.2e-07)|BRCA - Breast invasive adenocarcinoma(275;0.218)		TAGGCATCACCCAAGTAGTTA	0.532													6	92	---	---	---	---	PASS	A	104491932	A	A	104491932	2	1	13	1	0	0	0	0	0	0	0	1	14195	610	22	3		3	SFXN2	10	104491932	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	2229916	104491932	31042815	247	7591										
CNNM2	54805	broad.mit.edu	37	chr10	104679115	104679115	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gctgcgcatcgtgcagaactGcggcacggagaaggagaaga	16	9	0	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:104679115G>T	uc001kwm.2	+	1	1002	c.878G>T	c.(877-879)TGC>TTC	p.C293F	CNNM2_uc001kwn.2_Missense_Mutation_p.C293F|CNNM2_uc001kwl.2_Missense_Mutation_p.C293F	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	293	DUF21.				ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		GTGCAGAACTGCGGCACGGAG	0.622													26	17	---	---	---	---	PASS	T	104679115	T	T	104679115	3	4	13	1	0	0	0	0	1	0	0	0	3613	1319	46	3	880	3	CNNM2	10	104679115	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	187183	104679115	30855632	248	7592										
C10orf79	80217	broad.mit.edu	37	chr10	105903234	105903234	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgtcatgcagaaatgattccAgaccaaagggtccaagcctt	9	10	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:105903234A>C	uc001kxw.2	-	32	4224	c.4108T>G	c.(4108-4110)TGG>GGG	p.W1370G	C10orf79_uc009xxq.2_Missense_Mutation_p.W649G	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1370											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		AAATGATTCCAGACCAAAGGG	0.343													11	33	---	---	---	---	PASS	C	105903234	C	C	105903234	3	2	13	1	0	0	0	0	1	0	0	0	1618	188	7	5	917	5	C10orf79	10	105903234	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	1224119	105903234	29631513	249	7593										
CCDC147	159686	broad.mit.edu	37	chr10	106152087	106152087	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agattaaattaaaacagcaaCagaacctatatgaagctgtg	7	6	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:106152087C>G	uc001kyh.2	+	10	1596	c.1462C>G	c.(1462-1464)CAG>GAG	p.Q488E		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	488	Potential.									ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		AAAACAGCAACAGAACCTATA	0.323													10	82	---	---	---	---	PASS	G	106152087	G	G	106152087	3	3	13	1	0	0	0	0	1	0	0	0	2781	479	17	4	1500	4	CCDC147	10	106152087	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	248853	106152087	29382660	250	7594										
AFAP1L2	84632	broad.mit.edu	37	chr10	116075338	116075338	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccagaagcctgttgtccttgAtgacacagagctgcttggcc	11	12	0	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:116075338A>G	uc001lbn.2	-	6	894	c.593T>C	c.(592-594)ATC>ACC	p.I198T	AFAP1L2_uc001lbo.2_Missense_Mutation_p.I198T|AFAP1L2_uc010qse.1_Missense_Mutation_p.I251T|AFAP1L2_uc001lbp.2_Missense_Mutation_p.I226T|AFAP1L2_uc001lbr.1_Missense_Mutation_p.I198T	NM_001001936	NP_001001936	Q8N4X5	AF1L2_HUMAN	KIAA1914 protein isoform 1	198	PH 1.				inflammatory response|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of transcription, DNA-dependent|regulation of interleukin-6 production|regulation of mitotic cell cycle	cytoplasm	protein tyrosine kinase activator activity|SH2 domain binding|SH3 domain binding			ovary(1)|breast(1)	2		Colorectal(252;0.175)|Breast(234;0.231)		Epithelial(162;0.0219)|all cancers(201;0.0561)		GTTGTCCTTGATGACACAGAG	0.632													5	31	---	---	---	---	PASS	G	116075338	G	G	116075338	3	3	13	1	0	0	0	0	1	0	0	0	355	333	12	5	1919	5	AFAP1L2	10	116075338	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	9923251	116075338	19459409	251	7595										
FOXI2	399823	broad.mit.edu	37	chr10	129537185	129537185	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agaccgcggccgccggcttcCgcctcagtcacctcctctac	9	20	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:129537185C>G	uc009yas.2	+	2	913	c.913C>G	c.(913-915)CGC>GGC	p.R305G	uc009yar.1_5'Flank	NM_207426	NP_997309	Q6ZQN5	FOXI2_HUMAN	forkhead box I2	305					epidermal cell fate specification|otic placode formation|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0		all_epithelial(44;0.0021)|all_lung(145;0.0586)|Lung NSC(174;0.0765)|all_neural(114;0.201)|Glioma(114;0.222)				CGCCGGCTTCCGCCTCAGTCA	0.697													3	1	---	---	---	---	PASS	G	129537185	G	G	129537185	3	3	13	1	0	0	0	0	1	0	0	0	6010	652	23	4	919	4	FOXI2	10	129537185	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	13461847	129537185	5997562	252	7596										
JAKMIP3	282973	broad.mit.edu	37	chr10	133976837	133976837	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggccgtggagcagtggaagcGccaggtcatgagtgagctgc	18	9	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr10:133976837G>T	uc001lkx.3	+	19	2339	c.2339G>T	c.(2338-2340)CGC>CTC	p.R780L	JAKMIP3_uc009yba.1_Missense_Mutation_p.R217L	NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CAGTGGAAGCGCCAGGTCATG	0.672													3	10	---	---	---	---	PASS	T	133976837	T	T	133976837	3	4	13	1	0	0	0	0	1	0	0	0	7942	1087	38	1	2413	1	JAKMIP3	10	133976837	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	4439652	133976837	1557910	253	7597										
SYT9	143425	broad.mit.edu	37	chr11	7324382	7324382	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gttccgtggcgagaacgaggCctgccctctggtagcaaaga	14	11	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:7324382C>T	uc001mfe.2	+	2	495	c.258C>T	c.(256-258)GGC>GGT	p.G86G	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_RNA	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	86	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		GAGAACGAGGCCTGCCCTCTG	0.552													19	65	---	---	---	---	PASS	T	7324382	T	T	7324382	2	4	13	1	0	0	0	0	0	0	0	1	15478	726	26	3		3	SYT9	11	7324382	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08		7324382	127682134	254	7598										
OR5P2	120065	broad.mit.edu	37	chr11	7818198	7818198	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgcaaagaaagccgctgaacCaagctggatggcacatccaa	10	11	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:7818198C>A	uc001mfp.1	-	1	292	c.292G>T	c.(292-294)GGT>TGT	p.G98C		NM_153444	NP_703145	Q8WZ92	OR5P2_HUMAN	olfactory receptor, family 5, subfamily P,	98	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GCCGCTGAACCAAGCTGGATG	0.488													18	92	---	---	---	---	PASS	A	7818198	A	A	7818198	3	1	13	1	0	0	0	0	1	0	0	0	11178	594	21	3	680	3	OR5P2	11	7818198	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	493816	7818198	127188318	255	7599										
ST5	6764	broad.mit.edu	37	chr11	8737260	8737260	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	actcagctgagccagcagcaGcatgtcgtcatggctgtgcc	12	13	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:8737260G>A	uc001mgt.2	-	6	1921	c.1735C>T	c.(1735-1737)CTG>TTG	p.L579L	ST5_uc009yfr.2_Silent_p.L159L|ST5_uc001mgu.2_Silent_p.L159L|ST5_uc001mgv.2_Silent_p.L579L|ST5_uc010rbq.1_RNA|ST5_uc010rbp.1_Silent_p.L92L	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	579					positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		GCCAGCAGCAGCATGTCGTCA	0.637													13	19	---	---	---	---	PASS	A	8737260	A	A	8737260	2	1	13	1	0	0	0	0	0	0	0	1	15219	962	34	3		3	ST5	11	8737260	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	919062	8737260	126269256	256	7600										
MRVI1	10335	broad.mit.edu	37	chr11	10651189	10651189	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcagcgccaggtttttcttcTtgtcctcctctgagatgctg	10	12	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:10651189T>C	uc010rcc.1	-	5	856	c.470A>G	c.(469-471)AAG>AGG	p.K157R	MRVI1_uc001miw.2_Missense_Mutation_p.K148R|MRVI1_uc010rcb.1_Missense_Mutation_p.K148R|MRVI1_uc009ygb.1_5'UTR|MRVI1_uc001mix.2_5'UTR|MRVI1_uc001miz.2_Missense_Mutation_p.K66R|MRVI1_uc009ygc.1_Missense_Mutation_p.K66R|MRVI1_uc010rcd.1_Missense_Mutation_p.K157R|MRVI1_uc009ygd.1_5'UTR|MRVI1_uc010rce.1_RNA	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	148	Interaction with PRKG1 (By similarity).				platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum				ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		GTTTTTCTTCTTGTCCTCCTC	0.597													4	13	---	---	---	---	PASS	C	10651189	C	C	10651189	3	2	13	1	0	0	0	0	1	0	0	0	9853	1609	56	5	2336	5	MRVI1	11	10651189	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	1913929	10651189	124355327	257	7601										
ABCC8	6833	broad.mit.edu	37	chr11	17415307	17415307	+	Splice_Site	SNP	C	A	A													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	accttttggaggatgttttcCtgccaagtgggggcaacagc							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:17415307C>A	uc001mnc.2	-	38	4672	c.4546_splice	c.e38-1	p.E1516_splice		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8						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)	GGATGTTTTCCTGCCAAGTGG	0.617													25	48	---	---	---	---	PASS	A	17415307	A	A	17415307	5	1	13	1	0	0	0	0	0	0	1	0	58	695	24	3	208	3	ABCC8	11	17415307	Splice_Site	SNP	C	TCGA-18-3421-01A-01D-0983-08	6764118	17415307	117591209	258	7602	234	2								
ABCC8	6833	broad.mit.edu	37	chr11	17415308	17415308	+	Splice_Site	SNP	T	A	A													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccttttggaggatgttttccTgccaagtgggggcaacagct							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:17415308T>A	uc001mnc.2	-	38	4672	c.4546_splice	c.e38-1	p.E1516_splice		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8						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)	GATGTTTTCCTGCCAAGTGGG	0.617													24	48	---	---	---	---	PASS	A	17415308	A	A	17415308	5	1	13	1	0	0	0	0	0	0	1	0	58	1594	55	5	209	5	ABCC8	11	17415308	Splice_Site	SNP	T	TCGA-18-3421-01A-01D-0983-08	1	17415308	117591208	259	7603	234	2								
MYOD1	4654	broad.mit.edu	37	chr11	17741532	17741532	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcactcgcacttccccgcggCggtgcacccggccccgggcg	14	20	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:17741532C>A	uc001mni.2	+	1	423	c.203C>A	c.(202-204)GCG>GAG	p.A68E		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	68					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						TTCCCCGCGGCGGTGCACCCG	0.721													3	3	---	---	---	---	PASS	A	17741532	A	A	17741532	3	1	13	1	0	0	0	0	1	0	0	0	10088	768	27	1	205	1	MYOD1	11	17741532	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	326224	17741532	117264984	260	7604										
TSG101	7251	broad.mit.edu	37	chr11	18536390	18536390	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggaatattgtatgtattaccTgaaaaagaaatagaaacttc	7	4	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:18536390T>G	uc001mor.2	-	4	320	c.194_splice	c.e4-1	p.G65_splice	TSG101_uc001mos.1_Splice_Site_p.G13_splice|TSG101_uc009yhs.1_Intron	NM_006292	NP_006283	Q99816	TS101_HUMAN	tumor susceptibility gene 101						cell division|cellular membrane organization|endosome transport|interspecies interaction between organisms|non-lytic virus budding|protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	early endosome|late endosome membrane|multivesicular body|nucleolus|plasma membrane	calcium-dependent protein binding|DNA binding|transcription corepressor activity|ubiquitin binding|ubiquitin protein ligase binding				0						ATGTATTACCTGAAAAAGAAA	0.294													14	33	---	---	---	---	PASS	G	18536390	G	G	18536390	5	3	13	1	0	0	0	0	0	0	1	0	16613	1594	55	5	1008	5	TSG101	11	18536390	Splice_Site	SNP	T	TCGA-18-3421-01A-01D-0983-08	794858	18536390	116470126	261	7605										
C11orf41	25758	broad.mit.edu	37	chr11	33564293	33564293	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gatcaaagctggggtgcctgGaagagtgcacaatggggtgt	17	6	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:33564293G>T	uc001mup.3	+	1	417	c.293G>T	c.(292-294)GGA>GTA	p.G98V	C11orf41_uc001mun.1_Missense_Mutation_p.G98V	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	98						integral to membrane				ovary(2)	2						GGGGTGCCTGGAAGAGTGCAC	0.527													12	18	---	---	---	---	PASS	T	33564293	T	T	33564293	3	4	13	1	0	0	0	0	1	0	0	0	1640	1174	41	2	295	2	C11orf41	11	33564293	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	15027903	33564293	101442223	262	7606										
CD44	960	broad.mit.edu	37	chr11	35227670	35227670	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tggtcacagcagcctcagctCataccagccatccaatgcaa	7	15	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:35227670C>T	uc001mvu.2	+	11	1728	c.1294C>T	c.(1294-1296)CAT>TAT	p.H432Y	CD44_uc001mvv.2_Missense_Mutation_p.H389Y|CD44_uc001mvw.2_Intron|CD44_uc001mvx.2_Intron|CD44_uc001mvy.2_Intron|CD44_uc001mwc.3_Intron|CD44_uc010rer.1_Intron|CD44_uc009ykh.2_Intron|CD44_uc010res.1_5'UTR|CD44_uc010ret.1_Intron|CD44_uc010reu.1_Intron	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	432	Extracellular (Potential).|Stem.				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	all_cancers(35;0.212)|all_lung(20;0.0874)|all_epithelial(35;0.112)	all_hematologic(20;0.107)	STAD - Stomach adenocarcinoma(6;0.00731)		Hyaluronidase(DB00070)	AGCCTCAGCTCATACCAGCCA	0.458													11	37	---	---	---	---	PASS	T	35227670	T	T	35227670	3	4	13	1	0	0	0	0	1	0	0	0	3017	826	29	2	1336	2	CD44	11	35227670	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	1663377	35227670	99778846	263	7607										
OR4B1	119765	broad.mit.edu	37	chr11	48238439	48238439	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gctgtgcagagtgtatgcttTgtggtgtttctccccgtgta	13	8	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:48238439T>A	uc010rhs.1	+	1	78	c.78T>A	c.(76-78)TTT>TTA	p.F26L		NM_001005470	NP_001005470	Q8NGF8	OR4B1_HUMAN	olfactory receptor, family 4, subfamily B,	26	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|pancreas(1)	4						GTGTATGCTTTGTGGTGTTTC	0.498													9	56	---	---	---	---	PASS	A	48238439	A	A	48238439	3	1	13	1	0	0	0	0	1	0	0	0	11044	1809	63	5	80	5	OR4B1	11	48238439	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	13010769	48238439	86768077	264	7608										
OR4C13	283092	broad.mit.edu	37	chr11	49974618	49974618	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctgtctcttgctcctggtctCctgcgtggtcatactgtact	9	13	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:49974618C>T	uc010rhz.1	+	1	644	c.644C>T	c.(643-645)TCC>TTC	p.S215F		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						CTCCTGGTCTCCTGCGTGGTC	0.488													21	30	---	---	---	---	PASS	T	49974618	T	T	49974618	3	4	13	1	0	0	0	0	1	0	0	0	11047	855	30	2	646	2	OR4C13	11	49974618	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	1736179	49974618	85031898	265	7609										
OR4C6	219432	broad.mit.edu	37	chr11	55433437	55433437	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cctgtggtcactcaccccatAgacaaggcaatggctgtgtc	10	13	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:55433437A>T	uc001nht.3	+	3	1060	c.795A>T	c.(793-795)ATA>ATT	p.I265I	OR4C6_uc010rik.1_Silent_p.I265I	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CTCACCCCATAGACAAGGCAA	0.473													11	90	---	---	---	---	PASS	T	55433437	T	T	55433437	2	4	13	1	0	0	0	0	0	0	0	1	11052	410	15	5		5	OR4C6	11	55433437	Silent	SNP	A	TCGA-18-3421-01A-01D-0983-08	5458819	55433437	79573079	266	7610										
OR5L2	26338	broad.mit.edu	37	chr11	55595379	55595379	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcaccactatcctgaagataCactctgcagagagcaggcac	8	13	2	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:55595379C>T	uc001nhy.1	+	1	685	c.685C>T	c.(685-687)CAC>TAC	p.H229Y		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				CCTGAAGATACACTCTGCAGA	0.493										HNSCC(27;0.073)			28	42	---	---	---	---	PASS	T	55595379	T	T	55595379	3	4	13	1	0	0	0	0	1	0	0	0	11171	478	17	3	687	3	OR5L2	11	55595379	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	161942	55595379	79411137	267	7611										
OR5I1	10798	broad.mit.edu	37	chr11	55703717	55703717	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gggggtttgaaggtgaggatCaatcctgatcaacagcatca	13	7	3	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:55703717C>T	uc010ris.1	-	1	160	c.160G>A	c.(160-162)GAT>AAT	p.D54N		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AGGTGAGGATCAATCCTGATC	0.398													5	12	---	---	---	---	PASS	T	55703717	T	T	55703717	3	4	13	1	0	0	0	0	1	0	0	0	11164	826	29	2	787	2	OR5I1	11	55703717	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	108338	55703717	79302799	268	7612										
OR8I2	120586	broad.mit.edu	37	chr11	55861574	55861574	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctatttgcaacctgataacaCatcatcgctgacccaggcgc	7	14	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:55861574C>T	uc010rix.1	+	1	791	c.791C>T	c.(790-792)ACA>ATA	p.T264I		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					CCTGATAACACATCATCGCTG	0.478													9	35	---	---	---	---	PASS	T	55861574	T	T	55861574	3	4	13	1	0	0	0	0	1	0	0	0	11240	478	17	3	793	3	OR8I2	11	55861574	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	157857	55861574	79144942	269	7613										
OR9G4	283189	broad.mit.edu	37	chr11	56510796	56510796	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcattcaaaaatcctcctatGtaggagccagcaacaagccc	7	13	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:56510796G>A	uc010rjo.1	-	1	492	c.492C>T	c.(490-492)TAC>TAT	p.Y164Y		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	164	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						ATCCTCCTATGTAGGAGCCAG	0.463													37	50	---	---	---	---	PASS	A	56510796	A	A	56510796	2	1	13	1	0	0	0	0	0	0	0	1	11251	1372	48	3		3	OR9G4	11	56510796	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	649222	56510796	78495720	270	7614										
OR5B2	390190	broad.mit.edu	37	chr11	58190505	58190505	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggaacccagccatgaccttgGgagtgacagctgaggagtat	14	9	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:58190505G>T	uc010rkg.1	-	1	230	c.230C>A	c.(229-231)CCC>CAC	p.P77H		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	77	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CATGACCTTGGGAGTGACAGC	0.488													6	78	---	---	---	---	PASS	T	58190505	T	T	58190505	3	4	13	1	0	0	0	0	1	0	0	0	11150	1232	43	3	703	3	OR5B2	11	58190505	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1679709	58190505	76816011	271	7615										
OR4D11	219986	broad.mit.edu	37	chr11	59271511	59271511	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cttggatggggggctttgtcCactccatcgtgcagatctcc	12	12	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:59271511C>T	uc001noa.1	+	1	463	c.463C>T	c.(463-465)CAC>TAC	p.H155Y		NM_001004706	NP_001004706	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GGGCTTTGTCCACTCCATCGT	0.547													30	61	---	---	---	---	PASS	T	59271511	T	T	59271511	3	4	13	1	0	0	0	0	1	0	0	0	11055	594	21	3	465	3	OR4D11	11	59271511	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	1081006	59271511	75735005	272	7616										
MS4A6E	245802	broad.mit.edu	37	chr11	60102454	60102454	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccaagcagagaaacccgaacCcaccaaccaggggcaggata	10	14	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:60102454C>A	uc001npd.2	+	1	100	c.86C>A	c.(85-87)CCC>CAC	p.P29H		NM_139249	NP_640342	Q96DS6	M4A6E_HUMAN	membrane-spanning 4-domains, subfamily A, member	29	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						AAACCCGAACCCACCAACCAG	0.453													9	86	---	---	---	---	PASS	A	60102454	A	A	60102454	3	1	13	1	0	0	0	0	1	0	0	0	9865	623	22	3	88	3	MS4A6E	11	60102454	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	830943	60102454	74904062	273	7617										
PRPF19	27339	broad.mit.edu	37	chr11	60665636	60665636	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttgcgcagatcccagagcttGacagaggagtcatcagccgc	12	12	2	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:60665636G>C	uc001nqf.2	-	14	1455	c.1248C>G	c.(1246-1248)GTC>GTG	p.V416V		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	416	WD 5.				DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						CCCAGAGCTTGACAGAGGAGT	0.532													12	43	---	---	---	---	PASS	C	60665636	C	C	60665636	2	2	13	1	0	0	0	0	0	0	0	1	12564	1277	45	2		2	PRPF19	11	60665636	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	563182	60665636	74340880	274	7618										
C11orf10	746	broad.mit.edu	37	chr11	61557389	61557389	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtacttggtagaggtgacctCgtaactgggcacagcagtta	13	8	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:61557389C>A	uc001nsf.2	-	3	173	c.118G>T	c.(118-120)GAG>TAG	p.E40*	FEN1_uc001nsg.2_5'Flank	NM_014206	NP_055021	P61165	CK010_HUMAN	hypothetical protein LOC746	40						integral to membrane				breast(1)	1						GAGGTGACCTCGTAACTGGGC	0.527													4	36	---	---	---	---	PASS	A	61557389	A	A	61557389	4	1	13	1	0	0	0	0	0	1	0	0	1630	893	31	2	125	2	C11orf10	11	61557389	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	891753	61557389	73449127	275	7619										
MTA2	9219	broad.mit.edu	37	chr11	62361826	62361826	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggctgtgagcttgaacgaatCcctgaagccagaggccttcc	12	12	0	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:62361826C>G	uc001ntq.1	-	17	2127	c.1746G>C	c.(1744-1746)GGG>GGC	p.G582G	TUT1_uc001nto.2_5'Flank|MTA2_uc010rlx.1_Silent_p.G409G	NM_004739	NP_004730	O94776	MTA2_HUMAN	metastasis-associated protein 2	582					chromatin assembly or disassembly	NuRD complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TTGAACGAATCCCTGAAGCCA	0.552													5	49	---	---	---	---	PASS	G	62361826	G	G	62361826	2	3	13	1	0	0	0	0	0	0	0	1	9909	842	30	2		2	MTA2	11	62361826	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	804437	62361826	72644690	276	7620										
PYGM	5837	broad.mit.edu	37	chr11	64521495	64521495	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtcctcactgtcacatcccaCgcctggcacacggggtgggc	12	16	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:64521495C>A	uc001oax.3	-	10	1912	c.1095G>T	c.(1093-1095)GCG>GCT	p.A365A	PYGM_uc001oay.3_Silent_p.A277A	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	365					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	TCACATCCCACGCCTGGCACA	0.672													4	4	---	---	---	---	PASS	A	64521495	A	A	64521495	2	1	13	1	0	0	0	0	0	0	0	1	12862	523	19	1		1	PYGM	11	64521495	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	2159669	64521495	70485021	277	7621										
TIGD3	220359	broad.mit.edu	37	chr11	65123451	65123451	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ataaggagaagctgctggcgGactggtgcagcggcacagcc	16	10	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:65123451G>T	uc001odo.3	+	2	335	c.172G>T	c.(172-174)GAC>TAC	p.D58Y		NM_145719	NP_663771	Q6B0B8	TIGD3_HUMAN	tigger transposable element derived 3	58					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						GCTGCTGGCGGACTGGTGCAG	0.627													13	69	---	---	---	---	PASS	T	65123451	T	T	65123451	3	4	13	1	0	0	0	0	1	0	0	0	15894	1174	41	2	174	2	TIGD3	11	65123451	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	601956	65123451	69883065	278	7622										
RELA	5970	broad.mit.edu	37	chr11	65422461	65422461	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agggatgacgtaaagggataGggctggggtgctggaggaga	21	3	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:65422461G>T	uc001ofg.2	-	11	1184	c.1044C>A	c.(1042-1044)CCC>CCA	p.P348P	RELA_uc001ofh.2_Silent_p.P345P|RELA_uc010ron.1_Silent_p.P359P|RELA_uc009yqr.2_Silent_p.P295P|RELA_uc001ofe.2_3'UTR|RELA_uc001off.2_Silent_p.P348P	NM_021975	NP_068810	Q04206	TF65_HUMAN	v-rel reticuloendotheliosis viral oncogene	348					anti-apoptosis|cellular defense response|cytokine-mediated signaling pathway|defense response to virus|inflammatory response|innate immune response|interspecies interaction between organisms|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription, DNA-dependent|nerve growth factor receptor signaling pathway|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of inflammatory response|response to interleukin-1|response to UV-B|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|transcription factor complex	activating transcription factor binding|chromatin binding|identical protein binding|NF-kappaB binding|phosphate binding|protein kinase binding|protein N-terminus binding|repressing transcription factor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding			lung(3)|ovary(1)	4						TAAAGGGATAGGGCTGGGGTG	0.512													4	5	---	---	---	---	PASS	T	65422461	T	T	65422461	2	4	13	1	0	0	0	0	0	0	0	1	13216	987	35	3		3	RELA	11	65422461	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	299010	65422461	69584055	279	7623										
CTSF	8722	broad.mit.edu	37	chr11	66333159	66333159	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tacccaaattctttatggccGagtaggcattggagggcaag	12	8	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:66333159G>T	uc001oip.2	-	8	1118	c.1028C>A	c.(1027-1029)TCG>TAG	p.S343*		NM_003793	NP_003784	Q9UBX1	CATF_HUMAN	cathepsin F precursor	343					proteolysis	lysosome	cysteine-type endopeptidase activity				0						CTTTATGGCCGAGTAGGCATT	0.542													6	118	---	---	---	---	PASS	T	66333159	T	T	66333159	4	4	13	1	0	0	0	0	0	1	0	0	4034	1059	37	2	450	2	CTSF	11	66333159	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	910698	66333159	68673357	280	7624										
LRP5	4041	broad.mit.edu	37	chr11	68190986	68190986	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttgacctctctgagccaaggCcaaaacccagacaggcagcc	9	15	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:68190986C>G	uc001ont.2	+	14	3132	c.3057C>G	c.(3055-3057)GGC>GGG	p.G1019G	LRP5_uc009ysg.2_Silent_p.G429G	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1019	Beta-propeller 4.|LDL-receptor class B 16.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						TGAGCCAAGGCCAAAACCCAG	0.587													20	76	---	---	---	---	PASS	G	68190986	G	G	68190986	2	3	13	1	0	0	0	0	0	0	0	1	8960	726	26	4		4	LRP5	11	68190986	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	1857827	68190986	66815530	281	7625										
C2CD3	26005	broad.mit.edu	37	chr11	73834143	73834143	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tggggaatctggaggagagcCtagcccatcccagaaattgc	13	10	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:73834143C>A	uc001ouu.2	-	8	1482	c.1255G>T	c.(1255-1257)GGC>TGC	p.G419C	C2CD3_uc001ouv.2_Missense_Mutation_p.G419C	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	419						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					GGAGGAGAGCCTAGCCCATCC	0.423													12	12	---	---	---	---	PASS	A	73834143	A	A	73834143	3	1	13	1	0	0	0	0	1	0	0	0	2154	681	24	3	4732	3	C2CD3	11	73834143	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	5643157	73834143	61172373	282	7626										
ODZ4	26011	broad.mit.edu	37	chr11	78413354	78413354	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cgacaatgcgcacctggtggTtttcagagatttgcaggacc	12	10	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:78413354T>C	uc001ozl.3	-	28	4767	c.4304A>G	c.(4303-4305)AAC>AGC	p.N1435S	ODZ4_uc009yvb.1_Missense_Mutation_p.N19S	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1435	Extracellular (Potential).|NHL 4.				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CACCTGGTGGTTTTCAGAGAT	0.557													25	35	---	---	---	---	PASS	C	78413354	C	C	78413354	3	2	13	1	0	0	0	0	1	0	0	0	10837	1725	60	5	4033	5	ODZ4	11	78413354	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	4579211	78413354	56593162	283	7627										
FAT3	120114	broad.mit.edu	37	chr11	92085865	92085865	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	caatggagaattctactactActttaaaaataaagttgatc	5	6	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:92085865A>T	uc001pdj.3	+	1	604	c.587A>T	c.(586-588)TAC>TTC	p.Y196F		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	196	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TTCTACTACTACTTTAAAAAT	0.398										TCGA Ovarian(4;0.039)			17	39	---	---	---	---	PASS	T	92085865	T	T	92085865	3	4	13	1	0	0	0	0	1	0	0	0	5691	391	14	5	589	5	FAT3	11	92085865	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	13672511	92085865	42920651	284	7628										
CARD18	59082	broad.mit.edu	37	chr11	105009762	105009762	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcatttattgtgcctgcaccCactgaatggataaaaattct	7	9	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:105009762C>A	uc001pis.2	-	1	51	c.45G>T	c.(43-45)GTG>GTT	p.V15V		NM_021571	NP_067546	P57730	CAR18_HUMAN	ICEBERG caspase-1 inhibitor	17	CARD.				inflammatory response|regulation of apoptosis	intracellular	cysteine-type endopeptidase inhibitor activity			ovary(1)|central_nervous_system(1)	2						TGCCTGCACCCACTGAATGGA	0.388													17	21	---	---	---	---	PASS	A	105009762	A	A	105009762	2	1	13	1	0	0	0	0	0	0	0	1	2649	581	21	3		3	CARD18	11	105009762	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	12923897	105009762	29996754	285	7629										
NCAM1	4684	broad.mit.edu	37	chr11	113078556	113078556	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcatttctacatgctctaggGatggggaacagatagagcaa	12	7	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:113078556G>T	uc009yyq.1	+	7	1088	c.394G>T	c.(394-396)GAT>TAT	p.D132Y	NCAM1_uc001pno.2_Missense_Mutation_p.D132Y	NM_001076682	NP_001070150	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1 isoform 3	250	Ig-like C2-type 3.|Extracellular (Potential).				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		ATGCTCTAGGGATGGGGAACA	0.428													8	32	---	---	---	---	PASS	T	113078556	T	T	113078556	3	4	13	1	0	0	0	0	1	0	0	0	10202	1188	41	2	775	2	NCAM1	11	113078556	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	8068794	113078556	21927960	286	7630										
OR8B12	219858	broad.mit.edu	37	chr11	124413497	124413497	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gggatccgcagtcccggctgGtgggttaagccttcgaggat	16	10	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:124413497G>C	uc010sam.1	-	1	54	c.54C>G	c.(52-54)CAC>CAG	p.H18Q		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		GTCCCGGCTGGTGGGTTAAGC	0.542													3	29	---	---	---	---	PASS	C	124413497	C	C	124413497	3	2	13	1	0	0	0	0	1	0	0	0	11226	1252	44	4	880	4	OR8B12	11	124413497	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	11334941	124413497	10593019	287	7631										
PANX3	116337	broad.mit.edu	37	chr11	124487218	124487218	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccttgctcatgtacctgccgGtgctgctgtggcagtatgca	12	12	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:124487218G>A	uc001qah.2	+	3	373	c.373G>A	c.(373-375)GTG>ATG	p.V125M		NM_052959	NP_443191	Q96QZ0	PANX3_HUMAN	pannexin 3	125	Helical; (Potential).				protein hexamerization	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0219)		GTACCTGCCGGTGCTGCTGTG	0.627													4	7	---	---	---	---	PASS	A	124487218	A	A	124487218	3	1	13	1	0	0	0	0	1	0	0	0	11422	1261	44	3	383	3	PANX3	11	124487218	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	73721	124487218	10519298	288	7632										
ST3GAL4	6484	broad.mit.edu	37	chr11	126279302	126279302	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcaacagccacggaagattaAgcaggtgatgatgggaagtc	14	7	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr11:126279302A>C	uc001qds.2	+	9	986	c.767A>C	c.(766-768)AAG>ACG	p.K256T	ST3GAL4_uc001qdt.2_Missense_Mutation_p.K252T|ST3GAL4_uc009zcc.2_Missense_Mutation_p.K92T|ST3GAL4_uc009zcd.2_Missense_Mutation_p.K245T|ST3GAL4_uc001qdu.2_Missense_Mutation_p.K252T|ST3GAL4_uc001qdv.2_Missense_Mutation_p.K256T|ST3GAL4_uc009zce.2_Missense_Mutation_p.K252T|ST3GAL4_uc001qdw.2_Missense_Mutation_p.K245T|ST3GAL4_uc001qdx.1_Missense_Mutation_p.K213T|ST3GAL4_uc001qdy.2_Missense_Mutation_p.K92T|ST3GAL4_uc001qdz.2_Missense_Mutation_p.K92T	NM_006278	NP_006269	Q11206	SIA4C_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	256	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.138)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0767)		CGGAAGATTAAGCAGGTGATG	0.517													38	51	---	---	---	---	PASS	C	126279302	C	C	126279302	3	2	13	1	0	0	0	0	1	0	0	0	15216	72	3	5	785	5	ST3GAL4	11	126279302	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	1792084	126279302	8727214	289	7633										
PARP11	57097	broad.mit.edu	37	chr12	3921356	3921356	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aaaccacaaagatctttgggTtccaggtatcatccacacag	7	11	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:3921356T>A	uc001qmk.1	-	7	984	c.929A>T	c.(928-930)AAC>ATC	p.N310I	PARP11_uc001qml.2_Missense_Mutation_p.N317I|PARP11_uc009zef.2_RNA|PARP11_uc001qmm.2_Missense_Mutation_p.N236I|PARP11_uc001qmn.2_Missense_Mutation_p.N236I	NM_020367	NP_065100	Q9NR21	PAR11_HUMAN	poly (ADP-ribose) polymerase family, member 11	310	PARP catalytic.						NAD+ ADP-ribosyltransferase activity			ovary(1)|central_nervous_system(1)	2			all cancers(3;1.58e-07)|OV - Ovarian serous cystadenocarcinoma(31;0.00287)|GBM - Glioblastoma multiforme(3;0.0141)|COAD - Colon adenocarcinoma(12;0.0264)			GATCTTTGGGTTCCAGGTATC	0.413													11	84	---	---	---	---	PASS	A	3921356	A	A	3921356	3	1	13	1	0	0	0	0	1	0	0	0	11456	1725	60	5	70	5	PARP11	12	3921356	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08		3921356	129930539	290	7634										
AKAP3	10566	broad.mit.edu	37	chr12	4737745	4737745	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gttgggccctggggccctggCaaggaatctctttgtgagtc	15	10	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:4737745C>A	uc001qnb.3	-	4	552	c.323G>T	c.(322-324)TGC>TTC	p.C108F		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	108					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						GGGGCCCTGGCAAGGAATCTC	0.498													16	28	---	---	---	---	PASS	A	4737745	A	A	4737745	3	1	13	1	0	0	0	0	1	0	0	0	452	710	25	3	2246	3	AKAP3	12	4737745	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	816389	4737745	129114150	291	7635										
VWF	7450	broad.mit.edu	37	chr12	6125817	6125817	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cactgacacctgagtgagacGaggccctaaacggaacgaga	12	11	0	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:6125817G>T	uc001qnn.1	-	30	5426	c.5176C>A	c.(5176-5178)CGT>AGT	p.R1726S	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1726	VWFA 3; main binding site for collagens type I and III.				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)	TGAGTGAGACGAGGCCCTAAA	0.527													4	72	---	---	---	---	PASS	T	6125817	T	T	6125817	3	4	13	1	0	0	0	0	1	0	0	0	17243	1058	37	2	3357	2	VWF	12	6125817	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1388072	6125817	127726078	292	7636										
NOP2	4839	broad.mit.edu	37	chr12	6675952	6675952	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cccacacttacctctttcgaGcacgactagacagcctcttg	6	16	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:6675952G>A	uc001qpk.1	-	2	184	c.140C>T	c.(139-141)GCT>GTT	p.A47V	NOP2_uc001qph.1_Missense_Mutation_p.A47V|NOP2_uc001qpi.1_Missense_Mutation_p.A47V|NOP2_uc001qpj.1_Intron|NOP2_uc001qpl.1_Missense_Mutation_p.A47V|NOP2_uc001qpm.1_Missense_Mutation_p.A47V			P46087	NOP2_HUMAN	Homo sapiens cDNA FLJ31646 fis, clone NT2RI2003921, highly similar to PROLIFERATING-CELL NUCLEOLAR ANTIGEN P120.	47					positive regulation of cell proliferation|rRNA processing	nucleolus	protein binding|RNA binding|S-adenosylmethionine-dependent methyltransferase activity			ovary(2)	2						CCTCTTTCGAGCACGACTAGA	0.393													4	10	---	---	---	---	PASS	A	6675952	A	A	6675952	3	1	13	1	0	0	0	0	1	0	0	0	10538	971	34	3	2342	3	NOP2	12	6675952	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	550135	6675952	127175943	293	7637										
A2ML1	144568	broad.mit.edu	37	chr12	8995787	8995787	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aacaagtgccacgttactacCaaaatgcctacctgcacctg	6	14	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:8995787C>A	uc001quz.3	+	12	1404	c.1306C>A	c.(1306-1308)CAA>AAA	p.Q436K	A2ML1_uc001qva.1_Missense_Mutation_p.Q16K|A2ML1_uc010sgm.1_5'Flank	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	280						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						ACGTTACTACCAAAATGCCTA	0.488													7	127	---	---	---	---	PASS	A	8995787	A	A	8995787	3	1	13	1	0	0	0	0	1	0	0	0	5	595	21	3	1352	3	A2ML1	12	8995787	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	2319835	8995787	124856108	294	7638										
TAS2R7	50837	broad.mit.edu	37	chr12	10954482	10954482	+	Frame_Shift_Del	DEL	G	-	-													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agctttcagggctctcacatGggcttctgtgctggggtctc							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:10954482delG	uc001qyv.2	-	1	745	c.688delC	c.(688-690)CATfs	p.H230fs		NM_023919	NP_076408	Q9NYW3	TA2R7_HUMAN	taste receptor, type 2, member 7	230	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			skin(1)	1						GCTCTCACATGGGCTTCTGTG	0.507													19	9	---	---	---	---		-	10954482	-	-	10954482	7	5	13	1	0	1	0	1	0	0	0	0	15583	1348	47	0	272	0	TAS2R7	12	10954482	Frame_Shift_Del	DEL	G	TCGA-18-3421-01A-01D-0983-08	1958695	10954482	122897413	295	7639										
TAS2R20	259295	broad.mit.edu	37	chr12	11149889	11149889	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cagagagtagattaacagcaGaaaagatatcagggtcagag	12	5	2	5			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:11149889G>A	uc001qzm.2	-	1	586	c.586C>T	c.(586-588)CTG>TTG	p.L196L	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176889	NP_795370	P59543	T2R20_HUMAN	taste receptor, type 2, member 20	196	Helical; Name=5; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity				0						ATTAACAGCAGAAAAGATATC	0.428													39	86	---	---	---	---	PASS	A	11149889	A	A	11149889	2	1	13	1	0	0	0	0	0	0	0	1	15568	933	33	2		2	TAS2R20	12	11149889	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	195407	11149889	122702006	296	7640										
SLCO1C1	53919	broad.mit.edu	37	chr12	20858882	20858882	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gttttattcttttcctcaaaGggaatctcttagttataaca	5	7	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:20858882G>A	uc001rej.3	+	5	627	c.272_splice	c.e5-1	p.G91_splice	SLCO1C1_uc010sii.1_Splice_Site_p.G91_splice|SLCO1C1_uc010sij.1_Splice_Site_p.G91_splice|SLCO1C1_uc009zip.2_Intron|SLCO1C1_uc001rei.2_Splice_Site_p.G91_splice|SLCO1C1_uc010sik.1_Splice_Site	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,						sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					TTTCCTCAAAGGGAATCTCTT	0.353													13	27	---	---	---	---	PASS	A	20858882	A	A	20858882	5	1	13	1	0	0	0	0	0	0	1	0	14725	1014	35	3	281	3	SLCO1C1	12	20858882	Splice_Site	SNP	G	TCGA-18-3421-01A-01D-0983-08	9708993	20858882	112993013	297	7641										
C12orf35	55196	broad.mit.edu	37	chr12	32135211	32135211	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tagtgaaccagctcagaattCtaaattgtctctaaaacaaa	5	8	3	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:32135211C>T	uc001rks.2	+	4	1736	c.1322C>T	c.(1321-1323)TCT>TTT	p.S441F		NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	441										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			GCTCAGAATTCTAAATTGTCT	0.368													22	104	---	---	---	---	PASS	T	32135211	T	T	32135211	3	4	13	1	0	0	0	0	1	0	0	0	1682	913	32	2	1324	2	C12orf35	12	32135211	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	11276329	32135211	101716684	298	7642										
PRPH	5630	broad.mit.edu	37	chr12	49691303	49691303	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggagctcctcaacgtcaagaTggccctggacatcgagatcg	12	12	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:49691303T>C	uc001rtu.2	+	6	1235	c.1160T>C	c.(1159-1161)ATG>ACG	p.M387T		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	387	Coil 2.|Rod.						structural molecule activity				0						AACGTCAAGATGGCCCTGGAC	0.567											OREG0021790	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	24	---	---	---	---	PASS	C	49691303	C	C	49691303	3	2	13	1	0	0	0	0	1	0	0	0	12576	1464	51	5	1182	5	PRPH	12	49691303	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	17556092	49691303	84160592	299	7643										
RDH16	8608	broad.mit.edu	37	chr12	57348829	57348829	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	taagggcagcaggctcagagTcacatcaatcacccccaaca	8	14	4	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:57348829T>A	uc001smi.3	-	2	605	c.433A>T	c.(433-435)ACT>TCT	p.T145S	RDH16_uc009zpa.2_Intron	NM_003708	NP_003699	O75452	RDH16_HUMAN	retinol dehydrogenase 16	145	Cytoplasmic (Potential).				lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	binding|electron carrier activity|retinol dehydrogenase activity				0						AGGCTCAGAGTCACATCAATC	0.567													10	49	---	---	---	---	PASS	A	57348829	A	A	57348829	3	1	13	1	0	0	0	0	1	0	0	0	13194	1667	58	5	532	5	RDH16	12	57348829	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	7657526	57348829	76503066	300	7644										
KIF5A	3798	broad.mit.edu	37	chr12	57974946	57974946	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cgggcaaacggggccattctGcccagattggtgagtaggtg	16	9	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:57974946G>T	uc001sor.1	+	24	2954	c.2746G>T	c.(2746-2748)GCC>TCC	p.A916S	KIF5A_uc010srr.1_Missense_Mutation_p.A827S	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	916	Globular.				blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						GGGCCATTCTGCCCAGATTGG	0.527													6	17	---	---	---	---	PASS	T	57974946	T	T	57974946	3	4	13	1	0	0	0	0	1	0	0	0	8305	1319	46	3	2840	3	KIF5A	12	57974946	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	626117	57974946	75876949	301	7645										
ZFC3H1	196441	broad.mit.edu	37	chr12	72029243	72029243	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctcagcagttcgtcttgcttCtttaatcatggactctaatc	6	11	5	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:72029243C>T	uc001swo.2	-	10	2577	c.2218G>A	c.(2218-2220)GAA>AAA	p.E740K		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	740					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						CGTCTTGCTTCTTTAATCATG	0.348													7	33	---	---	---	---	PASS	T	72029243	T	T	72029243	3	4	13	1	0	0	0	0	1	0	0	0	17630	922	32	2	3855	2	ZFC3H1	12	72029243	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	14054297	72029243	61822652	302	7646										
TMEM19	55266	broad.mit.edu	37	chr12	72092834	72092834	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	attgcatttggtggtttagcTggattactaggatcaattgt	11	4	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:72092834T>C	uc001sws.2	+	5	1375	c.792T>C	c.(790-792)GCT>GCC	p.A264A	TMEM19_uc001swr.1_Silent_p.A250A|TMEM19_uc009zru.1_RNA	NM_018279	NP_060749	Q96HH6	TMM19_HUMAN	transmembrane protein 19	264	Helical; (Potential).					integral to membrane					0		Breast(359;0.0889)		GBM - Glioblastoma multiforme(134;0.044)		GTGGTTTAGCTGGATTACTAG	0.403													18	49	---	---	---	---	PASS	C	72092834	C	C	72092834	2	2	13	1	0	0	0	0	0	0	0	1	16110	1567	55	5		5	TMEM19	12	72092834	Silent	SNP	T	TCGA-18-3421-01A-01D-0983-08	63591	72092834	61759061	303	7647										
OAS1	4938	broad.mit.edu	37	chr12	113346549	113346549	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tccacgctggggcaacccccGtgcgctcagcttcgtactga	11	16	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:113346549G>T	uc001tud.2	+	2	495	c.389G>T	c.(388-390)CGT>CTT	p.R130L	OAS1_uc010syn.1_Missense_Mutation_p.R129L|OAS1_uc010syo.1_Missense_Mutation_p.R129L|OAS1_uc001tub.2_Missense_Mutation_p.R130L|OAS1_uc001tuc.2_Missense_Mutation_p.R130L|OAS1_uc009zwf.2_Missense_Mutation_p.R129L	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	130	Necessary for binding to dsRNA.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						GGCAACCCCCGTGCGCTCAGC	0.577													21	28	---	---	---	---	PASS	T	113346549	T	T	113346549	3	4	13	1	0	0	0	0	1	0	0	0	10799	1145	40	1	395	1	OAS1	12	113346549	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	41253715	113346549	20505346	304	7648										
OASL	8638	broad.mit.edu	37	chr12	121471503	121471503	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaaacgccaccagctccaccTctctggtgctcctgagaacc	8	17	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:121471503T>G	uc001tzj.1	-	2	248	c.242A>C	c.(241-243)GAG>GCG	p.E81A	OASL_uc001tzk.1_Missense_Mutation_p.E81A	NM_003733	NP_003724	Q15646	OASL_HUMAN	2'-5'-oligoadenylate synthetase-like isoform a	81					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoplasm|nucleolus	ATP binding|DNA binding|double-stranded RNA binding|thyroid hormone receptor binding|transferase activity			skin(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CAGCTCCACCTCTCTGGTGCT	0.478													21	103	---	---	---	---	PASS	G	121471503	G	G	121471503	3	3	13	1	0	0	0	0	1	0	0	0	10802	1551	54	5	1322	5	OASL	12	121471503	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	8124954	121471503	12380392	305	7649										
SBNO1	55206	broad.mit.edu	37	chr12	123818603	123818603	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaaatattattgcttacctgGgctgcatatgtaattgcctc	8	8	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:123818603G>T	uc010tap.1	-	6	906	c.906C>A	c.(904-906)GCC>GCA	p.A302A	SBNO1_uc010tao.1_Silent_p.A301A|SBNO1_uc010taq.1_Intron|SBNO1_uc001uet.2_Silent_p.A302A|SBNO1_uc001ueu.2_Silent_p.A301A|SBNO1_uc001uev.2_Silent_p.A300A|SBNO1_uc009zxy.1_Silent_p.A267A	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	302							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		TGCTTACCTGGGCTGCATATG	0.333													4	20	---	---	---	---	PASS	T	123818603	T	T	123818603	2	4	13	1	0	0	0	0	0	0	0	1	13862	1219	43	3		3	SBNO1	12	123818603	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	2347100	123818603	10033292	306	7650										
SFRS8	6433	broad.mit.edu	37	chr12	132262629	132262629	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggaatccagcactacgccctGccctctactgactggaggca	10	15	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:132262629G>T	uc001uja.1	+	14	2302	c.2162G>T	c.(2161-2163)TGC>TTC	p.C721F	SFRS8_uc010tbn.1_Missense_Mutation_p.C721F|SFRS8_uc001ujb.1_Missense_Mutation_p.C514F	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	721					mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		ACTACGCCCTGCCCTCTACTG	0.433													7	33	---	---	---	---	PASS	T	132262629	T	T	132262629	3	4	13	1	0	0	0	0	1	0	0	0	14183	1319	46	3	2216	3	SFRS8	12	132262629	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	8444026	132262629	1589266	307	7651										
POLE	5426	broad.mit.edu	37	chr12	133209281	133209281	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccgaccgccccctcggcctcCtgggagagctggctggcccc	13	20	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr12:133209281C>A	uc001uks.1	-	44	6149	c.6105G>T	c.(6103-6105)CAG>CAT	p.Q2035H	POLE_uc001ukq.1_Missense_Mutation_p.Q245H|POLE_uc001ukr.1_Missense_Mutation_p.Q839H|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	2035					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CCTCGGCCTCCTGGGAGAGCT	0.652								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					4	14	---	---	---	---	PASS	A	133209281	A	A	133209281	3	1	13	1	0	0	0	0	1	0	0	0	12196	680	24	3	779	3	POLE	12	133209281	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	946652	133209281	642614	308	7652										
IFT88	8100	broad.mit.edu	37	chr13	21172829	21172829	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtcagtattcagttaatgaaAtgtatgccgaagcacttaac	8	7	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr13:21172829A>G	uc001unh.2	+	12	1057	c.661A>G	c.(661-663)ATG>GTG	p.M221V	IFT88_uc001uni.2_Missense_Mutation_p.M212V|IFT88_uc001unj.2_Missense_Mutation_p.M211V|IFT88_uc010tcq.1_Missense_Mutation_p.M192V|IFT88_uc001unk.2_Missense_Mutation_p.M1V	NM_175605	NP_783195	Q13099	IFT88_HUMAN	intraflagellar transport 88 homolog isoform 1	221	TPR 1.				cilium morphogenesis	centriole|intraflagellar transport particle B|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(29;5.79e-25)|all_epithelial(30;2.57e-20)|all_lung(29;3.13e-16)|Lung SC(185;0.0262)|Ovarian(182;0.0825)|Hepatocellular(188;0.244)		all cancers(112;0.000667)|Epithelial(112;0.00119)|OV - Ovarian serous cystadenocarcinoma(117;0.0141)|Lung(94;0.0183)|LUSC - Lung squamous cell carcinoma(192;0.0528)		AGTTAATGAAATGTATGCCGA	0.323													18	37	---	---	---	---	PASS	G	21172829	G	G	21172829	3	3	13	1	0	0	0	0	1	0	0	0	7566	101	4	5	699	5	IFT88	13	21172829	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08		21172829	93997049	309	7653										
SACS	26278	broad.mit.edu	37	chr13	23909099	23909099	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttcactagacaatataaatcTggctgtagatcaagacggtt	8	7	3	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr13:23909099T>A	uc001uon.2	-	10	9505	c.8916A>T	c.(8914-8916)CCA>CCT	p.P2972P	SACS_uc001uoo.2_Silent_p.P2825P|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2972					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AATATAAATCTGGCTGTAGAT	0.378													14	34	---	---	---	---	PASS	A	23909099	A	A	23909099	2	1	13	1	0	0	0	0	0	0	0	1	13804	1567	55	5		5	SACS	13	23909099	Silent	SNP	T	TCGA-18-3421-01A-01D-0983-08	2736270	23909099	91260779	310	7654										
C1QTNF9	338872	broad.mit.edu	37	chr13	24895767	24895767	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gagctctgaggaccaggcctCtggcggcattgtcctgcagc	14	13	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr13:24895767C>G	uc001upj.2	+	4	924	c.863C>G	c.(862-864)TCT>TGT	p.S288C	C1QTNF9_uc001upe.2_RNA	NM_178540	NP_848635	P0C862	C1T9A_HUMAN	C1q and tumor necrosis factor related protein 9	288	C1q.					collagen	hormone activity				0		all_cancers(29;3.55e-20)|all_epithelial(30;4.25e-17)|all_lung(29;1.04e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.00565)|Epithelial(112;0.027)|OV - Ovarian serous cystadenocarcinoma(117;0.115)|Lung(94;0.159)		GACCAGGCCTCTGGCGGCATT	0.498													18	103	---	---	---	---	PASS	G	24895767	G	G	24895767	3	3	13	1	0	0	0	0	1	0	0	0	1970	913	32	2	873	2	C1QTNF9	13	24895767	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	986668	24895767	90274111	311	7655										
SLC7A1	6541	broad.mit.edu	37	chr13	30096468	30096468	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	actcaccagcaacggcacccGaggctaatgtggcgattatt	10	12	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr13:30096468G>T	uc001uso.2	-	8	1562	c.1175C>A	c.(1174-1176)TCG>TAG	p.S392*		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	392	Helical; (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AACGGCACCCGAGGCTAATGT	0.458													6	174	---	---	---	---	PASS	T	30096468	T	T	30096468	4	4	13	1	0	0	0	0	0	1	0	0	14692	1059	37	2	738	2	SLC7A1	13	30096468	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	5200701	30096468	85073410	312	7656										
SLC7A1	6541	broad.mit.edu	37	chr13	30096527	30096527	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttgacgttggctaagaatttAaatagcagtccatcctcagc	8	9	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr13:30096527A>C	uc001uso.2	-	8	1503	c.1116T>G	c.(1114-1116)TTT>TTG	p.F372L		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	372	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	CTAAGAATTTAAATAGCAGTC	0.483													26	110	---	---	---	---	PASS	C	30096527	C	C	30096527	3	2	13	1	0	0	0	0	1	0	0	0	14692	359	13	5	797	5	SLC7A1	13	30096527	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	59	30096527	85073351	313	7657										
COL4A2	1284	broad.mit.edu	37	chr13	111111228	111111228	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	acggggagccggggaggaaaGgggacagaggagaccccggc	21	9	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr13:111111228G>A	uc001vqx.2	+	22	1832	c.1543G>A	c.(1543-1545)GGG>AGG	p.G515R		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	515	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GGGGAGGAAAGGGGACAGAGG	0.602													6	16	---	---	---	---	PASS	A	111111228	A	A	111111228	3	1	13	1	0	0	0	0	1	0	0	0	3690	1000	35	3	1625	3	COL4A2	13	111111228	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	81014701	111111228	4058650	314	7658										
OR4N2	390429	broad.mit.edu	37	chr14	20296014	20296014	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tctgcactatcctactgtcaTgaaccctagaacctgctatg	6	13	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:20296014T>A	uc010tkv.1	+	1	407	c.407T>A	c.(406-408)ATG>AAG	p.M136K		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	136	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CCTACTGTCATGAACCCTAGA	0.522													31	150	---	---	---	---	PASS	A	20296014	A	A	20296014	3	1	13	1	0	0	0	0	1	0	0	0	11077	1464	51	5	409	5	OR4N2	14	20296014	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08		20296014	87053526	315	7659										
EFS	10278	broad.mit.edu	37	chr14	23828827	23828827	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcctgtgtgggggtggggggCttctggccagaagctgggcc	21	9	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:23828827C>A	uc001wjo.2	-	4	1468	c.860G>T	c.(859-861)AGC>ATC	p.S287I	EFS_uc001wjp.2_Missense_Mutation_p.S194I|EFS_uc010tnm.1_Missense_Mutation_p.S118I	NM_005864	NP_005855	O43281	EFS_HUMAN	embryonal Fyn-associated substrate isoform 1	287	Pro-rich.				cell adhesion|intracellular signal transduction	cytoplasm	SH3 domain binding			large_intestine(1)	1	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00649)		GGGTGGGGGGCTTCTGGCCAG	0.721													3	11	---	---	---	---	PASS	A	23828827	A	A	23828827	3	1	13	1	0	0	0	0	1	0	0	0	4959	797	28	3	837	3	EFS	14	23828827	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	3532813	23828827	83520713	316	7660										
NFATC4	4776	broad.mit.edu	37	chr14	24842950	24842950	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggaattcagacattgagcttCggaagggtgagacggacatc	14	7	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:24842950C>A	uc001wpc.2	+	5	1930	c.1609C>A	c.(1609-1611)CGG>AGG	p.R537R	NFATC4_uc010tok.1_Silent_p.R600R|NFATC4_uc010tol.1_Silent_p.R600R|NFATC4_uc010alr.2_Silent_p.R600R|NFATC4_uc010als.2_Silent_p.R550R|NFATC4_uc010tom.1_Silent_p.R550R|NFATC4_uc010ton.1_Silent_p.R550R|NFATC4_uc010too.1_Silent_p.R550R|NFATC4_uc010alt.2_Silent_p.R569R|NFATC4_uc010top.1_Silent_p.R569R|NFATC4_uc010toq.1_Silent_p.R569R|NFATC4_uc010alu.2_Silent_p.R229R|NFATC4_uc010tor.1_Silent_p.R537R|NFATC4_uc010tos.1_Silent_p.R467R|NFATC4_uc010tot.1_Silent_p.R525R|NFATC4_uc010tou.1_Silent_p.R467R|NFATC4_uc010tov.1_Silent_p.R525R|NFATC4_uc010tow.1_Silent_p.R467R|NFATC4_uc010alv.2_Silent_p.R525R|NFATC4_uc010tox.1_Silent_p.R467R|NFATC4_uc001wpd.2_Silent_p.R72R|NFATC4_uc010toy.1_Silent_p.R72R|NFATC4_uc010toz.1_Silent_p.R72R|NFATC4_uc010tpa.1_5'UTR|NFATC4_uc010tpb.1_5'UTR	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	537	RHD.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		CATTGAGCTTCGGAAGGGTGA	0.582													6	159	---	---	---	---	PASS	A	24842950	A	A	24842950	2	1	13	1	0	0	0	0	0	0	0	1	10365	875	31	2		2	NFATC4	14	24842950	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	1014123	24842950	82506590	317	7661										
AKAP6	9472	broad.mit.edu	37	chr14	33291678	33291678	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaaaagacattcactggcatGcagaatgccaaacagctctc	8	11	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:33291678G>C	uc001wrq.2	+	13	4829	c.4659G>C	c.(4657-4659)ATG>ATC	p.M1553I		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1553					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TCACTGGCATGCAGAATGCCA	0.403													26	76	---	---	---	---	PASS	C	33291678	C	C	33291678	3	2	13	1	0	0	0	0	1	0	0	0	455	1319	46	4	4705	4	AKAP6	14	33291678	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	8448728	33291678	74057862	318	7662										
EAPP	55837	broad.mit.edu	37	chr14	35002668	35002668	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	acctgctctgtcttcatcctCggaatcagaatcaaaatata	5	11	5	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:35002668C>A	uc001wsd.1	-	3	443	c.334G>T	c.(334-336)GAG>TAG	p.E112*		NM_018453	NP_060923	Q56P03	EAPP_HUMAN	E2F-associated phosphoprotein	112					negative regulation of transcription elongation from RNA polymerase II promoter|positive regulation of cell proliferation|positive regulation of transcription elongation from RNA polymerase II promoter	Golgi apparatus|nucleus|plasma membrane				ovary(1)	1	Breast(36;0.0473)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00342)|Epithelial(34;0.18)	GBM - Glioblastoma multiforme(112;0.0196)		TCTTCATCCTCGGAATCAGAA	0.348													5	78	---	---	---	---	PASS	A	35002668	A	A	35002668	4	1	13	1	0	0	0	0	0	1	0	0	4877	893	31	2	539	2	EAPP	14	35002668	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	1710990	35002668	72346872	319	7663										
BAZ1A	11177	broad.mit.edu	37	chr14	35240766	35240766	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	atgccctgctctatttgaaaGagtgccattgccagataatg	9	9	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:35240766G>C	uc001wsk.2	-	21	3820	c.3252C>G	c.(3250-3252)CTC>CTG	p.L1084L	BAZ1A_uc001wsl.2_Silent_p.L1052L	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1084					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		CTATTTGAAAGAGTGCCATTG	0.373													70	110	---	---	---	---	PASS	C	35240766	C	C	35240766	2	2	13	1	0	0	0	0	0	0	0	1	1329	929	33	2		2	BAZ1A	14	35240766	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	238098	35240766	72108774	320	7664										
DLGAP5	9787	broad.mit.edu	37	chr14	55621479	55621479	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cagctttgttgacagacttaGgtgttccaagtctttgagaa	10	7	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:55621479G>T	uc001xbs.2	-	15	2136	c.1919C>A	c.(1918-1920)CCT>CAT	p.P640H	DLGAP5_uc001xbt.2_Missense_Mutation_p.P640H	NM_014750	NP_055565	Q15398	DLGP5_HUMAN	discs large homolog 7 isoform a	640					cell proliferation|cell-cell signaling|mitotic chromosome movement towards spindle pole|positive regulation of mitotic metaphase/anaphase transition	nucleus|spindle pole centrosome	phosphoprotein phosphatase activity|protein binding			ovary(1)|skin(1)	2						GACAGACTTAGGTGTTCCAAG	0.398													6	77	---	---	---	---	PASS	T	55621479	T	T	55621479	3	4	13	1	0	0	0	0	1	0	0	0	4563	1000	35	3	736	3	DLGAP5	14	55621479	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	20380713	55621479	51728061	321	7665										
ZBTB1	22890	broad.mit.edu	37	chr14	64989724	64989724	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgatgagcagtccgaaataaGagatatgtttgttgaaatgc	11	4	0	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:64989724G>C	uc001xhh.3	+	4	1933	c.1502G>C	c.(1501-1503)AGA>ACA	p.R501T	ZBTB1_uc010aqg.2_Missense_Mutation_p.R501T|ZBTB1_uc001xhi.2_Missense_Mutation_p.R501T	NM_001123329	NP_001116801	Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1 isoform	501					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		all_lung(585;0.000567)|Myeloproliferative disorder(585;0.0255)|all_neural(303;0.0294)		UCEC - Uterine corpus endometrioid carcinoma (185;0.0182)|all cancers(60;3.78e-43)|OV - Ovarian serous cystadenocarcinoma(108;1.22e-20)|BRCA - Breast invasive adenocarcinoma(234;6.75e-06)|KIRC - Kidney renal clear cell carcinoma(182;0.00269)|STAD - Stomach adenocarcinoma(64;0.012)		TCCGAAATAAGAGATATGTTT	0.398													33	43	---	---	---	---	PASS	C	64989724	C	C	64989724	3	2	13	1	0	0	0	0	1	0	0	0	17519	942	33	2	1504	2	ZBTB1	14	64989724	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	9368245	64989724	42359816	322	7666										
FAM71D	161142	broad.mit.edu	37	chr14	67664902	67664902	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aagaagaacaccagcaagacTaccatgaggatcaataagca	8	9	1	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:67664902T>C	uc001xja.1	+	3	278	c.24T>C	c.(22-24)ACT>ACC	p.T8T	FAM71D_uc010tsv.1_RNA|FAM71D_uc001xiz.2_RNA|FAM71D_uc010aqn.1_RNA	NM_173526	NP_775797	Q8N9W8	FA71D_HUMAN	hypothetical protein LOC161142	8										ovary(1)	1		all_hematologic(31;0.0116)		all cancers(60;0.00107)|BRCA - Breast invasive adenocarcinoma(234;0.00993)|OV - Ovarian serous cystadenocarcinoma(108;0.012)		CCAGCAAGACTACCATGAGGA	0.408													91	84	---	---	---	---	PASS	C	67664902	C	C	67664902	2	2	13	1	0	0	0	0	0	0	0	1	5610	1509	53	5		5	FAM71D	14	67664902	Silent	SNP	T	TCGA-18-3421-01A-01D-0983-08	2675178	67664902	39684638	323	7667										
PLEK2	26499	broad.mit.edu	37	chr14	67859957	67859957	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtgcatcttgtccacaatgcGactacatggaagggaaggca	12	9	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:67859957G>A	uc001xjh.1	-	4	443	c.391C>T	c.(391-393)CGC>TGC	p.R131C		NM_016445	NP_057529	Q9NYT0	PLEK2_HUMAN	pleckstrin 2	131					actin cytoskeleton organization|intracellular signal transduction	cytoplasm|cytoskeleton|lamellipodium membrane				ovary(1)|pancreas(1)	2				all cancers(60;0.000728)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.00953)		TCCACAATGCGACTACATGGA	0.527													18	104	---	---	---	---	PASS	A	67859957	A	A	67859957	3	1	13	1	0	0	0	0	1	0	0	0	12054	1072	37	2	694	2	PLEK2	14	67859957	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	195055	67859957	39489583	324	7668										
RDH11	51109	broad.mit.edu	37	chr14	68151842	68151842	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aaggagaaaagccaccacatCcatctcatgaaagatgagtg	9	9	1	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:68151842C>T	uc001xjv.3	-	6	834	c.744G>A	c.(742-744)TGG>TGA	p.W248*	RDH11_uc001xjw.3_Nonsense_Mutation_p.W235*|RDH11_uc001xjx.3_Nonsense_Mutation_p.W178*	NM_016026	NP_057110	Q8TC12	RDH11_HUMAN	retinol dehydrogenase 11	248	Cytoplasmic (Potential).				retinol metabolic process|steroid metabolic process	endoplasmic reticulum membrane|integral to membrane	binding|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(1)	1				all cancers(60;0.00047)|OV - Ovarian serous cystadenocarcinoma(108;0.00206)|BRCA - Breast invasive adenocarcinoma(234;0.00924)	Vitamin A(DB00162)	GCCACCACATCCATCTCATGA	0.517													37	39	---	---	---	---	PASS	T	68151842	T	T	68151842	4	4	13	1	0	0	0	0	0	1	0	0	13190	856	30	2	220	2	RDH11	14	68151842	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	291885	68151842	39197698	325	7669										
FLRT2	23768	broad.mit.edu	37	chr14	86089506	86089506	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tggcgggcttgatcgggggcGcggtgatatttgtgctggtg	20	6	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:86089506G>T	uc001xvr.2	+	2	2415	c.1648G>T	c.(1648-1650)GCG>TCG	p.A550S	FLRT2_uc010atd.2_Missense_Mutation_p.A550S	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	550	Helical; (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GATCGGGGGCGCGGTGATATT	0.587													38	69	---	---	---	---	PASS	T	86089506	T	T	86089506	3	4	13	1	0	0	0	0	1	0	0	0	5939	1087	38	1	1650	1	FLRT2	14	86089506	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	17937664	86089506	21260034	326	7670										
TRIP11	9321	broad.mit.edu	37	chr14	92439105	92439105	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tatctctttttcttcttcctGgtgaatccagaggtttcata	6	9	4	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:92439105G>T	uc001xzy.2	-	20	6463	c.5675C>A	c.(5674-5676)CCA>CAA	p.P1892Q	TRIP11_uc010auf.1_Missense_Mutation_p.P1628Q	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	1892					transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		TCTTCTTCCTGGTGAATCCAG	0.299			T	PDGFRB	AML								8	251	---	---	---	---	PASS	T	92439105	T	T	92439105	3	4	13	1	0	0	0	0	1	0	0	0	16552	1348	47	3	272	3	TRIP11	14	92439105	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	6349599	92439105	14910435	327	7671										
FAM181A	90050	broad.mit.edu	37	chr14	94395040	94395040	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgaggaaaagacagctgcccGcttccttctgggaagagcca	12	11	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:94395040G>A	uc001ybz.1	+	3	902	c.595G>A	c.(595-597)GCT>ACT	p.A199T	C14orf86_uc001yby.2_5'Flank|FAM181A_uc010aus.1_Missense_Mutation_p.A137T|FAM181A_uc001yca.1_Missense_Mutation_p.A137T	NM_138344	NP_612353	Q8N9Y4	F181A_HUMAN	hypothetical protein LOC90050	199											0						ACAGCTGCCCGCTTCCTTCTG	0.612													6	22	---	---	---	---	PASS	A	94395040	A	A	94395040	3	1	13	1	0	0	0	0	1	0	0	0	5508	1087	38	1	601	1	FAM181A	14	94395040	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1955935	94395040	12954500	328	7672										
CYP46A1	10858	broad.mit.edu	37	chr14	100157448	100157448	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggacacctcccctgcttttgGaaaaaggatgaggttggtgg	14	8	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:100157448G>A	uc001ygo.2	+	2	150	c.150G>A	c.(148-150)TGG>TGA	p.W50*	CYP46A1_uc001ygn.1_5'UTR	NM_006668	NP_006659	Q9Y6A2	CP46A_HUMAN	cytochrome P450, family 46	50					bile acid biosynthetic process|cholesterol catabolic process|nervous system development|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol 24-hydroxylase activity|electron carrier activity|heme binding|steroid hydroxylase activity				0		Melanoma(154;0.0866)|all_epithelial(191;0.179)				CCTGCTTTTGGAAAAAGGATG	0.493													16	84	---	---	---	---	PASS	A	100157448	A	A	100157448	4	1	13	1	0	0	0	0	0	1	0	0	4182	1183	41	2	156	2	CYP46A1	14	100157448	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	5762408	100157448	7192092	329	7673										
DYNC1H1	1778	broad.mit.edu	37	chr14	102489101	102489101	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cccacagactcgtagaggatGaggagaggcgttggactgat	15	8	0	5			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:102489101G>T	uc001yks.2	+	43	8685	c.8521G>T	c.(8521-8523)GAG>TAG	p.E2841*	DYNC1H1_uc001ykt.1_Nonsense_Mutation_p.E332*	NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2841					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						CGTAGAGGATGAGGAGAGGCG	0.527													6	131	---	---	---	---	PASS	T	102489101	T	T	102489101	4	4	13	1	0	0	0	0	0	1	0	0	4841	1291	45	2	8691	2	DYNC1H1	14	102489101	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2331653	102489101	4860439	330	7674										
TRAF3	7187	broad.mit.edu	37	chr14	103336547	103336547	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctctttcctaaaatggagtcGagtaaaaagatggactctcc	8	9	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:103336547G>T	uc001ymc.1	+	3	362	c.9G>T	c.(7-9)TCG>TCT	p.S3S	TRAF3_uc001yme.1_Silent_p.S3S|TRAF3_uc001ymd.1_Silent_p.S3S|TRAF3_uc010txy.1_Silent_p.S3S	NM_145725	NP_663777	Q13114	TRAF3_HUMAN	TNF receptor-associated factor 3 isoform 1	3					apoptosis|induction of apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|regulation of defense response to virus|regulation of interferon-beta production|regulation of proteolysis|toll-like receptor signaling pathway|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|endosome|internal side of plasma membrane|mitochondrion	signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(154;7.87e-06)|all_epithelial(191;0.0024)		Epithelial(152;9.92e-24)|all cancers(159;2.23e-21)|OV - Ovarian serous cystadenocarcinoma(161;7.85e-12)|Colorectal(3;0.0971)		AAATGGAGTCGAGTAAAAAGA	0.493													6	150	---	---	---	---	PASS	T	103336547	T	T	103336547	2	4	13	1	0	0	0	0	0	0	0	1	16436	1045	37	2		2	TRAF3	14	103336547	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	847446	103336547	4012993	331	7675										
AHNAK2	113146	broad.mit.edu	37	chr14	105414569	105414569	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tttgggcatcttgaaactggGcatctgcagcttgggcaggt	14	8	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:105414569G>A	uc010axc.1	-	7	7339	c.7219C>T	c.(7219-7221)CCC>TCC	p.P2407S	AHNAK2_uc001ypx.2_Missense_Mutation_p.P2307S	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2407						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)			TTGAAACTGGGCATCTGCAGC	0.622													17	286	---	---	---	---	PASS	A	105414569	A	A	105414569	3	1	13	1	0	0	0	0	1	0	0	0	415	1203	42	3	10172	3	AHNAK2	14	105414569	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2078022	105414569	1934971	332	7676										
AHNAK2	113146	broad.mit.edu	37	chr14	105418571	105418571	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccctttaaggccagctccctCgggcaggtggccctccggga	13	16	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr14:105418571C>A	uc010axc.1	-	7	3337	c.3217G>T	c.(3217-3219)GAG>TAG	p.E1073*	AHNAK2_uc001ypx.2_Nonsense_Mutation_p.E973*	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1073						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)			CCAGCTCCCTCGGGCAGGTGG	0.617													7	200	---	---	---	---	PASS	A	105418571	A	A	105418571	4	1	13	1	0	0	0	0	0	1	0	0	415	893	31	2	14174	2	AHNAK2	14	105418571	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4002	105418571	1930969	333	7677										
OR4N4	283694	broad.mit.edu	37	chr15	22382947	22382947	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gttttgtccactccattatcCaggtggtcctcatcctccgc	7	15	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:22382947C>A	uc001yuc.1	+	7	1456	c.475C>A	c.(475-477)CAG>AAG	p.Q159K	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.Q159K	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	159	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CTCCATTATCCAGGTGGTCCT	0.532													5	89	---	---	---	---	PASS	A	22382947	A	A	22382947	3	1	13	1	0	0	0	0	1	0	0	0	11078	595	21	3	477	3	OR4N4	15	22382947	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08		22382947	80148445	334	7678										
MAGEL2	54551	broad.mit.edu	37	chr15	23889861	23889861	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agggctgtgcctccaccttgGaattatcctgggtggcactg	13	11	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:23889861G>T	uc001ywj.3	-	1	1315	c.1220C>A	c.(1219-1221)TCC>TAC	p.S407Y		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		CTCCACCTTGGAATTATCCTG	0.587													7	24	---	---	---	---	PASS	T	23889861	T	T	23889861	3	4	13	1	0	0	0	0	1	0	0	0	9189	1174	41	2	724	2	MAGEL2	15	23889861	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1506914	23889861	78641531	335	7679										
GABRB3	2562	broad.mit.edu	37	chr15	26806138	26806138	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggctgtcttttctgcaagctTcttctgcctttgagggcctc	10	12	4	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:26806138T>C	uc001zaz.2	-	8	1163	c.1021A>G	c.(1021-1023)AAG>GAG	p.K341E	GABRB3_uc010uae.1_Missense_Mutation_p.K256E|GABRB3_uc001zba.2_Missense_Mutation_p.K341E|GABRB3_uc001zbb.2_Missense_Mutation_p.K397E	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	341	Cytoplasmic (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)	TCTGCAAGCTTCTTCTGCCTT	0.517													26	66	---	---	---	---	PASS	C	26806138	C	C	26806138	3	2	13	1	0	0	0	0	1	0	0	0	6168	1792	62	5	408	5	GABRB3	15	26806138	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	2916277	26806138	75725254	336	7680										
HERC2	8924	broad.mit.edu	37	chr15	28370265	28370265	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctgaagggcagctaccaaccGaggcctctggatggcattgg	14	11	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:28370265G>T	uc001zbj.2	-	84	12983	c.12877C>A	c.(12877-12879)CGG>AGG	p.R4293R		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4293	RCC1 19.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GCTACCAACCGAGGCCTCTGG	0.552													5	151	---	---	---	---	PASS	T	28370265	T	T	28370265	2	4	13	1	0	0	0	0	0	0	0	1	7058	1057	37	2		2	HERC2	15	28370265	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	1564127	28370265	74161127	337	7681										
CASC4	113201	broad.mit.edu	37	chr15	44695177	44695177	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	atgatggtaacgtaggtgagTatgaggcagacaagcaggct	15	5	0	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:44695177T>A	uc001zto.1	+	9	1464	c.1165T>A	c.(1165-1167)TAT>AAT	p.Y389N	CASC4_uc001ztp.2_Missense_Mutation_p.Y389N|CASC4_uc001ztq.2_Intron	NM_138423	NP_612432	Q6P4E1	CASC4_HUMAN	cancer susceptibility candidate 4 isoform a	389	Lumenal (Potential).					integral to membrane				ovary(1)	1		all_cancers(109;1.69e-13)|all_epithelial(112;3.94e-11)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.027)		all cancers(107;2.91e-20)|GBM - Glioblastoma multiforme(94;1.57e-06)|COAD - Colon adenocarcinoma(120;0.217)|Colorectal(105;0.237)		CGTAGGTGAGTATGAGGCAGA	0.517													15	38	---	---	---	---	PASS	A	44695177	A	A	44695177	3	1	13	1	0	0	0	0	1	0	0	0	2662	1638	57	5	1199	5	CASC4	15	44695177	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	16324912	44695177	57836215	338	7682										
GLDN	342035	broad.mit.edu	37	chr15	51696617	51696617	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttggattatctatgcgtcaaGtgtggacggctcgagcattc	12	8	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:51696617G>T	uc002aba.2	+	10	1491	c.1322G>T	c.(1321-1323)AGT>ATT	p.S441I	GLDN_uc002abb.2_Missense_Mutation_p.S317I	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	441	Extracellular (Potential).|Olfactomedin-like.				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		TATGCGTCAAGTGTGGACGGC	0.428													24	108	---	---	---	---	PASS	T	51696617	T	T	51696617	3	4	13	1	0	0	0	0	1	0	0	0	6434	1029	36	3	1360	3	GLDN	15	51696617	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	7001440	51696617	50834775	339	7683										
GCNT3	9245	broad.mit.edu	37	chr15	59910702	59910702	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttcaggctattctgaataacCtggaggtcaagaagaagcga	11	7	3	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:59910702C>A	uc002age.2	+	3	714	c.265C>A	c.(265-267)CTG>ATG	p.L89M	GCNT3_uc002agd.2_Missense_Mutation_p.L89M	NM_004751	NP_004742	O95395	GCNT3_HUMAN	glucosaminyl (N-acetyl) transferase 3, mucin	89	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|membrane fraction	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)	2						TCTGAATAACCTGGAGGTCAA	0.488													22	53	---	---	---	---	PASS	A	59910702	A	A	59910702	3	1	13	1	0	0	0	0	1	0	0	0	6302	680	24	3	267	3	GCNT3	15	59910702	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	8214085	59910702	42620690	340	7684										
KIAA0101	9768	broad.mit.edu	37	chr15	64669065	64669065	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tttgccacttgggagttgggCgcacgcaaacggggttccct	14	11	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:64669065C>G	uc002ank.2	-	3	299	c.167G>C	c.(166-168)CGC>CCC	p.R56P	KIAA0101_uc002anl.2_Intron	NM_014736	NP_055551	Q15004	PAF_HUMAN	hypothetical protein LOC9768 isoform 1	56						mitochondrion|nucleus				central_nervous_system(1)	1						GGGAGTTGGGCGCACGCAAAC	0.393													9	26	---	---	---	---	PASS	G	64669065	G	G	64669065	3	3	13	1	0	0	0	0	1	0	0	0	8155	768	27	4	201	4	KIAA0101	15	64669065	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4758363	64669065	37862327	341	7685										
HEXA	3073	broad.mit.edu	37	chr15	72668061	72668061	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcgggacaagtccgactcacCtgtgaggtaaggacggggcc	16	11	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:72668061C>T	uc002aun.3	-	1	460	c.253G>A	c.(253-255)GGG>AGG	p.G85R	CELF6_uc002auk.3_RNA|HEXA_uc010ukn.1_Missense_Mutation_p.G85S|HEXA_uc002auo.3_5'UTR|HEXA_uc010bix.2_Missense_Mutation_p.G85R|HEXA_uc010biy.2_5'UTR|HEXA_uc010uko.1_5'UTR|HEXA_uc010biz.1_RNA|C15orf34_uc010ukp.1_5'Flank	NM_000520	NP_000511	P06865	HEXA_HUMAN	hexosaminidase A preproprotein	85					cell death	lysosome	beta-N-acetylhexosaminidase activity|cation binding|protein heterodimerization activity			ovary(3)|upper_aerodigestive_tract(1)	4						TCCGACTCACCTGTGAGGTAA	0.657													6	103	---	---	---	---	PASS	T	72668061	T	T	72668061	3	4	13	1	0	0	0	0	1	0	0	0	7073	695	24	3	1392	3	HEXA	15	72668061	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	7998996	72668061	29863331	342	7686										
CYP1A1	1543	broad.mit.edu	37	chr15	75014644	75014644	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gttttgtagtgctccttgacCatcttctgcatgaagctgta	9	9	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:75014644C>T	uc002ayp.3	-	2	917	c.795G>A	c.(793-795)ATG>ATA	p.M265I	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Missense_Mutation_p.M1I|CYP1A1_uc010bjx.2_Missense_Mutation_p.M1I|CYP1A1_uc002ayq.3_Missense_Mutation_p.M265I|CYP1A1_uc010bjy.2_Missense_Mutation_p.M265I|CYP1A1_uc010bjz.1_Missense_Mutation_p.M1I	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	265					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	GCTCCTTGACCATCTTCTGCA	0.512									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				16	31	---	---	---	---	PASS	T	75014644	T	T	75014644	3	4	13	1	0	0	0	0	1	0	0	0	4149	594	21	3	767	3	CYP1A1	15	75014644	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	2346583	75014644	27516748	343	7687										
ARNT2	9915	broad.mit.edu	37	chr15	80806299	80806299	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcctctaaacagaataaccaCcatgaggaaaaggttcaggt	8	9	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:80806299C>G	uc002bfr.2	+	7	939	c.773C>G	c.(772-774)ACC>AGC	p.T258S	ARNT2_uc010unm.1_Missense_Mutation_p.T247S|ARNT2_uc002bfs.2_Missense_Mutation_p.T247S	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	258					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			AGAATAACCACCATGAGGAAA	0.413													29	25	---	---	---	---	PASS	G	80806299	G	G	80806299	3	3	13	1	0	0	0	0	1	0	0	0	966	507	18	4	799	4	ARNT2	15	80806299	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	5791655	80806299	21725093	344	7688										
ZNF774	342132	broad.mit.edu	37	chr15	90904301	90904301	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agagtgtgggaagagcttcaAtcagagctcccactttatta	10	8	2	3	rs141917260		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:90904301A>G	uc002bpk.3	+	4	1424	c.1238A>G	c.(1237-1239)AAT>AGT	p.N413S		NM_001004309	NP_001004309	Q6NX45	ZN774_HUMAN	zinc finger protein 774	413	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(11;0.00551)|Lung NSC(78;0.0158)|all_lung(78;0.0331)		BRCA - Breast invasive adenocarcinoma(143;0.0224)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			AAGAGCTTCAATCAGAGCTCC	0.512													9	40	---	---	---	---	PASS	G	90904301	G	G	90904301	3	3	13	1	0	0	0	0	1	0	0	0	18144	101	4	5	1248	5	ZNF774	15	90904301	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	10098002	90904301	11627091	345	7689										
PRC1	9055	broad.mit.edu	37	chr15	91527314	91527314	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttctgacagacggatatgctTttgatgagtctttccttcag	9	8	3	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:91527314T>G	uc002bqm.2	-	3	358	c.201A>C	c.(199-201)AAA>AAC	p.K67N	PRC1_uc002bqn.2_Missense_Mutation_p.K67N|PRC1_uc002bqo.2_Missense_Mutation_p.K67N|PRC1_uc010uqs.1_Intron|PRC1_uc010uqt.1_Missense_Mutation_p.K15N	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	67	Dimerization.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					CGGATATGCTTTTGATGAGTC	0.483													22	270	---	---	---	---	PASS	G	91527314	G	G	91527314	3	3	13	1	0	0	0	0	1	0	0	0	12446	1838	64	5	1713	5	PRC1	15	91527314	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	623013	91527314	11004078	346	7690										
OR4F15	390649	broad.mit.edu	37	chr15	102358526	102358526	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gatgggaaaccttgtcattgTattcactgtaaccatggatg	10	7	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr15:102358526T>A	uc010uts.1	+	1	137	c.137T>A	c.(136-138)GTA>GAA	p.V46E		NM_001001674	NP_001001674	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F,	46	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			CTTGTCATTGTATTCACTGTA	0.433													20	86	---	---	---	---	PASS	A	102358526	A	A	102358526	3	1	13	1	0	0	0	0	1	0	0	0	11061	1638	57	5	139	5	OR4F15	15	102358526	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	10831212	102358526	172866	347	7691										
ZNF434	54925	broad.mit.edu	37	chr16	3434632	3434632	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tatcacttccttcttggccaGgaacagcatcgcttgccata	7	13	2	0	rs149193108	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr16:3434632G>T	uc002cuz.2	-	5	1227	c.425C>A	c.(424-426)CCT>CAT	p.P142H	ZNF434_uc002cux.3_Missense_Mutation_p.P353H|ZNF434_uc010uwx.1_Missense_Mutation_p.P65H|ZNF434_uc002cuy.3_Missense_Mutation_p.P65H|ZNF434_uc010uwy.1_Missense_Mutation_p.P65H|ZNF434_uc010uwz.1_Missense_Mutation_p.P353H|ZNF434_uc010uxa.1_Missense_Mutation_p.P142H	NM_017810	NP_060280	Q9NX65	ZN434_HUMAN	zinc finger protein 434	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TTCTTGGCCAGGAACAGCATC	0.532													6	92	---	---	---	---	PASS	T	3434632	T	T	3434632	3	4	13	1	0	0	0	0	1	0	0	0	17905	1000	35	3	1040	3	ZNF434	16	3434632	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08		3434632	86920121	348	7692										
CIITA	4261	broad.mit.edu	37	chr16	11009505	11009505	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttttcctccctgcagcatctGgagtgagtatagactctggg	11	10	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr16:11009505G>T	uc002dai.3	+	14	3100	c.2967G>T	c.(2965-2967)CTG>CTT	p.L989L	CIITA_uc002daj.3_Silent_p.L990L|CIITA_uc002dak.3_Silent_p.L405L	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	989	LRR 1.		Missing (in BLS2).		interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						TGCAGCATCTGGAGTGAGTAT	0.408			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								5	36	---	---	---	---	PASS	T	11009505	T	T	11009505	2	4	13	1	0	0	0	0	0	0	0	1	3428	1335	47	3		3	CIITA	16	11009505	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	7574873	11009505	79345248	349	7693										
GSPT1	2935	broad.mit.edu	37	chr16	11979113	11979113	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttcggcaaattatccagataTggaataaacggtaatccact	7	8	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr16:11979113T>C	uc002dbr.2	-	8	885	c.858A>G	c.(856-858)CCA>CCG	p.P286P	GSPT1_uc002dbu.2_Silent_p.P423P|GSPT1_uc002dbt.2_Silent_p.P424P|GSPT1_uc010bux.2_Silent_p.P286P	NM_001130007	NP_001123479	P15170	ERF3A_HUMAN	G1 to S phase transition 1 isoform 3	286					G1/S transition of mitotic cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation	intracellular	GTP binding|GTPase activity|protein binding|translation release factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						TATCCAGATATGGAATAAACG	0.343													15	24	---	---	---	---	PASS	C	11979113	C	C	11979113	2	2	13	1	0	0	0	0	0	0	0	1	6826	1451	51	5		5	GSPT1	16	11979113	Silent	SNP	T	TCGA-18-3421-01A-01D-0983-08	969608	11979113	78375640	350	7694										
SEZ6L2	26470	broad.mit.edu	37	chr16	29909221	29909221	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcctcagcagggccccatgaAgcagttcagccagggcctca	11	15	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr16:29909221A>G	uc002duq.3	-	2	404	c.164T>C	c.(163-165)CTT>CCT	p.L55P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.L55P|SEZ6L2_uc002dur.3_Missense_Mutation_p.L55P|SEZ6L2_uc002dus.3_Missense_Mutation_p.L55P|SEZ6L2_uc010vec.1_Missense_Mutation_p.L55P|SEZ6L2_uc010ved.1_Intron|ASPHD1_uc002dut.2_5'Flank|ASPHD1_uc002duu.3_5'Flank|ASPHD1_uc010bzi.2_5'Flank	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	55	Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						GGCCCCATGAAGCAGTTCAGC	0.637													13	48	---	---	---	---	PASS	G	29909221	G	G	29909221	3	3	13	1	0	0	0	0	1	0	0	0	14144	72	3	5	2675	5	SEZ6L2	16	29909221	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	17930108	29909221	60445532	351	7695										
RBL2	5934	broad.mit.edu	37	chr16	53476745	53476745	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	accctcaagaggagcaacctCgtcagcagcgaggaaggaaa	12	11	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr16:53476745C>A	uc002ehi.3	+	3	665	c.547C>A	c.(547-549)CGT>AGT	p.R183S	RBL2_uc010vgv.1_Missense_Mutation_p.R109S	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	183					cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						GGAGCAACCTCGTCAGCAGCG	0.393													4	35	---	---	---	---	PASS	A	53476745	A	A	53476745	3	1	13	1	0	0	0	0	1	0	0	0	13110	884	31	2	557	2	RBL2	16	53476745	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	23567524	53476745	36878008	352	7696										
CCDC102A	92922	broad.mit.edu	37	chr16	57555030	57555030	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cagctcctcatacttgatctTccactggctgagctccccct	6	17	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr16:57555030T>G	uc002elw.2	-	4	1084	c.871A>C	c.(871-873)AAG>CAG	p.K291Q		NM_033212	NP_149989	Q96A19	C102A_HUMAN	coiled-coil domain containing 102A	291	Potential.									ovary(1)	1						TACTTGATCTTCCACTGGCTG	0.582													26	102	---	---	---	---	PASS	G	57555030	G	G	57555030	3	3	13	1	0	0	0	0	1	0	0	0	2736	1792	62	5	805	5	CCDC102A	16	57555030	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	4078285	57555030	32799723	353	7697										
CES2	8824	broad.mit.edu	37	chr16	66977823	66977823	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cagctgaacctacagcctgcGgtgggccgggctctgaaggc	15	13	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr16:66977823G>T	uc002eqr.2	+	12	2767	c.1767G>T	c.(1765-1767)GCG>GCT	p.A589A	CES2_uc002eqq.2_Silent_p.A573A|CES2_uc002eqs.2_Silent_p.A432A	NM_003869	NP_003860	O00748	EST2_HUMAN	carboxylesterase 2 isoform 1	525					catabolic process	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0663)|Epithelial(162;0.166)		TACAGCCTGCGGTGGGCCGGG	0.612													11	17	---	---	---	---	PASS	T	66977823	T	T	66977823	2	4	13	1	0	0	0	0	0	0	0	1	3270	1103	39	1		1	CES2	16	66977823	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	9422793	66977823	23376930	354	7698										
TMCO7	79613	broad.mit.edu	37	chr16	68894080	68894080	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctaggactccggaagttgctCctgccctgagccccgatgca	11	15	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr16:68894080C>T	uc002ewi.3	+	2	400	c.388C>T	c.(388-390)CCT>TCT	p.P130S	TMCO7_uc002ewh.2_Missense_Mutation_p.P130S	NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	130						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		GGAAGTTGCTCCTGCCCTGAG	0.483													67	123	---	---	---	---	PASS	T	68894080	T	T	68894080	3	4	13	1	0	0	0	0	1	0	0	0	15998	855	30	2	394	2	TMCO7	16	68894080	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	1916257	68894080	21460673	355	7699										
METT10D	79066	broad.mit.edu	37	chr17	2381044	2381044	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgaccgatcagatcttctacCcagtgaatatagttgagtct	8	9	4	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:2381044C>A	uc002fut.2	-	3	412	c.264G>T	c.(262-264)TGG>TGT	p.W88C	METT10D_uc002fuu.3_RNA|METT10D_uc010cka.2_RNA|METT10D_uc002fuv.2_Missense_Mutation_p.W88C|METT10D_uc010vqx.1_RNA|METT10D_uc010vqy.1_5'UTR	NM_024086	NP_076991	Q86W50	MET16_HUMAN	methyltransferase 10 domain containing	88							methyltransferase activity				0						GATCTTCTACCCAGTGAATAT	0.383													6	76	---	---	---	---	PASS	A	2381044	A	A	2381044	3	1	13	1	0	0	0	0	1	0	0	0	9490	624	22	3	1456	3	METT10D	17	2381044	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08		2381044	78814166	356	7700										
USP6	9098	broad.mit.edu	37	chr17	5033921	5033921	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	accgagctgggctgccagagGacaaggggcctgagcccgtt	16	12	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:5033921G>T	uc002gau.1	+	11	2327	c.97G>T	c.(97-99)GAC>TAC	p.D33Y	USP6_uc002gav.1_Missense_Mutation_p.D33Y|USP6_uc010ckz.1_5'UTR|USP6_uc002gaw.2_Missense_Mutation_p.D33Y	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	33					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						GCTGCCAGAGGACAAGGGGCC	0.587			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								6	57	---	---	---	---	PASS	T	5033921	T	T	5033921	3	4	13	1	0	0	0	0	1	0	0	0	17083	1174	41	2	103	2	USP6	17	5033921	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2652877	5033921	76161289	357	7701										
TP53	7157	broad.mit.edu	37	chr17	7578415	7578415	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggtgggggcagcgcctcacaAcctccgtcatgtgctgtgac	14	13	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:7578415A>C	uc002gim.2	-	5	709	c.515T>G	c.(514-516)GTT>GGT	p.V172G	TP53_uc002gig.1_Missense_Mutation_p.V172G|TP53_uc002gih.2_Missense_Mutation_p.V172G|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.V40G|TP53_uc010cng.1_Missense_Mutation_p.V40G|TP53_uc002gii.1_Missense_Mutation_p.V40G|TP53_uc010cnh.1_Missense_Mutation_p.V172G|TP53_uc010cni.1_Missense_Mutation_p.V172G|TP53_uc002gij.2_Missense_Mutation_p.V172G|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.V79G|TP53_uc002gio.2_Missense_Mutation_p.V40G|TP53_uc010vug.1_Missense_Mutation_p.V133G	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	172	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> A (in sporadic cancers; somatic mutation).|V -> I (in sporadic cancers; somatic mutation).|V -> F (in LFS; germline mutation and in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).|V -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.V172F(10)|p.V172D(8)|p.V172I(7)|p.0?(7)|p.V172V(4)|p.V172A(4)|p.V172fs*2(3)|p.V172G(3)|p.V173fs*59(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V172_R174delVVR(1)|p.P151_V173del23(1)|p.S149fs*72(1)|p.E171fs*61(1)|p.V172_E180delVVRRCPHHE(1)|p.E171fs*1(1)|p.T170fs*8(1)|p.V172fs*9(1)|p.H168fs*69(1)|p.E171_H179delEVVRRCPHH(1)|p.E171_V172delEV(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)		GCGCCTCACAACCTCCGTCAT	0.657		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)			12	16	---	---	---	---	PASS	C	7578415	C	C	7578415	3	2	13	1	0	0	0	0	1	0	0	0	16378	43	2	5	783	5	TP53	17	7578415	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	2544494	7578415	73616795	358	7702										
MAPK7	5598	broad.mit.edu	37	chr17	19284863	19284863	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgccccggccctgcacctgaCaccattgatctgaccctgca	8	18	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:19284863C>T	uc002gvn.2	+	4	1727	c.1341C>T	c.(1339-1341)GAC>GAT	p.D447D	MAPK7_uc002gvo.2_Silent_p.D308D|MAPK7_uc002gvq.2_Silent_p.D447D|MAPK7_uc002gvp.2_Silent_p.D447D	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	447	May not be required for kinase activity; required to stimulate MEF2C activity (By similarity).|Pro-rich.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					CTGCACCTGACACCATTGATC	0.597													8	17	---	---	---	---	PASS	T	19284863	T	T	19284863	2	4	13	1	0	0	0	0	0	0	0	1	9282	477	17	3		3	MAPK7	17	19284863	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	11706448	19284863	61910347	359	7703										
ERAL1	26284	broad.mit.edu	37	chr17	27186253	27186253	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgggaggaaggaccaggtggGgagctggttatccaacagaa	17	6	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:27186253G>T	uc002hcy.1	+	9	1153	c.1143G>T	c.(1141-1143)GGG>GGT	p.G381G	ERAL1_uc002hcz.1_RNA|ERAL1_uc002hda.1_Silent_p.G188G|ERAL1_uc002hdb.1_Silent_p.G264G	NM_005702	NP_005693	O75616	ERAL1_HUMAN	Era-like 1	381	KH type-2.				ribosomal small subunit assembly	mitochondrial inner membrane|mitochondrial matrix	GTP binding|ribosomal small subunit binding|rRNA binding			skin(1)	1	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;1.12e-05)|all cancers(11;5.32e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.105)			GACCAGGTGGGGAGCTGGTTA	0.493													6	66	---	---	---	---	PASS	T	27186253	T	T	27186253	2	4	13	1	0	0	0	0	0	0	0	1	5202	1219	43	3		3	ERAL1	17	27186253	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	7901390	27186253	54008957	360	7704										
ATAD5	79915	broad.mit.edu	37	chr17	29221045	29221045	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	taaatgttcttctgctatttCaaaagcattggaaaccttga	6	7	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:29221045C>T	uc002hfs.1	+	21	5520	c.5174C>T	c.(5173-5175)TCA>TTA	p.S1725L		NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	1725					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				TCTGCTATTTCAAAAGCATTG	0.358													6	29	---	---	---	---	PASS	T	29221045	T	T	29221045	3	4	13	1	0	0	0	0	1	0	0	0	1076	838	29	2	5256	2	ATAD5	17	29221045	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	2034792	29221045	51974165	361	7705										
KRT222	125113	broad.mit.edu	37	chr17	38816289	38816289	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	taagttgctatttcttgttcCagcctcatcttcgtgttgag	8	9	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:38816289C>A	uc002hvc.2	-	3	461	c.396G>T	c.(394-396)CTG>CTT	p.L132L	KRT222_uc010wfk.1_RNA|KRT222_uc002hvb.2_Silent_p.L92L|KRT222_uc010cxc.2_Silent_p.L92L	NM_152349	NP_689562	Q8N1A0	KT222_HUMAN	truncated type I keratin KA21	132	Potential.					intermediate filament	structural molecule activity			central_nervous_system(1)|skin(1)	2						TTTCTTGTTCCAGCCTCATCT	0.443													6	106	---	---	---	---	PASS	A	38816289	A	A	38816289	2	1	13	1	0	0	0	0	0	0	0	1	8459	581	21	3		3	KRT222	17	38816289	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	9595244	38816289	42378921	362	7706										
BRCA1	672	broad.mit.edu	37	chr17	41256906	41256906	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctccaaacctgtgtcaagctGaaaagcacaaatgattttca	6	10	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:41256906G>A	uc002icq.2	-	5	512	c.280C>T	c.(280-282)CAG>TAG	p.Q94*	BRCA1_uc010whp.1_Nonsense_Mutation_p.Q47*|BRCA1_uc010whl.1_Nonsense_Mutation_p.Q94*|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Nonsense_Mutation_p.Q24*|BRCA1_uc002icu.2_Nonsense_Mutation_p.Q94*|BRCA1_uc010cyx.2_Nonsense_Mutation_p.Q47*|BRCA1_uc002ict.2_Nonsense_Mutation_p.Q94*|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_5'UTR|BRCA1_uc002idc.1_Nonsense_Mutation_p.Q94*|BRCA1_uc010whr.1_Nonsense_Mutation_p.Q47*|BRCA1_uc002idd.2_Nonsense_Mutation_p.Q94*|BRCA1_uc002ide.1_5'UTR|BRCA1_uc010cyy.1_Nonsense_Mutation_p.Q94*|BRCA1_uc010whs.1_Nonsense_Mutation_p.Q94*|BRCA1_uc010cyz.2_Nonsense_Mutation_p.Q47*|BRCA1_uc010cza.2_Nonsense_Mutation_p.Q68*|BRCA1_uc010wht.1_Intron	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	94					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		GTGTCAAGCTGAAAAGCACAA	0.373			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			42	16	---	---	---	---	PASS	A	41256906	A	A	41256906	4	1	13	1	0	0	0	0	0	1	0	0	1498	1299	45	2	5457	2	BRCA1	17	41256906	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2440617	41256906	39938304	363	7707										
TMEM101	84336	broad.mit.edu	37	chr17	42089419	42089419	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	taagcaacattgccatcaatGagcagcatgacagggggcag	12	9	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:42089419G>C	uc002ieu.2	-	4	676	c.651C>G	c.(649-651)CTC>CTG	p.L217L	TMEM101_uc010wis.1_Silent_p.L159L	NM_032376	NP_115752	Q96IK0	TM101_HUMAN	transmembrane protein 101	217	Helical; (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		Breast(137;0.0264)|Prostate(33;0.0861)		BRCA - Breast invasive adenocarcinoma(366;0.113)		TGCCATCAATGAGCAGCATGA	0.567													12	54	---	---	---	---	PASS	C	42089419	C	C	42089419	2	2	13	1	0	0	0	0	0	0	0	1	16013	1277	45	2		2	TMEM101	17	42089419	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	832513	42089419	39105791	364	7708										
NFE2L1	4779	broad.mit.edu	37	chr17	46135878	46135878	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	acgctgctcccgttggccccCagcaattctaccagcctcaa	7	18	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:46135878C>T	uc002imz.3	+	6	1845	c.1194C>T	c.(1192-1194)CCC>CCT	p.P398P	NFE2L1_uc002ina.3_Silent_p.P368P|NFE2L1_uc002inb.3_Silent_p.P368P|NFE2L1_uc010wle.1_Silent_p.P210P|NFE2L1_uc010wlf.1_Silent_p.P242P	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	398					anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						CGTTGGCCCCCAGCAATTCTA	0.622													9	76	---	---	---	---	PASS	T	46135878	T	T	46135878	2	4	13	1	0	0	0	0	0	0	0	1	10367	581	21	3		3	NFE2L1	17	46135878	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	4046459	46135878	35059332	365	7709										
IGF2BP1	10642	broad.mit.edu	37	chr17	47122365	47122365	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctttttagattgcaccacccGaaacacctgactccaaagtt	5	13	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:47122365G>T	uc002iom.2	+	12	1667	c.1333G>T	c.(1333-1335)GAA>TAA	p.E445*	IGF2BP1_uc010dbj.2_Nonsense_Mutation_p.E306*	NM_006546	NP_006537	Q9NZI8	IF2B1_HUMAN	insulin-like growth factor 2 mRNA binding	445	KH 3.|Necessary for interaction with ELAVL4 and binding to TAU mRNA (By similarity).				CRD-mediated mRNA stabilization|negative regulation of translation|regulation of mRNA stability involved in response to stress	CRD-mediated mRNA stability complex|cytosol|dendritic spine|lamellipodium|nucleus|plasma membrane|stress granule	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			kidney(1)	1						TGCACCACCCGAAACACCTGA	0.483													64	51	---	---	---	---	PASS	T	47122365	T	T	47122365	4	4	13	1	0	0	0	0	0	1	0	0	7573	1059	37	2	1379	2	IGF2BP1	17	47122365	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	986487	47122365	34072845	366	7710										
STXBP4	252983	broad.mit.edu	37	chr17	53108533	53108533	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtcctttatcttccaggctcTaaattatcttggtattcagc	6	10	4	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:53108533T>C	uc002iuf.1	+	9	878	c.671T>C	c.(670-672)CTA>CCA	p.L224P	STXBP4_uc010dcc.1_Missense_Mutation_p.L149P|STXBP4_uc010dcd.1_Missense_Mutation_p.L224P	NM_178509	NP_848604	Q6ZWJ1	STXB4_HUMAN	syntaxin binding protein 4	224						cytoplasm	calcium ion binding			ovary(1)	1						TTCCAGGCTCTAAATTATCTT	0.363													3	22	---	---	---	---	PASS	C	53108533	C	C	53108533	3	2	13	1	0	0	0	0	1	0	0	0	15354	1522	53	5	697	5	STXBP4	17	53108533	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	5986168	53108533	28086677	367	7711										
TEX14	56155	broad.mit.edu	37	chr17	56677004	56677004	+	Frame_Shift_Del	DEL	C	-	-													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctcagtgaataaagagtgaaCccttggtgaatgaggttgac							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:56677004delC	uc010dcz.1	-	14	1838	c.1720delG	c.(1720-1722)GTTfs	p.V574fs	TEX14_uc002iwr.1_Frame_Shift_Del_p.V568fs|TEX14_uc002iws.1_Frame_Shift_Del_p.V568fs|TEX14_uc010dda.1_Frame_Shift_Del_p.V348fs	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	574						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AAAGAGTGAACCCTTGGTGAA	0.463													34	26	---	---	---	---		-	56677004	-	-	56677004	7	5	13	1	0	1	0	1	0	0	0	0	15775	507	18	0	2853	0	TEX14	17	56677004	Frame_Shift_Del	DEL	C	TCGA-18-3421-01A-01D-0983-08	3568471	56677004	24518206	368	7712										
C17orf71	55181	broad.mit.edu	37	chr17	57288253	57288253	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccctcaaggtagaacctcctCggaaccaagacccagctcat	7	16	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:57288253C>A	uc002ixi.2	+	1	883	c.841C>A	c.(841-843)CGG>AGG	p.R281R		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	281					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					AGAACCTCCTCGGAACCAAGA	0.512													4	79	---	---	---	---	PASS	A	57288253	A	A	57288253	2	1	13	1	0	0	0	0	0	0	0	1	1878	875	31	2		2	C17orf71	17	57288253	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	611249	57288253	23906957	369	7713										
APPBP2	10513	broad.mit.edu	37	chr17	58538059	58538059	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttcccagagctatactggtgGacataagaagagtaggccaa	11	8	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:58538059G>A	uc002iys.1	-	9	1314	c.1026C>T	c.(1024-1026)GTC>GTT	p.V342V	APPBP2_uc010ddl.1_Silent_p.V271V	NM_006380	NP_006371	Q92624	APBP2_HUMAN	amyloid beta precursor protein-binding protein	342	TPR 5.				intracellular protein transport	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|nucleus	microtubule motor activity|protein binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.67e-13)|all cancers(12;1.44e-11)|Colorectal(3;0.01)			TATACTGGTGGACATAAGAAG	0.398													21	16	---	---	---	---	PASS	A	58538059	A	A	58538059	2	1	13	1	0	0	0	0	0	0	0	1	816	1161	41	2		2	APPBP2	17	58538059	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	1249806	58538059	22657151	370	7714										
ABCA9	10350	broad.mit.edu	37	chr17	66972116	66972116	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggatcaaagtcctcttcaagAtcacccagctcctgctcctt	6	15	4	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:66972116A>T	uc002jhu.2	-	39	4958	c.4815T>A	c.(4813-4815)GAT>GAA	p.D1605E	ABCA9_uc010dez.2_Missense_Mutation_p.D1567E	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1605					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					CCTCTTCAAGATCACCCAGCT	0.473													15	9	---	---	---	---	PASS	T	66972116	T	T	66972116	3	4	13	1	0	0	0	0	1	0	0	0	39	330	12	5	63	5	ABCA9	17	66972116	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	8434057	66972116	14223094	371	7715										
TRIM47	91107	broad.mit.edu	37	chr17	73870746	73870746	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gatgccaccccggcggggccGggaggccttcagcctccgca	15	17	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:73870746G>A	uc002jpw.2	-	6	1762	c.1735C>T	c.(1735-1737)CGG>TGG	p.R579W	TRIM47_uc002jpv.2_Missense_Mutation_p.R341W	NM_033452	NP_258411	Q96LD4	TRI47_HUMAN	tripartite motif-containing 47	579	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|prostate(1)|lung(1)|breast(1)	5			Epithelial(20;4.23e-06)|all cancers(21;5.24e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			CGGCGGGGCCGGGAGGCCTTC	0.667													8	36	---	---	---	---	PASS	A	73870746	A	A	73870746	3	1	13	1	0	0	0	0	1	0	0	0	16519	1115	39	1	185	1	TRIM47	17	73870746	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	6898630	73870746	7324464	372	7716										
ZNF750	79755	broad.mit.edu	37	chr17	80790024	80790024	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttccctggcagagctgtgctGaagcttcgagtcgaaggcag	14	10	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr17:80790024G>A	uc002kga.2	-	2	618	c.307C>T	c.(307-309)CAG>TAG	p.Q103*	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	103						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GAGCTGTGCTGAAGCTTCGAG	0.597													27	28	---	---	---	---	PASS	A	80790024	A	A	80790024	4	1	13	1	0	0	0	0	0	1	0	0	18129	1299	45	2	1872	2	ZNF750	17	80790024	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	6919278	80790024	405186	373	7717										
LAMA3	3909	broad.mit.edu	37	chr18	21531685	21531685	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cagtggggcaggtgggacctCaacgtcggtcacaccaaagc	14	12	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr18:21531685C>A	uc002kuq.2	+	73	9766	c.9680C>A	c.(9679-9681)TCA>TAA	p.S3227*	LAMA3_uc002kur.2_Nonsense_Mutation_p.S3171*|LAMA3_uc002kus.3_Nonsense_Mutation_p.S1618*|LAMA3_uc002kut.3_Nonsense_Mutation_p.S1562*	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	3227	Laminin G-like 5.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGTGGGACCTCAACGTCGGTC	0.552													4	14	---	---	---	---	PASS	A	21531685	A	A	21531685	4	1	13	1	0	0	0	0	0	1	0	0	8607	838	29	2	10145	2	LAMA3	18	21531685	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08		21531685	56545563	374	7718										
MYO5B	4645	broad.mit.edu	37	chr18	47404253	47404253	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cgcctatgacctggagtttgCtgttcaacaagaaaaacgtg	10	9	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr18:47404253C>A	uc002leb.2	-	25	3565	c.3277_splice	c.e25-1	p.Q1093_splice	MYO5B_uc002lea.2_Splice_Site_p.Q234_splice	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB						protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		CTGGAGTTTGCTGTTCAACAA	0.453													58	30	---	---	---	---	PASS	A	47404253	A	A	47404253	5	1	13	1	0	0	0	0	0	0	1	0	10079	811	28	3	2334	3	MYO5B	18	47404253	Splice_Site	SNP	C	TCGA-18-3421-01A-01D-0983-08	25872568	47404253	30672995	375	7719										
WDR7	23335	broad.mit.edu	37	chr18	54349917	54349917	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggcatgaatgtagttctaccAgttctctgttgggaatcagc	11	8	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr18:54349917A>G	uc002lgk.1	+	5	564	c.353A>G	c.(352-354)CAG>CGG	p.Q118R	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.Q118R	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	118										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		TAGTTCTACCAGTTCTCTGTT	0.373													26	21	---	---	---	---	PASS	G	54349917	G	G	54349917	3	3	13	1	0	0	0	0	1	0	0	0	17317	188	7	5	367	5	WDR7	18	54349917	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	6945664	54349917	23727331	376	7720										
PHLPP1	23239	broad.mit.edu	37	chr18	60612496	60612496	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccgaagttatgcagctcccaGagatcaaggtatgtggtttc	11	9	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr18:60612496G>C	uc002lis.2	+	13	1958	c.1780G>C	c.(1780-1782)GAG>CAG	p.E594Q		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	1106	LRR 20.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						GCAGCTCCCAGAGATCAAGGT	0.458													6	39	---	---	---	---	PASS	C	60612496	C	C	60612496	3	2	13	1	0	0	0	0	1	0	0	0	11854	943	33	2	3362	2	PHLPP1	18	60612496	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	6262579	60612496	17464752	377	7721										
C18orf55	29090	broad.mit.edu	37	chr18	71816207	71816207	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aaagaaaacgctgcgacctaGatgtattcttggagtcaccc	9	10	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr18:71816207G>C	uc010dqr.1	+	1	462	c.164G>C	c.(163-165)AGA>ACA	p.R55T	FBXO15_uc002lle.2_5'Flank|FBXO15_uc002llf.2_5'Flank	NM_014177	NP_054896	Q9BVV7	TI21L_HUMAN	hypothetical protein LOC29090 precursor	55					protein transport|transmembrane transport	integral to membrane|mitochondrial membrane					0		Esophageal squamous(42;0.0746)|Prostate(75;0.157)|Melanoma(33;0.211)				CTGCGACCTAGATGTATTCTT	0.493													83	105	---	---	---	---	PASS	C	71816207	C	C	71816207	3	2	13	1	0	0	0	0	1	0	0	0	1905	942	33	2	166	2	C18orf55	18	71816207	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	11203711	71816207	6261041	378	7722										
MKNK2	2872	broad.mit.edu	37	chr19	2043172	2043172	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aagcggtcctcctcctcgaaGaactcaatcagctctaggac	8	14	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:2043172G>A	uc002lus.2	-	7	689	c.444C>T	c.(442-444)TTC>TTT	p.F148F	MKNK2_uc002luq.1_5'Flank|MKNK2_uc010xgu.1_Intron|MKNK2_uc010xgv.1_Silent_p.F17F|MKNK2_uc002lur.2_Silent_p.F148F|MKNK2_uc002lut.1_5'Flank	NM_199054	NP_951009	Q9HBH9	MKNK2_HUMAN	MAP kinase-interacting serine/threonine kinase 2	148	Protein kinase.				cell surface receptor linked signaling pathway|intracellular protein kinase cascade|regulation of translation		ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(1)|breast(1)	2		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCCTCGAAGAACTCAATCA	0.637													23	144	---	---	---	---	PASS	A	2043172	A	A	2043172	2	1	13	1	0	0	0	0	0	0	0	1	9605	933	33	2		2	MKNK2	19	2043172	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08		2043172	57085811	379	7723										
MUC16	94025	broad.mit.edu	37	chr19	9047990	9047990	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cactggtctctgacccagaaCtagtgaccagtgaagtcacc	9	13	2	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:9047990C>G	uc002mkp.2	-	5	33845	c.33641G>C	c.(33640-33642)AGT>ACT	p.S11214T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11216	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGACCCAGAACTAGTGACCAG	0.483													12	36	---	---	---	---	PASS	G	9047990	G	G	9047990	3	3	13	1	0	0	0	0	1	0	0	0	9973	565	20	4	10202	4	MUC16	19	9047990	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	7004818	9047990	50080993	380	7724										
MUC16	94025	broad.mit.edu	37	chr19	9076334	9076334	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaaaccattgaaacaggcacAtcttctgcttctgtactact	6	11	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:9076334A>T	uc002mkp.2	-	3	11316	c.11112T>A	c.(11110-11112)GAT>GAA	p.D3704E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3705	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AAACAGGCACATCTTCTGCTT	0.438													39	103	---	---	---	---	PASS	T	9076334	T	T	9076334	3	4	13	1	0	0	0	0	1	0	0	0	9973	214	8	5	32739	5	MUC16	19	9076334	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	28344	9076334	50052649	381	7725										
ZNF426	79088	broad.mit.edu	37	chr19	9639645	9639645	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	attcatagggcttgtctccaCtgtgagatcgtacatgcata	9	9	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:9639645C>A	uc002mlq.2	-	8	1340	c.1076G>T	c.(1075-1077)AGT>ATT	p.S359I	ZNF426_uc010dws.2_Missense_Mutation_p.S321I	NM_024106	NP_077011	Q9BUY5	ZN426_HUMAN	zinc finger protein 426	359					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTTGTCTCCACTGTGAGATCG	0.443													10	49	---	---	---	---	PASS	A	9639645	A	A	9639645	3	1	13	1	0	0	0	0	1	0	0	0	17897	565	20	3	592	3	ZNF426	19	9639645	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	563311	9639645	49489338	382	7726										
ICAM5	7087	broad.mit.edu	37	chr19	10401852	10401852	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcaccaactgccctcggccgGagcgcggtggcctggagacc	15	16	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:10401852G>C	uc002mnu.3	+	2	252	c.187G>C	c.(187-189)GAG>CAG	p.E63Q	ICAM5_uc002mnv.3_5'Flank	NM_003259	NP_003250	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5 precursor	63	Extracellular (Potential).|Ig-like C2-type 1.				cell-cell adhesion	integral to plasma membrane				breast(3)	3			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			CCCTCGGCCGGAGCGCGGTGG	0.697													4	13	---	---	---	---	PASS	C	10401852	C	C	10401852	3	2	13	1	0	0	0	0	1	0	0	0	7483	1175	41	2	193	2	ICAM5	19	10401852	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	762207	10401852	48727131	383	7727										
TYK2	7297	broad.mit.edu	37	chr19	10475529	10475529	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccctaccctgggcctcaccaGgcacttgttgtcctgccggt	10	17	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:10475529G>T	uc002moc.3	-	8	1585	c.1207C>A	c.(1207-1209)CTG>ATG	p.L403M	TYK2_uc010dxe.2_Missense_Mutation_p.L218M|TYK2_uc002mod.2_Missense_Mutation_p.L403M	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	403	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			GGCCTCACCAGGCACTTGTTG	0.647													6	58	---	---	---	---	PASS	T	10475529	T	T	10475529	3	4	13	1	0	0	0	0	1	0	0	0	16807	991	35	3	2428	3	TYK2	19	10475529	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	73677	10475529	48653454	384	7728										
SLC44A2	57153	broad.mit.edu	37	chr19	10736965	10736965	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tgatcccactttcaaaggacCcatttacaataggtaagagc	7	10	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:10736965C>A	uc002mpf.2	+	2	213	c.74C>A	c.(73-75)CCC>CAC	p.P25H	SLC44A2_uc002mpe.3_Missense_Mutation_p.P23H	NM_020428	NP_065161	Q8IWA5	CTL2_HUMAN	solute carrier family 44, member 2 isoform 1	25	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane|plasma membrane	choline transmembrane transporter activity|signal transducer activity			ovary(1)	1			Epithelial(33;8.7e-06)|all cancers(31;2.77e-05)		Choline(DB00122)	TTCAAAGGACCCATTTACAAT	0.498													23	66	---	---	---	---	PASS	A	10736965	A	A	10736965	3	1	13	1	0	0	0	0	1	0	0	0	14636	623	22	3	115	3	SLC44A2	19	10736965	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	261436	10736965	48392018	385	7729										
CCDC151	115948	broad.mit.edu	37	chr19	11533515	11533515	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtgtcgccctgggccaggaaCcgccgcaccaacgactgcgg	14	16	0	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:11533515C>A	uc002mrs.2	-	9	1274	c.1131G>T	c.(1129-1131)CGG>CGT	p.R377R	CCDC151_uc002mrr.2_Silent_p.R312R|CCDC151_uc010dxz.2_Silent_p.R317R	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	377										ovary(1)	1						GGGCCAGGAACCGCCGCACCA	0.667													5	13	---	---	---	---	PASS	A	11533515	A	A	11533515	2	1	13	1	0	0	0	0	0	0	0	1	2786	494	18	3		3	CCDC151	19	11533515	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	796550	11533515	47595468	386	7730										
EMR3	84658	broad.mit.edu	37	chr19	14748926	14748926	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttcaagctcaccgatcagcaGttccataaaggtgaggccag	10	11	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:14748926G>T	uc002mzi.3	-	11	1623	c.1475C>A	c.(1474-1476)ACT>AAT	p.T492N	EMR3_uc010dzp.2_Missense_Mutation_p.T440N|EMR3_uc010xnv.1_Missense_Mutation_p.T366N	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	492	Extracellular (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						CCGATCAGCAGTTCCATAAAG	0.493													15	60	---	---	---	---	PASS	T	14748926	T	T	14748926	3	4	13	1	0	0	0	0	1	0	0	0	5106	1029	36	3	507	3	EMR3	19	14748926	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	3215411	14748926	44380057	387	7731										
NDUFA13	51079	broad.mit.edu	37	chr19	19646197	19646197	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gctcgctggacctgctgcatCgggacctgaccacccagtgc	12	16	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:19646197C>T	uc010xqy.1	+	6	986	c.727C>T	c.(727-729)CGG>TGG	p.R243W	YJEFN3_uc002nmt.1_Missense_Mutation_p.R161W|YJEFN3_uc010ecf.1_Missense_Mutation_p.R111W|YJEFN3_uc002nmu.1_RNA|CILP2_uc002nmv.3_5'Flank|CILP2_uc002nmw.3_5'Flank	NM_015965	NP_057049	Q9P0J0	NDUAD_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	Error:Variant_position_missing_in_Q9P0J0_after_alignment					apoptotic nuclear change|induction of apoptosis by extracellular signals|negative regulation of cell growth|negative regulation of transcription, DNA-dependent|negative regulation of translation|protein import into nucleus|reactive oxygen species metabolic process|respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex I|nucleoplasm	ATP binding|NADH dehydrogenase (ubiquinone) activity|protein binding				0					NADH(DB00157)	CCTGCTGCATCGGGACCTGAC	0.627													6	22	---	---	---	---	PASS	T	19646197	T	T	19646197	3	4	13	1	0	0	0	0	1	0	0	0	10263	875	31	2		2	NDUFA13	19	19646197	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4897271	19646197	39482786	388	7732										
UQCRFS1	7386	broad.mit.edu	37	chr19	29698533	29698533	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agaggagcaggacccaatctGatcctgccagatgcatcata	10	11	2	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:29698533G>C	uc002nsd.2	-	2	858	c.747C>G	c.(745-747)ATC>ATG	p.I249M		NM_006003	NP_005994	P47985	UCRI_HUMAN	ubiquinol-cytochrome c reductase, Rieske	249	Rieske.				respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex III	2 iron, 2 sulfur cluster binding|metal ion binding|ubiquinol-cytochrome-c reductase activity				0	Breast(6;0.0545)|Esophageal squamous(110;0.239)		Lung(7;0.092)			GACCCAATCTGATCCTGCCAG	0.473													7	22	---	---	---	---	PASS	C	29698533	C	C	29698533	3	2	13	1	0	0	0	0	1	0	0	0	17018	1280	45	2	81	2	UQCRFS1	19	29698533	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	10052336	29698533	29430450	389	7733										
SLC7A9	11136	broad.mit.edu	37	chr19	33350756	33350756	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cgggcactcaccacagccacCgcctgggactgcaggagttc	12	16	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:33350756C>G	uc002ntv.3	-	8	981	c.864G>C	c.(862-864)GCG>GCC	p.A288A	SLC7A9_uc002ntt.3_RNA|SLC7A9_uc002ntu.3_Silent_p.A288A|SLC7A9_uc002ntw.3_Silent_p.A79A	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	288	Extracellular (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	CCACAGCCACCGCCTGGGACT	0.632													6	16	---	---	---	---	PASS	G	33350756	G	G	33350756	2	3	13	1	0	0	0	0	0	0	0	1	14705	639	23	4		4	SLC7A9	19	33350756	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	3652223	33350756	25778227	390	7734										
KIRREL2	84063	broad.mit.edu	37	chr19	36351210	36351210	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccctcacagaccccccagagGtgactctgtctgcttcgcca	8	18	3	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:36351210G>C	uc002ocb.3	+	6	897	c.685G>C	c.(685-687)GTG>CTG	p.V229L	KIRREL2_uc002obz.3_Missense_Mutation_p.V229L|KIRREL2_uc002oca.3_Missense_Mutation_p.V179L|KIRREL2_uc002occ.3_Missense_Mutation_p.V176L|KIRREL2_uc002ocd.3_Missense_Mutation_p.V226L	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	229	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCCCCCAGAGGTGACTCTGTC	0.532													14	52	---	---	---	---	PASS	C	36351210	C	C	36351210	3	2	13	1	0	0	0	0	1	0	0	0	8325	1261	44	4	707	4	KIRREL2	19	36351210	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	3000454	36351210	22777773	391	7735										
RYR1	6261	broad.mit.edu	37	chr19	38948752	38948752	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cgcagtacagcaaatggtacTttgaggtgatggtggacgag	15	6	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:38948752T>C	uc002oit.2	+	18	2117	c.1987T>C	c.(1987-1989)TTT>CTT	p.F663L	RYR1_uc002oiu.2_Missense_Mutation_p.F663L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	663	Cytoplasmic.|B30.2/SPRY 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CAAATGGTACTTTGAGGTGAT	0.617													10	40	---	---	---	---	PASS	C	38948752	C	C	38948752	3	2	13	1	0	0	0	0	1	0	0	0	13768	1609	56	5	2057	5	RYR1	19	38948752	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	2597542	38948752	20180231	392	7736										
RYR1	6261	broad.mit.edu	37	chr19	38994876	38994876	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccagctcctcaccaaccactAtgagcgctgttggaagtact	8	14	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:38994876A>G	uc002oit.2	+	50	8073	c.7943A>G	c.(7942-7944)TAT>TGT	p.Y2648C	RYR1_uc002oiu.2_Missense_Mutation_p.Y2648C|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2648	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	ACCAACCACTATGAGCGCTGT	0.607													5	22	---	---	---	---	PASS	G	38994876	G	G	38994876	3	3	13	1	0	0	0	0	1	0	0	0	13768	449	16	5	8141	5	RYR1	19	38994876	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	46124	38994876	20134107	393	7737										
IL28B	282617	broad.mit.edu	37	chr19	39734686	39734686	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaggatatggtgcagggtgtGaaggggctggtccaagacat	18	5	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:39734686G>T	uc010xut.1	-	3	374	c.370C>A	c.(370-372)CAC>AAC	p.H124N	IL28B_uc010xuu.1_Missense_Mutation_p.H124N	NM_172139	NP_742151	Q8IZI9	IL28B_HUMAN	interleukin 28B	124					response to virus	extracellular space	cytokine activity				0	all_cancers(60;2.81e-07)|all_lung(34;7.81e-08)|Lung NSC(34;9.29e-08)|all_epithelial(25;3.9e-07)|Ovarian(47;0.0315)		Epithelial(26;1.55e-27)|all cancers(26;1.41e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			TGCAGGGTGTGAAGGGGCTGG	0.667													16	39	---	---	---	---	PASS	T	39734686	T	T	39734686	3	4	13	1	0	0	0	0	1	0	0	0	7683	1290	45	2	231	2	IL28B	19	39734686	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	739810	39734686	19394297	394	7738										
PAF1	54623	broad.mit.edu	37	chr19	39880797	39880797	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cttgactcggcagaccactcCagacctaggaacattagtgg	10	12	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:39880797C>A	uc002old.2	-	3	257	c.82G>T	c.(82-84)GGA>TGA	p.G28*	PAF1_uc002ole.1_Nonsense_Mutation_p.G18*|PAF1_uc010xuv.1_RNA|MED29_uc010xuw.1_5'Flank|MED29_uc002olf.2_5'Flank|MED29_uc010xux.1_5'Flank	NM_019088	NP_061961	Q8N7H5	PAF1_HUMAN	Paf1, RNA polymerase II associated factor,	28					histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			pancreas(1)	1	all_cancers(60;9.14e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.88e-06)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			CAGACCACTCCAGACCTAGGA	0.597													5	61	---	---	---	---	PASS	A	39880797	A	A	39880797	4	1	13	1	0	0	0	0	0	1	0	0	11383	603	21	3	1561	3	PAF1	19	39880797	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	146111	39880797	19248186	395	7739										
SELV	348303	broad.mit.edu	37	chr19	40006605	40006605	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aattgtacggaaaccttcccCtcctccagcgagaacttcgc	7	15	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:40006605C>G	uc010xvc.1	+	1	853	c.753C>G	c.(751-753)CCC>CCG	p.P251P		NM_182704	NP_874363	P59797	SELV_HUMAN	selenoprotein V	251					cell redox homeostasis		selenium binding				0	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;8.61e-26)|all cancers(26;2.76e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			AAACCTTCCCCTCCTCCAGCG	0.627													5	26	---	---	---	---	PASS	G	40006605	G	G	40006605	2	3	13	1	0	0	0	0	0	0	0	1	14023	668	24	4		4	SELV	19	40006605	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	125808	40006605	19122378	396	7740										
B3GNT8	374907	broad.mit.edu	37	chr19	41931914	41931914	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcagggcccgcaggtgagccAgcagggcaggggtgtgtaca	19	10	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:41931914A>C	uc002oqs.2	-	3	1224	c.770T>G	c.(769-771)CTG>CGG	p.L257R	CYP2F1_uc010xvw.1_Intron|B3GNT8_uc002oqt.1_Intron	NM_198540	NP_940942	Q7Z7M8	B3GN8_HUMAN	UDP-GlcNAc:betaGal	257	Lumenal (Potential).				poly-N-acetyllactosamine biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity|protein N-acetylglucosaminyltransferase activity				0						CAGGTGAGCCAGCAGGGCAGG	0.652													8	22	---	---	---	---	PASS	C	41931914	C	C	41931914	3	2	13	1	0	0	0	0	1	0	0	0	1263	188	7	5	427	5	B3GNT8	19	41931914	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	1925309	41931914	17197069	397	7741										
IRGC	56269	broad.mit.edu	37	chr19	44223961	44223961	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccggaggtcagcttggaagtGgccagtgacaatggcgtgga	17	8	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:44223961G>C	uc002oxh.2	+	2	1398	c.1251G>C	c.(1249-1251)GTG>GTC	p.V417V		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	417						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				GCTTGGAAGTGGCCAGTGACA	0.637													20	12	---	---	---	---	PASS	C	44223961	C	C	44223961	2	2	13	1	0	0	0	0	0	0	0	1	7838	1335	47	4		4	IRGC	19	44223961	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	2292047	44223961	14905022	398	7742										
RSPH6A	81492	broad.mit.edu	37	chr19	46308061	46308061	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	cacctcctcctcctctgcctCctcctcgccctcccggaatt	4	23	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:46308061C>T	uc002pdm.2	-	3	1245	c.1102G>A	c.(1102-1104)GAG>AAG	p.E368K	RSPH6A_uc002pdl.2_Missense_Mutation_p.E104K	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	368	Glu-rich.					intracellular				ovary(1)|central_nervous_system(1)	2						tcctctgcctcctcctcgccc	0.353													21	19	---	---	---	---	PASS	T	46308061	T	T	46308061	3	4	13	1	0	0	0	0	1	0	0	0	13707	864	30	2	1067	2	RSPH6A	19	46308061	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	2084100	46308061	12820922	399	7743										
CLEC11A	6320	broad.mit.edu	37	chr19	51226889	51226889	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggagggaggctggggaggtgCccaggaggaggagcgggaga	25	5	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:51226889C>T	uc002psy.2	+	1	285	c.107C>T	c.(106-108)GCC>GTC	p.A36V		NM_002975	NP_002966	Q9Y240	CLC11_HUMAN	stem cell growth factor precursor	36					positive regulation of cell proliferation	cytoplasm|extracellular region	growth factor activity|sugar binding			ovary(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		tggggaggtgcccaggaggag	0.413													8	27	---	---	---	---	PASS	T	51226889	T	T	51226889	3	4	13	1	0	0	0	0	1	0	0	0	3496	739	26	3	109	3	CLEC11A	19	51226889	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4918828	51226889	7902094	400	7744										
NKG7	4818	broad.mit.edu	37	chr19	51875756	51875756	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaacatcaggcccagggagcCccccagcagggccagggacc	14	16	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:51875756C>A	uc002pwj.2	-	1	205	c.34G>T	c.(34-36)GGC>TGC	p.G12C	NKG7_uc002pwk.2_Missense_Mutation_p.G12C	NM_005601	NP_005592	Q16617	NKG7_HUMAN	natural killer cell group 7 sequence	12	Helical; (Potential).					integral to plasma membrane				central_nervous_system(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000211)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		CCCAGGGAGCCCCCCAGCAGG	0.478													27	16	---	---	---	---	PASS	A	51875756	A	A	51875756	3	1	13	1	0	0	0	0	1	0	0	0	10443	623	22	3	479	3	NKG7	19	51875756	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	648867	51875756	7253227	401	7745										
ZNF615	284370	broad.mit.edu	37	chr19	52497492	52497492	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttccctcccatatgagttttCtgatgtatattgagctgtga	8	8	1	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:52497492C>T	uc002pye.1	-	6	1129	c.837G>A	c.(835-837)CAG>CAA	p.Q279Q	ZNF615_uc002pyf.1_Silent_p.Q290Q|ZNF615_uc002pyg.1_Silent_p.Q171Q|ZNF615_uc002pyh.1_Silent_p.Q290Q|ZNF615_uc010epi.1_Silent_p.Q286Q|ZNF615_uc010ydg.1_Silent_p.Q284Q	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	279	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TATGAGTTTTCTGATGTATAT	0.403													16	78	---	---	---	---	PASS	T	52497492	T	T	52497492	2	4	13	1	0	0	0	0	0	0	0	1	18037	912	32	2		2	ZNF615	19	52497492	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	621736	52497492	6631491	402	7746										
ZNF331	55422	broad.mit.edu	37	chr19	54080277	54080277	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aacatcagaaaatccatactGgtgagaaaccttatgaatgt	7	7	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:54080277G>T	uc002qbx.1	+	7	1897	c.463G>T	c.(463-465)GGT>TGT	p.G155C	ZNF331_uc002qby.1_Missense_Mutation_p.G155C|ZNF331_uc002qbz.1_Missense_Mutation_p.G155C|ZNF331_uc002qca.1_Missense_Mutation_p.G155C|ZNF331_uc010eqr.1_Missense_Mutation_p.G155C|ZNF331_uc002qcb.1_Missense_Mutation_p.G155C|ZNF331_uc002qcc.1_Missense_Mutation_p.G155C|ZNF331_uc002qcd.1_Missense_Mutation_p.G155C	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		AATCCATACTGGTGAGAAACC	0.413			T	?	follicular thyroid adenoma								8	151	---	---	---	---	PASS	T	54080277	T	T	54080277	3	4	13	1	0	0	0	0	1	0	0	0	17846	1348	47	3	473	3	ZNF331	19	54080277	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1582785	54080277	5048706	403	7747										
CACNG6	59285	broad.mit.edu	37	chr19	54515268	54515268	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gagggccctgctgcagagagTcagcccggagcctcccccgg	15	16	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:54515268T>C	uc002qct.2	+	4	1198	c.608T>C	c.(607-609)GTC>GCC	p.V203A	CACNG6_uc002qcu.2_Missense_Mutation_p.V157A|CACNG6_uc002qcv.2_Missense_Mutation_p.V132A	NM_145814	NP_665813	Q9BXT2	CCG6_HUMAN	voltage-dependent calcium channel gamma-6	203						voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(2)	2	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.168)		CTGCAGAGAGTCAGCCCGGAG	0.711													5	24	---	---	---	---	PASS	C	54515268	C	C	54515268	3	2	13	1	0	0	0	0	1	0	0	0	2561	1667	58	5	622	5	CACNG6	19	54515268	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	434991	54515268	4613715	404	7748										
LILRA4	23547	broad.mit.edu	37	chr19	54848764	54848764	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtactggcccccgtaggagcGgctcacagggctcagggtga	16	12	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:54848764G>A	uc002qfj.2	-	5	916	c.859C>T	c.(859-861)CGC>TGC	p.R287C	LILRA4_uc002qfi.2_Missense_Mutation_p.R221C	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	287	Extracellular (Potential).|Ig-like C2-type 3.					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		CCGTAGGAGCGGCTCACAGGG	0.682													13	15	---	---	---	---	PASS	A	54848764	A	A	54848764	3	1	13	1	0	0	0	0	1	0	0	0	8787	1116	39	1	656	1	LILRA4	19	54848764	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	333496	54848764	4280219	405	7749										
LILRB4	11006	broad.mit.edu	37	chr19	55179359	55179359	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gccccccaggatgtgacctaCgcccagctgcacagctttac	9	17	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:55179359C>T	uc002qgp.2	+	12	1598	c.1236C>T	c.(1234-1236)TAC>TAT	p.Y412Y	LILRB4_uc002qgq.2_Silent_p.Y411Y|LILRB4_uc002qgr.2_Silent_p.Y454Y|LILRB4_uc010ert.2_Silent_p.Y453Y|LILRB4_uc010eru.2_Silent_p.Y442Y	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	412	Cytoplasmic (Potential).|ITIM motif 2.					integral to membrane|plasma membrane	antigen binding|receptor activity	p.Y412Y(1)		ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)		ATGTGACCTACGCCCAGCTGC	0.647													10	56	---	---	---	---	PASS	T	55179359	T	T	55179359	2	4	13	1	0	0	0	0	0	0	0	1	8793	547	19	1		1	LILRB4	19	55179359	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	330595	55179359	3949624	406	7750										
PTPRH	5794	broad.mit.edu	37	chr19	55708523	55708523	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tctgcgtggaactggctacgTcattcctctctgcccacacg	9	15	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:55708523T>A	uc002qjq.2	-	9	2025	c.1952A>T	c.(1951-1953)GAC>GTC	p.D651V	PTPRH_uc010esv.2_Missense_Mutation_p.D473V|PTPRH_uc002qjs.2_Missense_Mutation_p.D658V	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	651	Extracellular (Potential).|Fibronectin type-III 7.				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)		ACTGGCTACGTCATTCCTCTC	0.562													12	13	---	---	---	---	PASS	A	55708523	A	A	55708523	3	1	13	1	0	0	0	0	1	0	0	0	12803	1667	58	5	1443	5	PTPRH	19	55708523	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	529164	55708523	3420460	407	7751										
ZNF586	54807	broad.mit.edu	37	chr19	58291011	58291011	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gagtgcagtgactgtgggaaAtcctttgctgaaaactccag	12	8	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:58291011A>C	uc002qqd.2	+	3	1242	c.1056A>C	c.(1054-1056)AAA>AAC	p.K352N	ZNF587_uc002qqb.2_Intron|ZNF586_uc002qqe.2_3'UTR|ZNF586_uc010euh.2_Missense_Mutation_p.K309N|ZNF586_uc002qqf.1_Intron	NM_017652	NP_060122	Q9NXT0	ZN586_HUMAN	zinc finger protein 586	352	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ACTGTGGGAAATCCTTTGCTG	0.433													13	72	---	---	---	---	PASS	C	58291011	C	C	58291011	3	2	13	1	0	0	0	0	1	0	0	0	18016	98	4	5	1066	5	ZNF586	19	58291011	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	2582488	58291011	837972	408	7752										
ZSCAN1	284312	broad.mit.edu	37	chr19	58565188	58565188	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggcaaggtcttcctgcacaaCtccgtcctcactgagcatgg	10	14	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr19:58565188C>T	uc002qrc.1	+	6	1243	c.996C>T	c.(994-996)AAC>AAT	p.N332N		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	332	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TCCTGCACAACTCCGTCCTCA	0.637													27	31	---	---	---	---	PASS	T	58565188	T	T	58565188	2	4	13	1	0	0	0	0	0	0	0	1	18223	564	20	3		3	ZSCAN1	19	58565188	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	274177	58565188	563795	409	7753										
ANKRD5	63926	broad.mit.edu	37	chr20	10036305	10036305	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctggaagctgccttgaagacCtaagtcatagcagttatttc	9	9	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr20:10036305C>G	uc002wno.2	+	11	2721	c.2328C>G	c.(2326-2328)ACC>ACG	p.T776T	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Silent_p.T776T|ANKRD5_uc010gbz.2_Silent_p.T587T	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	776							calcium ion binding			ovary(1)|breast(1)	2						CCTTGAAGACCTAAGTCATAG	0.433													8	35	---	---	---	---	PASS	G	10036305	G	G	10036305	2	3	13	1	0	0	0	0	0	0	0	1	676	668	24	4		4	ANKRD5	20	10036305	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08		10036305	52989215	410	7754										
SPTLC3	55304	broad.mit.edu	37	chr20	13055086	13055086	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtatgatgagtctatgaggaCaataaaggatgttttagagg	13	2	1	4			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr20:13055086C>A	uc002wod.1	+	4	837	c.548C>A	c.(547-549)ACA>AAA	p.T183K		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	183					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	TCTATGAGGACAATAAAGGAT	0.438													18	69	---	---	---	---	PASS	A	13055086	A	A	13055086	3	1	13	1	0	0	0	0	1	0	0	0	15124	478	17	3	562	3	SPTLC3	20	13055086	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	3018781	13055086	49970434	411	7755										
C20orf26	26074	broad.mit.edu	37	chr20	20177290	20177290	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccaccagcgcgaagaacacgGgcacatgcatcactttgccc	9	16	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr20:20177290G>T	uc002wru.2	+	16	1743	c.1667G>T	c.(1666-1668)GGG>GTG	p.G556V	C20orf26_uc010zse.1_Missense_Mutation_p.G536V	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	556										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GAAGAACACGGGCACATGCAT	0.468													20	59	---	---	---	---	PASS	T	20177290	T	T	20177290	3	4	13	1	0	0	0	0	1	0	0	0	2106	1232	43	3	1757	3	C20orf26	20	20177290	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	7122204	20177290	42848230	412	7756										
CST11	140880	broad.mit.edu	37	chr20	23432461	23432461	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tttacccaataccttgtgaaGctccctttcctgggggacac	8	13	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr20:23432461G>A	uc002wtf.1	-	2	359	c.325C>T	c.(325-327)CTT>TTT	p.L109F	CST11_uc002wtg.1_Intron	NM_130794	NP_570612	Q9H112	CST11_HUMAN	cystatin 11 isoform 1 precursor	109					defense response to bacterium	cytoplasm|nucleus	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					ACCTTGTGAAGCTCCCTTTCC	0.463													7	22	---	---	---	---	PASS	A	23432461	A	A	23432461	3	1	13	1	0	0	0	0	1	0	0	0	3971	971	34	3	99	3	CST11	20	23432461	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	3255171	23432461	39593059	413	7757										
TMEM90B	79953	broad.mit.edu	37	chr20	24523810	24523810	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tggcaagaggaatggtttaaTtaacaccagaaacttgatgg	11	5	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr20:24523810T>C	uc002wtw.1	+	2	710	c.77T>C	c.(76-78)ATT>ACT	p.I26T		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	26	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						AATGGTTTAATTAACACCAGA	0.547													20	77	---	---	---	---	PASS	C	24523810	C	C	24523810	3	2	13	1	0	0	0	0	1	0	0	0	16216	1493	52	5	79	5	TMEM90B	20	24523810	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	1091349	24523810	38501710	414	7758										
KIAA0406	9675	broad.mit.edu	37	chr20	36642218	36642218	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aggagtatcaaaaactgccaTtgtgcagcagccttcccctc	8	13	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr20:36642218T>C	uc002xhl.2	-	3	210	c.1A>G	c.(1-3)ATG>GTG	p.M1V	KIAA0406_uc002xhm.2_Missense_Mutation_p.M1V	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	1							binding				0		Myeloproliferative disorder(115;0.00874)				AAAACTGCCATTGTGCAGCAG	0.473													33	84	---	---	---	---	PASS	C	36642218	C	C	36642218	3	2	13	1	0	0	0	0	1	0	0	0	8173	1493	52	5	3296	5	KIAA0406	20	36642218	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	12118408	36642218	26383302	415	7759										
BPI	671	broad.mit.edu	37	chr20	36946843	36946843	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaaagtgaccaattctgtatCctccgagctgcaaccttatt	7	11	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr20:36946843C>T	uc002xib.2	+	6	703	c.641C>T	c.(640-642)TCC>TTC	p.S214F		NM_001725	NP_001716	P17213	BPI_HUMAN	bactericidal/permeability-increasing protein	214					defense response to bacterium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of macrophage activation|negative regulation of tumor necrosis factor production	extracellular region|integral to plasma membrane	lipid binding|lipopolysaccharide binding			ovary(4)	4		Myeloproliferative disorder(115;0.00878)				AATTCTGTATCCTCCGAGCTG	0.408													18	97	---	---	---	---	PASS	T	36946843	T	T	36946843	3	4	13	1	0	0	0	0	1	0	0	0	1490	855	30	2	663	2	BPI	20	36946843	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	304625	36946843	26078677	416	7760										
RALGAPB	57148	broad.mit.edu	37	chr20	37146564	37146564	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gttaacagcatcttgaatctCtttggatcatggttatttga	8	6	3	2	rs148846201	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr20:37146564C>G	uc002xiw.2	+	9	1595	c.1338C>G	c.(1336-1338)CTC>CTG	p.L446L	RALGAPB_uc010zvz.1_Silent_p.L446L|RALGAPB_uc002xix.2_Silent_p.L446L|RALGAPB_uc002xiy.1_Silent_p.L446L|RALGAPB_uc002xiz.2_Silent_p.L224L|RALGAPB_uc002xja.1_Silent_p.L173L	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	446					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						TCTTGAATCTCTTTGGATCAT	0.443													10	42	---	---	---	---	PASS	G	37146564	G	G	37146564	2	3	13	1	0	0	0	0	0	0	0	1	13015	900	32	2		2	RALGAPB	20	37146564	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	199721	37146564	25878956	417	7761										
ADNP	23394	broad.mit.edu	37	chr20	49509695	49509695	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tttccacatcattgaaagttGaacggcaatatggacaagac	8	8	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr20:49509695G>A	uc002xvt.1	-	5	1901	c.1556C>T	c.(1555-1557)TCA>TTA	p.S519L	ADNP_uc002xvu.1_Missense_Mutation_p.S519L	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	519	C2H2-type 7.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						ATTGAAAGTTGAACGGCAATA	0.393													18	146	---	---	---	---	PASS	A	49509695	A	A	49509695	3	1	13	1	0	0	0	0	1	0	0	0	323	1294	45	2	1756	2	ADNP	20	49509695	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	12363131	49509695	13515825	418	7762										
PHACTR3	116154	broad.mit.edu	37	chr20	58330363	58330363	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aagccccttggccactgggaCggaccaggtctccctggaca	12	15	1	0	rs145693547		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr20:58330363C>T	uc002yau.2	+	4	952	c.485C>T	c.(484-486)ACG>ATG	p.T162M	PHACTR3_uc002yat.2_Missense_Mutation_p.T159M|PHACTR3_uc010zzw.1_Missense_Mutation_p.T121M|PHACTR3_uc002yav.2_Missense_Mutation_p.T121M|PHACTR3_uc002yaw.2_Missense_Mutation_p.T121M|PHACTR3_uc002yax.2_Missense_Mutation_p.T121M	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	162						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			GCCACTGGGACGGACCAGGTC	0.607													11	8	---	---	---	---	PASS	T	58330363	T	T	58330363	3	4	13	1	0	0	0	0	1	0	0	0	11811	536	19	1	499	1	PHACTR3	20	58330363	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	8820668	58330363	4695157	419	7763										
TPTE	7179	broad.mit.edu	37	chr21	10906916	10906916	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gagctatacttaatcggatcCagctacaacatcactggaag	8	10	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr21:10906916C>A	uc002yip.1	-	24	2013	c.1645G>T	c.(1645-1647)GGA>TGA	p.G549*	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Nonsense_Mutation_p.G531*|TPTE_uc002yir.1_Nonsense_Mutation_p.G511*|TPTE_uc010gkv.1_Nonsense_Mutation_p.G411*	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	549					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TAATCGGATCCAGCTACAACA	0.393													4	37	---	---	---	---	PASS	A	10906916	A	A	10906916	4	1	13	1	0	0	0	0	0	1	0	0	16427	603	21	3	14	3	TPTE	21	10906916	Nonsense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08		10906916	37222979	420	7764										
TPTE	7179	broad.mit.edu	37	chr21	10906937	10906937	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agctacaacatcactggaagTcattttctcgccaaaaagta	6	10	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr21:10906937T>A	uc002yip.1	-	24	1992	c.1624A>T	c.(1624-1626)ACT>TCT	p.T542S	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.T524S|TPTE_uc002yir.1_Missense_Mutation_p.T504S|TPTE_uc010gkv.1_Missense_Mutation_p.T404S	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	542					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TCACTGGAAGTCATTTTCTCG	0.383													6	44	---	---	---	---	PASS	A	10906937	A	A	10906937	3	1	13	1	0	0	0	0	1	0	0	0	16427	1667	58	5	35	5	TPTE	21	10906937	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	21	10906937	37222958	421	7765										
KRTAP11-1	337880	broad.mit.edu	37	chr21	32253731	32253731	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aactgggcaaacagatgccgCccaggcagtcagcatcagtg	12	12	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr21:32253731C>A	uc002yov.2	-	1	144	c.113G>T	c.(112-114)GGC>GTC	p.G38V		NM_175858	NP_787054	Q8IUC1	KR111_HUMAN	keratin associated protein 11-1	38						keratin filament	structural molecule activity			pancreas(1)	1						ACAGATGCCGCCCAGGCAGTC	0.567													7	47	---	---	---	---	PASS	A	32253731	A	A	32253731	3	1	13	1	0	0	0	0	1	0	0	0	8517	739	26	3	382	3	KRTAP11-1	21	32253731	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	21346794	32253731	15876164	422	7766										
GART	2618	broad.mit.edu	37	chr21	34904752	34904752	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggccttcacaaccaaagcagGgaagtctgcactgtaaagac	10	11	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr21:34904752G>T	uc002yrx.2	-	5	562	c.427C>A	c.(427-429)CCT>ACT	p.P143T	GART_uc002yrz.2_Missense_Mutation_p.P143T|GART_uc010gmd.2_5'UTR|GART_uc002yry.2_Missense_Mutation_p.P143T|GART_uc002ysa.2_Missense_Mutation_p.P143T	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	143	ATP (By similarity).|ATP-grasp.				'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	ACCAAAGCAGGGAAGTCTGCA	0.423													9	165	---	---	---	---	PASS	T	34904752	T	T	34904752	3	4	13	1	0	0	0	0	1	0	0	0	6243	1232	43	3	2681	3	GART	21	34904752	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	2651021	34904752	13225143	423	7767										
DYRK1A	1859	broad.mit.edu	37	chr21	38877629	38877629	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	taaacttcataacattcttgGagtggaaacaggaggacctg	10	7	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr21:38877629G>C	uc002ywk.2	+	9	1358	c.1283G>C	c.(1282-1284)GGA>GCA	p.G428A	DYRK1A_uc002ywi.2_Missense_Mutation_p.G428A|DYRK1A_uc002ywj.2_Missense_Mutation_p.G419A|DYRK1A_uc002ywl.2_Missense_Mutation_p.G428A|DYRK1A_uc002ywm.2_Missense_Mutation_p.G428A|DYRK1A_uc011aei.1_Missense_Mutation_p.G189A	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	428	Protein kinase.				nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						AACATTCTTGGAGTGGAAACA	0.453													10	33	---	---	---	---	PASS	C	38877629	C	C	38877629	3	2	13	1	0	0	0	0	1	0	0	0	4854	1174	41	2	1317	2	DYRK1A	21	38877629	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	3972877	38877629	9252266	424	7768										
ZNF295	49854	broad.mit.edu	37	chr21	43412128	43412128	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tccaaggggtttttctcctgGatgcatttttatatgctgct	9	8	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr21:43412128G>A	uc002zab.3	-	3	2291	c.2077C>T	c.(2077-2079)CCA>TCA	p.P693S	ZNF295_uc002yzz.3_Intron|ZNF295_uc002yzy.3_Missense_Mutation_p.P693S|ZNF295_uc002zaa.3_Missense_Mutation_p.P693S	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	693					negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						TTTTCTCCTGGATGCATTTTT	0.433													26	161	---	---	---	---	PASS	A	43412128	A	A	43412128	3	1	13	1	0	0	0	0	1	0	0	0	17824	1174	41	2	1127	2	ZNF295	21	43412128	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	4534499	43412128	4717767	425	7769										
UBASH3A	53347	broad.mit.edu	37	chr21	43867227	43867227	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aggaaggaaaatgggagttgGtgaacccaccggtgaagacc	15	7	0	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr21:43867227G>C	uc002zbe.2	+	15	1945	c.1909G>C	c.(1909-1911)GTG>CTG	p.V637L	UBASH3A_uc002zbf.2_Missense_Mutation_p.V599L|UBASH3A_uc010gpc.2_RNA|UBASH3A_uc010gpd.2_RNA|UBASH3A_uc010gpe.2_Missense_Mutation_p.W526C	NM_018961	NP_061834	P57075	UBS3A_HUMAN	ubiquitin associated and SH3 domain containing,	637	Phosphatase-like.					cytosol|nucleus				ovary(3)	3						ATGGGAGTTGGTGAACCCACC	0.473													31	105	---	---	---	---	PASS	C	43867227	C	C	43867227	3	2	13	1	0	0	0	0	1	0	0	0	16836	1261	44	4	1967	4	UBASH3A	21	43867227	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	455099	43867227	4262668	426	7770										
ITGB2	3689	broad.mit.edu	37	chr21	46309233	46309233	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggcagccggggcactcctggCacagaggcagctggtagcct	16	13	0	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr21:46309233C>A	uc002zgd.2	-	12	1879	c.1835G>T	c.(1834-1836)TGC>TTC	p.C612F	ITGB2_uc002zge.2_Missense_Mutation_p.C612F|ITGB2_uc002zgf.3_Missense_Mutation_p.C612F|ITGB2_uc011afl.1_Missense_Mutation_p.C534F|ITGB2_uc010gpw.2_Missense_Mutation_p.C555F|ITGB2_uc002zgg.2_Missense_Mutation_p.C612F	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	612	Extracellular (Potential).|Cysteine-rich tandem repeats.|IV.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	GCACTCCTGGCACAGAGGCAG	0.672													3	13	---	---	---	---	PASS	A	46309233	A	A	46309233	3	1	13	1	0	0	0	0	1	0	0	0	7894	710	25	3	490	3	ITGB2	21	46309233	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	2442006	46309233	1820662	427	7771										
IL17RA	23765	broad.mit.edu	37	chr22	17583061	17583061	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	accccaacatcaccgtggagAccctggaggcccaccagctg	10	17	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:17583061A>T	uc002zly.2	+	7	764	c.631A>T	c.(631-633)ACC>TCC	p.T211S	IL17RA_uc010gqt.2_Missense_Mutation_p.T211S	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	211	Extracellular (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		CACCGTGGAGACCCTGGAGGC	0.587													5	44	---	---	---	---	PASS	T	17583061	T	T	17583061	3	4	13	1	0	0	0	0	1	0	0	0	7639	275	10	5	657	5	IL17RA	22	17583061	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08		17583061	33721505	428	7772										
MYO18B	84700	broad.mit.edu	37	chr22	26270319	26270319	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	agaagctggtatctcagagcAtcgttctcttccaggcggct	11	11	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:26270319A>G	uc003abz.1	+	23	4268	c.4018A>G	c.(4018-4020)ATC>GTC	p.I1340V	MYO18B_uc003aca.1_Missense_Mutation_p.I1221V|MYO18B_uc010guy.1_Missense_Mutation_p.I1222V|MYO18B_uc010guz.1_Missense_Mutation_p.I1221V|MYO18B_uc011aka.1_Missense_Mutation_p.I494V|MYO18B_uc011akb.1_Missense_Mutation_p.I853V	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1340	IQ.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						ATCTCAGAGCATCGTTCTCTT	0.537													18	42	---	---	---	---	PASS	G	26270319	G	G	26270319	3	3	13	1	0	0	0	0	1	0	0	0	10066	217	8	5	4104	5	MYO18B	22	26270319	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08	8687258	26270319	25034247	429	7773										
ASCC2	84164	broad.mit.edu	37	chr22	30189468	30189468	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tagggcaggctctcgcctggCtgcagtggcacctgcaatgg	15	12	1	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:30189468C>T	uc003agr.2	-	17	1905	c.1800G>A	c.(1798-1800)CAG>CAA	p.Q600Q	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Silent_p.Q600Q|ASCC2_uc011akr.1_Silent_p.Q524Q	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	600					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			TCTCGCCTGGCTGCAGTGGCA	0.607													3	20	---	---	---	---	PASS	T	30189468	T	T	30189468	2	4	13	1	0	0	0	0	0	0	0	1	1032	796	28	3		3	ASCC2	22	30189468	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	3919149	30189468	21115098	430	7774										
SYN3	8224	broad.mit.edu	37	chr22	33260987	33260987	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggaagatcttaatgagctgaGagaactaggatagaagagga	14	3	1	6			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:33260987G>T	uc003amx.2	-	5	785	c.626C>A	c.(625-627)TCT>TAT	p.S209Y	SYN3_uc003amy.2_Missense_Mutation_p.S209Y|SYN3_uc003amz.2_Missense_Mutation_p.S208Y	NM_003490	NP_003481	O14994	SYN3_HUMAN	synapsin III isoform IIIa	209	C; actin-binding and synaptic-vesicle binding.				neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1						AATGAGCTGAGAGAACTAGGA	0.453													7	169	---	---	---	---	PASS	T	33260987	T	T	33260987	3	4	13	1	0	0	0	0	1	0	0	0	15439	942	33	2	1152	2	SYN3	22	33260987	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	3071519	33260987	18043579	431	7775										
TST	7263	broad.mit.edu	37	chr22	37407247	37407247	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	aatgagaggctgcgagagatCcaccttcttggtctggaaca	12	9	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:37407247C>G	uc003aqg.2	-	2	1415	c.715G>C	c.(715-717)GAT>CAT	p.D239H	TST_uc003aqh.2_Missense_Mutation_p.D239H	NM_003312	NP_003303	Q16762	THTR_HUMAN	thiosulfate sulfurtransferase	239	Rhodanese 2.				cyanate catabolic process|rRNA transport	mitochondrial matrix|plasma membrane	5S rRNA binding|thiosulfate sulfurtransferase activity				0						TGCGAGAGATCCACCTTCTTG	0.607													6	11	---	---	---	---	PASS	G	37407247	G	G	37407247	3	3	13	1	0	0	0	0	1	0	0	0	16670	855	30	2	182	2	TST	22	37407247	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	4146260	37407247	13897319	432	7776										
MFNG	4242	broad.mit.edu	37	chr22	37875441	37875441	+	Frame_Shift_Del	DEL	C	-	-													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gccggttcaggctgggccttCccacatagacgtcgcgggcc							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:37875441delC	uc003ass.1	-	4	673	c.503delG	c.(502-504)GGAfs	p.G168fs	MFNG_uc011ani.1_Frame_Shift_Del_p.G46fs|MFNG_uc011anj.1_Frame_Shift_Del_p.G154fs|CARD10_uc003ast.1_RNA	NM_002405	NP_002396	O00587	MFNG_HUMAN	O-fucosylpeptide	168	Lumenal (Potential).				pattern specification process	extracellular space|integral to Golgi membrane	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity			lung(1)	1	Melanoma(58;0.0574)					GCTGGGCCTTCCCACATAGAC	0.632													26	20	---	---	---	---		-	37875441	-	-	37875441	7	5	13	1	0	1	0	1	0	0	0	0	9525	855	30	0	482	0	MFNG	22	37875441	Frame_Shift_Del	DEL	C	TCGA-18-3421-01A-01D-0983-08	468194	37875441	13429125	433	7777										
TRIOBP	11078	broad.mit.edu	37	chr22	38120492	38120492	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tcctctcccaacagaaccacCcaacaagacagccccagaac	4	19	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:38120492C>A	uc003atr.2	+	7	2200	c.1929C>A	c.(1927-1929)ACC>ACA	p.T643T	TRIOBP_uc003atu.2_Silent_p.T471T|TRIOBP_uc003atq.1_Silent_p.T643T|TRIOBP_uc003ats.1_Silent_p.T471T	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	643					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					ACAGAACCACCCAACAAGACA	0.572													7	116	---	---	---	---	PASS	A	38120492	A	A	38120492	2	1	13	1	0	0	0	0	0	0	0	1	16550	610	22	3		3	TRIOBP	22	38120492	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	245051	38120492	13184074	434	7778										
PLA2G6	8398	broad.mit.edu	37	chr22	38524296	38524296	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctaggttgtttaggctgatcGgtgggggctgagctctttcc	15	8	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:38524296G>A	uc003auy.1	-	9	1464	c.1328C>T	c.(1327-1329)CCG>CTG	p.P443L	PLA2G6_uc003auz.1_Intron|PLA2G6_uc003ava.1_Missense_Mutation_p.P443L|PLA2G6_uc003avb.2_Intron|PLA2G6_uc010gxk.1_RNA|PLA2G6_uc011ano.1_Missense_Mutation_p.P408L	NM_003560	NP_003551	O60733	PA2G6_HUMAN	phospholipase A2, group VI isoform a	443					cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)	TAGGCTGATCGGTGGGGGCTG	0.642													21	36	---	---	---	---	PASS	A	38524296	A	A	38524296	3	1	13	1	0	0	0	0	1	0	0	0	12008	1116	39	1	1128	1	PLA2G6	22	38524296	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	403804	38524296	12780270	435	7779										
MGAT3	4248	broad.mit.edu	37	chr22	39884666	39884666	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctcgtgtccgcccagaatggCgacttcccacgctggggtga	13	14	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:39884666C>T	uc003axv.3	+	2	1553	c.1314C>T	c.(1312-1314)GGC>GGT	p.G438G	MGAT3_uc010gxy.2_Silent_p.G438G	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	438	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					CCCAGAATGGCGACTTCCCAC	0.662													13	17	---	---	---	---	PASS	T	39884666	T	T	39884666	2	4	13	1	0	0	0	0	0	0	0	1	9544	755	27	1		1	MGAT3	22	39884666	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	1360370	39884666	11419900	436	7780										
XPNPEP3	63929	broad.mit.edu	37	chr22	41318337	41318337	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tttggttttcccgtccccagGttcaccgcacctcaggcaga	9	15	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:41318337G>T	uc003azh.2	+	8	1148	c.1056G>T	c.(1054-1056)AGG>AGT	p.R352S	XPNPEP3_uc003azi.2_Missense_Mutation_p.R273S|XPNPEP3_uc011aoy.1_RNA	NM_022098	NP_071381	Q9NQH7	XPP3_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 3,	352					cellular process	mitochondrion	aminopeptidase activity|manganese ion binding|metallopeptidase activity				0						CCGTCCCCAGGTTCACCGCAC	0.448													22	105	---	---	---	---	PASS	T	41318337	T	T	41318337	3	4	13	1	0	0	0	0	1	0	0	0	17441	1275	44	3	1086	3	XPNPEP3	22	41318337	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	1433671	41318337	9986229	437	7781										
PPARA	5465	broad.mit.edu	37	chr22	46627709	46627709	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ccttttgtcatacatgatatGgagacactgtgtatggctga	10	7	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:46627709G>T	uc003bgw.1	+	8	998	c.732G>T	c.(730-732)ATG>ATT	p.M244I	PPARA_uc003bgx.1_Missense_Mutation_p.M244I|PPARA_uc010hab.1_Missense_Mutation_p.M244I|PPARA_uc003bhb.1_Missense_Mutation_p.M244I|PPARA_uc010hac.1_Missense_Mutation_p.M41I	NM_005036	NP_005027	Q07869	PPARA_HUMAN	peroxisome proliferative activated receptor,	244					fatty acid metabolic process|fatty acid transport|negative regulation of appetite|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|negative regulation of receptor biosynthetic process|negative regulation of sequestering of triglyceride|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fatty acid beta-oxidation|regulation of cellular ketone metabolic process by positive regulation of transcription from an RNA polymerase II promoter|regulation of glycolysis by positive regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|ligand-regulated transcription factor activity|lipid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|ubiquitin conjugating enzyme binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00522)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Clofibrate(DB00636)|Fenofibrate(DB01039)|Gemfibrozil(DB01241)|Simvastatin(DB00641)	TACATGATATGGAGACACTGT	0.527													5	21	---	---	---	---	PASS	T	46627709	T	T	46627709	3	4	13	1	0	0	0	0	1	0	0	0	12297	1348	47	3	750	3	PPARA	22	46627709	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	5309372	46627709	4676857	438	7782										
CELSR1	9620	broad.mit.edu	37	chr22	46760592	46760592	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gtcactctcagccaggctctGgtcgggccagccggccggaa	14	15	3	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:46760592G>A	uc003bhw.1	-	33	8596	c.8596C>T	c.(8596-8598)CAG>TAG	p.Q2866*		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2866	Cytoplasmic (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GCCAGGCTCTGGTCGGGCCAG	0.692													6	12	---	---	---	---	PASS	A	46760592	A	A	46760592	4	1	13	1	0	0	0	0	0	1	0	0	3221	1357	47	3	460	3	CELSR1	22	46760592	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	132883	46760592	4543974	439	7783										
CELSR1	9620	broad.mit.edu	37	chr22	46832148	46832148	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcttctcattgaagcggccgTtgtagagaagcaagccgttc	12	10	1	2	rs75709433		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chr22:46832148T>C	uc003bhw.1	-	4	4445	c.4445A>G	c.(4444-4446)AAC>AGC	p.N1482S		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1482	Extracellular (Potential).|Laminin G-like 1.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GAAGCGGCCGTTGTAGAGAAG	0.592													13	23	---	---	---	---	PASS	C	46832148	C	C	46832148	3	2	13	1	0	0	0	0	1	0	0	0	3221	1725	60	5	4727	5	CELSR1	22	46832148	Missense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	71556	46832148	4472418	440	7784										
CSF2RA	1438	broad.mit.edu	37	chrX	1401640	1401640	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tctgctctgtgagttaccacAcccagcattcctcctgatcc	6	16	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:1401640A>C	uc010nct.2	+	4	366	c.44A>C	c.(43-45)CAC>CCC	p.H15P	CSF2RA_uc011mhb.1_Missense_Mutation_p.H15P|CSF2RA_uc004cpq.2_Missense_Mutation_p.H15P|CSF2RA_uc004cpn.2_Missense_Mutation_p.H15P|CSF2RA_uc004cpo.2_Missense_Mutation_p.H15P|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_5'UTR|CSF2RA_uc004cpp.2_Missense_Mutation_p.H15P|CSF2RA_uc010ncv.2_Missense_Mutation_p.H15P|CSF2RA_uc004cpr.2_Missense_Mutation_p.H15P	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	15						extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	GAGTTACCACACCCAGCATTC	0.522													33	199	---	---	---	---	PASS	C	1401640	C	C	1401640	3	2	13	1	0	0	0	0	1	0	0	0	3934	159	6	5	46	5	CSF2RA	23	1401640	Missense_Mutation	SNP	A	TCGA-18-3421-01A-01D-0983-08		1401640	153868920	441	7785										
SFRS17A	8227	broad.mit.edu	37	chrX	1712489	1712489	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gctgaagcagccggggaagtCcatctccaactgggaggtga	15	10	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:1712489C>A	uc004cqa.2	+	2	330	c.134C>A	c.(133-135)TCC>TAC	p.S45Y	SFRS17A_uc010ncx.1_Missense_Mutation_p.S45Y|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'Flank	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	45					B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCGGGGAAGTCCATCTCCAAC	0.592													26	74	---	---	---	---	PASS	A	1712489	A	A	1712489	3	1	13	1	0	0	0	0	1	0	0	0	14173	855	30	2	136	2	SFRS17A	23	1712489	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	310849	1712489	153558071	442	7786										
FAM47A	158724	broad.mit.edu	37	chrX	34148818	34148818	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tccggaccgagactggacgtCcgacgagtcttgggaggctc	15	12	1	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:34148818C>G	uc004ddg.2	-	1	1611	c.1578G>C	c.(1576-1578)CGG>CGC	p.R526R		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	526										ovary(4)|central_nervous_system(1)	5						GACTGGACGTCCGACGAGTCT	0.667													13	7	---	---	---	---	PASS	G	34148818	G	G	34148818	2	3	13	1	0	0	0	0	0	0	0	1	5569	842	30	2		2	FAM47A	23	34148818	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	32436329	34148818	121121742	443	7787										
FAM47A	158724	broad.mit.edu	37	chrX	34149076	34149076	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gcctcacaacgatcccatacGtccttcagcgtcctcccaga	6	18	2	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:34149076G>A	uc004ddg.2	-	1	1353	c.1320C>T	c.(1318-1320)GAC>GAT	p.D440D		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	440										ovary(4)|central_nervous_system(1)	5						GATCCCATACGTCCTTCAGCG	0.557													11	11	---	---	---	---	PASS	A	34149076	A	A	34149076	2	1	13	1	0	0	0	0	0	0	0	1	5569	1136	40	1		1	FAM47A	23	34149076	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	258	34149076	121121484	444	7788										
DGKK	139189	broad.mit.edu	37	chrX	50121135	50121135	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctgggcagcgttcttgtatcTaattttgataagcctggtct	10	8	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:50121135T>A	uc010njr.1	-	23	3133	c.3073A>T	c.(3073-3075)AGA>TGA	p.R1025*		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	1025					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					TTCTTGTATCTAATTTTGATA	0.493													10	34	---	---	---	---	PASS	A	50121135	A	A	50121135	4	1	13	1	0	0	0	0	0	1	0	0	4472	1519	53	5	770	5	DGKK	23	50121135	Nonsense_Mutation	SNP	T	TCGA-18-3421-01A-01D-0983-08	15972059	50121135	105149425	445	7789										
KIF4A	24137	broad.mit.edu	37	chrX	69626794	69626794	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tggagcaaagcatggacatcGaggatctaaaatattgttca	10	6	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:69626794G>T	uc004dyg.2	+	28	3251	c.3124G>T	c.(3124-3126)GAG>TAG	p.E1042*	KIF4A_uc010nkw.2_Nonsense_Mutation_p.E1042*	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	1042	Globular.|Interaction with PRC1.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						CATGGACATCGAGGATCTAAA	0.254													4	41	---	---	---	---	PASS	T	69626794	T	T	69626794	4	4	13	1	0	0	0	0	0	1	0	0	8303	1059	37	2	3230	2	KIF4A	23	69626794	Nonsense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	19505659	69626794	85643766	446	7790										
PCDH11X	27328	broad.mit.edu	37	chrX	91456402	91456402	+	Missense_Mutation	SNP	C	A	A													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ggaggttgtgcgatcttgcaCccccatgaaagagtctacaa							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:91456402C>A	uc004efk.1	+	3	3907	c.3062C>A	c.(3061-3063)ACC>AAC	p.T1021N	PCDH11X_uc004efl.1_Missense_Mutation_p.T1021N|PCDH11X_uc004efo.1_Intron|PCDH11X_uc010nmv.1_Missense_Mutation_p.T1021N|PCDH11X_uc004efm.1_Missense_Mutation_p.T1021N|PCDH11X_uc004efn.1_Missense_Mutation_p.T1021N	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1021	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CGATCTTGCACCCCCATGAAA	0.383													11	11	---	---	---	---	PASS	A	91456402	A	A	91456402	3	1	13	1	0	0	0	0	1	0	0	0	11508	507	18	3	3154	3	PCDH11X	23	91456402	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	21829608	91456402	63814158	447	7791	235	2								
PCDH11X	27328	broad.mit.edu	37	chrX	91456403	91456403	+	Silent	SNP	C	A	A													0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gaggttgtgcgatcttgcacCcccatgaaagagtctacaac							TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:91456403C>A	uc004efk.1	+	3	3908	c.3063C>A	c.(3061-3063)ACC>ACA	p.T1021T	PCDH11X_uc004efl.1_Silent_p.T1021T|PCDH11X_uc004efo.1_Intron|PCDH11X_uc010nmv.1_Silent_p.T1021T|PCDH11X_uc004efm.1_Silent_p.T1021T|PCDH11X_uc004efn.1_Silent_p.T1021T	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1021	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						GATCTTGCACCCCCATGAAAG	0.383													11	11	---	---	---	---	PASS	A	91456403	A	A	91456403	2	1	13	1	0	0	0	0	0	0	0	1	11508	610	22	3		3	PCDH11X	23	91456403	Silent	SNP	C	TCGA-18-3421-01A-01D-0983-08	1	91456403	63814157	448	7792	235	2								
NRK	203447	broad.mit.edu	37	chrX	105149285	105149285	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	taaccttcaacccttggaagCtctcttcgttattttgcggg	8	11	2	0			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:105149285C>G	uc004emd.2	+	10	1097	c.794C>G	c.(793-795)GCT>GGT	p.A265G	NRK_uc010npc.1_5'UTR	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	265	Protein kinase.						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						CCCTTGGAAGCTCTCTTCGTT	0.393										HNSCC(51;0.14)			3	10	---	---	---	---	PASS	G	105149285	G	G	105149285	3	3	13	1	0	0	0	0	1	0	0	0	10655	797	28	4	832	4	NRK	23	105149285	Missense_Mutation	SNP	C	TCGA-18-3421-01A-01D-0983-08	13692882	105149285	50121275	449	7793										
DOCK11	139818	broad.mit.edu	37	chrX	117749584	117749584	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttctggctgaatacaagtttGaatttctgcaaacaatttgc	7	7	2	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:117749584G>C	uc004eqp.2	+	30	3265	c.3202G>C	c.(3202-3204)GAA>CAA	p.E1068Q	DOCK11_uc004eqq.2_Missense_Mutation_p.E834Q	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1068					blood coagulation	cytosol	GTP binding			ovary(3)	3						ATACAAGTTTGAATTTCTGCA	0.343													7	8	---	---	---	---	PASS	C	117749584	C	C	117749584	3	2	13	1	0	0	0	0	1	0	0	0	4686	1291	45	2	3320	2	DOCK11	23	117749584	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	12600299	117749584	37520976	450	7794										
DOCK11	139818	broad.mit.edu	37	chrX	117814528	117814528	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	tttgatgacaaagaactcacAgaaaggaagaccgagtttga	10	6	1	6			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:117814528A>G	uc004eqp.2	+	49	5607	c.5544A>G	c.(5542-5544)ACA>ACG	p.T1848T	DOCK11_uc004eqq.2_Silent_p.T1627T	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1848	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						AAGAACTCACAGAAAGGAAGA	0.348													66	33	---	---	---	---	PASS	G	117814528	G	G	117814528	2	3	13	1	0	0	0	0	0	0	0	1	4686	175	7	5		5	DOCK11	23	117814528	Silent	SNP	A	TCGA-18-3421-01A-01D-0983-08	64944	117814528	37456032	451	7795										
ZCCHC12	170261	broad.mit.edu	37	chrX	117959765	117959765	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ttaggcggtgagctgagtagGgacctccgactcagacttaa	13	9	1	3			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:117959765G>T	uc004equ.2	+	4	1031	c.558G>T	c.(556-558)AGG>AGT	p.R186S		NM_173798	NP_776159	Q6PEW1	ZCH12_HUMAN	zinc finger, CCHC domain containing 12	186					regulation of transcription, DNA-dependent|transcription, DNA-dependent		nucleic acid binding|zinc ion binding			ovary(1)	1						AGCTGAGTAGGGACCTCCGAC	0.308													41	31	---	---	---	---	PASS	T	117959765	T	T	117959765	3	4	13	1	0	0	0	0	1	0	0	0	17578	1223	43	3	560	3	ZCCHC12	23	117959765	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	145237	117959765	37310795	452	7796										
OCRL	4952	broad.mit.edu	37	chrX	128696704	128696704	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	gattataaggacatttgtgcGagaatgagttttgtggtccc	12	5	0	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:128696704G>T	uc004euq.2	+	12	1350	c.1185G>T	c.(1183-1185)GCG>GCT	p.A395A	OCRL_uc004eur.2_Silent_p.A395A	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	395					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						ACATTTGTGCGAGAATGAGTT	0.438													4	51	---	---	---	---	PASS	T	128696704	T	T	128696704	2	4	13	1	0	0	0	0	0	0	0	1	10823	1045	37	2		2	OCRL	23	128696704	Silent	SNP	G	TCGA-18-3421-01A-01D-0983-08	10736939	128696704	26573856	453	7797										
AFF2	2334	broad.mit.edu	37	chrX	148037237	148037237	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	caaaatgaaacacccatggaGactatttctctgcctcctcc	5	14	1	2			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:148037237G>C	uc004fcp.2	+	11	2141	c.1662G>C	c.(1660-1662)GAG>GAC	p.E554D	AFF2_uc004fcq.2_Missense_Mutation_p.E544D|AFF2_uc004fcr.2_Missense_Mutation_p.E515D|AFF2_uc011mxb.1_Missense_Mutation_p.E519D|AFF2_uc004fcs.2_Missense_Mutation_p.E521D|AFF2_uc011mxc.1_Missense_Mutation_p.E195D	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	554					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					CACCCATGGAGACTATTTCTC	0.463													71	166	---	---	---	---	PASS	C	148037237	C	C	148037237	3	2	13	1	0	0	0	0	1	0	0	0	357	933	33	2	1759	2	AFF2	23	148037237	Missense_Mutation	SNP	G	TCGA-18-3421-01A-01D-0983-08	19340533	148037237	7233323	454	7798										
VAMP7	6845	broad.mit.edu	37	chrX	155149476	155149476	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0997782705099778	45	6.52695292826097e-05	1.87155963302752	1.91909130624727	1.8382874617737	0.260142268834691	0.648523684278032	21	ctacttttccaatattttcaGatctggtagctcagcgagga	8	9	3	1			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f0e482e-e72d-4c57-b4f7-4580edabd390	b7b6806b-f8ad-480b-9309-522ca8dde2bf	g.chrX:155149476G>T	uc004fnr.2	+	6	608	c.434_splice	c.e6-1	p.D145_splice	VAMP7_uc004fnt.2_Splice_Site_p.D104_splice|VAMP7_uc011naa.1_Splice_Site_p.D106_splice|VAMP7_uc011nab.1_Splice_Site_p.D44_splice|VAMP7_uc004fns.2_Intron|VAMP7_uc011nac.1_Splice_Site_p.D78_splice	NM_005638	NP_005629	P51809	VAMP7_HUMAN	vesicle-associated membrane protein 7 isoform 1						calcium ion-dependent exocytosis|endosome to lysosome transport|eosinophil degranulation|ER to Golgi vesicle-mediated transport|neutrophil degranulation|phagocytosis, engulfment|post-Golgi vesicle-mediated transport|protein transport|vesicle fusion	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|phagocytic vesicle membrane|plasma membrane|SNARE complex|transport vesicle membrane	protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					AATATTTTCAGATCTGGTAGC	0.269													13	41	---	---	---	---	PASS	T	155149476	T	T	155149476	5	4	13	1	0	0	0	0	0	0	1	0	17114	956	33	2	451	2	VAMP7	23	155149476	Splice_Site	SNP	G	TCGA-18-3421-01A-01D-0983-08	7112239	155149476	121084	455	7799										
TNFRSF18	8784	broad.mit.edu	37	chr1	1139493	1139493	+	Frame_Shift_Del	DEL	G	-	-													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtcaggaggaggacgcaggcGgccacggccaggaggacgac							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:1139493delG	uc001adc.2	-	4	660	c.522delC	c.(520-522)GCCfs	p.A174fs	TNFRSF18_uc001ada.2_Frame_Shift_Del_p.A102fs|TNFRSF18_uc001adb.2_Frame_Shift_Del_p.A174fs|TNFRSF18_uc001add.2_Intron	NM_004195	NP_004186	Q9Y5U5	TNR18_HUMAN	tumor necrosis factor receptor superfamily,	174	Helical; (Potential).				anti-apoptosis|apoptosis	extracellular region|integral to plasma membrane	tumor necrosis factor receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;3.73e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.01e-21)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;4.22e-05)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GGACGCAGGCGGCCACGGCCA	0.677													12	11	---	---	---	---		-	1139493	-	-	1139493	7	5	14	1	0	1	0	1	0	0	0	0	16288	1103	39	0	464	0	TNFRSF18	1	1139493	Frame_Shift_Del	DEL	G	TCGA-18-4083-01A-01D-1352-08		1139493	248111128	1	7800										
CAMTA1	23261	broad.mit.edu	37	chr1	7724016	7724016	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gctggtcctctccaccacccTcgacggtggccggaagattc	11	16	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:7724016T>A	uc001aoi.2	+	9	1616	c.1409T>A	c.(1408-1410)CTC>CAC	p.L470H		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	470					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		TCCACCACCCTCGACGGTGGC	0.597													35	104	---	---	---	---	PASS	A	7724016	A	A	7724016	3	1	14	1	0	0	0	0	1	0	0	0	2613	1551	54	5	1443	5	CAMTA1	1	7724016	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	6584523	7724016	241526605	2	7801										
FBXO2	26232	broad.mit.edu	37	chr1	11708778	11708778	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tctacccacacgctgctgttGgtcacccgggccccgaacca	9	18	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:11708778G>A	uc001asj.2	-	6	1206	c.864C>T	c.(862-864)ACC>ACT	p.T288T	FBXO2_uc009vna.2_Silent_p.T291T	NM_012168	NP_036300	Q9UK22	FBX2_HUMAN	F-box only protein 2	288	FBA.				glycoprotein catabolic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|endoplasmic reticulum|membrane|microsome|SCF ubiquitin ligase complex	sugar binding|ubiquitin-protein ligase activity				0	Ovarian(185;0.249)	Lung NSC(185;9.37e-06)|all_lung(284;1.39e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|BRCA - Breast invasive adenocarcinoma(304;1.88e-06)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|Lung(427;0.0146)|LUSC - Lung squamous cell carcinoma(448;0.0228)|READ - Rectum adenocarcinoma(331;0.0649)		CGCTGCTGTTGGTCACCCGGG	0.652													35	50	---	---	---	---	PASS	A	11708778	A	A	11708778	2	1	14	1	0	0	0	0	0	0	0	1	5732	1335	47	3		3	FBXO2	1	11708778	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	3984762	11708778	237541843	3	7802										
VPS13D	55187	broad.mit.edu	37	chr1	12387911	12387911	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcgctgaactcaccttttccCgtgagtgttgtactggtttt	9	10	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:12387911C>A	uc001atv.2	+	36	8338	c.8197C>A	c.(8197-8199)CGT>AGT	p.R2733S	VPS13D_uc001atw.2_Missense_Mutation_p.R2733S|VPS13D_uc001atx.2_Missense_Mutation_p.R1921S|VPS13D_uc001aty.1_Missense_Mutation_p.R471S	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2733					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		CACCTTTTCCCGTGAGTGTTG	0.403													31	75	---	---	---	---	PASS	A	12387911	A	A	12387911	3	1	14	1	0	0	0	0	1	0	0	0	17189	666	23	1	8335	1	VPS13D	1	12387911	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	679133	12387911	236862710	4	7803										
CSMD2	114784	broad.mit.edu	37	chr1	34076665	34076665	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atactccagcttgaatcctgGccgattctgggagtggtcgc	12	11	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:34076665G>T	uc001bxn.1	-	41	6228	c.6199C>A	c.(6199-6201)CCA>ACA	p.P2067T	CSMD2_uc001bxm.1_Missense_Mutation_p.P2107T|CSMD2_uc001bxo.1_Missense_Mutation_p.P980T	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2067	CUB 12.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TTGAATCCTGGCCGATTCTGG	0.562													26	74	---	---	---	---	PASS	T	34076665	T	T	34076665	3	4	14	1	0	0	0	0	1	0	0	0	3945	1203	42	3	4380	3	CSMD2	1	34076665	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	21688754	34076665	215173956	5	7804										
ATPAF1	64756	broad.mit.edu	37	chr1	47110897	47110897	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	attgtcctacaaaaaactcaTaaccttcccttcttggcaga	4	12	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:47110897T>A	uc001cqh.2	-	7	725	c.620A>T	c.(619-621)TAT>TTT	p.Y207F	ATPAF1_uc001cqg.2_Intron|ATPAF1_uc009vyk.2_Missense_Mutation_p.Y56F|ATPAF1_uc010omg.1_Missense_Mutation_p.Y119F|ATPAF1_uc001cqi.2_Intron	NM_022745	NP_073582	Q5TC12	ATPF1_HUMAN	ATP synthase mitochondrial F1 complex assembly	207					protein complex assembly	mitochondrion	protein binding				0	Acute lymphoblastic leukemia(166;0.155)					AAAAAACTCATAACCTTCCCT	0.403													90	291	---	---	---	---	PASS	A	47110897	A	A	47110897	3	1	14	1	0	0	0	0	1	0	0	0	1200	1406	49	5	378	5	ATPAF1	1	47110897	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	13034232	47110897	202139724	6	7805										
ZFYVE9	9372	broad.mit.edu	37	chr1	52729506	52729506	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atacatggacagaaaggaagCtagagtgtgtgtaatctgcc	12	6	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:52729506C>G	uc001cto.2	+	5	2412	c.2240C>G	c.(2239-2241)GCT>GGT	p.A747G	ZFYVE9_uc001ctn.2_Missense_Mutation_p.A747G|ZFYVE9_uc001ctp.2_Missense_Mutation_p.A747G	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	747	FYVE-type.				endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						AGAAAGGAAGCTAGAGTGTGT	0.408													6	10	---	---	---	---	PASS	G	52729506	G	G	52729506	3	3	14	1	0	0	0	0	1	0	0	0	17668	797	28	4	2250	4	ZFYVE9	1	52729506	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	5618609	52729506	196521115	7	7806										
ZYG11B	79699	broad.mit.edu	37	chr1	53282232	53282232	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atccatttttcccattacttGgctgtttcacaacaccagga	5	12	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:53282232G>T	uc001cuj.2	+	13	2170	c.1975G>T	c.(1975-1977)GGC>TGC	p.G659C	ZYG11B_uc009vzg.2_RNA|ZYG11B_uc010onj.1_Missense_Mutation_p.G580C|ZYG11B_uc009vzh.2_Missense_Mutation_p.G81C	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B	659							protein binding	p.G659S(1)		upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CCCATTACTTGGCTGTTTCAC	0.378													130	145	---	---	---	---	PASS	T	53282232	T	T	53282232	3	4	14	1	0	0	0	0	1	0	0	0	18250	1348	47	3	2025	3	ZYG11B	1	53282232	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	552726	53282232	195968389	8	7807										
MYSM1	114803	broad.mit.edu	37	chr1	59133586	59133586	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcacttctgccatagaaacaTgagcatgctaaaagaaatac	6	9	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:59133586T>A	uc009wab.1	-	15	1798	c.1775A>T	c.(1774-1776)CAT>CTT	p.H592L	MYSM1_uc009waa.1_5'UTR|MYSM1_uc001czc.2_RNA	NM_001085487	NP_001078956	Q5VVJ2	MYSM1_HUMAN	Myb-like, SWIRM and MPN domains 1	592	MPN.				histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin remodeling complex	DNA binding|histone binding|metal ion binding|metallopeptidase activity|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(1)	1	all_cancers(7;9.36e-06)					CATAGAAACATGAGCATGCTA	0.343													43	128	---	---	---	---	PASS	A	59133586	A	A	59133586	3	1	14	1	0	0	0	0	1	0	0	0	10101	1464	51	5	735	5	MYSM1	1	59133586	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	5851354	59133586	190117035	9	7808										
LEPR	3953	broad.mit.edu	37	chr1	66062217	66062217	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggtccagcccaccattggtaCcatttccacttcaatatcaa	5	14	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:66062217C>T	uc001dci.2	+	7	992	c.790C>T	c.(790-792)CCA>TCA	p.P264S	LEPR_uc001dcg.2_Missense_Mutation_p.P264S|LEPR_uc001dch.2_Missense_Mutation_p.P264S|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Missense_Mutation_p.P264S|LEPR_uc001dck.2_Missense_Mutation_p.P264S	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	264	Extracellular (Potential).|Fibronectin type-III 1.				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)		ACCATTGGTACCATTTCCACT	0.333													46	52	---	---	---	---	PASS	T	66062217	T	T	66062217	3	4	14	1	0	0	0	0	1	0	0	0	8728	507	18	3	808	3	LEPR	1	66062217	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	6928631	66062217	183188404	10	7809										
TNNI3K	51086	broad.mit.edu	37	chr1	74835185	74835185	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aattcagtttgtgggtgcttGcttgaatgatcccagccagt	11	8	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:74835185G>T	uc001dgf.1	+	16	1634	c.1583G>T	c.(1582-1584)TGC>TTC	p.C528F	TNNI3K_uc001dgc.1_Missense_Mutation_p.C629F|TNNI3K_uc001dgd.2_Missense_Mutation_p.C629F|TNNI3K_uc001dge.1_Missense_Mutation_p.C629F	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	528	Protein kinase.					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						GTGGGTGCTTGCTTGAATGAT	0.468													177	206	---	---	---	---	PASS	T	74835185	T	T	74835185	3	4	14	1	0	0	0	0	1	0	0	0	16326	1319	46	3	2000	3	TNNI3K	1	74835185	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	8772968	74835185	174415436	11	7810										
TNNI3K	51086	broad.mit.edu	37	chr1	74836041	74836041	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggcatggagtaccttcacaaCctgacacagccaattataca	7	12	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:74836041C>G	uc001dgf.1	+	17	1788	c.1737C>G	c.(1735-1737)AAC>AAG	p.N579K	TNNI3K_uc001dgc.1_Missense_Mutation_p.N680K|TNNI3K_uc001dgd.2_Missense_Mutation_p.N680K|TNNI3K_uc001dge.1_Missense_Mutation_p.N680K	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	579	Protein kinase.					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						ACCTTCACAACCTGACACAGC	0.343													72	97	---	---	---	---	PASS	G	74836041	G	G	74836041	3	3	14	1	0	0	0	0	1	0	0	0	16326	506	18	4	2158	4	TNNI3K	1	74836041	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	856	74836041	174414580	12	7811										
TNNI3K	51086	broad.mit.edu	37	chr1	74929212	74929212	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	catatcatctctgctgatacGagggtggaacgcatgtcctg	11	10	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:74929212G>T	uc001dgf.1	+	21	2150	c.2099G>T	c.(2098-2100)CGA>CTA	p.R700L	TNNI3K_uc001dgd.2_Missense_Mutation_p.R801L|TNNI3K_uc001dge.1_Missense_Mutation_p.R801L	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	700	Protein kinase.					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						CTGCTGATACGAGGGTGGAAC	0.438													98	245	---	---	---	---	PASS	T	74929212	T	T	74929212	3	4	14	1	0	0	0	0	1	0	0	0	16326	1058	37	2	2536	2	TNNI3K	1	74929212	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	93171	74929212	174321409	13	7812										
USP33	23032	broad.mit.edu	37	chr1	78207376	78207376	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tggacaatgatttcgaaaagCtgacattttgttaggaattt	9	4	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:78207376C>T	uc001dht.2	-	3	447	c.100G>A	c.(100-102)GCT>ACT	p.A34T	USP33_uc001dhu.2_Missense_Mutation_p.A3T|USP33_uc001dhv.2_5'Flank|USP33_uc001dhw.2_Missense_Mutation_p.A34T	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	34					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						TTTCGAAAAGCTGACATTTTG	0.303													11	42	---	---	---	---	PASS	T	78207376	T	T	78207376	3	4	14	1	0	0	0	0	1	0	0	0	17061	797	28	3	2832	3	USP33	1	78207376	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	3278164	78207376	171043245	14	7813										
CCBL2	56267	broad.mit.edu	37	chr1	89418830	89418830	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgatttggaccaatggaccaGccaagctgggaaaggaaaag	13	7	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:89418830G>C	uc001dmp.2	-	10	1247	c.870C>G	c.(868-870)GGC>GGG	p.G290G	CCBL2_uc001dmq.2_Silent_p.G256G|CCBL2_uc001dmr.2_Silent_p.G126G	NM_001008661	NP_001008661	Q6YP21	KAT3_HUMAN	kynurenine aminotransferase III isoform 1	290					biosynthetic process|kynurenine metabolic process|tryptophan catabolic process		cysteine-S-conjugate beta-lyase activity|kynurenine-glyoxylate transaminase activity|kynurenine-oxoglutarate transaminase activity|pyridoxal phosphate binding			ovary(1)	1		Lung NSC(277;0.123)		all cancers(265;0.0117)|Epithelial(280;0.0341)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CAATGGACCAGCCAAGCTGGG	0.308													47	27	---	---	---	---	PASS	C	89418830	C	C	89418830	2	2	14	1	0	0	0	0	0	0	0	1	2733	958	34	4		4	CCBL2	1	89418830	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	11211454	89418830	159831791	15	7814										
BARHL2	343472	broad.mit.edu	37	chr1	91182202	91182202	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgtcctcctgctcgagctttGgcctgaagctctcgtgcact	10	14	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:91182202G>T	uc001dns.2	-	1	593	c.551C>A	c.(550-552)CCA>CAA	p.P184Q		NM_020063	NP_064447	Q9NY43	BARH2_HUMAN	BarH-like homeobox 2	184						nucleus	sequence-specific DNA binding			ovary(1)	1		all_lung(203;0.0263)|Lung SC(238;0.128)		all cancers(265;0.000897)|Epithelial(280;0.00516)|OV - Ovarian serous cystadenocarcinoma(397;0.211)		CTCGAGCTTTGGCCTGAAGCT	0.617													14	49	---	---	---	---	PASS	T	91182202	T	T	91182202	3	4	14	1	0	0	0	0	1	0	0	0	1314	1348	47	3	624	3	BARHL2	1	91182202	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	1763372	91182202	158068419	16	7815										
GSTM5	2949	broad.mit.edu	37	chr1	110260013	110260013	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gccaattcctccgaggtcttTtgtttggaaagtcagctaca	9	10	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:110260013T>C	uc001dyn.2	+	8	693	c.622T>C	c.(622-624)TTG>CTG	p.L208L	GSTM5_uc010ovu.1_3'UTR	NM_000851	NP_000842	P46439	GSTM5_HUMAN	glutathione S-transferase mu 5	208					xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity			central_nervous_system(6)	6		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Colorectal(144;0.0131)|all cancers(265;0.0252)|Epithelial(280;0.0265)|Lung(183;0.0425)|COAD - Colon adenocarcinoma(174;0.0474)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	CCGAGGTCTTTTGTTTGGAAA	0.552													119	108	---	---	---	---	PASS	C	110260013	C	C	110260013	2	2	14	1	0	0	0	0	0	0	0	1	6841	1838	64	5		5	GSTM5	1	110260013	Silent	SNP	T	TCGA-18-4083-01A-01D-1352-08	19077811	110260013	138990608	17	7816										
RHOC	389	broad.mit.edu	37	chr1	113245681	113245681	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gacatcagtgtccgggtaggAgagaggccgcagtcgatcat	15	9	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:113245681A>C	uc001ecp.1	-	4	517	c.217T>G	c.(217-219)TCC>GCC	p.S73A	RHOC_uc001ecq.1_Missense_Mutation_p.S73A|RHOC_uc001ecr.1_Missense_Mutation_p.S73A|RHOC_uc009wgk.1_Missense_Mutation_p.S73A	NM_001042679	NP_001036144	P08134	RHOC_HUMAN	ras homolog gene family, member C precursor	73					axon guidance|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|signal transducer activity			ovary(1)	1	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCCGGGTAGGAGAGAGGCCGC	0.612													50	184	---	---	---	---	PASS	C	113245681	C	C	113245681	3	2	14	1	0	0	0	0	1	0	0	0	13336	304	11	5	376	5	RHOC	1	113245681	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	2985668	113245681	136004940	18	7817										
SPTA1	6708	broad.mit.edu	37	chr1	158617400	158617400	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttacgatcctttgtacgcccCtgcaggtcttcccaggcctc	8	16	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:158617400C>T	uc001fst.1	-	27	4024	c.3825G>A	c.(3823-3825)CAG>CAA	p.Q1275Q		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1275	Spectrin 12.				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)					TTGTACGCCCCTGCAGGTCTT	0.557													78	197	---	---	---	---	PASS	T	158617400	T	T	158617400	2	4	14	1	0	0	0	0	0	0	0	1	15115	680	24	3		3	SPTA1	1	158617400	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	45371719	158617400	90633221	19	7818										
OR6K3	391114	broad.mit.edu	37	chr1	158687140	158687140	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gctgaaacgcaagtacatgaGtgatacactgccaaagaata	9	8	0	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:158687140G>C	uc010pip.1	-	1	814	c.814C>G	c.(814-816)CTC>GTC	p.L272V		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	272	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					AAGTACATGAGTGATACACTG	0.448													47	167	---	---	---	---	PASS	C	158687140	C	C	158687140	3	2	14	1	0	0	0	0	1	0	0	0	11203	1029	36	4	183	4	OR6K3	1	158687140	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	69740	158687140	90563481	20	7819										
OR6K6	128371	broad.mit.edu	37	chr1	158724916	158724916	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggagatctgctataccacaaCcaccatccccaagatgctgt	7	14	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:158724916C>T	uc001fsw.1	+	1	311	c.311C>T	c.(310-312)ACC>ATC	p.T104I		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	104	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					TATACCACAACCACCATCCCC	0.493													83	324	---	---	---	---	PASS	T	158724916	T	T	158724916	3	4	14	1	0	0	0	0	1	0	0	0	11204	507	18	3	313	3	OR6K6	1	158724916	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	37776	158724916	90525705	21	7820										
TDRD5	163589	broad.mit.edu	37	chr1	179609107	179609107	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcattatccatcgagtccttGagaaacaggaagttgaagtg	10	7	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:179609107G>C	uc001gnf.1	+	10	1904	c.1654G>C	c.(1654-1656)GAG>CAG	p.E552Q	TDRD5_uc010pnp.1_Missense_Mutation_p.E552Q|TDRD5_uc001gnh.1_Missense_Mutation_p.E107Q	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	552	Tudor.				DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						TCGAGTCCTTGAGAAACAGGA	0.413													274	317	---	---	---	---	PASS	C	179609107	C	C	179609107	3	2	14	1	0	0	0	0	1	0	0	0	15730	1291	45	2	1688	2	TDRD5	1	179609107	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	20884191	179609107	69641514	22	7821										
NCF2	4688	broad.mit.edu	37	chr1	183525256	183525256	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtagtttgtgaaacatcctaGacttctctccgagtgctttc	8	10	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:183525256G>C	uc001gqj.3	-	15	1853	c.1578C>G	c.(1576-1578)GTC>GTG	p.V526V	NCF2_uc010pod.1_Silent_p.V481V|NCF2_uc010poe.1_Silent_p.V445V|NCF2_uc001gqk.3_Silent_p.V526V	NM_000433	NP_000424	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	526					cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3						AAACATCCTAGACTTCTCTCC	0.423													34	119	---	---	---	---	PASS	C	183525256	C	C	183525256	2	2	14	1	0	0	0	0	0	0	0	1	10217	929	33	2		2	NCF2	1	183525256	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	3916149	183525256	65725365	23	7822										
CFHR3	10878	broad.mit.edu	37	chr1	196757463	196757463	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	accaggatatgcaacagcagAtggaaattcttcaggatcaa	9	8	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:196757463A>G	uc001gtl.2	+	4	635	c.548A>G	c.(547-549)GAT>GGT	p.D183G	CFHR3_uc001gtk.2_Missense_Mutation_p.D183G|CFHR3_uc010poy.1_Intron|CFHR1_uc001gtm.2_Intron	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	183	Sushi 3.					extracellular space					0						GCAACAGCAGATGGAAATTCT	0.294													78	276	---	---	---	---	PASS	G	196757463	G	G	196757463	3	3	14	1	0	0	0	0	1	0	0	0	3286	333	12	5	562	5	CFHR3	1	196757463	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	13232207	196757463	52493158	24	7823										
CR2	1380	broad.mit.edu	37	chr1	207646142	207646142	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acctgcccaccaccccctgtTatctacaatggggcacacac	6	18	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:207646142T>A	uc001hfw.2	+	10	1690	c.1596T>A	c.(1594-1596)GTT>GTA	p.V532V	CR2_uc001hfv.2_Silent_p.V532V|CR2_uc009xch.2_Silent_p.V532V|CR2_uc009xci.1_Silent_p.V17V	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	532	Sushi 9.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						CACCCCCTGTTATCTACAATG	0.448													64	84	---	---	---	---	PASS	A	207646142	A	A	207646142	2	1	14	1	0	0	0	0	0	0	0	1	3842	1741	61	5		5	CR2	1	207646142	Silent	SNP	T	TCGA-18-4083-01A-01D-1352-08	10888679	207646142	41604479	25	7824										
USH2A	7399	broad.mit.edu	37	chr1	216373338	216373338	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	taaagtcaagtttccctctgGgacccctggttttgtcttgt	9	10	3	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:216373338G>T	uc001hku.1	-	17	3829	c.3442C>A	c.(3442-3444)CCA>ACA	p.P1148T	USH2A_uc001hkv.2_Missense_Mutation_p.P1148T	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1148	Extracellular (Potential).|Fibronectin type-III 2.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTTCCCTCTGGGACCCCTGGT	0.418										HNSCC(13;0.011)			132	221	---	---	---	---	PASS	T	216373338	T	T	216373338	3	4	14	1	0	0	0	0	1	0	0	0	17033	1232	43	3	12404	3	USH2A	1	216373338	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	8727196	216373338	32877283	26	7825										
GPATCH2	55105	broad.mit.edu	37	chr1	217793767	217793767	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctgtttcagcaaatccacctCgagcttgctctgagctctct	7	14	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:217793767C>T	uc001hlf.1	-	2	227	c.131G>A	c.(130-132)CGA>CAA	p.R44Q	GPATCH2_uc001hlg.3_Missense_Mutation_p.R44Q	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	44						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		AAATCCACCTCGAGCTTGCTC	0.453													137	227	---	---	---	---	PASS	T	217793767	T	T	217793767	3	4	14	1	0	0	0	0	1	0	0	0	6591	884	31	2	1491	2	GPATCH2	1	217793767	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1420429	217793767	31456854	27	7826										
DISP1	84976	broad.mit.edu	37	chr1	223177328	223177328	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aaacagtggatggaaaaccaGgactgtgatgagcctgccct	12	9	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:223177328G>T	uc001hnu.1	+	8	2736	c.2589G>T	c.(2587-2589)CAG>CAT	p.Q863H		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	863					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TGGAAAACCAGGACTGTGATG	0.463													79	125	---	---	---	---	PASS	T	223177328	T	T	223177328	3	4	14	1	0	0	0	0	1	0	0	0	4539	991	35	3	2615	3	DISP1	1	223177328	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	5383561	223177328	26073293	28	7827										
NID1	4811	broad.mit.edu	37	chr1	236189372	236189372	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gccactggtaagtgtagatgCgtgaaggagatgccccatct	13	9	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:236189372C>T	uc001hxo.2	-	8	1910	c.1808G>A	c.(1807-1809)CGC>CAC	p.R603H	NID1_uc009xgd.2_Missense_Mutation_p.R603H	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	603	Nidogen G2 beta-barrel.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	AGTGTAGATGCGTGAAGGAGA	0.622													111	184	---	---	---	---	PASS	T	236189372	T	T	236189372	3	4	14	1	0	0	0	0	1	0	0	0	10414	768	27	1	1987	1	NID1	1	236189372	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	13012044	236189372	13061249	29	7828										
RYR2	6262	broad.mit.edu	37	chr1	237947185	237947185	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gatggagagccataagcactAcacgcagtcagaaacggaat	11	9	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:237947185A>T	uc001hyl.1	+	90	12293	c.12173A>T	c.(12172-12174)TAC>TTC	p.Y4058F	RYR2_uc010pya.1_Missense_Mutation_p.Y473F	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4058	EF-hand.				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)			CATAAGCACTACACGCAGTCA	0.478													26	43	---	---	---	---	PASS	T	237947185	T	T	237947185	3	4	14	1	0	0	0	0	1	0	0	0	13769	391	14	5	12531	5	RYR2	1	237947185	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	1757813	237947185	11303436	30	7829										
RYR2	6262	broad.mit.edu	37	chr1	237947838	237947838	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aaaaagtaaaaaagatgaccGtgaaggacatggtcacggcc	11	7	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:237947838G>T	uc001hyl.1	+	90	12946	c.12826G>T	c.(12826-12828)GTG>TTG	p.V4276L	RYR2_uc010pya.1_Missense_Mutation_p.V691L	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4276					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)			AAAGATGACCGTGAAGGACAT	0.468													44	80	---	---	---	---	PASS	T	237947838	T	T	237947838	3	4	14	1	0	0	0	0	1	0	0	0	13769	1145	40	1	13184	1	RYR2	1	237947838	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	653	237947838	11302783	31	7830										
FMN2	56776	broad.mit.edu	37	chr1	240370901	240370901	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gccgcctctacccggagcagGcatactccctctgccccctc	8	21	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:240370901G>T	uc010pyd.1	+	5	3014	c.2789G>T	c.(2788-2790)GGC>GTC	p.G930V	FMN2_uc010pye.1_Missense_Mutation_p.G934V	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	930	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CCCGGAGCAGGCATACTCCCT	0.697													86	131	---	---	---	---	PASS	T	240370901	T	T	240370901	3	4	14	1	0	0	0	0	1	0	0	0	5950	1203	42	3	2807	3	FMN2	1	240370901	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	2423063	240370901	8879720	32	7831										
RGS7	6000	broad.mit.edu	37	chr1	241146429	241146429	+	Missense_Mutation	SNP	C	A	A													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	accattgaacaatgtctgaaCctagaaaaagaaaaaagaaa							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:241146429C>A	uc001hyv.2	-	4	506	c.176G>T	c.(175-177)GGT>GTT	p.G59V	RGS7_uc010pyh.1_Missense_Mutation_p.G33V|RGS7_uc010pyj.1_5'UTR|RGS7_uc001hyu.2_Missense_Mutation_p.G59V|RGS7_uc009xgn.1_Missense_Mutation_p.G59V|RGS7_uc001hyw.2_Missense_Mutation_p.G59V	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	59	DEP.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			AATGTCTGAACCTAGAAAAAG	0.289													16	19	---	---	---	---	PASS	A	241146429	A	A	241146429	3	1	14	1	0	0	0	0	1	0	0	0	13310	521	18	3	1347	3	RGS7	1	241146429	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	775528	241146429	8104192	33	7832	236	2								
RGS7	6000	broad.mit.edu	37	chr1	241146430	241146430	+	Splice_Site	SNP	C	T	T													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ccattgaacaatgtctgaacCtagaaaaagaaaaaagaaaa							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:241146430C>T	uc001hyv.2	-	4	506	c.176_splice	c.e4-1	p.G59_splice	RGS7_uc010pyh.1_Splice_Site_p.G33_splice|RGS7_uc010pyj.1_Splice_Site|RGS7_uc001hyu.2_Splice_Site_p.G59_splice|RGS7_uc009xgn.1_Splice_Site_p.G59_splice|RGS7_uc001hyw.2_Splice_Site_p.G59_splice	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7						G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			ATGTCTGAACCTAGAAAAAGA	0.294													16	17	---	---	---	---	PASS	T	241146430	T	T	241146430	5	4	14	1	0	0	0	0	0	0	1	0	13310	695	24	3	1348	3	RGS7	1	241146430	Splice_Site	SNP	C	TCGA-18-4083-01A-01D-1352-08	1	241146430	8104191	34	7833	236	2								
FH	2271	broad.mit.edu	37	chr1	241663881	241663881	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cagcctggctgagtgtaacaCatttttaatctttgagtgag	10	7	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:241663881C>G	uc001hyx.2	-	9	1278	c.1246G>C	c.(1246-1248)GTG>CTG	p.V416L		NM_000143	NP_000134	P07954	FUMH_HUMAN	fumarate hydratase precursor	416					fumarate metabolic process|tricarboxylic acid cycle	cell junction|mitochondrial matrix|tricarboxylic acid cycle enzyme complex	fumarate hydratase activity	p.V416M(1)		lung(3)|ovary(1)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;2.37e-314)|all_epithelial(177;5.17e-286)|Breast(1374;1.06e-10)|Acute lymphoblastic leukemia(190;4.93e-10)|all_neural(198;0.00118)	OV - Ovarian serous cystadenocarcinoma(106;0.0214)	Colorectal(1306;2.33e-53)|COAD - Colon adenocarcinoma(196;1.05e-44)|KIRC - Kidney renal clear cell carcinoma(1967;0.000109)		GAGTGTAACACATTTTTAATC	0.308			Mis|N|F			lieomyomatosis|renal			Hereditary_Leiomyomatosis_and_Renal_Cell_Cancer				80	125	---	---	---	---	PASS	G	241663881	G	G	241663881	3	3	14	1	0	0	0	0	1	0	0	0	5875	478	17	4	294	4	FH	1	241663881	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	517451	241663881	7586740	35	7834										
CHML	1122	broad.mit.edu	37	chr1	241798599	241798599	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctgtatcacttttctgagtgTgttttgcaggcatttcgtcg	10	8	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:241798599T>G	uc001hzd.2	-	1	634	c.470A>C	c.(469-471)CAC>CCC	p.H157P	OPN3_uc001hza.2_Intron|OPN3_uc001hzb.2_Intron|OPN3_uc001hzc.2_Intron	NM_001821	NP_001812	P26374	RAE2_HUMAN	choroideremia-like Rab escort protein 2	157					intracellular protein transport|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(4)|skin(2)	6	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			TTTCTGAGTGTGTTTTGCAGG	0.388													101	513	---	---	---	---	PASS	G	241798599	G	G	241798599	3	3	14	1	0	0	0	0	1	0	0	0	3351	1696	59	5	1504	5	CHML	1	241798599	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	134718	241798599	7452022	36	7835										
EXO1	9156	broad.mit.edu	37	chr1	242045216	242045216	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttttttgatctggggactctAggaatctgattgcaatatta	9	5	3	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:242045216A>G	uc001hzh.2	+	14	2650	c.2110_splice	c.e14-2	p.E704_splice	EXO1_uc001hzi.2_Splice_Site_p.E704_splice|EXO1_uc001hzj.2_Splice_Site_p.E704_splice|EXO1_uc009xgq.2_Splice_Site_p.E703_splice	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b						meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			TGGGGACTCTAGGAATCTGAT	0.303								Direct_reversal_of_damage|Editing_and_processing_nucleases					45	63	---	---	---	---	PASS	G	242045216	G	G	242045216	5	3	14	1	0	0	0	0	0	0	1	0	5300	434	15	5	2150	5	EXO1	1	242045216	Splice_Site	SNP	A	TCGA-18-4083-01A-01D-1352-08	246617	242045216	7205405	37	7836										
NLRP3	114548	broad.mit.edu	37	chr1	247599422	247599422	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gaaaaagccaagaatccacaGtgtaacctgcagaaactggg	10	9	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:247599422G>C	uc001icr.2	+	8	2787	c.2649G>C	c.(2647-2649)CAG>CAC	p.Q883H	NLRP3_uc001ics.2_Intron|NLRP3_uc001icu.2_Missense_Mutation_p.Q883H|NLRP3_uc001icw.2_Missense_Mutation_p.Q826H|NLRP3_uc001icv.2_Intron|NLRP3_uc010pyw.1_Missense_Mutation_p.Q861H	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	883					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			AGAATCCACAGTGTAACCTGC	0.448													57	87	---	---	---	---	PASS	C	247599422	C	C	247599422	3	2	14	1	0	0	0	0	1	0	0	0	10478	1020	36	4	2671	4	NLRP3	1	247599422	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	5554206	247599422	1651199	38	7837										
OR2M3	127062	broad.mit.edu	37	chr1	248366559	248366559	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cccccatgtacctcctcctcAgccaactgtccctcatggac	5	20	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:248366559A>T	uc010pzg.1	+	1	190	c.190A>T	c.(190-192)AGC>TGC	p.S64C		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CCTCCTCCTCAGCCAACTGTC	0.547													394	505	---	---	---	---	PASS	T	248366559	T	T	248366559	3	4	14	1	0	0	0	0	1	0	0	0	11011	188	7	5	192	5	OR2M3	1	248366559	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	767137	248366559	884062	39	7838										
OR2T4	127074	broad.mit.edu	37	chr1	248525095	248525095	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtggttttcctgatggcgttGtctggaaatgctgtcctgat	13	7	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:248525095G>T	uc001ieh.1	+	1	213	c.213G>T	c.(211-213)TTG>TTT	p.L71F		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	71	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGATGGCGTTGTCTGGAAATG	0.473													284	478	---	---	---	---	PASS	T	248525095	T	T	248525095	3	4	14	1	0	0	0	0	1	0	0	0	11027	1368	48	3	215	3	OR2T4	1	248525095	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	158536	248525095	725526	40	7839										
OR2T1	26696	broad.mit.edu	37	chr1	248569700	248569700	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cctaagatgctggttaattaCctgctggatcaaaggaccat	9	9	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:248569700C>A	uc010pzm.1	+	1	405	c.405C>A	c.(403-405)TAC>TAA	p.Y135*		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	135	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGGTTAATTACCTGCTGGATC	0.468													219	389	---	---	---	---	PASS	A	248569700	A	A	248569700	4	1	14	1	0	0	0	0	0	1	0	0	11016	518	18	3	407	3	OR2T1	1	248569700	Nonsense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	44605	248569700	680921	41	7840										
OR2T2	401992	broad.mit.edu	37	chr1	248616203	248616203	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tttgcaatagtcttctccatCtttgtggtggctataacagc	8	9	3	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr1:248616203C>G	uc001iek.1	+	1	105	c.105C>G	c.(103-105)ATC>ATG	p.I35M		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCTTCTCCATCTTTGTGGTGG	0.532													112	488	---	---	---	---	PASS	G	248616203	G	G	248616203	3	3	14	1	0	0	0	0	1	0	0	0	11020	903	32	2	107	2	OR2T2	1	248616203	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	46503	248616203	634418	42	7841										
IFT172	26160	broad.mit.edu	37	chr2	27706745	27706745	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cttccctcttttaccttcccTtcagccagtccaaagacaat	3	16	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:27706745T>A	uc002rku.2	-	5	447	c.396A>T	c.(394-396)GAA>GAT	p.E132D	IFT172_uc002rkw.2_Missense_Mutation_p.E132D|IFT172_uc010yls.1_Missense_Mutation_p.E111D|IFT172_uc010ezc.2_Missense_Mutation_p.E132D|IFT172_uc002rkv.2_Missense_Mutation_p.E132D	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	132	WD 3.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					TTACCTTCCCTTCAGCCAGTC	0.468													66	85	---	---	---	---	PASS	A	27706745	A	A	27706745	3	1	14	1	0	0	0	0	1	0	0	0	7557	1606	56	5	5029	5	IFT172	2	27706745	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08		27706745	215492628	43	7842										
USP34	9736	broad.mit.edu	37	chr2	61463468	61463468	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	taccaaacttacccaaaataTgtatgttcaaaaatgttttt	3	7	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:61463468T>C	uc002sbe.2	-	54	6856	c.6834A>G	c.(6832-6834)ACA>ACG	p.T2278T	USP34_uc002sbf.2_Silent_p.T428T	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2278					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ACCCAAAATATGTATGTTCAA	0.239													10	27	---	---	---	---	PASS	C	61463468	C	C	61463468	2	2	14	1	0	0	0	0	0	0	0	1	17062	1451	51	5		5	USP34	2	61463468	Silent	SNP	T	TCGA-18-4083-01A-01D-1352-08	33756723	61463468	181735905	44	7843										
TGFA	7039	broad.mit.edu	37	chr2	70742029	70742029	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgttctccaaggcctggcacGcagccaacacaatacctgtt	8	14	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:70742029G>A	uc002sgs.3	-	2	262	c.56C>T	c.(55-57)GCG>GTG	p.A19V	TGFA_uc010fdq.2_Missense_Mutation_p.A25V|TGFA_uc010fdr.2_Missense_Mutation_p.A25V|TGFA_uc002sgt.3_Missense_Mutation_p.A19V|TGFA_uc002sgu.2_Missense_Mutation_p.A19V|TGFA_uc002sgv.2_Missense_Mutation_p.A19V|TGFA_uc002sgw.2_Missense_Mutation_p.A19V	NM_003236	NP_003227	P01135	TGFA_HUMAN	transforming growth factor, alpha isoform 1	19					activation of MAPK activity|cell proliferation|positive regulation of cell division|positive regulation of epidermal growth factor receptor activity|positive regulation of epithelial cell proliferation|positive regulation of mitosis	cell surface|extracellular space|integral to membrane|plasma membrane	epidermal growth factor receptor binding|growth factor activity|MAP kinase kinase activity|signal transducer activity			prostate(1)	1						GGCCTGGCACGCAGCCAACAC	0.597													13	40	---	---	---	---	PASS	A	70742029	A	A	70742029	3	1	14	1	0	0	0	0	1	0	0	0	15812	1087	38	1	446	1	TGFA	2	70742029	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	9278561	70742029	172457344	45	7844										
ALMS1	7840	broad.mit.edu	37	chr2	73677452	73677452	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gaagaggctctgaaaatttcAgttgcctctgaaccagttga	10	8	3	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:73677452A>T	uc002sje.1	+	10	3912	c.3801A>T	c.(3799-3801)TCA>TCT	p.S1267S	ALMS1_uc002sjf.1_Silent_p.S1223S|ALMS1_uc002sjg.2_Silent_p.S653S|ALMS1_uc002sjh.1_Silent_p.S653S	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1265	16.|34 X 47 AA approximate tandem repeat.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TGAAAATTTCAGTTGCCTCTG	0.453													72	170	---	---	---	---	PASS	T	73677452	T	T	73677452	2	4	14	1	0	0	0	0	0	0	0	1	535	175	7	5		5	ALMS1	2	73677452	Silent	SNP	A	TCGA-18-4083-01A-01D-1352-08	2935423	73677452	169521921	46	7845										
REG1B	5968	broad.mit.edu	37	chr2	79314031	79314031	+	Silent	SNP	A	T	T													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gggcagctgattcggggattAggcagctctgtctgggactc							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:79314031A>T	uc002sny.2	-	3	202	c.90T>A	c.(88-90)CCT>CCA	p.P30P	REG1B_uc010ffv.1_Silent_p.P30P|REG1B_uc010ffw.2_Silent_p.P30P	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	30					cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						TTCGGGGATTAGGCAGCTCTG	0.498													49	305	---	---	---	---	PASS	T	79314031	T	T	79314031	2	4	14	1	0	0	0	0	0	0	0	1	13211	407	15	5		5	REG1B	2	79314031	Silent	SNP	A	TCGA-18-4083-01A-01D-1352-08	5636579	79314031	163885342	47	7846	237	3								
REG1B	5968	broad.mit.edu	37	chr2	79314032	79314032	+	Missense_Mutation	SNP	G	T	T													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggcagctgattcggggattaGgcagctctgtctgggactcc							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:79314032G>T	uc002sny.2	-	3	201	c.89C>A	c.(88-90)CCT>CAT	p.P30H	REG1B_uc010ffv.1_Missense_Mutation_p.P30H|REG1B_uc010ffw.2_Missense_Mutation_p.P30H	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	30					cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						TCGGGGATTAGGCAGCTCTGT	0.493													55	305	---	---	---	---	PASS	T	79314032	T	T	79314032	3	4	14	1	0	0	0	0	1	0	0	0	13211	1000	35	3	427	3	REG1B	2	79314032	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	1	79314032	163885341	48	7847	237	3								
REG1B	5968	broad.mit.edu	37	chr2	79314033	79314033	+	Missense_Mutation	SNP	G	A	A													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcagctgattcggggattagGcagctctgtctgggactcct							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:79314033G>A	uc002sny.2	-	3	200	c.88C>T	c.(88-90)CCT>TCT	p.P30S	REG1B_uc010ffv.1_Missense_Mutation_p.P30S|REG1B_uc010ffw.2_Missense_Mutation_p.P30S	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	30					cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						CGGGGATTAGGCAGCTCTGTC	0.498													51	300	---	---	---	---	PASS	A	79314033	A	A	79314033	3	1	14	1	0	0	0	0	1	0	0	0	13211	1203	42	3	428	3	REG1B	2	79314033	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	1	79314033	163885340	49	7848	237	3								
RNF103	7844	broad.mit.edu	37	chr2	86831828	86831828	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cccatgaagccagtgtggttGtattggaatatctcaacaat	9	8	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:86831828G>T	uc002srn.2	-	4	2165	c.1196C>A	c.(1195-1197)ACA>AAA	p.T399K	VPS24_uc010ytl.1_Intron|RNF103_uc002srm.2_Missense_Mutation_p.T260K|uc002sro.2_Intron	NM_005667	NP_005658	O00237	RN103_HUMAN	ring finger protein 103	399					central nervous system development|ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(1)	1						CAGTGTGGTTGTATTGGAATA	0.383													31	107	---	---	---	---	PASS	T	86831828	T	T	86831828	3	4	14	1	0	0	0	0	1	0	0	0	13423	1377	48	3	865	3	RNF103	2	86831828	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	7517795	86831828	156367545	50	7849										
TMEM87B	84910	broad.mit.edu	37	chr2	112858218	112858218	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gatatgccttcatgcccttaAtagatgattctgatgatgaa	8	7	2	5			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:112858218A>G	uc002thm.2	+	15	1765	c.1396A>G	c.(1396-1398)ATA>GTA	p.I466V		NM_032824	NP_116213	Q96K49	TM87B_HUMAN	transmembrane protein 87B precursor	466						integral to membrane					0						CATGCCCTTAATAGATGATTC	0.279													27	88	---	---	---	---	PASS	G	112858218	G	G	112858218	3	3	14	1	0	0	0	0	1	0	0	0	16208	101	4	5	1454	5	TMEM87B	2	112858218	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	26026390	112858218	130341155	51	7850										
PSD4	23550	broad.mit.edu	37	chr2	113943638	113943638	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cttcaacaccacagctcaggCattttgcccaagtggacact	7	14	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:113943638C>A	uc002tjc.2	+	5	1617	c.1434C>A	c.(1432-1434)GGC>GGA	p.G478G	PSD4_uc002tjd.2_Silent_p.G99G|PSD4_uc002tje.2_Silent_p.G449G|PSD4_uc002tjf.2_Silent_p.G99G	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	478					regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						ACAGCTCAGGCATTTTGCCCA	0.592													73	82	---	---	---	---	PASS	A	113943638	A	A	113943638	2	1	14	1	0	0	0	0	0	0	0	1	12649	697	25	3		3	PSD4	2	113943638	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	1085420	113943638	129255735	52	7851										
DPP10	57628	broad.mit.edu	37	chr2	116548755	116548755	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tccttcatattgacgactatGgtaaaattttgtgcatgcta	7	7	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:116548755G>T	uc002tla.1	+	18	2087	c.1630G>T	c.(1630-1632)GAA>TAA	p.E544*	DPP10_uc002tlb.1_Nonsense_Mutation_p.E494*|DPP10_uc002tlc.1_Nonsense_Mutation_p.E540*|DPP10_uc002tle.2_Nonsense_Mutation_p.E548*|DPP10_uc002tlf.1_Nonsense_Mutation_p.E537*	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	544	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TGACGACTATGGTAAAATTTT	0.323													20	70	---	---	---	---	PASS	T	116548755	T	T	116548755	4	4	14	1	0	0	0	0	0	1	0	0	4727	1362	47	3	1871	3	DPP10	2	116548755	Nonsense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	2605117	116548755	126650618	53	7852										
PTPN18	26469	broad.mit.edu	37	chr2	131130789	131130789	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acccgcctgctgagtggaccCgggtgtaagtctaacgccag	13	13	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:131130789C>T	uc002trc.2	+	15	1476	c.1375C>T	c.(1375-1377)CGG>TGG	p.R459W	PTPN18_uc002trd.2_Missense_Mutation_p.R438W|PTPN18_uc002trb.2_Missense_Mutation_p.R352W|PTPN18_uc002tre.2_Missense_Mutation_p.R110W	NM_014369	NP_055184	Q99952	PTN18_HUMAN	protein tyrosine phosphatase, non-receptor type	459						cytoplasm|nucleus	non-membrane spanning protein tyrosine phosphatase activity			ovary(3)|kidney(1)	4	Colorectal(110;0.1)					TGAGTGGACCCGGGTGTAAGT	0.622													12	25	---	---	---	---	PASS	T	131130789	T	T	131130789	3	4	14	1	0	0	0	0	1	0	0	0	12784	643	23	1	1433	1	PTPN18	2	131130789	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	14582034	131130789	112068584	54	7853										
LRP1B	53353	broad.mit.edu	37	chr2	140990892	140990892	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	taccggattggagtaatttgTtggctgaaggagaaaaaaaa	12	3	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:140990892T>C	uc002tvj.1	-	91	14635	c.13663A>G	c.(13663-13665)ACA>GCA	p.T4555A		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4555	Cytoplasmic (Potential).				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)		GAGTAATTTGTTGGCTGAAGG	0.328										TSP Lung(27;0.18)			16	45	---	---	---	---	PASS	C	140990892	C	C	140990892	3	2	14	1	0	0	0	0	1	0	0	0	8955	1725	60	5	140	5	LRP1B	2	140990892	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	9860103	140990892	102208481	55	7854										
KCNH7	90134	broad.mit.edu	37	chr2	163693071	163693071	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tttgtgatagtaggtgacctCcactttcctctcttctgacc	7	12	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:163693071C>T	uc002uch.1	-	2	495	c.283G>A	c.(283-285)GAG>AAG	p.E95K	KCNH7_uc002uci.2_Missense_Mutation_p.E95K	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	95	Cytoplasmic (Potential).|PAC.				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	TAGGTGACCTCCACTTTCCTC	0.418													24	90	---	---	---	---	PASS	T	163693071	T	T	163693071	3	4	14	1	0	0	0	0	1	0	0	0	8037	864	30	2	3433	2	KCNH7	2	163693071	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	22702179	163693071	79506302	56	7855										
TTC21B	79809	broad.mit.edu	37	chr2	166773802	166773802	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcggtgaacgtctatcaattCaagaaagatcgataaacgat	9	7	3	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:166773802C>G	uc002udk.2	-	14	1997	c.1864G>C	c.(1864-1866)GAA>CAA	p.E622Q		NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	622	TPR 8.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TCTATCAATTCAAGAAAGATC	0.358													77	139	---	---	---	---	PASS	G	166773802	G	G	166773802	3	3	14	1	0	0	0	0	1	0	0	0	16685	835	29	2	2150	2	TTC21B	2	166773802	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	3080731	166773802	76425571	57	7856										
XIRP2	129446	broad.mit.edu	37	chr2	168100236	168100236	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tggatgtttgaaacacagccGttggacacaattaacaaaga	9	7	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:168100236G>T	uc002udx.2	+	8	2352	c.2334G>T	c.(2332-2334)CCG>CCT	p.P778P	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.P603P|XIRP2_uc010fpq.2_Silent_p.P556P|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	603	Xin 7.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAACACAGCCGTTGGACACAA	0.413													83	40	---	---	---	---	PASS	T	168100236	T	T	168100236	2	4	14	1	0	0	0	0	0	0	0	1	17427	1132	40	1		1	XIRP2	2	168100236	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	1326434	168100236	75099137	58	7857										
WDR75	84128	broad.mit.edu	37	chr2	190340027	190340027	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atgattttaccgaaaaagtcCaggatacaagtaacacaggt	8	7	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:190340027C>G	uc002uql.1	+	21	2437	c.2377C>G	c.(2377-2379)CAG>GAG	p.Q793E	WDR75_uc002uqm.1_Missense_Mutation_p.Q729E|WDR75_uc002uqn.1_Missense_Mutation_p.Q571E|WDR75_uc002uqo.1_Missense_Mutation_p.Q571E	NM_032168	NP_115544	Q8IWA0	WDR75_HUMAN	WD repeat domain 75	793						nucleolus				ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00105)|Epithelial(96;0.0129)|all cancers(119;0.0456)			CGAAAAAGTCCAGGATACAAG	0.318													90	17	---	---	---	---	PASS	G	190340027	G	G	190340027	3	3	14	1	0	0	0	0	1	0	0	0	17322	595	21	4	2459	4	WDR75	2	190340027	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	22239791	190340027	52859346	59	7858										
STK36	27148	broad.mit.edu	37	chr2	219540970	219540970	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cattctcaaggaccctgtgcGctggccctcaaccatcagtc	8	16	3	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:219540970G>A	uc002viu.2	+	6	919	c.653G>A	c.(652-654)CGC>CAC	p.R218H	STK36_uc002viv.2_Missense_Mutation_p.R218H	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	218	Protein kinase.				cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		GACCCTGTGCGCTGGCCCTCA	0.458													61	33	---	---	---	---	PASS	A	219540970	A	A	219540970	3	1	14	1	0	0	0	0	1	0	0	0	15301	1087	38	1	671	1	STK36	2	219540970	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	29200943	219540970	23658403	60	7859										
FAM124B	79843	broad.mit.edu	37	chr2	225266379	225266379	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gaaagagccggacctctgggCaaatgcaatccaggagctgg	14	10	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:225266379C>A	uc002vnx.2	-	1	333	c.107G>T	c.(106-108)TGC>TTC	p.C36F	FAM124B_uc002vnw.2_Missense_Mutation_p.C36F	NM_001122779	NP_001116251	Q9H5Z6	F124B_HUMAN	hypothetical protein LOC79843 isoform a	36							protein binding			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0126)|Lung NSC(271;0.0161)|all_hematologic(139;0.138)		Epithelial(121;4.4e-10)|all cancers(144;2.02e-07)|Lung(261;0.00766)|LUSC - Lung squamous cell carcinoma(224;0.00825)		GACCTCTGGGCAAATGCAATC	0.577													25	26	---	---	---	---	PASS	A	225266379	A	A	225266379	3	1	14	1	0	0	0	0	1	0	0	0	5426	710	25	3	1359	3	FAM124B	2	225266379	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	5725409	225266379	17932994	61	7860										
USP40	55230	broad.mit.edu	37	chr2	234407258	234407258	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttcgtaaatgccaggcatctCctataaaggagtcaaaattg	8	8	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr2:234407258C>A	uc010zmr.1	-	22	2684	c.2684G>T	c.(2683-2685)GGA>GTA	p.G895V	USP40_uc010zms.1_5'UTR|USP40_uc002vun.2_Missense_Mutation_p.G59V|USP40_uc002vuo.1_Missense_Mutation_p.G59V	NM_018218	NP_060688	Q9NVE5	UBP40_HUMAN	ubiquitin thioesterase 40	883					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)|breast(1)	3		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0539)		Epithelial(121;1.71e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000407)|Lung(119;0.00277)|LUSC - Lung squamous cell carcinoma(224;0.00646)		CCAGGCATCTCCTATAAAGGA	0.373													22	17	---	---	---	---	PASS	A	234407258	A	A	234407258	3	1	14	1	0	0	0	0	1	0	0	0	17069	869	30	2	1099	2	USP40	2	234407258	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	9140879	234407258	8792115	62	7861										
ITIH3	3699	broad.mit.edu	37	chr3	52842629	52842629	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cgaaggttgtctgctggttcGtccacaacaacggagaaggg	14	9	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:52842629G>A	uc003dfv.2	+	22	2641	c.2605G>A	c.(2605-2607)GTC>ATC	p.V869I	ITIH3_uc011bek.1_Missense_Mutation_p.V677I	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	869					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		CTGCTGGTTCGTCCACAACAA	0.537													29	70	---	---	---	---	PASS	A	52842629	A	A	52842629	3	1	14	1	0	0	0	0	1	0	0	0	7905	1145	40	1	2691	1	ITIH3	3	52842629	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08		52842629	145179801	63	7862										
TMF1	7110	broad.mit.edu	37	chr3	69101202	69101202	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgggacagggcctgcttagcGaagctggagagctgggaggc	19	8	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:69101202G>A	uc003dnn.2	-	1	283	c.36C>T	c.(34-36)TTC>TTT	p.F12F	TMF1_uc011bfx.1_Silent_p.F12F	NM_007114	NP_009045	P82094	TMF1_HUMAN	TATA element modulatory factor 1	12					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi membrane|nucleus	DNA binding|protein binding|transcription cofactor activity				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;4.48e-05)|Epithelial(33;0.000274)|LUSC - Lung squamous cell carcinoma(21;0.0123)|KIRC - Kidney renal clear cell carcinoma(39;0.211)|Kidney(39;0.247)		CCTGCTTAGCGAAGCTGGAGA	0.637													29	87	---	---	---	---	PASS	A	69101202	A	A	69101202	2	1	14	1	0	0	0	0	0	0	0	1	16225	1049	37	2		2	TMF1	3	69101202	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	16258573	69101202	128921228	64	7863										
TRAT1	50852	broad.mit.edu	37	chr3	108568055	108568055	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgaacaaatgaaagcccgacCagagaaatctgtaaataaga	8	7	1	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:108568055C>G	uc003dxi.1	+	5	401	c.257C>G	c.(256-258)CCA>CGA	p.P86R	TRAT1_uc010hpx.1_Missense_Mutation_p.P49R	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	86	Cytoplasmic (Potential).				cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						AAAGCCCGACCAGAGAAATCT	0.348													43	163	---	---	---	---	PASS	G	108568055	G	G	108568055	3	3	14	1	0	0	0	0	1	0	0	0	16463	594	21	4	275	4	TRAT1	3	108568055	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	39466853	108568055	89454375	65	7864										
TMPRSS7	344805	broad.mit.edu	37	chr3	111797663	111797663	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cgctctgtgtttccacctacGggatcatcacttctcggatg	9	13	4	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:111797663G>T	uc010hqb.2	+	15	2091	c.1921G>T	c.(1921-1923)GGG>TGG	p.G641W	TMPRSS7_uc011bhr.1_Missense_Mutation_p.G496W	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	767	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						TTCCACCTACGGGATCATCAC	0.453													32	82	---	---	---	---	PASS	T	111797663	T	T	111797663	3	4	14	1	0	0	0	0	1	0	0	0	16249	1116	39	1	1975	1	TMPRSS7	3	111797663	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	3229608	111797663	86224767	66	7865										
SLC9A10	285335	broad.mit.edu	37	chr3	111927157	111927157	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atattcattaatatcacaagGtatccaacatgttcaaattc	3	8	3	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:111927157G>A	uc003dyu.2	-	16	2076	c.1854C>T	c.(1852-1854)TAC>TAT	p.Y618Y	SLC9A10_uc011bhu.1_Intron|SLC9A10_uc010hqc.2_Silent_p.Y570Y	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	618	Helical; (Potential).|Ion transport-like.				cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						ATATCACAAGGTATCCAACAT	0.294													40	138	---	---	---	---	PASS	A	111927157	A	A	111927157	2	1	14	1	0	0	0	0	0	0	0	1	14710	1256	44	3		3	SLC9A10	3	111927157	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	129494	111927157	86095273	67	7866										
PLA1A	51365	broad.mit.edu	37	chr3	119348282	119348282	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aacttacaagcaagtgtgacTgtttcctgtgacctgaagat	9	8	0	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:119348282T>A	uc003ecu.2	+	11	1377	c.1338T>A	c.(1336-1338)ACT>ACA	p.T446T	PLA1A_uc003ecv.2_Silent_p.T430T|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_Silent_p.T273T	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	446	Involved in the recognition of diacyl- phospholipids.				lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CAAGTGTGACTGTTTCCTGTG	0.463													160	121	---	---	---	---	PASS	A	119348282	A	A	119348282	2	1	14	1	0	0	0	0	0	0	0	1	11988	1567	55	5		5	PLA1A	3	119348282	Silent	SNP	T	TCGA-18-4083-01A-01D-1352-08	7421125	119348282	78674148	68	7867										
PLXND1	23129	broad.mit.edu	37	chr3	129290355	129290355	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcccccgaatgcctcaccgtGggctcccggccaatgtggtg	13	16	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:129290355G>A	uc003emx.2	-	17	3433	c.3333C>T	c.(3331-3333)CCC>CCT	p.P1111P		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1111	Extracellular (Potential).|IPT/TIG 3.				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						GCCTCACCGTGGGCTCCCGGC	0.662													39	66	---	---	---	---	PASS	A	129290355	A	A	129290355	2	1	14	1	0	0	0	0	0	0	0	1	12127	1335	47	3		3	PLXND1	3	129290355	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	9942073	129290355	68732075	69	7868										
CEP63	80254	broad.mit.edu	37	chr3	134256052	134256052	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acgcttgatttatcagcaacAggtatcttcactggaggcac	9	10	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:134256052A>T	uc003eqo.1	+	7	946	c.497A>T	c.(496-498)CAG>CTG	p.Q166L	CEP63_uc003eql.1_Missense_Mutation_p.Q166L|CEP63_uc003eqm.2_Missense_Mutation_p.Q166L|CEP63_uc003eqn.1_Missense_Mutation_p.Q166L	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	166	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						TATCAGCAACAGGTATCTTCA	0.428													40	178	---	---	---	---	PASS	T	134256052	T	T	134256052	3	4	14	1	0	0	0	0	1	0	0	0	3257	188	7	5	515	5	CEP63	3	134256052	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	4965697	134256052	63766378	70	7869										
GRK7	131890	broad.mit.edu	37	chr3	141497223	141497223	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acagcaaagagctgcagcggCggcggcgtagcctggccctg	16	13	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:141497223C>A	uc011bnd.1	+	1	181	c.97C>A	c.(97-99)CGG>AGG	p.R33R		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	33					visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						GCTGCAGCGGCGGCGGCGTAG	0.687													26	57	---	---	---	---	PASS	A	141497223	A	A	141497223	2	1	14	1	0	0	0	0	0	0	0	1	6794	759	27	1		1	GRK7	3	141497223	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	7241171	141497223	56525207	71	7870										
PLSCR1	5359	broad.mit.edu	37	chr3	146234826	146234826	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcaccaatcattacagctttCattttaacatcaaggtctaa	4	10	4	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:146234826C>G	uc003evx.3	-	8	1255	c.867G>C	c.(865-867)ATG>ATC	p.M289I	PLSCR1_uc003evy.3_Missense_Mutation_p.M282I|PLSCR1_uc011bnn.1_Missense_Mutation_p.M208I|PLSCR1_uc003evz.3_RNA	NM_021105	NP_066928	O15162	PLS1_HUMAN	phospholipid scramblase 1	289	Helical; (Potential).				phospholipid scrambling|platelet activation|response to virus	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding			ovary(2)	2						TTACAGCTTTCATTTTAACAT	0.363													129	117	---	---	---	---	PASS	G	146234826	G	G	146234826	3	3	14	1	0	0	0	0	1	0	0	0	12109	826	29	2	97	2	PLSCR1	3	146234826	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	4737603	146234826	51787604	72	7871										
HLTF	6596	broad.mit.edu	37	chr3	148752709	148752709	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttgtttaaaaactcacttttGtgatgataacttcttgcttc	5	7	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:148752709G>A	uc003ewq.1	-	24	3091	c.2873C>T	c.(2872-2874)ACA>ATA	p.T958I	HLTF_uc003ewr.1_Missense_Mutation_p.T958I|HLTF_uc003ews.1_Missense_Mutation_p.T957I|HLTF_uc010hve.1_Missense_Mutation_p.T957I	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	958	Helicase C-terminal.|Interaction with SP1 and SP3.				chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			ACTCACTTTTGTGATGATAAC	0.338													18	120	---	---	---	---	PASS	A	148752709	A	A	148752709	3	1	14	1	0	0	0	0	1	0	0	0	7215	1377	48	3	164	3	HLTF	3	148752709	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	2517883	148752709	49269721	73	7872										
MED12L	116931	broad.mit.edu	37	chr3	151112454	151112454	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcttttgtaggtggctccagAttggaccctgcaggctcctt	12	11	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:151112454A>G	uc003eyp.2	+	37	5552	c.5514A>G	c.(5512-5514)AGA>AGG	p.R1838R	MED12L_uc011bnz.1_Silent_p.R1698R	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1838					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)			GTGGCTCCAGATTGGACCCTG	0.463													156	165	---	---	---	---	PASS	G	151112454	G	G	151112454	2	3	14	1	0	0	0	0	0	0	0	1	9429	330	12	5		5	MED12L	3	151112454	Silent	SNP	A	TCGA-18-4083-01A-01D-1352-08	2359745	151112454	46909976	74	7873										
SI	6476	broad.mit.edu	37	chr3	164712050	164712050	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aaactttgtacttactcatgCaaaaggggtcggataacagt	9	7	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:164712050C>A	uc003fei.2	-	41	4898	c.4836G>T	c.(4834-4836)TTG>TTT	p.L1612F		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1612	Sucrase.|Lumenal.				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)	CTTACTCATGCAAAAGGGGTC	0.313										HNSCC(35;0.089)			53	77	---	---	---	---	PASS	A	164712050	A	A	164712050	3	1	14	1	0	0	0	0	1	0	0	0	14297	709	25	3	679	3	SI	3	164712050	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	13599596	164712050	33310380	75	7874										
SLITRK3	22865	broad.mit.edu	37	chr3	164907547	164907547	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctgataaggagcaatgggagGctggtttggaccaggatata	15	5	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:164907547G>A	uc003fej.3	-	2	1516	c.1072C>T	c.(1072-1074)CCT>TCT	p.P358S	SLITRK3_uc003fek.2_Missense_Mutation_p.P358S	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	358	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GCAATGGGAGGCTGGTTTGGA	0.498										HNSCC(40;0.11)			112	800	---	---	---	---	PASS	A	164907547	A	A	164907547	3	1	14	1	0	0	0	0	1	0	0	0	14744	1203	42	3	1865	3	SLITRK3	3	164907547	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	195497	164907547	33114883	76	7875										
WDR49	151790	broad.mit.edu	37	chr3	167246922	167246922	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tatcagtagacataataatcGatccaactccactatgagcc	5	11	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:167246922G>C	uc003fev.1	-	10	1574	c.1268C>G	c.(1267-1269)TCG>TGG	p.S423W	WDR49_uc003feu.1_Missense_Mutation_p.S248W|WDR49_uc011bpd.1_Missense_Mutation_p.S487W|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	423	WD 7.									large_intestine(1)|ovary(1)|skin(1)	3						CATAATAATCGATCCAACTCC	0.363													40	220	---	---	---	---	PASS	C	167246922	C	C	167246922	3	2	14	1	0	0	0	0	1	0	0	0	17299	1059	37	2	849	2	WDR49	3	167246922	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	2339375	167246922	30775508	77	7876										
EIF4G1	1981	broad.mit.edu	37	chr3	184039232	184039232	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cgcagtcctctctattcctgGggacactatgacaactatac	7	13	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:184039232G>A	uc003fnp.2	+	10	1058	c.860G>A	c.(859-861)GGG>GAG	p.G287E	EIF4G1_uc003fno.1_Missense_Mutation_p.G228E|EIF4G1_uc010hxw.1_Missense_Mutation_p.G123E|EIF4G1_uc003fnt.2_5'UTR|EIF4G1_uc003fnq.2_Missense_Mutation_p.G200E|EIF4G1_uc003fnr.2_Missense_Mutation_p.G123E|EIF4G1_uc010hxx.2_Missense_Mutation_p.G294E|EIF4G1_uc003fns.2_Missense_Mutation_p.G247E|EIF4G1_uc010hxy.2_Missense_Mutation_p.G294E|EIF4G1_uc003fnv.3_Missense_Mutation_p.G287E|EIF4G1_uc003fnu.3_Missense_Mutation_p.G287E|EIF4G1_uc003fnw.2_Missense_Mutation_p.G294E|EIF4G1_uc003fnx.2_Missense_Mutation_p.G91E|EIF4G1_uc003fny.3_Missense_Mutation_p.G91E	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	287					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCTATTCCTGGGGACACTATG	0.542													82	265	---	---	---	---	PASS	A	184039232	A	A	184039232	3	1	14	1	0	0	0	0	1	0	0	0	5036	1232	43	3	890	3	EIF4G1	3	184039232	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	16792310	184039232	13983198	78	7877										
CLCN2	1181	broad.mit.edu	37	chr3	184075171	184075171	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttcatcccggttccagactgCcaagacccggaagatgaagg	11	12	1	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:184075171C>T	uc003foi.2	-	8	1001	c.877G>A	c.(877-879)GCA>ACA	p.A293T	CLCN2_uc003foh.2_5'Flank|CLCN2_uc010hya.1_Missense_Mutation_p.A293T|CLCN2_uc011brl.1_Missense_Mutation_p.A293T|CLCN2_uc011brm.1_Missense_Mutation_p.A249T|CLCN2_uc011brn.1_Missense_Mutation_p.A293T	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	293	Helical; (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	TTCCAGACTGCCAAGACCCGG	0.637													143	495	---	---	---	---	PASS	T	184075171	T	T	184075171	3	4	14	1	0	0	0	0	1	0	0	0	3463	739	26	3	1887	3	CLCN2	3	184075171	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	35939	184075171	13947259	79	7878										
OSTN	344901	broad.mit.edu	37	chr3	190936711	190936711	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttttgggtctccccttgacaGactctcagctggctctgtag	10	12	3	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr3:190936711G>C	uc011bsn.1	+	2	278	c.278G>C	c.(277-279)AGA>ACA	p.R93T		NM_198184	NP_937827	P61366	OSTN_HUMAN	osteocrin precursor	93					cell differentiation|multicellular organismal development|ossification		hormone activity			pancreas(1)|skin(1)	2	all_cancers(143;6.79e-09)|Ovarian(172;0.103)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000254)		CCCCTTGACAGACTCTCAGCT	0.373													60	452	---	---	---	---	PASS	C	190936711	C	C	190936711	3	2	14	1	0	0	0	0	1	0	0	0	11299	942	33	2	284	2	OSTN	3	190936711	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	6861540	190936711	7085719	80	7879										
POLN	353497	broad.mit.edu	37	chr4	2074721	2074721	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctgcagctccaatgcctgcaCctgttccaaggactccatgg	9	15	0	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:2074721C>G	uc003ger.2	-	23	2491	c.2491G>C	c.(2491-2493)GTG>CTG	p.V831L	POLN_uc010icg.1_Splice_Site_p.Q278_splice	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	831					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			AATGCCTGCACCTGTTCCAAG	0.632								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					29	110	---	---	---	---	PASS	G	2074721	G	G	2074721	3	3	14	1	0	0	0	0	1	0	0	0	12207	507	18	4	219	4	POLN	4	2074721	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08		2074721	189079555	81	7880										
BOD1L	259282	broad.mit.edu	37	chr4	13603626	13603626	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cttcgattttaactgcatgcAcagccagtaggtctgctgct	9	11	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:13603626A>G	uc003gmz.1	-	10	5015	c.4898T>C	c.(4897-4899)GTG>GCG	p.V1633A	BOD1L_uc010idr.1_Missense_Mutation_p.V970A	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1633							DNA binding			ovary(5)|breast(1)	6						AACTGCATGCACAGCCAGTAG	0.468													55	196	---	---	---	---	PASS	G	13603626	G	G	13603626	3	3	14	1	0	0	0	0	1	0	0	0	1483	159	6	5	4325	5	BOD1L	4	13603626	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	11528905	13603626	177550650	82	7881										
LDB2	9079	broad.mit.edu	37	chr4	16597384	16597384	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tacactggtcgcagtccaccGtgatggatgagttgtggtat	13	8	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:16597384G>T	uc003goz.2	-	3	666	c.350C>A	c.(349-351)ACG>AAG	p.T117K	LDB2_uc003gpa.2_Missense_Mutation_p.T117K|LDB2_uc003gpb.2_Missense_Mutation_p.T117K|LDB2_uc011bxh.1_Missense_Mutation_p.T117K|LDB2_uc010iee.2_Missense_Mutation_p.T117K|LDB2_uc003goy.2_5'UTR|LDB2_uc011bxi.1_5'UTR	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	117							LIM domain binding|transcription cofactor activity				0						GCAGTCCACCGTGATGGATGA	0.517													74	88	---	---	---	---	PASS	T	16597384	T	T	16597384	3	4	14	1	0	0	0	0	1	0	0	0	8696	1145	40	1	904	1	LDB2	4	16597384	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	2993758	16597384	174556892	83	7882										
PCDH7	5099	broad.mit.edu	37	chr4	31144317	31144317	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgaccgcaacagaaacctccTgaacaaaaagttgacctcat	6	12	1	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:31144317T>A	uc011bxx.1	+	3	4598	c.3590T>A	c.(3589-3591)CTG>CAG	p.L1197Q	PCDH7_uc011bxw.1_Missense_Mutation_p.L1150Q	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	Error:Variant_position_missing_in_O60245_after_alignment					homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						AGAAACCTCCTGAACAAAAAG	0.493													68	157	---	---	---	---	PASS	A	31144317	A	A	31144317	3	1	14	1	0	0	0	0	1	0	0	0	11516	1580	55	5	3709	5	PCDH7	4	31144317	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	14546933	31144317	160009959	84	7883										
TBC1D1	23216	broad.mit.edu	37	chr4	38022223	38022223	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctttggcagggcatcagacaCgtggaccactttgggtttat	12	9	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:38022223C>T	uc003gtb.2	+	5	1327	c.984C>T	c.(982-984)CAC>CAT	p.H328H	TBC1D1_uc011byd.1_Silent_p.H328H|TBC1D1_uc010ifd.2_Intron|TBC1D1_uc011byf.1_Silent_p.H199H	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	328	PID.					nucleus	Rab GTPase activator activity			ovary(1)	1						GCATCAGACACGTGGACCACT	0.483													162	345	---	---	---	---	PASS	T	38022223	T	T	38022223	2	4	14	1	0	0	0	0	0	0	0	1	15594	535	19	1		1	TBC1D1	4	38022223	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	6877906	38022223	153132053	85	7884										
GABRG1	2565	broad.mit.edu	37	chr4	46043132	46043132	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttccttccctccaagatcctGttctgcagtcttcaaagcaa	5	14	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:46043132G>T	uc003gxb.2	-	9	1423	c.1271C>A	c.(1270-1272)ACA>AAA	p.T424K		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	424	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		CCAAGATCCTGTTCTGCAGTC	0.413													48	94	---	---	---	---	PASS	T	46043132	T	T	46043132	3	4	14	1	0	0	0	0	1	0	0	0	6171	1377	48	3	130	3	GABRG1	4	46043132	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	8020909	46043132	145111144	86	7885										
FRYL	285527	broad.mit.edu	37	chr4	48572902	48572902	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tattcgtaccagttgtactcGtaaaatgtctcgacgcctgc	8	11	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:48572902G>A	uc003gyh.1	-	27	3543	c.2938C>T	c.(2938-2940)CGA>TGA	p.R980*	FRYL_uc003gyk.2_Nonsense_Mutation_p.R980*	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	980					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						AGTTGTACTCGTAAAATGTCT	0.388													36	120	---	---	---	---	PASS	A	48572902	A	A	48572902	4	1	14	1	0	0	0	0	0	1	0	0	6064	1153	40	1	6255	1	FRYL	4	48572902	Nonsense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	2529770	48572902	142581374	87	7886										
UGT2A3	79799	broad.mit.edu	37	chr4	69795618	69795618	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aacaagaatatagcagttgcCacacaggccagcaggaaccc	9	12	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:69795618C>G	uc003hef.2	-	6	1528	c.1497G>C	c.(1495-1497)GTG>GTC	p.V499V	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	499	Helical; (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						TAGCAGTTGCCACACAGGCCA	0.413													33	96	---	---	---	---	PASS	G	69795618	G	G	69795618	2	3	14	1	0	0	0	0	0	0	0	1	16952	581	21	4		4	UGT2A3	4	69795618	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	21222716	69795618	121358658	88	7887										
ADAMTS3	9508	broad.mit.edu	37	chr4	73184414	73184414	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agggtcatcaaggagacagtCataggaactgtaggaagaaa	13	5	3	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:73184414C>A	uc003hgk.1	-	10	1397	c.1360G>T	c.(1360-1362)GAC>TAC	p.D454Y		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	454	Peptidase M12B.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			AGGAGACAGTCATAGGAACTG	0.328													27	60	---	---	---	---	PASS	A	73184414	A	A	73184414	3	1	14	1	0	0	0	0	1	0	0	0	267	826	29	2	2309	2	ADAMTS3	4	73184414	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	3388796	73184414	117969862	89	7888										
AFP	174	broad.mit.edu	37	chr4	74316386	74316386	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctgacctcgtcggagctgatGgccatcaccagaaaaatggc	11	12	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:74316386G>A	uc003hgz.1	+	11	1391	c.1344G>A	c.(1342-1344)ATG>ATA	p.M448I	AFP_uc003hha.1_Missense_Mutation_p.M448I|AFP_uc011cbg.1_Missense_Mutation_p.M222I	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	448	Albumin 3.				transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CGGAGCTGATGGCCATCACCA	0.512									Alpha-Fetoprotein_Hereditary_Persistence_of				31	67	---	---	---	---	PASS	A	74316386	A	A	74316386	3	1	14	1	0	0	0	0	1	0	0	0	363	1348	47	3	1386	3	AFP	4	74316386	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	1131972	74316386	116837890	90	7889										
CXCL2	2920	broad.mit.edu	37	chr4	74964371	74964371	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atgggcgatgcggggttgagAcaagctttctgcccattctt	13	9	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:74964371A>G	uc003hhm.3	-	3	415	c.255T>C	c.(253-255)TGT>TGC	p.C85C		NM_002089	NP_002080	P19875	CXCL2_HUMAN	chemokine (C-X-C motif) ligand 2	85					chemotaxis|immune response|inflammatory response|response to molecule of bacterial origin	extracellular space|soluble fraction	chemokine activity				0	Breast(15;0.00612)		all cancers(17;0.00317)|Lung(101;0.196)			CGGGGTTGAGACAAGCTTTCT	0.507													73	153	---	---	---	---	PASS	G	74964371	G	G	74964371	2	3	14	1	0	0	0	0	0	0	0	1	4085	273	10	5		5	CXCL2	4	74964371	Silent	SNP	A	TCGA-18-4083-01A-01D-1352-08	647985	74964371	116189905	91	7890										
GRID2	2895	broad.mit.edu	37	chr4	94031943	94031943	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tggacaaagtctctcagcagGgaatggatgttgcacttcag	12	8	3	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:94031943G>A	uc011cdt.1	+	4	832	c.574G>A	c.(574-576)GGA>AGA	p.G192R	GRID2_uc010ikx.2_Missense_Mutation_p.G192R|GRID2_uc011cdu.1_Missense_Mutation_p.G97R|GRID2_uc011cdv.1_RNA	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	192	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CTCTCAGCAGGGAATGGATGT	0.398													87	155	---	---	---	---	PASS	A	94031943	A	A	94031943	3	1	14	1	0	0	0	0	1	0	0	0	6772	1233	43	3	588	3	GRID2	4	94031943	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	19067572	94031943	97122333	92	7891										
GRID2	2895	broad.mit.edu	37	chr4	94159546	94159546	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gagttagtgggttgactggaGagctagaatttggagaaaat	15	2	0	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:94159546G>A	uc011cdt.1	+	8	1408	c.1150G>A	c.(1150-1152)GAG>AAG	p.E384K	GRID2_uc011cdu.1_Missense_Mutation_p.E289K|GRID2_uc010ikz.1_Missense_Mutation_p.E65K	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	384	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	GTTGACTGGAGAGCTAGAATT	0.373													41	69	---	---	---	---	PASS	A	94159546	A	A	94159546	3	1	14	1	0	0	0	0	1	0	0	0	6772	943	33	2	1180	2	GRID2	4	94159546	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	127603	94159546	96994730	93	7892										
NDST4	64579	broad.mit.edu	37	chr4	115891646	115891646	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gatgactcgttgtggaagagGtggggctgcatgtggctcca	17	7	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:115891646G>T	uc003ibu.2	-	4	1840	c.1161C>A	c.(1159-1161)CAC>CAA	p.H387Q	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	387	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TGTGGAAGAGGTGGGGCTGCA	0.433													23	61	---	---	---	---	PASS	T	115891646	T	T	115891646	3	4	14	1	0	0	0	0	1	0	0	0	10258	1252	44	3	1501	3	NDST4	4	115891646	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	21732100	115891646	75262630	94	7893										
C4orf31	79625	broad.mit.edu	37	chr4	121966948	121966948	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aacttctgggtccttgagctGagtggaaacaggagccacag	13	9	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:121966948G>A	uc003idq.1	-	2	572	c.45C>T	c.(43-45)CTC>CTT	p.L15L		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	15											0						TCCTTGAGCTGAGTGGAAACA	0.498													20	54	---	---	---	---	PASS	A	121966948	A	A	121966948	2	1	14	1	0	0	0	0	0	0	0	1	2261	1277	45	2		2	C4orf31	4	121966948	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	6075302	121966948	69187328	95	7894										
PRMT10	90826	broad.mit.edu	37	chr4	148559801	148559801	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctgcagcttgtttccagtggGaggcttcacttgaagtatcc	11	10	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:148559801G>C	uc003ilc.2	-	12	2562	c.2420C>G	c.(2419-2421)TCC>TGC	p.S807C	PRMT10_uc003ilb.2_Missense_Mutation_p.S451C|PRMT10_uc003ild.2_Missense_Mutation_p.S694C	NM_138364	NP_612373	Q6P2P2	ANM10_HUMAN	protein arginine methyltransferase 10	807						cytoplasm	binding|protein methyltransferase activity			ovary(1)|central_nervous_system(1)	2						TTTCCAGTGGGAGGCTTCACT	0.408													54	110	---	---	---	---	PASS	C	148559801	C	C	148559801	3	2	14	1	0	0	0	0	1	0	0	0	12536	1174	41	2	121	2	PRMT10	4	148559801	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	26592853	148559801	42594475	96	7895										
FBXW7	55294	broad.mit.edu	37	chr4	153247289	153247289	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gccatcatattgaacacagcGgactgctgcaacatgaccca	8	13	1	2	rs149680468		TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:153247289G>C	uc003ims.2	-	10	1662	c.1513C>G	c.(1513-1515)CGC>GGC	p.R505G	FBXW7_uc011cii.1_Missense_Mutation_p.R505G|FBXW7_uc003imt.2_Missense_Mutation_p.R505G|FBXW7_uc011cih.1_Missense_Mutation_p.R329G|FBXW7_uc003imq.2_Missense_Mutation_p.R425G|FBXW7_uc003imr.2_Missense_Mutation_p.R387G	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	505	WD 4.		R -> L (in an ovarian cancer cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R505C(36)|p.R505L(6)|p.R505G(4)|p.R425C(2)|p.R425G(2)|p.R266G(2)|p.R505H(2)|p.R505S(1)|p.R505P(1)|p.R266C(1)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TGAACACAGCGGACTGCTGCA	0.468			Mis|N|D|F		colorectal|endometrial|T-ALL								86	180	---	---	---	---	PASS	C	153247289	C	C	153247289	3	2	14	1	0	0	0	0	1	0	0	0	5769	1116	39	4	622	4	FBXW7	4	153247289	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	4687488	153247289	37906987	97	7896										
DCHS2	54798	broad.mit.edu	37	chr4	155219786	155219786	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggtaaaattgctgatttgctCccggtccaaagcacgagtgg	12	9	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:155219786C>A	uc003inw.2	-	18	4315	c.4315G>T	c.(4315-4317)GAG>TAG	p.E1439*		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1439	Cadherin 12.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CTGATTTGCTCCCGGTCCAAA	0.413													53	109	---	---	---	---	PASS	A	155219786	A	A	155219786	4	1	14	1	0	0	0	0	0	1	0	0	4288	864	30	2	4467	2	DCHS2	4	155219786	Nonsense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1972497	155219786	35934490	98	7897										
DCHS2	54798	broad.mit.edu	37	chr4	155312370	155312370	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acacctcatatacacaggcaTcagtactttcaaactgctga	5	12	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:155312370T>C	uc003inw.2	-	1	80	c.80A>G	c.(79-81)GAT>GGT	p.D27G	DCHS2_uc003inx.2_Intron	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	27					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TACACAGGCATCAGTACTTTC	0.189													19	55	---	---	---	---	PASS	C	155312370	C	C	155312370	3	2	14	1	0	0	0	0	1	0	0	0	4288	1435	50	5	8866	5	DCHS2	4	155312370	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	92584	155312370	35841906	99	7898										
SAP30	8819	broad.mit.edu	37	chr4	174292541	174292541	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ccgggcaactgtgctgcctgCgggaggatggtgagcggtgc	19	10	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:174292541C>A	uc003itd.2	+	1	449	c.208C>A	c.(208-210)CGG>AGG	p.R70R		NM_003864	NP_003855	O75446	SAP30_HUMAN	Sin3A-associated protein, 30kDa	70	Interaction with NCOR1 (By similarity).|Atypical.				transcription, DNA-dependent	histone deacetylase complex	DNA binding|metal ion binding|protein binding|transcription corepressor activity			ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0837)|all_hematologic(60;0.107)		all cancers(43;1.15e-17)|Epithelial(43;4.33e-16)|OV - Ovarian serous cystadenocarcinoma(60;6.62e-09)|STAD - Stomach adenocarcinoma(60;0.00278)|GBM - Glioblastoma multiforme(59;0.00659)|LUSC - Lung squamous cell carcinoma(193;0.0919)		GTGCTGCCTGCGGGAGGATGG	0.438													17	36	---	---	---	---	PASS	A	174292541	A	A	174292541	2	1	14	1	0	0	0	0	0	0	0	1	13833	759	27	1		1	SAP30	4	174292541	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	18980171	174292541	16861735	100	7899										
AGA	175	broad.mit.edu	37	chr4	178355561	178355561	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	caggaagcgcatcaatatatCaccattcccagtggctgcgg	10	12	2	0	rs140337260		TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:178355561C>T	uc003iuu.1	-	7	843	c.781G>A	c.(781-783)GAT>AAT	p.D261N	AGA_uc010irt.1_RNA|AGA_uc003iuv.1_3'UTR	NM_000027	NP_000018	P20933	ASPG_HUMAN	aspartylglucosaminidase precursor	261					asparagine catabolic process via L-aspartate|protein deglycosylation|protein maturation	endoplasmic reticulum|intermediate filament cytoskeleton|lysosome|microtubule cytoskeleton	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0		all_lung(41;1.27e-09)|Lung NSC(41;1.1e-08)|Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Hepatocellular(41;0.148)|all_neural(102;0.164)|Colorectal(36;0.245)		all cancers(43;1.37e-22)|Epithelial(43;3.86e-20)|OV - Ovarian serous cystadenocarcinoma(60;3.8e-11)|Colorectal(24;6.98e-05)|GBM - Glioblastoma multiforme(59;0.000362)|COAD - Colon adenocarcinoma(29;0.000462)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0328)|READ - Rectum adenocarcinoma(43;0.163)		ATCAATATATCACCATTCCCA	0.428													58	119	---	---	---	---	PASS	T	178355561	T	T	178355561	3	4	14	1	0	0	0	0	1	0	0	0	365	826	29	2	271	2	AGA	4	178355561	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	4063020	178355561	12798715	101	7900										
FAT1	2195	broad.mit.edu	37	chr4	187539606	187539606	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aataggcacgtcctctgacaCtgtaaaggtatagaaaggtt	10	7	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:187539606C>G	uc003izf.2	-	10	8322	c.8134G>C	c.(8134-8136)GTG>CTG	p.V2712L		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2712	Extracellular (Potential).|Cadherin 25.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TCCTCTGACACTGTAAAGGTA	0.423										HNSCC(5;0.00058)			64	182	---	---	---	---	PASS	G	187539606	G	G	187539606	3	3	14	1	0	0	0	0	1	0	0	0	5689	565	20	4	5704	4	FAT1	4	187539606	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	9184045	187539606	3614670	102	7901										
FAT1	2195	broad.mit.edu	37	chr4	187539651	187539651	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aaattttggaagctgcatttCcggtggaaggattttaacat	10	5	0	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr4:187539651C>A	uc003izf.2	-	10	8277	c.8089G>T	c.(8089-8091)GAA>TAA	p.E2697*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2697	Extracellular (Potential).|Cadherin 24.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AGCTGCATTTCCGGTGGAAGG	0.393										HNSCC(5;0.00058)			59	161	---	---	---	---	PASS	A	187539651	A	A	187539651	4	1	14	1	0	0	0	0	0	1	0	0	5689	864	30	2	5749	2	FAT1	4	187539651	Nonsense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	45	187539651	3614625	103	7902										
ADAMTS16	170690	broad.mit.edu	37	chr5	5182325	5182325	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtgaggtcctggtgacctcaAggacatgggagctggcacat	15	9	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:5182325A>T	uc003jdl.2	+	4	808	c.670A>T	c.(670-672)AGG>TGG	p.R224W	ADAMTS16_uc003jdk.1_Missense_Mutation_p.R224W|ADAMTS16_uc003jdj.1_Missense_Mutation_p.R224W	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	224					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GGTGACCTCAAGGACATGGGA	0.577													47	196	---	---	---	---	PASS	T	5182325	T	T	5182325	3	4	14	1	0	0	0	0	1	0	0	0	261	63	3	5	684	5	ADAMTS16	5	5182325	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08		5182325	175732935	104	7903										
KIAA0947	23379	broad.mit.edu	37	chr5	5462506	5462506	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gttttctgttgaagaaaccaGctgtggagacacagggagat	13	6	1	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:5462506G>A	uc003jdm.3	+	13	3281	c.3059G>A	c.(3058-3060)AGC>AAC	p.S1020N		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1020										ovary(1)|central_nervous_system(1)	2						GAAGAAACCAGCTGTGGAGAC	0.502													50	310	---	---	---	---	PASS	A	5462506	A	A	5462506	3	1	14	1	0	0	0	0	1	0	0	0	8202	971	34	3	3109	3	KIAA0947	5	5462506	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	280181	5462506	175452754	105	7904										
CTNND2	1501	broad.mit.edu	37	chr5	11199587	11199587	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cagctcccggatctccaggtCagtcgtcttgcggagtaacc	11	14	3	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:11199587C>T	uc003jfa.1	-	11	2093	c.1948G>A	c.(1948-1950)GAC>AAC	p.D650N	CTNND2_uc010itt.2_Missense_Mutation_p.D559N|CTNND2_uc011cmy.1_Missense_Mutation_p.D313N|CTNND2_uc011cmz.1_Missense_Mutation_p.D217N|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.D217N	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	650	ARM 4.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						ATCTCCAGGTCAGTCGTCTTG	0.428													262	212	---	---	---	---	PASS	T	11199587	T	T	11199587	3	4	14	1	0	0	0	0	1	0	0	0	4020	826	29	2	1777	2	CTNND2	5	11199587	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	5737081	11199587	169715673	106	7905										
TRIO	7204	broad.mit.edu	37	chr5	14374354	14374354	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttaggcttgcacccttgctcGgaggaatgcagacgtcttcc	11	12	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:14374354G>A	uc003jff.2	+	19	3239	c.3233G>A	c.(3232-3234)CGG>CAG	p.R1078Q	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.R1029Q|TRIO_uc003jfh.1_Missense_Mutation_p.R727Q	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1078					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity	p.R1078G(1)		skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					ACCCTTGCTCGGAGGAATGCA	0.453													29	88	---	---	---	---	PASS	A	14374354	A	A	14374354	3	1	14	1	0	0	0	0	1	0	0	0	16549	1116	39	1	3307	1	TRIO	5	14374354	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	3174767	14374354	166540906	107	7906										
PRDM9	56979	broad.mit.edu	37	chr5	23527437	23527437	+	Missense_Mutation	SNP	C	A	A													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gacacacacaggggagaagcCctatgtctgcagggagtgtg							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:23527437C>A	uc003jgo.2	+	11	2422	c.2240C>A	c.(2239-2241)CCC>CAC	p.P747H		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	747					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						GGGGAGAAGCCCTATGTCTGC	0.587										HNSCC(3;0.000094)			206	210	---	---	---	---	PASS	A	23527437	A	A	23527437	3	1	14	1	0	0	0	0	1	0	0	0	12463	623	22	3	2278	3	PRDM9	5	23527437	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	9153083	23527437	157387823	108	7907	238	2								
PRDM9	56979	broad.mit.edu	37	chr5	23527438	23527438	+	Silent	SNP	C	A	A													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acacacacaggggagaagccCtatgtctgcagggagtgtgg							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:23527438C>A	uc003jgo.2	+	11	2423	c.2241C>A	c.(2239-2241)CCC>CCA	p.P747P		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	747					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						GGGAGAAGCCCTATGTCTGCA	0.582										HNSCC(3;0.000094)			208	211	---	---	---	---	PASS	A	23527438	A	A	23527438	2	1	14	1	0	0	0	0	0	0	0	1	12463	668	24	3		3	PRDM9	5	23527438	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	1	23527438	157387822	109	7908	238	2								
CDH9	1007	broad.mit.edu	37	chr5	26915941	26915941	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttgcagcatgaatgtctcctGtattttcatctataacaaat	5	8	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:26915941G>A	uc003jgs.1	-	3	489	c.320C>T	c.(319-321)ACA>ATA	p.T107I	CDH9_uc010iug.2_Missense_Mutation_p.T107I	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	107	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						AATGTCTCCTGTATTTTCATC	0.398													179	551	---	---	---	---	PASS	A	26915941	A	A	26915941	3	1	14	1	0	0	0	0	1	0	0	0	3117	1377	48	3	2089	3	CDH9	5	26915941	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	3388503	26915941	153999319	110	7909										
HCN1	348980	broad.mit.edu	37	chr5	45462029	45462029	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aactgaagacaaccatcccaGtggcacaggagcagcatcat	9	12	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:45462029G>A	uc003jok.2	-	3	955	c.930C>T	c.(928-930)CAC>CAT	p.H310H		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	310	Helical; Name=Segment S5; (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						AACCATCCCAGTGGCACAGGA	0.408													92	80	---	---	---	---	PASS	A	45462029	A	A	45462029	2	1	14	1	0	0	0	0	0	0	0	1	6996	1020	36	3		3	HCN1	5	45462029	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	18546088	45462029	135453231	111	7910										
POLK	51426	broad.mit.edu	37	chr5	74893773	74893773	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttctaggccaggattgatgaCaaagtactcaacatcaaaga	8	8	3	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:74893773C>A	uc003kdw.2	+	15	2639	c.2543C>A	c.(2542-2544)ACA>AAA	p.T848K	POLK_uc003kdx.2_RNA|POLK_uc003kdy.2_RNA|POLK_uc010izq.2_Missense_Mutation_p.T650K|POLK_uc003kec.2_Missense_Mutation_p.T758K|POLK_uc010izr.2_RNA|POLK_uc010izs.2_RNA|POLK_uc003ked.2_3'UTR|POLK_uc003kee.2_3'UTR|POLK_uc003kef.2_Missense_Mutation_p.T758K	NM_016218	NP_057302	Q9UBT6	POLK_HUMAN	DNA-directed DNA polymerase kappa	848					DNA replication|nucleotide-excision repair, DNA gap filling	nucleus	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|kidney(2)	4		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;2.9e-54)|all cancers(79;1.27e-42)		GGATTGATGACAAAGTACTCA	0.229								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					18	14	---	---	---	---	PASS	A	74893773	A	A	74893773	3	1	14	1	0	0	0	0	1	0	0	0	12204	478	17	3	2597	3	POLK	5	74893773	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	29431744	74893773	106021487	112	7911										
MSH3	4437	broad.mit.edu	37	chr5	80169001	80169001	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aactagaggaattgcagcaaGgagttatggattaaatgtgg	13	3	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:80169001G>A	uc003kgz.2	+	23	3450	c.3197G>A	c.(3196-3198)AGG>AAG	p.R1066K		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	1066					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		ATTGCAGCAAGGAGTTATGGA	0.398								MMR					150	74	---	---	---	---	PASS	A	80169001	A	A	80169001	3	1	14	1	0	0	0	0	1	0	0	0	9871	1000	35	3	3287	3	MSH3	5	80169001	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	5275228	80169001	100746259	113	7912										
GPR98	84059	broad.mit.edu	37	chr5	89979655	89979655	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cgttaacagttttggctagtGatgatccatatgggatattc	10	6	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:89979655G>T	uc003kju.2	+	28	6013	c.5917G>T	c.(5917-5919)GAT>TAT	p.D1973Y	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1973	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TTTGGCTAGTGATGATCCATA	0.403													28	13	---	---	---	---	PASS	T	89979655	T	T	89979655	3	4	14	1	0	0	0	0	1	0	0	0	6721	1290	45	2	6027	2	GPR98	5	89979655	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	9810654	89979655	90935605	114	7913										
WDR36	134430	broad.mit.edu	37	chr5	110439942	110439942	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	actctgggatctagaagacaAaaaattaatcaaccaaatga	6	7	3	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:110439942A>G	uc003kpd.2	+	8	1082	c.965A>G	c.(964-966)AAA>AGA	p.K322R	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	322	WD 3.				response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		CTAGAAGACAAAAAATTAATC	0.393													102	54	---	---	---	---	PASS	G	110439942	G	G	110439942	3	3	14	1	0	0	0	0	1	0	0	0	17287	14	1	5	995	5	WDR36	5	110439942	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	20460287	110439942	70475318	115	7914										
FBN2	2201	broad.mit.edu	37	chr5	127681067	127681067	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acctttgtaaaatggccgccCagtaagaacatcccctcggt	8	13	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:127681067C>G	uc003kuu.2	-	24	3638	c.3199G>C	c.(3199-3201)GGG>CGG	p.G1067R	FBN2_uc003kuv.2_Missense_Mutation_p.G1034R	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1067					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)		AATGGCCGCCCAGTAAGAACA	0.562													84	63	---	---	---	---	PASS	G	127681067	G	G	127681067	3	3	14	1	0	0	0	0	1	0	0	0	5703	594	21	4	5707	4	FBN2	5	127681067	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	17241125	127681067	53234193	116	7915										
ADAMTS19	171019	broad.mit.edu	37	chr5	128864307	128864307	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	caaaaagaatgatatacattTagagatgtcaacaaactggg	8	5	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:128864307T>A	uc003kvb.1	+	6	1247	c.1247T>A	c.(1246-1248)TTA>TAA	p.L416*	ADAMTS19_uc003kvc.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	416	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		GATATACATTTAGAGATGTCA	0.358													66	115	---	---	---	---	PASS	A	128864307	A	A	128864307	4	1	14	1	0	0	0	0	0	1	0	0	264	1764	61	5	1269	5	ADAMTS19	5	128864307	Nonsense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	1183240	128864307	52050953	117	7916										
KIF20A	10112	broad.mit.edu	37	chr5	137522040	137522040	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtgagtctctccaatcagcaGagagagcttgttgccacagc	11	11	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:137522040G>C	uc003lcj.2	+	18	2771	c.2275G>C	c.(2275-2277)GAG>CAG	p.E759Q	KIF20A_uc011cyo.1_Missense_Mutation_p.E741Q	NM_005733	NP_005724	O95235	KI20A_HUMAN	kinesin family member 20A	759	Potential.				cytokinesis|M phase of mitotic cell cycle|microtubule-based movement|protein transport|vesicle-mediated transport	Golgi apparatus|microtubule|nucleoplasm	ATP binding|microtubule motor activity|protein binding|transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CCAATCAGCAGAGAGAGCTTG	0.458													77	51	---	---	---	---	PASS	C	137522040	C	C	137522040	3	2	14	1	0	0	0	0	1	0	0	0	8286	943	33	2	2341	2	KIF20A	5	137522040	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	8657733	137522040	43393220	118	7917										
PCDHB3	56132	broad.mit.edu	37	chr5	140481562	140481562	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ataaccgtgctggtctccgaCgtcaatgacaacgcccccgc	9	16	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:140481562C>A	uc003lio.2	+	1	1329	c.1329C>A	c.(1327-1329)GAC>GAA	p.D443E	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	443	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGTCTCCGACGTCAATGACA	0.562													116	84	---	---	---	---	PASS	A	140481562	A	A	140481562	3	1	14	1	0	0	0	0	1	0	0	0	11543	535	19	1	1331	1	PCDHB3	5	140481562	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	2959522	140481562	40433698	119	7918										
PCDHGA8	9708	broad.mit.edu	37	chr5	140774623	140774623	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gggtgttgaggaggtacaggCtttcctgcagacctattccc	13	10	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:140774623C>G	uc003lkd.1	+	1	3141	c.2243C>G	c.(2242-2244)GCT>GGT	p.A748G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.A748G	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	748	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGGTACAGGCTTTCCTGCAG	0.582													66	31	---	---	---	---	PASS	G	140774623	G	G	140774623	3	3	14	1	0	0	0	0	1	0	0	0	11560	797	28	4	2245	4	PCDHGA8	5	140774623	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	293061	140774623	40140637	120	7919										
ARAP3	64411	broad.mit.edu	37	chr5	141033816	141033816	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cttggagagaaagggttgatCcaatgacttctggctggtga	14	6	1	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:141033816C>A	uc003llm.2	-	33	4414	c.4336G>T	c.(4336-4338)GAT>TAT	p.D1446Y	ARAP3_uc003lll.2_Missense_Mutation_p.D397Y|ARAP3_uc011dbe.1_Missense_Mutation_p.D1095Y|ARAP3_uc003lln.2_Missense_Mutation_p.D1277Y	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1446					cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						AAGGGTTGATCCAATGACTTC	0.607													116	64	---	---	---	---	PASS	A	141033816	A	A	141033816	3	1	14	1	0	0	0	0	1	0	0	0	840	855	30	2	302	2	ARAP3	5	141033816	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	259193	141033816	39881444	121	7920										
SPINK5	11005	broad.mit.edu	37	chr5	147491427	147491427	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtctagatgggaaaatccacGgcaacacctgctccatgtgt	10	11	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:147491427G>T	uc003lox.2	+	19	1862	c.1789G>T	c.(1789-1791)GGC>TGC	p.G597C	SPINK5_uc010jgs.1_Missense_Mutation_p.G569C|SPINK5_uc010jgr.2_Missense_Mutation_p.G578C|SPINK5_uc003low.2_Missense_Mutation_p.G597C|SPINK5_uc003loy.2_Missense_Mutation_p.G597C	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	597	Kazal-like 9.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAAAATCCACGGCAACACCTG	0.537													105	37	---	---	---	---	PASS	T	147491427	T	T	147491427	3	4	14	1	0	0	0	0	1	0	0	0	15061	1116	39	1	1863	1	SPINK5	5	147491427	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	6457611	147491427	33423833	122	7921										
AFAP1L1	134265	broad.mit.edu	37	chr5	148709278	148709278	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cgagccgaggaggatgcccgGaggtacttggtagaaaaaga	16	7	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:148709278G>C	uc003lqh.2	+	16	1991	c.1860G>C	c.(1858-1860)CGG>CGC	p.R620R	AFAP1L1_uc010jgy.2_Silent_p.R620R|AFAP1L1_uc003lqi.1_Silent_p.R235R	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	620	Potential.						protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGATGCCCGGAGGTACTTGG	0.473													7	30	---	---	---	---	PASS	C	148709278	C	C	148709278	2	2	14	1	0	0	0	0	0	0	0	1	354	1161	41	2		2	AFAP1L1	5	148709278	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	1217851	148709278	32205982	123	7922										
ATP10B	23120	broad.mit.edu	37	chr5	160071204	160071204	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgatggtgcagcctcgaagcAgaagactctcacagccaaag	11	11	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:160071204A>T	uc003lym.1	-	9	1656	c.809T>A	c.(808-810)CTG>CAG	p.L270Q	ATP10B_uc003lyp.2_Missense_Mutation_p.L270Q|ATP10B_uc011deg.1_Missense_Mutation_p.L314Q|ATP10B_uc003lyo.2_Missense_Mutation_p.L242Q	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	270	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCCTCGAAGCAGAAGACTCTC	0.493													71	41	---	---	---	---	PASS	T	160071204	T	T	160071204	3	4	14	1	0	0	0	0	1	0	0	0	1117	188	7	5	3648	5	ATP10B	5	160071204	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	11361926	160071204	20844056	124	7923										
GABRA1	2554	broad.mit.edu	37	chr5	161324136	161324136	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gccaaagaaagtaaaggatcCtcttattaagaaaaacaaca	6	7	1	2	rs80337021	by1000genomes	TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:161324136C>G	uc010jiw.2	+	11	1547	c.1079C>G	c.(1078-1080)CCT>CGT	p.P360R	GABRA1_uc010jix.2_Missense_Mutation_p.P360R|GABRA1_uc010jiy.2_Missense_Mutation_p.P360R|GABRA1_uc003lyx.3_Missense_Mutation_p.P360R|GABRA1_uc010jiz.2_Missense_Mutation_p.P360R|GABRA1_uc010jja.2_Missense_Mutation_p.P360R|GABRA1_uc010jjb.2_Missense_Mutation_p.P360R	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	360	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|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			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	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;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	GTAAAGGATCCTCTTATTAAG	0.433													135	81	---	---	---	---	PASS	G	161324136	G	G	161324136	3	3	14	1	0	0	0	0	1	0	0	0	6160	681	24	4	1113	4	GABRA1	5	161324136	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1252932	161324136	19591124	125	7924										
DOCK2	1794	broad.mit.edu	37	chr5	169423111	169423111	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtcttcctgagagctatcaaCaagtttgcagaaaccatgaa	8	9	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:169423111C>T	uc003maf.2	+	30	3095	c.3015C>T	c.(3013-3015)AAC>AAT	p.N1005N	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.N497N	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1005	Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAGCTATCAACAAGTTTGCAG	0.478													23	61	---	---	---	---	PASS	T	169423111	T	T	169423111	2	4	14	1	0	0	0	0	0	0	0	1	4687	477	17	3		3	DOCK2	5	169423111	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	8098975	169423111	11492149	126	7925										
HRH2	3274	broad.mit.edu	37	chr5	175110705	175110705	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cctttctgtctatccacctgGggtggaacagcaggaacgag	12	11	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr5:175110705G>T	uc003mdd.2	+	1	2242	c.469G>T	c.(469-471)GGG>TGG	p.G157W	HRH2_uc003mdc.3_Missense_Mutation_p.G157W	NM_022304	NP_071640	P25021	HRH2_HUMAN	histamine receptor H2 isoform 2	157	Helical; Name=4; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|immune response	integral to plasma membrane	histamine receptor activity			ovary(1)	1	all_cancers(89;0.00805)|Renal(175;0.000269)|Lung NSC(126;0.00419)|all_lung(126;0.00711)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Colorectal(1;0.0154)|COAD - Colon adenocarcinoma(1;0.149)	Betazole(DB00272)|Cimetidine(DB00501)|Doxepin(DB01142)|Epinastine(DB00751)|Famotidine(DB00927)|Histamine Phosphate(DB00667)|Nizatidine(DB00585)|Ranitidine(DB00863)	TATCCACCTGGGGTGGAACAG	0.547													31	72	---	---	---	---	PASS	T	175110705	T	T	175110705	3	4	14	1	0	0	0	0	1	0	0	0	7356	1232	43	3	471	3	HRH2	5	175110705	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	5687594	175110705	5804555	127	7926										
DSP	1832	broad.mit.edu	37	chr6	7572250	7572250	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	actctcaaaaacctccctctAgcagaccagggatcttctca	5	15	4	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr6:7572250A>T	uc003mxp.1	+	15	2358	c.2079A>T	c.(2077-2079)CTA>CTT	p.L693L	DSP_uc003mxq.1_Silent_p.L693L	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	693	Globular 1.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		ACCTCCCTCTAGCAGACCAGG	0.438													22	58	---	---	---	---	PASS	T	7572250	T	T	7572250	2	4	14	1	0	0	0	0	0	0	0	1	4781	407	15	5		5	DSP	6	7572250	Silent	SNP	A	TCGA-18-4083-01A-01D-1352-08		7572250	163542817	128	7927										
C6orf105	84830	broad.mit.edu	37	chr6	11768579	11768579	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tggttcttttcagcacatcaTccaggcaggtgaccccgtag	10	12	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr6:11768579T>C	uc003nab.2	-	2	479	c.191A>G	c.(190-192)GAT>GGT	p.D64G	C6orf105_uc011dip.1_Missense_Mutation_p.D82G	NM_032744	NP_116133	Q96IZ2	CF105_HUMAN	hypothetical protein LOC84830 isoform 2	64	Helical; (Potential).					integral to membrane					0	Ovarian(93;0.0848)|Breast(50;0.0871)	all_hematologic(90;0.135)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.193)			CAGCACATCATCCAGGCAGGT	0.418													87	184	---	---	---	---	PASS	C	11768579	C	C	11768579	3	2	14	1	0	0	0	0	1	0	0	0	2318	1435	50	5	521	5	C6orf105	6	11768579	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	4196329	11768579	159346488	129	7928										
OR2B3	442184	broad.mit.edu	37	chr6	29054114	29054114	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cagaaaaagattcttggcatCagcctcttgaaggcctcctt	8	11	3	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr6:29054114C>A	uc003nlx.2	-	1	977	c.912G>T	c.(910-912)CTG>CTT	p.L304L		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						TTCTTGGCATCAGCCTCTTGA	0.378													51	48	---	---	---	---	PASS	A	29054114	A	A	29054114	2	1	14	1	0	0	0	0	0	0	0	1	10990	813	29	2		2	OR2B3	6	29054114	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	17285535	29054114	142060953	130	7929										
MUC21	394263	broad.mit.edu	37	chr6	30954401	30954401	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctccagtggggctagcacagCcaccaactctgactccagca	9	16	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr6:30954401C>A	uc003nsh.2	+	2	700	c.449C>A	c.(448-450)GCC>GAC	p.A150D	MUC21_uc003nsi.1_RNA	NM_001010909	NP_001010909	Q5SSG8	MUC21_HUMAN	mucin 21 precursor	150	Ser-rich.|28 X 15 AA approximate tandem repeats.|9.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(1)|skin(1)	2						GCTAGCACAGCCACCAACTCT	0.617													103	215	---	---	---	---	PASS	A	30954401	A	A	30954401	3	1	14	1	0	0	0	0	1	0	0	0	9977	739	26	3	455	3	MUC21	6	30954401	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1900287	30954401	140160666	131	7930										
CDKN1A	1026	broad.mit.edu	37	chr6	36652195	36652195	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgctctgctgcaggggacagCagaggaagaccatgtggacc	15	10	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr6:36652195C>T	uc003omm.3	+	2	439	c.317C>T	c.(316-318)GCA>GTA	p.A106V	CDKN1A_uc011dtq.1_Missense_Mutation_p.A140V|CDKN1A_uc003oml.2_Missense_Mutation_p.A106V|CDKN1A_uc003omn.2_Missense_Mutation_p.A106V	NM_000389	NP_000380	P38936	CDN1A_HUMAN	cyclin-dependent kinase inhibitor 1A	106					cell cycle arrest|cellular response to extracellular stimulus|cellular response to ionizing radiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|induction of apoptosis by intracellular signals|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of fibroblast proliferation|positive regulation of reactive oxygen species metabolic process|Ras protein signal transduction|S phase of mitotic cell cycle|stress-induced premature senescence	cyclin-dependent protein kinase holoenzyme complex|cytosol|nucleoplasm|PCNA-p21 complex	cyclin-dependent protein kinase activating kinase activity|cyclin-dependent protein kinase inhibitor activity|metal ion binding			ovary(1)|breast(1)	2						CAGGGGACAGCAGAGGAAGAC	0.657									Multiple_Endocrine_Neoplasia_type_1				17	33	---	---	---	---	PASS	T	36652195	T	T	36652195	3	4	14	1	0	0	0	0	1	0	0	0	3158	710	25	3	319	3	CDKN1A	6	36652195	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	5697794	36652195	134462872	132	7931										
CUL9	23113	broad.mit.edu	37	chr6	43189039	43189039	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agctgtcaggctcccatcgaGaagaacgaggggtgcctgca	14	11	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr6:43189039G>A	uc003ouk.2	+	34	6807	c.6732G>A	c.(6730-6732)GAG>GAA	p.E2244E	CUL9_uc003oul.2_Silent_p.E2216E|CUL9_uc010jyk.2_Silent_p.E1396E|CUL9_uc003oun.2_Silent_p.E39E	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	2244	RING-type 2.				ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						CTCCCATCGAGAAGAACGAGG	0.637													24	56	---	---	---	---	PASS	A	43189039	A	A	43189039	2	1	14	1	0	0	0	0	0	0	0	1	4061	933	33	2		2	CUL9	6	43189039	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	6536844	43189039	127926028	133	7932										
GPR116	221395	broad.mit.edu	37	chr6	46832859	46832859	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agtgacaacacacatcaacaGtttttgaacaccaggaaact	6	10	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr6:46832859G>C	uc003oyo.3	-	14	2199	c.1910C>G	c.(1909-1911)ACT>AGT	p.T637S	GPR116_uc011dwj.1_Missense_Mutation_p.T192S|GPR116_uc011dwk.1_Missense_Mutation_p.T66S|GPR116_uc003oyp.3_Missense_Mutation_p.T495S|GPR116_uc003oyq.3_Missense_Mutation_p.T637S|GPR116_uc010jzi.1_Missense_Mutation_p.T309S	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	637	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			CACATCAACAGTTTTTGAACA	0.358													135	58	---	---	---	---	PASS	C	46832859	C	C	46832859	3	2	14	1	0	0	0	0	1	0	0	0	6633	1029	36	4	2162	4	GPR116	6	46832859	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	3643820	46832859	124282208	134	7933										
LMBRD1	55788	broad.mit.edu	37	chr6	70490434	70490434	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aatctgtctgctgacattagCattagcccagtcctaggata	8	10	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr6:70490434C>A	uc003pfa.2	-	3	374	c.259G>T	c.(259-261)GCT>TCT	p.A87S	LMBRD1_uc003pez.2_Missense_Mutation_p.A14S|LMBRD1_uc010kal.2_Missense_Mutation_p.A14S|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	87	Extracellular (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						CTGACATTAGCATTAGCCCAG	0.333													58	40	---	---	---	---	PASS	A	70490434	A	A	70490434	3	1	14	1	0	0	0	0	1	0	0	0	8842	710	25	3	1419	3	LMBRD1	6	70490434	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	23657575	70490434	100624633	135	7934										
GRIK2	2898	broad.mit.edu	37	chr6	102074484	102074484	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cagtttttcaagtggaaaacCgtcacggttgtgtatgatga	11	6	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr6:102074484C>A	uc003pqp.3	+	3	762	c.513C>A	c.(511-513)ACC>ACA	p.T171T	GRIK2_uc003pqn.2_Silent_p.T171T|GRIK2_uc003pqo.3_Silent_p.T171T|GRIK2_uc010kcw.2_Silent_p.T171T	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	171	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	AGTGGAAAACCGTCACGGTTG	0.408													34	105	---	---	---	---	PASS	A	102074484	A	A	102074484	2	1	14	1	0	0	0	0	0	0	0	1	6774	639	23	1		1	GRIK2	6	102074484	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	31584050	102074484	69040583	136	7935										
REV3L	5980	broad.mit.edu	37	chr6	111694235	111694235	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgaactcctattcaatctagAtttttcacttagacagtctt	4	9	4	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr6:111694235A>G	uc003puy.3	-	13	5646	c.5323T>C	c.(5323-5325)TCT>CCT	p.S1775P	REV3L_uc003pux.3_Missense_Mutation_p.S1697P|REV3L_uc003puz.3_Missense_Mutation_p.S1697P	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1775					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TTCAATCTAGATTTTTCACTT	0.403								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					116	220	---	---	---	---	PASS	G	111694235	G	G	111694235	3	3	14	1	0	0	0	0	1	0	0	0	13240	333	12	5	4149	5	REV3L	6	111694235	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	9619751	111694235	59420832	137	7936										
SYNE1	23345	broad.mit.edu	37	chr6	152652799	152652799	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atttaactcctccaagttggTgactgacacttggattttcc	7	10	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr6:152652799T>A	uc010kiw.2	-	78	13623	c.13021A>T	c.(13021-13023)ACC>TCC	p.T4341S	SYNE1_uc003qot.3_Missense_Mutation_p.T4270S|SYNE1_uc003qou.3_Missense_Mutation_p.T4341S|SYNE1_uc010kiz.2_Missense_Mutation_p.T96S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4341	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)		TCCAAGTTGGTGACTGACACT	0.458										HNSCC(10;0.0054)			155	82	---	---	---	---	PASS	A	152652799	A	A	152652799	3	1	14	1	0	0	0	0	1	0	0	0	15442	1696	59	5	13721	5	SYNE1	6	152652799	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	40958564	152652799	18462268	138	7937										
SYNE1	23345	broad.mit.edu	37	chr6	152730772	152730772	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acactgctggcattttctaaGactttagatacagctgattt	7	8	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr6:152730772G>A	uc010kiw.2	-	43	6905	c.6303C>T	c.(6301-6303)GTC>GTT	p.V2101V	SYNE1_uc003qot.3_Silent_p.V2108V|SYNE1_uc003qou.3_Silent_p.V2101V|SYNE1_uc010kjb.1_Silent_p.V2084V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2101	Cytoplasmic (Potential).|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)		CATTTTCTAAGACTTTAGATA	0.333										HNSCC(10;0.0054)			34	78	---	---	---	---	PASS	A	152730772	A	A	152730772	2	1	14	1	0	0	0	0	0	0	0	1	15442	929	33	2		2	SYNE1	6	152730772	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	77973	152730772	18384295	139	7938										
IQCE	23288	broad.mit.edu	37	chr7	2617966	2617966	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcaggaaggaccggcagataGagcagctcctggatcccagc	14	12	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:2617966G>A	uc003smo.3	+	7	740	c.556G>A	c.(556-558)GAG>AAG	p.E186K	IQCE_uc010ksm.1_Missense_Mutation_p.E186K|IQCE_uc003sml.1_Missense_Mutation_p.E186K|IQCE_uc011jvy.1_Missense_Mutation_p.E170K|IQCE_uc011jvz.1_Missense_Mutation_p.E121K|IQCE_uc003smk.3_Missense_Mutation_p.E170K|IQCE_uc003smn.3_Missense_Mutation_p.E121K	NM_152558	NP_689771	Q6IPM2	IQCE_HUMAN	IQ motif containing E isoform 1	186	Potential.										0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.23e-13)		CCGGCAGATAGAGCAGCTCCT	0.632													107	58	---	---	---	---	PASS	A	2617966	A	A	2617966	3	1	14	1	0	0	0	0	1	0	0	0	7806	943	33	2	582	2	IQCE	7	2617966	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08		2617966	156520697	140	7939										
DGKB	1607	broad.mit.edu	37	chr7	14622694	14622694	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tacctatgcaatccaaaaccCagcccacggttccatctcca	4	17	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:14622694C>A	uc003ssz.2	-	17	1692	c.1505G>T	c.(1504-1506)TGG>TTG	p.W502L	DGKB_uc011jxt.1_Missense_Mutation_p.W483L|DGKB_uc003sta.2_Missense_Mutation_p.W502L|DGKB_uc011jxu.1_Missense_Mutation_p.W501L	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	502	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	ATCCAAAACCCAGCCCACGGT	0.408													45	38	---	---	---	---	PASS	A	14622694	A	A	14622694	3	1	14	1	0	0	0	0	1	0	0	0	4466	595	21	3	960	3	DGKB	7	14622694	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	12004728	14622694	144515969	141	7940										
HOXA11	3207	broad.mit.edu	37	chr7	27224431	27224431	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gggtggtggtagacgttggcCgagctcttggccagcacgtc	17	10	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:27224431C>T	uc003syx.2	-	1	405	c.333G>A	c.(331-333)TCG>TCA	p.S111S	HOXA11_uc003syy.2_RNA|HOXA11AS_uc003syz.1_5'Flank	NM_005523	NP_005514	P31270	HXA11_HUMAN	homeobox A11	111					branching involved in ureteric bud morphogenesis|cartilage development involved in endochondral bone morphogenesis|developmental growth|dorsal/ventral pattern formation|mesodermal cell fate specification|positive regulation of cell development|positive regulation of chondrocyte differentiation	protein-DNA complex|transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)	2						AGACGTTGGCCGAGCTCTTGG	0.657			T	NUP98	CML								128	70	---	---	---	---	PASS	T	27224431	T	T	27224431	2	4	14	1	0	0	0	0	0	0	0	1	7290	639	23	1		1	HOXA11	7	27224431	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	12601737	27224431	131914232	142	7941										
NOD1	10392	broad.mit.edu	37	chr7	30492391	30492391	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtggcccagaggctctgcagCcgctgtagcagcatggactt	14	12	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:30492391C>T	uc003tav.2	-	6	1165	c.642G>A	c.(640-642)CGG>CGA	p.R214R	NOD1_uc010kvs.2_Intron	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	214	NACHT.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						GGCTCTGCAGCCGCTGTAGCA	0.602													58	173	---	---	---	---	PASS	T	30492391	T	T	30492391	2	4	14	1	0	0	0	0	0	0	0	1	10516	726	26	3		3	NOD1	7	30492391	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	3267960	30492391	128646272	143	7942										
TBX20	57057	broad.mit.edu	37	chr7	35289771	35289771	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atgagcatccaggctggtcaGctcacccaggggctgggcac	14	13	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:35289771G>T	uc011kas.1	-	2	183	c.172C>A	c.(172-174)CTG>ATG	p.L58M		NM_001077653	NP_001071121	Q9UMR3	TBX20_HUMAN	T-box transcription factor TBX20	58						nucleus	DNA binding			central_nervous_system(1)	1						AGGCTGGTCAGCTCACCCAGG	0.562													46	40	---	---	---	---	PASS	T	35289771	T	T	35289771	3	4	14	1	0	0	0	0	1	0	0	0	15653	962	34	3	1200	3	TBX20	7	35289771	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	4797380	35289771	123848892	144	7943										
POM121L12	285877	broad.mit.edu	37	chr7	53103841	53103841	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcccctggacagagagcccgCcccgcaggccgccccgccgc	12	22	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:53103841C>T	uc003tpz.2	+	1	493	c.477C>T	c.(475-477)CGC>CGT	p.R159R		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	159											0						AGAGAgcccgccccgcaggcc	0.592													46	26	---	---	---	---	PASS	T	53103841	T	T	53103841	2	4	14	1	0	0	0	0	0	0	0	1	12241	726	26	3		3	POM121L12	7	53103841	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	17814070	53103841	106034822	145	7944										
SEMA3E	9723	broad.mit.edu	37	chr7	83014679	83014679	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcttgtaaagatcgtggggtAcattccagcaaagtactgtt	11	7	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:83014679A>T	uc003uhy.1	-	16	2272	c.1806T>A	c.(1804-1806)TGT>TGA	p.C602*		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	602	Ig-like C2-type.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				ATCGTGGGGTACATTCCAGCA	0.398													388	91	---	---	---	---	PASS	T	83014679	T	T	83014679	4	4	14	1	0	0	0	0	0	1	0	0	14028	389	14	5	529	5	SEMA3E	7	83014679	Nonsense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	29910838	83014679	76123984	146	7945										
ABCB1	5243	broad.mit.edu	37	chr7	87183214	87183214	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgtaatagctttctttatccCaattcttttagcttcttcta	3	9	4	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:87183214C>A	uc003uiz.1	-	10	1280	c.862G>T	c.(862-864)GGG>TGG	p.G288W	ABCB1_uc011khc.1_Missense_Mutation_p.G224W	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	288	ABC transmembrane type-1 1.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	TTCTTTATCCCAATTCTTTTA	0.353													149	59	---	---	---	---	PASS	A	87183214	A	A	87183214	3	1	14	1	0	0	0	0	1	0	0	0	40	594	21	3	3060	3	ABCB1	7	87183214	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	4168535	87183214	71955449	147	7946										
DBF4	10926	broad.mit.edu	37	chr7	87537407	87537407	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atgttttagatatttgggaaGaggaaaattcagataatctg	10	2	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:87537407G>C	uc003ujf.1	+	12	2458	c.1954G>C	c.(1954-1956)GAG>CAG	p.E652Q	DBF4_uc003ujh.1_Missense_Mutation_p.E392Q|DBF4_uc003ujg.1_Missense_Mutation_p.E428Q|DBF4_uc011khf.1_Missense_Mutation_p.E419Q	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	652					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				TATTTGGGAAGAGGAAAATTC	0.333													114	28	---	---	---	---	PASS	C	87537407	C	C	87537407	3	2	14	1	0	0	0	0	1	0	0	0	4248	943	33	2	2000	2	DBF4	7	87537407	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	354193	87537407	71601256	148	7947										
PRKAR2B	5577	broad.mit.edu	37	chr7	106786829	106786829	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atgataatcgtgggagtttcGgcgaactggccttaatgtac	12	7	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:106786829G>T	uc003vdx.2	+	6	839	c.664G>T	c.(664-666)GGC>TGC	p.G222C		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	222	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						TGGGAGTTTCGGCGAACTGGC	0.428													172	45	---	---	---	---	PASS	T	106786829	T	T	106786829	3	4	14	1	0	0	0	0	1	0	0	0	12506	1116	39	1	686	1	PRKAR2B	7	106786829	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	19249422	106786829	52351834	149	7948										
DNAJB9	4189	broad.mit.edu	37	chr7	108213723	108213723	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aaaatagatttcatggatctAgcaagcactgcaggactgtc	9	8	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:108213723A>G	uc003vfn.2	+	3	800	c.598A>G	c.(598-600)AGC>GGC	p.S200G		NM_012328	NP_036460	Q9UBS3	DNJB9_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 9	200					ER-associated protein catabolic process|protein folding	endoplasmic reticulum|nucleolus	heat shock protein binding|misfolded protein binding|unfolded protein binding				0						TCATGGATCTAGCAAGCACTG	0.368													264	76	---	---	---	---	PASS	G	108213723	G	G	108213723	3	3	14	1	0	0	0	0	1	0	0	0	4627	420	15	5	604	5	DNAJB9	7	108213723	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	1426894	108213723	50924940	150	7949										
FEZF1	389549	broad.mit.edu	37	chr7	121942061	121942061	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttagcctcgatcactggtggCcctggtggagcccgggctgc	15	13	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:121942061C>T	uc003vkd.2	-	4	1492	c.1418G>A	c.(1417-1419)GGC>GAC	p.G473D	FEZF1_uc003vkc.2_Missense_Mutation_p.G423D|uc010lko.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	473					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						TCACTGGTGGCCCTGGTGGAG	0.393													78	27	---	---	---	---	PASS	T	121942061	T	T	121942061	3	4	14	1	0	0	0	0	1	0	0	0	5825	739	26	3	13	3	FEZF1	7	121942061	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	13728338	121942061	37196602	151	7950										
SLC13A1	6561	broad.mit.edu	37	chr7	122774573	122774573	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aaagttgaggcaacgacagtCaggatagcgtctgtgtgaaa	13	6	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:122774573C>T	uc003vkm.2	-	8	848	c.823G>A	c.(823-825)GAC>AAC	p.D275N	SLC13A1_uc010lks.2_Missense_Mutation_p.D151N	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	275						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	CAACGACAGTCAGGATAGCGT	0.483													101	34	---	---	---	---	PASS	T	122774573	T	T	122774573	3	4	14	1	0	0	0	0	1	0	0	0	14391	826	29	2	996	2	SLC13A1	7	122774573	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	832512	122774573	36364090	152	7951										
OPN1SW	611	broad.mit.edu	37	chr7	128412600	128412600	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ccaatattgggtcctcagttGgggccaacttgggtagacga	13	9	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:128412600G>C	uc003vnt.3	-	5	1041	c.1041C>G	c.(1039-1041)CCC>CCG	p.P347P		NM_001708	NP_001699	P03999	OPSB_HUMAN	opsin 1 (cone pigments), short-wave-sensitive	347	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0						GTCCTCAGTTGGGGCCAACTT	0.423													130	36	---	---	---	---	PASS	C	128412600	C	C	128412600	2	2	14	1	0	0	0	0	0	0	0	1	10880	1335	47	4		4	OPN1SW	7	128412600	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	5638027	128412600	30726063	153	7952										
AKR1B10	57016	broad.mit.edu	37	chr7	134222968	134222968	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tctgatccgtttccatatccAgaggaatgtgattgtcatcc	8	10	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:134222968A>C	uc003vrr.2	+	8	1084	c.764A>C	c.(763-765)CAG>CCG	p.Q255P		NM_020299	NP_064695	O60218	AK1BA_HUMAN	aldo-keto reductase family 1, member B10	255					cellular aldehyde metabolic process|digestion|steroid metabolic process	cytoplasm	aldo-keto reductase (NADP) activity|protein binding			skin(5)	5						TTCCATATCCAGAGGAATGTG	0.488													337	117	---	---	---	---	PASS	C	134222968	C	C	134222968	3	2	14	1	0	0	0	0	1	0	0	0	467	188	7	5	794	5	AKR1B10	7	134222968	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	5810368	134222968	24915695	154	7953										
KLRG2	346689	broad.mit.edu	37	chr7	139168033	139168033	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cctgcagctccatgggcgccCaggcgctgggcgcaggctca	15	16	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:139168033C>A	uc003vvb.2	-	1	425	c.356G>T	c.(355-357)TGG>TTG	p.W119L	KLRG2_uc010lnc.2_Missense_Mutation_p.W119L	NM_198508	NP_940910	A4D1S0	KLRG2_HUMAN	killer cell lectin-like receptor subfamily G,	119	Pro-rich.					integral to membrane	sugar binding			central_nervous_system(1)	1	Melanoma(164;0.233)					CATGGGCGCCCAGGCGCTGGG	0.746													27	2	---	---	---	---	PASS	A	139168033	A	A	139168033	3	1	14	1	0	0	0	0	1	0	0	0	8422	595	21	3	893	3	KLRG2	7	139168033	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	4945065	139168033	19970630	155	7954										
ZNF775	285971	broad.mit.edu	37	chr7	150095047	150095047	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcccaacctgacgcggcaccGgcgcaaccacacaggcgagc	12	18	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr7:150095047G>T	uc003whf.1	+	3	1603	c.1478G>T	c.(1477-1479)CGG>CTG	p.R493L	LOC728743_uc003whg.2_5'Flank	NM_173680	NP_775951	Q96BV0	ZN775_HUMAN	zinc finger protein 775	493	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.0173)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ACGCGGCACCGGCGCAACCAC	0.721													10	22	---	---	---	---	PASS	T	150095047	T	T	150095047	3	4	14	1	0	0	0	0	1	0	0	0	18145	1116	39	1	1484	1	ZNF775	7	150095047	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	10927014	150095047	9043616	156	7955										
CSMD1	64478	broad.mit.edu	37	chr8	2964070	2964070	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cttcacatgttgggagagaaCcctcaaactgcaactgggaa	10	10	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:2964070C>T	uc011kwk.1	-	46	7322	c.6932G>A	c.(6931-6933)GGT>GAT	p.G2311D	CSMD1_uc011kwj.1_Missense_Mutation_p.G1703D|CSMD1_uc010lrg.2_Missense_Mutation_p.G379D	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2311	Extracellular (Potential).|Sushi 13.					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)		TGGGAGAGAACCCTCAAACTG	0.433													14	42	---	---	---	---	PASS	T	2964070	T	T	2964070	3	4	14	1	0	0	0	0	1	0	0	0	3944	507	18	3	3865	3	CSMD1	8	2964070	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08		2964070	143399952	157	7956										
DOK2	9046	broad.mit.edu	37	chr8	21769789	21769789	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cccagtcgccgcgctccgctGcaggggccgccaggaggtac	15	17	0	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:21769789G>T	uc003wzy.1	-	2	389	c.296C>A	c.(295-297)GCA>GAA	p.A99E	DOK2_uc003wzx.1_Missense_Mutation_p.A99E|DOK2_uc003wzz.1_5'UTR|DOK2_uc010lth.1_Intron	NM_003974	NP_003965	O60496	DOK2_HUMAN	docking protein 2	99	PH.				blood coagulation|leukocyte migration	cytosol	identical protein binding|insulin receptor binding				0				Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		GCGCTCCGCTGCAGGGGCCGC	0.736													5	8	---	---	---	---	PASS	T	21769789	T	T	21769789	3	4	14	1	0	0	0	0	1	0	0	0	4697	1319	46	3	958	3	DOK2	8	21769789	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	18805719	21769789	124594233	158	7957										
ADAM7	8756	broad.mit.edu	37	chr8	24304711	24304711	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttttttagaaaacgtatgaaGaagaattgttgtatgaaata	8	1	0	5			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:24304711G>A	uc003xeb.2	+	3	282	c.169G>A	c.(169-171)GAA>AAA	p.E57K	ADAM7_uc003xea.1_Missense_Mutation_p.E57K	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	57	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		AACGTATGAAGAAGAATTGTT	0.353													44	116	---	---	---	---	PASS	A	24304711	A	A	24304711	3	1	14	1	0	0	0	0	1	0	0	0	251	943	33	2	179	2	ADAM7	8	24304711	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	2534922	24304711	122059311	159	7958										
UNC5D	137970	broad.mit.edu	37	chr8	35631845	35631845	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agaaaccatcactttcttcgCacaagaggacagcactttcc	6	13	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:35631845C>T	uc003xjr.1	+	16	2835	c.2507C>T	c.(2506-2508)GCA>GTA	p.A836V	UNC5D_uc003xjs.1_Missense_Mutation_p.A831V|UNC5D_uc003xju.1_Missense_Mutation_p.A412V	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	836	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		ACTTTCTTCGCACAAGAGGAC	0.428													39	228	---	---	---	---	PASS	T	35631845	T	T	35631845	3	4	14	1	0	0	0	0	1	0	0	0	16992	710	25	3	2569	3	UNC5D	8	35631845	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	11327134	35631845	110732177	160	7959										
ADAM9	8754	broad.mit.edu	37	chr8	38940183	38940183	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgtagaaacttccagtgtgtAgatgcttctgttctgaatta	9	6	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:38940183A>T	uc003xmr.2	+	17	1983	c.1905A>T	c.(1903-1905)GTA>GTT	p.V635V	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_Intron|ADAM9_uc010lwr.2_RNA|ADAM9_uc003xms.2_RNA	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	635	Extracellular (Potential).				activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			TCCAGTGTGTAGATGCTTCTG	0.264													35	225	---	---	---	---	PASS	T	38940183	T	T	38940183	2	4	14	1	0	0	0	0	0	0	0	1	253	407	15	5		5	ADAM9	8	38940183	Silent	SNP	A	TCGA-18-4083-01A-01D-1352-08	3308338	38940183	107423839	161	7960										
SOX17	64321	broad.mit.edu	37	chr8	55371731	55371731	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	actacaagtaccggccgcggCggcgcaagcaggtgaagcgg	16	12	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:55371731C>A	uc003xsb.3	+	2	625	c.421C>A	c.(421-423)CGG>AGG	p.R141R		NM_022454	NP_071899	Q9H6I2	SOX17_HUMAN	SRY-box 17	141					angiogenesis|cardiac cell fate determination|endocardial cell differentiation|endocardium formation|endoderm formation|heart formation|heart looping|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|outflow tract morphogenesis|positive regulation of transcription, DNA-dependent|protein destabilization|protein stabilization|regulation of embryonic development|renal system development|vasculogenesis|Wnt receptor signaling pathway	transcription factor complex	beta-catenin binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			lung(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.176)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;1.9e-07)|Epithelial(17;1.7e-05)|all cancers(17;0.000159)			CCGGCCGCGGCGGCGCAAGCA	0.741													3	9	---	---	---	---	PASS	A	55371731	A	A	55371731	2	1	14	1	0	0	0	0	0	0	0	1	14947	759	27	1		1	SOX17	8	55371731	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	16431548	55371731	90992291	162	7961										
RP1	6101	broad.mit.edu	37	chr8	55542773	55542773	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcctcttagatatttgccaaGttgagacctccttaaatatt	6	9	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:55542773G>A	uc003xsd.1	+	4	6479	c.6331G>A	c.(6331-6333)GTT>ATT	p.V2111I	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	2111					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TATTTGCCAAGTTGAGACCTC	0.333													76	83	---	---	---	---	PASS	A	55542773	A	A	55542773	3	1	14	1	0	0	0	0	1	0	0	0	13532	1029	36	3	6341	3	RP1	8	55542773	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	171042	55542773	90821249	163	7962										
ADHFE1	137872	broad.mit.edu	37	chr8	67369056	67369056	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tttctttcttttctagccatGgaatgtcttacccaatttca	4	10	5	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:67369056G>A	uc003xwb.3	+	11	1025	c.991G>A	c.(991-993)GGA>AGA	p.G331R	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Missense_Mutation_p.G283R|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_RNA|ADHFE1_uc011les.1_Missense_Mutation_p.G261R	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	331					2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			TTCTAGCCATGGAATGTCTTA	0.348													21	92	---	---	---	---	PASS	A	67369056	A	A	67369056	3	1	14	1	0	0	0	0	1	0	0	0	314	1349	47	3	1033	3	ADHFE1	8	67369056	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	11826283	67369056	78994966	164	7963										
E2F5	1875	broad.mit.edu	37	chr8	86118434	86118434	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tttcctatgtaactcatgaaGacatctgtaattgctttaat	5	7	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:86118434G>A	uc003ycz.3	+	4	566	c.529G>A	c.(529-531)GAC>AAC	p.D177N	E2F5_uc003yda.3_Missense_Mutation_p.D177N|E2F5_uc010mab.2_Missense_Mutation_p.D16N|E2F5_uc003ydb.3_5'UTR	NM_001951	NP_001942	Q15329	E2F5_HUMAN	E2F transcription factor 5 isoform 1	177	Dimerization (Potential).				G1 phase of mitotic cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1						AACTCATGAAGACATCTGTAA	0.368													19	118	---	---	---	---	PASS	A	86118434	A	A	86118434	3	1	14	1	0	0	0	0	1	0	0	0	4870	942	33	2	543	2	E2F5	8	86118434	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	18749378	86118434	60245588	165	7964										
CNGB3	54714	broad.mit.edu	37	chr8	87679296	87679296	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgggaagacgaggcgcagtgGtataaaacagcagttccagt	14	7	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:87679296G>T	uc003ydx.2	-	6	755	c.709C>A	c.(709-711)CCA>ACA	p.P237T	CNGB3_uc010maj.2_Missense_Mutation_p.P99T	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	237	Helical; Name=H1; (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						AGGCGCAGTGGTATAAAACAG	0.423													68	75	---	---	---	---	PASS	T	87679296	T	T	87679296	3	4	14	1	0	0	0	0	1	0	0	0	3601	1261	44	3	1772	3	CNGB3	8	87679296	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	1560862	87679296	58684726	166	7965										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885771	88885771	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcaagtcccacgaagcacagCagaaggtgggaatccaagtg	13	10	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:88885771C>A	uc003ydz.2	-	1	526	c.429G>T	c.(427-429)CTG>CTT	p.L143L		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	143										ovary(1)	1						CGAAGCACAGCAGAAGGTGGG	0.562													50	150	---	---	---	---	PASS	A	88885771	A	A	88885771	2	1	14	1	0	0	0	0	0	0	0	1	4272	697	25	3		3	DCAF4L2	8	88885771	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	1206475	88885771	57478251	167	7966										
CSMD3	114788	broad.mit.edu	37	chr8	113259299	113259299	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	taagatcagggaggcaggtgCgtgttgtagacccttggaga	16	6	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:113259299C>A	uc003ynu.2	-	64	10331	c.10172G>T	c.(10171-10173)CGC>CTC	p.R3391L	CSMD3_uc003yns.2_Missense_Mutation_p.R2593L|CSMD3_uc003ynt.2_Missense_Mutation_p.R3351L|CSMD3_uc011lhx.1_Missense_Mutation_p.R3222L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3391	Extracellular (Potential).|Sushi 27.					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						GAGGCAGGTGCGTGTTGTAGA	0.398										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			44	64	---	---	---	---	PASS	A	113259299	A	A	113259299	3	1	14	1	0	0	0	0	1	0	0	0	3946	768	27	1	983	1	CSMD3	8	113259299	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	24373528	113259299	33104723	168	7967										
CSMD3	114788	broad.mit.edu	37	chr8	113484893	113484893	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttttttggatagtttggtgaTagaacagtgccttctgaacc	10	6	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:113484893T>G	uc003ynu.2	-	32	5481	c.5322A>C	c.(5320-5322)CTA>CTC	p.L1774L	CSMD3_uc003yns.2_Silent_p.L1046L|CSMD3_uc003ynt.2_Silent_p.L1734L|CSMD3_uc011lhx.1_Silent_p.L1670L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1774	Extracellular (Potential).|CUB 10.					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						AGTTTGGTGATAGAACAGTGC	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			34	90	---	---	---	---	PASS	G	113484893	G	G	113484893	2	3	14	1	0	0	0	0	0	0	0	1	3946	1393	49	5		5	CSMD3	8	113484893	Silent	SNP	T	TCGA-18-4083-01A-01D-1352-08	225594	113484893	32879129	169	7968										
KCNK9	51305	broad.mit.edu	37	chr8	140631126	140631126	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cgatgcacagcgtccccatgCaggagaagaagcccacagtc	11	14	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr8:140631126C>G	uc003yvf.1	-	2	564	c.500G>C	c.(499-501)TGC>TCC	p.C167S	KCNK9_uc003yvg.1_Missense_Mutation_p.C167S|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	167	Helical; (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			CGTCCCCATGCAGGAGAAGAA	0.557													42	66	---	---	---	---	PASS	G	140631126	G	G	140631126	3	3	14	1	0	0	0	0	1	0	0	0	8072	710	25	4	628	4	KCNK9	8	140631126	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	27146233	140631126	5732896	170	7969										
GLIS3	169792	broad.mit.edu	37	chr9	4117993	4117993	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cagcaatgcttgcccccgatGccgtccatctccccgtcgtc	8	19	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr9:4117993G>A	uc003zhw.1	-	3	1214	c.1020C>T	c.(1018-1020)GGC>GGT	p.G340G	GLIS3_uc003zhx.1_Silent_p.G495G|GLIS3_uc003zic.1_Silent_p.G495G|GLIS3_uc003zie.1_Silent_p.G495G|GLIS3_uc010mhh.1_Silent_p.G370G|GLIS3_uc003zid.1_Silent_p.G273G|GLIS3_uc010mhi.1_Silent_p.G302G|GLIS3_uc003zif.1_Silent_p.G273G|GLIS3_uc003zig.1_Silent_p.G339G|GLIS3_uc003zih.1_Silent_p.G273G|GLIS3_uc003zhy.1_Silent_p.G273G|GLIS3_uc003zhz.1_Silent_p.G273G|GLIS3_uc003zib.1_Silent_p.G339G|GLIS3_uc010mhg.1_Silent_p.G273G	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	340					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		TGCCCCCGATGCCGTCCATCT	0.682													29	122	---	---	---	---	PASS	A	4117993	A	A	4117993	2	1	14	1	0	0	0	0	0	0	0	1	6447	1306	46	3		3	GLIS3	9	4117993	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08		4117993	137095438	171	7970										
C9orf68	55064	broad.mit.edu	37	chr9	4625422	4625422	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtcctggaagaaatgcctggTagaatattgagagggcgccc	14	8	0	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr9:4625422T>G	uc011llz.1	-	5	638	c.400A>C	c.(400-402)ACC>CCC	p.T134P	C9orf68_uc003zik.2_RNA|C9orf68_uc003zil.2_RNA|C9orf68_uc010mhj.2_Missense_Mutation_p.T192P|C9orf68_uc011lly.1_Missense_Mutation_p.T69P	NM_001039395	NP_001034484	B4DIY4	B4DIY4_HUMAN	hypothetical protein LOC55064	134											0		Breast(48;0.0456)		GBM - Glioblastoma multiforme(50;0.0222)		AAATGCCTGGTAGAATATTGA	0.433													30	128	---	---	---	---	PASS	G	4625422	G	G	4625422	3	3	14	1	0	0	0	0	1	0	0	0	2491	1638	57	5	628	5	C9orf68	9	4625422	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	507429	4625422	136588009	172	7971										
TRPM3	80036	broad.mit.edu	37	chr9	73213485	73213485	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tggagacgaaggatcattccGacagaaaacagaaggatggc	13	7	1	3	rs145029936		TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr9:73213485G>C	uc004aid.2	-	20	3106	c.2862C>G	c.(2860-2862)GTC>GTG	p.V954V	TRPM3_uc004ahu.2_Silent_p.V784V|TRPM3_uc004ahv.2_Silent_p.V756V|TRPM3_uc004ahw.2_Silent_p.V826V|TRPM3_uc004ahx.2_Silent_p.V813V|TRPM3_uc004ahy.2_Silent_p.V816V|TRPM3_uc004ahz.2_Silent_p.V803V|TRPM3_uc004aia.2_Silent_p.V801V|TRPM3_uc004aib.2_Silent_p.V791V|TRPM3_uc004aic.2_Silent_p.V954V	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	979	Helical; (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GGATCATTCCGACAGAAAACA	0.498													48	67	---	---	---	---	PASS	C	73213485	C	C	73213485	2	2	14	1	0	0	0	0	0	0	0	1	16584	1045	37	2		2	TRPM3	9	73213485	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	68588063	73213485	67999946	173	7972										
FLJ46321	389763	broad.mit.edu	37	chr9	84607401	84607401	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtccatgttccgatctccatCattcctggagattttccact	6	13	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr9:84607401C>T	uc004amn.2	+	4	2063	c.2016C>T	c.(2014-2016)ATC>ATT	p.I672I		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	672						integral to membrane					0						CGATCTCCATCATTCCTGGAG	0.502													53	141	---	---	---	---	PASS	T	84607401	T	T	84607401	2	4	14	1	0	0	0	0	0	0	0	1	5932	816	29	2		2	FLJ46321	9	84607401	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	11393916	84607401	56606030	174	7973										
HIATL1	84641	broad.mit.edu	37	chr9	97203277	97203277	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctttttataggtggtattttGcgatgatttctgtgtctgga	11	4	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr9:97203277G>A	uc004aur.2	+	5	675	c.406G>A	c.(406-408)GCG>ACG	p.A136T	HIATL1_uc011luh.1_Missense_Mutation_p.A71T	NM_032558	NP_115947	Q5SR56	HIAL1_HUMAN	hippocampus abundant transcript-like 1	136	Helical; (Potential).				transmembrane transport	integral to membrane|plasma membrane	protein binding|transporter activity			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				GTGGTATTTTGCGATGATTTC	0.408													159	54	---	---	---	---	PASS	A	97203277	A	A	97203277	3	1	14	1	0	0	0	0	1	0	0	0	7098	1319	46	3	424	3	HIATL1	9	97203277	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	12595876	97203277	44010154	175	7974										
ZNF883	169834	broad.mit.edu	37	chr9	115760384	115760384	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgttgaacaagattactgttCcgggtaaaggacttaccaca	9	8	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr9:115760384C>T	uc011lwy.1	-	5	1395	c.156G>A	c.(154-156)CGG>CGA	p.R52R		NM_001101338	NP_001094808	P0CG24	ZN883_HUMAN	hypothetical protein LOC169834	52	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GATTACTGTTCCGGGTAAAGG	0.373													30	76	---	---	---	---	PASS	T	115760384	T	T	115760384	2	4	14	1	0	0	0	0	0	0	0	1	18195	842	30	2		2	ZNF883	9	115760384	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	18557107	115760384	25453047	176	7975										
TNC	3371	broad.mit.edu	37	chr9	117808740	117808740	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcgccttcctttgcttattcCatagagttcaatttcgtatt	5	10	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr9:117808740C>A	uc004bjj.3	-	17	5436	c.5074G>T	c.(5074-5076)GGA>TGA	p.G1692*	TNC_uc010mvf.2_Intron	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1692	Fibronectin type-III 12.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TTGCTTATTCCATAGAGTTCA	0.458													136	440	---	---	---	---	PASS	A	117808740	A	A	117808740	4	1	14	1	0	0	0	0	0	1	0	0	16267	603	21	3	1579	3	TNC	9	117808740	Nonsense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	2048356	117808740	23404691	177	7976										
SLC27A4	10999	broad.mit.edu	37	chr9	131117388	131117388	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aagaccccctgcgccgcttcGatggctacctcaaccagggc	10	17	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr9:131117388G>T	uc004but.2	+	10	1665	c.1381G>T	c.(1381-1383)GAT>TAT	p.D461Y	SLC27A4_uc004buu.2_Intron	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	461					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						GCGCCGCTTCGATGGCTACCT	0.622													17	42	---	---	---	---	PASS	T	131117388	T	T	131117388	3	4	14	1	0	0	0	0	1	0	0	0	14528	1058	37	2	1415	2	SLC27A4	9	131117388	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	13308648	131117388	10096043	178	7977										
DOLK	22845	broad.mit.edu	37	chr9	131708257	131708257	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acacccacagccaggacaccGgcataggggacgagggccct	13	15	0	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr9:131708257G>A	uc004bwr.2	-	1	1756	c.1326C>T	c.(1324-1326)GCC>GCT	p.A442A	NUP188_uc004bws.1_5'Flank|NUP188_uc004bwq.1_Intron	NM_014908	NP_055723	Q9UPQ8	DOLK_HUMAN	dolichol kinase	442	Helical; (Potential).				dolichyl diphosphate biosynthetic process|dolichyl monophosphate biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to endoplasmic reticulum membrane|membrane fraction	dolichol kinase activity				0						CCAGGACACCGGCATAGGGGA	0.607													90	135	---	---	---	---	PASS	A	131708257	A	A	131708257	2	1	14	1	0	0	0	0	0	0	0	1	4703	1103	39	1		1	DOLK	9	131708257	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	590869	131708257	9505174	179	7978										
PTPLA	9200	broad.mit.edu	37	chr10	17646017	17646017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttcctttttccatataaaaaCgtaccatggcaatagctaga	5	9	0	1	rs150586011		TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr10:17646017C>A	uc001ipg.2	-	2	322	c.287G>T	c.(286-288)CGT>CTT	p.R96L	PTPLA_uc001iph.1_Missense_Mutation_p.R96L	NM_014241	NP_055056	B0YJ81	HACD1_HUMAN	protein tyrosine phosphatase-like, member A	96	Lumenal (Potential).				fatty acid biosynthetic process|multicellular organismal development|signal transduction	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein tyrosine phosphatase activity			central_nervous_system(1)|skin(1)	2						CATATAAAAACGTACCATGGC	0.289													15	80	---	---	---	---	PASS	A	17646017	A	A	17646017	3	1	14	1	0	0	0	0	1	0	0	0	12774	536	19	1	603	1	PTPLA	10	17646017	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08		17646017	117888730	180	7979										
MKX	283078	broad.mit.edu	37	chr10	28032179	28032179	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggtcctccggtgtctcaggcCgaggttgtccttgaggggcg	17	11	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr10:28032179C>A	uc001ity.3	-	2	391	c.166G>T	c.(166-168)GGC>TGC	p.G56C	MKX_uc001itx.3_Missense_Mutation_p.G56C	NM_173576	NP_775847	Q8IYA7	MKX_HUMAN	mohawk homeobox	56					muscle organ development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGTCTCAGGCCGAGGTTGTCC	0.751													8	17	---	---	---	---	PASS	A	28032179	A	A	28032179	3	1	14	1	0	0	0	0	1	0	0	0	9610	652	23	1	916	1	MKX	10	28032179	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	10386162	28032179	107502568	181	7980										
ZWINT	11130	broad.mit.edu	37	chr10	58119447	58119447	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	actcaagacccctgggtgtaCcttggcctggagctgctcaa	11	13	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr10:58119447C>A	uc001jjx.1	-	4	460	c.423_splice	c.e4+1	p.K141_splice	ZWINT_uc001jjy.1_Splice_Site_p.K141_splice|ZWINT_uc001jka.1_Splice_Site_p.K141_splice|ZWINT_uc009xoy.1_Splice_Site	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a						cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0						CCTGGGTGTACCTTGGCCTGG	0.547													124	303	---	---	---	---	PASS	A	58119447	A	A	58119447	5	1	14	1	0	0	0	0	0	0	1	0	18246	521	18	3	429	3	ZWINT	10	58119447	Splice_Site	SNP	C	TCGA-18-4083-01A-01D-1352-08	30087268	58119447	77415300	182	7981										
PPP3CB	5532	broad.mit.edu	37	chr10	75198107	75198107	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tttccgaggtggcattctctCattgatcctatccaaaccct	6	13	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr10:75198107C>G	uc001jue.2	-	14	1603	c.1468G>C	c.(1468-1470)GAG>CAG	p.E490Q	PPP3CB_uc001juf.2_Missense_Mutation_p.E491Q|PPP3CB_uc001jug.2_Missense_Mutation_p.E481Q|PPP3CB_uc010qkj.1_Missense_Mutation_p.E118Q	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	490	Inhibitory domain.									skin(1)	1	Prostate(51;0.0119)					GGCATTCTCTCATTGATCCTA	0.448													52	155	---	---	---	---	PASS	G	75198107	G	G	75198107	3	3	14	1	0	0	0	0	1	0	0	0	12398	835	29	2	110	2	PPP3CB	10	75198107	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	17078660	75198107	60336640	183	7982										
C10orf129	142827	broad.mit.edu	37	chr10	96967139	96967139	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cctggtgtcagataagagctAtgatgggtggttggatttca	14	5	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr10:96967139A>T	uc001kke.2	+	4	703	c.578A>T	c.(577-579)TAT>TTT	p.Y193F	C10orf129_uc009xuu.1_Missense_Mutation_p.Y103F	NM_207321	NP_997204	Q6P461	ACSM6_HUMAN	acyl-coenzyme A synthetase ACSM6, mitochondrial	193					fatty acid metabolic process	mitochondrion	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding				0		Colorectal(252;0.083)		Epithelial(162;1.64e-06)|all cancers(201;3.71e-05)		GATAAGAGCTATGATGGGTGG	0.428													55	90	---	---	---	---	PASS	T	96967139	T	T	96967139	3	4	14	1	0	0	0	0	1	0	0	0	1593	449	16	5	588	5	C10orf129	10	96967139	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	21769032	96967139	38567608	184	7983										
PLEKHA1	59338	broad.mit.edu	37	chr10	124177449	124177449	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agagaagatattttcaattgGatgaaaacacaataggctac	8	5	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr10:124177449G>T	uc001lge.1	+	8	769	c.646G>T	c.(646-648)GAT>TAT	p.D216Y	PLEKHA1_uc001lgf.1_Missense_Mutation_p.D216Y|PLEKHA1_uc001lgg.1_Missense_Mutation_p.D216Y|PLEKHA1_uc001lgh.2_Missense_Mutation_p.D216Y	NM_001001974	NP_001001974	Q9HB21	PKHA1_HUMAN	pleckstrin homology domain containing, family A	216	PH 2.				B cell receptor signaling pathway|cellular response to hydrogen peroxide|establishment of protein localization|negative regulation of protein kinase B signaling cascade|phosphatidylinositol 3-kinase cascade|ruffle organization	cytoplasm|nucleus|ruffle membrane	PDZ domain binding|phosphatidylinositol-3,4-bisphosphate binding			kidney(1)	1		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TTTTCAATTGGATGAAAACAC	0.323													31	126	---	---	---	---	PASS	T	124177449	T	T	124177449	3	4	14	1	0	0	0	0	1	0	0	0	12055	1174	41	2	672	2	PLEKHA1	10	124177449	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	27210310	124177449	11357298	185	7984										
C10orf137	26098	broad.mit.edu	37	chr10	127441453	127441453	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gagcacgcattccagcttatCcagaaggagcttatagaaga	10	9	0	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr10:127441453C>G	uc001liq.1	+	23	3656	c.3363C>G	c.(3361-3363)ATC>ATG	p.I1121M	C10orf137_uc001lio.1_Missense_Mutation_p.I1087M|C10orf137_uc001lip.1_Missense_Mutation_p.I825M|C10orf137_uc001lis.1_Missense_Mutation_p.I447M|C10orf137_uc001lit.1_Missense_Mutation_p.I31M	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	1121					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TCCAGCTTATCCAGAAGGAGC	0.353													48	209	---	---	---	---	PASS	G	127441453	G	G	127441453	3	3	14	1	0	0	0	0	1	0	0	0	1594	845	30	2	3347	2	C10orf137	10	127441453	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	3264004	127441453	8093294	186	7985										
FANK1	92565	broad.mit.edu	37	chr10	127684007	127684007	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agagcccataagtagtgagcActtgcaccgggctgtcagtg	13	10	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr10:127684007A>C	uc001ljh.3	+	4	442	c.338A>C	c.(337-339)CAC>CCC	p.H113P	FANK1_uc010quk.1_3'UTR|FANK1_uc009yan.2_Missense_Mutation_p.H139P|FANK1_uc001lji.2_Missense_Mutation_p.H107P	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains	113	ANK 1.					cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)				AGTAGTGAGCACTTGCACCGG	0.502													82	62	---	---	---	---	PASS	C	127684007	C	C	127684007	3	2	14	1	0	0	0	0	1	0	0	0	5672	159	6	5	352	5	FANK1	10	127684007	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	242554	127684007	7850740	187	7986										
FAM196A	642938	broad.mit.edu	37	chr10	128936119	128936119	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgttaaaggaaccagagtttCcatcttccgtgctttttaga	8	8	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr10:128936119C>T	uc001lju.1	-	3	1463	c.1422G>A	c.(1420-1422)TGG>TGA	p.W474*	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Nonsense_Mutation_p.W450*|FAM196A_uc001ljv.1_Nonsense_Mutation_p.W474*|FAM196A_uc009yap.1_Nonsense_Mutation_p.W450*	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	474										ovary(2)	2						ACCAGAGTTTCCATCTTCCGT	0.433													268	205	---	---	---	---	PASS	T	128936119	T	T	128936119	4	4	14	1	0	0	0	0	0	1	0	0	5528	856	30	2	21	2	FAM196A	10	128936119	Nonsense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1252112	128936119	6598628	188	7987										
EBF3	253738	broad.mit.edu	37	chr10	131666117	131666117	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gttgtcgccaattatgatgaCggtggcaccccccgtggtcc	12	13	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr10:131666117C>T	uc001lki.1	-	9	873	c.814G>A	c.(814-816)GTC>ATC	p.V272I		NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	281	IPT/TIG.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		ATTATGATGACGGTGGCACCC	0.577													32	114	---	---	---	---	PASS	T	131666117	T	T	131666117	3	4	14	1	0	0	0	0	1	0	0	0	4882	536	19	1	873	1	EBF3	10	131666117	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	2729998	131666117	3868630	189	7988										
PSMD13	5719	broad.mit.edu	37	chr11	237137	237137	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	accgtctggaggagctctacAcgaagaagtgagcgccgagc	14	11	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:237137A>T	uc001lol.2	+	1	330	c.88A>T	c.(88-90)ACG>TCG	p.T30S	SIRT3_uc001loj.3_5'Flank|SIRT3_uc001lok.3_5'Flank|SIRT3_uc010qvm.1_5'Flank|SIRT3_uc010qvn.1_5'Flank|SIRT3_uc010qvo.1_5'Flank|SIRT3_uc010qvp.1_5'Flank|SIRT3_uc010qvq.1_5'Flank|SIRT3_uc009ybt.1_5'Flank|PSMD13_uc010qvr.1_RNA|PSMD13_uc001loo.2_Missense_Mutation_p.T30S|PSMD13_uc001lon.2_5'UTR|PSMD13_uc001lom.2_5'UTR	NM_002817	NP_002808	Q9UNM6	PSD13_HUMAN	proteasome 26S non-ATPase subunit 13 isoform 1	30					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding			ovary(1)	1		all_cancers(49;1.58e-09)|all_epithelial(84;2.71e-06)|Breast(177;0.000162)|Ovarian(85;0.000626)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;7.79e-27)|Epithelial(43;4e-26)|OV - Ovarian serous cystadenocarcinoma(40;6.02e-21)|BRCA - Breast invasive adenocarcinoma(625;3.93e-05)|Lung(200;0.112)|LUSC - Lung squamous cell carcinoma(625;0.129)		GGAGCTCTACACGAAGAAGTG	0.682													9	41	---	---	---	---	PASS	T	237137	T	T	237137	3	4	14	1	0	0	0	0	1	0	0	0	12696	159	6	5	90	5	PSMD13	11	237137	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08		237137	134769379	190	7989										
MUC6	4588	broad.mit.edu	37	chr11	1020131	1020131	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tggaggatgtgagcgtggctGgaaggaggggtgtctgggtg	23	3	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:1020131G>T	uc001lsw.2	-	29	3818	c.3767C>A	c.(3766-3768)CCA>CAA	p.P1256Q		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1256	Pro-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GAGCGTGGCTGGAAGGAGGGG	0.642													12	29	---	---	---	---	PASS	T	1020131	T	T	1020131	3	4	14	1	0	0	0	0	1	0	0	0	9980	1348	47	3	3572	3	MUC6	11	1020131	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	782994	1020131	133986385	191	7990										
MUC5B	727897	broad.mit.edu	37	chr11	1162244	1162244	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aggccgatgacttccggaccCtcagtggggtggtggaggcc	17	11	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:1162244C>T	uc009ycr.1	+	16	1879	c.1753C>T	c.(1753-1755)CTC>TTC	p.L585F		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	576	VWFD 2.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTTCCGGACCCTCAGTGGGGT	0.642													10	33	---	---	---	---	PASS	T	1162244	T	T	1162244	3	4	14	1	0	0	0	0	1	0	0	0	9979	696	24	3		3	MUC5B	11	1162244	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	142113	1162244	133844272	192	7991										
UBQLN3	50613	broad.mit.edu	37	chr11	5530016	5530016	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttgggtccataatatctgtgTacatagtgcaaagcacattg	9	7	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:5530016T>C	uc001may.1	-	2	859	c.773A>G	c.(772-774)TAC>TGC	p.Y258C	HBG2_uc001mak.1_Intron	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	258										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AATATCTGTGTACATAGTGCA	0.522													127	135	---	---	---	---	PASS	C	5530016	C	C	5530016	3	2	14	1	0	0	0	0	1	0	0	0	16895	1638	57	5	1198	5	UBQLN3	11	5530016	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	4367772	5530016	129476500	193	7992										
OR56B4	196335	broad.mit.edu	37	chr11	6129308	6129308	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gatgccaaggccattagcctCcccatgtgttttgctcagat	9	12	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:6129308C>A	uc010qzx.1	+	1	300	c.300C>A	c.(298-300)CTC>CTA	p.L100L		NM_001005181	NP_001005181	Q8NH76	O56B4_HUMAN	olfactory receptor, family 56, subfamily B,	100	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.31e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCATTAGCCTCCCCATGTGTT	0.502													58	168	---	---	---	---	PASS	A	6129308	A	A	6129308	2	1	14	1	0	0	0	0	0	0	0	1	11138	842	30	2		2	OR56B4	11	6129308	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	599292	6129308	128877208	194	7993										
E2F8	79733	broad.mit.edu	37	chr11	19246331	19246331	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggcttggtgggtccacctggGgtacggaagaaactttcggc	16	9	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:19246331G>A	uc001mpm.2	-	13	3000	c.2478C>T	c.(2476-2478)ACC>ACT	p.T826T	E2F8_uc009yhv.2_RNA|E2F8_uc001mpn.3_Silent_p.T826T	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	826					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						GTCCACCTGGGGTACGGAAGA	0.488													45	131	---	---	---	---	PASS	A	19246331	A	A	19246331	2	1	14	1	0	0	0	0	0	0	0	1	4873	1219	43	3		3	E2F8	11	19246331	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	13117023	19246331	115760185	195	7994										
RCN1	5954	broad.mit.edu	37	chr11	32122142	32122142	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gggatgggtttgtggatcagGatgagtatattggtgagtac	17	2	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:32122142G>A	uc010reb.1	+	4	942	c.676G>A	c.(676-678)GAT>AAT	p.D226N	RCN1_uc010rea.1_Missense_Mutation_p.D175N|RCN1_uc001mtk.2_Missense_Mutation_p.D60N	NM_002901	NP_002892	Q15293	RCN1_HUMAN	reticulocalbin 1 precursor	226	4 (Potential).|EF-hand 4.					endoplasmic reticulum lumen	calcium ion binding			large_intestine(1)	1	Lung SC(675;0.225)					TGTGGATCAGGATGAGTATAT	0.512													29	82	---	---	---	---	PASS	A	32122142	A	A	32122142	3	1	14	1	0	0	0	0	1	0	0	0	13179	1174	41	2	690	2	RCN1	11	32122142	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	12875811	32122142	102884374	196	7995										
DEPDC7	91614	broad.mit.edu	37	chr11	33049272	33049272	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agtcatccgatatcagatcaGccagtttagaggacctgtgg	11	9	3	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:33049272G>C	uc001mub.2	+	3	597	c.505G>C	c.(505-507)GCC>CCC	p.A169P	DEPDC7_uc010reh.1_Missense_Mutation_p.A169P|DEPDC7_uc001muc.2_Missense_Mutation_p.A160P	NM_001077242	NP_001070710	Q96QD5	DEPD7_HUMAN	novel 58.3 KDA protein isoform 1	169					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|skin(1)	2						TATCAGATCAGCCAGTTTAGA	0.279													15	73	---	---	---	---	PASS	C	33049272	C	C	33049272	3	2	14	1	0	0	0	0	1	0	0	0	4444	971	34	4	565	4	DEPDC7	11	33049272	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	927130	33049272	101957244	197	7996										
RAG1	5896	broad.mit.edu	37	chr11	36597771	36597771	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctggtaacaaactgtttaggCgcttccggaaaatgaatgcc	10	9	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:36597771C>A	uc001mwu.3	+	2	3041	c.2917C>A	c.(2917-2919)CGC>AGC	p.R973S	RAG1_uc001mwt.2_Intron	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	973					histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				ACTGTTTAGGCGCTTCCGGAA	0.468									Familial_Hemophagocytic_Lymphohistiocytosis				57	177	---	---	---	---	PASS	A	36597771	A	A	36597771	3	1	14	1	0	0	0	0	1	0	0	0	13003	768	27	1	2919	1	RAG1	11	36597771	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	3548499	36597771	98408745	198	7997										
ALKBH3	221120	broad.mit.edu	37	chr11	43923105	43923105	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cactaaagaaccgcattgaaGagaacactggccacaccttc	7	13	0	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:43923105G>C	uc001mxs.2	+	8	942	c.499G>C	c.(499-501)GAG>CAG	p.E167Q	ALKBH3_uc009ykp.2_RNA|ALKBH3_uc001mxt.2_RNA|ALKBH3_uc009ykq.2_Missense_Mutation_p.E20Q	NM_139178	NP_631917	Q96Q83	ALKB3_HUMAN	AlkB homolog 3	167					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation	mitochondrion|nucleoplasm	damaged DNA binding|DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0					Vitamin C(DB00126)	CCGCATTGAAGAGAACACTGG	0.507								Direct_reversal_of_damage					84	92	---	---	---	---	PASS	C	43923105	C	C	43923105	3	2	14	1	0	0	0	0	1	0	0	0	528	943	33	2	525	2	ALKBH3	11	43923105	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	7325334	43923105	91083411	199	7998										
OR4X1	390113	broad.mit.edu	37	chr11	48285677	48285677	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	actcctttatcaagaggaaaGtcatttctctcaagggctgc	8	10	4	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:48285677G>C	uc010rht.1	+	1	265	c.265G>C	c.(265-267)GTC>CTC	p.V89L		NM_001004726	NP_001004726	Q8NH49	OR4X1_HUMAN	olfactory receptor, family 4, subfamily X,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3						CAAGAGGAAAGTCATTTCTCT	0.468													40	141	---	---	---	---	PASS	C	48285677	C	C	48285677	3	2	14	1	0	0	0	0	1	0	0	0	11084	1029	36	4	267	4	OR4X1	11	48285677	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	4362572	48285677	86720839	200	7999										
FOLH1	2346	broad.mit.edu	37	chr11	49178359	49178359	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ccagatcccaatttgcttatCcttttagagataaaacaaca	4	10	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:49178359C>A	uc001ngy.2	-	15	1794	c.1533G>T	c.(1531-1533)AGG>AGT	p.R511S	FOLH1_uc001ngx.2_5'Flank|FOLH1_uc001ngz.2_Missense_Mutation_p.R511S|FOLH1_uc009yly.2_Missense_Mutation_p.R496S|FOLH1_uc009ylz.2_Missense_Mutation_p.R496S|FOLH1_uc009yma.2_Missense_Mutation_p.R203S	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	511	NAALADase.|Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	ATTTGCTTATCCTTTTAGAGA	0.328													30	142	---	---	---	---	PASS	A	49178359	A	A	49178359	3	1	14	1	0	0	0	0	1	0	0	0	5979	869	30	2	739	2	FOLH1	11	49178359	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	892682	49178359	85828157	201	8000										
OR5D14	219436	broad.mit.edu	37	chr11	55563389	55563389	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agtctttcttgctggcagtgAtggcctatgaccgctttgtg	12	9	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:55563389A>G	uc010rim.1	+	1	358	c.358A>G	c.(358-360)ATG>GTG	p.M120V		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	120	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				GCTGGCAGTGATGGCCTATGA	0.507													32	100	---	---	---	---	PASS	G	55563389	G	G	55563389	3	3	14	1	0	0	0	0	1	0	0	0	11155	333	12	5	360	5	OR5D14	11	55563389	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	6385030	55563389	79443127	202	8001										
OR5D18	219438	broad.mit.edu	37	chr11	55587515	55587515	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tctgctctacacagttaacaTgtcccagaaactctgcgtgc	7	13	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:55587515T>A	uc010rin.1	+	1	410	c.410T>A	c.(409-411)ATG>AAG	p.M137K		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				ACAGTTAACATGTCCCAGAAA	0.468													96	366	---	---	---	---	PASS	A	55587515	A	A	55587515	3	1	14	1	0	0	0	0	1	0	0	0	11157	1464	51	5	412	5	OR5D18	11	55587515	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	24126	55587515	79419001	203	8002										
OR8H2	390151	broad.mit.edu	37	chr11	55872720	55872720	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	attttttccttactcacctgTcatttattgacctcagttac	3	11	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:55872720T>C	uc010riy.1	+	1	202	c.202T>C	c.(202-204)TCA>CCA	p.S68P		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					TACTCACCTGTCATTTATTGA	0.428										HNSCC(53;0.14)			180	649	---	---	---	---	PASS	C	55872720	C	C	55872720	3	2	14	1	0	0	0	0	1	0	0	0	11238	1667	58	5	204	5	OR8H2	11	55872720	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	285205	55872720	79133796	204	8003										
OR5J2	282775	broad.mit.edu	37	chr11	55944987	55944987	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttgagaaacaaggacgtaaaGgaggcagtgaaaagggccat	14	5	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:55944987G>T	uc010rjb.1	+	1	894	c.894G>T	c.(892-894)AAG>AAT	p.K298N		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	298	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					AGGACGTAAAGGAGGCAGTGA	0.373													25	64	---	---	---	---	PASS	T	55944987	T	T	55944987	3	4	14	1	0	0	0	0	1	0	0	0	11165	991	35	3	896	3	OR5J2	11	55944987	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	72267	55944987	79061529	205	8004										
TNKS1BP1	85456	broad.mit.edu	37	chr11	57080095	57080095	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ccactgggtggtggtgaagcCaggaggtcgtccagccagcg	17	11	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:57080095C>A	uc001njr.2	-	4	2379	c.2067G>T	c.(2065-2067)CTG>CTT	p.L689L	TNKS1BP1_uc001njs.2_Silent_p.L689L|TNKS1BP1_uc009ymd.1_Silent_p.L140L	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	689	Pro-rich.|Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GTGGTGAAGCCAGGAGGTCGT	0.632													47	46	---	---	---	---	PASS	A	57080095	A	A	57080095	2	1	14	1	0	0	0	0	0	0	0	1	16317	581	21	3		3	TNKS1BP1	11	57080095	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	1135108	57080095	77926421	206	8005										
MPEG1	219972	broad.mit.edu	37	chr11	58978896	58978896	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atgctcttgctgctgaagagGcccccaaaaagcagtcctga	10	12	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:58978896G>A	uc001nnu.3	-	1	1599	c.1443C>T	c.(1441-1443)GGC>GGT	p.G481G		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	481	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				TGCTGAAGAGGCCCCCAAAAA	0.483													47	136	---	---	---	---	PASS	A	58978896	A	A	58978896	2	1	14	1	0	0	0	0	0	0	0	1	9723	1190	42	3		3	MPEG1	11	58978896	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	1898801	58978896	76027620	207	8006										
MS4A14	84689	broad.mit.edu	37	chr11	60184273	60184273	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcaaactgaagaccagccggCccaagagaagaaatccccga	10	13	0	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:60184273C>T	uc001npj.2	+	5	2397	c.1832C>T	c.(1831-1833)GCC>GTC	p.A611V	MS4A14_uc001npi.2_Missense_Mutation_p.A499V|MS4A14_uc001npn.2_Missense_Mutation_p.A349V|MS4A14_uc001npk.2_Missense_Mutation_p.A594V|MS4A14_uc001npl.2_Missense_Mutation_p.A349V|MS4A14_uc001npm.2_Missense_Mutation_p.A349V	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	611	Gln-rich.					integral to membrane	receptor activity			breast(1)	1						GACCAGCCGGCCCAAGAGAAG	0.453													16	55	---	---	---	---	PASS	T	60184273	T	T	60184273	3	4	14	1	0	0	0	0	1	0	0	0	9858	739	26	3	1850	3	MS4A14	11	60184273	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1205377	60184273	74822243	208	8007										
INTS5	80789	broad.mit.edu	37	chr11	62415818	62415818	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcccaccctactagcagtgcCaagttgcgcaggaaccgggc	11	15	0	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:62415818C>A	uc001nud.2	-	2	1787	c.1734G>T	c.(1732-1734)TTG>TTT	p.L578F	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	578					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						CTAGCAGTGCCAAGTTGCGCA	0.647													66	74	---	---	---	---	PASS	A	62415818	A	A	62415818	3	1	14	1	0	0	0	0	1	0	0	0	7781	593	21	3	1329	3	INTS5	11	62415818	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	2231545	62415818	72590698	209	8008										
NAALADL1	10004	broad.mit.edu	37	chr11	64825411	64825411	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	catctggccccccttgctccCcggtcacgttctcctcagtc	7	20	4	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:64825411C>A	uc001ocn.2	-	3	432	c.416G>T	c.(415-417)GGG>GTG	p.G139V	NAALADL1_uc010rnw.1_5'UTR	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	139	Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						CCCTTGCTCCCCGGTCACGTT	0.652													88	216	---	---	---	---	PASS	A	64825411	A	A	64825411	3	1	14	1	0	0	0	0	1	0	0	0	10129	623	22	3	1870	3	NAALADL1	11	64825411	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	2409593	64825411	70181105	210	8009										
LRP5	4041	broad.mit.edu	37	chr11	68205913	68205913	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctttctgtttgtctctggcaGaaatcaccaagccgccctca	7	14	4	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:68205913G>C	uc001ont.2	+	20	4187	c.4112_splice	c.e20-1	p.E1371_splice	LRP5_uc009ysg.2_Splice_Site_p.E781_splice	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein						adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						GTCTCTGGCAGAAATCACCAA	0.602													30	165	---	---	---	---	PASS	C	68205913	C	C	68205913	5	2	14	1	0	0	0	0	0	0	1	0	8960	956	33	2	4189	2	LRP5	11	68205913	Splice_Site	SNP	G	TCGA-18-4083-01A-01D-1352-08	3380502	68205913	66800603	211	8010										
TYR	7299	broad.mit.edu	37	chr11	88911393	88911393	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttataataggacctgccagtGctctggcaacttcatgggat	10	9	2	0	rs137854890		TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:88911393G>T	uc001pcs.2	+	1	354	c.272G>T	c.(271-273)TGC>TTC	p.C91F		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	91	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	ACCTGCCAGTGCTCTGGCAAC	0.502									Oculocutaneous_Albinism				24	59	---	---	---	---	PASS	T	88911393	T	T	88911393	3	4	14	1	0	0	0	0	1	0	0	0	16810	1319	46	3	274	3	TYR	11	88911393	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	20705480	88911393	46095123	212	8011										
CCDC67	159989	broad.mit.edu	37	chr11	93097425	93097425	+	Missense_Mutation	SNP	C	A	A													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cacaccttaaagaagaaataCcctttgaactgagcaatttg							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:93097425C>A	uc001pdq.2	+	5	497	c.397C>A	c.(397-399)CCC>ACC	p.P133T	CCDC67_uc001pdo.1_Missense_Mutation_p.P133T|CCDC67_uc001pdp.2_Missense_Mutation_p.P133T	NM_181645	NP_857596	Q05D60	CCD67_HUMAN	coiled-coil domain containing 67	133	Potential.									ovary(1)	1		Acute lymphoblastic leukemia(157;2.35e-05)|all_hematologic(158;0.00824)				AGAAGAAATACCCTTTGAACT	0.308													15	26	---	---	---	---	PASS	A	93097425	A	A	93097425	3	1	14	1	0	0	0	0	1	0	0	0	2839	507	18	3	411	3	CCDC67	11	93097425	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	4186032	93097425	41909091	213	8012	239	2								
CCDC67	159989	broad.mit.edu	37	chr11	93097426	93097426	+	Missense_Mutation	SNP	C	A	A													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acaccttaaagaagaaatacCctttgaactgagcaatttga							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:93097426C>A	uc001pdq.2	+	5	498	c.398C>A	c.(397-399)CCC>CAC	p.P133H	CCDC67_uc001pdo.1_Missense_Mutation_p.P133H|CCDC67_uc001pdp.2_Missense_Mutation_p.P133H	NM_181645	NP_857596	Q05D60	CCD67_HUMAN	coiled-coil domain containing 67	133	Potential.									ovary(1)	1		Acute lymphoblastic leukemia(157;2.35e-05)|all_hematologic(158;0.00824)				GAAGAAATACCCTTTGAACTG	0.303													14	26	---	---	---	---	PASS	A	93097426	A	A	93097426	3	1	14	1	0	0	0	0	1	0	0	0	2839	623	22	3	412	3	CCDC67	11	93097426	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1	93097426	41909090	214	8013	239	2								
HEPHL1	341208	broad.mit.edu	37	chr11	93806219	93806219	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atctctacttcacacaagggGacaacagaataggaggaaaa	9	8	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:93806219G>T	uc001pep.2	+	7	1418	c.1261G>T	c.(1261-1263)GAC>TAC	p.D421Y	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	421	Plastocyanin-like 3.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				CACACAAGGGGACAACAGAAT	0.378													23	42	---	---	---	---	PASS	T	93806219	T	T	93806219	3	4	14	1	0	0	0	0	1	0	0	0	7055	1174	41	2	1287	2	HEPHL1	11	93806219	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	708793	93806219	41200297	215	8014										
PANX1	24145	broad.mit.edu	37	chr11	93913172	93913172	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aatcctccccacttttgatgTtctgcatttcaaatctgaag	5	11	3	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:93913172T>A	uc001per.2	+	4	1335	c.950T>A	c.(949-951)GTT>GAT	p.V317D	PANX1_uc001peq.2_Missense_Mutation_p.V317D	NM_015368	NP_056183	Q96RD7	PANX1_HUMAN	pannexin 1	317	Cytoplasmic (Potential).				positive regulation of interleukin-1 beta secretion|protein hexamerization|synaptic transmission	bleb|endoplasmic reticulum membrane|gap junction|integral to membrane	calcium channel activity|gap junction hemi-channel activity|leak channel activity|receptor binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				ACTTTTGATGTTCTGCATTTC	0.428													43	148	---	---	---	---	PASS	A	93913172	A	A	93913172	3	1	14	1	0	0	0	0	1	0	0	0	11420	1725	60	5	964	5	PANX1	11	93913172	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	106953	93913172	41093344	216	8015										
MMP8	4317	broad.mit.edu	37	chr11	102587099	102587099	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	caaatgtcaaactggggtcaCagggtttgggtgtgcttggt	15	6	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:102587099C>A	uc001phe.2	-	6	935	c.836G>T	c.(835-837)TGT>TTT	p.C279F	MMP8_uc010rut.1_Missense_Mutation_p.C214F|MMP8_uc010ruu.1_Missense_Mutation_p.C256F	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	279					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		ACTGGGGTCACAGGGTTTGGG	0.363													55	190	---	---	---	---	PASS	A	102587099	A	A	102587099	3	1	14	1	0	0	0	0	1	0	0	0	9668	478	17	3	587	3	MMP8	11	102587099	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	8673927	102587099	32419417	217	8016										
DDI1	414301	broad.mit.edu	37	chr11	103908027	103908027	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aacccccacgatctgtccctGctcaaggaacgcaaccctcc	6	19	2	0	rs56847546	byFrequency	TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:103908027G>A	uc001phr.2	+	1	720	c.477G>A	c.(475-477)CTG>CTA	p.L159L	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	159					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		ATCTGTCCCTGCTCAAGGAAC	0.622													71	78	---	---	---	---	PASS	A	103908027	A	A	103908027	2	1	14	1	0	0	0	0	0	0	0	1	4328	1306	46	3		3	DDI1	11	103908027	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	1320928	103908027	31098489	218	8017										
GUCY1A2	2977	broad.mit.edu	37	chr11	106680922	106680922	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggctacatcaccagggaaaaTagaatatagaagatccactg	9	8	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:106680922T>A	uc001pjg.1	-	5	1879	c.1489A>T	c.(1489-1491)ATT>TTT	p.I497F	GUCY1A2_uc010rvo.1_Missense_Mutation_p.I518F|GUCY1A2_uc009yxn.1_Missense_Mutation_p.I497F	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	497					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CCAGGGAAAATAGAATATAGA	0.418													45	136	---	---	---	---	PASS	A	106680922	A	A	106680922	3	1	14	1	0	0	0	0	1	0	0	0	6893	1406	49	5	725	5	GUCY1A2	11	106680922	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	2772895	106680922	28325594	219	8018										
NPAT	4863	broad.mit.edu	37	chr11	108044095	108044095	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tagatggctttccagttaatGaagtatcttgggataaaagt	10	4	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:108044095G>A	uc001pjz.3	-	13	1718	c.1616C>T	c.(1615-1617)TCA>TTA	p.S539L	NPAT_uc001pka.2_Missense_Mutation_p.S334L	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	539					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		TCCAGTTAATGAAGTATCTTG	0.299													22	104	---	---	---	---	PASS	A	108044095	A	A	108044095	3	1	14	1	0	0	0	0	1	0	0	0	10566	1294	45	2	2691	2	NPAT	11	108044095	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	1363173	108044095	26962421	220	8019										
OR8B8	26493	broad.mit.edu	37	chr11	124310260	124310260	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctgcaattatgtgggagctgCaggtgctgaaggctttggac	15	7	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:124310260C>A	uc010sal.1	-	1	722	c.722G>T	c.(721-723)TGC>TTC	p.C241F		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GTGGGAGCTGCAGGTGCTGAA	0.488													163	168	---	---	---	---	PASS	A	124310260	A	A	124310260	3	1	14	1	0	0	0	0	1	0	0	0	11230	710	25	3	216	3	OR8B8	11	124310260	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	16266165	124310260	10696256	221	8020										
ARHGAP32	9743	broad.mit.edu	37	chr11	128840518	128840518	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctggcaccatacacttggtgCtgctccaatttattgtgatg	9	10	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr11:128840518C>A	uc009zcp.2	-	22	4548	c.4548G>T	c.(4546-4548)CAG>CAT	p.Q1516H	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.Q475H|ARHGAP32_uc001qez.2_Missense_Mutation_p.Q1167H	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1516	Interaction with GAB2.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						ACACTTGGTGCTGCTCCAATT	0.502													35	104	---	---	---	---	PASS	A	128840518	A	A	128840518	3	1	14	1	0	0	0	0	1	0	0	0	881	796	28	3	1719	3	ARHGAP32	11	128840518	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	4530258	128840518	6165998	222	8021										
CLECL1	160365	broad.mit.edu	37	chr12	9885654	9885654	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atcaaaaagagagagaagacCacaaatgatgtcccactgaa	8	8	1	5			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:9885654C>T	uc001qwj.2	-	1	207	c.207G>A	c.(205-207)GTG>GTA	p.V69V		NM_172004	NP_742001	Q8IZS7	CLCL1_HUMAN	type II transmembrane protein DCAL1	69	Helical; Signal-anchor for type II membrane protein; (Potential).					integral to membrane|plasma membrane	sugar binding				0						GAGAGAAGACCACAAATGATG	0.443													37	126	---	---	---	---	PASS	T	9885654	T	T	9885654	2	4	14	1	0	0	0	0	0	0	0	1	3523	581	21	3		3	CLECL1	12	9885654	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08		9885654	123966241	223	8022										
CLEC9A	283420	broad.mit.edu	37	chr12	10215708	10215708	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcagaacagagaaagttgttActatgtctctgaaatttgga	9	5	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:10215708A>G	uc001qxa.2	+	7	987	c.374A>G	c.(373-375)TAC>TGC	p.Y125C		NM_207345	NP_997228	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	125	Extracellular (Potential).|C-type lectin.				positive regulation of cytokine secretion|receptor-mediated endocytosis	cell surface|integral to membrane	receptor activity|sugar binding			ovary(1)	1						GAAAGTTGTTACTATGTCTCT	0.343													110	109	---	---	---	---	PASS	G	10215708	G	G	10215708	3	3	14	1	0	0	0	0	1	0	0	0	3522	391	14	5	388	5	CLEC9A	12	10215708	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	330054	10215708	123636187	224	8023										
SLCO1A2	6579	broad.mit.edu	37	chr12	21471727	21471727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	attcattaccaatctcaaagCttccattaatgaatccaact	2	11	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:21471727C>A	uc001rer.2	-	2	442	c.191G>T	c.(190-192)AGC>ATC	p.S64I	SLCO1A2_uc001res.2_Missense_Mutation_p.S64I|SLCO1A2_uc010siq.1_5'UTR|SLCO1A2_uc010sio.1_5'UTR|SLCO1A2_uc010sip.1_Intron|SLCO1A2_uc001ret.2_Missense_Mutation_p.S62I|SLCO1A2_uc001reu.2_Missense_Mutation_p.S44I	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	64	Helical; Name=2; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						AATCTCAAAGCTTCCATTAAT	0.323													23	30	---	---	---	---	PASS	A	21471727	A	A	21471727	3	1	14	1	0	0	0	0	1	0	0	0	14722	797	28	3	1873	3	SLCO1A2	12	21471727	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	11256019	21471727	112380168	225	8024										
ABCD2	225	broad.mit.edu	37	chr12	39967633	39967633	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggtacattcatccagcaaggCatattttggtcttttaaaaa	7	7	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:39967633C>A	uc001rmb.2	-	9	2314	c.1888G>T	c.(1888-1890)GCC>TCC	p.A630S		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	630	ABC transporter.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						TCCAGCAAGGCATATTTTGGT	0.338													38	127	---	---	---	---	PASS	A	39967633	A	A	39967633	3	1	14	1	0	0	0	0	1	0	0	0	61	710	25	3	342	3	ABCD2	12	39967633	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	18495906	39967633	93884262	226	8025										
ADAMTS20	80070	broad.mit.edu	37	chr12	43750293	43750293	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cccgcaggacttacctctgaTcttcgtatgctgacagaggt	10	12	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:43750293T>C	uc010skx.1	-	38	5637	c.5637A>G	c.(5635-5637)AGA>AGG	p.R1879R		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1879	GON.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TTACCTCTGATCTTCGTATGC	0.413													17	21	---	---	---	---	PASS	C	43750293	C	C	43750293	2	2	14	1	0	0	0	0	0	0	0	1	266	1432	50	5		5	ADAMTS20	12	43750293	Silent	SNP	T	TCGA-18-4083-01A-01D-1352-08	3782660	43750293	90101602	227	8026										
ADAMTS20	80070	broad.mit.edu	37	chr12	43862455	43862455	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agaaatgagtcctttttcttCattaataaagcagctttgta	6	6	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:43862455C>G	uc010skx.1	-	8	1171	c.1171G>C	c.(1171-1173)GAA>CAA	p.E391Q		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	391	Peptidase M12B.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CCTTTTTCTTCATTAATAAAG	0.343													22	109	---	---	---	---	PASS	G	43862455	G	G	43862455	3	3	14	1	0	0	0	0	1	0	0	0	266	835	29	2	4688	2	ADAMTS20	12	43862455	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	112162	43862455	89989440	228	8027										
SLC38A4	55089	broad.mit.edu	37	chr12	47172328	47172328	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gggttcacacttgtcatcacTatgagcttcatattctactc	6	11	5	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:47172328T>C	uc001rpi.2	-	11	1348	c.949A>G	c.(949-951)AGT>GGT	p.S317G	SLC38A4_uc001rpj.2_Missense_Mutation_p.S317G	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	317	Extracellular (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)					TTGTCATCACTATGAGCTTCA	0.453													39	110	---	---	---	---	PASS	C	47172328	C	C	47172328	3	2	14	1	0	0	0	0	1	0	0	0	14606	1522	53	5	722	5	SLC38A4	12	47172328	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	3309873	47172328	86679567	229	8028										
COL2A1	1280	broad.mit.edu	37	chr12	48380866	48380866	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	actttgggctcttaccgtctGacctttcgggcccagaggac	11	13	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:48380866G>A	uc001rqu.2	-	21	1541	c.1360C>T	c.(1360-1362)CAG>TAG	p.Q454*	COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Nonsense_Mutation_p.Q385*	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	454	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CTTACCGTCTGACCTTTCGGG	0.627													69	215	---	---	---	---	PASS	A	48380866	A	A	48380866	4	1	14	1	0	0	0	0	0	1	0	0	3687	1299	45	2	3239	2	COL2A1	12	48380866	Nonsense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	1208538	48380866	85471029	230	8029										
MLL2	8085	broad.mit.edu	37	chr12	49415826	49415826	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtcaggatacttcctctcacCtcctctcctttggggattcg	8	14	3	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:49415826C>G	uc001rta.3	-	53	16521	c.16521G>C	c.(16519-16521)GAG>GAC	p.E5507D		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5507	SET.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TTCCTCTCACCTCCTCTCCTT	0.522			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			164	172	---	---	---	---	PASS	G	49415826	G	G	49415826	3	3	14	1	0	0	0	0	1	0	0	0	9621	695	24	4	100	4	MLL2	12	49415826	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1034960	49415826	84436069	231	8030										
KRT3	3850	broad.mit.edu	37	chr12	53189257	53189257	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgggcctttacttgcccaatCtgggggtcgatctccacatt	10	12	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:53189257C>G	uc001say.2	-	1	636	c.570G>C	c.(568-570)CAG>CAC	p.Q190H		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	190	Head.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						CTTGCCCAATCTGGGGGTCGA	0.537													41	134	---	---	---	---	PASS	G	53189257	G	G	53189257	3	3	14	1	0	0	0	0	1	0	0	0	8466	912	32	2	1352	2	KRT3	12	53189257	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	3773431	53189257	80662638	232	8031										
ITGA7	3679	broad.mit.edu	37	chr12	56078923	56078923	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aggatggggtgtgcatccggGccctcccgccgggggctgcc	18	14	0	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:56078923G>A	uc001shh.2	-	25	3565	c.3345C>T	c.(3343-3345)GGC>GGT	p.G1115G	ITGA7_uc001shg.2_Silent_p.G1111G|ITGA7_uc010sps.1_Silent_p.G1018G|ITGA7_uc001shf.2_3'UTR|ITGA7_uc009znw.2_Silent_p.G358G|ITGA7_uc009znx.2_Silent_p.G992G	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	1155	Cytoplasmic (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						GTGCATCCGGGCCCTCCCGCC	0.667													29	29	---	---	---	---	PASS	A	56078923	A	A	56078923	2	1	14	1	0	0	0	0	0	0	0	1	7881	1190	42	3		3	ITGA7	12	56078923	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	2889666	56078923	77772972	233	8032										
TIMELESS	8914	broad.mit.edu	37	chr12	56817237	56817237	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tagtagcagcacataggctcGaacgacagttgaacatgcaa	10	9	0	1	rs149262573		TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:56817237G>A	uc001slf.2	-	18	2281	c.2113C>T	c.(2113-2115)CGA>TGA	p.R705*		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	705					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						ACATAGGCTCGAACGACAGTT	0.507													50	101	---	---	---	---	PASS	A	56817237	A	A	56817237	4	1	14	1	0	0	0	0	0	1	0	0	15901	1066	37	2	1561	2	TIMELESS	12	56817237	Nonsense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	738314	56817237	77034658	234	8033										
AVPR1A	552	broad.mit.edu	37	chr12	63544455	63544455	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtcaccgccagcacggcgatCtccagtttggccagctcctc	10	17	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:63544455C>A	uc001sro.1	-	1	2136	c.162G>T	c.(160-162)GAG>GAT	p.E54D		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	54	Helical; Name=1; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	GCACGGCGATCTCCAGTTTGG	0.701													40	72	---	---	---	---	PASS	A	63544455	A	A	63544455	3	1	14	1	0	0	0	0	1	0	0	0	1231	912	32	2	1102	2	AVPR1A	12	63544455	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	6727218	63544455	70307440	235	8034										
IRAK3	11213	broad.mit.edu	37	chr12	66641937	66641937	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cctgggatgaatatgaacagTacaaaaaagaataaattcta	7	5	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:66641937T>C	uc001sth.2	+	12	1879	c.1777T>C	c.(1777-1779)TAC>CAC	p.Y593H	IRAK3_uc010ssy.1_Missense_Mutation_p.Y532H	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	593					interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		ATATGAACAGTACAAAAAAGA	0.418													34	82	---	---	---	---	PASS	C	66641937	C	C	66641937	3	2	14	1	0	0	0	0	1	0	0	0	7824	1638	57	5	1823	5	IRAK3	12	66641937	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	3097482	66641937	67209958	236	8035										
ZFC3H1	196441	broad.mit.edu	37	chr12	72057113	72057113	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ccctgaggtggccccgctcaGacgcgtgccgcgagcgtgag	16	15	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:72057113G>A	uc001swo.2	-	1	637	c.278C>T	c.(277-279)TCT>TTT	p.S93F	ZFC3H1_uc010sts.1_Missense_Mutation_p.S93F|ZFC3H1_uc001swp.2_Missense_Mutation_p.S93F|THAP2_uc001swq.2_5'Flank	NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	93	Ser-rich.				RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						GCCCCGCTCAGACGCGTGCCG	0.642											OREG0021993	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	166	240	---	---	---	---	PASS	A	72057113	A	A	72057113	3	1	14	1	0	0	0	0	1	0	0	0	17630	942	33	2	5831	2	ZFC3H1	12	72057113	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	5415176	72057113	61794782	237	8036										
GLIPR1L1	256710	broad.mit.edu	37	chr12	75756926	75756926	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttacgtaagaggagaatcttGctctctctgctcaaaagaag	9	8	4	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:75756926G>T	uc001sxo.2	+	4	612	c.566G>T	c.(565-567)TGC>TTC	p.C189F	CAPS2_uc001sxm.3_Intron|CAPS2_uc009zsa.2_Intron|GLIPR1L1_uc001sxn.2_Missense_Mutation_p.C189F	NM_152779	NP_689992	Q6UWM5	GPRL1_HUMAN	GLI pathogenesis-related 1 like 1	189						extracellular region					0						GGAGAATCTTGCTCTCTCTGC	0.308													8	22	---	---	---	---	PASS	T	75756926	T	T	75756926	3	4	14	1	0	0	0	0	1	0	0	0	6442	1319	46	3	580	3	GLIPR1L1	12	75756926	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	3699813	75756926	58094969	238	8037										
SYT1	6857	broad.mit.edu	37	chr12	79689885	79689885	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttcaggctgccgaactgcccGccttggacatggggggcaca	14	13	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:79689885G>A	uc001sys.2	+	8	1182	c.511G>A	c.(511-513)GCC>ACC	p.A171T	SYT1_uc001syt.2_Missense_Mutation_p.A171T|SYT1_uc001syu.2_Missense_Mutation_p.A168T|SYT1_uc001syv.2_Missense_Mutation_p.A171T	NM_001135805	NP_001129277	P21579	SYT1_HUMAN	synaptotagmin I	171	Cytoplasmic (Potential).|Phospholipid binding (Probable).|C2 1.				detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6						CGAACTGCCCGCCTTGGACAT	0.423													48	153	---	---	---	---	PASS	A	79689885	A	A	79689885	3	1	14	1	0	0	0	0	1	0	0	0	15462	1087	38	1	525	1	SYT1	12	79689885	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	3932959	79689885	54162010	239	8038										
ACSS3	79611	broad.mit.edu	37	chr12	81647445	81647445	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cattgtcaatggcaagccatAcaaggtaaattatcaaagat	7	7	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:81647445A>T	uc001szl.1	+	15	2082	c.1991A>T	c.(1990-1992)TAC>TTC	p.Y664F	ACSS3_uc001szm.1_Missense_Mutation_p.Y663F|ACSS3_uc001szn.1_Missense_Mutation_p.Y346F	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	664						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GGCAAGCCATACAAGGTAAAT	0.383													34	105	---	---	---	---	PASS	T	81647445	T	T	81647445	3	4	14	1	0	0	0	0	1	0	0	0	190	391	14	5	2049	5	ACSS3	12	81647445	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	1957560	81647445	52204450	240	8039										
SLC6A15	55117	broad.mit.edu	37	chr12	85270346	85270346	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atgctctgatgaggaagcaaAtaagtaccacatatggaaac	9	7	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:85270346A>G	uc001szv.2	-	6	1290	c.797T>C	c.(796-798)ATT>ACT	p.I266T	SLC6A15_uc010sul.1_Missense_Mutation_p.I159T	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	266	Helical; Name=5; (Potential).				cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						GAGGAAGCAAATAAGTACCAC	0.303													29	105	---	---	---	---	PASS	G	85270346	G	G	85270346	3	3	14	1	0	0	0	0	1	0	0	0	14678	101	4	5	1423	5	SLC6A15	12	85270346	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	3622901	85270346	48581549	241	8040										
DRAM1	55332	broad.mit.edu	37	chr12	102315008	102315008	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aaatagagtgtcaccctaagGatatccacagaaatcaatgg	8	8	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:102315008G>T	uc001tix.2	+	7	1150	c.687G>T	c.(685-687)AGG>AGT	p.R229S	DRAM1_uc010svv.1_Missense_Mutation_p.R119S	NM_018370	NP_060840	Q8N682	DRAM1_HUMAN	DNA-damage regulated autophagy modulator 1	229					apoptosis|autophagy	integral to membrane|lysosomal membrane				ovary(1)	1						TCACCCTAAGGATATCCACAG	0.383													33	76	---	---	---	---	PASS	T	102315008	T	T	102315008	3	4	14	1	0	0	0	0	1	0	0	0	4753	1165	41	2	713	2	DRAM1	12	102315008	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	17044662	102315008	31536887	242	8041										
DNAH10	196385	broad.mit.edu	37	chr12	124350516	124350516	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aggttggagatttacagtatGcctcccctgcaactgtctct	9	11	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:124350516G>T	uc001uft.3	+	40	6734	c.6709G>T	c.(6709-6711)GCC>TCC	p.A2237S		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2237	AAA 2 (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)		TTTACAGTATGCCTCCCCTGC	0.358													48	114	---	---	---	---	PASS	T	124350516	T	T	124350516	3	4	14	1	0	0	0	0	1	0	0	0	4598	1319	46	3	6867	3	DNAH10	12	124350516	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	22035508	124350516	9501379	243	8042										
DNAH10	196385	broad.mit.edu	37	chr12	124354931	124354931	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aggtcaacttccaaccttgtAtgactttcattttgataaca	5	9	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:124354931A>T	uc001uft.3	+	43	7209	c.7184A>T	c.(7183-7185)TAT>TTT	p.Y2395F		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2395					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)		CCAACCTTGTATGACTTTCAT	0.393													17	35	---	---	---	---	PASS	T	124354931	T	T	124354931	3	4	14	1	0	0	0	0	1	0	0	0	4598	449	16	5	7354	5	DNAH10	12	124354931	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	4415	124354931	9496964	244	8043										
TMEM132B	114795	broad.mit.edu	37	chr12	126004172	126004172	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcatcgtccctcttgccatgGtgaggaatctgggggtttca	13	10	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:126004172G>C	uc001uhe.1	+	4	1286	c.1278_splice	c.e4+1	p.M426_splice		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B							integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		TCTTGCCATGGTGAGGAATCT	0.478													54	128	---	---	---	---	PASS	C	126004172	C	C	126004172	5	2	14	1	0	0	0	0	0	0	1	0	16043	1275	44	4	1293	4	TMEM132B	12	126004172	Splice_Site	SNP	G	TCGA-18-4083-01A-01D-1352-08	1649241	126004172	7847723	245	8044										
SLC15A4	121260	broad.mit.edu	37	chr12	129299353	129299353	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gctctccacttcgcttctggGaacagcaggaatacgtcagt	10	12	3	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr12:129299353G>A	uc001uhu.2	-	2	862	c.809C>T	c.(808-810)TCC>TTC	p.S270F	SLC15A4_uc001uhv.2_RNA|MGC16384_uc001uhw.2_5'Flank	NM_145648	NP_663623	Q8N697	S15A4_HUMAN	solute carrier family 15, member 4	270					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.69e-06)|Epithelial(86;1.17e-05)|all cancers(50;5.07e-05)		TCGCTTCTGGGAACAGCAGGA	0.468													51	93	---	---	---	---	PASS	A	129299353	A	A	129299353	3	1	14	1	0	0	0	0	1	0	0	0	14401	1174	41	2	952	2	SLC15A4	12	129299353	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	3295181	129299353	4552542	246	8045										
PCDH20	64881	broad.mit.edu	37	chr13	61987452	61987452	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tccccattctcattctcctcCacgtccagggtgaacatacc	5	17	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr13:61987452C>T	uc001vid.3	-	2	1144	c.780G>A	c.(778-780)GTG>GTA	p.V260V	PCDH20_uc010thj.1_Silent_p.V260V	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	233	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		CATTCTCCTCCACGTCCAGGG	0.527													40	115	---	---	---	---	PASS	T	61987452	T	T	61987452	2	4	14	1	0	0	0	0	0	0	0	1	11515	581	21	3		3	PCDH20	13	61987452	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08		61987452	53182426	247	8046										
MYCBP2	23077	broad.mit.edu	37	chr13	77748533	77748533	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgctgaatgtgaatgtcacaCcatcagggcactgaactgtg	11	9	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr13:77748533C>G	uc001vkf.2	-	38	5541	c.5450G>C	c.(5449-5451)GGT>GCT	p.G1817A	MYCBP2_uc010aev.2_Missense_Mutation_p.G1221A	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1817					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GAATGTCACACCATCAGGGCA	0.463													56	133	---	---	---	---	PASS	G	77748533	G	G	77748533	3	3	14	1	0	0	0	0	1	0	0	0	10018	507	18	4	8660	4	MYCBP2	13	77748533	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	15761081	77748533	37421345	248	8047										
OR4K17	390436	broad.mit.edu	37	chr14	20585700	20585700	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	caagtgtcagaattcattttGctgggactgaccagctccca	9	11	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr14:20585700G>T	uc001vwo.1	+	1	135	c.135G>T	c.(133-135)TTG>TTT	p.L45F		NM_001004715	NP_001004715	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		AATTCATTTTGCTGGGACTGA	0.423													108	413	---	---	---	---	PASS	T	20585700	T	T	20585700	3	4	14	1	0	0	0	0	1	0	0	0	11071	1310	46	3	137	3	OR4K17	14	20585700	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08		20585700	86763840	249	8048										
OR11H6	122748	broad.mit.edu	37	chr14	20692503	20692503	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggcctgcatctctgctccttCcactgagcttatctgttaca	7	14	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr14:20692503C>A	uc010tlc.1	+	1	635	c.635C>A	c.(634-636)TCC>TAC	p.S212Y		NM_001004480	NP_001004480	Q8NGC7	O11H6_HUMAN	olfactory receptor, family 11, subfamily H,	212	Extracellular (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)		TCTGCTCCTTCCACTGAGCTT	0.498													32	73	---	---	---	---	PASS	A	20692503	A	A	20692503	3	1	14	1	0	0	0	0	1	0	0	0	10929	855	30	2	637	2	OR11H6	14	20692503	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	106803	20692503	86657037	250	8049										
METT11D1	64745	broad.mit.edu	37	chr14	21458712	21458712	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctgtagagccagaggagttgCaaagacgggctaggcatctt	14	8	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr14:21458712C>T	uc001vyn.2	+	3	516	c.319C>T	c.(319-321)CAA>TAA	p.Q107*	METT11D1_uc010tlk.1_Nonsense_Mutation_p.Q107*|METT11D1_uc001vym.2_Nonsense_Mutation_p.Q107*|METT11D1_uc001vyo.2_Nonsense_Mutation_p.Q107*|METT11D1_uc001vyp.2_5'UTR|METT11D1_uc001vyq.2_5'UTR	NM_022734	NP_073571	Q9H7H0	MET17_HUMAN	methyltransferase 11 domain containing 1 isoform	107					translation	mitochondrion|ribosome	copper ion binding|methyltransferase activity				0	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0191)		AGAGGAGTTGCAAAGACGGGC	0.463											OREG0022561	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	128	---	---	---	---	PASS	T	21458712	T	T	21458712	4	4	14	1	0	0	0	0	0	1	0	0	9491	711	25	3	329	3	METT11D1	14	21458712	Nonsense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	766209	21458712	85890828	251	8050										
HECTD1	25831	broad.mit.edu	37	chr14	31642569	31642569	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	caaacgcatagtatcaagcaCacatctttcatcaccctgca	4	14	4	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr14:31642569C>A	uc001wrc.1	-	6	1438	c.949G>T	c.(949-951)GTG>TTG	p.V317L		NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	317					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		GTATCAAGCACACATCTTTCA	0.413													44	74	---	---	---	---	PASS	A	31642569	A	A	31642569	3	1	14	1	0	0	0	0	1	0	0	0	7039	478	17	3	7035	3	HECTD1	14	31642569	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	10183857	31642569	75706971	252	8051										
LRFN5	145581	broad.mit.edu	37	chr14	42361074	42361074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gttgaatcccaaaacactaaCaggaacaactcaactgcctt	5	12	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr14:42361074C>A	uc001wvm.2	+	4	3205	c.2007C>A	c.(2005-2007)AAC>AAA	p.N669K	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	669	Cytoplasmic (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AAAACACTAACAGGAACAACT	0.458										HNSCC(30;0.082)			23	22	---	---	---	---	PASS	A	42361074	A	A	42361074	3	1	14	1	0	0	0	0	1	0	0	0	8941	477	17	3	2013	3	LRFN5	14	42361074	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	10718505	42361074	64988466	253	8052										
MDGA2	161357	broad.mit.edu	37	chr14	47530548	47530548	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cgtcccaaaatccgtgaattTtaaatcaatgatgtccaagt	6	9	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr14:47530548T>C	uc001wwj.3	-	7	1418	c.1222A>G	c.(1222-1224)AAA>GAA	p.K408E	MDGA2_uc001wwi.3_Missense_Mutation_p.K179E|MDGA2_uc010ani.2_5'UTR	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	408	Ig-like 4.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						TCCGTGAATTTTAAATCAATG	0.408													91	100	---	---	---	---	PASS	C	47530548	C	C	47530548	3	2	14	1	0	0	0	0	1	0	0	0	9407	1850	64	5	1692	5	MDGA2	14	47530548	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	5169474	47530548	59818992	254	8053										
SYT16	83851	broad.mit.edu	37	chr14	62462802	62462802	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcctttctcttcctggatatCtcgggtttatgaagctctcc	8	12	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr14:62462802C>T	uc001xfu.1	+	1	262	c.65C>T	c.(64-66)TCT>TTT	p.S22F	SYT16_uc010tsd.1_Missense_Mutation_p.S22F	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	22										central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		TCCTGGATATCTCGGGTTTAT	0.453													31	68	---	---	---	---	PASS	T	62462802	T	T	62462802	3	4	14	1	0	0	0	0	1	0	0	0	15469	913	32	2	67	2	SYT16	14	62462802	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	14932254	62462802	44886738	255	8054										
KCNH5	27133	broad.mit.edu	37	chr14	63447643	63447643	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ataaggtaaacaagacagcaGatcgatcacaaaccaagttt	7	8	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr14:63447643G>A	uc001xfx.2	-	6	940	c.889C>T	c.(889-891)CTG>TTG	p.L297L	KCNH5_uc001xfy.2_Silent_p.L297L|KCNH5_uc001xfz.1_Silent_p.L239L|KCNH5_uc001xga.2_Silent_p.L239L	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	297	Helical; Name=Segment S3; (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		CAAGACAGCAGATCGATCACA	0.393													43	96	---	---	---	---	PASS	A	63447643	A	A	63447643	2	1	14	1	0	0	0	0	0	0	0	1	8035	933	33	2		2	KCNH5	14	63447643	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	984841	63447643	43901897	256	8055										
C14orf115	55237	broad.mit.edu	37	chr14	74824650	74824650	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtggctgaggaggagctggaGtgctccgcactggcggtgtc	19	9	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr14:74824650G>A	uc001xpw.3	+	2	1355	c.1164G>A	c.(1162-1164)GAG>GAA	p.E388E		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	388					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		AGGAGCTGGAGTGCTCCGCAC	0.627													34	66	---	---	---	---	PASS	A	74824650	A	A	74824650	2	1	14	1	0	0	0	0	0	0	0	1	1740	1020	36	3		3	C14orf115	14	74824650	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	11377007	74824650	32524890	257	8056										
TMEM90A	646658	broad.mit.edu	37	chr14	74874674	74874674	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gttgtcttcactttcactctCcgttgaagtggcatcgctct	8	12	5	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr14:74874674C>A	uc001xpx.2	-	3	684	c.436G>T	c.(436-438)GAG>TAG	p.E146*		NM_001105579	NP_001099049	A6NDD5	SYN1L_HUMAN	transmembrane protein 90A	146					response to biotic stimulus	Golgi apparatus|integral to membrane					0				BRCA - Breast invasive adenocarcinoma(234;0.00159)		CTTTCACTCTCCGTTGAAGTG	0.468													18	51	---	---	---	---	PASS	A	74874674	A	A	74874674	4	1	14	1	0	0	0	0	0	1	0	0	16215	864	30	2	288	2	TMEM90A	14	74874674	Nonsense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	50024	74874674	32474866	258	8057										
SEL1L	6400	broad.mit.edu	37	chr14	81964351	81964351	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	catcaggcagccgtattctcTgtactactgagcctcctgtt	8	13	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr14:81964351T>C	uc010tvv.1	-	10	1130	c.1013A>G	c.(1012-1014)CAG>CGG	p.Q338R		NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	338	Lumenal (Potential).|Interaction with ERLEC1, OS9 and SYVN1.				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		CCGTATTCTCTGTACTACTGA	0.403													28	70	---	---	---	---	PASS	C	81964351	C	C	81964351	3	2	14	1	0	0	0	0	1	0	0	0	14010	1580	55	5	1419	5	SEL1L	14	81964351	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	7089677	81964351	25385189	259	8058										
AHNAK2	113146	broad.mit.edu	37	chr14	105409712	105409712	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cacttggccagcctggacctCcaggtcagcggaagggggct	15	13	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr14:105409712C>A	uc010axc.1	-	7	12196	c.12076G>T	c.(12076-12078)GAG>TAG	p.E4026*	AHNAK2_uc001ypx.2_Nonsense_Mutation_p.E3926*	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4026						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)			GCCTGGACCTCCAGGTCAGCG	0.657													75	353	---	---	---	---	PASS	A	105409712	A	A	105409712	4	1	14	1	0	0	0	0	0	1	0	0	415	864	30	2	5315	2	AHNAK2	14	105409712	Nonsense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	23445361	105409712	1939828	260	8059										
RYR3	6263	broad.mit.edu	37	chr15	34032192	34032192	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acccaaaacctattaacaccAtgaagtgagtccagaatcat	5	11	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr15:34032192A>G	uc001zhi.2	+	51	7886	c.7816A>G	c.(7816-7818)ATG>GTG	p.M2606V	RYR3_uc010bar.2_Missense_Mutation_p.M2606V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2606	3.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TATTAACACCATGAAGTGAGT	0.433													19	63	---	---	---	---	PASS	G	34032192	G	G	34032192	3	3	14	1	0	0	0	0	1	0	0	0	13770	217	8	5	8018	5	RYR3	15	34032192	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08		34032192	68499200	261	8060										
C15orf52	388115	broad.mit.edu	37	chr15	40633069	40633069	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gagcagcccctggggagccaGagtgggaggaaagctggagc	19	9	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr15:40633069G>A	uc001zlh.3	-	1	100	c.84C>T	c.(82-84)CTC>CTT	p.L28L	C15orf52_uc001zli.1_5'Flank	NM_207380	NP_997263	Q6ZUT6	CO052_HUMAN	hypothetical protein LOC388115	28										large_intestine(1)	1		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.06e-06)|Colorectal(105;0.0107)|BRCA - Breast invasive adenocarcinoma(123;0.0505)|READ - Rectum adenocarcinoma(2;0.0649)|Lung(196;0.0781)|LUAD - Lung adenocarcinoma(183;0.0841)		TGGGGAGCCAGAGTGGGAGGA	0.632													6	16	---	---	---	---	PASS	A	40633069	A	A	40633069	2	1	14	1	0	0	0	0	0	0	0	1	1800	929	33	2		2	C15orf52	15	40633069	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	6600877	40633069	61898323	262	8061										
TGM5	9333	broad.mit.edu	37	chr15	43533124	43533124	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcatctatgatcaggtttccAtctgtatcgtggccagagtc	9	10	4	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr15:43533124A>G	uc001zrd.1	-	7	935	c.927T>C	c.(925-927)GAT>GAC	p.D309D	TGM5_uc001zrc.1_5'Flank|TGM5_uc001zre.1_Silent_p.D227D	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	309					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	TCAGGTTTCCATCTGTATCGT	0.448													67	249	---	---	---	---	PASS	G	43533124	G	G	43533124	2	3	14	1	0	0	0	0	0	0	0	1	15830	214	8	5		5	TGM5	15	43533124	Silent	SNP	A	TCGA-18-4083-01A-01D-1352-08	2900055	43533124	58998268	263	8062										
FBN1	2200	broad.mit.edu	37	chr15	48796075	48796075	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gatttagtgacagcaccaaaCaaaggtttgatacactggcc	9	9	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr15:48796075C>T	uc001zwx.1	-	17	2350	c.2022G>A	c.(2020-2022)TTG>TTA	p.L674L		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	674	TB 3.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CAGCACCAAACAAAGGTTTGA	0.483													37	212	---	---	---	---	PASS	T	48796075	T	T	48796075	2	4	14	1	0	0	0	0	0	0	0	1	5702	477	17	3		3	FBN1	15	48796075	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	5262951	48796075	53735317	264	8063										
NARG2	79664	broad.mit.edu	37	chr15	60745837	60745837	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aaactcttcaggtttgtccaTaaagactgcagagactggaa	9	8	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr15:60745837T>C	uc002agp.2	-	9	1325	c.1090A>G	c.(1090-1092)ATG>GTG	p.M364V	NARG2_uc002ago.2_Missense_Mutation_p.M227V|NARG2_uc002agq.3_Missense_Mutation_p.M32V|NARG2_uc010bgk.2_Missense_Mutation_p.M364V|NARG2_uc002agr.1_Missense_Mutation_p.M364V	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	364						nucleus				ovary(1)|lung(1)	2						GGTTTGTCCATAAAGACTGCA	0.328													35	156	---	---	---	---	PASS	C	60745837	C	C	60745837	3	2	14	1	0	0	0	0	1	0	0	0	10169	1406	49	5	1890	5	NARG2	15	60745837	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	11949762	60745837	41785555	265	8064										
CILP	8483	broad.mit.edu	37	chr15	65499191	65499191	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gctgctccctgttgaggcacCagaaaccctcacggggacta	11	14	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr15:65499191C>A	uc002aon.2	-	4	534	c.353G>T	c.(352-354)TGG>TTG	p.W118L		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	118					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						GTTGAGGCACCAGAAACCCTC	0.647													43	177	---	---	---	---	PASS	A	65499191	A	A	65499191	3	1	14	1	0	0	0	0	1	0	0	0	3429	595	21	3	3225	3	CILP	15	65499191	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	4753354	65499191	37032201	266	8065										
NEO1	4756	broad.mit.edu	37	chr15	73545749	73545749	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttgtttctctagttcccagtGctgctcctcagaatctgtcc	7	13	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr15:73545749G>T	uc002avm.3	+	12	2045	c.1903G>T	c.(1903-1905)GCT>TCT	p.A635S	NEO1_uc010ukx.1_Missense_Mutation_p.A635S|NEO1_uc010uky.1_Missense_Mutation_p.A635S|NEO1_uc010ukz.1_Missense_Mutation_p.A59S|NEO1_uc002avn.3_Missense_Mutation_p.A300S	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	635	Extracellular (Potential).|Fibronectin type-III 3.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						AGTTCCCAGTGCTGCTCCTCA	0.378													79	55	---	---	---	---	PASS	T	73545749	T	T	73545749	3	4	14	1	0	0	0	0	1	0	0	0	10336	1319	46	3	1949	3	NEO1	15	73545749	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	8046558	73545749	28985643	267	8066										
ACAN	176	broad.mit.edu	37	chr15	89398283	89398283	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agctgttcccctcagaggagCcattcccctccaaggagcca	9	16	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr15:89398283C>A	uc010upo.1	+	12	2841	c.2467C>A	c.(2467-2469)CCA>ACA	p.P823T	ACAN_uc010upp.1_Missense_Mutation_p.P823T|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	823					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CTCAGAGGAGCCATTCCCCTC	0.622													8	34	---	---	---	---	PASS	A	89398283	A	A	89398283	3	1	14	1	0	0	0	0	1	0	0	0	117	739	26	3	2509	3	ACAN	15	89398283	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	15852534	89398283	13133109	268	8067										
ANPEP	290	broad.mit.edu	37	chr15	90333708	90333708	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tacctgctgcagctcatactCggtggagaatcgtcgtgtca	11	11	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr15:90333708C>T	uc002bop.3	-	20	3026	c.2734G>A	c.(2734-2736)GAG>AAG	p.E912K		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	912	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	AGCTCATACTCGGTGGAGAAT	0.537													55	91	---	---	---	---	PASS	T	90333708	T	T	90333708	3	4	14	1	0	0	0	0	1	0	0	0	710	893	31	2	177	2	ANPEP	15	90333708	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	935425	90333708	12197684	269	8068										
MSLNL	401827	broad.mit.edu	37	chr16	830137	830137	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcagcaagggacagcaggagGgtgaggcctgagctctgcag	18	9	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:830137G>C	uc002cjz.1	-	3	864	c.864C>G	c.(862-864)ACC>ACG	p.T288T		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	21					cell adhesion	integral to membrane				breast(3)|ovary(1)	4						ACAGCAGGAGGGTGAGGCCTG	0.692													11	39	---	---	---	---	PASS	C	830137	C	C	830137	2	2	14	1	0	0	0	0	0	0	0	1	9882	1219	43	4		4	MSLNL	16	830137	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08		830137	89524616	270	8069										
UNKL	64718	broad.mit.edu	37	chr16	1453235	1453235	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aggcacagtgcagcccattcTtcacgcagtggccacgtgcg	12	14	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:1453235T>C	uc010bro.1	-	3	406	c.398A>G	c.(397-399)AAG>AGG	p.K133R	UNKL_uc002clq.2_Missense_Mutation_p.K133R	NM_001037125	NP_001032202	Q9H9P5	UNKL_HUMAN	unkempt homolog (Drosophila)-like isoform 2	133	C3H1-type 2.					cytoplasm|nucleus	ligase activity|nucleic acid binding|zinc ion binding				0		Hepatocellular(780;0.0893)				CAGCCCATTCTTCACGCAGTG	0.637													22	46	---	---	---	---	PASS	C	1453235	C	C	1453235	3	2	14	1	0	0	0	0	1	0	0	0	16998	1609	56	5	1166	5	UNKL	16	1453235	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	623098	1453235	88901518	271	8070										
CARHSP1	23589	broad.mit.edu	37	chr16	8953178	8953178	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtggtggtgggggaggctcaGatgacatggctgacctggaa	19	6	1	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:8953178G>C	uc002czh.1	-	2	358	c.8C>G	c.(7-9)TCT>TGT	p.S3C	PMM2_uc002czg.1_Intron|CARHSP1_uc002czi.1_Missense_Mutation_p.S3C	NM_001042476	NP_001035941	Q9Y2V2	CHSP1_HUMAN	calcium-regulated heat-stable protein 1	3					intracellular signal transduction|regulation of mRNA stability|regulation of transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|P granule	DNA binding|mRNA 3'-UTR binding|phosphatase binding				0						GGGAGGCTCAGATGACATGGC	0.642													9	28	---	---	---	---	PASS	C	8953178	C	C	8953178	3	2	14	1	0	0	0	0	1	0	0	0	2653	942	33	2	447	2	CARHSP1	16	8953178	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	7499943	8953178	81401575	272	8071										
USP7	7874	broad.mit.edu	37	chr16	8996248	8996248	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	caatatttactgttttattgCcgtcggcttcattatctaac	5	9	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:8996248C>G	uc002czl.2	-	17	2130	c.1931G>C	c.(1930-1932)GGC>GCC	p.G644A	USP7_uc010uyk.1_Missense_Mutation_p.G545A|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.G545A|USP7_uc002czk.2_Missense_Mutation_p.G628A|USP7_uc010uyl.1_RNA	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	644	Interaction with ICP0/VMW110.				interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TGTTTTATTGCCGTCGGCTTC	0.423													35	38	---	---	---	---	PASS	G	8996248	G	G	8996248	3	3	14	1	0	0	0	0	1	0	0	0	17085	739	26	4	1437	4	USP7	16	8996248	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	43070	8996248	81358505	273	8072										
ABCC1	4363	broad.mit.edu	37	chr16	16108449	16108449	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gccctagtgtgtgccctagcCatcctgagatccaaaattat	8	12	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:16108449C>T	uc010bvi.2	+	4	628	c.453C>T	c.(451-453)GCC>GCT	p.A151A	ABCC1_uc010bvj.2_Silent_p.A151A|ABCC1_uc010bvk.2_Silent_p.A151A|ABCC1_uc010bvl.2_Silent_p.A151A|ABCC1_uc010bvm.2_Silent_p.A151A|ABCC1_uc002del.3_Silent_p.A35A|ABCC1_uc010bvn.2_Silent_p.A14A	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	151	Helical; Name=4.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GTGCCCTAGCCATCCTGAGAT	0.507													63	181	---	---	---	---	PASS	T	16108449	T	T	16108449	2	4	14	1	0	0	0	0	0	0	0	1	49	581	21	3		3	ABCC1	16	16108449	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	7112201	16108449	74246304	274	8073										
DNAH3	55567	broad.mit.edu	37	chr16	20990716	20990716	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggttcctcatcatagccaccTcttgcctcttgctattcagg	7	14	5	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:20990716T>A	uc010vbe.1	-	50	8012	c.8012A>T	c.(8011-8013)GAG>GTG	p.E2671V	DNAH3_uc010vbd.1_Missense_Mutation_p.E106V	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2671	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CATAGCCACCTCTTGCCTCTT	0.468													48	148	---	---	---	---	PASS	A	20990716	A	A	20990716	3	1	14	1	0	0	0	0	1	0	0	0	4603	1551	54	5	4389	5	DNAH3	16	20990716	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	4882267	20990716	69364037	275	8074										
SLC5A11	115584	broad.mit.edu	37	chr16	24902294	24902294	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcgggctgccccgggaagatGccttccatattttccgagat	12	12	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:24902294G>T	uc002dmu.2	+	9	1001	c.769G>T	c.(769-771)GCC>TCC	p.A257S	SLC5A11_uc002dms.2_Missense_Mutation_p.A193S|SLC5A11_uc010vcd.1_Missense_Mutation_p.A222S|SLC5A11_uc002dmt.2_Intron|SLC5A11_uc010vce.1_Missense_Mutation_p.A187S|SLC5A11_uc010bxt.2_Missense_Mutation_p.A193S	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	257	Extracellular (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		CCGGGAAGATGCCTTCCATAT	0.582													98	329	---	---	---	---	PASS	T	24902294	T	T	24902294	3	4	14	1	0	0	0	0	1	0	0	0	14663	1319	46	3	799	3	SLC5A11	16	24902294	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	3911578	24902294	65452459	276	8075										
KIAA0556	23247	broad.mit.edu	37	chr16	27751548	27751548	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cggaagaaagcaaaggcaccCatgagatggctggtgccagc	14	10	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:27751548C>T	uc002dow.2	+	15	1954	c.1930C>T	c.(1930-1932)CAT>TAT	p.H644Y		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	644										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						CAAAGGCACCCATGAGATGGC	0.552													45	115	---	---	---	---	PASS	T	27751548	T	T	27751548	3	4	14	1	0	0	0	0	1	0	0	0	8183	594	21	3	1988	3	KIAA0556	16	27751548	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	2849254	27751548	62603205	277	8076										
SALL1	6299	broad.mit.edu	37	chr16	51175787	51175787	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttccctgtcaagtccgttgtGttctgaaaggtcgctgcagt	11	10	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:51175787G>C	uc010vgs.1	-	2	377	c.346C>G	c.(346-348)CAC>GAC	p.H116D	SALL1_uc010vgr.1_Missense_Mutation_p.H19D|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	116					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			AGTCCGTTGTGTTCTGAAAGG	0.552													57	139	---	---	---	---	PASS	C	51175787	C	C	51175787	3	2	14	1	0	0	0	0	1	0	0	0	13810	1377	48	4	3636	4	SALL1	16	51175787	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	23424239	51175787	39178966	278	8077										
BBS2	583	broad.mit.edu	37	chr16	56535283	56535283	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	accattagaagtggaaatgcGtaattctgtatgagcagttt	10	5	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:56535283G>A	uc002ejd.2	-	10	1441	c.1207C>T	c.(1207-1209)CGC>TGC	p.R403C	BBS2_uc010ccg.2_3'UTR	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein	403					adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						GTGGAAATGCGTAATTCTGTA	0.443									Bardet-Biedl_syndrome				85	298	---	---	---	---	PASS	A	56535283	A	A	56535283	3	1	14	1	0	0	0	0	1	0	0	0	1338	1145	40	1	990	1	BBS2	16	56535283	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	5359496	56535283	33819470	279	8078										
HERPUD1	9709	broad.mit.edu	37	chr16	56977077	56977077	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctgaagaccccaaccacctcCctccagacagggatgtacta	7	16	0	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:56977077C>T	uc002eke.1	+	8	1460	c.1051C>T	c.(1051-1053)CCT>TCT	p.P351S	HERPUD1_uc002ekf.1_Missense_Mutation_p.P350S|HERPUD1_uc002ekg.1_Missense_Mutation_p.P326S|HERPUD1_uc010cco.1_3'UTR|HERPUD1_uc010ccp.1_Missense_Mutation_p.P253S|HERPUD1_uc002ekh.1_Missense_Mutation_p.P169S	NM_014685	NP_055500	Q15011	HERP1_HUMAN	homocysteine-inducible, endoplasmic reticulum	351	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	protein binding				0						CAACCACCTCCCTCCAGACAG	0.463			T	ERG	prostate								168	398	---	---	---	---	PASS	T	56977077	T	T	56977077	3	4	14	1	0	0	0	0	1	0	0	0	7063	623	22	3	1081	3	HERPUD1	16	56977077	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	441794	56977077	33377676	280	8079										
CDH8	1006	broad.mit.edu	37	chr16	61687685	61687685	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atagccatatatctgaatggAgtcatatggcggggccgtgg	14	7	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:61687685A>G	uc002eog.1	-	12	2479	c.2227T>C	c.(2227-2229)TCC>CCC	p.S743P		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	743	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		ATCTGAATGGAGTCATATGGC	0.498													25	68	---	---	---	---	PASS	G	61687685	G	G	61687685	3	3	14	1	0	0	0	0	1	0	0	0	3116	304	11	5	176	5	CDH8	16	61687685	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	4710608	61687685	28667068	281	8080										
LRRC50	123872	broad.mit.edu	37	chr16	84199402	84199402	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	taaacagagcttgtgcggagGcctgggctaggggagggtac	18	7	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr16:84199402G>T	uc002fhl.3	+	7	1058	c.877G>T	c.(877-879)GCC>TCC	p.A293S	LRRC50_uc010vnw.1_Missense_Mutation_p.A41S	NM_178452	NP_848547	Q8NEP3	DAAF1_HUMAN	leucine rich repeat containing 50	293	LRRCT.				axonemal dynein complex assembly|cilium morphogenesis	cilium axoneme|cytoplasm|spindle pole	dynein binding				0						TTGTGCGGAGGCCTGGGCTAG	0.478									Kartagener_syndrome				43	172	---	---	---	---	PASS	T	84199402	T	T	84199402	3	4	14	1	0	0	0	0	1	0	0	0	9009	1203	42	3	903	3	LRRC50	16	84199402	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	22511717	84199402	6155351	282	8081										
TP53	7157	broad.mit.edu	37	chr17	7578467	7578467	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggccatggcgcggacgcgggTgccgggcgggggtgtggaat	23	9	0	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr17:7578467T>G	uc002gim.2	-	5	657	c.463A>C	c.(463-465)ACC>CCC	p.T155P	TP53_uc002gig.1_Missense_Mutation_p.T155P|TP53_uc002gih.2_Missense_Mutation_p.T155P|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.T23P|TP53_uc010cng.1_Missense_Mutation_p.T23P|TP53_uc002gii.1_Missense_Mutation_p.T23P|TP53_uc010cnh.1_Missense_Mutation_p.T155P|TP53_uc010cni.1_Missense_Mutation_p.T155P|TP53_uc002gij.2_Missense_Mutation_p.T155P|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.T62P|TP53_uc002gio.2_Missense_Mutation_p.T23P|TP53_uc010vug.1_Missense_Mutation_p.T116P	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	155	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		T -> N (in LFS; germline mutation and in sporadic cancers; somatic mutation).|T -> S (in sporadic cancers; somatic mutation).|T -> P (in sporadic cancers; somatic mutation).|T -> A (in sporadic cancers; somatic mutation).|T -> I (in sporadic cancers; somatic mutation).|T -> M (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.T155N(19)|p.T155P(14)|p.T155I(10)|p.0?(7)|p.T155A(7)|p.T155T(5)|p.P152fs*14(4)|p.G154fs*14(2)|p.T155fs*23(2)|p.P153fs*22(2)|p.T155S(2)|p.P151_V173del23(1)|p.G154_R156delGTR(1)|p.T155fs*26(1)|p.T155fs*25(1)|p.D148_T155delDSTPPPGT(1)|p.D148fs*23(1)|p.S149fs*72(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.T155fs*15(1)|p.T155_R156delTR(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)		CGGACGCGGGTGCCGGGCGGG	0.612		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)			77	37	---	---	---	---	PASS	G	7578467	G	G	7578467	3	3	14	1	0	0	0	0	1	0	0	0	16378	1696	59	5	835	5	TP53	17	7578467	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08		7578467	73616743	283	8082										
PFAS	5198	broad.mit.edu	37	chr17	8167621	8167621	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gccaacccctgtggacctggAgctcgaatgggtgctgggca	15	12	0	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr17:8167621A>T	uc002gkr.2	+	16	2024	c.1883A>T	c.(1882-1884)GAG>GTG	p.E628V	PFAS_uc010vuv.1_Missense_Mutation_p.E204V|PFAS_uc010cnw.1_Missense_Mutation_p.E128V|PFAS_uc002gks.2_5'Flank	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	628					'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GTGGACCTGGAGCTCGAATGG	0.597													21	85	---	---	---	---	PASS	T	8167621	T	T	8167621	3	4	14	1	0	0	0	0	1	0	0	0	11754	304	11	5	1941	5	PFAS	17	8167621	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	589154	8167621	73027589	284	8083										
SREBF1	6720	broad.mit.edu	37	chr17	17718184	17718184	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgctggaactgatggagaagCtgtaggcaggagcccccgca	15	10	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr17:17718184C>T	uc002gru.1	-	14	2761	c.2567G>A	c.(2566-2568)AGC>AAC	p.S856N	SREBF1_uc002gro.3_5'Flank|SREBF1_uc002grp.1_Missense_Mutation_p.S475N|SREBF1_uc002grq.1_Missense_Mutation_p.S375N|SREBF1_uc002grr.1_Missense_Mutation_p.S602N|SREBF1_uc002grs.1_Missense_Mutation_p.S832N|SREBF1_uc002grt.1_Missense_Mutation_p.S886N|MIR33B_hsa-mir-33b|MI0003646_5'Flank	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	856	Cytoplasmic (Potential).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						GATGGAGAAGCTGTAGGCAGG	0.632													12	3	---	---	---	---	PASS	T	17718184	T	T	17718184	3	4	14	1	0	0	0	0	1	0	0	0	15140	797	28	3	900	3	SREBF1	17	17718184	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	9550563	17718184	63477026	285	8084										
SLC4A1	6521	broad.mit.edu	37	chr17	42328845	42328845	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcttgaacagaagcaagatgCggtcaaagagctggatgccg	14	8	1	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr17:42328845C>G	uc002igf.3	-	18	2572	c.2423G>C	c.(2422-2424)CGC>CCC	p.R808P		NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	808	Membrane (anion exchange).		R -> H (in SPH4; Nara).|R -> C (in SPH4; Jablonec).		bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		AAGCAAGATGCGGTCAAAGAG	0.587													116	53	---	---	---	---	PASS	G	42328845	G	G	42328845	3	3	14	1	0	0	0	0	1	0	0	0	14650	768	27	4	324	4	SLC4A1	17	42328845	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	24610661	42328845	38866365	286	8085										
POLG2	11232	broad.mit.edu	37	chr17	62493071	62493071	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cttatggcaggccctgacggCtacacgagagcgcatctctc	11	14	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr17:62493071C>A	uc002jei.2	-	1	99	c.16G>T	c.(16-18)GCC>TCC	p.A6S	POLG2_uc010deg.1_Missense_Mutation_p.A6S	NM_007215	NP_009146	Q9UHN1	DPOG2_HUMAN	DNA polymerase subunit gamma-2, mitochondrial	6					DNA repair|DNA-dependent DNA replication|glycyl-tRNA aminoacylation	mitochondrial chromosome	ATP binding|DNA-directed DNA polymerase activity|glycine-tRNA ligase activity|identical protein binding|single-stranded DNA binding			central_nervous_system(1)	1	Breast(5;2.15e-14)		BRCA - Breast invasive adenocarcinoma(8;4.97e-11)			GCCCTGACGGCTACACGAGAG	0.577													27	139	---	---	---	---	PASS	A	62493071	A	A	62493071	3	1	14	1	0	0	0	0	1	0	0	0	12201	797	28	3	1473	3	POLG2	17	62493071	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	20164226	62493071	18702139	287	8086										
ABCA10	10349	broad.mit.edu	37	chr17	67190576	67190576	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgtttagcagtgttgatttaCcagctccattatgcccaagt	8	9	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr17:67190576C>G	uc010dfa.1	-	13	2174	c.1295G>C	c.(1294-1296)GGT>GCT	p.G432A	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_Missense_Mutation_p.G33A	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	432	ATP 1 (Potential).|ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TGTTGATTTACCAGCTCCATT	0.323													48	284	---	---	---	---	PASS	G	67190576	G	G	67190576	3	3	14	1	0	0	0	0	1	0	0	0	29	507	18	4	3448	4	ABCA10	17	67190576	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	4697505	67190576	14004634	288	8087										
GPR142	350383	broad.mit.edu	37	chr17	72368390	72368390	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acggaggaggggccggagtgGgctgcagccccgggtgggca	22	10	0	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr17:72368390G>T	uc010wqy.1	+	4	1040	c.1040G>T	c.(1039-1041)GGG>GTG	p.G347V	GPR142_uc010wqx.1_Missense_Mutation_p.G259V	NM_181790	NP_861455	Q7Z601	GP142_HUMAN	G protein-coupled receptor 142	347	Cytoplasmic (Potential).					cell junction|cytoplasm|integral to membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GGCCGGAGTGGGCTGCAGCCC	0.627													103	34	---	---	---	---	PASS	T	72368390	T	T	72368390	3	4	14	1	0	0	0	0	1	0	0	0	6650	1232	43	3	1054	3	GPR142	17	72368390	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	5177814	72368390	8826820	289	8088										
COLEC12	81035	broad.mit.edu	37	chr18	334900	334900	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	caggcaccccaggctccccaAcggtgccctgaagtccctgg	11	18	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr18:334900A>G	uc002kkm.2	-	6	1873	c.1658T>C	c.(1657-1659)GTT>GCT	p.V553A		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	553	Collagen-like 3.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				AGGCTCCCCAACGGTGCCCTG	0.736													5	18	---	---	---	---	PASS	G	334900	G	G	334900	3	3	14	1	0	0	0	0	1	0	0	0	3712	43	2	5	590	5	COLEC12	18	334900	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08		334900	77742348	290	8089										
TAF4B	6875	broad.mit.edu	37	chr18	23895363	23895363	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aaagagaattttagacattgGtaagtgtagagttatgatta	10	1	0	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr18:23895363G>C	uc002kvu.3	+	10	2491	c.2002_splice	c.e10+1	p.G668_splice	TAF4B_uc002kvs.3_Splice_Site|TAF4B_uc002kvt.3_Splice_Site_p.G673_splice	NM_005640	NP_005631	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding						transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			TTAGACATTGGTAAGTGTAGA	0.368													68	92	---	---	---	---	PASS	C	23895363	C	C	23895363	5	2	14	1	0	0	0	0	0	0	1	0	15524	1275	44	4	2041	4	TAF4B	18	23895363	Splice_Site	SNP	G	TCGA-18-4083-01A-01D-1352-08	23560463	23895363	54181885	291	8090										
CCDC68	80323	broad.mit.edu	37	chr18	52571635	52571635	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aataaggggaaacaccttcgGtcttcaattcactgtagaaa	8	8	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr18:52571635G>T	uc002lfs.2	-	12	1134	c.962C>A	c.(961-963)ACC>AAC	p.T321N	CCDC68_uc002lft.2_Missense_Mutation_p.T321N	NM_001143829	NP_001137301	Q9H2F9	CCD68_HUMAN	coiled-coil domain containing 68	321										skin(1)	1				Colorectal(16;0.0256)|READ - Rectum adenocarcinoma(59;0.21)		AACACCTTCGGTCTTCAATTC	0.368													37	219	---	---	---	---	PASS	T	52571635	T	T	52571635	3	4	14	1	0	0	0	0	1	0	0	0	2840	1261	44	3	49	3	CCDC68	18	52571635	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	28676272	52571635	25505613	292	8091										
CDH20	28316	broad.mit.edu	37	chr18	59174683	59174683	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgtttgccaaggacttggatGaaggcatcaatgcagagatg	13	6	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr18:59174683G>A	uc010dps.1	+	5	919	c.907G>A	c.(907-909)GAA>AAA	p.E303K	CDH20_uc002lif.2_Missense_Mutation_p.E297K	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	303	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				GGACTTGGATGAAGGCATCAA	0.443													254	174	---	---	---	---	PASS	A	59174683	A	A	59174683	3	1	14	1	0	0	0	0	1	0	0	0	3106	1291	45	2	925	2	CDH20	18	59174683	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	6603048	59174683	18902565	293	8092										
CD226	10666	broad.mit.edu	37	chr18	67614263	67614263	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	attctagagacatgttctcgGcaaagggaactgatgtatgc	11	7	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr18:67614263G>T	uc010dqo.2	-	2	536	c.89C>A	c.(88-90)GCC>GAC	p.A30D	CD226_uc002lkm.3_Missense_Mutation_p.A30D	NM_006566	NP_006557	Q15762	CD226_HUMAN	CD226 molecule precursor	30	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion|cell recognition|positive regulation of Fc receptor mediated stimulatory signaling pathway|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	cell surface|integral to plasma membrane|membrane raft	cell adhesion molecule binding|integrin binding|protein kinase binding|receptor activity				0		Esophageal squamous(42;0.129)				CATGTTCTCGGCAAAGGGAAC	0.423													96	272	---	---	---	---	PASS	T	67614263	T	T	67614263	3	4	14	1	0	0	0	0	1	0	0	0	2986	1203	42	3	941	3	CD226	18	67614263	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	8439580	67614263	10462985	294	8093										
TSHZ1	10194	broad.mit.edu	37	chr18	72999994	72999994	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gctttgaggaggcgttggacGagctgtcaccggtccacaag	15	10	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr18:72999994G>T	uc002lly.2	+	2	3060	c.2497G>T	c.(2497-2499)GAG>TAG	p.E833*		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	878						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GGCGTTGGACGAGCTGTCACC	0.617													26	101	---	---	---	---	PASS	T	72999994	T	T	72999994	4	4	14	1	0	0	0	0	0	1	0	0	16620	1059	37	2	2499	2	TSHZ1	18	72999994	Nonsense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	5385731	72999994	5077254	295	8094										
ZNF516	9658	broad.mit.edu	37	chr18	74091860	74091860	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggtcatcccgcgtcgacctcGcacttaaatctagcggcatg	10	14	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr18:74091860G>A	uc010dqx.1	-	3	2445	c.2210C>T	c.(2209-2211)GCG>GTG	p.A737V	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	737					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CGTCGACCTCGCACTTAAATC	0.597													19	60	---	---	---	---	PASS	A	74091860	A	A	74091860	3	1	14	1	0	0	0	0	1	0	0	0	17957	1087	38	1	1298	1	ZNF516	18	74091860	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	1091866	74091860	3985388	296	8095										
REXO1	57455	broad.mit.edu	37	chr19	1820047	1820047	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtcataggccaccttctcctCgttcagtgcctgggggacag	12	13	3	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:1820047C>T	uc002lua.3	-	7	2631	c.2536G>A	c.(2536-2538)GAG>AAG	p.E846K	REXO1_uc010dsq.2_Missense_Mutation_p.E155K|REXO1_uc010xgs.1_5'UTR|REXO1_uc010dsp.1_RNA|uc002lub.1_5'Flank	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3	846						nucleus	exonuclease activity|nucleic acid binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACCTTCTCCTCGTTCAGTGCC	0.667													14	75	---	---	---	---	PASS	T	1820047	T	T	1820047	3	4	14	1	0	0	0	0	1	0	0	0	13241	893	31	2	1169	2	REXO1	19	1820047	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08		1820047	57308936	297	8096										
SF3A2	8175	broad.mit.edu	37	chr19	2243439	2243439	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tggacttccagcatcgccccGggggcaagaccgggagcggg	17	13	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:2243439G>A	uc002lvg.2	+	2	144	c.22G>A	c.(22-24)GGG>AGG	p.G8R		NM_007165	NP_009096	Q15428	SF3A2_HUMAN	splicing factor 3a, subunit 2	8					nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex	nucleic acid binding|zinc ion binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCATCGCCCCGGGGGCAAGAC	0.642													35	111	---	---	---	---	PASS	A	2243439	A	A	2243439	3	1	14	1	0	0	0	0	1	0	0	0	14147	1116	39	1	24	1	SF3A2	19	2243439	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	423392	2243439	56885544	298	8097										
MATK	4145	broad.mit.edu	37	chr19	3783963	3783963	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcgcggactcccgcaccaggAacagcccatcctcgggaggc	13	17	0	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:3783963A>G	uc002lyt.2	-	6	831	c.431T>C	c.(430-432)TTC>TCC	p.F144S	MATK_uc002lyv.2_Missense_Mutation_p.F145S|MATK_uc002lyu.2_Missense_Mutation_p.F103S|MATK_uc010dtq.2_Missense_Mutation_p.F144S	NM_139355	NP_647612	P42679	MATK_HUMAN	megakaryocyte-associated tyrosine kinase isoform	144	SH2.				cell proliferation|mesoderm development|positive regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(2)|ovary(1)|lung(1)|large_intestine(1)	5		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGCACCAGGAACAGCCCATC	0.697													14	35	---	---	---	---	PASS	G	3783963	G	G	3783963	3	3	14	1	0	0	0	0	1	0	0	0	9332	246	9	5	1128	5	MATK	19	3783963	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	1540524	3783963	55345020	299	8098										
HNRNPM	4670	broad.mit.edu	37	chr19	8531119	8531119	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ccccgttctctctcgattagCtggattataaagttggctgg	10	10	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:8531119C>T	uc010dwe.2	+	7	711	c.631C>T	c.(631-633)CTG>TTG	p.L211L	HNRNPM_uc010dwc.1_Silent_p.L211L|HNRNPM_uc010xke.1_Silent_p.L172L|HNRNPM_uc010dwd.2_Silent_p.L172L|HNRNPM_uc002mka.2_Silent_p.L91L	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	211	RRM 2.				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						TCTCGATTAGCTGGATTATAA	0.373													92	369	---	---	---	---	PASS	T	8531119	T	T	8531119	2	4	14	1	0	0	0	0	0	0	0	1	7271	811	28	3		3	HNRNPM	19	8531119	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	4747156	8531119	50597864	300	8099										
MUC16	94025	broad.mit.edu	37	chr19	9065965	9065965	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cttgccagtggtcagtctctCatctgaagtgtggctcagct	11	11	5	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:9065965C>T	uc002mkp.2	-	3	21685	c.21481G>A	c.(21481-21483)GAG>AAG	p.E7161K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7163	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTCAGTCTCTCATCTGAAGTG	0.502													68	230	---	---	---	---	PASS	T	9065965	T	T	9065965	3	4	14	1	0	0	0	0	1	0	0	0	9973	835	29	2	22370	2	MUC16	19	9065965	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	534846	9065965	50063018	301	8100										
MUC16	94025	broad.mit.edu	37	chr19	9089140	9089140	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ggaatactggggtagggacaGaggtgctggccaaggtggtc	19	6	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:9089140G>C	uc002mkp.2	-	1	2879	c.2675C>G	c.(2674-2676)TCT>TGT	p.S892C		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	892	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTAGGGACAGAGGTGCTGGC	0.507													18	31	---	---	---	---	PASS	C	9089140	C	C	9089140	3	2	14	1	0	0	0	0	1	0	0	0	9973	942	33	2	41184	2	MUC16	19	9089140	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	23175	9089140	50039843	302	8101										
CCDC151	115948	broad.mit.edu	37	chr19	11533444	11533444	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gttgcttctcctgcttcagcCtcaccaacgtctgctcgttc	7	16	4	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:11533444C>G	uc002mrs.2	-	9	1345	c.1202G>C	c.(1201-1203)AGG>ACG	p.R401T	CCDC151_uc002mrr.2_Missense_Mutation_p.R336T|CCDC151_uc010dxz.2_Missense_Mutation_p.R341T	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	401	Potential.									ovary(1)	1						CTGCTTCAGCCTCACCAACGT	0.657													19	74	---	---	---	---	PASS	G	11533444	G	G	11533444	3	3	14	1	0	0	0	0	1	0	0	0	2786	681	24	4	605	4	CCDC151	19	11533444	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	2444304	11533444	47595539	303	8102										
ZNF700	90592	broad.mit.edu	37	chr19	12060230	12060230	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tacctcacaccttcgagtgcAtggtaggactcatactggag	10	11	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:12060230A>T	uc002msu.2	+	4	1517	c.1391A>T	c.(1390-1392)CAT>CTT	p.H464L	ZNF700_uc010xme.1_Missense_Mutation_p.H482L|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	464	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTCGAGTGCATGGTAGGACT	0.453													50	163	---	---	---	---	PASS	T	12060230	T	T	12060230	3	4	14	1	0	0	0	0	1	0	0	0	18101	217	8	5	1405	5	ZNF700	19	12060230	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	526786	12060230	47068753	304	8103										
IL27RA	9466	broad.mit.edu	37	chr19	14143296	14143296	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgggagccccctccgagttaCacctccagagccaaaagtag	10	14	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:14143296C>T	uc002mxx.2	+	2	622	c.199C>T	c.(199-201)CAC>TAC	p.H67Y		NM_004843	NP_004834	Q6UWB1	I27RA_HUMAN	class I cytokine receptor precursor	67	Extracellular (Potential).				cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0						CTCCGAGTTACACCTCCAGAG	0.622													70	242	---	---	---	---	PASS	T	14143296	T	T	14143296	3	4	14	1	0	0	0	0	1	0	0	0	7681	478	17	3	205	3	IL27RA	19	14143296	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	2083066	14143296	44985687	305	8104										
KIAA1683	80726	broad.mit.edu	37	chr19	18368565	18368565	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ccagtgccgggcttggtcccGgcgggtgctgtagccgcgcc	17	15	0	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:18368565G>T	uc002nin.2	-	4	3184	c.2968C>A	c.(2968-2970)CGG>AGG	p.R990R	PDE4C_uc002nil.3_5'Flank|KIAA1683_uc010ebn.2_Silent_p.R1177R|KIAA1683_uc010xqe.1_Silent_p.R944R|KIAA1683_uc010xqf.1_RNA	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	990	IQ 4.					mitochondrion				ovary(2)	2						GCTTGGTCCCGGCGGGTGCTG	0.687													44	43	---	---	---	---	PASS	T	18368565	T	T	18368565	2	4	14	1	0	0	0	0	0	0	0	1	8251	1115	39	1		1	KIAA1683	19	18368565	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	4225269	18368565	40760418	306	8105										
ZNF208	7757	broad.mit.edu	37	chr19	22156606	22156606	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acctcatgtttagtaaggatTgagaacatactaaaaccttt	6	7	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:22156606T>G	uc002nqp.2	-	4	1379	c.1230A>C	c.(1228-1230)TCA>TCC	p.S410S	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TAGTAAGGATTGAGAACATAC	0.383													45	156	---	---	---	---	PASS	G	22156606	G	G	22156606	2	3	14	1	0	0	0	0	0	0	0	1	17763	1799	63	5		5	ZNF208	19	22156606	Silent	SNP	T	TCGA-18-4083-01A-01D-1352-08	3788041	22156606	36972377	307	8106										
ZNF461	92283	broad.mit.edu	37	chr19	37129799	37129799	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttctttgatgttgaataaggTgtgaatgaagtctaaaggcc	11	4	2	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:37129799T>A	uc002oem.2	-	6	1676	c.1448A>T	c.(1447-1449)CAC>CTC	p.H483L	ZNF461_uc002oen.2_Missense_Mutation_p.H452L|ZNF461_uc010xtj.1_Missense_Mutation_p.H460L	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	483	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TTGAATAAGGTGTGAATGAAG	0.393													32	121	---	---	---	---	PASS	A	37129799	A	A	37129799	3	1	14	1	0	0	0	0	1	0	0	0	17922	1696	59	5	247	5	ZNF461	19	37129799	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	14973193	37129799	21999184	308	8107										
ZNF527	84503	broad.mit.edu	37	chr19	37880312	37880312	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgggaagacctttggctatcGctcacacctgaatcaacatc	8	12	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:37880312G>T	uc010efk.1	+	5	1472	c.1361G>T	c.(1360-1362)CGC>CTC	p.R454L	ZNF527_uc002ogf.3_Missense_Mutation_p.R422L|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	454	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTTGGCTATCGCTCACACCTG	0.423													27	120	---	---	---	---	PASS	T	37880312	T	T	37880312	3	4	14	1	0	0	0	0	1	0	0	0	17965	1087	38	1	1375	1	ZNF527	19	37880312	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	750513	37880312	21248671	309	8108										
SIRT2	22933	broad.mit.edu	37	chr19	39384155	39384155	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcgtctgggagaataagttcCgcaggaagtccactgaccgg	14	10	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:39384155C>G	uc002ojt.1	-	4	325	c.125G>C	c.(124-126)CGG>CCG	p.R42P	SIRT2_uc010egh.1_Missense_Mutation_p.R5P|SIRT2_uc010egi.1_Missense_Mutation_p.R5P|SIRT2_uc002ojs.1_Missense_Mutation_p.R22P|SIRT2_uc002oju.1_Missense_Mutation_p.R5P|SIRT2_uc010egj.1_Missense_Mutation_p.R5P|SIRT2_uc002ojv.1_Missense_Mutation_p.R42P	NM_012237	NP_036369	Q8IXJ6	SIRT2_HUMAN	sirtuin 2 isoform 1	42					cell division|chromatin silencing at rDNA|chromatin silencing at telomere|mitosis|negative regulation of striated muscle tissue development|protein ADP-ribosylation|regulation of exit from mitosis|regulation of phosphorylation|response to redox state	chromatin silencing complex|cytoplasm|microtubule	histone acetyltransferase binding|histone deacetylase binding|NAD+ binding|NAD-dependent histone deacetylase activity|transcription factor binding|tubulin deacetylase activity|ubiquitin binding|zinc ion binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00125)|LUSC - Lung squamous cell carcinoma(53;0.00191)			GAATAAGTTCCGCAGGAAGTC	0.527													12	45	---	---	---	---	PASS	G	39384155	G	G	39384155	3	3	14	1	0	0	0	0	1	0	0	0	14338	652	23	4	1096	4	SIRT2	19	39384155	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1503843	39384155	19744828	310	8109										
ZNF222	7673	broad.mit.edu	37	chr19	44536824	44536824	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	catatcttttggtccatcaaCgagtccacactggagaaaag	8	10	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:44536824C>T	uc002oyc.2	+	4	1180	c.997C>T	c.(997-999)CGA>TGA	p.R333*	ZNF284_uc010ejd.2_Intron|ZNF222_uc002oye.2_Nonsense_Mutation_p.R373*|ZNF222_uc002oyd.2_Nonsense_Mutation_p.R279*	NM_013360	NP_037492	Q9UK12	ZN222_HUMAN	zinc finger protein 222 isoform 2	333	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Prostate(69;0.0435)				GGTCCATCAACGAGTCCACAC	0.428													100	283	---	---	---	---	PASS	T	44536824	T	T	44536824	4	4	14	1	0	0	0	0	0	1	0	0	17773	528	19	1	1150	1	ZNF222	19	44536824	Nonsense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	5152669	44536824	14592159	311	8110										
ZNF229	7772	broad.mit.edu	37	chr19	44947019	44947019	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcttttctcatgccttgaggTcaaagtctccatggtctctt	7	11	5	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:44947019T>A	uc002oze.1	-	3	447	c.13A>T	c.(13-15)ACC>TCC	p.T5S	ZNF229_uc010ejk.1_5'UTR|ZNF229_uc010ejl.1_Missense_Mutation_p.T5S	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	5					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				TGCCTTGAGGTCAAAGTCTCC	0.483													31	205	---	---	---	---	PASS	A	44947019	A	A	44947019	3	1	14	1	0	0	0	0	1	0	0	0	17779	1667	58	5	2480	5	ZNF229	19	44947019	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	410195	44947019	14181964	312	8111										
ZNF296	162979	broad.mit.edu	37	chr19	45579091	45579091	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcggccgcaggtcaacagatCtgggtgtttgtcggtccagg	16	10	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:45579091C>G	uc002pao.2	-	2	385	c.328G>C	c.(328-330)GAT>CAT	p.D110H		NM_145288	NP_660331	Q8WUU4	ZN296_HUMAN	zinc finger protein 296	110					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTCAACAGATCTGGGTGTTTG	0.652													32	119	---	---	---	---	PASS	G	45579091	G	G	45579091	3	3	14	1	0	0	0	0	1	0	0	0	17825	913	32	2	1107	2	ZNF296	19	45579091	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	632072	45579091	13549892	313	8112										
STRN4	29888	broad.mit.edu	37	chr19	47230799	47230799	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ccgatagtgtccatgatgaaGacgtctgaggagaagccaaa	12	8	1	5			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:47230799G>C	uc002pfl.2	-	9	1191	c.1158C>G	c.(1156-1158)GTC>GTG	p.V386V	STRN4_uc002pfm.2_Silent_p.V393V|STRN4_uc010xyf.1_RNA|STRN4_uc010xyg.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	386						cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)		CCATGATGAAGACGTCTGAGG	0.413													8	38	---	---	---	---	PASS	C	47230799	C	C	47230799	2	2	14	1	0	0	0	0	0	0	0	1	15330	929	33	2		2	STRN4	19	47230799	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	1651708	47230799	11898184	314	8113										
MYH14	79784	broad.mit.edu	37	chr19	50775187	50775187	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agaaggtcaagagcctcaatAagctacggctcaaatatgag	10	8	3	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:50775187A>G	uc002prr.1	+	24	3177	c.3130A>G	c.(3130-3132)AAG>GAG	p.K1044E	MYH14_uc010enu.1_Missense_Mutation_p.K1085E|MYH14_uc002prq.1_Missense_Mutation_p.K1052E	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1044	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		GAGCCTCAATAAGCTACGGCT	0.587													6	30	---	---	---	---	PASS	G	50775187	G	G	50775187	3	3	14	1	0	0	0	0	1	0	0	0	10033	363	13	5	3351	5	MYH14	19	50775187	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	3544388	50775187	8353796	315	8114										
SIGLEC9	27180	broad.mit.edu	37	chr19	51631751	51631751	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agaggatgcaaacgctgtcaGgggttcagcctctcaggtga	14	9	3	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:51631751G>A	uc002pvu.2	+	6	1254	c.1187G>A	c.(1186-1188)AGG>AAG	p.R396K	SIGLEC9_uc010yct.1_Missense_Mutation_p.R396K	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	396	Cytoplasmic (Potential).				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		AACGCTGTCAGGGGTTCAGCC	0.582													38	92	---	---	---	---	PASS	A	51631751	A	A	51631751	3	1	14	1	0	0	0	0	1	0	0	0	14315	1000	35	3	1209	3	SIGLEC9	19	51631751	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	856564	51631751	7497232	316	8115										
ZNF600	162966	broad.mit.edu	37	chr19	53269448	53269448	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cttgtaaggtttctcaccacTatgaactctgcgatggcttg	9	10	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:53269448T>C	uc002qab.3	-	3	1847	c.1561A>G	c.(1561-1563)AGT>GGT	p.S521G		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	521					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		TTCTCACCACTATGAACTCTG	0.438													122	444	---	---	---	---	PASS	C	53269448	C	C	53269448	3	2	14	1	0	0	0	0	1	0	0	0	18027	1522	53	5	611	5	ZNF600	19	53269448	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	1637697	53269448	5859535	317	8116										
ZNF320	162967	broad.mit.edu	37	chr19	53383958	53383958	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcagactaaagaccttgccaCactgatgacatttgtaagat	7	9	1	5			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:53383958C>A	uc002qag.2	-	4	1612	c.1421G>T	c.(1420-1422)TGT>TTT	p.C474F	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.C420F|ZNF320_uc002qai.2_Missense_Mutation_p.C474F	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	474	C2H2-type 12; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		GACCTTGCCACACTGATGACA	0.403													69	100	---	---	---	---	PASS	A	53383958	A	A	53383958	3	1	14	1	0	0	0	0	1	0	0	0	17836	478	17	3	112	3	ZNF320	19	53383958	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	114510	53383958	5745025	318	8117										
LILRB2	10288	broad.mit.edu	37	chr19	54783874	54783874	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acaactgagggtgacgggacTcccctgggtgatcacagagt	14	10	1	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:54783874T>A	uc002qfb.2	-	4	393	c.127A>T	c.(127-129)AGT>TGT	p.S43C	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Missense_Mutation_p.S43C|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Missense_Mutation_p.S43C|LILRB2_uc010yet.1_Intron|LILRB2_uc010yeu.1_RNA	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	43	Extracellular (Potential).|Ig-like C2-type 1.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GTGACGGGACTCCCCTGGGTG	0.532													186	217	---	---	---	---	PASS	A	54783874	A	A	54783874	3	1	14	1	0	0	0	0	1	0	0	0	8791	1551	54	5	1713	5	LILRB2	19	54783874	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	1399916	54783874	4345109	319	8118										
LILRA3	11026	broad.mit.edu	37	chr19	54802503	54802503	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctgtgatcaggatgtccaggGggtcgctgggggccgaccac	17	11	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:54802503G>T	uc002qfd.2	-	5	1003	c.938C>A	c.(937-939)CCC>CAC	p.P313H	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Missense_Mutation_p.P249H	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	313	Ig-like C2-type 3.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GATGTCCAGGGGGTCGCTGGG	0.677													53	73	---	---	---	---	PASS	T	54802503	T	T	54802503	3	4	14	1	0	0	0	0	1	0	0	0	8786	1232	43	3	393	3	LILRA3	19	54802503	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	18629	54802503	4326480	320	8119										
LAIR2	3904	broad.mit.edu	37	chr19	55019216	55019216	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gggttcaaacattccgcctgGagagggaggatagagccaag	15	8	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:55019216G>T	uc002qgc.2	+	3	303	c.181G>T	c.(181-183)GAG>TAG	p.E61*	LAIR2_uc002qga.1_RNA|LAIR2_uc002qgb.1_RNA|LAIR2_uc002qgd.2_Nonsense_Mutation_p.E61*|LAIR2_uc010erl.2_Nonsense_Mutation_p.E61*	NM_002288	NP_002279	Q6ISS4	LAIR2_HUMAN	leukocyte-associated immunoglobulin-like	61	Ig-like C2-type.					extracellular region	receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0967)		ATTCCGCCTGGAGAGGGAGGA	0.537													60	198	---	---	---	---	PASS	T	55019216	T	T	55019216	4	4	14	1	0	0	0	0	0	1	0	0	8603	1175	41	2	191	2	LAIR2	19	55019216	Nonsense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	216713	55019216	4109767	321	8120										
LILRA1	11024	broad.mit.edu	37	chr19	55106657	55106657	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	attgtgtctcacaggtggcaTttggcagcttcattctgtgt	11	8	3	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr19:55106657T>C	uc002qgh.1	+	5	633	c.451T>C	c.(451-453)TTT>CTT	p.F151L	LILRA2_uc010yfg.1_Intron|LILRA1_uc010yfh.1_Missense_Mutation_p.F151L	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	151	Ig-like C2-type 2.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		ACAGGTGGCATTTGGCAGCTT	0.557													151	173	---	---	---	---	PASS	C	55106657	C	C	55106657	3	2	14	1	0	0	0	0	1	0	0	0	8784	1493	52	5	465	5	LILRA1	19	55106657	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	87441	55106657	4022326	322	8121										
C20orf54	113278	broad.mit.edu	37	chr20	746113	746113	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aagaaggcgatgctgtggtgGccgtccagcacccaggaggt	16	10	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:746113G>A	uc002wed.3	-	2	645	c.306C>T	c.(304-306)GGC>GGT	p.G102G	C20orf54_uc002wee.2_Silent_p.G102G	NM_033409	NP_212134	Q9NQ40	RFT2_HUMAN	hypothetical protein LOC113278 precursor	102	Helical; (Potential).				sensory perception of sound	integral to plasma membrane	riboflavin transporter activity			ovary(2)	2						TGCTGTGGTGGCCGTCCAGCA	0.592													6	31	---	---	---	---	PASS	A	746113	A	A	746113	2	1	14	1	0	0	0	0	0	0	0	1	2114	1190	42	3		3	C20orf54	20	746113	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08		746113	62279407	323	8122										
CHGB	1114	broad.mit.edu	37	chr20	5903529	5903529	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gagaggagacagggagccagGagaatcacccccaggagtct	15	10	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:5903529G>T	uc002wmg.2	+	4	1045	c.739G>T	c.(739-741)GAG>TAG	p.E247*	CHGB_uc010zqz.1_5'UTR	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	247						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						AGGGAGCCAGGAGAATCACCC	0.567													15	54	---	---	---	---	PASS	T	5903529	T	T	5903529	4	4	14	1	0	0	0	0	0	1	0	0	3339	1175	41	2	753	2	CHGB	20	5903529	Nonsense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	5157416	5903529	57121991	324	8123										
ISM1	140862	broad.mit.edu	37	chr20	13280083	13280083	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	acgaggactacatcaagcagTtccaagaggccagggaatat	11	9	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:13280083T>C	uc010gce.1	+	6	1378	c.1372T>C	c.(1372-1374)TTC>CTC	p.F458L	TASP1_uc010zri.1_Intron	NM_080826	NP_543016	B1AKI9	ISM1_HUMAN	isthmin 1 homolog precursor	458						extracellular region					0						CATCAAGCAGTTCCAAGAGGC	0.582													80	85	---	---	---	---	PASS	C	13280083	C	C	13280083	3	2	14	1	0	0	0	0	1	0	0	0	7860	1725	60	5	1394	5	ISM1	20	13280083	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	7376554	13280083	49745437	325	8124										
ESF1	51575	broad.mit.edu	37	chr20	13747527	13747527	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tttttaaacttcctgttgagCattgtaattctttcatgatc	5	7	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:13747527C>T	uc002woj.2	-	8	1671	c.1563G>A	c.(1561-1563)ATG>ATA	p.M521I	ESF1_uc002wok.1_Missense_Mutation_p.M521I	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	521					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						TCCTGTTGAGCATTGTAATTC	0.378													46	207	---	---	---	---	PASS	T	13747527	T	T	13747527	3	4	14	1	0	0	0	0	1	0	0	0	5251	710	25	3	1020	3	ESF1	20	13747527	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	467444	13747527	49277993	326	8125										
NINL	22981	broad.mit.edu	37	chr20	25439107	25439107	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cacggtcctggggcaccagcCggacctcctgcaagtgctgg	14	15	0	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:25439107C>T	uc002wux.1	-	22	3829	c.3755G>A	c.(3754-3756)CGG>CAG	p.R1252Q	NINL_uc010gdn.1_Missense_Mutation_p.R903Q|NINL_uc002wuw.1_Missense_Mutation_p.R43Q	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1252	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						GGGCACCAGCCGGACCTCCTG	0.677													17	48	---	---	---	---	PASS	T	25439107	T	T	25439107	3	4	14	1	0	0	0	0	1	0	0	0	10420	652	23	1	405	1	NINL	20	25439107	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	11691580	25439107	37586413	327	8126										
MYLK2	85366	broad.mit.edu	37	chr20	30409369	30409369	+	Missense_Mutation	SNP	G	C	C													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aagaaggaaagaacatcctgGcagagagccagaaggaagtg							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:30409369G>C	uc002wwq.2	+	4	703	c.601G>C	c.(601-603)GCA>CCA	p.A201P		NM_033118	NP_149109	Q9H1R3	MYLK2_HUMAN	skeletal myosin light chain kinase	201					cardiac muscle tissue morphogenesis|regulation of muscle filament sliding		ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			lung(2)|skin(2)|ovary(1)|central_nervous_system(1)	6			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			GAACATCCTGGCAGAGAGCCA	0.602													47	153	---	---	---	---	PASS	C	30409369	C	C	30409369	3	2	14	1	0	0	0	0	1	0	0	0	10057	1203	42	4	611	4	MYLK2	20	30409369	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	4970262	30409369	32616151	328	8127	240	2								
MYLK2	85366	broad.mit.edu	37	chr20	30409370	30409370	+	Missense_Mutation	SNP	C	T	T													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	agaaggaaagaacatcctggCagagagccagaaggaagtgg							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:30409370C>T	uc002wwq.2	+	4	704	c.602C>T	c.(601-603)GCA>GTA	p.A201V		NM_033118	NP_149109	Q9H1R3	MYLK2_HUMAN	skeletal myosin light chain kinase	201					cardiac muscle tissue morphogenesis|regulation of muscle filament sliding		ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			lung(2)|skin(2)|ovary(1)|central_nervous_system(1)	6			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			AACATCCTGGCAGAGAGCCAG	0.602													47	156	---	---	---	---	PASS	T	30409370	T	T	30409370	3	4	14	1	0	0	0	0	1	0	0	0	10057	710	25	3	612	3	MYLK2	20	30409370	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1	30409370	32616150	329	8128	240	2								
CDK5RAP1	51654	broad.mit.edu	37	chr20	31984835	31984835	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aatggtccccaccccagagaCctctgcacttggaggacaca	9	15	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:31984835C>A	uc010gek.2	-	2	160	c.36G>T	c.(34-36)AGG>AGT	p.R12S	CDK5RAP1_uc002wyy.2_Intron|CDK5RAP1_uc002wyz.2_Missense_Mutation_p.R12S|CDK5RAP1_uc002wza.2_Missense_Mutation_p.R12S|CDK5RAP1_uc010gel.2_Intron|CDK5RAP1_uc010gem.2_Missense_Mutation_p.R12S|CDK5RAP1_uc002wzc.1_Missense_Mutation_p.R12S|CDK5RAP1_uc010gen.2_Missense_Mutation_p.R12S	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	12					brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5						ACCCCAGAGACCTCTGCACTT	0.478													118	93	---	---	---	---	PASS	A	31984835	A	A	31984835	3	1	14	1	0	0	0	0	1	0	0	0	3145	506	18	3	1779	3	CDK5RAP1	20	31984835	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1575465	31984835	31040685	330	8129										
PXMP4	11264	broad.mit.edu	37	chr20	32302479	32302479	+	Splice_Site	SNP	C	A	A													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cccagtttgagggatgtgtaCctgccattccggaagagaaa							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:32302479C>A	uc002wzv.2	-	2	299	c.176_splice	c.e2+1	p.S59_splice	PXMP4_uc002wzw.2_Splice_Site_p.R59_splice|PXMP4_uc010zuh.1_Splice_Site_p.R59_splice	NM_007238	NP_009169	Q9Y6I8	PXMP4_HUMAN	peroxisomal membrane protein 4 isoform a							integral to membrane|membrane fraction|mitochondrial inner membrane|peroxisomal membrane	protein transporter activity				0						GGGATGTGTACCTGCCATTCC	0.522													91	241	---	---	---	---	PASS	A	32302479	A	A	32302479	5	1	14	1	0	0	0	0	0	0	1	0	12851	521	18	3	473	3	PXMP4	20	32302479	Splice_Site	SNP	C	TCGA-18-4083-01A-01D-1352-08	317644	32302479	30723041	331	8130	241	2								
PXMP4	11264	broad.mit.edu	37	chr20	32302480	32302480	+	Missense_Mutation	SNP	C	A	A													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ccagtttgagggatgtgtacCtgccattccggaagagaaag							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:32302480C>A	uc002wzv.2	-	2	299	c.176G>T	c.(175-177)AGC>ATC	p.S59I	PXMP4_uc002wzw.2_Missense_Mutation_p.R59I|PXMP4_uc010zuh.1_Missense_Mutation_p.R59M	NM_007238	NP_009169	Q9Y6I8	PXMP4_HUMAN	peroxisomal membrane protein 4 isoform a	59						integral to membrane|membrane fraction|mitochondrial inner membrane|peroxisomal membrane	protein transporter activity				0						GGATGTGTACCTGCCATTCCG	0.522													92	251	---	---	---	---	PASS	A	32302480	A	A	32302480	3	1	14	1	0	0	0	0	1	0	0	0	12851	695	24	3	474	3	PXMP4	20	32302480	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1	32302480	30723040	332	8131	241	2								
PTPRT	11122	broad.mit.edu	37	chr20	41385101	41385101	+	Splice_Site	SNP	C	A	A													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gcgcaggctggaggcactcaCctttcacgatcagctccgcg							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:41385101C>A	uc002xkg.2	-	6	1043	c.859_splice	c.e6+1	p.E287_splice	PTPRT_uc010ggj.2_Splice_Site_p.E287_splice	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GAGGCACTCACCTTTCACGAT	0.567													11	57	---	---	---	---	PASS	A	41385101	A	A	41385101	5	1	14	1	0	0	0	0	0	0	1	0	12812	521	18	3	3630	3	PTPRT	20	41385101	Splice_Site	SNP	C	TCGA-18-4083-01A-01D-1352-08	9082621	41385101	21640419	333	8132	242	2								
PTPRT	11122	broad.mit.edu	37	chr20	41385102	41385102	+	Nonsense_Mutation	SNP	C	A	A													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cgcaggctggaggcactcacCtttcacgatcagctccgcgt							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:41385102C>A	uc002xkg.2	-	6	1043	c.859G>T	c.(859-861)GAG>TAG	p.E287*	PTPRT_uc010ggj.2_Nonsense_Mutation_p.E287*	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	287	Extracellular (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				AGGCACTCACCTTTCACGATC	0.567													12	57	---	---	---	---	PASS	A	41385102	A	A	41385102	4	1	14	1	0	0	0	0	0	1	0	0	12812	695	24	3	3631	3	PTPRT	20	41385102	Nonsense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1	41385102	21640418	334	8133	242	2								
NFATC2	4773	broad.mit.edu	37	chr20	50139876	50139876	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gttcagggcatccatgatcaCggcagagccagccacagggg	14	12	2	2	rs61735418	by1000genomes	TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:50139876C>A	uc002xwd.2	-	2	1124	c.904G>T	c.(904-906)GTG>TTG	p.V302L	NFATC2_uc002xwc.2_Missense_Mutation_p.V302L|NFATC2_uc010zyv.1_Missense_Mutation_p.V83L|NFATC2_uc010zyw.1_Missense_Mutation_p.V83L|NFATC2_uc010zyx.1_Missense_Mutation_p.V282L|NFATC2_uc010zyy.1_Missense_Mutation_p.V83L|NFATC2_uc010zyz.1_Missense_Mutation_p.V83L|NFATC2_uc002xwe.2_Missense_Mutation_p.V282L	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	302					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					TCCATGATCACGGCAGAGCCA	0.701													8	15	---	---	---	---	PASS	A	50139876	A	A	50139876	3	1	14	1	0	0	0	0	1	0	0	0	10362	536	19	1	1957	1	NFATC2	20	50139876	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	8754774	50139876	12885644	335	8134										
BCAS1	8537	broad.mit.edu	37	chr20	52645090	52645090	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcaaaaaagctggagtccttGggcttggagggagcttctcc	13	9	2	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:52645090G>A	uc002xws.2	-	4	902	c.564C>T	c.(562-564)CCC>CCT	p.P188P	BCAS1_uc010zzb.1_Silent_p.P91P|BCAS1_uc010gim.2_Silent_p.P91P|BCAS1_uc002xwt.2_Silent_p.P188P|BCAS1_uc010gil.1_Silent_p.P188P|BCAS1_uc010zzc.1_Silent_p.P91P	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	188						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			TGGAGTCCTTGGGCTTGGAGG	0.592													198	296	---	---	---	---	PASS	A	52645090	A	A	52645090	2	1	14	1	0	0	0	0	0	0	0	1	1350	1335	47	3		3	BCAS1	20	52645090	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	2505214	52645090	10380430	336	8135										
OPRL1	4987	broad.mit.edu	37	chr20	62724080	62724080	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgcagggcagtggcatggagCccctcttccccgcgccgttc	13	16	1	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr20:62724080C>A	uc002yic.2	+	3	409	c.7C>A	c.(7-9)CCC>ACC	p.P3T	OPRL1_uc002yid.2_Missense_Mutation_p.P3T|OPRL1_uc002yif.3_Missense_Mutation_p.P3T	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	3	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					TGGCATGGAGCCCCTCTTCCC	0.637													97	68	---	---	---	---	PASS	A	62724080	A	A	62724080	3	1	14	1	0	0	0	0	1	0	0	0	10886	739	26	3	9	3	OPRL1	20	62724080	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	10078990	62724080	301440	337	8136										
ADAMTS5	11096	broad.mit.edu	37	chr21	28327120	28327120	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cttcaatcacagcacagctgCgctctggagaacatatggtc	9	12	3	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr21:28327120C>A	uc002ymg.2	-	2	1904	c.1175G>T	c.(1174-1176)CGC>CTC	p.R392L		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	392	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						AGCACAGCTGCGCTCTGGAGA	0.493													33	75	---	---	---	---	PASS	A	28327120	A	A	28327120	3	1	14	1	0	0	0	0	1	0	0	0	269	768	27	1	1645	1	ADAMTS5	21	28327120	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08		28327120	19802775	338	8137										
SON	6651	broad.mit.edu	37	chr21	34931601	34931601	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtgaataaacctcatgtttcGgatgaagaggaagaagaacc	11	6	1	5			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr21:34931601G>A	uc002yse.1	+	5	6436	c.6387G>A	c.(6385-6387)TCG>TCA	p.S2129S	SON_uc002ysc.2_Silent_p.S2129S|SON_uc002ysd.2_Silent_p.S1120S|SON_uc002ysf.1_Silent_p.S157S|SON_uc002ysg.2_Silent_p.S1120S	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	2129					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						CTCATGTTTCGGATGAAGAGG	0.313													66	123	---	---	---	---	PASS	A	34931601	A	A	34931601	2	1	14	1	0	0	0	0	0	0	0	1	14926	1103	39	1		1	SON	21	34931601	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	6604481	34931601	13198294	339	8138										
KRTAP10-7	386675	broad.mit.edu	37	chr21	46021444	46021444	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ttgctgcaccacctcctgctGcagaccctcctcctccgtgt	7	19	0	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr21:46021444G>T	uc002zfn.3	+	2	933	c.908G>T	c.(907-909)TGC>TTC	p.C303F	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198689	NP_941962	P60409	KR107_HUMAN	keratin associated protein 10-7	308	27.|30 X 5 AA repeats of C-C-X(3).					keratin filament					0						ACCTCCTGCTGCAGACCCTCC	0.672													129	48	---	---	---	---	PASS	T	46021444	T	T	46021444	3	4	14	1	0	0	0	0	1	0	0	0	8514	1319	46	3	914	3	KRTAP10-7	21	46021444	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	11089843	46021444	2108451	340	8139										
DIP2A	23181	broad.mit.edu	37	chr21	47971581	47971581	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcaatgatcgtggggaacctGgttgctgggaagagaatcgc	15	7	1	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr21:47971581G>T	uc002zjo.2	+	24	3057	c.2874G>T	c.(2872-2874)CTG>CTT	p.L958L	DIP2A_uc011afy.1_Silent_p.L894L|DIP2A_uc011afz.1_Silent_p.L954L	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	958					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		TGGGGAACCTGGTTGCTGGGA	0.552													30	54	---	---	---	---	PASS	T	47971581	T	T	47971581	2	4	14	1	0	0	0	0	0	0	0	1	4527	1335	47	3		3	DIP2A	21	47971581	Silent	SNP	G	TCGA-18-4083-01A-01D-1352-08	1950137	47971581	158314	341	8140										
CCT8L2	150160	broad.mit.edu	37	chr22	17072642	17072642	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tcctttactaaattgagctaGatcagcaggactagaaagac	8	8	1	4			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr22:17072642G>C	uc002zlp.1	-	1	1059	c.799C>G	c.(799-801)CTA>GTA	p.L267V		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	267					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				AATTGAGCTAGATCAGCAGGA	0.512													91	159	---	---	---	---	PASS	C	17072642	C	C	17072642	3	2	14	1	0	0	0	0	1	0	0	0	2961	933	33	2	878	2	CCT8L2	22	17072642	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08		17072642	34231924	342	8141										
IL17RA	23765	broad.mit.edu	37	chr22	17579730	17579730	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgaacaccaatgaacgtttgTgcgtcaggtttgagtttctg	11	7	2	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr22:17579730T>A	uc002zly.2	+	4	509	c.376T>A	c.(376-378)TGC>AGC	p.C126S	IL17RA_uc010gqt.2_Missense_Mutation_p.C126S	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	126	Extracellular (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		TGAACGTTTGTGCGTCAGGTT	0.507													27	78	---	---	---	---	PASS	A	17579730	A	A	17579730	3	1	14	1	0	0	0	0	1	0	0	0	7639	1696	59	5	390	5	IL17RA	22	17579730	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	507088	17579730	33724836	343	8142										
FAM19A5	25817	broad.mit.edu	37	chr22	49103557	49103557	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	atcaagaccaagcagtggtgTgacatgcttccgtgtctgga	12	9	2	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chr22:49103557T>A	uc003bim.3	+	3	408	c.291T>A	c.(289-291)TGT>TGA	p.C97*	FAM19A5_uc003bio.3_Nonsense_Mutation_p.C90*	NM_001082967	NP_001076436	Q7Z5A7	F19A5_HUMAN	family with sequence similarity 19 (chemokine	97						extracellular region|integral to membrane				large_intestine(1)	1		all_cancers(38;2.95e-11)|all_epithelial(38;3.07e-10)|all_lung(38;2.89e-05)|Breast(42;0.000396)|Lung NSC(38;0.000471)|Ovarian(80;0.00934)|Lung SC(80;0.195)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0227)|BRCA - Breast invasive adenocarcinoma(115;0.119)		AGCAGTGGTGTGACATGCTTC	0.572													29	62	---	---	---	---	PASS	A	49103557	A	A	49103557	4	1	14	1	0	0	0	0	0	1	0	0	5535	1702	59	5	396	5	FAM19A5	22	49103557	Nonsense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	31523827	49103557	2201009	344	8143										
NLGN4X	57502	broad.mit.edu	37	chrX	5821721	5821721	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	aggctatgtggtaggtggccGgggtgatggtctgctggatg	20	5	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:5821721G>T	uc010ndh.2	-	5	1499	c.998C>A	c.(997-999)CCG>CAG	p.P333Q	NLGN4X_uc004crp.2_Missense_Mutation_p.P353Q|NLGN4X_uc004crq.2_Missense_Mutation_p.P333Q|NLGN4X_uc010ndi.2_Missense_Mutation_p.P370Q|NLGN4X_uc004crr.2_Missense_Mutation_p.P333Q|NLGN4X_uc010ndj.2_Missense_Mutation_p.P333Q	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	333	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						GTAGGTGGCCGGGGTGATGGT	0.587													145	37	---	---	---	---	PASS	T	5821721	T	T	5821721	3	4	14	1	0	0	0	0	1	0	0	0	10464	1116	39	1	1460	1	NLGN4X	23	5821721	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08		5821721	149448839	345	8144										
HDHD1A	8226	broad.mit.edu	37	chrX	6995377	6995377	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cacaatgtgggaaaacaagcTgaagaactccttgtggcggc	12	9	0	2			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:6995377T>A	uc004crv.2	-	3	471	c.394A>T	c.(394-396)AGC>TGC	p.S132C	HDHD1A_uc011mhm.1_Missense_Mutation_p.S155C|HDHD1A_uc011mhn.1_Missense_Mutation_p.S89C|HDHD1A_uc010ndl.2_Intron|HDHD1A_uc011mho.1_Missense_Mutation_p.S132C	NM_012080	NP_036212	Q08623	HDHD1_HUMAN	haloacid dehalogenase-like hydrolase domain	132					nucleotide metabolic process		metal ion binding|phosphatase activity				0		Colorectal(8;0.0114)|Medulloblastoma(8;0.184)				GAAAACAAGCTGAAGAACTCC	0.572													14	2	---	---	---	---	PASS	A	6995377	A	A	6995377	3	1	14	1	0	0	0	0	1	0	0	0	7022	1580	55	5	421	5	HDHD1A	23	6995377	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	1173656	6995377	148275183	346	8145										
FTHL17	53940	broad.mit.edu	37	chrX	31089712	31089712	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cgcccttctccacggccagcTggtacagatccagcaggctc	10	17	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:31089712T>A	uc004dcl.1	-	1	462	c.359A>T	c.(358-360)CAG>CTG	p.Q120L		NM_031894	NP_114100	Q9BXU8	FHL17_HUMAN	ferritin, heavy polypeptide-like 17	120	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport		ferric iron binding|oxidoreductase activity				0						CACGGCCAGCTGGTACAGATC	0.617													111	29	---	---	---	---	PASS	A	31089712	A	A	31089712	3	1	14	1	0	0	0	0	1	0	0	0	6083	1580	55	5	196	5	FTHL17	23	31089712	Missense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	24094335	31089712	124180848	347	8146										
DMD	1756	broad.mit.edu	37	chrX	32583829	32583829	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tatcactaacctgtgctgtaCtcttttcaagtttttggact	6	9	3	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:32583829C>G	uc004dda.1	-	16	2226	c.1982G>C	c.(1981-1983)AGT>ACT	p.S661T	DMD_uc004dcz.2_Missense_Mutation_p.S538T|DMD_uc004dcy.1_Missense_Mutation_p.S657T|DMD_uc004ddb.1_Missense_Mutation_p.S653T|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.S653T	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	661	Spectrin 3.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTGTGCTGTACTCTTTTCAAG	0.388													103	39	---	---	---	---	PASS	G	32583829	G	G	32583829	3	3	14	1	0	0	0	0	1	0	0	0	4580	565	20	4	9574	4	DMD	23	32583829	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	1494117	32583829	122686731	348	8147										
CXorf22	170063	broad.mit.edu	37	chrX	35985769	35985769	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gatccgtaatcccacgggaaAgtttgtggtcaaagacttgg	12	8	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:35985769A>T	uc004ddj.2	+	10	1693	c.1634A>T	c.(1633-1635)AAG>ATG	p.K545M	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	545										large_intestine(1)|lung(1)|ovary(1)	3						CCCACGGGAAAGTTTGTGGTC	0.363													74	21	---	---	---	---	PASS	T	35985769	T	T	35985769	3	4	14	1	0	0	0	0	1	0	0	0	4102	72	3	5	1672	5	CXorf22	23	35985769	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	3401940	35985769	119284791	349	8148										
CASK	8573	broad.mit.edu	37	chrX	41495833	41495833	+	Nonsense_Mutation	SNP	T	A	A													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	ctgatttgtttaatttacctTtagtttcctccttgcattga							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:41495833T>A	uc004dfl.3	-	9	959	c.913A>T	c.(913-915)AAG>TAG	p.K305*	CASK_uc004dfk.3_Nonsense_Mutation_p.K120*|CASK_uc004dfm.3_Nonsense_Mutation_p.K305*|CASK_uc004dfn.3_Nonsense_Mutation_p.K305*	NM_003688	NP_003679	O14936	CSKP_HUMAN	calcium/calmodulin-dependent serine protein	305	Calmodulin-binding.				cell adhesion	actin cytoskeleton|cytoplasm|nucleus|plasma membrane	ATP binding|calmodulin binding|guanylate kinase activity|protein serine/threonine kinase activity			ovary(3)|lung(2)|stomach(1)	6						TAATTTACCTTTAGTTTCCTC	0.358													57	90	---	---	---	---	PASS	A	41495833	A	A	41495833	4	1	14	1	0	0	0	0	0	1	0	0	2665	1850	64	5	1943	5	CASK	23	41495833	Nonsense_Mutation	SNP	T	TCGA-18-4083-01A-01D-1352-08	5510064	41495833	113774727	350	8149	243	2								
CASK	8573	broad.mit.edu	37	chrX	41495834	41495834	+	Silent	SNP	T	G	G													0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgatttgtttaatttaccttTagtttcctccttgcattgaa							TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:41495834T>G	uc004dfl.3	-	9	958	c.912A>C	c.(910-912)CTA>CTC	p.L304L	CASK_uc004dfk.3_Silent_p.L119L|CASK_uc004dfm.3_Silent_p.L304L|CASK_uc004dfn.3_Silent_p.L304L	NM_003688	NP_003679	O14936	CSKP_HUMAN	calcium/calmodulin-dependent serine protein	304					cell adhesion	actin cytoskeleton|cytoplasm|nucleus|plasma membrane	ATP binding|calmodulin binding|guanylate kinase activity|protein serine/threonine kinase activity			ovary(3)|lung(2)|stomach(1)	6						AATTTACCTTTAGTTTCCTCC	0.358													59	90	---	---	---	---	PASS	G	41495834	G	G	41495834	2	3	14	1	0	0	0	0	0	0	0	1	2665	1741	61	5		5	CASK	23	41495834	Silent	SNP	T	TCGA-18-4083-01A-01D-1352-08	1	41495834	113774726	351	8150	243	2								
SUV39H1	6839	broad.mit.edu	37	chrX	48558930	48558930	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtcactgcacaagtttgcctAcaatgaccagggccaggtgc	11	12	1	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:48558930A>G	uc004dkn.2	+	3	659	c.614A>G	c.(613-615)TAC>TGC	p.Y205C	SUV39H1_uc011mmf.1_Missense_Mutation_p.Y216C|SUV39H1_uc011mmg.1_Intron	NM_003173	NP_003164	O43463	SUV91_HUMAN	suppressor of variegation 3-9 homolog 1	205	Pre-SET.				cell cycle|cell differentiation|chromatin silencing at rDNA|interspecies interaction between organisms|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|chromosome, centromeric region|condensed nuclear chromosome|rDNA heterochromatin	chromatin binding|histone methyltransferase activity (H3-K9 specific)|protein N-terminus binding|zinc ion binding				0						AAGTTTGCCTACAATGACCAG	0.642													55	17	---	---	---	---	PASS	G	48558930	G	G	48558930	3	3	14	1	0	0	0	0	1	0	0	0	15409	391	14	5	624	5	SUV39H1	23	48558930	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	7063096	48558930	106711630	352	8151										
BRWD3	254065	broad.mit.edu	37	chrX	80047436	80047436	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	caaaagcagacccattccatAgtgtactcttacagtctata	5	11	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:80047436A>T	uc004edt.2	-	6	610	c.347T>A	c.(346-348)CTA>CAA	p.L116Q	BRWD3_uc004edo.2_5'UTR|BRWD3_uc004edp.2_5'UTR|BRWD3_uc004edq.2_5'UTR|BRWD3_uc010nmj.1_5'UTR|BRWD3_uc004edr.2_Intron|BRWD3_uc004eds.2_5'UTR|BRWD3_uc004edu.2_Intron|BRWD3_uc004edv.2_5'UTR|BRWD3_uc004edw.2_5'UTR|BRWD3_uc004edx.2_5'UTR|BRWD3_uc004edy.2_5'UTR|BRWD3_uc004edz.2_5'UTR|BRWD3_uc004eea.2_5'UTR|BRWD3_uc004eeb.2_5'UTR	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	116	WD 1.									ovary(4)	4						CCCATTCCATAGTGTACTCTT	0.373													37	4	---	---	---	---	PASS	T	80047436	T	T	80047436	3	4	14	1	0	0	0	0	1	0	0	0	1526	420	15	5	5205	5	BRWD3	23	80047436	Missense_Mutation	SNP	A	TCGA-18-4083-01A-01D-1352-08	31488506	80047436	75223124	353	8152										
HDX	139324	broad.mit.edu	37	chrX	83724271	83724271	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	tgctacttgtctttggacagGaatgtgtaactgaaactcag	10	7	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:83724271G>A	uc004eek.1	-	3	569	c.460C>T	c.(460-462)CCT>TCT	p.P154S	HDX_uc011mqv.1_Missense_Mutation_p.P154S|HDX_uc004eel.1_Missense_Mutation_p.P96S	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	154						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						CTTTGGACAGGAATGTGTAAC	0.358													218	47	---	---	---	---	PASS	A	83724271	A	A	83724271	3	1	14	1	0	0	0	0	1	0	0	0	7026	1174	41	2	1644	2	HDX	23	83724271	Missense_Mutation	SNP	G	TCGA-18-4083-01A-01D-1352-08	3676835	83724271	71546289	354	8153										
SAGE1	55511	broad.mit.edu	37	chrX	134990721	134990721	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gtcttgtcaaatgttctatcCgggcttattaatatggcagg	10	7	3	0			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:134990721C>A	uc004ezh.2	+	12	1553	c.1386C>A	c.(1384-1386)TCC>TCA	p.S462S	SAGE1_uc010nry.1_Silent_p.S431S|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	462										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					ATGTTCTATCCGGGCTTATTA	0.403													132	41	---	---	---	---	PASS	A	134990721	A	A	134990721	2	1	14	1	0	0	0	0	0	0	0	1	13809	639	23	1		1	SAGE1	23	134990721	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	51266450	134990721	20279839	355	8154										
UBE2NL	389898	broad.mit.edu	37	chrX	142967238	142967238	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	cacaggatcatcaaggaaacCcagcgtttgctggcagagcc	11	12	2	1			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:142967238C>A	uc004fca.2	+	1	66	c.36C>A	c.(34-36)ACC>ACA	p.T12T		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	12							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					TCAAGGAAACCCAGCGTTTGC	0.468													9	29	---	---	---	---	PASS	A	142967238	A	A	142967238	2	1	14	1	0	0	0	0	0	0	0	1	16864	610	22	3		3	UBE2NL	23	142967238	Silent	SNP	C	TCGA-18-4083-01A-01D-1352-08	7976517	142967238	12303322	356	8155										
PNCK	139728	broad.mit.edu	37	chrX	152937080	152937080	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.10632183908046	37	0.00153891057027246	1.72024127255258	2.31281578462106	1.38424541519416	1	1	15	gagagtccaaagtcagagacCatgatcttcgagtcctcaaa	9	10	3	3			TCGA-18-4083-01A-01D-1352-08	TCGA-18-4083-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	0b87a82d-096c-4dd7-80c4-b4054fc1eba2	1548ab05-9fc4-4248-919f-0c409375ff14	g.chrX:152937080C>A	uc011myu.1	-	6	897	c.711G>T	c.(709-711)ATG>ATT	p.M237I	PNCK_uc011myt.1_Missense_Mutation_p.M171I|PNCK_uc004fia.2_Missense_Mutation_p.M166I|PNCK_uc004fhz.3_Missense_Mutation_p.M52I|PNCK_uc010nuh.2_3'UTR|PNCK_uc011myv.1_Missense_Mutation_p.M181I|PNCK_uc011myw.1_Missense_Mutation_p.M181I	NM_001039582	NP_001034671	Q6P2M8	KCC1B_HUMAN	pregnancy upregulated non-ubiquitously expressed	154	Protein kinase.					cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGTCAGAGACCATGATCTTCG	0.592													127	54	---	---	---	---	PASS	A	152937080	A	A	152937080	3	1	14	1	0	0	0	0	1	0	0	0	12145	594	21	3	593	3	PNCK	23	152937080	Missense_Mutation	SNP	C	TCGA-18-4083-01A-01D-1352-08	9969842	152937080	2333480	357	8156										
PTCHD2	57540	broad.mit.edu	37	chr1	11596393	11596393	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcccccaggacgcccgaacgCagcgccagtggcgtacgctg	14	17	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:11596393C>T	uc001ash.3	+	21	3967	c.3829C>T	c.(3829-3831)CAG>TAG	p.Q1277*		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1277	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CGCCCGAACGCAGCGCCAGTG	0.706													9	34	---	---	---	---	PASS	T	11596393	T	T	11596393	4	4	15	1	0	0	0	0	0	1	0	0	12733	711	25	3	3907	3	PTCHD2	1	11596393	Nonsense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08		11596393	237654228	1	8157										
PADI2	11240	broad.mit.edu	37	chr1	17422451	17422451	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	accatcccggtctgcgtccaCatccagggagatctctgggg	12	14	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:17422451C>G	uc001baf.2	-	4	446	c.364G>C	c.(364-366)GTG>CTG	p.V122L	PADI2_uc010ocm.1_Missense_Mutation_p.V122L|PADI2_uc001bag.1_Missense_Mutation_p.V122L	NM_007365	NP_031391	Q9Y2J8	PADI2_HUMAN	peptidyl arginine deiminase, type II	122					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(3)|pancreas(1)|central_nervous_system(1)|skin(1)	6		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000422)|Renal(390;0.000518)|all_lung(284;0.000546)|Ovarian(437;0.00671)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;1.49e-05)|COAD - Colon adenocarcinoma(227;1.54e-05)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)	L-Citrulline(DB00155)	TCTGCGTCCACATCCAGGGAG	0.607													41	99	---	---	---	---	PASS	G	17422451	G	G	17422451	3	3	15	1	0	0	0	0	1	0	0	0	11378	478	17	4	1685	4	PADI2	1	17422451	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	5826058	17422451	231828170	2	8158										
ACTL8	81569	broad.mit.edu	37	chr1	18152873	18152873	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gagctgatgggggatcacgtCtcctccaccaaggccacagt	12	13	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:18152873C>G	uc001bat.2	+	3	1176	c.960C>G	c.(958-960)GTC>GTG	p.V320V		NM_030812	NP_110439	Q9H568	ACTL8_HUMAN	actin-like 8	320						cytoplasm|cytoskeleton				ovary(4)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00186)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;6.43e-06)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.00652)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)		GGGATCACGTCTCCTCCACCA	0.597											OREG0013157	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	89	---	---	---	---	PASS	G	18152873	G	G	18152873	2	3	15	1	0	0	0	0	0	0	0	1	202	900	32	2		2	ACTL8	1	18152873	Silent	SNP	C	TCGA-18-4086-01A-01D-1352-08	730422	18152873	231097748	3	8159										
KIF17	57576	broad.mit.edu	37	chr1	20991137	20991137	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cgcttggccttggtgaaaggGatgtcgagggactcgaggcg	18	8	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:20991137G>A	uc001bdr.3	-	15	3148	c.3030C>T	c.(3028-3030)ATC>ATT	p.I1010I	KIF17_uc001bdp.3_Silent_p.I287I|KIF17_uc001bdq.3_Silent_p.I288I|KIF17_uc009vpx.2_Silent_p.I380I|KIF17_uc001bds.3_Silent_p.I1009I	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	1010					microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		TGGTGAAAGGGATGTCGAGGG	0.587													18	122	---	---	---	---	PASS	A	20991137	A	A	20991137	2	1	15	1	0	0	0	0	0	0	0	1	8279	1164	41	2		2	KIF17	1	20991137	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	2838264	20991137	228259484	4	8160										
MAP7D1	55700	broad.mit.edu	37	chr1	36644891	36644891	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ggagatcatgaagaggactcGgaagtcagaagtttctgaaa	13	5	3	5			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:36644891G>C	uc001bzz.2	+	13	2375	c.2159G>C	c.(2158-2160)CGG>CCG	p.R720P	MAP7D1_uc001caa.2_Missense_Mutation_p.R688P|MAP7D1_uc001cab.2_Missense_Mutation_p.R683P|MAP7D1_uc001cac.2_Missense_Mutation_p.R420P|MAP7D1_uc001cad.2_Missense_Mutation_p.R257P	NM_018067	NP_060537	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	720	Potential.					cytoplasm|spindle				ovary(3)|breast(2)	5		Myeloproliferative disorder(586;0.0393)				AAGAGGACTCGGAAGTCAGAA	0.587													14	25	---	---	---	---	PASS	C	36644891	C	C	36644891	3	2	15	1	0	0	0	0	1	0	0	0	9267	1116	39	4	2209	4	MAP7D1	1	36644891	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	15653754	36644891	212605730	5	8161										
NT5C1A	84618	broad.mit.edu	37	chr1	40124970	40124970	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agagggcccttgggcgctccAgcaaggaacaaggcttcatc	13	12	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:40124970A>T	uc001cdq.1	-	6	930	c.930T>A	c.(928-930)GCT>GCA	p.A310A		NM_032526	NP_115915	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	310					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1	Lung NSC(20;3.81e-06)|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;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TGGGCGCTCCAGCAAGGAACA	0.612													62	108	---	---	---	---	PASS	T	40124970	T	T	40124970	2	4	15	1	0	0	0	0	0	0	0	1	10685	175	7	5		5	NT5C1A	1	40124970	Silent	SNP	A	TCGA-18-4086-01A-01D-1352-08	3480079	40124970	209125651	6	8162										
CCDC30	728621	broad.mit.edu	37	chr1	43103011	43103011	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ataagagaattaaccaatttGaagatgaaattggaatcctg	8	4	0	4			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:43103011G>C	uc009vwk.1	+	11	1710	c.1600G>C	c.(1600-1602)GAA>CAA	p.E534Q	CCDC30_uc001chm.2_Missense_Mutation_p.E232Q|CCDC30_uc001chn.2_Missense_Mutation_p.E323Q	NM_001080850	NP_001074319	Q5VVM6	CCD30_HUMAN	coiled-coil domain containing 30	534	Potential.										0						TAACCAATTTGAAGATGAAAT	0.343													7	27	---	---	---	---	PASS	C	43103011	C	C	43103011	3	2	15	1	0	0	0	0	1	0	0	0	2805	1291	45	2	1638	2	CCDC30	1	43103011	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	2978041	43103011	206147610	7	8163										
AKR1A1	10327	broad.mit.edu	37	chr1	46027544	46027544	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ggtacctggaagagtgagccTggtcaggtgagggatggggg	21	5	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:46027544T>C	uc001cod.2	+	3	542	c.78T>C	c.(76-78)CCT>CCC	p.P26P	AKR1A1_uc009vxw.2_Silent_p.P26P|AKR1A1_uc001coe.2_Silent_p.P26P	NM_006066	NP_006057	P14550	AK1A1_HUMAN	aldo-keto reductase family 1, member A1	26					glucose metabolic process		alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					AGAGTGAGCCTGGTCAGGTGA	0.557													13	131	---	---	---	---	PASS	C	46027544	C	C	46027544	2	2	15	1	0	0	0	0	0	0	0	1	465	1567	55	5		5	AKR1A1	1	46027544	Silent	SNP	T	TCGA-18-4086-01A-01D-1352-08	2924533	46027544	203223077	8	8164										
IPP	3652	broad.mit.edu	37	chr1	46193388	46193388	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gaagacacagtggtccagtaCtggctaaaggtgtcaaaacg	12	8	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:46193388C>A	uc001cou.2	-	5	1230	c.963G>T	c.(961-963)CAG>CAT	p.Q321H	IPP_uc001cos.3_Missense_Mutation_p.Q321H	NM_005897	NP_005888	Q9Y573	IPP_HUMAN	intracisternal A particle-promoted polypeptide	321	Kelch 1.					actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TGGTCCAGTACTGGCTAAAGG	0.478													12	165	---	---	---	---	PASS	A	46193388	A	A	46193388	3	1	15	1	0	0	0	0	1	0	0	0	7800	564	20	3	913	3	IPP	1	46193388	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	165844	46193388	203057233	9	8165										
MTMR11	10903	broad.mit.edu	37	chr1	149905804	149905804	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cctgacctcactgtccagaaTtcggttagggacccagaagt	10	12	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:149905804T>C	uc001etl.3	-	8	966	c.715A>G	c.(715-717)ATT>GTT	p.I239V	MTMR11_uc001etm.1_Missense_Mutation_p.I167V|MTMR11_uc010pbm.1_Missense_Mutation_p.I211V|MTMR11_uc010pbn.1_Missense_Mutation_p.I81V	NM_001145862	NP_001139334	A4FU01	MTMRB_HUMAN	myotubularin related protein 11 isoform a	239	Myotubularin phosphatase.						phosphatase activity			central_nervous_system(1)	1	Breast(34;0.0009)|Ovarian(49;0.0377)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			CTGTCCAGAATTCGGTTAGGG	0.478													34	147	---	---	---	---	PASS	C	149905804	C	C	149905804	3	2	15	1	0	0	0	0	1	0	0	0	9940	1493	52	5	1493	5	MTMR11	1	149905804	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	103712416	149905804	99344817	10	8166										
MRPL9	65005	broad.mit.edu	37	chr1	151732617	151732617	+	Frame_Shift_Del	DEL	A	-	-													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tcttgggcttctcaaagttcAcgacagacataggcactctc							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:151732617delA	uc001eyv.2	-	7	798	c.713delT	c.(712-714)GTGfs	p.V238fs	MRPL9_uc009wmz.2_RNA	NM_031420	NP_113608	Q9BYD2	RM09_HUMAN	mitochondrial ribosomal protein L9 precursor	238					translation	mitochondrial ribosome	structural constituent of ribosome			ovary(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			CTCAAAGTTCACGACAGACAT	0.468													46	22	---	---	---	---		-	151732617	-	-	151732617	7	5	15	1	0	1	0	1	0	0	0	0	9820	159	6	0	94	0	MRPL9	1	151732617	Frame_Shift_Del	DEL	A	TCGA-18-4086-01A-01D-1352-08	1826813	151732617	97518004	11	8167										
FLG	2312	broad.mit.edu	37	chr1	152283961	152283961	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ttcgtccagtgctggtcctgGtccgcccatgggcagactca	12	14	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:152283961G>T	uc001ezu.1	-	3	3437	c.3401C>A	c.(3400-3402)ACC>AAC	p.T1134N	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1134	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTGGTCCTGGTCCGCCCATG	0.597									Ichthyosis				126	300	---	---	---	---	PASS	T	152283961	T	T	152283961	3	4	15	1	0	0	0	0	1	0	0	0	5922	1261	44	3	8788	3	FLG	1	152283961	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	551344	152283961	96966660	12	8168										
ETV3L	440695	broad.mit.edu	37	chr1	157068514	157068514	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ttacctcactctgcacacccAcgggcaccagcgctggccga	9	18	2	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:157068514A>T	uc001fqq.1	-	3	755	c.470T>A	c.(469-471)GTG>GAG	p.V157E		NM_001004341	NP_001004341	Q6ZN32	ETV3L_HUMAN	ets variant 3-like	157						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Hepatocellular(266;0.158)	Prostate(1639;0.184)				CTGCACACCCACGGGCACCAG	0.667													4	58	---	---	---	---	PASS	T	157068514	T	T	157068514	3	4	15	1	0	0	0	0	1	0	0	0	5280	159	6	5	627	5	ETV3L	1	157068514	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	4784553	157068514	92182107	13	8169										
KCNJ9	3765	broad.mit.edu	37	chr1	160054077	160054077	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gtggctgatcgcctacggccGcggcgacctggagcacctgg	16	14	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:160054077G>T	uc001fuy.1	+	2	499	c.257G>T	c.(256-258)CGC>CTC	p.R86L		NM_004983	NP_004974	Q92806	IRK9_HUMAN	potassium inwardly-rectifying channel subfamily	86	Extracellular (By similarity).				synaptic transmission	integral to membrane|plasma membrane	G-protein activated inward rectifier potassium channel activity|protein binding			ovary(1)|skin(1)	2	all_cancers(52;5.86e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GCCTACGGCCGCGGCGACCTG	0.657													16	20	---	---	---	---	PASS	T	160054077	T	T	160054077	3	4	15	1	0	0	0	0	1	0	0	0	8057	1087	38	1	259	1	KCNJ9	1	160054077	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	2985563	160054077	89196544	14	8170										
CD84	8832	broad.mit.edu	37	chr1	160523900	160523900	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	aggtgctgttcacagatgccAttaaactctgtgtaattttt	8	7	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:160523900A>T	uc001fwh.3	-	3	449	c.425T>A	c.(424-426)ATG>AAG	p.M142K	CD84_uc001fwf.3_Missense_Mutation_p.M142K|CD84_uc001fwg.3_Missense_Mutation_p.M142K|CD84_uc009wtn.2_Missense_Mutation_p.M142K|CD84_uc001fwi.3_Missense_Mutation_p.M28K|CD84_uc001fwj.2_Missense_Mutation_p.M142K|CD84_uc001fwk.2_Missense_Mutation_p.M142K	NM_003874	NP_003865	Q9UIB8	SLAF5_HUMAN	CD84 molecule	142	Extracellular (Potential).|Ig-like C2-type.				blood coagulation|defense response|homophilic cell adhesion|leukocyte migration	integral to plasma membrane	receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(52;3.62e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			CACAGATGCCATTAAACTCTG	0.363													25	49	---	---	---	---	PASS	T	160523900	T	T	160523900	3	4	15	1	0	0	0	0	1	0	0	0	3042	217	8	5	636	5	CD84	1	160523900	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	469823	160523900	88726721	15	8171										
DARS2	55157	broad.mit.edu	37	chr1	173806089	173806089	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ctttgaaagggtgccaaagaGtttttagtaccatccaggga	11	7	0	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:173806089G>C	uc001gjh.1	+	8	1085	c.675G>C	c.(673-675)GAG>GAC	p.E225D		NM_018122	NP_060592	Q6PI48	SYDM_HUMAN	aspartyl-tRNA synthetase 2, mitochondrial	225					tRNA aminoacylation for protein translation	mitochondrial matrix|nucleus	aspartate-tRNA ligase activity|ATP binding|nucleic acid binding			central_nervous_system(2)	2					L-Aspartic Acid(DB00128)	GTGCCAAAGAGTTTTTAGTAC	0.383													11	204	---	---	---	---	PASS	C	173806089	C	C	173806089	3	2	15	1	0	0	0	0	1	0	0	0	4242	1020	36	4	705	4	DARS2	1	173806089	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	13282189	173806089	75444532	16	8172										
RFWD2	64326	broad.mit.edu	37	chr1	176133017	176133017	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ctttgcttctgtttaagaatGagttcattcactgaaaacag	7	7	3	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:176133017G>T	uc001gku.1	-	4	832	c.576C>A	c.(574-576)CTC>CTA	p.L192L	RFWD2_uc001gkv.1_Silent_p.L192L|RFWD2_uc001gkw.1_Intron|RFWD2_uc009wwv.2_5'Flank|RFWD2_uc001gkt.1_Silent_p.L51L	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	192					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						GTTTAAGAATGAGTTCATTCA	0.284													6	9	---	---	---	---	PASS	T	176133017	T	T	176133017	2	4	15	1	0	0	0	0	0	0	0	1	13260	1277	45	2		2	RFWD2	1	176133017	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	2326928	176133017	73117604	17	8173										
ASPM	259266	broad.mit.edu	37	chr1	197072580	197072580	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	attgcttccttcctgcagtcCatgctctgaaattttgctgg	8	11	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:197072580C>A	uc001gtu.2	-	18	6058	c.5801G>T	c.(5800-5802)TGG>TTG	p.W1934L	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1934					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TCCTGCAGTCCATGCTCTGAA	0.428													40	159	---	---	---	---	PASS	A	197072580	A	A	197072580	3	1	15	1	0	0	0	0	1	0	0	0	1056	595	21	3	4676	3	ASPM	1	197072580	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	20939563	197072580	52178041	18	8174										
MYOG	4656	broad.mit.edu	37	chr1	203054778	203054778	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ttgagcagggtgcttctcttCagggcctcgaaggcctcatt	12	11	3	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:203054778C>T	uc001gzd.2	-	1	600	c.312G>A	c.(310-312)CTG>CTA	p.L104L		NM_002479	NP_002470	P15173	MYOG_HUMAN	myogenin	104	Helix-loop-helix motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			skin(2)	2						TGCTTCTCTTCAGGGCCTCGA	0.637													27	86	---	---	---	---	PASS	T	203054778	T	T	203054778	2	4	15	1	0	0	0	0	0	0	0	1	10090	813	29	2		2	MYOG	1	203054778	Silent	SNP	C	TCGA-18-4086-01A-01D-1352-08	5982198	203054778	46195843	19	8175										
RPS6KC1	26750	broad.mit.edu	37	chr1	213415152	213415152	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ggatcccaggatgttatttgTagcagctgttgatcatagta	11	6	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:213415152T>C	uc010ptr.1	+	11	2492	c.2333T>C	c.(2332-2334)GTA>GCA	p.V778A	RPS6KC1_uc001hkd.2_Missense_Mutation_p.V766A|RPS6KC1_uc010pts.1_Missense_Mutation_p.V566A|RPS6KC1_uc010ptt.1_Missense_Mutation_p.V566A|RPS6KC1_uc010ptu.1_Missense_Mutation_p.V597A|RPS6KC1_uc010ptv.1_Missense_Mutation_p.V313A|RPS6KC1_uc001hke.2_Missense_Mutation_p.V597A	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	778					cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		ATGTTATTTGTAGCAGCTGTT	0.448													30	114	---	---	---	---	PASS	C	213415152	C	C	213415152	3	2	15	1	0	0	0	0	1	0	0	0	13658	1638	57	5	2375	5	RPS6KC1	1	213415152	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	10360374	213415152	35835469	20	8176										
GPR137B	7107	broad.mit.edu	37	chr1	236347124	236347124	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tgctggatacgtattatttgGagtggtgttatttgtttggg	14	2	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:236347124G>C	uc001hxq.2	+	5	975	c.884G>C	c.(883-885)GGA>GCA	p.G295A	GPR137B_uc001hxr.1_Missense_Mutation_p.G77A|GPR137B_uc009xge.2_RNA	NM_003272	NP_003263	O60478	G137B_HUMAN	G protein-coupled receptor 137B	295	Helical; (Potential).					integral to plasma membrane|membrane fraction					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.197)|Prostate(94;0.219)|Acute lymphoblastic leukemia(190;0.226)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			GTATTATTTGGAGTGGTGTTA	0.393													12	36	---	---	---	---	PASS	C	236347124	C	C	236347124	3	2	15	1	0	0	0	0	1	0	0	0	6646	1174	41	2	902	2	GPR137B	1	236347124	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	22931972	236347124	12903497	21	8177										
RYR2	6262	broad.mit.edu	37	chr1	237780584	237780584	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tgtctttttaatggtctcttAgatgtgcctactgcttcagt	8	8	3	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:237780584A>C	uc001hyl.1	+	38	5836	c.5716_splice	c.e38-2	p.M1906_splice		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor						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)			ATGGTCTCTTAGATGTGCCTA	0.333													3	12	---	---	---	---	PASS	C	237780584	C	C	237780584	5	2	15	1	0	0	0	0	0	0	1	0	13769	434	15	5	5864	5	RYR2	1	237780584	Splice_Site	SNP	A	TCGA-18-4086-01A-01D-1352-08	1433460	237780584	11470037	22	8178										
OR2T8	343172	broad.mit.edu	37	chr1	248084490	248084490	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	caccggctccacacgcccatGtacttcctcctgagccaact	6	19	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:248084490G>T	uc010pzc.1	+	1	171	c.171G>T	c.(169-171)ATG>ATT	p.M57I		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			ACACGCCCATGTACTTCCTCC	0.522													9	157	---	---	---	---	PASS	T	248084490	T	T	248084490	3	4	15	1	0	0	0	0	1	0	0	0	11030	1377	48	3	173	3	OR2T8	1	248084490	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	10303906	248084490	1166131	23	8179										
OR2T12	127064	broad.mit.edu	37	chr1	248458710	248458710	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agttggctcaggaggaagtaCatgggcctgtggagccggtg	18	7	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr1:248458710C>A	uc010pzj.1	-	1	171	c.171G>T	c.(169-171)ATG>ATT	p.M57I		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			GGAGGAAGTACATGGGCCTGT	0.527													9	46	---	---	---	---	PASS	A	248458710	A	A	248458710	3	1	15	1	0	0	0	0	1	0	0	0	11019	478	17	3	794	3	OR2T12	1	248458710	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	374220	248458710	791911	24	8180										
DNMT3A	1788	broad.mit.edu	37	chr2	25467480	25467480	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	atggtgcagtaggactggtaGccgtcgtcgtcgtactggta	15	8	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:25467480G>A	uc002rgc.2	-	14	1853	c.1596C>T	c.(1594-1596)GGC>GGT	p.G532G	DNMT3A_uc002rgd.2_Silent_p.G532G|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Silent_p.G343G	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	532	Interaction with the PRC2/EED-EZH2 complex (By similarity).|ADD.				regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGGACTGGTAGCCGTCGTCGT	0.607			Mis|F|N|S		AML								25	61	---	---	---	---	PASS	A	25467480	A	A	25467480	2	1	15	1	0	0	0	0	0	0	0	1	4676	958	34	3		3	DNMT3A	2	25467480	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08		25467480	217731893	25	8181										
ALK	238	broad.mit.edu	37	chr2	29456502	29456502	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	atgcacgcttctgttcacacGgatttcttcttctatcacat	5	12	6	0	rs80227749		TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:29456502G>C	uc002rmy.2	-	14	3323	c.2416C>G	c.(2416-2418)CGT>GGT	p.R806G		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	806	Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	CTGTTCACACGGATTTCTTCT	0.483			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				33	96	---	---	---	---	PASS	C	29456502	C	C	29456502	3	2	15	1	0	0	0	0	1	0	0	0	525	1116	39	4	2510	4	ALK	2	29456502	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	3989022	29456502	213742871	26	8182										
SIX2	10736	broad.mit.edu	37	chr2	45235864	45235864	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gactcttttccttgaagcagTagctggtctcctcgccgtcc	9	14	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:45235864T>C	uc002ruo.2	-	1	679	c.386A>G	c.(385-387)TAC>TGC	p.Y129C	SIX2_uc002rup.2_Missense_Mutation_p.Y129C	NM_016932	NP_058628	Q9NPC8	SIX2_HUMAN	SIX homeobox 2	129	Homeobox.					nucleus	sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CTTGAAGCAGTAGCTGGTCTC	0.682													22	41	---	---	---	---	PASS	C	45235864	C	C	45235864	3	2	15	1	0	0	0	0	1	0	0	0	14347	1638	57	5	497	5	SIX2	2	45235864	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	15779362	45235864	197963509	27	8183										
SNRNP27	11017	broad.mit.edu	37	chr2	70123625	70123625	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tctcgactgaaagaaagaagAgatgaggaaaagaaagaaac	11	4	1	7			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:70123625A>G	uc002sfw.2	+	3	240	c.213A>G	c.(211-213)AGA>AGG	p.R71R	SNRNP27_uc002sfv.2_RNA|SNRNP27_uc002sfx.2_Silent_p.R71R	NM_006857	NP_006848	Q8WVK2	SNR27_HUMAN	small nuclear ribonucleoprotein 27kDa	71	Arg-rich.				mRNA processing|RNA splicing	nucleus	nucleic acid binding				0						aagaaagaagagatgaggaaa	0.279													14	39	---	---	---	---	PASS	G	70123625	G	G	70123625	2	3	15	1	0	0	0	0	0	0	0	1	14854	301	11	5		5	SNRNP27	2	70123625	Silent	SNP	A	TCGA-18-4086-01A-01D-1352-08	24887761	70123625	173075748	28	8184										
CTNNA2	1496	broad.mit.edu	37	chr2	79971515	79971515	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ttctcttttatatttaaggtGactacacttgtcaacacaag	5	8	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:79971515G>A	uc010ysh.1	+	2	110	c.105G>A	c.(103-105)GTG>GTA	p.V35V	CTNNA2_uc010yse.1_Silent_p.V35V|CTNNA2_uc010ysf.1_Silent_p.V35V|CTNNA2_uc010ysg.1_Silent_p.V35V	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	35					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TATTTAAGGTGACTACACTTG	0.368													9	36	---	---	---	---	PASS	A	79971515	A	A	79971515	2	1	15	1	0	0	0	0	0	0	0	1	4013	1277	45	2		2	CTNNA2	2	79971515	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	9847890	79971515	163227858	29	8185										
SLC9A2	6549	broad.mit.edu	37	chr2	103321024	103321024	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ctttatcctacaacagacacAgtctgacagccgacacaagt	6	13	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:103321024A>T	uc002tca.2	+	10	2009	c.1867A>T	c.(1867-1869)AGT>TGT	p.S623C		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	623	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						CAACAGACACAGTCTGACAGC	0.423													17	41	---	---	---	---	PASS	T	103321024	T	T	103321024	3	4	15	1	0	0	0	0	1	0	0	0	14712	188	7	5	1905	5	SLC9A2	2	103321024	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	23349509	103321024	139878349	30	8186										
MARCO	8685	broad.mit.edu	37	chr2	119739940	119739940	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ccaggacttccagggagcccCgggagtccaggagccacagg	15	14	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:119739940C>A	uc002tln.1	+	12	1149	c.1017C>A	c.(1015-1017)CCC>CCA	p.P339P	MARCO_uc010yyf.1_Silent_p.P261P	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	339	Collagen-like.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						CAGGGAGCCCCGGGAGTCCAG	0.587													38	127	---	---	---	---	PASS	A	119739940	A	A	119739940	2	1	15	1	0	0	0	0	0	0	0	1	9311	639	23	1		1	MARCO	2	119739940	Silent	SNP	C	TCGA-18-4086-01A-01D-1352-08	16418916	119739940	123459433	31	8187										
NCKAP5	344148	broad.mit.edu	37	chr2	133887640	133887640	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	accgcttctcgctttgaagaCgtaagtgtctctcctcttcc	7	14	3	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:133887640C>T	uc002ttp.2	-	6	625	c.251G>A	c.(250-252)CGT>CAT	p.R84H	NCKAP5_uc002ttq.2_Missense_Mutation_p.R84H|NCKAP5_uc002ttt.1_Missense_Mutation_p.R84H|NCKAP5_uc002tts.1_Missense_Mutation_p.R59H	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	84	Potential.						protein binding				0						GCTTTGAAGACGTAAGTGTCT	0.438													6	14	---	---	---	---	PASS	T	133887640	T	T	133887640	3	4	15	1	0	0	0	0	1	0	0	0	10223	536	19	1	5538	1	NCKAP5	2	133887640	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	14147700	133887640	109311733	32	8188										
LRP1B	53353	broad.mit.edu	37	chr2	141081545	141081545	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agtactctactgaaccatggCcaaatttttgaactcgaaat	6	9	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:141081545C>G	uc002tvj.1	-	81	13403	c.12431G>C	c.(12430-12432)GGC>GCC	p.G4144A		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4144	Extracellular (Potential).				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)		TGAACCATGGCCAAATTTTTG	0.289										TSP Lung(27;0.18)			6	32	---	---	---	---	PASS	G	141081545	G	G	141081545	3	3	15	1	0	0	0	0	1	0	0	0	8955	739	26	4	1412	4	LRP1B	2	141081545	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	7193905	141081545	102117828	33	8189										
XIRP2	129446	broad.mit.edu	37	chr2	168106733	168106733	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tggaaaaggtgccttaaataTagtggaattcttgagaaaac	10	4	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:168106733T>C	uc002udx.2	+	8	8849	c.8831T>C	c.(8830-8832)ATA>ACA	p.I2944T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.I2769T|XIRP2_uc010fpq.2_Missense_Mutation_p.I2722T|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.I290T	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2769	Potential.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GCCTTAAATATAGTGGAATTC	0.368													28	79	---	---	---	---	PASS	C	168106733	C	C	168106733	3	2	15	1	0	0	0	0	1	0	0	0	17427	1406	49	5	8861	5	XIRP2	2	168106733	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	27025188	168106733	75092640	34	8190			1	9		3	3	1365	N	T_G	3.667372e-05
XIRP2	129446	broad.mit.edu	37	chr2	168106746	168106746	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ttaaatatagtggaattcttGagaaaacgtgaagaactgca	9	4	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:168106746G>C	uc002udx.2	+	8	8862	c.8844G>C	c.(8842-8844)TTG>TTC	p.L2948F	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.L2773F|XIRP2_uc010fpq.2_Missense_Mutation_p.L2726F|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.L294F	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2773	Potential.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TGGAATTCTTGAGAAAACGTG	0.363													27	86	---	---	---	---	PASS	C	168106746	C	C	168106746	3	2	15	1	0	0	0	0	1	0	0	0	17427	1281	45	2	8874	2	XIRP2	2	168106746	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	13	168106746	75092627	35	8191			1	9		3	3	1365	N	T_G	3.667372e-05
XIRP2	129446	broad.mit.edu	37	chr2	168108097	168108097	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	aacatcctagagaactgcgaGaaaagattcctgttaagcag	9	8	0	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:168108097G>T	uc002udx.2	+	8	10213	c.10195G>T	c.(10195-10197)GAA>TAA	p.E3399*	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Nonsense_Mutation_p.E3224*|XIRP2_uc010fpq.2_Nonsense_Mutation_p.E3177*|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3224					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGAACTGCGAGAAAAGATTCC	0.398													40	75	---	---	---	---	PASS	T	168108097	T	T	168108097	4	4	15	1	0	0	0	0	0	1	0	0	17427	943	33	2	10225	2	XIRP2	2	168108097	Nonsense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	1351	168108097	75091276	36	8192			1	9		3	3	1365	N	T_G	3.667372e-05
COL5A2	1290	broad.mit.edu	37	chr2	189950500	189950500	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ctgtaggtcctgcaccacccTacagttgaaaacaaagtata	7	11	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:189950500T>C	uc002uqk.2	-	10	966	c.691_splice	c.e10-1	p.G231_splice	COL5A2_uc010frx.2_Splice_Site	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein						axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			TGCACCACCCTACAGTTGAAA	0.388													5	40	---	---	---	---	PASS	C	189950500	C	C	189950500	5	2	15	1	0	0	0	0	0	0	1	0	3697	1536	53	5	3990	5	COL5A2	2	189950500	Splice_Site	SNP	T	TCGA-18-4086-01A-01D-1352-08	21842403	189950500	53248873	37	8193										
PTPRN	5798	broad.mit.edu	37	chr2	220161727	220161727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agggcaggaagtcaggatgcCggttctttttgatgttgccc	14	8	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:220161727C>A	uc002vkz.2	-	15	2305	c.2216G>T	c.(2215-2217)CGG>CTG	p.R739L	PTPRN_uc010zlc.1_Missense_Mutation_p.R649L|PTPRN_uc002vla.2_Missense_Mutation_p.R710L|uc010zld.1_5'Flank|MIR153-1_hsa-mir-153-1|MI0000463_5'Flank	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	739	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		GTCAGGATGCCGGTTCTTTTT	0.647													46	108	---	---	---	---	PASS	A	220161727	A	A	220161727	3	1	15	1	0	0	0	0	1	0	0	0	12807	652	23	1	759	1	PTPRN	2	220161727	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	30211227	220161727	23037646	38	8194										
CHPF	79586	broad.mit.edu	37	chr2	220406629	220406629	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcctcggtgtaggtggtgtcAggcaccaggaagaaccagtc	15	10	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr2:220406629A>C	uc002vmc.3	-	2	824	c.597T>G	c.(595-597)CCT>CCG	p.P199P	CHPF_uc010zlh.1_Silent_p.P37P|CHPF_uc002vmd.3_Silent_p.P199P|TMEM198_uc002vme.2_5'Flank|TMEM198_uc002vmf.2_5'Flank	NM_024536	NP_078812	Q8IZ52	CHSS2_HUMAN	chondroitin polymerizing factor	199	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity|protein binding				0		Renal(207;0.0183)		Epithelial(149;3.02e-08)|all cancers(144;3.41e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		AGGTGGTGTCAGGCACCAGGA	0.677											OREG0015229	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	11	---	---	---	---	PASS	C	220406629	C	C	220406629	2	2	15	1	0	0	0	0	0	0	0	1	3368	175	7	5		5	CHPF	2	220406629	Silent	SNP	A	TCGA-18-4086-01A-01D-1352-08	244902	220406629	22792744	39	8195										
SUMF1	285362	broad.mit.edu	37	chr3	4494692	4494692	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tcctgctttatctgaggatcAtctgtgcccattgtaaatac	7	10	3	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr3:4494692A>G	uc003bpz.1	-	2	337	c.312T>C	c.(310-312)GAT>GAC	p.D104D	SUMF1_uc003bps.1_RNA|SUMF1_uc011ass.1_Silent_p.D104D|SUMF1_uc010hby.1_Silent_p.D104D|SUMF1_uc011ast.1_Silent_p.D104D	NM_182760	NP_877437	Q8NBK3	SUMF1_HUMAN	sulfatase modifying factor 1 isoform 1	104						endoplasmic reticulum lumen	metal ion binding|oxidoreductase activity			upper_aerodigestive_tract(1)	1		Melanoma(143;0.068)|Colorectal(144;0.233)		Epithelial(13;0.0147)|OV - Ovarian serous cystadenocarcinoma(96;0.0444)|all cancers(10;0.0549)		TCTGAGGATCATCTGTGCCCA	0.453													21	20	---	---	---	---	PASS	G	4494692	G	G	4494692	2	3	15	1	0	0	0	0	0	0	0	1	15382	214	8	5		5	SUMF1	3	4494692	Silent	SNP	A	TCGA-18-4086-01A-01D-1352-08		4494692	193527738	40	8196										
ATP2B2	491	broad.mit.edu	37	chr3	10442751	10442751	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gatgaagaggccgtcggcagGgaggaggtcacctggcaaga	18	8	1	3	rs141093862		TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr3:10442751G>C	uc003bvt.2	-	5	1106	c.667C>G	c.(667-669)CCT>GCT	p.P223A	ATP2B2_uc003bvv.2_Missense_Mutation_p.P223A|ATP2B2_uc003bvw.2_Missense_Mutation_p.P223A|ATP2B2_uc010hdp.2_Missense_Mutation_p.P223A|ATP2B2_uc010hdo.2_5'UTR	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	223	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CCGTCGGCAGGGAGGAGGTCA	0.577													19	26	---	---	---	---	PASS	C	10442751	C	C	10442751	3	2	15	1	0	0	0	0	1	0	0	0	1140	1232	43	4	3140	4	ATP2B2	3	10442751	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	5948059	10442751	187579679	41	8197										
CACNA2D3	55799	broad.mit.edu	37	chr3	54798301	54798301	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	aggagaatgtcatggaatacCttcacgtgcttagccggccc	11	11	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr3:54798301C>A	uc003dhf.2	+	13	1351	c.1303C>A	c.(1303-1305)CTT>ATT	p.L435I	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Missense_Mutation_p.L341I|CACNA2D3_uc003dhh.1_RNA|CACNA2D3_uc010hmv.1_Missense_Mutation_p.L169I	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	435	Extracellular (Potential).|VWFA.					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		CATGGAATACCTTCACGTGCT	0.512													57	57	---	---	---	---	PASS	A	54798301	A	A	54798301	3	1	15	1	0	0	0	0	1	0	0	0	2550	681	24	3	1353	3	CACNA2D3	3	54798301	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	44355550	54798301	143224129	42	8198										
POU1F1	5449	broad.mit.edu	37	chr3	87313626	87313626	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gaaatccatgactcaaggtgTggtcaggaaatttataaaga	10	5	2	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr3:87313626T>C	uc003dqq.1	-	3	376	c.251A>G	c.(250-252)CAC>CGC	p.H84R	POU1F1_uc010hoj.1_Missense_Mutation_p.H110R	NM_000306	NP_000297	P28069	PIT1_HUMAN	pituitary specific transcription factor 1	84					negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)|skin(1)	2	all_cancers(8;0.104)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00229)|Lung(72;0.00677)		ACTCAAGGTGTGGTCAGGAAA	0.398													21	20	---	---	---	---	PASS	C	87313626	C	C	87313626	3	2	15	1	0	0	0	0	1	0	0	0	12269	1696	59	5	640	5	POU1F1	3	87313626	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	32515325	87313626	110708804	43	8199										
COL8A1	1295	broad.mit.edu	37	chr3	99514450	99514450	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	caggccctccaggacctccaGgacccccagctgtgatgccc	10	19	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr3:99514450G>T	uc003dtg.1	+	5	1950	c.1705G>T	c.(1705-1707)GGA>TGA	p.G569*	COL8A1_uc003dth.1_Nonsense_Mutation_p.G569*|COL8A1_uc003dti.1_Nonsense_Mutation_p.G570*	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	569	Triple-helical region (COL1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						aggacctccaggacccccagC	0.507													22	51	---	---	---	---	PASS	T	99514450	T	T	99514450	4	4	15	1	0	0	0	0	0	1	0	0	3705	1001	35	3	1711	3	COL8A1	3	99514450	Nonsense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	12200824	99514450	98507980	44	8200										
ZPLD1	131368	broad.mit.edu	37	chr3	102175170	102175170	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tgggcttctttacaaatttaGttgtagttatccattggaat	8	5	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr3:102175170G>A	uc003dvs.1	+	11	1343	c.461G>A	c.(460-462)AGT>AAT	p.S154N	ZPLD1_uc003dvt.1_Missense_Mutation_p.S170N|ZPLD1_uc011bhg.1_Missense_Mutation_p.S154N	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	154	ZP.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						TACAAATTTAGTTGTAGTTAT	0.368													58	130	---	---	---	---	PASS	A	102175170	A	A	102175170	3	1	15	1	0	0	0	0	1	0	0	0	18218	1029	36	3	523	3	ZPLD1	3	102175170	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	2660720	102175170	95847260	45	8201										
MORC1	27136	broad.mit.edu	37	chr3	108682279	108682279	+	Silent	SNP	C	T	T													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	accagttggagtttctgcaaCaatagtgccagttttatacg							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr3:108682279C>T	uc003dxl.2	-	27	2868	c.2781G>A	c.(2779-2781)TTG>TTA	p.L927L	MORC1_uc011bhn.1_Silent_p.L906L	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	927	Potential.				cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						GTTTCTGCAACAATAGTGCCA	0.239													28	97	---	---	---	---	PASS	T	108682279	T	T	108682279	2	4	15	1	0	0	0	0	0	0	0	1	9701	477	17	3		3	MORC1	3	108682279	Silent	SNP	C	TCGA-18-4086-01A-01D-1352-08	6507109	108682279	89340151	46	8202	244	2								
MORC1	27136	broad.mit.edu	37	chr3	108682280	108682280	+	Nonsense_Mutation	SNP	A	T	T													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ccagttggagtttctgcaacAatagtgccagttttatacga							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr3:108682280A>T	uc003dxl.2	-	27	2867	c.2780T>A	c.(2779-2781)TTG>TAG	p.L927*	MORC1_uc011bhn.1_Nonsense_Mutation_p.L906*	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	927	Potential.				cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						TTTCTGCAACAATAGTGCCAG	0.239													28	96	---	---	---	---	PASS	T	108682280	T	T	108682280	4	4	15	1	0	0	0	0	0	1	0	0	9701	131	5	5	182	5	MORC1	3	108682280	Nonsense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	1	108682280	89340150	47	8203	244	2								
DTX3L	151636	broad.mit.edu	37	chr3	122284830	122284830	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agacctcaaatttcttcactGacacaatcacaagcagaaac	4	12	4	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr3:122284830G>C	uc003efk.2	+	2	401	c.312G>C	c.(310-312)CTG>CTC	p.L104L	DTX3L_uc010hrj.2_Silent_p.L104L|PARP9_uc003eff.3_5'Flank|PARP9_uc010hri.2_5'Flank|PARP9_uc011bjs.1_5'Flank|PARP9_uc003efg.2_5'Flank|PARP9_uc003efi.2_5'Flank|PARP9_uc003efh.2_5'Flank|PARP9_uc003efj.2_5'Flank	NM_138287	NP_612144	Q8TDB6	DTX3L_HUMAN	deltex 3-like	104					histone monoubiquitination|response to DNA damage stimulus	cytoplasm|nucleus	histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)	4				GBM - Glioblastoma multiforme(114;0.0459)		TTTCTTCACTGACACAATCAC	0.408													30	96	---	---	---	---	PASS	C	122284830	C	C	122284830	2	2	15	1	0	0	0	0	0	0	0	1	4796	1277	45	2		2	DTX3L	3	122284830	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	13602550	122284830	75737600	48	8204										
TTC14	151613	broad.mit.edu	37	chr3	180328230	180328230	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	actaagtagcaaagaacactCagaaagcagtgttaagaaaa	8	6	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr3:180328230C>G	uc003fkk.2	+	12	2345	c.2213C>G	c.(2212-2214)TCA>TGA	p.S738*	TTC14_uc003fkl.2_3'UTR|TTC14_uc003fkm.2_Intron	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	738							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AAAGAACACTCAGAAAGCAGT	0.299													16	91	---	---	---	---	PASS	G	180328230	G	G	180328230	4	3	15	1	0	0	0	0	0	1	0	0	16678	838	29	2	2289	2	TTC14	3	180328230	Nonsense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	58043400	180328230	17694200	49	8205										
DLG1	1739	broad.mit.edu	37	chr3	196863538	196863538	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tccaacacctccagcaatgcTaaacccaagacctgtttgga	6	14	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr3:196863538T>C	uc003fxo.3	-	11	1184	c.994A>G	c.(994-996)AGC>GGC	p.S332G	DLG1_uc011bub.1_Missense_Mutation_p.S216G|DLG1_uc011buc.1_Missense_Mutation_p.S216G|DLG1_uc011bud.1_Missense_Mutation_p.S15G|DLG1_uc003fxn.3_Missense_Mutation_p.S332G|DLG1_uc011bue.1_Missense_Mutation_p.S299G|DLG1_uc010ial.2_Missense_Mutation_p.S332G|DLG1_uc011buf.1_RNA|DLG1_uc003fxp.2_RNA|DLG1_uc010iam.1_Missense_Mutation_p.S299G|DLG1_uc010ian.2_Missense_Mutation_p.S199G	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	332	PDZ 2.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		CCAGCAATGCTAAACCCAAGA	0.383													66	129	---	---	---	---	PASS	C	196863538	C	C	196863538	3	2	15	1	0	0	0	0	1	0	0	0	4554	1522	53	5	1888	5	DLG1	3	196863538	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	16535308	196863538	1158892	50	8206										
GAK	2580	broad.mit.edu	37	chr4	905528	905528	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gactcctcttttcctatagaCgctgcagaacaaaactggac	7	12	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr4:905528C>G	uc003gbm.3	-	4	514	c.315G>C	c.(313-315)GCG>GCC	p.A105A	GAK_uc003gbn.3_Intron|GAK_uc010ibk.1_Intron|GAK_uc003gbo.2_RNA|GAK_uc003gbl.3_5'UTR	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	105	Protein kinase.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		TTCCTATAGACGCTGCAGAAC	0.502													31	56	---	---	---	---	PASS	G	905528	G	G	905528	2	3	15	1	0	0	0	0	0	0	0	1	6195	523	19	4		4	GAK	4	905528	Silent	SNP	C	TCGA-18-4086-01A-01D-1352-08		905528	190248748	51	8207										
ZNF518B	85460	broad.mit.edu	37	chr4	10447122	10447122	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tattcctttggttcaggtaaCaacatgatattgtgcatttt	7	6	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr4:10447122C>A	uc003gmn.2	-	3	1318	c.831G>T	c.(829-831)TTG>TTT	p.L277F		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	277					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						GTTCAGGTAACAACATGATAT	0.363													50	211	---	---	---	---	PASS	A	10447122	A	A	10447122	3	1	15	1	0	0	0	0	1	0	0	0	17960	477	17	3	2397	3	ZNF518B	4	10447122	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	9541594	10447122	180707154	52	8208										
PACRGL	133015	broad.mit.edu	37	chr4	20711361	20711361	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gggaatgtcctcctgaaagtCtttcatttgatccacttctt	7	10	3	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr4:20711361C>G	uc010iek.2	+	5	722	c.331C>G	c.(331-333)CTT>GTT	p.L111V	PACRGL_uc003gpu.2_RNA|PACRGL_uc010iei.1_Missense_Mutation_p.L159V|PACRGL_uc003gpz.2_Missense_Mutation_p.L111V|PACRGL_uc011bxm.1_Intron|PACRGL_uc003gqa.2_Intron|PACRGL_uc003gpx.3_RNA|PACRGL_uc003gpv.2_Missense_Mutation_p.L111V|PACRGL_uc003gpw.2_RNA|PACRGL_uc010iej.1_RNA|PACRGL_uc011bxn.1_Intron|PACRGL_uc003gpy.2_Intron	NM_145048	NP_659485	Q8N7B6	PACRL_HUMAN	PARK2 co-regulated-like isoform 1	111							binding				0						TCCTGAAAGTCTTTCATTTGA	0.289													5	44	---	---	---	---	PASS	G	20711361	G	G	20711361	3	3	15	1	0	0	0	0	1	0	0	0	11371	913	32	2	345	2	PACRGL	4	20711361	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	10264239	20711361	170442915	53	8209										
GBA3	57733	broad.mit.edu	37	chr4	22748917	22748917	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ggcactttctttttcctcctAggaattgattattacaacaa	5	9	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr4:22748917A>G	uc003gqp.3	+	3	378	c.287_splice	c.e3-2	p.G96_splice	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Splice_Site_p.G97_splice	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a						glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						TTTTCCTCCTAGGAATTGATT	0.323													25	74	---	---	---	---	PASS	G	22748917	G	G	22748917	5	3	15	1	0	0	0	0	0	0	1	0	6268	434	15	5	295	5	GBA3	4	22748917	Splice_Site	SNP	A	TCGA-18-4086-01A-01D-1352-08	2037556	22748917	168405359	54	8210										
CEP135	9662	broad.mit.edu	37	chr4	56875952	56875952	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cgtgagataaacagcctccgGcgccagcttgatgcagctca	11	13	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr4:56875952G>C	uc003hbi.2	+	19	2622	c.2388G>C	c.(2386-2388)CGG>CGC	p.R796R	CEP135_uc003hbj.2_Silent_p.R502R	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	796	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					ACAGCCTCCGGCGCCAGCTTG	0.398													21	40	---	---	---	---	PASS	C	56875952	C	C	56875952	2	2	15	1	0	0	0	0	0	0	0	1	3247	1190	42	4		4	CEP135	4	56875952	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	34127035	56875952	134278324	55	8211										
ANXA3	306	broad.mit.edu	37	chr4	79525538	79525538	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	aagcattatggctattccctAtattcagcaattaaagtaag	6	7	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr4:79525538A>G	uc003hld.2	+	12	1207	c.897A>G	c.(895-897)CTA>CTG	p.L299L	ANXA3_uc003hle.2_Silent_p.L260L|ANXA3_uc010ijk.2_Silent_p.L260L	NM_005139	NP_005130	P12429	ANXA3_HUMAN	annexin A3	299	Annexin 4.				defense response to bacterium|neutrophil degranulation|phagocytosis|positive regulation of angiogenesis|positive regulation of endothelial cell migration|positive regulation of sequence-specific DNA binding transcription factor activity	phagocytic vesicle membrane|plasma membrane|specific granule	calcium ion binding|calcium-dependent phospholipid binding|phospholipase A2 inhibitor activity				0						GCTATTCCCTATATTCAGCAA	0.338													16	43	---	---	---	---	PASS	G	79525538	G	G	79525538	2	3	15	1	0	0	0	0	0	0	0	1	719	436	16	5		5	ANXA3	4	79525538	Silent	SNP	A	TCGA-18-4086-01A-01D-1352-08	22649586	79525538	111628738	56	8212										
MEPE	56955	broad.mit.edu	37	chr4	88766213	88766213	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tatcatctaaagaaaatattGtccaggaaagaaagaaagat	7	4	2	4			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr4:88766213G>A	uc003hqy.2	+	4	232	c.193G>A	c.(193-195)GTC>ATC	p.V65I	MEPE_uc010ikn.2_5'UTR	NM_020203	NP_064588	Q9NQ76	MEPE_HUMAN	matrix, extracellular phosphoglycoprotein with	65					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			ovary(1)|lung(1)|skin(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000432)		AGAAAATATTGTCCAGGAAAG	0.313													10	56	---	---	---	---	PASS	A	88766213	A	A	88766213	3	1	15	1	0	0	0	0	1	0	0	0	9478	1377	48	3	203	3	MEPE	4	88766213	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	9240675	88766213	102388063	57	8213										
CENPE	1062	broad.mit.edu	37	chr4	104067180	104067180	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	atctttgggtttgaattgctCcatctcactcacgattttgg	8	9	3	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr4:104067180C>A	uc003hxb.1	-	30	4309	c.4219G>T	c.(4219-4221)GAG>TAG	p.E1407*	CENPE_uc003hxc.1_Nonsense_Mutation_p.E1382*	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	1407	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TTGAATTGCTCCATCTCACTC	0.348													19	81	---	---	---	---	PASS	A	104067180	A	A	104067180	4	1	15	1	0	0	0	0	0	1	0	0	3230	864	30	2	3966	2	CENPE	4	104067180	Nonsense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	15300967	104067180	87087096	58	8214										
NEUROG2	63973	broad.mit.edu	37	chr4	113436115	113436115	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cccgccgccgcccccgcagtGatccgccaggcgcagggtct	13	20	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr4:113436115G>C	uc003ias.2	-	2	844	c.517C>G	c.(517-519)CAC>GAC	p.H173D		NM_024019	NP_076924	Q9H2A3	NGN2_HUMAN	neurogenin 2	173					positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent	nucleus	E-box binding			skin(2)|central_nervous_system(1)	3		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.00168)		cccccgcAGTGATCCGCCAGG	0.552													3	23	---	---	---	---	PASS	C	113436115	C	C	113436115	3	2	15	1	0	0	0	0	1	0	0	0	10353	1290	45	2	305	2	NEUROG2	4	113436115	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	9368935	113436115	77718161	59	8215										
ANK2	287	broad.mit.edu	37	chr4	114269456	114269456	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cagagtcagatcaagaacagGaggaagaggtaattttatga	12	4	2	5			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr4:114269456G>C	uc003ibe.3	+	36	4496	c.4396G>C	c.(4396-4398)GAG>CAG	p.E1466Q	ANK2_uc003ibd.3_Missense_Mutation_p.E1457Q|ANK2_uc003ibf.3_Missense_Mutation_p.E1466Q|ANK2_uc011cgc.1_Missense_Mutation_p.E642Q|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Missense_Mutation_p.E140Q|ANK2_uc011cgb.1_Missense_Mutation_p.E1481Q	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1433					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TCAAGAACAGGAGGAAGAGGT	0.413													12	32	---	---	---	---	PASS	C	114269456	C	C	114269456	3	2	15	1	0	0	0	0	1	0	0	0	621	1175	41	2	4603	2	ANK2	4	114269456	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	833341	114269456	76884820	60	8216										
CLGN	1047	broad.mit.edu	37	chr4	141317098	141317098	+	Frame_Shift_Del	DEL	C	-	-													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	attaagaatctgaggtgcctCccattctccatccgtgtctt							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr4:141317098delC	uc011chi.1	-	11	1242	c.1024delG	c.(1024-1026)GAGfs	p.E342fs	CLGN_uc003iii.2_Frame_Shift_Del_p.E342fs	NM_001130675	NP_001124147	O14967	CLGN_HUMAN	calmegin precursor	342	Lumenal (Potential).|2-1.				protein folding	endoplasmic reticulum membrane|integral to membrane	calcium ion binding|unfolded protein binding			ovary(2)|skin(1)	3	all_hematologic(180;0.162)					TGAGGTGCCTCCCATTCTCCA	0.413													35	24	---	---	---	---		-	141317098	-	-	141317098	7	5	15	1	0	1	0	1	0	0	0	0	3524	864	30	0	832	0	CLGN	4	141317098	Frame_Shift_Del	DEL	C	TCGA-18-4086-01A-01D-1352-08	27047642	141317098	49837178	61	8217										
ANP32C	23520	broad.mit.edu	37	chr4	165118299	165118299	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ttcaccttcctcctcctcctCctcgccctcctcatcttcca	1	23	3	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr4:165118299C>G	uc011cjk.1	-	1	565	c.565G>C	c.(565-567)GAG>CAG	p.E189Q	MARCH1_uc003iqs.1_Intron	NM_012403	NP_036535	O43423	AN32C_HUMAN	acidic nuclear phosphoprotein 32C	189	Asp/Glu-rich (highly acidic).										0	all_hematologic(180;0.203)	Prostate(90;0.0138)|Melanoma(52;0.18)|all_neural(102;0.223)		KIRC - Kidney renal clear cell carcinoma(143;0.242)		tcctcctcctcctcgccctcc	0.219													12	11	---	---	---	---	PASS	G	165118299	G	G	165118299	3	3	15	1	0	0	0	0	1	0	0	0	707	864	30	2	142	2	ANP32C	4	165118299	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	23801201	165118299	26035977	62	8218										
CDH18	1016	broad.mit.edu	37	chr5	19473819	19473819	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tcagggtgataaaaagtaccAcaattgctgaggaagaatgg	12	5	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr5:19473819A>T	uc003jgc.2	-	12	2266	c.1889T>A	c.(1888-1890)GTG>GAG	p.V630E	CDH18_uc003jgd.2_Missense_Mutation_p.V630E|CDH18_uc011cnm.1_3'UTR	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	630	Helical; (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					AAAAAGTACCACAATTGCTGA	0.413													60	272	---	---	---	---	PASS	T	19473819	T	T	19473819	3	4	15	1	0	0	0	0	1	0	0	0	3103	159	6	5	487	5	CDH18	5	19473819	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08		19473819	161441441	63	8219										
FBXL17	64839	broad.mit.edu	37	chr5	107521909	107521909	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cacggtttcattatccagttCagtgatatgacgtaggtcca	9	9	2	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr5:107521909C>T	uc011cvc.1	-	6	2061	c.1654G>A	c.(1654-1656)GAA>AAA	p.E552K	FBXL17_uc003kon.3_Missense_Mutation_p.E154K	NM_001163315	NP_001156787	Q9UF56	FXL17_HUMAN	F-box and leucine-rich repeat protein 17	552											0		all_cancers(142;0.00273)|all_epithelial(76;0.000362)|Prostate(80;0.0115)|Myeloproliferative disorder(839;0.0393)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;9.63e-11)|Epithelial(69;4.02e-10)		TTATCCAGTTCAGTGATATGA	0.358													10	23	---	---	---	---	PASS	T	107521909	T	T	107521909	3	4	15	1	0	0	0	0	1	0	0	0	5713	835	29	2	467	2	FBXL17	5	107521909	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	88048090	107521909	73393351	64	8220										
KCNN2	3781	broad.mit.edu	37	chr5	113740225	113740225	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcttggaaatactggtgtgtGctattcatcccatacctggg	11	9	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr5:113740225G>T	uc003kqo.2	+	3	1130	c.673G>T	c.(673-675)GCT>TCT	p.A225S		NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	225	Helical; Name=Segment S3; (Potential).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		ACTGGTGTGTGCTATTCATCC	0.443													55	92	---	---	---	---	PASS	T	113740225	T	T	113740225	3	4	15	1	0	0	0	0	1	0	0	0	8079	1319	46	3	683	3	KCNN2	5	113740225	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	6218316	113740225	67175035	65	8221										
TIMD4	91937	broad.mit.edu	37	chr5	156346515	156346515	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ttcccttccatgctgcacgtCattgaggacatttttactat	6	11	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr5:156346515C>G	uc003lwh.2	-	9	1147	c.1090G>C	c.(1090-1092)GAC>CAC	p.D364H	TIMD4_uc010jii.2_Missense_Mutation_p.D336H|TIMD4_uc003lwg.2_Missense_Mutation_p.D66H	NM_138379	NP_612388	Q96H15	TIMD4_HUMAN	T-cell immunoglobulin and mucin domain	364	Cytoplasmic (Potential).					integral to membrane				ovary(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TGCTGCACGTCATTGAGGACA	0.433													30	39	---	---	---	---	PASS	G	156346515	G	G	156346515	3	3	15	1	0	0	0	0	1	0	0	0	15900	826	29	2	50	2	TIMD4	5	156346515	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	42606290	156346515	24568745	66	8222										
GPLD1	2822	broad.mit.edu	37	chr6	24448431	24448431	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gaaccaaagtagacatacacGgcaccctagataaggacaaa	8	10	0	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:24448431G>A	uc003ned.1	-	16	1563	c.1452C>T	c.(1450-1452)GCC>GCT	p.A484A	GPLD1_uc010jpr.1_Silent_p.A321A|GPLD1_uc010jps.1_Silent_p.A484A	NM_001503	NP_001494	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific	484	FG-GAP 2.					extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3						AGACATACACGGCACCCTAGA	0.433													4	52	---	---	---	---	PASS	A	24448431	A	A	24448431	2	1	15	1	0	0	0	0	0	0	0	1	6614	1103	39	1		1	GPLD1	6	24448431	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08		24448431	146666636	67	8223										
C6orf15	29113	broad.mit.edu	37	chr6	31079488	31079488	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gggcctccacctccccaggaCacactgggattcagggtacc	11	16	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:31079488C>A	uc003nsk.1	-	2	648	c.648G>T	c.(646-648)GTG>GTT	p.V216V		NM_014070	NP_054789	Q6UXA7	CF015_HUMAN	STG protein precursor	216											0						CTCCCCAGGACACACTGGGAT	0.607													14	41	---	---	---	---	PASS	A	31079488	A	A	31079488	2	1	15	1	0	0	0	0	0	0	0	1	2336	465	17	3		3	C6orf15	6	31079488	Silent	SNP	C	TCGA-18-4086-01A-01D-1352-08	6631057	31079488	140035579	68	8224										
LY6G6F	259215	broad.mit.edu	37	chr6	31675844	31675844	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gaggggctttctgagcccagGagccgaagaccaagaatcat	13	10	2	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:31675844G>C	uc003nwa.1	+	3	579	c.579G>C	c.(577-579)AGG>AGC	p.R193S	BAT5_uc011dnz.1_Intron|LY6G6F_uc003nwb.1_Missense_Mutation_p.R193S	NM_001003693	NP_001003693	Q5SQ64	LY66F_HUMAN	G6f protein precursor	193	Extracellular (Potential).					integral to membrane|plasma membrane				breast(1)|central_nervous_system(1)	2						CTGAGCCCAGGAGCCGAAGAC	0.582													23	106	---	---	---	---	PASS	C	31675844	C	C	31675844	3	2	15	1	0	0	0	0	1	0	0	0	9096	1165	41	2	589	2	LY6G6F	6	31675844	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	596356	31675844	139439223	69	8225										
TAP1	6890	broad.mit.edu	37	chr6	32821269	32821269	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gagcagtggcagcgcggtggGcaccagcagggagaatatgc	18	9	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:32821269G>C	uc003ocg.2	-	1	480	c.325C>G	c.(325-327)CCC>GCC	p.P109A	TAP1_uc011dqi.1_5'Flank|PSMB9_uc011dqj.1_5'Flank|PSMB9_uc003sga.2_5'Flank	NM_000593	NP_000584	Q03518	TAP1_HUMAN	transporter 1, ATP-binding cassette, sub-family	109	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|cytosol to ER transport|intracellular transport of viral proteins in host cell|positive regulation of T cell mediated cytotoxicity	cytosol|plasma membrane|TAP complex	ADP binding|ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding			skin(1)	1						AGCGCGGTGGGCACCAGCAGG	0.711													7	33	---	---	---	---	PASS	C	32821269	C	C	32821269	3	2	15	1	0	0	0	0	1	0	0	0	15547	1203	42	4	2145	4	TAP1	6	32821269	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	1145425	32821269	138293798	70	8226										
LRFN2	57497	broad.mit.edu	37	chr6	40360203	40360203	+	Frame_Shift_Del	DEL	G	-	-													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ggaagaggagtcactggcgcGggccaggctggcggtgaagt							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:40360203delG	uc003oph.1	-	3	2314	c.1849delC	c.(1849-1851)CGCfs	p.R617fs		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	617	Cytoplasmic (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					TCACTGGCGCGGGCCAGGCTG	0.756													4	2	---	---	---	---		-	40360203	-	-	40360203	7	5	15	1	0	1	0	1	0	0	0	0	8938	1116	39	0	524	0	LRFN2	6	40360203	Frame_Shift_Del	DEL	G	TCGA-18-4086-01A-01D-1352-08	7538934	40360203	130754864	71	8227										
GPR110	266977	broad.mit.edu	37	chr6	46977383	46977383	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cataaaatgagacttccaatGgagatacccagtcccacata	6	11	0	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:46977383G>A	uc003oyt.2	-	11	1987	c.1788C>T	c.(1786-1788)TCC>TCT	p.S596S	GPR110_uc011dwl.1_Silent_p.S284S	NM_153840	NP_722582	Q5T601	GP110_HUMAN	G-protein coupled receptor 110 isoform 1	596	Helical; Name=1; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|pancreas(1)	3						GACTTCCAATGGAGATACCCA	0.433													19	33	---	---	---	---	PASS	A	46977383	A	A	46977383	2	1	15	1	0	0	0	0	0	0	0	1	6627	1335	47	3		3	GPR110	6	46977383	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	6617180	46977383	124137684	72	8228										
PKHD1	5314	broad.mit.edu	37	chr6	51503653	51503653	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ctgtataaaattacctggagGagaagtgacagtaaaaataa	9	4	0	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:51503653G>A	uc003pah.1	-	64	11776	c.11500C>T	c.(11500-11502)CCT>TCT	p.P3834S		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3834	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TTACCTGGAGGAGAAGTGACA	0.368													30	114	---	---	---	---	PASS	A	51503653	A	A	51503653	3	1	15	1	0	0	0	0	1	0	0	0	11971	1174	41	2	740	2	PKHD1	6	51503653	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	4526270	51503653	119611414	73	8229										
NDUFAF4	29078	broad.mit.edu	37	chr6	97339162	97339162	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	aagtgtcaatgcttctacaaTggaaattttgcctttgggaa	9	6	2	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:97339162T>A	uc003pow.2	-	3	436	c.346A>T	c.(346-348)ATT>TTT	p.I116F	NDUFAF4_uc003pov.2_RNA	NM_014165	NP_054884	Q9P032	NDUF4_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	116					mitochondrial respiratory chain complex I assembly	mitochondrial membrane	calmodulin binding			ovary(1)	1						GCTTCTACAATGGAAATTTTG	0.373													15	36	---	---	---	---	PASS	A	97339162	A	A	97339162	3	1	15	1	0	0	0	0	1	0	0	0	10277	1464	51	5	185	5	NDUFAF4	6	97339162	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	45835509	97339162	73775905	74	8230										
AMD1	262	broad.mit.edu	37	chr6	111214269	111214269	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ccaccttgtttgttaatcagGtaattttatattttattatt	4	5	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:111214269G>A	uc003puk.1	+	8	1186	c.864_splice	c.e8+1	p.Q288_splice	AMD1_uc011eay.1_Splice_Site_p.Q219_splice|AMD1_uc011eaz.1_Splice_Site_p.Q259_splice|AMD1_uc011eba.1_Splice_Site_p.Q168_splice|AMD1_uc003pul.1_Splice_Site_p.Q140_splice	NM_001634	NP_001625	P17707	DCAM_HUMAN	adenosylmethionine decarboxylase 1 isoform 1						spermidine biosynthetic process|spermine biosynthetic process	cytosol	adenosylmethionine decarboxylase activity			upper_aerodigestive_tract(1)	1		all_cancers(87;3.83e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.0522)|Epithelial(106;0.111)|all cancers(137;0.143)	S-Adenosylmethionine(DB00118)	TGTTAATCAGGtaattttata	0.323													16	36	---	---	---	---	PASS	A	111214269	A	A	111214269	5	1	15	1	0	0	0	0	0	0	1	0	566	1275	44	3	895	3	AMD1	6	111214269	Splice_Site	SNP	G	TCGA-18-4086-01A-01D-1352-08	13875107	111214269	59900798	75	8231										
RFX6	222546	broad.mit.edu	37	chr6	117246638	117246638	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcgagtaaagctgctttcacTgcttctccgagttcatgctt	9	11	3	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:117246638T>A	uc003pxm.2	+	16	1764	c.1701T>A	c.(1699-1701)ACT>ACA	p.T567T		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	567					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						CTGCTTTCACTGCTTCTCCGA	0.418													40	108	---	---	---	---	PASS	A	117246638	A	A	117246638	2	1	15	1	0	0	0	0	0	0	0	1	13267	1567	55	5		5	RFX6	6	117246638	Silent	SNP	T	TCGA-18-4086-01A-01D-1352-08	6032369	117246638	53868429	76	8232										
LAMA2	3908	broad.mit.edu	37	chr6	129468139	129468139	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	aaggatatttcagttggaggGatgtgcatctgctatggtca	13	5	3	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:129468139G>C	uc003qbn.2	+	6	960	c.855G>C	c.(853-855)GGG>GGC	p.G285G	LAMA2_uc003qbo.2_Silent_p.G285G	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	285	Laminin N-terminal.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		CAGTTGGAGGGATGTGCATCT	0.433													60	148	---	---	---	---	PASS	C	129468139	C	C	129468139	2	2	15	1	0	0	0	0	0	0	0	1	8606	1161	41	2		2	LAMA2	6	129468139	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	12221501	129468139	41646928	77	8233										
SAMD3	154075	broad.mit.edu	37	chr6	130505655	130505655	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ttatcctcatgctgtgatccGggcacttctgctctgctaac	8	13	3	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:130505655G>C	uc003qbv.2	-	7	823	c.497C>G	c.(496-498)CCG>CGG	p.P166R	SAMD3_uc003qbx.2_Missense_Mutation_p.P166R|SAMD3_uc003qbw.2_Missense_Mutation_p.P166R|SAMD3_uc010kfg.1_Missense_Mutation_p.P166R|SAMD3_uc003qby.2_Missense_Mutation_p.P166R|SAMD3_uc003qbz.1_Missense_Mutation_p.P125R	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	166										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		GCTGTGATCCGGGCACTTCTG	0.458													21	55	---	---	---	---	PASS	C	130505655	C	C	130505655	3	2	15	1	0	0	0	0	1	0	0	0	13820	1116	39	4	1109	4	SAMD3	6	130505655	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	1037516	130505655	40609412	78	8234										
HIVEP2	3097	broad.mit.edu	37	chr6	143094043	143094043	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	atacccttcaacatcctgccAtggtgctcgacttccacgtg	7	15	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:143094043A>G	uc003qjd.2	-	5	2576	c.1833T>C	c.(1831-1833)CAT>CAC	p.H611H		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	611					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		ACATCCTGCCATGGTGCTCGA	0.542													81	115	---	---	---	---	PASS	G	143094043	G	G	143094043	2	3	15	1	0	0	0	0	0	0	0	1	7187	214	8	5		5	HIVEP2	6	143094043	Silent	SNP	A	TCGA-18-4086-01A-01D-1352-08	12588388	143094043	28021024	79	8235										
TAGAP	117289	broad.mit.edu	37	chr6	159462507	159462507	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ctgctctcctgaatatccctTccgttgaagggcctttaagg	9	12	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr6:159462507T>G	uc003qrz.2	-	6	688	c.356A>C	c.(355-357)GAA>GCA	p.E119A	TAGAP_uc011eft.1_Missense_Mutation_p.E56A|TAGAP_uc003qsa.2_5'UTR|TAGAP_uc003qsb.2_Missense_Mutation_p.E119A|uc003qsc.2_5'Flank	NM_054114	NP_473455	Q8N103	TAGAP_HUMAN	T-cell activation Rho GTPase-activating protein	119	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-16)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		GAATATCCCTTCCGTTGAAGG	0.498													11	41	---	---	---	---	PASS	G	159462507	G	G	159462507	3	3	15	1	0	0	0	0	1	0	0	0	15534	1783	62	5	1877	5	TAGAP	6	159462507	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	16368464	159462507	11652560	80	8236										
FERD3L	222894	broad.mit.edu	37	chr7	19184904	19184904	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tgcgaagtcgcagaggagagGgcgtctcggggaggccaggg	21	8	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr7:19184904G>T	uc003suo.1	-	1	141	c.82C>A	c.(82-84)CCT>ACT	p.P28T	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	28					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						CAGAGGAGAGGGCGTCTCGGG	0.642													27	62	---	---	---	---	PASS	T	19184904	T	T	19184904	3	4	15	1	0	0	0	0	1	0	0	0	5816	1232	43	3	422	3	FERD3L	7	19184904	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08		19184904	139953759	81	8237										
KBTBD2	25948	broad.mit.edu	37	chr7	32909450	32909450	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	aagctgcagctgaagcaaagGacctactagtctgtctcatg	10	10	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr7:32909450G>T	uc003tdb.2	-	4	2038	c.1379C>A	c.(1378-1380)TCC>TAC	p.S460Y	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	460	Kelch 3.										0			GBM - Glioblastoma multiforme(11;0.0499)			TGAAGCAAAGGACCTACTAGT	0.428													10	85	---	---	---	---	PASS	T	32909450	T	T	32909450	3	4	15	1	0	0	0	0	1	0	0	0	7993	1174	41	2	496	2	KBTBD2	7	32909450	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	13724546	32909450	126229213	82	8238										
HECW1	23072	broad.mit.edu	37	chr7	43484785	43484785	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcggggaccacagttgcgagGgctgtgacgcgtcctgctgc	17	12	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr7:43484785G>T	uc003tid.1	+	11	2619	c.2014G>T	c.(2014-2016)GGC>TGC	p.G672C	HECW1_uc011kbi.1_Missense_Mutation_p.G672C	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	672	Cys-rich.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CAGTTGCGAGGGCTGTGACGC	0.687													22	39	---	---	---	---	PASS	T	43484785	T	T	43484785	3	4	15	1	0	0	0	0	1	0	0	0	7042	1232	43	3	2048	3	HECW1	7	43484785	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	10575335	43484785	115653878	83	8239										
POM121L12	285877	broad.mit.edu	37	chr7	53103631	53103631	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	acccaggaccccgccaagccGcagcgggtggtctccgaggg	15	16	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr7:53103631G>A	uc003tpz.2	+	1	283	c.267G>A	c.(265-267)CCG>CCA	p.P89P		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	89											0						CCGCCAAGCCGCAGCGGGTGG	0.697													8	22	---	---	---	---	PASS	A	53103631	A	A	53103631	2	1	15	1	0	0	0	0	0	0	0	1	12241	1074	38	1		1	POM121L12	7	53103631	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	9618846	53103631	106035032	84	8240										
PCLO	27445	broad.mit.edu	37	chr7	82581908	82581908	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gtctcagtggccagagatacAggagtcactattgatgatgt	12	7	2	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr7:82581908A>T	uc003uhx.2	-	5	8650	c.8361T>A	c.(8359-8361)CCT>CCA	p.P2787P	PCLO_uc003uhv.2_Silent_p.P2787P|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2718					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CCAGAGATACAGGAGTCACTA	0.428													18	62	---	---	---	---	PASS	T	82581908	T	T	82581908	2	4	15	1	0	0	0	0	0	0	0	1	11583	175	7	5		5	PCLO	7	82581908	Silent	SNP	A	TCGA-18-4086-01A-01D-1352-08	29478277	82581908	76556755	85	8241										
CROT	54677	broad.mit.edu	37	chr7	87005150	87005150	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tccttgccctttaggcacgaGaatatctgattggtcttgat	9	9	2	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr7:87005150G>C	uc003uit.2	+	9	1002	c.757G>C	c.(757-759)GAA>CAA	p.E253Q	CROT_uc003uiu.2_Missense_Mutation_p.E281Q	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	253					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	TTAGGCACGAGAATATCTGAT	0.353													16	42	---	---	---	---	PASS	C	87005150	C	C	87005150	3	2	15	1	0	0	0	0	1	0	0	0	3894	943	33	2	871	2	CROT	7	87005150	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	4423242	87005150	72133513	86	8242										
ZNF804B	219578	broad.mit.edu	37	chr7	88964013	88964013	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	atactttcagtgcaaatgatTtggaaatgaaaaatcctaaa	6	5	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr7:88964013T>C	uc011khi.1	+	4	2255	c.1717T>C	c.(1717-1719)TTG>CTG	p.L573L		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	573						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TGCAAATGATTTGGAAATGAA	0.353										HNSCC(36;0.09)			19	29	---	---	---	---	PASS	C	88964013	C	C	88964013	2	2	15	1	0	0	0	0	0	0	0	1	18168	1838	64	5		5	ZNF804B	7	88964013	Silent	SNP	T	TCGA-18-4086-01A-01D-1352-08	1958863	88964013	70174650	87	8243										
RELN	5649	broad.mit.edu	37	chr7	103191531	103191531	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tacccacaaaggtgcagcttCccaaagtgcacgacctccct	7	16	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr7:103191531C>T	uc003vca.2	-	41	6445	c.6285G>A	c.(6283-6285)GGG>GGA	p.G2095G	RELN_uc010liz.2_Silent_p.G2095G	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2095					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		GGTGCAGCTTCCCAAAGTGCA	0.542													16	25	---	---	---	---	PASS	T	103191531	T	T	103191531	2	4	15	1	0	0	0	0	0	0	0	1	13220	842	30	2		2	RELN	7	103191531	Silent	SNP	C	TCGA-18-4086-01A-01D-1352-08	14227518	103191531	55947132	88	8244										
SLC26A4	5172	broad.mit.edu	37	chr7	107338519	107338519	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tggccttggaagcatccctaGcacagatatctacaaaagta	8	10	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr7:107338519G>T	uc003vep.2	+	14	1801	c.1577G>T	c.(1576-1578)AGC>ATC	p.S526I	SLC26A4_uc011kmb.1_Missense_Mutation_p.S113I|SLC26A4_uc011kmc.1_Missense_Mutation_p.S87I|SLC26A4_uc011kmd.1_Missense_Mutation_p.S95I	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	526	Cytoplasmic (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						AGCATCCCTAGCACAGATATC	0.378									Pendred_syndrome				7	50	---	---	---	---	PASS	T	107338519	T	T	107338519	3	4	15	1	0	0	0	0	1	0	0	0	14519	971	34	3	1627	3	SLC26A4	7	107338519	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	4146988	107338519	51800144	89	8245										
FEZF1	389549	broad.mit.edu	37	chr7	121943744	121943744	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cttggcattaggagagcctcGgctgaaatccgaggttttga	13	8	0	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr7:121943744G>A	uc003vkd.2	-	1	822	c.748C>T	c.(748-750)CGA>TGA	p.R250*	FEZF1_uc003vkc.2_Nonsense_Mutation_p.R200*|uc010lko.1_RNA|uc003vkf.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	250					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						GGAGAGCCTCGGCTGAAATCC	0.438													20	159	---	---	---	---	PASS	A	121943744	A	A	121943744	4	1	15	1	0	0	0	0	0	1	0	0	5825	1124	39	1	695	1	FEZF1	7	121943744	Nonsense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	14605225	121943744	37194919	90	8246										
ZNF425	155054	broad.mit.edu	37	chr7	148801944	148801944	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ccttcatgcccctcttcaggCggaagcaccggtcacactgc	9	17	4	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr7:148801944C>A	uc003wfj.2	-	4	1092	c.1019G>T	c.(1018-1020)CGC>CTC	p.R340L		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	340	C2H2-type 5.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			CCTCTTCAGGCGGAAGCACCG	0.662													15	48	---	---	---	---	PASS	A	148801944	A	A	148801944	3	1	15	1	0	0	0	0	1	0	0	0	17896	768	27	1	1243	1	ZNF425	7	148801944	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	26858200	148801944	10336719	91	8247										
ARHGEF10	9639	broad.mit.edu	37	chr8	1846692	1846692	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agttcatcctcctgctccagGtaagtgcttcacggagacct	9	13	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr8:1846692G>C	uc003wpr.2	+	15	1828	c.1650_splice	c.e15+1	p.Q550_splice	ARHGEF10_uc003wpq.1_Splice_Site_p.Q574_splice|ARHGEF10_uc003wps.2_Splice_Site_p.Q512_splice|ARHGEF10_uc003wpt.2_Splice_Site_p.Q426_splice|ARHGEF10_uc003wpv.2_Splice_Site_p.Q283_splice|ARHGEF10_uc010lre.2_Splice_Site_p.Q230_splice	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10						centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		CCTGCTCCAGGTAAGTGCTTC	0.572													9	22	---	---	---	---	PASS	C	1846692	C	C	1846692	5	2	15	1	0	0	0	0	0	0	1	0	894	1275	44	4	1705	4	ARHGEF10	8	1846692	Splice_Site	SNP	G	TCGA-18-4086-01A-01D-1352-08		1846692	144517330	92	8248										
TNKS	8658	broad.mit.edu	37	chr8	9623794	9623794	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tcataaagggtttgatgagcGacatgcatacataggaggaa	12	5	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr8:9623794G>A	uc003wss.2	+	25	3604	c.3599G>A	c.(3598-3600)CGA>CAA	p.R1200Q	TNKS_uc011kww.1_Missense_Mutation_p.R963Q	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1200	PARP catalytic.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		TTTGATGAGCGACATGCATAC	0.383													37	91	---	---	---	---	PASS	A	9623794	A	A	9623794	3	1	15	1	0	0	0	0	1	0	0	0	16316	1058	37	2	3697	2	TNKS	8	9623794	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	7777102	9623794	136740228	93	8249										
SLC18A1	6570	broad.mit.edu	37	chr8	20036923	20036923	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gggcatgtggggaacttccgGcatggccgaggtgcagagaa	18	8	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr8:20036923G>T	uc011kyq.1	-	4	668	c.197C>A	c.(196-198)GCC>GAC	p.A66D	SLC18A1_uc003wzm.2_Missense_Mutation_p.A66D|SLC18A1_uc011kyr.1_Missense_Mutation_p.A66D|SLC18A1_uc003wzn.2_Missense_Mutation_p.A66D|SLC18A1_uc010ltf.2_RNA|SLC18A1_uc003wzo.2_Missense_Mutation_p.A66D	NM_001135691	NP_001129163	P54219	VMAT1_HUMAN	solute carrier family 18 (vesicular monoamine),	66	Lumenal, vesicle (Potential).				neurotransmitter transport	clathrin sculpted monoamine transport vesicle membrane|integral to membrane|membrane fraction	drug transmembrane transporter activity|monoamine transmembrane transporter activity			ovary(2)	2				Colorectal(74;0.0747)		GGAACTTCCGGCATGGCCGAG	0.512													16	46	---	---	---	---	PASS	T	20036923	T	T	20036923	3	4	15	1	0	0	0	0	1	0	0	0	14425	1203	42	3	1436	3	SLC18A1	8	20036923	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	10413129	20036923	126327099	94	8250										
ELP3	55140	broad.mit.edu	37	chr8	27989839	27989839	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tgagtcatttcacctggccaAagattccggttttaaagtgg	10	8	2	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr8:27989839A>G	uc003xgo.3	+	9	972	c.824A>G	c.(823-825)AAA>AGA	p.K275R	ELP3_uc003xgn.3_Missense_Mutation_p.K260R|ELP3_uc011laq.1_Missense_Mutation_p.K203R|ELP3_uc011lar.1_Missense_Mutation_p.K183R|ELP3_uc011las.1_Missense_Mutation_p.K156R|ELP3_uc011lat.1_Missense_Mutation_p.K156R	NM_018091	NP_060561	Q9H9T3	ELP3_HUMAN	elongation protein 3 homolog	275					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	histone acetyltransferase activity|iron-sulfur cluster binding|metal ion binding|phosphorylase kinase regulator activity|protein binding				0		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.151)|Colorectal(74;0.183)		CACCTGGCCAAAGATTCCGGT	0.453													9	27	---	---	---	---	PASS	G	27989839	G	G	27989839	3	3	15	1	0	0	0	0	1	0	0	0	5081	14	1	5	858	5	ELP3	8	27989839	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	7952916	27989839	118374183	95	8251										
ADAM2	2515	broad.mit.edu	37	chr8	39602414	39602414	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	actctcactttcaggttgccTgcatattaaaaataaaaata	4	8	2	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr8:39602414T>A	uc003xnj.2	-	20	2250	c.2175_splice	c.e20-1	p.E725_splice	ADAM2_uc003xnk.2_Splice_Site_p.E706_splice|ADAM2_uc011lck.1_Splice_Site_p.E662_splice|ADAM2_uc003xnl.2_Splice_Site_p.E569_splice	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein						cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		TCAGGTTGCCTGCatattaaa	0.294													12	47	---	---	---	---	PASS	A	39602414	A	A	39602414	5	1	15	1	0	0	0	0	0	0	1	0	241	1594	55	5	38	5	ADAM2	8	39602414	Splice_Site	SNP	T	TCGA-18-4086-01A-01D-1352-08	11612575	39602414	106761608	96	8252										
C8orf22	492307	broad.mit.edu	37	chr8	49986797	49986797	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gaattttatttaatagggttGcctgaagtggcagaatccac	10	6	0	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr8:49986797G>C	uc003xqq.3	+	4	321	c.138G>C	c.(136-138)TTG>TTC	p.L46F		NM_001007176	NP_001007177	Q8WWR9	PDPFL_HUMAN	hypothetical protein LOC492307	46											0		all_cancers(86;0.0452)|all_epithelial(80;0.000863)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				TAATAGGGTTGCCTGAAGTGG	0.333													14	25	---	---	---	---	PASS	C	49986797	C	C	49986797	3	2	15	1	0	0	0	0	1	0	0	0	2419	1310	46	4	148	4	C8orf22	8	49986797	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	10384383	49986797	96377225	97	8253										
TERF1	7013	broad.mit.edu	37	chr8	73926132	73926132	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	actttttttcttttttagctAttattcatggactatccagt	4	7	2	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr8:73926132A>G	uc003xzd.2	+	2	347	c.322A>G	c.(322-324)ATT>GTT	p.I108V	TERF1_uc003xzc.2_RNA|TERF1_uc003xze.2_Missense_Mutation_p.I108V	NM_017489	NP_059523	P54274	TERF1_HUMAN	telomeric repeat binding factor 1 isoform 1	108	TRFH dimerization.				age-dependent telomere shortening|cell division|G2/M transition of mitotic cell cycle|induction of apoptosis|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of telomere maintenance via semi-conservative replication|negative regulation of telomere maintenance via telomerase|positive regulation of microtubule polymerization|positive regulation of mitosis|positive regulation of mitotic cell cycle|protein homooligomerization|regulation of transcription, DNA-dependent|telomere maintenance via telomerase|telomere maintenance via telomerase|telomere maintenance via telomere shortening	chromosome, telomeric region|cytoplasm|nuclear telomere cap complex|nucleoplasm|nucleus|spindle	caspase activator activity|DNA bending activity|double-stranded telomeric DNA binding|identical protein binding|microtubule binding|protein heterodimerization activity|protein homodimerization activity|telomerase inhibitor activity|telomeric DNA binding			ovary(1)|lung(1)|skin(1)	3	Breast(64;0.218)		Epithelial(68;0.0984)			TTTTTTAGCTATTATTCATGG	0.323													6	19	---	---	---	---	PASS	G	73926132	G	G	73926132	3	3	15	1	0	0	0	0	1	0	0	0	15758	449	16	5	328	5	TERF1	8	73926132	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	23939335	73926132	72437890	98	8254										
CNGB3	54714	broad.mit.edu	37	chr8	87591048	87591048	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gagggcaagatcttttcttgGaggggttgcttctgcggtct	15	7	4	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr8:87591048G>T	uc003ydx.2	-	17	2018	c.1972C>A	c.(1972-1974)CCA>ACA	p.P658T	CNGB3_uc010maj.2_Missense_Mutation_p.P515T	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	658	Cytoplasmic (Potential).|cGMP (By similarity).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						TCTTTTCTTGGAGGGGTTGCT	0.458													29	78	---	---	---	---	PASS	T	87591048	T	T	87591048	3	4	15	1	0	0	0	0	1	0	0	0	3601	1174	41	2	465	2	CNGB3	8	87591048	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	13664916	87591048	58772974	99	8255										
CSMD3	114788	broad.mit.edu	37	chr8	113304884	113304884	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	accacatcattaaagttgaaCccatttccacttgttcttcc	3	13	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr8:113304884C>A	uc003ynu.2	-	55	8829	c.8670G>T	c.(8668-8670)GGG>GGT	p.G2890G	CSMD3_uc003yns.2_Silent_p.G2092G|CSMD3_uc003ynt.2_Silent_p.G2850G|CSMD3_uc011lhx.1_Silent_p.G2721G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2890	Extracellular (Potential).|Sushi 19.					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						TAAAGTTGAACCCATTTCCAC	0.448										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			29	67	---	---	---	---	PASS	A	113304884	A	A	113304884	2	1	15	1	0	0	0	0	0	0	0	1	3946	494	18	3		3	CSMD3	8	113304884	Silent	SNP	C	TCGA-18-4086-01A-01D-1352-08	25713836	113304884	33059138	100	8256										
BAI1	575	broad.mit.edu	37	chr8	143560803	143560803	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tcgggggagcagcctgccagGgcccccaggatgagtaccgg	17	13	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr8:143560803G>A	uc003ywm.2	+	7	1864	c.1681G>A	c.(1681-1683)GGC>AGC	p.G561S		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	561	Extracellular (Potential).|TSP type-1 5.				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					AGCCTGCCAGGGCCCCCAGGA	0.711													5	11	---	---	---	---	PASS	A	143560803	A	A	143560803	3	1	15	1	0	0	0	0	1	0	0	0	1298	1232	43	3	1707	3	BAI1	8	143560803	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	30255919	143560803	2803219	101	8257										
TEK	7010	broad.mit.edu	37	chr9	27229204	27229204	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agtttacttatgcaggaattGactgttctgctgaagaagcg	11	6	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr9:27229204G>C	uc003zqi.3	+	23	3791	c.3349G>C	c.(3349-3351)GAC>CAC	p.D1117H	TEK_uc011lno.1_Missense_Mutation_p.D1074H|TEK_uc011lnp.1_Missense_Mutation_p.D969H	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	1117	Cytoplasmic (Potential).				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		TGCAGGAATTGACTGTTCTGC	0.458													41	64	---	---	---	---	PASS	C	27229204	C	C	27229204	3	2	15	1	0	0	0	0	1	0	0	0	15748	1290	45	2	3439	2	TEK	9	27229204	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08		27229204	113984227	102	8258										
C9orf79	286234	broad.mit.edu	37	chr9	90502148	90502148	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	caagcaagtcagtcccgaccGtgagtggccctctcgctgcc	11	16	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr9:90502148G>T	uc004app.3	+	4	2781	c.2746G>T	c.(2746-2748)GTG>TTG	p.V916L	C9orf79_uc004apo.1_Missense_Mutation_p.V728L	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	916						integral to membrane				ovary(3)	3						AGTCCCGACCGTGAGTGGCCC	0.587													9	51	---	---	---	---	PASS	T	90502148	T	T	90502148	3	4	15	1	0	0	0	0	1	0	0	0	2497	1145	40	1	2760	1	C9orf79	9	90502148	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	63272944	90502148	50711283	103	8259										
TRIM14	9830	broad.mit.edu	37	chr9	100881413	100881413	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ctccgggcagcgccagccgcAtccctcgacaagctccgacc	10	20	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr9:100881413A>G	uc004ayd.2	-	1	76	c.58T>C	c.(58-60)TGC>CGC	p.C20R	TRIM14_uc004ayf.1_5'UTR|TRIM14_uc004ayg.1_Missense_Mutation_p.C20R|TRIM14_uc004ayh.1_Missense_Mutation_p.C20R|TRIM14_uc004ayi.1_Missense_Mutation_p.C20R|TRIM14_uc004ayj.1_5'UTR	NM_033220	NP_150089	Q14142	TRI14_HUMAN	tripartite motif protein TRIM14 isoform alpha	20	B box-type.					cytoplasm|intracellular	zinc ion binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.0559)				CGCCAGCCGCATCCCTCGACA	0.746													9	25	---	---	---	---	PASS	G	100881413	G	G	100881413	3	3	15	1	0	0	0	0	1	0	0	0	16486	217	8	5	1294	5	TRIM14	9	100881413	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	10379265	100881413	40332018	104	8260										
SURF2	6835	broad.mit.edu	37	chr9	136226846	136226846	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	atgaagaatgtcagaagcaaGgggtggagtacgtgcctgcc	15	7	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr9:136226846G>T	uc004cdi.2	+	4	406	c.358G>T	c.(358-360)GGG>TGG	p.G120W		NM_017503	NP_059973	Q15527	SURF2_HUMAN	surfeit 2	120							protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.87e-07)|Epithelial(140;4.02e-06)|all cancers(34;3.71e-05)		TCAGAAGCAAGGGGTGGAGTA	0.637													5	23	---	---	---	---	PASS	T	136226846	T	T	136226846	3	4	15	1	0	0	0	0	1	0	0	0	15401	1000	35	3	372	3	SURF2	9	136226846	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	35345433	136226846	4986585	105	8261										
ATP5C1	509	broad.mit.edu	37	chr10	7844746	7844746	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	atgattgacaaattgacattGacattcaaccgtacccgcca	6	11	1	4			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr10:7844746G>C	uc001iju.2	+	8	897	c.819G>C	c.(817-819)TTG>TTC	p.L273F	ATP5C1_uc009xiq.1_Missense_Mutation_p.L273F|ATP5C1_uc010qbc.1_Missense_Mutation_p.L224F|ATP5C1_uc001ijv.2_Missense_Mutation_p.L273F	NM_001001973	NP_001001973	P36542	ATPG_HUMAN	ATP synthase, H+ transporting, mitochondrial F1	273					oxidative phosphorylation|respiratory electron transport chain	mitochondrial matrix|mitochondrial proton-transporting ATP synthase complex, catalytic core F(1)	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						AATTGACATTGACATTCAACC	0.368													23	71	---	---	---	---	PASS	C	7844746	C	C	7844746	3	2	15	1	0	0	0	0	1	0	0	0	1149	1281	45	2	849	2	ATP5C1	10	7844746	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08		7844746	127690001	106	8262										
ST8SIA6	338596	broad.mit.edu	37	chr10	17432531	17432531	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tgtgaagagtagaacttaccCtttcgttttgttagagaaag	10	5	0	4			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr10:17432531C>A	uc001ipd.2	-	3	289	c.289G>T	c.(289-291)GGG>TGG	p.G97W	ST8SIA6_uc010qce.1_RNA|uc001ipe.2_Intron|uc001ipf.1_Intron	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	97	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						AGAACTTACCCTTTCGTTTTG	0.363													14	114	---	---	---	---	PASS	A	17432531	A	A	17432531	3	1	15	1	0	0	0	0	1	0	0	0	15235	695	24	3	931	3	ST8SIA6	10	17432531	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	9587785	17432531	118102216	107	8263										
SPAG6	9576	broad.mit.edu	37	chr10	22653832	22653832	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tggacgtggtcccaacaattCaacagactgctgctttggct	10	11	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr10:22653832C>G	uc001iri.2	+	3	314	c.172C>G	c.(172-174)CAA>GAA	p.Q58E	SPAG6_uc001irj.2_Missense_Mutation_p.Q58E|SPAG6_uc010qct.1_Missense_Mutation_p.Q28E|SPAG6_uc009xkh.2_Missense_Mutation_p.Q36E	NM_012443	NP_036575	O75602	SPAG6_HUMAN	sperm associated antigen 6 isoform 1	58	ARM 1.				cell projection organization|spermatid development	axoneme|cilium|cytoplasm|flagellum|microtubule	binding			breast(1)	1						CCCAACAATTCAACAGACTGC	0.393													16	52	---	---	---	---	PASS	G	22653832	G	G	22653832	3	3	15	1	0	0	0	0	1	0	0	0	14982	827	29	2	182	2	SPAG6	10	22653832	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	5221301	22653832	112880915	108	8264										
BMS1	9790	broad.mit.edu	37	chr10	43318687	43318687	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agaaggagctttcagggccaGctttgaggataagctgctga	14	7	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr10:43318687G>T	uc001jaj.2	+	20	3612	c.3254G>T	c.(3253-3255)AGC>ATC	p.S1085I		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	1085					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						TTCAGGGCCAGCTTTGAGGAT	0.517													31	83	---	---	---	---	PASS	T	43318687	T	T	43318687	3	4	15	1	0	0	0	0	1	0	0	0	1472	971	34	3	3328	3	BMS1	10	43318687	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	20664855	43318687	92216060	109	8265										
GDF10	2662	broad.mit.edu	37	chr10	48429451	48429451	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ggcttgcatagcacctcgagCgctcgaggccaccgaggcgg	15	14	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr10:48429451C>T	uc001jfb.2	-	2	891	c.435G>A	c.(433-435)GCG>GCA	p.A145A	GDF10_uc009xnp.2_Silent_p.A144A|GDF10_uc009xnq.1_Silent_p.A145A	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	145					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						GCACCTCGAGCGCTCGAGGCC	0.632													9	21	---	---	---	---	PASS	T	48429451	T	T	48429451	2	4	15	1	0	0	0	0	0	0	0	1	6311	755	27	1		1	GDF10	10	48429451	Silent	SNP	C	TCGA-18-4086-01A-01D-1352-08	5110764	48429451	87105296	110	8266										
C10orf27	219793	broad.mit.edu	37	chr10	72531216	72531216	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	acttgagcttctccaatgtaCtctagtgggaggagagacag	12	8	2	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr10:72531216C>T	uc001jrj.1	-	11	1362	c.972G>A	c.(970-972)GAG>GAA	p.E324E	C10orf27_uc010qjm.1_Silent_p.E325E|C10orf27_uc009xqh.1_RNA|C10orf27_uc010qjn.1_Silent_p.E323E	NM_152710	NP_689923	Q96M53	SPATL_HUMAN	stromal protein associated with thymii and lymph	324					cell differentiation|multicellular organismal development|spermatogenesis	cytosol				skin(1)	1						CTCCAATGTACTCTAGTGGGA	0.582													14	109	---	---	---	---	PASS	T	72531216	T	T	72531216	2	4	15	1	0	0	0	0	0	0	0	1	1600	579	20	3		3	C10orf27	10	72531216	Silent	SNP	C	TCGA-18-4086-01A-01D-1352-08	24101765	72531216	63003531	111	8267										
TMEM20	159371	broad.mit.edu	37	chr10	95660927	95660927	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tgagcatttggtattatgtaGtacttggcctcgttgaaagt	11	5	0	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr10:95660927G>A	uc001kjg.1	+	3	839	c.778G>A	c.(778-780)GTA>ATA	p.V260I	TMEM20_uc001kji.2_Intron|TMEM20_uc001kjf.1_Missense_Mutation_p.V259I|TMEM20_uc001kjh.2_Intron|TMEM20_uc010qnw.1_Missense_Mutation_p.V243I|TMEM20_uc001kjj.2_Intron	NM_001134658	NP_001128130	Q2M3R5	TMM20_HUMAN	transmembrane protein 20 isoform 1	260	DUF6 2.|Helical; (Potential).					integral to membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;3.46e-05)|Renal(717;0.018)|Ovarian(717;0.0228)|all_hematologic(284;0.189)		STAD - Stomach adenocarcinoma(243;0.00345)		GTATTATGTAGTACTTGGCCT	0.433													21	106	---	---	---	---	PASS	A	95660927	A	A	95660927	3	1	15	1	0	0	0	0	1	0	0	0	16119	1029	36	3	788	3	TMEM20	10	95660927	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	23129711	95660927	39873820	112	8268										
SFRP5	6425	broad.mit.edu	37	chr10	99527577	99527577	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gctccaatcagcttccggtcCccattctctatcttgatctc	5	16	4	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr10:99527577C>T	uc001kor.3	-	3	814	c.648G>A	c.(646-648)GGG>GGA	p.G216G		NM_003015	NP_003006	Q5T4F7	SFRP5_HUMAN	secreted frizzled-related protein 5 precursor	216	NTR.				apoptosis|brain development|cell differentiation|embryo development|establishment or maintenance of cell polarity|gonad development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of protein kinase B signaling cascade|negative regulation of sequence-specific DNA binding transcription factor activity|vasculature development|visual perception	cytoplasm|extracellular space|plasma membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1		Colorectal(252;0.234)		Epithelial(162;4.98e-10)|all cancers(201;3.58e-08)		GCTTCCGGTCCCCATTCTCTA	0.542													31	84	---	---	---	---	PASS	T	99527577	T	T	99527577	2	4	15	1	0	0	0	0	0	0	0	1	14164	610	22	3		3	SFRP5	10	99527577	Silent	SNP	C	TCGA-18-4086-01A-01D-1352-08	3866650	99527577	36007170	113	8269										
GPAM	57678	broad.mit.edu	37	chr10	113915650	113915650	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcaacatttctttctgttctGgttattaggtatttgtgcaa	8	6	3	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr10:113915650G>T	uc009xxy.1	-	20	2481	c.2283C>A	c.(2281-2283)ACC>ACA	p.T761T	GPAM_uc001kzp.2_Silent_p.T761T|GPAM_uc001kzq.1_3'UTR	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate	761	Mitochondrial intermembrane (Potential).|Mitochondrial intermembrane (Potential).				phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		TTTCTGTTCTGGTTATTAGGT	0.348													7	44	---	---	---	---	PASS	T	113915650	T	T	113915650	2	4	15	1	0	0	0	0	0	0	0	1	6588	1335	47	3		3	GPAM	10	113915650	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	14388073	113915650	21619097	114	8270										
PTPRE	5791	broad.mit.edu	37	chr10	129875936	129875936	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcgccagtttcacttccacgGctggcctgagatcgggattc	12	13	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr10:129875936G>T	uc001lkb.2	+	19	2060	c.1781G>T	c.(1780-1782)GGC>GTC	p.G594V	PTPRE_uc009yat.2_Missense_Mutation_p.G605V|PTPRE_uc009yau.2_Missense_Mutation_p.G594V|PTPRE_uc001lkd.2_Missense_Mutation_p.G536V|PTPRE_uc010quq.1_Missense_Mutation_p.G495V	NM_006504	NP_006495	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E	594	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)				CACTTCCACGGCTGGCCTGAG	0.662													15	36	---	---	---	---	PASS	T	129875936	T	T	129875936	3	4	15	1	0	0	0	0	1	0	0	0	12800	1203	42	3	1886	3	PTPRE	10	129875936	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	15960286	129875936	5658811	115	8271										
MUC5B	727897	broad.mit.edu	37	chr11	1268821	1268821	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ccacggtggtgaccacgggcTgtgagccccagtgtgcctgg	16	13	0	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr11:1268821T>A	uc009ycr.1	+	50	12421	c.12295T>A	c.(12295-12297)TGT>AGT	p.C4099S	MUC5B_uc001ltb.2_Missense_Mutation_p.C3574S	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3571	7 X Cys-rich subdomain repeats.|Cys-rich subdomain 6.|Thr-rich.|HAT 2.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GACCACGGGCTGTGAGCCCCA	0.667													20	48	---	---	---	---	PASS	A	1268821	A	A	1268821	3	1	15	1	0	0	0	0	1	0	0	0	9979	1580	55	5	10842	5	MUC5B	11	1268821	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08		1268821	133737695	116	8272										
CARS	833	broad.mit.edu	37	chr11	3047975	3047975	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cttcccataggagtgcttctCgctagaagcaaacttcgctg	9	12	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr11:3047975C>A	uc001lxh.2	-	9	909	c.835G>T	c.(835-837)GAG>TAG	p.E279*	CARS_uc001lxe.2_Nonsense_Mutation_p.E269*|CARS_uc001lxf.2_Nonsense_Mutation_p.E362*|CARS_uc001lxg.2_Nonsense_Mutation_p.E279*|CARS_uc010qxo.1_Nonsense_Mutation_p.E362*|CARS_uc010qxp.1_Nonsense_Mutation_p.E292*|uc001lxi.1_5'Flank	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	279					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	GAGTGCTTCTCGCTAGAAGCA	0.517			T	ALK	ALCL								43	89	---	---	---	---	PASS	A	3047975	A	A	3047975	4	1	15	1	0	0	0	0	0	1	0	0	2657	893	31	2	1475	2	CARS	11	3047975	Nonsense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	1779154	3047975	131958541	117	8273										
ANO5	203859	broad.mit.edu	37	chr11	22261155	22261155	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agaacctcccaatcctaccaAtgaaagatacacacttcacc	3	15	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr11:22261155A>G	uc001mqi.2	+	9	1120	c.803A>G	c.(802-804)AAT>AGT	p.N268S	ANO5_uc001mqj.2_Missense_Mutation_p.N267S	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	268	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						AATCCTACCAATGAAAGATAC	0.408													36	113	---	---	---	---	PASS	G	22261155	G	G	22261155	3	3	15	1	0	0	0	0	1	0	0	0	700	101	4	5	837	5	ANO5	11	22261155	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	19213180	22261155	112745361	118	8274										
LGR4	55366	broad.mit.edu	37	chr11	27390517	27390517	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agtatagattcccatgaataAgttagacacagaaatcaagc	7	7	1	4			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr11:27390517A>G	uc001mrj.3	-	18	2238	c.1753T>C	c.(1753-1755)TTA>CTA	p.L585L	LGR4_uc001mrk.3_Silent_p.L561L	NM_018490	NP_060960	Q9BXB1	LGR4_HUMAN	leucine-rich repeat-containing G protein-coupled	585	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1						CCCATGAATAAGTTAGACACA	0.403													25	45	---	---	---	---	PASS	G	27390517	G	G	27390517	2	3	15	1	0	0	0	0	0	0	0	1	8756	69	3	5		5	LGR4	11	27390517	Silent	SNP	A	TCGA-18-4086-01A-01D-1352-08	5129362	27390517	107615999	119	8275										
ACCSL	390110	broad.mit.edu	37	chr11	44072937	44072937	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	actactgcagggcacctaccCgacttgacccagaaaatgtg	9	13	0	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr11:44072937C>T	uc001mxw.1	+	4	744	c.688C>T	c.(688-690)CGA>TGA	p.R230*	ACCSL_uc009ykr.2_Nonsense_Mutation_p.R49*	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	230							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						GGCACCTACCCGACTTGACCC	0.572													21	60	---	---	---	---	PASS	T	44072937	T	T	44072937	4	4	15	1	0	0	0	0	0	1	0	0	134	644	23	1	702	1	ACCSL	11	44072937	Nonsense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	16682420	44072937	90933579	120	8276										
SLC35C1	55343	broad.mit.edu	37	chr11	45832694	45832694	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	acccacaatgtgtcgggcacGgccaaggcctgtgcccagac	12	15	0	1	rs150743224		TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr11:45832694G>T	uc001nbp.2	+	2	1615	c.903G>T	c.(901-903)ACG>ACT	p.T301T	SLC35C1_uc001nbo.2_Silent_p.T288T|SLC35C1_uc010rgm.1_Silent_p.T288T	NM_018389	NP_060859	Q96A29	FUCT1_HUMAN	GDP-fucose transporter 1 isoform a	301						Golgi membrane|integral to membrane	GDP-fucose transmembrane transporter activity				0				GBM - Glioblastoma multiforme(35;0.227)		TGTCGGGCACGGCCAAGGCCT	0.607													23	57	---	---	---	---	PASS	T	45832694	T	T	45832694	2	4	15	1	0	0	0	0	0	0	0	1	14579	1103	39	1		1	SLC35C1	11	45832694	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	1759757	45832694	89173822	121	8277										
OR5L1	219437	broad.mit.edu	37	chr11	55579417	55579417	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ggacggtgtgttctctgattCatttgtgcttagctcttagg	12	7	3	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr11:55579417C>T	uc001nhw.1	+	1	475	c.475C>T	c.(475-477)CAT>TAT	p.H159Y		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				TTCTCTGATTCATTTGTGCTT	0.443													11	194	---	---	---	---	PASS	T	55579417	T	T	55579417	3	4	15	1	0	0	0	0	1	0	0	0	11170	826	29	2	477	2	OR5L1	11	55579417	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	9746723	55579417	79427099	122	8278										
OR5D18	219438	broad.mit.edu	37	chr11	55587891	55587891	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	atcctcttcctttactgtgtGcccaactccaaaaactccag	4	15	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr11:55587891G>T	uc010rin.1	+	1	786	c.786G>T	c.(784-786)GTG>GTT	p.V262V		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				TTTACTGTGTGCCCAACTCCA	0.527													22	58	---	---	---	---	PASS	T	55587891	T	T	55587891	2	4	15	1	0	0	0	0	0	0	0	1	11157	1306	46	3		3	OR5D18	11	55587891	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	8474	55587891	79418625	123	8279										
MYEOV	26579	broad.mit.edu	37	chr11	69062910	69062910	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ctgcctggaacagtctccctCctggtgtcattgtctccgtg	10	14	3	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr11:69062910C>T	uc001oov.2	+	2	539	c.89C>T	c.(88-90)TCC>TTC	p.S30F	MYEOV_uc001oox.2_Intron|MYEOV_uc009ysl.2_Missense_Mutation_p.S30F|MYEOV_uc001oow.2_5'UTR	NM_138768	NP_620123	Q96EZ4	MYEOV_HUMAN	myeloma overexpressed	30											0	all_lung(4;2.21e-19)|Lung NSC(4;6.13e-19)|Melanoma(5;0.00128)		LUSC - Lung squamous cell carcinoma(11;3.33e-11)|STAD - Stomach adenocarcinoma(18;0.00654)|LUAD - Lung adenocarcinoma(13;0.0713)	Kidney(183;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.00361)|LUSC - Lung squamous cell carcinoma(976;0.0153)		cagtctccctcctggtgtcAT	0.264													32	101	---	---	---	---	PASS	T	69062910	T	T	69062910	3	4	15	1	0	0	0	0	1	0	0	0	10025	855	30	2	91	2	MYEOV	11	69062910	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	13475019	69062910	65943606	124	8280										
P4HA3	283208	broad.mit.edu	37	chr11	74000142	74000142	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	actgtagagaagaaactcccGagagaggctgagggcacacg	14	9	0	4			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr11:74000142G>T	uc001ouz.2	-	5	794	c.751C>A	c.(751-753)CGG>AGG	p.R251R	P4HA3_uc001ouy.3_RNA|P4HA3_uc010rrj.1_Silent_p.R251R	NM_182904	NP_878907	Q7Z4N8	P4HA3_HUMAN	prolyl 4-hydroxylase, alpha III subunit	251	TPR.					endoplasmic reticulum lumen	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			skin(1)	1	Breast(11;2.31e-05)					agaaactcccgagagaggctg	0.244													5	4	---	---	---	---	PASS	T	74000142	T	T	74000142	2	4	15	1	0	0	0	0	0	0	0	1	11358	1057	37	2		2	P4HA3	11	74000142	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	4937232	74000142	61006374	125	8281										
USP35	57558	broad.mit.edu	37	chr11	77920699	77920699	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tcacggacctctctctcgccTtccctcctcctgagcgctgt	7	19	3	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr11:77920699T>G	uc009yva.1	+	10	2044	c.1798T>G	c.(1798-1800)TTC>GTC	p.F600V	USP35_uc001oze.2_Missense_Mutation_p.F356V|USP35_uc001ozc.2_Missense_Mutation_p.F168V|USP35_uc010rsp.1_Missense_Mutation_p.F32V|USP35_uc001ozd.2_Missense_Mutation_p.F211V|USP35_uc001ozf.2_Missense_Mutation_p.F331V	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	600					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			CTCTCTCGCCTTCCCTCCTCC	0.622													31	94	---	---	---	---	PASS	G	77920699	G	G	77920699	3	3	15	1	0	0	0	0	1	0	0	0	17063	1609	56	5	1832	5	USP35	11	77920699	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	3920557	77920699	57085817	126	8282										
TECTA	7007	broad.mit.edu	37	chr11	120984356	120984356	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ccaggagaccacaaacgtcaAtgttccaggccgctgggcat	11	13	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr11:120984356A>C	uc010rzo.1	+	5	719	c.719A>C	c.(718-720)AAT>ACT	p.N240T		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	240	NIDO.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		ACAAACGTCAATGTTCCAGGC	0.512													14	35	---	---	---	---	PASS	C	120984356	C	C	120984356	3	2	15	1	0	0	0	0	1	0	0	0	15744	101	4	5	737	5	TECTA	11	120984356	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	43063657	120984356	14022160	127	8283										
TULP3	7289	broad.mit.edu	37	chr12	3031460	3031460	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cagctgctgtcctgaaaccaGacgaagttcatgctccatca	8	13	2	2	rs148720872		TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr12:3031460G>T	uc010seh.1	+	4	367	c.286G>T	c.(286-288)GAC>TAC	p.D96Y	TULP3_uc010sef.1_RNA|TULP3_uc009zec.1_5'UTR|TULP3_uc010seg.1_RNA|TULP3_uc001qlj.2_Missense_Mutation_p.D96Y|TULP3_uc010sei.1_5'UTR	NM_003324	NP_003315	O75386	TULP3_HUMAN	tubby like protein 3 isoform 1	96					G-protein coupled receptor protein signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|extracellular region|nucleus|plasma membrane	phosphatidylinositol-4,5-bisphosphate binding				0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			CCTGAAACCAGACGAAGTTCA	0.438													38	132	---	---	---	---	PASS	T	3031460	T	T	3031460	3	4	15	1	0	0	0	0	1	0	0	0	16772	942	33	2	300	2	TULP3	12	3031460	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08		3031460	130820435	128	8284										
GNB3	2784	broad.mit.edu	37	chr12	6950762	6950762	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ccctgcaggatgccaggaaaGcctgtgctgacgttactctg	12	12	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr12:6950762G>C	uc001qrd.2	+	4	475	c.70G>C	c.(70-72)GCC>CCC	p.A24P	GNB3_uc001qrc.2_5'UTR|GNB3_uc009zfe.2_Missense_Mutation_p.A24P	NM_002075	NP_002066	P16520	GBB3_HUMAN	guanine nucleotide-binding protein, beta-3	24					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of blood pressure|synaptic transmission	plasma membrane	GTPase activity|GTPase binding|signal transducer activity				0						TGCCAGGAAAGCCTGTGCTGA	0.652													5	32	---	---	---	---	PASS	C	6950762	C	C	6950762	3	2	15	1	0	0	0	0	1	0	0	0	6519	971	34	4	76	4	GNB3	12	6950762	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	3919302	6950762	126901133	129	8285										
RIMKLB	57494	broad.mit.edu	37	chr12	8906573	8906573	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agcgccatacctgttccagaAgtatgttaaagagtctcatg	9	9	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr12:8906573A>T	uc001quu.2	+	5	832	c.581A>T	c.(580-582)AAG>ATG	p.K194M	RIMKLB_uc009zgf.1_RNA|RIMKLB_uc001qux.2_Missense_Mutation_p.K194M|RIMKLB_uc010sgl.1_Missense_Mutation_p.K194M|RIMKLB_uc001quw.2_Missense_Mutation_p.K194M	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	194	ATP-grasp.|ATP (By similarity).				protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						CTGTTCCAGAAGTATGTTAAA	0.458													21	53	---	---	---	---	PASS	T	8906573	T	T	8906573	3	4	15	1	0	0	0	0	1	0	0	0	13366	72	3	5	595	5	RIMKLB	12	8906573	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	1955811	8906573	124945322	130	8286										
PIK3C2G	5288	broad.mit.edu	37	chr12	18691193	18691193	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ttgtggaactttgctgtcgtGcttataatattatcagaaag	9	5	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr12:18691193G>T	uc001rdt.2	+	24	3420	c.3304G>T	c.(3304-3306)GCT>TCT	p.A1102S	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.A1143S|PIK3C2G_uc010sic.1_Missense_Mutation_p.A921S	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	1102	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				TTGCTGTCGTGCTTATAATAT	0.373													18	44	---	---	---	---	PASS	T	18691193	T	T	18691193	3	4	15	1	0	0	0	0	1	0	0	0	11911	1319	46	3	3394	3	PIK3C2G	12	18691193	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	9784620	18691193	115160702	131	8287										
LST-3TM12	338821	broad.mit.edu	37	chr12	21207463	21207463	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcgcacttgggtgaatgcccAagagatgatgcttgtacaag	13	8	0	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr12:21207463A>T	uc010sin.1	+	10	1434	c.1434A>T	c.(1432-1434)CCA>CCT	p.P478P	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Silent_p.P525P	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	478						membrane	transporter activity				0						GTGAATGCCCAAGAGATGATG	0.368													17	30	---	---	---	---	PASS	T	21207463	T	T	21207463	2	4	15	1	0	0	0	0	0	0	0	1	9066	117	5	5		5	LST-3TM12	12	21207463	Silent	SNP	A	TCGA-18-4086-01A-01D-1352-08	2516270	21207463	112644432	132	8288										
TROAP	10024	broad.mit.edu	37	chr12	49725031	49725031	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcccctcgaaccctagccctGagggagcgcctcaaatcgtg	11	16	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr12:49725031G>A	uc001rtx.3	+	14	2300	c.2133G>A	c.(2131-2133)CTG>CTA	p.L711L	TROAP_uc009zlh.2_Silent_p.L801L|TROAP_uc001rty.2_Silent_p.L390L	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	711					cell adhesion	cytoplasm				ovary(1)	1						CCCTAGCCCTGAGGGAGCGCC	0.577													17	53	---	---	---	---	PASS	A	49725031	A	A	49725031	2	1	15	1	0	0	0	0	0	0	0	1	16572	1277	45	2		2	TROAP	12	49725031	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	28517568	49725031	84126864	133	8289										
RFX4	5992	broad.mit.edu	37	chr12	107103138	107103138	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gtgattcgaaagtttgccaaGcaactggatgagtggctaaa	12	6	0	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr12:107103138G>A	uc001tlr.2	+	9	930	c.864G>A	c.(862-864)AAG>AAA	p.K288K	RFX4_uc010swv.1_RNA|RFX4_uc001tls.2_Silent_p.K297K|RFX4_uc001tlt.2_Silent_p.K297K|RFX4_uc001tlv.2_Silent_p.K194K	NM_213594	NP_998759	Q33E94	RFX4_HUMAN	regulatory factor X4 isoform c	288					transcription, DNA-dependent	nucleus	DNA binding			upper_aerodigestive_tract(1)	1						AGTTTGCCAAGCAACTGGATG	0.473													16	32	---	---	---	---	PASS	A	107103138	A	A	107103138	2	1	15	1	0	0	0	0	0	0	0	1	13265	962	34	3		3	RFX4	12	107103138	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	57378107	107103138	26748757	134	8290										
MED13L	23389	broad.mit.edu	37	chr12	116675334	116675334	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tctccccaccagaatatccaTaactctttgcaatctggttt	4	13	3	1	rs138672862		TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr12:116675334T>C	uc001tvw.2	-	2	304	c.249A>G	c.(247-249)TTA>TTG	p.L83L		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	83					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		AGAATATCCATAACTCTTTGC	0.413													24	81	---	---	---	---	PASS	C	116675334	C	C	116675334	2	2	15	1	0	0	0	0	0	0	0	1	9431	1403	49	5		5	MED13L	12	116675334	Silent	SNP	T	TCGA-18-4086-01A-01D-1352-08	9572196	116675334	17176561	135	8291										
CRYL1	51084	broad.mit.edu	37	chr13	20978773	20978773	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agttgcagagaagttacataCctggttaaccttctcagcag	9	9	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr13:20978773C>A	uc001une.2	-	7	925	c.846_splice	c.e7+1	p.Q282_splice	CRYL1_uc001unf.2_Splice_Site_p.Q260_splice|CRYL1_uc001ung.2_Splice_Site_p.Q260_splice	NM_015974	NP_057058	Q9Y2S2	CRYL1_HUMAN	lambda-crystallin						fatty acid metabolic process	cytosol	3-hydroxyacyl-CoA dehydrogenase activity|L-gulonate 3-dehydrogenase activity|NAD+ binding|protein homodimerization activity				0		all_cancers(29;2.27e-23)|all_epithelial(30;1.69e-19)|all_lung(29;8.29e-18)|Lung SC(185;0.0262)|Ovarian(182;0.0827)|Hepatocellular(188;0.244)		all cancers(112;6.6e-05)|Epithelial(112;0.00178)|OV - Ovarian serous cystadenocarcinoma(117;0.0169)|Lung(94;0.0215)|GBM - Glioblastoma multiforme(144;0.0402)|LUSC - Lung squamous cell carcinoma(192;0.061)		AAGTTACATACCTGGTTAACC	0.532													35	79	---	---	---	---	PASS	A	20978773	A	A	20978773	5	1	15	1	0	0	0	0	0	0	1	0	3920	521	18	3	120	3	CRYL1	13	20978773	Splice_Site	SNP	C	TCGA-18-4086-01A-01D-1352-08		20978773	94191105	136	8292										
SACS	26278	broad.mit.edu	37	chr13	23906282	23906282	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tttaccaatctaccatcctgGcttgggaggtaaagcgcaag	10	10	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr13:23906282G>T	uc001uon.2	-	10	12322	c.11733C>A	c.(11731-11733)AGC>AGA	p.S3911R	SACS_uc001uoo.2_Missense_Mutation_p.S3764R|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3911					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TACCATCCTGGCTTGGGAGGT	0.438													44	74	---	---	---	---	PASS	T	23906282	T	T	23906282	3	4	15	1	0	0	0	0	1	0	0	0	13804	1194	42	3	2010	3	SACS	13	23906282	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	2927509	23906282	91263596	137	8293										
BRCA2	675	broad.mit.edu	37	chr13	32937315	32937315	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	catttttgttttcacttttaGatatgatacggaaattgata	6	4	1	3	rs81002874		TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr13:32937315G>A	uc001uub.1	+	18	8204	c.7977_splice	c.e18-1	p.R2659_splice		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset						cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TTCACTTTTAGATATGATACG	0.328			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			14	24	---	---	---	---	PASS	A	32937315	A	A	32937315	5	1	15	1	0	0	0	0	0	0	1	0	1499	956	33	2	8042	2	BRCA2	13	32937315	Splice_Site	SNP	G	TCGA-18-4086-01A-01D-1352-08	9031033	32937315	82232563	138	8294										
SIAH3	283514	broad.mit.edu	37	chr13	46357979	46357979	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	caccacctccaggcggccttCccactggcaggagaacaagg	11	16	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr13:46357979C>T	uc001vap.2	-	2	431	c.349G>A	c.(349-351)GAA>AAA	p.E117K		NM_198849	NP_942146	Q8IW03	SIAH3_HUMAN	seven in absentia homolog 3	117	SIAH-type; degenerate.				multicellular organismal development|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding			ovary(1)|skin(1)	2						AGGCGGCCTTCCCACTGGCAG	0.562													25	56	---	---	---	---	PASS	T	46357979	T	T	46357979	3	4	15	1	0	0	0	0	1	0	0	0	14301	864	30	2	464	2	SIAH3	13	46357979	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	13420664	46357979	68811899	139	8295										
RB1	5925	broad.mit.edu	37	chr13	48881481	48881481	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tcagaaattaaagataccagAtcatgtcagagagagagctt	9	6	3	5			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr13:48881481A>G	uc001vcb.2	+	2	369	c.203A>G	c.(202-204)GAT>GGT	p.D68G	RB1_uc010acs.1_Intron	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	68					androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.0?(13)|p.?(3)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AAGATACCAGATCATGTCAGA	0.313		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			13	43	---	---	---	---	PASS	G	48881481	G	G	48881481	3	3	15	1	0	0	0	0	1	0	0	0	13098	333	12	5	209	5	RB1	13	48881481	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	2523502	48881481	66288397	140	8296										
ERCC5	2073	broad.mit.edu	37	chr13	103504584	103504584	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tctgcaaactcttattttttCgaattcgtcctatttttgtg	5	8	2	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr13:103504584C>T	uc001vpw.2	+	2	648	c.205C>T	c.(205-207)CGA>TGA	p.R69*	ERCC5_uc001vpu.1_Nonsense_Mutation_p.R523*|ERCC5_uc010tjb.1_Nonsense_Mutation_p.R69*|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_5'UTR	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	69	N-domain.				negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					CTTATTTTTTCGAATTCGTCC	0.373			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				6	64	---	---	---	---	PASS	T	103504584	T	T	103504584	4	4	15	1	0	0	0	0	0	1	0	0	5216	876	31	2	211	2	ERCC5	13	103504584	Nonsense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	54623103	103504584	11665294	141	8297										
COCH	1690	broad.mit.edu	37	chr14	31349801	31349801	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ggttgttcgcagattgtaaaGcagacattgcatttctgatt	10	6	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr14:31349801G>C	uc001wqr.2	+	8	570	c.490G>C	c.(490-492)GCA>CCA	p.A164P	COCH_uc001wqp.2_Missense_Mutation_p.A164P|COCH_uc001wqq.3_Missense_Mutation_p.A164P|uc001wqs.2_Intron|COCH_uc001wqt.1_5'UTR	NM_004086	NP_004077	O43405	COCH_HUMAN	cochlin precursor	164					sensory perception of sound	proteinaceous extracellular matrix				pancreas(1)|central_nervous_system(1)|skin(1)	3	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.00645)		AGATTGTAAAGCAGACATTGC	0.413													50	44	---	---	---	---	PASS	C	31349801	C	C	31349801	3	2	15	1	0	0	0	0	1	0	0	0	3656	971	34	4	516	4	COCH	14	31349801	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08		31349801	75999739	142	8298										
C14orf104	55172	broad.mit.edu	37	chr14	50101477	50101477	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gctgctgctgcgccccgcgtActcgcggccgggcgccaggc	16	18	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr14:50101477A>T	uc001wws.3	-	1	472	c.391T>A	c.(391-393)TAC>AAC	p.Y131N	SDCCAG1_uc010anj.1_Intron|C14orf104_uc001wwt.3_Missense_Mutation_p.Y131N	NM_018139	NP_060609	Q9NVR5	KTU_HUMAN	kintoun isoform 1	131					axonemal dynein complex assembly|ciliary cell motility|flagellar cell motility	cytoplasm					0	all_epithelial(31;0.0021)|Breast(41;0.0124)					CGCCCCGCGTACTCGCGGCCG	0.746									Kartagener_syndrome				6	6	---	---	---	---	PASS	T	50101477	T	T	50101477	3	4	15	1	0	0	0	0	1	0	0	0	1736	391	14	5	2134	5	C14orf104	14	50101477	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	18751676	50101477	57248063	143	8299										
NAA30	122830	broad.mit.edu	37	chr14	57858325	57858325	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tcggacgatacgatatgtccGatatgaatccgagctacaaa	9	9	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr14:57858325G>C	uc001xcx.3	+	2	804	c.650G>C	c.(649-651)CGA>CCA	p.R217P	NAA30_uc010trk.1_Intron|NAA30_uc010aow.2_Intron	NM_001011713	NP_001011713	Q147X3	NAA30_HUMAN	N-acetyltransferase 12	217	N-acetyltransferase.					cytoplasm	peptide alpha-N-acetyltransferase activity			skin(1)	1						CGATATGTCCGATATGAATCC	0.507													94	90	---	---	---	---	PASS	C	57858325	C	C	57858325	3	2	15	1	0	0	0	0	1	0	0	0	10122	1058	37	2	652	2	NAA30	14	57858325	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	7756848	57858325	49491215	144	8300										
SYNE2	23224	broad.mit.edu	37	chr14	64681149	64681149	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tggggggctcctcctctcacGaagaggacgaggagggccca	16	12	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr14:64681149G>A	uc001xgm.2	+	106	19524	c.19294G>A	c.(19294-19296)GAA>AAA	p.E6432K	SYNE2_uc001xgl.2_Missense_Mutation_p.E6432K|SYNE2_uc010apy.2_Missense_Mutation_p.E2817K|SYNE2_uc001xgn.2_Missense_Mutation_p.E1394K|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.E402K|SYNE2_uc001xgq.2_Missense_Mutation_p.E797K|SYNE2_uc001xgr.2_Missense_Mutation_p.E215K|SYNE2_uc010tsi.1_Missense_Mutation_p.E66K|SYNE2_uc001xgs.2_Missense_Mutation_p.E66K|SYNE2_uc001xgt.2_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6432	Cytoplasmic (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)		CTCCTCTCACGAAGAGGACGA	0.627													26	22	---	---	---	---	PASS	A	64681149	A	A	64681149	3	1	15	1	0	0	0	0	1	0	0	0	15443	1059	37	2	19712	2	SYNE2	14	64681149	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	6822824	64681149	42668391	145	8301										
ZFYVE26	23503	broad.mit.edu	37	chr14	68238912	68238912	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tttcccttagactaggggaaTgtatactggagatacctggg	12	7	0	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr14:68238912T>A	uc001xka.2	-	28	5475	c.5336A>T	c.(5335-5337)CAT>CTT	p.H1779L	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.H1779L	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1779					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		ACTAGGGGAATGTATACTGGA	0.428													3	4	---	---	---	---	PASS	A	68238912	A	A	68238912	3	1	15	1	0	0	0	0	1	0	0	0	17665	1464	51	5	2343	5	ZFYVE26	14	68238912	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	3557763	68238912	39110628	146	8302										
ZFYVE26	23503	broad.mit.edu	37	chr14	68256124	68256124	+	Nonsense_Mutation	SNP	G	A	A													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cttgcaggttttccagagctGgcactgagagcaagctaggt							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr14:68256124G>A	uc001xka.2	-	16	3086	c.2947C>T	c.(2947-2949)CAG>TAG	p.Q983*	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Nonsense_Mutation_p.Q983*	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	983					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		TTCCAGAGCTGGCACTGAGAG	0.557													6	92	---	---	---	---	PASS	A	68256124	A	A	68256124	4	1	15	1	0	0	0	0	0	1	0	0	17665	1357	47	3	4780	3	ZFYVE26	14	68256124	Nonsense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	17212	68256124	39093416	147	8303	245	2								
ZFYVE26	23503	broad.mit.edu	37	chr14	68256132	68256132	+	Missense_Mutation	SNP	G	C	C													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ttttccagagctggcactgaGagcaagctaggtcaaatgca							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr14:68256132G>C	uc001xka.2	-	16	3078	c.2939C>G	c.(2938-2940)TCT>TGT	p.S980C	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.S980C	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	980					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		CTGGCACTGAGAGCAAGCTAG	0.547													8	89	---	---	---	---	PASS	C	68256132	C	C	68256132	3	2	15	1	0	0	0	0	1	0	0	0	17665	942	33	2	4788	2	ZFYVE26	14	68256132	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	8	68256132	39093408	148	8304	245	2								
STON2	85439	broad.mit.edu	37	chr14	81744567	81744567	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	caaaactgatggcatcctggTagatgacaatgagggaatct	11	7	1	4			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr14:81744567T>C	uc010tvu.1	-	4	1289	c.1088A>G	c.(1087-1089)TAC>TGC	p.Y363C	STON2_uc001xvk.1_Missense_Mutation_p.Y363C|STON2_uc010tvt.1_Missense_Mutation_p.Y160C	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	363					endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		GGCATCCTGGTAGATGACAAT	0.448													63	58	---	---	---	---	PASS	C	81744567	C	C	81744567	3	2	15	1	0	0	0	0	1	0	0	0	15317	1638	57	5	1635	5	STON2	14	81744567	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	13488435	81744567	25604973	149	8305										
C14orf49	161176	broad.mit.edu	37	chr14	95932315	95932315	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ctcagccttcattctcttctGggcatcttcgtccacgctgg	8	15	5	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr14:95932315G>A	uc001yei.3	-	3	595	c.580C>T	c.(580-582)CAG>TAG	p.Q194*	C14orf49_uc010avi.2_Nonsense_Mutation_p.Q194*|C14orf49_uc001yej.1_Nonsense_Mutation_p.Q194*	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	194	Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		ATTCTCTTCTGGGCATCTTCG	0.552													42	61	---	---	---	---	PASS	A	95932315	A	A	95932315	4	1	15	1	0	0	0	0	0	1	0	0	1776	1357	47	3	2407	3	C14orf49	14	95932315	Nonsense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	14187748	95932315	11417225	150	8306										
WDR25	79446	broad.mit.edu	37	chr14	100950396	100950396	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tgaaattccatccaaaagacCacaacatctttttatgtgga	5	9	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr14:100950396C>T	uc010avx.2	+	4	1129	c.1036C>T	c.(1036-1038)CAC>TAC	p.H346Y	WDR25_uc001yhm.2_Missense_Mutation_p.H338Y|WDR25_uc001yhn.2_Missense_Mutation_p.H346Y|WDR25_uc010avy.2_RNA|WDR25_uc001yho.2_Missense_Mutation_p.H89Y	NM_001161476	NP_001154948	Q64LD2	WDR25_HUMAN	WD repeat domain 25	346	WD 3.										0		Melanoma(154;0.212)				TCCAAAAGACCACAACATCTT	0.408													44	86	---	---	---	---	PASS	T	100950396	T	T	100950396	3	4	15	1	0	0	0	0	1	0	0	0	17279	594	21	3	1046	3	WDR25	14	100950396	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	5018081	100950396	6399144	151	8307										
MKRN3	7681	broad.mit.edu	37	chr15	23811400	23811400	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cccccgactcaggaagtggcGgaagcccccccggctgcatc	12	18	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr15:23811400G>C	uc001ywh.3	+	1	947	c.471G>C	c.(469-471)GCG>GCC	p.A157A	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Silent_p.A157A	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	157						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		AGGAAGTGGCGGAAGCCCCCC	0.642													18	47	---	---	---	---	PASS	C	23811400	C	C	23811400	2	2	15	1	0	0	0	0	0	0	0	1	9608	1103	39	4		4	MKRN3	15	23811400	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08		23811400	78719992	152	8308										
HERC2	8924	broad.mit.edu	37	chr15	28460816	28460816	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gtgcgtgcccttccacgaccTtcatgagcagcgtgatccac	10	15	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr15:28460816T>G	uc001zbj.2	-	39	6267	c.6161A>C	c.(6160-6162)AAG>ACG	p.K2054T		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2054					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TTCCACGACCTTCATGAGCAG	0.632													14	31	---	---	---	---	PASS	G	28460816	G	G	28460816	3	3	15	1	0	0	0	0	1	0	0	0	7058	1609	56	5	8563	5	HERC2	15	28460816	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	4649416	28460816	74070576	153	8309										
GREM1	26585	broad.mit.edu	37	chr15	33023077	33023077	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	aggaaccgggggcggggccaAgggcggggcactgccatgcc	20	12	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr15:33023077A>T	uc001zhe.1	+	2	345	c.186A>T	c.(184-186)CAA>CAT	p.Q62H	GREM1_uc001zhd.1_Intron|GREM1_uc010uby.1_Intron	NM_013372	NP_037504	O60565	GREM1_HUMAN	gremlin-1 precursor	62					negative regulation of BMP signaling pathway|nervous system development|regulation of epithelial to mesenchymal transition	extracellular space	cytokine activity				0		all_lung(180;1.49e-09)		all cancers(64;2.97e-18)|Epithelial(43;3.15e-12)|GBM - Glioblastoma multiforme(186;2.32e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0107)		GGCGGGGCCAAGGGCGGGGCA	0.662													12	43	---	---	---	---	PASS	T	33023077	T	T	33023077	3	4	15	1	0	0	0	0	1	0	0	0	6761	69	3	5	188	5	GREM1	15	33023077	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	4562261	33023077	69508315	154	8310										
CAPN3	825	broad.mit.edu	37	chr15	42678366	42678366	+	Silent	SNP	G	T	T													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gccctgtgtctgcctgcaggGgactgctggtttctcgcagc							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr15:42678366G>T	uc001zpn.1	+	3	687	c.381G>T	c.(379-381)GGG>GGT	p.G127G	CAPN3_uc001zpk.1_5'UTR|CAPN3_uc001zpl.1_Silent_p.G40G|CAPN3_uc010udf.1_Silent_p.G40G|CAPN3_uc010udg.1_Silent_p.G40G|CAPN3_uc001zpo.1_Silent_p.G127G|CAPN3_uc001zpp.1_Silent_p.G127G	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	127	Calpain catalytic.				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)		TGCCTGCAGGGGACTGCTGGT	0.562											OREG0023085	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	46	106	---	---	---	---	PASS	T	42678366	T	T	42678366	2	4	15	1	0	0	0	0	0	0	0	1	2628	1246	43	3		3	CAPN3	15	42678366	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	9655289	42678366	59853026	155	8311	246	2								
CAPN3	825	broad.mit.edu	37	chr15	42678367	42678367	+	Missense_Mutation	SNP	G	T	T													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ccctgtgtctgcctgcagggGactgctggtttctcgcagcc							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr15:42678367G>T	uc001zpn.1	+	3	688	c.382G>T	c.(382-384)GAC>TAC	p.D128Y	CAPN3_uc001zpk.1_5'UTR|CAPN3_uc001zpl.1_Missense_Mutation_p.D41Y|CAPN3_uc010udf.1_Missense_Mutation_p.D41Y|CAPN3_uc010udg.1_Missense_Mutation_p.D41Y|CAPN3_uc001zpo.1_Missense_Mutation_p.D128Y|CAPN3_uc001zpp.1_Missense_Mutation_p.D128Y	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	128	Calpain catalytic.				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)		GCCTGCAGGGGACTGCTGGTT	0.567											OREG0023085	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	45	105	---	---	---	---	PASS	T	42678367	T	T	42678367	3	4	15	1	0	0	0	0	1	0	0	0	2628	1174	41	2	444	2	CAPN3	15	42678367	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	1	42678367	59853025	156	8312	246	2								
LCMT2	9836	broad.mit.edu	37	chr15	43622200	43622200	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cctccactcgctggagctgcCgcaagtccagacccaggatg	11	16	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr15:43622200C>A	uc001zrg.2	-	1	692	c.488G>T	c.(487-489)CGG>CTG	p.R163L	LCMT2_uc010udn.1_Intron|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	163					tRNA processing		methyltransferase activity|protein binding				0		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.1e-07)	L-Leucine(DB00149)	CTGGAGCTGCCGCAAGTCCAG	0.697													33	47	---	---	---	---	PASS	A	43622200	A	A	43622200	3	1	15	1	0	0	0	0	1	0	0	0	8679	652	23	1	1576	1	LCMT2	15	43622200	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	943833	43622200	58909192	157	8313										
SPG11	80208	broad.mit.edu	37	chr15	44888526	44888526	+	Missense_Mutation	SNP	G	T	T													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	taagtggtcttgaatgactgGgctgaagtactggataaggg							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr15:44888526G>T	uc001ztx.2	-	25	4220	c.4189C>A	c.(4189-4191)CCA>ACA	p.P1397T	SPG11_uc010ueh.1_Missense_Mutation_p.P1397T|SPG11_uc010uei.1_Missense_Mutation_p.P1397T|SPG11_uc001zty.1_Missense_Mutation_p.P126T	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	1397	Cytoplasmic (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		TGAATGACTGGGCTGAAGTAC	0.453													19	64	---	---	---	---	PASS	T	44888526	T	T	44888526	3	4	15	1	0	0	0	0	1	0	0	0	15040	1232	43	3	3206	3	SPG11	15	44888526	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	1266326	44888526	57642866	158	8314	247	2								
SPG11	80208	broad.mit.edu	37	chr15	44888527	44888527	+	Missense_Mutation	SNP	G	T	T													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	aagtggtcttgaatgactggGctgaagtactggataaggga							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr15:44888527G>T	uc001ztx.2	-	25	4219	c.4188C>A	c.(4186-4188)AGC>AGA	p.S1396R	SPG11_uc010ueh.1_Missense_Mutation_p.S1396R|SPG11_uc010uei.1_Missense_Mutation_p.S1396R|SPG11_uc001zty.1_Missense_Mutation_p.S125R	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	1396	Cytoplasmic (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		GAATGACTGGGCTGAAGTACT	0.453													18	63	---	---	---	---	PASS	T	44888527	T	T	44888527	3	4	15	1	0	0	0	0	1	0	0	0	15040	1194	42	3	3207	3	SPG11	15	44888527	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	1	44888527	57642865	159	8315	247	2								
NARG2	79664	broad.mit.edu	37	chr15	60768275	60768275	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	atattacctgttggataaaaCacgtagttcttttaaacttg	6	6	1	0	rs145938558		TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr15:60768275C>A	uc002agp.2	-	3	368	c.133G>T	c.(133-135)GTT>TTT	p.V45F	NARG2_uc002ago.2_5'UTR|NARG2_uc010bgk.2_Missense_Mutation_p.V45F|NARG2_uc002agr.1_Missense_Mutation_p.V45F	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	45						nucleus				ovary(1)|lung(1)	2						TTGGATAAAACACGTAGTTCT	0.313													10	31	---	---	---	---	PASS	A	60768275	A	A	60768275	3	1	15	1	0	0	0	0	1	0	0	0	10169	478	17	3	2871	3	NARG2	15	60768275	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	15879748	60768275	41763117	160	8316										
FAM154B	283726	broad.mit.edu	37	chr15	82574477	82574477	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	aagacgattatagagcttggGaccttcataaaagtgaactt	9	6	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr15:82574477G>A	uc002bgv.2	+	3	340	c.271G>A	c.(271-273)GAC>AAC	p.D91N	FAM154B_uc010unr.1_Missense_Mutation_p.D76N|FAM154B_uc010uns.1_RNA	NM_001008226	NP_001008227	Q658L1	F154B_HUMAN	hypothetical protein LOC283726	91										skin(2)	2						TAGAGCTTGGGACCTTCATAA	0.328													38	77	---	---	---	---	PASS	A	82574477	A	A	82574477	3	1	15	1	0	0	0	0	1	0	0	0	5464	1174	41	2	281	2	FAM154B	15	82574477	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	21806202	82574477	19956915	161	8317										
OR4F15	390649	broad.mit.edu	37	chr15	102358599	102358599	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gctaacctctcaatcattgaTatggcattttgctcaattac	5	10	3	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr15:102358599T>C	uc010uts.1	+	1	210	c.210T>C	c.(208-210)GAT>GAC	p.D70D		NM_001001674	NP_001001674	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F,	70	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			CAATCATTGATATGGCATTTT	0.423													65	246	---	---	---	---	PASS	C	102358599	C	C	102358599	2	2	15	1	0	0	0	0	0	0	0	1	11061	1403	49	5		5	OR4F15	15	102358599	Silent	SNP	T	TCGA-18-4086-01A-01D-1352-08	19784122	102358599	172793	162	8318										
MYH11	4629	broad.mit.edu	37	chr16	15818093	15818093	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tccaaatcaacaaccaggtcGtccagctcctgctgaagcct	7	15	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr16:15818093G>T	uc002ddy.2	-	31	4397	c.4290C>A	c.(4288-4290)GAC>GAA	p.D1430E	MYH11_uc002ddv.2_Missense_Mutation_p.D1437E|MYH11_uc002ddw.2_Missense_Mutation_p.D1430E|MYH11_uc002ddx.2_Missense_Mutation_p.D1437E|MYH11_uc010bvg.2_Missense_Mutation_p.D1262E|NDE1_uc010uzy.1_Silent_p.S331S|NDE1_uc002dds.2_Silent_p.S331S|MYH11_uc010bvh.2_Missense_Mutation_p.D136E|NDE1_uc002ddz.1_RNA	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1430	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						CAACCAGGTCGTCCAGCTCCT	0.537			T	CBFB	AML								14	64	---	---	---	---	PASS	T	15818093	T	T	15818093	3	4	15	1	0	0	0	0	1	0	0	0	10031	1136	40	1	1707	1	MYH11	16	15818093	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08		15818093	74536660	163	8319										
DNAH3	55567	broad.mit.edu	37	chr16	20974654	20974654	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cacaaaaatcaaaggcgcacAgcagctggaatcattgtagg	10	9	2	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr16:20974654A>G	uc010vbe.1	-	53	10552	c.10552T>C	c.(10552-10554)TGT>CGT	p.C3518R	DNAH3_uc010vbd.1_Missense_Mutation_p.C953R	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3518	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		AAAGGCGCACAGCAGCTGGAA	0.517													17	47	---	---	---	---	PASS	G	20974654	G	G	20974654	3	3	15	1	0	0	0	0	1	0	0	0	4603	188	7	5	1837	5	DNAH3	16	20974654	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	5156561	20974654	69380099	164	8320										
SEPT1	1731	broad.mit.edu	37	chr16	30392759	30392759	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	catccctaaggtactgctcaAattgctcctcgatgaatttc	6	12	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr16:30392759A>G	uc002dxy.2	-	6	528	c.341T>C	c.(340-342)TTT>TCT	p.F114S	SEPT1_uc002dxw.2_5'Flank|SEPT1_uc002dxx.2_5'UTR|SEPT1_uc010veq.1_Missense_Mutation_p.F161S	NM_052838	NP_443070	Q8WYJ6	SEPT1_HUMAN	septin 1	114					cell cycle|cell division	microtubule organizing center|septin complex	GTP binding|protein binding			ovary(1)	1			Colorectal(24;0.193)			GTACTGCTCAAATTGCTCCTC	0.587													44	101	---	---	---	---	PASS	G	30392759	G	G	30392759	3	3	15	1	0	0	0	0	1	0	0	0	14059	14	1	5	790	5	SEPT1	16	30392759	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	9418105	30392759	59961994	165	8321										
ZNF423	23090	broad.mit.edu	37	chr16	49670404	49670404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cgccccacagatgtcacagcCgtacatgggctccgacgcgt	11	16	1	1	rs147413663		TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr16:49670404C>A	uc002efs.2	-	5	2957	c.2659G>T	c.(2659-2661)GGC>TGC	p.G887C	ZNF423_uc010vgn.1_Missense_Mutation_p.G770C	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	887	C2H2-type 21; degenerate.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				ATGTCACAGCCGTACATGGGC	0.627													16	65	---	---	---	---	PASS	A	49670404	A	A	49670404	3	1	15	1	0	0	0	0	1	0	0	0	17895	652	23	1	1215	1	ZNF423	16	49670404	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	19277645	49670404	40684349	166	8322										
IRX3	79191	broad.mit.edu	37	chr16	54318159	54318159	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	caacctcggggtttcttaccGcctgggcacgggctggaaag	14	12	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr16:54318159G>A	uc002eht.1	-	3	1866	c.1450C>T	c.(1450-1452)CGG>TGG	p.R484W		NM_024336	NP_077312	P78415	IRX3_HUMAN	iroquois homeobox 3	484					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GTTTCTTACCGCCTGGGCACG	0.617													6	23	---	---	---	---	PASS	A	54318159	A	A	54318159	3	1	15	1	0	0	0	0	1	0	0	0	7845	1101	38	1	63	1	IRX3	16	54318159	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	4647755	54318159	36036594	167	8323										
MT1H	4496	broad.mit.edu	37	chr16	56704808	56704808	+	Splice_Site	SNP	A	T	T													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ttctctctccctttttccccAggctgctgctcctgttgccc							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr16:56704808A>T	uc002ejw.2	+	3	166	c.95_splice	c.e3-2	p.S32_splice	MT1G_uc002eju.1_5'Flank|MT1G_uc002ejv.1_5'Flank	NM_005951	NP_005942	P80294	MT1H_HUMAN	metallothionein 1H								metal ion binding|protein binding				0						CTTTTTCCCCAGGCTGCTGCT	0.622													22	99	---	---	---	---	PASS	T	56704808	T	T	56704808	5	4	15	1	0	0	0	0	0	0	1	0	9902	202	7	5	103	5	MT1H	16	56704808	Splice_Site	SNP	A	TCGA-18-4086-01A-01D-1352-08	2386649	56704808	33649945	168	8324	248	2								
MT1H	4496	broad.mit.edu	37	chr16	56704809	56704809	+	Splice_Site	SNP	G	T	T													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tctctctccctttttccccaGgctgctgctcctgttgcccc							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr16:56704809G>T	uc002ejw.2	+	3	166	c.95_splice	c.e3-1	p.S32_splice	MT1G_uc002eju.1_5'Flank|MT1G_uc002ejv.1_5'Flank	NM_005951	NP_005942	P80294	MT1H_HUMAN	metallothionein 1H								metal ion binding|protein binding				0						TTTTTCCCCAGGCTGCTGCTC	0.617													22	101	---	---	---	---	PASS	T	56704809	T	T	56704809	5	4	15	1	0	0	0	0	0	0	1	0	9902	1014	35	3	104	3	MT1H	16	56704809	Splice_Site	SNP	G	TCGA-18-4086-01A-01D-1352-08	1	56704809	33649944	169	8325	248	2								
PLEKHG4	25894	broad.mit.edu	37	chr16	67316121	67316121	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	caggaggtcggtcagctgctAcagcagacagaggtcctgat	14	10	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr16:67316121A>T	uc002eso.3	+	8	3657	c.1122A>T	c.(1120-1122)CTA>CTT	p.L374L	PLEKHG4_uc002esp.3_Silent_p.L181L|PLEKHG4_uc002esq.3_Silent_p.L374L|PLEKHG4_uc010cef.2_Silent_p.L374L|PLEKHG4_uc002ess.3_Silent_p.L374L|PLEKHG4_uc010ceg.2_Silent_p.L293L	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	374					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		GTCAGCTGCTACAGCAGACAG	0.602													27	85	---	---	---	---	PASS	T	67316121	T	T	67316121	2	4	15	1	0	0	0	0	0	0	0	1	12071	378	14	5		5	PLEKHG4	16	67316121	Silent	SNP	A	TCGA-18-4086-01A-01D-1352-08	10611312	67316121	23038632	170	8326										
PARD6A	50855	broad.mit.edu	37	chr16	67695950	67695950	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	caggtttcctcagtcatagaCgtggacctactgcctgagac	10	12	2	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr16:67695950C>G	uc002ett.2	+	3	532	c.441C>G	c.(439-441)GAC>GAG	p.D147E	ACD_uc002etp.3_5'Flank|ACD_uc002etq.3_5'Flank|ACD_uc002etr.3_5'Flank|ACD_uc010vjt.1_5'Flank|PARD6A_uc002ets.2_Missense_Mutation_p.D146E|PARD6A_uc002etu.2_5'UTR	NM_016948	NP_058644	Q9NPB6	PAR6A_HUMAN	par-6 partitioning defective 6 homolog alpha	147	Pseudo-CRIB.|Interaction with PARD3 and CDC42 (By similarity).				cell cycle|cell division|cell-cell junction maintenance|tight junction assembly|viral reproduction	cytosol|nucleus|ruffle|tight junction	GTP-dependent protein binding|Rho GTPase binding|transcription factor binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		CAGTCATAGACGTGGACCTAC	0.627													14	58	---	---	---	---	PASS	G	67695950	G	G	67695950	3	3	15	1	0	0	0	0	1	0	0	0	11445	535	19	4	451	4	PARD6A	16	67695950	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	379829	67695950	22658803	171	8327										
TP53	7157	broad.mit.edu	37	chr17	7577609	7577609	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gtggtacagtcagagccaacCtaggagataacacaggccca	11	11	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr17:7577609C>A	uc002gim.2	-	7	867	c.673_splice	c.e7-1	p.V225_splice	TP53_uc002gig.1_Splice_Site_p.V225_splice|TP53_uc002gih.2_Splice_Site_p.V225_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Splice_Site_p.V93_splice|TP53_uc010cng.1_Splice_Site_p.V93_splice|TP53_uc002gii.1_Splice_Site_p.V93_splice|TP53_uc010cnh.1_Splice_Site_p.V225_splice|TP53_uc010cni.1_Splice_Site_p.V225_splice|TP53_uc002gij.2_Splice_Site_p.V225_splice|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						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.?(12)|p.0?(7)|p.V225fs*24(1)|p.E224_V225insXX(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)		CAGAGCCAACCTAGGAGATAA	0.488		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)			34	21	---	---	---	---	PASS	A	7577609	A	A	7577609	5	1	15	1	0	0	0	0	0	0	1	0	16378	695	24	3	618	3	TP53	17	7577609	Splice_Site	SNP	C	TCGA-18-4086-01A-01D-1352-08		7577609	73617601	172	8328										
ALOX15B	247	broad.mit.edu	37	chr17	7950907	7950907	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	ccctcctcactggagacccgGgaagccctggtgcagtatgt	12	14	1	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr17:7950907G>T	uc002gju.2	+	12	1721	c.1605G>T	c.(1603-1605)CGG>CGT	p.R535R	ALOX15B_uc002gjv.2_Silent_p.R506R|ALOX15B_uc002gjw.2_Silent_p.R461R|ALOX15B_uc010vun.1_Silent_p.R523R|ALOX15B_uc010cnp.2_Silent_p.R341R	NM_001141	NP_001132	O15296	LX15B_HUMAN	arachidonate 15-lipoxygenase, second type	535	Lipoxygenase.				induction of apoptosis|leukotriene biosynthetic process|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of growth|prostate gland development|regulation of epithelial cell differentiation	cytoplasm	arachidonate 15-lipoxygenase activity|iron ion binding|lipoxygenase activity			ovary(1)	1						TGGAGACCCGGGAAGCCCTGG	0.632													7	6	---	---	---	---	PASS	T	7950907	T	T	7950907	2	4	15	1	0	0	0	0	0	0	0	1	539	1219	43	3		3	ALOX15B	17	7950907	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	373298	7950907	73244303	173	8329										
NEK8	284086	broad.mit.edu	37	chr17	27064993	27064993	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcagaaagccggcgtcacgcGctctgggcgtctcatcctgt	13	14	3	1	rs140363905	byFrequency	TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr17:27064993G>T	uc002hcp.2	+	7	1046	c.1046G>T	c.(1045-1047)CGC>CTC	p.R349L		NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	349	RCC1 1.					cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					GGCGTCACGCGCTCTGGGCGT	0.701													19	50	---	---	---	---	PASS	T	27064993	T	T	27064993	3	4	15	1	0	0	0	0	1	0	0	0	10330	1087	38	1	1072	1	NEK8	17	27064993	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	19114086	27064993	54130217	174	8330										
PIP4K2B	8396	broad.mit.edu	37	chr17	36940564	36940564	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	caccatggggcaatactcctTaaacttaaagcggctgggca	10	11	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr17:36940564T>G	uc002hqs.2	-	3	767	c.286A>C	c.(286-288)AAG>CAG	p.K96Q	PIP4K2B_uc010wdt.1_Missense_Mutation_p.K96Q|PIP4K2B_uc010wdu.1_Missense_Mutation_p.K32Q	NM_003559	NP_003550	P78356	PI42B_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	96	PIPK.				cell surface receptor linked signaling pathway	endoplasmic reticulum membrane|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|receptor signaling protein activity			ovary(1)	1						CAATACTCCTTAAACTTAAAG	0.433													14	34	---	---	---	---	PASS	G	36940564	G	G	36940564	3	3	15	1	0	0	0	0	1	0	0	0	11937	1763	61	5	996	5	PIP4K2B	17	36940564	Missense_Mutation	SNP	T	TCGA-18-4086-01A-01D-1352-08	9875571	36940564	44254646	175	8331										
UNK	85451	broad.mit.edu	37	chr17	73780747	73780747	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tccgggacactagcagcaagGatccctgggtattgtggtcc	13	11	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr17:73780747G>A	uc002jpm.2	+	1	67	c.67G>A	c.(67-69)GAT>AAT	p.D23N	UNK_uc002jpn.2_5'Flank|UNK_uc002jpo.2_5'Flank	NM_001080419	NP_001073888	Q9C0B0	UNK_HUMAN	zinc finger CCCH-type domain containing 5	Error:Variant_position_missing_in_Q9C0B0_after_alignment							nucleic acid binding|zinc ion binding				0			all cancers(21;2.61e-06)|Epithelial(20;7.39e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|LUSC - Lung squamous cell carcinoma(166;0.154)			TAGCAGCAAGGATCCCTGGGT	0.562													4	14	---	---	---	---	PASS	A	73780747	A	A	73780747	3	1	15	1	0	0	0	0	1	0	0	0	16997	1174	41	2	69	2	UNK	17	73780747	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	36840183	73780747	7414463	176	8332										
MFSD11	79157	broad.mit.edu	37	chr17	74771143	74771143	+	Frame_Shift_Del	DEL	G	-	-													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agaaatccagttgtgctgttGggcatcctggtgcacttcat							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr17:74771143delG	uc002jta.2	+	12	1912	c.939delG	c.(937-939)TTGfs	p.L313fs	MFSD11_uc002jtb.2_Frame_Shift_Del_p.L313fs|MFSD11_uc010dha.2_Frame_Shift_Del_p.L261fs|MFSD11_uc002jtc.2_Frame_Shift_Del_p.L313fs|MFSD11_uc002jtd.3_Frame_Shift_Del_p.L313fs|MFSD11_uc010dhb.2_Frame_Shift_Del_p.L261fs|MFSD11_uc002jte.2_Frame_Shift_Del_p.L313fs	NM_024311	NP_077287	O43934	MFS11_HUMAN	major facilitator superfamily domain containing	313	Helical; (Potential).					integral to membrane				ovary(1)	1						TTGTGCTGTTGGGCATCCTGG	0.453													173	79	---	---	---	---		-	74771143	-	-	74771143	7	5	15	1	0	1	0	1	0	0	0	0	9529	1339	47	0	981	0	MFSD11	17	74771143	Frame_Shift_Del	DEL	G	TCGA-18-4086-01A-01D-1352-08	990396	74771143	6424067	177	8333										
PPP4R1	9989	broad.mit.edu	37	chr18	9583268	9583268	+	Frame_Shift_Del	DEL	G	-	-													0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gaacaaagctggaaaaatctGggcagctatgtgaaaaggaa							TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr18:9583268delG	uc002koe.1	-	9	883	c.765delC	c.(763-765)CCCfs	p.P255fs	PPP4R1_uc010wzo.1_Intron|PPP4R1_uc002kod.1_Frame_Shift_Del_p.P238fs|PPP4R1_uc010wzp.1_RNA	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	255	HEAT 8.				protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						GGAAAAATCTGGGCAGCTATG	0.398													36	19	---	---	---	---		-	9583268	-	-	9583268	7	5	15	1	0	1	0	1	0	0	0	0	12403	1335	47	0	2135	0	PPP4R1	18	9583268	Frame_Shift_Del	DEL	G	TCGA-18-4086-01A-01D-1352-08		9583268	68493980	178	8334										
C19orf26	255057	broad.mit.edu	37	chr19	1235847	1235847	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cgccagacaacaccaccagcGtgccccccacgaacagcgac	8	20	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr19:1235847G>A	uc002lrm.2	-	3	433	c.158C>T	c.(157-159)ACG>ATG	p.T53M		NM_152769	NP_689982	Q8N350	DOS_HUMAN	downstream of Stk11	53	Helical; (Potential).					integral to membrane					0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACCACCAGCGTGCCCCCCAC	0.677										HNSCC(14;0.022)			38	70	---	---	---	---	PASS	A	1235847	A	A	1235847	3	1	15	1	0	0	0	0	1	0	0	0	1916	1145	40	1	1213	1	C19orf26	19	1235847	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08		1235847	57893136	179	8335										
CD209	30835	broad.mit.edu	37	chr19	7812232	7812232	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cgagtctgtcggaatccaagGcctctcagctgttcctcctc	9	15	2	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr19:7812232G>A	uc002mht.2	-	2	133	c.66C>T	c.(64-66)GGC>GGT	p.G22G	CD209_uc010xju.1_Silent_p.G22G|CD209_uc010dvp.2_Silent_p.G22G|CD209_uc002mhr.2_Silent_p.G22G|CD209_uc002mhs.2_Silent_p.G22G|CD209_uc002mhu.2_Silent_p.G22G|CD209_uc010dvq.2_Silent_p.G22G|CD209_uc002mhq.2_Silent_p.G22G|CD209_uc002mhv.2_Silent_p.G22G|CD209_uc002mhx.2_Intron|CD209_uc002mhw.2_Intron|CD209_uc010dvr.2_Silent_p.G22G	NM_021155	NP_066978	Q9NNX6	CD209_HUMAN	CD209 molecule isoform 1	22	Cytoplasmic (Probable).				cell-cell recognition|endocytosis|heterophilic cell-cell adhesion|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to membrane|plasma membrane	mannose binding|metal ion binding|peptide antigen binding|receptor activity|virion binding			skin(1)	1						GGAATCCAAGGCCTCTCAGCT	0.443													133	416	---	---	---	---	PASS	A	7812232	A	A	7812232	2	1	15	1	0	0	0	0	0	0	0	1	2984	1190	42	3		3	CD209	19	7812232	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	6576385	7812232	51316751	180	8336										
MUC16	94025	broad.mit.edu	37	chr19	9084935	9084935	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	catagctgaactcatccaatCcccaggaataggtgtcactc	7	13	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr19:9084935C>A	uc002mkp.2	-	1	7084	c.6880G>T	c.(6880-6882)GAT>TAT	p.D2294Y		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2294	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTCATCCAATCCCCAGGAATA	0.458													8	15	---	---	---	---	PASS	A	9084935	A	A	9084935	3	1	15	1	0	0	0	0	1	0	0	0	9973	855	30	2	36979	2	MUC16	19	9084935	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	1272703	9084935	50044048	181	8337										
DAND5	199699	broad.mit.edu	37	chr19	13084218	13084218	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cccaggtgttctcccggcccGgctgctcagccatacgcctc	10	19	2	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr19:13084218G>A	uc002mwc.1	+	2	383	c.340G>A	c.(340-342)GGC>AGC	p.G114S	DAND5_uc010dyz.1_3'UTR	NM_152654	NP_689867	Q8N907	DAND5_HUMAN	dante precursor	114	CTCK.					extracellular region				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(19;1.87e-18)			CTCCCGGCCCGGCTGCTCAGC	0.617													29	81	---	---	---	---	PASS	A	13084218	A	A	13084218	3	1	15	1	0	0	0	0	1	0	0	0	4230	1116	39	1	346	1	DAND5	19	13084218	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	3999283	13084218	46044765	182	8338										
CPAMD8	27151	broad.mit.edu	37	chr19	17122287	17122287	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	atctcaccttctcgttgacaGgcctcagatttggagagacg	10	11	3	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr19:17122287G>A	uc002nfb.2	-	5	646	c.614C>T	c.(613-615)CCT>CTT	p.P205L		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	158						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						CTCGTTGACAGGCCTCAGATT	0.572													40	101	---	---	---	---	PASS	A	17122287	A	A	17122287	3	1	15	1	0	0	0	0	1	0	0	0	3795	1000	35	3	5336	3	CPAMD8	19	17122287	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	4038069	17122287	42006696	183	8339										
CAPN12	147968	broad.mit.edu	37	chr19	39230753	39230753	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcgcagggcagagaacagccCcatgctgttttgtctcagat	12	11	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr19:39230753C>T	uc002ojd.1	-	5	976	c.667G>A	c.(667-669)GGG>AGG	p.G223R		NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	223	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			GAGAACAGCCCCATGCTGTTT	0.627													16	32	---	---	---	---	PASS	T	39230753	T	T	39230753	3	4	15	1	0	0	0	0	1	0	0	0	2625	623	22	3	1560	3	CAPN12	19	39230753	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	22108466	39230753	19898230	184	8340										
LGALS14	56891	broad.mit.edu	37	chr19	40199883	40199883	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	caactttgcccatcgattccCgccagcatctgtgaagatgc	8	14	1	2	rs141177809	by1000genomes	TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr19:40199883C>A	uc002omg.2	+	4	573	c.350C>A	c.(349-351)CCG>CAG	p.P117Q	LGALS14_uc002omf.2_Missense_Mutation_p.P146Q	NM_020129	NP_064514	Q8TCE9	PPL13_HUMAN	lectin, galactoside-binding, soluble, 14 isoform	117	Galectin.					nucleus	sugar binding			ovary(1)|skin(1)	2	all_cancers(60;4.39e-06)|all_lung(34;6.76e-08)|Lung NSC(34;7.98e-08)|Ovarian(47;0.06)	Myeloproliferative disorder(2;0.0741)	Epithelial(26;1.08e-24)|OV - Ovarian serous cystadenocarcinoma(5;1.92e-24)|all cancers(26;4.12e-22)			CATCGATTCCCGCCAGCATCT	0.463													11	40	---	---	---	---	PASS	A	40199883	A	A	40199883	3	1	15	1	0	0	0	0	1	0	0	0	8741	652	23	1	470	1	LGALS14	19	40199883	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	969130	40199883	18929100	185	8341										
MEGF8	1954	broad.mit.edu	37	chr19	42880163	42880163	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	cagtgctggtggtccgcggcGtgcgggaccggctggtcatc	18	12	1	0	rs148860986		TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr19:42880163G>T	uc002otl.3	+	41	8208	c.7573G>T	c.(7573-7575)GTG>TTG	p.V2525L	MEGF8_uc002otm.3_Missense_Mutation_p.V2133L|MEGF8_uc002otn.3_Missense_Mutation_p.V186L	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	2592	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				GGTCCGCGGCGTGCGGGACCG	0.692													8	52	---	---	---	---	PASS	T	42880163	T	T	42880163	3	4	15	1	0	0	0	0	1	0	0	0	9463	1145	40	1	7735	1	MEGF8	19	42880163	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	2680280	42880163	16248820	186	8342										
GRWD1	83743	broad.mit.edu	37	chr19	48953722	48953722	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	caggcccaaatgaagcccatCttctccttcgctggacacat	7	15	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr19:48953722C>G	uc002pjd.2	+	4	854	c.621C>G	c.(619-621)ATC>ATG	p.I207M		NM_031485	NP_113673	Q9BQ67	GRWD1_HUMAN	glutamate-rich WD repeat containing 1	207						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)		TGAAGCCCATCTTCTCCTTCG	0.667													32	85	---	---	---	---	PASS	G	48953722	G	G	48953722	3	3	15	1	0	0	0	0	1	0	0	0	6811	903	32	2	635	2	GRWD1	19	48953722	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	6073559	48953722	10175261	187	8343										
PIH1D1	55011	broad.mit.edu	37	chr19	49949859	49949859	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tcatgagagttgatctgcagCgggatataagcgtctagatg	13	6	3	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr19:49949859C>A	uc002pns.2	-	8	1064	c.780G>T	c.(778-780)CCG>CCT	p.P260P	uc002pnr.1_5'Flank	NM_017916	NP_060386	Q9NWS0	PIHD1_HUMAN	NOP17	260					box C/D snoRNP assembly	pre-snoRNP complex					0		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00152)|GBM - Glioblastoma multiforme(486;0.0244)		TGATCTGCAGCGGGATATAAG	0.627													34	101	---	---	---	---	PASS	A	49949859	A	A	49949859	2	1	15	1	0	0	0	0	0	0	0	1	11906	755	27	1		1	PIH1D1	19	49949859	Silent	SNP	C	TCGA-18-4086-01A-01D-1352-08	996137	49949859	9179124	188	8344										
LILRB4	11006	broad.mit.edu	37	chr19	55179347	55179347	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gctgcatctgaagccccccaGgatgtgacctacgcccagct	10	16	1	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr19:55179347G>A	uc002qgp.2	+	12	1586	c.1224G>A	c.(1222-1224)CAG>CAA	p.Q408Q	LILRB4_uc002qgq.2_Silent_p.Q407Q|LILRB4_uc002qgr.2_Silent_p.Q450Q|LILRB4_uc010ert.2_Silent_p.Q449Q|LILRB4_uc010eru.2_Silent_p.Q438Q	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	408	Cytoplasmic (Potential).					integral to membrane|plasma membrane	antigen binding|receptor activity			ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)		AAGCCCCCCAGGATGTGACCT	0.642													32	88	---	---	---	---	PASS	A	55179347	A	A	55179347	2	1	15	1	0	0	0	0	0	0	0	1	8793	991	35	3		3	LILRB4	19	55179347	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	5229488	55179347	3949636	189	8345										
ZNF544	27300	broad.mit.edu	37	chr19	58772270	58772270	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	attctgaaaaagatcgagctAgggaagaactatcccaccac	8	10	1	3			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr19:58772270A>G	uc010euo.2	+	7	772	c.298A>G	c.(298-300)AGG>GGG	p.R100G	ZNF544_uc010yhw.1_Intron|ZNF544_uc010yhx.1_Missense_Mutation_p.R72G|ZNF544_uc010yhy.1_Missense_Mutation_p.R72G|ZNF544_uc002qrt.3_5'UTR|ZNF544_uc002qru.3_5'UTR|uc002qrx.1_Intron	NM_014480	NP_055295	Q6NX49	ZN544_HUMAN	zinc finger protein 544	100					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		all_cancers(17;4.17e-12)|all_epithelial(17;1.25e-08)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.17)|GBM - Glioblastoma multiforme(193;0.018)		AGATCGAGCTAGGGAAGAACT	0.443													9	18	---	---	---	---	PASS	G	58772270	G	G	58772270	3	3	15	1	0	0	0	0	1	0	0	0	17974	411	15	5	312	5	ZNF544	19	58772270	Missense_Mutation	SNP	A	TCGA-18-4086-01A-01D-1352-08	3592923	58772270	356713	190	8346										
C20orf54	113278	broad.mit.edu	37	chr20	746322	746322	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gtaccagccctcgggcagctCcatcaccagcaggggcagct	12	16	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr20:746322C>A	uc002wed.3	-	2	436	c.97G>T	c.(97-99)GAG>TAG	p.E33*	C20orf54_uc002wee.2_Nonsense_Mutation_p.E33*	NM_033409	NP_212134	Q9NQ40	RFT2_HUMAN	hypothetical protein LOC113278 precursor	33					sensory perception of sound	integral to plasma membrane	riboflavin transporter activity			ovary(2)	2						TCGGGCAGCTCCATCACCAGC	0.647													11	23	---	---	---	---	PASS	A	746322	A	A	746322	4	1	15	1	0	0	0	0	0	1	0	0	2114	864	30	2	1328	2	C20orf54	20	746322	Nonsense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08		746322	62279198	191	8347										
EPB41L1	2036	broad.mit.edu	37	chr20	34797497	34797497	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	acacaggcgatgaggaccagGaccaggagagggacacggtg	17	9	0	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr20:34797497G>C	uc002xfb.2	+	15	1927	c.1756G>C	c.(1756-1758)GAC>CAC	p.D586H	EPB41L1_uc002xeu.2_Missense_Mutation_p.D512H|EPB41L1_uc010zvo.1_Missense_Mutation_p.D586H|EPB41L1_uc002xev.2_Missense_Mutation_p.D586H|EPB41L1_uc002xew.2_Missense_Mutation_p.D477H|EPB41L1_uc002xex.2_Intron|EPB41L1_uc002xey.2_Intron|EPB41L1_uc002xez.2_Missense_Mutation_p.D512H|EPB41L1_uc010gfq.2_Missense_Mutation_p.D685H	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	586					cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					TGAGGACCAGGACCAGGAGAG	0.607													15	36	---	---	---	---	PASS	C	34797497	C	C	34797497	3	2	15	1	0	0	0	0	1	0	0	0	5152	1174	41	2	1810	2	EPB41L1	20	34797497	Missense_Mutation	SNP	G	TCGA-18-4086-01A-01D-1352-08	34051175	34797497	28228023	192	8348										
CHD6	84181	broad.mit.edu	37	chr20	40049481	40049481	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcactgacaggctgctggagCggggaaagccctctgtagcc	15	12	1	1	rs113050531		TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr20:40049481C>A	uc002xka.1	-	31	5972	c.5794G>T	c.(5794-5796)GCT>TCT	p.A1932S		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1932					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				GCTGCTGGAGCGGGGAAAGCC	0.498													50	106	---	---	---	---	PASS	A	40049481	A	A	40049481	3	1	15	1	0	0	0	0	1	0	0	0	3329	768	27	1	2381	1	CHD6	20	40049481	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	5251984	40049481	22976039	193	8349										
MYBL2	4605	broad.mit.edu	37	chr20	42328597	42328597	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	tccccaccagaaacgagcctGccttacaagtgggtggtgga	12	12	0	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr20:42328597G>T	uc002xlb.1	+	7	1079	c.864G>T	c.(862-864)CTG>CTT	p.L288L	MYBL2_uc010zwj.1_Silent_p.L264L|MYBL2_uc002xla.1_Silent_p.L288L	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	288						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AAACGAGCCTGCCTTACAAGT	0.582													21	29	---	---	---	---	PASS	T	42328597	T	T	42328597	2	4	15	1	0	0	0	0	0	0	0	1	10010	1306	46	3		3	MYBL2	20	42328597	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08	2279116	42328597	20696923	194	8350										
KRTAP10-7	386675	broad.mit.edu	37	chr21	46020944	46020944	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agtggggattcttcatgctgCcagcagtctagctgccagtc	12	11	3	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr21:46020944C>A	uc002zfn.3	+	2	433	c.408C>A	c.(406-408)TGC>TGA	p.C136*	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198689	NP_941962	P60409	KR107_HUMAN	keratin associated protein 10-7	141	9.|30 X 5 AA repeats of C-C-X(3).					keratin filament					0						CTTCATGCTGCCAGCAGTCTA	0.617													37	120	---	---	---	---	PASS	A	46020944	A	A	46020944	4	1	15	1	0	0	0	0	0	1	0	0	8514	747	26	3	414	3	KRTAP10-7	21	46020944	Nonsense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08		46020944	2108951	195	8351										
GSTT2	2953	broad.mit.edu	37	chr22	24323194	24323194	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agcctggggaaactgccgacGctcaaggatggtgatttcat	13	9	2	1			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr22:24323194G>T	uc002zzb.3	+	2	243	c.168G>T	c.(166-168)ACG>ACT	p.T56T	DDT_uc002zza.3_5'Flank|GSTT2_uc002zzc.3_Silent_p.T56T	NM_000854	NP_000845	P0CG30	GSTT2_HUMAN	glutathione S-transferase theta 2	56	GST N-terminal.					cytoplasm	glutathione transferase activity				0						AACTGCCGACGCTCAAGGATG	0.557													22	172	---	---	---	---	PASS	T	24323194	T	T	24323194	2	4	15	1	0	0	0	0	0	0	0	1	6846	1074	38	1		1	GSTT2	22	24323194	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08		24323194	26981372	196	8352										
SEZ6L	23544	broad.mit.edu	37	chr22	26688759	26688759	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agatctcctctcctcctccaCggagaagcctggcccaccgg	9	18	2	2			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr22:26688759C>A	uc003acb.2	+	2	638	c.482C>A	c.(481-483)ACG>AAG	p.T161K	SEZ6L_uc003acc.2_Missense_Mutation_p.T161K|SEZ6L_uc011akc.1_Missense_Mutation_p.T161K|SEZ6L_uc003acd.2_Missense_Mutation_p.T161K|SEZ6L_uc011akd.1_Missense_Mutation_p.T161K|SEZ6L_uc003ace.2_Missense_Mutation_p.T161K|SEZ6L_uc003acf.1_5'UTR|SEZ6L_uc010gvc.1_5'UTR	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	161	Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane		p.T161M(1)		ovary(4)|central_nervous_system(1)|pancreas(1)	6						TCCTCCTCCACGGAGAAGCCT	0.677													25	55	---	---	---	---	PASS	A	26688759	A	A	26688759	3	1	15	1	0	0	0	0	1	0	0	0	14143	536	19	1	488	1	SEZ6L	22	26688759	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	2365565	26688759	24615807	197	8353										
IL2RB	3560	broad.mit.edu	37	chr22	37539578	37539578	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	caccgtctgtccggccaggcAtggacttggcaggaagtgtc	14	12	1	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chr22:37539578A>G	uc003aqv.1	-	3	317	c.186T>C	c.(184-186)CAT>CAC	p.H62H		NM_000878	NP_000869	P14784	IL2RB_HUMAN	interleukin 2 receptor beta precursor	62	Extracellular (Potential).				interspecies interaction between organisms|positive regulation of survival gene product expression|protein complex assembly	external side of plasma membrane|integral to plasma membrane	interleukin-2 receptor activity				0					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	CCGGCCAGGCATGGACTTGGC	0.547													15	37	---	---	---	---	PASS	G	37539578	G	G	37539578	2	3	15	1	0	0	0	0	0	0	0	1	7687	214	8	5		5	IL2RB	22	37539578	Silent	SNP	A	TCGA-18-4086-01A-01D-1352-08	10850819	37539578	13764988	198	8354										
AR	367	broad.mit.edu	37	chrX	66766596	66766596	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	agctactccggaccttacggGgacatgcggtaagtttttcc	11	11	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chrX:66766596G>C	uc004dwu.1	+	1	2723	c.1608G>C	c.(1606-1608)GGG>GGC	p.G536G	AR_uc011mpd.1_Silent_p.G536G|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Silent_p.G536G	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	535	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	GACCTTACGGGGACATGCGGT	0.572									Androgen_Insensitivity_Syndrome				7	4	---	---	---	---	PASS	C	66766596	C	C	66766596	2	2	15	1	0	0	0	0	0	0	0	1	836	1219	43	4		4	AR	23	66766596	Silent	SNP	G	TCGA-18-4086-01A-01D-1352-08		66766596	88503964	199	8355										
GLUD2	2747	broad.mit.edu	37	chrX	120181666	120181666	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0974358974358974	19	0.0124288075237837	1.83531312127237	2.71511471710279	1.07827453881363	0.0665849696120301	0.321693358314871	9	gcccgccgccgcctcgcagcCggggctcgcattggccgccc	14	21	0	0			TCGA-18-4086-01A-01D-1352-08	TCGA-18-4086-11A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	9bbdf36b-6804-416f-977d-fce772972bcc	82f334b9-d8be-4c5e-9a9d-1124c000cccd	g.chrX:120181666C>T	uc004eto.2	+	1	205	c.128C>T	c.(127-129)CCG>CTG	p.P43L		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	43					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	GCCTCGCAGCCGGGGCTCGCA	0.751													10	19	---	---	---	---	PASS	T	120181666	T	T	120181666	3	4	15	1	0	0	0	0	1	0	0	0	6477	652	23	1	130	1	GLUD2	23	120181666	Missense_Mutation	SNP	C	TCGA-18-4086-01A-01D-1352-08	53415070	120181666	35088894	200	8356										
PLA2G2C	391013	broad.mit.edu	37	chr1	20501520	20501520	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctgtcagtgtcatccacgggGatccctttatccccaagccc	8	16	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:20501520G>T	uc009vpq.1	-	1	168	c.168C>A	c.(166-168)ATC>ATA	p.I56I		NM_001105572	NP_001099042			phospholipase A2, group IIC precursor												0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.14e-05)|BRCA - Breast invasive adenocarcinoma(304;8.01e-05)|Kidney(64;0.000171)|GBM - Glioblastoma multiforme(114;0.000528)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CATCCACGGGGATCCCTTTAT	0.502													9	33	---	---	---	---	PASS	T	20501520	T	T	20501520	2	4	16	1	0	0	0	0	0	0	0	1	11996	1164	41	2		2	PLA2G2C	1	20501520	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08		20501520	228749101	1	8357										
DEPDC1	55635	broad.mit.edu	37	chr1	68949739	68949739	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	acatctcgttcaaatccaacAtaagttggattattcatatc	4	9	3	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:68949739A>G	uc001dem.3	-	7	921	c.804T>C	c.(802-804)TAT>TAC	p.Y268Y	DEPDC1_uc001dej.3_5'Flank|DEPDC1_uc001dek.3_RNA|DEPDC1_uc001del.3_Silent_p.Y268Y	NM_001114120	NP_001107592	Q5TB30	DEP1A_HUMAN	DEP domain containing 1 isoform a	268					intracellular signal transduction|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	GTPase activator activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(397;7.21e-36)		CAAATCCAACATAAGTTGGAT	0.279													25	64	---	---	---	---	PASS	G	68949739	G	G	68949739	2	3	16	1	0	0	0	0	0	0	0	1	4439	224	8	5		5	DEPDC1	1	68949739	Silent	SNP	A	TCGA-18-4721-01A-01D-1441-08	48448219	68949739	180300882	2	8358										
CLCA1	1179	broad.mit.edu	37	chr1	86952423	86952423	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gtccatctgcagcgggcttcGatcggcatttactgtgagat	12	10	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:86952423G>T	uc001dlt.2	+	7	1298	c.1169G>T	c.(1168-1170)CGA>CTA	p.R390L	CLCA1_uc001dls.1_Missense_Mutation_p.R329L	NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	390	VWFA.				calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		AGCGGGCTTCGATCGGCATTT	0.438													34	75	---	---	---	---	PASS	T	86952423	T	T	86952423	3	4	16	1	0	0	0	0	1	0	0	0	3457	1058	37	2	1195	2	CLCA1	1	86952423	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	18002684	86952423	162298198	3	8359										
AP4B1	10717	broad.mit.edu	37	chr1	114445388	114445388	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ggagcatatgtgcacatgtaCagataaaccaacttcttctg	8	9	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:114445388C>A	uc001eeb.2	-	2	353	c.210G>T	c.(208-210)CTG>CTT	p.L70L	AP4B1_uc001eec.2_Intron|AP4B1_uc001eed.2_Silent_p.L70L|AP4B1_uc010owp.1_Intron|AP4B1_uc001eea.1_5'Flank|AP4B1_uc010owq.1_Silent_p.L70L|DCLRE1B_uc001eeg.2_5'Flank|DCLRE1B_uc001eeh.2_5'Flank|DCLRE1B_uc001eei.2_5'Flank	NM_006594	NP_006585	Q9Y6B7	AP4B1_HUMAN	adaptor-related protein complex 4, beta 1	70					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|soluble fraction|trans-Golgi network	protein binding|protein transporter activity			ovary(3)|central_nervous_system(1)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.1e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGCACATGTACAGATAAACCA	0.488													34	61	---	---	---	---	PASS	A	114445388	A	A	114445388	2	1	16	1	0	0	0	0	0	0	0	1	751	465	17	3		3	AP4B1	1	114445388	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	27492965	114445388	134805233	4	8360										
CD58	965	broad.mit.edu	37	chr1	117078706	117078706	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tcttaaaatatatactggttGagttacgtttacattgctcc	6	7	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:117078706G>C	uc001egm.2	-	3	630	c.509C>G	c.(508-510)TCA>TGA	p.S170*	CD58_uc001egn.2_RNA|CD58_uc010owy.1_Nonsense_Mutation_p.S170*|CD58_uc001ego.1_Intron|CD58_uc001egp.3_Nonsense_Mutation_p.S170*	NM_001779	NP_001770	P19256	LFA3_HUMAN	CD58 molecule isoform 1	170	Extracellular (Potential).|Ig-like C2-type.				blood coagulation|cell-cell adhesion|leukocyte migration	anchored to membrane|integral to plasma membrane	protein binding				0	Lung SC(450;0.225)	all_cancers(81;0.000363)|all_lung(203;0.000118)|all_epithelial(167;0.000149)|Lung NSC(69;0.000577)		Lung(183;0.0086)|LUSC - Lung squamous cell carcinoma(189;0.0528)|Colorectal(144;0.0775)|all cancers(265;0.109)|Epithelial(280;0.118)|COAD - Colon adenocarcinoma(174;0.121)		TATACTGGTTGAGTTACGTTT	0.343													18	63	---	---	---	---	PASS	C	117078706	C	C	117078706	4	2	16	1	0	0	0	0	0	1	0	0	3025	1294	45	2	263	2	CD58	1	117078706	Nonsense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	2633318	117078706	132171915	5	8361										
PDE4DIP	9659	broad.mit.edu	37	chr1	144880779	144880779	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tcccgttcagcctcattctcGcttcggccacaagtctcata	6	16	4	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:144880779G>A	uc001elw.3	-	26	4140	c.3849C>T	c.(3847-3849)AGC>AGT	p.S1283S	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Silent_p.S1239S|PDE4DIP_uc001elv.3_Silent_p.S290S	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1283					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CCTCATTCTCGCTTCGGCCAC	0.572			T	PDGFRB	MPD								24	528	---	---	---	---	PASS	A	144880779	A	A	144880779	2	1	16	1	0	0	0	0	0	0	0	1	11643	1078	38	1		1	PDE4DIP	1	144880779	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	27802073	144880779	104369842	6	8362										
FLG	2312	broad.mit.edu	37	chr1	152285005	152285005	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aagaccctgaacgtcgagacCtttcccctgaccggtcacgt	9	15	1	4			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:152285005C>A	uc001ezu.1	-	3	2393	c.2357G>T	c.(2356-2358)AGG>ATG	p.R786M	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	786	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACGTCGAGACCTTTCCCCTGA	0.557									Ichthyosis				44	457	---	---	---	---	PASS	A	152285005	A	A	152285005	3	1	16	1	0	0	0	0	1	0	0	0	5922	681	24	3	9832	3	FLG	1	152285005	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	7404226	152285005	96965616	7	8363										
KPRP	448834	broad.mit.edu	37	chr1	152732065	152732065	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgactggctgcatcaggaccAtgtgtgaccagcagcagatc	12	11	1	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:152732065A>G	uc001fal.1	+	2	59	c.1A>G	c.(1-3)ATG>GTG	p.M1V		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	1						cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CATCAGGACCATGTGTGACCA	0.607													19	38	---	---	---	---	PASS	G	152732065	G	G	152732065	3	3	16	1	0	0	0	0	1	0	0	0	8436	217	8	5	3	5	KPRP	1	152732065	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	447060	152732065	96518556	8	8364										
LMX1A	4009	broad.mit.edu	37	chr1	165322491	165322491	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gcagacagacttggggctcaCcgctctgcctgtagccacaa	11	14	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:165322491C>A	uc001gcy.1	-	2	306	c.85G>T	c.(85-87)GTG>TTG	p.V29L	LMX1A_uc001gcz.1_Missense_Mutation_p.V29L	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	29						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					TTGGGGCTCACCGCTCTGCCT	0.627													5	21	---	---	---	---	PASS	A	165322491	A	A	165322491	3	1	16	1	0	0	0	0	1	0	0	0	8861	507	18	3	1091	3	LMX1A	1	165322491	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	12590426	165322491	83928130	9	8365										
C1orf9	51430	broad.mit.edu	37	chr1	172520690	172520690	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	atgttgtaaagagagttcttCagcttcagcgtcatcatatt	8	7	5	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:172520690C>G	uc001giq.3	+	2	417	c.101C>G	c.(100-102)TCA>TGA	p.S34*	C1orf9_uc010pmm.1_Nonsense_Mutation_p.S34*|C1orf9_uc009wwd.2_Nonsense_Mutation_p.S34*|C1orf9_uc010pmn.1_Nonsense_Mutation_p.S34*|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	34					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		GAGAGTTCTTCAGCTTCAGCG	0.383													14	61	---	---	---	---	PASS	G	172520690	G	G	172520690	4	3	16	1	0	0	0	0	0	1	0	0	2067	838	29	2	107	2	C1orf9	1	172520690	Nonsense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	7198199	172520690	76729931	10	8366										
MRPS14	63931	broad.mit.edu	37	chr1	174987657	174987657	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gtctcttcacatcgcgccacAttctccagtctacatagtga	6	14	4	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:174987657A>G	uc001gkk.2	-	2	118	c.101T>C	c.(100-102)ATG>ACG	p.M34T	MRPS14_uc009wwr.2_Missense_Mutation_p.M19T	NM_022100	NP_071383	O60783	RT14_HUMAN	mitochondrial ribosomal protein S14	34					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0						ATCGCGCCACATTCTCCAGTC	0.438													20	152	---	---	---	---	PASS	G	174987657	G	G	174987657	3	3	16	1	0	0	0	0	1	0	0	0	9824	217	8	5	293	5	MRPS14	1	174987657	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	2466967	174987657	74262964	11	8367										
NPL	80896	broad.mit.edu	37	chr1	182781313	182781313	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tggatcaggtgataattcacGtaggagcactgagcttgaag	13	6	2	3	rs141892236	byFrequency	TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:182781313G>C	uc009wyb.2	+	6	393	c.253G>C	c.(253-255)GTA>CTA	p.V85L	NPL_uc010pnx.1_Missense_Mutation_p.V66L|NPL_uc010pny.1_RNA|NPL_uc001gpo.1_Missense_Mutation_p.V66L|NPL_uc009wyc.2_Missense_Mutation_p.V85L|NPL_uc001gpp.3_Missense_Mutation_p.V85L|NPL_uc001gpq.1_Missense_Mutation_p.V85L	NM_030769	NP_110396	Q9BXD5	NPL_HUMAN	N-acetylneuraminate pyruvate lyase	85					carbohydrate metabolic process	cytoplasm	N-acetylneuraminate lyase activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GATAATTCACGTAGGAGCACT	0.478													26	38	---	---	---	---	PASS	C	182781313	C	C	182781313	3	2	16	1	0	0	0	0	1	0	0	0	10585	1145	40	4	267	4	NPL	1	182781313	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	7793656	182781313	66469308	12	8368										
PRG4	10216	broad.mit.edu	37	chr1	186276765	186276765	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctcgcacccaccacccctgaGaagcccgcacccaccacccc	5	25	0	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:186276765G>A	uc001gru.3	+	7	1965	c.1914G>A	c.(1912-1914)GAG>GAA	p.E638E	PRG4_uc001grt.3_Silent_p.E597E|PRG4_uc009wyl.2_Silent_p.E545E|PRG4_uc009wym.2_Silent_p.E504E|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	638	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|37; approximate.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CCACCCCTGAGAAGCCCGCAC	0.682													7	24	---	---	---	---	PASS	A	186276765	A	A	186276765	2	1	16	1	0	0	0	0	0	0	0	1	12481	933	33	2		2	PRG4	1	186276765	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	3495452	186276765	62973856	13	8369										
LRRN2	10446	broad.mit.edu	37	chr1	204588134	204588134	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tggggcaggtggtggaaggcGcgggggtggatgaaggacag	24	4	0	1	rs114324888	by1000genomes	TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:204588134G>A	uc001hbe.1	-	3	1375	c.987C>T	c.(985-987)CGC>CGT	p.R329R	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Silent_p.R329R|LRRN2_uc009xbf.1_Silent_p.R329R|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	329	LRR 11.|Extracellular (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			GGTGGAAGGCGCGGGGGTGGA	0.607													23	25	---	---	---	---	PASS	A	204588134	A	A	204588134	2	1	16	1	0	0	0	0	0	0	0	1	9035	1074	38	1		1	LRRN2	1	204588134	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	18311369	204588134	44662487	14	8370										
USH2A	7399	broad.mit.edu	37	chr1	216424244	216424244	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aaacttttgcgttacacgtaCcaataacgtttgctttgcac	6	10	0	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:216424244C>G	uc001hku.1	-	12	2554	c.2167_splice	c.e12+1	p.G723_splice	USH2A_uc001hkv.2_Splice_Site_p.G723_splice	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B						maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GTTACACGTACCAATAACGTT	0.398										HNSCC(13;0.011)			12	19	---	---	---	---	PASS	G	216424244	G	G	216424244	5	3	16	1	0	0	0	0	0	0	1	0	17033	521	18	4	13698	4	USH2A	1	216424244	Splice_Site	SNP	C	TCGA-18-4721-01A-01D-1441-08	11836110	216424244	32826377	15	8371										
COG2	22796	broad.mit.edu	37	chr1	230796514	230796514	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctgcctttaggttggcatggAcaaagccctcaaccagcttt	9	12	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:230796514A>G	uc001htw.2	+	3	396	c.245A>G	c.(244-246)GAC>GGC	p.D82G	COG2_uc001htx.2_Missense_Mutation_p.D82G|COG2_uc010pwc.1_5'UTR	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	82					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				GTTGGCATGGACAAAGCCCTC	0.413													100	146	---	---	---	---	PASS	G	230796514	G	G	230796514	3	3	16	1	0	0	0	0	1	0	0	0	3658	275	10	5	255	5	COG2	1	230796514	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	14372270	230796514	18454107	16	8372										
FMN2	56776	broad.mit.edu	37	chr1	240341284	240341284	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	actcattggactattcagaaGggcagtttcctaggcgagtt	11	8	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:240341284G>T	uc010pyd.1	+	3	2071	c.1846G>T	c.(1846-1848)GGG>TGG	p.G616W	FMN2_uc010pye.1_Missense_Mutation_p.G616W	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	616					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CTATTCAGAAGGGCAGTTTCC	0.438													45	66	---	---	---	---	PASS	T	240341284	T	T	240341284	3	4	16	1	0	0	0	0	1	0	0	0	5950	1000	35	3	1856	3	FMN2	1	240341284	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	9544770	240341284	8909337	17	8373										
FMN2	56776	broad.mit.edu	37	chr1	240371038	240371038	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctcttcccggagcaggaataCctcctccaccccctctaccc	5	21	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr1:240371038C>A	uc010pyd.1	+	5	3151	c.2926C>A	c.(2926-2928)CCT>ACT	p.P976T	FMN2_uc010pye.1_Missense_Mutation_p.P980T	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	976	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AGCAGGAATACCTCCTCCACC	0.711													11	18	---	---	---	---	PASS	A	240371038	A	A	240371038	3	1	16	1	0	0	0	0	1	0	0	0	5950	507	18	3	2944	3	FMN2	1	240371038	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	29754	240371038	8879583	18	8374										
PXDN	7837	broad.mit.edu	37	chr2	1664699	1664699	+	Silent	SNP	C	A	A													0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gaggccgacccaatggtgttCcgggccacacactcatagcg							TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:1664699C>A	uc002qxa.2	-	14	1855	c.1791G>T	c.(1789-1791)CGG>CGT	p.R597R	PXDN_uc002qxb.1_Silent_p.R597R	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	597	Ig-like C2-type 4.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CAATGGTGTTCCGGGCCACAC	0.532													22	60	---	---	---	---	PASS	A	1664699	A	A	1664699	2	1	16	1	0	0	0	0	0	0	0	1	12847	842	30	2		2	PXDN	2	1664699	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08		1664699	241534674	19	8375	249	2								
PXDN	7837	broad.mit.edu	37	chr2	1664700	1664700	+	Missense_Mutation	SNP	C	A	A													0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aggccgacccaatggtgttcCgggccacacactcatagcga							TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:1664700C>A	uc002qxa.2	-	14	1854	c.1790G>T	c.(1789-1791)CGG>CTG	p.R597L	PXDN_uc002qxb.1_Missense_Mutation_p.R597L	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	597	Ig-like C2-type 4.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		AATGGTGTTCCGGGCCACACA	0.532													22	61	---	---	---	---	PASS	A	1664700	A	A	1664700	3	1	16	1	0	0	0	0	1	0	0	0	12847	652	23	1	2689	1	PXDN	2	1664700	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	1	1664700	241534673	20	8376	249	2								
ZNF512	84450	broad.mit.edu	37	chr2	27806571	27806571	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gcagaggagcacgaggatcgTgggagctaagaagtaagtga	17	5	0	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:27806571T>C	uc002rla.2	+	2	164	c.77T>C	c.(76-78)GTG>GCG	p.V26A	ZNF512_uc010ylv.1_5'UTR|ZNF512_uc010ylw.1_Missense_Mutation_p.V26A|ZNF512_uc002rlb.2_Intron|ZNF512_uc010ylx.1_5'UTR|ZNF512_uc002rlc.2_Intron|ZNF512_uc010yly.1_Intron|ZNF512_uc010ylz.1_5'UTR	NM_032434	NP_115810	Q96ME7	ZN512_HUMAN	zinc finger protein 512	26					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					ACGAGGATCGTGGGAGCTAAG	0.378													16	57	---	---	---	---	PASS	C	27806571	C	C	27806571	3	2	16	1	0	0	0	0	1	0	0	0	17953	1696	59	5	83	5	ZNF512	2	27806571	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	26141871	27806571	215392802	21	8377										
TTC27	55622	broad.mit.edu	37	chr2	33036187	33036187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gaaagctgcaggagttatttGgcagagtgacttcaagagtg	14	5	1	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:33036187G>T	uc002rom.2	+	17	2326	c.2095G>T	c.(2095-2097)GGC>TGC	p.G699C	TTC27_uc010ymx.1_Missense_Mutation_p.G649C|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	699	HAT 3.						protein binding			central_nervous_system(1)	1						GGAGTTATTTGGCAGAGTGAC	0.438													26	69	---	---	---	---	PASS	T	33036187	T	T	33036187	3	4	16	1	0	0	0	0	1	0	0	0	16692	1348	47	3	2161	3	TTC27	2	33036187	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	5229616	33036187	210163186	22	8378										
CEP68	23177	broad.mit.edu	37	chr2	65299172	65299172	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccactgaggcccgggcctcaGctcccaaagcaccttgatag	10	16	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:65299172G>T	uc002sdl.3	+	3	1156	c.942G>T	c.(940-942)CAG>CAT	p.Q314H	CEP68_uc002sdj.2_Missense_Mutation_p.Q314H|CEP68_uc010yqb.1_Missense_Mutation_p.Q314H|CEP68_uc002sdk.3_Missense_Mutation_p.Q314H|CEP68_uc010yqc.1_Missense_Mutation_p.Q314H|CEP68_uc010yqd.1_Missense_Mutation_p.Q314H	NM_015147	NP_055962	Q76N32	CEP68_HUMAN	centrosomal protein 68kDa	314					centrosome organization	centrosome				skin(1)	1						CCGGGCCTCAGCTCCCAAAGC	0.577													47	214	---	---	---	---	PASS	T	65299172	T	T	65299172	3	4	16	1	0	0	0	0	1	0	0	0	3258	962	34	3	948	3	CEP68	2	65299172	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	32262985	65299172	177900201	23	8379										
ZC3H6	376940	broad.mit.edu	37	chr2	113069435	113069435	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tcgtggacgtggcttgccgaAgaaaatcaaacgaaaagaac	11	8	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:113069435A>G	uc002thq.1	+	5	1062	c.668A>G	c.(667-669)AAG>AGG	p.K223R		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	223							nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						GGCTTGCCGAAGAAAATCAAA	0.343													6	32	---	---	---	---	PASS	G	113069435	G	G	113069435	3	3	16	1	0	0	0	0	1	0	0	0	17568	72	3	5	686	5	ZC3H6	2	113069435	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	47770263	113069435	130129938	24	8380										
SCN2A	6326	broad.mit.edu	37	chr2	166164370	166164370	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tattctactttattcaatatGctcattatgtgcacgattct	4	8	4	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:166164370G>T	uc002udc.2	+	4	689	c.399G>T	c.(397-399)ATG>ATT	p.M133I	SCN2A_uc002udd.2_Missense_Mutation_p.M133I|SCN2A_uc002ude.2_Missense_Mutation_p.M133I	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	133	I.|Helical; Name=S1 of repeat I; (Potential).				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	TATTCAATATGCTCATTATGT	0.338													46	246	---	---	---	---	PASS	T	166164370	T	T	166164370	3	4	16	1	0	0	0	0	1	0	0	0	13916	1319	46	3	409	3	SCN2A	2	166164370	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	53094935	166164370	77035003	25	8381										
XIRP2	129446	broad.mit.edu	37	chr2	168102139	168102139	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ttatgcccagtattgaccatAtacaaggtggcaatgtaaag	9	7	0	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:168102139A>G	uc002udx.2	+	8	4255	c.4237A>G	c.(4237-4239)ATA>GTA	p.I1413V	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.I1238V|XIRP2_uc010fpq.2_Missense_Mutation_p.I1191V|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1238					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TATTGACCATATACAAGGTGG	0.333													22	84	---	---	---	---	PASS	G	168102139	G	G	168102139	3	3	16	1	0	0	0	0	1	0	0	0	17427	449	16	5	4267	5	XIRP2	2	168102139	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	1937769	168102139	75097234	26	8382										
ABCB11	8647	broad.mit.edu	37	chr2	169780261	169780261	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	atgatatccgcgttctggatGgtggacaagcgatgggcaat	14	7	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:169780261G>A	uc002ueo.1	-	28	3963	c.3837C>T	c.(3835-3837)ACC>ACT	p.T1279T	ABCB11_uc010zda.1_Silent_p.T697T|ABCB11_uc010zdb.1_Silent_p.T755T	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	1279	Cytoplasmic (Potential).|ABC transporter 2.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	CGTTCTGGATGGTGGACAAGC	0.512													26	109	---	---	---	---	PASS	A	169780261	A	A	169780261	2	1	16	1	0	0	0	0	0	0	0	1	42	1335	47	3		3	ABCB11	2	169780261	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	1678122	169780261	73419112	27	8383										
CHRNA1	1134	broad.mit.edu	37	chr2	175618376	175618376	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tagggggtgtcggggcagcaGgaataggtcacggagtgctt	19	6	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:175618376G>A	uc002ujd.2	-	7	786	c.708C>T	c.(706-708)TCC>TCT	p.S236S	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Silent_p.S211S|CHRNA1_uc002ujf.3_Silent_p.S211S	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	236	Extracellular.				muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						CGGGGCAGCAGGAATAGGTCA	0.592													34	91	---	---	---	---	PASS	A	175618376	A	A	175618376	2	1	16	1	0	0	0	0	0	0	0	1	3381	987	35	3		3	CHRNA1	2	175618376	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	5838115	175618376	67580997	28	8384										
NFE2L2	4780	broad.mit.edu	37	chr2	178098944	178098944	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gactgaagtcaaatacttctCgacttactccaagatctata	5	10	3	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:178098944C>T	uc002ulh.3	-	2	656	c.101G>A	c.(100-102)CGA>CAA	p.R34Q	NFE2L2_uc002ulg.3_Missense_Mutation_p.R18Q|NFE2L2_uc010zfa.1_Missense_Mutation_p.R18Q|NFE2L2_uc002uli.3_Missense_Mutation_p.R18Q|NFE2L2_uc010fra.2_Missense_Mutation_p.R18Q|NFE2L2_uc010frb.2_Missense_Mutation_p.R18Q	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	34					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			AAATACTTCTCGACTTACTCC	0.373			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			40	55	---	---	---	---	PASS	T	178098944	T	T	178098944	3	4	16	1	0	0	0	0	1	0	0	0	10368	884	31	2	1732	2	NFE2L2	2	178098944	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	2480568	178098944	65100429	29	8385										
TTN	7273	broad.mit.edu	37	chr2	179454485	179454485	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tagccagaatgggagtttttGtttcgatggttggcccaaca	12	7	0	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:179454485G>A	uc010zfg.1	-	253	54487	c.54263C>T	c.(54262-54264)ACA>ATA	p.T18088I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T11783I|TTN_uc010zfi.1_Missense_Mutation_p.T11716I|TTN_uc010zfj.1_Missense_Mutation_p.T11591I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19015							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)			GGGAGTTTTTGTTTCGATGGT	0.403													61	244	---	---	---	---	PASS	A	179454485	A	A	179454485	3	1	16	1	0	0	0	0	1	0	0	0	16732	1377	48	3	46248	3	TTN	2	179454485	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	1355541	179454485	63744888	30	8386										
FRZB	2487	broad.mit.edu	37	chr2	183730876	183730876	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tacactggcagctcctcgcaGgccaggttctccggccacga	11	16	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:183730876G>A	uc002upa.1	-	1	623	c.405C>T	c.(403-405)GCC>GCT	p.A135A		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein precursor	135	FZ.				brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)			GCTCCTCGCAGGCCAGGTTCT	0.637													7	17	---	---	---	---	PASS	A	183730876	A	A	183730876	2	1	16	1	0	0	0	0	0	0	0	1	6065	987	35	3		3	FRZB	2	183730876	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	4276391	183730876	59468497	31	8387										
ADAM23	8745	broad.mit.edu	37	chr2	207452057	207452057	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aatattttgcagtgcccaccAaatcttcataagcaagacgg	7	10	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:207452057A>T	uc002vbq.2	+	19	1969	c.1746A>T	c.(1744-1746)CCA>CCT	p.P582P	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	582	Disintegrin.|Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		AGTGCCCACCAAATCTTCATA	0.313													29	102	---	---	---	---	PASS	T	207452057	T	T	207452057	2	4	16	1	0	0	0	0	0	0	0	1	245	117	5	5		5	ADAM23	2	207452057	Silent	SNP	A	TCGA-18-4721-01A-01D-1441-08	23721181	207452057	35747316	32	8388										
TNS1	7145	broad.mit.edu	37	chr2	218713180	218713180	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gccccgcccggctggcagacTcgtaggggtagcctcctcca	13	17	0	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:218713180T>A	uc002vgt.2	-	17	2083	c.1685A>T	c.(1684-1686)GAG>GTG	p.E562V	TNS1_uc002vgr.2_Missense_Mutation_p.E562V|TNS1_uc002vgs.2_Missense_Mutation_p.E562V|TNS1_uc010zjv.1_Missense_Mutation_p.E562V|TNS1_uc010fvj.1_Missense_Mutation_p.E630V|TNS1_uc010fvk.1_Missense_Mutation_p.E687V|TNS1_uc010fvi.1_Missense_Mutation_p.E249V	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	562						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GCTGGCAGACTCGTAGGGGTA	0.662													10	36	---	---	---	---	PASS	A	218713180	A	A	218713180	3	1	16	1	0	0	0	0	1	0	0	0	16340	1551	54	5	3590	5	TNS1	2	218713180	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	11261123	218713180	24486193	33	8389										
CUL3	8452	broad.mit.edu	37	chr2	225376242	225376242	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ttcttcattaattctagcttCtactttctttatatatactg	2	8	5	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr2:225376242C>A	uc002vny.2	-	6	1096	c.712G>T	c.(712-714)GAA>TAA	p.E238*	CUL3_uc010zls.1_Nonsense_Mutation_p.E172*|CUL3_uc010fwy.1_Nonsense_Mutation_p.E244*	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	238					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		ATTCTAGCTTCTACTTTCTTT	0.308													29	110	---	---	---	---	PASS	A	225376242	A	A	225376242	4	1	16	1	0	0	0	0	0	1	0	0	4056	922	32	2	1638	2	CUL3	2	225376242	Nonsense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	6663062	225376242	17823131	34	8390										
ATG7	10533	broad.mit.edu	37	chr3	11468389	11468389	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cattgctgcatcaagaaaccCaagctgctgaggtaagaaca	9	10	1	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:11468389C>T	uc003bwc.2	+	18	2185	c.2068C>T	c.(2068-2070)CAA>TAA	p.Q690*	ATG7_uc003bwd.2_Nonsense_Mutation_p.Q663*|ATG7_uc011aum.1_Intron	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	690					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						TCAAGAAACCCAAGCTGCTGA	0.368													10	69	---	---	---	---	PASS	T	11468389	T	T	11468389	4	4	16	1	0	0	0	0	0	1	0	0	1101	595	21	3	2134	3	ATG7	3	11468389	Nonsense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08		11468389	186554041	35	8391										
C3orf19	51244	broad.mit.edu	37	chr3	14706570	14706570	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctctttggggcgttcccggcGctgtatgagaaaggatttgc	14	9	1	1	rs138052160		TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:14706570G>A	uc003byw.2	+	6	612	c.521G>A	c.(520-522)CGC>CAC	p.R174H	C3orf19_uc010hei.1_Missense_Mutation_p.R174H|C3orf19_uc010hej.2_Missense_Mutation_p.R79H	NM_016474	NP_057558	Q6PII3	CC019_HUMAN	hypothetical protein LOC51244	174											0						CGTTCCCGGCGCTGTATGAGA	0.473													26	168	---	---	---	---	PASS	A	14706570	A	A	14706570	3	1	16	1	0	0	0	0	1	0	0	0	2212	1087	38	1	543	1	C3orf19	3	14706570	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	3238181	14706570	183315860	36	8392										
LYZL4	131375	broad.mit.edu	37	chr3	42445550	42445550	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	agacttaccatgctcccatcCcttcttttccttttacaatg	3	14	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:42445550C>A	uc003cle.2	-	4	608	c.359G>T	c.(358-360)GGG>GTG	p.G120V		NM_144634	NP_653235	Q96KX0	LYZL4_HUMAN	lysozyme-like 4 precursor	120					cell wall macromolecule catabolic process	extracellular region	lysozyme activity			central_nervous_system(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.222)		TGCTCCCATCCCTTCTTTTCC	0.383													15	60	---	---	---	---	PASS	A	42445550	A	A	42445550	3	1	16	1	0	0	0	0	1	0	0	0	9133	623	22	3	89	3	LYZL4	3	42445550	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	27738980	42445550	155576880	37	8393										
CSPG5	10675	broad.mit.edu	37	chr3	47614277	47614277	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	agcaggacgagggcagccgaGcccacggccacgcacatcac	13	16	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:47614277G>T	uc003crp.3	-	3	1457	c.1281C>A	c.(1279-1281)GGC>GGA	p.G427G	CSPG5_uc003crn.2_Silent_p.G289G|CSPG5_uc003cro.3_Silent_p.G427G|CSPG5_uc011bbb.1_Silent_p.G289G	NM_006574	NP_006565	O95196	CSPG5_HUMAN	chondroitin sulfate proteoglycan 5 (neuroglycan	427	Helical; (Potential).				cell differentiation|intracellular transport|nervous system development|regulation of growth	endoplasmic reticulum membrane|Golgi-associated vesicle membrane|integral to plasma membrane|membrane fraction	growth factor activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000266)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		GGGCAGCCGAGCCCACGGCCA	0.587													10	40	---	---	---	---	PASS	T	47614277	T	T	47614277	2	4	16	1	0	0	0	0	0	0	0	1	3961	958	34	3		3	CSPG5	3	47614277	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	5168727	47614277	150408153	38	8394										
DNAH12	201625	broad.mit.edu	37	chr3	57489909	57489909	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gttttacaaatccttctacaGttctccttaatagatccttt	3	10	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:57489909G>A	uc003dit.2	-	9	1101	c.920C>T	c.(919-921)ACT>ATT	p.T307I	DNAH12_uc003diu.2_Missense_Mutation_p.T307I	NM_178504	NP_848599	Q6ZR08	DYH12_HUMAN	dynein heavy chain domain 2 isoform 1	307	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			pancreas(1)|skin(1)	2						TCCTTCTACAGTTCTCCTTAA	0.303													10	55	---	---	---	---	PASS	A	57489909	A	A	57489909	3	1	16	1	0	0	0	0	1	0	0	0	4600	1029	36	3	8605	3	DNAH12	3	57489909	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	9875632	57489909	140532521	39	8395										
PDZRN3	23024	broad.mit.edu	37	chr3	73433255	73433255	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccttcagggacgggctatagGtaggggtgcccacttcggga	16	10	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:73433255G>T	uc003dpl.1	-	10	2558	c.2462C>A	c.(2461-2463)ACC>AAC	p.T821N	PDZRN3_uc011bgh.1_Missense_Mutation_p.T478N|PDZRN3_uc010hoe.1_Missense_Mutation_p.T519N|PDZRN3_uc011bgf.1_Missense_Mutation_p.T538N|PDZRN3_uc011bgg.1_Missense_Mutation_p.T541N	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	821							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		CGGGCTATAGGTAGGGGTGCC	0.657													31	90	---	---	---	---	PASS	T	73433255	T	T	73433255	3	4	16	1	0	0	0	0	1	0	0	0	11709	1261	44	3	742	3	PDZRN3	3	73433255	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	15943346	73433255	124589175	40	8396										
CNTN3	5067	broad.mit.edu	37	chr3	74419134	74419134	+	Missense_Mutation	SNP	C	A	A													0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tattttaggttcatattcacCcatcacacctataaatccac							TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:74419134C>A	uc003dpm.1	-	6	747	c.667G>T	c.(667-669)GGT>TGT	p.G223C		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	223					cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		TCATATTCACCCATCACACCT	0.333													18	72	---	---	---	---	PASS	A	74419134	A	A	74419134	3	1	16	1	0	0	0	0	1	0	0	0	3642	623	22	3	2487	3	CNTN3	3	74419134	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	985879	74419134	123603296	41	8397	250	2								
CNTN3	5067	broad.mit.edu	37	chr3	74419135	74419135	+	Missense_Mutation	SNP	C	T	T													0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	attttaggttcatattcaccCatcacacctataaatccaca							TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:74419135C>T	uc003dpm.1	-	6	746	c.666G>A	c.(664-666)ATG>ATA	p.M222I		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	222					cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		CATATTCACCCATCACACCTA	0.338													18	73	---	---	---	---	PASS	T	74419135	T	T	74419135	3	4	16	1	0	0	0	0	1	0	0	0	3642	594	21	3	2488	3	CNTN3	3	74419135	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	1	74419135	123603295	42	8398	250	2								
EPHA6	285220	broad.mit.edu	37	chr3	97454768	97454768	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tctgtatatgtttgcatttaGgtcattctgtccattgaaga	8	6	3	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:97454768G>T	uc010how.1	+	16	2978	c.2935_splice	c.e16-1	p.V979_splice	EPHA6_uc003drt.2_Splice_Site_p.V371_splice|EPHA6_uc010hox.1_Splice_Site	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a							integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						TTTGCATTTAGGTCATTCTGT	0.403													13	55	---	---	---	---	PASS	T	97454768	T	T	97454768	5	4	16	1	0	0	0	0	0	0	1	0	5171	1014	35	3	3113	3	EPHA6	3	97454768	Splice_Site	SNP	G	TCGA-18-4721-01A-01D-1441-08	23035633	97454768	100567662	43	8399										
HHLA2	11148	broad.mit.edu	37	chr3	108077008	108077008	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccatccacacagtgcatgtaGgtaagttgcaagtaggtttg	11	8	0	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:108077008G>A	uc003dwy.3	+	6	1170	c.1003G>A	c.(1003-1005)GAA>AAA	p.E335K	HHLA2_uc011bhl.1_Missense_Mutation_p.E271K|HHLA2_uc010hpu.2_Missense_Mutation_p.E335K|HHLA2_uc003dwz.2_Missense_Mutation_p.E335K	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	335						integral to membrane				ovary(1)	1						AGTGCATGTAGGTAAGTTGCA	0.338													13	49	---	---	---	---	PASS	A	108077008	A	A	108077008	3	1	16	1	0	0	0	0	1	0	0	0	7095	1014	35	3	1017	3	HHLA2	3	108077008	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	10622240	108077008	89945422	44	8400										
MED12L	116931	broad.mit.edu	37	chr3	151085966	151085966	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gatgcggacgccgagcctggGgcgagaatgacatgccgact	16	11	0	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:151085966G>T	uc003eyp.2	+	23	3410	c.3372G>T	c.(3370-3372)GGG>GGT	p.G1124G	MED12L_uc011bnz.1_Silent_p.G984G|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Silent_p.G287G	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1124					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)			CCGAGCCTGGGGCGAGAATGA	0.512													5	139	---	---	---	---	PASS	T	151085966	T	T	151085966	2	4	16	1	0	0	0	0	0	0	0	1	9429	1219	43	3		3	MED12L	3	151085966	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	43008958	151085966	46936464	45	8401										
NAALADL2	254827	broad.mit.edu	37	chr3	174814846	174814846	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tccagagacttcaagaagaaTctgactacattacccattat	5	10	2	4			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:174814846T>C	uc003fit.2	+	2	397	c.310T>C	c.(310-312)TCT>CCT	p.S104P	NAALADL2_uc003fiu.1_Missense_Mutation_p.S97P	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	104	Cytoplasmic (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		TCAAGAAGAATCTGACTACAT	0.408													10	258	---	---	---	---	PASS	C	174814846	C	C	174814846	3	2	16	1	0	0	0	0	1	0	0	0	10130	1435	50	5	316	5	NAALADL2	3	174814846	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	23728880	174814846	23207584	46	8402										
DCUN1D1	54165	broad.mit.edu	37	chr3	182681668	182681668	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctattgtaattatatactcaCcctaattctgtcatgccatc	3	11	3	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr3:182681668C>G	uc003fld.1	-	3	438	c.389_splice	c.e3+1	p.G130_splice	DCUN1D1_uc011bqn.1_Intron	NM_020640	NP_065691	Q96GG9	DCNL1_HUMAN	RP42 homolog							ubiquitin ligase complex	protein binding			ovary(1)	1	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;2.54e-44)|Epithelial(37;4.71e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			TATATACTCACCCTAATTCTG	0.383													12	344	---	---	---	---	PASS	G	182681668	G	G	182681668	5	3	16	1	0	0	0	0	0	0	1	0	4313	521	18	4	409	4	DCUN1D1	3	182681668	Splice_Site	SNP	C	TCGA-18-4721-01A-01D-1441-08	7866822	182681668	15340762	47	8403										
PDE6B	5158	broad.mit.edu	37	chr4	650791	650791	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gacgggaagccctttgacgaAcaggacgaggttctcatgga	14	9	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr4:650791A>C	uc003gap.2	+	9	1289	c.1236A>C	c.(1234-1236)GAA>GAC	p.E412D	PDE6B_uc003gao.3_Missense_Mutation_p.E412D|PDE6B_uc011buy.1_Missense_Mutation_p.E133D|uc003gaq.1_5'Flank	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	412	GAF 2.				cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						CCTTTGACGAACAGGACGAGG	0.597													21	61	---	---	---	---	PASS	C	650791	C	C	650791	3	2	16	1	0	0	0	0	1	0	0	0	11646	40	2	5	1270	5	PDE6B	4	650791	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08		650791	190503485	48	8404										
DGKQ	1609	broad.mit.edu	37	chr4	955299	955299	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cacaacctccagcagcccgtCgtccatgcgtggcttctcaa	8	17	1	0	rs146830759		TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr4:955299C>A	uc003gbw.2	-	21	2604	c.2530G>T	c.(2530-2532)GAC>TAC	p.D844Y	DGKQ_uc010ibn.2_Missense_Mutation_p.D831Y	NM_001347	NP_001338	P52824	DGKQ_HUMAN	diacylglycerol kinase, theta	844					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|platelet activation|protein kinase C signaling cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to ATP|thrombin receptor signaling pathway	cytoskeleton|cytosol|nuclear speck|plasma membrane	activating transcription factor binding|ATP binding|diacylglycerol kinase activity|kinase binding|metal ion binding|phospholipase binding			kidney(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			AGCAGCCCGTCGTCCATGCGT	0.716													5	16	---	---	---	---	PASS	A	955299	A	A	955299	3	1	16	1	0	0	0	0	1	0	0	0	4473	884	31	2	310	2	DGKQ	4	955299	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	304508	955299	190198977	49	8405										
DRD5	1816	broad.mit.edu	37	chr4	9784721	9784721	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gctaactcctcactcaacccCgtcatctatgccttcaacgc	4	18	5	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr4:9784721C>T	uc003gmb.3	+	1	1464	c.1068C>T	c.(1066-1068)CCC>CCT	p.P356P		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	356	Helical; Name=7; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	CACTCAACCCCGTCATCTATG	0.622													31	110	---	---	---	---	PASS	T	9784721	T	T	9784721	2	4	16	1	0	0	0	0	0	0	0	1	4760	639	23	1		1	DRD5	4	9784721	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	8829422	9784721	181369555	50	8406										
GABRB1	2560	broad.mit.edu	37	chr4	47163312	47163312	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gcagtcttggaaagacaaaaGgctttcttattctggaatcc	9	8	3	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr4:47163312G>T	uc003gxh.2	+	4	661	c.287G>T	c.(286-288)AGG>ATG	p.R96M	GABRB1_uc011bze.1_Missense_Mutation_p.R26M	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	96	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	AAAGACAAAAGGCTTTCTTAT	0.368													12	313	---	---	---	---	PASS	T	47163312	T	T	47163312	3	4	16	1	0	0	0	0	1	0	0	0	6166	1000	35	3	301	3	GABRB1	4	47163312	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	37378591	47163312	143990964	51	8407										
FAM13A	10144	broad.mit.edu	37	chr4	89671652	89671652	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgcctgctctgcccataagcGtagaaccgaggagagagcat	12	11	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr4:89671652G>A	uc003hse.1	-	15	2071	c.1863C>T	c.(1861-1863)TAC>TAT	p.Y621Y	FAM13A_uc003hsa.1_Silent_p.Y92Y|FAM13A_uc003hsb.1_Silent_p.Y295Y|FAM13A_uc003hsd.1_Silent_p.Y295Y|FAM13A_uc003hsc.1_Silent_p.Y281Y|FAM13A_uc011cdq.1_Silent_p.Y267Y|FAM13A_uc003hsf.1_Silent_p.Y207Y|FAM13A_uc003hsg.1_Silent_p.Y92Y|FAM13A_uc010ikr.1_Silent_p.Y117Y	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	621					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						GCCCATAAGCGTAGAACCGAG	0.557													23	92	---	---	---	---	PASS	A	89671652	A	A	89671652	2	1	16	1	0	0	0	0	0	0	0	1	5452	1140	40	1		1	FAM13A	4	89671652	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	42508340	89671652	101482624	52	8408										
PITX2	5308	broad.mit.edu	37	chr4	111539595	111539595	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	catggacgagatagagttggGtggggaaaacatgctctgtg	16	5	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr4:111539595G>T	uc003iad.2	-	5	1222	c.640C>A	c.(640-642)CCC>ACC	p.P214T	PITX2_uc003iac.2_Missense_Mutation_p.P221T|PITX2_uc003iae.2_Missense_Mutation_p.P168T|PITX2_uc010iml.2_Missense_Mutation_p.P85T|PITX2_uc003iaf.2_Missense_Mutation_p.P214T	NM_153426	NP_700475	Q99697	PITX2_HUMAN	paired-like homeodomain transcription factor 2	214					determination of left/right symmetry|organ morphogenesis	transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription factor binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00222)		ATAGAGTTGGGTGGGGAAAAC	0.547													16	55	---	---	---	---	PASS	T	111539595	T	T	111539595	3	4	16	1	0	0	0	0	1	0	0	0	11955	1261	44	3	317	3	PITX2	4	111539595	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	21867943	111539595	79614681	53	8409										
PCDH10	57575	broad.mit.edu	37	chr4	134072195	134072195	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tcgccccgggcgcgggagctTttcggactctcgccgcgcac	14	17	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr4:134072195T>C	uc003iha.2	+	1	1726	c.900T>C	c.(898-900)CTT>CTC	p.L300L	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.L300L	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	300	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CGCGGGAGCTTTTCGGACTCT	0.622													26	61	---	---	---	---	PASS	C	134072195	C	C	134072195	2	2	16	1	0	0	0	0	0	0	0	1	11507	1828	64	5		5	PCDH10	4	134072195	Silent	SNP	T	TCGA-18-4721-01A-01D-1441-08	22532600	134072195	57082081	54	8410										
SMARCA5	8467	broad.mit.edu	37	chr4	144468620	144468620	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aggggagaggcgagaattcaAagaagaataagcatcaagaa	13	4	2	5			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr4:144468620A>G	uc003ijg.2	+	21	3198	c.2736A>G	c.(2734-2736)CAA>CAG	p.Q912Q		NM_003601	NP_003592	O60264	SMCA5_HUMAN	SWI/SNF-related matrix-associated	912					CenH3-containing nucleosome assembly at centromere|nucleosome positioning|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	condensed chromosome|nucleolus|nucleoplasm|NURF complex|RSF complex	ATP binding|ATPase activity|DNA binding|helicase activity|nucleosome binding|protein binding			skin(1)	1	all_hematologic(180;0.158)					CGAGAATTCAAAGAAGAATAA	0.388													28	49	---	---	---	---	PASS	G	144468620	G	G	144468620	2	3	16	1	0	0	0	0	0	0	0	1	14771	11	1	5		5	SMARCA5	4	144468620	Silent	SNP	A	TCGA-18-4721-01A-01D-1441-08	10396425	144468620	46685656	55	8411										
SMAD1	4086	broad.mit.edu	37	chr4	146479006	146479006	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cctgctggattgagatacatCtgcacggccccctccagtgg	11	14	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr4:146479006C>G	uc003ikc.2	+	7	1734	c.1318C>G	c.(1318-1320)CTG>GTG	p.L440V	SMAD1_uc003ikd.2_Missense_Mutation_p.L440V|SMAD1_uc010iov.2_Missense_Mutation_p.L440V|SMAD1_uc011cic.1_Missense_Mutation_p.L401V	NM_005900	NP_005891	Q15797	SMAD1_HUMAN	Sma- and Mad-related protein 1	440	MH2.				BMP signaling pathway|embryonic pattern specification|primary miRNA processing|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|nuclear inner membrane	co-SMAD binding|I-SMAD binding|identical protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity			ovary(1)	1	all_hematologic(180;0.151)					TGAGATACATCTGCACGGCCC	0.478											OREG0016348	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	49	127	---	---	---	---	PASS	G	146479006	G	G	146479006	3	3	16	1	0	0	0	0	1	0	0	0	14757	912	32	2	1340	2	SMAD1	4	146479006	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	2010386	146479006	44675270	56	8412										
GALNTL6	442117	broad.mit.edu	37	chr4	173269787	173269787	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	acacagtataattaaccgaaCcccagggagtctgatagcag	9	10	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr4:173269787C>A	uc003isv.2	+	5	1236	c.500C>A	c.(499-501)ACC>AAC	p.T167N		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	167	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						ATTAACCGAACCCCAGGGAGT	0.408													19	161	---	---	---	---	PASS	A	173269787	A	A	173269787	3	1	16	1	0	0	0	0	1	0	0	0	6225	507	18	3	514	3	GALNTL6	4	173269787	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	26790781	173269787	17884489	57	8413										
ODZ3	55714	broad.mit.edu	37	chr4	183714169	183714169	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	catgggtcgggtaaccaagaGagagattaaaatagggccct	13	7	0	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr4:183714169G>C	uc003ivd.1	+	25	6381	c.6344G>C	c.(6343-6345)AGA>ACA	p.R2115T		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2115	YD 17.|Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GTAACCAAGAGAGAGATTAAA	0.398													8	56	---	---	---	---	PASS	C	183714169	C	C	183714169	3	2	16	1	0	0	0	0	1	0	0	0	10836	942	33	2	6442	2	ODZ3	4	183714169	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	10444382	183714169	7440107	58	8414										
C4orf41	60684	broad.mit.edu	37	chr4	184626196	184626196	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctctgccgcacgtgattgtgGagaatatccctctccatgtg	10	12	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr4:184626196G>T	uc003ivx.2	+	27	3204	c.3028G>T	c.(3028-3030)GAG>TAG	p.E1010*	C4orf41_uc003ivw.2_Nonsense_Mutation_p.E1010*|C4orf41_uc010isc.2_Nonsense_Mutation_p.E354*|C4orf41_uc003ivy.2_Nonsense_Mutation_p.E616*	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	1010											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		CGTGATTGTGGAGAATATCCC	0.373													38	176	---	---	---	---	PASS	T	184626196	T	T	184626196	4	4	16	1	0	0	0	0	0	1	0	0	2270	1175	41	2	3130	2	C4orf41	4	184626196	Nonsense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	912027	184626196	6528080	59	8415										
RNASEN	29102	broad.mit.edu	37	chr5	31409194	31409194	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aatgtctggctcttttccttCtgtcctaagtgtcaagcaac	7	11	4	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr5:31409194C>A	uc003jhg.2	-	32	4182	c.3823G>T	c.(3823-3825)GAA>TAA	p.E1275*	RNASEN_uc003jhh.2_Nonsense_Mutation_p.E1238*	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	1275	Necessary for interaction with DGCR8 and pri-miRNA processing activity.|DRBM.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						TCTTTTCCTTCTGTCCTAAGT	0.448													16	71	---	---	---	---	PASS	A	31409194	A	A	31409194	4	1	16	1	0	0	0	0	0	1	0	0	13417	922	32	2	317	2	RNASEN	5	31409194	Nonsense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08		31409194	149506066	60	8416										
WDR70	55100	broad.mit.edu	37	chr5	37605177	37605177	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	catttttaggactgtgaggaCgtgggaagttgaaaatccaa	12	5	0	2	rs141732552	byFrequency	TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr5:37605177C>A	uc003jkv.2	+	10	987	c.929C>A	c.(928-930)ACG>AAG	p.T310K	WDR70_uc010iva.1_Missense_Mutation_p.T310K	NM_018034	NP_060504	Q9NW82	WDR70_HUMAN	WD repeat domain 70	310	WD 3.									ovary(1)|central_nervous_system(1)	2	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ACTGTGAGGACGTGGGAAGTT	0.378													12	28	---	---	---	---	PASS	A	37605177	A	A	37605177	3	1	16	1	0	0	0	0	1	0	0	0	17318	536	19	1	967	1	WDR70	5	37605177	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	6195983	37605177	143310083	61	8417										
HEATR7B2	133558	broad.mit.edu	37	chr5	41000446	41000446	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgcagaccatcaagacatcaCggcaagcctggaaaacagag	10	11	2	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr5:41000446C>A	uc003jmj.3	-	39	4848	c.4358G>T	c.(4357-4359)CGT>CTT	p.R1453L	HEATR7B2_uc003jmi.3_Missense_Mutation_p.R1008L	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1453							binding			ovary(6)|central_nervous_system(2)	8						CAAGACATCACGGCAAGCCTG	0.483													10	49	---	---	---	---	PASS	A	41000446	A	A	41000446	3	1	16	1	0	0	0	0	1	0	0	0	7035	536	19	1	415	1	HEATR7B2	5	41000446	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	3395269	41000446	139914814	62	8418										
RASGRF2	5924	broad.mit.edu	37	chr5	80363900	80363900	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tattaatgcagaagtacattCatctagttcagatcgtagag	8	6	3	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr5:80363900C>T	uc003kha.1	+	3	445	c.445C>T	c.(445-447)CAT>TAT	p.H149Y	RASGRF2_uc011ctn.1_RNA|RASGRF2_uc003khb.1_5'Flank	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	149					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		GAAGTACATTCATCTAGTTCA	0.353													31	69	---	---	---	---	PASS	T	80363900	T	T	80363900	3	4	16	1	0	0	0	0	1	0	0	0	13073	826	29	2	455	2	RASGRF2	5	80363900	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	39363454	80363900	100551360	63	8419										
VCAN	1462	broad.mit.edu	37	chr5	82789510	82789510	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gatggatttgagcagtgtgaCgcaggctggctggctgatca	16	7	1	3	rs148875090	byFrequency	TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr5:82789510C>G	uc003kii.3	+	4	947	c.591C>G	c.(589-591)GAC>GAG	p.D197E	VCAN_uc003kij.3_Missense_Mutation_p.D197E|VCAN_uc010jau.2_Missense_Mutation_p.D197E|VCAN_uc003kik.3_Missense_Mutation_p.D197E|VCAN_uc003kih.3_Missense_Mutation_p.D197E	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	197	Link 1.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		AGCAGTGTGACGCAGGCTGGC	0.502													20	81	---	---	---	---	PASS	G	82789510	G	G	82789510	3	3	16	1	0	0	0	0	1	0	0	0	17135	535	19	4	601	4	VCAN	5	82789510	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	2425610	82789510	98125750	64	8420										
SPINK13	153218	broad.mit.edu	37	chr5	147661774	147661774	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cacactttccagaatgagtgTttcttttgtgttgaacagag	9	7	1	4			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr5:147661774T>A	uc003lpc.2	+	4	278	c.216T>A	c.(214-216)TGT>TGA	p.C72*	uc003lpb.1_Intron|SPINK13_uc010jgt.2_RNA	NM_001040129	NP_001035218	Q1W4C9	ISK13_HUMAN	serine PI Kazal type 5-like 3 precursor	72	Kazal-like.					extracellular region	serine-type endopeptidase inhibitor activity				0						AGAATGAGTGTttcttttgtg	0.244													18	77	---	---	---	---	PASS	A	147661774	A	A	147661774	4	1	16	1	0	0	0	0	0	1	0	0	15057	1731	60	5	226	5	SPINK13	5	147661774	Nonsense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	64872264	147661774	33253486	65	8421										
NSD1	64324	broad.mit.edu	37	chr5	176637416	176637416	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccagatgctttcgatagaacAgagaacatgttatctatgca	8	8	1	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr5:176637416A>T	uc003mfr.3	+	5	2154	c.2016A>T	c.(2014-2016)ACA>ACT	p.T672T	NSD1_uc003mft.3_Silent_p.T403T|NSD1_uc003mfs.1_Silent_p.T569T|NSD1_uc011dfx.1_Silent_p.T320T	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	672					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		TCGATAGAACAGAGAACATGT	0.398			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			23	88	---	---	---	---	PASS	T	176637416	T	T	176637416	2	4	16	1	0	0	0	0	0	0	0	1	10669	175	7	5		5	NSD1	5	176637416	Silent	SNP	A	TCGA-18-4721-01A-01D-1441-08	28975642	176637416	4277844	66	8422										
RREB1	6239	broad.mit.edu	37	chr6	7247354	7247354	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aagacagactcccccaaaagCgtggccagcaaggcagacaa	10	13	0	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:7247354C>T	uc003mxc.2	+	11	4896	c.4506C>T	c.(4504-4506)AGC>AGT	p.S1502S	RREB1_uc003mxb.2_Silent_p.S1557S|RREB1_uc010jnx.2_Intron	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1502					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				CCCCCAAAAGCGTGGCCAGCA	0.612													18	27	---	---	---	---	PASS	T	7247354	T	T	7247354	2	4	16	1	0	0	0	0	0	0	0	1	13679	767	27	1		1	RREB1	6	7247354	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08		7247354	163867713	67	8423										
HIVEP1	3096	broad.mit.edu	37	chr6	12122201	12122201	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	caccctctgctttgcccacaGgggaaaaggcattgctttta	9	12	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:12122201G>A	uc003nac.2	+	4	2352	c.2173G>A	c.(2173-2175)GGG>AGG	p.G725R	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	725					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				TTTGCCCACAGGGGAAAAGGC	0.507													22	47	---	---	---	---	PASS	A	12122201	A	A	12122201	3	1	16	1	0	0	0	0	1	0	0	0	7186	1000	35	3	2183	3	HIVEP1	6	12122201	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	4874847	12122201	158992866	68	8424										
HIST1H2BJ	8970	broad.mit.edu	37	chr6	27100317	27100317	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gcctcacctgcgatgcgctcGaaaatgtcgttcacaaacga	9	13	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:27100317G>C	uc003niv.2	-	1	259	c.213C>G	c.(211-213)TTC>TTG	p.F71L	HIST1H2BJ_uc003niu.1_RNA|HIST1H2AG_uc003niw.2_5'Flank	NM_021058	NP_066402	P06899	H2B1J_HUMAN	histone cluster 1, H2bj	71					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						CGATGCGCTCGAAAATGTCGT	0.567													21	176	---	---	---	---	PASS	C	27100317	C	C	27100317	3	2	16	1	0	0	0	0	1	0	0	0	7149	1049	37	2	171	2	HIST1H2BJ	6	27100317	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	14978116	27100317	144014750	69	8425										
SCAND3	114821	broad.mit.edu	37	chr6	28542626	28542626	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ttgcatggatatttccatcaCatgatatacaactattaaca	4	8	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:28542626C>T	uc003nlo.2	-	3	2474	c.1856G>A	c.(1855-1857)TGT>TAT	p.C619Y		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	619					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ATTTCCATCACATGATATACA	0.428													12	45	---	---	---	---	PASS	T	28542626	T	T	28542626	3	4	16	1	0	0	0	0	1	0	0	0	13876	478	17	3	2129	3	SCAND3	6	28542626	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	1442309	28542626	142572441	70	8426										
SCAND3	114821	broad.mit.edu	37	chr6	28542795	28542795	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aatgttttcttcatactgggCtcttaaagtattttctaact	5	7	4	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:28542795C>T	uc003nlo.2	-	3	2305	c.1687G>A	c.(1687-1689)GCC>ACC	p.A563T		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	563	Potential.				DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TCATACTGGGCTCTTAAAGTA	0.413													18	77	---	---	---	---	PASS	T	28542795	T	T	28542795	3	4	16	1	0	0	0	0	1	0	0	0	13876	797	28	3	2298	3	SCAND3	6	28542795	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	169	28542795	142572272	71	8427										
OR5V1	81696	broad.mit.edu	37	chr6	29323110	29323110	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tattcctcaatgtgtaaattAtagggtttagcatgggggta	11	4	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:29323110A>G	uc011dlo.1	-	1	945	c.863T>C	c.(862-864)ATA>ACA	p.I288T		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	288	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4						TGTGTAAATTATAGGGTTTAG	0.393													53	123	---	---	---	---	PASS	G	29323110	G	G	29323110	3	3	16	1	0	0	0	0	1	0	0	0	11184	449	16	5	105	5	OR5V1	6	29323110	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	780315	29323110	141791957	72	8428										
TAPBP	6892	broad.mit.edu	37	chr6	33272838	33272838	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ggtggccagataggtgccctCctgaaagggttgaactgtag	15	8	0	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:33272838C>G	uc003odx.1	-	4	967	c.796G>C	c.(796-798)GAG>CAG	p.E266Q	TAPBP_uc010jus.1_Missense_Mutation_p.E284Q|TAPBP_uc003ody.2_Missense_Mutation_p.E266Q|TAPBP_uc003odz.2_Missense_Mutation_p.E266Q|TAPBP_uc010jut.1_Missense_Mutation_p.E179Q|TAPBP_uc011drc.1_Missense_Mutation_p.E266Q	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	266	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1						TAGGTGCCCTCCTGAAAGGGT	0.582													11	113	---	---	---	---	PASS	G	33272838	G	G	33272838	3	3	16	1	0	0	0	0	1	0	0	0	15549	864	30	2	750	2	TAPBP	6	33272838	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	3949728	33272838	137842229	73	8429										
PRICKLE4	29964	broad.mit.edu	37	chr6	41754618	41754618	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctgcaaactcagagggggctGcctggatccagtccccagca	12	14	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:41754618G>T	uc011duf.1	+	8	1154	c.906G>T	c.(904-906)CTG>CTT	p.L302L	PRICKLE4_uc003ord.2_RNA|TOMM6_uc003org.2_RNA|TOMM6_uc011dug.1_5'Flank	NM_013397	NP_037529	Q2TBC4	PRIC4_HUMAN	over-expressed breast tumor protein	262						nucleus	zinc ion binding				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			AGAGGGGGCTGCCTGGATCCA	0.617											OREG0017435	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	38	110	---	---	---	---	PASS	T	41754618	T	T	41754618	2	4	16	1	0	0	0	0	0	0	0	1	12489	1306	46	3		3	PRICKLE4	6	41754618	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	8481780	41754618	129360449	74	8430										
UBR2	23304	broad.mit.edu	37	chr6	42643823	42643823	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gtgcttgcatttcctgcgttGcagtgtcaggatttttcagg	12	8	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:42643823G>T	uc011dur.1	+	39	4281	c.4281G>T	c.(4279-4281)TTG>TTT	p.L1427F	UBR2_uc011dus.1_Missense_Mutation_p.L1072F|UBR2_uc003osh.2_Intron|UBR2_uc011dut.1_Missense_Mutation_p.L15F	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	1427					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			TTCCTGCGTTGCAGTGTCAGG	0.458													13	156	---	---	---	---	PASS	T	42643823	T	T	42643823	3	4	16	1	0	0	0	0	1	0	0	0	16899	1310	46	3	4581	3	UBR2	6	42643823	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	889205	42643823	128471244	75	8431										
EYS	346007	broad.mit.edu	37	chr6	66204975	66204975	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tttgcacacagccaacgaaaGatgtttcagaaacattcatc	6	10	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:66204975G>T	uc011dxu.1	-	4	867	c.329C>A	c.(328-330)TCT>TAT	p.S110Y	EYS_uc003peq.2_Missense_Mutation_p.S110Y|EYS_uc003per.1_Missense_Mutation_p.S110Y|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	110					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						GCCAACGAAAGATGTTTCAGA	0.358													11	136	---	---	---	---	PASS	T	66204975	T	T	66204975	3	4	16	1	0	0	0	0	1	0	0	0	5332	942	33	2	9227	2	EYS	6	66204975	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	23561152	66204975	104910092	76	8432										
LCA5	167691	broad.mit.edu	37	chr6	80223047	80223047	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctttcagtttctgtaaggaaAattttgtcctaaatagttca	6	6	3	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:80223047A>C	uc003pix.2	-	3	1037	c.602T>G	c.(601-603)TTT>TGT	p.F201C	LCA5_uc003piy.2_Missense_Mutation_p.F201C|LCA5_uc011dyq.1_RNA|LCA5_uc011dyr.1_Missense_Mutation_p.F201C	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	201	Potential.				protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		CTGTAAGGAAAATTTTGTCCT	0.368													43	138	---	---	---	---	PASS	C	80223047	C	C	80223047	3	2	16	1	0	0	0	0	1	0	0	0	8656	14	1	5	1515	5	LCA5	6	80223047	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	14018072	80223047	90892020	77	8433										
NT5E	4907	broad.mit.edu	37	chr6	86201753	86201753	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gacagagtagtcaaattagaTgttctttgcaccaagtgtcg	10	7	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:86201753T>C	uc003pko.3	+	8	1975	c.1419T>C	c.(1417-1419)GAT>GAC	p.D473D	NT5E_uc010kbr.2_Silent_p.D423D	NM_002526	NP_002517	P21589	5NTD_HUMAN	5' nucleotidase, ecto precursor	473					DNA metabolic process|purine base metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	5'-nucleotidase activity|nucleotide binding			ovary(3)|central_nervous_system(1)	4		all_cancers(76;0.000215)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0427)		BRCA - Breast invasive adenocarcinoma(108;0.0417)	Pentoxifylline(DB00806)	TCAAATTAGATGTTCTTTGCA	0.443													51	226	---	---	---	---	PASS	C	86201753	C	C	86201753	2	2	16	1	0	0	0	0	0	0	0	1	10693	1461	51	5		5	NT5E	6	86201753	Silent	SNP	T	TCGA-18-4721-01A-01D-1441-08	5978706	86201753	84913314	78	8434										
GPR63	81491	broad.mit.edu	37	chr6	97246607	97246607	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tactgaatgttgccacaaggCtgtaagtggtgaatggggcc	14	7	0	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:97246607C>T	uc010kcl.2	-	3	1479	c.1001G>A	c.(1000-1002)AGC>AAC	p.S334N	GPR63_uc003pou.2_Missense_Mutation_p.S334N	NM_001143957	NP_001137429	Q9BZJ6	GPR63_HUMAN	G protein-coupled receptor 63	334	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;6.89e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0618)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0912)		TGCCACAAGGCTGTAAGTGGT	0.443													29	70	---	---	---	---	PASS	T	97246607	T	T	97246607	3	4	16	1	0	0	0	0	1	0	0	0	6704	797	28	3	262	3	GPR63	6	97246607	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	11044854	97246607	73868460	79	8435										
LAMA2	3908	broad.mit.edu	37	chr6	129475703	129475703	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	attatgatgaaaatgttgccAgaagaaatctgagtttgaat	9	3	1	6			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:129475703A>G	uc003qbn.2	+	8	1186	c.1081A>G	c.(1081-1083)AGA>GGA	p.R361G	LAMA2_uc003qbo.2_Missense_Mutation_p.R361G	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	361	Laminin EGF-like 2.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		AAATGTTGCCAGAAGAAATCT	0.348													10	89	---	---	---	---	PASS	G	129475703	G	G	129475703	3	3	16	1	0	0	0	0	1	0	0	0	8606	180	7	5	1111	5	LAMA2	6	129475703	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	32229096	129475703	41639364	80	8436										
TMEM181	57583	broad.mit.edu	37	chr6	159044617	159044617	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgatccaatgtaccagtatcGagttgataccggaaattttc	8	8	0	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:159044617G>A	uc003qrm.3	+	11	1354	c.1343G>A	c.(1342-1344)CGA>CAA	p.R448Q	TMEM181_uc010kjr.1_Missense_Mutation_p.R279Q	NM_020823	NP_065874	Q9P2C4	TM181_HUMAN	G protein-coupled receptor 178	448					pathogenesis	integral to membrane	toxin binding			ovary(2)|central_nervous_system(1)	3		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;8.15e-18)|BRCA - Breast invasive adenocarcinoma(81;1.38e-05)		TACCAGTATCGAGTTGATACC	0.259													3	48	---	---	---	---	PASS	A	159044617	A	A	159044617	3	1	16	1	0	0	0	0	1	0	0	0	16097	1058	37	2	1385	2	TMEM181	6	159044617	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	29568914	159044617	12070450	81	8437										
PDE10A	10846	broad.mit.edu	37	chr6	165749635	165749635	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	catgctttcagaagaggctcCgtgggagggaggatctgggt	17	7	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr6:165749635C>A	uc003qun.2	-	22	2455	c.2214G>T	c.(2212-2214)ACG>ACT	p.T738T	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Silent_p.T668T|PDE10A_uc003quo.2_Silent_p.T748T	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	738					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	GAAGAGGCTCCGTGGGAGGGA	0.463													7	60	---	---	---	---	PASS	A	165749635	A	A	165749635	2	1	16	1	0	0	0	0	0	0	0	1	11630	639	23	1		1	PDE10A	6	165749635	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	6705018	165749635	5365432	82	8438										
USP42	84132	broad.mit.edu	37	chr7	6183809	6183809	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aaacgttttgcaaattttacCggtggaaaaattgctaaggt	9	5	0	0	rs151011297	by1000genomes	TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:6183809C>T	uc011jwo.1	+	9	1095	c.972C>T	c.(970-972)ACC>ACT	p.T324T	USP42_uc011jwn.1_Silent_p.T169T|USP42_uc010kth.1_Silent_p.T257T|USP42_uc011jwp.1_Silent_p.T324T|USP42_uc011jwq.1_Silent_p.T131T|USP42_uc011jwr.1_Silent_p.T169T	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	324					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		CAAATTTTACCGGTGGAAAAA	0.368													7	21	---	---	---	---	PASS	T	6183809	T	T	6183809	2	4	16	1	0	0	0	0	0	0	0	1	17070	639	23	1		1	USP42	7	6183809	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08		6183809	152954854	83	8439										
DGKB	1607	broad.mit.edu	37	chr7	14217688	14217688	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	caggagcactgagccagccgCcggccagcacttttcaggcc	12	16	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:14217688C>A	uc003ssz.2	-	23	2401	c.2214G>T	c.(2212-2214)CGG>CGT	p.R738R	DGKB_uc011jxt.1_Silent_p.R719R|DGKB_uc003sta.2_Silent_p.R738R|DGKB_uc011jxu.1_Silent_p.R737R	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	738					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	GAGCCAGCCGCCGGCCAGCAC	0.507													19	94	---	---	---	---	PASS	A	14217688	A	A	14217688	2	1	16	1	0	0	0	0	0	0	0	1	4466	726	26	3		3	DGKB	7	14217688	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	8033879	14217688	144920975	84	8440										
STK31	56164	broad.mit.edu	37	chr7	23766889	23766889	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ggattattttctgaagatcaGtgttggtacagatgcaaagt	11	4	2	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:23766889G>T	uc003sws.3	+	5	346	c.279G>T	c.(277-279)CAG>CAT	p.Q93H	STK31_uc003swt.3_Missense_Mutation_p.Q70H|STK31_uc011jze.1_Missense_Mutation_p.Q93H|STK31_uc010kuq.2_Missense_Mutation_p.Q70H	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	93	Tudor.						ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						CTGAAGATCAGTGTTGGTACA	0.303													16	89	---	---	---	---	PASS	T	23766889	T	T	23766889	3	4	16	1	0	0	0	0	1	0	0	0	15295	1020	36	3	297	3	STK31	7	23766889	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	9549201	23766889	135371774	85	8441										
HOXA3	3200	broad.mit.edu	37	chr7	27150111	27150111	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tggagggagactggagggagCaggcgggtcggtggtactcg	22	6	0	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:27150111C>A	uc011jzl.1	-	2	349	c.149G>T	c.(148-150)TGC>TTC	p.C50F	HOXA3_uc011jzk.1_Intron|HOXA3_uc003syk.2_Missense_Mutation_p.C50F	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	50					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						CTGGAGGGAGCAGGCGGGTCG	0.692													4	19	---	---	---	---	PASS	A	27150111	A	A	27150111	3	1	16	1	0	0	0	0	1	0	0	0	7293	710	25	3	1190	3	HOXA3	7	27150111	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	3383222	27150111	131988552	86	8442										
CALN1	83698	broad.mit.edu	37	chr7	71488694	71488694	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gaaaaccatcgcgaccttctGaagacaccagtttggggcca	10	12	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:71488694G>T	uc003twa.3	-	4	850	c.323C>A	c.(322-324)TCA>TAA	p.S108*	CALN1_uc003twb.3_Nonsense_Mutation_p.S150*|CALN1_uc003twc.3_Nonsense_Mutation_p.S108*	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2	108	Cytoplasmic (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				GCGACCTTCTGAAGACACCAG	0.423													38	92	---	---	---	---	PASS	T	71488694	T	T	71488694	4	4	16	1	0	0	0	0	0	1	0	0	2591	1294	45	2	348	2	CALN1	7	71488694	Nonsense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	44338583	71488694	87649969	87	8443										
MAGI2	9863	broad.mit.edu	37	chr7	77764405	77764405	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	atgagcttcacgatgtcagcGtgaggcatgttgatgataga	13	6	2	5			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:77764405G>T	uc003ugx.2	-	17	3218	c.2964C>A	c.(2962-2964)CAC>CAA	p.H988Q	MAGI2_uc003ugy.2_Missense_Mutation_p.H974Q|MAGI2_uc010ldx.1_Missense_Mutation_p.H581Q	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	988	PDZ 5.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				CGATGTCAGCGTGAGGCATGT	0.537													24	143	---	---	---	---	PASS	T	77764405	T	T	77764405	3	4	16	1	0	0	0	0	1	0	0	0	9191	1136	40	1	1427	1	MAGI2	7	77764405	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	6275711	77764405	81374258	88	8444										
HGF	3082	broad.mit.edu	37	chr7	81386586	81386586	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	atactgttcccttgtagctgCgtcctttaccaatgatgcag	8	11	0	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:81386586C>T	uc003uhl.2	-	4	566	c.401G>A	c.(400-402)CGC>CAC	p.R134H	HGF_uc003uhm.2_Missense_Mutation_p.R134H|HGF_uc003uhn.1_Missense_Mutation_p.R134H|HGF_uc003uho.1_Missense_Mutation_p.R134H|HGF_uc003uhp.2_Missense_Mutation_p.R134H	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	134	Kringle 1.				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						CTTGTAGCTGCGTCCTTTACC	0.358													26	76	---	---	---	---	PASS	T	81386586	T	T	81386586	3	4	16	1	0	0	0	0	1	0	0	0	7085	768	27	1	1865	1	HGF	7	81386586	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	3622181	81386586	77752077	89	8445										
CPSF4	10898	broad.mit.edu	37	chr7	99048393	99048393	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	acctcgtgggattctgcccgGaggggccctcgtgtaaattc	13	12	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:99048393G>C	uc003uqj.2	+	5	615	c.472G>C	c.(472-474)GAG>CAG	p.E158Q	PTCD1_uc011kiw.1_Intron|CPSF4_uc003uqi.2_Missense_Mutation_p.E158Q|CPSF4_uc003uqk.2_Missense_Mutation_p.E158Q|CPSF4_uc011kix.1_Missense_Mutation_p.E105Q	NM_006693	NP_006684	O95639	CPSF4_HUMAN	cleavage and polyadenylation specific factor 4,	158	C3H1-type 5.				modification by virus of host mRNA processing|mRNA processing|viral infectious cycle	mRNA cleavage and polyadenylation specificity factor complex	RNA binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					ATTCTGCCCGGAGGGGCCCTC	0.622													23	130	---	---	---	---	PASS	C	99048393	C	C	99048393	3	2	16	1	0	0	0	0	1	0	0	0	3828	1175	41	2	490	2	CPSF4	7	99048393	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	17661807	99048393	60090270	90	8446										
TAF6	6878	broad.mit.edu	37	chr7	99711547	99711547	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	actggtggtgagcttctgccGcttccccatgtgcatgaact	11	12	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:99711547G>T	uc003uti.2	-	3	268	c.187C>A	c.(187-189)CGG>AGG	p.R63R	TAF6_uc003utg.2_Silent_p.R4R|TAF6_uc003uth.2_Silent_p.R120R|TAF6_uc003utk.2_Silent_p.R63R|TAF6_uc011kji.1_Silent_p.R100R|TAF6_uc003utj.2_Silent_p.R53R|TAF6_uc003utl.2_Silent_p.R63R|TAF6_uc003utm.2_Silent_p.R63R|TAF6_uc003utn.1_RNA	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha	63					negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|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 TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AGCTTCTGCCGCTTCCCCATG	0.567													38	121	---	---	---	---	PASS	T	99711547	T	T	99711547	2	4	16	1	0	0	0	0	0	0	0	1	15527	1086	38	1		1	TAF6	7	99711547	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	663154	99711547	59427116	91	8447										
MUC17	140453	broad.mit.edu	37	chr7	100676743	100676743	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	accagcatgccaacctcaacTtatactgaaggaagcactcc	6	14	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:100676743T>G	uc003uxp.1	+	3	2099	c.2046T>G	c.(2044-2046)ACT>ACG	p.T682T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	682	Extracellular (Potential).|9.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CAACCTCAACTTATACTGAAG	0.478													113	451	---	---	---	---	PASS	G	100676743	G	G	100676743	2	3	16	1	0	0	0	0	0	0	0	1	9974	1596	56	5		5	MUC17	7	100676743	Silent	SNP	T	TCGA-18-4721-01A-01D-1441-08	965196	100676743	58461920	92	8448										
PIK3CG	5294	broad.mit.edu	37	chr7	106508508	106508508	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	acgtcactgacgtcagcaacGtgcacgacgatgagctggag	13	11	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:106508508G>T	uc003vdv.3	+	2	587	c.502G>T	c.(502-504)GTG>TTG	p.V168L	PIK3CG_uc003vdu.2_Missense_Mutation_p.V168L|PIK3CG_uc003vdw.2_Missense_Mutation_p.V168L	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	168					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						CGTCAGCAACGTGCACGACGA	0.672													12	43	---	---	---	---	PASS	T	106508508	T	T	106508508	3	4	16	1	0	0	0	0	1	0	0	0	11916	1145	40	1	504	1	PIK3CG	7	106508508	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	5831765	106508508	52630155	93	8449										
WNT2	7472	broad.mit.edu	37	chr7	116955161	116955161	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ttgttgtgaagattcatcagGgctctggcatcctttccttt	9	9	3	2	rs144337728		TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:116955161G>T	uc003viz.2	-	3	852	c.552C>A	c.(550-552)GCC>GCA	p.A184A	WNT2_uc003vja.2_Silent_p.A88A	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	184					atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		GATTCATCAGGGCTCTGGCAt	0.423													28	150	---	---	---	---	PASS	T	116955161	T	T	116955161	2	4	16	1	0	0	0	0	0	0	0	1	17383	1219	43	3		3	WNT2	7	116955161	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	10446653	116955161	42183502	94	8450										
TAS2R16	50833	broad.mit.edu	37	chr7	122635320	122635320	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aatatccagggaaacaacctCaaaattctccacctcagcca	4	14	3	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:122635320C>T	uc003vkl.1	-	1	435	c.369G>A	c.(367-369)TTG>TTA	p.L123L		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	123	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						GAAACAACCTCAAAATTCTCC	0.408													15	77	---	---	---	---	PASS	T	122635320	T	T	122635320	2	4	16	1	0	0	0	0	0	0	0	1	15566	825	29	2		2	TAS2R16	7	122635320	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	5680159	122635320	36503343	95	8451										
SSPO	23145	broad.mit.edu	37	chr7	149515739	149515739	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccctccccaatccctcccccAggtggctggggcccatggtc	10	20	0	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr7:149515739A>T	uc010lpk.2	+	84	11642	c.11642_splice	c.e84-2	p.G3881_splice		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor						cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TCCCTCCCCCAGGTGGCTGGG	0.701													4	26	---	---	---	---	PASS	T	149515739	T	T	149515739	5	4	16	1	0	0	0	0	0	0	1	0	15188	202	7	5	11964	5	SSPO	7	149515739	Splice_Site	SNP	A	TCGA-18-4721-01A-01D-1441-08	26880419	149515739	9622924	96	8452										
CSMD1	64478	broad.mit.edu	37	chr8	2966161	2966161	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aaagaagcctccatttgaaaAgtcgctgtggaacttgagca	10	8	0	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr8:2966161A>C	uc011kwk.1	-	44	7111	c.6721T>G	c.(6721-6723)TTT>GTT	p.F2241V	CSMD1_uc011kwj.1_Missense_Mutation_p.F1633V|CSMD1_uc010lrg.2_Missense_Mutation_p.F309V	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2241	Extracellular (Potential).|CUB 13.					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)		CCATTTGAAAAGTCGCTGTGG	0.488													6	23	---	---	---	---	PASS	C	2966161	C	C	2966161	3	2	16	1	0	0	0	0	1	0	0	0	3944	72	3	5	4084	5	CSMD1	8	2966161	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08		2966161	143397861	97	8453										
DEFB1	1672	broad.mit.edu	37	chr8	6728282	6728282	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ggcaggcagaatagagacatTgccctccactgctgacgcaa	11	12	0	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr8:6728282T>C	uc003wqs.2	-	2	278	c.128A>G	c.(127-129)CAA>CGA	p.Q43R		NM_005218	NP_005209	P60022	DEFB1_HUMAN	defensin, beta 1 preproprotein	43					chemotaxis|defense response to bacterium|G-protein coupled receptor protein signaling pathway|innate immune response	extracellular region					0			STAD - Stomach adenocarcinoma(24;0.0984)	COAD - Colon adenocarcinoma(149;0.0162)|READ - Rectum adenocarcinoma(644;0.128)		ATAGAGACATTGCCCTCCACT	0.488													26	62	---	---	---	---	PASS	C	6728282	C	C	6728282	3	2	16	1	0	0	0	0	1	0	0	0	4394	1812	63	5	82	5	DEFB1	8	6728282	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	3762121	6728282	139635740	98	8454										
TNKS	8658	broad.mit.edu	37	chr8	9562186	9562186	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tttctagtcgactcctttacAtctagcagcgggctacaaca	7	12	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr8:9562186A>G	uc003wss.2	+	6	1126	c.1121A>G	c.(1120-1122)CAT>CGT	p.H374R	TNKS_uc011kwv.1_Missense_Mutation_p.H374R|TNKS_uc011kww.1_Missense_Mutation_p.H137R	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	374	ANK 4.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		ACTCCTTTACATCTAGCAGCG	0.383													33	100	---	---	---	---	PASS	G	9562186	G	G	9562186	3	3	16	1	0	0	0	0	1	0	0	0	16316	217	8	5	1143	5	TNKS	8	9562186	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	2833904	9562186	136801836	99	8455										
CYP7A1	1581	broad.mit.edu	37	chr8	59404139	59404139	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ggacatttagcttggccctcTataagctccaattcaaaata	6	10	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr8:59404139T>A	uc003xtm.3	-	6	1473	c.1410A>T	c.(1408-1410)ATA>ATT	p.I470I		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	470					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				CTTGGCCCTCTATAAGCTCCA	0.403									Neonatal_Giant_Cell_Hepatitis				25	66	---	---	---	---	PASS	A	59404139	A	A	59404139	2	1	16	1	0	0	0	0	0	0	0	1	4196	1512	53	5		5	CYP7A1	8	59404139	Silent	SNP	T	TCGA-18-4721-01A-01D-1441-08	49841953	59404139	86959883	100	8456										
NCOA2	10499	broad.mit.edu	37	chr8	71071794	71071794	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gttcattagtagtctgagaaCggatgagtttgctcttcgtt	11	6	3	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr8:71071794C>A	uc003xyn.1	-	10	1232	c.1070G>T	c.(1069-1071)CGT>CTT	p.R357L		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	357					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			AGTCTGAGAACGGATGAGTTT	0.398			T	RUNXBP2	AML								43	215	---	---	---	---	PASS	A	71071794	A	A	71071794	3	1	16	1	0	0	0	0	1	0	0	0	10229	536	19	1	3380	1	NCOA2	8	71071794	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	11667655	71071794	75292228	101	8457										
TRPA1	8989	broad.mit.edu	37	chr8	72964957	72964957	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ggctcagaagaagcgcaacgGctttggcgtggccttccctt	13	12	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr8:72964957G>T	uc003xza.2	-	14	1863	c.1688C>A	c.(1687-1689)GCC>GAC	p.A563D	uc011lff.1_RNA|uc003xyy.2_RNA	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	563	Cytoplasmic (Potential).|ANK 14.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AAGCGCAACGGCTTTGGCGTG	0.463													27	111	---	---	---	---	PASS	T	72964957	T	T	72964957	3	4	16	1	0	0	0	0	1	0	0	0	16574	1203	42	3	1727	3	TRPA1	8	72964957	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	1893163	72964957	73399065	102	8458										
KIAA1429	25962	broad.mit.edu	37	chr8	95531467	95531467	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cacaaggcaaatgcatcatcAataacaccatcagattggag	7	10	3	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr8:95531467A>C	uc003ygo.1	-	9	2272	c.2259T>G	c.(2257-2259)ATT>ATG	p.I753M	KIAA1429_uc003ygp.2_Missense_Mutation_p.I753M|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	753					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			ATGCATCATCAATAACACCAT	0.398													6	86	---	---	---	---	PASS	C	95531467	C	C	95531467	3	2	16	1	0	0	0	0	1	0	0	0	8231	126	5	5	3297	5	KIAA1429	8	95531467	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	22566510	95531467	50832555	103	8459										
NIPAL2	79815	broad.mit.edu	37	chr8	99234724	99234724	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	taccacatagatcaggaactGccatccgacaaggtaatact	7	11	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr8:99234724G>T	uc003yil.1	-	5	797	c.541C>A	c.(541-543)CAG>AAG	p.Q181K	NIPAL2_uc011lgw.1_5'UTR|NIPAL2_uc003yim.1_Missense_Mutation_p.Q181K	NM_024759	NP_079035	Q9H841	NPAL2_HUMAN	NIPA-like domain containing 2	181	Helical; (Potential).					integral to membrane					0						ATCAGGAACTGCCATCCGACA	0.388													28	128	---	---	---	---	PASS	T	99234724	T	T	99234724	3	4	16	1	0	0	0	0	1	0	0	0	10425	1328	46	3	597	3	NIPAL2	8	99234724	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	3703257	99234724	47129298	104	8460										
PKHD1L1	93035	broad.mit.edu	37	chr8	110424585	110424585	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	agctgttctttttgactcagCagatgttaaaccaaacagac	7	9	2	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr8:110424585C>A	uc003yne.2	+	20	2281	c.2177C>A	c.(2176-2178)GCA>GAA	p.A726E		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	726	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTTGACTCAGCAGATGTTAAA	0.373										HNSCC(38;0.096)			15	56	---	---	---	---	PASS	A	110424585	A	A	110424585	3	1	16	1	0	0	0	0	1	0	0	0	11972	710	25	3	2255	3	PKHD1L1	8	110424585	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	11189861	110424585	35939437	105	8461										
CSMD3	114788	broad.mit.edu	37	chr8	113418957	113418957	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	agaacttgttctaggaacagCtgtgtagaaatattatattt	8	4	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr8:113418957C>A	uc003ynu.2	-	35	5765	c.5606_splice	c.e35-1	p.A1869_splice	CSMD3_uc003yns.2_Splice_Site_p.A1071_splice|CSMD3_uc003ynt.2_Splice_Site_p.A1829_splice|CSMD3_uc011lhx.1_Splice_Site_p.A1765_splice	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1							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						CTAGGAACAGCTGTGTAGaaa	0.313										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			24	85	---	---	---	---	PASS	A	113418957	A	A	113418957	5	1	16	1	0	0	0	0	0	0	1	0	3946	811	28	3	5666	3	CSMD3	8	113418957	Splice_Site	SNP	C	TCGA-18-4721-01A-01D-1441-08	2994372	113418957	32945065	106	8462										
PLAA	9373	broad.mit.edu	37	chr9	26928209	26928209	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctttaccgcccacactgcagCtgtatgaccctgtgagtaaa	8	13	0	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr9:26928209C>A	uc003zqd.2	-	4	879	c.454G>T	c.(454-456)GCT>TCT	p.A152S	PLAA_uc003zqe.2_Missense_Mutation_p.A152S	NM_001031689	NP_001026859	Q9Y263	PLAP_HUMAN	phospholipase A2-activating protein	152	WD 4.				phospholipid metabolic process|signal transduction		phospholipase A2 activator activity				0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(218;1.32e-05)|LUSC - Lung squamous cell carcinoma(38;0.00011)		CACACTGCAGCTGTATGACCC	0.403													30	97	---	---	---	---	PASS	A	26928209	A	A	26928209	3	1	16	1	0	0	0	0	1	0	0	0	12011	797	28	3	1977	3	PLAA	9	26928209	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08		26928209	114285222	107	8463										
GABBR2	9568	broad.mit.edu	37	chr9	101304211	101304211	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cacgcgcttccactggtagtGcttgagcaacttcagaatgg	11	11	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr9:101304211G>A	uc004ays.2	-	3	730	c.574C>T	c.(574-576)CAC>TAC	p.H192Y		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	192	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	CACTGGTAGTGCTTGAGCAAC	0.532													43	46	---	---	---	---	PASS	A	101304211	A	A	101304211	3	1	16	1	0	0	0	0	1	0	0	0	6156	1319	46	3	2319	3	GABBR2	9	101304211	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	74376002	101304211	39909220	108	8464										
COL15A1	1306	broad.mit.edu	37	chr9	101797433	101797433	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgcacaatgggacttggattCgaggtacttttccccttttc	9	10	0	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr9:101797433C>G	uc004azb.1	+	18	2423	c.2217C>G	c.(2215-2217)TTC>TTG	p.F739L		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	739	Nonhelical region 3 (NC3).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				GACTTGGATTCGAGGTACTTT	0.512													5	226	---	---	---	---	PASS	G	101797433	G	G	101797433	3	3	16	1	0	0	0	0	1	0	0	0	3672	883	31	2	2287	2	COL15A1	9	101797433	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	493222	101797433	39415998	109	8465										
IKBKAP	8518	broad.mit.edu	37	chr9	111656249	111656249	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgctgaggtggccaatggctTtttcatatcgtttcaagtat	10	7	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr9:111656249T>C	uc004bdm.3	-	26	3354	c.2834A>G	c.(2833-2835)AAA>AGA	p.K945R	IKBKAP_uc004bdl.2_Missense_Mutation_p.K596R|IKBKAP_uc011lwc.1_Missense_Mutation_p.K831R|IKBKAP_uc010mtq.2_Missense_Mutation_p.K596R|IKBKAP_uc004bdk.2_5'Flank|IKBKAP_uc010mtp.2_5'Flank	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	945					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						GCCAATGGCTTTTTCATATCG	0.274													41	59	---	---	---	---	PASS	C	111656249	C	C	111656249	3	2	16	1	0	0	0	0	1	0	0	0	7610	1841	64	5	1212	5	IKBKAP	9	111656249	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	9858816	111656249	29557182	110	8466										
KIAA1462	57608	broad.mit.edu	37	chr10	30318554	30318554	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccacttggcaggacctgacaTtcgcaattcttcttcccaaa	6	14	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr10:30318554T>C	uc001iux.2	-	2	582	c.523A>G	c.(523-525)ATG>GTG	p.M175V	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.M37V|KIAA1462_uc009xle.1_Missense_Mutation_p.M175V	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	175										ovary(4)	4						GGACCTGACATTCGCAATTCT	0.542													61	195	---	---	---	---	PASS	C	30318554	C	C	30318554	3	2	16	1	0	0	0	0	1	0	0	0	8234	1493	52	5	3564	5	KIAA1462	10	30318554	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08		30318554	105216193	111	8467										
LRIT1	26103	broad.mit.edu	37	chr10	85993952	85993952	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cctgatgctggccactcctgGatggagctctgggccctggc	14	14	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr10:85993952G>A	uc001kcz.1	-	3	794	c.772C>T	c.(772-774)CCA>TCA	p.P258S		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	258	Lumenal (Potential).					integral to endoplasmic reticulum membrane					0						GCCACTCCTGGATGGAGCTCT	0.612													11	137	---	---	---	---	PASS	A	85993952	A	A	85993952	3	1	16	1	0	0	0	0	1	0	0	0	8947	1174	41	2	1107	2	LRIT1	10	85993952	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	55675398	85993952	49540795	112	8468										
PDE6C	5146	broad.mit.edu	37	chr10	95380397	95380397	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgtctctttcagaacagccaTttttctgacttcatggacaa	6	10	4	2	rs143708538		TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr10:95380397T>C	uc001kiu.3	+	2	627	c.489T>C	c.(487-489)CAT>CAC	p.H163H		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	163	GAF 1.				visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				AGAACAGCCATTTTTCTGACT	0.443													6	111	---	---	---	---	PASS	C	95380397	C	C	95380397	2	2	16	1	0	0	0	0	0	0	0	1	11647	1490	52	5		5	PDE6C	10	95380397	Silent	SNP	T	TCGA-18-4721-01A-01D-1441-08	9386445	95380397	40154350	113	8469										
OR51T1	401665	broad.mit.edu	37	chr11	4903941	4903941	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccgcctcttccactccacccCaagggtgctctgtagcactt	7	18	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:4903941C>A	uc010qyp.1	+	1	893	c.893C>A	c.(892-894)CCA>CAA	p.P298Q		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	271	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		CACTCCACCCCAAGGGTGCTC	0.493													14	107	---	---	---	---	PASS	A	4903941	A	A	4903941	3	1	16	1	0	0	0	0	1	0	0	0	11106	594	21	3	895	3	OR51T1	11	4903941	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08		4903941	130102575	114	8470										
OR52A4	390053	broad.mit.edu	37	chr11	5142492	5142492	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cttgaaatgtgtggatgagcCacatctgaaagaggcaagca	12	7	1	4			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:5142492C>T	uc001lzz.1	-	1	317	c.317G>A	c.(316-318)TGG>TAG	p.W106*	OR52A4_uc001maa.2_RNA	NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		GTGGATGAGCCACATCTGAAA	0.453													12	50	---	---	---	---	PASS	T	5142492	T	T	5142492	4	4	16	1	0	0	0	0	0	1	0	0	11109	595	21	3	601	3	OR52A4	11	5142492	Nonsense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	238551	5142492	129864024	115	8471										
EIF4G2	1982	broad.mit.edu	37	chr11	10821167	10821167	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gagatgttatctttaatccaTttatatatggtttgagggga	10	3	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:10821167T>C	uc001mjc.2	-	19	2673	c.2256A>G	c.(2254-2256)AAA>AAG	p.K752K	EIF4G2_uc001mjb.2_Silent_p.K546K|EIF4G2_uc009ygf.2_Silent_p.K546K|EIF4G2_uc001mjd.2_Silent_p.K714K	NM_001418	NP_001409	P78344	IF4G2_HUMAN	eukaryotic translation initiation factor 4	752	W2.				cell cycle arrest|cell death|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		CTTTAATCCATTTATATATGG	0.368													43	121	---	---	---	---	PASS	C	10821167	C	C	10821167	2	2	16	1	0	0	0	0	0	0	0	1	5037	1490	52	5		5	EIF4G2	11	10821167	Silent	SNP	T	TCGA-18-4721-01A-01D-1441-08	5678675	10821167	124185349	116	8472										
ABCC8	6833	broad.mit.edu	37	chr11	17426064	17426064	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccctgaggccatcacctggaCgccacccggaagtacttctg	10	16	2	1	rs144207158		TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:17426064C>T	uc001mnc.2	-	28	3678	c.3552G>A	c.(3550-3552)GCG>GCA	p.A1184A		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1184	ABC transmembrane type-1 2.|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)	ATCACCTGGACGCCACCCGGA	0.562													12	150	---	---	---	---	PASS	T	17426064	T	T	17426064	2	4	16	1	0	0	0	0	0	0	0	1	58	523	19	1		1	ABCC8	11	17426064	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	6604897	17426064	117580452	117	8473										
ANO5	203859	broad.mit.edu	37	chr11	22277035	22277035	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	agaccagaatttgaagctatGtgtaaacacaggaaattgaa	9	5	0	4			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:22277035G>T	uc001mqi.2	+	13	1616	c.1299G>T	c.(1297-1299)ATG>ATT	p.M433I	ANO5_uc001mqj.2_Missense_Mutation_p.M432I	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	433	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						TTGAAGCTATGTGTAAACACA	0.428													58	199	---	---	---	---	PASS	T	22277035	T	T	22277035	3	4	16	1	0	0	0	0	1	0	0	0	700	1377	48	3	1349	3	ANO5	11	22277035	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	4850971	22277035	112729481	118	8474										
SLC17A6	57084	broad.mit.edu	37	chr11	22384297	22384297	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cactttaggttcctatgccgGagctgtgattgcaatgcctt	10	10	0	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:22384297G>A	uc001mqk.2	+	6	1087	c.674G>A	c.(673-675)GGA>GAA	p.G225E		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	225	Helical; (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						TCCTATGCCGGAGCTGTGATT	0.398													28	90	---	---	---	---	PASS	A	22384297	A	A	22384297	3	1	16	1	0	0	0	0	1	0	0	0	14421	1174	41	2	696	2	SLC17A6	11	22384297	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	107262	22384297	112622219	119	8475										
OR4C16	219428	broad.mit.edu	37	chr11	55340171	55340171	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgaaacaagcctgttcagaaAcctatgtggttaacctactc	7	10	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:55340171A>C	uc010rih.1	+	1	568	c.568A>C	c.(568-570)ACC>CCC	p.T190P		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	190	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				CTGTTCAGAAACCTATGTGGT	0.433													34	148	---	---	---	---	PASS	C	55340171	C	C	55340171	3	2	16	1	0	0	0	0	1	0	0	0	11049	43	2	5	570	5	OR4C16	11	55340171	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	32955874	55340171	79666345	120	8476										
OR4P4	81300	broad.mit.edu	37	chr11	55406404	55406404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aattggcctgttctaatataCacatgataggtctcttagtc	7	8	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:55406404C>A	uc010rij.1	+	1	571	c.571C>A	c.(571-573)CAC>AAC	p.H191N		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TTCTAATATACACATGATAGG	0.358													31	48	---	---	---	---	PASS	A	55406404	A	A	55406404	3	1	16	1	0	0	0	0	1	0	0	0	11080	478	17	3	573	3	OR4P4	11	55406404	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	66233	55406404	79600112	121	8477										
OR4S2	219431	broad.mit.edu	37	chr11	55418601	55418601	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gacatttgttactcttcagtCacagctcccaagatgattgt	7	10	3	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:55418601C>G	uc001nhs.1	+	1	222	c.222C>G	c.(220-222)GTC>GTG	p.V74V		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				ACTCTTCAGTCACAGCTCCCA	0.428													76	110	---	---	---	---	PASS	G	55418601	G	G	55418601	2	3	16	1	0	0	0	0	0	0	0	1	11083	813	29	2		2	OR4S2	11	55418601	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	12197	55418601	79587915	122	8478										
SPRYD5	84767	broad.mit.edu	37	chr11	55657502	55657502	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	actggactgctggacagcctCagtggattcagaggtgagtg	15	8	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:55657502C>A	uc010rip.1	+	6	938	c.846C>A	c.(844-846)CTC>CTA	p.L282L	SPRYD5_uc010riq.1_Silent_p.L139L	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	282	B30.2/SPRY.					intracellular	zinc ion binding				0		all_epithelial(135;0.226)				TGGACAGCCTCAGTGGATTCA	0.493													16	70	---	---	---	---	PASS	A	55657502	A	A	55657502	2	1	16	1	0	0	0	0	0	0	0	1	15110	813	29	2		2	SPRYD5	11	55657502	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	238901	55657502	79349014	123	8479										
OR5AS1	219447	broad.mit.edu	37	chr11	55798382	55798382	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	actggtccatgtgtgcctcaCattcaggctgtcattttgtg	10	10	3	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:55798382C>T	uc010riw.1	+	1	488	c.488C>T	c.(487-489)ACA>ATA	p.T163I		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	163	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					GTGTGCCTCACATTCAGGCTG	0.433													52	281	---	---	---	---	PASS	T	55798382	T	T	55798382	3	4	16	1	0	0	0	0	1	0	0	0	11146	478	17	3	490	3	OR5AS1	11	55798382	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	140880	55798382	79208134	124	8480										
OR5B21	219968	broad.mit.edu	37	chr11	58275211	58275211	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aatgaagaggcctacataccGctgcatggcgatcataggcc	11	11	1	2	rs148173637		TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:58275211G>A	uc010rki.1	-	1	368	c.368C>T	c.(367-369)GCG>GTG	p.A123V		NM_001005218	NP_001005218	A6NL26	OR5BL_HUMAN	olfactory receptor, family 5, subfamily B,	123	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CCTACATACCGCTGCATGGCG	0.527													12	54	---	---	---	---	PASS	A	58275211	A	A	58275211	3	1	16	1	0	0	0	0	1	0	0	0	11151	1087	38	1	563	1	OR5B21	11	58275211	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	2476829	58275211	76731305	125	8481										
CD5	921	broad.mit.edu	37	chr11	60885660	60885660	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cccccagatttccaggcaagGctcacccgttccaactcgaa	7	17	1	1	rs141935047		TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:60885660G>A	uc009ynk.2	+	3	211	c.108G>A	c.(106-108)AGG>AGA	p.R36R		NM_014207	NP_055022	P06127	CD5_HUMAN	CD5 molecule precursor	36	Extracellular (Potential).|SRCR 1.				cell proliferation|cell recognition	integral to plasma membrane	scavenger receptor activity			ovary(1)	1		all_lung(304;5.94e-05)|Lung NSC(402;7.26e-05)		BRCA - Breast invasive adenocarcinoma(625;0.000946)|Lung(977;0.0086)|LUSC - Lung squamous cell carcinoma(625;0.0528)		TCCAGGCAAGGCTCACCCGTT	0.642													38	132	---	---	---	---	PASS	A	60885660	A	A	60885660	2	1	16	1	0	0	0	0	0	0	0	1	3021	1194	42	3		3	CD5	11	60885660	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	2610449	60885660	74120856	126	8482										
TUT1	64852	broad.mit.edu	37	chr11	62342847	62342847	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ttgctgctgcaagcgtctacGggctcgccgccgcccttgcc	12	17	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:62342847G>T	uc001nto.2	-	9	2496	c.2458C>A	c.(2458-2460)CGT>AGT	p.R820S	EEF1G_uc001ntm.1_5'Flank|EEF1G_uc010rlw.1_5'Flank|EEF1G_uc001ntn.1_5'Flank|TUT1_uc001ntp.1_Missense_Mutation_p.R316S	NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	782					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						AAGCGTCTACGGGCTCGCCGC	0.667													23	100	---	---	---	---	PASS	T	62342847	T	T	62342847	3	4	16	1	0	0	0	0	1	0	0	0	16777	1116	39	1	284	1	TUT1	11	62342847	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	1457187	62342847	72663669	127	8483										
LGALS12	85329	broad.mit.edu	37	chr11	63277350	63277350	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgacatcctggtagaggctgTtggattcctgaacatcaatg	11	8	1	3	rs80310877		TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:63277350T>C	uc001nxa.2	+	4	880	c.539T>C	c.(538-540)GTT>GCT	p.V180A	LGALS12_uc001nxb.2_Missense_Mutation_p.V180A|LGALS12_uc001nxc.2_Missense_Mutation_p.V181A|LGALS12_uc001nxd.2_Missense_Mutation_p.V119A|LGALS12_uc001nxe.2_Missense_Mutation_p.V119A|LGALS12_uc009yot.2_Missense_Mutation_p.V140A	NM_033101	NP_149092	Q96DT0	LEG12_HUMAN	lectin, galactoside-binding, soluble, 12 isoform	180	Galectin 1.				apoptosis|induction of apoptosis by intracellular signals	nucleus	lactose binding			ovary(2)	2						GTAGAGGCTGTTGGATTCCTG	0.552													9	43	---	---	---	---	PASS	C	63277350	C	C	63277350	3	2	16	1	0	0	0	0	1	0	0	0	8739	1725	60	5	556	5	LGALS12	11	63277350	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	934503	63277350	71729166	128	8484										
CDCA5	113130	broad.mit.edu	37	chr11	64846928	64846928	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	agggctttgcacaaaccctgGggacctcggtgagtttggag	15	9	0	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:64846928G>C	uc001ocp.2	-	5	740	c.575C>G	c.(574-576)CCC>CGC	p.P192R		NM_080668	NP_542399	Q96FF9	CDCA5_HUMAN	cell division cycle associated 5	192					cell division|double-strand break repair|G1/S transition of mitotic cell cycle|mitotic chromosome condensation|mitotic metaphase plate congression|mitotic sister chromatid cohesion|regulation of cohesin localization to chromatin	cytoplasm|nuclear chromatin|plasma membrane	chromatin binding|identical protein binding				0						ACAAACCCTGGGGACCTCGGT	0.597													23	90	---	---	---	---	PASS	C	64846928	C	C	64846928	3	2	16	1	0	0	0	0	1	0	0	0	3089	1232	43	4	191	4	CDCA5	11	64846928	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	1569578	64846928	70159588	129	8485										
RSF1	51773	broad.mit.edu	37	chr11	77412491	77412491	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ttgtgcgtccttatcaagaaAagtctttttggacttctcta	7	8	3	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:77412491A>G	uc001oyn.2	-	6	1903	c.1783T>C	c.(1783-1785)TTT>CTT	p.F595L	RSF1_uc001oym.2_Missense_Mutation_p.F343L	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	595					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			TTATCAAGAAAAGTCTTTTTG	0.428													54	204	---	---	---	---	PASS	G	77412491	G	G	77412491	3	3	16	1	0	0	0	0	1	0	0	0	13699	14	1	5	2586	5	RSF1	11	77412491	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	12565563	77412491	57594025	130	8486										
FAT3	120114	broad.mit.edu	37	chr11	92086219	92086219	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tcctttagatcagttcttccTggctaaggaaggaaagtggt	11	7	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:92086219T>C	uc001pdj.3	+	1	958	c.941T>C	c.(940-942)CTG>CCG	p.L314P		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	314	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CAGTTCTTCCTGGCTAAGGAA	0.448										TCGA Ovarian(4;0.039)			12	35	---	---	---	---	PASS	C	92086219	C	C	92086219	3	2	16	1	0	0	0	0	1	0	0	0	5691	1580	55	5	943	5	FAT3	11	92086219	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	14673728	92086219	42920297	131	8487										
FAT3	120114	broad.mit.edu	37	chr11	92533104	92533104	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ttgggacacctgttttacaaGttgtctctattgatgcagac	9	8	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:92533104G>T	uc001pdj.3	+	9	6942	c.6925G>T	c.(6925-6927)GTT>TTT	p.V2309F		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2309	Cadherin 21.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TGTTTTACAAGTTGTCTCTAT	0.363										TCGA Ovarian(4;0.039)			7	25	---	---	---	---	PASS	T	92533104	T	T	92533104	3	4	16	1	0	0	0	0	1	0	0	0	5691	1029	36	3	6959	3	FAT3	11	92533104	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	446885	92533104	42473412	132	8488										
HTR3A	3359	broad.mit.edu	37	chr11	113860284	113860284	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccaccacctcgggaggcctcGctggcggtgtgtgggctgct	16	14	0	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:113860284G>T	uc010rxb.1	+	8	1583	c.1350G>T	c.(1348-1350)TCG>TCT	p.S450S	HTR3A_uc010rxa.1_Silent_p.S418S|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Silent_p.S397S	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	412	Cytoplasmic (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	GGGAGGCCTCGCTGGCGGTGT	0.652													37	132	---	---	---	---	PASS	T	113860284	T	T	113860284	2	4	16	1	0	0	0	0	0	0	0	1	7444	1074	38	1		1	HTR3A	11	113860284	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	21327180	113860284	21146232	133	8489										
CRTAM	56253	broad.mit.edu	37	chr11	122720812	122720812	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccacacagaaaccatcaccgTggaggaaggccagacgctca	10	14	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:122720812T>A	uc001pyj.2	+	2	83	c.83T>A	c.(82-84)GTG>GAG	p.V28E		NM_019604	NP_062550	O95727	CRTAM_HUMAN	class-I MHC-restricted T cell associated	28	Ig-like V-type.|Extracellular (Potential).				cell recognition|detection of tumor cell|positive regulation of cytokine secretion|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	integral to membrane|plasma membrane	receptor binding			ovary(1)	1		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.28e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		ACCATCACCGTGGAGGAAGGC	0.522													12	72	---	---	---	---	PASS	A	122720812	A	A	122720812	3	1	16	1	0	0	0	0	1	0	0	0	3897	1696	59	5	89	5	CRTAM	11	122720812	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	8860528	122720812	12285704	134	8490										
OR8G2	26492	broad.mit.edu	37	chr11	124095817	124095817	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gaccgctatgttgccatctgCagccccttgctgtacaatgt	9	13	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr11:124095817C>A	uc010saf.1	+	1	420	c.420C>A	c.(418-420)TGC>TGA	p.C140*		NM_001007249	NP_001007250	Q15614	OR8G2_HUMAN	olfactory receptor, family 8, subfamily G,	140						integral to membrane	olfactory receptor activity				0		Breast(109;0.0157)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.91e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		TTGCCATCTGCAGCCCCTTGC	0.463													64	255	---	---	---	---	PASS	A	124095817	A	A	124095817	4	1	16	1	0	0	0	0	0	1	0	0	11235	718	25	3	422	3	OR8G2	11	124095817	Nonsense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	1375005	124095817	10910699	135	8491										
PEX5	5830	broad.mit.edu	37	chr12	7362674	7362674	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gcagaggaaaagccggggccCccggggtgaaggaggtgcca	19	10	0	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:7362674C>T	uc009zfu.1	+	17	2355	c.1775C>T	c.(1774-1776)CCC>CTC	p.P592L	PEX5_uc001qsw.2_Missense_Mutation_p.P592L|PEX5_uc010sgc.1_Missense_Mutation_p.P607L|PEX5_uc001qsu.2_Missense_Mutation_p.P555L|PEX5_uc010sgd.1_Missense_Mutation_p.P613L|PEX5_uc001qsv.2_Missense_Mutation_p.P584L	NM_001131026	NP_001124498	P50542	PEX5_HUMAN	peroxisomal biogenesis factor 5 isoform d	592					protein import into peroxisome matrix, translocation|protein targeting to peroxisome|protein tetramerization|protein transport	cytosol|peroxisomal matrix|peroxisomal membrane	peroxisome matrix targeting signal-1 binding|protein C-terminus binding|protein N-terminus binding			ovary(1)	1						AGCCGGGGCCCCCGGGGTGAA	0.572													13	84	---	---	---	---	PASS	T	7362674	T	T	7362674	3	4	16	1	0	0	0	0	1	0	0	0	11748	623	22	3	1878	3	PEX5	12	7362674	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08		7362674	126489221	136	8492										
PRB2	653247	broad.mit.edu	37	chr12	11546368	11546368	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gtggctttcctggaggtgggGgaccttgaggtttgttgcct	17	7	0	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:11546368G>A	uc010shk.1	-	3	679	c.644C>T	c.(643-645)CCC>CTC	p.P215L		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			TGGAGGTGGGGGACCTTGAGG	0.612													57	369	---	---	---	---	PASS	A	11546368	A	A	11546368	3	1	16	1	0	0	0	0	1	0	0	0	12443	1232	43	3	610	3	PRB2	12	11546368	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	4183694	11546368	122305527	137	8493										
BCL2L14	79370	broad.mit.edu	37	chr12	12232614	12232614	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	acgttggaataccaagattcGcacagccagcagtggtccag	11	11	0	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:12232614G>T	uc001rac.2	+	2	576	c.375G>T	c.(373-375)TCG>TCT	p.S125S	ETV6_uc001raa.1_Intron|BCL2L14_uc001raf.1_RNA|BCL2L14_uc001rad.2_Silent_p.S125S|BCL2L14_uc001rae.2_Silent_p.S125S	NM_138723	NP_620049	Q9BZR8	B2L14_HUMAN	BCL2-like 14 isoform 1	125					apoptosis|regulation of apoptosis	cytosol|endomembrane system|intracellular organelle|membrane	protein binding			skin(1)	1		Prostate(47;0.0872)		BRCA - Breast invasive adenocarcinoma(232;0.154)		ACCAAGATTCGCACAGCCAGC	0.512													24	211	---	---	---	---	PASS	T	12232614	T	T	12232614	2	4	16	1	0	0	0	0	0	0	0	1	1372	1074	38	1		1	BCL2L14	12	12232614	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	686246	12232614	121619281	138	8494										
WBP11	51729	broad.mit.edu	37	chr12	14949741	14949741	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aaaaaaaaaaccttgattacCttgacagcatcaaaatattg	4	7	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:14949741C>T	uc001rci.2	-	5	548	c.387G>A	c.(385-387)AAG>AAA	p.K129K		NM_016312	NP_057396	Q9Y2W2	WBP11_HUMAN	WW domain binding protein 11	129	Potential.				mRNA processing|RNA splicing|rRNA processing	cytoplasm	single-stranded DNA binding|WW domain binding			ovary(1)|lung(1)	2						CCTTGATTACCTTGACAGCAT	0.209													39	90	---	---	---	---	PASS	T	14949741	T	T	14949741	2	4	16	1	0	0	0	0	0	0	0	1	17255	695	24	3		3	WBP11	12	14949741	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	2717127	14949741	118902154	139	8495										
GALNT6	11226	broad.mit.edu	37	chr12	51759273	51759273	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cgctggcccccagcagccggGcggtgatcagccccttccgc	13	19	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:51759273G>A	uc001ryk.2	-	4	980	c.755C>T	c.(754-756)GCC>GTC	p.A252V	GALNT6_uc009zma.1_RNA|GALNT6_uc001ryl.1_Missense_Mutation_p.A252V	NM_007210	NP_009141	Q8NCL4	GALT6_HUMAN	polypeptide N-acetylgalactosaminyltransferase 6	252	Catalytic subdomain A.|Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|perinuclear region of cytoplasm	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						CAGCAGCCGGGCGGTGATCAG	0.657													25	87	---	---	---	---	PASS	A	51759273	A	A	51759273	3	1	16	1	0	0	0	0	1	0	0	0	6217	1203	42	3	1145	3	GALNT6	12	51759273	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	36809532	51759273	82092622	140	8496										
KRT2	3849	broad.mit.edu	37	chr12	53045439	53045439	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctgggtcaactttcacgttgAgaggctgcaggaggctctgg	15	9	3	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:53045439A>G	uc001sat.2	-	1	521	c.488T>C	c.(487-489)CTC>CCC	p.L163P		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	163	Head.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		TTTCACGTTGAGAGGCTGCAG	0.488													42	140	---	---	---	---	PASS	G	53045439	G	G	53045439	3	3	16	1	0	0	0	0	1	0	0	0	8457	304	11	5	1467	5	KRT2	12	53045439	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	1286166	53045439	80806456	141	8497										
TARBP2	6895	broad.mit.edu	37	chr12	53899892	53899892	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccgtggtgaggctgcccgccGtgccctgcagtacctcaaga	13	15	1	2	rs140535249		TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:53899892G>A	uc001sdo.2	+	9	1549	c.1061G>A	c.(1060-1062)CGT>CAT	p.R354H	TARBP2_uc001sdp.2_Missense_Mutation_p.R333H|TARBP2_uc001sdq.2_Missense_Mutation_p.R210H|TARBP2_uc001sdr.2_Missense_Mutation_p.R210H|TARBP2_uc001sds.2_3'UTR|TARBP2_uc001sdt.2_Missense_Mutation_p.R333H|TARBP2_uc001sdu.2_Missense_Mutation_p.R210H|TARBP2_uc001sdv.2_RNA	NM_134323	NP_599150	Q15633	TRBP2_HUMAN	TAR RNA binding protein 2 isoform a	354	Sufficient for interaction with DICER1.|DRBM 3.|Sufficient for interaction with PRKRA.				miRNA loading onto RISC involved in gene silencing by miRNA|negative regulation of defense response to virus by host|negative regulation of protein kinase activity|positive regulation of viral genome replication|pre-miRNA processing|production of siRNA involved in RNA interference|regulation of transcription from RNA polymerase II promoter|regulation of translation|regulation of viral transcription|targeting of mRNA for destruction involved in RNA interference	cytosol|nucleus|perinuclear region of cytoplasm|RNA-induced silencing complex	double-stranded RNA binding|protein homodimerization activity|siRNA binding			central_nervous_system(1)	1						GCTGCCCGCCGTGCCCTGCAG	0.632													8	34	---	---	---	---	PASS	A	53899892	A	A	53899892	3	1	16	1	0	0	0	0	1	0	0	0	15553	1145	40	1	1095	1	TARBP2	12	53899892	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	854453	53899892	79952003	142	8498										
WIF1	11197	broad.mit.edu	37	chr12	65449838	65449838	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	acagaggtctccctggtaacCtttggaacacttacatttgc	8	11	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:65449838C>A	uc001ssk.2	-	8	1040	c.895G>T	c.(895-897)GGT>TGT	p.G299C		NM_007191	NP_009122	Q9Y5W5	WIF1_HUMAN	WNT inhibitory factor 1 precursor	299	EGF-like 4.				multicellular organismal development|Wnt receptor signaling pathway	extracellular region	protein tyrosine kinase activity			ovary(2)|lung(1)|skin(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0231)		CCCTGGTAACCTTTGGAACAC	0.438			T	HMGA2	pleomorphic salivary gland adenoma								18	101	---	---	---	---	PASS	A	65449838	A	A	65449838	3	1	16	1	0	0	0	0	1	0	0	0	17363	681	24	3	256	3	WIF1	12	65449838	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	11549946	65449838	68402057	143	8499										
SLC6A15	55117	broad.mit.edu	37	chr12	85285815	85285815	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cttaaaagcatcatcagctgCgtcttcattggaaagaaggt	9	8	4	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:85285815C>T	uc001szv.2	-	2	578	c.85G>A	c.(85-87)GCA>ACA	p.A29T	SLC6A15_uc010sul.1_Intron|SLC6A15_uc001szy.2_Missense_Mutation_p.A29T	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	29	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						TCATCAGCTGCGTCTTCATTG	0.398													83	238	---	---	---	---	PASS	T	85285815	T	T	85285815	3	4	16	1	0	0	0	0	1	0	0	0	14678	768	27	1	2265	1	SLC6A15	12	85285815	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	19835977	85285815	48566080	144	8500										
MGAT4C	25834	broad.mit.edu	37	chr12	86374017	86374017	+	Missense_Mutation	SNP	G	T	T													0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	taatcttcctgcaataatatGgtgcgcaaatttctgtgtaa							TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:86374017G>T	uc001tai.3	-	8	1737	c.487C>A	c.(487-489)CAT>AAT	p.H163N	MGAT4C_uc001tal.3_Missense_Mutation_p.H163N|MGAT4C_uc001taj.3_Missense_Mutation_p.H163N|MGAT4C_uc001tak.3_Missense_Mutation_p.H163N|MGAT4C_uc010sum.1_Missense_Mutation_p.H187N|MGAT4C_uc001tah.3_Missense_Mutation_p.H163N	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	163	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						GCAATAATATGGTGCGCAAAT	0.403													41	219	---	---	---	---	PASS	T	86374017	T	T	86374017	3	4	16	1	0	0	0	0	1	0	0	0	9547	1348	47	3	953	3	MGAT4C	12	86374017	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	1088202	86374017	47477878	145	8501	251	2								
MGAT4C	25834	broad.mit.edu	37	chr12	86374018	86374018	+	Missense_Mutation	SNP	G	T	T													0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aatcttcctgcaataatatgGtgcgcaaatttctgtgtaat							TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:86374018G>T	uc001tai.3	-	8	1736	c.486C>A	c.(484-486)CAC>CAA	p.H162Q	MGAT4C_uc001tal.3_Missense_Mutation_p.H162Q|MGAT4C_uc001taj.3_Missense_Mutation_p.H162Q|MGAT4C_uc001tak.3_Missense_Mutation_p.H162Q|MGAT4C_uc010sum.1_Missense_Mutation_p.H186Q|MGAT4C_uc001tah.3_Missense_Mutation_p.H162Q	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	162	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						CAATAATATGGTGCGCAAATT	0.403													43	219	---	---	---	---	PASS	T	86374018	T	T	86374018	3	4	16	1	0	0	0	0	1	0	0	0	9547	1252	44	3	954	3	MGAT4C	12	86374018	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	1	86374018	47477877	146	8502	251	2								
ARL1	400	broad.mit.edu	37	chr12	101794928	101794928	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aaatgactgcatctgtgtttGaatagtaacatctccagtat	7	7	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:101794928G>C	uc001tib.2	-	4	397	c.248C>G	c.(247-249)TCA>TGA	p.S83*	ARL1_uc010svn.1_Nonsense_Mutation_p.S37*|ARL1_uc010svo.1_RNA|ARL1_uc001tic.2_Nonsense_Mutation_p.S83*	NM_001177	NP_001168	P40616	ARL1_HUMAN	ADP-ribosylation factor-like 1	83					small GTPase mediated signal transduction	Golgi membrane	enzyme activator activity|GTP binding|GTPase activity|metal ion binding|protein binding			central_nervous_system(1)	1		Lung NSC(355;2.1e-05)|Breast(359;0.00015)|Myeloproliferative disorder(1001;0.163)		GBM - Glioblastoma multiforme(134;1.67e-09)|BRCA - Breast invasive adenocarcinoma(302;0.0125)		ATCTGTGTTTGAATAGTAACA	0.368													24	102	---	---	---	---	PASS	C	101794928	C	C	101794928	4	2	16	1	0	0	0	0	0	1	0	0	925	1294	45	2	309	2	ARL1	12	101794928	Nonsense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	15420910	101794928	32056967	147	8503										
RPL6	6128	broad.mit.edu	37	chr12	112844596	112844596	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	atgatcagaatggtcccgggGgtaatgctggctcgcagttt	14	8	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:112844596G>A	uc001ttu.2	-	4	664	c.435C>T	c.(433-435)ACC>ACT	p.T145T	RPL6_uc001ttv.2_Silent_p.T145T	NM_001024662	NP_001019833	Q02878	RL6_HUMAN	ribosomal protein L6	145					endocrine pancreas development|regulation of transcription, DNA-dependent|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	DNA binding|RNA binding|structural constituent of ribosome			large_intestine(1)	1						TGGTCCCGGGGGTAATGCTGG	0.562													11	59	---	---	---	---	PASS	A	112844596	A	A	112844596	2	1	16	1	0	0	0	0	0	0	0	1	13598	1219	43	3		3	RPL6	12	112844596	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	11049668	112844596	21007299	148	8504										
CIT	11113	broad.mit.edu	37	chr12	120172134	120172134	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgacctgttcctccagcatgGtgcacgtggtcttcagagcc	11	13	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:120172134G>C	uc001txi.1	-	25	3112	c.3059C>G	c.(3058-3060)ACC>AGC	p.T1020S	CIT_uc001txh.1_Missense_Mutation_p.T554S|CIT_uc001txj.1_Missense_Mutation_p.T1062S	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1020	Potential.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		CTCCAGCATGGTGCACGTGGT	0.522													17	66	---	---	---	---	PASS	C	120172134	C	C	120172134	3	2	16	1	0	0	0	0	1	0	0	0	3438	1261	44	4	3116	4	CIT	12	120172134	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	7327538	120172134	13679761	149	8505										
CHFR	55743	broad.mit.edu	37	chr12	133435751	133435751	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgctctgacgtcctcgtggaCggtttgggcatttctacgcg	13	11	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr12:133435751C>T	uc001ulf.2	-	8	934	c.850G>A	c.(850-852)GTC>ATC	p.V284I	CHFR_uc001ulc.1_RNA|CHFR_uc001ule.2_Missense_Mutation_p.V272I|CHFR_uc010tbs.1_Missense_Mutation_p.V284I|CHFR_uc001uld.2_Missense_Mutation_p.V243I|CHFR_uc010tbt.1_Missense_Mutation_p.V192I	NM_001161344	NP_001154816	Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains	284					cell division|mitosis|mitotic cell cycle checkpoint|modification-dependent protein catabolic process|protein polyubiquitination	PML body	nucleotide binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00552)|all_epithelial(31;0.226)		OV - Ovarian serous cystadenocarcinoma(86;2.59e-08)|Epithelial(86;6.38e-07)|all cancers(50;1.56e-05)		TCCTCGTGGACGGTTTGGGCA	0.567													10	95	---	---	---	---	PASS	T	133435751	T	T	133435751	3	4	16	1	0	0	0	0	1	0	0	0	3337	536	19	1	1188	1	CHFR	12	133435751	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	13263617	133435751	416144	150	8506										
MTUS2	23281	broad.mit.edu	37	chr13	29600302	29600302	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gtgcctgagcccctggacccTcaaagtggccgctcagaagc	12	15	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr13:29600302T>C	uc001usl.3	+	1	1555	c.1497T>C	c.(1495-1497)CCT>CCC	p.P499P		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	489						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						CCCTGGACCCTCAAAGTGGCC	0.498													3	76	---	---	---	---	PASS	C	29600302	C	C	29600302	2	2	16	1	0	0	0	0	0	0	0	1	9966	1538	54	5		5	MTUS2	13	29600302	Silent	SNP	T	TCGA-18-4721-01A-01D-1441-08		29600302	85569576	151	8507										
LCP1	3936	broad.mit.edu	37	chr13	46730657	46730657	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	catgccgacaatcaggatcaTtttccagggctttgtttatc	8	10	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr13:46730657T>C	uc001vaz.3	-	5	533	c.407A>G	c.(406-408)AAT>AGT	p.N136S	LCP1_uc001vba.3_Missense_Mutation_p.N136S	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	136	Actin-binding 1.|CH 1.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		ATCAGGATCATTTTCCAGGGC	0.368			T	BCL6	NHL 								40	145	---	---	---	---	PASS	C	46730657	C	C	46730657	3	2	16	1	0	0	0	0	1	0	0	0	8691	1493	52	5	1524	5	LCP1	13	46730657	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	17130355	46730657	68439221	152	8508										
LECT1	11061	broad.mit.edu	37	chr13	53307423	53307423	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ttaaaggtctccaagttgttCccagcgtctatttccattga	7	10	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr13:53307423C>T	uc001vhf.2	-	3	396	c.285G>A	c.(283-285)GGG>GGA	p.G95G	LECT1_uc001vhg.2_Silent_p.G95G|LECT1_uc001vhh.2_Silent_p.G122G	NM_007015	NP_008946	O75829	LECT1_HUMAN	leukocyte cell derived chemotaxin 1 isoform 1	95					cartilage development|proteoglycan metabolic process	endomembrane system|extracellular region|integral to membrane				ovary(2)	2		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.38e-08)		CCAAGTTGTTCCCAGCGTCTA	0.363													24	161	---	---	---	---	PASS	T	53307423	T	T	53307423	2	4	16	1	0	0	0	0	0	0	0	1	8712	842	30	2		2	LECT1	13	53307423	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	6576766	53307423	61862455	153	8509										
OR6S1	341799	broad.mit.edu	37	chr14	21109802	21109802	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gttgagatttgggagccctgCcaggacgaactctgttggat	14	8	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr14:21109802C>G	uc001vxv.1	-	1	49	c.49G>C	c.(49-51)GCA>CCA	p.A17P		NM_001001968	NP_001001968	Q8NH40	OR6S1_HUMAN	olfactory receptor, family 6, subfamily S,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00304)		Epithelial(56;1.23e-06)|all cancers(55;1.01e-05)	GBM - Glioblastoma multiforme(265;0.0135)		GGGAGCCCTGCCAGGACGAAC	0.458													52	257	---	---	---	---	PASS	G	21109802	G	G	21109802	3	3	16	1	0	0	0	0	1	0	0	0	11209	739	26	4	950	4	OR6S1	14	21109802	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08		21109802	86239738	154	8510										
RPGRIP1	57096	broad.mit.edu	37	chr14	21794322	21794322	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctgcctcttgcaaaaaatgaAtctatcaaaggtgggagttc	9	8	3	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr14:21794322A>T	uc001wag.2	+	16	2700	c.2700A>T	c.(2698-2700)GAA>GAT	p.E900D	RPGRIP1_uc001wah.2_Missense_Mutation_p.E542D|RPGRIP1_uc001wai.2_Intron|RPGRIP1_uc001wak.2_Missense_Mutation_p.E375D|RPGRIP1_uc010aim.2_Missense_Mutation_p.E283D|RPGRIP1_uc001wal.2_Missense_Mutation_p.E259D|RPGRIP1_uc001wam.2_Missense_Mutation_p.E217D	NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	900					response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		CAAAAAATGAATCTATCAAAG	0.453													8	30	---	---	---	---	PASS	T	21794322	T	T	21794322	3	4	16	1	0	0	0	0	1	0	0	0	13549	98	4	5	2762	5	RPGRIP1	14	21794322	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	684520	21794322	85555218	155	8511										
CHD8	57680	broad.mit.edu	37	chr14	21859633	21859633	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gccactcaccgctagaaatcGgggatcaacagcaaactctg	9	13	3	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr14:21859633G>A	uc001was.1	-	36	6311	c.6217C>T	c.(6217-6219)CGA>TGA	p.R2073*	CHD8_uc001war.1_Nonsense_Mutation_p.R1969*	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	2352					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		GCTAGAAATCGGGGATCAACA	0.483													13	51	---	---	---	---	PASS	A	21859633	A	A	21859633	4	1	16	1	0	0	0	0	0	1	0	0	3331	1124	39	1	703	1	CHD8	14	21859633	Nonsense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	65311	21859633	85489907	156	8512										
CMA1	1215	broad.mit.edu	37	chr14	24975388	24975388	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tcaacacacctgttcttcccCagccagccacccggcacatt	5	19	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr14:24975388C>A	uc001wpp.1	-	4	476	c.446G>T	c.(445-447)TGG>TTG	p.W149L	CMA1_uc010alx.1_Missense_Mutation_p.W38L	NM_001836	NP_001827	P23946	CMA1_HUMAN	chymase 1, mast cell preproprotein	149	Peptidase S1.				interleukin-1 beta biosynthetic process|proteolysis	extracellular region	serine-type endopeptidase activity				0				GBM - Glioblastoma multiforme(265;0.0271)		TGTTCTTCCCCAGCCAGCCAC	0.577													16	46	---	---	---	---	PASS	A	24975388	A	A	24975388	3	1	16	1	0	0	0	0	1	0	0	0	3574	595	21	3	305	3	CMA1	14	24975388	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	3115755	24975388	82374152	157	8513										
C14orf101	54916	broad.mit.edu	37	chr14	57092202	57092202	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tggaaggaatattacctagtGgaatggtcacatttaatctt	9	5	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr14:57092202G>T	uc001xcm.2	+	12	1623	c.1501G>T	c.(1501-1503)GGA>TGA	p.G501*	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xcl.1_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_Nonsense_Mutation_p.G34*|C14orf101_uc001xco.2_Nonsense_Mutation_p.G34*	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	501						integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		ATTACCTAGTGGAATGGTCAC	0.348													30	90	---	---	---	---	PASS	T	57092202	T	T	57092202	4	4	16	1	0	0	0	0	0	1	0	0	1734	1349	47	3	1547	3	C14orf101	14	57092202	Nonsense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	32116814	57092202	50257338	158	8514										
TSHR	7253	broad.mit.edu	37	chr14	81557425	81557425	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	taatttagtggcattttcaaCactggacttaaaatgttccc	6	8	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr14:81557425C>G	uc001xvd.1	+	5	561	c.405C>G	c.(403-405)AAC>AAG	p.N135K	TSHR_uc001xvb.1_Missense_Mutation_p.N135K|TSHR_uc001xvc.2_Missense_Mutation_p.N135K|TSHR_uc010tvs.1_Missense_Mutation_p.N135K	NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	135	Extracellular (Potential).|LRR 2.				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	GCATTTTCAACACTGGACTTA	0.274			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						16	154	---	---	---	---	PASS	G	81557425	G	G	81557425	3	3	16	1	0	0	0	0	1	0	0	0	16619	477	17	4	423	4	TSHR	14	81557425	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	24465223	81557425	25792115	159	8515										
EML5	161436	broad.mit.edu	37	chr14	89168804	89168804	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	acctacctggcctgttgccaCgtagtctttcaaaggatgaa	9	11	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr14:89168804C>G	uc001xxg.2	-	15	2410	c.2224G>C	c.(2224-2226)GTG>CTG	p.V742L	EML5_uc001xxh.1_5'UTR	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	742	WD 11.					cytoplasm|microtubule				ovary(3)	3						CCTGTTGCCACGTAGTCTTTC	0.368													4	94	---	---	---	---	PASS	G	89168804	G	G	89168804	3	3	16	1	0	0	0	0	1	0	0	0	5100	536	19	4	3829	4	EML5	14	89168804	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	7611379	89168804	18180736	160	8516										
CYFIP1	23191	broad.mit.edu	37	chr15	22969169	22969169	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctttggtgccacaggagctgGatggcctgttggaaatcaac	13	9	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr15:22969169G>A	uc001yus.2	+	22	2499	c.2395G>A	c.(2395-2397)GAT>AAT	p.D799N	CYFIP1_uc001yut.2_Missense_Mutation_p.D799N|CYFIP1_uc010aya.1_Missense_Mutation_p.D827N|CYFIP1_uc001yuu.2_Missense_Mutation_p.D368N|CYFIP1_uc001yuv.2_5'UTR	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	799					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		ACAGGAGCTGGATGGCCTGTT	0.632													5	44	---	---	---	---	PASS	A	22969169	A	A	22969169	3	1	16	1	0	0	0	0	1	0	0	0	4137	1174	41	2	2858	2	CYFIP1	15	22969169	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08		22969169	79562223	161	8517										
GABRG3	2567	broad.mit.edu	37	chr15	27571980	27571980	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	accaaattgacatattttttGctcagacctggacagatagt	7	8	1	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr15:27571980G>T	uc001zbg.1	+	4	461	c.295G>T	c.(295-297)GCT>TCT	p.A99S	GABRG3_uc001zbf.2_Missense_Mutation_p.A99S	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	99	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		CATATTTTTTGCTCAGACCTG	0.393													34	145	---	---	---	---	PASS	T	27571980	T	T	27571980	3	4	16	1	0	0	0	0	1	0	0	0	6173	1319	46	3	309	3	GABRG3	15	27571980	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	4602811	27571980	74959412	162	8518										
UBR1	197131	broad.mit.edu	37	chr15	43363018	43363018	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctggagttcaggaggcagttCtttttcctcttcccatatag	9	10	3	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr15:43363018C>A	uc001zqq.2	-	5	700	c.634G>T	c.(634-636)GAA>TAA	p.E212*	UBR1_uc010udk.1_Nonsense_Mutation_p.E212*	NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	212					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)		GGAGGCAGTTCTTTTTCCTCT	0.373													16	225	---	---	---	---	PASS	A	43363018	A	A	43363018	4	1	16	1	0	0	0	0	0	1	0	0	16898	922	32	2	4787	2	UBR1	15	43363018	Nonsense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	15791038	43363018	59168374	163	8519										
CCDC33	80125	broad.mit.edu	37	chr15	74627335	74627335	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gttagaggactcagctcgacGctggggacgagagaagcagg	17	8	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr15:74627335G>T	uc002axo.2	+	18	2439	c.2045G>T	c.(2044-2046)CGC>CTC	p.R682L	CCDC33_uc002axp.2_Missense_Mutation_p.R538L|CCDC33_uc002axq.2_Missense_Mutation_p.R309L|CCDC33_uc002axr.2_Missense_Mutation_p.R275L	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	885	Potential.						protein binding			ovary(3)|skin(2)	5						TCAGCTCGACGCTGGGGACGA	0.572													4	141	---	---	---	---	PASS	T	74627335	T	T	74627335	3	4	16	1	0	0	0	0	1	0	0	0	2806	1087	38	1	2294	1	CCDC33	15	74627335	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	31264317	74627335	27904057	164	8520										
AKAP13	11214	broad.mit.edu	37	chr15	86270386	86270386	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ttattcctgatcagcatgggGatgacagatccagagatggt	12	7	1	4			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr15:86270386G>A	uc002blv.1	+	28	7082	c.6912G>A	c.(6910-6912)GGG>GGA	p.G2304G	AKAP13_uc002blu.1_Silent_p.G2308G|AKAP13_uc010bnf.1_Silent_p.G925G|AKAP13_uc002blw.1_Silent_p.G769G|AKAP13_uc002blx.1_Silent_p.G549G	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2304	Interaction with ESR1.|PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TCAGCATGGGGATGACAGATC	0.448													33	103	---	---	---	---	PASS	A	86270386	A	A	86270386	2	1	16	1	0	0	0	0	0	0	0	1	449	1161	41	2		2	AKAP13	15	86270386	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	11643051	86270386	16261006	165	8521										
NTRK3	4916	broad.mit.edu	37	chr15	88727478	88727478	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cttttgaagtccggtgtagaGctccatgtccacggcgttga	12	10	0	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr15:88727478G>T	uc002bme.1	-	3	463	c.301C>A	c.(301-303)CTC>ATC	p.L101I	NTRK3_uc002bmh.2_Missense_Mutation_p.L101I|NTRK3_uc002bmf.1_Missense_Mutation_p.L101I|NTRK3_uc010upl.1_Missense_Mutation_p.L3I|NTRK3_uc010bnh.1_Missense_Mutation_p.L101I|NTRK3_uc002bmg.2_Missense_Mutation_p.L101I	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	101	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)			CCGGTGTAGAGCTCCATGTCC	0.517			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			13	67	---	---	---	---	PASS	T	88727478	T	T	88727478	3	4	16	1	0	0	0	0	1	0	0	0	10708	971	34	3	2548	3	NTRK3	15	88727478	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	2457092	88727478	13803914	166	8522										
SV2B	9899	broad.mit.edu	37	chr15	91795123	91795123	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctgataagctgggaaggaagCgagtcctcagcatgtctctg	13	9	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr15:91795123C>A	uc002bqv.2	+	2	917	c.526C>A	c.(526-528)CGA>AGA	p.R176R	SV2B_uc002bqt.2_Silent_p.R176R|SV2B_uc010uqv.1_Silent_p.R25R|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	176	Cytoplasmic (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			GGGAAGGAAGCGAGTCCTCAG	0.582													26	101	---	---	---	---	PASS	A	91795123	A	A	91795123	2	1	16	1	0	0	0	0	0	0	0	1	15415	760	27	1		1	SV2B	15	91795123	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	3067645	91795123	10736269	167	8523										
ADAMTS17	170691	broad.mit.edu	37	chr15	100533367	100533367	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgtgagttggtgcacgccacGgtccgtttccacaccccttt	10	14	0	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr15:100533367G>A	uc002bvv.1	-	20	2914	c.2835C>T	c.(2833-2835)ACC>ACT	p.T945T		NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	945	TSP type-1 4.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		TGCACGCCACGGTCCGTTTCC	0.488													26	106	---	---	---	---	PASS	A	100533367	A	A	100533367	2	1	16	1	0	0	0	0	0	0	0	1	262	1103	39	1		1	ADAMTS17	15	100533367	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	8738244	100533367	1998025	168	8524										
ALDOA	226	broad.mit.edu	37	chr16	30080176	30080176	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gagcgctgtgcccagtacaaGaaggacggagctgacttcgc	14	11	0	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr16:30080176G>A	uc002dvw.2	+	8	1545	c.417G>A	c.(415-417)AAG>AAA	p.K139K	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|ALDOA_uc002dvx.2_Silent_p.K139K|ALDOA_uc002dvy.2_Silent_p.K139K|ALDOA_uc002dvz.2_Silent_p.K139K|ALDOA_uc002dwa.3_Silent_p.K139K|ALDOA_uc002dwb.1_Silent_p.K139K|ALDOA_uc002dwc.2_Silent_p.K139K|ALDOA_uc010veg.1_Silent_p.K193K|ALDOA_uc002dwd.2_Silent_p.K139K	NM_184043	NP_908932	P04075	ALDOA_HUMAN	fructose-bisphosphate aldolase A	139					actin filament organization|ATP biosynthetic process|fructose 1,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|muscle cell homeostasis|platelet activation|platelet degranulation|protein homotetramerization|regulation of cell shape|striated muscle contraction	actin cytoskeleton|cytosol|extracellular vesicular exosome|I band|platelet alpha granule lumen	actin binding|fructose binding|fructose-bisphosphate aldolase activity|identical protein binding|tubulin binding			lung(1)	1						CCCAGTACAAGAAGGACGGAG	0.587											OREG0023729	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	137	---	---	---	---	PASS	A	30080176	A	A	30080176	2	1	16	1	0	0	0	0	0	0	0	1	507	933	33	2		2	ALDOA	16	30080176	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08		30080176	60274577	169	8525										
SLC6A2	6530	broad.mit.edu	37	chr16	55734171	55734171	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cctccatggtcctggtgcccAtctacgtcatctataagttc	7	14	3	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr16:55734171A>T	uc002eif.2	+	13	1822	c.1711A>T	c.(1711-1713)ATC>TTC	p.I571F	SLC6A2_uc010ccd.2_Intron|SLC6A2_uc002eig.2_Missense_Mutation_p.I571F|SLC6A2_uc002eih.2_Missense_Mutation_p.I571F|SLC6A2_uc002eii.2_Missense_Mutation_p.I466F|SLC6A2_uc002eij.2_Missense_Mutation_p.I285F	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	571	Helical; Name=12; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	CCTGGTGCCCATCTACGTCAT	0.617													48	109	---	---	---	---	PASS	T	55734171	T	T	55734171	3	4	16	1	0	0	0	0	1	0	0	0	14683	217	8	5	1848	5	SLC6A2	16	55734171	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	25653995	55734171	34620582	170	8526										
FTSJD1	55783	broad.mit.edu	37	chr16	71319538	71319538	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	aacatgagaaatgattttccCcgctttattagtgaaagcag	8	7	0	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr16:71319538C>T	uc010cga.2	-	3	692	c.286G>A	c.(286-288)GGG>AGG	p.G96R	FTSJD1_uc002ezy.3_Missense_Mutation_p.G96R|FTSJD1_uc002ezz.3_Missense_Mutation_p.G96R	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	96						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						ATGATTTTCCCCGCTTTATTA	0.373													29	118	---	---	---	---	PASS	T	71319538	T	T	71319538	3	4	16	1	0	0	0	0	1	0	0	0	6090	623	22	3	2030	3	FTSJD1	16	71319538	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	15585367	71319538	19035215	171	8527										
CDYL2	124359	broad.mit.edu	37	chr16	80718824	80718824	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctcgactgtcacgcagcagcTtggaggtactggactgcttc	12	12	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr16:80718824T>G	uc002ffs.2	-	2	332	c.227A>C	c.(226-228)AAG>ACG	p.K76T		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	76						nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						ACGCAGCAGCTTGGAGGTACT	0.517													34	110	---	---	---	---	PASS	G	80718824	G	G	80718824	3	3	16	1	0	0	0	0	1	0	0	0	3186	1609	56	5	1317	5	CDYL2	16	80718824	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	9399286	80718824	9635929	172	8528										
JPH3	57338	broad.mit.edu	37	chr16	87723731	87723731	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tcacgtggacttcccaccacCgggccagcaaccacagcccc	8	20	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr16:87723731C>A	uc002fkd.2	+	4	2019	c.1765C>A	c.(1765-1767)CGG>AGG	p.R589R	JPH3_uc010vou.1_RNA	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	589	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		TTCCCACCACCGGGCCAGCAA	0.672													4	11	---	---	---	---	PASS	A	87723731	A	A	87723731	2	1	16	1	0	0	0	0	0	0	0	1	7962	643	23	1		1	JPH3	16	87723731	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	7004907	87723731	2631022	173	8529										
BANP	54971	broad.mit.edu	37	chr16	88052143	88052143	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	atcagcaccaactgccgcacGgccgagaagatggcgctcac	11	15	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr16:88052143G>A	uc002fkr.2	+	7	962	c.738G>A	c.(736-738)ACG>ACA	p.T246T	BANP_uc002fkp.2_Silent_p.T216T|BANP_uc002fkq.2_Silent_p.T216T|BANP_uc010vow.1_Silent_p.T254T|BANP_uc002fks.3_Silent_p.T215T|BANP_uc002fko.1_Silent_p.T152T|BANP_uc010vov.1_Silent_p.T221T	NM_079837	NP_524576	Q8N9N5	BANP_HUMAN	BTG3 associated nuclear protein isoform b	247	Interaction with CUX1 and HDAC1 (By similarity).|BEN.				cell cycle|chromatin modification|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0				BRCA - Breast invasive adenocarcinoma(80;0.00551)		ACTGCCGCACGGCCGAGAAGA	0.647													12	58	---	---	---	---	PASS	A	88052143	A	A	88052143	2	1	16	1	0	0	0	0	0	0	0	1	1310	1103	39	1		1	BANP	16	88052143	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	328412	88052143	2302610	174	8530										
NF1	4763	broad.mit.edu	37	chr17	29496972	29496972	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	catgatatagaattgttacaGtatatcaatgtggattgtgc	9	4	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr17:29496972G>T	uc002hgg.2	+	5	876	c.543G>T	c.(541-543)CAG>CAT	p.Q181H	NF1_uc002hge.1_Missense_Mutation_p.Q181H|NF1_uc002hgf.1_Missense_Mutation_p.Q181H|NF1_uc002hgh.2_Missense_Mutation_p.Q181H|NF1_uc010csn.1_Intron	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	181					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.E178_D186del(1)|p.Y182fs*8(1)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		AATTGTTACAGTATATCAATG	0.274			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			14	67	---	---	---	---	PASS	T	29496972	T	T	29496972	3	4	16	1	0	0	0	0	1	0	0	0	10356	1020	36	3	561	3	NF1	17	29496972	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08		29496972	51698238	175	8531										
NAGS	162417	broad.mit.edu	37	chr17	42085865	42085865	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccaacaagcagtggatcttcTtctggtttggcctggctgat	11	10	3	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr17:42085865T>C	uc002ies.2	+	7	1501	c.1501T>C	c.(1501-1503)TTC>CTC	p.F501L	NAGS_uc010czn.2_Missense_Mutation_p.F509L|NAGS_uc002iet.2_Missense_Mutation_p.F125L	NM_153006	NP_694551	Q8N159	NAGS_HUMAN	N-acetylglutamate synthase	501	N-acetyltransferase.				arginine biosynthetic process|urea cycle	mitochondrial matrix	acetyl-CoA:L-glutamate N-acetyltransferase activity				0		Breast(137;0.00536)|Prostate(33;0.0724)		BRCA - Breast invasive adenocarcinoma(366;0.113)	L-Glutamic Acid(DB00142)	GTGGATCTTCTTCTGGTTTGG	0.532													5	316	---	---	---	---	PASS	C	42085865	C	C	42085865	3	2	16	1	0	0	0	0	1	0	0	0	10145	1609	56	5	1527	5	NAGS	17	42085865	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	12588893	42085865	39109345	176	8532										
CACNA1G	8913	broad.mit.edu	37	chr17	48655853	48655853	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cgaaagattgtggacagcaaGtactttggccggggaatcat	13	7	1	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr17:48655853G>A	uc002irk.1	+	9	2601	c.2229G>A	c.(2227-2229)AAG>AAA	p.K743K	CACNA1G_uc002iri.1_Silent_p.K743K|CACNA1G_uc002irj.1_Silent_p.K743K|CACNA1G_uc002irl.1_Silent_p.K743K|CACNA1G_uc002irm.1_Silent_p.K743K|CACNA1G_uc002irn.1_Silent_p.K743K|CACNA1G_uc002iro.1_Silent_p.K743K|CACNA1G_uc002irp.1_Silent_p.K743K|CACNA1G_uc002irq.1_Silent_p.K743K|CACNA1G_uc002irr.1_Silent_p.K743K|CACNA1G_uc002irs.1_Silent_p.K743K|CACNA1G_uc002irt.1_Silent_p.K743K|CACNA1G_uc002irv.1_Silent_p.K743K|CACNA1G_uc002irw.1_Silent_p.K743K|CACNA1G_uc002iru.1_Silent_p.K743K|CACNA1G_uc002irx.1_Silent_p.K656K|CACNA1G_uc002iry.1_Silent_p.K656K|CACNA1G_uc002irz.1_Silent_p.K656K|CACNA1G_uc002isa.1_Silent_p.K656K|CACNA1G_uc002isb.1_Silent_p.K656K|CACNA1G_uc002isc.1_Silent_p.K656K|CACNA1G_uc002isd.1_Silent_p.K656K|CACNA1G_uc002ise.1_Silent_p.K656K|CACNA1G_uc002isf.1_Silent_p.K656K|CACNA1G_uc002isg.1_Silent_p.K656K|CACNA1G_uc002ish.1_Silent_p.K656K|CACNA1G_uc002isi.1_Silent_p.K656K	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	743	Cytoplasmic (Potential).|II.				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	TGGACAGCAAGTACTTTGGCC	0.597													25	60	---	---	---	---	PASS	A	48655853	A	A	48655853	2	1	16	1	0	0	0	0	0	0	0	1	2544	1020	36	3		3	CACNA1G	17	48655853	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	6569988	48655853	32539357	177	8533										
BTBD17	388419	broad.mit.edu	37	chr17	72352884	72352884	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	caaccaggtactcggagttgCgccgctgcaggtcggcgtgc	15	13	0	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr17:72352884C>T	uc002jkn.2	-	3	1349	c.1349G>A	c.(1348-1350)CGC>CAC	p.R450H		NM_001080466	NP_001073935	A6NE02	BTBDH_HUMAN	BTB (POZ) domain containing 17 precursor	450						extracellular region					0						CTCGGAGTTGCGCCGCTGCAG	0.677													3	32	---	---	---	---	PASS	T	72352884	T	T	72352884	3	4	16	1	0	0	0	0	1	0	0	0	1542	768	27	1	91	1	BTBD17	17	72352884	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	23697031	72352884	8842326	178	8534										
DLGAP1	9229	broad.mit.edu	37	chr18	3534195	3534195	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gtggtggcattacttactgtCttcgggcaggttgttttccc	12	9	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr18:3534195C>A	uc002kmf.2	-	7	2543	c.2476G>T	c.(2476-2478)GAC>TAC	p.D826Y	DLGAP1_uc010wyz.1_Missense_Mutation_p.D826Y|DLGAP1_uc002kme.1_Missense_Mutation_p.D524Y|DLGAP1_uc010dkn.2_Missense_Mutation_p.D534Y|DLGAP1_uc010wyw.1_Missense_Mutation_p.D532Y|DLGAP1_uc010wyx.1_Missense_Mutation_p.D548Y|DLGAP1_uc010wyy.1_Missense_Mutation_p.D510Y|DLGAP1_uc002kmg.2_Missense_Mutation_p.D524Y	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	826					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				TACTTACTGTCTTCGGGCAGG	0.567													10	93	---	---	---	---	PASS	A	3534195	A	A	3534195	3	1	16	1	0	0	0	0	1	0	0	0	4559	913	32	2	473	2	DLGAP1	18	3534195	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08		3534195	74543053	179	8535										
EPB41L3	23136	broad.mit.edu	37	chr18	5407707	5407707	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tttaattttctacctgtgccTtgagctctgcatcttcctcc	5	13	3	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr18:5407707T>A	uc002kmt.1	-	15	2236	c.2150A>T	c.(2149-2151)AAG>ATG	p.K717M	EPB41L3_uc010wzh.1_Missense_Mutation_p.K548M|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Intron|EPB41L3_uc010wzf.1_Intron|EPB41L3_uc010wzg.1_Intron|EPB41L3_uc010dkr.2_Missense_Mutation_p.K109M	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	717	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TACCTGTGCCTTGAGCTCTGC	0.383													12	119	---	---	---	---	PASS	A	5407707	A	A	5407707	3	1	16	1	0	0	0	0	1	0	0	0	5154	1609	56	5	1145	5	EPB41L3	18	5407707	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	1873512	5407707	72669541	180	8536										
EPB41L3	23136	broad.mit.edu	37	chr18	5428437	5428437	+	Missense_Mutation	SNP	C	T	T													0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cagaccacttgcacaaactcCtaacataatttctacccctt							TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr18:5428437C>T	uc002kmt.1	-	9	1026	c.940G>A	c.(940-942)GGA>AGA	p.G314R	EPB41L3_uc010wzh.1_Missense_Mutation_p.G314R|EPB41L3_uc002kmu.1_Missense_Mutation_p.G314R|EPB41L3_uc010dkq.1_Missense_Mutation_p.G205R|EPB41L3_uc010dks.1_Missense_Mutation_p.G336R	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	314	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GCACAAACTCCTAACATAATT	0.383													16	173	---	---	---	---	PASS	T	5428437	T	T	5428437	3	4	16	1	0	0	0	0	1	0	0	0	5154	690	24	3	2379	3	EPB41L3	18	5428437	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	20730	5428437	72648811	181	8537	252	2								
EPB41L3	23136	broad.mit.edu	37	chr18	5428438	5428438	+	Missense_Mutation	SNP	T	A	A													0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	agaccacttgcacaaactccTaacataatttctaccccttc							TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr18:5428438T>A	uc002kmt.1	-	9	1025	c.939A>T	c.(937-939)TTA>TTT	p.L313F	EPB41L3_uc010wzh.1_Missense_Mutation_p.L313F|EPB41L3_uc002kmu.1_Missense_Mutation_p.L313F|EPB41L3_uc010dkq.1_Missense_Mutation_p.L204F|EPB41L3_uc010dks.1_Missense_Mutation_p.L335F	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	313	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						CACAAACTCCTAACATAATTT	0.388													16	169	---	---	---	---	PASS	A	5428438	A	A	5428438	3	1	16	1	0	0	0	0	1	0	0	0	5154	1519	53	5	2380	5	EPB41L3	18	5428438	Missense_Mutation	SNP	T	TCGA-18-4721-01A-01D-1441-08	1	5428438	72648810	182	8538	252	2								
PSMG2	56984	broad.mit.edu	37	chr18	12703145	12703145	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gagtcggcccccgaccttgcCggcttcaccctcctaatggt	10	17	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr18:12703145C>A	uc002krk.2	+	1	82	c.39C>A	c.(37-39)GCC>GCA	p.A13A	PSMG2_uc002krg.2_Intron|PSMG2_uc002krj.1_Silent_p.A13A|CEP76_uc002krh.3_5'Flank|CEP76_uc002kri.2_5'Flank|CEP76_uc010wzz.1_5'Flank|CEP76_uc010xaa.1_5'Flank|CEP76_uc010xab.1_5'Flank	NM_020232	NP_064617	Q969U7	PSMG2_HUMAN	proteasome (prosome, macropain) assembly	13					proteasome assembly	nucleus	protein binding				0						CCGACCTTGCCGGCTTCACCC	0.692													3	42	---	---	---	---	PASS	A	12703145	A	A	12703145	2	1	16	1	0	0	0	0	0	0	0	1	12712	639	23	1		1	PSMG2	18	12703145	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	7274707	12703145	65374103	183	8539										
LAMA3	3909	broad.mit.edu	37	chr18	21451477	21451477	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gtctagactggcagatgtgcGcatccaaggcctctacttca	10	12	3	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr18:21451477G>A	uc002kuq.2	+	38	4936	c.4850G>A	c.(4849-4851)CGC>CAC	p.R1617H	LAMA3_uc002kur.2_Missense_Mutation_p.R1617H|LAMA3_uc002kus.3_5'Flank|LAMA3_uc002kut.3_5'Flank	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1617	Laminin IV type A.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCAGATGTGCGCATCCAAGGC	0.557													29	85	---	---	---	---	PASS	A	21451477	A	A	21451477	3	1	16	1	0	0	0	0	1	0	0	0	8607	1087	38	1	5000	1	LAMA3	18	21451477	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	8748332	21451477	56625771	184	8540										
DSC3	1825	broad.mit.edu	37	chr18	28588002	28588002	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ctttgtctattgccaggactGtaatattatacaactcattt	5	8	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr18:28588002G>C	uc002kwj.3	-	11	1798	c.1643C>G	c.(1642-1644)ACA>AGA	p.T548R	DSC3_uc002kwi.3_Missense_Mutation_p.T548R	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	548	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			TGCCAGGACTGTAATATTATA	0.303													5	78	---	---	---	---	PASS	C	28588002	C	C	28588002	3	2	16	1	0	0	0	0	1	0	0	0	4767	1377	48	4	1102	4	DSC3	18	28588002	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	7136525	28588002	49489246	185	8541										
DSC2	1824	broad.mit.edu	37	chr18	28648028	28648028	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgtcctaaatttgggctccaAattatccaaaaattcaagcc	5	10	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr18:28648028A>T	uc002kwl.3	-	16	3113	c.2659T>A	c.(2659-2661)TTG>ATG	p.L887M	DSC2_uc002kwk.3_3'UTR	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	887	Cytoplasmic (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			TTGGGCTCCAAATTATCCAAA	0.403													22	104	---	---	---	---	PASS	T	28648028	T	T	28648028	3	4	16	1	0	0	0	0	1	0	0	0	4766	11	1	5	50	5	DSC2	18	28648028	Missense_Mutation	SNP	A	TCGA-18-4721-01A-01D-1441-08	60026	28648028	49429220	186	8542										
RIT2	6014	broad.mit.edu	37	chr18	40323576	40323576	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	actccttcttgcgaatttccCtcactaagccatgaaaagca	5	13	2	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr18:40323576C>T	uc002lav.2	-	5	709	c.536G>A	c.(535-537)AGG>AAG	p.R179K	RIT2_uc010dnf.2_3'UTR	NM_002930	NP_002921	Q99578	RIT2_HUMAN	Ras-like without CAAX 2	179					nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1						GCGAATTTCCCTCACTAAGCC	0.423													38	142	---	---	---	---	PASS	T	40323576	T	T	40323576	3	4	16	1	0	0	0	0	1	0	0	0	13387	681	24	3	121	3	RIT2	18	40323576	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	11675548	40323576	37753672	187	8543										
MYO5B	4645	broad.mit.edu	37	chr18	47432926	47432926	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gtccggaacttgtcagcccgCagcttctccaggtaggccac	11	15	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr18:47432926C>T	uc002leb.2	-	19	2565	c.2277G>A	c.(2275-2277)CTG>CTA	p.L759L		NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	759	Myosin head-like.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		TGTCAGCCCGCAGCTTCTCCA	0.557													16	71	---	---	---	---	PASS	T	47432926	T	T	47432926	2	4	16	1	0	0	0	0	0	0	0	1	10079	697	25	3		3	MYO5B	18	47432926	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	7109350	47432926	30644322	188	8544										
SPPL2B	56928	broad.mit.edu	37	chr19	2334702	2334702	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ccgcagtgggcccatcttccGcacgacctcagcaaggcagt	11	16	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr19:2334702G>T	uc002lvs.2	+	2	248	c.168G>T	c.(166-168)CCG>CCT	p.P56P	SPPL2B_uc010dsw.1_Silent_p.P28P|SPPL2B_uc010dsy.1_Silent_p.P28P|SPPL2B_uc010dsz.1_Silent_p.P56P|SPPL2B_uc002lvr.2_Silent_p.P56P	NM_152988	NP_694533	Q8TCT7	PSL1_HUMAN	signal peptide peptidase-like 2B isoform 2	56	Cytoplasmic (Potential).|PA.					Golgi membrane|integral to membrane	aspartic-type endopeptidase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCATCTTCCGCACGACCTCA	0.677													5	18	---	---	---	---	PASS	T	2334702	T	T	2334702	2	4	16	1	0	0	0	0	0	0	0	1	15088	1074	38	1		1	SPPL2B	19	2334702	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08		2334702	56794281	189	8545										
S1PR4	8698	broad.mit.edu	37	chr19	3179893	3179893	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tcgcggctcccgctcgctcaGctttcggatgcgggagcccc	13	17	1	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr19:3179893G>C	uc002lxg.2	+	1	1128	c.1103G>C	c.(1102-1104)AGC>ACC	p.S368T		NM_003775	NP_003766	O95977	S1PR4_HUMAN	sphingosine-1-phosphate receptor 4 precursor	368	Cytoplasmic (By similarity).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|immune response	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			lung(1)|skin(1)	2						CGCTCGCTCAGCTTTCGGATG	0.672													39	137	---	---	---	---	PASS	C	3179893	C	C	3179893	3	2	16	1	0	0	0	0	1	0	0	0	13796	971	34	4	1105	4	S1PR4	19	3179893	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	845191	3179893	55949090	190	8546										
ZSWIM4	65249	broad.mit.edu	37	chr19	13941421	13941421	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tcaaccaggacagccaccctGccgtcaacgacgtgctttgg	10	15	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr19:13941421G>A	uc002mxh.1	+	13	2716	c.2527G>A	c.(2527-2529)GCC>ACC	p.A843T	ZSWIM4_uc010xng.1_Missense_Mutation_p.A766T	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	843							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			CAGCCACCCTGCCGTCAACGA	0.667													50	184	---	---	---	---	PASS	A	13941421	A	A	13941421	3	1	16	1	0	0	0	0	1	0	0	0	18240	1319	46	3	2577	3	ZSWIM4	19	13941421	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	10761528	13941421	45187562	191	8547										
ZNF93	81931	broad.mit.edu	37	chr19	20044847	20044847	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	acccttagtagacatgagttCattcatatgggaaagaaaca	8	7	2	3			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr19:20044847C>T	uc002non.2	+	4	1194	c.1083C>T	c.(1081-1083)TTC>TTT	p.F361F		NM_031218	NP_112495	P35789	ZNF93_HUMAN	zinc finger protein 93	361	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1						GACATGAGTTCATTCATATGG	0.373													14	90	---	---	---	---	PASS	T	20044847	T	T	20044847	2	4	16	1	0	0	0	0	0	0	0	1	18199	825	29	2		2	ZNF93	19	20044847	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	6103426	20044847	39084136	192	8548										
LRFN1	57622	broad.mit.edu	37	chr19	39798962	39798962	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gaggaccgaggcgacgatgaCgcccccgatggcgatgatca	15	12	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr19:39798962C>T	uc002okw.2	-	2	1627	c.1627G>A	c.(1627-1629)GTC>ATC	p.V543I		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	543	Helical; (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane				ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			GCGACGATGACGCCCCCGATG	0.652													8	20	---	---	---	---	PASS	T	39798962	T	T	39798962	3	4	16	1	0	0	0	0	1	0	0	0	8937	536	19	1	692	1	LRFN1	19	39798962	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	19754115	39798962	19330021	193	8549										
CRX	1406	broad.mit.edu	37	chr19	48342762	48342762	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gattcctacagtccccctctGcccggcccctcaggctcccc	7	22	2	0			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr19:48342762G>A	uc002phq.3	+	4	642	c.438G>A	c.(436-438)CTG>CTA	p.L146L		NM_000554	NP_000545	O43186	CRX_HUMAN	cone-rod homeobox protein	146			Missing (in LCA7).		organ morphogenesis|response to stimulus|visual perception		leucine zipper domain binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2		all_cancers(25;2.76e-09)|all_epithelial(76;7.01e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000266)|all cancers(93;0.000788)|Epithelial(262;0.0226)|GBM - Glioblastoma multiforme(486;0.0521)		GTCCCCCTCTGCCCGGCCCCT	0.672													40	114	---	---	---	---	PASS	A	48342762	A	A	48342762	2	1	16	1	0	0	0	0	0	0	0	1	3902	1306	46	3		3	CRX	19	48342762	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	8543800	48342762	10786221	194	8550										
BAX	581	broad.mit.edu	37	chr19	49459500	49459500	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tccccccgagaggtctttttCcgagtggcagctgacatgtt	11	12	1	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr19:49459500C>G	uc002plk.2	+	4	348	c.279C>G	c.(277-279)TTC>TTG	p.F93L	BAX_uc002plf.1_Missense_Mutation_p.F93L|BAX_uc002plg.1_Missense_Mutation_p.F56L|BAX_uc002plh.1_Missense_Mutation_p.F15L|BAX_uc010xzx.1_RNA|BAX_uc002plj.2_Missense_Mutation_p.F93L|BAX_uc002pll.2_Missense_Mutation_p.F44L|BAX_uc002plm.2_Missense_Mutation_p.F15L	NM_138761	NP_620116	Q07812	BAX_HUMAN	BCL2-associated X protein isoform alpha	93					activation of caspase activity by cytochrome c|activation of pro-apoptotic gene products|B cell apoptosis|cleavage of lamin|DNA fragmentation involved in apoptotic nuclear change|establishment or maintenance of transmembrane electrochemical gradient|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|induction of retinal programmed cell death|mitochondrial fragmentation involved in apoptosis|mitochondrial fusion|negative regulation of protein binding|negative regulation of survival gene product expression|nuclear fragmentation involved in apoptotic nuclear change|positive regulation of neuron apoptosis|protein homooligomerization|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|release of cytochrome c from mitochondria|release of matrix enzymes from mitochondria|response to toxin|transformed cell apoptosis	cytosol|endoplasmic reticulum membrane|mitochondrial outer membrane|mitochondrial permeability transition pore complex|nucleus	BH3 domain binding|channel activity|lipid binding|protein heterodimerization activity|protein homodimerization activity			lung(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000159)|all cancers(93;0.00047)|GBM - Glioblastoma multiforme(486;0.018)|Epithelial(262;0.0279)		AGGTCTTTTTCCGAGTGGCAG	0.582													31	118	---	---	---	---	PASS	G	49459500	G	G	49459500	3	3	16	1	0	0	0	0	1	0	0	0	1328	854	30	2	293	2	BAX	19	49459500	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	1116738	49459500	9669483	195	8551										
ENTPD6	955	broad.mit.edu	37	chr20	25201919	25201919	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cttgtctcccagtttcaaagGagagtgggaacacgcagaag	12	9	2	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr20:25201919G>T	uc002wuj.2	+	11	1175	c.995G>T	c.(994-996)GGA>GTA	p.G332V	ENTPD6_uc010zsy.1_Missense_Mutation_p.G332V|ENTPD6_uc010gdj.1_Missense_Mutation_p.G304V|ENTPD6_uc010zsz.1_Missense_Mutation_p.G114V|ENTPD6_uc002wum.2_Missense_Mutation_p.G315V|ENTPD6_uc010zta.1_Missense_Mutation_p.G332V|ENTPD6_uc002wun.2_Intron|ENTPD6_uc002wuk.2_Missense_Mutation_p.G331V|ENTPD6_uc002wul.2_Missense_Mutation_p.G331V|ENTPD6_uc010ztb.1_Missense_Mutation_p.G304V|ENTPD6_uc010ztc.1_Missense_Mutation_p.G304V|ENTPD6_uc002wuo.2_Missense_Mutation_p.G84V|ENTPD6_uc010ztd.1_Intron|ENTPD6_uc010gdk.1_5'Flank|ENTPD6_uc010gdl.1_5'Flank	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	332	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						AGTTTCAAAGGAGAGTGGGAA	0.517													15	53	---	---	---	---	PASS	T	25201919	T	T	25201919	3	4	16	1	0	0	0	0	1	0	0	0	5143	1174	41	2	1040	2	ENTPD6	20	25201919	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08		25201919	37823601	196	8552										
HIRA	7290	broad.mit.edu	37	chr22	19371175	19371175	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	tgtgctatgcagagaggcgtGattcttctccggccatctgc	12	11	3	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr22:19371175G>T	uc002zpf.1	-	13	1603	c.1383C>A	c.(1381-1383)ATC>ATA	p.I461I	HIRA_uc011agx.1_Silent_p.I327I|HIRA_uc010grn.1_Silent_p.I461I|HIRA_uc010gro.1_Silent_p.I417I|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	461	Interaction with CCNA1.|Interaction with ASF1A.|Required for repression of histone gene transcription.			Missing: Abrogates binding to ASF1A.|I->D: Abrogates binding to ASF1A.	chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					AGAGAGGCGTGATTCTTCTCC	0.458													23	209	---	---	---	---	PASS	T	19371175	T	T	19371175	2	4	16	1	0	0	0	0	0	0	0	1	7120	1280	45	2		2	HIRA	22	19371175	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08		19371175	31933391	197	8553										
BCR	613	broad.mit.edu	37	chr22	23596020	23596020	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	acaccacctggatacggctgCgctgcagaccgggcagagga	14	13	0	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr22:23596020C>T	uc002zww.2	+	2	1910	c.1314C>T	c.(1312-1314)TGC>TGT	p.C438C	BCR_uc002zwx.2_Silent_p.C438C|BCR_uc011aiy.1_Silent_p.C27C|BCR_uc010gtx.1_5'UTR	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	438					regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						GATACGGCTGCGCTGCAGACC	0.602			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								19	49	---	---	---	---	PASS	T	23596020	T	T	23596020	2	4	16	1	0	0	0	0	0	0	0	1	1388	776	27	1		1	BCR	22	23596020	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	4224845	23596020	27708546	198	8554										
NHP2L1	4809	broad.mit.edu	37	chr22	42071111	42071111	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	acattcttgtcttcacacagCagcggcaggtgcagaatgat	10	10	3	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr22:42071111C>T	uc003bat.2	-	3	407	c.213G>A	c.(211-213)CTG>CTA	p.L71L	NHP2L1_uc003bau.2_Silent_p.L71L|NHP2L1_uc003bav.2_Silent_p.L71L|NHP2L1_uc003baw.2_Silent_p.L71L	NM_005008	NP_004999	P55769	NH2L1_HUMAN	NHP2 non-histone chromosome protein 2-like 1	71					nuclear mRNA splicing, via spliceosome|ribosome biogenesis	box C/D snoRNP complex|nucleoplasm|spliceosomal complex	protein binding|RNA binding				0						CTTCACACAGCAGCGGCAGGT	0.587													18	90	---	---	---	---	PASS	T	42071111	T	T	42071111	2	4	16	1	0	0	0	0	0	0	0	1	10410	697	25	3		3	NHP2L1	22	42071111	Silent	SNP	C	TCGA-18-4721-01A-01D-1441-08	18475091	42071111	9233455	199	8555										
PRR5-ARHGAP8	553158	broad.mit.edu	37	chr22	45221390	45221390	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gagaagctccagagcctgcaCgagggccggacgccgcctcc	14	16	0	2			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chr22:45221390C>A	uc003bfd.2	+	12	1415	c.1143C>A	c.(1141-1143)CAC>CAA	p.H381Q	PRR5-ARHGAP8_uc003bfc.2_Missense_Mutation_p.H302Q|PRR5-ARHGAP8_uc011aqi.1_Missense_Mutation_p.H293Q|PRR5-ARHGAP8_uc011aqj.1_Missense_Mutation_p.H207Q|ARHGAP8_uc003bfi.2_Missense_Mutation_p.H171Q|ARHGAP8_uc010gzv.2_Missense_Mutation_p.H171Q|ARHGAP8_uc003bfj.2_Missense_Mutation_p.H202Q|ARHGAP8_uc003bfk.2_Missense_Mutation_p.H171Q|ARHGAP8_uc003bfl.2_RNA	NM_181335	NP_851852			Rho GTPase activating protein 8 isoform 2											skin(2)	2						AGAGCCTGCACGAGGGCCGGA	0.662													12	28	---	---	---	---	PASS	A	45221390	A	A	45221390	3	1	16	1	0	0	0	0	1	0	0	0	12601	535	19	1	917	1	PRR5-ARHGAP8	22	45221390	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	3150279	45221390	6083176	200	8556										
RLIM	51132	broad.mit.edu	37	chrX	73811938	73811938	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	gtcattatctgccttaacatGgtctgaattgcaacagatgt	8	8	3	2	rs61754468	by1000genomes	TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chrX:73811938G>C	uc004ebu.2	-	5	1502	c.1212C>G	c.(1210-1212)ACC>ACG	p.T404T	RLIM_uc004ebw.2_Silent_p.T404T	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	404					random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GCCTTAACATGGTCTGAATTG	0.413													4	110	---	---	---	---	PASS	C	73811938	C	C	73811938	2	2	16	1	0	0	0	0	0	0	0	1	13390	1335	47	4		4	RLIM	23	73811938	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08		73811938	81458622	201	8557										
HTR2C	3358	broad.mit.edu	37	chrX	114141480	114141480	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	cgccgaagaaagaagaaggaGagacgtcctaggggcaccat	14	9	0	4			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chrX:114141480G>A	uc004epu.1	+	6	1607	c.879G>A	c.(877-879)GAG>GAA	p.E293E	HTR2C_uc010nqc.1_Silent_p.E293E|HTR2C_uc004epv.1_3'UTR	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	293	Cytoplasmic (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	AGAAGAAGGAGAGACGTCCTA	0.483													62	68	---	---	---	---	PASS	A	114141480	A	A	114141480	2	1	16	1	0	0	0	0	0	0	0	1	7443	933	33	2		2	HTR2C	23	114141480	Silent	SNP	G	TCGA-18-4721-01A-01D-1441-08	40329542	114141480	41129080	202	8558										
KIAA1210	57481	broad.mit.edu	37	chrX	118215438	118215438	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	ttctttttccatggcaggaaCttgcagtatcttctgagctt	8	9	3	1			TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chrX:118215438C>A	uc004era.3	-	14	4984	c.4984G>T	c.(4984-4986)GTT>TTT	p.V1662F		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1662										ovary(4)|skin(1)	5						ATGGCAGGAACTTGCAGTATC	0.458													26	56	---	---	---	---	PASS	A	118215438	A	A	118215438	3	1	16	1	0	0	0	0	1	0	0	0	8214	565	20	3	149	3	KIAA1210	23	118215438	Missense_Mutation	SNP	C	TCGA-18-4721-01A-01D-1441-08	4073958	118215438	37055122	203	8559										
VGLL1	51442	broad.mit.edu	37	chrX	135632948	135632948	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.06	12	0.582645918308562	1.0264361972547	1.87436175150859	0.706726562044221	1	1	0	taagaaactatatgtatctcGtggatctgccagtaccagcc	8	10	2	1	rs138345606	byFrequency	TCGA-18-4721-01A-01D-1441-08	TCGA-18-4721-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d2ab2555-7288-47a4-a80c-bf62d65b67b8	f7b631ae-ee98-499b-9d26-dc945e7ac3b8	g.chrX:135632948G>A	uc004ezy.2	+	4	826	c.656G>A	c.(655-657)CGT>CAT	p.R219H	MIR934_hsa-mir-934|MI0005756_5'Flank	NM_016267	NP_057351	Q99990	VGLL1_HUMAN	vestigial like 1	219					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	transcription coactivator activity				0	Acute lymphoblastic leukemia(192;0.000127)					TATGTATCTCGTGGATCTGCC	0.423													25	37	---	---	---	---	PASS	A	135632948	A	A	135632948	3	1	16	1	0	0	0	0	1	0	0	0	17155	1145	40	1	666	1	VGLL1	23	135632948	Missense_Mutation	SNP	G	TCGA-18-4721-01A-01D-1441-08	17417510	135632948	19637612	204	8560										
PRDM16	63976	broad.mit.edu	37	chr1	3334552	3334552	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	caggaagggcaaggagcgatAcacgtgcaggtgaggggccc	18	9	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:3334552A>G	uc001akf.2	+	11	2932	c.2852A>G	c.(2851-2853)TAC>TGC	p.Y951C	PRDM16_uc001akc.2_Missense_Mutation_p.Y950C|PRDM16_uc001akd.2_Missense_Mutation_p.Y950C|PRDM16_uc001ake.2_Missense_Mutation_p.Y951C|PRDM16_uc009vlh.2_Missense_Mutation_p.Y651C	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	951	Mediates interaction with SKI and regulation of TGF-beta signaling.|C2H2-type 8.|Interaction with CTBP1 and CTBP2 (By similarity).				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		AAGGAGCGATACACGTGCAGG	0.652			T	EVI1	MDS|AML								18	13	---	---	---	---	PASS	G	3334552	G	G	3334552	3	3	17	1	0	0	0	0	1	0	0	0	12457	391	14	5	2894	5	PRDM16	1	3334552	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08		3334552	245916069	1	8561										
INPP5B	3633	broad.mit.edu	37	chr1	38409499	38409499	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtaaaatcccgcgagactggCactatctggtccagagagac	11	11	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:38409499C>A	uc001ccg.1	-	4	313	c.219G>T	c.(217-219)GTG>GTT	p.V73V	INPP5B_uc009vvk.1_Silent_p.V14V|INPP5B_uc001cch.2_Silent_p.V14V	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	73					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GCGAGACTGGCACTATCTGGT	0.582													51	23	---	---	---	---	PASS	A	38409499	A	A	38409499	2	1	17	1	0	0	0	0	0	0	0	1	7755	697	25	3		3	INPP5B	1	38409499	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	35074947	38409499	210841122	2	8562										
WDR65	149465	broad.mit.edu	37	chr1	43665131	43665131	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gattcacgtttacaccaccaCgagcctagagaacatctcaa	6	13	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:43665131C>T	uc001cip.1	+	9	1620	c.1499C>T	c.(1498-1500)ACG>ATG	p.T500M	EBNA1BP2_uc001cio.2_Intron|WDR65_uc010ojz.1_Missense_Mutation_p.T489M|WDR65_uc001ciq.1_Missense_Mutation_p.T500M	NM_152498	NP_689711	Q96MR6	WDR65_HUMAN	WD repeat domain 65	500	WD 7.									skin(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TACACCACCACGAGCCTAGAG	0.498													76	38	---	---	---	---	PASS	T	43665131	T	T	43665131	3	4	17	1	0	0	0	0	1	0	0	0	17313	536	19	1	1529	1	WDR65	1	43665131	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	5255632	43665131	205585490	3	8563										
BCAS2	10286	broad.mit.edu	37	chr1	115113346	115113346	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cttctgaagttccttctgtgCgtgttcaatcatatgaacta	7	9	4	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:115113346C>A	uc001efa.2	-	5	498	c.445G>T	c.(445-447)GCA>TCA	p.A149S	DENND2C_uc001eez.2_RNA	NM_005872	NP_005863	O75934	SPF27_HUMAN	breast carcinoma amplified sequence 2	149	Potential.				mRNA processing|RNA splicing, via transesterification reactions	nucleolus|spliceosomal complex	protein binding			large_intestine(1)	1	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCCTTCTGTGCGTGTTCAATC	0.269													8	10	---	---	---	---	PASS	A	115113346	A	A	115113346	3	1	17	1	0	0	0	0	1	0	0	0	1351	768	27	1	244	1	BCAS2	1	115113346	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	71448215	115113346	134137275	4	8564										
SYCP1	6847	broad.mit.edu	37	chr1	115401310	115401310	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aaagataattgaagcacagcGaaaagccattcaggaactgc	9	8	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:115401310G>T	uc001efr.2	+	6	643	c.434G>T	c.(433-435)CGA>CTA	p.R145L	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.R145L|SYCP1_uc009wgw.2_Missense_Mutation_p.R145L	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	145	Potential.				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAAGCACAGCGAAAAGCCATT	0.333													50	30	---	---	---	---	PASS	T	115401310	T	T	115401310	3	4	17	1	0	0	0	0	1	0	0	0	15428	1058	37	2	452	2	SYCP1	1	115401310	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	287964	115401310	133849311	5	8565										
RBM8A	9939	broad.mit.edu	37	chr1	145509204	145509204	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cagaagtccagaccggagacGtcgctgacaggtcctctgtt	12	12	1	4			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:145509204G>T	uc001ent.1	+	6	547	c.518G>T	c.(517-519)CGT>CTT	p.R173L	NBPF10_uc001emp.3_Intron|RBM8A_uc001enu.1_Missense_Mutation_p.R172L|RBM8A_uc001enw.1_5'Flank	NM_005105	NP_005096	Q9Y5S9	RBM8A_HUMAN	RNA binding motif protein 8A	173					mRNA 3'-end processing|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|exon-exon junction complex|nuclear speck	mRNA binding|nucleotide binding|protein binding				0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GACCGGAGACGTCGCTGACAG	0.498													77	48	---	---	---	---	PASS	T	145509204	T	T	145509204	3	4	17	1	0	0	0	0	1	0	0	0	13146	1145	40	1	540	1	RBM8A	1	145509204	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	30107894	145509204	103741417	6	8566										
SF3B4	10262	broad.mit.edu	37	chr1	149895540	149895540	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggtagccatagggtgggggtCgtggagggccagtgtatcca	19	7	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:149895540C>A	uc001etj.1	-	6	1220	c.1169G>T	c.(1168-1170)CGA>CTA	p.R390L	SF3B4_uc001eti.1_Missense_Mutation_p.R154L|SF3B4_uc001etk.1_Missense_Mutation_p.R390L	NM_005850	NP_005841	Q15427	SF3B4_HUMAN	splicing factor 3b, subunit 4	390						nucleoplasm|U12-type spliceosomal complex	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Breast(34;0.0009)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			GGGTGGGGGTCGTGGAGGGCC	0.642													22	11	---	---	---	---	PASS	A	149895540	A	A	149895540	3	1	17	1	0	0	0	0	1	0	0	0	14153	884	31	2	109	2	SF3B4	1	149895540	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	4386336	149895540	99355081	7	8567										
FLG	2312	broad.mit.edu	37	chr1	152279999	152279999	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggtgtcctgaccctcttgggAcgttgagtgcctggagctgt	15	10	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:152279999A>T	uc001ezu.1	-	3	7399	c.7363T>A	c.(7363-7365)TCC>ACC	p.S2455T		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2455	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCCTCTTGGGACGTTGAGTGC	0.582									Ichthyosis				201	699	---	---	---	---	PASS	T	152279999	T	T	152279999	3	4	17	1	0	0	0	0	1	0	0	0	5922	275	10	5	4826	5	FLG	1	152279999	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	2384459	152279999	96970622	8	8568										
PMF1	11243	broad.mit.edu	37	chr1	156206080	156206080	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gccccgtgtggccctccaggCgccccagcgggatcccagag	14	18	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:156206080C>T	uc001fnq.2	+	4	393	c.370C>T	c.(370-372)CGC>TGC	p.R124C	PMF1_uc001fnr.2_Intron|BGLAP_uc001fns.1_Intron	NM_007221	NP_009152	Q6P1K2	PMF1_HUMAN	polyamine-modulated factor 1	124					cell division|chromosome segregation|mitotic prometaphase|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytosol|MIS12/MIND type complex|transcription factor complex	leucine zipper domain binding|transcription coactivator activity				0	Hepatocellular(266;0.158)					GCCCTCCAGGCGCCCCAGCGG	0.617													63	272	---	---	---	---	PASS	T	156206080	T	T	156206080	3	4	17	1	0	0	0	0	1	0	0	0	12133	782	27	1	384	1	PMF1	1	156206080	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	3926081	156206080	93044541	9	8569										
NES	10763	broad.mit.edu	37	chr1	156647042	156647042	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	atctgaaacgactcctccccCatgcagccctccatcctgct	5	19	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:156647042C>T	uc001fpq.2	-	1	148	c.15G>A	c.(13-15)ATG>ATA	p.M5I		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	5	Head.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					ACTCCTCCCCCATGCAGCCCT	0.642													21	84	---	---	---	---	PASS	T	156647042	T	T	156647042	3	4	17	1	0	0	0	0	1	0	0	0	10337	594	21	3	4866	3	NES	1	156647042	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	440962	156647042	92603579	10	8570										
NTRK1	4914	broad.mit.edu	37	chr1	156846302	156846302	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ttcttcggcgtctgcaccgaGggccgccccctgctcatggt	12	16	3	0	rs138423540		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:156846302G>A	uc001fqh.1	+	14	1799	c.1743G>A	c.(1741-1743)GAG>GAA	p.E581E	NTRK1_uc001fqf.1_Silent_p.E545E|NTRK1_uc009wsi.1_Silent_p.E280E|NTRK1_uc001fqi.1_Silent_p.E575E|NTRK1_uc009wsk.1_Silent_p.E578E	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	581	Cytoplasmic (Potential).|Protein kinase.				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	TCTGCACCGAGGGCCGCCCCC	0.667			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			64	46	---	---	---	---	PASS	A	156846302	A	A	156846302	2	1	17	1	0	0	0	0	0	0	0	1	10706	991	35	3		3	NTRK1	1	156846302	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	199260	156846302	92404319	11	8571										
OR10X1	128367	broad.mit.edu	37	chr1	158549599	158549599	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgggtacacagaaaagccaaCaagaatgaattccttcagga	9	8	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:158549599C>A	uc010pin.1	-	1	91	c.91G>T	c.(91-93)GTT>TTT	p.V31F		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	31	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GAAAAGCCAACAAGAATGAAT	0.368													74	242	---	---	---	---	PASS	A	158549599	A	A	158549599	3	1	17	1	0	0	0	0	1	0	0	0	10922	478	17	3	884	3	OR10X1	1	158549599	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	1703297	158549599	90701022	12	8572										
IFI16	3428	broad.mit.edu	37	chr1	159002392	159002392	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aacagcgtcagcttccatatCcttcagaggccagcacaacc	7	15	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:159002392C>A	uc001ftg.2	+	7	1530	c.1240C>A	c.(1240-1242)CCT>ACT	p.P414T	IFI16_uc010pis.1_Missense_Mutation_p.P358T|IFI16_uc001fth.2_Missense_Mutation_p.P13T|IFI16_uc010pit.1_Missense_Mutation_p.P13T	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	414					cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					GCTTCCATATCCTTCAGAGGC	0.463													9	152	---	---	---	---	PASS	A	159002392	A	A	159002392	3	1	17	1	0	0	0	0	1	0	0	0	7511	855	30	2	1262	2	IFI16	1	159002392	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	452793	159002392	90248229	13	8573										
DNM3	26052	broad.mit.edu	37	chr1	172222761	172222761	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tggacaacctgaaagttcggGatgtggaaaagagctttatg	13	5	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:172222761G>A	uc001gie.2	+	15	1884	c.1708G>A	c.(1708-1710)GAT>AAT	p.D570N	DNM3_uc009wwb.2_Missense_Mutation_p.D570N|DNM3_uc001gif.2_Missense_Mutation_p.D570N	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	580	PH.				endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						GAAAGTTCGGGATGTGGAAAA	0.318													3	24	---	---	---	---	PASS	A	172222761	A	A	172222761	3	1	17	1	0	0	0	0	1	0	0	0	4673	1174	41	2	1766	2	DNM3	1	172222761	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	13220369	172222761	77027860	14	8574										
TNR	7143	broad.mit.edu	37	chr1	175325459	175325459	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtgaccatgtactcacgagtAgaaaagttggtgctgatggt	13	6	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:175325459A>C	uc001gkp.1	-	14	3195	c.3114T>G	c.(3112-3114)TCT>TCG	p.S1038S	TNR_uc009wwu.1_Silent_p.S1038S	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1038	Fibronectin type-III 8.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ACTCACGAGTAGAAAAGTTGG	0.478													72	221	---	---	---	---	PASS	C	175325459	C	C	175325459	2	2	17	1	0	0	0	0	0	0	0	1	16335	407	15	5		5	TNR	1	175325459	Silent	SNP	A	TCGA-18-5592-01A-01D-1632-08	3102698	175325459	73925162	15	8575										
FAM5C	339479	broad.mit.edu	37	chr1	190067167	190067167	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gttaactacataatttggtcGtgtcataatccattgtgttt	7	6	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:190067167G>C	uc001gse.1	-	8	2514	c.2282C>G	c.(2281-2283)ACG>AGG	p.T761R	FAM5C_uc010pot.1_Missense_Mutation_p.T659R	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	761						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TAATTTGGTCGTGTCATAATC	0.398													76	305	---	---	---	---	PASS	C	190067167	C	C	190067167	3	2	17	1	0	0	0	0	1	0	0	0	5594	1145	40	4	22	4	FAM5C	1	190067167	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	14741708	190067167	59183454	16	8576										
CRB1	23418	broad.mit.edu	37	chr1	197398609	197398609	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtcacaatggaggtgtttgcCattcccggtgggatgacttc	13	9	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:197398609C>A	uc001gtz.2	+	8	2842	c.2707C>A	c.(2707-2709)CAT>AAT	p.H903N	CRB1_uc010poz.1_Missense_Mutation_p.H879N|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.H791N|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.H384N|CRB1_uc001gub.1_Missense_Mutation_p.H552N	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	903	Extracellular (Potential).|EGF-like 13.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						AGGTGTTTGCCATTCCCGGTG	0.498													252	141	---	---	---	---	PASS	A	197398609	A	A	197398609	3	1	17	1	0	0	0	0	1	0	0	0	3848	594	21	3	2737	3	CRB1	1	197398609	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	7331442	197398609	51852012	17	8577										
SRGAP2	23380	broad.mit.edu	37	chr1	206634438	206634438	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctacgggaactagaacggcaGagcagtgtcaaacacacccc	10	13	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:206634438G>A	uc001hdy.2	+	20	2961	c.2628G>A	c.(2626-2628)CAG>CAA	p.Q876Q	SRGAP2_uc010pru.1_Silent_p.Q799Q	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	963	Potential.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					TAGAACGGCAGAGCAGTGTCA	0.567													15	63	---	---	---	---	PASS	A	206634438	A	A	206634438	2	1	17	1	0	0	0	0	0	0	0	1	15145	933	33	2		2	SRGAP2	1	206634438	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	9235829	206634438	42616183	18	8578										
KCTD3	51133	broad.mit.edu	37	chr1	215759950	215759950	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gagggccacatggagacaaaGacaaaatggttgctgttgcc	13	8	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:215759950G>A	uc001hks.2	+	9	1033	c.739G>A	c.(739-741)GAC>AAC	p.D247N	KCTD3_uc001hkt.2_Missense_Mutation_p.D247N|KCTD3_uc010pub.1_Missense_Mutation_p.D145N|KCTD3_uc009xdn.2_5'UTR	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	247	WD 1.					voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		TGGAGACAAAGACAAAATGGT	0.448													79	318	---	---	---	---	PASS	A	215759950	A	A	215759950	3	1	17	1	0	0	0	0	1	0	0	0	8110	942	33	2	773	2	KCTD3	1	215759950	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	9125512	215759950	33490671	19	8579										
USH2A	7399	broad.mit.edu	37	chr1	216246232	216246232	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tttgaagataagtatttaccTgctcctgttgtacgtcctcg	8	9	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:216246232T>G	uc001hku.1	-	29	6243	c.5856A>C	c.(5854-5856)GCA>GCC	p.A1952A		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1952	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AGTATTTACCTGCTCCTGTTG	0.378										HNSCC(13;0.011)			155	105	---	---	---	---	PASS	G	216246232	G	G	216246232	2	3	17	1	0	0	0	0	0	0	0	1	17033	1594	55	5		5	USH2A	1	216246232	Silent	SNP	T	TCGA-18-5592-01A-01D-1632-08	486282	216246232	33004389	20	8580										
CDC42BPA	8476	broad.mit.edu	37	chr1	227348261	227348261	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	taccgttccatcttccatcaGcttcagacaagaaccaaaat	4	13	3	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:227348261G>C	uc001hqr.2	-	6	1619	c.676C>G	c.(676-678)CTG>GTG	p.L226V	CDC42BPA_uc001hqs.2_Missense_Mutation_p.L226V|CDC42BPA_uc009xes.2_Missense_Mutation_p.L226V|CDC42BPA_uc010pvs.1_Missense_Mutation_p.L226V	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	226	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TCTTCCATCAGCTTCAGACAA	0.308													12	281	---	---	---	---	PASS	C	227348261	C	C	227348261	3	2	17	1	0	0	0	0	1	0	0	0	3072	962	34	4	4607	4	CDC42BPA	1	227348261	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	11102029	227348261	21902360	21	8581										
KIAA1804	84451	broad.mit.edu	37	chr1	233515049	233515049	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acgagagggaatcttccagcGggcttccaagtcccgcagaa	12	12	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:233515049G>T	uc001hvt.3	+	9	2558	c.2297G>T	c.(2296-2298)CGG>CTG	p.R766L	KIAA1804_uc001hvu.3_Missense_Mutation_p.R212L	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	766					activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				ATCTTCCAGCGGGCTTCCAAG	0.602													133	91	---	---	---	---	PASS	T	233515049	T	T	233515049	3	4	17	1	0	0	0	0	1	0	0	0	8259	1116	39	1	2331	1	KIAA1804	1	233515049	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	6166788	233515049	15735572	22	8582										
RYR2	6262	broad.mit.edu	37	chr1	237550599	237550599	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	agcacttgtcttatggcaacGgcagcttacacgtggatgcc	11	11	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:237550599G>A	uc001hyl.1	+	9	715	c.595G>A	c.(595-597)GGC>AGC	p.G199S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	199	Cytoplasmic (By similarity).|MIR 2.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTATGGCAACGGCAGCTTACA	0.493													59	178	---	---	---	---	PASS	A	237550599	A	A	237550599	3	1	17	1	0	0	0	0	1	0	0	0	13769	1116	39	1	629	1	RYR2	1	237550599	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	4035550	237550599	11700022	23	8583										
FMN2	56776	broad.mit.edu	37	chr1	240421269	240421269	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcaagttattaagcaacaaaAgatcacaagcagttggaata	7	6	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:240421269A>G	uc010pyd.1	+	7	4315	c.4090A>G	c.(4090-4092)AGA>GGA	p.R1364G	FMN2_uc010pye.1_Missense_Mutation_p.R1368G|FMN2_uc010pyf.1_Missense_Mutation_p.R10G|FMN2_uc010pyg.1_Intron	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1364	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AAGCAACAAAAGATCACAAGC	0.308													99	85	---	---	---	---	PASS	G	240421269	G	G	240421269	3	3	17	1	0	0	0	0	1	0	0	0	5950	64	3	5	4116	5	FMN2	1	240421269	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	2870670	240421269	8829352	24	8584										
OR2G2	81470	broad.mit.edu	37	chr1	247752240	247752240	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctcatcaagctggcttgtgtGggcaccacgtttaacgaggc	12	11	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:247752240G>T	uc010pyy.1	+	1	579	c.579G>T	c.(577-579)GTG>GTT	p.V193V		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	193	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TGGCTTGTGTGGGCACCACGT	0.537													93	246	---	---	---	---	PASS	T	247752240	T	T	247752240	2	4	17	1	0	0	0	0	0	0	0	1	10998	1335	47	3		3	OR2G2	1	247752240	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	7330971	247752240	1498381	25	8585										
OR6F1	343169	broad.mit.edu	37	chr1	247875180	247875180	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tctctcttacttccttattaCgaagcgtatagatgaagggg	9	8	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:247875180C>T	uc001idj.1	-	1	878	c.878G>A	c.(877-879)CGT>CAT	p.R293H		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	293	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TTCCTTATTACGAAGCGTATA	0.438													168	117	---	---	---	---	PASS	T	247875180	T	T	247875180	3	4	17	1	0	0	0	0	1	0	0	0	11201	536	19	1	52	1	OR6F1	1	247875180	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	122940	247875180	1375441	26	8586										
OR2M2	391194	broad.mit.edu	37	chr1	248343511	248343511	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	catggacctcatgctcatctGcaccaccgtacccaagatgg	8	15	3	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:248343511G>T	uc010pzf.1	+	1	224	c.224G>T	c.(223-225)TGC>TTC	p.C75F		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ATGCTCATCTGCACCACCGTA	0.498													97	690	---	---	---	---	PASS	T	248343511	T	T	248343511	3	4	17	1	0	0	0	0	1	0	0	0	11010	1319	46	3	226	3	OR2M2	1	248343511	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	468331	248343511	907110	27	8587										
OR2T33	391195	broad.mit.edu	37	chr1	248437053	248437053	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	catcatgaagaggacttggtGggctctggtgtggttaaaga	15	5	2	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:248437053G>T	uc010pzi.1	-	1	64	c.64C>A	c.(64-66)CAC>AAC	p.H22N		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AGGACTTGGTGGGCTCTGGTG	0.463													57	178	---	---	---	---	PASS	T	248437053	T	T	248437053	3	4	17	1	0	0	0	0	1	0	0	0	11024	1348	47	3	901	3	OR2T33	1	248437053	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	93542	248437053	813568	28	8588										
OR2T12	127064	broad.mit.edu	37	chr1	248458858	248458858	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtcctaggagaataaaatctGgggtagtatttctcatctcc	9	8	3	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:248458858G>A	uc010pzj.1	-	1	23	c.23C>T	c.(22-24)CCA>CTA	p.P8L		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			AATAAAATCTGGGGTAGTATT	0.438													156	113	---	---	---	---	PASS	A	248458858	A	A	248458858	3	1	17	1	0	0	0	0	1	0	0	0	11019	1348	47	3	942	3	OR2T12	1	248458858	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	21805	248458858	791763	29	8589										
OR14I1	401994	broad.mit.edu	37	chr1	248845103	248845103	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	actggtggatcacactggatCtgcaaacgtgctcccgaaac	10	12	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:248845103C>A	uc001ieu.1	-	1	503	c.503G>T	c.(502-504)AGA>ATA	p.R168I		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CACACTGGATCTGCAAACGTG	0.532													16	59	---	---	---	---	PASS	A	248845103	A	A	248845103	3	1	17	1	0	0	0	0	1	0	0	0	10947	913	32	2	436	2	OR14I1	1	248845103	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	386245	248845103	405518	30	8590										
SMC6	79677	broad.mit.edu	37	chr2	17912378	17912378	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgatcaagaattgcaatcagCtcttctttcctcgtggaaac	7	10	4	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:17912378C>G	uc002rco.2	-	7	806	c.510G>C	c.(508-510)GAG>GAC	p.E170D	SMC6_uc010exo.2_Missense_Mutation_p.E170D|SMC6_uc002rcn.2_Missense_Mutation_p.E170D|SMC6_uc002rcp.1_Missense_Mutation_p.E196D|SMC6_uc002rcq.2_Missense_Mutation_p.E196D|SMC6_uc002rcr.1_Missense_Mutation_p.E170D	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	170					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTGCAATCAGCTCTTCTTTCC	0.333													47	88	---	---	---	---	PASS	G	17912378	G	G	17912378	3	3	17	1	0	0	0	0	1	0	0	0	14787	796	28	4	2853	4	SMC6	2	17912378	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08		17912378	225286995	31	8591										
OSR1	130497	broad.mit.edu	37	chr2	19553399	19553399	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgcatggccgggtagcccagCgtccactgatgcaggtgcac	14	13	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:19553399C>G	uc002rdc.2	-	2	471	c.168G>C	c.(166-168)ACG>ACC	p.T56T		NM_145260	NP_660303	Q8TAX0	OSR1_HUMAN	odd-skipped related 1	56					chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|heart development|mesangial cell development|mesonephric duct morphogenesis|metanephric cap mesenchymal cell proliferation involved in metanephros development|metanephric glomerulus vasculature development|metanephric interstitial cell development|metanephric mesenchymal cell differentiation|metanephric nephron tubule development|metanephric smooth muscle tissue development|middle ear morphogenesis|negative regulation of apoptosis|negative regulation of nephron tubule epithelial cell differentiation|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|pattern specification involved in metanephros development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of gastrulation|positive regulation of transcription from RNA polymerase II promoter|pronephros development|renal vesicle progenitor cell differentiation|specification of anterior mesonephric tubule identity|specification of posterior mesonephric tubule identity|stem cell differentiation|transcription, DNA-dependent|ureter urothelium development|ureteric bud development	nucleolus	nucleic acid binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	Acute lymphoblastic leukemia(84;0.221)				GGTAGCCCAGCGTCCACTGAT	0.627													25	39	---	---	---	---	PASS	G	19553399	G	G	19553399	2	3	17	1	0	0	0	0	0	0	0	1	11293	755	27	4		4	OSR1	2	19553399	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	1641021	19553399	223645974	32	8592										
SOS1	6654	broad.mit.edu	37	chr2	39222461	39222461	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gcagaggtgtgggatgcctcAtggtacctggtcttgggttt	16	7	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:39222461A>G	uc002rrk.3	-	20	3190	c.3149T>C	c.(3148-3150)ATG>ACG	p.M1050T	SOS1_uc002rrj.3_Missense_Mutation_p.M664T	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	1050					apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				GGGATGCCTCATGGTACCTGG	0.418									Noonan_syndrome				91	112	---	---	---	---	PASS	G	39222461	G	G	39222461	3	3	17	1	0	0	0	0	1	0	0	0	14936	217	8	5	868	5	SOS1	2	39222461	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	19669062	39222461	203976912	33	8593										
C2orf34	79823	broad.mit.edu	37	chr2	44981257	44981257	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aagagattactccagcccagGgtaagtatgtttctattttc	8	8	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:44981257G>T	uc002rum.2	+	9	866	c.762G>T	c.(760-762)AGG>AGT	p.R254S		NM_024766	NP_079042	Q7Z624	CMKMT_HUMAN	hypothetical protein LOC79823	254						cytoplasm	calmodulin-lysine N-methyltransferase activity				0		all_hematologic(82;0.0892)|Acute lymphoblastic leukemia(82;0.17)				TCCAGCCCAGGGTAAGTATGT	0.418													22	385	---	---	---	---	PASS	T	44981257	T	T	44981257	3	4	17	1	0	0	0	0	1	0	0	0	2163	1246	43	3	796	3	C2orf34	2	44981257	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	5758796	44981257	198218116	34	8594										
NRXN1	9378	broad.mit.edu	37	chr2	50149369	50149369	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gcctggatacggctctctgcCgcctgctcgggttgggttgg	16	12	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:50149369C>A	uc010fbp.2	-	6	1849	c.1042G>T	c.(1042-1044)GGC>TGC	p.G348C	NRXN1_uc002rxb.3_Missense_Mutation_p.G1082C|NRXN1_uc010fbq.2_Missense_Mutation_p.G1453C|NRXN1_uc002rxe.3_Missense_Mutation_p.G1383C|NRXN1_uc010yon.1_Missense_Mutation_p.G48C|NRXN1_uc002rxa.3_Missense_Mutation_p.G45C	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	348	Extracellular (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GGCTCTCTGCCGCCTGCTCGG	0.507													13	29	---	---	---	---	PASS	A	50149369	A	A	50149369	3	1	17	1	0	0	0	0	1	0	0	0	10665	652	23	1	290	1	NRXN1	2	50149369	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	5168112	50149369	193050004	35	8595										
ACTG2	72	broad.mit.edu	37	chr2	74146658	74146658	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgtggatcagcaagcctgagTatgatgaggcagggccctcc	14	10	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:74146658T>A	uc002sjw.2	+	9	1209	c.1087T>A	c.(1087-1089)TAT>AAT	p.Y363N	ACTG2_uc010fey.2_Missense_Mutation_p.Y363N|ACTG2_uc010yrn.1_Missense_Mutation_p.Y320N	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	363					muscle contraction	cytoskeleton|cytosol	ATP binding				0						CAAGCCTGAGTATGATGAGGC	0.532													41	50	---	---	---	---	PASS	A	74146658	A	A	74146658	3	1	17	1	0	0	0	0	1	0	0	0	197	1638	57	5	1117	5	ACTG2	2	74146658	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	23997289	74146658	169052715	36	8596										
SEMA4F	10505	broad.mit.edu	37	chr2	74881627	74881627	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gcgtcccccgctcggtgcccAgaacctcgcttccaatctct	8	19	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:74881627A>T	uc002sna.1	+	1	235	c.124A>T	c.(124-126)AGA>TGA	p.R42*	SEMA4F_uc010ysb.1_Nonsense_Mutation_p.R42*|SEMA4F_uc010ffq.1_Nonsense_Mutation_p.R42*|SEMA4F_uc010ffr.1_5'UTR|SEMA4F_uc002snb.1_5'UTR|SEMA4F_uc002snc.1_Nonsense_Mutation_p.R42*	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	42	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CTCGGTGCCCAGAACCTCGCT	0.726													15	24	---	---	---	---	PASS	T	74881627	T	T	74881627	4	4	17	1	0	0	0	0	0	1	0	0	14035	180	7	5	126	5	SEMA4F	2	74881627	Nonsense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	734969	74881627	168317746	37	8597										
REG3G	130120	broad.mit.edu	37	chr2	79254179	79254179	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gctggcttgccagaagcggcCctctggaaaactggtgtctg	14	11	2	1	rs115709602	byFrequency	TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:79254179C>A	uc002snw.2	+	4	300	c.215C>A	c.(214-216)CCC>CAC	p.P72H	REG3G_uc002snx.2_Missense_Mutation_p.P72H|REG3G_uc010ffu.2_Intron	NM_198448	NP_940850	Q6UW15	REG3G_HUMAN	regenerating islet-derived 3 gamma precursor	72	C-type lectin.				acute-phase response	extracellular region	sugar binding				0						CAGAAGCGGCCCTCTGGAAAA	0.557													78	130	---	---	---	---	PASS	A	79254179	A	A	79254179	3	1	17	1	0	0	0	0	1	0	0	0	13213	623	22	3	225	3	REG3G	2	79254179	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	4372552	79254179	163945194	38	8598										
CTNNA2	1496	broad.mit.edu	37	chr2	79971647	79971647	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaaaagggtgaacagatcgcTaaggagagtcaagatctcaa	12	6	2	4			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:79971647T>A	uc010ysh.1	+	2	242	c.237T>A	c.(235-237)GCT>GCA	p.A79A	CTNNA2_uc010yse.1_Silent_p.A79A|CTNNA2_uc010ysf.1_Silent_p.A79A|CTNNA2_uc010ysg.1_Silent_p.A79A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	79					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						AACAGATCGCTAAGGAGAGTC	0.453													18	39	---	---	---	---	PASS	A	79971647	A	A	79971647	2	1	17	1	0	0	0	0	0	0	0	1	4013	1509	53	5		5	CTNNA2	2	79971647	Silent	SNP	T	TCGA-18-5592-01A-01D-1632-08	717468	79971647	163227726	39	8599										
TMEM131	23505	broad.mit.edu	37	chr2	98409296	98409296	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtttttggctctgacgttttCcacgtcagctgagtttctat	9	9	3	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:98409296C>T	uc002syh.3	-	31	3926	c.3697G>A	c.(3697-3699)GAA>AAA	p.E1233K		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1233						integral to membrane				ovary(4)|central_nervous_system(2)	6						CTGACGTTTTCCACGTCAGCT	0.512													6	64	---	---	---	---	PASS	T	98409296	T	T	98409296	3	4	17	1	0	0	0	0	1	0	0	0	16041	864	30	2	1998	2	TMEM131	2	98409296	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	18437649	98409296	144790077	40	8600										
ANAPC1	64682	broad.mit.edu	37	chr2	112539964	112539964	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	accttgaaagcccgggcttcAgagttcctgttagcaacagt	10	11	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:112539964A>T	uc002thi.2	-	43	5431	c.5184T>A	c.(5182-5184)TCT>TCA	p.S1728S		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	1728					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						CCCGGGCTTCAGAGTTCCTGT	0.433													7	62	---	---	---	---	PASS	T	112539964	T	T	112539964	2	4	17	1	0	0	0	0	0	0	0	1	598	175	7	5		5	ANAPC1	2	112539964	Silent	SNP	A	TCGA-18-5592-01A-01D-1632-08	14130668	112539964	130659409	41	8601										
NCKAP5	344148	broad.mit.edu	37	chr2	133542370	133542370	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gggctcaccgtcttccgcatCaaatatcacagtcacacatt	6	14	5	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:133542370C>T	uc002ttp.2	-	14	2388	c.2014G>A	c.(2014-2016)GAT>AAT	p.D672N	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	672							protein binding				0						TCTTCCGCATCAAATATCACA	0.443													94	132	---	---	---	---	PASS	T	133542370	T	T	133542370	3	4	17	1	0	0	0	0	1	0	0	0	10223	826	29	2	3743	2	NCKAP5	2	133542370	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	21002406	133542370	109657003	42	8602										
CXCR4	7852	broad.mit.edu	37	chr2	136873260	136873260	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaggaggtcggccactgacaGgtgcagcctgtacttgtccg	15	11	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:136873260G>A	uc002tuz.2	-	2	333	c.238C>T	c.(238-240)CTG>TTG	p.L80L	CXCR4_uc002tuy.2_Silent_p.L84L|CXCR4_uc010fnk.2_Silent_p.L65L	NM_003467	NP_003458	P61073	CXCR4_HUMAN	chemokine (C-X-C motif) receptor 4 isoform b	80	Helical; Name=2.				activation of MAPK activity|apoptosis|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|inflammatory response|initiation of viral infection|regulation of chemotaxis|response to hypoxia|response to virus	cell leading edge|cell surface|cytoplasmic membrane-bounded vesicle|integral to membrane|plasma membrane	actin binding|C-X-C chemokine receptor activity|coreceptor activity|myosin light chain binding|ubiquitin binding|ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.155)	Framycetin(DB00452)	GCCACTGACAGGTGCAGCCTG	0.512													14	216	---	---	---	---	PASS	A	136873260	A	A	136873260	2	1	17	1	0	0	0	0	0	0	0	1	4093	991	35	3		3	CXCR4	2	136873260	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	3330890	136873260	106326113	43	8603										
NEB	4703	broad.mit.edu	37	chr2	152487332	152487332	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cccaggcctctgtgtataaaCgctataaaagaagataagat	8	8	1	3	rs111841612	by1000genomes	TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:152487332C>T	uc010fnx.2	-	63	9082	c.8891G>A	c.(8890-8892)CGT>CAT	p.R2964H	NEB_uc002txu.2_Missense_Mutation_p.R311H	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2964	Nebulin 80.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGTGTATAAACGCTATAAAAG	0.318													3	19	---	---	---	---	PASS	T	152487332	T	T	152487332	3	4	17	1	0	0	0	0	1	0	0	0	10302	550	19	1	16530	1	NEB	2	152487332	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	15614072	152487332	90712041	44	8604										
TTC21B	79809	broad.mit.edu	37	chr2	166744965	166744965	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tactgccagttgcacagattCttgcttctcagttgaattac	7	10	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:166744965C>T	uc002udk.2	-	25	3416	c.3283G>A	c.(3283-3285)GAA>AAA	p.E1095K	TTC21B_uc002udj.1_RNA	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	1095						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TGCACAGATTCTTGCTTCTCA	0.348													5	78	---	---	---	---	PASS	T	166744965	T	T	166744965	3	4	17	1	0	0	0	0	1	0	0	0	16685	922	32	2	687	2	TTC21B	2	166744965	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	14257633	166744965	76454408	45	8605										
KLHL23	151230	broad.mit.edu	37	chr2	170591838	170591838	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ccaaattgaaataactaaaaGaaatgttcaaagcctgcttg	6	7	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:170591838G>T	uc002ufh.1	+	4	652	c.314G>T	c.(313-315)AGA>ATA	p.R105I	KLHL23_uc002ufi.1_Missense_Mutation_p.R105I	NM_144711	NP_653312	Q8NBE8	KLH23_HUMAN	kelch-like 23	105											0						ATAACTAAAAGAAATGTTCAA	0.363													51	81	---	---	---	---	PASS	T	170591838	T	T	170591838	3	4	17	1	0	0	0	0	1	0	0	0	8378	942	33	2	316	2	KLHL23	2	170591838	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	3846873	170591838	72607535	46	8606										
DLX2	1746	broad.mit.edu	37	chr2	172967087	172967087	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tagtagctgctgtcggtggcGgtggacaccggaagggtggg	20	7	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:172967087G>T	uc002uhn.2	-	1	392	c.180C>A	c.(178-180)ACC>ACA	p.T60T	DLX2_uc010zdx.1_Silent_p.T60T	NM_004405	NP_004396	Q07687	DLX2_HUMAN	distal-less homeobox 2	60						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.216)			TGTCGGTGGCGGTGGACACCG	0.373													9	9	---	---	---	---	PASS	T	172967087	T	T	172967087	2	4	17	1	0	0	0	0	0	0	0	1	4571	1103	39	1		1	DLX2	2	172967087	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	2375249	172967087	70232286	47	8607										
NFE2L2	4780	broad.mit.edu	37	chr2	178098815	178098815	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaaattcacctgtctcttcaTctagttgtaactgagcgaaa	7	9	4	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:178098815T>C	uc002ulh.3	-	2	785	c.230A>G	c.(229-231)GAT>GGT	p.D77G	NFE2L2_uc002ulg.3_Missense_Mutation_p.D61G|NFE2L2_uc010zfa.1_Missense_Mutation_p.D61G|NFE2L2_uc002uli.3_Missense_Mutation_p.D61G|NFE2L2_uc010fra.2_Missense_Mutation_p.D61G|NFE2L2_uc010frb.2_Missense_Mutation_p.D61G	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	77					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			TGTCTCTTCATCTAGTTGTAA	0.433			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			54	79	---	---	---	---	PASS	C	178098815	C	C	178098815	3	2	17	1	0	0	0	0	1	0	0	0	10368	1435	50	5	1603	5	NFE2L2	2	178098815	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	5131728	178098815	65100558	48	8608										
TTN	7273	broad.mit.edu	37	chr2	179441890	179441890	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gggaggtgtccatgtaagtgTtgctttttcagcagaaacat	12	6	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:179441890T>A	uc010zfg.1	-	273	61692	c.61468A>T	c.(61468-61470)ACA>TCA	p.T20490S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T14185S|TTN_uc010zfi.1_Missense_Mutation_p.T14118S|TTN_uc010zfj.1_Missense_Mutation_p.T13993S|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21417							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATGTAAGTGTTGCTTTTTCA	0.458													34	54	---	---	---	---	PASS	A	179441890	A	A	179441890	3	1	17	1	0	0	0	0	1	0	0	0	16732	1725	60	5	38963	5	TTN	2	179441890	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	1343075	179441890	63757483	49	8609										
TTN	7273	broad.mit.edu	37	chr2	179575470	179575470	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tttgaggactgtcaggtgggCgctgttttccagataactaa	12	7	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:179575470C>T	uc010zfg.1	-	95	24846	c.24622G>A	c.(24622-24624)GCC>ACC	p.A8208T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A4869T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9135							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTCAGGTGGGCGCTGTTTTCC	0.483													64	111	---	---	---	---	PASS	T	179575470	T	T	179575470	3	4	17	1	0	0	0	0	1	0	0	0	16732	768	27	1	76235	1	TTN	2	179575470	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	133580	179575470	63623903	50	8610										
TTN	7273	broad.mit.edu	37	chr2	179598145	179598145	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcccatctttgtaccatttgGgcttcagttctggcgtgcct	9	12	3	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:179598145G>A	uc010zfg.1	-	51	12367	c.12143C>T	c.(12142-12144)CCC>CTC	p.P4048L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P709L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4975							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTACCATTTGGGCTTCAGTTC	0.478													102	170	---	---	---	---	PASS	A	179598145	A	A	179598145	3	1	17	1	0	0	0	0	1	0	0	0	16732	1232	43	3	88890	3	TTN	2	179598145	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	22675	179598145	63601228	51	8611										
TTN	7273	broad.mit.edu	37	chr2	179656920	179656920	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	atgttttttcagtttcttttCttatctgcaaagaatgattt	5	5	4	2	rs139178471		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:179656920C>A	uc010zfg.1	-	10	1765	c.1541G>T	c.(1540-1542)AGA>ATA	p.R514I	TTN_uc010zfh.1_Missense_Mutation_p.R514I|TTN_uc010zfi.1_Missense_Mutation_p.R514I|TTN_uc010zfj.1_Missense_Mutation_p.R514I|TTN_uc002unb.2_Missense_Mutation_p.R514I|TTN_uc010frg.1_Missense_Mutation_p.R188I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	514							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGTTTCTTTTCTTATCTGCAA	0.284													31	40	---	---	---	---	PASS	A	179656920	A	A	179656920	3	1	17	1	0	0	0	0	1	0	0	0	16732	913	32	2	109859	2	TTN	2	179656920	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	58775	179656920	63542453	52	8612										
ITGA4	3676	broad.mit.edu	37	chr2	182388249	182388249	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tggctatatatatgtagatcAtctctcaagggtaagtgttt	9	5	3	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:182388249A>G	uc002unu.2	+	19	2922	c.2159A>G	c.(2158-2160)CAT>CGT	p.H720R	ITGA4_uc010frj.1_Missense_Mutation_p.H202R|ITGA4_uc002unv.2_5'UTR	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	720	Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	TATGTAGATCATCTCTCAAGG	0.328													35	48	---	---	---	---	PASS	G	182388249	G	G	182388249	3	3	17	1	0	0	0	0	1	0	0	0	7878	217	8	5	2233	5	ITGA4	2	182388249	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	2731329	182388249	60811124	53	8613										
ZNF804A	91752	broad.mit.edu	37	chr2	185802960	185802960	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aagtgagaatataaatcttaAtgaaaagcaaattccttttc	5	5	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:185802960A>T	uc002uph.2	+	4	3431	c.2837A>T	c.(2836-2838)AAT>ATT	p.N946I		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	946						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						ATAAATCTTAATGAAAAGCAA	0.398													44	65	---	---	---	---	PASS	T	185802960	T	T	185802960	3	4	17	1	0	0	0	0	1	0	0	0	18167	101	4	5	2851	5	ZNF804A	2	185802960	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	3414711	185802960	57396413	54	8614										
COL3A1	1281	broad.mit.edu	37	chr2	189857616	189857616	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtatttaattttttcagggcCctcctggtcctcctggaact	8	11	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:189857616C>A	uc002uqj.1	+	15	1117	c.1000C>A	c.(1000-1002)CCT>ACT	p.P334T	COL3A1_uc010frw.1_RNA	NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	334	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	TTTTCAGGGCCCTCCTGGTCC	0.383													58	101	---	---	---	---	PASS	A	189857616	A	A	189857616	3	1	17	1	0	0	0	0	1	0	0	0	3688	623	22	3	1058	3	COL3A1	2	189857616	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	4054656	189857616	53341757	55	8615										
DNAH7	56171	broad.mit.edu	37	chr2	196664156	196664156	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtggttcaatgaatgcacgtCccaatctgttgattataaat	8	7	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:196664156C>T	uc002utj.3	-	55	10318	c.10217G>A	c.(10216-10218)GGA>GAA	p.G3406E		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3406	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GAATGCACGTCCCAATCTGTT	0.403													59	84	---	---	---	---	PASS	T	196664156	T	T	196664156	3	4	17	1	0	0	0	0	1	0	0	0	4606	855	30	2	1901	2	DNAH7	2	196664156	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	6806540	196664156	46535217	56	8616										
DNAH7	56171	broad.mit.edu	37	chr2	196825095	196825095	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	caactgatgccaaaataaatGtcccagtttctctataagaa	5	9	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:196825095G>T	uc002utj.3	-	18	2881	c.2780C>A	c.(2779-2781)ACA>AAA	p.T927K		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	927	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CAAAATAAATGTCCCAGTTTC	0.368													95	163	---	---	---	---	PASS	T	196825095	T	T	196825095	3	4	17	1	0	0	0	0	1	0	0	0	4606	1377	48	3	9486	3	DNAH7	2	196825095	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	160939	196825095	46374278	57	8617										
FZD7	8324	broad.mit.edu	37	chr2	202899509	202899509	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gcatctccgtgccggaccacGgcttctgccagcccatctcc	9	19	3	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:202899509G>T	uc002uyw.1	+	1	200	c.139G>T	c.(139-141)GGC>TGC	p.G47C		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	47	FZ.|Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(2)|ovary(1)|breast(1)	4						GCCGGACCACGGCTTCTGCCA	0.697													51	79	---	---	---	---	PASS	T	202899509	T	T	202899509	3	4	17	1	0	0	0	0	1	0	0	0	6135	1116	39	1	141	1	FZD7	2	202899509	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	6074414	202899509	40299864	58	8618										
CPS1	1373	broad.mit.edu	37	chr2	211471664	211471664	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctctggcctcaaaagccactGggtaagaccagaataattga	9	10	2	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:211471664G>T	uc002vee.3	+	18	2323	c.2191G>T	c.(2191-2193)GGC>TGC	p.G731C	CPS1_uc010fur.2_Missense_Mutation_p.G737C|CPS1_uc010fus.2_Missense_Mutation_p.G280C	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	731	ATP-grasp 1.				carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		AAAAGCCACTGGGTAAGACCA	0.418													34	52	---	---	---	---	PASS	T	211471664	T	T	211471664	3	4	17	1	0	0	0	0	1	0	0	0	3823	1362	47	3	2283	3	CPS1	2	211471664	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	8572155	211471664	31727709	59	8619										
CPS1	1373	broad.mit.edu	37	chr2	211512690	211512690	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	catgggcacaagccccctgcAgatcgacagggctgaggatc	13	13	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:211512690A>C	uc002vee.3	+	26	3377	c.3245A>C	c.(3244-3246)CAG>CCG	p.Q1082P	CPS1_uc010fur.2_Missense_Mutation_p.Q1088P|CPS1_uc010fus.2_Missense_Mutation_p.Q631P	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1082					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		AGCCCCCTGCAGATCGACAGG	0.507													38	90	---	---	---	---	PASS	C	211512690	C	C	211512690	3	2	17	1	0	0	0	0	1	0	0	0	3823	188	7	5	3369	5	CPS1	2	211512690	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	41026	211512690	31686683	60	8620										
ERBB4	2066	broad.mit.edu	37	chr2	212989506	212989506	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggagaggtcccggttgtgctCaatgctggttatctccaggt	14	9	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:212989506C>T	uc002veg.1	-	2	303	c.205G>A	c.(205-207)GAG>AAG	p.E69K	ERBB4_uc002veh.1_Missense_Mutation_p.E69K|ERBB4_uc010zji.1_Missense_Mutation_p.E69K|ERBB4_uc010zjj.1_Missense_Mutation_p.E69K|ERBB4_uc010fut.1_Missense_Mutation_p.E69K	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	69	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CGGTTGTGCTCAATGCTGGTT	0.512										TSP Lung(8;0.080)			33	58	---	---	---	---	PASS	T	212989506	T	T	212989506	3	4	17	1	0	0	0	0	1	0	0	0	5209	835	29	2	3829	2	ERBB4	2	212989506	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	1476816	212989506	30209867	61	8621										
CCDC108	255101	broad.mit.edu	37	chr2	219892395	219892395	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	atagatggcgaaggcttcgaGctccaccgtgtaaaggcagt	13	9	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:219892395G>A	uc002vjl.1	-	13	2272	c.2188C>T	c.(2188-2190)CTC>TTC	p.L730F	CCDC108_uc010fwa.1_Missense_Mutation_p.L173F|CCDC108_uc010zkp.1_Missense_Mutation_p.L719F|CCDC108_uc010zkq.1_Missense_Mutation_p.L665F	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	730						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AAGGCTTCGAGCTCCACCGTG	0.612													5	203	---	---	---	---	PASS	A	219892395	A	A	219892395	3	1	17	1	0	0	0	0	1	0	0	0	2743	971	34	3	3681	3	CCDC108	2	219892395	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	6902889	219892395	23306978	62	8622										
CUL3	8452	broad.mit.edu	37	chr2	225367790	225367790	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aactgacatccacattcagtCtgtggaggaaaaacacaaat	7	9	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:225367790C>T	uc002vny.2	-	10	1762	c.1378_splice	c.e10-1	p.T460_splice	CUL3_uc010zls.1_Splice_Site_p.T394_splice|CUL3_uc010fwy.1_Splice_Site_p.T466_splice|CUL3_uc002vnz.1_5'Flank	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3						cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CACATTCAGTCTGTGGAGGAA	0.353													125	187	---	---	---	---	PASS	T	225367790	T	T	225367790	5	4	17	1	0	0	0	0	0	0	1	0	4056	927	32	2	957	2	CUL3	2	225367790	Splice_Site	SNP	C	TCGA-18-5592-01A-01D-1632-08	5475395	225367790	17831583	63	8623										
COL4A4	1286	broad.mit.edu	37	chr2	227895204	227895204	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcctggaaagcctttgtatcCtggagggcctggtgggccag	15	10	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:227895204C>T	uc010zlt.1	-	41	4582	c.3928G>A	c.(3928-3930)GGA>AGA	p.G1310R		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1310	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CCTTTGTATCCTGGAGGGCCT	0.532													99	130	---	---	---	---	PASS	T	227895204	T	T	227895204	3	4	17	1	0	0	0	0	1	0	0	0	3693	690	24	3	1176	3	COL4A4	2	227895204	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	2527414	227895204	15304169	64	8624										
COL4A4	1286	broad.mit.edu	37	chr2	227942619	227942619	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tttaaaattacctttctgacCcttcaagccatcagggcccc	5	14	3	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:227942619C>A	uc010zlt.1	-	25	2632	c.1978G>T	c.(1978-1980)GGT>TGT	p.G660C		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	660	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CCTTTCTGACCCTTCAAGCCA	0.358													13	41	---	---	---	---	PASS	A	227942619	A	A	227942619	3	1	17	1	0	0	0	0	1	0	0	0	3693	623	22	3	3190	3	COL4A4	2	227942619	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	47415	227942619	15256754	65	8625										
CHRNG	1146	broad.mit.edu	37	chr2	233410280	233410280	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aggagtggttcctggtgggcCgagtgctggaccgcgtctgc	18	10	1	0	rs121912671		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:233410280C>A	uc002vsx.1	+	12	1429	c.1408C>A	c.(1408-1410)CGA>AGA	p.R470R	CHRNG_uc010fye.1_Silent_p.R418R	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	470	Cytoplasmic (Potential).				muscle contraction	cell junction|postsynaptic membrane	acetylcholine receptor activity				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;6.39e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00079)|LUSC - Lung squamous cell carcinoma(224;0.00757)|Lung(119;0.0086)		CCTGGTGGGCCGAGTGCTGGA	0.632													29	42	---	---	---	---	PASS	A	233410280	A	A	233410280	2	1	17	1	0	0	0	0	0	0	0	1	3396	644	23	1		1	CHRNG	2	233410280	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	5467661	233410280	9789093	66	8626										
EFHD1	80303	broad.mit.edu	37	chr2	233546384	233546384	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaggaggaggagaggcggctCcgccaggcagccttccagaa	17	11	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:233546384C>G	uc002vtc.2	+	4	883	c.675C>G	c.(673-675)CTC>CTG	p.L225L	EFHD1_uc010fyf.2_Silent_p.L129L|EFHD1_uc002vtd.2_Silent_p.L113L	NM_025202	NP_079478	Q9BUP0	EFHD1_HUMAN	EF-hand domain family, member D1	225							calcium ion binding|protein binding				0		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Breast(86;0.0199)|Renal(207;0.025)		Epithelial(121;2.08e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00825)|Lung(119;0.0101)		AGAGGCGGCTCCGCCAGGCAG	0.562													62	89	---	---	---	---	PASS	G	233546384	G	G	233546384	2	3	17	1	0	0	0	0	0	0	0	1	4948	842	30	2		2	EFHD1	2	233546384	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	136104	233546384	9652989	67	8627										
CAND2	23066	broad.mit.edu	37	chr3	12856708	12856708	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gccgggcagctgccaagtgcAtcgcagccttgatcagctcg	13	14	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:12856708A>T	uc003bxk.2	+	8	1124	c.1075A>T	c.(1075-1077)ATC>TTC	p.I359F	CAND2_uc003bxj.2_Missense_Mutation_p.I266F	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	359	HEAT 8.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						TGCCAAGTGCATCGCAGCCTT	0.602													43	38	---	---	---	---	PASS	T	12856708	T	T	12856708	3	4	17	1	0	0	0	0	1	0	0	0	2616	217	8	5	1105	5	CAND2	3	12856708	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08		12856708	185165722	68	8628										
FBLN2	2199	broad.mit.edu	37	chr3	13659716	13659716	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	agcacctttgcatcaatactGtgggttcttaccactgtgcc	8	12	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:13659716G>T	uc011avb.1	+	6	1995	c.1870G>T	c.(1870-1872)GTG>TTG	p.V624L	FBLN2_uc011auz.1_Missense_Mutation_p.V650L|FBLN2_uc011ava.1_Missense_Mutation_p.V624L|FBLN2_uc011avc.1_Missense_Mutation_p.V624L	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	624	EGF-like 1; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			CATCAATACTGTGGGTTCTTA	0.632													95	39	---	---	---	---	PASS	T	13659716	T	T	13659716	3	4	17	1	0	0	0	0	1	0	0	0	5699	1377	48	3	578	3	FBLN2	3	13659716	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	803008	13659716	184362714	69	8629										
PLCL2	23228	broad.mit.edu	37	chr3	17053469	17053469	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	catgcttctttatttgtccaCgtggctattactaaccgaag	7	10	1	0	rs140113907		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:17053469C>G	uc011awc.1	+	5	2712	c.2607C>G	c.(2605-2607)CAC>CAG	p.H869Q	PLCL2_uc011awd.1_Missense_Mutation_p.H751Q	NM_001144382	NP_001137854	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2 isoform 1	877					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(2)|ovary(1)|lung(1)	4						TATTTGTCCACGTGGCTATTA	0.468													84	38	---	---	---	---	PASS	G	17053469	G	G	17053469	3	3	17	1	0	0	0	0	1	0	0	0	12040	535	19	4	2631	4	PLCL2	3	17053469	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	3393753	17053469	180968961	70	8630										
PTPRG	5793	broad.mit.edu	37	chr3	61975462	61975462	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tctaacaaaacctggatgaaAaacacagggaaaacaggtag	9	7	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:61975462A>C	uc003dlb.2	+	3	1073	c.354A>C	c.(352-354)AAA>AAC	p.K118N	PTPRG_uc003dlc.2_Missense_Mutation_p.K118N	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	118	Extracellular (Potential).|Alpha-carbonic anhydrase.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		CCTGGATGAAAAACACAGGGA	0.423													12	38	---	---	---	---	PASS	C	61975462	C	C	61975462	3	2	17	1	0	0	0	0	1	0	0	0	12802	11	1	5	364	5	PTPRG	3	61975462	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	44921993	61975462	136046968	71	8631										
IMPG2	50939	broad.mit.edu	37	chr3	100962390	100962390	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	taccaattctaagaatctttGctccagggctttatactcca	5	11	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:100962390G>T	uc003duq.1	-	13	2988	c.2785C>A	c.(2785-2787)CAA>AAA	p.Q929K	IMPG2_uc011bhe.1_Missense_Mutation_p.Q792K	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	929	Extracellular (Potential).|SEA 2.				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						AAGAATCTTTGCTCCAGGGCT	0.408													20	14	---	---	---	---	PASS	T	100962390	T	T	100962390	3	4	17	1	0	0	0	0	1	0	0	0	7729	1328	46	3	968	3	IMPG2	3	100962390	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	38986928	100962390	97060040	72	8632										
MYH15	22989	broad.mit.edu	37	chr3	108183497	108183497	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	taactcaccactcctgcataAtggacaagttcaaaatgagc	6	11	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:108183497A>G	uc003dxa.1	-	16	1836	c.1779T>C	c.(1777-1779)CAT>CAC	p.H593H		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	593	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CTCCTGCATAATGGACAAGTT	0.413													186	61	---	---	---	---	PASS	G	108183497	G	G	108183497	2	3	17	1	0	0	0	0	0	0	0	1	10034	98	4	5		5	MYH15	3	108183497	Silent	SNP	A	TCGA-18-5592-01A-01D-1632-08	7221107	108183497	89838933	73	8633										
CCDC80	151887	broad.mit.edu	37	chr3	112357210	112357210	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctccagctgagaggcagtagGccggctgaggtcatacttct	13	11	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:112357210G>T	uc003dzf.2	-	2	1761	c.1543C>A	c.(1543-1545)CCT>ACT	p.P515T	CCDC80_uc011bhv.1_Missense_Mutation_p.P515T|CCDC80_uc003dzg.2_Missense_Mutation_p.P515T|CCDC80_uc003dzh.1_Missense_Mutation_p.P515T	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	515	Lys-rich.									ovary(2)	2						GAGGCAGTAGGCCGGCTGAGG	0.483													31	173	---	---	---	---	PASS	T	112357210	T	T	112357210	3	4	17	1	0	0	0	0	1	0	0	0	2854	1203	42	3	1337	3	CCDC80	3	112357210	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	4173713	112357210	85665220	74	8634										
HSPBAP1	79663	broad.mit.edu	37	chr3	122496727	122496727	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gataatttcttttgctttctCtggcttaaaaggtttgacat	7	6	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:122496727C>A	uc003efu.1	-	2	214	c.91G>T	c.(91-93)GAG>TAG	p.E31*	HSPBAP1_uc003efv.1_Nonsense_Mutation_p.E31*	NM_024610	NP_078886	Q96EW2	HBAP1_HUMAN	Hspb associated protein 1	31						cytoplasm				ovary(1)|lung(1)	2				GBM - Glioblastoma multiforme(114;0.0531)		TTTGCTTTCTCTGGCTTAAAA	0.343													17	33	---	---	---	---	PASS	A	122496727	A	A	122496727	4	1	17	1	0	0	0	0	0	1	0	0	7425	922	32	2	1403	2	HSPBAP1	3	122496727	Nonsense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	10139517	122496727	75525703	75	8635										
ROPN1	54763	broad.mit.edu	37	chr3	123688018	123688018	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gcttttactccagctgaaccCtggggttttgggtaaagtca	11	9	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:123688018C>A	uc003eha.2	-	7	964	c.623G>T	c.(622-624)AGG>ATG	p.R208M		NM_017578	NP_060048	Q9HAT0	ROP1A_HUMAN	ropporin	208					signal transduction		cAMP-dependent protein kinase regulator activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.148)		CAGCTGAACCCTGGGGTTTTG	0.373													46	125	---	---	---	---	PASS	A	123688018	A	A	123688018	3	1	17	1	0	0	0	0	1	0	0	0	13523	681	24	3	19	3	ROPN1	3	123688018	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	1191291	123688018	74334412	76	8636										
MGLL	11343	broad.mit.edu	37	chr3	127540634	127540634	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtagggaatgctctgcggggTccgcctgggggaactttcct	16	10	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:127540634T>A	uc003ejx.2	-	2	173	c.28A>T	c.(28-30)ACC>TCC	p.T10S	MGLL_uc003ejw.2_Missense_Mutation_p.T20S|MGLL_uc011bko.1_Missense_Mutation_p.T20S|MGLL_uc010hsp.1_Missense_Mutation_p.T10S	NM_001003794	NP_001003794	Q99685	MGLL_HUMAN	monoglyceride lipase isoform 2	10					arachidonic acid metabolic process|fatty acid biosynthetic process|inflammatory response|platelet activation|regulation of endocannabinoid signaling pathway|regulation of inflammatory response|regulation of sensory perception of pain|triglyceride catabolic process	plasma membrane	acylglycerol lipase activity|carboxylesterase activity|lysophospholipase activity|protein homodimerization activity				0						CTCTGCGGGGTCCGCCTGGGG	0.517													174	42	---	---	---	---	PASS	A	127540634	A	A	127540634	3	1	17	1	0	0	0	0	1	0	0	0	9556	1667	58	5	911	5	MGLL	3	127540634	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	3852616	127540634	70481796	77	8637										
PIK3R4	30849	broad.mit.edu	37	chr3	130424510	130424510	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctggatgagttgctgaagttCagttttacaagttgtaattc	10	5	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:130424510C>T	uc003enj.2	-	12	3408	c.2827G>A	c.(2827-2829)GAA>AAA	p.E943K		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	943					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						TGCTGAAGTTCAGTTTTACAA	0.403													47	216	---	---	---	---	PASS	T	130424510	T	T	130424510	3	4	17	1	0	0	0	0	1	0	0	0	11921	835	29	2	1285	2	PIK3R4	3	130424510	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	2883876	130424510	67597920	78	8638										
ZBTB38	253461	broad.mit.edu	37	chr3	141163318	141163318	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gatgtacctgttttatctttGagtaatagcagtgagaatgc	10	5	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:141163318G>C	uc003etw.2	+	8	3070	c.2088G>C	c.(2086-2088)TTG>TTC	p.L696F	ZBTB38_uc010hun.2_Missense_Mutation_p.L693F|ZBTB38_uc010huo.2_Missense_Mutation_p.L696F|ZBTB38_uc003ety.2_Missense_Mutation_p.L696F|ZBTB38_uc010hup.2_Missense_Mutation_p.L697F	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	696					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						TTTTATCTTTGAGTAATAGCA	0.463													4	197	---	---	---	---	PASS	C	141163318	C	C	141163318	3	2	17	1	0	0	0	0	1	0	0	0	17536	1281	45	2	2090	2	ZBTB38	3	141163318	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	10738808	141163318	56859112	79	8639										
TRPC1	7220	broad.mit.edu	37	chr3	142511727	142511727	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcctacactggtggcagaagGgctttttgcatttgcaaatg	11	8	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:142511727G>T	uc003evc.2	+	9	1635	c.1499G>T	c.(1498-1500)GGG>GTG	p.G500V	TRPC1_uc003evb.2_Missense_Mutation_p.G466V|TRPC1_uc011bni.1_Intron	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	500	Extracellular (Potential).				axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						GTGGCAGAAGGGCTTTTTGCA	0.368													78	124	---	---	---	---	PASS	T	142511727	T	T	142511727	3	4	17	1	0	0	0	0	1	0	0	0	16575	1232	43	3	1427	3	TRPC1	3	142511727	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1348409	142511727	55510703	80	8640										
WWTR1	25937	broad.mit.edu	37	chr3	149290745	149290745	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgattcagaggctgattcatCgccttcctagggtcttgcca	10	11	3	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:149290745C>G	uc003exe.2	-	2	490	c.474G>C	c.(472-474)GCG>GCC	p.A158A	WWTR1_uc003exf.2_Silent_p.A158A|WWTR1_uc011bns.1_Silent_p.A158A|WWTR1_uc003exh.2_Silent_p.A158A	NM_015472	NP_056287	Q9GZV5	WWTR1_HUMAN	WW domain containing transcription regulator 1	158					hippo signaling cascade|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of protein kinase activity|negative regulation of protein phosphorylation|positive regulation of cell proliferation|positive regulation of epithelial to mesenchymal transition|regulation of SMAD protein import into nucleus|stem cell division|transcription, DNA-dependent	cytoplasm	transcription coactivator activity			breast(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			GCTGATTCATCGCCTTCCTAG	0.433													6	149	---	---	---	---	PASS	G	149290745	G	G	149290745	2	3	17	1	0	0	0	0	0	0	0	1	17414	871	31	2		2	WWTR1	3	149290745	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	6779018	149290745	48731685	81	8641										
PFN2	5217	broad.mit.edu	37	chr3	149684332	149684332	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtatgccttcttattcaatcCgcctccatggaccccttctt	5	15	3	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:149684332C>T	uc003ext.1	-	3	465	c.367G>A	c.(367-369)GGA>AGA	p.G123R	PFN2_uc003exs.1_Intron|PFN2_uc003exu.1_Intron|PFN2_uc011bnu.1_Intron	NM_053024	NP_444252	P35080	PROF2_HUMAN	profilin 2 isoform a	123					actin cytoskeleton organization|regulation of actin polymerization or depolymerization	actin cytoskeleton|cytoplasm	actin binding|phosphatidylinositol-4,5-bisphosphate binding				0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			TTATTCAATCCGCCTCCATGG	0.388													16	783	---	---	---	---	PASS	T	149684332	T	T	149684332	3	4	17	1	0	0	0	0	1	0	0	0	11768	661	23	1	161	1	PFN2	3	149684332	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	393587	149684332	48338098	82	8642										
MED12L	116931	broad.mit.edu	37	chr3	150881801	150881801	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cccgtccagcctccccatgcCgggtgggaacacggctttca	11	17	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:150881801C>T	uc003eyp.2	+	8	1267	c.1229C>T	c.(1228-1230)CCG>CTG	p.P410L	MED12L_uc011bnz.1_Intron|MED12L_uc003eyn.2_Missense_Mutation_p.P410L|MED12L_uc003eyo.2_Missense_Mutation_p.P410L	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	410					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTCCCCATGCCGGGTGGGAAC	0.433													50	107	---	---	---	---	PASS	T	150881801	T	T	150881801	3	4	17	1	0	0	0	0	1	0	0	0	9429	652	23	1	1259	1	MED12L	3	150881801	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	1197469	150881801	47140629	83	8643										
MED12L	116931	broad.mit.edu	37	chr3	151100489	151100489	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gataccaagatgacataaaaGcgcggcagatgatgcacgaa	11	8	0	4			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:151100489G>A	uc003eyp.2	+	31	4569	c.4531G>A	c.(4531-4533)GCG>ACG	p.A1511T	MED12L_uc011bnz.1_Missense_Mutation_p.A1371T|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.A674T	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1511					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TGACATAAAAGCGCGGCAGAT	0.348													14	46	---	---	---	---	PASS	A	151100489	A	A	151100489	3	1	17	1	0	0	0	0	1	0	0	0	9429	971	34	3	4653	3	MED12L	3	151100489	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	218688	151100489	46921941	84	8644										
ZBBX	79740	broad.mit.edu	37	chr3	167045904	167045904	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tttcatcgttgtaatttctaCctaattaaaaggatacatag	5	6	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:167045904C>A	uc003fep.2	-	11	1011	c.688G>T	c.(688-690)GTA>TTA	p.V230L	ZBBX_uc011bpc.1_Missense_Mutation_p.V230L|ZBBX_uc003feq.2_Missense_Mutation_p.V201L	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	230						intracellular	zinc ion binding			ovary(2)	2						GTAATTTCTACCTAATTAAAA	0.318													82	110	---	---	---	---	PASS	A	167045904	A	A	167045904	3	1	17	1	0	0	0	0	1	0	0	0	17513	521	18	3	1758	3	ZBBX	3	167045904	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	15945415	167045904	30976526	85	8645										
NAALADL2	254827	broad.mit.edu	37	chr3	175184863	175184863	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aataatcacagcgtttatccGtgccttgatgtcaaaagtta	7	8	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:175184863G>C	uc003fit.2	+	8	1511	c.1424G>C	c.(1423-1425)CGT>CCT	p.R475P	NAALADL2_uc003fiu.1_Missense_Mutation_p.R468P|NAALADL2_uc010hwy.1_Missense_Mutation_p.R249P|NAALADL2_uc010hwz.1_Missense_Mutation_p.R69P	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	475	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		GCGTTTATCCGTGCCTTGATG	0.438													97	207	---	---	---	---	PASS	C	175184863	C	C	175184863	3	2	17	1	0	0	0	0	1	0	0	0	10130	1145	40	4	1454	4	NAALADL2	3	175184863	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	8138959	175184863	22837567	86	8646										
ABCF3	55324	broad.mit.edu	37	chr3	183904636	183904636	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgctactggacgcccctatcCagttgtcaaagataacggag	10	11	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:183904636C>T	uc003fmz.2	+	3	407	c.274C>T	c.(274-276)CAG>TAG	p.Q92*	ABCF3_uc003fna.2_Nonsense_Mutation_p.Q86*|ABCF3_uc003fnb.2_5'Flank	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	92							ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CGCCCCTATCCAGTTGTCAAA	0.547													24	95	---	---	---	---	PASS	T	183904636	T	T	183904636	4	4	17	1	0	0	0	0	0	1	0	0	67	595	21	3	284	3	ABCF3	3	183904636	Nonsense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	8719773	183904636	14117794	87	8647										
CLDN1	9076	broad.mit.edu	37	chr3	190026066	190026066	+	Nonstop_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tttctccttttgcctctgtgTcacacgtagtctttcccgct	6	14	4	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:190026066T>G	uc003fsh.2	-	4	856	c.636A>C	c.(634-636)TGA>TGC	p.*212C		NM_021101	NP_066924	O95832	CLD1_HUMAN	claudin 1	212					calcium-independent cell-cell adhesion|interspecies interaction between organisms	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity			lung(1)	1	all_cancers(143;2.95e-10)|Ovarian(172;0.0512)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.015)		TGCCTCTGTGTCACACGTAGT	0.433													39	311	---	---	---	---	PASS	G	190026066	G	G	190026066	4	3	17	1	0	0	0	0	0	0	0	0	3471	1680	58	5	3	5	CLDN1	3	190026066	Nonstop_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	6121430	190026066	7996364	88	8648										
CCDC50	152137	broad.mit.edu	37	chr3	191074882	191074882	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctccatctactctagtatgcCgagattttgctgtcctggag	9	11	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:191074882C>G	uc003fsw.2	+	2	645	c.55C>G	c.(55-57)CGA>GGA	p.R19G	CCDC50_uc003fsv.2_Missense_Mutation_p.R19G	NM_174908	NP_777568	Q8IVM0	CCD50_HUMAN	Ymer protein short isoform	19						cytoplasm	protein binding				0	all_cancers(143;8.88e-09)|Ovarian(172;0.103)|Breast(254;0.221)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000136)		TCTAGTATGCCGAGATTTTGC	0.378													16	72	---	---	---	---	PASS	G	191074882	G	G	191074882	3	3	17	1	0	0	0	0	1	0	0	0	2820	644	23	4	61	4	CCDC50	3	191074882	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	1048816	191074882	6947548	89	8649										
PDS5A	23244	broad.mit.edu	37	chr4	39839791	39839791	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ttttctttcctcggtcactgCtgatgttgccctgggtagcc	10	12	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:39839791C>T	uc003guv.3	-	32	4235	c.3695G>A	c.(3694-3696)AGC>AAC	p.S1232N	PDS5A_uc010ifo.2_Missense_Mutation_p.S1192N	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1232					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						TCGGTCACTGCTGATGTTGCC	0.388													3	25	---	---	---	---	PASS	T	39839791	T	T	39839791	3	4	17	1	0	0	0	0	1	0	0	0	11691	797	28	3	326	3	PDS5A	4	39839791	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08		39839791	151314485	90	8650										
KCTD8	386617	broad.mit.edu	37	chr4	44177267	44177267	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	atactattttctgaggtggtCctaaaaaggaggaaaaaaaa	9	4	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:44177267C>A	uc003gwu.2	-	2	1246	c.962G>T	c.(961-963)CGA>CTA	p.R321L		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	321						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						CTGAGGTGGTCCTAAAAAGGA	0.323										HNSCC(17;0.042)			25	16	---	---	---	---	PASS	A	44177267	A	A	44177267	3	1	17	1	0	0	0	0	1	0	0	0	8115	869	30	2	463	2	KCTD8	4	44177267	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	4337476	44177267	146977009	91	8651										
USP46	64854	broad.mit.edu	37	chr4	53492340	53492340	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctgtttcttctcctcctgaaGgatgtccgcaatagtgttta	8	10	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:53492340G>A	uc003gzn.2	-	4	591	c.406C>T	c.(406-408)CTT>TTT	p.L136F	USP46_uc003gzm.3_Missense_Mutation_p.L129F|USP46_uc011bzr.1_Missense_Mutation_p.L113F|USP46_uc011bzs.1_Missense_Mutation_p.L20F	NM_022832	NP_073743	P62068	UBP46_HUMAN	ubiquitin specific peptidase 46 isoform 1	136					behavior|protein deubiquitination|regulation of synaptic transmission, GABAergic|ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0295)			TCCTCCTGAAGGATGTCCGCA	0.373													4	48	---	---	---	---	PASS	A	53492340	A	A	53492340	3	1	17	1	0	0	0	0	1	0	0	0	17074	1000	35	3	718	3	USP46	4	53492340	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	9315073	53492340	137661936	92	8652										
AASDH	132949	broad.mit.edu	37	chr4	57237718	57237718	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aagcagagaggcaccacttgAtagagcaagaaatatttcca	9	8	0	4			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:57237718A>T	uc003hbn.2	-	5	913	c.760T>A	c.(760-762)TCA>ACA	p.S254T	AASDH_uc010ihb.2_5'UTR|AASDH_uc011caa.1_Missense_Mutation_p.S101T|AASDH_uc003hbo.2_Missense_Mutation_p.S154T|AASDH_uc011cab.1_5'UTR|AASDH_uc010ihc.2_Missense_Mutation_p.S254T|AASDH_uc003hbp.2_Missense_Mutation_p.S254T	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	254					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				GCACCACTTGATAGAGCAAGA	0.423													3	37	---	---	---	---	PASS	T	57237718	T	T	57237718	3	4	17	1	0	0	0	0	1	0	0	0	22	333	12	5	2580	5	AASDH	4	57237718	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	3745378	57237718	133916558	93	8653										
EPHA5	2044	broad.mit.edu	37	chr4	66467780	66467780	+	Frame_Shift_Del	DEL	C	-	-													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tggttttccttgatgtttctCccattctgatcatctgactc							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:66467780delC	uc003hcy.2	-	3	682	c.489delG	c.(487-489)GGGfs	p.G163fs	EPHA5_uc003hcx.2_Frame_Shift_Del_p.G94fs|EPHA5_uc003hcz.2_Frame_Shift_Del_p.G163fs|EPHA5_uc011cah.1_Frame_Shift_Del_p.G163fs|EPHA5_uc011cai.1_Frame_Shift_Del_p.G163fs|EPHA5_uc003hda.2_Frame_Shift_Del_p.G163fs	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	163	Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TGATGTTTCTCCCATTCTGAT	0.408										TSP Lung(17;0.13)			57	70	---	---	---	---		-	66467780	-	-	66467780	7	5	17	1	0	1	0	1	0	0	0	0	5170	842	30	0	2688	0	EPHA5	4	66467780	Frame_Shift_Del	DEL	C	TCGA-18-5592-01A-01D-1632-08	9230062	66467780	124686496	94	8654										
ANKRD17	26057	broad.mit.edu	37	chr4	73986010	73986010	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aaaagaactcggcccacctcCgcatatccaccagaggcagc	8	16	0	2	rs139894750	byFrequency	TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:73986010C>G	uc003hgp.2	-	21	4011	c.3894G>C	c.(3892-3894)GCG>GCC	p.A1298A	ANKRD17_uc003hgo.2_Silent_p.A1185A|ANKRD17_uc003hgq.2_Silent_p.A1047A|ANKRD17_uc003hgr.2_Silent_p.A1297A|ANKRD17_uc011cbd.1_Silent_p.A863A	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1298	ANK 22.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GGCCCACCTCCGCATATCCAC	0.443													29	24	---	---	---	---	PASS	G	73986010	G	G	73986010	2	3	17	1	0	0	0	0	0	0	0	1	646	639	23	4		4	ANKRD17	4	73986010	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	7518230	73986010	117168266	95	8655										
COL25A1	84570	broad.mit.edu	37	chr4	109782124	109782124	+	Frame_Shift_Del	DEL	C	-	-													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtcccctttttctccacgatCccccttttcccgttggaaag							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:109782124delC	uc003hze.1	-	22	1732	c.1201delG	c.(1201-1203)GATfs	p.D401fs	COL25A1_uc003hzg.2_Frame_Shift_Del_p.D401fs|COL25A1_uc003hzd.2_RNA|COL25A1_uc003hzf.2_Frame_Shift_Del_p.D167fs	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	401	Extracellular (Potential).|Collagen-like 5.					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		TCTCCACGATCCCCCTTTTCC	0.433													28	32	---	---	---	---		-	109782124	-	-	109782124	7	5	17	1	0	1	0	1	0	0	0	0	3684	855	30	0	911	0	COL25A1	4	109782124	Frame_Shift_Del	DEL	C	TCGA-18-5592-01A-01D-1632-08	35796114	109782124	81372152	96	8656										
C4orf21	55345	broad.mit.edu	37	chr4	113510904	113510904	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	caagttgagaaaatgaagatCatcaggtaaagttcttgctt	9	5	3	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:113510904C>A	uc003iau.2	-	11	3314	c.3103G>T	c.(3103-3105)GAT>TAT	p.D1035Y	C4orf21_uc003iav.2_5'Flank|C4orf21_uc003iaw.2_Missense_Mutation_p.D1035Y	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		AAATGAAGATCATCAGGTAAA	0.358													4	91	---	---	---	---	PASS	A	113510904	A	A	113510904	3	1	17	1	0	0	0	0	1	0	0	0	2254	826	29	2	3283	2	C4orf21	4	113510904	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	3728780	113510904	77643372	97	8657										
DCHS2	54798	broad.mit.edu	37	chr4	155156792	155156792	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	atgcagatgagtatcagaaaCactaaaaaggagaccaccag	9	8	1	4			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:155156792C>A	uc003inw.2	-	25	7647	c.7647G>T	c.(7645-7647)GTG>GTT	p.V2549V		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2549	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GTATCAGAAACACTAAAAAGG	0.378													27	10	---	---	---	---	PASS	A	155156792	A	A	155156792	2	1	17	1	0	0	0	0	0	0	0	1	4288	465	17	3		3	DCHS2	4	155156792	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	41645888	155156792	35997484	98	8658										
HAND2	9464	broad.mit.edu	37	chr4	174450308	174450308	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggggtggccgatgagccagcCatggaagtaggggttctcct	17	9	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:174450308C>A	uc003ith.1	-	1	1071	c.133G>T	c.(133-135)GGC>TGC	p.G45C	NBLA00301_uc011ckd.1_5'Flank|NBLA00301_uc003itl.3_5'Flank|NBLA00301_uc003itj.2_5'Flank|NBLA00301_uc010irf.2_5'Flank|NBLA00301_uc010irg.2_5'Flank|NBLA00301_uc010irh.2_5'Flank|NBLA00301_uc010iri.2_5'Flank|NBLA00301_uc010irj.2_5'Flank|NBLA00301_uc010irk.2_5'Flank|NBLA00301_uc010irl.2_5'Flank|NBLA00301_uc010irm.2_5'Flank|NBLA00301_uc010irn.2_5'Flank|NBLA00301_uc003itk.2_5'Flank|HAND2_uc003itg.1_Missense_Mutation_p.G45C|HAND2_uc010ire.1_Missense_Mutation_p.G45C	NM_021973	NP_068808	P61296	HAND2_HUMAN	basic helix-loop-helix transcription factor	45					adult heart development|angiogenesis|apoptosis|cardiac neural crest cell development involved in outflow tract morphogenesis|heart looping|in utero embryonic development|negative regulation of cardiac muscle cell apoptosis|noradrenergic neuron differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|regulation of secondary heart field cardioblast proliferation|thymus development	nuclear chromatin|transcription factor complex	activating transcription factor binding|protein homodimerization activity|RNA polymerase II regulatory region sequence-specific DNA binding|transcription coactivator activity			skin(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0837)|all_hematologic(60;0.107)		all cancers(43;1.37e-18)|Epithelial(43;5.5e-17)|OV - Ovarian serous cystadenocarcinoma(60;3.3e-10)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		ATGAGCCAGCCATGGAAGTAG	0.502													16	2	---	---	---	---	PASS	A	174450308	A	A	174450308	3	1	17	1	0	0	0	0	1	0	0	0	6950	594	21	3	528	3	HAND2	4	174450308	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	19293516	174450308	16703968	99	8659										
ZFP42	132625	broad.mit.edu	37	chr4	188924884	188924884	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tacgaacaagaatgaacaagAgggaaagtagtcctccaaca	9	8	0	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:188924884A>G	uc003izg.1	+	3	1168	c.923A>G	c.(922-924)GAG>GGG	p.E308G	ZFP42_uc003izh.1_Missense_Mutation_p.E308G|ZFP42_uc003izi.1_Missense_Mutation_p.E308G	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	308					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		AATGAACAAGAGGGAAAGTAG	0.403													20	10	---	---	---	---	PASS	G	188924884	G	G	188924884	3	3	17	1	0	0	0	0	1	0	0	0	17647	304	11	5	925	5	ZFP42	4	188924884	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	14474576	188924884	2229392	100	8660										
MTRR	4552	broad.mit.edu	37	chr5	7875392	7875392	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tctcggtgattcagaatacaCctacttttgcaatgggggga	11	8	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:7875392C>A	uc003jed.2	+	4	416	c.386C>A	c.(385-387)ACC>AAC	p.T129N	MTRR_uc010itn.1_RNA|MTRR_uc003jee.3_Missense_Mutation_p.T102N|MTRR_uc003jef.3_RNA|MTRR_uc003jeg.3_RNA|MTRR_uc010ito.2_RNA	NM_024010	NP_076915	Q9UBK8	MTRR_HUMAN	methionine synthase reductase isoform 2	129	FMN (By similarity).|Flavodoxin-like.				methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	TCAGAATACACCTACTTTTGC	0.373													14	417	---	---	---	---	PASS	A	7875392	A	A	7875392	3	1	17	1	0	0	0	0	1	0	0	0	9961	507	18	3	400	3	MTRR	5	7875392	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08		7875392	173039868	101	8661										
CDH10	1008	broad.mit.edu	37	chr5	24505315	24505315	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gatccatttcctgaatgaatGttaaagattctgtcaaggtc	8	7	2	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:24505315G>T	uc003jgr.1	-	8	1631	c.1299C>A	c.(1297-1299)AAC>AAA	p.N433K	CDH10_uc011cnu.1_Intron	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	433	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CTGAATGAATGTTAAAGATTC	0.368										HNSCC(23;0.051)			53	64	---	---	---	---	PASS	T	24505315	T	T	24505315	3	4	17	1	0	0	0	0	1	0	0	0	3096	1368	48	3	1087	3	CDH10	5	24505315	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	16629923	24505315	156409945	102	8662										
CDH10	1008	broad.mit.edu	37	chr5	24537743	24537743	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctccatctccagataagataTatttgagtgatccatctcct	5	11	2	4			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:24537743T>C	uc003jgr.1	-	3	604	c.272A>G	c.(271-273)TAT>TGT	p.Y91C	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	91	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AGATAAGATATATTTGAGTGA	0.373										HNSCC(23;0.051)			147	13	---	---	---	---	PASS	C	24537743	C	C	24537743	3	2	17	1	0	0	0	0	1	0	0	0	3096	1406	49	5	2134	5	CDH10	5	24537743	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	32428	24537743	156377517	103	8663										
PDZD2	23037	broad.mit.edu	37	chr5	32090943	32090943	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	accctggcttctcctgttaaGaggaacaagtcctcggtacg	10	12	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:32090943G>A	uc003jhl.2	+	20	7777	c.7389G>A	c.(7387-7389)AAG>AAA	p.K2463K	PDZD2_uc003jhm.2_Silent_p.K2463K	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2463					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CTCCTGTTAAGAGGAACAAGT	0.562													10	276	---	---	---	---	PASS	A	32090943	A	A	32090943	2	1	17	1	0	0	0	0	0	0	0	1	11701	933	33	2		2	PDZD2	5	32090943	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	7553200	32090943	148824317	104	8664										
F2RL2	2151	broad.mit.edu	37	chr5	75913823	75913823	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggtgatgtctggctgaacaaGataatattcctgcttcagta	10	7	2	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:75913823G>T	uc003kem.2	-	2	894	c.709C>A	c.(709-711)CTT>ATT	p.L237I	IQGAP2_uc003kek.2_Intron|IQGAP2_uc010izv.2_Intron|IQGAP2_uc011csv.1_Intron|IQGAP2_uc003kel.2_Intron|F2RL2_uc011csw.1_Missense_Mutation_p.L215I	NM_004101	NP_004092	O00254	PAR3_HUMAN	coagulation factor II (thrombin) receptor-like 2	237	Extracellular (Potential).				platelet activation	extracellular region|integral to plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|thrombin receptor activity			skin(2)|ovary(1)	3		all_lung(232;0.000462)|Lung NSC(167;0.00124)|Prostate(461;0.00955)|Ovarian(174;0.0129)		all cancers(79;4.43e-43)		GGCTGAACAAGATAATATTCC	0.453													14	9	---	---	---	---	PASS	T	75913823	T	T	75913823	3	4	17	1	0	0	0	0	1	0	0	0	5345	942	33	2	419	2	F2RL2	5	75913823	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	43822880	75913823	105001437	105	8665										
GPR98	84059	broad.mit.edu	37	chr5	90074700	90074700	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aggttaacatcacaatcatcCgttccagtggagattttggc	9	9	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:90074700C>T	uc003kju.2	+	64	12964	c.12868C>T	c.(12868-12870)CGT>TGT	p.R4290C	GPR98_uc003kjt.2_Missense_Mutation_p.R1996C|GPR98_uc003kjw.2_5'Flank	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	4290	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CACAATCATCCGTTCCAGTGG	0.438													63	40	---	---	---	---	PASS	T	90074700	T	T	90074700	3	4	17	1	0	0	0	0	1	0	0	0	6721	652	23	1	13122	1	GPR98	5	90074700	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	14160877	90074700	90840560	106	8666										
KCTD16	57528	broad.mit.edu	37	chr5	143853480	143853480	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cagagatgcggcggaaaagcGacttactccggactctgact	12	11	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:143853480G>T	uc003lnm.1	+	4	1719	c.1090G>T	c.(1090-1092)GAC>TAC	p.D364Y	KCTD16_uc003lnn.1_Missense_Mutation_p.D364Y	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	364						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			GCGGAAAAGCGACTTACTCCG	0.522													36	23	---	---	---	---	PASS	T	143853480	T	T	143853480	3	4	17	1	0	0	0	0	1	0	0	0	8103	1058	37	2	1096	2	KCTD16	5	143853480	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	53778780	143853480	37061780	107	8667										
ATP10B	23120	broad.mit.edu	37	chr5	160047944	160047944	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tccccagagccttgcttgagGgtttgatggtgaccttgtgg	14	9	0	4			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:160047944G>T	uc003lym.1	-	15	2673	c.1826C>A	c.(1825-1827)CCC>CAC	p.P609H	ATP10B_uc010jit.1_5'UTR|ATP10B_uc003lyn.2_Missense_Mutation_p.P167H	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	609	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTTGCTTGAGGGTTTGATGGT	0.458													132	75	---	---	---	---	PASS	T	160047944	T	T	160047944	3	4	17	1	0	0	0	0	1	0	0	0	1117	1232	43	3	2607	3	ATP10B	5	160047944	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	16194464	160047944	20867316	108	8668										
GABRB2	2561	broad.mit.edu	37	chr5	160757955	160757955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cttctcagctgctttcttttGgcgttggggccccctcccaa	9	15	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:160757955G>T	uc003lys.1	-	9	1230	c.1012C>A	c.(1012-1014)CAA>AAA	p.Q338K	GABRB2_uc011deh.1_Missense_Mutation_p.Q177K|GABRB2_uc003lyr.1_Missense_Mutation_p.Q338K|GABRB2_uc003lyt.1_Missense_Mutation_p.Q338K|GABRB2_uc010jiu.1_Missense_Mutation_p.Q275K	NM_021911	NP_068711	P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	338	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|GABA-A receptor activity				0	Renal(175;0.00259)	Medulloblastoma(196;0.021)|all_neural(177;0.0463)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	GCTTTCTTTTGGCGTTGGGGC	0.498													110	54	---	---	---	---	PASS	T	160757955	T	T	160757955	3	4	17	1	0	0	0	0	1	0	0	0	6167	1357	47	3	538	3	GABRB2	5	160757955	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	710011	160757955	20157305	109	8669										
GCNT2	2651	broad.mit.edu	37	chr6	10529727	10529727	+	Frame_Shift_Del	DEL	T	-	-													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcaacacctgcgggcaagacTttcccctgaaaaccaacagg							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:10529727delT	uc010joo.2	+	3	1134	c.583delT	c.(583-585)TTTfs	p.F195fs	GCNT2_uc010jol.2_Intron|GCNT2_uc010jom.2_Intron|GCNT2_uc010jop.2_Intron|GCNT2_uc003mza.2_Intron|GCNT2_uc003mzc.3_Frame_Shift_Del_p.F194fs|GCNT2_uc010jon.2_Frame_Shift_Del_p.F194fs	NM_145649	NP_663624	Q8N0V5	GNT2A_HUMAN	glucosaminyl (N-acetyl) transferase 2,	195	Lumenal (Potential).					Golgi membrane|integral to membrane	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(2)	2	Ovarian(93;0.107)|Breast(50;0.148)	all_hematologic(90;0.107)		KIRC - Kidney renal clear cell carcinoma(1;0.099)|Kidney(1;0.119)		CGGGCAAGACTTTCCCCTGAA	0.532													56	30	---	---	---	---		-	10529727	-	-	10529727	7	5	17	1	0	1	0	1	0	0	0	0	6301	1609	56	0	585	0	GCNT2	6	10529727	Frame_Shift_Del	DEL	T	TCGA-18-5592-01A-01D-1632-08		10529727	160585340	110	8670										
RHAG	6005	broad.mit.edu	37	chr6	49578736	49578736	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aaaacccattcttttactcaCgtgttggaggcgcccattgc	8	12	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:49578736C>T	uc003ozk.3	-	7	1129	c.1067_splice	c.e7+1	p.T356_splice	RHAG_uc010jzl.2_Splice_Site_p.T356_splice|RHAG_uc010jzm.2_Intron	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein						carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					CTTTTACTCACGTGTTGGAGG	0.502													25	63	---	---	---	---	PASS	T	49578736	T	T	49578736	5	4	17	1	0	0	0	0	0	0	1	0	13315	550	19	1	177	1	RHAG	6	49578736	Splice_Site	SNP	C	TCGA-18-5592-01A-01D-1632-08	39049009	49578736	121536331	111	8671										
GSTA2	2939	broad.mit.edu	37	chr6	52622742	52622742	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtggagcttgggcttctctgCcatggtagcagtctcctgga	14	10	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:52622742C>T	uc003pay.2	-	2	154	c.4G>A	c.(4-6)GCA>ACA	p.A2T		NM_000846	NP_000837	P09210	GSTA2_HUMAN	glutathione S-transferase alpha 2	2					glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.118)				Aminophenazone(DB01424)|Amsacrine(DB00276)|Busulfan(DB01008)|Chlorambucil(DB00291)|Chloroquine(DB00608)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Ethacrynic acid(DB00903)|Glutathione(DB00143)|Mechlorethamine(DB00888)|Praziquantel(DB01058)|Vitamin E(DB00163)	GGCTTCTCTGCCATGGTAGCA	0.418													49	63	---	---	---	---	PASS	T	52622742	T	T	52622742	3	4	17	1	0	0	0	0	1	0	0	0	6831	739	26	3	688	3	GSTA2	6	52622742	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	3044006	52622742	118492325	112	8672										
DST	667	broad.mit.edu	37	chr6	56457026	56457026	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gatttttggggtccaccgcaAtaggttcagataagtgtttg	12	6	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:56457026A>C	uc003pdf.2	-	43	6528	c.6500T>G	c.(6499-6501)ATT>AGT	p.I2167S	DST_uc003pcz.3_Missense_Mutation_p.I1989S|DST_uc011dxj.1_Missense_Mutation_p.I2018S|DST_uc011dxk.1_Missense_Mutation_p.I2029S|DST_uc003pcy.3_Missense_Mutation_p.I1663S|DST_uc010kaa.1_RNA	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	4075	Spectrin 3.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			GTCCACCGCAATAGGTTCAGA	0.448													17	31	---	---	---	---	PASS	C	56457026	C	C	56457026	3	2	17	1	0	0	0	0	1	0	0	0	4783	101	4	5	10747	5	DST	6	56457026	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	3834284	56457026	114658041	113	8673										
DST	667	broad.mit.edu	37	chr6	56504519	56504519	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gttttgcatactgactctctAatctgtgcaacttttctgca	6	10	3	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:56504519A>T	uc003pdf.2	-	19	2601	c.2573T>A	c.(2572-2574)TTA>TAA	p.L858*	DST_uc003pcz.3_Nonsense_Mutation_p.L680*|DST_uc011dxj.1_Nonsense_Mutation_p.L709*|DST_uc011dxk.1_Nonsense_Mutation_p.L720*|DST_uc011dxl.1_Nonsense_Mutation_p.L709*|DST_uc003pcy.3_Nonsense_Mutation_p.L354*|DST_uc003pdb.2_Nonsense_Mutation_p.L354*|DST_uc003pdc.3_Nonsense_Mutation_p.L354*|DST_uc003pdd.3_Nonsense_Mutation_p.L354*|DST_uc003pde.2_Nonsense_Mutation_p.L796*	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	680					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CTGACTCTCTAATCTGTGCAA	0.328													108	160	---	---	---	---	PASS	T	56504519	T	T	56504519	4	4	17	1	0	0	0	0	0	1	0	0	4783	372	13	5	19410	5	DST	6	56504519	Nonsense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	47493	56504519	114610548	114	8674										
PHF3	23469	broad.mit.edu	37	chr6	64394311	64394311	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	catcttgtcttgaaatgaagGatgaagatggattagattct	10	4	3	5			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:64394311G>T	uc003pep.1	+	3	714	c.688G>T	c.(688-690)GAT>TAT	p.D230Y	PHF3_uc010kaf.1_Missense_Mutation_p.D230Y|PHF3_uc003pem.2_Missense_Mutation_p.D183Y|PHF3_uc010kag.1_Missense_Mutation_p.D142Y|PHF3_uc010kah.1_Missense_Mutation_p.D44Y|PHF3_uc003pen.2_Missense_Mutation_p.D142Y|PHF3_uc011dxs.1_Intron|PHF3_uc003peo.2_Missense_Mutation_p.D230Y	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	230					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			TGAAATGAAGGATGAAGATGG	0.378													61	111	---	---	---	---	PASS	T	64394311	T	T	64394311	3	4	17	1	0	0	0	0	1	0	0	0	11836	1174	41	2	698	2	PHF3	6	64394311	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	7889792	64394311	106720756	115	8675										
TBX18	9096	broad.mit.edu	37	chr6	85446610	85446610	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ttctcaggactggcagccagTttgggggatgtggagaagtt	16	6	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:85446610T>A	uc003pkl.1	-	8	1617	c.1617A>T	c.(1615-1617)AAA>AAT	p.K539N	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	539					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TGGCAGCCAGTTTGGGGGATG	0.502													90	122	---	---	---	---	PASS	A	85446610	A	A	85446610	3	1	17	1	0	0	0	0	1	0	0	0	15650	1722	60	5	210	5	TBX18	6	85446610	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	21052299	85446610	85668457	116	8676										
MAP3K7	6885	broad.mit.edu	37	chr6	91226264	91226264	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctgctgacttctgatgacctCtagttgttttttgcattgct	8	9	2	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:91226264C>T	uc003pnz.1	-	17	1939	c.1777G>A	c.(1777-1779)GAG>AAG	p.E593K	MAP3K7_uc003pny.1_Missense_Mutation_p.E130K|MAP3K7_uc003poa.1_3'UTR|MAP3K7_uc003pob.1_Missense_Mutation_p.E566K|MAP3K7_uc003poc.1_3'UTR	NM_145331	NP_663304	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	593					activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		CTGATGACCTCTAGTTGTTTT	0.378													88	163	---	---	---	---	PASS	T	91226264	T	T	91226264	3	4	17	1	0	0	0	0	1	0	0	0	9255	922	32	2	47	2	MAP3K7	6	91226264	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	5779654	91226264	79888803	117	8677										
GPR63	81491	broad.mit.edu	37	chr6	97246999	97246999	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gctacacaaaaggaagttgcCcaagaaactgcaatcagaac	8	10	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:97246999C>A	uc010kcl.2	-	3	1087	c.609G>T	c.(607-609)TGG>TGT	p.W203C	GPR63_uc003pou.2_Missense_Mutation_p.W203C	NM_001143957	NP_001137429	Q9BZJ6	GPR63_HUMAN	G protein-coupled receptor 63	203	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;6.89e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0618)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0912)		AGGAAGTTGCCCAAGAAACTG	0.463													68	90	---	---	---	---	PASS	A	97246999	A	A	97246999	3	1	17	1	0	0	0	0	1	0	0	0	6704	624	22	3	654	3	GPR63	6	97246999	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	6020735	97246999	73868068	118	8678										
KLHL32	114792	broad.mit.edu	37	chr6	97561847	97561847	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaataccaccagagcatctaTgcacagcctgtctggcagac	9	13	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:97561847T>C	uc010kcm.1	+	7	1288	c.816T>C	c.(814-816)TAT>TAC	p.Y272Y	KLHL32_uc003poy.2_Silent_p.Y272Y|KLHL32_uc011ead.1_Silent_p.Y236Y|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Silent_p.Y203Y|KLHL32_uc003ppa.2_Intron	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	272										ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		AGAGCATCTATGCACAGCCTG	0.537													39	50	---	---	---	---	PASS	C	97561847	C	C	97561847	2	2	17	1	0	0	0	0	0	0	0	1	8386	1471	51	5		5	KLHL32	6	97561847	Silent	SNP	T	TCGA-18-5592-01A-01D-1632-08	314848	97561847	73553220	119	8679										
FIG4	9896	broad.mit.edu	37	chr6	110059537	110059537	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ttatttttcaggggtatttgGgatctgtagtgagccttata	11	4	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:110059537G>T	uc003ptt.2	+	7	871	c.656G>T	c.(655-657)GGG>GTG	p.G219V	FIG4_uc011eau.1_Intron	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	219	SAC.				cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		GGGGTATTTGGGATCTGTAGT	0.299													55	164	---	---	---	---	PASS	T	110059537	T	T	110059537	3	4	17	1	0	0	0	0	1	0	0	0	5888	1232	43	3	682	3	FIG4	6	110059537	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	12497690	110059537	61055530	120	8680										
SLC35F1	222553	broad.mit.edu	37	chr6	118556697	118556697	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaaaacctcctggcaattttAcgacgaagatggtggaagta	11	7	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:118556697A>G	uc003pxx.3	+	3	576	c.375A>G	c.(373-375)TTA>TTG	p.L125L		NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	125					transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		TGGCAATTTTACGACGAAGAT	0.378													50	68	---	---	---	---	PASS	G	118556697	G	G	118556697	2	3	17	1	0	0	0	0	0	0	0	1	14588	388	14	5		5	SLC35F1	6	118556697	Silent	SNP	A	TCGA-18-5592-01A-01D-1632-08	8497160	118556697	52558370	121	8681										
PLN	5350	broad.mit.edu	37	chr6	118880183	118880183	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aagctacagaatctatttatCaatttctgtctcatcttaat	3	8	5	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:118880183C>T	uc003pye.2	+	2	310	c.99C>T	c.(97-99)ATC>ATT	p.I33I	C6orf204_uc003pxz.1_Intron|C6orf204_uc003pya.1_Intron|C6orf204_uc003pyb.2_Intron|C6orf204_uc011ebj.1_Intron|C6orf204_uc003pyc.2_Intron	NM_002667	NP_002658	P26678	PPLA_HUMAN	phospholamban	33	Helical; (Potential).				blood circulation|regulation of calcium ion transport	integral to membrane|mitochondrial membrane|sarcoplasmic reticulum	calcium channel regulator activity|protein binding				0		all_cancers(87;0.0916)|all_epithelial(87;0.131)		GBM - Glioblastoma multiforme(226;0.0325)|all cancers(137;0.154)|OV - Ovarian serous cystadenocarcinoma(136;0.176)		ATCTATTTATCAATTTCTGTC	0.413													5	190	---	---	---	---	PASS	T	118880183	T	T	118880183	2	4	17	1	0	0	0	0	0	0	0	1	12100	816	29	2		2	PLN	6	118880183	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	323486	118880183	52234884	122	8682										
LAMA2	3908	broad.mit.edu	37	chr6	129748927	129748927	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctcggggtttattaaaggaaGatgccaaaggctgtcttcag	12	7	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:129748927G>T	uc003qbn.2	+	41	6001	c.5896G>T	c.(5896-5898)GAT>TAT	p.D1966Y	LAMA2_uc003qbo.2_Missense_Mutation_p.D1966Y	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1966	Domain II and I.|Potential.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		ATTAAAGGAAGATGCCAAAGG	0.338													85	40	---	---	---	---	PASS	T	129748927	T	T	129748927	3	4	17	1	0	0	0	0	1	0	0	0	8606	942	33	2	6058	2	LAMA2	6	129748927	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	10868744	129748927	41366140	123	8683										
VNN2	8875	broad.mit.edu	37	chr6	133065441	133065441	+	Nonstop_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gagtgataaagagacgccctAtaacattacaatattttgca	7	7	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:133065441A>G	uc003qdt.2	-	7	1572	c.1561T>C	c.(1561-1563)TAG>CAG	p.*521Q	VNN2_uc003qds.2_Nonstop_Mutation_p.*230Q|VNN2_uc010kgb.2_Nonstop_Mutation_p.*300Q|VNN2_uc003qdv.2_Nonstop_Mutation_p.*468Q	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor	521					cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		GAGACGCCCTATAACATTACA	0.368													42	17	---	---	---	---	PASS	G	133065441	G	G	133065441	4	3	17	1	0	0	0	0	0	0	0	0	17180	462	16	5	5	5	VNN2	6	133065441	Nonstop_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	3316514	133065441	38049626	124	8684										
BCLAF1	9774	broad.mit.edu	37	chr6	136589379	136589379	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gagttttaaattcttcttctCtttccttcttactctccttt	2	11	5	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:136589379C>A	uc003qgx.1	-	10	2571	c.2318G>T	c.(2317-2319)AGA>ATA	p.R773I	BCLAF1_uc011edb.1_Missense_Mutation_p.R101I|BCLAF1_uc003qgw.1_Missense_Mutation_p.R600I|BCLAF1_uc003qgy.1_Missense_Mutation_p.R771I|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.R771I	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	773					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TTCTTCTTCTCTTTCCTTCTT	0.383													38	113	---	---	---	---	PASS	A	136589379	A	A	136589379	3	1	17	1	0	0	0	0	1	0	0	0	1383	913	32	2	460	2	BCLAF1	6	136589379	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	3523938	136589379	34525688	125	8685										
SYNE1	23345	broad.mit.edu	37	chr6	152647160	152647160	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcaacaaagaaaactcagacAatttcttttctgtatcattc	3	9	5	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:152647160A>T	uc010kiw.2	-	80	15973	c.15371T>A	c.(15370-15372)TTG>TAG	p.L5124*	SYNE1_uc003qot.3_Nonsense_Mutation_p.L5053*|SYNE1_uc003qou.3_Nonsense_Mutation_p.L5124*|SYNE1_uc010kiz.2_Nonsense_Mutation_p.L879*	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5124	Spectrin 16.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AAACTCAGACAATTTCTTTTC	0.373										HNSCC(10;0.0054)			29	14	---	---	---	---	PASS	T	152647160	T	T	152647160	4	4	17	1	0	0	0	0	0	1	0	0	15442	131	5	5	11363	5	SYNE1	6	152647160	Nonsense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	16057781	152647160	18467907	126	8686										
RBAK	57786	broad.mit.edu	37	chr7	5103389	5103389	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cgaagacaaacattcaaggcAagctgcttgtatcaatagca	8	9	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:5103389A>T	uc010kss.1	+	6	626	c.302A>T	c.(301-303)CAA>CTA	p.Q101L	LOC389458_uc003snr.2_Intron|RBAK_uc003sns.1_Missense_Mutation_p.Q101L	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	101					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		CATTCAAGGCAAGCTGCTTGT	0.353													72	15	---	---	---	---	PASS	T	5103389	T	T	5103389	3	4	17	1	0	0	0	0	1	0	0	0	13100	130	5	5	316	5	RBAK	7	5103389	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08		5103389	154035274	127	8687										
MIOS	54468	broad.mit.edu	37	chr7	7612910	7612910	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acattgactgagcaaccaaaAcccttaacaaaagtagcatg	6	10	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:7612910A>T	uc003srf.2	+	4	1112	c.804A>T	c.(802-804)AAA>AAT	p.K268N	MIOS_uc010ktp.1_Missense_Mutation_p.K268N	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	268	WD 5.										0						AGCAACCAAAACCCTTAACAA	0.393													180	32	---	---	---	---	PASS	T	7612910	T	T	7612910	3	4	17	1	0	0	0	0	1	0	0	0	9589	40	2	5	806	5	MIOS	7	7612910	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	2509521	7612910	151525753	128	8688										
TXNDC3	51314	broad.mit.edu	37	chr7	37907339	37907339	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tttgtctcttttatgacaagTggcttaagctatattctagt	7	6	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:37907339T>C	uc003tfn.2	+	11	1029	c.657T>C	c.(655-657)AGT>AGC	p.S219S		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	219	NDK 1.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						TTATGACAAGTGGCTTAAGCT	0.403									Kartagener_syndrome				119	24	---	---	---	---	PASS	C	37907339	C	C	37907339	2	2	17	1	0	0	0	0	0	0	0	1	16795	1693	59	5		5	TXNDC3	7	37907339	Silent	SNP	T	TCGA-18-5592-01A-01D-1632-08	30294429	37907339	121231324	129	8689										
GLI3	2737	broad.mit.edu	37	chr7	42011972	42011972	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ttgacggttttcacctggagGcattcttcccgctttgaggt	11	10	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:42011972G>A	uc011kbh.1	-	13	2158	c.2067C>T	c.(2065-2067)TGC>TGT	p.C689C	GLI3_uc011kbg.1_Silent_p.C630C	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	689					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						TCACCTGGAGGCATTCTTCCC	0.562									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				14	466	---	---	---	---	PASS	A	42011972	A	A	42011972	2	1	17	1	0	0	0	0	0	0	0	1	6439	1195	42	3		3	GLI3	7	42011972	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	4104633	42011972	117126691	130	8690										
WBSCR17	64409	broad.mit.edu	37	chr7	70853220	70853220	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ttccgatctctccttccccaGgtgtaaggagctcaagtact	8	13	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:70853220G>T	uc003tvy.2	+	3	423	c.423_splice	c.e3-1	p.K141_splice	WBSCR17_uc003tvz.2_Splice_Site	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TCCTTCCCCAGGTGTAAGGAG	0.517													95	92	---	---	---	---	PASS	T	70853220	T	T	70853220	5	4	17	1	0	0	0	0	0	0	1	0	17261	1014	35	3	432	3	WBSCR17	7	70853220	Splice_Site	SNP	G	TCGA-18-5592-01A-01D-1632-08	28841248	70853220	88285443	131	8691										
STEAP4	79689	broad.mit.edu	37	chr7	87912145	87912145	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cggtacagttgtagaatggcAgcaataacaccagggaggta	13	7	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:87912145A>G	uc003ujs.2	-	3	900	c.795T>C	c.(793-795)GCT>GCC	p.A265A	STEAP4_uc010lek.2_Intron|STEAP4_uc003ujt.2_Silent_p.A265A	NM_024636	NP_078912	Q687X5	STEA4_HUMAN	tumor necrosis factor, alpha-induced protein 9	265	Ferric oxidoreductase.|Helical; (Potential).				fat cell differentiation|ion transport|iron ion homeostasis	Golgi membrane|integral to membrane|plasma membrane	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	Esophageal squamous(14;0.00802)					GTAGAATGGCAGCAATAACAC	0.453													86	14	---	---	---	---	PASS	G	87912145	G	G	87912145	2	3	17	1	0	0	0	0	0	0	0	1	15279	175	7	5		5	STEAP4	7	87912145	Silent	SNP	A	TCGA-18-5592-01A-01D-1632-08	17058925	87912145	71226518	132	8692										
SLC25A13	10165	broad.mit.edu	37	chr7	95751027	95751027	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cgtaagtcagcaaagttacaCcaaactggggtgaggatcga	12	8	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:95751027C>A	uc003uof.3	-	17	1972	c.1781G>T	c.(1780-1782)GGT>GTT	p.G594V	SLC25A13_uc003uog.3_Missense_Mutation_p.G595V|SLC25A13_uc011kik.1_Missense_Mutation_p.G486V	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	594	Solcar 3.|Helical; Name=6; (Potential).				ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	CAAAGTTACACCAAACTGGGG	0.353													158	43	---	---	---	---	PASS	A	95751027	A	A	95751027	3	1	17	1	0	0	0	0	1	0	0	0	14475	507	18	3	254	3	SLC25A13	7	95751027	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	7838882	95751027	63387636	133	8693										
RELN	5649	broad.mit.edu	37	chr7	103206680	103206680	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acaatatatacctatgttttCagtgaatatcagagcagtat	6	6	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:103206680C>T	uc003vca.2	-	33	5087	c.4927G>A	c.(4927-4929)GAA>AAA	p.E1643K	RELN_uc010liz.2_Missense_Mutation_p.E1643K	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1643					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCTATGTTTTCAGTGAATATC	0.348													9	99	---	---	---	---	PASS	T	103206680	T	T	103206680	3	4	17	1	0	0	0	0	1	0	0	0	13220	835	29	2	5587	2	RELN	7	103206680	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	7455653	103206680	55931983	134	8694										
SLC26A4	5172	broad.mit.edu	37	chr7	107342503	107342503	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gagtgagatcactgcgggtgGtaaggttctggttttctgaa	15	5	3	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:107342503G>A	uc003vep.2	+	17	2258	c.2034_splice	c.e17+1	p.V678_splice	SLC26A4_uc011kmb.1_Splice_Site_p.V265_splice|SLC26A4_uc011kmc.1_Splice_Site_p.V239_splice|SLC26A4_uc011kmd.1_Splice_Site_p.V247_splice	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin						regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						ACTGCGGGTGGTAAGGTTCTG	0.438									Pendred_syndrome				43	8	---	---	---	---	PASS	A	107342503	A	A	107342503	5	1	17	1	0	0	0	0	0	0	1	0	14519	1275	44	3	2097	3	SLC26A4	7	107342503	Splice_Site	SNP	G	TCGA-18-5592-01A-01D-1632-08	4135823	107342503	51796160	135	8695										
KCND2	3751	broad.mit.edu	37	chr7	119914821	119914821	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	caagatgctctcattgtgctGaatgtgagtggcacccgctt	11	10	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:119914821G>C	uc003vjj.1	+	1	1100	c.135G>C	c.(133-135)CTG>CTC	p.L45L		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	45	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TCATTGTGCTGAATGTGAGTG	0.602													8	443	---	---	---	---	PASS	C	119914821	C	C	119914821	2	2	17	1	0	0	0	0	0	0	0	1	8019	1277	45	2		2	KCND2	7	119914821	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	12572318	119914821	39223842	136	8696										
CUL1	8454	broad.mit.edu	37	chr7	148484186	148484186	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acagtgcaagtgacgatgccGaagccagcatgatctccaag	11	11	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:148484186G>A	uc010lpg.2	+	13	1979	c.1453G>A	c.(1453-1455)GAA>AAA	p.E485K	CUL1_uc003wey.2_Missense_Mutation_p.E485K|CUL1_uc003wez.2_Missense_Mutation_p.E375K|CUL1_uc003wfa.2_Missense_Mutation_p.E146K	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	485					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			TGACGATGCCGAAGCCAGCAT	0.398													76	24	---	---	---	---	PASS	A	148484186	A	A	148484186	3	1	17	1	0	0	0	0	1	0	0	0	4054	1059	37	2	1499	2	CUL1	7	148484186	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	28569365	148484186	10654477	137	8697										
TNKS	8658	broad.mit.edu	37	chr8	9413685	9413685	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggatccgcccgacaggccccGatccccggacccggttgacg	13	18	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:9413685G>T	uc003wss.2	+	1	241	c.236G>T	c.(235-237)CGA>CTA	p.R79L	TNKS_uc011kwv.1_Missense_Mutation_p.R79L|uc003wsr.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	79					mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		GACAGGCCCCGATCCCCGGAC	0.701													31	13	---	---	---	---	PASS	T	9413685	T	T	9413685	3	4	17	1	0	0	0	0	1	0	0	0	16316	1058	37	2	238	2	TNKS	8	9413685	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08		9413685	136950337	138	8698										
STC1	6781	broad.mit.edu	37	chr8	23702537	23702537	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acattccagcaggcttcggaCaagtctgttatagtatctgc	9	10	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:23702537C>G	uc003xdw.1	-	4	774	c.490G>C	c.(490-492)GTC>CTC	p.V164L		NM_003155	NP_003146	P52823	STC1_HUMAN	stanniocalcin 1 precursor	164					cell surface receptor linked signaling pathway|cell-cell signaling|cellular calcium ion homeostasis		hormone activity			skin(3)|upper_aerodigestive_tract(1)	4		Prostate(55;0.055)|Breast(100;0.116)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		AGGCTTCGGACAAGTCTGTTA	0.522													58	30	---	---	---	---	PASS	G	23702537	G	G	23702537	3	3	17	1	0	0	0	0	1	0	0	0	15274	478	17	4	257	4	STC1	8	23702537	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	14288852	23702537	122661485	139	8699										
MYST3	7994	broad.mit.edu	37	chr8	41806877	41806877	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ttcacaaagatacaatttggGcagcctgtaaacgataatta	7	7	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:41806877G>A	uc010lxb.2	-	11	2147	c.1603C>T	c.(1603-1605)CCC>TCC	p.P535S	MYST3_uc010lxc.2_Missense_Mutation_p.P535S|MYST3_uc003xon.3_Missense_Mutation_p.P535S|MYST3_uc010lxd.2_Missense_Mutation_p.P535S	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	535	Mediates interaction with BRPF1, required for histone H3 acetyltransferase activity.|Catalytic.|Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			TACAATTTGGGCAGCCTGTAA	0.348													17	29	---	---	---	---	PASS	A	41806877	A	A	41806877	3	1	17	1	0	0	0	0	1	0	0	0	10104	1203	42	3	4443	3	MYST3	8	41806877	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	18104340	41806877	104557145	140	8700										
POTEA	340441	broad.mit.edu	37	chr8	43155765	43155765	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aatgcacttgataggtttggAaggtatagttatttctttta	9	3	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:43155765A>T	uc003xpz.1	+	4	736	c.693A>T	c.(691-693)GGA>GGT	p.G231G	POTEA_uc003xqa.1_Silent_p.G231G	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	231	ANK 5.									ovary(1)	1						ATAGGTTTGGAAGGTATAGTT	0.308													46	55	---	---	---	---	PASS	T	43155765	T	T	43155765	2	4	17	1	0	0	0	0	0	0	0	1	12261	233	9	5		5	POTEA	8	43155765	Silent	SNP	A	TCGA-18-5592-01A-01D-1632-08	1348888	43155765	103208257	141	8701										
XKR4	114786	broad.mit.edu	37	chr8	56015461	56015461	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gctcgccgtggactactaccTgcgcggccagcgctggtggt	15	14	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:56015461T>A	uc003xsf.2	+	1	445	c.413T>A	c.(412-414)CTG>CAG	p.L138Q		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	138						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			GACTACTACCTGCGCGGCCAG	0.642													41	80	---	---	---	---	PASS	A	56015461	A	A	56015461	3	1	17	1	0	0	0	0	1	0	0	0	17430	1580	55	5	415	5	XKR4	8	56015461	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	12859696	56015461	90348561	142	8702										
XKR4	114786	broad.mit.edu	37	chr8	56435884	56435884	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgtccctggcctgggccttgGcctcctaccagaaggccctc	11	17	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:56435884G>T	uc003xsf.2	+	3	1083	c.1051G>T	c.(1051-1053)GCC>TCC	p.A351S		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	351	Helical; (Potential).					integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			CTGGGCCTTGGCCTCCTACCA	0.567													20	32	---	---	---	---	PASS	T	56435884	T	T	56435884	3	4	17	1	0	0	0	0	1	0	0	0	17430	1203	42	3	1061	3	XKR4	8	56435884	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	420423	56435884	89928138	143	8703										
PRDM14	63978	broad.mit.edu	37	chr8	70981880	70981880	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctcagcaagggaggcgccatCcggaaggggaaggggggcat	19	9	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:70981880C>A	uc003xym.2	-	2	418	c.216G>T	c.(214-216)CGG>CGT	p.R72R		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	72					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			GAGGCGCCATCCGGAAGGGGA	0.657													4	5	---	---	---	---	PASS	A	70981880	A	A	70981880	2	1	17	1	0	0	0	0	0	0	0	1	12455	842	30	2		2	PRDM14	8	70981880	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	14545996	70981880	75382142	144	8704										
STK3	6788	broad.mit.edu	37	chr8	99560267	99560267	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtccccaagtcggattccaaCatcgtgctattatgttcaat	7	11	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:99560267C>T	uc003yip.2	-	9	1212	c.1071G>A	c.(1069-1071)ATG>ATA	p.M357I	STK3_uc003yio.2_Missense_Mutation_p.M385I|STK3_uc010mbm.1_Missense_Mutation_p.M246I	NM_006281	NP_006272	Q13188	STK3_HUMAN	serine/threonine kinase 3	357					apoptosis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of apoptosis	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein dimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	Breast(36;2.4e-06)	Breast(495;0.106)	OV - Ovarian serous cystadenocarcinoma(57;0.0382)	KIRC - Kidney renal clear cell carcinoma(542;9.44e-06)		CGGATTCCAACATCGTGCTAT	0.453													24	28	---	---	---	---	PASS	T	99560267	T	T	99560267	3	4	17	1	0	0	0	0	1	0	0	0	15294	478	17	3	416	3	STK3	8	99560267	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	28578387	99560267	46803755	145	8705										
CSMD3	114788	broad.mit.edu	37	chr8	113326668	113326668	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ccttggttaccatcatacacCtgaagaacatcaaattcctt	4	12	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:113326668C>A	uc003ynu.2	-	48	7698	c.7539G>T	c.(7537-7539)CAG>CAT	p.Q2513H	CSMD3_uc003yns.2_Missense_Mutation_p.Q1715H|CSMD3_uc003ynt.2_Missense_Mutation_p.Q2473H|CSMD3_uc011lhx.1_Missense_Mutation_p.Q2409H|CSMD3_uc003ynw.1_Missense_Mutation_p.Q224H	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2513	CUB 14.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CATCATACACCTGAAGAACAT	0.318										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			44	78	---	---	---	---	PASS	A	113326668	A	A	113326668	3	1	17	1	0	0	0	0	1	0	0	0	3946	680	24	3	3680	3	CSMD3	8	113326668	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	13766401	113326668	33037354	146	8706										
CSMD3	114788	broad.mit.edu	37	chr8	113649188	113649188	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aagttgaacccgattcgactAccatattgaggaatgccagg	10	9	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:113649188A>G	uc003ynu.2	-	22	3732	c.3573T>C	c.(3571-3573)GGT>GGC	p.G1191G	CSMD3_uc003yns.2_Silent_p.G463G|CSMD3_uc003ynt.2_Silent_p.G1151G|CSMD3_uc011lhx.1_Silent_p.G1087G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1191	Sushi 6.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CGATTCGACTACCATATTGAG	0.443										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			58	82	---	---	---	---	PASS	G	113649188	G	G	113649188	2	3	17	1	0	0	0	0	0	0	0	1	3946	378	14	5		5	CSMD3	8	113649188	Silent	SNP	A	TCGA-18-5592-01A-01D-1632-08	322520	113649188	32714834	147	8707										
CSMD3	114788	broad.mit.edu	37	chr8	113933931	113933931	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acaggtgatgctctttgcgcCctgtaggacataatcttcat	9	10	3	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:113933931C>A	uc003ynu.2	-	10	1717	c.1558G>T	c.(1558-1560)GGC>TGC	p.G520C	CSMD3_uc003ynt.2_Missense_Mutation_p.G480C|CSMD3_uc011lhx.1_Missense_Mutation_p.G416C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	520	Extracellular (Potential).|Sushi 2.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CTCTTTGCGCCCTGTAGGACA	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			48	72	---	---	---	---	PASS	A	113933931	A	A	113933931	3	1	17	1	0	0	0	0	1	0	0	0	3946	623	22	3	9813	3	CSMD3	8	113933931	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	284743	113933931	32430091	148	8708										
RAD21	5885	broad.mit.edu	37	chr8	117859849	117859849	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aaccaagaagctgtagaactTtgcggcagcttgttttctgt	10	8	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:117859849T>C	uc003yod.2	-	14	2074	c.1786A>G	c.(1786-1788)AAG>GAG	p.K596E		NM_006265	NP_006256	O60216	RAD21_HUMAN	RAD21 homolog	596					apoptosis|cell division|chromosome segregation|double-strand break repair|mitotic metaphase/anaphase transition|mitotic prometaphase|protein localization to chromatin|reciprocal meiotic recombination|regulation of transcription from RNA polymerase II promoter	chromosome, centromeric region|cohesin complex|nuclear chromosome|nucleoplasm	protein binding			lung(1)|skin(1)	2	all_cancers(13;1.21e-21)|Lung NSC(37;0.000134)|Ovarian(258;0.0172)					CTGTAGAACTTTGCGGCAGCT	0.423													6	140	---	---	---	---	PASS	C	117859849	C	C	117859849	3	2	17	1	0	0	0	0	1	0	0	0	12981	1850	64	5	113	5	RAD21	8	117859849	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	3925918	117859849	28504173	149	8709										
OC90	729330	broad.mit.edu	37	chr8	133041424	133041424	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	agcagtgatgggacaagcagCacctaagaccaaggaaaacc	11	10	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:133041424C>A	uc003ytg.2	-	12	1034	c.1034G>T	c.(1033-1035)TGC>TTC	p.C345F	OC90_uc011lix.1_Missense_Mutation_p.C345F	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	361	Phospholipase A2-like 2.				lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GGACAAGCAGCACCTAAGACC	0.552													22	66	---	---	---	---	PASS	A	133041424	A	A	133041424	3	1	17	1	0	0	0	0	1	0	0	0	10814	710	25	3	407	3	OC90	8	133041424	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	15181575	133041424	13322598	150	8710										
LRRC6	23639	broad.mit.edu	37	chr8	133637629	133637629	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	attccaagtcatcttcactgTtgtctaatttctttgtgttg	6	8	5	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:133637629T>C	uc003ytk.2	-	6	799	c.725A>G	c.(724-726)AAC>AGC	p.N242S	LRRC6_uc003ytl.2_RNA	NM_012472	NP_036604	Q86X45	LRRC6_HUMAN	leucine rich repeat containing 6	242				Missing (in Ref. 1; AAB02976).		cytoplasm				ovary(1)|kidney(1)	2	Ovarian(258;0.00352)|Esophageal squamous(12;0.00507)|all_neural(3;0.0052)|Medulloblastoma(3;0.0922)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			ATCTTCACTGTTGTCTAATTT	0.388													34	43	---	---	---	---	PASS	C	133637629	C	C	133637629	3	2	17	1	0	0	0	0	1	0	0	0	9016	1725	60	5	703	5	LRRC6	8	133637629	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	596205	133637629	12726393	151	8711										
FAM135B	51059	broad.mit.edu	37	chr8	139164776	139164776	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aatatctaagggctccctcaGggtagaacttagtggatcac	10	9	3	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:139164776G>T	uc003yuy.2	-	13	2113	c.1942C>A	c.(1942-1944)CTG>ATG	p.L648M	FAM135B_uc003yux.2_Missense_Mutation_p.L549M|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.L210M|FAM135B_uc003yvb.2_Missense_Mutation_p.L210M	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	648										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			GGCTCCCTCAGGGTAGAACTT	0.483										HNSCC(54;0.14)			49	79	---	---	---	---	PASS	T	139164776	T	T	139164776	3	4	17	1	0	0	0	0	1	0	0	0	5449	991	35	3	2310	3	FAM135B	8	139164776	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	5527147	139164776	7199246	152	8712										
COL22A1	169044	broad.mit.edu	37	chr8	139658919	139658919	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tggtaggcctggaggcccagCctctccctgtatcagggata	13	12	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:139658919C>A	uc003yvd.2	-	47	3901	c.3454G>T	c.(3454-3456)GCT>TCT	p.A1152S	COL22A1_uc011ljo.1_Missense_Mutation_p.A432S	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1152	Pro-rich.|Gly-rich.|Collagen-like 10.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GGAGGCCCAGCCTCTCCCTGT	0.512										HNSCC(7;0.00092)			4	9	---	---	---	---	PASS	A	139658919	A	A	139658919	3	1	17	1	0	0	0	0	1	0	0	0	3681	739	26	3	1502	3	COL22A1	8	139658919	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	494143	139658919	6705103	153	8713										
COL22A1	169044	broad.mit.edu	37	chr8	139697541	139697541	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	actggccctgggctgccttcTtcccccgctgcaccctggaa	10	18	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:139697541T>A	uc003yvd.2	-	38	3324	c.2877A>T	c.(2875-2877)GAA>GAT	p.E959D	COL22A1_uc011ljo.1_Missense_Mutation_p.E259D	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	959	Pro-rich.|Gly-rich.|Collagen-like 8.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GGCTGCCTTCTTCCCCCGCTG	0.572										HNSCC(7;0.00092)			48	73	---	---	---	---	PASS	A	139697541	A	A	139697541	3	1	17	1	0	0	0	0	1	0	0	0	3681	1606	56	5	2115	5	COL22A1	8	139697541	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	38622	139697541	6666481	154	8714										
PLEC	5339	broad.mit.edu	37	chr8	145002096	145002096	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggcctccttgagctgctcctCgtgggccctgagcacctcct	11	17	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:145002096C>T	uc003zaf.1	-	26	3906	c.3736G>A	c.(3736-3738)GAG>AAG	p.E1246K	PLEC_uc003zab.1_Missense_Mutation_p.E1109K|PLEC_uc003zac.1_Missense_Mutation_p.E1113K|PLEC_uc003zad.2_Missense_Mutation_p.E1109K|PLEC_uc003zae.1_Missense_Mutation_p.E1077K|PLEC_uc003zag.1_Missense_Mutation_p.E1087K|PLEC_uc003zah.2_Missense_Mutation_p.E1095K|PLEC_uc003zaj.2_Missense_Mutation_p.E1136K	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	1246	Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						AGCTGCTCCTCGTGGGCCCTG	0.677													13	15	---	---	---	---	PASS	T	145002096	T	T	145002096	3	4	17	1	0	0	0	0	1	0	0	0	12052	893	31	2	10346	2	PLEC	8	145002096	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	5304555	145002096	1361926	155	8715										
FREM1	158326	broad.mit.edu	37	chr9	14776177	14776177	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcaaacaccccgtgctcggtCcgcagtccattgctgatgat	9	14	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:14776177C>A	uc003zlm.2	-	25	5057	c.4467G>T	c.(4465-4467)CGG>CGT	p.R1489R	FREM1_uc010mic.2_Intron|FREM1_uc003zlk.2_5'Flank|FREM1_uc003zll.2_Silent_p.R25R	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1489	CSPG 11.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		CGTGCTCGGTCCGCAGTCCAT	0.527													27	14	---	---	---	---	PASS	A	14776177	A	A	14776177	2	1	17	1	0	0	0	0	0	0	0	1	6044	842	30	2		2	FREM1	9	14776177	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08		14776177	126437254	156	8716										
PIP5K1B	8395	broad.mit.edu	37	chr9	71503911	71503911	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ttttagtattccatctgcagTgaacctctaatagaactgtc	6	9	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:71503911T>C	uc004agu.2	+	7	638	c.333T>C	c.(331-333)AGT>AGC	p.S111S	PIP5K1B_uc011lrq.1_Silent_p.S111S|PIP5K1B_uc004agv.2_RNA	NM_003558	NP_003549	O14986	PI51B_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	111	PIPK.					endomembrane system|membrane|uropod	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|protein binding			stomach(1)	1				Lung(182;0.133)		CCATCTGCAGTGAACCTCTAA	0.378													76	111	---	---	---	---	PASS	C	71503911	C	C	71503911	2	2	17	1	0	0	0	0	0	0	0	1	11940	1693	59	5		5	PIP5K1B	9	71503911	Silent	SNP	T	TCGA-18-5592-01A-01D-1632-08	56727734	71503911	69709520	157	8717										
VPS13A	23230	broad.mit.edu	37	chr9	79938034	79938034	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcctttaacaaaagtgggacGacgtctgtacactgtaagac	9	9	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:79938034G>C	uc004akr.2	+	45	6142	c.5882G>C	c.(5881-5883)CGA>CCA	p.R1961P	VPS13A_uc004akp.3_Missense_Mutation_p.R1961P|VPS13A_uc004akq.3_Missense_Mutation_p.R1961P|VPS13A_uc004aks.2_Missense_Mutation_p.R1922P|VPS13A_uc004akt.2_Missense_Mutation_p.R301P	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1961					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						AAAGTGGGACGACGTCTGTAC	0.343													28	41	---	---	---	---	PASS	C	79938034	C	C	79938034	3	2	17	1	0	0	0	0	1	0	0	0	17186	1058	37	2	6060	2	VPS13A	9	79938034	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	8434123	79938034	61275397	158	8718										
ZNF483	158399	broad.mit.edu	37	chr9	114304857	114304857	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	atcagcgaattcatactggaGaaaaaccctatacatgtagc	7	9	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:114304857G>C	uc004bff.2	+	6	1866	c.1642G>C	c.(1642-1644)GAA>CAA	p.E548Q	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	548					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						TCATACTGGAGAAAAACCCTA	0.373													22	96	---	---	---	---	PASS	C	114304857	C	C	114304857	3	2	17	1	0	0	0	0	1	0	0	0	17933	943	33	2	1660	2	ZNF483	9	114304857	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	34366823	114304857	26908574	159	8719										
TNC	3371	broad.mit.edu	37	chr9	117849375	117849375	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gctggctgcagtcctcgcccGtgaagccgtcgtcacagatg	13	14	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:117849375G>A	uc004bjj.3	-	3	997	c.635C>T	c.(634-636)ACG>ATG	p.T212M	TNC_uc010mvf.2_Missense_Mutation_p.T212M	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	212	EGF-like 2.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GTCCTCGCCCGTGAAGCCGTC	0.612													4	139	---	---	---	---	PASS	A	117849375	A	A	117849375	3	1	17	1	0	0	0	0	1	0	0	0	16267	1145	40	1	6074	1	TNC	9	117849375	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	3544518	117849375	23364056	160	8720										
TRAF1	7185	broad.mit.edu	37	chr9	123688260	123688260	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acagcagagagccctgggctCctttgggtcctggcagacgg	15	12	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:123688260C>G	uc004bku.1	-	2	666	c.94G>C	c.(94-96)GAG>CAG	p.E32Q	TRAF1_uc010mvl.1_Missense_Mutation_p.E32Q	NM_005658	NP_005649	Q13077	TRAF1_HUMAN	TNF receptor-associated factor 1	32					apoptosis|positive regulation of NF-kappaB transcription factor activity|protein complex assembly|regulation of apoptosis|signal transduction	cytoplasm	protein binding|zinc ion binding			skin(2)|ovary(1)	3						GCCCTGGGCTCCTTTGGGTCC	0.647													22	46	---	---	---	---	PASS	G	123688260	G	G	123688260	3	3	17	1	0	0	0	0	1	0	0	0	16434	864	30	2	1184	2	TRAF1	9	123688260	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	5838885	123688260	17525171	161	8721										
RXRA	6256	broad.mit.edu	37	chr9	137320990	137320990	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	catcgcctccttctcccaccGctccatcgccgtgaaggacg	8	19	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:137320990G>T	uc004cfb.2	+	7	1109	c.947G>T	c.(946-948)CGC>CTC	p.R316L	RXRA_uc004cfc.1_Missense_Mutation_p.R219L	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	316	Ligand-binding.				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)	TTCTCCCACCGCTCCATCGCC	0.682													83	171	---	---	---	---	PASS	T	137320990	T	T	137320990	3	4	17	1	0	0	0	0	1	0	0	0	13763	1087	38	1	973	1	RXRA	9	137320990	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	13632730	137320990	3892441	162	8722										
NOTCH1	4851	broad.mit.edu	37	chr9	139404224	139404224	+	Missense_Mutation	SNP	C	T	T													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgttgttctcacagtggatcCcgctgaagcctgcggggcag							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:139404224C>T	uc004chz.2	-	18	2930	c.2930G>A	c.(2929-2931)GGG>GAG	p.G977E	NOTCH1_uc004cia.1_Missense_Mutation_p.G207E	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	977	Extracellular (Potential).|EGF-like 25; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		ACAGTGGATCCCGCTGAAGCC	0.657			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			90	135	---	---	---	---	PASS	T	139404224	T	T	139404224	3	4	17	1	0	0	0	0	1	0	0	0	10547	623	22	3	4805	3	NOTCH1	9	139404224	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	2083234	139404224	1809207	163	8723	253	2								
NOTCH1	4851	broad.mit.edu	37	chr9	139404225	139404225	+	Missense_Mutation	SNP	C	A	A													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gttgttctcacagtggatccCgctgaagcctgcggggcagg							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:139404225C>A	uc004chz.2	-	18	2929	c.2929G>T	c.(2929-2931)GGG>TGG	p.G977W	NOTCH1_uc004cia.1_Missense_Mutation_p.G207W	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	977	Extracellular (Potential).|EGF-like 25; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CAGTGGATCCCGCTGAAGCCT	0.657			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			90	137	---	---	---	---	PASS	A	139404225	A	A	139404225	3	1	17	1	0	0	0	0	1	0	0	0	10547	652	23	1	4806	1	NOTCH1	9	139404225	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	1	139404225	1809206	164	8724	253	2								
KIAA1217	56243	broad.mit.edu	37	chr10	24727407	24727407	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aactatgaatggagacatgaGggtaagtgtttctgtcatat	11	4	2	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr10:24727407G>T	uc001iru.3	+	5	1248	c.845G>T	c.(844-846)AGG>ATG	p.R282M	KIAA1217_uc001irs.2_Missense_Mutation_p.R202M|KIAA1217_uc001irt.3_Missense_Mutation_p.R282M|KIAA1217_uc010qcy.1_Missense_Mutation_p.R282M|KIAA1217_uc010qcz.1_Missense_Mutation_p.R282M|KIAA1217_uc001irv.1_Missense_Mutation_p.R132M|KIAA1217_uc010qda.1_RNA	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	282					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						GGAGACATGAGGGTAAGTGTT	0.408													51	73	---	---	---	---	PASS	T	24727407	T	T	24727407	3	4	17	1	0	0	0	0	1	0	0	0	8216	1014	35	3	863	3	KIAA1217	10	24727407	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08		24727407	110807340	165	8725										
MYO3A	53904	broad.mit.edu	37	chr10	26414384	26414384	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	agaagctctcacctcccactGtgtggtcactagaggagaaa	10	11	2	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr10:26414384G>T	uc001isn.2	+	19	2321	c.1961G>T	c.(1960-1962)TGT>TTT	p.C654F	MYO3A_uc009xko.1_Missense_Mutation_p.C654F|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	654	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						ACCTCCCACTGTGTGGTCACT	0.418													68	91	---	---	---	---	PASS	T	26414384	T	T	26414384	3	4	17	1	0	0	0	0	1	0	0	0	10076	1377	48	3	2027	3	MYO3A	10	26414384	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1686977	26414384	109120363	166	8726										
ANKRD22	118932	broad.mit.edu	37	chr10	90591649	90591649	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aggaaggaaacgattctcacAtgccctcgcctgcaagcaca	9	13	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr10:90591649A>C	uc001kfj.3	-	2	524	c.156T>G	c.(154-156)CAT>CAG	p.H52Q		NM_144590	NP_653191	Q5VYY1	ANR22_HUMAN	ankyrin repeat domain 22	52	ANK 1.										0		Colorectal(252;0.0163)		Colorectal(12;6.29e-05)|COAD - Colon adenocarcinoma(12;7.69e-05)		CGATTCTCACATGCCCTCGCC	0.458													154	100	---	---	---	---	PASS	C	90591649	C	C	90591649	3	2	17	1	0	0	0	0	1	0	0	0	651	214	8	5	439	5	ANKRD22	10	90591649	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	64177265	90591649	44943098	167	8727										
CARS	833	broad.mit.edu	37	chr11	3022364	3022364	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcactggaagcttccattctGggccatctgcagatattcct	8	12	3	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:3022364G>A	uc001lxh.2	-	22	2301	c.2227C>T	c.(2227-2229)CAG>TAG	p.Q743*	CARS_uc009ydu.2_RNA|CARS_uc001lxe.2_Nonsense_Mutation_p.Q733*|CARS_uc001lxf.2_Nonsense_Mutation_p.Q826*|CARS_uc001lxg.2_3'UTR|CARS_uc010qxo.1_3'UTR|CARS_uc010qxp.1_3'UTR	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	743					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	CTTCCATTCTGGGCCATCTGC	0.522			T	ALK	ALCL								101	51	---	---	---	---	PASS	A	3022364	A	A	3022364	4	1	17	1	0	0	0	0	0	1	0	0	2657	1357	47	3	23	3	CARS	11	3022364	Nonsense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08		3022364	131984152	168	8728										
NAV2	89797	broad.mit.edu	37	chr11	19955123	19955123	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	agagcgaggagctggaggccGccagtcgcatgctcaccacc	14	14	1	1	rs143571074		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:19955123G>A	uc010rdm.1	+	8	1763	c.1402G>A	c.(1402-1404)GCC>ACC	p.A468T	NAV2_uc001mpp.2_Missense_Mutation_p.A381T|NAV2_uc001mpr.3_Missense_Mutation_p.A445T	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	468						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						GCTGGAGGCCGCCAGTCGCAT	0.642													17	183	---	---	---	---	PASS	A	19955123	A	A	19955123	3	1	17	1	0	0	0	0	1	0	0	0	10184	1087	38	1	1438	1	NAV2	11	19955123	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	16932759	19955123	115051393	169	8729										
ANO3	63982	broad.mit.edu	37	chr11	26619912	26619912	+	Frame_Shift_Del	DEL	C	-	-													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	atcatttttatattttatagCcacagtcttcctggagtttt							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:26619912delC	uc001mqt.3	+	15	1593	c.1448delC	c.(1447-1449)GCCfs	p.A483fs	ANO3_uc010rdr.1_Frame_Shift_Del_p.A467fs|ANO3_uc010rds.1_Frame_Shift_Del_p.A322fs|ANO3_uc010rdt.1_Frame_Shift_Del_p.A337fs	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	483	Helical; (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TATTTTATAGCCACAGTCTTC	0.308													87	87	---	---	---	---		-	26619912	-	-	26619912	7	5	17	1	0	1	0	1	0	0	0	0	698	753	26	0	1506	0	ANO3	11	26619912	Frame_Shift_Del	DEL	C	TCGA-18-5592-01A-01D-1632-08	6664789	26619912	108386604	170	8730										
KIF18A	81930	broad.mit.edu	37	chr11	28056982	28056982	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cagtagtcattgccatgtagGatggcaccatgcttggtaca	11	9	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:28056982G>C	uc001msc.2	-	15	2638	c.2456C>G	c.(2455-2457)TCC>TGC	p.S819C		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	819					blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						TGCCATGTAGGATGGCACCAT	0.328													24	74	---	---	---	---	PASS	C	28056982	C	C	28056982	3	2	17	1	0	0	0	0	1	0	0	0	8280	1174	41	2	252	2	KIF18A	11	28056982	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1437070	28056982	106949534	171	8731										
CHRM4	1132	broad.mit.edu	37	chr11	46406689	46406689	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tacctggcagtgccgatgttCcgatactggcacagcagcag	12	12	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:46406689C>T	uc001nct.1	-	1	1419	c.1419G>A	c.(1417-1419)CGG>CGA	p.R473R		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	473	Cytoplasmic (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	TGCCGATGTTCCGATACTGGC	0.602													9	51	---	---	---	---	PASS	T	46406689	T	T	46406689	2	4	17	1	0	0	0	0	0	0	0	1	3379	842	30	2		2	CHRM4	11	46406689	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	18349707	46406689	88599827	172	8732										
FOLH1	2346	broad.mit.edu	37	chr11	49178342	49178342	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acacctcaaaatcatttccaGatcccaatttgcttatcctt	2	13	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:49178342G>T	uc001ngy.2	-	15	1811	c.1550C>A	c.(1549-1551)TCT>TAT	p.S517Y	FOLH1_uc001ngx.2_5'Flank|FOLH1_uc001ngz.2_Missense_Mutation_p.S517Y|FOLH1_uc009yly.2_Missense_Mutation_p.S502Y|FOLH1_uc009ylz.2_Missense_Mutation_p.S502Y|FOLH1_uc009yma.2_Missense_Mutation_p.S209Y	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	517	NAALADase.|Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	ATCATTTCCAGATCCCAATTT	0.333													48	72	---	---	---	---	PASS	T	49178342	T	T	49178342	3	4	17	1	0	0	0	0	1	0	0	0	5979	942	33	2	722	2	FOLH1	11	49178342	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	2771653	49178342	85828174	173	8733										
OR4A5	81318	broad.mit.edu	37	chr11	51411577	51411577	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctcagcatgtgtgtgataatGgtataaaacacagtcatgaa	9	6	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:51411577G>C	uc001nhi.1	-	1	819	c.819C>G	c.(817-819)ACC>ACG	p.T273T		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	273	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				GTGTGATAATGGTATAAAACA	0.323													11	61	---	---	---	---	PASS	C	51411577	C	C	51411577	2	2	17	1	0	0	0	0	0	0	0	1	11043	1335	47	4		4	OR4A5	11	51411577	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	2233235	51411577	83594939	174	8734										
OR4C46	119749	broad.mit.edu	37	chr11	51515751	51515751	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctttcttcatgcaaccatacAgatcctcttcatcttccaat	2	14	5	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:51515751A>G	uc010ric.1	+	1	470	c.470A>G	c.(469-471)CAG>CGG	p.Q157R		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GCAACCATACAGATCCTCTTC	0.468													88	139	---	---	---	---	PASS	G	51515751	G	G	51515751	3	3	17	1	0	0	0	0	1	0	0	0	11051	188	7	5	472	5	OR4C46	11	51515751	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	104174	51515751	83490765	175	8735										
SPRYD5	84767	broad.mit.edu	37	chr11	55656477	55656477	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ttttggagacatattacacaGgtgagtgcacaccaagattt	9	7	0	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:55656477G>T	uc010rip.1	+	5	853	c.761G>T	c.(760-762)AGG>ATG	p.R254M	SPRYD5_uc010riq.1_Missense_Mutation_p.R111M	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	254						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				ATATTACACAGGTGAGTGCAC	0.363													41	72	---	---	---	---	PASS	T	55656477	T	T	55656477	3	4	17	1	0	0	0	0	1	0	0	0	15110	1014	35	3	775	3	SPRYD5	11	55656477	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	4140726	55656477	79350039	176	8736										
OR5M3	219482	broad.mit.edu	37	chr11	56237098	56237098	+	Missense_Mutation	SNP	G	T	T													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	atggcctttttcacatccttGttcctcagactgtagatcat							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:56237098G>T	uc010rjk.1	-	1	876	c.876C>A	c.(874-876)AAC>AAA	p.N292K		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	292	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TCACATCCTTGTTCCTCAGAC	0.393													14	47	---	---	---	---	PASS	T	56237098	T	T	56237098	3	4	17	1	0	0	0	0	1	0	0	0	11175	1368	48	3	49	3	OR5M3	11	56237098	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	580621	56237098	78769418	177	8737	254	2								
OR5M3	219482	broad.mit.edu	37	chr11	56237099	56237099	+	Missense_Mutation	SNP	T	G	G													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tggcctttttcacatccttgTtcctcagactgtagatcatg							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:56237099T>G	uc010rjk.1	-	1	875	c.875A>C	c.(874-876)AAC>ACC	p.N292T		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	292	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CACATCCTTGTTCCTCAGACT	0.393													14	47	---	---	---	---	PASS	G	56237099	G	G	56237099	3	3	17	1	0	0	0	0	1	0	0	0	11175	1725	60	5	50	5	OR5M3	11	56237099	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	1	56237099	78769417	178	8738	254	2								
OR10W1	81341	broad.mit.edu	37	chr11	58034498	58034498	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcctcagggcatagataagtGggttgagcagtggggttccc	15	8	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:58034498G>T	uc001nmq.1	-	1	1235	c.833C>A	c.(832-834)CCA>CAA	p.P278Q		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				ATAGATAAGTGGGTTGAGCAG	0.537													57	125	---	---	---	---	PASS	T	58034498	T	T	58034498	3	4	17	1	0	0	0	0	1	0	0	0	10921	1348	47	3	88	3	OR10W1	11	58034498	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1797399	58034498	76972018	179	8739										
LPXN	9404	broad.mit.edu	37	chr11	58343234	58343234	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cctcaggctcctcactcaccTaactcttccattgtcctaca	3	18	4	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:58343234T>G	uc001nmw.2	-	1	157	c.12A>C	c.(10-12)TTA>TTC	p.L4F	LPXN_uc009ymp.2_5'UTR|LPXN_uc010rkj.1_Intron|LPXN_uc010rkk.1_Intron	NM_004811	NP_004802	O60711	LPXN_HUMAN	leupaxin isoform 2	4	LD motif 1.				cell adhesion|protein complex assembly|signal transduction	cytoplasm	zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				CTCACTCACCTAACTCTTCCA	0.512													39	66	---	---	---	---	PASS	G	58343234	G	G	58343234	3	3	17	1	0	0	0	0	1	0	0	0	8929	1536	53	5	1184	5	LPXN	11	58343234	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	308736	58343234	76663282	180	8740										
TCN1	6947	broad.mit.edu	37	chr11	59620686	59620686	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tctcccttaccttggctcagTggttcgcctccactcagaag	8	15	3	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:59620686T>C	uc001noj.2	-	8	1328	c.1230A>G	c.(1228-1230)CCA>CCG	p.P410P		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	410					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CTTGGCTCAGTGGTTCGCCTC	0.527													197	317	---	---	---	---	PASS	C	59620686	C	C	59620686	2	2	17	1	0	0	0	0	0	0	0	1	15703	1683	59	5		5	TCN1	11	59620686	Silent	SNP	T	TCGA-18-5592-01A-01D-1632-08	1277452	59620686	75385830	181	8741										
PRPF19	27339	broad.mit.edu	37	chr11	60671208	60671208	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gatgtcgatgagctgctcctCggagagaggctggttgttga	16	7	0	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:60671208C>A	uc001nqf.2	-	2	352	c.145G>T	c.(145-147)GAG>TAG	p.E49*		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	49	U-box.				DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						AGCTGCTCCTCGGAGAGAGGC	0.537													52	77	---	---	---	---	PASS	A	60671208	A	A	60671208	4	1	17	1	0	0	0	0	0	1	0	0	12564	893	31	2	1429	2	PRPF19	11	60671208	Nonsense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	1050522	60671208	74335308	182	8742										
FADS3	3995	broad.mit.edu	37	chr11	61643866	61643866	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtcccggtgcttctcgtggcCgatctccttggggatgtggt	15	11	2	0	rs144242985		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:61643866C>A	uc001nsm.2	-	9	1198	c.1045G>T	c.(1045-1047)GGC>TGC	p.G349C	FADS3_uc001nsn.2_Missense_Mutation_p.G225C	NM_021727	NP_068373	Q9Y5Q0	FADS3_HUMAN	fatty acid desaturase 3	349	Cytoplasmic (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|membrane fraction	heme binding|oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water			ovary(1)|pancreas(1)	2						TTCTCGTGGCCGATCTCCTTG	0.652													48	94	---	---	---	---	PASS	A	61643866	A	A	61643866	3	1	17	1	0	0	0	0	1	0	0	0	5367	652	23	1	308	1	FADS3	11	61643866	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	972658	61643866	73362650	183	8743										
CDC42BPG	55561	broad.mit.edu	37	chr11	64601086	64601086	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	actgaccttagcaggaagacCttctgtagaggctgtgttgg	13	8	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:64601086C>T	uc001obs.3	-	23	2611	c.2611G>A	c.(2611-2613)GGT>AGT	p.G871S		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	871					actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						GCAGGAAGACCTTCTGTAGAG	0.657													4	27	---	---	---	---	PASS	T	64601086	T	T	64601086	3	4	17	1	0	0	0	0	1	0	0	0	3074	681	24	3	2104	3	CDC42BPG	11	64601086	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	2957220	64601086	70405430	184	8744										
SNX32	254122	broad.mit.edu	37	chr11	65618619	65618619	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgcgggccgaccgcgtcatgCgcgcccacaagtgtacgcag	14	15	1	0	rs147615662	byFrequency	TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:65618619C>T	uc001ofr.2	+	7	824	c.697C>T	c.(697-699)CGC>TGC	p.R233C		NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B	233					cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		CCGCGTCATGCGCGCCCACAA	0.632											OREG0021087	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	278	---	---	---	---	PASS	T	65618619	T	T	65618619	3	4	17	1	0	0	0	0	1	0	0	0	14902	768	27	1	723	1	SNX32	11	65618619	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	1017533	65618619	69387897	185	8745										
TSGA10IP	254187	broad.mit.edu	37	chr11	65721060	65721060	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gcctgctgcaggcctgggagCggcagcggcaggaggagcgg	21	11	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:65721060C>A	uc001ogk.1	+	7	1206	c.1174C>A	c.(1174-1176)CGG>AGG	p.R392R	TSGA10IP_uc009yqw.1_RNA|TSGA10IP_uc009yqx.1_RNA	NM_152762	NP_689975	Q3SY00	T10IP_HUMAN	testis specific, 10 interacting protein	392	Potential.										0						GGCCTGGGAGCGGCAGCGGCA	0.697													76	91	---	---	---	---	PASS	A	65721060	A	A	65721060	2	1	17	1	0	0	0	0	0	0	0	1	16615	759	27	1		1	TSGA10IP	11	65721060	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	102441	65721060	69285456	186	8746										
XRRA1	143570	broad.mit.edu	37	chr11	74651838	74651838	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aagtcacctgaccttcctccGgcacgcgaagcagatttctg	9	14	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:74651838G>A	uc009yub.2	-	3	418	c.86C>T	c.(85-87)CCG>CTG	p.P29L	XRRA1_uc001ovm.2_Intron|XRRA1_uc001ovo.2_Intron|XRRA1_uc001ovq.3_Missense_Mutation_p.P29L|XRRA1_uc001ovp.3_Intron|XRRA1_uc001ovr.2_Intron	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	29					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						ACCTTCCTCCGGCACGCGAAG	0.502													8	19	---	---	---	---	PASS	A	74651838	A	A	74651838	3	1	17	1	0	0	0	0	1	0	0	0	17458	1116	39	1	2360	1	XRRA1	11	74651838	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	8930778	74651838	60354678	187	8747										
KCTD14	65987	broad.mit.edu	37	chr11	77727789	77727789	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aggtcgctgttgtctaggacCgccttccagggcccaaactt	11	13	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:77727789C>G	uc001oyw.3	-	2	643	c.618G>C	c.(616-618)GCG>GCC	p.A206A		NM_023930	NP_076419	Q9BQ13	KCD14_HUMAN	potassium channel tetramerisation domain	206						voltage-gated potassium channel complex	voltage-gated potassium channel activity	p.A206V(1)		ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1e-24)			TGTCTAGGACCGCCTTCCAGG	0.493													86	126	---	---	---	---	PASS	G	77727789	G	G	77727789	2	3	17	1	0	0	0	0	0	0	0	1	8101	639	23	4		4	KCTD14	11	77727789	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	3075951	77727789	57278727	188	8748										
TMEM133	83935	broad.mit.edu	37	chr11	100863394	100863394	+	Frame_Shift_Del	DEL	G	-	-													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aaaatgtgccagttccacttGgtaataacgttgggaaaatg							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:100863394delG	uc001pgf.2	+	1	584	c.355delG	c.(355-357)GGTfs	p.G119fs		NM_032021	NP_114410	Q9H2Q1	TM133_HUMAN	transmembrane protein 133	119	Helical; (Potential).					integral to membrane					0		Acute lymphoblastic leukemia(157;0.000869)|all_hematologic(158;0.014)		BRCA - Breast invasive adenocarcinoma(274;0.0675)		AGTTCCACTTGGTAATAACGT	0.393													205	112	---	---	---	---		-	100863394	-	-	100863394	7	5	17	1	0	1	0	1	0	0	0	0	16046	1348	47	0	357	0	TMEM133	11	100863394	Frame_Shift_Del	DEL	G	TCGA-18-5592-01A-01D-1632-08	23135605	100863394	34143122	189	8749										
GUCY1A2	2977	broad.mit.edu	37	chr11	106810465	106810465	+	Silent	SNP	G	T	T													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aggtccgcaggaacttgggaGgttccctgtggaaggttctt							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:106810465G>T	uc001pjg.1	-	4	1317	c.927C>A	c.(925-927)ACC>ACA	p.T309T	GUCY1A2_uc010rvo.1_Silent_p.T309T|GUCY1A2_uc009yxn.1_Silent_p.T309T	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	309					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		GAACTTGGGAGGTTCCCTGTG	0.433													30	38	---	---	---	---	PASS	T	106810465	T	T	106810465	2	4	17	1	0	0	0	0	0	0	0	1	6893	987	35	3		3	GUCY1A2	11	106810465	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	5947071	106810465	28196051	190	8750	255	2								
GUCY1A2	2977	broad.mit.edu	37	chr11	106810466	106810466	+	Missense_Mutation	SNP	G	T	T													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggtccgcaggaacttgggagGttccctgtggaaggttcttc							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:106810466G>T	uc001pjg.1	-	4	1316	c.926C>A	c.(925-927)ACC>AAC	p.T309N	GUCY1A2_uc010rvo.1_Missense_Mutation_p.T309N|GUCY1A2_uc009yxn.1_Missense_Mutation_p.T309N	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	309					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		AACTTGGGAGGTTCCCTGTGG	0.433													29	38	---	---	---	---	PASS	T	106810466	T	T	106810466	3	4	17	1	0	0	0	0	1	0	0	0	6893	1261	44	3	1292	3	GUCY1A2	11	106810466	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1	106810466	28196050	191	8751	255	2								
BCL9L	283149	broad.mit.edu	37	chr11	118769595	118769595	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gggggctggttctcgctcttGgggaagtactggagggtgct	19	7	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:118769595G>A	uc001pug.2	-	8	4994	c.4029C>T	c.(4027-4029)CCC>CCT	p.P1343P	BCL9L_uc009zal.2_Silent_p.P1338P	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	1343	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		TCTCGCTCTTGGGGAAGTACT	0.612													59	98	---	---	---	---	PASS	A	118769595	A	A	118769595	2	1	17	1	0	0	0	0	0	0	0	1	1382	1335	47	3		3	BCL9L	11	118769595	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	11959129	118769595	16236921	192	8752										
TECTA	7007	broad.mit.edu	37	chr11	121061508	121061508	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgtctataaatcaggcacgaCctcataattaactcaaggtt	6	9	4	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:121061508C>A	uc010rzo.1	+	23	6461	c.6461C>A	c.(6460-6462)ACC>AAC	p.T2154N		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	2154					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TCAGGCACGACCTCATAATTA	0.358													26	52	---	---	---	---	PASS	A	121061508	A	A	121061508	3	1	17	1	0	0	0	0	1	0	0	0	15744	507	18	3	6551	3	TECTA	11	121061508	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	2291913	121061508	13945008	193	8753										
FLI1	2313	broad.mit.edu	37	chr11	128638130	128638130	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aatggcccccctcctcccaaCatgaccaccaacgagaggag	8	17	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:128638130C>T	uc010sbu.1	+	3	689	c.348C>T	c.(346-348)AAC>AAT	p.N116N	FLI1_uc010sbt.1_Intron|FLI1_uc010sbv.1_Silent_p.N83N|FLI1_uc009zci.2_Silent_p.N50N|FLI1_uc001qen.2_Silent_p.N83N	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1	116	PNT.				hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		CTCCTCCCAACATGACCACCA	0.597			T	EWSR1	Ewing sarcoma								23	42	---	---	---	---	PASS	T	128638130	T	T	128638130	2	4	17	1	0	0	0	0	0	0	0	1	5924	477	17	3		3	FLI1	11	128638130	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	7576622	128638130	6368386	194	8754										
NTM	50863	broad.mit.edu	37	chr11	132205014	132205014	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tctggctgctgcctcttctgGtcttgcacctgcttctcaaa	8	14	5	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:132205014G>T	uc001qgp.2	+	7	1673	c.1009G>T	c.(1009-1011)GTC>TTC	p.V337F	NTM_uc001qgm.2_Missense_Mutation_p.V337F|NTM_uc010sch.1_Missense_Mutation_p.V339F|NTM_uc010sci.1_Missense_Mutation_p.V348F|NTM_uc010scj.1_Missense_Mutation_p.V296F|NTM_uc001qgq.2_Missense_Mutation_p.V348F|NTM_uc001qgr.2_Missense_Mutation_p.V119F	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	337					cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						GCCTCTTCTGGTCTTGCACCT	0.612													23	180	---	---	---	---	PASS	T	132205014	T	T	132205014	3	4	17	1	0	0	0	0	1	0	0	0	10699	1261	44	3	1175	3	NTM	11	132205014	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	3566884	132205014	2801502	195	8755										
GLB1L3	112937	broad.mit.edu	37	chr11	134182735	134182735	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tttggatgagacaatgatagGgattctgaatgagaataata	11	2	1	4			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:134182735G>T	uc009zdf.2	+	15	1814	c.1454G>T	c.(1453-1455)GGG>GTG	p.G485V	GLB1L3_uc001qho.3_RNA	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3	485					carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		ACAATGATAGGGATTCTGAAT	0.517													11	16	---	---	---	---	PASS	T	134182735	T	T	134182735	3	4	17	1	0	0	0	0	1	0	0	0	6430	1232	43	3	1512	3	GLB1L3	11	134182735	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1977721	134182735	823781	196	8756										
SYT10	341359	broad.mit.edu	37	chr12	33560269	33560269	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aacctgcatttgcctcggcaGgtgtcttcggaaggaactgt	12	10	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr12:33560269G>A	uc001rll.1	-	3	829	c.532C>T	c.(532-534)CTG>TTG	p.L178L	SYT10_uc009zju.1_5'UTR	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	178	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					TGCCTCGGCAGGTGTCTTCGG	0.428													6	170	---	---	---	---	PASS	A	33560269	A	A	33560269	2	1	17	1	0	0	0	0	0	0	0	1	15463	991	35	3		3	SYT10	12	33560269	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08		33560269	100291626	197	8757										
VDR	7421	broad.mit.edu	37	chr12	48272874	48272874	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctccagggtcaggcagggaaGtgctggccgccattgcctcc	14	14	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr12:48272874G>A	uc001rqm.2	-	4	305	c.23C>T	c.(22-24)ACT>ATT	p.T8I	VDR_uc001rql.2_Missense_Mutation_p.T58I|VDR_uc001rqn.2_Missense_Mutation_p.T8I|VDR_uc010slq.1_5'UTR	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	8					decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	AGGCAGGGAAGTGCTGGCCGC	0.607													33	65	---	---	---	---	PASS	A	48272874	A	A	48272874	3	1	17	1	0	0	0	0	1	0	0	0	17146	1029	36	3	1292	3	VDR	12	48272874	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	14712605	48272874	85579021	198	8758										
RACGAP1	29127	broad.mit.edu	37	chr12	50388016	50388016	+	Frame_Shift_Del	DEL	C	-	-													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acagatagcatggatatcatCcactttgctgaggaggggta							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr12:50388016delC	uc001rvt.2	-	14	1547	c.1237delG	c.(1237-1239)GATfs	p.D413fs	RACGAP1_uc009zlm.1_Frame_Shift_Del_p.D413fs|RACGAP1_uc001rvs.2_Frame_Shift_Del_p.D413fs|RACGAP1_uc001rvu.2_Frame_Shift_Del_p.D413fs	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1	413	Rho-GAP.				blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						TGGATATCATCCACTTTGCTG	0.448													163	100	---	---	---	---		-	50388016	-	-	50388016	7	5	17	1	0	1	0	1	0	0	0	0	12977	855	30	0	685	0	RACGAP1	12	50388016	Frame_Shift_Del	DEL	C	TCGA-18-5592-01A-01D-1632-08	2115142	50388016	83463879	199	8759										
SILV	6490	broad.mit.edu	37	chr12	56351335	56351335	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aggagaggtcagcttcagccAgatagccactggggtcatgg	15	9	3	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr12:56351335A>T	uc001sip.2	-	6	783	c.752T>A	c.(751-753)CTG>CAG	p.L251Q	SILV_uc001siq.2_Missense_Mutation_p.L251Q|SILV_uc010spx.1_Missense_Mutation_p.L165Q|SILV_uc001sir.2_Missense_Mutation_p.L251Q	NM_006928	NP_008859	P40967	PMEL_HUMAN	silver homolog	251					melanin biosynthetic process|melanosome organization	endoplasmic reticulum membrane|extracellular region|Golgi apparatus|integral to membrane|melanosome|multivesicular body membrane|plasma membrane	protein binding				0						AGCTTCAGCCAGATAGCCACT	0.567													94	137	---	---	---	---	PASS	T	56351335	T	T	56351335	3	4	17	1	0	0	0	0	1	0	0	0	14322	188	7	5	1257	5	SILV	12	56351335	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	5963319	56351335	77500560	200	8760										
SLC24A6	80024	broad.mit.edu	37	chr12	113758149	113758149	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgctcacccagagcccatgcCagggtgaccctgccacggaa	11	16	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr12:113758149C>A	uc001tvc.2	-	7	891	c.681G>T	c.(679-681)CTG>CTT	p.L227L	SLC24A6_uc001tuz.2_5'Flank|SLC24A6_uc001tva.2_RNA|SLC24A6_uc001tvb.2_Intron	NM_024959	NP_079235	Q6J4K2	NCKX6_HUMAN	solute carrier family 24 member 6 precursor	227	Helical; Name=5; (Potential).				response to stimulus|sodium ion transport	integral to membrane|plasma membrane	calcium:cation antiporter activity			central_nervous_system(1)	1						GAGCCCATGCCAGGGTGACCC	0.612													115	186	---	---	---	---	PASS	A	113758149	A	A	113758149	2	1	17	1	0	0	0	0	0	0	0	1	14470	581	21	3		3	SLC24A6	12	113758149	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	57406814	113758149	20093746	201	8761										
RFC5	5985	broad.mit.edu	37	chr12	118465787	118465787	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	agttgaaaactctgaaggggTtggcactgcatgatatcctg	12	7	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr12:118465787T>A	uc001twq.2	+	9	948	c.823T>A	c.(823-825)TTG>ATG	p.L275M	RFC5_uc010syx.1_Missense_Mutation_p.L254M|RFC5_uc010syy.1_Missense_Mutation_p.L254M|RFC5_uc010syz.1_Missense_Mutation_p.L190M|RFC5_uc009zwr.2_Missense_Mutation_p.L272M	NM_007370	NP_031396	P40937	RFC5_HUMAN	replication factor C 5 isoform 1	275					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCTGAAGGGGTTGGCACTGCA	0.428													71	100	---	---	---	---	PASS	A	118465787	A	A	118465787	3	1	17	1	0	0	0	0	1	0	0	0	13248	1722	60	5	863	5	RFC5	12	118465787	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	4707638	118465787	15386108	202	8762										
ATP8A2	51761	broad.mit.edu	37	chr13	26145830	26145830	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ttctcagtcatcatagaagcGgtgagtaacatgcgtgtgca	11	8	3	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:26145830G>A	uc001uqk.2	+	18	1804	c.1662G>A	c.(1660-1662)GCG>GCA	p.A554A	ATP8A2_uc010tdi.1_Silent_p.A514A|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Silent_p.A64A|ATP8A2_uc001uql.1_Silent_p.A514A	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	514	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		TCATAGAAGCGGTGAGTAACA	0.423													83	118	---	---	---	---	PASS	A	26145830	A	A	26145830	2	1	17	1	0	0	0	0	0	0	0	1	1193	1130	39	1		1	ATP8A2	13	26145830	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08		26145830	89024048	203	8763										
CDX2	1045	broad.mit.edu	37	chr13	28542705	28542705	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggcggcagcggtggcggcggGcccaggagggccggggttga	24	10	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:28542705G>T	uc001urv.2	-	1	613	c.439C>A	c.(439-441)CCC>ACC	p.P147T		NM_001265	NP_001256	Q99626	CDX2_HUMAN	caudal type homeobox 2	147					organ morphogenesis|transcription from RNA polymerase II promoter		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(110;0.191)|all_hematologic(3;0.0447)|Acute lymphoblastic leukemia(6;0.155)	Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0407)|all cancers(112;0.0491)|OV - Ovarian serous cystadenocarcinoma(117;0.199)		GTGGCGGCGGGCCCAGGAGGG	0.612			T	ETV6	AML								15	16	---	---	---	---	PASS	T	28542705	T	T	28542705	3	4	17	1	0	0	0	0	1	0	0	0	3183	1203	42	3	514	3	CDX2	13	28542705	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	2396875	28542705	86627173	204	8764										
FLT3	2322	broad.mit.edu	37	chr13	28608124	28608124	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aaagcacctgatcctagtacCttccctgcaaagacaaatgg	7	12	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:28608124C>A	uc001urw.2	-	15	1924	c.1842G>T	c.(1840-1842)AAG>AAT	p.K614N	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Missense_Mutation_p.K614N	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	614	Protein kinase.|Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity	p.G613_K614ins17(2)|p.G613_K614ins16(2)|p.G613_K614ins28(1)|p.K614K(1)|p.K614_V615ins15(1)|p.G613_K614ins22(1)|p.G613_K614ins23(1)|p.G613_K614ins15(1)|p.G613_K614ins33(1)|p.K614_V615ins35(1)|p.K614_V615ins36(1)|p.K614_V615ins30(1)		haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	ATCCTAGTACCTTCCCTGCAA	0.403			Mis|O		AML|ALL								116	170	---	---	---	---	PASS	A	28608124	A	A	28608124	3	1	17	1	0	0	0	0	1	0	0	0	5942	680	24	3	1179	3	FLT3	13	28608124	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	65419	28608124	86561754	205	8765										
FLT1	2321	broad.mit.edu	37	chr13	29041090	29041090	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tttccttcttctttgaagtaGgtacagctagatatttgcag	8	7	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:29041090G>C	uc001usb.3	-	3	623	c.338C>G	c.(337-339)CCT>CGT	p.P113R	FLT1_uc010aar.1_Missense_Mutation_p.P113R|FLT1_uc001usc.3_Missense_Mutation_p.P113R|FLT1_uc010tdp.1_Missense_Mutation_p.P113R|FLT1_uc001usd.2_Missense_Mutation_p.P113R	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	113	Ig-like C2-type 1.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	CTTTGAAGTAGGTACAGCTAG	0.378													57	78	---	---	---	---	PASS	C	29041090	C	C	29041090	3	2	17	1	0	0	0	0	1	0	0	0	5941	1000	35	4	4053	4	FLT1	13	29041090	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	432966	29041090	86128788	206	8766										
FREM2	341640	broad.mit.edu	37	chr13	39448720	39448720	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gcttatttgtgctgtcacatCccggtaagccccgttatctt	8	12	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:39448720C>G	uc001uwv.2	+	18	8587	c.8278C>G	c.(8278-8280)CCC>GCC	p.P2760A		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2760	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GCTGTCACATCCCGGTAAGCC	0.488													44	97	---	---	---	---	PASS	G	39448720	G	G	39448720	3	3	17	1	0	0	0	0	1	0	0	0	6045	855	30	2	8348	2	FREM2	13	39448720	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	10407630	39448720	75721158	207	8767										
LCP1	3936	broad.mit.edu	37	chr13	46733098	46733098	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	caagtcattcaactcattgaAgctgatgtatccattgccat	6	10	3	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:46733098A>T	uc001vaz.3	-	3	217	c.91T>A	c.(91-93)TTC>ATC	p.F31I	LCP1_uc001vba.3_Missense_Mutation_p.F31I	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	31	1 (By similarity).|EF-hand 1.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		AACTCATTGAAGCTGATGTAT	0.433			T	BCL6	NHL 								91	127	---	---	---	---	PASS	T	46733098	T	T	46733098	3	4	17	1	0	0	0	0	1	0	0	0	8691	72	3	5	1848	5	LCP1	13	46733098	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	7284378	46733098	68436780	208	8768										
FNDC3A	22862	broad.mit.edu	37	chr13	49772213	49772213	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtgacctgtcttcaagaaatAagcgatgatgagatagaaaa	10	5	2	5			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:49772213A>C	uc001vcm.2	+	22	2891	c.2586A>C	c.(2584-2586)ATA>ATC	p.I862I	FNDC3A_uc001vcn.2_Silent_p.I862I|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcq.2_Silent_p.I806I	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	862	Fibronectin type-III 7.					Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		TTCAAGAAATAAGCGATGATG	0.463													5	139	---	---	---	---	PASS	C	49772213	C	C	49772213	2	2	17	1	0	0	0	0	0	0	0	1	5969	352	13	5		5	FNDC3A	13	49772213	Silent	SNP	A	TCGA-18-5592-01A-01D-1632-08	3039115	49772213	65397665	209	8769										
HNRNPA1L2	144983	broad.mit.edu	37	chr13	53217180	53217180	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaaaagccctgccaaagcaaGagatggctagtgcttcatcc	10	11	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:53217180G>C	uc001vgx.1	+	7	1626	c.553G>C	c.(553-555)GAG>CAG	p.E185Q	HNRNPA1L2_uc001vgy.1_Missense_Mutation_p.E185Q|HNRNPA1L2_uc001vgz.1_Missense_Mutation_p.E185Q	NM_001011724	NP_001011724	Q32P51	RA1L2_HUMAN	heterogeneous nuclear ribonucleoprotein A1-like	185	Globular B domain.				mRNA processing|mRNA transport|RNA splicing	cytoplasm|spliceosomal complex	nucleotide binding|RNA binding				0						GCCAAAGCAAGAGATGGCTAG	0.353													3	99	---	---	---	---	PASS	C	53217180	C	C	53217180	3	2	17	1	0	0	0	0	1	0	0	0	7258	943	33	2	555	2	HNRNPA1L2	13	53217180	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	3444967	53217180	61952698	210	8770										
COL4A2	1284	broad.mit.edu	37	chr13	111138064	111138064	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctgggctgcctgggaggcccGgccacatcaaaggagtcaag	15	12	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:111138064G>T	uc001vqx.2	+	34	3377	c.3088G>T	c.(3088-3090)GGC>TGC	p.G1030C		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	1030	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			TGGGAGGCCCGGCCACATCAA	0.622													49	87	---	---	---	---	PASS	T	111138064	T	T	111138064	3	4	17	1	0	0	0	0	1	0	0	0	3690	1116	39	1	3218	1	COL4A2	13	111138064	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	57920884	111138064	4031814	211	8771										
ARHGEF7	8874	broad.mit.edu	37	chr13	111926211	111926211	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aggtgccagcagccctgggaTtctcgtgctgaccacgggcc	14	14	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:111926211T>C	uc001vrs.2	+	11	1437	c.1187T>C	c.(1186-1188)ATT>ACT	p.I396T	ARHGEF7_uc001vrr.2_Missense_Mutation_p.I375T|ARHGEF7_uc001vrt.2_Missense_Mutation_p.I346T|ARHGEF7_uc010tjn.1_Intron|ARHGEF7_uc001vru.1_Missense_Mutation_p.I218T|ARHGEF7_uc001vrv.3_Missense_Mutation_p.I218T|ARHGEF7_uc001vrw.3_Missense_Mutation_p.I218T|ARHGEF7_uc001vrx.3_Missense_Mutation_p.I218T|ARHGEF7_uc010tjo.1_Missense_Mutation_p.I293T|ARHGEF7_uc010tjp.1_Missense_Mutation_p.I140T|ARHGEF7_uc010agn.1_Missense_Mutation_p.I140T	NM_001113511	NP_001106983	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform c	396	DH.				apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			AGCCCTGGGATTCTCGTGCTG	0.552													55	80	---	---	---	---	PASS	C	111926211	C	C	111926211	3	2	17	1	0	0	0	0	1	0	0	0	911	1493	52	5	1229	5	ARHGEF7	13	111926211	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	788147	111926211	3243667	212	8772										
ATP11A	23250	broad.mit.edu	37	chr13	113473630	113473630	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	atttgtagacgcattacgcgGtccaggacaccaaaggcttc	10	11	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:113473630G>A	uc001vsi.3	+	7	671	c.583G>A	c.(583-585)GTC>ATC	p.V195I	ATP11A_uc001vsj.3_Missense_Mutation_p.V195I|ATP11A_uc001vsm.1_Missense_Mutation_p.V71I	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	195	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				GCATTACGCGGTCCAGGACAC	0.557													55	90	---	---	---	---	PASS	A	113473630	A	A	113473630	3	1	17	1	0	0	0	0	1	0	0	0	1119	1261	44	3	609	3	ATP11A	13	113473630	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1547419	113473630	1696248	213	8773										
F7	2155	broad.mit.edu	37	chr13	113773306	113773306	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acgcccaggagtcctcctgcGagccccatttccctagccca	8	19	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:113773306G>C	uc001vsv.2	+	9	1436	c.1385G>C	c.(1384-1386)CGA>CCA	p.R462P	F7_uc001vsw.2_Missense_Mutation_p.R440P|F7_uc010tjt.1_Missense_Mutation_p.R393P	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	462					anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	GTCCTCCTGCGAGCCCCATTT	0.587													35	52	---	---	---	---	PASS	C	113773306	C	C	113773306	3	2	17	1	0	0	0	0	1	0	0	0	5349	1058	37	2	1419	2	F7	13	113773306	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	299676	113773306	1396572	214	8774										
POTEG	404785	broad.mit.edu	37	chr14	19553635	19553635	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cactgcttcccctggtgcagGgggagcagcaagagcaacgt	14	12	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:19553635G>A	uc001vuz.1	+	1	271	c.219G>A	c.(217-219)AGG>AGA	p.R73R	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	73										ovary(1)	1						CCTGGTGCAGGGGGAGCAGCA	0.582													181	215	---	---	---	---	PASS	A	19553635	A	A	19553635	2	1	17	1	0	0	0	0	0	0	0	1	12266	1223	43	3		3	POTEG	14	19553635	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08		19553635	87795905	215	8775										
OR4N2	390429	broad.mit.edu	37	chr14	20295985	20295985	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tttgaccgctacatcgccatCtgccggcctctgcactatcc	7	17	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:20295985C>G	uc010tkv.1	+	1	378	c.378C>G	c.(376-378)ATC>ATG	p.I126M		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ACATCGCCATCTGCCGGCCTC	0.522													40	216	---	---	---	---	PASS	G	20295985	G	G	20295985	3	3	17	1	0	0	0	0	1	0	0	0	11077	903	32	2	380	2	OR4N2	14	20295985	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	742350	20295985	87053555	216	8776										
OR4K1	79544	broad.mit.edu	37	chr14	20404636	20404636	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gacttcctgtggacaaatttCtttctgtgttctacactgtt	7	9	3	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:20404636C>T	uc001vwj.1	+	1	811	c.811C>T	c.(811-813)CTT>TTT	p.L271F		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	271	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		GGACAAATTTCTTTCTGTGTT	0.418													84	96	---	---	---	---	PASS	T	20404636	T	T	20404636	3	4	17	1	0	0	0	0	1	0	0	0	11067	913	32	2	813	2	OR4K1	14	20404636	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	108651	20404636	86944904	217	8777										
EML5	161436	broad.mit.edu	37	chr14	89192897	89192897	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	taccataccttactctaagtAcagtgaatgagccatccttc	5	12	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:89192897A>G	uc001xxg.2	-	9	1361	c.1175T>C	c.(1174-1176)GTA>GCA	p.V392A		NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	392						cytoplasm|microtubule				ovary(3)	3						TACTCTAAGTACAGTGAATGA	0.353													11	21	---	---	---	---	PASS	G	89192897	G	G	89192897	3	3	17	1	0	0	0	0	1	0	0	0	5100	391	14	5	4902	5	EML5	14	89192897	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	68788261	89192897	18156643	218	8778										
TCL1A	8115	broad.mit.edu	37	chr14	96178685	96178685	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggtcataggcctccccaggaCgacgtcttcccgacgcaaga	11	15	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:96178685C>T	uc001yfc.3	-	2	299	c.169G>A	c.(169-171)GTC>ATC	p.V57I	TCL1A_uc001yfb.3_Missense_Mutation_p.V57I	NM_001098725	NP_001092195	P56279	TCL1A_HUMAN	T-cell leukemia/lymphoma 1A	57					multicellular organismal development	endoplasmic reticulum|microsome				lung(1)	1		all_cancers(154;0.103)		COAD - Colon adenocarcinoma(157;0.205)|Epithelial(152;0.248)		CTCCCCAGGACGACGTCTTCC	0.562			T	TRA@	T-CLL								60	90	---	---	---	---	PASS	T	96178685	T	T	96178685	3	4	17	1	0	0	0	0	1	0	0	0	15701	536	19	1	183	1	TCL1A	14	96178685	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	6985788	96178685	11170855	219	8779										
CCNK	8812	broad.mit.edu	37	chr14	99961958	99961958	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aatttggccagtttggagatGacccaaaggtaagaatgata	11	5	0	4			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:99961958G>A	uc001ygi.3	+	4	533	c.403G>A	c.(403-405)GAC>AAC	p.D135N	CCNK_uc001ygg.3_Missense_Mutation_p.D135N	NM_001099402	NP_001092872	O75909	CCNK_HUMAN	cyclin K isoform 1	135					cell division|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein kinase binding				0		all_cancers(154;0.224)|all_epithelial(191;0.0643)|Melanoma(154;0.0866)				GTTTGGAGATGACCCAAAGGT	0.383													138	174	---	---	---	---	PASS	A	99961958	A	A	99961958	3	1	17	1	0	0	0	0	1	0	0	0	2930	1290	45	2	413	2	CCNK	14	99961958	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	3783273	99961958	7387582	220	8780										
CYFIP1	23191	broad.mit.edu	37	chr15	22940827	22940827	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cgcttcatttcggagctggcGcgctacagcaacagcgaggt	13	12	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:22940827G>C	uc001yus.2	+	11	1196	c.1092G>C	c.(1090-1092)GCG>GCC	p.A364A	CYFIP1_uc001yut.2_Silent_p.A364A|CYFIP1_uc010aya.1_Silent_p.A392A	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	364					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		CGGAGCTGGCGCGCTACAGCA	0.592													23	25	---	---	---	---	PASS	C	22940827	C	C	22940827	2	2	17	1	0	0	0	0	0	0	0	1	4137	1074	38	4		4	CYFIP1	15	22940827	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08		22940827	79590565	221	8781										
C15orf2	23742	broad.mit.edu	37	chr15	24923727	24923727	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	attccacacttggggccactGatgggcagcagaagtctgac	12	11	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:24923727G>C	uc001ywo.2	+	1	3187	c.2713G>C	c.(2713-2715)GAT>CAT	p.D905H		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	905					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		TGGGGCCACTGATGGGCAGCA	0.502													88	95	---	---	---	---	PASS	C	24923727	C	C	24923727	3	2	17	1	0	0	0	0	1	0	0	0	1784	1290	45	2	2715	2	C15orf2	15	24923727	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1982900	24923727	77607665	222	8782										
HERC2	8924	broad.mit.edu	37	chr15	28506002	28506002	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	caggttctggcttggtcacgCgcaaggtgtcaaagtgctgg	15	9	3	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:28506002C>A	uc001zbj.2	-	16	2343	c.2237G>T	c.(2236-2238)CGC>CTC	p.R746L	HERC2_uc001zbl.1_Missense_Mutation_p.R441L	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	746	RCC1 5.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CTTGGTCACGCGCAAGGTGTC	0.582													14	57	---	---	---	---	PASS	A	28506002	A	A	28506002	3	1	17	1	0	0	0	0	1	0	0	0	7058	768	27	1	12579	1	HERC2	15	28506002	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	3582275	28506002	74025390	223	8783										
DUOX1	53905	broad.mit.edu	37	chr15	45428573	45428573	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cgctgtgtatgagtggctgcCcagcttcctgcagaaaacac	11	12	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:45428573C>G	uc001zus.1	+	9	1236	c.890C>G	c.(889-891)CCC>CGC	p.P297R	DUOX1_uc001zut.1_Missense_Mutation_p.P297R|DUOX1_uc010bee.1_5'UTR	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	297	Peroxidase-like; mediates peroxidase activity.|Extracellular (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		GAGTGGCTGCCCAGCTTCCTG	0.632													3	63	---	---	---	---	PASS	G	45428573	G	G	45428573	3	3	17	1	0	0	0	0	1	0	0	0	4800	623	22	4	916	4	DUOX1	15	45428573	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	16922571	45428573	57102819	224	8784										
SEMA6D	80031	broad.mit.edu	37	chr15	48063212	48063212	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctagtccgccacctcattccCcattaagtcatgggcatatc	6	15	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:48063212C>T	uc010bek.2	+	19	2812	c.2452C>T	c.(2452-2454)CCA>TCA	p.P818S	SEMA6D_uc001zvw.2_Missense_Mutation_p.P756S|SEMA6D_uc001zvy.2_Missense_Mutation_p.P818S|SEMA6D_uc001zvz.2_Missense_Mutation_p.P762S|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Missense_Mutation_p.P756S|SEMA6D_uc001zwc.2_Missense_Mutation_p.P743S	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	818	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		ACCTCATTCCCCATTAAGTCA	0.488													48	81	---	---	---	---	PASS	T	48063212	T	T	48063212	3	4	17	1	0	0	0	0	1	0	0	0	14042	623	22	3	2565	3	SEMA6D	15	48063212	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	2634639	48063212	54468180	225	8785										
UNC13C	440279	broad.mit.edu	37	chr15	54586201	54586201	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aaggagtcagatgattttctGggacaaacaattgtagaagt	11	4	2	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:54586201G>T	uc002ack.2	+	9	3927	c.3927G>T	c.(3925-3927)CTG>CTT	p.L1309L	UNC13C_uc002acl.2_Silent_p.L139L	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1309	C2 1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ATGATTTTCTGGGACAAACAA	0.348													85	109	---	---	---	---	PASS	T	54586201	T	T	54586201	2	4	17	1	0	0	0	0	0	0	0	1	16983	1335	47	3		3	UNC13C	15	54586201	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	6522989	54586201	47945191	226	8786										
DENND4A	10260	broad.mit.edu	37	chr15	65964148	65964148	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acctccattgcatagttctgGaagatatttgtattactcgc	7	9	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:65964148G>A	uc002aph.2	-	24	4692	c.4314C>T	c.(4312-4314)TTC>TTT	p.F1438F	DENND4A_uc002api.2_Silent_p.F1481F	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	1438					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CATAGTTCTGGAAGATATTTG	0.373													45	93	---	---	---	---	PASS	A	65964148	A	A	65964148	2	1	17	1	0	0	0	0	0	0	0	1	4433	1165	41	2		2	DENND4A	15	65964148	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	11377947	65964148	36567244	227	8787										
AKAP13	11214	broad.mit.edu	37	chr15	86262337	86262337	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gacagagtttcatcatgtccGcactctcaagatcatgagtg	9	10	4	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:86262337G>A	uc002blv.1	+	23	6202	c.6032G>A	c.(6031-6033)CGC>CAC	p.R2011H	AKAP13_uc002blu.1_Missense_Mutation_p.R2015H|AKAP13_uc010bnf.1_Missense_Mutation_p.R632H|AKAP13_uc002blw.1_Missense_Mutation_p.R476H|AKAP13_uc002blx.1_Missense_Mutation_p.R256H	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2011	Interaction with ESR1.|DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CATCATGTCCGCACTCTCAAG	0.458													4	96	---	---	---	---	PASS	A	86262337	A	A	86262337	3	1	17	1	0	0	0	0	1	0	0	0	449	1087	38	1	6188	1	AKAP13	15	86262337	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	20298189	86262337	16269055	228	8788										
OR4F6	390648	broad.mit.edu	37	chr15	102346039	102346039	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtgttctatgtgtcaagcctGatgggaaatctcctcattgt	10	8	4	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:102346039G>T	uc010utr.1	+	1	117	c.117G>T	c.(115-117)CTG>CTT	p.L39L		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			TGTCAAGCCTGATGGGAAATC	0.488													117	304	---	---	---	---	PASS	T	102346039	T	T	102346039	2	4	17	1	0	0	0	0	0	0	0	1	11066	1277	45	2		2	OR4F6	15	102346039	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	16083702	102346039	185353	229	8789										
C16orf11	146325	broad.mit.edu	37	chr16	614874	614874	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cctgggacagttggggcccgCggggggcctggccccgagac	19	14	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr16:614874C>A	uc002chk.2	+	3	1562	c.1283C>A	c.(1282-1284)GCG>GAG	p.A428E	NHLRC4_uc002chl.2_5'Flank|PIGQ_uc010bqw.2_5'Flank	NM_145270	NP_660313	P0CG20	CP011_HUMAN	hypothetical protein LOC146325	428										central_nervous_system(1)	1						TTGGGGCCCGCGGGGGGCCTG	0.726													10	7	---	---	---	---	PASS	A	614874	A	A	614874	3	1	17	1	0	0	0	0	1	0	0	0	1810	768	27	1	1289	1	C16orf11	16	614874	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08		614874	89739879	230	8790										
TPSD1	23430	broad.mit.edu	37	chr16	1306282	1306282	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaggcccggccaggcccacgAtgctcctccttgctccccag	11	19	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr16:1306282A>T	uc002clb.1	+	1	10	c.1A>T	c.(1-3)ATG>TTG	p.M1L	TPSD1_uc010brm.1_5'Flank	NM_012217	NP_036349	Q9BZJ3	TRYD_HUMAN	tryptase delta 1 precursor	1					proteolysis	extracellular region	serine-type endopeptidase activity				0		Hepatocellular(780;0.00369)				CAGGCCCACGATGCTCCTCCT	0.716													36	113	---	---	---	---	PASS	T	1306282	T	T	1306282	3	4	17	1	0	0	0	0	1	0	0	0	16422	333	12	5	3	5	TPSD1	16	1306282	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	691408	1306282	89048471	231	8791										
GNPTG	84572	broad.mit.edu	37	chr16	1412532	1412532	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gccgatgagctgatcaccccCcaggtaagcgtgcgctcggg	14	14	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr16:1412532C>A	uc002clm.2	+	8	641	c.606C>A	c.(604-606)CCC>CCA	p.P202P		NM_032520	NP_115909	Q9UJJ9	GNPTG_HUMAN	N-acetylglucosamine-1-phosphotransferase, gamma	202						extracellular region|Golgi apparatus	protein binding			central_nervous_system(1)	1		Hepatocellular(780;0.0893)				TGATCACCCCCCAGGTAAGCG	0.662													37	12	---	---	---	---	PASS	A	1412532	A	A	1412532	2	1	17	1	0	0	0	0	0	0	0	1	6546	610	22	3		3	GNPTG	16	1412532	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	106250	1412532	88942221	232	8792										
MAPK8IP3	23162	broad.mit.edu	37	chr16	1814419	1814419	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cctgcgaccgcgaaggagacGgcgagcccaagagcgcccac	14	16	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr16:1814419G>T	uc002cmk.2	+	19	2356	c.2236G>T	c.(2236-2238)GGC>TGC	p.G746C	MAPK8IP3_uc002cml.2_Missense_Mutation_p.G740C|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.G747C	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	746					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						CGAAGGAGACGGCGAGCCCAA	0.662													12	3	---	---	---	---	PASS	T	1814419	T	T	1814419	3	4	17	1	0	0	0	0	1	0	0	0	9286	1116	39	1	2326	1	MAPK8IP3	16	1814419	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	401887	1814419	88540334	233	8793										
VAT1L	57687	broad.mit.edu	37	chr16	77918563	77918563	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgaggagaacaaagtcatcgCggggttttcccttttaaatc	10	8	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr16:77918563C>A	uc002ffg.1	+	7	1038	c.941C>A	c.(940-942)GCG>GAG	p.A314E		NM_020927	NP_065978	Q9HCJ6	VAT1L_HUMAN	vesicle amine transport protein 1 homolog (T.	314							oxidoreductase activity|zinc ion binding			central_nervous_system(1)	1						AAAGTCATCGCGGGGTTTTCC	0.502													20	10	---	---	---	---	PASS	A	77918563	A	A	77918563	3	1	17	1	0	0	0	0	1	0	0	0	17127	768	27	1	967	1	VAT1L	16	77918563	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	76104144	77918563	12436190	234	8794										
PITPNM3	83394	broad.mit.edu	37	chr17	6380497	6380497	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gctgagacgcttgctgctggCcaggctgcaatcttcctcca	11	14	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:6380497C>A	uc002gdd.3	-	9	1088	c.937G>T	c.(937-939)GCC>TCC	p.A313S	PITPNM3_uc010cln.2_Missense_Mutation_p.A277S|PITPNM3_uc002gdc.3_5'UTR	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	313	Ser-rich.				phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		TTGCTGCTGGCCAGGCTGCAA	0.587													4	95	---	---	---	---	PASS	A	6380497	A	A	6380497	3	1	17	1	0	0	0	0	1	0	0	0	11952	739	26	3	2035	3	PITPNM3	17	6380497	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08		6380497	74814713	235	8795										
TP53	7157	broad.mit.edu	37	chr17	7578394	7578394	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cgctatctgagcagcgctcaTggtgggggcagcgcctcaca	14	13	3	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:7578394T>A	uc002gim.2	-	5	730	c.536A>T	c.(535-537)CAT>CTT	p.H179L	TP53_uc002gig.1_Missense_Mutation_p.H179L|TP53_uc002gih.2_Missense_Mutation_p.H179L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H47L|TP53_uc010cng.1_Missense_Mutation_p.H47L|TP53_uc002gii.1_Missense_Mutation_p.H47L|TP53_uc010cnh.1_Missense_Mutation_p.H179L|TP53_uc010cni.1_Missense_Mutation_p.H179L|TP53_uc002gij.2_Missense_Mutation_p.H179L|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.H86L|TP53_uc002gio.2_Missense_Mutation_p.H47L|TP53_uc010vug.1_Missense_Mutation_p.H140L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	179	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	H -> Q (in sporadic cancers; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|HH -> QS (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> D (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> Y (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H179R(99)|p.H179Y(74)|p.H179L(31)|p.H179Q(17)|p.H179N(13)|p.H179D(10)|p.P177_C182delPHHERC(8)|p.0?(7)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.H179P(3)|p.R175_E180delRCPHHE(3)|p.H179fs*68(2)|p.H179H(2)|p.P177fs*3(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.K164_P219del(1)|p.C176fs*65(1)|p.P177_H179delPHH(1)|p.V173fs*23(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.H179del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.H178fs*6(1)|p.P177_E180delPHHE(1)|p.R42fs*24(1)|p.E171fs*1(1)|p.R174fs*3(1)|p.H178_H179>QY(1)|p.E171fs*61(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCAGCGCTCATGGTGGGGGCA	0.642		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			93	21	---	---	---	---	PASS	A	7578394	A	A	7578394	3	1	17	1	0	0	0	0	1	0	0	0	16378	1464	51	5	762	5	TP53	17	7578394	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	1197897	7578394	73616816	236	8796										
MYH2	4620	broad.mit.edu	37	chr17	10450873	10450873	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgagtcatcatggccatatcCtcgatcttgtcatatttggg	9	9	4	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:10450873C>G	uc010coi.2	-	4	395	c.267G>C	c.(265-267)GAG>GAC	p.E89D	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.E89D|MYH2_uc010coj.2_Missense_Mutation_p.E89D	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	89	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TGGCCATATCCTCGATCTTGT	0.468													97	182	---	---	---	---	PASS	G	10450873	G	G	10450873	3	3	17	1	0	0	0	0	1	0	0	0	10035	680	24	4	5706	4	MYH2	17	10450873	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	2872479	10450873	70744337	237	8797										
MYH3	4621	broad.mit.edu	37	chr17	10554936	10554936	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ccacctcggggttgtacaccGgcagccacttgtaggggttg	14	12	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:10554936G>C	uc002gmq.1	-	4	475	c.398C>G	c.(397-399)CCG>CGG	p.P133R		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	133	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						GTTGTACACCGGCAGCCACTT	0.527													79	117	---	---	---	---	PASS	C	10554936	C	C	10554936	3	2	17	1	0	0	0	0	1	0	0	0	10036	1116	39	4	5572	4	MYH3	17	10554936	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	104063	10554936	70640274	238	8798										
COX10	1352	broad.mit.edu	37	chr17	13977644	13977644	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tctctctctattataggttgCgtaggaggctctgtctggta	11	8	4	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:13977644C>T	uc002gof.3	+	2	252	c.48C>T	c.(46-48)TGC>TGT	p.C16C	COX10_uc010vvs.1_5'UTR|COX10_uc010vvt.1_5'UTR	NM_001303	NP_001294	Q12887	COX10_HUMAN	heme A:farnesyltransferase precursor	16					heme a biosynthetic process|heme O biosynthetic process|respiratory chain complex IV assembly	integral to membrane|mitochondrial membrane	protoheme IX farnesyltransferase activity				0		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)		TTATAGGTTGCGTAGGAGGCT	0.418													66	121	---	---	---	---	PASS	T	13977644	T	T	13977644	2	4	17	1	0	0	0	0	0	0	0	1	3762	776	27	1		1	COX10	17	13977644	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	3422708	13977644	67217566	239	8799										
ZNF286A	57335	broad.mit.edu	37	chr17	15619515	15619515	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaagcagcccttgaatgtgaAaattggttagagaatcagca	11	6	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:15619515A>T	uc010cot.2	+	6	873	c.477A>T	c.(475-477)GAA>GAT	p.E159D	ZNF286A_uc002goz.3_Missense_Mutation_p.E47D|ZNF286A_uc010vwa.1_Missense_Mutation_p.E159D|ZNF286A_uc002gpa.2_Missense_Mutation_p.E159D	NM_001130842	NP_001124314	Q9HBT8	Z286A_HUMAN	zinc finger protein 286	159					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(1115;0.0222)|BRCA - Breast invasive adenocarcinoma(8;0.0781)		TTGAATGTGAAAATTGGTTAG	0.388													49	83	---	---	---	---	PASS	T	15619515	T	T	15619515	3	4	17	1	0	0	0	0	1	0	0	0	17820	11	1	5	495	5	ZNF286A	17	15619515	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	1641871	15619515	65575695	240	8800										
CORO6	84940	broad.mit.edu	37	chr17	27944061	27944061	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	actggctcctcgaagttgttCtgcccgagcacaggaggcgt	13	12	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:27944061C>T	uc002hel.2	-	6	756	c.754_splice	c.e6-1	p.N252_splice	CORO6_uc002hem.2_Splice_Site_p.N18_splice|CORO6_uc002hen.2_Splice_Site_p.N18_splice	NM_032854	NP_116243	Q6QEF8	CORO6_HUMAN	coronin 6						actin cytoskeleton organization	actin cytoskeleton	actin filament binding				0						CGAAGTTGTTCTGCCCGAGCA	0.607													38	158	---	---	---	---	PASS	T	27944061	T	T	27944061	5	4	17	1	0	0	0	0	0	0	1	0	3758	927	32	2	685	2	CORO6	17	27944061	Splice_Site	SNP	C	TCGA-18-5592-01A-01D-1632-08	12324546	27944061	53251149	241	8801										
NF1	4763	broad.mit.edu	37	chr17	29527583	29527583	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gataactctgtcattttcctActtgttcagtccatggtggt	8	9	3	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:29527583A>G	uc002hgg.2	+	9	1365	c.1032A>G	c.(1030-1032)CTA>CTG	p.L344L	NF1_uc002hge.1_Silent_p.L344L|NF1_uc002hgf.1_Silent_p.L344L|NF1_uc002hgh.2_Silent_p.L344L|NF1_uc010csn.1_Silent_p.L204L	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	344					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TCATTTTCCTACTTGTTCAGT	0.353			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			66	96	---	---	---	---	PASS	G	29527583	G	G	29527583	2	3	17	1	0	0	0	0	0	0	0	1	10356	378	14	5		5	NF1	17	29527583	Silent	SNP	A	TCGA-18-5592-01A-01D-1632-08	1583522	29527583	51667627	242	8802										
MMP28	79148	broad.mit.edu	37	chr17	34105972	34105972	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgatcctctcagcccaggccGcataactgttggtatctgta	9	12	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:34105972G>A	uc002hjy.1	-	3	558	c.299C>T	c.(298-300)GCG>GTG	p.A100V	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA|MMP28_uc002hka.2_Missense_Mutation_p.A100V	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	100					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		AGCCCAGGCCGCATAACTGTT	0.567													4	124	---	---	---	---	PASS	A	34105972	A	A	34105972	3	1	17	1	0	0	0	0	1	0	0	0	9665	1087	38	1	1300	1	MMP28	17	34105972	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	4578389	34105972	47089238	243	8803										
KLHL11	55175	broad.mit.edu	37	chr17	40021526	40021526	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cctcggcggccagtcctgccGagccggcggcggccgtctcc	15	19	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:40021526G>A	uc002hyf.1	-	1	104	c.98C>T	c.(97-99)TCG>TTG	p.S33L		NM_018143	NP_060613	Q9NVR0	KLH11_HUMAN	kelch-like 11 precursor	33						extracellular region					0		Breast(137;0.00156)				CAGTCCTGCCGAGCCGGCGGC	0.547													18	26	---	---	---	---	PASS	A	40021526	A	A	40021526	3	1	17	1	0	0	0	0	1	0	0	0	8367	1059	37	2	2036	2	KLHL11	17	40021526	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	5915554	40021526	41173684	244	8804										
GHDC	84514	broad.mit.edu	37	chr17	40345412	40345412	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gggcctgctgctggctctggTgcacatggagcgtgctctgc	16	12	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:40345412T>G	uc002hzd.2	-	2	672	c.188A>C	c.(187-189)CAC>CCC	p.H63P	GHDC_uc002hzg.1_Missense_Mutation_p.H63P|GHDC_uc010wgg.1_Missense_Mutation_p.H63P|GHDC_uc002hze.3_Missense_Mutation_p.H63P|GHDC_uc002hzf.3_Missense_Mutation_p.H63P|GHDC_uc010cxz.2_RNA	NM_032484	NP_115873	Q8N2G8	GHDC_HUMAN	LGP1 homolog isoform 1	63						endoplasmic reticulum|nuclear envelope					0		all_cancers(22;0.000229)|Breast(137;0.00104)|all_epithelial(22;0.00304)		BRCA - Breast invasive adenocarcinoma(366;0.124)		CTGGCTCTGGTGCACATGGAG	0.677													6	17	---	---	---	---	PASS	G	40345412	G	G	40345412	3	3	17	1	0	0	0	0	1	0	0	0	6369	1696	59	5	1525	5	GHDC	17	40345412	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	323886	40345412	40849798	245	8805										
COASY	80347	broad.mit.edu	37	chr17	40717012	40717012	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gttgtccagatattctccatAaagatggcatcatcaacagg	8	9	3	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:40717012A>T	uc002hzz.2	+	6	1406	c.1249A>T	c.(1249-1251)AAA>TAA	p.K417*	COASY_uc010cyj.2_Nonsense_Mutation_p.K446*|COASY_uc002iab.2_Nonsense_Mutation_p.K122*|COASY_uc002iad.2_Nonsense_Mutation_p.K417*|COASY_uc002iac.2_Nonsense_Mutation_p.K417*|COASY_uc002iae.2_Nonsense_Mutation_p.K212*|MLX_uc002iaf.2_5'Flank|MLX_uc002iag.2_5'Flank|MLX_uc002iah.2_5'Flank	NM_001042529	NP_001035994	Q13057	COASY_HUMAN	coenzyme A synthase isoform a	417	DPCK.				coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial outer membrane	ATP binding|dephospho-CoA kinase activity|pantetheine-phosphate adenylyltransferase activity				0		all_cancers(22;1.06e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)		TATTCTCCATAAAGATGGCAT	0.502													110	127	---	---	---	---	PASS	T	40717012	T	T	40717012	4	4	17	1	0	0	0	0	0	1	0	0	3652	363	13	5	1358	5	COASY	17	40717012	Nonsense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	371600	40717012	40478198	246	8806										
BRCA1	672	broad.mit.edu	37	chr17	41246321	41246321	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	agaacgtccaatacatcagcTactttggcatttgattcaga	7	9	2	3	rs149349675		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:41246321T>A	uc002icq.2	-	10	1459	c.1227A>T	c.(1225-1227)GTA>GTT	p.V409V	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Silent_p.V338V|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Silent_p.V362V|BRCA1_uc002ict.2_Silent_p.V409V|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Silent_p.V409V|BRCA1_uc002ide.1_Silent_p.V240V|BRCA1_uc010cyy.1_Silent_p.V409V|BRCA1_uc010whs.1_Silent_p.V409V|BRCA1_uc010cyz.2_Silent_p.V362V|BRCA1_uc010cza.2_Silent_p.V383V|BRCA1_uc010wht.1_Silent_p.V113V	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	409					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		ATACATCAGCTACTTTGGCAT	0.388			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			65	129	---	---	---	---	PASS	A	41246321	A	A	41246321	2	1	17	1	0	0	0	0	0	0	0	1	1498	1509	53	5		5	BRCA1	17	41246321	Silent	SNP	T	TCGA-18-5592-01A-01D-1632-08	529309	41246321	39948889	247	8807										
SP2	6668	broad.mit.edu	37	chr17	45994416	45994416	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctctgcgggtggtgcaggcgGcatctgccaccctccccact	12	17	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:45994416G>A	uc002imk.2	+	3	1116	c.979G>A	c.(979-981)GCA>ACA	p.A327T	SP2_uc002iml.2_Missense_Mutation_p.A320T|uc002imm.2_Intron	NM_003110	NP_003101	Q02086	SP2_HUMAN	Sp2 transcription factor	327					immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|histone deacetylase binding|zinc ion binding				0						GGTGCAGGCGGCATCTGCCAC	0.647													4	111	---	---	---	---	PASS	A	45994416	A	A	45994416	3	1	17	1	0	0	0	0	1	0	0	0	14964	1203	42	3	989	3	SP2	17	45994416	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	4748095	45994416	35200794	248	8808										
MED13	9969	broad.mit.edu	37	chr17	60088374	60088374	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aaatctcacttgactgtctgGagcagagatcacaagtcttt	8	9	4	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:60088374G>C	uc002izo.2	-	9	1581	c.1504C>G	c.(1504-1506)CCA>GCA	p.P502A	MED13_uc002izp.2_Missense_Mutation_p.P118A	NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	502					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						TGACTGTCTGGAGCAGAGATC	0.473													50	62	---	---	---	---	PASS	C	60088374	C	C	60088374	3	2	17	1	0	0	0	0	1	0	0	0	9430	1174	41	2	5108	2	MED13	17	60088374	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	14093958	60088374	21106836	249	8809										
AXIN2	8313	broad.mit.edu	37	chr17	63526217	63526217	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcgcttgcttttttgaagtaAtaccttaaaaggaaaaccaa	6	7	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:63526217A>G	uc002jfi.2	-	11	2698	c.2409T>C	c.(2407-2409)TAT>TAC	p.Y803Y	AXIN2_uc002jfh.2_Silent_p.Y738Y	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	803	DIX.				cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						TTTTGAAGTAATACCTTAAAA	0.443									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				5	145	---	---	---	---	PASS	G	63526217	G	G	63526217	2	3	17	1	0	0	0	0	0	0	0	1	1237	108	4	5		5	AXIN2	17	63526217	Silent	SNP	A	TCGA-18-5592-01A-01D-1632-08	3437843	63526217	17668993	250	8810										
CD300E	342510	broad.mit.edu	37	chr17	72613346	72613346	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaattttgcaccagtaagatCcagcatcatcttcattgagg	8	9	3	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:72613346C>A	uc002jlb.1	-	2	340	c.299G>T	c.(298-300)GGA>GTA	p.G100V		NM_181449	NP_852114	Q496F6	CLM2_HUMAN	CD300e molecule precursor	100	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						CCAGTAAGATCCAGCATCATC	0.542													68	133	---	---	---	---	PASS	A	72613346	A	A	72613346	3	1	17	1	0	0	0	0	1	0	0	0	2998	855	30	2	330	2	CD300E	17	72613346	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	9087129	72613346	8581864	251	8811										
LAMA1	284217	broad.mit.edu	37	chr18	7011410	7011410	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggggcctggtagtaaaccccCtcggtcgtgcccctcaagtt	12	14	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:7011410C>A	uc002knm.2	-	25	3670	c.3576G>T	c.(3574-3576)GAG>GAT	p.E1192D	LAMA1_uc010wzj.1_Missense_Mutation_p.E668D	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1192	Laminin IV type A 2.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGTAAACCCCCTCGGTCGTGC	0.607													10	12	---	---	---	---	PASS	A	7011410	A	A	7011410	3	1	17	1	0	0	0	0	1	0	0	0	8605	680	24	3	5807	3	LAMA1	18	7011410	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08		7011410	71065838	252	8812										
ZNF519	162655	broad.mit.edu	37	chr18	14105676	14105676	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tacatttgtaaggtttctctCcagtatgaattttctgatgt	7	6	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:14105676C>A	uc002kst.1	-	3	1016	c.863G>T	c.(862-864)GGA>GTA	p.G288V	ZNF519_uc002ksq.1_Intron|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_Intron	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	288					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGGTTTCTCTCCAGTATGAAT	0.368													52	77	---	---	---	---	PASS	A	14105676	A	A	14105676	3	1	17	1	0	0	0	0	1	0	0	0	17961	855	30	2	763	2	ZNF519	18	14105676	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	7094266	14105676	63971572	253	8813										
KIAA1328	57536	broad.mit.edu	37	chr18	34647324	34647324	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	catctctggtgcatggtggtGgggcactgcaacccattgaa	13	10	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:34647324G>A	uc002kzz.2	+	7	1070	c.1048G>A	c.(1048-1050)GGG>AGG	p.G350R	KIAA1328_uc002lab.2_Missense_Mutation_p.G66R|KIAA1328_uc002lac.1_Missense_Mutation_p.G173R|KIAA1328_uc010dnc.1_RNA|KIAA1328_uc002lad.2_Missense_Mutation_p.G66R	NM_020776	NP_065827	Q86T90	K1328_HUMAN	hypothetical protein LOC57536	350										central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)		GCATGGTGGTGGGGCACTGCA	0.453													18	22	---	---	---	---	PASS	A	34647324	A	A	34647324	3	1	17	1	0	0	0	0	1	0	0	0	8225	1348	47	3	1074	3	KIAA1328	18	34647324	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	20541648	34647324	43429924	254	8814										
SLC14A1	6563	broad.mit.edu	37	chr18	43310350	43310350	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggttaggggtgaaaaccaggTttcgccatgtcaagggagaa	15	6	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:43310350T>A	uc010xcn.1	+	4	384	c.65T>A	c.(64-66)GTT>GAT	p.V22D	SLC14A1_uc010dnk.2_Missense_Mutation_p.V78D|SLC14A1_uc002lbf.3_Missense_Mutation_p.V22D|SLC14A1_uc002lbg.3_RNA|SLC14A1_uc010xco.1_Intron|SLC14A1_uc002lbh.3_Intron|SLC14A1_uc002lbi.3_Intron|SLC14A1_uc002lbj.3_Missense_Mutation_p.V78D|SLC14A1_uc002lbk.3_Missense_Mutation_p.V22D	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	22						integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						GAAAACCAGGTTTCGCCATGT	0.507													9	100	---	---	---	---	PASS	A	43310350	A	A	43310350	3	1	17	1	0	0	0	0	1	0	0	0	14396	1725	60	5	239	5	SLC14A1	18	43310350	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	8663026	43310350	34766898	255	8815										
SLC14A1	6563	broad.mit.edu	37	chr18	43329813	43329813	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cctcatcatgaccacaaaaaAttccaacatctacaagatgc	3	13	3	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:43329813A>G	uc010xcn.1	+	11	1386	c.1067A>G	c.(1066-1068)AAT>AGT	p.N356S	SLC14A1_uc010dnk.2_Missense_Mutation_p.N412S|SLC14A1_uc002lbf.3_Missense_Mutation_p.N356S|SLC14A1_uc002lbg.3_RNA|SLC14A1_uc010xco.1_Missense_Mutation_p.N251S|SLC14A1_uc002lbh.3_Missense_Mutation_p.N248S|SLC14A1_uc002lbi.3_Missense_Mutation_p.N224S|SLC14A1_uc002lbj.3_Missense_Mutation_p.N412S|SLC14A1_uc002lbk.3_Missense_Mutation_p.N356S	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	356						integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						ACCACAAAAAATTCCAACATC	0.468													5	173	---	---	---	---	PASS	G	43329813	G	G	43329813	3	3	17	1	0	0	0	0	1	0	0	0	14396	101	4	5	1269	5	SLC14A1	18	43329813	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	19463	43329813	34747435	256	8816										
ALPK2	115701	broad.mit.edu	37	chr18	56202301	56202301	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctcttgacctcctctgacccCgtcactgctgtgagggtccc	9	17	3	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:56202301C>G	uc002lhj.3	-	5	5332	c.5118G>C	c.(5116-5118)ACG>ACC	p.T1706T	ALPK2_uc002lhk.1_Silent_p.T1037T	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1706							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						CCTCTGACCCCGTCACTGCTG	0.572													72	102	---	---	---	---	PASS	G	56202301	G	G	56202301	2	3	17	1	0	0	0	0	0	0	0	1	545	639	23	4		4	ALPK2	18	56202301	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	12872488	56202301	21874947	257	8817										
SERPINB2	5055	broad.mit.edu	37	chr18	61570215	61570215	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaagatgaagttgaggtataCataccccagttcaaattaga	9	6	1	4			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:61570215C>G	uc010xeu.1	+	9	1257	c.924C>G	c.(922-924)TAC>TAG	p.Y308*	SERPINB2_uc002ljo.2_Nonsense_Mutation_p.Y308*|SERPINB2_uc010dqh.2_Nonsense_Mutation_p.Y238*|SERPINB2_uc002ljp.1_Intron|SERPINB2_uc002ljq.1_Intron	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	308					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	TTGAGGTATACATACCCCAGT	0.403													26	53	---	---	---	---	PASS	G	61570215	G	G	61570215	4	3	17	1	0	0	0	0	0	1	0	0	14101	489	17	4	950	4	SERPINB2	18	61570215	Nonsense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	5367914	61570215	16507033	258	8818										
CDH7	1005	broad.mit.edu	37	chr18	63477136	63477136	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	caacaaacccgtggagcccgAgtcggagtttgtcatcaaaa	10	11	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:63477136A>G	uc002ljz.2	+	3	732	c.407A>G	c.(406-408)GAG>GGG	p.E136G	CDH7_uc002lka.2_Missense_Mutation_p.E136G|CDH7_uc002lkb.2_Missense_Mutation_p.E136G	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	136	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GTGGAGCCCGAGTCGGAGTTT	0.522													80	107	---	---	---	---	PASS	G	63477136	G	G	63477136	3	3	17	1	0	0	0	0	1	0	0	0	3115	304	11	5	413	5	CDH7	18	63477136	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	1906921	63477136	14600112	259	8819										
ARRDC5	645432	broad.mit.edu	37	chr19	4891305	4891305	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	caaccttggtggtgttgaagCgggtcacgggggtgttggcc	18	8	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:4891305C>G	uc002mbm.2	-	3	782	c.782G>C	c.(781-783)CGC>CCC	p.R261P		NM_001080523	NP_001073992	A6NEK1	ARRD5_HUMAN	arrestin domain containing 5	261					signal transduction						0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0257)		GGTGTTGAAGCGGGTCACGGG	0.627													19	97	---	---	---	---	PASS	G	4891305	G	G	4891305	3	3	17	1	0	0	0	0	1	0	0	0	986	768	27	4	250	4	ARRDC5	19	4891305	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08		4891305	54237678	260	8820										
PTPRS	5802	broad.mit.edu	37	chr19	5212481	5212481	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aaactggaactggcggacctCgcgtttctcactggagccat	11	12	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:5212481C>T	uc002mbv.2	-	31	4870	c.4636G>A	c.(4636-4638)GAG>AAG	p.E1546K	PTPRS_uc002mbu.1_Missense_Mutation_p.E1115K|PTPRS_uc010xin.1_Missense_Mutation_p.E1088K|PTPRS_uc002mbw.2_Missense_Mutation_p.E1508K|PTPRS_uc002mbx.2_Missense_Mutation_p.E1103K|PTPRS_uc002mby.2_Missense_Mutation_p.E1099K	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1546	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.			E -> D (in Ref. 6; AAB21146).	cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		TGGCGGACCTCGCGTTTCTCA	0.468													6	4	---	---	---	---	PASS	T	5212481	T	T	5212481	3	4	17	1	0	0	0	0	1	0	0	0	12811	893	31	2	1242	2	PTPRS	19	5212481	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	321176	5212481	53916502	261	8821										
EMR1	2015	broad.mit.edu	37	chr19	6919585	6919585	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctggtgtggcttttgtctccTttgtgggcatggaatcggtt	14	7	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:6919585T>A	uc002mfw.2	+	13	1485	c.1447T>A	c.(1447-1449)TTT>ATT	p.F483I	EMR1_uc010dvc.2_Missense_Mutation_p.F483I|EMR1_uc010dvb.2_Missense_Mutation_p.F431I|EMR1_uc010xji.1_Missense_Mutation_p.F342I|EMR1_uc010xjj.1_Missense_Mutation_p.F306I	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	483	Ser/Thr-rich.|Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					TTTTGTCTCCTTTGTGGGCAT	0.433													45	105	---	---	---	---	PASS	A	6919585	A	A	6919585	3	1	17	1	0	0	0	0	1	0	0	0	5104	1609	56	5	1497	5	EMR1	19	6919585	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	1707104	6919585	52209398	262	8822										
CLEC4M	10332	broad.mit.edu	37	chr19	7830087	7830087	+	Silent	SNP	C	T	T													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcagggtgtcttggccatggCgccctggtgctgcaactcct							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:7830087C>T	uc002mih.2	+	3	265	c.147C>T	c.(145-147)GGC>GGT	p.G49G	CLEC4M_uc010xjv.1_Intron|CLEC4M_uc002mhy.2_Intron|CLEC4M_uc010xjw.1_Intron|CLEC4M_uc010dvt.2_Silent_p.G49G|CLEC4M_uc010dvs.2_Silent_p.G48G|CLEC4M_uc010xjx.1_Silent_p.G21G|CLEC4M_uc002mhz.2_Silent_p.G49G|CLEC4M_uc002mic.2_Silent_p.G21G|CLEC4M_uc002mia.2_Intron	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	49	Cytoplasmic (Probable).				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						TTGGCCATGGCGCCCTGGTGC	0.637													61	94	---	---	---	---	PASS	T	7830087	T	T	7830087	2	4	17	1	0	0	0	0	0	0	0	1	3518	755	27	1		1	CLEC4M	19	7830087	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	910502	7830087	51298896	263	8823	256	2								
CLEC4M	10332	broad.mit.edu	37	chr19	7830088	7830088	+	Missense_Mutation	SNP	G	C	C													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cagggtgtcttggccatggcGccctggtgctgcaactcctc							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:7830088G>C	uc002mih.2	+	3	266	c.148G>C	c.(148-150)GCC>CCC	p.A50P	CLEC4M_uc010xjv.1_Intron|CLEC4M_uc002mhy.2_Intron|CLEC4M_uc010xjw.1_Intron|CLEC4M_uc010dvt.2_Missense_Mutation_p.A50P|CLEC4M_uc010dvs.2_Missense_Mutation_p.A49P|CLEC4M_uc010xjx.1_Missense_Mutation_p.A22P|CLEC4M_uc002mhz.2_Missense_Mutation_p.A50P|CLEC4M_uc002mic.2_Missense_Mutation_p.A22P|CLEC4M_uc002mia.2_Intron	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	50	Helical; Signal-anchor for type II membrane protein; (Probable).				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						TGGCCATGGCGCCCTGGTGCT	0.632													61	98	---	---	---	---	PASS	C	7830088	C	C	7830088	3	2	17	1	0	0	0	0	1	0	0	0	3518	1087	38	4	158	4	CLEC4M	19	7830088	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1	7830088	51298895	264	8824	256	2								
MUC16	94025	broad.mit.edu	37	chr19	9067600	9067600	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tggagaggtgactttgggtgGttctgagtaggctgggacag	19	4	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:9067600G>C	uc002mkp.2	-	3	20050	c.19846C>G	c.(19846-19848)CCA>GCA	p.P6616A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6618	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACTTTGGGTGGTTCTGAGTAG	0.448													127	154	---	---	---	---	PASS	C	9067600	C	C	9067600	3	2	17	1	0	0	0	0	1	0	0	0	9973	1261	44	4	24005	4	MUC16	19	9067600	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1237512	9067600	50061383	265	8825										
MUC16	94025	broad.mit.edu	37	chr19	9071212	9071212	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	atgatgcatggcggcttctgTgtgtgcagtgtctttgtaag	14	6	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:9071212T>A	uc002mkp.2	-	3	16438	c.16234A>T	c.(16234-16236)ACA>TCA	p.T5412S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5414	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding	p.T5412K(1)		lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCGGCTTCTGTGTGTGCAGTG	0.502													306	323	---	---	---	---	PASS	A	9071212	A	A	9071212	3	1	17	1	0	0	0	0	1	0	0	0	9973	1696	59	5	27617	5	MUC16	19	9071212	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	3612	9071212	50057771	266	8826										
KANK2	25959	broad.mit.edu	37	chr19	11287340	11287340	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gacagctgacactcctgccgGctggtcttggccgctgccgt	13	15	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:11287340G>T	uc010dxv.2	-	9	2232	c.1674C>A	c.(1672-1674)AGC>AGA	p.S558R	KANK2_uc002mqm.2_Missense_Mutation_p.S566R|KANK2_uc002mqo.3_Missense_Mutation_p.S558R|KANK2_uc002mqp.1_Missense_Mutation_p.S367R	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	558											0						ACTCCTGCCGGCTGGTCTTGG	0.627													59	158	---	---	---	---	PASS	T	11287340	T	T	11287340	3	4	17	1	0	0	0	0	1	0	0	0	7977	1194	42	3	909	3	KANK2	19	11287340	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	2216128	11287340	47841643	267	8827										
RLN3	117579	broad.mit.edu	37	chr19	14139032	14139032	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ccagcatggccaggtacatgCtgctgctgctcctggcggta	13	13	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:14139032C>A	uc002mxw.1	+	1	16	c.16C>A	c.(16-18)CTG>ATG	p.L6M	RLN3_uc010dzj.1_Missense_Mutation_p.L6M	NM_080864	NP_543140	Q8WXF3	REL3_HUMAN	relaxin 3 preproprotein	6						extracellular region	hormone activity				0						CAGGTACATGCTGCTGCTGCT	0.637													17	72	---	---	---	---	PASS	A	14139032	A	A	14139032	3	1	17	1	0	0	0	0	1	0	0	0	13393	796	28	3	18	3	RLN3	19	14139032	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	2851692	14139032	44989951	268	8828										
NOTCH3	4854	broad.mit.edu	37	chr19	15302611	15302611	+	Frame_Shift_Del	DEL	C	-	-													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ttgacgccatccacgcatgtCcccccattgagacatcggtg							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:15302611delC	uc002nan.2	-	5	823	c.747delG	c.(745-747)GGGfs	p.G249fs	NOTCH3_uc002nao.1_Frame_Shift_Del_p.G249fs	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	249	Extracellular (Potential).|EGF-like 6; calcium-binding (Potential).		Missing (in CADASIL).		Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CCACGCATGTCCCCCCATTGA	0.622													75	48	---	---	---	---		-	15302611	-	-	15302611	7	5	17	1	0	1	0	1	0	0	0	0	10550	842	30	0	6334	0	NOTCH3	19	15302611	Frame_Shift_Del	DEL	C	TCGA-18-5592-01A-01D-1632-08	1163579	15302611	43826372	269	8829										
CYP4F12	66002	broad.mit.edu	37	chr19	15806829	15806829	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cccagctcccttcatctcccGatgctgcacccaggacattg	7	18	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:15806829G>T	uc002nbl.2	+	10	1260	c.1199G>T	c.(1198-1200)CGA>CTA	p.R400L		NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					TTCATCTCCCGATGCTGCACC	0.612													28	107	---	---	---	---	PASS	T	15806829	T	T	15806829	3	4	17	1	0	0	0	0	1	0	0	0	4187	1058	37	2	1233	2	CYP4F12	19	15806829	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	504218	15806829	43322154	270	8830										
OR10H5	284433	broad.mit.edu	37	chr19	15905405	15905405	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	atttcttctgccacgtgccaCctctgttgaagttggcctgt	9	12	3	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:15905405C>T	uc010xos.1	+	1	547	c.547C>T	c.(547-549)CCT>TCT	p.P183S		NM_001004466	NP_001004466	Q8NGA6	O10H5_HUMAN	olfactory receptor, family 10, subfamily H,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCACGTGCCACCTCTGTTGAA	0.577													38	82	---	---	---	---	PASS	T	15905405	T	T	15905405	3	4	17	1	0	0	0	0	1	0	0	0	10909	507	18	3	549	3	OR10H5	19	15905405	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	98576	15905405	43223578	271	8831										
ZNF626	199777	broad.mit.edu	37	chr19	20807714	20807714	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtagtaagggtataggagtaCttaaaggctttgtcacattc	11	5	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:20807714C>A	uc002npb.1	-	4	1119	c.969G>T	c.(967-969)AAG>AAT	p.K323N	ZNF626_uc002npc.1_Missense_Mutation_p.K247N	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	323	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TATAGGAGTACTTAAAGGCTT	0.388													33	105	---	---	---	---	PASS	A	20807714	A	A	20807714	3	1	17	1	0	0	0	0	1	0	0	0	18047	564	20	3	621	3	ZNF626	19	20807714	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	4902309	20807714	38321269	272	8832										
ZNF257	113835	broad.mit.edu	37	chr19	22256295	22256295	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgctgtctctaagccagaccTgatcacctgtctggagcaag	10	12	3	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:22256295T>G	uc010ecx.2	+	3	324	c.155T>G	c.(154-156)CTG>CGG	p.L52R	ZNF257_uc010ecy.2_Missense_Mutation_p.L20R	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	52	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				AAGCCAGACCTGATCACCTGT	0.418													33	120	---	---	---	---	PASS	G	22256295	G	G	22256295	3	3	17	1	0	0	0	0	1	0	0	0	17797	1580	55	5	165	5	ZNF257	19	22256295	Missense_Mutation	SNP	T	TCGA-18-5592-01A-01D-1632-08	1448581	22256295	36872688	273	8833										
ZNF675	171392	broad.mit.edu	37	chr19	23837199	23837199	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtgaaagcatgcaaaatgatCtgccacattctttacatttg	7	8	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:23837199C>G	uc002nri.2	-	4	718	c.536G>C	c.(535-537)AGA>ACA	p.R179T		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	179	C2H2-type 2; degenerate.				bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				GCAAAATGATCTGCCACATTC	0.299													11	25	---	---	---	---	PASS	G	23837199	G	G	23837199	3	3	17	1	0	0	0	0	1	0	0	0	18079	913	32	2	1174	2	ZNF675	19	23837199	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	1580904	23837199	35291784	274	8834										
KIAA0355	9710	broad.mit.edu	37	chr19	34832958	34832958	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cacgggcaccccaggctgggGcacacacacctctgacaccc	10	19	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:34832958G>A	uc002nvd.3	+	10	2978	c.2119G>A	c.(2119-2121)GCA>ACA	p.A707T		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	707										ovary(1)	1	Esophageal squamous(110;0.162)					CCAGGCTGGGGCACACACACC	0.627													74	78	---	---	---	---	PASS	A	34832958	A	A	34832958	3	1	17	1	0	0	0	0	1	0	0	0	8170	1203	42	3	2153	3	KIAA0355	19	34832958	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	10995759	34832958	24296025	275	8835										
LIN37	55957	broad.mit.edu	37	chr19	36245219	36245219	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gctggaaacgcatccgccagAggtgagcgtcccccagcctg	13	15	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:36245219A>T	uc002obm.2	+	9	772	c.658A>T	c.(658-660)AGG>TGG	p.R220W	uc002obl.2_5'Flank	NM_019104	NP_061977	Q96GY3	LIN37_HUMAN	lin-37 homolog	220							protein binding				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CATCCGCCAGAGGTGAGCGTC	0.632													8	114	---	---	---	---	PASS	T	36245219	T	T	36245219	3	4	17	1	0	0	0	0	1	0	0	0	8807	318	11	5	688	5	LIN37	19	36245219	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	1412261	36245219	22883764	276	8836										
KIRREL2	84063	broad.mit.edu	37	chr19	36351927	36351927	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gggtaacctggacccgccgcGgtggcgcgcaggtacagccc	16	15	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:36351927G>C	uc002ocb.3	+	8	1257	c.1045G>C	c.(1045-1047)GGT>CGT	p.G349R	KIRREL2_uc002obz.3_Missense_Mutation_p.G349R|KIRREL2_uc002oca.3_Missense_Mutation_p.G299R|KIRREL2_uc002occ.3_Missense_Mutation_p.G296R|KIRREL2_uc002ocd.3_Missense_Mutation_p.G346R	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	349	Extracellular (Potential).|Ig-like C2-type 4.				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GACCCGCCGCGGTGGCGCGCA	0.677													10	20	---	---	---	---	PASS	C	36351927	C	C	36351927	3	2	17	1	0	0	0	0	1	0	0	0	8325	1116	39	4	1075	4	KIRREL2	19	36351927	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	106708	36351927	22777056	277	8837										
ZNF566	84924	broad.mit.edu	37	chr19	36940468	36940468	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tacattcaaagggtttcttgCcagtatgaattttctgatga	8	6	3	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:36940468C>G	uc002oea.3	-	5	750	c.668G>C	c.(667-669)GGC>GCC	p.G223A	ZNF566_uc010xte.1_Missense_Mutation_p.G223A|ZNF566_uc010xtf.1_Missense_Mutation_p.G224A|ZNF566_uc002oeb.3_Missense_Mutation_p.G223A|ZNF566_uc002oec.3_Missense_Mutation_p.G119A|ZNF566_uc010xtg.1_Missense_Mutation_p.G119A	NM_032838	NP_116227	Q969W8	ZN566_HUMAN	zinc finger protein 566 isoform 1	223					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					GGGTTTCTTGCCAGTATGAAT	0.388													32	89	---	---	---	---	PASS	G	36940468	G	G	36940468	3	3	17	1	0	0	0	0	1	0	0	0	17994	739	26	4	592	4	ZNF566	19	36940468	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	588541	36940468	22188515	278	8838										
ZNF461	92283	broad.mit.edu	37	chr19	37130357	37130357	+	Missense_Mutation	SNP	C	T	T													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tacattcataaggtttctcaCcagtgtgaattctttgatgt							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:37130357C>T	uc002oem.2	-	6	1118	c.890G>A	c.(889-891)GGT>GAT	p.G297D	ZNF461_uc002oen.2_Missense_Mutation_p.G266D|ZNF461_uc010xtj.1_Missense_Mutation_p.G274D	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	297					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AGGTTTCTCACCAGTGTGAAT	0.383													3	28	---	---	---	---	PASS	T	37130357	T	T	37130357	3	4	17	1	0	0	0	0	1	0	0	0	17922	507	18	3	805	3	ZNF461	19	37130357	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	189889	37130357	21998626	279	8839	257	2								
ZNF461	92283	broad.mit.edu	37	chr19	37130358	37130358	+	Missense_Mutation	SNP	C	G	G													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acattcataaggtttctcacCagtgtgaattctttgatgta							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:37130358C>G	uc002oem.2	-	6	1117	c.889G>C	c.(889-891)GGT>CGT	p.G297R	ZNF461_uc002oen.2_Missense_Mutation_p.G266R|ZNF461_uc010xtj.1_Missense_Mutation_p.G274R	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	297					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GGTTTCTCACCAGTGTGAATT	0.383													3	28	---	---	---	---	PASS	G	37130358	G	G	37130358	3	3	17	1	0	0	0	0	1	0	0	0	17922	594	21	4	806	4	ZNF461	19	37130358	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	1	37130358	21998625	280	8840	257	2								
PAK4	10298	broad.mit.edu	37	chr19	39669214	39669214	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcatgcgccagaaccgcaccAgatgaggcccagcgcccttc	10	17	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:39669214A>T	uc002okj.1	+	11	2232	c.1771A>T	c.(1771-1773)AGA>TGA	p.R591*	PAK4_uc002okl.1_Nonsense_Mutation_p.R591*|PAK4_uc002okn.1_Nonsense_Mutation_p.R591*|PAK4_uc002okm.1_Nonsense_Mutation_p.R438*|PAK4_uc002oko.1_Nonsense_Mutation_p.R438*|PAK4_uc002okp.1_Nonsense_Mutation_p.R501*	NM_001014831	NP_001014831	O96013	PAK4_HUMAN	p21-activated kinase 4 isoform 1	591					cellular component movement|signal transduction	Golgi apparatus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	all_cancers(60;1.03e-07)|all_epithelial(25;9.66e-08)|all_lung(34;1.58e-07)|Lung NSC(34;1.88e-07)|Ovarian(47;0.0454)		Epithelial(26;4.82e-25)|all cancers(26;2.94e-22)|Lung(45;0.000797)|LUSC - Lung squamous cell carcinoma(53;0.00113)			GAACCGCACCAGATGAGGCCC	0.716													28	31	---	---	---	---	PASS	T	39669214	T	T	39669214	4	4	17	1	0	0	0	0	0	1	0	0	11403	180	7	5	1801	5	PAK4	19	39669214	Nonsense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	2538856	39669214	19459769	281	8841										
PRX	57716	broad.mit.edu	37	chr19	40903374	40903374	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gagggcaaggcaggcagctcCacctgggggacctggattcc	16	12	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:40903374C>A	uc002onr.2	-	7	1154	c.885G>T	c.(883-885)GTG>GTT	p.V295V	PRX_uc002onq.2_Silent_p.V156V|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	295					axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CAGGCAGCTCCACCTGGGGGA	0.687													9	9	---	---	---	---	PASS	A	40903374	A	A	40903374	2	1	17	1	0	0	0	0	0	0	0	1	12642	581	21	3		3	PRX	19	40903374	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	1234160	40903374	18225609	282	8842										
MIA	8190	broad.mit.edu	37	chr19	41281517	41281517	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tctccggacctggtgtcaggGgtggtcctatgcccaagctg	14	12	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:41281517G>T	uc002opb.3	+	1	218	c.70G>T	c.(70-72)GGT>TGT	p.G24C	MIA_uc010xvt.1_RNA|RAB4B_uc002opc.1_5'Flank|RAB4B_uc002opd.1_5'Flank|RAB4B_uc002ope.1_5'Flank|EGLN2_uc010ehd.2_5'Flank	NM_006533	NP_006524	Q16674	MIA_HUMAN	melanoma inhibitory activity precursor	24					cell proliferation	extracellular space	growth factor activity				0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)	GBM - Glioblastoma multiforme(1328;0.0199)		TGGTGTCAGGGGTGGTCCTAT	0.612													109	103	---	---	---	---	PASS	T	41281517	T	T	41281517	3	4	17	1	0	0	0	0	1	0	0	0	9563	1232	43	3	72	3	MIA	19	41281517	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	378143	41281517	17847466	283	8843										
CEACAM21	90273	broad.mit.edu	37	chr19	42085842	42085842	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aaccagcgtctgcaggtcacGaagaggatgaagctgtcctg	13	10	2	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:42085842G>A	uc002ore.3	+	3	657	c.561G>A	c.(559-561)ACG>ACA	p.T187T	CEACAM21_uc002orc.1_RNA|CEACAM21_uc002ord.1_RNA|CEACAM21_uc002orf.2_RNA|CEACAM21_uc002org.3_Silent_p.T187T	NM_001098506	NP_001091976	Q3KPI0	CEA21_HUMAN	carcinoembryonic antigen-related cell adhesion	187	Ig-like C2-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1						TGCAGGTCACGAAGAGGATGA	0.532													15	36	---	---	---	---	PASS	A	42085842	A	A	42085842	2	1	17	1	0	0	0	0	0	0	0	1	3192	1045	37	2		2	CEACAM21	19	42085842	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	804325	42085842	17043141	284	8844										
LIPE	3991	broad.mit.edu	37	chr19	42911519	42911519	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aagccaccgccgtggaagtgCactatcagggaccgcgagcg	14	13	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:42911519C>A	uc002otr.2	-	6	2221	c.1944G>T	c.(1942-1944)GTG>GTT	p.V648V	uc010eif.1_Intron	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	648					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				CGTGGAAGTGCACTATCAGGG	0.662													13	29	---	---	---	---	PASS	A	42911519	A	A	42911519	2	1	17	1	0	0	0	0	0	0	0	1	8821	697	25	3		3	LIPE	19	42911519	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	825677	42911519	16217464	285	8845										
ZNF285	26974	broad.mit.edu	37	chr19	44891866	44891866	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ccaactgaggctgtcatcatGctgagcacgtctgtacaatt	9	11	3	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:44891866G>T	uc002ozd.3	-	4	628	c.541C>A	c.(541-543)CAT>AAT	p.H181N	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Missense_Mutation_p.H188N	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	181					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						CTGTCATCATGCTGAGCACGT	0.468													73	96	---	---	---	---	PASS	T	44891866	T	T	44891866	3	4	17	1	0	0	0	0	1	0	0	0	17819	1319	46	3	1235	3	ZNF285	19	44891866	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1980347	44891866	14237117	286	8846										
CEACAM19	56971	broad.mit.edu	37	chr19	45176160	45176160	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cgccgcgcccagcctacagaCagtggcacctaccaagtagc	10	17	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:45176160C>G	uc002ozo.3	+	2	828	c.348C>G	c.(346-348)GAC>GAG	p.D116E	CEACAM19_uc002ozp.3_Missense_Mutation_p.D116E	NM_020219	NP_064604	Q7Z692	CEA19_HUMAN	carcinoembryonic antigen-related cell adhesion	116	Extracellular (Potential).					integral to membrane					0	Lung NSC(12;0.00308)|all_lung(12;0.00806)	Prostate(69;0.0376)				AGCCTACAGACAGTGGCACCT	0.567													6	89	---	---	---	---	PASS	G	45176160	G	G	45176160	3	3	17	1	0	0	0	0	1	0	0	0	3190	477	17	4	354	4	CEACAM19	19	45176160	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	284294	45176160	13952823	287	8847										
HIF3A	64344	broad.mit.edu	37	chr19	46825125	46825125	+	Missense_Mutation	SNP	G	T	T													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cccgccgtttctgcagccctGacctccgtcgcctcctggga							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:46825125G>T	uc002peh.2	+	10	1266	c.1237G>T	c.(1237-1239)GAC>TAC	p.D413Y	HIF3A_uc002peg.3_Missense_Mutation_p.D413Y|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_Missense_Mutation_p.D357Y|HIF3A_uc002pej.1_Missense_Mutation_p.D344Y|HIF3A_uc002pek.2_Missense_Mutation_p.D357Y|HIF3A_uc010xxy.1_Missense_Mutation_p.D344Y|HIF3A_uc002pel.2_Missense_Mutation_p.D411Y|HIF3A_uc010xxz.1_Missense_Mutation_p.D362Y	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	413					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		CTGCAGCCCTGACCTCCGTCG	0.687													45	63	---	---	---	---	PASS	T	46825125	T	T	46825125	3	4	17	1	0	0	0	0	1	0	0	0	7105	1290	45	2	1299	2	HIF3A	19	46825125	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1648965	46825125	12303858	288	8848	258	2								
HIF3A	64344	broad.mit.edu	37	chr19	46825126	46825126	+	Missense_Mutation	SNP	A	T	T													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ccgccgtttctgcagccctgAcctccgtcgcctcctgggac							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:46825126A>T	uc002peh.2	+	10	1267	c.1238A>T	c.(1237-1239)GAC>GTC	p.D413V	HIF3A_uc002peg.3_Missense_Mutation_p.D413V|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_Missense_Mutation_p.D357V|HIF3A_uc002pej.1_Missense_Mutation_p.D344V|HIF3A_uc002pek.2_Missense_Mutation_p.D357V|HIF3A_uc010xxy.1_Missense_Mutation_p.D344V|HIF3A_uc002pel.2_Missense_Mutation_p.D411V|HIF3A_uc010xxz.1_Missense_Mutation_p.D362V	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	413					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		TGCAGCCCTGACCTCCGTCGC	0.687													45	63	---	---	---	---	PASS	T	46825126	T	T	46825126	3	4	17	1	0	0	0	0	1	0	0	0	7105	275	10	5	1300	5	HIF3A	19	46825126	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	1	46825126	12303857	289	8849	258	2								
NUCB1	4924	broad.mit.edu	37	chr19	49424479	49424479	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaagaggagctggctgcccgGgaggcagagctgaatgccaa	17	9	0	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:49424479G>C	uc002plb.3	+	11	1143	c.1071G>C	c.(1069-1071)CGG>CGC	p.R357R	NUCB1_uc002pla.2_Silent_p.R357R|NUCB1_uc002plc.2_Silent_p.R357R|NUCB1_uc002pld.2_Silent_p.R20R	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	357	Potential.					ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		TGGCTGCCCGGGAGGCAGAGC	0.667													12	39	---	---	---	---	PASS	C	49424479	C	C	49424479	2	2	17	1	0	0	0	0	0	0	0	1	10718	1219	43	4		4	NUCB1	19	49424479	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	2599353	49424479	9704504	290	8850										
FTL	2512	broad.mit.edu	37	chr19	49468815	49468815	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	accgacgtggaggcagccgtCaacagcctggtcaatttgta	12	11	2	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:49468815C>G	uc002plo.2	+	1	250	c.51C>G	c.(49-51)GTC>GTG	p.V17V	FTL_uc002pln.1_Silent_p.V17V	NM_000146	NP_000137	P02792	FRIL_HUMAN	ferritin, light polypeptide	17	Ferritin-like diiron.				cell death|cellular iron ion homeostasis|cellular membrane organization|iron ion transport|post-Golgi vesicle-mediated transport	cytosol|intracellular ferritin complex	ferric iron binding|identical protein binding|oxidoreductase activity				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000152)|all cancers(93;0.000435)|GBM - Glioblastoma multiforme(486;0.0171)|Epithelial(262;0.0267)	Iron Dextran(DB00893)	AGGCAGCCGTCAACAGCCTGG	0.572													47	102	---	---	---	---	PASS	G	49468815	G	G	49468815	2	3	17	1	0	0	0	0	0	0	0	1	6084	813	29	2		2	FTL	19	49468815	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	44336	49468815	9660168	291	8851										
SLC17A7	57030	broad.mit.edu	37	chr19	49934604	49934604	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gcggttctcaccagagatggCgaagccgctgaagcccacgg	14	13	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:49934604C>T	uc002pnp.2	-	10	1424	c.1252G>A	c.(1252-1254)GCC>ACC	p.A418T	SLC17A7_uc002pno.2_Intron	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	418	Helical; (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		CCAGAGATGGCGAAGCCGCTG	0.622													34	80	---	---	---	---	PASS	T	49934604	T	T	49934604	3	4	17	1	0	0	0	0	1	0	0	0	14422	768	27	1	442	1	SLC17A7	19	49934604	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	465789	49934604	9194379	292	8852										
MYH14	79784	broad.mit.edu	37	chr19	50796843	50796843	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cagccattctggaggagaagCgtcagctggaggggcgcctg	17	10	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:50796843C>T	uc002prr.1	+	37	5292	c.5245C>T	c.(5245-5247)CGT>TGT	p.R1749C	MYH14_uc010enu.1_Missense_Mutation_p.R1790C|MYH14_uc002prq.1_Missense_Mutation_p.R1757C|MYH14_uc010ycb.1_Missense_Mutation_p.R100C|MYH14_uc002prs.1_Missense_Mutation_p.R100C	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1749	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		GGAGGAGAAGCGTCAGCTGGA	0.617													5	30	---	---	---	---	PASS	T	50796843	T	T	50796843	3	4	17	1	0	0	0	0	1	0	0	0	10033	768	27	1	5518	1	MYH14	19	50796843	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	862239	50796843	8332140	293	8853										
NKG7	4818	broad.mit.edu	37	chr19	51875032	51875032	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgccgctcttgccttctgctCacaaggtttcatagccagga	9	13	4	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:51875032C>T	uc002pwj.2	-	4	668	c.497G>A	c.(496-498)TGA>TAA	p.*166*	CLDND2_uc002pwi.1_5'Flank|NKG7_uc002pwk.2_Silent_p.*131*	NM_005601	NP_005592	Q16617	NKG7_HUMAN	natural killer cell group 7 sequence	166						integral to plasma membrane				central_nervous_system(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000211)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		GCCTTCTGCTCACAAGGTTTC	0.587													138	351	---	---	---	---	PASS	T	51875032	T	T	51875032	2	4	17	1	0	0	0	0	0	0	0	1	10443	837	29	2		2	NKG7	19	51875032	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	1078189	51875032	7253951	294	8854										
ZNF160	90338	broad.mit.edu	37	chr19	53572826	53572826	+	Frame_Shift_Del	DEL	C	-	-													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtatgaattgtgcctgaagaCcttgccacactcatgacatt							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:53572826delC	uc010eqk.2	-	7	1377	c.961delG	c.(961-963)GTCfs	p.V321fs	ZNF160_uc002qaq.3_Frame_Shift_Del_p.V321fs|ZNF160_uc002qar.3_Frame_Shift_Del_p.V321fs	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	321	C2H2-type 3.				hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		TGCCTGAAGACCTTGCCACAC	0.418													97	79	---	---	---	---		-	53572826	-	-	53572826	7	5	17	1	0	1	0	1	0	0	0	0	17736	507	18	0	1499	0	ZNF160	19	53572826	Frame_Shift_Del	DEL	C	TCGA-18-5592-01A-01D-1632-08	1697794	53572826	5556157	295	8855										
VN1R4	317703	broad.mit.edu	37	chr19	53770644	53770644	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aggtggtgccaatggacactCccctgcccactctatggaga	11	13	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:53770644C>T	uc010ydu.1	-	1	275	c.275G>A	c.(274-276)GGA>GAA	p.G92E		NM_173857	NP_776256	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	92	Helical; Name=3; (Potential).				response to pheromone	actin cytoskeleton|cytoplasm|integral to membrane|plasma membrane	pheromone receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.00294)		AATGGACACTCCCCTGCCCAC	0.498										HNSCC(26;0.072)			9	12	---	---	---	---	PASS	T	53770644	T	T	53770644	3	4	17	1	0	0	0	0	1	0	0	0	17177	855	30	2	633	2	VN1R4	19	53770644	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	197818	53770644	5358339	296	8856										
LILRB2	10288	broad.mit.edu	37	chr19	54782142	54782142	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acgagctccaggggctcactGgggtgagacagcaggtaggg	18	9	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:54782142G>A	uc002qfb.2	-	7	1496	c.1230C>T	c.(1228-1230)CCC>CCT	p.P410P	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Silent_p.P410P|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Silent_p.P410P|LILRB2_uc010yet.1_Silent_p.P294P|LILRB2_uc010yeu.1_RNA	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	410	Extracellular (Potential).|Ig-like C2-type 4.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GGGGCTCACTGGGGTGAGACA	0.642													30	92	---	---	---	---	PASS	A	54782142	A	A	54782142	2	1	17	1	0	0	0	0	0	0	0	1	8791	1335	47	3		3	LILRB2	19	54782142	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	1011498	54782142	4346841	297	8857										
LAIR1	3903	broad.mit.edu	37	chr19	54867018	54867018	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tcctgggaactccctgcagcCagggcctaagagggagagac	14	12	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:54867018C>A	uc002qfk.1	-	10	1033	c.723G>T	c.(721-723)CTG>CTT	p.L241L	LAIR1_uc002qfl.1_Silent_p.L224L|LAIR1_uc002qfm.1_Silent_p.L240L|LAIR1_uc002qfn.1_Silent_p.L223L|LAIR1_uc010yex.1_Silent_p.L234L|LAIR1_uc002qfo.2_Silent_p.L223L	NM_002287	NP_002278	Q6GTX8	LAIR1_HUMAN	leukocyte-associated immunoglobulin-like	241	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding|receptor activity			ovary(4)	4	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0573)		TCCCTGCAGCCAGGGCCTAAG	0.592													52	57	---	---	---	---	PASS	A	54867018	A	A	54867018	2	1	17	1	0	0	0	0	0	0	0	1	8602	581	21	3		3	LAIR1	19	54867018	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	84876	54867018	4261965	298	8858										
LAIR1	3903	broad.mit.edu	37	chr19	54872558	54872558	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ccaggtagtcactctgctcaGaccatttagggggcttataa	10	10	3	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:54872558G>T	uc002qfk.1	-	3	639	c.329C>A	c.(328-330)TCT>TAT	p.S110Y	LAIR1_uc002qfl.1_Missense_Mutation_p.S110Y|LAIR1_uc002qfm.1_Missense_Mutation_p.S109Y|LAIR1_uc002qfn.1_Missense_Mutation_p.S109Y|LAIR1_uc010yex.1_Missense_Mutation_p.S103Y|LAIR1_uc002qfo.2_Missense_Mutation_p.S92Y	NM_002287	NP_002278	Q6GTX8	LAIR1_HUMAN	leukocyte-associated immunoglobulin-like	110	Extracellular (Potential).|Ig-like C2-type.					integral to membrane|plasma membrane	protein binding|receptor activity			ovary(4)	4	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0573)		ACTCTGCTCAGACCATTTAGG	0.562													53	180	---	---	---	---	PASS	T	54872558	T	T	54872558	3	4	17	1	0	0	0	0	1	0	0	0	8602	942	33	2	566	2	LAIR1	19	54872558	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	5540	54872558	4256425	299	8859										
LILRA2	11027	broad.mit.edu	37	chr19	55086421	55086421	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	agcccgagtcgcaggtggtcGtacaggtgctatgcttatga	14	9	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:55086421G>A	uc002qgg.3	+	4	665	c.576G>A	c.(574-576)TCG>TCA	p.S192S	LILRA2_uc010ern.2_Silent_p.S192S|LILRA2_uc002qgf.2_Silent_p.S192S|LILRA2_uc010yfe.1_Silent_p.S192S|LILRA2_uc010yff.1_Silent_p.S180S|LILRA2_uc010ero.2_Silent_p.S180S|LILRA2_uc010yfg.1_Silent_p.S192S	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	192	Extracellular (Potential).|Ig-like C2-type 2.				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		GCAGGTGGTCGTACAGGTGCT	0.572													35	159	---	---	---	---	PASS	A	55086421	A	A	55086421	2	1	17	1	0	0	0	0	0	0	0	1	8785	1132	40	1		1	LILRA2	19	55086421	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	213863	55086421	4042562	300	8860										
FCAR	2204	broad.mit.edu	37	chr19	55399446	55399446	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aggagagaatatttccctcaCgtgcagctcagcacacatcc	8	13	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:55399446C>A	uc002qhr.1	+	4	631	c.434C>A	c.(433-435)ACG>AAG	p.T145K	FCAR_uc002qhq.2_Missense_Mutation_p.T145K|FCAR_uc002qhs.1_Intron|FCAR_uc002qht.1_Missense_Mutation_p.T118K|FCAR_uc010esi.1_Intron|FCAR_uc002qhu.1_Intron|FCAR_uc002qhv.1_Missense_Mutation_p.T145K|FCAR_uc002qhw.1_Missense_Mutation_p.T133K|FCAR_uc002qhx.1_Intron|FCAR_uc002qhy.1_Missense_Mutation_p.T133K|FCAR_uc002qhz.1_Missense_Mutation_p.T133K|FCAR_uc002qia.1_Missense_Mutation_p.T36K	NM_002000	NP_001991	P24071	FCAR_HUMAN	Fc alpha receptor isoform a precursor	145	Ig-like C2-type 2.|Extracellular (Potential).				immune response	extracellular region|integral to plasma membrane	IgA binding|receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0443)		ATTTCCCTCACGTGCAGCTCA	0.502													36	34	---	---	---	---	PASS	A	55399446	A	A	55399446	3	1	17	1	0	0	0	0	1	0	0	0	5773	536	19	1	448	1	FCAR	19	55399446	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	313025	55399446	3729537	301	8861										
ZNF835	90485	broad.mit.edu	37	chr19	57176042	57176042	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gccaggtacgagccctggctGaaggccttgccgcactcgtg	14	14	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:57176042G>T	uc010ygo.1	-	2	591	c.591C>A	c.(589-591)TTC>TTA	p.F197L	ZNF835_uc010ygn.1_Missense_Mutation_p.F175L	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						AGCCCTGGCTGAAGGCCTTGC	0.706													5	9	---	---	---	---	PASS	T	57176042	T	T	57176042	3	4	17	1	0	0	0	0	1	0	0	0	18183	1281	45	2	1090	2	ZNF835	19	57176042	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	1776596	57176042	1952941	302	8862										
PEG3	5178	broad.mit.edu	37	chr19	57326041	57326041	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gatagcttcctcagccatctGgctctgctccagtaaatcat	7	13	4	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:57326041G>T	uc002qnu.2	-	7	4120	c.3769C>A	c.(3769-3771)CAG>AAG	p.Q1257K	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.Q1228K|PEG3_uc002qnv.2_Missense_Mutation_p.Q1257K|PEG3_uc002qnw.2_Missense_Mutation_p.Q1133K|PEG3_uc002qnx.2_Missense_Mutation_p.Q1131K|PEG3_uc010etr.2_Missense_Mutation_p.Q1257K	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1257					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TCAGCCATCTGGCTCTGCTCC	0.473													23	38	---	---	---	---	PASS	T	57326041	T	T	57326041	3	4	17	1	0	0	0	0	1	0	0	0	11720	1357	47	3	1001	3	PEG3	19	57326041	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	149999	57326041	1802942	303	8863										
PEG3	5178	broad.mit.edu	37	chr19	57326467	57326467	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gtctgtgagatccacaaagcCcaggccacagtcctcacatt	8	14	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:57326467C>A	uc002qnu.2	-	7	3694	c.3343G>T	c.(3343-3345)GGC>TGC	p.G1115C	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.G1086C|PEG3_uc002qnv.2_Missense_Mutation_p.G1115C|PEG3_uc002qnw.2_Missense_Mutation_p.G991C|PEG3_uc002qnx.2_Missense_Mutation_p.G989C|PEG3_uc010etr.2_Missense_Mutation_p.G1115C	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1115	C2H2-type 6.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TCCACAAAGCCCAGGCCACAG	0.493													84	91	---	---	---	---	PASS	A	57326467	A	A	57326467	3	1	17	1	0	0	0	0	1	0	0	0	11720	623	22	3	1427	3	PEG3	19	57326467	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	426	57326467	1802516	304	8864										
C20orf46	55321	broad.mit.edu	37	chr20	1161498	1161498	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	aggtgggctagttcttaagaCctctggagggtgtggctagt	16	6	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:1161498C>A	uc010gaa.1	-	3	984	c.765G>T	c.(763-765)AGG>AGT	p.R255S	C20orf46_uc002weq.1_Missense_Mutation_p.R255S	NM_018354	NP_060824	Q9NUR3	CT046_HUMAN	hypothetical protein LOC55321	255						integral to membrane	protein binding			ovary(1)	1						GTTCTTAAGACCTCTGGAGGG	0.592													40	90	---	---	---	---	PASS	A	1161498	A	A	1161498	3	1	17	1	0	0	0	0	1	0	0	0	2113	506	18	3	9	3	C20orf46	20	1161498	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08		1161498	61864022	305	8865										
PAK7	57144	broad.mit.edu	37	chr20	9546901	9546901	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tggctttgtggtacccagacGggtactggtgactgcttgag	15	8	0	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:9546901G>A	uc002wnl.2	-	6	1666	c.1121C>T	c.(1120-1122)CCG>CTG	p.P374L	PAK7_uc002wnk.2_Missense_Mutation_p.P374L|PAK7_uc002wnj.2_Missense_Mutation_p.P374L|PAK7_uc010gby.1_Missense_Mutation_p.P374L	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	374	Linker.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			GTACCCAGACGGGTACTGGTG	0.572													96	212	---	---	---	---	PASS	A	9546901	A	A	9546901	3	1	17	1	0	0	0	0	1	0	0	0	11405	1116	39	1	1062	1	PAK7	20	9546901	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	8385403	9546901	53478619	306	8866										
PCSK2	5126	broad.mit.edu	37	chr20	17462428	17462428	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gccggcgtccaagggatgacGactccaaggtgggctttgac	15	11	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:17462428G>A	uc002wpm.2	+	12	1950	c.1630G>A	c.(1630-1632)GAC>AAC	p.D544N	PCSK2_uc002wpl.2_Missense_Mutation_p.D525N|PCSK2_uc010zrm.1_Missense_Mutation_p.D509N|PCSK2_uc002wpn.2_Missense_Mutation_p.D198N	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	544					enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AAGGGATGACGACTCCAAGGT	0.577													12	76	---	---	---	---	PASS	A	17462428	A	A	17462428	3	1	17	1	0	0	0	0	1	0	0	0	11601	1058	37	2	1676	2	PCSK2	20	17462428	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	7915527	17462428	45563092	307	8867										
CRNKL1	51340	broad.mit.edu	37	chr20	20033174	20033174	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cggcaccgtttccatggtgaCcaggctgcgcgtcctccttg	12	15	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:20033174C>G	uc002wrs.2	-	2	328	c.296G>C	c.(295-297)GGT>GCT	p.G99A	C20orf26_uc010gcw.1_5'Flank|C20orf26_uc010zse.1_5'Flank|C20orf26_uc002wru.2_5'Flank|CRNKL1_uc002wrt.1_Missense_Mutation_p.G87A	NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	99					spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						TCCATGGTGACCAGGCTGCGC	0.622													4	73	---	---	---	---	PASS	G	20033174	G	G	20033174	3	3	17	1	0	0	0	0	1	0	0	0	3891	507	18	4	2306	4	CRNKL1	20	20033174	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	2570746	20033174	42992346	308	8868										
NKX2-4	644524	broad.mit.edu	37	chr20	21376578	21376578	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cctgccatagagcaggttggCgcccaggacgccgccgctgt	14	15	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:21376578C>T	uc010gcz.2	-	2	1046	c.1036G>A	c.(1036-1038)GCC>ACC	p.A346T		NM_033176	NP_149416	Q9H2Z4	NKX24_HUMAN	NK2 homeobox 4	346					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGCAGGTTGGCGCCCAGGACG	0.532													34	47	---	---	---	---	PASS	T	21376578	T	T	21376578	3	4	17	1	0	0	0	0	1	0	0	0	10452	768	27	1	32	1	NKX2-4	20	21376578	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	1343404	21376578	41648942	309	8869										
GGTLC1	92086	broad.mit.edu	37	chr20	23967093	23967093	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tagaggttgatggtgctggtGgcggacacagcactgccgtc	16	9	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:23967093G>T	uc002wts.2	-	2	289	c.156C>A	c.(154-156)GCC>GCA	p.A52A	GGTLC1_uc002wtu.2_Silent_p.A52A	NM_178312	NP_842564	Q9BX51	GGTL1_HUMAN	gamma-glutamyltransferase light chain 1	52							gamma-glutamyltransferase activity			ovary(1)	1						TGGTGCTGGTGGCGGACACAG	0.632													18	25	---	---	---	---	PASS	T	23967093	T	T	23967093	2	4	17	1	0	0	0	0	0	0	0	1	6365	1335	47	3		3	GGTLC1	20	23967093	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	2590515	23967093	39058427	310	8870										
GGTLC1	92086	broad.mit.edu	37	chr20	23967142	23967142	+	Frame_Shift_Del	DEL	C	-	-													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ccacagacaggtgagcagtgCccccgtcatccggcatgtag							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:23967142delC	uc002wts.2	-	2	240	c.107delG	c.(106-108)GGCfs	p.G36fs	GGTLC1_uc002wtu.2_Frame_Shift_Del_p.G36fs	NM_178312	NP_842564	Q9BX51	GGTL1_HUMAN	gamma-glutamyltransferase light chain 1	36							gamma-glutamyltransferase activity			ovary(1)	1						GTGAGCAGTGCCCCCGTCATC	0.622													61	31	---	---	---	---		-	23967142	-	-	23967142	7	5	17	1	0	1	0	1	0	0	0	0	6365	739	26	0	590	0	GGTLC1	20	23967142	Frame_Shift_Del	DEL	C	TCGA-18-5592-01A-01D-1632-08	49	23967142	39058378	311	8871										
C20orf71	128861	broad.mit.edu	37	chr20	31805393	31805393	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ttcctcgggttgctggccttGcccttggcaccacacaagca	10	15	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:31805393G>A	uc002wyr.2	+	1	259	c.51G>A	c.(49-51)TTG>TTA	p.L17L	C20orf71_uc002wys.2_Silent_p.L17L	NM_178466	NP_848561	Q9BQP9	SPLC3_HUMAN	short long palate, lung and nasal epithelium	17						extracellular region	lipid binding			ovary(1)|skin(1)	2						TGCTGGCCTTGCCCTTGGCAC	0.602													59	76	---	---	---	---	PASS	A	31805393	A	A	31805393	2	1	17	1	0	0	0	0	0	0	0	1	2117	1310	46	3		3	C20orf71	20	31805393	Silent	SNP	G	TCGA-18-5592-01A-01D-1632-08	7838251	31805393	31220127	312	8872										
C20orf117	140710	broad.mit.edu	37	chr20	35422806	35422806	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggggtcctggcaggccagggCacccaggtggttgcagtccc	17	13	0	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:35422806C>A	uc002xgd.1	-	14	3292	c.2965G>T	c.(2965-2967)GCC>TCC	p.A989S	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	989											0		Myeloproliferative disorder(115;0.00874)				CAGGCCAGGGCACCCAGGTGG	0.642													20	42	---	---	---	---	PASS	A	35422806	A	A	35422806	3	1	17	1	0	0	0	0	1	0	0	0	2083	710	25	3	1376	3	C20orf117	20	35422806	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	3617413	35422806	27602714	313	8873										
KIAA1755	85449	broad.mit.edu	37	chr20	36870069	36870069	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggggatttccctcaaagtcaCtgttgatggcctccagccat	10	12	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:36870069C>T	uc002xhy.1	-	3	736	c.464G>A	c.(463-465)AGT>AAT	p.S155N	KIAA1755_uc002xhz.1_Missense_Mutation_p.S155N	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	155										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				CTCAAAGTCACTGTTGATGGC	0.512													68	127	---	---	---	---	PASS	T	36870069	T	T	36870069	3	4	17	1	0	0	0	0	1	0	0	0	8257	565	20	3	3186	3	KIAA1755	20	36870069	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	1447263	36870069	26155451	314	8874										
PLTP	5360	broad.mit.edu	37	chr20	44530927	44530927	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgcgcaggtccagctgcgtgCgcagggccttcccccggaga	15	15	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:44530927C>A	uc002xqn.1	-	12	1234	c.1154G>T	c.(1153-1155)CGC>CTC	p.R385L	PLTP_uc002xql.1_Missense_Mutation_p.R297L|PLTP_uc002xqm.1_Missense_Mutation_p.R405L|PLTP_uc002xqo.1_Missense_Mutation_p.R333L|PLTP_uc002xqp.1_Missense_Mutation_p.R385L|PLTP_uc002xqq.1_Missense_Mutation_p.R354L|PLTP_uc010zxj.1_Missense_Mutation_p.R290L|PLTP_uc010ghj.1_Missense_Mutation_p.R385L	NM_006227	NP_006218	P55058	PLTP_HUMAN	phospholipid transfer protein isoform a	385					cellular lipid metabolic process|lipid transport	extracellular region	lipid binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CAGCTGCGTGCGCAGGGCCTT	0.602													28	57	---	---	---	---	PASS	A	44530927	A	A	44530927	3	1	17	1	0	0	0	0	1	0	0	0	12114	768	27	1	347	1	PLTP	20	44530927	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	7660858	44530927	18494593	315	8875										
DDX27	55661	broad.mit.edu	37	chr20	47836040	47836040	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gcgaggatgacgaggtgccgGtggagcccgagtctgactcc	17	11	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:47836040G>C	uc002xuh.2	+	1	209	c.148G>C	c.(148-150)GTG>CTG	p.V50L		NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	50	Asp/Glu/Lys-rich.					nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CGAGGTGCCGGTGGAGCCCGA	0.602													19	51	---	---	---	---	PASS	C	47836040	C	C	47836040	3	2	17	1	0	0	0	0	1	0	0	0	4354	1261	44	4	150	4	DDX27	20	47836040	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	3305113	47836040	15189480	316	8876										
KCNQ2	3785	broad.mit.edu	37	chr20	62073850	62073850	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggaacgaggccaggatgagaCaaaggaagccgatgtaccag	15	8	0	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:62073850C>A	uc002yey.1	-	5	902	c.725G>T	c.(724-726)TGT>TTT	p.C242F	KCNQ2_uc002yez.1_Missense_Mutation_p.C242F|KCNQ2_uc002yfa.1_Missense_Mutation_p.C242F|KCNQ2_uc002yfb.1_Missense_Mutation_p.C242F|KCNQ2_uc011aax.1_Missense_Mutation_p.C242F|KCNQ2_uc002yfc.1_Missense_Mutation_p.C242F	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	242	Helical; Name=Segment S5; (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	CAGGATGAGACAAAGGAAGCC	0.478													75	211	---	---	---	---	PASS	A	62073850	A	A	62073850	3	1	17	1	0	0	0	0	1	0	0	0	8083	478	17	3	2009	3	KCNQ2	20	62073850	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	14237810	62073850	951670	317	8877										
TPTE	7179	broad.mit.edu	37	chr21	10944770	10944770	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ctaaaatgttaaataagtcaGaaaaatactgctgtctcctg	6	7	2	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr21:10944770G>A	uc002yip.1	-	11	832	c.464C>T	c.(463-465)TCT>TTT	p.S155F	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.S137F|TPTE_uc002yir.1_Missense_Mutation_p.S117F|TPTE_uc010gkv.1_Missense_Mutation_p.S17F	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	155					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		AAATAAGTCAGAAAAATACTG	0.318													19	187	---	---	---	---	PASS	A	10944770	A	A	10944770	3	1	17	1	0	0	0	0	1	0	0	0	16427	942	33	2	1247	2	TPTE	21	10944770	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08		10944770	37185125	318	8878										
NCAM2	4685	broad.mit.edu	37	chr21	22696781	22696781	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	agaaatgacattttcctgcaGggcctcaggctctccagaac	9	12	2	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr21:22696781G>T	uc002yld.1	+	6	947	c.698G>T	c.(697-699)AGG>ATG	p.R233M	NCAM2_uc011acb.1_Missense_Mutation_p.R91M|NCAM2_uc011acc.1_Missense_Mutation_p.R258M	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	233	Ig-like C2-type 3.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TTTTCCTGCAGGGCCTCAGGC	0.498													34	72	---	---	---	---	PASS	T	22696781	T	T	22696781	3	4	17	1	0	0	0	0	1	0	0	0	10203	1000	35	3	720	3	NCAM2	21	22696781	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	11752011	22696781	25433114	319	8879										
ITGB2	3689	broad.mit.edu	37	chr21	46309964	46309964	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	actcgcagtactgcccgtatAtcagcttgccggggacgtcg	12	13	1	0			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr21:46309964A>G	uc002zgd.2	-	11	1630	c.1586T>C	c.(1585-1587)ATA>ACA	p.I529T	ITGB2_uc002zge.2_Missense_Mutation_p.I529T|ITGB2_uc002zgf.3_Missense_Mutation_p.I529T|ITGB2_uc011afl.1_Missense_Mutation_p.I451T|ITGB2_uc010gpw.2_Missense_Mutation_p.I472T|ITGB2_uc002zgg.2_Missense_Mutation_p.I529T	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	529	II.|Extracellular (Potential).|Cysteine-rich tandem repeats.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	CTGCCCGTATATCAGCTTGCC	0.642													57	81	---	---	---	---	PASS	G	46309964	G	G	46309964	3	3	17	1	0	0	0	0	1	0	0	0	7894	449	16	5	743	5	ITGB2	21	46309964	Missense_Mutation	SNP	A	TCGA-18-5592-01A-01D-1632-08	23613183	46309964	1819931	320	8880										
TSSK2	23617	broad.mit.edu	37	chr22	19119619	19119619	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggagcaccgtgtggacttccCgcgctccaagaacctgacct	11	15	0	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr22:19119619C>A	uc002zow.2	+	1	1299	c.707C>A	c.(706-708)CCG>CAG	p.P236Q	DGCR14_uc002zot.2_3'UTR|DGCR14_uc002zou.2_3'UTR|DGCR14_uc002zov.2_RNA	NM_053006	NP_443732	Q96PF2	TSSK2_HUMAN	testis-specific serine kinase 2	236	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1	Colorectal(54;0.0993)					GTGGACTTCCCGCGCTCCAAG	0.597													77	133	---	---	---	---	PASS	A	19119619	A	A	19119619	3	1	17	1	0	0	0	0	1	0	0	0	16666	652	23	1	709	1	TSSK2	22	19119619	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08		19119619	32184947	321	8881										
TRMT2A	27037	broad.mit.edu	37	chr22	20102130	20102130	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	tgtggagagatccggaaggtCagccctagcaggtcctcgtg	15	10	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr22:20102130C>G	uc002zrk.1	-	8	1415	c.1200G>C	c.(1198-1200)CTG>CTC	p.L400L	TRMT2A_uc002zrl.1_Silent_p.L400L|TRMT2A_uc002zrm.1_Silent_p.L222L|TRMT2A_uc002zrn.1_Silent_p.L400L|RANBP1_uc011ahl.1_5'Flank|RANBP1_uc002zro.1_5'Flank|RANBP1_uc002zrp.2_5'Flank	NM_182984	NP_892029	Q8IZ69	TRM2A_HUMAN	HpaII tiny fragments locus 9C	400					RNA processing		nucleotide binding|RNA binding|RNA methyltransferase activity			breast(1)	1						TCCGGAAGGTCAGCCCTAGCA	0.632													65	157	---	---	---	---	PASS	G	20102130	G	G	20102130	2	3	17	1	0	0	0	0	0	0	0	1	16562	813	29	2		2	TRMT2A	22	20102130	Silent	SNP	C	TCGA-18-5592-01A-01D-1632-08	982511	20102130	31202436	322	8882										
LARGE	9215	broad.mit.edu	37	chr22	34157444	34157444	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cagccaagaatttccgtctcCccctgcagattcccagcatc	6	17	1	2			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr22:34157444C>G	uc003and.3	-	3	599	c.20G>C	c.(19-21)GGG>GCG	p.G7A	LARGE_uc003ane.3_Missense_Mutation_p.G7A|LARGE_uc010gwp.2_Missense_Mutation_p.G7A|LARGE_uc011ame.1_Intron|LARGE_uc011amf.1_Missense_Mutation_p.G7A	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	7	Cytoplasmic (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				TTTCCGTCTCCCCCTGCAGAT	0.532													55	78	---	---	---	---	PASS	G	34157444	G	G	34157444	3	3	17	1	0	0	0	0	1	0	0	0	8627	623	22	4	2306	4	LARGE	22	34157444	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	14055314	34157444	17147122	323	8883										
DDX3X	1654	broad.mit.edu	37	chrX	41204467	41204467	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	atgaagctgatcggatgttgGatatggggtttgagcctcag	15	5	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chrX:41204467G>T	uc004dfe.2	+	11	1915	c.1060G>T	c.(1060-1062)GAT>TAT	p.D354Y	DDX3X_uc004dff.2_Missense_Mutation_p.D354Y|DDX3X_uc011mkq.1_Missense_Mutation_p.D338Y|DDX3X_uc011mkr.1_Missense_Mutation_p.D354Y|DDX3X_uc011mks.1_Intron|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	354	Necessary for interaction with XPO1.|Helicase ATP-binding.				interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						TCGGATGTTGGATATGGGGTT	0.398										HNSCC(61;0.18)			105	24	---	---	---	---	PASS	T	41204467	T	T	41204467	3	4	17	1	0	0	0	0	1	0	0	0	4358	1174	41	2	1102	2	DDX3X	23	41204467	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08		41204467	114066093	324	8884										
CPXCR1	53336	broad.mit.edu	37	chrX	88008875	88008875	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	agataagaagtatgattctcCatctgctatgtgatagatat	8	5	2	5			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chrX:88008875C>A	uc004efd.3	+	3	719	c.460C>A	c.(460-462)CAT>AAT	p.H154N	CPXCR1_uc004efc.3_Missense_Mutation_p.H154N	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	154						intracellular	zinc ion binding			ovary(3)	3						TATGATTCTCCATCTGCTATG	0.368													4	41	---	---	---	---	PASS	A	88008875	A	A	88008875	3	1	17	1	0	0	0	0	1	0	0	0	3836	594	21	3	462	3	CPXCR1	23	88008875	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	46804408	88008875	67261685	325	8885										
BTK	695	broad.mit.edu	37	chrX	100615711	100615711	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	cttgtggagactggtgctgcTgctggctcaggcggtagtgg	18	8	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chrX:100615711T>C	uc004ehg.2	-	8	814	c.621A>G	c.(619-621)GCA>GCG	p.A207A	BTK_uc004ehf.2_5'Flank|BTK_uc010nnh.2_5'Flank|BTK_uc010nni.2_5'Flank|BTK_uc004ehe.2_5'Flank|BTK_uc010nnj.2_5'Flank|BTK_uc010nnk.2_5'Flank|BTK_uc010nnl.2_5'Flank|BTK_uc010nnm.2_5'Flank|BTK_uc010nnn.2_Silent_p.A207A|BTK_uc010nno.2_Silent_p.A241A|BTK_uc004ehh.1_5'Flank|BTK_uc004ehi.2_Silent_p.A207A	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	207					calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						CTGGTGCTGCTGCTGGCTCAG	0.463									Agammaglobulinemia_X-linked				70	17	---	---	---	---	PASS	C	100615711	C	C	100615711	2	2	17	1	0	0	0	0	0	0	0	1	1557	1567	55	5		5	BTK	23	100615711	Silent	SNP	T	TCGA-18-5592-01A-01D-1632-08	12606836	100615711	54654849	326	8886										
H2BFWT	158983	broad.mit.edu	37	chrX	103267886	103267886	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	gaccagcctcggtggcgatgCggtccaatatgtcatgaacc	12	12	1	1			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chrX:103267886C>G	uc004elr.2	-	1	371	c.347G>C	c.(346-348)CGC>CCC	p.R116P		NM_001002916	NP_001002916	Q7Z2G1	H2BWT_HUMAN	H2B histone family, member W, testis-specific	116					nucleosome assembly	nuclear membrane|nucleosome	DNA binding			ovary(1)	1						GGTGGCGATGCGGTCCAATAT	0.642													48	11	---	---	---	---	PASS	G	103267886	G	G	103267886	3	3	17	1	0	0	0	0	1	0	0	0	6932	768	27	4	188	4	H2BFWT	23	103267886	Missense_Mutation	SNP	C	TCGA-18-5592-01A-01D-1632-08	2652175	103267886	52002674	327	8887										
SAGE1	55511	broad.mit.edu	37	chrX	134989943	134989943	+	Frame_Shift_Del	DEL	C	-	-													0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	acgccttgtcaactgttctaCcagggcttgcttatttggca							TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chrX:134989943delC	uc004ezh.2	+	10	1269	c.1102delC	c.(1102-1104)CCAfs	p.P368fs	SAGE1_uc010nry.1_Frame_Shift_Del_p.P337fs|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	368										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AACTGTTCTACCAGGGCTTGC	0.438													43	101	---	---	---	---		-	134989943	-	-	134989943	7	5	17	1	0	1	0	1	0	0	0	0	13809	507	18	0	1136	0	SAGE1	23	134989943	Frame_Shift_Del	DEL	C	TCGA-18-5592-01A-01D-1632-08	31722057	134989943	20280617	328	8888										
FAM50A	9130	broad.mit.edu	37	chrX	153674214	153674214	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0773993808049536	25	0.0656553256276058	1.43248070814525	1.4783200908059	1.40792389600562	0.139579518059988	0.480769946897156	0	ggaggctctggtgaaggagcGggagaagcagctggccaaga	19	7	1	3			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chrX:153674214G>T	uc004fll.3	+	3	349	c.251G>T	c.(250-252)CGG>CTG	p.R84L		NM_004699	NP_004690	Q14320	FA50A_HUMAN	XAP-5 protein	84					spermatogenesis	nucleus				ovary(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GTGAAGGAGCGGGAGAAGCAG	0.607													23	12	---	---	---	---	PASS	T	153674214	T	T	153674214	3	4	17	1	0	0	0	0	1	0	0	0	5577	1116	39	1	261	1	FAM50A	23	153674214	Missense_Mutation	SNP	G	TCGA-18-5592-01A-01D-1632-08	18684271	153674214	1596346	329	8889										
ATAD3B	83858	broad.mit.edu	37	chr1	1431162	1431162	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggatgtcttgtggtggcggtCggccgttctgccccccaggg	17	12	2	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:1431162C>T	uc001afv.2	+	16	2013	c.1912C>T	c.(1912-1914)CGG>TGG	p.R638W	ATAD3B_uc001afx.2_Missense_Mutation_p.R592W|ATAD3B_uc001afy.2_Missense_Mutation_p.R191W	NM_031921	NP_114127	Q5T9A4	ATD3B_HUMAN	AAA-ATPase  TOB3	638							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		TGGTGGCGGTCGGCCGTTCTG	0.652													11	86	---	---	---	---	PASS	T	1431162	T	T	1431162	3	4	18	1	0	0	0	0	1	0	0	0	1074	875	31	2	1974	2	ATAD3B	1	1431162	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08		1431162	247819459	1	8890										
UBR4	23352	broad.mit.edu	37	chr1	19440528	19440528	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cagctgatgatacactcgatCagctttgtccaaaagtgtat	8	9	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:19440528C>T	uc001bbi.2	-	76	11243	c.11239G>A	c.(11239-11241)GAT>AAT	p.D3747N	UBR4_uc001bbj.1_Missense_Mutation_p.D162N	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3747					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TACACTCGATCAGCTTTGTCC	0.498											OREG0013168	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	54	---	---	---	---	PASS	T	19440528	T	T	19440528	3	4	18	1	0	0	0	0	1	0	0	0	16901	826	29	2	4436	2	UBR4	1	19440528	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	18009366	19440528	229810093	2	8891										
HTR6	3362	broad.mit.edu	37	chr1	19992308	19992308	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctggggggcagggccgccgtCggccccggggggcagcggct	22	14	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:19992308C>T	uc001bcl.2	+	1	529	c.62C>T	c.(61-63)TCG>TTG	p.S21L		NM_000871	NP_000862	P50406	5HT6R_HUMAN	5-hydroxytryptamine (serotonin) receptor 6	21	Extracellular (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	histamine receptor activity|protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;5.81e-05)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00117)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)	Granisetron(DB00889)|Ondansetron(DB00904)|Sertindole(DB06144)	gggccgccgtcggccccgggg	0.453													10	11	---	---	---	---	PASS	T	19992308	T	T	19992308	3	4	18	1	0	0	0	0	1	0	0	0	7451	893	31	2	64	2	HTR6	1	19992308	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	551780	19992308	229258313	3	8892										
ALPL	249	broad.mit.edu	37	chr1	21887195	21887195	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gccctggagcttcagaagctCaacaccaacgtggctaagaa	10	12	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:21887195C>T	uc001bet.2	+	3	395	c.138C>T	c.(136-138)CTC>CTT	p.L46L	ALPL_uc010odn.1_Missense_Mutation_p.S8L|ALPL_uc010odo.1_5'UTR|ALPL_uc010odp.1_Missense_Mutation_p.S8L|ALPL_uc001beu.3_Silent_p.L46L	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase	46					response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	TTCAGAAGCTCAACACCAACG	0.547													25	41	---	---	---	---	PASS	T	21887195	T	T	21887195	2	4	18	1	0	0	0	0	0	0	0	1	547	838	29	2		2	ALPL	1	21887195	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	1894887	21887195	227363426	4	8893										
EXTL1	2134	broad.mit.edu	37	chr1	26355755	26355755	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccaccgtcccgaggctgcctCgcgcttcctccaagccctgc	9	21	0	0	rs147835535		TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:26355755C>T	uc001blf.2	+	2	1718	c.851C>T	c.(850-852)TCG>TTG	p.S284L		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	284	Lumenal (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		GAGGCTGCCTCGCGCTTCCTC	0.632													48	83	---	---	---	---	PASS	T	26355755	T	T	26355755	3	4	18	1	0	0	0	0	1	0	0	0	5325	893	31	2	857	2	EXTL1	1	26355755	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	4468560	26355755	222894866	5	8894										
PTPRU	10076	broad.mit.edu	37	chr1	29585210	29585210	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cccctgggcagtgctgtgtgGaatatgactggatcccacgg	14	11	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:29585210G>T	uc001bru.2	+	3	509	c.399G>T	c.(397-399)TGG>TGT	p.W133C	PTPRU_uc001brv.2_Missense_Mutation_p.W133C|PTPRU_uc001brw.2_Missense_Mutation_p.W133C|PTPRU_uc009vtq.2_Missense_Mutation_p.W133C|PTPRU_uc009vtr.2_Missense_Mutation_p.W133C	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	133	Extracellular (Potential).|MAM.				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GTGCTGTGTGGAATATGACTG	0.627													66	95	---	---	---	---	PASS	T	29585210	T	T	29585210	3	4	18	1	0	0	0	0	1	0	0	0	12813	1183	41	2	409	2	PTPRU	1	29585210	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	3229455	29585210	219665411	6	8895										
PTPRU	10076	broad.mit.edu	37	chr1	29647244	29647244	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtgaccctgcacccgctgcaGagcaccacgcccgacttctg	10	18	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:29647244G>A	uc001bru.2	+	27	3875	c.3765G>A	c.(3763-3765)CAG>CAA	p.Q1255Q	PTPRU_uc001brv.2_Silent_p.Q1251Q|PTPRU_uc001brw.2_Silent_p.Q1245Q|PTPRU_uc009vtq.2_Silent_p.Q1251Q|PTPRU_uc009vtr.2_Silent_p.Q1242Q|PTPRU_uc001brx.2_5'UTR	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	1255	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		ACCCGCTGCAGAGCACCACGC	0.652													23	48	---	---	---	---	PASS	A	29647244	A	A	29647244	2	1	18	1	0	0	0	0	0	0	0	1	12813	933	33	2		2	PTPRU	1	29647244	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	62034	29647244	219603377	7	8896										
CSMD2	114784	broad.mit.edu	37	chr1	34118047	34118047	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tccagatggtcctgtcaggtCtcccccgcagggagctgagg	14	13	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:34118047C>T	uc001bxn.1	-	28	4371	c.4342G>A	c.(4342-4344)GAC>AAC	p.D1448N	CSMD2_uc001bxm.1_Missense_Mutation_p.D1488N|CSMD2_uc001bxo.1_Missense_Mutation_p.D361N	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1448	CUB 9.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CCTGTCAGGTCTCCCCCGCAG	0.552													37	60	---	---	---	---	PASS	T	34118047	T	T	34118047	3	4	18	1	0	0	0	0	1	0	0	0	3945	913	32	2	6289	2	CSMD2	1	34118047	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	4470803	34118047	215132574	8	8897										
ZCCHC11	23318	broad.mit.edu	37	chr1	52991942	52991942	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tttcactttttaaggttttaGactcttccattatttgaaaa	4	6	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:52991942G>C	uc001ctx.2	-	2	245	c.11C>G	c.(10-12)TCT>TGT	p.S4C	ZCCHC11_uc001cty.2_Missense_Mutation_p.S4C|ZCCHC11_uc001ctz.2_Missense_Mutation_p.S4C|ZCCHC11_uc009vze.1_Missense_Mutation_p.S4C|ZCCHC11_uc009vzf.1_Intron|ZCCHC11_uc001cub.2_Missense_Mutation_p.S4C|ZCCHC11_uc001cuc.2_RNA|ZCCHC11_uc001cud.2_Missense_Mutation_p.S4C	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	4					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						TAAGGTTTTAGACTCTTCCAT	0.313													27	30	---	---	---	---	PASS	C	52991942	C	C	52991942	3	2	18	1	0	0	0	0	1	0	0	0	17577	942	33	2	5042	2	ZCCHC11	1	52991942	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	18873895	52991942	196258679	9	8898										
ACOT11	26027	broad.mit.edu	37	chr1	55050433	55050433	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gataccggaaccccacggagGtgcagatgagccagctggtg	15	11	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:55050433G>T	uc001cxm.1	+	2	221	c.139G>T	c.(139-141)GTG>TTG	p.V47L	ACOT11_uc001cxj.1_5'UTR|ACOT11_uc001cxk.2_Missense_Mutation_p.V13L|ACOT11_uc001cxl.1_Missense_Mutation_p.V47L	NM_015547	NP_056362	Q8WXI4	ACO11_HUMAN	thioesterase, adipose associated isoform BFIT1	47	Acyl coenzyme A hydrolase 1.				fatty acid metabolic process|intracellular signal transduction|response to cold		acyl-CoA thioesterase activity|carboxylesterase activity			central_nervous_system(1)	1						CCCCACGGAGGTGCAGATGAG	0.632													8	79	---	---	---	---	PASS	T	55050433	T	T	55050433	3	4	18	1	0	0	0	0	1	0	0	0	149	1261	44	3	145	3	ACOT11	1	55050433	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	2058491	55050433	194200188	10	8899										
HFM1	164045	broad.mit.edu	37	chr1	91781509	91781509	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtcactaatatttctgccgtCgtatcactatatcttgtaat	5	9	4	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:91781509C>T	uc001doa.3	-	28	3103	c.3003G>A	c.(3001-3003)ACG>ACA	p.T1001T	HFM1_uc009wdb.2_RNA|HFM1_uc010osu.1_Silent_p.T680T|HFM1_uc001dob.3_Silent_p.T189T|HFM1_uc010osv.1_Silent_p.T685T	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	1001	SEC63.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		TTTCTGCCGTCGTATCACTAT	0.313													22	35	---	---	---	---	PASS	T	91781509	T	T	91781509	2	4	18	1	0	0	0	0	0	0	0	1	7083	871	31	2		2	HFM1	1	91781509	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	36731076	91781509	157469112	11	8900										
LRIG2	9860	broad.mit.edu	37	chr1	113616220	113616220	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cgcaggaaattgcccgcaccGagctggagggcgctgtcggg	17	12	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:113616220G>T	uc001edf.1	+	1	390	c.192G>T	c.(190-192)CCG>CCT	p.P64P	LRIG2_uc009wgn.1_5'UTR|uc001ede.1_5'Flank	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	64	LRRNT.|Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		TGCCCGCACCGAGCTGGAGGG	0.672											OREG0013684	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	66	96	---	---	---	---	PASS	T	113616220	T	T	113616220	2	4	18	1	0	0	0	0	0	0	0	1	8945	1045	37	2		2	LRIG2	1	113616220	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	21834711	113616220	135634401	12	8901										
LRIG2	9860	broad.mit.edu	37	chr1	113661920	113661920	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccaacatctactccaggaccCgagaatactgtccatacacc	5	16	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:113661920C>T	uc001edf.1	+	17	2944	c.2746C>T	c.(2746-2748)CGA>TGA	p.R916*	LRIG2_uc009wgn.1_Nonsense_Mutation_p.R813*	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	916	Cytoplasmic (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		CTCCAGGACCCGAGAATACTG	0.423													12	172	---	---	---	---	PASS	T	113661920	T	T	113661920	4	4	18	1	0	0	0	0	0	1	0	0	8945	644	23	1	2812	1	LRIG2	1	113661920	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	45700	113661920	135588701	13	8902										
TTF2	8458	broad.mit.edu	37	chr1	117632775	117632775	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	acggttaagtattttaaccaAgagccttttgctgaggagaa	10	6	0	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:117632775A>G	uc001egy.2	+	14	2461	c.2441A>G	c.(2440-2442)AAG>AGG	p.K814R		NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	814					mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		ATTTTAACCAAGAGCCTTTTG	0.478													4	206	---	---	---	---	PASS	G	117632775	G	G	117632775	3	3	18	1	0	0	0	0	1	0	0	0	16716	72	3	5	2495	5	TTF2	1	117632775	Missense_Mutation	SNP	A	TCGA-18-5595-01A-01D-1632-08	3970855	117632775	131617846	14	8903										
WARS2	10352	broad.mit.edu	37	chr1	119575726	119575726	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agcttgtagcgagcagtgttCatgcccgcgctgcggcgcac	14	13	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:119575726C>T	uc001ehn.2	-	6	919	c.891G>A	c.(889-891)ATG>ATA	p.M297I	WARS2_uc010oxf.1_Missense_Mutation_p.M203I|WARS2_uc001ehm.2_3'UTR|WARS2_uc010oxg.1_Missense_Mutation_p.M240I|WARS2_uc010oxh.1_3'UTR	NM_015836	NP_056651	Q9UGM6	SYWM_HUMAN	mitochondrial tryptophanyl tRNA synthetase 2	297					tryptophanyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|tryptophan-tRNA ligase activity				0	all_neural(166;0.187)	all_lung(203;2.48e-06)|Lung NSC(69;1.74e-05)|all_epithelial(167;0.000564)		Lung(183;0.0629)	L-Tryptophan(DB00150)	GAGCAGTGTTCATGCCCGCGC	0.592													64	92	---	---	---	---	PASS	T	119575726	T	T	119575726	3	4	18	1	0	0	0	0	1	0	0	0	17247	826	29	2	195	2	WARS2	1	119575726	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1942951	119575726	129674895	15	8904										
HSD3B1	3283	broad.mit.edu	37	chr1	120057214	120057214	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aagcagaaaacggtggagtgGgttggttcccttgtggaccg	16	7	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:120057214G>A	uc001ehv.1	+	4	1213	c.1068G>A	c.(1066-1068)TGG>TGA	p.W356*	HSD3B1_uc001ehw.2_Nonsense_Mutation_p.W358*	NM_000862	NP_000853	P14060	3BHS1_HUMAN	3 beta-hydroxysteroid dehydrogenase 1	356					androgen biosynthetic process|estrogen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.219)	all_lung(203;3.16e-06)|Lung NSC(69;2.19e-05)|all_epithelial(167;0.000624)		Lung(183;0.0106)|LUSC - Lung squamous cell carcinoma(189;0.0554)	NADH(DB00157)|Trilostane(DB01108)	CGGTGGAGTGGGTTGGTTCCC	0.493													7	34	---	---	---	---	PASS	A	120057214	A	A	120057214	4	1	18	1	0	0	0	0	0	1	0	0	7390	1241	43	3	1078	3	HSD3B1	1	120057214	Nonsense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	481488	120057214	129193407	16	8905										
PDE4DIP	9659	broad.mit.edu	37	chr1	144856874	144856874	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctgatctcacaagagacactAtctttttgaccagcagcttg	7	11	2	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:144856874A>C	uc001elw.3	-	40	6902	c.6611T>G	c.(6610-6612)ATA>AGA	p.I2204R	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.I2098R|PDE4DIP_uc001elv.3_Missense_Mutation_p.I1211R	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	2204					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		AAGAGACACTATCTTTTTGAC	0.522			T	PDGFRB	MPD								11	49	---	---	---	---	PASS	C	144856874	C	C	144856874	3	2	18	1	0	0	0	0	1	0	0	0	11643	449	16	5	449	5	PDE4DIP	1	144856874	Missense_Mutation	SNP	A	TCGA-18-5595-01A-01D-1632-08	24799660	144856874	104393747	17	8906										
ANKRD34A	284615	broad.mit.edu	37	chr1	145474701	145474701	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tgcccctccttatgccggggCgccaggctctcccaggacca	11	18	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:145474701C>T	uc001enq.1	+	4	2666	c.1373C>T	c.(1372-1374)GCG>GTG	p.A458V	NBPF10_uc001emp.3_Intron|LIX1L_uc001enr.2_5'Flank	NM_001039888	NP_001034977	Q69YU3	AN34A_HUMAN	ankyrin repeat domain 34	458	Pro-rich.										0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TATGCCGGGGCGCCAGGCTCT	0.652													22	28	---	---	---	---	PASS	T	145474701	T	T	145474701	3	4	18	1	0	0	0	0	1	0	0	0	662	768	27	1	1375	1	ANKRD34A	1	145474701	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	617827	145474701	103775920	18	8907										
SLC27A3	11000	broad.mit.edu	37	chr1	153751662	153751662	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctagattttcttcaggaggtGaacgtctatggagtcactgt	11	7	4	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:153751662G>C	uc001fcz.2	+	8	1925	c.1860G>C	c.(1858-1860)GTG>GTC	p.V620V	SLC27A3_uc009won.2_RNA	NM_024330	NP_077306	Q5K4L6	S27A3_HUMAN	solute carrier family 27 member 3	620					fatty acid metabolic process	integral to membrane|mitochondrial membrane	ligase activity|nucleotide binding			ovary(1)	1	all_lung(78;6.47e-32)|Lung NSC(65;2.52e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TTCAGGAGGTGAACGTCTATG	0.587													125	149	---	---	---	---	PASS	C	153751662	C	C	153751662	2	2	18	1	0	0	0	0	0	0	0	1	14527	1277	45	2		2	SLC27A3	1	153751662	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	8276961	153751662	95498959	19	8908										
ATP8B2	57198	broad.mit.edu	37	chr1	154321509	154321509	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cttcaccacccgctccagctCcagctggattgagagcctgc	9	17	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:154321509C>A	uc001fex.2	+	28	3587	c.3587C>A	c.(3586-3588)TCC>TAC	p.S1196Y		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	1182	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CGCTCCAGCTCCAGCTGGATT	0.622													4	50	---	---	---	---	PASS	A	154321509	A	A	154321509	3	1	18	1	0	0	0	0	1	0	0	0	1195	855	30	2	3827	2	ATP8B2	1	154321509	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	569847	154321509	94929112	20	8909										
PEAR1	375033	broad.mit.edu	37	chr1	156877498	156877498	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ttccaaaccccacagggctcCtgcagctgcccccctggctg	9	19	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:156877498C>T	uc001fqj.1	+	7	857	c.741C>T	c.(739-741)TCC>TCT	p.S247S	PEAR1_uc009wsl.1_Silent_p.S48S|PEAR1_uc001fqk.1_5'UTR	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	247	EGF-like 2.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CACAGGGCTCCTGCAGCTGCC	0.617													36	256	---	---	---	---	PASS	T	156877498	T	T	156877498	2	4	18	1	0	0	0	0	0	0	0	1	11712	668	24	3		3	PEAR1	1	156877498	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	2555989	156877498	92373123	21	8910										
GPR161	23432	broad.mit.edu	37	chr1	168059878	168059878	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggctgtccacctgccatgagCgcagtgaggtgtggggacag	17	10	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:168059878C>T	uc001gfc.2	-	6	1442	c.1128G>A	c.(1126-1128)GCG>GCA	p.A376A	GPR161_uc001gfb.2_Silent_p.A244A|GPR161_uc010pll.1_Silent_p.A286A|GPR161_uc010plm.1_Silent_p.A262A|GPR161_uc009wvo.2_Silent_p.A393A|GPR161_uc001gfd.2_Silent_p.A376A|GPR161_uc010pln.1_Silent_p.A396A|GPR161_uc001gfe.1_Silent_p.A376A	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2	376	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)					CTGCCATGAGCGCAGTGAGGT	0.597													19	26	---	---	---	---	PASS	T	168059878	T	T	168059878	2	4	18	1	0	0	0	0	0	0	0	1	6665	755	27	1		1	GPR161	1	168059878	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	11182380	168059878	81190743	22	8911										
C1orf112	55732	broad.mit.edu	37	chr1	169798416	169798416	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccctgcaggatatctctactCaaagccgttttctacagttt	6	12	3	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:169798416C>T	uc001ggp.2	+	14	1450	c.1140C>T	c.(1138-1140)CTC>CTT	p.L380L	C1orf112_uc001ggj.2_RNA|C1orf112_uc001ggq.2_Silent_p.L380L|C1orf112_uc009wvt.2_Silent_p.L57L|C1orf112_uc010plu.1_Missense_Mutation_p.S308L|C1orf112_uc009wvu.1_Silent_p.L256L|C1orf112_uc001ggr.2_Silent_p.L245L|C1orf112_uc010plv.1_Silent_p.L322L	NM_018186	NP_060656	Q9NSG2	CA112_HUMAN	hypothetical protein LOC55732	380											0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TATCTCTACTCAAAGCCGTTT	0.368													34	48	---	---	---	---	PASS	T	169798416	T	T	169798416	2	4	18	1	0	0	0	0	0	0	0	1	1985	813	29	2		2	C1orf112	1	169798416	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	1738538	169798416	79452205	23	8912										
FMO3	2328	broad.mit.edu	37	chr1	171080030	171080030	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gctgctcgtcactcgatttgGaaccttcctcaagaacaatt	7	12	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:171080030G>A	uc001ghi.2	+	6	830	c.719G>A	c.(718-720)GGA>GAA	p.G240E	FMO3_uc001ghh.2_Missense_Mutation_p.G240E|FMO3_uc010pmb.1_Missense_Mutation_p.G220E|FMO3_uc010pmc.1_Missense_Mutation_p.G177E	NM_001002294	NP_001002294	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	240					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					ACTCGATTTGGAACCTTCCTC	0.468													85	139	---	---	---	---	PASS	A	171080030	A	A	171080030	3	1	18	1	0	0	0	0	1	0	0	0	5956	1174	41	2	737	2	FMO3	1	171080030	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	1281614	171080030	78170591	24	8913										
FMO3	2328	broad.mit.edu	37	chr1	171085395	171085395	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	acatgatgaatgatattaatGagaaaatggagaaaaagcgc	10	3	0	5			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:171085395G>C	uc001ghi.2	+	8	1342	c.1231G>C	c.(1231-1233)GAG>CAG	p.E411Q	FMO3_uc001ghh.2_Missense_Mutation_p.E411Q|FMO3_uc010pmb.1_Missense_Mutation_p.E391Q|FMO3_uc010pmc.1_Missense_Mutation_p.E348Q	NM_001002294	NP_001002294	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	411					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TGATATTAATGAGAAAATGGA	0.358													62	68	---	---	---	---	PASS	C	171085395	C	C	171085395	3	2	18	1	0	0	0	0	1	0	0	0	5956	1291	45	2	1257	2	FMO3	1	171085395	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	5365	171085395	78165226	25	8914										
KIF21B	23046	broad.mit.edu	37	chr1	200959778	200959778	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gacgatgtcaatgatccgtcGctccagggactgccacttga	11	12	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:200959778G>A	uc001gvs.1	-	19	3078	c.2761C>T	c.(2761-2763)CGA>TGA	p.R921*	KIF21B_uc001gvr.1_Nonsense_Mutation_p.R921*|KIF21B_uc009wzl.1_Nonsense_Mutation_p.R921*|KIF21B_uc010ppn.1_Nonsense_Mutation_p.R921*	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	921					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						ATGATCCGTCGCTCCAGGGAC	0.562													29	47	---	---	---	---	PASS	A	200959778	A	A	200959778	4	1	18	1	0	0	0	0	0	1	0	0	8289	1095	38	1	2177	1	KIF21B	1	200959778	Nonsense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	29874383	200959778	48290843	26	8915										
LMOD1	25802	broad.mit.edu	37	chr1	201915418	201915418	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agggtctccagcaggctgtcGatgtcggggtcttcactcac	13	12	4	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:201915418G>A	uc001gxb.2	-	1	299	c.51C>T	c.(49-51)ATC>ATT	p.I17I	LMOD1_uc010ppu.1_Silent_p.I17I	NM_012134	NP_036266	P29536	LMOD1_HUMAN	leiomodin 1 (smooth muscle)	17					muscle contraction	cytoskeleton|cytosol|membrane fraction	tropomyosin binding			ovary(1)|pancreas(1)|skin(1)	3						GCAGGCTGTCGATGTCGGGGT	0.622													24	27	---	---	---	---	PASS	A	201915418	A	A	201915418	2	1	18	1	0	0	0	0	0	0	0	1	8856	1048	37	2		2	LMOD1	1	201915418	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	955640	201915418	47335203	27	8916										
CR2	1380	broad.mit.edu	37	chr1	207644250	207644250	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggtgtggacaccccctgtacCccaatgcaaaggtgccaggc	12	14	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:207644250C>T	uc001hfw.2	+	7	1485	c.1391C>T	c.(1390-1392)CCC>CTC	p.P464L	CR2_uc001hfv.2_Missense_Mutation_p.P464L|CR2_uc009xch.2_Missense_Mutation_p.P464L|CR2_uc009xci.1_5'Flank	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	464	Sushi 7.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						CCCCCTGTACCCCAATGCAAA	0.448													11	74	---	---	---	---	PASS	T	207644250	T	T	207644250	3	4	18	1	0	0	0	0	1	0	0	0	3842	623	22	3	1417	3	CR2	1	207644250	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	5728832	207644250	41606371	28	8917										
RPS6KC1	26750	broad.mit.edu	37	chr1	213415398	213415398	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggctaaagaggaaccaacttCtttattccagagagactctg	9	9	2	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:213415398C>T	uc010ptr.1	+	11	2738	c.2579C>T	c.(2578-2580)TCT>TTT	p.S860F	RPS6KC1_uc001hkd.2_Missense_Mutation_p.S848F|RPS6KC1_uc010pts.1_Missense_Mutation_p.S648F|RPS6KC1_uc010ptt.1_Missense_Mutation_p.S648F|RPS6KC1_uc010ptu.1_Missense_Mutation_p.S679F|RPS6KC1_uc010ptv.1_Missense_Mutation_p.S395F|RPS6KC1_uc001hke.2_Missense_Mutation_p.S679F	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	860	Protein kinase 2.				cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		GAACCAACTTCTTTATTCCAG	0.363													49	92	---	---	---	---	PASS	T	213415398	T	T	213415398	3	4	18	1	0	0	0	0	1	0	0	0	13658	913	32	2	2621	2	RPS6KC1	1	213415398	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	5771148	213415398	35835223	29	8918										
PROX1	5629	broad.mit.edu	37	chr1	214178591	214178591	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tatcccagctccaatatgctGaagacctacttctccgacgt	6	14	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:214178591G>A	uc001hkh.2	+	3	2081	c.1809G>A	c.(1807-1809)CTG>CTA	p.L603L		NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	603	Prospero-type homeobox.				aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		CCAATATGCTGAAGACCTACT	0.383													32	47	---	---	---	---	PASS	A	214178591	A	A	214178591	2	1	18	1	0	0	0	0	0	0	0	1	12560	1277	45	2		2	PROX1	1	214178591	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	763193	214178591	35072030	30	8919										
OBSCN	84033	broad.mit.edu	37	chr1	228437684	228437684	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agagcccaaggcggtgtttgCaaaggagcagctggcacaca	14	10	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:228437684C>A	uc009xez.1	+	14	4096	c.4052C>A	c.(4051-4053)GCA>GAA	p.A1351E	OBSCN_uc001hsn.2_Missense_Mutation_p.A1351E	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1351	Ig-like 14.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCGGTGTTTGCAAAGGAGCAG	0.647													15	108	---	---	---	---	PASS	A	228437684	A	A	228437684	3	1	18	1	0	0	0	0	1	0	0	0	10812	710	25	3	4102	3	OBSCN	1	228437684	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	14259093	228437684	20812937	31	8920										
TARBP1	6894	broad.mit.edu	37	chr1	234528184	234528184	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	caacaagagcagagatttctCaggaaagcaatattgggtta	10	6	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:234528184C>T	uc001hwd.2	-	29	4675	c.4675G>A	c.(4675-4677)GAG>AAG	p.E1559K		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	1559					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			AGAGATTTCTCAGGAAAGCAA	0.383													84	134	---	---	---	---	PASS	T	234528184	T	T	234528184	3	4	18	1	0	0	0	0	1	0	0	0	15552	835	29	2	198	2	TARBP1	1	234528184	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	6090500	234528184	14722437	32	8921										
OR2G3	81469	broad.mit.edu	37	chr1	247769064	247769064	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccccctcttcataccccaatGtacttttttctcagcaacct	2	17	3	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:247769064G>A	uc010pyz.1	+	1	177	c.177G>A	c.(175-177)ATG>ATA	p.M59I		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	59	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			ATACCCCAATGTACTTTTTTC	0.423													14	412	---	---	---	---	PASS	A	247769064	A	A	247769064	3	1	18	1	0	0	0	0	1	0	0	0	10999	1377	48	3	179	3	OR2G3	1	247769064	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	13240880	247769064	1481557	33	8922										
OR2AK2	391191	broad.mit.edu	37	chr1	248129125	248129125	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctcatggttgcatgtgcatgGgccagtggttctatcaatgc	12	9	3	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr1:248129125G>T	uc010pzd.1	+	1	492	c.492G>T	c.(490-492)TGG>TGT	p.W164C	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	164	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			CATGTGCATGGGCCAGTGGTT	0.413													112	168	---	---	---	---	PASS	T	248129125	T	T	248129125	3	4	18	1	0	0	0	0	1	0	0	0	10986	1241	43	3	494	3	OR2AK2	1	248129125	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	360061	248129125	1121496	34	8923										
NCOA1	8648	broad.mit.edu	37	chr2	24981004	24981004	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tctttgcagatgccaggaatGaacactgtgtgccctgagca	11	10	1	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:24981004G>T	uc002rfk.2	+	19	4302	c.4044G>T	c.(4042-4044)ATG>ATT	p.M1348I	NCOA1_uc010eye.2_Missense_Mutation_p.M1348I|NCOA1_uc002rfi.2_Missense_Mutation_p.M1197I|NCOA1_uc002rfj.2_Missense_Mutation_p.M1348I|NCOA1_uc002rfl.2_Missense_Mutation_p.M1348I|NCOA1_uc010eyf.2_Missense_Mutation_p.M241I	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	1348									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGCCAGGAATGAACACTGTGT	0.483			T	PAX3	alveolar rhadomyosarcoma								25	50	---	---	---	---	PASS	T	24981004	T	T	24981004	3	4	18	1	0	0	0	0	1	0	0	0	10228	1290	45	2	4110	2	NCOA1	2	24981004	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08		24981004	218218369	35	8924										
AGBL5	60509	broad.mit.edu	37	chr2	27278619	27278619	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gccgtcctgcacccggccatCtatggggccaaagctgtgct	12	15	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:27278619C>G	uc002rie.2	+	7	1195	c.978C>G	c.(976-978)ATC>ATG	p.I326M	AGBL5_uc002ric.2_Missense_Mutation_p.I326M|AGBL5_uc002rid.2_Missense_Mutation_p.I326M|AGBL5_uc002rif.2_RNA	NM_021831	NP_068603	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5 isoform 1	326					protein branching point deglutamylation|proteolysis	cytosol|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACCCGGCCATCTATGGGGCCA	0.552													41	58	---	---	---	---	PASS	G	27278619	G	G	27278619	3	3	18	1	0	0	0	0	1	0	0	0	378	903	32	2	1000	2	AGBL5	2	27278619	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	2297615	27278619	215920754	36	8925										
EHBP1	23301	broad.mit.edu	37	chr2	63058184	63058184	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	atgcaaagtttggctagtttGatgagtatgaagcaggctga	13	4	0	4			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:63058184G>C	uc002sby.2	+	7	1007	c.525G>C	c.(523-525)TTG>TTC	p.L175F	EHBP1_uc010fcp.2_Missense_Mutation_p.L175F|EHBP1_uc002sbx.2_Missense_Mutation_p.L175F|EHBP1_uc002sbz.2_Missense_Mutation_p.L175F|EHBP1_uc002scb.2_Missense_Mutation_p.L175F	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	175						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			TGGCTAGTTTGATGAGTATGA	0.343									Hereditary_Prostate_Cancer				47	79	---	---	---	---	PASS	C	63058184	C	C	63058184	3	2	18	1	0	0	0	0	1	0	0	0	4975	1281	45	2	547	2	EHBP1	2	63058184	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	35779565	63058184	180141189	37	8926										
EHBP1	23301	broad.mit.edu	37	chr2	63058260	63058260	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aagatgatgatgagaacagaGtgaaccaagaagaaaaggca	12	4	0	8			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:63058260G>C	uc002sby.2	+	7	1083	c.601G>C	c.(601-603)GTG>CTG	p.V201L	EHBP1_uc010fcp.2_Missense_Mutation_p.V201L|EHBP1_uc002sbx.2_Missense_Mutation_p.V201L|EHBP1_uc002sbz.2_Missense_Mutation_p.V201L|EHBP1_uc002scb.2_Missense_Mutation_p.V201L	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	201	Potential.					cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			TGAGAACAGAGTGAACCAAGA	0.343									Hereditary_Prostate_Cancer				23	37	---	---	---	---	PASS	C	63058260	C	C	63058260	3	2	18	1	0	0	0	0	1	0	0	0	4975	1029	36	4	623	4	EHBP1	2	63058260	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	76	63058260	180141113	38	8927										
TET3	200424	broad.mit.edu	37	chr2	74327961	74327961	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccaggctgttcccacagacgCccaccaccccactcctcacc	5	23	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:74327961C>T	uc002skb.3	+	9	3641	c.3641C>T	c.(3640-3642)GCC>GTC	p.A1214V		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	1214							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CCCACAGACGCCCACCACCCC	0.652													5	12	---	---	---	---	PASS	T	74327961	T	T	74327961	3	4	18	1	0	0	0	0	1	0	0	0	15768	739	26	3	3675	3	TET3	2	74327961	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	11269701	74327961	168871412	39	8928										
CAPG	822	broad.mit.edu	37	chr2	85626370	85626374	+	Frame_Shift_Del	DEL	CAGGA	-	-													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tccctcgccttgttgcgttcCaggatgttggactttccacc							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:85626370_85626374delCAGGA	uc002spl.1	-	6	801_805	c.551_555delTCCTG	c.(550-555)ATCCTGfs	p.I184fs	CAPG_uc002spm.1_Frame_Shift_Del_p.I184fs|CAPG_uc010ysq.1_Frame_Shift_Del_p.I184fs|CAPG_uc010fgi.1_Frame_Shift_Del_p.I184fs|CAPG_uc010fgj.1_Frame_Shift_Del_p.I78fs	NM_001747	NP_001738	P40121	CAPG_HUMAN	gelsolin-like capping protein	184_185	Gelsolin-like 2.				barbed-end actin filament capping|protein complex assembly	F-actin capping protein complex|melanosome|nuclear membrane|nucleolus	actin binding				0						TGTTGCGTTCCAGGATGTTGGACTT	0.605													29	16	---	---	---	---		-	85626374	-	-	85626370	7	5	18	1	0	1	0	1	0	0	0	0	2621	581	21	0	511	0	CAPG	2	85626370	Frame_Shift_Del	DEL	CAGGA	TCGA-18-5595-01A-01D-1632-08	11298409	85626370	157573003	40	8929										
CCDC93	54520	broad.mit.edu	37	chr2	118709951	118709951	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gagaatctatctgctcacctCtgtcagcgttttcttggctt	8	11	6	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:118709951C>T	uc002tlj.2	-	13	1192	c.1066G>A	c.(1066-1068)GAG>AAG	p.E356K	CCDC93_uc010fld.1_Missense_Mutation_p.E356K	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	356	Potential.									large_intestine(1)|ovary(1)	2						CTGCTCACCTCTGTCAGCGTT	0.408											OREG0003818	type=REGULATORY REGION|Gene=AK001858|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	42	58	---	---	---	---	PASS	T	118709951	T	T	118709951	3	4	18	1	0	0	0	0	1	0	0	0	2872	922	32	2	877	2	CCDC93	2	118709951	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	33083581	118709951	124489422	41	8930										
MYO7B	4648	broad.mit.edu	37	chr2	128392713	128392713	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aggggcccccgtgacgctccCctaccaggtgtacttcatgc	11	16	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:128392713C>T	uc002top.2	+	42	5707	c.5654C>T	c.(5653-5655)CCC>CTC	p.P1885L	MYO7B_uc002tos.1_5'UTR|MYO7B_uc002tot.2_5'UTR	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	1885	FERM 2.|MyTH4 3.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GTGACGCTCCCCTACCAGGTG	0.607													3	17	---	---	---	---	PASS	T	128392713	T	T	128392713	3	4	18	1	0	0	0	0	1	0	0	0	10083	623	22	3	5816	3	MYO7B	2	128392713	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	9682762	128392713	114806660	42	8931										
TANC1	85461	broad.mit.edu	37	chr2	160031616	160031616	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccccaactacagagcatgctGagcctccgatcctgtgtgca	9	15	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:160031616G>A	uc002uag.2	+	12	1930	c.1656G>A	c.(1654-1656)CTG>CTA	p.L552L	TANC1_uc010fol.1_Silent_p.L446L|TANC1_uc010zcm.1_Silent_p.L544L|TANC1_uc010fom.1_Silent_p.L358L|TANC1_uc002uai.1_5'Flank	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	552						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						AGAGCATGCTGAGCCTCCGAT	0.577													76	92	---	---	---	---	PASS	A	160031616	A	A	160031616	2	1	18	1	0	0	0	0	0	0	0	1	15541	1277	45	2		2	TANC1	2	160031616	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	31638903	160031616	83167757	43	8932										
STK17B	9262	broad.mit.edu	37	chr2	197028073	197028073	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gagttgtagttagtaggcctGaaatacttcggcaatcaaat	10	6	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:197028073G>A	uc002utk.2	-	2	359	c.35C>T	c.(34-36)TCA>TTA	p.S12L	STK17B_uc010fsh.2_Missense_Mutation_p.S12L	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	12					apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			TAGTAGGCCTGAAATACTTCG	0.343													33	56	---	---	---	---	PASS	A	197028073	A	A	197028073	3	1	18	1	0	0	0	0	1	0	0	0	15290	1294	45	2	1111	2	STK17B	2	197028073	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	36996457	197028073	46171300	44	8933										
CDK15	65061	broad.mit.edu	37	chr2	202700390	202700390	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tgcccgggccaagtccattcCcagccagacatactcttcag	8	16	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:202700390C>T	uc002uyt.2	+	8	804	c.755C>T	c.(754-756)CCC>CTC	p.P252L	CDK15_uc010ftm.2_Missense_Mutation_p.P117L|CDK15_uc002uys.2_Missense_Mutation_p.P201L|CDK15_uc010ftn.1_Missense_Mutation_p.P201L|CDK15_uc010fto.1_Missense_Mutation_p.P231L	NM_139158	NP_631897	Q96Q40	CDK15_HUMAN	PFTAIRE protein kinase 2	252	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|metal ion binding|protein binding			breast(2)|ovary(1)|lung(1)|kidney(1)	5					Adenosine triphosphate(DB00171)	AAGTCCATTCCCAGCCAGACA	0.527													14	54	---	---	---	---	PASS	T	202700390	T	T	202700390	3	4	18	1	0	0	0	0	1	0	0	0	3131	623	22	3	628	3	CDK15	2	202700390	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	5672317	202700390	40498983	45	8934										
STK36	27148	broad.mit.edu	37	chr2	219545378	219545378	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cattcccagaggagaggccaGaggtgctgggccagcggagc	17	11	0	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:219545378G>A	uc002viu.2	+	10	1455	c.1189G>A	c.(1189-1191)GAG>AAG	p.E397K	STK36_uc002viv.2_Missense_Mutation_p.E397K	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	397					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		GGAGAGGCCAGAGGTGCTGGG	0.542													10	20	---	---	---	---	PASS	A	219545378	A	A	219545378	3	1	18	1	0	0	0	0	1	0	0	0	15301	943	33	2	1223	2	STK36	2	219545378	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	16844988	219545378	23653995	46	8935										
CUL3	8452	broad.mit.edu	37	chr2	225376190	225376190	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ttacaattggttcttccgttGatttgtcaaggcagtgcatc	9	8	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr2:225376190G>C	uc002vny.2	-	6	1148	c.764C>G	c.(763-765)TCA>TGA	p.S255*	CUL3_uc010zls.1_Nonsense_Mutation_p.S189*|CUL3_uc010fwy.1_Nonsense_Mutation_p.S261*	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	255					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		TTCTTCCGTTGATTTGTCAAG	0.353													94	163	---	---	---	---	PASS	C	225376190	C	C	225376190	4	2	18	1	0	0	0	0	0	1	0	0	4056	1294	45	2	1586	2	CUL3	2	225376190	Nonsense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	5830812	225376190	17823183	47	8936										
TSEN2	80746	broad.mit.edu	37	chr3	12545158	12545158	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tcctccagcgtggccttcatCatgaagacggcagccagcac	10	15	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:12545158C>T	uc003bxc.2	+	5	1093	c.706C>T	c.(706-708)CAT>TAT	p.H236Y	TSEN2_uc003bwy.2_Missense_Mutation_p.H236Y|TSEN2_uc003bwz.2_Missense_Mutation_p.H177Y|TSEN2_uc003bxa.2_Missense_Mutation_p.H236Y|TSEN2_uc011auq.1_Missense_Mutation_p.H236Y|TSEN2_uc003bxb.2_Missense_Mutation_p.H236Y|TSEN2_uc011aur.1_Missense_Mutation_p.H145Y	NM_025265	NP_079541	Q8NCE0	SEN2_HUMAN	tRNA-intron nuclease 2 isoform 1	236					mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|nucleolus|tRNA-intron endonuclease complex	nucleic acid binding|tRNA-intron endonuclease activity			central_nervous_system(1)	1						TGGCCTTCATCATGAAGACGG	0.577													18	14	---	---	---	---	PASS	T	12545158	T	T	12545158	3	4	18	1	0	0	0	0	1	0	0	0	16609	826	29	2	720	2	TSEN2	3	12545158	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08		12545158	185477272	48	8937										
TMEM43	79188	broad.mit.edu	37	chr3	14170986	14170986	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccaggcttcctggaacggctGagcgagacctcgggtgggat	16	11	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:14170986G>A	uc003byk.2	+	2	341	c.87G>A	c.(85-87)CTG>CTA	p.L29L	TMEM43_uc003byl.1_5'Flank	NM_024334	NP_077310	Q9BTV4	TMM43_HUMAN	transmembrane protein 43	29	Nuclear (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|nuclear inner membrane				ovary(1)	1						TGGAACGGCTGAGCGAGACCT	0.493													29	58	---	---	---	---	PASS	A	14170986	A	A	14170986	2	1	18	1	0	0	0	0	0	0	0	1	16164	1277	45	2		2	TMEM43	3	14170986	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	1625828	14170986	183851444	49	8938										
EFHB	151651	broad.mit.edu	37	chr3	19938194	19938194	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctggccttgtcatagtgcctGaaggctgccagcaaagtgtc	12	11	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:19938194G>A	uc003cbl.3	-	9	1906	c.1710C>T	c.(1708-1710)TTC>TTT	p.F570F	EFHB_uc003cbm.2_Silent_p.F440F	NM_144715	NP_653316	Q8N7U6	EFHB_HUMAN	EF hand domain family, member B	570	EF-hand 1.				signal transduction	proteinaceous extracellular matrix	calcium ion binding				0						CATAGTGCCTGAAGGCTGCCA	0.433													60	103	---	---	---	---	PASS	A	19938194	A	A	19938194	2	1	18	1	0	0	0	0	0	0	0	1	4945	1281	45	2		2	EFHB	3	19938194	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	5767208	19938194	178084236	50	8939										
P4HTM	54681	broad.mit.edu	37	chr3	49039978	49039978	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	atggatggtggatgactccaGagagcattcaggagatgtac	14	6	1	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:49039978G>A	uc003cvg.2	+	4	1022	c.673G>A	c.(673-675)GAG>AAG	p.E225K	P4HTM_uc003cvh.2_Missense_Mutation_p.E225K|P4HTM_uc010hkm.1_Missense_Mutation_p.E111K	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	225	Lumenal (Potential).|EF-hand 2.					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|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			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	GATGACTCCAGAGAGCATTCA	0.587													65	117	---	---	---	---	PASS	A	49039978	A	A	49039978	3	1	18	1	0	0	0	0	1	0	0	0	11360	943	33	2	687	2	P4HTM	3	49039978	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	29101784	49039978	148982452	51	8940										
P4HTM	54681	broad.mit.edu	37	chr3	49043509	49043509	+	Missense_Mutation	SNP	G	A	A													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gcccacagagtctgattcagGatgacgtggacctccgtgac							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:49043509G>A	uc003cvg.2	+	8	1526	c.1177G>A	c.(1177-1179)GAT>AAT	p.D393N	P4HTM_uc003cvh.2_Missense_Mutation_p.D454N|WDR6_uc011bbx.1_5'Flank|WDR6_uc003cvj.2_5'Flank|WDR6_uc011bby.1_5'Flank|WDR6_uc010hkn.2_5'Flank|WDR6_uc011bbz.1_5'Flank	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	393	Lumenal (Potential).|Fe2OG dioxygenase.					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|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			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	TCTGATTCAGGATGACGTGGA	0.582													75	114	---	---	---	---	PASS	A	49043509	A	A	49043509	3	1	18	1	0	0	0	0	1	0	0	0	11360	1174	41	2	1390	2	P4HTM	3	49043509	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	3531	49043509	148978921	52	8941	259	2								
P4HTM	54681	broad.mit.edu	37	chr3	49043512	49043512	+	Missense_Mutation	SNP	G	T	T													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cacagagtctgattcaggatGacgtggacctccgtgacaca							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:49043512G>T	uc003cvg.2	+	8	1529	c.1180G>T	c.(1180-1182)GAC>TAC	p.D394Y	P4HTM_uc003cvh.2_Missense_Mutation_p.D455Y|WDR6_uc011bbx.1_5'Flank|WDR6_uc003cvj.2_5'Flank|WDR6_uc011bby.1_5'Flank|WDR6_uc010hkn.2_5'Flank|WDR6_uc011bbz.1_5'Flank	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	394	Lumenal (Potential).|Fe2OG dioxygenase.					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|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			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	GATTCAGGATGACGTGGACCT	0.582													73	112	---	---	---	---	PASS	T	49043512	T	T	49043512	3	4	18	1	0	0	0	0	1	0	0	0	11360	1290	45	2	1393	2	P4HTM	3	49043512	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	3	49043512	148978918	53	8942	259	2								
ITIH3	3699	broad.mit.edu	37	chr3	52830560	52830560	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aggtgacctcccgttttgctCacaatgttgtcaccatgaga	9	11	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:52830560C>T	uc003dfv.2	+	3	214	c.178C>T	c.(178-180)CAC>TAC	p.H60Y	ITIH3_uc011bek.1_Missense_Mutation_p.H60Y	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	60	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		CCGTTTTGCTCACAATGTTGT	0.542													14	24	---	---	---	---	PASS	T	52830560	T	T	52830560	3	4	18	1	0	0	0	0	1	0	0	0	7905	826	29	2	188	2	ITIH3	3	52830560	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	3787048	52830560	145191870	54	8943										
C3orf63	23272	broad.mit.edu	37	chr3	56681054	56681054	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tggaaacataataaactctcGtttacctgaaccaaaacctc	4	11	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:56681054G>A	uc003did.3	-	14	1812	c.1711C>T	c.(1711-1713)CGA>TGA	p.R571*	C3orf63_uc003dic.3_Nonsense_Mutation_p.R175*|C3orf63_uc003die.3_Nonsense_Mutation_p.R571*	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	571										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		ATAAACTCTCGTTTACCTGAA	0.313													40	61	---	---	---	---	PASS	A	56681054	A	A	56681054	4	1	18	1	0	0	0	0	0	1	0	0	2239	1153	40	1	3405	1	C3orf63	3	56681054	Nonsense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	3850494	56681054	141341376	55	8944										
UBA3	9039	broad.mit.edu	37	chr3	69105003	69105003	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	atacccttatgtaaaataccTttcaatgttttggagagatt	6	6	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:69105003T>A	uc003dno.2	-	17	1322	c.1302A>T	c.(1300-1302)AAA>AAT	p.K434N	UBA3_uc003dnq.2_Missense_Mutation_p.K420N|UBA3_uc011bfy.1_Missense_Mutation_p.K257N|UBA3_uc011bfz.1_Missense_Mutation_p.K257N	NM_003968	NP_003959	Q8TBC4	UBA3_HUMAN	ubiquitin-activating enzyme 3 isoform 1	434	Interaction with UBE2M core domain.				protein neddylation|proteolysis	nucleus	acid-amino acid ligase activity|ATP binding|protein heterodimerization activity			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.98e-05)|Epithelial(33;0.000363)|LUSC - Lung squamous cell carcinoma(21;0.012)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.206)|Kidney(39;0.241)		GTAAAATACCTTTCAATGTTT	0.303													30	146	---	---	---	---	PASS	A	69105003	A	A	69105003	3	1	18	1	0	0	0	0	1	0	0	0	16826	1623	56	5	97	5	UBA3	3	69105003	Missense_Mutation	SNP	T	TCGA-18-5595-01A-01D-1632-08	12423949	69105003	128917427	56	8945										
ROBO2	6092	broad.mit.edu	37	chr3	77617511	77617511	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	accacaggcaagtgcagaaaGagctaggagatgtccttgtc	12	9	0	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:77617511G>C	uc003dpy.3	+	13	2540	c.1897G>C	c.(1897-1899)GAG>CAG	p.E633Q	ROBO2_uc003dpz.2_Missense_Mutation_p.E637Q|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.E637Q	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	633	Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		AGTGCAGAAAGAGCTAGGAGA	0.433													7	135	---	---	---	---	PASS	C	77617511	C	C	77617511	3	2	18	1	0	0	0	0	1	0	0	0	13514	943	33	2	1949	2	ROBO2	3	77617511	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	8512508	77617511	120404919	57	8946										
ROBO1	6091	broad.mit.edu	37	chr3	78684989	78684989	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cacttcttgtttctgctgtcCcagtggtttccagtgcttct	8	12	3	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:78684989C>T	uc003dqe.2	-	23	3515	c.3307G>A	c.(3307-3309)GGA>AGA	p.G1103R	ROBO1_uc003dqb.2_Missense_Mutation_p.G1064R|ROBO1_uc003dqc.2_Missense_Mutation_p.G1003R|ROBO1_uc003dqd.2_Missense_Mutation_p.G1058R|ROBO1_uc010hoh.2_Missense_Mutation_p.G295R|ROBO1_uc011bgl.1_Missense_Mutation_p.G675R	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1103	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TTCTGCTGTCCCAGTGGTTTC	0.502													28	160	---	---	---	---	PASS	T	78684989	T	T	78684989	3	4	18	1	0	0	0	0	1	0	0	0	13513	632	22	3	1684	3	ROBO1	3	78684989	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1067478	78684989	119337441	58	8947										
ZPLD1	131368	broad.mit.edu	37	chr3	102175056	102175056	+	Missense_Mutation	SNP	T	A	A													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggtatccacaattcctggagTcagtgcttatggaaatgcaa							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:102175056T>A	uc003dvs.1	+	11	1229	c.347T>A	c.(346-348)GTC>GAC	p.V116D	ZPLD1_uc003dvt.1_Missense_Mutation_p.V132D|ZPLD1_uc011bhg.1_Missense_Mutation_p.V116D	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	116	ZP.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						ATTCCTGGAGTCAGTGCTTAT	0.358													23	119	---	---	---	---	PASS	A	102175056	A	A	102175056	3	1	18	1	0	0	0	0	1	0	0	0	18218	1667	58	5	409	5	ZPLD1	3	102175056	Missense_Mutation	SNP	T	TCGA-18-5595-01A-01D-1632-08	23490067	102175056	95847374	59	8948	260	2								
ZPLD1	131368	broad.mit.edu	37	chr3	102175057	102175057	+	Silent	SNP	C	G	G													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtatccacaattcctggagtCagtgcttatggaaatgcaac							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:102175057C>G	uc003dvs.1	+	11	1230	c.348C>G	c.(346-348)GTC>GTG	p.V116V	ZPLD1_uc003dvt.1_Silent_p.V132V|ZPLD1_uc011bhg.1_Silent_p.V116V	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	116	ZP.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						TTCCTGGAGTCAGTGCTTATG	0.363													24	123	---	---	---	---	PASS	G	102175057	G	G	102175057	2	3	18	1	0	0	0	0	0	0	0	1	18218	813	29	2		2	ZPLD1	3	102175057	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	1	102175057	95847373	60	8949	260	2								
DZIP3	9666	broad.mit.edu	37	chr3	108403129	108403129	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gacccatacttactgttcctCaaatgcctgcagtttgcccg	7	14	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:108403129C>G	uc003dxd.2	+	27	3372	c.2950C>G	c.(2950-2952)CAA>GAA	p.Q984E	DZIP3_uc003dxf.1_Missense_Mutation_p.Q984E|DZIP3_uc011bhm.1_Missense_Mutation_p.Q435E	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	984					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TACTGTTCCTCAAATGCCTGC	0.393													168	245	---	---	---	---	PASS	G	108403129	G	G	108403129	3	3	18	1	0	0	0	0	1	0	0	0	4865	827	29	2	3052	2	DZIP3	3	108403129	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	6228072	108403129	89619301	61	8950										
WDR52	55779	broad.mit.edu	37	chr3	113135402	113135402	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tctgtatggtctcagagaagGatattcatagatgataatat	9	4	3	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:113135402G>A	uc003eae.1	-	6	689	c.643C>T	c.(643-645)CCT>TCT	p.P215S		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	215										central_nervous_system(1)	1						CTCAGAGAAGGATATTCATAG	0.333													16	36	---	---	---	---	PASS	A	113135402	A	A	113135402	3	1	18	1	0	0	0	0	1	0	0	0	17301	1174	41	2	5056	2	WDR52	3	113135402	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	4732273	113135402	84887028	62	8951										
KIAA2018	205717	broad.mit.edu	37	chr3	113378598	113378598	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tttgtgttgagttagacgctGataaagatgaaggtcttggt	13	3	1	5			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:113378598G>A	uc003eam.2	-	7	2342	c.1931C>T	c.(1930-1932)TCA>TTA	p.S644L	KIAA2018_uc003eal.2_Missense_Mutation_p.S588L	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	644					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						GTTAGACGCTGATAAAGATGA	0.393													88	118	---	---	---	---	PASS	A	113378598	A	A	113378598	3	1	18	1	0	0	0	0	1	0	0	0	8268	1294	45	2	4810	2	KIAA2018	3	113378598	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	243196	113378598	84643832	63	8952										
ZBTB20	26137	broad.mit.edu	37	chr3	114070442	114070442	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gactgcgagacccgtagcacGccgctgtacatgaagtcaat	11	12	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:114070442G>A	uc003ebi.2	-	4	663	c.483C>T	c.(481-483)GGC>GGT	p.G161G	ZBTB20_uc003ebj.2_Silent_p.G88G|ZBTB20_uc010hqp.2_Silent_p.G88G|ZBTB20_uc003ebk.2_Silent_p.G88G|ZBTB20_uc003ebl.2_Silent_p.G88G|ZBTB20_uc003ebm.2_Silent_p.G88G|ZBTB20_uc003ebn.2_Silent_p.G88G|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	161	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		CCCGTAGCACGCCGCTGTACA	0.567													27	51	---	---	---	---	PASS	A	114070442	A	A	114070442	2	1	18	1	0	0	0	0	0	0	0	1	17526	1074	38	1		1	ZBTB20	3	114070442	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	691844	114070442	83951988	64	8953										
PARP9	83666	broad.mit.edu	37	chr3	122269520	122269520	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggcaaatgttaaaacttcatCaaacaaaatctctgctgctg	6	9	3	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:122269520C>G	uc010hri.2	-	6	1487	c.1342G>C	c.(1342-1344)GAT>CAT	p.D448H	PARP9_uc003eff.3_Missense_Mutation_p.D413H|PARP9_uc011bjs.1_Missense_Mutation_p.D413H|PARP9_uc003efg.2_Intron|PARP9_uc003efi.2_Missense_Mutation_p.D413H|PARP9_uc003efh.2_Missense_Mutation_p.D448H|PARP9_uc003efj.2_Missense_Mutation_p.D413H	NM_001146102	NP_001139574	Q8IXQ6	PARP9_HUMAN	poly (ADP-ribose) polymerase family, member 9	448	Macro 2.				cell migration	cytosol|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)|pancreas(1)|prostate(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0519)		AAAACTTCATCAAACAAAATC	0.338													81	94	---	---	---	---	PASS	G	122269520	G	G	122269520	3	3	18	1	0	0	0	0	1	0	0	0	11466	826	29	2	1299	2	PARP9	3	122269520	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	8199078	122269520	75752910	65	8954										
MYLK	4638	broad.mit.edu	37	chr3	123376143	123376143	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccttccacgtcttgttggctGagtcccagatctcgatgctg	10	13	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:123376143G>A	uc003ego.2	-	24	4400	c.4118C>T	c.(4117-4119)TCA>TTA	p.S1373L	MYLK_uc010hrr.2_5'UTR|MYLK_uc011bjv.1_Missense_Mutation_p.S173L|MYLK_uc011bjw.1_Missense_Mutation_p.S1373L|MYLK_uc003egp.2_Missense_Mutation_p.S1304L|MYLK_uc003egq.2_Missense_Mutation_p.S1373L|MYLK_uc003egr.2_Missense_Mutation_p.S1304L|MYLK_uc003egs.2_Missense_Mutation_p.S1197L	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1373	Actin-binding (calcium/calmodulin- insensitive) (By similarity).|Fibronectin type-III.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CTTGTTGGCTGAGTCCCAGAT	0.552													20	137	---	---	---	---	PASS	A	123376143	A	A	123376143	3	1	18	1	0	0	0	0	1	0	0	0	10056	1294	45	2	1670	2	MYLK	3	123376143	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	1106623	123376143	74646287	66	8955										
IFT122	55764	broad.mit.edu	37	chr3	129226555	129226555	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ttggcaagttctaccacttcCagcgtttggcagagctgtac	10	11	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:129226555C>T	uc003emm.2	+	23	3042	c.2836C>T	c.(2836-2838)CAG>TAG	p.Q946*	IFT122_uc003eml.2_Nonsense_Mutation_p.Q997*|IFT122_uc003emn.2_Nonsense_Mutation_p.Q887*|IFT122_uc003emo.2_Nonsense_Mutation_p.Q836*|IFT122_uc003emp.2_Nonsense_Mutation_p.Q796*|IFT122_uc010htc.2_Nonsense_Mutation_p.Q939*|IFT122_uc011bky.1_Nonsense_Mutation_p.Q737*|IFT122_uc003emq.2_Nonsense_Mutation_p.Q786*|IFT122_uc003emr.2_Nonsense_Mutation_p.Q699*|IFT122_uc011bla.1_Nonsense_Mutation_p.Q720*|IFT122_uc010hte.2_Nonsense_Mutation_p.Q272*|IFT122_uc003ems.2_Nonsense_Mutation_p.Q328*|IFT122_uc011bkx.1_Nonsense_Mutation_p.Q787*|IFT122_uc010htd.1_Nonsense_Mutation_p.Q425*	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	946					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						CTACCACTTCCAGCGTTTGGC	0.572													113	123	---	---	---	---	PASS	T	129226555	T	T	129226555	4	4	18	1	0	0	0	0	0	1	0	0	7555	595	21	3	3086	3	IFT122	3	129226555	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	5850412	129226555	68795875	67	8956										
CPNE4	131034	broad.mit.edu	37	chr3	131261514	131261514	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	catctgcatgtcactgaagtCagcgttccctactcccacga	7	15	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:131261514C>T	uc003eok.2	-	15	1861	c.1426G>A	c.(1426-1428)GAC>AAC	p.D476N	CPNE4_uc011blq.1_Missense_Mutation_p.D494N|CPNE4_uc003eol.2_Missense_Mutation_p.D494N|CPNE4_uc003eom.2_Missense_Mutation_p.D476N|CPNE4_uc003eoj.2_Missense_Mutation_p.D27N	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	476	VWFA.									upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TCACTGAAGTCAGCGTTCCCT	0.562													37	149	---	---	---	---	PASS	T	131261514	T	T	131261514	3	4	18	1	0	0	0	0	1	0	0	0	3814	826	29	2	255	2	CPNE4	3	131261514	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	2034959	131261514	66760916	68	8957										
RBP2	5948	broad.mit.edu	37	chr3	139173596	139173596	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	acagcttgtccccctcaatcCactgcttccagccgcggttc	7	18	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:139173596C>T	uc003eth.2	-	3	380	c.329G>A	c.(328-330)TGG>TAG	p.W110*		NM_004164	NP_004155	P50120	RET2_HUMAN	retinol binding protein 2, cellular	110					epidermis development|retinoid metabolic process|steroid metabolic process|vitamin A metabolic process	cytosol	retinal binding|retinol binding|transporter activity			skin(1)	1					Vitamin A(DB00162)	CCCCTCAATCCACTGCTTCCA	0.532													121	169	---	---	---	---	PASS	T	139173596	T	T	139173596	4	4	18	1	0	0	0	0	0	1	0	0	13156	595	21	3	83	3	RBP2	3	139173596	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	7912082	139173596	58848834	69	8958										
TRPC1	7220	broad.mit.edu	37	chr3	142503613	142503613	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tggacagatgtcgggttaccGacgcaagcccacctgtaaga	12	11	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:142503613G>T	uc003evc.2	+	7	1164	c.1028G>T	c.(1027-1029)CGA>CTA	p.R343L	TRPC1_uc003evb.2_Missense_Mutation_p.R309L	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	343	Cytoplasmic (Potential).				axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						TCGGGTTACCGACGCAAGCCC	0.418													127	52	---	---	---	---	PASS	T	142503613	T	T	142503613	3	4	18	1	0	0	0	0	1	0	0	0	16575	1058	37	2	948	2	TRPC1	3	142503613	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	3330017	142503613	55518817	70	8959										
MED12L	116931	broad.mit.edu	37	chr3	150906168	150906168	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtgaatcagaagtcttagatGagaaggagtctatttcttca	10	5	5	4			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:150906168G>A	uc003eyp.2	+	12	1692	c.1654G>A	c.(1654-1656)GAG>AAG	p.E552K	MED12L_uc011bnz.1_Missense_Mutation_p.E412K|MED12L_uc003eyn.2_Missense_Mutation_p.E552K|MED12L_uc003eyo.2_Missense_Mutation_p.E552K	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	552					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)			AGTCTTAGATGAGAAGGAGTC	0.348													53	188	---	---	---	---	PASS	A	150906168	A	A	150906168	3	1	18	1	0	0	0	0	1	0	0	0	9429	1291	45	2	1700	2	MED12L	3	150906168	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	8402555	150906168	47116262	71	8960										
KPNA4	3840	broad.mit.edu	37	chr3	160219934	160219934	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggtacattggcagatgaattGaaaccaaatgttccgccttg	10	8	0	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:160219934G>A	uc003fdn.2	-	17	1830	c.1524C>T	c.(1522-1524)TTC>TTT	p.F508F		NM_002268	NP_002259	O00629	IMA4_HUMAN	karyopherin alpha 4	508					NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			CAGATGAATTGAAACCAAATG	0.338													88	399	---	---	---	---	PASS	A	160219934	A	A	160219934	2	1	18	1	0	0	0	0	0	0	0	1	8432	1281	45	2		2	KPNA4	3	160219934	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	9313766	160219934	37802496	72	8961										
LRRIQ4	344657	broad.mit.edu	37	chr3	169546552	169546552	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ttggaatacttctagttaccTtcagaattgggctcactttc	7	9	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:169546552T>C	uc003fgb.2	+	2	1026	c.1026T>C	c.(1024-1026)CCT>CCC	p.P342P		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	342	LRR 14.										0						TCTAGTTACCTTCAGAATTGG	0.378													6	256	---	---	---	---	PASS	C	169546552	C	C	169546552	2	2	18	1	0	0	0	0	0	0	0	1	9031	1596	56	5		5	LRRIQ4	3	169546552	Silent	SNP	T	TCGA-18-5595-01A-01D-1632-08	9326618	169546552	28475878	73	8962										
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	atcctctctctgaaatcactGagcaggagaaagattttcta	7	9	4	4	rs104886003		TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			85	103	---	---	---	---	PASS	A	178936091	A	A	178936091	3	1	18	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	9389539	178936091	19086339	74	8963										
PIK3CA	5290	broad.mit.edu	37	chr3	178938934	178938934	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tcaaacaggagaagaaggatGaaacacaaaaggtgtgtgac	12	5	1	4			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:178938934G>A	uc003fjk.2	+	14	2333	c.2176G>A	c.(2176-2178)GAA>AAA	p.E726K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	726					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E726K(2)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GAAGAAGGATGAAACACAAAA	0.363		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			16	124	---	---	---	---	PASS	A	178938934	A	A	178938934	3	1	18	1	0	0	0	0	1	0	0	0	11913	1291	45	2	2226	2	PIK3CA	3	178938934	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	2843	178938934	19083496	75	8964										
KLHL24	54800	broad.mit.edu	37	chr3	183382716	183382716	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tttgcatttcaaggtggaagAatcaacagccgtgatgtctg	11	7	3	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:183382716A>G	uc003flv.2	+	5	1408	c.1113A>G	c.(1111-1113)AGA>AGG	p.R371R	KLHL24_uc003flw.2_Silent_p.R371R|KLHL24_uc003flx.2_Silent_p.R371R	NM_017644	NP_060114	Q6TFL4	KLH24_HUMAN	DRE1 protein	371	Kelch 2.					axon|cytoplasm|perikaryon				ovary(1)	1	all_cancers(143;2.88e-10)|Ovarian(172;0.0303)		all cancers(12;1.43e-42)|Epithelial(37;1.73e-36)|OV - Ovarian serous cystadenocarcinoma(80;8.75e-22)			AAGGTGGAAGAATCAACAGCC	0.403													48	513	---	---	---	---	PASS	G	183382716	G	G	183382716	2	3	18	1	0	0	0	0	0	0	0	1	8379	243	9	5		5	KLHL24	3	183382716	Silent	SNP	A	TCGA-18-5595-01A-01D-1632-08	4443782	183382716	14639714	76	8965										
YEATS2	55689	broad.mit.edu	37	chr3	183528294	183528294	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aaattacagtgagtaatattCaccaggccatttgcaacatt	6	8	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:183528294C>T	uc003fly.2	+	31	4387	c.4192C>T	c.(4192-4194)CAC>TAC	p.H1398Y		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	1398					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)			GAGTAATATTCACCAGGCCAT	0.413													22	104	---	---	---	---	PASS	T	183528294	T	T	183528294	3	4	18	1	0	0	0	0	1	0	0	0	17469	826	29	2	4310	2	YEATS2	3	183528294	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	145578	183528294	14494136	77	8966										
ECE2	9718	broad.mit.edu	37	chr3	184002858	184002858	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tatgggatggattatttgcaGcaggtgtcagagctcatcaa	12	6	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:184002858G>A	uc003fni.3	+	9	1505	c.1467G>A	c.(1465-1467)CAG>CAA	p.Q489Q	ECE2_uc011brh.1_Silent_p.Q342Q|ECE2_uc003fnl.3_Silent_p.Q417Q|ECE2_uc003fnm.3_Silent_p.Q371Q|ECE2_uc003fnk.3_Silent_p.Q342Q|ECE2_uc011bri.1_Silent_p.Q404Q|ECE2_uc010hxv.2_Silent_p.Q133Q	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	489	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ATTATTTGCAGCAGGTGTCAG	0.562											OREG0015945	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	389	---	---	---	---	PASS	A	184002858	A	A	184002858	2	1	18	1	0	0	0	0	0	0	0	1	4890	962	34	3		3	ECE2	3	184002858	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	474564	184002858	14019572	78	8967										
C3orf21	152002	broad.mit.edu	37	chr3	194991425	194991425	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aggcgcagcagtgagcgcagCgcgacgcgggccttggcctg	18	13	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr3:194991425C>T	uc003fum.3	-	1	471	c.363G>A	c.(361-363)GCG>GCA	p.A121A		NM_152531	NP_689744	Q8NBI6	CC021_HUMAN	hypothetical protein LOC152002	121						integral to membrane	transferase activity, transferring glycosyl groups				0	all_cancers(143;9.33e-09)|Ovarian(172;0.0634)		Epithelial(36;1.73e-20)|all cancers(36;1.42e-18)|OV - Ovarian serous cystadenocarcinoma(49;1.56e-17)|Lung(62;0.000117)|LUSC - Lung squamous cell carcinoma(58;0.000146)	GBM - Glioblastoma multiforme(46;1.36e-05)		GTGAGCGCAGCGCGACGCGGG	0.687													56	24	---	---	---	---	PASS	T	194991425	T	T	194991425	2	4	18	1	0	0	0	0	0	0	0	1	2214	755	27	1		1	C3orf21	3	194991425	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	10988567	194991425	3031005	79	8968										
ZFYVE28	57732	broad.mit.edu	37	chr4	2306648	2306648	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctgcaggagctggtgcccgcGaggctggccccatctgtgcc	15	15	1	0	rs143269293		TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr4:2306648G>A	uc003gex.1	-	8	1738	c.1419C>T	c.(1417-1419)CTC>CTT	p.L473L	ZFYVE28_uc011bvk.1_Silent_p.L403L|ZFYVE28_uc011bvl.1_Silent_p.L443L|ZFYVE28_uc003gew.1_Silent_p.L359L	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	473					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						TGGTGCCCGCGAGGCTGGCCC	0.682													4	142	---	---	---	---	PASS	A	2306648	A	A	2306648	2	1	18	1	0	0	0	0	0	0	0	1	17667	1045	37	2		2	ZFYVE28	4	2306648	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08		2306648	188847628	80	8969										
HSD17B11	51170	broad.mit.edu	37	chr4	88261719	88261719	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtcagaatcccatgcatcagCctgtttaccacttcctcagg	7	14	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr4:88261719C>G	uc003hqp.2	-	6	968	c.735G>C	c.(733-735)AGG>AGC	p.R245S		NM_016245	NP_057329	Q8NBQ5	DHB11_HUMAN	estradiol 17-beta-dehydrogenase 11	245					androgen catabolic process|steroid biosynthetic process	cytoplasm|extracellular region	binding|estradiol 17-beta-dehydrogenase activity			ovary(2)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000339)		CATGCATCAGCCTGTTTACCA	0.403													21	76	---	---	---	---	PASS	G	88261719	G	G	88261719	3	3	18	1	0	0	0	0	1	0	0	0	7380	738	26	4	175	4	HSD17B11	4	88261719	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	85955071	88261719	102892557	81	8970										
SMARCAD1	56916	broad.mit.edu	37	chr4	95200089	95200089	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ttgagtcacagaaaaaaacaCagaaatgtgcaatgtcatga	8	6	2	4			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr4:95200089C>G	uc003htc.3	+	19	2561	c.2306C>G	c.(2305-2307)ACA>AGA	p.T769R	SMARCAD1_uc003htb.3_Missense_Mutation_p.T771R|SMARCAD1_uc003htd.3_Missense_Mutation_p.T771R|SMARCAD1_uc010ila.2_Missense_Mutation_p.T634R|SMARCAD1_uc011cdw.1_Missense_Mutation_p.T339R	NM_020159	NP_064544	Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated	769					chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		GAAAAAAACACAGAAATGTGC	0.323													9	49	---	---	---	---	PASS	G	95200089	G	G	95200089	3	3	18	1	0	0	0	0	1	0	0	0	14772	478	17	4	2382	4	SMARCAD1	4	95200089	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	6938370	95200089	95954187	82	8971										
FAT4	79633	broad.mit.edu	37	chr4	126412458	126412458	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aggccactgtctagaacaagGaatccagcggatggcattcc	11	11	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr4:126412458G>T	uc003ifj.3	+	17	14481	c.14481G>T	c.(14479-14481)AGG>AGT	p.R4827S	FAT4_uc011cgp.1_Missense_Mutation_p.R3068S|FAT4_uc003ifi.1_Missense_Mutation_p.R2304S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4827	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTAGAACAAGGAATCCAGCGG	0.502													17	93	---	---	---	---	PASS	T	126412458	T	T	126412458	3	4	18	1	0	0	0	0	1	0	0	0	5692	1165	41	2	14547	2	FAT4	4	126412458	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	31212369	126412458	64741818	83	8972										
PCDH10	57575	broad.mit.edu	37	chr4	134072188	134072188	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccacatttcgccccgggcgcGggagcttttcggactctcgc	12	16	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr4:134072188G>T	uc003iha.2	+	1	1719	c.893G>T	c.(892-894)CGG>CTG	p.R298L	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.R298L	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	298	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CCCCGGGCGCGGGAGCTTTTC	0.622													36	63	---	---	---	---	PASS	T	134072188	T	T	134072188	3	4	18	1	0	0	0	0	1	0	0	0	11507	1116	39	1	895	1	PCDH10	4	134072188	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	7659730	134072188	57082088	84	8973										
NAA15	80155	broad.mit.edu	37	chr4	140264007	140264007	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggtatcagttacttcagcttCgacctgcgcagagagcatca	10	11	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr4:140264007C>T	uc003ihu.1	+	5	686	c.430C>T	c.(430-432)CGA>TGA	p.R144*		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	144					angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2						ACTTCAGCTTCGACCTGCGCA	0.348													75	102	---	---	---	---	PASS	T	140264007	T	T	140264007	4	4	18	1	0	0	0	0	0	1	0	0	10118	876	31	2	448	2	NAA15	4	140264007	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	6191819	140264007	50890269	85	8974										
FBXW7	55294	broad.mit.edu	37	chr4	153247289	153247289	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gccatcatattgaacacagcGgactgctgcaacatgaccca	8	13	1	2	rs149680468		TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr4:153247289G>T	uc003ims.2	-	10	1662	c.1513C>A	c.(1513-1515)CGC>AGC	p.R505S	FBXW7_uc011cii.1_Missense_Mutation_p.R505S|FBXW7_uc003imt.2_Missense_Mutation_p.R505S|FBXW7_uc011cih.1_Missense_Mutation_p.R329S|FBXW7_uc003imq.2_Missense_Mutation_p.R425S|FBXW7_uc003imr.2_Missense_Mutation_p.R387S	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	505	WD 4.		R -> L (in an ovarian cancer cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R505C(36)|p.R505L(6)|p.R505G(4)|p.R425C(2)|p.R425G(2)|p.R266G(2)|p.R505H(2)|p.R505S(1)|p.R505P(1)|p.R266C(1)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TGAACACAGCGGACTGCTGCA	0.468			Mis|N|D|F		colorectal|endometrial|T-ALL								56	78	---	---	---	---	PASS	T	153247289	T	T	153247289	3	4	18	1	0	0	0	0	1	0	0	0	5769	1116	39	1	622	1	FBXW7	4	153247289	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	12983282	153247289	37906987	86	8975										
AADAT	51166	broad.mit.edu	37	chr4	170994374	170994374	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtataaagaaatttgggggtGtttttctggggattctttgc	13	3	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr4:170994374G>A	uc003isr.2	-	5	909	c.567C>T	c.(565-567)AAC>AAT	p.N189N	AADAT_uc003iss.2_Silent_p.N189N|AADAT_uc003ist.2_Silent_p.N193N	NM_016228	NP_057312	Q8N5Z0	AADAT_HUMAN	kynurenine aminotransferase II	189					2-oxoglutarate metabolic process|biosynthetic process|glutamate metabolic process|lysine catabolic process	mitochondrial matrix	2-aminoadipate transaminase activity|kynurenine-oxoglutarate transaminase activity|protein homodimerization activity				0		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0355)|LUSC - Lung squamous cell carcinoma(193;0.118)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	ATTTGGGGGTGTTTTTCTGGG	0.388													101	132	---	---	---	---	PASS	A	170994374	A	A	170994374	2	1	18	1	0	0	0	0	0	0	0	1	14	1368	48	3		3	AADAT	4	170994374	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	17747085	170994374	20159902	87	8976										
CYP4V2	285440	broad.mit.edu	37	chr4	187130031	187130031	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ttcatcagggaagtctgaccGtcccgctacagtagaagacc	10	12	3	3	rs138739819	byFrequency	TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr4:187130031G>A	uc003iyw.3	+	9	1407	c.1103G>A	c.(1102-1104)CGT>CAT	p.R368H	CYP4V2_uc010ism.2_RNA	NM_207352	NP_997235	Q6ZWL3	CP4V2_HUMAN	cytochrome P450, family 4, subfamily v,	368					response to stimulus|visual perception	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.33e-10)|BRCA - Breast invasive adenocarcinoma(30;3.84e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000293)|LUSC - Lung squamous cell carcinoma(40;0.00242)|READ - Rectum adenocarcinoma(43;0.17)		AAGTCTGACCGTCCCGCTACA	0.468													63	101	---	---	---	---	PASS	A	187130031	A	A	187130031	3	1	18	1	0	0	0	0	1	0	0	0	4192	1145	40	1	1137	1	CYP4V2	4	187130031	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	16135657	187130031	4024245	88	8977										
DNAH5	1767	broad.mit.edu	37	chr5	13793676	13793676	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aacgtgcaattaaatatagaGaactgcctcttgagtctttg	8	7	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr5:13793676G>C	uc003jfd.2	-	49	8214	c.8172C>G	c.(8170-8172)TTC>TTG	p.F2724L		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2724	AAA 3 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TAAATATAGAGAACTGCCTCT	0.502									Kartagener_syndrome				41	162	---	---	---	---	PASS	C	13793676	C	C	13793676	3	2	18	1	0	0	0	0	1	0	0	0	4604	933	33	2	5826	2	DNAH5	5	13793676	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08		13793676	167121584	89	8978										
CCDC125	202243	broad.mit.edu	37	chr5	68602672	68602672	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tttttggatccaagattcctCtatatttttaaatctattat	3	6	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr5:68602672C>G	uc003jvv.1	-	5	632	c.589G>C	c.(589-591)GAG>CAG	p.E197Q	CCDC125_uc003jvx.1_Missense_Mutation_p.E196Q|CCDC125_uc003jvy.1_Intron|CCDC125_uc003jvw.2_Missense_Mutation_p.E72Q	NM_176816	NP_789786	Q86Z20	CC125_HUMAN	coiled-coil domain containing 125	197	Potential.					cytoplasm					0		Lung NSC(167;7.26e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.2e-56)|Epithelial(20;2.31e-52)|all cancers(19;5.85e-48)|Lung(70;0.0183)		CAAGATTCCTCTATATTTTTA	0.269													58	88	---	---	---	---	PASS	G	68602672	G	G	68602672	3	3	18	1	0	0	0	0	1	0	0	0	2761	922	32	2	974	2	CCDC125	5	68602672	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	54808996	68602672	112312588	90	8979										
TMEM174	134288	broad.mit.edu	37	chr5	72469927	72469927	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agctagaagagacacagctgGaagaggaggcctgtgcctgc	15	9	0	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr5:72469927G>A	uc010izc.2	+	2	715	c.667G>A	c.(667-669)GAA>AAA	p.E223K		NM_153217	NP_694949	Q8WUU8	TM174_HUMAN	transmembrane protein 174	223						integral to membrane				ovary(1)	1		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.46e-54)		GACACAGCTGGAAGAGGAGGC	0.468													46	66	---	---	---	---	PASS	A	72469927	A	A	72469927	3	1	18	1	0	0	0	0	1	0	0	0	16087	1175	41	2	673	2	TMEM174	5	72469927	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	3867255	72469927	108445333	91	8980										
CMYA5	202333	broad.mit.edu	37	chr5	79032599	79032599	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gagatatgccagatcacagtGaagaaaaagaacagttcaga	10	6	2	6			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr5:79032599G>T	uc003kgc.2	+	2	8083	c.8011G>T	c.(8011-8013)GAA>TAA	p.E2671*		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2671						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AGATCACAGTGAAGAAAAAGA	0.398													3	42	---	---	---	---	PASS	T	79032599	T	T	79032599	4	4	18	1	0	0	0	0	0	1	0	0	3590	1291	45	2	8017	2	CMYA5	5	79032599	Nonsense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	6562672	79032599	101882661	92	8981										
MTX3	345778	broad.mit.edu	37	chr5	79284338	79284338	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aggctgtcctctggtcaggaGaatcctattcagtgctccct	10	12	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr5:79284338G>A	uc010jag.2	-	5	478	c.451C>T	c.(451-453)CTC>TTC	p.L151F	MTX3_uc010jah.2_Missense_Mutation_p.L151F|MTX3_uc003kge.3_Missense_Mutation_p.L90F|MTX3_uc003kgf.1_5'Flank	NM_001010891	NP_001010891	Q5HYI7	MTX3_HUMAN	metaxin 3	151					protein targeting to mitochondrion	mitochondrial outer membrane					0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.63e-45)|Epithelial(54;2.9e-40)|all cancers(79;4.68e-35)		CTGGTCAGGAGAATCCTATTC	0.463													9	19	---	---	---	---	PASS	A	79284338	A	A	79284338	3	1	18	1	0	0	0	0	1	0	0	0	9969	942	33	2	507	2	MTX3	5	79284338	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	251739	79284338	101630922	93	8982										
FER	2241	broad.mit.edu	37	chr5	108436132	108436132	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cctttctgagaaggaagaagGatgaactaaaactcaaacag	9	7	2	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr5:108436132G>C	uc003kop.1	+	17	2344	c.1960G>C	c.(1960-1962)GAT>CAT	p.D654H	FER_uc011cvg.1_Missense_Mutation_p.D479H	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	654	Protein kinase.				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)		AAGGAAGAAGGATGAACTAAA	0.358													31	26	---	---	---	---	PASS	C	108436132	C	C	108436132	3	2	18	1	0	0	0	0	1	0	0	0	5813	1174	41	2	2018	2	FER	5	108436132	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	29151794	108436132	72479128	94	8983										
SLC22A4	6583	broad.mit.edu	37	chr5	131630483	131630483	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtgccggacgccgcgaacctGagcagcgcctggcgcaacaa	14	15	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr5:131630483G>C	uc003kwq.2	+	1	339	c.174G>C	c.(172-174)CTG>CTC	p.L58L	uc003kwm.3_Intron|SLC22A4_uc010jdq.1_5'Flank	NM_003059	NP_003050	Q9H015	S22A4_HUMAN	solute carrier family 22 member 4	58	Extracellular (Potential).				body fluid secretion|sodium ion transport	apical plasma membrane|integral to plasma membrane|mitochondrion	ATP binding|carnitine transporter activity|cation:cation antiporter activity|PDZ domain binding|secondary active organic cation transmembrane transporter activity|symporter activity				0		all_cancers(142;0.0752)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Carnitine(DB00583)	CCGCGAACCTGAGCAGCGCCT	0.682													19	50	---	---	---	---	PASS	C	131630483	C	C	131630483	2	2	18	1	0	0	0	0	0	0	0	1	14456	1277	45	2		2	SLC22A4	5	131630483	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	23194351	131630483	49284777	95	8984										
PCDHB15	56121	broad.mit.edu	37	chr5	140626008	140626008	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tttattacagctctcaggagAtagacaaaccttttgagcta	7	8	1	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr5:140626008A>G	uc003lje.2	+	1	862	c.862A>G	c.(862-864)ATA>GTA	p.I288V		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	288	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTCTCAGGAGATAGACAAACC	0.413													3	95	---	---	---	---	PASS	G	140626008	G	G	140626008	3	3	18	1	0	0	0	0	1	0	0	0	11540	333	12	5	864	5	PCDHB15	5	140626008	Missense_Mutation	SNP	A	TCGA-18-5595-01A-01D-1632-08	8995525	140626008	40289252	96	8985										
PCDHGB2	56103	broad.mit.edu	37	chr5	140740504	140740504	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tgcttcaagtgacagccaccGaccgggatgaaggcataaac	11	11	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr5:140740504G>A	uc003ljs.1	+	1	802	c.802G>A	c.(802-804)GAC>AAC	p.D268N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Missense_Mutation_p.D268N	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	268	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACAGCCACCGACCGGGATGA	0.493													14	43	---	---	---	---	PASS	A	140740504	A	A	140740504	3	1	18	1	0	0	0	0	1	0	0	0	11563	1058	37	2	804	2	PCDHGB2	5	140740504	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	114496	140740504	40174756	97	8986										
PCDHGA6	56109	broad.mit.edu	37	chr5	140755477	140755477	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tggctgtcctaccgcctgctCaaggccagcgagccaggact	12	15	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr5:140755477C>T	uc003ljy.1	+	1	1827	c.1827C>T	c.(1825-1827)CTC>CTT	p.L609L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.L609L	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	609	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCGCCTGCTCAAGGCCAGCG	0.692													10	104	---	---	---	---	PASS	T	140755477	T	T	140755477	2	4	18	1	0	0	0	0	0	0	0	1	11558	813	29	2		2	PCDHGA6	5	140755477	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	14973	140755477	40159783	98	8987										
DBN1	1627	broad.mit.edu	37	chr5	176884741	176884741	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tcctcctcctgtgattgactGaagtacccctcactggcctg	8	15	1	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr5:176884741G>C	uc003mgy.2	-	13	1966	c.1794C>G	c.(1792-1794)TTC>TTG	p.F598L	DBN1_uc011dga.1_Missense_Mutation_p.F330L|DBN1_uc003mgx.2_Missense_Mutation_p.F600L|DBN1_uc010jkn.1_Missense_Mutation_p.F548L	NM_004395	NP_004386	Q16643	DREB_HUMAN	drebrin 1 isoform a	598					actin filament organization|regulation of dendrite development|regulation of neuronal synaptic plasticity	actomyosin|cytoplasm|dendrite	actin binding|profilin binding			breast(3)|ovary(1)|lung(1)|skin(1)	6	all_cancers(89;2.17e-05)|Renal(175;0.000269)|Lung NSC(126;0.0014)|all_lung(126;0.0025)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTGATTGACTGAAGTACCCCT	0.597											OREG0016462	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	24	---	---	---	---	PASS	C	176884741	C	C	176884741	3	2	18	1	0	0	0	0	1	0	0	0	4252	1281	45	2	163	2	DBN1	5	176884741	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	36129264	176884741	4030519	99	8988										
C5orf45	51149	broad.mit.edu	37	chr5	179264608	179264608	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gcctgctgaggccttctcttGaggcctgtgctctgggggtc	15	12	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr5:179264608G>A	uc003mla.2	-	7	859	c.815C>T	c.(814-816)TCA>TTA	p.S272L	SQSTM1_uc011dgr.1_3'UTR|SQSTM1_uc011dgs.1_3'UTR|SQSTM1_uc003mkw.3_3'UTR|SQSTM1_uc003mkx.2_3'UTR|C5orf45_uc003mky.2_Intron|C5orf45_uc011dgt.1_Intron|C5orf45_uc011dgu.1_Intron|C5orf45_uc003mlc.2_Missense_Mutation_p.S217L|C5orf45_uc003mlb.2_Missense_Mutation_p.S138L	NM_016175	NP_057259	Q6NTE8	CE045_HUMAN	hypothetical protein LOC51149 isoform 1	272											0						GCCTTCTCTTGAGGCCTGTGC	0.627													32	62	---	---	---	---	PASS	A	179264608	A	A	179264608	3	1	18	1	0	0	0	0	1	0	0	0	2304	1294	45	2	220	2	C5orf45	5	179264608	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	2379867	179264608	1650652	100	8989										
SERPINB1	1992	broad.mit.edu	37	chr6	2840762	2840762	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ttccagccggattgttctcaCtcaacgccaggaacaggtcc	9	14	2	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:2840762C>T	uc003mub.2	-	2	103	c.59G>A	c.(58-60)AGT>AAT	p.S20N	SERPINB1_uc003muc.2_Translation_Start_Site	NM_030666	NP_109591	P30740	ILEU_HUMAN	serine (or cysteine) proteinase inhibitor, clade	20					regulation of proteolysis	cytoplasm|extracellular space	serine-type endopeptidase inhibitor activity			breast(4)|ovary(1)	5	Ovarian(93;0.0412)			OV - Ovarian serous cystadenocarcinoma(45;0.0717)		ATTGTTCTCACTCAACGCCAG	0.537													37	33	---	---	---	---	PASS	T	2840762	T	T	2840762	3	4	18	1	0	0	0	0	1	0	0	0	14096	565	20	3	1104	3	SERPINB1	6	2840762	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08		2840762	168274305	101	8990										
SLC17A1	6568	broad.mit.edu	37	chr6	25826862	25826862	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aaaggaacagaaacctggaaCtacaaagtaaaacagaaagt	8	6	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:25826862C>T	uc003nfh.3	-	3	151	c.35_splice	c.e3-1	p.V12_splice	SLC17A1_uc011djy.1_Splice_Site|SLC17A1_uc010jqb.1_Splice_Site_p.V10_splice|SLC17A1_uc010jqc.1_Splice_Site_p.V10_splice	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),						sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						AAACCTGGAACTACAAAGTAA	0.398													6	43	---	---	---	---	PASS	T	25826862	T	T	25826862	5	4	18	1	0	0	0	0	0	0	1	0	14416	579	20	3	1409	3	SLC17A1	6	25826862	Splice_Site	SNP	C	TCGA-18-5595-01A-01D-1632-08	22986100	25826862	145288205	102	8991										
HIST1H3F	8968	broad.mit.edu	37	chr6	26250542	26250542	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gagccccaccaggtaagcctCgcaggcctcctgcagcgcca	11	18	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:26250542C>T	uc003nhg.1	-	1	294	c.292G>A	c.(292-294)GAG>AAG	p.E98K	HIST1H2BH_uc003nhh.2_5'Flank	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	98					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0						AGGTAAGCCTCGCAGGCCTCC	0.602											OREG0017241	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	50	102	---	---	---	---	PASS	T	26250542	T	T	26250542	3	4	18	1	0	0	0	0	1	0	0	0	7160	893	31	2	122	2	HIST1H3F	6	26250542	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	423680	26250542	144864525	103	8992										
OR2B3	442184	broad.mit.edu	37	chr6	29054567	29054567	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gactgcagcactgagttgccGaaaccaatgagccatgagaa	11	10	0	3	rs139179669		TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:29054567G>A	uc003nlx.2	-	1	524	c.459C>T	c.(457-459)TTC>TTT	p.F153F		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,									p.F153F(1)		skin(1)	1						CTGAGTTGCCGAAACCAATGA	0.488													25	41	---	---	---	---	PASS	A	29054567	A	A	29054567	2	1	18	1	0	0	0	0	0	0	0	1	10990	1049	37	2		2	OR2B3	6	29054567	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	2804025	29054567	142060500	104	8993										
AIF1	199	broad.mit.edu	37	chr6	31584147	31584147	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tgtccctgaaacgaatgctgGagaaacttggagtccccaag	11	10	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:31584147G>T	uc003nuy.2	+	5	297	c.223G>T	c.(223-225)GAG>TAG	p.E75*	AIF1_uc010jsy.2_Nonsense_Mutation_p.E87*|AIF1_uc003nva.2_Nonsense_Mutation_p.E21*	NM_001623	NP_001614	P55008	AIF1_HUMAN	allograft inflammatory factor 1 isoform 3	75	EF-hand 1.				actin filament bundle assembly|cell cycle arrest|inflammatory response|negative regulation of cell proliferation	nucleus|ruffle membrane	actin filament binding|calcium ion binding			ovary(1)	1						ACGAATGCTGGAGAAACTTGG	0.542													34	61	---	---	---	---	PASS	T	31584147	T	T	31584147	4	4	18	1	0	0	0	0	0	1	0	0	424	1175	41	2	435	2	AIF1	6	31584147	Nonsense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	2529580	31584147	139530920	105	8994										
TNXB	7148	broad.mit.edu	37	chr6	32014110	32014110	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gctgcccgtccgtgtccctgTactggaccacgaaggagtca	12	14	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:32014110T>A	uc003nzl.2	-	31	10644	c.10442A>T	c.(10441-10443)TAC>TTC	p.Y3481F	TNXB_uc003nzg.1_5'Flank|TNXB_uc003nzh.1_5'UTR	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3528	Fibronectin type-III 27.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CGTGTCCCTGTACTGGACCAC	0.642													7	51	---	---	---	---	PASS	A	32014110	A	A	32014110	3	1	18	1	0	0	0	0	1	0	0	0	16343	1638	57	5	4327	5	TNXB	6	32014110	Missense_Mutation	SNP	T	TCGA-18-5595-01A-01D-1632-08	429963	32014110	139100957	106	8995										
FKBPL	63943	broad.mit.edu	37	chr6	32096798	32096798	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggcagccagattggcatgaaGgacagttcgttctggagggc	16	8	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:32096798G>A	uc003nzr.2	-	2	1030	c.760C>T	c.(760-762)CTT>TTT	p.L254F	ATF6B_uc003nzo.2_5'Flank|ATF6B_uc003nzn.2_5'Flank|ATF6B_uc011dpg.1_5'Flank|ATF6B_uc011dph.1_5'Flank	NM_022110	NP_071393	Q9UIM3	FKBPL_HUMAN	WAF-1/CIP1 stabilizing protein 39	254	TPR 2.				response to radiation	membrane|nucleus	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0						TTGGCATGAAGGACAGTTCGT	0.592													52	94	---	---	---	---	PASS	A	32096798	A	A	32096798	3	1	18	1	0	0	0	0	1	0	0	0	5916	1000	35	3	293	3	FKBPL	6	32096798	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	82688	32096798	139018269	107	8996										
COL11A2	1302	broad.mit.edu	37	chr6	33133329	33133329	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctgaggctagcactgaccatCgggaagctctgggtggcaca	14	11	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:33133329C>T	uc003ocx.1	-	63	4975	c.4747G>A	c.(4747-4749)GAT>AAT	p.D1583N	COL11A2_uc010jul.1_Missense_Mutation_p.D153N|COL11A2_uc003ocy.1_Missense_Mutation_p.D1497N|COL11A2_uc003ocz.1_Missense_Mutation_p.D1476N	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1583	Fibrillar collagen NC1.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						CACTGACCATCGGGAAGCTCT	0.532													86	115	---	---	---	---	PASS	T	33133329	T	T	33133329	3	4	18	1	0	0	0	0	1	0	0	0	3668	884	31	2	479	2	COL11A2	6	33133329	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1036531	33133329	137981738	108	8997										
PPIL1	51645	broad.mit.edu	37	chr6	36823644	36823644	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cgtccacagggcggtcctggGagtttgtttctaccattccc	11	13	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:36823644G>A	uc003omu.2	-	4	698	c.446C>T	c.(445-447)TCC>TTC	p.S149F		NM_016059	NP_057143	Q9Y3C6	PPIL1_HUMAN	peptidylprolyl isomerase-like 1	149	PPIase cyclophilin-type.				protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1						GCGGTCCTGGGAGTTTGTTTC	0.547													49	94	---	---	---	---	PASS	A	36823644	A	A	36823644	3	1	18	1	0	0	0	0	1	0	0	0	12326	1174	41	2	58	2	PPIL1	6	36823644	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	3690315	36823644	134291423	109	8998										
FAM83B	222584	broad.mit.edu	37	chr6	54805161	54805161	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gacaggaattcaaatgttcgGaggtcttttaatgggacaga	12	5	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:54805161G>T	uc003pck.2	+	5	1508	c.1392G>T	c.(1390-1392)CGG>CGT	p.R464R		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	464										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					CAAATGTTCGGAGGTCTTTTA	0.438													17	77	---	---	---	---	PASS	T	54805161	T	T	54805161	2	4	18	1	0	0	0	0	0	0	0	1	5634	1161	41	2		2	FAM83B	6	54805161	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	17981517	54805161	116309906	110	8999										
MANEA	79694	broad.mit.edu	37	chr6	96053844	96053844	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	atattcttcaaagtggttttGatggaatttacacatatttt	6	4	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:96053844G>C	uc003poo.1	+	5	1092	c.952G>C	c.(952-954)GAT>CAT	p.D318H		NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	318	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		AAGTGGTTTTGATGGAATTTA	0.348													29	42	---	---	---	---	PASS	C	96053844	C	C	96053844	3	2	18	1	0	0	0	0	1	0	0	0	9221	1290	45	2	966	2	MANEA	6	96053844	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	41248683	96053844	75061223	111	9000										
C6orf174	387104	broad.mit.edu	37	chr6	127797008	127797008	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	acgcggttctcgtactgcagCtgcatgaccttgccgctgag	12	13	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:127797008C>G	uc003qbd.2	-	6	3028	c.2163G>C	c.(2161-2163)CAG>CAC	p.Q721H	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	721	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CGTACTGCAGCTGCATGACCT	0.672													35	149	---	---	---	---	PASS	G	127797008	G	G	127797008	3	3	18	1	0	0	0	0	1	0	0	0	2345	796	28	4	688	4	C6orf174	6	127797008	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	31743164	127797008	43318059	112	9001										
LAMA2	3908	broad.mit.edu	37	chr6	129470193	129470193	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agtgctgtccaggattccatCagaaaccctggagagctgga	12	10	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr6:129470193C>T	uc003qbn.2	+	7	1084	c.979C>T	c.(979-981)CAG>TAG	p.Q327*	LAMA2_uc003qbo.2_Nonsense_Mutation_p.Q327*	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	327	Laminin EGF-like 1.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		AGGATTCCATCAGAAACCCTG	0.403													76	87	---	---	---	---	PASS	T	129470193	T	T	129470193	4	4	18	1	0	0	0	0	0	1	0	0	8606	827	29	2	1005	2	LAMA2	6	129470193	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1673185	129470193	41644874	113	9002										
MIOS	54468	broad.mit.edu	37	chr7	7612875	7612875	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tatgggatcttagaaaatttGagaagccagttttgacattg	10	4	1	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr7:7612875G>C	uc003srf.2	+	4	1077	c.769G>C	c.(769-771)GAG>CAG	p.E257Q	MIOS_uc010ktp.1_Missense_Mutation_p.E257Q	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	257	WD 4.										0						TAGAAAATTTGAGAAGCCAGT	0.433													59	86	---	---	---	---	PASS	C	7612875	C	C	7612875	3	2	18	1	0	0	0	0	1	0	0	0	9589	1291	45	2	771	2	MIOS	7	7612875	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08		7612875	151525788	114	9003										
EVX1	2128	broad.mit.edu	37	chr7	27285874	27285874	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gcccctgctcctgcctcgccTgtcacagcggcccggccaac	10	21	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr7:27285874T>C	uc003szd.1	+	3	1540	c.1054T>C	c.(1054-1056)TGT>CGT	p.C352R	EVX1_uc011jzn.1_Missense_Mutation_p.C170R|EVX1_uc010kuy.1_3'UTR	NM_001989	NP_001980	P49640	EVX1_HUMAN	even-skipped homeobox 1	352						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						CTGCCTCGCCTGTCACAGCGG	0.766													2	6	---	---	---	---	PASS	C	27285874	C	C	27285874	3	2	18	1	0	0	0	0	1	0	0	0	5294	1580	55	5	1064	5	EVX1	7	27285874	Missense_Mutation	SNP	T	TCGA-18-5595-01A-01D-1632-08	19672999	27285874	131852789	115	9004										
MCM7	4176	broad.mit.edu	37	chr7	99696789	99696789	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccgcacttcccggatcacacGaggcttgttgctgctagggc	12	14	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr7:99696789G>A	uc003usw.1	-	5	949	c.439C>T	c.(439-441)CGT>TGT	p.R147C	MCM7_uc003usv.1_5'UTR|MCM7_uc003usx.1_5'UTR|AP4M1_uc011kjg.1_5'Flank|AP4M1_uc010lgl.1_5'Flank|AP4M1_uc003utb.3_5'Flank|AP4M1_uc003utc.3_5'Flank|AP4M1_uc010lgm.2_5'Flank|AP4M1_uc003utd.2_5'Flank|AP4M1_uc011kjh.1_5'Flank|AP4M1_uc003ute.3_5'Flank|AP4M1_uc003utf.3_5'Flank	NM_005916	NP_005907	P33993	MCM7_HUMAN	minichromosome maintenance complex component 7	147					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of phosphorylation|response to DNA damage stimulus|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)				Atorvastatin(DB01076)	CGGATCACACGAGGCTTGTTG	0.517													59	76	---	---	---	---	PASS	A	99696789	A	A	99696789	3	1	18	1	0	0	0	0	1	0	0	0	9392	1058	37	2	1764	2	MCM7	7	99696789	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	72410915	99696789	59441874	116	9005										
IRF5	3663	broad.mit.edu	37	chr7	128587850	128587850	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gccctcaccatcagcaacccCcatggctgccggctcttcta	7	19	4	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr7:128587850C>G	uc003vog.2	+	8	946	c.825C>G	c.(823-825)CCC>CCG	p.P275P	IRF5_uc003voh.2_Silent_p.P259P|IRF5_uc010llt.2_Silent_p.P183P|IRF5_uc003voi.2_Silent_p.P259P|IRF5_uc003voj.3_Silent_p.P259P|IRF5_uc010llw.1_3'UTR	NM_002200	NP_002191	Q13568	IRF5_HUMAN	interferon regulatory factor 5 isoform a	269					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						TCAGCAACCCCCATGGCTGCC	0.657													3	22	---	---	---	---	PASS	G	128587850	G	G	128587850	2	3	18	1	0	0	0	0	0	0	0	1	7833	610	22	4		4	IRF5	7	128587850	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	28891061	128587850	30550813	117	9006										
TSPAN33	340348	broad.mit.edu	37	chr7	128807655	128807655	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cagatcctagtgaatcagatCaaagatcagatcaagctaca	7	9	4	5			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr7:128807655C>T	uc003vop.1	+	8	1021	c.792C>T	c.(790-792)ATC>ATT	p.I264I	TSPAN33_uc003voq.1_Silent_p.I96I	NM_178562	NP_848657	Q86UF1	TSN33_HUMAN	tetraspanin 33	264	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						TGAATCAGATCAAAGATCAGA	0.527													17	8	---	---	---	---	PASS	T	128807655	T	T	128807655	2	4	18	1	0	0	0	0	0	0	0	1	16645	816	29	2		2	TSPAN33	7	128807655	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	219805	128807655	30331008	118	9007										
ZYX	7791	broad.mit.edu	37	chr7	143079462	143079462	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tttccccctgcgcctctggaGgaggagatcttcccttcccc	9	17	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr7:143079462G>A	uc003wcw.2	+	3	485	c.330G>A	c.(328-330)GAG>GAA	p.E110E	ZYX_uc011ktd.1_5'UTR|ZYX_uc003wcx.2_Silent_p.E110E|ZYX_uc011kte.1_Silent_p.E110E|ZYX_uc011ktf.1_5'UTR	NM_001010972	NP_001010972	Q15942	ZYX_HUMAN	zyxin	110					cell adhesion|cell-cell signaling|interspecies interaction between organisms|signal transduction	cell-cell adherens junction|cytoplasm|focal adhesion|integral to plasma membrane|nucleus|stress fiber	protein binding|zinc ion binding				0	Melanoma(164;0.205)					CGCCTCTGGAGGAGGAGATCT	0.706													5	15	---	---	---	---	PASS	A	143079462	A	A	143079462	2	1	18	1	0	0	0	0	0	0	0	1	18251	991	35	3		3	ZYX	7	143079462	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	14271807	143079462	16059201	119	9008										
ABCF2	10061	broad.mit.edu	37	chr7	150923419	150923419	+	Missense_Mutation	SNP	C	A	A													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tctctgccattggcctcattCttctctgccacctgtggttc							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr7:150923419C>A	uc003wjp.2	-	2	237	c.126G>T	c.(124-126)AAG>AAT	p.K42N	ABCF2_uc003wjo.1_Missense_Mutation_p.K42N	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	42						ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGGCCTCATTCTTCTCTGCCA	0.517													39	140	---	---	---	---	PASS	A	150923419	A	A	150923419	3	1	18	1	0	0	0	0	1	0	0	0	66	912	32	2	1842	2	ABCF2	7	150923419	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	7843957	150923419	8215244	120	9009	261	2								
ABCF2	10061	broad.mit.edu	37	chr7	150923420	150923420	+	Missense_Mutation	SNP	T	A	A													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctctgccattggcctcattcTtctctgccacctgtggttct							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr7:150923420T>A	uc003wjp.2	-	2	236	c.125A>T	c.(124-126)AAG>ATG	p.K42M	ABCF2_uc003wjo.1_Missense_Mutation_p.K42M	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	42						ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGCCTCATTCTTCTCTGCCAC	0.517													39	137	---	---	---	---	PASS	A	150923420	A	A	150923420	3	1	18	1	0	0	0	0	1	0	0	0	66	1609	56	5	1843	5	ABCF2	7	150923420	Missense_Mutation	SNP	T	TCGA-18-5595-01A-01D-1632-08	1	150923420	8215243	121	9010	261	2								
HR	55806	broad.mit.edu	37	chr8	21982982	21982982	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agctggagttggtggctgtgTcttcctcctgctgcagctcc	13	12	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:21982982T>G	uc003xas.2	-	5	2257	c.1592A>C	c.(1591-1593)GAC>GCC	p.D531A	HR_uc003xat.2_Missense_Mutation_p.D531A	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	531							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		GGTGGCTGTGTCTTCCTCCTG	0.682													10	13	---	---	---	---	PASS	G	21982982	G	G	21982982	3	3	18	1	0	0	0	0	1	0	0	0	7347	1667	58	5	2037	5	HR	8	21982982	Missense_Mutation	SNP	T	TCGA-18-5595-01A-01D-1632-08		21982982	124381040	122	9011										
LOXL2	4017	broad.mit.edu	37	chr8	23186002	23186002	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	acttgtcgtcgcagacggtcCcccattctccatttttgagc	8	14	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:23186002C>T	uc003xdh.1	-	6	1382	c.1043G>A	c.(1042-1044)GGG>GAG	p.G348E		NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	348	SRCR 3.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		GCAGACGGTCCCCCATTCTCC	0.627													18	53	---	---	---	---	PASS	T	23186002	T	T	23186002	3	4	18	1	0	0	0	0	1	0	0	0	8900	623	22	3	1317	3	LOXL2	8	23186002	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1203020	23186002	123178020	123	9012										
UNC5D	137970	broad.mit.edu	37	chr8	35624453	35624453	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cccgcgtgtggtgcagtaacCggcagcccctgcactgtgcc	13	16	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:35624453C>T	uc003xjr.1	+	15	2675	c.2347C>T	c.(2347-2349)CGG>TGG	p.R783W	UNC5D_uc003xjs.1_Missense_Mutation_p.R778W|UNC5D_uc003xju.1_Missense_Mutation_p.R359W	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	783	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		GTGCAGTAACCGGCAGCCCCT	0.582													28	19	---	---	---	---	PASS	T	35624453	T	T	35624453	3	4	18	1	0	0	0	0	1	0	0	0	16992	643	23	1	2405	1	UNC5D	8	35624453	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	12438451	35624453	110739569	124	9013										
CYP7A1	1581	broad.mit.edu	37	chr8	59410984	59410984	+	Missense_Mutation	SNP	A	G	G													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	caaattgcagagcacagcccAggtatggaattaatccattc							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:59410984A>G	uc003xtm.3	-	2	188	c.125T>C	c.(124-126)CTG>CCG	p.L42P		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	42					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				AGCACAGCCCAGGTATGGAAT	0.408									Neonatal_Giant_Cell_Hepatitis				27	282	---	---	---	---	PASS	G	59410984	G	G	59410984	3	3	18	1	0	0	0	0	1	0	0	0	4196	188	7	5	1409	5	CYP7A1	8	59410984	Missense_Mutation	SNP	A	TCGA-18-5595-01A-01D-1632-08	23786531	59410984	86953038	125	9014	262	2								
CYP7A1	1581	broad.mit.edu	37	chr8	59410985	59410985	+	Missense_Mutation	SNP	G	T	T													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aaattgcagagcacagcccaGgtatggaattaatccattct							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:59410985G>T	uc003xtm.3	-	2	187	c.124C>A	c.(124-126)CTG>ATG	p.L42M		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	42					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				GCACAGCCCAGGTATGGAATT	0.408									Neonatal_Giant_Cell_Hepatitis				27	279	---	---	---	---	PASS	T	59410985	T	T	59410985	3	4	18	1	0	0	0	0	1	0	0	0	4196	991	35	3	1410	3	CYP7A1	8	59410985	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	1	59410985	86953037	126	9015	262	2								
OSGIN2	734	broad.mit.edu	37	chr8	90926317	90926317	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tttaataggaaatggaccctCaggaatatgcctttcttata	7	7	2	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:90926317C>T	uc003yeg.2	+	3	426	c.80C>T	c.(79-81)TCA>TTA	p.S27L	OSGIN2_uc003yeh.2_Missense_Mutation_p.S71L	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	27					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			AATGGACCCTCAGGAATATGC	0.289													76	308	---	---	---	---	PASS	T	90926317	T	T	90926317	3	4	18	1	0	0	0	0	1	0	0	0	11290	838	29	2	222	2	OSGIN2	8	90926317	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	31515332	90926317	55437705	127	9016										
COX6C	1345	broad.mit.edu	37	chr8	100904230	100904230	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggccacgcatccgaggttttGgcaaaacttcgggagccatg	13	11	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:100904230G>A	uc003yiy.1	-	2	80	c.20C>T	c.(19-21)CCA>CTA	p.P7L		NM_004374	NP_004365	P09669	COX6C_HUMAN	cytochrome c oxidase subunit VIc proprotein	7	Mitochondrial matrix (By similarity).				respiratory electron transport chain	integral to membrane|mitochondrial inner membrane	cytochrome-c oxidase activity		HMGA2/COX6C(2)	soft_tissue(2)	2			all cancers(13;8.32e-07)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			CCGAGGTTTTGGCAAAACTTC	0.363			T	HMGA2	uterine leiomyoma								141	92	---	---	---	---	PASS	A	100904230	A	A	100904230	3	1	18	1	0	0	0	0	1	0	0	0	3778	1348	47	3	215	3	COX6C	8	100904230	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	9977913	100904230	45459792	128	9017										
RGS22	26166	broad.mit.edu	37	chr8	101054100	101054100	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	attcagaaatgtcagtaaaaGatgttaaatgaatgactttg	8	3	2	4			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:101054100G>C	uc003yjb.1	-	12	2063	c.1868C>G	c.(1867-1869)TCT>TGT	p.S623C	RGS22_uc003yja.1_Missense_Mutation_p.S442C|RGS22_uc003yjc.1_Missense_Mutation_p.S611C|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	623					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			GTCAGTAAAAGATGTTAAATG	0.353													43	51	---	---	---	---	PASS	C	101054100	C	C	101054100	3	2	18	1	0	0	0	0	1	0	0	0	13305	942	33	2	1990	2	RGS22	8	101054100	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	149870	101054100	45309922	129	9018										
FBXO43	286151	broad.mit.edu	37	chr8	101146458	101146458	+	Silent	SNP	T	A	A													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gctagaggtgtcaaaacttcTccccagggagataatgttga							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:101146458T>A	uc003yjd.2	-	4	2522	c.1809A>T	c.(1807-1809)GGA>GGT	p.G603G	FBXO43_uc003yje.2_Silent_p.G569G	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	603					meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			TCAAAACTTCTCCCCAGGGAG	0.408													22	206	---	---	---	---	PASS	A	101146458	A	A	101146458	2	1	18	1	0	0	0	0	0	0	0	1	5752	1538	54	5		5	FBXO43	8	101146458	Silent	SNP	T	TCGA-18-5595-01A-01D-1632-08	92358	101146458	45217564	130	9019	263	2								
FBXO43	286151	broad.mit.edu	37	chr8	101146459	101146459	+	Missense_Mutation	SNP	C	A	A													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctagaggtgtcaaaacttctCcccagggagataatgttgac							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:101146459C>A	uc003yjd.2	-	4	2521	c.1808G>T	c.(1807-1809)GGA>GTA	p.G603V	FBXO43_uc003yje.2_Missense_Mutation_p.G569V	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	603					meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			CAAAACTTCTCCCCAGGGAGA	0.413													24	208	---	---	---	---	PASS	A	101146459	A	A	101146459	3	1	18	1	0	0	0	0	1	0	0	0	5752	855	30	2	326	2	FBXO43	8	101146459	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1	101146459	45217563	131	9020	263	2								
PLEC	5339	broad.mit.edu	37	chr8	144997746	144997746	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tgctcctctgccgactgcttCagccgctcggcctcttccac	8	19	3	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:144997746C>A	uc003zaf.1	-	31	6932	c.6762G>T	c.(6760-6762)CTG>CTT	p.L2254L	PLEC_uc003zab.1_Silent_p.L2117L|PLEC_uc003zac.1_Silent_p.L2121L|PLEC_uc003zad.2_Silent_p.L2117L|PLEC_uc003zae.1_Silent_p.L2085L|PLEC_uc003zag.1_Silent_p.L2095L|PLEC_uc003zah.2_Silent_p.L2103L|PLEC_uc003zaj.2_Silent_p.L2144L	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2254	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						CCGACTGCTTCAGCCGCTCGG	0.761													20	35	---	---	---	---	PASS	A	144997746	A	A	144997746	2	1	18	1	0	0	0	0	0	0	0	1	12052	813	29	2		2	PLEC	8	144997746	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	43851287	144997746	1366276	132	9021										
CYC1	1537	broad.mit.edu	37	chr8	145151959	145151959	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	accccagctaccatgtcccaGatagccaaggatgtgtgcac	9	14	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:145151959G>C	uc003zaz.3	+	6	838	c.795G>C	c.(793-795)CAG>CAC	p.Q265H	CYC1_uc003zay.2_Missense_Mutation_p.Q206H	NM_001916	NP_001907	P08574	CY1_HUMAN	cytochrome c-1	265					respiratory electron transport chain|transport	cell junction|integral to membrane|mitochondrial inner membrane|respiratory chain	electron transporter, transferring electrons from CoQH2-cytochrome c reductase complex and cytochrome c oxidase complex activity|heme binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;8.71e-40)|all cancers(56;3e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCATGTCCCAGATAGCCAAGG	0.582													16	12	---	---	---	---	PASS	C	145151959	C	C	145151959	3	2	18	1	0	0	0	0	1	0	0	0	4135	933	33	2	817	2	CYC1	8	145151959	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	154213	145151959	1212063	133	9022										
CYC1	1537	broad.mit.edu	37	chr8	145152203	145152203	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cggcacaagtggtcagtcctGaagagtcggaagctggcata	14	9	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:145152203G>A	uc003zaz.3	+	7	985	c.942G>A	c.(940-942)CTG>CTA	p.L314L	CYC1_uc003zay.2_Silent_p.L255L	NM_001916	NP_001907	P08574	CY1_HUMAN	cytochrome c-1	314					respiratory electron transport chain|transport	cell junction|integral to membrane|mitochondrial inner membrane|respiratory chain	electron transporter, transferring electrons from CoQH2-cytochrome c reductase complex and cytochrome c oxidase complex activity|heme binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;8.71e-40)|all cancers(56;3e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGTCAGTCCTGAAGAGTCGGA	0.577													40	30	---	---	---	---	PASS	A	145152203	A	A	145152203	2	1	18	1	0	0	0	0	0	0	0	1	4135	1277	45	2		2	CYC1	8	145152203	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	244	145152203	1211819	134	9023										
NFKBIL2	4796	broad.mit.edu	37	chr8	145659005	145659005	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cccagtgctgtctggtggctCagaaagaagctggggccgaa	15	10	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr8:145659005C>T	uc011llg.1	-	22	3540	c.3525G>A	c.(3523-3525)CTG>CTA	p.L1175L	uc011llh.1_5'Flank	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	1175					cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			TCTGGTGGCTCAGAAAGAAGC	0.642													43	141	---	---	---	---	PASS	T	145659005	T	T	145659005	2	4	18	1	0	0	0	0	0	0	0	1	10382	813	29	2		2	NFKBIL2	8	145659005	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	506802	145659005	705017	135	9024										
ZNF658	26149	broad.mit.edu	37	chr9	40772474	40772474	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tacattcgtagggtttctccCccgtatgaactctctgatgt	8	11	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr9:40772474C>A	uc004abs.2	-	5	2953	c.2801G>T	c.(2800-2802)GGG>GTG	p.G934V	ZNF658_uc010mmm.1_Intron|ZNF658_uc010mmn.1_Missense_Mutation_p.G934V	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	934					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		GGGTTTCTCCCCCGTATGAAC	0.438													47	323	---	---	---	---	PASS	A	40772474	A	A	40772474	3	1	18	1	0	0	0	0	1	0	0	0	18066	623	22	3	382	3	ZNF658	9	40772474	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08		40772474	100440957	136	9025										
ZNF658	26149	broad.mit.edu	37	chr9	40772516	40772516	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cactaacatatgacttctcaGagaaggttttcccacattca	5	11	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr9:40772516G>A	uc004abs.2	-	5	2911	c.2759C>T	c.(2758-2760)TCT>TTT	p.S920F	ZNF658_uc010mmm.1_Intron|ZNF658_uc010mmn.1_Missense_Mutation_p.S920F	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	920	C2H2-type 20.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		TGACTTCTCAGAGAAGGTTTT	0.453													45	296	---	---	---	---	PASS	A	40772516	A	A	40772516	3	1	18	1	0	0	0	0	1	0	0	0	18066	942	33	2	424	2	ZNF658	9	40772516	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	42	40772516	100440915	137	9026										
C9orf125	84302	broad.mit.edu	37	chr9	104239109	104239109	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cctgccagacaatgggcactGagccattggcagagggaagc	14	11	0	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr9:104239109G>A	uc004bbm.2	-	2	588	c.266C>T	c.(265-267)TCA>TTA	p.S89L	uc004bbl.1_5'Flank	NM_032342	NP_115718	Q9BRR3	CI125_HUMAN	hypothetical protein LOC84302	89						integral to membrane					0		Acute lymphoblastic leukemia(62;0.0527)				AATGGGCACTGAGCCATTGGC	0.577													17	51	---	---	---	---	PASS	A	104239109	A	A	104239109	3	1	18	1	0	0	0	0	1	0	0	0	2454	1294	45	2	949	2	C9orf125	9	104239109	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	63466593	104239109	36974322	138	9027										
CTNNAL1	8727	broad.mit.edu	37	chr9	111734973	111734973	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	acctcaacaagctgctctttCtgttcagagagtttacaggc	8	11	4	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr9:111734973C>T	uc004bdo.1	-	9	1371	c.1329G>A	c.(1327-1329)CAG>CAA	p.Q443Q	CTNNAL1_uc010mts.1_Intron|CTNNAL1_uc010mtt.1_Silent_p.Q443Q|CTNNAL1_uc004bdp.1_Silent_p.Q443Q|CTNNAL1_uc004bdq.1_5'UTR	NM_003798	NP_003789	Q9UBT7	CTNL1_HUMAN	catenin, alpha-like 1	443					cell adhesion|Rho protein signal transduction	actin cytoskeleton|cytosol|plasma membrane	cadherin binding|structural molecule activity			ovary(1)	1				STAD - Stomach adenocarcinoma(157;0.0768)		GCTGCTCTTTCTGTTCAGAGA	0.343													63	78	---	---	---	---	PASS	T	111734973	T	T	111734973	2	4	18	1	0	0	0	0	0	0	0	1	4015	912	32	2		2	CTNNAL1	9	111734973	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	7495864	111734973	29478458	139	9028										
QSOX2	169714	broad.mit.edu	37	chr9	139103153	139103153	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ttatgcttcttccacagccaGaggatggcttggtctggggt	13	9	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr9:139103153G>A	uc010nbi.2	-	11	1544	c.1506C>T	c.(1504-1506)CTC>CTT	p.L502L		NM_181701	NP_859052	Q6ZRP7	QSOX2_HUMAN	quiescin Q6 sulfhydryl oxidase 2 precursor	502	ERV/ALR sulfhydryl oxidase.				cell redox homeostasis	extracellular region|integral to membrane|nuclear membrane|plasma membrane	thiol oxidase activity			ovary(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;7.78e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.55e-07)		TCCACAGCCAGAGGATGGCTT	0.572													39	64	---	---	---	---	PASS	A	139103153	A	A	139103153	2	1	18	1	0	0	0	0	0	0	0	1	12884	929	33	2		2	QSOX2	9	139103153	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	27368180	139103153	2110278	140	9029										
SNAPC4	6621	broad.mit.edu	37	chr9	139282968	139282968	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gagcatgcggtcctcctcctCtgtccactccttgcgtttca	8	16	2	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr9:139282968C>T	uc004chh.2	-	10	1060	c.1051G>A	c.(1051-1053)GAG>AAG	p.E351K		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	351	Myb-like 2.				snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		TCCTCCTCCTCTGTCCACTCC	0.612													42	61	---	---	---	---	PASS	T	139282968	T	T	139282968	3	4	18	1	0	0	0	0	1	0	0	0	14837	922	32	2	3410	2	SNAPC4	9	139282968	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	179815	139282968	1930463	141	9030										
C9orf173	441476	broad.mit.edu	37	chr9	140146534	140146534	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggtgccgagcccgtccgtacGagagtcctccccacaccccc	10	20	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr9:140146534G>C	uc004cmk.1	+	3	359	c.347G>C	c.(346-348)CGA>CCA	p.R116P	C9orf173_uc004cmj.1_Missense_Mutation_p.R117P|C9orf173_uc011meu.1_Intron|C9orf173_uc010ncd.1_Intron|C9orf173_uc011mev.1_Missense_Mutation_p.R116P|C9orf173_uc004cml.1_Missense_Mutation_p.R116P			Q8N7X2	CI173_HUMAN	SubName: Full=LOC441476 protein;	117										pancreas(1)	1						CCGTCCGTACGAGAGTCCTCC	0.672													24	40	---	---	---	---	PASS	C	140146534	C	C	140146534	3	2	18	1	0	0	0	0	1	0	0	0	2472	1058	37	2	360	2	C9orf173	9	140146534	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	863566	140146534	1066897	142	9031										
COBRA1	25920	broad.mit.edu	37	chr9	140150507	140150507	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtcagccatcgcttcggaggGgaaggctgaggaaaggtggg	19	7	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr9:140150507G>A	uc004cmm.3	+	2	454	c.251G>A	c.(250-252)GGG>GAG	p.G84E		NM_015456	NP_056271	Q8WX92	NELFB_HUMAN	cofactor of BRCA1	84					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleoplasm	protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.137)	OV - Ovarian serous cystadenocarcinoma(145;9.42e-05)|Epithelial(140;0.000766)		GCTTCGGAGGGGAAGGCTGAG	0.617													17	119	---	---	---	---	PASS	A	140150507	A	A	140150507	3	1	18	1	0	0	0	0	1	0	0	0	3655	1232	43	3	257	3	COBRA1	9	140150507	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	3973	140150507	1062924	143	9032										
ANKRD26	22852	broad.mit.edu	37	chr10	27389215	27389215	+	Missense_Mutation	SNP	C	G	G													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tctgccgccgcgcgaaggagCccaagggcgactcgcccttc							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr10:27389215C>G	uc001ith.2	-	1	213	c.41G>C	c.(40-42)GGC>GCC	p.G14A	ANKRD26_uc009xku.1_Missense_Mutation_p.G14A	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	14						centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						CGCGAAGGAGCCCAAGGGCGA	0.667													12	39	---	---	---	---	PASS	G	27389215	G	G	27389215	3	3	18	1	0	0	0	0	1	0	0	0	654	739	26	4	5227	4	ANKRD26	10	27389215	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08		27389215	108145532	144	9033	264	2								
ANKRD26	22852	broad.mit.edu	37	chr10	27389216	27389216	+	Missense_Mutation	SNP	C	A	A													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctgccgccgcgcgaaggagcCcaagggcgactcgcccttct							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr10:27389216C>A	uc001ith.2	-	1	212	c.40G>T	c.(40-42)GGC>TGC	p.G14C	ANKRD26_uc009xku.1_Missense_Mutation_p.G14C	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	14						centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						GCGAAGGAGCCCAAGGGCGAC	0.667													13	39	---	---	---	---	PASS	A	27389216	A	A	27389216	3	1	18	1	0	0	0	0	1	0	0	0	654	623	22	3	5228	3	ANKRD26	10	27389216	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1	27389216	108145531	145	9034	264	2								
ZNF33A	7581	broad.mit.edu	37	chr10	38345001	38345001	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aaaagctttctgccataagtCagctctaattgtacatcaga	6	9	4	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr10:38345001C>T	uc001izh.2	+	5	2124	c.1946C>T	c.(1945-1947)TCA>TTA	p.S649L	ZNF33A_uc001izg.2_Missense_Mutation_p.S650L|ZNF33A_uc010qev.1_Missense_Mutation_p.S656L|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	649	C2H2-type 12.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						TGCCATAAGTCAGCTCTAATT	0.378													84	32	---	---	---	---	PASS	T	38345001	T	T	38345001	3	4	18	1	0	0	0	0	1	0	0	0	17851	838	29	2	1963	2	ZNF33A	10	38345001	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	10955785	38345001	97189746	146	9035										
FRMPD2	143162	broad.mit.edu	37	chr10	49430397	49430397	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctcagcctgcaaggcaaggaCccccagctgcagcagtatct	10	15	2	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr10:49430397C>A	uc001jgi.2	-	12	1521	c.1414G>T	c.(1414-1416)GTC>TTC	p.V472F	FRMPD2_uc001jgh.2_Missense_Mutation_p.V441F|FRMPD2_uc001jgj.2_Missense_Mutation_p.V450F	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	472	FERM.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		AAGGCAAGGACCCCCAGCTGC	0.532													14	245	---	---	---	---	PASS	A	49430397	A	A	49430397	3	1	18	1	0	0	0	0	1	0	0	0	6058	507	18	3	2587	3	FRMPD2	10	49430397	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	11085396	49430397	86104350	147	9036										
CDH23	64072	broad.mit.edu	37	chr10	73574711	73574711	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggtcccggcctcttgcagctGatacagactgagctggacga	13	12	1	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr10:73574711G>C	uc001jrx.3	+	68	10118	c.9741G>C	c.(9739-9741)CTG>CTC	p.L3247L	CDH23_uc001jsg.3_Silent_p.L1007L|CDH23_uc001jsh.3_Silent_p.L972L|CDH23_uc001jsi.3_Silent_p.L972L|CDH23_uc001jsj.3_Silent_p.L144L|CDH23_uc010qjr.1_Silent_p.L109L	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	3247	Cytoplasmic (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						TCTTGCAGCTGATACAGACTG	0.652													6	18	---	---	---	---	PASS	C	73574711	C	C	73574711	2	2	18	1	0	0	0	0	0	0	0	1	3108	1277	45	2		2	CDH23	10	73574711	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	24144314	73574711	61960036	148	9037										
USP54	159195	broad.mit.edu	37	chr10	75276202	75276202	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	acagccagcttgagaagcctGaagactggcctgatacagag	12	10	0	5			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr10:75276202G>T	uc001juo.2	-	18	3999	c.3982C>A	c.(3982-3984)CAG>AAG	p.Q1328K	USP54_uc010qkk.1_Missense_Mutation_p.Q510K|USP54_uc001juk.2_Missense_Mutation_p.Q416K|USP54_uc001jul.2_Missense_Mutation_p.Q416K|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	1328					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					TGAGAAGCCTGAAGACTGGCC	0.532													46	62	---	---	---	---	PASS	T	75276202	T	T	75276202	3	4	18	1	0	0	0	0	1	0	0	0	17082	1299	45	2	1092	2	USP54	10	75276202	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	1701491	75276202	60258545	149	9038										
KCNMA1	3778	broad.mit.edu	37	chr10	79011015	79011015	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agagcaaagactaagacaacCtgtaaaagaagaggagaatg	11	5	0	6			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr10:79011015C>T	uc001jxn.2	-	3	718	c.541_splice	c.e3-1	p.V181_splice	KCNMA1_uc001jxj.2_Splice_Site_p.V181_splice|KCNMA1_uc009xrt.1_Splice_Site|KCNMA1_uc001jxo.2_Splice_Site_p.V181_splice|KCNMA1_uc001jxm.2_Splice_Site_p.V181_splice|KCNMA1_uc001jxq.2_Splice_Site_p.V181_splice	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium						cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	CTAAGACAACCTGTAAAAGAA	0.398											OREG0020289	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	35	---	---	---	---	PASS	T	79011015	T	T	79011015	5	4	18	1	0	0	0	0	0	0	1	0	8073	695	24	3	3446	3	KCNMA1	10	79011015	Splice_Site	SNP	C	TCGA-18-5595-01A-01D-1632-08	3734813	79011015	56523732	150	9039										
ANXA11	311	broad.mit.edu	37	chr10	81917738	81917738	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cataccctcatggccttgttGagcctctccgcaaagaaggc	9	14	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr10:81917738G>T	uc001kbq.1	-	15	2145	c.1320C>A	c.(1318-1320)CTC>CTA	p.L440L	ANXA11_uc010qlx.1_Silent_p.L540L|ANXA11_uc001kbr.1_Silent_p.L440L|ANXA11_uc001kbs.1_Silent_p.L440L|ANXA11_uc001kbt.1_Silent_p.L440L|ANXA11_uc010qly.1_Silent_p.L407L|ANXA11_uc009xsq.1_Silent_p.L444L|ANXA11_uc001kbu.1_Silent_p.L440L	NM_145869	NP_665876	P50995	ANX11_HUMAN	annexin A11	440	Annexin 4.				cell cycle|cytokinesis, completion of separation|phagocytosis|response to calcium ion	azurophil granule|melanosome|midbody|nuclear envelope|nucleoplasm|phagocytic vesicle|specific granule|spindle	calcium-dependent phospholipid binding|calcium-dependent protein binding|S100 alpha binding			ovary(1)	1	Prostate(51;0.00985)|all_epithelial(25;0.0951)		Colorectal(32;0.109)			TGGCCTTGTTGAGCCTCTCCG	0.537													13	87	---	---	---	---	PASS	T	81917738	T	T	81917738	2	4	18	1	0	0	0	0	0	0	0	1	716	1277	45	2		2	ANXA11	10	81917738	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	2906723	81917738	53617009	151	9040										
HPSE2	60495	broad.mit.edu	37	chr10	100481512	100481512	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	atgggctgcaacaggctcttCagctggatgtaatcctttcc	10	11	2	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr10:100481512C>T	uc001kpn.1	-	5	918	c.858G>A	c.(856-858)CTG>CTA	p.L286L	HPSE2_uc009xwc.1_Silent_p.L276L|HPSE2_uc001kpo.1_Silent_p.L218L|HPSE2_uc009xwd.1_Silent_p.L164L	NM_021828	NP_068600	Q8WWQ2	HPSE2_HUMAN	heparanase 2	286					carbohydrate metabolic process	intracellular|membrane	cation binding|heparanase activity			ovary(1)	1				Epithelial(162;1.8e-09)|all cancers(201;4.72e-07)		ACAGGCTCTTCAGCTGGATGT	0.498													77	90	---	---	---	---	PASS	T	100481512	T	T	100481512	2	4	18	1	0	0	0	0	0	0	0	1	7345	813	29	2		2	HPSE2	10	100481512	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	18563774	100481512	35053235	152	9041										
NT5C2	22978	broad.mit.edu	37	chr10	104865481	104865481	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	acccccttataaagttaaatCcatgtgcacagaccaagagg	7	11	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr10:104865481C>G	uc001kwo.2	-	6	557	c.371G>C	c.(370-372)GGA>GCA	p.G124A	NT5C2_uc010qqp.1_Missense_Mutation_p.G95A|NT5C2_uc001kwq.2_Missense_Mutation_p.G124A|NT5C2_uc001kwp.2_5'UTR	NM_012229	NP_036361	P49902	5NTC_HUMAN	5'-nucleotidase, cytosolic II	124					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|metal ion binding|nucleotide binding|protein binding				0		all_hematologic(284;0.176)|Colorectal(252;0.178)		Epithelial(162;1.33e-08)|all cancers(201;1.04e-07)|BRCA - Breast invasive adenocarcinoma(275;0.159)	Adenosine triphosphate(DB00171)|Ribavirin(DB00811)	AAAGTTAAATCCATGTGCACA	0.378													53	81	---	---	---	---	PASS	G	104865481	G	G	104865481	3	3	18	1	0	0	0	0	1	0	0	0	10687	855	30	2	1370	2	NT5C2	10	104865481	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	4383969	104865481	30669266	153	9042										
ATE1	11101	broad.mit.edu	37	chr10	123658405	123658405	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cctggtgtatggccacttgaTacttgacatacaaagaaaag	9	8	0	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr10:123658405T>C	uc001lfp.2	-	7	975	c.893A>G	c.(892-894)TAT>TGT	p.Y298C	ATE1_uc001lfq.2_Intron|ATE1_uc010qtr.1_Intron|ATE1_uc010qts.1_Missense_Mutation_p.Y202C|ATE1_uc010qtt.1_Missense_Mutation_p.Y291C|ATE1_uc001lfr.2_Intron|ATE1_uc009xzu.2_Intron	NM_007041	NP_008972	O95260	ATE1_HUMAN	arginyltransferase 1 isoform 2	298					protein arginylation	cytoplasm|nucleus	acyltransferase activity|arginyltransferase activity				0		all_neural(114;0.061)|Lung NSC(174;0.095)|all_lung(145;0.124)|Breast(234;0.212)				GGCCACTTGATACTTGACATA	0.438													42	68	---	---	---	---	PASS	C	123658405	C	C	123658405	3	2	18	1	0	0	0	0	1	0	0	0	1078	1406	49	5	687	5	ATE1	10	123658405	Missense_Mutation	SNP	T	TCGA-18-5595-01A-01D-1632-08	18792924	123658405	11876342	154	9043										
ADAM12	8038	broad.mit.edu	37	chr10	127824200	127824200	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	actgctgaatcagaatatccCcgtacatgtccatggtagta	8	10	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr10:127824200C>A	uc001ljk.2	-	5	791	c.378G>T	c.(376-378)CGG>CGT	p.R126R	ADAM12_uc010qul.1_Silent_p.R123R|ADAM12_uc001ljm.2_Silent_p.R126R|ADAM12_uc001ljn.2_Silent_p.R123R|ADAM12_uc001ljl.3_Silent_p.R123R	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	126					cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		CAGAATATCCCCGTACATGTC	0.468													7	58	---	---	---	---	PASS	A	127824200	A	A	127824200	2	1	18	1	0	0	0	0	0	0	0	1	236	610	22	3		3	ADAM12	10	127824200	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	4165795	127824200	7710547	155	9044										
PKP3	11187	broad.mit.edu	37	chr11	399030	399030	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtgcctaggctggtgaagctCttcaaccacgccaaccagga	11	13	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:399030C>T	uc001lpc.2	+	5	1183	c.1107C>T	c.(1105-1107)CTC>CTT	p.L369L		NM_007183	NP_009114	Q9Y446	PKP3_HUMAN	plakophilin 3	369	ARM 2.				cell adhesion	desmosome|nucleus	binding			skin(1)	1		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGGTGAAGCTCTTCAACCACG	0.612													15	87	---	---	---	---	PASS	T	399030	T	T	399030	2	4	18	1	0	0	0	0	0	0	0	1	11986	900	32	2		2	PKP3	11	399030	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08		399030	134607486	156	9045										
OR52R1	119695	broad.mit.edu	37	chr11	4825572	4825572	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	attccaagcaggatgaaggaCacaggatgagaagagctgtt	13	6	0	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:4825572C>A	uc010qym.1	-	1	276	c.276G>T	c.(274-276)GTG>GTT	p.V92V		NM_001005177	NP_001005177	Q8NGF1	O52R1_HUMAN	olfactory receptor, family 52, subfamily R,	13	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0184)|all_neural(188;0.0227)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGATGAAGGACACAGGATGAG	0.488													3	70	---	---	---	---	PASS	A	4825572	A	A	4825572	2	1	18	1	0	0	0	0	0	0	0	1	11131	465	17	3		3	OR52R1	11	4825572	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	4426542	4825572	130180944	157	9046										
ANO3	63982	broad.mit.edu	37	chr11	26465322	26465322	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tttatttcagttaatactgaGgagaataaaaacgactctgt	7	5	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:26465322G>A	uc001mqt.3	+	3	397	c.252G>A	c.(250-252)GAG>GAA	p.E84E	ANO3_uc010rdr.1_Silent_p.E68E	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	84	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TTAATACTGAGGAGAATAAAA	0.343													16	57	---	---	---	---	PASS	A	26465322	A	A	26465322	2	1	18	1	0	0	0	0	0	0	0	1	698	991	35	3		3	ANO3	11	26465322	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	21639750	26465322	108541194	158	9047										
MPPED2	744	broad.mit.edu	37	chr11	30439182	30439182	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tccattaaaccacggggtccTttgggggagataatgcacat	11	9	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:30439182T>A	uc001msr.2	-	4	657	c.537_splice	c.e4-1	p.W179_splice	MPPED2_uc001msq.3_Splice_Site_p.W179_splice|MPPED2_uc009yji.2_Splice_Site_p.W53_splice	NM_001584	NP_001575	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2						nervous system development		hydrolase activity|metal ion binding			skin(1)	1						CACGGGGTCCTTTGGGGGAGA	0.532													10	33	---	---	---	---	PASS	A	30439182	A	A	30439182	5	1	18	1	0	0	0	0	0	0	1	0	9742	1623	56	5	433	5	MPPED2	11	30439182	Splice_Site	SNP	T	TCGA-18-5595-01A-01D-1632-08	3973860	30439182	104567334	159	9048										
ARFGAP2	84364	broad.mit.edu	37	chr11	47188385	47188385	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tgcgaatttctgacgcgcctCactagactcgaggcctgagc	11	13	2	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:47188385C>T	uc001ndt.2	-	13	1273	c.1258G>A	c.(1258-1260)GAG>AAG	p.E420K	ARFGAP2_uc010rha.1_Missense_Mutation_p.E151K|ARFGAP2_uc010rhb.1_Missense_Mutation_p.E392K|ARFGAP2_uc001ndu.2_Missense_Mutation_p.E284K|ARFGAP2_uc010rhc.1_Missense_Mutation_p.E151K	NM_032389	NP_115765	Q8N6H7	ARFG2_HUMAN	ADP-ribosylation factor GTPase activating	420	Required for interaction with coatomer.				protein transport|regulation of ARF GTPase activity|vesicle-mediated transport	Golgi membrane|nucleolus|plasma membrane	ARF GTPase activator activity|zinc ion binding			ovary(1)	1						TGACGCGCCTCACTAGACTCG	0.567													138	188	---	---	---	---	PASS	T	47188385	T	T	47188385	3	4	18	1	0	0	0	0	1	0	0	0	850	835	29	2	323	2	ARFGAP2	11	47188385	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	16749203	47188385	87818131	160	9049										
LRRC55	219527	broad.mit.edu	37	chr11	56954921	56954921	+	Silent	SNP	C	A	A													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	actgccaactgctgccaccgCtggagcaaggccagtgaaga					rs142633236		TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:56954921C>A	uc001njl.1	+	2	1140	c.993C>A	c.(991-993)CGC>CGA	p.R331R	LRRC55_uc001njm.1_5'Flank	NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	301						integral to membrane					0						GCTGCCACCGCTGGAGCAAGG	0.587													5	52	---	---	---	---	PASS	A	56954921	A	A	56954921	2	1	18	1	0	0	0	0	0	0	0	1	9011	784	28	3		3	LRRC55	11	56954921	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	9766536	56954921	78051595	161	9050	265	2								
LRRC55	219527	broad.mit.edu	37	chr11	56954922	56954922	+	Missense_Mutation	SNP	T	A	A													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctgccaactgctgccaccgcTggagcaaggccagtgaagag							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:56954922T>A	uc001njl.1	+	2	1141	c.994T>A	c.(994-996)TGG>AGG	p.W332R	LRRC55_uc001njm.1_5'Flank	NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	302						integral to membrane					0						CTGCCACCGCTGGAGCAAGGC	0.587													5	51	---	---	---	---	PASS	A	56954922	A	A	56954922	3	1	18	1	0	0	0	0	1	0	0	0	9011	1580	55	5	1000	5	LRRC55	11	56954922	Missense_Mutation	SNP	T	TCGA-18-5595-01A-01D-1632-08	1	56954922	78051594	162	9051	265	2								
PRG3	10394	broad.mit.edu	37	chr11	57148124	57148124	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggaagggagagacttacccaGatgaagagcagaaactgttc	13	7	0	5			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:57148124G>A	uc001njv.1	-	2	168	c.58C>T	c.(58-60)CTG>TTG	p.L20L		NM_006093	NP_006084	Q9Y2Y8	PRG3_HUMAN	proteoglycan 3 precursor	20					basophil activation|histamine biosynthetic process|immune response|leukotriene biosynthetic process|negative regulation of translation|neutrophil activation|positive regulation of interleukin-8 biosynthetic process|superoxide anion generation		sugar binding				0						GACTTACCCAGATGAAGAGCA	0.507													6	13	---	---	---	---	PASS	A	57148124	A	A	57148124	2	1	18	1	0	0	0	0	0	0	0	1	12480	933	33	2		2	PRG3	11	57148124	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	193202	57148124	77858392	163	9052										
DTX4	23220	broad.mit.edu	37	chr11	58949569	58949569	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gccccccatgtccccctgctCctgtccccagtgtgtcttgg	9	19	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:58949569C>T	uc001nns.2	+	2	826	c.569C>T	c.(568-570)TCC>TTC	p.S190F	DTX4_uc001nnr.2_Missense_Mutation_p.S84F	NM_015177	NP_055992	Q9Y2E6	DTX4_HUMAN	deltex 4 homolog	190					Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)				TCCCCCTGCTCCTGTCCCCAG	0.632													23	25	---	---	---	---	PASS	T	58949569	T	T	58949569	3	4	18	1	0	0	0	0	1	0	0	0	4797	855	30	2	575	2	DTX4	11	58949569	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1801445	58949569	76056947	164	9053										
ZP1	22917	broad.mit.edu	37	chr11	60638697	60638697	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tctcttcctacaggtggctgGcgaccagctcatctatgaga	10	12	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:60638697G>T	uc001nqd.2	+	6	1042	c.1022G>T	c.(1021-1023)GGC>GTC	p.G341V	ZP1_uc001nqe.2_Missense_Mutation_p.G48V	NM_207341	NP_997224	P60852	ZP1_HUMAN	zona pellucida glycoprotein 1 precursor	341	Extracellular (Potential).|ZP.				single fertilization	integral to membrane|plasma membrane|proteinaceous extracellular matrix					0						CAGGTGGCTGGCGACCAGCTC	0.607													15	48	---	---	---	---	PASS	T	60638697	T	T	60638697	3	4	18	1	0	0	0	0	1	0	0	0	18212	1203	42	3	1044	3	ZP1	11	60638697	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	1689128	60638697	74367819	165	9054										
CD6	923	broad.mit.edu	37	chr11	60780938	60780938	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gagaacaaggaatctcgggaGctaatgctcctcatcccctc	9	13	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:60780938G>A	uc001nqq.2	+	7	1417	c.1194G>A	c.(1192-1194)GAG>GAA	p.E398E	CD6_uc009yni.2_Silent_p.E297E|CD6_uc009ynj.2_Silent_p.E275E|CD6_uc001nqp.2_Silent_p.E398E|CD6_uc001nqr.2_Silent_p.E398E|CD6_uc001nqs.2_RNA|CD6_uc001nqt.2_Silent_p.E398E	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule precursor	398	Extracellular (Potential).				cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1						AATCTCGGGAGCTAATGCTCC	0.438													75	258	---	---	---	---	PASS	A	60780938	A	A	60780938	2	1	18	1	0	0	0	0	0	0	0	1	3028	962	34	3		3	CD6	11	60780938	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	142241	60780938	74225578	166	9055										
ESRRA	2101	broad.mit.edu	37	chr11	64083327	64083327	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctgctgctcacgctaccgctCctccgccagacagcgggcaa	10	18	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:64083327C>A	uc001nzq.1	+	7	1338	c.1161C>A	c.(1159-1161)CTC>CTA	p.L387L	ESRRA_uc001nzr.1_Silent_p.L386L|ESRRA_uc001nzs.1_Silent_p.L387L|PRDX5_uc001nzu.2_5'Flank|PRDX5_uc001nzv.2_5'Flank|PRDX5_uc001nzw.2_5'Flank|PRDX5_uc001nzx.2_5'Flank	NM_004451	NP_004442	P11474	ERR1_HUMAN	estrogen-related receptor alpha	387	Ligand binding domain.				positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein domain specific binding|sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding				0						CGCTACCGCTCCTCCGCCAGA	0.677													18	38	---	---	---	---	PASS	A	64083327	A	A	64083327	2	1	18	1	0	0	0	0	0	0	0	1	5260	842	30	2		2	ESRRA	11	64083327	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	3302389	64083327	70923189	167	9056										
PCF11	51585	broad.mit.edu	37	chr11	82876801	82876801	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	caggaccatccttacaaattCaggatttaaaaggaactaac	6	9	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:82876801C>T	uc001ozx.3	+	5	1207	c.862C>T	c.(862-864)CAG>TAG	p.Q288*	PCF11_uc010rsu.1_Nonsense_Mutation_p.Q288*	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	288					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						CTTACAAATTCAGGATTTAAA	0.423													9	16	---	---	---	---	PASS	T	82876801	T	T	82876801	4	4	18	1	0	0	0	0	0	1	0	0	11573	827	29	2	880	2	PCF11	11	82876801	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	18793474	82876801	52129715	168	9057										
PCF11	51585	broad.mit.edu	37	chr11	82877735	82877735	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtctgccaaaagatggaaatCtggttgggaagaaaataaaa	11	4	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:82877735C>T	uc001ozx.3	+	5	2141	c.1796C>T	c.(1795-1797)TCT>TTT	p.S599F	PCF11_uc010rsu.1_Missense_Mutation_p.S599F	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	599					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						AGATGGAAATCTGGTTGGGAA	0.333													38	86	---	---	---	---	PASS	T	82877735	T	T	82877735	3	4	18	1	0	0	0	0	1	0	0	0	11573	913	32	2	1814	2	PCF11	11	82877735	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	934	82877735	52128781	169	9058										
USP2	9099	broad.mit.edu	37	chr11	119243758	119243758	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggagaaatcccgggccaggtCtgattggctgtccagcttct	13	11	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr11:119243758C>T	uc001pwm.3	-	2	728	c.433G>A	c.(433-435)GAC>AAC	p.D145N	USP2_uc001pwn.3_Intron	NM_004205	NP_004196	O75604	UBP2_HUMAN	ubiquitin specific peptidase 2 isoform a	145	Necessary for interaction with MDM4.				cell cycle|muscle organ development|negative regulation of transcription from RNA polymerase II promoter|positive regulation of mitotic cell cycle|protein deubiquitination|protein stabilization|ubiquitin-dependent protein catabolic process	nucleus|perinuclear region of cytoplasm	cyclin binding|cysteine-type endopeptidase activity|metal ion binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity			ovary(2)|urinary_tract(1)|skin(1)	4		all_hematologic(192;4.65e-05)|Breast(348;0.0101)|all_neural(223;0.0218)|Medulloblastoma(222;0.0425)|Renal(330;0.157)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.000513)|Colorectal(284;0.0116)|Lung(307;0.0853)|LUSC - Lung squamous cell carcinoma(976;0.0889)		CGGGCCAGGTCTGATTGGCTG	0.612													81	30	---	---	---	---	PASS	T	119243758	T	T	119243758	3	4	18	1	0	0	0	0	1	0	0	0	17048	913	32	2	1583	2	USP2	11	119243758	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	36366023	119243758	15762758	170	9059										
B4GALNT3	283358	broad.mit.edu	37	chr12	662805	662805	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gagtcgtacatcgcagagcaGagacggggtgacaggatgcg	17	8	0	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:662805G>C	uc001qii.1	+	14	1716	c.1716G>C	c.(1714-1716)CAG>CAC	p.Q572H	B4GALNT3_uc001qij.1_Missense_Mutation_p.Q475H|B4GALNT3_uc001qik.1_Missense_Mutation_p.Q121H	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	572	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			TCGCAGAGCAGAGACGGGGTG	0.637													31	59	---	---	---	---	PASS	C	662805	C	C	662805	3	2	18	1	0	0	0	0	1	0	0	0	1268	933	33	2	1770	2	B4GALNT3	12	662805	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08		662805	133189090	171	9060										
A2M	2	broad.mit.edu	37	chr12	9225294	9225294	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtcactttcatgctgtattcCccaggcagctctggcaatga	9	12	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:9225294C>T	uc001qvk.1	-	30	4043	c.3930G>A	c.(3928-3930)GGG>GGA	p.G1310G	A2M_uc001qvj.1_Silent_p.G352G|A2M_uc009zgk.1_Silent_p.G1160G	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1310					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	TGCTGTATTCCCCAGGCAGCT	0.517													22	218	---	---	---	---	PASS	T	9225294	T	T	9225294	2	4	18	1	0	0	0	0	0	0	0	1	4	610	22	3		3	A2M	12	9225294	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	8562489	9225294	124626601	172	9061										
GRIN2B	2904	broad.mit.edu	37	chr12	13716391	13716391	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agccggctggtccagttcctGcagggagttgtcctcactga	13	12	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:13716391G>A	uc001rbt.2	-	13	3960	c.3781C>T	c.(3781-3783)CAG>TAG	p.Q1261*		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1261	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TCCAGTTCCTGCAGGGAGTTG	0.592													56	63	---	---	---	---	PASS	A	13716391	A	A	13716391	4	1	18	1	0	0	0	0	0	1	0	0	6780	1328	46	3	677	3	GRIN2B	12	13716391	Nonsense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	4491097	13716391	120135504	173	9062										
PLEKHA5	54477	broad.mit.edu	37	chr12	19514590	19514590	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggagtaaattctgtggaaatGatggataaagaaagaaacaa	11	2	1	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:19514590G>C	uc001reb.2	+	23	3146	c.3060G>C	c.(3058-3060)ATG>ATC	p.M1020I	PLEKHA5_uc010sie.1_Missense_Mutation_p.M1181I|PLEKHA5_uc001rea.2_Missense_Mutation_p.M1078I|PLEKHA5_uc009zin.2_Missense_Mutation_p.M778I|PLEKHA5_uc010sif.1_Missense_Mutation_p.M1009I|PLEKHA5_uc010sig.1_Missense_Mutation_p.M1002I|PLEKHA5_uc010sih.1_Missense_Mutation_p.M975I|PLEKHA5_uc001rec.1_Missense_Mutation_p.M829I|PLEKHA5_uc009zio.2_Missense_Mutation_p.M286I	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	1020							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					CTGTGGAAATGATGGATAAAG	0.294													19	34	---	---	---	---	PASS	C	19514590	C	C	19514590	3	2	18	1	0	0	0	0	1	0	0	0	12059	1290	45	2	3468	2	PLEKHA5	12	19514590	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	5798199	19514590	114337305	174	9063										
LRRK2	120892	broad.mit.edu	37	chr12	40618944	40618944	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aggtgccaccatggctagtgGcagctgtcaggggtgcgaag	17	9	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:40618944G>A	uc001rmg.3	+	1	132	c.11G>A	c.(10-12)GGC>GAC	p.G4D		NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	4					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)				ATGGCTAGTGGCAGCTGTCAG	0.607													17	21	---	---	---	---	PASS	A	40618944	A	A	40618944	3	1	18	1	0	0	0	0	1	0	0	0	9033	1203	42	3	13	3	LRRK2	12	40618944	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	21104354	40618944	93232951	175	9064										
PFKM	5213	broad.mit.edu	37	chr12	48516643	48516643	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctctggtggagatgcccaagGtaaggaggaggggacaaaaa	16	6	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:48516643G>T	uc001rrc.2	+	2	255	c.85_splice	c.e2+1	p.G29_splice	PFKM_uc001rra.1_Splice_Site|PFKM_uc001rrb.1_Splice_Site_p.G100_splice|PFKM_uc001rrd.2_Splice_Site|PFKM_uc001rre.1_Splice_Site_p.G29_splice|PFKM_uc001rrg.1_Splice_Site_p.G29_splice	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle						fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						GATGCCCAAGGTAAGGAGGAG	0.468													8	46	---	---	---	---	PASS	T	48516643	T	T	48516643	5	4	18	1	0	0	0	0	0	0	1	0	11765	1275	44	3	309	3	PFKM	12	48516643	Splice_Site	SNP	G	TCGA-18-5595-01A-01D-1632-08	7897699	48516643	85335252	176	9065										
TUBA1C	84790	broad.mit.edu	37	chr12	49666851	49666851	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctggaccacaagtttgacctGatgtatgccaagcgtgcctt	10	11	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:49666851G>A	uc001rtt.1	+	4	1291	c.1191G>A	c.(1189-1191)CTG>CTA	p.L397L	TUBA1C_uc001rts.2_Silent_p.L362L|TUBA1C_uc010smh.1_Silent_p.L467L|uc010smi.1_5'UTR	NM_032704	NP_116093	Q9BQE3	TBA1C_HUMAN	tubulin alpha 6	397					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0						AGTTTGACCTGATGTATGCCA	0.587													50	59	---	---	---	---	PASS	A	49666851	A	A	49666851	2	1	18	1	0	0	0	0	0	0	0	1	16742	1277	45	2		2	TUBA1C	12	49666851	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	1150208	49666851	84185044	177	9066										
KRT84	3890	broad.mit.edu	37	chr12	52774241	52774241	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctcctggtactcgcacagctGccgcgccatgtcctgcttgg	11	16	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:52774241G>A	uc001sah.1	-	7	1378	c.1330C>T	c.(1330-1332)CAG>TAG	p.Q444*		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	444	Rod.|Coil 2.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		TCGCACAGCTGCCGCGCCATG	0.647											OREG0021848	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	40	---	---	---	---	PASS	A	52774241	A	A	52774241	4	1	18	1	0	0	0	0	0	1	0	0	8498	1328	46	3	484	3	KRT84	12	52774241	Nonsense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	3107390	52774241	81077654	178	9067										
COPZ1	22818	broad.mit.edu	37	chr12	54739300	54739300	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tcattgagccagatgctgagGtgagcaggacattctttttt	11	7	2	4			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:54739300G>T	uc001sfs.1	+	5	354	c.317_splice	c.e5+1	p.R106_splice	COPZ1_uc001sft.2_Splice_Site_p.R55_splice|COPZ1_uc009znm.1_Splice_Site_p.R114_splice|COPZ1_uc010sot.1_Splice_Site_p.R83_splice	NM_016057	NP_057141	P61923	COPZ1_HUMAN	coatomer protein complex, subunit zeta 1						COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol					0						AGATGCTGAGGTGAGCAGGAC	0.458													4	79	---	---	---	---	PASS	T	54739300	T	T	54739300	5	4	18	1	0	0	0	0	0	0	1	0	3741	1275	44	3	336	3	COPZ1	12	54739300	Splice_Site	SNP	G	TCGA-18-5595-01A-01D-1632-08	1965059	54739300	79112595	179	9068										
LRP1	4035	broad.mit.edu	37	chr12	57593029	57593029	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	atcccgcacatctttgcactGaccctgtttgaggactacgt	8	13	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:57593029G>A	uc001snd.2	+	61	10177	c.9711G>A	c.(9709-9711)CTG>CTA	p.L3237L		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3237	LDL-receptor class B 29.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TCTTTGCACTGACCCTGTTTG	0.602													233	325	---	---	---	---	PASS	A	57593029	A	A	57593029	2	1	18	1	0	0	0	0	0	0	0	1	8951	1277	45	2		2	LRP1	12	57593029	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	2853729	57593029	76258866	180	9069										
GLI1	2735	broad.mit.edu	37	chr12	57861784	57861784	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctccactcaacagaagccgtAtgtatgtaagctccctggct	8	13	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:57861784A>G	uc001snx.2	+	10	1163	c.1085A>G	c.(1084-1086)TAT>TGT	p.Y362C	GLI1_uc009zpq.2_Missense_Mutation_p.Y234C	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	362	C2H2-type 5.				epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			CAGAAGCCGTATGTATGTAAG	0.507													30	41	---	---	---	---	PASS	G	57861784	G	G	57861784	3	3	18	1	0	0	0	0	1	0	0	0	6437	449	16	5	1119	5	GLI1	12	57861784	Missense_Mutation	SNP	A	TCGA-18-5595-01A-01D-1632-08	268755	57861784	75990111	181	9070										
DYRK2	8445	broad.mit.edu	37	chr12	68051350	68051350	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cacgatcacgtggcttacagGtatgaggtcctcaaggtcat	11	10	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:68051350G>T	uc001str.3	+	3	1065	c.663G>T	c.(661-663)AGG>AGT	p.R221S	DYRK2_uc001sts.3_Missense_Mutation_p.R148S	NM_006482	NP_006473	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	221					apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|positive regulation of glycogen biosynthetic process|smoothened signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|manganese ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(1)|central_nervous_system(1)	4			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		TGGCTTACAGGTATGAGGTCC	0.562													5	63	---	---	---	---	PASS	T	68051350	T	T	68051350	3	4	18	1	0	0	0	0	1	0	0	0	4856	1252	44	3	673	3	DYRK2	12	68051350	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	10189566	68051350	65800545	182	9071										
ACACB	32	broad.mit.edu	37	chr12	109623543	109623543	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tcaccagcgaaaacccagacGaggcaagttatgggggcccc	12	13	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:109623543G>A	uc001tob.2	+	12	2097	c.1978G>A	c.(1978-1980)GAG>AAG	p.E660K	ACACB_uc001toc.2_Missense_Mutation_p.E660K	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	660	Biotin carboxylation.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	AAACCCAGACGAGGCAAGTTA	0.478													14	44	---	---	---	---	PASS	A	109623543	A	A	109623543	3	1	18	1	0	0	0	0	1	0	0	0	107	1059	37	2	2020	2	ACACB	12	109623543	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	41572193	109623543	24228352	183	9072										
MED13L	23389	broad.mit.edu	37	chr12	116549243	116549243	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cttctcttacctttctaacaGattgtggatcgctttgaaga	7	9	2	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:116549243G>A	uc001tvw.2	-	3	440	c.385C>T	c.(385-387)CTG>TTG	p.L129L		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	129					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		CTTTCTAACAGATTGTGGATC	0.368													39	62	---	---	---	---	PASS	A	116549243	A	A	116549243	2	1	18	1	0	0	0	0	0	0	0	1	9431	933	33	2		2	MED13L	12	116549243	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	6925700	116549243	17302652	184	9073										
GCN1L1	10985	broad.mit.edu	37	chr12	120582788	120582788	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtcagtgtctccatcagccaCggcagcaagtcctcaaagca	9	14	4	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:120582788C>T	uc001txo.2	-	40	5107	c.5094G>A	c.(5092-5094)CCG>CCA	p.P1698P		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	1698					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CCATCAGCCACGGCAGCAAGT	0.612													36	77	---	---	---	---	PASS	T	120582788	T	T	120582788	2	4	18	1	0	0	0	0	0	0	0	1	6299	523	19	1		1	GCN1L1	12	120582788	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	4033545	120582788	13269107	185	9074										
TMEM132B	114795	broad.mit.edu	37	chr12	126068523	126068523	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctgtggaatgcaagtctgccGatgaagatgtcattaaggta	12	6	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:126068523G>A	uc001uhe.1	+	5	1413	c.1405G>A	c.(1405-1407)GAT>AAT	p.D469N		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	469	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		CAAGTCTGCCGATGAAGATGT	0.478													139	183	---	---	---	---	PASS	A	126068523	A	A	126068523	3	1	18	1	0	0	0	0	1	0	0	0	16043	1058	37	2	1423	2	TMEM132B	12	126068523	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	5485735	126068523	7783372	186	9075										
TMEM132B	114795	broad.mit.edu	37	chr12	126138642	126138642	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cctttacaagcttccccactCaagggaagtcaccggacccc	7	17	2	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr12:126138642C>T	uc001uhe.1	+	9	2631	c.2623C>T	c.(2623-2625)CAA>TAA	p.Q875*	TMEM132B_uc001uhf.1_Nonsense_Mutation_p.Q387*	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	875	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		CTTCCCCACTCAAGGGAAGTC	0.507													27	51	---	---	---	---	PASS	T	126138642	T	T	126138642	4	4	18	1	0	0	0	0	0	1	0	0	16043	827	29	2	2657	2	TMEM132B	12	126138642	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	70119	126138642	7713253	187	9076										
ZMYM5	9205	broad.mit.edu	37	chr13	20413087	20413087	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	atccacccctggctgtttctGattactgggaaatgaagctg	10	10	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr13:20413087G>A	uc010tcn.1	-	5	890	c.625C>T	c.(625-627)CAG>TAG	p.Q209*	ZMYM5_uc001umm.1_Nonsense_Mutation_p.Q33*|ZMYM5_uc001umn.2_Nonsense_Mutation_p.Q209*|ZMYM5_uc001umo.2_Intron	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	209						nucleus	zinc ion binding				0		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		GGCTGTTTCTGATTACTGGGA	0.373													104	110	---	---	---	---	PASS	A	20413087	A	A	20413087	4	1	18	1	0	0	0	0	0	1	0	0	17700	1299	45	2	1511	2	ZMYM5	13	20413087	Nonsense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08		20413087	94756791	188	9077										
NBEA	26960	broad.mit.edu	37	chr13	36124678	36124678	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cgagatacgagctgtattttCaagacgttaccttctacaaa	7	9	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr13:36124678C>G	uc001uvb.2	+	42	6856	c.6650C>G	c.(6649-6651)TCA>TGA	p.S2217*	NBEA_uc010abi.2_Nonsense_Mutation_p.S873*|NBEA_uc010tee.1_Nonsense_Mutation_p.S10*|NBEA_uc010tef.1_Nonsense_Mutation_p.S10*|NBEA_uc010teg.1_Nonsense_Mutation_p.S10*	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2217						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GCTGTATTTTCAAGACGTTAC	0.358													29	33	---	---	---	---	PASS	G	36124678	G	G	36124678	4	3	18	1	0	0	0	0	0	1	0	0	10187	838	29	2	6816	2	NBEA	13	36124678	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	15711591	36124678	79045200	189	9078										
RCBTB1	55213	broad.mit.edu	37	chr13	50134125	50134125	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	caccacttgcttgatcaagaGattggtacagacctggacgg	11	10	1	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr13:50134125G>A	uc001vde.1	-	5	634	c.373C>T	c.(373-375)CTC>TTC	p.L125F		NM_018191	NP_060661	Q8NDN9	RCBT1_HUMAN	regulator of chromosome condensation (RCC1) and	125	RCC1 2.				cell cycle|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(1)	1		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)		TTGATCAAGAGATTGGTACAG	0.488													103	147	---	---	---	---	PASS	A	50134125	A	A	50134125	3	1	18	1	0	0	0	0	1	0	0	0	13171	942	33	2	1258	2	RCBTB1	13	50134125	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	14009447	50134125	65035753	190	9079										
LIG4	3981	broad.mit.edu	37	chr13	108861930	108861930	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	catatcactgggtacgatctCtgctgctttaatctgaacaa	7	10	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr13:108861930C>T	uc001vqn.2	-	2	1960	c.1687G>A	c.(1687-1689)GAG>AAG	p.E563K	LIG4_uc001vqo.2_Missense_Mutation_p.E563K|LIG4_uc010agg.1_Missense_Mutation_p.E496K|LIG4_uc010agf.2_Missense_Mutation_p.E563K|LIG4_uc001vqp.2_Missense_Mutation_p.E563K	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	563					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					GGTACGATCTCTGCTGCTTTA	0.413								NHEJ					38	58	---	---	---	---	PASS	T	108861930	T	T	108861930	3	4	18	1	0	0	0	0	1	0	0	0	8783	922	32	2	1052	2	LIG4	13	108861930	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	58727805	108861930	6307948	191	9080										
F10	2159	broad.mit.edu	37	chr13	113798358	113798358	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gagaggggcgacaacaacctCaccaggatcgtgggaggcca	15	11	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr13:113798358C>G	uc001vsx.2	+	6	753	c.696C>G	c.(694-696)CTC>CTG	p.L232L	F10_uc010agq.1_RNA|F10_uc001vsy.2_Silent_p.L232L|F10_uc001vsz.2_Silent_p.L232L	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	232					blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACAACAACCTCACCAGGATCG	0.617													52	77	---	---	---	---	PASS	G	113798358	G	G	113798358	2	3	18	1	0	0	0	0	0	0	0	1	5336	813	29	2		2	F10	13	113798358	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	4936428	113798358	1371520	192	9081										
MMP14	4323	broad.mit.edu	37	chr14	23311854	23311854	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tggcccatgcctacttcccaGgccccaacattggaggagac	10	15	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr14:23311854G>T	uc001whc.2	+	4	850	c.616G>T	c.(616-618)GGC>TGC	p.G206C		NM_004995	NP_004986	P50281	MMP14_HUMAN	matrix metalloproteinase 14 preproprotein	206	Extracellular (Potential).					extracellular matrix|integral to plasma membrane|melanosome	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0	all_cancers(95;9.47e-05)			GBM - Glioblastoma multiforme(265;0.00551)		CTACTTCCCAGGCCCCAACAT	0.577													23	83	---	---	---	---	PASS	T	23311854	T	T	23311854	3	4	18	1	0	0	0	0	1	0	0	0	9653	1000	35	3	630	3	MMP14	14	23311854	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08		23311854	84037686	193	9082										
MYH6	4624	broad.mit.edu	37	chr14	23855739	23855739	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggcctgttccatctcctcgtCcttctctgccagcttccgct	7	18	2	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr14:23855739C>T	uc001wjv.2	-	33	4811	c.4744G>A	c.(4744-4746)GAC>AAC	p.D1582N		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1582	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		ATCTCCTCGTCCTTCTCTGCC	0.627													122	204	---	---	---	---	PASS	T	23855739	T	T	23855739	3	4	18	1	0	0	0	0	1	0	0	0	10038	855	30	2	1103	2	MYH6	14	23855739	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	543885	23855739	83493801	194	9083										
LRRC16B	90668	broad.mit.edu	37	chr14	24526211	24526211	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cctgagcaagaatcctgggcTcctcgccacggatgaggcca	12	14	0	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr14:24526211T>A	uc001wlj.2	+	13	1197	c.1040T>A	c.(1039-1041)CTC>CAC	p.L347H		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	347	LRR 4.									ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		AATCCTGGGCTCCTCGCCACG	0.612													7	17	---	---	---	---	PASS	A	24526211	A	A	24526211	3	1	18	1	0	0	0	0	1	0	0	0	8972	1551	54	5	1090	5	LRRC16B	14	24526211	Missense_Mutation	SNP	T	TCGA-18-5595-01A-01D-1632-08	670472	24526211	82823329	195	9084										
MBIP	51562	broad.mit.edu	37	chr14	36780895	36780895	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	accctggaattccttcaggtCtagtctgtggtccgtatgta	10	10	3	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr14:36780895C>G	uc001wtm.2	-	6	762	c.674G>C	c.(673-675)AGA>ACA	p.R225T	MBIP_uc001wto.2_Missense_Mutation_p.R225T|MBIP_uc010tpy.1_Missense_Mutation_p.R84T|MBIP_uc001wtn.2_Missense_Mutation_p.R225T	NM_016586	NP_057670	Q9NS73	MBIP1_HUMAN	MAP3K12 binding inhibitory protein 1 isoform 1	225	Interaction with MAP3K12.				histone H3 acetylation|inactivation of MAPK activity involved in osmosensory signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm|nucleolus	identical protein binding|protein kinase inhibitor activity				0	all_cancers(3;1.55e-52)|all_epithelial(1;2.69e-62)|Breast(36;0.0505)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)		Lung(8;1.28e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.0303)|all cancers(34;0.0781)	GBM - Glioblastoma multiforme(112;0.0191)		TCCTTCAGGTCTAGTCTGTGG	0.378													24	49	---	---	---	---	PASS	G	36780895	G	G	36780895	3	3	18	1	0	0	0	0	1	0	0	0	9349	913	32	2	376	2	MBIP	14	36780895	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	12254684	36780895	70568645	196	9085										
SYNE2	23224	broad.mit.edu	37	chr14	64494261	64494261	+	Missense_Mutation	SNP	G	A	A													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	acaaagtaaggaggatctgaGattaatgctcatagaactaa							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr14:64494261G>A	uc001xgm.2	+	43	6694	c.6464G>A	c.(6463-6465)AGA>AAA	p.R2155K	SYNE2_uc001xgl.2_Missense_Mutation_p.R2155K	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2155	Cytoplasmic (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)		GAGGATCTGAGATTAATGCTC	0.308													14	112	---	---	---	---	PASS	A	64494261	A	A	64494261	3	1	18	1	0	0	0	0	1	0	0	0	15443	942	33	2	6630	2	SYNE2	14	64494261	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	27713366	64494261	42855279	197	9086	266	2								
SYNE2	23224	broad.mit.edu	37	chr14	64494262	64494262	+	Missense_Mutation	SNP	A	T	T													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	caaagtaaggaggatctgagAttaatgctcatagaactaaa							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr14:64494262A>T	uc001xgm.2	+	43	6695	c.6465A>T	c.(6463-6465)AGA>AGT	p.R2155S	SYNE2_uc001xgl.2_Missense_Mutation_p.R2155S	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2155	Cytoplasmic (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)		AGGATCTGAGATTAATGCTCA	0.308													14	113	---	---	---	---	PASS	T	64494262	T	T	64494262	3	4	18	1	0	0	0	0	1	0	0	0	15443	330	12	5	6631	5	SYNE2	14	64494262	Missense_Mutation	SNP	A	TCGA-18-5595-01A-01D-1632-08	1	64494262	42855278	198	9087	266	2								
C14orf174	161394	broad.mit.edu	37	chr14	77845098	77845098	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agagcaccgtgagcctaaaaGaggaaagttgtcactaagtg	12	7	1	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr14:77845098G>C	uc001xtq.1	+	1	1337	c.1337G>C	c.(1336-1338)AGA>ACA	p.R446T	TMED8_uc010ast.1_5'Flank|TMED8_uc001xto.1_5'Flank	NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	446											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		GAGCCTAAAAGAGGAAAGTTG	0.378													38	46	---	---	---	---	PASS	C	77845098	C	C	77845098	3	2	18	1	0	0	0	0	1	0	0	0	1759	942	33	2	1339	2	C14orf174	14	77845098	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	13350836	77845098	29504442	199	9088										
SERPINA5	5104	broad.mit.edu	37	chr14	95053973	95053973	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccagcacaaagatgcagatcCtggagggcctgggcctcaac	12	13	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr14:95053973C>T	uc001ydm.2	+	3	484	c.274C>T	c.(274-276)CTG>TTG	p.L92L	SERPINA5_uc010ave.2_Silent_p.L92L|SERPINA5_uc001ydn.1_Silent_p.L92L	NM_000624	NP_000615	P05154	IPSP_HUMAN	serine (or cysteine) proteinase inhibitor, clade	92					fusion of sperm to egg plasma membrane|regulation of proteolysis|spermatogenesis	extracellular region|membrane|protein complex	acrosin binding|heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(2)	2				COAD - Colon adenocarcinoma(157;0.21)	Drotrecogin alfa(DB00055)|Urokinase(DB00013)	GATGCAGATCCTGGAGGGCCT	0.597													6	35	---	---	---	---	PASS	T	95053973	T	T	95053973	2	4	18	1	0	0	0	0	0	0	0	1	14092	680	24	3		3	SERPINA5	14	95053973	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	17208875	95053973	12295567	200	9089										
NUDT14	256281	broad.mit.edu	37	chr14	105639498	105639498	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtgcaccacctcaatgagctCaccctcctccaccaggcccc	6	21	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr14:105639498C>T	uc010tyn.1	-	5	643	c.529G>A	c.(529-531)GAG>AAG	p.E177K	NUDT14_uc001yqi.2_RNA	NM_177533	NP_803877	O95848	NUD14_HUMAN	nudix-type motif 14	177	Nudix hydrolase.					cytoplasm	metal ion binding|protein binding|UDP-sugar diphosphatase activity			skin(1)	1		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		TCAATGAGCTCACCCTCCTCC	0.622										HNSCC(42;0.11)			33	36	---	---	---	---	PASS	T	105639498	T	T	105639498	3	4	18	1	0	0	0	0	1	0	0	0	10730	835	29	2	143	2	NUDT14	14	105639498	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	10585525	105639498	1710042	201	9090										
RYR3	6263	broad.mit.edu	37	chr15	34130533	34130533	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cagaagaggaggaagaagatGaagattcttcttacgtgtta	12	4	2	6			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr15:34130533G>A	uc001zhi.2	+	89	12422	c.12352G>A	c.(12352-12354)GAA>AAA	p.E4118K	RYR3_uc010bar.2_Missense_Mutation_p.E4113K	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4118					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGAAGAAGATGAAGATTCTTC	0.478													83	111	---	---	---	---	PASS	A	34130533	A	A	34130533	3	1	18	1	0	0	0	0	1	0	0	0	13770	1291	45	2	12706	2	RYR3	15	34130533	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08		34130533	68400859	202	9091										
MGA	23269	broad.mit.edu	37	chr15	42053973	42053973	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agggactaacagatcaggcaGacaaattgataggacagaaa	11	6	1	4			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr15:42053973G>A	uc010ucy.1	+	21	7616	c.7435G>A	c.(7435-7437)GAC>AAC	p.D2479N	MGA_uc010ucz.1_Missense_Mutation_p.D2270N|MGA_uc010uda.1_Missense_Mutation_p.D1095N	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	2440						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		AGATCAGGCAGACAAATTGAT	0.373													5	9	---	---	---	---	PASS	A	42053973	A	A	42053973	3	1	18	1	0	0	0	0	1	0	0	0	9540	942	33	2	7513	2	MGA	15	42053973	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	7923440	42053973	60477419	203	9092										
ZFP106	64397	broad.mit.edu	37	chr15	42742728	42742728	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cttttgcatagttcctggtaCttttagaagtgctaagaagt	9	6	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr15:42742728C>A	uc001zpw.2	-	2	2008	c.1673G>T	c.(1672-1674)AGT>ATT	p.S558I	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Missense_Mutation_p.S341I|ZFP106_uc001zpy.1_Missense_Mutation_p.S581I	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	558						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GTTCCTGGTACTTTTAGAAGT	0.363													32	196	---	---	---	---	PASS	A	42742728	A	A	42742728	3	1	18	1	0	0	0	0	1	0	0	0	17634	565	20	3	4050	3	ZFP106	15	42742728	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	688755	42742728	59788664	204	9093										
TP53BP1	7158	broad.mit.edu	37	chr15	43724535	43724535	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctcacacacattctttatagTctgggttgctgctgaaacag	8	10	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr15:43724535T>A	uc001zrs.2	-	17	3665	c.3517A>T	c.(3517-3519)ACT>TCT	p.T1173S	TP53BP1_uc010udp.1_Missense_Mutation_p.T1173S|TP53BP1_uc001zrq.3_Missense_Mutation_p.T1178S|TP53BP1_uc001zrr.3_Missense_Mutation_p.T1178S|TP53BP1_uc010udq.1_Missense_Mutation_p.T1178S	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	1173					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		TTCTTTATAGTCTGGGTTGCT	0.483								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					4	137	---	---	---	---	PASS	A	43724535	A	A	43724535	3	1	18	1	0	0	0	0	1	0	0	0	16380	1667	58	5	2449	5	TP53BP1	15	43724535	Missense_Mutation	SNP	T	TCGA-18-5595-01A-01D-1632-08	981807	43724535	58806857	205	9094										
MYO5C	55930	broad.mit.edu	37	chr15	52486209	52486209	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ttgaaagagatatttggtatCcaacatcagctgtgatgaat	9	5	1	4			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr15:52486209C>T	uc010bff.2	-	41	5256	c.5119G>A	c.(5119-5121)GAT>AAT	p.D1707N	GNB5_uc002abt.1_5'Flank|MYO5C_uc010uga.1_RNA|uc002abv.2_Intron	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	1707						myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		TATTTGGTATCCAACATCAGC	0.418													5	125	---	---	---	---	PASS	T	52486209	T	T	52486209	3	4	18	1	0	0	0	0	1	0	0	0	10080	855	30	2	113	2	MYO5C	15	52486209	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	8761674	52486209	50045183	206	9095										
TLN2	83660	broad.mit.edu	37	chr15	63054650	63054650	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aagagtctcatcacttctatCaggtcagtttcccatccgga	7	12	5	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr15:63054650C>G	uc002alb.3	+	36	4959	c.4959C>G	c.(4957-4959)ATC>ATG	p.I1653M	TLN2_uc002alc.3_Missense_Mutation_p.I46M|TLN2_uc002ald.2_Missense_Mutation_p.I46M	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1653					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						TCACTTCTATCAGGTCAGTTT	0.522													47	90	---	---	---	---	PASS	G	63054650	G	G	63054650	3	3	18	1	0	0	0	0	1	0	0	0	15945	816	29	2	5101	2	TLN2	15	63054650	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	10568441	63054650	39476742	207	9096										
HEXA	3073	broad.mit.edu	37	chr15	72643537	72643537	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gaaggatcatctaccagatgCcagtggaacacgttcaattt	9	9	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr15:72643537C>T	uc002aun.3	-	6	816	c.609G>A	c.(607-609)TGG>TGA	p.W203*	uc002aug.2_RNA|CELF6_uc002auk.3_Intron|HEXA_uc010ukn.1_Nonsense_Mutation_p.W214*|HEXA_uc002auo.3_Nonsense_Mutation_p.W66*|HEXA_uc010bix.2_Nonsense_Mutation_p.W203*|HEXA_uc010biy.2_Nonsense_Mutation_p.W66*|HEXA_uc010uko.1_Nonsense_Mutation_p.W29*|HEXA_uc010biz.1_RNA	NM_000520	NP_000511	P06865	HEXA_HUMAN	hexosaminidase A preproprotein	203					cell death	lysosome	beta-N-acetylhexosaminidase activity|cation binding|protein heterodimerization activity			ovary(3)|upper_aerodigestive_tract(1)	4						CTACCAGATGCCAGTGGAACA	0.458													20	58	---	---	---	---	PASS	T	72643537	T	T	72643537	4	4	18	1	0	0	0	0	0	1	0	0	7073	740	26	3	1016	3	HEXA	15	72643537	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	9588887	72643537	29887855	208	9097										
SGK269	79834	broad.mit.edu	37	chr15	77471836	77471836	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ttgggccggactggcgtactCttaggtgtgctcttagcaac	13	10	2	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr15:77471836C>T	uc002bcm.2	-	3	2741	c.2433G>A	c.(2431-2433)AAG>AAA	p.K811K	SGK269_uc002bcn.2_Silent_p.K811K	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	811	Pro-rich.				cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		CTGGCGTACTCTTAGGTGTGC	0.502													58	75	---	---	---	---	PASS	T	77471836	T	T	77471836	2	4	18	1	0	0	0	0	0	0	0	1	14211	912	32	2		2	SGK269	15	77471836	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	4828299	77471836	25059556	209	9098										
SGK269	79834	broad.mit.edu	37	chr15	77473983	77473983	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tatgatgacaggtttgttctCacagtgttcttggatgctaa	10	6	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr15:77473983C>A	uc002bcm.2	-	3	594	c.286G>T	c.(286-288)GAG>TAG	p.E96*	SGK269_uc002bcn.2_Nonsense_Mutation_p.E96*	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	96					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		GGTTTGTTCTCACAGTGTTCT	0.438													86	105	---	---	---	---	PASS	A	77473983	A	A	77473983	4	1	18	1	0	0	0	0	0	1	0	0	14211	835	29	2	4970	2	SGK269	15	77473983	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	2147	77473983	25057409	210	9099										
WDR93	56964	broad.mit.edu	37	chr15	90270543	90270543	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agtacctagatagggagtggGaggaagagccactcaggtga	16	6	1	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr15:90270543G>A	uc002boj.2	+	9	1137	c.1036G>A	c.(1036-1038)GAG>AAG	p.E346K	WDR93_uc010bnr.2_Missense_Mutation_p.E346K|WDR93_uc010upz.1_Missense_Mutation_p.E63K	NM_020212	NP_064597	Q6P2C0	WDR93_HUMAN	WD repeat domain 93	346					electron transport chain	mitochondrial inner membrane	oxidoreductase activity, acting on NADH or NADPH			ovary(2)	2	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			TAGGGAGTGGGAGGAAGAGCC	0.552													17	23	---	---	---	---	PASS	A	90270543	A	A	90270543	3	1	18	1	0	0	0	0	1	0	0	0	17337	1175	41	2	1066	2	WDR93	15	90270543	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	12796560	90270543	12260849	211	9100										
BAIAP3	8938	broad.mit.edu	37	chr16	1394611	1394611	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cttccttgcagccaggaccaCagcgcctgcctgggctggtt	12	15	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr16:1394611C>T	uc002clk.1	+	19	1774	c.1774C>T	c.(1774-1776)CAG>TAG	p.Q592*	BAIAP3_uc002clj.2_Nonsense_Mutation_p.Q574*|BAIAP3_uc010uuz.1_Nonsense_Mutation_p.Q557*|BAIAP3_uc010uva.1_Nonsense_Mutation_p.Q529*|BAIAP3_uc010uvc.1_Nonsense_Mutation_p.Q521*	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	592					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				GCCAGGACCACAGCGCCTGCC	0.642													73	374	---	---	---	---	PASS	T	1394611	T	T	1394611	4	4	18	1	0	0	0	0	0	1	0	0	1304	479	17	3	1848	3	BAIAP3	16	1394611	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08		1394611	88960142	212	9101										
C16orf63	123811	broad.mit.edu	37	chr16	15978045	15978045	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccctaataccccctttttttCcaaggtgtcctttaaaactg	4	13	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr16:15978045C>T	uc002dec.1	-	2	51	c.46G>A	c.(46-48)GAA>AAA	p.E16K	C16orf63_uc002ded.1_Missense_Mutation_p.E16K	NM_144600	NP_653201	Q96NB1	FOPNL_HUMAN	hypothetical protein LOC123811	16	Necessary and sufficient for homooligomerization and localization to centrosomes and pericentriolar satellites.				cilium assembly|microtubule anchoring	centriolar satellite|microtubule basal body|motile cilium	identical protein binding				0						CCCTTTTTTTCCAAGGTGTCC	0.373													34	64	---	---	---	---	PASS	T	15978045	T	T	15978045	3	4	18	1	0	0	0	0	1	0	0	0	1826	864	30	2	494	2	C16orf63	16	15978045	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	14583434	15978045	74376708	213	9102										
SLC5A11	115584	broad.mit.edu	37	chr16	24909416	24909416	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gttccctgggatggtcagccGcatcctcttcccaggtgaga	12	13	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr16:24909416G>A	uc002dmu.2	+	10	1224	c.992G>A	c.(991-993)CGC>CAC	p.R331H	SLC5A11_uc002dms.2_Missense_Mutation_p.R267H|SLC5A11_uc010vcd.1_Missense_Mutation_p.R296H|SLC5A11_uc002dmt.2_Silent_p.P198P|SLC5A11_uc010vce.1_Missense_Mutation_p.R261H|SLC5A11_uc010bxt.2_Missense_Mutation_p.R267H	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	331	Extracellular (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		ATGGTCAGCCGCATCCTCTTC	0.502													59	91	---	---	---	---	PASS	A	24909416	A	A	24909416	3	1	18	1	0	0	0	0	1	0	0	0	14663	1087	38	1	1026	1	SLC5A11	16	24909416	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	8931371	24909416	65445337	214	9103										
RABEP2	79874	broad.mit.edu	37	chr16	28917057	28917057	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctgctgcacccgctccatctCtgtcctcaggctgcacaggg	10	17	2	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr16:28917057C>T	uc002drq.2	-	11	1507	c.1459G>A	c.(1459-1461)GAG>AAG	p.E487K	uc010vct.1_Intron|RABEP2_uc010vdf.1_Missense_Mutation_p.E416K|RABEP2_uc010byn.2_Missense_Mutation_p.E451K	NM_024816	NP_079092	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	487	Potential.				endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3						CGCTCCATCTCTGTCCTCAGG	0.672													37	46	---	---	---	---	PASS	T	28917057	T	T	28917057	3	4	18	1	0	0	0	0	1	0	0	0	12962	922	32	2	262	2	RABEP2	16	28917057	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	4007641	28917057	61437696	215	9104										
CD2BP2	10421	broad.mit.edu	37	chr16	30365571	30365571	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	atcatcatcatcctcctcctCatcgctatccaaagagtgtt	4	14	4	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr16:30365571C>T	uc002dxr.2	-	2	404	c.151G>A	c.(151-153)GAG>AAG	p.E51K	CD2BP2_uc002dxs.2_Missense_Mutation_p.E51K	NM_006110	NP_006101	O95400	CD2B2_HUMAN	CD2 antigen (cytoplasmic tail) binding protein	51					assembly of spliceosomal tri-snRNP	cytoplasm|nucleoplasm|U5 snRNP	protein binding|ribonucleoprotein binding			ovary(1)	1						TCCTCCTCCTCATCGCTATCC	0.522													183	288	---	---	---	---	PASS	T	30365571	T	T	30365571	3	4	18	1	0	0	0	0	1	0	0	0	2995	835	29	2	894	2	CD2BP2	16	30365571	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1448514	30365571	59989182	216	9105										
HEATR3	55027	broad.mit.edu	37	chr16	50120226	50120226	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccgcagcccttcagacgcttGcacagcatctgtcacagctg	9	16	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr16:50120226G>A	uc002efw.2	+	11	1636	c.1474G>A	c.(1474-1476)GCA>ACA	p.A492T	HEATR3_uc002efx.2_Missense_Mutation_p.A406T	NM_182922	NP_891552	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3	492							binding			ovary(1)|skin(1)	2						TCAGACGCTTGCACAGCATCT	0.498													10	13	---	---	---	---	PASS	A	50120226	A	A	50120226	3	1	18	1	0	0	0	0	1	0	0	0	7029	1319	46	3	1516	3	HEATR3	16	50120226	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	19754655	50120226	40234527	217	9106										
IRX5	10265	broad.mit.edu	37	chr16	54967521	54967521	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tgtccttttccaggcgggacGgtgctgtcccggcctctcta	12	14	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr16:54967521G>A	uc002ehv.2	+	3	1188	c.1188G>A	c.(1186-1188)ACG>ACA	p.T396T	IRX5_uc002ehw.2_Silent_p.T330T	NM_005853	NP_005844	P78411	IRX5_HUMAN	iroquois homeobox protein 5	396					response to stimulus|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|vitamin D binding				0						CAGGCGGGACGGTGCTGTCCC	0.716													22	32	---	---	---	---	PASS	A	54967521	A	A	54967521	2	1	18	1	0	0	0	0	0	0	0	1	7847	1103	39	1		1	IRX5	16	54967521	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	4847295	54967521	35387232	218	9107										
CPNE2	221184	broad.mit.edu	37	chr16	57151476	57151476	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gcgggcaggaggctggacaaGaaggtaaggcgggcagagga	21	6	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr16:57151476G>A	uc002eks.1	+	5	733	c.504G>A	c.(502-504)AAG>AAA	p.K168K	CPNE2_uc010cct.1_Silent_p.K194K|CPNE2_uc010ccu.1_Silent_p.K168K	NM_152727	NP_689940	Q96FN4	CPNE2_HUMAN	copine II	168	C2 2.									central_nervous_system(1)|skin(1)	2		all_neural(199;0.224)				GGCTGGACAAGAAGGTAAGGC	0.652													15	22	---	---	---	---	PASS	A	57151476	A	A	57151476	2	1	18	1	0	0	0	0	0	0	0	1	3812	933	33	2		2	CPNE2	16	57151476	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	2183955	57151476	33203277	219	9108										
HSF4	3299	broad.mit.edu	37	chr16	67201678	67201678	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccagtccagggggggatggcGaggccgggctggccctggcc	20	13	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr16:67201678G>A	uc002erl.1	+	11	1875	c.910G>A	c.(910-912)GAG>AAG	p.E304K	HSF4_uc002erm.1_Intron|HSF4_uc002ern.1_Intron|HSF4_uc010cec.1_Intron|NOL3_uc010vjc.1_5'Flank	NM_001040667	NP_001035757	Q9ULV5	HSF4_HUMAN	heat shock transcription factor 4 isoform b	304	Interactions with DUSP26, MAPK1 and MAPK2.				response to stress	nucleus	sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		GGGGGATGGCGAGGCCGGGCT	0.647													11	9	---	---	---	---	PASS	A	67201678	A	A	67201678	3	1	18	1	0	0	0	0	1	0	0	0	7398	1059	37	2	958	2	HSF4	16	67201678	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	10050202	67201678	23153075	220	9109										
HYDIN	54768	broad.mit.edu	37	chr16	70928358	70928358	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gggattccagttacctgaacGcgatctcatatttcccacgg	9	12	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr16:70928358G>T	uc002ezr.2	-	55	9367	c.9239C>A	c.(9238-9240)GCG>GAG	p.A3080E		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3081										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TTACCTGAACGCGATCTCATA	0.522													13	27	---	---	---	---	PASS	T	70928358	T	T	70928358	3	4	18	1	0	0	0	0	1	0	0	0	7467	1087	38	1	6251	1	HYDIN	16	70928358	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	3726680	70928358	19426395	221	9110										
CMIP	80790	broad.mit.edu	37	chr16	81725390	81725390	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctcattctaggtcagactatGatgactggagaccgtctctg	10	10	4	4			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr16:81725390G>A	uc002fgp.2	+	11	1471	c.1399G>A	c.(1399-1401)GAT>AAT	p.D467N	CMIP_uc002fgq.1_Missense_Mutation_p.D373N|CMIP_uc010vnq.1_Missense_Mutation_p.D280N|CMIP_uc002fgr.1_Missense_Mutation_p.D314N|CMIP_uc010vnr.1_5'Flank	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	433						cytoplasm|nucleus					0						GTCAGACTATGATGACTGGAG	0.527													8	15	---	---	---	---	PASS	A	81725390	A	A	81725390	3	1	18	1	0	0	0	0	1	0	0	0	3578	1290	45	2	1463	2	CMIP	16	81725390	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	10797032	81725390	8629363	222	9111										
ANKRD11	29123	broad.mit.edu	37	chr16	89350994	89350994	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	taagtaaaacttttcaacttCagctcttggctgatggaaca	7	8	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr16:89350994C>T	uc002fmx.1	-	9	2417	c.1956G>A	c.(1954-1956)CTG>CTA	p.L652L	ANKRD11_uc002fmy.1_Silent_p.L652L|ANKRD11_uc002fnc.1_Silent_p.L652L|ANKRD11_uc002fnb.1_Silent_p.L609L	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	652	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TTTTCAACTTCAGCTCTTGGC	0.388													125	186	---	---	---	---	PASS	T	89350994	T	T	89350994	2	4	18	1	0	0	0	0	0	0	0	1	639	813	29	2		2	ANKRD11	16	89350994	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	7625604	89350994	1003759	223	9112										
RILP	83547	broad.mit.edu	37	chr17	1551211	1551211	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gacagccaccttcatggcctCgagcagaaggccggggaccc	13	15	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr17:1551211C>T	uc002ftd.2	-	6	1156	c.862G>A	c.(862-864)GAG>AAG	p.E288K	SCARF1_uc002fsy.1_5'Flank|SCARF1_uc002fsz.1_5'Flank|SCARF1_uc002fta.1_5'Flank|SCARF1_uc010cjv.1_5'Flank	NM_031430	NP_113618	Q96NA2	RILP_HUMAN	Rab interacting lysosomal protein	288	Necessary for the interaction with RAB7 and RAB34, lysosomal distribution and morphology.				endosome to lysosome transport|protein transport	late endosome membrane|lysosomal membrane|phagocytic vesicle membrane	Rab GTPase binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		TTCATGGCCTCGAGCAGAAGG	0.607													34	51	---	---	---	---	PASS	T	1551211	T	T	1551211	3	4	18	1	0	0	0	0	1	0	0	0	13360	893	31	2	355	2	RILP	17	1551211	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08		1551211	79643999	224	9113										
HIC1	3090	broad.mit.edu	37	chr17	1961106	1961106	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cccggcgcgggcggcgacggCgacgactacaagagcagcag	17	14	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr17:1961106C>T	uc010cjy.2	+	2	1179	c.1179C>T	c.(1177-1179)GGC>GGT	p.G393G	HIC1_uc002fty.3_Silent_p.G374G|HIC1_uc002ftz.3_Silent_p.G374G	NM_001098202	NP_001091672	Q14526	HIC1_HUMAN	hypermethylated in cancer 1 isoform 2	393					multicellular organismal development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)	1				READ - Rectum adenocarcinoma(1115;0.236)		GCGGCGACGGCGACGACTACA	0.587													5	5	---	---	---	---	PASS	T	1961106	T	T	1961106	2	4	18	1	0	0	0	0	0	0	0	1	7101	755	27	1		1	HIC1	17	1961106	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	409895	1961106	79234104	225	9114										
TRPV3	162514	broad.mit.edu	37	chr17	3427651	3427651	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agtatcacaagcacagcttgGataaaactgttcaggagaca	9	8	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr17:3427651G>A	uc002fvt.1	-	13	1906	c.1584C>T	c.(1582-1584)ATC>ATT	p.I528I	TRPV3_uc002fvs.1_Intron|TRPV3_uc010vrh.1_Silent_p.I512I|TRPV3_uc010vri.1_Silent_p.I483I|TRPV3_uc010vrj.1_Silent_p.I512I|TRPV3_uc010vrk.1_Intron|TRPV3_uc010vrl.1_Silent_p.I512I|TRPV3_uc010vrm.1_Intron|TRPV3_uc002fvr.2_Silent_p.I528I|TRPV3_uc002fvu.2_Silent_p.I528I|TRPV3_uc010vrn.1_Intron	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	528	Helical; (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	GCACAGCTTGGATAAAACTGT	0.517													43	38	---	---	---	---	PASS	A	3427651	A	A	3427651	2	1	18	1	0	0	0	0	0	0	0	1	16594	1164	41	2		2	TRPV3	17	3427651	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	1466545	3427651	77767559	226	9115										
C1QBP	708	broad.mit.edu	37	chr17	5337084	5337084	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	attgggagttgatgtcagttCaggctggggaaacaagaagt	15	4	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr17:5337084C>T	uc002gby.1	-	4	559	c.481G>A	c.(481-483)GAA>AAA	p.E161K		NM_001212	NP_001203	Q07021	C1QBP_HUMAN	complement component 1, q subcomponent binding	161					blood coagulation, intrinsic pathway|immune response|interspecies interaction between organisms	mitochondrial matrix|nucleus|plasma membrane				ovary(1)	1						GATGTCAGTTCAGGCTGGGGA	0.458													76	114	---	---	---	---	PASS	T	5337084	T	T	5337084	3	4	18	1	0	0	0	0	1	0	0	0	1956	835	29	2	379	2	C1QBP	17	5337084	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1909433	5337084	75858126	227	9116										
DNAH2	146754	broad.mit.edu	37	chr17	7700550	7700550	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	catgataccaagtccagcatCacacggctctggatccatga	8	13	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr17:7700550C>T	uc002giu.1	+	50	7934	c.7920C>T	c.(7918-7920)ATC>ATT	p.I2640I		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2640					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				AGTCCAGCATCACACGGCTCT	0.537													73	104	---	---	---	---	PASS	T	7700550	T	T	7700550	2	4	18	1	0	0	0	0	0	0	0	1	4602	816	29	2		2	DNAH2	17	7700550	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	2363466	7700550	73494660	228	9117										
FOXN1	8456	broad.mit.edu	37	chr17	26861381	26861381	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggctggaagaattctgtccgGcacaacctatccctcaacaa	8	13	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr17:26861381G>A	uc010crm.2	+	7	1158	c.960G>A	c.(958-960)CGG>CGA	p.R320R	FOXN1_uc002hbj.2_Silent_p.R320R	NM_003593	NP_003584	O15353	FOXN1_HUMAN	forkhead box N1	320	Fork-head.				defense response|embryo development|epithelial cell proliferation|keratinocyte differentiation|organ morphogenesis|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|thymus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			skin(1)	1	Lung NSC(42;0.00431)					ATTCTGTCCGGCACAACCTAT	0.582													4	124	---	---	---	---	PASS	A	26861381	A	A	26861381	2	1	18	1	0	0	0	0	0	0	0	1	6019	1190	42	3		3	FOXN1	17	26861381	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	19160831	26861381	54333829	229	9118										
CHAD	1101	broad.mit.edu	37	chr17	48545632	48545632	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggctgcagggagctcaacgcGttttccgacaggtagagcca	14	11	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr17:48545632G>A	uc010dbr.2	-	1	596	c.543C>T	c.(541-543)AAC>AAT	p.N181N	ACSF2_uc002iqu.2_Intron|ACSF2_uc010wml.1_Intron|ACSF2_uc010wmm.1_Intron|ACSF2_uc010wmn.1_Intron|ACSF2_uc010wmo.1_Intron|CHAD_uc010dbs.2_Silent_p.N181N|ACSF2_uc010dbt.1_5'Flank	NM_001267	NP_001258	O15335	CHAD_HUMAN	chondroadherin precursor	181	LRR 5.				regulation of cell growth	proteinaceous extracellular matrix	extracellular matrix structural constituent			ovary(2)|central_nervous_system(1)	3	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			AGCTCAACGCGTTTTCCGACA	0.622													69	113	---	---	---	---	PASS	A	48545632	A	A	48545632	2	1	18	1	0	0	0	0	0	0	0	1	3310	1136	40	1		1	CHAD	17	48545632	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	21684251	48545632	32649578	230	9119										
TUBD1	51174	broad.mit.edu	37	chr17	57951925	57951925	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tccatctttgcattagaaatGagcatctgtctcaaatgctt	6	9	3	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr17:57951925G>A	uc002ixw.1	-	6	1187	c.909C>T	c.(907-909)CTC>CTT	p.L303L	TUBD1_uc010ddf.1_Intron|TUBD1_uc010ddg.1_Silent_p.L268L|TUBD1_uc010ddh.1_Intron|TUBD1_uc010wok.1_Silent_p.L303L|TUBD1_uc002ixx.1_Intron|TUBD1_uc010wol.1_Silent_p.L87L|TUBD1_uc010ddi.1_Intron	NM_016261	NP_057345	Q9UJT1	TBD_HUMAN	delta-tubulin	303					cell differentiation|microtubule-based movement|multicellular organismal development|protein polymerization|spermatogenesis	centriole|microtubule|nucleus	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1	all_cancers(5;3.18e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;9.34e-13)|all cancers(12;1.91e-11)			CATTAGAAATGAGCATCTGTC	0.423													74	250	---	---	---	---	PASS	A	57951925	A	A	57951925	2	1	18	1	0	0	0	0	0	0	0	1	16759	1277	45	2		2	TUBD1	17	57951925	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	9406293	57951925	23243285	231	9120										
SPHK1	8877	broad.mit.edu	37	chr17	74382930	74382930	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	acctcctgaccaactgcacgCtattgctgtgccgccggctg	10	16	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr17:74382930C>T	uc002jrf.1	+	8	1227	c.418C>T	c.(418-420)CTA>TTA	p.L140L	SPHK1_uc002jrg.1_Silent_p.L89L|SPHK1_uc002jrh.2_Silent_p.L154L|SPHK1_uc002jrj.2_Silent_p.L226L|SPHK1_uc002jri.2_Silent_p.L140L|SPHK1_uc002jrk.3_Silent_p.L140L|uc010wtd.1_RNA	NM_001142602	NP_001136074	Q9NYA1	SPHK1_HUMAN	sphingosine kinase 1 isoform 3	140	DAGKc.				'de novo' posttranslational protein folding|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|calcium-mediated signaling|positive regulation of angiogenesis|positive regulation of cell growth|positive regulation of cell migration|positive regulation of fibroblast proliferation|positive regulation of mitotic cell cycle|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|positive regulation of smooth muscle contraction|regulation of tumor necrosis factor-mediated signaling pathway|sphingoid catabolic process|sphingosine metabolic process	cytosol|membrane fraction|nucleus|plasma membrane|soluble fraction	ATP binding|calmodulin binding|D-erythro-sphingosine kinase activity|diacylglycerol kinase activity|DNA binding|magnesium ion binding|protein phosphatase 2A binding|sphinganine kinase activity			kidney(1)	1						CAACTGCACGCTATTGCTGTG	0.602													11	102	---	---	---	---	PASS	T	74382930	T	T	74382930	2	4	18	1	0	0	0	0	0	0	0	1	15045	796	28	3		3	SPHK1	17	74382930	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	16431005	74382930	6812280	232	9121										
BAHCC1	57597	broad.mit.edu	37	chr17	79425950	79425950	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aggaggacgaggaggaagagGaggaggacagcggccctctg	20	7	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr17:79425950G>A	uc002kaf.2	+	18	5560	c.5560G>A	c.(5560-5562)GAG>AAG	p.E1854K	BAHCC1_uc002kae.2_Missense_Mutation_p.E1084K	NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	1854							DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			ggaggaagaggaggaggaCAG	0.557													3	11	---	---	---	---	PASS	A	79425950	A	A	79425950	3	1	18	1	0	0	0	0	1	0	0	0	1296	1175	41	2	5469	2	BAHCC1	17	79425950	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	5043020	79425950	1769260	233	9122										
MIB1	57534	broad.mit.edu	37	chr18	19379821	19379821	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gaaagactctcacaactcctGaagaaattatttgaaaccca	5	10	1	4			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr18:19379821G>A	uc002ktq.2	+	9	1257	c.1257G>A	c.(1255-1257)CTG>CTA	p.L419L	MIB1_uc002ktp.2_Silent_p.L58L	NM_020774	NP_065825	Q86YT6	MIB1_HUMAN	mindbomb homolog 1	419					Notch signaling pathway	centrosome|nuclear membrane|plasma membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(4)	4			STAD - Stomach adenocarcinoma(5;0.212)			CACAACTCCTGAAGAAATTAT	0.353													42	61	---	---	---	---	PASS	A	19379821	A	A	19379821	2	1	18	1	0	0	0	0	0	0	0	1	9566	1277	45	2		2	MIB1	18	19379821	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08		19379821	58697427	234	9123										
ZNF396	252884	broad.mit.edu	37	chr18	32949403	32949403	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	taaaataagggctgagctctGactaaagattttgccacatt	8	7	1	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr18:32949403G>A	uc010xcf.1	-	4	916	c.784C>T	c.(784-786)CAG>TAG	p.Q262*		NM_145756	NP_665699	Q96N95	ZN396_HUMAN	zinc finger protein 396	262	C2H2-type 1.				viral reproduction	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCTGAGCTCTGACTAAAGATT	0.408													64	93	---	---	---	---	PASS	A	32949403	A	A	32949403	4	1	18	1	0	0	0	0	0	1	0	0	17879	1299	45	2	225	2	ZNF396	18	32949403	Nonsense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	13569582	32949403	45127845	235	9124										
SKA1	220134	broad.mit.edu	37	chr18	47906588	47906588	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ataaattggaattggaaattCagtatcaagaacaaaccaac	6	6	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr18:47906588C>T	uc002let.2	+	3	365	c.181C>T	c.(181-183)CAG>TAG	p.Q61*	SKA1_uc002leu.2_Nonsense_Mutation_p.Q61*|SKA1_uc010xdl.1_Nonsense_Mutation_p.Q61*	NM_145060	NP_659497	Q96BD8	SKA1_HUMAN	spindle and KT associated 1	61	Potential.				cell division|chromosome segregation|mitotic anaphase|mitotic prometaphase|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytosol|spindle microtubule	microtubule binding				0						ATTGGAAATTCAGTATCAAGA	0.299													44	71	---	---	---	---	PASS	T	47906588	T	T	47906588	4	4	18	1	0	0	0	0	0	1	0	0	14352	827	29	2	187	2	SKA1	18	47906588	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	14957185	47906588	30170660	236	9125										
MAPK4	5596	broad.mit.edu	37	chr18	48241563	48241563	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccgccggctgcatcctggctGagatgcttacggggagaatg	15	11	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr18:48241563G>C	uc002lev.2	+	3	1661	c.661G>C	c.(661-663)GAG>CAG	p.E221Q	MAPK4_uc010xdm.1_Missense_Mutation_p.E10Q|MAPK4_uc010doz.2_Missense_Mutation_p.E221Q	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	221	Protein kinase.				cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		CATCCTGGCTGAGATGCTTAC	0.532													43	56	---	---	---	---	PASS	C	48241563	C	C	48241563	3	2	18	1	0	0	0	0	1	0	0	0	9280	1291	45	2	667	2	MAPK4	18	48241563	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	334975	48241563	29835685	237	9126										
ZNF236	7776	broad.mit.edu	37	chr18	74580737	74580737	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aggagctggctggaacccggCagcatgcctgcaaggcctgc	15	13	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr18:74580737C>T	uc002lmi.2	+	4	652	c.454C>T	c.(454-456)CAG>TAG	p.Q152*	ZNF236_uc002lmj.2_RNA|ZNF236_uc002lmk.1_Nonsense_Mutation_p.Q152*	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	152					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TGGAACCCGGCAGCATGCCTG	0.527													66	110	---	---	---	---	PASS	T	74580737	T	T	74580737	4	4	18	1	0	0	0	0	0	1	0	0	17786	711	25	3	468	3	ZNF236	18	74580737	Nonsense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	26339174	74580737	3496511	238	9127										
WDR18	57418	broad.mit.edu	37	chr19	994262	994262	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtccgtgtgacggagctggaGgacgaggtgcgcaacctgcg	18	10	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:994262G>A	uc002lqm.1	+	10	1244	c.1218G>A	c.(1216-1218)GAG>GAA	p.E406E	WDR18_uc002lqn.1_RNA|WDR18_uc010drx.1_Silent_p.E369E|WDR18_uc010dry.1_Silent_p.E383E	NM_024100	NP_077005	Q9BV38	WDR18_HUMAN	WD repeat domain 18	406										skin(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGAGCTGGAGGACGAGGTGC	0.687													15	17	---	---	---	---	PASS	A	994262	A	A	994262	2	1	18	1	0	0	0	0	0	0	0	1	17275	991	35	3		3	WDR18	19	994262	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08		994262	58134721	239	9128										
FSD1	79187	broad.mit.edu	37	chr19	4318941	4318941	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ttcaccgctgagtcctacacAgttctgggtaaggaagggga	13	9	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:4318941A>T	uc002lzy.2	+	10	1185	c.1032A>T	c.(1030-1032)ACA>ACT	p.T344T	FSD1_uc002lzz.2_Silent_p.T344T|FSD1_uc002maa.2_Silent_p.T157T	NM_024333	NP_077309	Q9BTV5	FSD1_HUMAN	fibronectin type III and SPRY domain containing	344	B30.2/SPRY.				cell division|mitosis	cleavage furrow|microtubule|microtubule organizing center|nucleus				skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.034)|STAD - Stomach adenocarcinoma(1328;0.18)		AGTCCTACACAGTTCTGGGTA	0.607													30	73	---	---	---	---	PASS	T	4318941	T	T	4318941	2	4	18	1	0	0	0	0	0	0	0	1	6070	175	7	5		5	FSD1	19	4318941	Silent	SNP	A	TCGA-18-5595-01A-01D-1632-08	3324679	4318941	54810042	240	9129										
SH2D3A	10045	broad.mit.edu	37	chr19	6752605	6752605	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aagaagggtgtctgcgctctCagcggtcaggctccaggcgc	15	12	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:6752605C>T	uc002mft.2	-	10	1924	c.1730G>A	c.(1729-1731)TGA>TAA	p.*577*	SH2D3A_uc010xjg.1_Silent_p.*484*	NM_005490	NP_005481	Q9BRG2	SH23A_HUMAN	SH2 domain containing 3A	577					JNK cascade|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			breast(2)	2						TCTGCGCTCTCAGCGGTCAGG	0.667													5	4	---	---	---	---	PASS	T	6752605	T	T	6752605	2	4	18	1	0	0	0	0	0	0	0	1	14233	837	29	2		2	SH2D3A	19	6752605	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	2433664	6752605	52376378	241	9130										
PNPLA6	10908	broad.mit.edu	37	chr19	7606545	7606545	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gggcggccacccgatcccacCggggccccgctgcctggacc	14	20	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:7606545C>T	uc010xjq.1	+	11	1365	c.1170C>T	c.(1168-1170)ACC>ACT	p.T390T	PNPLA6_uc002mgq.1_Silent_p.T342T|PNPLA6_uc010xjp.1_Silent_p.T342T|PNPLA6_uc002mgr.1_Silent_p.T342T|PNPLA6_uc002mgs.2_Silent_p.T381T	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	381	Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						CCGATCCCACCGGGGCCCCGC	0.682													8	6	---	---	---	---	PASS	T	7606545	T	T	7606545	2	4	18	1	0	0	0	0	0	0	0	1	12169	639	23	1		1	PNPLA6	19	7606545	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	853940	7606545	51522438	242	9131										
MUC16	94025	broad.mit.edu	37	chr19	9060544	9060544	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggtggaagaggtgaccactgGagatgtcactttggatggct	16	6	1	3			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:9060544G>C	uc002mkp.2	-	3	27106	c.26902C>G	c.(26902-26904)CCA>GCA	p.P8968A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8970	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGACCACTGGAGATGTCACT	0.463													99	135	---	---	---	---	PASS	C	9060544	C	C	9060544	3	2	18	1	0	0	0	0	1	0	0	0	9973	1174	41	2	16949	2	MUC16	19	9060544	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	1453999	9060544	50068439	243	9132										
KEAP1	9817	broad.mit.edu	37	chr19	10600376	10600376	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	atcattcgccactcgttcctCtctgggtagtaacactcagc	7	14	3	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:10600376C>G	uc002moq.1	-	4	1635	c.1479G>C	c.(1477-1479)GAG>GAC	p.E493D	KEAP1_uc002mop.1_Missense_Mutation_p.E211D|KEAP1_uc002mor.1_Missense_Mutation_p.E493D	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	493	Kelch 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			ACTCGTTCCTCTCTGGGTAGT	0.597													34	56	---	---	---	---	PASS	G	10600376	G	G	10600376	3	3	18	1	0	0	0	0	1	0	0	0	8141	912	32	2	407	2	KEAP1	19	10600376	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1539832	10600376	48528607	244	9133										
KEAP1	9817	broad.mit.edu	37	chr19	10602799	10602799	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gcgcctggacgtagaaccgtCgctgttcgcagtcgtacttg	13	12	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:10602799C>T	uc002moq.1	-	3	935	c.779G>A	c.(778-780)CGA>CAA	p.R260Q	KEAP1_uc002mop.1_5'UTR|KEAP1_uc002mor.1_Missense_Mutation_p.R260Q	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	260	BACK.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding	p.R260*(1)		lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			GTAGAACCGTCGCTGTTCGCA	0.627													38	59	---	---	---	---	PASS	T	10602799	T	T	10602799	3	4	18	1	0	0	0	0	1	0	0	0	8141	884	31	2	1111	2	KEAP1	19	10602799	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	2423	10602799	48526184	245	9134										
AKAP8	10270	broad.mit.edu	37	chr19	15465863	15465863	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctcggcgccatttccagcctCtgcagcctcacttctggcct	8	18	3	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:15465863C>T	uc002nav.2	-	14	2003	c.1942G>A	c.(1942-1944)GAG>AAG	p.E648K	AKAP8_uc010dzy.2_Missense_Mutation_p.E197K	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	648					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						TTTCCAGCCTCTGCAGCCTCA	0.607													26	52	---	---	---	---	PASS	T	15465863	T	T	15465863	3	4	18	1	0	0	0	0	1	0	0	0	457	922	32	2	140	2	AKAP8	19	15465863	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	4863064	15465863	43663120	246	9135										
FCHO1	23149	broad.mit.edu	37	chr19	17893894	17893894	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	catcgtgcgtgtgttcagcgGgaccccaccaccacctgtcc	10	17	1	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:17893894G>A	uc010ebb.2	+	23	2195	c.2006G>A	c.(2005-2007)GGG>GAG	p.G669E	FCHO1_uc002nhg.3_Missense_Mutation_p.G669E|FCHO1_uc002nhh.2_Missense_Mutation_p.G669E|FCHO1_uc010xpw.1_Missense_Mutation_p.G619E|FCHO1_uc002nhi.2_Missense_Mutation_p.G125E|FCHO1_uc002nhj.2_Missense_Mutation_p.G13E	NM_001161358	NP_001154830	O14526	FCHO1_HUMAN	FCH domain only 1 isoform b	669										breast(1)	1						GTGTTCAGCGGGACCCCACCA	0.597													10	62	---	---	---	---	PASS	A	17893894	A	A	17893894	3	1	18	1	0	0	0	0	1	0	0	0	5787	1232	43	3	2088	3	FCHO1	19	17893894	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	2428031	17893894	41235089	247	9136										
TSSK6	83983	broad.mit.edu	37	chr19	19625897	19625897	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggcgatctgcgcaaagaggtCgcgcgcctgaactccgggga	16	12	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:19625897C>T	uc002nmr.2	-	1	573	c.340G>A	c.(340-342)GAC>AAC	p.D114N	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	114	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						GCAAAGAGGTCGCGCGCCTGA	0.657													38	75	---	---	---	---	PASS	T	19625897	T	T	19625897	3	4	18	1	0	0	0	0	1	0	0	0	16669	884	31	2	485	2	TSSK6	19	19625897	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1732003	19625897	39503086	248	9137										
TSSK6	83983	broad.mit.edu	37	chr19	19626086	19626086	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	caggaacttgttgacgaagtCcgggggcgctcgccgccggt	16	12	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:19626086C>T	uc002nmr.2	-	1	384	c.151G>A	c.(151-153)GAC>AAC	p.D51N	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	51	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						TTGACGAAGTCCGGGGGCGCT	0.617													44	52	---	---	---	---	PASS	T	19626086	T	T	19626086	3	4	18	1	0	0	0	0	1	0	0	0	16669	855	30	2	674	2	TSSK6	19	19626086	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	189	19626086	39502897	249	9138										
LPAR2	9170	broad.mit.edu	37	chr19	19737830	19737830	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cggggaccagtgtggaacatGaggaagaggtaggccacgcc	17	9	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:19737830G>A	uc002nnb.3	-	2	403	c.264C>T	c.(262-264)CTC>CTT	p.L88L	LPAR2_uc002nna.3_Silent_p.L88L|LPAR2_uc002nnc.3_Silent_p.L88L	NM_004720	NP_004711	Q9HBW0	LPAR2_HUMAN	lysophosphatidic acid receptor 2	88	Helical; Name=2; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration	cell surface|integral to plasma membrane	LIM domain binding|lipid binding			ovary(1)|breast(1)	2						TGTGGAACATGAGGAAGAGGT	0.647													15	23	---	---	---	---	PASS	A	19737830	A	A	19737830	2	1	18	1	0	0	0	0	0	0	0	1	8905	1277	45	2		2	LPAR2	19	19737830	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	111744	19737830	39391153	250	9139										
KIAA0355	9710	broad.mit.edu	37	chr19	34843609	34843609	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggcagcacccttccccgcttCccagcacgctgcccagcccc	8	23	0	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:34843609C>T	uc002nvd.3	+	14	3821	c.2962C>T	c.(2962-2964)CCC>TCC	p.P988S		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	988										ovary(1)	1	Esophageal squamous(110;0.162)					TTCCCCGCTTCCCAGCACGCT	0.582													31	79	---	---	---	---	PASS	T	34843609	T	T	34843609	3	4	18	1	0	0	0	0	1	0	0	0	8170	855	30	2	3012	2	KIAA0355	19	34843609	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	15105779	34843609	24285374	251	9140										
GRAMD1A	57655	broad.mit.edu	37	chr19	35504575	35504575	+	Missense_Mutation	SNP	A	G	G													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cgcccaacctttcccgagccAgcagcgacgcagaccatggg							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:35504575A>G	uc010xse.1	+	9	987	c.850A>G	c.(850-852)AGC>GGC	p.S284G	GRAMD1A_uc002nxi.1_Missense_Mutation_p.S371G|GRAMD1A_uc002nxk.2_Missense_Mutation_p.S277G|GRAMD1A_uc002nxl.2_Missense_Mutation_p.S50G|GRAMD1A_uc010xsf.1_Missense_Mutation_p.S289G|GRAMD1A_uc002nxm.1_RNA|GRAMD1A_uc002nxn.1_5'Flank	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	284						integral to membrane					0	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			TTCCCGAGCCAGCAGCGACGC	0.652													7	64	---	---	---	---	PASS	G	35504575	G	G	35504575	3	3	18	1	0	0	0	0	1	0	0	0	6747	188	7	5	884	5	GRAMD1A	19	35504575	Missense_Mutation	SNP	A	TCGA-18-5595-01A-01D-1632-08	660966	35504575	23624408	252	9141	267	2								
GRAMD1A	57655	broad.mit.edu	37	chr19	35504576	35504576	+	Missense_Mutation	SNP	G	T	T													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gcccaacctttcccgagccaGcagcgacgcagaccatgggg							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:35504576G>T	uc010xse.1	+	9	988	c.851G>T	c.(850-852)AGC>ATC	p.S284I	GRAMD1A_uc002nxi.1_Missense_Mutation_p.S371I|GRAMD1A_uc002nxk.2_Missense_Mutation_p.S277I|GRAMD1A_uc002nxl.2_Missense_Mutation_p.S50I|GRAMD1A_uc010xsf.1_Missense_Mutation_p.S289I|GRAMD1A_uc002nxm.1_RNA|GRAMD1A_uc002nxn.1_5'Flank	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	284						integral to membrane					0	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			TCCCGAGCCAGCAGCGACGCA	0.652													7	64	---	---	---	---	PASS	T	35504576	T	T	35504576	3	4	18	1	0	0	0	0	1	0	0	0	6747	971	34	3	885	3	GRAMD1A	19	35504576	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	1	35504576	23624407	253	9142	267	2								
SPTBN4	57731	broad.mit.edu	37	chr19	41066123	41066123	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ggtgtatgcgggtgaacatgCcgaggccatcgctagccggg	17	10	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:41066123C>T	uc002ony.2	+	27	5815	c.5729C>T	c.(5728-5730)GCC>GTC	p.A1910V	SPTBN4_uc002onx.2_Missense_Mutation_p.A1910V|SPTBN4_uc002onz.2_Missense_Mutation_p.A1910V|SPTBN4_uc010egx.2_Missense_Mutation_p.A653V|SPTBN4_uc002ooa.2_Missense_Mutation_p.A586V	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1910	Spectrin 16.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GGTGAACATGCCGAGGCCATC	0.687													24	42	---	---	---	---	PASS	T	41066123	T	T	41066123	3	4	18	1	0	0	0	0	1	0	0	0	15120	739	26	3	5831	3	SPTBN4	19	41066123	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	5561547	41066123	18062860	254	9143										
GIPR	2696	broad.mit.edu	37	chr19	46181223	46181223	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ctgtccaagctgaggacacgGcaaatgcgctgccgggatta	13	11	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:46181223G>A	uc002pcu.1	+	11	1083	c.984G>A	c.(982-984)CGG>CGA	p.R328R	GIPR_uc002pct.1_Silent_p.R328R|GIPR_uc010xxp.1_Silent_p.R292R|GIPR_uc010xxq.1_RNA	NM_000164	NP_000155	P48546	GIPR_HUMAN	gastric inhibitory polypeptide receptor	328	Cytoplasmic (Potential).				generation of precursor metabolites and energy|response to nutrient	integral to membrane|plasma membrane				skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0056)|GBM - Glioblastoma multiforme(486;0.0832)|Epithelial(262;0.199)		TGAGGACACGGCAAATGCGCT	0.592													4	159	---	---	---	---	PASS	A	46181223	A	A	46181223	2	1	18	1	0	0	0	0	0	0	0	1	6395	1190	42	3		3	GIPR	19	46181223	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	5115100	46181223	12947760	255	9144										
ZNF534	147658	broad.mit.edu	37	chr19	52941042	52941042	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtcacttaaaaatcaacatgGattaactcttcagttacatc	4	9	4	0			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:52941042G>T	uc002pzk.2	+	4	429	c.368G>T	c.(367-369)GGA>GTA	p.G123V	ZNF534_uc002pzj.1_Intron|ZNF534_uc010epo.1_Intron|ZNF534_uc002pzl.2_Missense_Mutation_p.G110V	NM_001143939	NP_001137411	Q76KX8	ZN534_HUMAN	zinc finger protein 534 isoform 2	123					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AATCAACATGGATTAACTCTT	0.358													21	30	---	---	---	---	PASS	T	52941042	T	T	52941042	3	4	18	1	0	0	0	0	1	0	0	0	17970	1174	41	2	382	2	ZNF534	19	52941042	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	6759819	52941042	6187941	256	9145										
LILRA1	11024	broad.mit.edu	37	chr19	55107247	55107247	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	aacgtgacttcctccagctcCctggcccacagccccaggct	8	19	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:55107247C>T	uc002qgh.1	+	6	987	c.805C>T	c.(805-807)CCT>TCT	p.P269S	LILRA2_uc010yfg.1_Missense_Mutation_p.P267S|LILRA1_uc010yfh.1_Missense_Mutation_p.P269S	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	269	Extracellular (Potential).|Ig-like C2-type 3.				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		CCTCCAGCTCCCTGGCCCACA	0.607													26	134	---	---	---	---	PASS	T	55107247	T	T	55107247	3	4	18	1	0	0	0	0	1	0	0	0	8784	623	22	3	823	3	LILRA1	19	55107247	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	2166205	55107247	4021736	257	9146										
DUXA	503835	broad.mit.edu	37	chr19	57672161	57672161	+	Missense_Mutation	SNP	C	A	A													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cgcctatgatttgtttttacCatctctgtaggaagattaca							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:57672161C>A	uc002qoa.1	-	2	75	c.30G>T	c.(28-30)ATG>ATT	p.M10I		NM_001012729	NP_001012747	A6NLW8	DUXA_HUMAN	double homeobox A	10						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0123)		TTGTTTTTACCATCTCTGTAG	0.368													18	117	---	---	---	---	PASS	A	57672161	A	A	57672161	3	1	18	1	0	0	0	0	1	0	0	0	4834	594	21	3	604	3	DUXA	19	57672161	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	2564914	57672161	1456822	258	9147	268	2								
DUXA	503835	broad.mit.edu	37	chr19	57672162	57672162	+	Missense_Mutation	SNP	A	C	C													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gcctatgatttgtttttaccAtctctgtaggaagattacaa							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr19:57672162A>C	uc002qoa.1	-	2	74	c.29T>G	c.(28-30)ATG>AGG	p.M10R		NM_001012729	NP_001012747	A6NLW8	DUXA_HUMAN	double homeobox A	10						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0123)		TGTTTTTACCATCTCTGTAGG	0.373													17	116	---	---	---	---	PASS	C	57672162	C	C	57672162	3	2	18	1	0	0	0	0	1	0	0	0	4834	217	8	5	605	5	DUXA	19	57672162	Missense_Mutation	SNP	A	TCGA-18-5595-01A-01D-1632-08	1	57672162	1456821	259	9148	268	2								
CRNKL1	51340	broad.mit.edu	37	chr20	20018062	20018062	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agctgttccaaattcttcttCaaaacttcgccaagattcca	4	12	3	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr20:20018062C>G	uc002wrs.2	-	14	2316	c.2284G>C	c.(2284-2286)GAA>CAA	p.E762Q		NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	762	HAT 15.				spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						AATTCTTCTTCAAAACTTCGC	0.403													149	213	---	---	---	---	PASS	G	20018062	G	G	20018062	3	3	18	1	0	0	0	0	1	0	0	0	3891	835	29	2	270	2	CRNKL1	20	20018062	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08		20018062	43007458	260	9149										
NCOA6	23054	broad.mit.edu	37	chr20	33337252	33337252	+	Nonsense_Mutation	SNP	T	A	A													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cttccgagggggtttcttctTcttcggtttatttgcgttgg							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr20:33337252T>A	uc002xav.2	-	10	5317	c.2746A>T	c.(2746-2748)AAG>TAG	p.K916*	NCOA6_uc002xaw.2_Nonsense_Mutation_p.K916*	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	916	Gln-rich.|NCOA6IP-binding region.|Poly-Lys.|CREBBP-binding region.|TBP/GTF2A-binding region.|NCOA1-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						GGTTTCTTCTTCTTCGGTTTA	0.378													30	192	---	---	---	---	PASS	A	33337252	A	A	33337252	4	1	18	1	0	0	0	0	0	1	0	0	10233	1792	62	5	3473	5	NCOA6	20	33337252	Nonsense_Mutation	SNP	T	TCGA-18-5595-01A-01D-1632-08	13319190	33337252	29688268	261	9150	269	2								
NCOA6	23054	broad.mit.edu	37	chr20	33337253	33337253	+	Silent	SNP	C	T	T													0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ttccgagggggtttcttcttCttcggtttatttgcgttggt							TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr20:33337253C>T	uc002xav.2	-	10	5316	c.2745G>A	c.(2743-2745)AAG>AAA	p.K915K	NCOA6_uc002xaw.2_Silent_p.K915K	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	915	Gln-rich.|NCOA6IP-binding region.|Poly-Lys.|CREBBP-binding region.|TBP/GTF2A-binding region.|NCOA1-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						GTTTCTTCTTCTTCGGTTTAT	0.378													31	189	---	---	---	---	PASS	T	33337253	T	T	33337253	2	4	18	1	0	0	0	0	0	0	0	1	10233	912	32	2		2	NCOA6	20	33337253	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	1	33337253	29688267	262	9151	269	2								
CSE1L	1434	broad.mit.edu	37	chr20	47711383	47711383	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccaggatatcagactgccttCtcacagttggcatttgctgg	10	11	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr20:47711383C>T	uc002xty.2	+	24	2843	c.2709C>T	c.(2707-2709)TTC>TTT	p.F903F	CSE1L_uc010zyg.1_Silent_p.F686F|CSE1L_uc010ghx.2_Silent_p.F847F|CSE1L_uc010ghy.2_Silent_p.F524F|CSE1L_uc010zyh.1_Silent_p.F552F	NM_001316	NP_001307	P55060	XPO2_HUMAN	CSE1 chromosome segregation 1-like protein	903					apoptosis|cell proliferation|intracellular protein transport	cytoplasm|nucleus	importin-alpha export receptor activity			large_intestine(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000491)|Colorectal(8;0.198)			AGACTGCCTTCTCACAGTTGG	0.408													48	73	---	---	---	---	PASS	T	47711383	T	T	47711383	2	4	18	1	0	0	0	0	0	0	0	1	3930	912	32	2		2	CSE1L	20	47711383	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	14374130	47711383	15314137	263	9152										
USP25	29761	broad.mit.edu	37	chr21	17138410	17138410	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gacaacttactaccaaacagCacttcctggcaatgatagat	6	11	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr21:17138410C>A	uc002yjy.1	+	3	435	c.218C>A	c.(217-219)GCA>GAA	p.A73E	USP25_uc011aby.1_Missense_Mutation_p.A73E|USP25_uc002yjz.1_Missense_Mutation_p.A73E|USP25_uc010gla.1_Missense_Mutation_p.A73E	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	73					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		TACCAAACAGCACTTCCTGGC	0.383													6	84	---	---	---	---	PASS	A	17138410	A	A	17138410	3	1	18	1	0	0	0	0	1	0	0	0	17053	710	25	3	228	3	USP25	21	17138410	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08		17138410	30991485	264	9153										
CHODL	140578	broad.mit.edu	37	chr21	19629100	19629100	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tctggtgcctgcccagatctCtaccagtggtctgatggaag	12	11	3	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr21:19629100C>A	uc002ykv.2	+	2	745	c.354C>A	c.(352-354)CTC>CTA	p.L118L	CHODL_uc002ykr.2_Silent_p.L77L|CHODL_uc002yks.2_Silent_p.L77L|CHODL_uc002ykt.2_Silent_p.L77L|CHODL_uc002yku.2_Silent_p.L77L	NM_024944	NP_079220	Q9H9P2	CHODL_HUMAN	chondrolectin precursor	118	Extracellular (Potential).|C-type lectin.				muscle organ development	integral to membrane|perinuclear region of cytoplasm	sugar binding			upper_aerodigestive_tract(1)	1		all_epithelial(11;0.21)		Epithelial(23;0.000191)|all cancers(11;0.000827)|LUSC - Lung squamous cell carcinoma(23;0.00646)|Lung(58;0.0129)|OV - Ovarian serous cystadenocarcinoma(11;0.017)|COAD - Colon adenocarcinoma(22;0.03)|Colorectal(24;0.0917)		GCCCAGATCTCTACCAGTGGT	0.512													49	84	---	---	---	---	PASS	A	19629100	A	A	19629100	2	1	18	1	0	0	0	0	0	0	0	1	3364	900	32	2		2	CHODL	21	19629100	Silent	SNP	C	TCGA-18-5595-01A-01D-1632-08	2490690	19629100	28500795	265	9154										
DSCR4	10281	broad.mit.edu	37	chr21	39493330	39493330	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tccggggttcatcatctctcGtcaagatgattaacgacatg	9	10	4	2	rs148504310		TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr21:39493330G>A	uc002ywp.2	-	1	125	c.20C>T	c.(19-21)ACG>ATG	p.T7M	DSCR8_uc002ywt.3_5'Flank|DSCR8_uc010gnp.2_5'Flank|DSCR8_uc010gnq.2_5'Flank|DSCR8_uc010gnr.2_5'Flank|DSCR8_uc010gns.2_5'Flank	NM_005867	NP_005858	P56555	DSCR4_HUMAN	Down syndrome critical region protein 4	7										ovary(1)	1						atcatctctcgtcaagatgat	0													18	23	---	---	---	---	PASS	A	39493330	A	A	39493330	3	1	18	1	0	0	0	0	1	0	0	0	4772	1145	40	1	348	1	DSCR4	21	39493330	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	19864230	39493330	8636565	266	9155										
SNRPD3	6634	broad.mit.edu	37	chr22	24953658	24953658	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccaagatgtctattggtgtgCcgattaaagtactgcatgag	11	7	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr22:24953658C>T	uc003aam.1	+	2	456	c.16C>T	c.(16-18)CCG>TCG	p.P6S	C22orf13_uc003aah.2_5'Flank|C22orf13_uc003aal.2_5'Flank|C22orf13_uc003aai.3_5'Flank|C22orf13_uc003aaj.3_5'Flank|C22orf13_uc003aak.3_5'Flank|SNRPD3_uc011aju.1_Missense_Mutation_p.P6S	NM_004175	NP_004166	P62318	SMD3_HUMAN	small nuclear ribonucleoprotein polypeptide D3	6					histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	enzyme binding|histone pre-mRNA DCP binding			ovary(1)	1						TATTGGTGTGCCGATTAAAGT	0.478													4	174	---	---	---	---	PASS	T	24953658	T	T	24953658	3	4	18	1	0	0	0	0	1	0	0	0	14866	739	26	3	18	3	SNRPD3	22	24953658	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08		24953658	26350908	267	9156										
MN1	4330	broad.mit.edu	37	chr22	28196346	28196346	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccgtagggctccatgttcatGcccaagatcgggggttcgcc	13	13	1	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr22:28196346G>A	uc003adj.2	-	1	1141	c.186C>T	c.(184-186)GGC>GGT	p.G62G		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	62							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						CCATGTTCATGCCCAAGATCG	0.672			T	ETV6	AML|meningioma								64	58	---	---	---	---	PASS	A	28196346	A	A	28196346	2	1	18	1	0	0	0	0	0	0	0	1	9673	1306	46	3		3	MN1	22	28196346	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	3242688	28196346	23108220	268	9157										
C22orf31	25770	broad.mit.edu	37	chr22	29456416	29456416	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	cgtctacctctctgatgcctCctgcaggcctcctatgccct	7	18	2	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr22:29456416C>A	uc003aej.1	-	2	546	c.419G>T	c.(418-420)GGA>GTA	p.G140V		NM_015370	NP_056185	O95567	CV031_HUMAN	hypothetical protein LOC25770	140											0						TCTGATGCCTCCTGCAGGCCT	0.522													44	212	---	---	---	---	PASS	A	29456416	A	A	29456416	3	1	18	1	0	0	0	0	1	0	0	0	2143	855	30	2	461	2	C22orf31	22	29456416	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	1260070	29456416	21848150	269	9158										
MTMR3	8897	broad.mit.edu	37	chr22	30416154	30416154	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	taccttcccaagtcccttttGagaccagaggaccaaacgtg	8	13	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr22:30416154G>A	uc003agv.3	+	17	2834	c.2506G>A	c.(2506-2508)GAG>AAG	p.E836K	MTMR3_uc003agu.3_Missense_Mutation_p.E836K|MTMR3_uc003agw.3_Missense_Mutation_p.E836K	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	836					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			AGTCCCTTTTGAGACCAGAGG	0.478													62	75	---	---	---	---	PASS	A	30416154	A	A	30416154	3	1	18	1	0	0	0	0	1	0	0	0	9945	1291	45	2	2564	2	MTMR3	22	30416154	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	959738	30416154	20888412	270	9159										
SYN3	8224	broad.mit.edu	37	chr22	32914270	32914270	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gtggggagagcctctgttggGaggggcttccagatctctgg	18	8	2	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr22:32914270G>A	uc003amx.2	-	12	1529	c.1370C>T	c.(1369-1371)TCC>TTC	p.S457F	SYN3_uc003amy.2_Intron|SYN3_uc003amz.2_Missense_Mutation_p.S456F|SYN3_uc011amc.1_Missense_Mutation_p.S91F	NM_003490	NP_003481	O14994	SYN3_HUMAN	synapsin III isoform IIIa	457	J; Pro-rich linker.				neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1						CCTCTGTTGGGAGGGGCTTCC	0.577													70	81	---	---	---	---	PASS	A	32914270	A	A	32914270	3	1	18	1	0	0	0	0	1	0	0	0	15439	1174	41	2	380	2	SYN3	22	32914270	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	2498116	32914270	18390296	271	9160										
TRIOBP	11078	broad.mit.edu	37	chr22	38153942	38153942	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	ccccagaggtgcctgctggtGaggggccgcgccggggcctg	19	14	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr22:38153942G>A	uc003atr.2	+	16	6281	c.6010G>A	c.(6010-6012)GAG>AAG	p.E2004K	TRIOBP_uc003atu.2_Missense_Mutation_p.E1832K|TRIOBP_uc003atv.2_Missense_Mutation_p.E291K|TRIOBP_uc003atw.2_Missense_Mutation_p.E291K|TRIOBP_uc003atx.1_5'UTR|TRIOBP_uc010gxh.2_5'UTR	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	2004					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GCCTGCTGGTGAGGGGCCGCG	0.672													6	7	---	---	---	---	PASS	A	38153942	A	A	38153942	3	1	18	1	0	0	0	0	1	0	0	0	16550	1291	45	2	6251	2	TRIOBP	22	38153942	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	5239672	38153942	13150624	272	9161										
SREBF2	6721	broad.mit.edu	37	chr22	42289166	42289166	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gcctgtgtggccccgagcacAgtgctgttcctgactccctg	12	15	0	1			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr22:42289166A>T	uc003bbi.2	+	12	2423	c.2254A>T	c.(2254-2256)AGT>TGT	p.S752C	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|SREBF2_uc003bbj.2_RNA	NM_004599	NP_004590	Q12772	SRBP2_HUMAN	sterol regulatory element-binding transcription	752	Cytoplasmic (Potential).				cholesterol metabolic process	ER to Golgi transport vesicle membrane|Golgi membrane|nucleus|SREBP-SCAP-Insig complex	protein C-terminus binding			breast(2)|ovary(1)|central_nervous_system(1)	4						CCCCGAGCACAGTGCTGTTCC	0.607													6	143	---	---	---	---	PASS	T	42289166	T	T	42289166	3	4	18	1	0	0	0	0	1	0	0	0	15141	188	7	5	2300	5	SREBF2	22	42289166	Missense_Mutation	SNP	A	TCGA-18-5595-01A-01D-1632-08	4135224	42289166	9015400	273	9162										
PKDREJ	10343	broad.mit.edu	37	chr22	46654628	46654628	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tatttggcccgagggtctccGgggtcttgatttgtgctttc	13	9	2	1	rs143126011	byFrequency	TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr22:46654628G>A	uc003bhh.2	-	1	4592	c.4592C>T	c.(4591-4593)CCG>CTG	p.P1531L		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1531	Cytoplasmic (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		GAGGGTCTCCGGGGTCTTGAT	0.488													5	446	---	---	---	---	PASS	A	46654628	A	A	46654628	3	1	18	1	0	0	0	0	1	0	0	0	11970	1116	39	1	2173	1	PKDREJ	22	46654628	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	4365462	46654628	4649938	274	9163										
SBF1	6305	broad.mit.edu	37	chr22	50897936	50897936	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	tgggccttgaagaggccgacGacacctttgccatgcaggcc	13	13	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chr22:50897936G>A	uc003blh.2	-	27	3846	c.3651C>T	c.(3649-3651)GTC>GTT	p.V1217V	SBF1_uc011arx.1_Silent_p.V881V	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1217	Myotubularin phosphatase.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		AGAGGCCGACGACACCTTTGC	0.527													22	28	---	---	---	---	PASS	A	50897936	A	A	50897936	2	1	18	1	0	0	0	0	0	0	0	1	13858	1045	37	2		2	SBF1	22	50897936	Silent	SNP	G	TCGA-18-5595-01A-01D-1632-08	4243308	50897936	406630	275	9164										
AMELX	265	broad.mit.edu	37	chrX	11316382	11316382	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	acccctttgaagtggtaccaGagcataaggccaccggtatg	11	11	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chrX:11316382G>C	uc004cut.2	+	4	197	c.129G>C	c.(127-129)CAG>CAC	p.Q43H	ARHGAP6_uc004cup.1_Intron|ARHGAP6_uc004cuo.1_Intron|ARHGAP6_uc004cur.1_Intron|ARHGAP6_uc004cun.1_Intron|ARHGAP6_uc011mif.1_Intron|AMELX_uc004cus.2_Missense_Mutation_p.Q57H|AMELX_uc004cuu.2_Missense_Mutation_p.Q27H	NM_001142	NP_001133	Q99217	AMELX_HUMAN	amelogenin (X chromosome) isoform 1 precursor	43					cell adhesion|cell proliferation|chondrocyte differentiation|enamel mineralization|epithelial to mesenchymal transition|ion homeostasis|odontogenesis of dentine-containing tooth|osteoblast differentiation|positive regulation of collagen biosynthetic process|positive regulation of tooth mineralization|signal transduction	proteinaceous extracellular matrix	cell surface binding|growth factor activity|hydroxyapatite binding|identical protein binding|structural constituent of tooth enamel				0						AGTGGTACCAGAGCATAAGGC	0.348													159	26	---	---	---	---	PASS	C	11316382	C	C	11316382	3	2	18	1	0	0	0	0	1	0	0	0	569	933	33	2	185	2	AMELX	23	11316382	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08		11316382	143954178	276	9165										
MAP7D2	256714	broad.mit.edu	37	chrX	20030525	20030525	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	caggctatttgatttcccatCaagggcatccagatgaatga	9	9	1	4			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chrX:20030525C>T	uc004czr.1	-	14	1910	c.1891G>A	c.(1891-1893)GAT>AAT	p.D631N	MAP7D2_uc004czq.1_Missense_Mutation_p.D516N|MAP7D2_uc011mji.1_Missense_Mutation_p.D579N|MAP7D2_uc010nfo.1_Missense_Mutation_p.D672N|MAP7D2_uc011mjj.1_Missense_Mutation_p.D586N	NM_152780	NP_689993	Q96T17	MA7D2_HUMAN	MAP7 domain containing 2	631										ovary(2)|breast(1)	3						GATTTCCCATCAAGGGCATCC	0.433													123	18	---	---	---	---	PASS	T	20030525	T	T	20030525	3	4	18	1	0	0	0	0	1	0	0	0	9268	826	29	2	315	2	MAP7D2	23	20030525	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	8714143	20030525	135240035	277	9166										
MAGT1	84061	broad.mit.edu	37	chrX	77112282	77112282	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	agagaaattccatattacttCttcgaagatacacaagtcca	5	9	1	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chrX:77112282C>G	uc004fof.2	-	5	778	c.716G>C	c.(715-717)AGA>ACA	p.R239T	MAGT1_uc004fog.3_Intron	NM_032121	NP_115497	Q9H0U3	MAGT1_HUMAN	magnesium transporter 1	207					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				upper_aerodigestive_tract(1)	1						CATATTACTTCTTCGAAGATA	0.353													74	16	---	---	---	---	PASS	G	77112282	G	G	77112282	3	3	18	1	0	0	0	0	1	0	0	0	9196	913	32	2	411	2	MAGT1	23	77112282	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	57081757	77112282	78158278	278	9167										
CXorf48	54967	broad.mit.edu	37	chrX	134303630	134303630	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	catcactactgaagtagatcGactcatcaatcatgccataa	5	11	4	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chrX:134303630G>A	uc004eyk.1	-	2	823	c.167C>T	c.(166-168)TCG>TTG	p.S56L	CXorf48_uc004eyl.1_Missense_Mutation_p.S56L	NM_001031705	NP_001026875	Q8WUE5	CX048_HUMAN	hypothetical protein LOC54967 isoform 1	56											0	Acute lymphoblastic leukemia(192;0.000127)					GAAGTAGATCGACTCATCAAT	0.408													20	5	---	---	---	---	PASS	A	134303630	A	A	134303630	3	1	18	1	0	0	0	0	1	0	0	0	4111	1059	37	2	651	2	CXorf48	23	134303630	Missense_Mutation	SNP	G	TCGA-18-5595-01A-01D-1632-08	57191348	134303630	20966930	279	9168										
MAGEA12	4111	broad.mit.edu	37	chrX	151900253	151900253	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.394052044609665	106	1.17796293543603e-34	3.73911396719987	5.58967690307092	3.30694657499046	1.18826133840219e-09	7.01074189657292e-08	78	gcaggccatcgtaggagaggCccaggcaggtgacaaggatg	17	9	0	2			TCGA-18-5595-01A-01D-1632-08	TCGA-18-5595-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	973b8ed8-2295-4fb0-b857-f4433dfc785a	f39ed42b-4da7-4412-b75d-37c859470931	g.chrX:151900253C>A	uc010ntp.2	-	3	902	c.548G>T	c.(547-549)GGC>GTC	p.G183V	MAGEA12_uc004fgb.2_Intron|MAGEA12_uc004fgc.2_Missense_Mutation_p.G183V|CSAG1_uc004fge.2_5'Flank|CSAG1_uc004fgf.2_5'Flank|CSAG1_uc004fgd.2_5'Flank	NM_005367	NP_005358	P43365	MAGAC_HUMAN	melanoma antigen family A, 12	183	MAGE.									skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					GTAGGAGAGGCCCAGGCAGGT	0.572													12	248	---	---	---	---	PASS	A	151900253	A	A	151900253	3	1	18	1	0	0	0	0	1	0	0	0	9166	739	26	3	400	3	MAGEA12	23	151900253	Missense_Mutation	SNP	C	TCGA-18-5595-01A-01D-1632-08	17596623	151900253	3370307	280	9169										
AADACL4	343066	broad.mit.edu	37	chr1	12726619	12726619	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttggaggaccagggggtccGcgtgacatggtaccacctgt	15	11	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:12726619G>C	uc001auf.2	+	4	1097	c.1097G>C	c.(1096-1098)CGC>CCC	p.R366P		NM_001013630	NP_001013652	Q5VUY2	ADCL4_HUMAN	arylacetamide deacetylase-like 4	366	Lumenal (Potential).					integral to membrane	carboxylesterase activity				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000937)|all_lung(284;0.00122)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.81e-07)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0384)		CAGGGGGTCCGCGTGACATGG	0.488													17	268	---	---	---	---	PASS	C	12726619	C	C	12726619	3	2	19	1	0	0	0	0	1	0	0	0	13	1087	38	4	1111	4	AADACL4	1	12726619	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08		12726619	236524002	1	9170										
CD164L2	388611	broad.mit.edu	37	chr1	27709155	27709155	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cccaaagcctcgagctccttTacctggtagtgcggtggagt	12	12	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:27709155T>A	uc001boc.2	-	2	167	c.91A>T	c.(91-93)AAA>TAA	p.K31*		NM_207397	NP_997280	Q6UWJ8	C16L2_HUMAN	CD164 sialomucin-like 2	31	Extracellular (Potential).					integral to membrane					0		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-26)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00128)|KIRC - Kidney renal clear cell carcinoma(1967;0.00155)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		CGAGCTCCTTTACCTGGTAGT	0.642													22	31	---	---	---	---	PASS	A	27709155	A	A	27709155	4	1	19	1	0	0	0	0	0	1	0	0	2970	1763	61	5	446	5	CD164L2	1	27709155	Nonsense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	14982536	27709155	221541466	2	9171										
KHDRBS1	10657	broad.mit.edu	37	chr1	32504202	32504202	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttacgaaggctacgaaggctAttacagccagagtcaagggt	12	8	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:32504202A>G	uc001bub.2	+	7	1263	c.1157A>G	c.(1156-1158)TAT>TGT	p.Y386C	KHDRBS1_uc001bua.1_Missense_Mutation_p.Y347C|KHDRBS1_uc001buc.1_RNA	NM_006559	NP_006550	Q07666	KHDR1_HUMAN	KH domain containing, RNA binding, signal	386					cell cycle arrest|cell proliferation|cell surface receptor linked signaling pathway|G2/M transition of mitotic cell cycle|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of RNA export from nucleus|transcription, DNA-dependent	membrane|nucleus	DNA binding|RNA binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				TACGAAGGCTATTACAGCCAG	0.403													9	81	---	---	---	---	PASS	G	32504202	G	G	32504202	3	3	19	1	0	0	0	0	1	0	0	0	8146	449	16	5	1183	5	KHDRBS1	1	32504202	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	4795047	32504202	216746419	3	9172										
CSMD2	114784	broad.mit.edu	37	chr1	33987099	33987099	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaactgcccaaagccttggcCcttgacagagccttggtaga	11	12	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:33987099C>A	uc001bxn.1	-	67	10158	c.10129G>T	c.(10129-10131)GGC>TGC	p.G3377C	CSMD2_uc001bxm.1_Missense_Mutation_p.G3521C	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3377	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AAGCCTTGGCCCTTGACAGAG	0.602													19	67	---	---	---	---	PASS	A	33987099	A	A	33987099	3	1	19	1	0	0	0	0	1	0	0	0	3945	623	22	3	346	3	CSMD2	1	33987099	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1482897	33987099	215263522	4	9173										
CSMD2	114784	broad.mit.edu	37	chr1	34038220	34038220	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	actgcagctgtacatggcctTggttcccactgtgtactcct	9	13	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:34038220T>A	uc001bxn.1	-	51	7683	c.7654A>T	c.(7654-7656)AAG>TAG	p.K2552*	CSMD2_uc001bxm.1_Nonsense_Mutation_p.K2550*	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2552	Extracellular (Potential).|Sushi 15.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TACATGGCCTTGGTTCCCACT	0.552													63	107	---	---	---	---	PASS	A	34038220	A	A	34038220	4	1	19	1	0	0	0	0	0	1	0	0	3945	1821	63	5	2885	5	CSMD2	1	34038220	Nonsense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	51121	34038220	215212401	5	9174										
CSMD2	114784	broad.mit.edu	37	chr1	34254260	34254260	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	catcagtctggaagaggagcCacatttgatgattggtgctg	13	7	2	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:34254260C>A	uc001bxn.1	-	12	1513	c.1484G>T	c.(1483-1485)TGG>TTG	p.W495L	CSMD2_uc001bxm.1_Missense_Mutation_p.W535L	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	495	CUB 3.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GAAGAGGAGCCACATTTGATG	0.517													6	86	---	---	---	---	PASS	A	34254260	A	A	34254260	3	1	19	1	0	0	0	0	1	0	0	0	3945	595	21	3	9211	3	CSMD2	1	34254260	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	216040	34254260	214996361	6	9175										
C1orf94	84970	broad.mit.edu	37	chr1	34666588	34666588	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccaagaacccaagcgggcagCcgagacttcgaaacaaagtg	11	12	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:34666588C>A	uc001bxs.3	+	3	1054	c.655C>A	c.(655-657)CCG>ACG	p.P219T	C1orf94_uc001bxt.2_Missense_Mutation_p.P409T	NM_032884	NP_116273	Q6P1W5	CA094_HUMAN	hypothetical protein LOC84970 isoform b	219							protein binding				0		Myeloproliferative disorder(586;0.0393)				AAGCGGGCAGCCGAGACTTCG	0.582													25	10	---	---	---	---	PASS	A	34666588	A	A	34666588	3	1	19	1	0	0	0	0	1	0	0	0	2071	739	26	3	1235	3	C1orf94	1	34666588	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	412328	34666588	214584033	7	9176										
GRIK3	2899	broad.mit.edu	37	chr1	37271862	37271862	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atgccctcctcgttgttcttCaccagcgccgatggcttgct	9	15	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:37271862C>G	uc001caz.2	-	14	2292	c.2157G>C	c.(2155-2157)GTG>GTC	p.V719V	GRIK3_uc001cba.1_Silent_p.V719V	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	719	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	CGTTGTTCTTCACCAGCGCCG	0.597													5	139	---	---	---	---	PASS	G	37271862	G	G	37271862	2	3	19	1	0	0	0	0	0	0	0	1	6775	813	29	2		2	GRIK3	1	37271862	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	2605274	37271862	211978759	8	9177										
ZNF642	339559	broad.mit.edu	37	chr1	40947448	40947448	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tccccagctctgctgtctcaGgatgctgaggacgtaaagac	11	12	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:40947448G>C	uc001cfo.2	+	3	435	c.141G>C	c.(139-141)CAG>CAC	p.Q47H	ZNF642_uc009vwb.2_Missense_Mutation_p.Q47H|ZNF642_uc010ojk.1_Missense_Mutation_p.Q47H	NM_198494	NP_940896	Q49AA0	ZN642_HUMAN	zinc finger protein 642	47					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.81e-19)			TGCTGTCTCAGGATGCTGAGG	0.502													12	190	---	---	---	---	PASS	C	40947448	C	C	40947448	3	2	19	1	0	0	0	0	1	0	0	0	18055	991	35	4	147	4	ZNF642	1	40947448	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3675586	40947448	208303173	9	9178										
DPH2	1802	broad.mit.edu	37	chr1	44435983	44435983	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctggatttgtccgcgacctgGggtgtgaacgagtgaggaca	16	8	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:44435983G>T	uc001ckz.2	+	1	331	c.136G>T	c.(136-138)GGG>TGG	p.G46W	DPH2_uc001cla.2_Missense_Mutation_p.G46W|DPH2_uc010okk.1_5'UTR|DPH2_uc001clb.2_Intron	NM_001384	NP_001375	Q9BQC3	DPH2_HUMAN	diphthamide biosynthesis protein 2 isoform a	46					peptidyl-diphthamide biosynthetic process from peptidyl-histidine	cytoplasm				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				CCGCGACCTGGGGTGTGAACG	0.627													43	91	---	---	---	---	PASS	T	44435983	T	T	44435983	3	4	19	1	0	0	0	0	1	0	0	0	4720	1232	43	3	138	3	DPH2	1	44435983	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3488535	44435983	204814638	10	9179										
EPS15	2060	broad.mit.edu	37	chr1	51829589	51829589	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tccgatctttggtggcagtgCtgggggttcatcttcacttt	12	9	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:51829589C>A	uc001csq.1	-	23	2400	c.2308G>T	c.(2308-2310)GCA>TCA	p.A770S	EPS15_uc009vyz.1_Missense_Mutation_p.A636S|EPS15_uc001csp.3_Missense_Mutation_p.A456S	NM_001981	NP_001972	P42566	EPS15_HUMAN	epidermal growth factor receptor pathway	770	15 X 3 AA repeats of D-P-F.|Pro-rich.|SH3-binding.				cell proliferation|clathrin coat assembly|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|protein transport	cytosol|early endosome membrane	calcium ion binding|SH3 domain binding			lung(1)|kidney(1)	2						GGTGGCAGTGCTGGGGGTTCA	0.453			T	MLL	ALL								12	120	---	---	---	---	PASS	A	51829589	A	A	51829589	3	1	19	1	0	0	0	0	1	0	0	0	5192	797	28	3	394	3	EPS15	1	51829589	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	7393606	51829589	197421032	11	9180										
SLC1A7	6512	broad.mit.edu	37	chr1	53569103	53569103	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttgtaaacgacctcgggcggCggggtcaggtccagggcgaa	17	10	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:53569103C>A	uc001cuy.2	-	5	780	c.612G>T	c.(610-612)CCG>CCT	p.P204P		NM_006671	NP_006662	O00341	EAA5_HUMAN	solute carrier family 1 (glutamate transporter),	204	Extracellular (Potential).					integral to membrane|plasma membrane	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|large_intestine(1)	3				Colorectal(1306;0.234)	L-Glutamic Acid(DB00142)	CCTCGGGCGGCGGGGTCAGGT	0.627													8	12	---	---	---	---	PASS	A	53569103	A	A	53569103	2	1	19	1	0	0	0	0	0	0	0	1	14437	755	27	1		1	SLC1A7	1	53569103	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	1739514	53569103	195681518	12	9181										
C1orf83	127428	broad.mit.edu	37	chr1	54562010	54562010	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggaaacgtttcatctctgctCccgcctcattaatgggccgt	9	13	3	0	rs41294786	byFrequency	TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:54562010C>G	uc001cwt.1	+	5	691	c.491C>G	c.(490-492)TCC>TGC	p.S164C	C1orf83_uc001cwu.1_RNA	NM_153035	NP_694580	Q96MN5	TEAN2_HUMAN	hypothetical protein LOC127428	164	TFIIS central.				transcription, DNA-dependent	nucleus	DNA binding				0						CATCTCTGCTCCCGCCTCATT	0.488													9	178	---	---	---	---	PASS	G	54562010	G	G	54562010	3	3	19	1	0	0	0	0	1	0	0	0	2060	855	30	2	505	2	C1orf83	1	54562010	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	992907	54562010	194688611	13	9182										
ANGPTL3	27329	broad.mit.edu	37	chr1	63064458	63064458	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aaaccaacagcatagtcaaaTaaaagaaatagaaaatcagg	6	6	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:63064458T>A	uc001das.1	+	2	638	c.587T>A	c.(586-588)ATA>AAA	p.I196K	DOCK7_uc001dan.2_Intron|DOCK7_uc001dao.2_Intron|DOCK7_uc001dap.2_Intron|DOCK7_uc001daq.2_Intron|DOCK7_uc009wah.1_Intron	NM_014495	NP_055310	Q9Y5C1	ANGL3_HUMAN	angiopoietin-like 3 precursor	196	Potential.				acylglycerol homeostasis|artery morphogenesis|cell-matrix adhesion|cholesterol homeostasis|cholesterol metabolic process|fatty acid metabolic process|glycerol metabolic process|integrin-mediated signaling pathway|lipid storage|negative regulation of lipoprotein lipase activity|negative regulation of phospholipase activity|phospholipid catabolic process|phospholipid homeostasis|positive regulation of angiogenesis|positive regulation of cell migration|positive regulation of lipid catabolic process|triglyceride homeostasis	extracellular space	cell surface binding|growth factor activity|integrin binding|phospholipase inhibitor activity				0						CATAGTCAAATAAAAGAAATA	0.318													9	81	---	---	---	---	PASS	A	63064458	A	A	63064458	3	1	19	1	0	0	0	0	1	0	0	0	615	1406	49	5	593	5	ANGPTL3	1	63064458	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	8502448	63064458	186186163	14	9183										
SLC44A5	204962	broad.mit.edu	37	chr1	75693523	75693523	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcctgaagattggtgtactgCtggtaacagtgccatattcc	10	9	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:75693523C>G	uc001dgu.2	-	13	1017	c.873G>C	c.(871-873)CAG>CAC	p.Q291H	SLC44A5_uc001dgt.2_Missense_Mutation_p.Q291H|SLC44A5_uc001dgs.2_Missense_Mutation_p.Q249H|SLC44A5_uc001dgr.2_Missense_Mutation_p.Q249H|SLC44A5_uc010oqz.1_Missense_Mutation_p.Q330H|SLC44A5_uc010ora.1_Missense_Mutation_p.Q285H|SLC44A5_uc010orb.1_Missense_Mutation_p.Q161H	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	291	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						TGGTGTACTGCTGGTAACAGT	0.338													26	55	---	---	---	---	PASS	G	75693523	G	G	75693523	3	3	19	1	0	0	0	0	1	0	0	0	14639	796	28	4	1445	4	SLC44A5	1	75693523	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	12629065	75693523	173557098	15	9184										
AK5	26289	broad.mit.edu	37	chr1	77759531	77759531	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggtatgaccggctccctccaAtccatcaattctccatagaa	6	14	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:77759531A>G	uc001dhn.2	+	3	558	c.301A>G	c.(301-303)ATC>GTC	p.I101V	AK5_uc001dho.2_Missense_Mutation_p.I75V|AK5_uc001dhm.1_Intron	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	101					ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						GCTCCCTCCAATCCATCAATT	0.408													3	74	---	---	---	---	PASS	G	77759531	G	G	77759531	3	3	19	1	0	0	0	0	1	0	0	0	443	101	4	5	311	5	AK5	1	77759531	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	2066008	77759531	171491090	16	9185										
GNG5	2787	broad.mit.edu	37	chr1	84967627	84967627	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcattctgcagacagaactgTttcaagtctgcagctgcctg	10	11	3	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:84967627T>A	uc001djw.3	-	3	462	c.108A>T	c.(106-108)AAA>AAT	p.K36N		NM_005274	NP_005265	P63218	GBG5_HUMAN	guanine nucleotide binding protein (G protein),	36					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	GTPase activity|signal transducer activity				0				all cancers(265;0.00634)|Epithelial(280;0.0175)|OV - Ovarian serous cystadenocarcinoma(397;0.159)		GACAGAACTGTTTCAAGTCTG	0.438													12	50	---	---	---	---	PASS	A	84967627	A	A	84967627	3	1	19	1	0	0	0	0	1	0	0	0	6530	1722	60	5	102	5	GNG5	1	84967627	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	7208096	84967627	164282994	17	9186										
COL24A1	255631	broad.mit.edu	37	chr1	86523622	86523622	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atgcctacttacttgtgcacCtttaggacctggattacctt	7	11	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:86523622C>T	uc001dlj.2	-	10	1885	c.1843G>A	c.(1843-1845)GGT>AGT	p.G615S	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.G615S	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	615					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)		ACTTGTGCACCTTTAGGACCT	0.338													15	66	---	---	---	---	PASS	T	86523622	T	T	86523622	3	4	19	1	0	0	0	0	1	0	0	0	3683	681	24	3	3505	3	COL24A1	1	86523622	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1555995	86523622	162726999	18	9187										
COL24A1	255631	broad.mit.edu	37	chr1	86529415	86529415	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tacttgttcacctggaagtcCtgggagtccaggatgtcctt	11	10	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:86529415C>T	uc001dlj.2	-	8	1777	c.1735G>A	c.(1735-1737)GGA>AGA	p.G579R	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.G579R	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	579	Collagen-like 2.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		CCTGGAAGTCCTGGGAGTCCA	0.388													11	193	---	---	---	---	PASS	T	86529415	T	T	86529415	3	4	19	1	0	0	0	0	1	0	0	0	3683	690	24	3	3621	3	COL24A1	1	86529415	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	5793	86529415	162721206	19	9188										
STXBP3	6814	broad.mit.edu	37	chr1	109319046	109319046	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atgaaaagagcctaataaagGtaatgtatgcaaggcaagta	10	4	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:109319046G>C	uc001dvy.2	+	8	759	c.684_splice	c.e8+1	p.K228_splice	STXBP3_uc001dvz.2_Splice_Site	NM_007269	NP_009200	O00186	STXB3_HUMAN	syntaxin binding protein 3						negative regulation of calcium ion-dependent exocytosis|neutrophil degranulation|platelet aggregation|protein transport|vesicle docking involved in exocytosis	cytosol|nucleus|platelet alpha granule|specific granule|tertiary granule	syntaxin-2 binding			ovary(3)|central_nervous_system(1)	4		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0386)|Lung(183;0.104)|COAD - Colon adenocarcinoma(174;0.137)|Epithelial(280;0.231)		CCTAATAAAGGTAATGTATGC	0.338													6	29	---	---	---	---	PASS	C	109319046	C	C	109319046	5	2	19	1	0	0	0	0	0	0	1	0	15353	1275	44	4	715	4	STXBP3	1	109319046	Splice_Site	SNP	G	TCGA-21-1070-01A-01D-1521-08	22789631	109319046	139931575	20	9189										
OVGP1	5016	broad.mit.edu	37	chr1	111966324	111966324	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcaaatgtggacaacatagtGgtgaatctgtagggagacca	13	6	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:111966324G>T	uc001eba.2	-	5	380	c.324C>A	c.(322-324)ACC>ACA	p.T108T	OVGP1_uc001eaz.2_Silent_p.T70T|OVGP1_uc010owb.1_5'UTR|OVGP1_uc010owc.1_Silent_p.T98T	NM_002557	NP_002548	Q12889	OVGP1_HUMAN	oviductal glycoprotein 1 precursor	108					chitin catabolic process|female pregnancy|single fertilization	transport vesicle	cation binding|chitinase activity			ovary(4)|large_intestine(1)	5		all_cancers(81;8.18e-06)|all_epithelial(167;5.64e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000302)		Lung(183;0.0253)|Colorectal(144;0.033)|all cancers(265;0.0552)|Epithelial(280;0.0802)|COAD - Colon adenocarcinoma(174;0.123)|LUSC - Lung squamous cell carcinoma(189;0.14)		ACAACATAGTGGTGAATCTGT	0.463													9	91	---	---	---	---	PASS	T	111966324	T	T	111966324	2	4	19	1	0	0	0	0	0	0	0	1	11325	1335	47	3		3	OVGP1	1	111966324	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	2647278	111966324	137284297	21	9190										
ANKRD35	148741	broad.mit.edu	37	chr1	145563028	145563028	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gggggcgctccgagcagtttGagaaaacggcagagctgctg	17	9	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:145563028G>C	uc001eob.1	+	10	2824	c.2716G>C	c.(2716-2718)GAG>CAG	p.E906Q	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Missense_Mutation_p.E749Q	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	906	Potential.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CGAGCAGTTTGAGAAAACGGC	0.657													19	62	---	---	---	---	PASS	C	145563028	C	C	145563028	3	2	19	1	0	0	0	0	1	0	0	0	664	1291	45	2	2754	2	ANKRD35	1	145563028	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	33596704	145563028	103687593	22	9191										
SETDB1	9869	broad.mit.edu	37	chr1	150936113	150936113	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggcctctgtggacaaggggGagagcgcacctgttcgtaag	16	9	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:150936113G>C	uc001evu.2	+	20	3755	c.3565G>C	c.(3565-3567)GAG>CAG	p.E1189Q	SETDB1_uc001evv.2_Missense_Mutation_p.E1189Q|SETDB1_uc009wmg.1_Missense_Mutation_p.E1189Q	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	1189	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			GGACAAGGGGGAGAGCGCACC	0.498													44	436	---	---	---	---	PASS	C	150936113	C	C	150936113	3	2	19	1	0	0	0	0	1	0	0	0	14138	1175	41	2	3639	2	SETDB1	1	150936113	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	5373085	150936113	98314508	23	9192										
LASS2	29956	broad.mit.edu	37	chr1	150940899	150940899	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gctgcttgccactggtcaggTagaaatgttccaaggtggcg	14	9	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:150940899T>C	uc001evy.2	-	3	650	c.263A>G	c.(262-264)TAC>TGC	p.Y88C	LASS2_uc001evz.2_Missense_Mutation_p.Y88C|LASS2_uc009wmh.2_5'UTR	NM_181746	NP_859530	Q96G23	CERS2_HUMAN	LAG1 longevity assurance 2	88	Cytoplasmic (Potential).|Homeobox.					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity				0	all_lung(15;8.07e-35)|Lung NSC(24;7.93e-31)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			ACTGGTCAGGTAGAAATGTTC	0.567													19	59	---	---	---	---	PASS	C	150940899	C	C	150940899	3	2	19	1	0	0	0	0	1	0	0	0	8639	1638	57	5	915	5	LASS2	1	150940899	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	4786	150940899	98309722	24	9193										
RPTN	126638	broad.mit.edu	37	chr1	152127228	152127228	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agtttgcctgtctcatctctGatggttctgctcgtcttcat	8	11	5	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:152127228G>T	uc001ezs.1	-	3	2412	c.2347C>A	c.(2347-2349)CAG>AAG	p.Q783K		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	783	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						TCTCATCTCTGATGGTTCTGC	0.458													200	703	---	---	---	---	PASS	T	152127228	T	T	152127228	3	4	19	1	0	0	0	0	1	0	0	0	13664	1299	45	2	11	2	RPTN	1	152127228	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1186329	152127228	97123393	25	9194										
HRNR	388697	broad.mit.edu	37	chr1	152192255	152192255	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cacagctcgatgactgtcctGatgtagaaccatgttgccca	9	12	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:152192255G>A	uc001ezt.1	-	3	1926	c.1850C>T	c.(1849-1851)TCA>TTA	p.S617L		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	617	6.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGACTGTCCTGATGTAGAACC	0.552													157	448	---	---	---	---	PASS	A	152192255	A	A	152192255	3	1	19	1	0	0	0	0	1	0	0	0	7359	1294	45	2	6706	2	HRNR	1	152192255	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	65027	152192255	97058366	26	9195										
FLG2	388698	broad.mit.edu	37	chr1	152328470	152328470	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agaggattgtcctgagccagAcccatgttgtccaaagccag	11	11	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:152328470A>T	uc001ezw.3	-	3	1865	c.1792T>A	c.(1792-1794)TCT>ACT	p.S598T	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	598	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGAGCCAGACCCATGTTGT	0.512													159	489	---	---	---	---	PASS	T	152328470	T	T	152328470	3	4	19	1	0	0	0	0	1	0	0	0	5923	275	10	5	5387	5	FLG2	1	152328470	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	136215	152328470	96922151	27	9196										
ATP8B2	57198	broad.mit.edu	37	chr1	154316387	154316387	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aggagtacgcaggggaagggCtgaggaccctggtgctggcc	19	9	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:154316387C>T	uc001fex.2	+	18	1876	c.1876C>T	c.(1876-1878)CTG>TTG	p.L626L		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	612	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGGGGAAGGGCTGAGGACCCT	0.463													30	89	---	---	---	---	PASS	T	154316387	T	T	154316387	2	4	19	1	0	0	0	0	0	0	0	1	1195	796	28	3		3	ATP8B2	1	154316387	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	1987917	154316387	94934234	28	9197										
RHBG	57127	broad.mit.edu	37	chr1	156352620	156352620	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	caccagctcttcgggctgttTgtcacactgatgtttgcctc	9	13	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:156352620T>C	uc010pho.1	+	8	1232	c.1194T>C	c.(1192-1194)TTT>TTC	p.F398F	RHBG_uc010phm.1_3'UTR|RHBG_uc010phn.1_RNA|RHBG_uc001fos.2_Silent_p.F329F|RHBG_uc009wrz.2_Silent_p.F366F|RHBG_uc001for.2_Silent_p.F368F	NM_020407	NP_065140	Q9H310	RHBG_HUMAN	Rhesus blood group, B glycoprotein	398	Helical; (Potential).				transepithelial ammonium transport	anchored to plasma membrane|basolateral plasma membrane|cytoplasmic vesicle membrane|integral to plasma membrane|spectrin-associated cytoskeleton	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			ovary(2)	2	Hepatocellular(266;0.158)					TCGGGCTGTTTGTCACACTGA	0.562											OREG0013870	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	48	171	---	---	---	---	PASS	C	156352620	C	C	156352620	2	2	19	1	0	0	0	0	0	0	0	1	13324	1809	63	5		5	RHBG	1	156352620	Silent	SNP	T	TCGA-21-1070-01A-01D-1521-08	2036233	156352620	92898001	29	9198										
OR10K2	391107	broad.mit.edu	37	chr1	158389791	158389791	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctttatttctcaagctataaAtcattgggttgaacaatgga	7	6	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:158389791A>G	uc010pii.1	-	1	866	c.866T>C	c.(865-867)ATT>ACT	p.I289T		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	289	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					CAAGCTATAAATCATTGGGTT	0.323													38	128	---	---	---	---	PASS	G	158389791	G	G	158389791	3	3	19	1	0	0	0	0	1	0	0	0	10914	101	4	5	74	5	OR10K2	1	158389791	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	2037171	158389791	90860830	30	9199										
OR6Y1	391112	broad.mit.edu	37	chr1	158517456	158517456	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agcatcctccagccagtgtgCcacagagctggttggtcatg	12	12	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:158517456C>G	uc010pil.1	-	1	440	c.440G>C	c.(439-441)GGC>GCC	p.G147A		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	147	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AGCCAGTGTGCCACAGAGCTG	0.473													17	68	---	---	---	---	PASS	G	158517456	G	G	158517456	3	3	19	1	0	0	0	0	1	0	0	0	11213	739	26	4	539	4	OR6Y1	1	158517456	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	127665	158517456	90733165	31	9200										
SPTA1	6708	broad.mit.edu	37	chr1	158617474	158617474	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agtggcatctggatgggactCactgagccgctctgctgtct	13	11	4	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:158617474C>T	uc001fst.1	-	27	3950	c.3751G>A	c.(3751-3753)GAG>AAG	p.E1251K		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1251	Spectrin 12.				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)					GGATGGGACTCACTGAGCCGC	0.532													26	100	---	---	---	---	PASS	T	158617474	T	T	158617474	3	4	19	1	0	0	0	0	1	0	0	0	15115	835	29	2	3612	2	SPTA1	1	158617474	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	100018	158617474	90633147	32	9201										
SPTA1	6708	broad.mit.edu	37	chr1	158653176	158653176	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tataccttcgtttcttcgtgGgcagaatgacccatggtaaa	9	9	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:158653176G>T	uc001fst.1	-	3	574	c.375C>A	c.(373-375)GCC>GCA	p.A125A		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	125	Spectrin 2.			Missing (in Ref. 3; AAA60575).	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)					TTTCTTCGTGGGCAGAATGAC	0.378													75	222	---	---	---	---	PASS	T	158653176	T	T	158653176	2	4	19	1	0	0	0	0	0	0	0	1	15115	1219	43	3		3	SPTA1	1	158653176	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	35702	158653176	90597445	33	9202										
PYHIN1	149628	broad.mit.edu	37	chr1	158908901	158908901	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	accatctgaagaagagactgGaaccaaaaggagtaagatgt	11	6	1	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:158908901G>C	uc001ftb.2	+	4	688	c.443G>C	c.(442-444)GGA>GCA	p.G148A	PYHIN1_uc001fta.3_Missense_Mutation_p.G148A|PYHIN1_uc001ftc.2_Missense_Mutation_p.G139A|PYHIN1_uc001ftd.2_Missense_Mutation_p.G148A|PYHIN1_uc001fte.2_Missense_Mutation_p.G139A	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	148					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					GAAGAGACTGGAACCAAAAGG	0.453													35	81	---	---	---	---	PASS	C	158908901	C	C	158908901	3	2	19	1	0	0	0	0	1	0	0	0	12865	1174	41	2	453	2	PYHIN1	1	158908901	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	255725	158908901	90341720	34	9203										
OR10J3	441911	broad.mit.edu	37	chr1	159283906	159283906	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagcttcagcaggtgtctcaCatcacagaagaagtgggaga	12	9	3	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:159283906C>A	uc010piu.1	-	1	544	c.544G>T	c.(544-546)GTG>TTG	p.V182L		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					AGGTGTCTCACATCACAGAAG	0.498													23	98	---	---	---	---	PASS	A	159283906	A	A	159283906	3	1	19	1	0	0	0	0	1	0	0	0	10911	478	17	3	447	3	OR10J3	1	159283906	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	375005	159283906	89966715	35	9204										
LY9	4063	broad.mit.edu	37	chr1	160769666	160769666	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaacgtcatctggattggtcCcaaaaatgctcttgctttcg	9	10	3	0	rs147015580	byFrequency	TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:160769666C>A	uc001fwu.2	+	2	298	c.248C>A	c.(247-249)CCC>CAC	p.P83H	LY9_uc001fwt.2_Missense_Mutation_p.P83H|LY9_uc010pjs.1_Missense_Mutation_p.P83H|LY9_uc001fwv.2_Missense_Mutation_p.P83H|LY9_uc001fww.2_Missense_Mutation_p.P83H|LY9_uc001fwx.2_Missense_Mutation_p.P83H|LY9_uc001fwy.1_5'UTR	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	83	Extracellular (Potential).|Ig-like V-type 1.				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			TGGATTGGTCCCAAAAATGCT	0.498													28	144	---	---	---	---	PASS	A	160769666	A	A	160769666	3	1	19	1	0	0	0	0	1	0	0	0	9101	623	22	3	254	3	LY9	1	160769666	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1485760	160769666	88480955	36	9205										
RXRG	6258	broad.mit.edu	37	chr1	165380292	165380292	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttcatgaccactggtagcaCattctgcctcactctcagct	6	15	4	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:165380292C>T	uc001gda.2	-	5	977	c.677G>A	c.(676-678)TGT>TAT	p.C226Y		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	226	Hinge.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	ACTGGTAGCACATTCTGCCTC	0.493													27	112	---	---	---	---	PASS	T	165380292	T	T	165380292	3	4	19	1	0	0	0	0	1	0	0	0	13765	478	17	3	738	3	RXRG	1	165380292	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4610626	165380292	83870329	37	9206										
DUSP27	92235	broad.mit.edu	37	chr1	167097814	167097814	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acgccggcaagaagaaaccaGgaccaagctgcagaaaagga	12	10	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:167097814G>T	uc001geb.1	+	5	3446	c.3446G>T	c.(3445-3447)AGG>ATG	p.R1149M		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	1149					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						GAAGAAACCAGGACCAAGCTG	0.542													17	52	---	---	---	---	PASS	T	167097814	T	T	167097814	3	4	19	1	0	0	0	0	1	0	0	0	4824	1000	35	3	3464	3	DUSP27	1	167097814	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1717522	167097814	82152807	38	9207										
C1orf129	80133	broad.mit.edu	37	chr1	170959017	170959017	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgtctaagatcgtggatgctAtttacaggcaactgtgtgat	11	6	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:170959017A>C	uc001ghg.2	+	11	1031	c.901A>C	c.(901-903)ATT>CTT	p.I301L	C1orf129_uc009wvy.2_Missense_Mutation_p.I108L|C1orf129_uc010plz.1_Missense_Mutation_p.I301L	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	301							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CGTGGATGCTATTTACAGGCA	0.403													56	231	---	---	---	---	PASS	C	170959017	C	C	170959017	3	2	19	1	0	0	0	0	1	0	0	0	1996	449	16	5	939	5	C1orf129	1	170959017	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	3861203	170959017	78291604	39	9208										
SERPINC1	462	broad.mit.edu	37	chr1	173883815	173883815	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggaatctgccaggtgctgaTagaaagtggtagcaaagcgg	15	6	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:173883815T>C	uc001gjt.2	-	2	403	c.284A>G	c.(283-285)TAT>TGT	p.Y95C		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	95			Y -> S (in AT3D; type-I).|Y -> C (in AT3D; type-I).		blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	CAGGTGCTGATAGAAAGTGGT	0.517											OREG0013990	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	94	271	---	---	---	---	PASS	C	173883815	C	C	173883815	3	2	19	1	0	0	0	0	1	0	0	0	14109	1406	49	5	1134	5	SERPINC1	1	173883815	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	2924798	173883815	75366806	40	9209										
TNN	63923	broad.mit.edu	37	chr1	175092565	175092565	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gccccaaaaacctagtgactGactgggtgacggagaatatg	12	9	0	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:175092565G>A	uc001gkl.1	+	12	2793	c.2680G>A	c.(2680-2682)GAC>AAC	p.D894N		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	894	Fibronectin type-III 8.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		CCTAGTGACTGACTGGGTGAC	0.483													28	103	---	---	---	---	PASS	A	175092565	A	A	175092565	3	1	19	1	0	0	0	0	1	0	0	0	16320	1290	45	2	2722	2	TNN	1	175092565	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1208750	175092565	74158056	41	9210										
TNR	7143	broad.mit.edu	37	chr1	175335049	175335049	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggactccaagctctgctgcCgacccctctcagcagtgacg	10	16	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:175335049C>G	uc001gkp.1	-	9	2360	c.2279G>C	c.(2278-2280)CGG>CCG	p.R760P	TNR_uc009wwu.1_Missense_Mutation_p.R760P	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	760	Fibronectin type-III 5.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GCTCTGCTGCCGACCCCTCTC	0.532													54	133	---	---	---	---	PASS	G	175335049	G	G	175335049	3	3	19	1	0	0	0	0	1	0	0	0	16335	652	23	4	1849	4	TNR	1	175335049	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	242484	175335049	73915572	42	9211										
LHX4	89884	broad.mit.edu	37	chr1	180235536	180235536	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgccctgacaggcgcttcggCacaaaatgcacggcctgcca	11	15	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:180235536C>A	uc001goe.1	+	3	481	c.258C>A	c.(256-258)GGC>GGA	p.G86G		NM_033343	NP_203129	Q969G2	LHX4_HUMAN	LIM homeobox protein 4	86	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GGCGCTTCGGCACAAAATGCA	0.607													38	126	---	---	---	---	PASS	A	180235536	A	A	180235536	2	1	19	1	0	0	0	0	0	0	0	1	8773	697	25	3		3	LHX4	1	180235536	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	4900487	180235536	69015085	43	9212										
PRG4	10216	broad.mit.edu	37	chr1	186277377	186277377	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cccactacccccaagaagccTgctccaactactcctgagac	5	19	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:186277377T>A	uc001gru.3	+	7	2577	c.2526T>A	c.(2524-2526)CCT>CCA	p.P842P	PRG4_uc001grt.3_Silent_p.P801P|PRG4_uc009wyl.2_Silent_p.P749P|PRG4_uc009wym.2_Silent_p.P708P|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	842	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|58.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CCAAGAAGCCTGCTCCAACTA	0.552													107	401	---	---	---	---	PASS	A	186277377	A	A	186277377	2	1	19	1	0	0	0	0	0	0	0	1	12481	1567	55	5		5	PRG4	1	186277377	Silent	SNP	T	TCGA-21-1070-01A-01D-1521-08	6041841	186277377	62973244	44	9213										
FAM5C	339479	broad.mit.edu	37	chr1	190250753	190250753	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gataaggttttctgtgatttGctgaagggtaggtcgacgtc	14	5	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:190250753G>T	uc001gse.1	-	3	596	c.364C>A	c.(364-366)CAA>AAA	p.Q122K	FAM5C_uc010pot.1_Intron	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	122						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TCTGTGATTTGCTGAAGGGTA	0.463													39	160	---	---	---	---	PASS	T	190250753	T	T	190250753	3	4	19	1	0	0	0	0	1	0	0	0	5594	1328	46	3	1960	3	FAM5C	1	190250753	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3973376	190250753	58999868	45	9214										
FAM58B	339521	broad.mit.edu	37	chr1	200183141	200183141	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	catccacacaagtacctgctCtactacctggtttccctcaa	4	16	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:200183141C>G	uc009wzi.1	+	1	486	c.450C>G	c.(448-450)CTC>CTG	p.L150L		NM_001105517	NP_001098987	P0C7Q3	FA58B_HUMAN	family with sequence similarity 58 member B	150					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	Prostate(682;0.19)					AGTACCTGCTCTACTACCTGG	0.612													43	101	---	---	---	---	PASS	G	200183141	G	G	200183141	2	3	19	1	0	0	0	0	0	0	0	1	5591	900	32	2		2	FAM58B	1	200183141	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	9932388	200183141	49067480	46	9215										
IPO9	55705	broad.mit.edu	37	chr1	201839870	201839870	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcactgcggcctttgtgggcCgccttgtttccaccctcatc	9	16	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:201839870C>T	uc001gwz.2	+	18	2343	c.2293C>T	c.(2293-2295)CGC>TGC	p.R765C		NM_018085	NP_060555	Q96P70	IPO9_HUMAN	importin 9	765					protein import into nucleus	cytoplasm|nucleus	histone binding|protein transporter activity			ovary(2)	2						CTTTGTGGGCCGCCTTGTTTC	0.582													39	137	---	---	---	---	PASS	T	201839870	T	T	201839870	3	4	19	1	0	0	0	0	1	0	0	0	7799	652	23	1	2363	1	IPO9	1	201839870	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1656729	201839870	47410751	47	9216										
KLHL12	59349	broad.mit.edu	37	chr1	202888999	202888999	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccatggtagaggcagtcaaaCcttggatgtcaacataaggt	11	8	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:202888999C>G	uc001gyo.1	-	3	433	c.233G>C	c.(232-234)GGT>GCT	p.G78A	KLHL12_uc001gyn.1_5'Flank|KLHL12_uc010pqc.1_Missense_Mutation_p.G116A|KLHL12_uc009xah.1_Missense_Mutation_p.G78A	NM_021633	NP_067646	Q53G59	KLH12_HUMAN	kelch-like 12	78	BTB.				Wnt receptor signaling pathway		protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)			GGCAGTCAAACCTTGGATGTC	0.393													25	99	---	---	---	---	PASS	G	202888999	G	G	202888999	3	3	19	1	0	0	0	0	1	0	0	0	8368	507	18	4	1513	4	KLHL12	1	202888999	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1049129	202888999	46361622	48	9217										
CDK18	5129	broad.mit.edu	37	chr1	205495906	205495906	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cacgctctgtgttccaggacAgtgacctgaagcagtatctg	11	11	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:205495906A>T	uc001hcr.2	+	8	979	c.760A>T	c.(760-762)AGT>TGT	p.S254C	CDK18_uc010pri.1_3'UTR|CDK18_uc001hcp.2_Missense_Mutation_p.S224C|CDK18_uc001hcq.2_Missense_Mutation_p.S224C|CDK18_uc010prj.1_Missense_Mutation_p.S135C|CDK18_uc001hcs.2_Missense_Mutation_p.S135C|CDK18_uc009xbm.1_Missense_Mutation_p.S149C|CDK18_uc001hct.2_5'Flank	NM_212503	NP_997668	Q07002	CDK18_HUMAN	PCTAIRE protein kinase 3 isoform a	222	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding|signal transducer activity			stomach(2)	2						GTTCCAGGACAGTGACCTGAA	0.632													73	259	---	---	---	---	PASS	T	205495906	T	T	205495906	3	4	19	1	0	0	0	0	1	0	0	0	3134	188	7	5	786	5	CDK18	1	205495906	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	2606907	205495906	43754715	49	9218										
SLC45A3	85414	broad.mit.edu	37	chr1	205632558	205632558	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	caggatgagcagtgccagctCcaggggcctgggatccgggc	17	12	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:205632558C>G	uc001hda.1	-	3	700	c.361G>C	c.(361-363)GAG>CAG	p.E121Q	SLC45A3_uc010prn.1_5'Flank|SLC45A3_uc010pro.1_5'UTR|SLC45A3_uc010prp.1_Intron|ELK4_uc010prq.1_Intron	NM_033102	NP_149093	Q96JT2	S45A3_HUMAN	prostein	121	Helical; Name=4; (Potential).				transmembrane transport	integral to membrane			SLC45A3/BRAF(2)	ovary(2)|prostate(2)	4	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			AGTGCCAGCTCCAGGGGCCTG	0.652			T	ETV1|ETV5|ELK4|ERG	prostate 								15	25	---	---	---	---	PASS	G	205632558	G	G	205632558	3	3	19	1	0	0	0	0	1	0	0	0	14642	864	30	2	1312	2	SLC45A3	1	205632558	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	136652	205632558	43618063	50	9219										
HHIPL2	79802	broad.mit.edu	37	chr1	222716923	222716923	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttaggatcagcccgagaaacCttcatctcactaattcggat	7	11	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:222716923C>T	uc001hnh.1	-	2	988	c.930G>A	c.(928-930)AAG>AAA	p.K310K		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	310					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		CCCGAGAAACCTTCATCTCAC	0.443													20	785	---	---	---	---	PASS	T	222716923	T	T	222716923	2	4	19	1	0	0	0	0	0	0	0	1	7094	680	24	3		3	HHIPL2	1	222716923	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	17084365	222716923	26533698	51	9220										
SIPA1L2	57568	broad.mit.edu	37	chr1	232561495	232561495	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctcctgttgctgcagatgctCtcgtcagacagcgtgcggta	12	12	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:232561495C>G	uc001hvg.2	-	16	4628	c.4470G>C	c.(4468-4470)GAG>GAC	p.E1490D	SIPA1L2_uc001hvf.2_Missense_Mutation_p.E564D	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1490					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				TGCAGATGCTCTCGTCAGACA	0.552													6	92	---	---	---	---	PASS	G	232561495	G	G	232561495	3	3	19	1	0	0	0	0	1	0	0	0	14330	912	32	2	722	2	SIPA1L2	1	232561495	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	9844572	232561495	16689126	52	9221										
KIAA1383	54627	broad.mit.edu	37	chr1	232942722	232942722	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctaagactacgtttaaagctGacaaatcctgatatgttggt	8	7	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:232942722G>T	uc001hvh.2	+	1	2085	c.1953G>T	c.(1951-1953)CTG>CTT	p.L651L		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	509										ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				GTTTAAAGCTGACAAATCCTG	0.353													11	53	---	---	---	---	PASS	T	232942722	T	T	232942722	2	4	19	1	0	0	0	0	0	0	0	1	8228	1277	45	2		2	KIAA1383	1	232942722	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	381227	232942722	16307899	53	9222										
RYR2	6262	broad.mit.edu	37	chr1	237494253	237494253	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tccgggcgctgcaggagatgCtggctaacaccgtggagaaa	15	10	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:237494253C>A	uc001hyl.1	+	3	364	c.244C>A	c.(244-246)CTG>ATG	p.L82M		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	82	Cytoplasmic (By similarity).				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)			GCAGGAGATGCTGGCTAACAC	0.493													28	125	---	---	---	---	PASS	A	237494253	A	A	237494253	3	1	19	1	0	0	0	0	1	0	0	0	13769	796	28	3	254	3	RYR2	1	237494253	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4551531	237494253	11756368	54	9223										
RYR2	6262	broad.mit.edu	37	chr1	237608766	237608766	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcgagatcccagcatgaagaAtcacgcacagcccgagttat	9	12	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:237608766A>T	uc001hyl.1	+	14	1356	c.1236A>T	c.(1234-1236)GAA>GAT	p.E412D		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	412	Cytoplasmic (By similarity).				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)			AGCATGAAGAATCACGCACAG	0.403													30	147	---	---	---	---	PASS	T	237608766	T	T	237608766	3	4	19	1	0	0	0	0	1	0	0	0	13769	98	4	5	1290	5	RYR2	1	237608766	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	114513	237608766	11641855	55	9224										
ZP4	57829	broad.mit.edu	37	chr1	238045744	238045744	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	attgacacatttggtctgggCaactcttctgtttcttgaca	8	9	4	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:238045744C>G	uc001hym.2	-	12	1601	c.1601G>C	c.(1600-1602)TGC>TCC	p.C534S	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	534	Cytoplasmic (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			TTGGTCTGGGCAACTCTTCTG	0.443													64	221	---	---	---	---	PASS	G	238045744	G	G	238045744	3	3	19	1	0	0	0	0	1	0	0	0	18215	710	25	4	25	4	ZP4	1	238045744	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	436978	238045744	11204877	56	9225										
NLRP3	114548	broad.mit.edu	37	chr1	247588146	247588146	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggcctctgcgcccacctctgGgggctctgctctttggctgc	13	16	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:247588146G>C	uc001icr.2	+	5	1539	c.1401G>C	c.(1399-1401)TGG>TGC	p.W467C	NLRP3_uc001ics.2_Missense_Mutation_p.W467C|NLRP3_uc001icu.2_Missense_Mutation_p.W467C|NLRP3_uc001icw.2_Missense_Mutation_p.W467C|NLRP3_uc001icv.2_Missense_Mutation_p.W467C|NLRP3_uc010pyw.1_Missense_Mutation_p.W465C|NLRP3_uc001ict.1_Missense_Mutation_p.W465C	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	467	NACHT.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			CCCACCTCTGGGGGCTCTGCT	0.587													16	68	---	---	---	---	PASS	C	247588146	C	C	247588146	3	2	19	1	0	0	0	0	1	0	0	0	10478	1241	43	4	1411	4	NLRP3	1	247588146	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	9542402	247588146	1662475	57	9226										
OR1C1	26188	broad.mit.edu	37	chr1	247920935	247920935	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggggatgaagggctgaaataGacggcgatggctgtgccgta	18	6	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:247920935G>C	uc010pza.1	-	1	774	c.774C>G	c.(772-774)GTC>GTG	p.V258V		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	258	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			GGCTGAAATAGACGGCGATGG	0.517													17	82	---	---	---	---	PASS	C	247920935	C	C	247920935	2	2	19	1	0	0	0	0	0	0	0	1	10952	929	33	2		2	OR1C1	1	247920935	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	332789	247920935	1329686	58	9227										
OR2T6	254879	broad.mit.edu	37	chr1	248550957	248550957	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agaggctttaccctcatgggGctcttcactcacaataaatg	8	11	4	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:248550957G>T	uc001iei.1	+	1	48	c.48G>T	c.(46-48)GGG>GGT	p.G16G		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCCTCATGGGGCTCTTCACTC	0.423													11	131	---	---	---	---	PASS	T	248550957	T	T	248550957	2	4	19	1	0	0	0	0	0	0	0	1	11029	1190	42	3		3	OR2T6	1	248550957	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	630022	248550957	699664	59	9228										
OR2T6	254879	broad.mit.edu	37	chr1	248551209	248551209	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttcatcgcctgcactgctcaGtgctttctctacatgggctt	8	13	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:248551209G>T	uc001iei.1	+	1	300	c.300G>T	c.(298-300)CAG>CAT	p.Q100H		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	100	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GCACTGCTCAGTGCTTTCTCT	0.532													39	92	---	---	---	---	PASS	T	248551209	T	T	248551209	3	4	19	1	0	0	0	0	1	0	0	0	11029	1020	36	3	302	3	OR2T6	1	248551209	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	252	248551209	699412	60	9229										
OR2T34	127068	broad.mit.edu	37	chr1	248737471	248737471	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agcatcttatagagggagacGtcagagcaggagagcttcag	14	7	3	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr1:248737471G>C	uc001iep.1	-	1	588	c.588C>G	c.(586-588)GAC>GAG	p.D196E		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	196	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AGAGGGAGACGTCAGAGCAGG	0.517													65	524	---	---	---	---	PASS	C	248737471	C	C	248737471	3	2	19	1	0	0	0	0	1	0	0	0	11025	1136	40	4	372	4	OR2T34	1	248737471	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	186262	248737471	513150	61	9230										
SMC6	79677	broad.mit.edu	37	chr2	17902509	17902509	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cctctttctctacacactggCgctttagttcagtaagccgc	7	14	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:17902509C>A	uc002rco.2	-	10	1042	c.746G>T	c.(745-747)CGC>CTC	p.R249L	SMC6_uc010exo.2_Missense_Mutation_p.R249L|SMC6_uc002rcn.2_Missense_Mutation_p.R249L|SMC6_uc002rcp.1_Missense_Mutation_p.R275L|SMC6_uc002rcq.2_Missense_Mutation_p.R275L|SMC6_uc002rcr.1_Missense_Mutation_p.R249L	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	249	Potential.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TACACACTGGCGCTTTAGTTC	0.328													11	130	---	---	---	---	PASS	A	17902509	A	A	17902509	3	1	19	1	0	0	0	0	1	0	0	0	14787	768	27	1	2605	1	SMC6	2	17902509	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08		17902509	225296864	62	9231										
APOB	338	broad.mit.edu	37	chr2	21246424	21246424	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acttccagttttactccagcCttggctccgggagcaatgac	9	13	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:21246424C>G	uc002red.2	-	17	2705	c.2577G>C	c.(2575-2577)AAG>AAC	p.K859N		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	859					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTACTCCAGCCTTGGCTCCGG	0.413													22	183	---	---	---	---	PASS	G	21246424	G	G	21246424	3	3	19	1	0	0	0	0	1	0	0	0	785	680	24	4	11166	4	APOB	2	21246424	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	3343915	21246424	221952949	63	9232										
DPYSL5	56896	broad.mit.edu	37	chr2	27156171	27156171	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acgtgtccagtatctcggctGgtgacgttatcgcagctgct	12	11	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:27156171G>C	uc002rhu.3	+	7	918	c.760G>C	c.(760-762)GGT>CGT	p.G254R	DPYSL5_uc002rhv.3_Missense_Mutation_p.G254R	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	254					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TATCTCGGCTGGTGACGTTAT	0.517													14	147	---	---	---	---	PASS	C	27156171	C	C	27156171	3	2	19	1	0	0	0	0	1	0	0	0	4750	1348	47	4	782	4	DPYSL5	2	27156171	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	5909747	27156171	216043202	64	9233										
MPV17	4358	broad.mit.edu	37	chr2	27545374	27545374	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gggcccgctggtatgcccgcCagagtgccatgcttcctgtc	13	15	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:27545374C>A	uc002rjr.2	-	1	58	c.11G>T	c.(10-12)TGG>TTG	p.W4L	MPV17_uc002rjq.2_Missense_Mutation_p.W4L|MPV17_uc002rjs.2_Missense_Mutation_p.W4L|MPV17_uc002rjt.2_Intron	NM_002437	NP_002428	P39210	MPV17_HUMAN	Mpv17 protein	4					cellular response to reactive oxygen species|glomerular basement membrane development|homeostatic process|inner ear development|mitochondrial genome maintenance|regulation of reactive oxygen species metabolic process	integral to peroxisomal membrane|mitochondrial inner membrane					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTATGCCCGCCAGAGTGCCAT	0.627													14	136	---	---	---	---	PASS	A	27545374	A	A	27545374	3	1	19	1	0	0	0	0	1	0	0	0	9745	595	21	3	547	3	MPV17	2	27545374	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	389203	27545374	215653999	65	9234										
GTF3C2	2976	broad.mit.edu	37	chr2	27565913	27565913	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggggctgatggaggattagGctgttggggccttttggggc	20	5	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:27565913G>T	uc002rjv.1	-	4	712	c.349C>A	c.(349-351)CCT>ACT	p.P117T	GTF3C2_uc002rju.1_Missense_Mutation_p.P128T|GTF3C2_uc002rjw.1_Missense_Mutation_p.P117T|GTF3C2_uc010eyz.1_Missense_Mutation_p.P117T	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	117						transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAGGATTAGGCTGTTGGGGC	0.537													36	200	---	---	---	---	PASS	T	27565913	T	T	27565913	3	4	19	1	0	0	0	0	1	0	0	0	6873	1203	42	3	2454	3	GTF3C2	2	27565913	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	20539	27565913	215633460	66	9235										
SUPT7L	9913	broad.mit.edu	37	chr2	27884013	27884013	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttctgtctgctgctgattcTgggcctgagctgtggcaata	12	10	3	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:27884013T>C	uc002rlh.1	-	3	600	c.257A>G	c.(256-258)CAG>CGG	p.Q86R	SUPT7L_uc002rli.1_Missense_Mutation_p.Q86R|SUPT7L_uc010ymf.1_Intron|SUPT7L_uc002rlj.1_Missense_Mutation_p.Q84R|SUPT7L_uc010ezh.1_Missense_Mutation_p.Q84R|SLC4A1AP_uc002rlk.3_5'Flank	NM_014860	NP_055675	O94864	ST65G_HUMAN	SPTF-associated factor 65 gamma	86					histone H3 acetylation|maintenance of protein location in nucleus|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					CTGCTGATTCTGGGCCTGAGC	0.522													13	140	---	---	---	---	PASS	C	27884013	C	C	27884013	3	2	19	1	0	0	0	0	1	0	0	0	15398	1580	55	5	1003	5	SUPT7L	2	27884013	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	318100	27884013	215315360	67	9236										
BIRC6	57448	broad.mit.edu	37	chr2	32774500	32774500	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tacttctcgagcttctcagtCagtcctgcctcatcccagcc	6	17	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:32774500C>G	uc010ezu.2	+	65	13230	c.13096C>G	c.(13096-13098)CAG>GAG	p.Q4366E		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4366					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)					GCTTCTCAGTCAGTCCTGCCT	0.433													8	157	---	---	---	---	PASS	G	32774500	G	G	32774500	3	3	19	1	0	0	0	0	1	0	0	0	1438	827	29	2	13354	2	BIRC6	2	32774500	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4890487	32774500	210424873	68	9237										
PRKD3	23683	broad.mit.edu	37	chr2	37543626	37543626	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcaggaatagctgtgggtaaTacagacttctgggctgatgg	15	6	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:37543626T>C	uc002rqd.2	-	1	597	c.42A>G	c.(40-42)GTA>GTG	p.V14V	PRKD3_uc002rqf.1_Silent_p.V14V	NM_005813	NP_005804	O94806	KPCD3_HUMAN	protein kinase D3	14					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(2)|ovary(1)|central_nervous_system(1)	4		all_hematologic(82;0.21)				CTGTGGGTAATACAGACTTCT	0.448													30	185	---	---	---	---	PASS	C	37543626	C	C	37543626	2	2	19	1	0	0	0	0	0	0	0	1	12520	1393	49	5		5	PRKD3	2	37543626	Silent	SNP	T	TCGA-21-1070-01A-01D-1521-08	4769126	37543626	205655747	69	9238										
COX7A2L	9167	broad.mit.edu	37	chr2	42588252	42588252	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcgggctataggcctccgaaGcccatgctcctgccaacttc	10	16	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:42588252G>T	uc002rsk.2	-	1	105	c.50C>A	c.(49-51)GCT>GAT	p.A17D	COX7A2L_uc002rsl.2_RNA	NM_004718	NP_004709	O14548	COX7R_HUMAN	cytochrome c oxidase subunit VIIa polypeptide 2	17					respiratory electron transport chain	mitochondrial respiratory chain	cytochrome-c oxidase activity|electron carrier activity				0						GGCCTCCGAAGCCCATGCTCC	0.647													4	41	---	---	---	---	PASS	T	42588252	T	T	42588252	3	4	19	1	0	0	0	0	1	0	0	0	3781	971	34	3	306	3	COX7A2L	2	42588252	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	5044626	42588252	200611121	70	9239										
ABCG8	64241	broad.mit.edu	37	chr2	44101029	44101029	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcttcctctattttggccatGggagcatccagctctccttc	8	14	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:44101029G>T	uc002rtq.2	+	9	1405	c.1315G>T	c.(1315-1317)GGG>TGG	p.G439W	ABCG8_uc010yoa.1_Missense_Mutation_p.G438W	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	439	Extracellular (Potential).|ABC transmembrane type-2.				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TTTTGGCCATGGGAGCATCCA	0.527													281	438	---	---	---	---	PASS	T	44101029	T	T	44101029	3	4	19	1	0	0	0	0	1	0	0	0	72	1348	47	3	1349	3	ABCG8	2	44101029	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1512777	44101029	199098344	71	9240										
FBXO11	80204	broad.mit.edu	37	chr2	48066854	48066854	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tacgaagttggtatggactaTtttgtgcaccaggacctgat	11	7	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:48066854T>C	uc010fbl.2	-	2	149	c.35A>G	c.(34-36)AAT>AGT	p.N12S	FBXO11_uc002rwe.2_Missense_Mutation_p.N12S|FBXO11_uc002rwf.2_Missense_Mutation_p.N12S|FBXO11_uc002rwg.1_Missense_Mutation_p.N12S	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	96					ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GTATGGACTATTTTGTGCACC	0.363													38	200	---	---	---	---	PASS	C	48066854	C	C	48066854	3	2	19	1	0	0	0	0	1	0	0	0	5727	1493	52	5	2674	5	FBXO11	2	48066854	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	3965825	48066854	195132519	72	9241										
LHCGR	3973	broad.mit.edu	37	chr2	48925804	48925804	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagtggctggggtaagtcaaCgtggcctccaggagattgac	15	9	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:48925804C>A	uc002rwu.3	-	9	886	c.816G>T	c.(814-816)ACG>ACT	p.T272T	GTF2A1L_uc002rwt.2_Intron|LHCGR_uc002rwv.2_RNA	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	272	Extracellular (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	GGTAAGTCAACGTGGCCTCCA	0.438									Familial_Male-Limited_Precocious_Puberty				61	113	---	---	---	---	PASS	A	48925804	A	A	48925804	2	1	19	1	0	0	0	0	0	0	0	1	8762	523	19	1		1	LHCGR	2	48925804	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	858950	48925804	194273569	73	9242										
CCDC85A	114800	broad.mit.edu	37	chr2	56420411	56420411	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagagccaggggcaccagccCggagcacctcaaacaacatt	10	15	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:56420411C>G	uc002rzn.2	+	2	1578	c.1076C>G	c.(1075-1077)CCG>CGG	p.P359R		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	359	His-rich.									breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			GGCACCAGCCCGGAGCACCTC	0.637													15	47	---	---	---	---	PASS	G	56420411	G	G	56420411	3	3	19	1	0	0	0	0	1	0	0	0	2859	652	23	4	1082	4	CCDC85A	2	56420411	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	7494607	56420411	186778962	74	9243										
APLF	200558	broad.mit.edu	37	chr2	68794484	68794484	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttctttcaggaagaatccccAgcacaagatagaatatagac	7	9	2	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:68794484A>T	uc002sep.2	+	9	1471	c.1298A>T	c.(1297-1299)CAG>CTG	p.Q433L	APLF_uc002seq.1_RNA|APLF_uc002ser.1_Missense_Mutation_p.Q164L	NM_173545	NP_775816	Q8IW19	APLF_HUMAN	aprataxin and PNKP like factor	433	PBZ-type 2.				double-strand break repair|single strand break repair	cytosol|nucleus	3'-5' exonuclease activity|DNA-(apurinic or apyrimidinic site) lyase activity|endodeoxyribonuclease activity|metal ion binding|nucleotide binding|protein binding			ovary(2)	2						AAGAATCCCCAGCACAAGATA	0.313													21	81	---	---	---	---	PASS	T	68794484	T	T	68794484	3	4	19	1	0	0	0	0	1	0	0	0	776	188	7	5	1332	5	APLF	2	68794484	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	12374073	68794484	174404889	75	9244										
CD207	50489	broad.mit.edu	37	chr2	71060794	71060794	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tactttgtcgtttgagcaacTtgctcatattctccaagctg	7	10	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:71060794T>C	uc002shg.2	-	3	595	c.548A>G	c.(547-549)AAG>AGG	p.K183R		NM_015717	NP_056532	Q9UJ71	CLC4K_HUMAN	CD207 antigen, langerin	183	Potential.|Extracellular (Potential).				defense response to virus	endocytic vesicle|integral to membrane	mannose binding			ovary(1)|lung(1)	2						TTTGAGCAACTTGCTCATATT	0.463													17	47	---	---	---	---	PASS	C	71060794	C	C	71060794	3	2	19	1	0	0	0	0	1	0	0	0	2983	1609	56	5	454	5	CD207	2	71060794	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	2266310	71060794	172138579	76	9245										
CD207	50489	broad.mit.edu	37	chr2	71061107	71061107	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cacacgacctttcagcaactGgacattggtctttacatctg	7	12	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:71061107G>C	uc002shg.2	-	3	282	c.235C>G	c.(235-237)CAG>GAG	p.Q79E		NM_015717	NP_056532	Q9UJ71	CLC4K_HUMAN	CD207 antigen, langerin	79	Extracellular (Potential).				defense response to virus	endocytic vesicle|integral to membrane	mannose binding			ovary(1)|lung(1)	2						TTCAGCAACTGGACATTGGTC	0.512													9	47	---	---	---	---	PASS	C	71061107	C	C	71061107	3	2	19	1	0	0	0	0	1	0	0	0	2983	1357	47	4	767	4	CD207	2	71061107	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	313	71061107	172138266	77	9246										
VAX2	25806	broad.mit.edu	37	chr2	71148347	71148347	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcctggagatggagttccagCgctgccagtatgtggtgggc	17	9	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:71148347C>A	uc002shh.2	+	2	399	c.367C>A	c.(367-369)CGC>AGC	p.R123S		NM_012476	NP_036608	Q9UIW0	VAX2_HUMAN	ventral anterior homeobox 2	123	Homeobox.				ectoderm development|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGAGTTCCAGCGCTGCCAGTA	0.637													13	53	---	---	---	---	PASS	A	71148347	A	A	71148347	3	1	19	1	0	0	0	0	1	0	0	0	17132	768	27	1	373	1	VAX2	2	71148347	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	87240	71148347	172051026	78	9247										
ZNF638	27332	broad.mit.edu	37	chr2	71591167	71591167	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcgttctagaagatcaagctCaagtcacagattccgtcggt	10	10	4	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:71591167C>T	uc002shx.2	+	5	1821	c.1502C>T	c.(1501-1503)TCA>TTA	p.S501L	ZNF638_uc010fec.2_Missense_Mutation_p.S607L|ZNF638_uc010yqw.1_Missense_Mutation_p.S80L|ZNF638_uc002shw.2_Missense_Mutation_p.S501L|ZNF638_uc002shy.2_Missense_Mutation_p.S501L|ZNF638_uc002shz.2_Missense_Mutation_p.S501L|ZNF638_uc002sia.2_Missense_Mutation_p.S501L|ZNF638_uc002sib.1_Missense_Mutation_p.S501L|ZNF638_uc010fed.2_5'Flank	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	501	Arg-rich.				RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AGATCAAGCTCAAGTCACAGA	0.463													18	175	---	---	---	---	PASS	T	71591167	T	T	71591167	3	4	19	1	0	0	0	0	1	0	0	0	18052	838	29	2	1516	2	ZNF638	2	71591167	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	442820	71591167	171608206	79	9248										
DYSF	8291	broad.mit.edu	37	chr2	71839822	71839822	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccatcaccgtcaaggtcatcGataaccgccagtttggccgc	9	15	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:71839822G>T	uc002sie.2	+	39	4595	c.4219G>T	c.(4219-4221)GAT>TAT	p.D1407Y	DYSF_uc010feg.2_Missense_Mutation_p.D1438Y|DYSF_uc010feh.2_Missense_Mutation_p.D1393Y|DYSF_uc002sig.3_Missense_Mutation_p.D1393Y|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.D1407Y|DYSF_uc010fef.2_Missense_Mutation_p.D1424Y|DYSF_uc010fei.2_Missense_Mutation_p.D1424Y|DYSF_uc010fek.2_Missense_Mutation_p.D1425Y|DYSF_uc010fej.2_Missense_Mutation_p.D1394Y|DYSF_uc010fel.2_Missense_Mutation_p.D1394Y|DYSF_uc010feo.2_Missense_Mutation_p.D1439Y|DYSF_uc010fem.2_Missense_Mutation_p.D1408Y|DYSF_uc010fen.2_Missense_Mutation_p.D1425Y|DYSF_uc002sif.2_Missense_Mutation_p.D1408Y|DYSF_uc010yqy.1_Missense_Mutation_p.D288Y|DYSF_uc010yqz.1_Missense_Mutation_p.D147Y	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1407	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CAAGGTCATCGATAACCGCCA	0.637													16	58	---	---	---	---	PASS	T	71839822	T	T	71839822	3	4	19	1	0	0	0	0	1	0	0	0	4859	1058	37	2	4565	2	DYSF	2	71839822	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	248655	71839822	171359551	80	9249										
RETSAT	54884	broad.mit.edu	37	chr2	85573109	85573109	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gccttttacctggcaggcagCgggcgttccccggcagtagg	15	13	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:85573109C>A	uc002spd.2	-	6	1297	c.1106G>T	c.(1105-1107)CGC>CTC	p.R369L	RETSAT_uc010fge.2_RNA|RETSAT_uc010ysm.1_Missense_Mutation_p.R308L|RETSAT_uc010fgf.2_Missense_Mutation_p.R160L	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	369					retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(2)	2					Vitamin A(DB00162)	TGGCAGGCAGCGGGCGTTCCC	0.587													42	181	---	---	---	---	PASS	A	85573109	A	A	85573109	3	1	19	1	0	0	0	0	1	0	0	0	13238	768	27	1	750	1	RETSAT	2	85573109	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	13733287	85573109	157626264	81	9250										
FER1L5	90342	broad.mit.edu	37	chr2	97365350	97365350	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gagatccagctctatgacttCgacctattttcacctgatga	7	11	2	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:97365350C>A	uc010fia.2	+	42	4755	c.4755C>A	c.(4753-4755)TTC>TTA	p.F1585L	FER1L5_uc002sws.3_Missense_Mutation_p.F303L|FER1L5_uc002swt.3_Missense_Mutation_p.F303L|FER1L5_uc010yus.1_Missense_Mutation_p.F302L	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1585	C2 5.					integral to membrane				ovary(1)	1						TCTATGACTTCGACCTATTTT	0.493													110	379	---	---	---	---	PASS	A	97365350	A	A	97365350	3	1	19	1	0	0	0	0	1	0	0	0	5814	883	31	2	4921	2	FER1L5	2	97365350	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	11792241	97365350	145834023	82	9251										
TSGA10	80705	broad.mit.edu	37	chr2	99697854	99697854	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tctttttctgtgttttcataCaaaagtctgcaaatatttta	4	6	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:99697854C>A	uc002szg.3	-	9	1246	c.618G>T	c.(616-618)TTG>TTT	p.L206F	TSGA10_uc002szh.3_Missense_Mutation_p.L206F|TSGA10_uc002szi.3_Missense_Mutation_p.L206F|TSGA10_uc010fin.1_Missense_Mutation_p.L206F|TSGA10_uc010yvn.1_Missense_Mutation_p.L206F	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	206					spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						TGTTTTCATACAAAAGTCTGC	0.289													17	75	---	---	---	---	PASS	A	99697854	A	A	99697854	3	1	19	1	0	0	0	0	1	0	0	0	16614	477	17	3	1522	3	TSGA10	2	99697854	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2332504	99697854	143501519	83	9252										
IL18R1	8809	broad.mit.edu	37	chr2	102988470	102988470	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agaaataaacacagctgtttCactgaaagacaagtaactag	7	7	1	3	rs140709578		TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:102988470C>T	uc002tbw.3	+	4	510	c.360C>T	c.(358-360)TTC>TTT	p.F120F	IL18R1_uc010ywb.1_Silent_p.F120F|IL18R1_uc010ywc.1_Silent_p.F120F|IL18R1_uc010ywd.1_5'UTR|IL18R1_uc010fiy.2_Silent_p.F120F	NM_003855	NP_003846	Q13478	IL18R_HUMAN	interleukin 18 receptor 1 precursor	120	Ig-like C2-type 1.|Extracellular (Potential).				innate immune response	integral to membrane|plasma membrane	interleukin-1 receptor activity			ovary(2)|pancreas(1)	3						ACAGCTGTTTCACTGAAAGAC	0.289													26	71	---	---	---	---	PASS	T	102988470	T	T	102988470	2	4	19	1	0	0	0	0	0	0	0	1	7647	825	29	2		2	IL18R1	2	102988470	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	3290616	102988470	140210903	84	9253										
RANBP2	5903	broad.mit.edu	37	chr2	109381368	109381368	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgttcatcaagcttcatttaAatttggccagggagatcttc	8	8	4	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:109381368A>G	uc002tem.3	+	20	4499	c.4373A>G	c.(4372-4374)AAA>AGA	p.K1458R		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1458					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GCTTCATTTAAATTTGGCCAG	0.368													34	93	---	---	---	---	PASS	G	109381368	G	G	109381368	3	3	19	1	0	0	0	0	1	0	0	0	13028	14	1	5	4451	5	RANBP2	2	109381368	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	6392898	109381368	133818005	85	9254										
CNTNAP5	129684	broad.mit.edu	37	chr2	124999829	124999829	+	Missense_Mutation	SNP	G	T	T													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gctcaacagtggctccagatGgacctgggaaacagagtaga							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:124999829G>T	uc002tno.2	+	3	604	c.240G>T	c.(238-240)ATG>ATT	p.M80I	CNTNAP5_uc010flu.2_Missense_Mutation_p.M80I	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	80	F5/8 type C.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GGCTCCAGATGGACCTGGGAA	0.522													3	14	---	---	---	---	PASS	T	124999829	T	T	124999829	3	4	19	1	0	0	0	0	1	0	0	0	3650	1348	47	3	250	3	CNTNAP5	2	124999829	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	15618461	124999829	118199544	86	9255	270	2								
CNTNAP5	129684	broad.mit.edu	37	chr2	124999830	124999830	+	Missense_Mutation	SNP	G	T	T													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctcaacagtggctccagatgGacctgggaaacagagtagag							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:124999830G>T	uc002tno.2	+	3	605	c.241G>T	c.(241-243)GAC>TAC	p.D81Y	CNTNAP5_uc010flu.2_Missense_Mutation_p.D81Y	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	81	F5/8 type C.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GCTCCAGATGGACCTGGGAAA	0.522													3	14	---	---	---	---	PASS	T	124999830	T	T	124999830	3	4	19	1	0	0	0	0	1	0	0	0	3650	1174	41	2	251	2	CNTNAP5	2	124999830	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1	124999830	118199543	87	9256	270	2								
CNTNAP5	129684	broad.mit.edu	37	chr2	125405502	125405502	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtgagcaggaggtggcctacCactgcaggaggtcccgcctg	16	12	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:125405502C>A	uc002tno.2	+	13	2405	c.2041C>A	c.(2041-2043)CAC>AAC	p.H681N	CNTNAP5_uc010flu.2_Missense_Mutation_p.H682N	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	681	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GGTGGCCTACCACTGCAGGAG	0.602													4	18	---	---	---	---	PASS	A	125405502	A	A	125405502	3	1	19	1	0	0	0	0	1	0	0	0	3650	594	21	3	2091	3	CNTNAP5	2	125405502	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	405672	125405502	117793871	88	9257										
MYO7B	4648	broad.mit.edu	37	chr2	128335741	128335741	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cctgtgaggggctcaacgacGccaaggactacgcccacatc	11	15	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:128335741G>T	uc002top.2	+	9	936	c.883G>T	c.(883-885)GCC>TCC	p.A295S		NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	295	Myosin head-like.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GCTCAACGACGCCAAGGACTA	0.632													12	59	---	---	---	---	PASS	T	128335741	T	T	128335741	3	4	19	1	0	0	0	0	1	0	0	0	10083	1087	38	1	913	1	MYO7B	2	128335741	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2930239	128335741	114863632	89	9258										
LRP1B	53353	broad.mit.edu	37	chr2	141253223	141253223	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aagtcccgtatgtattgatgCattgctggctacagggaaag	12	7	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:141253223C>A	uc002tvj.1	-	56	9917	c.8945G>T	c.(8944-8946)TGC>TTC	p.C2982F		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2982	Extracellular (Potential).|EGF-like 7.				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)		TGTATTGATGCATTGCTGGCT	0.458										TSP Lung(27;0.18)			34	117	---	---	---	---	PASS	A	141253223	A	A	141253223	3	1	19	1	0	0	0	0	1	0	0	0	8955	710	25	3	4998	3	LRP1B	2	141253223	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	12917482	141253223	101946150	90	9259										
KIF5C	3800	broad.mit.edu	37	chr2	149806919	149806919	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aaccaccatcgtcatttgctGttctccttctgtcttcaatg	5	13	5	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:149806919G>C	uc010zbu.1	+	10	1279	c.911G>C	c.(910-912)TGT>TCT	p.C304S	KIF5C_uc002tws.1_RNA	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	304	Kinesin-motor.|Microtubule-binding.				microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		GTCATTTGCTGTTCTCCTTCT	0.502													29	35	---	---	---	---	PASS	C	149806919	C	C	149806919	3	2	19	1	0	0	0	0	1	0	0	0	8307	1377	48	4	871	4	KIF5C	2	149806919	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	8553696	149806919	93392454	91	9260										
KIF5C	3800	broad.mit.edu	37	chr2	149840133	149840133	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttgttgaaatttgtttttcaGactacattgacaaccacaca	5	8	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:149840133G>T	uc010zbu.1	+	15	1938	c.1570_splice	c.e15-1	p.T524_splice	KIF5C_uc002tws.1_Splice_Site|KIF5C_uc002twt.2_Splice_Site_p.T76_splice	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C						microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		TTGTTTTTCAGACTACATTGA	0.388													16	36	---	---	---	---	PASS	T	149840133	T	T	149840133	5	4	19	1	0	0	0	0	0	0	1	0	8307	956	33	2	1549	2	KIF5C	2	149840133	Splice_Site	SNP	G	TCGA-21-1070-01A-01D-1521-08	33214	149840133	93359240	92	9261										
RIF1	55183	broad.mit.edu	37	chr2	152325193	152325193	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaatccataccatgcccaacAgaaagtgtttacccaccatt	5	13	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:152325193A>G	uc002txm.2	+	33	6994	c.6864A>G	c.(6862-6864)ACA>ACG	p.T2288T	RIF1_uc002txl.2_Silent_p.T2262T|RIF1_uc002txn.2_Silent_p.T2262T|RIF1_uc002txo.2_Silent_p.T2262T|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	2288	Interaction with condensed chromosomes in telophase.				cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		CATGCCCAACAGAAAGTGTTT	0.378													56	172	---	---	---	---	PASS	G	152325193	G	G	152325193	2	3	19	1	0	0	0	0	0	0	0	1	13359	175	7	5		5	RIF1	2	152325193	Silent	SNP	A	TCGA-21-1070-01A-01D-1521-08	2485060	152325193	90874180	93	9262										
ACVR1C	130399	broad.mit.edu	37	chr2	158406731	158406731	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atgtcgcagcatgaccgtctGgtaaatttctgcctcacgaa	9	11	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:158406731G>T	uc002tzk.3	-	4	961	c.718C>A	c.(718-720)CAG>AAG	p.Q240K	ACVR1C_uc002tzl.3_Missense_Mutation_p.Q160K|ACVR1C_uc010fof.2_Intron|ACVR1C_uc010foe.2_Missense_Mutation_p.Q190K	NM_145259	NP_660302	Q8NER5	ACV1C_HUMAN	activin A receptor, type IC isoform 1	240	Protein kinase.|Cytoplasmic (Potential).				apoptosis|cell differentiation|regulation of apoptosis	activin receptor complex	activin receptor activity, type I|ATP binding|transforming growth factor beta receptor activity			lung(3)|ovary(2)|skin(2)	7						ATGACCGTCTGGTAAATTTCT	0.428													44	186	---	---	---	---	PASS	T	158406731	T	T	158406731	3	4	19	1	0	0	0	0	1	0	0	0	222	1357	47	3	787	3	ACVR1C	2	158406731	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	6081538	158406731	84792642	94	9263										
TTC21B	79809	broad.mit.edu	37	chr2	166770088	166770088	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acatcagaaattttacctctAgaatattcatgtatgcatca	4	8	4	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:166770088A>G	uc002udk.2	-	16	2340	c.2207T>C	c.(2206-2208)CTA>CCA	p.L736P		NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	736	TPR 9.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TTTTACCTCTAGAATATTCAT	0.303													16	82	---	---	---	---	PASS	G	166770088	G	G	166770088	3	3	19	1	0	0	0	0	1	0	0	0	16685	420	15	5	1799	5	TTC21B	2	166770088	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	8363357	166770088	76429285	95	9264										
SCN9A	6335	broad.mit.edu	37	chr2	167085253	167085253	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cattatcaaagttcactttcAggtttttccatcgcacattt	4	10	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:167085253A>T	uc010fpl.2	-	22	4462	c.4121T>A	c.(4120-4122)CTG>CAG	p.L1374Q	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1385	III.		Missing (in CIPAR; significant reduction in membrane localization of the mutant protein compared to the wild-type; complete loss of function of the sodium channel).			voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GTTCACTTTCAGGTTTTTCCA	0.398													34	244	---	---	---	---	PASS	T	167085253	T	T	167085253	3	4	19	1	0	0	0	0	1	0	0	0	13925	188	7	5	1836	5	SCN9A	2	167085253	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	315165	167085253	76114120	96	9265										
LRP2	4036	broad.mit.edu	37	chr2	170150710	170150710	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcattgtcatggtcacagacAtaagcacgagggatacactc	9	10	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:170150710A>G	uc002ues.2	-	6	813	c.600T>C	c.(598-600)TAT>TAC	p.Y200Y	LRP2_uc010zdf.1_Silent_p.Y200Y	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	200	LDL-receptor class A 5.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GGTCACAGACATAAGCACGAG	0.428													23	176	---	---	---	---	PASS	G	170150710	G	G	170150710	2	3	19	1	0	0	0	0	0	0	0	1	8956	224	8	5		5	LRP2	2	170150710	Silent	SNP	A	TCGA-21-1070-01A-01D-1521-08	3065457	170150710	73048663	97	9266										
CHRNA1	1134	broad.mit.edu	37	chr2	175624292	175624292	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggtcttccactggccgcaccAcgctgctgtagtctttaaat	9	13	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:175624292A>T	uc002ujd.2	-	2	191	c.113T>A	c.(112-114)GTG>GAG	p.V38E	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Missense_Mutation_p.V38E|CHRNA1_uc002ujf.3_Missense_Mutation_p.V38E	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	38	Extracellular.				muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						TGGCCGCACCACGCTGCTGTA	0.587													37	273	---	---	---	---	PASS	T	175624292	T	T	175624292	3	4	19	1	0	0	0	0	1	0	0	0	3381	159	6	5	1371	5	CHRNA1	2	175624292	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	5473582	175624292	67575081	98	9267										
ATF2	1386	broad.mit.edu	37	chr2	175939423	175939423	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	actctggtccgccatctgggTgaggactgaagtggctacag	14	10	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:175939423T>A	uc002ujl.2	-	14	1694	c.1432A>T	c.(1432-1434)ACC>TCC	p.T478S	ATF2_uc010fqv.2_Missense_Mutation_p.T429S|ATF2_uc002ujv.2_Missense_Mutation_p.T225S|ATF2_uc002ujm.2_Missense_Mutation_p.T420S|ATF2_uc002ujn.2_RNA|ATF2_uc002ujo.2_Missense_Mutation_p.T117S|ATF2_uc002ujp.2_RNA|ATF2_uc002ujq.2_Missense_Mutation_p.T478S|ATF2_uc002ujr.2_RNA|ATF2_uc010fqu.2_Missense_Mutation_p.T460S|ATF2_uc002ujs.2_Missense_Mutation_p.T420S|ATF2_uc002ujt.2_RNA|ATF2_uc002uju.2_RNA|ATF2_uc002ujw.1_3'UTR|ATF2_uc002ujx.1_RNA|uc002ujk.2_5'Flank	NM_001880	NP_001871	P15336	ATF2_HUMAN	activating transcription factor 2	478					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|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	nucleoplasm	protein dimerization activity|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(1)|breast(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.125)			GCCATCTGGGTGAGGACTGAA	0.507													12	39	---	---	---	---	PASS	A	175939423	A	A	175939423	3	1	19	1	0	0	0	0	1	0	0	0	1080	1696	59	5	89	5	ATF2	2	175939423	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	315131	175939423	67259950	99	9268										
PDE11A	50940	broad.mit.edu	37	chr2	178494266	178494266	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgaatctagcatcggcttcaGtttcacgttgaccttcacca	7	12	4	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:178494266G>C	uc002ulq.2	-	20	2989	c.2671C>G	c.(2671-2673)CTG>GTG	p.L891V	PDE11A_uc010zfd.1_Missense_Mutation_p.L82V|PDE11A_uc002ulp.2_Missense_Mutation_p.L447V|PDE11A_uc002ulr.2_Missense_Mutation_p.L641V|PDE11A_uc002uls.1_Missense_Mutation_p.L533V|PDE11A_uc002ult.1_Missense_Mutation_p.L641V|PDE11A_uc002ulu.1_Missense_Mutation_p.L533V	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	891	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			ATCGGCTTCAGTTTCACGTTG	0.443									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				77	148	---	---	---	---	PASS	C	178494266	C	C	178494266	3	2	19	1	0	0	0	0	1	0	0	0	11631	1020	36	4	134	4	PDE11A	2	178494266	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2554843	178494266	64705107	100	9269										
TTN	7273	broad.mit.edu	37	chr2	179399048	179399048	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	accatgttgaggtctttcttGatcagggtgtggtaataacg	12	6	3	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:179399048G>C	uc010zfg.1	-	307	94814	c.94590C>G	c.(94588-94590)ATC>ATG	p.I31530M	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I25225M|TTN_uc010zfi.1_Missense_Mutation_p.I25158M|TTN_uc010zfj.1_Missense_Mutation_p.I25033M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32457							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)			GGTCTTTCTTGATCAGGGTGT	0.468													19	152	---	---	---	---	PASS	C	179399048	C	C	179399048	3	2	19	1	0	0	0	0	1	0	0	0	16732	1280	45	2	5705	2	TTN	2	179399048	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	904782	179399048	63800325	101	9270										
TTN	7273	broad.mit.edu	37	chr2	179449428	179449428	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcgcaaccatctttggagatGtgagaggctctgaaatgcca	12	9	2	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:179449428G>T	uc010zfg.1	-	259	57460	c.57236C>A	c.(57235-57237)ACA>AAA	p.T19079K	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T12774K|TTN_uc010zfi.1_Missense_Mutation_p.T12707K|TTN_uc010zfj.1_Missense_Mutation_p.T12582K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20006							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)			CTTTGGAGATGTGAGAGGCTC	0.433													46	373	---	---	---	---	PASS	T	179449428	T	T	179449428	3	4	19	1	0	0	0	0	1	0	0	0	16732	1377	48	3	43251	3	TTN	2	179449428	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	50380	179449428	63749945	102	9271										
CCDC141	285025	broad.mit.edu	37	chr2	179730587	179730587	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcacgccacttcatgctgtcCtcctcaaggagctccagctg	9	16	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:179730587C>G	uc002unf.1	-	7	963	c.906G>C	c.(904-906)GAG>GAC	p.E302D		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	302	Potential.						protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			TCATGCTGTCCTCCTCAAGGA	0.512													130	319	---	---	---	---	PASS	G	179730587	G	G	179730587	3	3	19	1	0	0	0	0	1	0	0	0	2775	680	24	4	1749	4	CCDC141	2	179730587	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	281159	179730587	63468786	103	9272										
CERKL	375298	broad.mit.edu	37	chr2	182423307	182423307	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccttgcctgctggtattaagCcaagtggaagctgtgctctg	12	10	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:182423307C>G	uc002unx.2	-	6	985	c.884G>C	c.(883-885)GGC>GCC	p.G295A	CERKL_uc002uny.2_Missense_Mutation_p.G269A|CERKL_uc010zfm.1_Missense_Mutation_p.G251A|CERKL_uc002unz.2_Missense_Mutation_p.G17A|CERKL_uc002uoa.2_Intron|CERKL_uc002uob.2_Missense_Mutation_p.G17A|CERKL_uc002uoc.2_Intron|CERKL_uc010frk.2_RNA|CERKL_uc002uod.1_Missense_Mutation_p.G64A|CERKL_uc002uoe.2_Missense_Mutation_p.G269A	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	295	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			TGGTATTAAGCCAAGTGGAAG	0.443													8	119	---	---	---	---	PASS	G	182423307	G	G	182423307	3	3	19	1	0	0	0	0	1	0	0	0	3268	739	26	4	828	4	CERKL	2	182423307	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2692720	182423307	60776066	104	9273										
ZNF804A	91752	broad.mit.edu	37	chr2	185802007	185802007	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcagagaatagttacactgaAaatgctgggaaatatctatt	9	5	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:185802007A>G	uc002uph.2	+	4	2478	c.1884A>G	c.(1882-1884)GAA>GAG	p.E628E		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	628						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						GTTACACTGAAAATGCTGGGA	0.343													63	200	---	---	---	---	PASS	G	185802007	G	G	185802007	2	3	19	1	0	0	0	0	0	0	0	1	18167	11	1	5		5	ZNF804A	2	185802007	Silent	SNP	A	TCGA-21-1070-01A-01D-1521-08	3378700	185802007	57397366	105	9274										
COL5A2	1290	broad.mit.edu	37	chr2	189901512	189901512	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttcaacagatccttggttagGatcaatccagtattcaccta	6	10	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:189901512G>T	uc002uqk.2	-	52	4218	c.3943C>A	c.(3943-3945)CCT>ACT	p.P1315T	COL5A2_uc010frx.2_Missense_Mutation_p.P891T	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	1315	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			CCTTGGTTAGGATCAATCCAG	0.338													9	50	---	---	---	---	PASS	T	189901512	T	T	189901512	3	4	19	1	0	0	0	0	1	0	0	0	3697	1174	41	2	568	2	COL5A2	2	189901512	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	4099505	189901512	53297861	106	9275										
DNAH7	56171	broad.mit.edu	37	chr2	196728947	196728947	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	attccgaaatgcatctccaaTgggactcatggcaaggacca	9	11	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:196728947T>C	uc002utj.3	-	41	7533	c.7432A>G	c.(7432-7434)ATT>GTT	p.I2478V		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2478	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GCATCTCCAATGGGACTCATG	0.438													31	107	---	---	---	---	PASS	C	196728947	C	C	196728947	3	2	19	1	0	0	0	0	1	0	0	0	4606	1464	51	5	4742	5	DNAH7	2	196728947	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	6827435	196728947	46470426	107	9276										
DNAH7	56171	broad.mit.edu	37	chr2	196756469	196756469	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aactgtccgtacagttggccCatggtgacagacttaggatt	11	9	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:196756469C>A	uc002utj.3	-	31	5057	c.4956G>T	c.(4954-4956)ATG>ATT	p.M1652I		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1652	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						ACAGTTGGCCCATGGTGACAG	0.358													30	80	---	---	---	---	PASS	A	196756469	A	A	196756469	3	1	19	1	0	0	0	0	1	0	0	0	4606	594	21	3	7258	3	DNAH7	2	196756469	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	27522	196756469	46442904	108	9277										
CCDC150	284992	broad.mit.edu	37	chr2	197593928	197593928	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgttttaagctgaagaaagcCcttgatgaagctaacttcag	9	7	1	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:197593928C>T	uc002utp.1	+	23	2703	c.2568C>T	c.(2566-2568)GCC>GCT	p.A856A	CCDC150_uc010zgs.1_Silent_p.A503A|CCDC150_uc010zgt.1_Silent_p.A273A|CCDC150_uc002utr.1_Silent_p.A171A	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150	856	Potential.										0						TGAAGAAAGCCCTTGATGAAG	0.378													5	33	---	---	---	---	PASS	T	197593928	T	T	197593928	2	4	19	1	0	0	0	0	0	0	0	1	2785	610	22	3		3	CCDC150	2	197593928	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	837459	197593928	45605445	109	9278										
RFTN2	130132	broad.mit.edu	37	chr2	198498558	198498558	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagatgactgcccacttaacGtcccttcattccaacttcta	4	15	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:198498558G>T	uc002uuo.3	-	4	1004	c.602C>A	c.(601-603)ACG>AAG	p.T201K		NM_144629	NP_653230	Q52LD8	RFTN2_HUMAN	raftlin family member 2	201						plasma membrane					0						CCCACTTAACGTCCCTTCATT	0.413													60	295	---	---	---	---	PASS	T	198498558	T	T	198498558	3	4	19	1	0	0	0	0	1	0	0	0	13259	1145	40	1	927	1	RFTN2	2	198498558	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	904630	198498558	44700815	110	9279										
ADAM23	8745	broad.mit.edu	37	chr2	207460779	207460779	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcctttttcttcacaggtgtGtagtaatgaagccacctgca	8	10	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:207460779G>T	uc002vbq.2	+	24	2475	c.2252G>T	c.(2251-2253)TGT>TTT	p.C751F	ADAM23_uc010ziv.1_Intron	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	751	EGF-like.|Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		TCACAGGTGTGTAGTAATGAA	0.448													12	60	---	---	---	---	PASS	T	207460779	T	T	207460779	3	4	19	1	0	0	0	0	1	0	0	0	245	1377	48	3	2346	3	ADAM23	2	207460779	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	8962221	207460779	35738594	111	9280										
CPS1	1373	broad.mit.edu	37	chr2	211502425	211502425	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctcttttctattaaatcctaGtgagtccatgacagaagaaa	6	8	2	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:211502425G>A	uc002vee.3	+	22	2820	c.2688_splice	c.e22-1	p.S896_splice	CPS1_uc010fur.2_Splice_Site_p.S902_splice|CPS1_uc010fus.2_Splice_Site_p.S445_splice	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b						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)		TTAAATCCTAGTGAGTCCATG	0.408													25	120	---	---	---	---	PASS	A	211502425	A	A	211502425	5	1	19	1	0	0	0	0	0	0	1	0	3823	1043	36	3	2795	3	CPS1	2	211502425	Splice_Site	SNP	G	TCGA-21-1070-01A-01D-1521-08	4041646	211502425	31696948	112	9281										
BARD1	580	broad.mit.edu	37	chr2	215645361	215645361	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	attgggcaacagcttcattgCtgagggactagacatcactc	10	10	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:215645361C>T	uc002veu.2	-	4	1372	c.1237G>A	c.(1237-1239)GCA>ACA	p.A413T	BARD1_uc010zjm.1_Missense_Mutation_p.A269T	NM_000465	NP_000456	Q99728	BARD1_HUMAN	BRCA1 associated RING domain 1	413					cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		AGCTTCATTGCTGAGGGACTA	0.403									Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				24	146	---	---	---	---	PASS	T	215645361	T	T	215645361	3	4	19	1	0	0	0	0	1	0	0	0	1312	797	28	3	1128	3	BARD1	2	215645361	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4142936	215645361	27554012	113	9282										
TTLL4	9654	broad.mit.edu	37	chr2	219602936	219602936	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cccatggcctcctcatccacAgaaccatacctctgcttggc	6	18	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:219602936A>C	uc002viy.2	+	3	907	c.537A>C	c.(535-537)ACA>ACC	p.T179T	TTLL4_uc010zkl.1_Silent_p.T14T|TTLL4_uc010fvx.2_Silent_p.T179T	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	179					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)		CCTCATCCACAGAACCATACC	0.567													72	147	---	---	---	---	PASS	C	219602936	C	C	219602936	2	2	19	1	0	0	0	0	0	0	0	1	16726	175	7	5		5	TTLL4	2	219602936	Silent	SNP	A	TCGA-21-1070-01A-01D-1521-08	3957575	219602936	23596437	114	9283										
DNAJB2	3300	broad.mit.edu	37	chr2	220144589	220144589	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acgagatcctagacgtgccgCgaagtgcgtccgctgatgac	13	12	0	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:220144589C>G	uc002vkx.1	+	2	271	c.34C>G	c.(34-36)CGA>GGA	p.R12G	DNAJB2_uc010zla.1_Missense_Mutation_p.R12G|DNAJB2_uc002vkw.1_Missense_Mutation_p.R12G|DNAJB2_uc002vky.2_5'Flank|DNAJB2_uc010zlb.1_5'Flank	NM_006736	NP_006727	P25686	DNJB2_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 2	12	J.				ER-associated protein catabolic process|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of inclusion body assembly|negative regulation of protein deubiquitination|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding|response to unfolded protein	inclusion body	heat shock protein binding|Hsp70 protein binding|polyubiquitin binding|proteasome binding|protein binding|unfolded protein binding				0		Renal(207;0.0474)		Epithelial(149;1.97e-06)|all cancers(144;0.00028)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGACGTGCCGCGAAGTGCGTC	0.587													6	65	---	---	---	---	PASS	G	220144589	G	G	220144589	3	3	19	1	0	0	0	0	1	0	0	0	4620	760	27	4	36	4	DNAJB2	2	220144589	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	541653	220144589	23054784	115	9284										
MLPH	79083	broad.mit.edu	37	chr2	238461036	238461036	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	accgaggctcgctgacacagAgaaaccccaacgcgaggaaa	11	13	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:238461036A>T	uc002vwt.2	+	15	1959	c.1732A>T	c.(1732-1734)AGA>TGA	p.R578*	MLPH_uc002vws.2_Nonsense_Mutation_p.R435*|MLPH_uc002vwu.2_Nonsense_Mutation_p.R550*|MLPH_uc002vwv.2_Nonsense_Mutation_p.R458*|MLPH_uc002vww.2_Nonsense_Mutation_p.R474*|MLPH_uc002vwx.2_Nonsense_Mutation_p.R434*|MLPH_uc010fyu.2_Nonsense_Mutation_p.R330*	NM_024101	NP_077006	Q9BV36	MELPH_HUMAN	melanophilin isoform 1	578							metal ion binding			ovary(1)	1		Breast(86;0.000381)|Renal(207;0.000966)|Ovarian(221;0.0695)|all_hematologic(139;0.095)|all_lung(227;0.17)|Melanoma(123;0.203)		Epithelial(121;1.17e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.02e-10)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.15e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000439)|Lung(119;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0316)		GCTGACACAGAGAAACCCCAA	0.458													16	79	---	---	---	---	PASS	T	238461036	T	T	238461036	4	4	19	1	0	0	0	0	0	1	0	0	9633	296	11	5	1786	5	MLPH	2	238461036	Nonsense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	18316447	238461036	4738337	116	9285										
C2orf85	285093	broad.mit.edu	37	chr2	242815303	242815303	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gacgagcgccctggccgtgcCtgccgtaggccgcacgccga	15	17	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr2:242815303C>T	uc010fzu.1	+	2	1619	c.1596C>T	c.(1594-1596)GCC>GCT	p.A532A		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	532						integral to membrane				ovary(1)	1						CTGGCCGTGCCTGCCGTAGGC	0.647													63	116	---	---	---	---	PASS	T	242815303	T	T	242815303	2	4	19	1	0	0	0	0	0	0	0	1	2200	668	24	3		3	C2orf85	2	242815303	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	4354267	242815303	384070	117	9286										
BRPF1	7862	broad.mit.edu	37	chr3	9788954	9788954	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	caacatccgcaagtcagtacAgatcgcctaccacagggctc	8	15	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:9788954A>T	uc003bse.2	+	14	3965	c.3566A>T	c.(3565-3567)CAG>CTG	p.Q1189L	BRPF1_uc003bsf.2_Missense_Mutation_p.Q1195L|BRPF1_uc003bsg.2_Missense_Mutation_p.Q1188L|BRPF1_uc011ati.1_Missense_Mutation_p.Q1094L|OGG1_uc003bsh.2_5'Flank|OGG1_uc003bsi.2_5'Flank|OGG1_uc003bsj.2_5'Flank|OGG1_uc003bsk.2_5'Flank|OGG1_uc003bsl.2_5'Flank|OGG1_uc003bsm.2_5'Flank|OGG1_uc003bsn.2_5'Flank|OGG1_uc003bso.2_5'Flank	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	1189					histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					AAGTCAGTACAGATCGCCTAC	0.577													69	133	---	---	---	---	PASS	T	9788954	T	T	9788954	3	4	19	1	0	0	0	0	1	0	0	0	1520	188	7	5	3634	5	BRPF1	3	9788954	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08		9788954	188233476	118	9287										
ALS2CL	259173	broad.mit.edu	37	chr3	46728560	46728560	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggtggagggcctggcccagCgatgcgcccaccgagccctc	15	16	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:46728560C>A	uc003cqa.1	-	5	637	c.447G>T	c.(445-447)TCG>TCT	p.S149S	ALS2CL_uc003cqb.1_Silent_p.S149S|ALS2CL_uc003cqc.1_RNA	NM_147129	NP_667340	Q60I27	AL2CL_HUMAN	ALS2 C-terminal like isoform 1	149					endosome organization|regulation of Rho protein signal transduction		GTPase activator activity|identical protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)|central_nervous_system(2)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000726)|KIRC - Kidney renal clear cell carcinoma(197;0.0171)|Kidney(197;0.0202)		CCTGGCCCAGCGATGCGCCCA	0.682													5	7	---	---	---	---	PASS	A	46728560	A	A	46728560	2	1	19	1	0	0	0	0	0	0	0	1	551	755	27	1		1	ALS2CL	3	46728560	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	36939606	46728560	151293870	119	9288										
DHX30	22907	broad.mit.edu	37	chr3	47882519	47882519	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagctgaatccagagagtatTcgaccagggggacctggggg	16	9	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:47882519T>G	uc003cru.2	+	7	945	c.519T>G	c.(517-519)ATT>ATG	p.I173M	DHX30_uc003crs.2_Missense_Mutation_p.I134M|DHX30_uc003crt.2_Missense_Mutation_p.I134M|DHX30_uc010hjr.1_Missense_Mutation_p.I201M	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	173						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		CAGAGAGTATTCGACCAGGGG	0.602													22	41	---	---	---	---	PASS	G	47882519	G	G	47882519	3	3	19	1	0	0	0	0	1	0	0	0	4504	1771	62	5	548	5	DHX30	3	47882519	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	1153959	47882519	150139911	120	9289										
RRP9	9136	broad.mit.edu	37	chr3	51970535	51970535	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cggcacccttcttggctcgaGgaatcacatgcagcttccgt	10	14	2	0	rs146452464	byFrequency	TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:51970535G>A	uc003dbw.1	-	7	593	c.554C>T	c.(553-555)CCT>CTT	p.P185L		NM_004704	NP_004695	O43818	U3IP2_HUMAN	RNA, U3 small nucleolar interacting protein 2	185					rRNA processing	nucleolus|small nuclear ribonucleoprotein complex|small nucleolar ribonucleoprotein complex	RNA binding			breast(2)|ovary(1)	3				BRCA - Breast invasive adenocarcinoma(193;8.04e-05)|Kidney(197;0.000553)|KIRC - Kidney renal clear cell carcinoma(197;0.000724)		CTTGGCTCGAGGAATCACATG	0.637													26	52	---	---	---	---	PASS	A	51970535	A	A	51970535	3	1	19	1	0	0	0	0	1	0	0	0	13691	1000	35	3	909	3	RRP9	3	51970535	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	4088016	51970535	146051895	121	9290										
CADM2	253559	broad.mit.edu	37	chr3	86010798	86010798	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atatgttctcattgtgcatgGtgagtaaattttggaaaaca	9	4	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:86010798G>T	uc003dqj.2	+	7	1569	c.943_splice	c.e7+1	p.D315_splice	CADM2_uc003dqk.2_Splice_Site_p.D324_splice|CADM2_uc003dql.2_Splice_Site_p.D317_splice	NM_153184	NP_694854	Q8N3J6	CADM2_HUMAN	immunoglobulin superfamily, member 4D						adherens junction organization|cell junction assembly	integral to membrane|plasma membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4		Lung NSC(201;0.0148)		LUSC - Lung squamous cell carcinoma(29;0.000815)|Lung(72;0.00304)|BRCA - Breast invasive adenocarcinoma(55;0.156)|Epithelial(33;0.157)		ATTGTGCATGGTGAGTAAATT	0.328													55	86	---	---	---	---	PASS	T	86010798	T	T	86010798	5	4	19	1	0	0	0	0	0	0	1	0	2567	1275	44	3	1041	3	CADM2	3	86010798	Splice_Site	SNP	G	TCGA-21-1070-01A-01D-1521-08	34040263	86010798	112011632	122	9291										
OR5H14	403273	broad.mit.edu	37	chr3	97868594	97868594	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggcaacaatggcatatgatcGctatgtagccatatgcaaac	9	9	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:97868594G>A	uc003dsg.1	+	1	365	c.365G>A	c.(364-366)CGC>CAC	p.R122H		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GCATATGATCGCTATGTAGCC	0.398													8	76	---	---	---	---	PASS	A	97868594	A	A	97868594	3	1	19	1	0	0	0	0	1	0	0	0	11160	1087	38	1	367	1	OR5H14	3	97868594	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	11857796	97868594	100153836	123	9292										
DCBLD2	131566	broad.mit.edu	37	chr3	98600525	98600525	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acggatctcccattcacaaaCagtgctgttgggataggtct	10	10	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:98600525C>A	uc003dtd.2	-	2	655	c.292G>T	c.(292-294)GTT>TTT	p.V98F	DCBLD2_uc003dte.2_Missense_Mutation_p.V98F|DCBLD2_uc003dtf.1_RNA	NM_080927	NP_563615	Q96PD2	DCBD2_HUMAN	discoidin, CUB and LCCL domain containing 2	98	Extracellular (Potential).|CUB.				cell adhesion|intracellular receptor mediated signaling pathway|negative regulation of cell growth|wound healing	cell surface|integral to plasma membrane				ovary(2)|central_nervous_system(1)	3						CATTCACAAACAGTGCTGTTG	0.418													81	286	---	---	---	---	PASS	A	98600525	A	A	98600525	3	1	19	1	0	0	0	0	1	0	0	0	4281	478	17	3	2095	3	DCBLD2	3	98600525	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	731931	98600525	99421905	124	9293										
BBX	56987	broad.mit.edu	37	chr3	107447613	107447613	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tctgtcgttttatttatagtAtaaggatgcatttatgaaag	8	3	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:107447613A>G	uc010hpr.2	+	6	734	c.407A>G	c.(406-408)TAT>TGT	p.Y136C	BBX_uc003dwk.3_Missense_Mutation_p.Y136C|BBX_uc003dwl.3_Missense_Mutation_p.Y136C|BBX_uc010hps.1_Missense_Mutation_p.Y157C|BBX_uc003dwm.3_Missense_Mutation_p.Y136C	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	136	HMG box.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			TATTTATAGTATAAGGATGCA	0.378													72	202	---	---	---	---	PASS	G	107447613	G	G	107447613	3	3	19	1	0	0	0	0	1	0	0	0	1343	463	16	5	417	5	BBX	3	107447613	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	8847088	107447613	90574817	125	9294										
MYH15	22989	broad.mit.edu	37	chr3	108133227	108133227	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atactgctctcgtagaaggtCacagtcacgctgagccttct	9	12	4	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:108133227C>A	uc003dxa.1	-	31	4114	c.4057G>T	c.(4057-4059)GAC>TAC	p.D1353Y		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1353	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CGTAGAAGGTCACAGTCACGC	0.507													25	79	---	---	---	---	PASS	A	108133227	A	A	108133227	3	1	19	1	0	0	0	0	1	0	0	0	10034	826	29	2	1831	2	MYH15	3	108133227	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	685614	108133227	89889203	126	9295										
BTLA	151888	broad.mit.edu	37	chr3	112198582	112198582	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atggagtgttcagattgtctCtttatataaagctgtacatc	8	6	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:112198582C>A	uc003dza.3	-	2	326	c.123G>T	c.(121-123)AAG>AAT	p.K41N	BTLA_uc003dzb.3_Missense_Mutation_p.K41N	NM_181780	NP_861445	Q7Z6A9	BTLA_HUMAN	B and T lymphocyte associated isoform 1	41	Extracellular (Potential).				T cell costimulation		receptor activity				0		Acute lymphoblastic leukemia(4;1.34e-07)|all_hematologic(4;0.000361)				CAGATTGTCTCTTTATATAAA	0.368													43	118	---	---	---	---	PASS	A	112198582	A	A	112198582	3	1	19	1	0	0	0	0	1	0	0	0	1558	912	32	2	762	2	BTLA	3	112198582	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4065355	112198582	85823848	127	9296										
GRAMD1C	54762	broad.mit.edu	37	chr3	113652396	113652396	+	Missense_Mutation	SNP	G	T	T													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cgggaagcacgattttatttGgtagattcagaagtactgac							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:113652396G>T	uc003eaq.3	+	12	1324	c.1248G>T	c.(1246-1248)TTG>TTT	p.L416F	GRAMD1C_uc011bil.1_RNA|GRAMD1C_uc011bim.1_RNA|GRAMD1C_uc003ear.2_Missense_Mutation_p.L249F|GRAMD1C_uc003eas.2_Missense_Mutation_p.L211F|GRAMD1C_uc003eat.2_Missense_Mutation_p.L75F	NM_017577	NP_060047	Q8IYS0	GRM1C_HUMAN	GRAM domain containing 1C	416						integral to membrane				ovary(2)|skin(1)	3						GATTTTATTTGGTAGATTCAG	0.358													59	193	---	---	---	---	PASS	T	113652396	T	T	113652396	3	4	19	1	0	0	0	0	1	0	0	0	6749	1339	47	3	1294	3	GRAMD1C	3	113652396	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1453814	113652396	84370034	128	9297	271	2								
GRAMD1C	54762	broad.mit.edu	37	chr3	113652397	113652397	+	Missense_Mutation	SNP	G	T	T													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gggaagcacgattttatttgGtagattcagaagtactgaca							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:113652397G>T	uc003eaq.3	+	12	1325	c.1249G>T	c.(1249-1251)GTA>TTA	p.V417L	GRAMD1C_uc011bil.1_RNA|GRAMD1C_uc011bim.1_RNA|GRAMD1C_uc003ear.2_Missense_Mutation_p.V250L|GRAMD1C_uc003eas.2_Missense_Mutation_p.V212L|GRAMD1C_uc003eat.2_Missense_Mutation_p.V76L	NM_017577	NP_060047	Q8IYS0	GRM1C_HUMAN	GRAM domain containing 1C	417						integral to membrane				ovary(2)|skin(1)	3						ATTTTATTTGGTAGATTCAGA	0.358													59	194	---	---	---	---	PASS	T	113652397	T	T	113652397	3	4	19	1	0	0	0	0	1	0	0	0	6749	1261	44	3	1295	3	GRAMD1C	3	113652397	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1	113652397	84370033	129	9298	271	2								
LSAMP	4045	broad.mit.edu	37	chr3	115738364	115738364	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acctggagtattgcttaccaGttggtgtaaggtgtctccag	12	8	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:115738364G>T	uc003ebt.2	-	3	1012	c.512C>A	c.(511-513)ACT>AAT	p.T171N	LSAMP_uc011bis.1_Missense_Mutation_p.T171N	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein	171	Ig-like C2-type 2.				cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)		TTGCTTACCAGTTGGTGTAAG	0.458													20	77	---	---	---	---	PASS	T	115738364	T	T	115738364	3	4	19	1	0	0	0	0	1	0	0	0	9048	1029	36	3	524	3	LSAMP	3	115738364	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2085967	115738364	82284066	130	9299										
IGSF11	152404	broad.mit.edu	37	chr3	118621725	118621725	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gactgttgtaggcattggaaGaggttagtgtgttgttgtcc	15	4	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:118621725G>A	uc003ebw.2	-	7	1185	c.938C>T	c.(937-939)TCT>TTT	p.S313F	IGSF11_uc011biv.1_Missense_Mutation_p.S285F|IGSF11_uc003ebx.2_Missense_Mutation_p.S289F|IGSF11_uc003eby.2_Missense_Mutation_p.S312F|IGSF11_uc003ebz.2_Missense_Mutation_p.S288F|IGSF11_uc010hqs.2_Missense_Mutation_p.S312F	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	313	Cytoplasmic (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						GGCATTGGAAGAGGTTAGTGT	0.438													45	208	---	---	---	---	PASS	A	118621725	A	A	118621725	3	1	19	1	0	0	0	0	1	0	0	0	7598	942	33	2	361	2	IGSF11	3	118621725	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2883361	118621725	79400705	131	9300										
CASR	846	broad.mit.edu	37	chr3	121980430	121980430	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	caagaatcaattcaagtcttTcctccgaaccatccccaatg	4	14	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:121980430T>A	uc003eev.3	+	4	920	c.548T>A	c.(547-549)TTC>TAC	p.F183Y	CASR_uc003eew.3_Missense_Mutation_p.F183Y	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	183	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	TTCAAGTCTTTCCTCCGAACC	0.453													93	271	---	---	---	---	PASS	A	121980430	A	A	121980430	3	1	19	1	0	0	0	0	1	0	0	0	2682	1783	62	5	558	5	CASR	3	121980430	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	3358705	121980430	76042000	132	9301										
KBTBD12	166348	broad.mit.edu	37	chr3	127648994	127648994	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agatggatcttcctgatgaaGaacctgatcgattaagcaac	9	8	1	5			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:127648994G>A	uc010hsr.2	+	3	1363	c.1360G>A	c.(1360-1362)GAA>AAA	p.E454K	KBTBD12_uc003ejy.3_Missense_Mutation_p.E61K|KBTBD12_uc010hsq.2_Intron|KBTBD12_uc003eka.3_Missense_Mutation_p.E29K	NM_207335	NP_997218	Q3ZCT8	KBTBC_HUMAN	kelch domain containing 6	454	Kelch 2.									ovary(1)	1						TCCTGATGAAGAACCTGATCG	0.393													9	22	---	---	---	---	PASS	A	127648994	A	A	127648994	3	1	19	1	0	0	0	0	1	0	0	0	7991	943	33	2	1370	2	KBTBD12	3	127648994	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	5668564	127648994	70373436	133	9302										
PIK3R4	30849	broad.mit.edu	37	chr3	130437364	130437364	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acgtatccataaattgggatGacacaggaagggggctaaag	13	6	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:130437364G>A	uc003enj.2	-	8	2577	c.1996C>T	c.(1996-1998)CAT>TAT	p.H666Y		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	666					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						AAATTGGGATGACACAGGAAG	0.383													41	137	---	---	---	---	PASS	A	130437364	A	A	130437364	3	1	19	1	0	0	0	0	1	0	0	0	11921	1290	45	2	2132	2	PIK3R4	3	130437364	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2788370	130437364	67585066	134	9303										
TMEM108	66000	broad.mit.edu	37	chr3	133098644	133098644	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agcgctggcatttgccatccAggaaccatctcccagggaat	10	13	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:133098644A>G	uc003eph.2	+	4	363	c.89A>G	c.(88-90)CAG>CGG	p.Q30R	TMEM108_uc003epi.2_Missense_Mutation_p.Q30R|TMEM108_uc003epj.1_Missense_Mutation_p.Q30R|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_5'UTR	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	30	Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						TTTGCCATCCAGGAACCATCT	0.537													165	631	---	---	---	---	PASS	G	133098644	G	G	133098644	3	3	19	1	0	0	0	0	1	0	0	0	16021	188	7	5	95	5	TMEM108	3	133098644	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	2661280	133098644	64923786	135	9304										
CP	1356	broad.mit.edu	37	chr3	148928125	148928125	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcctggatatactttgtcatCtgctctttgaaaatctgtgg	8	8	4	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:148928125C>A	uc003ewy.3	-	3	689	c.436G>T	c.(436-438)GAT>TAT	p.D146Y	CP_uc011bnr.1_RNA|CP_uc003ewx.3_5'Flank|CP_uc003ewz.2_Missense_Mutation_p.D146Y|CP_uc010hvf.1_5'Flank	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	146	F5/8 type A 1.|Plastocyanin-like 1.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	ACTTTGTCATCTGCTCTTTGA	0.418													67	161	---	---	---	---	PASS	A	148928125	A	A	148928125	3	1	19	1	0	0	0	0	1	0	0	0	3787	913	32	2	2829	2	CP	3	148928125	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	15829481	148928125	49094305	136	9305										
GOLIM4	27333	broad.mit.edu	37	chr3	167750315	167750315	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggtgacttcatacctcagcaCgcgcgtgcccttccaggagg	12	14	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:167750315C>A	uc003ffe.2	-	9	1513	c.1169G>T	c.(1168-1170)CGT>CTT	p.R390L	GOLIM4_uc011bpe.1_Missense_Mutation_p.R390L|GOLIM4_uc011bpf.1_Missense_Mutation_p.R362L|GOLIM4_uc011bpg.1_Missense_Mutation_p.R362L	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	390	Glu-rich.|Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						TACCTCAGCACGCGCGTGCCC	0.483													124	741	---	---	---	---	PASS	A	167750315	A	A	167750315	3	1	19	1	0	0	0	0	1	0	0	0	6566	536	19	1	953	1	GOLIM4	3	167750315	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	18822190	167750315	30272115	137	9306										
LRRIQ4	344657	broad.mit.edu	37	chr3	169539958	169539958	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tacctggataagaacaacctGaggagcctgtgcccggcgct	12	12	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:169539958G>T	uc003fgb.2	+	1	249	c.249G>T	c.(247-249)CTG>CTT	p.L83L		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	83	LRR 3.										0						AGAACAACCTGAGGAGCCTGT	0.527													363	216	---	---	---	---	PASS	T	169539958	T	T	169539958	2	4	19	1	0	0	0	0	0	0	0	1	9031	1277	45	2		2	LRRIQ4	3	169539958	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	1789643	169539958	28482472	138	9307										
LRRIQ4	344657	broad.mit.edu	37	chr3	169548372	169548372	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctagaagttcttgattgccgGcacaatttgcttaagcaact	8	9	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:169548372G>A	uc003fgb.2	+	3	1287	c.1287G>A	c.(1285-1287)CGG>CGA	p.R429R		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	429	LRR 18.										0						TTGATTGCCGGCACAATTTGC	0.443													20	119	---	---	---	---	PASS	A	169548372	A	A	169548372	2	1	19	1	0	0	0	0	0	0	0	1	9031	1190	42	3		3	LRRIQ4	3	169548372	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	8414	169548372	28474058	139	9308										
GNB4	59345	broad.mit.edu	37	chr3	179119032	179119032	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttctaagaaaactgtcccaaGagcctgttgccacagccatg	8	12	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:179119032G>T	uc003fjv.3	-	10	1272	c.992C>A	c.(991-993)TCT>TAT	p.S331Y	GNB4_uc003fju.3_3'UTR	NM_021629	NP_067642	Q9HAV0	GBB4_HUMAN	guanine nucleotide-binding protein, beta-4	331	WD 7.				cellular response to glucagon stimulus|energy reserve metabolic process	plasma membrane	signal transducer activity			skin(2)	2	all_cancers(143;2.01e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.237)			ACTGTCCCAAGAGCCTGTTGC	0.398													33	142	---	---	---	---	PASS	T	179119032	T	T	179119032	3	4	19	1	0	0	0	0	1	0	0	0	6520	942	33	2	34	2	GNB4	3	179119032	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	9570660	179119032	18903398	140	9309										
ACTL6A	86	broad.mit.edu	37	chr3	179292256	179292256	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aaaactgcagttttgacagcGtatccttgaaagagtaatac	8	7	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:179292256G>T	uc003fjw.2	+	5	649	c.476_splice	c.e5+1	p.A159_splice	ACTL6A_uc003fjx.2_Splice_Site_p.A117_splice|ACTL6A_uc003fjy.2_Splice_Site_p.A117_splice	NM_004301	NP_004292	O96019	ACL6A_HUMAN	actin-like 6A isoform 1						chromatin remodeling|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|nervous system development|regulation of growth|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	Ino80 complex|npBAF complex|NuA4 histone acetyltransferase complex|plasma membrane|SWI/SNF complex	ATP binding|chromatin binding			ovary(1)	1	all_cancers(143;3.94e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)			TTTTGACAGCGTATCCTTGAA	0.388													100	557	---	---	---	---	PASS	T	179292256	T	T	179292256	5	4	19	1	0	0	0	0	0	0	1	0	198	1159	40	1	495	1	ACTL6A	3	179292256	Splice_Site	SNP	G	TCGA-21-1070-01A-01D-1521-08	173224	179292256	18730174	141	9310										
ETV5	2119	broad.mit.edu	37	chr3	185769884	185769884	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagcttgtcatagttcatggCtggccggttcttctggatgc	12	10	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:185769884C>A	uc003fpz.2	-	12	1493	c.1246G>T	c.(1246-1248)GCC>TCC	p.A416S	ETV5_uc003fpy.2_Missense_Mutation_p.A458S	NM_004454	NP_004445	P41161	ETV5_HUMAN	ets variant gene 5 (ets-related molecule)	416	ETS.				cellular response to oxidative stress	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|skin(2)|breast(1)	5	all_cancers(143;4.06e-12)|Ovarian(172;0.0386)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.62e-24)			TAGTTCATGGCTGGCCGGTTC	0.532			T	TMPRSS2|SCL45A3	Prostate 								82	111	---	---	---	---	PASS	A	185769884	A	A	185769884	3	1	19	1	0	0	0	0	1	0	0	0	5282	797	28	3	294	3	ETV5	3	185769884	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	6477628	185769884	12252546	142	9311										
KNG1	3827	broad.mit.edu	37	chr3	186440291	186440291	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aaattctccgtggctacccaGacctgccagattactccagg	8	14	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr3:186440291G>T	uc011bsa.1	+	3	584	c.372G>T	c.(370-372)CAG>CAT	p.Q124H	KNG1_uc003fqr.2_Missense_Mutation_p.Q124H	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	124	Cystatin 1.|O-glycosylated at one site only.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	TGGCTACCCAGACCTGCCAGA	0.493													19	35	---	---	---	---	PASS	T	186440291	T	T	186440291	3	4	19	1	0	0	0	0	1	0	0	0	8427	933	33	2	382	2	KNG1	3	186440291	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	670407	186440291	11582139	143	9312										
OTOP1	133060	broad.mit.edu	37	chr4	4198988	4198988	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gggaaggcggactgggcttgGgctccctccccagctgctct	15	14	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:4198988G>T	uc003ghp.1	-	5	1603	c.1573C>A	c.(1573-1575)CCA>ACA	p.P525T		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	525					biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		ACTGGGCTTGGGCTCCCTCCC	0.537													44	72	---	---	---	---	PASS	T	4198988	T	T	4198988	3	4	19	1	0	0	0	0	1	0	0	0	11305	1232	43	3	273	3	OTOP1	4	4198988	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08		4198988	186955288	144	9313										
ZBTB49	166793	broad.mit.edu	37	chr4	4304612	4304612	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	taccctagagaaagctagcaGccaaagtgctgaagaaaaag	10	8	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:4304612G>T	uc003ghu.2	+	3	1224	c.1049G>T	c.(1048-1050)AGC>ATC	p.S350I	ZBTB49_uc003ghv.2_5'UTR|ZBTB49_uc010icy.2_RNA|ZBTB49_uc010icz.2_Missense_Mutation_p.S50I	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	350					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						AAAGCTAGCAGCCAAAGTGCT	0.438													35	51	---	---	---	---	PASS	T	4304612	T	T	4304612	3	4	19	1	0	0	0	0	1	0	0	0	17547	971	34	3	1055	3	ZBTB49	4	4304612	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	105624	4304612	186849664	145	9314										
EVC2	132884	broad.mit.edu	37	chr4	5624376	5624376	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gacaccctcctggtccctgtCcctctcctccccctccagct	5	23	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:5624376C>A	uc003gij.2	-	14	2443	c.2389G>T	c.(2389-2391)GAC>TAC	p.D797Y	EVC2_uc011bwb.1_Missense_Mutation_p.D237Y|EVC2_uc003gik.2_Missense_Mutation_p.D717Y	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	797	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						TGGTCCCTGTCCCTCTCCTCC	0.662													18	53	---	---	---	---	PASS	A	5624376	A	A	5624376	3	1	19	1	0	0	0	0	1	0	0	0	5286	855	30	2	1573	2	EVC2	4	5624376	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1319764	5624376	185529900	146	9315										
SLIT2	9353	broad.mit.edu	37	chr4	20555464	20555464	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cctctttactgtgattgtaaCatgcagtggttatccgactg	9	9	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:20555464C>A	uc003gpr.1	+	26	2802	c.2598C>A	c.(2596-2598)AAC>AAA	p.N866K	SLIT2_uc003gps.1_Missense_Mutation_p.N858K	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	866	LRRCT 4.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GTGATTGTAACATGCAGTGGT	0.358													44	95	---	---	---	---	PASS	A	20555464	A	A	20555464	3	1	19	1	0	0	0	0	1	0	0	0	14740	477	17	3	2700	3	SLIT2	4	20555464	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	14931088	20555464	170598812	147	9316										
KCNIP4	80333	broad.mit.edu	37	chr4	21305524	21305524	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atcatttcaagcccttccaaGttcatggtcagctaggtcat	7	11	5	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:21305524G>C	uc003gqf.1	-	1	6	c.6C>G	c.(4-6)AAC>AAG	p.N2K	KCNIP4_uc003gqg.1_Intron|KCNIP4_uc003gqh.1_Intron|KCNIP4_uc003gqi.1_Intron	NM_147183	NP_671712	Q6PIL6	KCIP4_HUMAN	Kv channel interacting protein 4 isoform 4	Error:Variant_position_missing_in_Q6PIL6_after_alignment						plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)				GCCCTTCCAAGTTCATGGTCA	0.433													22	42	---	---	---	---	PASS	C	21305524	C	C	21305524	3	2	19	1	0	0	0	0	1	0	0	0	8042	1020	36	4	823	4	KCNIP4	4	21305524	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	750060	21305524	169848752	148	9317										
TLR1	7096	broad.mit.edu	37	chr4	38798565	38798565	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctggagatttctttggagttCttctaagggtatgttcctgg	12	6	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:38798565C>A	uc003gtl.2	-	4	2162	c.1888G>T	c.(1888-1890)GAA>TAA	p.E630*		NM_003263	NP_003254	Q15399	TLR1_HUMAN	toll-like receptor 1 precursor	630	Cytoplasmic (Potential).				cellular response to triacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|inflammatory response|innate immune response|macrophage activation|positive regulation of interleukin-6 biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	integral to plasma membrane|phagocytic vesicle membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	protein heterodimerization activity|transmembrane receptor activity			lung(2)|skin(2)|prostate(1)	5						CTTTGGAGTTCTTCTAAGGGT	0.483													91	165	---	---	---	---	PASS	A	38798565	A	A	38798565	4	1	19	1	0	0	0	0	0	1	0	0	15946	922	32	2	476	2	TLR1	4	38798565	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	17493041	38798565	152355711	149	9318										
SLC4A4	8671	broad.mit.edu	37	chr4	72121047	72121047	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aggaaaaggagagaatctctGagaactactctgacaaatca	9	7	3	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:72121047G>T	uc003hfy.2	+	3	301	c.184G>T	c.(184-186)GAG>TAG	p.E62*	SLC4A4_uc010iic.2_Nonsense_Mutation_p.E62*|SLC4A4_uc010iib.2_Nonsense_Mutation_p.E62*|SLC4A4_uc003hfz.2_Nonsense_Mutation_p.E62*|SLC4A4_uc003hga.2_5'UTR	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	62	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			GAGAATCTCTGAGAACTACTC	0.448													59	116	---	---	---	---	PASS	T	72121047	T	T	72121047	4	4	19	1	0	0	0	0	0	1	0	0	14656	1291	45	2	190	2	SLC4A4	4	72121047	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	33322482	72121047	119033229	150	9319										
PTPN13	5783	broad.mit.edu	37	chr4	87622436	87622436	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	actagacatacaaaagcctcCactctctcatcagacctttc	3	15	3	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:87622436C>T	uc003hpz.2	+	7	1157	c.677C>T	c.(676-678)CCA>CTA	p.P226L	PTPN13_uc003hpy.2_Missense_Mutation_p.P226L|PTPN13_uc003hqa.2_Missense_Mutation_p.P226L|PTPN13_uc003hqb.2_Missense_Mutation_p.P226L	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	226						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		CAAAAGCCTCCACTCTCTCAT	0.338													9	28	---	---	---	---	PASS	T	87622436	T	T	87622436	3	4	19	1	0	0	0	0	1	0	0	0	12782	594	21	3	699	3	PTPN13	4	87622436	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	15501389	87622436	103531840	151	9320										
ENPEP	2028	broad.mit.edu	37	chr4	111470932	111470932	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atgcagaactctggcaatgaGatttcatggaactacactct	8	9	3	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:111470932G>T	uc003iab.3	+	17	2733	c.2391G>T	c.(2389-2391)GAG>GAT	p.E797D		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	797	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	CTGGCAATGAGATTTCATGGA	0.403													47	122	---	---	---	---	PASS	T	111470932	T	T	111470932	3	4	19	1	0	0	0	0	1	0	0	0	5128	933	33	2	2457	2	ENPEP	4	111470932	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	23848496	111470932	79683344	152	9321										
ALPK1	80216	broad.mit.edu	37	chr4	113353197	113353197	+	Missense_Mutation	SNP	T	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggcctgttcaaaatcctgacTccagaaaaagtggtggccca							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:113353197T>A	uc003iap.3	+	11	2773	c.2494T>A	c.(2494-2496)TCC>ACC	p.S832T	ALPK1_uc003ian.3_Missense_Mutation_p.S832T|ALPK1_uc011cfx.1_Missense_Mutation_p.S754T|ALPK1_uc003iao.3_Intron|ALPK1_uc010imo.2_Missense_Mutation_p.S660T	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	832							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		AAATCCTGACTCCAGAAAAAG	0.537													19	33	---	---	---	---	PASS	A	113353197	A	A	113353197	3	1	19	1	0	0	0	0	1	0	0	0	544	1551	54	5	2528	5	ALPK1	4	113353197	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	1882265	113353197	77801079	153	9322	272	2								
ALPK1	80216	broad.mit.edu	37	chr4	113353198	113353198	+	Missense_Mutation	SNP	C	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcctgttcaaaatcctgactCcagaaaaagtggtggcccag							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:113353198C>A	uc003iap.3	+	11	2774	c.2495C>A	c.(2494-2496)TCC>TAC	p.S832Y	ALPK1_uc003ian.3_Missense_Mutation_p.S832Y|ALPK1_uc011cfx.1_Missense_Mutation_p.S754Y|ALPK1_uc003iao.3_Intron|ALPK1_uc010imo.2_Missense_Mutation_p.S660Y	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	832							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		AATCCTGACTCCAGAAAAAGT	0.542													19	33	---	---	---	---	PASS	A	113353198	A	A	113353198	3	1	19	1	0	0	0	0	1	0	0	0	544	855	30	2	2529	2	ALPK1	4	113353198	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1	113353198	77801078	154	9323	272	2								
ANK2	287	broad.mit.edu	37	chr4	114120241	114120241	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aaagttcttgttaaggaaggAgccaatattaatgcacagtc	9	6	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:114120241A>T	uc003ibe.3	+	4	460	c.360A>T	c.(358-360)GGA>GGT	p.G120G	ANK2_uc003ibd.3_Silent_p.G99G|ANK2_uc003ibf.3_Silent_p.G120G|ANK2_uc003ibc.2_Silent_p.G96G|ANK2_uc011cgb.1_Silent_p.G135G	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	120	ANK 3.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TTAAGGAAGGAGCCAATATTA	0.343													31	67	---	---	---	---	PASS	T	114120241	T	T	114120241	2	4	19	1	0	0	0	0	0	0	0	1	621	291	11	5		5	ANK2	4	114120241	Silent	SNP	A	TCGA-21-1070-01A-01D-1521-08	767043	114120241	77034035	155	9324										
BBS7	55212	broad.mit.edu	37	chr4	122754443	122754443	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tctgaaagtaaaatgtcacaCattctcctgctggaggtttt	8	8	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:122754443C>T	uc003ied.2	-	15	1793	c.1619G>A	c.(1618-1620)TGT>TAT	p.C540Y	BBS7_uc003iee.1_Missense_Mutation_p.C540Y	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	540					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						AAATGTCACACATTCTCCTGC	0.388									Bardet-Biedl_syndrome				52	84	---	---	---	---	PASS	T	122754443	T	T	122754443	3	4	19	1	0	0	0	0	1	0	0	0	1341	478	17	3	553	3	BBS7	4	122754443	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	8634202	122754443	68399833	156	9325										
LRBA	987	broad.mit.edu	37	chr4	151336617	151336617	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tttatgtgaacaaattcttcTgaggttttggcccaaggagg	11	6	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:151336617T>C	uc010ipj.2	-	48	7674	c.7200A>G	c.(7198-7200)TCA>TCG	p.S2400S	LRBA_uc010ipi.2_Intron|LRBA_uc003ils.3_Silent_p.S290S|LRBA_uc003ilt.3_Silent_p.S1048S|LRBA_uc003ilu.3_Silent_p.S2389S	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2400	BEACH.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					CAAATTCTTCTGAGGTTTTGG	0.378													27	62	---	---	---	---	PASS	C	151336617	C	C	151336617	2	2	19	1	0	0	0	0	0	0	0	1	8931	1567	55	5		5	LRBA	4	151336617	Silent	SNP	T	TCGA-21-1070-01A-01D-1521-08	28582174	151336617	39817659	157	9326										
NPY2R	4887	broad.mit.edu	37	chr4	156135714	156135714	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggcctgtactgaaaagtggcCtggcgaggagaagagcatct	15	8	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:156135714C>T	uc003ioq.2	+	2	1118	c.623C>T	c.(622-624)CCT>CTT	p.P208L	NPY2R_uc003ior.2_Missense_Mutation_p.P208L	NM_000910	NP_000901	P49146	NPY2R_HUMAN	neuropeptide Y receptor Y2	208	Extracellular (Potential).				cardiac left ventricle morphogenesis|inhibition of adenylate cyclase activity by G-protein signaling pathway|locomotory behavior|outflow tract morphogenesis	integral to plasma membrane	calcium channel regulator activity			lung(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0854)				GAAAAGTGGCCTGGCGAGGAG	0.488													34	140	---	---	---	---	PASS	T	156135714	T	T	156135714	3	4	19	1	0	0	0	0	1	0	0	0	10609	681	24	3	625	3	NPY2R	4	156135714	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4799097	156135714	35018562	158	9327										
RXFP1	59350	broad.mit.edu	37	chr4	159533290	159533290	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctccttttccaggtatctcaGtcataacagaataaccttcc	4	13	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:159533290G>C	uc003ipz.2	+	7	627	c.545G>C	c.(544-546)AGT>ACT	p.S182T	RXFP1_uc010iqj.1_Missense_Mutation_p.S11T|RXFP1_uc011cja.1_Missense_Mutation_p.S101T|RXFP1_uc010iqo.2_Missense_Mutation_p.S182T|RXFP1_uc011cjb.1_Missense_Mutation_p.S128T|RXFP1_uc010iqk.2_Missense_Mutation_p.S50T|RXFP1_uc011cjc.1_Missense_Mutation_p.S101T|RXFP1_uc011cjd.1_Missense_Mutation_p.S101T|RXFP1_uc010iql.2_Missense_Mutation_p.S50T|RXFP1_uc011cje.1_Missense_Mutation_p.S209T|RXFP1_uc010iqm.2_Missense_Mutation_p.S149T|RXFP1_uc011cjf.1_Missense_Mutation_p.S52T|RXFP1_uc010iqn.2_Missense_Mutation_p.S128T	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	182	Extracellular (Potential).|LRR 2.					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		AGGTATCTCAGTCATAACAGA	0.299													15	151	---	---	---	---	PASS	C	159533290	C	C	159533290	3	2	19	1	0	0	0	0	1	0	0	0	13759	1029	36	4	571	4	RXFP1	4	159533290	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3397576	159533290	31620986	159	9328										
ANXA10	11199	broad.mit.edu	37	chr4	169102890	169102890	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atagattatatagtgcaattCatgtaagtaagacatatatt	6	3	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:169102890C>A	uc003irm.2	+	10	926	c.781C>A	c.(781-783)CAT>AAT	p.H261N	ANXA10_uc003irn.2_Missense_Mutation_p.H133N	NM_007193	NP_009124	Q9UJ72	ANX10_HUMAN	annexin A10	261	Annexin 4.						calcium ion binding|calcium-dependent phospholipid binding				0		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0325)		TAGTGCAATTCATGTAAGTAA	0.299													33	91	---	---	---	---	PASS	A	169102890	A	A	169102890	3	1	19	1	0	0	0	0	1	0	0	0	715	826	29	2	819	2	ANXA10	4	169102890	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	9569600	169102890	22051386	160	9329										
ADAM29	11086	broad.mit.edu	37	chr4	175898963	175898963	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttcccagagtcaacctcctGtgacaccctcccagagtcaa	6	17	2	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:175898963G>A	uc003iuc.2	+	5	2957	c.2287G>A	c.(2287-2289)GTG>ATG	p.V763M	ADAM29_uc003iud.2_Missense_Mutation_p.V763M|ADAM29_uc010irr.2_Missense_Mutation_p.V763M|ADAM29_uc011cki.1_Missense_Mutation_p.V763M	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	763	Cytoplasmic (Potential).|9 X 9 AA approximate repeats.|3.				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		TCAACCTCCTGTGACACCCTC	0.567													7	217	---	---	---	---	PASS	A	175898963	A	A	175898963	3	1	19	1	0	0	0	0	1	0	0	0	247	1377	48	3	2289	3	ADAM29	4	175898963	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	6796073	175898963	15255313	161	9330										
UFSP2	55325	broad.mit.edu	37	chr4	186336339	186336339	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcctgcagctggccatctggTattcctgaaggatatgaaat	11	9	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:186336339T>C	uc003ixo.2	-	6	771	c.654A>G	c.(652-654)ATA>ATG	p.I218M	UFSP2_uc003ixn.2_Missense_Mutation_p.I108M|UFSP2_uc003ixq.2_Missense_Mutation_p.I108M|UFSP2_uc003ixp.2_RNA	NM_018359	NP_060829	Q9NUQ7	UFSP2_HUMAN	UFM1-specific peptidase 2	218						endoplasmic reticulum|nucleus	small conjugating protein-specific protease activity				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;3.4e-25)|Epithelial(43;2.23e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;8.1e-05)|GBM - Glioblastoma multiforme(59;0.000148)|STAD - Stomach adenocarcinoma(60;0.000782)|LUSC - Lung squamous cell carcinoma(40;0.00939)|COAD - Colon adenocarcinoma(29;0.0108)|READ - Rectum adenocarcinoma(43;0.166)		GGCCATCTGGTATTCCTGAAG	0.323													4	104	---	---	---	---	PASS	C	186336339	C	C	186336339	3	2	19	1	0	0	0	0	1	0	0	0	16935	1628	57	5	783	5	UFSP2	4	186336339	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	10437376	186336339	4817937	162	9331										
TRIML2	205860	broad.mit.edu	37	chr4	189013004	189013004	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctttctgggttgccagccccAtcctgctgcccatgtctcaa	8	16	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr4:189013004A>G	uc003izl.2	-	7	723	c.687T>C	c.(685-687)GAT>GAC	p.D229D	TRIML2_uc003izj.1_Silent_p.D57D|TRIML2_uc003izk.1_Silent_p.D37D|TRIML2_uc011cle.1_Silent_p.D304D	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	229	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		TGCCAGCCCCATCCTGCTGCC	0.532													10	143	---	---	---	---	PASS	G	189013004	G	G	189013004	2	3	19	1	0	0	0	0	0	0	0	1	16548	214	8	5		5	TRIML2	4	189013004	Silent	SNP	A	TCGA-21-1070-01A-01D-1521-08	2676665	189013004	2141272	163	9332										
BRD9	65980	broad.mit.edu	37	chr5	878484	878484	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acttgcctcagcgcacactgCacgcctgtctcatctccgta	7	17	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:878484C>A	uc003jbq.2	-	11	1424	c.1257G>T	c.(1255-1257)GTG>GTT	p.V419V	BRD9_uc003jbl.2_Silent_p.V303V|BRD9_uc003jbm.2_RNA|BRD9_uc003jbn.2_RNA|BRD9_uc011cmb.1_Silent_p.V366V|BRD9_uc003jbo.2_Silent_p.V323V|BRD9_uc003jbp.2_Silent_p.V80V|BRD9_uc011cmc.1_RNA	NM_023924	NP_076413	Q9H8M2	BRD9_HUMAN	bromodomain containing 9 isoform 1	419							nucleic acid binding				0			Epithelial(17;0.00202)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00815)|Lung(60;0.185)			GCGCACACTGCACGCCTGTCT	0.592													26	296	---	---	---	---	PASS	A	878484	A	A	878484	2	1	19	1	0	0	0	0	0	0	0	1	1507	697	25	3		3	BRD9	5	878484	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08		878484	180036776	164	9333										
TRIP13	9319	broad.mit.edu	37	chr5	904320	904320	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gttagcccagaaattgacaaTtagactttcaagcaggtaac	8	8	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:904320T>G	uc003jbr.2	+	6	703	c.593T>G	c.(592-594)ATT>AGT	p.I198S	TRIP13_uc010ite.1_Missense_Mutation_p.I198S	NM_004237	NP_004228	Q15645	PCH2_HUMAN	thyroid hormone receptor interactor 13	198					double-strand break repair|reciprocal meiotic recombination|synaptonemal complex assembly|transcription from RNA polymerase II promoter		ATP binding|identical protein binding|nucleoside-triphosphatase activity|transcription cofactor activity				0			Epithelial(17;0.00147)|OV - Ovarian serous cystadenocarcinoma(19;0.00271)|all cancers(22;0.00622)|Lung(60;0.165)			AAATTGACAATTAGACTTTCA	0.383													123	132	---	---	---	---	PASS	G	904320	G	G	904320	3	3	19	1	0	0	0	0	1	0	0	0	16554	1493	52	5	615	5	TRIP13	5	904320	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	25836	904320	180010940	165	9334										
KIAA0947	23379	broad.mit.edu	37	chr5	5463893	5463893	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	actggccctgcatttcaggaGgctccatgtggcaataatct	10	11	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:5463893G>A	uc003jdm.3	+	13	4668	c.4446G>A	c.(4444-4446)GAG>GAA	p.E1482E		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1482										ovary(1)|central_nervous_system(1)	2						CATTTCAGGAGGCTCCATGTG	0.498													144	170	---	---	---	---	PASS	A	5463893	A	A	5463893	2	1	19	1	0	0	0	0	0	0	0	1	8202	991	35	3		3	KIAA0947	5	5463893	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	4559573	5463893	175451367	166	9335										
FASTKD3	79072	broad.mit.edu	37	chr5	7867909	7867909	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	taaaacatctgactctcctcAtttttaacattttgttcaag	3	9	4	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:7867909A>C	uc003jeb.2	-	2	425	c.288T>G	c.(286-288)AAT>AAG	p.N96K	FASTKD3_uc011cmp.1_Intron|FASTKD3_uc003jec.2_Intron|MTRR_uc010itn.1_5'Flank|MTRR_uc003jee.3_5'Flank|MTRR_uc003jed.2_5'Flank|MTRR_uc003jef.3_5'Flank|MTRR_uc003jeg.3_5'Flank|MTRR_uc010ito.2_5'Flank	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	96					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						GACTCTCCTCATTTTTAACAT	0.413													28	167	---	---	---	---	PASS	C	7867909	C	C	7867909	3	2	19	1	0	0	0	0	1	0	0	0	5687	214	8	5	1724	5	FASTKD3	5	7867909	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	2404016	7867909	173047351	167	9336										
SEMA5A	9037	broad.mit.edu	37	chr5	9054296	9054296	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggattggagcaagagcgggtCctcatatagtgtccaccgcc	13	11	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:9054296C>A	uc003jek.2	-	19	3304	c.2592G>T	c.(2590-2592)AGG>AGT	p.R864S		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	864	TSP type-1 6.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						AAGAGCGGGTCCTCATATAGT	0.582													33	143	---	---	---	---	PASS	A	9054296	A	A	9054296	3	1	19	1	0	0	0	0	1	0	0	0	14037	854	30	2	652	2	SEMA5A	5	9054296	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1186387	9054296	171860964	168	9337										
CDH18	1016	broad.mit.edu	37	chr5	19473548	19473548	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gggtctaggtctgcttctgcCagtctttgcttaataaattc	9	9	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:19473548C>A	uc003jgc.2	-	12	2537	c.2160G>T	c.(2158-2160)CTG>CTT	p.L720L	CDH18_uc003jgd.2_Silent_p.L720L|CDH18_uc011cnm.1_3'UTR	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	720	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CTGCTTCTGCCAGTCTTTGCT	0.498													33	131	---	---	---	---	PASS	A	19473548	A	A	19473548	2	1	19	1	0	0	0	0	0	0	0	1	3103	581	21	3		3	CDH18	5	19473548	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	10419252	19473548	161441712	169	9338										
CDH18	1016	broad.mit.edu	37	chr5	19473613	19473613	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggatgatgtctggtgtctggGagtgagcttcacttcaggtc	15	7	4	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:19473613G>C	uc003jgc.2	-	12	2472	c.2095C>G	c.(2095-2097)CCC>GCC	p.P699A	CDH18_uc003jgd.2_Missense_Mutation_p.P699A|CDH18_uc011cnm.1_3'UTR	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	699	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TGGTGTCTGGGAGTGAGCTTC	0.502													46	193	---	---	---	---	PASS	C	19473613	C	C	19473613	3	2	19	1	0	0	0	0	1	0	0	0	3103	1174	41	2	281	2	CDH18	5	19473613	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	65	19473613	161441647	170	9339										
ZFR	51663	broad.mit.edu	37	chr5	32395264	32395264	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	attaaaagttaaagatattaCctcatttccattctccaacg	3	9	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:32395264C>T	uc003jhr.1	-	11	2059	c.1979_splice	c.e11+1	p.R660_splice	MIR579_hsa-mir-579|MI0003586_5'Flank	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein						multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		AAAGATATTACCTCATTTCCA	0.403													69	215	---	---	---	---	PASS	T	32395264	T	T	32395264	5	4	19	1	0	0	0	0	0	0	1	0	17656	521	18	3	1284	3	ZFR	5	32395264	Splice_Site	SNP	C	TCGA-21-1070-01A-01D-1521-08	12921651	32395264	148519996	171	9340										
IL7R	3575	broad.mit.edu	37	chr5	35867558	35867558	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgcaaaaaaatagacctaacCactataggtaagaagttgta	7	6	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:35867558C>A	uc003jjs.2	+	3	461	c.372C>A	c.(370-372)ACC>ACA	p.T124T	IL7R_uc011coo.1_Silent_p.T124T|IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	124	Extracellular (Potential).				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			TAGACCTAACCACTATAGGTA	0.343													24	86	---	---	---	---	PASS	A	35867558	A	A	35867558	2	1	19	1	0	0	0	0	0	0	0	1	7705	581	21	3		3	IL7R	5	35867558	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	3472294	35867558	145047702	172	9341										
C9	735	broad.mit.edu	37	chr5	39306792	39306792	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agtcagtcacatcaatcacgGttcctcggagaagcttttct	8	11	5	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:39306792G>T	uc003jlv.3	-	9	1432	c.1343C>A	c.(1342-1344)ACC>AAC	p.T448N		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	448	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			ATCAATCACGGTTCCTCGGAG	0.383													32	153	---	---	---	---	PASS	T	39306792	T	T	39306792	3	4	19	1	0	0	0	0	1	0	0	0	2443	1261	44	3	348	3	C9	5	39306792	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3439234	39306792	141608468	173	9342										
CARD6	84674	broad.mit.edu	37	chr5	40852457	40852457	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcacgagatgtgaccgctagGgattcaatcctcagtcacaa	10	11	3	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:40852457G>T	uc003jmg.2	+	3	1098	c.1023G>T	c.(1021-1023)AGG>AGT	p.R341S		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	341					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						TGACCGCTAGGGATTCAATCC	0.453													14	50	---	---	---	---	PASS	T	40852457	T	T	40852457	3	4	19	1	0	0	0	0	1	0	0	0	2650	1223	43	3	1033	3	CARD6	5	40852457	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1545665	40852457	140062803	174	9343										
C7	730	broad.mit.edu	37	chr5	40979897	40979897	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctctgacagtttgcaagatgCatgttctccactgtcagggt	10	10	3	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:40979897C>A	uc003jmh.2	+	17	2350	c.2236C>A	c.(2236-2238)CAT>AAT	p.H746N	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	746	Complement control factor I module 1.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				TTGCAAGATGCATGTTCTCCA	0.453													24	86	---	---	---	---	PASS	A	40979897	A	A	40979897	3	1	19	1	0	0	0	0	1	0	0	0	2375	710	25	3	2302	3	C7	5	40979897	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	127440	40979897	139935363	175	9344										
HEATR7B2	133558	broad.mit.edu	37	chr5	41000864	41000864	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcttcagcaaaaaaaatcttCcaccttcttcctgttagggg	6	11	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:41000864C>T	uc003jmj.3	-	38	4756	c.4266G>A	c.(4264-4266)TGG>TGA	p.W1422*	HEATR7B2_uc003jmi.3_Nonsense_Mutation_p.W977*	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1422							binding			ovary(6)|central_nervous_system(2)	8						AAAAAATCTTCCACCTTCTTC	0.453													7	33	---	---	---	---	PASS	T	41000864	T	T	41000864	4	4	19	1	0	0	0	0	0	1	0	0	7035	856	30	2	511	2	HEATR7B2	5	41000864	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	20967	41000864	139914396	176	9345										
HEATR7B2	133558	broad.mit.edu	37	chr5	41019017	41019017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttgtccttgtctgtctggcCttcacttttcagattttcca	6	12	4	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:41019017C>A	uc003jmj.3	-	25	3035	c.2545G>T	c.(2545-2547)GGC>TGC	p.G849C	HEATR7B2_uc003jmi.3_Missense_Mutation_p.G404C	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	849							binding			ovary(6)|central_nervous_system(2)	8						TCTGTCTGGCCTTCACTTTTC	0.502													24	64	---	---	---	---	PASS	A	41019017	A	A	41019017	3	1	19	1	0	0	0	0	1	0	0	0	7035	681	24	3	2284	3	HEATR7B2	5	41019017	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	18153	41019017	139896243	177	9346										
HEATR7B2	133558	broad.mit.edu	37	chr5	41057275	41057275	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	actggaggctctggagctctGcagatctgaatgggggtgga	17	7	3	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:41057275G>T	uc003jmj.3	-	9	1345	c.855C>A	c.(853-855)TGC>TGA	p.C285*	HEATR7B2_uc003jmi.3_Intron	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	285	HEAT 3.						binding			ovary(6)|central_nervous_system(2)	8						CTGGAGCTCTGCAGATCTGAA	0.413													13	59	---	---	---	---	PASS	T	41057275	T	T	41057275	4	4	19	1	0	0	0	0	0	1	0	0	7035	1311	46	3	4038	3	HEATR7B2	5	41057275	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	38258	41057275	139857985	178	9347										
HCN1	348980	broad.mit.edu	37	chr5	45353210	45353210	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aataaatcttacctctctcaGaggatcattgagttcattga	6	8	5	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:45353210G>T	uc003jok.2	-	5	1394	c.1369C>A	c.(1369-1371)CTG>ATG	p.L457M		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	457	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						ACCTCTCTCAGAGGATCATTG	0.348													32	118	---	---	---	---	PASS	T	45353210	T	T	45353210	3	4	19	1	0	0	0	0	1	0	0	0	6996	933	33	2	1319	2	HCN1	5	45353210	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	4295935	45353210	135562050	179	9348										
RASA1	5921	broad.mit.edu	37	chr5	86633842	86633842	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aatgaattagaagatggatgGatgtgggttacaaatttaag	12	1	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:86633842G>A	uc003kiw.2	+	5	1069	c.951G>A	c.(949-951)TGG>TGA	p.W317*	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Nonsense_Mutation_p.W140*|RASA1_uc011ctv.1_Nonsense_Mutation_p.W150*|RASA1_uc011ctw.1_Nonsense_Mutation_p.W151*|RASA1_uc010jaw.2_Nonsense_Mutation_p.W140*	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	317	SH3.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		AAGATGGATGGATGTGGGTTA	0.274													39	101	---	---	---	---	PASS	A	86633842	A	A	86633842	4	1	19	1	0	0	0	0	0	1	0	0	13060	1183	41	2	981	2	RASA1	5	86633842	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	41280632	86633842	94281418	180	9349										
SNX24	28966	broad.mit.edu	37	chr5	122337129	122337129	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgaaacagagtctgaagagtCaaggtaaggactaatcctca	10	7	3	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:122337129C>A	uc011cwo.1	+	5	543	c.374C>A	c.(373-375)TCA>TAA	p.S125*	SNX24_uc003ktf.2_Nonsense_Mutation_p.S125*|SNX24_uc010jcy.2_Nonsense_Mutation_p.S125*	NM_014035	NP_054754	Q9Y343	SNX24_HUMAN	SBBI31 protein	125	PX.				cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding				0		Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	OV - Ovarian serous cystadenocarcinoma(64;0.000654)|Epithelial(69;0.0016)|all cancers(49;0.0139)		TCTGAAGAGTCAAGGTAAGGA	0.328													17	59	---	---	---	---	PASS	A	122337129	A	A	122337129	4	1	19	1	0	0	0	0	0	1	0	0	14895	838	29	2	392	2	SNX24	5	122337129	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	35703287	122337129	58578131	181	9350										
RAPGEF6	51735	broad.mit.edu	37	chr5	130834235	130834235	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	taagttaatagaaaatcttcTatataagttggatccacgat	6	5	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:130834235T>C	uc003kvn.1	-	12	1526	c.1320A>G	c.(1318-1320)ATA>ATG	p.I440M	RAPGEF6_uc003kvp.1_Missense_Mutation_p.I490M|RAPGEF6_uc003kvo.1_Missense_Mutation_p.I440M|RAPGEF6_uc010jdi.1_Missense_Mutation_p.I440M|RAPGEF6_uc010jdj.1_Missense_Mutation_p.I440M|RAPGEF6_uc003kvq.2_Missense_Mutation_p.I157M|RAPGEF6_uc003kvr.2_Missense_Mutation_p.I440M|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Missense_Mutation_p.I440M	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	440	N-terminal Ras-GEF.				Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		GAAAATCTTCTATATAAGTTG	0.348													56	91	---	---	---	---	PASS	C	130834235	C	C	130834235	3	2	19	1	0	0	0	0	1	0	0	0	13048	1512	53	5	4039	5	RAPGEF6	5	130834235	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	8497106	130834235	50081025	182	9351										
CAMLG	819	broad.mit.edu	37	chr5	134076787	134076787	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acaaaatcaaagcagcaggaCagtgataaactgaactccct	7	10	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:134076787C>T	uc003kzt.2	+	2	312	c.207C>T	c.(205-207)GAC>GAT	p.D69D	CAMLG_uc003kzu.2_Intron	NM_001745	NP_001736	P49069	CAMLG_HUMAN	calcium modulating ligand	69	Cytoplasmic (Potential).				defense response	endoplasmic reticulum|integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Cyclosporine(DB00091)	AGCAGCAGGACAGTGATAAAC	0.423													35	65	---	---	---	---	PASS	T	134076787	T	T	134076787	2	4	19	1	0	0	0	0	0	0	0	1	2609	477	17	3		3	CAMLG	5	134076787	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	3242552	134076787	46838473	183	9352										
HSPA9	3313	broad.mit.edu	37	chr5	137903390	137903390	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctgtgatcacagcattttttGctgtgtgccccaagtaattt	8	9	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:137903390G>T	uc003ldf.2	-	6	665	c.557C>A	c.(556-558)GCA>GAA	p.A186E	HSPA9_uc011cyw.1_Missense_Mutation_p.A117E	NM_004134	NP_004125	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 precursor	186					anti-apoptosis|protein folding	cell surface|mitochondrial nucleoid	ATP binding|unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AGCATTTTTTGCTGTGTGCCC	0.388													3	56	---	---	---	---	PASS	T	137903390	T	T	137903390	3	4	19	1	0	0	0	0	1	0	0	0	7417	1319	46	3	1530	3	HSPA9	5	137903390	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3826603	137903390	43011870	184	9353										
PCDHA4	56144	broad.mit.edu	37	chr5	140187880	140187880	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctccactgggtacagtcatcGccctgatcagcgtgtccgac	10	15	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:140187880G>T	uc003lhi.2	+	1	1209	c.1108G>T	c.(1108-1110)GCC>TCC	p.A370S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.A370S|PCDHA4_uc011daa.1_Missense_Mutation_p.A370S	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	370	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TACAGTCATCGCCCTGATCAG	0.493													41	88	---	---	---	---	PASS	T	140187880	T	T	140187880	3	4	19	1	0	0	0	0	1	0	0	0	11526	1087	38	1	1110	1	PCDHA4	5	140187880	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2284490	140187880	40727380	185	9354										
PCDHB16	57717	broad.mit.edu	37	chr5	140563000	140563000	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcagccttcggaggatattaGtaaaactttggaggtaaatc	10	6	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:140563000G>T	uc003liv.2	+	1	2021	c.866G>T	c.(865-867)AGT>ATT	p.S289I	PCDHB16_uc010jfw.1_Intron	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	289	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGGATATTAGTAAAACTTTG	0.468													38	111	---	---	---	---	PASS	T	140563000	T	T	140563000	3	4	19	1	0	0	0	0	1	0	0	0	11541	1029	36	3	868	3	PCDHB16	5	140563000	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	375120	140563000	40352260	186	9355										
PCDHB14	56122	broad.mit.edu	37	chr5	140603567	140603567	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctcaagatttggatgtcggaAgcaacagtctccaaaactac	8	10	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:140603567A>T	uc003ljb.2	+	1	490	c.490A>T	c.(490-492)AGC>TGC	p.S164C	PCDHB14_uc011dal.1_Missense_Mutation_p.S11C	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	164	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGATGTCGGAAGCAACAGTCT	0.403													47	98	---	---	---	---	PASS	T	140603567	T	T	140603567	3	4	19	1	0	0	0	0	1	0	0	0	11539	72	3	5	492	5	PCDHB14	5	140603567	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	40567	140603567	40311693	187	9356										
PCDHGA7	56108	broad.mit.edu	37	chr5	140763975	140763975	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagggggctccagtgtcctcCtatgtctccataaactctga	9	13	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:140763975C>A	uc003lka.1	+	1	1509	c.1509C>A	c.(1507-1509)TCC>TCA	p.S503S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Silent_p.S503S	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	503	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGTGTCCTCCTATGTCTCCA	0.488													24	45	---	---	---	---	PASS	A	140763975	A	A	140763975	2	1	19	1	0	0	0	0	0	0	0	1	11559	668	24	3		3	PCDHGA7	5	140763975	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	160408	140763975	40151285	188	9357										
GRIA1	2890	broad.mit.edu	37	chr5	153030074	153030074	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctcaatgctatcttgggccaGgtagtgaaagcagcaagggc	13	9	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:153030074G>T	uc003lva.3	+	4	1010	c.645G>T	c.(643-645)CAG>CAT	p.Q215H	GRIA1_uc003luy.3_Missense_Mutation_p.Q215H|GRIA1_uc003luz.3_Missense_Mutation_p.Q120H|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.Q135H|GRIA1_uc011dcx.1_Missense_Mutation_p.Q146H|GRIA1_uc011dcy.1_Missense_Mutation_p.Q225H|GRIA1_uc011dcz.1_Missense_Mutation_p.Q225H|GRIA1_uc010jia.1_Missense_Mutation_p.Q195H	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	215	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TCTTGGGCCAGGTAGTGAAAG	0.483													32	49	---	---	---	---	PASS	T	153030074	T	T	153030074	3	4	19	1	0	0	0	0	1	0	0	0	6767	1014	35	3	659	3	GRIA1	5	153030074	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	12266099	153030074	27885186	189	9358										
C5orf40	408263	broad.mit.edu	37	chr5	156770220	156770220	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cacccaaagggagatctgggGgtctaccagggagcttccag	14	11	2	1	rs140164881		TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr5:156770220G>T	uc003lwu.2	-	2	513	c.325C>A	c.(325-327)CCC>ACC	p.P109T	CYFIP2_uc003lwq.2_Intron|CYFIP2_uc011ddn.1_Intron|CYFIP2_uc011ddo.1_Intron|CYFIP2_uc003lwr.2_Intron|CYFIP2_uc003lws.2_Intron|CYFIP2_uc003lwt.2_Intron|CYFIP2_uc011ddp.1_Intron	NM_001001343	NP_001001343	Q8TBE3	FNDC9_HUMAN	hypothetical protein LOC408263	109						integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GAGATCTGGGGGTCTACCAGG	0.572											OREG0016977	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	98	---	---	---	---	PASS	T	156770220	T	T	156770220	3	4	19	1	0	0	0	0	1	0	0	0	2299	1232	43	3	353	3	C5orf40	5	156770220	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3740146	156770220	24145040	190	9359										
DSP	1832	broad.mit.edu	37	chr6	7584884	7584884	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	caaaagaataccctcaggaaGcgtagagtggtcatagttga	11	7	2	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:7584884G>T	uc003mxp.1	+	24	7668	c.7389G>T	c.(7387-7389)AAG>AAT	p.K2463N	DSP_uc003mxq.1_Missense_Mutation_p.K1864N	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2463	Plectin 12.|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		CCCTCAGGAAGCGTAGAGTGG	0.418													73	118	---	---	---	---	PASS	T	7584884	T	T	7584884	3	4	19	1	0	0	0	0	1	0	0	0	4781	962	34	3	7483	3	DSP	6	7584884	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08		7584884	163530183	191	9360										
GMNN	51053	broad.mit.edu	37	chr6	24786002	24786002	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgaaggaactgtatcttcctCtacggatgcaaagccatgta	9	9	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:24786002C>T	uc003nem.2	+	7	812	c.605C>T	c.(604-606)TCT>TTT	p.S202F	GMNN_uc003nen.2_Missense_Mutation_p.S202F	NM_015895	NP_056979	O75496	GEMI_HUMAN	geminin	202					M/G1 transition of mitotic cell cycle|negative regulation of cell cycle|negative regulation of DNA replication|negative regulation of transcription, DNA-dependent	cytosol|nucleoplasm	histone deacetylase binding			ovary(1)	1						GTATCTTCCTCTACGGATGCA	0.388													93	169	---	---	---	---	PASS	T	24786002	T	T	24786002	3	4	19	1	0	0	0	0	1	0	0	0	6493	913	32	2	627	2	GMNN	6	24786002	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	17201118	24786002	146329065	192	9361										
HIST1H3D	8351	broad.mit.edu	37	chr6	26197080	26197080	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aagacaatttacgccctctcCccacgaatgcggcgagcaag	9	14	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:26197080C>G	uc003ngv.2	-	2	796	c.399G>C	c.(397-399)GGG>GGC	p.G133G	HIST1H2BF_uc003ngx.2_5'Flank	NM_003530	NP_003521	P68431	H31_HUMAN	histone cluster 1, H3d	133					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.196)				ACGCCCTCTCCCCACGAATGC	0.502													7	110	---	---	---	---	PASS	G	26197080	G	G	26197080	2	3	19	1	0	0	0	0	0	0	0	1	7158	610	22	4		4	HIST1H3D	6	26197080	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	1411078	26197080	144917987	193	9362										
HIST1H2AL	8332	broad.mit.edu	37	chr6	27833365	27833365	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccgcgacaacaagaagacccGcattatcccgcgccacttgc	8	17	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:27833365G>T	uc003njw.2	+	1	259	c.233G>T	c.(232-234)CGC>CTC	p.R78L		NM_003511	NP_003502	P0C0S8	H2A1_HUMAN	histone cluster 1, H2al	78					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding				0						AAGAAGACCCGCATTATCCCG	0.662													84	151	---	---	---	---	PASS	T	27833365	T	T	27833365	3	4	19	1	0	0	0	0	1	0	0	0	7138	1087	38	1	235	1	HIST1H2AL	6	27833365	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1636285	27833365	143281702	194	9363										
SLC44A4	80736	broad.mit.edu	37	chr6	31833676	31833676	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtgcggatgaaggcagagatTaaggggaaggtagggatgtc	19	3	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:31833676T>G	uc010jti.2	-	14	1527	c.1461A>C	c.(1459-1461)TTA>TTC	p.L487F	NEU1_uc003nxq.3_5'Flank|NEU1_uc010jtg.2_5'Flank|NEU1_uc003nxr.3_5'Flank|NEU1_uc010jth.2_5'Flank|NEU1_uc003nxs.3_5'Flank	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	487	Cytoplasmic (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	AGGCAGAGATTAAGGGGAAGG	0.612													61	83	---	---	---	---	PASS	G	31833676	G	G	31833676	3	3	19	1	0	0	0	0	1	0	0	0	14638	1751	61	5	703	5	SLC44A4	6	31833676	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	4000311	31833676	139281391	195	9364										
TNXB	7148	broad.mit.edu	37	chr6	32064567	32064567	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gggccagcacacgcagcggcCgtccacgcagcgcccgccct	13	20	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:32064567C>T	uc003nzl.2	-	3	1265	c.1063G>A	c.(1063-1065)GGC>AGC	p.G355S		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	355	EGF-like 7.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						ACGCAGCGGCCGTCCACGCAG	0.731													2	1	---	---	---	---	PASS	T	32064567	T	T	32064567	3	4	19	1	0	0	0	0	1	0	0	0	16343	652	23	1	13818	1	TNXB	6	32064567	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	230891	32064567	139050500	196	9365										
GRM4	2914	broad.mit.edu	37	chr6	34004071	34004071	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtagcgcacaaaggtgatcaCcacgaacaacgtggcagcga	12	11	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:34004071C>A	uc003oir.3	-	8	1986	c.1816G>T	c.(1816-1818)GTG>TTG	p.V606L	GRM4_uc011dsn.1_Missense_Mutation_p.V559L|GRM4_uc010jvh.2_Missense_Mutation_p.V606L|GRM4_uc010jvi.2_Missense_Mutation_p.V298L|GRM4_uc003oio.2_Missense_Mutation_p.V298L|GRM4_uc003oip.2_RNA|GRM4_uc011dsl.1_Missense_Mutation_p.V466L|GRM4_uc003oiq.2_Missense_Mutation_p.V473L|GRM4_uc011dsm.1_Missense_Mutation_p.V437L	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	606	Helical; Name=1; (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	AAGGTGATCACCACGAACAAC	0.637													17	33	---	---	---	---	PASS	A	34004071	A	A	34004071	3	1	19	1	0	0	0	0	1	0	0	0	6799	507	18	3	934	3	GRM4	6	34004071	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1939504	34004071	137110996	197	9366										
TMEM63B	55362	broad.mit.edu	37	chr6	44119705	44119705	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	catgtacatgatccggctctGcctggcgcgctcggccgccg	13	16	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:44119705G>C	uc003owr.2	+	19	1860	c.1796G>C	c.(1795-1797)TGC>TCC	p.C599S	TMEM63B_uc003ows.2_Missense_Mutation_p.C502S|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	599						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			ATCCGGCTCTGCCTGGCGCGC	0.667											OREG0017465	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	51	---	---	---	---	PASS	C	44119705	C	C	44119705	3	2	19	1	0	0	0	0	1	0	0	0	16188	1319	46	4	1866	4	TMEM63B	6	44119705	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	10115634	44119705	126995362	198	9367										
TFAP2D	83741	broad.mit.edu	37	chr6	50740556	50740556	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaggctgccgtgaaagagggCaaaacagaaaagacagacta	13	7	0	5			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:50740556C>A	uc003paf.2	+	8	1850	c.1338C>A	c.(1336-1338)GGC>GGA	p.G446G	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	446							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					TGAAAGAGGGCAAAACAGAAA	0.458													12	34	---	---	---	---	PASS	A	50740556	A	A	50740556	2	1	19	1	0	0	0	0	0	0	0	1	15787	697	25	3		3	TFAP2D	6	50740556	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	6620851	50740556	120374511	199	9368										
PKHD1	5314	broad.mit.edu	37	chr6	51882241	51882241	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccgagaatgatggaaacattGactctgcccaatgatctggc	10	10	2	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:51882241G>T	uc003pah.1	-	34	5843	c.5567C>A	c.(5566-5568)TCA>TAA	p.S1856*	PKHD1_uc003pai.2_Nonsense_Mutation_p.S1856*	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1856	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TGGAAACATTGACTCTGCCCA	0.502													55	180	---	---	---	---	PASS	T	51882241	T	T	51882241	4	4	19	1	0	0	0	0	0	1	0	0	11971	1294	45	2	6832	2	PKHD1	6	51882241	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1141685	51882241	119232826	200	9369										
GFRAL	389400	broad.mit.edu	37	chr6	55216069	55216069	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aggattcaaagggatgtggtCctgtttggaagtggcagagg	17	4	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:55216069C>A	uc003pcm.1	+	5	475	c.389C>A	c.(388-390)TCC>TAC	p.S130Y		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	130	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			GGGATGTGGTCCTGTTTGGAA	0.443													74	310	---	---	---	---	PASS	A	55216069	A	A	55216069	3	1	19	1	0	0	0	0	1	0	0	0	6351	855	30	2	407	2	GFRAL	6	55216069	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	3333828	55216069	115898998	201	9370										
DST	667	broad.mit.edu	37	chr6	56434790	56434790	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aagcatccaactgttcttgaCaagaagttacagcttctttt	6	9	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:56434790C>A	uc003pdf.2	-	48	7413	c.7385G>T	c.(7384-7386)TGT>TTT	p.C2462F	DST_uc003pcz.3_Missense_Mutation_p.C2284F|DST_uc011dxj.1_Missense_Mutation_p.C2313F|DST_uc011dxk.1_Missense_Mutation_p.C2324F|DST_uc003pcy.3_Missense_Mutation_p.C1958F	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	4370					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)			CTGTTCTTGACAAGAAGTTAC	0.299													33	71	---	---	---	---	PASS	A	56434790	A	A	56434790	3	1	19	1	0	0	0	0	1	0	0	0	4783	478	17	3	9842	3	DST	6	56434790	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1218721	56434790	114680277	202	9371										
FAM135A	57579	broad.mit.edu	37	chr6	71238128	71238128	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gttctgaagatggagtacatCtgattgtctgtgtgcacggt	13	6	3	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:71238128C>G	uc003pfj.2	+	14	3881	c.3748C>G	c.(3748-3750)CTG>GTG	p.L1250V	FAM135A_uc003pfi.2_Missense_Mutation_p.L1054V|FAM135A_uc003pfh.2_Missense_Mutation_p.L1037V|FAM135A_uc003pfl.2_Missense_Mutation_p.L917V|FAM135A_uc003pfn.2_Missense_Mutation_p.L456V|FAM135A_uc003pfo.1_Missense_Mutation_p.L621V|FAM135A_uc010kan.1_Missense_Mutation_p.L29V	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	1250										central_nervous_system(1)	1						TGGAGTACATCTGATTGTCTG	0.388													42	162	---	---	---	---	PASS	G	71238128	G	G	71238128	3	3	19	1	0	0	0	0	1	0	0	0	5448	912	32	2	3880	2	FAM135A	6	71238128	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	14803338	71238128	99876939	203	9372										
COL12A1	1303	broad.mit.edu	37	chr6	75861915	75861915	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acaagctcttcttgtctctgTgtgcatttaactgccactct	6	12	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:75861915T>G	uc003phs.2	-	19	3933	c.3767A>C	c.(3766-3768)CAC>CCC	p.H1256P	COL12A1_uc003pht.2_Missense_Mutation_p.H92P	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1256	VWFA 3.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CTTGTCTCTGTGTGCATTTAA	0.448													21	107	---	---	---	---	PASS	G	75861915	G	G	75861915	3	3	19	1	0	0	0	0	1	0	0	0	3669	1696	59	5	5616	5	COL12A1	6	75861915	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	4623787	75861915	95253152	204	9373										
SNAP91	9892	broad.mit.edu	37	chr6	84368748	84368748	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agcagtgcatcaatttgtccCtgtagtattggcatactctt	8	9	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:84368748C>T	uc011dze.1	-	6	833	c.516G>A	c.(514-516)CAG>CAA	p.Q172Q	SNAP91_uc003pkb.2_Silent_p.Q137Q|SNAP91_uc003pkc.2_Silent_p.Q172Q|SNAP91_uc003pkd.2_Silent_p.Q172Q|SNAP91_uc003pka.2_Silent_p.Q172Q|SNAP91_uc011dzf.1_Silent_p.Q53Q	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	172					clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		CAATTTGTCCCTGTAGTATTG	0.343													14	15	---	---	---	---	PASS	T	84368748	T	T	84368748	2	4	19	1	0	0	0	0	0	0	0	1	14833	680	24	3		3	SNAP91	6	84368748	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	8506833	84368748	86746319	205	9374										
MAP3K7	6885	broad.mit.edu	37	chr6	91263279	91263279	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aataataccccagctgaagaCgtcacatttttcactgtaat	5	10	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:91263279C>A	uc003pnz.1	-	7	796	c.634G>T	c.(634-636)GTC>TTC	p.V212F	MAP3K7_uc003poa.1_Missense_Mutation_p.V212F|MAP3K7_uc003pob.1_Missense_Mutation_p.V212F|MAP3K7_uc003poc.1_Missense_Mutation_p.V212F	NM_145331	NP_663304	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	212	Protein kinase.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		CAGCTGAAGACGTCACATTTT	0.378													43	147	---	---	---	---	PASS	A	91263279	A	A	91263279	3	1	19	1	0	0	0	0	1	0	0	0	9255	536	19	1	1230	1	MAP3K7	6	91263279	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	6894531	91263279	79851788	206	9375										
C6orf167	253714	broad.mit.edu	37	chr6	97597879	97597879	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggtaatagtacctcataccaTaatcctggataaactgcctg	7	10	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:97597879T>C	uc003ppb.2	-	24	3766	c.3500A>G	c.(3499-3501)TAT>TGT	p.Y1167C	C6orf167_uc011eaf.1_Missense_Mutation_p.Y1127C	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	1167					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		CCTCATACCATAATCCTGGAT	0.403													19	81	---	---	---	---	PASS	C	97597879	C	C	97597879	3	2	19	1	0	0	0	0	1	0	0	0	2342	1406	49	5	239	5	C6orf167	6	97597879	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	6334600	97597879	73517188	207	9376										
C6orf167	253714	broad.mit.edu	37	chr6	97715858	97715858	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acttgccagattcataaactGatgaccatatacaacttgtt	5	9	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:97715858G>A	uc003ppb.2	-	8	984	c.718C>T	c.(718-720)CAG>TAG	p.Q240*	C6orf167_uc011eaf.1_Nonsense_Mutation_p.Q240*|C6orf167_uc010kcn.1_Nonsense_Mutation_p.Q14*|C6orf167_uc010kco.1_Nonsense_Mutation_p.Q14*|C6orf167_uc003ppc.2_Nonsense_Mutation_p.Q240*	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	240					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		TTCATAAACTGATGACCATAT	0.303													14	50	---	---	---	---	PASS	A	97715858	A	A	97715858	4	1	19	1	0	0	0	0	0	1	0	0	2342	1299	45	2	3085	2	C6orf167	6	97715858	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	117979	97715858	73399209	208	9377										
DCBLD1	285761	broad.mit.edu	37	chr6	117866736	117866736	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aggagatgacacaaaagttaGatctcatcacaagtgatatg	9	6	2	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:117866736G>A	uc003pxs.2	+	14	1716	c.1591G>A	c.(1591-1593)GAT>AAT	p.D531N	GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxr.1_3'UTR|DCBLD1_uc003pxt.1_Missense_Mutation_p.D186N	NM_173674	NP_775945	Q8N8Z6	DCBD1_HUMAN	discoidin, CUB and LCCL domain containing 1	531	Cytoplasmic (Potential).				cell adhesion	integral to membrane				ovary(1)	1		all_cancers(87;0.171)		GBM - Glioblastoma multiforme(226;0.0447)|OV - Ovarian serous cystadenocarcinoma(136;0.0921)|all cancers(137;0.125)		ACAAAAGTTAGATCTCATCAC	0.428													44	143	---	---	---	---	PASS	A	117866736	A	A	117866736	3	1	19	1	0	0	0	0	1	0	0	0	4280	942	33	2	1645	2	DCBLD1	6	117866736	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	20150878	117866736	53248331	209	9378										
ENPP1	5167	broad.mit.edu	37	chr6	132189172	132189172	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcttaggtcatcaaagccttGcagagggttgatggtatggt	13	6	3	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:132189172G>C	uc011ecf.1	+	12	1199	c.1179G>C	c.(1177-1179)TTG>TTC	p.L393F	ENPP1_uc003qcy.2_Missense_Mutation_p.L23F	NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	393	Phosphodiesterase.|Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	TCAAAGCCTTGCAGAGGGTTG	0.398													38	161	---	---	---	---	PASS	C	132189172	C	C	132189172	3	2	19	1	0	0	0	0	1	0	0	0	5129	1310	46	4	1225	4	ENPP1	6	132189172	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	14322436	132189172	38925895	210	9379										
TAAR1	134864	broad.mit.edu	37	chr6	132966668	132966668	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaagtttagctccagaaagaTcattccaaatgcaaaaacag	7	8	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:132966668T>G	uc003qdm.1	-	1	475	c.475A>C	c.(475-477)ATC>CTC	p.I159L		NM_138327	NP_612200	Q96RJ0	TAAR1_HUMAN	trace amine associated receptor 1	159	Extracellular (Potential).					plasma membrane					0	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00616)|GBM - Glioblastoma multiforme(226;0.0154)	Amphetamine(DB00182)	TCCAGAAAGATCATTCCAAAT	0.393													29	112	---	---	---	---	PASS	G	132966668	G	G	132966668	3	3	19	1	0	0	0	0	1	0	0	0	15486	1435	50	5	548	5	TAAR1	6	132966668	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	777496	132966668	38148399	211	9380										
VNN2	8875	broad.mit.edu	37	chr6	133065517	133065517	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	taagttattgctgaattgctGgtcccacatgagctgtaaag	10	7	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:133065517G>T	uc003qdt.2	-	7	1496	c.1485C>A	c.(1483-1485)ACC>ACA	p.T495T	VNN2_uc003qds.2_Silent_p.T204T|VNN2_uc010kgb.2_Silent_p.T274T|VNN2_uc003qdv.2_Silent_p.T442T	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor	495					cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		CTGAATTGCTGGTCCCACATG	0.393													23	143	---	---	---	---	PASS	T	133065517	T	T	133065517	2	4	19	1	0	0	0	0	0	0	0	1	17180	1335	47	3		3	VNN2	6	133065517	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	98849	133065517	38049550	212	9381										
IL20RA	53832	broad.mit.edu	37	chr6	137330606	137330606	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttctcatctgtagtcagtgCcacctctggtgggccaattt	9	12	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:137330606C>T	uc003qhj.2	-	4	860	c.427G>A	c.(427-429)GCA>ACA	p.A143T	IL20RA_uc011edl.1_Missense_Mutation_p.A94T|IL20RA_uc003qhk.2_Missense_Mutation_p.A32T|IL20RA_uc010kgy.1_Intron|IL20RA_uc003qhi.2_5'Flank	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	143	Extracellular (Potential).|Fibronectin type-III 2.					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)		GTAGTCAGTGCCACCTCTGGT	0.418													37	135	---	---	---	---	PASS	T	137330606	T	T	137330606	3	4	19	1	0	0	0	0	1	0	0	0	7668	739	26	3	1250	3	IL20RA	6	137330606	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4265089	137330606	33784461	213	9382										
CITED2	10370	broad.mit.edu	37	chr6	139694413	139694413	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gacataagaacttcctcgtcGatgaaatcagtgtctatgac	8	9	2	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:139694413G>C	uc003qip.1	-	2	913	c.669C>G	c.(667-669)ATC>ATG	p.I223M		NM_006079	NP_006070	Q99967	CITE2_HUMAN	Cbp/p300-interacting transactivator, with	223	Asp/Glu-rich (acidic).				adrenal cortex formation|anti-apoptosis|cell proliferation|determination of left/right symmetry|heart development|liver development|negative regulation of cell migration|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell cycle|positive regulation of cell-cell adhesion|positive regulation of male gonad development|positive regulation of peroxisome proliferator activated receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of organ formation|response to estrogen stimulus|response to fluid shear stress|response to hypoxia|sex determination	cytoplasm|nuclear chromatin|nucleus	chromatin binding|LBD domain binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity				0	Breast(32;0.226)			GBM - Glioblastoma multiforme(68;0.000171)|OV - Ovarian serous cystadenocarcinoma(155;0.00134)		CTTCCTCGTCGATGAAATCAG	0.453													45	134	---	---	---	---	PASS	C	139694413	C	C	139694413	3	2	19	1	0	0	0	0	1	0	0	0	3440	1048	37	2	147	2	CITED2	6	139694413	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2363807	139694413	31420654	214	9383										
UTRN	7402	broad.mit.edu	37	chr6	144860477	144860477	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gctgaaaaactcaaatggctGaatagaactgaattggagat	10	5	1	5			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:144860477G>T	uc003qkt.2	+	44	6509	c.6417G>T	c.(6415-6417)CTG>CTT	p.L2139L		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	2139					muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TCAAATGGCTGAATAGAACTG	0.348													35	125	---	---	---	---	PASS	T	144860477	T	T	144860477	2	4	19	1	0	0	0	0	0	0	0	1	17100	1277	45	2		2	UTRN	6	144860477	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	5166064	144860477	26254590	215	9384										
KATNA1	11104	broad.mit.edu	37	chr6	149916342	149916342	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggagtcaaaccttcaatgcGccttctcattgccatcaagg	8	12	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:149916342G>A	uc003qmr.1	-	10	1351	c.1306C>T	c.(1306-1308)CGC>TGC	p.R436C	KATNA1_uc003qms.2_Missense_Mutation_p.R436C|KATNA1_uc003qmt.2_3'UTR	NM_007044	NP_008975	O75449	KTNA1_HUMAN	katanin p60 subunit A 1	436					cell division|interphase of mitotic cell cycle|mitosis	microtubule|microtubule organizing center|spindle pole	ATP binding|microtubule binding|microtubule-severing ATPase activity|protein heterodimerization activity			skin(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;2.95e-12)|GBM - Glioblastoma multiforme(68;0.173)		CCTTCAATGCGCCTTCTCATT	0.378													26	88	---	---	---	---	PASS	A	149916342	A	A	149916342	3	1	19	1	0	0	0	0	1	0	0	0	7984	1087	38	1	173	1	KATNA1	6	149916342	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	5055865	149916342	21198725	216	9385										
SYNE1	23345	broad.mit.edu	37	chr6	152651009	152651009	+	Missense_Mutation	SNP	G	C	C													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agcgcattcatgattctcaaGctggactggacctcttcctg							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:152651009G>C	uc010kiw.2	-	78	15413	c.14811C>G	c.(14809-14811)AGC>AGG	p.S4937R	SYNE1_uc003qot.3_Missense_Mutation_p.S4866R|SYNE1_uc003qou.3_Missense_Mutation_p.S4937R|SYNE1_uc010kiz.2_Missense_Mutation_p.S692R	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4937	Cytoplasmic (Potential).|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)		TGATTCTCAAGCTGGACTGGA	0.493										HNSCC(10;0.0054)			100	368	---	---	---	---	PASS	C	152651009	C	C	152651009	3	2	19	1	0	0	0	0	1	0	0	0	15442	962	34	4	11931	4	SYNE1	6	152651009	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2734667	152651009	18464058	217	9386	273	2								
SYNE1	23345	broad.mit.edu	37	chr6	152651010	152651010	+	Missense_Mutation	SNP	C	T	T													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcgcattcatgattctcaagCtggactggacctcttcctga							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:152651010C>T	uc010kiw.2	-	78	15412	c.14810G>A	c.(14809-14811)AGC>AAC	p.S4937N	SYNE1_uc003qot.3_Missense_Mutation_p.S4866N|SYNE1_uc003qou.3_Missense_Mutation_p.S4937N|SYNE1_uc010kiz.2_Missense_Mutation_p.S692N	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4937	Cytoplasmic (Potential).|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)		GATTCTCAAGCTGGACTGGAC	0.493										HNSCC(10;0.0054)			99	359	---	---	---	---	PASS	T	152651010	T	T	152651010	3	4	19	1	0	0	0	0	1	0	0	0	15442	797	28	3	11932	3	SYNE1	6	152651010	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1	152651010	18464057	218	9387	273	2								
MYCT1	80177	broad.mit.edu	37	chr6	153042970	153042970	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	catttgtctgtctcgaagaaGaagagccagtgctcccatct	9	11	3	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:153042970G>T	uc003qpd.3	+	2	298	c.290G>T	c.(289-291)AGA>ATA	p.R97I	MYCT1_uc010kjc.1_Intron|MYCT1_uc003qpc.3_Missense_Mutation_p.R97I	NM_025107	NP_079383	Q8N699	MYCT1_HUMAN	myc target 1	97	Bipartite nuclear localization signal (Potential).					nucleus				ovary(1)	1		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;1.33e-10)|BRCA - Breast invasive adenocarcinoma(81;0.143)		TCTCGAAGAAGAAGAGCCAGT	0.493													47	152	---	---	---	---	PASS	T	153042970	T	T	153042970	3	4	19	1	0	0	0	0	1	0	0	0	10022	942	33	2	296	2	MYCT1	6	153042970	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	391960	153042970	18072097	219	9388										
GPR31	2853	broad.mit.edu	37	chr6	167570656	167570656	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	caccaccaaggtgaccagtgCctgggcccgctgaagcttgg	13	14	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:167570656C>T	uc011egq.1	-	1	664	c.664G>A	c.(664-666)GCA>ACA	p.A222T		NM_005299	NP_005290	O00270	GPR31_HUMAN	G protein-coupled receptor 31	222	Helical; Name=6; (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;4.81e-20)|BRCA - Breast invasive adenocarcinoma(81;4.45e-06)|GBM - Glioblastoma multiforme(31;0.00492)		GTGACCAGTGCCTGGGCCCGC	0.582													30	161	---	---	---	---	PASS	T	167570656	T	T	167570656	3	4	19	1	0	0	0	0	1	0	0	0	6687	739	26	3	298	3	GPR31	6	167570656	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	14527686	167570656	3544411	220	9389										
TTLL2	83887	broad.mit.edu	37	chr6	167752259	167752259	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtgtttccatccctcccaggCgaggccgcccaacaccaaca	8	18	0	0	rs146731987		TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr6:167752259C>T	uc003qvs.1	+	2	260	c.172C>T	c.(172-174)CGA>TGA	p.R58*	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	58					protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CCCTCCCAGGCGAGGCCGCCC	0.458													15	41	---	---	---	---	PASS	T	167752259	T	T	167752259	4	4	19	1	0	0	0	0	0	1	0	0	16724	760	27	1	178	1	TTLL2	6	167752259	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	181603	167752259	3362808	221	9390										
HDAC9	9734	broad.mit.edu	37	chr7	18688287	18688287	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaagcagaagcaataccagcAgcagatccacatgaacaaag	9	10	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:18688287A>C	uc003suh.2	+	10	1480	c.1439A>C	c.(1438-1440)CAG>CCG	p.Q480P	HDAC9_uc003sue.2_Missense_Mutation_p.Q480P|HDAC9_uc011jyd.1_Missense_Mutation_p.Q480P|HDAC9_uc003sui.2_Missense_Mutation_p.Q483P|HDAC9_uc003suj.2_Missense_Mutation_p.Q439P|HDAC9_uc011jya.1_Missense_Mutation_p.Q477P|HDAC9_uc003sua.1_Missense_Mutation_p.Q458P|HDAC9_uc011jyb.1_Missense_Mutation_p.Q436P|HDAC9_uc003sud.1_Missense_Mutation_p.Q480P|HDAC9_uc011jyc.1_Missense_Mutation_p.Q439P|HDAC9_uc003suf.1_Missense_Mutation_p.Q511P|HDAC9_uc010kud.1_Missense_Mutation_p.Q483P|HDAC9_uc011jye.1_Missense_Mutation_p.Q452P|HDAC9_uc011jyf.1_Missense_Mutation_p.Q403P|HDAC9_uc010kue.1_Missense_Mutation_p.Q223P	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	480					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CAATACCAGCAGCAGATCCAC	0.473													5	25	---	---	---	---	PASS	C	18688287	C	C	18688287	3	2	19	1	0	0	0	0	1	0	0	0	7014	188	7	5	1486	5	HDAC9	7	18688287	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08		18688287	140450376	222	9391										
HDAC9	9734	broad.mit.edu	37	chr7	18914192	18914192	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggaaggccacacccctcctCtaggagggtacaaagtgacg	12	12	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:18914192C>A	uc003suh.2	+	21	2808	c.2767C>A	c.(2767-2769)CTA>ATA	p.L923I	HDAC9_uc003sue.2_Missense_Mutation_p.L923I|HDAC9_uc003sui.2_Missense_Mutation_p.L926I|HDAC9_uc003suj.2_Missense_Mutation_p.L882I|HDAC9_uc003suk.2_Missense_Mutation_p.L171I	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	923	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CACCCCTCCTCTAGGAGGGTA	0.458													10	12	---	---	---	---	PASS	A	18914192	A	A	18914192	3	1	19	1	0	0	0	0	1	0	0	0	7014	912	32	2	2971	2	HDAC9	7	18914192	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	225905	18914192	140224471	223	9392										
PDE1C	5137	broad.mit.edu	37	chr7	31848707	31848707	+	Missense_Mutation	SNP	C	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcttgtctgtcttatttttaCcatctttgaagtcacctgaa							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:31848707C>A	uc003tcm.1	-	16	2298	c.1829G>T	c.(1828-1830)GGT>GTT	p.G610V	PDE1C_uc003tcn.1_Missense_Mutation_p.G610V|PDE1C_uc003tco.1_Missense_Mutation_p.G670V|PDE1C_uc003tcr.2_Missense_Mutation_p.G610V|PDE1C_uc003tcs.2_Missense_Mutation_p.G610V	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	610					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			CTTATTTTTACCATCTTTGAA	0.323													8	83	---	---	---	---	PASS	A	31848707	A	A	31848707	3	1	19	1	0	0	0	0	1	0	0	0	11635	507	18	3	83	3	PDE1C	7	31848707	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	12934515	31848707	127289956	224	9393	274	2								
PDE1C	5137	broad.mit.edu	37	chr7	31848708	31848708	+	Missense_Mutation	SNP	C	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttgtctgtcttatttttacCatctttgaagtcacctgaaa							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:31848708C>A	uc003tcm.1	-	16	2297	c.1828G>T	c.(1828-1830)GGT>TGT	p.G610C	PDE1C_uc003tcn.1_Missense_Mutation_p.G610C|PDE1C_uc003tco.1_Missense_Mutation_p.G670C|PDE1C_uc003tcr.2_Missense_Mutation_p.G610C|PDE1C_uc003tcs.2_Missense_Mutation_p.G610C	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	610					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			TTATTTTTACCATCTTTGAAG	0.318													8	81	---	---	---	---	PASS	A	31848708	A	A	31848708	3	1	19	1	0	0	0	0	1	0	0	0	11635	594	21	3	84	3	PDE1C	7	31848708	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1	31848708	127289955	225	9394	274	2								
ABCA13	154664	broad.mit.edu	37	chr7	48353926	48353926	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agcatcattccttagcgattCtaatatgtttattaatttgc	5	7	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:48353926C>A	uc003toq.2	+	26	9804	c.9779C>A	c.(9778-9780)TCT>TAT	p.S3260Y	ABCA13_uc010kys.1_Missense_Mutation_p.S334Y|ABCA13_uc003tos.1_Missense_Mutation_p.S86Y	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3260					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CTTAGCGATTCTAATATGTTT	0.363													14	38	---	---	---	---	PASS	A	48353926	A	A	48353926	3	1	19	1	0	0	0	0	1	0	0	0	31	913	32	2	9710	2	ABCA13	7	48353926	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	16505218	48353926	110784737	226	9395										
ZNF713	349075	broad.mit.edu	37	chr7	56007350	56007350	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agccttccgtcagcattcatCctttactcaacatctgagga	6	13	4	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:56007350C>G	uc003trc.1	+	4	982	c.944C>G	c.(943-945)TCC>TGC	p.S315C	ZNF713_uc003tra.1_Missense_Mutation_p.S328C|MRPS17_uc003trb.2_Intron	NM_182633	NP_872439	Q8N859	ZN713_HUMAN	zinc finger protein 713	315	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CAGCATTCATCCTTTACTCAA	0.403													59	221	---	---	---	---	PASS	G	56007350	G	G	56007350	3	3	19	1	0	0	0	0	1	0	0	0	18114	855	30	2	958	2	ZNF713	7	56007350	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	7653424	56007350	103131313	227	9396										
ELN	2006	broad.mit.edu	37	chr7	73466304	73466304	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagcagcagccgctaaggcaGccaagtatggtgagtgcctc	13	12	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:73466304G>T	uc003tzw.2	+	17	1031	c.940G>T	c.(940-942)GCC>TCC	p.A314S	RFC2_uc011kfa.1_Intron|ELN_uc003tzm.1_RNA|ELN_uc011kfe.1_Missense_Mutation_p.A283S|ELN_uc003tzn.2_Missense_Mutation_p.A314S|ELN_uc003tzz.2_Missense_Mutation_p.A278S|ELN_uc003tzo.2_Missense_Mutation_p.A300S|ELN_uc003tzp.2_Missense_Mutation_p.A270S|ELN_uc003tzq.2_Missense_Mutation_p.A197S|ELN_uc003tzr.2_RNA|ELN_uc003tzs.2_Missense_Mutation_p.A314S|ELN_uc003tzt.2_Missense_Mutation_p.A319S|ELN_uc003tzu.2_Missense_Mutation_p.A319S|ELN_uc003tzv.2_Missense_Mutation_p.A304S|ELN_uc003tzx.2_Missense_Mutation_p.A304S|ELN_uc011kff.1_Missense_Mutation_p.A314S|ELN_uc003tzy.2_Missense_Mutation_p.A309S	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	314	Ala-rich.				blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	CGCTAAGGCAGCCAAGTATGG	0.622			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome				OREG0018112	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	45	---	---	---	---	PASS	T	73466304	T	T	73466304	3	4	19	1	0	0	0	0	1	0	0	0	5071	971	34	3	1021	3	ELN	7	73466304	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	17458954	73466304	85672359	228	9397										
HGF	3082	broad.mit.edu	37	chr7	81355244	81355244	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cacagtttggaatttgggagCagtagccaactcggatgttt	12	7	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:81355244C>A	uc003uhl.2	-	9	1295	c.1130G>T	c.(1129-1131)TGC>TTC	p.C377F	HGF_uc003uhm.2_Missense_Mutation_p.C372F	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	377	Kringle 3.				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						AATTTGGGAGCAGTAGCCAAC	0.453													81	272	---	---	---	---	PASS	A	81355244	A	A	81355244	3	1	19	1	0	0	0	0	1	0	0	0	7085	710	25	3	1096	3	HGF	7	81355244	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	7888940	81355244	77783419	229	9398										
CALCR	799	broad.mit.edu	37	chr7	93116264	93116264	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tttagaagaagaaacagtgcCaagcaccggcttgtaaatgt	10	7	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:93116264C>T	uc003umv.1	-	3	345	c.84G>A	c.(82-84)TTG>TTA	p.L28L	CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Silent_p.L10L|CALCR_uc003umw.2_Silent_p.L10L|MIR489_hsa-mir-489|MI0003124_5'Flank	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	10					activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	GAAACAGTGCCAAGCACCGGC	0.303													48	190	---	---	---	---	PASS	T	93116264	T	T	93116264	2	4	19	1	0	0	0	0	0	0	0	1	2579	593	21	3		3	CALCR	7	93116264	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	11761020	93116264	66022399	230	9399										
PPP1R9A	55607	broad.mit.edu	37	chr7	94540608	94540608	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ataattttgatggttcccatGtgtacatgcacagtgactat	8	7	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:94540608G>A	uc003unp.2	+	2	1465	c.1183G>A	c.(1183-1185)GTG>ATG	p.V395M	PPP1R9A_uc010lfj.2_Missense_Mutation_p.V395M|PPP1R9A_uc011kif.1_Missense_Mutation_p.V395M|PPP1R9A_uc003unq.2_Missense_Mutation_p.V395M|PPP1R9A_uc011kig.1_Missense_Mutation_p.V395M	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	395						cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			TGGTTCCCATGTGTACATGCA	0.438										HNSCC(28;0.073)			18	95	---	---	---	---	PASS	A	94540608	A	A	94540608	3	1	19	1	0	0	0	0	1	0	0	0	12378	1377	48	3	1185	3	PPP1R9A	7	94540608	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1424344	94540608	64598055	231	9400										
ACN9	57001	broad.mit.edu	37	chr7	96810378	96810378	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aaaacagacaaaattcaactGgaaaagcatgttttggcacc	7	8	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:96810378G>C	uc003uoo.3	+	2	1360	c.229G>C	c.(229-231)GGA>CGA	p.G77R		NM_020186	NP_064571	Q9NRP4	ACN9_HUMAN	ACN9 homolog precursor	77					regulation of gluconeogenesis	mitochondrial intermembrane space					0	all_cancers(62;2.54e-08)|all_epithelial(64;2.24e-08)|Esophageal squamous(72;0.00507)|all_lung(186;0.154)|Lung NSC(181;0.159)					AAATTCAACTGGAAAAGCATG	0.363													22	77	---	---	---	---	PASS	C	96810378	C	C	96810378	3	2	19	1	0	0	0	0	1	0	0	0	145	1349	47	4	235	4	ACN9	7	96810378	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2269770	96810378	62328285	232	9401										
ZNF498	221785	broad.mit.edu	37	chr7	99226964	99226964	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggagcctggtggccctgcagGcagtgcgcctgggcttcctc	16	14	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:99226964G>A	uc003url.1	+	8	1283	c.956G>A	c.(955-957)GGC>GAC	p.G319D	ZNF498_uc003urm.1_Missense_Mutation_p.G155D|ZNF498_uc010lge.1_Missense_Mutation_p.G155D|ZNF498_uc003urn.2_Intron|ZNF498_uc010lgf.1_Missense_Mutation_p.G247D|ZNF498_uc003uro.1_Missense_Mutation_p.G103D	NM_145115	NP_660090	Q6NSZ9	ZN498_HUMAN	zinc finger and SCAN domain containing 25	319					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_epithelial(64;1.95e-08)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					GGCCCTGCAGGCAGTGCGCCT	0.652													37	87	---	---	---	---	PASS	A	99226964	A	A	99226964	3	1	19	1	0	0	0	0	1	0	0	0	17944	1203	42	3	974	3	ZNF498	7	99226964	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2416586	99226964	59911699	233	9402										
AP4M1	9179	broad.mit.edu	37	chr7	99699370	99699370	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttcttcattctgtcctccaaGggggacccgctcatctacaa	7	14	5	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:99699370G>A	uc003utb.3	+	1	241	c.33G>A	c.(31-33)AAG>AAA	p.K11K	MCM7_uc003usv.1_5'Flank|MCM7_uc003usw.1_5'UTR|MCM7_uc003usx.1_5'UTR|AP4M1_uc011kjg.1_Silent_p.K11K|AP4M1_uc010lgl.1_Silent_p.K11K|AP4M1_uc003utc.3_Silent_p.K11K|AP4M1_uc010lgm.2_5'UTR|AP4M1_uc003utd.2_Silent_p.K11K|AP4M1_uc011kjh.1_5'Flank|AP4M1_uc003ute.3_5'Flank|AP4M1_uc003utf.3_5'Flank	NM_004722	NP_004713	O00189	AP4M1_HUMAN	adaptor-related protein complex 4, mu 1 subunit	11					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|coated pit|Golgi trans cisterna	transporter activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TGTCCTCCAAGGGGGACCCGC	0.647													8	68	---	---	---	---	PASS	A	99699370	A	A	99699370	2	1	19	1	0	0	0	0	0	0	0	1	753	991	35	3		3	AP4M1	7	99699370	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	472406	99699370	59439293	234	9403										
PIK3CG	5294	broad.mit.edu	37	chr7	106509321	106509321	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agatctactgcggtaaagctCcagcactgtccagcaaggcc	10	13	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:106509321C>T	uc003vdv.3	+	2	1400	c.1315C>T	c.(1315-1317)CCA>TCA	p.P439S	PIK3CG_uc003vdu.2_Missense_Mutation_p.P439S|PIK3CG_uc003vdw.2_Missense_Mutation_p.P439S	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	439					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						CGGTAAAGCTCCAGCACTGTC	0.512													49	152	---	---	---	---	PASS	T	106509321	T	T	106509321	3	4	19	1	0	0	0	0	1	0	0	0	11916	855	30	2	1317	2	PIK3CG	7	106509321	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	6809951	106509321	52629342	235	9404										
DLD	1738	broad.mit.edu	37	chr7	107557360	107557360	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agctgggaattgaactagatCccagaggtagaattccagtc	11	8	0	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:107557360C>T	uc003vet.2	+	10	1107	c.997C>T	c.(997-999)CCC>TCC	p.P333S	DLD_uc011kmg.1_Missense_Mutation_p.P285S|DLD_uc011kmh.1_Missense_Mutation_p.P310S|DLD_uc011kmi.1_Missense_Mutation_p.P234S	NM_000108	NP_000099	P09622	DLDH_HUMAN	dihydrolipoamide dehydrogenase precursor	333					branched chain family amino acid catabolic process|cell redox homeostasis|lysine catabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	dihydrolipoyl dehydrogenase activity			central_nervous_system(1)	1					NADH(DB00157)	TGAACTAGATCCCAGAGGTAG	0.353													50	167	---	---	---	---	PASS	T	107557360	T	T	107557360	3	4	19	1	0	0	0	0	1	0	0	0	4551	855	30	2	1035	2	DLD	7	107557360	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1048039	107557360	51581303	236	9405										
C7orf66	154907	broad.mit.edu	37	chr7	108524507	108524507	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaaacagcattgcaaggcaaCtgaggctccaaagtctctga	10	10	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:108524507C>A	uc003vfo.2	-	1	131	c.83G>T	c.(82-84)AGT>ATT	p.S28I		NM_001024607	NP_001019778	A4D0T2	CG066_HUMAN	hypothetical protein LOC154907	28	Helical; (Potential).					integral to membrane				ovary(2)	2						TGCAAGGCAACTGAGGCTCCA	0.383													17	77	---	---	---	---	PASS	A	108524507	A	A	108524507	3	1	19	1	0	0	0	0	1	0	0	0	2412	565	20	3	272	3	C7orf66	7	108524507	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	967147	108524507	50614156	237	9406										
SND1	27044	broad.mit.edu	37	chr7	127569298	127569298	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agcgggcaggtcgttctgaaGctgtggtggaatacgtcttc	15	8	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:127569298G>T	uc003vmi.2	+	15	1811	c.1585G>T	c.(1585-1587)GCT>TCT	p.A529S	SND1_uc010lle.2_Missense_Mutation_p.A182S	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	529	TNase-like 4.				gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						TCGTTCTGAAGCTGTGGTGGA	0.428													62	187	---	---	---	---	PASS	T	127569298	T	T	127569298	3	4	19	1	0	0	0	0	1	0	0	0	14844	971	34	3	1643	3	SND1	7	127569298	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	19044791	127569298	31569365	238	9407										
FLNC	2318	broad.mit.edu	37	chr7	128485140	128485140	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaggtgctgatccacaacaaCgcggatggcacctaccacat	10	13	0	1	rs117864464	by1000genomes	TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:128485140C>A	uc003vnz.3	+	21	3830	c.3621C>A	c.(3619-3621)AAC>AAA	p.N1207K	FLNC_uc003voa.3_Missense_Mutation_p.N1207K	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1207	Filamin 10.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						TCCACAACAACGCGGATGGCA	0.607													30	74	---	---	---	---	PASS	A	128485140	A	A	128485140	3	1	19	1	0	0	0	0	1	0	0	0	5935	535	19	1	3703	1	FLNC	7	128485140	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	915842	128485140	30653523	239	9408										
NUP205	23165	broad.mit.edu	37	chr7	135279324	135279324	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gctcgcttggcactctgtgaAcaccctcagtggacccctgt	10	15	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:135279324A>T	uc003vsw.2	+	13	1891	c.1860A>T	c.(1858-1860)GAA>GAT	p.E620D		NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	620					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						CACTCTGTGAACACCCTCAGT	0.428													49	115	---	---	---	---	PASS	T	135279324	T	T	135279324	3	4	19	1	0	0	0	0	1	0	0	0	10759	40	2	5	1910	5	NUP205	7	135279324	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	6794184	135279324	23859339	240	9409										
CHRM2	1129	broad.mit.edu	37	chr7	136700605	136700605	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atcagaattggcaccaagacCccaaaaagtgactcatgtac	7	11	2	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:136700605C>G	uc003vtf.1	+	4	1616	c.993C>G	c.(991-993)ACC>ACG	p.T331T	CHRM2_uc003vtg.1_Silent_p.T331T|CHRM2_uc003vtj.1_Silent_p.T331T|CHRM2_uc003vtk.1_Silent_p.T331T|CHRM2_uc003vtl.1_Silent_p.T331T|CHRM2_uc003vtm.1_Silent_p.T331T|CHRM2_uc003vti.1_Silent_p.T331T|CHRM2_uc003vto.1_Silent_p.T331T|CHRM2_uc003vtn.1_Silent_p.T331T|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	331	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	GCACCAAGACCCCAAAAAGTG	0.453													35	102	---	---	---	---	PASS	G	136700605	G	G	136700605	2	3	19	1	0	0	0	0	0	0	0	1	3377	610	22	4		4	CHRM2	7	136700605	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	1421281	136700605	22438058	241	9410										
LUC7L2	51631	broad.mit.edu	37	chr7	139026191	139026191	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttctgcgggagttgcgctacCtgagcgcggccaccggccga	15	14	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:139026191C>G	uc011kqt.1	+	1	295	c.61C>G	c.(61-63)CTG>GTG	p.L21V	LUC7L2_uc011kqs.1_Intron|C7orf55_uc003vuw.3_Missense_Mutation_p.L21V	NM_016019	NP_057103	Q9Y383	LC7L2_HUMAN	LUC7-like 2	Error:Variant_position_missing_in_Q9Y383_after_alignment							enzyme binding|metal ion binding				0	Melanoma(164;0.242)					GTTGCGCTACCTGAGCGCGGC	0.652											OREG0018357	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	71	---	---	---	---	PASS	G	139026191	G	G	139026191	3	3	19	1	0	0	0	0	1	0	0	0	9083	680	24	4		4	LUC7L2	7	139026191	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2325586	139026191	20112472	242	9411										
RAB19	401409	broad.mit.edu	37	chr7	140125917	140125917	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agccccgttcttatggcccaGggtccaagtgaaaagaccca	10	13	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:140125917G>C	uc010lni.2	+	4	819	c.621G>C	c.(619-621)CAG>CAC	p.Q207H	RAB19_uc011krc.1_Missense_Mutation_p.Q207H	NM_001008749	NP_001008749	A4D1S5	RAB19_HUMAN	RAB19, member RAS oncogene family	207					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0	Melanoma(164;0.0142)					TTATGGCCCAGGGTCCAAGTG	0.577													33	86	---	---	---	---	PASS	C	140125917	C	C	140125917	3	2	19	1	0	0	0	0	1	0	0	0	12904	991	35	4	631	4	RAB19	7	140125917	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1099726	140125917	19012746	243	9412										
FAM131B	9715	broad.mit.edu	37	chr7	143054027	143054027	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atgagggactgatcgctggcTtcccaggcatctgacgaccc	12	13	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:143054027T>A	uc003wct.2	-	6	2321	c.615A>T	c.(613-615)GAA>GAT	p.E205D	FAM131B_uc010loz.2_Missense_Mutation_p.E173D|FAM131B_uc003wcu.3_Missense_Mutation_p.E205D|FAM131B_uc010lpa.2_Missense_Mutation_p.E233D	NM_014690	NP_055505	Q86XD5	F131B_HUMAN	hypothetical protein LOC9715 isoform b	205											0	Melanoma(164;0.205)					GATCGCTGGCTTCCCAGGCAT	0.552													32	64	---	---	---	---	PASS	A	143054027	A	A	143054027	3	1	19	1	0	0	0	0	1	0	0	0	5440	1606	56	5	387	5	FAM131B	7	143054027	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	2928110	143054027	16084636	244	9413										
EPHA1	2041	broad.mit.edu	37	chr7	143098452	143098452	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccgtcggagctgaatgcccaCatcctggtcactctccatgt	9	15	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:143098452C>A	uc003wcz.2	-	3	484	c.397G>T	c.(397-399)GTG>TTG	p.V133L		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	133	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				TGAATGCCCACATCCTGGTCA	0.607													102	179	---	---	---	---	PASS	A	143098452	A	A	143098452	3	1	19	1	0	0	0	0	1	0	0	0	5165	478	17	3	2597	3	EPHA1	7	143098452	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	44425	143098452	16040211	245	9414										
ZNF777	27153	broad.mit.edu	37	chr7	149129236	149129236	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgagtccgctggtggcgcagCaggtgcgaggggcggctgaa	20	9	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:149129236C>A	uc003wfv.2	-	6	2290	c.2127G>T	c.(2125-2127)CTG>CTT	p.L709L		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	709	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GGTGGCGCAGCAGGTGCGAGG	0.637													35	75	---	---	---	---	PASS	A	149129236	A	A	149129236	2	1	19	1	0	0	0	0	0	0	0	1	18147	697	25	3		3	ZNF777	7	149129236	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	6030784	149129236	10009427	246	9415										
ZNF746	155061	broad.mit.edu	37	chr7	149174139	149174139	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggaaaagttggaatggacacCtgcggtaaggggagagcaga	17	5	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr7:149174139C>A	uc003wfw.2	-	6	984	c.713_splice	c.e6-1	p.G238_splice	ZNF746_uc010lpi.2_Splice_Site_p.G238_splice	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2						negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GAATGGACACCTGCGGTAAGG	0.617													21	43	---	---	---	---	PASS	A	149174139	A	A	149174139	5	1	19	1	0	0	0	0	0	0	1	0	18126	695	24	3	1233	3	ZNF746	7	149174139	Splice_Site	SNP	C	TCGA-21-1070-01A-01D-1521-08	44903	149174139	9964524	247	9416										
TNKS	8658	broad.mit.edu	37	chr8	9592555	9592555	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagagaatatcaactgcagaGacacccagggcagaaattca	9	10	2	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:9592555G>T	uc003wss.2	+	16	2499	c.2494G>T	c.(2494-2496)GAC>TAC	p.D832Y	TNKS_uc011kww.1_Missense_Mutation_p.D595Y|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	832					mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		CAACTGCAGAGACACCCAGGG	0.542													35	94	---	---	---	---	PASS	T	9592555	T	T	9592555	3	4	19	1	0	0	0	0	1	0	0	0	16316	942	33	2	2556	2	TNKS	8	9592555	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08		9592555	136771467	248	9417										
SOX7	83595	broad.mit.edu	37	chr8	10690487	10690487	+	Missense_Mutation	SNP	C	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggctccttgctcctgagccCctaaaccctgtggagattaa							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:10690487C>A	uc011kwz.1	-	3	170	c.137G>T	c.(136-138)GGG>GTG	p.G46V	PINX1_uc003wth.2_Missense_Mutation_p.G46V|PINX1_uc003wti.2_Missense_Mutation_p.G46V	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	Error:Variant_position_missing_in_Q9BT81_after_alignment					endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		CTCCTGAGCCCCTAAACCCTG	0.463													7	13	---	---	---	---	PASS	A	10690487	A	A	10690487	3	1	19	1	0	0	0	0	1	0	0	0	14956	623	22	3		3	SOX7	8	10690487	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1097932	10690487	135673535	249	9418	275	2								
SOX7	83595	broad.mit.edu	37	chr8	10690488	10690488	+	Missense_Mutation	SNP	C	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggctccttgctcctgagcccCtaaaccctgtggagattaaa							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:10690488C>A	uc011kwz.1	-	3	169	c.136G>T	c.(136-138)GGG>TGG	p.G46W	PINX1_uc003wth.2_Missense_Mutation_p.G46W|PINX1_uc003wti.2_Missense_Mutation_p.G46W	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	Error:Variant_position_missing_in_Q9BT81_after_alignment					endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		TCCTGAGCCCCTAAACCCTGT	0.458													7	13	---	---	---	---	PASS	A	10690488	A	A	10690488	3	1	19	1	0	0	0	0	1	0	0	0	14956	681	24	3		3	SOX7	8	10690488	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1	10690488	135673534	250	9419	275	2								
EFHA2	286097	broad.mit.edu	37	chr8	16962001	16962001	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aactttgaagatttttatagGtgagcttatttttatatttt	6	2	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:16962001G>A	uc003wxd.2	+	10	1127	c.1085_splice	c.e10+1	p.R362_splice		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2							integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		ATTTTTATAGGTGAGCttatt	0.308													19	50	---	---	---	---	PASS	A	16962001	A	A	16962001	5	1	19	1	0	0	0	0	0	0	1	0	4944	1275	44	3	1124	3	EFHA2	8	16962001	Splice_Site	SNP	G	TCGA-21-1070-01A-01D-1521-08	6271513	16962001	129402021	251	9420										
STC1	6781	broad.mit.edu	37	chr8	23708999	23708999	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaggaagaccttggaggtgaCcccgttggcgatgcatttta	14	8	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:23708999C>A	uc003xdw.1	-	3	591	c.307G>T	c.(307-309)GTC>TTC	p.V103F		NM_003155	NP_003146	P52823	STC1_HUMAN	stanniocalcin 1 precursor	103					cell surface receptor linked signaling pathway|cell-cell signaling|cellular calcium ion homeostasis		hormone activity			skin(3)|upper_aerodigestive_tract(1)	4		Prostate(55;0.055)|Breast(100;0.116)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		TTGGAGGTGACCCCGTTGGCG	0.512													29	85	---	---	---	---	PASS	A	23708999	A	A	23708999	3	1	19	1	0	0	0	0	1	0	0	0	15274	507	18	3	444	3	STC1	8	23708999	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	6746998	23708999	122655023	252	9421										
NEFM	4741	broad.mit.edu	37	chr8	24771526	24771526	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgctcagctccgccgagagcAgccttgacttcagccagtcc	10	16	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:24771526A>T	uc003xed.3	+	1	253	c.220A>T	c.(220-222)AGC>TGC	p.S74C	NEFM_uc011lac.1_Missense_Mutation_p.S74C|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	74	Head.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		CGCCGAGAGCAGCCTTGACTT	0.682													17	15	---	---	---	---	PASS	T	24771526	T	T	24771526	3	4	19	1	0	0	0	0	1	0	0	0	10316	188	7	5	222	5	NEFM	8	24771526	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	1062527	24771526	121592496	253	9422										
WRN	7486	broad.mit.edu	37	chr8	30999085	30999085	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agaagtttctcggtataacaAatttatgaagatttgcgccc	8	7	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:30999085A>G	uc003xio.3	+	25	3895	c.3107A>G	c.(3106-3108)AAA>AGA	p.K1036R	WRN_uc010lvk.2_Missense_Mutation_p.K503R	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	1036					base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		CGGTATAACAAATTTATGAAG	0.408			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				36	151	---	---	---	---	PASS	G	30999085	G	G	30999085	3	3	19	1	0	0	0	0	1	0	0	0	17399	14	1	5	3201	5	WRN	8	30999085	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	6227559	30999085	115364937	254	9423										
UNC5D	137970	broad.mit.edu	37	chr8	35579763	35579763	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcgacattgctttgtactcgGgcttgggtgctgccgtcgtg	15	10	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:35579763G>T	uc003xjr.1	+	9	1481	c.1153G>T	c.(1153-1155)GGC>TGC	p.G385C	UNC5D_uc003xjs.1_Missense_Mutation_p.G380C|UNC5D_uc003xju.1_5'Flank|UNC5D_uc003xjt.1_Missense_Mutation_p.G143C	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	385	Helical; (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		TTTGTACTCGGGCTTGGGTGC	0.522													81	252	---	---	---	---	PASS	T	35579763	T	T	35579763	3	4	19	1	0	0	0	0	1	0	0	0	16992	1232	43	3	1187	3	UNC5D	8	35579763	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	4580678	35579763	110784259	255	9424										
ADAM18	8749	broad.mit.edu	37	chr8	39521396	39521396	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggttctggaccatgttgtaCatcaaagtgtgaggtaagtt	12	5	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:39521396C>T	uc003xni.2	+	13	1313	c.1313C>T	c.(1312-1314)ACA>ATA	p.T438I	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.T414I	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	438	Disintegrin.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			CCATGTTGTACATCAAAGTGT	0.328													29	104	---	---	---	---	PASS	T	39521396	T	T	39521396	3	4	19	1	0	0	0	0	1	0	0	0	239	478	17	3	1363	3	ADAM18	8	39521396	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	3941633	39521396	106842626	256	9425										
PXDNL	137902	broad.mit.edu	37	chr8	52323863	52323863	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcacacgttcccgtatcagcTgcagcgtgtgctcaaaaatc	8	13	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:52323863T>A	uc003xqu.3	-	16	2110	c.2009A>T	c.(2008-2010)CAG>CTG	p.Q670L	PXDNL_uc003xqt.3_5'Flank	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	670					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CCGTATCAGCTGCAGCGTGTG	0.522													8	11	---	---	---	---	PASS	A	52323863	A	A	52323863	3	1	19	1	0	0	0	0	1	0	0	0	12848	1580	55	5	2414	5	PXDNL	8	52323863	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	12802467	52323863	94040159	257	9426										
PCMTD1	115294	broad.mit.edu	37	chr8	52733171	52733171	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcttttccttttgggtggagCcctttgaggaatccccttgg	11	10	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:52733171C>A	uc003xqx.3	-	6	1155	c.814G>T	c.(814-816)GCT>TCT	p.A272S	PCMTD1_uc011ldm.1_Missense_Mutation_p.A142S|PCMTD1_uc003xqw.3_Missense_Mutation_p.A272S|PCMTD1_uc011ldn.1_Missense_Mutation_p.A84S|PCMTD1_uc010lya.2_Missense_Mutation_p.A196S	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	272						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				TTGGGTGGAGCCCTTTGAGGA	0.403													10	383	---	---	---	---	PASS	A	52733171	A	A	52733171	3	1	19	1	0	0	0	0	1	0	0	0	11586	739	26	3	263	3	PCMTD1	8	52733171	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	409308	52733171	93630851	258	9427										
TCEA1	6917	broad.mit.edu	37	chr8	54891624	54891624	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttctttttacatttgccacaTgtgaacaagtcagtctgggt	8	8	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:54891624T>A	uc003xru.2	-	8	1109	c.786A>T	c.(784-786)ACA>ACT	p.T262T	TCEA1_uc003xrv.2_Silent_p.T241T|TCEA1_uc011ldw.1_Silent_p.T78T|TCEA1_uc010lyg.2_RNA	NM_006756	NP_006747	P23193	TCEA1_HUMAN	transcription elongation factor A 1 isoform 1	262	TFIIS-type.				positive regulation of viral transcription|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	nucleoplasm	DNA binding|translation elongation factor activity|zinc ion binding				0		Lung NSC(129;0.109)|all_epithelial(80;0.11)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;9.1e-07)|Epithelial(17;9.44e-05)|all cancers(17;0.000699)			ATTTGCCACATGTGAACAAGT	0.383			T	PLAG1	salivary adenoma								38	91	---	---	---	---	PASS	A	54891624	A	A	54891624	2	1	19	1	0	0	0	0	0	0	0	1	15664	1451	51	5		5	TCEA1	8	54891624	Silent	SNP	T	TCGA-21-1070-01A-01D-1521-08	2158453	54891624	91472398	259	9428										
FAM110B	90362	broad.mit.edu	37	chr8	59059414	59059414	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acatccgcaaggtgaccagcGtgaagcccctcaaggccatc	10	15	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:59059414G>C	uc003xtj.1	+	5	1505	c.625G>C	c.(625-627)GTG>CTG	p.V209L		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	209						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				GGTGACCAGCGTGAAGCCCCT	0.657													37	120	---	---	---	---	PASS	C	59059414	C	C	59059414	3	2	19	1	0	0	0	0	1	0	0	0	5397	1145	40	4	627	4	FAM110B	8	59059414	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	4167790	59059414	87304608	260	9429										
COPS5	10987	broad.mit.edu	37	chr8	67971611	67971611	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atcacttccaagttgcctccCgatctggcatgcatcaccat	6	15	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:67971611C>G	uc003xxe.2	-	2	544	c.213G>C	c.(211-213)TCG>TCC	p.S71S	COPS5_uc003xxd.2_Silent_p.S7S|COPS5_uc003xxf.2_Silent_p.S116S|COPS5_uc010lyu.1_5'Flank|COPS5_uc010lyv.1_Silent_p.S71S	NM_006837	NP_006828	Q92905	CSN5_HUMAN	COP9 signalosome subunit 5	71	MPN.				cullin deneddylation|transcription from RNA polymerase II promoter	eukaryotic translation initiation factor 3 complex|signalosome	metal ion binding|metallopeptidase activity|protein binding|transcription coactivator activity|translation initiation factor activity			ovary(1)|skin(1)	2	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00389)|OV - Ovarian serous cystadenocarcinoma(28;0.00691)|all cancers(69;0.0205)|BRCA - Breast invasive adenocarcinoma(89;0.153)			AGTTGCCTCCCGATCTGGCAT	0.428													73	203	---	---	---	---	PASS	G	67971611	G	G	67971611	2	3	19	1	0	0	0	0	0	0	0	1	3736	639	23	4		4	COPS5	8	67971611	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	8912197	67971611	78392411	261	9430										
TRAM1	23471	broad.mit.edu	37	chr8	71520391	71520391	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tctgcaggacgaattcgtggCtcagcactggggggctcttg	15	10	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:71520391C>A	uc003xyo.1	-	1	214	c.44G>T	c.(43-45)AGC>ATC	p.S15I	TRAM1_uc011lfc.1_Intron	NM_014294	NP_055109	Q15629	TRAM1_HUMAN	translocation associated membrane protein 1	15	Cytoplasmic (Potential).				cotranslational protein targeting to membrane|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity			ovary(1)	1			Epithelial(68;0.00679)|all cancers(69;0.0324)|OV - Ovarian serous cystadenocarcinoma(28;0.0509)			GAATTCGTGGCTCAGCACTGG	0.647													36	95	---	---	---	---	PASS	A	71520391	A	A	71520391	3	1	19	1	0	0	0	0	1	0	0	0	16448	797	28	3	1124	3	TRAM1	8	71520391	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	3548780	71520391	74843631	262	9431										
KIAA1429	25962	broad.mit.edu	37	chr8	95511670	95511670	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgcaagctctcctgtgtcctTactaaatgtgctgaccactc	7	13	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:95511670T>A	uc003ygo.1	-	17	4175	c.4162A>T	c.(4162-4164)AAG>TAG	p.K1388*	KIAA1429_uc010maz.1_Intron	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1388					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			CCTGTGTCCTTACTAAATGTG	0.269													17	46	---	---	---	---	PASS	A	95511670	A	A	95511670	4	1	19	1	0	0	0	0	0	1	0	0	8231	1763	61	5	1308	5	KIAA1429	8	95511670	Nonsense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	23991279	95511670	50852352	263	9432										
CSMD3	114788	broad.mit.edu	37	chr8	113275906	113275906	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	caccactccaggtaccattcCctacacaggtcaaaacagca	5	16	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:113275906C>T	uc003ynu.2	-	61	9983	c.9824G>A	c.(9823-9825)GGG>GAG	p.G3275E	CSMD3_uc003yns.2_Missense_Mutation_p.G2477E|CSMD3_uc003ynt.2_Missense_Mutation_p.G3235E|CSMD3_uc011lhx.1_Missense_Mutation_p.G3106E	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3275	Sushi 25.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GGTACCATTCCCTACACAGGT	0.408										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			21	70	---	---	---	---	PASS	T	113275906	T	T	113275906	3	4	19	1	0	0	0	0	1	0	0	0	3946	623	22	3	1343	3	CSMD3	8	113275906	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	17764236	113275906	33088116	264	9433										
CSMD3	114788	broad.mit.edu	37	chr8	113657367	113657367	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gggttacatcaacagtccatGtacaattcagagaatttgga	9	7	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:113657367G>T	uc003ynu.2	-	20	3440	c.3281C>A	c.(3280-3282)ACA>AAA	p.T1094K	CSMD3_uc003yns.2_Missense_Mutation_p.T366K|CSMD3_uc003ynt.2_Missense_Mutation_p.T1054K|CSMD3_uc011lhx.1_Missense_Mutation_p.T990K	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1094	Extracellular (Potential).|CUB 6.					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						AACAGTCCATGTACAATTCAG	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			26	88	---	---	---	---	PASS	T	113657367	T	T	113657367	3	4	19	1	0	0	0	0	1	0	0	0	3946	1377	48	3	8050	3	CSMD3	8	113657367	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	381461	113657367	32706655	265	9434										
TG	7038	broad.mit.edu	37	chr8	133899310	133899310	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tacaagagaaccaaaatgccCtcaaattccttgcttctctc	4	13	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:133899310C>G	uc003ytw.2	+	9	1734	c.1693C>G	c.(1693-1695)CTC>GTC	p.L565V		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	565					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CCAAAATGCCCTCAAATTCCT	0.448													55	170	---	---	---	---	PASS	G	133899310	G	G	133899310	3	3	19	1	0	0	0	0	1	0	0	0	15810	681	24	4	1727	4	TG	8	133899310	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	20241943	133899310	12464712	266	9435										
PLEC	5339	broad.mit.edu	37	chr8	144996487	144996487	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agcgctcccgctgtagcaggCtgtccttttcagagaggaag	13	11	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:144996487C>A	uc003zaf.1	-	32	8083	c.7913G>T	c.(7912-7914)AGC>ATC	p.S2638I	PLEC_uc003zab.1_Missense_Mutation_p.S2501I|PLEC_uc003zac.1_Missense_Mutation_p.S2505I|PLEC_uc003zad.2_Missense_Mutation_p.S2501I|PLEC_uc003zae.1_Missense_Mutation_p.S2469I|PLEC_uc003zag.1_Missense_Mutation_p.S2479I|PLEC_uc003zah.2_Missense_Mutation_p.S2487I|PLEC_uc003zaj.2_Missense_Mutation_p.S2528I	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2638	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						CTGTAGCAGGCTGTCCTTTTC	0.592													30	59	---	---	---	---	PASS	A	144996487	A	A	144996487	3	1	19	1	0	0	0	0	1	0	0	0	12052	797	28	3	6145	3	PLEC	8	144996487	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	11097177	144996487	1367535	267	9436										
GPR172A	79581	broad.mit.edu	37	chr8	145584541	145584541	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccctgctgcatggcgggggcCggccggcattgctggcagcc	17	15	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:145584541C>T	uc003zcc.1	+	5	1361	c.1204C>T	c.(1204-1206)CGG>TGG	p.R402W	FBXL6_uc003zbz.2_5'Flank|FBXL6_uc003zca.2_5'Flank|FBXL6_uc003zcb.2_5'Flank|FBXL6_uc010mfx.2_5'Flank|GPR172A_uc003zcd.1_Missense_Mutation_p.R402W|GPR172A_uc003zce.1_Missense_Mutation_p.R402W|GPR172A_uc010mfy.1_Missense_Mutation_p.R402W|GPR172A_uc003zcf.1_Missense_Mutation_p.R402W|GPR172A_uc011llc.1_Missense_Mutation_p.R314W	NM_024531	NP_078807	Q9HAB3	RFT3_HUMAN	G protein-coupled receptor 172A precursor	402						integral to plasma membrane	receptor activity|riboflavin 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;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			TGGCGGGGGCCGGCCGGCATT	0.657													18	37	---	---	---	---	PASS	T	145584541	T	T	145584541	3	4	19	1	0	0	0	0	1	0	0	0	6669	643	23	1	1218	1	GPR172A	8	145584541	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	588054	145584541	779481	268	9437										
SLC39A4	55630	broad.mit.edu	37	chr8	145640760	145640760	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagcactgcccggagcccccGcccccaccgcctcctccagc	8	25	0	0	rs141890870	byFrequency	TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr8:145640760G>T	uc003zcq.2	-	3	618	c.518C>A	c.(517-519)GCG>GAG	p.A173E	SLC39A4_uc003zcm.1_5'Flank|SLC39A4_uc003zcn.2_5'Flank|SLC39A4_uc003zco.2_Splice_Site|SLC39A4_uc003zcp.2_Missense_Mutation_p.A148E	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	173	Extracellular (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)			CGGAGCCCCCGCCCCCACCGC	0.682													6	16	---	---	---	---	PASS	T	145640760	T	T	145640760	3	4	19	1	0	0	0	0	1	0	0	0	14620	1087	38	1	1465	1	SLC39A4	8	145640760	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	56219	145640760	723262	269	9438										
KIAA1432	57589	broad.mit.edu	37	chr9	5763163	5763163	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccattctgtcctcctgttgtActagcccagtctgttgaaaa	7	12	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:5763163A>G	uc003zji.2	+	18	1992	c.1899A>G	c.(1897-1899)GTA>GTG	p.V633V	KIAA1432_uc003zjh.2_Silent_p.V633V|KIAA1432_uc003zjl.3_Silent_p.V596V|KIAA1432_uc003zjj.1_Silent_p.V175V	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	712						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		CTCCTGTTGTACTAGCCCAGT	0.468													40	123	---	---	---	---	PASS	G	5763163	G	G	5763163	2	3	19	1	0	0	0	0	0	0	0	1	8233	378	14	5		5	KIAA1432	9	5763163	Silent	SNP	A	TCGA-21-1070-01A-01D-1521-08		5763163	135450268	270	9439										
ACER2	340485	broad.mit.edu	37	chr9	19446415	19446415	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcccctacctgcactgcatgTggtaagcccctgctaatggg	10	14	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:19446415T>A	uc003zny.1	+	5	798	c.640T>A	c.(640-642)TGG>AGG	p.W214R	ACER2_uc003znx.1_RNA|ACER2_uc003znz.1_Missense_Mutation_p.W165R	NM_001010887	NP_001010887	Q5QJU3	ACER2_HUMAN	alkaline ceramidase 2	214	Helical; (Potential).				ceramide metabolic process|negative regulation of cell adhesion mediated by integrin|negative regulation of cell-matrix adhesion|negative regulation of protein glycosylation in Golgi|positive regulation of cell proliferation|response to retinoic acid|sphingosine biosynthetic process	integral to Golgi membrane	ceramidase activity			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2						GCACTGCATGTGGTAAGCCCC	0.602													65	174	---	---	---	---	PASS	A	19446415	A	A	19446415	3	1	19	1	0	0	0	0	1	0	0	0	139	1710	59	5	658	5	ACER2	9	19446415	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	13683252	19446415	121767016	271	9440										
C9orf131	138724	broad.mit.edu	37	chr9	35045314	35045314	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atgaaggggaagatggtgagCcaggtcccatcccaagggcc	15	10	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:35045314C>G	uc003zvw.2	+	2	2717	c.2688C>G	c.(2686-2688)AGC>AGG	p.S896R	C9orf131_uc003zvu.2_Missense_Mutation_p.S848R|C9orf131_uc003zvv.2_Missense_Mutation_p.S823R|C9orf131_uc003zvx.2_Missense_Mutation_p.S861R	NM_203299	NP_976044	Q5VYM1	CI131_HUMAN	hypothetical protein LOC138724 isoform A	896											0	all_epithelial(49;0.22)		LUSC - Lung squamous cell carcinoma(32;0.00117)|Lung(28;0.00309)			AGATGGTGAGCCAGGTCCCAT	0.552													118	379	---	---	---	---	PASS	G	35045314	G	G	35045314	3	3	19	1	0	0	0	0	1	0	0	0	2457	738	26	4	2710	4	C9orf131	9	35045314	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	15598899	35045314	106168117	272	9441										
PIGO	84720	broad.mit.edu	37	chr9	35095564	35095564	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acactgaggctttctgcatcCtgataggggtggggaagtaa	14	7	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:35095564C>A	uc003zwd.2	-	2	396	c.0_splice	c.e2-1		PIGO_uc003zwc.1_Translation_Start_Site|PIGO_uc003zwe.2_Splice_Site|PIGO_uc003zwf.2_Splice_Site|PIGO_uc003zwg.1_Splice_Site	NM_032634	NP_116023	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis,						C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	transferase activity			large_intestine(1)|ovary(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			TTTCTGCATCCTGATAGGGGT	0.527													13	41	---	---	---	---	PASS	A	35095564	A	A	35095564	5	1	19	1	0	0	0	0	0	0	1	0	11894	695	24	3	3310	3	PIGO	9	35095564	Splice_Site	SNP	C	TCGA-21-1070-01A-01D-1521-08	50250	35095564	106117867	273	9442										
FGD3	89846	broad.mit.edu	37	chr9	95797692	95797692	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cggaccctgaggagaggctgGactcggggcatgtgtggaag	19	8	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:95797692G>T	uc004asw.2	+	18	2627	c.1999G>T	c.(1999-2001)GAC>TAC	p.D667Y	FGD3_uc004asx.2_Missense_Mutation_p.D666Y|FGD3_uc004asz.2_Missense_Mutation_p.D667Y|FGD3_uc011luc.1_Missense_Mutation_p.D270Y	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	667	PH 2.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						GGAGAGGCTGGACTCGGGGCA	0.657													9	11	---	---	---	---	PASS	T	95797692	T	T	95797692	3	4	19	1	0	0	0	0	1	0	0	0	5834	1174	41	2	2061	2	FGD3	9	95797692	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	60702128	95797692	45415739	274	9443										
MUSK	4593	broad.mit.edu	37	chr9	113547183	113547183	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tccttctctgtctcacctacAtactccatgactgtaataat	3	13	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:113547183A>G	uc004bey.2	+	11	1571	c.1473A>G	c.(1471-1473)ACA>ACG	p.T491T	MUSK_uc004bez.1_Silent_p.T71T	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	491	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						TCTCACCTACATACTCCATGA	0.428													62	127	---	---	---	---	PASS	G	113547183	G	G	113547183	2	3	19	1	0	0	0	0	0	0	0	1	9989	204	8	5		5	MUSK	9	113547183	Silent	SNP	A	TCGA-21-1070-01A-01D-1521-08	17749491	113547183	27666248	275	9444										
UGCG	7357	broad.mit.edu	37	chr9	114685132	114685132	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	caatgctttttgactagtatGaagtgctcctttgtgtacaa	8	7	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:114685132G>C	uc004bft.2	+	3	534	c.244G>C	c.(244-246)GAA>CAA	p.E82Q		NM_003358	NP_003349	Q16739	CEGT_HUMAN	ceramide glucosyltransferase	82	Cytoplasmic (Potential).				epidermis development|glucosylceramide biosynthetic process	Golgi membrane|integral to membrane|membrane fraction	ceramide glucosyltransferase activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(323;0.0433)	Miglustat(DB00419)	TGACTAGTATGAAGTGCTCCT	0.313													28	68	---	---	---	---	PASS	C	114685132	C	C	114685132	3	2	19	1	0	0	0	0	1	0	0	0	16936	1291	45	2	254	2	UGCG	9	114685132	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1137949	114685132	26528299	276	9445										
ROD1	9991	broad.mit.edu	37	chr9	115038169	115038169	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agattagttactttgccaaaTggtagacctaatgatatgat	8	5	0	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:115038169T>C	uc004bfw.2	-	4	430	c.243A>G	c.(241-243)CCA>CCG	p.P81P	ROD1_uc004bfv.2_Silent_p.P87P|ROD1_uc004bfx.2_Silent_p.P84P|ROD1_uc011lwu.1_Silent_p.P53P|ROD1_uc004bfy.2_Intron|ROD1_uc004bfz.2_Silent_p.P53P	NM_005156	NP_005147	O95758	ROD1_HUMAN	ROD1 regulator of differentiation 1 isoform 1	81	RRM 1.				anatomical structure morphogenesis|mRNA processing	nucleus	nucleotide binding|RNA binding			skin(1)	1						CTTTGCCAAATGGTAGACCTA	0.323													49	93	---	---	---	---	PASS	C	115038169	C	C	115038169	2	2	19	1	0	0	0	0	0	0	0	1	13519	1451	51	5		5	ROD1	9	115038169	Silent	SNP	T	TCGA-21-1070-01A-01D-1521-08	353037	115038169	26175262	277	9446										
ASTN2	23245	broad.mit.edu	37	chr9	119202971	119202971	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tagtggtgctggactcggaaCagcatcgaggctgagacctc	14	10	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:119202971C>T	uc004bjs.1	-	22	3800	c.3699G>A	c.(3697-3699)CTG>CTA	p.L1233L	ASTN2_uc004bjr.1_Silent_p.L1229L|ASTN2_uc004bjt.1_Silent_p.L1182L|ASTN2_uc004bjp.1_Silent_p.L326L|ASTN2_uc004bjq.1_Silent_p.L285L|ASTN2_uc011lxr.1_Silent_p.L285L|ASTN2_uc011lxs.1_Silent_p.L285L|ASTN2_uc011lxt.1_Silent_p.L285L|ASTN2_uc004bjo.1_Silent_p.L14L	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	1233	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GGACTCGGAACAGCATCGAGG	0.498													54	93	---	---	---	---	PASS	T	119202971	T	T	119202971	2	4	19	1	0	0	0	0	0	0	0	1	1065	465	17	3		3	ASTN2	9	119202971	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	4164802	119202971	22010460	278	9447										
ASTN2	23245	broad.mit.edu	37	chr9	119738430	119738430	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggcttgctcccctgtcaccaGatcatagcccctctcaagtg	8	16	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:119738430G>T	uc004bjs.1	-	9	1815	c.1714C>A	c.(1714-1716)CTG>ATG	p.L572M	ASTN2_uc004bjr.1_Missense_Mutation_p.L572M|ASTN2_uc004bjt.1_Missense_Mutation_p.L521M	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	572	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CCTGTCACCAGATCATAGCCC	0.488													22	39	---	---	---	---	PASS	T	119738430	T	T	119738430	3	4	19	1	0	0	0	0	1	0	0	0	1065	933	33	2	2597	2	ASTN2	9	119738430	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	535459	119738430	21475001	279	9448										
OR1K1	392392	broad.mit.edu	37	chr9	125563091	125563091	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gctgccgtgctccagctgccCtcagcctctgggaggctccg	13	17	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:125563091C>A	uc011lze.1	+	1	690	c.690C>A	c.(688-690)CCC>CCA	p.P230P		NM_080859	NP_543135	Q8NGR3	OR1K1_HUMAN	olfactory receptor, family 1, subfamily K,	230	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TCCAGCTGCCCTCAGCCTCTG	0.637													25	52	---	---	---	---	PASS	A	125563091	A	A	125563091	2	1	19	1	0	0	0	0	0	0	0	1	10962	668	24	3		3	OR1K1	9	125563091	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	5824661	125563091	15650340	280	9449										
NR5A1	2516	broad.mit.edu	37	chr9	127245163	127245163	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cgcacctccaccaggcacagCagcagctgctggaatttgtc	10	15	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:127245163C>T	uc004boo.1	-	7	1447	c.1260G>A	c.(1258-1260)CTG>CTA	p.L420L		NM_004959	NP_004950	Q13285	STF1_HUMAN	nuclear receptor subfamily 5, group A, member 1	420	Important for dimerization.				cell-cell signaling|male gonad development|positive regulation of transcription from RNA polymerase II promoter|primary sex determination|regulation of steroid biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|phospholipid binding|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						CCAGGCACAGCAGCAGCTGCT	0.617													15	42	---	---	---	---	PASS	T	127245163	T	T	127245163	2	4	19	1	0	0	0	0	0	0	0	1	10635	697	25	3		3	NR5A1	9	127245163	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	1682072	127245163	13968268	281	9450										
GAPVD1	26130	broad.mit.edu	37	chr9	128099688	128099688	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttaccctgagagactagttCgaagcaggagctctgatata	10	9	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:128099688C>T	uc010mwx.2	+	17	3021	c.2695C>T	c.(2695-2697)CGA>TGA	p.R899*	GAPVD1_uc011lzs.1_Nonsense_Mutation_p.R899*|GAPVD1_uc004bpp.2_Nonsense_Mutation_p.R926*|GAPVD1_uc004bpq.2_Nonsense_Mutation_p.R899*|GAPVD1_uc004bpr.2_Nonsense_Mutation_p.R878*|GAPVD1_uc004bps.2_Nonsense_Mutation_p.R899*|GAPVD1_uc010mwy.1_Nonsense_Mutation_p.R732*	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	899					endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						gAGACTAGTTCGAAGCAGGAG	0.299													38	93	---	---	---	---	PASS	T	128099688	T	T	128099688	4	4	19	1	0	0	0	0	0	1	0	0	6239	876	31	2	2834	2	GAPVD1	9	128099688	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	854525	128099688	13113743	282	9451										
TTC16	158248	broad.mit.edu	37	chr9	130479668	130479668	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	actgggagacagctgtgctgCtcttctcccgcgcactccac	10	16	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:130479668C>T	uc004brq.1	+	3	314	c.247C>T	c.(247-249)CTC>TTC	p.L83F	PTRH1_uc004brm.2_5'Flank|PTRH1_uc004bro.2_5'Flank|PTRH1_uc010mxm.2_5'Flank|PTRH1_uc011mah.1_Intron|TTC16_uc011mai.1_Missense_Mutation_p.L83F|TTC16_uc004brr.1_Missense_Mutation_p.L76F|TTC16_uc010mxn.1_5'Flank	NM_144965	NP_659402	Q8NEE8	TTC16_HUMAN	tetratricopeptide repeat domain 16	83	TPR 1.						binding				0						AGCTGTGCTGCTCTTCTCCCG	0.642													29	35	---	---	---	---	PASS	T	130479668	T	T	130479668	3	4	19	1	0	0	0	0	1	0	0	0	16680	797	28	3	257	3	TTC16	9	130479668	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2379980	130479668	10733763	283	9452										
C9orf78	51759	broad.mit.edu	37	chr9	132593188	132593188	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcaggaatgccactcagcatCtggttggaaagcatctcctc	9	12	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr9:132593188C>G	uc004byp.2	-	6	576	c.504G>C	c.(502-504)CAG>CAC	p.Q168H	C9orf78_uc004byo.2_Missense_Mutation_p.Q93H|C9orf78_uc004byq.1_Missense_Mutation_p.Q114H	NM_016520	NP_057604	Q9NZ63	CI078_HUMAN	chromosome 9 open reading frame 78	168											0		Ovarian(14;0.00556)				CACTCAGCATCTGGTTGGAAA	0.468													28	43	---	---	---	---	PASS	G	132593188	G	G	132593188	3	3	19	1	0	0	0	0	1	0	0	0	2496	912	32	2	381	2	C9orf78	9	132593188	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2113520	132593188	8620243	284	9453										
ADARB2	105	broad.mit.edu	37	chr10	1405819	1405819	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaacgtgagcccgttcacctCcaccgctaccgcgaagaccg	10	17	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:1405819C>A	uc009xhq.2	-	3	855	c.481G>T	c.(481-483)GAG>TAG	p.E161*		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	161	DRBM 1.				mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		CCGTTCACCTCCACCGCTACC	0.677													7	31	---	---	---	---	PASS	A	1405819	A	A	1405819	4	1	19	1	0	0	0	0	0	1	0	0	283	864	30	2	1770	2	ADARB2	10	1405819	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08		1405819	134128928	285	9454										
SFMBT2	57713	broad.mit.edu	37	chr10	7217978	7217978	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggttttggtatgaatggagCagttctctgggcagttttca	13	5	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:7217978C>A	uc009xio.1	-	17	2049	c.1958G>T	c.(1957-1959)TGC>TTC	p.C653F	SFMBT2_uc001ijn.1_Missense_Mutation_p.C653F|SFMBT2_uc010qay.1_Missense_Mutation_p.C488F	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	653					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						ATGAATGGAGCAGTTCTCTGG	0.418													36	247	---	---	---	---	PASS	A	7217978	A	A	7217978	3	1	19	1	0	0	0	0	1	0	0	0	14158	710	25	3	746	3	SFMBT2	10	7217978	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	5812159	7217978	128316769	286	9455										
GAD2	2572	broad.mit.edu	37	chr10	26569998	26569998	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtccctttgcagtgctctgcTctcctggttagagaagaggt	12	10	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:26569998T>A	uc001isp.2	+	12	1721	c.1218T>A	c.(1216-1218)GCT>GCA	p.A406A	GAD2_uc001isq.2_Silent_p.A406A	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	406					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	AGTGCTCTGCTCTCCTGGTTA	0.488													51	180	---	---	---	---	PASS	A	26569998	A	A	26569998	2	1	19	1	0	0	0	0	0	0	0	1	6180	1538	54	5		5	GAD2	10	26569998	Silent	SNP	T	TCGA-21-1070-01A-01D-1521-08	19352020	26569998	108964749	287	9456										
PTCHD3	374308	broad.mit.edu	37	chr10	27702764	27702764	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agggcgccagcaggaagatcCaggggtgcgcgcccacctgc	16	14	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:27702764C>T	uc001itu.2	-	1	534	c.416G>A	c.(415-417)TGG>TAG	p.W139*		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	139	Helical; (Potential).				spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CAGGAAGATCCAGGGGTGCGC	0.657													19	73	---	---	---	---	PASS	T	27702764	T	T	27702764	4	4	19	1	0	0	0	0	0	1	0	0	12734	595	21	3	1903	3	PTCHD3	10	27702764	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1132766	27702764	107831983	288	9457										
ARMC4	55130	broad.mit.edu	37	chr10	28225785	28225785	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tccgtgcagcctaacgaggtCccgggtttccttatcttcag	10	13	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:28225785C>A	uc009xky.2	-	15	2220	c.2122G>T	c.(2122-2124)GAC>TAC	p.D708Y	ARMC4_uc010qds.1_Missense_Mutation_p.D233Y|ARMC4_uc010qdt.1_Missense_Mutation_p.D400Y|ARMC4_uc001itz.2_Missense_Mutation_p.D708Y	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	708							binding			ovary(4)|skin(2)	6						CTAACGAGGTCCCGGGTTTCC	0.478													43	169	---	---	---	---	PASS	A	28225785	A	A	28225785	3	1	19	1	0	0	0	0	1	0	0	0	953	855	30	2	1036	2	ARMC4	10	28225785	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	523021	28225785	107308962	289	9458										
ARHGAP12	94134	broad.mit.edu	37	chr10	32101679	32101679	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagcttgcaaagtggggcgtCgtgtaagaaacttctttaag	12	7	1	1	rs146011999	byFrequency	TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:32101679C>A	uc001ivz.1	-	15	2177	c.1907G>T	c.(1906-1908)CGA>CTA	p.R636L	ARHGAP12_uc001ivy.1_Missense_Mutation_p.R582L|ARHGAP12_uc009xls.2_Missense_Mutation_p.R587L|ARHGAP12_uc001iwb.1_Missense_Mutation_p.R629L|ARHGAP12_uc001iwc.1_Missense_Mutation_p.R604L|ARHGAP12_uc009xlq.1_Missense_Mutation_p.R557L|ARHGAP12_uc001iwd.1_Missense_Mutation_p.R604L	NM_018287	NP_060757	Q8IWW6	RHG12_HUMAN	Rho GTPase activating protein 12	636					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0		Prostate(175;0.0199)				AGTGGGGCGTCGTGTAAGAAA	0.338													42	117	---	---	---	---	PASS	A	32101679	A	A	32101679	3	1	19	1	0	0	0	0	1	0	0	0	865	884	31	2	657	2	ARHGAP12	10	32101679	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	3875894	32101679	103433068	290	9459										
ZNF33A	7581	broad.mit.edu	37	chr10	38345387	38345387	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	taggagaaaaccttatgaatGaaatggatattagaaatttc	8	3	0	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:38345387G>T	uc001izh.2	+	5	2510	c.2332G>T	c.(2332-2334)GAA>TAA	p.E778*	ZNF33A_uc001izg.2_Nonsense_Mutation_p.E779*|ZNF33A_uc010qev.1_Nonsense_Mutation_p.E785*|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	778						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						CCTTATGAATGAAATGGATAT	0.388													22	94	---	---	---	---	PASS	T	38345387	T	T	38345387	4	4	19	1	0	0	0	0	0	1	0	0	17851	1291	45	2	2349	2	ZNF33A	10	38345387	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	6243708	38345387	97189360	291	9460										
TMEM72	643236	broad.mit.edu	37	chr10	45423393	45423393	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gatcggcgtgggcactgagaCcttcctccagggccagttca	13	13	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:45423393C>G	uc001jbn.2	+	2	292	c.95C>G	c.(94-96)ACC>AGC	p.T32S	uc001jbk.1_Intron|uc001jbl.2_Intron|TMEM72_uc009xmm.1_Intron	NM_001123376	NP_001116848	A0PK05	TMM72_HUMAN	transmembrane protein 72	32	Helical; (Potential).					integral to membrane					0						GGCACTGAGACCTTCCTCCAG	0.542													34	165	---	---	---	---	PASS	G	45423393	G	G	45423393	3	3	19	1	0	0	0	0	1	0	0	0	16198	507	18	4	101	4	TMEM72	10	45423393	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	7078006	45423393	90111354	292	9461										
CHAT	1103	broad.mit.edu	37	chr10	50870730	50870730	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttgacaaccacctgctggcaCtgcgggagctggcccgggcc	14	15	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:50870730C>G	uc001jhz.2	+	14	2032	c.1879C>G	c.(1879-1881)CTG>GTG	p.L627V	CHAT_uc001jhv.1_Missense_Mutation_p.L509V|CHAT_uc001jhx.1_Missense_Mutation_p.L509V|CHAT_uc001jhy.1_Missense_Mutation_p.L509V|CHAT_uc001jia.2_Missense_Mutation_p.L509V|CHAT_uc010qgs.1_Missense_Mutation_p.L509V	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	627					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	CCTGCTGGCACTGCGGGAGCT	0.572													41	154	---	---	---	---	PASS	G	50870730	G	G	50870730	3	3	19	1	0	0	0	0	1	0	0	0	3313	564	20	4	1977	4	CHAT	10	50870730	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	5447337	50870730	84664017	293	9462										
ANK3	288	broad.mit.edu	37	chr10	61823935	61823935	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttgtggcattttttccgtctCtggtaacccatttttttaat	6	8	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:61823935C>G	uc001jky.2	-	39	12623	c.12431G>C	c.(12430-12432)AGA>ACA	p.R4144T	ANK3_uc001jkw.2_Missense_Mutation_p.R665T|ANK3_uc009xpa.2_Missense_Mutation_p.R665T|ANK3_uc001jkx.2_Missense_Mutation_p.R709T|ANK3_uc010qih.1_Missense_Mutation_p.R1532T|ANK3_uc001jkz.3_Missense_Mutation_p.R1525T|ANK3_uc001jkv.2_Missense_Mutation_p.R64T	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	4144	Death.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTTTCCGTCTCTGGTAACCCA	0.303													34	122	---	---	---	---	PASS	G	61823935	G	G	61823935	3	3	19	1	0	0	0	0	1	0	0	0	622	913	32	2	1035	2	ANK3	10	61823935	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	10953205	61823935	73710812	294	9463										
PBLD	64081	broad.mit.edu	37	chr10	70048725	70048725	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaggcggacgaggagcttttGggtatctggagaataacaga	16	5	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:70048725G>C	uc001jns.1	-	7	678	c.475C>G	c.(475-477)CAA>GAA	p.Q159E	PBLD_uc001jnr.1_Missense_Mutation_p.Q126E|PBLD_uc001jnt.1_Missense_Mutation_p.Q159E|PBLD_uc001jnu.1_Missense_Mutation_p.Q159E|PBLD_uc001jnv.1_Missense_Mutation_p.Q126E	NM_022129	NP_071412	P30039	PBLD_HUMAN	MAWD binding protein isoform a	159					biosynthetic process		isomerase activity			skin(2)|ovary(1)	3						AGGAGCTTTTGGGTATCTGGA	0.512													13	240	---	---	---	---	PASS	C	70048725	C	C	70048725	3	2	19	1	0	0	0	0	1	0	0	0	11489	1357	47	4	496	4	PBLD	10	70048725	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	8224790	70048725	65486022	295	9464										
TET1	80312	broad.mit.edu	37	chr10	70446379	70446379	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcacataagataagggcagtGgaaaagaaacctattccccg	10	9	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:70446379G>T	uc001jok.3	+	11	5824	c.5319G>T	c.(5317-5319)GTG>GTT	p.V1773V		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1773					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						TAAGGGCAGTGGAAAAGAAAC	0.468													38	147	---	---	---	---	PASS	T	70446379	T	T	70446379	2	4	19	1	0	0	0	0	0	0	0	1	15766	1335	47	3		3	TET1	10	70446379	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	397654	70446379	65088368	296	9465										
SGPL1	8879	broad.mit.edu	37	chr10	72617373	72617373	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccttacctttctctgcagacGccttctggcaagaggggaga	11	12	2	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:72617373G>T	uc001jrm.2	+	6	634	c.412G>T	c.(412-414)GCC>TCC	p.A138S		NM_003901	NP_003892	O95470	SGPL1_HUMAN	sphingosine-1-phosphate lyase 1	138	Cytoplasmic (Potential).				apoptosis|carboxylic acid metabolic process|ceramide metabolic process|sphingolipid catabolic process	integral to endoplasmic reticulum membrane	carboxy-lyase activity|pyridoxal phosphate binding|sphinganine-1-phosphate aldolase activity				0					Pyridoxal Phosphate(DB00114)	CTCTGCAGACGCCTTCTGGCA	0.498													32	160	---	---	---	---	PASS	T	72617373	T	T	72617373	3	4	19	1	0	0	0	0	1	0	0	0	14218	1087	38	1	430	1	SGPL1	10	72617373	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2170994	72617373	62917374	297	9466										
CDH23	64072	broad.mit.edu	37	chr10	73562740	73562740	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aagcgtgtatgagaatgagcCggcgggcacctcggtcatca	14	10	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:73562740C>G	uc001jrx.3	+	52	7945	c.7568C>G	c.(7567-7569)CCG>CGG	p.P2523R	CDH23_uc001jsg.3_Missense_Mutation_p.P283R|CDH23_uc001jsh.3_Missense_Mutation_p.P283R|CDH23_uc001jsi.3_Missense_Mutation_p.P283R	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	2523	Cadherin 24.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GAGAATGAGCCGGCGGGCACC	0.582													31	95	---	---	---	---	PASS	G	73562740	G	G	73562740	3	3	19	1	0	0	0	0	1	0	0	0	3108	652	23	4	8123	4	CDH23	10	73562740	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	945367	73562740	61972007	298	9467										
DUSP13	51207	broad.mit.edu	37	chr10	76868782	76868782	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctcacgcatctcctatgaaaAggttgggccaaacttcgtcc	8	13	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:76868782A>G	uc001jws.2	-	1	189	c.134T>C	c.(133-135)CTT>CCT	p.L45P	DUSP13_uc001jwu.2_5'UTR|DUSP13_uc001jww.2_Missense_Mutation_p.L45P|DUSP13_uc009xrs.2_5'UTR|DUSP13_uc001jwt.2_5'UTR|DUSP13_uc001jwv.2_5'UTR|SAMD8_uc001jwx.1_5'Flank|SAMD8_uc001jwy.1_5'Flank	NM_001007271	NP_001007272	Q6B8I1	MDSP_HUMAN	muscle-restricted dual specificity phosphatase	45	Tyrosine-protein phosphatase.					cytoplasm	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					TCCTATGAAAAGGTTGGGCCA	0.602													15	69	---	---	---	---	PASS	G	76868782	G	G	76868782	3	3	19	1	0	0	0	0	1	0	0	0	4813	72	3	5	1340	5	DUSP13	10	76868782	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	3306042	76868782	58665965	299	9468										
CDHR1	92211	broad.mit.edu	37	chr10	85971451	85971451	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggcgaagtgaaatattccacCtatgggactggggcagacct	13	9	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:85971451C>A	uc001kcv.2	+	14	1533	c.1533C>A	c.(1531-1533)ACC>ACA	p.T511T	CDHR1_uc001kcw.2_Silent_p.T511T|CDHR1_uc009xst.2_Silent_p.T215T|CDHR1_uc001kcx.2_5'Flank	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	511	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						AATATTCCACCTATGGGACTG	0.572													81	240	---	---	---	---	PASS	A	85971451	A	A	85971451	2	1	19	1	0	0	0	0	0	0	0	1	3118	668	24	3		3	CDHR1	10	85971451	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	9102669	85971451	49563296	300	9469										
BMPR1A	657	broad.mit.edu	37	chr10	88649924	88649924	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	accagaggataccttgccttTtttaaagtgctattgctcag	8	9	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:88649924T>A	uc001kdy.2	+	4	721	c.173T>A	c.(172-174)TTT>TAT	p.F58Y		NM_004329	NP_004320	P36894	BMR1A_HUMAN	bone morphogenetic protein receptor, type IA	58	Extracellular (Potential).		F -> Y (in a renal clear cell carcinoma sample; somatic mutation).		BMP signaling pathway|immune response|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	integral to membrane|plasma membrane	ATP binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta receptor activity	p.F58Y(1)		lung(3)|large_intestine(1)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	8						ACCTTGCCTTTTTTAAAGTGC	0.403			Mis|N|F			gastrointestinal polyps			Hereditary_Mixed_Polyposis_syndrome_type_2|Juvenile_Polyposis				37	280	---	---	---	---	PASS	A	88649924	A	A	88649924	3	1	19	1	0	0	0	0	1	0	0	0	1469	1841	64	5	179	5	BMPR1A	10	88649924	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	2678473	88649924	46884823	301	9470										
TBC1D12	23232	broad.mit.edu	37	chr10	96253172	96253172	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tttacgtcaccgacaagaatAcgatgagatggtggctgagg	13	7	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:96253172A>T	uc001kjr.2	+	4	1447	c.1262A>T	c.(1261-1263)TAC>TTC	p.Y421F		NM_015188	NP_056003	O60347	TBC12_HUMAN	TBC1 domain family, member 12	421	Potential.					intracellular	Rab GTPase activator activity				0		Colorectal(252;0.0429)				CGACAAGAATACGATGAGATG	0.313													20	97	---	---	---	---	PASS	T	96253172	T	T	96253172	3	4	19	1	0	0	0	0	1	0	0	0	15598	391	14	5	1276	5	TBC1D12	10	96253172	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	7603248	96253172	39281575	302	9471										
SORBS1	10580	broad.mit.edu	37	chr10	97158878	97158878	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcttttttcaatagccttgcCaggtgaggtgggtttttcct	10	8	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:97158878C>T	uc001kkp.2	-	10	1099	c.1054G>A	c.(1054-1056)GGC>AGC	p.G352S	SORBS1_uc001kkl.2_5'UTR|SORBS1_uc001kkn.2_Missense_Mutation_p.G185S|SORBS1_uc001kkm.2_Missense_Mutation_p.G208S|SORBS1_uc001kko.2_Missense_Mutation_p.G352S|SORBS1_uc001kkq.2_Missense_Mutation_p.G283S|SORBS1_uc001kkr.2_Missense_Mutation_p.G188S|SORBS1_uc001kks.2_Missense_Mutation_p.G188S|SORBS1_uc001kkt.2_RNA|SORBS1_uc001kku.2_Missense_Mutation_p.G229S|SORBS1_uc001kkv.2_Missense_Mutation_p.G320S|SORBS1_uc001kkw.2_Missense_Mutation_p.G352S|SORBS1_uc010qoe.1_Missense_Mutation_p.G197S|SORBS1_uc010qof.1_Missense_Mutation_p.G550S	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	352					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)		ATAGCCTTGCCAGGTGAGGTG	0.488													42	117	---	---	---	---	PASS	T	97158878	T	T	97158878	3	4	19	1	0	0	0	0	1	0	0	0	14927	594	21	3	3109	3	SORBS1	10	97158878	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	905706	97158878	38375869	303	9472										
HPS1	3257	broad.mit.edu	37	chr10	100179892	100179892	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cccttctgcaggtatctgcgCgccagctggatcagagacca	11	14	3	1	rs79218830	byFrequency	TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:100179892C>A	uc010qpf.1	-	18	2013	c.1767G>T	c.(1765-1767)GCG>GCT	p.A589A	HPS1_uc001kpi.1_Silent_p.A590A|HPS1_uc001kpj.1_Silent_p.A497A|HPS1_uc001kpk.1_Silent_p.A414A	NM_000195	NP_000186	Q92902	HPS1_HUMAN	Hermansky-Pudlak syndrome 1 protein isoform a	589					lysosome organization|response to stimulus|visual perception	cytoplasmic membrane-bounded vesicle|integral to plasma membrane|lysosome|membrane fraction|soluble fraction	protein dimerization activity			skin(1)	1		Colorectal(252;0.234)		Epithelial(162;3.87e-12)|all cancers(201;5.63e-10)		GGTATCTGCGCGCCAGCTGGA	0.572									Hermansky-Pudlak_syndrome				79	197	---	---	---	---	PASS	A	100179892	A	A	100179892	2	1	19	1	0	0	0	0	0	0	0	1	7339	755	27	1		1	HPS1	10	100179892	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	3021014	100179892	35354855	304	9473										
ABCC2	1244	broad.mit.edu	37	chr10	101560142	101560142	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aacttggcttttctctggcaGattgctgatctcctttgcaa	8	10	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:101560142G>T	uc001kqf.2	+	9	1171	c.1032_splice	c.e9-1	p.K344_splice		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),							apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TTCTCTGGCAGATTGCTGATC	0.458													134	471	---	---	---	---	PASS	T	101560142	T	T	101560142	5	4	19	1	0	0	0	0	0	0	1	0	53	956	33	2	1065	2	ABCC2	10	101560142	Splice_Site	SNP	G	TCGA-21-1070-01A-01D-1521-08	1380250	101560142	33974605	305	9474										
CPN1	1369	broad.mit.edu	37	chr10	101816862	101816862	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttgtcgcaactcagttccaGcgtgatctcaaagcagttgg	10	11	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:101816862G>T	uc001kql.2	-	6	1179	c.919C>A	c.(919-921)CTG>ATG	p.L307M		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	307	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		CTCAGTTCCAGCGTGATCTCA	0.498													138	419	---	---	---	---	PASS	T	101816862	T	T	101816862	3	4	19	1	0	0	0	0	1	0	0	0	3809	962	34	3	473	3	CPN1	10	101816862	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	256720	101816862	33717885	306	9475										
CPN1	1369	broad.mit.edu	37	chr10	101825081	101825081	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gattggctgaaagaacaaagTtgaaggagtgcatccaccgg	13	7	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:101825081T>C	uc001kql.2	-	4	883	c.623A>G	c.(622-624)AAC>AGC	p.N208S		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	208	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		AAGAACAAAGTTGAAGGAGTG	0.622													34	97	---	---	---	---	PASS	C	101825081	C	C	101825081	3	2	19	1	0	0	0	0	1	0	0	0	3809	1725	60	5	777	5	CPN1	10	101825081	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	8219	101825081	33709666	307	9476										
ATRNL1	26033	broad.mit.edu	37	chr10	117221452	117221452	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctttttttcctccctacagaCagccttttgattgattatca	4	11	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:117221452C>G	uc001lcg.2	+	22	3710	c.3324C>G	c.(3322-3324)TAC>TAG	p.Y1108*	ATRNL1_uc010qsm.1_Nonsense_Mutation_p.Y237*|ATRNL1_uc010qsn.1_Intron	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	1108	Laminin EGF-like 2.|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)		TCCCTACAGACAGCCTTTTGA	0.328													20	83	---	---	---	---	PASS	G	117221452	G	G	117221452	4	3	19	1	0	0	0	0	0	1	0	0	1207	492	17	4	3410	4	ATRNL1	10	117221452	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	15396371	117221452	18313295	308	9477										
DMBT1	1755	broad.mit.edu	37	chr10	124358505	124358505	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gctcaggacccattgtcctgGatgatgtgcgctgctcagga	13	11	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr10:124358505G>T	uc001lgk.1	+	26	3278	c.3172G>T	c.(3172-3174)GAT>TAT	p.D1058Y	DMBT1_uc001lgl.1_Missense_Mutation_p.D1048Y|DMBT1_uc001lgm.1_Missense_Mutation_p.D559Y|DMBT1_uc009xzz.1_Missense_Mutation_p.D1058Y|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yab.1_Missense_Mutation_p.D19Y	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1058	SRCR 8.				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)				CATTGTCCTGGATGATGTGCG	0.587													87	261	---	---	---	---	PASS	T	124358505	T	T	124358505	3	4	19	1	0	0	0	0	1	0	0	0	4577	1174	41	2	3274	2	DMBT1	10	124358505	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	7137053	124358505	11176242	309	9478										
CDHR5	53841	broad.mit.edu	37	chr11	619004	619004	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttctgcacccgggggcccccCgggtgtggacgaggttggtg	18	12	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:619004C>A	uc001lqj.2	-	13	1660	c.1555G>T	c.(1555-1557)GGG>TGG	p.G519W	CDHR5_uc001lqk.2_Intron|CDHR5_uc009ycc.2_Missense_Mutation_p.G353W|CDHR5_uc009ycd.2_Missense_Mutation_p.G513W|CDHR5_uc001lql.2_Missense_Mutation_p.G519W	NM_021924	NP_068743	Q9HBB8	CDHR5_HUMAN	mucin and cadherin-like isoform 1	519	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						GGGGGCCCCCCGGGTGTGGAC	0.672													64	150	---	---	---	---	PASS	A	619004	A	A	619004	3	1	19	1	0	0	0	0	1	0	0	0	3122	652	23	1	994	1	CDHR5	11	619004	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08		619004	134387512	310	9479										
MUC5B	727897	broad.mit.edu	37	chr11	1156570	1156570	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tctgatgtctctccctttgcAgctggagctggacaccaaat	9	12	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:1156570A>T	uc009ycr.1	+	7	715	c.589_splice	c.e7-2	p.L197_splice		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;						cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTCCCTTTGCAGCTGGAGCTG	0.612													48	113	---	---	---	---	PASS	T	1156570	T	T	1156570	5	4	19	1	0	0	0	0	0	0	1	0	9979	203	7	5		5	MUC5B	11	1156570	Splice_Site	SNP	A	TCGA-21-1070-01A-01D-1521-08	537566	1156570	133849946	311	9480										
OR52N4	390072	broad.mit.edu	37	chr11	5776353	5776353	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cctggatcgctatgtggccaTctgctaccccttacgctatt	8	14	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:5776353T>A	uc001mbu.2	+	1	431	c.383T>A	c.(382-384)ATC>AAC	p.I128N	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005175	NP_001005175	Q8NGI2	O52N4_HUMAN	olfactory receptor, family 52, subfamily N,	128	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;1.87e-10)|LUSC - Lung squamous cell carcinoma(625;0.114)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.197)		TATGTGGCCATCTGCTACCCC	0.488													65	162	---	---	---	---	PASS	A	5776353	A	A	5776353	3	1	19	1	0	0	0	0	1	0	0	0	11129	1435	50	5	385	5	OR52N4	11	5776353	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	4619783	5776353	129230163	312	9481										
OR56A3	390083	broad.mit.edu	37	chr11	5969286	5969286	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gagactcaaggcagagggtgCcgtggcaaaggccctaagca	15	10	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:5969286C>A	uc010qzt.1	+	1	710	c.710C>A	c.(709-711)GCC>GAC	p.A237D		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	237	Cytoplasmic (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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCAGAGGGTGCCGTGGCAAAG	0.522													103	196	---	---	---	---	PASS	A	5969286	A	A	5969286	3	1	19	1	0	0	0	0	1	0	0	0	11134	739	26	3	712	3	OR56A3	11	5969286	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	192933	5969286	129037230	313	9482										
RRP8	23378	broad.mit.edu	37	chr11	6622767	6622767	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	taatgtatgagggggtttagGggaagtggacccagggcttt	17	4	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:6622767G>A	uc001med.2	-	3	608	c.529C>T	c.(529-531)CCT>TCT	p.P177S	ILK_uc001mee.2_5'Flank|ILK_uc001mef.2_5'Flank|ILK_uc010rap.1_5'Flank|ILK_uc010raq.1_5'Flank|ILK_uc001meg.2_5'Flank|ILK_uc001meh.2_5'Flank	NM_015324	NP_056139	O43159	RRP8_HUMAN	ribosomal RNA processing 8, methyltransferase,	177					chromatin modification|chromatin silencing at rDNA|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	methylated histone residue binding|S-adenosylmethionine-dependent methyltransferase activity				0						GGGGGTTTAGGGGAAGTGGAC	0.527													62	173	---	---	---	---	PASS	A	6622767	A	A	6622767	3	1	19	1	0	0	0	0	1	0	0	0	13690	1232	43	3	861	3	RRP8	11	6622767	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	653481	6622767	128383749	314	9483										
DCHS1	8642	broad.mit.edu	37	chr11	6653340	6653340	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggtcagacgtccattgggtcCtgagtctcggtcagtggcaa	14	10	3	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:6653340C>A	uc001mem.1	-	6	3813	c.3403G>T	c.(3403-3405)GGA>TGA	p.G1135*		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1135	Cadherin 11.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCATTGGGTCCTGAGTCTCGG	0.612													9	21	---	---	---	---	PASS	A	6653340	A	A	6653340	4	1	19	1	0	0	0	0	0	1	0	0	4287	690	24	3	6557	3	DCHS1	11	6653340	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	30573	6653340	128353176	315	9484										
NELL1	4745	broad.mit.edu	37	chr11	21592424	21592424	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtcaatgtttagaccaaaatGgtcacaagctgtatcgaagt	9	7	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:21592424G>A	uc001mqe.2	+	18	2248	c.2095G>A	c.(2095-2097)GGT>AGT	p.G699S	NELL1_uc001mqf.2_Missense_Mutation_p.G652S|NELL1_uc009yid.2_Missense_Mutation_p.G727S|NELL1_uc010rdo.1_Missense_Mutation_p.G642S|NELL1_uc010rdp.1_Missense_Mutation_p.G412S|NELL1_uc001mqh.2_Missense_Mutation_p.G244S	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	699	VWFC 4.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						AGACCAAAATGGTCACAAGCT	0.473													57	194	---	---	---	---	PASS	A	21592424	A	A	21592424	3	1	19	1	0	0	0	0	1	0	0	0	10333	1348	47	3	2165	3	NELL1	11	21592424	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	14939084	21592424	113414092	316	9485										
PDHX	8050	broad.mit.edu	37	chr11	34988317	34988317	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctggaccatcttatccccggCctgtgatcccaccagtatca	7	16	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:34988317C>T	uc001mvt.2	+	6	1298	c.772C>T	c.(772-774)CCT>TCT	p.P258S	PDHX_uc010rep.1_Missense_Mutation_p.P243S|PDHX_uc010req.1_Intron	NM_003477	NP_003468	O00330	ODPX_HUMAN	pyruvate dehydrogenase complex, component X	258					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	acyltransferase activity			kidney(1)	1	all_epithelial(35;0.115)|Lung NSC(22;0.218)|all_lung(20;0.242)	all_hematologic(20;0.124)	STAD - Stomach adenocarcinoma(6;0.00113)			TTATCCCCGGCCTGTGATCCC	0.468													42	151	---	---	---	---	PASS	T	34988317	T	T	34988317	3	4	19	1	0	0	0	0	1	0	0	0	11667	739	26	3	913	3	PDHX	11	34988317	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	13395893	34988317	100018199	317	9486										
GYLTL1B	120071	broad.mit.edu	37	chr11	45950301	45950301	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	actgcctccaggccctcaagGacgaattccaccaggacttg	9	15	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:45950301G>A	uc001nbv.1	+	14	2182	c.2071G>A	c.(2071-2073)GAC>AAC	p.D691N	GYLTL1B_uc001nbw.1_Missense_Mutation_p.D660N|GYLTL1B_uc001nbx.1_Missense_Mutation_p.D691N|GYLTL1B_uc001nby.1_Missense_Mutation_p.D374N|GYLTL1B_uc001nbz.1_Silent_p.R39R	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	691	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		GGCCCTCAAGGACGAATTCCA	0.662													40	93	---	---	---	---	PASS	A	45950301	A	A	45950301	3	1	19	1	0	0	0	0	1	0	0	0	6907	1174	41	2	2121	2	GYLTL1B	11	45950301	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	10961984	45950301	89056215	318	9487										
OR4C3	256144	broad.mit.edu	37	chr11	48347191	48347191	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aacagtggtttaatctgcctGttgaacttcctcatgctggc	9	10	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:48347191G>T	uc010rhv.1	+	1	699	c.699G>T	c.(697-699)CTG>CTT	p.L233L		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	206	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TAATCTGCCTGTTGAACTTCC	0.512													5	133	---	---	---	---	PASS	T	48347191	T	T	48347191	2	4	19	1	0	0	0	0	0	0	0	1	11050	1364	48	3		3	OR4C3	11	48347191	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	2396890	48347191	86659325	319	9488										
OR4A5	81318	broad.mit.edu	37	chr11	51411694	51411694	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctgccggagctgcaggtagaCaaggctttacccctcttttc	10	13	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:51411694C>A	uc001nhi.1	-	1	702	c.702G>T	c.(700-702)TTG>TTT	p.L234F		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	234	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				TGCAGGTAGACAAGGCTTTAC	0.408													31	121	---	---	---	---	PASS	A	51411694	A	A	51411694	3	1	19	1	0	0	0	0	1	0	0	0	11043	477	17	3	249	3	OR4A5	11	51411694	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	3064503	51411694	83594822	320	9489										
OR10AG1	282770	broad.mit.edu	37	chr11	55735485	55735485	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agggcaaaaggaaaatttggCatgtttccccaattactaca	8	8	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:55735485C>A	uc010rit.1	-	1	455	c.455G>T	c.(454-456)TGC>TTC	p.C152F		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	152	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					GAAAATTTGGCATGTTTCCCC	0.403													38	104	---	---	---	---	PASS	A	55735485	A	A	55735485	3	1	19	1	0	0	0	0	1	0	0	0	10897	710	25	3	453	3	OR10AG1	11	55735485	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4323791	55735485	79271031	321	9490										
OR8H2	390151	broad.mit.edu	37	chr11	55872597	55872597	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tttctgaagagatccagatgGctctgtttatgctatttctc	8	8	3	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:55872597G>T	uc010riy.1	+	1	79	c.79G>T	c.(79-81)GCT>TCT	p.A27S		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	27	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					GATCCAGATGGCTCTGTTTAT	0.443										HNSCC(53;0.14)			117	434	---	---	---	---	PASS	T	55872597	T	T	55872597	3	4	19	1	0	0	0	0	1	0	0	0	11238	1203	42	3	81	3	OR8H2	11	55872597	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	137112	55872597	79133919	322	9491										
OR8K3	219473	broad.mit.edu	37	chr11	56086487	56086487	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aattctgctggcagacaaaaGgctttttctacctgtggagc	10	9	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:56086487G>C	uc010rjf.1	+	1	705	c.705G>C	c.(703-705)AAG>AAC	p.K235N		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					GCAGACAAAAGGCTTTTTCTA	0.433													41	128	---	---	---	---	PASS	C	56086487	C	C	56086487	3	2	19	1	0	0	0	0	1	0	0	0	11244	991	35	4	707	4	OR8K3	11	56086487	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	213890	56086487	78920029	323	9492										
GLYATL2	219970	broad.mit.edu	37	chr11	58602171	58602171	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gacaagctggccctctggacCcagcacaccaaatcctagaa	8	15	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:58602171C>A	uc001nnd.3	-	6	747	c.616G>T	c.(616-618)GGT>TGT	p.G206C	GLYATL2_uc009ymq.2_Missense_Mutation_p.G206C	NM_145016	NP_659453	Q8WU03	GLYL2_HUMAN	glycine-N-acyltransferase-like 2	206						mitochondrion	glycine N-acyltransferase activity			ovary(1)|skin(1)	2		Breast(21;0.0044)|all_epithelial(135;0.0216)			Glycine(DB00145)	CCCTCTGGACCCAGCACACCA	0.468													29	113	---	---	---	---	PASS	A	58602171	A	A	58602171	3	1	19	1	0	0	0	0	1	0	0	0	6481	623	22	3	272	3	GLYATL2	11	58602171	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2515684	58602171	76404345	324	9493										
MS4A6E	245802	broad.mit.edu	37	chr11	60105257	60105257	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cattctgagtgctctgtctgCcctggtgggtttcattctcc	10	12	5	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:60105257C>A	uc001npd.2	+	2	205	c.191C>A	c.(190-192)GCC>GAC	p.A64D		NM_139249	NP_640342	Q96DS6	M4A6E_HUMAN	membrane-spanning 4-domains, subfamily A, member	64	Helical; (Potential).					integral to membrane	receptor activity				0						GCTCTGTCTGCCCTGGTGGGT	0.488													71	247	---	---	---	---	PASS	A	60105257	A	A	60105257	3	1	19	1	0	0	0	0	1	0	0	0	9865	739	26	3	197	3	MS4A6E	11	60105257	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1503086	60105257	74901259	325	9494										
SCGB2A1	4246	broad.mit.edu	37	chr11	61977983	61977983	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttcttcaagagttcatagacAgtgatgccgctgcagaggct	11	9	3	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:61977983A>G	uc001nta.2	+	2	218	c.154A>G	c.(154-156)AGT>GGT	p.S52G		NM_002407	NP_002398	O75556	SG2A1_HUMAN	secretoglobin, family 2A, member 1 precursor	52						extracellular region	androgen binding				0						GTTCATAGACAGTGATGCCGC	0.428													71	221	---	---	---	---	PASS	G	61977983	G	G	61977983	3	3	19	1	0	0	0	0	1	0	0	0	13899	188	7	5	160	5	SCGB2A1	11	61977983	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	1872726	61977983	73028533	326	9495										
RCOR2	283248	broad.mit.edu	37	chr11	63681958	63681958	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcacactagttcggctgcggGtcttcttccaagagtagtag	11	10	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:63681958G>A	uc001nyc.2	-	6	924	c.536C>T	c.(535-537)ACC>ATC	p.T179I		NM_173587	NP_775858	Q8IZ40	RCOR2_HUMAN	REST corepressor 2	179	SANT 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)|skin(1)	2						TCGGCTGCGGGTCTTCTTCCA	0.602													56	186	---	---	---	---	PASS	A	63681958	A	A	63681958	3	1	19	1	0	0	0	0	1	0	0	0	13183	1261	44	3	1063	3	RCOR2	11	63681958	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1703975	63681958	71324558	327	9496										
NRXN2	9379	broad.mit.edu	37	chr11	64418751	64418751	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgaccagctcgatgacaatgAagtcattgccgttgcccgag	11	11	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:64418751A>T	uc001oar.2	-	15	3333	c.2894T>A	c.(2893-2895)TTC>TAC	p.F965Y	NRXN2_uc001oas.2_Missense_Mutation_p.F925Y|NRXN2_uc001oaq.2_Missense_Mutation_p.F632Y	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						GATGACAATGAAGTCATTGCC	0.587											OREG0004037|OREG0021057	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)|type=REGULATORY REGION|Gene=AL137356|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	28	89	---	---	---	---	PASS	T	64418751	T	T	64418751	3	4	19	1	0	0	0	0	1	0	0	0	10666	246	9	5	2553	5	NRXN2	11	64418751	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	736793	64418751	70587765	328	9497										
P2RY2	5029	broad.mit.edu	37	chr11	72945604	72945604	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcagcgtgcaccggtgtctgGgcgtcttacgacctctgcgc	13	14	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:72945604G>C	uc001otj.2	+	3	733	c.400G>C	c.(400-402)GGC>CGC	p.G134R	P2RY2_uc001otk.2_Missense_Mutation_p.G134R|P2RY2_uc001otl.2_Missense_Mutation_p.G134R	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	134	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(1)|skin(1)	4					Suramin(DB04786)	CCGGTGTCTGGGCGTCTTACG	0.672													15	168	---	---	---	---	PASS	C	72945604	C	C	72945604	3	2	19	1	0	0	0	0	1	0	0	0	11352	1232	43	4	402	4	P2RY2	11	72945604	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	8526853	72945604	62060912	329	9498										
ODZ4	26011	broad.mit.edu	37	chr11	78381554	78381554	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcggtcattcttgtcgaactCaaagatatactgcctctggc	9	11	4	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:78381554C>T	uc001ozl.3	-	32	6299	c.5836G>A	c.(5836-5838)GAG>AAG	p.E1946K	ODZ4_uc001ozk.3_Missense_Mutation_p.E171K|ODZ4_uc009yvb.1_Missense_Mutation_p.E530K	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1946	Extracellular (Potential).|YD 6.				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						TTGTCGAACTCAAAGATATAC	0.532													11	91	---	---	---	---	PASS	T	78381554	T	T	78381554	3	4	19	1	0	0	0	0	1	0	0	0	10837	835	29	2	2485	2	ODZ4	11	78381554	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	5435950	78381554	56624962	330	9499										
SYTL2	54843	broad.mit.edu	37	chr11	85445676	85445676	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctggctttggggattggagcCttgatttgggacccatttga	14	7	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:85445676C>A	uc010rth.1	-	6	969	c.693G>T	c.(691-693)AAG>AAT	p.K231N	SYTL2_uc010rtg.1_Missense_Mutation_p.K232N|SYTL2_uc010rti.1_Missense_Mutation_p.K231N|SYTL2_uc010rtj.1_Missense_Mutation_p.K183N|SYTL2_uc001pbf.3_Missense_Mutation_p.K231N|SYTL2_uc010rtf.1_Missense_Mutation_p.K89N	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	231					intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		GGATTGGAGCCTTGATTTGGG	0.408													46	159	---	---	---	---	PASS	A	85445676	A	A	85445676	3	1	19	1	0	0	0	0	1	0	0	0	15480	680	24	3	4644	3	SYTL2	11	85445676	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	7064122	85445676	49560840	331	9500										
MMP20	9313	broad.mit.edu	37	chr11	102487666	102487666	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggtctggtctaacttcccgGtgacttggaggccaaagaac	12	10	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:102487666G>T	uc001phc.2	-	2	264	c.251C>A	c.(250-252)ACC>AAC	p.T84N		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein	84					proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		TAACTTCCCGGTGACTTGGAG	0.478													23	86	---	---	---	---	PASS	T	102487666	T	T	102487666	3	4	19	1	0	0	0	0	1	0	0	0	9659	1261	44	3	1236	3	MMP20	11	102487666	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	17041990	102487666	32518850	332	9501										
OR10G9	219870	broad.mit.edu	37	chr11	123893758	123893758	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtgacagcgttcatcctcacGggccttccccatgccccagg	10	17	2	1	rs140807602	byFrequency	TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:123893758G>T	uc010sad.1	+	1	39	c.39G>T	c.(37-39)ACG>ACT	p.T13T		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	13	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		TCATCCTCACGGGCCTTCCCC	0.562													102	308	---	---	---	---	PASS	T	123893758	T	T	123893758	2	4	19	1	0	0	0	0	0	0	0	1	10904	1103	39	1		1	OR10G9	11	123893758	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	21406092	123893758	11112758	333	9502										
OR10G9	219870	broad.mit.edu	37	chr11	123894186	123894186	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagtggctctctgcactctgCtgtccagaccatattgactt	8	13	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:123894186C>T	uc010sad.1	+	1	467	c.467C>T	c.(466-468)GCT>GTT	p.A156V		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CTGCACTCTGCTGTCCAGACC	0.552													145	346	---	---	---	---	PASS	T	123894186	T	T	123894186	3	4	19	1	0	0	0	0	1	0	0	0	10904	797	28	3	469	3	OR10G9	11	123894186	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	428	123894186	11112330	334	9503										
OR8D1	283159	broad.mit.edu	37	chr11	124180337	124180337	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcaggaggtaaccctcagccAccacaaagaccacaaagaaa	7	13	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:124180337A>T	uc010sag.1	-	1	326	c.326T>A	c.(325-327)GTG>GAG	p.V109E		NM_001002917	NP_001002917	Q8WZ84	OR8D1_HUMAN	olfactory receptor, family 8, subfamily D,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		ACCCTCAGCCACCACAAAGAC	0.463													23	44	---	---	---	---	PASS	T	124180337	T	T	124180337	3	4	19	1	0	0	0	0	1	0	0	0	11231	159	6	5	603	5	OR8D1	11	124180337	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	286151	124180337	10826179	335	9504										
STT3A	3703	broad.mit.edu	37	chr11	125472715	125472715	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	caggtttaatgatcacctctGctgcaatctaccatgtactc	6	12	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:125472715G>T	uc001qcd.2	+	5	399	c.289G>T	c.(289-291)GCT>TCT	p.A97S	STT3A_uc009zbm.2_Missense_Mutation_p.A97S|STT3A_uc001qce.2_Missense_Mutation_p.A97S|STT3A_uc010sbg.1_Missense_Mutation_p.A5S	NM_152713	NP_689926	P46977	STT3A_HUMAN	integral membrane protein 1	97	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity				0	all_hematologic(175;0.228)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0996)		GATCACCTCTGCTGCAATCTA	0.428													39	169	---	---	---	---	PASS	T	125472715	T	T	125472715	3	4	19	1	0	0	0	0	1	0	0	0	15332	1319	46	3	303	3	STT3A	11	125472715	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1292378	125472715	9533801	336	9505										
RPUSD4	84881	broad.mit.edu	37	chr11	126075379	126075379	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcaccagtgatgggctggagCtccacgagggcggaggagag	18	9	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr11:126075379C>A	uc001qde.2	-	5	834	c.780G>T	c.(778-780)GAG>GAT	p.E260D	RPUSD4_uc010sbl.1_Missense_Mutation_p.E67D|RPUSD4_uc009zbz.2_Missense_Mutation_p.E229D|RPUSD4_uc009zby.2_RNA	NM_032795	NP_116184	Q96CM3	RUSD4_HUMAN	RNA pseudouridylate synthase domain containing 4	260					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			breast(1)	1	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0761)		TGGGCTGGAGCTCCACGAGGG	0.567													31	99	---	---	---	---	PASS	A	126075379	A	A	126075379	3	1	19	1	0	0	0	0	1	0	0	0	13669	796	28	3	365	3	RPUSD4	11	126075379	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	602664	126075379	8931137	337	9506										
CACNA2D4	93589	broad.mit.edu	37	chr12	1995536	1995536	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggagaagtagcagcttgaatGtacctgaaggaagaaaggga	15	4	0	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:1995536G>A	uc001qjp.2	-	8	1077	c.846C>T	c.(844-846)TAC>TAT	p.Y282Y	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Intron	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	282	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		CAGCTTGAATGTACCTGAAGG	0.498													18	42	---	---	---	---	PASS	A	1995536	A	A	1995536	2	1	19	1	0	0	0	0	0	0	0	1	2551	1372	48	3		3	CACNA2D4	12	1995536	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08		1995536	131856359	338	9507										
CACNA1C	775	broad.mit.edu	37	chr12	2775903	2775903	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctcctccggcggattcagccGccactaggttttgggaagct	12	13	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:2775903G>A	uc009zdu.1	+	39	5035	c.4722G>A	c.(4720-4722)CCG>CCA	p.P1574P	CACNA1C_uc009zdv.1_Silent_p.P1523P|CACNA1C_uc001qkb.2_Silent_p.P1526P|CACNA1C_uc001qkc.2_Silent_p.P1526P|CACNA1C_uc001qke.2_Silent_p.P1515P|CACNA1C_uc001qkf.2_Silent_p.P1515P|CACNA1C_uc001qjz.2_Silent_p.P1526P|CACNA1C_uc001qkd.2_Silent_p.P1526P|CACNA1C_uc001qkg.2_Silent_p.P1513P|CACNA1C_uc009zdw.1_Silent_p.P1548P|CACNA1C_uc001qkh.2_Silent_p.P1515P|CACNA1C_uc001qkl.2_Silent_p.P1574P|CACNA1C_uc001qkn.2_Silent_p.P1526P|CACNA1C_uc001qko.2_Silent_p.P1546P|CACNA1C_uc001qkp.2_Silent_p.P1526P|CACNA1C_uc001qkr.2_Silent_p.P1543P|CACNA1C_uc001qku.2_Silent_p.P1526P|CACNA1C_uc001qkq.2_Silent_p.P1554P|CACNA1C_uc001qks.2_Silent_p.P1526P|CACNA1C_uc001qkt.2_Silent_p.P1526P|CACNA1C_uc001qki.1_Silent_p.P1262P|CACNA1C_uc001qkj.1_Silent_p.P1262P|CACNA1C_uc001qkk.1_Silent_p.P1262P|CACNA1C_uc001qkm.1_Silent_p.P1251P|CACNA1C_uc010sea.1_Silent_p.P217P	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1574	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GGATTCAGCCGCCACTAGGTT	0.577													6	11	---	---	---	---	PASS	A	2775903	A	A	2775903	2	1	19	1	0	0	0	0	0	0	0	1	2540	1074	38	1		1	CACNA1C	12	2775903	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	780367	2775903	131075992	339	9508										
KCNA5	3741	broad.mit.edu	37	chr12	5154937	5154937	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttaaggaagagcagggcactCagagccaggggccggggctg	18	9	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:5154937C>A	uc001qni.2	+	1	1853	c.1624C>A	c.(1624-1626)CAG>AAG	p.Q542K		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	542						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GCAGGGCACTCAGAGCCAGGG	0.627													19	56	---	---	---	---	PASS	A	5154937	A	A	5154937	3	1	19	1	0	0	0	0	1	0	0	0	8006	827	29	2	1626	2	KCNA5	12	5154937	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2379034	5154937	128696958	340	9509										
EMG1	10436	broad.mit.edu	37	chr12	7084422	7084422	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tccagtatcagatcactttcCagttggatgtatgaaagttg	9	7	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:7084422C>T	uc001qsh.3	+	7	646	c.503C>T	c.(502-504)CCA>CTA	p.P168L	EMG1_uc009zfo.2_Intron|EMG1_uc010sfv.1_RNA	NM_006331	NP_006322	Q92979	NEP1_HUMAN	ribosome biogenesis protein NEP1	168					ribosomal small subunit biogenesis	cytoplasm|nucleolus	rRNA (pseudouridine) methyltransferase activity|rRNA binding				0						GATCACTTTCCAGTTGGATGT	0.433													15	59	---	---	---	---	PASS	T	7084422	T	T	7084422	3	4	19	1	0	0	0	0	1	0	0	0	5090	594	21	3	520	3	EMG1	12	7084422	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1929485	7084422	126767473	341	9510										
C1R	715	broad.mit.edu	37	chr12	7241892	7241892	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gggtaggacggctgtacctgTagctggtcataggggcagtg	18	7	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:7241892T>A	uc010sfy.1	-	5	824	c.765A>T	c.(763-765)CTA>CTT	p.L255L	C1R_uc010sfz.1_Silent_p.L269L|C1R_uc010sga.1_Silent_p.L221L	NM_001733	NP_001724	P00736	C1R_HUMAN	complement component 1, r subcomponent	255	CUB 2.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity				0					Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GCTGTACCTGTAGCTGGTCAT	0.587													8	46	---	---	---	---	PASS	A	7241892	A	A	7241892	2	1	19	1	0	0	0	0	0	0	0	1	1972	1625	57	5		5	C1R	12	7241892	Silent	SNP	T	TCGA-21-1070-01A-01D-1521-08	157470	7241892	126610003	342	9511										
GDF3	9573	broad.mit.edu	37	chr12	7843100	7843100	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggcttaggggtggtctggcCccacacatgaggctcctgaa	14	11	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:7843100C>A	uc001qte.2	-	2	505	c.469G>T	c.(469-471)GGC>TGC	p.G157C		NM_020634	NP_065685	Q9NR23	GDF3_HUMAN	growth differentiation factor 3 precursor	157					eye development|growth|skeletal system development	extracellular space	cytokine activity|growth factor activity			skin(3)|ovary(1)|lung(1)|central_nervous_system(1)	6						GTGGTCTGGCCCCACACATGA	0.547													62	113	---	---	---	---	PASS	A	7843100	A	A	7843100	3	1	19	1	0	0	0	0	1	0	0	0	6315	623	22	3	629	3	GDF3	12	7843100	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	601208	7843100	126008795	343	9512										
SLC2A14	144195	broad.mit.edu	37	chr12	7980133	7980133	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgagagagctggagcacaatGgaaatgatgatgggctgtcg	16	5	0	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:7980133G>T	uc001qtk.2	-	12	1684	c.891C>A	c.(889-891)TCC>TCA	p.S297S	SLC2A14_uc001qtl.2_Silent_p.S274S|SLC2A14_uc001qtm.2_Silent_p.S274S|SLC2A14_uc010sgg.1_Silent_p.S188S|SLC2A14_uc001qtn.2_Silent_p.S297S|SLC2A14_uc001qto.2_Intron|SLC2A14_uc010sgh.1_Silent_p.S312S	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14	297	Helical; Name=7; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		GGAGCACAATGGAAATGATGA	0.438													14	53	---	---	---	---	PASS	T	7980133	T	T	7980133	2	4	19	1	0	0	0	0	0	0	0	1	14543	1335	47	3		3	SLC2A14	12	7980133	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	137033	7980133	125871762	344	9513										
A2M	2	broad.mit.edu	37	chr12	9256835	9256835	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	taatttctttccaaacttacCctaacagtaagagaggtacc	5	10	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:9256835C>T	uc001qvk.1	-	11	1379	c.1266G>A	c.(1264-1266)AGG>AGA	p.R422R	A2M_uc009zgk.1_Silent_p.R272R	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	422					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	CCAAACTTACCCTAACAGTAA	0.408													13	49	---	---	---	---	PASS	T	9256835	T	T	9256835	2	4	19	1	0	0	0	0	0	0	0	1	4	637	22	3		3	A2M	12	9256835	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	1276702	9256835	124595060	345	9514										
SLCO1B1	10599	broad.mit.edu	37	chr12	21350092	21350092	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aaacagctaatttgaccaatCaaggaaaaaatattaccaaa	4	7	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:21350092C>A	uc001req.3	+	8	1044	c.940C>A	c.(940-942)CAA>AAA	p.Q314K		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	314	Cytoplasmic (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	TTTGACCAATCAAGGAAAAAA	0.318													22	114	---	---	---	---	PASS	A	21350092	A	A	21350092	3	1	19	1	0	0	0	0	1	0	0	0	14723	827	29	2	966	2	SLCO1B1	12	21350092	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	12093257	21350092	112501803	346	9515										
SLCO1A2	6579	broad.mit.edu	37	chr12	21422583	21422583	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gacttttgtctctataagctCtgttcctgaagaggcatttt	8	8	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:21422583C>A	uc001rer.2	-	14	2163	c.1912G>T	c.(1912-1914)GAG>TAG	p.E638*	SLCO1A2_uc001res.2_Nonsense_Mutation_p.E638*|SLCO1A2_uc010siq.1_Nonsense_Mutation_p.E506*|SLCO1A2_uc010sio.1_Nonsense_Mutation_p.E506*|SLCO1A2_uc010sip.1_Nonsense_Mutation_p.E506*	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	638	Cytoplasmic (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TCTATAAGCTCTGTTCCTGAA	0.383													82	162	---	---	---	---	PASS	A	21422583	A	A	21422583	4	1	19	1	0	0	0	0	0	1	0	0	14722	922	32	2	104	2	SLCO1A2	12	21422583	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	72491	21422583	112429312	347	9516										
LDHB	3945	broad.mit.edu	37	chr12	21794951	21794951	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgggatgaatgccaagttttTcagccataaggtagcgaaat	11	6	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:21794951T>A	uc001rfc.2	-	4	548	c.530A>T	c.(529-531)GAA>GTA	p.E177V	LDHB_uc001rfd.2_Missense_Mutation_p.E177V|LDHB_uc001rfe.2_Missense_Mutation_p.E177V	NM_002300	NP_002291	P07195	LDHB_HUMAN	L-lactate dehydrogenase B	177					glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity			breast(2)|ovary(1)	3					NADH(DB00157)	GCCAAGTTTTTCAGCCATAAG	0.418													41	140	---	---	---	---	PASS	A	21794951	A	A	21794951	3	1	19	1	0	0	0	0	1	0	0	0	8701	1783	62	5	490	5	LDHB	12	21794951	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	372368	21794951	112056944	348	9517										
GPD1	2819	broad.mit.edu	37	chr12	50501542	50501542	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcactacctgctatggagggCggaaccggaaagtggctgag	15	9	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:50501542C>T	uc001rvz.2	+	6	838	c.805C>T	c.(805-807)CGG>TGG	p.R269W	GPD1_uc001rwa.2_Missense_Mutation_p.R246W	NM_005276	NP_005267	P21695	GPDA_HUMAN	glycerol-3-phosphate dehydrogenase 1 (soluble)	269	Substrate binding.	NAD.			glycerol-3-phosphate catabolic process|triglyceride biosynthetic process	cytosol|glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|protein homodimerization activity				0					NADH(DB00157)	CTATGGAGGGCGGAACCGGAA	0.602													69	202	---	---	---	---	PASS	T	50501542	T	T	50501542	3	4	19	1	0	0	0	0	1	0	0	0	6604	759	27	1	827	1	GPD1	12	50501542	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	28706591	50501542	83350353	349	9518										
KRT78	196374	broad.mit.edu	37	chr12	53233571	53233571	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cactcctcgccctccagcagCctgcggtaagtggcaatctc	9	17	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:53233571C>T	uc001sbc.1	-	7	1309	c.1245G>A	c.(1243-1245)AGG>AGA	p.R415R		NM_173352	NP_775487	Q8N1N4	K2C78_HUMAN	keratin 5b	415	Coil 2.|Rod.					keratin filament	protein binding|structural molecule activity			ovary(2)	2						CCTCCAGCAGCCTGCGGTAAG	0.602													32	87	---	---	---	---	PASS	T	53233571	T	T	53233571	2	4	19	1	0	0	0	0	0	0	0	1	8491	738	26	3		3	KRT78	12	53233571	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	2732029	53233571	80618324	350	9519										
IGFBP6	3489	broad.mit.edu	37	chr12	53494917	53494917	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctctacgtgcccaattgtgaCcatcgaggcttctaccggaa	9	13	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:53494917C>G	uc001sbu.1	+	3	639	c.573C>G	c.(571-573)GAC>GAG	p.D191E	SOAT2_uc001sbv.2_5'Flank|SOAT2_uc009zms.2_5'Flank	NM_002178	NP_002169	P24592	IBP6_HUMAN	insulin-like growth factor binding protein 6	191	Thyroglobulin type-1.				negative regulation of cell proliferation|regulation of cell growth|signal transduction					ovary(1)	1						CCAATTGTGACCATCGAGGCT	0.582													37	126	---	---	---	---	PASS	G	53494917	G	G	53494917	3	3	19	1	0	0	0	0	1	0	0	0	7583	506	18	4	583	4	IGFBP6	12	53494917	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	261346	53494917	80356978	351	9520										
SP7	121340	broad.mit.edu	37	chr12	53722390	53722390	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccgctgctgctcccagccgcTctagctcctggcaattaggg	11	16	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:53722390T>C	uc001sct.2	-	2	943	c.836A>G	c.(835-837)GAG>GGG	p.E279G	SP7_uc001scu.2_Missense_Mutation_p.E261G|SP7_uc001scv.2_Missense_Mutation_p.E279G	NM_152860	NP_690599	Q8TDD2	SP7_HUMAN	osterix	279					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCCCAGCCGCTCTAGCTCCTG	0.657													4	31	---	---	---	---	PASS	C	53722390	C	C	53722390	3	2	19	1	0	0	0	0	1	0	0	0	14969	1551	54	5	463	5	SP7	12	53722390	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	227473	53722390	80129505	352	9521										
NCKAP1L	3071	broad.mit.edu	37	chr12	54917320	54917320	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaagaaccgcagcattgtcaCcaagtgaggacctgggccct	12	12	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:54917320C>A	uc001sgc.3	+	19	2100	c.2021C>A	c.(2020-2022)ACC>AAC	p.T674N	NCKAP1L_uc010sox.1_Missense_Mutation_p.T216N|NCKAP1L_uc010soy.1_Missense_Mutation_p.T624N	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	674					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						AGCATTGTCACCAAGTGAGGA	0.542													33	111	---	---	---	---	PASS	A	54917320	A	A	54917320	3	1	19	1	0	0	0	0	1	0	0	0	10222	507	18	3	2095	3	NCKAP1L	12	54917320	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1194930	54917320	78934575	353	9522										
OR6C70	390327	broad.mit.edu	37	chr12	55863141	55863141	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aagcaactctttcattcgctGatggctttatgtagataaac	7	8	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:55863141G>A	uc010spn.1	-	1	782	c.782C>T	c.(781-783)TCA>TTA	p.S261L		NM_001005499	NP_001005499	A6NIJ9	O6C70_HUMAN	olfactory receptor, family 6, subfamily C,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TTCATTCGCTGATGGCTTTAT	0.393													51	170	---	---	---	---	PASS	A	55863141	A	A	55863141	3	1	19	1	0	0	0	0	1	0	0	0	11197	1294	45	2	158	2	OR6C70	12	55863141	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	945821	55863141	77988754	354	9523										
OS9	10956	broad.mit.edu	37	chr12	58090110	58090110	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagccagacctatggcaatgGgtccaagtgcgaccttaatg	11	11	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:58090110G>T	uc001spj.2	+	5	592	c.533G>T	c.(532-534)GGG>GTG	p.G178V	OS9_uc010srx.1_Intron|OS9_uc001spk.2_Missense_Mutation_p.G178V|OS9_uc001spl.2_Missense_Mutation_p.G178V|OS9_uc001spm.2_Missense_Mutation_p.G178V|OS9_uc001spn.2_Missense_Mutation_p.G178V|OS9_uc010sry.1_Intron|OS9_uc010srz.1_Missense_Mutation_p.G119V	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	178	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)			TATGGCAATGGGTCCAAGTGC	0.542													46	124	---	---	---	---	PASS	T	58090110	T	T	58090110	3	4	19	1	0	0	0	0	1	0	0	0	11272	1232	43	3	551	3	OS9	12	58090110	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2226969	58090110	75761785	355	9524										
IL26	55801	broad.mit.edu	37	chr12	68619426	68619426	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcgtcaacagcttgggacaaTgttccccttgggtaacaact	10	11	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:68619426T>G	uc001stx.1	-	1	146	c.111A>C	c.(109-111)ACA>ACC	p.T37T		NM_018402	NP_060872	Q9NPH9	IL26_HUMAN	interleukin 26 precursor	37					cell-cell signaling|negative regulation of epithelial cell proliferation|positive regulation of cytokine secretion|positive regulation of ERK1 and ERK2 cascade|positive regulation of JAK-STAT cascade|positive regulation of protein kinase B signaling cascade|positive regulation of stress-activated MAPK cascade|positive regulation of transcription from RNA polymerase II promoter	cytosol|extracellular space|soluble fraction	cytokine activity				0			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000515)		CTTGGGACAATGTTCCCCTTG	0.443													100	338	---	---	---	---	PASS	G	68619426	G	G	68619426	2	3	19	1	0	0	0	0	0	0	0	1	7679	1451	51	5		5	IL26	12	68619426	Silent	SNP	T	TCGA-21-1070-01A-01D-1521-08	10529316	68619426	65232469	356	9525										
PTPRR	5801	broad.mit.edu	37	chr12	71314168	71314168	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gggaagcagactgctctccgCatagtgtttgcattgagagg	14	8	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:71314168C>A	uc001swi.1	-	1	419	c.3G>T	c.(1-3)ATG>ATT	p.M1I		NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	1					in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		CTGCTCTCCGCATAGTGTTTG	0.552													11	39	---	---	---	---	PASS	A	71314168	A	A	71314168	3	1	19	1	0	0	0	0	1	0	0	0	12810	710	25	3	2026	3	PTPRR	12	71314168	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2694742	71314168	62537727	357	9526										
LRRIQ1	84125	broad.mit.edu	37	chr12	85492717	85492717	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acagcatttcaactgtggaaGcattttcttcatactggctg	8	9	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:85492717G>T	uc001tac.2	+	13	3265	c.3154G>T	c.(3154-3156)GCA>TCA	p.A1052S	LRRIQ1_uc001tab.1_Missense_Mutation_p.A1052S	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1052	LRR 8.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		AACTGTGGAAGCATTTTCTTC	0.303													27	101	---	---	---	---	PASS	T	85492717	T	T	85492717	3	4	19	1	0	0	0	0	1	0	0	0	9029	971	34	3	3200	3	LRRIQ1	12	85492717	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	14178549	85492717	48359178	358	9527										
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100431478	100431478	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tttccaagtgagcctctgcaAgagccattttagctttagcc	8	11	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:100431478A>G	uc001tgq.2	-	21	4560	c.4331T>C	c.(4330-4332)CTT>CCT	p.L1444P	UHRF1BP1L_uc001tgp.2_Missense_Mutation_p.L1094P	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	1444	Potential.									ovary(2)	2						AGCCTCTGCAAGAGCCATTTT	0.383													29	151	---	---	---	---	PASS	G	100431478	G	G	100431478	3	3	19	1	0	0	0	0	1	0	0	0	16966	72	3	5	67	5	UHRF1BP1L	12	100431478	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	14938761	100431478	33420417	359	9528										
ANO4	121601	broad.mit.edu	37	chr12	101491478	101491478	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggctgataaacaggtggagaCtagaagaggtctgtattctc	13	6	2	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:101491478C>A	uc010svm.1	+	20	2472	c.1900C>A	c.(1900-1902)CTA>ATA	p.L634I	ANO4_uc001thw.2_Missense_Mutation_p.L599I|ANO4_uc001thx.2_Missense_Mutation_p.L634I|ANO4_uc001thy.2_Missense_Mutation_p.L154I	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	634	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						CAGGTGGAGACTAGAAGAGGT	0.438										HNSCC(74;0.22)			24	130	---	---	---	---	PASS	A	101491478	A	A	101491478	3	1	19	1	0	0	0	0	1	0	0	0	699	564	20	3	1865	3	ANO4	12	101491478	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1060000	101491478	32360417	360	9529										
HCFC2	29915	broad.mit.edu	37	chr12	104476524	104476524	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaccaccctagtatcagattCtcaggaagataaaaaaaatt	6	8	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:104476524C>A	uc001tkj.3	+	7	1011	c.908C>A	c.(907-909)TCT>TAT	p.S303Y	HCFC2_uc009zul.2_RNA	NM_013320	NP_037452	Q9Y5Z7	HCFC2_HUMAN	host cell factor C2	303	Kelch 4.				regulation of transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus	transcription coactivator activity			ovary(2)|central_nervous_system(1)	3						GTATCAGATTCTCAGGAAGAT	0.363													6	128	---	---	---	---	PASS	A	104476524	A	A	104476524	3	1	19	1	0	0	0	0	1	0	0	0	6993	913	32	2	934	2	HCFC2	12	104476524	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2985046	104476524	29375371	361	9530										
RFX4	5992	broad.mit.edu	37	chr12	107090222	107090222	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtgctgcaggcattacctgaCaggtgggcatgcttattctt	12	9	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:107090222C>A	uc001tlr.2	+	8	897	c.831C>A	c.(829-831)GAC>GAA	p.D277E	RFX4_uc010swv.1_RNA|RFX4_uc001tls.2_Missense_Mutation_p.D286E|RFX4_uc001tlt.2_Missense_Mutation_p.D286E|RFX4_uc001tlv.2_Missense_Mutation_p.D183E	NM_213594	NP_998759	Q33E94	RFX4_HUMAN	regulatory factor X4 isoform c	277					transcription, DNA-dependent	nucleus	DNA binding			upper_aerodigestive_tract(1)	1						CATTACCTGACAGGTGGGCAT	0.527													44	126	---	---	---	---	PASS	A	107090222	A	A	107090222	3	1	19	1	0	0	0	0	1	0	0	0	13265	477	17	3	1034	3	RFX4	12	107090222	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2613698	107090222	26761673	362	9531										
MYL2	4633	broad.mit.edu	37	chr12	111358331	111358331	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cctggagcccttgtactcacCatggtggaaaggacccagca	11	13	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:111358331C>A	uc001try.3	-	1	74	c.3G>T	c.(1-3)ATG>ATT	p.M1I	MYL2_uc001trx.3_5'Flank	NM_000432	NP_000423	P10916	MLRV_HUMAN	slow cardiac myosin regulatory light chain 2	1					cardiac myofibril assembly|heart contraction|muscle filament sliding|negative regulation of cell growth|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	cytosol|myosin complex|sarcomere	actin monomer binding|calcium ion binding|myosin heavy chain binding|structural constituent of muscle			ovary(1)	1						TTGTACTCACCATGGTGGAAA	0.597													35	157	---	---	---	---	PASS	A	111358331	A	A	111358331	3	1	19	1	0	0	0	0	1	0	0	0	10047	608	21	3	525	3	MYL2	12	111358331	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4268109	111358331	22493564	363	9532										
NOS1	4842	broad.mit.edu	37	chr12	117672527	117672527	+	Frame_Shift_Del	DEL	C	-	-													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggtactgcagctcctggctCccgttggtgtggagacgcac							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:117672527delC	uc001twm.1	-	21	3764	c.3078delG	c.(3076-3078)GGGfs	p.G1026fs		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1026	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GCTCCTGGCTCCCGTTGGTGT	0.587													77	34	---	---	---	---		-	117672527	-	-	117672527	7	5	19	1	0	1	0	1	0	0	0	0	10541	842	30	0	1262	0	NOS1	12	117672527	Frame_Shift_Del	DEL	C	TCGA-21-1070-01A-01D-1521-08	6314196	117672527	16179368	364	9533										
RPLP0	6175	broad.mit.edu	37	chr12	120637225	120637225	+	Missense_Mutation	SNP	T	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggacatgcggatctgctgcaTctgcttggagcccacattgt							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:120637225T>A	uc001txp.2	-	3	355	c.118A>T	c.(118-120)ATG>TTG	p.M40L	RPLP0_uc001txq.2_Missense_Mutation_p.M40L|RPLP0_uc001txr.2_Missense_Mutation_p.M40L|uc001txs.1_5'Flank	NM_053275	NP_444505	P05388	RLA0_HUMAN	ribosomal protein P0	40					endocrine pancreas development|interspecies interaction between organisms|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleus	protein binding|RNA binding|structural constituent of ribosome			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ATCTGCTGCATCTGCTTGGAG	0.517													35	115	---	---	---	---	PASS	A	120637225	A	A	120637225	3	1	19	1	0	0	0	0	1	0	0	0	13604	1435	50	5	859	5	RPLP0	12	120637225	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	2964698	120637225	13214670	365	9534	276	2								
RPLP0	6175	broad.mit.edu	37	chr12	120637226	120637226	+	Missense_Mutation	SNP	C	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gacatgcggatctgctgcatCtgcttggagcccacattgtc							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:120637226C>A	uc001txp.2	-	3	354	c.117G>T	c.(115-117)CAG>CAT	p.Q39H	RPLP0_uc001txq.2_Missense_Mutation_p.Q39H|RPLP0_uc001txr.2_Missense_Mutation_p.Q39H|uc001txs.1_5'Flank	NM_053275	NP_444505	P05388	RLA0_HUMAN	ribosomal protein P0	39					endocrine pancreas development|interspecies interaction between organisms|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleus	protein binding|RNA binding|structural constituent of ribosome			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCTGCTGCATCTGCTTGGAGC	0.512													34	116	---	---	---	---	PASS	A	120637226	A	A	120637226	3	1	19	1	0	0	0	0	1	0	0	0	13604	912	32	2	860	2	RPLP0	12	120637226	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1	120637226	13214669	366	9535	276	2								
ANAPC5	51433	broad.mit.edu	37	chr12	121766123	121766123	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gccttgggagacctacctgcGgccatacagcctccagatgg	12	14	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:121766123G>A	uc001uag.2	-	10	1422	c.1300C>T	c.(1300-1302)CGC>TGC	p.R434C	ANAPC5_uc010szu.1_Missense_Mutation_p.R100C|ANAPC5_uc001uae.2_5'UTR|ANAPC5_uc010szv.1_Missense_Mutation_p.R36C|ANAPC5_uc001uaf.2_RNA|ANAPC5_uc001uah.2_Missense_Mutation_p.R322C|ANAPC5_uc001uai.1_Missense_Mutation_p.R36C	NM_016237	NP_057321	Q9UJX4	APC5_HUMAN	anaphase-promoting complex subunit 5 isoform a	434					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding|ubiquitin-protein ligase activity			skin(3)|breast(2)|kidney(1)	6	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ACCTACCTGCGGCCATACAGC	0.527													20	88	---	---	---	---	PASS	A	121766123	A	A	121766123	3	1	19	1	0	0	0	0	1	0	0	0	605	1116	39	1	999	1	ANAPC5	12	121766123	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1128897	121766123	12085772	367	9536										
TCTN2	79867	broad.mit.edu	37	chr12	124156062	124156062	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttcccgcctagctttcatcCctccttttatccgaatgtcc	4	17	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:124156062C>T	uc001ufp.2	+	2	219	c.91C>T	c.(91-93)CCT>TCT	p.P31S	TCTN2_uc009zya.2_Missense_Mutation_p.P31S	NM_024809	NP_079085	Q96GX1	TECT2_HUMAN	tectonic family member 2 isoform 1	31	Extracellular (Potential).				cilium assembly|smoothened signaling pathway	integral to membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000163)|Epithelial(86;0.000502)|all cancers(50;0.00451)		AGCTTTCATCCCTCCTTTTAT	0.617													29	116	---	---	---	---	PASS	T	124156062	T	T	124156062	3	4	19	1	0	0	0	0	1	0	0	0	15720	623	22	3	97	3	TCTN2	12	124156062	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2389939	124156062	9695833	368	9537										
TMEM132D	121256	broad.mit.edu	37	chr12	129558905	129558905	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtattttaatgcaaaggtcaCacagtttatcaagaagacca	7	7	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr12:129558905C>G	uc009zyl.1	-	9	3143	c.2815G>C	c.(2815-2817)GTG>CTG	p.V939L	TMEM132D_uc001uia.2_Missense_Mutation_p.V477L	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	939	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GCAAAGGTCACACAGTTTATC	0.463													46	124	---	---	---	---	PASS	G	129558905	G	G	129558905	3	3	19	1	0	0	0	0	1	0	0	0	16044	478	17	4	488	4	TMEM132D	12	129558905	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	5402843	129558905	4292990	369	9538										
FLT1	2321	broad.mit.edu	37	chr13	28971177	28971177	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgtagattccagaaattctaGagtcagccacaaccaaggtg	9	9	2	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:28971177G>A	uc001usb.3	-	12	1865	c.1580C>T	c.(1579-1581)TCT>TTT	p.S527F	FLT1_uc010aar.1_Missense_Mutation_p.S527F|FLT1_uc001usc.3_Missense_Mutation_p.S527F|FLT1_uc010aas.1_RNA|FLT1_uc010aat.1_Missense_Mutation_p.S10F	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	527	Ig-like C2-type 5.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	AGAAATTCTAGAGTCAGCCAC	0.398													33	38	---	---	---	---	PASS	A	28971177	A	A	28971177	3	1	19	1	0	0	0	0	1	0	0	0	5941	942	33	2	2697	2	FLT1	13	28971177	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08		28971177	86198701	370	9539										
CYSLTR2	57105	broad.mit.edu	37	chr13	49281473	49281473	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggcttcctcaataatgctcCtggacagtggctctgagcag	11	11	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:49281473C>T	uc010acx.1	+	6	1203	c.520C>T	c.(520-522)CTG>TTG	p.L174L	CYSLTR2_uc010acy.1_Silent_p.L174L|CYSLTR2_uc010acz.1_Silent_p.L174L|CYSLTR2_uc010ada.1_Silent_p.L174L|CYSLTR2_uc010adb.1_Silent_p.L174L|CYSLTR2_uc010adc.1_Silent_p.L174L|CYSLTR2_uc010add.1_Silent_p.L174L|CYSLTR2_uc010acw.1_Silent_p.L174L|CYSLTR2_uc001vck.2_Silent_p.L174L	NM_020377	NP_065110	Q9NS75	CLTR2_HUMAN	cysteinyl leukotriene receptor 2	174	Helical; Name=4; (Potential).				immune response	integral to membrane|plasma membrane				lung(2)	2		all_cancers(8;1.66e-53)|all_epithelial(8;1.96e-19)|all_lung(13;9.94e-09)|all_hematologic(8;7.13e-07)|Lung NSC(96;1.72e-06)|Breast(56;1.53e-05)|Acute lymphoblastic leukemia(8;6.86e-05)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0416)|Lung SC(185;0.0787)		GBM - Glioblastoma multiforme(99;1.19e-09)	Nedocromil(DB00716)	AATAATGCTCCTGGACAGTGG	0.483													62	147	---	---	---	---	PASS	T	49281473	T	T	49281473	2	4	19	1	0	0	0	0	0	0	0	1	4202	680	24	3		3	CYSLTR2	13	49281473	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	20310296	49281473	65888405	371	9540										
OLFM4	10562	broad.mit.edu	37	chr13	53608502	53608502	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gttgttttccaatttcaccgGctccgtggatgaccgtggga	12	10	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:53608502G>T	uc001vhl.2	+	2	224	c.224G>T	c.(223-225)GGC>GTC	p.G75V	OLFM4_uc001vhk.1_Missense_Mutation_p.G75V	NM_006418	NP_006409	Q6UX06	OLFM4_HUMAN	olfactomedin 4 precursor	75					cell adhesion	extracellular space				skin(1)	1		Breast(56;0.000776)|Lung NSC(96;0.000814)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.13e-08)		AATTTCACCGGCTCCGTGGAT	0.478													18	76	---	---	---	---	PASS	T	53608502	T	T	53608502	3	4	19	1	0	0	0	0	1	0	0	0	10855	1203	42	3	230	3	OLFM4	13	53608502	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	4327029	53608502	61561376	372	9541										
PCDH17	27253	broad.mit.edu	37	chr13	58299162	58299162	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctgaagcaagcagtcagtacTtgcccactgacagtcaatat	8	11	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:58299162T>G	uc001vhq.1	+	4	4106	c.3214T>G	c.(3214-3216)TTG>GTG	p.L1072V	PCDH17_uc010aec.1_Missense_Mutation_p.L1071V|PCDH17_uc001vhr.1_Missense_Mutation_p.L161V	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	1072	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CAGTCAGTACTTGCCCACTGA	0.532													8	213	---	---	---	---	PASS	G	58299162	G	G	58299162	3	3	19	1	0	0	0	0	1	0	0	0	11512	1606	56	5	3228	5	PCDH17	13	58299162	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	4690660	58299162	56870716	373	9542										
LMO7	4008	broad.mit.edu	37	chr13	76301206	76301206	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggcgtcattaagaagatcaAtagactgtctacaccaatag	8	8	3	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:76301206A>G	uc010thv.1	+	4	1598	c.338A>G	c.(337-339)AAT>AGT	p.N113S	LMO7_uc001vjt.1_Missense_Mutation_p.N61S	NM_005358	NP_005349	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 1	113	CH.					cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		AAGAAGATCAATAGACTGTCT	0.318													22	73	---	---	---	---	PASS	G	76301206	G	G	76301206	3	3	19	1	0	0	0	0	1	0	0	0	8855	101	4	5	352	5	LMO7	13	76301206	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	18002044	76301206	38868672	374	9543										
KCTD12	115207	broad.mit.edu	37	chr13	77460056	77460056	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tccagaaagaagcggcctttGctgtcccgggccagctcctg	12	14	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:77460056G>C	uc010aeu.1	-	1	485	c.228C>G	c.(226-228)AGC>AGG	p.S76R	KCTD12_uc001vka.1_Missense_Mutation_p.S76R	NM_138444	NP_612453	Q96CX2	KCD12_HUMAN	potassium channel tetramerisation domain	76						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(1)	1		Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.0499)		AGCGGCCTTTGCTGTCCCGGG	0.657													9	23	---	---	---	---	PASS	C	77460056	C	C	77460056	3	2	19	1	0	0	0	0	1	0	0	0	8099	1310	46	4	753	4	KCTD12	13	77460056	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1158850	77460056	37709822	375	9544										
SCEL	8796	broad.mit.edu	37	chr13	78177239	78177239	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	accttgataatgctactgaaGtaaatcccaaaggacatgaa	7	8	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:78177239G>T	uc001vki.2	+	18	1236	c.1066G>T	c.(1066-1068)GTA>TTA	p.V356L	SCEL_uc001vkj.2_Missense_Mutation_p.V336L|SCEL_uc010thx.1_Missense_Mutation_p.V334L	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	356	16 X approximate tandem repeats.|6.				embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		TGCTACTGAAGTAAATCCCAA	0.284													36	80	---	---	---	---	PASS	T	78177239	T	T	78177239	3	4	19	1	0	0	0	0	1	0	0	0	13888	1029	36	3	1132	3	SCEL	13	78177239	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	717183	78177239	36992639	376	9545										
RBM26	64062	broad.mit.edu	37	chr13	79940805	79940805	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctgggtggcaatggacctggCggtggtactgggggcctgag	20	8	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:79940805C>T	uc001vkz.2	-	7	1112	c.1098G>A	c.(1096-1098)CCG>CCA	p.P366P	RBM26_uc001vky.2_Silent_p.P366P|RBM26_uc001vla.2_Silent_p.P366P|RBM26_uc001vkx.2_Silent_p.P78P|RBM26_uc001vlb.1_RNA	NM_022118	NP_071401	Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26	366	Pro-rich.				mRNA processing		nucleotide binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)		GBM - Glioblastoma multiforme(99;0.0188)		ATGGACCTGGCGGTGGTACTG	0.498													34	79	---	---	---	---	PASS	T	79940805	T	T	79940805	2	4	19	1	0	0	0	0	0	0	0	1	13126	755	27	1		1	RBM26	13	79940805	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	1763566	79940805	35229073	377	9546										
FARP1	10160	broad.mit.edu	37	chr13	99099054	99099054	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tactacttcagggcggaaagCgagtacacgttcgaaaggta	12	8	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:99099054C>T	uc001vnj.2	+	26	3375	c.3039C>T	c.(3037-3039)AGC>AGT	p.S1013S	FARP1_uc001vnh.2_Silent_p.S1044S	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	1013	PH 2.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			GGGCGGAAAGCGAGTACACGT	0.552													43	126	---	---	---	---	PASS	T	99099054	T	T	99099054	2	4	19	1	0	0	0	0	0	0	0	1	5676	767	27	1		1	FARP1	13	99099054	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	19158249	99099054	16070824	378	9547										
NALCN	259232	broad.mit.edu	37	chr13	101707828	101707828	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctgaggacactgaatggcttAttggttttggggctgtggaa	15	5	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:101707828A>T	uc001vox.1	-	44	5225	c.5036T>A	c.(5035-5037)ATA>AAA	p.I1679K		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1679	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TGAATGGCTTATTGGTTTTGG	0.458													62	301	---	---	---	---	PASS	T	101707828	T	T	101707828	3	4	19	1	0	0	0	0	1	0	0	0	10148	449	16	5	184	5	NALCN	13	101707828	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	2608774	101707828	13462050	379	9548										
NALCN	259232	broad.mit.edu	37	chr13	101881753	101881753	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aaaactcttaccctcggaaaCgtagtaaatctgtccagttc	6	11	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:101881753C>A	uc001vox.1	-	13	1806	c.1617G>T	c.(1615-1617)ACG>ACT	p.T539T	NALCN_uc001voy.2_Silent_p.T254T|NALCN_uc001voz.2_Silent_p.T539T|NALCN_uc001vpa.2_Silent_p.T539T	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	539	Extracellular (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CCCTCGGAAACGTAGTAAATC	0.328													62	224	---	---	---	---	PASS	A	101881753	A	A	101881753	2	1	19	1	0	0	0	0	0	0	0	1	10148	523	19	1		1	NALCN	13	101881753	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	173925	101881753	13288125	380	9549										
ERCC5	2073	broad.mit.edu	37	chr13	103520492	103520492	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggaataagttaataaatttgGcttatttgcttggaagtgat	10	2	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:103520492G>T	uc001vpw.2	+	12	3006	c.2563G>T	c.(2563-2565)GCT>TCT	p.A855S	ERCC5_uc001vpu.1_Missense_Mutation_p.A1309S|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Missense_Mutation_p.A687S	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	855	I-domain.				negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AATAAATTTGGCTTATTTGCT	0.299			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				45	140	---	---	---	---	PASS	T	103520492	T	T	103520492	3	4	19	1	0	0	0	0	1	0	0	0	5216	1203	42	3	2609	3	ERCC5	13	103520492	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1638739	103520492	11649386	381	9550										
LIG4	3981	broad.mit.edu	37	chr13	108861015	108861015	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atctgcaacacgactatgatCttccccaattattacatgag	5	11	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:108861015C>A	uc001vqn.2	-	2	2875	c.2602G>T	c.(2602-2604)GAT>TAT	p.D868Y	LIG4_uc001vqo.2_Missense_Mutation_p.D868Y|LIG4_uc010agg.1_Missense_Mutation_p.D801Y|LIG4_uc010agf.2_Missense_Mutation_p.D868Y|LIG4_uc001vqp.2_Missense_Mutation_p.D868Y	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	868	BRCT 2.				cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					CGACTATGATCTTCCCCAATT	0.368								NHEJ					22	125	---	---	---	---	PASS	A	108861015	A	A	108861015	3	1	19	1	0	0	0	0	1	0	0	0	8783	913	32	2	137	2	LIG4	13	108861015	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	5340523	108861015	6308863	382	9551										
ATP4B	496	broad.mit.edu	37	chr13	114312455	114312455	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcttcttctcctgcagagccGccatcgtccctggcctgaga	9	16	3	2	rs139992135		TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr13:114312455G>C	uc001vtz.2	-	1	47	c.5C>G	c.(4-6)GCG>GGG	p.A2G	ATP4B_uc010agy.1_Missense_Mutation_p.A2G	NM_000705	NP_000696	P51164	ATP4B_HUMAN	hydrogen/potassium-exchanging ATPase 4B	2	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	hydrogen:potassium-exchanging ATPase activity|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.00696)|all_epithelial(44;0.00347)|all_lung(25;0.0221)|Breast(118;0.0411)|Lung NSC(25;0.0839)	all cancers(43;0.171)		Rabeprazole(DB01129)	CTGCAGAGCCGCCATCGTCCC	0.637													9	14	---	---	---	---	PASS	C	114312455	C	C	114312455	3	2	19	1	0	0	0	0	1	0	0	0	1146	1087	38	4	898	4	ATP4B	13	114312455	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	5451440	114312455	857423	383	9552										
POTEG	404785	broad.mit.edu	37	chr14	19573144	19573144	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aataagggtggtgatagaaaGgtatacttttatattcaaat	9	2	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:19573144G>T	uc001vuz.1	+	8	1294	c.1242G>T	c.(1240-1242)AAG>AAT	p.K414N	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	414										ovary(1)	1						GTGATAGAAAGGTATACTTTT	0.318													9	87	---	---	---	---	PASS	T	19573144	T	T	19573144	3	4	19	1	0	0	0	0	1	0	0	0	12266	1014	35	3	1272	3	POTEG	14	19573144	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08		19573144	87776396	384	9553										
SALL2	6297	broad.mit.edu	37	chr14	21993777	21993777	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gacttgggggtgatcctcctCgctagcatcacctggggaga	14	11	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:21993777C>A	uc001wbe.2	-	2	367	c.85G>T	c.(85-87)GAG>TAG	p.E29*	SALL2_uc010tly.1_Nonsense_Mutation_p.E27*|SALL2_uc010tlz.1_Nonsense_Mutation_p.E27*|SALL2_uc001wbf.3_Nonsense_Mutation_p.E27*|SALL2_uc010tma.1_Nonsense_Mutation_p.E29*|SALL2_uc001wbg.1_Nonsense_Mutation_p.E29*	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	29							DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		TGATCCTCCTCGCTAGCATCA	0.557													9	72	---	---	---	---	PASS	A	21993777	A	A	21993777	4	1	19	1	0	0	0	0	0	1	0	0	13811	893	31	2	2942	2	SALL2	14	21993777	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2420633	21993777	85355763	385	9554										
LRRC16B	90668	broad.mit.edu	37	chr14	24523975	24523975	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aggggccccgagatacatccCccaactctgagacttccaca	8	16	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:24523975C>T	uc001wlj.2	+	6	575	c.418C>T	c.(418-420)CCC>TCC	p.P140S		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	140										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		AGATACATCCCCCAACTCTGA	0.562													22	101	---	---	---	---	PASS	T	24523975	T	T	24523975	3	4	19	1	0	0	0	0	1	0	0	0	8972	623	22	3	440	3	LRRC16B	14	24523975	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2530198	24523975	82825565	386	9555										
GZMB	3002	broad.mit.edu	37	chr14	25102258	25102258	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggcttggcctcatgtcccccGatgatctcccctgaaggaaa	10	14	2	2	rs139103546		TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:25102258G>A	uc001wps.2	-	2	132	c.66C>T	c.(64-66)ATC>ATT	p.I22I	GZMB_uc010ama.2_Silent_p.I10I|GZMB_uc010amb.2_RNA	NM_004131	NP_004122	P10144	GRAB_HUMAN	granzyme B precursor	22	Peptidase S1.				activation of pro-apoptotic gene products|cleavage of lamin|cytolysis|induction of apoptosis by intracellular signals	cytosol|immunological synapse|nucleus	protein binding|serine-type endopeptidase activity				0				GBM - Glioblastoma multiforme(265;0.028)		CATGTCCCCCGATGATCTCCC	0.567													47	264	---	---	---	---	PASS	A	25102258	A	A	25102258	2	1	19	1	0	0	0	0	0	0	0	1	6916	1048	37	2		2	GZMB	14	25102258	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	578283	25102258	82247282	387	9556										
STRN3	29966	broad.mit.edu	37	chr14	31376206	31376206	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	actataagcaagaccccaaaCtgcatctgtatgaccaacta	5	12	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:31376206C>A	uc001wqu.2	-	14	1981	c.1765G>T	c.(1765-1767)GTT>TTT	p.V589F	STRN3_uc001wqv.2_Missense_Mutation_p.V505F|STRN3_uc010tpj.1_RNA	NM_001083893	NP_001077362	Q13033	STRN3_HUMAN	nuclear autoantigen isoform 1	589	WD 3.				negative regulation of estrogen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|response to estradiol stimulus	cytoplasm|dendrite|Golgi apparatus|neuronal cell body|nucleoplasm|nucleus|plasma membrane|protein complex	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.0124)		AGACCCCAAACTGCATCTGTA	0.353													43	146	---	---	---	---	PASS	A	31376206	A	A	31376206	3	1	19	1	0	0	0	0	1	0	0	0	15329	565	20	3	648	3	STRN3	14	31376206	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	6273948	31376206	75973334	388	9557										
FSCB	84075	broad.mit.edu	37	chr14	44976081	44976081	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggcagagtagctgcctttgCttccagaagtattaccaata	9	9	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:44976081C>T	uc001wvn.2	-	1	419	c.110G>A	c.(109-111)AGC>AAC	p.S37N		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	37						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		GCTGCCTTTGCTTCCAGAAGT	0.413													51	326	---	---	---	---	PASS	T	44976081	T	T	44976081	3	4	19	1	0	0	0	0	1	0	0	0	6066	797	28	3	2371	3	FSCB	14	44976081	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	13599875	44976081	62373459	389	9558										
KLHL28	54813	broad.mit.edu	37	chr14	45414769	45414769	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agaaatgcacaacattctttCaggacaagttttatctggag	8	7	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:45414769C>A	uc001wvq.2	-	2	609	c.363G>T	c.(361-363)CTG>CTT	p.L121L	KLHL28_uc001wvr.2_Silent_p.L121L|KLHL28_uc001wvt.3_Silent_p.L121L	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	121										ovary(1)	1						AACATTCTTTCAGGACAAGTT	0.408													26	103	---	---	---	---	PASS	A	45414769	A	A	45414769	2	1	19	1	0	0	0	0	0	0	0	1	8382	813	29	2		2	KLHL28	14	45414769	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	438688	45414769	61934771	390	9559										
RPL10L	140801	broad.mit.edu	37	chr14	47120628	47120628	+	Silent	SNP	G	T	T													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agcctgtcagccccagcacaGgacaacatcttgttgatgcg							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:47120628G>T	uc001wwg.2	-	1	401	c.312C>A	c.(310-312)TCC>TCA	p.S104S		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	104					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						CCCCAGCACAGGACAACATCT	0.532													27	100	---	---	---	---	PASS	T	47120628	T	T	47120628	2	4	19	1	0	0	0	0	0	0	0	1	13556	987	35	3		3	RPL10L	14	47120628	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	1705859	47120628	60228912	391	9560	277	2								
RPL10L	140801	broad.mit.edu	37	chr14	47120629	47120629	+	Missense_Mutation	SNP	G	T	T													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcctgtcagccccagcacagGacaacatcttgttgatgcgg							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:47120629G>T	uc001wwg.2	-	1	400	c.311C>A	c.(310-312)TCC>TAC	p.S104Y		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	104					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						CCCAGCACAGGACAACATCTT	0.532													27	100	---	---	---	---	PASS	T	47120629	T	T	47120629	3	4	19	1	0	0	0	0	1	0	0	0	13556	1174	41	2	337	2	RPL10L	14	47120629	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1	47120629	60228911	392	9561	277	2								
PPIL5	122769	broad.mit.edu	37	chr14	50065836	50065836	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccgagccgtgttgagcctctGtcagcagacttccaggagtc	12	13	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:50065836G>A	uc001wwn.2	+	1	422	c.98G>A	c.(97-99)TGT>TAT	p.C33Y	SDCCAG1_uc010anj.1_Intron|PPIL5_uc001wwo.2_Missense_Mutation_p.C33Y|PPIL5_uc010ank.2_5'UTR|PPIL5_uc001wwp.2_RNA	NM_152329	NP_689542	Q96L50	LLR1_HUMAN	peptidylprolyl isomerase (cyclophilin)-like 5	33											0	all_epithelial(31;0.0021)|Breast(41;0.0124)					TTGAGCCTCTGTCAGCAGACT	0.637													3	19	---	---	---	---	PASS	A	50065836	A	A	50065836	3	1	19	1	0	0	0	0	1	0	0	0	12330	1377	48	3	100	3	PPIL5	14	50065836	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2945207	50065836	57283704	393	9562										
DACT1	51339	broad.mit.edu	37	chr14	59112428	59112428	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acaaaccaagaaccagcgtgAacgctgaccccacgaaaggg	10	13	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:59112428A>T	uc001xdw.2	+	4	1251	c.1087A>T	c.(1087-1089)AAC>TAC	p.N363Y	DACT1_uc010trv.1_Missense_Mutation_p.N82Y|DACT1_uc001xdx.2_Missense_Mutation_p.N326Y|DACT1_uc010trw.1_Missense_Mutation_p.N82Y	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	363					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						AACCAGCGTGAACGCTGACCC	0.517													14	76	---	---	---	---	PASS	T	59112428	T	T	59112428	3	4	19	1	0	0	0	0	1	0	0	0	4222	246	9	5	1101	5	DACT1	14	59112428	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	9046592	59112428	48237112	394	9563										
ZFYVE26	23503	broad.mit.edu	37	chr14	68265178	68265178	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cccctcaatgtcatcatcctCagcatagtcctcaggcaagt	6	15	5	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:68265178C>A	uc001xka.2	-	11	1940	c.1801G>T	c.(1801-1803)GAG>TAG	p.E601*	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Nonsense_Mutation_p.E601*|ZFYVE26_uc010tta.1_Nonsense_Mutation_p.E601*	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	601					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		TCATCATCCTCAGCATAGTCC	0.522													27	109	---	---	---	---	PASS	A	68265178	A	A	68265178	4	1	19	1	0	0	0	0	0	1	0	0	17665	835	29	2	5946	2	ZFYVE26	14	68265178	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	9152750	68265178	39084362	395	9564										
ZFYVE26	23503	broad.mit.edu	37	chr14	68268906	68268906	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggtgtgagtttacacagaggGcatagatggcatacttcatg	13	6	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:68268906G>T	uc001xka.2	-	10	1668	c.1529C>A	c.(1528-1530)GCC>GAC	p.A510D	ZFYVE26_uc010tsz.1_Intron|ZFYVE26_uc001xkc.3_Missense_Mutation_p.A510D|ZFYVE26_uc010tta.1_Missense_Mutation_p.A510D	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	510					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		TACACAGAGGGCATAGATGGC	0.542													39	217	---	---	---	---	PASS	T	68268906	T	T	68268906	3	4	19	1	0	0	0	0	1	0	0	0	17665	1203	42	3	6222	3	ZFYVE26	14	68268906	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3728	68268906	39080634	396	9565										
C14orf115	55237	broad.mit.edu	37	chr14	74824129	74824129	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cccgccgctgcgaccacgtgCcctccacgctgcacatcatg	9	20	1	0	rs142400429	byFrequency	TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:74824129C>A	uc001xpw.3	+	2	834	c.643C>A	c.(643-645)CCC>ACC	p.P215T		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	215					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		CGACCACGTGCCCTCCACGCT	0.637													14	88	---	---	---	---	PASS	A	74824129	A	A	74824129	3	1	19	1	0	0	0	0	1	0	0	0	1740	739	26	3	645	3	C14orf115	14	74824129	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	6555223	74824129	32525411	397	9566										
KIAA0317	9870	broad.mit.edu	37	chr14	75143291	75143291	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agggagactgcttacctcatGaatggacaaggtgtaattgt	12	6	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:75143291G>C	uc001xqb.2	-	6	1151	c.646C>G	c.(646-648)CAT>GAT	p.H216D	KIAA0317_uc010tut.1_Missense_Mutation_p.H55D|KIAA0317_uc001xqc.2_Missense_Mutation_p.H216D	NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870	216					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		CTTACCTCATGAATGGACAAG	0.453													51	142	---	---	---	---	PASS	C	75143291	C	C	75143291	3	2	19	1	0	0	0	0	1	0	0	0	8167	1290	45	2	1885	2	KIAA0317	14	75143291	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	319162	75143291	32206249	398	9567										
FAM164C	79696	broad.mit.edu	37	chr14	75537471	75537471	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agcaacaaagagttgattctGgataaagtctatactcaccc	7	9	3	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:75537471G>A	uc001xri.2	+	2	368	c.195G>A	c.(193-195)CTG>CTA	p.L65L	FAM164C_uc001xrh.2_Silent_p.L65L	NM_001042430	NP_001035895	Q53FD0	F164C_HUMAN	chromosome 14 open reading frame 140 isoform b	65										ovary(1)	1						AGTTGATTCTGGATAAAGTCT	0.473													110	276	---	---	---	---	PASS	A	75537471	A	A	75537471	2	1	19	1	0	0	0	0	0	0	0	1	5479	1335	47	3		3	FAM164C	14	75537471	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	394180	75537471	31812069	399	9568										
GPR65	8477	broad.mit.edu	37	chr14	88477477	88477477	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggagtgcttttctcatgtacAtgaatttttacagcagcaca	8	8	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:88477477A>C	uc001xvv.2	+	2	816	c.286A>C	c.(286-288)ATG>CTG	p.M96L		NM_003608	NP_003599	Q8IYL9	PSYR_HUMAN	G protein-coupled receptor 65	96	Helical; Name=3; (Potential).				actin cytoskeleton reorganization|activation of Rho GTPase activity|apoptosis|immune response|multicellular organismal development|positive regulation of cAMP biosynthetic process|positive regulation of stress fiber assembly|response to acidity	integral to plasma membrane	G-protein coupled receptor activity				0						TCTCATGTACATGAATTTTTA	0.413													132	375	---	---	---	---	PASS	C	88477477	C	C	88477477	3	2	19	1	0	0	0	0	1	0	0	0	6706	217	8	5	288	5	GPR65	14	88477477	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	12940006	88477477	18872063	400	9569										
KCNK10	54207	broad.mit.edu	37	chr14	88729855	88729855	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gggggttgcccgttagtggcGctcttgggctggcacaccgg	18	11	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:88729855G>T	uc001xwo.2	-	2	535	c.78C>A	c.(76-78)AGC>AGA	p.S26R	KCNK10_uc001xwm.2_Missense_Mutation_p.S31R|KCNK10_uc001xwn.2_Missense_Mutation_p.S31R	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	26	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						CGTTAGTGGCGCTCTTGGGCT	0.592													37	121	---	---	---	---	PASS	T	88729855	T	T	88729855	3	4	19	1	0	0	0	0	1	0	0	0	8059	1078	38	1	1562	1	KCNK10	14	88729855	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	252378	88729855	18619685	401	9570										
SLC24A4	123041	broad.mit.edu	37	chr14	92908488	92908488	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttcatggctgcaggaagctCaacgccagagctgtttgcgt	12	11	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:92908488C>A	uc001yak.2	+	5	422	c.398C>A	c.(397-399)TCA>TAA	p.S133*	SLC24A4_uc001yai.2_Nonsense_Mutation_p.S86*|SLC24A4_uc010twm.1_Nonsense_Mutation_p.S150*|SLC24A4_uc001yaj.2_Nonsense_Mutation_p.S133*|SLC24A4_uc010auj.2_Nonsense_Mutation_p.S41*|SLC24A4_uc010twn.1_5'Flank	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	150	Cytoplasmic (Potential).|Alpha-1.					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		GCAGGAAGCTCAACGCCAGAG	0.557													12	100	---	---	---	---	PASS	A	92908488	A	A	92908488	4	1	19	1	0	0	0	0	0	1	0	0	14468	838	29	2	416	2	SLC24A4	14	92908488	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4178633	92908488	14441052	402	9571										
TCL1B	9623	broad.mit.edu	37	chr14	96152930	96152930	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtcgtgcggttcaatccctcGcgtagggaatgggccagggc	16	11	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:96152930G>T	uc001yez.2	+	1	168	c.126G>T	c.(124-126)TCG>TCT	p.S42S	TCL1B_uc001yew.2_Intron|TCL1B_uc001yex.2_Intron|TCL1B_uc010avj.2_Intron|TCL1B_uc001yfa.2_Silent_p.S42S	NM_004918	NP_004909	O95988	TCL1B_HUMAN	T-cell leukemia/lymphoma 1B	42										ovary(1)	1		all_cancers(154;0.103)		COAD - Colon adenocarcinoma(157;0.205)|Epithelial(152;0.248)		TCAATCCCTCGCGTAGGGAAT	0.667													14	70	---	---	---	---	PASS	T	96152930	T	T	96152930	2	4	19	1	0	0	0	0	0	0	0	1	15702	1074	38	1		1	TCL1B	14	96152930	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	3244442	96152930	11196610	403	9572										
ATG2B	55102	broad.mit.edu	37	chr14	96769593	96769593	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acttcatgctgaaacttcacCttaacgggtaaggaggaaga	10	8	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:96769593C>A	uc001yfi.2	-	33	5208	c.4843_splice	c.e33-1	p.V1615_splice		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B											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)		GAAACTTCACCTTAACGGGTA	0.418													14	122	---	---	---	---	PASS	A	96769593	A	A	96769593	5	1	19	1	0	0	0	0	0	0	1	0	1094	695	24	3	1434	3	ATG2B	14	96769593	Splice_Site	SNP	C	TCGA-21-1070-01A-01D-1521-08	616663	96769593	10579947	404	9573										
DYNC1H1	1778	broad.mit.edu	37	chr14	102472281	102472281	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tccttgatcaaaagcaagatTgacaacgccaaatcttttga	6	9	2	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:102472281T>C	uc001yks.2	+	27	5654	c.5490T>C	c.(5488-5490)ATT>ATC	p.I1830I		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1830	Stem (By similarity).				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						AAAGCAAGATTGACAACGCCA	0.388													53	297	---	---	---	---	PASS	C	102472281	C	C	102472281	2	2	19	1	0	0	0	0	0	0	0	1	4841	1800	63	5		5	DYNC1H1	14	102472281	Silent	SNP	T	TCGA-21-1070-01A-01D-1521-08	5702688	102472281	4877259	405	9574										
MARK3	4140	broad.mit.edu	37	chr14	103941431	103941431	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaatttcctcccggaaatcaAgtggcagtgctgttggagga	13	8	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:103941431A>G	uc001ymz.3	+	13	2032	c.1366A>G	c.(1366-1368)AGT>GGT	p.S456G	MARK3_uc001ymx.3_Missense_Mutation_p.S456G|MARK3_uc001ymw.3_Missense_Mutation_p.S456G|MARK3_uc001yna.3_Missense_Mutation_p.S440G|MARK3_uc001ymy.3_Missense_Mutation_p.S377G|MARK3_uc010awp.2_Missense_Mutation_p.S479G|MARK3_uc010tyb.1_Missense_Mutation_p.S251G|MARK3_uc010awq.2_5'UTR	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	456				S -> T (in Ref. 5; AAA59991).			ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			CCGGAAATCAAGTGGCAGTGC	0.483													9	68	---	---	---	---	PASS	G	103941431	G	G	103941431	3	3	19	1	0	0	0	0	1	0	0	0	9314	72	3	5	1416	5	MARK3	14	103941431	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	1469150	103941431	3408109	406	9575										
BRF1	2972	broad.mit.edu	37	chr14	105739131	105739131	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gccatcttccggccgcgggtCaggtgcctgctcacggccat	13	16	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr14:105739131C>A	uc001yqp.2	-	3	729	c.366G>T	c.(364-366)CTG>CTT	p.L122L	BRF1_uc010tyo.1_Silent_p.L7L|BRF1_uc010typ.1_Silent_p.L7L|BRF1_uc010axg.1_Silent_p.L95L|BRF1_uc001yqr.2_Silent_p.L122L	NM_001519	NP_001510	Q92994	TF3B_HUMAN	transcription initiation factor IIIB isoform 1	122	1.				positive regulation of transcription, DNA-dependent|rRNA transcription|transcription initiation from RNA polymerase III promoter|tRNA transcription	transcription factor TFIIIB complex	translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		all_cancers(154;0.0231)|all_epithelial(191;0.0694)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00753)|all cancers(16;0.00925)|Epithelial(46;0.0221)	Epithelial(152;0.14)		GGCCGCGGGTCAGGTGCCTGC	0.637													52	82	---	---	---	---	PASS	A	105739131	A	A	105739131	2	1	19	1	0	0	0	0	0	0	0	1	1510	813	29	2		2	BRF1	14	105739131	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	1797700	105739131	1610409	407	9576										
MKRN3	7681	broad.mit.edu	37	chr15	23812394	23812394	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gagatgagttacccttctctGaggaccagtgggacttgctt	12	9	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr15:23812394G>T	uc001ywh.3	+	1	1941	c.1465G>T	c.(1465-1467)GAG>TAG	p.E489*	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Intron	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	489						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		ACCCTTCTCTGAGGACCAGTG	0.453													48	229	---	---	---	---	PASS	T	23812394	T	T	23812394	4	4	19	1	0	0	0	0	0	1	0	0	9608	1291	45	2	1467	2	MKRN3	15	23812394	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08		23812394	78718998	408	9577										
UBE3A	7337	broad.mit.edu	37	chr15	25650618	25650618	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttacacttacattcggctagCttcaatgtcgtcagactgag	8	10	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr15:25650618C>A	uc001zaq.2	-	2	61	c.61G>T	c.(61-63)GCT>TCT	p.A21S	UBE3A_uc001zar.2_5'UTR|UBE3A_uc001zas.2_Missense_Mutation_p.A18S|UBE3A_uc001zat.2_5'UTR|UBE3A_uc001zau.1_RNA	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	21					brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		ATTCGGCTAGCTTCAATGTCG	0.348													33	154	---	---	---	---	PASS	A	25650618	A	A	25650618	3	1	19	1	0	0	0	0	1	0	0	0	16876	797	28	3	2606	3	UBE3A	15	25650618	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1838224	25650618	76880774	409	9578										
TJP1	7082	broad.mit.edu	37	chr15	29993840	29993840	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agaaacacagtttgctccaaCgagataatttggatctccgg	9	9	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr15:29993840C>A	uc001zcr.2	-	28	5681	c.5206G>T	c.(5206-5208)GTT>TTT	p.V1736F	TJP1_uc010azl.2_Missense_Mutation_p.V1744F|TJP1_uc001zcq.2_Missense_Mutation_p.V1680F|TJP1_uc001zcs.2_Missense_Mutation_p.V1656F	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	1736					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		TTTGCTCCAACGAGATAATTT	0.348													24	91	---	---	---	---	PASS	A	29993840	A	A	29993840	3	1	19	1	0	0	0	0	1	0	0	0	15926	536	19	1	44	1	TJP1	15	29993840	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4343222	29993840	72537552	410	9579										
ACTC1	70	broad.mit.edu	37	chr15	35085701	35085701	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gatgggatacttcagggtcaGgatgcctctcttgctctggg	14	9	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr15:35085701G>T	uc001ziu.1	-	3	442	c.199C>A	c.(199-201)CTG>ATG	p.L67M	uc001zit.1_Intron	NM_005159	NP_005150	P68032	ACTC_HUMAN	cardiac muscle alpha actin 1 proprotein	67					apoptosis|cardiac muscle tissue morphogenesis|cardiac myofibril assembly|muscle filament sliding|skeletal muscle thin filament assembly	actomyosin, actin part|cytosol|I band	ATP binding|ATPase activity|myosin binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(180;2.3e-08)		all cancers(64;5.83e-19)|GBM - Glioblastoma multiforme(113;1.98e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		TTCAGGGTCAGGATGCCTCTC	0.498													44	71	---	---	---	---	PASS	T	35085701	T	T	35085701	3	4	19	1	0	0	0	0	1	0	0	0	195	991	35	3	954	3	ACTC1	15	35085701	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	5091861	35085701	67445691	411	9580										
EIF2AK4	440275	broad.mit.edu	37	chr15	40308761	40308761	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tttgcaagatcttatgccaaCaataaattcattaataaaac	3	7	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr15:40308761C>A	uc001zkm.1	+	28	3868	c.3818C>A	c.(3817-3819)ACA>AAA	p.T1273K	EIF2AK4_uc010bbj.1_Missense_Mutation_p.T974K|EIF2AK4_uc001zkn.1_Missense_Mutation_p.T373K|EIF2AK4_uc001zko.1_Intron|EIF2AK4_uc010bbk.1_RNA	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	1273	Histidyl-tRNA synthetase-like.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		CTTATGCCAACAATAAATTCA	0.428													4	122	---	---	---	---	PASS	A	40308761	A	A	40308761	3	1	19	1	0	0	0	0	1	0	0	0	4999	478	17	3	3928	3	EIF2AK4	15	40308761	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	5223060	40308761	62222631	412	9581										
BUB1B	701	broad.mit.edu	37	chr15	40462291	40462291	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aatatgaaattcgattttacActggaaatgaccctctggat	7	7	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr15:40462291A>T	uc001zkx.3	+	3	420	c.208A>T	c.(208-210)ACT>TCT	p.T70S		NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	70	BUB1 N-terminal.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		TCGATTTTACACTGGAAATGA	0.353			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				45	104	---	---	---	---	PASS	T	40462291	T	T	40462291	3	4	19	1	0	0	0	0	1	0	0	0	1571	159	6	5	218	5	BUB1B	15	40462291	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	153530	40462291	62069101	413	9582										
ATP8B4	79895	broad.mit.edu	37	chr15	50264859	50264859	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccgttttgtcggagaaaatgTactcaatctgccccagttcc	8	12	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr15:50264859T>A	uc001zxu.2	-	13	1305	c.1163A>T	c.(1162-1164)TAC>TTC	p.Y388F	ATP8B4_uc010ber.2_Missense_Mutation_p.Y261F|ATP8B4_uc010ufd.1_Missense_Mutation_p.Y261F|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	388	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		GGAGAAAATGTACTCAATCTG	0.413													24	71	---	---	---	---	PASS	A	50264859	A	A	50264859	3	1	19	1	0	0	0	0	1	0	0	0	1197	1638	57	5	2479	5	ATP8B4	15	50264859	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	9802568	50264859	52266533	414	9583										
ONECUT1	3175	broad.mit.edu	37	chr15	53049925	53049925	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttgcaattctttggatggacGcttattttccttgaatattg	8	6	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr15:53049925G>T	uc002aci.1	-	2	1353	c.1225C>A	c.(1225-1227)CGT>AGT	p.R409S		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	409	Homeobox.				endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		TTGGATGGACGCTTATTTTCC	0.478													79	188	---	---	---	---	PASS	T	53049925	T	T	53049925	3	4	19	1	0	0	0	0	1	0	0	0	10868	1087	38	1	176	1	ONECUT1	15	53049925	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2785066	53049925	49481467	415	9584										
ISLR	3671	broad.mit.edu	37	chr15	74468267	74468267	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggtggtgaggacacactgggGcgcaggttccatggcaaagc	17	9	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr15:74468267G>A	uc002axg.1	+	2	1350	c.1068G>A	c.(1066-1068)GGG>GGA	p.G356G	ISLR_uc002axh.1_Silent_p.G356G	NM_005545	NP_005536	O14498	ISLR_HUMAN	immunoglobulin superfamily containing	356					cell adhesion	extracellular region				large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						ACACACTGGGGCGCAGGTTCC	0.617													3	36	---	---	---	---	PASS	A	74468267	A	A	74468267	2	1	19	1	0	0	0	0	0	0	0	1	7858	1190	42	3		3	ISLR	15	74468267	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	21418342	74468267	28063125	416	9585										
LINGO1	84894	broad.mit.edu	37	chr15	77906817	77906817	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cacctccagcgtgccatcagGgaagactgtgagccgcccat	11	15	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr15:77906817G>T	uc002bct.1	-	2	1484	c.1432C>A	c.(1432-1434)CCT>ACT	p.P478T	LINGO1_uc002bcu.1_Missense_Mutation_p.P472T	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	478	Extracellular (Potential).|Ig-like C2-type.				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						GTGCCATCAGGGAAGACTGTG	0.677													8	21	---	---	---	---	PASS	T	77906817	T	T	77906817	3	4	19	1	0	0	0	0	1	0	0	0	8814	1232	43	3	434	3	LINGO1	15	77906817	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3438550	77906817	24624575	417	9586										
ZNF592	9640	broad.mit.edu	37	chr15	85326964	85326964	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggacagccctcgtagcatctGcagtgacagcagcagcaaag	12	12	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr15:85326964G>T	uc002bld.2	+	4	1394	c.1058G>T	c.(1057-1059)TGC>TTC	p.C353F	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	353					cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CGTAGCATCTGCAGTGACAGC	0.532													50	100	---	---	---	---	PASS	T	85326964	T	T	85326964	3	4	19	1	0	0	0	0	1	0	0	0	18019	1319	46	3	1060	3	ZNF592	15	85326964	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	7420147	85326964	17204428	418	9587										
KIAA0430	9665	broad.mit.edu	37	chr16	15729647	15729647	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctcttccaaatgccctggagCcccgcttgtgaaatcagaac	8	14	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr16:15729647C>A	uc002ddr.2	-	3	890	c.697G>T	c.(697-699)GCT>TCT	p.A233S	KIAA0430_uc002ddq.2_Missense_Mutation_p.A232S|KIAA0430_uc010uzv.1_Missense_Mutation_p.A232S|KIAA0430_uc010uzw.1_Missense_Mutation_p.A232S|KIAA0430_uc010uzx.1_Missense_Mutation_p.A232S	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	232						peroxisome	nucleotide binding|RNA binding				0						TGCCCTGGAGCCCCGCTTGTG	0.512													36	62	---	---	---	---	PASS	A	15729647	A	A	15729647	3	1	19	1	0	0	0	0	1	0	0	0	8177	739	26	3	4634	3	KIAA0430	16	15729647	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08		15729647	74625106	419	9588										
DNAH3	55567	broad.mit.edu	37	chr16	20996449	20996449	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aggagtgacttcaaccttctCtccttgggtcctggctgcag	11	12	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr16:20996449C>T	uc010vbe.1	-	48	7615	c.7615G>A	c.(7615-7617)GAG>AAG	p.E2539K	DNAH3_uc010vbd.1_5'Flank	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2539	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TCAACCTTCTCTCCTTGGGTC	0.463													23	59	---	---	---	---	PASS	T	20996449	T	T	20996449	3	4	19	1	0	0	0	0	1	0	0	0	4603	922	32	2	4794	2	DNAH3	16	20996449	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	5266802	20996449	69358304	420	9589										
AQP8	343	broad.mit.edu	37	chr16	25238398	25238398	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggtgtttgcaggggccctgtGtctggaggctgcatgaatcc	16	9	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr16:25238398G>T	uc002doc.2	+	5	694	c.612G>T	c.(610-612)GTG>GTT	p.V204V		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	204	Helical; (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		GGGGCCCTGTGTCTGGAGGCT	0.612													40	77	---	---	---	---	PASS	T	25238398	T	T	25238398	2	4	19	1	0	0	0	0	0	0	0	1	832	1364	48	3		3	AQP8	16	25238398	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	4241949	25238398	65116355	421	9590										
KIAA0556	23247	broad.mit.edu	37	chr16	27733015	27733015	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaattactggacagctgatgGcgtaagtaacaggcgctggt	14	7	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr16:27733015G>C	uc002dow.2	+	14	1766	c.1742G>C	c.(1741-1743)GGC>GCC	p.G581A	KIAA0556_uc002dox.1_Missense_Mutation_p.G489A	NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	581										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						ACAGCTGATGGCGTAAGTAAC	0.493													21	55	---	---	---	---	PASS	C	27733015	C	C	27733015	3	2	19	1	0	0	0	0	1	0	0	0	8183	1217	42	4	1796	4	KIAA0556	16	27733015	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2494617	27733015	62621738	422	9591										
GSG1L	146395	broad.mit.edu	37	chr16	27802692	27802692	+	Nonstop_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggccaggttgaggtcttggtCacacccagtgccccaagacc	12	14	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr16:27802692C>A	uc002doz.2	-	7	1080	c.995G>T	c.(994-996)TGA>TTA	p.*332L	GSG1L_uc010bya.1_Nonstop_Mutation_p.*281L|GSG1L_uc010bxz.1_Nonstop_Mutation_p.*195L|GSG1L_uc002doy.2_Nonstop_Mutation_p.*177L	NM_001109763	NP_001103233	Q6UXU4	GSG1L_HUMAN	GSG1-like isoform 1	332						integral to membrane				ovary(1)	1						AGGTCTTGGTCACACCCAGTG	0.662													13	46	---	---	---	---	PASS	A	27802692	A	A	27802692	4	1	19	1	0	0	0	0	0	0	0	0	6821	837	29	2	4	2	GSG1L	16	27802692	Nonstop_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	69677	27802692	62552061	423	9592										
SPNS1	83985	broad.mit.edu	37	chr16	28986619	28986619	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaccaggaggggctgcagcgCatcaccggcctgtctcccgg	15	15	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr16:28986619C>T	uc010vdi.1	+	2	287	c.147C>T	c.(145-147)CGC>CGT	p.R49R	uc010vct.1_Intron|SPNS1_uc002dry.2_Silent_p.R49R|SPNS1_uc002drx.2_5'UTR|SPNS1_uc002dsa.2_Silent_p.R49R|SPNS1_uc002drz.2_Silent_p.R49R|SPNS1_uc010byp.2_Silent_p.R49R|SPNS1_uc010byq.1_5'UTR	NM_001142448	NP_001135920	Q9H2V7	SPNS1_HUMAN	spinster homolog 1 isoform 1	49					lipid transport|transmembrane transport	integral to membrane|mitochondrial inner membrane	protein binding				0						GGCTGCAGCGCATCACCGGCC	0.677													5	10	---	---	---	---	PASS	T	28986619	T	T	28986619	2	4	19	1	0	0	0	0	0	0	0	1	15073	697	25	3		3	SPNS1	16	28986619	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	1183927	28986619	61368134	424	9593										
ITGAD	3681	broad.mit.edu	37	chr16	31419090	31419090	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctgtctctctgctgcaggtgGgacacgctttccagggaccc	12	14	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr16:31419090G>T	uc002ebv.1	+	9	911	c.862G>T	c.(862-864)GGA>TGA	p.G288*	ITGAD_uc010vfl.1_Missense_Mutation_p.G320V|ITGAD_uc010cap.1_Nonsense_Mutation_p.G288*|ITGAD_uc002ebw.1_Missense_Mutation_p.G131V	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	288	Extracellular (Potential).|VWFA.				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						GCTGCAGGTGGGACACGCTTT	0.622													25	44	---	---	---	---	PASS	T	31419090	T	T	31419090	4	4	19	1	0	0	0	0	0	1	0	0	7884	1233	43	3	896	3	ITGAD	16	31419090	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2432471	31419090	58935663	425	9594										
CHD9	80205	broad.mit.edu	37	chr16	53326832	53326832	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcgtctcatcactgcataccAgcgtactaataaaaacagac	6	12	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr16:53326832A>T	uc002ehb.2	+	28	5542	c.5378A>T	c.(5377-5379)CAG>CTG	p.Q1793L	CHD9_uc002egy.2_Missense_Mutation_p.Q1793L|CHD9_uc002ehc.2_Missense_Mutation_p.Q1793L|CHD9_uc002ehf.2_Missense_Mutation_p.Q907L|CHD9_uc010cbw.2_Missense_Mutation_p.Q161L	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	1793					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)				ACTGCATACCAGCGTACTAAT	0.413													37	89	---	---	---	---	PASS	T	53326832	T	T	53326832	3	4	19	1	0	0	0	0	1	0	0	0	3332	188	7	5	5488	5	CHD9	16	53326832	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	21907742	53326832	37027921	426	9595										
CDH8	1006	broad.mit.edu	37	chr16	61761073	61761073	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggggcgttgtcattgacatcCagcactttaatagcaacagg	11	9	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr16:61761073C>T	uc002eog.1	-	9	1713	c.1461G>A	c.(1459-1461)CTG>CTA	p.L487L	CDH8_uc002eoh.2_Silent_p.L256L	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	487	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		CATTGACATCCAGCACTTTAA	0.403													77	173	---	---	---	---	PASS	T	61761073	T	T	61761073	2	4	19	1	0	0	0	0	0	0	0	1	3116	581	21	3		3	CDH8	16	61761073	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	8434241	61761073	28593680	427	9596										
SLC38A8	146167	broad.mit.edu	37	chr16	84070480	84070480	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	catagcccaggatgaccagcCcgctgatcaggaagaccaac	10	14	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr16:84070480C>A	uc002fhg.1	-	2	215	c.215G>T	c.(214-216)GGG>GTG	p.G72V		NM_001080442	NP_001073911	A6NNN8	S38A8_HUMAN	solute carrier family 38, member 8	72	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane					0						GATGACCAGCCCGCTGATCAG	0.662													10	15	---	---	---	---	PASS	A	84070480	A	A	84070480	3	1	19	1	0	0	0	0	1	0	0	0	14610	623	22	3	1128	3	SLC38A8	16	84070480	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	22309407	84070480	6284273	428	9597										
SPIRE2	84501	broad.mit.edu	37	chr16	89924792	89924792	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aacgcctgctccggagatgcCaagtccacctcctgcatcaa	8	16	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr16:89924792C>T	uc002foz.1	+	8	1201	c.1149C>T	c.(1147-1149)GCC>GCT	p.A383A	SPIRE2_uc010civ.1_Silent_p.A298A|SPIRE2_uc010ciw.1_Silent_p.A383A|SPIRE2_uc002fpa.1_Silent_p.A335A|SPIRE2_uc010cix.1_Silent_p.A250A	NM_032451	NP_115827	Q8WWL2	SPIR2_HUMAN	spire homolog 2	383					transport	cytoplasm|cytoskeleton	actin binding			central_nervous_system(1)	1		Lung NSC(15;5.15e-06)|all_lung(18;8.38e-06)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0286)		CCGGAGATGCCAAGTCCACCT	0.672													72	152	---	---	---	---	PASS	T	89924792	T	T	89924792	2	4	19	1	0	0	0	0	0	0	0	1	15071	581	21	3		3	SPIRE2	16	89924792	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	5854312	89924792	429961	429	9598										
MYH13	8735	broad.mit.edu	37	chr17	10204986	10204986	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctagctcatgctggactctcCggcatctggacagctgcgtg	12	13	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr17:10204986C>A	uc002gmk.1	-	40	5792	c.5702G>T	c.(5701-5703)CGG>CTG	p.R1901L		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1901	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						CTGGACTCTCCGGCATCTGGA	0.627													49	74	---	---	---	---	PASS	A	10204986	A	A	10204986	3	1	19	1	0	0	0	0	1	0	0	0	10032	652	23	1	122	1	MYH13	17	10204986	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08		10204986	70990224	430	9599										
NCOR1	9611	broad.mit.edu	37	chr17	15968834	15968834	+	Missense_Mutation	SNP	T	C	C													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atgggagacccagtggctgcTctcttggggagagtcctctg							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr17:15968834T>C	uc002gpo.2	-	33	5156	c.4916A>G	c.(4915-4917)GAG>GGG	p.E1639G	NCOR1_uc002gpn.2_Missense_Mutation_p.E1655G|NCOR1_uc002gpm.2_Missense_Mutation_p.E159G|NCOR1_uc010vwb.1_Missense_Mutation_p.E223G|NCOR1_uc010coy.2_Missense_Mutation_p.E547G|NCOR1_uc010vwc.1_Missense_Mutation_p.E449G	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1639	Interaction with ETO.|Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CAGTGGCTGCTCTCTTGGGGA	0.398													14	66	---	---	---	---	PASS	C	15968834	C	C	15968834	3	2	19	1	0	0	0	0	1	0	0	0	10235	1551	54	5	2462	5	NCOR1	17	15968834	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	5763848	15968834	65226376	431	9600	278	2								
NCOR1	9611	broad.mit.edu	37	chr17	15968835	15968835	+	Nonsense_Mutation	SNP	C	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgggagacccagtggctgctCtcttggggagagtcctctgg							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr17:15968835C>A	uc002gpo.2	-	33	5155	c.4915G>T	c.(4915-4917)GAG>TAG	p.E1639*	NCOR1_uc002gpn.2_Nonsense_Mutation_p.E1655*|NCOR1_uc002gpm.2_Nonsense_Mutation_p.E159*|NCOR1_uc010vwb.1_Nonsense_Mutation_p.E223*|NCOR1_uc010coy.2_Nonsense_Mutation_p.E547*|NCOR1_uc010vwc.1_Nonsense_Mutation_p.E449*	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1639	Interaction with ETO.|Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		AGTGGCTGCTCTCTTGGGGAG	0.398													14	66	---	---	---	---	PASS	A	15968835	A	A	15968835	4	1	19	1	0	0	0	0	0	1	0	0	10235	922	32	2	2463	2	NCOR1	17	15968835	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1	15968835	65226375	432	9601	278	2								
KCNJ12	3768	broad.mit.edu	37	chr17	21319036	21319036	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	caccctgtgtgatgcaggtgCacggcttcatggcggccttc	13	13	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr17:21319036C>A	uc002gyv.1	+	3	1087	c.382C>A	c.(382-384)CAC>AAC	p.H128N		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	128	Extracellular (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GATGCAGGTGCACGGCTTCAT	0.657										Prostate(3;0.18)			4	29	---	---	---	---	PASS	A	21319036	A	A	21319036	3	1	19	1	0	0	0	0	1	0	0	0	8046	710	25	3	384	3	KCNJ12	17	21319036	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	5350201	21319036	59876174	433	9602										
TMEM132E	124842	broad.mit.edu	37	chr17	32956181	32956181	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cgggcagtcactgagctgacGgtcattcagcgggatgtgca	15	10	3	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr17:32956181G>C	uc002hif.2	+	5	1354	c.1026G>C	c.(1024-1026)ACG>ACC	p.T342T		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	342	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		CTGAGCTGACGGTCATTCAGC	0.602													8	34	---	---	---	---	PASS	C	32956181	C	C	32956181	2	2	19	1	0	0	0	0	0	0	0	1	16045	1103	39	4		4	TMEM132E	17	32956181	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	11637145	32956181	48239029	434	9603										
TMEM132E	124842	broad.mit.edu	37	chr17	32959860	32959860	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtccccaagctgcccttgcaCattgagctctcagatgcccg	9	16	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr17:32959860C>T	uc002hif.2	+	7	1678	c.1350C>T	c.(1348-1350)CAC>CAT	p.H450H		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	450	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		TGCCCTTGCACATTGAGCTCT	0.607													68	217	---	---	---	---	PASS	T	32959860	T	T	32959860	2	4	19	1	0	0	0	0	0	0	0	1	16045	477	17	3		3	TMEM132E	17	32959860	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	3679	32959860	48235350	435	9604										
SLFN5	162394	broad.mit.edu	37	chr17	33586457	33586457	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aagagaaaatagaccttacgAgcttgagggcttctattgat	10	6	1	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr17:33586457A>T	uc002hjf.3	+	2	865	c.748A>T	c.(748-750)AGC>TGC	p.S250C	SLFN5_uc002hje.2_Missense_Mutation_p.S250C|SLFN5_uc010wcg.1_Missense_Mutation_p.S250C	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	250					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		AGACCTTACGAGCTTGAGGGC	0.388													63	175	---	---	---	---	PASS	T	33586457	T	T	33586457	3	4	19	1	0	0	0	0	1	0	0	0	14737	304	11	5	750	5	SLFN5	17	33586457	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	626597	33586457	47608753	436	9605										
KIF2B	84643	broad.mit.edu	37	chr17	51901108	51901108	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gacctggatatcatcaccgtCccctcggacaatgtggttat	9	12	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr17:51901108C>A	uc002iua.2	+	1	870	c.714C>A	c.(712-714)GTC>GTA	p.V238V	uc010wna.1_Intron	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	238	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TCATCACCGTCCCCTCGGACA	0.557													19	56	---	---	---	---	PASS	A	51901108	A	A	51901108	2	1	19	1	0	0	0	0	0	0	0	1	8298	842	30	2		2	KIF2B	17	51901108	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	18314651	51901108	29294102	437	9606										
CCDC137	339230	broad.mit.edu	37	chr17	79639558	79639558	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cgcagatgctgcggatgcttCtgagccccggtggtgtgtcc	15	12	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr17:79639558C>G	uc002kbc.3	+	6	730	c.694C>G	c.(694-696)CTG>GTG	p.L232V	CCDC137_uc002kbd.2_RNA	NM_199287	NP_954981	Q6PK04	CC137_HUMAN	coiled-coil domain containing 137	232										central_nervous_system(1)	1	all_neural(118;0.0878)|all_lung(278;0.23)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GCGGATGCTTCTGAGCCCCGG	0.652													3	6	---	---	---	---	PASS	G	79639558	G	G	79639558	3	3	19	1	0	0	0	0	1	0	0	0	2771	912	32	2	716	2	CCDC137	17	79639558	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	27738450	79639558	1555652	438	9607										
DLGAP1	9229	broad.mit.edu	37	chr18	3582091	3582091	+	Missense_Mutation	SNP	G	T	T													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggagttgctgagtccagactGgctgataatatctcctcgct							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr18:3582091G>T	uc002kmf.2	-	5	1814	c.1747C>A	c.(1747-1749)CAG>AAG	p.Q583K	DLGAP1_uc010wyz.1_Missense_Mutation_p.Q583K|DLGAP1_uc002kme.1_Missense_Mutation_p.Q281K|DLGAP1_uc010dkn.2_Missense_Mutation_p.Q291K|DLGAP1_uc010wyw.1_Missense_Mutation_p.Q289K|DLGAP1_uc010wyx.1_Missense_Mutation_p.Q305K|DLGAP1_uc010wyy.1_Missense_Mutation_p.Q267K|DLGAP1_uc002kmg.2_Missense_Mutation_p.Q281K	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	583					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				AGTCCAGACTGGCTGATAATA	0.557													47	102	---	---	---	---	PASS	T	3582091	T	T	3582091	3	4	19	1	0	0	0	0	1	0	0	0	4559	1357	47	3	1210	3	DLGAP1	18	3582091	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08		3582091	74495157	439	9608	279	2								
DLGAP1	9229	broad.mit.edu	37	chr18	3582092	3582092	+	Silent	SNP	G	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gagttgctgagtccagactgGctgataatatctcctcgctg							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr18:3582092G>A	uc002kmf.2	-	5	1813	c.1746C>T	c.(1744-1746)AGC>AGT	p.S582S	DLGAP1_uc010wyz.1_Silent_p.S582S|DLGAP1_uc002kme.1_Silent_p.S280S|DLGAP1_uc010dkn.2_Silent_p.S290S|DLGAP1_uc010wyw.1_Silent_p.S288S|DLGAP1_uc010wyx.1_Silent_p.S304S|DLGAP1_uc010wyy.1_Silent_p.S266S|DLGAP1_uc002kmg.2_Silent_p.S280S	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	582					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				GTCCAGACTGGCTGATAATAT	0.562													48	103	---	---	---	---	PASS	A	3582092	A	A	3582092	2	1	19	1	0	0	0	0	0	0	0	1	4559	1194	42	3		3	DLGAP1	18	3582092	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	1	3582092	74495156	440	9609	279	2								
KCTD1	284252	broad.mit.edu	37	chr18	24056539	24056539	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aaattcaagatatatctgaaCatctgtccatctctgtcaat	4	9	5	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr18:24056539C>A	uc002kvw.2	-	3	809	c.249G>T	c.(247-249)ATG>ATT	p.M83I	KCTD1_uc010xbj.1_Missense_Mutation_p.M691I|KCTD1_uc010xbk.1_Missense_Mutation_p.M83I|KCTD1_uc002kvy.2_Missense_Mutation_p.M1I	NM_001136205	NP_001129677	Q719H9	KCTD1_HUMAN	potassium channel tetramerisation domain	83	BTB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)			TATATCTGAACATCTGTCCAT	0.373													25	60	---	---	---	---	PASS	A	24056539	A	A	24056539	3	1	19	1	0	0	0	0	1	0	0	0	8096	478	17	3	536	3	KCTD1	18	24056539	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	20474447	24056539	54020709	441	9610										
DSC1	1823	broad.mit.edu	37	chr18	28723718	28723718	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaaaggctgaccacccatgtCtcgcacttccattattaact	6	13	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr18:28723718C>T	uc002kwn.2	-	8	1238	c.976G>A	c.(976-978)GAC>AAC	p.D326N	DSC1_uc002kwm.2_Missense_Mutation_p.D326N	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	326	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			CCACCCATGTCTCGCACTTCC	0.333													22	46	---	---	---	---	PASS	T	28723718	T	T	28723718	3	4	19	1	0	0	0	0	1	0	0	0	4765	913	32	2	1784	2	DSC1	18	28723718	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4667179	28723718	49353530	442	9611										
C18orf55	29090	broad.mit.edu	37	chr18	71825704	71825704	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcattgaagataatcgatccCaagatgattaaaatagggtt	8	5	1	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr18:71825704C>G	uc010dqr.1	+	6	1034	c.736C>G	c.(736-738)CAA>GAA	p.Q246E		NM_014177	NP_054896	Q9BVV7	TI21L_HUMAN	hypothetical protein LOC29090 precursor	246					protein transport|transmembrane transport	integral to membrane|mitochondrial membrane					0		Esophageal squamous(42;0.0746)|Prostate(75;0.157)|Melanoma(33;0.211)				TAATCGATCCCAAGATGATTA	0.363													3	19	---	---	---	---	PASS	G	71825704	G	G	71825704	3	3	19	1	0	0	0	0	1	0	0	0	1905	595	21	4	758	4	C18orf55	18	71825704	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	43101986	71825704	6251544	443	9612										
SHC2	25759	broad.mit.edu	37	chr19	422160	422160	+	Missense_Mutation	SNP	C	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcttaccacgccctcggggtCcacgagcagcaggtgcttgg							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:422160C>A	uc002loq.3	-	11	1606	c.1606G>T	c.(1606-1608)GAC>TAC	p.D536Y	SHC2_uc002lop.3_Missense_Mutation_p.D277Y	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	536	SH2.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCTCGGGGTCCACGAGCAGC	0.682													9	15	---	---	---	---	PASS	A	422160	A	A	422160	3	1	19	1	0	0	0	0	1	0	0	0	14271	855	30	2	150	2	SHC2	19	422160	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08		422160	58706823	444	9613	280	2								
SHC2	25759	broad.mit.edu	37	chr19	422161	422161	+	Silent	SNP	C	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttaccacgccctcggggtcCacgagcagcaggtgcttggg							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:422161C>A	uc002loq.3	-	11	1605	c.1605G>T	c.(1603-1605)GTG>GTT	p.V535V	SHC2_uc002lop.3_Silent_p.V276V	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	535	SH2.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCGGGGTCCACGAGCAGCA	0.687													9	15	---	---	---	---	PASS	A	422161	A	A	422161	2	1	19	1	0	0	0	0	0	0	0	1	14271	581	21	3		3	SHC2	19	422161	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	1	422161	58706822	445	9614	280	2								
TBXA2R	6915	broad.mit.edu	37	chr19	3600005	3600005	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cgtgttcagcaggaaggacaGcccgaccgagaggccgccca	14	14	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:3600005G>T	uc002lyg.1	-	2	842	c.628C>A	c.(628-630)CTG>ATG	p.L210M	TBXA2R_uc002lye.1_Intron	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	210	Helical; Name=5; (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	AGGAAGGACAGCCCGACCGAG	0.697													13	15	---	---	---	---	PASS	T	3600005	T	T	3600005	3	4	19	1	0	0	0	0	1	0	0	0	15660	962	34	3	656	3	TBXA2R	19	3600005	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3177844	3600005	55528978	446	9615										
FBN3	84467	broad.mit.edu	37	chr19	8175791	8175791	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgcagatgcagcggaacattCcaggcaggttctcacagctc	11	12	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:8175791C>A	uc002mjf.2	-	33	4292	c.4271G>T	c.(4270-4272)GGA>GTA	p.G1424V		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1424	EGF-like 22; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GCGGAACATTCCAGGCAGGTT	0.612													67	120	---	---	---	---	PASS	A	8175791	A	A	8175791	3	1	19	1	0	0	0	0	1	0	0	0	5704	855	30	2	4282	2	FBN3	19	8175791	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4575786	8175791	50953192	447	9616										
ACTL9	284382	broad.mit.edu	37	chr19	8808488	8808488	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	accagcccgctgacacgaccGtgggcgtagacagacagcac	12	15	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:8808488G>A	uc002mkl.2	-	1	685	c.564C>T	c.(562-564)CAC>CAT	p.H188H		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	188						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						TGACACGACCGTGGGCGTAGA	0.662													28	48	---	---	---	---	PASS	A	8808488	A	A	8808488	2	1	19	1	0	0	0	0	0	0	0	1	203	1136	40	1		1	ACTL9	19	8808488	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	632697	8808488	50320495	448	9617										
MUC16	94025	broad.mit.edu	37	chr19	9062542	9062542	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgtggttatcaccaggccagGgttgagaagagaagtcacag	14	7	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:9062542G>T	uc002mkp.2	-	3	25108	c.24904C>A	c.(24904-24906)CCT>ACT	p.P8302T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8304	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACCAGGCCAGGGTTGAGAAGA	0.517													40	99	---	---	---	---	PASS	T	9062542	T	T	9062542	3	4	19	1	0	0	0	0	1	0	0	0	9973	1232	43	3	18947	3	MUC16	19	9062542	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	254054	9062542	50066441	449	9618										
OR7E24	26648	broad.mit.edu	37	chr19	9362644	9362644	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgctgaaccccttcatctacAgcctgaggaacaaggacatt	8	12	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:9362644A>G	uc002mlb.1	+	1	925	c.925A>G	c.(925-927)AGC>GGC	p.S309G		NM_001079935	NP_001073404	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E,	309	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CTTCATCTACAGCCTGAGGAA	0.483													34	81	---	---	---	---	PASS	G	9362644	G	G	9362644	3	3	19	1	0	0	0	0	1	0	0	0	11221	188	7	5	927	5	OR7E24	19	9362644	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	300102	9362644	49766339	450	9619										
MAN2B1	4125	broad.mit.edu	37	chr19	12758128	12758128	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggtctcctgcaggcgggtgaTggtgaaggtggagaacaggt	19	6	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:12758128T>C	uc002mub.2	-	23	2918	c.2842A>G	c.(2842-2844)ATC>GTC	p.I948V	MAN2B1_uc010dyv.1_Missense_Mutation_p.I947V	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	948					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						AGGCGGGTGATGGTGAAGGTG	0.632													43	84	---	---	---	---	PASS	C	12758128	C	C	12758128	3	2	19	1	0	0	0	0	1	0	0	0	9216	1464	51	5	201	5	MAN2B1	19	12758128	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	3395484	12758128	46370855	451	9620										
EMR3	84658	broad.mit.edu	37	chr19	14748941	14748941	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagcagttccataaaggtgaGgccaggaggctgcagaaatg	14	8	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:14748941G>T	uc002mzi.3	-	11	1608	c.1460C>A	c.(1459-1461)CCT>CAT	p.P487H	EMR3_uc010dzp.2_Missense_Mutation_p.P435H|EMR3_uc010xnv.1_Missense_Mutation_p.P361H	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	487	Extracellular (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						ATAAAGGTGAGGCCAGGAGGC	0.498													62	144	---	---	---	---	PASS	T	14748941	T	T	14748941	3	4	19	1	0	0	0	0	1	0	0	0	5106	1000	35	3	522	3	EMR3	19	14748941	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1990813	14748941	44380042	452	9621										
RASAL3	64926	broad.mit.edu	37	chr19	15572071	15572071	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggccacgtggatgctgccctCggagctagcacttcccaccc	11	17	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:15572071C>A	uc002nbe.2	-	4	588	c.502G>T	c.(502-504)GAG>TAG	p.E168*		NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	168					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0						ATGCTGCCCTCGGAGCTAGCA	0.542													6	25	---	---	---	---	PASS	A	15572071	A	A	15572071	4	1	19	1	0	0	0	0	0	1	0	0	13065	893	31	2	2593	2	RASAL3	19	15572071	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	823130	15572071	43556912	453	9622										
ZNF208	7757	broad.mit.edu	37	chr19	22157333	22157333	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	attgcaaatgtttctttccaGtatgccttatcttatgtctg	6	8	3	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:22157333G>T	uc002nqp.2	-	4	652	c.503C>A	c.(502-504)ACT>AAT	p.T168N	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTTCTTTCCAGTATGCCTTAT	0.328													34	105	---	---	---	---	PASS	T	22157333	T	T	22157333	3	4	19	1	0	0	0	0	1	0	0	0	17763	1029	36	3	3343	3	ZNF208	19	22157333	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	6585262	22157333	36971650	454	9623										
ZNF536	9745	broad.mit.edu	37	chr19	31039975	31039975	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggatgtccccatcctgatccCcgaaaccacgagtaagaaca	8	14	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:31039975C>T	uc002nsu.1	+	4	3587	c.3449C>T	c.(3448-3450)CCC>CTC	p.P1150L	ZNF536_uc010edd.1_Missense_Mutation_p.P1150L	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1150					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					ATCCTGATCCCCGAAACCACG	0.547													20	105	---	---	---	---	PASS	T	31039975	T	T	31039975	3	4	19	1	0	0	0	0	1	0	0	0	17971	623	22	3	3459	3	ZNF536	19	31039975	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	8882642	31039975	28089008	455	9624										
CCDC123	84902	broad.mit.edu	37	chr19	33392320	33392320	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttcttccttctgtaattggcTgaaggacaaaaacattacat	6	8	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:33392320T>A	uc002nty.2	-	15	1655	c.1566_splice	c.e15-1	p.S522_splice	CCDC123_uc002ntx.2_Splice_Site_p.S275_splice|CCDC123_uc010edg.2_Splice_Site	NM_032816	NP_116205	Q96ST8	CEP89_HUMAN	coiled-coil domain containing 123							centrosome|spindle pole					0	Esophageal squamous(110;0.137)					TGTAATTGGCTGAAGGACAAA	0.478													69	221	---	---	---	---	PASS	A	33392320	A	A	33392320	5	1	19	1	0	0	0	0	0	0	1	0	2759	1594	55	5	807	5	CCDC123	19	33392320	Splice_Site	SNP	T	TCGA-21-1070-01A-01D-1521-08	2352345	33392320	25736663	456	9625										
ZNF567	163081	broad.mit.edu	37	chr19	37211129	37211129	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	catcaccgaactcacacaggAgagaaaccatatgaatgtaa	7	10	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:37211129A>G	uc010xtl.1	+	6	1725	c.1503A>G	c.(1501-1503)GGA>GGG	p.G501G	ZNF567_uc002oeo.1_Silent_p.G501G|ZNF567_uc010xtk.1_Silent_p.G501G|ZNF567_uc002oep.3_Silent_p.G470G|ZNF567_uc002oeq.1_Silent_p.G470G	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	501					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			CTCACACAGGAGAGAAACCAT	0.388													23	121	---	---	---	---	PASS	G	37211129	G	G	37211129	2	3	19	1	0	0	0	0	0	0	0	1	17995	291	11	5		5	ZNF567	19	37211129	Silent	SNP	A	TCGA-21-1070-01A-01D-1521-08	3818809	37211129	21917854	457	9626										
ACTN4	81	broad.mit.edu	37	chr19	39212286	39212286	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gagcgacctggctgcgcaccAggaccgcgtggagcagatcg	16	13	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:39212286A>G	uc002oja.1	+	12	1459	c.1400A>G	c.(1399-1401)CAG>CGG	p.Q467R	ACTN4_uc010egc.1_Missense_Mutation_p.Q467R	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	467	Spectrin 2.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GCTGCGCACCAGGACCGCGTG	0.622													20	73	---	---	---	---	PASS	G	39212286	G	G	39212286	3	3	19	1	0	0	0	0	1	0	0	0	207	188	7	5	1446	5	ACTN4	19	39212286	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	2001157	39212286	19916697	458	9627										
SHKBP1	92799	broad.mit.edu	37	chr19	41097083	41097083	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggcactcccctcacacctccCaagatgaagctcaatgaaac	6	16	2	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:41097083C>T	uc002oob.2	+	18	2143	c.2094C>T	c.(2092-2094)CCC>CCT	p.P698P	SHKBP1_uc002ooc.2_Silent_p.P673P|SHKBP1_uc002ood.2_Silent_p.P606P|SHKBP1_uc002ooe.2_Silent_p.P535P|SHKBP1_uc002oof.2_Silent_p.P534P|SHKBP1_uc010xvm.1_Silent_p.P478P|SHKBP1_uc010xvn.1_Silent_p.P576P|LTBP4_uc002oog.1_5'Flank	NM_138392	NP_612401	Q8TBC3	SHKB1_HUMAN	SH3KBP1 binding protein 1	698						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|pancreas(1)	2			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TCACACCTCCCAAGATGAAGC	0.622													11	52	---	---	---	---	PASS	T	41097083	T	T	41097083	2	4	19	1	0	0	0	0	0	0	0	1	14284	581	21	3		3	SHKBP1	19	41097083	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	1884797	41097083	18031900	459	9628										
CYP2F1	1572	broad.mit.edu	37	chr19	41626392	41626392	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcctgctggcggagctgcggAaaactgaaggtcaggaattt	14	8	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:41626392A>G	uc002opu.1	+	4	531	c.475A>G	c.(475-477)AAA>GAA	p.K159E	CYP2F1_uc010xvw.1_Intron|CYP2F1_uc010xvv.1_Missense_Mutation_p.K159E|CYP2F1_uc002opv.1_RNA	NM_000774	NP_000765	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F,	159					naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0						GGAGCTGCGGAAAACTGAAGG	0.403													48	202	---	---	---	---	PASS	G	41626392	G	G	41626392	3	3	19	1	0	0	0	0	1	0	0	0	4171	247	9	5	485	5	CYP2F1	19	41626392	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	529309	41626392	17502591	460	9629										
CEACAM20	125931	broad.mit.edu	37	chr19	45029205	45029205	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaacaacatcctcactttggGtggcatcaagtgggttggca	12	9	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:45029205G>T	uc010ejn.1	-	2	141	c.125C>A	c.(124-126)ACC>AAC	p.T42N	CEACAM20_uc010ejo.1_Missense_Mutation_p.T42N|CEACAM20_uc010ejp.1_Missense_Mutation_p.T42N|CEACAM20_uc010ejq.1_Missense_Mutation_p.T42N	NM_001102597	NP_001096067	Q6UY09	CEA20_HUMAN	carcinoembryonic antigen-related cell adhesion	42	Extracellular (Potential).					integral to membrane				large_intestine(2)	2		Prostate(69;0.0352)				CTCACTTTGGGTGGCATCAAG	0.562													53	127	---	---	---	---	PASS	T	45029205	T	T	45029205	3	4	19	1	0	0	0	0	1	0	0	0	3191	1261	44	3	1710	3	CEACAM20	19	45029205	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3402813	45029205	14099778	461	9630										
CLPTM1	1209	broad.mit.edu	37	chr19	45489736	45489736	+	Silent	SNP	G	T	T													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gctgaggactatgggcctgtGgaggtgatctcccattggca							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:45489736G>T	uc002pai.2	+	7	711	c.696G>T	c.(694-696)GTG>GTT	p.V232V	CLPTM1_uc010ejv.1_Silent_p.V130V|CLPTM1_uc010xxf.1_Silent_p.V130V|CLPTM1_uc010xxg.1_Silent_p.V218V	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane	232	Extracellular (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)		ATGGGCCTGTGGAGGTGATCT	0.592													42	147	---	---	---	---	PASS	T	45489736	T	T	45489736	2	4	19	1	0	0	0	0	0	0	0	1	3554	1335	47	3		3	CLPTM1	19	45489736	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	460531	45489736	13639247	462	9631	281	2								
CLPTM1	1209	broad.mit.edu	37	chr19	45489737	45489737	+	Nonsense_Mutation	SNP	G	T	T													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctgaggactatgggcctgtgGaggtgatctcccattggcac							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:45489737G>T	uc002pai.2	+	7	712	c.697G>T	c.(697-699)GAG>TAG	p.E233*	CLPTM1_uc010ejv.1_Nonsense_Mutation_p.E131*|CLPTM1_uc010xxf.1_Nonsense_Mutation_p.E131*|CLPTM1_uc010xxg.1_Nonsense_Mutation_p.E219*	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane	233	Extracellular (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)		TGGGCCTGTGGAGGTGATCTC	0.587													40	150	---	---	---	---	PASS	T	45489737	T	T	45489737	4	4	19	1	0	0	0	0	0	1	0	0	3554	1175	41	2	723	2	CLPTM1	19	45489737	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1	45489737	13639246	463	9632	281	2								
HAS1	3036	broad.mit.edu	37	chr19	52219607	52219607	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttctggttgtaccaggcctcAagaaactgctgcaagaggtt	11	9	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:52219607A>T	uc002pxo.1	-	4	998	c.963T>A	c.(961-963)CTT>CTA	p.L321L	HAS1_uc010epc.1_Intron|HAS1_uc010epd.1_Silent_p.L286L|HAS1_uc002pxn.1_Silent_p.L328L|HAS1_uc002pxp.1_Silent_p.L320L	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1	321	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding			ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		ACCAGGCCTCAAGAAACTGCT	0.473													11	133	---	---	---	---	PASS	T	52219607	T	T	52219607	2	4	19	1	0	0	0	0	0	0	0	1	6961	117	5	5		5	HAS1	19	52219607	Silent	SNP	A	TCGA-21-1070-01A-01D-1521-08	6729870	52219607	6909376	464	9633										
DPRX	503834	broad.mit.edu	37	chr19	54140201	54140201	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcgctccaagcttccattctGgctctcctgcctgttcatct	7	16	4	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:54140201G>T	uc002qcf.1	+	3	586	c.535G>T	c.(535-537)GGC>TGC	p.G179C		NM_001012728	NP_001012746	A6NFQ7	DPRX_HUMAN	divergent-paired related homeobox	179						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.013)		CTTCCATTCTGGCTCTCCTGC	0.388													58	236	---	---	---	---	PASS	T	54140201	T	T	54140201	3	4	19	1	0	0	0	0	1	0	0	0	4738	1348	47	3	545	3	DPRX	19	54140201	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1920594	54140201	4988782	465	9634										
LILRA2	11027	broad.mit.edu	37	chr19	55085922	55085922	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgggttagacggatacaagaGcctgggaagaatggccagtt	15	6	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:55085922G>C	uc002qgg.3	+	3	314	c.225G>C	c.(223-225)GAG>GAC	p.E75D	LILRA2_uc010ern.2_Missense_Mutation_p.E75D|LILRA2_uc002qgf.2_Missense_Mutation_p.E75D|LILRA2_uc010yfe.1_Missense_Mutation_p.E75D|LILRA2_uc010yff.1_Missense_Mutation_p.E63D|LILRA2_uc010ero.2_Missense_Mutation_p.E63D|LILRA2_uc010yfg.1_Missense_Mutation_p.E75D	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	75	Extracellular (Potential).|Ig-like C2-type 1.				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		GGATACAAGAGCCTGGGAAGA	0.522													69	114	---	---	---	---	PASS	C	55085922	C	C	55085922	3	2	19	1	0	0	0	0	1	0	0	0	8785	962	34	4	235	4	LILRA2	19	55085922	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	945721	55085922	4043061	466	9635										
LILRB1	10859	broad.mit.edu	37	chr19	55148200	55148200	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	caggctgctgcatctgaagcCccccaggatgtgacctacgc	11	15	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:55148200C>A	uc002qgj.2	+	16	2164	c.1824C>A	c.(1822-1824)GCC>GCA	p.A608A	LILRB1_uc002qgl.2_Silent_p.A609A|LILRB1_uc002qgk.2_Silent_p.A609A|LILRB1_uc002qgm.2_Silent_p.A610A|LILRB1_uc010erq.2_Silent_p.A592A|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	608	Cytoplasmic (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		CATCTGAAGCCCCCCAGGATG	0.657										HNSCC(37;0.09)			32	110	---	---	---	---	PASS	A	55148200	A	A	55148200	2	1	19	1	0	0	0	0	0	0	0	1	8790	610	22	3		3	LILRB1	19	55148200	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	62278	55148200	3980783	467	9636										
PPP1R12C	54776	broad.mit.edu	37	chr19	55624120	55624120	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggttcacagtggcgccctgcTccaccaagaagcgcaccacc	10	17	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:55624120T>A	uc002qix.2	-	2	381	c.365A>T	c.(364-366)GAG>GTG	p.E122V	PPP1R12C_uc010yfs.1_Missense_Mutation_p.E48V|PPP1R12C_uc002qiy.2_Missense_Mutation_p.E122V	NM_017607	NP_060077	Q9BZL4	PP12C_HUMAN	protein phosphatase 1, regulatory subunit 12C	122	ANK 1.					cytoplasm				ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		GGCGCCCTGCTCCACCAAGAA	0.642													50	144	---	---	---	---	PASS	A	55624120	A	A	55624120	3	1	19	1	0	0	0	0	1	0	0	0	12356	1551	54	5	2067	5	PPP1R12C	19	55624120	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	475920	55624120	3504863	468	9637										
NLRP4	147945	broad.mit.edu	37	chr19	56372885	56372885	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cctggtgtaaccagctgaggCatcccagctgtcgccttcag	11	14	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr19:56372885C>A	uc002qmd.3	+	4	2412	c.1990C>A	c.(1990-1992)CAT>AAT	p.H664N	NLRP4_uc002qmf.2_Missense_Mutation_p.H589N|NLRP4_uc010etf.2_Missense_Mutation_p.H495N	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	664							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)		CCAGCTGAGGCATCCCAGCTG	0.557													37	161	---	---	---	---	PASS	A	56372885	A	A	56372885	3	1	19	1	0	0	0	0	1	0	0	0	10479	710	25	3	2000	3	NLRP4	19	56372885	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	748765	56372885	2756098	469	9638										
PDYN	5173	broad.mit.edu	37	chr20	1961062	1961062	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cggagaaaaccgccatagcgCttctggttgtcccacttgag	11	12	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:1961062C>G	uc010gaj.2	-	3	914	c.672G>C	c.(670-672)AAG>AAC	p.K224N	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.K224N|PDYN_uc010zpt.1_Missense_Mutation_p.K69N	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	224					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						CGCCATAGCGCTTCTGGTTGT	0.567													51	180	---	---	---	---	PASS	G	1961062	G	G	1961062	3	3	19	1	0	0	0	0	1	0	0	0	11699	796	28	4	96	4	PDYN	20	1961062	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08		1961062	61064458	470	9639										
SIGLEC1	6614	broad.mit.edu	37	chr20	3678513	3678513	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggcctcacagaggtacaagCcctcctcttccagcaaaggg	10	14	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:3678513C>A	uc002wja.2	-	8	2054	c.2054G>T	c.(2053-2055)GGC>GTC	p.G685V	SIGLEC1_uc002wiz.3_Missense_Mutation_p.G685V	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	685	Ig-like C2-type 6.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						GAGGTACAAGCCCTCCTCTTC	0.622													36	118	---	---	---	---	PASS	A	3678513	A	A	3678513	3	1	19	1	0	0	0	0	1	0	0	0	14305	739	26	3	3131	3	SIGLEC1	20	3678513	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1717451	3678513	59347007	471	9640										
HAO1	54363	broad.mit.edu	37	chr20	7886921	7886921	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgcagcaagtccactgtcgtCtccaaaattttcctcaggag	8	12	2	0	rs113948510		TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:7886921C>A	uc002wmw.1	-	4	625	c.601G>T	c.(601-603)GAC>TAC	p.D201Y	HAO1_uc010gbu.2_Missense_Mutation_p.D201Y	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	201	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						CCACTGTCGTCTCCAAAATTT	0.353													59	154	---	---	---	---	PASS	A	7886921	A	A	7886921	3	1	19	1	0	0	0	0	1	0	0	0	6951	913	32	2	531	2	HAO1	20	7886921	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	4208408	7886921	55138599	472	9641										
PAK7	57144	broad.mit.edu	37	chr20	9546740	9546740	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cgcccgaaactgttcatgggAcaccctggagggctgctggt	14	12	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:9546740A>G	uc002wnl.2	-	6	1827	c.1282T>C	c.(1282-1284)TCC>CCC	p.S428P	PAK7_uc002wnk.2_Missense_Mutation_p.S428P|PAK7_uc002wnj.2_Missense_Mutation_p.S428P|PAK7_uc010gby.1_Missense_Mutation_p.S428P	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	428	Linker.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			TGTTCATGGGACACCCTGGAG	0.632													36	142	---	---	---	---	PASS	G	9546740	G	G	9546740	3	3	19	1	0	0	0	0	1	0	0	0	11405	275	10	5	901	5	PAK7	20	9546740	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	1659819	9546740	53478780	473	9642										
OVOL2	58495	broad.mit.edu	37	chr20	18005510	18005510	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ataggcatactgctgctgcaCcccatggattttcttcaggt	9	11	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:18005510C>A	uc002wqi.1	-	4	841	c.598G>T	c.(598-600)GTG>TTG	p.V200L		NM_021220	NP_067043	Q9BRP0	OVOL2_HUMAN	zinc finger protein 339	200					negative regulation of keratinocyte differentiation|negative regulation of Notch signaling pathway|negative regulation of transcription by competitive promoter binding|regulation of cell cycle|regulation of keratinocyte proliferation|transcription, DNA-dependent	nucleus	DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1						TGCTGCTGCACCCCATGGATT	0.572													38	126	---	---	---	---	PASS	A	18005510	A	A	18005510	3	1	19	1	0	0	0	0	1	0	0	0	11327	507	18	3	233	3	OVOL2	20	18005510	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	8458770	18005510	45020010	474	9643										
RBBP9	10741	broad.mit.edu	37	chr20	18474619	18474619	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cacctcatggccgcgatggcCccagaactgtggccaatgat	11	14	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:18474619C>T	uc002wqy.2	-	3	307	c.231G>A	c.(229-231)GGG>GGA	p.G77G		NM_006606	NP_006597	O75884	RBBP9_HUMAN	retinoblastoma binding protein 9	77						cytoplasm|nucleus	hydrolase activity			haematopoietic_and_lymphoid_tissue(1)	1						CCGCGATGGCCCCAGAACTGT	0.483													37	93	---	---	---	---	PASS	T	18474619	T	T	18474619	2	4	19	1	0	0	0	0	0	0	0	1	13106	610	22	3		3	RBBP9	20	18474619	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	469109	18474619	44550901	475	9644										
C20orf26	26074	broad.mit.edu	37	chr20	20177337	20177337	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccattttccggcactacaccAagttctttctgaaggagatc	7	12	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:20177337A>G	uc002wru.2	+	16	1790	c.1714A>G	c.(1714-1716)AAG>GAG	p.K572E	C20orf26_uc010zse.1_Missense_Mutation_p.K552E	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	572										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GCACTACACCAAGTTCTTTCT	0.458													33	143	---	---	---	---	PASS	G	20177337	G	G	20177337	3	3	19	1	0	0	0	0	1	0	0	0	2106	131	5	5	1804	5	C20orf26	20	20177337	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	1702718	20177337	42848183	476	9645										
C20orf26	26074	broad.mit.edu	37	chr20	20278834	20278834	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccctcctccagggtttagaaCtagtaaccggcagtgcgaaa	10	12	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:20278834C>A	uc002wru.2	+	25	3302	c.3226C>A	c.(3226-3228)CTA>ATA	p.L1076I	C20orf26_uc002wrw.2_RNA	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	1076										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GGGTTTAGAACTAGTAACCGG	0.388													30	70	---	---	---	---	PASS	A	20278834	A	A	20278834	3	1	19	1	0	0	0	0	1	0	0	0	2106	564	20	3	3352	3	C20orf26	20	20278834	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	101497	20278834	42746686	477	9646										
PAX1	5075	broad.mit.edu	37	chr20	21695287	21695287	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggcggccccggcaatcggcaCgggcaggatcggaggactcg	18	13	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:21695287C>G	uc002wsj.2	+	5	1505	c.1451C>G	c.(1450-1452)ACG>AGG	p.T484R	PAX1_uc010zsl.1_3'UTR|PAX1_uc010zsm.1_3'UTR	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	484					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						GCAATCGGCACGGGCAGGATC	0.771													3	7	---	---	---	---	PASS	G	21695287	G	G	21695287	3	3	19	1	0	0	0	0	1	0	0	0	11478	536	19	4	1469	4	PAX1	20	21695287	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1416453	21695287	41330233	478	9647										
C20orf186	149954	broad.mit.edu	37	chr20	31671617	31671617	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgatggaggacttcttggagGagggggtgtcctgggcgtgc	20	6	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:31671617G>T	uc010zue.1	+	3	629	c.614G>T	c.(613-615)GGA>GTA	p.G205V		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	205	Gly-rich.					cytoplasm|extracellular region	lipid binding				0						CTTCTTGGAGGAGGGGGTGTC	0.652													23	70	---	---	---	---	PASS	T	31671617	T	T	31671617	3	4	19	1	0	0	0	0	1	0	0	0	2098	1174	41	2	624	2	C20orf186	20	31671617	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	9976330	31671617	31353903	479	9648										
PTPRT	11122	broad.mit.edu	37	chr20	40714482	40714482	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaggtcttctcaggccagtaCtgcatacagaactgagataa	10	9	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:40714482C>A	uc002xkg.2	-	28	4042	c.3858G>T	c.(3856-3858)CAG>CAT	p.Q1286H	PTPRT_uc010ggj.2_Missense_Mutation_p.Q1305H|PTPRT_uc010ggi.2_Missense_Mutation_p.Q489H	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1286	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CAGGCCAGTACTGCATACAGA	0.488													31	136	---	---	---	---	PASS	A	40714482	A	A	40714482	3	1	19	1	0	0	0	0	1	0	0	0	12812	564	20	3	483	3	PTPRT	20	40714482	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	9042865	40714482	22311038	480	9649										
PI3	5266	broad.mit.edu	37	chr20	43804748	43804748	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaagtgctgtgaaggctcttGcgggatggcctgtttcgttc	15	8	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:43804748G>A	uc002xng.2	+	2	350	c.326G>A	c.(325-327)TGC>TAC	p.C109Y		NM_002638	NP_002629	P19957	ELAF_HUMAN	elafin preproprotein	109	WAP.				copulation	proteinaceous extracellular matrix	serine-type endopeptidase inhibitor activity				0		Myeloproliferative disorder(115;0.0122)				GAAGGCTCTTGCGGGATGGCC	0.552													33	116	---	---	---	---	PASS	A	43804748	A	A	43804748	3	1	19	1	0	0	0	0	1	0	0	0	11870	1319	46	3	332	3	PI3	20	43804748	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3090266	43804748	19220772	481	9650										
STX16	8675	broad.mit.edu	37	chr20	57245631	57245631	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atcagtaccactaatggatgAtggagacgataacactcttt	8	8	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:57245631A>T	uc002xzi.2	+	6	1355	c.620A>T	c.(619-621)GAT>GTT	p.D207V	STX16_uc010zzq.1_Missense_Mutation_p.D21V|STX16_uc002xzk.2_Missense_Mutation_p.D190V|STX16_uc002xzm.2_Missense_Mutation_p.D203V|STX16_uc002xzj.2_Missense_Mutation_p.D186V|STX16_uc002xzl.2_Missense_Mutation_p.D21V	NM_001001433	NP_001001433	O14662	STX16_HUMAN	syntaxin 16 isoform a	207	Cytoplasmic (Potential).				intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|microsome|SNARE complex	SNAP receptor activity			ovary(1)	1	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;3.73e-09)|Epithelial(14;8.54e-06)|all cancers(14;6.89e-05)			CTAATGGATGATGGAGACGAT	0.438													22	94	---	---	---	---	PASS	T	57245631	T	T	57245631	3	4	19	1	0	0	0	0	1	0	0	0	15338	333	12	5	642	5	STX16	20	57245631	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	13440883	57245631	5779889	482	9651										
GNAS	2778	broad.mit.edu	37	chr20	57474005	57474005	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctctttaaaaggggcggcgaAgaggacccgcaggctgcaag	15	10	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:57474005A>G	uc002xzw.2	+	3	2436	c.2151A>G	c.(2149-2151)GAA>GAG	p.E717E	GNAS_uc002xzt.2_3'UTR|GNAS_uc002xzu.3_RNA|GNAS_uc010gjq.2_Silent_p.E15E|GNAS_uc002xzv.2_RNA|GNAS_uc002xzx.2_Silent_p.E15E|GNAS_uc010gjr.2_Intron|GNAS_uc002xzy.2_Intron|GNAS_uc002yaa.2_Intron|GNAS_uc010zzt.1_Silent_p.E74E|GNAS_uc002yab.2_Intron|GNAS_uc002yad.2_5'UTR	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	74					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			GGGGCGGCGAAGAGGACCCGC	0.473			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			19	219	---	---	---	---	PASS	G	57474005	G	G	57474005	2	3	19	1	0	0	0	0	0	0	0	1	6510	69	3	5		5	GNAS	20	57474005	Silent	SNP	A	TCGA-21-1070-01A-01D-1521-08	228374	57474005	5551515	483	9652										
CHRNA4	1137	broad.mit.edu	37	chr20	61982241	61982241	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gagccgaatttcatggtgcaGttctgctggtcgaaggggaa	15	7	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr20:61982241G>T	uc002yes.2	-	5	700	c.522C>A	c.(520-522)AAC>AAA	p.N174K	CHRNA4_uc002yet.1_Translation_Start_Site|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.N103K|CHRNA4_uc002yev.1_Translation_Start_Site|CHRNA4_uc010gkf.1_Translation_Start_Site	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	174	Extracellular (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	TCATGGTGCAGTTCTGCTGGT	0.602													44	152	---	---	---	---	PASS	T	61982241	T	T	61982241	3	4	19	1	0	0	0	0	1	0	0	0	3385	1020	36	3	1369	3	CHRNA4	20	61982241	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	4508236	61982241	1043279	484	9653										
UMODL1	89766	broad.mit.edu	37	chr21	43519149	43519149	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tccatgtccgggtttaccggGgtatggagttgctcaggagc	15	9	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr21:43519149G>T	uc002zaf.1	+	7	1045	c.1045G>T	c.(1045-1047)GGT>TGT	p.G349C	UMODL1_uc002zad.1_Missense_Mutation_p.G277C|UMODL1_uc002zae.1_Missense_Mutation_p.G277C|UMODL1_uc002zag.1_Missense_Mutation_p.G349C|UMODL1_uc010gow.1_Missense_Mutation_p.G141C|UMODL1_uc002zai.1_5'UTR|UMODL1_uc010gox.1_RNA|UMODL1_uc010goy.1_5'UTR|UMODL1_uc002zaj.1_RNA|UMODL1_uc010goz.1_Missense_Mutation_p.G94C	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	349	Extracellular (Potential).|Fibronectin type-III 1.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						GGTTTACCGGGGTATGGAGTT	0.557													49	113	---	---	---	---	PASS	T	43519149	T	T	43519149	3	4	19	1	0	0	0	0	1	0	0	0	16977	1232	43	3	1071	3	UMODL1	21	43519149	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08		43519149	4610746	485	9654										
C21orf33	8209	broad.mit.edu	37	chr21	45564780	45564780	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acggcactccactacatccaTgatgggatcggagccatggt	11	12	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr21:45564780T>C	uc002zec.3	+	7	842	c.756T>C	c.(754-756)CAT>CAC	p.H252H	C21orf33_uc002zed.3_Silent_p.H221H	NM_004649	NP_004640	P30042	ES1_HUMAN	es1 protein isoform Ia precursor	252						mitochondrion				ovary(1)	1				STAD - Stomach adenocarcinoma(101;0.168)|Colorectal(79;0.191)		ACTACATCCATGATGGGATCG	0.582													36	62	---	---	---	---	PASS	C	45564780	C	C	45564780	2	2	19	1	0	0	0	0	0	0	0	1	2125	1461	51	5		5	C21orf33	21	45564780	Silent	SNP	T	TCGA-21-1070-01A-01D-1521-08	2045631	45564780	2565115	486	9655										
COL6A2	1292	broad.mit.edu	37	chr21	47551972	47551972	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tccacaaggcccggcgcttcGtggagcaggtggcgcggcgg	18	13	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr21:47551972G>T	uc002zia.1	+	28	2648	c.2566G>T	c.(2566-2568)GTG>TTG	p.V856L	COL6A2_uc002zib.1_Missense_Mutation_p.V262L|COL6A2_uc002zic.1_5'UTR|COL6A2_uc010gqe.1_RNA	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	856	Nonhelical region.|VWFA 3.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		CCGGCGCTTCGTGGAGCAGGT	0.706													7	15	---	---	---	---	PASS	T	47551972	T	T	47551972	3	4	19	1	0	0	0	0	1	0	0	0	3700	1145	40	1	3002	1	COL6A2	21	47551972	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1987192	47551972	577923	487	9656										
KLHL22	84861	broad.mit.edu	37	chr22	20819581	20819581	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gatctggtcagcctgcacctGctccaggctataatggtaga	11	11	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr22:20819581G>A	uc002zsl.1	-	4	785	c.676C>T	c.(676-678)CAG>TAG	p.Q226*	KLHL22_uc011ahr.1_Nonsense_Mutation_p.Q83*|KLHL22_uc002zsm.1_Nonsense_Mutation_p.Q226*	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	226					cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GCCTGCACCTGCTCCAGGCTA	0.587													18	58	---	---	---	---	PASS	A	20819581	A	A	20819581	4	1	19	1	0	0	0	0	0	1	0	0	8377	1328	46	3	1244	3	KLHL22	22	20819581	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08		20819581	30484985	488	9657										
MYO18B	84700	broad.mit.edu	37	chr22	26422656	26422656	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tacaaatacatccccgctgtCgagggaaaagctgcccagtc	9	13	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr22:26422656C>G	uc003abz.1	+	43	6966	c.6716C>G	c.(6715-6717)TCG>TGG	p.S2239W	MYO18B_uc003aca.1_Missense_Mutation_p.S2120W|MYO18B_uc010guy.1_Missense_Mutation_p.S2121W|MYO18B_uc010guz.1_Missense_Mutation_p.S2119W|MYO18B_uc011aka.1_Missense_Mutation_p.S1393W|MYO18B_uc011akb.1_Missense_Mutation_p.S1752W|MYO18B_uc010gva.1_Missense_Mutation_p.S222W|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2239						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TCCCCGCTGTCGAGGGAAAAG	0.612													13	31	---	---	---	---	PASS	G	26422656	G	G	26422656	3	3	19	1	0	0	0	0	1	0	0	0	10066	893	31	2	6882	2	MYO18B	22	26422656	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	5603075	26422656	24881910	489	9658										
GAL3ST1	9514	broad.mit.edu	37	chr22	30951750	30951750	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtgatgaagatggcgttggtCggcaccaggccgcgcacctc	15	12	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr22:30951750C>T	uc003aig.1	-	4	602	c.462G>A	c.(460-462)CCG>CCA	p.P154P	GAL3ST1_uc003aih.1_Silent_p.P154P|GAL3ST1_uc003aii.1_Silent_p.P154P|GAL3ST1_uc010gvz.1_Silent_p.P154P	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	154	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						TGGCGTTGGTCGGCACCAGGC	0.652													47	141	---	---	---	---	PASS	T	30951750	T	T	30951750	2	4	19	1	0	0	0	0	0	0	0	1	6197	871	31	2		2	GAL3ST1	22	30951750	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	4529094	30951750	20352816	490	9659										
BPIL2	254240	broad.mit.edu	37	chr22	32849427	32849427	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	attcaagagactcagaaccgCttaaatctgggagtttcttt	8	8	4	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr22:32849427C>A	uc003amn.2	-	2	188	c.188G>T	c.(187-189)AGC>ATC	p.S63I	BPIL2_uc010gwo.2_5'UTR|BPIL2_uc011amb.1_5'UTR|BPIL2_uc003amo.3_Missense_Mutation_p.S63I	NM_174932	NP_777592	Q8NFQ6	BPIL2_HUMAN	bactericidal/permeability-increasing	63						extracellular region	lipopolysaccharide binding|phospholipid binding			ovary(1)|skin(1)	2						CTCAGAACCGCTTAAATCTGG	0.264													20	62	---	---	---	---	PASS	A	32849427	A	A	32849427	3	1	19	1	0	0	0	0	1	0	0	0	1492	797	28	3	1391	3	BPIL2	22	32849427	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1897677	32849427	18455139	491	9660										
ISX	91464	broad.mit.edu	37	chr22	35463085	35463085	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acccctgagcccctcaatgtGtgctgaggtgggccctgctc	12	15	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr22:35463085G>T	uc003anj.2	+	1	956	c.5G>T	c.(4-6)TGT>TTT	p.C2F	ISX_uc011amg.1_5'UTR	NM_001008494	NP_001008494	Q2M1V0	ISX_HUMAN	intestine-specific homeobox	2						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)	5						CCCTCAATGTGTGCTGAGGTG	0.617													13	29	---	---	---	---	PASS	T	35463085	T	T	35463085	3	4	19	1	0	0	0	0	1	0	0	0	7865	1377	48	3	7	3	ISX	22	35463085	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2613658	35463085	15841481	492	9661										
PNPLA3	80339	broad.mit.edu	37	chr22	44330490	44330490	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttgctttgctcacaggtgcTgggagagatatgccttcgag	13	9	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr22:44330490T>C	uc003bei.1	+	5	874	c.701T>C	c.(700-702)CTG>CCG	p.L234P	PNPLA3_uc010gzm.1_RNA	NM_025225	NP_079501	Q9NST1	PLPL3_HUMAN	patatin-like phospholipase domain containing 3	234	Lumenal (Potential).				triglyceride biosynthetic process|triglyceride catabolic process	integral to membrane	diolein transacylation activity|mono-olein transacylation activity|phospholipase A2 activity|triglyceride lipase activity				0		Ovarian(80;0.024)|all_neural(38;0.0416)				TCACAGGTGCTGGGAGAGATA	0.493													37	87	---	---	---	---	PASS	C	44330490	C	C	44330490	3	2	19	1	0	0	0	0	1	0	0	0	12166	1580	55	5	719	5	PNPLA3	22	44330490	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	8867405	44330490	6974076	493	9662										
PKDREJ	10343	broad.mit.edu	37	chr22	46657974	46657974	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgtttctggcaaaagtgtcaGtacagggcccgaggcccagg	14	10	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chr22:46657974G>T	uc003bhh.2	-	1	1246	c.1246C>A	c.(1246-1248)CTG>ATG	p.L416M		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	416	Extracellular (Potential).|REJ.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		AAAAGTGTCAGTACAGGGCCC	0.522													71	137	---	---	---	---	PASS	T	46657974	T	T	46657974	3	4	19	1	0	0	0	0	1	0	0	0	11970	1020	36	3	5519	3	PKDREJ	22	46657974	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2327484	46657974	4646592	494	9663										
MXRA5	25878	broad.mit.edu	37	chrX	3238788	3238788	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaaggatatgtagttatttcCggtttgttggtccagtgacg	13	5	0	1	rs138419461		TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:3238788C>T	uc004crg.3	-	5	5095	c.4938G>A	c.(4936-4938)CCG>CCA	p.P1646P		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1646						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TAGTTATTTCCGGTTTGTTGG	0.453													144	438	---	---	---	---	PASS	T	3238788	T	T	3238788	2	4	19	1	0	0	0	0	0	0	0	1	10003	639	23	1		1	MXRA5	23	3238788	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08		3238788	152031772	495	9664										
GPR143	4935	broad.mit.edu	37	chrX	9728819	9728819	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gttcatatccgagacgctgtCaacaaaatttgggaatccta	8	9	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:9728819C>A	uc004cst.1	-	2	358	c.358G>T	c.(358-360)GAC>TAC	p.D120Y		NM_000273	NP_000264	P51810	GP143_HUMAN	G protein-coupled receptor 143	100	Extracellular (Potential).				calcium-mediated signaling using intracellular calcium source|eye pigment biosynthetic process|melanosome organization|melanosome transport|phosphatidylinositol-mediated signaling|regulation of calcium-mediated signaling|visual perception	apical plasma membrane|Golgi apparatus|integral to membrane|lysosomal membrane|melanosome membrane|membrane fraction	dopamine binding|L-DOPA receptor activity|protein binding|tyrosine binding			ovary(1)	1		Hepatocellular(5;0.000888)				GAGACGCTGTCAACAAAATTT	0.483													8	12	---	---	---	---	PASS	A	9728819	A	A	9728819	3	1	19	1	0	0	0	0	1	0	0	0	6651	826	29	2	948	2	GPR143	23	9728819	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	6490031	9728819	145541741	496	9665										
ASB9	140462	broad.mit.edu	37	chrX	15268612	15268612	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttcacaagccaaatagagtgGagtgcccaggtggctgatct	12	9	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:15268612G>T	uc004cwl.2	-	5	755	c.508C>A	c.(508-510)CCA>ACA	p.P170T	ASB9_uc004cwk.2_Missense_Mutation_p.P170T|ASB9_uc004cwm.2_Missense_Mutation_p.P160T|ASB9_uc010ner.2_Missense_Mutation_p.P170T|ASB9_uc004cwn.2_Missense_Mutation_p.P141T	NM_001031739	NP_001026909	Q96DX5	ASB9_HUMAN	ankyrin repeat and SOCS box-containing 9 isoform	170	ANK 5.				intracellular signal transduction						0	Hepatocellular(33;0.183)					AAATAGAGTGGAGTGCCCAGG	0.458													68	199	---	---	---	---	PASS	T	15268612	T	T	15268612	3	4	19	1	0	0	0	0	1	0	0	0	1030	1174	41	2	417	2	ASB9	23	15268612	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	5539793	15268612	140001948	497	9666										
PHEX	5251	broad.mit.edu	37	chrX	22115098	22115098	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gattccacatgaaaaccgaaCcagcgaggccatgtacaaca	8	12	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:22115098C>A	uc004dah.2	+	8	1078	c.875C>A	c.(874-876)ACC>AAC	p.T292N	PHEX_uc011mjr.1_Missense_Mutation_p.T292N|PHEX_uc011mjs.1_Missense_Mutation_p.T195N	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	292	Extracellular (Potential).				biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						GAAAACCGAACCAGCGAGGCC	0.363													18	122	---	---	---	---	PASS	A	22115098	A	A	22115098	3	1	19	1	0	0	0	0	1	0	0	0	11819	507	18	3	905	3	PHEX	23	22115098	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	6846486	22115098	133155462	498	9667										
DDX53	168400	broad.mit.edu	37	chrX	23019971	23019971	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gttccggaagatcttgtagtAatggctgagcaatacaagtt	11	6	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:23019971A>T	uc004daj.2	+	1	1885	c.1797A>T	c.(1795-1797)GTA>GTT	p.V599V		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	599	Helicase C-terminal.					nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						ATCTTGTAGTAATGGCTGAGC	0.388													43	142	---	---	---	---	PASS	T	23019971	T	T	23019971	2	4	19	1	0	0	0	0	0	0	0	1	4371	349	13	5		5	DDX53	23	23019971	Silent	SNP	A	TCGA-21-1070-01A-01D-1521-08	904873	23019971	132250589	499	9668										
DCAF8L1	139425	broad.mit.edu	37	chrX	27998447	27998447	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atagagattgtatacagtccGactttcttatcattttctct	5	8	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:27998447G>T	uc004dbx.1	-	1	1120	c.1005C>A	c.(1003-1005)GTC>GTA	p.V335V		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	335	WD 4.									ovary(3)|skin(1)	4						TATACAGTCCGACTTTCTTAT	0.418													49	123	---	---	---	---	PASS	T	27998447	T	T	27998447	2	4	19	1	0	0	0	0	0	0	0	1	4277	1045	37	2		2	DCAF8L1	23	27998447	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	4978476	27998447	127272113	500	9669										
DCAF8L1	139425	broad.mit.edu	37	chrX	27998849	27998849	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccacgctggttaaagtgtatGgtactgacagaaccggcatg	12	9	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:27998849G>T	uc004dbx.1	-	1	718	c.603C>A	c.(601-603)ACC>ACA	p.T201T		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	201	WD 1.									ovary(3)|skin(1)	4						TAAAGTGTATGGTACTGACAG	0.542													10	30	---	---	---	---	PASS	T	27998849	T	T	27998849	2	4	19	1	0	0	0	0	0	0	0	1	4277	1335	47	3		3	DCAF8L1	23	27998849	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	402	27998849	127271711	501	9670										
DMD	1756	broad.mit.edu	37	chrX	31152218	31152218	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttctaggtattggagcttaCctcttgaactagggaaggag	12	7	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:31152218C>A	uc004dda.1	-	77	11258	c.11014_splice	c.e77+1	p.G3672_splice	DMD_uc004dcq.1_Splice_Site_p.G943_splice|DMD_uc004dcr.1_Splice_Site_p.G1092_splice|DMD_uc004dcs.1_Splice_Site_p.G1102_splice|DMD_uc004dct.1_Splice_Site_p.G1212_splice|DMD_uc004dcu.1_Splice_Site_p.G1212_splice|DMD_uc004dcv.1_Splice_Site_p.G1199_splice|DMD_uc004dcw.2_Splice_Site_p.G2328_splice|DMD_uc004dcx.2_Splice_Site_p.G2331_splice|DMD_uc004dcz.2_Splice_Site_p.G3549_splice|DMD_uc004dcy.1_Splice_Site_p.G3668_splice|DMD_uc004ddb.1_Splice_Site_p.G3664_splice|DMD_uc004dcm.1_Splice_Site_p.G604_splice|DMD_uc004dcn.1_Splice_Site_p.G591_splice|DMD_uc004dco.1_Splice_Site_p.G604_splice|DMD_uc004dcp.1_Splice_Site_p.G591_splice|DMD_uc011mkb.1_Splice_Site_p.G494_splice	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform						muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTGGAGCTTACCTCTTGAACT	0.498													35	91	---	---	---	---	PASS	A	31152218	A	A	31152218	5	1	19	1	0	0	0	0	0	0	1	0	4580	521	18	3	140	3	DMD	23	31152218	Splice_Site	SNP	C	TCGA-21-1070-01A-01D-1521-08	3153369	31152218	124118342	502	9671										
SYTL5	94122	broad.mit.edu	37	chrX	37913508	37913508	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaagcaaaacgtagaagtggGaaaactcaacaagaggccag	12	7	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:37913508G>T	uc004ddu.2	+	4	696	c.162G>T	c.(160-162)GGG>GGT	p.G54G	SYTL5_uc004ddv.2_Silent_p.G54G|SYTL5_uc004ddx.2_Silent_p.G54G	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	54	RabBD.				intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						GTAGAAGTGGGAAAACTCAAC	0.438													23	72	---	---	---	---	PASS	T	37913508	T	T	37913508	2	4	19	1	0	0	0	0	0	0	0	1	15483	1161	41	2		2	SYTL5	23	37913508	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	6761290	37913508	117357052	503	9672										
SYTL5	94122	broad.mit.edu	37	chrX	37913589	37913589	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tttgaccggggagacccttgTcaggcttgctcactgagggt	14	10	2	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:37913589T>A	uc004ddu.2	+	4	777	c.243T>A	c.(241-243)TGT>TGA	p.C81*	SYTL5_uc004ddv.2_Nonsense_Mutation_p.C81*|SYTL5_uc004ddx.2_Nonsense_Mutation_p.C81*	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	81	FYVE-type.|RabBD.				intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						GAGACCCTTGTCAGGCTTGCT	0.512													9	213	---	---	---	---	PASS	A	37913589	A	A	37913589	4	1	19	1	0	0	0	0	0	1	0	0	15483	1673	58	5	249	5	SYTL5	23	37913589	Nonsense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	81	37913589	117356971	504	9673										
NYX	60506	broad.mit.edu	37	chrX	41333968	41333968	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagcctcctctccaagctgcTggccccgagggtcccggtgg	13	17	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:41333968T>A	uc004dfh.2	+	2	1692	c.1262T>A	c.(1261-1263)CTG>CAG	p.L421Q	NYX_uc011mku.1_Missense_Mutation_p.L416Q	NM_022567	NP_072089	Q9GZU5	NYX_HUMAN	nyctalopin precursor	421					response to stimulus|visual perception	intracellular|proteinaceous extracellular matrix				lung(2)	2						TCCAAGCTGCTGGCCCCGAGG	0.711													5	13	---	---	---	---	PASS	A	41333968	A	A	41333968	3	1	19	1	0	0	0	0	1	0	0	0	10797	1580	55	5	1268	5	NYX	23	41333968	Missense_Mutation	SNP	T	TCGA-21-1070-01A-01D-1521-08	3420379	41333968	113936592	505	9674										
EBP	10682	broad.mit.edu	37	chrX	48386663	48386663	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tctacttcctgacagagcacCgcgacggattccagcacgga	10	14	1	2	rs141925556	byFrequency	TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:48386663C>A	uc004djx.3	+	5	716	c.511C>A	c.(511-513)CGC>AGC	p.R171S	EBP_uc004djy.3_Missense_Mutation_p.R171S|EBP_uc004djz.2_Missense_Mutation_p.R171S	NM_006579	NP_006570	Q15125	EBP_HUMAN	emopamil binding protein (sterol isomerase)	171					cholesterol biosynthetic process|skeletal system development	endoplasmic reticulum membrane|integral to plasma membrane	cholestenol delta-isomerase activity|drug transmembrane transporter activity|steroid delta-isomerase activity|transmembrane receptor activity			ovary(1)	1						GACAGAGCACCGCGACGGATT	0.572													18	50	---	---	---	---	PASS	A	48386663	A	A	48386663	3	1	19	1	0	0	0	0	1	0	0	0	4886	652	23	1	525	1	EBP	23	48386663	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	7052695	48386663	106883897	506	9675										
PIM2	11040	broad.mit.edu	37	chrX	48775872	48775872	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gccaaagccccccttacccaGgagggggccgagtcgatact	12	15	0	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:48775872G>T	uc004dls.2	-	2	414	c.112C>A	c.(112-114)CTG>ATG	p.L38M		NM_006875	NP_006866	Q9P1W9	PIM2_HUMAN	serine/threonine protein kinase pim-2	38	Protein kinase.|ATP (By similarity).				anti-apoptosis|cell proliferation|male meiosis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|response to virus		ATP binding|protein serine/threonine kinase activity			lung(3)|stomach(1)	4						CCCTTACCCAGGAGGGGGCCG	0.657													27	45	---	---	---	---	PASS	T	48775872	T	T	48775872	3	4	19	1	0	0	0	0	1	0	0	0	11928	991	35	3	843	3	PIM2	23	48775872	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	389209	48775872	106494688	507	9676										
TFE3	7030	broad.mit.edu	37	chrX	48896775	48896775	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggcctgttcccgacgctcacGcctctcctgctcctgcgcct	9	20	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:48896775G>T	uc004dmb.3	-	3	629	c.391C>A	c.(391-393)CGT>AGT	p.R131S	TFE3_uc004dmc.3_Missense_Mutation_p.R26S|TFE3_uc004dme.1_RNA	NM_006521	NP_006512	P19532	TFE3_HUMAN	transcription factor E3	131					humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding		ASPSCR1/TFE3(161)|PRCC/TFE3(25)|SFPQ/TFE3(6)|NONO/TFE3(2)|CLTC/TFE3(2)	soft_tissue(120)|kidney(76)|central_nervous_system(1)	197						CGACGCTCACGCCTCTCCTGC	0.662			T	SFPQ|ASPSCR1|PRCC|NONO|CLTC	papillary renal|alveolar soft part sarcoma|renal								11	11	---	---	---	---	PASS	T	48896775	T	T	48896775	3	4	19	1	0	0	0	0	1	0	0	0	15797	1087	38	1	1368	1	TFE3	23	48896775	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	120903	48896775	106373785	508	9677										
CACNA1F	778	broad.mit.edu	37	chrX	49087004	49087004	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttcacatcgaagcctcctgGctttcccccggtgtgcgggg	12	15	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:49087004G>A	uc004dnb.2	-	5	651	c.589C>T	c.(589-591)CCA>TCA	p.P197S	CACNA1F_uc010nip.2_Missense_Mutation_p.P197S	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	197	I.|Extracellular (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	AAGCCTCCTGGCTTTCCCCCG	0.697													6	20	---	---	---	---	PASS	A	49087004	A	A	49087004	3	1	19	1	0	0	0	0	1	0	0	0	2543	1203	42	3	5520	3	CACNA1F	23	49087004	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	190229	49087004	106183556	509	9678										
CCNB3	85417	broad.mit.edu	37	chrX	50090771	50090771	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tacatgaagaagctcggataCtgggtaaacacttgcgagat	11	7	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:50090771C>G	uc004dox.3	+	11	4255	c.3957C>G	c.(3955-3957)TAC>TAG	p.Y1319*	CCNB3_uc004doy.2_Nonsense_Mutation_p.Y1319*|CCNB3_uc004doz.2_Nonsense_Mutation_p.Y215*|CCNB3_uc010njq.2_Nonsense_Mutation_p.Y211*|CCNB3_uc004dpa.2_Nonsense_Mutation_p.Y158*	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1319					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					AGCTCGGATACTGGGTAAACA	0.502													13	54	---	---	---	---	PASS	G	50090771	G	G	50090771	4	3	19	1	0	0	0	0	0	1	0	0	2914	576	20	4	3991	4	CCNB3	23	50090771	Nonsense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1003767	50090771	105179789	510	9679										
TSPYL2	64061	broad.mit.edu	37	chrX	53112249	53112249	+	Missense_Mutation	SNP	G	T	T													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gaggagcagcaggaggcggcGgcggcggcggaggaggaagc							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:53112249G>T	uc004drw.2	+	1	701	c.569G>T	c.(568-570)CGG>CTG	p.R190L	TSPYL2_uc004drv.2_Missense_Mutation_p.R190L|TSPYL2_uc004drx.1_5'Flank	NM_022117	NP_071400	Q9H2G4	TSYL2_HUMAN	TSPY-like 2	190	Arg-rich.				cell cycle|chromatin modification|negative regulation of cell cycle|negative regulation of cell growth|negative regulation of DNA replication|nucleosome assembly|regulation of protein kinase activity|regulation of signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|rDNA binding				0						aggaggcggcggcggcggcgg	0.244													11	19	---	---	---	---	PASS	T	53112249	T	T	53112249	3	4	19	1	0	0	0	0	1	0	0	0	16657	1116	39	1	571	1	TSPYL2	23	53112249	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3021478	53112249	102158311	511	9680	282	2								
TSPYL2	64061	broad.mit.edu	37	chrX	53112250	53112250	+	Silent	SNP	G	T	T													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aggagcagcaggaggcggcgGcggcggcggaggaggaagca							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:53112250G>T	uc004drw.2	+	1	702	c.570G>T	c.(568-570)CGG>CGT	p.R190R	TSPYL2_uc004drv.2_Silent_p.R190R|TSPYL2_uc004drx.1_5'Flank	NM_022117	NP_071400	Q9H2G4	TSYL2_HUMAN	TSPY-like 2	190	Arg-rich.				cell cycle|chromatin modification|negative regulation of cell cycle|negative regulation of cell growth|negative regulation of DNA replication|nucleosome assembly|regulation of protein kinase activity|regulation of signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|rDNA binding				0						ggaggcggcggcggcggcgga	0.244													11	19	---	---	---	---	PASS	T	53112250	T	T	53112250	2	4	19	1	0	0	0	0	0	0	0	1	16657	1190	42	3		3	TSPYL2	23	53112250	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	1	53112250	102158310	512	9681	282	2								
HUWE1	10075	broad.mit.edu	37	chrX	53574688	53574688	+	Missense_Mutation	SNP	C	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cactgtggtcgaagcagctaCgacaatggtggaaatagccg							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:53574688C>A	uc004dsp.2	-	68	10984	c.10582G>T	c.(10582-10584)GTA>TTA	p.V3528L	HUWE1_uc004dsn.2_Missense_Mutation_p.V2336L|HUWE1_uc004dsq.1_5'Flank	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3528	Thr-rich.				base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GAAGCAGCTACGACAATGGTG	0.502													15	51	---	---	---	---	PASS	A	53574688	A	A	53574688	3	1	19	1	0	0	0	0	1	0	0	0	7461	536	19	1	2610	1	HUWE1	23	53574688	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	462438	53574688	101695872	513	9682	283	2								
HUWE1	10075	broad.mit.edu	37	chrX	53574689	53574689	+	Silent	SNP	G	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	actgtggtcgaagcagctacGacaatggtggaaatagccgt							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:53574689G>A	uc004dsp.2	-	68	10983	c.10581C>T	c.(10579-10581)GTC>GTT	p.V3527V	HUWE1_uc004dsn.2_Silent_p.V2335V|HUWE1_uc004dsq.1_5'Flank	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3527	Thr-rich.				base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						AAGCAGCTACGACAATGGTGG	0.502													16	50	---	---	---	---	PASS	A	53574689	A	A	53574689	2	1	19	1	0	0	0	0	0	0	0	1	7461	1045	37	2		2	HUWE1	23	53574689	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	1	53574689	101695871	514	9683	283	2								
WNK3	65267	broad.mit.edu	37	chrX	54276065	54276065	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cttattacttgtgttttttgGacctggaacaataataaaga	7	5	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:54276065G>T	uc004dtd.1	-	17	3155	c.2716C>A	c.(2716-2718)CCA>ACA	p.P906T	WNK3_uc004dtc.1_Missense_Mutation_p.P906T	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	906					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						GTGTTTTTTGGACCTGGAACA	0.408													69	185	---	---	---	---	PASS	T	54276065	T	T	54276065	3	4	19	1	0	0	0	0	1	0	0	0	17376	1174	41	2	2718	2	WNK3	23	54276065	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	701376	54276065	100994495	515	9684										
FGD1	2245	broad.mit.edu	37	chrX	54481902	54481902	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tggcctggagctcgagggagCgctgctttcctgacaccagg	15	12	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:54481902C>A	uc004dtg.2	-	12	2728	c.1994G>T	c.(1993-1995)CGC>CTC	p.R665L	FGD1_uc011moi.1_Missense_Mutation_p.R423L	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	665	PH 1.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CTCGAGGGAGCGCTGCTTTCC	0.557													18	71	---	---	---	---	PASS	A	54481902	A	A	54481902	3	1	19	1	0	0	0	0	1	0	0	0	5832	768	27	1	919	1	FGD1	23	54481902	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	205837	54481902	100788658	516	9685										
PFKFB1	5207	broad.mit.edu	37	chrX	54984739	54984739	+	Missense_Mutation	SNP	C	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aagtaactggtggtccttacCctgatgttttctgcaattat							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:54984739C>A	uc004dty.1	-	6	587	c.516G>T	c.(514-516)AGG>AGT	p.R172S	PFKFB1_uc010nkd.1_Intron|PFKFB1_uc011mol.1_Missense_Mutation_p.R107S	NM_002625	NP_002616	P16118	F261_HUMAN	6-phosphofructo-2-kinase/fructose-2,	172	6-phosphofructo-2-kinase.				energy reserve metabolic process|fructose 2,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|intracellular protein kinase cascade	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(1)	1						TGGTCCTTACCCTGATGTTTT	0.398													42	121	---	---	---	---	PASS	A	54984739	A	A	54984739	3	1	19	1	0	0	0	0	1	0	0	0	11760	637	22	3	935	3	PFKFB1	23	54984739	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	502837	54984739	100285821	517	9686	284	2								
PFKFB1	5207	broad.mit.edu	37	chrX	54984740	54984740	+	Missense_Mutation	SNP	C	A	A													0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agtaactggtggtccttaccCtgatgttttctgcaattatg							TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:54984740C>A	uc004dty.1	-	6	586	c.515G>T	c.(514-516)AGG>ATG	p.R172M	PFKFB1_uc010nkd.1_Intron|PFKFB1_uc011mol.1_Missense_Mutation_p.R107M	NM_002625	NP_002616	P16118	F261_HUMAN	6-phosphofructo-2-kinase/fructose-2,	172	6-phosphofructo-2-kinase.				energy reserve metabolic process|fructose 2,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|intracellular protein kinase cascade	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(1)	1						GGTCCTTACCCTGATGTTTTC	0.398													43	121	---	---	---	---	PASS	A	54984740	A	A	54984740	3	1	19	1	0	0	0	0	1	0	0	0	11760	695	24	3	936	3	PFKFB1	23	54984740	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1	54984740	100285820	518	9687	284	2								
ZXDA	7789	broad.mit.edu	37	chrX	57935969	57935969	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcatttgaagggcctctggcCctggctgctgctgtgcgtca	14	12	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:57935969C>A	uc004dve.2	-	1	1099	c.886G>T	c.(886-888)GGC>TGC	p.G296C		NM_007156	NP_009087	P98168	ZXDA_HUMAN	zinc finger, X-linked, duplicated A	296	Required for interaction with ZXDC.				positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GGCCTCTGGCCCTGGCTGCTG	0.632													11	34	---	---	---	---	PASS	A	57935969	A	A	57935969	3	1	19	1	0	0	0	0	1	0	0	0	18247	623	22	3	1517	3	ZXDA	23	57935969	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2951229	57935969	97334591	519	9688										
FAM123B	139285	broad.mit.edu	37	chrX	63411079	63411079	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttctccagaggacggaagtcCctccagtctggctcgctgct	11	14	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:63411079C>G	uc004dvo.2	-	2	2361	c.2088G>C	c.(2086-2088)AGG>AGC	p.R696S		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	696					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						GACGGAAGTCCCTCCAGTCTG	0.552													32	101	---	---	---	---	PASS	G	63411079	G	G	63411079	3	3	19	1	0	0	0	0	1	0	0	0	5423	622	22	4	1323	4	FAM123B	23	63411079	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	5475110	63411079	91859481	520	9689										
MTMR8	55613	broad.mit.edu	37	chrX	63444978	63444978	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtagactgcggccaaatagaGggggccagaacatgaagcta	14	8	0	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:63444978G>T	uc011mou.1	-	10	1746	c.1678C>A	c.(1678-1680)CTC>ATC	p.L560I	ASB12_uc004dvp.1_Missense_Mutation_p.L176I|ASB12_uc004dvq.1_Missense_Mutation_p.L185I|ASB12_uc004dvr.1_Missense_Mutation_p.L185I	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	Error:Variant_position_missing_in_Q96EF0_after_alignment						nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						GCCAAATAGAGGGGGCCAGAA	0.557													24	71	---	---	---	---	PASS	T	63444978	T	T	63444978	3	4	19	1	0	0	0	0	1	0	0	0	9949	1000	35	3		3	MTMR8	23	63444978	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	33899	63444978	91825582	521	9690										
MTMR8	55613	broad.mit.edu	37	chrX	63488508	63488508	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgtccccagagaaacccctgGcctcagaaatacccaagttt	7	14	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:63488508G>T	uc004dvs.2	-	14	2092	c.2024C>A	c.(2023-2025)GCC>GAC	p.A675D	MTMR8_uc011mou.1_Intron	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	675						nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						GAAACCCCTGGCCTCAGAAAT	0.542													62	140	---	---	---	---	PASS	T	63488508	T	T	63488508	3	4	19	1	0	0	0	0	1	0	0	0	9949	1203	42	3	94	3	MTMR8	23	63488508	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	43530	63488508	91782052	522	9691										
VSIG4	11326	broad.mit.edu	37	chrX	65252573	65252573	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aaccgctgccagttgtcactGtgggcttggagacagagact	13	10	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:65252573G>T	uc004dwh.2	-	3	558	c.431C>A	c.(430-432)ACA>AAA	p.T144K	VSIG4_uc004dwi.2_Intron|VSIG4_uc010nkq.1_Missense_Mutation_p.T144K|VSIG4_uc004dwj.2_Missense_Mutation_p.T144K|VSIG4_uc011moy.1_Intron|VSIG4_uc004dwk.2_Missense_Mutation_p.T144K|VSIG4_uc004dwl.2_Missense_Mutation_p.T40K	NM_007268	NP_009199	Q9Y279	VSIG4_HUMAN	V-set and immunoglobulin domain containing 4	144	Ig-like 2.|Extracellular (Potential).				complement activation, alternative pathway	integral to membrane	protein binding				0						AGTTGTCACTGTGGGCTTGGA	0.507													10	55	---	---	---	---	PASS	T	65252573	T	T	65252573	3	4	19	1	0	0	0	0	1	0	0	0	17222	1377	48	3	796	3	VSIG4	23	65252573	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1764065	65252573	90017987	523	9692										
STARD8	9754	broad.mit.edu	37	chrX	67937247	67937247	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tctgccagtcatcaccgtgaGcctaccacccgagccagcag	9	17	3	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:67937247G>T	uc004dxa.2	+	5	623	c.251G>T	c.(250-252)AGC>ATC	p.S84I	STARD8_uc004dxb.2_Missense_Mutation_p.S164I|STARD8_uc004dxc.3_Missense_Mutation_p.S84I	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	84					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						ATCACCGTGAGCCTACCACCC	0.682													7	46	---	---	---	---	PASS	T	67937247	T	T	67937247	3	4	19	1	0	0	0	0	1	0	0	0	15262	971	34	3	513	3	STARD8	23	67937247	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2684674	67937247	87333313	524	9693										
TAF1	6872	broad.mit.edu	37	chrX	70613229	70613229	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aggctcgttctggagaggggCccatgagtaaatttgcccgt	14	9	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:70613229C>T	uc004dzu.3	+	21	3178	c.3127C>T	c.(3127-3129)CCC>TCC	p.P1043S	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.P1064S|TAF1_uc004dzv.3_Missense_Mutation_p.P217S	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	1043					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				TGGAGAGGGGCCCATGAGTAA	0.463													52	127	---	---	---	---	PASS	T	70613229	T	T	70613229	3	4	19	1	0	0	0	0	1	0	0	0	15510	739	26	3	3272	3	TAF1	23	70613229	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2675982	70613229	84657331	525	9694										
OGT	8473	broad.mit.edu	37	chrX	70784604	70784604	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ctttgcagatgtgggcaaacGtgagtatgcaagtatgttag	13	5	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:70784604G>T	uc004eaa.1	+	19	2806	c.2589_splice	c.e19+1	p.N863_splice	BCYRN1_uc011mpt.1_Intron|OGT_uc004eab.1_Splice_Site_p.N853_splice|OGT_uc004eac.2_Splice_Site_p.N724_splice|OGT_uc004ead.2_Splice_Site_p.N482_splice	NM_181672	NP_858058	O15294	OGT1_HUMAN	O-linked GlcNAc transferase isoform 1						cellular response to retinoic acid|positive regulation of granulocyte differentiation|positive regulation of histone H3-K4 methylation|positive regulation of proteolysis|protein O-linked glycosylation|signal transduction	cytosol|MLL5-L complex	enzyme activator activity|protein binding|protein N-acetylglucosaminyltransferase activity			ovary(3)|kidney(1)|pancreas(1)	5	Renal(35;0.156)					GTGGGCAAACGTGAGTATGCA	0.408													47	142	---	---	---	---	PASS	T	70784604	T	T	70784604	5	4	19	1	0	0	0	0	0	0	1	0	10847	1159	40	1	2664	1	OGT	23	70784604	Splice_Site	SNP	G	TCGA-21-1070-01A-01D-1521-08	171375	70784604	84485956	526	9695										
ATRX	546	broad.mit.edu	37	chrX	76938690	76938690	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	actgatagtttttgtttctcCttaactgtttcattacattc	4	8	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:76938690C>A	uc004ecp.3	-	9	2290	c.2058G>T	c.(2056-2058)AAG>AAT	p.K686N	ATRX_uc004ecq.3_Missense_Mutation_p.K648N|ATRX_uc004eco.3_Missense_Mutation_p.K471N|ATRX_uc004ecr.2_Missense_Mutation_p.K618N|ATRX_uc010nlx.1_Missense_Mutation_p.K657N|ATRX_uc010nly.1_Missense_Mutation_p.K631N	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	686					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TTTGTTTCTCCTTAACTGTTT	0.373			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						197	457	---	---	---	---	PASS	A	76938690	A	A	76938690	3	1	19	1	0	0	0	0	1	0	0	0	1208	680	24	3	5528	3	ATRX	23	76938690	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	6154086	76938690	78331870	527	9696										
CYSLTR1	10800	broad.mit.edu	37	chrX	77528615	77528615	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtaaggtcaaaatgatcattGtgtaacagacaattataata	7	4	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:77528615G>T	uc004edb.2	-	3	1029	c.629C>A	c.(628-630)ACA>AAA	p.T210K	CYSLTR1_uc010nma.2_Missense_Mutation_p.T210K|CYSLTR1_uc010nmb.2_Missense_Mutation_p.T210K	NM_006639	NP_006630	Q9Y271	CLTR1_HUMAN	cysteinyl leukotriene receptor 1	210	Helical; Name=5; (Potential).				elevation of cytosolic calcium ion concentration|respiratory gaseous exchange	integral to plasma membrane|membrane fraction	leukotriene receptor activity			ovary(1)	1					Amlexanox(DB01025)|Cinalukast(DB00587)|Montelukast(DB00471)|Nedocromil(DB00716)|Pranlukast(DB01411)|Zafirlukast(DB00549)	AATGATCATTGTGTAACAGAC	0.318													23	68	---	---	---	---	PASS	T	77528615	T	T	77528615	3	4	19	1	0	0	0	0	1	0	0	0	4201	1377	48	3	388	3	CYSLTR1	23	77528615	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	589925	77528615	77741945	528	9697										
BRWD3	254065	broad.mit.edu	37	chrX	79978191	79978191	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	aaaaatggaggaggcatgagGtgaggagcttgttgggtttg	18	2	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:79978191G>T	uc004edt.2	-	17	2009	c.1746C>A	c.(1744-1746)CAC>CAA	p.H582Q	BRWD3_uc004edo.2_Missense_Mutation_p.H178Q|BRWD3_uc004edp.2_Missense_Mutation_p.H411Q|BRWD3_uc004edq.2_Missense_Mutation_p.H178Q|BRWD3_uc010nmj.1_Missense_Mutation_p.H178Q|BRWD3_uc004edr.2_Missense_Mutation_p.H252Q|BRWD3_uc004eds.2_Missense_Mutation_p.H178Q|BRWD3_uc004edu.2_Missense_Mutation_p.H252Q|BRWD3_uc004edv.2_Missense_Mutation_p.H178Q|BRWD3_uc004edw.2_Missense_Mutation_p.H178Q|BRWD3_uc004edx.2_Missense_Mutation_p.H178Q|BRWD3_uc004edy.2_Missense_Mutation_p.H178Q|BRWD3_uc004edz.2_Missense_Mutation_p.H252Q|BRWD3_uc004eea.2_Missense_Mutation_p.H252Q|BRWD3_uc004eeb.2_Missense_Mutation_p.H178Q	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	582										ovary(4)	4						GAGGCATGAGGTGAGGAGCTT	0.428													58	160	---	---	---	---	PASS	T	79978191	T	T	79978191	3	4	19	1	0	0	0	0	1	0	0	0	1526	1252	44	3	3762	3	BRWD3	23	79978191	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	2449576	79978191	75292369	529	9698										
RPS6KA6	27330	broad.mit.edu	37	chrX	83390218	83390218	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atcttcctctgtaaacagaaCctagaacaaaataatgattt	4	8	2	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:83390218C>A	uc004eej.1	-	7	579	c.502G>T	c.(502-504)GTT>TTT	p.V168F	RPS6KA6_uc011mqt.1_Missense_Mutation_p.V168F|RPS6KA6_uc011mqu.1_Missense_Mutation_p.V65F|RPS6KA6_uc010nmo.1_RNA	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	168	Protein kinase 1.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						GTAAACAGAACCTAGAACAAA	0.333													13	38	---	---	---	---	PASS	A	83390218	A	A	83390218	3	1	19	1	0	0	0	0	1	0	0	0	13655	521	18	3	1799	3	RPS6KA6	23	83390218	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	3412027	83390218	71880342	530	9699										
ZNF711	7552	broad.mit.edu	37	chrX	84526181	84526181	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gtattttcaggtgtgcagatCaatcaaatctgaaaactcac	7	8	5	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:84526181C>A	uc004eeo.2	+	9	1980	c.1633C>A	c.(1633-1635)CAA>AAA	p.Q545K	ZNF711_uc004eep.2_Missense_Mutation_p.Q545K|ZNF711_uc004eeq.2_Missense_Mutation_p.Q591K|ZNF711_uc011mqy.1_Missense_Mutation_p.Q144K	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	545	C2H2-type 5.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						GTGTGCAGATCAATCAAATCT	0.393													34	55	---	---	---	---	PASS	A	84526181	A	A	84526181	3	1	19	1	0	0	0	0	1	0	0	0	18113	827	29	2	1659	2	ZNF711	23	84526181	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1135963	84526181	70744379	531	9700										
PCDH11X	27328	broad.mit.edu	37	chrX	91133298	91133298	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gttcttatgaattggttctaCcgtccactaatccaggcaca	7	11	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:91133298C>A	uc004efk.1	+	2	2904	c.2059C>A	c.(2059-2061)CCG>ACG	p.P687T	PCDH11X_uc004efl.1_Missense_Mutation_p.P687T|PCDH11X_uc004efo.1_Missense_Mutation_p.P687T|PCDH11X_uc010nmv.1_Missense_Mutation_p.P687T|PCDH11X_uc004efm.1_Missense_Mutation_p.P687T|PCDH11X_uc004efn.1_Missense_Mutation_p.P687T|PCDH11X_uc004efh.1_Missense_Mutation_p.P687T|PCDH11X_uc004efj.1_Missense_Mutation_p.P687T	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	687	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ATTGGTTCTACCGTCCACTAA	0.423													64	273	---	---	---	---	PASS	A	91133298	A	A	91133298	3	1	19	1	0	0	0	0	1	0	0	0	11508	507	18	3	2065	3	PCDH11X	23	91133298	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	6607117	91133298	64137262	532	9701										
DRP2	1821	broad.mit.edu	37	chrX	100490873	100490873	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gagctgctgtcaccagccctGcacctcctcaagatggtgct	10	15	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:100490873G>T	uc004egz.2	+	4	511	c.142G>T	c.(142-144)GCA>TCA	p.A48S	DRP2_uc011mrh.1_5'UTR	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	48					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						CACCAGCCCTGCACCTCCTCA	0.557													101	298	---	---	---	---	PASS	T	100490873	T	T	100490873	3	4	19	1	0	0	0	0	1	0	0	0	4764	1319	46	3	148	3	DRP2	23	100490873	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	9357575	100490873	54779687	533	9702										
ARMCX3	51566	broad.mit.edu	37	chrX	100880053	100880053	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tattgcatttatagactgacTaggggaagaaaacagaacaa	9	5	0	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:100880053T>C	uc004ehz.1	+	5	617	c.84T>C	c.(82-84)ACT>ACC	p.T28T	ARMCX3_uc004eia.1_Silent_p.T28T|ARMCX3_uc004eib.1_Silent_p.T28T|ARMCX3_uc004eic.1_Silent_p.T28T	NM_016607	NP_057691	Q9UH62	ARMX3_HUMAN	armadillo repeat containing, X-linked 3	28	Helical; (Potential).					integral to membrane	binding			ovary(1)|lung(1)	2						ATAGACTGACTAGGGGAAGAA	0.542													66	177	---	---	---	---	PASS	C	100880053	C	C	100880053	2	2	19	1	0	0	0	0	0	0	0	1	961	1509	53	5		5	ARMCX3	23	100880053	Silent	SNP	T	TCGA-21-1070-01A-01D-1521-08	389180	100880053	54390507	534	9703										
ARMCX2	9823	broad.mit.edu	37	chrX	100912230	100912230	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ccggctccatctgcctcttgGgcctgactgcctgccccact	9	19	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:100912230G>T	uc004eid.2	-	3	700	c.345C>A	c.(343-345)GCC>GCA	p.A115A	ARMCX2_uc004eie.3_Silent_p.A115A|ARMCX2_uc004eif.3_Silent_p.A115A|ARMCX2_uc004eig.3_Silent_p.A115A|ARMCX2_uc010nnt.2_Silent_p.A115A	NM_177949	NP_808818	Q7L311	ARMX2_HUMAN	ALEX2 protein	115	Ala-rich.					integral to membrane	binding			ovary(6)	6						CTGCCTCTTGGGCCTGACTGC	0.642													46	169	---	---	---	---	PASS	T	100912230	T	T	100912230	2	4	19	1	0	0	0	0	0	0	0	1	960	1219	43	3		3	ARMCX2	23	100912230	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	32177	100912230	54358330	535	9704										
GPRASP1	9737	broad.mit.edu	37	chrX	101908916	101908916	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ggggaagaggttgtaggtggGgctgagatagagaatgatgt	20	1	0	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:101908916G>T	uc004ejj.3	+	5	876	c.75G>T	c.(73-75)GGG>GGT	p.G25G	GPRASP1_uc004eji.3_Silent_p.G25G|GPRASP1_uc010nod.2_Silent_p.G25G	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	25						cytoplasm	protein binding			ovary(1)|lung(1)	2						TTGTAGGTGGGGCTGAGATAG	0.522													98	332	---	---	---	---	PASS	T	101908916	T	T	101908916	2	4	19	1	0	0	0	0	0	0	0	1	6722	1219	43	3		3	GPRASP1	23	101908916	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	996686	101908916	53361644	536	9705										
PLP1	5354	broad.mit.edu	37	chrX	103041628	103041628	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gagcgggtgtgtcattgtttGggaaaatggctaggacatcc	15	6	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:103041628G>A	uc010nov.2	+	4	706	c.426G>A	c.(424-426)TTG>TTA	p.L142L	RAB9B_uc004eli.1_Intron|PLP1_uc004elk.2_Silent_p.L142L|PLP1_uc004elj.2_Intron|PLP1_uc011msf.1_Silent_p.L87L|PLP1_uc010now.1_Silent_p.L146L|PLP1_uc010nox.2_Silent_p.L96L	NM_001128834	NP_001122306	P60201	MYPR_HUMAN	proteolipid protein 1 isoform 1	142	Cytoplasmic (Probable).		Missing (in HLD1).		cell death|synaptic transmission	integral to membrane				ovary(1)	1						GTCATTGTTTGGGAAAATGGC	0.567													81	299	---	---	---	---	PASS	A	103041628	A	A	103041628	2	1	19	1	0	0	0	0	0	0	0	1	12104	1339	47	3		3	PLP1	23	103041628	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	1132712	103041628	52228932	537	9706										
TEX13A	56157	broad.mit.edu	37	chrX	104464792	104464792	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cggctgatttgtgcagtttgGcgaagccgtgcagccaccgc	14	12	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:104464792G>A	uc004ema.2	-	2	402	c.290C>T	c.(289-291)GCC>GTC	p.A97V	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Missense_Mutation_p.A97V	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	97						intracellular	zinc ion binding			ovary(2)	2						GTGCAGTTTGGCGAAGCCGTG	0.632													27	57	---	---	---	---	PASS	A	104464792	A	A	104464792	3	1	19	1	0	0	0	0	1	0	0	0	15773	1203	42	3	949	3	TEX13A	23	104464792	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	1423164	104464792	50805768	538	9707										
NRK	203447	broad.mit.edu	37	chrX	105152799	105152799	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tagagtcctgcatggggaacCctctcagccaaggtggctac	12	12	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:105152799C>A	uc004emd.2	+	13	1469	c.1166C>A	c.(1165-1167)CCC>CAC	p.P389H	NRK_uc010npc.1_Missense_Mutation_p.P57H	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	389							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						CATGGGGAACCCTCTCAGCCA	0.542										HNSCC(51;0.14)			24	120	---	---	---	---	PASS	A	105152799	A	A	105152799	3	1	19	1	0	0	0	0	1	0	0	0	10655	623	22	3	1216	3	NRK	23	105152799	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	688007	105152799	50117761	539	9708										
NRK	203447	broad.mit.edu	37	chrX	105153311	105153311	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	accaggcacctgaacagccaGaggtacaggaacaggctgcc	12	13	0	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:105153311G>T	uc004emd.2	+	13	1981	c.1678G>T	c.(1678-1680)GAG>TAG	p.E560*	NRK_uc010npc.1_Nonsense_Mutation_p.E228*	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	560	Gln-rich.						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						TGAACAGCCAGAGGTACAGGA	0.572										HNSCC(51;0.14)			5	18	---	---	---	---	PASS	T	105153311	T	T	105153311	4	4	19	1	0	0	0	0	0	1	0	0	10655	943	33	2	1728	2	NRK	23	105153311	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	512	105153311	50117249	540	9709										
COL4A5	1287	broad.mit.edu	37	chrX	107840243	107840243	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gttaggatctcttggtttccCtggacagaaaggggaaaaag	13	6	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:107840243C>A	uc004enz.1	+	23	1734	c.1532C>A	c.(1531-1533)CCT>CAT	p.P511H	COL4A5_uc011mso.1_Missense_Mutation_p.P511H|COL4A5_uc004eob.1_Missense_Mutation_p.P119H	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	511	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						CTTGGTTTCCCTGGACAGAAA	0.328									Alport_syndrome_with_Diffuse_Leiomyomatosis				13	27	---	---	---	---	PASS	A	107840243	A	A	107840243	3	1	19	1	0	0	0	0	1	0	0	0	3694	681	24	3	1622	3	COL4A5	23	107840243	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2686932	107840243	47430317	541	9710										
GUCY2F	2986	broad.mit.edu	37	chrX	108636237	108636237	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tattgctccaacatccgaagCatagaatcaataatattggt	6	8	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:108636237C>A	uc004eod.3	-	13	2748	c.2472G>T	c.(2470-2472)ATG>ATT	p.M824I	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	824	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						ACATCCGAAGCATAGAATCAA	0.353													79	339	---	---	---	---	PASS	A	108636237	A	A	108636237	3	1	19	1	0	0	0	0	1	0	0	0	6898	710	25	3	882	3	GUCY2F	23	108636237	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	795994	108636237	46634323	542	9711										
GUCY2F	2986	broad.mit.edu	37	chrX	108719023	108719023	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcttgtaggggagtgtccacAcctgctgcggaagggacatg	15	9	1	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:108719023A>T	uc004eod.3	-	2	419	c.143T>A	c.(142-144)GTG>GAG	p.V48E	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	48					intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						GAGTGTCCACACCTGCTGCGG	0.562											OREG0019905	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	43	176	---	---	---	---	PASS	T	108719023	T	T	108719023	3	4	19	1	0	0	0	0	1	0	0	0	6898	159	6	5	3255	5	GUCY2F	23	108719023	Missense_Mutation	SNP	A	TCGA-21-1070-01A-01D-1521-08	82786	108719023	46551537	543	9712										
LHFPL1	340596	broad.mit.edu	37	chrX	111914544	111914544	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagtaaggtaggaagtaactGgtagaactggtcacagcagt	13	6	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:111914544G>T	uc004epq.2	-	2	408	c.75C>A	c.(73-75)ACC>ACA	p.T25T	LHFPL1_uc004epp.2_Silent_p.T48T|LHFPL1_uc010nqa.2_Intron|LHFPL1_uc010nqb.2_Silent_p.T25T	NM_178175	NP_835469	Q86WI0	LHPL1_HUMAN	lipoma HMGIC fusion partner-like 1 precursor	25						integral to membrane					0						GGAAGTAACTGGTAGAACTGG	0.562													150	460	---	---	---	---	PASS	T	111914544	T	T	111914544	2	4	19	1	0	0	0	0	0	0	0	1	8764	1335	47	3		3	LHFPL1	23	111914544	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	3195521	111914544	43356016	544	9713										
CUL4B	8450	broad.mit.edu	37	chrX	119693974	119693974	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cactaacttcttagcagagcCaggtttgctgttagcaaagc	9	10	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:119693974C>G	uc004esw.2	-	3	1011	c.574G>C	c.(574-576)GGC>CGC	p.G192R	CUL4B_uc004esv.2_Missense_Mutation_p.G174R	NM_003588	NP_003579	Q13620	CUL4B_HUMAN	cullin 4B isoform 1	192	Ser-rich.				cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3						TTAGCAGAGCCAGGTTTGCTG	0.428													50	188	---	---	---	---	PASS	G	119693974	G	G	119693974	3	3	19	1	0	0	0	0	1	0	0	0	4058	594	21	4	2247	4	CUL4B	23	119693974	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	7779430	119693974	35576586	545	9714										
MCTS1	28985	broad.mit.edu	37	chrX	119742191	119742191	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcctggagctaagctttaccCtgctgcagtagataccattg	9	11	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:119742191C>T	uc004esx.2	+	4	722	c.374C>T	c.(373-375)CCT>CTT	p.P125L	MCTS1_uc011mub.1_Missense_Mutation_p.P126L	NM_014060	NP_054779	Q9ULC4	MCTS1_HUMAN	malignant T cell amplified sequence 1 isoform 1	125	PUA.				cell cycle|positive regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm	RNA binding				0						AAGCTTTACCCTGCTGCAGTA	0.433													17	242	---	---	---	---	PASS	T	119742191	T	T	119742191	3	4	19	1	0	0	0	0	1	0	0	0	9402	681	24	3	406	3	MCTS1	23	119742191	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	48217	119742191	35528369	546	9715										
ODZ1	10178	broad.mit.edu	37	chrX	123587186	123587186	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttgaaaaccagtgatgcctaCctgagtgatgtccattcctg	9	10	0	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:123587186C>A	uc004euj.2	-	22	4147	c.4083_splice	c.e22+1	p.Q1361_splice	ODZ1_uc011muj.1_Splice_Site_p.Q1367_splice|ODZ1_uc010nqy.2_Splice_Site_p.Q1368_splice	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3						immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GTGATGCCTACCTGAGTGATG	0.408													51	168	---	---	---	---	PASS	A	123587186	A	A	123587186	5	1	19	1	0	0	0	0	0	0	1	0	10834	521	18	3	4133	3	ODZ1	23	123587186	Splice_Site	SNP	C	TCGA-21-1070-01A-01D-1521-08	3844995	123587186	31683374	547	9716										
ODZ1	10178	broad.mit.edu	37	chrX	123615585	123615585	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atttatttattttttacctcGagggctattcagtgaagctt	7	6	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:123615585G>C	uc004euj.2	-	21	3989	c.3925C>G	c.(3925-3927)CGA>GGA	p.R1309G	ODZ1_uc011muj.1_Missense_Mutation_p.R1315G|ODZ1_uc010nqy.2_Missense_Mutation_p.R1316G	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1309	NHL 2.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						tttttaCCTCGAGGGCTATTC	0.393													22	92	---	---	---	---	PASS	C	123615585	C	C	123615585	3	2	19	1	0	0	0	0	1	0	0	0	10834	1066	37	2	4296	2	ODZ1	23	123615585	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	28399	123615585	31654975	548	9717										
ODZ1	10178	broad.mit.edu	37	chrX	124030047	124030047	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acgctgtgcatgtctgtttgGtagccagagcacagagtgtg	14	8	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:124030047G>T	uc004euj.2	-	2	325	c.261C>A	c.(259-261)TAC>TAA	p.Y87*	ODZ1_uc011muj.1_Nonsense_Mutation_p.Y87*|ODZ1_uc010nqy.2_Nonsense_Mutation_p.Y87*	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	87	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TGTCTGTTTGGTAGCCAGAGC	0.478													82	285	---	---	---	---	PASS	T	124030047	T	T	124030047	4	4	19	1	0	0	0	0	0	1	0	0	10834	1256	44	3	8061	3	ODZ1	23	124030047	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	414462	124030047	31240513	549	9718										
ACTRT1	139741	broad.mit.edu	37	chrX	127185842	127185842	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gcttttctcgaatttccctaGgattcaaagagggctcggtc	10	10	2	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:127185842G>T	uc004eum.2	-	1	541	c.344C>A	c.(343-345)CCT>CAT	p.P115H		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	115						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						AATTTCCCTAGGATTCAAAGA	0.483													169	658	---	---	---	---	PASS	T	127185842	T	T	127185842	3	4	19	1	0	0	0	0	1	0	0	0	218	1000	35	3	790	3	ACTRT1	23	127185842	Missense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	3155795	127185842	28084718	550	9719										
UTP14A	10813	broad.mit.edu	37	chrX	129058809	129058809	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgctgtctgaattgagagtaCtatctcagaaattgaaggaa	10	5	2	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:129058809C>T	uc004euz.2	+	12	1415	c.1387C>T	c.(1387-1389)CTA>TTA	p.L463L	UTP14A_uc011mup.1_Silent_p.L411L|UTP14A_uc011muq.1_Silent_p.L409L	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	463					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						ATTGAGAGTACTATCTCAGAA	0.448													178	548	---	---	---	---	PASS	T	129058809	T	T	129058809	2	4	19	1	0	0	0	0	0	0	0	1	17092	564	20	3		3	UTP14A	23	129058809	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	1872967	129058809	26211751	551	9720										
UTP14A	10813	broad.mit.edu	37	chrX	129059948	129059948	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ataaaggaagcttttgctggGgatgatgtcatcagagattt	12	4	2	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:129059948G>T	uc004euz.2	+	13	1831	c.1803G>T	c.(1801-1803)GGG>GGT	p.G601G	UTP14A_uc011mup.1_Silent_p.G549G|UTP14A_uc011muq.1_Silent_p.G547G	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	601					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						CTTTTGCTGGGGATGATGTCA	0.507											OREG0019920	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	48	---	---	---	---	PASS	T	129059948	T	T	129059948	2	4	19	1	0	0	0	0	0	0	0	1	17092	1219	43	3		3	UTP14A	23	129059948	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	1139	129059948	26210612	552	9721										
BCORL1	63035	broad.mit.edu	37	chrX	129148793	129148793	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tgtcacctcctgcctgggctCcacttcctcgccctttgtca	7	18	2	0			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:129148793C>G	uc004evb.1	+	4	2159	c.2045C>G	c.(2044-2046)TCC>TGC	p.S682C	BCORL1_uc010nrd.1_Missense_Mutation_p.S584C	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	682					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						TGCCTGGGCTCCACTTCCTCG	0.607													30	117	---	---	---	---	PASS	G	129148793	G	G	129148793	3	3	19	1	0	0	0	0	1	0	0	0	1387	855	30	2	2055	2	BCORL1	23	129148793	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	88845	129148793	26121767	553	9722										
IGSF1	3547	broad.mit.edu	37	chrX	130413316	130413316	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	ttcccagcaaccaggcttctCtagtgagaccagaaaagaga	9	11	1	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:130413316C>G	uc004ewd.2	-	10	1885	c.1647_splice	c.e10-1	p.R549_splice	IGSF1_uc004ewe.3_Splice_Site_p.R538_splice|IGSF1_uc004ewf.2_Splice_Site_p.R529_splice	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1						regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						CCAGGCTTCTCTAGTGAGACC	0.562													25	90	---	---	---	---	PASS	G	130413316	G	G	130413316	5	3	19	1	0	0	0	0	0	0	1	0	7596	927	32	2	2423	2	IGSF1	23	130413316	Splice_Site	SNP	C	TCGA-21-1070-01A-01D-1521-08	1264523	130413316	24857244	554	9723										
MOSPD1	56180	broad.mit.edu	37	chrX	134025618	134025618	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	atcagggctgcaatgcacacCactcccaggaagacagttag	10	12	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:134025618C>A	uc004eyb.2	-	5	688	c.501G>T	c.(499-501)GTG>GTT	p.V167V	MOSPD1_uc004eya.2_Intron|MOSPD1_uc010nrv.2_RNA	NM_019556	NP_062456	Q9UJG1	MSPD1_HUMAN	motile sperm domain containing 1	167	Helical; (Potential).				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	integral to membrane|nucleus|perinuclear region of cytoplasm	structural molecule activity			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(192;0.000127)					CAATGCACACCACTCCCAGGA	0.448													67	187	---	---	---	---	PASS	A	134025618	A	A	134025618	2	1	19	1	0	0	0	0	0	0	0	1	9715	581	21	3		3	MOSPD1	23	134025618	Silent	SNP	C	TCGA-21-1070-01A-01D-1521-08	3612302	134025618	21244942	555	9724										
ZIC3	7547	broad.mit.edu	37	chrX	136648863	136648863	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	tcccacccatgacgatgctcCtggacggaggcccgcagttc	11	16	0	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:136648863C>A	uc004fak.2	+	1	518	c.13C>A	c.(13-15)CTG>ATG	p.L5M		NM_003413	NP_003404	O60481	ZIC3_HUMAN	zinc finger protein of the cerebellum 3	5					cell differentiation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GACGATGCTCCTGGACGGAGG	0.672													6	12	---	---	---	---	PASS	A	136648863	A	A	136648863	3	1	19	1	0	0	0	0	1	0	0	0	17677	680	24	3	15	3	ZIC3	23	136648863	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	2623245	136648863	18621697	556	9725										
SPANXN1	494118	broad.mit.edu	37	chrX	144337227	144337227	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	acagggacttagcccccgaaCcgagtttgaaaaagatgaaa	10	9	0	3			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:144337227C>A	uc004fcb.2	+	2	112	c.112C>A	c.(112-114)CCG>ACG	p.P38T		NM_001009614	NP_001009614	Q5VSR9	SPXN1_HUMAN	SPANX-N1 protein	38											0	Acute lymphoblastic leukemia(192;6.56e-05)					AGCCCCCGAACCGAGTTTGAA	0.403													47	166	---	---	---	---	PASS	A	144337227	A	A	144337227	3	1	19	1	0	0	0	0	1	0	0	0	14990	507	18	3	118	3	SPANXN1	23	144337227	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	7688364	144337227	10933333	557	9726										
PRRG3	79057	broad.mit.edu	37	chrX	150869319	150869319	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	gggggcaggaccacagtccgGctagagagcaccctctacct	13	14	1	1			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:150869319G>T	uc004few.1	+	4	900	c.510G>T	c.(508-510)CGG>CGT	p.R170R		NM_024082	NP_076987	Q9BZD7	TMG3_HUMAN	proline rich Gla (G-carboxyglutamic acid) 3	170	Cytoplasmic (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CCACAGTCCGGCTAGAGAGCA	0.662													25	68	---	---	---	---	PASS	T	150869319	T	T	150869319	2	4	19	1	0	0	0	0	0	0	0	1	12607	1190	42	3		3	PRRG3	23	150869319	Silent	SNP	G	TCGA-21-1070-01A-01D-1521-08	6532092	150869319	4401241	558	9727										
MAGEA4	4103	broad.mit.edu	37	chrX	151093079	151093079	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	cagctttgttagaggaggaaGagggagtctgagcatgagtt	16	4	1	4			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:151093079G>T	uc004fez.2	+	3	1099	c.943G>T	c.(943-945)GAG>TAG	p.E315*	MAGEA4_uc004ffa.2_Nonsense_Mutation_p.E315*|MAGEA4_uc004ffb.2_Nonsense_Mutation_p.E315*|MAGEA4_uc004ffc.2_Nonsense_Mutation_p.E315*|MAGEA4_uc004ffd.2_Nonsense_Mutation_p.E315*	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	315							protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AGAGGAGGAAGAGGGAGTCTG	0.572													64	202	---	---	---	---	PASS	T	151093079	T	T	151093079	4	4	19	1	0	0	0	0	0	1	0	0	9168	943	33	2	945	2	MAGEA4	23	151093079	Nonsense_Mutation	SNP	G	TCGA-21-1070-01A-01D-1521-08	223760	151093079	4177481	559	9728										
PDZD4	57595	broad.mit.edu	37	chrX	153073817	153073817	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.055045871559633	30	0.210230306822849	1.20761347637705	1.31248517300979	1.12870012049499	0.83710147272931	1	0	agctcagagaggacgtacggCtccaggatgaccatgggcgg	16	10	1	2			TCGA-21-1070-01A-01D-1521-08	TCGA-21-1070-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e300205-b16d-4f40-bf1b-f47410678f6d	851d0399-7892-4cd8-af4b-5d3f1bf19b07	g.chrX:153073817C>A	uc004fiz.1	-	2	544	c.294G>T	c.(292-294)GAG>GAT	p.E98D	PDZD4_uc004fiy.1_Missense_Mutation_p.E17D|PDZD4_uc004fix.2_5'UTR|PDZD4_uc004fja.1_Missense_Mutation_p.E98D|PDZD4_uc011mze.1_Intron	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	98						cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGACGTACGGCTCCAGGATGA	0.672													23	59	---	---	---	---	PASS	A	153073817	A	A	153073817	3	1	19	1	0	0	0	0	1	0	0	0	11703	796	28	3	2043	3	PDZD4	23	153073817	Missense_Mutation	SNP	C	TCGA-21-1070-01A-01D-1521-08	1980738	153073817	2196743	560	9729										
CHD5	26038	broad.mit.edu	37	chr1	6185836	6185836	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgagactcactctgcccttcCggcctctcttcaaagtcctc	6	17	4	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:6185836C>T	uc001amb.1	-	27	4261	c.4161G>A	c.(4159-4161)CCG>CCA	p.P1387P	CHD5_uc001alz.1_Silent_p.P244P|CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA|CHD5_uc009vlx.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1387					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		TCTGCCCTTCCGGCCTCTCTT	0.587													28	122	---	---	---	---	PASS	T	6185836	T	T	6185836	2	4	20	1	0	0	0	0	0	0	0	1	3328	639	23	1		1	CHD5	1	6185836	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08		6185836	243064785	1	9730										
SLC25A33	84275	broad.mit.edu	37	chr1	9613682	9613682	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tctgctttggtttcccttacAggtgtggaggcacagttggt	13	8	1	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:9613682A>C	uc001apw.2	+	2	280	c.57_splice	c.e2-2	p.G19_splice	SLC25A33_uc001apx.2_Splice_Site	NM_032315	NP_115691	Q9BSK2	S2533_HUMAN	mitochondrial carrier protein MGC4399						transport	integral to membrane|mitochondrial inner membrane					0	all_lung(157;0.246)	all_epithelial(116;1.16e-18)|all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Breast(348;0.00191)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.01e-08)|COAD - Colon adenocarcinoma(227;1.44e-05)|Kidney(185;0.000262)|KIRC - Kidney renal clear cell carcinoma(229;0.000957)|BRCA - Breast invasive adenocarcinoma(304;0.0019)|STAD - Stomach adenocarcinoma(132;0.00355)|READ - Rectum adenocarcinoma(331;0.0419)		TTTCCCTTACAGGTGTGGAGG	0.408													8	81	---	---	---	---	PASS	C	9613682	C	C	9613682	5	2	20	1	0	0	0	0	0	0	1	0	14497	202	7	5	61	5	SLC25A33	1	9613682	Splice_Site	SNP	A	TCGA-21-1071-01A-01D-1521-08	3427846	9613682	239636939	2	9731										
MACF1	23499	broad.mit.edu	37	chr1	39789864	39789864	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	attttctatttcctattctaGaaagtggtagaagaggagaa	9	4	2	4			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:39789864G>C	uc010ois.1	+	35	4457	c.4252_splice	c.e35-1	p.K1418_splice	MACF1_uc001cda.1_Splice_Site_p.K1326_splice|MACF1_uc001cdc.1_Splice_Site_p.K505_splice|MACF1_uc009vvq.1_Splice_Site_p.K475_splice|MACF1_uc001cdb.1_Splice_Site_p.K505_splice	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker						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)			TCCTATTCTAGAAAGTGGTAG	0.383													4	48	---	---	---	---	PASS	C	39789864	C	C	39789864	5	2	20	1	0	0	0	0	0	0	1	0	9144	956	33	2	4381	2	MACF1	1	39789864	Splice_Site	SNP	G	TCGA-21-1071-01A-01D-1521-08	30176182	39789864	209460757	3	9732										
LRRC7	57554	broad.mit.edu	37	chr1	70503804	70503804	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttgtgttcacaggattgcacCatctttcccacagcctcttg	7	13	3	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:70503804C>A	uc001dep.2	+	19	2213	c.2183C>A	c.(2182-2184)CCA>CAA	p.P728Q	LRRC7_uc009wbg.2_Missense_Mutation_p.P12Q|LRRC7_uc001deq.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	728						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						AGGATTGCACCATCTTTCCCA	0.507													14	158	---	---	---	---	PASS	A	70503804	A	A	70503804	3	1	20	1	0	0	0	0	1	0	0	0	9020	594	21	3	2257	3	LRRC7	1	70503804	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	30713940	70503804	178746817	4	9733										
ELTD1	64123	broad.mit.edu	37	chr1	79403541	79403541	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gtggtcttttggaagctctgGgatatccttaaagtagcttg	12	6	2	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:79403541G>A	uc001diq.3	-	6	867	c.711C>T	c.(709-711)TCC>TCT	p.S237S		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	237	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)		GGAAGCTCTGGGATATCCTTA	0.363													15	219	---	---	---	---	PASS	A	79403541	A	A	79403541	2	1	20	1	0	0	0	0	0	0	0	1	5084	1219	43	3		3	ELTD1	1	79403541	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	8899737	79403541	169847080	5	9734										
HMGCS2	3158	broad.mit.edu	37	chr1	120295955	120295955	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aagaaacttgctgctaaaccAgagccataagagaaggcacc	9	10	0	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:120295955A>G	uc001eid.2	-	7	1293	c.1242T>C	c.(1240-1242)TCT>TCC	p.S414S	HMGCS2_uc010oxj.1_Silent_p.S372S|HMGCS2_uc001eie.2_Silent_p.S322S	NM_005518	NP_005509	P54868	HMCS2_HUMAN	hydroxymethylglutaryl-CoA synthase 2 isoform 1	414					acetoacetic acid biosynthetic process|cholesterol biosynthetic process|isoprenoid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA synthase activity			ovary(2)	2	all_cancers(5;6.38e-10)|all_epithelial(5;1.1e-10)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;1.29e-06)|Lung NSC(69;9.35e-06)|all_epithelial(167;0.00124)		Lung(183;0.0112)|LUSC - Lung squamous cell carcinoma(189;0.0595)		CTGCTAAACCAGAGCCATAAG	0.418													4	39	---	---	---	---	PASS	G	120295955	G	G	120295955	2	3	20	1	0	0	0	0	0	0	0	1	7233	175	7	5		5	HMGCS2	1	120295955	Silent	SNP	A	TCGA-21-1071-01A-01D-1521-08	40892414	120295955	128954666	6	9735										
HRNR	388697	broad.mit.edu	37	chr1	152187706	152187706	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gatctagagccgtgttgtccGtagccagaggagtgacctga	14	9	1	4			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:152187706G>T	uc001ezt.1	-	3	6475	c.6399C>A	c.(6397-6399)TAC>TAA	p.Y2133*		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2133					keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGTGTTGTCCGTAGCCAGAGG	0.567													49	586	---	---	---	---	PASS	T	152187706	T	T	152187706	4	4	20	1	0	0	0	0	0	1	0	0	7359	1140	40	1	2157	1	HRNR	1	152187706	Nonsense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	31891751	152187706	97062915	7	9736										
FLG2	388698	broad.mit.edu	37	chr1	152328052	152328052	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cagaggactgacctgagcctGatccatgttggccaaagctg	12	11	0	4			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:152328052G>A	uc001ezw.3	-	3	2283	c.2210C>T	c.(2209-2211)TCA>TTA	p.S737L	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	737	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACCTGAGCCTGATCCATGTTG	0.498													38	562	---	---	---	---	PASS	A	152328052	A	A	152328052	3	1	20	1	0	0	0	0	1	0	0	0	5923	1294	45	2	4969	2	FLG2	1	152328052	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	140346	152328052	96922569	8	9737										
GON4L	54856	broad.mit.edu	37	chr1	155783432	155783432	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttttaatatttacctggaaaGaatccatgcagactggactg	8	7	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:155783432G>A	uc001flz.2	-	10	1542	c.1445C>T	c.(1444-1446)TCT>TTT	p.S482F	GON4L_uc001fly.1_Missense_Mutation_p.S482F|GON4L_uc009wrh.1_Missense_Mutation_p.S482F|GON4L_uc001fma.1_Missense_Mutation_p.S482F|GON4L_uc001fmc.2_Missense_Mutation_p.S482F|GON4L_uc001fmd.3_Missense_Mutation_p.S482F|GON4L_uc009wri.2_Missense_Mutation_p.S68F|GON4L_uc001fme.2_Missense_Mutation_p.S310F|GON4L_uc001fmf.2_Missense_Mutation_p.S176F	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	482					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TACCTGGAAAGAATCCATGCA	0.448													17	113	---	---	---	---	PASS	A	155783432	A	A	155783432	3	1	20	1	0	0	0	0	1	0	0	0	6572	942	33	2	5486	2	GON4L	1	155783432	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	3455380	155783432	93467189	9	9738										
ARHGEF2	9181	broad.mit.edu	37	chr1	155934856	155934856	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgtccacagcaagactccaaGagtcagctgcaaagtccttc	8	13	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:155934856G>C	uc001fmt.2	-	7	765	c.647C>G	c.(646-648)TCT>TGT	p.S216C	ARHGEF2_uc001fmr.2_Missense_Mutation_p.S188C|ARHGEF2_uc001fms.2_Missense_Mutation_p.S215C|ARHGEF2_uc001fmu.2_Missense_Mutation_p.S260C|ARHGEF2_uc010pgt.1_Missense_Mutation_p.S189C|ARHGEF2_uc010pgu.1_Missense_Mutation_p.S261C	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	216					actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					AAGACTCCAAGAGTCAGCTGC	0.488													5	127	---	---	---	---	PASS	C	155934856	C	C	155934856	3	2	20	1	0	0	0	0	1	0	0	0	903	942	33	2	2377	2	ARHGEF2	1	155934856	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	151424	155934856	93315765	10	9739										
IQGAP3	128239	broad.mit.edu	37	chr1	156510565	156510565	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	catgatgttgaggtcctgctCcagctgctgattggatcgga	13	9	0	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:156510565C>G	uc001fpf.2	-	23	2749	c.2674G>C	c.(2674-2676)GAG>CAG	p.E892Q		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	892					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGGTCCTGCTCCAGCTGCTGA	0.547													45	72	---	---	---	---	PASS	G	156510565	G	G	156510565	3	3	20	1	0	0	0	0	1	0	0	0	7816	864	30	2	2285	2	IQGAP3	1	156510565	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	575709	156510565	92740056	11	9740										
MNDA	4332	broad.mit.edu	37	chr1	158813762	158813762	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cagaaaagaaaaactccaaaCaaagaaaagactgaagccaa	6	8	0	5			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:158813762C>A	uc001fsz.1	+	4	620	c.420C>A	c.(418-420)AAC>AAA	p.N140K		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	140					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					AAACTCCAAACAAAGAAAAGA	0.408													8	153	---	---	---	---	PASS	A	158813762	A	A	158813762	3	1	20	1	0	0	0	0	1	0	0	0	9676	477	17	3	430	3	MNDA	1	158813762	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	2303197	158813762	90436859	12	9741										
TMCO1	54499	broad.mit.edu	37	chr1	165712508	165712508	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cagtccttggatgtaagaaaGaggggtaaaaggaagctttg	14	4	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:165712508G>C	uc001gdj.3	-	6	513	c.364C>G	c.(364-366)CTT>GTT	p.L122V	TMCO1_uc001gdl.3_Missense_Mutation_p.L38V|TMCO1_uc001gdm.3_Missense_Mutation_p.L38V|TMCO1_uc001gdk.3_Missense_Mutation_p.L110V|TMCO1_uc001gdn.3_RNA	NM_019026	NP_061899	Q9UM00	TMCO1_HUMAN	transmembrane and coiled-coil domains 1	122						endoplasmic reticulum membrane|Golgi membrane|integral to membrane				central_nervous_system(1)	1	all_hematologic(923;0.048)|Acute lymphoblastic leukemia(8;0.155)					ATGTAAGAAAGAGGGGTAAAA	0.373													3	81	---	---	---	---	PASS	C	165712508	C	C	165712508	3	2	20	1	0	0	0	0	1	0	0	0	15992	942	33	2	210	2	TMCO1	1	165712508	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	6898746	165712508	83538113	13	9742										
KCNT2	343450	broad.mit.edu	37	chr1	196309572	196309572	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ggtcttggtttttaaatgctGaattctcttctttggtaata	8	5	3	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:196309572G>A	uc001gtd.1	-	16	1742	c.1682C>T	c.(1681-1683)TCA>TTA	p.S561L	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.S511L|KCNT2_uc001gtf.1_Missense_Mutation_p.S561L|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.S561L|KCNT2_uc001gth.1_Missense_Mutation_p.S82L	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	561	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TTTAAATGCTGAATTCTCTTC	0.358													8	149	---	---	---	---	PASS	A	196309572	A	A	196309572	3	1	20	1	0	0	0	0	1	0	0	0	8092	1294	45	2	1777	2	KCNT2	1	196309572	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	30597064	196309572	52941049	14	9743										
CRB1	23418	broad.mit.edu	37	chr1	197404300	197404300	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gtctaagtacaatagaaatcGgaggcatttatctctcttac	7	8	3	1	rs62636275		TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:197404300G>C	uc001gtz.2	+	9	3442	c.3307G>C	c.(3307-3309)GGA>CGA	p.G1103R	CRB1_uc010poz.1_Missense_Mutation_p.G1079R|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.G991R|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.G584R|CRB1_uc001gub.1_Missense_Mutation_p.G752R	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1103	Extracellular (Potential).|Laminin G-like 3.		G -> R (in LCA8 and RP12).		cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						AATAGAAATCGGAGGCATTTA	0.368													64	46	---	---	---	---	PASS	C	197404300	C	C	197404300	3	2	20	1	0	0	0	0	1	0	0	0	3848	1117	39	4	3341	4	CRB1	1	197404300	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	1094728	197404300	51846321	15	9744										
MYBPH	4608	broad.mit.edu	37	chr1	203144577	203144577	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ccagggtcagcagcagtgggGcactggggacatctggggag	19	9	2	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:203144577G>T	uc001gzh.1	-	2	277	c.218C>A	c.(217-219)GCC>GAC	p.A73D	FMOD_uc010pqi.1_Intron	NM_004997	NP_004988	Q13203	MYBPH_HUMAN	myosin binding protein H	73	Fibronectin type-III 1.				cell adhesion|regulation of striated muscle contraction	myosin filament	structural constituent of muscle				0			BRCA - Breast invasive adenocarcinoma(75;0.153)	Colorectal(1306;0.0306)		CAGCAGTGGGGCACTGGGGAC	0.642													70	88	---	---	---	---	PASS	T	203144577	T	T	203144577	3	4	20	1	0	0	0	0	1	0	0	0	10014	1203	42	3	1251	3	MYBPH	1	203144577	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	5740277	203144577	46106044	16	9745										
C1orf74	148304	broad.mit.edu	37	chr1	209956220	209956220	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ctcagaggagatgctgagatCagcaaagtcattctgagtcc	11	9	4	4			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:209956220C>T	uc001hhp.1	-	2	1003	c.760G>A	c.(760-762)GAT>AAT	p.D254N		NM_152485	NP_689698	Q96LT6	CA074_HUMAN	hypothetical protein LOC148304	254										skin(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0328)		ATGCTGAGATCAGCAAAGTCA	0.478													9	171	---	---	---	---	PASS	T	209956220	T	T	209956220	3	4	20	1	0	0	0	0	1	0	0	0	2058	826	29	2	53	2	C1orf74	1	209956220	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	6811643	209956220	39294401	17	9746										
MTR	4548	broad.mit.edu	37	chr1	237060905	237060905	+	Missense_Mutation	SNP	G	T	T													0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	atatctgtggctgaggttgaGaaatggcttggacccatttt							TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:237060905G>T	uc001hyi.3	+	33	4182	c.3759G>T	c.(3757-3759)GAG>GAT	p.E1253D	MTR_uc010pxw.1_Missense_Mutation_p.E846D|MTR_uc010pxx.1_Missense_Mutation_p.E1202D|MTR_uc010pxy.1_Missense_Mutation_p.E1107D	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	1253	AdoMet activation.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	CTGAGGTTGAGAAATGGCTTG	0.348													8	265	---	---	---	---	PASS	T	237060905	T	T	237060905	3	4	20	1	0	0	0	0	1	0	0	0	9958	933	33	2	3889	2	MTR	1	237060905	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	27104685	237060905	12189716	18	9747	285	2								
MTR	4548	broad.mit.edu	37	chr1	237060906	237060906	+	Missense_Mutation	SNP	A	G	G													0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tatctgtggctgaggttgagAaatggcttggacccattttg							TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:237060906A>G	uc001hyi.3	+	33	4183	c.3760A>G	c.(3760-3762)AAA>GAA	p.K1254E	MTR_uc010pxw.1_Missense_Mutation_p.K847E|MTR_uc010pxx.1_Missense_Mutation_p.K1203E|MTR_uc010pxy.1_Missense_Mutation_p.K1108E	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	1254	AdoMet activation.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	TGAGGTTGAGAAATGGCTTGG	0.353													8	268	---	---	---	---	PASS	G	237060906	G	G	237060906	3	3	20	1	0	0	0	0	1	0	0	0	9958	247	9	5	3890	5	MTR	1	237060906	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	1	237060906	12189715	19	9748	285	2								
RYR2	6262	broad.mit.edu	37	chr1	237838130	237838130	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tatgtggatgaagcccatcaGtatatcctggagtttggtag	12	6	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr1:237838130G>C	uc001hyl.1	+	60	8934	c.8814G>C	c.(8812-8814)CAG>CAC	p.Q2938H	RYR2_uc010pxz.1_5'UTR	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2938	Modulator (Potential).|Cytoplasmic (By similarity).				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)			AAGCCCATCAGTATATCCTGG	0.418													25	24	---	---	---	---	PASS	C	237838130	C	C	237838130	3	2	20	1	0	0	0	0	1	0	0	0	13769	1020	36	4	9052	4	RYR2	1	237838130	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	777224	237838130	11412491	20	9749										
C2orf34	79823	broad.mit.edu	37	chr2	44617434	44617434	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cttaccagctttgacaatacAggaaatgtttgtaagttata	7	6	0	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:44617434A>T	uc002rum.2	+	3	470	c.366A>T	c.(364-366)ACA>ACT	p.T122T	C2orf34_uc002rul.2_Silent_p.T122T	NM_024766	NP_079042	Q7Z624	CMKMT_HUMAN	hypothetical protein LOC79823	122						cytoplasm	calmodulin-lysine N-methyltransferase activity				0		all_hematologic(82;0.0892)|Acute lymphoblastic leukemia(82;0.17)				TTGACAATACAGGAAATGTTT	0.289													54	56	---	---	---	---	PASS	T	44617434	T	T	44617434	2	4	20	1	0	0	0	0	0	0	0	1	2163	175	7	5		5	C2orf34	2	44617434	Silent	SNP	A	TCGA-21-1071-01A-01D-1521-08		44617434	198581939	21	9750										
NRXN1	9378	broad.mit.edu	37	chr2	51254867	51254867	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ccctcacgtcacgaatccacCccttgaagggctcccgctcc	7	20	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:51254867C>A	uc010fbq.2	-	2	2022	c.545G>T	c.(544-546)GGG>GTG	p.G182V	NRXN1_uc002rxe.3_Missense_Mutation_p.G182V|NRXN1_uc002rxd.1_Missense_Mutation_p.G182V	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	230	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			ACGAATCCACCCCTTGAAGGG	0.697													4	21	---	---	---	---	PASS	A	51254867	A	A	51254867	3	1	20	1	0	0	0	0	1	0	0	0	10665	623	22	3	4453	3	NRXN1	2	51254867	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	6637433	51254867	191944506	22	9751										
DYSF	8291	broad.mit.edu	37	chr2	71838722	71838722	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	caggaacctccggaagaaccCcaactttgacatctgcaccc	7	16	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:71838722C>T	uc002sie.2	+	38	4509	c.4133C>T	c.(4132-4134)CCC>CTC	p.P1378L	DYSF_uc010feg.2_Missense_Mutation_p.P1409L|DYSF_uc010feh.2_Missense_Mutation_p.P1364L|DYSF_uc002sig.3_Missense_Mutation_p.P1364L|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.P1378L|DYSF_uc010fef.2_Missense_Mutation_p.P1395L|DYSF_uc010fei.2_Missense_Mutation_p.P1395L|DYSF_uc010fek.2_Missense_Mutation_p.P1396L|DYSF_uc010fej.2_Missense_Mutation_p.P1365L|DYSF_uc010fel.2_Missense_Mutation_p.P1365L|DYSF_uc010feo.2_Missense_Mutation_p.P1410L|DYSF_uc010fem.2_Missense_Mutation_p.P1379L|DYSF_uc010fen.2_Missense_Mutation_p.P1396L|DYSF_uc002sif.2_Missense_Mutation_p.P1379L|DYSF_uc010yqy.1_Missense_Mutation_p.P259L|DYSF_uc010yqz.1_Missense_Mutation_p.P118L	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1378	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CGGAAGAACCCCAACTTTGAC	0.582													28	45	---	---	---	---	PASS	T	71838722	T	T	71838722	3	4	20	1	0	0	0	0	1	0	0	0	4859	623	22	3	4475	3	DYSF	2	71838722	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	20583855	71838722	171360651	23	9752										
ALMS1	7840	broad.mit.edu	37	chr2	73717175	73717175	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cacctaaagaagtggattttCattcttcatcacaaatgccg	6	10	4	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:73717175C>T	uc002sje.1	+	12	8203	c.8092C>T	c.(8092-8094)CAT>TAT	p.H2698Y	ALMS1_uc002sjf.1_Missense_Mutation_p.H2654Y|ALMS1_uc002sjg.2_Missense_Mutation_p.H2084Y|ALMS1_uc002sjh.1_Missense_Mutation_p.H2084Y	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2696					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AGTGGATTTTCATTCTTCATC	0.413													46	317	---	---	---	---	PASS	T	73717175	T	T	73717175	3	4	20	1	0	0	0	0	1	0	0	0	535	826	29	2	8124	2	ALMS1	2	73717175	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	1878453	73717175	169482198	24	9753										
C2orf55	343990	broad.mit.edu	37	chr2	99413924	99413924	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aaggtccccctccgcttctgCcgagtgacggtgatccaggg	13	14	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:99413924C>T	uc002szf.1	-	8	2787	c.2493G>A	c.(2491-2493)CGG>CGA	p.R831R		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	831											0						TCCGCTTCTGCCGAGTGACGG	0.612													5	158	---	---	---	---	PASS	T	99413924	T	T	99413924	2	4	20	1	0	0	0	0	0	0	0	1	2176	726	26	3		3	C2orf55	2	99413924	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	25696749	99413924	143785449	25	9754										
NCK2	8440	broad.mit.edu	37	chr2	106498233	106498233	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gggagaccatggaggtgattGagaagccggagaacgacccc	16	9	0	4			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:106498233G>C	uc002tdg.2	+	4	1118	c.676G>C	c.(676-678)GAG>CAG	p.E226Q	NCK2_uc002tdh.2_Intron|NCK2_uc002tdi.2_Missense_Mutation_p.E226Q	NM_003581	NP_003572	O43639	NCK2_HUMAN	NCK adaptor protein 2 isoform A	226	SH3 3.				axon guidance|epidermal growth factor receptor signaling pathway|negative regulation of cell proliferation|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of epidermal growth factor receptor activity|regulation of translation|signal complex assembly|T cell activation	cytosol|endoplasmic reticulum	cytoskeletal adaptor activity|receptor signaling complex scaffold activity			ovary(1)|lung(1)	2						GGAGGTGATTGAGAAGCCGGA	0.617													4	136	---	---	---	---	PASS	C	106498233	C	C	106498233	3	2	20	1	0	0	0	0	1	0	0	0	10220	1291	45	2	682	2	NCK2	2	106498233	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	7084309	106498233	136701140	26	9755										
TMEM87B	84910	broad.mit.edu	37	chr2	112858261	112858261	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgaggaattcatggtaacttCtgaaaatttaagtgagtaat	9	3	2	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:112858261C>T	uc002thm.2	+	15	1808	c.1439C>T	c.(1438-1440)TCT>TTT	p.S480F		NM_032824	NP_116213	Q96K49	TM87B_HUMAN	transmembrane protein 87B precursor	480						integral to membrane					0						ATGGTAACTTCTGAAAATTTA	0.308													16	77	---	---	---	---	PASS	T	112858261	T	T	112858261	3	4	20	1	0	0	0	0	1	0	0	0	16208	913	32	2	1497	2	TMEM87B	2	112858261	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	6360028	112858261	130341112	27	9756										
DPP10	57628	broad.mit.edu	37	chr2	116101447	116101447	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tttggaagacctctttaggaAagactttgtgcttcacgatc	9	8	2	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:116101447A>T	uc002tla.1	+	3	687	c.230A>T	c.(229-231)AAA>ATA	p.K77I	DPP10_uc002tlb.1_Missense_Mutation_p.K27I|DPP10_uc002tlc.1_Missense_Mutation_p.K73I|DPP10_uc002tle.2_Missense_Mutation_p.K81I|DPP10_uc002tlf.1_Missense_Mutation_p.K70I	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	77	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						CTCTTTAGGAAAGACTTTGTG	0.338													8	100	---	---	---	---	PASS	T	116101447	T	T	116101447	3	4	20	1	0	0	0	0	1	0	0	0	4727	14	1	5	411	5	DPP10	2	116101447	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	3243186	116101447	127097926	28	9757										
NFE2L2	4780	broad.mit.edu	37	chr2	178098806	178098806	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gaattgggagaaattcacctGtctcttcatctagttgtaac	8	8	4	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:178098806G>T	uc002ulh.3	-	2	794	c.239C>A	c.(238-240)ACA>AAA	p.T80K	NFE2L2_uc002ulg.3_Missense_Mutation_p.T64K|NFE2L2_uc010zfa.1_Missense_Mutation_p.T64K|NFE2L2_uc002uli.3_Missense_Mutation_p.T64K|NFE2L2_uc010fra.2_Missense_Mutation_p.T64K|NFE2L2_uc010frb.2_Missense_Mutation_p.T64K	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	80				T->A: Loss of interaction with KEAP1.	transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			AAATTCACCTGTCTCTTCATC	0.443			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			91	94	---	---	---	---	PASS	T	178098806	T	T	178098806	3	4	20	1	0	0	0	0	1	0	0	0	10368	1377	48	3	1594	3	NFE2L2	2	178098806	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	61997359	178098806	65100567	29	9758										
DFNB59	494513	broad.mit.edu	37	chr2	179325085	179325085	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttttttgtagacctttgtgtCacttcagtgtcaaaaggagg	10	6	3	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:179325085C>T	uc002umi.3	+	6	1034	c.678C>T	c.(676-678)GTC>GTT	p.V226V	DFNB59_uc002umj.3_Silent_p.V226V	NM_001042702	NP_001036167	Q0ZLH3	PJVK_HUMAN	deafness, autosomal recessive 59	226					sensory perception of sound						0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			ACCTTTGTGTCACTTCAGTGT	0.318													9	54	---	---	---	---	PASS	T	179325085	T	T	179325085	2	4	20	1	0	0	0	0	0	0	0	1	4456	813	29	2		2	DFNB59	2	179325085	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	1226279	179325085	63874288	30	9759										
PDE1A	5136	broad.mit.edu	37	chr2	183050765	183050765	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	agccttttgtatttgatcgtCttagtgcatcagcaatgtgt	9	7	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:183050765C>T	uc002uos.2	-	14	1502	c.1418G>A	c.(1417-1419)AGA>AAA	p.R473K	PDE1A_uc010zfp.1_Missense_Mutation_p.R369K|PDE1A_uc002uoq.1_Missense_Mutation_p.R473K|PDE1A_uc010zfq.1_Missense_Mutation_p.R473K|PDE1A_uc002uor.2_Missense_Mutation_p.R457K|PDE1A_uc002uou.2_Missense_Mutation_p.R439K	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	473	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			ATTTGATCGTCTTAGTGCATC	0.458													17	57	---	---	---	---	PASS	T	183050765	T	T	183050765	3	4	20	1	0	0	0	0	1	0	0	0	11633	913	32	2	275	2	PDE1A	2	183050765	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	3725680	183050765	60148608	31	9760										
ANKAR	150709	broad.mit.edu	37	chr2	190569787	190569787	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttgctgcacaggcttgctcaTtagaaacaacagtttgtcta	8	9	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:190569787T>G	uc002uqw.1	+	7	1534	c.1534T>G	c.(1534-1536)TTA>GTA	p.L512V	ANKAR_uc002uqu.2_RNA	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	583	ANK 2.					integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			GGCTTGCTCATTAGAAACAAC	0.423													45	77	---	---	---	---	PASS	G	190569787	G	G	190569787	3	3	20	1	0	0	0	0	1	0	0	0	623	1490	52	5	1773	5	ANKAR	2	190569787	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	7519022	190569787	52629586	32	9761										
DNAH7	56171	broad.mit.edu	37	chr2	196602694	196602694	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cacctcgtccaatccagtgtTccttgggttggtcagaggga	12	11	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:196602694T>G	uc002utj.3	-	65	12127	c.12026A>C	c.(12025-12027)GAA>GCA	p.E4009A	DNAH7_uc002uti.3_Missense_Mutation_p.E492A	NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	4009					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AATCCAGTGTTCCTTGGGTTG	0.443													37	50	---	---	---	---	PASS	G	196602694	G	G	196602694	3	3	20	1	0	0	0	0	1	0	0	0	4606	1783	62	5	52	5	DNAH7	2	196602694	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	6032907	196602694	46596679	33	9762										
ZDBF2	57683	broad.mit.edu	37	chr2	207172827	207172827	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgaactagaaggtaagcacaAtcaatgttgtggttctgaag	11	5	2	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:207172827A>G	uc002vbp.2	+	5	3825	c.3575A>G	c.(3574-3576)AAT>AGT	p.N1192S		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1192							nucleic acid binding|zinc ion binding			ovary(3)	3						GGTAAGCACAATCAATGTTGT	0.408													43	66	---	---	---	---	PASS	G	207172827	G	G	207172827	3	3	20	1	0	0	0	0	1	0	0	0	17596	101	4	5	3585	5	ZDBF2	2	207172827	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	10570133	207172827	36026546	34	9763										
CPS1	1373	broad.mit.edu	37	chr2	211513234	211513234	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgcaaagtctgtggactaccCctgcttgttgaggccttcct	10	12	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:211513234C>A	uc002vee.3	+	27	3506	c.3374C>A	c.(3373-3375)CCC>CAC	p.P1125H	CPS1_uc010fur.2_Missense_Mutation_p.P1131H|CPS1_uc010fus.2_Missense_Mutation_p.P674H	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1125	ATP-grasp 2.				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)		GTGGACTACCCCTGCTTGTTG	0.328													56	121	---	---	---	---	PASS	A	211513234	A	A	211513234	3	1	20	1	0	0	0	0	1	0	0	0	3823	623	22	3	3502	3	CPS1	2	211513234	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	4340407	211513234	31686139	35	9764										
SPHKAP	80309	broad.mit.edu	37	chr2	228996798	228996798	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tacatccgtgatgactccaaGttgctgtttgtgacccaaaa	8	10	0	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr2:228996798G>T	uc002vpq.2	-	2	83	c.36C>A	c.(34-36)AAC>AAA	p.N12K	SPHKAP_uc002vpp.2_Missense_Mutation_p.N12K|SPHKAP_uc010zlx.1_Missense_Mutation_p.N12K	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	12						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		ATGACTCCAAGTTGCTGTTTG	0.443													13	99	---	---	---	---	PASS	T	228996798	T	T	228996798	3	4	20	1	0	0	0	0	1	0	0	0	15047	1020	36	3	5110	3	SPHKAP	2	228996798	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	17483564	228996798	14202575	36	9765										
SETD5	55209	broad.mit.edu	37	chr3	9506324	9506324	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cagtcacatctcttactactGctagtcgctgcaacactcct	5	15	2	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr3:9506324G>A	uc003brt.2	+	18	3127	c.2692G>A	c.(2692-2694)GCT>ACT	p.A898T	SETD5_uc003brs.1_Missense_Mutation_p.A879T|SETD5_uc003bru.2_Missense_Mutation_p.A800T|SETD5_uc003brv.2_Missense_Mutation_p.A787T|SETD5_uc010hck.2_Missense_Mutation_p.A380T|SETD5_uc003brx.2_Missense_Mutation_p.A567T	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	898										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		TCTTACTACTGCTAGTCGCTG	0.473													57	115	---	---	---	---	PASS	A	9506324	A	A	9506324	3	1	20	1	0	0	0	0	1	0	0	0	14134	1319	46	3	2754	3	SETD5	3	9506324	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08		9506324	188516106	37	9766										
BRPF1	7862	broad.mit.edu	37	chr3	9788941	9788941	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	agggccgcaagtccaacatcCgcaagtcagtacagatcgcc	10	14	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr3:9788941C>T	uc003bse.2	+	14	3952	c.3553C>T	c.(3553-3555)CGC>TGC	p.R1185C	BRPF1_uc003bsf.2_Missense_Mutation_p.R1191C|BRPF1_uc003bsg.2_Missense_Mutation_p.R1184C|BRPF1_uc011ati.1_Missense_Mutation_p.R1090C|OGG1_uc003bsh.2_5'Flank|OGG1_uc003bsi.2_5'Flank|OGG1_uc003bsj.2_5'Flank|OGG1_uc003bsk.2_5'Flank|OGG1_uc003bsl.2_5'Flank|OGG1_uc003bsm.2_5'Flank|OGG1_uc003bsn.2_5'Flank|OGG1_uc003bso.2_5'Flank	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	1185					histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					GTCCAACATCCGCAAGTCAGT	0.572													13	122	---	---	---	---	PASS	T	9788941	T	T	9788941	3	4	20	1	0	0	0	0	1	0	0	0	1520	652	23	1	3621	1	BRPF1	3	9788941	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	282617	9788941	188233489	38	9767										
NISCH	11188	broad.mit.edu	37	chr3	52522260	52522260	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgctcacgccccagcacctcAacgtcatcaaggccgacttc	7	18	4	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr3:52522260A>T	uc011beg.1	+	17	2824	c.2752A>T	c.(2752-2754)AAC>TAC	p.N918Y	NISCH_uc003ded.3_Missense_Mutation_p.N918Y|NISCH_uc003dee.3_Missense_Mutation_p.N407Y|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_5'Flank	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	918					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		CCAGCACCTCAACGTCATCAA	0.647													7	40	---	---	---	---	PASS	T	52522260	T	T	52522260	3	4	20	1	0	0	0	0	1	0	0	0	10432	130	5	5	2814	5	NISCH	3	52522260	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	42733319	52522260	145500170	39	9768										
ROBO2	6092	broad.mit.edu	37	chr3	77542433	77542433	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ggaggccaattaaccaggtgGtactggaggaagaagctgta	15	6	0	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr3:77542433G>C	uc003dpy.3	+	5	1349	c.706G>C	c.(706-708)GTA>CTA	p.V236L	ROBO2_uc003dpz.2_Missense_Mutation_p.V236L|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.V236L	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	236	Ig-like C2-type 3.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		TAACCAGGTGGTACTGGAGGA	0.403													14	100	---	---	---	---	PASS	C	77542433	C	C	77542433	3	2	20	1	0	0	0	0	1	0	0	0	13514	1261	44	4	726	4	ROBO2	3	77542433	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	25020173	77542433	120479997	40	9769										
POU1F1	5449	broad.mit.edu	37	chr3	87311291	87311291	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttgcatgcatttttaaagctGagctgcagattttcaaatcg	8	7	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr3:87311291G>A	uc003dqq.1	-	4	659	c.534C>T	c.(532-534)CTC>CTT	p.L178L	POU1F1_uc010hoj.1_Silent_p.L204L	NM_000306	NP_000297	P28069	PIT1_HUMAN	pituitary specific transcription factor 1	178	POU-specific.				negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)|skin(1)	2	all_cancers(8;0.104)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00229)|Lung(72;0.00677)		TTTTAAAGCTGAGCTGCAGAT	0.453													4	116	---	---	---	---	PASS	A	87311291	A	A	87311291	2	1	20	1	0	0	0	0	0	0	0	1	12269	1277	45	2		2	POU1F1	3	87311291	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	9768858	87311291	110711139	41	9770										
NFKBIZ	64332	broad.mit.edu	37	chr3	101576185	101576185	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgctgccagcttgcagtatcGgttgacacaattagatgctg	11	9	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr3:101576185G>A	uc003dvp.2	+	11	2100	c.1985G>A	c.(1984-1986)CGG>CAG	p.R662Q	NFKBIZ_uc003dvo.2_Missense_Mutation_p.R562Q|NFKBIZ_uc010hpo.2_Missense_Mutation_p.R562Q|NFKBIZ_uc003dvq.2_Missense_Mutation_p.R540Q	NM_031419	NP_113607	Q9BYH8	IKBZ_HUMAN	nuclear factor of kappa light polypeptide gene	662	Interaction with NFKB1/p50 (By similarity).|ANK 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(2)	2						TTGCAGTATCGGTTGACACAA	0.483													16	156	---	---	---	---	PASS	A	101576185	A	A	101576185	3	1	20	1	0	0	0	0	1	0	0	0	10383	1116	39	1	2027	1	NFKBIZ	3	101576185	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	14264894	101576185	96446245	42	9771										
IGSF11	152404	broad.mit.edu	37	chr3	118624493	118624493	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgctggttccaatagcattaGaagccacgcactggtacaaa	9	10	0	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr3:118624493G>C	uc003ebw.2	-	5	900	c.653C>G	c.(652-654)TCT>TGT	p.S218C	IGSF11_uc011biv.1_Missense_Mutation_p.S218C|IGSF11_uc003ebx.2_Intron|IGSF11_uc003eby.2_Missense_Mutation_p.S217C|IGSF11_uc003ebz.2_Intron|IGSF11_uc010hqs.2_Missense_Mutation_p.S217C	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	218	Ig-like C2-type.|Extracellular (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						AATAGCATTAGAAGCCACGCA	0.463													7	162	---	---	---	---	PASS	C	118624493	C	C	118624493	3	2	20	1	0	0	0	0	1	0	0	0	7598	942	33	2	654	2	IGSF11	3	118624493	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	17048308	118624493	79397937	43	9772										
SLC15A2	6565	broad.mit.edu	37	chr3	121643880	121643880	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	caagtgtggaattaacttctCgtaagtgttcactatgtctg	9	7	3	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr3:121643880C>T	uc003eep.2	+	13	1277	c.1124C>T	c.(1123-1125)TCA>TTA	p.S375L	SLC15A2_uc011bjn.1_Missense_Mutation_p.S344L	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a	375					protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	ATTAACTTCTCGTAAGTGTTC	0.378													70	409	---	---	---	---	PASS	T	121643880	T	T	121643880	3	4	20	1	0	0	0	0	1	0	0	0	14399	898	31	2	1174	2	SLC15A2	3	121643880	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	3019387	121643880	76378550	44	9773										
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	atcctctctctgaaatcactGagcaggagaaagattttcta	7	9	4	4	rs104886003		TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			48	77	---	---	---	---	PASS	A	178936091	A	A	178936091	3	1	20	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	57292211	178936091	19086339	45	9774										
C3orf59	151963	broad.mit.edu	37	chr3	192635435	192635435	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttacccagcatggaaaagatGaaatccttggctgtgtgaat	10	7	0	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr3:192635435G>T	uc011bsp.1	-	1	516	c.195C>A	c.(193-195)TTC>TTA	p.F65L		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	65											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		TGGAAAAGATGAAATCCTTGG	0.453													10	137	---	---	---	---	PASS	T	192635435	T	T	192635435	3	4	20	1	0	0	0	0	1	0	0	0	2237	1281	45	2	1288	2	C3orf59	3	192635435	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	13699344	192635435	5386995	46	9775										
HTT	3064	broad.mit.edu	37	chr4	3134309	3134309	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aggaacagtatgtctcagacAtcttgaactacatcgatcat	7	9	3	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr4:3134309A>G	uc011bvq.1	+	18	2408	c.2263A>G	c.(2263-2265)ATC>GTC	p.I755V		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	753					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		TGTCTCAGACATCTTGAACTA	0.478													6	42	---	---	---	---	PASS	G	3134309	G	G	3134309	3	3	20	1	0	0	0	0	1	0	0	0	7457	217	8	5	2323	5	HTT	4	3134309	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08		3134309	188019967	47	9776										
LYAR	55646	broad.mit.edu	37	chr4	4269734	4269734	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gatgctcatctgtcactgtgTagtactgagctaaaaccttc	8	10	3	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr4:4269734T>C	uc011bvy.1	-	10	1165	c.1022A>G	c.(1021-1023)TAC>TGC	p.Y341C	LYAR_uc011bvx.1_Missense_Mutation_p.Y224C|LYAR_uc003ght.2_Missense_Mutation_p.Y341C	NM_001145725	NP_001139197	Q9NX58	LYAR_HUMAN	Ly1 antibody reactive homolog	341	Lys-rich.					nucleolus	metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TGTCACTGTGTAGTACTGAGC	0.353													11	38	---	---	---	---	PASS	C	4269734	C	C	4269734	3	2	20	1	0	0	0	0	1	0	0	0	9103	1638	57	5	121	5	LYAR	4	4269734	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	1135425	4269734	186884542	48	9777										
GNPDA2	132789	broad.mit.edu	37	chr4	44713069	44713069	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttggcatttgccaagatggtAtccattgctagagtctttaa	9	7	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr4:44713069A>C	uc003gwy.2	-	5	652	c.495T>G	c.(493-495)GAT>GAG	p.D165E	GNPDA2_uc010iga.2_Missense_Mutation_p.D131E|GNPDA2_uc011bzb.1_Missense_Mutation_p.D95E|GNPDA2_uc003gwz.1_Missense_Mutation_p.D165E	NM_138335	NP_612208	Q8TDQ7	GNPI2_HUMAN	glucosamine-6-phosphate deaminase 2	165					N-acetylglucosamine metabolic process	cytoplasm	glucosamine-6-phosphate deaminase activity|hydrolase activity			ovary(1)	1						CCAAGATGGTATCCATTGCTA	0.403													11	78	---	---	---	---	PASS	C	44713069	C	C	44713069	3	2	20	1	0	0	0	0	1	0	0	0	6543	446	16	5	347	5	GNPDA2	4	44713069	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	40443335	44713069	146441207	49	9778										
LPHN3	23284	broad.mit.edu	37	chr4	62903513	62903513	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tggcaaaagtacagagagttCcattggttcagggaaaacat	11	6	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr4:62903513C>G	uc010ihh.2	+	21	3625	c.3452C>G	c.(3451-3453)TCC>TGC	p.S1151C	LPHN3_uc003hcq.3_Missense_Mutation_p.S1151C|LPHN3_uc003hct.2_Missense_Mutation_p.S535C	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	1129	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						ACAGAGAGTTCCATTGGTTCA	0.398													13	73	---	---	---	---	PASS	G	62903513	G	G	62903513	3	3	20	1	0	0	0	0	1	0	0	0	8917	855	30	2	3534	2	LPHN3	4	62903513	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	18190444	62903513	128250763	50	9779										
PPP3CA	5530	broad.mit.edu	37	chr4	101953522	101953522	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gcacactctcactctcttctCtggaaggcacaatgaggggc	10	13	3	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr4:101953522C>A	uc011cen.1	-	12	1917	c.1242_splice	c.e12-1	p.R414_splice	PPP3CA_uc003hvu.2_Splice_Site_p.R414_splice|PPP3CA_uc010ilj.2_Splice_Site_p.R372_splice|PPP3CA_uc003hvt.2_Splice_Site_p.R401_splice|PPP3CA_uc003hvs.2_Splice_Site_p.R347_splice|PPP3CA_uc010ilk.2_Splice_Site_p.R182_splice	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha						protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)		ACTCTCTTCTCTGGAAGGCAC	0.453													3	17	---	---	---	---	PASS	A	101953522	A	A	101953522	5	1	20	1	0	0	0	0	0	0	1	0	12397	927	32	2	336	2	PPP3CA	4	101953522	Splice_Site	SNP	C	TCGA-21-1071-01A-01D-1521-08	39050009	101953522	89200754	51	9780										
GAB1	2549	broad.mit.edu	37	chr4	144390314	144390314	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgggagacagtccacagaatCagaaacgccagcgaagagtg	13	9	1	4			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr4:144390314C>T	uc003ije.2	+	10	2416	c.2057C>T	c.(2056-2058)TCA>TTA	p.S686L	GAB1_uc003ijd.2_Missense_Mutation_p.S716L|GAB1_uc011chq.1_Missense_Mutation_p.S583L	NM_002039	NP_002030	Q13480	GAB1_HUMAN	GRB2-associated binding protein 1 isoform b	686					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)					TCCACAGAATCAGAAACGCCA	0.418													5	56	---	---	---	---	PASS	T	144390314	T	T	144390314	3	4	20	1	0	0	0	0	1	0	0	0	6148	838	29	2	2189	2	GAB1	4	144390314	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	42436792	144390314	46763962	52	9781										
ODZ3	55714	broad.mit.edu	37	chr4	183245215	183245215	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ccttactgctccctgaccaaGagcagacgagagaaggaacg	11	12	0	4			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr4:183245215G>C	uc003ivd.1	+	1	79	c.42G>C	c.(40-42)AAG>AAC	p.K14N	ODZ3_uc010irv.1_Missense_Mutation_p.K14N	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	14	Cytoplasmic (Potential).|Teneurin N-terminal.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CCCTGACCAAGAGCAGACGAG	0.522													3	15	---	---	---	---	PASS	C	183245215	C	C	183245215	3	2	20	1	0	0	0	0	1	0	0	0	10836	933	33	2	44	2	ODZ3	4	183245215	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	38854901	183245215	7909061	53	9782										
MTRR	4552	broad.mit.edu	37	chr5	7869254	7869254	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ctgggtaccgagcatgggcgCtgcgtcagtgcgcgctggcg	18	12	1	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:7869254C>G	uc003jed.2	+	1	38	c.8C>G	c.(7-9)GCT>GGT	p.A3G	FASTKD3_uc011cmp.1_5'Flank|FASTKD3_uc003jeb.2_5'Flank|FASTKD3_uc003jec.2_5'Flank|MTRR_uc010itn.1_RNA|MTRR_uc003jee.3_5'UTR|MTRR_uc003jef.3_RNA|MTRR_uc003jeg.3_RNA|MTRR_uc010ito.2_RNA	NM_024010	NP_076915	Q9UBK8	MTRR_HUMAN	methionine synthase reductase isoform 2	3					methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	AGCATGGGCGCTGCGTCAGTG	0.662													40	100	---	---	---	---	PASS	G	7869254	G	G	7869254	3	3	20	1	0	0	0	0	1	0	0	0	9961	797	28	4	10	4	MTRR	5	7869254	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08		7869254	173046006	54	9783										
MARCH6	10299	broad.mit.edu	37	chr5	10391811	10391811	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ggaagatgacgctggtgtggAggatgcggcagatgctaata	17	5	0	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:10391811A>G	uc003jet.1	+	7	917	c.734A>G	c.(733-735)GAG>GGG	p.E245G	MARCH6_uc011cmu.1_Missense_Mutation_p.E197G|MARCH6_uc003jeu.1_5'UTR|MARCH6_uc011cmv.1_Missense_Mutation_p.E140G	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	245	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						GCTGGTGTGGAGGATGCGGCA	0.408													3	78	---	---	---	---	PASS	G	10391811	G	G	10391811	3	3	20	1	0	0	0	0	1	0	0	0	9305	304	11	5	760	5	MARCH6	5	10391811	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	2522557	10391811	170523449	55	9784										
IQGAP2	10788	broad.mit.edu	37	chr5	75964666	75964666	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aactgctctggaggaagaaaTaaagtatgtatacaaatatg	9	4	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:75964666T>C	uc003kek.2	+	23	3062	c.2840T>C	c.(2839-2841)ATA>ACA	p.I947T	IQGAP2_uc010izv.2_Missense_Mutation_p.I500T|IQGAP2_uc011csv.1_Missense_Mutation_p.I443T|IQGAP2_uc003kel.2_Missense_Mutation_p.I443T	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	947	Ras-GAP.				small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		GAGGAAGAAATAAAGTATGTA	0.279													24	34	---	---	---	---	PASS	C	75964666	C	C	75964666	3	2	20	1	0	0	0	0	1	0	0	0	7815	1406	49	5	2930	5	IQGAP2	5	75964666	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	65572855	75964666	104950594	56	9785										
F2R	2149	broad.mit.edu	37	chr5	76028982	76028982	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ccgcagcaagaagtcccgggCtttgttcctgtcagctgctg	12	13	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:76028982C>A	uc003ken.3	+	2	1197	c.932C>A	c.(931-933)GCT>GAT	p.A311D		NM_001992	NP_001983	P25116	PAR1_HUMAN	coagulation factor II receptor precursor	311	Cytoplasmic (Potential).				activation of caspase activity|anatomical structure morphogenesis|connective tissue replacement involved in inflammatory response wound healing|negative regulation of cell proliferation|platelet activation|positive regulation of blood coagulation|positive regulation of cell migration|positive regulation of collagen biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of JAK-STAT cascade|positive regulation of MAPKKK cascade|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of transcription, DNA-dependent|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	caveola|extracellular region|Golgi apparatus|integral to plasma membrane|platelet dense tubular network	receptor binding|thrombin receptor activity			ovary(3)	3		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Prostate(461;0.00955)|Ovarian(174;0.0129)		all cancers(79;4.43e-43)	Streptokinase(DB00086)	AAGTCCCGGGCTTTGTTCCTG	0.478													11	117	---	---	---	---	PASS	A	76028982	A	A	76028982	3	1	20	1	0	0	0	0	1	0	0	0	5343	797	28	3	938	3	F2R	5	76028982	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	64316	76028982	104886278	57	9786										
THBS4	7060	broad.mit.edu	37	chr5	79363825	79363825	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cgctgtgggccttgtaagccGgggtatactggtgatcagat	15	8	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:79363825G>A	uc003kgh.2	+	11	1547	c.1224G>A	c.(1222-1224)CCG>CCA	p.P408P	uc003kgi.3_Intron	NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	408	EGF-like 3; calcium-binding (Potential).				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		CTTGTAAGCCGGGGTATACTG	0.498													21	125	---	---	---	---	PASS	A	79363825	A	A	79363825	2	1	20	1	0	0	0	0	0	0	0	1	15853	1103	39	1		1	THBS4	5	79363825	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	3334843	79363825	101551435	58	9787										
HAPLN1	1404	broad.mit.edu	37	chr5	82948291	82948291	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ccttgtaagtccagtgctacCacaacagtatcatcttctaa	5	12	3	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:82948291C>A	uc003kim.2	-	2	524	c.453G>T	c.(451-453)GTG>GTT	p.V151V	HAPLN1_uc003kin.2_Silent_p.V151V	NM_001884	NP_001875	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	151	Ig-like V-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)		CCAGTGCTACCACAACAGTAT	0.373													48	100	---	---	---	---	PASS	A	82948291	A	A	82948291	2	1	20	1	0	0	0	0	0	0	0	1	6954	581	21	3		3	HAPLN1	5	82948291	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	3584466	82948291	97966969	59	9788										
GPR98	84059	broad.mit.edu	37	chr5	90052310	90052310	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aggaaggatttattgtcactAtcactgaggtgaacctggtg	12	6	2	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:90052310A>G	uc003kju.2	+	56	11716	c.11620A>G	c.(11620-11622)ATC>GTC	p.I3874V	GPR98_uc003kjt.2_Missense_Mutation_p.I1580V|GPR98_uc003kjv.2_Missense_Mutation_p.I1474V	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3874	Extracellular (Potential).|Calx-beta 25.				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TATTGTCACTATCACTGAGGT	0.423													22	234	---	---	---	---	PASS	G	90052310	G	G	90052310	3	3	20	1	0	0	0	0	1	0	0	0	6721	449	16	5	11842	5	GPR98	5	90052310	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	7104019	90052310	90862950	60	9789										
FBN2	2201	broad.mit.edu	37	chr5	127700404	127700404	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	acatatatcaggatccaaagCacattcattgatatctgcat	5	9	3	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:127700404C>G	uc003kuu.2	-	18	2756	c.2317G>C	c.(2317-2319)GCT>CCT	p.A773P	FBN2_uc003kuv.2_Missense_Mutation_p.A740P	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	773	EGF-like 11; calcium-binding.				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)		GGATCCAAAGCACATTCATTG	0.363													17	21	---	---	---	---	PASS	G	127700404	G	G	127700404	3	3	20	1	0	0	0	0	1	0	0	0	5703	710	25	4	6613	4	FBN2	5	127700404	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	37648094	127700404	53214856	61	9790										
PCDHB3	56132	broad.mit.edu	37	chr5	140481851	140481851	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ccacagaccgtggctccccgGctttgagcagcgaggcgctg	14	15	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:140481851G>T	uc003lio.2	+	1	1618	c.1618G>T	c.(1618-1620)GCT>TCT	p.A540S	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	540	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGCTCCCCGGCTTTGAGCAG	0.687													10	94	---	---	---	---	PASS	T	140481851	T	T	140481851	3	4	20	1	0	0	0	0	1	0	0	0	11543	1203	42	3	1620	3	PCDHB3	5	140481851	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	12781447	140481851	40433409	62	9791										
PCDHB7	56129	broad.mit.edu	37	chr5	140554673	140554673	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gctaccagtatgaggtgtgcCtgactggaggctccgggaca	15	10	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:140554673C>T	uc003lit.2	+	1	2431	c.2257C>T	c.(2257-2259)CTG>TTG	p.L753L	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	753	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGAGGTGTGCCTGACTGGAGG	0.582													6	210	---	---	---	---	PASS	T	140554673	T	T	140554673	2	4	20	1	0	0	0	0	0	0	0	1	11547	680	24	3		3	PCDHB7	5	140554673	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	72822	140554673	40360587	63	9792										
PCDHGA3	56112	broad.mit.edu	37	chr5	140725281	140725281	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	accagaacgacaacgcgcccGagatcctgtaccccgccctc	8	19	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:140725281G>T	uc003ljm.1	+	1	1681	c.1681G>T	c.(1681-1683)GAG>TAG	p.E561*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Nonsense_Mutation_p.E321*|PCDHGA3_uc011dap.1_Nonsense_Mutation_p.E561*	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	561	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAACGCGCCCGAGATCCTGTA	0.647													79	159	---	---	---	---	PASS	T	140725281	T	T	140725281	4	4	20	1	0	0	0	0	0	1	0	0	11555	1059	37	2	1683	2	PCDHGA3	5	140725281	Nonsense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	170608	140725281	40189979	64	9793										
PCDHGA5	56110	broad.mit.edu	37	chr5	140744557	140744557	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gctttagatggcggagacccGgtactctccggcaccacgca	12	14	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:140744557G>A	uc003lju.1	+	1	660	c.660G>A	c.(658-660)CCG>CCA	p.P220P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Silent_p.P220P	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	220	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGGAGACCCGGTACTCTCCG	0.572													9	98	---	---	---	---	PASS	A	140744557	A	A	140744557	2	1	20	1	0	0	0	0	0	0	0	1	11557	1103	39	1		1	PCDHGA5	5	140744557	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	19276	140744557	40170703	65	9794										
AFAP1L1	134265	broad.mit.edu	37	chr5	148695778	148695778	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	agcagggctgcgggccgcaaGatcacccgtatcattggctt	13	12	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:148695778G>C	uc003lqh.2	+	11	1310	c.1179G>C	c.(1177-1179)AAG>AAC	p.K393N	AFAP1L1_uc010jgy.2_Missense_Mutation_p.K393N|AFAP1L1_uc003lqi.1_Missense_Mutation_p.K8N	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	393							protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGGCCGCAAGATCACCCGTA	0.607													10	111	---	---	---	---	PASS	C	148695778	C	C	148695778	3	2	20	1	0	0	0	0	1	0	0	0	354	933	33	2	1221	2	AFAP1L1	5	148695778	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	7951221	148695778	32219482	66	9795										
SLC36A2	153201	broad.mit.edu	37	chr5	150701635	150701635	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cagaccatgacgaggcgaatGgacagatccagaggcagtgc	14	10	0	4			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:150701635G>A	uc003lty.2	-	9	1282	c.1152C>T	c.(1150-1152)TCC>TCT	p.S384S	GM2A_uc011dcs.1_Intron|SLC36A2_uc003ltz.2_RNA|SLC36A2_uc003lua.2_Silent_p.S186S|SLC36A2_uc010jhv.2_Silent_p.S384S	NM_181776	NP_861441	Q495M3	S36A2_HUMAN	solute carrier family 36, member 2	384	Helical; (Potential).				cellular nitrogen compound metabolic process	cytoplasm|integral to membrane|plasma membrane	glycine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CGAGGCGAATGGACAGATCCA	0.517													9	94	---	---	---	---	PASS	A	150701635	A	A	150701635	2	1	20	1	0	0	0	0	0	0	0	1	14594	1335	47	3		3	SLC36A2	5	150701635	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	2005857	150701635	30213625	67	9796										
GABRG2	2566	broad.mit.edu	37	chr5	161495095	161495095	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	acggtgtggattctgctcctGctgtcgctctaccctgggta	12	12	2	0	rs115976622	by1000genomes	TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:161495095G>T	uc003lyz.3	+	1	448	c.90G>T	c.(88-90)CTG>CTT	p.L30L	GABRG2_uc010jjc.2_Silent_p.L30L|GABRG2_uc003lyy.3_Silent_p.L30L|GABRG2_uc011dej.1_5'UTR	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	30					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)		TTCTGCTCCTGCTGTCGCTCT	0.507													10	59	---	---	---	---	PASS	T	161495095	T	T	161495095	2	4	20	1	0	0	0	0	0	0	0	1	6172	1306	46	3		3	GABRG2	5	161495095	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	10793460	161495095	19420165	68	9797										
PROP1	5626	broad.mit.edu	37	chr5	177421251	177421251	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cggtggcggcgccgggagtgCgggcggcccctctgtcctcc	18	16	1	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:177421251C>T	uc003mif.1	-	2	507	c.198G>A	c.(196-198)CCG>CCA	p.P66P		NM_006261	NP_006252	O75360	PROP1_HUMAN	PROP paired-like homeobox 1	66					central nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(89;0.00176)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCCGGGAGTGCGGGCGGCCCC	0.662													36	44	---	---	---	---	PASS	T	177421251	T	T	177421251	2	4	20	1	0	0	0	0	0	0	0	1	12557	755	27	1		1	PROP1	5	177421251	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	15926156	177421251	3494009	69	9798										
FLT4	2324	broad.mit.edu	37	chr5	180043933	180043933	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aggaactccatccctctggcCacctggaagctgtagcagac	10	14	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:180043933C>T	uc003mma.3	-	22	3142	c.3063G>A	c.(3061-3063)GTG>GTA	p.V1021V	FLT4_uc003mlz.3_Silent_p.V1021V	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	1021	Cytoplasmic (Potential).|Protein kinase.				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	TCCCTCTGGCCACCTGGAAGC	0.612									Congenital_Hereditary_Lymphedema				14	139	---	---	---	---	PASS	T	180043933	T	T	180043933	2	4	20	1	0	0	0	0	0	0	0	1	5944	581	21	3		3	FLT4	5	180043933	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	2622682	180043933	871327	70	9799										
FLT4	2324	broad.mit.edu	37	chr5	180057798	180057798	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ccactcgagggggtgctgtcCcctggcagaggacaggagtg	17	11	0	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr5:180057798C>T	uc003mma.3	-	3	236	c.157G>A	c.(157-159)GGA>AGA	p.G53R	FLT4_uc003mlz.3_Missense_Mutation_p.G53R|FLT4_uc003mmb.1_5'Flank|FLT4_uc011dgy.1_Missense_Mutation_p.G53R|FLT4_uc011dgz.1_Missense_Mutation_p.G53R|FLT4_uc011dha.1_Missense_Mutation_p.G53R	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	53	Ig-like C2-type 1.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	GGGTGCTGTCCCCTGGCAGAG	0.677									Congenital_Hereditary_Lymphedema				4	30	---	---	---	---	PASS	T	180057798	T	T	180057798	3	4	20	1	0	0	0	0	1	0	0	0	5944	637	22	3	4054	3	FLT4	5	180057798	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	13865	180057798	857462	71	9800										
HIST1H2BL	8340	broad.mit.edu	37	chr6	27775434	27775434	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgatggtcgagcgcttgttgTagtgcgccaggcgggaagcc	17	9	0	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr6:27775434T>C	uc003njl.2	-	1	276	c.251A>G	c.(250-252)TAC>TGC	p.Y84C	HIST1H3H_uc003njm.2_5'Flank	NM_003519	NP_003510	Q99880	H2B1L_HUMAN	histone cluster 1, H2bl	84					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GCGCTTGTTGTAGTGCGCCAG	0.632													42	149	---	---	---	---	PASS	C	27775434	C	C	27775434	3	2	20	1	0	0	0	0	1	0	0	0	7151	1638	57	5	133	5	HIST1H2BL	6	27775434	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08		27775434	143339633	72	9801										
ZNF311	282890	broad.mit.edu	37	chr6	28964036	28964036	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttttgccacacctggcacatTcatggagtttctgtgctata	8	10	2	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr6:28964036T>G	uc003nlu.2	-	7	1256	c.743A>C	c.(742-744)GAA>GCA	p.E248A	ZNF311_uc011dlk.1_Missense_Mutation_p.E156A|ZNF311_uc003nlv.2_Missense_Mutation_p.E156A	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	248	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						CCTGGCACATTCATGGAGTTT	0.383													51	98	---	---	---	---	PASS	G	28964036	G	G	28964036	3	3	20	1	0	0	0	0	1	0	0	0	17831	1783	62	5	1261	5	ZNF311	6	28964036	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	1188602	28964036	142151031	73	9802										
TREML2	79865	broad.mit.edu	37	chr6	41162281	41162281	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ggagatggattctgggccagCagaggagtccctggcattgc	16	9	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr6:41162281C>T	uc010jxm.1	-	3	846	c.667G>A	c.(667-669)GCT>ACT	p.A223T		NM_024807	NP_079083	Q5T2D2	TRML2_HUMAN	triggering receptor expressed on myeloid	223	Extracellular (Potential).				T cell activation	cell surface|integral to membrane|plasma membrane	protein binding|receptor activity			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					TCTGGGCCAGCAGAGGAGTCC	0.612													21	36	---	---	---	---	PASS	T	41162281	T	T	41162281	3	4	20	1	0	0	0	0	1	0	0	0	16470	710	25	3	310	3	TREML2	6	41162281	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	12198245	41162281	129952786	74	9803										
TTBK1	84630	broad.mit.edu	37	chr6	43226934	43226934	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tccccaccttgtcccccaccCcgggggtcctgaggctgaag	11	18	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr6:43226934C>A	uc003ouq.1	+	11	1454	c.1175C>A	c.(1174-1176)CCC>CAC	p.P392H		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	392						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			GTCCCCCACCCCGGGGGTCCT	0.637													71	83	---	---	---	---	PASS	A	43226934	A	A	43226934	3	1	20	1	0	0	0	0	1	0	0	0	16673	623	22	3	1213	3	TTBK1	6	43226934	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	2064653	43226934	127888133	75	9804										
MCM3	4172	broad.mit.edu	37	chr6	52131488	52131488	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttggcatctggctggcgagtCttccttctaaaatacccaca	8	12	3	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr6:52131488C>T	uc003pan.1	-	15	2189	c.2079G>A	c.(2077-2079)AAG>AAA	p.K693K	MCM3_uc011dwu.1_Silent_p.K647K	NM_002388	NP_002379	P25205	MCM3_HUMAN	minichromosome maintenance complex component 3	693					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	alpha DNA polymerase:primase complex|centrosome|MCM complex|perinuclear region of cytoplasm	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)|lung(1)|skin(1)	3	Lung NSC(77;0.0931)					GCTGGCGAGTCTTCCTTCTAA	0.488													7	348	---	---	---	---	PASS	T	52131488	T	T	52131488	2	4	20	1	0	0	0	0	0	0	0	1	9387	912	32	2		2	MCM3	6	52131488	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	8904554	52131488	118983579	76	9805										
CYB5R4	51167	broad.mit.edu	37	chr6	84629158	84629158	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tctttagtcaccattgccatAtatactaaacagaaggtaaa	5	8	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr6:84629158A>G	uc003pkf.2	+	7	681	c.549A>G	c.(547-549)ATA>ATG	p.I183M		NM_016230	NP_057314	Q7L1T6	NB5R4_HUMAN	cytochrome b5 reductase 4	183	CS.				cell development|detection of oxygen|generation of precursor metabolites and energy|glucose homeostasis|insulin secretion|response to antibiotic|superoxide metabolic process	endoplasmic reticulum|perinuclear region of cytoplasm	cytochrome-b5 reductase activity|heme binding|NAD(P)H oxidase activity			breast(2)	2		all_cancers(76;7e-07)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00128)		BRCA - Breast invasive adenocarcinoma(397;0.0871)		CCATTGCCATATATACTAAAC	0.209													10	15	---	---	---	---	PASS	G	84629158	G	G	84629158	3	3	20	1	0	0	0	0	1	0	0	0	4129	439	16	5	575	5	CYB5R4	6	84629158	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	32497670	84629158	86485909	77	9806										
GJA10	84694	broad.mit.edu	37	chr6	90604309	90604309	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gctggtacttcgtgtggctgCtgaggatgtctgggatgatg	17	6	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr6:90604309C>T	uc011eaa.1	+	1	122	c.122C>T	c.(121-123)GCT>GTT	p.A41V		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	41	Extracellular (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		CGTGTGGCTGCTGAGGATGTC	0.498													10	110	---	---	---	---	PASS	T	90604309	T	T	90604309	3	4	20	1	0	0	0	0	1	0	0	0	6401	797	28	3	124	3	GJA10	6	90604309	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	5975151	90604309	80510758	78	9807										
FHL5	9457	broad.mit.edu	37	chr6	97053851	97053851	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgtgagaattgccgacaaccTatagggacaaagcctttgat	10	8	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr6:97053851T>C	uc003pos.1	+	5	813	c.408T>C	c.(406-408)CCT>CCC	p.P136P	FHL5_uc003pot.1_Silent_p.P136P	NM_020482	NP_065228	Q5TD97	FHL5_HUMAN	activator of cAMP-responsive element modulator	136	LIM zinc-binding 2.					nucleus	zinc ion binding			ovary(2)	2		all_cancers(76;1.57e-07)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00266)|Colorectal(196;0.0341)|Lung NSC(302;0.204)		BRCA - Breast invasive adenocarcinoma(108;0.0948)		GCCGACAACCTATAGGGACAA	0.413													28	50	---	---	---	---	PASS	C	97053851	C	C	97053851	2	2	20	1	0	0	0	0	0	0	0	1	5881	1509	53	5		5	FHL5	6	97053851	Silent	SNP	T	TCGA-21-1071-01A-01D-1521-08	6449542	97053851	74061216	79	9808										
MED23	9439	broad.mit.edu	37	chr6	131943099	131943099	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aaaatcttctccaaaatcacTtttaagagatctcgaacacc	3	11	4	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr6:131943099T>G	uc003qcs.1	-	6	591	c.417A>C	c.(415-417)AAA>AAC	p.K139N	MED23_uc003qcq.2_Missense_Mutation_p.K139N|MED23_uc003qct.1_Missense_Mutation_p.K139N|MED23_uc011ecb.1_RNA	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	139					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		CCAAAATCACTTTTAAGAGAT	0.383													43	79	---	---	---	---	PASS	G	131943099	G	G	131943099	3	3	20	1	0	0	0	0	1	0	0	0	9441	1606	56	5	3814	5	MED23	6	131943099	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	34889248	131943099	39171968	80	9809										
PHF10	55274	broad.mit.edu	37	chr6	170114900	170114900	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ctgacctttgttcgctctgtTggcaaaactttgtacttccc	7	12	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr6:170114900T>G	uc011egy.1	-	7	811	c.732A>C	c.(730-732)CCA>CCC	p.P244P	PHF10_uc011egz.1_Silent_p.P242P|PHF10_uc011eha.1_Silent_p.P95P	NM_018288	NP_060758	Q8WUB8	PHF10_HUMAN	PHD finger protein 10 isoform a	244	SAY.				nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	npBAF complex	zinc ion binding			urinary_tract(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.4e-21)|BRCA - Breast invasive adenocarcinoma(81;1.4e-07)|GBM - Glioblastoma multiforme(31;0.00176)		TTCGCTCTGTTGGCAAAACTT	0.403													37	150	---	---	---	---	PASS	G	170114900	G	G	170114900	2	3	20	1	0	0	0	0	0	0	0	1	11821	1799	63	5		5	PHF10	6	170114900	Silent	SNP	T	TCGA-21-1071-01A-01D-1521-08	38171801	170114900	1000167	81	9810										
ZFAND2A	90637	broad.mit.edu	37	chr7	1197328	1197328	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ggacacttatgtgcagcgtaTggaaaatgatctttacagaa	10	6	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:1197328T>C	uc003skc.2	-	3	415	c.114A>G	c.(112-114)CCA>CCG	p.P38P	ZFAND2A_uc003skd.3_Silent_p.P38P|uc003skf.1_5'Flank	NM_182491	NP_872297	Q8N6M9	ZFN2A_HUMAN	zinc finger, AN1-type domain 2A	38	AN1-type 1.					cytoplasm|nucleus	zinc ion binding			ovary(1)	1		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.82e-15)		GTGCAGCGTATGGAAAATGAT	0.323													67	242	---	---	---	---	PASS	C	1197328	C	C	1197328	2	2	20	1	0	0	0	0	0	0	0	1	17624	1451	51	5		5	ZFAND2A	7	1197328	Silent	SNP	T	TCGA-21-1071-01A-01D-1521-08		1197328	157941335	82	9811										
SKAP2	8935	broad.mit.edu	37	chr7	26779509	26779509	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tagaaccttcagtttaccttTtctgcgtttttcaaggtagc	7	9	3	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:26779509T>C	uc003syc.2	-	5	675	c.382A>G	c.(382-384)AAA>GAA	p.K128E	SKAP2_uc011jzi.1_5'UTR|SKAP2_uc011jzj.1_Missense_Mutation_p.K113E	NM_003930	NP_003921	O75563	SKAP2_HUMAN	src kinase associated phosphoprotein 2	128	PH.				B cell activation|cell junction assembly|protein complex assembly|signal transduction	cytosol|plasma membrane	SH3/SH2 adaptor activity			pancreas(1)	1						AGTTTACCTTTTCTGCGTTTT	0.378													8	41	---	---	---	---	PASS	C	26779509	C	C	26779509	3	2	20	1	0	0	0	0	1	0	0	0	14356	1850	64	5	729	5	SKAP2	7	26779509	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	25582181	26779509	132359154	83	9812										
CCDC129	223075	broad.mit.edu	37	chr7	31682945	31682945	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgaaatcacaccttatgcaaCtgaccttgctcaaacatctg	5	12	3	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:31682945C>A	uc003tcj.1	+	11	2954	c.1961C>A	c.(1960-1962)ACT>AAT	p.T654N	CCDC129_uc011kad.1_Missense_Mutation_p.T664N|CCDC129_uc003tci.1_Missense_Mutation_p.T505N|CCDC129_uc011kae.1_Missense_Mutation_p.T680N|CCDC129_uc003tck.1_Missense_Mutation_p.T562N	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	654											0						CCTTATGCAACTGACCTTGCT	0.483													15	49	---	---	---	---	PASS	A	31682945	A	A	31682945	3	1	20	1	0	0	0	0	1	0	0	0	2764	565	20	3	1999	3	CCDC129	7	31682945	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	4903436	31682945	127455718	84	9813										
ADCY1	107	broad.mit.edu	37	chr7	45753389	45753389	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	caaaggcgagatgttgacatActttctagaaggcaggactg	12	7	1	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:45753389A>T	uc003tne.3	+	20	3173	c.3155A>T	c.(3154-3156)TAC>TTC	p.Y1052F		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	1052	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	ATGTTGACATACTTTCTAGAA	0.547													23	110	---	---	---	---	PASS	T	45753389	T	T	45753389	3	4	20	1	0	0	0	0	1	0	0	0	292	391	14	5	3233	5	ADCY1	7	45753389	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	14070444	45753389	113385274	85	9814										
ABCA13	154664	broad.mit.edu	37	chr7	48284194	48284194	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttacagcatctgtggaaattGcaaagcttgctgcaaaacct	8	9	1	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:48284194G>T	uc003toq.2	+	11	1309	c.1284G>T	c.(1282-1284)TTG>TTT	p.L428F	ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	428					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TGTGGAAATTGCAAAGCTTGC	0.388													9	49	---	---	---	---	PASS	T	48284194	T	T	48284194	3	4	20	1	0	0	0	0	1	0	0	0	31	1310	46	3	1155	3	ABCA13	7	48284194	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	2530805	48284194	110854469	86	9815										
PCLO	27445	broad.mit.edu	37	chr7	82457190	82457190	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	agaaataatcttgacataccTgttccatggaaatactttta	5	7	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:82457190T>A	uc003uhx.2	-	17	14631	c.14342A>T	c.(14341-14343)CAG>CTG	p.Q4781L	PCLO_uc003uhv.2_Missense_Mutation_p.Q4781L|PCLO_uc003uht.1_Missense_Mutation_p.Q223L|PCLO_uc003uhu.1_Missense_Mutation_p.Q202L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4643	C2 1.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTGACATACCTGTTCCATGGA	0.328													4	21	---	---	---	---	PASS	A	82457190	A	A	82457190	3	1	20	1	0	0	0	0	1	0	0	0	11583	1594	55	5	1139	5	PCLO	7	82457190	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	34172996	82457190	76681473	87	9816										
PCLO	27445	broad.mit.edu	37	chr7	82583709	82583709	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tggtacagaccgaagaaacaGatgatgtgagagaaggtgtg	15	4	0	6			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:82583709G>A	uc003uhx.2	-	5	6849	c.6560C>T	c.(6559-6561)TCT>TTT	p.S2187F	PCLO_uc003uhv.2_Missense_Mutation_p.S2187F|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2118					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CGAAGAAACAGATGATGTGAG	0.443													4	67	---	---	---	---	PASS	A	82583709	A	A	82583709	3	1	20	1	0	0	0	0	1	0	0	0	11583	942	33	2	8969	2	PCLO	7	82583709	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	126519	82583709	76554954	88	9817										
ZNF804B	219578	broad.mit.edu	37	chr7	88847551	88847551	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgaattatgtgacaagcagtAtcacaaacaccaggagtttg	9	7	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:88847551A>G	uc011khi.1	+	2	729	c.191A>G	c.(190-192)TAT>TGT	p.Y64C		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	64	C2H2-type.					intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GACAAGCAGTATCACAAACAC	0.358										HNSCC(36;0.09)			3	64	---	---	---	---	PASS	G	88847551	G	G	88847551	3	3	20	1	0	0	0	0	1	0	0	0	18168	449	16	5	197	5	ZNF804B	7	88847551	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	6263842	88847551	70291112	89	9818										
ANKIB1	54467	broad.mit.edu	37	chr7	92027064	92027064	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	agaaggcggcagcagcagccGcaggcctggcacatccgtgg	16	13	0	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:92027064G>T	uc003ulw.2	+	19	2799	c.2423G>T	c.(2422-2424)CGC>CTC	p.R808L	ANKIB1_uc010lew.1_Missense_Mutation_p.R77L	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	808							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AGCAGCAGCCGCAGGCCTGGC	0.473													40	156	---	---	---	---	PASS	T	92027064	T	T	92027064	3	4	20	1	0	0	0	0	1	0	0	0	630	1087	38	1	2493	1	ANKIB1	7	92027064	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	3179513	92027064	67111599	90	9819										
CASD1	64921	broad.mit.edu	37	chr7	94173810	94173810	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	atttctcatacttttggataAaaggagattttggaatctat	7	4	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:94173810A>G	uc003uni.3	+	11	1671	c.1444A>G	c.(1444-1446)AAA>GAA	p.K482E	CASD1_uc003unj.3_Missense_Mutation_p.K482E	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	482	Helical; (Potential).					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)			CTTTTGGATAAAAGGAGATTT	0.363													8	114	---	---	---	---	PASS	G	94173810	G	G	94173810	3	3	20	1	0	0	0	0	1	0	0	0	2664	15	1	5	1486	5	CASD1	7	94173810	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	2146746	94173810	64964853	91	9820										
PILRA	29992	broad.mit.edu	37	chr7	99997407	99997407	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tctctctgggttctcgcccaGgatgacggcatcgtctatgc	11	13	4	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:99997407G>C	uc003uuo.1	+	7	1002	c.790_splice	c.e7-1	p.D264_splice	PILRA_uc011kjo.1_Intron|PILRA_uc003uup.1_Splice_Site_p.D191_splice|PILRA_uc003uuq.1_Splice_Site	NM_013439	NP_038467	Q9UKJ1	PILRA_HUMAN	paired immunoglobulin-like type 2 receptor alpha						interspecies interaction between organisms	extracellular region|integral to membrane|plasma membrane	protein binding|receptor activity			skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TTCTCGCCCAGGATGACGGCA	0.602													8	140	---	---	---	---	PASS	C	99997407	C	C	99997407	5	2	20	1	0	0	0	0	0	0	1	0	11925	1014	35	4	815	4	PILRA	7	99997407	Splice_Site	SNP	G	TCGA-21-1071-01A-01D-1521-08	5823597	99997407	59141256	92	9821										
SLC26A4	5172	broad.mit.edu	37	chr7	107341590	107341590	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tataataagaggctgaaagcGctgaggaaaatacagaaact	10	5	0	4			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:107341590G>A	uc003vep.2	+	16	1976	c.1752G>A	c.(1750-1752)GCG>GCA	p.A584A	SLC26A4_uc011kmb.1_Silent_p.A171A|SLC26A4_uc011kmc.1_Silent_p.A145A|SLC26A4_uc011kmd.1_Silent_p.A153A	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	584	STAS.|Cytoplasmic (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						GGCTGAAAGCGCTGAGGAAAA	0.343									Pendred_syndrome				13	57	---	---	---	---	PASS	A	107341590	A	A	107341590	2	1	20	1	0	0	0	0	0	0	0	1	14519	1074	38	1		1	SLC26A4	7	107341590	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	7344183	107341590	51797073	93	9822										
DOCK4	9732	broad.mit.edu	37	chr7	111462433	111462433	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cttacttgttagcaaccaagCgcataacagtccagtccttt	6	12	0	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:111462433C>A	uc003vfx.2	-	27	3184	c.2915G>T	c.(2914-2916)CGC>CTC	p.R972L	DOCK4_uc003vfw.2_Missense_Mutation_p.R413L|DOCK4_uc003vfy.2_Missense_Mutation_p.R1008L	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	972					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				AGCAACCAAGCGCATAACAGT	0.373													4	14	---	---	---	---	PASS	A	111462433	A	A	111462433	3	1	20	1	0	0	0	0	1	0	0	0	4689	768	27	1	3089	1	DOCK4	7	111462433	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	4120843	111462433	47676230	94	9823										
MET	4233	broad.mit.edu	37	chr7	116417470	116417470	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tggttgtgtatatcatgggaCtttgttggacaatgatggca	13	4	1	1	rs45592846		TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr7:116417470C>G	uc003vij.2	+	16	3474	c.3287C>G	c.(3286-3288)ACT>AGT	p.T1096S	MET_uc010lkh.2_Missense_Mutation_p.T1114S|MET_uc011knj.1_Missense_Mutation_p.T666S	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	1096	Protein kinase.|Cytoplasmic (Potential).				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding	p.Q1029_G1105del(1)		upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			TATCATGGGACTTTGTTGGAC	0.343			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				15	187	---	---	---	---	PASS	G	116417470	G	G	116417470	3	3	20	1	0	0	0	0	1	0	0	0	9485	565	20	4	3399	4	MET	7	116417470	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	4955037	116417470	42721193	95	9824										
RP1L1	94137	broad.mit.edu	37	chr8	10465017	10465017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tccccttctgcctctggggcCtctataccttctgactctgg	8	16	5	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:10465017C>A	uc003wtc.2	-	4	6820	c.6591G>T	c.(6589-6591)GAG>GAT	p.E2197D		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	2197					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CCTCTGGGGCCTCTATACCTT	0.622													94	410	---	---	---	---	PASS	A	10465017	A	A	10465017	3	1	20	1	0	0	0	0	1	0	0	0	13533	680	24	3	615	3	RP1L1	8	10465017	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08		10465017	135899005	96	9825										
RP1L1	94137	broad.mit.edu	37	chr8	10469221	10469221	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	agggctgaggcgtgtccctgGcctcttcccccaggctggca	14	15	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:10469221G>T	uc003wtc.2	-	4	2616	c.2387C>A	c.(2386-2388)GCC>GAC	p.A796D		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	796					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CGTGTCCCTGGCCTCTTCCCC	0.682													25	83	---	---	---	---	PASS	T	10469221	T	T	10469221	3	4	20	1	0	0	0	0	1	0	0	0	13533	1203	42	3	4819	3	RP1L1	8	10469221	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	4204	10469221	135894801	97	9826										
PCM1	5108	broad.mit.edu	37	chr8	17804751	17804751	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gaaaatttgaagaaacaacaTgatttattaaaaagaatgtt	6	2	0	4			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:17804751T>A	uc003wyi.3	+	7	1262	c.840T>A	c.(838-840)CAT>CAA	p.H280Q	PCM1_uc011kyh.1_Missense_Mutation_p.H280Q|PCM1_uc003wyj.3_Missense_Mutation_p.H280Q|PCM1_uc003wyg.2_Missense_Mutation_p.H280Q|PCM1_uc003wyh.2_Missense_Mutation_p.H319Q|PCM1_uc010lta.1_Missense_Mutation_p.H319Q	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	280	Potential.				centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		AGAAACAACATGATTTATTAA	0.403			T	RET|JAK2	papillary thyroid|CML|MPD								15	65	---	---	---	---	PASS	A	17804751	A	A	17804751	3	1	20	1	0	0	0	0	1	0	0	0	11584	1461	51	5	858	5	PCM1	8	17804751	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	7335530	17804751	128559271	98	9827										
CLU	1191	broad.mit.edu	37	chr8	27457472	27457472	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	acctctcagcgacctggaggGattcgtcgagctcccgccgc	12	16	1	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:27457472G>T	uc003xfw.1	-	6	1047	c.989C>A	c.(988-990)TCC>TAC	p.S330Y	CLU_uc010lux.1_Missense_Mutation_p.S195Y|CLU_uc003xfx.1_Missense_Mutation_p.S330Y|CLU_uc003xfy.1_Missense_Mutation_p.S341Y|CLU_uc003xfz.1_Missense_Mutation_p.S382Y	NM_203339	NP_976084	P10909	CLUS_HUMAN	clusterin isoform 2	330					chaperone-mediated protein folding|complement activation, classical pathway|innate immune response|lipid metabolic process|negative regulation of apoptosis|negative regulation of protein homooligomerization|platelet activation|platelet degranulation|positive regulation of NF-kappaB transcription factor activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|response to misfolded protein|response to virus|reverse cholesterol transport	chromaffin granule|cytosol|endoplasmic reticulum|microsome|mitochondrial membrane|nucleus|perinuclear region of cytoplasm|platelet alpha granule lumen|spherical high-density lipoprotein particle	misfolded protein binding|ubiquitin protein ligase binding			ovary(2)	2		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|Colorectal(74;0.132)		GACCTGGAGGGATTCGTCGAG	0.557													5	83	---	---	---	---	PASS	T	27457472	T	T	27457472	3	4	20	1	0	0	0	0	1	0	0	0	3568	1174	41	2	372	2	CLU	8	27457472	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	9652721	27457472	118906550	99	9828										
UNC5D	137970	broad.mit.edu	37	chr8	35406925	35406925	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aagagcaaccctattgcactCaggtgcaaagcgaggccagc	11	12	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:35406925C>G	uc003xjr.1	+	2	547	c.219C>G	c.(217-219)CTC>CTG	p.L73L	UNC5D_uc003xjs.1_Silent_p.L68L	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	73	Extracellular (Potential).|Ig-like.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CTATTGCACTCAGGTGCAAAG	0.512													13	59	---	---	---	---	PASS	G	35406925	G	G	35406925	2	3	20	1	0	0	0	0	0	0	0	1	16992	813	29	2		2	UNC5D	8	35406925	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	7949453	35406925	110957097	100	9829										
RAB11FIP1	80223	broad.mit.edu	37	chr8	37729205	37729205	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ctgctctgaaggagctgtcaCagatgcctggggtgcttgca	14	10	2	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:37729205C>A	uc003xkm.1	-	4	3159	c.3115G>T	c.(3115-3117)GTG>TTG	p.V1039L	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Missense_Mutation_p.V368L|RAB11FIP1_uc003xko.1_Missense_Mutation_p.V368L|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	1039					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			GGAGCTGTCACAGATGCCTGG	0.582													11	129	---	---	---	---	PASS	A	37729205	A	A	37729205	3	1	20	1	0	0	0	0	1	0	0	0	12893	478	17	3	748	3	RAB11FIP1	8	37729205	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	2322280	37729205	108634817	101	9830										
RP1	6101	broad.mit.edu	37	chr8	55538558	55538558	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	atgagagaataaacacaaaaGgtagaattacaaaggaaatg	9	3	0	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:55538558G>T	uc003xsd.1	+	4	2264	c.2116G>T	c.(2116-2118)GGT>TGT	p.G706C	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	706			G -> R.		axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			AAACACAAAAGGTAGAATTAC	0.363													8	32	---	---	---	---	PASS	T	55538558	T	T	55538558	3	4	20	1	0	0	0	0	1	0	0	0	13532	1000	35	3	2126	3	RP1	8	55538558	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	17809353	55538558	90825464	102	9831										
TTPA	7274	broad.mit.edu	37	chr8	63973891	63973891	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ccattcctgacaaatgtcctCcatggagaattcttcaccac	5	14	2	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:63973891C>G	uc003xux.1	-	5	789	c.757G>C	c.(757-759)GAG>CAG	p.E253Q		NM_000370	NP_000361	P49638	TTPA_HUMAN	tocopherol (alpha) transfer protein	253	CRAL-TRIO.				lipid metabolic process		transporter activity|vitamin E binding				0	Breast(64;0.0716)	all_cancers(86;0.145)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.123)			Vitamin E(DB00163)	CAAATGTCCTCCATGGAGAAT	0.383													18	67	---	---	---	---	PASS	G	63973891	G	G	63973891	3	3	20	1	0	0	0	0	1	0	0	0	16733	864	30	2	83	2	TTPA	8	63973891	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	8435333	63973891	82390131	103	9832										
CSPP1	79848	broad.mit.edu	37	chr8	68074067	68074067	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	acatgagacagccttctcctAtagttcctgctcttcagaac	6	13	3	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:68074067A>G	uc003xxi.2	+	22	2681	c.2650A>G	c.(2650-2652)ATA>GTA	p.I884V	CSPP1_uc003xxj.2_Missense_Mutation_p.I849V|CSPP1_uc003xxk.2_Missense_Mutation_p.I504V|CSPP1_uc010lyw.2_5'Flank	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	884						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			GCCTTCTCCTATAGTTCCTGC	0.294													17	149	---	---	---	---	PASS	G	68074067	G	G	68074067	3	3	20	1	0	0	0	0	1	0	0	0	3962	449	16	5	2736	5	CSPP1	8	68074067	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	4100176	68074067	78289955	104	9833										
ZFAND1	79752	broad.mit.edu	37	chr8	82626221	82626221	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgcaacctttgcagctgtttCactatttttggcacctttcc	6	12	1	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:82626221C>T	uc003ycj.1	-	6	426	c.412G>A	c.(412-414)GAA>AAA	p.E138K	ZFAND1_uc010lzx.1_Missense_Mutation_p.E138K|ZFAND1_uc003yck.1_Missense_Mutation_p.E31K	NM_024699	NP_078975	Q8TCF1	ZFAN1_HUMAN	zinc finger, AN1-type domain 1	138							zinc ion binding			ovary(1)	1						GCAGCTGTTTCACTATTTTTG	0.338													20	82	---	---	---	---	PASS	T	82626221	T	T	82626221	3	4	20	1	0	0	0	0	1	0	0	0	17623	835	29	2	454	2	ZFAND1	8	82626221	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	14552154	82626221	63737801	105	9834										
CA3	761	broad.mit.edu	37	chr8	86356352	86356352	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gctgtgattggcatttttctGaaggtaaagtaaaaattgac	10	4	1	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:86356352G>T	uc003ydj.2	+	4	524	c.441G>T	c.(439-441)CTG>CTT	p.L147L	CA3_uc011lfv.1_RNA	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	147					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0						GCATTTTTCTGAAGGTAAAGT	0.378													6	47	---	---	---	---	PASS	T	86356352	T	T	86356352	2	4	20	1	0	0	0	0	0	0	0	1	2517	1277	45	2		2	CA3	8	86356352	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	3730131	86356352	60007670	106	9835										
TTC35	9694	broad.mit.edu	37	chr8	109482068	109482068	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cccacaggctgcaagaaagcGtaagattgccattcgaaaag	10	10	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:109482068G>A	uc003ymw.1	+	6	412	c.377G>A	c.(376-378)CGT>CAT	p.R126H		NM_014673	NP_055488	Q15006	TTC35_HUMAN	tetratricopeptide repeat domain 35	126						endoplasmic reticulum|nucleus	binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.34e-10)			GCAAGAAAGCGTAAGATTGCC	0.408													11	84	---	---	---	---	PASS	A	109482068	A	A	109482068	3	1	20	1	0	0	0	0	1	0	0	0	16700	1145	40	1	399	1	TTC35	8	109482068	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	23125716	109482068	36881954	107	9836										
CSMD3	114788	broad.mit.edu	37	chr8	113267647	113267647	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	caggtataccagggtcaccaCaaaactttgctggaaatgaa	9	9	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:113267647C>T	uc003ynu.2	-	62	10031	c.9872G>A	c.(9871-9873)TGT>TAT	p.C3291Y	CSMD3_uc003yns.2_Missense_Mutation_p.C2493Y|CSMD3_uc003ynt.2_Missense_Mutation_p.C3251Y|CSMD3_uc011lhx.1_Missense_Mutation_p.C3122Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3291	Extracellular (Potential).|Sushi 26.					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						AGGGTCACCACAAAACTTTGC	0.358										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			16	65	---	---	---	---	PASS	T	113267647	T	T	113267647	3	4	20	1	0	0	0	0	1	0	0	0	3946	478	17	3	1291	3	CSMD3	8	113267647	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	3785579	113267647	33096375	108	9837										
NOV	4856	broad.mit.edu	37	chr8	120431513	120431513	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	accaataggaaccgtcaatgTgagatgctgaaacagactcg	10	9	1	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:120431513T>G	uc003yoq.2	+	4	926	c.705T>G	c.(703-705)TGT>TGG	p.C235W		NM_002514	NP_002505	P48745	NOV_HUMAN	nephroblastoma overexpressed precursor	235	TSP type-1.				regulation of cell growth		growth factor activity|insulin-like growth factor binding			ovary(2)|skin(2)|kidney(1)	5	all_cancers(13;3.84e-26)|Lung NSC(37;1.19e-08)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000507)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ACCGTCAATGTGAGATGCTGA	0.547													15	196	---	---	---	---	PASS	G	120431513	G	G	120431513	3	3	20	1	0	0	0	0	1	0	0	0	10553	1702	59	5	719	5	NOV	8	120431513	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	7163866	120431513	25932509	109	9838										
ZFAT	57623	broad.mit.edu	37	chr8	135614756	135614756	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cagatgtggcagtcatagagCagctgccgcttgccctccct	11	14	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:135614756C>T	uc003yup.2	-	6	1381	c.1206G>A	c.(1204-1206)CTG>CTA	p.L402L	ZFAT_uc003yun.2_Silent_p.L390L|ZFAT_uc003yuo.2_Silent_p.L390L|ZFAT_uc010meh.2_Silent_p.L390L|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Silent_p.L390L|ZFAT_uc010mej.2_Silent_p.L340L|ZFAT_uc003yur.2_Silent_p.L390L	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	402					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			AGTCATAGAGCAGCTGCCGCT	0.577													14	57	---	---	---	---	PASS	T	135614756	T	T	135614756	2	4	20	1	0	0	0	0	0	0	0	1	17629	697	25	3		3	ZFAT	8	135614756	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	15183243	135614756	10749266	110	9839										
LYNX1	66004	broad.mit.edu	37	chr8	143856736	143856736	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	catacacagtctcgaagcagCggggcacgcaggacttactg	12	12	1	0	rs142734660	by1000genomes	TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr8:143856736C>A	uc003yxc.1	-	4	470	c.200G>T	c.(199-201)CGC>CTC	p.R67L	LYNX1_uc003yxb.2_Intron|LYNX1_uc003yxd.1_Missense_Mutation_p.R67L|LYNX1_uc003yxe.1_Missense_Mutation_p.R67L	NM_177476	NP_803429	Q9BZG9	LYNX1_HUMAN	Ly-6 neurotoxin-like protein 1 isoform c	67	UPAR/Ly6.					anchored to membrane|plasma membrane					0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					CTCGAAGCAGCGGGGCACGCA	0.657													6	47	---	---	---	---	PASS	A	143856736	A	A	143856736	3	1	20	1	0	0	0	0	1	0	0	0	9108	768	27	1	460	1	LYNX1	8	143856736	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	8241980	143856736	2507286	111	9840										
KIF24	347240	broad.mit.edu	37	chr9	34306263	34306263	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	atcatacctgcagaatatatTgagtgaggtcaactgcttct	8	8	3	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr9:34306263T>G	uc003zua.3	-	3	920	c.800A>C	c.(799-801)CAA>CCA	p.Q267P	KIF24_uc010mkb.2_Missense_Mutation_p.Q298P	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	267	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			CAGAATATATTGAGTGAGGTC	0.348													24	249	---	---	---	---	PASS	G	34306263	G	G	34306263	3	3	20	1	0	0	0	0	1	0	0	0	8292	1812	63	5	3350	5	KIF24	9	34306263	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08		34306263	106907168	112	9841										
TESK1	7016	broad.mit.edu	37	chr9	35608436	35608436	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttcaccgaaattacccagcaCctggaatggatcctggagca	9	12	1	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr9:35608436C>T	uc003zxa.2	+	9	1266	c.930C>T	c.(928-930)CAC>CAT	p.H310H	TESK1_uc003zwz.1_RNA|TESK1_uc010mks.2_Silent_p.H150H	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	310	Protein kinase.				cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TTACCCAGCACCTGGAATGGA	0.592													15	45	---	---	---	---	PASS	T	35608436	T	T	35608436	2	4	20	1	0	0	0	0	0	0	0	1	15764	506	18	3		3	TESK1	9	35608436	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	1302173	35608436	105604995	113	9842										
VPS13A	23230	broad.mit.edu	37	chr9	79875069	79875069	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ataaaaaactacaagggattAtggaattgattgaaagcatt	8	3	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr9:79875069A>G	uc004akr.2	+	23	2616	c.2356A>G	c.(2356-2358)ATG>GTG	p.M786V	VPS13A_uc004akp.3_Missense_Mutation_p.M786V|VPS13A_uc004akq.3_Missense_Mutation_p.M786V|VPS13A_uc004aks.2_Missense_Mutation_p.M786V	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	786					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ACAAGGGATTATGGAATTGAT	0.294													28	54	---	---	---	---	PASS	G	79875069	G	G	79875069	3	3	20	1	0	0	0	0	1	0	0	0	17186	449	16	5	2446	5	VPS13A	9	79875069	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	44266633	79875069	61338362	114	9843										
INVS	27130	broad.mit.edu	37	chr9	103014591	103014591	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	atgctgctgctctttctggcCatgtcagcaccgtgaagtta	10	11	3	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr9:103014591C>A	uc004bap.1	+	9	1317	c.1105C>A	c.(1105-1107)CAT>AAT	p.H369N	INVS_uc010mta.1_Missense_Mutation_p.H273N|INVS_uc011lve.1_Missense_Mutation_p.H273N|INVS_uc004bao.1_Missense_Mutation_p.H369N|INVS_uc004baq.1_Missense_Mutation_p.H273N|INVS_uc004bar.1_Missense_Mutation_p.H273N|INVS_uc010mtb.1_Missense_Mutation_p.H43N	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	369	ANK 11.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				TCTTTCTGGCCATGTCAGCAC	0.388													6	223	---	---	---	---	PASS	A	103014591	A	A	103014591	3	1	20	1	0	0	0	0	1	0	0	0	7787	594	21	3	1135	3	INVS	9	103014591	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	23139522	103014591	38198840	115	9844										
BMS1	9790	broad.mit.edu	37	chr10	43287953	43287953	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttttctaggatggaagatttGacaaacccagaggatatccg	10	7	1	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr10:43287953G>T	uc001jaj.2	+	7	1150	c.792G>T	c.(790-792)TTG>TTT	p.L264F		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	264					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						TGGAAGATTTGACAAACCCAG	0.363													9	84	---	---	---	---	PASS	T	43287953	T	T	43287953	3	4	20	1	0	0	0	0	1	0	0	0	1472	1281	45	2	814	2	BMS1	10	43287953	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08		43287953	92246794	116	9845										
OIT3	170392	broad.mit.edu	37	chr10	74673200	74673200	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	atgtcaacatcctcttctctCtcaagacatgtggtacagtg	7	11	4	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr10:74673200C>G	uc001jte.1	+	6	1143	c.925C>G	c.(925-927)CTC>GTC	p.L309V	OIT3_uc009xqs.1_RNA	NM_152635	NP_689848	Q8WWZ8	OIT3_HUMAN	oncoprotein-induced transcript 3 precursor	309	ZP.					nuclear envelope	calcium ion binding			ovary(2)	2	Prostate(51;0.0198)					CCTCTTCTCTCTCAAGACATG	0.562													6	87	---	---	---	---	PASS	G	74673200	G	G	74673200	3	3	20	1	0	0	0	0	1	0	0	0	10849	913	32	2	947	2	OIT3	10	74673200	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	31385247	74673200	60861547	117	9846										
IFIT2	3433	broad.mit.edu	37	chr10	91065931	91065931	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aaacgaggcagccctggaatGcttacgtaaagctgaagagt	12	8	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr10:91065931G>T	uc009xts.2	+	2	393	c.218G>T	c.(217-219)TGC>TTC	p.C73F	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron	NM_001547	NP_001538	P09913	IFIT2_HUMAN	interferon-induced protein with	73	TPR 1.				negative regulation of protein binding|response to virus|type I interferon-mediated signaling pathway		protein binding			ovary(1)|skin(1)	2		Colorectal(252;0.0161)				GCCCTGGAATGCTTACGTAAA	0.483													4	59	---	---	---	---	PASS	T	91065931	T	T	91065931	3	4	20	1	0	0	0	0	1	0	0	0	7523	1319	46	3	224	3	IFIT2	10	91065931	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	16392731	91065931	44468816	118	9847										
TMEM20	159371	broad.mit.edu	37	chr10	95660993	95660993	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	agtggagtctgccttactgtGggttggacaggctatttctc	13	8	2	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr10:95660993G>A	uc001kjg.1	+	3	905	c.844G>A	c.(844-846)GGG>AGG	p.G282R	TMEM20_uc001kji.2_Intron|TMEM20_uc001kjf.1_Missense_Mutation_p.G281R|TMEM20_uc001kjh.2_Intron|TMEM20_uc010qnw.1_Missense_Mutation_p.G265R|TMEM20_uc001kjj.2_Intron	NM_001134658	NP_001128130	Q2M3R5	TMM20_HUMAN	transmembrane protein 20 isoform 1	282	DUF6 2.					integral to membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;3.46e-05)|Renal(717;0.018)|Ovarian(717;0.0228)|all_hematologic(284;0.189)		STAD - Stomach adenocarcinoma(243;0.00345)		GCCTTACTGTGGGTTGGACAG	0.433													11	95	---	---	---	---	PASS	A	95660993	A	A	95660993	3	1	20	1	0	0	0	0	1	0	0	0	16119	1348	47	3	854	3	TMEM20	10	95660993	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	4595062	95660993	39873754	119	9848										
NFKB2	4791	broad.mit.edu	37	chr10	104159110	104159110	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	accagtccggcgcgggccccAtgggctgctacccgggaggc	16	16	0	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr10:104159110A>G	uc001kvb.2	+	13	1448	c.1183A>G	c.(1183-1185)ATG>GTG	p.M395V	NFKB2_uc001kva.2_Missense_Mutation_p.M395V|NFKB2_uc001kvd.2_Missense_Mutation_p.M395V|NFKB2_uc009xxc.2_Missense_Mutation_p.M395V	NM_001077494	NP_001070962	Q00653	NFKB2_HUMAN	nuclear factor of kappa light polypeptide gene	395	Gly-rich.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|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	Bcl3/NF-kappaB2 complex|cytosol|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			lung(3)	3		Colorectal(252;0.00957)		Epithelial(162;3.4e-08)|all cancers(201;6.41e-07)		CGCGGGCCCCATGGGCTGCTA	0.736			T	IGH@	B-NHL								6	4	---	---	---	---	PASS	G	104159110	G	G	104159110	3	3	20	1	0	0	0	0	1	0	0	0	10376	217	8	5	1229	5	NFKB2	10	104159110	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	8498117	104159110	31375637	120	9849										
HSPA12A	259217	broad.mit.edu	37	chr10	118451905	118451905	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	actgcttggccggctgcttcCagatggcaggcaccgtgatg	14	12	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr10:118451905C>T	uc001lct.2	-	6	725	c.620G>A	c.(619-621)TGG>TAG	p.W207*	HSPA12A_uc001lcu.2_Nonsense_Mutation_p.W124*	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	207							ATP binding			ovary(1)	1				all cancers(201;0.0158)		CGGCTGCTTCCAGATGGCAGG	0.572													63	157	---	---	---	---	PASS	T	118451905	T	T	118451905	4	4	20	1	0	0	0	0	0	1	0	0	7404	595	21	3	1435	3	HSPA12A	10	118451905	Nonsense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	14292795	118451905	17082842	121	9850										
OR51L1	119682	broad.mit.edu	37	chr11	5020860	5020860	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ggtgtggattcaatcttcatActtctttcttatgttctgat	7	7	6	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:5020860A>T	uc010qyu.1	+	1	648	c.648A>T	c.(646-648)ATA>ATT	p.I216I		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	216	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		CAATCTTCATACTTCTTTCTT	0.413													18	68	---	---	---	---	PASS	T	5020860	T	T	5020860	2	4	20	1	0	0	0	0	0	0	0	1	11102	381	14	5		5	OR51L1	11	5020860	Silent	SNP	A	TCGA-21-1071-01A-01D-1521-08		5020860	129985656	122	9851										
OR52W1	120787	broad.mit.edu	37	chr11	6220979	6220979	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	caaagtttgagcacttccaaGccaagaccataggccatacc	7	13	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:6220979G>A	uc010qzz.1	+	1	526	c.526G>A	c.(526-528)GCC>ACC	p.A176T		NM_001005178	NP_001005178	Q6IF63	O52W1_HUMAN	olfactory receptor, family 52, subfamily W,	176	Extracellular (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)		GCACTTCCAAGCCAAGACCAT	0.512													13	49	---	---	---	---	PASS	A	6220979	A	A	6220979	3	1	20	1	0	0	0	0	1	0	0	0	11132	971	34	3	528	3	OR52W1	11	6220979	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	1200119	6220979	128785537	123	9852										
LRP4	4038	broad.mit.edu	37	chr11	46921426	46921426	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tcacccaccacactgctcatCgctgttgtcgccacagtcat	6	17	3	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:46921426C>T	uc001ndn.3	-	4	564	c.418G>A	c.(418-420)GAT>AAT	p.D140N	LRP4_uc009ylh.1_Missense_Mutation_p.D91N	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	140	Extracellular (Potential).|LDL-receptor class A 3.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		CACTGCTCATCGCTGTTGTCG	0.617													8	92	---	---	---	---	PASS	T	46921426	T	T	46921426	3	4	20	1	0	0	0	0	1	0	0	0	8959	884	31	2	5439	2	LRP4	11	46921426	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	40700447	46921426	88085090	124	9853										
OR4C13	283092	broad.mit.edu	37	chr11	49974527	49974527	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	atctctacactttgatcaatCttgcctgcactaatacccac	3	14	3	1	rs149246983	byFrequency	TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:49974527C>A	uc010rhz.1	+	1	553	c.553C>A	c.(553-555)CTT>ATT	p.L185I		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						TTTGATCAATCTTGCCTGCAC	0.438													20	190	---	---	---	---	PASS	A	49974527	A	A	49974527	3	1	20	1	0	0	0	0	1	0	0	0	11047	913	32	2	555	2	OR4C13	11	49974527	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	3053101	49974527	85031989	125	9854										
OR8H1	219469	broad.mit.edu	37	chr11	56058363	56058363	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	agtgagtaaggaaaaaatacAtgggagtgtgaagctggagg	16	2	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:56058363A>G	uc010rje.1	-	1	176	c.176T>C	c.(175-177)ATG>ACG	p.M59T		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	59	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					GAAAAAATACATGGGAGTGTG	0.403													78	281	---	---	---	---	PASS	G	56058363	G	G	56058363	3	3	20	1	0	0	0	0	1	0	0	0	11237	217	8	5	761	5	OR8H1	11	56058363	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	6083836	56058363	78948153	126	9855										
OR5B12	390191	broad.mit.edu	37	chr11	58206755	58206755	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ctcttaacctctttgttcctCaggctgtagaccagtggatt	8	11	3	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:58206755C>G	uc010rkh.1	-	1	870	c.870G>C	c.(868-870)CTG>CTC	p.L290L		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	290	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CTTTGTTCCTCAGGCTGTAGA	0.393													5	95	---	---	---	---	PASS	G	58206755	G	G	58206755	2	3	20	1	0	0	0	0	0	0	0	1	11148	813	29	2		2	OR5B12	11	58206755	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	2148392	58206755	76799761	127	9856										
GLYATL1	92292	broad.mit.edu	37	chr11	58723372	58723372	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	atctgcgtcagaagaatattCcattttacatctctgtgttg	7	8	3	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:58723372C>T	uc001nnf.2	+	8	1157	c.781C>T	c.(781-783)CCA>TCA	p.P261S	uc001nng.1_Intron|GLYATL1_uc001nnh.1_Missense_Mutation_p.P292S|GLYATL1_uc001nni.1_Missense_Mutation_p.P261S|GLYATL1_uc001nnj.1_Missense_Mutation_p.P261S			Q969I3	GLYL1_HUMAN	SubName: Full=Glycine acyltransferase family-C; SubName: Full=Glycine-N-acyltransferase-like 1, isoform CRA_a;	261						mitochondrion	glycine N-acyltransferase activity			ovary(1)	1					Glycine(DB00145)	GAAGAATATTCCATTTTACAT	0.458													14	98	---	---	---	---	PASS	T	58723372	T	T	58723372	3	4	20	1	0	0	0	0	1	0	0	0	6480	855	30	2	900	2	GLYATL1	11	58723372	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	516617	58723372	76283144	128	9857										
NRXN2	9379	broad.mit.edu	37	chr11	64417958	64417958	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gggcgccattggagtgctgcGtgacagtgcgggagtcaatc	17	9	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:64417958G>T	uc001oar.2	-	16	3510	c.3071C>A	c.(3070-3072)ACG>AAG	p.T1024K	NRXN2_uc001oas.2_Missense_Mutation_p.T984K|NRXN2_uc001oaq.2_Missense_Mutation_p.T691K	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						GGAGTGCTGCGTGACAGTGCG	0.602													53	234	---	---	---	---	PASS	T	64417958	T	T	64417958	3	4	20	1	0	0	0	0	1	0	0	0	10666	1145	40	1	2372	1	NRXN2	11	64417958	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	5694586	64417958	70588558	129	9858										
GPR152	390212	broad.mit.edu	37	chr11	67219276	67219276	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cgaaggacgagagcacggagCgcagcagggtccggaggtcg	19	10	0	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:67219276C>A	uc001olm.2	-	1	925	c.920G>T	c.(919-921)CGC>CTC	p.R307L	uc009yrw.1_5'Flank|CABP4_uc001oln.2_5'Flank	NM_206997	NP_996880	Q8TDT2	GP152_HUMAN	G protein-coupled receptor 152	307	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			GAGCACGGAGCGCAGCAGGGT	0.647													18	71	---	---	---	---	PASS	A	67219276	A	A	67219276	3	1	20	1	0	0	0	0	1	0	0	0	6658	768	27	1	496	1	GPR152	11	67219276	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	2801318	67219276	67787240	130	9859										
SUV420H1	51111	broad.mit.edu	37	chr11	67925895	67925895	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	catcaaatctggtaccgcgtCgtcttttccaggagaatcgt	9	11	3	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:67925895C>G	uc001onm.1	-	11	2174	c.1918G>C	c.(1918-1920)GAC>CAC	p.D640H	SUV420H1_uc009yse.1_Missense_Mutation_p.D226H|SUV420H1_uc001onn.1_Missense_Mutation_p.D468H|SUV420H1_uc009ysf.2_Missense_Mutation_p.D400H	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	640					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						GGTACCGCGTCGTCTTTTCCA	0.507													9	34	---	---	---	---	PASS	G	67925895	G	G	67925895	3	3	20	1	0	0	0	0	1	0	0	0	15411	884	31	2	743	2	SUV420H1	11	67925895	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	706619	67925895	67080621	131	9860										
PCF11	51585	broad.mit.edu	37	chr11	82877481	82877481	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	agaagtatgtctccaacatcGacacctaaagctggaaagat	8	9	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:82877481G>T	uc001ozx.3	+	5	1887	c.1542G>T	c.(1540-1542)TCG>TCT	p.S514S	PCF11_uc010rsu.1_Silent_p.S514S	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	514					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						CTCCAACATCGACACCTAAAG	0.448													3	83	---	---	---	---	PASS	T	82877481	T	T	82877481	2	4	20	1	0	0	0	0	0	0	0	1	11573	1045	37	2		2	PCF11	11	82877481	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	14951586	82877481	52129035	132	9861										
NLRX1	79671	broad.mit.edu	37	chr11	119045219	119045219	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gccgtatccccagcaagtacGtgggccgctatggtgagatc	13	12	0	1	rs147720831	byFrequency	TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:119045219G>A	uc001pvu.2	+	6	1122	c.907G>A	c.(907-909)GTG>ATG	p.V303M	NLRX1_uc010rzc.1_Missense_Mutation_p.V125M|NLRX1_uc001pvv.2_Missense_Mutation_p.V303M|NLRX1_uc001pvw.2_Missense_Mutation_p.V303M|NLRX1_uc001pvx.2_Missense_Mutation_p.V303M	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	303	Required for interaction with MAVS.|NACHT.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		CAGCAAGTACGTGGGCCGCTA	0.567													56	228	---	---	---	---	PASS	A	119045219	A	A	119045219	3	1	20	1	0	0	0	0	1	0	0	0	10485	1145	40	1	925	1	NLRX1	11	119045219	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	36167738	119045219	15961297	133	9862										
OR10G9	219870	broad.mit.edu	37	chr11	123893759	123893759	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgacagcgttcatcctcacgGgccttccccatgccccaggg	10	17	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:123893759G>A	uc010sad.1	+	1	40	c.40G>A	c.(40-42)GGC>AGC	p.G14S		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CATCCTCACGGGCCTTCCCCA	0.562													10	287	---	---	---	---	PASS	A	123893759	A	A	123893759	3	1	20	1	0	0	0	0	1	0	0	0	10904	1232	43	3	42	3	OR10G9	11	123893759	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	4848540	123893759	11112757	134	9863										
OR10G7	390265	broad.mit.edu	37	chr11	123909669	123909669	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ccctggggcatggggaaggcCcgtgaggatgaacgctgtca	17	10	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:123909669C>T	uc001pzq.1	-	1	40	c.40G>A	c.(40-42)GGC>AGC	p.G14S		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		TGGGGAAGGCCCGTGAGGATG	0.542													13	163	---	---	---	---	PASS	T	123909669	T	T	123909669	3	4	20	1	0	0	0	0	1	0	0	0	10902	623	22	3	899	3	OR10G7	11	123909669	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	15910	123909669	11096847	135	9864										
ADAMTS15	170689	broad.mit.edu	37	chr11	130332581	130332581	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	acagatggtgtgccagacccGccacttcccctgggccgatg	12	15	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr11:130332581G>A	uc010scd.1	+	4	1448	c.1448G>A	c.(1447-1449)CGC>CAC	p.R483H		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	483	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		TGCCAGACCCGCCACTTCCCC	0.622													12	88	---	---	---	---	PASS	A	130332581	A	A	130332581	3	1	20	1	0	0	0	0	1	0	0	0	260	1087	38	1	1462	1	ADAMTS15	11	130332581	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	6422912	130332581	4673935	136	9865										
WNK1	65125	broad.mit.edu	37	chr12	993323	993323	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tttaactcaagttgttcattCtgcgggaaggcggtttatag	11	6	3	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr12:993323C>T	uc001qio.3	+	18	4265	c.3758C>T	c.(3757-3759)TCT>TTT	p.S1253F	WNK1_uc001qip.3_Missense_Mutation_p.S1006F|WNK1_uc001qir.3_Missense_Mutation_p.S426F	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1253					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GTTGTTCATTCTGCGGGAAGG	0.363													19	141	---	---	---	---	PASS	T	993323	T	T	993323	3	4	20	1	0	0	0	0	1	0	0	0	17374	913	32	2	5330	2	WNK1	12	993323	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08		993323	132858572	137	9866										
LPCAT3	10162	broad.mit.edu	37	chr12	7091877	7091877	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgaggacggcagtgatggtgCggcccattagtcgaaggatg	17	7	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr12:7091877C>T	uc001qsi.2	-	3	440	c.326G>A	c.(325-327)CGC>CAC	p.R109H	EMG1_uc010sfv.1_Intron|LPCAT3_uc010sfw.1_Missense_Mutation_p.R3H|LPCAT3_uc009zfp.2_RNA|LPCAT3_uc010sfx.1_RNA|LPCAT3_uc009zfq.1_Intron	NM_005768	NP_005759	Q6P1A2	MBOA5_HUMAN	lysophosphatidylcholine acyltransferase 3	109					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity			ovary(1)	1						AGTGATGGTGCGGCCCATTAG	0.502													35	71	---	---	---	---	PASS	T	7091877	T	T	7091877	3	4	20	1	0	0	0	0	1	0	0	0	8912	768	27	1	1177	1	LPCAT3	12	7091877	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	6098554	7091877	126760018	138	9867										
TBC1D15	64786	broad.mit.edu	37	chr12	72266713	72266713	+	Missense_Mutation	SNP	C	T	T													0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	taatttctttctctaggatgCcgaagtaatagtggactgga							TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr12:72266713C>T	uc001swu.2	+	3	209	c.200C>T	c.(199-201)GCC>GTC	p.A67V	TBC1D15_uc009zrv.2_5'UTR|TBC1D15_uc010stt.1_Missense_Mutation_p.A53V|TBC1D15_uc001swv.2_Missense_Mutation_p.A67V|TBC1D15_uc001sww.2_5'UTR	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	45							protein binding|Rab GTPase activator activity				0						CTCTAGGATGCCGAAGTAATA	0.308													13	176	---	---	---	---	PASS	T	72266713	T	T	72266713	3	4	20	1	0	0	0	0	1	0	0	0	15601	739	26	3	268	3	TBC1D15	12	72266713	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	65174836	72266713	61585182	139	9868	286	2								
TBC1D15	64786	broad.mit.edu	37	chr12	72266722	72266722	+	Missense_Mutation	SNP	T	A	A													0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tctctaggatgccgaagtaaTagtggactggagaccattgg							TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr12:72266722T>A	uc001swu.2	+	3	218	c.209T>A	c.(208-210)ATA>AAA	p.I70K	TBC1D15_uc009zrv.2_5'UTR|TBC1D15_uc010stt.1_Missense_Mutation_p.I56K|TBC1D15_uc001swv.2_Missense_Mutation_p.I70K|TBC1D15_uc001sww.2_5'UTR	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	48							protein binding|Rab GTPase activator activity				0						GCCGAAGTAATAGTGGACTGG	0.303													12	186	---	---	---	---	PASS	A	72266722	A	A	72266722	3	1	20	1	0	0	0	0	1	0	0	0	15601	1406	49	5	277	5	TBC1D15	12	72266722	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	9	72266722	61585173	140	9869	286	2								
TMTC3	160418	broad.mit.edu	37	chr12	88589318	88589318	+	Missense_Mutation	SNP	C	A	A													0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	caattaggaaaaaatggagaCgaagagacaccccacaaaac							TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr12:88589318C>A	uc001tau.2	+	14	2857	c.2637C>A	c.(2635-2637)GAC>GAA	p.D879E		NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat	880						integral to membrane	binding			skin(1)	1						AAAATGGAGACGAAGAGACAC	0.308													31	52	---	---	---	---	PASS	A	88589318	A	A	88589318	3	1	20	1	0	0	0	0	1	0	0	0	16259	535	19	1	2687	1	TMTC3	12	88589318	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	16322596	88589318	45262577	141	9870	287	2								
TMTC3	160418	broad.mit.edu	37	chr12	88589319	88589319	+	Missense_Mutation	SNP	G	A	A													0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aattaggaaaaaatggagacGaagagacaccccacaaaaca							TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr12:88589319G>A	uc001tau.2	+	14	2858	c.2638G>A	c.(2638-2640)GAA>AAA	p.E880K		NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat	881						integral to membrane	binding			skin(1)	1						AAATGGAGACGAAGAGACACC	0.313													31	49	---	---	---	---	PASS	A	88589319	A	A	88589319	3	1	20	1	0	0	0	0	1	0	0	0	16259	1059	37	2	2688	2	TMTC3	12	88589319	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	1	88589319	45262576	142	9871	287	2								
CRY1	1407	broad.mit.edu	37	chr12	107391697	107391697	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	atcacccttgatttacctgaTatagtctccattgggatctg	7	10	3	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr12:107391697T>C	uc001tmi.3	-	8	2144	c.1285A>G	c.(1285-1287)ATC>GTC	p.I429V		NM_004075	NP_004066	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	429	Required for inhibition of CLOCK-ARNTL- mediated transcription (By similarity).|FAD-binding.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			ovary(3)	3						ATTTACCTGATATAGTCTCCA	0.373													7	68	---	---	---	---	PASS	C	107391697	C	C	107391697	3	2	20	1	0	0	0	0	1	0	0	0	3903	1406	49	5	495	5	CRY1	12	107391697	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	18802378	107391697	26460198	143	9872										
MAB21L1	4081	broad.mit.edu	37	chr13	36050132	36050132	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gagctgatgaaccgcggctcCtgcacttccacttccttcag	9	15	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr13:36050132C>A	uc001uvc.2	-	1	701	c.144G>T	c.(142-144)CAG>CAT	p.Q48H	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	48					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		ACCGCGGCTCCTGCACTTCCA	0.512													41	96	---	---	---	---	PASS	A	36050132	A	A	36050132	3	1	20	1	0	0	0	0	1	0	0	0	9141	680	24	3	939	3	MAB21L1	13	36050132	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08		36050132	79119746	144	9873										
FAM48A	55578	broad.mit.edu	37	chr13	37605726	37605726	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ctacttcagaaggtatggccAaattacagggactccgtttc	9	10	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr13:37605726A>T	uc001uwg.2	-	12	1147	c.899T>A	c.(898-900)TTG>TAG	p.L300*	FAM48A_uc010abt.2_Nonsense_Mutation_p.L301*|FAM48A_uc001uwh.2_Nonsense_Mutation_p.L301*|FAM48A_uc001uwi.2_Nonsense_Mutation_p.L300*|FAM48A_uc001uwj.2_Nonsense_Mutation_p.L301*|FAM48A_uc001uwk.2_Nonsense_Mutation_p.L300*|FAM48A_uc010tes.1_Nonsense_Mutation_p.L288*|FAM48A_uc001uwl.1_Nonsense_Mutation_p.L300*	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A	300					autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		AGGTATGGCCAAATTACAGGG	0.279													22	48	---	---	---	---	PASS	T	37605726	T	T	37605726	4	4	20	1	0	0	0	0	0	1	0	0	5572	131	5	5	1500	5	FAM48A	13	37605726	Nonsense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	1555594	37605726	77564152	145	9874										
PCDH8	5100	broad.mit.edu	37	chr13	53420719	53420719	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	caggcaccgccacttctaggGagccattggctggcgccggg	15	14	1	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr13:53420719G>T	uc001vhi.2	-	1	2056	c.1853C>A	c.(1852-1854)TCC>TAC	p.S618Y	PCDH8_uc001vhj.2_Missense_Mutation_p.S618Y	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	618	Extracellular (Potential).|Cadherin 6.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		CACTTCTAGGGAGCCATTGGC	0.682													3	4	---	---	---	---	PASS	T	53420719	T	T	53420719	3	4	20	1	0	0	0	0	1	0	0	0	11517	1174	41	2	1371	2	PCDH8	13	53420719	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	15814993	53420719	61749159	146	9875										
C14orf106	55320	broad.mit.edu	37	chr14	45715975	45715975	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aactgtcatctgactggaatGatttgttgttttccttttct	7	7	3	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr14:45715975G>A	uc001wwf.2	-	2	974	c.515C>T	c.(514-516)TCA>TTA	p.S172L	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	172					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						TGACTGGAATGATTTGTTGTT	0.284													16	134	---	---	---	---	PASS	A	45715975	A	A	45715975	3	1	20	1	0	0	0	0	1	0	0	0	1738	1294	45	2	2947	2	C14orf106	14	45715975	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08		45715975	61633565	147	9876										
NID2	22795	broad.mit.edu	37	chr14	52485899	52485899	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gccatgacactgtaggggcaGgaagttgccctgctcgtcgc	14	12	0	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr14:52485899G>T	uc001wzo.2	-	14	3142	c.2908C>A	c.(2908-2910)CTG>ATG	p.L970M	NID2_uc010tqs.1_Missense_Mutation_p.L922M|NID2_uc010tqt.1_Missense_Mutation_p.L970M|NID2_uc001wzp.2_Missense_Mutation_p.L970M	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	970	Thyroglobulin type-1 1.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					TGTAGGGGCAGGAAGTTGCCC	0.627													10	38	---	---	---	---	PASS	T	52485899	T	T	52485899	3	4	20	1	0	0	0	0	1	0	0	0	10415	991	35	3	1255	3	NID2	14	52485899	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	6769924	52485899	54863641	148	9877										
EML5	161436	broad.mit.edu	37	chr14	89154734	89154734	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tccagaaaaagccatctcttCagtccatccatacactgcac	4	15	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr14:89154734C>T	uc001xxg.2	-	19	2809	c.2623G>A	c.(2623-2625)GAA>AAA	p.E875K	EML5_uc001xxh.1_Intron	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	875	WD 14.					cytoplasm|microtubule				ovary(3)	3						GCCATCTCTTCAGTCCATCCA	0.433													36	281	---	---	---	---	PASS	T	89154734	T	T	89154734	3	4	20	1	0	0	0	0	1	0	0	0	5100	835	29	2	3414	2	EML5	14	89154734	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	36668835	89154734	18194806	149	9878										
OR4N4	283694	broad.mit.edu	37	chr15	22383152	22383152	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	catcctctgccatgttcgtaGggcagcttctgaagggaaga	12	10	2	2	rs148284064		TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr15:22383152G>T	uc001yuc.1	+	7	1661	c.680G>T	c.(679-681)AGG>ATG	p.R227M	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.R227M	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CATGTTCGTAGGGCAGCTTCT	0.493													28	37	---	---	---	---	PASS	T	22383152	T	T	22383152	3	4	20	1	0	0	0	0	1	0	0	0	11078	1000	35	3	682	3	OR4N4	15	22383152	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08		22383152	80148240	150	9879										
SCG5	6447	broad.mit.edu	37	chr15	32972055	32972055	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	actggagacaacattcctaaGgactttagtgaggatcaggg	12	7	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr15:32972055G>T	uc001zha.2	+	3	432	c.315G>T	c.(313-315)AAG>AAT	p.K105N	SCG5_uc001zgz.2_Missense_Mutation_p.K105N	NM_001144757	NP_001138229	P05408	7B2_HUMAN	secretogranin V isoform 1	105					intracellular protein transport|neuropeptide signaling pathway|peptide hormone processing|regulation of hormone secretion	extracellular region|stored secretory granule	enzyme inhibitor activity|GTP binding|unfolded protein binding				0		all_lung(180;7.32e-08)		all cancers(64;6.48e-17)|Epithelial(43;1.23e-11)|GBM - Glioblastoma multiforme(186;1.39e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0212)		ACATTCCTAAGGACTTTAGTG	0.498													21	220	---	---	---	---	PASS	T	32972055	T	T	32972055	3	4	20	1	0	0	0	0	1	0	0	0	13893	991	35	3	321	3	SCG5	15	32972055	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	10588903	32972055	69559337	151	9880										
SLC27A2	11001	broad.mit.edu	37	chr15	50489802	50489802	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	agatgggattgactctttccTggacaaagtggatgaagtat	12	5	1	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr15:50489802T>C	uc001zxw.2	+	2	816	c.584T>C	c.(583-585)CTG>CCG	p.L195P	SLC27A2_uc010bes.2_Missense_Mutation_p.L195P|SLC27A2_uc001zxx.2_5'UTR	NM_003645	NP_003636	O14975	S27A2_HUMAN	solute carrier family 27 (fatty acid	195	Lumenal (Potential).				bile acid biosynthetic process|fatty acid alpha-oxidation	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity|phytanate-CoA ligase activity|pristanate-CoA ligase activity			ovary(1)|skin(1)	2		all_lung(180;0.00177)		all cancers(107;1.16e-06)|GBM - Glioblastoma multiforme(94;0.000113)		GACTCTTTCCTGGACAAAGTG	0.423													13	96	---	---	---	---	PASS	C	50489802	C	C	50489802	3	2	20	1	0	0	0	0	1	0	0	0	14526	1580	55	5	590	5	SLC27A2	15	50489802	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	17517747	50489802	52041590	152	9881										
ONECUT1	3175	broad.mit.edu	37	chr15	53081625	53081625	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ggccagcccgcgctcatcccGcatgagcgtgaagctaccgc	12	17	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr15:53081625G>A	uc002aci.1	-	1	585	c.457C>T	c.(457-459)CGG>TGG	p.R153W		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	153					endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		CGCTCATCCCGCATGAGCGTG	0.502													4	90	---	---	---	---	PASS	A	53081625	A	A	53081625	3	1	20	1	0	0	0	0	1	0	0	0	10868	1086	38	1	948	1	ONECUT1	15	53081625	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	2591823	53081625	49449767	153	9882										
UNC13C	440279	broad.mit.edu	37	chr15	54305472	54305472	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	caagagctctcttcaatcgaGagttcctactcagaatcatt	6	11	4	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr15:54305472G>A	uc002ack.2	+	1	372	c.372G>A	c.(370-372)GAG>GAA	p.E124E		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	124	Potential.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		CTTCAATCGAGAGTTCCTACT	0.408													11	30	---	---	---	---	PASS	A	54305472	A	A	54305472	2	1	20	1	0	0	0	0	0	0	0	1	16983	933	33	2		2	UNC13C	15	54305472	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	1223847	54305472	48225920	154	9883										
BCL2A1	597	broad.mit.edu	37	chr15	80263061	80263061	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cccagcctccgttttgccttAtccattctcctgtgttattc	5	15	1	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr15:80263061A>C	uc002bfc.3	-	1	583	c.401T>G	c.(400-402)ATA>AGA	p.I134R	BCL2A1_uc002bfd.3_Missense_Mutation_p.I134R	NM_004049	NP_004040	Q16548	B2LA1_HUMAN	BCL2-related protein A1 isoform 1	134	BH2.				anti-apoptosis|apoptosis	cytoplasm	protein binding			pancreas(1)	1						GTTTTGCCTTATCCATTCTCC	0.373													13	201	---	---	---	---	PASS	C	80263061	C	C	80263061	3	2	20	1	0	0	0	0	1	0	0	0	1366	449	16	5	194	5	BCL2A1	15	80263061	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08	25957589	80263061	22268331	155	9884										
KLHL25	64410	broad.mit.edu	37	chr15	86312069	86312069	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cttccgggggctgggcaggtCggccttggggatgatctcct	17	11	1	1	rs139382084		TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr15:86312069C>A	uc002bly.2	-	2	1176	c.973G>T	c.(973-975)GAC>TAC	p.D325Y		NM_022480	NP_071925	Q9H0H3	ENC2_HUMAN	BTB/POZ KELCH domain protein	325	Kelch 1.					cytoplasm				ovary(2)	2						CTGGGCAGGTCGGCCTTGGGG	0.632													17	33	---	---	---	---	PASS	A	86312069	A	A	86312069	3	1	20	1	0	0	0	0	1	0	0	0	8380	884	31	2	800	2	KLHL25	15	86312069	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	6049008	86312069	16219323	156	9885										
OR4F15	390649	broad.mit.edu	37	chr15	102358392	102358392	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	atcttggagtctgaggcaatGaatggaatgaatcactctgt	11	6	4	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr15:102358392G>C	uc010uts.1	+	1	3	c.3G>C	c.(1-3)ATG>ATC	p.M1I		NM_001001674	NP_001001674	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			CTGAGGCAATGAATGGAATGA	0.368													14	164	---	---	---	---	PASS	C	102358392	C	C	102358392	3	2	20	1	0	0	0	0	1	0	0	0	11061	1290	45	2	5	2	OR4F15	15	102358392	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	16046323	102358392	173000	157	9886										
MAPK8IP3	23162	broad.mit.edu	37	chr16	1810516	1810516	+	Silent	SNP	G	T	T													0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gaaaaccgtatcaaggagctGgaagaggaactgaaaaggtg							TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr16:1810516G>T	uc002cmk.2	+	12	1557	c.1437G>T	c.(1435-1437)CTG>CTT	p.L479L	MAPK8IP3_uc002cml.2_Silent_p.L473L|MAPK8IP3_uc010uvl.1_Silent_p.L480L	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	479	Potential.				vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						TCAAGGAGCTGGAAGAGGAAC	0.617													6	108	---	---	---	---	PASS	T	1810516	T	T	1810516	2	4	20	1	0	0	0	0	0	0	0	1	9286	1335	47	3		3	MAPK8IP3	16	1810516	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08		1810516	88544237	158	9887	288	2								
MAPK8IP3	23162	broad.mit.edu	37	chr16	1810517	1810517	+	Nonsense_Mutation	SNP	G	T	T													0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aaaaccgtatcaaggagctgGaagaggaactgaaaaggtga							TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr16:1810517G>T	uc002cmk.2	+	12	1558	c.1438G>T	c.(1438-1440)GAA>TAA	p.E480*	MAPK8IP3_uc002cml.2_Nonsense_Mutation_p.E474*|MAPK8IP3_uc010uvl.1_Nonsense_Mutation_p.E481*	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	480	Potential.				vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						CAAGGAGCTGGAAGAGGAACT	0.612													6	107	---	---	---	---	PASS	T	1810517	T	T	1810517	4	4	20	1	0	0	0	0	0	1	0	0	9286	1175	41	2	1500	2	MAPK8IP3	16	1810517	Nonsense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	1	1810517	88544236	159	9888	288	2								
TMC5	79838	broad.mit.edu	37	chr16	19451611	19451611	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tctgagtaatccagactattCtggcaccagaagcaatgcat	8	10	2	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr16:19451611C>T	uc002dgc.3	+	3	1000	c.251C>T	c.(250-252)TCT>TTT	p.S84F	TMC5_uc010vaq.1_Missense_Mutation_p.S84F|TMC5_uc002dgb.3_Missense_Mutation_p.S84F|TMC5_uc010var.1_Missense_Mutation_p.S84F	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	84	Extracellular (Potential).					integral to membrane				skin(1)	1						CCAGACTATTCTGGCACCAGA	0.478													27	120	---	---	---	---	PASS	T	19451611	T	T	19451611	3	4	20	1	0	0	0	0	1	0	0	0	15985	913	32	2	253	2	TMC5	16	19451611	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	17641094	19451611	70903142	160	9889										
C16orf62	57020	broad.mit.edu	37	chr16	19711758	19711758	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	accagacatgactcatctgaCggagctggccctcagactcc	9	15	3	4			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr16:19711758C>T	uc002dgn.1	+	31	2864	c.2852C>T	c.(2851-2853)ACG>ATG	p.T951M	C16orf62_uc002dgo.1_Missense_Mutation_p.T858M|C16orf62_uc002dgp.1_Missense_Mutation_p.T700M	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	951						integral to membrane				ovary(1)	1						ACTCATCTGACGGAGCTGGCC	0.502													22	61	---	---	---	---	PASS	T	19711758	T	T	19711758	3	4	20	1	0	0	0	0	1	0	0	0	1825	536	19	1	2974	1	C16orf62	16	19711758	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	260147	19711758	70642995	161	9890										
SETD1A	9739	broad.mit.edu	37	chr16	30994981	30994981	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ggccgacatgcgggagaagcGctacgtgcaggagggcattg	18	9	0	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr16:30994981G>A	uc002ead.1	+	18	5524	c.4838G>A	c.(4837-4839)CGC>CAC	p.R1613H	HSD3B7_uc002eaf.2_5'Flank|HSD3B7_uc010cac.2_5'Flank|HSD3B7_uc002eag.2_5'Flank|HSD3B7_uc002eah.2_5'Flank	NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1613	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						CGGGAGAAGCGCTACGTGCAG	0.622													7	16	---	---	---	---	PASS	A	30994981	A	A	30994981	3	1	20	1	0	0	0	0	1	0	0	0	14130	1087	38	1	4904	1	SETD1A	16	30994981	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	11283223	30994981	59359772	162	9891										
SNX20	124460	broad.mit.edu	37	chr16	50709793	50709793	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	agtactgctgaagctcccgcGtggtcatgctggagttggag	15	9	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr16:50709793G>T	uc002egk.2	-	3	343	c.170C>A	c.(169-171)ACG>AAG	p.T57K	SNX20_uc010vgp.1_Missense_Mutation_p.T57K|SNX20_uc002egi.3_Missense_Mutation_p.T57K	NM_182854	NP_878274	Q7Z614	SNX20_HUMAN	sorting nexin 20 isoform 1	57					cell communication|protein transport	endosome membrane|nucleus|plasma membrane	phosphatidylinositol binding|protein binding			ovary(1)	1						AAGCTCCCGCGTGGTCATGCT	0.552													38	87	---	---	---	---	PASS	T	50709793	T	T	50709793	3	4	20	1	0	0	0	0	1	0	0	0	14892	1145	40	1	931	1	SNX20	16	50709793	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	19714812	50709793	39644960	163	9892										
GOT2	2806	broad.mit.edu	37	chr16	58750585	58750585	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	accatataagcccatgttctTggcatatgattggcagaggc	10	9	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr16:58750585T>C	uc002eof.1	-	7	949	c.835A>G	c.(835-837)AAG>GAG	p.K279E	GOT2_uc010vim.1_Missense_Mutation_p.K236E	NM_002080	NP_002071	P00505	AATM_HUMAN	aspartate aminotransferase 2 precursor	279					aspartate catabolic process|fatty acid transport|gluconeogenesis|response to ethanol	mitochondrial matrix|plasma membrane	L-aspartate:2-oxoglutarate aminotransferase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CCCATGTTCTTGGCATATGAT	0.473													25	52	---	---	---	---	PASS	C	58750585	C	C	58750585	3	2	20	1	0	0	0	0	1	0	0	0	6581	1821	63	5	473	5	GOT2	16	58750585	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	8040792	58750585	31604168	164	9893										
DPEP2	64174	broad.mit.edu	37	chr16	68021501	68021501	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgagactgaccacttggctgGtaacttggctgtccagtgta	12	9	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr16:68021501G>C	uc010cey.2	-	10	1533	c.1369C>G	c.(1369-1371)CCA>GCA	p.P457A	DPEP2_uc002evd.3_Missense_Mutation_p.P462A|DPEP2_uc002eve.2_Missense_Mutation_p.P457A|DPEP2_uc002evf.2_RNA	NM_022355	NP_071750	Q9H4A9	DPEP2_HUMAN	dipeptidase 2 precursor	457					hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|proteolysis	anchored to membrane|plasma membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0489)|all cancers(182;0.239)		CACTTGGCTGGTAACTTGGCT	0.567													71	153	---	---	---	---	PASS	C	68021501	C	C	68021501	3	2	20	1	0	0	0	0	1	0	0	0	4714	1261	44	4	95	4	DPEP2	16	68021501	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	9270916	68021501	22333252	165	9894										
ADAMTS18	170692	broad.mit.edu	37	chr16	77396100	77396100	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cattctttccaatgagggcaGactgccattgacaaaaacta	7	10	1	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr16:77396100G>T	uc002ffc.3	-	7	1537	c.1118C>A	c.(1117-1119)TCT>TAT	p.S373Y	ADAMTS18_uc010chc.1_Translation_Start_Site|ADAMTS18_uc002ffe.1_Missense_Mutation_p.S69Y|ADAMTS18_uc010vni.1_Intron	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	373	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						AATGAGGGCAGACTGCCATTG	0.403													33	42	---	---	---	---	PASS	T	77396100	T	T	77396100	3	4	20	1	0	0	0	0	1	0	0	0	263	942	33	2	2615	2	ADAMTS18	16	77396100	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	9374599	77396100	12958653	166	9895										
SERPINF2	5345	broad.mit.edu	37	chr17	1650356	1650356	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aggctgcaacaggtgctgcaCgcaggctcagggccctgcct	14	14	1	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr17:1650356C>A	uc002ftk.1	+	6	488	c.411C>A	c.(409-411)CAC>CAA	p.H137Q	SERPINF2_uc010vqr.1_Missense_Mutation_p.H73Q	NM_000934	NP_000925	P08697	A2AP_HUMAN	alpha-2-antiplasmin isoform a precursor	137					acute-phase response|fibrinolysis|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)	Streptokinase(DB00086)	AGGTGCTGCACGCAGGCTCAG	0.682													8	21	---	---	---	---	PASS	A	1650356	A	A	1650356	3	1	20	1	0	0	0	0	1	0	0	0	14115	535	19	1	439	1	SERPINF2	17	1650356	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08		1650356	79544854	167	9896										
PLD2	5338	broad.mit.edu	37	chr17	4720515	4720515	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	accagcacggccaatcagctCcccttcacacttccaggagg	8	17	2	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr17:4720515C>T	uc002fzc.2	+	17	1877	c.1776C>T	c.(1774-1776)CTC>CTT	p.L592L	PLD2_uc010vsj.1_Silent_p.L449L|PLD2_uc002fzd.2_Silent_p.L592L	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	592	Catalytic.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	CCAATCAGCTCCCCTTCACAC	0.602													49	142	---	---	---	---	PASS	T	4720515	T	T	4720515	2	4	20	1	0	0	0	0	0	0	0	1	12046	842	30	2		2	PLD2	17	4720515	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	3070159	4720515	76474695	168	9897										
AMAC1L3	643664	broad.mit.edu	37	chr17	7385380	7385380	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ctccgctccacccagcctccGctggcaccagtgctgccagc	9	21	0	0	rs61740425		TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr17:7385380G>A	uc010cmj.1	+	2	192	c.77G>A	c.(76-78)CGC>CAC	p.R26H	ZBTB4_uc002ghc.3_5'Flank|ZBTB4_uc002ghd.3_Intron|POLR2A_uc002ghe.2_5'Flank|POLR2A_uc002ghf.3_5'Flank	NM_001102614	NP_001096084	P0C7Q6	AMCL3_HUMAN	acyl-malonyl condensing enzyme 1-like 3	26						integral to membrane					0		Prostate(122;0.173)				CCCAGCCTCCGCTGGCACCAG	0.662													14	70	---	---	---	---	PASS	A	7385380	A	A	7385380	3	1	20	1	0	0	0	0	1	0	0	0	561	1087	38	1	83	1	AMAC1L3	17	7385380	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	2664865	7385380	73809830	169	9898										
DNAH2	146754	broad.mit.edu	37	chr17	7681435	7681435	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ccgccagaccaacacgcaatTtcagtataattatgagtact	6	11	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr17:7681435T>G	uc002giu.1	+	33	5302	c.5288T>G	c.(5287-5289)TTT>TGT	p.F1763C		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1763	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				AACACGCAATTTCAGTATAAT	0.542													4	43	---	---	---	---	PASS	G	7681435	G	G	7681435	3	3	20	1	0	0	0	0	1	0	0	0	4602	1841	64	5	5418	5	DNAH2	17	7681435	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	296055	7681435	73513775	170	9899										
SSH2	85464	broad.mit.edu	37	chr17	27959196	27959196	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cttcaggactccttcctgctGtgttccagtatctgaccctg	8	14	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr17:27959196G>T	uc002heo.1	-	15	2935	c.2935C>A	c.(2935-2937)CAG>AAG	p.Q979K	SSH2_uc010wbh.1_Missense_Mutation_p.Q1006K	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	979					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						CCTTCCTGCTGTGTTCCAGTA	0.537													41	87	---	---	---	---	PASS	T	27959196	T	T	27959196	3	4	20	1	0	0	0	0	1	0	0	0	15184	1386	48	3	1340	3	SSH2	17	27959196	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	20277761	27959196	53236014	171	9900										
KRT33B	3884	broad.mit.edu	37	chr17	39525757	39525757	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cggatgaggttctccagctcCgcgttgtcccgctccagctg	12	15	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr17:39525757C>T	uc002hwl.2	-	1	291	c.246G>A	c.(244-246)GCG>GCA	p.A82A		NM_002279	NP_002270	Q14525	KT33B_HUMAN	type I hair keratin 3B	82	Coil 1A.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				TCTCCAGCTCCGCGTTGTCCC	0.607													20	108	---	---	---	---	PASS	T	39525757	T	T	39525757	2	4	20	1	0	0	0	0	0	0	0	1	8470	639	23	1		1	KRT33B	17	39525757	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	11566561	39525757	41669453	172	9901										
KCNH4	23415	broad.mit.edu	37	chr17	40321497	40321497	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ggagaccctgcaggctacctCgttggcgtcgatgccgctgt	14	13	0	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr17:40321497C>T	uc002hzb.2	-	9	1921	c.1588G>A	c.(1588-1590)GAG>AAG	p.E530K		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	530	Cytoplasmic (Potential).				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)		CAGGCTACCTCGTTGGCGTCG	0.637													5	78	---	---	---	---	PASS	T	40321497	T	T	40321497	3	4	20	1	0	0	0	0	1	0	0	0	8034	893	31	2	1497	2	KCNH4	17	40321497	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	795740	40321497	40873713	173	9902										
G6PC	2538	broad.mit.edu	37	chr17	41063400	41063400	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cgtcagtgtcatcccctactGcctcgcccaggtcctgggcc	10	18	2	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr17:41063400G>T	uc002icb.1	+	5	1110	c.1031G>T	c.(1030-1032)TGC>TTC	p.C344F	G6PC_uc010whf.1_3'UTR	NM_000151	NP_000142	P35575	G6PC_HUMAN	glucose-6-phosphatase, catalytic subunit	344	Cytoplasmic (Potential).				gluconeogenesis|glucose homeostasis|transmembrane transport	integral to endoplasmic reticulum membrane	glucose-6-phosphatase activity|phosphate binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.113)		ATCCCCTACTGCCTCGCCCAG	0.557									Glycogen_Storage_Disease_type_Ia				30	127	---	---	---	---	PASS	T	41063400	T	T	41063400	3	4	20	1	0	0	0	0	1	0	0	0	6143	1319	46	3	1049	3	G6PC	17	41063400	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	741903	41063400	40131810	174	9903										
HOXB8	3218	broad.mit.edu	37	chr17	46691646	46691646	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ccccgaggcgagctcaccttGcgggcgcatccaggggaaga	15	14	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr17:46691646G>A	uc002inw.2	-	1	656	c.421C>T	c.(421-423)CAA>TAA	p.Q141*		NM_024016	NP_076921	P17481	HXB8_HUMAN	homeobox B8	141						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGCTCACCTTGCGGGCGCATC	0.716													4	13	---	---	---	---	PASS	A	46691646	A	A	46691646	4	1	20	1	0	0	0	0	0	1	0	0	7307	1328	46	3	318	3	HOXB8	17	46691646	Nonsense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	5628246	46691646	34503564	175	9904										
RSAD1	55316	broad.mit.edu	37	chr17	48561869	48561869	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gagcgaacaaggaggtgcagGagctgctggagcggggccta	19	8	0	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr17:48561869G>A	uc002iqw.1	+	8	1230	c.1174G>A	c.(1174-1176)GAG>AAG	p.E392K	RSAD1_uc010wmq.1_RNA	NM_018346	NP_060816	Q9HA92	RSAD1_HUMAN	radical S-adenosyl methionine domain containing	392					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)			GGAGGTGCAGGAGCTGCTGGA	0.642													11	144	---	---	---	---	PASS	A	48561869	A	A	48561869	3	1	20	1	0	0	0	0	1	0	0	0	13694	1175	41	2	1204	2	RSAD1	17	48561869	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	1870223	48561869	32633341	176	9905										
CD300LB	124599	broad.mit.edu	37	chr17	72522207	72522207	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cagactctgggccttggatgGagaaacagcctggaaaacag	13	9	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr17:72522207G>T	uc002jkx.2	-	2	174	c.161C>A	c.(160-162)TCC>TAC	p.S54Y	CD300LB_uc010wqz.1_Missense_Mutation_p.S54Y	NM_174892	NP_777552	A8K4G0	CLM7_HUMAN	CD300 molecule-like family member b	17						integral to membrane|plasma membrane	receptor activity			ovary(1)	1						GCCTTGGATGGAGAAACAGCC	0.557													18	232	---	---	---	---	PASS	T	72522207	T	T	72522207	3	4	20	1	0	0	0	0	1	0	0	0	2999	1174	41	2	567	2	CD300LB	17	72522207	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	23960338	72522207	8673003	177	9906										
SMAD4	4089	broad.mit.edu	37	chr18	48604810	48604810	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gaagtacttcataccatgccGattgcagacccacaaccttt	6	13	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr18:48604810G>T	uc010xdp.1	+	12	2170	c.1632G>T	c.(1630-1632)CCG>CCT	p.P544P	SMAD4_uc002lfb.3_Silent_p.P389P	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	544	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		ATACCATGCCGATTGCAGACC	0.458									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				6	69	---	---	---	---	PASS	T	48604810	T	T	48604810	2	4	20	1	0	0	0	0	0	0	0	1	14760	1045	37	2		2	SMAD4	18	48604810	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08		48604810	29472438	178	9907										
THEG	51298	broad.mit.edu	37	chr19	362268	362268	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gggtggcaagctcatagaggCgaggggacgcctgtcgtatc	17	9	1	1	rs112813656		TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:362268C>T	uc002lol.2	-	8	1111	c.1072G>A	c.(1072-1074)GCC>ACC	p.A358T	THEG_uc002lom.2_Missense_Mutation_p.A334T	NM_016585	NP_057669	Q9P2T0	THEG_HUMAN	Theg homolog isoform 1	358					cell differentiation|chaperone-mediated protein complex assembly|multicellular organismal development|spermatogenesis	nucleus	protein binding			ovary(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCATAGAGGCGAGGGGACGC	0.602													23	197	---	---	---	---	PASS	T	362268	T	T	362268	3	4	20	1	0	0	0	0	1	0	0	0	15854	768	27	1	71	1	THEG	19	362268	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08		362268	58766715	179	9908										
SHC2	25759	broad.mit.edu	37	chr19	439005	439005	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tccccggacgccaggcacggCctcatggagccggttgatgg	15	14	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:439005C>A	uc002loq.3	-	3	565	c.565G>T	c.(565-567)GCC>TCC	p.A189S	SHC2_uc002lop.3_5'Flank	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	189	PID.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGGCACGGCCTCATGGAGC	0.572													3	10	---	---	---	---	PASS	A	439005	A	A	439005	3	1	20	1	0	0	0	0	1	0	0	0	14271	739	26	3	1223	3	SHC2	19	439005	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	76737	439005	58689978	180	9909										
SIRT6	51548	broad.mit.edu	37	chr19	4174904	4174904	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	catgagccgggtcatgacctCgtcaacgtagccatggatgc	12	12	2	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:4174904C>A	uc002lzo.2	-	8	838	c.778G>T	c.(778-780)GAG>TAG	p.E260*	SIRT6_uc002lzn.2_Silent_p.T174T|SIRT6_uc002lzp.2_Silent_p.T185T|SIRT6_uc010xid.1_Nonsense_Mutation_p.E188*|SIRT6_uc002lzq.2_Nonsense_Mutation_p.E233*|SIRT6_uc002lzr.2_Nonsense_Mutation_p.E161*	NM_016539	NP_057623	Q8N6T7	SIRT6_HUMAN	sirtuin 6	260	Deacetylase sirtuin-type.				chromatin silencing|protein ADP-ribosylation	nuclear telomeric heterochromatin|nucleoplasm	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity|NAD+ binding|NAD-dependent histone deacetylase activity (H3-K9 specific)|protein binding|zinc ion binding			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.023)|STAD - Stomach adenocarcinoma(1328;0.18)		GTCATGACCTCGTCAACGTAG	0.721													7	30	---	---	---	---	PASS	A	4174904	A	A	4174904	4	1	20	1	0	0	0	0	0	1	0	0	14342	893	31	2	293	2	SIRT6	19	4174904	Nonsense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	3735899	4174904	54954079	181	9910										
TMEM146	257062	broad.mit.edu	37	chr19	5745966	5745966	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	accccctcaaccggagtttcGggctgtcttttgactataat	8	12	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:5745966G>T	uc002mda.2	+	9	761	c.700G>T	c.(700-702)GGG>TGG	p.G234W	TMEM146_uc010duj.1_5'UTR	NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	234	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCGGAGTTTCGGGCTGTCTTT	0.522													83	257	---	---	---	---	PASS	T	5745966	T	T	5745966	3	4	20	1	0	0	0	0	1	0	0	0	16057	1116	39	1	734	1	TMEM146	19	5745966	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	1571062	5745966	53383017	182	9911										
MUC16	94025	broad.mit.edu	37	chr19	9057326	9057326	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gaggaggaagggatactctgCggtaatgtggaagaaacaga	16	4	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:9057326C>T	uc002mkp.2	-	3	30324	c.30120G>A	c.(30118-30120)CCG>CCA	p.P10040P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10042	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGATACTCTGCGGTAATGTGG	0.468													8	55	---	---	---	---	PASS	T	9057326	T	T	9057326	2	4	20	1	0	0	0	0	0	0	0	1	9973	755	27	1		1	MUC16	19	9057326	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	3311360	9057326	50071657	183	9912										
DNM2	1785	broad.mit.edu	37	chr19	10939875	10939875	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	catcatcggtgacatcagcaCcagcactgtgtccacgcctg	9	15	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:10939875C>A	uc002mps.1	+	19	2386	c.2222C>A	c.(2221-2223)ACC>AAC	p.T741N	DNM2_uc010dxk.2_Intron|DNM2_uc002mpt.1_Missense_Mutation_p.T741N|DNM2_uc002mpv.1_Missense_Mutation_p.T737N|DNM2_uc002mpu.1_Missense_Mutation_p.T737N|DNM2_uc010dxl.1_Missense_Mutation_p.T741N|DNM2_uc002mpw.2_Missense_Mutation_p.T470N|DNM2_uc002mpx.1_Missense_Mutation_p.T97N	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	741	GED.				G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			GACATCAGCACCAGCACTGTG	0.637													7	64	---	---	---	---	PASS	A	10939875	A	A	10939875	3	1	20	1	0	0	0	0	1	0	0	0	4672	507	18	3	2439	3	DNM2	19	10939875	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	1882549	10939875	48189108	184	9913										
UNC13A	23025	broad.mit.edu	37	chr19	17756884	17756884	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cataggggtcactggatcctGtcttgtcctttgcctgcaag	11	11	2	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:17756884G>T	uc002nhd.2	-	18	2345	c.2345C>A	c.(2344-2346)ACA>AAA	p.T782K		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	694	C2 2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						ACTGGATCCTGTCTTGTCCTT	0.557													6	40	---	---	---	---	PASS	T	17756884	T	T	17756884	3	4	20	1	0	0	0	0	1	0	0	0	16981	1377	48	3	3134	3	UNC13A	19	17756884	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	6817009	17756884	41372099	185	9914										
UNC13A	23025	broad.mit.edu	37	chr19	17768938	17768938	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	actgtaggactcccgggagcCcaggggtggtgggcgaacag	18	10	0	0	rs139378806	by1000genomes	TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:17768938C>T	uc002nhd.2	-	10	964	c.964G>A	c.(964-966)GGC>AGC	p.G322S		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	234					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						TCCCGGGAGCCCAGGGGTGGT	0.577													8	27	---	---	---	---	PASS	T	17768938	T	T	17768938	3	4	20	1	0	0	0	0	1	0	0	0	16981	623	22	3	4547	3	UNC13A	19	17768938	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	12054	17768938	41360045	186	9915										
MAG	4099	broad.mit.edu	37	chr19	35804198	35804198	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ggtttcccctcttagagcgaGaggcgcctgggatctgagag	15	10	2	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:35804198G>A	uc002nyy.1	+	11	1871	c.1722G>A	c.(1720-1722)GAG>GAA	p.E574E	MAG_uc002nyx.1_3'UTR|MAG_uc010eds.1_Silent_p.E549E|MAG_uc002nyz.1_Silent_p.E574E	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	574	Cytoplasmic (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			CTTAGAGCGAGAGGCGCCTGG	0.617													92	239	---	---	---	---	PASS	A	35804198	A	A	35804198	2	1	20	1	0	0	0	0	0	0	0	1	9162	933	33	2		2	MAG	19	35804198	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	18035260	35804198	23324785	187	9916										
PSG5	5673	broad.mit.edu	37	chr19	43689098	43689098	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgtatgcaggcccatatataTttatttgaccgtctactaca	6	9	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:43689098T>A	uc002ovu.2	-	2	397	c.266A>T	c.(265-267)AAT>ATT	p.N89I	PSG6_uc010xwk.1_Intron|PSG5_uc010eir.2_Missense_Mutation_p.N17I|PSG5_uc002ovx.2_Missense_Mutation_p.N89I|PSG5_uc002ovv.2_Missense_Mutation_p.N89I|PSG5_uc002ovw.2_Missense_Mutation_p.N89I	NM_002781	NP_002772	Q15238	PSG5_HUMAN	pregnancy specific beta-1-glycoprotein 5	89	Ig-like V-type.				female pregnancy	extracellular region				skin(3)	3		Prostate(69;0.00899)				CCCATATATATTTATTTGACC	0.438													240	221	---	---	---	---	PASS	A	43689098	A	A	43689098	3	1	20	1	0	0	0	0	1	0	0	0	12658	1493	52	5	757	5	PSG5	19	43689098	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	7884900	43689098	15439885	188	9917										
ZNF230	7773	broad.mit.edu	37	chr19	44514961	44514961	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	accttatatttgtgagaaatGtgggagggccttcattcacg	11	7	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:44514961G>A	uc002oyb.1	+	5	1021	c.770G>A	c.(769-771)TGT>TAT	p.C257Y		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	257	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				TGTGAGAAATGTGGGAGGGCC	0.413													102	110	---	---	---	---	PASS	A	44514961	A	A	44514961	3	1	20	1	0	0	0	0	1	0	0	0	17781	1377	48	3	784	3	ZNF230	19	44514961	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	825863	44514961	14614022	189	9918										
TRPM4	54795	broad.mit.edu	37	chr19	49671211	49671211	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ccgaacggatccagctgcagTttatagtctggtcacacgca	10	12	2	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:49671211T>C	uc002pmw.2	+	4	377	c.305T>C	c.(304-306)GTT>GCT	p.V102A	TRPM4_uc010emu.2_Missense_Mutation_p.V102A|TRPM4_uc010yak.1_Intron|TRPM4_uc002pmx.2_Intron|TRPM4_uc010emv.2_Intron|TRPM4_uc010yal.1_Intron	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	102	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		CCAGCTGCAGTTTATAGTCTG	0.607													13	280	---	---	---	---	PASS	C	49671211	C	C	49671211	3	2	20	1	0	0	0	0	1	0	0	0	16585	1725	60	5	319	5	TRPM4	19	49671211	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	5156250	49671211	9457772	190	9919										
ALDH16A1	126133	broad.mit.edu	37	chr19	49965239	49965239	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ctgctgacggacacggcggaCgtagactcggccgtggaggg	18	11	0	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:49965239C>T	uc002pnt.2	+	7	974	c.858C>T	c.(856-858)GAC>GAT	p.D286D	ALDH16A1_uc010yar.1_Intron|ALDH16A1_uc010yas.1_Silent_p.D121D|ALDH16A1_uc010yat.1_Silent_p.D123D	NM_153329	NP_699160	Q8IZ83	A16A1_HUMAN	aldehyde dehydrogenase 16 family, member A1	286							oxidoreductase activity|protein binding			skin(1)	1		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00156)|GBM - Glioblastoma multiforme(486;0.0251)		ACACGGCGGACGTAGACTCGG	0.721													6	3	---	---	---	---	PASS	T	49965239	T	T	49965239	2	4	20	1	0	0	0	0	0	0	0	1	488	535	19	1		1	ALDH16A1	19	49965239	Silent	SNP	C	TCGA-21-1071-01A-01D-1521-08	294028	49965239	9163744	191	9920										
LILRA6	79168	broad.mit.edu	37	chr19	54744817	54744817	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aggggctcacagggcccaggGtgaagttggcctgggagagc	19	9	1	2			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr19:54744817G>T	uc002qeu.1	-	5	969	c.845C>A	c.(844-846)ACC>AAC	p.T282N	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Missense_Mutation_p.T282N|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Missense_Mutation_p.T282N|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Missense_Mutation_p.T282N|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Missense_Mutation_p.T282N|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Missense_Mutation_p.T282N|LILRA6_uc010yeq.1_Missense_Mutation_p.T282N|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Missense_Mutation_p.T143N	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	282	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		AGGGCCCAGGGTGAAGTTGGC	0.647													49	112	---	---	---	---	PASS	T	54744817	T	T	54744817	3	4	20	1	0	0	0	0	1	0	0	0	8789	1261	44	3	616	3	LILRA6	19	54744817	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	4779578	54744817	4384166	192	9921										
TASP1	55617	broad.mit.edu	37	chr20	13415774	13415774	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	caatcactccgccaagcacgCcatcttcactggcaaggaaa	7	15	3	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr20:13415774C>A	uc002woi.2	-	12	1130	c.1013G>T	c.(1012-1014)GGC>GTC	p.G338V	TASP1_uc010zri.1_RNA|TASP1_uc002woh.2_Missense_Mutation_p.G315V	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	338					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						GCCAAGCACGCCATCTTCACT	0.403													4	36	---	---	---	---	PASS	A	13415774	A	A	13415774	3	1	20	1	0	0	0	0	1	0	0	0	15586	739	26	3	261	3	TASP1	20	13415774	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08		13415774	49609746	193	9922										
RALGAPB	57148	broad.mit.edu	37	chr20	37121581	37121581	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tcttttgtctaggtaaaatgGaccatggaagtaatttgcta	9	5	2	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr20:37121581G>T	uc002xiw.2	+	3	452	c.195G>T	c.(193-195)TGG>TGT	p.W65C	RALGAPB_uc010zvz.1_Missense_Mutation_p.W65C|RALGAPB_uc002xix.2_Missense_Mutation_p.W65C|RALGAPB_uc002xiy.1_Missense_Mutation_p.W65C|RALGAPB_uc002xiz.2_5'UTR	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	65					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						AGGTAAAATGGACCATGGAAG	0.343													28	199	---	---	---	---	PASS	T	37121581	T	T	37121581	3	4	20	1	0	0	0	0	1	0	0	0	13015	1183	41	2	201	2	RALGAPB	20	37121581	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	23705807	37121581	25903939	194	9923										
SGK2	10110	broad.mit.edu	37	chr20	42203616	42203616	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ggactggtggtgcttgggggCagtcctctacgagatgctcc	16	10	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr20:42203616C>T	uc002xkv.2	+	9	1064	c.845C>T	c.(844-846)GCA>GTA	p.A282V	SGK2_uc002xkt.2_RNA|SGK2_uc002xkr.2_Missense_Mutation_p.A222V|SGK2_uc010ggm.2_Missense_Mutation_p.A222V|SGK2_uc002xks.2_Missense_Mutation_p.A221V|SGK2_uc002xku.2_Missense_Mutation_p.A222V	NM_016276	NP_057360	Q9HBY8	SGK2_HUMAN	serum/glucocorticoid regulated kinase 2 isoform	282	Protein kinase.				intracellular protein kinase cascade|response to oxidative stress		ATP binding|potassium channel regulator activity|protein serine/threonine kinase activity|sodium channel regulator activity			lung(3)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	6		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TGCTTGGGGGCAGTCCTCTAC	0.512													40	52	---	---	---	---	PASS	T	42203616	T	T	42203616	3	4	20	1	0	0	0	0	1	0	0	0	14209	710	25	3	879	3	SGK2	20	42203616	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	5082035	42203616	20821904	195	9924										
RNF114	55905	broad.mit.edu	37	chr20	48568613	48568613	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	atgtctctttttgcccttagGattatgatgttgatgaagag	10	5	1	4			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr20:48568613G>T	uc002xux.2	+	6	658	c.622G>T	c.(622-624)GAT>TAT	p.D208Y	RNF114_uc010zyo.1_Intron|RNF114_uc002xuy.2_RNA	NM_018683	NP_061153	Q9Y508	RN114_HUMAN	zinc finger protein 313	208					cell differentiation|multicellular organismal development|spermatogenesis	intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)	2						TTGCCCTTAGGATTATGATGT	0.448													12	67	---	---	---	---	PASS	T	48568613	T	T	48568613	3	4	20	1	0	0	0	0	1	0	0	0	13429	1188	41	2	644	2	RNF114	20	48568613	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	6364997	48568613	14456907	196	9925										
SYCP2	10388	broad.mit.edu	37	chr20	58444975	58444975	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gttttgtgtttcttgtgtaaGtaccagagaacttatttttt	8	4	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr20:58444975G>A	uc002yaz.2	-	35	3758	c.3619C>T	c.(3619-3621)CTT>TTT	p.L1207F		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	1207					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			TCTTGTGTAAGTACCAGAGAA	0.313													4	50	---	---	---	---	PASS	A	58444975	A	A	58444975	3	1	20	1	0	0	0	0	1	0	0	0	15429	1029	36	3	1013	3	SYCP2	20	58444975	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	9876362	58444975	4580545	197	9926										
OPRL1	4987	broad.mit.edu	37	chr20	62729830	62729830	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cctgcggcgcatcactcggcTggtgctggtggtagtggctg	17	11	1	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr20:62729830T>C	uc002yic.2	+	5	1193	c.791T>C	c.(790-792)CTG>CCG	p.L264P	OPRL1_uc002yid.2_Missense_Mutation_p.L264P|OPRL1_uc002yif.3_Missense_Mutation_p.L259P	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	264	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					ATCACTCGGCTGGTGCTGGTG	0.662													46	60	---	---	---	---	PASS	C	62729830	C	C	62729830	3	2	20	1	0	0	0	0	1	0	0	0	10886	1580	55	5	801	5	OPRL1	20	62729830	Missense_Mutation	SNP	T	TCGA-21-1071-01A-01D-1521-08	4284855	62729830	295690	198	9927										
GABPA	2551	broad.mit.edu	37	chr21	27117565	27117565	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	agctgaatgtgtaagccaggCcatagacatcaatgaaccaa	9	9	1	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr21:27117565C>G	uc002ylx.3	+	3	649	c.122C>G	c.(121-123)GCC>GGC	p.A41G	GABPA_uc002yly.3_Missense_Mutation_p.A41G	NM_002040	NP_002031	Q06546	GABPA_HUMAN	GA binding protein transcription factor, alpha	41					positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding			ovary(1)|central_nervous_system(1)	2						GTAAGCCAGGCCATAGACATC	0.383													18	79	---	---	---	---	PASS	G	27117565	G	G	27117565	3	3	20	1	0	0	0	0	1	0	0	0	6157	739	26	4	128	4	GABPA	21	27117565	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08		27117565	21012330	199	9928										
ADAMTS5	11096	broad.mit.edu	37	chr21	28338220	28338220	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cgcgcagcagtggctttaggGtgtagcgcgcgtgcttgacc	16	11	0	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr21:28338220G>T	uc002ymg.2	-	1	1220	c.491C>A	c.(490-492)ACC>AAC	p.T164N		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	164					proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						TGGCTTTAGGGTGTAGCGCGC	0.652													4	17	---	---	---	---	PASS	T	28338220	T	T	28338220	3	4	20	1	0	0	0	0	1	0	0	0	269	1261	44	3	2333	3	ADAMTS5	21	28338220	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	1220655	28338220	19791675	200	9929										
CBS	875	broad.mit.edu	37	chr21	44474028	44474028	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ctgggcggccacgaagttcaGcaagtcaatggcggtgacca	14	11	2	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr21:44474028G>T	uc002zcu.2	-	17	1863	c.1618C>A	c.(1618-1620)CTG>ATG	p.L540M	CBS_uc002zcs.1_Missense_Mutation_p.L435M|CBS_uc002zct.2_Missense_Mutation_p.L540M|CBS_uc002zcw.3_Missense_Mutation_p.L540M|CBS_uc002zcv.2_Missense_Mutation_p.L540M	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	540					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	ACGAAGTTCAGCAAGTCAATG	0.652													7	51	---	---	---	---	PASS	T	44474028	T	T	44474028	3	4	20	1	0	0	0	0	1	0	0	0	2711	962	34	3	41	3	CBS	21	44474028	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	16135808	44474028	3655867	201	9930										
CRYBA4	1413	broad.mit.edu	37	chr22	27026323	27026323	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gctgggtttgctcccagtttCcgggctaccgaggatttcag	13	11	1	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr22:27026323C>T	uc003acz.3	+	6	498	c.463C>T	c.(463-465)CCG>TCG	p.P155S		NM_001886	NP_001877	P53673	CRBA4_HUMAN	crystallin, beta A4	155	Beta/gamma crystallin 'Greek key' 4.				camera-type eye development|visual perception	soluble fraction	structural constituent of eye lens				0						CTCCCAGTTTCCGGGCTACCG	0.527													3	37	---	---	---	---	PASS	T	27026323	T	T	27026323	3	4	20	1	0	0	0	0	1	0	0	0	3909	855	30	2	481	2	CRYBA4	22	27026323	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08		27026323	24278243	202	9931										
C1QTNF6	114904	broad.mit.edu	37	chr22	37578404	37578404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gctgcgctcgctgggctgcgCgtacaggatgacagcctctt	14	13	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chr22:37578404C>A	uc003aqw.1	-	2	1109	c.604G>T	c.(604-606)GCG>TCG	p.A202S	C1QTNF6_uc003aqx.1_Missense_Mutation_p.A221S|C1QTNF6_uc003aqy.1_Missense_Mutation_p.A221S|C1QTNF6_uc003aqz.1_RNA	NM_182486	NP_872292	Q9BXI9	C1QT6_HUMAN	C1q and tumor necrosis factor related protein 6	202	C1q.					collagen					0						CTGGGCTGCGCGTACAGGATG	0.582													14	37	---	---	---	---	PASS	A	37578404	A	A	37578404	3	1	20	1	0	0	0	0	1	0	0	0	1967	768	27	1	179	1	C1QTNF6	22	37578404	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	10552081	37578404	13726162	203	9932										
FANCB	2187	broad.mit.edu	37	chrX	14883178	14883178	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tgccagtttgagaagagataAagaagaatgctttgacatgc	11	5	0	5			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chrX:14883178A>C	uc004cwg.1	-	3	723	c.455T>G	c.(454-456)TTT>TGT	p.F152C	FANCB_uc004cwh.1_Missense_Mutation_p.F152C	NM_001018113	NP_001018123	Q8NB91	FANCB_HUMAN	Fanconi anemia complementation group B	152					DNA repair	nucleoplasm				lung(1)	1	Hepatocellular(33;0.183)					AGAAGAGATAAAGAAGAATGC	0.393								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				20	60	---	---	---	---	PASS	C	14883178	C	C	14883178	3	2	20	1	0	0	0	0	1	0	0	0	5663	14	1	5	2156	5	FANCB	23	14883178	Missense_Mutation	SNP	A	TCGA-21-1071-01A-01D-1521-08		14883178	140387382	204	9933										
MAP7D2	256714	broad.mit.edu	37	chrX	20033400	20033400	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	aatctgttctctctcgagacGcatctgttcagctacctccc	6	15	5	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chrX:20033400G>A	uc004czr.1	-	11	1586	c.1567C>T	c.(1567-1569)CGT>TGT	p.R523C	MAP7D2_uc004czq.1_Missense_Mutation_p.R408C|MAP7D2_uc011mji.1_Missense_Mutation_p.R471C|MAP7D2_uc010nfo.1_Missense_Mutation_p.R564C|MAP7D2_uc011mjj.1_Missense_Mutation_p.R478C	NM_152780	NP_689993	Q96T17	MA7D2_HUMAN	MAP7 domain containing 2	523										ovary(2)|breast(1)	3						CTCTCGAGACGCATCTGTTCA	0.463													4	107	---	---	---	---	PASS	A	20033400	A	A	20033400	3	1	20	1	0	0	0	0	1	0	0	0	9268	1087	38	1	651	1	MAP7D2	23	20033400	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	5150222	20033400	135237160	205	9934										
WNK3	65267	broad.mit.edu	37	chrX	54275554	54275554	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	caaggccaggggtctgagtgGgaatgactgtcttaggagaa	16	6	2	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chrX:54275554G>A	uc004dtd.1	-	17	3666	c.3227C>T	c.(3226-3228)CCC>CTC	p.P1076L	WNK3_uc004dtc.1_Missense_Mutation_p.P1076L	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1076					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						GGTCTGAGTGGGAATGACTGT	0.468													14	21	---	---	---	---	PASS	A	54275554	A	A	54275554	3	1	20	1	0	0	0	0	1	0	0	0	17376	1232	43	3	2207	3	WNK3	23	54275554	Missense_Mutation	SNP	G	TCGA-21-1071-01A-01D-1521-08	34242154	54275554	100995006	206	9935										
ERCC6L	54821	broad.mit.edu	37	chrX	71427657	71427657	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ctgagaaaatagggttttatGattgccattaagttttcaga	9	4	1	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chrX:71427657G>T	uc004eaq.1	-	2	1057	c.960C>A	c.(958-960)ATC>ATA	p.I320I	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Silent_p.I197I	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	320					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					AGGGTTTTATGATTGCCATTA	0.383													67	79	---	---	---	---	PASS	T	71427657	T	T	71427657	2	4	20	1	0	0	0	0	0	0	0	1	5218	1280	45	2		2	ERCC6L	23	71427657	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	17152103	71427657	83842903	207	9936										
SLC25A43	203427	broad.mit.edu	37	chrX	118544310	118544310	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	tcctttccctttgagaccgtGaagagaaagatgcaggtgag	12	8	0	5			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chrX:118544310G>A	uc004erd.2	+	3	1019	c.675G>A	c.(673-675)GTG>GTA	p.V225V	SLC25A43_uc004erc.1_RNA|SLC25A43_uc011mtt.1_Intron	NM_145305	NP_660348	Q8WUT9	S2543_HUMAN	mitochondrial solute carrier protein	225	Solcar 3.|Helical; Name=5; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			skin(1)	1						TTGAGACCGTGAAGAGAAAGA	0.517													49	61	---	---	---	---	PASS	A	118544310	A	A	118544310	2	1	20	1	0	0	0	0	0	0	0	1	14508	1277	45	2		2	SLC25A43	23	118544310	Silent	SNP	G	TCGA-21-1071-01A-01D-1521-08	47116653	118544310	36726250	208	9937										
GPC4	2239	broad.mit.edu	37	chrX	132437087	132437087	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	cttccacttccttctccactActttcatcacctagtttaaa	1	15	3	0			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chrX:132437087A>G	uc004exc.1	-	9	1691	c.1479T>C	c.(1477-1479)AGT>AGC	p.S493S	GPC4_uc011mvg.1_Silent_p.S423S	NM_001448	NP_001439	O75487	GPC4_HUMAN	glypican 4 precursor	493					anatomical structure morphogenesis|cell proliferation	anchored to membrane|external side of plasma membrane|extracellular space|insoluble fraction|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	Acute lymphoblastic leukemia(192;0.000127)					CTTCTCCACTACTTTCATCAC	0.403													88	75	---	---	---	---	PASS	G	132437087	G	G	132437087	2	3	20	1	0	0	0	0	0	0	0	1	6600	388	14	5		5	GPC4	23	132437087	Silent	SNP	A	TCGA-21-1071-01A-01D-1521-08	13892777	132437087	22833473	209	9938										
SLITRK2	84631	broad.mit.edu	37	chrX	144905219	144905219	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	ttacaaacctgaccagtttaCgcagactttatctgaatggc	7	10	1	3			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chrX:144905219C>A	uc004fcd.2	+	5	2266	c.1276C>A	c.(1276-1278)CGC>AGC	p.R426S	SLITRK2_uc010nsp.2_Missense_Mutation_p.R426S|SLITRK2_uc010nso.2_Missense_Mutation_p.R426S|SLITRK2_uc011mwq.1_Missense_Mutation_p.R426S|SLITRK2_uc011mwr.1_Missense_Mutation_p.R426S|SLITRK2_uc011mws.1_Missense_Mutation_p.R426S|SLITRK2_uc004fcg.2_Missense_Mutation_p.R426S|SLITRK2_uc011mwt.1_Missense_Mutation_p.R426S	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	426	Extracellular (Potential).|LRR 9.					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					GACCAGTTTACGCAGACTTTA	0.398													91	88	---	---	---	---	PASS	A	144905219	A	A	144905219	3	1	20	1	0	0	0	0	1	0	0	0	14743	536	19	1	1278	1	SLITRK2	23	144905219	Missense_Mutation	SNP	C	TCGA-21-1071-01A-01D-1521-08	12468132	144905219	10365341	210	9939										
RENBP	5973	broad.mit.edu	37	chrX	153209166	153209166	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154589371980676	32	1.01327143430726e-05	2.32072368421053	3.19099506578947	2.03063322368421	0.0375273695022627	0.253371441419597	18	gcataccgcagcaagaactcAccacctggaggttggggggt	14	11	1	1			TCGA-21-1071-01A-01D-1521-08	TCGA-21-1071-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	e01302f9-c5d6-4745-9c5d-d8bb8d278a77	6bc5d6d9-3b2c-48db-9ebc-6da53a07ff29	g.chrX:153209166A>C	uc004fjo.1	-	5	464	c.294T>G	c.(292-294)GGT>GGG	p.G98G	RENBP_uc011mzh.1_Silent_p.G98G	NM_002910	NP_002901	P51606	RENBP_HUMAN	renin binding protein	98					mannose metabolic process|regulation of blood pressure		endopeptidase inhibitor activity|mannose-6-phosphate isomerase activity|N-acylglucosamine 2-epimerase activity			ovary(1)|pancreas(1)	2	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				N-Acetyl-D-glucosamine(DB00141)	GCAAGAACTCACCACCTGGAG	0.637													28	30	---	---	---	---	PASS	C	153209166	C	C	153209166	2	2	20	1	0	0	0	0	0	0	0	1	13225	146	6	5		5	RENBP	23	153209166	Silent	SNP	A	TCGA-21-1071-01A-01D-1521-08	8303947	153209166	2061394	211	9940										
C1orf159	54991	broad.mit.edu	37	chr1	1021391	1021391	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gaggcggccacgcgcggagcCcctgcaaacagacaccgctg	14	16	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:1021391C>A	uc001act.2	-	9	906	c.420G>T	c.(418-420)GGG>GGT	p.G140G	C1orf159_uc001acu.2_Silent_p.G104G|C1orf159_uc001acr.2_RNA|C1orf159_uc001acs.2_RNA|C1orf159_uc010nyd.1_RNA|C1orf159_uc001acm.2_Silent_p.G104G|C1orf159_uc009vju.1_Missense_Mutation_p.W82C|C1orf159_uc001acn.2_Silent_p.G104G|C1orf159_uc001acp.2_Silent_p.G104G	NM_017891	NP_060361	Q96HA4	CA159_HUMAN	hypothetical protein LOC54991	140						integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.96e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.77e-22)|Colorectal(212;6.51e-05)|COAD - Colon adenocarcinoma(227;0.000214)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|Kidney(185;0.00254)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		CGCGCGGAGCCCCTGCAAACA	0.662													4	33	---	---	---	---	PASS	A	1021391	A	A	1021391	2	1	21	1	0	0	0	0	0	0	0	1	2008	637	22	3		3	C1orf159	1	1021391	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08		1021391	248229230	1	9941										
LRRC47	57470	broad.mit.edu	37	chr1	3703673	3703673	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctcttccttctccgagccctCggcacggcccttgcccttcc	7	21	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:3703673C>T	uc001akx.1	-	2	845	c.817G>A	c.(817-819)GAG>AAG	p.E273K		NM_020710	NP_065761	Q8N1G4	LRC47_HUMAN	leucine rich repeat containing 47	273					translation		phenylalanine-tRNA ligase activity|RNA binding			large_intestine(1)|ovary(1)	2	all_cancers(77;0.0375)|Ovarian(185;0.0634)|all_lung(157;0.208)|Lung NSC(156;0.21)	all_epithelial(116;1.34e-16)|all_lung(118;2.53e-06)|Lung NSC(185;0.00028)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;5.49e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.43e-22)|GBM - Glioblastoma multiforme(42;3.69e-16)|Colorectal(212;1.21e-05)|COAD - Colon adenocarcinoma(227;5.87e-05)|Kidney(185;0.000367)|BRCA - Breast invasive adenocarcinoma(365;0.000704)|KIRC - Kidney renal clear cell carcinoma(229;0.00567)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		tccGAGCCCTCGGCACGGCCC	0.408													6	61	---	---	---	---	PASS	T	3703673	T	T	3703673	3	4	21	1	0	0	0	0	1	0	0	0	9004	893	31	2	958	2	LRRC47	1	3703673	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	2682282	3703673	245546948	2	9942										
NPPB	4879	broad.mit.edu	37	chr1	11918371	11918371	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cttcgtggtgcccgcagggtGtagaggaccattttgcggtg	16	9	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:11918371G>T	uc001atj.2	-	2	390	c.288C>A	c.(286-288)TAC>TAA	p.Y96*		NM_002521	NP_002512	P16860	ANFB_HUMAN	natriuretic peptide precursor B preproprotein	96					body fluid secretion|cGMP biosynthetic process|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation	extracellular space	diuretic hormone activity			ovary(2)	2	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)	Carvedilol(DB01136)|Nesiritide(DB04899)|Testosterone(DB00624)	CCCGCAGGGTGTAGAGGACCA	0.652													15	57	---	---	---	---	PASS	T	11918371	T	T	11918371	4	4	21	1	0	0	0	0	0	1	0	0	10592	1372	48	3	124	3	NPPB	1	11918371	Nonsense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	8214698	11918371	237332250	3	9943										
CSMD2	114784	broad.mit.edu	37	chr1	34312521	34312521	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gaatccgcgctgccggtggtTgccatccgatgtgaagtgca	14	11	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:34312521T>A	uc001bxn.1	-	6	906	c.877A>T	c.(877-879)AAC>TAC	p.N293Y	CSMD2_uc001bxm.1_Missense_Mutation_p.N333Y	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	293	CUB 2.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TGCCGGTGGTTGCCATCCGAT	0.612													15	51	---	---	---	---	PASS	A	34312521	A	A	34312521	3	1	21	1	0	0	0	0	1	0	0	0	3945	1812	63	5	9842	5	CSMD2	1	34312521	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	22394150	34312521	214938100	4	9944										
ZMYM6	9204	broad.mit.edu	37	chr1	35469607	35469607	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgcctctttagtaactgcacCtgttgtaaattaaaacaaat	5	8	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:35469607C>A	uc001byh.2	-	14	2183	c.1955_splice	c.e14-1	p.G652_splice	ZMYM6_uc001byf.1_Splice_Site_p.G652_splice|ZMYM6_uc010oht.1_Splice_Site_p.G555_splice|ZMYM6_uc009vup.2_Splice_Site_p.G458_splice|ZMYM6_uc009vuq.1_Splice_Site_p.G652_splice	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258						multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				GTAACTGCACCTGTTGTAAAT	0.323													5	44	---	---	---	---	PASS	A	35469607	A	A	35469607	5	1	21	1	0	0	0	0	0	0	1	0	17701	695	24	3	2035	3	ZMYM6	1	35469607	Splice_Site	SNP	C	TCGA-21-1076-01A-02D-1521-08	1157086	35469607	213781014	5	9945										
EFCAB7	84455	broad.mit.edu	37	chr1	64011719	64011719	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttaagccattaaacctgagtCaagttgaaggcaagtttaag	9	6	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:64011719C>G	uc001dbf.2	+	7	1231	c.937C>G	c.(937-939)CAA>GAA	p.Q313E	DLEU2L_uc001dbg.1_5'Flank	NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	313							calcium ion binding				0						AAACCTGAGTCAAGTTGAAGG	0.338													5	75	---	---	---	---	PASS	G	64011719	G	G	64011719	3	3	21	1	0	0	0	0	1	0	0	0	4940	827	29	2	959	2	EFCAB7	1	64011719	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	28542112	64011719	185238902	6	9946										
LRRC7	57554	broad.mit.edu	37	chr1	70482199	70482199	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cttaaagagcttgcagctttGtggctttctgacaatcaggt	10	8	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:70482199G>T	uc001dep.2	+	12	1218	c.1188G>T	c.(1186-1188)TTG>TTT	p.L396F	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	396	LRR 17.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TTGCAGCTTTGTGGCTTTCTG	0.294													5	62	---	---	---	---	PASS	T	70482199	T	T	70482199	3	4	21	1	0	0	0	0	1	0	0	0	9020	1368	48	3	1234	3	LRRC7	1	70482199	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	6470480	70482199	178768422	7	9947										
LRRIQ3	127255	broad.mit.edu	37	chr1	74507325	74507325	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttatggtattcctgcttcttTtgttctgtgtaatatttgtc	7	6	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:74507325T>C	uc001dfy.3	-	7	1482	c.1290A>G	c.(1288-1290)CAA>CAG	p.Q430Q	LRRIQ3_uc001dfz.3_Intron	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	430										ovary(2)	2						CCTGCTTCTTTTGTTCTGTGT	0.368													4	113	---	---	---	---	PASS	C	74507325	C	C	74507325	2	2	21	1	0	0	0	0	0	0	0	1	9030	1838	64	5		5	LRRIQ3	1	74507325	Silent	SNP	T	TCGA-21-1076-01A-02D-1521-08	4025126	74507325	174743296	8	9948										
CRYZ	1429	broad.mit.edu	37	chr1	75175781	75175781	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	taaaacagtggaaaattttaCcttaattttatcaatgtaat	4	4	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:75175781C>A	uc001dgk.2	-	7	1135	c.630_splice	c.e7+1	p.K210_splice	CRYZ_uc001dgj.2_Splice_Site_p.K210_splice|CRYZ_uc001dgl.2_Splice_Site_p.K210_splice|CRYZ_uc001dgm.2_Splice_Site_p.K73_splice	NM_001130042	NP_001123514	Q08257	QOR_HUMAN	crystallin, zeta isoform a						protein homotetramerization|visual perception|xenobiotic catabolic process	cytosol|Golgi apparatus	mRNA 3'-UTR binding|NADPH binding|NADPH:quinone reductase activity|zinc ion binding				0					Dicumarol(DB00266)	GAAAATTTTACCTTAATTTTA	0.353													3	32	---	---	---	---	PASS	A	75175781	A	A	75175781	5	1	21	1	0	0	0	0	0	0	1	0	3922	521	18	3	374	3	CRYZ	1	75175781	Splice_Site	SNP	C	TCGA-21-1076-01A-02D-1521-08	668456	75175781	174074840	9	9949										
USP33	23032	broad.mit.edu	37	chr1	78183552	78183552	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgttaaacctatatacttacTacttgcagttccatgatggc	6	9	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:78183552T>C	uc001dht.2	-	18	2358	c.2011A>G	c.(2011-2013)AGT>GGT	p.S671G	USP33_uc001dhs.2_Missense_Mutation_p.S392G|USP33_uc001dhu.2_Missense_Mutation_p.S640G|USP33_uc001dhv.2_Missense_Mutation_p.S476G|USP33_uc001dhw.2_Missense_Mutation_p.S663G	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	671					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						ATATACTTACTACTTGCAGTT	0.269													11	98	---	---	---	---	PASS	C	78183552	C	C	78183552	3	2	21	1	0	0	0	0	1	0	0	0	17061	1536	53	5	861	5	USP33	1	78183552	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	3007771	78183552	171067069	10	9950										
NGF	4803	broad.mit.edu	37	chr1	115829224	115829224	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agtaatgttgcgggtctgccCcgccacgcgtgcagctatcg	13	13	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:115829224C>G	uc001efu.1	-	3	362	c.193G>C	c.(193-195)GGG>CGG	p.G65R		NM_002506	NP_002497	P01138	NGF_HUMAN	nerve growth factor, beta polypeptide precursor	65					activation of MAPKK activity|activation of phospholipase C activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of cell cycle|nerve growth factor processing|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|Golgi lumen	growth factor activity|nerve growth factor receptor binding			upper_aerodigestive_tract(2)	2	Lung SC(450;0.211)	all_cancers(81;1.07e-06)|all_epithelial(167;4.43e-06)|all_lung(203;2.86e-05)|Lung NSC(69;4.99e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|all cancers(265;0.159)|Epithelial(280;0.179)	Clenbuterol(DB01407)	CGGGTCTGCCCCGCCACGCGT	0.632													11	39	---	---	---	---	PASS	G	115829224	G	G	115829224	3	3	21	1	0	0	0	0	1	0	0	0	10395	623	22	4	536	4	NGF	1	115829224	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	37645672	115829224	133421397	11	9951										
HSD3B1	3283	broad.mit.edu	37	chr1	120057197	120057197	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	acagctgggaggaagccaagCagaaaacggtggagtgggtt	17	6	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:120057197C>A	uc001ehv.1	+	4	1196	c.1051C>A	c.(1051-1053)CAG>AAG	p.Q351K	HSD3B1_uc001ehw.2_Missense_Mutation_p.Q353K	NM_000862	NP_000853	P14060	3BHS1_HUMAN	3 beta-hydroxysteroid dehydrogenase 1	351					androgen biosynthetic process|estrogen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.219)	all_lung(203;3.16e-06)|Lung NSC(69;2.19e-05)|all_epithelial(167;0.000624)		Lung(183;0.0106)|LUSC - Lung squamous cell carcinoma(189;0.0554)	NADH(DB00157)|Trilostane(DB01108)	GGAAGCCAAGCAGAAAACGGT	0.498													13	42	---	---	---	---	PASS	A	120057197	A	A	120057197	3	1	21	1	0	0	0	0	1	0	0	0	7390	711	25	3	1061	3	HSD3B1	1	120057197	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	4227973	120057197	129193424	12	9952										
LCE1B	353132	broad.mit.edu	37	chr1	152784937	152784937	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	accaagatgtcctgccagcaGaaccagcagcagtgccagcc	10	15	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:152784937G>T	uc001faq.2	+	1	491	c.15G>T	c.(13-15)CAG>CAT	p.Q5H		NM_178349	NP_848126	Q5T7P3	LCE1B_HUMAN	late cornified envelope 1B	5					keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			CCTGCCAGCAGAACCAGCAGC	0.478													20	124	---	---	---	---	PASS	T	152784937	T	T	152784937	3	4	21	1	0	0	0	0	1	0	0	0	8660	933	33	2	17	2	LCE1B	1	152784937	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	32727740	152784937	96465684	13	9953										
BCAN	63827	broad.mit.edu	37	chr1	156617423	156617423	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gcagctctatgccgcctaccTtgggggctatgagcaatgtg	13	11	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:156617423T>A	uc001fpp.2	+	4	926	c.590T>A	c.(589-591)CTT>CAT	p.L197H	BCAN_uc001fpo.2_Missense_Mutation_p.L197H	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	197	Link 1.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCCGCCTACCTTGGGGGCTAT	0.637													13	168	---	---	---	---	PASS	A	156617423	A	A	156617423	3	1	21	1	0	0	0	0	1	0	0	0	1345	1609	56	5	600	5	BCAN	1	156617423	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	3832486	156617423	92633198	14	9954										
NTRK1	4914	broad.mit.edu	37	chr1	156841432	156841432	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tagaaatctgggggtctgccAtccctggggctgaccctggc	14	12	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:156841432A>G	uc001fqh.1	+	7	791	c.735A>G	c.(733-735)CCA>CCG	p.P245P	NTRK1_uc001fqf.1_Silent_p.P215P|NTRK1_uc009wsi.1_Intron|NTRK1_uc001fqi.1_Silent_p.P245P|NTRK1_uc009wsk.1_Silent_p.P245P	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	245	Ig-like C2-type 1.|Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	GGGGTCTGCCATCCCTGGGGC	0.582			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			12	84	---	---	---	---	PASS	G	156841432	G	G	156841432	2	3	21	1	0	0	0	0	0	0	0	1	10706	204	8	5		5	NTRK1	1	156841432	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08	224009	156841432	92409189	15	9955										
OR6K2	81448	broad.mit.edu	37	chr1	158669530	158669530	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tatcttagcttgacctatgtGcttttttatagcttctttta	5	7	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:158669530G>T	uc001fsu.1	-	1	913	c.913C>A	c.(913-915)CAC>AAC	p.H305N		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TGACCTATGTGCTTTTTTATA	0.383													15	36	---	---	---	---	PASS	T	158669530	T	T	158669530	3	4	21	1	0	0	0	0	1	0	0	0	11202	1319	46	3	65	3	OR6K2	1	158669530	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1828098	158669530	90581091	16	9956										
MNDA	4332	broad.mit.edu	37	chr1	158812004	158812004	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttgagctcatggatgattatCattttacatcaattaagtcc	6	7	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:158812004C>T	uc001fsz.1	+	2	261	c.61C>T	c.(61-63)CAT>TAT	p.H21Y		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	21	DAPIN.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					GGATGATTATCATTTTACATC	0.313													4	46	---	---	---	---	PASS	T	158812004	T	T	158812004	3	4	21	1	0	0	0	0	1	0	0	0	9676	826	29	2	63	2	MNDA	1	158812004	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	142474	158812004	90438617	17	9957										
RGS5	8490	broad.mit.edu	37	chr1	163138098	163138098	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcattgtacggaatgacaagGtcaccaactgagtctggctt	10	9	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:163138098G>A	uc001gcn.2	-	2	352	c.105C>T	c.(103-105)GAC>GAT	p.D35D	RGS5_uc009wvb.2_Intron	NM_003617	NP_003608	O15539	RGS5_HUMAN	regulator of G-protein signalling 5	35					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity				0			LUSC - Lung squamous cell carcinoma(543;0.187)			GAATGACAAGGTCACCAACTG	0.468													29	125	---	---	---	---	PASS	A	163138098	A	A	163138098	2	1	21	1	0	0	0	0	0	0	0	1	13308	1252	44	3		3	RGS5	1	163138098	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	4326094	163138098	86112523	18	9958										
DUSP27	92235	broad.mit.edu	37	chr1	167096912	167096912	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gagatgcagatggagcttagGgagaagatgtctgagtacaa	15	4	1	5			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:167096912G>T	uc001geb.1	+	5	2544	c.2544G>T	c.(2542-2544)AGG>AGT	p.R848S		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	848					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						TGGAGCTTAGGGAGAAGATGT	0.498													5	79	---	---	---	---	PASS	T	167096912	T	T	167096912	3	4	21	1	0	0	0	0	1	0	0	0	4824	1223	43	3	2562	3	DUSP27	1	167096912	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	3958814	167096912	82153709	19	9959										
DUSP27	92235	broad.mit.edu	37	chr1	167097009	167097009	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcaaggaagatgaggatgatGgtgtgggtgatggggatgag	20	1	1	5			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:167097009G>T	uc001geb.1	+	5	2641	c.2641G>T	c.(2641-2643)GGT>TGT	p.G881C		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	881					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						TGAGGATGATGGTGTGGGTGA	0.488													7	57	---	---	---	---	PASS	T	167097009	T	T	167097009	3	4	21	1	0	0	0	0	1	0	0	0	4824	1348	47	3	2659	3	DUSP27	1	167097009	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	97	167097009	82153612	20	9960										
CACYBP	27101	broad.mit.edu	37	chr1	174976282	174976282	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aatgggaagagttactccatGattgtgaacaatctcttgaa	9	6	1	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:174976282G>A	uc001gkj.1	+	4	806	c.381G>A	c.(379-381)ATG>ATA	p.M127I	CACYBP_uc001gki.1_Missense_Mutation_p.M84I	NM_014412	NP_055227	Q9HB71	CYBP_HUMAN	calcyclin binding protein isoform 1	127	Interaction with SKP1.|CS.					beta-catenin destruction complex	protein homodimerization activity				0						GTTACTCCATGATTGTGAACA	0.353													9	64	---	---	---	---	PASS	A	174976282	A	A	174976282	3	1	21	1	0	0	0	0	1	0	0	0	2564	1290	45	2	395	2	CACYBP	1	174976282	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	7879273	174976282	74274339	21	9961										
TNN	63923	broad.mit.edu	37	chr1	175049335	175049335	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cctgcagctgctcaagaacaCggaggattctctgctggtga	12	11	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:175049335C>A	uc001gkl.1	+	4	934	c.821C>A	c.(820-822)ACG>AAG	p.T274K	TNN_uc010pmx.1_Missense_Mutation_p.T274K	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	274	Fibronectin type-III 1.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		CTCAAGAACACGGAGGATTCT	0.612													10	102	---	---	---	---	PASS	A	175049335	A	A	175049335	3	1	21	1	0	0	0	0	1	0	0	0	16320	536	19	1	831	1	TNN	1	175049335	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	73053	175049335	74201286	22	9962										
TNR	7143	broad.mit.edu	37	chr1	175293589	175293589	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	acgacatggcacagttagtcActgcaacatcattgtctcta	7	11	3	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:175293589A>T	uc001gkp.1	-	20	3941	c.3860T>A	c.(3859-3861)GTG>GAG	p.V1287E	TNR_uc009wwu.1_Missense_Mutation_p.V1287E	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1287	Fibrinogen C-terminal.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ACAGTTAGTCACTGCAACATC	0.502													7	92	---	---	---	---	PASS	T	175293589	T	T	175293589	3	4	21	1	0	0	0	0	1	0	0	0	16335	159	6	5	224	5	TNR	1	175293589	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	244254	175293589	73957032	23	9963										
PAPPA2	60676	broad.mit.edu	37	chr1	176564697	176564697	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	acccccaggtggctgatgtgCgcaagacctgctttgaccct	11	14	0	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:176564697C>A	uc001gkz.2	+	3	3121	c.1957C>A	c.(1957-1959)CGC>AGC	p.R653S	PAPPA2_uc001gky.1_Missense_Mutation_p.R653S|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	653	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GGCTGATGTGCGCAAGACCTG	0.527													7	55	---	---	---	---	PASS	A	176564697	A	A	176564697	3	1	21	1	0	0	0	0	1	0	0	0	11433	768	27	1	1963	1	PAPPA2	1	176564697	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	1271108	176564697	72685924	24	9964										
TMCC2	9911	broad.mit.edu	37	chr1	205238663	205238663	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtgctgacaacatcgcccacCtgaaggaccccctggaagat	10	14	0	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:205238663C>T	uc001hbz.1	+	4	1777	c.1333C>T	c.(1333-1335)CTG>TTG	p.L445L	TMCC2_uc010prf.1_Silent_p.L367L|TMCC2_uc001hca.2_Silent_p.L220L|TMCC2_uc001hcb.1_Silent_p.L205L|TMCC2_uc001hcc.1_Silent_p.L66L|TMCC2_uc001hcd.2_Silent_p.L212L	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	445						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CATCGCCCACCTGAAGGACCC	0.642													24	104	---	---	---	---	PASS	T	205238663	T	T	205238663	2	4	21	1	0	0	0	0	0	0	0	1	15990	680	24	3		3	TMCC2	1	205238663	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	28673966	205238663	44011958	25	9965										
CR1	1378	broad.mit.edu	37	chr1	207789970	207789970	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttaatgggagacacacaggaActccctttggagatattccc	9	10	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:207789970A>G	uc001hfy.2	+	33	5502	c.5362A>G	c.(5362-5364)ACT>GCT	p.T1788A	CR1_uc001hfx.2_Missense_Mutation_p.T2238A	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1788	Sushi 28.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						ACACACAGGAACTCCCTTTGG	0.418													12	131	---	---	---	---	PASS	G	207789970	G	G	207789970	3	3	21	1	0	0	0	0	1	0	0	0	3840	43	2	5	6874	5	CR1	1	207789970	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	2551307	207789970	41460651	26	9966										
HSD11B1	3290	broad.mit.edu	37	chr1	209907664	209907664	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tatagaaacagccatgaaggCagtttctgggatagtccata	10	7	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:209907664C>A	uc001hhj.2	+	7	784	c.677C>A	c.(676-678)GCA>GAA	p.A226E	HSD11B1_uc001hhk.2_Missense_Mutation_p.A226E	NM_181755	NP_861420	P28845	DHI1_HUMAN	11-beta-hydroxysteroid dehydrogenase 1	226	Lumenal (Potential).				glucocorticoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	11-beta-hydroxysteroid dehydrogenase (NADP+) activity|11-beta-hydroxysteroid dehydrogenase|binding			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;1.04e-55)|Epithelial(68;1.57e-52)|all cancers(67;1.83e-46)|Colorectal(1306;0.115)	NADH(DB00157)	GCCATGAAGGCAGTTTCTGGG	0.478													6	30	---	---	---	---	PASS	A	209907664	A	A	209907664	3	1	21	1	0	0	0	0	1	0	0	0	7375	710	25	3	699	3	HSD11B1	1	209907664	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	2117694	209907664	39342957	27	9967										
USH2A	7399	broad.mit.edu	37	chr1	215824045	215824045	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gcttgggtagaagagatcacAtggaacgtgggggctctgag	17	6	2	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:215824045A>T	uc001hku.1	-	65	14619	c.14232T>A	c.(14230-14232)CAT>CAA	p.H4744Q		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4744	Fibronectin type-III 33.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AAGAGATCACATGGAACGTGG	0.597										HNSCC(13;0.011)			25	274	---	---	---	---	PASS	T	215824045	T	T	215824045	3	4	21	1	0	0	0	0	1	0	0	0	17033	214	8	5	1408	5	USH2A	1	215824045	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	5916381	215824045	33426576	28	9968										
ARF1	375	broad.mit.edu	37	chr1	228285621	228285621	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctgcactcactacgccacagGaactggtacattcaggccac	8	15	2	0	rs146827674		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:228285621G>A	uc001hrr.2	+	5	681	c.453G>A	c.(451-453)AGG>AGA	p.R151R	ARF1_uc001hrs.2_Silent_p.R151R|ARF1_uc001hrt.2_Missense_Mutation_p.E73K|ARF1_uc009xev.2_RNA|ARF1_uc001hru.2_Silent_p.R151R|ARF1_uc001hrv.2_Silent_p.R151R|ARF1_uc001hrw.2_Silent_p.R151R	NM_001024226	NP_001019397	P84077	ARF1_HUMAN	ADP-ribosylation factor 1	151					cellular copper ion homeostasis|COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|protein transport|regulation of defense response to virus by virus|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction|viral reproduction	cytosol|Golgi membrane|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity|protein binding|receptor signaling protein activity				0		Prostate(94;0.0405)				TACGCCACAGGAACTGGTACA	0.617													8	78	---	---	---	---	PASS	A	228285621	A	A	228285621	2	1	21	1	0	0	0	0	0	0	0	1	844	1165	41	2		2	ARF1	1	228285621	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	12461576	228285621	20965000	29	9969										
NUP133	55746	broad.mit.edu	37	chr1	229635458	229635458	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gctgttaggaaactgtaagtCttatcacctcccgaatctac	7	11	3	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:229635458C>T	uc001htn.2	-	5	713	c.621G>A	c.(619-621)AAG>AAA	p.K207K		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	207					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				AACTGTAAGTCTTATCACCTC	0.403													8	81	---	---	---	---	PASS	T	229635458	T	T	229635458	2	4	21	1	0	0	0	0	0	0	0	1	10754	912	32	2		2	NUP133	1	229635458	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	1349837	229635458	19615163	30	9970										
SIPA1L2	57568	broad.mit.edu	37	chr1	232574961	232574961	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gaatataacttggctggctcGtcgtcaggcccagagacgtc	12	11	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:232574961G>A	uc001hvg.2	-	13	4082	c.3924C>T	c.(3922-3924)GAC>GAT	p.D1308D	SIPA1L2_uc001hvf.2_Silent_p.D382D	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1308				D -> V (in Ref. 2; BAB14273).	regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				TGGCTGGCTCGTCGTCAGGCC	0.637													5	82	---	---	---	---	PASS	A	232574961	A	A	232574961	2	1	21	1	0	0	0	0	0	0	0	1	14330	1136	40	1		1	SIPA1L2	1	232574961	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	2939503	232574961	16675660	31	9971										
RYR2	6262	broad.mit.edu	37	chr1	237801698	237801698	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgtggactgcaaagttgccaGatgctggtgtctaagggcta	14	7	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:237801698G>T	uc001hyl.1	+	45	6954	c.6834G>T	c.(6832-6834)CAG>CAT	p.Q2278H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2278	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AAAGTTGCCAGATGCTGGTGT	0.423													31	141	---	---	---	---	PASS	T	237801698	T	T	237801698	3	4	21	1	0	0	0	0	1	0	0	0	13769	933	33	2	7012	2	RYR2	1	237801698	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	5226737	237801698	11448923	32	9972										
RYR2	6262	broad.mit.edu	37	chr1	237806707	237806707	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cccctgggagatttggtgggCgttatcagcatcgcttttca	12	10	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:237806707C>A	uc001hyl.1	+	48	7422	c.7302C>A	c.(7300-7302)GGC>GGA	p.G2434G		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2434	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			ATTTGGTGGGCGTTATCAGCA	0.428													8	113	---	---	---	---	PASS	A	237806707	A	A	237806707	2	1	21	1	0	0	0	0	0	0	0	1	13769	755	27	1		1	RYR2	1	237806707	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	5009	237806707	11443914	33	9973										
RYR2	6262	broad.mit.edu	37	chr1	237863674	237863674	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	accagcccaaaggggttactCagattatcaattacaccaca	6	12	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:237863674C>A	uc001hyl.1	+	65	9394	c.9274C>A	c.(9274-9276)CAG>AAG	p.Q3092K	RYR2_uc010pxz.1_Missense_Mutation_p.Q47K	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3092	Helical; Name=M'; (Potential).				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)			AGGGGTTACTCAGATTATCAA	0.473													5	11	---	---	---	---	PASS	A	237863674	A	A	237863674	3	1	21	1	0	0	0	0	1	0	0	0	13769	827	29	2	9532	2	RYR2	1	237863674	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	56967	237863674	11386947	34	9974										
TRIM58	25893	broad.mit.edu	37	chr1	248023988	248023988	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ccttgactcaggaggccaacGtggggaaaaagactgtcatt	12	9	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:248023988G>T	uc001ido.2	+	2	538	c.490G>T	c.(490-492)GTG>TTG	p.V164L		NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	164						intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GGAGGCCAACGTGGGGAAAAA	0.478													7	66	---	---	---	---	PASS	T	248023988	T	T	248023988	3	4	21	1	0	0	0	0	1	0	0	0	16528	1145	40	1	496	1	TRIM58	1	248023988	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	10160314	248023988	1226633	35	9975										
OR2L13	284521	broad.mit.edu	37	chr1	248262938	248262938	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gcgtacaacttcctgtccggCcagaaaggcatctccttcct	8	15	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:248262938C>A	uc001ids.2	+	3	598	c.261C>A	c.(259-261)GGC>GGA	p.G87G		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			TCCTGTCCGGCCAGAAAGGCA	0.542													21	223	---	---	---	---	PASS	A	248262938	A	A	248262938	2	1	21	1	0	0	0	0	0	0	0	1	11006	726	26	3		3	OR2L13	1	248262938	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	238950	248262938	987683	36	9976										
OR2T29	343563	broad.mit.edu	37	chr1	248722750	248722750	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gagtcccatgaggatgaaatCcaaccttccagtgtggttgg	12	9	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr1:248722750C>G	uc001ieo.1	-	1	25	c.25G>C	c.(25-27)GAT>CAT	p.D9H		NM_001004694	NP_001004694	Q8NH02	O2T29_HUMAN	olfactory receptor, family 2, subfamily T,	15	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AGGATGAAATCCAACCTTCCA	0.488													4	63	---	---	---	---	PASS	G	248722750	G	G	248722750	3	3	21	1	0	0	0	0	1	0	0	0	11022	855	30	2	908	2	OR2T29	1	248722750	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	459812	248722750	527871	37	9977										
MYT1L	23040	broad.mit.edu	37	chr2	1921047	1921047	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgtgggtacagcccagttacGtggccggttccatcacaccc	11	14	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:1921047G>A	uc002qxe.2	-	11	2375	c.1548C>T	c.(1546-1548)CAC>CAT	p.H516H	MYT1L_uc002qxd.2_Silent_p.H514H|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	516	C2HC-type 2.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		GCCCAGTTACGTGGCCGGTTC	0.537													14	232	---	---	---	---	PASS	A	1921047	A	A	1921047	2	1	21	1	0	0	0	0	0	0	0	1	10107	1136	40	1		1	MYT1L	2	1921047	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08		1921047	241278326	38	9978										
GPN1	11321	broad.mit.edu	37	chr2	27858012	27858012	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tttttgtggctttaggcatcCtcatttccaacagttgtcat	7	9	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:27858012C>T	uc010ymc.1	+	7	498	c.477C>T	c.(475-477)TCC>TCT	p.S159S	ZNF512_uc010yly.1_RNA|GPN1_uc010ezf.2_Silent_p.S133S|GPN1_uc010yma.1_Silent_p.S66S|GPN1_uc010ymb.1_Silent_p.S50S|GPN1_uc010ymd.1_Silent_p.S40S|GPN1_uc010yme.1_Silent_p.S159S|GPN1_uc010ezg.1_Silent_p.S40S	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	145						cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						TTTAGGCATCCTCATTTCCAA	0.433													14	104	---	---	---	---	PASS	T	27858012	T	T	27858012	2	4	21	1	0	0	0	0	0	0	0	1	6617	668	24	3		3	GPN1	2	27858012	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	25936965	27858012	215341361	39	9979										
GPN1	11321	broad.mit.edu	37	chr2	27861080	27861080	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	caatgtttggttttcagcatCttatacaaaaccaagctgcc	6	10	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:27861080C>T	uc010ymc.1	+	8	591	c.570C>T	c.(568-570)ATC>ATT	p.I190I	GPN1_uc010ezf.2_Silent_p.I164I|GPN1_uc010yma.1_Silent_p.I97I|GPN1_uc010ymb.1_Silent_p.I81I|GPN1_uc010ymd.1_Silent_p.I71I|GPN1_uc010yme.1_Silent_p.I190I|GPN1_uc010ezg.1_Silent_p.I71I	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	176						cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						TTTTCAGCATCTTATACAAAA	0.373													8	57	---	---	---	---	PASS	T	27861080	T	T	27861080	2	4	21	1	0	0	0	0	0	0	0	1	6617	903	32	2		2	GPN1	2	27861080	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	3068	27861080	215338293	40	9980										
C2orf71	388939	broad.mit.edu	37	chr2	29293539	29293539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cggtcggccacctggctggcGgtcagaagctgtcctcctga	14	14	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:29293539G>T	uc002rmt.1	-	1	3589	c.3589C>A	c.(3589-3591)CGC>AGC	p.R1197S		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	1197					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						CCTGGCTGGCGGTCAGAAGCT	0.622													46	90	---	---	---	---	PASS	T	29293539	T	T	29293539	3	4	21	1	0	0	0	0	1	0	0	0	2191	1116	39	1	285	1	C2orf71	2	29293539	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1432459	29293539	213905834	41	9981										
SPAST	6683	broad.mit.edu	37	chr2	32361975	32361975	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	atagccttttgtgtgaaagaAgagaaggggagcacgatgct	14	5	0	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:32361975A>G	uc002roc.2	+	11	1572	c.1351A>G	c.(1351-1353)AGA>GGA	p.R451G	SPAST_uc002rod.2_Missense_Mutation_p.R419G	NM_014946	NP_055761	Q9UBP0	SPAST_HUMAN	spastin isoform 1	451	Sufficient for microtubule severing.			R->G: Abrogates binding to the tail of alpha-tubulin and beta-3-tubulin, impairs ATPase activity and abolishes microtubule severing.	cell cycle|cell death|cell differentiation|cytokinesis, completion of separation|ER to Golgi vesicle-mediated transport|microtubule bundle formation|microtubule severing|nervous system development|protein hexamerization|protein homooligomerization	endoplasmic reticulum|endosome|integral to membrane|microtubule|microtubule organizing center|nucleus|perinuclear region of cytoplasm|spindle	alpha-tubulin binding|ATP binding|beta-tubulin binding|microtubule binding|microtubule-severing ATPase activity			breast(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					GTGTGAAAGAAGAGAAGGGGA	0.338													13	26	---	---	---	---	PASS	G	32361975	G	G	32361975	3	3	21	1	0	0	0	0	1	0	0	0	14996	64	3	5	1393	5	SPAST	2	32361975	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	3068436	32361975	210837398	42	9982										
NLRC4	58484	broad.mit.edu	37	chr2	32476605	32476605	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gttcagaaaagatggggtatGgtacaagtcctttaaatcct	10	6	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:32476605G>T	uc002roi.2	-	4	574	c.328C>A	c.(328-330)CAT>AAT	p.H110N	NLRC4_uc002roj.1_Missense_Mutation_p.H110N|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	110					activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					GATGGGGTATGGTACAAGTCC	0.398													35	49	---	---	---	---	PASS	T	32476605	T	T	32476605	3	4	21	1	0	0	0	0	1	0	0	0	10469	1348	47	3	2770	3	NLRC4	2	32476605	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	114630	32476605	210722768	43	9983										
LHCGR	3973	broad.mit.edu	37	chr2	48915007	48915007	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agttcagcccgacgtttacaGcagccaaatttgctcagcaa	8	12	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:48915007G>T	uc002rwu.3	-	11	1999	c.1929C>A	c.(1927-1929)TGC>TGA	p.C643*	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	643	Cytoplasmic (Potential).			C->G: Loss of palmitoylation.	male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	GACGTTTACAGCAGCCAAATT	0.373									Familial_Male-Limited_Precocious_Puberty				24	156	---	---	---	---	PASS	T	48915007	T	T	48915007	4	4	21	1	0	0	0	0	0	1	0	0	8762	963	34	3	174	3	LHCGR	2	48915007	Nonsense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	16438402	48915007	194284366	44	9984										
FSHR	2492	broad.mit.edu	37	chr2	49190478	49190478	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gcagctgcaaaagcaaaaatCcagcccatcaccatgacact	6	14	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:49190478C>G	uc002rww.2	-	10	1556	c.1482G>C	c.(1480-1482)TGG>TGC	p.W494C	FSHR_uc002rwx.2_Missense_Mutation_p.W432C|FSHR_uc010fbn.2_Missense_Mutation_p.W468C	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	494	Helical; Name=4; (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	AAGCAAAAATCCAGCCCATCA	0.532									Gonadal_Dysgenesis_46_XX				8	53	---	---	---	---	PASS	G	49190478	G	G	49190478	3	3	21	1	0	0	0	0	1	0	0	0	6073	856	30	2	609	2	FSHR	2	49190478	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	275471	49190478	194008895	45	9985										
NRXN1	9378	broad.mit.edu	37	chr2	50280565	50280565	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggcacttcaccaaccagtctCacatttcccactatggcgat	6	15	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:50280565C>G	uc010fbp.2	-	4	1584	c.777G>C	c.(775-777)GTG>GTC	p.V259V	NRXN1_uc002rxb.3_Silent_p.V996V|NRXN1_uc010fbq.2_Silent_p.V1364V|NRXN1_uc002rxe.3_Silent_p.V1294V	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	259	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CAACCAGTCTCACATTTCCCA	0.502													14	115	---	---	---	---	PASS	G	50280565	G	G	50280565	2	3	21	1	0	0	0	0	0	0	0	1	10665	813	29	2		2	NRXN1	2	50280565	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	1090087	50280565	192918808	46	9986										
MALL	7851	broad.mit.edu	37	chr2	110849307	110849307	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gcagcaaggggtatactatgTgggtggcggctaccatggtc	16	8	0	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:110849307T>C	uc002tfk.2	-	2	920	c.146A>G	c.(145-147)CAC>CGC	p.H49R	MALL_uc010fju.2_Intron	NM_005434	NP_005425	Q13021	MALL_HUMAN	mal, T-cell differentiation protein-like	49	MARVEL.				cholesterol homeostasis	clathrin-coated vesicle|Golgi membrane|integral to membrane|membrane raft|plasma membrane	protein binding			ovary(1)|skin(1)	2				Epithelial(1;0.0546)|STAD - Stomach adenocarcinoma(1;0.18)		GTATACTATGTGGGTGGCGGC	0.448													11	77	---	---	---	---	PASS	C	110849307	C	C	110849307	3	2	21	1	0	0	0	0	1	0	0	0	9201	1696	59	5	327	5	MALL	2	110849307	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	60568742	110849307	132350066	47	9987										
TMEM177	80775	broad.mit.edu	37	chr2	120439364	120439364	+	Nonstop_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gctcaatccgggccgctcctGatgggctcatcacaaggaca	11	14	3	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:120439364G>T	uc010flg.1	+	2	1408	c.935G>T	c.(934-936)TGA>TTA	p.*312L	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Nonstop_Mutation_p.*312L|TMEM177_uc002tmd.2_Nonstop_Mutation_p.*312L|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	312						integral to membrane				ovary(1)	1	Colorectal(110;0.196)					GGCCGCTCCTGATGGGCTCAT	0.582													17	90	---	---	---	---	PASS	T	120439364	T	T	120439364	4	4	21	1	0	0	0	0	0	0	0	0	16091	1285	45	2	937	2	TMEM177	2	120439364	Nonstop_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	9590057	120439364	122760009	48	9988										
LRP1B	53353	broad.mit.edu	37	chr2	141253202	141253202	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	catctgtacagaggcacttgTaagtcccgtatgtattgatg	10	8	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:141253202T>C	uc002tvj.1	-	56	9938	c.8966A>G	c.(8965-8967)TAC>TGC	p.Y2989C		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2989	Extracellular (Potential).|EGF-like 7.				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)		GAGGCACTTGTAAGTCCCGTA	0.453										TSP Lung(27;0.18)			13	95	---	---	---	---	PASS	C	141253202	C	C	141253202	3	2	21	1	0	0	0	0	1	0	0	0	8955	1638	57	5	4977	5	LRP1B	2	141253202	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	20813838	141253202	101946171	49	9989										
MMADHC	27249	broad.mit.edu	37	chr2	150426549	150426549	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttgcattagtgaagatactcCctacaactacatgggtaccc	7	11	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:150426549C>T	uc002txb.2	-	7	1335	c.830G>A	c.(829-831)GGG>GAG	p.G277E	MMADHC_uc002txc.2_Missense_Mutation_p.G277E|MMADHC_uc010fnu.2_Missense_Mutation_p.G311E	NM_015702	NP_056517	Q9H3L0	MMAD_HUMAN	methylmalonic aciduria (cobalamin deficiency)	277						mitochondrion				central_nervous_system(1)|skin(1)	2						GAAGATACTCCCTACAACTAC	0.383													9	42	---	---	---	---	PASS	T	150426549	T	T	150426549	3	4	21	1	0	0	0	0	1	0	0	0	9642	623	22	3	64	3	MMADHC	2	150426549	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	9173347	150426549	92772824	50	9990										
SCN3A	6328	broad.mit.edu	37	chr2	165997321	165997321	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gactaacgttactgttgcgtCgctctccatgtctgtgcggc	11	12	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:165997321C>T	uc002ucx.2	-	13	2351	c.1859G>A	c.(1858-1860)CGA>CAA	p.R620Q	SCN3A_uc002ucy.2_Missense_Mutation_p.R620Q|SCN3A_uc002ucz.2_Missense_Mutation_p.R620Q|SCN3A_uc002uda.1_Missense_Mutation_p.R489Q|SCN3A_uc002udb.1_Missense_Mutation_p.R489Q	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	620						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	ACTGTTGCGTCGCTCTCCATG	0.498													6	48	---	---	---	---	PASS	T	165997321	T	T	165997321	3	4	21	1	0	0	0	0	1	0	0	0	13918	884	31	2	4207	2	SCN3A	2	165997321	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	15570772	165997321	77202052	51	9991										
SCN1A	6323	broad.mit.edu	37	chr2	166848153	166848153	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agcatccatctctccactctCtcctagaacccgctttgtaa	4	16	2	1	rs148703212		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:166848153C>A	uc010zcz.1	-	26	5617	c.5599G>T	c.(5599-5601)GAG>TAG	p.E1867*		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1878						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TCTCCACTCTCTCCTAGAACC	0.448													11	88	---	---	---	---	PASS	A	166848153	A	A	166848153	4	1	21	1	0	0	0	0	0	1	0	0	13914	922	32	2	401	2	SCN1A	2	166848153	Nonsense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	850832	166848153	76351220	52	9992										
TTN	7273	broad.mit.edu	37	chr2	179397113	179397113	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgccgttccctcagttctgcAtaacttgtactagcttcagc	7	13	3	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:179397113A>G	uc010zfg.1	-	307	96749	c.96525T>C	c.(96523-96525)TAT>TAC	p.Y32175Y	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.Y25870Y|TTN_uc010zfi.1_Silent_p.Y25803Y|TTN_uc010zfj.1_Silent_p.Y25678Y	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33102							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)			TCAGTTCTGCATAACTTGTAC	0.498													18	93	---	---	---	---	PASS	G	179397113	G	G	179397113	2	3	21	1	0	0	0	0	0	0	0	1	16732	224	8	5		5	TTN	2	179397113	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08	12548960	179397113	63802260	53	9993										
TTN	7273	broad.mit.edu	37	chr2	179397773	179397773	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttttcttctatctcaagtctGaattccccttttacagtctt	3	11	5	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:179397773G>C	uc010zfg.1	-	307	96089	c.95865C>G	c.(95863-95865)TTC>TTG	p.F31955L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.F25650L|TTN_uc010zfi.1_Missense_Mutation_p.F25583L|TTN_uc010zfj.1_Missense_Mutation_p.F25458L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32882							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)			TCTCAAGTCTGAATTCCCCTT	0.453													21	286	---	---	---	---	PASS	C	179397773	C	C	179397773	3	2	21	1	0	0	0	0	1	0	0	0	16732	1281	45	2	4430	2	TTN	2	179397773	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	660	179397773	63801600	54	9994										
TTN	7273	broad.mit.edu	37	chr2	179460466	179460466	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ccatcatcttctggagaaaaCcatgtcagtttgcaggactc	8	11	4	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:179460466C>G	uc010zfg.1	-	244	50135	c.49911G>C	c.(49909-49911)TGG>TGC	p.W16637C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.W10332C|TTN_uc010zfi.1_Missense_Mutation_p.W10265C|TTN_uc010zfj.1_Missense_Mutation_p.W10140C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17564							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)			CTGGAGAAAACCATGTCAGTT	0.438													2	4	---	---	---	---	PASS	G	179460466	G	G	179460466	3	3	21	1	0	0	0	0	1	0	0	0	16732	508	18	4	50636	4	TTN	2	179460466	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	62693	179460466	63738907	55	9995										
TTN	7273	broad.mit.edu	37	chr2	179582845	179582845	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tttgtgtgttctttataccaAgaaattctaatttctggagt	7	5	3	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:179582845A>T	uc010zfg.1	-	83	21380	c.21156T>A	c.(21154-21156)TCT>TCA	p.S7052S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.S3713S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7979							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)			CTTTATACCAAGAAATTCTAA	0.383													15	53	---	---	---	---	PASS	T	179582845	T	T	179582845	2	4	21	1	0	0	0	0	0	0	0	1	16732	59	3	5		5	TTN	2	179582845	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08	122379	179582845	63616528	56	9996										
TTN	7273	broad.mit.edu	37	chr2	179583559	179583559	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cttccagagagatgttgcatGactccccaggcaccagttcc	9	14	0	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:179583559G>T	uc010zfg.1	-	81	20860	c.20636C>A	c.(20635-20637)TCA>TAA	p.S6879*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.S3540*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7806							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)			GATGTTGCATGACTCCCCAGG	0.483													6	32	---	---	---	---	PASS	T	179583559	T	T	179583559	4	4	21	1	0	0	0	0	0	1	0	0	16732	1294	45	2	80277	2	TTN	2	179583559	Nonsense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	714	179583559	63615814	57	9997										
TTN	7273	broad.mit.edu	37	chr2	179597012	179597012	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agttactttgcaggctagctGggtggcatctcccttcttta	10	10	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:179597012G>A	uc010zfg.1	-	54	13176	c.12952C>T	c.(12952-12954)CAG>TAG	p.Q4318*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.Q979*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5245							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)			CAGGCTAGCTGGGTGGCATCT	0.403													26	122	---	---	---	---	PASS	A	179597012	A	A	179597012	4	1	21	1	0	0	0	0	0	1	0	0	16732	1357	47	3	88069	3	TTN	2	179597012	Nonsense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	13453	179597012	63602361	58	9998										
STAT4	6775	broad.mit.edu	37	chr2	191897726	191897726	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtgtttaccgaaggctttgtCtttgggaatgtcaggatata	12	5	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:191897726C>G	uc002usm.1	-	21	2256	c.2002G>C	c.(2002-2004)GAC>CAC	p.D668H	STAT4_uc002usn.1_Missense_Mutation_p.D668H|STAT4_uc010zgk.1_Missense_Mutation_p.D513H|STAT4_uc002uso.2_Missense_Mutation_p.D668H	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	668					JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			AAGGCTTTGTCTTTGGGAATG	0.398													14	110	---	---	---	---	PASS	G	191897726	G	G	191897726	3	3	21	1	0	0	0	0	1	0	0	0	15266	913	32	2	260	2	STAT4	2	191897726	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	12300714	191897726	51301647	59	9999										
SATB2	23314	broad.mit.edu	37	chr2	200193597	200193597	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agactgagaggctgtccgagGgtcttcttccttacgcagaa	12	10	2	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:200193597G>T	uc002uuy.1	-	8	2027	c.1210C>A	c.(1210-1212)CCT>ACT	p.P404T	SATB2_uc010fsq.1_Missense_Mutation_p.P286T|SATB2_uc002uuz.1_Missense_Mutation_p.P404T|SATB2_uc002uva.1_Missense_Mutation_p.P404T	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	404	CUT 1.					cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCTGTCCGAGGGTCTTCTTCC	0.468													7	52	---	---	---	---	PASS	T	200193597	T	T	200193597	3	4	21	1	0	0	0	0	1	0	0	0	13854	1232	43	3	1007	3	SATB2	2	200193597	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	8295871	200193597	43005776	60	10000										
INO80D	54891	broad.mit.edu	37	chr2	206911302	206911302	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gaggcctgctctgagtcctcTggttcctctccgctctcttc	9	16	4	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:206911302T>A	uc002vaz.3	-	5	1404	c.999A>T	c.(997-999)CCA>CCT	p.P333P		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	333					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						CTGAGTCCTCTGGTTCCTCTC	0.418													12	68	---	---	---	---	PASS	A	206911302	A	A	206911302	2	1	21	1	0	0	0	0	0	0	0	1	7749	1567	55	5		5	INO80D	2	206911302	Silent	SNP	T	TCGA-21-1076-01A-02D-1521-08	6717705	206911302	36288071	61	10001										
C2orf67	151050	broad.mit.edu	37	chr2	210968907	210968907	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gttccggtacaggatcttgaCactcctggggaacctgagga	13	10	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:210968907C>T	uc002vds.2	-	4	1557	c.1349G>A	c.(1348-1350)TGT>TAT	p.C450Y	C2orf67_uc002vdt.2_Missense_Mutation_p.C450Y|C2orf67_uc002vdw.2_Missense_Mutation_p.C450Y|C2orf67_uc002vdv.2_Missense_Mutation_p.C450Y|C2orf67_uc002vdx.1_Missense_Mutation_p.C450Y	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	450										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		AGGATCTTGACACTCCTGGGG	0.393													5	56	---	---	---	---	PASS	T	210968907	T	T	210968907	3	4	21	1	0	0	0	0	1	0	0	0	2186	478	17	3	1662	3	C2orf67	2	210968907	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	4057605	210968907	32230466	62	10002										
CPS1	1373	broad.mit.edu	37	chr2	211447414	211447414	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tccaaataaacagaatttgaTtgctgaggtttcaaccaagg	8	7	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:211447414T>A	uc002vee.3	+	6	734	c.602T>A	c.(601-603)ATT>AAT	p.I201N	CPS1_uc010fur.2_Missense_Mutation_p.I207N	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	201	Anthranilate phosphoribosyltransferase homolog.				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)		CAGAATTTGATTGCTGAGGTT	0.333													6	84	---	---	---	---	PASS	A	211447414	A	A	211447414	3	1	21	1	0	0	0	0	1	0	0	0	3823	1493	52	5	646	5	CPS1	2	211447414	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	478507	211447414	31751959	63	10003										
PTPRN	5798	broad.mit.edu	37	chr2	220161512	220161512	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	atcgctccgagaagggctgcTctccaccttcagttttatgc	9	13	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:220161512T>C	uc002vkz.2	-	16	2358	c.2269A>G	c.(2269-2271)AGC>GGC	p.S757G	PTPRN_uc010zlc.1_Missense_Mutation_p.S667G|PTPRN_uc002vla.2_Missense_Mutation_p.S728G|uc010zld.1_5'Flank|MIR153-1_hsa-mir-153-1|MI0000463_5'Flank	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	757	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		GAAGGGCTGCTCTCCACCTTC	0.607													4	47	---	---	---	---	PASS	C	220161512	C	C	220161512	3	2	21	1	0	0	0	0	1	0	0	0	12807	1551	54	5	702	5	PTPRN	2	220161512	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	8714098	220161512	23037861	64	10004										
PTPRN	5798	broad.mit.edu	37	chr2	220162785	220162785	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctgagcgcatgggtgaggtgCtgtgcgcagtttggggaagg	20	6	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:220162785C>G	uc002vkz.2	-	13	1798	c.1709G>C	c.(1708-1710)AGC>ACC	p.S570T	PTPRN_uc010zlc.1_Missense_Mutation_p.S480T|PTPRN_uc002vla.2_Missense_Mutation_p.S541T	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	570	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		GGGTGAGGTGCTGTGCGCAGT	0.622													11	117	---	---	---	---	PASS	G	220162785	G	G	220162785	3	3	21	1	0	0	0	0	1	0	0	0	12807	797	28	4	1274	4	PTPRN	2	220162785	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	1273	220162785	23036588	65	10005										
SPEG	10290	broad.mit.edu	37	chr2	220315888	220315888	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgactcctacgtgtccgctgGagaagagcccctagaggccc	12	14	0	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:220315888G>T	uc010fwg.2	+	5	2144	c.2144G>T	c.(2143-2145)GGA>GTA	p.G715V	SPEG_uc002vlm.2_RNA|SPEG_uc010fwh.1_5'UTR|SPEG_uc002vln.1_5'UTR|SPEG_uc002vlp.1_5'UTR	NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	715					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity	p.V712_P722del(1)		stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GTGTCCGCTGGAGAAGAGCCC	0.587													39	169	---	---	---	---	PASS	T	220315888	T	T	220315888	3	4	21	1	0	0	0	0	1	0	0	0	15035	1174	41	2	2162	2	SPEG	2	220315888	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	153103	220315888	22883485	66	10006										
DGKD	8527	broad.mit.edu	37	chr2	234365572	234365572	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	accaagaacatgatgtggtaTggagttcttggaaccaaaga	11	6	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr2:234365572T>A	uc002vui.1	+	20	2415	c.2403T>A	c.(2401-2403)TAT>TAA	p.Y801*	DGKD_uc002vuj.1_Nonsense_Mutation_p.Y757*|DGKD_uc010fyh.1_Nonsense_Mutation_p.Y668*|DGKD_uc010fyi.1_RNA	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	801					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	TGATGTGGTATGGAGTTCTTG	0.483													17	84	---	---	---	---	PASS	A	234365572	A	A	234365572	4	1	21	1	0	0	0	0	0	1	0	0	4467	1471	51	5	2505	5	DGKD	2	234365572	Nonsense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	14049684	234365572	8833801	67	10007										
CNTN6	27255	broad.mit.edu	37	chr3	1262453	1262453	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gatttatcaaaatctgaggtCatcctgaattgtgctgctaa	8	7	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:1262453C>A	uc003boz.2	+	3	405	c.138C>A	c.(136-138)GTC>GTA	p.V46V	CNTN6_uc010hbo.2_Silent_p.V41V|CNTN6_uc011asj.1_5'UTR|CNTN6_uc003bpa.2_Silent_p.V46V	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	46	Ig-like C2-type 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		AATCTGAGGTCATCCTGAATT	0.383													24	71	---	---	---	---	PASS	A	1262453	A	A	1262453	2	1	21	1	0	0	0	0	0	0	0	1	3645	813	29	2		2	CNTN6	3	1262453	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08		1262453	196759977	68	10008										
ATG7	10533	broad.mit.edu	37	chr3	11400049	11400049	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gatggacaccagggagagccGgtggcttcctgccgtcattg	15	11	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:11400049G>A	uc003bwc.2	+	13	1559	c.1442G>A	c.(1441-1443)CGG>CAG	p.R481Q	ATG7_uc003bwd.2_Missense_Mutation_p.R481Q|ATG7_uc011aum.1_Missense_Mutation_p.R442Q	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	481					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						AGGGAGAGCCGGTGGCTTCCT	0.517													7	39	---	---	---	---	PASS	A	11400049	A	A	11400049	3	1	21	1	0	0	0	0	1	0	0	0	1101	1116	39	1	1488	1	ATG7	3	11400049	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	10137596	11400049	186622381	69	10009										
ZNF385D	79750	broad.mit.edu	37	chr3	21706423	21706423	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	actgcagctgcagtgtcaagAggaaagggaagaaatggttt	14	5	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:21706423A>T	uc003cce.2	-	2	528	c.120T>A	c.(118-120)CCT>CCA	p.P40P	ZNF385D_uc010hfb.1_Intron	NM_024697	NP_078973	Q9H6B1	Z385D_HUMAN	zinc finger protein 385D	40						nucleus	nucleic acid binding|zinc ion binding			large_intestine(2)|skin(2)|ovary(1)	5						CAGTGTCAAGAGGAAAGGGAA	0.502													12	56	---	---	---	---	PASS	T	21706423	T	T	21706423	2	4	21	1	0	0	0	0	0	0	0	1	17875	291	11	5		5	ZNF385D	3	21706423	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08	10306374	21706423	176316007	70	10010										
GOLGA4	2803	broad.mit.edu	37	chr3	37365749	37365749	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agatattaaaaggtctgaagGggaactccagcaggcatctg	12	7	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:37365749G>T	uc003cgv.2	+	14	2676	c.2372G>T	c.(2371-2373)GGG>GTG	p.G791V	GOLGA4_uc010hgr.1_Missense_Mutation_p.G352V|GOLGA4_uc003cgw.2_Missense_Mutation_p.G813V|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.G672V	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	791	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						AGGTCTGAAGGGGAACTCCAG	0.433													24	65	---	---	---	---	PASS	T	37365749	T	T	37365749	3	4	21	1	0	0	0	0	1	0	0	0	6555	1232	43	3	2496	3	GOLGA4	3	37365749	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	15659326	37365749	160656681	71	10011										
SCN10A	6336	broad.mit.edu	37	chr3	38802845	38802845	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agccagtttcttcactgagtGaatcagggcccccacaatga	9	12	3	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:38802845G>A	uc003ciq.2	-	6	721	c.721C>T	c.(721-723)CAC>TAC	p.H241Y		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	241	I.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	TTCACTGAGTGAATCAGGGCC	0.507													17	31	---	---	---	---	PASS	A	38802845	A	A	38802845	3	1	21	1	0	0	0	0	1	0	0	0	13912	1290	45	2	5237	2	SCN10A	3	38802845	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1437096	38802845	159219585	72	10012										
SCN11A	11280	broad.mit.edu	37	chr3	38962736	38962736	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cgtagcaaggcccccacgatGaccttcagacctgagaaaga	10	13	1	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:38962736G>C	uc011ays.1	-	6	922	c.723C>G	c.(721-723)GTC>GTG	p.V241V		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	241	I.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CCCCCACGATGACCTTCAGAC	0.537													6	121	---	---	---	---	PASS	C	38962736	C	C	38962736	2	2	21	1	0	0	0	0	0	0	0	1	13913	1277	45	2		2	SCN11A	3	38962736	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	159891	38962736	159059694	73	10013										
TGM4	7047	broad.mit.edu	37	chr3	44935188	44935188	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aaccctggaactttggtcagGtaatgatttgtcgtcttgtg	11	7	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:44935188G>T	uc003coc.3	+	5	622	c.549_splice	c.e5+1	p.Q183_splice	TGM4_uc003cob.2_Splice_Site	NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)						peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	CTTTGGTCAGGTAATGATTTG	0.507													19	89	---	---	---	---	PASS	T	44935188	T	T	44935188	5	4	21	1	0	0	0	0	0	0	1	0	15829	1275	44	3	568	3	TGM4	3	44935188	Splice_Site	SNP	G	TCGA-21-1076-01A-02D-1521-08	5972452	44935188	153087242	74	10014										
NBEAL2	23218	broad.mit.edu	37	chr3	47043973	47043973	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tatgagcagtgggcagcggcGccagtgggagcgcgcccaga	18	11	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:47043973G>A	uc003cqp.2	+	32	5443	c.5264G>A	c.(5263-5265)CGC>CAC	p.R1755H	NBEAL2_uc010hjm.1_Missense_Mutation_p.R1132H|NBEAL2_uc010hjn.1_Missense_Mutation_p.R151H|NBEAL2_uc010hjo.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1755							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		GGGCAGCGGCGCCAGTGGGAG	0.577													7	48	---	---	---	---	PASS	A	47043973	A	A	47043973	3	1	21	1	0	0	0	0	1	0	0	0	10189	1087	38	1	5390	1	NBEAL2	3	47043973	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	2108785	47043973	150978457	75	10015										
ITIH1	3697	broad.mit.edu	37	chr3	52820992	52820992	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	acagggaggagagggccaacCtgtcatcccaggccctgcag	14	13	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:52820992C>A	uc003dfs.2	+	14	1789	c.1765C>A	c.(1765-1767)CTG>ATG	p.L589M	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Missense_Mutation_p.L190M|ITIH1_uc010hmo.1_Missense_Mutation_p.L143M|ITIH1_uc003dfu.2_5'Flank	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	589	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		GAGGGCCAACCTGTCATCCCA	0.557													30	62	---	---	---	---	PASS	A	52820992	A	A	52820992	3	1	21	1	0	0	0	0	1	0	0	0	7903	680	24	3	1819	3	ITIH1	3	52820992	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	5777019	52820992	145201438	76	10016										
MAGI1	9223	broad.mit.edu	37	chr3	66023687	66023687	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttaccttgtctgacggccttGaaggtgacggcctccttgca	11	12	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:66023687G>C	uc003dmn.2	-	1	823	c.297C>G	c.(295-297)TTC>TTG	p.F99L	MAGI1_uc003dmm.2_Missense_Mutation_p.F99L|MAGI1_uc003dmo.2_Missense_Mutation_p.F99L|MAGI1_uc003dmp.2_Missense_Mutation_p.F99L|MAGI1_uc003dmr.2_Missense_Mutation_p.F99L	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	99	Guanylate kinase-like.|PDZ 1.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		TGACGGCCTTGAAGGTGACGG	0.642													66	179	---	---	---	---	PASS	C	66023687	C	C	66023687	3	2	21	1	0	0	0	0	1	0	0	0	9190	1281	45	2	4417	2	MAGI1	3	66023687	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	13202695	66023687	131998743	77	10017										
OR5H1	26341	broad.mit.edu	37	chr3	97851588	97851588	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gacagagtttgttctcacagGatttttatatcaaccacagt	7	8	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:97851588G>T	uc011bgt.1	+	1	47	c.47G>T	c.(46-48)GGA>GTA	p.G16V		NM_001005338	NP_001005338	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						GTTCTCACAGGATTTTTATAT	0.403													27	93	---	---	---	---	PASS	T	97851588	T	T	97851588	3	4	21	1	0	0	0	0	1	0	0	0	11159	1174	41	2	49	2	OR5H1	3	97851588	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	31827901	97851588	100170842	78	10018										
OR5H14	403273	broad.mit.edu	37	chr3	97868313	97868313	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cagtggaaaatacccctgttCctggcattcttggtaatata	8	9	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:97868313C>A	uc003dsg.1	+	1	84	c.84C>A	c.(82-84)TTC>TTA	p.F28L		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	28	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TACCCCTGTTCCTGGCATTCT	0.423													50	230	---	---	---	---	PASS	A	97868313	A	A	97868313	3	1	21	1	0	0	0	0	1	0	0	0	11160	854	30	2	86	2	OR5H14	3	97868313	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	16725	97868313	100154117	79	10019										
TBC1D23	55773	broad.mit.edu	37	chr3	100034982	100034982	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agagtgggcaagccttaccgTggcgtaaagcctgttttcag	13	9	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:100034982T>A	uc003dtt.2	+	16	1815	c.1638T>A	c.(1636-1638)CGT>CGA	p.R546R	TBC1D23_uc003dts.2_Silent_p.R531R|TBC1D23_uc003dtu.2_5'UTR	NM_018309	NP_060779	Q9NUY8	TBC23_HUMAN	TBC1 domain family, member 23	546						intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2						AGCCTTACCGTGGCGTAAAGC	0.403													9	81	---	---	---	---	PASS	A	100034982	A	A	100034982	2	1	21	1	0	0	0	0	0	0	0	1	15610	1683	59	5		5	TBC1D23	3	100034982	Silent	SNP	T	TCGA-21-1076-01A-02D-1521-08	2166669	100034982	97987448	80	10020										
TBC1D23	55773	broad.mit.edu	37	chr3	100035014	100035014	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgttttcagcattggggatgAagaagaatacgacacaggtg	13	5	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:100035014A>C	uc003dtt.2	+	16	1847	c.1670A>C	c.(1669-1671)GAA>GCA	p.E557A	TBC1D23_uc003dts.2_Missense_Mutation_p.E542A|TBC1D23_uc003dtu.2_5'UTR	NM_018309	NP_060779	Q9NUY8	TBC23_HUMAN	TBC1 domain family, member 23	557						intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2						ATTGGGGATGAAGAAGAATAC	0.433													7	66	---	---	---	---	PASS	C	100035014	C	C	100035014	3	2	21	1	0	0	0	0	1	0	0	0	15610	246	9	5	1683	5	TBC1D23	3	100035014	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	32	100035014	97987416	81	10021										
TRAT1	50852	broad.mit.edu	37	chr3	108568085	108568085	+	Missense_Mutation	SNP	C	A	A													0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgtaaataagatgcaggaagCcaccccatctgcacaggtga							TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:108568085C>A	uc003dxi.1	+	5	431	c.287C>A	c.(286-288)GCC>GAC	p.A96D	TRAT1_uc010hpx.1_Missense_Mutation_p.A59D	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	96	Cytoplasmic (Potential).				cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						ATGCAGGAAGCCACCCCATCT	0.378													7	60	---	---	---	---	PASS	A	108568085	A	A	108568085	3	1	21	1	0	0	0	0	1	0	0	0	16463	739	26	3	305	3	TRAT1	3	108568085	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	8533071	108568085	89454345	82	10022	289	2								
TRAT1	50852	broad.mit.edu	37	chr3	108568086	108568086	+	Silent	SNP	C	A	A													0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtaaataagatgcaggaagcCaccccatctgcacaggtgag							TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:108568086C>A	uc003dxi.1	+	5	432	c.288C>A	c.(286-288)GCC>GCA	p.A96A	TRAT1_uc010hpx.1_Silent_p.A59A	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	96	Cytoplasmic (Potential).				cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						TGCAGGAAGCCACCCCATCTG	0.373													7	59	---	---	---	---	PASS	A	108568086	A	A	108568086	2	1	21	1	0	0	0	0	0	0	0	1	16463	581	21	3		3	TRAT1	3	108568086	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	1	108568086	89454344	83	10023	289	2								
GOLGB1	2804	broad.mit.edu	37	chr3	121414037	121414037	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	catgtttctcggtggcctctAggttagcttgtttagataca	10	8	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:121414037A>G	uc003eei.3	-	13	5444	c.5318T>C	c.(5317-5319)CTA>CCA	p.L1773P	GOLGB1_uc010hrc.2_Missense_Mutation_p.L1778P|GOLGB1_uc003eej.3_Missense_Mutation_p.L1739P|GOLGB1_uc011bjm.1_Missense_Mutation_p.L1659P|GOLGB1_uc010hrd.1_Missense_Mutation_p.L1737P	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1773	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		GGTGGCCTCTAGGTTAGCTTG	0.403													46	311	---	---	---	---	PASS	G	121414037	G	G	121414037	3	3	21	1	0	0	0	0	1	0	0	0	6565	420	15	5	4501	5	GOLGB1	3	121414037	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	12845951	121414037	76608393	84	10024										
UMPS	7372	broad.mit.edu	37	chr3	124458954	124458954	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gagttgtgaaaggcctgcaaGaagtgggcctgcctttgcat	14	8	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:124458954G>T	uc003ehl.3	+	4	1172	c.1066G>T	c.(1066-1068)GAA>TAA	p.E356*	UMPS_uc003ehm.3_RNA|UMPS_uc011bka.1_Nonsense_Mutation_p.E178*|UMPS_uc011bkb.1_Nonsense_Mutation_p.E264*|UMPS_uc011bkc.1_Nonsense_Mutation_p.E178*|UMPS_uc003ehn.3_Nonsense_Mutation_p.E178*|UMPS_uc011bkd.1_Intron	NM_000373	NP_000364	P11172	UMPS_HUMAN	uridine monophosphate synthase	356	OMPdecase.				'de novo' pyrimidine base biosynthetic process|'de novo' UMP biosynthetic process|pyrimidine nucleoside biosynthetic process	cytosol|nucleus	orotate phosphoribosyltransferase activity|orotidine-5'-phosphate decarboxylase activity			kidney(1)	1				GBM - Glioblastoma multiforme(114;0.146)		AGGCCTGCAAGAAGTGGGCCT	0.547													36	231	---	---	---	---	PASS	T	124458954	T	T	124458954	4	4	21	1	0	0	0	0	0	1	0	0	16978	943	33	2	1080	2	UMPS	3	124458954	Nonsense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	3044917	124458954	73563476	85	10025										
EPHB1	2047	broad.mit.edu	37	chr3	134967254	134967254	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tggactgttggcagaaggacCggaacagccggccccggttt	15	11	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:134967254C>T	uc003eqt.2	+	14	2813	c.2593C>T	c.(2593-2595)CGG>TGG	p.R865W	EPHB1_uc003equ.2_Missense_Mutation_p.R426W	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	865	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GCAGAAGGACCGGAACAGCCG	0.592													22	75	---	---	---	---	PASS	T	134967254	T	T	134967254	3	4	21	1	0	0	0	0	1	0	0	0	5174	643	23	1	2647	1	EPHB1	3	134967254	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	10508300	134967254	63055176	86	10026										
KPNA4	3840	broad.mit.edu	37	chr3	160225962	160225962	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gccatttttaatatattactTagtccatcgagtactacttg	5	8	0	0	rs145152566		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:160225962T>C	uc003fdn.2	-	15	1611	c.1305A>G	c.(1303-1305)CTA>CTG	p.L435L		NM_002268	NP_002259	O00629	IMA4_HUMAN	karyopherin alpha 4	435	ARM 9.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			ATATATTACTTAGTCCATCGA	0.363													9	64	---	---	---	---	PASS	C	160225962	C	C	160225962	2	2	21	1	0	0	0	0	0	0	0	1	8432	1741	61	5		5	KPNA4	3	160225962	Silent	SNP	T	TCGA-21-1076-01A-02D-1521-08	25258708	160225962	37796468	87	10027										
BCHE	590	broad.mit.edu	37	chr3	165548177	165548177	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agagttacacttttaggattTccaccaaaggctgctatatt	7	8	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:165548177T>C	uc003fem.3	-	2	805	c.645A>G	c.(643-645)GGA>GGG	p.G215G	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	215					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	TTTTAGGATTTCCACCAAAGG	0.448													20	108	---	---	---	---	PASS	C	165548177	C	C	165548177	2	2	21	1	0	0	0	0	0	0	0	1	1358	1770	62	5		5	BCHE	3	165548177	Silent	SNP	T	TCGA-21-1076-01A-02D-1521-08	5322215	165548177	32474253	88	10028										
BCHE	590	broad.mit.edu	37	chr3	165548626	165548626	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tttgaatcgaagtctaccaaGaggtggctgtgcatagggaa	13	6	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:165548626G>T	uc003fem.3	-	2	356	c.196C>A	c.(196-198)CTT>ATT	p.L66I	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	66					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	AGTCTACCAAGAGGTGGCTGT	0.418													37	95	---	---	---	---	PASS	T	165548626	T	T	165548626	3	4	21	1	0	0	0	0	1	0	0	0	1358	942	33	2	1624	2	BCHE	3	165548626	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	449	165548626	32473804	89	10029										
ZBBX	79740	broad.mit.edu	37	chr3	167039936	167039936	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tttaagccataatttttccaTataggatagaatgtcttctt	5	6	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:167039936T>C	uc003fep.2	-	12	1275	c.952A>G	c.(952-954)ATG>GTG	p.M318V	ZBBX_uc011bpc.1_Missense_Mutation_p.M318V|ZBBX_uc003feq.2_Missense_Mutation_p.M289V	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	318						intracellular	zinc ion binding			ovary(2)	2						AATTTTTCCATATAGGATAGA	0.279													20	38	---	---	---	---	PASS	C	167039936	C	C	167039936	3	2	21	1	0	0	0	0	1	0	0	0	17513	1406	49	5	1490	5	ZBBX	3	167039936	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	1491310	167039936	30982494	90	10030										
RFC4	5984	broad.mit.edu	37	chr3	186508170	186508170	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tctgacaggcagcaaatactCcatcaattttctcagctggt	7	11	3	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:186508170C>G	uc003fqz.2	-	9	1050	c.827G>C	c.(826-828)GGA>GCA	p.G276A	RFC4_uc011bsc.1_Missense_Mutation_p.G276A	NM_002916	NP_002907	P35249	RFC4_HUMAN	replication factor C 4	276					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|phosphatidylinositol-mediated signaling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|large_intestine(1)	5	all_cancers(143;2.92e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)	GBM - Glioblastoma multiforme(93;0.0739)		AGCAAATACTCCATCAATTTT	0.418													12	90	---	---	---	---	PASS	G	186508170	G	G	186508170	3	3	21	1	0	0	0	0	1	0	0	0	13247	855	30	2	276	2	RFC4	3	186508170	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	19468234	186508170	11514260	91	10031										
C3orf21	152002	broad.mit.edu	37	chr3	194877236	194877236	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggcgcctggcaggaaactgtCaaattcctcaaacaactccc	8	14	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:194877236C>G	uc003fum.3	-	3	835	c.727G>C	c.(727-729)GAC>CAC	p.D243H	C3orf21_uc003ful.2_Missense_Mutation_p.D40H|C3orf21_uc011bsw.1_Missense_Mutation_p.D97H	NM_152531	NP_689744	Q8NBI6	CC021_HUMAN	hypothetical protein LOC152002	243						integral to membrane	transferase activity, transferring glycosyl groups				0	all_cancers(143;9.33e-09)|Ovarian(172;0.0634)		Epithelial(36;1.73e-20)|all cancers(36;1.42e-18)|OV - Ovarian serous cystadenocarcinoma(49;1.56e-17)|Lung(62;0.000117)|LUSC - Lung squamous cell carcinoma(58;0.000146)	GBM - Glioblastoma multiforme(46;1.36e-05)		AGGAAACTGTCAAATTCCTCA	0.552													6	110	---	---	---	---	PASS	G	194877236	G	G	194877236	3	3	21	1	0	0	0	0	1	0	0	0	2214	826	29	2	462	2	C3orf21	3	194877236	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	8369066	194877236	3145194	92	10032										
MUC4	4585	broad.mit.edu	37	chr3	195492241	195492241	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctgggccaccgaggctggctCttcagccactgcaggcactc	12	16	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr3:195492241C>G	uc011bto.1	-	10	13774	c.13314G>C	c.(13312-13314)AAG>AAC	p.K4438N	MUC4_uc003fuz.2_Missense_Mutation_p.K164N|MUC4_uc003fva.2_Missense_Mutation_p.K46N|MUC4_uc003fvb.2_Missense_Mutation_p.K82N|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.K82N|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.K46N|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.K130N|MUC4_uc011bti.1_Missense_Mutation_p.K130N|MUC4_uc011btj.1_Missense_Mutation_p.K307N|MUC4_uc011btk.1_Missense_Mutation_p.K46N|MUC4_uc011btl.1_Missense_Mutation_p.K75N|MUC4_uc011btm.1_Missense_Mutation_p.K255N|MUC4_uc011btn.1_Missense_Mutation_p.K46N|MUC4_uc003fvo.2_Missense_Mutation_p.K330N|MUC4_uc003fvp.2_Missense_Mutation_p.K279N|MUC4_uc010hzu.1_Missense_Mutation_p.K1178N	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1323	AMOP.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GAGGCTGGCTCTTCAGCCACT	0.637													11	73	---	---	---	---	PASS	G	195492241	G	G	195492241	3	3	21	1	0	0	0	0	1	0	0	0	9978	912	32	2	2608	2	MUC4	3	195492241	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	615005	195492241	2530189	93	10033										
UGT2A3	79799	broad.mit.edu	37	chr4	69811054	69811054	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gctttggcaggtttacagtgCaatcctccaacaaactcaaa	7	11	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr4:69811054C>A	uc003hef.2	-	2	865	c.834G>T	c.(832-834)TTG>TTT	p.L278F	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	278	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						GTTTACAGTGCAATCCTCCAA	0.373													7	47	---	---	---	---	PASS	A	69811054	A	A	69811054	3	1	21	1	0	0	0	0	1	0	0	0	16952	709	25	3	769	3	UGT2A3	4	69811054	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08		69811054	121343222	94	10034										
ENAM	10117	broad.mit.edu	37	chr4	71509751	71509751	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cacatttatttcacctaagcCagagaggctcttgctgtgct	8	11	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr4:71509751C>T	uc011caw.1	+	9	2889	c.2608C>T	c.(2608-2610)CAG>TAG	p.Q870*		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	870					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			TCACCTAAGCCAGAGAGGCTC	0.473													14	63	---	---	---	---	PASS	T	71509751	T	T	71509751	4	4	21	1	0	0	0	0	0	1	0	0	5112	595	21	3	2638	3	ENAM	4	71509751	Nonsense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	1698697	71509751	119644525	95	10035										
SLC4A4	8671	broad.mit.edu	37	chr4	72316226	72316226	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gggatccagcaattaggataGagcctcctaagagtcttcca	10	10	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr4:72316226G>T	uc003hfy.2	+	10	1291	c.1174G>T	c.(1174-1176)GAG>TAG	p.E392*	SLC4A4_uc010iic.2_Nonsense_Mutation_p.E392*|SLC4A4_uc010iib.2_Nonsense_Mutation_p.E392*|SLC4A4_uc003hfz.2_Nonsense_Mutation_p.E392*|SLC4A4_uc003hgc.3_Nonsense_Mutation_p.E348*|SLC4A4_uc010iid.2_5'UTR|SLC4A4_uc003hga.2_Nonsense_Mutation_p.E270*|SLC4A4_uc003hgb.3_Nonsense_Mutation_p.E348*	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	392	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			AATTAGGATAGAGCCTCCTAA	0.428													5	37	---	---	---	---	PASS	T	72316226	T	T	72316226	4	4	21	1	0	0	0	0	0	1	0	0	14656	943	33	2	1329	2	SLC4A4	4	72316226	Nonsense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	806475	72316226	118838050	96	10036										
DSPP	1834	broad.mit.edu	37	chr4	88535380	88535380	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gatagcacatcagacactaaTaatagtgacagtaatggcaa	8	7	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr4:88535380T>C	uc003hqu.2	+	5	1686	c.1566T>C	c.(1564-1566)AAT>AAC	p.N522N		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	522	Asp/Ser-rich.				biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		CAGACACTAATAATAGTGACA	0.333													12	31	---	---	---	---	PASS	C	88535380	C	C	88535380	2	2	21	1	0	0	0	0	0	0	0	1	4782	1403	49	5		5	DSPP	4	88535380	Silent	SNP	T	TCGA-21-1076-01A-02D-1521-08	16219154	88535380	102618896	97	10037										
FAM190A	401145	broad.mit.edu	37	chr4	91549316	91549316	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	catagattctctgccattcaGactgatgttacaggactgca	8	10	2	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr4:91549316G>T	uc003hsv.3	+	6	2205	c.1865G>T	c.(1864-1866)AGA>ATA	p.R622I	FAM190A_uc010ikv.2_RNA|FAM190A_uc003hsw.2_Missense_Mutation_p.R622I	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1	622										large_intestine(1)|ovary(1)	2						CTGCCATTCAGACTGATGTTA	0.463													19	54	---	---	---	---	PASS	T	91549316	T	T	91549316	3	4	21	1	0	0	0	0	1	0	0	0	5521	942	33	2	1883	2	FAM190A	4	91549316	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	3013936	91549316	99604960	98	10038										
ANXA5	308	broad.mit.edu	37	chr4	122592701	122592701	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aatacattgtaaatcacctaCcaacagcaaggagtagttgc	7	9	1	0	rs113374737		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr4:122592701C>A	uc003idu.3	-	9	791	c.721_splice	c.e9+1	p.V241_splice	ANXA5_uc003idv.3_Splice_Site_p.V241_splice|ANXA5_uc003idw.3_Splice_Site|ANXA5_uc010inm.2_Splice_Site_p.V241_splice|ANXA5_uc010inn.2_Splice_Site_p.V181_splice|ANXA5_uc010ino.2_Splice_Site_p.V141_splice	NM_001154	NP_001145	P08758	ANXA5_HUMAN	annexin 5						anti-apoptosis|blood coagulation|negative regulation of coagulation|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity			ovary(1)	1						AAATCACCTACCAACAGCAAG	0.383													4	28	---	---	---	---	PASS	A	122592701	A	A	122592701	5	1	21	1	0	0	0	0	0	0	1	0	721	521	18	3	256	3	ANXA5	4	122592701	Splice_Site	SNP	C	TCGA-21-1076-01A-02D-1521-08	31043385	122592701	68561575	99	10039										
TIGD4	201798	broad.mit.edu	37	chr4	153690989	153690989	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agtatccttctctgcatttgTtatgtcactttctccctttt	4	11	3	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr4:153690989T>A	uc003imy.2	-	2	1950	c.1168A>T	c.(1168-1170)ACA>TCA	p.T390S		NM_145720	NP_663772	Q8IY51	TIGD4_HUMAN	tigger transposable element derived 4	390					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|DNA binding			ovary(1)	1	all_hematologic(180;0.093)					TCTGCATTTGTTATGTCACTT	0.428													29	94	---	---	---	---	PASS	A	153690989	A	A	153690989	3	1	21	1	0	0	0	0	1	0	0	0	15895	1725	60	5	374	5	TIGD4	4	153690989	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	31098288	153690989	37463287	100	10040										
GUCY1A3	2982	broad.mit.edu	37	chr4	156632156	156632156	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctcgctggtgattcccacatCgctattctgcaagacatttc	7	13	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr4:156632156C>G	uc003iov.2	+	7	1375	c.839C>G	c.(838-840)TCG>TGG	p.S280W	GUCY1A3_uc003iou.2_Missense_Mutation_p.S280W|GUCY1A3_uc010iqc.2_Missense_Mutation_p.S280W|GUCY1A3_uc003iow.2_Missense_Mutation_p.S280W|GUCY1A3_uc010iqd.2_Missense_Mutation_p.S279W|GUCY1A3_uc003iox.2_Missense_Mutation_p.S280W|GUCY1A3_uc003ioz.2_Missense_Mutation_p.S45W|GUCY1A3_uc003ioy.2_Missense_Mutation_p.S280W|GUCY1A3_uc010iqe.2_Missense_Mutation_p.S45W|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Missense_Mutation_p.S280W	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	280					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		ATTCCCACATCGCTATTCTGC	0.463													19	78	---	---	---	---	PASS	G	156632156	G	G	156632156	3	3	21	1	0	0	0	0	1	0	0	0	6894	893	31	2	853	2	GUCY1A3	4	156632156	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	2941167	156632156	34522120	101	10041										
WDR17	116966	broad.mit.edu	37	chr4	177081224	177081224	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttggtgatgtgaaaaagctaGtccattttttcatgtcaaga	9	5	2	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr4:177081224G>T	uc003iuj.2	+	20	2833	c.2677G>T	c.(2677-2679)GTC>TTC	p.V893F	WDR17_uc003iuk.2_Missense_Mutation_p.V869F|WDR17_uc003ium.3_Missense_Mutation_p.V869F|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.V112F	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	893										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		GAAAAAGCTAGTCCATTTTTT	0.398													19	49	---	---	---	---	PASS	T	177081224	T	T	177081224	3	4	21	1	0	0	0	0	1	0	0	0	17274	1029	36	3	2751	3	WDR17	4	177081224	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	20449068	177081224	14073052	102	10042										
PLEKHG4B	153478	broad.mit.edu	37	chr5	143200	143200	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cctgtgtcagcacagacggcGgcagcctccattgccacaac	10	16	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:143200G>A	uc003jak.2	+	2	498	c.448G>A	c.(448-450)GGC>AGC	p.G150S		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	150					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		CACAGACGGCGGCAGCCTCCA	0.617													38	150	---	---	---	---	PASS	A	143200	A	A	143200	3	1	21	1	0	0	0	0	1	0	0	0	12072	1116	39	1	454	1	PLEKHG4B	5	143200	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08		143200	180772060	103	10043										
SLC6A18	348932	broad.mit.edu	37	chr5	1238097	1238097	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	acagctttgttcccttacctGgtcctgaccatctttctcat	5	14	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:1238097G>T	uc003jby.1	+	5	777	c.654G>T	c.(652-654)CTG>CTT	p.L218L		NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18	218	Helical; Name=5; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			TCCCTTACCTGGTCCTGACCA	0.488													17	84	---	---	---	---	PASS	T	1238097	T	T	1238097	2	4	21	1	0	0	0	0	0	0	0	1	14681	1335	47	3		3	SLC6A18	5	1238097	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	1094897	1238097	179677163	104	10044										
ADAMTS16	170690	broad.mit.edu	37	chr5	5190155	5190155	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cagtggcagtctggattgatGgggaaagatgggactcgtca	16	6	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:5190155G>A	uc003jdl.2	+	7	1257	c.1119G>A	c.(1117-1119)ATG>ATA	p.M373I	ADAMTS16_uc003jdk.1_Missense_Mutation_p.M373I|ADAMTS16_uc003jdj.1_Missense_Mutation_p.M373I	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	373	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CTGGATTGATGGGGAAAGATG	0.532													26	129	---	---	---	---	PASS	A	5190155	A	A	5190155	3	1	21	1	0	0	0	0	1	0	0	0	261	1348	47	3	1145	3	ADAMTS16	5	5190155	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	3952058	5190155	175725105	105	10045										
DNAH5	1767	broad.mit.edu	37	chr5	13885145	13885145	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gaatacgtttgcgaatggccTctagtgtattccttgtaact	9	8	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:13885145T>A	uc003jfd.2	-	19	2978	c.2936A>T	c.(2935-2937)GAG>GTG	p.E979V		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	979	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GCGAATGGCCTCTAGTGTATT	0.428									Kartagener_syndrome				24	123	---	---	---	---	PASS	A	13885145	A	A	13885145	3	1	21	1	0	0	0	0	1	0	0	0	4604	1551	54	5	11182	5	DNAH5	5	13885145	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	8694990	13885145	167030115	106	10046										
ADAMTS12	81792	broad.mit.edu	37	chr5	33662024	33662024	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgtagtctctggtgtacctgGtgagaaggacagccacgtcg	14	9	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:33662024G>T	uc003jia.1	-	6	1200	c.1037C>A	c.(1036-1038)ACC>AAC	p.T346N	ADAMTS12_uc010iuq.1_Missense_Mutation_p.T346N	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	346	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GGTGTACCTGGTGAGAAGGAC	0.498										HNSCC(64;0.19)			24	86	---	---	---	---	PASS	T	33662024	T	T	33662024	3	4	21	1	0	0	0	0	1	0	0	0	257	1261	44	3	3823	3	ADAMTS12	5	33662024	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	19776879	33662024	147253236	107	10047										
HEATR7B2	133558	broad.mit.edu	37	chr5	41061722	41061722	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctccattatataccagaacaGcatgaagatcttgtcagaca	6	10	2	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:41061722G>T	uc003jmj.3	-	6	1055	c.565C>A	c.(565-567)CTG>ATG	p.L189M		NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	189							binding			ovary(6)|central_nervous_system(2)	8						TACCAGAACAGCATGAAGATC	0.493													30	247	---	---	---	---	PASS	T	41061722	T	T	41061722	3	4	21	1	0	0	0	0	1	0	0	0	7035	962	34	3	4340	3	HEATR7B2	5	41061722	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	7399698	41061722	139853538	108	10048										
RGNEF	64283	broad.mit.edu	37	chr5	73163721	73163721	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	attcttcatttagagacatcCcacagcctggtctctccttg	6	13	3	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:73163721C>T	uc011csq.1	+	18	2184	c.2173C>T	c.(2173-2175)CCA>TCA	p.P725S	RGNEF_uc003kcx.2_Missense_Mutation_p.P725S|RGNEF_uc010izf.2_Missense_Mutation_p.P725S|RGNEF_uc011csr.1_Missense_Mutation_p.P412S	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	725					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		TAGAGACATCCCACAGCCTGG	0.478													8	55	---	---	---	---	PASS	T	73163721	T	T	73163721	3	4	21	1	0	0	0	0	1	0	0	0	13283	623	22	3	2243	3	RGNEF	5	73163721	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	32101999	73163721	107751539	109	10049										
OTP	23440	broad.mit.edu	37	chr5	76932928	76932928	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcctccccgggcagcagagtGgctccctccactgggtcaga	12	16	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:76932928G>T	uc003kfg.2	-	2	313	c.165C>A	c.(163-165)GCC>GCA	p.A55A		NM_032109	NP_115485	Q5XKR4	OTP_HUMAN	orthopedia homeobox	55						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.000601)|Ovarian(174;0.0105)|Prostate(461;0.214)		OV - Ovarian serous cystadenocarcinoma(54;9.04e-51)|Epithelial(54;1.62e-45)|all cancers(79;4.4e-41)		GCAGCAGAGTGGCTCCCTCCA	0.731													6	16	---	---	---	---	PASS	T	76932928	T	T	76932928	2	4	21	1	0	0	0	0	0	0	0	1	11310	1335	47	3		3	OTP	5	76932928	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	3769207	76932928	103982332	110	10050										
RASA1	5921	broad.mit.edu	37	chr5	86674274	86674274	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	accttgatggagcagtatatGaaagccactgctacacagtt	9	9	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:86674274G>A	uc003kiw.2	+	18	2524	c.2406G>A	c.(2404-2406)ATG>ATA	p.M802I	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Missense_Mutation_p.M625I|RASA1_uc011ctv.1_Missense_Mutation_p.M635I|RASA1_uc011ctw.1_Missense_Mutation_p.M636I|RASA1_uc010jaw.2_Missense_Mutation_p.M624I	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	802	Ras-GAP.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		AGCAGTATATGAAAGCCACTG	0.353													14	55	---	---	---	---	PASS	A	86674274	A	A	86674274	3	1	21	1	0	0	0	0	1	0	0	0	13060	1290	45	2	2488	2	RASA1	5	86674274	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	9741346	86674274	94240986	111	10051										
GPR98	84059	broad.mit.edu	37	chr5	89953848	89953848	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttatgaacttcatgccatgcCcgcaaaaagtgatttacacc	6	11	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:89953848C>T	uc003kju.2	+	21	4601	c.4505C>T	c.(4504-4506)CCC>CTC	p.P1502L	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1502	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CATGCCATGCCCGCAAAAAGT	0.413													16	75	---	---	---	---	PASS	T	89953848	T	T	89953848	3	4	21	1	0	0	0	0	1	0	0	0	6721	623	22	3	4587	3	GPR98	5	89953848	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	3279574	89953848	90961412	112	10052										
PCDHA7	56141	broad.mit.edu	37	chr5	140216232	140216232	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtcattctcccagcagaggcGgcagagggtgtgctctgggg	17	10	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:140216232G>A	uc003lhq.2	+	1	2264	c.2264G>A	c.(2263-2265)CGG>CAG	p.R755Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.R755Q	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	755	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCAGAGGCGGCAGAGGGTG	0.617													10	50	---	---	---	---	PASS	A	140216232	A	A	140216232	3	1	21	1	0	0	0	0	1	0	0	0	11529	1116	39	1	2266	1	PCDHA7	5	140216232	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	50262384	140216232	40699028	113	10053										
EBF1	1879	broad.mit.edu	37	chr5	158141190	158141190	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agcccttttgagtattacttCctgtcaagagaaaagcagat	8	8	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:158141190C>A	uc010jip.2	-	12	1428	c.1126G>T	c.(1126-1128)GAA>TAA	p.E376*	EBF1_uc011ddw.1_Nonsense_Mutation_p.E244*|EBF1_uc011ddx.1_Nonsense_Mutation_p.E377*|EBF1_uc003lxl.3_Nonsense_Mutation_p.E345*	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	376					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGTATTACTTCCTGTCAAGAG	0.488			T	HMGA2	lipoma								28	122	---	---	---	---	PASS	A	158141190	A	A	158141190	4	1	21	1	0	0	0	0	0	1	0	0	4880	869	30	2	669	2	EBF1	5	158141190	Nonsense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	17924958	158141190	22774070	114	10054										
ATP10B	23120	broad.mit.edu	37	chr5	160031014	160031014	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	attccaattccaatatcagcAgcttgaatcatgcttacatc	4	11	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:160031014A>T	uc003lym.1	-	20	4042	c.3195T>A	c.(3193-3195)GCT>GCA	p.A1065A	ATP10B_uc010jit.1_Silent_p.A382A	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	1065	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAATATCAGCAGCTTGAATCA	0.403													14	72	---	---	---	---	PASS	T	160031014	T	T	160031014	2	4	21	1	0	0	0	0	0	0	0	1	1117	175	7	5		5	ATP10B	5	160031014	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08	1889824	160031014	20884246	115	10055										
LMAN2	10960	broad.mit.edu	37	chr5	176759097	176759097	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gaggcgccactcagtagaagCgcttgttccgctcctgccgc	12	15	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr5:176759097C>A	uc003mge.2	-	8	1298	c.1061G>T	c.(1060-1062)CGC>CTC	p.R354L	LMAN2_uc003mgd.2_3'UTR	NM_006816	NP_006807	Q12907	LMAN2_HUMAN	lectin, mannose-binding 2 precursor	354	Cytoplasmic (Potential).				protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	metal ion binding|sugar binding				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	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)			TCAGTAGAAGCGCTTGTTCCG	0.597													5	29	---	---	---	---	PASS	A	176759097	A	A	176759097	3	1	21	1	0	0	0	0	1	0	0	0	8838	768	27	1	13	1	LMAN2	5	176759097	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	16728083	176759097	4156163	116	10056										
SIRT5	23408	broad.mit.edu	37	chr6	13592056	13592056	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggcaagcagggccggcgagtCgtggtcatcacccagaacat	14	12	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:13592056C>T	uc003nay.2	+	5	701	c.405C>T	c.(403-405)GTC>GTT	p.V135V	SIRT5_uc003naw.2_Silent_p.V135V|SIRT5_uc003nax.2_Silent_p.V27V|SIRT5_uc011dit.1_Silent_p.V135V	NM_012241	NP_036373	Q9NXA8	SIRT5_HUMAN	sirtuin 5 isoform 1	135	Deacetylase sirtuin-type.				chromatin silencing|protein ADP-ribosylation|protein deacetylation	mitochondrial intermembrane space|mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|zinc ion binding			skin(2)|upper_aerodigestive_tract(1)	3	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.176)		Suramin(DB04786)	GCCGGCGAGTCGTGGTCATCA	0.647													12	35	---	---	---	---	PASS	T	13592056	T	T	13592056	2	4	21	1	0	0	0	0	0	0	0	1	14341	871	31	2		2	SIRT5	6	13592056	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08		13592056	157523011	117	10057										
HIST1H3A	8350	broad.mit.edu	37	chr6	26020744	26020744	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cgcactaagcaaactgctcgGaagtctactggtggcaaggc	12	11	1	0	rs140398034	byFrequency	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:26020744G>T	uc003nfp.1	+	1	27	c.27G>T	c.(25-27)CGG>CGT	p.R9R	HIST1H1A_uc003nfo.2_5'Flank|HIST1H4A_uc003nfq.2_5'Flank	NM_003529	NP_003520	P68431	H31_HUMAN	histone cluster 1, H3a	9					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)|pancreas(1)	2						AAACTGCTCGGAAGTCTACTG	0.572													9	46	---	---	---	---	PASS	T	26020744	T	T	26020744	2	4	21	1	0	0	0	0	0	0	0	1	7155	1161	41	2		2	HIST1H3A	6	26020744	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	12428688	26020744	145094323	118	10058										
GABBR1	2550	broad.mit.edu	37	chr6	29574954	29574954	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	atcttggtgaacatggaaccGtagcccagactaaagcccag	10	11	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:29574954G>A	uc003nmt.3	-	17	2370	c.2034C>T	c.(2032-2034)TAC>TAT	p.Y678Y	GABBR1_uc003nmp.3_Silent_p.Y561Y|GABBR1_uc003nms.3_Silent_p.Y561Y|GABBR1_uc003nmu.3_Silent_p.Y616Y|GABBR1_uc011dlr.1_Silent_p.Y501Y	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	678	Helical; Name=3; (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	ACATGGAACCGTAGCCCAGAC	0.562													25	68	---	---	---	---	PASS	A	29574954	A	A	29574954	2	1	21	1	0	0	0	0	0	0	0	1	6155	1140	40	1		1	GABBR1	6	29574954	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	3554210	29574954	141540113	119	10059										
LEMD2	221496	broad.mit.edu	37	chr6	33756175	33756175	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tactgttgtcctccgcctccTgcggcgctgagggcttgccc	12	16	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:33756175T>A	uc011drm.1	-	1	732	c.719A>T	c.(718-720)CAG>CTG	p.Q240L	LEMD2_uc011drl.1_5'Flank|LEMD2_uc003ofe.2_Intron	NM_181336	NP_851853	Q8NC56	LEMD2_HUMAN	LEM domain containing 2 isoform 1	240						integral to nuclear inner membrane				central_nervous_system(1)	1						CTCCGCCTCCTGCGGCGCTGA	0.706													3	9	---	---	---	---	PASS	A	33756175	A	A	33756175	3	1	21	1	0	0	0	0	1	0	0	0	8720	1580	55	5	828	5	LEMD2	6	33756175	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	4181221	33756175	137358892	120	10060										
TREM1	54210	broad.mit.edu	37	chr6	41250247	41250247	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttgaaggttgaccattcggaCgcgcagtaaaccatgatcat	10	9	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:41250247C>A	uc003oqf.1	-	2	356	c.292G>T	c.(292-294)GTC>TTC	p.V98F	TREM1_uc003oqg.1_Missense_Mutation_p.V98F	NM_018643	NP_061113	Q9NP99	TREM1_HUMAN	triggering receptor expressed on myeloid cells 1	98	Extracellular (Potential).|Ig-like V-type.				blood coagulation|humoral immune response|intracellular signal transduction|leukocyte migration	extracellular region|integral to membrane|intracellular|plasma membrane	receptor activity			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)				Glutathione(DB00143)	ACCATTCGGACGCGCAGTAAA	0.507													6	94	---	---	---	---	PASS	A	41250247	A	A	41250247	3	1	21	1	0	0	0	0	1	0	0	0	16467	536	19	1	424	1	TREM1	6	41250247	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	7494072	41250247	129864820	121	10061										
ENPP4	22875	broad.mit.edu	37	chr6	46111159	46111159	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gccacatcctgggattaaaaCcacatcccaataatgggacc	7	13	0	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:46111159C>G	uc003oxy.2	+	4	1403	c.1144C>G	c.(1144-1146)CCA>GCA	p.P382A		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	382	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						GGGATTAAAACCACATCCCAA	0.438													12	196	---	---	---	---	PASS	G	46111159	G	G	46111159	3	3	21	1	0	0	0	0	1	0	0	0	5132	507	18	4	1154	4	ENPP4	6	46111159	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	4860912	46111159	125003908	122	10062										
PKHD1	5314	broad.mit.edu	37	chr6	51948026	51948026	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctgcaaggctaccttcttcaGgttcaatatgtaaactcagg	8	10	4	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:51948026G>T	uc003pah.1	-	3	356	c.80C>A	c.(79-81)CCT>CAT	p.P27H	PKHD1_uc003pai.2_Missense_Mutation_p.P27H	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	27	Extracellular (Potential).|IPT/TIG 1; atypical.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					ACCTTCTTCAGGTTCAATATG	0.393													28	57	---	---	---	---	PASS	T	51948026	T	T	51948026	3	4	21	1	0	0	0	0	1	0	0	0	11971	1000	35	3	12443	3	PKHD1	6	51948026	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	5836867	51948026	119167041	123	10063										
EYS	346007	broad.mit.edu	37	chr6	66063359	66063359	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	taaatttgttacctgcaaatCccaattgccacacatattca	3	11	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:66063359C>A	uc011dxu.1	-	9	1989	c.1451G>T	c.(1450-1452)GGA>GTA	p.G484V	EYS_uc003peq.2_Missense_Mutation_p.G484V|EYS_uc003per.1_Missense_Mutation_p.G484V	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	484					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						ACCTGCAAATCCCAATTGCCA	0.338													9	55	---	---	---	---	PASS	A	66063359	A	A	66063359	3	1	21	1	0	0	0	0	1	0	0	0	5332	855	30	2	8085	2	EYS	6	66063359	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	14115333	66063359	105051708	124	10064										
DPPA5	340168	broad.mit.edu	37	chr6	74063882	74063882	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctggacctggaacacctctgGatctttcaggtcttcgggaa	11	11	4	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:74063882G>C	uc003pgs.1	-	1	72	c.67C>G	c.(67-69)CCA>GCA	p.P23A		NM_001025290	NP_001020461	A6NC42	DPPA5_HUMAN	developmental pluripotency associated 5	23	KH; atypical.				multicellular organismal development	cytoplasm	RNA binding				0						AACACCTCTGGATCTTTCAGG	0.607													10	93	---	---	---	---	PASS	C	74063882	C	C	74063882	3	2	21	1	0	0	0	0	1	0	0	0	4737	1174	41	2	295	2	DPPA5	6	74063882	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	8000523	74063882	97051185	125	10065										
TBX18	9096	broad.mit.edu	37	chr6	85446855	85446855	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggtgctgctgctcacgcccaCataggagggagtcctgggcg	16	12	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:85446855C>A	uc003pkl.1	-	8	1372	c.1372G>T	c.(1372-1374)GTG>TTG	p.V458L	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	458					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		CTCACGCCCACATAGGAGGGA	0.587													22	115	---	---	---	---	PASS	A	85446855	A	A	85446855	3	1	21	1	0	0	0	0	1	0	0	0	15650	478	17	3	455	3	TBX18	6	85446855	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	11382973	85446855	85668212	126	10066										
SYNCRIP	10492	broad.mit.edu	37	chr6	86332363	86332363	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aaaagcctctgttttttttcTtgtcatccggttggtggtat	9	7	3	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:86332363T>G	uc003pla.2	-	8	1386	c.845A>C	c.(844-846)AAG>ACG	p.K282T	SYNCRIP_uc003pku.2_Missense_Mutation_p.K282T|SYNCRIP_uc003pkw.2_Missense_Mutation_p.K282T|SYNCRIP_uc003pky.2_Missense_Mutation_p.K184T|SYNCRIP_uc003pkv.2_Missense_Mutation_p.K282T|SYNCRIP_uc003pkx.2_Missense_Mutation_p.K130T|SYNCRIP_uc003pkz.2_Missense_Mutation_p.K282T	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	282	RRM 2.				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		GTTTTTTTTCTTGTCATCCGG	0.418													23	134	---	---	---	---	PASS	G	86332363	G	G	86332363	3	3	21	1	0	0	0	0	1	0	0	0	15441	1609	56	5	1088	5	SYNCRIP	6	86332363	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	885508	86332363	84782704	127	10067										
ZNF292	23036	broad.mit.edu	37	chr6	87964863	87964863	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtggagttggtgctaattctGgccttcttaaagacattggt	12	6	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:87964863G>T	uc003plm.3	+	8	1557	c.1516G>T	c.(1516-1518)GGC>TGC	p.G506C		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	506					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		TGCTAATTCTGGCCTTCTTAA	0.388													7	45	---	---	---	---	PASS	T	87964863	T	T	87964863	3	4	21	1	0	0	0	0	1	0	0	0	17823	1348	47	3	1546	3	ZNF292	6	87964863	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1632500	87964863	83150204	128	10068										
ORC3L	23595	broad.mit.edu	37	chr6	88311521	88311521	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gaggactattttaacaaaggGaaaaatgagcctgaggacag	12	5	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:88311521G>T	uc003pmh.2	+	3	143	c.99G>T	c.(97-99)GGG>GGT	p.G33G	ORC3L_uc011dzl.1_Silent_p.G33G|ORC3L_uc011dzm.1_Silent_p.G33G|ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Silent_p.G33G|ORC3L_uc003pmi.2_Silent_p.G33G|ORC3L_uc011dzo.1_Intron|ORC3L_uc011dzp.1_Intron	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	33					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)		TTAACAAAGGGAAAAATGAGC	0.303													6	31	---	---	---	---	PASS	T	88311521	T	T	88311521	2	4	21	1	0	0	0	0	0	0	0	1	11263	1161	41	2		2	ORC3L	6	88311521	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	346658	88311521	82803546	129	10069										
GABRR2	2570	broad.mit.edu	37	chr6	89974189	89974189	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tggtcaggtagttgacagccGcatactccagcaccgagagg	13	11	1	2	rs149245573	by1000genomes	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:89974189G>A	uc003pnb.2	-	8	1111	c.1103C>T	c.(1102-1104)GCG>GTG	p.A368V	GABRR2_uc011dzx.1_Missense_Mutation_p.A244V	NM_002043	NP_002034	P28476	GBRR2_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 2	368	Helical; (Potential).				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				0		all_cancers(76;1.67e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.77e-07)|all_epithelial(107;2.51e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0158)		GTTGACAGCCGCATACTCCAG	0.597													3	55	---	---	---	---	PASS	A	89974189	A	A	89974189	3	1	21	1	0	0	0	0	1	0	0	0	6177	1087	38	1	377	1	GABRR2	6	89974189	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1662668	89974189	81140878	130	10070										
GABRR2	2570	broad.mit.edu	37	chr6	89974291	89974291	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gcatggaggcattcacgcccGtgatgatggtggtcatggtc	15	9	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:89974291G>T	uc003pnb.2	-	8	1009	c.1001C>A	c.(1000-1002)ACG>AAG	p.T334K	GABRR2_uc011dzx.1_Missense_Mutation_p.T210K	NM_002043	NP_002034	P28476	GBRR2_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 2	334	Helical; (Potential).				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				0		all_cancers(76;1.67e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.77e-07)|all_epithelial(107;2.51e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0158)		ATTCACGCCCGTGATGATGGT	0.567													12	107	---	---	---	---	PASS	T	89974291	T	T	89974291	3	4	21	1	0	0	0	0	1	0	0	0	6177	1145	40	1	479	1	GABRR2	6	89974291	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	102	89974291	81140776	131	10071										
HACE1	57531	broad.mit.edu	37	chr6	105219949	105219949	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tattaggctgaaaagttgttCctattgaaataaatacaaaa	6	4	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:105219949C>A	uc003pqu.1	-	18	2142	c.1865G>T	c.(1864-1866)GGA>GTA	p.G622V	HACE1_uc010kcy.1_Missense_Mutation_p.G104V|HACE1_uc010kcz.1_Intron|HACE1_uc010kcx.1_Missense_Mutation_p.G31V|HACE1_uc003pqt.1_Missense_Mutation_p.G275V	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	622	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		AAAAGTTGTTCCTATTGaaat	0.323													5	25	---	---	---	---	PASS	A	105219949	A	A	105219949	3	1	21	1	0	0	0	0	1	0	0	0	6940	869	30	2	892	2	HACE1	6	105219949	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	15245658	105219949	65895118	132	10072										
PRDM1	639	broad.mit.edu	37	chr6	106555118	106555118	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gctgaccggctcgaggacgtGgaggatgacatcagtgtgat	16	8	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:106555118G>T	uc003prd.2	+	7	2469	c.2235G>T	c.(2233-2235)GTG>GTT	p.V745V	PRDM1_uc003pre.2_Silent_p.V611V	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	745					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)		TCGAGGACGTGGAGGATGACA	0.507			D|N|Mis|F|S		DLBCL								31	196	---	---	---	---	PASS	T	106555118	T	T	106555118	2	4	21	1	0	0	0	0	0	0	0	1	12450	1335	47	3		3	PRDM1	6	106555118	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	1335169	106555118	64559949	133	10073										
LACE1	246269	broad.mit.edu	37	chr6	108840991	108840991	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggagcaaagcagaatactgaTggatgatttggggctgagcc	15	6	0	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:108840991T>C	uc003psj.2	+	12	1481	c.1295T>C	c.(1294-1296)ATG>ACG	p.M432T		NM_145315	NP_660358	Q8WV93	LACE1_HUMAN	lactation elevated 1	432							ATP binding			central_nervous_system(1)	1		all_cancers(87;1.5e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;6.79e-05)|Colorectal(196;0.0294)|all_lung(197;0.0486)|Lung SC(18;0.152)		BRCA - Breast invasive adenocarcinoma(108;0.00179)|Epithelial(106;0.0024)|all cancers(137;0.00379)|OV - Ovarian serous cystadenocarcinoma(136;0.0118)		AGAATACTGATGGATGATTTG	0.373													12	62	---	---	---	---	PASS	C	108840991	C	C	108840991	3	2	21	1	0	0	0	0	1	0	0	0	8595	1464	51	5	1341	5	LACE1	6	108840991	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	2285873	108840991	62274076	134	10074										
EYA4	2070	broad.mit.edu	37	chr6	133802602	133802602	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	taagtcatgttatctataggAgagttcgataccatgcagag	10	6	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:133802602A>T	uc003qec.3	+	12	1430	c.972A>T	c.(970-972)GGA>GGT	p.G324G	EYA4_uc011ecq.1_Silent_p.G270G|EYA4_uc011ecr.1_Silent_p.G276G|EYA4_uc003qed.3_Silent_p.G324G|EYA4_uc003qee.3_Silent_p.G301G|EYA4_uc011ecs.1_Silent_p.G330G|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	324					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		TATCTATAGGAGAGTTCGATA	0.383													19	125	---	---	---	---	PASS	T	133802602	T	T	133802602	2	4	21	1	0	0	0	0	0	0	0	1	5331	318	11	5		5	EYA4	6	133802602	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08	24961611	133802602	37312465	135	10075										
ALDH8A1	64577	broad.mit.edu	37	chr6	135271188	135271188	+	Missense_Mutation	SNP	C	A	A													0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	caaaagtgcgtttgttccagCcatagcaaggaaaaattctg					rs141981819	by1000genomes	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:135271188C>A	uc003qew.2	-	1	57	c.4G>T	c.(4-6)GCT>TCT	p.A2S	ALDH8A1_uc003qex.2_Missense_Mutation_p.A2S|ALDH8A1_uc010kgh.2_5'UTR|ALDH8A1_uc011ecx.1_Missense_Mutation_p.A2S	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	2					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		TTTGTTCCAGCCATAGCAAGG	0.468													10	93	---	---	---	---	PASS	A	135271188	A	A	135271188	3	1	21	1	0	0	0	0	1	0	0	0	505	739	26	3	1487	3	ALDH8A1	6	135271188	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	1468586	135271188	35843879	136	10076	290	2								
ALDH8A1	64577	broad.mit.edu	37	chr6	135271189	135271189	+	Missense_Mutation	SNP	C	A	A													0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aaaagtgcgtttgttccagcCatagcaaggaaaaattctgc							TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:135271189C>A	uc003qew.2	-	1	56	c.3G>T	c.(1-3)ATG>ATT	p.M1I	ALDH8A1_uc003qex.2_Missense_Mutation_p.M1I|ALDH8A1_uc010kgh.2_5'UTR|ALDH8A1_uc011ecx.1_Missense_Mutation_p.M1I	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	1					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		TTGTTCCAGCCATAGCAAGGA	0.473													10	94	---	---	---	---	PASS	A	135271189	A	A	135271189	3	1	21	1	0	0	0	0	1	0	0	0	505	594	21	3	1488	3	ALDH8A1	6	135271189	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	1	135271189	35843878	137	10077	290	2								
IL22RA2	116379	broad.mit.edu	37	chr6	137466874	137466874	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tggtgttagagcttcaatttCaaccgctctgtgagcccctt	9	11	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:137466874C>A	uc003qhl.2	-	7	980	c.679G>T	c.(679-681)GAA>TAA	p.E227*	IL22RA2_uc003qhm.2_Nonsense_Mutation_p.E195*|IL22RA2_uc003qhn.2_3'UTR	NM_052962	NP_443194	Q969J5	I22R2_HUMAN	interleukin 22-binding protein isoform 1	227	Fibronectin type-III 3.				regulation of tyrosine phosphorylation of Stat3 protein	extracellular space	interleukin-22 receptor activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000313)|OV - Ovarian serous cystadenocarcinoma(155;0.00407)		GCTTCAATTTCAACCGCTCTG	0.428													17	66	---	---	---	---	PASS	A	137466874	A	A	137466874	4	1	21	1	0	0	0	0	0	1	0	0	7674	835	29	2	116	2	IL22RA2	6	137466874	Nonsense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	2195685	137466874	33648193	138	10078										
UTRN	7402	broad.mit.edu	37	chr6	144794931	144794931	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aacagcaggctgcccaaggaGacgacgcaggtctacagagg	14	11	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:144794931G>A	uc003qkt.2	+	23	3234	c.3142G>A	c.(3142-3144)GAC>AAC	p.D1048N	UTRN_uc010khq.1_Missense_Mutation_p.D1048N	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1048	Spectrin 7.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TGCCCAAGGAGACGACGCAGG	0.443													3	46	---	---	---	---	PASS	A	144794931	A	A	144794931	3	1	21	1	0	0	0	0	1	0	0	0	17100	942	33	2	3232	2	UTRN	6	144794931	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	7328057	144794931	26320136	139	10079										
UTRN	7402	broad.mit.edu	37	chr6	145161969	145161969	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cacgtttccatcttgctgccGtgagtatgaaagattgcagc	10	10	1	3	rs141700678		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:145161969G>T	uc003qkt.2	+	72	10362	c.10270_splice	c.e72+1	p.P3424_splice		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin						muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TCTTGCTGCCGTGAGTATGAA	0.542													10	80	---	---	---	---	PASS	T	145161969	T	T	145161969	5	4	21	1	0	0	0	0	0	0	1	0	17100	1159	40	1	10557	1	UTRN	6	145161969	Splice_Site	SNP	G	TCGA-21-1076-01A-02D-1521-08	367038	145161969	25953098	140	10080										
ESR1	2099	broad.mit.edu	37	chr6	152415692	152415692	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctcctcatcctctcccacatCaggcacatgaggtgaggcat	8	15	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:152415692C>A	uc003qom.3	+	9	1912	c.1542C>A	c.(1540-1542)ATC>ATA	p.I514I	ESR1_uc010kin.2_Silent_p.I514I|ESR1_uc010kio.2_Silent_p.I516I|ESR1_uc010kip.2_Silent_p.I513I|ESR1_uc003qon.3_Silent_p.I514I|ESR1_uc003qoo.3_Silent_p.I514I|ESR1_uc010kiq.2_Silent_p.I112I|ESR1_uc010kir.2_Silent_p.I253I|ESR1_uc011eet.1_RNA|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Silent_p.I99I|ESR1_uc011eew.1_Missense_Mutation_p.Q91K|ESR1_uc010kis.2_Silent_p.I183I|ESR1_uc011eex.1_Intron|ESR1_uc011eey.1_Intron	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	514	Steroid-binding.|Interaction with AKAP13.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	TCTCCCACATCAGGCACATGA	0.582													6	71	---	---	---	---	PASS	A	152415692	A	A	152415692	2	1	21	1	0	0	0	0	0	0	0	1	5256	816	29	2		2	ESR1	6	152415692	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	7253723	152415692	18699375	141	10081										
UNC93A	54346	broad.mit.edu	37	chr6	167728874	167728874	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgcgtggagtccaagaacccGatcagaccccacgctccagg	11	15	1	2	rs147514798		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr6:167728874G>A	uc003qvq.2	+	8	1483	c.1308G>A	c.(1306-1308)CCG>CCA	p.P436P	UNC93A_uc003qvr.2_Silent_p.P394P	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	436						integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CCAAGAACCCGATCAGACCCC	0.532													47	371	---	---	---	---	PASS	A	167728874	A	A	167728874	2	1	21	1	0	0	0	0	0	0	0	1	16993	1045	37	2		2	UNC93A	6	167728874	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	15313182	167728874	3386193	142	10082										
FERD3L	222894	broad.mit.edu	37	chr7	19184779	19184779	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcttctccgtccccctggtcCacttcgcactcctcttcttc	4	20	4	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:19184779C>A	uc003suo.1	-	1	266	c.207G>T	c.(205-207)GTG>GTT	p.V69V	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	69					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						ccccctggtccacttcgcact	0.373													5	38	---	---	---	---	PASS	A	19184779	A	A	19184779	2	1	21	1	0	0	0	0	0	0	0	1	5816	581	21	3		3	FERD3L	7	19184779	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08		19184779	139953884	143	10083										
GRB10	2887	broad.mit.edu	37	chr7	50671727	50671727	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ccttgctgtttaatgatcctGtgggattcctccctggagat	10	10	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:50671727G>T	uc003tpi.2	-	14	1543	c.1512C>A	c.(1510-1512)CAC>CAA	p.H504Q	GRB10_uc003tph.3_Missense_Mutation_p.H446Q|GRB10_uc003tpj.2_Missense_Mutation_p.H458Q|GRB10_uc003tpk.2_Missense_Mutation_p.H504Q|GRB10_uc010kzb.2_Missense_Mutation_p.H446Q|GRB10_uc003tpl.2_Missense_Mutation_p.H498Q|GRB10_uc003tpm.2_Missense_Mutation_p.H446Q|GRB10_uc003tpn.2_Missense_Mutation_p.H446Q	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	504	SH2.				insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					TAATGATCCTGTGGGATTCCT	0.453									Russell-Silver_syndrome				19	257	---	---	---	---	PASS	T	50671727	T	T	50671727	3	4	21	1	0	0	0	0	1	0	0	0	6756	1368	48	3	284	3	GRB10	7	50671727	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	31486948	50671727	108466936	144	10084										
POM121	9883	broad.mit.edu	37	chr7	72413633	72413633	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcctatctttggcggtgccaCgcactcggcgtttgggttga	13	11	1	1	rs150818636	byFrequency	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:72413633C>T	uc003twk.2	+	11	3101	c.3101C>T	c.(3100-3102)ACG>ATG	p.T1034M	POM121_uc003twj.2_Missense_Mutation_p.T769M|POM121_uc010lam.1_Missense_Mutation_p.T769M	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	1034	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				GGCGGTGCCACGCACTCGGCG	0.652													13	182	---	---	---	---	PASS	T	72413633	T	T	72413633	3	4	21	1	0	0	0	0	1	0	0	0	12239	536	19	1	2344	1	POM121	7	72413633	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	21741906	72413633	86725030	145	10085										
TRIM50	135892	broad.mit.edu	37	chr7	72734219	72734219	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tctgctcctgcttcagctcaGagatgagggctgcgagctcc	12	13	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:72734219G>T	uc010lbd.1	-	3	547	c.422C>A	c.(421-423)TCT>TAT	p.S141Y	FKBP6_uc003twz.2_Intron|TRIM50_uc003txy.1_Missense_Mutation_p.S141Y|TRIM50_uc003txz.1_Missense_Mutation_p.S141Y	NM_178125	NP_835226	Q86XT4	TRI50_HUMAN	tripartite motif protein 50A	141	Potential.					cytoplasm|intracellular membrane-bounded organelle	ligase activity|zinc ion binding			skin(1)	1						CTTCAGCTCAGAGATGAGGGC	0.592													36	179	---	---	---	---	PASS	T	72734219	T	T	72734219	3	4	21	1	0	0	0	0	1	0	0	0	16523	942	33	2	1061	2	TRIM50	7	72734219	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	320586	72734219	86404444	146	10086										
GRM3	2913	broad.mit.edu	37	chr7	86416062	86416062	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggcagcgagcatgtggcctaCggcgccatcaccctggagct	14	14	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:86416062C>A	uc003uid.2	+	3	2053	c.954C>A	c.(952-954)TAC>TAA	p.Y318*	GRM3_uc010lef.2_Nonsense_Mutation_p.Y316*|GRM3_uc010leg.2_Nonsense_Mutation_p.Y190*|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	318	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	ATGTGGCCTACGGCGCCATCA	0.667													9	44	---	---	---	---	PASS	A	86416062	A	A	86416062	4	1	21	1	0	0	0	0	0	1	0	0	6798	547	19	1	960	1	GRM3	7	86416062	Nonsense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	13681843	86416062	72722601	147	10087										
DBF4	10926	broad.mit.edu	37	chr7	87536933	87536933	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aggcatctgtacatgtttctGatttcagtacagataatagt	8	6	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:87536933G>T	uc003ujf.1	+	12	1984	c.1480G>T	c.(1480-1482)GAT>TAT	p.D494Y	DBF4_uc003ujh.1_Missense_Mutation_p.D234Y|DBF4_uc003ujg.1_Missense_Mutation_p.D270Y|DBF4_uc011khf.1_Missense_Mutation_p.D261Y	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	494					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				ACATGTTTCTGATTTCAGTAC	0.353													22	55	---	---	---	---	PASS	T	87536933	T	T	87536933	3	4	21	1	0	0	0	0	1	0	0	0	4248	1290	45	2	1526	2	DBF4	7	87536933	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1120871	87536933	71601730	148	10088										
ZNF804B	219578	broad.mit.edu	37	chr7	88964364	88964364	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gcatgaccagcaaggtttccGgatgtggaaaccaaagatac	11	9	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:88964364G>C	uc011khi.1	+	4	2606	c.2068G>C	c.(2068-2070)GGA>CGA	p.G690R		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	690						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CAAGGTTTCCGGATGTGGAAA	0.453										HNSCC(36;0.09)			4	66	---	---	---	---	PASS	C	88964364	C	C	88964364	3	2	21	1	0	0	0	0	1	0	0	0	18168	1117	39	4	2082	4	ZNF804B	7	88964364	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1427431	88964364	70174299	149	10089										
SAMD9	54809	broad.mit.edu	37	chr7	92733667	92733667	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	atctttccatccctgaaataTgtgtgggtgcacacaaatac	7	10	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:92733667T>C	uc003umf.2	-	3	2000	c.1744A>G	c.(1744-1746)ATA>GTA	p.I582V	SAMD9_uc003umg.2_Missense_Mutation_p.I582V	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	582						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			CCCTGAAATATGTGTGGGTGC	0.383													12	122	---	---	---	---	PASS	C	92733667	C	C	92733667	3	2	21	1	0	0	0	0	1	0	0	0	13826	1464	51	5	3029	5	SAMD9	7	92733667	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	3769303	92733667	66404996	150	10090										
MUC17	140453	broad.mit.edu	37	chr7	100679806	100679806	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtcagaacaacaccggtggcCagctctgcaatcagcaccct	9	15	3	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:100679806C>A	uc003uxp.1	+	3	5162	c.5109C>A	c.(5107-5109)GCC>GCA	p.A1703A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1703	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|26.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CACCGGTGGCCAGCTCTGCAA	0.478													104	279	---	---	---	---	PASS	A	100679806	A	A	100679806	2	1	21	1	0	0	0	0	0	0	0	1	9974	581	21	3		3	MUC17	7	100679806	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	7946139	100679806	58458857	151	10091										
RELN	5649	broad.mit.edu	37	chr7	103202279	103202279	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cacacagcgtccagcatcacAaatccctcgtcctgagcaca	6	17	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:103202279A>G	uc003vca.2	-	35	5492	c.5332T>C	c.(5332-5334)TGT>CGT	p.C1778R	RELN_uc010liz.2_Missense_Mutation_p.C1778R	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1778	EGF-like 4.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCAGCATCACAAATCCCTCGT	0.443													8	77	---	---	---	---	PASS	G	103202279	G	G	103202279	3	3	21	1	0	0	0	0	1	0	0	0	13220	130	5	5	5174	5	RELN	7	103202279	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	2522473	103202279	55936384	152	10092										
RINT1	60561	broad.mit.edu	37	chr7	105192040	105192040	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctcttcaaaaaatggactcaAtgctttcctcagaagctgcc	6	12	4	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:105192040A>G	uc003vda.1	+	10	1588	c.1357A>G	c.(1357-1359)ATG>GTG	p.M453V	RINT1_uc010ljj.1_Missense_Mutation_p.M28V	NM_021930	NP_068749	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1	453	RINT1/TIP20.				cell cycle|G2/M transition DNA damage checkpoint|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane	protein binding			ovary(3)|central_nervous_system(1)	4						AATGGACTCAATGCTTTCCTC	0.353													22	63	---	---	---	---	PASS	G	105192040	G	G	105192040	3	3	21	1	0	0	0	0	1	0	0	0	13376	101	4	5	1395	5	RINT1	7	105192040	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	1989761	105192040	53946623	153	10093										
LAMB1	3912	broad.mit.edu	37	chr7	107600135	107600135	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	caatgcttttgaggaacctaCgtttgcatccactggggcca	10	11	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:107600135C>T	uc003vew.2	-	19	2793	c.2458_splice	c.e19+1	p.P820_splice	LAMB1_uc003vev.2_Splice_Site_p.P844_splice|LAMB1_uc003vex.2_Missense_Mutation_p.R820H	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor						axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GAGGAACCTACGTTTGCATCC	0.527													10	95	---	---	---	---	PASS	T	107600135	T	T	107600135	5	4	21	1	0	0	0	0	0	0	1	0	8610	550	19	1	2965	1	LAMB1	7	107600135	Splice_Site	SNP	C	TCGA-21-1076-01A-02D-1521-08	2408095	107600135	51538528	154	10094										
PPP1R3A	5506	broad.mit.edu	37	chr7	113519426	113519426	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	catctgctgtgattgcccggGtggggattgcggtatgttcg	16	8	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:113519426G>T	uc010ljy.1	-	4	1752	c.1721C>A	c.(1720-1722)ACC>AAC	p.T574N		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	574					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						GATTGCCCGGGTGGGGATTGC	0.478													45	137	---	---	---	---	PASS	T	113519426	T	T	113519426	3	4	21	1	0	0	0	0	1	0	0	0	12371	1261	44	3	1651	3	PPP1R3A	7	113519426	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	5919291	113519426	45619237	155	10095										
TFEC	22797	broad.mit.edu	37	chr7	115596774	115596774	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtagactacttggacaagaaGcacttgtaagccccatgtta	9	9	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:115596774G>A	uc003vhj.1	-	4	525	c.341C>T	c.(340-342)GCT>GTT	p.A114V	TFEC_uc003vhk.1_Missense_Mutation_p.A85V|TFEC_uc003vhl.3_Missense_Mutation_p.A85V|TFEC_uc011kmw.1_Missense_Mutation_p.A204V|TFEC_uc003vhm.1_RNA	NM_012252	NP_036384	O14948	TFEC_HUMAN	transcription factor EC isoform a	114	Necessary for transcriptional transactivation.					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)			TGGACAAGAAGCACTTGTAAG	0.323													6	71	---	---	---	---	PASS	A	115596774	A	A	115596774	3	1	21	1	0	0	0	0	1	0	0	0	15799	971	34	3	722	3	TFEC	7	115596774	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	2077348	115596774	43541889	156	10096										
KCND2	3751	broad.mit.edu	37	chr7	119915193	119915193	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cccaccatgactgcaaggcaGagggtctggagggccttcga	14	12	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:119915193G>C	uc003vjj.1	+	1	1472	c.507G>C	c.(505-507)CAG>CAC	p.Q169H		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	169	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					CTGCAAGGCAGAGGGTCTGGA	0.612													26	98	---	---	---	---	PASS	C	119915193	C	C	119915193	3	2	21	1	0	0	0	0	1	0	0	0	8019	933	33	2	509	2	KCND2	7	119915193	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	4318419	119915193	39223470	157	10097										
SPAM1	6677	broad.mit.edu	37	chr7	123594517	123594517	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	acctgatgcaaaaagtccacTtccggtttttgcatataccc	6	12	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:123594517T>A	uc003vld.2	+	4	1295	c.893T>A	c.(892-894)CTT>CAT	p.L298H	SPAM1_uc003vle.2_Missense_Mutation_p.L298H|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.L298H|SPAM1_uc010lku.2_Missense_Mutation_p.L298H	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	298					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	AAAAGTCCACTTCCGGTTTTT	0.413													14	72	---	---	---	---	PASS	A	123594517	A	A	123594517	3	1	21	1	0	0	0	0	1	0	0	0	14986	1609	56	5	895	5	SPAM1	7	123594517	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	3679324	123594517	35544146	158	10098										
PAX4	5078	broad.mit.edu	37	chr7	127251692	127251692	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gagggacccagtggttccagGgcaggcagggctgctgtggg	20	9	0	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:127251692G>A	uc010lld.1	-	8	992	c.786C>T	c.(784-786)GCC>GCT	p.A262A	PAX4_uc003vmf.2_Silent_p.A260A|PAX4_uc003vmg.1_Silent_p.A262A	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	270					cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GTGGTTCCAGGGCAGGCAGGG	0.562													59	145	---	---	---	---	PASS	A	127251692	A	A	127251692	2	1	21	1	0	0	0	0	0	0	0	1	11481	1219	43	3		3	PAX4	7	127251692	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	3657175	127251692	31886971	159	10099										
FLNC	2318	broad.mit.edu	37	chr7	128484996	128484996	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tttgacccgagcaaggtgcgGgccagtggaccgggcctgga	17	11	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:128484996G>T	uc003vnz.3	+	21	3686	c.3477G>T	c.(3475-3477)CGG>CGT	p.R1159R	FLNC_uc003voa.3_Silent_p.R1159R	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1159	Filamin 10.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GCAAGGTGCGGGCCAGTGGAC	0.632													12	95	---	---	---	---	PASS	T	128484996	T	T	128484996	2	4	21	1	0	0	0	0	0	0	0	1	5935	1219	43	3		3	FLNC	7	128484996	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	1233304	128484996	30653667	160	10100										
FAM40B	57464	broad.mit.edu	37	chr7	129095154	129095154	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggttaccaagttctgcagtgGcctggctcctcacttcccca	9	15	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:129095154G>T	uc011koy.1	+	8	816	c.776G>T	c.(775-777)GGC>GTC	p.G259V	FAM40B_uc003vow.2_Missense_Mutation_p.G259V|FAM40B_uc011koz.1_5'Flank	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	259											0						TTCTGCAGTGGCCTGGCTCCT	0.512													36	187	---	---	---	---	PASS	T	129095154	T	T	129095154	3	4	21	1	0	0	0	0	1	0	0	0	5561	1203	42	3	806	3	FAM40B	7	129095154	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	610158	129095154	30043509	161	10101										
CNOT4	4850	broad.mit.edu	37	chr7	135047693	135047693	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgtgggggttttgctgggggGtctgaaggctgtctgaaagc	19	5	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:135047693G>A	uc011kpy.1	-	11	2178	c.2086C>T	c.(2086-2088)CCC>TCC	p.P696S	CNOT4_uc003vss.2_Missense_Mutation_p.P622S|CNOT4_uc011kpz.1_Missense_Mutation_p.P693S|CNOT4_uc003vst.2_Missense_Mutation_p.P625S	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	365					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						TTGCTGGGGGGTCTGAAGGCT	0.537													9	381	---	---	---	---	PASS	A	135047693	A	A	135047693	3	1	21	1	0	0	0	0	1	0	0	0	3621	1261	44	3	59	3	CNOT4	7	135047693	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	5952539	135047693	24090970	162	10102										
EZH2	2146	broad.mit.edu	37	chr7	148515074	148515074	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	actgtctgtatcctttgattCcagcacattaatggtggggg	11	8	1	1	rs144316514		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:148515074C>G	uc003wfd.1	-	10	1286	c.1120G>C	c.(1120-1122)GAA>CAA	p.E374Q	EZH2_uc011kug.1_Missense_Mutation_p.E365Q|EZH2_uc003wfb.1_Missense_Mutation_p.E379Q|EZH2_uc003wfc.1_Missense_Mutation_p.E335Q|EZH2_uc011kuh.1_Missense_Mutation_p.E365Q|EZH2_uc011kui.1_Missense_Mutation_p.E374Q|EZH2_uc011kuj.1_RNA	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	374					negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding	p.T374fs*3(1)		haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			TCCTTTGATTCCAGCACATTA	0.502			Mis		DLBCL								12	160	---	---	---	---	PASS	G	148515074	G	G	148515074	3	3	21	1	0	0	0	0	1	0	0	0	5334	864	30	2	1164	2	EZH2	7	148515074	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	13467381	148515074	10623589	163	10103										
GIMAP8	155038	broad.mit.edu	37	chr7	150174540	150174540	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	catctttggagcagactttaCgaaatacgcgattatgctgt	9	8	1	1	rs148200096	byFrequency	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:150174540C>G	uc003whj.2	+	5	2000	c.1670C>G	c.(1669-1671)ACG>AGG	p.T557R		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	557						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		GCAGACTTTACGAAATACGCG	0.498													33	116	---	---	---	---	PASS	G	150174540	G	G	150174540	3	3	21	1	0	0	0	0	1	0	0	0	6385	536	19	4	1684	4	GIMAP8	7	150174540	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	1659466	150174540	8964123	164	10104										
NOS3	4846	broad.mit.edu	37	chr7	150696174	150696174	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtgcccctggagcaccccacGtgagcaccaaagggattgac	12	14	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:150696174G>T	uc003wif.2	+	8	1252	c.956_splice	c.e8+1	p.T319_splice	NOS3_uc011kuy.1_Splice_Site_p.T113_splice|NOS3_uc011kuz.1_Splice_Site_p.T319_splice|NOS3_uc011kva.1_Splice_Site_p.T319_splice|NOS3_uc011kvb.1_Splice_Site_p.T319_splice	NM_000603	NP_000594	P29474	NOS3_HUMAN	nitric oxide synthase 3 isoform 1						anti-apoptosis|arginine catabolic process|blood vessel remodeling|endothelial cell migration|mitochondrion organization|negative regulation of muscle hyperplasia|negative regulation of platelet activation|nitric oxide biosynthetic process|platelet activation|positive regulation of angiogenesis|positive regulation of guanylate cyclase activity|positive regulation of vasodilation|regulation of blood vessel size|regulation of nitric-oxide synthase activity|regulation of systemic arterial blood pressure by endothelin|response to fluid shear stress|response to heat|smooth muscle hyperplasia	caveola|cytoskeleton|cytosol|Golgi membrane	actin monomer binding|arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			central_nervous_system(5)|large_intestine(2)|skin(1)	8	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	L-Arginine(DB00125)|L-Citrulline(DB00155)|Rosuvastatin(DB01098)|Tetrahydrobiopterin(DB00360)	AGCACCCCACGTGAGCACCAA	0.652													81	252	---	---	---	---	PASS	T	150696174	T	T	150696174	5	4	21	1	0	0	0	0	0	0	1	0	10544	1159	40	1	983	1	NOS3	7	150696174	Splice_Site	SNP	G	TCGA-21-1076-01A-02D-1521-08	521634	150696174	8442489	165	10105										
GBX1	2636	broad.mit.edu	37	chr7	150864214	150864214	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gcccaccctctgggcgtcggCcgcctggctcggggttgttt	15	15	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:150864214C>A	uc011kvg.1	-	1	654	c.422G>T	c.(421-423)GGC>GTC	p.G141V		NM_001098834	NP_001092304	Q14549	GBX1_HUMAN	gastrulation brain homeo box 1	141	Pro-rich.					nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGGGCGTCGGCCGCCTGGCTC	0.562													8	38	---	---	---	---	PASS	A	150864214	A	A	150864214	3	1	21	1	0	0	0	0	1	0	0	0	6280	739	26	3	676	3	GBX1	7	150864214	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	168040	150864214	8274449	166	10106										
WDR60	55112	broad.mit.edu	37	chr7	158738313	158738313	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gggtgagcctgagaaggctgGtggcagcttcctggccctgg	18	10	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr7:158738313G>C	uc003woe.3	+	25	3202	c.3044G>C	c.(3043-3045)GGT>GCT	p.G1015A	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Missense_Mutation_p.G647A	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	1015										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		GAGAAGGCTGGTGGCAGCTTC	0.657													5	11	---	---	---	---	PASS	C	158738313	C	C	158738313	3	2	21	1	0	0	0	0	1	0	0	0	17308	1261	44	4	3142	4	WDR60	7	158738313	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	7874099	158738313	400350	167	10107										
MYOM2	9172	broad.mit.edu	37	chr8	2041864	2041864	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcaaggcggtcaatgctgtgGggatgagtgaaaattcccag	14	7	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:2041864G>C	uc003wpx.3	+	17	2209	c.2071G>C	c.(2071-2073)GGG>CGG	p.G691R	MYOM2_uc011kwi.1_Missense_Mutation_p.G116R	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	691	Fibronectin type-III 3.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CAATGCTGTGGGGATGAGTGA	0.532													15	87	---	---	---	---	PASS	C	2041864	C	C	2041864	3	2	21	1	0	0	0	0	1	0	0	0	10092	1232	43	4	2133	4	MYOM2	8	2041864	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08		2041864	144322158	168	10108										
ADAM18	8749	broad.mit.edu	37	chr8	39442156	39442156	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgagccatgttccttctcctCgccctcctcactgagcttgg	8	16	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:39442156C>A	uc003xni.2	+	1	15	c.15C>A	c.(13-15)CTC>CTA	p.L5L	ADAM18_uc003xnh.2_Silent_p.L5L|ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Silent_p.L5L	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	5					cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TCCTTCTCCTCGCCCTCCTCA	0.607													14	135	---	---	---	---	PASS	A	39442156	A	A	39442156	2	1	21	1	0	0	0	0	0	0	0	1	239	871	31	2		2	ADAM18	8	39442156	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	37400292	39442156	106921866	169	10109										
ADAM2	2515	broad.mit.edu	37	chr8	39645623	39645623	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cacaagtaaaaatgccacatCatgaggacgtaaaacaagat	7	8	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:39645623C>T	uc003xnj.2	-	9	865	c.790G>A	c.(790-792)GAT>AAT	p.D264N	ADAM2_uc003xnk.2_Missense_Mutation_p.D245N|ADAM2_uc011lck.1_Missense_Mutation_p.D264N|ADAM2_uc003xnl.2_Intron	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	264	Extracellular (Potential).|Peptidase M12B.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		AATGCCACATCATGAGGACGT	0.294													9	85	---	---	---	---	PASS	T	39645623	T	T	39645623	3	4	21	1	0	0	0	0	1	0	0	0	241	826	29	2	1465	2	ADAM2	8	39645623	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	203467	39645623	106718399	170	10110										
SNAI2	6591	broad.mit.edu	37	chr8	49832952	49832952	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agctgaggatctctggttgtGgtatgacaggcatggagtaa	15	5	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:49832952G>T	uc003xqp.2	-	2	292	c.128C>A	c.(127-129)CCA>CAA	p.P43Q		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	43					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				CTCTGGTTGTGGTATGACAGG	0.473													37	200	---	---	---	---	PASS	T	49832952	T	T	49832952	3	4	21	1	0	0	0	0	1	0	0	0	14827	1348	47	3	686	3	SNAI2	8	49832952	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	10187329	49832952	96531070	171	10111										
TOX	9760	broad.mit.edu	37	chr8	59750744	59750744	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cttgatggcggcctgagtatCacgaaagaataacgcatagg	12	8	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:59750744C>T	uc003xtw.1	-	5	1041	c.820G>A	c.(820-822)GAT>AAT	p.D274N		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	274	HMG box.					nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				GCCTGAGTATCACGAAAGAAT	0.458													20	73	---	---	---	---	PASS	T	59750744	T	T	59750744	3	4	21	1	0	0	0	0	1	0	0	0	16374	826	29	2	780	2	TOX	8	59750744	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	9917792	59750744	86613278	172	10112										
CHD7	55636	broad.mit.edu	37	chr8	61707581	61707581	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcagaagcaagtgctttgaaGaaaaaggtcaacaagggaaa	11	5	2	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:61707581G>A	uc003xue.2	+	4	2610	c.2133G>A	c.(2131-2133)AAG>AAA	p.K711K		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	711	Lys-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	p.556_871dup(1)		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)			GTGCTTTGAAGAAAAAGGTCA	0.398													8	76	---	---	---	---	PASS	A	61707581	A	A	61707581	2	1	21	1	0	0	0	0	0	0	0	1	3330	933	33	2		2	CHD7	8	61707581	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	1956837	61707581	84656441	173	10113										
MYBL1	4603	broad.mit.edu	37	chr8	67479191	67479191	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agtttcttcttttaaaacttCccgaatatcttcttccaaga	3	10	4	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:67479191C>G	uc003xwj.2	-	13	2172	c.1765G>C	c.(1765-1767)GAA>CAA	p.E589Q	MYBL1_uc003xwl.2_Missense_Mutation_p.E589Q|MYBL1_uc003xwk.2_Missense_Mutation_p.E588Q	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog	589					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			TTTAAAACTTCCCGAATATCT	0.333													8	67	---	---	---	---	PASS	G	67479191	G	G	67479191	3	3	21	1	0	0	0	0	1	0	0	0	10009	864	30	2	509	2	MYBL1	8	67479191	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	5771610	67479191	78884831	174	10114										
ZNF704	619279	broad.mit.edu	37	chr8	81555279	81555279	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agctgtcgtaccttaagctgActgtgcctctgggtggggag	15	9	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:81555279A>C	uc003yby.1	-	8	1350	c.1118T>G	c.(1117-1119)GTC>GGC	p.V373G		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	373						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			CCTTAAGCTGACTGTGCCTCT	0.512													9	71	---	---	---	---	PASS	C	81555279	C	C	81555279	3	2	21	1	0	0	0	0	1	0	0	0	18104	275	10	5	128	5	ZNF704	8	81555279	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	14076088	81555279	64808743	175	10115										
LRP12	29967	broad.mit.edu	37	chr8	105507409	105507409	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcttcttaacaattctgcttCcactcttgacaactgtgttt	4	11	4	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:105507409C>T	uc003yma.2	-	6	1704	c.1609G>A	c.(1609-1611)GAA>AAA	p.E537K	LRP12_uc003ymb.2_Missense_Mutation_p.E518K|LRP12_uc003ylz.2_5'UTR	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	537	Cytoplasmic (Potential).				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)			AATTCTGCTTCCACTCTTGAC	0.368													8	84	---	---	---	---	PASS	T	105507409	T	T	105507409	3	4	21	1	0	0	0	0	1	0	0	0	8954	864	30	2	978	2	LRP12	8	105507409	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	23952130	105507409	40856613	176	10116										
ZFPM2	23414	broad.mit.edu	37	chr8	106814000	106814000	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcaataatttggataattatCtagtgcacaaaaagcattat	5	5	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:106814000C>G	uc003ymd.2	+	8	1713	c.1690C>G	c.(1690-1692)CTA>GTA	p.L564V	ZFPM2_uc011lhs.1_Missense_Mutation_p.L295V	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	564	C2HC-type 2.				blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			GGATAATTATCTAGTGCACAA	0.453													23	162	---	---	---	---	PASS	G	106814000	G	G	106814000	3	3	21	1	0	0	0	0	1	0	0	0	17655	912	32	2	1720	2	ZFPM2	8	106814000	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	1306591	106814000	39550022	177	10117										
ZFPM2	23414	broad.mit.edu	37	chr8	106814360	106814360	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tagtggatggggaaagtgacCcaaataagactacctgtgaa	12	6	0	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:106814360C>A	uc003ymd.2	+	8	2073	c.2050C>A	c.(2050-2052)CCA>ACA	p.P684T	ZFPM2_uc011lhs.1_Missense_Mutation_p.P415T	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	684					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			GGAAAGTGACCCAAATAAGAC	0.453													8	39	---	---	---	---	PASS	A	106814360	A	A	106814360	3	1	21	1	0	0	0	0	1	0	0	0	17655	623	22	3	2080	3	ZFPM2	8	106814360	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	360	106814360	39549662	178	10118										
CSMD3	114788	broad.mit.edu	37	chr8	113301660	113301660	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggttcttgatgactggcctaAaagggaacgctttcctgtgc	12	9	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:113301660A>G	uc003ynu.2	-	57	9241	c.9082T>C	c.(9082-9084)TTA>CTA	p.L3028L	CSMD3_uc003yns.2_Silent_p.L2230L|CSMD3_uc003ynt.2_Silent_p.L2988L|CSMD3_uc011lhx.1_Silent_p.L2859L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3028	Sushi 21.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GACTGGCCTAAAAGGGAACGC	0.473										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			27	125	---	---	---	---	PASS	G	113301660	G	G	113301660	2	3	21	1	0	0	0	0	0	0	0	1	3946	11	1	5		5	CSMD3	8	113301660	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08	6487300	113301660	33062362	179	10119										
ZHX2	22882	broad.mit.edu	37	chr8	123964389	123964389	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	acccccgagaaccacgtggaAgggaccgcccgcctggtgac	13	16	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:123964389A>G	uc003ypk.1	+	3	1206	c.639A>G	c.(637-639)GAA>GAG	p.E213E		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	213	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			ACCACGTGGAAGGGACCGCCC	0.582													32	147	---	---	---	---	PASS	G	123964389	G	G	123964389	2	3	21	1	0	0	0	0	0	0	0	1	17673	69	3	5		5	ZHX2	8	123964389	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08	10662729	123964389	22399633	180	10120										
PTP4A3	11156	broad.mit.edu	37	chr8	142437157	142437157	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cgtggctgtgcactgcgtggCgggcctgggccggtgagtgt	20	10	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr8:142437157C>A	uc003ywg.1	+	3	651	c.317C>A	c.(316-318)GCG>GAG	p.A106E	PTP4A3_uc003ywh.1_Missense_Mutation_p.A106E|PTP4A3_uc010met.1_Intron	NM_032611	NP_116000	O75365	TP4A3_HUMAN	protein tyrosine phosphatase type IVA, member 3	106	Tyrosine-protein phosphatase.					early endosome|plasma membrane	identical protein binding|prenylated protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0	all_cancers(97;2.55e-15)|all_epithelial(106;1.39e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0474)			CACTGCGTGGCGGGCCTGGGC	0.677													30	123	---	---	---	---	PASS	A	142437157	A	A	142437157	3	1	21	1	0	0	0	0	1	0	0	0	12772	768	27	1	327	1	PTP4A3	8	142437157	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	18472768	142437157	3926865	181	10121										
KCNV2	169522	broad.mit.edu	37	chr9	2718960	2718960	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggcttcacgctgcgccagtgCtaccagcaggtgggctgcct	14	14	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:2718960C>A	uc003zho.1	+	1	1435	c.1221C>A	c.(1219-1221)TGC>TGA	p.C407*		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	407	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		TGCGCCAGTGCTACCAGCAGG	0.622													17	47	---	---	---	---	PASS	A	2718960	A	A	2718960	4	1	21	1	0	0	0	0	0	1	0	0	8095	805	28	3	1223	3	KCNV2	9	2718960	Nonsense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08		2718960	138494471	182	10122										
ADAMTSL1	92949	broad.mit.edu	37	chr9	18474278	18474278	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggcacactgctcctctttctGgctttcctgctcctggtaaa	8	14	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:18474278G>T	uc003zne.3	+	1	175	c.48G>T	c.(46-48)CTG>CTT	p.L16L	ADAMTSL1_uc003znb.2_Silent_p.L16L|ADAMTSL1_uc003znc.3_Silent_p.L16L	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	16						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		TCCTCTTTCTGGCTTTCCTGC	0.443													14	124	---	---	---	---	PASS	T	18474278	T	T	18474278	2	4	21	1	0	0	0	0	0	0	0	1	274	1335	47	3		3	ADAMTSL1	9	18474278	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	15755318	18474278	122739153	183	10123										
ADAMTSL1	92949	broad.mit.edu	37	chr9	18776954	18776954	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agggtccgcaagcccctcatCacctgggagaaggacggcca	13	14	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:18776954C>T	uc003zne.3	+	19	2854	c.2727C>T	c.(2725-2727)ATC>ATT	p.I909I		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	909	Ig-like C2-type 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		AGCCCCTCATCACCTGGGAGA	0.672													15	53	---	---	---	---	PASS	T	18776954	T	T	18776954	2	4	21	1	0	0	0	0	0	0	0	1	274	816	29	2		2	ADAMTSL1	9	18776954	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	302676	18776954	122436477	184	10124										
TLN1	7094	broad.mit.edu	37	chr9	35712073	35712073	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	atccacatcgcgctggccagGtaggcagctgacacagcggt	13	13	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:35712073G>A	uc003zxt.2	-	28	3964	c.3610C>T	c.(3610-3612)CCT>TCT	p.P1204S		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1204					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CGCTGGCCAGGTAGGCAGCTG	0.582													8	35	---	---	---	---	PASS	A	35712073	A	A	35712073	3	1	21	1	0	0	0	0	1	0	0	0	15944	1261	44	3	4135	3	TLN1	9	35712073	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	16935119	35712073	105501358	185	10125										
C9orf79	286234	broad.mit.edu	37	chr9	90499904	90499904	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ccctgggggacgtgtgtaaaCcagtgcctgctaaggcccac	13	13	0	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:90499904C>A	uc004app.3	+	4	537	c.502C>A	c.(502-504)CCA>ACA	p.P168T	C9orf79_uc004apo.1_Intron	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	168	Pro-rich.					integral to membrane				ovary(3)	3						CGTGTGTAAACCAGTGCCTGC	0.637													22	114	---	---	---	---	PASS	A	90499904	A	A	90499904	3	1	21	1	0	0	0	0	1	0	0	0	2497	507	18	3	516	3	C9orf79	9	90499904	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	54787831	90499904	50713527	186	10126										
C9orf79	286234	broad.mit.edu	37	chr9	90503319	90503319	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctgggggtctggcccaccaaGgcagtttatggactgcatgg	15	10	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:90503319G>T	uc004app.3	+	4	3952	c.3917G>T	c.(3916-3918)AGG>ATG	p.R1306M		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	1306						integral to membrane				ovary(3)	3						GGCCCACCAAGGCAGTTTATG	0.587													12	54	---	---	---	---	PASS	T	90503319	T	T	90503319	3	4	21	1	0	0	0	0	1	0	0	0	2497	1000	35	3	3931	3	C9orf79	9	90503319	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	3415	90503319	50710112	187	10127										
ECM2	1842	broad.mit.edu	37	chr9	95274313	95274313	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cttgaatgcttttggacctaTgcctgaagaagtgatattat	9	6	0	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:95274313T>C	uc004ash.2	-	5	1215	c.1150A>G	c.(1150-1152)ATA>GTA	p.I384V	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ECM2_uc004asf.3_Missense_Mutation_p.I362V|ECM2_uc011lty.1_Missense_Mutation_p.I384V|ECM2_uc004asg.2_Missense_Mutation_p.I362V	NM_001393	NP_001384	O94769	ECM2_HUMAN	extracellular matrix protein 2 precursor	384	LRR 1.				cell-matrix adhesion		integrin binding			ovary(1)|skin(1)	2						TTTGGACCTATGCCTGAAGAA	0.408													13	69	---	---	---	---	PASS	C	95274313	C	C	95274313	3	2	21	1	0	0	0	0	1	0	0	0	4898	1464	51	5	973	5	ECM2	9	95274313	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	4770994	95274313	45939118	188	10128										
FGD3	89846	broad.mit.edu	37	chr9	95797812	95797812	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctgctgcccatggggacacgGcccaggacagcccgggggcc	16	16	0	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:95797812G>T	uc004asw.2	+	18	2747	c.2119G>T	c.(2119-2121)GCC>TCC	p.A707S	FGD3_uc004asx.2_Missense_Mutation_p.A706S|FGD3_uc004asz.2_Missense_Mutation_p.A707S|FGD3_uc011luc.1_Missense_Mutation_p.A310S	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	707					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						TGGGGACACGGCCCAGGACAG	0.662													14	62	---	---	---	---	PASS	T	95797812	T	T	95797812	3	4	21	1	0	0	0	0	1	0	0	0	5834	1203	42	3	2181	3	FGD3	9	95797812	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	523499	95797812	45415619	189	10129										
CORO2A	7464	broad.mit.edu	37	chr9	100888860	100888860	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgtctttggtggggggcattCgaaaacgtcaaagccatttg	13	7	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:100888860C>T	uc004ayl.2	-	11	1683	c.1417G>A	c.(1417-1419)GAA>AAA	p.E473K	CORO2A_uc004aym.2_Missense_Mutation_p.E473K|CORO2A_uc004ayk.2_Missense_Mutation_p.E120K	NM_003389	NP_003380	Q92828	COR2A_HUMAN	coronin, actin binding protein, 2A	473					actin cytoskeleton organization|intracellular signal transduction	actin cytoskeleton|transcriptional repressor complex	actin filament binding	p.E473D(1)		skin(2)|ovary(1)|pancreas(1)	4		Acute lymphoblastic leukemia(62;0.0559)				GGGGGGCATTCGAAAACGTCA	0.567													29	202	---	---	---	---	PASS	T	100888860	T	T	100888860	3	4	21	1	0	0	0	0	1	0	0	0	3756	893	31	2	168	2	CORO2A	9	100888860	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	5091048	100888860	40324571	190	10130										
ZNF462	58499	broad.mit.edu	37	chr9	109690746	109690746	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aggtgccgtctacaaatgcaGgcattgcccatacatcaaca	8	12	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:109690746G>T	uc004bcz.2	+	3	4842	c.4553G>T	c.(4552-4554)AGG>ATG	p.R1518M	ZNF462_uc010mto.2_Missense_Mutation_p.R1366M|ZNF462_uc004bda.2_Missense_Mutation_p.R1366M	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1518	C2H2-type 13.				transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						TACAAATGCAGGCATTGCCCA	0.542													14	56	---	---	---	---	PASS	T	109690746	T	T	109690746	3	4	21	1	0	0	0	0	1	0	0	0	17923	1000	35	3	4559	3	ZNF462	9	109690746	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	8801886	109690746	31522685	191	10131										
AMBP	259	broad.mit.edu	37	chr9	116836319	116836319	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tagtaatgagcctttaccgtAgagcttggcagtaatggtgg	13	6	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:116836319A>G	uc004bie.3	-	4	714	c.451T>C	c.(451-453)TAC>CAC	p.Y151H	AMBP_uc011lxk.1_Missense_Mutation_p.Y92H|AMBP_uc010mvc.1_RNA	NM_001633	NP_001624	P02760	AMBP_HUMAN	alpha-1-microglobulin/bikunin preproprotein	151					cell adhesion|female pregnancy|heme catabolic process|interspecies interaction between organisms|negative regulation of immune response|negative regulation of JNK cascade|protein-chromophore linkage	extracellular region|plasma membrane	calcium channel inhibitor activity|calcium oxalate binding|heme binding|IgA binding|protein homodimerization activity|serine-type endopeptidase inhibitor activity|transporter activity			skin(1)	1					Human Serum Albumin(DB00062)|Serum albumin iodonated(DB00064)	CCTTTACCGTAGAGCTTGGCA	0.473													7	78	---	---	---	---	PASS	G	116836319	G	G	116836319	3	3	21	1	0	0	0	0	1	0	0	0	564	420	15	5	635	5	AMBP	9	116836319	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	7145573	116836319	24377112	192	10132										
TNC	3371	broad.mit.edu	37	chr9	117827163	117827163	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gaggccatcccagccaacctCagtcacggtgaggttttcca	10	14	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:117827163C>G	uc004bjj.3	-	11	3612	c.3250G>C	c.(3250-3252)GAG>CAG	p.E1084Q	TNC_uc010mvf.2_Missense_Mutation_p.E1084Q	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1084	Fibronectin type-III 6.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CAGCCAACCTCAGTCACGGTG	0.517													17	98	---	---	---	---	PASS	G	117827163	G	G	117827163	3	3	21	1	0	0	0	0	1	0	0	0	16267	835	29	2	3427	2	TNC	9	117827163	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	990844	117827163	23386268	193	10133										
CERCAM	51148	broad.mit.edu	37	chr9	131191110	131191110	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ccagcaagatagggtttgacGaggtaagtcccccagcctgt	12	11	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:131191110G>A	uc004buz.3	+	7	1359	c.961G>A	c.(961-963)GAG>AAG	p.E321K	CERCAM_uc004buy.1_Missense_Mutation_p.E243K|CERCAM_uc010mxz.2_Missense_Mutation_p.E243K|CERCAM_uc010mya.1_Missense_Mutation_p.E162K	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	321					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						AGGGTTTGACGAGGTAAGTCC	0.637													10	64	---	---	---	---	PASS	A	131191110	A	A	131191110	3	1	21	1	0	0	0	0	1	0	0	0	3266	1059	37	2	987	2	CERCAM	9	131191110	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	13363947	131191110	10022321	194	10134										
FCN1	2219	broad.mit.edu	37	chr9	137809684	137809684	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	caagactagcaggacagcgaGcccccgggccatggtggctc	14	14	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr9:137809684G>A	uc004cfi.2	-	1	126	c.34C>T	c.(34-36)CTC>TTC	p.L12F		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	12					opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		AGGACAGCGAGCCCCCGGGCC	0.587													28	121	---	---	---	---	PASS	A	137809684	A	A	137809684	3	1	21	1	0	0	0	0	1	0	0	0	5791	971	34	3	982	3	FCN1	9	137809684	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	6618574	137809684	3403747	195	10135										
RBP3	5949	broad.mit.edu	37	chr10	48389526	48389526	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gggccaacacacccaggacgGaggcgtcagcaaaactatcg	12	13	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr10:48389526G>C	uc001jez.2	-	1	1466	c.1352C>G	c.(1351-1353)TCC>TGC	p.S451C		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	451	4 X approximate tandem repeats.|2.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	ACCCAGGACGGAGGCGTCAGC	0.622													5	40	---	---	---	---	PASS	C	48389526	C	C	48389526	3	2	21	1	0	0	0	0	1	0	0	0	13157	1174	41	2	2407	2	RBP3	10	48389526	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08		48389526	87145221	196	10136										
PCDH15	65217	broad.mit.edu	37	chr10	55721612	55721612	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tggcagggtaaggaaactgtAcatcatctactctatacctc	8	10	3	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr10:55721612A>G	uc001jju.1	-	22	3304	c.2909T>C	c.(2908-2910)GTA>GCA	p.V970A	PCDH15_uc010qhq.1_Missense_Mutation_p.V975A|PCDH15_uc010qhr.1_Missense_Mutation_p.V970A|PCDH15_uc010qhs.1_Missense_Mutation_p.V982A|PCDH15_uc010qht.1_Missense_Mutation_p.V977A|PCDH15_uc010qhu.1_Missense_Mutation_p.V970A|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.V970A|PCDH15_uc010qhw.1_Missense_Mutation_p.V933A|PCDH15_uc010qhx.1_Missense_Mutation_p.V899A|PCDH15_uc010qhy.1_Missense_Mutation_p.V975A|PCDH15_uc010qhz.1_Missense_Mutation_p.V970A|PCDH15_uc010qia.1_Missense_Mutation_p.V948A|PCDH15_uc010qib.1_Missense_Mutation_p.V948A	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	970	Extracellular (Potential).|Cadherin 9.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AGGAAACTGTACATCATCTAC	0.328										HNSCC(58;0.16)			11	79	---	---	---	---	PASS	G	55721612	G	G	55721612	3	3	21	1	0	0	0	0	1	0	0	0	11511	391	14	5	4625	5	PCDH15	10	55721612	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	7332086	55721612	79813135	197	10137										
DDX50	79009	broad.mit.edu	37	chr10	70695820	70695820	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggatttagttaaatctaaaaGcatggatgccatcaggtatg	10	5	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr10:70695820G>T	uc001jou.2	+	11	1687	c.1580G>T	c.(1579-1581)AGC>ATC	p.S527I	DDX50_uc010qjc.1_Missense_Mutation_p.S527I	NM_024045	NP_076950	Q9BQ39	DDX50_HUMAN	nucleolar protein GU2	527						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding	p.S527S(1)		ovary(1)	1						AAATCTAAAAGCATGGATGCC	0.328													4	47	---	---	---	---	PASS	T	70695820	T	T	70695820	3	4	21	1	0	0	0	0	1	0	0	0	4368	971	34	3	1622	3	DDX50	10	70695820	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	14974208	70695820	64838927	198	10138										
SFTPA2	729238	broad.mit.edu	37	chr10	81317074	81317074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cccgacctgcaggctcccctCggtaccagttggtgtagttt	11	14	0	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr10:81317074C>A	uc001kal.3	-	6	735	c.638G>T	c.(637-639)CGA>CTA	p.R213L	SFTPA2_uc001kan.3_Missense_Mutation_p.R213L	NM_006926	NP_008857	Q8IWL1	SFPA2_HUMAN	RecName: Full=Pulmonary surfactant-associated protein A2;          Short=SP-A2;          Short=SP-A;          Short=PSP-A;          Short=PSPA; AltName: Full=Alveolar proteinosis protein; AltName: Full=35 kDa pulmonary surfactant-associated protein; Flags: Precursor;	213	C-type lectin.				cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			AGGCTCCCCTCGGTACCAGTT	0.547									Pulmonary_Fibrosis_Idiopathic				67	261	---	---	---	---	PASS	A	81317074	A	A	81317074	3	1	21	1	0	0	0	0	1	0	0	0	14190	884	31	2	112	2	SFTPA2	10	81317074	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	10621254	81317074	54217673	199	10139										
DPCD	25911	broad.mit.edu	37	chr10	103354462	103354462	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cagacggcaaggaaatggctGaagaatatgacgagaagacg	14	6	0	6			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr10:103354462G>C	uc001ktn.2	+	2	117	c.112G>C	c.(112-114)GAA>CAA	p.E38Q		NM_015448	NP_056263	Q9BVM2	DPCD_HUMAN	DPCD protein	38							protein binding			skin(1)	1						GGAAATGGCTGAAGAATATGA	0.473													21	81	---	---	---	---	PASS	C	103354462	C	C	103354462	3	2	21	1	0	0	0	0	1	0	0	0	4711	1291	45	2	118	2	DPCD	10	103354462	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	22037388	103354462	32180285	200	10140										
PNLIPRP1	5407	broad.mit.edu	37	chr10	118354352	118354352	+	Silent	SNP	G	T	T													0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cgagtggtgggcgcccaggtGgcccagatgctcgacatcct							TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr10:118354352G>T	uc001lco.1	+	5	459	c.441G>T	c.(439-441)GTG>GTT	p.V147V	PNLIPRP1_uc001lcp.2_Silent_p.V147V|PNLIPRP1_uc009xys.1_RNA	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	147					lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		GCGCCCAGGTGGCCCAGATGC	0.597													5	51	---	---	---	---	PASS	T	118354352	T	T	118354352	2	4	21	1	0	0	0	0	0	0	0	1	12150	1335	47	3		3	PNLIPRP1	10	118354352	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	14999890	118354352	17180395	201	10141	291	2								
PNLIPRP1	5407	broad.mit.edu	37	chr10	118354353	118354353	+	Missense_Mutation	SNP	G	T	T													0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gagtggtgggcgcccaggtgGcccagatgctcgacatcctc							TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr10:118354353G>T	uc001lco.1	+	5	460	c.442G>T	c.(442-444)GCC>TCC	p.A148S	PNLIPRP1_uc001lcp.2_Missense_Mutation_p.A148S|PNLIPRP1_uc009xys.1_RNA	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	148					lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		CGCCCAGGTGGCCCAGATGCT	0.602													5	49	---	---	---	---	PASS	T	118354353	T	T	118354353	3	4	21	1	0	0	0	0	1	0	0	0	12150	1203	42	3	456	3	PNLIPRP1	10	118354353	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1	118354353	17180394	202	10142	291	2								
DPYSL4	10570	broad.mit.edu	37	chr10	134008372	134008372	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	accacgtcttccccgacacgGgtgtgagcctgctggcggcc	13	16	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr10:134008372G>A	uc009ybb.2	+	4	491	c.337G>A	c.(337-339)GGT>AGT	p.G113S		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	113					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-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;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		CCCCGACACGGGTGTGAGCCT	0.657													19	80	---	---	---	---	PASS	A	134008372	A	A	134008372	3	1	21	1	0	0	0	0	1	0	0	0	4749	1232	43	3	351	3	DPYSL4	10	134008372	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	15654019	134008372	1526375	203	10143										
MUC2	4583	broad.mit.edu	37	chr11	1098686	1098686	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtgcccccgcagcactactaCgatgcctgcgtgttcgacag	11	15	0	0	rs56034260	by1000genomes	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:1098686C>T	uc001lsx.1	+	40	14169	c.14142C>T	c.(14140-14142)TAC>TAT	p.Y4714Y		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4714						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	AGCACTACTACGATGCCTGCG	0.652													6	21	---	---	---	---	PASS	T	1098686	T	T	1098686	2	4	21	1	0	0	0	0	0	0	0	1	9975	547	19	1		1	MUC2	11	1098686	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08		1098686	133907830	204	10144										
OR52I1	390037	broad.mit.edu	37	chr11	4615724	4615724	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctgggaatgagtatggccgtCaccatcagagctgtcacatt	11	10	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:4615724C>T	uc010qyi.1	+	1	456	c.456C>T	c.(454-456)GTC>GTT	p.V152V		NM_001005169	NP_001005169	Q8NGK6	O52I1_HUMAN	olfactory receptor, family 52, subfamily I,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;7.98e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GTATGGCCGTCACCATCAGAG	0.483													37	86	---	---	---	---	PASS	T	4615724	T	T	4615724	2	4	21	1	0	0	0	0	0	0	0	1	11120	813	29	2		2	OR52I1	11	4615724	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	3517038	4615724	130390792	205	10145										
OR52N5	390075	broad.mit.edu	37	chr11	5799488	5799488	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	catagcggtctagagccatgAgcatgagcaccccagactcc	10	14	1	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:5799488A>C	uc010qzn.1	-	1	377	c.377T>G	c.(376-378)CTC>CGC	p.L126R	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001922	NP_001001922	Q8NH56	O52N5_HUMAN	olfactory receptor, family 52, subfamily N,	126	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		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)		TAGAGCCATGAGCATGAGCAC	0.488													9	78	---	---	---	---	PASS	C	5799488	C	C	5799488	3	2	21	1	0	0	0	0	1	0	0	0	11130	304	11	5	601	5	OR52N5	11	5799488	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	1183764	5799488	129207028	206	10146										
TRAF6	7189	broad.mit.edu	37	chr11	36520129	36520129	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctcacgttttgcaaaattgtCtggaaatagttgattttcca	7	7	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:36520129C>T	uc001mwr.1	-	4	698	c.358G>A	c.(358-360)GAC>AAC	p.D120N	TRAF6_uc001mws.1_Missense_Mutation_p.D120N	NM_145803	NP_665802	Q9Y4K3	TRAF6_HUMAN	TNF receptor-associated factor 6	120	Interaction with TAX1BP1.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|ossification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell cytokine production|protein autoubiquitination|protein K63-linked ubiquitination|response to interleukin-1|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cell cortex|cytosol|endosome membrane|internal side of plasma membrane|nuclear membrane	histone deacetylase binding|mitogen-activated protein kinase kinase kinase binding|protein kinase B binding|protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				GCAAAATTGTCTGGAAATAGT	0.353													18	56	---	---	---	---	PASS	T	36520129	T	T	36520129	3	4	21	1	0	0	0	0	1	0	0	0	16442	913	32	2	1230	2	TRAF6	11	36520129	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	30720641	36520129	98486387	207	10147										
NUP160	23279	broad.mit.edu	37	chr11	47834559	47834559	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gactcttcaatcagccggagGcattttataagacatatgac	8	9	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:47834559G>A	uc001ngm.2	-	15	1912	c.1827C>T	c.(1825-1827)TGC>TGT	p.C609C	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	609					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						TCAGCCGGAGGCATTTTATAA	0.378													9	71	---	---	---	---	PASS	A	47834559	A	A	47834559	2	1	21	1	0	0	0	0	0	0	0	1	10757	1195	42	3		3	NUP160	11	47834559	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	11314430	47834559	87171957	208	10148										
PTPRJ	5795	broad.mit.edu	37	chr11	48149573	48149573	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggtgacatcgagggcacgccGggcttcctccaagtgcacac	13	14	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:48149573G>C	uc001ngp.3	+	7	1690	c.1335G>C	c.(1333-1335)CCG>CCC	p.P445P	PTPRJ_uc001ngo.3_Silent_p.P445P	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	445	Extracellular (Potential).|Fibronectin type-III 4.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						AGGGCACGCCGGGCTTCCTCC	0.602													16	81	---	---	---	---	PASS	C	48149573	C	C	48149573	2	2	21	1	0	0	0	0	0	0	0	1	12804	1103	39	4		4	PTPRJ	11	48149573	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	315014	48149573	86856943	209	10149										
OR5I1	10798	broad.mit.edu	37	chr11	55702966	55702966	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cctttgatcttagaactttcTcagctgcatcctttacatct	4	12	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:55702966T>C	uc010ris.1	-	1	911	c.911A>G	c.(910-912)GAG>GGG	p.E304G		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	304	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TAGAACTTTCTCAGCTGCATC	0.333													7	33	---	---	---	---	PASS	C	55702966	C	C	55702966	3	2	21	1	0	0	0	0	1	0	0	0	11164	1551	54	5	36	5	OR5I1	11	55702966	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	7553393	55702966	79303550	210	10150										
OR5M1	390168	broad.mit.edu	37	chr11	56380541	56380541	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aacccatacatgtaagggatAgtgaccagacagacacagat	9	9	0	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:56380541A>G	uc001nja.1	-	1	438	c.438T>C	c.(436-438)ACT>ACC	p.T146T		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TGTAAGGGATAGTGACCAGAC	0.448													12	64	---	---	---	---	PASS	G	56380541	G	G	56380541	2	3	21	1	0	0	0	0	0	0	0	1	11172	407	15	5		5	OR5M1	11	56380541	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08	677575	56380541	78625975	211	10151										
OR1S2	219958	broad.mit.edu	37	chr11	57971606	57971606	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtgatggtggtttggttttcTtgatgcatatttctgctgat	12	4	2	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:57971606T>C	uc010rkb.1	-	1	48	c.48A>G	c.(46-48)CAA>CAG	p.Q16Q		NM_001004459	NP_001004459	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				TTTGGTTTTCTTGATGCATAT	0.408													23	74	---	---	---	---	PASS	C	57971606	C	C	57971606	2	2	21	1	0	0	0	0	0	0	0	1	10973	1606	56	5		5	OR1S2	11	57971606	Silent	SNP	T	TCGA-21-1076-01A-02D-1521-08	1591065	57971606	77034910	212	10152										
EFEMP2	30008	broad.mit.edu	37	chr11	65638668	65638668	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcgggctcatagcctggtggGcaggggttggggtgttgagc	20	7	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:65638668G>A	uc001ofy.3	-	4	521	c.327C>T	c.(325-327)TGC>TGT	p.C109C	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Silent_p.C109C	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	109				AQHPNPCPP -> VNTQPLPT (in Ref. 2; AAC62108).	blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		AGCCTGGTGGGCAGGGGTTGG	0.652													20	94	---	---	---	---	PASS	A	65638668	A	A	65638668	2	1	21	1	0	0	0	0	0	0	0	1	4942	1195	42	3		3	EFEMP2	11	65638668	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	7667062	65638668	69367848	213	10153										
B3GNT6	192134	broad.mit.edu	37	chr11	76750770	76750770	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ccgacgctcccgcggctgacGagccgccctcggagctcgtc	13	19	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:76750770G>C	uc001oxw.2	+	2	263	c.175G>C	c.(175-177)GAG>CAG	p.E59Q		NM_138706	NP_619651	Q6ZMB0	B3GN6_HUMAN	UDP-GlcNAc:betaGal	59	Lumenal (Potential).				O-glycan processing, core 3	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity|galactosyltransferase activity				0						CGCGGCTGACGAGCCGCCCTC	0.736													4	9	---	---	---	---	PASS	C	76750770	C	C	76750770	3	2	21	1	0	0	0	0	1	0	0	0	1261	1059	37	2	177	2	B3GNT6	11	76750770	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	11112102	76750770	58255746	214	10154										
KCTD14	65987	broad.mit.edu	37	chr11	77727937	77727937	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtgctgttatggcttctgcaCgtgccaggcgcaccatgagc	13	12	1	1	rs141944721	byFrequency	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:77727937C>A	uc001oyw.3	-	2	495	c.470G>T	c.(469-471)CGT>CTT	p.R157L		NM_023930	NP_076419	Q9BQ13	KCD14_HUMAN	potassium channel tetramerisation domain	157						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1e-24)			GGCTTCTGCACGTGCCAGGCG	0.547													34	109	---	---	---	---	PASS	A	77727937	A	A	77727937	3	1	21	1	0	0	0	0	1	0	0	0	8101	536	19	1	301	1	KCTD14	11	77727937	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	977167	77727937	57278579	215	10155										
ABCG4	64137	broad.mit.edu	37	chr11	119024982	119024982	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ccctgcagggagtctggaatGaaggggcagatcctggttaa	15	8	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:119024982G>A	uc001pvs.2	+	4	705	c.369G>A	c.(367-369)ATG>ATA	p.M123I	ABCG4_uc009zar.2_Missense_Mutation_p.M123I	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	123	Cytoplasmic (Potential).|ABC transporter.				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		AGTCTGGAATGAAGGGGCAGA	0.547													19	81	---	---	---	---	PASS	A	119024982	A	A	119024982	3	1	21	1	0	0	0	0	1	0	0	0	70	1290	45	2	379	2	ABCG4	11	119024982	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	41297045	119024982	15981534	216	10156										
OR8B12	219858	broad.mit.edu	37	chr11	124413505	124413505	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cagtcccggctggtgggttaAgccttcgaggataaactctg	13	10	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:124413505A>G	uc010sam.1	-	1	46	c.46T>C	c.(46-48)TTA>CTA	p.L16L		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		TGGTGGGTTAAGCCTTCGAGG	0.532													14	75	---	---	---	---	PASS	G	124413505	G	G	124413505	2	3	21	1	0	0	0	0	0	0	0	1	11226	69	3	5		5	OR8B12	11	124413505	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08	5388523	124413505	10593011	217	10157										
NTM	50863	broad.mit.edu	37	chr11	132082018	132082018	+	Missense_Mutation	SNP	C	T	T													0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tagaccagagcctacggttaCttggagacacatctctccca							TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:132082018C>T	uc001qgp.2	+	3	1167	c.503C>T	c.(502-504)ACT>ATT	p.T168I	NTM_uc001qgm.2_Missense_Mutation_p.T168I|NTM_uc010sch.1_Missense_Mutation_p.T159I|NTM_uc010sci.1_Missense_Mutation_p.T168I|NTM_uc010scj.1_Missense_Mutation_p.T127I|NTM_uc001qgo.2_Missense_Mutation_p.T168I|NTM_uc001qgq.2_Missense_Mutation_p.T168I|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	168	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						CCTACGGTTACTTGGAGACAC	0.433													17	50	---	---	---	---	PASS	T	132082018	T	T	132082018	3	4	21	1	0	0	0	0	1	0	0	0	10699	565	20	3	599	3	NTM	11	132082018	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	7668513	132082018	2924498	218	10158	292	2								
NTM	50863	broad.mit.edu	37	chr11	132082019	132082019	+	Silent	SNP	T	C	C													0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agaccagagcctacggttacTtggagacacatctctcccaa							TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:132082019T>C	uc001qgp.2	+	3	1168	c.504T>C	c.(502-504)ACT>ACC	p.T168T	NTM_uc001qgm.2_Silent_p.T168T|NTM_uc010sch.1_Silent_p.T159T|NTM_uc010sci.1_Silent_p.T168T|NTM_uc010scj.1_Silent_p.T127T|NTM_uc001qgo.2_Silent_p.T168T|NTM_uc001qgq.2_Silent_p.T168T|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	168	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						CTACGGTTACTTGGAGACACA	0.438													16	50	---	---	---	---	PASS	C	132082019	C	C	132082019	2	2	21	1	0	0	0	0	0	0	0	1	10699	1596	56	5		5	NTM	11	132082019	Silent	SNP	T	TCGA-21-1076-01A-02D-1521-08	1	132082019	2924497	219	10159	292	2								
NTM	50863	broad.mit.edu	37	chr11	132177700	132177700	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cgcgcccgtggtacggagagTaaaggtcaccgtgaactgta	14	10	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr11:132177700T>G	uc001qgp.2	+	4	1308	c.644T>G	c.(643-645)GTA>GGA	p.V215G	NTM_uc001qgm.2_Missense_Mutation_p.V215G|NTM_uc010sch.1_Missense_Mutation_p.V206G|NTM_uc010sci.1_Missense_Mutation_p.V215G|NTM_uc010scj.1_Missense_Mutation_p.V174G|NTM_uc001qgo.2_Missense_Mutation_p.V215G|NTM_uc001qgq.2_Missense_Mutation_p.V215G|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	215	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						GTACGGAGAGTAAAGGTCACC	0.587													4	27	---	---	---	---	PASS	G	132177700	G	G	132177700	3	3	21	1	0	0	0	0	1	0	0	0	10699	1638	57	5	744	5	NTM	11	132177700	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	95681	132177700	2828816	220	10160										
ANO2	57101	broad.mit.edu	37	chr12	5687599	5687599	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aacttctttgcatcgagccgCacttcaatgacgttgttgag	9	10	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:5687599C>T	uc001qnm.2	-	22	2391	c.2319G>A	c.(2317-2319)GTG>GTA	p.V773V		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	778	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						CATCGAGCCGCACTTCAATGA	0.547													6	41	---	---	---	---	PASS	T	5687599	T	T	5687599	2	4	21	1	0	0	0	0	0	0	0	1	697	697	25	3		3	ANO2	12	5687599	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08		5687599	128164296	221	10161										
ITPR2	3709	broad.mit.edu	37	chr12	26781091	26781091	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aatccagtctgacactcaggAtaaactataagaaacattaa	5	8	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:26781091A>G	uc001rhg.2	-	23	3356	c.2939T>C	c.(2938-2940)ATC>ACC	p.I980T		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	980	Cytoplasmic (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)					GACACTCAGGATAAACTATAA	0.353													34	117	---	---	---	---	PASS	G	26781091	G	G	26781091	3	3	21	1	0	0	0	0	1	0	0	0	7921	333	12	5	5306	5	ITPR2	12	26781091	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	21093492	26781091	107070804	222	10162										
OSBPL8	114882	broad.mit.edu	37	chr12	76772316	76772316	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgcttctccctctaatattgCagataatgagtttcctgaaa	6	9	2	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:76772316C>A	uc001sye.1	-	16	2125	c.1645G>T	c.(1645-1647)GCA>TCA	p.A549S	OSBPL8_uc001syf.1_Missense_Mutation_p.A507S|OSBPL8_uc001syg.1_Missense_Mutation_p.A507S|OSBPL8_uc001syh.1_Missense_Mutation_p.A524S	NM_020841	NP_065892	Q9BZF1	OSBL8_HUMAN	oxysterol-binding protein-like protein 8 isoform	549					lipid transport		lipid binding			ovary(1)	1						TCTAATATTGCAGATAATGAG	0.254													22	74	---	---	---	---	PASS	A	76772316	A	A	76772316	3	1	21	1	0	0	0	0	1	0	0	0	11283	710	25	3	1060	3	OSBPL8	12	76772316	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	49991225	76772316	57079579	223	10163										
LIN7A	8825	broad.mit.edu	37	chr12	81205404	81205404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	atcgcaccaccagcttgacgCtgtctttagcagccttgagt	9	13	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:81205404C>A	uc001szj.1	-	5	735	c.542G>T	c.(541-543)AGC>ATC	p.S181I	LIN7A_uc001szk.1_RNA	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	181	PDZ.				exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						CAGCTTGACGCTGTCTTTAGC	0.488													22	75	---	---	---	---	PASS	A	81205404	A	A	81205404	3	1	21	1	0	0	0	0	1	0	0	0	8810	797	28	3	163	3	LIN7A	12	81205404	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	4433088	81205404	52646491	224	10164										
STAB2	55576	broad.mit.edu	37	chr12	104014304	104014304	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggcagttgtgctgaaggcatGgaaggaaatggaacctgctc	15	7	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:104014304G>T	uc001tjw.2	+	4	576	c.390G>T	c.(388-390)ATG>ATT	p.M130I		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	130	Extracellular (Potential).|EGF-like 1.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTGAAGGCATGGAAGGAAATG	0.488													4	16	---	---	---	---	PASS	T	104014304	T	T	104014304	3	4	21	1	0	0	0	0	1	0	0	0	15237	1348	47	3	404	3	STAB2	12	104014304	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	22808900	104014304	29837591	225	10165										
STAB2	55576	broad.mit.edu	37	chr12	104056674	104056674	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gaagaaattgagatcactgcCaaaaatggccgaatttacac	8	8	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:104056674C>G	uc001tjw.2	+	18	2106	c.1920C>G	c.(1918-1920)GCC>GCG	p.A640A		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	640	Extracellular (Potential).|FAS1 2.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						AGATCACTGCCAAAAATGGCC	0.428													19	80	---	---	---	---	PASS	G	104056674	G	G	104056674	2	3	21	1	0	0	0	0	0	0	0	1	15237	581	21	4		4	STAB2	12	104056674	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	42370	104056674	29795221	226	10166										
UBE3B	89910	broad.mit.edu	37	chr12	109937553	109937553	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cggaagtatgtgtctcagaaGaagtccaacctgacccactg	10	11	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:109937553G>C	uc001top.2	+	12	1659	c.1056G>C	c.(1054-1056)AAG>AAC	p.K352N	UBE3B_uc001toq.2_Missense_Mutation_p.K352N|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.K352N	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	352					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						TGTCTCAGAAGAAGTCCAACC	0.537													8	53	---	---	---	---	PASS	C	109937553	C	C	109937553	3	2	21	1	0	0	0	0	1	0	0	0	16877	933	33	2	1094	2	UBE3B	12	109937553	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	5880879	109937553	23914342	227	10167										
IFT81	28981	broad.mit.edu	37	chr12	110565186	110565186	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	taaaattataagacctaattAtgagtgatcaaattaaattc	4	4	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:110565186A>G	uc001tqi.2	+	2	131	c.1A>G	c.(1-3)ATG>GTG	p.M1V	IFT81_uc001tqh.2_Missense_Mutation_p.M1V|IFT81_uc001tqj.2_RNA|IFT81_uc001tqg.2_Missense_Mutation_p.M1V	NM_001143779	NP_001137251	Q8WYA0	IFT81_HUMAN	intraflagellar transport 81-like isoform 1	1					cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1						AGACCTAATTATGAGTGATCA	0.303													2	11	---	---	---	---	PASS	G	110565186	G	G	110565186	3	3	21	1	0	0	0	0	1	0	0	0	7565	449	16	5	3	5	IFT81	12	110565186	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	627633	110565186	23286709	228	10168										
NOS1	4842	broad.mit.edu	37	chr12	117672551	117672551	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttggtgtggagacgcacgaaGatagttgaccgactgcagga	15	7	0	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:117672551G>A	uc001twm.1	-	21	3740	c.3054C>T	c.(3052-3054)ATC>ATT	p.I1018I		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1018	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GACGCACGAAGATAGTTGACC	0.507													6	45	---	---	---	---	PASS	A	117672551	A	A	117672551	2	1	21	1	0	0	0	0	0	0	0	1	10541	932	33	2		2	NOS1	12	117672551	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	7107365	117672551	16179344	229	10169										
CAMKK2	10645	broad.mit.edu	37	chr12	121690485	121690485	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tggccaaagacaaagcagtaTagtgtcacacccatggccca	9	12	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:121690485T>A	uc001tzu.2	-	11	1264	c.1140A>T	c.(1138-1140)CTA>CTT	p.L380L	CAMKK2_uc001tzt.2_Silent_p.L380L|CAMKK2_uc001tzv.2_Silent_p.L380L|CAMKK2_uc001tzw.2_Silent_p.L380L|CAMKK2_uc001tzx.2_Silent_p.L380L|CAMKK2_uc001tzy.2_Silent_p.L380L|CAMKK2_uc001tzz.1_Silent_p.L167L|CAMKK2_uc001uaa.1_Silent_p.L380L|CAMKK2_uc001uab.2_Silent_p.L380L|CAMKK2_uc001uac.2_Silent_p.L380L	NM_006549	NP_006540	Q96RR4	KKCC2_HUMAN	calcium/calmodulin-dependent protein kinase	380	Protein kinase.				calcium-mediated signaling|MAPKKK cascade|positive regulation of transcription, DNA-dependent|protein autophosphorylation|regulation of protein kinase activity	cytoplasm	ATP binding|calcium ion binding|calmodulin binding|calmodulin-dependent protein kinase activity|protein tyrosine kinase activity			lung(1)|large_intestine(1)|stomach(1)	3	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CAAAGCAGTATAGTGTCACAC	0.517													7	41	---	---	---	---	PASS	A	121690485	A	A	121690485	2	1	21	1	0	0	0	0	0	0	0	1	2607	1393	49	5		5	CAMKK2	12	121690485	Silent	SNP	T	TCGA-21-1076-01A-02D-1521-08	4017934	121690485	12161410	230	10170										
TMEM132D	121256	broad.mit.edu	37	chr12	129558726	129558726	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctgaggagatatttactttcCtcgaaatccatgcccctgtc	7	12	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:129558726C>T	uc009zyl.1	-	9	3322	c.2994G>A	c.(2992-2994)GAG>GAA	p.E998E	TMEM132D_uc001uia.2_Silent_p.E536E	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	998	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		ATTTACTTTCCTCGAAATCCA	0.453													27	121	---	---	---	---	PASS	T	129558726	T	T	129558726	2	4	21	1	0	0	0	0	0	0	0	1	16044	680	24	3		3	TMEM132D	12	129558726	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	7868241	129558726	4293169	231	10171										
EP400	57634	broad.mit.edu	37	chr12	132502198	132502198	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggcacccaggctcttcctacGtggcggggccactggagtat	14	13	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:132502198G>C	uc001ujn.2	+	19	4077	c.4042G>C	c.(4042-4044)GTG>CTG	p.V1348L	EP400_uc001ujl.2_Missense_Mutation_p.V1347L|EP400_uc001ujm.2_Missense_Mutation_p.V1348L	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1384					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CTCTTCCTACGTGGCGGGGCC	0.592													19	88	---	---	---	---	PASS	C	132502198	C	C	132502198	3	2	21	1	0	0	0	0	1	0	0	0	5149	1145	40	4	4113	4	EP400	12	132502198	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	2943472	132502198	1349697	232	10172										
P2RX2	22953	broad.mit.edu	37	chr12	133197898	133197898	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cgcacgctcatcaaggcctaCgggatccgcattgacgtcat	10	14	3	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr12:133197898C>A	uc001ukj.1	+	9	963	c.963C>A	c.(961-963)TAC>TAA	p.Y321*	P2RX2_uc001uki.1_Nonsense_Mutation_p.Y321*|P2RX2_uc001ukk.1_Nonsense_Mutation_p.Y321*|P2RX2_uc001ukl.1_Nonsense_Mutation_p.Y297*|P2RX2_uc001ukm.1_Nonsense_Mutation_p.Y249*|P2RX2_uc001ukn.1_Nonsense_Mutation_p.Y229*|P2RX2_uc009zyt.1_Nonsense_Mutation_p.Y321*|P2RX2_uc001uko.1_Nonsense_Mutation_p.Y287*	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	321	Pore-forming motif (Potential).|Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		TCAAGGCCTACGGGATCCGCA	0.612													28	252	---	---	---	---	PASS	A	133197898	A	A	133197898	4	1	21	1	0	0	0	0	0	1	0	0	11340	547	19	1	997	1	P2RX2	12	133197898	Nonsense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	695700	133197898	653997	233	10173										
RCBTB1	55213	broad.mit.edu	37	chr13	50115118	50115118	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttttcagtctgttttcacagTaagatgtcgccaaatccaga	7	9	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr13:50115118T>A	uc001vde.1	-	12	1610	c.1349A>T	c.(1348-1350)TAC>TTC	p.Y450F		NM_018191	NP_060661	Q8NDN9	RCBT1_HUMAN	regulator of chromosome condensation (RCC1) and	450					cell cycle|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(1)	1		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)		GTTTTCACAGTAAGATGTCGC	0.343													11	35	---	---	---	---	PASS	A	50115118	A	A	50115118	3	1	21	1	0	0	0	0	1	0	0	0	13171	1638	57	5	254	5	RCBTB1	13	50115118	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08		50115118	65054760	234	10174										
DOCK9	23348	broad.mit.edu	37	chr13	99554117	99554117	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tttcaattctggccacaagaAatatatctggatgaggacaa	8	7	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr13:99554117A>T	uc001vnt.2	-	13	1476	c.1421T>A	c.(1420-1422)TTT>TAT	p.F474Y	DOCK9_uc001vnw.2_Missense_Mutation_p.F473Y|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.F474Y|DOCK9_uc010tis.1_Missense_Mutation_p.F473Y|DOCK9_uc010tit.1_Missense_Mutation_p.F474Y|DOCK9_uc010afu.1_Missense_Mutation_p.F289Y	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	474					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					GGCCACAAGAAATATATCTGG	0.393													3	15	---	---	---	---	PASS	T	99554117	T	T	99554117	3	4	21	1	0	0	0	0	1	0	0	0	4694	14	1	5	5025	5	DOCK9	13	99554117	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	49438999	99554117	15615761	235	10175										
OR4Q3	441669	broad.mit.edu	37	chr14	20216180	20216180	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gacacctatgtggtagaggtGctggtgatagccaacagtgg	15	7	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:20216180G>T	uc010tkt.1	+	1	594	c.594G>T	c.(592-594)GTG>GTT	p.V198V		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	198	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGGTAGAGGTGCTGGTGATAG	0.498													10	70	---	---	---	---	PASS	T	20216180	T	T	20216180	2	4	21	1	0	0	0	0	0	0	0	1	11081	1306	46	3		3	OR4Q3	14	20216180	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08		20216180	87133360	236	10176										
OR11G2	390439	broad.mit.edu	37	chr14	20665802	20665802	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	catgtacatcctgctcgccaActtctccttcttggagatat	6	13	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:20665802A>T	uc010tlb.1	+	1	308	c.308A>T	c.(307-309)AAC>ATC	p.N103I		NM_001005503	NP_001005503	Q8NGC1	O11G2_HUMAN	olfactory receptor, family 11, subfamily G,	103	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.76e-07)|all cancers(55;5.61e-06)	GBM - Glioblastoma multiforme(265;0.0144)		CTGCTCGCCAACTTCTCCTTC	0.527													22	103	---	---	---	---	PASS	T	20665802	T	T	20665802	3	4	21	1	0	0	0	0	1	0	0	0	10925	43	2	5	310	5	OR11G2	14	20665802	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	449622	20665802	86683738	237	10177										
LRP10	26020	broad.mit.edu	37	chr14	23345950	23345950	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agattgtgcagcagcaggcaCccccttcctacgggcagctc	11	15	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:23345950C>G	uc001whd.2	+	6	2030	c.1477C>G	c.(1477-1479)CCC>GCC	p.P493A	LRP10_uc001whe.2_Missense_Mutation_p.P369A	NM_014045	NP_054764	Q7Z4F1	LRP10_HUMAN	low density lipoprotein receptor-related protein	493	Cytoplasmic (Potential).				endocytosis	coated pit|integral to membrane				central_nervous_system(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.00549)		GCAGCAGGCACCCCCTTCCTA	0.552													20	105	---	---	---	---	PASS	G	23345950	G	G	23345950	3	3	21	1	0	0	0	0	1	0	0	0	8952	507	18	4	1499	4	LRP10	14	23345950	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	2680148	23345950	84003590	238	10178										
HEATR5A	25938	broad.mit.edu	37	chr14	31852749	31852749	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgccttttccatgaggaattCctaaaggacaatgttttact	7	8	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:31852749C>T	uc001wrf.3	-	4	772	c.695G>A	c.(694-696)GGA>GAA	p.G232E	HEATR5A_uc010ami.2_Missense_Mutation_p.G130E|HEATR5A_uc001wrg.1_Missense_Mutation_p.G114E|HEATR5A_uc010tpk.1_Missense_Mutation_p.G525E	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	519							binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		ATGAGGAATTCCTAAAGGACA	0.383													28	180	---	---	---	---	PASS	T	31852749	T	T	31852749	3	4	21	1	0	0	0	0	1	0	0	0	7031	855	30	2	4674	2	HEATR5A	14	31852749	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	8506799	31852749	75496791	239	10179										
MDGA2	161357	broad.mit.edu	37	chr14	47342674	47342674	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgtgataaaagaagctgaaaCaatatgcagtgtttgtgggt	12	3	0	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:47342674C>G	uc001wwj.3	-	14	2703	c.2507G>C	c.(2506-2508)TGT>TCT	p.C836S	MDGA2_uc001wwh.3_Missense_Mutation_p.C38S|MDGA2_uc001wwi.3_Missense_Mutation_p.C607S|MDGA2_uc010ani.2_Missense_Mutation_p.C396S	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	836	MAM.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						GAAGCTGAAACAATATGCAGT	0.383													18	109	---	---	---	---	PASS	G	47342674	G	G	47342674	3	3	21	1	0	0	0	0	1	0	0	0	9407	478	17	4	379	4	MDGA2	14	47342674	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	15489925	47342674	60006866	240	10180										
C14orf39	317761	broad.mit.edu	37	chr14	60921721	60921721	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tttggcttctcatattacctGatctgatgagatttctgtat	7	7	3	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:60921721G>T	uc001xez.3	-	16	1611	c.1501C>A	c.(1501-1503)CAG>AAG	p.Q501K	C14orf39_uc010apo.2_Missense_Mutation_p.Q212K	NM_174978	NP_777638	Q08AQ4	Q08AQ4_HUMAN	hypothetical protein LOC317761	501										ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)		CATATTACCTGATCTGATGAG	0.313													10	55	---	---	---	---	PASS	T	60921721	T	T	60921721	3	4	21	1	0	0	0	0	1	0	0	0	1772	1299	45	2	274	2	C14orf39	14	60921721	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	13579047	60921721	46427819	241	10181										
SIX4	51804	broad.mit.edu	37	chr14	61187017	61187017	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttaatgatatcttagcatttCcaatttgttgcatatatact	4	6	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:61187017C>G	uc001xfc.2	-	2	1010	c.1010G>C	c.(1009-1011)GGA>GCA	p.G337A	SIX4_uc010app.1_Missense_Mutation_p.G329A	NM_017420	NP_059116	Q9UIU6	SIX4_HUMAN	sine oculis homeobox homolog 4	337						nucleus				breast(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0275)		CTTAGCATTTCCAATTTGTTG	0.408													24	95	---	---	---	---	PASS	G	61187017	G	G	61187017	3	3	21	1	0	0	0	0	1	0	0	0	14349	855	30	2	1343	2	SIX4	14	61187017	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	265296	61187017	46162523	242	10182										
SPTB	6710	broad.mit.edu	37	chr14	65259873	65259873	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctctgctgacgcaggtccgcCtgggccaccacctgttggta	12	15	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:65259873C>T	uc001xht.2	-	13	2562	c.2508G>A	c.(2506-2508)CAG>CAA	p.Q836Q	SPTB_uc001xhr.2_Silent_p.Q836Q|SPTB_uc001xhs.2_Silent_p.Q836Q|SPTB_uc001xhu.2_Silent_p.Q836Q	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	836	Spectrin 6.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		GCAGGTCCGCCTGGGCCACCA	0.632													18	93	---	---	---	---	PASS	T	65259873	T	T	65259873	2	4	21	1	0	0	0	0	0	0	0	1	15117	680	24	3		3	SPTB	14	65259873	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	4072856	65259873	42089667	243	10183										
C14orf174	161394	broad.mit.edu	37	chr14	77844685	77844685	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	acagaactacctgagcggacTaaaccagactttccagacca	7	13	0	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:77844685T>G	uc001xtq.1	+	1	924	c.924T>G	c.(922-924)ACT>ACG	p.T308T	TMED8_uc010ast.1_5'Flank|TMED8_uc001xto.1_5'Flank	NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	308											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		CTGAGCGGACTAAACCAGACT	0.473													9	115	---	---	---	---	PASS	G	77844685	G	G	77844685	2	3	21	1	0	0	0	0	0	0	0	1	1759	1509	53	5		5	C14orf174	14	77844685	Silent	SNP	T	TCGA-21-1076-01A-02D-1521-08	12584812	77844685	29504855	244	10184										
NRXN3	9369	broad.mit.edu	37	chr14	79175927	79175927	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gggctctggcaccatcaaagTgaaagccactcagaagaaag	11	10	3	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:79175927T>C	uc001xun.2	+	4	961	c.470T>C	c.(469-471)GTG>GCG	p.V157A	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.V291A	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	530	Extracellular (Potential).|Laminin G-like 3.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		ACCATCAAAGTGAAAGCCACT	0.502													13	162	---	---	---	---	PASS	C	79175927	C	C	79175927	3	2	21	1	0	0	0	0	1	0	0	0	10667	1696	59	5	476	5	NRXN3	14	79175927	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	1331242	79175927	28173613	245	10185										
C14orf102	55051	broad.mit.edu	37	chr14	90756803	90756803	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtccattatcaaagatgctgTtctcatccatggccagataa	7	10	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:90756803T>C	uc001xyi.1	-	10	2022	c.1991A>G	c.(1990-1992)AAC>AGC	p.N664S	C14orf102_uc010atp.1_Missense_Mutation_p.N169S|C14orf102_uc001xyj.1_Missense_Mutation_p.N433S|C14orf102_uc001xyk.1_5'Flank	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	664							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		AAAGATGCTGTTCTCATCCAT	0.493													5	76	---	---	---	---	PASS	C	90756803	C	C	90756803	3	2	21	1	0	0	0	0	1	0	0	0	1735	1725	60	5	1523	5	C14orf102	14	90756803	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	11580876	90756803	16592737	246	10186										
SMEK1	55671	broad.mit.edu	37	chr14	91948452	91948452	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aagatggcaattctaagcctGgcgatgacatatcatcaaaa	8	8	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:91948452G>A	uc001xzn.2	-	4	1205	c.383C>T	c.(382-384)CCA>CTA	p.P128L	SMEK1_uc001xzm.2_Missense_Mutation_p.P128L|SMEK1_uc001xzo.2_Missense_Mutation_p.P128L|SMEK1_uc010atz.2_Intron|SMEK1_uc001xzp.1_RNA|SMEK1_uc001xzq.1_Missense_Mutation_p.P4L	NM_032560	NP_115949	Q6IN85	P4R3A_HUMAN	SMEK homolog 1, suppressor of mek1	128						microtubule organizing center|nucleus	protein binding				0		all_cancers(154;0.0691)|all_epithelial(191;0.219)		COAD - Colon adenocarcinoma(157;0.221)		TTCTAAGCCTGGCGATGACAT	0.423													13	82	---	---	---	---	PASS	A	91948452	A	A	91948452	3	1	21	1	0	0	0	0	1	0	0	0	14793	1348	47	3	2127	3	SMEK1	14	91948452	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1191649	91948452	15401088	247	10187										
PPP4R4	57718	broad.mit.edu	37	chr14	94711944	94711944	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtactagatgctcttatagaTcatcttccagaaatcttgga	7	8	4	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:94711944T>G	uc001ycs.1	+	13	1519	c.1365T>G	c.(1363-1365)GAT>GAG	p.D455E		NM_058237	NP_478144	Q6NUP7	PP4R4_HUMAN	HEAT-like repeat-containing protein isoform 1	455						cytoplasm|protein serine/threonine phosphatase complex	protein binding			skin(3)|upper_aerodigestive_tract(1)	4						CTCTTATAGATCATCTTCCAG	0.308													10	54	---	---	---	---	PASS	G	94711944	G	G	94711944	3	3	21	1	0	0	0	0	1	0	0	0	12405	1432	50	5	1488	5	PPP4R4	14	94711944	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	2763492	94711944	12637596	248	10188										
PACS2	23241	broad.mit.edu	37	chr14	105857562	105857562	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aggttgtgaaggttggaattGtggagccatcctcggccaca	14	8	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr14:105857562G>T	uc001yqt.2	+	20	2225	c.2050G>T	c.(2050-2052)GTG>TTG	p.V684L	PACS2_uc001yqs.2_Missense_Mutation_p.V609L|PACS2_uc001yqv.2_Missense_Mutation_p.V688L|PACS2_uc001yqu.2_Missense_Mutation_p.V699L	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	684					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		GGTTGGAATTGTGGAGCCATC	0.622													11	39	---	---	---	---	PASS	T	105857562	T	T	105857562	3	4	21	1	0	0	0	0	1	0	0	0	11373	1377	48	3	2140	3	PACS2	14	105857562	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	11145618	105857562	1491978	249	10189										
MKRN3	7681	broad.mit.edu	37	chr15	23811490	23811490	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gaagccgagagagacaatgcAgaccgtggagctgctggagg	17	8	0	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:23811490A>C	uc001ywh.3	+	1	1037	c.561A>C	c.(559-561)GCA>GCC	p.A187A	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Silent_p.A187A	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	187						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		GAGACAATGCAGACCGTGGAG	0.612													4	46	---	---	---	---	PASS	C	23811490	C	C	23811490	2	2	21	1	0	0	0	0	0	0	0	1	9608	175	7	5		5	MKRN3	15	23811490	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08		23811490	78719902	250	10190										
UBE3A	7337	broad.mit.edu	37	chr15	25585232	25585232	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	acaagttaataattacctacCtttctgtgtctgggccattt	6	9	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:25585232C>T	uc001zaq.2	-	10	2507	c.2507G>A	c.(2506-2508)AGG>AAG	p.R836K	uc001zae.2_Intron|UBE3A_uc001zar.2_Missense_Mutation_p.R813K|UBE3A_uc001zas.2_Missense_Mutation_p.R833K|UBE3A_uc001zat.2_Missense_Mutation_p.R813K	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	836	HECT.				brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		AATTACCTACCTTTCTGTGTC	0.408													14	67	---	---	---	---	PASS	T	25585232	T	T	25585232	3	4	21	1	0	0	0	0	1	0	0	0	16876	695	24	3	128	3	UBE3A	15	25585232	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	1773742	25585232	76946160	251	10191										
GABRA5	2558	broad.mit.edu	37	chr15	27128634	27128634	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	acaacgggaagaagtccatcGctcacaacatgaccacgccc	8	15	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:27128634G>C	uc001zbd.1	+	7	766	c.427G>C	c.(427-429)GCT>CCT	p.A143P	GABRB3_uc001zbb.2_Intron	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	143	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GAAGTCCATCGCTCACAACAT	0.517													12	60	---	---	---	---	PASS	C	27128634	C	C	27128634	3	2	21	1	0	0	0	0	1	0	0	0	6164	1087	38	4	441	4	GABRA5	15	27128634	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1543402	27128634	75402758	252	10192										
C15orf23	90417	broad.mit.edu	37	chr15	40681810	40681810	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	accagaagttgactgaaactCaggtaagagacccaccagag	10	10	1	5			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:40681810C>G	uc001zll.2	+	5	704	c.589C>G	c.(589-591)CAG>GAG	p.Q197E	C15orf23_uc010ucp.1_Missense_Mutation_p.Q197E|C15orf23_uc001zlo.2_Missense_Mutation_p.Q197E|C15orf23_uc001zlm.2_RNA|C15orf23_uc001zln.2_RNA	NM_033286	NP_150628	Q9Y448	T4AF1_HUMAN	TRAF4 associated factor 1 isoform a	197	Potential.					nucleus	protein binding			ovary(1)|skin(1)	2		all_cancers(109;2.34e-14)|all_epithelial(112;9.21e-12)|Lung NSC(122;2.95e-09)|all_lung(180;6.03e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.39e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0798)		GACTGAAACTCAGGTAAGAGA	0.502													7	25	---	---	---	---	PASS	G	40681810	G	G	40681810	3	3	21	1	0	0	0	0	1	0	0	0	1785	827	29	2	607	2	C15orf23	15	40681810	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	13553176	40681810	61849582	253	10193										
TGM5	9333	broad.mit.edu	37	chr15	43531095	43531095	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgctgataaaattgccaacaGaactcgtgtcctggtgaagc	10	9	0	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:43531095G>T	uc001zrd.1	-	9	1273	c.1265C>A	c.(1264-1266)TCT>TAT	p.S422Y	TGM5_uc001zrc.1_Missense_Mutation_p.S79Y|TGM5_uc001zre.1_Missense_Mutation_p.S340Y	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	422					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	ATTGCCAACAGAACTCGTGTC	0.498													11	49	---	---	---	---	PASS	T	43531095	T	T	43531095	3	4	21	1	0	0	0	0	1	0	0	0	15830	942	33	2	917	2	TGM5	15	43531095	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	2849285	43531095	59000297	254	10194										
HDC	3067	broad.mit.edu	37	chr15	50545843	50545843	+	Silent	SNP	G	T	T													0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcaaatgcacagaccccagtGgtccctagtgttgcacagac							TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:50545843G>T	uc001zxz.2	-	7	847	c.741C>A	c.(739-741)ACC>ACA	p.T247T	HDC_uc001zxy.2_5'Flank|HDC_uc010uff.1_Silent_p.T247T|HDC_uc010bet.1_Silent_p.T168T	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	247					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	AGACCCCAGTGGTCCCTAGTG	0.483													6	126	---	---	---	---	PASS	T	50545843	T	T	50545843	2	4	21	1	0	0	0	0	0	0	0	1	7015	1335	47	3		3	HDC	15	50545843	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	7014748	50545843	51985549	255	10195	293	2								
HDC	3067	broad.mit.edu	37	chr15	50545844	50545844	+	Missense_Mutation	SNP	G	T	T													0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	caaatgcacagaccccagtgGtccctagtgttgcacagacc							TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:50545844G>T	uc001zxz.2	-	7	846	c.740C>A	c.(739-741)ACC>AAC	p.T247N	HDC_uc001zxy.2_5'Flank|HDC_uc010uff.1_Missense_Mutation_p.T247N|HDC_uc010bet.1_Missense_Mutation_p.T168N	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	247					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	GACCCCAGTGGTCCCTAGTGT	0.488													6	123	---	---	---	---	PASS	T	50545844	T	T	50545844	3	4	21	1	0	0	0	0	1	0	0	0	7015	1261	44	3	1272	3	HDC	15	50545844	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1	50545844	51985548	256	10196	293	2								
SLTM	79811	broad.mit.edu	37	chr15	59224609	59224609	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agttgaaacagttaattcaaTattatctggatcgcctcctt	6	8	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:59224609T>C	uc002afp.2	-	2	284	c.196A>G	c.(196-198)ATT>GTT	p.I66V	SLTM_uc002afo.2_Missense_Mutation_p.I66V|SLTM_uc002afq.2_Translation_Start_Site|SLTM_uc010bgd.2_Intron|SLTM_uc002afr.1_Missense_Mutation_p.I66V	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	66					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						GTTAATTCAATATTATCTGGA	0.294													9	81	---	---	---	---	PASS	C	59224609	C	C	59224609	3	2	21	1	0	0	0	0	1	0	0	0	14754	1406	49	5	2988	5	SLTM	15	59224609	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	8678765	59224609	43306783	257	10197										
CILP	8483	broad.mit.edu	37	chr15	65489148	65489148	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cctggcgctggccacccctgCtcgctcgctgctgcctcctc	10	21	0	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:65489148C>T	uc002aon.2	-	9	3657	c.3476G>A	c.(3475-3477)AGC>AAC	p.S1159N		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	1159					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						GCCACCCCTGCTCGCTCGCTG	0.607													13	55	---	---	---	---	PASS	T	65489148	T	T	65489148	3	4	21	1	0	0	0	0	1	0	0	0	3429	797	28	3	82	3	CILP	15	65489148	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	6264539	65489148	37042244	258	10198										
HCN4	10021	broad.mit.edu	37	chr15	73624626	73624626	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tggccaggtcgtaggtcatgTggaagatctgccagcagagg	16	8	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:73624626T>A	uc002avp.2	-	3	2211	c.1217A>T	c.(1216-1218)CAC>CTC	p.H406L		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	406	Cytoplasmic (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		GTAGGTCATGTGGAAGATCTG	0.627													7	58	---	---	---	---	PASS	A	73624626	A	A	73624626	3	1	21	1	0	0	0	0	1	0	0	0	6999	1696	59	5	2418	5	HCN4	15	73624626	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	8135478	73624626	28906766	259	10199										
CCDC33	80125	broad.mit.edu	37	chr15	74559107	74559107	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tacctgcgtgtcttccacccCtaccactttgagctggtgaa	8	14	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:74559107C>T	uc002axo.2	+	4	802	c.408C>T	c.(406-408)CCC>CCT	p.P136P	CCDC33_uc002axp.2_5'UTR	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	339							protein binding			ovary(3)|skin(2)	5						TCTTCCACCCCTACCACTTTG	0.532													22	126	---	---	---	---	PASS	T	74559107	T	T	74559107	2	4	21	1	0	0	0	0	0	0	0	1	2806	668	24	3		3	CCDC33	15	74559107	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	934481	74559107	27972285	260	10200										
CRABP1	1381	broad.mit.edu	37	chr15	78640281	78640281	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctctgcagacgtttggcgccGatgacgtggtctgcaccaga	13	12	2	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:78640281G>A	uc002bdp.2	+	4	481	c.376G>A	c.(376-378)GAT>AAT	p.D126N		NM_004378	NP_004369	P29762	RABP1_HUMAN	cellular retinoic acid binding protein 1	126					multicellular organismal development|signal transduction	cytoplasm	retinal binding|retinol binding|transporter activity				0					Alitretinoin(DB00523)|Etretinate(DB00926)	GTTTGGCGCCGATGACGTGGT	0.468													14	79	---	---	---	---	PASS	A	78640281	A	A	78640281	3	1	21	1	0	0	0	0	1	0	0	0	3843	1058	37	2	390	2	CRABP1	15	78640281	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	4081174	78640281	23891111	261	10201										
CHRNA5	1138	broad.mit.edu	37	chr15	78879022	78879022	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttaatgacaacaaacgtctgGttgaaacaggtatgtgtgta	10	5	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:78879022G>T	uc002bdy.2	+	3	456	c.294G>T	c.(292-294)TGG>TGT	p.W98C	CHRNA5_uc002bdz.2_Missense_Mutation_p.W98C	NM_000745	NP_000736	P30532	ACHA5_HUMAN	cholinergic receptor, nicotinic, alpha 5	98	Extracellular (Potential).				behavioral response to nicotine	cell junction|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3						CAAACGTCTGGTTGAAACAGG	0.274													18	162	---	---	---	---	PASS	T	78879022	T	T	78879022	3	4	21	1	0	0	0	0	1	0	0	0	3386	1270	44	3	304	3	CHRNA5	15	78879022	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	238741	78879022	23652370	262	10202										
AEN	64782	broad.mit.edu	37	chr15	89172627	89172627	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cgggtctctctaaaggacctGgccctgcagctgctgcacaa	11	14	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr15:89172627G>T	uc002bmt.2	+	3	862	c.711G>T	c.(709-711)CTG>CTT	p.L237L	AEN_uc010bnm.1_Silent_p.L237L	NM_022767	NP_073604	Q8WTP8	AEN_HUMAN	interferon stimulated exonuclease gene	237	Exonuclease.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|response to ionizing radiation	nucleolus|nucleoplasm	exonuclease activity|nucleic acid binding				0						TAAAGGACCTGGCCCTGCAGC	0.652													8	109	---	---	---	---	PASS	T	89172627	T	T	89172627	2	4	21	1	0	0	0	0	0	0	0	1	351	1335	47	3		3	AEN	15	89172627	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	10293605	89172627	13358765	263	10203										
CACNA1H	8912	broad.mit.edu	37	chr16	1250434	1250434	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cctacacgcagccgcaggccGagggggtgggcgctgcacgc	17	15	0	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr16:1250434G>A	uc002cks.2	+	7	1230	c.982G>A	c.(982-984)GAG>AAG	p.E328K	CACNA1H_uc002ckt.2_Missense_Mutation_p.E328K	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	328	Extracellular (Potential).|I.				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	GCCGCAGGCCGAGGGGGTGGG	0.667													5	22	---	---	---	---	PASS	A	1250434	A	A	1250434	3	1	21	1	0	0	0	0	1	0	0	0	2545	1059	37	2	1004	2	CACNA1H	16	1250434	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08		1250434	89104319	264	10204										
ACSM2A	123876	broad.mit.edu	37	chr16	20476943	20476943	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gaaaacagccagcaggcagcCaacgtcctctcgggagcctg	12	14	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr16:20476943C>T	uc010bwe.2	+	4	521	c.282C>T	c.(280-282)GCC>GCT	p.A94A	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Silent_p.A15A|ACSM2A_uc002dhf.3_Silent_p.A94A|ACSM2A_uc002dhg.3_Silent_p.A94A|ACSM2A_uc010vay.1_Silent_p.A15A	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	94					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						AGCAGGCAGCCAACGTCCTCT	0.602													9	62	---	---	---	---	PASS	T	20476943	T	T	20476943	2	4	21	1	0	0	0	0	0	0	0	1	183	581	21	3		3	ACSM2A	16	20476943	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	19226509	20476943	69877810	265	10205										
CMIP	80790	broad.mit.edu	37	chr16	81733360	81733360	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cctggcagaaaacaagctggGtccctgcatgctcctggcac	11	14	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr16:81733360G>A	uc002fgp.2	+	15	1781	c.1709G>A	c.(1708-1710)GGT>GAT	p.G570D	CMIP_uc002fgq.1_Missense_Mutation_p.G476D|CMIP_uc010vnq.1_Missense_Mutation_p.G383D|CMIP_uc002fgr.1_Missense_Mutation_p.G417D	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	536						cytoplasm|nucleus					0						AACAAGCTGGGTCCCTGCATG	0.602													3	17	---	---	---	---	PASS	A	81733360	A	A	81733360	3	1	21	1	0	0	0	0	1	0	0	0	3578	1261	44	3	1789	3	CMIP	16	81733360	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	61256417	81733360	8621393	266	10206										
OR1E1	8387	broad.mit.edu	37	chr17	3301392	3301392	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctccaggtctccaaataacaGgaagaagtacatttgggtca	9	9	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr17:3301392G>T	uc002fvj.1	-	1	313	c.313C>A	c.(313-315)CTG>ATG	p.L105M		NM_003553	NP_003544	P30953	OR1E1_HUMAN	olfactory receptor, family 1, subfamily E,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCAAATAACAGGAAGAAGTAC	0.542													17	49	---	---	---	---	PASS	T	3301392	T	T	3301392	3	4	21	1	0	0	0	0	1	0	0	0	10954	991	35	3	635	3	OR1E1	17	3301392	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08		3301392	77893818	267	10207										
ZNF594	84622	broad.mit.edu	37	chr17	5086129	5086129	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gattttctggtgtgtaacaaGgtgtgacctctggctaaagg	13	6	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr17:5086129G>C	uc010cla.1	-	2	1579	c.1423C>G	c.(1423-1425)CTT>GTT	p.L475V		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	475	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						TGTGTAACAAGGTGTGACCTC	0.473													23	78	---	---	---	---	PASS	C	5086129	C	C	5086129	3	2	21	1	0	0	0	0	1	0	0	0	18021	1000	35	4	1004	4	ZNF594	17	5086129	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1784737	5086129	76109081	268	10208										
TP53	7157	broad.mit.edu	37	chr17	7578442	7578442	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcatgtgctgtgactgcttgTagatggccatggcgcggacg	15	9	1	2	rs148924904		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr17:7578442T>C	uc002gim.2	-	5	682	c.488A>G	c.(487-489)TAC>TGC	p.Y163C	TP53_uc002gig.1_Missense_Mutation_p.Y163C|TP53_uc002gih.2_Missense_Mutation_p.Y163C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y31C|TP53_uc010cng.1_Missense_Mutation_p.Y31C|TP53_uc002gii.1_Missense_Mutation_p.Y31C|TP53_uc010cnh.1_Missense_Mutation_p.Y163C|TP53_uc010cni.1_Missense_Mutation_p.Y163C|TP53_uc002gij.2_Missense_Mutation_p.Y163C|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.Y70C|TP53_uc002gio.2_Missense_Mutation_p.Y31C|TP53_uc010vug.1_Missense_Mutation_p.Y124C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	163	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> F (in a sporadic cancer; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Y -> S (in sporadic cancers; somatic mutation).|Y -> N (in sporadic cancers; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Y163C(95)|p.Y163N(17)|p.Y163H(17)|p.Y163*(7)|p.0?(7)|p.Y163S(4)|p.Y163Y(3)|p.Y163fs*1(2)|p.Y163D(2)|p.Y163fs*7(2)|p.V157_C176del20(1)|p.Y163_Q165delYKQ(1)|p.P151_V173del23(1)|p.Y163fs*14(1)|p.S149fs*72(1)|p.A159_Q167delAMAIYKQSQ(1)|p.Y163fs*18(1)|p.I162_Y163delIY(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)		TGACTGCTTGTAGATGGCCAT	0.622		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)			33	82	---	---	---	---	PASS	C	7578442	C	C	7578442	3	2	21	1	0	0	0	0	1	0	0	0	16378	1638	57	5	810	5	TP53	17	7578442	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	2492313	7578442	73616768	269	10209										
MYH4	4622	broad.mit.edu	37	chr17	10356250	10356250	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgttccagagatccttcaagCtaaatttatgatgcatttta	6	7	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr17:10356250C>A	uc002gmn.2	-	25	3223	c.3112_splice	c.e25-1	p.L1038_splice	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle						muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						ATCCTTCAAGCTAAATTTATG	0.348													26	112	---	---	---	---	PASS	A	10356250	A	A	10356250	5	1	21	1	0	0	0	0	0	0	1	0	10037	811	28	3	2772	3	MYH4	17	10356250	Splice_Site	SNP	C	TCGA-21-1076-01A-02D-1521-08	2777808	10356250	70838960	270	10210										
DNAH9	1770	broad.mit.edu	37	chr17	11672439	11672439	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttattgtgctcccattccagGcgtgtttggtgcacacgagt	11	10	0	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr17:11672439G>T	uc002gne.2	+	38	7413	c.7345G>T	c.(7345-7347)GCG>TCG	p.A2449S	DNAH9_uc010coo.2_Missense_Mutation_p.A1743S	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2449	AAA 3 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CCCATTCCAGGCGTGTTTGGT	0.597													22	85	---	---	---	---	PASS	T	11672439	T	T	11672439	3	4	21	1	0	0	0	0	1	0	0	0	4608	1217	42	3	7495	3	DNAH9	17	11672439	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1316189	11672439	69522771	271	10211										
TEKT3	64518	broad.mit.edu	37	chr17	15222447	15222447	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttcattctttcttgacaacaCagaatagtatcaacttccta	3	10	4	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr17:15222447C>A	uc002gon.2	-	5	868	c.681G>T	c.(679-681)CTG>CTT	p.L227L		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	227					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		CTTGACAACACAGAATAGTAT	0.294													4	47	---	---	---	---	PASS	A	15222447	A	A	15222447	2	1	21	1	0	0	0	0	0	0	0	1	15751	465	17	3		3	TEKT3	17	15222447	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	3550008	15222447	65972763	272	10212										
CCDC144A	9720	broad.mit.edu	37	chr17	16612188	16612188	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	atccagtacttcctcatgtgCaaaaatctgaggaaatgtgg	9	8	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr17:16612188C>T	uc002gqk.1	+	5	893	c.817C>T	c.(817-819)CAA>TAA	p.Q273*	CCDC144A_uc002gql.1_Intron|LOC162632_uc010cpj.1_5'Flank	NM_014695	NP_055510	A2RUR9	C144A_HUMAN	coiled-coil domain containing 144A	273											0						TCCTCATGTGCAAAAATCTGA	0.368													8	43	---	---	---	---	PASS	T	16612188	T	T	16612188	4	4	21	1	0	0	0	0	0	1	0	0	2777	711	25	3	835	3	CCDC144A	17	16612188	Nonsense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	1389741	16612188	64583022	273	10213										
LGALS9C	654346	broad.mit.edu	37	chr17	18395776	18395776	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ccgtccttctgacagccgatGcctttcatcaccaccattcc	5	18	3	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr17:18395776G>T	uc002gtw.2	+	9	748	c.678G>T	c.(676-678)ATG>ATT	p.M226I	LGALS9C_uc010vyb.1_Missense_Mutation_p.M138I	NM_001040078	NP_001035167	Q6DKI2	LEG9C_HUMAN	galectin 9 like	226							sugar binding			ovary(1)	1						GACAGCCGATGCCTTTCATCA	0.572													9	76	---	---	---	---	PASS	T	18395776	T	T	18395776	3	4	21	1	0	0	0	0	1	0	0	0	8750	1319	46	3	712	3	LGALS9C	17	18395776	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1783588	18395776	62799434	274	10214										
HEATR6	63897	broad.mit.edu	37	chr17	58151157	58151157	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cagagctgccagggcttgaaGaatttccctgtgtgtccagg	13	10	0	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr17:58151157G>C	uc002iyk.1	-	3	435	c.418C>G	c.(418-420)CTT>GTT	p.L140V	HEATR6_uc010wos.1_5'Flank	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	140							binding			ovary(1)|skin(1)	2	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			AGGGCTTGAAGAATTTCCCTG	0.383													12	78	---	---	---	---	PASS	C	58151157	C	C	58151157	3	2	21	1	0	0	0	0	1	0	0	0	7033	942	33	2	3199	2	HEATR6	17	58151157	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	39755381	58151157	23044053	275	10215										
HELZ	9931	broad.mit.edu	37	chr17	65145983	65145983	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gcaactcagagggcacttacCtgcatgtgatcaccagccaa	9	13	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr17:65145983C>A	uc010wqk.1	-	19	2665	c.2478G>T	c.(2476-2478)CAG>CAT	p.Q826H	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.Q825H	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					GGGCACTTACCTGCATGTGAT	0.383													16	64	---	---	---	---	PASS	A	65145983	A	A	65145983	3	1	21	1	0	0	0	0	1	0	0	0	7049	695	24	3	3413	3	HELZ	17	65145983	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	6994826	65145983	16049227	276	10216										
SDK2	54549	broad.mit.edu	37	chr17	71391492	71391492	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtacttgatcttatagcccaCggactcagggttcccattgt	9	11	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr17:71391492C>A	uc010dfm.2	-	25	3394	c.3394G>T	c.(3394-3396)GTG>TTG	p.V1132L	SDK2_uc002jjt.3_Missense_Mutation_p.V291L|SDK2_uc010dfn.2_Missense_Mutation_p.V811L	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1132	Extracellular (Potential).|Fibronectin type-III 6.				cell adhesion	integral to membrane				ovary(2)	2						TTATAGCCCACGGACTCAGGG	0.622													8	48	---	---	---	---	PASS	A	71391492	A	A	71391492	3	1	21	1	0	0	0	0	1	0	0	0	13969	536	19	1	3208	1	SDK2	17	71391492	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	6245509	71391492	9803718	277	10217										
CD300E	342510	broad.mit.edu	37	chr17	72613559	72613559	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	accacactgtcagagagtccCccgcagtgccagtcacagag	10	15	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr17:72613559C>A	uc002jlb.1	-	2	127	c.86G>T	c.(85-87)GGG>GTG	p.G29V		NM_181449	NP_852114	Q496F6	CLM2_HUMAN	CD300e molecule precursor	29	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						CAGAGAGTCCCCCGCAGTGCC	0.552													12	33	---	---	---	---	PASS	A	72613559	A	A	72613559	3	1	21	1	0	0	0	0	1	0	0	0	2998	623	22	3	543	3	CD300E	17	72613559	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	1222067	72613559	8581651	278	10218										
DTNA	1837	broad.mit.edu	37	chr18	32428337	32428337	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggcaaggctggcagcagagtCctcttcgtctgtaagtagtt	13	9	2	1	rs147541731		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr18:32428337C>A	uc010dmn.1	+	13	1344	c.1343C>A	c.(1342-1344)TCC>TAC	p.S448Y	DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Missense_Mutation_p.S391Y|DTNA_uc002kxw.2_Missense_Mutation_p.S391Y|DTNA_uc010dmj.2_Missense_Mutation_p.S388Y|DTNA_uc002kxz.2_Missense_Mutation_p.S388Y|DTNA_uc002kxy.2_Missense_Mutation_p.S388Y|DTNA_uc010dml.2_Missense_Mutation_p.S388Y|DTNA_uc002kyb.3_Missense_Mutation_p.S445Y|DTNA_uc010dmm.2_Missense_Mutation_p.S448Y|DTNA_uc010xby.1_Missense_Mutation_p.S138Y|DTNA_uc010dmo.2_Missense_Mutation_p.S70Y|DTNA_uc002kyd.3_Missense_Mutation_p.S70Y|DTNA_uc010xbz.1_Missense_Mutation_p.S157Y|DTNA_uc010xca.1_Missense_Mutation_p.S100Y|DTNA_uc002kye.2_Missense_Mutation_p.S96Y	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	448	Syntrophin-binding region.				neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						GCAGCAGAGTCCTCTTCGTCT	0.433													7	47	---	---	---	---	PASS	A	32428337	A	A	32428337	3	1	21	1	0	0	0	0	1	0	0	0	4788	855	30	2	1428	2	DTNA	18	32428337	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08		32428337	45648911	279	10219										
MOCOS	55034	broad.mit.edu	37	chr18	33800110	33800110	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtttgcctgagtcagaagcaGgaaccccggctctgcctgat	12	12	2	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr18:33800110G>A	uc002kzq.3	+	9	1913	c.1890G>A	c.(1888-1890)CAG>CAA	p.Q630Q		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	630					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GTCAGAAGCAGGAACCCCGGC	0.512													13	87	---	---	---	---	PASS	A	33800110	A	A	33800110	2	1	21	1	0	0	0	0	0	0	0	1	9689	991	35	3		3	MOCOS	18	33800110	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	1371773	33800110	44277138	280	10220										
ADNP2	22850	broad.mit.edu	37	chr18	77895149	77895149	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gattccaacctacacgctggCccccgtgtctgtcactctgc	8	17	3	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr18:77895149C>T	uc002lnw.2	+	4	2308	c.1853C>T	c.(1852-1854)GCC>GTC	p.A618V		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	618					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		TACACGCTGGCCCCCGTGTCT	0.602													12	66	---	---	---	---	PASS	T	77895149	T	T	77895149	3	4	21	1	0	0	0	0	1	0	0	0	324	739	26	3	1863	3	ADNP2	18	77895149	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	44095039	77895149	182099	281	10221										
ZNF554	115196	broad.mit.edu	37	chr19	2832368	2832368	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctttccccagcacaaacctcAcaagtcactagtctttcctc	3	17	3	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:2832368A>T	uc002lwm.2	+	4	519	c.321A>T	c.(319-321)TCA>TCT	p.S107S	ZNF554_uc002lwl.2_Silent_p.S56S	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	107	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACAAACCTCACAAGTCACTA	0.453													27	151	---	---	---	---	PASS	T	2832368	T	T	2832368	2	4	21	1	0	0	0	0	0	0	0	1	17982	146	6	5		5	ZNF554	19	2832368	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08		2832368	56296615	282	10222										
KDM4B	23030	broad.mit.edu	37	chr19	5077390	5077390	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggccctaggcttcttccccgGgagctcgcagggctgcgacg	15	15	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:5077390G>T	uc002mbq.3	+	8	915	c.689G>T	c.(688-690)GGG>GTG	p.G230V	KDM4B_uc010xil.1_Missense_Mutation_p.G230V|KDM4B_uc010xim.1_Missense_Mutation_p.G230V|KDM4B_uc002mbr.3_5'UTR	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	230	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						TTCTTCCCCGGGAGCTCGCAG	0.642													49	354	---	---	---	---	PASS	T	5077390	T	T	5077390	3	4	21	1	0	0	0	0	1	0	0	0	8129	1232	43	3	711	3	KDM4B	19	5077390	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	2245022	5077390	54051593	283	10223										
EMR1	2015	broad.mit.edu	37	chr19	6937277	6937277	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	actgaccttcaaggcctttgCccagctcttcatcctgggct	8	15	3	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:6937277C>A	uc002mfw.2	+	19	2443	c.2405C>A	c.(2404-2406)GCC>GAC	p.A802D	EMR1_uc010dvc.2_Missense_Mutation_p.A737D|EMR1_uc010dvb.2_Missense_Mutation_p.A783D|EMR1_uc010xji.1_Missense_Mutation_p.A661D|EMR1_uc010xjj.1_Missense_Mutation_p.A625D	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	802	Helical; Name=6; (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					AAGGCCTTTGCCCAGCTCTTC	0.542													31	158	---	---	---	---	PASS	A	6937277	A	A	6937277	3	1	21	1	0	0	0	0	1	0	0	0	5104	739	26	3	2479	3	EMR1	19	6937277	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	1859887	6937277	52191706	284	10224										
ICAM3	3385	broad.mit.edu	37	chr19	10444585	10444585	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cttctgtcggctgcatagacGtgaggggcagataggtgctc	15	9	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:10444585G>T	uc002mob.2	-	7	1647	c.1592C>A	c.(1591-1593)ACG>AAG	p.T531K	RAVER1_uc002moa.2_5'Flank|ICAM3_uc010dxd.1_Missense_Mutation_p.T454K	NM_002162	NP_002153	P32942	ICAM3_HUMAN	intercellular adhesion molecule 3 precursor	531	Cytoplasmic (Potential).				cell-cell adhesion|regulation of immune response	integral to plasma membrane	integrin binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;6.13e-09)|Epithelial(33;9.69e-06)|all cancers(31;2.05e-05)			CTGCATAGACGTGAGGGGCAG	0.587													27	203	---	---	---	---	PASS	T	10444585	T	T	10444585	3	4	21	1	0	0	0	0	1	0	0	0	7481	1145	40	1	55	1	ICAM3	19	10444585	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	3507308	10444585	48684398	285	10225										
SMARCA4	6597	broad.mit.edu	37	chr19	11118656	11118656	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agaagaagattccagatccaGacagcgatgacgtctctgag	11	9	1	7			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:11118656G>T	uc002mqf.3	+	14	2364	c.2080G>T	c.(2080-2082)GAC>TAC	p.D694Y	SMARCA4_uc010dxp.2_Missense_Mutation_p.D694Y|SMARCA4_uc010dxo.2_Missense_Mutation_p.D694Y|SMARCA4_uc002mqg.1_Missense_Mutation_p.D694Y|SMARCA4_uc010dxq.2_Missense_Mutation_p.D694Y|SMARCA4_uc010dxr.2_Missense_Mutation_p.D694Y|SMARCA4_uc002mqj.3_Missense_Mutation_p.D694Y|SMARCA4_uc010dxs.2_Missense_Mutation_p.D694Y	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	694					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				TCCAGATCCAGACAGCGATGA	0.597			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				6	57	---	---	---	---	PASS	T	11118656	T	T	11118656	3	4	21	1	0	0	0	0	1	0	0	0	14770	942	33	2	2130	2	SMARCA4	19	11118656	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	674071	11118656	48010327	286	10226										
MAN2B1	4125	broad.mit.edu	37	chr19	12769297	12769297	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	acaagcgggggtggagtagaGaacatggacactgcttcctt	14	8	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:12769297G>C	uc002mub.2	-	8	1130	c.1054C>G	c.(1054-1056)CTC>GTC	p.L352V	MAN2B1_uc010dyv.1_Missense_Mutation_p.L351V	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	352					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						GTGGAGTAGAGAACATGGACA	0.617													3	57	---	---	---	---	PASS	C	12769297	C	C	12769297	3	2	21	1	0	0	0	0	1	0	0	0	9216	942	33	2	2049	2	MAN2B1	19	12769297	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1650641	12769297	46359686	287	10227										
NWD1	284434	broad.mit.edu	37	chr19	16910890	16910890	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tctggaccgcaccggcctcaCcgcagtgtcccacaatggaa	10	16	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:16910890C>G	uc002neu.3	+	17	4075	c.3653C>G	c.(3652-3654)ACC>AGC	p.T1218S	NWD1_uc002net.3_Missense_Mutation_p.T1083S|NWD1_uc002nev.3_Missense_Mutation_p.T1012S			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1218	WD 10.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						ACCGGCCTCACCGCAGTGTCC	0.522													23	99	---	---	---	---	PASS	G	16910890	G	G	16910890	3	3	21	1	0	0	0	0	1	0	0	0	10781	507	18	4	3298	4	NWD1	19	16910890	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	4141593	16910890	42218093	288	10228										
ZNF208	7757	broad.mit.edu	37	chr19	22154987	22154987	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	atgacttataggctttgccaCatgcttcacatttgtagaat	7	8	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:22154987C>A	uc002nqp.2	-	5	2698	c.2549G>T	c.(2548-2550)TGT>TTT	p.C850F	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GGCTTTGCCACATGCTTCACA	0.363													9	27	---	---	---	---	PASS	A	22154987	A	A	22154987	3	1	21	1	0	0	0	0	1	0	0	0	17763	478	17	3	997	3	ZNF208	19	22154987	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	5244097	22154987	36973996	289	10229										
TSHZ3	57616	broad.mit.edu	37	chr19	31769875	31769875	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggccacagtacatgcacttcAgcaccttctgggcgtcttcc	9	15	3	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:31769875A>G	uc002nsy.3	-	2	889	c.824T>C	c.(823-825)CTG>CCG	p.L275P		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	275	C2H2-type 2.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CATGCACTTCAGCACCTTCTG	0.507													23	401	---	---	---	---	PASS	G	31769875	G	G	31769875	3	3	21	1	0	0	0	0	1	0	0	0	16622	188	7	5	2425	5	TSHZ3	19	31769875	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	9614888	31769875	27359108	290	10230										
DPY19L3	147991	broad.mit.edu	37	chr19	32971316	32971316	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tttttgaaggtttatcagatAtatgccaagagggcaccaga	10	6	1	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:32971316A>G	uc002ntg.2	+	18	2018	c.1842A>G	c.(1840-1842)ATA>ATG	p.I614M	DPY19L3_uc002nth.1_Missense_Mutation_p.I614M|DPY19L3_uc002nti.1_RNA|DPY19L3_uc002ntj.1_Missense_Mutation_p.I36M	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	614						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					TTTATCAGATATATGCCAAGA	0.483													5	113	---	---	---	---	PASS	G	32971316	G	G	32971316	3	3	21	1	0	0	0	0	1	0	0	0	4742	439	16	5	1908	5	DPY19L3	19	32971316	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	1201441	32971316	26157667	291	10231										
ANKRD27	84079	broad.mit.edu	37	chr19	33132955	33132955	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tggcttggagactgtgtaatGagctgcaccacttttcgcaa	11	9	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:33132955G>C	uc002ntn.1	-	10	1035	c.879C>G	c.(877-879)CTC>CTG	p.L293L	ANKRD27_uc002nto.1_Silent_p.L293L	NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	293	VPS9.				early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					ACTGTGTAATGAGCTGCACCA	0.498													11	340	---	---	---	---	PASS	C	33132955	C	C	33132955	2	2	21	1	0	0	0	0	0	0	0	1	655	1277	45	2		2	ANKRD27	19	33132955	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	161639	33132955	25996028	292	10232										
ZNF383	163087	broad.mit.edu	37	chr19	37734025	37734025	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agcctttactaagagctcacAactttttcagcatgcacgaa	6	11	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:37734025A>T	uc002oft.1	+	8	1467	c.887A>T	c.(886-888)CAA>CTA	p.Q296L	ZNF383_uc002ofs.1_Missense_Mutation_p.Q231L|ZNF383_uc002ofu.1_Missense_Mutation_p.Q296L	NM_152604	NP_689817	Q8NA42	ZN383_HUMAN	zinc finger protein 383	296	C2H2-type 5.				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)			AAGAGCTCACAACTTTTTCAG	0.388													14	66	---	---	---	---	PASS	T	37734025	T	T	37734025	3	4	21	1	0	0	0	0	1	0	0	0	17871	130	5	5	901	5	ZNF383	19	37734025	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	4601070	37734025	21394958	293	10233										
PSG2	5670	broad.mit.edu	37	chr19	43576011	43576011	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aattgtccaagaatactgtgCcggtgggttagagttcgcga	13	7	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:43576011C>A	uc002ovr.2	-	4	898	c.805G>T	c.(805-807)GCA>TCA	p.A269S	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.A269S|PSG2_uc010eiq.1_Missense_Mutation_p.A269S|PSG2_uc002ovs.3_Missense_Mutation_p.A269S|PSG2_uc002ovt.3_Missense_Mutation_p.A269S	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	269	Ig-like C2-type 2.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				GAATACTGTGCCGGTGGGTTA	0.453													151	149	---	---	---	---	PASS	A	43576011	A	A	43576011	3	1	21	1	0	0	0	0	1	0	0	0	12655	739	26	3	210	3	PSG2	19	43576011	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	5841986	43576011	15552972	294	10234										
ZNF222	7673	broad.mit.edu	37	chr19	44536384	44536384	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	taaggaatttagtcagagctCacgtctgcaaactcatcaaa	7	9	5	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:44536384C>T	uc002oyc.2	+	4	740	c.557C>T	c.(556-558)TCA>TTA	p.S186L	ZNF284_uc010ejd.2_Intron|ZNF222_uc002oye.2_Missense_Mutation_p.S226L|ZNF222_uc002oyd.2_Missense_Mutation_p.S132L	NM_013360	NP_037492	Q9UK12	ZN222_HUMAN	zinc finger protein 222 isoform 2	186	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Prostate(69;0.0435)				AGTCAGAGCTCACGTCTGCAA	0.433													15	246	---	---	---	---	PASS	T	44536384	T	T	44536384	3	4	21	1	0	0	0	0	1	0	0	0	17773	838	29	2	710	2	ZNF222	19	44536384	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	960373	44536384	14592599	295	10235										
ZFP112	7771	broad.mit.edu	37	chr19	44844670	44844670	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctcctcagtgaagaccacagCaacatccttgaatgtcacca	6	14	2	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:44844670C>T	uc010ejj.2	-	3	153	c.40G>A	c.(40-42)GCT>ACT	p.A14T	ZFP112_uc002ozc.3_Missense_Mutation_p.A8T|ZFP112_uc010xwy.1_Missense_Mutation_p.A31T|ZFP112_uc010xwz.1_Missense_Mutation_p.A13T	NM_001083335	NP_001076804	Q9UJU3	ZF112_HUMAN	zinc finger protein 228 isoform 1	14	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)	5						AAGACCACAGCAACATCCTTG	0.502													86	144	---	---	---	---	PASS	T	44844670	T	T	44844670	3	4	21	1	0	0	0	0	1	0	0	0	17635	710	25	3	2713	3	ZFP112	19	44844670	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	308286	44844670	14284313	296	10236										
CEACAM20	125931	broad.mit.edu	37	chr19	45029245	45029245	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	attgagggtgagctgggctgCagctggaggactccatacgg	17	8	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:45029245C>G	uc010ejn.1	-	2	101	c.85G>C	c.(85-87)GCA>CCA	p.A29P	CEACAM20_uc010ejo.1_Missense_Mutation_p.A29P|CEACAM20_uc010ejp.1_Missense_Mutation_p.A29P|CEACAM20_uc010ejq.1_Missense_Mutation_p.A29P	NM_001102597	NP_001096067	Q6UY09	CEA20_HUMAN	carcinoembryonic antigen-related cell adhesion	29						integral to membrane				large_intestine(2)	2		Prostate(69;0.0352)				AGCTGGGCTGCAGCTGGAGGA	0.582													24	158	---	---	---	---	PASS	G	45029245	G	G	45029245	3	3	21	1	0	0	0	0	1	0	0	0	3191	710	25	4	1750	4	CEACAM20	19	45029245	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	184575	45029245	14099738	297	10237										
KLK2	3817	broad.mit.edu	37	chr19	51377982	51377982	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gcaccccctccgcaggtgccGtgcccctcatccagtctcgg	10	20	2	0	rs6072		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:51377982G>T	uc002ptv.2	+	2	93	c.52G>T	c.(52-54)GTG>TTG	p.V18L	KLK2_uc010eog.2_Intron|KLK2_uc010yck.1_Missense_Mutation_p.V18L|KLK2_uc002ptu.2_Missense_Mutation_p.V18L|KLK2_uc002ptt.2_RNA|KLK2_uc010ycl.1_5'UTR|KLK2_uc010ycm.1_Intron|KLK2_uc010eoh.2_5'Flank	NM_005551	NP_005542	P20151	KLK2_HUMAN	kallikrein 2, prostatic isoform 1	18					proteolysis		serine-type endopeptidase activity			ovary(1)|skin(1)	2		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00758)|GBM - Glioblastoma multiforme(134;0.00871)		CGCAGGTGCCGTGCCCCTCAT	0.602			T	ETV4	prostate								14	85	---	---	---	---	PASS	T	51377982	T	T	51377982	3	4	21	1	0	0	0	0	1	0	0	0	8404	1145	40	1	58	1	KLK2	19	51377982	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	6348737	51377982	7751001	298	10238										
LILRA3	11026	broad.mit.edu	37	chr19	54803681	54803681	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tctccaggctcccctgacacCtgagggtcacaggactccct	9	17	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:54803681C>G	uc002qfd.2	-	3	208	c.143G>C	c.(142-144)AGG>ACG	p.R48T	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Missense_Mutation_p.R48T	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	48	Ig-like C2-type 1.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CCCCTGACACCTGAGGGTCAC	0.552													7	121	---	---	---	---	PASS	G	54803681	G	G	54803681	3	3	21	1	0	0	0	0	1	0	0	0	8786	681	24	4	1196	4	LILRA3	19	54803681	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	3425699	54803681	4325302	299	10239										
NLRP4	147945	broad.mit.edu	37	chr19	56390285	56390285	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ccacacaggggtggttgtacTctgtgaggccctgagacacc	13	12	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:56390285T>C	uc002qmd.3	+	9	3244	c.2822T>C	c.(2821-2823)CTC>CCC	p.L941P	NLRP4_uc002qmf.2_Missense_Mutation_p.L866P|NLRP4_uc010etf.2_Missense_Mutation_p.L716P	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	941	LRR 7.						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)		GTGGTTGTACTCTGTGAGGCC	0.582													4	95	---	---	---	---	PASS	C	56390285	C	C	56390285	3	2	21	1	0	0	0	0	1	0	0	0	10479	1551	54	5	2852	5	NLRP4	19	56390285	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	1586604	56390285	2738698	300	10240										
ZIM2	23619	broad.mit.edu	37	chr19	57286711	57286711	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcgtacatattccaggagcaGtgccttcctggggatccttt	10	11	0	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr19:57286711G>C	uc002qnr.2	-	11	1311	c.929C>G	c.(928-930)ACT>AGT	p.T310S	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Missense_Mutation_p.T106S|ZIM2_uc010ygr.1_Missense_Mutation_p.T106S|ZIM2_uc002qnq.2_Missense_Mutation_p.T310S|ZIM2_uc010etp.2_Missense_Mutation_p.T310S|ZIM2_uc010ygs.1_Missense_Mutation_p.T310S	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	310					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		TCCAGGAGCAGTGCCTTCCTG	0.448													18	89	---	---	---	---	PASS	C	57286711	C	C	57286711	3	2	21	1	0	0	0	0	1	0	0	0	17681	1029	36	4	658	4	ZIM2	19	57286711	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	896426	57286711	1842272	301	10241										
SMOX	54498	broad.mit.edu	37	chr20	4163106	4163106	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgagctgatcccggcggaccAtgtgattgtgaccgtgtcgc	14	11	0	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr20:4163106A>T	uc002wkm.1	+	5	1181	c.980A>T	c.(979-981)CAT>CTT	p.H327L	SMOX_uc002wkk.1_Intron|SMOX_uc002wkl.1_Intron|SMOX_uc002wkn.1_Intron|SMOX_uc002wkp.2_Missense_Mutation_p.H327L|SMOX_uc010zqo.1_Intron|SMOX_uc002wko.1_Missense_Mutation_p.H327L	NM_175839	NP_787033	Q9NWM0	SMOX_HUMAN	spermine oxidase isoform 1	327					polyamine biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	polyamine oxidase activity			breast(1)	1					Spermine(DB00127)	CCGGCGGACCATGTGATTGTG	0.642													21	94	---	---	---	---	PASS	T	4163106	T	T	4163106	3	4	21	1	0	0	0	0	1	0	0	0	14803	217	8	5	994	5	SMOX	20	4163106	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08		4163106	58862414	302	10242										
TASP1	55617	broad.mit.edu	37	chr20	13463980	13463980	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtgcgcacaagatgctctccAcatcctagaaatccaaagaa	7	12	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr20:13463980A>G	uc002woi.2	-	11	996	c.879T>C	c.(877-879)TGT>TGC	p.C293C	TASP1_uc010zri.1_RNA|TASP1_uc002woh.2_Silent_p.C270C|TASP1_uc010zrj.1_RNA	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	293					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						GATGCTCTCCACATCCTAGAA	0.438													16	83	---	---	---	---	PASS	G	13463980	G	G	13463980	2	3	21	1	0	0	0	0	0	0	0	1	15586	157	6	5		5	TASP1	20	13463980	Silent	SNP	A	TCGA-21-1076-01A-02D-1521-08	9300874	13463980	49561540	303	10243										
CRNKL1	51340	broad.mit.edu	37	chr20	20033180	20033180	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cgtttccatggtgaccaggcTgcgcgtcctccttgcggcag	13	14	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr20:20033180T>A	uc002wrs.2	-	2	322	c.290A>T	c.(289-291)CAG>CTG	p.Q97L	C20orf26_uc010gcw.1_5'Flank|C20orf26_uc010zse.1_5'Flank|C20orf26_uc002wru.2_5'Flank|CRNKL1_uc002wrt.1_Missense_Mutation_p.Q85L	NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	97					spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						GTGACCAGGCTGCGCGTCCTC	0.642													14	39	---	---	---	---	PASS	A	20033180	A	A	20033180	3	1	21	1	0	0	0	0	1	0	0	0	3891	1580	55	5	2312	5	CRNKL1	20	20033180	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	6569200	20033180	42992340	304	10244										
DEFB116	245930	broad.mit.edu	37	chr20	29891228	29891228	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggattccaaggctctcggctCttgccattgtgggatctgaa	12	10	3	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr20:29891228C>A	uc010ztm.1	-	2	96	c.96G>T	c.(94-96)AAG>AAT	p.K32N		NM_001037731	NP_001032820	Q30KQ4	DB116_HUMAN	beta-defensin 116 precursor	32					defense response to bacterium	extracellular region					0	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			GCTCTCGGCTCTTGCCATTGT	0.453													24	137	---	---	---	---	PASS	A	29891228	A	A	29891228	3	1	21	1	0	0	0	0	1	0	0	0	4405	912	32	2	215	2	DEFB116	20	29891228	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	9858048	29891228	33134292	305	10245										
ASXL1	171023	broad.mit.edu	37	chr20	31023858	31023858	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgatgcagttgctgcagggtAgcttgcccctagagaaggtt	14	8	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr20:31023858A>G	uc002wxs.2	+	12	3769	c.3343A>G	c.(3343-3345)AGC>GGC	p.S1115G	ASXL1_uc010geb.2_Missense_Mutation_p.S1006G	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	1115					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						GCTGCAGGGTAGCTTGCCCCT	0.567			F|N|Mis		MDS|CMML								21	96	---	---	---	---	PASS	G	31023858	G	G	31023858	3	3	21	1	0	0	0	0	1	0	0	0	1066	420	15	5	3399	5	ASXL1	20	31023858	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	1132630	31023858	32001662	306	10246										
SPINLW1	57119	broad.mit.edu	37	chr20	44166708	44166708	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tctatttcttccacttcgcaTtccactttgattttgggaca	5	11	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr20:44166708T>A	uc010zxc.1	-	4	449	c.417A>T	c.(415-417)GAA>GAT	p.E139D	WFDC6_uc002xos.1_Missense_Mutation_p.E39D	NM_020398	NP_065131	O95925	EPPI_HUMAN	serine peptidase inhibitor-like, with Kunitz and	39	WAP.					extracellular region	serine-type endopeptidase inhibitor activity			pancreas(1)	1		Myeloproliferative disorder(115;0.0122)				CCACTTCGCATTCCACTTTGA	0.507													24	159	---	---	---	---	PASS	A	44166708	A	A	44166708	3	1	21	1	0	0	0	0	1	0	0	0	15066	1490	52	5		5	SPINLW1	20	44166708	Missense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	13142850	44166708	18858812	307	10247										
PREX1	57580	broad.mit.edu	37	chr20	47249075	47249075	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gcagcctcaggctggccccaCcctccaggcgggagggcagc	15	17	1	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr20:47249075C>T	uc002xtw.1	-	34	4393	c.4370G>A	c.(4369-4371)GGT>GAT	p.G1457D	PREX1_uc002xtv.1_Missense_Mutation_p.G754D	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1457					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GCTGGCCCCACCCTCCAGGCG	0.647													11	81	---	---	---	---	PASS	T	47249075	T	T	47249075	3	4	21	1	0	0	0	0	1	0	0	0	12476	507	18	3	637	3	PREX1	20	47249075	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	3082367	47249075	15776445	308	10248										
TSHZ2	128553	broad.mit.edu	37	chr20	51870385	51870385	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ataaaatgaccgctgtctacGccaacatcctgtcggattcc	7	13	1	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr20:51870385G>T	uc002xwo.2	+	2	1344	c.388G>T	c.(388-390)GCC>TCC	p.A130S		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	130					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CGCTGTCTACGCCAACATCCT	0.527													12	66	---	---	---	---	PASS	T	51870385	T	T	51870385	3	4	21	1	0	0	0	0	1	0	0	0	16621	1087	38	1	394	1	TSHZ2	20	51870385	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	4621310	51870385	11155135	309	10249										
CASS4	57091	broad.mit.edu	37	chr20	55027803	55027803	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggaccagatgcagaccatctCcaactcctaccgcatcctgc	7	17	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr20:55027803C>A	uc002xxp.2	+	6	1796	c.1571C>A	c.(1570-1572)TCC>TAC	p.S524Y	CASS4_uc002xxq.3_Missense_Mutation_p.S524Y|CASS4_uc002xxr.2_Missense_Mutation_p.S524Y|CASS4_uc010zze.1_Missense_Mutation_p.S470Y|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	524					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						CAGACCATCTCCAACTCCTAC	0.488													12	59	---	---	---	---	PASS	A	55027803	A	A	55027803	3	1	21	1	0	0	0	0	1	0	0	0	2683	855	30	2	1589	2	CASS4	20	55027803	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	3157418	55027803	7997717	310	10250										
ARFGAP1	55738	broad.mit.edu	37	chr20	61907487	61907487	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aatcctcagtgggtcagtgtGacctacggcatctggatctg	12	10	4	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr20:61907487G>A	uc002yem.2	+	3	217	c.105G>A	c.(103-105)GTG>GTA	p.V35V	ARFGAP1_uc011aas.1_Intron|ARFGAP1_uc011aat.1_5'UTR|ARFGAP1_uc002yel.2_Silent_p.V35V|ARFGAP1_uc002yen.2_Silent_p.V35V	NM_018209	NP_060679	Q8N6T3	ARFG1_HUMAN	ADP-ribosylation factor GTPase activating	35	C4-type.|Arf-GAP.				COPI coating of Golgi vesicle|protein transport|regulation of ARF GTPase activity|retrograde vesicle-mediated transport, Golgi to ER	cytosol|Golgi-associated vesicle membrane	ARF GTPase activator activity|zinc ion binding			pancreas(1)	1	all_cancers(38;1.59e-09)					GGGTCAGTGTGACCTACGGCA	0.627													43	188	---	---	---	---	PASS	A	61907487	A	A	61907487	2	1	21	1	0	0	0	0	0	0	0	1	849	1277	45	2		2	ARFGAP1	20	61907487	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	6879684	61907487	1118033	311	10251										
HIRA	7290	broad.mit.edu	37	chr22	19384472	19384472	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctcagagtagctagaatttcTgtgaagaaaaaaggaatgtg	11	4	2	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr22:19384472T>C	uc002zpf.1	-	7	714	c.494_splice	c.e7-1	p.E165_splice	HIRA_uc011agx.1_Splice_Site_p.E31_splice|HIRA_uc010grn.1_Splice_Site_p.E165_splice|HIRA_uc010gro.1_Splice_Site_p.E121_splice|HIRA_uc010grp.2_Splice_Site	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective						chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					CTAGAATTTCTGTGAAGAAAA	0.488													9	49	---	---	---	---	PASS	C	19384472	C	C	19384472	5	2	21	1	0	0	0	0	0	0	1	0	7120	1594	55	5	2637	5	HIRA	22	19384472	Splice_Site	SNP	T	TCGA-21-1076-01A-02D-1521-08		19384472	31920094	312	10252										
ASCC2	84164	broad.mit.edu	37	chr22	30198081	30198081	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tcgtagtggtagtactccagGcaggccaggatgaagccctc	13	11	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr22:30198081G>A	uc003agr.2	-	14	1575	c.1470C>T	c.(1468-1470)TGC>TGT	p.C490C	ASCC2_uc003ags.2_Intron|ASCC2_uc003agt.2_Silent_p.C490C|ASCC2_uc011akr.1_Silent_p.C414C	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	490	CUE.				regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			AGTACTCCAGGCAGGCCAGGA	0.612													11	52	---	---	---	---	PASS	A	30198081	A	A	30198081	2	1	21	1	0	0	0	0	0	0	0	1	1032	1195	42	3		3	ASCC2	22	30198081	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	10813609	30198081	21106485	313	10253										
BPIL2	254240	broad.mit.edu	37	chr22	32810391	32810391	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggatgtttcatacttcaggtCggtggaaatcaaaaggaaac	11	6	3	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr22:32810391C>A	uc003amn.2	-	15	1423	c.1423G>T	c.(1423-1425)GAC>TAC	p.D475Y	C22orf28_uc003amm.2_5'Flank|C22orf28_uc011ama.1_5'Flank|BPIL2_uc010gwo.2_Missense_Mutation_p.D232Y|BPIL2_uc011amb.1_Missense_Mutation_p.D199Y	NM_174932	NP_777592	Q8NFQ6	BPIL2_HUMAN	bactericidal/permeability-increasing	475						extracellular region	lipopolysaccharide binding|phospholipid binding			ovary(1)|skin(1)	2						TACTTCAGGTCGGTGGAAATC	0.493													7	93	---	---	---	---	PASS	A	32810391	A	A	32810391	3	1	21	1	0	0	0	0	1	0	0	0	1492	884	31	2	104	2	BPIL2	22	32810391	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	2612310	32810391	18494175	314	10254										
ENTHD1	150350	broad.mit.edu	37	chr22	40161370	40161370	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cagagtgtttctacagaggcCtggttatggaaagtagaatc	12	6	1	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr22:40161370C>A	uc003ayg.2	-	6	1328	c.1077G>T	c.(1075-1077)CAG>CAT	p.Q359H		NM_152512	NP_689725	Q8IYW4	ENTD1_HUMAN	ENTH domain containing 1	359										ovary(2)|skin(1)	3	Melanoma(58;0.0749)					CTACAGAGGCCTGGTTATGGA	0.408													17	130	---	---	---	---	PASS	A	40161370	A	A	40161370	3	1	21	1	0	0	0	0	1	0	0	0	5137	680	24	3	754	3	ENTHD1	22	40161370	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	7350979	40161370	11143196	315	10255										
PNPLA5	150379	broad.mit.edu	37	chr22	44280221	44280221	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tccctcgtacatgctttcttCagtgctgcaagagaagccct	8	13	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr22:44280221C>G	uc003beg.2	-	7	1051	c.954G>C	c.(952-954)CTG>CTC	p.L318L	PNPLA5_uc011aqc.1_Silent_p.L178L|PNPLA5_uc003beh.2_Silent_p.L204L	NM_138814	NP_620169	Q7Z6Z6	PLPL5_HUMAN	patatin-like phospholipase domain containing 5	318					lipid catabolic process		hydrolase activity				0		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				ATGCTTTCTTCAGTGCTGCAA	0.627											OREG0026622	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	131	---	---	---	---	PASS	G	44280221	G	G	44280221	2	3	21	1	0	0	0	0	0	0	0	1	12168	813	29	2		2	PNPLA5	22	44280221	Silent	SNP	C	TCGA-21-1076-01A-02D-1521-08	4118851	44280221	7024345	316	10256										
SBF1	6305	broad.mit.edu	37	chr22	50901147	50901147	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtcacccccgggctcagcttCtgcaggagccaggggagaag	15	13	3	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr22:50901147C>A	uc003blh.2	-	18	2164	c.1969_splice	c.e18-1	p.K657_splice	SBF1_uc011arx.1_Splice_Site_p.K321_splice|SBF1_uc003bli.2_Splice_Site_p.K658_splice	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1						protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		GGCTCAGCTTCTGCAGGAGCC	0.637													3	25	---	---	---	---	PASS	A	50901147	A	A	50901147	5	1	21	1	0	0	0	0	0	0	1	0	13858	927	32	2	3809	2	SBF1	22	50901147	Splice_Site	SNP	C	TCGA-21-1076-01A-02D-1521-08	6620926	50901147	403419	317	10257										
NCAPH2	29781	broad.mit.edu	37	chr22	50961585	50961585	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtgtcgttccatgctggcctCcctgcagctggtgagtagcc	13	13	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chr22:50961585C>T	uc003blr.3	+	19	1789	c.1667C>T	c.(1666-1668)TCC>TTC	p.S556F	NCAPH2_uc003blv.2_Missense_Mutation_p.S556F|NCAPH2_uc010hbb.2_Intron|NCAPH2_uc003blu.3_RNA|NCAPH2_uc003bls.3_RNA|NCAPH2_uc003blt.3_RNA|NCAPH2_uc003blw.3_RNA|NCAPH2_uc003blx.3_Missense_Mutation_p.S557F|NCAPH2_uc003bly.3_RNA	NM_152299	NP_689512	Q6IBW4	CNDH2_HUMAN	kleisin beta isoform 2	556					chromosome condensation	chromosome|nucleus				ovary(1)|skin(1)	2		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.212)		ATGCTGGCCTCCCTGCAGCTG	0.637													4	39	---	---	---	---	PASS	T	50961585	T	T	50961585	3	4	21	1	0	0	0	0	1	0	0	0	10210	855	30	2	1783	2	NCAPH2	22	50961585	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	60438	50961585	342981	318	10258										
FRMPD4	9758	broad.mit.edu	37	chrX	12736381	12736381	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtgatggctcaggacttggtCaaggggaccgcttcttaact	13	9	3	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:12736381C>G	uc004cuz.1	+	16	3942	c.3436C>G	c.(3436-3438)CAA>GAA	p.Q1146E	FRMPD4_uc011mij.1_Missense_Mutation_p.Q1138E	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	1146					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						AGGACTTGGTCAAGGGGACCG	0.537													40	345	---	---	---	---	PASS	G	12736381	G	G	12736381	3	3	21	1	0	0	0	0	1	0	0	0	6059	827	29	2	3498	2	FRMPD4	23	12736381	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08		12736381	142534179	319	10259										
GLRA2	2742	broad.mit.edu	37	chrX	14550468	14550468	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gggaaggacatcaggatatgAtgcaagaatcaggccaaatt	12	6	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:14550468A>T	uc010nep.2	+	3	508	c.176A>T	c.(175-177)GAT>GTT	p.D59V	GLRA2_uc010neq.2_Missense_Mutation_p.D59V|GLRA2_uc004cwe.3_Missense_Mutation_p.D59V|GLRA2_uc011mio.1_5'UTR|GLRA2_uc011mip.1_Missense_Mutation_p.D37V	NM_001118885	NP_001112357	P23416	GLRA2_HUMAN	glycine receptor, alpha 2 isoform A	59	Extracellular (Probable).				neuropeptide signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(1)|lung(1)	2	Hepatocellular(33;0.128)				Ethanol(DB00898)|Glycine(DB00145)	TCAGGATATGATGCAAGAATC	0.378													10	113	---	---	---	---	PASS	T	14550468	T	T	14550468	3	4	21	1	0	0	0	0	1	0	0	0	6455	333	12	5	182	5	GLRA2	23	14550468	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	1814087	14550468	140720092	320	10260										
BMX	660	broad.mit.edu	37	chrX	15526551	15526551	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aagaaaatgtcaccaaataaTtacaaagaacggctttttgt	6	6	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:15526551T>C	uc004cww.2	+	2	263	c.75T>C	c.(73-75)AAT>AAC	p.N25N	BMX_uc004cwx.3_Silent_p.N25N|BMX_uc004cwy.3_Silent_p.N25N	NM_203281	NP_975010	P51813	BMX_HUMAN	BMX non-receptor tyrosine kinase	25	PH.				cellular component disassembly involved in apoptosis|intracellular signal transduction|mesoderm development	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(3)|ovary(2)	5	Hepatocellular(33;0.183)					CACCAAATAATTACAAAGAAC	0.279													6	62	---	---	---	---	PASS	C	15526551	C	C	15526551	2	2	21	1	0	0	0	0	0	0	0	1	1473	1490	52	5		5	BMX	23	15526551	Silent	SNP	T	TCGA-21-1076-01A-02D-1521-08	976083	15526551	139744009	321	10261										
PTCHD1	139411	broad.mit.edu	37	chrX	23398078	23398078	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	cgacactgtcagactgtttcAgaaatccaacagcaaagtca	7	11	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:23398078A>T	uc004dal.3	+	2	730	c.722A>T	c.(721-723)CAG>CTG	p.Q241L	PTCHD1_uc010nfu.1_Missense_Mutation_p.Q241L	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	241					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						AGACTGTTTCAGAAATCCAAC	0.507													34	340	---	---	---	---	PASS	T	23398078	T	T	23398078	3	4	21	1	0	0	0	0	1	0	0	0	12732	188	7	5	728	5	PTCHD1	23	23398078	Missense_Mutation	SNP	A	TCGA-21-1076-01A-02D-1521-08	7871527	23398078	131872482	322	10262										
MAGEB16	139604	broad.mit.edu	37	chrX	35820883	35820883	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	atcaaactgggcctcacctaTgatgggatgctgagtggtga	13	8	2	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:35820883T>A	uc010ngt.1	+	2	849	c.570T>A	c.(568-570)TAT>TAA	p.Y190*		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	190	MAGE.									lung(3)|ovary(2)|breast(1)|skin(1)	7						GCCTCACCTATGATGGGATGC	0.532													9	91	---	---	---	---	PASS	A	35820883	A	A	35820883	4	1	21	1	0	0	0	0	0	1	0	0	9174	1471	51	5	572	5	MAGEB16	23	35820883	Nonsense_Mutation	SNP	T	TCGA-21-1076-01A-02D-1521-08	12422805	35820883	119449677	323	10263										
CYBB	1536	broad.mit.edu	37	chrX	37658245	37658245	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agaccgcagagagtttggctGtgcataatataacagtttgt	11	6	0	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:37658245G>T	uc004ddr.2	+	7	773	c.712G>T	c.(712-714)GTG>TTG	p.V238L	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Missense_Mutation_p.V206L|CYBB_uc011mkg.1_5'UTR	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	238	Extracellular (Potential).|Ferric oxidoreductase.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						GAGTTTGGCTGTGCATAATAT	0.373													5	38	---	---	---	---	PASS	T	37658245	T	T	37658245	3	4	21	1	0	0	0	0	1	0	0	0	4133	1377	48	3	738	3	CYBB	23	37658245	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	1837362	37658245	117612315	324	10264										
SRPX	8406	broad.mit.edu	37	chrX	38024093	38024093	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	acccggactgtcagtttgttGggttctgcaatgcgttcctt	11	10	2	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:38024093G>C	uc004ddy.1	-	5	668	c.582C>G	c.(580-582)CCC>CCG	p.P194P	SRPX_uc004ddz.1_Silent_p.P174P|SRPX_uc011mkh.1_Silent_p.P135P|SRPX_uc011mki.1_Silent_p.P194P	NM_006307	NP_006298	P78539	SRPX_HUMAN	sushi-repeat-containing protein, X-linked	194	HYR.				cell adhesion	cell surface|membrane					0						TCAGTTTGTTGGGTTCTGCAA	0.423													9	59	---	---	---	---	PASS	C	38024093	C	C	38024093	2	2	21	1	0	0	0	0	0	0	0	1	15163	1335	47	4		4	SRPX	23	38024093	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	365848	38024093	117246467	325	10265										
OTC	5009	broad.mit.edu	37	chrX	38229091	38229091	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agtccttaggcatgatttttGagaaaagaagtactcgaaca	9	6	0	3	rs72554338		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:38229091G>A	uc004def.3	+	3	473	c.259G>A	c.(259-261)GAG>AAG	p.E87K		NM_000531	NP_000522	P00480	OTC_HUMAN	ornithine carbamoyltransferase precursor	87			E -> K (in OTCD).		arginine biosynthetic process|urea cycle	mitochondrial matrix|ornithine carbamoyltransferase complex	ornithine carbamoyltransferase activity			ovary(1)|breast(1)	2					L-Citrulline(DB00155)|L-Ornithine(DB00129)	CATGATTTTTGAGAAAAGAAG	0.318													10	64	---	---	---	---	PASS	A	38229091	A	A	38229091	3	1	21	1	0	0	0	0	1	0	0	0	11301	1291	45	2	269	2	OTC	23	38229091	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	204998	38229091	117041469	326	10266										
AKAP4	8852	broad.mit.edu	37	chrX	49955710	49955710	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	catgacctcttgaagaagacCtcctacactgtaccccttct	5	15	2	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:49955710C>A	uc004dow.1	-	6	2582	c.2458G>T	c.(2458-2460)GGT>TGT	p.G820C	AKAP4_uc004dov.1_Missense_Mutation_p.G437C|AKAP4_uc010njp.1_Missense_Mutation_p.G642C|AKAP4_uc004dou.1_Missense_Mutation_p.G811C	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	820					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					TGAAGAAGACCTCCTACACTG	0.507													35	194	---	---	---	---	PASS	A	49955710	A	A	49955710	3	1	21	1	0	0	0	0	1	0	0	0	453	681	24	3	110	3	AKAP4	23	49955710	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	11726619	49955710	105314850	327	10267										
FAM120C	54954	broad.mit.edu	37	chrX	54107770	54107770	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	catacccctttcctggcccaCcgacagaaaccacttgcatg	6	17	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:54107770C>T	uc004dsz.3	-	14	3046	c.2963G>A	c.(2962-2964)GGT>GAT	p.G988D	FAM120C_uc011moh.1_Missense_Mutation_p.V851M	NM_017848	NP_060318	Q9NX05	F120C_HUMAN	hypothetical protein LOC54954	988										ovary(1)|central_nervous_system(1)	2						TCCTGGCCCACCGACAGAAAC	0.537													6	139	---	---	---	---	PASS	T	54107770	T	T	54107770	3	4	21	1	0	0	0	0	1	0	0	0	5418	507	18	3	339	3	FAM120C	23	54107770	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	4152060	54107770	101162790	328	10268										
ITIH5L	347365	broad.mit.edu	37	chrX	54786271	54786271	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tggattgagcctccagctttCcaaacattaactgtgtcaga	8	10	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:54786271C>T	uc004dtj.2	-	7	1023	c.993G>A	c.(991-993)TGG>TGA	p.W331*		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	331	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						CTCCAGCTTTCCAAACATTAA	0.468													15	66	---	---	---	---	PASS	T	54786271	T	T	54786271	4	4	21	1	0	0	0	0	0	1	0	0	7908	856	30	2	2976	2	ITIH5L	23	54786271	Nonsense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	678501	54786271	100484289	329	10269										
ITIH5L	347365	broad.mit.edu	37	chrX	54800576	54800576	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	aacaaaaaccacattcttctCcataggtggaaggcctctgg	8	11	3	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:54800576C>G	uc004dtj.2	-	6	871	c.841G>C	c.(841-843)GAG>CAG	p.E281Q		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	281					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						ACATTCTTCTCCATAGGTGGA	0.393													10	35	---	---	---	---	PASS	G	54800576	G	G	54800576	3	3	21	1	0	0	0	0	1	0	0	0	7908	864	30	2	3132	2	ITIH5L	23	54800576	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	14305	54800576	100469984	330	10270										
ARHGEF9	23229	broad.mit.edu	37	chrX	62974188	62974188	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gggagagataatataccaacGtcatacatatcacagcgagg	10	8	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:62974188G>T	uc004dvl.2	-	1	844	c.5C>A	c.(4-6)ACG>AAG	p.T2K	ARHGEF9_uc004dvj.1_Intron|ARHGEF9_uc004dvk.1_5'UTR|ARHGEF9_uc011mos.1_Intron|ARHGEF9_uc004dvm.1_Intron|ARHGEF9_uc011mot.1_Intron|ARHGEF9_uc004dvn.2_Intron	NM_015185	NP_056000	O43307	ARHG9_HUMAN	Cdc42 guanine exchange factor 9	2					apoptosis|induction of apoptosis by extracellular signals|ion transmembrane transport|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(5)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	8						ATATACCAACGTCATACATAT	0.418													8	56	---	---	---	---	PASS	T	62974188	T	T	62974188	3	4	21	1	0	0	0	0	1	0	0	0	912	1145	40	1	1585	1	ARHGEF9	23	62974188	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	8173612	62974188	92296372	331	10271										
MTMR8	55613	broad.mit.edu	37	chrX	63548673	63548673	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gaatgttgtagggcacagtaCtaggattgagtaccccatac	11	8	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:63548673C>A	uc004dvs.2	-	12	1528	c.1460G>T	c.(1459-1461)AGT>ATT	p.S487I	MTMR8_uc011mou.1_Intron	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	487	Myotubularin phosphatase.					nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						GGGCACAGTACTAGGATTGAG	0.453													4	47	---	---	---	---	PASS	A	63548673	A	A	63548673	3	1	21	1	0	0	0	0	1	0	0	0	9949	565	20	3	666	3	MTMR8	23	63548673	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	574485	63548673	91721887	332	10272										
ZC4H2	55906	broad.mit.edu	37	chrX	64138987	64138987	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	atcctgcttcctagccacttGgagctgttgggcggcagcgg	14	12	0	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:64138987G>T	uc004dvu.2	-	4	584	c.496C>A	c.(496-498)CAA>AAA	p.Q166K	ZC4H2_uc004dvv.2_Missense_Mutation_p.Q143K|ZC4H2_uc011mov.1_Missense_Mutation_p.Q143K|ZC4H2_uc011mow.1_Intron|ZC4H2_uc004dvw.1_3'UTR	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	166							metal ion binding|protein binding			ovary(1)	1						CTAGCCACTTGGAGCTGTTGG	0.582													12	39	---	---	---	---	PASS	T	64138987	T	T	64138987	3	4	21	1	0	0	0	0	1	0	0	0	17575	1357	47	3	205	3	ZC4H2	23	64138987	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	590314	64138987	91131573	333	10273										
OPHN1	4983	broad.mit.edu	37	chrX	67283827	67283827	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tggtccctccatcctgcagcCtagacaccaacttccccacg	6	19	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:67283827C>T	uc004dww.3	-	21	2321	c.2027G>A	c.(2026-2028)AGG>AAG	p.R676K	OPHN1_uc011mpg.1_Intron	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	676	Pro-rich.				axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						ATCCTGCAGCCTAGACACCAA	0.582													25	90	---	---	---	---	PASS	T	67283827	T	T	67283827	3	4	21	1	0	0	0	0	1	0	0	0	10875	681	24	3	397	3	OPHN1	23	67283827	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	3144840	67283827	87986733	334	10274										
NLGN3	54413	broad.mit.edu	37	chrX	70389467	70389467	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gcccaggggtcctggaacggGgaccaggatgcagggccact	17	12	0	0			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:70389467G>A	uc004dzb.2	+	7	2311	c.2007G>A	c.(2005-2007)GGG>GGA	p.G669G	NLGN3_uc004dzc.2_Silent_p.G552G|NLGN3_uc011mps.1_Silent_p.G649G|NLGN3_uc004dze.2_Silent_p.G487G	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	689	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					CCTGGAACGGGGACCAGGATG	0.617													6	71	---	---	---	---	PASS	A	70389467	A	A	70389467	2	1	21	1	0	0	0	0	0	0	0	1	10463	1219	43	3		3	NLGN3	23	70389467	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	3105640	70389467	84881093	335	10275										
ITGB1BP2	26548	broad.mit.edu	37	chrX	70524911	70524911	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gatcctgggcccagctggagCaccctgatgcactagctaag	12	13	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:70524911C>G	uc004dzr.1	+	11	942	c.913C>G	c.(913-915)CAC>GAC	p.H305D	BCYRN1_uc011mpt.1_Intron|ITGB1BP2_uc004dzs.1_Missense_Mutation_p.H287D	NM_012278	NP_036410	Q9UKP3	ITBP2_HUMAN	integrin beta 1 binding protein 2	305					muscle organ development|signal transduction		SH3 domain binding			ovary(1)	1	Renal(35;0.156)					CCAGCTGGAGCACCCTGATGC	0.527													6	67	---	---	---	---	PASS	G	70524911	G	G	70524911	3	3	21	1	0	0	0	0	1	0	0	0	7892	710	25	4	955	4	ITGB1BP2	23	70524911	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	135444	70524911	84745649	336	10276										
ERCC6L	54821	broad.mit.edu	37	chrX	71425953	71425953	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggattgcaatgacgtaaaatCtcatcatcctttagttgatc	7	8	2	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:71425953C>A	uc004eaq.1	-	2	2761	c.2664G>T	c.(2662-2664)GAG>GAT	p.E888D	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Missense_Mutation_p.E765D	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	888					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					GACGTAAAATCTCATCATCCT	0.348													5	58	---	---	---	---	PASS	A	71425953	A	A	71425953	3	1	21	1	0	0	0	0	1	0	0	0	5218	912	32	2	1092	2	ERCC6L	23	71425953	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	901042	71425953	83844607	337	10277										
MAGEE1	57692	broad.mit.edu	37	chrX	75650843	75650843	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ggcaacaactttttgatgcaGgtcctaagcttcatctttat	7	9	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:75650843G>A	uc004ecm.1	+	1	2727	c.2520G>A	c.(2518-2520)CAG>CAA	p.Q840Q		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	840	Interaction with DTNA (By similarity).|MAGE 2.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						TTTTGATGCAGGTCCTAAGCT	0.502													7	61	---	---	---	---	PASS	A	75650843	A	A	75650843	2	1	21	1	0	0	0	0	0	0	0	1	9185	991	35	3		3	MAGEE1	23	75650843	Silent	SNP	G	TCGA-21-1076-01A-02D-1521-08	4224890	75650843	79619717	338	10278										
PCDH11X	27328	broad.mit.edu	37	chrX	91132791	91132791	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ctgaattcagcctggattgtCgtacaggcatgctgactgta	11	9	1	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:91132791C>A	uc004efk.1	+	2	2397	c.1552C>A	c.(1552-1554)CGT>AGT	p.R518S	PCDH11X_uc004efl.1_Missense_Mutation_p.R518S|PCDH11X_uc004efo.1_Missense_Mutation_p.R518S|PCDH11X_uc010nmv.1_Missense_Mutation_p.R518S|PCDH11X_uc004efm.1_Missense_Mutation_p.R518S|PCDH11X_uc004efn.1_Missense_Mutation_p.R518S|PCDH11X_uc004efh.1_Missense_Mutation_p.R518S|PCDH11X_uc004efj.1_Missense_Mutation_p.R518S	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	518	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CCTGGATTGTCGTACAGGCAT	0.433													12	61	---	---	---	---	PASS	A	91132791	A	A	91132791	3	1	21	1	0	0	0	0	1	0	0	0	11508	884	31	2	1558	2	PCDH11X	23	91132791	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	15481948	91132791	64137769	339	10279										
PCDH11X	27328	broad.mit.edu	37	chrX	91133515	91133515	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agctaatgacttaggacagcCtgattctctcttcagtgttg	9	9	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:91133515C>T	uc004efk.1	+	2	3121	c.2276C>T	c.(2275-2277)CCT>CTT	p.P759L	PCDH11X_uc004efl.1_Missense_Mutation_p.P759L|PCDH11X_uc004efo.1_Missense_Mutation_p.P759L|PCDH11X_uc010nmv.1_Missense_Mutation_p.P759L|PCDH11X_uc004efm.1_Missense_Mutation_p.P759L|PCDH11X_uc004efn.1_Missense_Mutation_p.P759L|PCDH11X_uc004efh.1_Missense_Mutation_p.P759L|PCDH11X_uc004efj.1_Missense_Mutation_p.P759L	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	759	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TTAGGACAGCCTGATTCTCTC	0.418													29	110	---	---	---	---	PASS	T	91133515	T	T	91133515	3	4	21	1	0	0	0	0	1	0	0	0	11508	681	24	3	2282	3	PCDH11X	23	91133515	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	724	91133515	64137045	340	10280										
BTK	695	broad.mit.edu	37	chrX	100611771	100611771	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	tgagtttgggctataactcaCatcatgactttggcttcttc	8	9	3	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:100611771C>A	uc004ehg.2	-	14	1542	c.1349_splice	c.e14+1	p.M450_splice	BTK_uc004ehf.2_Intron|BTK_uc010nnh.2_Intron|BTK_uc010nni.2_Intron|BTK_uc004ehe.2_Splice_Site|BTK_uc010nnj.2_Splice_Site|BTK_uc010nnk.2_Intron|BTK_uc010nnl.2_Splice_Site_p.M20_splice|BTK_uc010nnm.2_Splice_Site_p.M20_splice|BTK_uc010nnn.2_Intron|BTK_uc010nno.2_Splice_Site_p.M484_splice|BTK_uc004ehh.1_Splice_Site|BTK_uc004ehi.2_Splice_Site_p.M450_splice	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase						calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						CTATAACTCACATCATGACTT	0.428									Agammaglobulinemia_X-linked				34	211	---	---	---	---	PASS	A	100611771	A	A	100611771	5	1	21	1	0	0	0	0	0	0	1	0	1557	492	17	3	653	3	BTK	23	100611771	Splice_Site	SNP	C	TCGA-21-1076-01A-02D-1521-08	9478256	100611771	54658789	341	10281										
FAM199X	139231	broad.mit.edu	37	chrX	103432834	103432834	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtgagcggtgccagtgccagCgccagcagcagcagtgccag	16	13	0	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:103432834C>A	uc004elw.2	+	5	1009	c.843C>A	c.(841-843)AGC>AGA	p.S281R	FAM199X_uc004elx.2_Missense_Mutation_p.S98R	NM_207318	NP_997201	Q6PEV8	F199X_HUMAN	hypothetical protein LOC139231	281	Ser-rich.									ovary(1)	1						CCAGTGCCAGCGCCAGCAGCA	0.567													20	190	---	---	---	---	PASS	A	103432834	A	A	103432834	3	1	21	1	0	0	0	0	1	0	0	0	5530	767	27	1	861	1	FAM199X	23	103432834	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	2821063	103432834	51837726	342	10282										
CLDN2	9075	broad.mit.edu	37	chrX	106171781	106171781	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	catgagatgcacagtcttctGccaggaatcccgagccaaag	10	12	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:106171781G>T	uc004emq.1	+	2	842	c.323G>T	c.(322-324)TGC>TTC	p.C108F	MORC4_uc004emp.3_Intron|CLDN2_uc004emt.1_Missense_Mutation_p.C108F	NM_020384	NP_065117	P57739	CLD2_HUMAN	claudin 2	108	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1						ACAGTCTTCTGCCAGGAATCC	0.547													9	145	---	---	---	---	PASS	T	106171781	T	T	106171781	3	4	21	1	0	0	0	0	1	0	0	0	3481	1319	46	3	325	3	CLDN2	23	106171781	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	2738947	106171781	49098779	343	10283										
IL13RA2	3598	broad.mit.edu	37	chrX	114238647	114238647	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttgatatggaaagtcttcatGtatcacagaaaaattctgga	8	5	4	2			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:114238647G>C	uc004epx.2	-	10	1264	c.1139C>G	c.(1138-1140)ACA>AGA	p.T380R		NM_000640	NP_000631	Q14627	I13R2_HUMAN	interleukin 13 receptor, alpha 2 precursor	380	Cytoplasmic (Potential).					extracellular space|integral to membrane|soluble fraction	cytokine receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3						AAGTCTTCATGTATCACAGAA	0.328													7	42	---	---	---	---	PASS	C	114238647	C	C	114238647	3	2	21	1	0	0	0	0	1	0	0	0	7630	1377	48	4	7	4	IL13RA2	23	114238647	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	8066866	114238647	41031913	344	10284										
PLS3	5358	broad.mit.edu	37	chrX	114880810	114880810	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agggcaagacctgaatgatgGgaaccaaaccctgactttag	11	9	0	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:114880810G>A	uc004eqd.2	+	13	1856	c.1466G>A	c.(1465-1467)GGG>GAG	p.G489E	PLS3_uc010nqg.2_Missense_Mutation_p.G271E|PLS3_uc011mtf.1_Missense_Mutation_p.G476E|PLS3_uc004eqe.2_Missense_Mutation_p.G489E|PLS3_uc011mtg.1_Missense_Mutation_p.G462E|PLS3_uc011mth.1_Missense_Mutation_p.G444E|PLS3_uc011mti.1_Missense_Mutation_p.G165E|PLS3_uc011mtj.1_Missense_Mutation_p.G83E|PLS3_uc011mtk.1_Missense_Mutation_p.G150E|PLS3_uc011mtl.1_RNA	NM_005032	NP_005023	P13797	PLST_HUMAN	plastin 3	489	Actin-binding 2.|CH 3.					cytoplasm	actin binding|calcium ion binding			lung(1)|breast(1)	2						CTGAATGATGGGAACCAAACC	0.428													7	136	---	---	---	---	PASS	A	114880810	A	A	114880810	3	1	21	1	0	0	0	0	1	0	0	0	12108	1232	43	3	1512	3	PLS3	23	114880810	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	642163	114880810	40389750	345	10285										
PGRMC1	10857	broad.mit.edu	37	chrX	118377201	118377201	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	agaaccaaaagatgagagtgCccggaaaaatgattaaagca	10	6	0	4			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:118377201C>A	uc004erb.2	+	3	688	c.572C>A	c.(571-573)GCC>GAC	p.A191D	PGRMC1_uc011mts.1_Missense_Mutation_p.A139D	NM_006667	NP_006658	O00264	PGRC1_HUMAN	progesterone receptor membrane component 1	191	Cytoplasmic (Potential).					cell surface|endoplasmic reticulum membrane|integral to membrane|microsome|nucleolus	heme binding|protein binding|receptor activity|steroid binding				0						GATGAGAGTGCCCGGAAAAAT	0.408													5	58	---	---	---	---	PASS	A	118377201	A	A	118377201	3	1	21	1	0	0	0	0	1	0	0	0	11806	739	26	3	582	3	PGRMC1	23	118377201	Missense_Mutation	SNP	C	TCGA-21-1076-01A-02D-1521-08	3496391	118377201	36893359	346	10286										
AKAP14	158798	broad.mit.edu	37	chrX	119053904	119053904	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	ttgttgtttcttatgtaggtGaccaccaagcattagttcac	8	8	2	1			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:119053904G>C	uc004ese.2	+	6	610	c.472G>C	c.(472-474)GAC>CAC	p.D158H	AKAP14_uc004esf.2_Missense_Mutation_p.D98H	NM_178813	NP_848928	Q86UN6	AKA28_HUMAN	A kinase (PRKA) anchor protein 14 isoform a	158						cytoplasm					0						TTATGTAGGTGACCACCAAGC	0.393													6	115	---	---	---	---	PASS	C	119053904	C	C	119053904	3	2	21	1	0	0	0	0	1	0	0	0	450	1290	45	2	495	2	AKAP14	23	119053904	Missense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	676703	119053904	36216656	347	10287										
HTATSF1	27336	broad.mit.edu	37	chrX	135593630	135593630	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.110787172011662	38	5.05512174029427e-05	2.0159462925247	2.70260923029628	1.57212756445283	0.843990741820936	1	19	gtctcgagaaagatttggacGaggaaggttctgaaaaggag	15	4	2	3			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	504d4cb0-d2dd-420d-82e6-9ec14434a0fc	578a4a76-b3a4-4c8e-9e54-b7ae27ac482f	g.chrX:135593630G>T	uc004ezw.2	+	10	2148	c.1726G>T	c.(1726-1728)GAG>TAG	p.E576*	HTATSF1_uc004ezx.2_Nonsense_Mutation_p.E576*	NM_001163280	NP_001156752	O43719	HTSF1_HUMAN	HIV-1 Tat specific factor 1	576	Asp/Glu-rich (acidic).|Mediates interaction with the P-TEFb complex.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|viral genome replication	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AGATTTGGACGAGGAAGGTTC	0.393													13	64	---	---	---	---	PASS	T	135593630	T	T	135593630	4	4	21	1	0	0	0	0	0	1	0	0	7433	1059	37	2	1760	2	HTATSF1	23	135593630	Nonsense_Mutation	SNP	G	TCGA-21-1076-01A-02D-1521-08	16539726	135593630	19676930	348	10288										
C1orf94	84970	broad.mit.edu	37	chr1	34663136	34663136	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cttctactgtcacagacattCtgtgtgccgccgaggtcaag	10	12	4	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:34663136C>G	uc001bxs.3	+	2	460	c.61C>G	c.(61-63)CTG>GTG	p.L21V	C1orf94_uc001bxt.2_Missense_Mutation_p.L211V	NM_032884	NP_116273	Q6P1W5	CA094_HUMAN	hypothetical protein LOC84970 isoform b	21							protein binding				0		Myeloproliferative disorder(586;0.0393)				CACAGACATTCTGTGTGCCGC	0.557													28	109	---	---	---	---	PASS	G	34663136	G	G	34663136	3	3	22	1	0	0	0	0	1	0	0	0	2071	912	32	2	637	2	C1orf94	1	34663136	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08		34663136	214587485	1	10289										
ZMYM1	79830	broad.mit.edu	37	chr1	35579681	35579681	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cattgttatgcacactttttGgatttatcaataattaggtt	6	5	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:35579681G>T	uc001bym.2	+	11	2398	c.2250G>T	c.(2248-2250)TTG>TTT	p.L750F	ZMYM1_uc001byn.2_Missense_Mutation_p.L750F|ZMYM1_uc010ohu.1_Missense_Mutation_p.L731F|ZMYM1_uc001byo.2_Missense_Mutation_p.L390F|ZMYM1_uc009vut.2_Missense_Mutation_p.L675F	NM_024772	NP_079048	Q5SVZ6	ZMYM1_HUMAN	zinc finger, MYM domain containing 1	750						nucleus	nucleic acid binding|protein dimerization activity|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CACACTTTTTGGATTTATCAA	0.303													18	80	---	---	---	---	PASS	T	35579681	T	T	35579681	3	4	22	1	0	0	0	0	1	0	0	0	17696	1339	47	3	2284	3	ZMYM1	1	35579681	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	916545	35579681	213670940	2	10290										
MACF1	23499	broad.mit.edu	37	chr1	39788297	39788297	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	taggactatgaattgcaactGatgacatacaaggcctttgt	9	7	0	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:39788297G>A	uc010ois.1	+	33	4267	c.4062G>A	c.(4060-4062)CTG>CTA	p.L1354L	MACF1_uc001cda.1_Silent_p.L1262L|MACF1_uc001cdc.1_Silent_p.L441L|MACF1_uc009vvq.1_Silent_p.L411L|MACF1_uc001cdb.1_Silent_p.L441L	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1354					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)			AATTGCAACTGATGACATACA	0.428													24	162	---	---	---	---	PASS	A	39788297	A	A	39788297	2	1	22	1	0	0	0	0	0	0	0	1	9144	1277	45	2		2	MACF1	1	39788297	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	4208616	39788297	209462324	3	10291										
INADL	10207	broad.mit.edu	37	chr1	62228771	62228771	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cgcagaatgagaagttatctAtgttttatgagacactaaag	9	5	1	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:62228771A>G	uc001dab.2	+	3	223	c.109A>G	c.(109-111)ATG>GTG	p.M37V	INADL_uc009waf.1_Missense_Mutation_p.M37V|INADL_uc001daa.2_Missense_Mutation_p.M37V	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	37	L27.				intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						GAAGTTATCTATGTTTTATGA	0.438													37	84	---	---	---	---	PASS	G	62228771	G	G	62228771	3	3	22	1	0	0	0	0	1	0	0	0	7731	449	16	5	115	5	INADL	1	62228771	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	22440474	62228771	187021850	4	10292										
ASB17	127247	broad.mit.edu	37	chr1	76387993	76387993	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cttgtctgagctacataaaaGagaggtgtgatgccacttaa	10	7	1	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:76387993G>T	uc001dhe.1	-	2	593	c.453C>A	c.(451-453)CTC>CTA	p.L151L	ASB17_uc001dhf.1_Intron	NM_080868	NP_543144	Q8WXJ9	ASB17_HUMAN	ankyrin repeat and SOCS box-containing 17	151	ANK.				intracellular signal transduction					ovary(1)	1						CTACATAAAAGAGAGGTGTGA	0.328													33	57	---	---	---	---	PASS	T	76387993	T	T	76387993	2	4	22	1	0	0	0	0	0	0	0	1	1021	929	33	2		2	ASB17	1	76387993	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	14159222	76387993	172862628	5	10293										
OLFM3	118427	broad.mit.edu	37	chr1	102312450	102312450	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgttcagtcccaccaaggatGggagagtttgggacatccag	13	9	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:102312450G>T	uc001duf.2	-	1	151	c.80C>A	c.(79-81)CCA>CAA	p.P27Q	OLFM3_uc001dug.2_Intron|OLFM3_uc001duh.2_Intron|OLFM3_uc001dui.2_Intron|OLFM3_uc001duj.2_Intron|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	27						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)		CACCAAGGATGGGAGAGTTTG	0.498													47	126	---	---	---	---	PASS	T	102312450	T	T	102312450	3	4	22	1	0	0	0	0	1	0	0	0	10854	1363	47	3		3	OLFM3	1	102312450	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	25924457	102312450	146938171	6	10294										
CD101	9398	broad.mit.edu	37	chr1	117564311	117564311	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gaaaccttcagttagccattAtttggtatttttctcctgtt	6	8	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:117564311A>T	uc010oxb.1	+	7	2192	c.2134A>T	c.(2134-2136)ATT>TTT	p.I712F	CD101_uc009whd.2_Missense_Mutation_p.I712F|CD101_uc010oxc.1_Missense_Mutation_p.I712F|CD101_uc010oxd.1_Missense_Mutation_p.I650F	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	712	Ig-like C2-type 6.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GTTAGCCATTATTTGGTATTT	0.428													40	78	---	---	---	---	PASS	T	117564311	T	T	117564311	3	4	22	1	0	0	0	0	1	0	0	0	2962	449	16	5	2160	5	CD101	1	117564311	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	15251861	117564311	131686310	7	10295										
GJA5	2702	broad.mit.edu	37	chr1	147230638	147230638	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctgccgcggtttgacaaatcGctgtctgatcttcttccagc	9	13	3	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:147230638G>A	uc001eps.1	-	2	850	c.709C>T	c.(709-711)CGA>TGA	p.R237*	GJA5_uc001ept.1_Nonsense_Mutation_p.R237*	NM_181703	NP_859054	P36382	CXA5_HUMAN	connexin 40	237	Cytoplasmic (Potential).				angiogenesis|cell-cell junction assembly|muscle contraction	integral to membrane				ovary(1)	1	all_hematologic(923;0.0276)		LUSC - Lung squamous cell carcinoma(543;0.202)			TTGACAAATCGCTGTCTGATC	0.547													17	112	---	---	---	---	PASS	A	147230638	A	A	147230638	4	1	22	1	0	0	0	0	0	1	0	0	6404	1095	38	1	371	1	GJA5	1	147230638	Nonsense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	29666327	147230638	102019983	8	10296										
HCN3	57657	broad.mit.edu	37	chr1	155255034	155255034	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gcatccacgagtactatgagCaccgctaccagggcaagatg	11	12	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:155255034C>T	uc001fjz.1	+	5	1176	c.1168C>T	c.(1168-1170)CAC>TAC	p.H390Y	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_Missense_Mutation_p.H85Y	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	390	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(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)			GTACTATGAGCACCGCTACCA	0.627													38	63	---	---	---	---	PASS	T	155255034	T	T	155255034	3	4	22	1	0	0	0	0	1	0	0	0	6998	710	25	3	1186	3	HCN3	1	155255034	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	8024396	155255034	93995587	9	10297										
TNR	7143	broad.mit.edu	37	chr1	175292529	175292529	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgccgttttctccctgccatGagacggtggttgtaggggcg	15	10	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:175292529G>A	uc001gkp.1	-	21	4122	c.4041C>T	c.(4039-4041)CTC>CTT	p.L1347L	TNR_uc009wwu.1_Silent_p.L1347L	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1347					axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TCCCTGCCATGAGACGGTGGT	0.473													26	262	---	---	---	---	PASS	A	175292529	A	A	175292529	2	1	22	1	0	0	0	0	0	0	0	1	16335	1277	45	2		2	TNR	1	175292529	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	20037495	175292529	73958092	10	10298										
RGL1	23179	broad.mit.edu	37	chr1	183857628	183857628	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gaatgtagactcctgaagaaTttttcctccttgagggccat	9	9	0	4			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:183857628T>G	uc001gqo.2	+	8	1129	c.972T>G	c.(970-972)AAT>AAG	p.N324K	RGL1_uc010pof.1_Missense_Mutation_p.N129K|RGL1_uc001gqm.2_Missense_Mutation_p.N359K|RGL1_uc010pog.1_Missense_Mutation_p.N322K|RGL1_uc010poh.1_Missense_Mutation_p.N322K|RGL1_uc010poi.1_Missense_Mutation_p.N324K	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	324	Ras-GEF.				cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						TCCTGAAGAATTTTTCCTCCT	0.418													45	531	---	---	---	---	PASS	G	183857628	G	G	183857628	3	3	22	1	0	0	0	0	1	0	0	0	13276	1490	52	5	1107	5	RGL1	1	183857628	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	8565099	183857628	65392993	11	10299										
PROX1	5629	broad.mit.edu	37	chr1	214170587	214170587	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aacagaagcgagaggagcgcCgacagctgaaacagcagctg	14	10	0	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:214170587C>T	uc001hkh.2	+	2	981	c.709C>T	c.(709-711)CGA>TGA	p.R237*	PROX1_uc001hkg.1_Nonsense_Mutation_p.R237*	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	237					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		AGAGGAGCGCCGACAGCTGAA	0.498													38	66	---	---	---	---	PASS	T	214170587	T	T	214170587	4	4	22	1	0	0	0	0	0	1	0	0	12560	644	23	1	711	1	PROX1	1	214170587	Nonsense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	30312959	214170587	35080034	12	10300										
USH2A	7399	broad.mit.edu	37	chr1	216498814	216498814	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cactctattatcagctgtgtCtcctgcatcattaggaatgc	7	11	4	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:216498814C>T	uc001hku.1	-	6	1363	c.976G>A	c.(976-978)GAC>AAC	p.D326N	USH2A_uc001hkv.2_Missense_Mutation_p.D326N	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	326	Laminin N-terminal.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TCAGCTGTGTCTCCTGCATCA	0.488										HNSCC(13;0.011)			71	154	---	---	---	---	PASS	T	216498814	T	T	216498814	3	4	22	1	0	0	0	0	1	0	0	0	17033	913	32	2	14914	2	USH2A	1	216498814	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	2328227	216498814	32751807	13	10301										
ACTN2	88	broad.mit.edu	37	chr1	236898981	236898981	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gaaagagccatcatgacgtaCgtctcttgcttctaccacgc	8	13	3	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:236898981C>T	uc001hyf.2	+	8	948	c.744C>T	c.(742-744)TAC>TAT	p.Y248Y	ACTN2_uc001hyg.2_Silent_p.Y3Y|ACTN2_uc009xgi.1_Intron|ACTN2_uc010pxu.1_Intron	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	248	CH 2.|Actin-binding.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			TCATGACGTACGTCTCTTGCT	0.522													55	74	---	---	---	---	PASS	T	236898981	T	T	236898981	2	4	22	1	0	0	0	0	0	0	0	1	205	547	19	1		1	ACTN2	1	236898981	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	20400167	236898981	12351640	14	10302										
RYR2	6262	broad.mit.edu	37	chr1	237777602	237777602	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gctcatgatgaacaacgagtAcattgtccccatgacggagg	11	10	1	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:237777602A>T	uc001hyl.1	+	37	5294	c.5174A>T	c.(5173-5175)TAC>TTC	p.Y1725F		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1725	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AACAACGAGTACATTGTCCCC	0.542													28	59	---	---	---	---	PASS	T	237777602	T	T	237777602	3	4	22	1	0	0	0	0	1	0	0	0	13769	391	14	5	5320	5	RYR2	1	237777602	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	878621	237777602	11473019	15	10303										
RYR2	6262	broad.mit.edu	37	chr1	237777665	237777665	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ccctgatgagaacaaaaaacAcggccttccagggatcggcc	10	13	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:237777665A>G	uc001hyl.1	+	37	5357	c.5237A>G	c.(5236-5238)CAC>CGC	p.H1746R		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1746	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AACAAAAAACACGGCCTTCCA	0.512													8	101	---	---	---	---	PASS	G	237777665	G	G	237777665	3	3	22	1	0	0	0	0	1	0	0	0	13769	159	6	5	5383	5	RYR2	1	237777665	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	63	237777665	11472956	16	10304										
RYR2	6262	broad.mit.edu	37	chr1	237870500	237870500	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agcacatgaacacacttctaGggaacatattgaaaatcata	6	8	2	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:237870500G>C	uc001hyl.1	+	68	9952	c.9832G>C	c.(9832-9834)GGG>CGG	p.G3278R	RYR2_uc010pxz.1_Missense_Mutation_p.G233R	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3278					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)			CACACTTCTAGGGAACATATT	0.478													4	52	---	---	---	---	PASS	C	237870500	C	C	237870500	3	2	22	1	0	0	0	0	1	0	0	0	13769	1000	35	4	10102	4	RYR2	1	237870500	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	92835	237870500	11380121	17	10305										
OR2B11	127623	broad.mit.edu	37	chr1	247615099	247615099	+	Silent	SNP	G	T	T													0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgactgaggaagatgtacatGgggctgtggagttgaggatc							TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:247615099G>T	uc010pyx.1	-	1	186	c.186C>A	c.(184-186)CCC>CCA	p.P62P		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	62	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			AGATGTACATGGGGCTGTGGA	0.572													149	168	---	---	---	---	PASS	T	247615099	T	T	247615099	2	4	22	1	0	0	0	0	0	0	0	1	10988	1335	47	3		3	OR2B11	1	247615099	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	9744599	247615099	1635522	18	10306	294	2								
OR2B11	127623	broad.mit.edu	37	chr1	247615100	247615100	+	Missense_Mutation	SNP	G	T	T													0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gactgaggaagatgtacatgGggctgtggagttgaggatcc							TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:247615100G>T	uc010pyx.1	-	1	185	c.185C>A	c.(184-186)CCC>CAC	p.P62H		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	62	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			GATGTACATGGGGCTGTGGAG	0.577													148	166	---	---	---	---	PASS	T	247615100	T	T	247615100	3	4	22	1	0	0	0	0	1	0	0	0	10988	1232	43	3	771	3	OR2B11	1	247615100	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	1	247615100	1635521	19	10307	294	2								
ZNF692	55657	broad.mit.edu	37	chr1	249152384	249152384	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gggagaagcccagccgctccTtgaggaggcaccactgctcc	13	15	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr1:249152384T>C	uc001ifc.1	-	2	292	c.125A>G	c.(124-126)AAG>AGG	p.K42R	ZNF692_uc001iez.1_5'Flank|ZNF692_uc001ifa.1_5'Flank|ZNF692_uc001ifb.1_5'UTR|ZNF692_uc001ifd.1_Missense_Mutation_p.K42R|ZNF692_uc001ife.1_RNA|ZNF692_uc001iff.1_Missense_Mutation_p.K42R|ZNF692_uc010pzr.1_Missense_Mutation_p.K47R	NM_017865	NP_060335	Q9BU19	ZN692_HUMAN	zinc finger protein 692 isoform 2	42					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			CAGCCGCTCCTTGAGGAGGCA	0.701													26	20	---	---	---	---	PASS	C	249152384	C	C	249152384	3	2	22	1	0	0	0	0	1	0	0	0	18094	1609	56	5	1478	5	ZNF692	1	249152384	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	1537284	249152384	98237	20	10308										
NBAS	51594	broad.mit.edu	37	chr2	15449304	15449304	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ggcaaacttacttgtggtaaGgcaagaaggtaagcaagagc	13	6	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:15449304G>T	uc002rcc.1	-	39	4676	c.4650C>A	c.(4648-4650)GCC>GCA	p.A1550A	NBAS_uc010exl.1_Silent_p.A622A|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1550										ovary(2)|liver(1)|skin(1)	4						CTTGTGGTAAGGCAAGAAGGT	0.358													12	84	---	---	---	---	PASS	T	15449304	T	T	15449304	2	4	22	1	0	0	0	0	0	0	0	1	10186	987	35	3		3	NBAS	2	15449304	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08		15449304	227750069	21	10309										
GEN1	348654	broad.mit.edu	37	chr2	17963069	17963069	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	atgaaacagctgaaaatgaaGaaagctgtttcccagattca	8	7	1	5			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:17963069G>T	uc002rct.2	+	14	2663	c.2590G>T	c.(2590-2592)GAA>TAA	p.E864*	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Nonsense_Mutation_p.E864*|GEN1_uc002rcu.2_Nonsense_Mutation_p.E864*	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease	864					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)					TGAAAATGAAGAAAGCTGTTT	0.363								Homologous_recombination					13	132	---	---	---	---	PASS	T	17963069	T	T	17963069	4	4	22	1	0	0	0	0	0	1	0	0	6335	943	33	2	2640	2	GEN1	2	17963069	Nonsense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	2513765	17963069	225236304	22	10310										
HADHB	3032	broad.mit.edu	37	chr2	26501540	26501540	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gtggcaggtggtgttgagttGatgtccgatgtccctattcg	15	7	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:26501540G>A	uc002rgz.2	+	8	752	c.501G>A	c.(499-501)TTG>TTA	p.L167L	HADHB_uc010ykv.1_Silent_p.L145L|HADHB_uc010ykw.1_Silent_p.L152L|HADHB_uc002rha.2_Intron|HADHB_uc010ykx.1_Silent_p.L93L	NM_000183	NP_000174	P55084	ECHB_HUMAN	mitochondrial trifunctional protein, beta	167					fatty acid beta-oxidation	mitochondrial nucleoid	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acyltransferase activity|enoyl-CoA hydratase activity|protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGTTGAGTTGATGTCCGATG	0.438													19	142	---	---	---	---	PASS	A	26501540	A	A	26501540	2	1	22	1	0	0	0	0	0	0	0	1	6944	1281	45	2		2	HADHB	2	26501540	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	8538471	26501540	216697833	23	10311										
BIRC6	57448	broad.mit.edu	37	chr2	32832622	32832622	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tcccagtggcacacagagttCtcgagaatatgatggaaaca	10	9	1	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:32832622C>T	uc010ezu.2	+	72	14305	c.14171C>T	c.(14170-14172)TCT>TTT	p.S4724F		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4724					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)					ACACAGAGTTCTCGAGAATAT	0.423													43	303	---	---	---	---	PASS	T	32832622	T	T	32832622	3	4	22	1	0	0	0	0	1	0	0	0	1438	913	32	2	14457	2	BIRC6	2	32832622	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	6331082	32832622	210366751	24	10312										
SOS1	6654	broad.mit.edu	37	chr2	39249797	39249797	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ttccagccttgggctgcatgTtctcttcaaatataatattc	6	10	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:39249797T>C	uc002rrk.3	-	10	1813	c.1772A>G	c.(1771-1773)AAC>AGC	p.N591S	SOS1_uc010ynr.1_RNA|SOS1_uc002rrj.3_Missense_Mutation_p.N205S|SOS1_uc002rrl.2_Missense_Mutation_p.N323S	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	591					apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				GGGCTGCATGTTCTCTTCAAA	0.403									Noonan_syndrome				32	266	---	---	---	---	PASS	C	39249797	C	C	39249797	3	2	22	1	0	0	0	0	1	0	0	0	14936	1725	60	5	2285	5	SOS1	2	39249797	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	6417175	39249797	203949576	25	10313										
SPTBN1	6711	broad.mit.edu	37	chr2	54893114	54893114	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gggtttctacaaagatgcaaAgactgctgcttctggaattc	10	8	2	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:54893114A>C	uc002rxu.2	+	34	6971	c.6722A>C	c.(6721-6723)AAG>ACG	p.K2241T	SPTBN1_uc010you.1_Missense_Mutation_p.K231T	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	2241	PH.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			AAAGATGCAAAGACTGCTGCT	0.433													65	418	---	---	---	---	PASS	C	54893114	C	C	54893114	3	2	22	1	0	0	0	0	1	0	0	0	15118	72	3	5	7052	5	SPTBN1	2	54893114	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	15643317	54893114	188306259	26	10314										
AFF3	3899	broad.mit.edu	37	chr2	100210203	100210203	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	caggtcacggaggagcgcagCtccttgcggtggctcgctct	15	13	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:100210203C>G	uc002tag.2	-	14	2156	c.1920G>C	c.(1918-1920)GAG>GAC	p.E640D	AFF3_uc002taf.2_Missense_Mutation_p.E665D|AFF3_uc010fiq.1_Missense_Mutation_p.E640D|AFF3_uc010yvr.1_Missense_Mutation_p.E793D|AFF3_uc002tah.1_Missense_Mutation_p.E665D	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	640					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						AGGAGCGCAGCTCCTTGCGGT	0.657													19	111	---	---	---	---	PASS	G	100210203	G	G	100210203	3	3	22	1	0	0	0	0	1	0	0	0	358	796	28	4	1804	4	AFF3	2	100210203	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	45317089	100210203	142989170	27	10315										
WDR33	55339	broad.mit.edu	37	chr2	128466368	128466368	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tagggatgccatgtccatgcCttggagagaagaggagcgtt	15	7	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:128466368C>T	uc002tpg.1	-	21	3847	c.3664G>A	c.(3664-3666)GGC>AGC	p.G1222S		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	1222					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		ATGTCCATGCCTTGGAGAGAA	0.602													21	118	---	---	---	---	PASS	T	128466368	T	T	128466368	3	4	22	1	0	0	0	0	1	0	0	0	17284	681	24	3	354	3	WDR33	2	128466368	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	28256165	128466368	114733005	28	10316										
MGAT5	4249	broad.mit.edu	37	chr2	135012094	135012094	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	atccagcagcgaactcagccTgaaagcagctccatgctgcg	10	14	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:135012094T>G	uc002ttv.1	+	1	265	c.120T>G	c.(118-120)CCT>CCG	p.P40P		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	40	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		GAACTCAGCCTGAAAGCAGCT	0.517													8	57	---	---	---	---	PASS	G	135012094	G	G	135012094	2	3	22	1	0	0	0	0	0	0	0	1	9548	1567	55	5		5	MGAT5	2	135012094	Silent	SNP	T	TCGA-21-1077-01A-01D-1521-08	6545726	135012094	108187279	29	10317										
LCT	3938	broad.mit.edu	37	chr2	136570015	136570015	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ttcctcttgtgtattccaggGatacaaactgcaacagcctc	7	12	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:136570015G>A	uc002tuu.1	-	7	2230	c.2219C>T	c.(2218-2220)TCC>TTC	p.S740F		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	740	Extracellular (Potential).|4 X approximate repeats.|2.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		GTATTCCAGGGATACAAACTG	0.498													34	169	---	---	---	---	PASS	A	136570015	A	A	136570015	3	1	22	1	0	0	0	0	1	0	0	0	8693	1174	41	2	3608	2	LCT	2	136570015	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	1557921	136570015	106629358	30	10318										
NEB	4703	broad.mit.edu	37	chr2	152512352	152512352	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ttgttcatggtatgtgcattCtgcttggcaagcaccatgtc	10	9	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:152512352C>T	uc010fnx.2	-	50	6872	c.6681G>A	c.(6679-6681)CAG>CAA	p.Q2227Q		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2227	Nebulin 59.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TATGTGCATTCTGCTTGGCAA	0.493													34	205	---	---	---	---	PASS	T	152512352	T	T	152512352	2	4	22	1	0	0	0	0	0	0	0	1	10302	912	32	2		2	NEB	2	152512352	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	15942337	152512352	90687021	31	10319										
NEB	4703	broad.mit.edu	37	chr2	152527701	152527701	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ggaaccaatagggatccatcCgatgcccttcaagaagctgt	10	11	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:152527701C>T	uc010fnx.2	-	38	4533	c.4342G>A	c.(4342-4344)GGA>AGA	p.G1448R		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1448	Nebulin 37.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GGGATCCATCCGATGCCCTTC	0.438													13	89	---	---	---	---	PASS	T	152527701	T	T	152527701	3	4	22	1	0	0	0	0	1	0	0	0	10302	661	23	1	21924	1	NEB	2	152527701	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	15349	152527701	90671672	32	10320										
BAZ2B	29994	broad.mit.edu	37	chr2	160303431	160303431	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gcagtagtggatagtacagaTgtgttgataccaattacaga	11	5	0	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:160303431T>C	uc002uao.2	-	6	910	c.558A>G	c.(556-558)ACA>ACG	p.T186T	BAZ2B_uc002uap.2_Silent_p.T184T|BAZ2B_uc002uas.1_Silent_p.T123T|BAZ2B_uc002uau.1_Silent_p.T184T|BAZ2B_uc002uaq.1_Silent_p.T114T|BAZ2B_uc002uat.3_Silent_p.T123T|BAZ2B_uc010fop.1_Silent_p.T184T	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	186	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						ATAGTACAGATGTGTTGATAC	0.303													42	154	---	---	---	---	PASS	C	160303431	C	C	160303431	2	2	22	1	0	0	0	0	0	0	0	1	1332	1451	51	5		5	BAZ2B	2	160303431	Silent	SNP	T	TCGA-21-1077-01A-01D-1521-08	7775730	160303431	82895942	33	10321										
TTC21B	79809	broad.mit.edu	37	chr2	166788360	166788360	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tcccaagttttccagcttggTggaagcctaaaacaaaagga	9	9	0	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:166788360T>A	uc002udk.2	-	8	935	c.802A>T	c.(802-804)ACC>TCC	p.T268S	TTC21B_uc002udl.2_Missense_Mutation_p.T268S|uc002udm.1_5'Flank	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	268						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TCCAGCTTGGTGGAAGCCTAA	0.368													14	75	---	---	---	---	PASS	A	166788360	A	A	166788360	3	1	22	1	0	0	0	0	1	0	0	0	16685	1696	59	5	3236	5	TTC21B	2	166788360	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	6484929	166788360	76411013	34	10322										
TTN	7273	broad.mit.edu	37	chr2	179473085	179473085	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	atgtgtactgttaacttcacGtttttcaagccagtaaccca	6	10	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:179473085G>C	uc010zfg.1	-	224	45045	c.44821C>G	c.(44821-44823)CGT>GGT	p.R14941G	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R8636G|TTN_uc010zfi.1_Missense_Mutation_p.R8569G|TTN_uc010zfj.1_Missense_Mutation_p.R8444G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15868							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)			TTAACTTCACGTTTTTCAAGC	0.408													7	34	---	---	---	---	PASS	C	179473085	C	C	179473085	3	2	22	1	0	0	0	0	1	0	0	0	16732	1145	40	4	55520	4	TTN	2	179473085	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	12684725	179473085	63726288	35	10323										
TTN	7273	broad.mit.edu	37	chr2	179604796	179604796	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aggtttaatctctgctcttcTggaataccagaaagcaagct	8	9	3	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:179604796T>A	uc010zfh.1	-	46	12875	c.12651A>T	c.(12649-12651)CCA>CCT	p.P4217P	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Silent_p.P4150P|TTN_uc010zfj.1_Silent_p.P4025P|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TCTGCTCTTCTGGAATACCAG	0.463													21	135	---	---	---	---	PASS	A	179604796	A	A	179604796	2	1	22	1	0	0	0	0	0	0	0	1	16732	1567	55	5		5	TTN	2	179604796	Silent	SNP	T	TCGA-21-1077-01A-01D-1521-08	131711	179604796	63594577	36	10324										
HSPD1	3329	broad.mit.edu	37	chr2	198358950	198358950	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	catgccttcaataatttctaAttcatcattcagtgtttttc	3	9	5	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:198358950A>G	uc002uui.2	-	6	768	c.631T>C	c.(631-633)TTA>CTA	p.L211L	HSPD1_uc002uuj.2_Silent_p.L209L|HSPD1_uc010zgx.1_Silent_p.L202L|HSPD1_uc010fsm.2_Silent_p.L22L|HSPD1_uc002uuk.2_Silent_p.L211L	NM_002156	NP_002147	P10809	CH60_HUMAN	chaperonin	211					'de novo' protein folding|activation of caspase activity|B cell cytokine production|B cell proliferation|chaperone-mediated protein complex assembly|interspecies interaction between organisms|isotype switching to IgG isotypes|MyD88-dependent toll-like receptor signaling pathway|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of interferon-alpha production|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of macrophage activation|positive regulation of T cell activation|positive regulation of T cell mediated immune response to tumor cell|protein maturation|protein refolding|protein stabilization|response to unfolded protein|T cell activation	cell surface|coated pit|coated vesicle|cytosol|early endosome|extracellular space|lipopolysaccharide receptor complex|mitochondrial inner membrane|mitochondrial matrix|stored secretory granule	ATP binding|ATPase activity|cell surface binding|chaperone binding|DNA replication origin binding|lipopolysaccharide binding|p53 binding|single-stranded DNA binding				0			Epithelial(96;0.225)			ATAATTTCTAATTCATCATTC	0.279													13	87	---	---	---	---	PASS	G	198358950	G	G	198358950	2	3	22	1	0	0	0	0	0	0	0	1	7428	98	4	5		5	HSPD1	2	198358950	Silent	SNP	A	TCGA-21-1077-01A-01D-1521-08	18754154	198358950	44840423	37	10325										
CPS1	1373	broad.mit.edu	37	chr2	211460215	211460215	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ttcttattgcttataggtttCcaaagtccttattctaggat	6	7	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:211460215C>T	uc002vee.3	+	13	1400	c.1268C>T	c.(1267-1269)TCC>TTC	p.S423F	CPS1_uc010fur.2_Missense_Mutation_p.S429F|CPS1_uc010fus.2_5'UTR	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	423					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)		TTATAGGTTTCCAAAGTCCTT	0.393													49	254	---	---	---	---	PASS	T	211460215	T	T	211460215	3	4	22	1	0	0	0	0	1	0	0	0	3823	855	30	2	1340	2	CPS1	2	211460215	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	13101265	211460215	31739158	38	10326										
SPHKAP	80309	broad.mit.edu	37	chr2	228882388	228882388	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gattccggggatagccctgcGcctgccacatgccgtccacc	11	17	0	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:228882388G>A	uc002vpq.2	-	7	3229	c.3182C>T	c.(3181-3183)GCG>GTG	p.A1061V	SPHKAP_uc002vpp.2_Missense_Mutation_p.A1061V|SPHKAP_uc010zlx.1_Missense_Mutation_p.A1061V	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1061						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		ATAGCCCTGCGCCTGCCACAT	0.557													21	123	---	---	---	---	PASS	A	228882388	A	A	228882388	3	1	22	1	0	0	0	0	1	0	0	0	15047	1087	38	1	1944	1	SPHKAP	2	228882388	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	17422173	228882388	14316985	39	10327										
C2orf85	285093	broad.mit.edu	37	chr2	242814310	242814310	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cttggcaagggtggcgttgtCatcgccatccccttctccct	10	15	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:242814310C>T	uc010fzu.1	+	2	626	c.603C>T	c.(601-603)GTC>GTT	p.V201V		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	201						integral to membrane				ovary(1)	1						GTGGCGTTGTCATCGCCATCC	0.677													11	57	---	---	---	---	PASS	T	242814310	T	T	242814310	2	4	22	1	0	0	0	0	0	0	0	1	2200	813	29	2		2	C2orf85	2	242814310	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	13931922	242814310	385063	40	10328										
C2orf85	285093	broad.mit.edu	37	chr2	242814556	242814556	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ggcagcagcatccagaccttCgagctcaagggcttcctctt	10	14	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr2:242814556C>A	uc010fzu.1	+	2	872	c.849C>A	c.(847-849)TTC>TTA	p.F283L		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	283						integral to membrane				ovary(1)	1						TCCAGACCTTCGAGCTCAAGG	0.677													27	139	---	---	---	---	PASS	A	242814556	A	A	242814556	3	1	22	1	0	0	0	0	1	0	0	0	2200	883	31	2	855	2	C2orf85	2	242814556	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	246	242814556	384817	41	10329										
TRANK1	9881	broad.mit.edu	37	chr3	36896951	36896951	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ggagcaccctgagcttcgacAgcctccgggatatgttgtac	12	12	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:36896951A>C	uc003cgj.2	-	3	2782	c.2480T>G	c.(2479-2481)CTG>CGG	p.L827R		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1377					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						GAGCTTCGACAGCCTCCGGGA	0.502													101	231	---	---	---	---	PASS	C	36896951	C	C	36896951	3	2	22	1	0	0	0	0	1	0	0	0	16451	188	7	5	4695	5	TRANK1	3	36896951	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08		36896951	161125479	42	10330										
TRANK1	9881	broad.mit.edu	37	chr3	36898598	36898598	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gtcgcttctgcaggccctggGtccactcgccatttcccagc	10	17	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:36898598G>A	uc003cgj.2	-	3	1135	c.833C>T	c.(832-834)ACC>ATC	p.T278I		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	828					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						CAGGCCCTGGGTCCACTCGCC	0.512													36	177	---	---	---	---	PASS	A	36898598	A	A	36898598	3	1	22	1	0	0	0	0	1	0	0	0	16451	1261	44	3	6342	3	TRANK1	3	36898598	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	1647	36898598	161123832	43	10331										
CTNNB1	1499	broad.mit.edu	37	chr3	41280628	41280628	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	caccctgactcttctagatcCtagctatcgttcttttcact	4	14	4	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:41280628C>G	uc010hia.1	+	16	2297	c.2141C>G	c.(2140-2142)CCT>CGT	p.P714R	CTNNB1_uc003ckp.2_Missense_Mutation_p.P714R|CTNNB1_uc003ckq.2_Missense_Mutation_p.P714R|CTNNB1_uc003ckr.2_Missense_Mutation_p.P714R|CTNNB1_uc011azf.1_Missense_Mutation_p.P707R|CTNNB1_uc011azg.1_Missense_Mutation_p.P642R	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	714					adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	CTTCTAGATCCTAGCTATCGT	0.502		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				52	148	---	---	---	---	PASS	G	41280628	G	G	41280628	3	3	22	1	0	0	0	0	1	0	0	0	4016	681	24	4	2195	4	CTNNB1	3	41280628	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	4382030	41280628	156741802	44	10332										
HIGD1A	25994	broad.mit.edu	37	chr3	42827622	42827622	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gctcttcagtttatataatcCatatgcaacaattgctgcaa	5	9	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:42827622C>T	uc003cma.3	-	3	276	c.130G>A	c.(130-132)GGA>AGA	p.G44R	HIGD1A_uc010hid.2_Missense_Mutation_p.G58R|HIGD1A_uc003cmb.3_Missense_Mutation_p.G44R	NM_001099669	NP_001093139	Q9Y241	HIG1A_HUMAN	HIG1 domain family, member 1A isoform b	44	Helical; (Potential).|HIG1.				response to stress	integral to membrane|protein complex	protein binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.217)		TTATATAATCCATATGCAACA	0.413													14	123	---	---	---	---	PASS	T	42827622	T	T	42827622	3	4	22	1	0	0	0	0	1	0	0	0	7106	603	21	3	159	3	HIGD1A	3	42827622	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	1546994	42827622	155194808	45	10333										
COL7A1	1294	broad.mit.edu	37	chr3	48612109	48612109	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aagggtggagagaggcctcaCcctgtctcctttgggacctt	13	11	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:48612109C>T	uc003ctz.2	-	77	6394	c.6393_splice	c.e77+1	p.R2131_splice		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor						cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		AGAGGCCTCACCCTGTCTCCT	0.632													59	121	---	---	---	---	PASS	T	48612109	T	T	48612109	5	4	22	1	0	0	0	0	0	0	1	0	3704	521	18	3	2608	3	COL7A1	3	48612109	Splice_Site	SNP	C	TCGA-21-1077-01A-01D-1521-08	5784487	48612109	149410321	46	10334										
CNTN3	5067	broad.mit.edu	37	chr3	74413659	74413659	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tggaataaacaaggccatgtTtgttttctgctatgcattgg	10	6	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:74413659T>C	uc003dpm.1	-	9	1252	c.1172A>G	c.(1171-1173)AAA>AGA	p.K391R		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	391	Ig-like C2-type 4.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		AAGGCCATGTTTGTTTTCTGC	0.373													24	199	---	---	---	---	PASS	C	74413659	C	C	74413659	3	2	22	1	0	0	0	0	1	0	0	0	3642	1841	64	5	1970	5	CNTN3	3	74413659	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	25801550	74413659	123608771	47	10335										
CNTN3	5067	broad.mit.edu	37	chr3	74418477	74418477	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tccttaatttaattttgctgGaaaatggcagcccatcactt	6	9	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:74418477G>A	uc003dpm.1	-	7	889	c.809C>T	c.(808-810)TCC>TTC	p.S270F		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	270	Ig-like C2-type 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		AATTTTGCTGGAAAATGGCAG	0.408													12	169	---	---	---	---	PASS	A	74418477	A	A	74418477	3	1	22	1	0	0	0	0	1	0	0	0	3642	1174	41	2	2341	2	CNTN3	3	74418477	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	4818	74418477	123603953	48	10336										
PHLDB2	90102	broad.mit.edu	37	chr3	111686651	111686651	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tagaaaaggaagtaaaaataAgggagagacaaagggcacag	13	3	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:111686651A>C	uc010hqa.2	+	15	3706	c.3295A>C	c.(3295-3297)AGG>CGG	p.R1099R	PHLDB2_uc003dyc.2_Silent_p.R1083R|PHLDB2_uc003dyd.2_Silent_p.R1056R|PHLDB2_uc003dyg.2_Silent_p.R1099R|PHLDB2_uc003dyh.2_Silent_p.R1056R|PHLDB2_uc003dyi.2_Silent_p.R590R|PHLDB2_uc003dyj.2_Silent_p.R154R	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	1099						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						AGTAAAAATAAGGGAGAGACA	0.478											OREG0015707	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	72	---	---	---	---	PASS	C	111686651	C	C	111686651	2	2	22	1	0	0	0	0	0	0	0	1	11852	63	3	5		5	PHLDB2	3	111686651	Silent	SNP	A	TCGA-21-1077-01A-01D-1521-08	37268174	111686651	86335779	49	10337										
TRIM42	287015	broad.mit.edu	37	chr3	140407246	140407246	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	acagacggcctctacacctaCtggagtgctggagcagacag	12	12	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:140407246C>A	uc003eto.1	+	3	1913	c.1722C>A	c.(1720-1722)TAC>TAA	p.Y574*		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	574						intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						TCTACACCTACTGGAGTGCTG	0.582													28	178	---	---	---	---	PASS	A	140407246	A	A	140407246	4	1	22	1	0	0	0	0	0	1	0	0	16514	576	20	3	1732	3	TRIM42	3	140407246	Nonsense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	28720595	140407246	57615184	50	10338										
SLC25A36	55186	broad.mit.edu	37	chr3	140692756	140692756	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tctacaatggaaaatgatgaAgagtctgtgaaagaagcatc	10	5	2	5			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:140692756A>C	uc003etr.2	+	6	886	c.651A>C	c.(649-651)GAA>GAC	p.E217D	SLC25A36_uc003ets.2_Missense_Mutation_p.E217D|SLC25A36_uc003etq.2_Missense_Mutation_p.E60D|SLC25A36_uc011bmz.1_Missense_Mutation_p.E191D	NM_001104647	NP_001098117	Q96CQ1	S2536_HUMAN	solute carrier family 25, member 36 isoform a	217					response to estradiol stimulus|transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0						AAAATGATGAAGAGTCTGTGA	0.358													26	106	---	---	---	---	PASS	C	140692756	C	C	140692756	3	2	22	1	0	0	0	0	1	0	0	0	14500	69	3	5	673	5	SLC25A36	3	140692756	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	285510	140692756	57329674	51	10339										
ZIC1	7545	broad.mit.edu	37	chr3	147128534	147128534	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cgcgcatcacggcgccggcgCcttcttccgctacatgcgcc	11	19	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:147128534C>A	uc003ewe.2	+	1	1354	c.635C>A	c.(634-636)GCC>GAC	p.A212D		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	212					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GGCGCCGGCGCCTTCTTCCGC	0.627													96	67	---	---	---	---	PASS	A	147128534	A	A	147128534	3	1	22	1	0	0	0	0	1	0	0	0	17675	739	26	3	637	3	ZIC1	3	147128534	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	6435778	147128534	50893896	52	10340										
SLITRK3	22865	broad.mit.edu	37	chr3	164907944	164907944	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ttttcttccagctggagctcCatcaggcttctgccaatgtg	9	12	3	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:164907944C>T	uc003fej.3	-	2	1119	c.675G>A	c.(673-675)ATG>ATA	p.M225I	SLITRK3_uc003fek.2_Missense_Mutation_p.M225I	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	225	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GCTGGAGCTCCATCAGGCTTC	0.443										HNSCC(40;0.11)			21	404	---	---	---	---	PASS	T	164907944	T	T	164907944	3	4	22	1	0	0	0	0	1	0	0	0	14744	594	21	3	2262	3	SLITRK3	3	164907944	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	17779410	164907944	33114486	53	10341										
USP13	8975	broad.mit.edu	37	chr3	179472565	179472565	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	acttgatatcaaccatctccGagccagggggttacagccag	10	12	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:179472565G>T	uc003fkh.2	+	15	1925	c.1844G>T	c.(1843-1845)CGA>CTA	p.R615L	USP13_uc003fkf.2_Nonsense_Mutation_p.E543*	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	615					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			AACCATCTCCGAGCCAGGGGG	0.453													41	874	---	---	---	---	PASS	T	179472565	T	T	179472565	3	4	22	1	0	0	0	0	1	0	0	0	17041	1058	37	2	1902	2	USP13	3	179472565	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	14564621	179472565	18549865	54	10342										
KLHL24	54800	broad.mit.edu	37	chr3	183368735	183368735	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gcgttacagacttttgaggaTgtatcccagcacgaagaatt	10	8	0	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:183368735T>C	uc003flv.2	+	3	886	c.591T>C	c.(589-591)GAT>GAC	p.D197D	KLHL24_uc003flw.2_Silent_p.D197D|KLHL24_uc003flx.2_Silent_p.D197D	NM_017644	NP_060114	Q6TFL4	KLH24_HUMAN	DRE1 protein	197	BACK.					axon|cytoplasm|perikaryon				ovary(1)	1	all_cancers(143;2.88e-10)|Ovarian(172;0.0303)		all cancers(12;1.43e-42)|Epithelial(37;1.73e-36)|OV - Ovarian serous cystadenocarcinoma(80;8.75e-22)			CTTTTGAGGATGTATCCCAGC	0.358													35	737	---	---	---	---	PASS	C	183368735	C	C	183368735	2	2	22	1	0	0	0	0	0	0	0	1	8379	1461	51	5		5	KLHL24	3	183368735	Silent	SNP	T	TCGA-21-1077-01A-01D-1521-08	3896170	183368735	14653695	55	10343										
SENP2	59343	broad.mit.edu	37	chr3	185316310	185316310	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cttctgcttgtaatggaacaCggaatgtggccccttcagga	11	10	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:185316310C>T	uc003fpn.2	+	3	439	c.268C>T	c.(268-270)CGG>TGG	p.R90W	SENP2_uc011brv.1_Missense_Mutation_p.R80W|SENP2_uc011brw.1_Translation_Start_Site	NM_021627	NP_067640	Q9HC62	SENP2_HUMAN	SUMO1/sentrin/SMT3 specific protease 2	90					mRNA transport|protein desumoylation|protein transport|proteolysis|regulation of Wnt receptor signaling pathway|transmembrane transport|Wnt receptor signaling pathway	cytoplasm|nuclear membrane|nuclear pore	protein binding|SUMO-specific protease activity				0	all_cancers(143;1.28e-10)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			TAATGGAACACGGAATGTGGC	0.418													26	481	---	---	---	---	PASS	T	185316310	T	T	185316310	3	4	22	1	0	0	0	0	1	0	0	0	14047	527	19	1	278	1	SENP2	3	185316310	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	1947575	185316310	12706120	56	10344										
TPRG1	285386	broad.mit.edu	37	chr3	188933167	188933167	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	attcaaggcttctggctcttGacaaagtgagtagtcacagc	10	9	4	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:188933167G>A	uc003frv.1	+	8	1524	c.297G>A	c.(295-297)TTG>TTA	p.L99L	TPRG1_uc003frw.1_Silent_p.L99L	NM_198485	NP_940887	Q6ZUI0	TPRG1_HUMAN	tumor protein p63 regulated 1	99											0	all_cancers(143;6.12e-12)|all_hematologic(3;0.0359)|Ovarian(172;0.0925)	all_lung(153;8.23e-09)|Lung NSC(153;3.55e-06)|all_neural(597;0.0019)|Myeloproliferative disorder(1037;0.0255)	Lung(62;6.93e-06)	GBM - Glioblastoma multiforme(93;4.77e-14)		TCTGGCTCTTGACAAAGTGAG	0.493													121	145	---	---	---	---	PASS	A	188933167	A	A	188933167	2	1	22	1	0	0	0	0	0	0	0	1	16415	1281	45	2		2	TPRG1	3	188933167	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	3616857	188933167	9089263	57	10345										
C3orf59	151963	broad.mit.edu	37	chr3	192516720	192516720	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gatgatggctttgcaggcctGataggcctgcatgaggctgc	15	9	0	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:192516720G>C	uc011bsp.1	-	2	1252	c.931C>G	c.(931-933)CAG>GAG	p.Q311E		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	311											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		TTGCAGGCCTGATAGGCCTGC	0.557													19	172	---	---	---	---	PASS	C	192516720	C	C	192516720	3	2	22	1	0	0	0	0	1	0	0	0	2237	1299	45	2	548	2	C3orf59	3	192516720	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	3583553	192516720	5505710	58	10346										
ATP13A4	84239	broad.mit.edu	37	chr3	193183889	193183889	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	acaaggcacaggaggaacctGatggcatccctgtacaactg	11	11	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:193183889G>A	uc003ftd.2	-	11	1305	c.1197C>T	c.(1195-1197)ATC>ATT	p.I399I	ATP13A4_uc003fte.1_Silent_p.I399I|ATP13A4_uc011bsr.1_Intron|ATP13A4_uc010hzi.2_RNA|ATP13A4_uc003ftf.3_Silent_p.I105I	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	399	Extracellular (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)		GGAGGAACCTGATGGCATCCC	0.453													104	606	---	---	---	---	PASS	A	193183889	A	A	193183889	2	1	22	1	0	0	0	0	0	0	0	1	1126	1280	45	2		2	ATP13A4	3	193183889	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	667169	193183889	4838541	59	10347										
MUC4	4585	broad.mit.edu	37	chr3	195480067	195480067	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tagcagtaattcacagggcaGgactggttctgacacaggaa	12	8	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr3:195480067G>T	uc011bto.1	-	21	15439	c.14979C>A	c.(14977-14979)TCC>TCA	p.S4993S	MUC4_uc010hzq.2_Translation_Start_Site|MUC4_uc003fuz.2_Silent_p.S719S|MUC4_uc003fva.2_Silent_p.S601S|MUC4_uc003fvb.2_Silent_p.S637S|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Silent_p.S637S|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Silent_p.S601S|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Silent_p.S685S|MUC4_uc011bti.1_Silent_p.S685S|MUC4_uc011btj.1_Silent_p.S862S|MUC4_uc011btk.1_Silent_p.S601S|MUC4_uc011btl.1_Silent_p.S630S|MUC4_uc011btm.1_Silent_p.S810S|MUC4_uc011btn.1_Silent_p.S601S|MUC4_uc003fvo.2_Silent_p.S885S|MUC4_uc003fvp.2_Silent_p.S834S	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1878	EGF-like 1.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TCACAGGGCAGGACTGGTTCT	0.617													24	395	---	---	---	---	PASS	T	195480067	T	T	195480067	2	4	22	1	0	0	0	0	0	0	0	1	9978	987	35	3		3	MUC4	3	195480067	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	2296178	195480067	2542363	60	10348										
PIGG	54872	broad.mit.edu	37	chr4	517609	517609	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gatggtgctggccagtccgtGgctaatactggcctgctgcc	14	12	0	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr4:517609G>A	uc003gak.3	+	9	2112	c.1976G>A	c.(1975-1977)TGG>TAG	p.W659*	PIGG_uc003gaj.3_Nonsense_Mutation_p.W651*|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Nonsense_Mutation_p.W526*|PIGG_uc003gal.3_Nonsense_Mutation_p.W570*	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	659					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						GCCAGTCCGTGGCTAATACTG	0.642													7	15	---	---	---	---	PASS	A	517609	A	A	517609	4	1	22	1	0	0	0	0	0	1	0	0	11888	1357	47	3	2010	3	PIGG	4	517609	Nonsense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08		517609	190636667	61	10349										
ARAP2	116984	broad.mit.edu	37	chr4	36075362	36075362	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ccctcatgctgtataggaatCagaggcaaacctccaatttt	7	11	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr4:36075362C>G	uc003gsq.1	-	32	5030	c.4692G>C	c.(4690-4692)CTG>CTC	p.L1564L	ARAP2_uc003gso.2_RNA	NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1564					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						GTATAGGAATCAGAGGCAAAC	0.363													34	162	---	---	---	---	PASS	G	36075362	G	G	36075362	2	3	22	1	0	0	0	0	0	0	0	1	839	813	29	2		2	ARAP2	4	36075362	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	35557753	36075362	155078914	62	10350										
PLRG1	5356	broad.mit.edu	37	chr4	155461791	155461791	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gttaccaacacatcgattgtCgggtgcaaatccaaaccata	7	11	0	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr4:155461791C>A	uc003iny.2	-	10	957	c.894G>T	c.(892-894)CCG>CCT	p.P298P	PLRG1_uc003inz.2_Silent_p.P289P|PLRG1_uc011cil.1_Silent_p.P137P	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	298	WD 3.					catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				CATCGATTGTCGGGTGCAAAT	0.378													35	118	---	---	---	---	PASS	A	155461791	A	A	155461791	2	1	22	1	0	0	0	0	0	0	0	1	12106	871	31	2		2	PLRG1	4	155461791	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	119386429	155461791	35692485	63	10351										
CCDC110	256309	broad.mit.edu	37	chr4	186380653	186380653	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctgtaatatttttgccagtgAtgggaatttctttattgttt	8	4	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr4:186380653A>G	uc003ixu.3	-	6	1164	c.1088T>C	c.(1087-1089)ATC>ACC	p.I363T	CCDC110_uc003ixv.3_Missense_Mutation_p.I326T|CCDC110_uc011ckt.1_Missense_Mutation_p.I363T	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	363						nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		TTTGCCAGTGATGGGAATTTC	0.318													7	258	---	---	---	---	PASS	G	186380653	G	G	186380653	3	3	22	1	0	0	0	0	1	0	0	0	2747	333	12	5	1421	5	CCDC110	4	186380653	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	30918862	186380653	4773623	64	10352										
MARCH6	10299	broad.mit.edu	37	chr5	10411627	10411627	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tggctttcagccttaccgccGacctttaaattttccactca	5	14	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:10411627G>T	uc003jet.1	+	19	2057	c.1874G>T	c.(1873-1875)CGA>CTA	p.R625L	MARCH6_uc011cmu.1_Missense_Mutation_p.R577L|MARCH6_uc003jeu.1_Missense_Mutation_p.R323L|MARCH6_uc011cmv.1_Missense_Mutation_p.R520L	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	625	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						CCTTACCGCCGACCTTTAAAT	0.458													38	156	---	---	---	---	PASS	T	10411627	T	T	10411627	3	4	22	1	0	0	0	0	1	0	0	0	9305	1058	37	2	1948	2	MARCH6	5	10411627	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08		10411627	170503633	65	10353										
FBXL7	23194	broad.mit.edu	37	chr5	15937245	15937245	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aggccctgcgctttgtcaaaCgccactgcaagcgctgcgtc	11	15	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:15937245C>T	uc003jfn.1	+	4	1907	c.1426C>T	c.(1426-1428)CGC>TGC	p.R476C		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	476					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						CTTTGTCAAACGCCACTGCAA	0.577													18	39	---	---	---	---	PASS	T	15937245	T	T	15937245	3	4	22	1	0	0	0	0	1	0	0	0	5724	536	19	1	1440	1	FBXL7	5	15937245	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	5525618	15937245	164978015	66	10354										
SLC45A2	51151	broad.mit.edu	37	chr5	33984399	33984399	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gtctccggcggccccacctgGaccggcagtggtcgctggcc	15	17	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:33984399G>C	uc003jid.2	-	1	382	c.290C>G	c.(289-291)TCC>TGC	p.S97C	SLC45A2_uc003jie.2_Missense_Mutation_p.S97C|SLC45A2_uc003jif.3_Missense_Mutation_p.S97C|SLC45A2_uc011coe.1_Missense_Mutation_p.S97C	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	97	Cytoplasmic (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GCCCCACCTGGACCGGCAGTG	0.627													13	81	---	---	---	---	PASS	C	33984399	C	C	33984399	3	2	22	1	0	0	0	0	1	0	0	0	14641	1174	41	2	1345	2	SLC45A2	5	33984399	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	18047154	33984399	146930861	67	10355										
GHR	2690	broad.mit.edu	37	chr5	42566037	42566037	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gatcaagtgatgctttttctGgaagtgagggtgagttctgc	14	5	3	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:42566037G>A	uc003jmt.2	+	2	104	c.61G>A	c.(61-63)GGA>AGA	p.G21R	GHR_uc011cpq.1_5'UTR	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	21	Extracellular (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	TGCTTTTTCTGGAAGTGAGGG	0.433													46	367	---	---	---	---	PASS	A	42566037	A	A	42566037	3	1	22	1	0	0	0	0	1	0	0	0	6371	1349	47	3	63	3	GHR	5	42566037	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	8581638	42566037	138349223	68	10356										
C5orf28	64417	broad.mit.edu	37	chr5	43446438	43446438	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gtgattattacataaagccaGaatggcaaaggagaagtttt	10	4	0	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:43446438G>A	uc003jny.2	-	3	677	c.534C>T	c.(532-534)TTC>TTT	p.F178F	C5orf28_uc003jnv.3_Silent_p.F178F|C5orf28_uc003jnx.2_Silent_p.F178F	NM_022483	NP_071928	Q0VDI3	CE028_HUMAN	hypothetical protein LOC64417	178	Helical; (Potential).					integral to membrane					0	Lung NSC(6;2.07e-05)					CATAAAGCCAGAATGGCAAAG	0.378													68	168	---	---	---	---	PASS	A	43446438	A	A	43446438	2	1	22	1	0	0	0	0	0	0	0	1	2289	933	33	2		2	C5orf28	5	43446438	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	880401	43446438	137468822	69	10357										
HTR1A	3350	broad.mit.edu	37	chr5	63257016	63257016	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gggtccgagcggtcttccggGgtgcgccagcccagcatggg	18	13	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:63257016G>A	uc011cqt.1	-	1	531	c.531C>T	c.(529-531)ACC>ACT	p.T177T		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	177	Helical; Name=4; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	GGTCTTCCGGGGTGCGCCAGC	0.597													54	287	---	---	---	---	PASS	A	63257016	A	A	63257016	2	1	22	1	0	0	0	0	0	0	0	1	7436	1219	43	3		3	HTR1A	5	63257016	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	19810578	63257016	117658244	70	10358										
ADAMTS6	11174	broad.mit.edu	37	chr5	64484044	64484044	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tccaaccaatccccaatgaaCcacctgcagcaagacatgga	6	15	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:64484044C>T	uc003jtp.2	-	22	3523	c.2709G>A	c.(2707-2709)TGG>TGA	p.W903*	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	903	TSP type-1 3.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		CCCCAATGAACCACCTGCAGC	0.493													41	253	---	---	---	---	PASS	T	64484044	T	T	64484044	4	4	22	1	0	0	0	0	0	1	0	0	270	508	18	3	660	3	ADAMTS6	5	64484044	Nonsense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	1227028	64484044	116431216	71	10359										
CMYA5	202333	broad.mit.edu	37	chr5	79033202	79033202	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctgttcttgtttcaaagcacCacttggaggctgcggaagat	11	9	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:79033202C>T	uc003kgc.2	+	2	8686	c.8614C>T	c.(8614-8616)CAC>TAC	p.H2872Y		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2872						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TTCAAAGCACCACTTGGAGGC	0.403													11	218	---	---	---	---	PASS	T	79033202	T	T	79033202	3	4	22	1	0	0	0	0	1	0	0	0	3590	594	21	3	8620	3	CMYA5	5	79033202	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	14549158	79033202	101882058	72	10360										
SLCO6A1	133482	broad.mit.edu	37	chr5	101834355	101834355	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	acttggcttttttcctttttCggaaaccgccgaaccttatc	6	12	0	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:101834355C>T	uc003knn.2	-	1	366	c.194G>A	c.(193-195)CGA>CAA	p.R65Q	SLCO6A1_uc003kno.2_Missense_Mutation_p.R65Q|SLCO6A1_uc003knp.2_Missense_Mutation_p.R65Q|SLCO6A1_uc003knq.2_Missense_Mutation_p.R65Q	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	65	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		TTTCCTTTTTCGGAAACCGCC	0.542													71	409	---	---	---	---	PASS	T	101834355	T	T	101834355	3	4	22	1	0	0	0	0	1	0	0	0	14732	884	31	2	2017	2	SLCO6A1	5	101834355	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	22801153	101834355	79080905	73	10361										
FNIP1	96459	broad.mit.edu	37	chr5	131034692	131034692	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgatctccggctcattttcaTagccttgaaaacaatcattg	6	10	4	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:131034692T>C	uc003kvs.1	-	11	1262	c.1120A>G	c.(1120-1122)ATG>GTG	p.M374V	RAPGEF6_uc003kvp.1_Intron|FNIP1_uc003kvt.1_Missense_Mutation_p.M346V|FNIP1_uc010jdm.1_Missense_Mutation_p.M329V|FNIP1_uc003kvu.2_Missense_Mutation_p.M374V	NM_133372	NP_588613	Q8TF40	FNIP1_HUMAN	folliculin interacting protein 1 isoform 1	374					regulation of protein phosphorylation	cytoplasm	protein binding			pancreas(1)|skin(1)	2		all_cancers(142;0.00347)|Lung NSC(810;0.106)|all_lung(232;0.123)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0665)		CTCATTTTCATAGCCTTGAAA	0.358													45	123	---	---	---	---	PASS	C	131034692	C	C	131034692	3	2	22	1	0	0	0	0	1	0	0	0	5975	1406	49	5	2412	5	FNIP1	5	131034692	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	29200337	131034692	49880568	74	10362										
PCDHB13	56123	broad.mit.edu	37	chr5	140594235	140594235	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agccccaactcctattttcgGgtcctcacccgcaaacgcag	7	17	1	0	rs112800248		TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:140594235G>T	uc003lja.1	+	1	727	c.540G>T	c.(538-540)CGG>CGT	p.R180R		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	180	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTATTTTCGGGTCCTCACCC	0.498													34	129	---	---	---	---	PASS	T	140594235	T	T	140594235	2	4	22	1	0	0	0	0	0	0	0	1	11538	1219	43	3		3	PCDHB13	5	140594235	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	9559543	140594235	40321025	75	10363										
PCDHGB2	56103	broad.mit.edu	37	chr5	140740288	140740288	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gtaaatatcctgagttgattCtaaaacactctctggacaga	7	8	2	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:140740288C>G	uc003ljs.1	+	1	586	c.586C>G	c.(586-588)CTA>GTA	p.L196V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Missense_Mutation_p.L196V	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	196	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAGTTGATTCTAAAACACTC	0.463													11	133	---	---	---	---	PASS	G	140740288	G	G	140740288	3	3	22	1	0	0	0	0	1	0	0	0	11563	912	32	2	588	2	PCDHGB2	5	140740288	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	146053	140740288	40174972	76	10364										
PCDHGB5	56101	broad.mit.edu	37	chr5	140778505	140778505	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgtcagccactgaccaagacGagggcatcaactcagaaatt	9	11	3	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:140778505G>T	uc003lkf.1	+	1	811	c.811G>T	c.(811-813)GAG>TAG	p.E271*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Nonsense_Mutation_p.E271*	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	271	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGACCAAGACGAGGGCATCAA	0.473													34	188	---	---	---	---	PASS	T	140778505	T	T	140778505	4	4	22	1	0	0	0	0	0	1	0	0	11566	1059	37	2	813	2	PCDHGB5	5	140778505	Nonsense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	38217	140778505	40136755	77	10365										
PPARGC1B	133522	broad.mit.edu	37	chr5	149216209	149216209	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agcagggtgccccttgggctGaggcacaggcccctggcagg	17	13	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:149216209G>A	uc003lrc.2	+	8	2233	c.2191G>A	c.(2191-2193)GAG>AAG	p.E731K	PPARGC1B_uc003lrb.1_Missense_Mutation_p.E731K|PPARGC1B_uc003lrd.2_Missense_Mutation_p.E692K|PPARGC1B_uc003lrf.2_Missense_Mutation_p.E710K|PPARGC1B_uc003lre.1_Missense_Mutation_p.E710K	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	731					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CCCTTGGGCTGAGGCACAGGC	0.652													23	102	---	---	---	---	PASS	A	149216209	A	A	149216209	3	1	22	1	0	0	0	0	1	0	0	0	12301	1291	45	2	2228	2	PPARGC1B	5	149216209	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	8437704	149216209	31699051	78	10366										
FOXI1	2299	broad.mit.edu	37	chr5	169535196	169535196	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agacagagagcagtctcccgGtggacagccccaagaccacg	12	14	1	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:169535196G>T	uc003mai.3	+	2	763	c.718G>T	c.(718-720)GTG>TTG	p.V240L	FOXI1_uc003maj.3_Intron	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	240					epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAGTCTCCCGGTGGACAGCCC	0.577									Pendred_syndrome				22	153	---	---	---	---	PASS	T	169535196	T	T	169535196	3	4	22	1	0	0	0	0	1	0	0	0	6009	1261	44	3	724	3	FOXI1	5	169535196	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	20318987	169535196	11380064	79	10367										
GPRIN1	114787	broad.mit.edu	37	chr5	176026691	176026691	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgcagggcttgccttttgctGggaggggcagtaatccctca	14	10	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:176026691G>C	uc003meo.1	-	2	320	c.145C>G	c.(145-147)CAG>GAG	p.Q49E		NM_052899	NP_443131	Q7Z2K8	GRIN1_HUMAN	G protein-regulated inducer of neurite outgrowth	49						growth cone|plasma membrane				ovary(2)	2	all_cancers(89;0.00263)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCCTTTTGCTGGGAGGGGCAG	0.662													55	189	---	---	---	---	PASS	C	176026691	C	C	176026691	3	2	22	1	0	0	0	0	1	0	0	0	6729	1357	47	4	2885	4	GPRIN1	5	176026691	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	6491495	176026691	4888569	80	10368										
DDX41	51428	broad.mit.edu	37	chr5	176939832	176939832	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ccccttgagcagcaggtactCgtggatggcgtccacgtctg	13	13	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:176939832C>A	uc003mho.2	-	13	1369	c.1348G>T	c.(1348-1350)GAG>TAG	p.E450*	DOK3_uc003mhi.3_5'Flank|DOK3_uc003mhj.3_5'Flank|DOK3_uc003mhk.2_5'Flank|DOK3_uc003mhl.2_5'Flank|DDX41_uc003mhm.2_Nonsense_Mutation_p.E230*|DDX41_uc003mhn.2_Nonsense_Mutation_p.E319*|DDX41_uc003mhp.2_Nonsense_Mutation_p.E319*|DDX41_uc003mhq.1_Nonsense_Mutation_p.E230*	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	450	Helicase C-terminal.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			AGCAGGTACTCGTGGATGGCG	0.602													85	233	---	---	---	---	PASS	A	176939832	A	A	176939832	4	1	22	1	0	0	0	0	0	1	0	0	4361	893	31	2	540	2	DDX41	5	176939832	Nonsense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	913141	176939832	3975428	81	10369										
GRM6	2916	broad.mit.edu	37	chr5	178413425	178413425	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cggacgatgggcgtgttgttGtaccgcacgaaggtggccac	16	10	0	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr5:178413425G>T	uc003mjr.2	-	8	2009	c.1830C>A	c.(1828-1830)TAC>TAA	p.Y610*	GRM6_uc003mjq.2_5'Flank|GRM6_uc010jla.1_Nonsense_Mutation_p.Y193*|GRM6_uc003mjs.1_Nonsense_Mutation_p.Y230*	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	610	Cytoplasmic (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		GCGTGTTGTTGTACCGCACGA	0.672													9	35	---	---	---	---	PASS	T	178413425	T	T	178413425	4	4	22	1	0	0	0	0	0	1	0	0	6801	1372	48	3	815	3	GRM6	5	178413425	Nonsense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	1473593	178413425	2501835	82	10370										
F13A1	2162	broad.mit.edu	37	chr6	6167791	6167791	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgacaaagaagtgcagggacGcttgttccagcagctgaccc	12	11	0	3	rs148207995	byFrequency	TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:6167791G>C	uc003mwv.2	-	13	1931	c.1808C>G	c.(1807-1809)GCG>GGG	p.A603G	F13A1_uc011dib.1_Missense_Mutation_p.A540G	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	603					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	GTGCAGGGACGCTTGTTCCAG	0.522													22	96	---	---	---	---	PASS	C	6167791	C	C	6167791	3	2	22	1	0	0	0	0	1	0	0	0	5340	1087	38	4	402	4	F13A1	6	6167791	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08		6167791	164947276	83	10371										
GTF2H4	2968	broad.mit.edu	37	chr6	30876830	30876830	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ggtgatggagagcaccccttCaaggggactgaaccgagtac	14	10	1	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:30876830C>A	uc003nsa.1	+	2	224	c.17C>A	c.(16-18)TCA>TAA	p.S6*	GTF2H4_uc010jsf.2_Nonsense_Mutation_p.S6*|GTF2H4_uc011dmv.1_Intron|GTF2H4_uc003nsb.1_5'UTR|GTF2H4_uc011dmw.1_Nonsense_Mutation_p.S12*	NM_001517	NP_001508	Q92759	TF2H4_HUMAN	general transcription factor IIH, polypeptide 4,	6					mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3						AGCACCCCTTCAAGGGGACTG	0.542								NER					19	123	---	---	---	---	PASS	A	30876830	A	A	30876830	4	1	22	1	0	0	0	0	0	1	0	0	6865	838	29	2	19	2	GTF2H4	6	30876830	Nonsense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	24709039	30876830	140238237	84	10372										
PI16	221476	broad.mit.edu	37	chr6	36927041	36927041	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ccatcacagacgagggcatgGacgtgccgctggccatggag	15	12	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:36927041G>C	uc003ona.2	+	2	620	c.292G>C	c.(292-294)GAC>CAC	p.D98H	PI16_uc003omz.1_Missense_Mutation_p.D98H|PI16_uc003onb.2_Missense_Mutation_p.D98H|PI16_uc011dts.1_5'Flank	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	98	Extracellular (Potential).					extracellular region|integral to membrane	peptidase inhibitor activity				0						CGAGGGCATGGACGTGCCGCT	0.677													6	23	---	---	---	---	PASS	C	36927041	C	C	36927041	3	2	22	1	0	0	0	0	1	0	0	0	11869	1174	41	2	298	2	PI16	6	36927041	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	6050211	36927041	134188026	85	10373										
DNAH8	1769	broad.mit.edu	37	chr6	38863930	38863930	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	catactttgtggattttcttCgtgagatgccagaaccaact	8	9	1	2	rs143707632	byFrequency	TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:38863930C>T	uc003ooe.1	+	58	8818	c.8218C>T	c.(8218-8220)CGT>TGT	p.R2740C		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8									p.R2740H(1)		skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GGATTTTCTTCGTGAGATGCC	0.388													44	218	---	---	---	---	PASS	T	38863930	T	T	38863930	3	4	22	1	0	0	0	0	1	0	0	0	4607	884	31	2	8440	2	DNAH8	6	38863930	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	1936889	38863930	132251137	86	10374										
LRFN2	57497	broad.mit.edu	37	chr6	40399554	40399554	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cacttgaccagggccgaggtGgtggtcacttcagacacaag	13	11	2	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:40399554G>A	uc003oph.1	-	2	1764	c.1299C>T	c.(1297-1299)ACC>ACT	p.T433T		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	433	Fibronectin type-III.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GGGCCGAGGTGGTGGTCACTT	0.607													27	140	---	---	---	---	PASS	A	40399554	A	A	40399554	2	1	22	1	0	0	0	0	0	0	0	1	8938	1335	47	3		3	LRFN2	6	40399554	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	1535624	40399554	130715513	87	10375										
TDRD6	221400	broad.mit.edu	37	chr6	46656835	46656835	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gtgcatcctgtggcctggatGgacattggtacagagcactg	14	9	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:46656835G>T	uc003oyj.2	+	1	970	c.970G>T	c.(970-972)GGA>TGA	p.G324*	TDRD6_uc010jze.2_Nonsense_Mutation_p.G318*	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	324	Tudor 2.				cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			TGGCCTGGATGGACATTGGTA	0.582													31	72	---	---	---	---	PASS	T	46656835	T	T	46656835	4	4	22	1	0	0	0	0	0	1	0	0	15731	1349	47	3	972	3	TDRD6	6	46656835	Nonsense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	6257281	46656835	124458232	88	10376										
RHAG	6005	broad.mit.edu	37	chr6	49578736	49578736	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aaaacccattcttttactcaCgtgttggaggcgcccattgc	8	12	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:49578736C>T	uc003ozk.3	-	7	1129	c.1067_splice	c.e7+1	p.T356_splice	RHAG_uc010jzl.2_Splice_Site_p.T356_splice|RHAG_uc010jzm.2_Intron	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein						carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					CTTTTACTCACGTGTTGGAGG	0.502													42	148	---	---	---	---	PASS	T	49578736	T	T	49578736	5	4	22	1	0	0	0	0	0	0	1	0	13315	550	19	1	177	1	RHAG	6	49578736	Splice_Site	SNP	C	TCGA-21-1077-01A-01D-1521-08	2921901	49578736	121536331	89	10377										
GFRAL	389400	broad.mit.edu	37	chr6	55216362	55216362	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tcagtgtaattcgcagctgcCaaaatgatgaattatgcagg	10	7	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:55216362C>A	uc003pcm.1	+	5	768	c.682C>A	c.(682-684)CAA>AAA	p.Q228K		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	228	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			TCGCAGCTGCCAAAATGATGA	0.418													17	100	---	---	---	---	PASS	A	55216362	A	A	55216362	3	1	22	1	0	0	0	0	1	0	0	0	6351	595	21	3	700	3	GFRAL	6	55216362	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	5637626	55216362	115898705	90	10378										
SNAP91	9892	broad.mit.edu	37	chr6	84333061	84333061	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	acctttatcaataccaacttGctgtggatttaaaaaattag	5	7	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:84333061G>T	uc011dze.1	-	9	1083	c.766C>A	c.(766-768)CAA>AAA	p.Q256K	SNAP91_uc003pkb.2_Missense_Mutation_p.Q221K|SNAP91_uc003pkc.2_Missense_Mutation_p.Q256K|SNAP91_uc003pkd.2_Intron|SNAP91_uc003pka.2_Missense_Mutation_p.Q256K|SNAP91_uc011dzf.1_Missense_Mutation_p.Q137K	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	256					clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		ATACCAACTTGCTGTGGATTT	0.308													6	21	---	---	---	---	PASS	T	84333061	T	T	84333061	3	4	22	1	0	0	0	0	1	0	0	0	14833	1333	46	3	2037	3	SNAP91	6	84333061	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	29116699	84333061	86782006	91	10379										
ARMC2	84071	broad.mit.edu	37	chr6	109274546	109274546	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gatagtgggcctgctcctgaCcacgctgggtgagaaccgca	14	12	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:109274546C>A	uc003pss.3	+	13	2081	c.1907C>A	c.(1906-1908)ACC>AAC	p.T636N	ARMC2_uc011eao.1_Missense_Mutation_p.T471N	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	636	ARM 9.						binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)		CTGCTCCTGACCACGCTGGGT	0.617													10	15	---	---	---	---	PASS	A	109274546	A	A	109274546	3	1	22	1	0	0	0	0	1	0	0	0	951	507	18	3	1953	3	ARMC2	6	109274546	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	24941485	109274546	61840521	92	10380										
CDC40	51362	broad.mit.edu	37	chr6	110538960	110538960	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	actgcaggaacacagttcctCagtgcagcctatgacaggta	10	11	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:110538960C>T	uc003pua.2	+	10	1068	c.1044C>T	c.(1042-1044)CTC>CTT	p.L348L		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	348	WD 2.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		CACAGTTCCTCAGTGCAGCCT	0.403													27	107	---	---	---	---	PASS	T	110538960	T	T	110538960	2	4	22	1	0	0	0	0	0	0	0	1	3070	813	29	2		2	CDC40	6	110538960	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	1264414	110538960	60576107	93	10381										
SLC16A10	117247	broad.mit.edu	37	chr6	111498481	111498481	+	Silent	SNP	G	A	A													0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ggctgctcctttgcataccaGccttcattggtcattttggg							TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:111498481G>A	uc003pus.2	+	3	730	c.555G>A	c.(553-555)CAG>CAA	p.Q185Q	SLC16A10_uc003pur.3_Silent_p.Q185Q|SLC16A10_uc003put.2_5'UTR	NM_018593	NP_061063	Q8TF71	MOT10_HUMAN	solute carrier family 16, member 10	185	Helical; (Potential).				aromatic amino acid transport|cellular nitrogen compound metabolic process|ion transport	basolateral plasma membrane|integral to membrane	amino acid transmembrane transporter activity				0		all_cancers(87;0.00172)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0313)|Colorectal(196;0.0466)		OV - Ovarian serous cystadenocarcinoma(136;0.0703)|Epithelial(106;0.12)|all cancers(137;0.132)		TTGCATACCAGCCTTCATTGG	0.463													25	125	---	---	---	---	PASS	A	111498481	A	A	111498481	2	1	22	1	0	0	0	0	0	0	0	1	14403	962	34	3		3	SLC16A10	6	111498481	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	959521	111498481	59616586	94	10382	295	2								
SLC16A10	117247	broad.mit.edu	37	chr6	111498482	111498482	+	Missense_Mutation	SNP	C	A	A													0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gctgctcctttgcataccagCcttcattggtcattttggga							TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:111498482C>A	uc003pus.2	+	3	731	c.556C>A	c.(556-558)CCT>ACT	p.P186T	SLC16A10_uc003pur.3_Missense_Mutation_p.P186T|SLC16A10_uc003put.2_5'UTR	NM_018593	NP_061063	Q8TF71	MOT10_HUMAN	solute carrier family 16, member 10	186	Helical; (Potential).				aromatic amino acid transport|cellular nitrogen compound metabolic process|ion transport	basolateral plasma membrane|integral to membrane	amino acid transmembrane transporter activity				0		all_cancers(87;0.00172)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0313)|Colorectal(196;0.0466)		OV - Ovarian serous cystadenocarcinoma(136;0.0703)|Epithelial(106;0.12)|all cancers(137;0.132)		TGCATACCAGCCTTCATTGGT	0.463													25	129	---	---	---	---	PASS	A	111498482	A	A	111498482	3	1	22	1	0	0	0	0	1	0	0	0	14403	739	26	3	566	3	SLC16A10	6	111498482	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	1	111498482	59616585	95	10383	295	2								
TXLNB	167838	broad.mit.edu	37	chr6	139563943	139563943	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cctgtgctccaacagggagaCcctcgcattgggtttctgct	11	13	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:139563943C>T	uc011eds.1	-	10	1940	c.1775G>A	c.(1774-1776)GGT>GAT	p.G592D		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	592						cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		AACAGGGAGACCCTCGCATTG	0.612													61	113	---	---	---	---	PASS	T	139563943	T	T	139563943	3	4	22	1	0	0	0	0	1	0	0	0	16785	507	18	3	283	3	TXLNB	6	139563943	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	28065461	139563943	31551124	96	10384										
UTRN	7402	broad.mit.edu	37	chr6	144780310	144780310	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ccgtattttctcttccttagCgggaattgacaaatcttctt	6	10	3	1	rs145026541		TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:144780310C>A	uc003qkt.2	+	20	2619	c.2527C>A	c.(2527-2529)CGG>AGG	p.R843R	UTRN_uc010khq.1_Silent_p.R843R	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	843	Interaction with SYNM.|Spectrin 6.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TCTTCCTTAGCGGGAATTGAC	0.458													17	68	---	---	---	---	PASS	A	144780310	A	A	144780310	2	1	22	1	0	0	0	0	0	0	0	1	17100	782	27	1		1	UTRN	6	144780310	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	5216367	144780310	26334757	97	10385										
SYNE1	23345	broad.mit.edu	37	chr6	152529337	152529337	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgtcaatttcaggttgaattCatccctagtgaagaaataat	7	6	3	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:152529337C>G	uc010kiw.2	-	125	23196	c.22594G>C	c.(22594-22596)GAA>CAA	p.E7532Q	SYNE1_uc010kiv.2_Missense_Mutation_p.E2056Q|SYNE1_uc003qos.3_Missense_Mutation_p.E2056Q|SYNE1_uc003qot.3_Missense_Mutation_p.E7461Q|SYNE1_uc003qou.3_Missense_Mutation_p.E7532Q|SYNE1_uc003qor.3_Missense_Mutation_p.E432Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7532	Cytoplasmic (Potential).|Spectrin 25.				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)		AGGTTGAATTCATCCCTAGTG	0.463										HNSCC(10;0.0054)			11	111	---	---	---	---	PASS	G	152529337	G	G	152529337	3	3	22	1	0	0	0	0	1	0	0	0	15442	835	29	2	3960	2	SYNE1	6	152529337	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	7749027	152529337	18585730	98	10386										
TFB1M	51106	broad.mit.edu	37	chr6	155579203	155579203	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gctttccaagcgctgcgcttCagggaataacattctgaggg	12	10	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr6:155579203C>T	uc003qqj.3	-	7	872	c.808G>A	c.(808-810)GAA>AAA	p.E270K	TFB1M_uc003qqk.2_Intron|uc003qqi.1_5'Flank	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	270					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		CGCTGCGCTTCAGGGAATAAC	0.448													43	207	---	---	---	---	PASS	T	155579203	T	T	155579203	3	4	22	1	0	0	0	0	1	0	0	0	15790	835	29	2	236	2	TFB1M	6	155579203	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	3049866	155579203	15535864	99	10387										
ITGB8	3696	broad.mit.edu	37	chr7	20441445	20441445	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tttaatgaaaccgctaaaatTcatatacacagaaactgcag	5	8	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr7:20441445T>G	uc003suu.2	+	10	2088	c.1383T>G	c.(1381-1383)ATT>ATG	p.I461M	ITGB8_uc011jyh.1_Missense_Mutation_p.I326M	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	461	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						CCGCTAAAATTCATATACACA	0.353													17	203	---	---	---	---	PASS	G	20441445	G	G	20441445	3	3	22	1	0	0	0	0	1	0	0	0	7901	1771	62	5	1421	5	ITGB8	7	20441445	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08		20441445	138697218	100	10388										
PDE1C	5137	broad.mit.edu	37	chr7	31864549	31864549	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aatggactcacaatcttctcGgtcatgtccgtaagcacagt	8	11	4	0	rs59159704		TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr7:31864549G>T	uc003tcm.1	-	13	1807	c.1338C>A	c.(1336-1338)ACC>ACA	p.T446T	PDE1C_uc003tcn.1_Silent_p.T446T|PDE1C_uc003tco.1_Silent_p.T506T|PDE1C_uc003tcr.2_Silent_p.T446T|PDE1C_uc003tcs.2_Silent_p.T446T	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	446	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			CAATCTTCTCGGTCATGTCCG	0.498													85	180	---	---	---	---	PASS	T	31864549	T	T	31864549	2	4	22	1	0	0	0	0	0	0	0	1	11635	1103	39	1		1	PDE1C	7	31864549	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	11423104	31864549	127274114	101	10389										
RELN	5649	broad.mit.edu	37	chr7	103180703	103180703	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agacggttgccaccagcgaaGgcgagtagaaccagaacggg	15	10	0	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr7:103180703G>A	uc003vca.2	-	44	7031	c.6871C>T	c.(6871-6873)CTT>TTT	p.L2291F	RELN_uc010liz.2_Missense_Mutation_p.L2291F	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2291					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CACCAGCGAAGGCGAGTAGAA	0.498													57	156	---	---	---	---	PASS	A	103180703	A	A	103180703	3	1	22	1	0	0	0	0	1	0	0	0	13220	1000	35	3	3599	3	RELN	7	103180703	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	71316154	103180703	55957960	102	10390										
RELN	5649	broad.mit.edu	37	chr7	103243798	103243798	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agagatgacaccacacccttGttctggttttacaatttctc	6	11	2	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr7:103243798G>C	uc003vca.2	-	24	3446	c.3286C>G	c.(3286-3288)CAA>GAA	p.Q1096E	RELN_uc010liz.2_Missense_Mutation_p.Q1096E	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1096					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCACACCCTTGTTCTGGTTTT	0.448													34	229	---	---	---	---	PASS	C	103243798	C	C	103243798	3	2	22	1	0	0	0	0	1	0	0	0	13220	1386	48	4	7264	4	RELN	7	103243798	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	63095	103243798	55894865	103	10391										
RELN	5649	broad.mit.edu	37	chr7	103301968	103301968	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ccaatgacagctcccaagacAtcccatctaaaaaaaaaggg	6	12	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr7:103301968A>C	uc003vca.2	-	12	1456	c.1296T>G	c.(1294-1296)GAT>GAG	p.D432E	RELN_uc010liz.2_Missense_Mutation_p.D432E	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	432					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CTCCCAAGACATCCCATCTAA	0.363													27	97	---	---	---	---	PASS	C	103301968	C	C	103301968	3	2	22	1	0	0	0	0	1	0	0	0	13220	214	8	5	9302	5	RELN	7	103301968	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	58170	103301968	55836695	104	10392										
ANKRD7	56311	broad.mit.edu	37	chr7	117874896	117874896	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cattagttgaaaaactgcttGaatacgaagctgatcttgaa	8	6	1	4			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr7:117874896G>T	uc003vji.2	+	3	609	c.436G>T	c.(436-438)GAA>TAA	p.E146*		NM_019644	NP_062618	Q92527	ANKR7_HUMAN	ankyrin repeat domain 7	146	ANK 3.				male gonad development						0						AAAACTGCTTGAATACGAAGC	0.328													37	128	---	---	---	---	PASS	T	117874896	T	T	117874896	4	4	22	1	0	0	0	0	0	1	0	0	686	1291	45	2	446	2	ANKRD7	7	117874896	Nonsense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	14572928	117874896	41263767	105	10393										
TPK1	27010	broad.mit.edu	37	chr7	144380018	144380018	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	atacctttctctctctccttCggtgatatcatataagcggt	6	11	3	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr7:144380018C>G	uc003weq.2	-	4	272	c.169G>C	c.(169-171)GAA>CAA	p.E57Q	TPK1_uc003weo.2_Silent_p.P11P|TPK1_uc003wep.2_RNA|TPK1_uc003wer.2_Missense_Mutation_p.E57Q|TPK1_uc003wes.2_RNA	NM_022445	NP_071890	Q9H3S4	TPK1_HUMAN	thiamin pyrophosphokinase 1 isoform a	57					thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)	CTCTCTCCTTCGGTGATATCA	0.393													66	443	---	---	---	---	PASS	G	144380018	G	G	144380018	3	3	22	1	0	0	0	0	1	0	0	0	16401	893	31	2	586	2	TPK1	7	144380018	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	26505122	144380018	14758645	106	10394										
SSPO	23145	broad.mit.edu	37	chr7	149476125	149476125	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	accccttctcagatgacttcAtggagccaggcggagggctg	13	12	2	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr7:149476125A>G	uc010lpk.2	+	8	1003	c.1003A>G	c.(1003-1005)ATG>GTG	p.M335V	SSPO_uc010lpl.1_Intron	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	335	VWFD 1.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AGATGACTTCATGGAGCCAGG	0.627													26	51	---	---	---	---	PASS	G	149476125	G	G	149476125	3	3	22	1	0	0	0	0	1	0	0	0	15188	217	8	5	1033	5	SSPO	7	149476125	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	5096107	149476125	9662538	107	10395										
PXDNL	137902	broad.mit.edu	37	chr8	52323844	52323844	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tccacagtgagcccctgcttCacacgttcccgtatcagctg	8	16	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr8:52323844C>T	uc003xqu.3	-	16	2129	c.2028G>A	c.(2026-2028)GTG>GTA	p.V676V	PXDNL_uc003xqt.3_5'Flank	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	676					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GCCCCTGCTTCACACGTTCCC	0.512													16	15	---	---	---	---	PASS	T	52323844	T	T	52323844	2	4	22	1	0	0	0	0	0	0	0	1	12848	813	29	2		2	PXDNL	8	52323844	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08		52323844	94040178	108	10396										
ABRA	137735	broad.mit.edu	37	chr8	107773334	107773334	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	atctctccttcaaagtctacCagtccatgtttcctggcacg	6	14	3	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr8:107773334C>G	uc003ymm.3	-	2	1131	c.1077G>C	c.(1075-1077)CTG>CTC	p.L359L		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	359	Interaction with actin (By similarity).				positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			CAAAGTCTACCAGTCCATGTT	0.438													10	379	---	---	---	---	PASS	G	107773334	G	G	107773334	2	3	22	1	0	0	0	0	0	0	0	1	100	581	21	4		4	ABRA	8	107773334	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	55449490	107773334	38590688	109	10397										
FAM135B	51059	broad.mit.edu	37	chr8	139164667	139164667	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cactctcaatgcctgaatcaGatatgatggatgaagatctc	8	9	3	5			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr8:139164667G>C	uc003yuy.2	-	13	2222	c.2051C>G	c.(2050-2052)TCT>TGT	p.S684C	FAM135B_uc003yux.2_Missense_Mutation_p.S585C|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.S246C|FAM135B_uc003yvb.2_Missense_Mutation_p.S246C	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	684										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)			GCCTGAATCAGATATGATGGA	0.527										HNSCC(54;0.14)			25	158	---	---	---	---	PASS	C	139164667	C	C	139164667	3	2	22	1	0	0	0	0	1	0	0	0	5449	942	33	2	2201	2	FAM135B	8	139164667	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	31391333	139164667	7199355	110	10398										
KCNK9	51305	broad.mit.edu	37	chr8	140630669	140630669	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tagtggggggcaagcttggcGctgaaggagttctgcggtgc	19	7	1	1	rs140285421		TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr8:140630669G>A	uc003yvf.1	-	2	1021	c.957C>T	c.(955-957)AGC>AGT	p.S319S	KCNK9_uc003yvg.1_Silent_p.S319S|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	319	Cytoplasmic (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			CAAGCTTGGCGCTGAAGGAGT	0.577													42	89	---	---	---	---	PASS	A	140630669	A	A	140630669	2	1	22	1	0	0	0	0	0	0	0	1	8072	1078	38	1		1	KCNK9	8	140630669	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	1466002	140630669	5733353	111	10399										
CYP11B1	1584	broad.mit.edu	37	chr8	143957739	143957739	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ccgcattcaacaggagctccGccacgatgctggtgtactgt	11	13	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr8:143957739G>A	uc003yxi.2	-	5	879	c.872C>T	c.(871-873)GCG>GTG	p.A291V	CYP11B1_uc010mex.2_5'Flank|CYP11B1_uc003yxh.2_5'UTR|CYP11B1_uc003yxj.2_Missense_Mutation_p.A291V|CYP11B1_uc010mey.2_Missense_Mutation_p.A362V	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	291					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	CAGGAGCTCCGCCACGATGCT	0.592									Familial_Hyperaldosteronism_type_I				36	38	---	---	---	---	PASS	A	143957739	A	A	143957739	3	1	22	1	0	0	0	0	1	0	0	0	4145	1087	38	1	659	1	CYP11B1	8	143957739	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	3327070	143957739	2406283	112	10400										
PPP1R16A	84988	broad.mit.edu	37	chr8	145727009	145727009	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gagtgtctcctaccagctgaGccccctggacagcaccaccc	9	18	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr8:145727009G>A	uc003zdd.2	+	11	2223	c.1310G>A	c.(1309-1311)AGC>AAC	p.S437N	uc003zde.1_5'Flank|PPP1R16A_uc003zdf.2_Missense_Mutation_p.S437N|GPT_uc011lli.1_5'Flank|GPT_uc011llj.1_5'Flank|GPT_uc003zdh.3_5'Flank	NM_032902	NP_116291	Q96I34	PP16A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	437						plasma membrane	protein binding				0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			TACCAGCTGAGCCCCCTGGAC	0.652													9	19	---	---	---	---	PASS	A	145727009	A	A	145727009	3	1	22	1	0	0	0	0	1	0	0	0	12365	971	34	3	1348	3	PPP1R16A	8	145727009	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	1769270	145727009	637013	113	10401										
DDX58	23586	broad.mit.edu	37	chr9	32526089	32526089	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ccagggggccatgtagctcaGgatgtaggtagggtccaggg	18	8	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:32526089G>T	uc003zra.2	-	1	234	c.76C>A	c.(76-78)CTG>ATG	p.L26M	DDX58_uc010mjj.2_RNA|DDX58_uc010mjk.1_Missense_Mutation_p.L26M|DDX58_uc011lnr.1_Translation_Start_Site	NM_014314	NP_055129	O95786	DDX58_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	26	CARD 1.				detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		ATGTAGCTCAGGATGTAGGTA	0.572													18	100	---	---	---	---	PASS	T	32526089	T	T	32526089	3	4	22	1	0	0	0	0	1	0	0	0	4375	991	35	3	2773	3	DDX58	9	32526089	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08		32526089	108687342	114	10402										
FLJ46321	389763	broad.mit.edu	37	chr9	84606183	84606183	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctccaacctgaagccagtttGtctctgaacaccatcttttc	5	14	2	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:84606183G>T	uc004amn.2	+	4	845	c.798G>T	c.(796-798)TTG>TTT	p.L266F		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	266						integral to membrane					0						AAGCCAGTTTGTCTCTGAACA	0.512													65	537	---	---	---	---	PASS	T	84606183	T	T	84606183	3	4	22	1	0	0	0	0	1	0	0	0	5932	1368	48	3	812	3	FLJ46321	9	84606183	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	52080094	84606183	56607248	115	10403										
FBP2	8789	broad.mit.edu	37	chr9	97333768	97333768	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tcaagcatgaagaggtccacGccttgccctgtggagagagc	13	11	1	3	rs144416702		TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:97333768G>C	uc004auv.2	-	4	610	c.543C>G	c.(541-543)GGC>GGG	p.G181G	uc004auu.2_Intron	NM_003837	NP_003828	O00757	F16P2_HUMAN	fructose-1,6-bisphosphatase 2	181					fructose metabolic process|gluconeogenesis	cytosol	fructose 1,6-bisphosphate 1-phosphatase activity|fructose-2,6-bisphosphate 2-phosphatase activity|metal ion binding				0		Acute lymphoblastic leukemia(62;0.136)				AGAGGTCCACGCCTTGCCCTG	0.562													24	126	---	---	---	---	PASS	C	97333768	C	C	97333768	2	2	22	1	0	0	0	0	0	0	0	1	5706	1074	38	4		4	FBP2	9	97333768	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	12727585	97333768	43879663	116	10404										
FAM22G	441457	broad.mit.edu	37	chr9	99699495	99699495	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tccctgaggagatcccccctGaagtggtgcaggagtatgtg	14	10	0	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:99699495G>T	uc004awq.1	+	5	1847	c.1132G>T	c.(1132-1134)GAA>TAA	p.E378*	HIATL2_uc004awr.1_Intron	NM_001045477	NP_001038942	Q5VZR2	FA22G_HUMAN	hypothetical protein LOC441457	378										skin(1)	1		Acute lymphoblastic leukemia(62;0.0527)				GATCCCCCCTGAAGTGGTGCA	0.652													31	127	---	---	---	---	PASS	T	99699495	T	T	99699495	4	4	22	1	0	0	0	0	0	1	0	0	5546	1291	45	2	1150	2	FAM22G	9	99699495	Nonsense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	2365727	99699495	41513936	117	10405										
FAM22G	441457	broad.mit.edu	37	chr9	99699561	99699561	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctcaccctggggacacagggGagcctgagggacaacgggaa	16	11	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:99699561G>A	uc004awq.1	+	5	1913	c.1198G>A	c.(1198-1200)GAG>AAG	p.E400K	HIATL2_uc004awr.1_Intron	NM_001045477	NP_001038942	Q5VZR2	FA22G_HUMAN	hypothetical protein LOC441457	400										skin(1)	1		Acute lymphoblastic leukemia(62;0.0527)				GGACACAGGGGAGCCTGAGGG	0.607													25	90	---	---	---	---	PASS	A	99699561	A	A	99699561	3	1	22	1	0	0	0	0	1	0	0	0	5546	1175	41	2	1216	2	FAM22G	9	99699561	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	66	99699561	41513870	118	10406										
KIAA1529	57653	broad.mit.edu	37	chr9	100124529	100124529	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgtgacaaagatccgtcccaGacaggtagaggcgcatgggc	14	10	0	4			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:100124529G>C	uc011lut.1	+	40	5030	c.4257G>C	c.(4255-4257)CAG>CAC	p.Q1419H	KIAA1529_uc004axe.1_Missense_Mutation_p.Q1251H|KIAA1529_uc004axg.1_Missense_Mutation_p.Q1280H|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Missense_Mutation_p.Q436H	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				ATCCGTCCCAGACAGGTAGAG	0.597													41	235	---	---	---	---	PASS	C	100124529	C	C	100124529	3	2	22	1	0	0	0	0	1	0	0	0	8240	933	33	2	3863	2	KIAA1529	9	100124529	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	424968	100124529	41088902	119	10407										
GRIN3A	116443	broad.mit.edu	37	chr9	104390665	104390665	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gacagttccaaagcggaatcCttgggaaggatgatgtaact	12	7	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:104390665C>A	uc004bbp.1	-	4	2972	c.2371G>T	c.(2371-2373)GGA>TGA	p.G791*	GRIN3A_uc004bbq.1_Nonsense_Mutation_p.G791*	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	791	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	AAGCGGAATCCTTGGGAAGGA	0.343													8	112	---	---	---	---	PASS	A	104390665	A	A	104390665	4	1	22	1	0	0	0	0	0	1	0	0	6783	690	24	3	1000	3	GRIN3A	9	104390665	Nonsense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	4266136	104390665	36822766	120	10408										
ZNF462	58499	broad.mit.edu	37	chr9	109746651	109746651	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgctactatgagaccaagcaCacggaggaactggacagcca	11	11	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:109746651C>A	uc004bcz.2	+	10	7306	c.7017C>A	c.(7015-7017)CAC>CAA	p.H2339Q	ZNF462_uc010mto.2_Missense_Mutation_p.H2248Q|ZNF462_uc004bda.2_Missense_Mutation_p.H2247Q|ZNF462_uc011lvz.1_Missense_Mutation_p.H296Q|uc004bdc.1_Intron	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	2339	C2H2-type 26.				transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						AGACCAAGCACACGGAGGAAC	0.537													19	178	---	---	---	---	PASS	A	109746651	A	A	109746651	3	1	22	1	0	0	0	0	1	0	0	0	17923	477	17	3	7051	3	ZNF462	9	109746651	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	5355986	109746651	31466780	121	10409										
STRBP	55342	broad.mit.edu	37	chr9	125921449	125921449	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cagcgcccaaaggtctattaCaagtacctatagacttttca	6	11	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:125921449C>T	uc004bns.2	-	9	1191	c.761G>A	c.(760-762)TGT>TAT	p.C254Y	STRBP_uc004bnt.2_Missense_Mutation_p.C72Y|STRBP_uc004bnu.2_Missense_Mutation_p.C240Y|STRBP_uc004bnv.2_Missense_Mutation_p.C254Y	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	254	DZF.				multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2						AGGTCTATTACAAGTACCTAT	0.398													33	129	---	---	---	---	PASS	T	125921449	T	T	125921449	3	4	22	1	0	0	0	0	1	0	0	0	15326	478	17	3	1301	3	STRBP	9	125921449	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	16174798	125921449	15291982	122	10410										
NAIF1	203245	broad.mit.edu	37	chr9	130829300	130829300	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tggttcaccagcaggtgcttCttcagctccagctcctccac	8	16	3	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:130829300C>G	uc004bta.2	-	1	300	c.81G>C	c.(79-81)AAG>AAC	p.K27N	NAIF1_uc004bsz.2_RNA|SLC25A25_uc004btb.2_5'Flank	NM_197956	NP_931045	Q69YI7	NAIF1_HUMAN	nuclear apoptosis inducing factor 1	27	Required for nuclear localization and apoptosis-inducing activity.				apoptosis|induction of apoptosis	nucleus					0						GCAGGTGCTTCTTCAGCTCCA	0.622													72	308	---	---	---	---	PASS	G	130829300	G	G	130829300	3	3	22	1	0	0	0	0	1	0	0	0	10146	912	32	2	910	2	NAIF1	9	130829300	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	4907851	130829300	10384131	123	10411										
SPTAN1	6709	broad.mit.edu	37	chr9	131381253	131381253	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgaccctggtggccagcgaaGattatggcgacactcttgcc	12	12	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:131381253G>C	uc004bvl.3	+	43	5802	c.5689G>C	c.(5689-5691)GAT>CAT	p.D1897H	SPTAN1_uc004bvm.3_Missense_Mutation_p.D1902H|SPTAN1_uc004bvn.3_Missense_Mutation_p.D1877H	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1897	Spectrin 20.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						GGCCAGCGAAGATTATGGCGA	0.507													4	93	---	---	---	---	PASS	C	131381253	C	C	131381253	3	2	22	1	0	0	0	0	1	0	0	0	15116	942	33	2	5874	2	SPTAN1	9	131381253	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	551953	131381253	9832178	124	10412										
NUP188	23511	broad.mit.edu	37	chr9	131733096	131733096	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	catcatgccccagtgcttttGgcctgggctctcctccgtca	9	16	3	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:131733096G>T	uc004bws.1	+	11	994	c.972G>T	c.(970-972)TTG>TTT	p.L324F		NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	324					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						CAGTGCTTTTGGCCTGGGCTC	0.488													33	159	---	---	---	---	PASS	T	131733096	T	T	131733096	3	4	22	1	0	0	0	0	1	0	0	0	10758	1339	47	3	1014	3	NUP188	9	131733096	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	351843	131733096	9480335	125	10413										
TOR1B	27348	broad.mit.edu	37	chr9	132571783	132571783	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cacaagagtggcagaggaaaTgacgtttttccccagagacg	12	9	0	4			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr9:132571783T>C	uc004byk.1	+	5	992	c.932T>C	c.(931-933)ATG>ACG	p.M311T		NM_014506	NP_055321	O14657	TOR1B_HUMAN	torsin family 1, member B (torsin B) precursor	311					chaperone mediated protein folding requiring cofactor|response to unfolded protein	endoplasmic reticulum lumen	ATP binding|nucleoside-triphosphatase activity|unfolded protein binding				0		Ovarian(14;0.0586)				GCAGAGGAAATGACGTTTTTC	0.512													32	155	---	---	---	---	PASS	C	132571783	C	C	132571783	3	2	22	1	0	0	0	0	1	0	0	0	16371	1464	51	5	950	5	TOR1B	9	132571783	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	838687	132571783	8641648	126	10414										
IDI1	3422	broad.mit.edu	37	chr10	1089329	1089329	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	acactaaaagctcgatgcaaTaatcctgaaagcaaaagaaa	6	8	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr10:1089329T>A	uc001iga.2	-	3	436	c.318A>T	c.(316-318)TTA>TTT	p.L106F	C10orf110_uc010qaf.1_Intron|C10orf110_uc001ifx.3_Intron|C10orf110_uc001ifw.3_Intron|C10orf110_uc001ify.3_Intron|IDI1_uc001ifz.2_Missense_Mutation_p.L50F|IDI1_uc001igb.2_RNA|IDI1_uc001igc.2_Missense_Mutation_p.L50F	NM_004508	NP_004499	Q13907	IDI1_HUMAN	isopentenyl-diphosphate delta isomerase	49	Nudix hydrolase.				carotenoid biosynthetic process|cholesterol biosynthetic process	cytosol|peroxisome	hydrolase activity|isopentenyl-diphosphate delta-isomerase activity|metal ion binding				0		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.221)	Epithelial(11;0.0972)		CTCGATGCAATAATCCTGAAA	0.353													11	114	---	---	---	---	PASS	A	1089329	A	A	1089329	3	1	22	1	0	0	0	0	1	0	0	0	7499	1403	49	5	548	5	IDI1	10	1089329	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08		1089329	134445418	127	10415										
GATA3	2625	broad.mit.edu	37	chr10	8115958	8115958	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gtcctttggaccacaccaccCctccagcatggtcaccgcca	7	19	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr10:8115958C>G	uc001ika.2	+	6	1861	c.1304C>G	c.(1303-1305)CCC>CGC	p.P435R	GATA3_uc001ijz.2_Missense_Mutation_p.P436R	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	435					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						CCACACCACCCCTCCAGCATG	0.627			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						10	76	---	---	---	---	PASS	G	8115958	G	G	8115958	3	3	22	1	0	0	0	0	1	0	0	0	6255	623	22	4	1325	4	GATA3	10	8115958	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	7026629	8115958	127418789	128	10416										
ITGA8	8516	broad.mit.edu	37	chr10	15729992	15729992	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	caaaccactgattggatttgAactcgataggttctttggtt	9	7	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr10:15729992A>T	uc001ioc.1	-	3	389	c.389T>A	c.(388-390)TTC>TAC	p.F130Y	ITGA8_uc010qcb.1_Missense_Mutation_p.F130Y	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	130	Extracellular (Potential).|FG-GAP 2.				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						ATTGGATTTGAACTCGATAGG	0.408													58	265	---	---	---	---	PASS	T	15729992	T	T	15729992	3	4	22	1	0	0	0	0	1	0	0	0	7882	246	9	5	2914	5	ITGA8	10	15729992	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	7614034	15729992	119804755	129	10417										
CUBN	8029	broad.mit.edu	37	chr10	16990574	16990574	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gcgctgctgaaggatgtgatAggatggggcatgtcggtgcc	18	7	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr10:16990574A>T	uc001ioo.2	-	35	5164	c.5112T>A	c.(5110-5112)CCT>CCA	p.P1704P		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1704	CUB 11.				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)	AGGATGTGATAGGATGGGGCA	0.507													11	57	---	---	---	---	PASS	T	16990574	T	T	16990574	2	4	22	1	0	0	0	0	0	0	0	1	4051	407	15	5		5	CUBN	10	16990574	Silent	SNP	A	TCGA-21-1077-01A-01D-1521-08	1260582	16990574	118544173	130	10418										
ARHGAP21	57584	broad.mit.edu	37	chr10	24874554	24874554	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aaaaccttgccagggaggccTgggaagacgtgctgagcaaa	14	9	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr10:24874554T>C	uc001isb.2	-	26	5151	c.4664A>G	c.(4663-4665)CAG>CGG	p.Q1555R	ARHGAP21_uc010qdb.1_RNA	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	1554					signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						CAGGGAGGCCTGGGAAGACGT	0.522													28	221	---	---	---	---	PASS	C	24874554	C	C	24874554	3	2	22	1	0	0	0	0	1	0	0	0	871	1580	55	5	1216	5	ARHGAP21	10	24874554	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	7883980	24874554	110660193	131	10419										
MYO3A	53904	broad.mit.edu	37	chr10	26359049	26359049	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ttaacctttagcattccaaaCtatatattggatcaaagaga	5	7	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr10:26359049C>T	uc001isn.2	+	13	1540	c.1180C>T	c.(1180-1182)CTA>TTA	p.L394L	MYO3A_uc009xko.1_Silent_p.L394L|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Silent_p.L394L	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	394	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity	p.L394I(1)		ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GCATTCCAAACTATATATTGG	0.303													13	104	---	---	---	---	PASS	T	26359049	T	T	26359049	2	4	22	1	0	0	0	0	0	0	0	1	10076	564	20	3		3	MYO3A	10	26359049	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	1484495	26359049	109175698	132	10420										
GDF2	2658	broad.mit.edu	37	chr10	48414241	48414241	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cggacccagcgcttcacggcGctggacacttccaaggtctc	11	16	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr10:48414241G>T	uc001jfa.1	-	2	790	c.627C>A	c.(625-627)AGC>AGA	p.S209R		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	209					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						GCTTCACGGCGCTGGACACTT	0.572													29	155	---	---	---	---	PASS	T	48414241	T	T	48414241	3	4	22	1	0	0	0	0	1	0	0	0	6314	1078	38	1	666	1	GDF2	10	48414241	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	22055192	48414241	87120506	133	10421										
PCDH15	65217	broad.mit.edu	37	chr10	55626539	55626539	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	atatgtttccactacaaatcCttcttttccctctttaattg	2	11	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr10:55626539C>A	uc001jju.1	-	27	3975	c.3580G>T	c.(3580-3582)GGA>TGA	p.G1194*	PCDH15_uc010qhq.1_Nonsense_Mutation_p.G1199*|PCDH15_uc010qhr.1_Nonsense_Mutation_p.G1194*|PCDH15_uc010qhs.1_Nonsense_Mutation_p.G1206*|PCDH15_uc010qht.1_Nonsense_Mutation_p.G1201*|PCDH15_uc010qhu.1_Nonsense_Mutation_p.G1194*|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Nonsense_Mutation_p.G1194*|PCDH15_uc010qhw.1_Nonsense_Mutation_p.G1157*|PCDH15_uc010qhx.1_Nonsense_Mutation_p.G1123*|PCDH15_uc010qhy.1_Nonsense_Mutation_p.G1199*|PCDH15_uc010qhz.1_Nonsense_Mutation_p.G1194*|PCDH15_uc010qia.1_Nonsense_Mutation_p.G1172*|PCDH15_uc010qib.1_Nonsense_Mutation_p.G1172*	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1194	Cadherin 11.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ACTACAAATCCTTCTTTTCCC	0.378										HNSCC(58;0.16)			26	208	---	---	---	---	PASS	A	55626539	A	A	55626539	4	1	22	1	0	0	0	0	0	1	0	0	11511	690	24	3	3934	3	PCDH15	10	55626539	Nonsense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	7212298	55626539	79908208	134	10422										
USP54	159195	broad.mit.edu	37	chr10	75294514	75294514	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgttcgagtgtcacttgagaTggagggctccctccctgaga	13	10	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr10:75294514T>C	uc001juo.2	-	10	1176	c.1159A>G	c.(1159-1161)ATC>GTC	p.I387V	USP54_uc001jum.2_RNA|USP54_uc001jun.2_Intron|USP54_uc001jup.2_Missense_Mutation_p.I387V|USP54_uc010qkl.1_Missense_Mutation_p.I387V	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	387					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					TCACTTGAGATGGAGGGCTCC	0.473													12	81	---	---	---	---	PASS	C	75294514	C	C	75294514	3	2	22	1	0	0	0	0	1	0	0	0	17082	1464	51	5	3947	5	USP54	10	75294514	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	19667975	75294514	60240233	135	10423										
C10orf46	143384	broad.mit.edu	37	chr10	120488808	120488808	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aatacaatcagttctttaccTgcagctcctttgagactctc	5	12	3	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr10:120488808T>A	uc001lds.1	-	3	1080	c.596A>T	c.(595-597)CAG>CTG	p.Q199L	C10orf46_uc010qst.1_RNA	NM_153810	NP_722517	Q86Y37	CJ046_HUMAN	chromosome 10 open reading frame 46	199					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding				0		Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0131)		GTTCTTTACCTGCAGCTCCTT	0.363													17	172	---	---	---	---	PASS	A	120488808	A	A	120488808	3	1	22	1	0	0	0	0	1	0	0	0	1604	1594	55	5	541	5	C10orf46	10	120488808	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	45194294	120488808	15045939	136	10424										
FANK1	92565	broad.mit.edu	37	chr10	127677168	127677168	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ggtctggaaccaaggacgctGtacagatttcgcctgaaggt	13	9	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr10:127677168G>C	uc001ljh.3	+	3	344	c.240G>C	c.(238-240)CTG>CTC	p.L80L	FANK1_uc010quk.1_Silent_p.L74L|FANK1_uc009yan.2_Silent_p.L80L|FANK1_uc001lji.2_Silent_p.L74L	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains	80	Fibronectin type-III.					cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)				CAAGGACGCTGTACAGATTTC	0.512													57	277	---	---	---	---	PASS	C	127677168	C	C	127677168	2	2	22	1	0	0	0	0	0	0	0	1	5672	1364	48	4		4	FANK1	10	127677168	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	7188360	127677168	7857579	137	10425										
OR51B2	79345	broad.mit.edu	37	chr11	5344690	5344690	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gttcattaaaggaggaaagaGgaagtagatgtaactcatga	12	3	2	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:5344690G>T	uc001mao.1	-	1	893	c.838C>A	c.(838-840)CTC>ATC	p.L280I	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	280	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGAGGAAAGAGGAAGTAGATG	0.363													63	123	---	---	---	---	PASS	T	5344690	T	T	5344690	3	4	22	1	0	0	0	0	1	0	0	0	11089	1000	35	3	104	3	OR51B2	11	5344690	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08		5344690	129661826	138	10426										
OR56B1	387748	broad.mit.edu	37	chr11	5758097	5758097	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tatgccattcacttctttgtGggcatggagtctggtatcct	10	9	3	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:5758097G>T	uc001mbt.1	+	1	351	c.351G>T	c.(349-351)GTG>GTT	p.V117V	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|OR56B1_uc001mbs.1_Silent_p.V117V|OR56B1_uc009yev.1_Silent_p.V117V	NM_001005180	NP_001005180	Q8NGI3	O56B1_HUMAN	olfactory receptor, family 56, subfamily B,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.086)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.184)		ACTTCTTTGTGGGCATGGAGT	0.443													29	75	---	---	---	---	PASS	T	5758097	T	T	5758097	2	4	22	1	0	0	0	0	0	0	0	1	11137	1335	47	3		3	OR56B1	11	5758097	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	413407	5758097	129248419	139	10427										
HPX	3263	broad.mit.edu	37	chr11	6453216	6453216	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ggccagctatgccagccatcCcggctggtgtccagacgcca	12	16	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:6453216C>A	uc001mdg.2	-	8	928	c.867G>T	c.(865-867)CGG>CGT	p.R289R	HPX_uc001mdf.2_Silent_p.R35R|HPX_uc009yfc.2_RNA	NM_000613	NP_000604	P02790	HEMO_HUMAN	hemopexin precursor	289	Hemopexin-like 4.				cellular iron ion homeostasis|interspecies interaction between organisms	extracellular space	heme transporter activity|metal ion binding|protein binding				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;5.46e-08)|BRCA - Breast invasive adenocarcinoma(625;0.19)		GCCAGCCATCCCGGCTGGTGT	0.577													25	228	---	---	---	---	PASS	A	6453216	A	A	6453216	2	1	22	1	0	0	0	0	0	0	0	1	7346	610	22	3		3	HPX	11	6453216	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	695119	6453216	128553300	140	10428										
CCDC73	493860	broad.mit.edu	37	chr11	32663553	32663553	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tcctagtgctttttcatgctCattttgaagattaagaaact	6	7	2	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:32663553C>G	uc001mtv.2	-	13	1059	c.1015G>C	c.(1015-1017)GAG>CAG	p.E339Q	CCDC73_uc001mtw.1_Missense_Mutation_p.E329Q	NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	339	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					TTTTCATGCTCATTTTGAAGA	0.244													25	54	---	---	---	---	PASS	G	32663553	G	G	32663553	3	3	22	1	0	0	0	0	1	0	0	0	2846	835	29	2	2248	2	CCDC73	11	32663553	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	26210337	32663553	102342963	141	10429										
DGKZ	8525	broad.mit.edu	37	chr11	46388861	46388861	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gaaagccatcaccaagtcggGcctccagcacctggcccccc	9	19	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:46388861G>C	uc001ncn.1	+	3	874	c.749G>C	c.(748-750)GGC>GCC	p.G250A	DGKZ_uc001nch.1_Missense_Mutation_p.G78A|DGKZ_uc010rgq.1_Missense_Mutation_p.G27A|DGKZ_uc001ncj.1_Missense_Mutation_p.G27A|DGKZ_uc010rgr.1_Missense_Mutation_p.G27A|DGKZ_uc001nck.1_5'UTR|DGKZ_uc001ncl.2_Missense_Mutation_p.G61A|DGKZ_uc001ncm.2_Missense_Mutation_p.G61A|DGKZ_uc009yky.1_Missense_Mutation_p.G61A|DGKZ_uc010rgs.1_Missense_Mutation_p.G61A|DGKZ_uc001nci.1_Missense_Mutation_p.G27A	NM_001105540	NP_001099010	Q13574	DGKZ_HUMAN	diacylglycerol kinase zeta isoform 4	250					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell migration|intracellular signal transduction|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of mitotic cell cycle|platelet activation	cytoplasm|lamellipodium|nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|diacylglycerol kinase activity|lipid kinase activity|metal ion binding|protein binding|protein C-terminus binding			pancreas(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.0259)|Lung(87;0.141)		ACCAAGTCGGGCCTCCAGCAC	0.662													8	63	---	---	---	---	PASS	C	46388861	C	C	46388861	3	2	22	1	0	0	0	0	1	0	0	0	4474	1203	42	4	1199	4	DGKZ	11	46388861	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	13725308	46388861	88617655	142	10430										
FNBP4	23360	broad.mit.edu	37	chr11	47744580	47744580	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gtggtggcattttgggagctGgtggtggtggaggaggagga	23	2	0	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:47744580G>A	uc009ylv.2	-	15	2906	c.2753C>T	c.(2752-2754)CCA>CTA	p.P918L	FNBP4_uc001ngi.2_Missense_Mutation_p.P232L|FNBP4_uc001ngj.2_Missense_Mutation_p.P825L	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	918	Pro-rich.									ovary(1)	1						TTTGGGAGCtggtggtggtgg	0.299													4	8	---	---	---	---	PASS	A	47744580	A	A	47744580	3	1	22	1	0	0	0	0	1	0	0	0	5967	1348	47	3	312	3	FNBP4	11	47744580	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	1355719	47744580	87261936	143	10431										
OR5L1	219437	broad.mit.edu	37	chr11	55579674	55579674	+	Missense_Mutation	SNP	C	A	A													0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ttctccacctgtgcttcccaCctcacagctatcactgtctt					rs145975508		TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:55579674C>A	uc001nhw.1	+	1	732	c.732C>A	c.(730-732)CAC>CAA	p.H244Q		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				GTGCTTCCCACCTCACAGCTA	0.517													18	181	---	---	---	---	PASS	A	55579674	A	A	55579674	3	1	22	1	0	0	0	0	1	0	0	0	11170	506	18	3	734	3	OR5L1	11	55579674	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	7835094	55579674	79426842	144	10432	296	2								
OR5L1	219437	broad.mit.edu	37	chr11	55579675	55579675	+	Missense_Mutation	SNP	C	A	A													0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tctccacctgtgcttcccacCtcacagctatcactgtcttc							TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:55579675C>A	uc001nhw.1	+	1	733	c.733C>A	c.(733-735)CTC>ATC	p.L245I		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				TGCTTCCCACCTCACAGCTAT	0.517													18	181	---	---	---	---	PASS	A	55579675	A	A	55579675	3	1	22	1	0	0	0	0	1	0	0	0	11170	681	24	3	735	3	OR5L1	11	55579675	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	1	55579675	79426841	145	10433	296	2								
GIF	2694	broad.mit.edu	37	chr11	59610591	59610591	+	Missense_Mutation	SNP	G	T	T													0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ggtgagggccatgatggtgaGgccgagctgcccaatggtta							TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:59610591G>T	uc001noi.2	-	3	328	c.280C>A	c.(280-282)CTC>ATC	p.L94I	GIF_uc010rkz.1_Missense_Mutation_p.L94I	NM_005142	NP_005133	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	94					cobalamin metabolic process|cobalamin transport|cobalt ion transport	apical plasma membrane|endosome|extracellular space|microvillus	cobalamin binding			ovary(1)|liver(1)	2						ATGATGGTGAGGCCGAGCTGC	0.532													9	101	---	---	---	---	PASS	T	59610591	T	T	59610591	3	4	22	1	0	0	0	0	1	0	0	0	6376	1000	35	3	1001	3	GIF	11	59610591	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	4030916	59610591	75395925	146	10434	297	2								
GIF	2694	broad.mit.edu	37	chr11	59610592	59610592	+	Silent	SNP	G	C	C													0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gtgagggccatgatggtgagGccgagctgcccaatggttag							TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:59610592G>C	uc001noi.2	-	3	327	c.279C>G	c.(277-279)GGC>GGG	p.G93G	GIF_uc010rkz.1_Silent_p.G93G	NM_005142	NP_005133	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	93					cobalamin metabolic process|cobalamin transport|cobalt ion transport	apical plasma membrane|endosome|extracellular space|microvillus	cobalamin binding			ovary(1)|liver(1)	2						TGATGGTGAGGCCGAGCTGCC	0.527													9	101	---	---	---	---	PASS	C	59610592	C	C	59610592	2	2	22	1	0	0	0	0	0	0	0	1	6376	1190	42	4		4	GIF	11	59610592	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	1	59610592	75395924	147	10435	297	2								
STIP1	10963	broad.mit.edu	37	chr11	63967716	63967716	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agatgccaaattatacagcaAtcgagctgcctgctacacca	7	12	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:63967716A>G	uc001nyk.1	+	10	1343	c.1196A>G	c.(1195-1197)AAT>AGT	p.N399S	STIP1_uc010rnb.1_Missense_Mutation_p.N375S	NM_006819	NP_006810	P31948	STIP1_HUMAN	stress-induced-phosphoprotein 1	399	TPR 8.				axon guidance|response to stress	Golgi apparatus|nucleus				ovary(2)|liver(1)	3						TTATACAGCAATCGAGCTGCC	0.512													142	328	---	---	---	---	PASS	G	63967716	G	G	63967716	3	3	22	1	0	0	0	0	1	0	0	0	15284	101	4	5	1234	5	STIP1	11	63967716	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	4357124	63967716	71038800	148	10436										
NPAS4	266743	broad.mit.edu	37	chr11	66191621	66191621	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gcagaactaagcaaggatctTgtgtgcactccaccttacac	8	12	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:66191621T>C	uc001ohx.1	+	7	1436	c.1260T>C	c.(1258-1260)CTT>CTC	p.L420L	NPAS4_uc010rpc.1_Silent_p.L210L	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	420					transcription, DNA-dependent		DNA binding|signal transducer activity				0						GCAAGGATCTTGTGTGCACTC	0.562													50	313	---	---	---	---	PASS	C	66191621	C	C	66191621	2	2	22	1	0	0	0	0	0	0	0	1	10565	1799	63	5		5	NPAS4	11	66191621	Silent	SNP	T	TCGA-21-1077-01A-01D-1521-08	2223905	66191621	68814895	149	10437										
SHANK2	22941	broad.mit.edu	37	chr11	70332960	70332960	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ggctccctgggcgtggcactCggcatgggggatgacagctg	18	11	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:70332960C>A	uc001oqc.2	-	21	3516	c.3438G>T	c.(3436-3438)CCG>CCT	p.P1146P	SHANK2_uc010rqn.1_Silent_p.P558P|SHANK2_uc001opz.2_Silent_p.P551P|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	767					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)			GCGTGGCACTCGGCATGGGGG	0.687													18	108	---	---	---	---	PASS	A	70332960	A	A	70332960	2	1	22	1	0	0	0	0	0	0	0	1	14265	871	31	2		2	SHANK2	11	70332960	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	4141339	70332960	64673556	150	10438										
ODZ4	26011	broad.mit.edu	37	chr11	78380299	78380299	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	taaagacagcaagaggggtcCcgatgttgtcacaagctatg	12	8	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:78380299C>A	uc001ozl.3	-	32	7554	c.7091G>T	c.(7090-7092)GGG>GTG	p.G2364V	ODZ4_uc001ozk.3_Missense_Mutation_p.G589V|ODZ4_uc009yvb.1_Missense_Mutation_p.G948V	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2364	Extracellular (Potential).|YD 23.				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						AAGAGGGGTCCCGATGTTGTC	0.483													64	140	---	---	---	---	PASS	A	78380299	A	A	78380299	3	1	22	1	0	0	0	0	1	0	0	0	10837	623	22	3	1230	3	ODZ4	11	78380299	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	8047339	78380299	56626217	151	10439										
KBTBD3	143879	broad.mit.edu	37	chr11	105929622	105929622	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cactgcatgctgctaacacaCaacgatgacacgggattatt	8	11	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:105929622C>A	uc001pja.2	-	3	843	c.203G>T	c.(202-204)TGT>TTT	p.C68F	KBTBD3_uc001pjb.2_Missense_Mutation_p.C68F|KBTBD3_uc009yxm.2_Intron	NM_198439	NP_940841	Q8NAB2	KBTB3_HUMAN	BTB and kelch domain containing 3	64	BTB.									ovary(1)|central_nervous_system(1)	2		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.43e-05)|Epithelial(105;0.00418)|all cancers(92;0.0299)		TGCTAACACACAACGATGACA	0.308													5	130	---	---	---	---	PASS	A	105929622	A	A	105929622	3	1	22	1	0	0	0	0	1	0	0	0	7994	478	17	3	1643	3	KBTBD3	11	105929622	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	27549323	105929622	29076894	152	10440										
C11orf52	91894	broad.mit.edu	37	chr11	111789712	111789712	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gcgccatgggaaaccgggtcTgctgcggaggaagctggtga	18	9	1	1	rs140110474		TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:111789712T>A	uc001pmh.2	+	2	499	c.16T>A	c.(16-18)TGC>AGC	p.C6S	HSPB2_uc009yyj.2_RNA|C11orf52_uc001pmi.2_Missense_Mutation_p.C6S	NM_080659	NP_542390	Q96A22	CK052_HUMAN	hypothetical protein LOC91894	6										ovary(1)	1		all_cancers(61;8.8e-15)|all_epithelial(67;6.27e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.63e-07)|BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|all cancers(92;6.7e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0512)		AAACCGGGTCTGCTGCGGAGG	0.557													14	80	---	---	---	---	PASS	A	111789712	A	A	111789712	3	1	22	1	0	0	0	0	1	0	0	0	1647	1580	55	5	18	5	C11orf52	11	111789712	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	5860090	111789712	23216804	153	10441										
TECTA	7007	broad.mit.edu	37	chr11	121037356	121037356	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ggaagtgtccatatctaagtGcaagctcttccagctcggtt	10	10	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:121037356G>T	uc010rzo.1	+	17	5453	c.5453G>T	c.(5452-5454)TGC>TTC	p.C1818F		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1818	ZP.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		ATATCTAAGTGCAAGCTCTTC	0.483													14	210	---	---	---	---	PASS	T	121037356	T	T	121037356	3	4	22	1	0	0	0	0	1	0	0	0	15744	1319	46	3	5519	3	TECTA	11	121037356	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	9247644	121037356	13969160	154	10442										
OR8D1	283159	broad.mit.edu	37	chr11	124179936	124179936	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	caccacagccatgagatgagAgctgcatgttccaaaagctt	9	11	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:124179936A>T	uc010sag.1	-	1	727	c.727T>A	c.(727-729)TCT>ACT	p.S243T		NM_001002917	NP_001002917	Q8WZ84	OR8D1_HUMAN	olfactory receptor, family 8, subfamily D,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		ATGAGATGAGAGCTGCATGTT	0.522													8	101	---	---	---	---	PASS	T	124179936	T	T	124179936	3	4	22	1	0	0	0	0	1	0	0	0	11231	304	11	5	202	5	OR8D1	11	124179936	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	3142580	124179936	10826580	155	10443										
ESAM	90952	broad.mit.edu	37	chr11	124624230	124624230	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctccagcaaccactgcagctCcaggccctggaaaaggcgtc	10	16	0	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:124624230C>A	uc001qav.3	-	6	910	c.737G>T	c.(736-738)GGA>GTA	p.G246V	VSIG2_uc001qas.2_5'Flank|VSIG2_uc001qat.2_5'Flank|ESAM_uc010sao.1_Missense_Mutation_p.G67V|ESAM_uc001qau.3_Missense_Mutation_p.G173V|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Missense_Mutation_p.G246V	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	246	Extracellular (Potential).				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		CACTGCAGCTCCAGGCCCTGG	0.637													15	51	---	---	---	---	PASS	A	124624230	A	A	124624230	3	1	22	1	0	0	0	0	1	0	0	0	5247	855	30	2	443	2	ESAM	11	124624230	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	444294	124624230	10382286	156	10444										
ROBO3	64221	broad.mit.edu	37	chr11	124748308	124748308	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgaactgagctgcctagaagGgccggaggaggagctggagg	19	7	0	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr11:124748308G>T	uc001qbc.2	+	22	3488	c.3296G>T	c.(3295-3297)GGG>GTG	p.G1099V	ROBO3_uc001qbd.2_Missense_Mutation_p.G24V|ROBO3_uc010sar.1_Missense_Mutation_p.G148V|ROBO3_uc001qbe.2_Missense_Mutation_p.G24V|ROBO3_uc001qbf.1_Intron	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	1099	Cytoplasmic (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		TGCCTAGAAGGGCCGGAGGAG	0.632													12	82	---	---	---	---	PASS	T	124748308	T	T	124748308	3	4	22	1	0	0	0	0	1	0	0	0	13515	1232	43	3	3382	3	ROBO3	11	124748308	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	124078	124748308	10258208	157	10445										
PARP11	57097	broad.mit.edu	37	chr12	3931253	3931253	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agtcaattctgctcttacctGatatggtacttgagtattca	7	8	4	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr12:3931253G>A	uc001qmk.1	-	4	449	c.394C>T	c.(394-396)CAG>TAG	p.Q132*	PARP11_uc001qml.2_Nonsense_Mutation_p.Q139*|PARP11_uc009zef.2_RNA|PARP11_uc001qmm.2_Nonsense_Mutation_p.Q58*|PARP11_uc001qmn.2_Nonsense_Mutation_p.Q58*	NM_020367	NP_065100	Q9NR21	PAR11_HUMAN	poly (ADP-ribose) polymerase family, member 11	132	PARP catalytic.						NAD+ ADP-ribosyltransferase activity			ovary(1)|central_nervous_system(1)	2			all cancers(3;1.58e-07)|OV - Ovarian serous cystadenocarcinoma(31;0.00287)|GBM - Glioblastoma multiforme(3;0.0141)|COAD - Colon adenocarcinoma(12;0.0264)			GCTCTTACCTGATATGGTACT	0.378													34	176	---	---	---	---	PASS	A	3931253	A	A	3931253	4	1	22	1	0	0	0	0	0	1	0	0	11456	1299	45	2	617	2	PARP11	12	3931253	Nonsense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08		3931253	129920642	158	10446										
ACSM4	341392	broad.mit.edu	37	chr12	7480901	7480901	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aggtggaatttgttcaagaaCtcccaaagacaatcactggg	10	8	2	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr12:7480901C>T	uc001qsx.1	+	13	1675	c.1675C>T	c.(1675-1677)CTC>TTC	p.L559F		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	559					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						TGTTCAAGAACTCCCAAAGAC	0.403													5	15	---	---	---	---	PASS	T	7480901	T	T	7480901	3	4	22	1	0	0	0	0	1	0	0	0	186	565	20	3	1725	3	ACSM4	12	7480901	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	3549648	7480901	126370994	159	10447										
KRT72	140807	broad.mit.edu	37	chr12	52979845	52979845	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgagctcactgccacagctgCctttggtcttgacgtctgca	10	13	3	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr12:52979845C>G	uc001sar.2	-	9	1543	c.1457G>C	c.(1456-1458)GGC>GCC	p.G486A	KRT72_uc001saq.2_Missense_Mutation_p.G486A|KRT72_uc010sns.1_Missense_Mutation_p.G444A|KRT72_uc010snt.1_Missense_Mutation_p.G298A	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	486	Tail.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		GCCACAGCTGCCTTTGGTCTT	0.567													61	284	---	---	---	---	PASS	G	52979845	G	G	52979845	3	3	22	1	0	0	0	0	1	0	0	0	8485	739	26	4	82	4	KRT72	12	52979845	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	45498944	52979845	80872050	160	10448										
PTPRB	5787	broad.mit.edu	37	chr12	70964993	70964993	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tcatattggtcgacatccccAttagctcctgaccaagtcac	6	14	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr12:70964993A>G	uc001swb.3	-	11	2559	c.2529T>C	c.(2527-2529)AAT>AAC	p.N843N	PTPRB_uc010sto.1_Silent_p.N843N|PTPRB_uc010stp.1_Silent_p.N753N|PTPRB_uc001swc.3_Silent_p.N1061N|PTPRB_uc001swa.3_Silent_p.N973N|PTPRB_uc001swd.3_Silent_p.N1060N|PTPRB_uc009zrr.1_Silent_p.N940N	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	843	Fibronectin type-III 10.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CGACATCCCCATTAGCTCCTG	0.438													29	63	---	---	---	---	PASS	G	70964993	G	G	70964993	2	3	22	1	0	0	0	0	0	0	0	1	12796	214	8	5		5	PTPRB	12	70964993	Silent	SNP	A	TCGA-21-1077-01A-01D-1521-08	17985148	70964993	62886902	161	10449										
TMCC3	57458	broad.mit.edu	37	chr12	94975677	94975677	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cgatggtagcgctgcccccgTaggccctggcactcgcctct	12	17	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr12:94975677T>A	uc001tdj.2	-	2	834	c.716A>T	c.(715-717)TAC>TTC	p.Y239F	TMCC3_uc001tdi.2_Missense_Mutation_p.Y208F	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	239						integral to membrane				ovary(1)|skin(1)	2						GCTGCCCCCGTAGGCCCTGGC	0.537													47	167	---	---	---	---	PASS	A	94975677	A	A	94975677	3	1	22	1	0	0	0	0	1	0	0	0	15991	1638	57	5	729	5	TMCC3	12	94975677	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	24010684	94975677	38876218	162	10450										
ANKS1B	56899	broad.mit.edu	37	chr12	99638142	99638142	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gtggtctcaccattcatctcTttaagttcgttgttgattcc	7	10	3	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr12:99638142T>G	uc001tge.1	-	14	2814	c.2397A>C	c.(2395-2397)AAA>AAC	p.K799N	ANKS1B_uc001tgf.1_Missense_Mutation_p.K379N|ANKS1B_uc001tgk.2_Missense_Mutation_p.K96N	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	799						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		CATTCATCTCTTTAAGTTCGT	0.313													14	69	---	---	---	---	PASS	G	99638142	G	G	99638142	3	3	22	1	0	0	0	0	1	0	0	0	689	1606	56	5	1689	5	ANKS1B	12	99638142	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	4662465	99638142	34213753	163	10451										
NR1H4	9971	broad.mit.edu	37	chr12	100930750	100930750	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aagaagaattcagtgcagaaGaaaattttctcattttgacg	8	5	2	5			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr12:100930750G>C	uc001tht.1	+	6	914	c.886G>C	c.(886-888)GAA>CAA	p.E296Q	NR1H4_uc001thp.1_Missense_Mutation_p.E282Q|NR1H4_uc001thq.1_Missense_Mutation_p.E286Q|NR1H4_uc010svj.1_RNA|NR1H4_uc001thr.1_Missense_Mutation_p.E286Q|NR1H4_uc010svk.1_Missense_Mutation_p.E235Q|NR1H4_uc001ths.1_Missense_Mutation_p.E292Q	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	296	Ligand-binding.				bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						CAGTGCAGAAGAAAATTTTCT	0.244													26	302	---	---	---	---	PASS	C	100930750	C	C	100930750	3	2	22	1	0	0	0	0	1	0	0	0	10619	943	33	2	866	2	NR1H4	12	100930750	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	1292608	100930750	32921145	164	10452										
NUAK1	9891	broad.mit.edu	37	chr12	106480624	106480624	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	acagctcccctttgctggcaTattccatgatgatcacaatc	6	13	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr12:106480624T>C	uc001tlj.1	-	3	1781	c.401A>G	c.(400-402)TAT>TGT	p.Y134C		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	134	Protein kinase.						ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						TTTGCTGGCATATTCCATGAT	0.498													30	173	---	---	---	---	PASS	C	106480624	C	C	106480624	3	2	22	1	0	0	0	0	1	0	0	0	10712	1406	49	5	1604	5	NUAK1	12	106480624	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	5549874	106480624	27371271	165	10453										
CCDC60	160777	broad.mit.edu	37	chr12	119866545	119866545	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	acaaggaaataataaacctcAaaaaggaccttatacgaagc	6	8	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr12:119866545A>T	uc001txe.2	+	2	613	c.148A>T	c.(148-150)AAA>TAA	p.K50*	uc001txf.2_Intron	NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60	50										ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		AATAAACCTCAAAAAGGACCT	0.453													6	28	---	---	---	---	PASS	T	119866545	T	T	119866545	4	4	22	1	0	0	0	0	0	1	0	0	2831	131	5	5	154	5	CCDC60	12	119866545	Nonsense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	13385921	119866545	13985350	166	10454										
TRPC4	7223	broad.mit.edu	37	chr13	38357251	38357251	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	attttcaattgcaatgaggaGagcagttcttccgagaggat	11	6	2	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr13:38357251G>T	uc001uws.2	-	2	455	c.220C>A	c.(220-222)CTC>ATC	p.L74I	TRPC4_uc010abv.2_5'UTR|TRPC4_uc001uwt.2_Missense_Mutation_p.L74I|TRPC4_uc010tey.1_Missense_Mutation_p.L74I|TRPC4_uc010abw.2_Missense_Mutation_p.L74I|TRPC4_uc010abx.2_Missense_Mutation_p.L74I|TRPC4_uc010aby.2_Missense_Mutation_p.L74I	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	74	ANK 2.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		gcaatgaggagagcagttctt	0.209													46	159	---	---	---	---	PASS	T	38357251	T	T	38357251	3	4	22	1	0	0	0	0	1	0	0	0	16577	942	33	2	2768	2	TRPC4	13	38357251	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08		38357251	76812627	167	10455										
MTRF1	9617	broad.mit.edu	37	chr13	41834927	41834927	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctgttttgtctaaaaacttgCagccttgtatcaagatgtat	7	7	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr13:41834927C>A	uc001uxx.2	-	4	587	c.117G>T	c.(115-117)CTG>CTT	p.L39L	MTRF1_uc001uxy.2_Silent_p.L39L|MTRF1_uc001uxz.2_5'UTR|MTRF1_uc010tff.1_Silent_p.L52L|MTRF1_uc001uyc.1_Silent_p.L39L	NM_004294	NP_004285	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	39					regulation of translational termination	mitochondrion	translation release factor activity, codon specific				0		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)		TAAAAACTTGCAGCCTTGTAT	0.393													39	199	---	---	---	---	PASS	A	41834927	A	A	41834927	2	1	22	1	0	0	0	0	0	0	0	1	9959	697	25	3		3	MTRF1	13	41834927	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	3477676	41834927	73334951	168	10456										
UTP14C	9724	broad.mit.edu	37	chr13	52604681	52604681	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cagttcccacaataatagagGagctggaagatgaagaggag	13	6	0	4			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr13:52604681G>C	uc001vgb.2	+	2	2276	c.1741G>C	c.(1741-1743)GAG>CAG	p.E581Q	UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	581					cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)		AATAATAGAGGAGCTGGAAGA	0.458													27	109	---	---	---	---	PASS	C	52604681	C	C	52604681	3	2	22	1	0	0	0	0	1	0	0	0	17093	1175	41	2	1743	2	UTP14C	13	52604681	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	10769754	52604681	62565197	169	10457										
PCDH17	27253	broad.mit.edu	37	chr13	58208193	58208193	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	atcccgacctgggccagaacGgcaccgtatcctactctatc	8	16	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr13:58208193G>A	uc001vhq.1	+	1	2405	c.1513G>A	c.(1513-1515)GGC>AGC	p.G505S	PCDH17_uc010aec.1_Missense_Mutation_p.G505S	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	505	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GGGCCAGAACGGCACCGTATC	0.597													13	78	---	---	---	---	PASS	A	58208193	A	A	58208193	3	1	22	1	0	0	0	0	1	0	0	0	11512	1116	39	1	1515	1	PCDH17	13	58208193	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	5603512	58208193	56961685	170	10458										
TBC1D4	9882	broad.mit.edu	37	chr13	75915719	75915719	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agcttggctcttggtgggtaGagacctaaggaaaatgatga	14	5	1	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr13:75915719G>C	uc001vjl.1	-	6	1760	c.1413C>G	c.(1411-1413)CTC>CTG	p.L471L	TBC1D4_uc010aer.2_Silent_p.L471L|TBC1D4_uc010aes.2_Silent_p.L471L	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	471						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		TTGGTGGGTAGAGACCTAAGG	0.453													14	102	---	---	---	---	PASS	C	75915719	C	C	75915719	2	2	22	1	0	0	0	0	0	0	0	1	15619	929	33	2		2	TBC1D4	13	75915719	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	17707526	75915719	39254159	171	10459										
SOX1	6656	broad.mit.edu	37	chr13	112722245	112722245	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctgggggccgagtggaaggtCatgtccgaggccgagaagcg	19	9	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr13:112722245C>A	uc001vsb.1	+	1	333	c.273C>A	c.(271-273)GTC>GTA	p.V91V		NM_005986	NP_005977	O00570	SOX1_HUMAN	SRY (sex determining region Y)-box 1	91	HMG box.				chromatin organization	nucleus	core promoter sequence-specific DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	all_lung(23;0.000652)|Lung NSC(43;0.017)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	all_cancers(25;0.000331)|Lung NSC(25;0.0496)|all_lung(25;0.0831)|all_epithelial(44;0.0868)|Breast(118;0.231)		OV - Ovarian serous cystadenocarcinoma(48;0.132)		AGTGGAAGGTCATGTCCGAGG	0.662													7	34	---	---	---	---	PASS	A	112722245	A	A	112722245	2	1	22	1	0	0	0	0	0	0	0	1	14940	813	29	2		2	SOX1	13	112722245	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	36806526	112722245	2447633	172	10460										
ATP4B	496	broad.mit.edu	37	chr13	114307223	114307223	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aataaaacatggctttccttCttcaaagccgaagttgggat	8	8	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr13:114307223C>A	uc001vtz.2	-	4	562	c.520G>T	c.(520-522)GAA>TAA	p.E174*	ATP4B_uc010agy.1_Nonsense_Mutation_p.E174*	NM_000705	NP_000696	P51164	ATP4B_HUMAN	hydrogen/potassium-exchanging ATPase 4B	174	Extracellular (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	hydrogen:potassium-exchanging ATPase activity|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.00696)|all_epithelial(44;0.00347)|all_lung(25;0.0221)|Breast(118;0.0411)|Lung NSC(25;0.0839)	all cancers(43;0.171)		Rabeprazole(DB01129)	GGCTTTCCTTCTTCAAAGCCG	0.522													13	71	---	---	---	---	PASS	A	114307223	A	A	114307223	4	1	22	1	0	0	0	0	0	1	0	0	1146	922	32	2	371	2	ATP4B	13	114307223	Nonsense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	1584978	114307223	862655	173	10461										
METTL3	56339	broad.mit.edu	37	chr14	21968795	21968795	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aacttgcccaagatactgacGtccaggtagcggatatcaca	9	11	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr14:21968795G>A	uc001wbc.2	-	6	1238	c.1146C>T	c.(1144-1146)GAC>GAT	p.D382D	METTL3_uc001wbb.2_Silent_p.D227D	NM_019852	NP_062826	Q86U44	MTA70_HUMAN	methyltransferase like 3	382				D -> V (in Ref. 1; AAB71850).	gene expression	nuclear speck	mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity|RNA binding			pancreas(1)|skin(1)	2	all_cancers(95;0.000628)		Epithelial(56;6.61e-06)	GBM - Glioblastoma multiforme(265;0.0146)		AGATACTGACGTCCAGGTAGC	0.493													27	160	---	---	---	---	PASS	A	21968795	A	A	21968795	2	1	22	1	0	0	0	0	0	0	0	1	9501	1136	40	1		1	METTL3	14	21968795	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08		21968795	85380745	174	10462										
C14orf43	91748	broad.mit.edu	37	chr14	74189513	74189513	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cctgcttcttgtaggtgtagTagaactccacgcactgggcc	11	12	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr14:74189513T>A	uc001xot.2	-	10	3395	c.2612A>T	c.(2611-2613)TAC>TTC	p.Y871F	C14orf43_uc001xos.2_Missense_Mutation_p.Y136F|C14orf43_uc001xou.2_Missense_Mutation_p.Y871F|C14orf43_uc010tud.1_Missense_Mutation_p.Y871F|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	871	SANT.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		GTAGGTGTAGTAGAACTCCAC	0.522													160	330	---	---	---	---	PASS	A	74189513	A	A	74189513	3	1	22	1	0	0	0	0	1	0	0	0	1774	1638	57	5	537	5	C14orf43	14	74189513	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	52220718	74189513	33160027	175	10463										
C14orf145	145508	broad.mit.edu	37	chr14	81251423	81251423	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgattgtagctgtttcttcaTccctggattttgcctgtgca	9	9	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr14:81251423T>C	uc001xux.2	-	14	2198	c.2027A>G	c.(2026-2028)GAT>GGT	p.D676G	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	676	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TGTTTCTTCATCCCTGGATTT	0.453													11	356	---	---	---	---	PASS	C	81251423	C	C	81251423	3	2	22	1	0	0	0	0	1	0	0	0	1749	1435	50	5	1301	5	C14orf145	14	81251423	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	7061910	81251423	26098117	176	10464										
HERC2	8924	broad.mit.edu	37	chr15	28502333	28502333	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agatccagctgctcaaaagtCattgagcagatgtccaccac	8	12	2	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr15:28502333C>T	uc001zbj.2	-	17	2497	c.2391G>A	c.(2389-2391)ATG>ATA	p.M797I	HERC2_uc001zbl.1_Missense_Mutation_p.M492I	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	797					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GCTCAAAAGTCATTGAGCAGA	0.547													13	121	---	---	---	---	PASS	T	28502333	T	T	28502333	3	4	22	1	0	0	0	0	1	0	0	0	7058	826	29	2	12421	2	HERC2	15	28502333	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08		28502333	74029059	177	10465										
APBA2	321	broad.mit.edu	37	chr15	29346239	29346239	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gggcctggagctggctgcccTgcggccagagagccccgcgc	17	16	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr15:29346239T>C	uc001zck.2	+	3	359	c.152T>C	c.(151-153)CTG>CCG	p.L51P	APBA2_uc010azj.2_Missense_Mutation_p.L51P|APBA2_uc010uat.1_Missense_Mutation_p.L51P|APBA2_uc001zcl.2_Missense_Mutation_p.L51P|APBA2_uc010uas.1_Missense_Mutation_p.L51P	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	51					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)		CTGGCTGCCCTGCGGCCAGAG	0.657													41	106	---	---	---	---	PASS	C	29346239	C	C	29346239	3	2	22	1	0	0	0	0	1	0	0	0	757	1580	55	5	154	5	APBA2	15	29346239	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	843906	29346239	73185153	178	10466										
AQR	9716	broad.mit.edu	37	chr15	35222550	35222550	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cattaatttcaaaaccagtaTagaatttaagcatgtccaaa	4	7	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr15:35222550T>C	uc001ziv.2	-	12	1104	c.923A>G	c.(922-924)TAT>TGT	p.Y308C		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	308						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		AAAACCAGTATAGAATTTAAG	0.303													123	337	---	---	---	---	PASS	C	35222550	C	C	35222550	3	2	22	1	0	0	0	0	1	0	0	0	835	1406	49	5	3630	5	AQR	15	35222550	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	5876311	35222550	67308842	179	10467										
C15orf41	84529	broad.mit.edu	37	chr15	37100543	37100543	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agatttgggccaggcttagtCatctattggtatggatttat	11	5	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr15:37100543C>T	uc001zje.3	+	11	985	c.735C>T	c.(733-735)GTC>GTT	p.V245V	C15orf41_uc001zjd.2_Silent_p.V245V|C15orf41_uc010bbb.1_Silent_p.V147V|C15orf41_uc001zjf.2_Silent_p.V147V|C15orf41_uc010uci.1_Silent_p.V147V|CSNK1A1P_uc001zjg.3_Intron	NM_001130010	NP_001123482	Q9Y2V0	CO041_HUMAN	hypothetical protein LOC84529 isoform 1	245							protein binding			pancreas(1)	1		all_epithelial(112;3.06e-10)|Lung NSC(122;6.48e-08)|all_lung(180;8.31e-07)|Melanoma(134;0.222)		all cancers(64;1.76e-19)|GBM - Glioblastoma multiforme(113;5.03e-07)|BRCA - Breast invasive adenocarcinoma(123;0.11)		CAGGCTTAGTCATCTATTGGT	0.458													14	187	---	---	---	---	PASS	T	37100543	T	T	37100543	2	4	22	1	0	0	0	0	0	0	0	1	1795	813	29	2		2	C15orf41	15	37100543	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	1877993	37100543	65430849	180	10468										
TTBK2	146057	broad.mit.edu	37	chr15	43038444	43038444	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tactactccctaggactttaTatctgcgtagccttaaaaga	6	10	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr15:43038444T>C	uc001zqo.2	-	15	3723	c.3284A>G	c.(3283-3285)TAT>TGT	p.Y1095C	TTBK2_uc010bcy.2_Missense_Mutation_p.Y1026C|uc001zqn.2_5'Flank	NM_173500	NP_775771	Q6IQ55	TTBK2_HUMAN	tau tubulin kinase 2	1095					cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)		TAGGACTTTATATCTGCGTAG	0.393													13	69	---	---	---	---	PASS	C	43038444	C	C	43038444	3	2	22	1	0	0	0	0	1	0	0	0	16674	1406	49	5	454	5	TTBK2	15	43038444	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	5937901	43038444	59492948	181	10469										
C15orf63	25764	broad.mit.edu	37	chr15	44085281	44085281	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgctgccgcccgcaagcagaGgtagccccagggaggggagg	18	12	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr15:44085281G>T	uc001ztb.2	+	2	517	c.34G>T	c.(34-36)GCT>TCT	p.A12S	ELL3_uc001zsx.1_Intron|SERF2_uc010bdq.2_Missense_Mutation_p.R39M|SERF2_uc010uee.1_Missense_Mutation_p.G12W|SERF2_uc001zsz.3_Missense_Mutation_p.R39M	NM_016400	NP_057484	Q9NX55	HYPK_HUMAN	chromosome 15 open reading frame 63	Error:Variant_position_missing_in_Q9NX55_after_alignment											0						CGCAAGCAGAGGTAGCCCCAG	0.577													6	37	---	---	---	---	PASS	T	44085281	T	T	44085281	3	4	22	1	0	0	0	0	1	0	0	0	1809	1014	35	3		3	C15orf63	15	44085281	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	1046837	44085281	58446111	182	10470										
ONECUT1	3175	broad.mit.edu	37	chr15	53080992	53080992	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctcacctgctaagcggagcgCggacatgcgctggaactccg	13	14	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr15:53080992C>A	uc002aci.1	-	1	1218	c.1090G>T	c.(1090-1092)GCG>TCG	p.A364S		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	364	CUT.				endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		AAGCGGAGCGCGGACATGCGC	0.637													24	72	---	---	---	---	PASS	A	53080992	A	A	53080992	3	1	22	1	0	0	0	0	1	0	0	0	10868	768	27	1	315	1	ONECUT1	15	53080992	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	8995711	53080992	49450400	183	10471										
SCAPER	49855	broad.mit.edu	37	chr15	77046217	77046217	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ttctcgcttaaactcagcatGaagtaatttttcttccatca	4	10	4	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr15:77046217G>A	uc002bby.2	-	14	1857	c.1798C>T	c.(1798-1800)CAT>TAT	p.H600Y	SCAPER_uc002bbx.2_Missense_Mutation_p.H354Y|SCAPER_uc002bbz.1_Missense_Mutation_p.H471Y|SCAPER_uc002bca.1_Missense_Mutation_p.H465Y|SCAPER_uc002bcb.1_Missense_Mutation_p.H606Y	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	599	Glu-rich.					endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						AACTCAGCATGAAGTAATTTT	0.378													69	385	---	---	---	---	PASS	A	77046217	A	A	77046217	3	1	22	1	0	0	0	0	1	0	0	0	13878	1290	45	2	2476	2	SCAPER	15	77046217	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	23965225	77046217	25485175	184	10472										
KIAA1024	23251	broad.mit.edu	37	chr15	79755579	79755579	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctgaccgagttggccgaggtGaagcggggccaaccttcttg	15	11	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr15:79755579G>A	uc002bew.1	+	3	2544	c.2469G>A	c.(2467-2469)GTG>GTA	p.V823V	KIAA1024_uc010unk.1_Silent_p.V823V	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	823						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						TGGCCGAGGTGAAGCGGGGCC	0.612													64	159	---	---	---	---	PASS	A	79755579	A	A	79755579	2	1	22	1	0	0	0	0	0	0	0	1	8205	1277	45	2		2	KIAA1024	15	79755579	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	2709362	79755579	22775813	185	10473										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84611786	84611786	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gcatcgtctcacaagtcctgTgccaggacagactgtcctcc	9	15	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr15:84611786T>A	uc002bjz.3	+	19	2666	c.2442T>A	c.(2440-2442)TGT>TGA	p.C814*	ADAMTSL3_uc010bmt.1_Nonsense_Mutation_p.C814*|ADAMTSL3_uc010bmu.1_Nonsense_Mutation_p.C814*	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	814	TSP type-1 6.					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)			ACAAGTCCTGTGCCAGGACAG	0.512													13	185	---	---	---	---	PASS	A	84611786	A	A	84611786	4	1	22	1	0	0	0	0	0	1	0	0	276	1702	59	5	2512	5	ADAMTSL3	15	84611786	Nonsense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	4856207	84611786	17919606	186	10474										
TELO2	9894	broad.mit.edu	37	chr16	1545504	1545504	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gcaaggtggtggccctgcccGatcacctgggcaaccgcctg	14	15	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:1545504G>T	uc002cly.2	+	3	784	c.493G>T	c.(493-495)GAT>TAT	p.D165Y	TELO2_uc010uvg.1_Missense_Mutation_p.D165Y	NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	165						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				GGCCCTGCCCGATCACCTGGG	0.682													4	43	---	---	---	---	PASS	T	1545504	T	T	1545504	3	4	22	1	0	0	0	0	1	0	0	0	15754	1058	37	2	499	2	TELO2	16	1545504	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08		1545504	88809249	187	10475										
C16orf73	254528	broad.mit.edu	37	chr16	1884318	1884318	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	taggatctgcaagcttgcacGagagtacactaattttcaat	8	8	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:1884318G>A	uc002cne.2	-	13	1386	c.1268C>T	c.(1267-1269)TCG>TTG	p.S423L	FAHD1_uc002cnd.2_Intron|FAHD1_uc010brz.2_Intron|C16orf73_uc010uvq.1_Missense_Mutation_p.S452L|C16orf73_uc010uvr.1_Missense_Mutation_p.S245L	NM_152764	NP_689977	Q8N635	CP073_HUMAN	hypothetical protein LOC254528 isoform 2	423					meiosis	cytoplasm					0						AAGCTTGCACGAGAGTACACT	0.383													19	134	---	---	---	---	PASS	A	1884318	A	A	1884318	3	1	22	1	0	0	0	0	1	0	0	0	1832	1059	37	2	64	2	C16orf73	16	1884318	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	338814	1884318	88470435	188	10476										
USP7	7874	broad.mit.edu	37	chr16	8992280	8992280	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cgcctgttctcaaagtctgtGattttcatcttaagctatta	6	9	4	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:8992280G>A	uc002czl.2	-	25	2854	c.2655C>T	c.(2653-2655)ATC>ATT	p.I885I	USP7_uc010uyk.1_Silent_p.I786I|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Silent_p.I786I|USP7_uc002czk.2_Silent_p.I869I	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	885					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						CAAAGTCTGTGATTTTCATCT	0.313													47	232	---	---	---	---	PASS	A	8992280	A	A	8992280	2	1	22	1	0	0	0	0	0	0	0	1	17085	1280	45	2		2	USP7	16	8992280	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	7107962	8992280	81362473	189	10477										
PDXDC1	23042	broad.mit.edu	37	chr16	15100389	15100389	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tataacaagaagcctgtcatAtatcttagtgctgctgctag	8	8	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:15100389A>G	uc002dda.3	+	6	752	c.528A>G	c.(526-528)ATA>ATG	p.I176M	PDXDC1_uc010uzl.1_Missense_Mutation_p.I161M|PDXDC1_uc010uzm.1_Missense_Mutation_p.I85M|PDXDC1_uc010bvc.1_Missense_Mutation_p.I117M|PDXDC1_uc002dcz.2_Missense_Mutation_p.I176M|PDXDC1_uc002ddb.3_Missense_Mutation_p.I149M|PDXDC1_uc010uzn.1_Missense_Mutation_p.I148M|PDXDC1_uc002ddc.2_Missense_Mutation_p.I176M	NM_015027	NP_055842	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain	176					carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	AGCCTGTCATATATCTTAGTG	0.393													29	263	---	---	---	---	PASS	G	15100389	G	G	15100389	3	3	22	1	0	0	0	0	1	0	0	0	11696	439	16	5	550	5	PDXDC1	16	15100389	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	6108109	15100389	75254364	190	10478										
ACSM2B	348158	broad.mit.edu	37	chr16	20551990	20551990	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ccttacctttcttgggtactTgtatggggctgtcactgact	10	10	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:20551990T>A	uc002dhj.3	-	14	1825	c.1615A>T	c.(1615-1617)AAG>TAG	p.K539*	ACSM2B_uc002dhk.3_Nonsense_Mutation_p.K539*	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	539					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						CTTGGGTACTTGTATGGGGCT	0.478													39	193	---	---	---	---	PASS	A	20551990	A	A	20551990	4	1	22	1	0	0	0	0	0	1	0	0	184	1821	63	5	126	5	ACSM2B	16	20551990	Nonsense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	5451601	20551990	69802763	191	10479										
POLR3E	55718	broad.mit.edu	37	chr16	22328500	22328500	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgcgcacgctgcccctggccGatcagatcaagatcctgatg	11	14	2	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:22328500G>C	uc002dkk.2	+	12	994	c.838G>C	c.(838-840)GAT>CAT	p.D280H	POLR3E_uc002dkj.1_Missense_Mutation_p.D280H|POLR3E_uc002dkm.2_Missense_Mutation_p.D244H|POLR3E_uc010vbr.1_Missense_Mutation_p.D280H|POLR3E_uc002dkl.2_Missense_Mutation_p.D280H|POLR3E_uc010vbs.1_Missense_Mutation_p.D244H|POLR3E_uc010vbt.1_Missense_Mutation_p.D224H	NM_018119	NP_060589	Q9NVU0	RPC5_HUMAN	RNA polymerase III polypeptide E	280					innate immune response|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA-directed RNA polymerase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.012)		GCCCCTGGCCGATCAGATCAA	0.642													28	162	---	---	---	---	PASS	C	22328500	C	C	22328500	3	2	22	1	0	0	0	0	1	0	0	0	12232	1058	37	2	880	2	POLR3E	16	22328500	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	1776510	22328500	68026253	192	10480										
TUFM	7284	broad.mit.edu	37	chr16	28855622	28855622	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctcccttctttaaaatgccaCgctctagtgtacctgtcacc	5	15	3	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:28855622C>G	uc002drh.2	-	7	990	c.851G>C	c.(850-852)CGT>CCT	p.R284P	uc010vct.1_Intron|SH2B1_uc002dri.2_5'Flank	NM_003321	NP_003312	P49411	EFTU_HUMAN	Tu translation elongation factor, mitochondrial	281						mitochondrial nucleoid	GTP binding|GTPase activity|protein binding|translation elongation factor activity			ovary(1)	1						TAAAATGCCACGCTCTAGTGT	0.562													35	252	---	---	---	---	PASS	G	28855622	G	G	28855622	3	3	22	1	0	0	0	0	1	0	0	0	16768	536	19	4	532	4	TUFM	16	28855622	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	6527122	28855622	61499131	193	10481										
ARMC5	79798	broad.mit.edu	37	chr16	31471257	31471257	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tggcgctcagcatcctagccGattgctgtacggaaggggcg	15	11	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:31471257G>T	uc002ecc.2	+	1	941	c.412G>T	c.(412-414)GAT>TAT	p.D138Y	ARMC5_uc010vfn.1_Missense_Mutation_p.D233Y|ARMC5_uc010vfo.1_Missense_Mutation_p.D170Y|ARMC5_uc002eca.3_Missense_Mutation_p.D138Y|ARMC5_uc010vfp.1_Missense_Mutation_p.D138Y|ARMC5_uc002ecb.2_Missense_Mutation_p.D138Y	NM_001105247	NP_001098717	Q96C12	ARMC5_HUMAN	armadillo repeat containing 5 isoform a	138							binding			pancreas(1)	1						CATCCTAGCCGATTGCTGTAC	0.547													20	137	---	---	---	---	PASS	T	31471257	T	T	31471257	3	4	22	1	0	0	0	0	1	0	0	0	954	1058	37	2	414	2	ARMC5	16	31471257	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	2615635	31471257	58883496	194	10482										
ACD	65057	broad.mit.edu	37	chr16	67694322	67694322	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ccgctggtccaccccgctggTgcacgggatgctggcccgtt	14	16	0	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:67694322T>A	uc002etq.3	-	1	397	c.60A>T	c.(58-60)GCA>GCT	p.A20A	ACD_uc002etp.3_Silent_p.A20A|ACD_uc002etr.3_Silent_p.A20A|ACD_uc010vjt.1_Silent_p.A10A|PARD6A_uc002ets.2_5'Flank|PARD6A_uc002ett.2_5'Flank|PARD6A_uc002etu.2_5'Flank	NM_001082486	NP_001075955	Q96AP0	ACD_HUMAN	adrenocortical dysplasia homolog isoform 1	20					intracellular protein transport|negative regulation of telomere maintenance via telomerase|positive regulation of single-stranded telomeric DNA binding|positive regulation of telomerase activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|telomere assembly	nuclear telomere cap complex|nucleoplasm	DNA binding|DNA polymerase binding			pancreas(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		ACCCCGCTGGTGCACGGGATG	0.687													6	29	---	---	---	---	PASS	A	67694322	A	A	67694322	2	1	22	1	0	0	0	0	0	0	0	1	135	1683	59	5		5	ACD	16	67694322	Silent	SNP	T	TCGA-21-1077-01A-01D-1521-08	36223065	67694322	22660431	195	10483										
BCAR1	9564	broad.mit.edu	37	chr16	75276604	75276604	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agactggaactgagggctggGacccgggacttggtagaggc	18	8	0	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:75276604G>T	uc002fdv.2	-	2	520	c.397C>A	c.(397-399)CCC>ACC	p.P133T	BCAR1_uc010cgu.2_Missense_Mutation_p.P104T|BCAR1_uc010vna.1_Missense_Mutation_p.P131T|BCAR1_uc010vnb.1_Missense_Mutation_p.P179T|BCAR1_uc002fdw.2_Missense_Mutation_p.P133T|BCAR1_uc010vnc.1_Intron|BCAR1_uc010vnd.1_Missense_Mutation_p.P151T|BCAR1_uc002fdx.2_Missense_Mutation_p.P151T	NM_014567	NP_055382	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	133	Substrate for kinases (By similarity).				actin filament organization|B cell receptor signaling pathway|blood coagulation|cell adhesion|cell division|cell migration|cell proliferation|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|integrin-mediated signaling pathway|nerve growth factor receptor signaling pathway|platelet-derived growth factor receptor signaling pathway|positive regulation of cell migration|regulation of apoptosis|regulation of cell growth|T cell receptor signaling pathway	cytosol|focal adhesion|membrane fraction|ruffle	protein kinase binding|protein phosphatase binding|SH3 domain binding|signal transducer activity			central_nervous_system(5)|breast(2)|prostate(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.169)		TGAGGGCTGGGACCCGGGACT	0.637													14	324	---	---	---	---	PASS	T	75276604	T	T	75276604	3	4	22	1	0	0	0	0	1	0	0	0	1348	1174	41	2	2300	2	BCAR1	16	75276604	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	7582282	75276604	15078149	196	10484										
MBTPS1	8720	broad.mit.edu	37	chr16	84094378	84094378	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctaggcggtgtcaccccataCgatgtgtactggaggagggc	15	10	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:84094378C>T	uc002fhi.2	-	20	3115	c.2613G>A	c.(2611-2613)TCG>TCA	p.S871S	MBTPS1_uc002fhh.2_Silent_p.S375S	NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	871	Lumenal (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						TCACCCCATACGATGTGTACT	0.483													5	23	---	---	---	---	PASS	T	84094378	T	T	84094378	2	4	22	1	0	0	0	0	0	0	0	1	9361	523	19	1		1	MBTPS1	16	84094378	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	8817774	84094378	6260375	197	10485										
ZCCHC14	23174	broad.mit.edu	37	chr16	87445175	87445175	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agtcctgggcgcggtgaccaGtggccccgcagttgtaacaa	14	12	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:87445175G>C	uc002fjz.1	-	12	2768	c.2741C>G	c.(2740-2742)ACT>AGT	p.T914S	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Missense_Mutation_p.T690S	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	914	CCHC-type.				cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		GCGGTGACCAGTGGCCCCGCA	0.627													61	291	---	---	---	---	PASS	C	87445175	C	C	87445175	3	2	22	1	0	0	0	0	1	0	0	0	17580	1029	36	4	116	4	ZCCHC14	16	87445175	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	3350797	87445175	2909578	198	10486										
CBFA2T3	863	broad.mit.edu	37	chr16	88951483	88951483	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gatggcgctctcgtagctccCgggggtctgggtggcggtag	19	10	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr16:88951483C>T	uc002fmm.1	-	7	1274	c.1088G>A	c.(1087-1089)CGG>CAG	p.R363Q	CBFA2T3_uc002fml.1_Missense_Mutation_p.R277Q|CBFA2T3_uc010cif.1_Missense_Mutation_p.R302Q|CBFA2T3_uc002fmn.1_Missense_Mutation_p.R338Q	NM_005187	NP_005178	O75081	MTG16_HUMAN	myeloid translocation gene on chromosome 16	363	Mediates localization to the nucleus (By similarity).|Mediates interaction with PDE7A (in isoform 2).				cell proliferation|granulocyte differentiation	Golgi membrane|nucleolus|nucleoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(3)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(80;0.0275)		TCGTAGCTCCCGGGGGTCTGG	0.687			T	RUNX1	AML								10	42	---	---	---	---	PASS	T	88951483	T	T	88951483	3	4	22	1	0	0	0	0	1	0	0	0	2698	652	23	1	897	1	CBFA2T3	16	88951483	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	1506308	88951483	1403270	199	10487										
CAMTA2	23125	broad.mit.edu	37	chr17	4883174	4883174	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aaggcctctcctcttcctacCctgcttgacggctccaaggg	9	16	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr17:4883174C>A	uc002gah.1	-	9	1551	c.1443G>T	c.(1441-1443)AGG>AGT	p.R481S	CAMTA2_uc010cku.1_Missense_Mutation_p.R504S|CAMTA2_uc002gag.1_Missense_Mutation_p.R480S|CAMTA2_uc002gai.1_Missense_Mutation_p.R483S|CAMTA2_uc010ckv.1_Missense_Mutation_p.R128S|CAMTA2_uc010vsu.1_Missense_Mutation_p.R294S	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	481					cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						CTCTTCCTACCCTGCTTGACG	0.453													86	168	---	---	---	---	PASS	A	4883174	A	A	4883174	3	1	22	1	0	0	0	0	1	0	0	0	2614	622	22	3	2275	3	CAMTA2	17	4883174	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08		4883174	76312036	200	10488										
TP53	7157	broad.mit.edu	37	chr17	7579312	7579312	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agcccctcagggcaactgacCgtgcaagtcacagacttggc	11	14	2	2	rs55863639		TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr17:7579312C>A	uc002gim.2	-	4	569	c.375G>T	c.(373-375)ACG>ACT	p.T125T	TP53_uc002gig.1_Silent_p.T125T|TP53_uc002gih.2_Silent_p.T125T|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Silent_p.T125T|TP53_uc010cni.1_Silent_p.T125T|TP53_uc002gij.2_Silent_p.T125T|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Silent_p.T86T|TP53_uc010cnk.1_Silent_p.T140T	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	125	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		T -> A (in a sporadic cancer; somatic mutation).|T -> M (in sporadic cancers; somatic mutation).|T -> R (in sporadic cancers; somatic mutation).|T -> P (in a sporadic cancer; somatic mutation).|T -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.T125T(15)|p.0?(7)|p.T125M(7)|p.T125K(3)|p.T125R(3)|p.?(2)|p.V73fs*9(1)|p.T125P(1)|p.G105_T125del21(1)|p.Y126fs*11(1)|p.T125fs*45(1)|p.T125fs*24(1)|p.T125A(1)|p.P13fs*18(1)|p.T125_Y126insX(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)		GGCAACTGACCGTGCAAGTCA	0.537		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)			44	95	---	---	---	---	PASS	A	7579312	A	A	7579312	2	1	22	1	0	0	0	0	0	0	0	1	16378	666	23	1		1	TP53	17	7579312	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	2696138	7579312	73615898	201	10489										
MYH10	4628	broad.mit.edu	37	chr17	8526239	8526239	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	catagattagtcctgaatagTagcgatccttcagattatgt	8	7	1	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr17:8526239T>C	uc002gll.2	-	2	422	c.326A>G	c.(325-327)TAC>TGC	p.Y109C	MYH10_uc002glm.2_Missense_Mutation_p.Y109C|MYH10_uc010cnx.2_Missense_Mutation_p.Y109C	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	109	Myosin head-like.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TCCTGAATAGTAGCGATCCTT	0.348													49	100	---	---	---	---	PASS	C	8526239	C	C	8526239	3	2	22	1	0	0	0	0	1	0	0	0	10030	1638	57	5	5764	5	MYH10	17	8526239	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	946927	8526239	72668971	202	10490										
MYO1D	4642	broad.mit.edu	37	chr17	30821850	30821850	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gctggggctggttgagccgcGtctccacggagacggtgcac	17	12	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr17:30821850G>A	uc002hho.1	-	22	2960	c.2948C>T	c.(2947-2949)ACG>ATG	p.T983M		NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	983						myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			GTTGAGCCGCGTCTCCACGGA	0.637													7	64	---	---	---	---	PASS	A	30821850	A	A	30821850	3	1	22	1	0	0	0	0	1	0	0	0	10071	1145	40	1	76	1	MYO1D	17	30821850	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	22295611	30821850	50373360	203	10491										
C17orf66	256957	broad.mit.edu	37	chr17	34190546	34190546	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	taggcctcgtacttcactttCtctggaccagtttgggccta	9	12	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr17:34190546C>T	uc002hke.1	-	7	734	c.585G>A	c.(583-585)GAG>GAA	p.E195E	C17orf66_uc010wck.1_RNA|C17orf66_uc010wcl.1_Silent_p.E155E|C17orf66_uc010wcm.1_Silent_p.E161E	NM_152781	NP_689994	A2RTY3	CQ066_HUMAN	hypothetical protein LOC256957	195							binding			breast(2)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		ACTTCACTTTCTCTGGACCAG	0.383													33	195	---	---	---	---	PASS	T	34190546	T	T	34190546	2	4	22	1	0	0	0	0	0	0	0	1	1874	912	32	2		2	C17orf66	17	34190546	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	3368696	34190546	47004664	204	10492										
C17orf104	284071	broad.mit.edu	37	chr17	42744135	42744135	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tcatgaaagaatcaggagttGatatctaccattatggaaga	9	5	3	4			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr17:42744135G>C	uc010czv.2	+	5	856	c.856G>C	c.(856-858)GAT>CAT	p.D286H	C17orf104_uc002igy.1_Missense_Mutation_p.D120H|C17orf104_uc002igz.3_Missense_Mutation_p.D120H|C17orf104_uc010wja.1_RNA|C17orf104_uc002iha.2_Missense_Mutation_p.D120H	NM_001145080	NP_001138552	A2RUB1	CQ104_HUMAN	hypothetical protein LOC284071	286										central_nervous_system(1)	1						ATCAGGAGTTGATATCTACCA	0.348													6	61	---	---	---	---	PASS	C	42744135	C	C	42744135	3	2	22	1	0	0	0	0	1	0	0	0	1851	1290	45	2	874	2	C17orf104	17	42744135	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	8553589	42744135	38451075	205	10493										
FMNL1	752	broad.mit.edu	37	chr17	43319802	43319802	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cagatcaccggcactgtcttCacagagctcaatgatgagaa	9	11	4	4			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr17:43319802C>T	uc002iin.2	+	16	2180	c.1980C>T	c.(1978-1980)TTC>TTT	p.F660F	FMNL1_uc002iiq.2_Silent_p.F238F|FMNL1_uc010dag.2_RNA	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	660	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						GCACTGTCTTCACAGAGCTCA	0.587													52	115	---	---	---	---	PASS	T	43319802	T	T	43319802	2	4	22	1	0	0	0	0	0	0	0	1	5951	825	29	2		2	FMNL1	17	43319802	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	575667	43319802	37875408	206	10494										
LUC7L3	51747	broad.mit.edu	37	chr17	48797172	48797172	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cggacgagaagcgcagcaacGtgcggtgggaccacgagagc	17	11	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr17:48797172G>T	uc002isr.2	+	1	196	c.79G>T	c.(79-81)GTG>TTG	p.V27L	LUC7L3_uc002isp.1_5'UTR|LUC7L3_uc010wmw.1_5'UTR|LUC7L3_uc002isq.2_Missense_Mutation_p.V27L|LUC7L3_uc002iss.2_Missense_Mutation_p.V27L	NM_006107	NP_006098	O95232	LC7L3_HUMAN	LUC7-like 3	27					apoptosis|mRNA processing|response to stress|RNA splicing	focal adhesion|nuclear speck	DNA binding|mRNA binding|protein binding				0						GCGCAGCAACGTGCGGTGGGA	0.697													4	26	---	---	---	---	PASS	T	48797172	T	T	48797172	3	4	22	1	0	0	0	0	1	0	0	0	9084	1145	40	1	81	1	LUC7L3	17	48797172	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	5477370	48797172	32398038	207	10495										
MRC2	9902	broad.mit.edu	37	chr17	60754815	60754815	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gctcctgtccccagggctggGcctcggacaccaaactccgg	12	17	0	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr17:60754815G>T	uc002jad.2	+	12	2422	c.2020G>T	c.(2020-2022)GCC>TCC	p.A674S	MRC2_uc010ddq.1_RNA	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	674	Extracellular (Potential).				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CCAGGGCTGGGCCTCGGACAC	0.657													5	34	---	---	---	---	PASS	T	60754815	T	T	60754815	3	4	22	1	0	0	0	0	1	0	0	0	9758	1203	42	3	2066	3	MRC2	17	60754815	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	11957643	60754815	20440395	208	10496										
UNK	85451	broad.mit.edu	37	chr17	73780870	73780870	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gtggggggtcttcacgttctCgtggcgcggcgcaggcgcac	18	12	3	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr17:73780870C>G	uc002jpm.2	+	2	137	c.137C>G	c.(136-138)TCG>TGG	p.S46W	UNK_uc002jpn.2_RNA|UNK_uc002jpo.2_RNA	NM_001080419	NP_001073888	Q9C0B0	UNK_HUMAN	zinc finger CCCH-type domain containing 5	Error:Variant_position_missing_in_Q9C0B0_after_alignment							nucleic acid binding|zinc ion binding				0			all cancers(21;2.61e-06)|Epithelial(20;7.39e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|LUSC - Lung squamous cell carcinoma(166;0.154)			TTCACGTTCTCGTGGCGCGGC	0.612													7	60	---	---	---	---	PASS	G	73780870	G	G	73780870	3	3	22	1	0	0	0	0	1	0	0	0	16997	893	31	2	143	2	UNK	17	73780870	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	13026055	73780870	7414340	209	10497										
LGALS3BP	3959	broad.mit.edu	37	chr17	76967746	76967746	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ctgccgggcaggggaaggagGaggtgctcttcgagctgttg	19	8	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr17:76967746G>A	uc002jwh.2	-	6	1849	c.1670C>T	c.(1669-1671)TCC>TTC	p.S557F	LGALS3BP_uc002jwi.2_Missense_Mutation_p.S363F|LGALS3BP_uc010dhr.2_Missense_Mutation_p.S363F	NM_005567	NP_005558	Q08380	LG3BP_HUMAN	galectin 3 binding protein	557					cell adhesion|cellular defense response	extracellular space|membrane|proteinaceous extracellular matrix	protein binding|scavenger receptor activity			central_nervous_system(3)|ovary(1)	4			BRCA - Breast invasive adenocarcinoma(99;0.0677)|OV - Ovarian serous cystadenocarcinoma(97;0.139)			GGGGAAGGAGGAGGTGCTCTT	0.632											OREG0024787	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	141	---	---	---	---	PASS	A	76967746	A	A	76967746	3	1	22	1	0	0	0	0	1	0	0	0	8744	1174	41	2	91	2	LGALS3BP	17	76967746	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	3186876	76967746	4227464	210	10498										
LPIN2	9663	broad.mit.edu	37	chr18	2934442	2934442	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cctggtgttggcttcttttgTgaacacctgtttaaaaaaaa	8	7	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr18:2934442T>C	uc002klo.2	-	8	1414	c.1175A>G	c.(1174-1176)CAC>CGC	p.H392R		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	392					fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		GCTTCTTTTGTGAACACCTGT	0.373													16	135	---	---	---	---	PASS	C	2934442	C	C	2934442	3	2	22	1	0	0	0	0	1	0	0	0	8919	1696	59	5	1567	5	LPIN2	18	2934442	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08		2934442	75142806	211	10499										
ROCK1	6093	broad.mit.edu	37	chr18	18546931	18546931	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gaaaactagcaacacttgtaGaatccgagaggtccaaaagt	9	8	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr18:18546931G>C	uc002kte.2	-	27	4240	c.3299C>G	c.(3298-3300)TCT>TGT	p.S1100C		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	1100	Potential.				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)					AACACTTGTAGAATCCGAGAG	0.398													31	185	---	---	---	---	PASS	C	18546931	C	C	18546931	3	2	22	1	0	0	0	0	1	0	0	0	13517	942	33	2	793	2	ROCK1	18	18546931	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	15612489	18546931	59530317	212	10500										
CELF4	56853	broad.mit.edu	37	chr18	34901833	34901833	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tccgcaggcttcacctggatCggccggttcatctgcaacag	11	14	3	0	rs41352348	byFrequency	TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr18:34901833C>A	uc002lae.2	-	3	777	c.381G>T	c.(379-381)CCG>CCT	p.P127P	CELF4_uc010dnd.1_Silent_p.P127P|CELF4_uc002lag.2_Silent_p.P127P|CELF4_uc002laf.2_Silent_p.P123P|CELF4_uc002lai.2_Silent_p.P123P	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	127	RRM 1.|Sufficient for RNA-binding and MSE- dependent splicing activity.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						TCACCTGGATCGGCCGGTTCA	0.592											OREG0024927	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	55	---	---	---	---	PASS	A	34901833	A	A	34901833	2	1	22	1	0	0	0	0	0	0	0	1	3218	871	31	2		2	CELF4	18	34901833	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	16354902	34901833	43175415	213	10501										
ST8SIA3	51046	broad.mit.edu	37	chr18	55021655	55021655	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cacaatttgcgctgaagtttCtagacccgtcattcgtgccc	8	13	2	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr18:55021655C>T	uc002lgn.2	+	2	559	c.202C>T	c.(202-204)CTA>TTA	p.L68L		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	68	Lumenal (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		GCTGAAGTTTCTAGACCCGTC	0.502													48	276	---	---	---	---	PASS	T	55021655	T	T	55021655	2	4	22	1	0	0	0	0	0	0	0	1	15232	912	32	2		2	ST8SIA3	18	55021655	Silent	SNP	C	TCGA-21-1077-01A-01D-1521-08	20119822	55021655	23055593	214	10502										
PHLPP1	23239	broad.mit.edu	37	chr18	60570353	60570353	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aggaatcaactggtcacattAgacatctgtggctatttcct	8	9	3	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr18:60570353A>G	uc002lis.2	+	8	1243	c.1065A>G	c.(1063-1065)TTA>TTG	p.L355L		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	867					apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						TGGTCACATTAGACATCTGTG	0.393													31	236	---	---	---	---	PASS	G	60570353	G	G	60570353	2	3	22	1	0	0	0	0	0	0	0	1	11854	417	15	5		5	PHLPP1	18	60570353	Silent	SNP	A	TCGA-21-1077-01A-01D-1521-08	5548698	60570353	17506895	215	10503										
RTTN	25914	broad.mit.edu	37	chr18	67833309	67833309	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aaacctcaccttcgtgatttCcagacagcagtggtaagttt	8	10	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr18:67833309C>A	uc002lkp.2	-	14	1986	c.1918G>T	c.(1918-1920)GAA>TAA	p.E640*	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	640							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TTCGTGATTTCCAGACAGCAG	0.393													14	53	---	---	---	---	PASS	A	67833309	A	A	67833309	4	1	22	1	0	0	0	0	0	1	0	0	13737	864	30	2	4906	2	RTTN	18	67833309	Nonsense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	7262956	67833309	10243939	216	10504										
DNMT1	1786	broad.mit.edu	37	chr19	10260160	10260160	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agttttcggagggggctttgTagatgactttcactttgctg	13	6	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr19:10260160T>A	uc002mng.2	-	25	2687	c.2507A>T	c.(2506-2508)TAC>TTC	p.Y836F	DNMT1_uc010xlc.1_Missense_Mutation_p.Y852F|DNMT1_uc002mnh.2_Missense_Mutation_p.Y731F|DNMT1_uc010xld.1_Missense_Mutation_p.Y836F	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	836	BAH 1.				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	GGGGGCTTTGTAGATGACTTT	0.557													208	392	---	---	---	---	PASS	A	10260160	A	A	10260160	3	1	22	1	0	0	0	0	1	0	0	0	4675	1638	57	5	2407	5	DNMT1	19	10260160	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08		10260160	48868823	217	10505										
KEAP1	9817	broad.mit.edu	37	chr19	10602314	10602314	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gacggcatagatgtggccatCgatgacccccaccccgatgc	11	15	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr19:10602314C>T	uc002moq.1	-	3	1420	c.1264G>A	c.(1264-1266)GAT>AAT	p.D422N	KEAP1_uc002mop.1_Missense_Mutation_p.D140N|KEAP1_uc002mor.1_Missense_Mutation_p.D422N	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	422	Kelch 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			ATGTGGCCATCGATGACCCCC	0.667													5	26	---	---	---	---	PASS	T	10602314	T	T	10602314	3	4	22	1	0	0	0	0	1	0	0	0	8141	884	31	2	626	2	KEAP1	19	10602314	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	342154	10602314	48526669	218	10506										
ZNF257	113835	broad.mit.edu	37	chr19	22271945	22271945	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cctacaaatgtgaagagtgtGgcaaagcctttaaccagtct	9	9	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr19:22271945G>T	uc010ecx.2	+	4	1562	c.1393G>T	c.(1393-1395)GGC>TGC	p.G465C	ZNF257_uc010ecy.2_Missense_Mutation_p.G433C	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	465	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				TGAAGAGTGTGGCAAAGCCTT	0.403													32	102	---	---	---	---	PASS	T	22271945	T	T	22271945	3	4	22	1	0	0	0	0	1	0	0	0	17797	1348	47	3	1407	3	ZNF257	19	22271945	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	11669631	22271945	36857038	219	10507										
KIAA0355	9710	broad.mit.edu	37	chr19	34791501	34791501	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cctgagctgggccgagcactGagtgctcccctggcatccac	12	16	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr19:34791501G>C	uc002nvd.3	+	2	982	c.123G>C	c.(121-123)CTG>CTC	p.L41L	KIAA0355_uc010edk.1_Silent_p.L31L	NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	41										ovary(1)	1	Esophageal squamous(110;0.162)					GCCGAGCACTGAGTGCTCCCC	0.637													14	69	---	---	---	---	PASS	C	34791501	C	C	34791501	2	2	22	1	0	0	0	0	0	0	0	1	8170	1277	45	2		2	KIAA0355	19	34791501	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	12519556	34791501	24337482	220	10508										
TMEM145	284339	broad.mit.edu	37	chr19	42828932	42828932	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ttctgggctcccgctgttccGtgacctccggccccctggcc	11	19	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr19:42828932G>T	uc002otk.1	+	15	1497	c.1445G>T	c.(1444-1446)CGT>CTT	p.R482L	MEGF8_uc002otl.3_5'Flank	NM_173633	NP_775904	Q8NBT3	TM145_HUMAN	transmembrane protein 145	482						integral to membrane					0		Prostate(69;0.00682)				CCGCTGTTCCGTGACCTCCGG	0.726													6	17	---	---	---	---	PASS	T	42828932	T	T	42828932	3	4	22	1	0	0	0	0	1	0	0	0	16056	1145	40	1	1503	1	TMEM145	19	42828932	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	8037431	42828932	16300051	221	10509										
TSKS	60385	broad.mit.edu	37	chr19	50243100	50243100	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgctgcctccccccattgttCccgtggacccctcaagtggc	9	18	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr19:50243100C>T	uc002ppm.2	-	11	1723	c.1712G>A	c.(1711-1713)GGA>GAA	p.G571E		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	571							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		CCCCATTGTTCCCGTGGACCC	0.562													62	142	---	---	---	---	PASS	T	50243100	T	T	50243100	3	4	22	1	0	0	0	0	1	0	0	0	16623	855	30	2	70	2	TSKS	19	50243100	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	7414168	50243100	8885883	222	10510										
FCAR	2204	broad.mit.edu	37	chr19	55396678	55396678	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	atgcctttcatatctgccaaAtcgagtcctgtgattccctt	6	12	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr19:55396678A>T	uc002qhr.1	+	3	299	c.102A>T	c.(100-102)AAA>AAT	p.K34N	FCAR_uc002qhq.2_Missense_Mutation_p.K34N|FCAR_uc002qhs.1_RNA|FCAR_uc002qht.1_Missense_Mutation_p.K7N|FCAR_uc010esi.1_Missense_Mutation_p.K7N|FCAR_uc002qhu.1_Missense_Mutation_p.K34N|FCAR_uc002qhv.1_Missense_Mutation_p.K34N|FCAR_uc002qhw.1_Missense_Mutation_p.K22N|FCAR_uc002qhx.1_Missense_Mutation_p.K22N|FCAR_uc002qhy.1_Missense_Mutation_p.K22N|FCAR_uc002qhz.1_Missense_Mutation_p.K22N|FCAR_uc002qia.1_Intron	NM_002000	NP_001991	P24071	FCAR_HUMAN	Fc alpha receptor isoform a precursor	34	Extracellular (Potential).				immune response	extracellular region|integral to plasma membrane	IgA binding|receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0443)		TATCTGCCAAATCGAGTCCTG	0.502													4	88	---	---	---	---	PASS	T	55396678	T	T	55396678	3	4	22	1	0	0	0	0	1	0	0	0	5773	98	4	5	112	5	FCAR	19	55396678	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	5153578	55396678	3732305	223	10511										
ZNF444	55311	broad.mit.edu	37	chr19	56669923	56669923	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgcctcaggatgtgacgcagGgccctggggccacaggtgga	17	11	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr19:56669923G>T	uc002qmm.2	+	4	725	c.358G>T	c.(358-360)GGC>TGC	p.G120C	ZNF444_uc002qmn.1_Missense_Mutation_p.G120C	NM_018337	NP_060807	Q8N0Y2	ZN444_HUMAN	zinc finger protein 444	120					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0531)		TGTGACGCAGGGCCCTGGGGC	0.627													24	58	---	---	---	---	PASS	T	56669923	T	T	56669923	3	4	22	1	0	0	0	0	1	0	0	0	17914	1232	43	3	364	3	ZNF444	19	56669923	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	1273245	56669923	2459060	224	10512										
ZSCAN5B	342933	broad.mit.edu	37	chr19	56701294	56701294	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gggacatttgtagggcttctCtccggagtgggtgcgctggt	17	8	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr19:56701294C>A	uc010ygh.1	-	4	1390	c.1390G>T	c.(1390-1392)GAG>TAG	p.E464*		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	464					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TAGGGCTTCTCTCCGGAGTGG	0.537													18	66	---	---	---	---	PASS	A	56701294	A	A	56701294	4	1	22	1	0	0	0	0	0	1	0	0	18236	922	32	2	101	2	ZSCAN5B	19	56701294	Nonsense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	31371	56701294	2427689	225	10513										
ZSCAN5B	342933	broad.mit.edu	37	chr19	56701908	56701908	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cattttccacagaggctcttTtctggggttccttcccctcc	7	15	2	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr19:56701908T>C	uc010ygh.1	-	4	776	c.776A>G	c.(775-777)AAA>AGA	p.K259R		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	259					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						AGAGGCTCTTTTCTGGGGTTC	0.488													36	179	---	---	---	---	PASS	C	56701908	C	C	56701908	3	2	22	1	0	0	0	0	1	0	0	0	18236	1841	64	5	715	5	ZSCAN5B	19	56701908	Missense_Mutation	SNP	T	TCGA-21-1077-01A-01D-1521-08	614	56701908	2427075	226	10514										
ZSCAN18	65982	broad.mit.edu	37	chr19	58601243	58601243	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	acagcccacctggctcttccAggacatcagcgaggccctcc	9	18	2	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr19:58601243A>G	uc002qri.2	-	2	701	c.392T>C	c.(391-393)CTG>CCG	p.L131P	ZSCAN18_uc002qrj.3_Missense_Mutation_p.L131P|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Missense_Mutation_p.L131P|ZSCAN18_uc010yht.1_Missense_Mutation_p.L187P|ZSCAN18_uc002qrk.1_Missense_Mutation_p.L131P|ZSCAN18_uc002qrl.2_Missense_Mutation_p.L131P	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	131	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TGGCTCTTCCAGGACATCAGC	0.632													38	137	---	---	---	---	PASS	G	58601243	G	G	58601243	3	3	22	1	0	0	0	0	1	0	0	0	18227	188	7	5	1164	5	ZSCAN18	19	58601243	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	1899335	58601243	527740	227	10515										
PDYN	5173	broad.mit.edu	37	chr20	1961086	1961086	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tggttgtcccacttgagcttGggacgaatgcgccgcaagaa	13	10	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr20:1961086G>T	uc010gaj.2	-	3	890	c.648C>A	c.(646-648)CCC>CCA	p.P216P	uc002wfu.1_Intron|PDYN_uc002wfv.2_Silent_p.P216P|PDYN_uc010zpt.1_Silent_p.P61P	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	216					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						ACTTGAGCTTGGGACGAATGC	0.592													71	226	---	---	---	---	PASS	T	1961086	T	T	1961086	2	4	22	1	0	0	0	0	0	0	0	1	11699	1335	47	3		3	PDYN	20	1961086	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08		1961086	61064434	228	10516										
C20orf196	149840	broad.mit.edu	37	chr20	5753675	5753675	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ccattcttttccttattcttCtgatgtggatccaggtaata	6	9	3	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr20:5753675C>G	uc002wmf.2	+	2	251	c.164C>G	c.(163-165)TCT>TGT	p.S55C		NM_152504	NP_689717	Q8IYI0	CT196_HUMAN	hypothetical protein LOC149840	55											0						CCTTATTCTTCTGATGTGGAT	0.413													36	235	---	---	---	---	PASS	G	5753675	G	G	5753675	3	3	22	1	0	0	0	0	1	0	0	0	2101	913	32	2	166	2	C20orf196	20	5753675	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	3792589	5753675	57271845	229	10517										
MYH7B	57644	broad.mit.edu	37	chr20	33575444	33575444	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cccccgggtgcgtgtagggaAcgagtacgtgaccaagggcc	16	12	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr20:33575444A>C	uc002xbi.1	+	15	1450	c.1358A>C	c.(1357-1359)AAC>ACC	p.N453T	MIR499_hsa-mir-499|MI0003183_5'Flank	NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	411	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			CGTGTAGGGAACGAGTACGTG	0.652													44	253	---	---	---	---	PASS	C	33575444	C	C	33575444	3	2	22	1	0	0	0	0	1	0	0	0	10040	43	2	5	1416	5	MYH7B	20	33575444	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08	27821769	33575444	29450076	230	10518										
EIF6	3692	broad.mit.edu	37	chr20	33872226	33872226	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	cgatcgctaccagacagtagGtgttggtgagcttggcaaag	14	8	0	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr20:33872226G>A	uc002xbv.1	-	1	281	c.65C>T	c.(64-66)ACC>ATC	p.T22I	EIF6_uc002xbx.1_Missense_Mutation_p.T22I|EIF6_uc002xbz.1_Missense_Mutation_p.T22I|EIF6_uc002xby.1_RNA	NM_181468	NP_852133	P56537	IF6_HUMAN	eukaryotic translation initiation factor 6	22					mature ribosome assembly	cytoplasm|nucleolus	protein binding|ribosome binding|translation initiation factor activity			pancreas(1)	1			BRCA - Breast invasive adenocarcinoma(18;0.00252)			CAGACAGTAGGTGTTGGTGAG	0.642													62	178	---	---	---	---	PASS	A	33872226	A	A	33872226	3	1	22	1	0	0	0	0	1	0	0	0	5045	1261	44	3	811	3	EIF6	20	33872226	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	296782	33872226	29153294	231	10519										
LIPI	149998	broad.mit.edu	37	chr21	15481335	15481335	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tatgtgttctttggtgtacaTgtgtttggattaagaaacac	10	4	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr21:15481335T>G	uc002yjm.2	-	10	1435	c.1425A>C	c.(1423-1425)ACA>ACC	p.T475T	uc002yjk.2_Intron|uc002yjl.2_Intron	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	454					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		TTGGTGTACATGTGTTTGGAT	0.333													34	220	---	---	---	---	PASS	G	15481335	G	G	15481335	2	3	22	1	0	0	0	0	0	0	0	1	8825	1451	51	5		5	LIPI	21	15481335	Silent	SNP	T	TCGA-21-1077-01A-01D-1521-08		15481335	32648560	232	10520										
BACH1	571	broad.mit.edu	37	chr21	30698598	30698598	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	tgcttttcatcacactgtcaGaaaacagaccttaaactttc	4	11	3	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr21:30698598G>T	uc002ynj.2	+	3	568	c.453G>T	c.(451-453)CAG>CAT	p.Q151H	BACH1_uc002ynk.2_Missense_Mutation_p.Q151H|BACH1_uc002ynl.2_RNA	NM_001186	NP_001177	O14867	BACH1_HUMAN	BTB and CNC homology 1 transcription factor	151						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|liver(1)	2						CACACTGTCAGAAAACAGACC	0.383													18	175	---	---	---	---	PASS	T	30698598	T	T	30698598	3	4	22	1	0	0	0	0	1	0	0	0	1283	933	33	2	459	2	BACH1	21	30698598	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	15217263	30698598	17431297	233	10521										
AGPAT3	56894	broad.mit.edu	37	chr21	45387860	45387860	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gctggagtggtggtcctgcaCggagtgtacactgttcacgg	16	9	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr21:45387860C>T	uc002zdv.2	+	4	434	c.212C>T	c.(211-213)ACG>ATG	p.T71M	AGPAT3_uc002zdw.2_Missense_Mutation_p.T71M|AGPAT3_uc002zdx.2_Missense_Mutation_p.T158M|AGPAT3_uc002zdy.2_Missense_Mutation_p.T9M	NM_020132	NP_064517	Q9NRZ7	PLCC_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 3	71	Cytoplasmic (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0				STAD - Stomach adenocarcinoma(101;0.18)|Colorectal(79;0.24)		TGGTCCTGCACGGAGTGTACA	0.607													14	77	---	---	---	---	PASS	T	45387860	T	T	45387860	3	4	22	1	0	0	0	0	1	0	0	0	388	536	19	1	218	1	AGPAT3	21	45387860	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	14689262	45387860	2742035	234	10522										
SEPT5	5413	broad.mit.edu	37	chr22	19707183	19707183	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	caaccaggtgcaccgcaagtCggtgaagaaaggctttgact	12	10	0	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr22:19707183C>T	uc002zpv.1	+	3	238	c.113C>T	c.(112-114)TCG>TTG	p.S38L	SEPT5_uc002zpw.1_RNA|SEPT5_uc002zpx.1_RNA|SEPT5_uc002zpy.1_5'Flank	NM_002688	NP_002679	Q99719	SEPT5_HUMAN	septin 5	38					cell cycle|cytokinesis|regulation of exocytosis|synaptic vesicle targeting	plasma membrane|septin complex|synaptic vesicle	GTP binding|GTPase activity|protein binding|structural molecule activity			lung(1)	1	Colorectal(54;0.0993)					CACCGCAAGTCGGTGAAGAAA	0.592													18	165	---	---	---	---	PASS	T	19707183	T	T	19707183	3	4	22	1	0	0	0	0	1	0	0	0	14067	893	31	2	123	2	SEPT5	22	19707183	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08		19707183	31597383	235	10523										
MGAT3	4248	broad.mit.edu	37	chr22	39883958	39883958	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aaggagcggctggtgcccagGgaggtgccgcgccgcgtcat	18	12	1	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr22:39883958G>A	uc003axv.3	+	2	845	c.606G>A	c.(604-606)AGG>AGA	p.R202R	MGAT3_uc010gxy.2_Silent_p.R202R	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	202	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					TGGTGCCCAGGGAGGTGCCGC	0.677													4	30	---	---	---	---	PASS	A	39883958	A	A	39883958	2	1	22	1	0	0	0	0	0	0	0	1	9544	1223	43	3		3	MGAT3	22	39883958	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	20176775	39883958	11420608	236	10524										
PLXNB2	23654	broad.mit.edu	37	chr22	50724256	50724256	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gtgtccaggttcttgccctgGaagttcacatctgtctcgtg	11	11	4	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chr22:50724256G>A	uc003bkv.3	-	11	2167	c.2061C>T	c.(2059-2061)TTC>TTT	p.F687F		NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	687	Extracellular (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TCTTGCCCTGGAAGTTCACAT	0.657													18	187	---	---	---	---	PASS	A	50724256	A	A	50724256	2	1	22	1	0	0	0	0	0	0	0	1	12124	1165	41	2		2	PLXNB2	22	50724256	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	10840298	50724256	580310	237	10525										
PHEX	5251	broad.mit.edu	37	chrX	22065257	22065257	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	atggctggataagcaataatCcaattcccgaagatatgcca	8	9	0	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chrX:22065257C>G	uc004dah.2	+	3	480	c.277C>G	c.(277-279)CCA>GCA	p.P93A	PHEX_uc011mjr.1_Missense_Mutation_p.P93A|PHEX_uc011mjs.1_Translation_Start_Site	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	93	Extracellular (Potential).				biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						AAGCAATAATCCAATTCCCGA	0.413													47	108	---	---	---	---	PASS	G	22065257	G	G	22065257	3	3	22	1	0	0	0	0	1	0	0	0	11819	855	30	2	287	2	PHEX	23	22065257	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08		22065257	133205303	238	10526										
DDX53	168400	broad.mit.edu	37	chrX	23019068	23019068	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	gagcaaaggaatgggcctggGatgctagtccttacacccac	12	11	0	0			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chrX:23019068G>T	uc004daj.2	+	1	982	c.894G>T	c.(892-894)GGG>GGT	p.G298G		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	298	Helicase ATP-binding.					nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						ATGGGCCTGGGATGCTAGTCC	0.418													50	73	---	---	---	---	PASS	T	23019068	T	T	23019068	2	4	22	1	0	0	0	0	0	0	0	1	4371	1161	41	2		2	DDX53	23	23019068	Silent	SNP	G	TCGA-21-1077-01A-01D-1521-08	953811	23019068	132251492	239	10527										
FOXR2	139628	broad.mit.edu	37	chrX	55650442	55650442	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	aggaggccccaaagcccagtGgaaaagaggatctgacaaac	12	10	1	2			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chrX:55650442G>A	uc004duo.2	+	1	610	c.298G>A	c.(298-300)GGA>AGA	p.G100R		NM_198451	NP_940853	Q6PJQ5	FOXR2_HUMAN	forkhead box R2	100					embryo development|organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			lung(2)|central_nervous_system(1)	3						AAAGCCCAGTGGAAAAGAGGA	0.542													29	36	---	---	---	---	PASS	A	55650442	A	A	55650442	3	1	22	1	0	0	0	0	1	0	0	0	6032	1349	47	3	300	3	FOXR2	23	55650442	Missense_Mutation	SNP	G	TCGA-21-1077-01A-01D-1521-08	32631374	55650442	99620118	240	10528										
ZC3H12B	340554	broad.mit.edu	37	chrX	64722205	64722205	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agtttgaatccatgggggacCatggctactattcaatgtta	10	7	1	1			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chrX:64722205C>A	uc010nko.2	+	5	1603	c.1594C>A	c.(1594-1596)CAT>AAT	p.H532N		NM_001010888	NP_001010888	Q5HYM0	ZC12B_HUMAN	zinc finger CCCH-type containing 12B	532							endonuclease activity|nucleic acid binding|zinc ion binding			lung(1)|kidney(1)|pancreas(1)	3						CATGGGGGACCATGGCTACTA	0.478													42	48	---	---	---	---	PASS	A	64722205	A	A	64722205	3	1	22	1	0	0	0	0	1	0	0	0	17559	594	21	3	1645	3	ZC3H12B	23	64722205	Missense_Mutation	SNP	C	TCGA-21-1077-01A-01D-1521-08	9071763	64722205	90548355	241	10529										
ZCCHC12	170261	broad.mit.edu	37	chrX	117960025	117960025	+	Frame_Shift_Del	DEL	C	-	-													0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	agatgataccctcgacgactCcgatgaggatgtgatcctgg							TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chrX:117960025delC	uc004equ.2	+	4	1291	c.818delC	c.(817-819)TCCfs	p.S273fs		NM_173798	NP_776159	Q6PEW1	ZCH12_HUMAN	zinc finger, CCHC domain containing 12	273					regulation of transcription, DNA-dependent|transcription, DNA-dependent		nucleic acid binding|zinc ion binding			ovary(1)	1						CTCGACGACTCCGATGAGGAT	0.582													78	82	---	---	---	---		-	117960025	-	-	117960025	7	5	22	1	0	1	0	1	0	0	0	0	17578	855	30	0	820	0	ZCCHC12	23	117960025	Frame_Shift_Del	DEL	C	TCGA-21-1077-01A-01D-1521-08	53237820	117960025	37310535	242	10530										
ZFY	7544	broad.mit.edu	37	chrY	2829519	2829519	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.163179916317992	39	1.01614111483559e-08	2.75011778815265	3.29568771373759	2.46612248442351	0.215414143584744	0.586589283299995	25	ttgaacatatggtgcatgatAgtgtagtggaagcagaaatc	12	4	0	3			TCGA-21-1077-01A-01D-1521-08	TCGA-21-1077-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	a71d74cb-5b10-4787-a654-7049cbb49a92	8ea6d606-b7af-41c5-a84f-0bf9485fcf7c	g.chrY:2829519A>T	uc004fqj.2	+	3	787	c.466A>T	c.(466-468)AGT>TGT	p.S156C	ZFY_uc010nwd.1_Missense_Mutation_p.S156C|ZFY_uc011nan.1_Intron|ZFY_uc010nwe.2_Missense_Mutation_p.S130C	NM_003411	NP_003402	P08048	ZFY_HUMAN	zinc finger protein, Y-linked isoform 1	156					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGTGCATGATAGTGTAGTGGA	0.418													56	124	---	---	---	---	PASS	T	2829519	T	T	2829519	3	4	22	1	0	0	0	0	1	0	0	0	17659	420	15	5	472	5	ZFY	24	2829519	Missense_Mutation	SNP	A	TCGA-21-1077-01A-01D-1521-08		2829519	56544047	243	10531										
TNFRSF1B	7133	broad.mit.edu	37	chr1	12251959	12251959	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	cgctgcgcaagtgccgcccgGgcttcggcgtggccagacca	15	16	0	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr1:12251959G>C	uc001att.2	+	4	525	c.436G>C	c.(436-438)GGC>CGC	p.G146R	TNFRSF1B_uc001atu.2_5'UTR|TNFRSF1B_uc009vnk.2_RNA	NM_001066	NP_001057	P20333	TNR1B_HUMAN	tumor necrosis factor receptor 2 precursor	146	TNFR-Cys 3.|Extracellular (Potential).				apoptosis	extracellular region|integral to membrane|membrane raft|plasma membrane	tumor necrosis factor receptor activity			liver(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.72e-05)|all_lung(284;9.92e-05)|Renal(390;0.000147)|Colorectal(325;0.000584)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;5.52e-07)|COAD - Colon adenocarcinoma(227;0.000345)|BRCA - Breast invasive adenocarcinoma(304;0.000353)|Kidney(185;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00302)|STAD - Stomach adenocarcinoma(313;0.00815)|READ - Rectum adenocarcinoma(331;0.0284)	Etanercept(DB00005)|Infliximab(DB00065)	GTGCCGCCCGGGCTTCGGCGT	0.682													20	26	---	---	---	---	PASS	C	12251959	C	C	12251959	3	2	23	1	0	0	0	0	1	0	0	0	16291	1232	43	4	450	4	TNFRSF1B	1	12251959	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08		12251959	236998662	1	10532										
ARID1A	8289	broad.mit.edu	37	chr1	27056345	27056346	+	Frame_Shift_Ins	INS	-	AC	AC													0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ccatgggcggcctctcttatINSacacagcaggtagatggtga							TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr1:27056345_27056346insAC	uc001bmv.1	+	2	1714_1715	c.1341_1342insAC	c.(1339-1344)TATACAfs	p.Y447fs	ARID1A_uc001bmt.1_Frame_Shift_Ins_p.Y447fs|ARID1A_uc001bmu.1_Frame_Shift_Ins_p.Y447fs|ARID1A_uc001bmw.1_Frame_Shift_Ins_p.Y64fs	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	447_448					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	p.Y447*(1)		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)		GCCTCTCTTATACACAGCAGGT	0.554			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								66	38	---	---	---	---		AC	27056346	AC	AC	27056345	7	5	23	1	0	1	1	0	0	0	0	0	913	1413	49	0	1347	0	ARID1A	1	27056345	Frame_Shift_Ins	INS	-	TCGA-21-1078-01A-01D-1521-08	14804386	27056345	222194276	2	10533										
ZSWIM5	57643	broad.mit.edu	37	chr1	45484275	45484275	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gcttagaaactcaatgaactCtccatagtggcgagggctga	11	9	2	3			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr1:45484275C>G	uc001cnd.2	-	14	3637	c.3409G>C	c.(3409-3411)GAG>CAG	p.E1137Q		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	1137							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TCAATGAACTCTCCATAGTGG	0.517											OREG0013450	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	123	164	---	---	---	---	PASS	G	45484275	G	G	45484275	3	3	23	1	0	0	0	0	1	0	0	0	18241	922	32	2	152	2	ZSWIM5	1	45484275	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	18427930	45484275	203766346	3	10534										
CTBS	1486	broad.mit.edu	37	chr1	85040032	85040033	+	Frame_Shift_Ins	INS	-	CA	CA													0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gccagcagcgccagcagcgcINStagacccgggacgccgctcg					rs150466708	by1000genomes	TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr1:85040032_85040033insCA	uc001dka.2	-	1	131_132	c.66_67insTG	c.(64-69)CTAGCGfs	p.L22fs	CTBS_uc001dkc.2_Translation_Start_Site|CTBS_uc001dkd.2_Translation_Start_Site|CTBS_uc001dkb.2_Translation_Start_Site	NM_004388	NP_004379	Q01459	DIAC_HUMAN	chitobiase, di-N-acetyl- precursor	22_23						lysosome	cation binding				0				all cancers(265;0.00727)|Epithelial(280;0.0192)|OV - Ovarian serous cystadenocarcinoma(397;0.166)		gccagcagcgcTAGACCCGGGA	0.599													6	5	---	---	---	---		CA	85040033	CA	CA	85040032	7	5	23	1	0	1	1	0	0	0	0	0	3999	797	28	0	1118	0	CTBS	1	85040032	Frame_Shift_Ins	INS	-	TCGA-21-1078-01A-01D-1521-08	39555757	85040032	164210589	4	10535										
COL11A1	1301	broad.mit.edu	37	chr1	103491792	103491792	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ctccgtctgtgctattgtctCctcagttacagtgggtccct	9	13	3	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr1:103491792C>G	uc001dul.2	-	6	1195	c.877G>C	c.(877-879)GAG>CAG	p.E293Q	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Intron|COL11A1_uc001dun.2_Intron|COL11A1_uc009weh.2_Missense_Mutation_p.E293Q	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	293	Nonhelical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GCTATTGTCTCCTCAGTTACA	0.448													60	129	---	---	---	---	PASS	G	103491792	G	G	103491792	3	3	23	1	0	0	0	0	1	0	0	0	3667	864	30	2	4948	2	COL11A1	1	103491792	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	18451760	103491792	145758829	5	10536										
GON4L	54856	broad.mit.edu	37	chr1	155764901	155764901	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gtctggttcatcgaggtcttCcaggaaattatattctggat	10	7	4	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr1:155764901C>A	uc001flz.2	-	12	1784	c.1687G>T	c.(1687-1689)GAA>TAA	p.E563*	GON4L_uc001fly.1_Nonsense_Mutation_p.E563*|GON4L_uc009wrh.1_Nonsense_Mutation_p.E563*|GON4L_uc001fma.1_Nonsense_Mutation_p.E563*|GON4L_uc001fmc.2_Nonsense_Mutation_p.E563*|GON4L_uc001fmd.3_Nonsense_Mutation_p.E563*|GON4L_uc009wri.2_Nonsense_Mutation_p.E149*|GON4L_uc009wrj.1_Nonsense_Mutation_p.E78*|GON4L_uc001fme.2_Nonsense_Mutation_p.E391*|GON4L_uc001fmf.2_Nonsense_Mutation_p.E257*	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	563	Asp-rich.				regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TCGAGGTCTTCCAGGAAATTA	0.413													79	95	---	---	---	---	PASS	A	155764901	A	A	155764901	4	1	23	1	0	0	0	0	0	1	0	0	6572	864	30	2	5236	2	GON4L	1	155764901	Nonsense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	52273109	155764901	93485720	6	10537										
SPTA1	6708	broad.mit.edu	37	chr1	158597502	158597502	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ttttccaaagcttcatgcttCattagcaagctctgcataaa	5	10	3	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr1:158597502C>T	uc001fst.1	-	40	5776	c.5577G>A	c.(5575-5577)ATG>ATA	p.M1859I		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1859	Spectrin 18.				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)					CTTCATGCTTCATTAGCAAGC	0.398													21	188	---	---	---	---	PASS	T	158597502	T	T	158597502	3	4	23	1	0	0	0	0	1	0	0	0	15115	826	29	2	1734	2	SPTA1	1	158597502	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	2832601	158597502	90653119	7	10538										
IFI16	3428	broad.mit.edu	37	chr1	159002320	159002320	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	atgaatactttcagataaagAaaaaaacaaacccgagaaac	5	7	1	4			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr1:159002320A>T	uc001ftg.2	+	7	1458	c.1168A>T	c.(1168-1170)AAA>TAA	p.K390*	IFI16_uc010pis.1_Nonsense_Mutation_p.K334*|IFI16_uc001fth.2_5'UTR|IFI16_uc010pit.1_5'UTR	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	390					cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					TCAGATAAAGAAAAAAACAAA	0.378													35	27	---	---	---	---	PASS	T	159002320	T	T	159002320	4	4	23	1	0	0	0	0	0	1	0	0	7511	247	9	5	1190	5	IFI16	1	159002320	Nonsense_Mutation	SNP	A	TCGA-21-1078-01A-01D-1521-08	404818	159002320	90248301	8	10539										
KLHDC9	126823	broad.mit.edu	37	chr1	161069480	161069480	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	aaggggccccatggactacgGcatcactcatgttctgtggt	12	11	3	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr1:161069480G>C	uc001fxr.2	+	3	952	c.780G>C	c.(778-780)CGG>CGC	p.R260R	KLHDC9_uc001fxq.2_Silent_p.R22R|KLHDC9_uc001fxs.2_Missense_Mutation_p.A267P	NM_152366	NP_689579	Q8NEP7	KLDC9_HUMAN	kelch/ankyrin repeat containing cyclin A1	260											0	all_cancers(52;1.28e-19)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			ATGGACTACGGCATCACTCAT	0.542													179	250	---	---	---	---	PASS	C	161069480	C	C	161069480	2	2	23	1	0	0	0	0	0	0	0	1	8364	1203	42	4		4	KLHDC9	1	161069480	Silent	SNP	G	TCGA-21-1078-01A-01D-1521-08	2067160	161069480	88181141	9	10540										
SMG7	9887	broad.mit.edu	37	chr1	183514079	183514079	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ttgaagggtttccgcccccaAcatatgttatccccccgcct	7	16	0	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr1:183514079A>T	uc001gqg.2	+	16	2124	c.2002A>T	c.(2002-2004)ACA>TCA	p.T668S	SMG7_uc010pob.1_Missense_Mutation_p.T651S|SMG7_uc001gqf.2_Missense_Mutation_p.T622S|SMG7_uc001gqh.2_Missense_Mutation_p.T622S|SMG7_uc001gqi.2_Missense_Mutation_p.T580S|SMG7_uc010poc.1_Missense_Mutation_p.T626S	NM_173156	NP_775179	Q92540	SMG7_HUMAN	SMG-7 homolog isoform 1	668	Gln/Pro-rich.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|intermediate filament cytoskeleton|nucleus	protein phosphatase 2A binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TCCGCCCCCAACATATGTTAT	0.433													115	146	---	---	---	---	PASS	T	183514079	T	T	183514079	3	4	23	1	0	0	0	0	1	0	0	0	14798	43	2	5	2064	5	SMG7	1	183514079	Missense_Mutation	SNP	A	TCGA-21-1078-01A-01D-1521-08	22444599	183514079	65736542	10	10541										
SRGAP2	23380	broad.mit.edu	37	chr1	206619562	206619562	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gagctgatcaaaaccatcatCatccagcatgagaacatctt	6	11	4	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr1:206619562C>T	uc001hdy.2	+	15	2088	c.1755C>T	c.(1753-1755)ATC>ATT	p.I585I	SRGAP2_uc010prt.1_Silent_p.I508I|SRGAP2_uc001hdx.2_Silent_p.I585I|SRGAP2_uc010pru.1_Silent_p.I508I|SRGAP2_uc010prv.1_Silent_p.I509I	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	672	Rho-GAP.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					AAACCATCATCATCCAGCATG	0.587													153	195	---	---	---	---	PASS	T	206619562	T	T	206619562	2	4	23	1	0	0	0	0	0	0	0	1	15145	816	29	2		2	SRGAP2	1	206619562	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08	23105483	206619562	42631059	11	10542										
MOSC1	64757	broad.mit.edu	37	chr1	220960480	220960480	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ggcgcagctctggatctaccCtgtgaaatcctgcaaggggg	14	11	2	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr1:220960480C>T	uc001hms.2	+	1	442	c.194C>T	c.(193-195)CCT>CTT	p.P65L	MOSC1_uc001hmt.2_Missense_Mutation_p.P65L	NM_022746	NP_073583	Q5VT66	MOSC1_HUMAN	MOCO sulphurase C-terminal domain containing 1	65							molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.0358)		TGGATCTACCCTGTGAAATCC	0.741													4	3	---	---	---	---	PASS	T	220960480	T	T	220960480	3	4	23	1	0	0	0	0	1	0	0	0	9713	681	24	3	196	3	MOSC1	1	220960480	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	14340918	220960480	28290141	12	10543										
DNAH6	1768	broad.mit.edu	37	chr2	84804425	84804425	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	tggaaaaatatcacaaacagCacaaggacgcagtagcgctc	9	10	1	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr2:84804425C>T	uc010fgb.2	+	13	2106	c.1969C>T	c.(1969-1971)CAC>TAC	p.H657Y	DNAH6_uc002soo.2_Missense_Mutation_p.H236Y|DNAH6_uc002sop.2_Missense_Mutation_p.H236Y	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	657	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1						TCACAAACAGCACAAGGACGC	0.333													27	33	---	---	---	---	PASS	T	84804425	T	T	84804425	3	4	23	1	0	0	0	0	1	0	0	0	4605	710	25	3	2015	3	DNAH6	2	84804425	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08		84804425	158394948	13	10544										
REV1	51455	broad.mit.edu	37	chr2	100055628	100055628	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gcagtgctccctctgggatgCggaattccattctgtttcct	10	12	2	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr2:100055628C>T	uc002tad.2	-	6	860	c.648G>A	c.(646-648)CCG>CCA	p.P216P	REV1_uc002tac.2_Silent_p.P216P|REV1_uc002tae.1_Silent_p.P195P	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	216					DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						CTCTGGGATGCGGAATTCCAT	0.448								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					4	115	---	---	---	---	PASS	T	100055628	T	T	100055628	2	4	23	1	0	0	0	0	0	0	0	1	13239	755	27	1		1	REV1	2	100055628	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08	15251203	100055628	143143745	14	10545										
RAF1	5894	broad.mit.edu	37	chr3	12653511	12653511	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ggttgcaggcccctcaccttGagtgctttcataaggcagtc	11	12	2	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr3:12653511G>C	uc003bxf.3	-	3	673	c.258C>G	c.(256-258)CTC>CTG	p.L86L	RAF1_uc011aut.1_5'Flank|RAF1_uc011auu.1_Intron	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	86	RBD.				activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	CCCTCACCTTGAGTGCTTTCA	0.483			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				151	186	---	---	---	---	PASS	C	12653511	C	C	12653511	2	2	23	1	0	0	0	0	0	0	0	1	13002	1277	45	2		2	RAF1	3	12653511	Silent	SNP	G	TCGA-21-1078-01A-01D-1521-08		12653511	185368919	15	10546										
DHX30	22907	broad.mit.edu	37	chr3	47884701	47884701	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ccaaagggcgccgcaaagcaGaggctgagaataaggcggca	15	10	0	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr3:47884701G>C	uc003cru.2	+	9	1321	c.895G>C	c.(895-897)GAG>CAG	p.E299Q	DHX30_uc003crt.2_Missense_Mutation_p.E260Q|DHX30_uc010hjr.1_Missense_Mutation_p.E327Q	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	299						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		CCGCAAAGCAGAGGCTGAGAA	0.567													73	90	---	---	---	---	PASS	C	47884701	C	C	47884701	3	2	23	1	0	0	0	0	1	0	0	0	4504	943	33	2	932	2	DHX30	3	47884701	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	35231190	47884701	150137729	16	10547										
MAP4	4134	broad.mit.edu	37	chr3	47958284	47958284	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	caacagtgtcacatccttggCtggggctacctctgtttctg	10	12	3	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr3:47958284C>T	uc003csb.2	-	7	1559	c.1033G>A	c.(1033-1035)GCC>ACC	p.A345T	MAP4_uc003csc.3_Missense_Mutation_p.A345T|MAP4_uc011bbf.1_Missense_Mutation_p.A322T|MAP4_uc003csf.3_Missense_Mutation_p.A362T	NM_002375	NP_002366	P27816	MAP4_HUMAN	microtubule-associated protein 4 isoform 1	345	7.|17 X 14 AA tandem repeats.				negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000721)|KIRC - Kidney renal clear cell carcinoma(197;0.00641)|Kidney(197;0.00736)		ACATCCTTGGCTGGGGCTACC	0.473													216	275	---	---	---	---	PASS	T	47958284	T	T	47958284	3	4	23	1	0	0	0	0	1	0	0	0	9258	797	28	3	3836	3	MAP4	3	47958284	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	73583	47958284	150064146	17	10548										
BAP1	8314	broad.mit.edu	37	chr3	52440372	52440372	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ccactgccatcaggttgaagCggatgtcgtggtagggctcc	14	11	1	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr3:52440372C>T	uc003ddx.2	-	9	795	c.680G>A	c.(679-681)CGC>CAC	p.R227H	BAP1_uc003ddw.2_5'Flank|BAP1_uc010hmg.2_5'Flank|BAP1_uc010hmh.2_5'Flank	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	227					monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity	p.R227C(1)		pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		CAGGTTGAAGCGGATGTCGTG	0.627			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								22	23	---	---	---	---	PASS	T	52440372	T	T	52440372	3	4	23	1	0	0	0	0	1	0	0	0	1311	768	27	1	1545	1	BAP1	3	52440372	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	4482088	52440372	145582058	18	10549										
HLTF	6596	broad.mit.edu	37	chr3	148777580	148777580	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	aaatgccacatcttctataaCcttagaagatcctgctgata	5	10	2	3			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr3:148777580C>A	uc003ewq.1	-	13	1518	c.1300G>T	c.(1300-1302)GTT>TTT	p.V434F	HLTF_uc003ewr.1_Missense_Mutation_p.V434F|HLTF_uc003ews.1_Missense_Mutation_p.V433F|HLTF_uc010hve.1_Missense_Mutation_p.V433F	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	434					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			TCTTCTATAACCTTAGAAGAT	0.318													69	118	---	---	---	---	PASS	A	148777580	A	A	148777580	3	1	23	1	0	0	0	0	1	0	0	0	7215	507	18	3	1781	3	HLTF	3	148777580	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	96337208	148777580	49244850	19	10550										
SLC33A1	9197	broad.mit.edu	37	chr3	155560270	155560270	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	tcagaactgctggcatttttAtaattgcaaaaagcagcttg	8	7	1	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr3:155560270A>G	uc003fan.3	-	2	1295	c.914T>C	c.(913-915)ATA>ACA	p.I305T	SLC33A1_uc003fao.1_Missense_Mutation_p.I305T	NM_004733	NP_004724	O00400	ACATN_HUMAN	acetyl-coenzyme A transporter	305	Helical; (Potential).				cell death|transmembrane transport	endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane|membrane fraction	acetyl-CoA transporter activity			ovary(2)|large_intestine(1)|pancreas(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TGGCATTTTTATAATTGCAAA	0.313													55	57	---	---	---	---	PASS	G	155560270	G	G	155560270	3	3	23	1	0	0	0	0	1	0	0	0	14566	449	16	5	755	5	SLC33A1	3	155560270	Missense_Mutation	SNP	A	TCGA-21-1078-01A-01D-1521-08	6782690	155560270	42462160	20	10551										
SI	6476	broad.mit.edu	37	chr3	164767660	164767660	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	aaagctggaaacttcattcaTgtcctgaatggatacaaaat	7	7	2	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr3:164767660T>C	uc003fei.2	-	14	1578	c.1516A>G	c.(1516-1518)ATG>GTG	p.M506V		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	506	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)	ACTTCATTCATGTCCTGAATG	0.284										HNSCC(35;0.089)			59	82	---	---	---	---	PASS	C	164767660	C	C	164767660	3	2	23	1	0	0	0	0	1	0	0	0	14297	1464	51	5	4107	5	SI	3	164767660	Missense_Mutation	SNP	T	TCGA-21-1078-01A-01D-1521-08	9207390	164767660	33254770	21	10552										
PIK3CA	5290	broad.mit.edu	37	chr3	178936070	178936070	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	tcaaagcaatttctacacgaGatcctctctctgaaatcact	4	12	5	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr3:178936070G>A	uc003fjk.2	+	10	1769	c.1612G>A	c.(1612-1614)GAT>AAT	p.D538N		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	538	PI3K helical.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.D538G(1)|p.D538N(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TTCTACACGAGATCCTCTCTC	0.333		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			45	53	---	---	---	---	PASS	A	178936070	A	A	178936070	3	1	23	1	0	0	0	0	1	0	0	0	11913	942	33	2	1646	2	PIK3CA	3	178936070	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	14168410	178936070	19086360	22	10553			1	10		2	2	13	G		3.411155e-05
PIK3CA	5290	broad.mit.edu	37	chr3	178936082	178936082	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ctacacgagatcctctctctGaaatcactgagcaggagaaa	8	11	3	4	rs121913273		TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr3:178936082G>A	uc003fjk.2	+	10	1781	c.1624G>A	c.(1624-1626)GAA>AAA	p.E542K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	542	PI3K helical.		E -> V (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation).|E -> Q (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E542K(481)|p.E542V(8)|p.E542Q(6)|p.E542G(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCCTCTCTCTGAAATCACTGA	0.333	E542K(SW948_LARGE_INTESTINE)|E542K(T84_LARGE_INTESTINE)|E542K(CAL51_BREAST)|E542K(JHUEM1_ENDOMETRIUM)|E542K(NCIH1341_LUNG)|E542K(VMCUB1_URINARY_TRACT)|E542K(BT483_BREAST)|E542K(HGC27_STOMACH)|E542K(IM95_STOMACH)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			48	60	---	---	---	---	PASS	A	178936082	A	A	178936082	3	1	23	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1658	2	PIK3CA	3	178936082	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	12	178936082	19086348	23	10554			1	10		2	2	13	G		3.411155e-05
ATP13A5	344905	broad.mit.edu	37	chr3	193039551	193039551	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	atgattctccccagctagctGagcgatcacggacatcctct	8	14	3	2	rs139981143		TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr3:193039551G>A	uc011bsq.1	-	16	1834	c.1834C>T	c.(1834-1836)CAG>TAG	p.Q612*		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	612					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		CCAGCTAGCTGAGCGATCACG	0.502													61	72	---	---	---	---	PASS	A	193039551	A	A	193039551	4	1	23	1	0	0	0	0	0	1	0	0	1127	1299	45	2	1880	2	ATP13A5	3	193039551	Nonsense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	14103469	193039551	4982879	24	10555										
FGFR3	2261	broad.mit.edu	37	chr4	1803564	1803564	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	cgtcatctgcccccacagagCgctccccgcaccggcccatc	8	22	2	1	rs121913482		TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr4:1803564C>T	uc003gdr.3	+	7	998	c.742C>T	c.(742-744)CGC>TGC	p.R248C	FGFR3_uc003gdu.2_Missense_Mutation_p.R248C|FGFR3_uc003gds.3_Missense_Mutation_p.R248C|FGFR3_uc003gdq.3_Missense_Mutation_p.R248C|FGFR3_uc010icb.1_Missense_Mutation_p.R90C|FGFR3_uc003gdt.1_Missense_Mutation_p.R90C	NM_000142	NP_000133	P22607	FGFR3_HUMAN	fibroblast growth factor receptor 3 isoform 1	248	Extracellular (Potential).		R -> C (in KERSEB, bladder cancer, keratinocytic non-epidermolytic nevus and TD1; severe and lethal; also found as somatic mutation in one patient with multiple myeloma).		bone maturation|cell growth|insulin receptor signaling pathway|JAK-STAT cascade|MAPKKK cascade|negative regulation of developmental growth|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|identical protein binding	p.R248C(291)|p.R248_S249insC(2)|p.R248_S249del(1)		urinary_tract(2177)|skin(314)|upper_aerodigestive_tract(57)|haematopoietic_and_lymphoid_tissue(24)|prostate(9)|cervix(6)|central_nervous_system(4)|large_intestine(3)|lung(3)|testis(2)|pancreas(1)	2600		Breast(71;0.212)|all_epithelial(65;0.241)	all cancers(2;0.000145)|OV - Ovarian serous cystadenocarcinoma(23;0.0019)|Epithelial(3;0.00221)|GBM - Glioblastoma multiforme(2;0.234)		Palifermin(DB00039)	CCCCACAGAGCGCTCCCCGCA	0.567		1	Mis|T	IGH@|ETV6	bladder|MM|T-cell lymphoma		Hypochondroplasia|Thanatophoric dysplasia		Muenke_syndrome|Saethre-Chotzen_syndrome				8	6	---	---	---	---	PASS	T	1803564	T	T	1803564	3	4	23	1	0	0	0	0	1	0	0	0	5867	768	27	1	764	1	FGFR3	4	1803564	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08		1803564	189350712	25	10556										
N4BP2	55728	broad.mit.edu	37	chr4	40122763	40122763	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gagagaccctggaaaagaagTaggcatgtgcacccagactg	13	9	0	3			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr4:40122763T>C	uc003guy.3	+	9	3370	c.3032T>C	c.(3031-3033)GTA>GCA	p.V1011A	N4BP2_uc010ifq.2_Missense_Mutation_p.V931A|N4BP2_uc010ifr.2_Missense_Mutation_p.V931A	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	1011						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						GGAAAAGAAGTAGGCATGTGC	0.378													75	76	---	---	---	---	PASS	C	40122763	C	C	40122763	3	2	23	1	0	0	0	0	1	0	0	0	10110	1638	57	5	3058	5	N4BP2	4	40122763	Missense_Mutation	SNP	T	TCGA-21-1078-01A-01D-1521-08	38319199	40122763	151031513	26	10557										
ANKRD50	57182	broad.mit.edu	37	chr4	125593004	125593004	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ctgacaggtgtaccattccaTatcatccacagagctaactc	6	13	1	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr4:125593004T>C	uc003ifg.3	-	3	1694	c.1428A>G	c.(1426-1428)ATA>ATG	p.I476M	ANKRD50_uc011cgo.1_Missense_Mutation_p.I297M|ANKRD50_uc010inw.2_Missense_Mutation_p.I476M	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	476										central_nervous_system(1)	1						TACCATTCCATATCATCCACA	0.413													129	133	---	---	---	---	PASS	C	125593004	C	C	125593004	3	2	23	1	0	0	0	0	1	0	0	0	677	1396	49	5	2865	5	ANKRD50	4	125593004	Missense_Mutation	SNP	T	TCGA-21-1078-01A-01D-1521-08	85470241	125593004	65561272	27	10558										
FBXW7	55294	broad.mit.edu	37	chr4	153249384	153249384	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	tttcatgaagatgcatacaaCgcacagtggaagtatgccca	9	9	1	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr4:153249384C>T	uc003ims.2	-	9	1543	c.1394G>A	c.(1393-1395)CGT>CAT	p.R465H	FBXW7_uc011cii.1_Missense_Mutation_p.R465H|FBXW7_uc003imt.2_Missense_Mutation_p.R465H|FBXW7_uc011cih.1_Missense_Mutation_p.R289H|FBXW7_uc003imq.2_Missense_Mutation_p.R385H|FBXW7_uc003imr.2_Missense_Mutation_p.R347H	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	465	WD 3.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in a acute lymphoblastic leukemia cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R465C(52)|p.R465H(36)|p.R465L(2)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				ATGCATACAACGCACAGTGGA	0.408			Mis|N|D|F		colorectal|endometrial|T-ALL								168	235	---	---	---	---	PASS	T	153249384	T	T	153249384	3	4	23	1	0	0	0	0	1	0	0	0	5769	536	19	1	745	1	FBXW7	4	153249384	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	27656380	153249384	37904892	28	10559										
PCDHA8	56140	broad.mit.edu	37	chr5	140221266	140221266	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ctgcaggttttccatgtggaCgtggaggtgaaggatgttaa	15	5	0	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr5:140221266C>T	uc003lhs.2	+	1	360	c.360C>T	c.(358-360)GAC>GAT	p.D120D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.D120D	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	120	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCATGTGGACGTGGAGGTGA	0.567													9	249	---	---	---	---	PASS	T	140221266	T	T	140221266	2	4	23	1	0	0	0	0	0	0	0	1	11530	535	19	1		1	PCDHA8	5	140221266	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08		140221266	40693994	29	10560										
NCR2	9436	broad.mit.edu	37	chr6	41304003	41304003	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	aagcccaggacgatggcttgGacctctcgattcacaatctg	10	12	3	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr6:41304003G>C	uc003oqh.2	+	2	318	c.231G>C	c.(229-231)TGG>TGC	p.W77C	NCR2_uc003oqi.2_Missense_Mutation_p.W77C|NCR2_uc003oqj.2_Missense_Mutation_p.W77C	NM_004828	NP_004819	O95944	NCTR2_HUMAN	natural cytotoxicity triggering receptor 2	77	Extracellular (Potential).|Ig-like.				cellular defense response	integral to plasma membrane	transmembrane receptor activity			ovary(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					CGATGGCTTGGACCTCTCGAT	0.527													63	57	---	---	---	---	PASS	C	41304003	C	C	41304003	3	2	23	1	0	0	0	0	1	0	0	0	10238	1183	41	2	237	2	NCR2	6	41304003	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08		41304003	129811064	30	10561										
CUL9	23113	broad.mit.edu	37	chr6	43189468	43189468	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ggattctgctggcgctgcctCaagtcctggaagccaaatca	11	12	3	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr6:43189468C>G	uc003ouk.2	+	35	6873	c.6798C>G	c.(6796-6798)CTC>CTG	p.L2266L	CUL9_uc003oul.2_Silent_p.L2238L|CUL9_uc010jyk.2_Silent_p.L1418L|CUL9_uc003oun.2_Silent_p.L61L	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	2266					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GGCGCTGCCTCAAGTCCTGGA	0.597													30	41	---	---	---	---	PASS	G	43189468	G	G	43189468	2	3	23	1	0	0	0	0	0	0	0	1	4061	813	29	2		2	CUL9	6	43189468	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08	1885465	43189468	127925599	31	10562										
DOPEY1	23033	broad.mit.edu	37	chr6	83863335	83863335	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ttgtgccctacctcagaaatCacaggtactatcattattta	5	10	3	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr6:83863335C>G	uc003pjs.1	+	31	6495	c.6235C>G	c.(6235-6237)CAC>GAC	p.H2079D	DOPEY1_uc011dyy.1_Missense_Mutation_p.H2070D|DOPEY1_uc010kbl.1_Missense_Mutation_p.H2070D|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	2079					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)		CCTCAGAAATCACAGGTACTA	0.303													51	89	---	---	---	---	PASS	G	83863335	G	G	83863335	3	3	23	1	0	0	0	0	1	0	0	0	4707	826	29	2	6349	2	DOPEY1	6	83863335	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	40673867	83863335	87251732	32	10563										
MOXD1	26002	broad.mit.edu	37	chr6	132693969	132693969	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	taaaacctgaaaacacttacGtcctgatttaccagatcaaa	4	10	1	3			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr6:132693969G>A	uc003qdf.2	-	3	678	c.579C>T	c.(577-579)GAC>GAT	p.D193D	MOXD1_uc003qde.2_Silent_p.D125D	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	193	Lumenal (Potential).				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		AAACACTTACGTCCTGATTTA	0.383													97	125	---	---	---	---	PASS	A	132693969	A	A	132693969	2	1	23	1	0	0	0	0	0	0	0	1	9720	1159	40	1		1	MOXD1	6	132693969	Silent	SNP	G	TCGA-21-1078-01A-01D-1521-08	48830634	132693969	38421098	33	10564										
TIAM2	26230	broad.mit.edu	37	chr6	155577835	155577835	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gattttgccgacaatctcatCaaagagagtgacatcctgag	9	9	2	3			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr6:155577835C>T	uc003qqb.2	+	29	5959	c.4686C>T	c.(4684-4686)ATC>ATT	p.I1562I	TIAM2_uc003qqe.2_Silent_p.I1562I|TIAM2_uc010kjj.2_Silent_p.I1124I|TIAM2_uc003qqf.2_Silent_p.I938I|TIAM2_uc011efl.1_Silent_p.I906I|TIAM2_uc003qqg.2_Silent_p.I874I|TIAM2_uc003qqh.2_Silent_p.I487I|uc003qqi.1_RNA	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1562					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		ACAATCTCATCAAAGAGAGTG	0.552													43	53	---	---	---	---	PASS	T	155577835	T	T	155577835	2	4	23	1	0	0	0	0	0	0	0	1	15888	816	29	2		2	TIAM2	6	155577835	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08	22883866	155577835	15537232	34	10565										
THBS2	7058	broad.mit.edu	37	chr6	169634881	169634881	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	cgctcctgcacatcccccacGcaggccttccctccgtactg	7	21	0	0	rs139787473		TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr6:169634881G>T	uc003qwt.2	-	11	1847	c.1599C>A	c.(1597-1599)TGC>TGA	p.C533*		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	533	TSP type-1 3.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CATCCCCCACGCAGGCCTTCC	0.662													41	70	---	---	---	---	PASS	T	169634881	T	T	169634881	4	4	23	1	0	0	0	0	0	1	0	0	15851	1079	38	1	1971	1	THBS2	6	169634881	Nonsense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	14057046	169634881	1480186	35	10566										
MDH2	4191	broad.mit.edu	37	chr7	75689711	75689711	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gttaattccaccatccccatCacagcagaagttttcaagaa	5	12	2	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr7:75689711C>A	uc003ueo.2	+	5	536	c.450C>A	c.(448-450)ATC>ATA	p.I150I	MDH2_uc003uep.2_Silent_p.I43I|MDH2_uc011kgh.1_Intron	NM_005918	NP_005909	P40926	MDHM_HUMAN	mitochondrial malate dehydrogenase precursor	150					gluconeogenesis|malate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus|plasma membrane	binding|L-malate dehydrogenase activity			ovary(1)|central_nervous_system(1)|skin(1)	3					NADH(DB00157)	CCATCCCCATCACAGCAGAAG	0.527													40	63	---	---	---	---	PASS	A	75689711	A	A	75689711	2	1	23	1	0	0	0	0	0	0	0	1	9410	816	29	2		2	MDH2	7	75689711	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08		75689711	83448952	36	10567										
CSGALNACT1	55790	broad.mit.edu	37	chr8	19362750	19362750	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ccgtgtaaggacggtgattgGggctgttctctgcaggactg	16	8	1	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr8:19362750G>A	uc011kyn.1	-	4	1660	c.596C>T	c.(595-597)CCC>CTC	p.P199L	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.P199L|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.P198L|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	199	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		ACGGTGATTGGGGCTGTTCTC	0.527													65	89	---	---	---	---	PASS	A	19362750	A	A	19362750	3	1	23	1	0	0	0	0	1	0	0	0	3938	1232	43	3	1030	3	CSGALNACT1	8	19362750	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08		19362750	127001272	37	10568										
PREX2	80243	broad.mit.edu	37	chr8	68968100	68968100	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	tggagcaagatacctgggtcAtgatctctgaacagggtgag	14	7	2	4			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr8:68968100A>G	uc003xxv.1	+	10	1156	c.1129A>G	c.(1129-1131)ATG>GTG	p.M377V	PREX2_uc003xxu.1_Missense_Mutation_p.M377V|PREX2_uc011lez.1_Missense_Mutation_p.M312V	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	377					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TACCTGGGTCATGATCTCTGA	0.363													57	96	---	---	---	---	PASS	G	68968100	G	G	68968100	3	3	23	1	0	0	0	0	1	0	0	0	12477	217	8	5	1167	5	PREX2	8	68968100	Missense_Mutation	SNP	A	TCGA-21-1078-01A-01D-1521-08	49605350	68968100	77395922	38	10569										
PARP10	84875	broad.mit.edu	37	chr8	145059449	145059449	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gtagtgggggacaaggctcaGctctgagccctgcaaccggt	15	11	2	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr8:145059449G>A	uc003zal.3	-	5	829	c.721C>T	c.(721-723)CTG>TTG	p.L241L	PARP10_uc003zak.3_5'UTR|PARP10_uc011lku.1_Silent_p.L253L|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Silent_p.L241L|PARP10_uc010mfn.1_Silent_p.L156L|PARP10_uc010mfo.1_Silent_p.S133S	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	241						Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			acaaggctcagctctgagccc	0.269													28	32	---	---	---	---	PASS	A	145059449	A	A	145059449	2	1	23	1	0	0	0	0	0	0	0	1	11455	962	34	3		3	PARP10	8	145059449	Silent	SNP	G	TCGA-21-1078-01A-01D-1521-08	76091349	145059449	1304573	39	10570										
KIAA1797	54914	broad.mit.edu	37	chr9	20862670	20862671	+	Frame_Shift_Del	DEL	TC	-	-													0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	agacactgagtgaactatttTctctagttccttccttaacg							TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr9:20862670_20862671delTC	uc003zog.1	+	18	2377_2378	c.2014_2015delTC	c.(2014-2016)TCTfs	p.S672fs	KIAA1797_uc003zoh.1_Frame_Shift_Del_p.S108fs	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	672						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		TGAACTATTTTCTCTAGTTCCT	0.421													54	116	---	---	---	---		-	20862671	-	-	20862670	7	5	23	1	0	1	0	1	0	0	0	0	8258	1783	62	0	2072	0	KIAA1797	9	20862670	Frame_Shift_Del	DEL	TC	TCGA-21-1078-01A-01D-1521-08		20862670	120350761	40	10571			2	11		3	2	24	N	TC_C	6.537945e-05
KIAA1797	54914	broad.mit.edu	37	chr9	20862683	20862683	+	Missense_Mutation	SNP	C	A	A													0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	actattttctctagttccttCcttaacggtcaatacaactg							TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr9:20862683C>A	uc003zog.1	+	18	2390	c.2027C>A	c.(2026-2028)TCC>TAC	p.S676Y	KIAA1797_uc003zoh.1_Missense_Mutation_p.S112Y	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	676						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		CTAGTTCCTTCCTTAACGGTC	0.413													93	14	---	---	---	---	PASS	A	20862683	A	A	20862683	3	1	23	1	0	0	0	0	1	0	0	0	8258	855	30	2	2085	2	KIAA1797	9	20862683	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	13	20862683	120350748	41	10572	298	2	2	11		3	2	24	N	TC_C	6.537945e-05
KIAA1797	54914	broad.mit.edu	37	chr9	20862693	20862693	+	Silent	SNP	C	A	A													0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ctagttccttccttaacggtCaatacaactgaatatgaggt							TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr9:20862693C>A	uc003zog.1	+	18	2400	c.2037C>A	c.(2035-2037)GTC>GTA	p.V679V	KIAA1797_uc003zoh.1_Silent_p.V115V	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	679						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		CCTTAACGGTCAATACAACTG	0.398													86	14	---	---	---	---	PASS	A	20862693	A	A	20862693	2	1	23	1	0	0	0	0	0	0	0	1	8258	813	29	2		2	KIAA1797	9	20862693	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08	10	20862693	120350738	42	10573	298	2	2	11		3	2	24	N	TC_C	6.537945e-05
RUSC2	9853	broad.mit.edu	37	chr9	35561252	35561252	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ccacaaaggagacatcctacGagtgctggggcgagctggag	15	10	0	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr9:35561252G>A	uc003zww.2	+	12	4679	c.4424G>A	c.(4423-4425)CGA>CAA	p.R1475Q	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.R1475Q	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	1475	SH3.					cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			GACATCCTACGAGTGCTGGGG	0.642													4	120	---	---	---	---	PASS	A	35561252	A	A	35561252	3	1	23	1	0	0	0	0	1	0	0	0	13751	1058	37	2	4466	2	RUSC2	9	35561252	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	14698559	35561252	105652179	43	10574										
ANKRD20A3	441425	broad.mit.edu	37	chr9	42368547	42368547	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	acagggcagctgtcaaaggcGacgccgcggaggtggagcgc	18	11	1	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr9:42368547G>A	uc004acd.2	+	1	245	c.133G>A	c.(133-135)GAC>AAC	p.D45N	ANKRD20A3_uc010mmv.2_Missense_Mutation_p.D45N	NM_001012419	NP_001012419	Q5VUR7	A20A3_HUMAN	ankyrin repeat domain 20 family, member A3	45											0						TGTCAAAGGCGACGCCGCGGA	0.677													25	103	---	---	---	---	PASS	A	42368547	A	A	42368547	3	1	23	1	0	0	0	0	1	0	0	0	649	1058	37	2	135	2	ANKRD20A3	9	42368547	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	6807295	42368547	98844884	44	10575										
KIAA0368	23392	broad.mit.edu	37	chr9	114176211	114176211	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ttgtctacaaatttggtagcCagcttttctggatacactga	8	8	2	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr9:114176211C>T	uc004bfe.1	-	21	2577	c.2577G>A	c.(2575-2577)CTG>CTA	p.L859L	KIAA0368_uc010muc.1_Silent_p.L681L	NM_001080398	NP_001073867			KIAA0368 protein												0						ATTTGGTAGCCAGCTTTTCTG	0.323													6	13	---	---	---	---	PASS	T	114176211	T	T	114176211	2	4	23	1	0	0	0	0	0	0	0	1	8171	581	21	3		3	KIAA0368	9	114176211	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08	71807664	114176211	27037220	45	10576										
RGS3	5998	broad.mit.edu	37	chr9	116356725	116356725	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	cccagagccaaggacatgaaGaacaagctggggatcttcag	12	10	2	3			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr9:116356725G>C	uc004bhq.2	+	23	3305	c.3096G>C	c.(3094-3096)AAG>AAC	p.K1032N	RGS3_uc004bhs.2_Missense_Mutation_p.K922N|RGS3_uc004bht.2_Missense_Mutation_p.K751N|RGS3_uc010muy.2_Missense_Mutation_p.K425N|RGS3_uc004bhv.2_Missense_Mutation_p.K353N|RGS3_uc004bhw.2_Missense_Mutation_p.K2N|RGS3_uc011lxh.1_Missense_Mutation_p.K342N|RGS3_uc004bhx.2_Missense_Mutation_p.K353N|RGS3_uc004bhz.2_Missense_Mutation_p.K374N|RGS3_uc004bia.2_Missense_Mutation_p.K145N	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	1032					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						AGGACATGAAGAACAAGCTGG	0.592													66	71	---	---	---	---	PASS	C	116356725	C	C	116356725	3	2	23	1	0	0	0	0	1	0	0	0	13306	933	33	2	3858	2	RGS3	9	116356725	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	2180514	116356725	24856706	46	10577										
SFMBT2	57713	broad.mit.edu	37	chr10	7409620	7409620	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	caggggctcaccgtccggcgGcatcaacaccttgttgttct	11	14	3	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr10:7409620G>A	uc009xio.1	-	4	518	c.427C>T	c.(427-429)CCG>TCG	p.P143S	SFMBT2_uc001ijn.1_Missense_Mutation_p.P143S|SFMBT2_uc010qay.1_Missense_Mutation_p.P143S|SFMBT2_uc001ijo.1_Missense_Mutation_p.P143S	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	143	MBT 1.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						CCGTCCGGCGGCATCAACACC	0.572													4	82	---	---	---	---	PASS	A	7409620	A	A	7409620	3	1	23	1	0	0	0	0	1	0	0	0	14158	1203	42	3	2329	3	SFMBT2	10	7409620	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08		7409620	128125127	47	10578										
ARHGAP22	58504	broad.mit.edu	37	chr10	49661458	49661458	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	atttgagtatgcctgaacttCatccagaaacctgcaaagta	7	9	1	3			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr10:49661458C>T	uc001jgt.2	-	8	1174	c.877G>A	c.(877-879)GAA>AAA	p.E293K	ARHGAP22_uc001jgs.2_Missense_Mutation_p.E203K|ARHGAP22_uc001jgu.2_Missense_Mutation_p.E309K|ARHGAP22_uc010qgl.1_Missense_Mutation_p.E250K|ARHGAP22_uc010qgm.1_Missense_Mutation_p.E299K|ARHGAP22_uc001jgv.2_5'UTR|ARHGAP22_uc001jgr.2_5'Flank	NM_021226	NP_067049	Q7Z5H3	RHG22_HUMAN	Rho GTPase activating protein 2	293	Rho-GAP.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol|nucleus	GTPase activator activity			ovary(1)	1						GCCTGAACTTCATCCAGAAAC	0.517													41	68	---	---	---	---	PASS	T	49661458	T	T	49661458	3	4	23	1	0	0	0	0	1	0	0	0	872	835	29	2	1231	2	ARHGAP22	10	49661458	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	42251838	49661458	85873289	48	10579										
CSTF2T	23283	broad.mit.edu	37	chr10	53458869	53458869	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ctgttttggacacagagcttCatctgcttcatcagctcaaa	7	11	5	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr10:53458869C>T	uc001jjp.2	-	1	487	c.441G>A	c.(439-441)ATG>ATA	p.M147I	PRKG1_uc001jjm.2_Intron|PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron	NM_015235	NP_056050	Q9H0L4	CSTFT_HUMAN	cleavage stimulation factor, 3' pre-RNA, subunit	147					mRNA processing	nucleus	nucleotide binding|RNA binding			ovary(1)	1				COAD - Colon adenocarcinoma(2;0.00736)|Colorectal(2;0.00898)|all cancers(4;0.0188)|GBM - Glioblastoma multiforme(4;0.0778)|Epithelial(53;0.122)		CACAGAGCTTCATCTGCTTCA	0.498													111	164	---	---	---	---	PASS	T	53458869	T	T	53458869	3	4	23	1	0	0	0	0	1	0	0	0	3985	826	29	2	1413	2	CSTF2T	10	53458869	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	3797411	53458869	82075878	49	10580										
OR10A3	26496	broad.mit.edu	37	chr11	7960244	7960244	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	taagcaacgtgtaagccaatGagatcagtttcttggtttcg	10	7	2	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr11:7960244G>A	uc010rbi.1	-	1	824	c.824C>T	c.(823-825)TCA>TTA	p.S275L		NM_001003745	NP_001003745	P58181	O10A3_HUMAN	olfactory receptor, family 10, subfamily A,	275	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1				Epithelial(150;1.38e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GTAAGCCAATGAGATCAGTTT	0.443													74	74	---	---	---	---	PASS	A	7960244	A	A	7960244	3	1	23	1	0	0	0	0	1	0	0	0	10891	1294	45	2	123	2	OR10A3	11	7960244	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08		7960244	127046272	50	10581										
ALX4	60529	broad.mit.edu	37	chr11	44289129	44289129	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	cctgctgcatctgcccaaaaCgctcccgcttcctccacttg	6	19	1	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr11:44289129C>T	uc001myb.2	-	3	925	c.821G>A	c.(820-822)CGT>CAT	p.R274H		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	274					hair follicle development						0						CTGCCCAAAACGCTCCCGCTT	0.597													84	100	---	---	---	---	PASS	T	44289129	T	T	44289129	3	4	23	1	0	0	0	0	1	0	0	0	558	536	19	1	422	1	ALX4	11	44289129	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	36328885	44289129	90717387	51	10582										
PPFIA1	8500	broad.mit.edu	37	chr11	70171633	70171633	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	agcgattacgagtagcacttGaaagatgtagtttgttagaa	11	4	0	3			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr11:70171633G>C	uc001opo.2	+	5	757	c.559G>C	c.(559-561)GAA>CAA	p.E187Q	PPFIA1_uc001opn.1_Missense_Mutation_p.E187Q|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_5'Flank	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	187	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			AGTAGCACTTGAAAGATGTAG	0.368													61	81	---	---	---	---	PASS	C	70171633	C	C	70171633	3	2	23	1	0	0	0	0	1	0	0	0	12309	1291	45	2	573	2	PPFIA1	11	70171633	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	25882504	70171633	64834883	52	10583										
PPFIA1	8500	broad.mit.edu	37	chr11	70172894	70172894	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ctcatcaaatctgaagaaatGaacacaaaattgcaacgaga	6	8	3	4			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr11:70172894G>T	uc001opo.2	+	7	1098	c.900G>T	c.(898-900)ATG>ATT	p.M300I	PPFIA1_uc001opn.1_Missense_Mutation_p.M300I|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	300	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			CTGAAGAAATGAACACAAAAT	0.398													100	148	---	---	---	---	PASS	T	70172894	T	T	70172894	3	4	23	1	0	0	0	0	1	0	0	0	12309	1290	45	2	922	2	PPFIA1	11	70172894	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	1261	70172894	64833622	53	10584										
GUCY1A2	2977	broad.mit.edu	37	chr11	106849404	106849404	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	cttcaatttcttctttgttgGagtggtctgcataggagcat	10	7	4	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr11:106849404G>C	uc001pjg.1	-	3	818	c.428C>G	c.(427-429)TCC>TGC	p.S143C	GUCY1A2_uc010rvo.1_Missense_Mutation_p.S143C|GUCY1A2_uc009yxn.1_Missense_Mutation_p.S143C	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	143					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		TTCTTTGTTGGAGTGGTCTGC	0.323													58	66	---	---	---	---	PASS	C	106849404	C	C	106849404	3	2	23	1	0	0	0	0	1	0	0	0	6893	1174	41	2	1794	2	GUCY1A2	11	106849404	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	36676510	106849404	28157112	54	10585										
WNK1	65125	broad.mit.edu	37	chr12	1017901	1017901	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	tccttgcagaatttcaacatCagcaatttgcagaaatccat	5	10	2	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr12:1017901C>T	uc001qio.3	+	28	7599	c.7092C>T	c.(7090-7092)ATC>ATT	p.I2364I	WNK1_uc001qip.3_Silent_p.I2116I|WNK1_uc001qir.3_Silent_p.I1537I	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	2364					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			ATTTCAACATCAGCAATTTGC	0.547													33	56	---	---	---	---	PASS	T	1017901	T	T	1017901	2	4	23	1	0	0	0	0	0	0	0	1	17374	816	29	2		2	WNK1	12	1017901	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08		1017901	132833994	55	10586										
FAM90A1	55138	broad.mit.edu	37	chr12	8376647	8376647	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ttctctcccttatccttgttCaagggcccagggttcgcttc	8	14	2	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr12:8376647C>T	uc001qui.2	-	5	847	c.288G>A	c.(286-288)TTG>TTA	p.L96L	FAM90A1_uc001quh.2_Silent_p.L96L	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	96							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		TATCCTTGTTCAAGGGCCCAG	0.542													148	159	---	---	---	---	PASS	T	8376647	T	T	8376647	2	4	23	1	0	0	0	0	0	0	0	1	5650	825	29	2		2	FAM90A1	12	8376647	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08	7358746	8376647	125475248	56	10587										
STYK1	55359	broad.mit.edu	37	chr12	10772780	10772780	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	tgtagaagaggctctccactCtgatgccggccacagctgca	11	13	2	3			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr12:10772780C>G	uc001qys.2	-	11	1753	c.1232G>C	c.(1231-1233)AGA>ACA	p.R411T		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	411						integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						GCTCTCCACTCTGATGCCGGC	0.458										HNSCC(73;0.22)			200	250	---	---	---	---	PASS	G	10772780	G	G	10772780	3	3	23	1	0	0	0	0	1	0	0	0	15358	913	32	2	40	2	STYK1	12	10772780	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	2396133	10772780	123079115	57	10588										
KRAS	3845	broad.mit.edu	37	chr12	25378645	25378645	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ctgttctagaaggcaaatcaCatttatttcctactaggacc	6	10	2	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr12:25378645C>G	uc001rgp.1	-	4	534	c.353G>C	c.(352-354)TGT>TCT	p.C118S	KRAS_uc001rgq.1_Missense_Mutation_p.C118S	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	118	GTP.				activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding			large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			AGGCAAATCACATTTATTTCC	0.353		119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			103	109	---	---	---	---	PASS	G	25378645	G	G	25378645	3	3	23	1	0	0	0	0	1	0	0	0	8438	478	17	4	345	4	KRAS	12	25378645	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	14605865	25378645	108473250	58	10589										
MLL2	8085	broad.mit.edu	37	chr12	49427255	49427255	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	cacctgtcctagaaggtgctGctgctgctgttgctgctgct	12	12	0	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr12:49427255G>A	uc001rta.3	-	39	11233	c.11233C>T	c.(11233-11235)CAG>TAG	p.Q3745*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3745	Potential.|Gln-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGAAGGtgctgctgctgctgt	0.463			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			6	7	---	---	---	---	PASS	A	49427255	A	A	49427255	4	1	23	1	0	0	0	0	0	1	0	0	9621	1328	46	3	5444	3	MLL2	12	49427255	Nonsense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	24048610	49427255	84424640	59	10590										
KCNH3	23416	broad.mit.edu	37	chr12	49951431	49951431	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	cctggggtcccccagcgtctCagagctccccctggcctcga	11	19	1	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr12:49951431C>T	uc001ruh.1	+	15	3207	c.2947C>T	c.(2947-2949)CAG>TAG	p.Q983*	KCNH3_uc010smj.1_Nonsense_Mutation_p.Q923*	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	983	Pro-rich.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						CCCAGCGTCTCAGAGCTCCCC	0.692													44	69	---	---	---	---	PASS	T	49951431	T	T	49951431	4	4	23	1	0	0	0	0	0	1	0	0	8033	827	29	2	3005	2	KCNH3	12	49951431	Nonsense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	524176	49951431	83900464	60	10591										
BBS10	79738	broad.mit.edu	37	chr12	76741254	76741254	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gtatgcttctaagagcaactCtaaagagctcctacacaatg	7	10	2	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr12:76741254C>G	uc001syd.1	-	2	595	c.511G>C	c.(511-513)GAG>CAG	p.E171Q		NM_024685	NP_078961	Q8TAM1	BBS10_HUMAN	Bardet-Biedl syndrome 10	171					cellular protein metabolic process|nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	cilium	ATP binding			ovary(1)|skin(1)	2						AAGAGCAACTCTAAAGAGCTC	0.353									Bardet-Biedl_syndrome				67	71	---	---	---	---	PASS	G	76741254	G	G	76741254	3	3	23	1	0	0	0	0	1	0	0	0	1336	922	32	2	1664	2	BBS10	12	76741254	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	26789823	76741254	57110641	61	10592										
CCDC60	160777	broad.mit.edu	37	chr12	119909929	119909929	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gaaataaattccagccagccGaaaagatctcagaaatccac	6	11	1	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr12:119909929G>A	uc001txe.2	+	3	766	c.301G>A	c.(301-303)GAA>AAA	p.E101K	uc001txf.2_Intron	NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60	101										ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		CCAGCCAGCCGAAAAGATCTC	0.423													180	244	---	---	---	---	PASS	A	119909929	A	A	119909929	3	1	23	1	0	0	0	0	1	0	0	0	2831	1059	37	2	311	2	CCDC60	12	119909929	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	43168675	119909929	13941966	62	10593										
ANKLE2	23141	broad.mit.edu	37	chr12	133324434	133324434	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gcaccatcttgtcgggggtgTtgaggtacaggtccaccacg	14	11	1	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr12:133324434T>G	uc001ukx.2	-	5	1281	c.1214A>C	c.(1213-1215)AAC>ACC	p.N405T	ANKLE2_uc001uky.3_Missense_Mutation_p.N343T	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	405						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		GTCGGGGGTGTTGAGGTACAG	0.498													52	73	---	---	---	---	PASS	G	133324434	G	G	133324434	3	3	23	1	0	0	0	0	1	0	0	0	633	1725	60	5	1638	5	ANKLE2	12	133324434	Missense_Mutation	SNP	T	TCGA-21-1078-01A-01D-1521-08	13414505	133324434	527461	63	10594										
PARP4	143	broad.mit.edu	37	chr13	25049640	25049640	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gtgtctatgattctccctttGatgtggacatcctccagagg	10	10	2	3			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr13:25049640G>A	uc001upl.2	-	15	1990	c.1884C>T	c.(1882-1884)ATC>ATT	p.I628I	PARP4_uc010tdc.1_Silent_p.I628I	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	628	VIT.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		TTCTCCCTTTGATGTGGACAT	0.463													98	152	---	---	---	---	PASS	A	25049640	A	A	25049640	2	1	23	1	0	0	0	0	0	0	0	1	11463	1280	45	2		2	PARP4	13	25049640	Silent	SNP	G	TCGA-21-1078-01A-01D-1521-08		25049640	90120238	64	10595										
BRCA2	675	broad.mit.edu	37	chr13	32944665	32944665	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gaaatgttggttgtgttgatGtaattattcaaagagcatac	10	3	1	2	rs80359095		TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr13:32944665G>A	uc001uub.1	+	19	8685	c.8458G>A	c.(8458-8460)GTA>ATA	p.V2820I		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2820					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TTGTGTTGATGTAATTATTCA	0.328			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			72	106	---	---	---	---	PASS	A	32944665	A	A	32944665	3	1	23	1	0	0	0	0	1	0	0	0	1499	1377	48	3	8528	3	BRCA2	13	32944665	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	7895025	32944665	82225213	65	10596										
KL	9365	broad.mit.edu	37	chr13	33590885	33590885	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	accccctggcacccccgggaGactcccggaacgccagtctg	11	19	1	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr13:33590885G>A	uc001uus.2	+	1	315	c.307G>A	c.(307-309)GAC>AAC	p.D103N	KL_uc001uur.1_Intron	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	103	Glycosyl hydrolase-1 1.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		ACCCCCGGGAGACTCCCGGAA	0.711													20	28	---	---	---	---	PASS	A	33590885	A	A	33590885	3	1	23	1	0	0	0	0	1	0	0	0	8331	942	33	2	309	2	KL	13	33590885	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	646220	33590885	81578993	66	10597										
YLPM1	56252	broad.mit.edu	37	chr14	75287820	75287820	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	aagaagaaaagaaagatgcaGaggaagaggaaagcgaactg	14	3	0	6			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr14:75287820G>C	uc001xqj.3	+	17	6215	c.6091G>C	c.(6091-6093)GAG>CAG	p.E2031Q	YLPM1_uc001xql.3_RNA|YLPM1_uc001xqm.1_Missense_Mutation_p.E514Q	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1836					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		GAAAGATGCAGAGGAAGAGGA	0.333													4	4	---	---	---	---	PASS	C	75287820	C	C	75287820	3	2	23	1	0	0	0	0	1	0	0	0	17483	943	33	2	6157	2	YLPM1	14	75287820	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08		75287820	32061720	67	10598										
ZNF839	55778	broad.mit.edu	37	chr14	102792953	102792953	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ctttgacttatcgagctgctCcctgaggcccaaaagcttta	8	12	0	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr14:102792953C>T	uc001ylo.2	+	2	922	c.572C>T	c.(571-573)TCC>TTC	p.S191F	ZNF839_uc010awk.1_Missense_Mutation_p.S307F|ZNF839_uc001ylp.2_RNA|ZNF839_uc001ylq.1_Missense_Mutation_p.S191F|ZNF839_uc001ylr.2_Missense_Mutation_p.S191F	NM_018335	NP_060805	A8K0R7	ZN839_HUMAN	zinc finger protein 839	191						intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)	2						TCGAGCTGCTCCCTGAGGCCC	0.483													20	23	---	---	---	---	PASS	T	102792953	T	T	102792953	3	4	23	1	0	0	0	0	1	0	0	0	18185	855	30	2	926	2	ZNF839	14	102792953	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	27505133	102792953	4556587	68	10599										
AHNAK2	113146	broad.mit.edu	37	chr14	105409053	105409053	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	acatccgccttggggcctttCaggtccagcttggggccctt	12	14	1	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr14:105409053C>G	uc010axc.1	-	7	12855	c.12735G>C	c.(12733-12735)CTG>CTC	p.L4245L	AHNAK2_uc001ypx.2_Silent_p.L4145L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4245						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)			TGGGGCCTTTCAGGTCCAGCT	0.637													157	186	---	---	---	---	PASS	G	105409053	G	G	105409053	2	3	23	1	0	0	0	0	0	0	0	1	415	813	29	2		2	AHNAK2	14	105409053	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08	2616100	105409053	1940487	69	10600										
AHNAK2	113146	broad.mit.edu	37	chr14	105409191	105409191	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	agggggccctccgggagtttCacgtccacttggccagcctg	14	14	1	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr14:105409191C>T	uc010axc.1	-	7	12717	c.12597G>A	c.(12595-12597)GTG>GTA	p.V4199V	AHNAK2_uc001ypx.2_Silent_p.V4099V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4199						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)			CCGGGAGTTTCACGTCCACTT	0.642													118	181	---	---	---	---	PASS	T	105409191	T	T	105409191	2	4	23	1	0	0	0	0	0	0	0	1	415	813	29	2		2	AHNAK2	14	105409191	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08	138	105409191	1940349	70	10601										
CD276	80381	broad.mit.edu	37	chr15	73994714	73994714	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ctggcacagctcaacctcatCtggcagctgacagataccaa	8	14	3	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr15:73994714C>G	uc002avv.1	+	3	432	c.198C>G	c.(196-198)ATC>ATG	p.I66M	CD276_uc010bjd.1_Translation_Start_Site|CD276_uc002avu.1_Missense_Mutation_p.I66M|CD276_uc002avw.1_Missense_Mutation_p.I66M|CD276_uc010ulb.1_Intron|CD276_uc002avx.2_5'Flank	NM_001024736	NP_001019907	Q5ZPR3	CD276_HUMAN	CD276 antigen isoform a	66	Ig-like V-type 1.|Extracellular (Potential).				cell proliferation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of T cell proliferation|regulation of immune response|T cell activation	external side of plasma membrane|integral to membrane	receptor binding			skin(1)	1						TCAACCTCATCTGGCAGCTGA	0.637													39	36	---	---	---	---	PASS	G	73994714	G	G	73994714	3	3	23	1	0	0	0	0	1	0	0	0	2992	903	32	2	204	2	CD276	15	73994714	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08		73994714	28536678	71	10602										
CREBBP	1387	broad.mit.edu	37	chr16	3788618	3788618	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ctcatggtaaacggctgtgcGgaggcaacgtggccggaaga	16	9	1	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr16:3788618G>A	uc002cvv.2	-	26	4540	c.4336C>T	c.(4336-4338)CGC>TGC	p.R1446C	CREBBP_uc002cvw.2_Missense_Mutation_p.R1408C	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1446	Cys/His-rich.				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	p.R1446H(3)|p.R1446L(2)|p.R1446C(2)		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)		ACGGCTGTGCGGAGGCAACGT	0.413			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				32	28	---	---	---	---	PASS	A	3788618	A	A	3788618	3	1	23	1	0	0	0	0	1	0	0	0	3861	1116	39	1	3016	1	CREBBP	16	3788618	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08		3788618	86566135	72	10603										
TSNAXIP1	55815	broad.mit.edu	37	chr16	67858617	67858617	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	aaatctccctgctcaagaaaGagaagatgaacttgctaaaa	7	8	2	4			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr16:67858617G>C	uc002euj.2	+	6	845	c.451G>C	c.(451-453)GAG>CAG	p.E151Q	TSNAXIP1_uc010cep.2_Missense_Mutation_p.E15Q|TSNAXIP1_uc010vjz.1_Intron|TSNAXIP1_uc002euf.3_Intron|TSNAXIP1_uc010vka.1_Missense_Mutation_p.E205Q|TSNAXIP1_uc010vkb.1_Missense_Mutation_p.E136Q|TSNAXIP1_uc002eug.3_5'UTR|TSNAXIP1_uc002euh.3_5'UTR|TSNAXIP1_uc002eui.3_Intron|TSNAXIP1_uc002euk.2_5'UTR	NM_018430	NP_060900	Q2TAA8	TXIP1_HUMAN	translin-associated factor X interacting protein	151	Potential.				cell differentiation|multicellular organismal development|spermatogenesis	perinuclear region of cytoplasm					0		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00432)|Epithelial(162;0.0192)|all cancers(182;0.125)		GCTCAAGAAAGAGAAGATGAA	0.468													36	53	---	---	---	---	PASS	C	67858617	C	C	67858617	3	2	23	1	0	0	0	0	1	0	0	0	16629	943	33	2	465	2	TSNAXIP1	16	67858617	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	64069999	67858617	22496136	73	10604										
KIAA0753	9851	broad.mit.edu	37	chr17	6483097	6483097	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gcctctaagaattctgaggtGaacacagcttctgcataatc	8	10	3	3			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr17:6483097G>A	uc002gde.3	-	19	3233	c.2874C>T	c.(2872-2874)TTC>TTT	p.F958F	KIAA0753_uc010vtd.1_Silent_p.F414F|KIAA0753_uc010clo.2_Silent_p.F659F|KIAA0753_uc010vte.1_Silent_p.F659F	NM_014804	NP_055619	Q2KHM9	K0753_HUMAN	hypothetical protein LOC9851	958						centrosome					0				COAD - Colon adenocarcinoma(228;0.157)		ATTCTGAGGTGAACACAGCTT	0.498													108	112	---	---	---	---	PASS	A	6483097	A	A	6483097	2	1	23	1	0	0	0	0	0	0	0	1	8191	1281	45	2		2	KIAA0753	17	6483097	Silent	SNP	G	TCGA-21-1078-01A-01D-1521-08		6483097	74712113	74	10605										
SHBG	6462	broad.mit.edu	37	chr17	7534110	7534110	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gacttcgagacggcaggcctGagatccaactgcacaatcac	10	13	1	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr17:7534110G>C	uc002gie.2	+	3	354	c.316G>C	c.(316-318)GAG>CAG	p.E106Q	SHBG_uc010cmo.2_Missense_Mutation_p.E48Q|SHBG_uc010cmp.2_Missense_Mutation_p.E48Q|SHBG_uc010cmq.2_Missense_Mutation_p.E48Q|SHBG_uc010cmr.2_Missense_Mutation_p.E48Q|SHBG_uc010cms.2_Missense_Mutation_p.E48Q|SHBG_uc010cmt.2_Missense_Mutation_p.E48Q|SHBG_uc010cmu.2_Missense_Mutation_p.E48Q|SAT2_uc002gib.1_5'Flank|SAT2_uc002gic.2_5'Flank|SHBG_uc010cmz.2_Missense_Mutation_p.E48Q|SHBG_uc010cmv.2_Missense_Mutation_p.E48Q|SHBG_uc010cmw.2_Missense_Mutation_p.E48Q|SHBG_uc010cmx.2_Missense_Mutation_p.E48Q|SHBG_uc010cmy.2_Missense_Mutation_p.E48Q|SHBG_uc002gid.3_Missense_Mutation_p.E48Q|SHBG_uc010cnd.2_Missense_Mutation_p.E106Q|SHBG_uc010cna.2_Missense_Mutation_p.E106Q|SHBG_uc010vue.1_Missense_Mutation_p.E106Q|SHBG_uc010vuf.1_Missense_Mutation_p.E106Q|SHBG_uc010cnb.2_Missense_Mutation_p.E106Q|SHBG_uc010cnc.2_Missense_Mutation_p.E106Q	NM_001040	NP_001031	P04278	SHBG_HUMAN	sex hormone-binding globulin isoform 1	106	Laminin G-like 1.				hormone transport	extracellular region	androgen binding|protein homodimerization activity	p.?(1)			0		all_cancers(10;0.0867)		READ - Rectum adenocarcinoma(115;0.168)	Danazol(DB01406)|Dromostanolone(DB00858)|Estradiol(DB00783)|Estrone(DB00655)|Fluoxymesterone(DB01185)|Hydrocortisone(DB00741)|Mitotane(DB00648)|Norethindrone(DB00717)|Testosterone(DB00624)	CGGCAGGCCTGAGATCCAACT	0.557													75	61	---	---	---	---	PASS	C	7534110	C	C	7534110	3	2	23	1	0	0	0	0	1	0	0	0	14269	1291	45	2	326	2	SHBG	17	7534110	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	1051013	7534110	73661100	75	10606										
PIGL	9487	broad.mit.edu	37	chr17	16120682	16120682	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gccggaccctgctggtcataGcgcaccctgacgatgaagcc	12	15	1	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr17:16120682G>C	uc002gpv.2	+	1	174	c.142G>C	c.(142-144)GCG>CCG	p.A48P	NCOR1_uc002gpo.2_5'Flank|PIGL_uc010vwd.1_Missense_Mutation_p.A48P|NCOR1_uc002gps.1_5'Flank|NCOR1_uc010coz.1_5'Flank|NCOR1_uc010cpb.1_5'Flank|NCOR1_uc010cpa.1_5'Flank|NCOR1_uc002gpu.2_5'Flank	NM_004278	NP_004269	Q9Y2B2	PIGL_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	48	Cytoplasmic (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	N-acetylglucosaminylphosphatidylinositol deacetylase activity				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0934)		GCTGGTCATAGCGCACCCTGA	0.597													59	78	---	---	---	---	PASS	C	16120682	C	C	16120682	3	2	23	1	0	0	0	0	1	0	0	0	11891	971	34	4	144	4	PIGL	17	16120682	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	8586572	16120682	65074528	76	10607										
RAD51L3	5892	broad.mit.edu	37	chr17	33434099	33434099	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	atctacatataggacgttttGctgcaggccatgggccacat	10	10	1	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr17:33434099G>C	uc002hir.2	-	5	644	c.388C>G	c.(388-390)CAA>GAA	p.Q130E	RFFL_uc002hiq.2_Intron|RAD51L3_uc010ctj.2_5'Flank|RAD51L3_uc010wcd.1_Missense_Mutation_p.Q150E|RAD51L3_uc002his.2_Intron|RAD51L3_uc010ctk.2_Missense_Mutation_p.Q11E|RAD51L3_uc010wce.1_Missense_Mutation_p.Q11E|RAD51L3_uc002hit.2_Missense_Mutation_p.Q11E|RAD51L3_uc002hiu.2_Intron|RAD51L3_uc010wcf.1_RNA|RAD51L3_uc002hiw.1_RNA|RAD51L3_uc002hiv.1_Intron|RAD51L3_uc010ctl.1_Intron|RAD51L3_uc010ctm.1_Intron	NM_002878	NP_002869	O75771	RA51D_HUMAN	RAD51-like 3 isoform 1	130					DNA repair|reciprocal meiotic recombination	nucleus	ATP binding|DNA binding|DNA-dependent ATPase activity|protein binding				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		AGGACGTTTTGCTGCAGGCCA	0.552								Direct_reversal_of_damage|Homologous_recombination					76	95	---	---	---	---	PASS	C	33434099	C	C	33434099	3	2	23	1	0	0	0	0	1	0	0	0	12990	1328	46	4	622	4	RAD51L3	17	33434099	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	17313417	33434099	47761111	77	10608										
CCL16	6360	broad.mit.edu	37	chr17	34305249	34305249	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	tctccttggcaacactttctCataatacttcaggcagcagg	7	12	3	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr17:34305249C>T	uc002hkl.2	-	2	194	c.127G>A	c.(127-129)GAG>AAG	p.E43K	CCL16_uc002hkm.2_RNA	NM_004590	NP_004581	O15467	CCL16_HUMAN	small inducible cytokine A16 precursor	43					cell-cell signaling|immune response|inflammatory response	extracellular space	chemoattractant activity|chemokine activity				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		AACACTTTCTCATAATACTTC	0.502													162	227	---	---	---	---	PASS	T	34305249	T	T	34305249	3	4	23	1	0	0	0	0	1	0	0	0	2887	835	29	2	243	2	CCL16	17	34305249	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	871150	34305249	46889961	78	10609										
SMCHD1	23347	broad.mit.edu	37	chr18	2688481	2688483	+	In_Frame_Del	DEL	TCT	-	-													0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	tgttgggggcaagcaagctgTcttctttgttggacaatcag							TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr18:2688481_2688483delTCT	uc002klm.3	+	6	917_919	c.728_730delTCT	c.(727-732)GTCTTC>GTC	p.F245del		NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	245					chromosome organization		ATP binding				0						AAGCAAGCTGTCTTCTTTGTTGG	0.35													117	82	---	---	---	---		-	2688483	-	-	2688481	7	5	23	1	0	1	0	1	0	0	0	0	14788	1667	58	0	750	0	SMCHD1	18	2688481	In_Frame_Del	DEL	TCT	TCGA-21-1078-01A-01D-1521-08		2688481	75388767	79	10610										
ZNF236	7776	broad.mit.edu	37	chr18	74620297	74620297	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	tatgagcttgcccagcagctCcaacagcatcagcaggcagc	10	14	1	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr18:74620297C>G	uc002lmi.2	+	14	2511	c.2313C>G	c.(2311-2313)CTC>CTG	p.L771L	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	771					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CCCAGCAGCTCCAACAGCATC	0.493													87	168	---	---	---	---	PASS	G	74620297	G	G	74620297	2	3	23	1	0	0	0	0	0	0	0	1	17786	842	30	2		2	ZNF236	18	74620297	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08	71931816	74620297	3456951	80	10611										
APC2	10297	broad.mit.edu	37	chr19	1470100	1470100	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gcacggctcccccagccgctCggcccgagtaccccccttca	9	22	1	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr19:1470100C>T	uc002lsr.1	+	15	7008	c.6800C>T	c.(6799-6801)TCG>TTG	p.S2267L	APC2_uc002lss.1_Missense_Mutation_p.S1849L|APC2_uc002lst.1_Missense_Mutation_p.S2267L|APC2_uc002lsu.1_Missense_Mutation_p.S2266L|C19orf25_uc010xgn.1_Intron	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	2267					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCAGCCGCTCGGCCCGAGTA	0.736													4	12	---	---	---	---	PASS	T	1470100	T	T	1470100	3	4	23	1	0	0	0	0	1	0	0	0	764	893	31	2	6854	2	APC2	19	1470100	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08		1470100	57658883	81	10612										
PLIN3	10226	broad.mit.edu	37	chr19	4839538	4839538	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	ggaacatggtgagcgcccggGactcgacctgctgagaaggg	17	10	0	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr19:4839538G>A	uc002mbj.2	-	8	1148	c.971C>T	c.(970-972)TCC>TTC	p.S324F	PLIN3_uc002mbk.2_Missense_Mutation_p.S312F|PLIN3_uc002mbl.3_Missense_Mutation_p.S323F	NM_005817	NP_005808	O60664	PLIN3_HUMAN	mannose 6 phosphate receptor binding protein 1	324					vesicle-mediated transport	endosome membrane|Golgi apparatus|lipid particle	protein binding				0					Galsulfase(DB01279)|Idursulfase(DB01271)	GAGCGCCCGGGACTCGACCTG	0.597													25	13	---	---	---	---	PASS	A	4839538	A	A	4839538	3	1	23	1	0	0	0	0	1	0	0	0	12091	1174	41	2	337	2	PLIN3	19	4839538	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	3369438	4839538	54289445	82	10613										
MUC16	94025	broad.mit.edu	37	chr19	9069097	9069097	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	agctggcatgaatgtaggatCatagtaggtgacttctgccc	12	8	2	2			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr19:9069097C>A	uc002mkp.2	-	3	18553	c.18349G>T	c.(18349-18351)GAT>TAT	p.D6117Y		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6119	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AATGTAGGATCATAGTAGGTG	0.493													22	37	---	---	---	---	PASS	A	9069097	A	A	9069097	3	1	23	1	0	0	0	0	1	0	0	0	9973	826	29	2	25502	2	MUC16	19	9069097	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	4229559	9069097	50059886	83	10614										
CSNK2A1	1457	broad.mit.edu	37	chr20	472947	472947	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	tgaagtatcgggaagcaactCggacattatattcttggcca	10	8	1	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr20:472947C>T	uc002wdw.1	-	9	965	c.572G>A	c.(571-573)CGA>CAA	p.R191Q	CSNK2A1_uc002wdx.1_Missense_Mutation_p.R191Q|CSNK2A1_uc002wdy.1_Missense_Mutation_p.R55Q	NM_177559	NP_808227	P68400	CSK21_HUMAN	casein kinase II alpha 1 subunit isoform a	191	Protein kinase.				axon guidance|Wnt receptor signaling pathway	cytosol|NuRD complex|plasma membrane|Sin3 complex	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			ovary(1)	1		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)			GGAAGCAACTCGGACATTATA	0.413													4	47	---	---	---	---	PASS	T	472947	T	T	472947	3	4	23	1	0	0	0	0	1	0	0	0	3957	884	31	2	627	2	CSNK2A1	20	472947	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08		472947	62552573	84	10615										
JPH2	57158	broad.mit.edu	37	chr20	42744725	42744725	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	cgcgcggggctgcggcggccCgcgccctcggacggagtgac	19	16	0	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr20:42744725C>A	uc002xli.1	-	4	2463	c.1590G>T	c.(1588-1590)GCG>GCT	p.A530A		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	530	Pro-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			TGCGGCGGCCCGCGCCCTCGG	0.761													5	2	---	---	---	---	PASS	A	42744725	A	A	42744725	2	1	23	1	0	0	0	0	0	0	0	1	7961	639	23	1		1	JPH2	20	42744725	Silent	SNP	C	TCGA-21-1078-01A-01D-1521-08	42271778	42744725	20280795	85	10616										
LAMA5	3911	broad.mit.edu	37	chr20	60908748	60908748	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gggtgggaaggccacgggctGactctgtgctgtgcctgggc	19	10	1	1			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr20:60908748G>A	uc002ycq.2	-	24	2960	c.2893C>T	c.(2893-2895)CAG>TAG	p.Q965*		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	965	Domain IV 1 (domain IV B).				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCCACGGGCTGACTCTGTGCT	0.692													4	1	---	---	---	---	PASS	A	60908748	A	A	60908748	4	1	23	1	0	0	0	0	0	1	0	0	8609	1299	45	2	8422	2	LAMA5	20	60908748	Nonsense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08	18164023	60908748	2116772	86	10617										
MCM3AP	8888	broad.mit.edu	37	chr21	47666692	47666692	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	gtcctcctctgccatgtcctCactcttcattttggggggaa	9	13	4	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chr21:47666692C>T	uc002zir.1	-	21	4435	c.4399G>A	c.(4399-4401)GAG>AAG	p.E1467K	MCM3APAS_uc002zim.2_Intron|MCM3APAS_uc002zin.2_Intron|MCM3AP_uc002zio.1_5'UTR|MCM3AP_uc002zip.1_Missense_Mutation_p.E208K|MCM3AP_uc002ziq.1_Missense_Mutation_p.E394K|MCM3APAS_uc002zis.1_Intron	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1467					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					GCCATGTCCTCACTCTTCATT	0.602													140	214	---	---	---	---	PASS	T	47666692	T	T	47666692	3	4	23	1	0	0	0	0	1	0	0	0	9388	835	29	2	1575	2	MCM3AP	21	47666692	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08		47666692	463203	87	10618										
HUWE1	10075	broad.mit.edu	37	chrX	53581603	53581603	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	attctactcacttatagtggGagctggggataactccatct	9	9	3	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chrX:53581603G>C	uc004dsp.2	-	61	8887	c.8485C>G	c.(8485-8487)CCC>GCC	p.P2829A	HUWE1_uc004dsn.2_Missense_Mutation_p.P1653A	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2829					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CTTATAGTGGGAGCTGGGGAT	0.458													41	2	---	---	---	---	PASS	C	53581603	C	C	53581603	3	2	23	1	0	0	0	0	1	0	0	0	7461	1174	41	2	4735	2	HUWE1	23	53581603	Missense_Mutation	SNP	G	TCGA-21-1078-01A-01D-1521-08		53581603	101688957	88	10619										
DRP2	1821	broad.mit.edu	37	chrX	100494030	100494030	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.375	33	5.90988641579837e-10	3.29419442710402	3.90145754119138	2.95525687505527	0.349677032717578	0.753662828188879	23	attctgtgctggagtcagctCaggccttcctgtcccagcac	10	14	3	0			TCGA-21-1078-01A-01D-1521-08	TCGA-21-1078-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	8cf9b32d-3d6f-4898-8c7a-89511b754021	59ed3755-0b09-4a75-81bf-0994e7a2d11a	g.chrX:100494030C>A	uc004egz.2	+	6	868	c.499C>A	c.(499-501)CAG>AAG	p.Q167K	DRP2_uc011mrh.1_Missense_Mutation_p.Q89K	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	167	Spectrin 1.				central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						GGAGTCAGCTCAGGCCTTCCT	0.473													130	12	---	---	---	---	PASS	A	100494030	A	A	100494030	3	1	23	1	0	0	0	0	1	0	0	0	4764	827	29	2	513	2	DRP2	23	100494030	Missense_Mutation	SNP	C	TCGA-21-1078-01A-01D-1521-08	46912427	100494030	54776530	89	10620										
KLHL17	339451	broad.mit.edu	37	chr1	898253	898253	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cctaggcaccagccgcacacGtccccggcgctgcgaggggg	15	17	0	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:898253G>A	uc001aca.1	+	6	1105	c.998G>A	c.(997-999)CGT>CAT	p.R333H	KLHL17_uc001acc.1_RNA|KLHL17_uc010nyb.1_Missense_Mutation_p.R56H	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	333	Interaction with F-actin (By similarity).				actin cytoskeleton organization	actin cytoskeleton|cell junction|postsynaptic density|postsynaptic membrane	protein complex scaffold				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.52e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.59e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000469)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		AGCCGCACACGTCCCCGGCGC	0.672													17	42	---	---	---	---	PASS	A	898253	A	A	898253	3	1	24	1	0	0	0	0	1	0	0	0	8372	1145	40	1	1020	1	KLHL17	1	898253	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08		898253	248352368	1	10621										
B3GALT6	126792	broad.mit.edu	37	chr1	1168415	1168415	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gcgcctggctggcgccggtgGacgtccagcgggagcacgac	18	14	0	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:1168415G>A	uc001adk.2	+	1	787	c.757G>A	c.(757-759)GAC>AAC	p.D253N	SDF4_uc001adh.3_5'Flank|SDF4_uc001adi.3_5'Flank|SDF4_uc009vjv.2_5'Flank|SDF4_uc009vjw.2_5'Flank	NM_080605	NP_542172	Q96L58	B3GT6_HUMAN	beta-1,3-galactosyltransferase 6	253	Lumenal (Potential).				glycosaminoglycan biosynthetic process|protein glycosylation	Golgi cisterna membrane|Golgi medial cisterna|integral to membrane	galactosylxylosylprotein 3-beta-galactosyltransferase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;2.22e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GGCGCCGGTGGACGTCCAGCG	0.692													11	7	---	---	---	---	PASS	A	1168415	A	A	1168415	3	1	24	1	0	0	0	0	1	0	0	0	1251	1174	41	2	759	2	B3GALT6	1	1168415	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	270162	1168415	248082206	2	10622										
PUSL1	126789	broad.mit.edu	37	chr1	1245137	1245137	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	acttcagcgccttccagtccGctggcagcccggtgccgagc	12	17	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:1245137G>A	uc001aed.2	+	5	580	c.550G>A	c.(550-552)GCT>ACT	p.A184T	ACAP3_uc001aeb.2_5'Flank|ACAP3_uc001aec.1_5'Flank|PUSL1_uc010nyi.1_Missense_Mutation_p.A23T|PUSL1_uc009vjx.2_5'UTR	NM_153339	NP_699170	Q8N0Z8	PUSL1_HUMAN	pseudouridylate synthase-like 1	184					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			skin(1)	1	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;4.95e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CTTCCAGTCCGCTGGCAGCCC	0.687													4	14	---	---	---	---	PASS	A	1245137	A	A	1245137	3	1	24	1	0	0	0	0	1	0	0	0	12835	1087	38	1	568	1	PUSL1	1	1245137	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	76722	1245137	248005484	3	10623										
PIK3CD	5293	broad.mit.edu	37	chr1	9777668	9777668	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ccagggcagcaaagtgaacgCcgacgagcggatgaaggtgg	17	9	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:9777668C>T	uc001aqb.3	+	8	1212	c.1004C>T	c.(1003-1005)GCC>GTC	p.A335V	PIK3CD_uc010oaf.1_Missense_Mutation_p.A335V|PIK3CD_uc001aqe.3_Missense_Mutation_p.A300V	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	335					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		AAAGTGAACGCCGACGAGCGG	0.602													19	50	---	---	---	---	PASS	T	9777668	T	T	9777668	3	4	24	1	0	0	0	0	1	0	0	0	11915	739	26	3	1026	3	PIK3CD	1	9777668	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	8532531	9777668	239472953	4	10624										
PIK3CD	5293	broad.mit.edu	37	chr1	9787039	9787039	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgaagtttaacgaagccctcCgtgagagctggaaaaccaaa	10	9	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:9787039C>T	uc001aqb.3	+	24	3278	c.3070C>T	c.(3070-3072)CGT>TGT	p.R1024C	PIK3CD_uc010oaf.1_Missense_Mutation_p.R1023C|PIK3CD_uc001aqe.3_Missense_Mutation_p.R1048C	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	1024	PI3K/PI4K.				phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		CGAAGCCCTCCGTGAGAGCTG	0.577													9	65	---	---	---	---	PASS	T	9787039	T	T	9787039	3	4	24	1	0	0	0	0	1	0	0	0	11915	652	23	1	3156	1	PIK3CD	1	9787039	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	9371	9787039	239463582	5	10625										
CASZ1	54897	broad.mit.edu	37	chr1	10715863	10715863	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ggatcacgtcctgcttactcGtgaacctctgccaggagaca	10	13	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:10715863G>A	uc001aro.2	-	9	1828	c.1508C>T	c.(1507-1509)ACG>ATG	p.T503M	CASZ1_uc001arp.1_Missense_Mutation_p.T503M|CASZ1_uc009vmx.2_Missense_Mutation_p.T527M	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	503					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		CTGCTTACTCGTGAACCTCTG	0.632													21	94	---	---	---	---	PASS	A	10715863	A	A	10715863	3	1	24	1	0	0	0	0	1	0	0	0	2685	1145	40	1	3827	1	CASZ1	1	10715863	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	928824	10715863	238534758	6	10626										
UBXN11	91544	broad.mit.edu	37	chr1	26608936	26608936	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	caggctggacttcggggctcGgcgtgcccgcagcagcagtg	17	13	0	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:26608936G>A	uc001blw.2	-	16	1690	c.1417C>T	c.(1417-1419)CGA>TGA	p.R473*	UBXN11_uc001blz.1_Nonsense_Mutation_p.R440*|UBXN11_uc001blv.2_Nonsense_Mutation_p.R435*|UBXN11_uc001bly.2_Nonsense_Mutation_p.R353*|UBXN11_uc001blx.2_Nonsense_Mutation_p.R231*|UBXN11_uc001bma.2_Nonsense_Mutation_p.R440*|UBXN11_uc001bmb.1_Nonsense_Mutation_p.R473*	NM_183008	NP_892120	Q5T124	UBX11_HUMAN	socius isoform 2	473						cytoplasm|cytoskeleton				ovary(1)	1						TTCGGGGCTCGGCGTGCCCGC	0.388													71	92	---	---	---	---	PASS	A	26608936	A	A	26608936	4	1	24	1	0	0	0	0	0	1	0	0	16910	1124	39	1	149	1	UBXN11	1	26608936	Nonsense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	15893073	26608936	222641685	7	10627										
SF3A3	10946	broad.mit.edu	37	chr1	38435242	38435242	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agtggtagtgctgagacttaCtttgccatcccagccaagtg	11	10	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:38435242C>G	uc001cci.2	-	13	1294	c.1170_splice	c.e13+1	p.K390_splice	SF3A3_uc010oik.1_Splice_Site_p.K337_splice	NM_006802	NP_006793	Q12874	SF3A3_HUMAN	splicing factor 3a, subunit 3						nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nuclear speck	nucleic acid binding|protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CTGAGACTTACTTTGCCATCC	0.418													34	85	---	---	---	---	PASS	G	38435242	G	G	38435242	5	3	24	1	0	0	0	0	0	0	1	0	14148	579	20	4	354	4	SF3A3	1	38435242	Splice_Site	SNP	C	TCGA-21-1081-01A-01D-1521-08	11826306	38435242	210815379	8	10628										
FOXJ3	22887	broad.mit.edu	37	chr1	42654556	42654556	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gcaaactgaacctggtctaaAgaccagttcttgagatctgc	9	10	3	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:42654556A>C	uc001che.2	-	13	1809	c.1497T>G	c.(1495-1497)TCT>TCG	p.S499S	FOXJ3_uc001chf.2_Silent_p.S499S|FOXJ3_uc001chg.2_Silent_p.S499S	NM_014947	NP_055762	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	499					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|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			ovary(2)	2	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CCTGGTCTAAAGACCAGTTCT	0.368													39	53	---	---	---	---	PASS	C	42654556	C	C	42654556	2	2	24	1	0	0	0	0	0	0	0	1	6013	59	3	5		5	FOXJ3	1	42654556	Silent	SNP	A	TCGA-21-1081-01A-01D-1521-08	4219314	42654556	206596065	9	10629										
CC2D1B	200014	broad.mit.edu	37	chr1	52824024	52824024	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tcgtcctcgtctttatcagcCggggctgaatcctctgcaga	10	13	3	2	rs140467530	byFrequency	TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:52824024C>A	uc001ctq.1	-	13	1578	c.1440G>T	c.(1438-1440)CCG>CCT	p.P480P	CC2D1B_uc001ctr.2_Silent_p.P26P|CC2D1B_uc001cts.2_Silent_p.P171P	NM_032449	NP_115825	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B	480										ovary(2)	2						CTTTATCAGCCGGGGCTGAAT	0.567													30	61	---	---	---	---	PASS	A	52824024	A	A	52824024	2	1	24	1	0	0	0	0	0	0	0	1	2727	639	23	1		1	CC2D1B	1	52824024	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	10169468	52824024	196426597	10	10630										
SGIP1	84251	broad.mit.edu	37	chr1	67109263	67109263	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cttttattcttcaagtgaatCggaagaagaagaagaatcac	8	6	3	5			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:67109263C>T	uc001dcr.2	+	7	537	c.320C>T	c.(319-321)TCG>TTG	p.S107L	SGIP1_uc010opd.1_5'UTR|SGIP1_uc001dcs.2_5'UTR|SGIP1_uc001dct.2_5'UTR	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	107	Poly-Glu.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						TCAAGTGAATCGGAAGAAGAA	0.343													14	128	---	---	---	---	PASS	T	67109263	T	T	67109263	3	4	24	1	0	0	0	0	1	0	0	0	14206	893	31	2	346	2	SGIP1	1	67109263	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	14285239	67109263	182141358	11	10631										
PDE4DIP	9659	broad.mit.edu	37	chr1	144886204	144886204	+	Missense_Mutation	SNP	C	A	A													0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aagtgctggtggaactcagcCctcaggtggagcatttcttc							TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:144886204C>A	uc001elw.3	-	23	3321	c.3030G>T	c.(3028-3030)AGG>AGT	p.R1010S	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R1076S|PDE4DIP_uc001elv.3_Missense_Mutation_p.R17S	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1010	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GGAACTCAGCCCTCAGGTGGA	0.522			T	PDGFRB	MPD								61	321	---	---	---	---	PASS	A	144886204	A	A	144886204	3	1	24	1	0	0	0	0	1	0	0	0	11643	622	22	3	4098	3	PDE4DIP	1	144886204	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	77776941	144886204	104364417	12	10632	299	2								
PDE4DIP	9659	broad.mit.edu	37	chr1	144886205	144886205	+	Missense_Mutation	SNP	C	T	T													0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agtgctggtggaactcagccCtcaggtggagcatttcttcc							TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:144886205C>T	uc001elw.3	-	23	3320	c.3029G>A	c.(3028-3030)AGG>AAG	p.R1010K	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R1076K|PDE4DIP_uc001elv.3_Missense_Mutation_p.R17K	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1010	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GAACTCAGCCCTCAGGTGGAG	0.517			T	PDGFRB	MPD								62	323	---	---	---	---	PASS	T	144886205	T	T	144886205	3	4	24	1	0	0	0	0	1	0	0	0	11643	681	24	3	4099	3	PDE4DIP	1	144886205	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	1	144886205	104364416	13	10633	299	2								
SETDB1	9869	broad.mit.edu	37	chr1	150919447	150919447	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aacatcctcagcctctgcacTggagaagaagcaaggacagc	10	12	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:150919447T>C	uc001evu.2	+	10	1416	c.1226T>C	c.(1225-1227)CTG>CCG	p.L409P	SETDB1_uc009wmf.2_Missense_Mutation_p.L409P|SETDB1_uc001evv.2_Missense_Mutation_p.L409P|SETDB1_uc009wmg.1_Missense_Mutation_p.L409P	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	409					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			GCCTCTGCACTGGAGAAGAAG	0.493													46	100	---	---	---	---	PASS	C	150919447	C	C	150919447	3	2	24	1	0	0	0	0	1	0	0	0	14138	1580	55	5	1260	5	SETDB1	1	150919447	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	6033242	150919447	98331174	14	10634										
CD1E	913	broad.mit.edu	37	chr1	158325727	158325727	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ccgtgtgggtgatgtggatgCggggtgagcaggagcagcgg	22	6	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:158325727C>A	uc001fse.2	+	4	975	c.736C>A	c.(736-738)CGG>AGG	p.R246R	CD1E_uc010pid.1_Silent_p.R244R|CD1E_uc010pie.1_Silent_p.R147R|CD1E_uc010pif.1_Silent_p.R57R|CD1E_uc001fsd.2_Silent_p.R246R|CD1E_uc001fsk.2_Silent_p.R156R|CD1E_uc001fsj.2_Silent_p.R156R|CD1E_uc001fsc.2_Silent_p.R57R|CD1E_uc010pig.1_RNA|CD1E_uc001fsa.2_Silent_p.R57R|CD1E_uc001fsf.2_Silent_p.R246R|CD1E_uc001fry.2_Silent_p.R246R|CD1E_uc001fsg.2_Silent_p.R57R|CD1E_uc001fsh.2_Silent_p.R57R|CD1E_uc001fsi.2_Silent_p.R246R|CD1E_uc009wsv.2_Silent_p.R147R|CD1E_uc001frz.2_Silent_p.R156R|CD1E_uc009wsw.2_Silent_p.R4R	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	246	Ig-like.				antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					GATGTGGATGCGGGGTGAGCA	0.642													55	136	---	---	---	---	PASS	A	158325727	A	A	158325727	2	1	24	1	0	0	0	0	0	0	0	1	2978	759	27	1		1	CD1E	1	158325727	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	7406280	158325727	90924894	15	10635										
OR6K3	391114	broad.mit.edu	37	chr1	158687805	158687805	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	caatgataataaaagtatagAtgaaaagtaaaggaaagaag	9	1	0	4			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:158687805A>T	uc010pip.1	-	1	149	c.149T>A	c.(148-150)ATC>AAC	p.I50N		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	50	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					AAAAGTATAGATGAAAAGTAA	0.373													63	160	---	---	---	---	PASS	T	158687805	T	T	158687805	3	4	24	1	0	0	0	0	1	0	0	0	11203	333	12	5	848	5	OR6K3	1	158687805	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	362078	158687805	90562816	16	10636										
OR6K6	128371	broad.mit.edu	37	chr1	158725617	158725617	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ttttccactatcagaagaggGctggttgggctgggaaatag	14	6	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:158725617G>T	uc001fsw.1	+	1	1012	c.1012G>T	c.(1012-1014)GCT>TCT	p.A338S		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	338	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					TCAGAAGAGGGCTGGTTGGGC	0.408													56	111	---	---	---	---	PASS	T	158725617	T	T	158725617	3	4	24	1	0	0	0	0	1	0	0	0	11204	1203	42	3	1014	3	OR6K6	1	158725617	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	37812	158725617	90525004	17	10637										
APCS	325	broad.mit.edu	37	chr1	159558188	159558188	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgtgagctgggagtcctcatCaggtattgctgaattttgga	13	6	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:159558188C>T	uc001ftv.2	+	2	458	c.362C>T	c.(361-363)TCA>TTA	p.S121L		NM_001639	NP_001630	P02743	SAMP_HUMAN	serum amyloid P component precursor	121	Pentaxin.				acute-phase response|chaperone-mediated protein complex assembly|protein folding	extracellular space	metal ion binding|sugar binding|unfolded protein binding			ovary(1)|breast(1)	2	all_hematologic(112;0.0429)					GAGTCCTCATCAGGTATTGCT	0.468													51	88	---	---	---	---	PASS	T	159558188	T	T	159558188	3	4	24	1	0	0	0	0	1	0	0	0	767	838	29	2	368	2	APCS	1	159558188	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	832571	159558188	89692433	18	10638										
TDRD5	163589	broad.mit.edu	37	chr1	179660053	179660053	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gagcctcctacactggtaccCcagtgtgaaaaggatggaag	12	10	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:179660053C>A	uc001gnf.1	+	17	3171	c.2921C>A	c.(2920-2922)CCC>CAC	p.P974H	TDRD5_uc010pnp.1_Missense_Mutation_p.P1028H|TDRD5_uc001gnh.1_Missense_Mutation_p.P529H	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	974					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						CACTGGTACCCCAGTGTGAAA	0.532													33	55	---	---	---	---	PASS	A	179660053	A	A	179660053	3	1	24	1	0	0	0	0	1	0	0	0	15730	623	22	3	2983	3	TDRD5	1	179660053	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	20101865	179660053	69590568	19	10639										
KCNK2	3776	broad.mit.edu	37	chr1	215408273	215408273	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tggagatttatgacaagttcCagcgggccacctccatcaag	10	11	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:215408273C>T	uc001hkq.2	+	7	1235	c.1066C>T	c.(1066-1068)CAG>TAG	p.Q356*	KCNK2_uc001hko.2_Nonsense_Mutation_p.Q352*|KCNK2_uc009xdm.2_RNA|KCNK2_uc001hkp.2_RNA|KCNK2_uc001hkr.3_Nonsense_Mutation_p.Q341*	NM_001017425	NP_001017425	O95069	KCNK2_HUMAN	potassium channel, subfamily K, member 2 isoform	356	Cytoplasmic (Potential).|Required for basal channel activity (By similarity).						outward rectifier potassium channel activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.0399)|all cancers(67;0.0556)|GBM - Glioblastoma multiforme(131;0.068)	Dofetilide(DB00204)	TGACAAGTTCCAGCGGGCCAC	0.552													24	144	---	---	---	---	PASS	T	215408273	T	T	215408273	4	4	24	1	0	0	0	0	0	1	0	0	8066	595	21	3	1135	3	KCNK2	1	215408273	Nonsense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	35748220	215408273	33842348	20	10640										
USH2A	7399	broad.mit.edu	37	chr1	216270496	216270496	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	atactcttcctgattgccagGtgatgctgcaaagacaatca	8	10	2	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:216270496G>T	uc001hku.1	-	22	5074	c.4687C>A	c.(4687-4689)CCT>ACT	p.P1563T		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1563	Laminin G-like 1.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGATTGCCAGGTGATGCTGCA	0.383										HNSCC(13;0.011)			30	52	---	---	---	---	PASS	T	216270496	T	T	216270496	3	4	24	1	0	0	0	0	1	0	0	0	17033	1261	44	3	11125	3	USH2A	1	216270496	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	862223	216270496	32980125	21	10641										
FBXO28	23219	broad.mit.edu	37	chr1	224345054	224345054	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tttgaattattcctccacagTtccaggaccgtctgcagccc	7	14	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:224345054T>G	uc001hoh.2	+	5	754	c.713T>G	c.(712-714)GTT>GGT	p.V238G	FBXO28_uc009xef.2_Missense_Mutation_p.F173V|FBXO28_uc010pvc.1_Missense_Mutation_p.V33G	NM_015176	NP_055991	Q9NVF7	FBX28_HUMAN	F-box protein 28 isoform a	238										ovary(2)|kidney(2)|lung(1)	5	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.0363)		TCCTCCACAGTTCCAGGACCG	0.398													70	132	---	---	---	---	PASS	G	224345054	G	G	224345054	3	3	24	1	0	0	0	0	1	0	0	0	5738	1739	60	5	731	5	FBXO28	1	224345054	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	8074558	224345054	24905567	22	10642										
ZNF496	84838	broad.mit.edu	37	chr1	247492835	247492835	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cctcattttcctgggctcctCactttccttcggagccaaga	7	15	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:247492835C>A	uc001ico.2	-	3	511	c.46G>T	c.(46-48)GAG>TAG	p.E16*	ZNF496_uc009xgv.2_Nonsense_Mutation_p.E16*|ZNF496_uc001icp.2_Nonsense_Mutation_p.E16*|ZNF496_uc010pyv.1_Nonsense_Mutation_p.E16*	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	16					positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			CTGGGCTCCTCACTTTCCTTC	0.602													39	141	---	---	---	---	PASS	A	247492835	A	A	247492835	4	1	24	1	0	0	0	0	0	1	0	0	17942	835	29	2	1745	2	ZNF496	1	247492835	Nonsense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	23147781	247492835	1757786	23	10643										
OR2L2	26246	broad.mit.edu	37	chr1	248202133	248202133	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gctatgttgacgctagcctgCacagacacttgggtctatga	11	10	1	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr1:248202133C>T	uc001idw.2	+	1	660	c.564C>T	c.(562-564)TGC>TGT	p.C188C	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	188	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			CGCTAGCCTGCACAGACACTT	0.463													62	325	---	---	---	---	PASS	T	248202133	T	T	248202133	2	4	24	1	0	0	0	0	0	0	0	1	11007	718	25	3		3	OR2L2	1	248202133	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	709298	248202133	1048488	24	10644										
TMEM18	129787	broad.mit.edu	37	chr2	675626	675626	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gccagggctcagtccagtccGtctgctgtaggaacacacca	11	14	2	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:675626G>A	uc002qwl.2	-	2	156	c.62C>T	c.(61-63)ACG>ATG	p.T21M	TMEM18_uc002qwk.2_RNA|uc002qwm.1_5'Flank	NM_152834	NP_690047	Q96B42	TMM18_HUMAN	transmembrane protein 18	21					cell migration	integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;5.27e-05)|all_epithelial(98;2.11e-06)|Ovarian(717;0.0253)		all cancers(51;1.95e-21)|Epithelial(75;9.47e-21)|OV - Ovarian serous cystadenocarcinoma(76;8.15e-18)|GBM - Glioblastoma multiforme(21;0.0285)		AGTCCAGTCCGTCTGCTGTAG	0.647													20	19	---	---	---	---	PASS	A	675626	A	A	675626	3	1	24	1	0	0	0	0	1	0	0	0	16095	1145	40	1	376	1	TMEM18	2	675626	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08		675626	242523747	25	10645										
MYT1L	23040	broad.mit.edu	37	chr2	1926397	1926397	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctgctcctccagccgcatgaGgttcagcatgtccgagtagt	11	13	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:1926397G>T	uc002qxe.2	-	10	1971	c.1144C>A	c.(1144-1146)CTC>ATC	p.L382I	MYT1L_uc002qxd.2_Missense_Mutation_p.L382I|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	382					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		AGCCGCATGAGGTTCAGCATG	0.592													8	52	---	---	---	---	PASS	T	1926397	T	T	1926397	3	4	24	1	0	0	0	0	1	0	0	0	10107	1000	35	3	2474	3	MYT1L	2	1926397	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	1250771	1926397	241272976	26	10646										
COLEC11	78989	broad.mit.edu	37	chr2	3691412	3691412	+	Frame_Shift_Del	DEL	G	-	-													0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agctgtcctgccagggccgcGggggcacgctgagcatgccc							TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:3691412delG	uc002qya.2	+	7	668	c.520delG	c.(520-522)GGGfs	p.G174fs	COLEC11_uc002qxz.2_Frame_Shift_Del_p.G171fs|COLEC11_uc002qyb.2_Frame_Shift_Del_p.G150fs|COLEC11_uc002qyc.2_Frame_Shift_Del_p.G150fs|COLEC11_uc010ewo.2_Frame_Shift_Del_p.G126fs|COLEC11_uc010ewp.2_Frame_Shift_Del_p.G148fs|COLEC11_uc010ewq.2_Frame_Shift_Del_p.G124fs|COLEC11_uc010ewr.2_Frame_Shift_Del_p.G124fs|COLEC11_uc010ews.2_Frame_Shift_Del_p.G100fs	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	174	C-type lectin.					collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		CCAGGGCCGCGGGGGCACGCT	0.667													51	24	---	---	---	---		-	3691412	-	-	3691412	7	5	24	1	0	1	0	1	0	0	0	0	3711	1116	39	0	625	0	COLEC11	2	3691412	Frame_Shift_Del	DEL	G	TCGA-21-1081-01A-01D-1521-08	1765015	3691412	239507961	27	10647										
C2orf71	388939	broad.mit.edu	37	chr2	29295558	29295558	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cctggtgcgggcctgaaatgGgctttcccggtcagcaggtg	16	11	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:29295558G>T	uc002rmt.1	-	1	1570	c.1570C>A	c.(1570-1572)CCA>ACA	p.P524T		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	524					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						GCCTGAAATGGGCTTTCCCGG	0.522													42	179	---	---	---	---	PASS	T	29295558	T	T	29295558	3	4	24	1	0	0	0	0	1	0	0	0	2191	1232	43	3	2304	3	C2orf71	2	29295558	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	25604146	29295558	213903815	28	10648										
CRIM1	51232	broad.mit.edu	37	chr2	36771551	36771551	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cagaaccaaccaatatacccAttgagaagacaaaccatcga	5	12	0	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:36771551A>G	uc002rpd.2	+	15	2695	c.2656A>G	c.(2656-2658)ATT>GTT	p.I886V		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	886	Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				CAATATACCCATTGAGAAGAC	0.438													44	53	---	---	---	---	PASS	G	36771551	G	G	36771551	3	3	24	1	0	0	0	0	1	0	0	0	3873	217	8	5	2714	5	CRIM1	2	36771551	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	7475993	36771551	206427822	29	10649										
EML4	27436	broad.mit.edu	37	chr2	42511812	42511812	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	caaaattaggattgcaactgGacagatagctggcgtggata	12	6	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:42511812G>C	uc002rsi.2	+	9	1242	c.980G>C	c.(979-981)GGA>GCA	p.G327A	EML4_uc010fap.2_Missense_Mutation_p.G269A|EML4_uc002rsj.2_5'Flank	NM_019063	NP_061936	Q9HC35	EMAL4_HUMAN	echinoderm microtubule associated protein like 4	327	WD 1.				microtubule-based process|mitosis	cytoplasm|microtubule	protein binding		EML4/ALK(246)	lung(246)|ovary(2)|central_nervous_system(1)|skin(1)	250						ATTGCAACTGGACAGATAGCT	0.378			T	ALK	NSCLC								31	88	---	---	---	---	PASS	C	42511812	C	C	42511812	3	2	24	1	0	0	0	0	1	0	0	0	5099	1174	41	2	1014	2	EML4	2	42511812	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	5740261	42511812	200687561	30	10650			1	12		2	2	14	N	G_C	8.944361e-05
EML4	27436	broad.mit.edu	37	chr2	42511825	42511825	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gcaactggacagatagctggCgtggataaagatggaagggt	16	5	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:42511825C>T	uc002rsi.2	+	9	1255	c.993C>T	c.(991-993)GGC>GGT	p.G331G	EML4_uc010fap.2_Silent_p.G273G|EML4_uc002rsj.2_5'Flank	NM_019063	NP_061936	Q9HC35	EMAL4_HUMAN	echinoderm microtubule associated protein like 4	331	WD 1.				microtubule-based process|mitosis	cytoplasm|microtubule	protein binding		EML4/ALK(246)	lung(246)|ovary(2)|central_nervous_system(1)|skin(1)	250						AGATAGCTGGCGTGGATAAAG	0.378			T	ALK	NSCLC								31	93	---	---	---	---	PASS	T	42511825	T	T	42511825	2	4	24	1	0	0	0	0	0	0	0	1	5099	755	27	1		1	EML4	2	42511825	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	13	42511825	200687548	31	10651			1	12		2	2	14	N	G_C	8.944361e-05
ANXA4	307	broad.mit.edu	37	chr2	70052638	70052638	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctgcttgttctctgtggaggAgatgattaaaataaaaatcc	9	6	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:70052638A>T	uc002sfr.3	+	13	1184	c.957A>T	c.(955-957)GGA>GGT	p.G319G	ANXA4_uc002sfs.3_Silent_p.G297G|ANXA4_uc010yqo.1_Silent_p.G235G	NM_001153	NP_001144	P09525	ANXA4_HUMAN	annexin IV	317					anti-apoptosis|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity				0						TCTGTGGAGGAGATGATTAAA	0.343													4	98	---	---	---	---	PASS	T	70052638	T	T	70052638	2	4	24	1	0	0	0	0	0	0	0	1	720	291	11	5		5	ANXA4	2	70052638	Silent	SNP	A	TCGA-21-1081-01A-01D-1521-08	27540813	70052638	173146735	32	10652										
SEMA4F	10505	broad.mit.edu	37	chr2	74900824	74900824	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ccccagcctttgtcgcagccGtggccttgagcccagccgaa	11	17	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:74900824G>T	uc002sna.1	+	7	802	c.691G>T	c.(691-693)GTG>TTG	p.V231L	SEMA4F_uc010ysb.1_3'UTR|SEMA4F_uc010ffq.1_Missense_Mutation_p.V198L|SEMA4F_uc010ffr.1_Intron|SEMA4F_uc002snb.1_5'UTR|SEMA4F_uc002snc.1_Intron	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	231	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						TGTCGCAGCCGTGGCCTTGAG	0.567													53	74	---	---	---	---	PASS	T	74900824	T	T	74900824	3	4	24	1	0	0	0	0	1	0	0	0	14035	1145	40	1	717	1	SEMA4F	2	74900824	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	4848186	74900824	168298549	33	10653										
SEMA4F	10505	broad.mit.edu	37	chr2	74900882	74900882	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agacgacgaaatctacttctTctttacggagacttcccgag	8	11	3	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:74900882T>C	uc002sna.1	+	7	860	c.749T>C	c.(748-750)TTC>TCC	p.F250S	SEMA4F_uc010ysb.1_3'UTR|SEMA4F_uc010ffq.1_Missense_Mutation_p.F217S|SEMA4F_uc010ffr.1_Intron|SEMA4F_uc002snb.1_5'UTR|SEMA4F_uc002snc.1_Intron	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	250	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						ATCTACTTCTTCTTTACGGAG	0.577													50	178	---	---	---	---	PASS	C	74900882	C	C	74900882	3	2	24	1	0	0	0	0	1	0	0	0	14035	1783	62	5	775	5	SEMA4F	2	74900882	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	58	74900882	168298491	34	10654										
EIF2AK3	9451	broad.mit.edu	37	chr2	88888334	88888334	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ataattgcgttttcattagtGacagattccaaagccttggg	9	7	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:88888334G>T	uc002stc.3	-	7	1453	c.1251C>A	c.(1249-1251)GTC>GTA	p.V417V		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	417	Lumenal (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						TTTCATTAGTGACAGATTCCA	0.363													33	138	---	---	---	---	PASS	T	88888334	T	T	88888334	2	4	24	1	0	0	0	0	0	0	0	1	4998	1277	45	2		2	EIF2AK3	2	88888334	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	13987452	88888334	154311039	35	10655										
TMEM131	23505	broad.mit.edu	37	chr2	98429176	98429176	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	actcagtactccaaaatctaTgaaacgttcctctattttgg	5	10	3	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:98429176T>C	uc002syh.3	-	16	1883	c.1654A>G	c.(1654-1656)ATA>GTA	p.I552V		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	552						integral to membrane				ovary(4)|central_nervous_system(2)	6						CCAAAATCTATGAAACGTTCC	0.303													21	76	---	---	---	---	PASS	C	98429176	C	C	98429176	3	2	24	1	0	0	0	0	1	0	0	0	16041	1464	51	5	4101	5	TMEM131	2	98429176	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	9540842	98429176	144770197	36	10656										
CCDC115	84317	broad.mit.edu	37	chr2	131098603	131098603	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tcttagtggggcccttgcgcCtccgcagacctgaggaaaga	13	12	1	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:131098603C>A	uc002tqy.1	-	4	532	c.308G>T	c.(307-309)AGG>ATG	p.R103M	CCDC115_uc002tqw.1_Missense_Mutation_p.R95M|CCDC115_uc010zaf.1_Missense_Mutation_p.R98M|CCDC115_uc002tqx.2_Missense_Mutation_p.R98M|CCDC115_uc002tqz.1_Missense_Mutation_p.R103M|IMP4_uc002tra.1_5'Flank	NM_032357	NP_115733	Q96NT0	CC115_HUMAN	coiled-coil domain containing 115	103						endosome|lysosome					0	Colorectal(110;0.1)					GCCCTTGCGCCTCCGCAGACC	0.478													11	21	---	---	---	---	PASS	A	131098603	A	A	131098603	3	1	24	1	0	0	0	0	1	0	0	0	2752	681	24	3	242	3	CCDC115	2	131098603	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	32669427	131098603	112100770	37	10657										
CXCR4	7852	broad.mit.edu	37	chr2	136872656	136872656	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cggtgatggaaatccacttgTgcacagtgttctcaaactca	9	10	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:136872656T>C	uc002tuz.2	-	2	937	c.842A>G	c.(841-843)CAC>CGC	p.H281R	CXCR4_uc002tuy.2_Missense_Mutation_p.H285R|CXCR4_uc010fnk.2_Missense_Mutation_p.H266R	NM_003467	NP_003458	P61073	CXCR4_HUMAN	chemokine (C-X-C motif) receptor 4 isoform b	281	Extracellular.				activation of MAPK activity|apoptosis|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|inflammatory response|initiation of viral infection|regulation of chemotaxis|response to hypoxia|response to virus	cell leading edge|cell surface|cytoplasmic membrane-bounded vesicle|integral to membrane|plasma membrane	actin binding|C-X-C chemokine receptor activity|coreceptor activity|myosin light chain binding|ubiquitin binding|ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.155)	Framycetin(DB00452)	AATCCACTTGTGCACAGTGTT	0.488													154	585	---	---	---	---	PASS	C	136872656	C	C	136872656	3	2	24	1	0	0	0	0	1	0	0	0	4093	1696	59	5	220	5	CXCR4	2	136872656	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	5774053	136872656	106326717	38	10658										
KCNH7	90134	broad.mit.edu	37	chr2	163393587	163393587	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gagtgttacaaataaaagtgGaccctaaggagattaaaaat	9	4	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:163393587G>A	uc002uch.1	-	3	523	c.311C>T	c.(310-312)TCC>TTC	p.S104F	KCNH7_uc002uci.2_Missense_Mutation_p.S104F	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	104	Cytoplasmic (Potential).|PAC.				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	AATAAAAGTGGACCCTAAGGA	0.299													41	70	---	---	---	---	PASS	A	163393587	A	A	163393587	3	1	24	1	0	0	0	0	1	0	0	0	8037	1174	41	2	3401	2	KCNH7	2	163393587	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	26520931	163393587	79805786	39	10659										
SCN9A	6335	broad.mit.edu	37	chr2	167141224	167141224	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aaaatgctgtgctcatcatcGgcaaattcagtctcagatcc	7	11	4	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:167141224G>A	uc010fpl.2	-	12	2054	c.1713C>T	c.(1711-1713)GCC>GCT	p.A571A	uc002udp.2_Intron|SCN9A_uc002udr.1_Silent_p.A442A|SCN9A_uc002uds.1_Silent_p.A442A|SCN9A_uc002udt.1_Silent_p.A442A	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	571						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GCTCATCATCGGCAAATTCAG	0.493													29	91	---	---	---	---	PASS	A	167141224	A	A	167141224	2	1	24	1	0	0	0	0	0	0	0	1	13925	1103	39	1		1	SCN9A	2	167141224	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	3747637	167141224	76058149	40	10660										
GAD1	2571	broad.mit.edu	37	chr2	171693312	171693312	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ttcctatctaggtcatcctcGatttttcaaccagctctcca	4	14	4	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:171693312G>A	uc002ugi.2	+	6	979	c.557G>A	c.(556-558)CGA>CAA	p.R186Q	GAD1_uc002ugh.2_Missense_Mutation_p.R186Q	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	186					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GGTCATCCTCGATTTTTCAAC	0.453													26	37	---	---	---	---	PASS	A	171693312	A	A	171693312	3	1	24	1	0	0	0	0	1	0	0	0	6179	1058	37	2	575	2	GAD1	2	171693312	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	4552088	171693312	71506061	41	10661										
HNRNPA3	220988	broad.mit.edu	37	chr2	178080348	178080348	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aaactacagatgatagtttaCgagaacattttgagaaatgg	9	4	0	4			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:178080348C>T	uc002ulb.1	+	2	260	c.154C>T	c.(154-156)CGA>TGA	p.R52*	HNRNPA3_uc002ulc.1_Nonsense_Mutation_p.R52*|HNRNPA3_uc002uld.2_Nonsense_Mutation_p.R30*|HNRNPA3_uc002ule.2_5'Flank	NM_194247	NP_919223	P51991	ROA3_HUMAN	heterogeneous nuclear ribonucleoprotein A3	52	RRM 1.					catalytic step 2 spliceosome|nucleolus|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(2)	2						TGATAGTTTACGAGAACATTT	0.428													31	104	---	---	---	---	PASS	T	178080348	T	T	178080348	4	4	24	1	0	0	0	0	0	1	0	0	7260	528	19	1	160	1	HNRNPA3	2	178080348	Nonsense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	6387036	178080348	65119025	42	10662										
TTN	7273	broad.mit.edu	37	chr2	179396364	179396364	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ccagggtgaggactccactcGtgttggtgtaatgaatctta	12	8	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:179396364G>A	uc010zfg.1	-	307	97498	c.97274C>T	c.(97273-97275)ACG>ATG	p.T32425M	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T26120M|TTN_uc010zfi.1_Missense_Mutation_p.T26053M|TTN_uc010zfj.1_Missense_Mutation_p.T25928M|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33352							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)			GACTCCACTCGTGTTGGTGTA	0.453													55	75	---	---	---	---	PASS	A	179396364	A	A	179396364	3	1	24	1	0	0	0	0	1	0	0	0	16732	1145	40	1	3021	1	TTN	2	179396364	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	1316016	179396364	63803009	43	10663										
TTN	7273	broad.mit.edu	37	chr2	179435080	179435080	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	taaccttgcagctgagagtcTgcacattggcatcaaccaca	8	12	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:179435080T>G	uc010zfg.1	-	275	68299	c.68075A>C	c.(68074-68076)CAG>CCG	p.Q22692P	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q16387P|TTN_uc010zfi.1_Missense_Mutation_p.Q16320P|TTN_uc010zfj.1_Missense_Mutation_p.Q16195P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23619							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)			GCTGAGAGTCTGCACATTGGC	0.423													9	53	---	---	---	---	PASS	G	179435080	G	G	179435080	3	3	24	1	0	0	0	0	1	0	0	0	16732	1580	55	5	32348	5	TTN	2	179435080	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	38716	179435080	63764293	44	10664										
WDR75	84128	broad.mit.edu	37	chr2	190335583	190335583	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	acaaagtctccagaagaaaaActcacaccaacaagcaaaca	4	12	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:190335583A>C	uc002uql.1	+	18	2088	c.2028A>C	c.(2026-2028)AAA>AAC	p.K676N	WDR75_uc002uqm.1_Missense_Mutation_p.K612N|WDR75_uc002uqn.1_Missense_Mutation_p.K454N|WDR75_uc002uqo.1_Missense_Mutation_p.K454N	NM_032168	NP_115544	Q8IWA0	WDR75_HUMAN	WD repeat domain 75	676						nucleolus				ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00105)|Epithelial(96;0.0129)|all cancers(119;0.0456)			CAGAAGAAAAACTCACACCAA	0.348													11	30	---	---	---	---	PASS	C	190335583	C	C	190335583	3	2	24	1	0	0	0	0	1	0	0	0	17322	40	2	5	2098	5	WDR75	2	190335583	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	10900503	190335583	52863790	45	10665										
DNAH7	56171	broad.mit.edu	37	chr2	196892735	196892735	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ggttttggaattgtgcttccAtcagggacagctgagtctaa	12	7	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:196892735A>G	uc002utj.3	-	6	536	c.435T>C	c.(433-435)GAT>GAC	p.D145D		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	145	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TTGTGCTTCCATCAGGGACAG	0.378													99	169	---	---	---	---	PASS	G	196892735	G	G	196892735	2	3	24	1	0	0	0	0	0	0	0	1	4606	214	8	5		5	DNAH7	2	196892735	Silent	SNP	A	TCGA-21-1081-01A-01D-1521-08	6557152	196892735	46306638	46	10666										
CPS1	1373	broad.mit.edu	37	chr2	211525340	211525340	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gagaaacatcttccaacattGgaccatcccataattcctgc	5	13	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:211525340G>T	uc002vee.3	+	32	4020	c.3888G>T	c.(3886-3888)TTG>TTT	p.L1296F	CPS1_uc010fur.2_Missense_Mutation_p.L1302F|CPS1_uc010fus.2_Missense_Mutation_p.L845F	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1296					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)		TTCCAACATTGGACCATCCCA	0.363													43	179	---	---	---	---	PASS	T	211525340	T	T	211525340	3	4	24	1	0	0	0	0	1	0	0	0	3823	1339	47	3	4036	3	CPS1	2	211525340	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	14632605	211525340	31674033	47	10667										
SPAG16	79582	broad.mit.edu	37	chr2	214794767	214794767	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cgattgcattttgacctttgAaggacacagccgcgcagtgt	11	10	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:214794767A>T	uc002veq.2	+	12	1390	c.1298A>T	c.(1297-1299)GAA>GTA	p.E433V	SPAG16_uc010fuz.1_Missense_Mutation_p.E284V|SPAG16_uc002ver.2_Missense_Mutation_p.E379V|SPAG16_uc010zjk.1_Missense_Mutation_p.E339V	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	433					cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		TTGACCTTTGAAGGACACAGC	0.433													32	138	---	---	---	---	PASS	T	214794767	T	T	214794767	3	4	24	1	0	0	0	0	1	0	0	0	14978	246	9	5	1360	5	SPAG16	2	214794767	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	3269427	214794767	28404606	48	10668										
DOCK10	55619	broad.mit.edu	37	chr2	225669817	225669817	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	acacctctgggctgggagctCtctgccagtaggcaatcaga	12	12	3	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr2:225669817C>T	uc010fwz.1	-	37	4315	c.4076G>A	c.(4075-4077)AGA>AAA	p.R1359K	DOCK10_uc002vob.2_Missense_Mutation_p.R1353K|DOCK10_uc002voa.2_Missense_Mutation_p.R15K|DOCK10_uc002voc.2_Missense_Mutation_p.R213K	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1359							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		GCTGGGAGCTCTCTGCCAGTA	0.378													18	29	---	---	---	---	PASS	T	225669817	T	T	225669817	3	4	24	1	0	0	0	0	1	0	0	0	4685	913	32	2	2564	2	DOCK10	2	225669817	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	10875050	225669817	17529556	49	10669										
BRPF1	7862	broad.mit.edu	37	chr3	9786059	9786059	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agccagatgacccccagccaCggaggcagtcctgtggggcc	14	15	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:9786059C>T	uc003bse.2	+	9	3168	c.2769C>T	c.(2767-2769)CAC>CAT	p.H923H	BRPF1_uc003bsf.2_Silent_p.H929H|BRPF1_uc003bsg.2_Silent_p.H922H|BRPF1_uc011ati.1_Intron	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	923	Required for RUNX1 and RUNX2 transcriptional activation.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					CCCCCAGCCACGGAGGCAGTC	0.667													23	13	---	---	---	---	PASS	T	9786059	T	T	9786059	2	4	24	1	0	0	0	0	0	0	0	1	1520	535	19	1		1	BRPF1	3	9786059	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08		9786059	188236371	50	10670										
ULK4	54986	broad.mit.edu	37	chr3	41979618	41979618	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agttccaccactagccagagGtggttgcttgtttcatacca	9	11	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:41979618G>T	uc003ckv.3	-	3	411	c.210C>A	c.(208-210)CAC>CAA	p.H70Q	ULK4_uc003ckw.2_Missense_Mutation_p.H70Q|ULK4_uc003ckx.1_Missense_Mutation_p.H70Q	NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	70	Protein kinase.						ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		CTAGCCAGAGGTGGTTGCTTG	0.348													35	30	---	---	---	---	PASS	T	41979618	T	T	41979618	3	4	24	1	0	0	0	0	1	0	0	0	16975	1252	44	3	3757	3	ULK4	3	41979618	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	32193559	41979618	156042812	51	10671										
KIF9	64147	broad.mit.edu	37	chr3	47316827	47316827	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	taagttaccattatagccatCgagggcctgagaaaccacat	8	10	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:47316827C>T	uc010hjp.2	-	4	851	c.247G>A	c.(247-249)GAT>AAT	p.D83N	KIF9_uc003cqx.2_Missense_Mutation_p.D83N|KIF9_uc003cqy.2_Missense_Mutation_p.D83N|KIF9_uc011bat.1_RNA|KIF9_uc011bau.1_RNA|KIF9_uc003cra.3_RNA	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	83	Kinesin-motor.				blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		TTATAGCCATCGAGGGCCTGA	0.388													35	31	---	---	---	---	PASS	T	47316827	T	T	47316827	3	4	24	1	0	0	0	0	1	0	0	0	8310	884	31	2	2201	2	KIF9	3	47316827	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	5337209	47316827	150705603	52	10672										
CNTN3	5067	broad.mit.edu	37	chr3	74334634	74334634	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tcctttccacccccattccaGtaccgcacctggtgggcgga	9	17	0	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:74334634G>A	uc003dpm.1	-	19	2606	c.2526C>T	c.(2524-2526)TAC>TAT	p.Y842Y		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	842	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		CCCCATTCCAGTACCGCACCT	0.463													111	93	---	---	---	---	PASS	A	74334634	A	A	74334634	2	1	24	1	0	0	0	0	0	0	0	1	3642	1024	36	3		3	CNTN3	3	74334634	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	27017807	74334634	123687796	53	10673										
OR5H14	403273	broad.mit.edu	37	chr3	97869132	97869132	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aagcaagtaatagcttcattCacaaaaatgttcaaaagaaa	5	6	3	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:97869132C>A	uc003dsg.1	+	1	903	c.903C>A	c.(901-903)TTC>TTA	p.F301L		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TAGCTTCATTCACAAAAATGT	0.303													9	119	---	---	---	---	PASS	A	97869132	A	A	97869132	3	1	24	1	0	0	0	0	1	0	0	0	11160	825	29	2	905	2	OR5H14	3	97869132	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	23534498	97869132	100153298	54	10674										
OR5H6	79295	broad.mit.edu	37	chr3	97984036	97984036	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	catagttcctttattaaatcCcatgatctacagcctgagaa	5	10	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:97984036C>G	uc003dsi.1	+	1	908	c.908C>G	c.(907-909)CCC>CGC	p.P303R		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	303	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						TTATTAAATCCCATGATCTAC	0.378													13	130	---	---	---	---	PASS	G	97984036	G	G	97984036	3	3	24	1	0	0	0	0	1	0	0	0	11163	623	22	4	910	4	OR5H6	3	97984036	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	114904	97984036	100038394	55	10675										
TOMM70A	9868	broad.mit.edu	37	chr3	100105680	100105680	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aggcagcagctctgttttgaTaaaatgtagaaaggtcaaca	10	6	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:100105680T>C	uc003dtw.2	-	2	899	c.467A>G	c.(466-468)TAT>TGT	p.Y156C		NM_014820	NP_055635	O94826	TOM70_HUMAN	translocase of outer mitochondrial membrane 70	156	Cytoplasmic (Potential).|TPR 2.				protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane translocase complex	protein binding|protein transmembrane transporter activity			ovary(1)	1						TCTGTTTTGATAAAATGTAGA	0.348													45	145	---	---	---	---	PASS	C	100105680	C	C	100105680	3	2	24	1	0	0	0	0	1	0	0	0	16359	1406	49	5	1403	5	TOMM70A	3	100105680	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	2121644	100105680	97916750	56	10676										
RG9MTD1	54931	broad.mit.edu	37	chr3	101284244	101284244	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agtttggacaacctttggttTttgacatggcttacgaaaat	9	6	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:101284244T>G	uc003duz.2	+	2	767	c.619T>G	c.(619-621)TTT>GTT	p.F207V		NM_017819	NP_060289	Q7L0Y3	MRRP1_HUMAN	RNA (guanine-9-) methyltransferase domain	207					tRNA processing	mitochondrion	methyltransferase activity|protein binding			ovary(1)	1						ACCTTTGGTTTTTGACATGGC	0.393													31	288	---	---	---	---	PASS	G	101284244	G	G	101284244	3	3	24	1	0	0	0	0	1	0	0	0	13271	1841	64	5	621	5	RG9MTD1	3	101284244	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	1178564	101284244	96738186	57	10677										
ZPLD1	131368	broad.mit.edu	37	chr3	102181156	102181156	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	caaccagcagttaattatccCcagtataggattacctttga	6	10	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:102181156C>G	uc003dvs.1	+	13	1496	c.614C>G	c.(613-615)CCC>CGC	p.P205R	ZPLD1_uc003dvt.1_Missense_Mutation_p.P221R|ZPLD1_uc011bhg.1_Missense_Mutation_p.P205R	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	205	ZP.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						TTAATTATCCCCAGTATAGGA	0.343													12	106	---	---	---	---	PASS	G	102181156	G	G	102181156	3	3	24	1	0	0	0	0	1	0	0	0	18218	623	22	4	684	4	ZPLD1	3	102181156	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	896912	102181156	95841274	58	10678										
AMOTL2	51421	broad.mit.edu	37	chr3	134089920	134089920	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gccgggtccctgcctgctggGccgcatagtactgcgagtgg	16	13	0	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:134089920G>A	uc003eqf.2	-	2	647	c.530C>T	c.(529-531)GCC>GTC	p.A177V	AMOTL2_uc003eqg.1_Missense_Mutation_p.A119V|AMOTL2_uc003eqh.1_Missense_Mutation_p.A119V	NM_016201	NP_057285	Q9Y2J4	AMOL2_HUMAN	angiomotin like 2	119										large_intestine(1)	1						TGCCTGCTGGGCCGCATAGTA	0.687													12	42	---	---	---	---	PASS	A	134089920	A	A	134089920	3	1	24	1	0	0	0	0	1	0	0	0	584	1203	42	3	2022	3	AMOTL2	3	134089920	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	31908764	134089920	63932510	59	10679										
HLTF	6596	broad.mit.edu	37	chr3	148757868	148757868	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctttttctcactgtcacgtgCtaattcttctggaggacatt	7	10	4	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:148757868C>T	uc003ewq.1	-	21	2670	c.2452G>A	c.(2452-2454)GCA>ACA	p.A818T	HLTF_uc003ewr.1_Missense_Mutation_p.A818T|HLTF_uc003ews.1_Missense_Mutation_p.A817T|HLTF_uc010hve.1_Missense_Mutation_p.A817T	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	818					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			CTGTCACGTGCTAATTCTTCT	0.323													23	108	---	---	---	---	PASS	T	148757868	T	T	148757868	3	4	24	1	0	0	0	0	1	0	0	0	7215	797	28	3	597	3	HLTF	3	148757868	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	14667948	148757868	49264562	60	10680										
NLGN1	22871	broad.mit.edu	37	chr3	173993266	173993266	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ggggttcatgtgtcaacctgCtgactttatcccattattct	8	10	3	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:173993266C>A	uc003fio.1	+	5	1231	c.808C>A	c.(808-810)CTG>ATG	p.L270M	NLGN1_uc010hww.1_Missense_Mutation_p.L310M|NLGN1_uc003fip.1_Missense_Mutation_p.L270M	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	287	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TGTCAACCTGCTGACTTTATC	0.418													67	138	---	---	---	---	PASS	A	173993266	A	A	173993266	3	1	24	1	0	0	0	0	1	0	0	0	10461	796	28	3	818	3	NLGN1	3	173993266	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	25235398	173993266	24029164	61	10681										
CCDC39	339829	broad.mit.edu	37	chr3	180364958	180364958	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	caacaatttttgcttcaagcGcttgtttttcttctgaatta	5	8	3	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:180364958G>A	uc010hxe.2	-	11	1551	c.1436C>T	c.(1435-1437)GCG>GTG	p.A479V	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	479	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TGCTTCAAGCGCTTGTTTTTC	0.343													14	65	---	---	---	---	PASS	A	180364958	A	A	180364958	3	1	24	1	0	0	0	0	1	0	0	0	2811	1087	38	1	1429	1	CCDC39	3	180364958	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	6371692	180364958	17657472	62	10682										
PSMD2	5708	broad.mit.edu	37	chr3	184024268	184024268	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aagaaggaagcccctgctgaCatgggagcacatcaggttat	12	9	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:184024268C>T	uc003fnn.1	+	15	1968	c.1935C>T	c.(1933-1935)GAC>GAT	p.D645D	PSMD2_uc011brj.1_Silent_p.D486D|PSMD2_uc011brk.1_Silent_p.D515D	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	645					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	CCCCTGCTGACATGGGAGCAC	0.363													16	170	---	---	---	---	PASS	T	184024268	T	T	184024268	2	4	24	1	0	0	0	0	0	0	0	1	12698	477	17	3		3	PSMD2	3	184024268	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	3659310	184024268	13998162	63	10683										
RTP4	64108	broad.mit.edu	37	chr3	187089076	187089076	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgggtatgagaaattagggcCcagtcgagacccagatccac	12	10	0	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr3:187089076C>G	uc003frm.2	+	2	718	c.656C>G	c.(655-657)CCC>CGC	p.P219R		NM_022147	NP_071430	Q96DX8	RTP4_HUMAN	28kD interferon responsive protein	219	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste|protein targeting to membrane	cytoplasm|integral to membrane	protein binding				0	all_cancers(143;4.66e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		AAATTAGGGCCCAGTCGAGAC	0.453													9	101	---	---	---	---	PASS	G	187089076	G	G	187089076	3	3	24	1	0	0	0	0	1	0	0	0	13736	623	22	4	662	4	RTP4	3	187089076	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	3064808	187089076	10933354	64	10684										
PPP2R2C	5522	broad.mit.edu	37	chr4	6325261	6325261	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aggcctccagggtcacgtccCgcttggtgttccgatcgaac	12	14	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr4:6325261C>T	uc003gjc.2	-	9	1482	c.1112G>A	c.(1111-1113)CGG>CAG	p.R371Q	PPP2R2C_uc003gjb.2_Missense_Mutation_p.R354Q|PPP2R2C_uc011bwd.1_Missense_Mutation_p.R364Q|PPP2R2C_uc011bwe.1_Missense_Mutation_p.R364Q|PPP2R2C_uc003gja.2_Missense_Mutation_p.R371Q	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	371	WD 6.				signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						GGTCACGTCCCGCTTGGTGTT	0.632													14	47	---	---	---	---	PASS	T	6325261	T	T	6325261	3	4	24	1	0	0	0	0	1	0	0	0	12386	652	23	1	235	1	PPP2R2C	4	6325261	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08		6325261	184829015	65	10685										
KIAA0232	9778	broad.mit.edu	37	chr4	6843887	6843887	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	atctaactctagaagaaatgAaaaaacaggctgctgtccag	8	8	2	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr4:6843887A>G	uc003gjr.3	+	4	788	c.325A>G	c.(325-327)AAA>GAA	p.K109E	KIAA0232_uc003gjq.3_Missense_Mutation_p.K109E	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	109							ATP binding			ovary(2)	2						AGAAGAAATGAAAAAACAGGC	0.368													56	58	---	---	---	---	PASS	G	6843887	G	G	6843887	3	3	24	1	0	0	0	0	1	0	0	0	8163	247	9	5	331	5	KIAA0232	4	6843887	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	518626	6843887	184310389	66	10686										
GABRA2	2555	broad.mit.edu	37	chr4	46252458	46252458	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	taacactgttgaaagttttcTttgcttcagctggcttgttt	8	7	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr4:46252458T>C	uc003gxc.3	-	9	1896	c.1223A>G	c.(1222-1224)AAG>AGG	p.K408R	GABRA2_uc010igc.2_Missense_Mutation_p.K408R|GABRA2_uc011bzc.1_Missense_Mutation_p.K413R	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	408	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity	p.K408K(1)		ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GAAAGTTTTCTTTGCTTCAGC	0.403													115	116	---	---	---	---	PASS	C	46252458	C	C	46252458	3	2	24	1	0	0	0	0	1	0	0	0	6161	1609	56	5	136	5	GABRA2	4	46252458	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	39408571	46252458	144901818	67	10687										
PDGFRA	5156	broad.mit.edu	37	chr4	55140744	55140744	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gctgcagtcctggtgctgttGgtgattgtgatcatctcact	12	9	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr4:55140744G>A	uc003han.3	+	11	1936	c.1605G>A	c.(1603-1605)TTG>TTA	p.L535L	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Silent_p.L429L|PDGFRA_uc003ham.2_RNA|PDGFRA_uc003hao.1_5'Flank	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	535	Helical; (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	TGGTGCTGTTGGTGATTGTGA	0.448			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			64	81	---	---	---	---	PASS	A	55140744	A	A	55140744	2	1	24	1	0	0	0	0	0	0	0	1	11661	1339	47	3		3	PDGFRA	4	55140744	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	8888286	55140744	136013532	68	10688										
INTU	27152	broad.mit.edu	37	chr4	128564925	128564925	+	Frame_Shift_Del	DEL	T	-	-													0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aagcgctgcaataaaaaaaaTagcaatgacaatggaccagt							TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr4:128564925delT	uc003ifk.1	+	2	466	c.396delT	c.(394-396)AATfs	p.N132fs	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	132										ovary(1)	1						ATAAAAAAAATAGCAATGACA	0.348													49	58	---	---	---	---		-	128564925	-	-	128564925	7	5	24	1	0	1	0	1	0	0	0	0	7786	1403	49	0	402	0	INTU	4	128564925	Frame_Shift_Del	DEL	T	TCGA-21-1081-01A-01D-1521-08	73424181	128564925	62589351	69	10689										
RXFP1	59350	broad.mit.edu	37	chr4	159568269	159568269	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aatttttcaaaaactactatGgcaccaatggagtatgcttc	6	8	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr4:159568269G>T	uc003ipz.2	+	16	1754	c.1672G>T	c.(1672-1674)GGC>TGC	p.G558C	RXFP1_uc011cja.1_Missense_Mutation_p.G453C|RXFP1_uc010iqo.2_Missense_Mutation_p.G510C|RXFP1_uc011cjb.1_Missense_Mutation_p.G456C|RXFP1_uc010iqk.2_Missense_Mutation_p.G426C|RXFP1_uc011cjc.1_Missense_Mutation_p.G477C|RXFP1_uc011cjd.1_Missense_Mutation_p.G477C|RXFP1_uc010iql.2_Missense_Mutation_p.G402C|RXFP1_uc011cje.1_Missense_Mutation_p.G585C|RXFP1_uc010iqm.2_Missense_Mutation_p.G525C|RXFP1_uc011cjf.1_Missense_Mutation_p.G427C|RXFP1_uc010iqn.2_Missense_Mutation_p.G503C	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	558	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		AAACTACTATGGCACCAATGG	0.343													41	41	---	---	---	---	PASS	T	159568269	T	T	159568269	3	4	24	1	0	0	0	0	1	0	0	0	13759	1348	47	3	1734	3	RXFP1	4	159568269	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	31003344	159568269	31586007	70	10690										
FNIP2	57600	broad.mit.edu	37	chr4	159791564	159791564	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gatcttgtgcttcatgggacCggcagtgatgagaagctgaa	14	7	2	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr4:159791564C>G	uc003iqe.3	+	14	3075	c.2892C>G	c.(2890-2892)ACC>ACG	p.T964T		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	964					DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		TTCATGGGACCGGCAGTGATG	0.552													21	47	---	---	---	---	PASS	G	159791564	G	G	159791564	2	3	24	1	0	0	0	0	0	0	0	1	5976	639	23	4		4	FNIP2	4	159791564	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	223295	159791564	31362712	71	10691										
ODZ3	55714	broad.mit.edu	37	chr4	183602986	183602986	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gctgactgtatagaccctggGtgttctaatcatggtgtgtg	13	7	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr4:183602986G>C	uc003ivd.1	+	10	1891	c.1854G>C	c.(1852-1854)GGG>GGC	p.G618G	ODZ3_uc003ive.1_Silent_p.G24G	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	618	EGF-like 4.|Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TAGACCCTGGGTGTTCTAATC	0.403													10	23	---	---	---	---	PASS	C	183602986	C	C	183602986	2	2	24	1	0	0	0	0	0	0	0	1	10836	1248	44	4		4	ODZ3	4	183602986	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	23811422	183602986	7551290	72	10692										
FAT1	2195	broad.mit.edu	37	chr4	187540801	187540801	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tatgagattcctctatttggTtctgaatcagaatcggtggc	10	7	3	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr4:187540801T>G	uc003izf.2	-	10	7127	c.6939A>C	c.(6937-6939)GAA>GAC	p.E2313D		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2313	Extracellular (Potential).|Cadherin 21.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTCTATTTGGTTCTGAATCAG	0.453										HNSCC(5;0.00058)			74	73	---	---	---	---	PASS	G	187540801	G	G	187540801	3	3	24	1	0	0	0	0	1	0	0	0	5689	1722	60	5	6899	5	FAT1	4	187540801	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	3937815	187540801	3613475	73	10693										
CLPTM1L	81037	broad.mit.edu	37	chr5	1323906	1323906	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gtgtgcggcctcctacctctTatatttgatattcaggagtg	10	9	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr5:1323906T>A	uc003jch.2	-	12	1322	c.1276A>T	c.(1276-1278)AAG>TAG	p.K426*	CLPTM1L_uc003jcg.2_Nonsense_Mutation_p.K257*	NM_030782	NP_110409	Q96KA5	CLP1L_HUMAN	CLPTM1-like	426	Extracellular (Potential).				apoptosis	integral to membrane				breast(1)|central_nervous_system(1)	2	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		TCCTACCTCTTATATTTGATA	0.537													47	62	---	---	---	---	PASS	A	1323906	A	A	1323906	4	1	24	1	0	0	0	0	0	1	0	0	3555	1763	61	5	364	5	CLPTM1L	5	1323906	Nonsense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08		1323906	179591354	74	10694										
CDH18	1016	broad.mit.edu	37	chr5	19483468	19483468	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gctcctgtactcaaaccagcCgaggacaggaaggcttctgc	11	13	2	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr5:19483468C>T	uc003jgc.2	-	11	2201	c.1824G>A	c.(1822-1824)TCG>TCA	p.S608S	CDH18_uc003jgd.2_Silent_p.S608S|CDH18_uc011cnm.1_Missense_Mutation_p.R572Q	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	608	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TCAAACCAGCCGAGGACAGGA	0.522													29	52	---	---	---	---	PASS	T	19483468	T	T	19483468	2	4	24	1	0	0	0	0	0	0	0	1	3103	652	23	1		1	CDH18	5	19483468	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	18159562	19483468	161431792	75	10695										
UGT3A2	167127	broad.mit.edu	37	chr5	36049404	36049404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	acagtagtcaaaagtttcaaCtatcaccatgtcgaagttct	6	9	4	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr5:36049404C>A	uc003jjz.1	-	4	523	c.430G>T	c.(430-432)GTT>TTT	p.V144F	UGT3A2_uc011cos.1_Missense_Mutation_p.V110F|UGT3A2_uc011cot.1_Intron	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	144	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AAAGTTTCAACTATCACCATG	0.388													43	94	---	---	---	---	PASS	A	36049404	A	A	36049404	3	1	24	1	0	0	0	0	1	0	0	0	16961	565	20	3	1157	3	UGT3A2	5	36049404	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	16565936	36049404	144865856	76	10696										
ZNF608	57507	broad.mit.edu	37	chr5	123980279	123980279	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ttttaatttcttctctctatCaagttcttctgacttttgct	3	9	6	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr5:123980279C>G	uc003ktq.1	-	5	3904	c.3781G>C	c.(3781-3783)GAT>CAT	p.D1261H	ZNF608_uc003ktr.1_RNA|ZNF608_uc003ktp.1_5'UTR	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	1261						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		TTCTCTCTATCAAGTTCTTCT	0.373													70	64	---	---	---	---	PASS	G	123980279	G	G	123980279	3	3	24	1	0	0	0	0	1	0	0	0	18031	826	29	2	777	2	ZNF608	5	123980279	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	87930875	123980279	56934981	77	10697										
ADAMTS19	171019	broad.mit.edu	37	chr5	128957974	128957974	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctccaagctgccagggatgaCatacactgctgatgaacaat	9	11	0	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr5:128957974C>A	uc003kvb.1	+	10	1685	c.1685C>A	c.(1684-1686)ACA>AAA	p.T562K	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	562	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		CCAGGGATGACATACACTGCT	0.478													49	32	---	---	---	---	PASS	A	128957974	A	A	128957974	3	1	24	1	0	0	0	0	1	0	0	0	264	478	17	3	1723	3	ADAMTS19	5	128957974	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	4977695	128957974	51957286	78	10698										
LARS	51520	broad.mit.edu	37	chr5	145493753	145493753	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	attttcttgctcatgaggtcCacattgaaaacagcatgctc	7	10	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr5:145493753C>A	uc003lnx.1	-	32	3685	c.3447G>T	c.(3445-3447)GTG>GTT	p.V1149V	LARS_uc003lnw.1_Silent_p.V307V|LARS_uc011dbq.1_Silent_p.V1103V|LARS_uc011dbr.1_Silent_p.V1095V|LARS_uc011dbs.1_Silent_p.V1122V	NM_020117	NP_064502	Q9P2J5	SYLC_HUMAN	leucyl-tRNA synthetase	1149					leucyl-tRNA aminoacylation	cytosol	ATP binding|leucine-tRNA ligase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Leucine(DB00149)	TCATGAGGTCCACATTGAAAA	0.448													100	96	---	---	---	---	PASS	A	145493753	A	A	145493753	2	1	24	1	0	0	0	0	0	0	0	1	8634	581	21	3		3	LARS	5	145493753	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	16535779	145493753	35421507	79	10699										
MGAT1	4245	broad.mit.edu	37	chr5	180219325	180219325	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gaaagtactcgaagaagtccGgggccacctccaggtcatcc	11	13	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr5:180219325G>A	uc003mmg.3	-	2	1142	c.647C>T	c.(646-648)CCG>CTG	p.P216L	MGAT1_uc010jlf.2_Missense_Mutation_p.P216L|MGAT1_uc010jlg.2_Missense_Mutation_p.P216L|MGAT1_uc003mmh.3_Missense_Mutation_p.P216L|MGAT1_uc010jlh.2_Missense_Mutation_p.P216L|MGAT1_uc003mmi.3_Missense_Mutation_p.P216L	NM_002406	NP_002397	P26572	MGAT1_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	216	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(1)	1	all_cancers(89;1.11e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.0027)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00356)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GAAGAAGTCCGGGGCCACCTC	0.652													29	29	---	---	---	---	PASS	A	180219325	A	A	180219325	3	1	24	1	0	0	0	0	1	0	0	0	9542	1116	39	1	694	1	MGAT1	5	180219325	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	34725572	180219325	695935	80	10700										
GCM2	9247	broad.mit.edu	37	chr6	10875151	10875151	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gctgaaatgaccactgctgtCttgattttcttctgcctaga	8	10	3	4			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:10875151C>A	uc003mzn.3	-	5	670	c.598G>T	c.(598-600)GAC>TAC	p.D200Y	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	200					cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				CCACTGCTGTCTTGATTTTCT	0.423													27	124	---	---	---	---	PASS	A	10875151	A	A	10875151	3	1	24	1	0	0	0	0	1	0	0	0	6298	913	32	2	926	2	GCM2	6	10875151	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08		10875151	160239916	81	10701										
ZNF311	282890	broad.mit.edu	37	chr6	28966578	28966578	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	caggggtctacttctcgctcCagatgagagattaaaggagg	13	8	2	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:28966578C>G	uc003nlu.2	-	6	861	c.348G>C	c.(346-348)CTG>CTC	p.L116L	ZNF311_uc011dlk.1_Silent_p.L24L|ZNF311_uc003nlv.2_Silent_p.L24L	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	116					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						CTTCTCGCTCCAGATGAGAGA	0.428													69	188	---	---	---	---	PASS	G	28966578	G	G	28966578	2	3	24	1	0	0	0	0	0	0	0	1	17831	581	21	4		4	ZNF311	6	28966578	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	18091427	28966578	142148489	82	10702										
ATP6V1G2	534	broad.mit.edu	37	chr6	31513318	31513318	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gcacctggcgccttgtagccTgctccacctcagcagacagg	11	16	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:31513318T>G	uc003nua.2	-	3	515	c.224A>C	c.(223-225)CAG>CCG	p.Q75P	BAT1_uc003ntv.2_Intron|ATP6V1G2_uc003ntz.2_Missense_Mutation_p.Q34P|NFKBIL1_uc011dnr.1_5'Flank|NFKBIL1_uc011dns.1_5'Flank|NFKBIL1_uc011dnt.1_5'Flank|NFKBIL1_uc003nuc.2_5'Flank|NFKBIL1_uc003nub.2_5'Flank	NM_130463	NP_569730	O95670	VATG2_HUMAN	ATPase, H+ transporting, lysosomal, V1 subunit	75					cellular iron ion homeostasis|insulin receptor signaling pathway|proton transport|transferrin transport	cytosol|melanosome|vacuolar proton-transporting V-type ATPase complex	hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances|protein binding				0						CCTTGTAGCCTGCTCCACCTC	0.627													4	90	---	---	---	---	PASS	G	31513318	G	G	31513318	3	3	24	1	0	0	0	0	1	0	0	0	1187	1580	55	5	136	5	ATP6V1G2	6	31513318	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	2546740	31513318	139601749	83	10703										
C6orf25	80739	broad.mit.edu	37	chr6	31691947	31691947	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tatccccagctcctgatcccGctgctgggcgctgggttggt	13	14	0	1	rs140027534		TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:31691947G>A	uc011doc.1	+	3	438	c.438G>A	c.(436-438)CCG>CCA	p.P146P	LY6G6C_uc003nwh.2_5'Flank|LY6G6C_uc010jtd.2_5'Flank|C6orf25_uc003nwk.2_Silent_p.P146P|C6orf25_uc011dod.1_Intron|C6orf25_uc011doe.1_Intron|C6orf25_uc003nwo.2_Intron|C6orf25_uc003nwn.2_Silent_p.P146P	NM_138272	NP_612116	O95866	G6B_HUMAN	G6B protein isoform G6b-B precursor	146	Helical; (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	heparin binding|receptor activity				0						TCCTGATCCCGCTGCTGGGCG	0.667													19	41	---	---	---	---	PASS	A	31691947	A	A	31691947	2	1	24	1	0	0	0	0	0	0	0	1	2360	1074	38	1		1	C6orf25	6	31691947	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	178629	31691947	139423120	84	10704										
EGFL8	80864	broad.mit.edu	37	chr6	32135181	32135181	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gcaggagattcacgagctgcGagggcgcctggagcggctgg	19	10	1	1	rs138835391		TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:32135181G>C	uc003oab.1	+	7	714	c.656G>C	c.(655-657)CGA>CCA	p.R219P	PPT2_uc003nzy.1_RNA|EGFL8_uc003oac.1_Missense_Mutation_p.R219P	NM_030652	NP_085155	Q99944	EGFL8_HUMAN	NG3 protein precursor	219	Potential.					extracellular region|integral to membrane	calcium ion binding				0						CACGAGCTGCGAGGGCGCCTG	0.607													13	59	---	---	---	---	PASS	C	32135181	C	C	32135181	3	2	24	1	0	0	0	0	1	0	0	0	4965	1058	37	2	678	2	EGFL8	6	32135181	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	443234	32135181	138979886	85	10705										
CDKN1A	1026	broad.mit.edu	37	chr6	36652134	36652134	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ccacggggccccggcgaggcCgggatgagttgggaggaggc	21	11	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:36652134C>T	uc003omm.3	+	2	378	c.256C>T	c.(256-258)CGG>TGG	p.R86W	CDKN1A_uc011dtq.1_Missense_Mutation_p.R120W|CDKN1A_uc003oml.2_Missense_Mutation_p.R86W|CDKN1A_uc003omn.2_Missense_Mutation_p.R86W	NM_000389	NP_000380	P38936	CDN1A_HUMAN	cyclin-dependent kinase inhibitor 1A	86					cell cycle arrest|cellular response to extracellular stimulus|cellular response to ionizing radiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|induction of apoptosis by intracellular signals|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of fibroblast proliferation|positive regulation of reactive oxygen species metabolic process|Ras protein signal transduction|S phase of mitotic cell cycle|stress-induced premature senescence	cyclin-dependent protein kinase holoenzyme complex|cytosol|nucleoplasm|PCNA-p21 complex	cyclin-dependent protein kinase activating kinase activity|cyclin-dependent protein kinase inhibitor activity|metal ion binding			ovary(1)|breast(1)	2						CCGGCGAGGCCGGGATGAGTT	0.657									Multiple_Endocrine_Neoplasia_type_1				10	33	---	---	---	---	PASS	T	36652134	T	T	36652134	3	4	24	1	0	0	0	0	1	0	0	0	3158	643	23	1	258	1	CDKN1A	6	36652134	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	4516953	36652134	134462933	86	10706										
DNAH8	1769	broad.mit.edu	37	chr6	38891855	38891855	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ggaactatttgcttaaagatCaatgggaaatggagttgaga	12	3	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:38891855C>A	uc003ooe.1	+	71	10828	c.10228C>A	c.(10228-10230)CAA>AAA	p.Q3410K	uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GCTTAAAGATCAATGGGAAAT	0.388													80	61	---	---	---	---	PASS	A	38891855	A	A	38891855	3	1	24	1	0	0	0	0	1	0	0	0	4607	827	29	2	10502	2	DNAH8	6	38891855	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	2239721	38891855	132223212	87	10707										
RHAG	6005	broad.mit.edu	37	chr6	49582418	49582418	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	accatgttgagcttgcctcgGtgctccactaggctggagaa	12	11	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:49582418G>T	uc003ozk.3	-	5	851	c.789C>A	c.(787-789)CAC>CAA	p.H263Q	RHAG_uc010jzl.2_Missense_Mutation_p.H263Q|RHAG_uc010jzm.2_Missense_Mutation_p.H263Q	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein	263	Cytoplasmic (Potential).				carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					GCTTGCCTCGGTGCTCCACTA	0.498													117	161	---	---	---	---	PASS	T	49582418	T	T	49582418	3	4	24	1	0	0	0	0	1	0	0	0	13315	1252	44	3	464	3	RHAG	6	49582418	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	10690563	49582418	121532649	88	10708										
HCRTR2	3062	broad.mit.edu	37	chr6	55128622	55128622	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	caaactctggtgtcgacaggTatatagtttcaaatattttg	8	6	2	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:55128622T>A	uc003pcl.2	+	4	1077	c.762_splice	c.e4+2	p.Q254_splice	HCRTR2_uc010jzv.2_Splice_Site|HCRTR2_uc010jzw.1_Missense_Mutation_p.V190E	NM_001526	NP_001517	O43614	OX2R_HUMAN	orexin receptor 2						feeding behavior	integral to plasma membrane	neuropeptide receptor activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|breast(1)	6	Lung NSC(77;0.107)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			TGTCGACAGGTATATAGTTTC	0.363													23	35	---	---	---	---	PASS	A	55128622	A	A	55128622	5	1	24	1	0	0	0	0	0	0	1	0	7002	1652	57	5	778	5	HCRTR2	6	55128622	Splice_Site	SNP	T	TCGA-21-1081-01A-01D-1521-08	5546204	55128622	115986445	89	10709										
LCA5	167691	broad.mit.edu	37	chr6	80223280	80223280	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agcagctcagctaacttgacCtggagttcagatacttcatt	8	10	3	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:80223280C>G	uc003pix.2	-	3	804	c.369G>C	c.(367-369)CAG>CAC	p.Q123H	LCA5_uc003piy.2_Missense_Mutation_p.Q123H|LCA5_uc011dyq.1_RNA|LCA5_uc011dyr.1_Missense_Mutation_p.Q123H	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	123	Potential.				protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		CTAACTTGACCTGGAGTTCAG	0.388													97	115	---	---	---	---	PASS	G	80223280	G	G	80223280	3	3	24	1	0	0	0	0	1	0	0	0	8656	680	24	4	1748	4	LCA5	6	80223280	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	25094658	80223280	90891787	90	10710										
NR2E1	7101	broad.mit.edu	37	chr6	108492769	108492769	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gttttttcaaacggagcatcCgaaggaataggacctatgtc	10	8	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:108492769C>T	uc003psg.2	+	2	888	c.133C>T	c.(133-135)CGA>TGA	p.R45*		NM_003269	NP_003260	Q9Y466	NR2E1_HUMAN	nuclear receptor subfamily 2, group E, member 1	45	Nuclear receptor.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(87;8.13e-05)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00866)|Colorectal(196;0.0637)		BRCA - Breast invasive adenocarcinoma(108;0.013)|Epithelial(106;0.0521)|all cancers(137;0.068)|OV - Ovarian serous cystadenocarcinoma(136;0.0689)		ACGGAGCATCCGAAGGAATAG	0.552													128	124	---	---	---	---	PASS	T	108492769	T	T	108492769	4	4	24	1	0	0	0	0	0	1	0	0	10625	644	23	1	139	1	NR2E1	6	108492769	Nonsense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	28269489	108492769	62622298	91	10711										
C6orf174	387104	broad.mit.edu	37	chr6	127796683	127796683	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cgtgtcggcgatgagccggtCgatggtcttgcccaggcgct	16	12	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:127796683C>G	uc003qbd.2	-	6	3353	c.2488G>C	c.(2488-2490)GAC>CAC	p.D830H	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	830	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		ATGAGCCGGTCGATGGTCTTG	0.667													84	72	---	---	---	---	PASS	G	127796683	G	G	127796683	3	3	24	1	0	0	0	0	1	0	0	0	2345	884	31	2	363	2	C6orf174	6	127796683	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	19303914	127796683	43318384	92	10712										
SYNE1	23345	broad.mit.edu	37	chr6	152560753	152560753	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ccatcagctctgtatggaacTgggtttccttttggactgca	10	10	2	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:152560753T>C	uc010kiw.2	-	108	20584	c.19982A>G	c.(19981-19983)CAG>CGG	p.Q6661R	SYNE1_uc010kiv.2_Missense_Mutation_p.Q1185R|SYNE1_uc003qos.3_Missense_Mutation_p.Q1185R|SYNE1_uc003qot.3_Missense_Mutation_p.Q6590R|SYNE1_uc003qou.3_Missense_Mutation_p.Q6661R	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6661	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)		TGTATGGAACTGGGTTTCCTT	0.458										HNSCC(10;0.0054)			55	63	---	---	---	---	PASS	C	152560753	C	C	152560753	3	2	24	1	0	0	0	0	1	0	0	0	15442	1580	55	5	6640	5	SYNE1	6	152560753	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	24764070	152560753	18554314	93	10713										
ZDHHC14	79683	broad.mit.edu	37	chr6	158014086	158014086	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aaccaaagaagtcatcatcaAtggccagaccgtgaaactta	7	10	3	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:158014086A>G	uc003qqt.2	+	3	970	c.473A>G	c.(472-474)AAT>AGT	p.N158S	ZDHHC14_uc003qqs.2_Missense_Mutation_p.N158S|ZDHHC14_uc010kjm.1_Missense_Mutation_p.N53S	NM_024630	NP_078906	Q8IZN3	ZDH14_HUMAN	zinc finger, DHHC-type containing 14 isoform 1	158						integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|skin(1)	2		Breast(66;0.00586)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.9e-17)|BRCA - Breast invasive adenocarcinoma(81;5.8e-05)		GTCATCATCAATGGCCAGACC	0.522													34	97	---	---	---	---	PASS	G	158014086	G	G	158014086	3	3	24	1	0	0	0	0	1	0	0	0	17601	101	4	5	483	5	ZDHHC14	6	158014086	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	5453333	158014086	13100981	94	10714										
PARK2	5071	broad.mit.edu	37	chr6	162475142	162475142	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctgcactagtcccagggcagTgtggggattggcattcacca	13	11	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr6:162475142T>G	uc003qtx.3	-	5	733	c.599A>C	c.(598-600)CAC>CCC	p.H200P	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_Missense_Mutation_p.H9P|PARK2_uc003qtw.3_Missense_Mutation_p.H9P|PARK2_uc003qty.3_Intron|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Missense_Mutation_p.H200P	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	200					aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		CCCAGGGCAGTGTGGGGATTG	0.413													34	88	---	---	---	---	PASS	G	162475142	G	G	162475142	3	3	24	1	0	0	0	0	1	0	0	0	11449	1696	59	5	830	5	PARK2	6	162475142	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	4461056	162475142	8639925	95	10715										
INTS1	26173	broad.mit.edu	37	chr7	1539535	1539535	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctcaccttgacaaagatctcGggccagttctcgtcctcctc	7	16	3	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:1539535G>A	uc003skn.2	-	5	770	c.669C>T	c.(667-669)CCC>CCT	p.P223P	INTS1_uc003skq.2_Silent_p.P223P	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	223					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CAAAGATCTCGGGCCAGTTCT	0.612													16	38	---	---	---	---	PASS	A	1539535	A	A	1539535	2	1	24	1	0	0	0	0	0	0	0	1	7775	1103	39	1		1	INTS1	7	1539535	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08		1539535	157599128	96	10716										
TNRC18	84629	broad.mit.edu	37	chr7	5353167	5353167	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cggcctcctcccccggcctcCgagggcccttggcacccgac	11	22	0	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:5353167C>T	uc003soi.3	-	27	7704	c.7355G>A	c.(7354-7356)CGG>CAG	p.R2452Q		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2452							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CCCCGGCCTCCGAGGGCCCTT	0.677													10	24	---	---	---	---	PASS	T	5353167	T	T	5353167	3	4	24	1	0	0	0	0	1	0	0	0	16336	652	23	1	1567	1	TNRC18	7	5353167	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	3813632	5353167	153785496	97	10717										
THSD7A	221981	broad.mit.edu	37	chr7	11676275	11676275	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tcacagatgatatcctccgcAggaatgtctttgtctttctg	8	10	4	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:11676275A>T	uc003ssf.3	-	2	756	c.504T>A	c.(502-504)CCT>CCA	p.P168P		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	168	Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TATCCTCCGCAGGAATGTCTT	0.473										HNSCC(18;0.044)			24	67	---	---	---	---	PASS	T	11676275	T	T	11676275	2	4	24	1	0	0	0	0	0	0	0	1	15876	175	7	5		5	THSD7A	7	11676275	Silent	SNP	A	TCGA-21-1081-01A-01D-1521-08	6323108	11676275	147462388	98	10718										
ITGB8	3696	broad.mit.edu	37	chr7	20418789	20418789	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aatatagaaaaattaaattcCgttggaaacgatttatctag	6	4	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:20418789C>T	uc003suu.2	+	4	1209	c.504C>T	c.(502-504)TCC>TCT	p.S168S	ITGB8_uc011jyh.1_Silent_p.S33S|ITGB8_uc003sut.2_Silent_p.S168S	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	168	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						AATTAAATTCCGTTGGAAACG	0.338													22	117	---	---	---	---	PASS	T	20418789	T	T	20418789	2	4	24	1	0	0	0	0	0	0	0	1	7901	639	23	1		1	ITGB8	7	20418789	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	8742514	20418789	138719874	99	10719										
EVX1	2128	broad.mit.edu	37	chr7	27284804	27284804	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agatgcgtcgttaccgcaccGccttcacccgagagcagatt	10	14	1	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:27284804G>A	uc003szd.1	+	2	1051	c.565G>A	c.(565-567)GCC>ACC	p.A189T	EVX1_uc011jzn.1_Missense_Mutation_p.A7T|EVX1_uc010kuy.1_Silent_p.P170P	NM_001989	NP_001980	P49640	EVX1_HUMAN	even-skipped homeobox 1	189	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						TTACCGCACCGCCTTCACCCG	0.657													40	87	---	---	---	---	PASS	A	27284804	A	A	27284804	3	1	24	1	0	0	0	0	1	0	0	0	5294	1087	38	1	571	1	EVX1	7	27284804	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	6866015	27284804	131853859	100	10720										
CPVL	54504	broad.mit.edu	37	chr7	29152366	29152366	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ggttgctgttgtaagtcttaTtcacggtgaggaagccggca	14	7	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:29152366T>C	uc003szv.2	-	3	361	c.242A>G	c.(241-243)AAT>AGT	p.N81S	CPVL_uc003szw.2_Missense_Mutation_p.N81S|CPVL_uc003szx.2_Missense_Mutation_p.N81S	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	81					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						GTAAGTCTTATTCACGGTGAG	0.483													10	106	---	---	---	---	PASS	C	29152366	C	C	29152366	3	2	24	1	0	0	0	0	1	0	0	0	3835	1493	52	5	1232	5	CPVL	7	29152366	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	1867562	29152366	129986297	101	10721										
ZNF479	90827	broad.mit.edu	37	chr7	57194316	57194316	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cacccagggagaccaggtttCtgtagttctctaacatcaca	8	12	3	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:57194316C>A	uc010kzo.2	-	3	420	c.149G>T	c.(148-150)AGA>ATA	p.R50I		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	50	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			GACCAGGTTTCTGTAGTTCTC	0.378													53	210	---	---	---	---	PASS	A	57194316	A	A	57194316	3	1	24	1	0	0	0	0	1	0	0	0	17930	913	32	2	1437	2	ZNF479	7	57194316	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	28041950	57194316	101944347	102	10722										
GUSB	2990	broad.mit.edu	37	chr7	65426044	65426044	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ttttattccccagcactctcGtcggtgctacaaaaaaaaaa	5	11	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:65426044G>A	uc003tun.2	-	12	1872	c.1796C>T	c.(1795-1797)ACG>ATG	p.T599M	GUSB_uc011kdt.1_Missense_Mutation_p.T453M	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	599					glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0						CAGCACTCTCGTCGGTGCTAC	0.433													96	256	---	---	---	---	PASS	A	65426044	A	A	65426044	3	1	24	1	0	0	0	0	1	0	0	0	6902	1145	40	1	163	1	GUSB	7	65426044	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	8231728	65426044	93712619	103	10723										
CALN1	83698	broad.mit.edu	37	chr7	71868307	71868307	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agggctcctccgtcccccttTttctcattctcgggcttccc	7	18	2	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:71868307T>G	uc003twb.3	-	2	439	c.48A>C	c.(46-48)AAA>AAC	p.K16N	CALN1_uc003twc.3_Intron	NM_031468	NP_113656	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 1	Error:Variant_position_missing_in_Q9BXU9_after_alignment						Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				CGTCCCCCTTTTTCTCATTCT	0.632													2	1	---	---	---	---	PASS	G	71868307	G	G	71868307	3	3	24	1	0	0	0	0	1	0	0	0	2591	1838	64	5	761	5	CALN1	7	71868307	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	6442263	71868307	87270356	104	10724										
SEMA3C	10512	broad.mit.edu	37	chr7	80427490	80427490	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctttgtgggcaaaaggcccaTtaaacacagtctgtatatca	8	9	2	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:80427490T>A	uc003uhj.2	-	11	1611	c.1049A>T	c.(1048-1050)AAT>ATT	p.N350I	SEMA3C_uc011kgw.1_Missense_Mutation_p.N368I|SEMA3C_uc011kgx.1_Missense_Mutation_p.N202I	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	350	Sema.				immune response|response to drug	membrane	receptor activity			ovary(1)	1						AAAAGGCCCATTAAACACAGT	0.398													6	137	---	---	---	---	PASS	A	80427490	A	A	80427490	3	1	24	1	0	0	0	0	1	0	0	0	14026	1493	52	5	1238	5	SEMA3C	7	80427490	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	8559183	80427490	78711173	105	10725										
SEMA3E	9723	broad.mit.edu	37	chr7	83119461	83119461	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cgtcactgattctctccaagCtgagggaatatacaaggtcc	9	11	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:83119461C>A	uc003uhy.1	-	2	711	c.245G>T	c.(244-246)AGC>ATC	p.S82I		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	82	Sema.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				TCTCTCCAAGCTGAGGGAATA	0.413													40	80	---	---	---	---	PASS	A	83119461	A	A	83119461	3	1	24	1	0	0	0	0	1	0	0	0	14028	797	28	3	2146	3	SEMA3E	7	83119461	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	2691971	83119461	76019202	106	10726										
STEAP2	261729	broad.mit.edu	37	chr7	89861917	89861917	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	acaattcctcatgtctccccGgagagggtcacagtaatgtg	10	11	3	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:89861917G>A	uc003ujz.2	+	5	1845	c.1452G>A	c.(1450-1452)CCG>CCA	p.P484P	STEAP2_uc010len.2_Silent_p.P484P|STEAP2_uc003uka.2_Intron|STEAP2_uc003ukb.2_Silent_p.P484P|STEAP2_uc003ukc.2_Intron|STEAP2_uc003ukd.2_Intron	NM_152999	NP_694544	Q8NFT2	STEA2_HUMAN	six transmembrane epithelial antigen of the	484					electron transport chain|endocytosis|Golgi to plasma membrane transport|ion transport|iron ion homeostasis|regulated secretory pathway|response to hormone stimulus	cytosol|early endosome|endosome membrane|integral to Golgi membrane|plasma membrane|trans-Golgi network transport vesicle|vesicular fraction	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity|transporter activity			ovary(2)	2	all_hematologic(106;0.112)					ATGTCTCCCCGGAGAGGGTCA	0.403													28	42	---	---	---	---	PASS	A	89861917	A	A	89861917	2	1	24	1	0	0	0	0	0	0	0	1	15277	1103	39	1		1	STEAP2	7	89861917	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	6742456	89861917	69276746	107	10727										
CDK14	5218	broad.mit.edu	37	chr7	90356022	90356022	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	catttgagaaaccagctaatCaagtaaagagggtgcattct	9	7	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:90356022C>G	uc003uky.2	+	3	487	c.265C>G	c.(265-267)CAA>GAA	p.Q89E	CDK14_uc003ukt.1_Missense_Mutation_p.Q43E|CDK14_uc003ukv.1_Missense_Mutation_p.Q43E|CDK14_uc003uku.1_Missense_Mutation_p.Q43E|CDK14_uc003ukx.1_Intron|CDK14_uc003ukz.1_Missense_Mutation_p.Q71E|CDK14_uc010les.1_Missense_Mutation_p.Q43E|CDK14_uc011khl.1_Translation_Start_Site	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	89					cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						ACCAGCTAATCAAGTAAAGAG	0.463													81	95	---	---	---	---	PASS	G	90356022	G	G	90356022	3	3	24	1	0	0	0	0	1	0	0	0	3130	827	29	2	217	2	CDK14	7	90356022	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	494105	90356022	68782641	108	10728										
TRRAP	8295	broad.mit.edu	37	chr7	98535291	98535291	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agtttttagaaggtgctaccAtagaagtcgatcaaatccac	8	8	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:98535291A>C	uc003upp.2	+	30	4461	c.4252A>C	c.(4252-4254)ATA>CTA	p.I1418L	TRRAP_uc011kis.1_Missense_Mutation_p.I1418L|TRRAP_uc003upr.2_Missense_Mutation_p.I1110L	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1418					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			AGGTGCTACCATAGAAGTCGA	0.398													8	151	---	---	---	---	PASS	C	98535291	C	C	98535291	3	2	24	1	0	0	0	0	1	0	0	0	16598	217	8	5	4366	5	TRRAP	7	98535291	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	8179269	98535291	60603372	109	10729										
CUX1	1523	broad.mit.edu	37	chr7	101845426	101845426	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ggacaccatcgagctcacccGgcaggttaaggaaaagctgg	13	11	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:101845426G>C	uc003uyx.3	+	18	2887	c.2849G>C	c.(2848-2850)CGG>CCG	p.R950P	CUX1_uc003uys.3_Missense_Mutation_p.R961P|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	950	CUT 2.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						GAGCTCACCCGGCAGGTTAAG	0.597													82	189	---	---	---	---	PASS	C	101845426	C	C	101845426	3	2	24	1	0	0	0	0	1	0	0	0	4064	1116	39	4	2986	4	CUX1	7	101845426	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	3310135	101845426	57293237	110	10730										
DOCK4	9732	broad.mit.edu	37	chr7	111409709	111409709	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	accattccagtagctcgtcaTataagaggagggtatatgca	10	8	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:111409709T>C	uc003vfx.2	-	36	3946	c.3677A>G	c.(3676-3678)TAT>TGT	p.Y1226C	DOCK4_uc011kml.1_Missense_Mutation_p.Y107C|DOCK4_uc011kmm.1_Missense_Mutation_p.Y133C|DOCK4_uc003vfw.2_Missense_Mutation_p.Y676C|DOCK4_uc003vfy.2_Missense_Mutation_p.Y1271C	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1226	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				TAGCTCGTCATATAAGAGGAG	0.527													30	42	---	---	---	---	PASS	C	111409709	C	C	111409709	3	2	24	1	0	0	0	0	1	0	0	0	4689	1406	49	5	2291	5	DOCK4	7	111409709	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	9564283	111409709	47728954	111	10731										
PPP1R3A	5506	broad.mit.edu	37	chr7	113558772	113558772	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gtggaaaatgtccgtccctaAgtcaaaagtggttgaagcac	11	8	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:113558772A>T	uc010ljy.1	-	1	311	c.280T>A	c.(280-282)TTA>ATA	p.L94I		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	94					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TCCGTCCCTAAGTCAAAAGTG	0.378													18	204	---	---	---	---	PASS	T	113558772	T	T	113558772	3	4	24	1	0	0	0	0	1	0	0	0	12371	69	3	5	3104	5	PPP1R3A	7	113558772	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	2149063	113558772	45579891	112	10732										
FLNC	2318	broad.mit.edu	37	chr7	128494544	128494544	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aagccgcagagatcgtcgagGgcgaggacagcgcctacagc	15	12	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:128494544G>A	uc003vnz.3	+	41	7014	c.6805G>A	c.(6805-6807)GGC>AGC	p.G2269S	FLNC_uc003voa.3_Missense_Mutation_p.G2236S	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2269	Filamin 20.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GATCGTCGAGGGCGAGGACAG	0.647													4	16	---	---	---	---	PASS	A	128494544	A	A	128494544	3	1	24	1	0	0	0	0	1	0	0	0	5935	1232	43	3	6967	3	FLNC	7	128494544	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	14935772	128494544	30644119	113	10733										
PLXNA4	91584	broad.mit.edu	37	chr7	131853184	131853184	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctgcagcacggtcatgatgaGtgaggccacgttgccacggt	14	11	1	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:131853184G>A	uc003vra.3	-	22	4394	c.4165C>T	c.(4165-4167)CTC>TTC	p.L1389F		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1389	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GTCATGATGAGTGAGGCCACG	0.577													15	73	---	---	---	---	PASS	A	131853184	A	A	131853184	3	1	24	1	0	0	0	0	1	0	0	0	12122	1029	36	3	1563	3	PLXNA4	7	131853184	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	3358640	131853184	27285479	114	10734										
PLXNA4	91584	broad.mit.edu	37	chr7	131912348	131912348	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgacagctccgggacattgtAcgtctccaggaccagctgtg	12	12	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:131912348A>T	uc003vra.3	-	7	1973	c.1744T>A	c.(1744-1746)TAC>AAC	p.Y582N		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	582	Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GGGACATTGTACGTCTCCAGG	0.552													29	77	---	---	---	---	PASS	T	131912348	T	T	131912348	3	4	24	1	0	0	0	0	1	0	0	0	12122	391	14	5	4044	5	PLXNA4	7	131912348	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	59164	131912348	27226315	115	10735										
OR9A2	135924	broad.mit.edu	37	chr7	142723568	142723568	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gatcttgaggatggtggagaTaatgtaggtgtaggagacaa	16	2	1	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:142723568T>C	uc003wcc.1	-	1	652	c.652A>G	c.(652-654)ATC>GTC	p.I218V		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	218	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					ATGGTGGAGATAATGTAGGTG	0.468													23	66	---	---	---	---	PASS	C	142723568	C	C	142723568	3	2	24	1	0	0	0	0	1	0	0	0	11248	1406	49	5	284	5	OR9A2	7	142723568	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	10811220	142723568	16415095	116	10736										
GIMAP1	170575	broad.mit.edu	37	chr7	150417223	150417223	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ggccgggaagagcgccactgGgaacagcatcctgggccaga	16	12	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr7:150417223G>C	uc003whq.2	+	3	218	c.131G>C	c.(130-132)GGG>GCG	p.G44A	GIMAP1_uc003whp.2_Missense_Mutation_p.G52A	NM_130759	NP_570115	Q8WWP7	GIMA1_HUMAN	GTPase, IMAP family member 1	44	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGCGCCACTGGGAACAGCATC	0.642													55	197	---	---	---	---	PASS	C	150417223	C	C	150417223	3	2	24	1	0	0	0	0	1	0	0	0	6379	1232	43	4	137	4	GIMAP1	7	150417223	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	7693655	150417223	8721440	117	10737										
FNTA	2339	broad.mit.edu	37	chr8	42940421	42940421	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctcaccaacaaatgtacagcAataacaccatccagaagaac	4	13	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:42940421A>G	uc003xps.2	+	9	1184	c.1136A>G	c.(1135-1137)CAA>CGA	p.Q379R	FNTA_uc003xpt.2_Missense_Mutation_p.Q288R|FNTA_uc003xpu.2_Missense_Mutation_p.Q312R|FNTA_uc003xpv.2_RNA	NM_002027	NP_002018	P49354	FNTA_HUMAN	farnesyltransferase, CAAX box, alpha isoform a	379					cellular component disassembly involved in apoptosis|positive regulation of deacetylase activity|positive regulation of tubulin deacetylation|protein farnesylation|protein geranylgeranylation|transforming growth factor beta receptor signaling pathway	cytosol|microtubule associated complex	alpha-tubulin binding|CAAX-protein geranylgeranyltransferase activity|microtubule binding|protein farnesyltransferase activity			ovary(1)	1	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			AATGTACAGCAATAACACCAT	0.403													6	98	---	---	---	---	PASS	G	42940421	G	G	42940421	3	3	24	1	0	0	0	0	1	0	0	0	5977	130	5	5	1170	5	FNTA	8	42940421	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08		42940421	103423601	118	10738										
PXDNL	137902	broad.mit.edu	37	chr8	52359584	52359584	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctttgggttttacagtcagcTgcacagacacctttttcacc	7	12	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:52359584T>A	uc003xqu.3	-	12	1606	c.1505A>T	c.(1504-1506)CAG>CTG	p.Q502L		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	502	Ig-like C2-type 3.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TACAGTCAGCTGCACAGACAC	0.448													49	244	---	---	---	---	PASS	A	52359584	A	A	52359584	3	1	24	1	0	0	0	0	1	0	0	0	12848	1580	55	5	2934	5	PXDNL	8	52359584	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	9419163	52359584	94004438	119	10739										
RP1	6101	broad.mit.edu	37	chr8	55538412	55538412	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tcagtgtggtttaacaaaacTtccaaaaaatgaaaagaaga	7	5	1	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:55538412T>G	uc003xsd.1	+	4	2118	c.1970T>G	c.(1969-1971)CTT>CGT	p.L657R	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	657					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TTAACAAAACTTCCAAAAAAT	0.358													26	66	---	---	---	---	PASS	G	55538412	G	G	55538412	3	3	24	1	0	0	0	0	1	0	0	0	13532	1609	56	5	1980	5	RP1	8	55538412	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	3178828	55538412	90825610	120	10740										
VCPIP1	80124	broad.mit.edu	37	chr8	67547217	67547217	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aaggctctgttttagtggaaCtattactaaagtctgtccct	8	8	2	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:67547217C>A	uc003xwn.2	-	3	3447	c.3188G>T	c.(3187-3189)AGT>ATT	p.S1063I		NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	1063					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			TTTAGTGGAACTATTACTAAA	0.418													38	260	---	---	---	---	PASS	A	67547217	A	A	67547217	3	1	24	1	0	0	0	0	1	0	0	0	17138	565	20	3	484	3	VCPIP1	8	67547217	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	12008805	67547217	78816805	121	10741										
ZFHX4	79776	broad.mit.edu	37	chr8	77767456	77767456	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cagagctgtcaccgaagaatCttttaagcccttcttctttt	6	11	4	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:77767456C>A	uc003yav.2	+	10	8551	c.8164C>A	c.(8164-8166)CTT>ATT	p.L2722I	ZFHX4_uc003yau.1_Missense_Mutation_p.L2767I|ZFHX4_uc003yaw.1_Missense_Mutation_p.L2722I	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2722						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACCGAAGAATCTTTTAAGCCC	0.383										HNSCC(33;0.089)			28	54	---	---	---	---	PASS	A	77767456	A	A	77767456	3	1	24	1	0	0	0	0	1	0	0	0	17632	913	32	2	8333	2	ZFHX4	8	77767456	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	10220239	77767456	68596566	122	10742										
ZFHX4	79776	broad.mit.edu	37	chr8	77768504	77768504	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ccccggaatgaacggtccatCctccttgccgggatttccac	9	16	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:77768504C>A	uc003yav.2	+	10	9599	c.9212C>A	c.(9211-9213)TCC>TAC	p.S3071Y	ZFHX4_uc003yau.1_Missense_Mutation_p.S3116Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.S3071Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3071	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AACGGTCCATCCTCCTTGCCG	0.502										HNSCC(33;0.089)			33	54	---	---	---	---	PASS	A	77768504	A	A	77768504	3	1	24	1	0	0	0	0	1	0	0	0	17632	855	30	2	9381	2	ZFHX4	8	77768504	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	1048	77768504	68595518	123	10743										
SLC26A7	115111	broad.mit.edu	37	chr8	92346641	92346641	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gaatgaacagtttaaaaggaAaattaaagttgttcttcctg	8	4	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:92346641A>C	uc003yex.2	+	7	1039	c.761A>C	c.(760-762)AAA>ACA	p.K254T	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Missense_Mutation_p.K254T|SLC26A7_uc003yfa.2_Missense_Mutation_p.K254T	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	254	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)			TTTAAAAGGAAAATTAAAGTT	0.368													40	64	---	---	---	---	PASS	C	92346641	C	C	92346641	3	2	24	1	0	0	0	0	1	0	0	0	14522	14	1	5	779	5	SLC26A7	8	92346641	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	14578137	92346641	54017381	124	10744										
OSR2	116039	broad.mit.edu	37	chr8	99961551	99961551	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctttgccaatttggcggtggCtgccacgcaagaggatccgc	13	12	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:99961551C>A	uc003yir.2	+	2	906	c.371C>A	c.(370-372)GCT>GAT	p.A124D	OSR2_uc010mbn.2_Missense_Mutation_p.A124D|OSR2_uc003yiq.2_Missense_Mutation_p.A124D|OSR2_uc011lgx.1_Missense_Mutation_p.A245D	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	124					bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding			central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			TTGGCGGTGGCTGCCACGCAA	0.612													107	192	---	---	---	---	PASS	A	99961551	A	A	99961551	3	1	24	1	0	0	0	0	1	0	0	0	11294	797	28	3	373	3	OSR2	8	99961551	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	7614910	99961551	46402471	125	10745										
SNX31	169166	broad.mit.edu	37	chr8	101661695	101661695	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	accacgtagcggccccccagCgcgtcggaccgctgctggga	14	17	0	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:101661695C>T	uc003yjr.2	-	1	199	c.48G>A	c.(46-48)GCG>GCA	p.A16A		NM_152628	NP_689841	Q8N9S9	SNX31_HUMAN	sorting nexin 31	16	PX.				cell communication|protein transport		phosphatidylinositol binding				0	all_cancers(14;4.01e-05)|all_epithelial(15;1.26e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;1.21e-11)|all cancers(13;2.62e-09)|OV - Ovarian serous cystadenocarcinoma(57;3.22e-06)|STAD - Stomach adenocarcinoma(118;0.206)			GGCCCCCCAGCGCGTCGGACC	0.697													8	12	---	---	---	---	PASS	T	101661695	T	T	101661695	2	4	24	1	0	0	0	0	0	0	0	1	14901	755	27	1		1	SNX31	8	101661695	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	1700144	101661695	44702327	126	10746										
MTBP	27085	broad.mit.edu	37	chr8	121519088	121519088	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ttggagatcttcaacctttaCcgattcaaaaggggtaggtt	10	7	3	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:121519088C>T	uc003ypc.1	+	16	1915	c.1870C>T	c.(1870-1872)CCG>TCG	p.P624S		NM_022045	NP_071328	Q96DY7	MTBP_HUMAN	Mdm2, transformed 3T3 cell double minute 2, p53	624	Interaction with MDM2 (By similarity).				cell cycle arrest					skin(2)|ovary(1)	3	Lung NSC(37;5.68e-08)|Ovarian(258;0.00769)|all_neural(195;0.0804)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00503)			TCAACCTTTACCGATTCAAAA	0.328													23	109	---	---	---	---	PASS	T	121519088	T	T	121519088	3	4	24	1	0	0	0	0	1	0	0	0	9912	507	18	3	1932	3	MTBP	8	121519088	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	19857393	121519088	24844934	127	10747										
OC90	729330	broad.mit.edu	37	chr8	133044286	133044286	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cttcccaggtgcaggaaggtGaatctgtcacaggctgaaag	13	9	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:133044286G>T	uc003ytg.2	-	11	873	c.873C>A	c.(871-873)TTC>TTA	p.F291L	OC90_uc011lix.1_Missense_Mutation_p.F291L	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	307					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GCAGGAAGGTGAATCTGTCAC	0.547													33	112	---	---	---	---	PASS	T	133044286	T	T	133044286	3	4	24	1	0	0	0	0	1	0	0	0	10814	1281	45	2	572	2	OC90	8	133044286	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	11525198	133044286	13319736	128	10748										
SLA	6503	broad.mit.edu	37	chr8	134062194	134062194	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ccagggatgtaactctctcgAccagtgctaagagaaatagc	10	10	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:134062194A>C	uc003ytz.2	-	5	1033	c.201T>G	c.(199-201)GGT>GGG	p.G67G	TG_uc003ytw.2_Intron|TG_uc010mdw.2_Intron|TG_uc011ljb.1_Intron|TG_uc011ljc.1_Intron|SLA_uc011lje.1_Silent_p.G84G|SLA_uc011ljf.1_5'UTR|SLA_uc011ljg.1_Silent_p.G84G|SLA_uc010mdy.1_Silent_p.G67G|SLA_uc010mdz.1_Silent_p.G67G|SLA_uc010mea.2_RNA|SLA_uc011ljd.1_Silent_p.G107G	NM_001045556	NP_001039021	Q13239	SLAP1_HUMAN	Src-like-adaptor isoform a	67	SH3.					endosome	SH3/SH2 adaptor activity			lung(1)|liver(1)	2	all_epithelial(106;3.51e-21)|Lung NSC(106;4.24e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0279)|Breast(495;0.037)	BRCA - Breast invasive adenocarcinoma(115;0.000701)			AACTCTCTCGACCAGTGCTAA	0.438													25	117	---	---	---	---	PASS	C	134062194	C	C	134062194	2	2	24	1	0	0	0	0	0	0	0	1	14363	262	10	5		5	SLA	8	134062194	Silent	SNP	A	TCGA-21-1081-01A-01D-1521-08	1017908	134062194	12301828	129	10749										
FOXH1	8928	broad.mit.edu	37	chr8	145699868	145699868	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ttaccacattgggagtgtagAtaggcaagtaggaggtgggc	16	5	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:145699868A>G	uc003zdc.2	-	3	1430	c.851T>C	c.(850-852)ATC>ACC	p.I284T		NM_003923	NP_003914	O75593	FOXH1_HUMAN	forkhead box H1	284	SMAD-interaction domain (SID).				axial mesoderm development|blood vessel development|cell migration involved in gastrulation|embryonic heart tube anterior/posterior pattern formation|floor plate formation|heart looping|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|specification of organ position|transforming growth factor beta receptor signaling pathway	activin responsive factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|R-SMAD binding|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 factor binding				0	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.76e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			GGGAGTGTAGATAGGCAAGTA	0.652													22	87	---	---	---	---	PASS	G	145699868	G	G	145699868	3	3	24	1	0	0	0	0	1	0	0	0	6008	333	12	5	250	5	FOXH1	8	145699868	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	11637674	145699868	664154	130	10750										
ARHGAP39	80728	broad.mit.edu	37	chr8	145773569	145773569	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gccatagcgcggggaggaggGctgcgagtccccggagggct	20	11	0	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr8:145773569G>A	uc003zdt.1	-	6	1456	c.901C>T	c.(901-903)CCC>TCC	p.P301S	ARHGAP39_uc011llk.1_Missense_Mutation_p.P301S|ARHGAP39_uc003zds.1_Missense_Mutation_p.P301S	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	301	Pro-rich.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						GGGGAGGAGGGCTGCGAGTCC	0.682													26	47	---	---	---	---	PASS	A	145773569	A	A	145773569	3	1	24	1	0	0	0	0	1	0	0	0	884	1203	42	3	2475	3	ARHGAP39	8	145773569	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	73701	145773569	590453	131	10751										
TAF1L	138474	broad.mit.edu	37	chr9	32631226	32631226	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agaggcatttacgcacatttTcacggagtgtttgtaggtcc	11	8	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr9:32631226T>C	uc003zrg.1	-	1	4442	c.4352A>G	c.(4351-4353)GAA>GGA	p.E1451G	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1451	Bromo 1.				male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		ACGCACATTTTCACGGAGTGT	0.448													72	214	---	---	---	---	PASS	C	32631226	C	C	32631226	3	2	24	1	0	0	0	0	1	0	0	0	15520	1783	62	5	1132	5	TAF1L	9	32631226	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08		32631226	108582205	132	10752										
XPA	7507	broad.mit.edu	37	chr9	100459559	100459559	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cgccgcctccggcaaagcccCgtcggccgccgccatctctg	11	21	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr9:100459559C>A	uc004axr.3	-	1	133	c.16G>T	c.(16-18)GGG>TGG	p.G6W	XPA_uc004axs.3_RNA	NM_000380	NP_000371	P23025	XPA_HUMAN	xeroderma pigmentosum, complementation group A	6	Interaction with CEP164 and required for UV resistance.				nucleotide-excision repair, DNA damage removal	nucleoplasm	damaged DNA binding|metal ion binding|nucleotide binding|protein domain specific binding|protein homodimerization activity			breast(1)	1		Acute lymphoblastic leukemia(62;0.158)				GGCAAAGCCCCGTCGGCCGCC	0.726			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		NER	Xeroderma_Pigmentosum				16	13	---	---	---	---	PASS	A	100459559	A	A	100459559	3	1	24	1	0	0	0	0	1	0	0	0	17437	652	23	1	829	1	XPA	9	100459559	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	67828333	100459559	40753872	133	10753										
DBC1	1620	broad.mit.edu	37	chr9	122075418	122075418	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	atttagcccaggtcttacctGtatattttatatctggttgt	7	7	2	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr9:122075418G>T	uc004bkc.2	-	2	672	c.216C>A	c.(214-216)TAC>TAA	p.Y72*	DBC1_uc004bkd.2_Nonsense_Mutation_p.Y72*	NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	72	MACPF.				cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GGTCTTACCTGTATATTTTAT	0.453													20	30	---	---	---	---	PASS	T	122075418	T	T	122075418	4	4	24	1	0	0	0	0	0	1	0	0	4247	1372	48	3	2097	3	DBC1	9	122075418	Nonsense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	21615859	122075418	19138013	134	10754										
PHYH	5264	broad.mit.edu	37	chr10	13330441	13330441	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agacagccgttgttccggctGatgtgctccatcgccgtcca	11	14	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr10:13330441G>C	uc001imf.2	-	6	685	c.597C>G	c.(595-597)ATC>ATG	p.I199M	PHYH_uc001ime.2_Missense_Mutation_p.I99M|PHYH_uc001img.2_Missense_Mutation_p.I182M	NM_006214	NP_006205	O14832	PAHX_HUMAN	phytanoyl-CoA 2-hydroxylase isoform a precursor	199			I -> F (in RD).		fatty acid alpha-oxidation|nervous system development	peroxisomal matrix	electron carrier activity|L-ascorbic acid binding|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|phytanoyl-CoA dioxygenase activity|protein binding				0		Ovarian(717;0.0448)			Antihemophilic Factor(DB00025)|Vitamin C(DB00126)	TGTTCCGGCTGATGTGCTCCA	0.627													45	44	---	---	---	---	PASS	C	13330441	C	C	13330441	3	2	24	1	0	0	0	0	1	0	0	0	11864	1280	45	2	435	2	PHYH	10	13330441	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08		13330441	122204306	135	10755										
MYPN	84665	broad.mit.edu	37	chr10	69935098	69935098	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aggccatcccagggattagcGaagaaaaatacaaagtctcc	9	10	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr10:69935098G>A	uc001jnm.3	+	13	2768	c.2583G>A	c.(2581-2583)GCG>GCA	p.A861A	MYPN_uc001jnn.3_Silent_p.A586A|MYPN_uc001jno.3_Silent_p.A861A|MYPN_uc009xpt.2_Silent_p.A861A|MYPN_uc010qit.1_Silent_p.A567A|MYPN_uc010qiu.1_Intron	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	861						nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						AGGGATTAGCGAAGAAAAATA	0.418													25	27	---	---	---	---	PASS	A	69935098	A	A	69935098	2	1	24	1	0	0	0	0	0	0	0	1	10098	1045	37	2		2	MYPN	10	69935098	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	56604657	69935098	65599649	136	10756										
BLNK	29760	broad.mit.edu	37	chr10	97969612	97969612	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	acccggcccgtggcaacgggGatggtgcagctggtggaggt	19	10	0	0	rs35461367		TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr10:97969612G>C	uc001kls.3	-	9	906	c.728C>G	c.(727-729)TCC>TGC	p.S243C	BLNK_uc001kme.3_Missense_Mutation_p.S138C|BLNK_uc001klt.3_Missense_Mutation_p.S134C|BLNK_uc009xvc.2_RNA|BLNK_uc001klu.3_Missense_Mutation_p.S161C|BLNK_uc001klv.3_Missense_Mutation_p.S138C|BLNK_uc001klw.3_Intron|BLNK_uc001klx.3_Missense_Mutation_p.S220C|BLNK_uc001kly.3_Missense_Mutation_p.S243C|BLNK_uc001klz.3_RNA|BLNK_uc001kma.3_Missense_Mutation_p.S220C|BLNK_uc001kmb.3_Missense_Mutation_p.S39C|BLNK_uc001kmc.3_Intron|BLNK_uc001kmd.3_Missense_Mutation_p.S161C|BLNK_uc009xvd.2_RNA	NM_013314	NP_037446	Q8WV28	BLNK_HUMAN	B-cell linker isoform 1	243	Pro-rich.				B cell differentiation|humoral immune response|inflammatory response|intracellular signal transduction	cytoplasm|plasma membrane	SH3/SH2 adaptor activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(2)	2		Colorectal(252;0.083)		Epithelial(162;7.89e-08)|all cancers(201;2.27e-06)		TGGCAACGGGGATGGTGCAGC	0.567													54	201	---	---	---	---	PASS	C	97969612	C	C	97969612	3	2	24	1	0	0	0	0	1	0	0	0	1447	1174	41	2	678	2	BLNK	10	97969612	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	28034514	97969612	37565135	137	10757										
EIF3A	8661	broad.mit.edu	37	chr10	120796677	120796677	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ggtcctcttcggtccctgtcGtctcttagatctcgtctttc	8	14	4	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr10:120796677G>A	uc001ldu.2	-	21	4019	c.3873C>T	c.(3871-3873)GAC>GAT	p.D1291D	EIF3A_uc010qsu.1_Silent_p.D1257D	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	1291	Asp-rich.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		GGTCCCTGTCGTCTCTTAGAT	0.532													53	243	---	---	---	---	PASS	A	120796677	A	A	120796677	2	1	24	1	0	0	0	0	0	0	0	1	5012	1136	40	1		1	EIF3A	10	120796677	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	22827065	120796677	14738070	138	10758										
C10orf88	80007	broad.mit.edu	37	chr10	124697585	124697585	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ggacgacttgtttaaggttcCtaaggtagatgaggattgta	13	4	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr10:124697585C>A	uc001lgw.2	-	5	964	c.739G>T	c.(739-741)GGA>TGA	p.G247*	C10orf88_uc001lgx.2_Nonsense_Mutation_p.G149*	NM_024942	NP_079218	Q9H8K7	CJ088_HUMAN	hypothetical protein LOC80007	247											0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)		TTTAAGGTTCCTAAGGTAGAT	0.403													60	72	---	---	---	---	PASS	A	124697585	A	A	124697585	4	1	24	1	0	0	0	0	0	1	0	0	1622	690	24	3	606	3	C10orf88	10	124697585	Nonsense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	3900908	124697585	10837162	139	10759										
SIRT3	23410	broad.mit.edu	37	chr11	233040	233040	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cagaagcagccccttgtcatGaagcagccggagaaagtagt	12	10	1	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr11:233040G>T	uc001lok.3	-	3	683	c.649C>A	c.(649-651)CAT>AAT	p.H217N	SIRT3_uc001loj.3_Missense_Mutation_p.H75N|SIRT3_uc010qvm.1_Missense_Mutation_p.H153N|SIRT3_uc010qvn.1_Missense_Mutation_p.H136N|SIRT3_uc010qvo.1_Missense_Mutation_p.H217N|SIRT3_uc010qvp.1_Missense_Mutation_p.H217N|SIRT3_uc010qvq.1_Missense_Mutation_p.H75N|SIRT3_uc009ybt.1_RNA	NM_012239	NP_036371	Q9NTG7	SIRT3_HUMAN	sirtuin 3 isoform a	217	Deacetylase sirtuin-type.				chromatin silencing|protein ADP-ribosylation|protein deacetylation	mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|protein binding|zinc ion binding			urinary_tract(1)	1		all_cancers(49;1.58e-09)|all_epithelial(84;2.71e-06)|Breast(177;0.000162)|Ovarian(85;0.000626)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;3.66e-27)|Epithelial(43;2.02e-26)|OV - Ovarian serous cystadenocarcinoma(40;2.9e-21)|BRCA - Breast invasive adenocarcinoma(625;3.88e-05)|Lung(200;0.111)|LUSC - Lung squamous cell carcinoma(625;0.129)		CCCTTGTCATGAAGCAGCCGG	0.522													39	31	---	---	---	---	PASS	T	233040	T	T	233040	3	4	24	1	0	0	0	0	1	0	0	0	14339	1290	45	2	570	2	SIRT3	11	233040	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08		233040	134773476	140	10760										
OR52B4	143496	broad.mit.edu	37	chr11	4389372	4389372	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	atggaggctgcgctttgtgaGgataatgaagatgagcaggc	16	5	0	4			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr11:4389372G>T	uc010qye.1	-	1	154	c.154C>A	c.(154-156)CTC>ATC	p.L52I		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	52	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0249)|all_neural(188;0.0577)		Epithelial(150;1.57e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0826)|LUSC - Lung squamous cell carcinoma(625;0.19)		CGCTTTGTGAGGATAATGAAG	0.527													20	25	---	---	---	---	PASS	T	4389372	T	T	4389372	3	4	24	1	0	0	0	0	1	0	0	0	11112	1000	35	3	794	3	OR52B4	11	4389372	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	4156332	4389372	130617144	141	10761										
OR4C11	219429	broad.mit.edu	37	chr11	55371668	55371668	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctgcaaaggacaaataaaatAgaaagaagtacatggggctt	10	5	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr11:55371668A>G	uc010rii.1	-	1	182	c.182T>C	c.(181-183)CTA>CCA	p.L61P		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	61	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CAAATAAAATAGAAAGAAGTA	0.388													58	62	---	---	---	---	PASS	G	55371668	G	G	55371668	3	3	24	1	0	0	0	0	1	0	0	0	11045	420	15	5	752	5	OR4C11	11	55371668	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	50982296	55371668	79634848	142	10762										
OR4C6	219432	broad.mit.edu	37	chr11	55432931	55432931	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tctctctcaaaggctgcctcAcccagctgtttgtggagcat	9	13	3	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr11:55432931A>G	uc001nht.3	+	3	554	c.289A>G	c.(289-291)ACC>GCC	p.T97A	OR4C6_uc010rik.1_Missense_Mutation_p.T97A	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	97	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						AGGCTGCCTCACCCAGCTGTT	0.527													30	115	---	---	---	---	PASS	G	55432931	G	G	55432931	3	3	24	1	0	0	0	0	1	0	0	0	11052	159	6	5	291	5	OR4C6	11	55432931	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	61263	55432931	79573585	143	10763										
TNKS1BP1	85456	broad.mit.edu	37	chr11	57080646	57080646	+	Missense_Mutation	SNP	C	A	A													0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agcctcagcagcctcggcggCctcactggcttcagtgatgg							TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr11:57080646C>A	uc001njr.2	-	4	1828	c.1516G>T	c.(1516-1518)GCC>TCC	p.A506S	TNKS1BP1_uc001njs.2_Missense_Mutation_p.A506S|TNKS1BP1_uc009ymd.1_5'UTR	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	506	Pro-rich.|Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GCCTCGGCGGCCTCACTGGCT	0.657													5	22	---	---	---	---	PASS	A	57080646	A	A	57080646	3	1	24	1	0	0	0	0	1	0	0	0	16317	739	26	3	3701	3	TNKS1BP1	11	57080646	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	1647715	57080646	77925870	144	10764	300	2								
TNKS1BP1	85456	broad.mit.edu	37	chr11	57080648	57080648	+	Missense_Mutation	SNP	T	A	A													0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cctcagcagcctcggcggccTcactggcttcagtgatgggg							TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr11:57080648T>A	uc001njr.2	-	4	1826	c.1514A>T	c.(1513-1515)GAG>GTG	p.E505V	TNKS1BP1_uc001njs.2_Missense_Mutation_p.E505V|TNKS1BP1_uc009ymd.1_5'UTR	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	505	Pro-rich.|Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				CTCGGCGGCCTCACTGGCTTC	0.647													5	19	---	---	---	---	PASS	A	57080648	A	A	57080648	3	1	24	1	0	0	0	0	1	0	0	0	16317	1551	54	5	3703	5	TNKS1BP1	11	57080648	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	2	57080648	77925868	145	10765	300	2								
STX5	6811	broad.mit.edu	37	chr11	62595044	62595044	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tcaactcacttggccatgagGgtgaattcactgcgttgtcg	11	10	3	2	rs149057421	by1000genomes	TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr11:62595044G>A	uc001nvh.2	-	3	439	c.285C>T	c.(283-285)ACC>ACT	p.T95T	STX5_uc010rmi.1_5'UTR|STX5_uc009yoh.2_RNA|STX5_uc001nvi.2_Silent_p.T41T|STX5_uc010rmj.1_Silent_p.T95T|STX5_uc001nvj.2_Intron	NM_003164	NP_003155	Q13190	STX5_HUMAN	syntaxin 5	95	Cytoplasmic (Potential).				intracellular protein transport|retrograde transport, endosome to Golgi|vesicle targeting	ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|nucleus|SNARE complex	protein N-terminus binding|SNAP receptor activity			ovary(1)|breast(1)	2						TGGCCATGAGGGTGAATTCAC	0.483													41	44	---	---	---	---	PASS	A	62595044	A	A	62595044	2	1	24	1	0	0	0	0	0	0	0	1	15347	1219	43	3		3	STX5	11	62595044	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	5514396	62595044	72411472	146	10766										
TECTA	7007	broad.mit.edu	37	chr11	121008472	121008472	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cctgtactactgccaagcccGcaccgacgcctcctgcatcg	8	19	0	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr11:121008472G>T	uc010rzo.1	+	10	3284	c.3284G>T	c.(3283-3285)CGC>CTC	p.R1095L		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1095					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TGCCAAGCCCGCACCGACGCC	0.577													20	30	---	---	---	---	PASS	T	121008472	T	T	121008472	3	4	24	1	0	0	0	0	1	0	0	0	15744	1087	38	1	3322	1	TECTA	11	121008472	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	58413428	121008472	13998044	147	10767										
PKNOX2	63876	broad.mit.edu	37	chr11	125267941	125267941	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	actcccccaaccagccctccAtcaaccttcactcacaggta	3	20	3	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr11:125267941A>G	uc001qbu.2	+	7	885	c.571A>G	c.(571-573)ATC>GTC	p.I191V	PKNOX2_uc010saz.1_Missense_Mutation_p.I162V|PKNOX2_uc010sba.1_Missense_Mutation_p.I162V|PKNOX2_uc010sbb.1_Missense_Mutation_p.I127V	NM_022062	NP_071345	Q96KN3	PKNX2_HUMAN	PBX/knotted 1 homeobox 2	191						nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(109;0.00234)|all_lung(97;0.0191)|Lung NSC(97;0.0196)|Medulloblastoma(222;0.0447)|all_neural(223;0.116)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.117)		CCAGCCCTCCATCAACCTTCA	0.572													59	47	---	---	---	---	PASS	G	125267941	G	G	125267941	3	3	24	1	0	0	0	0	1	0	0	0	11983	217	8	5	585	5	PKNOX2	11	125267941	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	4259469	125267941	9738575	148	10768										
KDM5A	5927	broad.mit.edu	37	chr12	441100	441100	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cagcacactgattggtcctgTacacctaaatgcaaattggg	9	10	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr12:441100T>C	uc001qif.1	-	13	2021	c.1658A>G	c.(1657-1659)TAC>TGC	p.Y553C	KDM5A_uc001qie.1_Missense_Mutation_p.Y553C|KDM5A_uc010sdn.1_Missense_Mutation_p.Y512C|KDM5A_uc010sdo.1_Missense_Mutation_p.Y172C	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	553	JmjC.				chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						ATTGGTCCTGTACACCTAAAT	0.373			T 	NUP98	AML								27	46	---	---	---	---	PASS	C	441100	C	C	441100	3	2	24	1	0	0	0	0	1	0	0	0	8133	1638	57	5	3478	5	KDM5A	12	441100	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08		441100	133410795	149	10769										
KIAA0528	9847	broad.mit.edu	37	chr12	22659657	22659657	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gaacataccaggattgtggaTacgatccaaaagcttcacag	9	9	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr12:22659657T>A	uc001rfq.2	-	10	1363	c.1135A>T	c.(1135-1137)ATC>TTC	p.I379F	KIAA0528_uc010sir.1_Missense_Mutation_p.I172F|KIAA0528_uc010sis.1_Missense_Mutation_p.I379F|KIAA0528_uc010sit.1_Missense_Mutation_p.I381F|KIAA0528_uc010siu.1_Missense_Mutation_p.I379F|KIAA0528_uc001rfr.2_Missense_Mutation_p.I370F|KIAA0528_uc009ziy.1_Missense_Mutation_p.I381F	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	379							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						GGATTGTGGATACGATCCAAA	0.338													60	112	---	---	---	---	PASS	A	22659657	A	A	22659657	3	1	24	1	0	0	0	0	1	0	0	0	8182	1406	49	5	1931	5	KIAA0528	12	22659657	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	22218557	22659657	111192238	150	10770										
KIAA0528	9847	broad.mit.edu	37	chr12	22676435	22676435	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ttaatttatccagagtacacGccgttcctatggctcgcacc	7	13	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr12:22676435G>A	uc001rfq.2	-	7	953	c.725C>T	c.(724-726)GCG>GTG	p.A242V	KIAA0528_uc010sir.1_Missense_Mutation_p.A44V|KIAA0528_uc010sis.1_Missense_Mutation_p.A242V|KIAA0528_uc010sit.1_Missense_Mutation_p.A242V|KIAA0528_uc010siu.1_Missense_Mutation_p.A242V|KIAA0528_uc001rfr.2_Missense_Mutation_p.A242V|KIAA0528_uc009ziy.1_Missense_Mutation_p.A242V	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	242							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						CAGAGTACACGCCGTTCCTAT	0.438													13	60	---	---	---	---	PASS	A	22676435	A	A	22676435	3	1	24	1	0	0	0	0	1	0	0	0	8182	1087	38	1	2353	1	KIAA0528	12	22676435	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	16778	22676435	111175460	151	10771										
MYO1A	4640	broad.mit.edu	37	chr12	57437912	57437912	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gtacagccctgaagctggagGcgtcgtccatgccatccact	11	14	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr12:57437912G>C	uc001smw.3	-	9	965	c.722C>G	c.(721-723)GCC>GGC	p.A241G	MYO1A_uc010sqz.1_Missense_Mutation_p.A79G|MYO1A_uc009zpd.2_Missense_Mutation_p.A241G	NM_005379	NP_005370	Q9UBC5	MYO1A_HUMAN	myosin IA	241	Myosin head-like.				sensory perception of sound|vesicle localization	brush border|cortical actin cytoskeleton|filamentous actin|lateral plasma membrane|microvillus|myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|urinary_tract(1)	7						GAAGCTGGAGGCGTCGTCCAT	0.572													41	42	---	---	---	---	PASS	C	57437912	C	C	57437912	3	2	24	1	0	0	0	0	1	0	0	0	10068	1203	42	4	2489	4	MYO1A	12	57437912	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	34761477	57437912	76413983	152	10772										
NAV3	89795	broad.mit.edu	37	chr12	78510561	78510561	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cttgcctttagctgggatgaCagcagttcagtgagcagtgg	14	8	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr12:78510561C>T	uc001syp.2	+	13	2819	c.2646C>T	c.(2644-2646)GAC>GAT	p.D882D	NAV3_uc001syo.2_Silent_p.D882D|NAV3_uc010sub.1_Silent_p.D382D|NAV3_uc009zsf.2_5'Flank	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	882						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GCTGGGATGACAGCAGTTCAG	0.453										HNSCC(70;0.22)			42	51	---	---	---	---	PASS	T	78510561	T	T	78510561	2	4	24	1	0	0	0	0	0	0	0	1	10185	477	17	3		3	NAV3	12	78510561	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	21072649	78510561	55341334	153	10773										
RASSF9	9182	broad.mit.edu	37	chr12	86198647	86198647	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aacctcagattccttcgctcTgttttcctttaactggcacc	5	14	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr12:86198647T>C	uc001taf.1	-	2	1480	c.1141A>G	c.(1141-1143)AGA>GGA	p.R381G		NM_005447	NP_005438	O75901	RASF9_HUMAN	Ras association (RalGDS/AF-6) domain family	381					endosome transport|protein targeting|signal transduction	cytosol|endosome|trans-Golgi network transport vesicle membrane	protein binding|transporter activity			ovary(1)	1						TCCTTCGCTCTGTTTTCCTTT	0.423													120	127	---	---	---	---	PASS	C	86198647	C	C	86198647	3	2	24	1	0	0	0	0	1	0	0	0	13093	1588	55	5	170	5	RASSF9	12	86198647	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	7688086	86198647	47653248	154	10774										
KCTD10	83892	broad.mit.edu	37	chr12	109894110	109894110	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgtttttcaacatattgtcgTcagaattgctgcaaaagagc	8	7	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr12:109894110T>C	uc001toi.1	-	6	624	c.536A>G	c.(535-537)GAC>GGC	p.D179G	KCTD10_uc001toh.1_RNA|KCTD10_uc009zvi.1_Intron|KCTD10_uc001toj.1_Missense_Mutation_p.D188G|KCTD10_uc001tok.1_5'UTR	NM_031954	NP_114160	Q9H3F6	BACD3_HUMAN	potassium channel tetramerisation domain	179					proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0						CATATTGTCGTCAGAATTGCT	0.313													20	74	---	---	---	---	PASS	C	109894110	C	C	109894110	3	2	24	1	0	0	0	0	1	0	0	0	8097	1667	58	5	413	5	KCTD10	12	109894110	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	23695463	109894110	23957785	155	10775										
FRY	10129	broad.mit.edu	37	chr13	32841387	32841387	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgccgcctttcagcccgcagCctgtgacgatgccgaggagg	14	14	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr13:32841387C>A	uc001utx.2	+	55	8523	c.8027C>A	c.(8026-8028)GCC>GAC	p.A2676D	FRY_uc010tdw.1_RNA|FRY_uc001uty.2_Missense_Mutation_p.A231D|FRY_uc001utz.2_Missense_Mutation_p.A201D|FRY_uc010tdx.1_Missense_Mutation_p.A46D	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2676					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CAGCCCGCAGCCTGTGACGAT	0.557													34	134	---	---	---	---	PASS	A	32841387	A	A	32841387	3	1	24	1	0	0	0	0	1	0	0	0	6063	739	26	3	8245	3	FRY	13	32841387	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08		32841387	82328491	156	10776										
ATP7B	540	broad.mit.edu	37	chr13	52535998	52535998	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tatttccatcttgtggtccaAgtgatgagcgttggggtttc	12	7	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr13:52535998A>G	uc001vfw.2	-	6	2078	c.1921T>C	c.(1921-1923)TTG>CTG	p.L641L	ATP7B_uc010adv.2_Intron|ATP7B_uc001vfx.2_Intron|ATP7B_uc001vfy.2_Silent_p.L530L|ATP7B_uc010tgt.1_Silent_p.L641L|ATP7B_uc010tgu.1_Silent_p.L641L|ATP7B_uc010tgv.1_Silent_p.L641L|ATP7B_uc001vfv.2_5'Flank|ATP7B_uc010tgs.1_5'UTR|ATP7B_uc010tgw.1_Intron	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	641	Cytoplasmic (Potential).		L -> S (in WD).		ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		TTGTGGTCCAAGTGATGAGCG	0.478									Wilson_disease				101	68	---	---	---	---	PASS	G	52535998	G	G	52535998	2	3	24	1	0	0	0	0	0	0	0	1	1191	69	3	5		5	ATP7B	13	52535998	Silent	SNP	A	TCGA-21-1081-01A-01D-1521-08	19694611	52535998	62633880	157	10777										
ATP11A	23250	broad.mit.edu	37	chr13	113526056	113526056	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tttccccaaacagatatttgGaaactggacgtttggaacgc	9	9	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr13:113526056G>A	uc001vsi.3	+	26	3087	c.2999G>A	c.(2998-3000)GGA>GAA	p.G1000E	ATP11A_uc001vsj.3_Missense_Mutation_p.G1000E|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	1000	Extracellular (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				CAGATATTTGGAAACTGGACG	0.408													55	847	---	---	---	---	PASS	A	113526056	A	A	113526056	3	1	24	1	0	0	0	0	1	0	0	0	1119	1174	41	2	3101	2	ATP11A	13	113526056	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	60990058	113526056	1643822	158	10778										
POLE2	5427	broad.mit.edu	37	chr14	50117145	50117145	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gtcagatgtccttgggataaGatagtctttacaaactacaa	8	7	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr14:50117145G>C	uc001wwu.2	-	17	1349	c.1335C>G	c.(1333-1335)ATC>ATG	p.I445M	SDCCAG1_uc010anj.1_Intron|POLE2_uc010ann.2_Missense_Mutation_p.I159M|POLE2_uc001wwv.2_RNA|POLE2_uc010ano.2_Missense_Mutation_p.I160M	NM_002692	NP_002683	P56282	DPOE2_HUMAN	DNA-directed DNA polymerase epsilon 2	445					DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	DNA binding|DNA-directed DNA polymerase activity			ovary(1)|skin(1)	2	all_epithelial(31;0.0021)|Breast(41;0.0124)					CTTGGGATAAGATAGTCTTTA	0.358													24	61	---	---	---	---	PASS	C	50117145	C	C	50117145	3	2	24	1	0	0	0	0	1	0	0	0	12197	932	33	2	260	2	POLE2	14	50117145	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08		50117145	57232395	159	10779										
SYNE2	23224	broad.mit.edu	37	chr14	64465690	64465690	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aaaacaacaaattcaggattActtctgatttctctagtgaa	5	7	3	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr14:64465690A>G	uc001xgm.2	+	27	3642	c.3412A>G	c.(3412-3414)ACT>GCT	p.T1138A	SYNE2_uc001xgl.2_Missense_Mutation_p.T1138A	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	1138	Cytoplasmic (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)		ATTCAGGATTACTTCTGATTT	0.338													63	64	---	---	---	---	PASS	G	64465690	G	G	64465690	3	3	24	1	0	0	0	0	1	0	0	0	15443	391	14	5	3514	5	SYNE2	14	64465690	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	14348545	64465690	42883850	160	10780										
TECPR2	9895	broad.mit.edu	37	chr14	102910044	102910044	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ggactgtccctacccgctgtCccagatcacagcccggaaca	9	17	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr14:102910044C>T	uc001ylw.1	+	12	2961	c.2813C>T	c.(2812-2814)TCC>TTC	p.S938F	TECPR2_uc010awl.2_Missense_Mutation_p.S938F|TECPR2_uc010txx.1_Missense_Mutation_p.S101F	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	938							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						TACCCGCTGTCCCAGATCACA	0.622													47	71	---	---	---	---	PASS	T	102910044	T	T	102910044	3	4	24	1	0	0	0	0	1	0	0	0	15741	855	30	2	2855	2	TECPR2	14	102910044	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	38444354	102910044	4439496	161	10781										
SLC12A1	6557	broad.mit.edu	37	chr15	48527109	48527109	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aaaactttgggccacgcttcAcaaagggtgaaggcttcttc	10	10	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr15:48527109A>T	uc001zwn.3	+	9	1339	c.1123A>T	c.(1123-1125)ACA>TCA	p.T375S	SLC12A1_uc010uew.1_Missense_Mutation_p.T181S|SLC12A1_uc010bem.2_Missense_Mutation_p.T375S|SLC12A1_uc010uex.1_Missense_Mutation_p.T375S|SLC12A1_uc001zwq.3_Missense_Mutation_p.T146S|SLC12A1_uc001zwr.3_Missense_Mutation_p.T102S	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	375					potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	GCCACGCTTCACAAAGGGTGA	0.398													64	57	---	---	---	---	PASS	T	48527109	T	T	48527109	3	4	24	1	0	0	0	0	1	0	0	0	14382	159	6	5	1253	5	SLC12A1	15	48527109	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08		48527109	54004283	162	10782										
TLE3	7090	broad.mit.edu	37	chr15	70344823	70344823	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgctgctctccatgcccacaGccagccactccccagtgggg	10	18	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr15:70344823G>T	uc002asm.2	-	18	3143	c.2024C>A	c.(2023-2025)GCT>GAT	p.A675D	TLE3_uc002ask.2_Missense_Mutation_p.A602D|TLE3_uc002asl.2_Missense_Mutation_p.A675D|TLE3_uc010ukd.1_Missense_Mutation_p.A665D|TLE3_uc010bik.1_Missense_Mutation_p.A256D|TLE3_uc010bil.1_Missense_Mutation_p.A672D|TLE3_uc002asn.2_Missense_Mutation_p.A663D|TLE3_uc002asp.2_Missense_Mutation_p.A667D|TLE3_uc002aso.2_Missense_Mutation_p.A670D	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	675	WD 5.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						CATGCCCACAGCCAGCCACTC	0.617													17	9	---	---	---	---	PASS	T	70344823	T	T	70344823	3	4	24	1	0	0	0	0	1	0	0	0	15937	971	34	3	306	3	TLE3	15	70344823	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	21817714	70344823	32186569	163	10783										
RASGRF1	5923	broad.mit.edu	37	chr15	79339153	79339153	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ttcttggagctggcggccatCcgcagcgggcgcaggaaatt	15	11	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr15:79339153C>G	uc002beq.2	-	5	1188	c.813G>C	c.(811-813)CGG>CGC	p.R271R	RASGRF1_uc002bep.2_Silent_p.R271R|RASGRF1_uc010blm.1_Silent_p.R193R|RASGRF1_uc002ber.3_Silent_p.R271R	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	271	DH.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						TGGCGGCCATCCGCAGCGGGC	0.592													81	65	---	---	---	---	PASS	G	79339153	G	G	79339153	2	3	24	1	0	0	0	0	0	0	0	1	13072	842	30	2		2	RASGRF1	15	79339153	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	8994330	79339153	23192239	164	10784										
RPS2	6187	broad.mit.edu	37	chr16	2012182	2012182	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gaggtggtcagtgaactcctGatagggagacttggtgaata	15	5	1	4			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr16:2012182G>A	uc002cnn.2	-	6	987	c.799C>T	c.(799-801)CAG>TAG	p.Q267*	RPS2_uc010bsa.1_RNA|RPS2_uc002cnl.2_Nonsense_Mutation_p.Q209*|RPS2_uc002cnm.2_RNA|RPS2_uc002cno.2_Nonsense_Mutation_p.Q267*|SNHG9_uc002cnr.2_5'Flank	NM_002952	NP_002943	P15880	RS2_HUMAN	ribosomal protein S2	267					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleoplasm	fibroblast growth factor 1 binding|fibroblast growth factor 3 binding|RNA binding|structural constituent of ribosome				0						GTGAACTCCTGATAGGGAGAC	0.512													39	75	---	---	---	---	PASS	A	2012182	A	A	2012182	4	1	24	1	0	0	0	0	0	1	0	0	13631	1299	45	2	86	2	RPS2	16	2012182	Nonsense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08		2012182	88342571	165	10785										
PKD1	5310	broad.mit.edu	37	chr16	2142539	2142539	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agctctgggctggactggttCccgtggacgtagggcagcag	17	10	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr16:2142539C>T	uc002cos.1	-	39	11420	c.11211G>A	c.(11209-11211)GGG>GGA	p.G3737G	PKD1_uc002cot.1_Silent_p.G3736G|MIR1225_hsa-mir-1225|MI0006311_5'Flank|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	3737	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						TGGACTGGTTCCCGTGGACGT	0.662													14	20	---	---	---	---	PASS	T	2142539	T	T	2142539	2	4	24	1	0	0	0	0	0	0	0	1	11963	842	30	2		2	PKD1	16	2142539	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	130357	2142539	88212214	166	10786										
PRSS22	64063	broad.mit.edu	37	chr16	2903228	2903228	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cgcagagaggctgatgtagaCcccgggcctgttgcgctcgg	16	12	0	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr16:2903228C>A	uc002cry.1	-	6	886	c.820G>T	c.(820-822)GTC>TTC	p.V274F	PRSS22_uc002crz.1_Missense_Mutation_p.V164F	NM_022119	NP_071402	Q9GZN4	BSSP4_HUMAN	protease, serine, 22 precursor	274	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			central_nervous_system(1)	1						CTGATGTAGACCCCGGGCCTG	0.726													19	65	---	---	---	---	PASS	A	2903228	A	A	2903228	3	1	24	1	0	0	0	0	1	0	0	0	12619	507	18	3	137	3	PRSS22	16	2903228	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	760689	2903228	87451525	167	10787										
BTBD12	84464	broad.mit.edu	37	chr16	3641121	3641121	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cacgttttcttgatcttcttCgtggtccttggatttcaaca	7	10	4	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr16:3641121C>G	uc002cvp.2	-	12	3145	c.2518G>C	c.(2518-2520)GAA>CAA	p.E840Q		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	840	Potential.|Interaction with PLK1 and TERF2-TERF2IP.|Glu-rich.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TGATCTTCTTCGTGGTCCTTG	0.468								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				81	177	---	---	---	---	PASS	G	3641121	G	G	3641121	3	3	24	1	0	0	0	0	1	0	0	0	1540	893	31	2	3002	2	BTBD12	16	3641121	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	737893	3641121	86713632	168	10788										
CREBBP	1387	broad.mit.edu	37	chr16	3795299	3795299	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctgaaggccaaatgatgtcaTagtgcagaacgcaaatctga	10	8	2	4			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr16:3795299T>C	uc002cvv.2	-	22	4097	c.3893A>G	c.(3892-3894)TAT>TGT	p.Y1298C	CREBBP_uc002cvw.2_Missense_Mutation_p.Y1260C	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1298	Cys/His-rich.				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)		AATGATGTCATAGTGCAGAAC	0.537			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				15	56	---	---	---	---	PASS	C	3795299	C	C	3795299	3	2	24	1	0	0	0	0	1	0	0	0	3861	1406	49	5	3475	5	CREBBP	16	3795299	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	154178	3795299	86559454	169	10789										
CREBBP	1387	broad.mit.edu	37	chr16	3820624	3820624	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cggctgttgctgcgatgactGaggggtagccacagacgggg	18	9	0	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr16:3820624G>A	uc002cvv.2	-	14	3031	c.2827C>T	c.(2827-2829)CAG>TAG	p.Q943*	CREBBP_uc002cvw.2_Nonsense_Mutation_p.Q905*	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	943					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)		TGCGATGACTGAGGGGTAGCC	0.622			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				96	129	---	---	---	---	PASS	A	3820624	A	A	3820624	4	1	24	1	0	0	0	0	0	1	0	0	3861	1299	45	2	4573	2	CREBBP	16	3820624	Nonsense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	25325	3820624	86534129	170	10790										
ABCC1	4363	broad.mit.edu	37	chr16	16146661	16146661	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gctgtgatggcgatgaagacCaagacgtatcaggtaaggca	14	7	1	4			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr16:16146661C>T	uc010bvi.2	+	11	1636	c.1461C>T	c.(1459-1461)ACC>ACT	p.T487T	ABCC1_uc010bvj.2_Silent_p.T487T|ABCC1_uc010bvk.2_Silent_p.T487T|ABCC1_uc010bvl.2_Silent_p.T487T|ABCC1_uc010bvm.2_Silent_p.T487T|ABCC1_uc002del.3_Silent_p.T371T|ABCC1_uc010bvn.2_Silent_p.T350T	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	487	Cytoplasmic.|ABC transmembrane type-1 1.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	CGATGAAGACCAAGACGTATC	0.572													21	65	---	---	---	---	PASS	T	16146661	T	T	16146661	2	4	24	1	0	0	0	0	0	0	0	1	49	581	21	3		3	ABCC1	16	16146661	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	12326037	16146661	74208092	171	10791										
CRYM	1428	broad.mit.edu	37	chr16	21279036	21279036	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	caaacttctctgcattttctTtggtgcggttccatatcctc	6	12	2	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr16:21279036T>A	uc002dik.2	-	5	597	c.512A>T	c.(511-513)AAA>ATA	p.K171I	CRYM_uc010bwq.1_RNA|CRYM_uc002dil.2_Missense_Mutation_p.K129I|CRYM_uc002dim.2_Missense_Mutation_p.K171I	NM_001888	NP_001879	Q14894	CRYM_HUMAN	crystallin, mu isoform 1	171					negative regulation of transcription from RNA polymerase II promoter|sensory perception of sound|thyroid hormone transport	cytoplasm|nucleus|plasma membrane	NADP binding|protein homodimerization activity|thyroid hormone binding|transcription corepressor activity				0				GBM - Glioblastoma multiforme(48;0.0573)	Levothyroxine(DB00451)	TGCATTTTCTTTGGTGCGGTT	0.507													52	92	---	---	---	---	PASS	A	21279036	A	A	21279036	3	1	24	1	0	0	0	0	1	0	0	0	3921	1841	64	5	448	5	CRYM	16	21279036	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	5132375	21279036	69075717	172	10792										
LDHD	197257	broad.mit.edu	37	chr16	75146775	75146775	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tcctccttggtctgcaccacGatctccggcagccgggagat	11	15	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr16:75146775G>T	uc002fdm.2	-	9	1250	c.1203C>A	c.(1201-1203)ATC>ATA	p.I401I	LDHD_uc002fdn.2_Silent_p.I378I	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	401							D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						TCTGCACCACGATCTCCGGCA	0.617													20	24	---	---	---	---	PASS	T	75146775	T	T	75146775	2	4	24	1	0	0	0	0	0	0	0	1	8703	1048	37	2		2	LDHD	16	75146775	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	53867739	75146775	15207978	173	10793										
C17orf81	23587	broad.mit.edu	37	chr17	7160277	7160277	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tcagcagccttgctcagactGaggtgaccctgggcggtacc	13	13	2	3	rs3190365		TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr17:7160277G>A	uc002gfg.1	+	6	666	c.559G>A	c.(559-561)GAG>AAG	p.E187K	C17orf81_uc002gfj.2_Missense_Mutation_p.E187K|C17orf81_uc010cmb.2_Missense_Mutation_p.E187K|C17orf81_uc002gfh.1_Missense_Mutation_p.E187K|C17orf81_uc002gfi.1_Missense_Mutation_p.E187K|C17orf81_uc002gfl.1_Missense_Mutation_p.E187K	NM_203415	NP_981960	Q8TE02	DERP6_HUMAN	S-phase 2 protein isoform 4	187					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding				0						TGCTCAGACTGAGGTGACCCT	0.612													30	17	---	---	---	---	PASS	A	7160277	A	A	7160277	3	1	24	1	0	0	0	0	1	0	0	0	1886	1291	45	2	577	2	C17orf81	17	7160277	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08		7160277	74034933	174	10794										
MYH1	4619	broad.mit.edu	37	chr17	10401181	10401181	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	caagggaagcacatttggcaTtcacagcttctacatgttcc	8	11	2	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr17:10401181T>A	uc002gmo.2	-	31	4329	c.4235A>T	c.(4234-4236)AAT>ATT	p.N1412I	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1412	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						ACATTTGGCATTCACAGCTTC	0.483													54	46	---	---	---	---	PASS	A	10401181	A	A	10401181	3	1	24	1	0	0	0	0	1	0	0	0	10029	1493	52	5	1624	5	MYH1	17	10401181	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	3240904	10401181	70794029	175	10795										
MYH2	4620	broad.mit.edu	37	chr17	10427843	10427843	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agctcctgttctgcgattttTctgctcctctctgtctgttc	7	13	4	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr17:10427843T>C	uc010coi.2	-	35	5243	c.5115A>G	c.(5113-5115)AGA>AGG	p.R1705R	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.R1705R|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1705	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTGCGATTTTTCTGCTCCTCT	0.542													72	82	---	---	---	---	PASS	C	10427843	C	C	10427843	2	2	24	1	0	0	0	0	0	0	0	1	10035	1780	62	5		5	MYH2	17	10427843	Silent	SNP	T	TCGA-21-1081-01A-01D-1521-08	26662	10427843	70767367	176	10796										
FLII	2314	broad.mit.edu	37	chr17	18149623	18149623	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tcctcccccagccaggcaccGggtgcagagggcgctgccgt	14	17	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr17:18149623G>A	uc002gsr.1	-	24	3256	c.3205C>T	c.(3205-3207)CGG>TGG	p.R1069W	FLII_uc002gsq.1_Missense_Mutation_p.R940W|FLII_uc010cpy.1_Missense_Mutation_p.R1058W|FLII_uc010vxn.1_Missense_Mutation_p.R1038W|FLII_uc010vxo.1_Missense_Mutation_p.R1014W	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	1069	Gelsolin-like 4.				multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					GCCAGGCACCGGGTGCAGAGG	0.652													5	89	---	---	---	---	PASS	A	18149623	A	A	18149623	3	1	24	1	0	0	0	0	1	0	0	0	5925	1130	39	1	632	1	FLII	17	18149623	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	7721780	18149623	63045587	177	10797										
ITGB4	3691	broad.mit.edu	37	chr17	73732371	73732371	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgccccctcctaccccagggCatctgtaatggacgtggcca	10	16	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr17:73732371C>T	uc002jpg.2	+	15	1951	c.1764C>T	c.(1762-1764)GGC>GGT	p.G588G	ITGB4_uc002jph.2_Silent_p.G588G|ITGB4_uc010dgo.2_Silent_p.G588G|ITGB4_uc002jpi.3_Silent_p.G588G|ITGB4_uc010dgp.1_Silent_p.G588G|ITGB4_uc002jpj.2_Silent_p.G588G|ITGB4_uc010wsh.1_Silent_p.G143G	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	588	Cysteine-rich tandem repeats.|Extracellular (Potential).|IV.				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			TACCCCAGGGCATCTGTAATG	0.627													68	47	---	---	---	---	PASS	T	73732371	T	T	73732371	2	4	24	1	0	0	0	0	0	0	0	1	7897	697	25	3		3	ITGB4	17	73732371	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	55582748	73732371	7462839	178	10798										
LAMA1	284217	broad.mit.edu	37	chr18	6980547	6980547	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aattgctctaagtatcaagaGtgattcattggtttgcctgg	10	6	3	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr18:6980547G>A	uc002knm.2	-	42	6074	c.5980C>T	c.(5980-5982)CTC>TTC	p.L1994F	LAMA1_uc010wzj.1_Missense_Mutation_p.L1470F	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1994	Domain II and I.				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)	AGTATCAAGAGTGATTCATTG	0.353													15	68	---	---	---	---	PASS	A	6980547	A	A	6980547	3	1	24	1	0	0	0	0	1	0	0	0	8605	1029	36	3	3335	3	LAMA1	18	6980547	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08		6980547	71096701	179	10799										
PLIN4	729359	broad.mit.edu	37	chr19	4511803	4511803	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ttggtaccagttaggacagtCttggtggtgtccacactggt	13	8	1	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:4511803C>G	uc002mar.1	-	3	2127	c.2127G>C	c.(2125-2127)AAG>AAC	p.K709N	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	709	19.|27 X 33 AA approximate tandem repeat.					lipid particle|plasma membrane					0						TTAGGACAGTCTTGGTGGTGT	0.592													71	444	---	---	---	---	PASS	G	4511803	G	G	4511803	3	3	24	1	0	0	0	0	1	0	0	0	12092	912	32	2	1962	2	PLIN4	19	4511803	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08		4511803	54617180	180	10800										
ZNF560	147741	broad.mit.edu	37	chr19	9577783	9577783	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tcgtaaatgtttagtaagatCtgagcgttctgtgaaggctt	11	5	2	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:9577783C>G	uc002mlp.1	-	10	2050	c.1840G>C	c.(1840-1842)GAT>CAT	p.D614H	ZNF560_uc010dwr.1_Missense_Mutation_p.D508H	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	614	C2H2-type 10.				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						TTAGTAAGATCTGAGCGTTCT	0.408													53	160	---	---	---	---	PASS	G	9577783	G	G	9577783	3	3	24	1	0	0	0	0	1	0	0	0	17988	913	32	2	536	2	ZNF560	19	9577783	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	5065980	9577783	49551200	181	10801										
ZSWIM4	65249	broad.mit.edu	37	chr19	13928130	13928130	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgcagggcgctcctggaggcCtgtcgtctggaggaggagac	18	10	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:13928130C>T	uc002mxh.1	+	7	1470	c.1281C>T	c.(1279-1281)GCC>GCT	p.A427A	ZSWIM4_uc010xng.1_Silent_p.A350A	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	427							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			TCCTGGAGGCCTGTCGTCTGG	0.642													49	64	---	---	---	---	PASS	T	13928130	T	T	13928130	2	4	24	1	0	0	0	0	0	0	0	1	18240	668	24	3		3	ZSWIM4	19	13928130	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	4350347	13928130	45200853	182	10802										
PGLYRP2	114770	broad.mit.edu	37	chr19	15587093	15587093	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cctgcgcccttgcagccctgCctccagccccgccagcagag	10	21	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:15587093C>T	uc002nbf.3	-	2	521	c.388G>A	c.(388-390)GCA>ACA	p.A130T	PGLYRP2_uc002nbg.3_Missense_Mutation_p.A130T	NM_052890	NP_443122	Q96PD5	PGRP2_HUMAN	peptidoglycan recognition protein 2 precursor	130					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptide amidation|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(3)	3						TGCAGCCCTGCCTCCAGCCCC	0.612													32	84	---	---	---	---	PASS	T	15587093	T	T	15587093	3	4	24	1	0	0	0	0	1	0	0	0	11794	739	26	3	1358	3	PGLYRP2	19	15587093	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	1658963	15587093	43541890	183	10803										
ZNF430	80264	broad.mit.edu	37	chr19	21216941	21216941	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	atcacctgtctagagcaaggAaaagagccctggaatatgaa	10	8	2	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:21216941A>T	uc002npj.2	+	4	383	c.273A>T	c.(271-273)GGA>GGT	p.G91G	ZNF430_uc002npk.2_Silent_p.G90G	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	91	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						TAGAGCAAGGAAAAGAGCCCT	0.408													56	61	---	---	---	---	PASS	T	21216941	T	T	21216941	2	4	24	1	0	0	0	0	0	0	0	1	17901	233	9	5		5	ZNF430	19	21216941	Silent	SNP	A	TCGA-21-1081-01A-01D-1521-08	5629848	21216941	37912042	184	10804										
ANKRD27	84079	broad.mit.edu	37	chr19	33113388	33113388	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctgttctggatctcggtggaCgctccgttctgcagcaatgt	12	11	3	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:33113388C>T	uc002ntn.1	-	18	1923	c.1767G>A	c.(1765-1767)GCG>GCA	p.A589A		NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	589	ANK 5.				early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					TCTCGGTGGACGCTCCGTTCT	0.527													237	359	---	---	---	---	PASS	T	33113388	T	T	33113388	2	4	24	1	0	0	0	0	0	0	0	1	655	523	19	1		1	ANKRD27	19	33113388	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	11896447	33113388	26015595	185	10805										
SLC7A10	56301	broad.mit.edu	37	chr19	33703303	33703303	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ccaggtgtcccacggagggcGtcatccagaaagcaaaggca	13	12	1	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:33703303G>A	uc002num.2	-	5	830	c.683C>T	c.(682-684)ACG>ATG	p.T228M	SLC7A10_uc002nul.2_5'Flank|SLC7A10_uc010xrq.1_Missense_Mutation_p.T201M	NM_019849	NP_062823	Q9NS82	AAA1_HUMAN	solute carrier family 7, member 10	228					blood coagulation|cellular nitrogen compound metabolic process|ion transport|leukocyte migration	integral to plasma membrane	L-serine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(110;0.137)					CACGGAGGGCGTCATCCAGAA	0.627													38	68	---	---	---	---	PASS	A	33703303	A	A	33703303	3	1	24	1	0	0	0	0	1	0	0	0	14693	1145	40	1	916	1	SLC7A10	19	33703303	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	589915	33703303	25425680	186	10806										
WDR62	284403	broad.mit.edu	37	chr19	36557157	36557157	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gtaacgaccccaccttccctAgaatgggcataggcctgctg	10	14	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:36557157A>G	uc002odc.2	+	5	482	c.391_splice	c.e5-2	p.N131_splice	WDR62_uc002odd.2_Splice_Site_p.N131_splice|WDR62_uc002odb.2_Splice_Site_p.N131_splice	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2						cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CACCTTCCCTAGAATGGGCAT	0.582													34	98	---	---	---	---	PASS	G	36557157	G	G	36557157	5	3	24	1	0	0	0	0	0	0	1	0	17310	434	15	5	407	5	WDR62	19	36557157	Splice_Site	SNP	A	TCGA-21-1081-01A-01D-1521-08	2853854	36557157	22571826	187	10807										
ZNF570	148268	broad.mit.edu	37	chr19	37975983	37975983	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gttactgtggatcccttgccCaacatcagagaattcatact	7	11	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:37975983C>G	uc002ogk.1	+	5	1988	c.1459C>G	c.(1459-1461)CAA>GAA	p.Q487E	ZNF570_uc010efl.1_Missense_Mutation_p.Q543E|ZNF570_uc010xtr.1_Missense_Mutation_p.Q284E	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	487	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ATCCCTTGCCCAACATCAGAG	0.433													33	163	---	---	---	---	PASS	G	37975983	G	G	37975983	3	3	24	1	0	0	0	0	1	0	0	0	17999	595	21	4	1473	4	ZNF570	19	37975983	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	1418826	37975983	21153000	188	10808										
PSG8	440533	broad.mit.edu	37	chr19	43262355	43262355	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgcgtccggagtctcaggatCacaggttaagctcacagcct	11	12	3	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:43262355C>T	uc002ouo.2	-	3	606	c.508G>A	c.(508-510)GAT>AAT	p.D170N	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc010eim.2_RNA|PSG8_uc002oui.2_Missense_Mutation_p.D9N|PSG8_uc002ouh.2_Missense_Mutation_p.D170N|PSG8_uc010ein.2_Missense_Mutation_p.D48N|PSG8_uc002ouj.3_Intron|PSG8_uc002ouk.3_Missense_Mutation_p.D9N|PSG8_uc002oul.3_Missense_Mutation_p.D170N|PSG8_uc002oum.3_Intron|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Intron	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	170	Ig-like C2-type 1.					extracellular region					0		Prostate(69;0.00899)				GTCTCAGGATCACAGGTTAAG	0.532													90	526	---	---	---	---	PASS	T	43262355	T	T	43262355	3	4	24	1	0	0	0	0	1	0	0	0	12661	826	29	2	805	2	PSG8	19	43262355	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	5286372	43262355	15866628	189	10809										
KCNN4	3783	broad.mit.edu	37	chr19	44273660	44273660	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gagactccttcctgcgagtaTgtttgtagaacatccaggct	10	10	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:44273660T>G	uc002oxl.2	-	6	1379	c.983A>C	c.(982-984)CAT>CCT	p.H328P	KCNN4_uc010eiz.2_Intron	NM_002250	NP_002241	O15554	KCNN4_HUMAN	intermediate conductance calcium-activated	328	Calmodulin-binding.				defense response	voltage-gated potassium channel complex	calcium-activated potassium channel activity|calmodulin binding			ovary(2)	2		Prostate(69;0.0352)			Clotrimazole(DB00257)|Halothane(DB01159)|Quinine(DB00468)	CCTGCGAGTATGTTTGTAGAA	0.582													33	204	---	---	---	---	PASS	G	44273660	G	G	44273660	3	3	24	1	0	0	0	0	1	0	0	0	8081	1464	51	5	312	5	KCNN4	19	44273660	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	1011305	44273660	14855323	190	10810										
ZNF765	91661	broad.mit.edu	37	chr19	53912214	53912214	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agagaatccttacaagtgtaAtgagtgtggcaagaccttca	10	7	1	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:53912214A>G	uc010ydx.1	+	6	1733	c.1406A>G	c.(1405-1407)AAT>AGT	p.N469S	ZNF765_uc002qbm.2_Missense_Mutation_p.N469S|ZNF765_uc002qbn.2_Intron	NM_001040185	NP_001035275	Q7L2R6	ZN765_HUMAN	zinc finger protein 765	469	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00379)		TACAAGTGTAATGAGTGTGGC	0.378													53	159	---	---	---	---	PASS	G	53912214	G	G	53912214	3	3	24	1	0	0	0	0	1	0	0	0	18136	101	4	5	1416	5	ZNF765	19	53912214	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	9638554	53912214	5216769	191	10811										
KIR2DL1	3802	broad.mit.edu	37	chr19	55290069	55290069	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgtctcatgttctaggaaacCcttcaaatagttggccttca	7	10	4	0	rs113506642		TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:55290069C>A	uc002qhb.1	+	5	708	c.670C>A	c.(670-672)CCT>ACT	p.P224T	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR3DP1_uc010yfi.1_Intron|KIR2DL1_uc010erz.1_Missense_Mutation_p.P224T	NM_014218	NP_055033	P43626	KI2L1_HUMAN	killer cell immunoglobulin-like receptor, two	224	Extracellular (Potential).				immune response|natural killer cell inhibitory signaling pathway	integral to plasma membrane	protein binding|receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		TCTAGGAAACCCTTCAAATAG	0.498													42	138	---	---	---	---	PASS	A	55290069	A	A	55290069	3	1	24	1	0	0	0	0	1	0	0	0	8316	623	22	3	688	3	KIR2DL1	19	55290069	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	1377855	55290069	3838914	192	10812										
NLRP11	204801	broad.mit.edu	37	chr19	56320484	56320484	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tctcctgtttgcatttagaaGaccaaaaatgaaagtaaaca	6	7	1	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:56320484G>T	uc010ygf.1	-	5	2203	c.1492C>A	c.(1492-1494)CTT>ATT	p.L498I	NLRP11_uc002qlz.2_Missense_Mutation_p.L399I|NLRP11_uc002qmb.2_Missense_Mutation_p.L399I|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	498							ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		GCATTTAGAAGACCAAAAATG	0.418													74	222	---	---	---	---	PASS	T	56320484	T	T	56320484	3	4	24	1	0	0	0	0	1	0	0	0	10473	942	33	2	1641	2	NLRP11	19	56320484	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	1030415	56320484	2808499	193	10813										
NLRP13	126204	broad.mit.edu	37	chr19	56443411	56443411	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gaggtcagattcattgtctgGaagatgccgaggaccacttt	12	8	3	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr19:56443411G>T	uc010ygg.1	-	1	292	c.267C>A	c.(265-267)TTC>TTA	p.F89L		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	89	DAPIN.						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)		TCATTGTCTGGAAGATGCCGA	0.507													72	120	---	---	---	---	PASS	T	56443411	T	T	56443411	3	4	24	1	0	0	0	0	1	0	0	0	10475	1165	41	2	2906	2	NLRP13	19	56443411	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	122927	56443411	2685572	194	10814										
DEFB125	245938	broad.mit.edu	37	chr20	77049	77049	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ccttctcagacagctcttacTcataattaattaacatttac	2	11	3	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr20:77049T>A	uc002wcw.2	+	2	462	c.462T>A	c.(460-462)ACT>ACA	p.T154T		NM_153325	NP_697020	Q8N687	DB125_HUMAN	defensin, beta 125 preproprotein	154					defense response to bacterium	extracellular region				ovary(1)|central_nervous_system(1)|skin(1)	3		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.156)			CAGCTCTTACTCATAATTAAT	0.423													75	411	---	---	---	---	PASS	A	77049	A	A	77049	2	1	24	1	0	0	0	0	0	0	0	1	4411	1538	54	5		5	DEFB125	20	77049	Silent	SNP	T	TCGA-21-1081-01A-01D-1521-08		77049	62948471	195	10815										
MAVS	57506	broad.mit.edu	37	chr20	3842088	3842088	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	atcccctacaacagctgcagAgagaaggagccaagttaccc	9	13	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr20:3842088A>T	uc002wjw.3	+	4	571	c.402A>T	c.(400-402)AGA>AGT	p.R134S	MAVS_uc010zqn.1_Intron|MAVS_uc002wjx.3_5'UTR|MAVS_uc002wjy.3_Intron	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	134	Pro-rich.|Cytoplasmic (Probable).				activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0						ACAGCTGCAGAGAGAAGGAGC	0.627													10	188	---	---	---	---	PASS	T	3842088	T	T	3842088	3	4	24	1	0	0	0	0	1	0	0	0	9338	301	11	5	412	5	MAVS	20	3842088	Missense_Mutation	SNP	A	TCGA-21-1081-01A-01D-1521-08	3765039	3842088	59183432	196	10816										
CDH22	64405	broad.mit.edu	37	chr20	44806640	44806640	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agggcgccggggctgagggaGgcggccatgacaaaggccgt	20	10	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr20:44806640G>A	uc002xrm.2	-	10	2261	c.1860C>T	c.(1858-1860)GCC>GCT	p.A620A	CDH22_uc010ghk.1_Silent_p.A620A	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	620	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				GGCTGAGGGAGGCGGCCATGA	0.647													32	13	---	---	---	---	PASS	A	44806640	A	A	44806640	2	1	24	1	0	0	0	0	0	0	0	1	3107	987	35	3		3	CDH22	20	44806640	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	40964552	44806640	18218880	197	10817										
CYP24A1	1591	broad.mit.edu	37	chr20	52779309	52779309	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agcagcatacaattctttctTtgaaagccgattctggtgat	8	8	3	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr20:52779309T>G	uc002xwv.2	-	7	1335	c.937A>C	c.(937-939)AAG>CAG	p.K313Q	CYP24A1_uc002xwu.1_Missense_Mutation_p.K171Q|CYP24A1_uc002xww.2_Missense_Mutation_p.K313Q	NM_000782	NP_000773	Q07973	CP24A_HUMAN	cytochrome P450 family 24 subfamily A	313					hormone biosynthetic process|osteoblast differentiation|vitamin D catabolic process|vitamin D receptor signaling pathway|xenobiotic metabolic process	mitochondrial inner membrane	1-alpha,25-dihydroxyvitamin D3 24-hydroxylase activity|electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		STAD - Stomach adenocarcinoma(23;0.206)		Calcidiol(DB00146)|Calcitriol(DB00136)|Cholecalciferol(DB00169)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	AATTCTTTCTTTGAAAGCCGA	0.453													58	41	---	---	---	---	PASS	G	52779309	G	G	52779309	3	3	24	1	0	0	0	0	1	0	0	0	4154	1850	64	5	627	5	CYP24A1	20	52779309	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	7972669	52779309	10246211	198	10818										
SLC2A4RG	56731	broad.mit.edu	37	chr20	62373567	62373567	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cggcgatgcagagacacatcCgcctggtgcacctggggtgc	15	13	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr20:62373567C>T	uc002ygq.2	+	5	719	c.664C>T	c.(664-666)CGC>TGC	p.R222C	SLC2A4RG_uc002ygr.2_Missense_Mutation_p.R117C|SLC2A4RG_uc011abj.1_Missense_Mutation_p.R117C|SLC2A4RG_uc002ygs.2_Missense_Mutation_p.R24C|SLC2A4RG_uc002ygt.2_Missense_Mutation_p.R24C	NM_020062	NP_064446	Q9NR83	S2A4R_HUMAN	SLC2A4 regulator	222	C2H2-type.					cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					GAGACACATCCGCCTGGTGCA	0.706													12	6	---	---	---	---	PASS	T	62373567	T	T	62373567	3	4	24	1	0	0	0	0	1	0	0	0	14547	652	23	1	682	1	SLC2A4RG	20	62373567	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	9594258	62373567	651953	199	10819										
ITSN1	6453	broad.mit.edu	37	chr21	35183447	35183447	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ctgcccccaaactggccttgCgtgagacccccgcccctttg	9	19	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr21:35183447C>T	uc002yta.1	+	21	2756	c.2488C>T	c.(2488-2490)CGT>TGT	p.R830C	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_RNA|ITSN1_uc002ysz.2_Missense_Mutation_p.R825C|ITSN1_uc010gmg.2_Missense_Mutation_p.R788C|ITSN1_uc010gmh.2_RNA|ITSN1_uc002ysw.2_Missense_Mutation_p.R830C|ITSN1_uc010gmi.2_Missense_Mutation_p.R793C|ITSN1_uc010gmj.2_Missense_Mutation_p.R709C|ITSN1_uc002ysy.2_Missense_Mutation_p.R825C|ITSN1_uc002ysx.2_Missense_Mutation_p.R788C|ITSN1_uc002ytb.1_Missense_Mutation_p.R825C|ITSN1_uc002ytc.1_Missense_Mutation_p.R825C|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Missense_Mutation_p.R793C|ITSN1_uc010gml.2_RNA|ITSN1_uc002ytj.2_Missense_Mutation_p.R825C|ITSN1_uc010gmm.1_RNA|ITSN1_uc002yte.2_Missense_Mutation_p.R764C|ITSN1_uc002ytf.1_RNA	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	830					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						ACTGGCCTTGCGTGAGACCCC	0.557													55	105	---	---	---	---	PASS	T	35183447	T	T	35183447	3	4	24	1	0	0	0	0	1	0	0	0	7926	768	27	1	2566	1	ITSN1	21	35183447	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08		35183447	12946448	200	10820										
KRTAP12-4	386684	broad.mit.edu	37	chr21	46074476	46074476	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agcaggtgctggggacacagCacggggagccagggcaggcc	19	11	0	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr21:46074476C>T	uc002zfs.1	-	1	101	c.56G>A	c.(55-57)TGC>TAC	p.C19Y	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198698	NP_941971	P60329	KR124_HUMAN	keratin associated protein 12-4	19	15 X 5 AA approximate repeats.					keratin filament				ovary(1)	1						GGGGACACAGCACGGGGAGCC	0.677													10	12	---	---	---	---	PASS	T	46074476	T	T	46074476	3	4	24	1	0	0	0	0	1	0	0	0	8521	710	25	3	286	3	KRTAP12-4	21	46074476	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08	10891029	46074476	2055419	201	10821										
COL18A1	80781	broad.mit.edu	37	chr21	46896339	46896339	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ttggctggaggcagcagcacGgaagattccagaagtgaaga	15	7	0	4			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr21:46896339G>T	uc011afs.1	+	5	2139	c.2118G>T	c.(2116-2118)ACG>ACT	p.T706T	COL18A1_uc002zhg.2_Silent_p.T291T|COL18A1_uc002zhi.2_Silent_p.T471T	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	706	Nonhelical region 1 (NC1).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		GCAGCAGCACGGAAGATTCCA	0.547													23	47	---	---	---	---	PASS	T	46896339	T	T	46896339	2	4	24	1	0	0	0	0	0	0	0	1	3675	1103	39	1		1	COL18A1	21	46896339	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	821863	46896339	1233556	202	10822										
CCDC116	164592	broad.mit.edu	37	chr22	21988525	21988525	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	ggtggagaaggcgactgagcGcatggctgccatgaagacgg	18	8	0	4			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr22:21988525G>T	uc002zve.2	+	3	380	c.287G>T	c.(286-288)CGC>CTC	p.R96L	CCDC116_uc011aih.1_Missense_Mutation_p.R96L	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	96	Potential.									ovary(1)|skin(1)	2	Colorectal(54;0.105)					GCGACTGAGCGCATGGCTGCC	0.632													41	85	---	---	---	---	PASS	T	21988525	T	T	21988525	3	4	24	1	0	0	0	0	1	0	0	0	2753	1087	38	1	293	1	CCDC116	22	21988525	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08		21988525	29316041	203	10823										
SBF1	6305	broad.mit.edu	37	chr22	50897990	50897990	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agcaccgccttggaccgcccGctgcgccagcagaccacggg	13	18	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chr22:50897990G>A	uc003blh.2	-	27	3792	c.3597C>T	c.(3595-3597)AGC>AGT	p.S1199S	SBF1_uc011arx.1_Silent_p.S863S	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1199	Myotubularin phosphatase.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		TGGACCGCCCGCTGCGCCAGC	0.672													34	19	---	---	---	---	PASS	A	50897990	A	A	50897990	2	1	24	1	0	0	0	0	0	0	0	1	13858	1078	38	1		1	SBF1	22	50897990	Silent	SNP	G	TCGA-21-1081-01A-01D-1521-08	28909465	50897990	406576	204	10824										
DHRSX	207063	broad.mit.edu	37	chrX	2161101	2161101	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cgagaagcttcttcgccagaCgggtggcccagaacacgtgc	13	13	1	3			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chrX:2161101C>T	uc004cqf.3	-	6	816	c.767G>A	c.(766-768)CGT>CAT	p.R256H		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	256							binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				CTTCGCCAGACGGGTGGCCCA	0.552													40	164	---	---	---	---	PASS	T	2161101	T	T	2161101	3	4	24	1	0	0	0	0	1	0	0	0	4499	536	19	1	233	1	DHRSX	23	2161101	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08		2161101	153109459	205	10825										
HCCS	3052	broad.mit.edu	37	chrX	11133044	11133044	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	aggaacgcgcctatgagtacGtggagtgtcccattaggggc	15	9	0	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chrX:11133044G>T	uc004cuk.2	+	3	456	c.190G>T	c.(190-192)GTG>TTG	p.V64L	HCCS_uc004cuj.2_Missense_Mutation_p.V64L|HCCS_uc004cul.1_Missense_Mutation_p.V64L	NM_005333	NP_005324	P53701	CCHL_HUMAN	holocytochrome c synthase	64					organ morphogenesis|oxidation-reduction process	mitochondrial inner membrane	holocytochrome-c synthase activity|metal ion binding				0						CTATGAGTACGTGGAGTGTCC	0.478													48	47	---	---	---	---	PASS	T	11133044	T	T	11133044	3	4	24	1	0	0	0	0	1	0	0	0	6990	1145	40	1	196	1	HCCS	23	11133044	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	8971943	11133044	144137516	206	10826										
DMD	1756	broad.mit.edu	37	chrX	32486704	32486704	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cttcttccagcgtccctcaaTttcttcaaattctgattgat	4	12	5	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chrX:32486704T>A	uc004dda.1	-	23	3317	c.3073A>T	c.(3073-3075)ATT>TTT	p.I1025F	DMD_uc004dcz.2_Missense_Mutation_p.I902F|DMD_uc004dcy.1_Missense_Mutation_p.I1021F|DMD_uc004ddb.1_Missense_Mutation_p.I1017F|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1025	Spectrin 6.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CGTCCCTCAATTTCTTCAAAT	0.428													3	36	---	---	---	---	PASS	A	32486704	A	A	32486704	3	1	24	1	0	0	0	0	1	0	0	0	4580	1493	52	5	8455	5	DMD	23	32486704	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	21353660	32486704	122783856	207	10827										
SLC9A7	84679	broad.mit.edu	37	chrX	46502717	46502717	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgtcgtgcctcctccaatgaTccagacagtgaagaacacaa	8	12	0	4			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chrX:46502717T>C	uc004dgu.1	-	12	1575	c.1567A>G	c.(1567-1569)ATC>GTC	p.I523V		NM_032591	NP_115980	Q96T83	SL9A7_HUMAN	solute carrier family 9, member 7	523	Helical; (Potential).				regulation of pH	Golgi membrane|integral to membrane|recycling endosome membrane|trans-Golgi network	potassium:hydrogen antiporter activity|protein homodimerization activity|sodium:hydrogen antiporter activity			ovary(2)	2						CCTCCAATGATCCAGACAGTG	0.502													15	15	---	---	---	---	PASS	C	46502717	C	C	46502717	3	2	24	1	0	0	0	0	1	0	0	0	14719	1435	50	5	634	5	SLC9A7	23	46502717	Missense_Mutation	SNP	T	TCGA-21-1081-01A-01D-1521-08	14016013	46502717	108767843	208	10828										
CXorf26	51260	broad.mit.edu	37	chrX	75394775	75394775	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	gcaatgcagcatgctgaagtCtattacaaggtgagttgtct	11	7	2	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chrX:75394775C>G	uc004ecl.1	+	3	350	c.147C>G	c.(145-147)GTC>GTG	p.V49V		NM_016500	NP_057584	Q9BVG4	CX026_HUMAN	hypothetical protein LOC51260	49											0						ATGCTGAAGTCTATTACAAGG	0.403													8	43	---	---	---	---	PASS	G	75394775	G	G	75394775	2	3	24	1	0	0	0	0	0	0	0	1	4104	900	32	2		2	CXorf26	23	75394775	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	28892058	75394775	79875785	209	10829										
RPS6KA6	27330	broad.mit.edu	37	chrX	83362035	83362035	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgagcatttgcactggctggCaaaccgggagaatctaatgt	12	8	1	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chrX:83362035C>T	uc004eej.1	-	14	1202	c.1125G>A	c.(1123-1125)TTG>TTA	p.L375L	RPS6KA6_uc011mqt.1_Silent_p.L375L|RPS6KA6_uc011mqu.1_Silent_p.L272L	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	375	AGC-kinase C-terminal.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						CACTGGCTGGCAAACCGGGAG	0.333													22	19	---	---	---	---	PASS	T	83362035	T	T	83362035	2	4	24	1	0	0	0	0	0	0	0	1	13655	709	25	3		3	RPS6KA6	23	83362035	Silent	SNP	C	TCGA-21-1081-01A-01D-1521-08	7967260	83362035	71908525	210	10830										
DACH2	117154	broad.mit.edu	37	chrX	86068160	86068160	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	tgaaagttgctttggataatGctcgcatccaggagaagcag	12	7	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chrX:86068160G>A	uc004eew.2	+	9	1587	c.1417G>A	c.(1417-1419)GCT>ACT	p.A473T	DACH2_uc004eex.2_Missense_Mutation_p.A460T|DACH2_uc010nmq.2_Missense_Mutation_p.A339T|DACH2_uc011mra.1_Missense_Mutation_p.A306T|DACH2_uc010nmr.2_Missense_Mutation_p.A254T|DACH2_uc004eey.2_Missense_Mutation_p.A166T|DACH2_uc004eez.2_Missense_Mutation_p.A156T	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	473	Potential.|DACHbox-C.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						TTTGGATAATGCTCGCATCCA	0.368													9	7	---	---	---	---	PASS	A	86068160	A	A	86068160	3	1	24	1	0	0	0	0	1	0	0	0	4221	1319	46	3	1451	3	DACH2	23	86068160	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	2706125	86068160	69202400	211	10831										
MCF2	4168	broad.mit.edu	37	chrX	138714595	138714595	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	taaaaccaaaaccaagtgcaAgttcccagggaaggaagcct	9	10	0	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chrX:138714595A>G	uc004fau.2	-	2	364	c.70T>C	c.(70-72)TTG>CTG	p.L24L	MCF2_uc004fav.2_Silent_p.L24L|MCF2_uc011mwl.1_Silent_p.L24L|MCF2_uc010nsh.1_Silent_p.L24L|MCF2_uc011mwm.1_Silent_p.L24L|MCF2_uc011mwn.1_Silent_p.L169L|MCF2_uc004faw.2_Silent_p.L84L|MCF2_uc011mwo.1_Silent_p.L84L	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	24	CRAL-TRIO.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					ACCAAGTGCAAGTTCCCAGGG	0.373													26	21	---	---	---	---	PASS	G	138714595	G	G	138714595	2	3	24	1	0	0	0	0	0	0	0	1	9378	69	3	5		5	MCF2	23	138714595	Silent	SNP	A	TCGA-21-1081-01A-01D-1521-08	52646435	138714595	16555965	212	10832										
ATP11C	286410	broad.mit.edu	37	chrX	138867415	138867415	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cttcacaattacactcatacGtcgccggacagcatcaaagt	6	13	3	0			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chrX:138867415G>C	uc004faz.2	-	16	1744	c.1645C>G	c.(1645-1647)CGT>GGT	p.R549G	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Missense_Mutation_p.R549G	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	549	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					ACACTCATACGTCGCCGGACA	0.343													24	28	---	---	---	---	PASS	C	138867415	C	C	138867415	3	2	24	1	0	0	0	0	1	0	0	0	1121	1145	40	4	1876	4	ATP11C	23	138867415	Missense_Mutation	SNP	G	TCGA-21-1081-01A-01D-1521-08	152820	138867415	16403145	213	10833										
FMR1	2332	broad.mit.edu	37	chrX	147024824	147024824	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	agaaatagggggcacggcagAcgcggtcctggatatacttc	14	9	0	2			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chrX:147024824A>G	uc010nst.2	+	14	1638	c.1449A>G	c.(1447-1449)AGA>AGG	p.R483R	FMR1_uc004fcj.2_Silent_p.R460R|FMR1_uc004fck.3_Silent_p.R462R|FMR1_uc004fcl.3_Silent_p.R323R|FMR1_uc011mxa.1_Silent_p.R130R	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	483	Interaction with RANBP9.				mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGCACGGCAGACGCGGTCCTG	0.413									Fragile_X_syndrome				50	28	---	---	---	---	PASS	G	147024824	G	G	147024824	2	3	24	1	0	0	0	0	0	0	0	1	5960	272	10	5		5	FMR1	23	147024824	Silent	SNP	A	TCGA-21-1081-01A-01D-1521-08	8157409	147024824	8245736	214	10834										
UTY	7404	broad.mit.edu	37	chrY	15372158	15372158	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0610328638497653	13	0.627037588025203	0.99094322567187	2.01120429825711	0.6225156161272	1	1	0	cagtagaaacagttactcacCtcacaaatgctacagtaatg	6	10	2	1			TCGA-21-1081-01A-01D-1521-08	TCGA-21-1081-10B-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	811f7a11-635c-4606-91fd-3729b97ffd8e	87fc0d2a-378d-4eee-b72a-860750d15af2	g.chrY:15372158C>A	uc004fsx.1	-	26	4851	c.3846G>T	c.(3844-3846)GAG>GAT	p.E1282D	UTY_uc004fsw.1_Missense_Mutation_p.E945D|UTY_uc010nwx.1_Missense_Mutation_p.E339D	NM_007125	NP_009056	O14607	UTY_HUMAN	tetratricopeptide repeat protein isoform 3	1282					chromatin modification	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						AGTTACTCACCTCACAAATGC	0.353													55	27	---	---	---	---	PASS	A	15372158	A	A	15372158	3	1	24	1	0	0	0	0	1	0	0	0	17104	695	24	3	209	3	UTY	24	15372158	Missense_Mutation	SNP	C	TCGA-21-1081-01A-01D-1521-08		15372158	44001408	215	10835										
MMEL1	79258	broad.mit.edu	37	chr1	2523025	2523025	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aggggactgtggacgtctgtCttgatggattggatggcgaa	17	5	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:2523025C>G	uc001ajy.2	-	23	2425	c.2211G>C	c.(2209-2211)AAG>AAC	p.K737N	MMEL1_uc009vlg.1_RNA	NM_033467	NP_258428	Q495T6	MMEL1_HUMAN	membrane metallo-endopeptidase-like 1	737	Lumenal (Potential).				proteolysis	extracellular region|integral to membrane|intracellular membrane-bounded organelle	metal ion binding|metalloendopeptidase activity				0	all_cancers(77;0.000233)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.03e-20)|all_lung(118;5.15e-09)|Lung NSC(185;9.02e-07)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;8.52e-23)|GBM - Glioblastoma multiforme(42;1.49e-08)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;0.000213)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00219)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.131)		GGACGTCTGTCTTGATGGATT	0.632													19	66	---	---	---	---	PASS	G	2523025	G	G	2523025	3	3	25	1	0	0	0	0	1	0	0	0	9646	912	32	2	136	2	MMEL1	1	2523025	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08		2523025	246727596	1	10836										
CAMTA1	23261	broad.mit.edu	37	chr1	7826535	7826535	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccagagtgaaagaattgaaaAaggccaaggaacttgaagac	11	6	0	6			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:7826535A>G	uc001aoi.2	+	23	5213	c.5006A>G	c.(5005-5007)AAA>AGA	p.K1669R	CAMTA1_uc001aok.3_Missense_Mutation_p.K702E|CAMTA1_uc001aoj.2_Missense_Mutation_p.K622E|CAMTA1_uc009vmf.2_Missense_Mutation_p.K249E	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1669					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		AGAATTGAAAAAGGCCAAGGA	0.398													7	30	---	---	---	---	PASS	G	7826535	G	G	7826535	3	3	25	1	0	0	0	0	1	0	0	0	2613	14	1	5	5096	5	CAMTA1	1	7826535	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	5303510	7826535	241424086	2	10837										
TMEM201	199953	broad.mit.edu	37	chr1	9661475	9661475	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcgtggcactgggcctactcAcctgcctgctggcaatgctg	12	14	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:9661475A>T	uc001apz.2	+	5	931	c.919A>T	c.(919-921)ACC>TCC	p.T307S	TMEM201_uc001apy.2_Missense_Mutation_p.T307S	NM_001130924	NP_001124396	Q5SNT2	TM201_HUMAN	transmembrane protein 201 isoform 1	307	Helical; (Potential).					integral to membrane|nuclear inner membrane					0	all_lung(157;0.222)	all_epithelial(116;2.09e-14)|Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|STAD - Stomach adenocarcinoma(132;0.00345)|READ - Rectum adenocarcinoma(331;0.0419)		GGGCCTACTCACCTGCCTGCT	0.657													12	31	---	---	---	---	PASS	T	9661475	T	T	9661475	3	4	25	1	0	0	0	0	1	0	0	0	16123	159	6	5	937	5	TMEM201	1	9661475	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	1834940	9661475	239589146	3	10838										
PTCHD2	57540	broad.mit.edu	37	chr1	11577558	11577558	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tttggcctgttcatgtctctCatcgtgtcctgttgctggct	10	11	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:11577558C>T	uc001ash.3	+	7	1926	c.1788C>T	c.(1786-1788)CTC>CTT	p.L596L	PTCHD2_uc001asi.1_Silent_p.L596L	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	596	Helical; (Potential).|SSD.				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		TCATGTCTCTCATCGTGTCCT	0.612													28	77	---	---	---	---	PASS	T	11577558	T	T	11577558	2	4	25	1	0	0	0	0	0	0	0	1	12733	813	29	2		2	PTCHD2	1	11577558	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	1916083	11577558	237673063	4	10839										
MIIP	60672	broad.mit.edu	37	chr1	12082420	12082420	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cctgagggacccagagccctCagggaggctgggtgatccag	16	12	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:12082420C>T	uc001ato.1	+	3	563	c.383C>T	c.(382-384)TCA>TTA	p.S128L		NM_021933	NP_068752	Q5JXC2	MIIP_HUMAN	invasion inhibitory protein 45	128										ovary(1)	1						CCAGAGCCCTCAGGGAGGCTG	0.657													3	18	---	---	---	---	PASS	T	12082420	T	T	12082420	3	4	25	1	0	0	0	0	1	0	0	0	9585	838	29	2	389	2	MIIP	1	12082420	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	504862	12082420	237168201	5	10840										
VPS13D	55187	broad.mit.edu	37	chr1	12304675	12304675	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggattgtggagaatattgaaGtaagtcctgctgacttttat	11	4	0	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:12304675G>A	uc001atv.2	+	5	588	c.447_splice	c.e5+1	p.E149_splice	VPS13D_uc001atw.2_Splice_Site_p.E149_splice	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1						protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		GAATATTGAAGTAAGTCCTGC	0.428													11	34	---	---	---	---	PASS	A	12304675	A	A	12304675	5	1	25	1	0	0	0	0	0	0	1	0	17189	1043	36	3	462	3	VPS13D	1	12304675	Splice_Site	SNP	G	TCGA-21-5782-01A-01D-1632-08	222255	12304675	236945946	6	10841										
PRDM2	7799	broad.mit.edu	37	chr1	14108529	14108529	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gttgagctcagcaaaatgtcGtcgaataagctcaaattaaa	8	7	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:14108529G>A	uc001avi.2	+	8	5095	c.4239G>A	c.(4237-4239)TCG>TCA	p.S1413S	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Silent_p.S1413S|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Silent_p.S1212S|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1413	Arg/Lys-rich (basic).					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GCAAAATGTCGTCGAATAAGC	0.393													24	61	---	---	---	---	PASS	A	14108529	A	A	14108529	2	1	25	1	0	0	0	0	0	0	0	1	12458	1132	40	1		1	PRDM2	1	14108529	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	1803854	14108529	235142092	7	10842										
FBXO42	54455	broad.mit.edu	37	chr1	16577630	16577630	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cctttggaggacatcgctttGatggcttccagactccgacg	11	12	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:16577630G>C	uc001ayg.2	-	10	1905	c.1689C>G	c.(1687-1689)ATC>ATG	p.I563M	FBXO42_uc001aye.3_Missense_Mutation_p.I281M|FBXO42_uc001ayf.2_Missense_Mutation_p.I470M	NM_018994	NP_061867	Q6P3S6	FBX42_HUMAN	F-box protein 42	563										upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00475)|all_lung(284;0.00671)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0193)|Colorectal(212;3.16e-07)|COAD - Colon adenocarcinoma(227;1.46e-05)|BRCA - Breast invasive adenocarcinoma(304;4.37e-05)|Kidney(64;0.000246)|KIRC - Kidney renal clear cell carcinoma(64;0.00336)|STAD - Stomach adenocarcinoma(313;0.0139)|READ - Rectum adenocarcinoma(331;0.0693)		ACATCGCTTTGATGGCTTCCA	0.612													6	57	---	---	---	---	PASS	C	16577630	C	C	16577630	3	2	25	1	0	0	0	0	1	0	0	0	5751	1280	45	2	468	2	FBXO42	1	16577630	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2469101	16577630	232672991	8	10843										
IGSF21	84966	broad.mit.edu	37	chr1	18688620	18688620	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttggggcagctcctcccaccTccattgaagtggtggctgct	12	13	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:18688620T>C	uc001bau.1	+	5	819	c.436T>C	c.(436-438)TCC>CCC	p.S146P	IGSF21_uc001bav.1_5'UTR	NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	146						extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		TCCTCCCACCTCCATTGAAGT	0.567													3	11	---	---	---	---	PASS	C	18688620	C	C	18688620	3	2	25	1	0	0	0	0	1	0	0	0	7599	1551	54	5	454	5	IGSF21	1	18688620	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	2110990	18688620	230562001	9	10844										
RNF186	54546	broad.mit.edu	37	chr1	20141492	20141492	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cagacactccaggtcacattCtgtggagccagaatgacccc	9	14	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:20141492C>A	uc001bcr.2	-	1	280	c.103G>T	c.(103-105)GAA>TAA	p.E35*		NM_019062	NP_061935	Q9NXI6	RN186_HUMAN	ring finger protein 186	35						integral to membrane	zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;7.77e-05)|Kidney(64;0.000162)|GBM - Glioblastoma multiforme(114;0.00036)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		AGGTCACATTCTGTGGAGCCA	0.647													20	62	---	---	---	---	PASS	A	20141492	A	A	20141492	4	1	25	1	0	0	0	0	0	1	0	0	13469	922	32	2	584	2	RNF186	1	20141492	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1452872	20141492	229109129	10	10845										
ZBTB40	9923	broad.mit.edu	37	chr1	22816893	22816893	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcaagtagaaatcctttcatCtgaaggtgctggagagcctc	10	9	3	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:22816893C>G	uc001bft.2	+	3	963	c.452C>G	c.(451-453)TCT>TGT	p.S151C	ZBTB40_uc001bfu.2_Missense_Mutation_p.S151C|ZBTB40_uc009vqi.1_Missense_Mutation_p.S151C	NM_001083621	NP_001077090	Q9NUA8	ZBT40_HUMAN	zinc finger and BTB domain containing 40	151					bone mineralization|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.86e-26)|Colorectal(126;8.55e-08)|COAD - Colon adenocarcinoma(152;4.1e-06)|GBM - Glioblastoma multiforme(114;1.39e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000712)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.216)		ATCCTTTCATCTGAAGGTGCT	0.527													35	142	---	---	---	---	PASS	G	22816893	G	G	22816893	3	3	25	1	0	0	0	0	1	0	0	0	17539	913	32	2	454	2	ZBTB40	1	22816893	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2675401	22816893	226433728	11	10846										
SFN	2810	broad.mit.edu	37	chr1	27190313	27190313	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctttcgacgaggccatggctGatctgcacaccctcagcgag	11	14	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:27190313G>A	uc001bnc.1	+	1	681	c.610G>A	c.(610-612)GAT>AAT	p.D204N	uc010ofi.1_RNA	NM_006142	NP_006133	P31947	1433S_HUMAN	stratifin	204					DNA damage response, signal transduction resulting in induction of apoptosis|negative regulation of caspase activity|release of cytochrome c from mitochondria	cytoplasm|extracellular space|nucleus	protein domain specific binding|protein kinase C inhibitor activity				0		all_cancers(24;1.23e-26)|all_epithelial(13;1.19e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;0.00017)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.1e-52)|Epithelial(14;2.31e-52)|OV - Ovarian serous cystadenocarcinoma(117;8.22e-30)|Colorectal(126;1.31e-09)|COAD - Colon adenocarcinoma(152;3.45e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000501)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)|GBM - Glioblastoma multiforme(114;0.0767)|Lung(427;0.215)		GGCCATGGCTGATCTGCACAC	0.607													13	66	---	---	---	---	PASS	A	27190313	A	A	27190313	3	1	25	1	0	0	0	0	1	0	0	0	14159	1290	45	2	612	2	SFN	1	27190313	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	4373420	27190313	222060308	12	10847										
AHDC1	27245	broad.mit.edu	37	chr1	27876980	27876980	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agcagcaggttcttaggaggGcggccgcgcttacgtttgag	16	9	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:27876980G>C	uc009vsy.2	-	6	2616	c.1647C>G	c.(1645-1647)CGC>CGG	p.R549R	AHDC1_uc009vsz.1_Silent_p.R549R	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	549	A.T hook 2.						DNA binding			central_nervous_system(1)	1		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		TCTTAGGAGGGCGGCCGCGCT	0.637													5	24	---	---	---	---	PASS	C	27876980	C	C	27876980	2	2	25	1	0	0	0	0	0	0	0	1	412	1190	42	4		4	AHDC1	1	27876980	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	686667	27876980	221373641	13	10848										
KIAA0319L	79932	broad.mit.edu	37	chr1	35909835	35909835	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgcagctcactcttgagcatCgctgccacctcatggccttt	8	16	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:35909835C>A	uc001byx.2	-	17	2841	c.2583G>T	c.(2581-2583)GCG>GCT	p.A861A	KIAA0319L_uc001byw.2_Silent_p.A303A|KIAA0319L_uc010ohv.1_Silent_p.A503A	NM_024874	NP_079150	Q8IZA0	K319L_HUMAN	dyslexia susceptibility 2-like	861	Extracellular (Potential).					cytoplasmic vesicle part|integral to membrane	protein binding			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TCTTGAGCATCGCTGCCACCT	0.463													24	38	---	---	---	---	PASS	A	35909835	A	A	35909835	2	1	25	1	0	0	0	0	0	0	0	1	8169	871	31	2		2	KIAA0319L	1	35909835	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	8032855	35909835	213340786	14	10849										
CLSPN	63967	broad.mit.edu	37	chr1	36203671	36203671	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctccccaatttcttcttcttCttcagctgtaattttcccct	2	15	5	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:36203671C>A	uc001bzi.2	-	22	3666	c.3586G>T	c.(3586-3588)GAA>TAA	p.E1196*	CLSPN_uc009vux.2_Nonsense_Mutation_p.E1132*	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	1196					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TCTTCTTCTTCTTCAGCTGTA	0.338													24	38	---	---	---	---	PASS	A	36203671	A	A	36203671	4	1	25	1	0	0	0	0	0	1	0	0	3560	922	32	2	449	2	CLSPN	1	36203671	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	293836	36203671	213046950	15	10850										
EPHA10	284656	broad.mit.edu	37	chr1	38227557	38227557	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtagtagacgttgaaggtctCcttgcaggtacccgcggcgc	14	11	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:38227557C>T	uc009vvi.2	-	3	456	c.370G>A	c.(370-372)GAG>AAG	p.E124K	EPHA10_uc001cbw.3_Missense_Mutation_p.E124K	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	124	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TTGAAGGTCTCCTTGCAGGTA	0.662													32	145	---	---	---	---	PASS	T	38227557	T	T	38227557	3	4	25	1	0	0	0	0	1	0	0	0	5166	864	30	2	2754	2	EPHA10	1	38227557	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2023886	38227557	211023064	16	10851										
TIE1	7075	broad.mit.edu	37	chr1	43787098	43787098	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tactgtggcatgacctgtgcCgagctctatgaaaagctgcc	11	11	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:43787098C>T	uc001ciu.2	+	21	3259	c.3180C>T	c.(3178-3180)GCC>GCT	p.A1060A	TIE1_uc010oke.1_Silent_p.A1015A|TIE1_uc009vwq.2_Silent_p.A1016A|TIE1_uc010okg.1_Silent_p.A705A	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	1060	Cytoplasmic (Potential).|Protein kinase.				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGACCTGTGCCGAGCTCTATG	0.592													11	28	---	---	---	---	PASS	T	43787098	T	T	43787098	2	4	25	1	0	0	0	0	0	0	0	1	15890	639	23	1		1	TIE1	1	43787098	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	5559541	43787098	205463523	17	10852										
MPL	4352	broad.mit.edu	37	chr1	43818205	43818205	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccagcccaaggccacagtctCagatacctgtgaagaagtgg	11	12	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:43818205C>G	uc001ciw.2	+	12	1715	c.1670C>G	c.(1669-1671)TCA>TGA	p.S557*	MPL_uc009vwr.2_Nonsense_Mutation_p.S550*	NM_005373	NP_005364	P40238	TPOR_HUMAN	myeloproliferative leukemia virus oncogene	557	Cytoplasmic (Potential).				cell proliferation|platelet activation	integral to plasma membrane	cytokine receptor activity			haematopoietic_and_lymphoid_tissue(361)|upper_aerodigestive_tract(1)|pancreas(1)	363	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GCCACAGTCTCAGATACCTGT	0.557			Mis		MPD	MPD	congenital amegakaryocytic thrombocytopenia						10	41	---	---	---	---	PASS	G	43818205	G	G	43818205	4	3	25	1	0	0	0	0	0	1	0	0	9730	838	29	2	1716	2	MPL	1	43818205	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	31107	43818205	205432416	18	10853										
KIAA0467	23334	broad.mit.edu	37	chr1	43891796	43891796	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gccacagtgccagcagctccAgatgttcttcctcttgcttg	9	14	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:43891796A>G	uc001cjk.1	+	7	953	c.491A>G	c.(490-492)CAG>CGG	p.Q164R	KIAA0467_uc009vws.1_Missense_Mutation_p.Q1006R	NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CAGCAGCTCCAGATGTTCTTC	0.512													15	15	---	---	---	---	PASS	G	43891796	G	G	43891796	3	3	25	1	0	0	0	0	1	0	0	0	8178	188	7	5	509	5	KIAA0467	1	43891796	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	73591	43891796	205358825	19	10854										
IPP	3652	broad.mit.edu	37	chr1	46211819	46211819	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aatgaaatctagaagtatctGaaagattcctgcttcaattc	6	7	3	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:46211819G>A	uc001cou.2	-	2	532	c.265C>T	c.(265-267)CAG>TAG	p.Q89*	IPP_uc001cos.3_Nonsense_Mutation_p.Q89*	NM_005897	NP_005888	Q9Y573	IPP_HUMAN	intracisternal A particle-promoted polypeptide	89	BTB.					actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					AGAAGTATCTGAAAGATTCCT	0.343													8	45	---	---	---	---	PASS	A	46211819	A	A	46211819	4	1	25	1	0	0	0	0	0	1	0	0	7800	1299	45	2	1623	2	IPP	1	46211819	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2320023	46211819	203038802	20	10855										
C1orf177	163747	broad.mit.edu	37	chr1	55279497	55279497	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tttttcttagaaaaaaaagcCcagggaactgatgaatttca	7	6	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:55279497C>G	uc001cyb.3	+	7	827	c.773C>G	c.(772-774)CCC>CGC	p.P258R	C1orf177_uc001cya.3_Missense_Mutation_p.P258R	NM_001110533	NP_001104003	Q3ZCV2	CA177_HUMAN	hypothetical protein LOC163747 isoform 2	258											0						AAAAAAAAGCCCAGGGAACTG	0.413													6	36	---	---	---	---	PASS	G	55279497	G	G	55279497	3	3	25	1	0	0	0	0	1	0	0	0	2017	623	22	4	799	4	C1orf177	1	55279497	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	9067678	55279497	193971124	21	10856										
C1orf173	127254	broad.mit.edu	37	chr1	75038884	75038884	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgctgctccctctgcccccCtttctatgcctggagggatc	9	17	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:75038884C>T	uc001dgg.2	-	14	2729	c.2510G>A	c.(2509-2511)AGG>AAG	p.R837K		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	837	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTCTGCCCCCCTTTCTATGCC	0.562													25	71	---	---	---	---	PASS	T	75038884	T	T	75038884	3	4	25	1	0	0	0	0	1	0	0	0	2014	681	24	3	2086	3	C1orf173	1	75038884	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	19759387	75038884	174211737	22	10857										
LRRC8C	84230	broad.mit.edu	37	chr1	90179638	90179638	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agcgtcaagtttgatgacatGagggaactccccccctggat	11	11	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:90179638G>A	uc001dnl.3	+	3	1751	c.1509G>A	c.(1507-1509)ATG>ATA	p.M503I		NM_032270	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member	503	LRR 5.					endoplasmic reticulum membrane|integral to membrane				ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		TTGATGACATGAGGGAACTCC	0.488													16	39	---	---	---	---	PASS	A	90179638	A	A	90179638	3	1	25	1	0	0	0	0	1	0	0	0	9023	1290	45	2	1515	2	LRRC8C	1	90179638	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	15140754	90179638	159070983	23	10858										
ALG14	199857	broad.mit.edu	37	chr1	95448643	95448643	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgccatttgtcaaacaattcGcccaaggtacaccgatttgg	8	11	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:95448643G>T	uc001dra.2	-	4	693	c.640C>A	c.(640-642)CGA>AGA	p.R214R		NM_144988	NP_659425	Q96F25	ALG14_HUMAN	asparagine-linked glycosylation 14 homolog	214	Cytoplasmic (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity				0		all_lung(203;0.0232)|Lung NSC(277;0.0739)		all cancers(265;0.0615)|Epithelial(280;0.139)		CAAACAATTCGCCCAAGGTAC	0.393													10	54	---	---	---	---	PASS	T	95448643	T	T	95448643	2	4	25	1	0	0	0	0	0	0	0	1	516	1095	38	1		1	ALG14	1	95448643	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	5269005	95448643	153801978	24	10859										
CELSR2	1952	broad.mit.edu	37	chr1	109793561	109793561	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgacaccaatgaccatgaccCtgtgttcgagcagcaggagt	11	11	0	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:109793561C>T	uc001dxa.3	+	1	921	c.860C>T	c.(859-861)CCT>CTT	p.P287L		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	287	Cadherin 1.|Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		GACCATGACCCTGTGTTCGAG	0.602													15	40	---	---	---	---	PASS	T	109793561	T	T	109793561	3	4	25	1	0	0	0	0	1	0	0	0	3222	681	24	3	862	3	CELSR2	1	109793561	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	14344918	109793561	139457060	25	10860										
AP4B1	10717	broad.mit.edu	37	chr1	114442820	114442820	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aggtcccttgacccgcacaaGgacatcagtttgtacgtggg	12	11	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:114442820G>A	uc001eeb.2	-	5	963	c.820C>T	c.(820-822)CTT>TTT	p.L274F	uc001edv.1_RNA|AP4B1_uc001eec.2_Missense_Mutation_p.L106F|AP4B1_uc001eed.2_Missense_Mutation_p.L274F|AP4B1_uc010owp.1_Missense_Mutation_p.L175F|AP4B1_uc001eea.1_Missense_Mutation_p.L68F|AP4B1_uc010owq.1_Missense_Mutation_p.L181F	NM_006594	NP_006585	Q9Y6B7	AP4B1_HUMAN	adaptor-related protein complex 4, beta 1	274					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|soluble fraction|trans-Golgi network	protein binding|protein transporter activity			ovary(3)|central_nervous_system(1)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.1e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACCCGCACAAGGACATCAGTT	0.478													10	37	---	---	---	---	PASS	A	114442820	A	A	114442820	3	1	25	1	0	0	0	0	1	0	0	0	751	1000	35	3	1423	3	AP4B1	1	114442820	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	4649259	114442820	134807801	26	10861										
CASQ2	845	broad.mit.edu	37	chr1	116245587	116245587	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgtggcctgaataggtcaatCttgaaagtcttctcccagta	9	9	4	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:116245587C>G	uc001efx.3	-	10	1233	c.969G>C	c.(967-969)AAG>AAC	p.K323N	CASQ2_uc010owu.1_Missense_Mutation_p.K252N	NM_001232	NP_001223	O14958	CASQ2_HUMAN	cardiac calsequestrin 2 precursor	323					heart development|striated muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;1.25e-06)|all_epithelial(167;1.02e-06)|all_lung(203;8.03e-06)|Lung NSC(69;5.01e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		ATAGGTCAATCTTGAAAGTCT	0.522													4	9	---	---	---	---	PASS	G	116245587	G	G	116245587	3	3	25	1	0	0	0	0	1	0	0	0	2681	912	32	2	238	2	CASQ2	1	116245587	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1802767	116245587	133005034	27	10862										
HRNR	388697	broad.mit.edu	37	chr1	152188200	152188200	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggaagaccaccctgagccagAcccatatgggccgtagctgg	13	13	0	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:152188200A>T	uc001ezt.1	-	3	5981	c.5905T>A	c.(5905-5907)TCT>ACT	p.S1969T		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1969	22.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGAGCCAGACCCATATGGG	0.617													22	555	---	---	---	---	PASS	T	152188200	T	T	152188200	3	4	25	1	0	0	0	0	1	0	0	0	7359	275	10	5	2651	5	HRNR	1	152188200	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	35942613	152188200	97062421	28	10863										
HRNR	388697	broad.mit.edu	37	chr1	152192012	152192012	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acttgtgaccaaagccggaaGactggcctgagacagaccca	11	12	0	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:152192012G>C	uc001ezt.1	-	3	2169	c.2093C>G	c.(2092-2094)TCT>TGT	p.S698C		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	698	7.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AAAGCCGGAAGACTGGCCTGA	0.567													28	124	---	---	---	---	PASS	C	152192012	C	C	152192012	3	2	25	1	0	0	0	0	1	0	0	0	7359	942	33	2	6463	2	HRNR	1	152192012	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	3812	152192012	97058609	29	10864										
FLG2	388698	broad.mit.edu	37	chr1	152328900	152328900	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cttgatgtagactcatgctgGccacaagtttgacctgagcc	10	11	1	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:152328900G>T	uc001ezw.3	-	3	1435	c.1362C>A	c.(1360-1362)GGC>GGA	p.G454G	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	454	Filaggrin 2.|Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACTCATGCTGGCCACAAGTTT	0.493													24	89	---	---	---	---	PASS	T	152328900	T	T	152328900	2	4	25	1	0	0	0	0	0	0	0	1	5923	1190	42	3		3	FLG2	1	152328900	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	136888	152328900	96921721	30	10865										
GON4L	54856	broad.mit.edu	37	chr1	155726809	155726809	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttctttgaggctgtgggtatCttgggaggctcctcctcttc	12	10	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:155726809C>G	uc001flz.2	-	27	5554	c.5457G>C	c.(5455-5457)AAG>AAC	p.K1819N	GON4L_uc009wrg.1_RNA|GON4L_uc001fly.1_Missense_Mutation_p.K1819N|GON4L_uc009wrh.1_Missense_Mutation_p.K1819N|GON4L_uc001fma.1_Missense_Mutation_p.K1819N|GON4L_uc001fmb.3_Missense_Mutation_p.K1015N	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	1819					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					CTGTGGGTATCTTGGGAGGCT	0.408													13	40	---	---	---	---	PASS	G	155726809	G	G	155726809	3	3	25	1	0	0	0	0	1	0	0	0	6572	912	32	2	1289	2	GON4L	1	155726809	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	3397909	155726809	93523812	31	10866										
GON4L	54856	broad.mit.edu	37	chr1	155736446	155736446	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tccagtcatatttcctacctCtctagcaccatcagccatgt	4	15	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:155736446C>G	uc001flz.2	-	21	2915	c.2818G>C	c.(2818-2820)GAG>CAG	p.E940Q	GON4L_uc009wrg.1_RNA|GON4L_uc001fly.1_Missense_Mutation_p.E940Q|GON4L_uc009wrh.1_Missense_Mutation_p.E940Q|GON4L_uc001fma.1_Missense_Mutation_p.E940Q|GON4L_uc001fmb.3_Missense_Mutation_p.E136Q|GON4L_uc001fmc.2_Missense_Mutation_p.E940Q|GON4L_uc001fmd.3_Missense_Mutation_p.E940Q|GON4L_uc009wri.2_Missense_Mutation_p.E526Q	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	940					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TTTCCTACCTCTCTAGCACCA	0.468													17	51	---	---	---	---	PASS	G	155736446	G	G	155736446	3	3	25	1	0	0	0	0	1	0	0	0	6572	922	32	2	4069	2	GON4L	1	155736446	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	9637	155736446	93514175	32	10867										
FCRL2	79368	broad.mit.edu	37	chr1	157737253	157737253	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agcaggtcccccactgcagcCtgggccccaggagacctgag	13	16	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:157737253C>A	uc001fre.2	-	6	989	c.930G>T	c.(928-930)CAG>CAT	p.Q310H	FCRL2_uc001frd.2_Missense_Mutation_p.Q57H|FCRL2_uc010phz.1_Missense_Mutation_p.Q310H|FCRL2_uc009wsp.2_Intron	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	310	Ig-like C2-type 4.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CCACTGCAGCCTGGGCCCCAG	0.542													8	40	---	---	---	---	PASS	A	157737253	A	A	157737253	3	1	25	1	0	0	0	0	1	0	0	0	5795	680	24	3	624	3	FCRL2	1	157737253	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2000807	157737253	91513368	33	10868										
CD1A	909	broad.mit.edu	37	chr1	158226602	158226602	+	Missense_Mutation	SNP	G	A	A													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccgaggcctggctgtcccatGgccccagtcctggccctggc							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:158226602G>A	uc001frt.2	+	4	1164	c.631G>A	c.(631-633)GGC>AGC	p.G211S		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	211	Extracellular (Potential).|Ig-like.				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	GCTGTCCCATGGCCCCAGTCC	0.522													17	47	---	---	---	---	PASS	A	158226602	A	A	158226602	3	1	25	1	0	0	0	0	1	0	0	0	2974	1348	47	3	645	3	CD1A	1	158226602	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	489349	158226602	91024019	34	10869	301	2								
CD1A	909	broad.mit.edu	37	chr1	158226603	158226603	+	Missense_Mutation	SNP	G	T	T													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgaggcctggctgtcccatgGccccagtcctggccctggcc							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:158226603G>T	uc001frt.2	+	4	1165	c.632G>T	c.(631-633)GGC>GTC	p.G211V		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	211	Extracellular (Potential).|Ig-like.				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	CTGTCCCATGGCCCCAGTCCT	0.527													17	47	---	---	---	---	PASS	T	158226603	T	T	158226603	3	4	25	1	0	0	0	0	1	0	0	0	2974	1203	42	3	646	3	CD1A	1	158226603	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1	158226603	91024018	35	10870	301	2								
OR10Z1	128368	broad.mit.edu	37	chr1	158576474	158576474	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggcatcatccctagaatgctCtctggcctggctggggggga	15	11	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:158576474C>A	uc010pio.1	+	1	246	c.246C>A	c.(244-246)CTC>CTA	p.L82L		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	82	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					CTAGAATGCTCTCTGGCCTGG	0.547													43	166	---	---	---	---	PASS	A	158576474	A	A	158576474	2	1	25	1	0	0	0	0	0	0	0	1	10923	900	32	2		2	OR10Z1	1	158576474	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	349871	158576474	90674147	36	10871										
PVRL4	81607	broad.mit.edu	37	chr1	161047464	161047464	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggctgccctcagctgtgcagGaggctgccagggtcaggccc	16	14	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:161047464G>C	uc001fxo.2	-	3	808	c.509C>G	c.(508-510)TCC>TGC	p.S170C	PVRL4_uc010pjz.1_5'Flank	NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	170	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			AGCTGTGCAGGAGGCTGCCAG	0.647													11	24	---	---	---	---	PASS	C	161047464	C	C	161047464	3	2	25	1	0	0	0	0	1	0	0	0	12842	1174	41	2	1051	2	PVRL4	1	161047464	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2470990	161047464	88203157	37	10872										
TNN	63923	broad.mit.edu	37	chr1	175046886	175046886	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgtccaggacctcctggcccGggtgaagaagctggaggaag	16	10	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:175046886G>T	uc001gkl.1	+	2	445	c.332G>T	c.(331-333)CGG>CTG	p.R111L	TNN_uc010pmx.1_Missense_Mutation_p.R111L	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	111					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		CTCCTGGCCCGGGTGAAGAAG	0.577													8	26	---	---	---	---	PASS	T	175046886	T	T	175046886	3	4	25	1	0	0	0	0	1	0	0	0	16320	1116	39	1	334	1	TNN	1	175046886	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	13999422	175046886	74203735	38	10873										
PLA2G4A	5321	broad.mit.edu	37	chr1	186880434	186880434	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgtgatcaggagaagactttCagacaacagagaaaagaaca	10	6	2	6			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:186880434C>T	uc001gsc.2	+	7	676	c.471C>T	c.(469-471)TTC>TTT	p.F157F	PLA2G4A_uc010pos.1_Intron	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	157	Phospholipid binding (Probable).|PLA2c.				phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	AGAAGACTTTCAGACAACAGA	0.438													19	79	---	---	---	---	PASS	T	186880434	T	T	186880434	2	4	25	1	0	0	0	0	0	0	0	1	12001	825	29	2		2	PLA2G4A	1	186880434	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	11833548	186880434	62370187	39	10874										
CFHR5	81494	broad.mit.edu	37	chr1	196952141	196952141	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgaatataattttgtgtctcCttcaaaatccttttggactc	5	8	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:196952141C>A	uc001gts.3	+	2	313	c.185C>A	c.(184-186)CCT>CAT	p.P62H		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	62	Sushi 1.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						TTTGTGTCTCCTTCAAAATCC	0.393													18	59	---	---	---	---	PASS	A	196952141	A	A	196952141	3	1	25	1	0	0	0	0	1	0	0	0	3288	681	24	3	191	3	CFHR5	1	196952141	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	10071707	196952141	52298480	40	10875										
DDX59	83479	broad.mit.edu	37	chr1	200635670	200635670	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atgaacctctgccaactggcCacctgggctggggaaagggc	14	12	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:200635670C>A	uc009wzk.2	-	2	442	c.199G>T	c.(199-201)GGC>TGC	p.G67C	DDX59_uc010ppl.1_Missense_Mutation_p.G67C	NM_001031725	NP_001026895	Q5T1V6	DDX59_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 59	67						intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4						GCCAACTGGCCACCTGGGCTG	0.527													12	58	---	---	---	---	PASS	A	200635670	A	A	200635670	3	1	25	1	0	0	0	0	1	0	0	0	4376	594	21	3	1688	3	DDX59	1	200635670	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	3683529	200635670	48614951	41	10876										
CR1	1378	broad.mit.edu	37	chr1	207758124	207758124	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gacagagggatgaccttcaaCctcattggggagagcaccat	12	10	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:207758124C>A	uc001hfy.2	+	25	4223	c.4083C>A	c.(4081-4083)AAC>AAA	p.N1361K	CR1_uc009xcl.1_Missense_Mutation_p.N911K|CR1_uc001hfx.2_Missense_Mutation_p.N1811K	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1361	Extracellular (Potential).|Sushi 21.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TGACCTTCAACCTCATTGGGG	0.527													4	105	---	---	---	---	PASS	A	207758124	A	A	207758124	3	1	25	1	0	0	0	0	1	0	0	0	3840	506	18	3	5563	3	CR1	1	207758124	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	7122454	207758124	41492497	42	10877										
CAMK1G	57172	broad.mit.edu	37	chr1	209785331	209785331	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agtgtagcactccctgccctGacccaattaccctgccagca	7	17	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:209785331G>A	uc001hhd.2	+	11	1212	c.1110G>A	c.(1108-1110)CTG>CTA	p.L370L	CAMK1G_uc001hhf.3_Silent_p.L370L|CAMK1G_uc001hhe.2_Silent_p.L370L	NM_020439	NP_065172	Q96NX5	KCC1G_HUMAN	calcium/calmodulin-dependent protein kinase IG	370						Golgi membrane|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0475)		TCCCTGCCCTGACCCAATTAC	0.627													12	69	---	---	---	---	PASS	A	209785331	A	A	209785331	2	1	25	1	0	0	0	0	0	0	0	1	2598	1277	45	2		2	CAMK1G	1	209785331	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	2027207	209785331	39465290	43	10878										
DEGS1	8560	broad.mit.edu	37	chr1	224377500	224377500	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgcctttggcaactgcaaaGcaatgtggaatcgctggttt	11	9	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:224377500G>A	uc001hoj.2	+	2	415	c.304G>A	c.(304-306)GCA>ACA	p.A102T	DEGS1_uc001hoi.2_Missense_Mutation_p.A81T	NM_144780	NP_659004	O15121	DEGS1_HUMAN	degenerative spermatocyte homolog 1, lipid	102	Helical; (Potential).				sphingolipid metabolic process|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	electron carrier activity|protein binding|sphingolipid delta-4 desaturase activity				0	Breast(184;0.193)			GBM - Glioblastoma multiforme(131;0.00643)		CAACTGCAAAGCAATGTGGAA	0.433													33	98	---	---	---	---	PASS	A	224377500	A	A	224377500	3	1	25	1	0	0	0	0	1	0	0	0	4422	971	34	3	310	3	DEGS1	1	224377500	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	14592169	224377500	24873121	44	10879										
H3F3A	3020	broad.mit.edu	37	chr1	226253396	226253396	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgtgaaattagacgttatcaGaagtccactgaacttctgat	8	8	2	5			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:226253396G>T	uc001hpw.2	+	3	283	c.168G>T	c.(166-168)CAG>CAT	p.Q56H	H3F3A_uc010pvl.1_Missense_Mutation_p.Q56H	NM_005324	NP_005315	P84243	H33_HUMAN	H3 histone, family 3B	56					blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding				0	Breast(184;0.179)			GBM - Glioblastoma multiforme(131;0.203)		GACGTTATCAGAAGTCCACTG	0.428													12	32	---	---	---	---	PASS	T	226253396	T	T	226253396	3	4	25	1	0	0	0	0	1	0	0	0	6933	933	33	2	174	2	H3F3A	1	226253396	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1875896	226253396	22997225	45	10880										
NUP133	55746	broad.mit.edu	37	chr1	229588372	229588372	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tctcctgatgcagtagaaagCgctcctgctcagccatttct	8	13	3	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:229588372C>A	uc001htn.2	-	22	3091	c.2999G>T	c.(2998-3000)CGC>CTC	p.R1000L		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	1000					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				CAGTAGAAAGCGCTCCTGCTC	0.438													7	26	---	---	---	---	PASS	A	229588372	A	A	229588372	3	1	25	1	0	0	0	0	1	0	0	0	10754	768	27	1	491	1	NUP133	1	229588372	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	3334976	229588372	19662249	46	10881										
GPR137B	7107	broad.mit.edu	37	chr1	236306222	236306222	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtcctcttctccttctacttCaaagacttcgtggcggccaa	7	14	4	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:236306222C>G	uc001hxq.2	+	1	391	c.300C>G	c.(298-300)TTC>TTG	p.F100L		NM_003272	NP_003263	O60478	G137B_HUMAN	G protein-coupled receptor 137B	100	Helical; (Potential).					integral to plasma membrane|membrane fraction					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.197)|Prostate(94;0.219)|Acute lymphoblastic leukemia(190;0.226)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			CCTTCTACTTCAAAGACTTCG	0.572													30	107	---	---	---	---	PASS	G	236306222	G	G	236306222	3	3	25	1	0	0	0	0	1	0	0	0	6646	825	29	2	302	2	GPR137B	1	236306222	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	6717850	236306222	12944399	47	10882										
RGS7	6000	broad.mit.edu	37	chr1	241031964	241031964	+	Missense_Mutation	SNP	C	A	A													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aatcttgtctctcttcttgtCcactctgtcaacacagtaac							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:241031964C>A	uc001hyv.2	-	9	862	c.532G>T	c.(532-534)GAC>TAC	p.D178Y	RGS7_uc010pyh.1_Missense_Mutation_p.D152Y|RGS7_uc010pyj.1_Missense_Mutation_p.D94Y|RGS7_uc001hyu.2_Missense_Mutation_p.D178Y|RGS7_uc009xgn.1_Missense_Mutation_p.D125Y|RGS7_uc001hyw.2_Missense_Mutation_p.D178Y|RGS7_uc001hyt.2_Missense_Mutation_p.D10Y	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	178					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			CTCTTCTTGTCCACTCTGTCA	0.453													20	49	---	---	---	---	PASS	A	241031964	A	A	241031964	3	1	25	1	0	0	0	0	1	0	0	0	13310	855	30	2	971	2	RGS7	1	241031964	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	4725742	241031964	8218657	48	10883	302	2								
RGS7	6000	broad.mit.edu	37	chr1	241031965	241031965	+	Silent	SNP	C	A	A													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atcttgtctctcttcttgtcCactctgtcaacacagtaaca							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:241031965C>A	uc001hyv.2	-	9	861	c.531G>T	c.(529-531)GTG>GTT	p.V177V	RGS7_uc010pyh.1_Silent_p.V151V|RGS7_uc010pyj.1_Silent_p.V93V|RGS7_uc001hyu.2_Silent_p.V177V|RGS7_uc009xgn.1_Silent_p.V124V|RGS7_uc001hyw.2_Silent_p.V177V|RGS7_uc001hyt.2_Silent_p.V9V	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	177					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			TCTTCTTGTCCACTCTGTCAA	0.458													21	50	---	---	---	---	PASS	A	241031965	A	A	241031965	2	1	25	1	0	0	0	0	0	0	0	1	13310	581	21	3		3	RGS7	1	241031965	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	1	241031965	8218656	49	10884	302	2								
ZNF496	84838	broad.mit.edu	37	chr1	247464220	247464220	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggcttctgggcctcgtggctCtctaggtgcccatccaggtc	13	14	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:247464220C>T	uc001ico.2	-	9	1830	c.1365G>A	c.(1363-1365)GAG>GAA	p.E455E	ZNF496_uc009xgv.2_Silent_p.E491E|ZNF496_uc001icp.2_Silent_p.E455E	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	455	C2H2-type 2.				positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			CCTCGTGGCTCTCTAGGTGCC	0.672													9	37	---	---	---	---	PASS	T	247464220	T	T	247464220	2	4	25	1	0	0	0	0	0	0	0	1	17942	912	32	2		2	ZNF496	1	247464220	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	6432255	247464220	1786401	50	10885										
OR6F1	343169	broad.mit.edu	37	chr1	247875527	247875527	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cagggtgcaatgtcacagaaGaagtggttgatggcacgggg	17	6	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:247875527G>C	uc001idj.1	-	1	531	c.531C>G	c.(529-531)TTC>TTG	p.F177L		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	177	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TGTCACAGAAGAAGTGGTTGA	0.572													20	56	---	---	---	---	PASS	C	247875527	C	C	247875527	3	2	25	1	0	0	0	0	1	0	0	0	11201	933	33	2	399	2	OR6F1	1	247875527	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	411307	247875527	1375094	51	10886										
OR2T8	343172	broad.mit.edu	37	chr1	248084542	248084542	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acgtgatgctggtttccaccActgtgcccaaaatggcggct	11	12	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:248084542A>T	uc010pzc.1	+	1	223	c.223A>T	c.(223-225)ACT>TCT	p.T75S		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GGTTTCCACCACTGTGCCCAA	0.582													10	39	---	---	---	---	PASS	T	248084542	T	T	248084542	3	4	25	1	0	0	0	0	1	0	0	0	11030	159	6	5	225	5	OR2T8	1	248084542	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	209015	248084542	1166079	52	10887										
OR2M4	26245	broad.mit.edu	37	chr1	248402872	248402872	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atctttccagtttcagttatCatactttcctattcccatgt	3	11	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:248402872C>A	uc010pzh.1	+	1	642	c.642C>A	c.(640-642)ATC>ATA	p.I214I		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TTTCAGTTATCATACTTTCCT	0.473													17	43	---	---	---	---	PASS	A	248402872	A	A	248402872	2	1	25	1	0	0	0	0	0	0	0	1	11012	816	29	2		2	OR2M4	1	248402872	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	318330	248402872	847749	53	10888										
OR14C36	127066	broad.mit.edu	37	chr1	248512452	248512452	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	accgctatgtggctgtctgcCagccacttcactaccctgtg	9	15	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:248512452C>A	uc010pzl.1	+	1	376	c.376C>A	c.(376-378)CAG>AAG	p.Q126K		NM_001001918	NP_001001918	Q8NHC7	O14CZ_HUMAN	olfactory receptor, family 14, subfamily C,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GGCTGTCTGCCAGCCACTTCA	0.512													10	36	---	---	---	---	PASS	A	248512452	A	A	248512452	3	1	25	1	0	0	0	0	1	0	0	0	10946	595	21	3	378	3	OR14C36	1	248512452	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	109580	248512452	738169	54	10889										
OR2T11	127077	broad.mit.edu	37	chr1	248790376	248790376	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aatacaatcccggcagcctcActgttcaccagaagccccag	7	16	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr1:248790376A>T	uc001ier.1	-	1	54	c.54T>A	c.(52-54)AGT>AGA	p.S18R		NM_001001964	NP_001001964	Q8NH01	O2T11_HUMAN	olfactory receptor, family 2, subfamily T,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CGGCAGCCTCACTGTTCACCA	0.527													4	46	---	---	---	---	PASS	T	248790376	T	T	248790376	3	4	25	1	0	0	0	0	1	0	0	0	11018	156	6	5	900	5	OR2T11	1	248790376	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	277924	248790376	460245	55	10890										
SNTG2	54221	broad.mit.edu	37	chr2	1168792	1168792	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgcagggtccccagggccaTccagcgaccacagcagtggg	14	15	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:1168792T>A	uc002qwq.2	+	8	642	c.514T>A	c.(514-516)TCC>ACC	p.S172T	SNTG2_uc010ewi.2_Intron	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	172					central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		CCCAGGGCCATCCAGCGACCA	0.512													5	117	---	---	---	---	PASS	A	1168792	A	A	1168792	3	1	25	1	0	0	0	0	1	0	0	0	14875	1435	50	5	544	5	SNTG2	2	1168792	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08		1168792	242030581	56	10891										
ALLC	55821	broad.mit.edu	37	chr2	3727473	3727473	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gcgcaggtcacgactggtgtGtcctcaggctggggatccaa	15	11	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:3727473G>T	uc010ewt.2	+	5	348	c.187G>T	c.(187-189)GTC>TTC	p.V63F		NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	82							allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)		CGACTGGTGTGTCCTCAGGCT	0.572										HNSCC(21;0.051)			13	64	---	---	---	---	PASS	T	3727473	T	T	3727473	3	4	25	1	0	0	0	0	1	0	0	0	534	1377	48	3	201	3	ALLC	2	3727473	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2558681	3727473	239471900	57	10892										
SOS1	6654	broad.mit.edu	37	chr2	39224462	39224462	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctggatctctcctgttatttCtgctactttcctccttttgc	5	13	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:39224462C>G	uc002rrk.3	-	18	2937	c.2896G>C	c.(2896-2898)GAA>CAA	p.E966Q	SOS1_uc002rrj.3_Missense_Mutation_p.E580Q	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	966	Ras-GEF.				apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				CCTGTTATTTCTGCTACTTTC	0.343									Noonan_syndrome				23	106	---	---	---	---	PASS	G	39224462	G	G	39224462	3	3	25	1	0	0	0	0	1	0	0	0	14936	922	32	2	1129	2	SOS1	2	39224462	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	35496989	39224462	203974911	58	10893										
SLC3A1	6519	broad.mit.edu	37	chr2	44513255	44513255	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agtttatgaaagagcaacctGatttaaatttccgcaatcct	6	8	0	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:44513255G>T	uc002ruc.3	+	4	928	c.850G>T	c.(850-852)GAT>TAT	p.D284Y	SLC3A1_uc002rty.2_Missense_Mutation_p.D284Y|SLC3A1_uc002rtz.2_Missense_Mutation_p.D284Y|SLC3A1_uc002rua.2_Missense_Mutation_p.D284Y|SLC3A1_uc002rub.2_Missense_Mutation_p.D284Y|SLC3A1_uc002rud.3_Missense_Mutation_p.D6Y	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	284	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	AGAGCAACCTGATTTAAATTT	0.348													19	66	---	---	---	---	PASS	T	44513255	T	T	44513255	3	4	25	1	0	0	0	0	1	0	0	0	14626	1290	45	2	864	2	SLC3A1	2	44513255	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	5288793	44513255	198686118	59	10894										
ADD2	119	broad.mit.edu	37	chr2	70933427	70933427	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aagtcctgccgcaggtccgcCgcccggttgcgaaggcgcat	14	15	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:70933427C>A	uc002sgz.2	-	3	579	c.114G>T	c.(112-114)GCG>GCT	p.A38A	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Silent_p.A38A|ADD2_uc002sha.2_Silent_p.A38A|ADD2_uc002sgx.2_Silent_p.A38A|ADD2_uc010fdt.1_Silent_p.A38A|ADD2_uc002shc.1_Silent_p.A38A|ADD2_uc002shd.1_Silent_p.A38A|ADD2_uc010fdu.1_Silent_p.A54A	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	38					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						GCAGGTCCGCCGCCCGGTTGC	0.687													24	44	---	---	---	---	PASS	A	70933427	A	A	70933427	2	1	25	1	0	0	0	0	0	0	0	1	305	639	23	1		1	ADD2	2	70933427	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	26420172	70933427	172265946	60	10895										
REG3A	5068	broad.mit.edu	37	chr2	79384760	79384760	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tggtggagggatttctctccCatgcaaagtaattcatcaca	9	9	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:79384760C>A	uc002sod.1	-	4	653	c.398G>T	c.(397-399)TGG>TTG	p.W133L	REG3A_uc002soe.1_Missense_Mutation_p.W133L|REG3A_uc002sof.1_Missense_Mutation_p.W133L	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	133	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						ATTTCTCTCCCATGCAAAGTA	0.542													10	47	---	---	---	---	PASS	A	79384760	A	A	79384760	3	1	25	1	0	0	0	0	1	0	0	0	13212	595	21	3	137	3	REG3A	2	79384760	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	8451333	79384760	163814613	61	10896										
POTEF	728378	broad.mit.edu	37	chr2	130877988	130877988	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcttgccgctctccctgcagCaggggaagcaacggcagcac	12	15	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:130877988C>A	uc010fmh.2	-	3	501	c.101G>T	c.(100-102)TGC>TTC	p.C34F		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	34						cell cortex	ATP binding			skin(3)|ovary(2)	5						CTCCCTGCAGCAGGGGAAGCA	0.577													45	78	---	---	---	---	PASS	A	130877988	A	A	130877988	3	1	25	1	0	0	0	0	1	0	0	0	12265	710	25	3	3186	3	POTEF	2	130877988	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	51493228	130877988	112321385	62	10897										
POTEE	445582	broad.mit.edu	37	chr2	132021760	132021760	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgagcgggaaatcgtgcgtgAcatcaaagagaagctgtgct	14	8	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:132021760A>G	uc002tsn.2	+	15	2784	c.2732A>G	c.(2731-2733)GAC>GGC	p.D911G	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.D511G|POTEE_uc002tsl.2_Missense_Mutation_p.D493G|POTEE_uc010fmy.1_Missense_Mutation_p.D375G	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	911	Actin-like.						ATP binding				0						ATCGTGCGTGACATCAAAGAG	0.592													19	98	---	---	---	---	PASS	G	132021760	G	G	132021760	3	3	25	1	0	0	0	0	1	0	0	0	12264	275	10	5	2790	5	POTEE	2	132021760	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	1143772	132021760	111177613	63	10898										
FIGN	55137	broad.mit.edu	37	chr2	164466745	164466745	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gatgcatctgcccaataatgTtttgcctgtcccccgaggtc	9	13	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:164466745T>A	uc002uck.1	-	3	1908	c.1597A>T	c.(1597-1599)ACA>TCA	p.T533S		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	533	ATP (By similarity).					nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						CCCAATAATGTTTTGCCTGTC	0.507													10	25	---	---	---	---	PASS	A	164466745	A	A	164466745	3	1	25	1	0	0	0	0	1	0	0	0	5891	1725	60	5	686	5	FIGN	2	164466745	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	32444985	164466745	78732628	64	10899										
SCN2A	6326	broad.mit.edu	37	chr2	166188042	166188042	+	Silent	SNP	G	A	A													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atggagcactatcccatgacGgagcagttcagcagtgtact							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:166188042G>A	uc002udc.2	+	14	2642	c.2352G>A	c.(2350-2352)ACG>ACA	p.T784T	SCN2A_uc002udd.2_Silent_p.T784T|SCN2A_uc002ude.2_Silent_p.T784T	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	784	II.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ATCCCATGACGGAGCAGTTCA	0.433													9	57	---	---	---	---	PASS	A	166188042	A	A	166188042	2	1	25	1	0	0	0	0	0	0	0	1	13916	1103	39	1		1	SCN2A	2	166188042	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	1721297	166188042	77011331	65	10900	303	2								
SCN2A	6326	broad.mit.edu	37	chr2	166188044	166188044	+	Missense_Mutation	SNP	A	C	C													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggagcactatcccatgacggAgcagttcagcagtgtactgt							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:166188044A>C	uc002udc.2	+	14	2644	c.2354A>C	c.(2353-2355)GAG>GCG	p.E785A	SCN2A_uc002udd.2_Missense_Mutation_p.E785A|SCN2A_uc002ude.2_Missense_Mutation_p.E785A	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	785	II.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	CCCATGACGGAGCAGTTCAGC	0.433													9	55	---	---	---	---	PASS	C	166188044	C	C	166188044	3	2	25	1	0	0	0	0	1	0	0	0	13916	304	11	5	2500	5	SCN2A	2	166188044	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	2	166188044	77011329	66	10901	303	2								
SCN9A	6335	broad.mit.edu	37	chr2	167141191	167141191	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aacagtgagccccttctgctCtcattgtctccaaaaatgct	6	13	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:167141191C>G	uc010fpl.2	-	12	2087	c.1746G>C	c.(1744-1746)GAG>GAC	p.E582D	uc002udp.2_Intron|SCN9A_uc002udr.1_Missense_Mutation_p.E453D|SCN9A_uc002uds.1_Missense_Mutation_p.E453D|SCN9A_uc002udt.1_Missense_Mutation_p.E453D	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	582						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	CCCTTCTGCTCTCATTGTCTC	0.512													16	46	---	---	---	---	PASS	G	167141191	G	G	167141191	3	3	25	1	0	0	0	0	1	0	0	0	13925	912	32	2	4251	2	SCN9A	2	167141191	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	953147	167141191	76058182	67	10902										
XIRP2	129446	broad.mit.edu	37	chr2	168105274	168105274	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cagatatggaatgtaaaattActacctcaaaggatcagaaa	7	6	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:168105274A>C	uc002udx.2	+	8	7390	c.7372A>C	c.(7372-7374)ACT>CCT	p.T2458P	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.T2283P|XIRP2_uc010fpq.2_Missense_Mutation_p.T2236P|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2283					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ATGTAAAATTACTACCTCAAA	0.388													14	50	---	---	---	---	PASS	C	168105274	C	C	168105274	3	2	25	1	0	0	0	0	1	0	0	0	17427	391	14	5	7402	5	XIRP2	2	168105274	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	964083	168105274	75094099	68	10903										
TTN	7273	broad.mit.edu	37	chr2	179414381	179414381	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgcagaaacacggaattggtAttcattgccgtttattagtt	9	6	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:179414381A>T	uc010zfg.1	-	287	84588	c.84364T>A	c.(84364-84366)TAC>AAC	p.Y28122N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Y21817N|TTN_uc010zfi.1_Missense_Mutation_p.Y21750N|TTN_uc010zfj.1_Missense_Mutation_p.Y21625N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29049							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)			CGGAATTGGTATTCATTGCCG	0.403													11	46	---	---	---	---	PASS	T	179414381	T	T	179414381	3	4	25	1	0	0	0	0	1	0	0	0	16732	449	16	5	16011	5	TTN	2	179414381	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	11309107	179414381	63784992	69	10904										
TTN	7273	broad.mit.edu	37	chr2	179590301	179590301	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aaataggctgggcgccttctAtggatgcttgtaattcagca	11	8	2	0	rs142794598	by1000genomes	TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:179590301A>G	uc010zfg.1	-	68	17122	c.16898T>C	c.(16897-16899)ATA>ACA	p.I5633T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.I2294T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6560							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)			GGCGCCTTCTATGGATGCTTG	0.428													13	39	---	---	---	---	PASS	G	179590301	G	G	179590301	3	3	25	1	0	0	0	0	1	0	0	0	16732	449	16	5	84067	5	TTN	2	179590301	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	175920	179590301	63609072	70	10905										
TTN	7273	broad.mit.edu	37	chr2	179613430	179613430	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	taataggtgattcatgttcaGctcttttagaaattgcaggt	9	5	3	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:179613430G>T	uc002unb.2	-	46	13921	c.13697C>A	c.(13696-13698)GCT>GAT	p.A4566D	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	699							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)			TTCATGTTCAGCTCTTTTAGA	0.338													23	85	---	---	---	---	PASS	T	179613430	T	T	179613430	3	4	25	1	0	0	0	0	1	0	0	0	16732	971	34	3	96600	3	TTN	2	179613430	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	23129	179613430	63585943	71	10906										
SSFA2	6744	broad.mit.edu	37	chr2	182766615	182766615	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cctcagtgacctctaacaagGagacagacccacctccacct	6	17	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:182766615G>T	uc002uoi.2	+	8	1157	c.835G>T	c.(835-837)GAG>TAG	p.E279*	SSFA2_uc002uoh.2_Nonsense_Mutation_p.E279*|SSFA2_uc002uoj.2_Nonsense_Mutation_p.E279*|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Nonsense_Mutation_p.E126*|SSFA2_uc002uol.2_Nonsense_Mutation_p.E126*	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	279						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			CTCTAACAAGGAGACAGACCC	0.423													10	28	---	---	---	---	PASS	T	182766615	T	T	182766615	4	4	25	1	0	0	0	0	0	1	0	0	15182	1175	41	2	865	2	SSFA2	2	182766615	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	3153185	182766615	60432758	72	10907										
PLCL1	5334	broad.mit.edu	37	chr2	198949409	198949409	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	catcagaatgtgacatttttGatcctgagcaaaagaaggtt	9	6	1	5			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:198949409G>C	uc010fsp.2	+	2	1459	c.1168G>C	c.(1168-1170)GAT>CAT	p.D390H	PLCL1_uc002uuv.3_Missense_Mutation_p.D311H	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	390					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TGACATTTTTGATCCTGAGCA	0.393													22	79	---	---	---	---	PASS	C	198949409	C	C	198949409	3	2	25	1	0	0	0	0	1	0	0	0	12039	1290	45	2	1174	2	PLCL1	2	198949409	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	16182794	198949409	44249964	73	10908										
AOX1	316	broad.mit.edu	37	chr2	201523958	201523958	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aacaagcacagaaactgtccCtaatgcaaatatctctggag	7	10	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:201523958C>T	uc002uvx.2	+	28	3343	c.3242C>T	c.(3241-3243)CCT>CTT	p.P1081L	AOX1_uc010zhf.1_Missense_Mutation_p.P637L|AOX1_uc010fsu.2_Missense_Mutation_p.P447L	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	1081					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	GAAACTGTCCCTAATGCAAAT	0.448													5	47	---	---	---	---	PASS	T	201523958	T	T	201523958	3	4	25	1	0	0	0	0	1	0	0	0	729	681	24	3	3352	3	AOX1	2	201523958	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2574549	201523958	41675415	74	10909										
ZDBF2	57683	broad.mit.edu	37	chr2	207146627	207146627	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgtgtgcagtataataacctGgaacaggtgagcggtttcta	12	7	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:207146627G>T	uc002vbp.2	+	3	304	c.54G>T	c.(52-54)CTG>CTT	p.L18L		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	18	DBF4-type.						nucleic acid binding|zinc ion binding			ovary(3)	3						ATAATAACCTGGAACAGGTGA	0.303													10	18	---	---	---	---	PASS	T	207146627	T	T	207146627	2	4	25	1	0	0	0	0	0	0	0	1	17596	1335	47	3		3	ZDBF2	2	207146627	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	5622669	207146627	36052746	75	10910										
SMARCAL1	50485	broad.mit.edu	37	chr2	217329374	217329374	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcaacagaacagctgaagctAaaatcccatctgtcatgtaa	6	10	3	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:217329374A>G	uc002vgc.3	+	13	2455	c.2125A>G	c.(2125-2127)AAA>GAA	p.K709E	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.K709E|SMARCAL1_uc010fvg.2_Missense_Mutation_p.K687E	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	709					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		AGCTGAAGCTAAAATCCCATC	0.383									Schimke_Immuno-Osseous_Dysplasia				4	102	---	---	---	---	PASS	G	217329374	G	G	217329374	3	3	25	1	0	0	0	0	1	0	0	0	14773	363	13	5	2167	5	SMARCAL1	2	217329374	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	10182747	217329374	25869999	76	10911										
USP37	57695	broad.mit.edu	37	chr2	219346935	219346935	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agccacattgaagctatatcGtttcaaatggagaatgagga	10	6	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:219346935G>A	uc002vie.2	-	17	2146	c.1693C>T	c.(1693-1695)CGA>TGA	p.R565*	USP37_uc010fvs.1_Nonsense_Mutation_p.R565*|USP37_uc010zkf.1_Nonsense_Mutation_p.R565*|USP37_uc002vif.2_Nonsense_Mutation_p.R565*|USP37_uc002vig.2_Nonsense_Mutation_p.R493*	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	565					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		AAGCTATATCGTTTCAAATGG	0.378													21	69	---	---	---	---	PASS	A	219346935	A	A	219346935	4	1	25	1	0	0	0	0	0	1	0	0	17065	1153	40	1	1286	1	USP37	2	219346935	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2017561	219346935	23852438	77	10912										
GLB1L	79411	broad.mit.edu	37	chr2	220103844	220103844	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acatctcgaagagcaaaaagCttaggtgtggggtcccctgc	12	10	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:220103844C>T	uc002vkm.2	-	11	1271	c.1032G>A	c.(1030-1032)AAG>AAA	p.K344K	GLB1L_uc002vkk.2_Silent_p.K101K|GLB1L_uc010zkx.1_Silent_p.K254K|GLB1L_uc002vkn.2_Silent_p.K344K	NM_024506	NP_078782	Q6UWU2	GLB1L_HUMAN	galactosidase, beta 1-like precursor	344					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds				0		all_lung(227;1.19e-05)|Lung NSC(271;2.76e-05)|Medulloblastoma(418;0.0208)|Esophageal squamous(248;0.0559)		Epithelial(149;1.3e-11)|all cancers(144;2.07e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GAGCAAAAAGCTTAGGTGTGG	0.458													11	42	---	---	---	---	PASS	T	220103844	T	T	220103844	2	4	25	1	0	0	0	0	0	0	0	1	6428	796	28	3		3	GLB1L	2	220103844	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	756909	220103844	23095529	78	10913										
SPEG	10290	broad.mit.edu	37	chr2	220346038	220346038	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccctgcagtctgacaggaatCtccccgtttgttggggaaaa	11	11	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:220346038C>T	uc010fwg.2	+	27	5382	c.5382C>T	c.(5380-5382)ATC>ATT	p.I1794I		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1794	Protein kinase 1.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		TGACAGGAATCTCCCCGTTTG	0.582													11	42	---	---	---	---	PASS	T	220346038	T	T	220346038	2	4	25	1	0	0	0	0	0	0	0	1	15035	903	32	2		2	SPEG	2	220346038	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	242194	220346038	22853335	79	10914										
IRS1	3667	broad.mit.edu	37	chr2	227662074	227662074	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gcagatatagttgcttagctCctcctcaccgcgggctggtg	12	12	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:227662074C>A	uc002voh.3	-	1	1433	c.1381G>T	c.(1381-1383)GAG>TAG	p.E461*		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	461					fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		TTGCTTAGCTCCTCCTCACCG	0.622											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	109	---	---	---	---	PASS	A	227662074	A	A	227662074	4	1	25	1	0	0	0	0	0	1	0	0	7840	864	30	2	2351	2	IRS1	2	227662074	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	7316036	227662074	15537299	80	10915										
TM4SF20	79853	broad.mit.edu	37	chr2	228243943	228243943	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aacagcagtagaaccagcagGctgaatccattgcaggatgt	11	9	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:228243943G>A	uc002vpb.2	-	1	80	c.42C>T	c.(40-42)AGC>AGT	p.S14S		NM_024795	NP_079071	Q53R12	T4S20_HUMAN	transmembrane 4 L six family member 20	14	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0		Renal(207;0.025)|all_lung(227;0.123)|Esophageal squamous(248;0.23)|all_hematologic(139;0.248)		Epithelial(121;3.8e-11)|all cancers(144;2.57e-08)|Lung(261;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0115)		GAACCAGCAGGCTGAATCCAT	0.473													15	46	---	---	---	---	PASS	A	228243943	A	A	228243943	2	1	25	1	0	0	0	0	0	0	0	1	15966	1194	42	3		3	TM4SF20	2	228243943	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	581869	228243943	14955430	81	10916										
SPHKAP	80309	broad.mit.edu	37	chr2	228882946	228882946	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttgggtggatactctcctcaGcctcctgggaaccacttctg	10	13	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:228882946G>T	uc002vpq.2	-	7	2671	c.2624C>A	c.(2623-2625)GCT>GAT	p.A875D	SPHKAP_uc002vpp.2_Missense_Mutation_p.A875D|SPHKAP_uc010zlx.1_Missense_Mutation_p.A875D	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	875						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		ACTCTCCTCAGCCTCCTGGGA	0.507													153	631	---	---	---	---	PASS	T	228882946	T	T	228882946	3	4	25	1	0	0	0	0	1	0	0	0	15047	971	34	3	2502	3	SPHKAP	2	228882946	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	639003	228882946	14316427	82	10917										
SPHKAP	80309	broad.mit.edu	37	chr2	228884531	228884531	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tacatctttatccatcatggAgaaataagcatcttttggaa	6	7	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:228884531A>T	uc002vpq.2	-	7	1086	c.1039T>A	c.(1039-1041)TCC>ACC	p.S347T	SPHKAP_uc002vpp.2_Missense_Mutation_p.S347T|SPHKAP_uc010zlx.1_Missense_Mutation_p.S347T	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	347						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TCCATCATGGAGAAATAAGCA	0.433													31	97	---	---	---	---	PASS	T	228884531	T	T	228884531	3	4	25	1	0	0	0	0	1	0	0	0	15047	304	11	5	4087	5	SPHKAP	2	228884531	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	1585	228884531	14314842	83	10918										
TRIP12	9320	broad.mit.edu	37	chr2	230659957	230659957	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	actggaaattgttccatctgGctgaggcagttgttcatctt	10	8	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:230659957G>C	uc002vpw.1	-	25	3790	c.3681C>G	c.(3679-3681)AGC>AGG	p.S1227R	TRIP12_uc002vpx.1_Missense_Mutation_p.S1275R|TRIP12_uc002vpy.1_Missense_Mutation_p.S957R	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1227					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)		GTTCCATCTGGCTGAGGCAGT	0.468													15	51	---	---	---	---	PASS	C	230659957	C	C	230659957	3	2	25	1	0	0	0	0	1	0	0	0	16553	1194	42	4	2365	4	TRIP12	2	230659957	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1775426	230659957	12539416	84	10919										
COPS7B	64708	broad.mit.edu	37	chr2	232660884	232660884	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgggaactagaagaccttatCattgaggctgtctacactga	10	9	2	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:232660884C>G	uc002vsg.1	+	5	499	c.396C>G	c.(394-396)ATC>ATG	p.I132M	COPS7B_uc010fxy.1_Missense_Mutation_p.I98M|COPS7B_uc002vsh.1_Missense_Mutation_p.I132M|COPS7B_uc002vsi.1_Missense_Mutation_p.I25M|COPS7B_uc002vsj.1_RNA|COPS7B_uc002vsk.1_Missense_Mutation_p.I25M	NM_022730	NP_073567	Q9H9Q2	CSN7B_HUMAN	COP9 constitutive photomorphogenic homolog	132	PCI.				cullin deneddylation	cytoplasm|signalosome				ovary(1)|liver(1)|skin(1)	3		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Renal(207;0.025)		Epithelial(121;1.36e-12)|BRCA - Breast invasive adenocarcinoma(100;0.00136)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)		AAGACCTTATCATTGAGGCTG	0.488													9	29	---	---	---	---	PASS	G	232660884	G	G	232660884	3	3	25	1	0	0	0	0	1	0	0	0	3739	816	29	2	410	2	COPS7B	2	232660884	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2000927	232660884	10538489	85	10920										
PRR21	643905	broad.mit.edu	37	chr2	240982175	240982175	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agccgtggatgaagggacatGggtgaagagccgtgggtgaa	19	5	0	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:240982175G>T	uc010zod.1	-	1	225	c.225C>A	c.(223-225)CCC>CCA	p.P75P		NM_001080835	NP_001074304	Q8WXC7	PRR21_HUMAN	proline rich 21	75	Pro-rich.									ovary(1)|skin(1)	2						GAAGGGACATGGGTGAAGAGC	0.607													7	19	---	---	---	---	PASS	T	240982175	T	T	240982175	2	4	25	1	0	0	0	0	0	0	0	1	12592	1335	47	3		3	PRR21	2	240982175	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	8321291	240982175	2217198	86	10921										
KIF1A	547	broad.mit.edu	37	chr2	241702689	241702689	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgtctccgcacaaggcgtgcGctcacgctcctgccgggcct	12	18	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:241702689G>C	uc002vzy.2	-	20	1962	c.1816C>G	c.(1816-1818)CGC>GGC	p.R606G	KIF1A_uc010fzk.2_Missense_Mutation_p.R615G|KIF1A_uc002vzz.1_Missense_Mutation_p.R615G	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	606					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		CAAGGCGTGCGCTCACGCTCC	0.632													3	6	---	---	---	---	PASS	C	241702689	C	C	241702689	3	2	25	1	0	0	0	0	1	0	0	0	8283	1087	38	4	3368	4	KIF1A	2	241702689	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	720514	241702689	1496684	87	10922										
GAL3ST2	64090	broad.mit.edu	37	chr2	242741313	242741313	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgcttcgccgagacccacaaCctgtccgtggcgctgcccgc	11	19	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr2:242741313C>A	uc002wcj.1	+	3	368	c.237C>A	c.(235-237)AAC>AAA	p.N79K		NM_022134	NP_071417	Q9H3Q3	G3ST2_HUMAN	galactose-3-O-sulfotransferase 2	79	Lumenal (Potential).				biosynthetic process	Golgi cisterna membrane|integral to membrane	galactosylceramide sulfotransferase activity				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		AGACCCACAACCTGTCCGTGG	0.667													7	51	---	---	---	---	PASS	A	242741313	A	A	242741313	3	1	25	1	0	0	0	0	1	0	0	0	6198	506	18	3	247	3	GAL3ST2	2	242741313	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1038624	242741313	458060	88	10923										
IRAK2	3656	broad.mit.edu	37	chr3	10268100	10268100	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tccctgcaatggataacaacCgaagcccggtttacctggta	9	12	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:10268100C>T	uc003bve.1	+	10	1331	c.1255C>T	c.(1255-1257)CGA>TGA	p.R419*		NM_001570	NP_001561	O43187	IRAK2_HUMAN	interleukin-1 receptor-associated kinase 2	419	Protein kinase.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|endosome membrane|plasma membrane	ATP binding|NF-kappaB-inducing kinase activity|protein heterodimerization activity|protein homodimerization activity			lung(5)|breast(3)	8						GGATAACAACCGAAGCCCGGT	0.542													5	11	---	---	---	---	PASS	T	10268100	T	T	10268100	4	4	25	1	0	0	0	0	0	1	0	0	7823	644	23	1	1293	1	IRAK2	3	10268100	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08		10268100	187754330	89	10924										
ATP2B2	491	broad.mit.edu	37	chr3	10413681	10413681	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gcagatggctgtggcattgcCcatggtctcacaggcatcca	12	12	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:10413681C>A	uc003bvt.2	-	12	1910	c.1471G>T	c.(1471-1473)GGC>TGC	p.G491C	ATP2B2_uc003bvv.2_Missense_Mutation_p.G446C|ATP2B2_uc003bvw.2_Missense_Mutation_p.G446C|ATP2B2_uc010hdo.2_Missense_Mutation_p.G196C	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	491	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						GTGGCATTGCCCATGGTCTCA	0.557													17	26	---	---	---	---	PASS	A	10413681	A	A	10413681	3	1	25	1	0	0	0	0	1	0	0	0	1140	623	22	3	2308	3	ATP2B2	3	10413681	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	145581	10413681	187608749	90	10925										
DOCK3	1795	broad.mit.edu	37	chr3	51308303	51308303	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agcttctgcaaatgttcaccGtgcaagaggtggcagagttt	12	8	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:51308303G>A	uc011bds.1	+	24	2436	c.2413G>A	c.(2413-2415)GTG>ATG	p.V805M		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	805						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding	p.V805L(2)			0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		AATGTTCACCGTGCAAGAGGT	0.522													3	38	---	---	---	---	PASS	A	51308303	A	A	51308303	3	1	25	1	0	0	0	0	1	0	0	0	4688	1145	40	1	2507	1	DOCK3	3	51308303	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	40894622	51308303	146714127	91	10926										
VPRBP	9730	broad.mit.edu	37	chr3	51452138	51452138	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aaaacaccactgatgttcatAttgaacttgtcaaacttgtg	6	8	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:51452138A>G	uc003dbe.1	-	18	3945	c.3777T>C	c.(3775-3777)AAT>AAC	p.N1259N	VPRBP_uc003dbf.1_Silent_p.N535N	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	1259	WD 5.				interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		TGATGTTCATATTGAACTTGT	0.418													16	40	---	---	---	---	PASS	G	51452138	G	G	51452138	2	3	25	1	0	0	0	0	0	0	0	1	17182	446	16	5		5	VPRBP	3	51452138	Silent	SNP	A	TCGA-21-5782-01A-01D-1632-08	143835	51452138	146570292	92	10927										
PROS1	5627	broad.mit.edu	37	chr3	93603660	93603660	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	caatgcttattttgtttttcTtgaataatttcctttattcc	3	7	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:93603660T>C	uc003drb.3	-	12	1745	c.1404A>G	c.(1402-1404)CAA>CAG	p.Q468Q	PROS1_uc010hoo.2_Silent_p.Q337Q|PROS1_uc003dqz.3_Silent_p.Q337Q	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	468	Laminin G-like 1.				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	TTTGTTTTTCTTGAATAATTT	0.353													12	49	---	---	---	---	PASS	C	93603660	C	C	93603660	2	2	25	1	0	0	0	0	0	0	0	1	12558	1606	56	5		5	PROS1	3	93603660	Silent	SNP	T	TCGA-21-5782-01A-01D-1632-08	42151522	93603660	104418770	93	10928										
ZBTB11	27107	broad.mit.edu	37	chr3	101375038	101375038	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gaactgcttctgtgattgatGaagactctgatgtaatttta	9	5	2	5			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:101375038G>A	uc003dve.3	-	7	2331	c.2101C>T	c.(2101-2103)CAT>TAT	p.H701Y		NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	701	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TGTGATTGATGAAGACTCTGA	0.363													12	42	---	---	---	---	PASS	A	101375038	A	A	101375038	3	1	25	1	0	0	0	0	1	0	0	0	17521	1290	45	2	1080	2	ZBTB11	3	101375038	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	7771378	101375038	96647392	94	10929										
MYH15	22989	broad.mit.edu	37	chr3	108107918	108107918	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cagttcaccttccagttcacGaacctgcaaccaaaacgtga	6	14	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:108107918G>T	uc003dxa.1	-	39	5551	c.5494C>A	c.(5494-5496)CGT>AGT	p.R1832S		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1832	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TCCAGTTCACGAACCTGCAAC	0.517													13	74	---	---	---	---	PASS	T	108107918	T	T	108107918	3	4	25	1	0	0	0	0	1	0	0	0	10034	1058	37	2	362	2	MYH15	3	108107918	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	6732880	108107918	89914512	95	10930										
SLC9A10	285335	broad.mit.edu	37	chr3	111927206	111927206	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atactattgtatggcatataCgaaaaaagaagtatctgtaa	7	4	1	1	rs142600000		TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:111927206C>T	uc003dyu.2	-	16	2027	c.1805G>A	c.(1804-1806)CGT>CAT	p.R602H	SLC9A10_uc011bhu.1_Intron|SLC9A10_uc010hqc.2_Missense_Mutation_p.R554H	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	602	Ion transport-like.				cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						ATGGCATATACGAAAAAAGAA	0.274													23	81	---	---	---	---	PASS	T	111927206	T	T	111927206	3	4	25	1	0	0	0	0	1	0	0	0	14710	536	19	1	1784	1	SLC9A10	3	111927206	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	3819288	111927206	86095224	96	10931										
CCDC52	152185	broad.mit.edu	37	chr3	113184568	113184568	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agcatcaatgagctctcgatGatcacctaatacttgttcca	6	11	3	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:113184568G>A	uc003eag.3	-	11	1510	c.1219C>T	c.(1219-1221)CAT>TAT	p.H407Y	CCDC52_uc003eaf.3_RNA|CCDC52_uc003eah.1_Missense_Mutation_p.H303Y	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52	407	Potential.				cell division|mitosis	centriole|spindle	protein binding				0						AGCTCTCGATGATCACCTAAT	0.388													13	81	---	---	---	---	PASS	A	113184568	A	A	113184568	3	1	25	1	0	0	0	0	1	0	0	0	2822	1290	45	2	1380	2	CCDC52	3	113184568	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1257362	113184568	84837862	97	10932										
SIDT1	54847	broad.mit.edu	37	chr3	113286437	113286437	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gagccgcaccttatgtccctCagaagcaaccaatgagacgg	10	13	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:113286437C>T	uc003eak.2	+	3	1046	c.395C>T	c.(394-396)TCA>TTA	p.S132L	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Missense_Mutation_p.S132L|SIDT1_uc011big.1_5'UTR	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	132	Extracellular (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						TTATGTCCCTCAGAAGCAACC	0.473													24	123	---	---	---	---	PASS	T	113286437	T	T	113286437	3	4	25	1	0	0	0	0	1	0	0	0	14302	838	29	2	405	2	SIDT1	3	113286437	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	101869	113286437	84735993	98	10933										
IGSF11	152404	broad.mit.edu	37	chr3	118649069	118649069	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	caggactgctggctgaccccGggccacctggatactcccag	12	16	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:118649069G>T	uc003ebw.2	-	2	353	c.106C>A	c.(106-108)CGG>AGG	p.R36R	IGSF11_uc011biv.1_Silent_p.R36R|IGSF11_uc003ebx.2_Silent_p.R36R|IGSF11_uc003eby.2_Silent_p.R35R|IGSF11_uc003ebz.2_Silent_p.R35R|IGSF11_uc010hqs.2_Silent_p.R35R	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	36	Ig-like V-type.|Extracellular (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						GGCTGACCCCGGGCCACCTGG	0.552													20	53	---	---	---	---	PASS	T	118649069	T	T	118649069	2	4	25	1	0	0	0	0	0	0	0	1	7598	1115	39	1		1	IGSF11	3	118649069	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	5362632	118649069	79373361	99	10934										
KALRN	8997	broad.mit.edu	37	chr3	124165652	124165652	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	caggtgaattttacctctcaAcacatacctccactggagag	7	12	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:124165652A>C	uc003ehg.2	+	21	3593	c.3466A>C	c.(3466-3468)ACA>CCA	p.T1156P	KALRN_uc010hrv.1_Missense_Mutation_p.T1147P|KALRN_uc003ehf.1_Missense_Mutation_p.T1156P|KALRN_uc011bjy.1_Missense_Mutation_p.T1147P|KALRN_uc003ehh.1_Missense_Mutation_p.T502P	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1156	Spectrin 5.				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						TTACCTCTCAACACATACCTC	0.493													27	114	---	---	---	---	PASS	C	124165652	C	C	124165652	3	2	25	1	0	0	0	0	1	0	0	0	7975	43	2	5	3548	5	KALRN	3	124165652	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	5516583	124165652	73856778	100	10935										
C3orf37	56941	broad.mit.edu	37	chr3	129020813	129020813	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gatgcctgccatattagatgGagaggaggcagtttctaaat	12	6	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:129020813G>T	uc003elt.2	+	6	744	c.656G>T	c.(655-657)GGA>GTA	p.G219V	C3orf37_uc003elu.2_Missense_Mutation_p.G177V|C3orf37_uc003elv.2_Missense_Mutation_p.G219V|C3orf37_uc003elw.2_Missense_Mutation_p.G219V	NM_020187	NP_064572	Q96FZ2	CC037_HUMAN	hypothetical protein LOC56941	219										ovary(1)	1						ATATTAGATGGAGAGGAGGCA	0.473													48	70	---	---	---	---	PASS	T	129020813	T	T	129020813	3	4	25	1	0	0	0	0	1	0	0	0	2227	1174	41	2	674	2	C3orf37	3	129020813	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	4855161	129020813	69001617	101	10936										
PRR23B	389151	broad.mit.edu	37	chr3	138739131	138739131	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gacagcgcccaggaaaacgtCcacttccagcccggcagacg	11	16	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:138739131C>A	uc003esy.1	-	1	638	c.373G>T	c.(373-375)GAC>TAC	p.D125Y		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	125										breast(1)	1						AGGAAAACGTCCACTTCCAGC	0.632													24	44	---	---	---	---	PASS	A	138739131	A	A	138739131	3	1	25	1	0	0	0	0	1	0	0	0	12595	855	30	2	428	2	PRR23B	3	138739131	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	9718318	138739131	59283299	102	10937										
GPR171	29909	broad.mit.edu	37	chr3	150916843	150916843	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgtcagctgaagacagcggtCaatgctgacaaatgctaaga	11	8	2	4	rs151172001		TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:150916843C>T	uc003eyq.3	-	3	571	c.331G>A	c.(331-333)GAC>AAC	p.D111N	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_013308	NP_037440	O14626	GP171_HUMAN	G protein-coupled receptor 171	111	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AGACAGCGGTCAATGCTGACA	0.428													23	103	---	---	---	---	PASS	T	150916843	T	T	150916843	3	4	25	1	0	0	0	0	1	0	0	0	6668	826	29	2	632	2	GPR171	3	150916843	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	12177712	150916843	47105587	103	10938										
P2RY1	5028	broad.mit.edu	37	chr3	152553988	152553988	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtgaacctctatggcagcatCttgtttctgacatgcatcag	9	10	4	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:152553988C>G	uc003ezq.2	+	1	1253	c.417C>G	c.(415-417)ATC>ATG	p.I139M		NM_002563	NP_002554	P47900	P2RY1_HUMAN	purinergic receptor P2Y1	139	Helical; Name=3; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			ATGGCAGCATCTTGTTTCTGA	0.498													16	75	---	---	---	---	PASS	G	152553988	G	G	152553988	3	3	25	1	0	0	0	0	1	0	0	0	11346	903	32	2	419	2	P2RY1	3	152553988	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1637145	152553988	45468442	104	10939										
IL12A	3592	broad.mit.edu	37	chr3	159711632	159711632	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttattgatgagctgatgcagGtaagacttcattctatcagt	9	6	3	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:159711632G>C	uc003fcx.2	+	6	821	c.606_splice	c.e6+1	p.Q202_splice	uc003fcw.1_Intron	NM_000882	NP_000873	P29459	IL12A_HUMAN	interleukin 12A precursor						cell cycle arrest|cell migration|defense response to Gram-positive bacterium|immune response|negative regulation of interleukin-17 production|negative regulation of smooth muscle cell proliferation|positive regulation of cell adhesion|positive regulation of interferon-gamma production|positive regulation of natural killer cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|positive regulation of NK T cell activation|positive regulation of smooth muscle cell apoptosis|positive regulation of T cell mediated cytotoxicity|positive regulation of tyrosine phosphorylation of Stat4 protein|response to lipopolysaccharide|response to UV-B|response to virus	interleukin-12 complex	cytokine activity|growth factor activity|interleukin-12 receptor binding|interleukin-27 binding|protein heterodimerization activity				0			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			GCTGATGCAGGTAAGACTTCA	0.413													12	190	---	---	---	---	PASS	C	159711632	C	C	159711632	5	2	25	1	0	0	0	0	0	0	1	0	7624	1275	44	4	629	4	IL12A	3	159711632	Splice_Site	SNP	G	TCGA-21-5782-01A-01D-1632-08	7157644	159711632	38310798	105	10940										
KPNA4	3840	broad.mit.edu	37	chr3	160219892	160219892	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctaacttccacaacatctttCtaaaactggaacccttctgt	3	13	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:160219892C>T	uc003fdn.2	-	17	1872	c.1566G>A	c.(1564-1566)TAG>TAA	p.*522*		NM_002268	NP_002259	O00629	IMA4_HUMAN	karyopherin alpha 4	522					NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			CAACATCTTTCTAAAACTGGA	0.308													25	153	---	---	---	---	PASS	T	160219892	T	T	160219892	2	4	25	1	0	0	0	0	0	0	0	1	8432	924	32	2		2	KPNA4	3	160219892	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	508260	160219892	37802538	106	10941										
SLITRK3	22865	broad.mit.edu	37	chr3	164908292	164908292	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atgtcctgcaatgcattgttCccaagattaatagacacagc	7	10	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:164908292C>T	uc003fej.3	-	2	771	c.327G>A	c.(325-327)GGG>GGA	p.G109G	SLITRK3_uc003fek.2_Silent_p.G109G	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	109	LRR 2.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						ATGCATTGTTCCCAAGATTAA	0.338										HNSCC(40;0.11)			12	93	---	---	---	---	PASS	T	164908292	T	T	164908292	2	4	25	1	0	0	0	0	0	0	0	1	14744	842	30	2		2	SLITRK3	3	164908292	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	4688400	164908292	33114138	107	10942										
PIK3CA	5290	broad.mit.edu	37	chr3	178952085	178952085	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gaaacaaatgaatgatgcacAtcatggtggctggacaacaa	10	7	1	2	rs121913279		TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:178952085A>G	uc003fjk.2	+	21	3297	c.3140A>G	c.(3139-3141)CAT>CGT	p.H1047R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1047	PI3K/PI4K.		H -> L (in cancer).|H -> R (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; requires binding to p85 regulatory subunit to induce cellular transformation but not interaction with RAS; may mimic the conformatitonal change triggered by the interaction with RAS; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells; increases lipid kinase activity; may alter the interaction of the PI3K/ PI4K kinase domain with the cell membrane).|H -> Y (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.H1047R(1269)|p.H1047L(152)|p.H1047Y(31)|p.H1047Q(3)|p.H1047T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AATGATGCACATCATGGTGGC	0.378	H1047R(BT20_BREAST)|H1047R(NCIH1048_LUNG)|H1047R(MCAS_OVARY)|H1047R(HCC1954_BREAST)|H1047R(RKO_LARGE_INTESTINE)|H1047L(EFM19_BREAST)|H1047R(CAL33_UPPER_AERODIGESTIVE_TRACT)|H1047R(CAL29_URINARY_TRACT)|H1047R(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|H1047R(LS180_LARGE_INTESTINE)|H1047R(T47D_BREAST)|H1047R(HCT116_LARGE_INTESTINE)|H1047R(HSC2_UPPER_AERODIGESTIVE_TRACT)|H1047R(SKOV3_OVARY)|H1047R(MDAMB453_BREAST)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			62	57	---	---	---	---	PASS	G	178952085	G	G	178952085	3	3	25	1	0	0	0	0	1	0	0	0	11913	217	8	5	3218	5	PIK3CA	3	178952085	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	14043793	178952085	19070345	108	10943										
HTR3C	170572	broad.mit.edu	37	chr3	183777983	183777983	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agggaagaagctgggacccaGagagaccgagccagatgggg	18	8	0	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:183777983G>C	uc003fmk.2	+	9	1221	c.1187G>C	c.(1186-1188)AGA>ACA	p.R396T		NM_130770	NP_570126	Q8WXA8	5HT3C_HUMAN	5-hydroxytryptamine receptor 3 subunit C	396	Cytoplasmic (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)			CTGGGACCCAGAGAGACCGAG	0.607													13	85	---	---	---	---	PASS	C	183777983	C	C	183777983	3	2	25	1	0	0	0	0	1	0	0	0	7446	942	33	2	1221	2	HTR3C	3	183777983	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	4825898	183777983	14244447	109	10944										
EIF4G1	1981	broad.mit.edu	37	chr3	184039394	184039394	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggttccagaatctgagttttCttccagtcctctccaggctc	8	13	3	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:184039394C>A	uc003fnp.2	+	10	1220	c.1022C>A	c.(1021-1023)TCT>TAT	p.S341Y	EIF4G1_uc003fno.1_Missense_Mutation_p.S282Y|EIF4G1_uc010hxw.1_Missense_Mutation_p.S177Y|EIF4G1_uc003fnt.2_Missense_Mutation_p.S52Y|EIF4G1_uc003fnq.2_Missense_Mutation_p.S254Y|EIF4G1_uc003fnr.2_Missense_Mutation_p.S177Y|EIF4G1_uc010hxx.2_Missense_Mutation_p.S348Y|EIF4G1_uc003fns.2_Missense_Mutation_p.S301Y|EIF4G1_uc010hxy.2_Missense_Mutation_p.S348Y|EIF4G1_uc003fnv.3_Missense_Mutation_p.S341Y|EIF4G1_uc003fnu.3_Missense_Mutation_p.S341Y|EIF4G1_uc003fnw.2_Missense_Mutation_p.S348Y|EIF4G1_uc003fnx.2_Missense_Mutation_p.S145Y|EIF4G1_uc003fny.3_Missense_Mutation_p.S145Y	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	341					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCTGAGTTTTCTTCCAGTCCT	0.527													10	160	---	---	---	---	PASS	A	184039394	A	A	184039394	3	1	25	1	0	0	0	0	1	0	0	0	5036	913	32	2	1052	2	EIF4G1	3	184039394	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	261411	184039394	13983036	110	10945										
MAGEF1	64110	broad.mit.edu	37	chr3	184429387	184429387	+	Frame_Shift_Del	DEL	G	-	-													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgccaccgtccgattcagccGgcggtaggccctgcgccttg							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:184429387delG	uc003fpa.2	-	1	450	c.223delC	c.(223-225)CGGfs	p.R75fs		NM_022149	NP_071432	Q9HAY2	MAGF1_HUMAN	melanoma antigen family F, 1	75										ovary(1)	1	all_cancers(143;4.61e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;5.64e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.56e-22)			CGATTCAGCCGGCGGTAGGCC	0.647													137	100	---	---	---	---		-	184429387	-	-	184429387	7	5	25	1	0	1	0	1	0	0	0	0	9187	1115	39	0	704	0	MAGEF1	3	184429387	Frame_Shift_Del	DEL	G	TCGA-21-5782-01A-01D-1632-08	389993	184429387	13593043	111	10946										
MAP3K13	9175	broad.mit.edu	37	chr3	185169078	185169078	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtctttttcacttttaggcaGagtaaacctcgaaaccgacc	7	11	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:185169078G>C	uc010hyf.2	+	8	1439	c.1173G>C	c.(1171-1173)CAG>CAC	p.Q391H	MAP3K13_uc011brt.1_Missense_Mutation_p.Q184H|MAP3K13_uc003fph.3_Missense_Mutation_p.Q159H|MAP3K13_uc011bru.1_Missense_Mutation_p.Q247H|MAP3K13_uc003fpi.2_Missense_Mutation_p.Q391H|MAP3K13_uc010hyg.2_Missense_Mutation_p.Q81H	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	391	Protein kinase.				activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			CTTTTAGGCAGAGTAAACCTC	0.373													15	87	---	---	---	---	PASS	C	185169078	C	C	185169078	3	2	25	1	0	0	0	0	1	0	0	0	9247	933	33	2	1195	2	MAP3K13	3	185169078	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	739691	185169078	12853352	112	10947										
TRA2B	6434	broad.mit.edu	37	chr3	185641673	185641673	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atatacaatagacacatcggCaatgggaccatatttagaga	8	7	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:185641673C>A	uc003fpv.2	-	4	709	c.433G>T	c.(433-435)GCC>TCC	p.A145S	TRA2B_uc003fpt.2_RNA|TRA2B_uc003fpu.2_RNA|TRA2B_uc010hym.2_Missense_Mutation_p.A45S|TRA2B_uc003fpw.2_Missense_Mutation_p.A145S	NM_004593	NP_004584	P62995	TRA2B_HUMAN	splicing factor, arginine/serine-rich 10	145	RRM.				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)	2						GACACATCGGCAATGGGACCA	0.403													17	101	---	---	---	---	PASS	A	185641673	A	A	185641673	3	1	25	1	0	0	0	0	1	0	0	0	16431	710	25	3	457	3	TRA2B	3	185641673	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	472595	185641673	12380757	113	10948										
EIF4A2	1974	broad.mit.edu	37	chr3	186503789	186503789	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aggctgaagcaccacatattGttgttggtacacccgggaga	12	9	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:186503789G>A	uc003fqs.2	+	5	505	c.466G>A	c.(466-468)GTT>ATT	p.V156I	EIF4A2_uc003fqt.2_RNA|EIF4A2_uc003fqu.2_Missense_Mutation_p.V157I|EIF4A2_uc003fqv.2_Missense_Mutation_p.V61I|EIF4A2_uc003fqw.2_Missense_Mutation_p.V61I|EIF4A2_uc011bsb.1_Missense_Mutation_p.V29I|MIR1248_hsa-mir-1248|MI0006383_5'Flank|SNORA81_uc010hyv.1_5'Flank|SNORA63_uc010hyw.1_5'Flank|SNORA4_uc010hyx.1_5'Flank	NM_001967	NP_001958	Q14240	IF4A2_HUMAN	eukaryotic translation initiation factor 4A2	156	Helicase ATP-binding.				interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|protein binding|translation initiation factor activity			ovary(2)|breast(2)	4	all_cancers(143;2.68e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.07e-20)	GBM - Glioblastoma multiforme(93;0.0704)		ACCACATATTGTTGTTGGTAC	0.383			T	BCL6	NHL								7	161	---	---	---	---	PASS	A	186503789	A	A	186503789	3	1	25	1	0	0	0	0	1	0	0	0	5025	1377	48	3	484	3	EIF4A2	3	186503789	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	862116	186503789	11518641	114	10949										
MASP1	5648	broad.mit.edu	37	chr3	186940936	186940936	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tccatcagggtctctgggaaCctttgcaagaactgcttccc	9	13	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:186940936C>A	uc003frh.1	-	14	2120	c.1788G>T	c.(1786-1788)AGG>AGT	p.R596S		NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	596	Peptidase S1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		TCTCTGGGAACCTTTGCAAGA	0.522													12	57	---	---	---	---	PASS	A	186940936	A	A	186940936	3	1	25	1	0	0	0	0	1	0	0	0	9322	506	18	3	323	3	MASP1	3	186940936	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	437147	186940936	11081494	115	10950										
ZDHHC19	131540	broad.mit.edu	37	chr3	195937563	195937563	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aggacaaagagggagcctgtGataacaggaaaggcccactc	13	9	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr3:195937563G>A	uc003fwc.2	-	2	306	c.192C>T	c.(190-192)ATC>ATT	p.I64I	ZDHHC19_uc010hzz.2_RNA|ZDHHC19_uc010iaa.2_Intron|ZDHHC19_uc010iab.2_RNA	NM_001039617	NP_001034706	Q8WVZ1	ZDH19_HUMAN	zinc finger, DHHC domain containing 19	64	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			ovary(3)	3	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.89e-25)|all cancers(36;1.46e-23)|OV - Ovarian serous cystadenocarcinoma(49;2.1e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0022)		GGGAGCCTGTGATAACAGGAA	0.582													10	51	---	---	---	---	PASS	A	195937563	A	A	195937563	2	1	25	1	0	0	0	0	0	0	0	1	17606	1280	45	2		2	ZDHHC19	3	195937563	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	8996627	195937563	2084867	116	10951										
ZFYVE28	57732	broad.mit.edu	37	chr4	2274986	2274986	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gaatacttctcaggtcactgGcatagttcgtctgcagctgg	11	10	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:2274986G>T	uc003gex.1	-	10	2556	c.2237C>A	c.(2236-2238)GCC>GAC	p.A746D	ZFYVE28_uc011bvk.1_Missense_Mutation_p.A676D|ZFYVE28_uc011bvl.1_Missense_Mutation_p.A716D|ZFYVE28_uc003gew.1_Missense_Mutation_p.A632D	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	746					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						CAGGTCACTGGCATAGTTCGT	0.532													12	27	---	---	---	---	PASS	T	2274986	T	T	2274986	3	4	25	1	0	0	0	0	1	0	0	0	17667	1203	42	3	442	3	ZFYVE28	4	2274986	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08		2274986	188879290	117	10952										
CRMP1	1400	broad.mit.edu	37	chr4	5868476	5868476	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtccacctttgatgaggagtCggtcactctgcaaagcaagg	12	10	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:5868476C>G	uc003gip.2	-	3	148	c.47G>C	c.(46-48)CGA>CCA	p.R16P	CRMP1_uc003gin.1_5'UTR|CRMP1_uc003giq.2_Missense_Mutation_p.R16P|CRMP1_uc003gir.2_Missense_Mutation_p.R11P|CRMP1_uc003gis.2_Missense_Mutation_p.R130P	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	16					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		GATGAGGAGTCGGTCACTCTG	0.373													21	35	---	---	---	---	PASS	G	5868476	G	G	5868476	3	3	25	1	0	0	0	0	1	0	0	0	3890	884	31	2	1723	2	CRMP1	4	5868476	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	3593490	5868476	185285800	118	10953										
CD38	952	broad.mit.edu	37	chr4	15839788	15839788	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	taaaatctttgacaaaaacaGgtacacatttattttgcatc	4	7	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:15839788G>A	uc011bxc.1	+	5	766	c.659G>A	c.(658-660)AGC>AAC	p.S220N	CD38_uc003gol.1_Missense_Mutation_p.S220N	NM_001775	NP_001766	P28907	CD38_HUMAN	CD38 antigen	220	Extracellular (Potential).				B cell receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of apoptosis|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of transcription, DNA-dependent|response to drug	integral to membrane|plasma membrane	binding|NAD+ nucleosidase activity|receptor activity			ovary(2)	2						GACAAAAACAGGTACACATTT	0.368													5	20	---	---	---	---	PASS	A	15839788	A	A	15839788	3	1	25	1	0	0	0	0	1	0	0	0	3009	1014	35	3	677	3	CD38	4	15839788	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	9971312	15839788	175314488	119	10954										
ANAPC4	29945	broad.mit.edu	37	chr4	25419243	25419243	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tttttccctctttaggctagAtgaacagtgtagtgctattc	8	8	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:25419243A>G	uc003gro.2	+	28	2210	c.2081A>G	c.(2080-2082)GAT>GGT	p.D694G	ANAPC4_uc003grp.2_Missense_Mutation_p.D580G|ANAPC4_uc003grq.2_Missense_Mutation_p.D147G	NM_013367	NP_037499	Q9UJX5	APC4_HUMAN	anaphase-promoting complex subunit 4	694					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding|ubiquitin-protein ligase activity			ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5		Breast(46;0.0503)				TTTAGGCTAGATGAACAGTGT	0.413													23	72	---	---	---	---	PASS	G	25419243	G	G	25419243	3	3	25	1	0	0	0	0	1	0	0	0	604	333	12	5	2187	5	ANAPC4	4	25419243	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	9579455	25419243	165735033	120	10955										
EXOC1	55763	broad.mit.edu	37	chr4	56737265	56737265	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggtgtgtttgcatatattctAgaaccacatggacttggcca	10	8	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:56737265A>G	uc003hbe.1	+	7	990	c.832_splice	c.e7-2	p.N278_splice	EXOC1_uc003hbf.1_Splice_Site_p.N278_splice|EXOC1_uc003hbg.1_Splice_Site_p.N278_splice	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1						exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					CATATATTCTAGAACCACATG	0.413													11	47	---	---	---	---	PASS	G	56737265	G	G	56737265	5	3	25	1	0	0	0	0	0	0	1	0	5301	434	15	5	852	5	EXOC1	4	56737265	Splice_Site	SNP	A	TCGA-21-5782-01A-01D-1632-08	31318022	56737265	134417011	121	10956										
TMPRSS11B	132724	broad.mit.edu	37	chr4	69094472	69094472	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agacatacctgacatgcatcAgcttctcctgacataaatcc	5	13	2	3	rs34044450	byFrequency	TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:69094472A>G	uc003hdw.3	-	9	1213	c.1077T>C	c.(1075-1077)GCT>GCC	p.A359A		NM_182502	NP_872308	Q86T26	TM11B_HUMAN	transmembrane protease, serine 11B	359	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						GACATGCATCAGCTTCTCCTG	0.323													12	51	---	---	---	---	PASS	G	69094472	G	G	69094472	2	3	25	1	0	0	0	0	0	0	0	1	16237	175	7	5		5	TMPRSS11B	4	69094472	Silent	SNP	A	TCGA-21-5782-01A-01D-1632-08	12357207	69094472	122059804	122	10957										
UGT2A1	10941	broad.mit.edu	37	chr4	70462038	70462038	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgtaaggtttttgaccattGatcccagagaaaacaccaca	7	10	0	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:70462038G>T	uc003hem.3	-	3	989	c.926C>A	c.(925-927)TCA>TAA	p.S309*	UGT2A1_uc011caq.1_Intron|UGT2A1_uc010ihu.2_Intron|UGT2A1_uc010iht.2_Intron|UGT2A1_uc010ihs.2_Nonsense_Mutation_p.S310*	NM_006798	NP_006789	Q9Y4X1	UD2A1_HUMAN	UDP glucuronosyltransferase 2 family,	309	Extracellular (Potential).				detection of chemical stimulus|sensory perception of smell	integral to membrane	glucuronosyltransferase activity|glucuronosyltransferase activity			ovary(1)	1						TTTGACCATTGATCCCAGAGA	0.413													12	35	---	---	---	---	PASS	T	70462038	T	T	70462038	4	4	25	1	0	0	0	0	0	1	0	0	16950	1294	45	2	673	2	UGT2A1	4	70462038	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1367566	70462038	120692238	123	10958										
C4orf35	85438	broad.mit.edu	37	chr4	71201608	71201608	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aaagataaacgggaagatacTctgctaactgatgaagaaac	9	6	1	5			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:71201608T>A	uc003hff.2	+	1	938	c.852T>A	c.(850-852)ACT>ACA	p.T284T		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	284						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				GGGAAGATACTCTGCTAACTG	0.428													15	40	---	---	---	---	PASS	A	71201608	A	A	71201608	2	1	25	1	0	0	0	0	0	0	0	1	2265	1538	54	5		5	C4orf35	4	71201608	Silent	SNP	T	TCGA-21-5782-01A-01D-1632-08	739570	71201608	119952668	124	10959										
PRDM8	56978	broad.mit.edu	37	chr4	81124467	81124467	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgctgccgccctccttcacCtcgctgtgtctgcccgcgca	9	20	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:81124467C>T	uc010ijo.2	+	8	2690	c.1851C>T	c.(1849-1851)ACC>ACT	p.T617T	PRDM8_uc003hmb.3_Silent_p.T617T|PRDM8_uc003hmc.3_Silent_p.T617T	NM_020226	NP_064611	Q9NQV8	PRDM8_HUMAN	PR domain containing 8	617					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						cCTCCTTCACCTCGCTGTGTC	0.338													5	14	---	---	---	---	PASS	T	81124467	T	T	81124467	2	4	25	1	0	0	0	0	0	0	0	1	12462	668	24	3		3	PRDM8	4	81124467	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	9922859	81124467	110029809	125	10960										
PRKG2	5593	broad.mit.edu	37	chr4	82126129	82126129	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgtcaccttgttccgcagagCatcagtggtgaggttcccag	12	11	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:82126129C>A	uc003hmh.2	-	1	87	c.73G>T	c.(73-75)GCT>TCT	p.A25S	PRKG2_uc011cch.1_Missense_Mutation_p.A25S	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	25					platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						TTCCGCAGAGCATCAGTGGTG	0.527													7	32	---	---	---	---	PASS	A	82126129	A	A	82126129	3	1	25	1	0	0	0	0	1	0	0	0	12523	710	25	3	2287	3	PRKG2	4	82126129	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1001662	82126129	109028147	126	10961										
HELQ	113510	broad.mit.edu	37	chr4	84342756	84342756	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aagatgagaatgaggcagttCcagtgagaagattttgtata	12	3	0	5			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:84342756C>G	uc003hom.2	-	15	3088	c.2909G>C	c.(2908-2910)GGA>GCA	p.G970A	HELQ_uc010ikb.2_Missense_Mutation_p.G903A|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	970							ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						TGAGGCAGTTCCAGTGAGAAG	0.333								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					4	24	---	---	---	---	PASS	G	84342756	G	G	84342756	3	3	25	1	0	0	0	0	1	0	0	0	7047	855	30	2	412	2	HELQ	4	84342756	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2216627	84342756	106811520	127	10962										
WDFY3	23001	broad.mit.edu	37	chr4	85750243	85750243	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gaaacatcgctggaatctttGaggaaacaagaaagcccagc	10	9	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:85750243G>A	uc003hpd.2	-	9	1278	c.870C>T	c.(868-870)CTC>CTT	p.L290L	WDFY3_uc003hpf.2_Silent_p.L290L	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	290						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TGGAATCTTTGAGGAAACAAG	0.393													18	60	---	---	---	---	PASS	A	85750243	A	A	85750243	2	1	25	1	0	0	0	0	0	0	0	1	17267	1277	45	2		2	WDFY3	4	85750243	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	1407487	85750243	105404033	128	10963										
HERC6	55008	broad.mit.edu	37	chr4	89358063	89358063	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aaaatcttcattaggagtttGcaagaagttctagatgatgc	9	5	3	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:89358063G>A	uc011cdi.1	+	19	2607	c.2424G>A	c.(2422-2424)TTG>TTA	p.L808L	HERC6_uc011cdj.1_Silent_p.L772L|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	808	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		TTAGGAGTTTGCAAGAAGTTC	0.299													5	18	---	---	---	---	PASS	A	89358063	A	A	89358063	2	1	25	1	0	0	0	0	0	0	0	1	7062	1310	46	3		3	HERC6	4	89358063	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	3607820	89358063	101796213	129	10964										
MTTP	4547	broad.mit.edu	37	chr4	100534143	100534143	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gggggaggagaaccttgactCctatgctggtatgtcagcca	14	9	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:100534143C>A	uc003hvc.3	+	16	2319	c.2063C>A	c.(2062-2064)TCC>TAC	p.S688Y	MTTP_uc011cej.1_Missense_Mutation_p.S715Y	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	688					lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	AACCTTGACTCCTATGCTGGT	0.463													21	64	---	---	---	---	PASS	A	100534143	A	A	100534143	3	1	25	1	0	0	0	0	1	0	0	0	9964	855	30	2	2121	2	MTTP	4	100534143	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	11176080	100534143	90620133	130	10965										
PCDH10	57575	broad.mit.edu	37	chr4	134073621	134073621	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cctgctgtggccgccaagccCgggcgcgcaagaagaaactc	13	15	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:134073621C>A	uc003iha.2	+	1	3152	c.2326C>A	c.(2326-2328)CGG>AGG	p.R776R	PCDH10_uc003igz.2_Silent_p.R776R	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	776	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CCGCCAAGCCCGGGCGCGCAA	0.602													8	16	---	---	---	---	PASS	A	134073621	A	A	134073621	2	1	25	1	0	0	0	0	0	0	0	1	11507	643	23	1		1	PCDH10	4	134073621	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	33539478	134073621	57080655	131	10966										
WDR17	116966	broad.mit.edu	37	chr4	177089850	177089850	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gcagctgatcttcttctgatGattcctgataatgaactaca	7	9	3	5			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr4:177089850G>T	uc003iuj.2	+	25	3291	c.3135G>T	c.(3133-3135)ATG>ATT	p.M1045I	WDR17_uc003iuk.2_Missense_Mutation_p.M1021I|WDR17_uc003ium.3_Missense_Mutation_p.M1006I|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.M256I	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	1045										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TTCTTCTGATGATTCCTGATA	0.343													9	52	---	---	---	---	PASS	T	177089850	T	T	177089850	3	4	25	1	0	0	0	0	1	0	0	0	17274	1290	45	2	3229	2	WDR17	4	177089850	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	43016229	177089850	14064426	132	10967										
ADAMTS16	170690	broad.mit.edu	37	chr5	5146538	5146538	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttgcgatcacacagaaactcCtcagtggccctttcaacctg	7	14	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:5146538C>G	uc003jdl.2	+	3	609	c.471C>G	c.(469-471)TCC>TCG	p.S157S	ADAMTS16_uc003jdk.1_Silent_p.S157S|ADAMTS16_uc003jdj.1_Silent_p.S157S	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	157					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						ACAGAAACTCCTCAGTGGCCC	0.537													21	150	---	---	---	---	PASS	G	5146538	G	G	5146538	2	3	25	1	0	0	0	0	0	0	0	1	261	668	24	4		4	ADAMTS16	5	5146538	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08		5146538	175768722	133	10968										
ADAMTS16	170690	broad.mit.edu	37	chr5	5209307	5209307	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atatgatgcaaacacacagtGcaagtggcagttcggagaga	12	7	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:5209307G>T	uc003jdl.2	+	10	1691	c.1553G>T	c.(1552-1554)TGC>TTC	p.C518F	ADAMTS16_uc003jdk.1_Missense_Mutation_p.C518F|ADAMTS16_uc003jdj.1_Missense_Mutation_p.C518F	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	518	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						AACACACAGTGCAAGTGGCAG	0.443													24	138	---	---	---	---	PASS	T	5209307	T	T	5209307	3	4	25	1	0	0	0	0	1	0	0	0	261	1319	46	3	1591	3	ADAMTS16	5	5209307	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	62769	5209307	175705953	134	10969										
ADAMTS16	170690	broad.mit.edu	37	chr5	5239838	5239838	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cttctggagcccggagtatcCgcatctatgaaatgaacgtc	10	11	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:5239838C>A	uc003jdl.2	+	16	2461	c.2323C>A	c.(2323-2325)CGC>AGC	p.R775S	ADAMTS16_uc003jdk.1_Missense_Mutation_p.R775S	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	775	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CCGGAGTATCCGCATCTATGA	0.498													28	172	---	---	---	---	PASS	A	5239838	A	A	5239838	3	1	25	1	0	0	0	0	1	0	0	0	261	652	23	1	2385	1	ADAMTS16	5	5239838	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	30531	5239838	175675422	135	10970										
SEMA5A	9037	broad.mit.edu	37	chr5	9122846	9122846	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gggccgggctgtcgcaggagCgggttcgacagaggcaggat	20	9	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:9122846C>A	uc003jek.2	-	14	2415	c.1703G>T	c.(1702-1704)CGC>CTC	p.R568L		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	568	Extracellular (Potential).|TSP type-1 1.				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						GTCGCAGGAGCGGGTTCGACA	0.652													41	50	---	---	---	---	PASS	A	9122846	A	A	9122846	3	1	25	1	0	0	0	0	1	0	0	0	14037	768	27	1	1561	1	SEMA5A	5	9122846	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	3883008	9122846	171792414	136	10971										
CDH12	1010	broad.mit.edu	37	chr5	21854841	21854841	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atgctgtaaacgactctggcActgtttccataggtcgggtc	11	10	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:21854841A>G	uc010iuc.2	-	4	1043	c.585T>C	c.(583-585)AGT>AGC	p.S195S	CDH12_uc011cno.1_Intron|CDH12_uc003jgk.2_Silent_p.S195S	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	195	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CGACTCTGGCACTGTTTCCAT	0.408										HNSCC(59;0.17)			14	70	---	---	---	---	PASS	G	21854841	G	G	21854841	2	3	25	1	0	0	0	0	0	0	0	1	3098	156	6	5		5	CDH12	5	21854841	Silent	SNP	A	TCGA-21-5782-01A-01D-1632-08	12731995	21854841	159060419	137	10972										
CDH9	1007	broad.mit.edu	37	chr5	26886151	26886151	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aaaaagaatttgtgacctcgGggagggtcatccttatccat	10	8	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:26886151G>T	uc003jgs.1	-	10	1723	c.1554C>A	c.(1552-1554)CCC>CCA	p.P518P	CDH9_uc011cnv.1_Silent_p.P111P	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	518	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TGTGACCTCGGGGAGGGTCAT	0.323													24	149	---	---	---	---	PASS	T	26886151	T	T	26886151	2	4	25	1	0	0	0	0	0	0	0	1	3117	1219	43	3		3	CDH9	5	26886151	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	5031310	26886151	154029109	138	10973										
RNASEN	29102	broad.mit.edu	37	chr5	31526589	31526589	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agggggcgggggatgaggcaTggagggagggggcatcatga	24	4	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:31526589T>C	uc003jhg.2	-	4	810	c.451A>G	c.(451-453)ATG>GTG	p.M151V	RNASEN_uc003jhh.2_Missense_Mutation_p.M151V|RNASEN_uc003jhi.2_Missense_Mutation_p.M151V|RNASEN_uc010iui.1_Missense_Mutation_p.M142V	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	151	Pro-rich.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						GGATGAGGCATGGAGGGAGGG	0.577													14	12	---	---	---	---	PASS	C	31526589	C	C	31526589	3	2	25	1	0	0	0	0	1	0	0	0	13417	1464	51	5	3801	5	RNASEN	5	31526589	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	4640438	31526589	149388671	139	10974										
ADAMTS12	81792	broad.mit.edu	37	chr5	33535065	33535065	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggcacacattggacagtcctCttctgaaagccacctccaca	7	15	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:33535065C>G	uc003jia.1	-	23	4642	c.4479G>C	c.(4477-4479)AAG>AAC	p.K1493N	ADAMTS12_uc010iuq.1_Missense_Mutation_p.K1408N	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1493	TSP type-1 8.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GGACAGTCCTCTTCTGAAAGC	0.473										HNSCC(64;0.19)			23	62	---	---	---	---	PASS	G	33535065	G	G	33535065	3	3	25	1	0	0	0	0	1	0	0	0	257	912	32	2	313	2	ADAMTS12	5	33535065	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2008476	33535065	147380195	140	10975										
IL7R	3575	broad.mit.edu	37	chr5	35861032	35861032	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agtgaatggatcgcagcactCactgacctgtgcttttgagg	12	9	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:35861032C>T	uc003jjs.2	+	2	250	c.161C>T	c.(160-162)TCA>TTA	p.S54L	IL7R_uc011coo.1_Missense_Mutation_p.S54L|IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	54	Extracellular (Potential).				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			TCGCAGCACTCACTGACCTGT	0.458													28	186	---	---	---	---	PASS	T	35861032	T	T	35861032	3	4	25	1	0	0	0	0	1	0	0	0	7705	838	29	2	167	2	IL7R	5	35861032	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2325967	35861032	145054228	141	10976										
ERBB2IP	55914	broad.mit.edu	37	chr5	65349907	65349907	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agtctgccacactgttgtatGatcaaccattgcaggtattt	8	9	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:65349907G>C	uc003juk.1	+	21	3069	c.2761G>C	c.(2761-2763)GAT>CAT	p.D921H	ERBB2IP_uc003jui.1_Missense_Mutation_p.D921H|ERBB2IP_uc003juj.1_Missense_Mutation_p.D921H|ERBB2IP_uc011cqx.1_Missense_Mutation_p.D921H|ERBB2IP_uc011cqy.1_Missense_Mutation_p.D921H|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Missense_Mutation_p.D917H|ERBB2IP_uc003jul.1_Missense_Mutation_p.D917H	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	921					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		ACTGTTGTATGATCAACCATT	0.378													224	443	---	---	---	---	PASS	C	65349907	C	C	65349907	3	2	25	1	0	0	0	0	1	0	0	0	5207	1290	45	2	2835	2	ERBB2IP	5	65349907	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	29488875	65349907	115565353	142	10977										
VCAN	1462	broad.mit.edu	37	chr5	82837411	82837411	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tctgtaatgtccccacaggaTtcttttaaggaaattcatgt	7	8	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:82837411T>G	uc003kii.3	+	8	8945	c.8589T>G	c.(8587-8589)GAT>GAG	p.D2863E	VCAN_uc003kij.3_Missense_Mutation_p.D1876E|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.D1527E	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2863	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CCCCACAGGATTCTTTTAAGG	0.463													16	40	---	---	---	---	PASS	G	82837411	G	G	82837411	3	3	25	1	0	0	0	0	1	0	0	0	17135	1490	52	5	8615	5	VCAN	5	82837411	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	17487504	82837411	98077849	143	10978										
MCTP1	79772	broad.mit.edu	37	chr5	94278092	94278092	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cagatccagaaaggctgagcCcataaagtcatcctgtagtc	9	11	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:94278092C>A	uc003kkx.2	-	4	1021	c.1021G>T	c.(1021-1023)GGC>TGC	p.G341C	MCTP1_uc003kkv.2_Missense_Mutation_p.G120C|MCTP1_uc003kkw.2_Missense_Mutation_p.G120C|MCTP1_uc003kkz.2_Missense_Mutation_p.G2C	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L	341	C2 1.				calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		AAGGCTGAGCCCATAAAGTCA	0.333													7	24	---	---	---	---	PASS	A	94278092	A	A	94278092	3	1	25	1	0	0	0	0	1	0	0	0	9400	623	22	3	2058	3	MCTP1	5	94278092	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	11440681	94278092	86637168	144	10979										
EGR1	1958	broad.mit.edu	37	chr5	137802653	137802653	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	caacccaccggcctcctcgtCctcagcaccatctccagcgg	7	21	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:137802653C>T	uc003ldb.1	+	2	785	c.515C>T	c.(514-516)TCC>TTC	p.S172F	EGR1_uc011cyu.1_Intron	NM_001964	NP_001955	P18146	EGR1_HUMAN	early growth response 1	172					cellular response to heparin|cellular response to mycophenolic acid|glomerular mesangial cell proliferation|interleukin-1-mediated signaling pathway|positive regulation of glomerular metanephric mesangial cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of protein sumoylation|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytoplasm|nucleus	histone acetyltransferase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			GCCTCCTCGTCCTCAGCACCA	0.647													32	61	---	---	---	---	PASS	T	137802653	T	T	137802653	3	4	25	1	0	0	0	0	1	0	0	0	4971	855	30	2	521	2	EGR1	5	137802653	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	43524561	137802653	43112607	145	10980										
PCDHB16	57717	broad.mit.edu	37	chr5	140562948	140562948	+	Nonsense_Mutation	SNP	G	T	T													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccgccagggatttagacggcGgagccaatggaaaaatatca							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:140562948G>T	uc003liv.2	+	1	1969	c.814G>T	c.(814-816)GGA>TGA	p.G272*	PCDHB16_uc010jfw.1_Intron	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	272	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTTAGACGGCGGAGCCAATGG	0.488													24	42	---	---	---	---	PASS	T	140562948	T	T	140562948	4	4	25	1	0	0	0	0	0	1	0	0	11541	1117	39	1	816	1	PCDHB16	5	140562948	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2760295	140562948	40352312	146	10981	304	2								
PCDHB16	57717	broad.mit.edu	37	chr5	140562949	140562949	+	Missense_Mutation	SNP	G	T	T													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgccagggatttagacggcgGagccaatggaaaaatatcat							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:140562949G>T	uc003liv.2	+	1	1970	c.815G>T	c.(814-816)GGA>GTA	p.G272V	PCDHB16_uc010jfw.1_Intron	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	272	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTAGACGGCGGAGCCAATGGA	0.488													25	40	---	---	---	---	PASS	T	140562949	T	T	140562949	3	4	25	1	0	0	0	0	1	0	0	0	11541	1174	41	2	817	2	PCDHB16	5	140562949	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1	140562949	40352311	147	10982	304	2								
DOCK2	1794	broad.mit.edu	37	chr5	169410135	169410135	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtgaccagcactactccttcTacattgagaccttccagacc	6	15	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:169410135T>A	uc003maf.2	+	28	2943	c.2863T>A	c.(2863-2865)TAC>AAC	p.Y955N	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.Y447N|FAM196B_uc003mag.2_5'Flank	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	955	Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTACTCCTTCTACATTGAGAC	0.468													16	47	---	---	---	---	PASS	A	169410135	A	A	169410135	3	1	25	1	0	0	0	0	1	0	0	0	4687	1522	53	5	2973	5	DOCK2	5	169410135	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	28847186	169410135	11505125	148	10983										
NSD1	64324	broad.mit.edu	37	chr5	176638561	176638561	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cttaaagaccgagcgcaaaaGaaaactgaatcagcttccaa	7	10	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:176638561G>C	uc003mfr.3	+	5	3299	c.3161G>C	c.(3160-3162)AGA>ACA	p.R1054T	NSD1_uc003mft.3_Missense_Mutation_p.R785T|NSD1_uc003mfs.1_Missense_Mutation_p.R951T|NSD1_uc011dfx.1_Missense_Mutation_p.R702T	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1054					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		GAGCGCAAAAGAAAACTGAAT	0.463			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			22	61	---	---	---	---	PASS	C	176638561	C	C	176638561	3	2	25	1	0	0	0	0	1	0	0	0	10669	942	33	2	3175	2	NSD1	5	176638561	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	7228426	176638561	4276699	149	10984										
DBN1	1627	broad.mit.edu	37	chr5	176884733	176884733	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gggcaaactcctcctcctgtGattgactgaagtacccctca	8	14	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:176884733G>A	uc003mgy.2	-	13	1974	c.1802C>T	c.(1801-1803)TCA>TTA	p.S601L	DBN1_uc011dga.1_Missense_Mutation_p.S333L|DBN1_uc003mgx.2_Missense_Mutation_p.S603L|DBN1_uc010jkn.1_Missense_Mutation_p.S551L	NM_004395	NP_004386	Q16643	DREB_HUMAN	drebrin 1 isoform a	601					actin filament organization|regulation of dendrite development|regulation of neuronal synaptic plasticity	actomyosin|cytoplasm|dendrite	actin binding|profilin binding			breast(3)|ovary(1)|lung(1)|skin(1)	6	all_cancers(89;2.17e-05)|Renal(175;0.000269)|Lung NSC(126;0.0014)|all_lung(126;0.0025)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTCCTCCTGTGATTGACTGAA	0.587											OREG0016462	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	27	---	---	---	---	PASS	A	176884733	A	A	176884733	3	1	25	1	0	0	0	0	1	0	0	0	4252	1294	45	2	155	2	DBN1	5	176884733	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	246172	176884733	4030527	150	10985										
GRM6	2916	broad.mit.edu	37	chr5	178410091	178410091	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aggctgtagcccaggcagccGatgagagacagatccgacat	13	11	0	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:178410091G>T	uc003mjr.2	-	9	2435	c.2256C>A	c.(2254-2256)ATC>ATA	p.I752I	GRM6_uc003mjq.2_Silent_p.I155I	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	752	Helical; Name=5; (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		CCAGGCAGCCGATGAGAGACA	0.632													6	57	---	---	---	---	PASS	T	178410091	T	T	178410091	2	4	25	1	0	0	0	0	0	0	0	1	6801	1048	37	2		2	GRM6	5	178410091	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	1525358	178410091	2505169	151	10986										
ADAMTS2	9509	broad.mit.edu	37	chr5	178559295	178559295	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctggctcctgcagggatctcAaacatcttgatgtaaccttt	8	11	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr5:178559295A>T	uc003mjw.2	-	15	2226	c.2226T>A	c.(2224-2226)TTT>TTA	p.F742L		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	742	Spacer.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CAGGGATCTCAAACATCTTGA	0.537													4	26	---	---	---	---	PASS	T	178559295	T	T	178559295	3	4	25	1	0	0	0	0	1	0	0	0	265	127	5	5	1441	5	ADAMTS2	5	178559295	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	149204	178559295	2355965	152	10987										
BPHL	670	broad.mit.edu	37	chr6	3127490	3127490	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttttaggaagtggagagactGattttggacctcagctcaag	12	6	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:3127490G>A	uc003mva.2	+	3	275	c.226G>A	c.(226-228)GAT>AAT	p.D76N	BPHL_uc003muz.2_RNA|BPHL_uc011dht.1_RNA|BPHL_uc003muy.2_Missense_Mutation_p.D59N	NM_004332	NP_004323	Q86WA6	BPHL_HUMAN	biphenyl hydrolase-like precursor	76					cellular amino acid metabolic process|response to toxin	mitochondrion	hydrolase activity				0	Ovarian(93;0.0386)	all_hematologic(90;0.108)				TGGAGAGACTGATTTTGGACC	0.463													14	38	---	---	---	---	PASS	A	3127490	A	A	3127490	3	1	25	1	0	0	0	0	1	0	0	0	1489	1290	45	2	236	2	BPHL	6	3127490	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08		3127490	167987577	153	10988										
KIAA0319	9856	broad.mit.edu	37	chr6	24596652	24596652	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gggctcacagttctctttgtGggggcagctcaccaggtagc	14	11	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:24596652G>T	uc011djo.1	-	3	487	c.250C>A	c.(250-252)CAC>AAC	p.H84N	KIAA0319_uc011djp.1_Missense_Mutation_p.H39N|KIAA0319_uc003neh.1_Missense_Mutation_p.H84N|KIAA0319_uc011djq.1_Missense_Mutation_p.H75N|KIAA0319_uc011djr.1_Missense_Mutation_p.H84N	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	84	MANSC.|Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						TTCTCTTTGTGGGGGCAGCTC	0.602													10	34	---	---	---	---	PASS	T	24596652	T	T	24596652	3	4	25	1	0	0	0	0	1	0	0	0	8168	1348	47	3	3044	3	KIAA0319	6	24596652	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	21469162	24596652	146518415	154	10989										
LRRC16A	55604	broad.mit.edu	37	chr6	25581154	25581154	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttattatttcatttctagatGacccctaaatccaaaaggaa	4	8	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:25581154G>A	uc011djw.1	+	30	3121	c.2745G>A	c.(2743-2745)ATG>ATA	p.M915I	LRRC16A_uc010jpx.2_Missense_Mutation_p.M915I|LRRC16A_uc010jpy.2_Missense_Mutation_p.M915I	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	915					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						ATTTCTAGATGACCCCTAAAT	0.388													7	3	---	---	---	---	PASS	A	25581154	A	A	25581154	3	1	25	1	0	0	0	0	1	0	0	0	8971	1290	45	2	2863	2	LRRC16A	6	25581154	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	984502	25581154	145533913	155	10990										
HLA-A	3105	broad.mit.edu	37	chr6	29911898	29911898	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttttctgactcttcccgtcaGacccccccaagacacatatg	5	16	3	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:29911898G>A	uc003nol.2	+	4	620	c.620_splice	c.e4-1	p.D207_splice	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_5'Flank|HLA-A_uc010jrq.2_Splice_Site_p.D86_splice|HLA-A_uc003nok.2_Splice_Site_p.D86_splice|HLA-A_uc003non.2_Splice_Site_p.D207_splice|HLA-A_uc003noo.2_Splice_Site_p.D207_splice|HLA-A_uc010jrr.2_Splice_Site_p.D207_splice|HLA-A_uc003nom.2_Splice_Site_p.D86_splice|HLA-A_uc010klp.2_Splice_Site_p.D179_splice|HLA-A_uc011dmc.1_Splice_Site_p.D86_splice|HLA-A_uc011dmd.1_Splice_Site_p.D86_splice	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A						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						CTTCCCGTCAGACCCCCCCAA	0.572									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)			17	151	---	---	---	---	PASS	A	29911898	A	A	29911898	5	1	25	1	0	0	0	0	0	0	1	0	7195	956	33	2	633	2	HLA-A	6	29911898	Splice_Site	SNP	G	TCGA-21-5782-01A-01D-1632-08	4330744	29911898	141203169	156	10991										
BAT2	7916	broad.mit.edu	37	chr6	31599915	31599915	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gccccagcccgcttcactgcCcggggtgggcgagtcttcac	13	17	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:31599915C>T	uc003nvb.3	+	16	3714	c.3465C>T	c.(3463-3465)GCC>GCT	p.A1155A	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Silent_p.A1155A	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1155	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						GCTTCACTGCCCGGGGTGGGC	0.697													4	37	---	---	---	---	PASS	T	31599915	T	T	31599915	2	4	25	1	0	0	0	0	0	0	0	1	1319	610	22	3		3	BAT2	6	31599915	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	1688017	31599915	139515152	157	10992										
NEU1	4758	broad.mit.edu	37	chr6	31828012	31828012	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttctggtttcgggcattgatGacgactgagccatctgggag	14	8	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:31828012G>A	uc003nxq.3	-	5	984	c.828C>T	c.(826-828)GTC>GTT	p.V276V	NEU1_uc010jtg.2_RNA|NEU1_uc003nxr.3_Intron|NEU1_uc010jth.2_Silent_p.V107V|NEU1_uc003nxs.3_3'UTR	NM_000434	NP_000425	Q99519	NEUR1_HUMAN	neuraminidase precursor	276						cytoplasmic membrane-bounded vesicle|lysosomal lumen|lysosomal membrane|plasma membrane	exo-alpha-sialidase activity|protein binding			ovary(1)	1					Oseltamivir(DB00198)|Zanamivir(DB00558)	GGGCATTGATGACGACTGAGC	0.577													5	30	---	---	---	---	PASS	A	31828012	A	A	31828012	2	1	25	1	0	0	0	0	0	0	0	1	10341	1277	45	2		2	NEU1	6	31828012	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	228097	31828012	139287055	158	10993										
DNAH8	1769	broad.mit.edu	37	chr6	38941582	38941582	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgatcgatttccaattacatTgcttcaggtttgttactaaa	6	7	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:38941582T>A	uc003ooe.1	+	82	12620	c.12020T>A	c.(12019-12021)TTG>TAG	p.L4007*	DNAH8_uc003oog.1_Nonsense_Mutation_p.L456*	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CCAATTACATTGCTTCAGGTT	0.388													6	35	---	---	---	---	PASS	A	38941582	A	A	38941582	4	1	25	1	0	0	0	0	0	1	0	0	4607	1821	63	5	12338	5	DNAH8	6	38941582	Nonsense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	7113570	38941582	132173485	159	10994										
CCND3	896	broad.mit.edu	37	chr6	41903775	41903775	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgggcgctgggctggagctgGtctgagaggcttccctgagg	19	9	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:41903775G>C	uc003orn.2	-	5	947	c.782C>G	c.(781-783)ACC>AGC	p.T261S	CCND3_uc003orp.2_Missense_Mutation_p.T180S|CCND3_uc011duk.1_Missense_Mutation_p.T65S|CCND3_uc003orm.2_Missense_Mutation_p.T211S|CCND3_uc003oro.2_Missense_Mutation_p.T189S	NM_001760	NP_001751	P30281	CCND3_HUMAN	cyclin D3 isoform 2	261					cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding				0	Colorectal(47;0.121)		Epithelial(12;0.000178)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GCTGGAGCTGGTCTGAGAGGC	0.637			T	IGH@	MM								4	12	---	---	---	---	PASS	C	41903775	C	C	41903775	3	2	25	1	0	0	0	0	1	0	0	0	2918	1261	44	4	100	4	CCND3	6	41903775	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2962193	41903775	129211292	160	10995										
C6orf226	441150	broad.mit.edu	37	chr6	42858257	42858257	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgccatgaagaaggcgcagtCgctgcctcaaccaagccagg	12	13	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:42858257C>G	uc003osw.2	-	1	298	c.270G>C	c.(268-270)GCG>GCC	p.A90A		NM_001008739	NP_001008739	Q5I0X4	CF226_HUMAN	hypothetical protein LOC441150	90											0						AAGGCGCAGTCGCTGCCTCAA	0.672													15	33	---	---	---	---	PASS	G	42858257	G	G	42858257	2	3	25	1	0	0	0	0	0	0	0	1	2359	871	31	2		2	C6orf226	6	42858257	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	954482	42858257	128256810	161	10996										
RUNX2	860	broad.mit.edu	37	chr6	45480080	45480080	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccgtccatccactctaccacCccgctgtcttccacacgggg	7	20	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:45480080C>A	uc011dvx.1	+	7	1167	c.957C>A	c.(955-957)ACC>ACA	p.T319T	RUNX2_uc011dvy.1_Silent_p.T319T|RUNX2_uc003oxt.2_Silent_p.T305T	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	319	Pro/Ser/Thr-rich.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						ACTCTACCACCCCGCTGTCTT	0.587													15	48	---	---	---	---	PASS	A	45480080	A	A	45480080	2	1	25	1	0	0	0	0	0	0	0	1	13748	610	22	3		3	RUNX2	6	45480080	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	2621823	45480080	125634987	162	10997										
IL17F	112744	broad.mit.edu	37	chr6	52103543	52103543	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cttacgtgtaattccaggggGaggtggagcggctctcgatg	16	8	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:52103543G>T	uc003pam.1	-	2	310	c.239C>A	c.(238-240)TCC>TAC	p.S80Y	IL17F_uc003pal.1_Missense_Mutation_p.S26Y	NM_052872	NP_443104	Q96PD4	IL17F_HUMAN	interleukin 17F precursor	80					cartilage development|inflammatory response|lymphotoxin A biosynthetic process|negative regulation of angiogenesis|proteoglycan metabolic process|regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|regulation of interleukin-2 biosynthetic process|regulation of interleukin-6 biosynthetic process|regulation of interleukin-8 biosynthetic process|regulation of transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|cytokine binding|protein homodimerization activity			ovary(1)	1	Lung NSC(77;0.116)					ATTCCAGGGGGAGGTGGAGCG	0.418													11	19	---	---	---	---	PASS	T	52103543	T	T	52103543	3	4	25	1	0	0	0	0	1	0	0	0	7638	1174	41	2	260	2	IL17F	6	52103543	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	6623463	52103543	119011524	163	10998										
CGA	1081	broad.mit.edu	37	chr6	87796149	87796149	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cctgtagcgtgcattctgggCaatctatcagggaaaaaaaa	10	8	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:87796149C>T	uc003plj.1	-	3	193	c.92G>A	c.(91-93)TGC>TAC	p.C31Y		NM_000735	NP_000726	P01215	GLHA_HUMAN	glycoprotein hormones, alpha polypeptide	31					hormone biosynthetic process|peptide hormone processing|signal transduction	extracellular region|soluble fraction	hormone activity			ovary(1)	1		all_cancers(76;5.98e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000102)		BRCA - Breast invasive adenocarcinoma(108;0.0484)		GCATTCTGGGCAATCTATCAG	0.368													21	51	---	---	---	---	PASS	T	87796149	T	T	87796149	3	4	25	1	0	0	0	0	1	0	0	0	3295	710	25	3	266	3	CGA	6	87796149	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	35692606	87796149	83318918	164	10999										
C6orf174	387104	broad.mit.edu	37	chr6	127797194	127797194	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aggtcggccacgttcctccgCagcagctccgtctcgtcttc	10	17	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:127797194C>A	uc003qbd.2	-	6	2842	c.1977G>T	c.(1975-1977)CTG>CTT	p.L659L	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	659	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CGTTCCTCCGCAGCAGCTCCG	0.647													17	26	---	---	---	---	PASS	A	127797194	A	A	127797194	2	1	25	1	0	0	0	0	0	0	0	1	2345	697	25	3		3	C6orf174	6	127797194	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	40001045	127797194	43317873	165	11000										
LAMA2	3908	broad.mit.edu	37	chr6	129828633	129828633	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcttctgatctgaatgtttaGgtgacctatagcattgatgg	10	6	3	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:129828633G>A	uc003qbn.2	+	61	8809	c.8704_splice	c.e61-1	p.V2902_splice	LAMA2_uc003qbo.2_Splice_Site_p.V2898_splice|uc003qbq.2_Intron	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor						cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TGAATGTTTAGGTGACCTATA	0.458													17	55	---	---	---	---	PASS	A	129828633	A	A	129828633	5	1	25	1	0	0	0	0	0	0	1	0	8606	1014	35	3	8949	3	LAMA2	6	129828633	Splice_Site	SNP	G	TCGA-21-5782-01A-01D-1632-08	2031439	129828633	41286434	166	11001										
EYA4	2070	broad.mit.edu	37	chr6	133783575	133783575	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cagccagccgtctacacagcCtactcacagacaggacagcc	8	17	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:133783575C>A	uc003qec.3	+	8	998	c.540C>A	c.(538-540)GCC>GCA	p.A180A	EYA4_uc011ecq.1_Silent_p.A126A|EYA4_uc011ecr.1_Silent_p.A126A|EYA4_uc003qed.3_Silent_p.A180A|EYA4_uc003qee.3_Silent_p.A157A|EYA4_uc011ecs.1_Silent_p.A180A|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	180					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		TCTACACAGCCTACTCACAGA	0.502													38	39	---	---	---	---	PASS	A	133783575	A	A	133783575	2	1	25	1	0	0	0	0	0	0	0	1	5331	668	24	3		3	EYA4	6	133783575	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	3954942	133783575	37331492	167	11002										
BCLAF1	9774	broad.mit.edu	37	chr6	136582558	136582558	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccctctgccacgttgaaaagTaccacgacctcttcctcttt	5	16	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:136582558T>C	uc003qgx.1	-	12	2855	c.2602A>G	c.(2602-2604)ACT>GCT	p.T868A	BCLAF1_uc011edb.1_Missense_Mutation_p.T147A|BCLAF1_uc003qgw.1_Missense_Mutation_p.T695A|BCLAF1_uc003qgy.1_Missense_Mutation_p.T817A|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.T866A	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	868					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CGTTGAAAAGTACCACGACCT	0.413													28	260	---	---	---	---	PASS	C	136582558	C	C	136582558	3	2	25	1	0	0	0	0	1	0	0	0	1383	1638	57	5	168	5	BCLAF1	6	136582558	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	2798983	136582558	34532509	168	11003										
KIAA1244	57221	broad.mit.edu	37	chr6	138584068	138584068	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggctgacttccgctggcagcGgcgagtgctgtcctcagaac	14	13	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:138584068G>A	uc003qhu.2	+	12	1448	c.1448G>A	c.(1447-1449)CGG>CAG	p.R483Q		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	483					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CGCTGGCAGCGGCGAGTGCTG	0.592													3	2	---	---	---	---	PASS	A	138584068	A	A	138584068	3	1	25	1	0	0	0	0	1	0	0	0	8217	1116	39	1	1494	1	KIAA1244	6	138584068	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2001510	138584068	32530999	169	11004										
VTA1	51534	broad.mit.edu	37	chr6	142491526	142491526	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgcaagtcttttgatagatGtcataacagtatttggagaa	9	5	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:142491526G>T	uc003qiw.2	+	4	394	c.379G>T	c.(379-381)GTC>TTC	p.V127F	VTA1_uc011edt.1_RNA|VTA1_uc011edu.1_Missense_Mutation_p.V69F	NM_016485	NP_057569	Q9NP79	VTA1_HUMAN	Vps20-associated 1 homolog	127	Interaction with IST1.				cellular membrane organization|endosome transport|protein transport	cytosol|endosome membrane	protein binding				0	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;1.34e-05)|GBM - Glioblastoma multiforme(68;0.00182)		TTTGATAGATGTCATAACAGT	0.313													63	63	---	---	---	---	PASS	T	142491526	T	T	142491526	3	4	25	1	0	0	0	0	1	0	0	0	17230	1377	48	3	393	3	VTA1	6	142491526	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	3907458	142491526	28623541	170	11005										
ULBP1	80329	broad.mit.edu	37	chr6	150291161	150291161	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttccatttcagaaccaccctCtctggccccaggcacaaccc	5	19	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr6:150291161C>G	uc003qnp.2	+	4	678	c.635C>G	c.(634-636)TCT>TGT	p.S212C		NM_025218	NP_079494	Q9BZM6	N2DL1_HUMAN	UL16 binding protein 1 precursor	212					antigen processing and presentation|immune response|natural killer cell activation|regulation of immune response	anchored to membrane|endoplasmic reticulum|MHC class I protein complex	MHC class I receptor activity			pancreas(1)	1		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.14e-11)		GAACCACCCTCTCTGGCCCCA	0.562													7	5	---	---	---	---	PASS	G	150291161	G	G	150291161	3	3	25	1	0	0	0	0	1	0	0	0	16969	913	32	2	649	2	ULBP1	6	150291161	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	7799635	150291161	20823906	171	11006										
RADIL	55698	broad.mit.edu	37	chr7	4839816	4839816	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	actcaccatcccgtcgatcaGgcccatccccagcccggagg	9	19	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr7:4839816G>A	uc003snj.1	-	13	3141	c.2968C>T	c.(2968-2970)CTG>TTG	p.L990L	RADIL_uc003sng.1_RNA|RADIL_uc003sni.1_Silent_p.L495L|RADIL_uc011jwc.1_Silent_p.L750L|RADIL_uc011jwd.1_RNA|RADIL_uc003snh.1_Silent_p.L286L	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	990	PDZ.				cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		CCGTCGATCAGGCCCATCCCC	0.697													5	13	---	---	---	---	PASS	A	4839816	A	A	4839816	2	1	25	1	0	0	0	0	0	0	0	1	12997	991	35	3		3	RADIL	7	4839816	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08		4839816	154298847	172	11007										
NUDCD3	23386	broad.mit.edu	37	chr7	44432005	44432005	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tggccatggagcgctccttgTtgatcttgtcaatgtcgatg	12	9	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr7:44432005T>A	uc003tkz.2	-	5	1052	c.866A>T	c.(865-867)AAC>ATC	p.N289I	NUDCD3_uc010kye.2_RNA	NM_015332	NP_056147	Q8IVD9	NUDC3_HUMAN	NudC domain containing 3	289											0						GCGCTCCTTGTTGATCTTGTC	0.577													22	72	---	---	---	---	PASS	A	44432005	A	A	44432005	3	1	25	1	0	0	0	0	1	0	0	0	10724	1725	60	5	227	5	NUDCD3	7	44432005	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	39592189	44432005	114706658	173	11008										
POM121	9883	broad.mit.edu	37	chr7	72400523	72400523	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aattctcagagctcagatgaCcacttgaataagagatcccg	8	10	2	5			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr7:72400523C>A	uc003twk.2	+	5	1149	c.1149C>A	c.(1147-1149)GAC>GAA	p.D383E	POM121_uc003twj.2_Missense_Mutation_p.D118E|POM121_uc010lam.1_Missense_Mutation_p.D118E	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	383	Ser-rich.|Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				GCTCAGATGACCACTTGAATA	0.468													3	93	---	---	---	---	PASS	A	72400523	A	A	72400523	3	1	25	1	0	0	0	0	1	0	0	0	12239	506	18	3	368	3	POM121	7	72400523	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	27968518	72400523	86738140	174	11009										
PCLO	27445	broad.mit.edu	37	chr7	82583224	82583224	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgctctttcattggaagggCtattacagaagaaggtgggt	13	6	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr7:82583224C>A	uc003uhx.2	-	5	7334	c.7045G>T	c.(7045-7047)GCC>TCC	p.A2349S	PCLO_uc003uhv.2_Missense_Mutation_p.A2349S|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2280					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ATTGGAAGGGCTATTACAGAA	0.433													22	51	---	---	---	---	PASS	A	82583224	A	A	82583224	3	1	25	1	0	0	0	0	1	0	0	0	11583	797	28	3	8484	3	PCLO	7	82583224	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	10182701	82583224	76555439	175	11010										
MTERF	7978	broad.mit.edu	37	chr7	91503548	91503548	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aaaggcatttacgggtcaatCcaactgagtagaggaacttt	10	7	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr7:91503548C>G	uc003ulb.1	-	2	604	c.560G>C	c.(559-561)GGA>GCA	p.G187A	MTERF_uc010let.1_Intron|MTERF_uc003ulc.1_Missense_Mutation_p.G187A|MTERF_uc011khm.1_Missense_Mutation_p.G167A|MTERF_uc010leu.1_Missense_Mutation_p.G167A	NM_006980	NP_008911	Q99551	MTERF_HUMAN	mitochondrial transcription termination factor	187					DNA geometric change|regulation of transcription, DNA-dependent|termination of mitochondrial transcription	mitochondrial nucleoid	double-stranded DNA binding				0	all_cancers(62;2.28e-09)|all_epithelial(64;1.07e-07)|Breast(17;0.00371)|all_hematologic(106;0.091)|all_lung(186;0.178)|Lung NSC(181;0.235)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.0993)|Kidney(17;0.118)|Epithelial(20;0.136)|LUSC - Lung squamous cell carcinoma(200;0.176)			ACGGGTCAATCCAACTGAGTA	0.373													15	34	---	---	---	---	PASS	G	91503548	G	G	91503548	3	3	25	1	0	0	0	0	1	0	0	0	9918	855	30	2	643	2	MTERF	7	91503548	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	8920324	91503548	67635115	176	11011										
CASD1	64921	broad.mit.edu	37	chr7	94163055	94163055	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atataaaatgaacatcacctCcatagcaccacttttagaaa	3	10	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr7:94163055C>A	uc003uni.3	+	7	796	c.569C>A	c.(568-570)TCC>TAC	p.S190Y	CASD1_uc003unh.2_Missense_Mutation_p.S190Y|CASD1_uc003unj.3_Missense_Mutation_p.S190Y	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	190						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)			AACATCACCTCCATAGCACCA	0.323													5	73	---	---	---	---	PASS	A	94163055	A	A	94163055	3	1	25	1	0	0	0	0	1	0	0	0	2664	855	30	2	595	2	CASD1	7	94163055	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2659507	94163055	64975608	177	11012										
ZNF498	221785	broad.mit.edu	37	chr7	99227070	99227070	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttccagtgccctgagtgtggGaaaggattcagtcggagctc	14	9	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr7:99227070G>T	uc003url.1	+	8	1389	c.1062G>T	c.(1060-1062)GGG>GGT	p.G354G	ZNF498_uc003urm.1_Silent_p.G190G|ZNF498_uc010lge.1_Silent_p.G190G|ZNF498_uc003urn.2_Intron|ZNF498_uc010lgf.1_Silent_p.G282G|ZNF498_uc003uro.1_Silent_p.G138G	NM_145115	NP_660090	Q6NSZ9	ZN498_HUMAN	zinc finger and SCAN domain containing 25	354	C2H2-type 1.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_epithelial(64;1.95e-08)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					CTGAGTGTGGGAAAGGATTCA	0.587													10	43	---	---	---	---	PASS	T	99227070	T	T	99227070	2	4	25	1	0	0	0	0	0	0	0	1	17944	1161	41	2		2	ZNF498	7	99227070	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	5064015	99227070	59911593	178	11013										
BCAP29	55973	broad.mit.edu	37	chr7	107224331	107224331	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttgtattgctttacagatggCagaagattttttcatttaat	7	4	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr7:107224331C>T	uc003vej.2	+	3	436	c.97C>T	c.(97-99)CAG>TAG	p.Q33*	BCAP29_uc011kly.1_5'UTR|BCAP29_uc011klz.1_Nonsense_Mutation_p.Q33*|BCAP29_uc011kma.1_Nonsense_Mutation_p.Q33*	NM_018844	NP_061332	Q9UHQ4	BAP29_HUMAN	B-cell receptor-associated protein BAP29 isoform	33	Cytoplasmic (Potential).				apoptosis|intracellular protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|integral to membrane				large_intestine(1)|ovary(1)	2						TTACAGATGGCAGAAGATTTT	0.264													14	43	---	---	---	---	PASS	T	107224331	T	T	107224331	4	4	25	1	0	0	0	0	0	1	0	0	1346	711	25	3	103	3	BCAP29	7	107224331	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	7997261	107224331	51914332	179	11014										
PAX4	5078	broad.mit.edu	37	chr7	127253085	127253085	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agagaaatcacctggcagctGcatttcccacttgagcttct	8	12	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr7:127253085G>C	uc010lld.1	-	6	888	c.682C>G	c.(682-684)CAG>GAG	p.Q228E	PAX4_uc003vmf.2_Missense_Mutation_p.Q226E|PAX4_uc003vmg.1_Missense_Mutation_p.Q228E|PAX4_uc003vmh.2_Missense_Mutation_p.Q226E	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	236					cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCTGGCAGCTGCATTTCCCAC	0.388													7	13	---	---	---	---	PASS	C	127253085	C	C	127253085	3	2	25	1	0	0	0	0	1	0	0	0	11481	1328	46	4	365	4	PAX4	7	127253085	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	20028754	127253085	31885578	180	11015										
FLNC	2318	broad.mit.edu	37	chr7	128480920	128480920	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acaggtgagcccagaggcagGagtgcaaaaggtccgggcct	16	10	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr7:128480920G>C	uc003vnz.3	+	11	1918	c.1709G>C	c.(1708-1710)GGA>GCA	p.G570A	FLNC_uc003voa.3_Missense_Mutation_p.G570A	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	570	Filamin 4.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CCAGAGGCAGGAGTGCAAAAG	0.627													6	15	---	---	---	---	PASS	C	128480920	C	C	128480920	3	2	25	1	0	0	0	0	1	0	0	0	5935	1174	41	2	1751	2	FLNC	7	128480920	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1227835	128480920	30657743	181	11016										
MGAM	8972	broad.mit.edu	37	chr7	141750562	141750562	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aataatttagcatttaatgaGattaaaattcttgggacgga	8	3	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr7:141750562G>T	uc003vwy.2	+	24	2757	c.2703G>T	c.(2701-2703)GAG>GAT	p.E901D		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	901	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	CATTTAATGAGATTAAAATTC	0.388													10	30	---	---	---	---	PASS	T	141750562	T	T	141750562	3	4	25	1	0	0	0	0	1	0	0	0	9541	933	33	2	2793	2	MGAM	7	141750562	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	13269642	141750562	17388101	182	11017										
TAS2R39	259285	broad.mit.edu	37	chr7	142880888	142880888	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cttaaatttttgtagcctgtGgtttgctgcctggctcagtt	10	8	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr7:142880888G>T	uc011ksw.1	+	1	377	c.377G>T	c.(376-378)TGG>TTG	p.W126L		NM_176881	NP_795362	P59534	T2R39_HUMAN	taste receptor, type 2, member 39	126	Helical; Name=3; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			skin(1)	1	Melanoma(164;0.059)					TGTAGCCTGTGGTTTGCTGCC	0.378													23	73	---	---	---	---	PASS	T	142880888	T	T	142880888	3	4	25	1	0	0	0	0	1	0	0	0	15573	1357	47	3	379	3	TAS2R39	7	142880888	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1130326	142880888	16257775	183	11018										
INTS10	55174	broad.mit.edu	37	chr8	19677966	19677966	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gaacaatgcttcaacacgttAgaacgatcagaaatgttgct	8	8	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:19677966A>G	uc003wzj.2	+	4	509	c.378A>G	c.(376-378)TTA>TTG	p.L126L		NM_018142	NP_060612	Q9NVR2	INT10_HUMAN	integrator complex subunit 10	126					snRNA processing	integrator complex	protein binding			ovary(1)	1				Colorectal(111;0.057)|COAD - Colon adenocarcinoma(73;0.215)		TCAACACGTTAGAACGATCAG	0.403													22	42	---	---	---	---	PASS	G	19677966	G	G	19677966	2	3	25	1	0	0	0	0	0	0	0	1	7776	417	15	5		5	INTS10	8	19677966	Silent	SNP	A	TCGA-21-5782-01A-01D-1632-08		19677966	126686056	184	11019										
ADAM7	8756	broad.mit.edu	37	chr8	24298630	24298630	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gaatcactcagaatgcttccCgggtgtatattcttgatgat	9	8	3	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:24298630C>T	uc003xeb.2	+	1	122	c.9C>T	c.(7-9)CCC>CCT	p.P3P	ADAM7_uc003xea.1_Silent_p.P3P	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	3					proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		GAATGCTTCCCGGGTGTATAT	0.428													20	73	---	---	---	---	PASS	T	24298630	T	T	24298630	2	4	25	1	0	0	0	0	0	0	0	1	251	639	23	1		1	ADAM7	8	24298630	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	4620664	24298630	122065392	185	11020										
DOCK5	80005	broad.mit.edu	37	chr8	25234921	25234921	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gctgtatcaagaaatcatatCatatttcgacaaaggcaaag	7	7	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:25234921C>T	uc003xeg.2	+	38	4054	c.3917C>T	c.(3916-3918)TCA>TTA	p.S1306L	PPP2R2A_uc003xek.2_Missense_Mutation_p.S95L|DOCK5_uc003xei.2_Missense_Mutation_p.S876L|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1306	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		GAAATCATATCATATTTCGAC	0.353													7	16	---	---	---	---	PASS	T	25234921	T	T	25234921	3	4	25	1	0	0	0	0	1	0	0	0	4690	838	29	2	4067	2	DOCK5	8	25234921	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	936291	25234921	121129101	186	11021										
CHD7	55636	broad.mit.edu	37	chr8	61754539	61754539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gccctgtgcaaagccacggcGtccccaggataagtcacagg	12	14	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:61754539G>T	uc003xue.2	+	21	5255	c.4778G>T	c.(4777-4779)CGT>CTT	p.R1593L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1593					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)			AAGCCACGGCGTCCCCAGGAT	0.483													4	8	---	---	---	---	PASS	T	61754539	T	T	61754539	3	4	25	1	0	0	0	0	1	0	0	0	3330	1145	40	1	4856	1	CHD7	8	61754539	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	36519618	61754539	84609483	187	11022										
CHD7	55636	broad.mit.edu	37	chr8	61764685	61764685	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgcctatcagcgcagctatAaaaggcaacagatgaggcaa	10	10	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:61764685A>G	uc003xue.2	+	29	6250	c.5773A>G	c.(5773-5775)AAA>GAA	p.K1925E		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1925					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)			GCGCAGCTATAAAAGGCAACA	0.537													8	23	---	---	---	---	PASS	G	61764685	G	G	61764685	3	3	25	1	0	0	0	0	1	0	0	0	3330	363	13	5	5883	5	CHD7	8	61764685	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	10146	61764685	84599337	188	11023										
ASPH	444	broad.mit.edu	37	chr8	62479831	62479831	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggtaggtctcgatggctccaCgtagcacctcattacttctc	9	13	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:62479831C>A	uc003xuj.2	-	17	1465	c.1196G>T	c.(1195-1197)CGT>CTT	p.R399L	ASPH_uc011leg.1_Missense_Mutation_p.R370L|ASPH_uc003xuo.2_Missense_Mutation_p.R380L	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	399	Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	GATGGCTCCACGTAGCACCTC	0.498													11	44	---	---	---	---	PASS	A	62479831	A	A	62479831	3	1	25	1	0	0	0	0	1	0	0	0	1053	536	19	1	1116	1	ASPH	8	62479831	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	715146	62479831	83884191	189	11024										
VPS13B	157680	broad.mit.edu	37	chr8	100146912	100146912	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cagtccacagaaagtaaaatCtaaagaagtattgtgttggg	10	5	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:100146912C>G	uc003yiv.2	+	9	1370	c.1259C>G	c.(1258-1260)TCT>TGT	p.S420C	VPS13B_uc003yiw.2_Missense_Mutation_p.S420C|VPS13B_uc003yit.2_Missense_Mutation_p.S420C|VPS13B_uc003yiu.1_Missense_Mutation_p.S420C|VPS13B_uc003yix.1_5'Flank	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	420					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AAAGTAAAATCTAAAGAAGTA	0.254													7	32	---	---	---	---	PASS	G	100146912	G	G	100146912	3	3	25	1	0	0	0	0	1	0	0	0	17187	913	32	2	1331	2	VPS13B	8	100146912	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	37667081	100146912	46217110	190	11025										
UBR5	51366	broad.mit.edu	37	chr8	103299699	103299699	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttgctgcagtgacaacgcttCtgcgcccactagcattatct	8	13	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:103299699C>G	uc003ykr.1	-	37	4952	c.4919G>C	c.(4918-4920)AGA>ACA	p.R1640T	UBR5_uc003yks.1_Missense_Mutation_p.R1640T	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1640					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			GACAACGCTTCTGCGCCCACT	0.458													11	37	---	---	---	---	PASS	G	103299699	G	G	103299699	3	3	25	1	0	0	0	0	1	0	0	0	16902	913	32	2	3572	2	UBR5	8	103299699	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	3152787	103299699	43064323	191	11026										
KIAA0196	9897	broad.mit.edu	37	chr8	126079918	126079918	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	taccgagagtctgttagaatCtggtccttgatttgacgaag	11	7	2	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:126079918C>G	uc003yrt.2	-	10	1523	c.1194G>C	c.(1192-1194)CAG>CAC	p.Q398H	KIAA0196_uc011lir.1_Missense_Mutation_p.Q250H|KIAA0196_uc003yru.1_5'UTR	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	398					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			CTGTTAGAATCTGGTCCTTGA	0.378													7	68	---	---	---	---	PASS	G	126079918	G	G	126079918	3	3	25	1	0	0	0	0	1	0	0	0	8161	912	32	2	2365	2	KIAA0196	8	126079918	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	22780219	126079918	20284104	192	11027										
KIAA0196	9897	broad.mit.edu	37	chr8	126085518	126085518	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ataaccttcttttagaaattGctgcacttgagcatgcactc	6	10	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:126085518G>C	uc003yrt.2	-	9	1356	c.1027C>G	c.(1027-1029)CAA>GAA	p.Q343E	KIAA0196_uc011lir.1_Missense_Mutation_p.Q195E	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	343					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			TTTAGAAATTGCTGCACTTGA	0.388													27	46	---	---	---	---	PASS	C	126085518	C	C	126085518	3	2	25	1	0	0	0	0	1	0	0	0	8161	1328	46	4	2536	4	KIAA0196	8	126085518	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	5600	126085518	20278504	193	11028										
OC90	729330	broad.mit.edu	37	chr8	133045387	133045387	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttacaattttagctgtaaccCttgttgcaactatctctgca	5	10	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:133045387C>T	uc003ytg.2	-	10	758	c.758G>A	c.(757-759)AGG>AAG	p.R253K	OC90_uc011lix.1_Missense_Mutation_p.R253K	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	269					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			AGCTGTAACCCTTGTTGCAAC	0.428													3	11	---	---	---	---	PASS	T	133045387	T	T	133045387	3	4	25	1	0	0	0	0	1	0	0	0	10814	681	24	3	691	3	OC90	8	133045387	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	6959869	133045387	13318635	194	11029										
FAM135B	51059	broad.mit.edu	37	chr8	139153476	139153476	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgctgttgttgtacagggttCccaggtgaggcccagagagt	15	8	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:139153476C>A	uc003yuy.2	-	17	3926	c.3755G>T	c.(3754-3756)GGA>GTA	p.G1252V	FAM135B_uc003yux.2_Missense_Mutation_p.G1153V|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1252										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)			GTACAGGGTTCCCAGGTGAGG	0.537										HNSCC(54;0.14)			9	32	---	---	---	---	PASS	A	139153476	A	A	139153476	3	1	25	1	0	0	0	0	1	0	0	0	5449	855	30	2	481	2	FAM135B	8	139153476	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	6108089	139153476	7210546	195	11030										
RPL8	6132	broad.mit.edu	37	chr8	146015201	146015201	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cctcagcactagttctctttCtcctgcacagtcttggttcc	6	15	4	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr8:146015201C>T	uc003zeb.2	-	6	873	c.762G>A	c.(760-762)GAG>GAA	p.E254E	RPL8_uc003zdz.2_RNA|RPL8_uc003zea.2_Silent_p.E218E|RPL8_uc003zec.2_Silent_p.E254E	NM_033301	NP_150644	P62917	RL8_HUMAN	ribosomal protein L8	254					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	rRNA binding|structural constituent of ribosome				0	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;5.47e-39)|OV - Ovarian serous cystadenocarcinoma(54;6.38e-39)|all cancers(56;5.47e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.191)		AGTTCTCTTTCTCCTGCACAG	0.597													44	200	---	---	---	---	PASS	T	146015201	T	T	146015201	2	4	25	1	0	0	0	0	0	0	0	1	13602	912	32	2		2	RPL8	8	146015201	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	6861725	146015201	348821	196	11031										
KIAA2026	158358	broad.mit.edu	37	chr9	5921399	5921399	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atatgctttatgcaatggagGaggaagagtttgttttaatg	12	2	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr9:5921399G>C	uc003zjq.3	-	8	4813	c.4597C>G	c.(4597-4599)CCT>GCT	p.P1533A	KIAA2026_uc010mht.2_Missense_Mutation_p.P708A	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	1533										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		TGCAATGGAGGAGGAAGAGTT	0.403													4	173	---	---	---	---	PASS	C	5921399	C	C	5921399	3	2	25	1	0	0	0	0	1	0	0	0	8270	1174	41	2	1718	2	KIAA2026	9	5921399	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08		5921399	135292032	197	11032										
PTPRD	5789	broad.mit.edu	37	chr9	8317909	8317909	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtcaaagctgcccaggtactCtagtgcggcacgataggaaa	12	10	2	0	rs139384612		TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr9:8317909C>G	uc003zkk.2	-	45	6415	c.5704G>C	c.(5704-5706)GAG>CAG	p.E1902Q	PTPRD_uc003zkp.2_Missense_Mutation_p.E1496Q|PTPRD_uc003zkq.2_Missense_Mutation_p.E1495Q|PTPRD_uc003zkr.2_Missense_Mutation_p.E1486Q|PTPRD_uc003zks.2_Missense_Mutation_p.E1495Q|PTPRD_uc003zkl.2_Missense_Mutation_p.E1893Q|PTPRD_uc003zkm.2_Missense_Mutation_p.E1889Q|PTPRD_uc003zkn.2_Missense_Mutation_p.E1491Q|PTPRD_uc003zko.2_Missense_Mutation_p.E1492Q	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1902	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CCCAGGTACTCTAGTGCGGCA	0.438										TSP Lung(15;0.13)			37	57	---	---	---	---	PASS	G	8317909	G	G	8317909	3	3	25	1	0	0	0	0	1	0	0	0	12799	922	32	2	38	2	PTPRD	9	8317909	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2396510	8317909	132895522	198	11033										
FREM1	158326	broad.mit.edu	37	chr9	14788993	14788993	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccatcccaaaggtagaaggtGaagctatcttgattctggga	11	8	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr9:14788993G>A	uc003zlm.2	-	23	4691	c.4101C>T	c.(4099-4101)TTC>TTT	p.F1367F	FREM1_uc010mic.2_Intron	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1367	CSPG 9.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GGTAGAAGGTGAAGCTATCTT	0.483													5	5	---	---	---	---	PASS	A	14788993	A	A	14788993	2	1	25	1	0	0	0	0	0	0	0	1	6044	1281	45	2		2	FREM1	9	14788993	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	6471084	14788993	126424438	199	11034										
C9orf131	138724	broad.mit.edu	37	chr9	35045721	35045721	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aagtgacatcctgacccctcGccactgtaagcactgtcctt	7	15	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr9:35045721G>T	uc003zvw.2	+	2	3124	c.3095G>T	c.(3094-3096)CGC>CTC	p.R1032L	C9orf131_uc003zvu.2_Missense_Mutation_p.R984L|C9orf131_uc003zvv.2_Missense_Mutation_p.R959L|C9orf131_uc003zvx.2_Missense_Mutation_p.R997L	NM_203299	NP_976044	Q5VYM1	CI131_HUMAN	hypothetical protein LOC138724 isoform A	1032											0	all_epithelial(49;0.22)		LUSC - Lung squamous cell carcinoma(32;0.00117)|Lung(28;0.00309)			CTGACCCCTCGCCACTGTAAG	0.562													4	88	---	---	---	---	PASS	T	35045721	T	T	35045721	3	4	25	1	0	0	0	0	1	0	0	0	2457	1087	38	1	3117	1	C9orf131	9	35045721	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	20256728	35045721	106167710	200	11035										
CD72	971	broad.mit.edu	37	chr9	35616043	35616043	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcactttgcaaggtctccttCgtcttctgtctgtctgcctg	8	13	6	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr9:35616043C>A	uc003zxb.2	-	5	709	c.585G>T	c.(583-585)ACG>ACT	p.T195T	CD72_uc003zxc.1_5'UTR|CD72_uc010mkt.1_5'UTR|CD72_uc010mku.2_Silent_p.T195T|CD72_uc010mkv.2_3'UTR|CD72_uc010mkw.1_RNA	NM_001782	NP_001773	P21854	CD72_HUMAN	CD72 molecule	195	Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	receptor binding|sugar binding|transmembrane receptor activity				0			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			AGGTCTCCTTCGTCTTCTGTC	0.582													39	80	---	---	---	---	PASS	A	35616043	A	A	35616043	2	1	25	1	0	0	0	0	0	0	0	1	3034	871	31	2		2	CD72	9	35616043	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	570322	35616043	105597388	201	11036										
PGM5	5239	broad.mit.edu	37	chr9	71006545	71006545	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccctggaagactttggagggCagcaccctgacccaaacctg	11	14	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr9:71006545C>T	uc004agr.2	+	5	1022	c.793C>T	c.(793-795)CAG>TAG	p.Q265*		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	265					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						CTTTGGAGGGCAGCACCCTGA	0.478													14	27	---	---	---	---	PASS	T	71006545	T	T	71006545	4	4	25	1	0	0	0	0	0	1	0	0	11801	711	25	3	811	3	PGM5	9	71006545	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	35390502	71006545	70206886	202	11037										
ASTN2	23245	broad.mit.edu	37	chr9	119976666	119976666	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	caaagtccaccttctcttccCctggatgtcccagactgtcc	6	17	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr9:119976666C>A	uc004bjs.1	-	3	1087	c.986G>T	c.(985-987)GGG>GTG	p.G329V	ASTN2_uc004bjr.1_Missense_Mutation_p.G329V|ASTN2_uc004bjt.1_Missense_Mutation_p.G329V	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	329	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CTTCTCTTCCCCTGGATGTCC	0.567													42	54	---	---	---	---	PASS	A	119976666	A	A	119976666	3	1	25	1	0	0	0	0	1	0	0	0	1065	623	22	3	3192	3	ASTN2	9	119976666	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	48970121	119976666	21236765	203	11038										
FAM129B	64855	broad.mit.edu	37	chr9	130279138	130279138	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acgggggtggctgcctacctCggatcttgctggcaaggtgc	16	11	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr9:130279138C>G	uc004brh.2	-	8	1173	c.971G>C	c.(970-972)CGA>CCA	p.R324P	FAM129B_uc004bri.2_Missense_Mutation_p.R311P|FAM129B_uc004brj.3_Missense_Mutation_p.R324P	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	324							protein binding				0						CTGCCTACCTCGGATCTTGCT	0.547													83	252	---	---	---	---	PASS	G	130279138	G	G	130279138	3	3	25	1	0	0	0	0	1	0	0	0	5437	884	31	2	1297	2	FAM129B	9	130279138	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	10302472	130279138	10934293	204	11039										
NOTCH1	4851	broad.mit.edu	37	chr9	139393419	139393419	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgcggcatccacattgttcaCggcggcggcccagtgcaggg	15	13	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr9:139393419C>A	uc004chz.2	-	33	6112	c.6112G>T	c.(6112-6114)GTG>TTG	p.V2038L		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2038	Cytoplasmic (Potential).|ANK 4.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.V2038L(1)|p.V2039L(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		ACATTGTTCACGGCGGCGGCC	0.617			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			66	75	---	---	---	---	PASS	A	139393419	A	A	139393419	3	1	25	1	0	0	0	0	1	0	0	0	10547	536	19	1	1563	1	NOTCH1	9	139393419	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	9114281	139393419	1820012	205	11040										
ATP5C1	509	broad.mit.edu	37	chr10	7844259	7844259	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgagtatctatgacgatattGatgctgacgtgctgcaaaat	10	6	1	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:7844259G>T	uc001iju.2	+	7	742	c.664G>T	c.(664-666)GAT>TAT	p.D222Y	ATP5C1_uc009xiq.1_Missense_Mutation_p.D222Y|ATP5C1_uc010qbc.1_Missense_Mutation_p.D173Y|ATP5C1_uc001ijv.2_Missense_Mutation_p.D222Y	NM_001001973	NP_001001973	P36542	ATPG_HUMAN	ATP synthase, H+ transporting, mitochondrial F1	222					oxidative phosphorylation|respiratory electron transport chain	mitochondrial matrix|mitochondrial proton-transporting ATP synthase complex, catalytic core F(1)	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						TGACGATATTGATGCTGACGT	0.393													3	19	---	---	---	---	PASS	T	7844259	T	T	7844259	3	4	25	1	0	0	0	0	1	0	0	0	1149	1290	45	2	690	2	ATP5C1	10	7844259	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08		7844259	127690488	206	11041										
VIM	7431	broad.mit.edu	37	chr10	17271466	17271466	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcctcctaccgcaggatgttCggcggcccgggcaccgcgag	14	16	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:17271466C>A	uc001iou.2	+	2	458	c.45C>A	c.(43-45)TTC>TTA	p.F15L	uc001iot.1_RNA|VIM_uc001iov.1_Missense_Mutation_p.F15L|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.F15L|VIM_uc001ioy.1_Missense_Mutation_p.F15L|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.F15L|VIM_uc001ipc.1_Missense_Mutation_p.F15L	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	15	Head.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						GCAGGATGTTCGGCGGCCCGG	0.741													4	13	---	---	---	---	PASS	A	17271466	A	A	17271466	3	1	25	1	0	0	0	0	1	0	0	0	17163	883	31	2	47	2	VIM	10	17271466	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	9427207	17271466	118263281	207	11042										
ABI1	10006	broad.mit.edu	37	chr10	27112098	27112098	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gattgatggaagactccattCtccgaagctgagaggcttgg	13	8	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:27112098C>T	uc001isx.2	-	2	421	c.254G>A	c.(253-255)AGA>AAA	p.R85K	ABI1_uc001ite.2_Missense_Mutation_p.R85K|ABI1_uc010qdh.1_Missense_Mutation_p.R85K|ABI1_uc010qdi.1_Missense_Mutation_p.R85K|ABI1_uc001isy.2_Missense_Mutation_p.R85K|ABI1_uc001ita.2_Missense_Mutation_p.R85K|ABI1_uc001isz.2_Missense_Mutation_p.R85K|ABI1_uc001itb.2_Missense_Mutation_p.R102K|ABI1_uc001itc.2_Missense_Mutation_p.R85K|ABI1_uc010qdj.1_Missense_Mutation_p.R85K|ABI1_uc001itd.2_Missense_Mutation_p.R85K|ABI1_uc010qdk.1_Missense_Mutation_p.R85K	NM_005470	NP_005461	Q8IZP0	ABI1_HUMAN	abl-interactor 1 isoform a	85	t-SNARE coiled-coil homology.				actin polymerization or depolymerization|cellular component movement|negative regulation of cell proliferation|peptidyl-tyrosine phosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	cell junction|cytoskeleton|cytosol|endoplasmic reticulum|filopodium|growth cone|lamellipodium|nucleus|soluble fraction|synapse|synaptosome	cytoskeletal protein binding			central_nervous_system(1)	1						AGACTCCATTCTCCGAAGCTG	0.368													25	78	---	---	---	---	PASS	T	27112098	T	T	27112098	3	4	25	1	0	0	0	0	1	0	0	0	88	913	32	2	1316	2	ABI1	10	27112098	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	9840632	27112098	108422649	208	11043										
KIF5B	3799	broad.mit.edu	37	chr10	32317465	32317465	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggttggtcatttccttaagtTtctgaagctcagcatctata	8	8	4	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:32317465T>G	uc001iwe.3	-	15	2086	c.1616A>C	c.(1615-1617)AAA>ACA	p.K539T		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	539					stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				TTCCTTAAGTTTCTGAAGCTC	0.353													17	65	---	---	---	---	PASS	G	32317465	G	G	32317465	3	3	25	1	0	0	0	0	1	0	0	0	8306	1841	64	5	1319	5	KIF5B	10	32317465	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	5205367	32317465	103217282	209	11044										
C10orf68	79741	broad.mit.edu	37	chr10	33015720	33015720	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtgtcaaaactccaaatgcaAgaaaagaaaaaaataactcc	5	8	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:33015720A>G	uc001iwn.3	+	8	1022	c.549A>G	c.(547-549)CAA>CAG	p.Q183Q	C10orf68_uc001iwl.1_Silent_p.Q191Q|C10orf68_uc001iwm.1_Silent_p.Q159Q|C10orf68_uc010qei.1_Silent_p.Q110Q|C10orf68_uc001iwo.3_5'Flank	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	183										skin(2)|ovary(1)	3						TCCAAATGCAAGAAAAGAAAA	0.289													3	20	---	---	---	---	PASS	G	33015720	G	G	33015720	2	3	25	1	0	0	0	0	0	0	0	1	1613	69	3	5		5	C10orf68	10	33015720	Silent	SNP	A	TCGA-21-5782-01A-01D-1632-08	698255	33015720	102519027	210	11045										
ITGB1	3688	broad.mit.edu	37	chr10	33199357	33199357	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgtctttcttttctcctttaTtgaaggctctgcactgaaca	6	10	4	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:33199357T>C	uc001iws.3	-	14	2094	c.1958A>G	c.(1957-1959)AAT>AGT	p.N653S	ITGB1_uc001iwp.3_Missense_Mutation_p.N653S|ITGB1_uc001iwq.3_Missense_Mutation_p.N653S|ITGB1_uc001iwr.3_Missense_Mutation_p.N653S|ITGB1_uc001iwt.3_Missense_Mutation_p.N653S|ITGB1_uc001iwu.1_Missense_Mutation_p.N653S	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	653	Extracellular (Potential).				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				TTCTCCTTTATTGAAGGCTCT	0.343													18	36	---	---	---	---	PASS	C	33199357	C	C	33199357	3	2	25	1	0	0	0	0	1	0	0	0	7890	1493	52	5	688	5	ITGB1	10	33199357	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	183637	33199357	102335390	211	11046										
USP54	159195	broad.mit.edu	37	chr10	75277120	75277120	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttcttggaacagctgttcttGagcaatgcctcttccttctt	7	11	4	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:75277120G>C	uc001juo.2	-	18	3081	c.3064C>G	c.(3064-3066)CAA>GAA	p.Q1022E	USP54_uc010qkk.1_Missense_Mutation_p.Q204E|USP54_uc001juk.2_Missense_Mutation_p.Q110E|USP54_uc001jul.2_Missense_Mutation_p.Q110E|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	1022					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					AGCTGTTCTTGAGCAATGCCT	0.547													14	70	---	---	---	---	PASS	C	75277120	C	C	75277120	3	2	25	1	0	0	0	0	1	0	0	0	17082	1299	45	2	2010	2	USP54	10	75277120	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	42077763	75277120	60257627	212	11047										
PDE6C	5146	broad.mit.edu	37	chr10	95399935	95399935	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtggaatacgactgttttttGaaataaatgtggtggagaaa	12	2	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:95399935G>C	uc001kiu.3	+	12	1729	c.1591G>C	c.(1591-1593)GAA>CAA	p.E531Q		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	531					visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				ACTGTTTTTTGAAATAAATGT	0.418													21	71	---	---	---	---	PASS	C	95399935	C	C	95399935	3	2	25	1	0	0	0	0	1	0	0	0	11647	1291	45	2	1637	2	PDE6C	10	95399935	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	20122815	95399935	40134812	213	11048										
ENTPD1	953	broad.mit.edu	37	chr10	97599541	97599541	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atgacacaggcgtggtgcatCaagtagaagaatgcagggtt	14	6	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:97599541C>G	uc001klh.3	+	3	562	c.238C>G	c.(238-240)CAA>GAA	p.Q80E	ENTPD1_uc001kle.1_Missense_Mutation_p.Q87E|ENTPD1_uc001kli.3_Missense_Mutation_p.Q87E|uc001klg.1_Intron|ENTPD1_uc010qoj.1_Missense_Mutation_p.Q92E|ENTPD1_uc010qok.1_Translation_Start_Site|ENTPD1_uc010qol.1_Translation_Start_Site|ENTPD1_uc010qom.1_Missense_Mutation_p.Q80E|ENTPD1_uc010qon.1_Translation_Start_Site|ENTPD1_uc009xva.2_Intron|ENTPD1_uc009xuz.2_RNA	NM_001776	NP_001767	P49961	ENTP1_HUMAN	ectonucleoside triphosphate diphosphohydrolase 1	80	Extracellular (Potential).				cell adhesion	integral to plasma membrane	ATP binding	p.Q80*(1)		ovary(3)	3		Colorectal(252;0.0821)		Epithelial(162;1.31e-07)|all cancers(201;5.33e-06)		CGTGGTGCATCAAGTAGAAGA	0.473													13	68	---	---	---	---	PASS	G	97599541	G	G	97599541	3	3	25	1	0	0	0	0	1	0	0	0	5138	827	29	2	345	2	ENTPD1	10	97599541	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2199606	97599541	37935206	214	11049										
GBF1	8729	broad.mit.edu	37	chr10	104112241	104112241	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgagaaaatccgcagagcacActctcgtagacatggtgcag	11	10	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:104112241A>G	uc001kux.1	+	7	790	c.550A>G	c.(550-552)ACT>GCT	p.T184A	GBF1_uc001kuw.2_Missense_Mutation_p.T184A|GBF1_uc001kuy.1_Missense_Mutation_p.T184A|GBF1_uc001kuz.1_Missense_Mutation_p.T184A	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	184					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CGCAGAGCACACTCTCGTAGA	0.498											OREG0020477	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	33	---	---	---	---	PASS	G	104112241	G	G	104112241	3	3	25	1	0	0	0	0	1	0	0	0	6271	159	6	5	572	5	GBF1	10	104112241	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	6512700	104112241	31422506	215	11050										
FGFR2	2263	broad.mit.edu	37	chr10	123239480	123239480	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgaagaacaagaacttcttGtgtcagggtaactaggtgaa	11	6	2	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:123239480G>T	uc010qtk.1	-	19	3004	c.2357C>A	c.(2356-2358)ACA>AAA	p.T786K	FGFR2_uc010qtg.1_Missense_Mutation_p.T674K|FGFR2_uc010qth.1_Missense_Mutation_p.T671K|FGFR2_uc010qti.1_Intron|FGFR2_uc010qtj.1_Missense_Mutation_p.T787K|FGFR2_uc010qtl.1_Missense_Mutation_p.T670K|FGFR2_uc010qtm.1_Missense_Mutation_p.T669K|FGFR2_uc001lfg.3_Missense_Mutation_p.T394K|FGFR2_uc001lfk.1_RNA	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	786	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)	AGAACTTCTTGTGTCAGGGTA	0.448		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				18	52	---	---	---	---	PASS	T	123239480	T	T	123239480	3	4	25	1	0	0	0	0	1	0	0	0	5866	1377	48	3	206	3	FGFR2	10	123239480	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	19127239	123239480	12295267	216	11051										
HTRA1	5654	broad.mit.edu	37	chr10	124268201	124268201	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtgattggaattaacactttGaaagtgacagctggaatctc	10	6	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:124268201G>A	uc001lgj.2	+	6	1163	c.1035G>A	c.(1033-1035)TTG>TTA	p.L345L		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	345	Serine protease.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				TTAACACTTTGAAAGTGACAG	0.473													36	106	---	---	---	---	PASS	A	124268201	A	A	124268201	2	1	25	1	0	0	0	0	0	0	0	1	7453	1281	45	2		2	HTRA1	10	124268201	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	1028721	124268201	11266546	217	11052										
FRG2B	441581	broad.mit.edu	37	chr10	135440182	135440182	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aggagatctgttggaaagggGgctggtcagtggagcactgg	19	5	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr10:135440182G>T	uc010qvg.1	-	1	118	c.65C>A	c.(64-66)CCC>CAC	p.P22H		NM_001080998	NP_001074467	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	22						nucleus					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		TTGGAAAGGGGGCTGGTCAGT	0.507													17	122	---	---	---	---	PASS	T	135440182	T	T	135440182	3	4	25	1	0	0	0	0	1	0	0	0	6047	1232	43	3	786	3	FRG2B	10	135440182	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	11171981	135440182	94565	218	11053										
DEAF1	10522	broad.mit.edu	37	chr11	654013	654013	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	accttgtggcagccggtgcaCtcgctcatagcctcccggcc	11	17	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:654013C>A	uc001lqq.1	-	11	2235	c.1542G>T	c.(1540-1542)GAG>GAT	p.E514D	DEAF1_uc009ycf.1_RNA	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	514	MYND-type.				embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		AGCCGGTGCACTCGCTCATAG	0.627													8	19	---	---	---	---	PASS	A	654013	A	A	654013	3	1	25	1	0	0	0	0	1	0	0	0	4380	564	20	3	163	3	DEAF1	11	654013	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08		654013	134352503	219	11054										
OR52M1	119772	broad.mit.edu	37	chr11	4566688	4566688	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttctgggaatcttctggttcGgtgcttgtgacattggcctg	13	8	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:4566688G>T	uc010qyf.1	+	1	268	c.268G>T	c.(268-270)GGT>TGT	p.G90C		NM_001004137	NP_001004137	Q8NGK5	O52M1_HUMAN	olfactory receptor, family 52, subfamily M,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTTCTGGTTCGGTGCTTGTGA	0.502													17	50	---	---	---	---	PASS	T	4566688	T	T	4566688	3	4	25	1	0	0	0	0	1	0	0	0	11126	1116	39	1	270	1	OR52M1	11	4566688	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	3912675	4566688	130439828	220	11055										
C11orf16	56673	broad.mit.edu	37	chr11	8947274	8947274	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	accttccaggggcaaaagctGtgctgtgggctccaactctg	12	12	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:8947274G>T	uc001mhb.3	-	5	1064	c.940C>A	c.(940-942)CAG>AAG	p.Q314K	C11orf16_uc001mhc.3_Missense_Mutation_p.Q314K	NM_020643	NP_065694	Q9NQ32	CK016_HUMAN	hypothetical protein LOC56673	314										upper_aerodigestive_tract(1)|pancreas(1)	2				Epithelial(150;4.11e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0234)		GGCAAAAGCTGTGCTGTGGGC	0.567													4	69	---	---	---	---	PASS	T	8947274	T	T	8947274	3	4	25	1	0	0	0	0	1	0	0	0	1631	1386	48	3	471	3	C11orf16	11	8947274	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	4380586	8947274	126059242	221	11056										
LRRC4C	57689	broad.mit.edu	37	chr11	40136891	40136891	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgtgttcgagggggccatgtCttttatccaccagctgagcc	12	11	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:40136891C>A	uc001mxa.1	-	2	2916	c.952G>T	c.(952-954)GAC>TAC	p.D318Y	LRRC4C_uc001mxc.1_Missense_Mutation_p.D314Y|LRRC4C_uc001mxd.1_Missense_Mutation_p.D314Y|LRRC4C_uc001mxb.1_Missense_Mutation_p.D314Y	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	318	LRRCT.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				GGGGCCATGTCTTTTATCCAC	0.488													6	31	---	---	---	---	PASS	A	40136891	A	A	40136891	3	1	25	1	0	0	0	0	1	0	0	0	9008	913	32	2	974	2	LRRC4C	11	40136891	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	31189617	40136891	94869625	222	11057										
ALX4	60529	broad.mit.edu	37	chr11	44289133	44289133	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgcatctgcccaaaacgctCccgcttcctccacttggccc	6	20	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:44289133C>A	uc001myb.2	-	3	921	c.817G>T	c.(817-819)GAG>TAG	p.E273*		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	273	Homeobox.				hair follicle development						0						CCAAAACGCTCCCGCTTCCTC	0.587													11	21	---	---	---	---	PASS	A	44289133	A	A	44289133	4	1	25	1	0	0	0	0	0	1	0	0	558	864	30	2	426	2	ALX4	11	44289133	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	4152242	44289133	90717383	223	11058										
OR5L2	26338	broad.mit.edu	37	chr11	55595023	55595023	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gttttgcacatgtggagtcaCtgaggtcttcctgctggccg	13	10	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:55595023C>G	uc001nhy.1	+	1	329	c.329C>G	c.(328-330)ACT>AGT	p.T110S		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				TGTGGAGTCACTGAGGTCTTC	0.498										HNSCC(27;0.073)			32	96	---	---	---	---	PASS	G	55595023	G	G	55595023	3	3	25	1	0	0	0	0	1	0	0	0	11171	565	20	4	331	4	OR5L2	11	55595023	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	11305890	55595023	79411493	224	11059										
OR10AG1	282770	broad.mit.edu	37	chr11	55735343	55735343	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acaatcaacagaaatggcacCgtgataaacaccaccgctac	6	13	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:55735343C>T	uc010rit.1	-	1	597	c.597G>A	c.(595-597)ACG>ACA	p.T199T		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	199	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					GAAATGGCACCGTGATAAACA	0.408													6	17	---	---	---	---	PASS	T	55735343	T	T	55735343	2	4	25	1	0	0	0	0	0	0	0	1	10897	639	23	1		1	OR10AG1	11	55735343	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	140320	55735343	79271173	225	11060										
OR5B2	390190	broad.mit.edu	37	chr11	58190006	58190006	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tagaagacggagactgcagtGaagtgagaggcacaggtgga	17	5	0	5			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:58190006G>T	uc010rkg.1	-	1	729	c.729C>A	c.(727-729)TTC>TTA	p.F243L		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AGACTGCAGTGAAGTGAGAGG	0.448													9	29	---	---	---	---	PASS	T	58190006	T	T	58190006	3	4	25	1	0	0	0	0	1	0	0	0	11150	1281	45	2	204	2	OR5B2	11	58190006	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2454663	58190006	76816510	226	11061										
CPSF7	79869	broad.mit.edu	37	chr11	61196668	61196668	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cctcacctggttgaactcctCgtcagcatatatatcaatca	5	13	4	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:61196668C>G	uc001nrq.2	-	2	174	c.40G>C	c.(40-42)GAG>CAG	p.E14Q	SDHAF2_uc001nrt.2_5'Flank|CPSF7_uc001nro.2_Missense_Mutation_p.E14Q|CPSF7_uc001nrp.2_Missense_Mutation_p.E57Q|CPSF7_uc001nrr.2_Missense_Mutation_p.E14Q|CPSF7_uc001nrs.1_5'UTR|CPSF7_uc009ynp.2_Missense_Mutation_p.E14Q	NM_001136040	NP_001129512	Q8N684	CPSF7_HUMAN	pre-mRNA cleavage factor I, 59 kDa subunit	14					mRNA 3'-end processing|nuclear mRNA splicing, via spliceosome|protein tetramerization|termination of RNA polymerase II transcription	mRNA cleavage factor complex	nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						TTGAACTCCTCGTCAGCATAT	0.488													31	151	---	---	---	---	PASS	G	61196668	G	G	61196668	3	3	25	1	0	0	0	0	1	0	0	0	3830	893	31	2	1407	2	CPSF7	11	61196668	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	3006662	61196668	73809848	227	11062										
AHNAK	79026	broad.mit.edu	37	chr11	62285078	62285078	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atgtgtccaagttgagagcaGaggagacttggggtcccttc	14	8	0	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:62285078G>A	uc001ntl.2	-	5	17111	c.16811C>T	c.(16810-16812)TCT>TTT	p.S5604F	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	5604	Gly-rich.				nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GTTGAGAGCAGAGGAGACTTG	0.537													53	120	---	---	---	---	PASS	A	62285078	A	A	62285078	3	1	25	1	0	0	0	0	1	0	0	0	414	942	33	2	981	2	AHNAK	11	62285078	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1088410	62285078	72721438	228	11063										
SF3B2	10992	broad.mit.edu	37	chr11	65827324	65827324	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cctaagctcttggttcacctCaaggccactcggaactctgt	8	14	4	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:65827324C>G	uc001ogy.1	+	13	1513	c.1473C>G	c.(1471-1473)CTC>CTG	p.L491L		NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	491					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						TGGTTCACCTCAAGGCCACTC	0.572													17	43	---	---	---	---	PASS	G	65827324	G	G	65827324	2	3	25	1	0	0	0	0	0	0	0	1	14151	813	29	2		2	SF3B2	11	65827324	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	3542246	65827324	69179192	229	11064										
NPAS4	266743	broad.mit.edu	37	chr11	66191496	66191496	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gcaccagcttccccagtgctCctgaactgagtgttgtctct	9	14	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:66191496C>A	uc001ohx.1	+	7	1311	c.1135C>A	c.(1135-1137)CCT>ACT	p.P379T	NPAS4_uc010rpc.1_Missense_Mutation_p.P169T	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	379					transcription, DNA-dependent		DNA binding|signal transducer activity				0						CCCCAGTGCTCCTGAACTGAG	0.542													32	119	---	---	---	---	PASS	A	66191496	A	A	66191496	3	1	25	1	0	0	0	0	1	0	0	0	10565	855	30	2	1161	2	NPAS4	11	66191496	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	364172	66191496	68815020	230	11065										
PPFIA1	8500	broad.mit.edu	37	chr11	70189808	70189808	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atgagcaggattgggaacgtGcccagcaagctagtgtcttg	14	8	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:70189808G>A	uc001opo.2	+	15	1939	c.1741G>A	c.(1741-1743)GCC>ACC	p.A581T	PPFIA1_uc001opn.1_Missense_Mutation_p.A581T|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	581					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)			TTGGGAACGTGCCCAGCAAGC	0.413													4	118	---	---	---	---	PASS	A	70189808	A	A	70189808	3	1	25	1	0	0	0	0	1	0	0	0	12309	1319	46	3	1795	3	PPFIA1	11	70189808	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	3998312	70189808	64816708	231	11066										
P4HA3	283208	broad.mit.edu	37	chr11	74013511	74013511	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cagtgactctctgaaagacaCctcgggccaggcctttcaca	9	14	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:74013511C>G	uc001ouz.2	-	3	513	c.470G>C	c.(469-471)GGT>GCT	p.G157A	P4HA3_uc001ouy.3_RNA|P4HA3_uc010rrj.1_Missense_Mutation_p.G157A	NM_182904	NP_878907	Q7Z4N8	P4HA3_HUMAN	prolyl 4-hydroxylase, alpha III subunit	157						endoplasmic reticulum lumen	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			skin(1)	1	Breast(11;2.31e-05)					CTGAAAGACACCTCGGGCCAG	0.562													22	88	---	---	---	---	PASS	G	74013511	G	G	74013511	3	3	25	1	0	0	0	0	1	0	0	0	11358	507	18	4	1208	4	P4HA3	11	74013511	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	3823703	74013511	60993005	232	11067										
LRRC32	2615	broad.mit.edu	37	chr11	76372075	76372075	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctcgaaggcgccatcctcgaTgtccatcagcacgttgctat	9	14	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:76372075T>A	uc001oxq.3	-	3	805	c.562A>T	c.(562-564)ATC>TTC	p.I188F	LRRC32_uc001oxr.3_Missense_Mutation_p.I188F|LRRC32_uc010rsf.1_Missense_Mutation_p.I188F	NM_005512	NP_005503	Q14392	LRC32_HUMAN	leucine rich repeat containing 32 precursor	188	Extracellular (Potential).|LRR 6.					integral to plasma membrane					0						CCATCCTCGATGTCCATCAGC	0.622													13	49	---	---	---	---	PASS	A	76372075	A	A	76372075	3	1	25	1	0	0	0	0	1	0	0	0	8987	1464	51	5	1430	5	LRRC32	11	76372075	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	2358564	76372075	58634441	233	11068										
GDPD4	220032	broad.mit.edu	37	chr11	76969559	76969559	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgttcttttcaggtcaaagtCatgcatgaggaaaggcacat	10	7	4	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:76969559C>A	uc001oyf.2	-	10	987	c.736G>T	c.(736-738)GAC>TAC	p.D246Y		NM_182833	NP_878253	Q6W3E5	GDPD4_HUMAN	glycerophosphodiester phosphodiesterase domain	246	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding			skin(1)	1						AGGTCAAAGTCATGCATGAGG	0.478													20	83	---	---	---	---	PASS	A	76969559	A	A	76969559	3	1	25	1	0	0	0	0	1	0	0	0	6326	826	29	2	854	2	GDPD4	11	76969559	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	597484	76969559	58036957	234	11069										
ODZ4	26011	broad.mit.edu	37	chr11	78380188	78380188	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	catagaggccaccatggtagCctatgatgatctgaaagttg	11	8	1	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:78380188C>G	uc001ozl.3	-	32	7665	c.7202G>C	c.(7201-7203)GGC>GCC	p.G2401A	ODZ4_uc001ozk.3_Missense_Mutation_p.G626A|ODZ4_uc009yvb.1_Missense_Mutation_p.G985A	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2401	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						ACCATGGTAGCCTATGATGAT	0.517													10	20	---	---	---	---	PASS	G	78380188	G	G	78380188	3	3	25	1	0	0	0	0	1	0	0	0	10837	739	26	4	1119	4	ODZ4	11	78380188	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1410629	78380188	56626328	235	11070										
DLG2	1740	broad.mit.edu	37	chr11	83252873	83252873	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttgacttggcagcccactgtCcttgctcttgtcgtagtcga	10	12	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:83252873C>T	uc001paj.2	-	15	1957	c.1654G>A	c.(1654-1656)GAC>AAC	p.D552N	DLG2_uc001pai.2_Missense_Mutation_p.D449N|DLG2_uc010rsy.1_Missense_Mutation_p.D519N|DLG2_uc010rsz.1_Missense_Mutation_p.D552N|DLG2_uc010rta.1_Missense_Mutation_p.D552N|DLG2_uc001pak.2_Missense_Mutation_p.D657N|DLG2_uc010rtb.1_Missense_Mutation_p.D519N|DLG2_uc010rsw.1_Missense_Mutation_p.D34N|DLG2_uc010rsx.1_Missense_Mutation_p.D33N	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	552	SH3.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				AGCCCACTGTCCTTGCTCTTG	0.443													11	48	---	---	---	---	PASS	T	83252873	T	T	83252873	3	4	25	1	0	0	0	0	1	0	0	0	4555	855	30	2	1044	2	DLG2	11	83252873	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	4872685	83252873	51753643	236	11071										
C11orf54	28970	broad.mit.edu	37	chr11	93494785	93494785	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atagtggaatatcttggataCttcttacctgcagagtttct	8	7	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:93494785C>A	uc009ywi.2	+	10	1210	c.879C>A	c.(877-879)TAC>TAA	p.Y293*	C11orf54_uc001pef.2_Nonsense_Mutation_p.Y243*|C11orf54_uc001peg.2_Nonsense_Mutation_p.Y293*|C11orf54_uc001peh.2_Nonsense_Mutation_p.Y293*|C11orf54_uc001pei.2_Nonsense_Mutation_p.Y274*|C11orf54_uc001pej.2_Nonsense_Mutation_p.Y274*|C11orf54_uc001pek.2_Nonsense_Mutation_p.Y182*	NM_014039	NP_054758	Q9H0W9	CK054_HUMAN	hypothetical protein LOC28970	293						nucleus	hydrolase activity, acting on ester bonds|protein binding|zinc ion binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				ATCTTGGATACTTCTTACCTG	0.378													12	60	---	---	---	---	PASS	A	93494785	A	A	93494785	4	1	25	1	0	0	0	0	0	1	0	0	1649	576	20	3	755	3	C11orf54	11	93494785	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	10241912	93494785	41511731	237	11072										
JRKL	8690	broad.mit.edu	37	chr11	96125203	96125203	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cagatgaatccagtgaaaatGaggaggaggaaatagaacta	12	4	0	5			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:96125203G>T	uc009ywu.2	+	2	1642	c.1390G>T	c.(1390-1392)GAG>TAG	p.E464*	CCDC82_uc001pfx.3_5'Flank|CCDC82_uc009ywr.2_5'Flank|CCDC82_uc009ywt.1_5'Flank|JRKL_uc001pfy.2_Nonsense_Mutation_p.E464*	NM_003772	NP_003763	Q9Y4A0	JERKL_HUMAN	jerky homolog-like	464					central nervous system development|regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)		BRCA - Breast invasive adenocarcinoma(274;0.148)		CAGTGAAAATGAGGAGGAGGA	0.408													7	16	---	---	---	---	PASS	T	96125203	T	T	96125203	4	4	25	1	0	0	0	0	0	1	0	0	7965	1291	45	2	1392	2	JRKL	11	96125203	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2630418	96125203	38881313	238	11073										
CNTN5	53942	broad.mit.edu	37	chr11	100141928	100141928	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccaccaaccctattgggacaGgagatccaagcaccccatct	7	16	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:100141928G>T	uc001pga.2	+	18	2608	c.2269G>T	c.(2269-2271)GGA>TGA	p.G757*	CNTN5_uc001pfz.2_Nonsense_Mutation_p.G757*|CNTN5_uc001pgb.2_Nonsense_Mutation_p.G683*|CNTN5_uc010ruk.1_Nonsense_Mutation_p.G28*	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	757	Fibronectin type-III 1.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		TATTGGGACAGGAGATCCAAG	0.458													10	25	---	---	---	---	PASS	T	100141928	T	T	100141928	4	4	25	1	0	0	0	0	0	1	0	0	3644	1001	35	3	2331	3	CNTN5	11	100141928	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	4016725	100141928	34864588	239	11074										
PGR	5241	broad.mit.edu	37	chr11	100920673	100920673	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cactcacttgtattaagaagTaacaatactttcatacagag	5	8	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:100920673T>C	uc001pgh.2	-	6	3218	c.2475A>G	c.(2473-2475)TTA>TTG	p.L825L	PGR_uc001pgg.2_Silent_p.L206L|PGR_uc001pgi.2_Silent_p.L723L|PGR_uc009yww.1_Intron|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	825	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	TATTAAGAAGTAACAATACTT	0.328													10	34	---	---	---	---	PASS	C	100920673	C	C	100920673	2	2	25	1	0	0	0	0	0	0	0	1	11805	1635	57	5		5	PGR	11	100920673	Silent	SNP	T	TCGA-21-5782-01A-01D-1632-08	778745	100920673	34085843	240	11075										
DYNC2H1	79659	broad.mit.edu	37	chr11	103029721	103029721	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gggccagtctaccaacccatCagtgattcagtctcacctga	8	14	4	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:103029721C>G	uc001pho.2	+	28	4487	c.4343C>G	c.(4342-4344)TCA>TGA	p.S1448*	DYNC2H1_uc001phn.1_Nonsense_Mutation_p.S1448*|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	1448	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		ACCAACCCATCAGTGATTCAG	0.264													3	17	---	---	---	---	PASS	G	103029721	G	G	103029721	4	3	25	1	0	0	0	0	0	1	0	0	4846	838	29	2	4453	2	DYNC2H1	11	103029721	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2109048	103029721	31976795	241	11076										
DYNC2H1	79659	broad.mit.edu	37	chr11	103029734	103029734	+	Silent	SNP	T	A	A													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aacccatcagtgattcagtcTcacctgaagaagctttttgc							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:103029734T>A	uc001pho.2	+	28	4500	c.4356T>A	c.(4354-4356)TCT>TCA	p.S1452S	DYNC2H1_uc001phn.1_Silent_p.S1452S|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	1452	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TGATTCAGTCTCACCTGAAGA	0.254													3	14	---	---	---	---	PASS	A	103029734	A	A	103029734	2	1	25	1	0	0	0	0	0	0	0	1	4846	1538	54	5		5	DYNC2H1	11	103029734	Silent	SNP	T	TCGA-21-5782-01A-01D-1632-08	13	103029734	31976782	242	11077	305	2								
DYNC2H1	79659	broad.mit.edu	37	chr11	103029735	103029735	+	Missense_Mutation	SNP	C	T	T													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acccatcagtgattcagtctCacctgaagaagctttttgct							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:103029735C>T	uc001pho.2	+	28	4501	c.4357C>T	c.(4357-4359)CAC>TAC	p.H1453Y	DYNC2H1_uc001phn.1_Missense_Mutation_p.H1453Y|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	1453	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		GATTCAGTCTCACCTGAAGAA	0.254													3	14	---	---	---	---	PASS	T	103029735	T	T	103029735	3	4	25	1	0	0	0	0	1	0	0	0	4846	826	29	2	4467	2	DYNC2H1	11	103029735	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1	103029735	31976781	243	11078	305	2								
PCSK7	9159	broad.mit.edu	37	chr11	117097964	117097964	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gcacatcgcgtgccatggtgGttgccattctccacatccgg	11	14	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:117097964G>T	uc001pqr.2	-	5	879	c.678C>A	c.(676-678)AAC>AAA	p.N226K		NM_004716	NP_004707	Q16549	PCSK7_HUMAN	proprotein convertase subtilisin/kexin type 7	226	Catalytic.|Extracellular (Potential).				peptide hormone processing	integral to Golgi membrane	serine-type endopeptidase activity				0	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;1.72e-06)|Epithelial(105;6.71e-05)|all cancers(92;0.000537)		TGCCATGGTGGTTGCCATTCT	0.577			T	IGH@	MLCLS								7	64	---	---	---	---	PASS	T	117097964	T	T	117097964	3	4	25	1	0	0	0	0	1	0	0	0	11605	1252	44	3	1731	3	PCSK7	11	117097964	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	14068229	117097964	17908552	244	11079										
CEP164	22897	broad.mit.edu	37	chr11	117241984	117241984	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gaaaaagaggaaaatgagaaGagtgaacctaagatttgcag	12	3	0	5			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:117241984G>C	uc001prc.2	+	9	1101	c.954G>C	c.(952-954)AAG>AAC	p.K318N	CEP164_uc001prb.2_Missense_Mutation_p.K318N|CEP164_uc010rxk.1_Missense_Mutation_p.K292N|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	318					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)		AAAATGAGAAGAGTGAACCTA	0.542													18	72	---	---	---	---	PASS	C	117241984	C	C	117241984	3	2	25	1	0	0	0	0	1	0	0	0	3249	933	33	2	980	2	CEP164	11	117241984	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	144020	117241984	17764532	245	11080										
CXCR5	643	broad.mit.edu	37	chr11	118765034	118765034	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggcagaaggcagtcagggtgGccatcctggtgacaagcatc	15	10	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:118765034G>T	uc001pue.3	+	2	891	c.781G>T	c.(781-783)GCC>TCC	p.A261S	CXCR5_uc001puf.2_Missense_Mutation_p.A216S	NM_001716	NP_001707	P32302	CXCR5_HUMAN	Burkitt lymphoma receptor 1 isoform 1	261	Helical; Name=6; (Potential).				B cell activation|cellular component movement	integral to plasma membrane	C-X-C chemokine receptor activity			breast(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.62e-05)		AGTCAGGGTGGCCATCCTGGT	0.632													5	22	---	---	---	---	PASS	T	118765034	T	T	118765034	3	4	25	1	0	0	0	0	1	0	0	0	4094	1203	42	3	787	3	CXCR5	11	118765034	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1523050	118765034	16241482	246	11081										
FLI1	2313	broad.mit.edu	37	chr11	128680809	128680809	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	actggacctcccccacggggGgaatctaccccaaccccaac	8	19	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr11:128680809G>C	uc010sbu.1	+	9	1626	c.1285G>C	c.(1285-1287)GGA>CGA	p.G429R	FLI1_uc010sbt.1_Missense_Mutation_p.G236R|FLI1_uc010sbv.1_Missense_Mutation_p.G396R|FLI1_uc009zci.2_Missense_Mutation_p.G363R	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1	429					hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		CCCCACGGGGGGAATCTACCC	0.562			T	EWSR1	Ewing sarcoma								6	22	---	---	---	---	PASS	C	128680809	C	C	128680809	3	2	25	1	0	0	0	0	1	0	0	0	5924	1233	43	4	1319	4	FLI1	11	128680809	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	9915775	128680809	6325707	247	11082										
SLC6A13	6540	broad.mit.edu	37	chr12	344326	344326	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cttgggctgccccaggcaacGtcacccctcgaattaacagg	10	15	1	0	rs140808969	by1000genomes	TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:344326G>C	uc001qic.1	-	7	814	c.761C>G	c.(760-762)ACG>AGG	p.T254R	SLC6A13_uc009zdj.1_Missense_Mutation_p.T254R|SLC6A13_uc010sdl.1_Missense_Mutation_p.T162R|SLC6A13_uc010sdm.1_Missense_Mutation_p.T135R	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	254					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			CCCAGGCAACGTCACCCCTCG	0.542													16	40	---	---	---	---	PASS	C	344326	C	C	344326	3	2	25	1	0	0	0	0	1	0	0	0	14676	1145	40	4	1083	4	SLC6A13	12	344326	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08		344326	133507569	248	11083										
ERC1	23085	broad.mit.edu	37	chr12	1225120	1225120	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aacactcacaaaccagttctCagatagtaaacagcacattg	5	11	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:1225120C>T	uc001qjb.2	+	7	1731	c.1490C>T	c.(1489-1491)TCA>TTA	p.S497L	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.S469L|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_Intron|ERC1_uc001qjf.2_Missense_Mutation_p.S497L|ERC1_uc010sdv.1_Missense_Mutation_p.S245L|ERC1_uc009zdp.2_Missense_Mutation_p.S137L	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	497	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			AACCAGTTCTCAGATAGTAAA	0.468													9	46	---	---	---	---	PASS	T	1225120	T	T	1225120	3	4	25	1	0	0	0	0	1	0	0	0	5210	838	29	2	1512	2	ERC1	12	1225120	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	880794	1225120	132626775	249	11084										
DYRK4	8798	broad.mit.edu	37	chr12	4700464	4700464	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aggtgactctgacagcggcaGgtatgcctttggggcagtag	16	8	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:4700464G>A	uc001qmx.2	+	3	278	c.118G>A	c.(118-120)GAG>AAG	p.E40K	DYRK4_uc009zeh.1_Missense_Mutation_p.E155K|DYRK4_uc001qmy.1_Missense_Mutation_p.E40K	NM_003845	NP_003836	Q9NR20	DYRK4_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	40						Golgi apparatus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)|skin(1)	3			Colorectal(7;0.103)			GACAGCGGCAGGTATGCCTTT	0.408													6	19	---	---	---	---	PASS	A	4700464	A	A	4700464	3	1	25	1	0	0	0	0	1	0	0	0	4858	1014	35	3	120	3	DYRK4	12	4700464	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	3475344	4700464	129151431	250	11085										
IFFO1	25900	broad.mit.edu	37	chr12	6650740	6650740	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgcacgtccaggccgcgcttCatgctgcacatctccatgta	9	15	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:6650740C>A	uc001qpd.1	-	8	1546	c.1512G>T	c.(1510-1512)ATG>ATT	p.M504I	IFFO1_uc001qoy.2_RNA|IFFO1_uc001qpa.1_Missense_Mutation_p.M144I|IFFO1_uc001qpb.1_Missense_Mutation_p.M181I|IFFO1_uc001qpe.1_RNA|IFFO1_uc010sfe.1_Missense_Mutation_p.M516I|IFFO1_uc001qpf.1_Missense_Mutation_p.M507I|IFFO1_uc001qoz.1_Missense_Mutation_p.M145I|IFFO1_uc001qpc.1_Missense_Mutation_p.M508I|IFFO1_uc001qpg.2_Missense_Mutation_p.M145I	NM_080730	NP_542768	Q0D2I5	IFFO1_HUMAN	intermediate filament family orphan isoform 2	504						intermediate filament					0						GGCCGCGCTTCATGCTGCACA	0.657													21	100	---	---	---	---	PASS	A	6650740	A	A	6650740	3	1	25	1	0	0	0	0	1	0	0	0	7510	826	29	2	175	2	IFFO1	12	6650740	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1950276	6650740	127201155	251	11086										
PZP	5858	broad.mit.edu	37	chr12	9311032	9311032	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcacctttatggcattgttgAgcagtgacccagagctcctg	10	11	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:9311032A>G	uc001qvl.2	-	26	3307	c.3278T>C	c.(3277-3279)CTC>CCC	p.L1093P	PZP_uc009zgl.2_Missense_Mutation_p.L879P	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						GGCATTGTTGAGCAGTGACCC	0.493													41	68	---	---	---	---	PASS	G	9311032	G	G	9311032	3	3	25	1	0	0	0	0	1	0	0	0	12869	304	11	5	1214	5	PZP	12	9311032	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	2660292	9311032	124540863	252	11087										
PDE6H	5149	broad.mit.edu	37	chr12	15131001	15131001	+	Missense_Mutation	SNP	C	A	A													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	caaaccagggtcctaccaccCcacgcaaaggccctcccaag							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:15131001C>A	uc001rcr.2	+	2	139	c.55C>A	c.(55-57)CCA>ACA	p.P19T		NM_006205	NP_006196	Q13956	CNCG_HUMAN	phosphodiesterase 6H	19					visual perception		3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|enzyme inhibitor activity			ovary(1)|skin(1)	2						TCCTACCACCCCACGCAAAGG	0.507													6	31	---	---	---	---	PASS	A	15131001	A	A	15131001	3	1	25	1	0	0	0	0	1	0	0	0	11650	623	22	3	57	3	PDE6H	12	15131001	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	5819969	15131001	118720894	253	11088	306	2								
PDE6H	5149	broad.mit.edu	37	chr12	15131002	15131002	+	Missense_Mutation	SNP	C	G	G													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aaaccagggtcctaccacccCacgcaaaggccctcccaagt							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:15131002C>G	uc001rcr.2	+	2	140	c.56C>G	c.(55-57)CCA>CGA	p.P19R		NM_006205	NP_006196	Q13956	CNCG_HUMAN	phosphodiesterase 6H	19					visual perception		3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|enzyme inhibitor activity			ovary(1)|skin(1)	2						CCTACCACCCCACGCAAAGGC	0.502													6	31	---	---	---	---	PASS	G	15131002	G	G	15131002	3	3	25	1	0	0	0	0	1	0	0	0	11650	594	21	4	58	4	PDE6H	12	15131002	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1	15131002	118720893	254	11089	306	2								
SLCO1B1	10599	broad.mit.edu	37	chr12	21329714	21329714	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agtgatgttcttacagttacAggtattctaaagaaactaat	7	5	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:21329714A>T	uc001req.3	+	5	468	c.364A>T	c.(364-366)AGG>TGG	p.R122W		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	122	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	TTACAGTTACAGGTATTCTAA	0.294													12	68	---	---	---	---	PASS	T	21329714	T	T	21329714	3	4	25	1	0	0	0	0	1	0	0	0	14723	179	7	5	378	5	SLCO1B1	12	21329714	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	6198712	21329714	112522181	255	11090										
TMTC1	83857	broad.mit.edu	37	chr12	29671421	29671421	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttaccgcttgtaccattcttCagccatgctgttctctccca	5	15	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:29671421C>T	uc001rjb.2	-	13	2158	c.1684G>A	c.(1684-1686)GAA>AAA	p.E562K	TMTC1_uc001riz.2_Missense_Mutation_p.E319K|TMTC1_uc001rja.2_Missense_Mutation_p.E406K|TMTC1_uc001riy.2_Missense_Mutation_p.E18K	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	670	TPR 6.					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					TACCATTCTTCAGCCATGCTG	0.473													28	163	---	---	---	---	PASS	T	29671421	T	T	29671421	3	4	25	1	0	0	0	0	1	0	0	0	16257	835	29	2	664	2	TMTC1	12	29671421	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	8341707	29671421	104180474	256	11091										
BICD1	636	broad.mit.edu	37	chr12	32459057	32459057	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgaagcagcagcttatgcagGtaagaactttgtttagggcc	12	7	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:32459057G>A	uc001rku.2	+	4	1086	c.1005_splice	c.e4+1	p.Q335_splice	BICD1_uc001rkv.2_Splice_Site_p.Q335_splice|BICD1_uc010skd.1_Splice_Site	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1						anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			GCTTATGCAGGTAAGAACTTT	0.413													8	24	---	---	---	---	PASS	A	32459057	A	A	32459057	5	1	25	1	0	0	0	0	0	0	1	0	1428	1275	44	3	1020	3	BICD1	12	32459057	Splice_Site	SNP	G	TCGA-21-5782-01A-01D-1632-08	2787636	32459057	101392838	257	11092										
ADAMTS20	80070	broad.mit.edu	37	chr12	43944794	43944794	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agaagcagtggcgcaggtccGagggccctgcgtcgctctcc	15	14	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:43944794G>T	uc010skx.1	-	2	371	c.371C>A	c.(370-372)TCG>TAG	p.S124*		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	124						proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		GCGCAGGTCCGAGGGCCCTGC	0.667													6	18	---	---	---	---	PASS	T	43944794	T	T	43944794	4	4	25	1	0	0	0	0	0	1	0	0	266	1059	37	2	5512	2	ADAMTS20	12	43944794	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	11485737	43944794	89907101	258	11093										
COL2A1	1280	broad.mit.edu	37	chr12	48372394	48372394	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acttacagagggaccgtcatCtccaggctctcccttctcgc	8	16	4	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:48372394C>T	uc001rqu.2	-	42	3062	c.2881G>A	c.(2881-2883)GAT>AAT	p.D961N	COL2A1_uc001rqt.2_5'Flank|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.D892N	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	961	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	GGACCGTCATCTCCAGGCTCT	0.657													7	17	---	---	---	---	PASS	T	48372394	T	T	48372394	3	4	25	1	0	0	0	0	1	0	0	0	3687	913	32	2	1634	2	COL2A1	12	48372394	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	4427600	48372394	85479501	259	11094										
C12orf41	54934	broad.mit.edu	37	chr12	49065628	49065628	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttatgtaagtatcggcgcttCttctccttgagcagatgctg	10	9	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:49065628C>A	uc001rrx.2	-	5	738	c.663G>T	c.(661-663)AAG>AAT	p.K221N	C12orf41_uc001rrw.2_Missense_Mutation_p.K26N|C12orf41_uc001rrz.2_Missense_Mutation_p.K404N|C12orf41_uc001rry.2_RNA|C12orf41_uc001rrv.2_5'UTR	NM_017822	NP_060292	Q9H9L4	CL041_HUMAN	hypothetical protein LOC54934	221										ovary(2)	2						ATCGGCGCTTCTTCTCCTTGA	0.423													52	148	---	---	---	---	PASS	A	49065628	A	A	49065628	3	1	25	1	0	0	0	0	1	0	0	0	1687	912	32	2	839	2	C12orf41	12	49065628	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	693234	49065628	84786267	260	11095										
AQP2	359	broad.mit.edu	37	chr12	50349271	50349271	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccagccaagagcctgtcggaGcgcctggcagtgctgaaggg	16	12	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:50349271G>C	uc001rvn.2	+	4	786	c.696G>C	c.(694-696)GAG>GAC	p.E232D	AQP2_uc009zll.1_5'Flank	NM_000486	NP_000477	P41181	AQP2_HUMAN	aquaporin 2	232	Cytoplasmic (Potential).				cellular response to copper ion|cellular response to mercury ion|excretion	apical plasma membrane|integral to membrane|transport vesicle membrane	glycerol transmembrane transporter activity|water channel activity			ovary(2)	2						GCCTGTCGGAGCGCCTGGCAG	0.687													3	17	---	---	---	---	PASS	C	50349271	C	C	50349271	3	2	25	1	0	0	0	0	1	0	0	0	826	962	34	4	710	4	AQP2	12	50349271	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1283643	50349271	83502624	261	11096										
KRT79	338785	broad.mit.edu	37	chr12	53227729	53227729	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cccaggaggacaagcaggccCaaacgtctgcctgccagccc	11	17	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:53227729C>G	uc001sbb.2	-	1	349	c.316G>C	c.(316-318)GGG>CGG	p.G106R		NM_175834	NP_787028	Q5XKE5	K2C79_HUMAN	keratin 6L	106	Head.					keratin filament	structural molecule activity			ovary(2)|skin(2)	4						CAAGCAGGCCCAAACGTCTGC	0.647													11	36	---	---	---	---	PASS	G	53227729	G	G	53227729	3	3	25	1	0	0	0	0	1	0	0	0	8492	594	21	4	1327	4	KRT79	12	53227729	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2878458	53227729	80624166	262	11097										
PAN2	9924	broad.mit.edu	37	chr12	56720625	56720625	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cagccctcagaatccccaaaGgccagagcctgcttgctggc	10	16	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:56720625G>T	uc001skx.2	-	7	1411	c.1038C>A	c.(1036-1038)GCC>GCA	p.A346A	PAN2_uc001skw.2_5'Flank|PAN2_uc001skz.2_Silent_p.A346A|PAN2_uc001sky.2_Silent_p.A346A	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	346					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						AATCCCCAAAGGCCAGAGCCT	0.562													4	87	---	---	---	---	PASS	T	56720625	T	T	56720625	2	4	25	1	0	0	0	0	0	0	0	1	11414	987	35	3		3	PAN2	12	56720625	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	3492896	56720625	77131270	263	11098										
AVPR1A	552	broad.mit.edu	37	chr12	63544531	63544531	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgagggcttcggcctcccggCttgtgttgccagcgccggtg	16	14	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:63544531C>A	uc001sro.1	-	1	2060	c.86G>T	c.(85-87)AGC>ATC	p.S29I		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	29	Extracellular (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	GGCCTCCCGGCTTGTGTTGCC	0.701													6	34	---	---	---	---	PASS	A	63544531	A	A	63544531	3	1	25	1	0	0	0	0	1	0	0	0	1231	797	28	3	1178	3	AVPR1A	12	63544531	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	6823906	63544531	70307364	264	11099										
RAB21	23011	broad.mit.edu	37	chr12	72167786	72167786	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aaaatgttgggaaatgaaatCtgtttatgtatagttggtaa	10	1	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:72167786C>T	uc001swt.2	+	4	627	c.375C>T	c.(373-375)ATC>ATT	p.I125I		NM_014999	NP_055814	Q9UL25	RAB21_HUMAN	RAB21, member RAS oncogene family	125					protein transport|small GTPase mediated signal transduction	cleavage furrow|cytoplasmic vesicle membrane|early endosome membrane|endoplasmic reticulum membrane|Golgi membrane	GDP binding|GTP binding|GTPase activity|protein binding				0						GAAATGAAATCTGTTTATGTA	0.274													9	45	---	---	---	---	PASS	T	72167786	T	T	72167786	2	4	25	1	0	0	0	0	0	0	0	1	12908	903	32	2		2	RAB21	12	72167786	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	8623255	72167786	61684109	265	11100										
ATP2B1	490	broad.mit.edu	37	chr12	89992912	89992912	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acctgtgtttggattctgttCagacctctaaaccacaagat	7	10	3	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:89992912C>G	uc001tbh.2	-	19	3514	c.3333G>C	c.(3331-3333)CTG>CTC	p.L1111L	ATP2B1_uc001tbg.2_Silent_p.L1111L|ATP2B1_uc009zsr.2_RNA|ATP2B1_uc001tbf.2_Silent_p.L745L	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	1111	Cytoplasmic (Potential).|Calmodulin-binding subdomain A.				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						GGATTCTGTTCAGACCTCTAA	0.502													17	80	---	---	---	---	PASS	G	89992912	G	G	89992912	2	3	25	1	0	0	0	0	0	0	0	1	1139	813	29	2		2	ATP2B1	12	89992912	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	17825126	89992912	43858983	266	11101										
TMPO	7112	broad.mit.edu	37	chr12	98941352	98941352	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctcctttcactcccaacagtGctagttgccgcagaccaatc	6	16	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:98941352G>T	uc001tfj.2	+	9	1318	c.1081G>T	c.(1081-1083)GCT>TCT	p.A361S	TMPO_uc001tfk.2_Missense_Mutation_p.A252S|TMPO_uc001tfl.2_RNA	NM_001032283	NP_001027454	P42167	LAP2B_HUMAN	thymopoietin isoform beta	361	Nucleoplasmic (Potential).|Binds lamins B.|NAKAP95-binding C.					integral to membrane|nuclear inner membrane	DNA binding|lamin binding			ovary(2)	2						TCCCAACAGTGCTAGTTGCCG	0.398													7	55	---	---	---	---	PASS	T	98941352	T	T	98941352	3	4	25	1	0	0	0	0	1	0	0	0	16234	1333	46	3	2639	3	TMPO	12	98941352	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	8948440	98941352	34910543	267	11102										
SCYL2	55681	broad.mit.edu	37	chr12	100729640	100729640	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cagaccttctgactggcagtGagtccgaaaataaagaggac	11	9	1	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:100729640G>C	uc001thn.2	+	16	2031	c.1981G>C	c.(1981-1983)GAG>CAG	p.E661Q	SCYL2_uc001thm.1_Missense_Mutation_p.E661Q	NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein	661	Potential.				endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						GACTGGCAGTGAGTCCGAAAA	0.338													21	94	---	---	---	---	PASS	C	100729640	C	C	100729640	3	2	25	1	0	0	0	0	1	0	0	0	13948	1291	45	2	2039	2	SCYL2	12	100729640	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1788288	100729640	33122255	268	11103										
SLC17A8	246213	broad.mit.edu	37	chr12	100774544	100774544	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgaagaaggaaggccggtgcAgacgtccaggccaagccccc	14	13	0	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:100774544A>T	uc010svi.1	+	2	480	c.167A>T	c.(166-168)CAG>CTG	p.Q56L	SLC17A8_uc009ztx.2_Missense_Mutation_p.Q56L	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	56	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						AGGCCGGTGCAGACGTCCAGG	0.507													24	106	---	---	---	---	PASS	T	100774544	T	T	100774544	3	4	25	1	0	0	0	0	1	0	0	0	14423	188	7	5	173	5	SLC17A8	12	100774544	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	44904	100774544	33077351	269	11104										
SLC17A8	246213	broad.mit.edu	37	chr12	100813829	100813829	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tatggagccacctcccagaaTtgtgaagtccagaagaagga	11	9	0	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:100813829T>A	uc010svi.1	+	12	1975	c.1662T>A	c.(1660-1662)AAT>AAA	p.N554K	SLC17A8_uc009ztx.2_Missense_Mutation_p.N504K	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	554	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						CCTCCCAGAATTGTGAAGTCC	0.453													4	23	---	---	---	---	PASS	A	100813829	A	A	100813829	3	1	25	1	0	0	0	0	1	0	0	0	14423	1490	52	5	1708	5	SLC17A8	12	100813829	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	39285	100813829	33038066	270	11105										
SELPLG	6404	broad.mit.edu	37	chr12	109017554	109017554	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tggtctgtgcttccgtggctGctggtggagtggtctgtgcc	17	9	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:109017554G>A	uc001tni.2	-	2	690	c.530C>T	c.(529-531)GCA>GTA	p.A177V	SELPLG_uc001tnh.2_Missense_Mutation_p.A167V|SELPLG_uc010sxe.1_Missense_Mutation_p.A193V	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	177	Extracellular (Potential).|12 X 10 AA tandem repeats.				blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0						TTCCGTGGCTGCTGGTGGAGT	0.627													16	56	---	---	---	---	PASS	A	109017554	A	A	109017554	3	1	25	1	0	0	0	0	1	0	0	0	14020	1319	46	3	712	3	SELPLG	12	109017554	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	8203725	109017554	24834341	271	11106										
TBX3	6926	broad.mit.edu	37	chr12	115120793	115120793	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aacgggatgccggtctcggcCgcccccaccaattgatccat	10	16	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:115120793C>T	uc001tvt.1	-	1	1177	c.213G>A	c.(211-213)GCG>GCA	p.A71A	TBX3_uc001tvu.1_Silent_p.A71A|TBX3_uc010syw.1_Silent_p.A71A	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	71					anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		CGGTCTCGGCCGCCCCCACCA	0.697													9	16	---	---	---	---	PASS	T	115120793	T	T	115120793	2	4	25	1	0	0	0	0	0	0	0	1	15656	639	23	1		1	TBX3	12	115120793	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	6103239	115120793	18731102	272	11107										
TBX3	6926	broad.mit.edu	37	chr12	115120862	115120862	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gagagcgccgccgcgccgttGggaggcagcgtcagcgcggg	20	13	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:115120862G>T	uc001tvt.1	-	1	1108	c.144C>A	c.(142-144)CCC>CCA	p.P48P	TBX3_uc001tvu.1_Silent_p.P48P|TBX3_uc010syw.1_Silent_p.P48P	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	48					anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		CCGCGCCGTTGGGAGGCAGCG	0.711													8	22	---	---	---	---	PASS	T	115120862	T	T	115120862	2	4	25	1	0	0	0	0	0	0	0	1	15656	1335	47	3		3	TBX3	12	115120862	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	69	115120862	18731033	273	11108										
ZNF664	144348	broad.mit.edu	37	chr12	124496735	124496735	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tagggaatttttctctgagaGagcagatctttttatgcatc	9	6	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr12:124496735G>T	uc001ufz.2	+	6	1874	c.44G>T	c.(43-45)AGA>ATA	p.R15I	ZNF664_uc001uga.2_Missense_Mutation_p.R15I|ZNF664_uc001ugb.2_Missense_Mutation_p.R15I	NM_152437	NP_689650	Q8N3J9	ZN664_HUMAN	zinc finger protein 664	15	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.000239)|OV - Ovarian serous cystadenocarcinoma(86;0.000247)|all cancers(50;0.00155)|BRCA - Breast invasive adenocarcinoma(302;0.249)		TTCTCTGAGAGAGCAGATCTT	0.353													11	34	---	---	---	---	PASS	T	124496735	T	T	124496735	3	4	25	1	0	0	0	0	1	0	0	0	18069	942	33	2	46	2	ZNF664	12	124496735	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	9375873	124496735	9355160	274	11109										
GJB2	2706	broad.mit.edu	37	chr13	20763693	20763693	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtgtttgttcacaccccccaGgatcgtctgcagcgtgcccc	10	16	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr13:20763693G>T	uc001umy.2	-	2	243	c.28C>A	c.(28-30)CTG>ATG	p.L10M		NM_004004	NP_003995	P29033	CXB2_HUMAN	gap junction protein beta 2	10	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|sensory perception of sound|transport	connexon complex|ER-Golgi intermediate compartment|integral to membrane					0		all_cancers(29;3.95e-22)|all_epithelial(30;2.36e-19)|all_lung(29;2.27e-18)|Lung SC(185;0.0257)|Ovarian(182;0.0822)		all cancers(112;0.000435)|Epithelial(112;0.000722)|OV - Ovarian serous cystadenocarcinoma(117;0.0096)|Lung(94;0.0236)|LUSC - Lung squamous cell carcinoma(192;0.0738)		ACACCCCCCAGGATCGTCTGC	0.507									Keratitis_Ichthyosis_and_Deafness_syndrome		OREG0022282	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	60	---	---	---	---	PASS	T	20763693	T	T	20763693	3	4	25	1	0	0	0	0	1	0	0	0	6408	991	35	3	656	3	GJB2	13	20763693	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08		20763693	94406185	275	11110										
SGCG	6445	broad.mit.edu	37	chr13	23898647	23898647	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tctgtggccggtgtgagcacCacgtgccaggagcacaacca	13	13	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr13:23898647C>T	uc001uom.2	+	8	998	c.843C>T	c.(841-843)ACC>ACT	p.T281T	SGCG_uc009zzv.2_Silent_p.T281T|SGCG_uc009zzw.2_Silent_p.T281T	NM_000231	NP_000222	Q13326	SGCG_HUMAN	gamma sarcoglycan	281	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0		all_cancers(29;4.34e-23)|all_epithelial(30;4.4e-19)|all_lung(29;2.45e-18)|Lung SC(185;0.0228)|Breast(139;0.188)		all cancers(112;0.00255)|Epithelial(112;0.0129)|OV - Ovarian serous cystadenocarcinoma(117;0.0365)|Lung(94;0.205)		GTGTGAGCACCACGTGCCAGG	0.627													4	16	---	---	---	---	PASS	T	23898647	T	T	23898647	2	4	25	1	0	0	0	0	0	0	0	1	14203	581	21	3		3	SGCG	13	23898647	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	3134954	23898647	91271231	276	11111										
ATP12A	479	broad.mit.edu	37	chr13	25280474	25280474	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgccaaggccgctgtggtgaCtggcatggagctgaaggaca	16	9	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr13:25280474C>T	uc001upp.2	+	15	2229	c.2042C>T	c.(2041-2043)ACT>ATT	p.T681I	ATP12A_uc010aaa.2_Missense_Mutation_p.T687I	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	681	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	GCTGTGGTGACTGGCATGGAG	0.557													7	23	---	---	---	---	PASS	T	25280474	T	T	25280474	3	4	25	1	0	0	0	0	1	0	0	0	1122	565	20	3	2118	3	ATP12A	13	25280474	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1381827	25280474	89889404	277	11112										
MTUS2	23281	broad.mit.edu	37	chr13	29599365	29599365	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggaactgaggaggcattcttTggaaagagcaagcagctctg	14	7	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr13:29599365T>C	uc001usl.3	+	1	618	c.560T>C	c.(559-561)TTG>TCG	p.L187S		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	177						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						AGGCATTCTTTGGAAAGAGCA	0.537													6	34	---	---	---	---	PASS	C	29599365	C	C	29599365	3	2	25	1	0	0	0	0	1	0	0	0	9966	1821	63	5	562	5	MTUS2	13	29599365	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	4318891	29599365	85570513	278	11113										
RXFP2	122042	broad.mit.edu	37	chr13	32363281	32363281	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acctggaaaggatagagattCcaaatataaacacacgaatg	8	7	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr13:32363281C>A	uc001utt.2	+	14	1167	c.1096C>A	c.(1096-1098)CCA>ACA	p.P366T	RXFP2_uc010aba.2_Missense_Mutation_p.P325T	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	366	Extracellular (Potential).|LRR 10.					integral to membrane|plasma membrane					0		Lung SC(185;0.0262)		all cancers(112;0.000559)|Epithelial(112;0.0017)|OV - Ovarian serous cystadenocarcinoma(117;0.0145)|BRCA - Breast invasive adenocarcinoma(63;0.0535)		GATAGAGATTCCAAATATAAA	0.338													13	48	---	---	---	---	PASS	A	32363281	A	A	32363281	3	1	25	1	0	0	0	0	1	0	0	0	13760	855	30	2	1150	2	RXFP2	13	32363281	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2763916	32363281	82806597	279	11114										
FREM2	341640	broad.mit.edu	37	chr13	39264179	39264179	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aggacataaaacagggccgaGtttcctatgcccataatggg	11	9	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr13:39264179G>T	uc001uwv.2	+	1	3007	c.2698G>T	c.(2698-2700)GTT>TTT	p.V900F		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	900	CSPG 5.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		ACAGGGCCGAGTTTCCTATGC	0.512													7	8	---	---	---	---	PASS	T	39264179	T	T	39264179	3	4	25	1	0	0	0	0	1	0	0	0	6045	1029	36	3	2700	3	FREM2	13	39264179	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	6900898	39264179	75905699	280	11115										
UGGT2	55757	broad.mit.edu	37	chr13	96642288	96642288	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctctcaatcaggtatttttgGaatgctgtcagattatctct	7	8	4	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr13:96642288G>C	uc001vmt.2	-	8	1040	c.870C>G	c.(868-870)TTC>TTG	p.F290L	UGGT2_uc010afo.2_Intron|UGGT2_uc001vmv.2_Missense_Mutation_p.F290L|UGGT2_uc010afp.2_Missense_Mutation_p.F290L	NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	290					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						GGTATTTTTGGAATGCTGTCA	0.318													29	116	---	---	---	---	PASS	C	96642288	C	C	96642288	3	2	25	1	0	0	0	0	1	0	0	0	16939	1165	41	2	3808	2	UGGT2	13	96642288	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	57378109	96642288	18527590	281	11116										
HS6ST3	266722	broad.mit.edu	37	chr13	97485053	97485053	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agaaacaccatcctgttgcaGagtgcaaagaacaacctgaa	8	10	0	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr13:97485053G>C	uc001vmw.2	+	2	1041	c.1017G>C	c.(1015-1017)CAG>CAC	p.Q339H		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	339	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					TCCTGTTGCAGAGTGCAAAGA	0.478													15	56	---	---	---	---	PASS	C	97485053	C	C	97485053	3	2	25	1	0	0	0	0	1	0	0	0	7372	933	33	2	1023	2	HS6ST3	13	97485053	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	842765	97485053	17684825	282	11117										
POTEG	404785	broad.mit.edu	37	chr14	19559057	19559057	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atggcactgatccgaatattCcagatgagtatggaaatacc	9	8	0	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:19559057C>T	uc001vuz.1	+	3	755	c.703C>T	c.(703-705)CCA>TCA	p.P235S	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	235										ovary(1)	1						TCCGAATATTCCAGATGAGTA	0.398													10	176	---	---	---	---	PASS	T	19559057	T	T	19559057	3	4	25	1	0	0	0	0	1	0	0	0	12266	855	30	2	713	2	POTEG	14	19559057	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08		19559057	87790483	283	11118										
RNASE10	338879	broad.mit.edu	37	chr14	20978688	20978688	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgatgctgctgctgggcctgGggatgggcctggggttggga	21	7	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:20978688G>T	uc010tlj.1	+	1	58	c.58G>T	c.(58-60)GGG>TGG	p.G20W	RNASE10_uc001vxp.2_Missense_Mutation_p.G48W	NM_001012975	NP_001012993	Q5GAN6	RNS10_HUMAN	ribonuclease, RNase A family, 10 (non-active)	20						extracellular region	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00123)		Epithelial(56;1.81e-07)|all cancers(55;1.86e-06)	GBM - Glioblastoma multiforme(265;0.022)|READ - Rectum adenocarcinoma(17;0.191)		gctgggcctggggatgggcct	0.353													22	128	---	---	---	---	PASS	T	20978688	T	T	20978688	3	4	25	1	0	0	0	0	1	0	0	0	13400	1232	43	3	60	3	RNASE10	14	20978688	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1419631	20978688	86370852	284	11119										
RNASE8	122665	broad.mit.edu	37	chr14	21526420	21526420	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aactgcaggtacaaagagaaGcacctgaacacaccttacat	7	11	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:21526420G>A	uc010tlm.1	+	1	369	c.369G>A	c.(367-369)AAG>AAA	p.K123K	NDRG2_uc010tll.1_Intron	NM_138331	NP_612204	Q8TDE3	RNAS8_HUMAN	ribonuclease, RNase A family, 8 precursor	123						extracellular region	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.000759)		OV - Ovarian serous cystadenocarcinoma(11;3.42e-11)|Epithelial(56;5.57e-09)|all cancers(55;2.36e-08)	GBM - Glioblastoma multiforme(265;0.0188)		ACAAAGAGAAGCACCTGAACA	0.532													76	78	---	---	---	---	PASS	A	21526420	A	A	21526420	2	1	25	1	0	0	0	0	0	0	0	1	13409	962	34	3		3	RNASE8	14	21526420	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	547732	21526420	85823120	285	11120										
SLC22A17	51310	broad.mit.edu	37	chr14	23816673	23816673	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgcctgtctgaagcacctctGttggggttcccttgttgagc	12	11	2	2	rs147658314	by1000genomes	TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:23816673G>A	uc001wjl.2	-	7	1268	c.1212C>T	c.(1210-1212)AAC>AAT	p.N404N	SLC22A17_uc010akk.2_Intron|SLC22A17_uc001wjn.2_Intron|SLC22A17_uc001wjm.2_Intron	NM_020372	NP_065105	Q8WUG5	S22AH_HUMAN	solute carrier family 22, member 17 isoform a	404					siderophore transport	integral to organelle membrane|integral to plasma membrane|vacuolar membrane	transmembrane receptor activity|transmembrane transporter activity				0	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00643)		AAGCACCTCTGTTGGGGTTCC	0.607													16	16	---	---	---	---	PASS	A	23816673	A	A	23816673	2	1	25	1	0	0	0	0	0	0	0	1	14448	1368	48	3		3	SLC22A17	14	23816673	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	2290253	23816673	83532867	286	11121										
MIPOL1	145282	broad.mit.edu	37	chr14	37739624	37739624	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atttttttcaatgtgctttaGcttcagcagaaattggctaa	7	6	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:37739624G>T	uc001wuc.2	+	7	891	c.388_splice	c.e7-1	p.L130_splice	MIPOL1_uc010amr.2_Splice_Site|MIPOL1_uc001wub.3_Splice_Site_p.L99_splice|MIPOL1_uc001wud.2_Splice_Site_p.L130_splice|MIPOL1_uc010ams.2_Splice_Site_p.L130_splice|MIPOL1_uc001wue.2_Splice_Site_p.L99_splice|MIPOL1_uc010amt.2_Intron	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1											ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		ATGTGCTTTAGCTTCAGCAGA	0.274													9	48	---	---	---	---	PASS	T	37739624	T	T	37739624	5	4	25	1	0	0	0	0	0	0	1	0	9593	985	34	3	401	3	MIPOL1	14	37739624	Splice_Site	SNP	G	TCGA-21-5782-01A-01D-1632-08	13922951	37739624	69609916	287	11122										
LRFN5	145581	broad.mit.edu	37	chr14	42360510	42360510	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aatctggctgctggaactatGtatgacttgtgtgtcttggc	12	7	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:42360510G>T	uc001wvm.2	+	4	2641	c.1443G>T	c.(1441-1443)ATG>ATT	p.M481I	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	481	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		CTGGAACTATGTATGACTTGT	0.408										HNSCC(30;0.082)			36	102	---	---	---	---	PASS	T	42360510	T	T	42360510	3	4	25	1	0	0	0	0	1	0	0	0	8941	1377	48	3	1449	3	LRFN5	14	42360510	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	4620886	42360510	64989030	288	11123										
SOCS4	122809	broad.mit.edu	37	chr14	55510557	55510557	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acacctcctaaataccacacGcagattgattatgtccactg	5	13	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:55510557G>T	uc001xbo.2	+	3	1363	c.798G>T	c.(796-798)ACG>ACT	p.T266T	SOCS4_uc001xbp.2_Silent_p.T266T	NM_199421	NP_955453	Q8WXH5	SOCS4_HUMAN	suppressor of cytokine signaling 4	266					intracellular signal transduction|negative regulation of signal transduction|regulation of growth					ovary(1)|kidney(1)	2						AATACCACACGCAGATTGATT	0.418													9	49	---	---	---	---	PASS	T	55510557	T	T	55510557	2	4	25	1	0	0	0	0	0	0	0	1	14916	1074	38	1		1	SOCS4	14	55510557	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	13150047	55510557	51838983	289	11124										
NAA30	122830	broad.mit.edu	37	chr14	57857946	57857946	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcaacggattgattagccccGaactgcggcacctccgggcg	12	14	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:57857946G>T	uc001xcx.3	+	2	425	c.271G>T	c.(271-273)GAA>TAA	p.E91*	NAA30_uc010trk.1_Intron|NAA30_uc010aow.2_Intron	NM_001011713	NP_001011713	Q147X3	NAA30_HUMAN	N-acetyltransferase 12	91						cytoplasm	peptide alpha-N-acetyltransferase activity			skin(1)	1						GATTAGCCCCGAACTGCGGCA	0.711													4	27	---	---	---	---	PASS	T	57857946	T	T	57857946	4	4	25	1	0	0	0	0	0	1	0	0	10122	1059	37	2	273	2	NAA30	14	57857946	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2347389	57857946	49491594	290	11125										
SYT16	83851	broad.mit.edu	37	chr14	62462942	62462942	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttcaggaaacgtactttgaaGatgaagaacaagacaatgat	9	5	1	6			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:62462942G>C	uc001xfu.1	+	1	402	c.205G>C	c.(205-207)GAT>CAT	p.D69H	SYT16_uc010tsd.1_Missense_Mutation_p.D69H	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	69										central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		GTACTTTGAAGATGAAGAACA	0.368													28	95	---	---	---	---	PASS	C	62462942	C	C	62462942	3	2	25	1	0	0	0	0	1	0	0	0	15469	942	33	2	207	2	SYT16	14	62462942	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	4604996	62462942	44886598	291	11126										
ZFYVE1	53349	broad.mit.edu	37	chr14	73464678	73464678	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggcatccccaaggaatttgaAgaggtcgttatgcagccggt	13	9	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:73464678A>G	uc001xnm.2	-	3	1469	c.829T>C	c.(829-831)TTC>CTC	p.F277L	ZFYVE1_uc010arj.2_Missense_Mutation_p.F277L	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	277						endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		AGGAATTTGAAGAGGTCGTTA	0.532													4	30	---	---	---	---	PASS	G	73464678	G	G	73464678	3	3	25	1	0	0	0	0	1	0	0	0	17660	72	3	5	1544	5	ZFYVE1	14	73464678	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	11001736	73464678	33884862	292	11127										
C14orf179	112752	broad.mit.edu	37	chr14	76455252	76455252	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccaagatgggtcgccgagctCaacaggagtcagcgcaggcc	14	13	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:76455252C>G	uc010asm.1	+	2	113	c.79C>G	c.(79-81)CAA>GAA	p.Q27E	C14orf179_uc001xsf.2_RNA|C14orf179_uc010asl.1_Missense_Mutation_p.Q27E|C14orf179_uc001xsg.2_Missense_Mutation_p.Q27E|C14orf179_uc010tve.1_RNA|C14orf179_uc001xse.2_Missense_Mutation_p.Q27E	NM_001102564	NP_001096034	Q96FT9	IFT43_HUMAN	hypothetical protein LOC112752 isoform 2	27					cilium morphogenesis|intraflagellar retrograde transport						0				BRCA - Breast invasive adenocarcinoma(234;0.0199)		TCGCCGAGCTCAACAGGAGTC	0.468													6	38	---	---	---	---	PASS	G	76455252	G	G	76455252	3	3	25	1	0	0	0	0	1	0	0	0	1762	827	29	2	85	2	C14orf179	14	76455252	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2990574	76455252	30894288	293	11128										
RIN3	79890	broad.mit.edu	37	chr14	93125655	93125655	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcctggccaccaccaccactGacctaggtgtgaccaccagc	8	18	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:93125655G>A	uc001yap.2	+	7	2328	c.2176G>A	c.(2176-2178)GAC>AAC	p.D726N	RIN3_uc010auk.2_Missense_Mutation_p.D388N|RIN3_uc001yaq.2_Missense_Mutation_p.D651N|RIN3_uc001yar.1_Missense_Mutation_p.D388N|RIN3_uc001yas.1_Missense_Mutation_p.D388N	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	726	Interaction with RAB5B.|VPS9.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				CACCACCACTGACCTAGGTGT	0.552													17	85	---	---	---	---	PASS	A	93125655	A	A	93125655	3	1	25	1	0	0	0	0	1	0	0	0	13373	1290	45	2	2202	2	RIN3	14	93125655	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	16670403	93125655	14223885	294	11129										
KIAA1409	57578	broad.mit.edu	37	chr14	94044262	94044262	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tttcatagtcctttccagagTccgtttcggagtcctttgcg	9	11	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:94044262T>C	uc001ybv.1	+	15	1838	c.1755T>C	c.(1753-1755)AGT>AGC	p.S585S	KIAA1409_uc001ybs.1_Silent_p.S585S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	762						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CTTTCCAGAGTCCGTTTCGGA	0.453													47	175	---	---	---	---	PASS	C	94044262	C	C	94044262	2	2	25	1	0	0	0	0	0	0	0	1	8230	1664	58	5		5	KIAA1409	14	94044262	Silent	SNP	T	TCGA-21-5782-01A-01D-1632-08	918607	94044262	13305278	295	11130										
KIAA1409	57578	broad.mit.edu	37	chr14	94139791	94139791	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	accagatacaaaccttcttcTgcttgttcaggtaagctcat	6	11	4	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:94139791T>G	uc001ybv.1	+	40	6466	c.6383T>G	c.(6382-6384)CTG>CGG	p.L2128R	KIAA1409_uc001ybs.1_Missense_Mutation_p.L2106R	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2283						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		AACCTTCTTCTGCTTGTTCAG	0.383													15	55	---	---	---	---	PASS	G	94139791	G	G	94139791	3	3	25	1	0	0	0	0	1	0	0	0	8230	1580	55	5	6471	5	KIAA1409	14	94139791	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	95529	94139791	13209749	296	11131										
SERPINA10	51156	broad.mit.edu	37	chr14	94752574	94752574	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttctgatctagcttgaacttCggaaagaaaacttccatgtt	7	8	2	3	rs140430900		TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:94752574C>T	uc001yct.2	-	4	1480	c.1014G>A	c.(1012-1014)CCG>CCA	p.P338P	SERPINA10_uc001ycu.3_Silent_p.P338P	NM_016186	NP_057270	Q9UK55	ZPI_HUMAN	serine (or cysteine) proteinase inhibitor, clade	338					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_cancers(154;0.105)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)		GCTTGAACTTCGGAAAGAAAA	0.418													10	47	---	---	---	---	PASS	T	94752574	T	T	94752574	2	4	25	1	0	0	0	0	0	0	0	1	14087	871	31	2		2	SERPINA10	14	94752574	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	612783	94752574	12596966	297	11132										
C14orf49	161176	broad.mit.edu	37	chr14	95934295	95934295	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acgcccctcgggctccagctGgcatattttctgttgtggac	11	13	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:95934295G>A	uc001yei.3	-	2	169	c.154C>T	c.(154-156)CAG>TAG	p.Q52*	C14orf49_uc010avi.2_Nonsense_Mutation_p.Q52*|C14orf49_uc001yej.1_Nonsense_Mutation_p.Q52*	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	52	Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		GGCTCCAGCTGGCATATTTTC	0.527													6	18	---	---	---	---	PASS	A	95934295	A	A	95934295	4	1	25	1	0	0	0	0	0	1	0	0	1776	1357	47	3	2837	3	C14orf49	14	95934295	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1181721	95934295	11415245	298	11133										
BDKRB2	624	broad.mit.edu	37	chr14	96706782	96706782	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttgcaagggcccactcttaaCgggacctttgcccagagcaa	10	13	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:96706782C>T	uc010avm.1	+	3	313	c.117C>T	c.(115-117)AAC>AAT	p.N39N	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Silent_p.N12N|BDKRB2_uc001yfg.2_Silent_p.N39N	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	39	Extracellular (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		CCACTCTTAACGGGACCTTTG	0.577													51	190	---	---	---	---	PASS	T	96706782	T	T	96706782	2	4	25	1	0	0	0	0	0	0	0	1	1393	535	19	1		1	BDKRB2	14	96706782	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	772487	96706782	10642758	299	11134										
EIF5	1983	broad.mit.edu	37	chr14	103802201	103802201	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gccactaataagccaaaatgTctgtcaatgtcaaccgcagc	7	12	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:103802201T>C	uc001ymq.2	+	3	526	c.4T>C	c.(4-6)TCT>CCT	p.S2P	EIF5_uc001ymr.2_Missense_Mutation_p.S2P|EIF5_uc001yms.2_Missense_Mutation_p.S2P|EIF5_uc001ymt.2_Missense_Mutation_p.S2P|EIF5_uc001ymu.2_Missense_Mutation_p.S2P|SNORA28_uc001ymv.1_5'Flank	NM_001969	NP_001960	P55010	IF5_HUMAN	eukaryotic translation initiation factor 5	2					regulation of translational initiation|RNA metabolic process	cytosol	GTP binding|GTPase activity|translation initiation factor activity			pancreas(1)|breast(1)|skin(1)	3		Melanoma(154;0.155)	Epithelial(46;0.182)			AGCCAAAATGTCTGTCAATGT	0.408													27	69	---	---	---	---	PASS	C	103802201	C	C	103802201	3	2	25	1	0	0	0	0	1	0	0	0	5040	1667	58	5	6	5	EIF5	14	103802201	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	7095419	103802201	3547339	300	11135										
AHNAK2	113146	broad.mit.edu	37	chr14	105410942	105410942	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tccctccagccgcccagcatCcagcttggccttcggggcct	10	19	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr14:105410942C>G	uc010axc.1	-	7	10966	c.10846G>C	c.(10846-10848)GAT>CAT	p.D3616H	AHNAK2_uc001ypx.2_Missense_Mutation_p.D3516H	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3616						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)			CGCCCAGCATCCAGCTTGGCC	0.592													32	137	---	---	---	---	PASS	G	105410942	G	G	105410942	3	3	25	1	0	0	0	0	1	0	0	0	415	855	30	2	6545	2	AHNAK2	14	105410942	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1608741	105410942	1938598	301	11136										
C15orf52	388115	broad.mit.edu	37	chr15	40628970	40628970	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccccaactcaccttttccatCagggagcaatggtgggggct	11	13	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr15:40628970C>G	uc001zlh.3	-	8	935	c.919G>C	c.(919-921)GAT>CAT	p.D307H	C15orf52_uc001zli.1_3'UTR|C15orf52_uc010ucn.1_Missense_Mutation_p.D97H	NM_207380	NP_997263	Q6ZUT6	CO052_HUMAN	hypothetical protein LOC388115	307										large_intestine(1)	1		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.06e-06)|Colorectal(105;0.0107)|BRCA - Breast invasive adenocarcinoma(123;0.0505)|READ - Rectum adenocarcinoma(2;0.0649)|Lung(196;0.0781)|LUAD - Lung adenocarcinoma(183;0.0841)		CCTTTTCCATCAGGGAGCAAT	0.577													23	75	---	---	---	---	PASS	G	40628970	G	G	40628970	3	3	25	1	0	0	0	0	1	0	0	0	1800	826	29	2	701	2	C15orf52	15	40628970	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08		40628970	61902422	302	11137										
C15orf33	196951	broad.mit.edu	37	chr15	49882182	49882182	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atttatcatcatctctaaaaTggatttcccttggccaataa	4	9	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr15:49882182T>A	uc001zxl.2	-	4	422	c.128A>T	c.(127-129)CAT>CTT	p.H43L	C15orf33_uc001zxm.2_Missense_Mutation_p.H43L	NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	43										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)		ATCTCTAAAATGGATTTCCCT	0.303													8	49	---	---	---	---	PASS	A	49882182	A	A	49882182	3	1	25	1	0	0	0	0	1	0	0	0	1791	1464	51	5	1450	5	C15orf33	15	49882182	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	9253212	49882182	52649210	303	11138										
WDR72	256764	broad.mit.edu	37	chr15	54007544	54007544	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agccagccttctcctgtcatCcggaatgagcagtggtaata	10	11	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr15:54007544C>A	uc002acj.2	-	5	402	c.360G>T	c.(358-360)CGG>CGT	p.R120R	WDR72_uc010bfi.1_Silent_p.R120R	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	120										lung(1)|skin(1)	2				all cancers(107;0.0511)		CTCCTGTCATCCGGAATGAGC	0.343													7	33	---	---	---	---	PASS	A	54007544	A	A	54007544	2	1	25	1	0	0	0	0	0	0	0	1	17319	842	30	2		2	WDR72	15	54007544	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	4125362	54007544	48523848	304	11139										
UNC13C	440279	broad.mit.edu	37	chr15	54707198	54707198	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aggtttcctcaagagctgaaCatgggaaaaataagtgccga	11	7	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr15:54707198C>T	uc002ack.2	+	17	4866	c.4866C>T	c.(4864-4866)AAC>AAT	p.N1622N	UNC13C_uc002acl.2_Silent_p.N452N	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1622					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AAGAGCTGAACATGGGAAAAA	0.303													5	21	---	---	---	---	PASS	T	54707198	T	T	54707198	2	4	25	1	0	0	0	0	0	0	0	1	16983	477	17	3		3	UNC13C	15	54707198	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	699654	54707198	47824194	305	11140										
SCAMP2	10066	broad.mit.edu	37	chr15	75141031	75141031	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agaacacaaagaagctgaaaGagttgtcggacctgtggaga	13	6	0	5			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr15:75141031G>C	uc002azb.1	-	7	718	c.644C>G	c.(643-645)TCT>TGT	p.S215C	SCAMP2_uc002aza.1_Missense_Mutation_p.S65C|SCAMP2_uc010bkg.1_Intron	NM_005697	NP_005688	O15127	SCAM2_HUMAN	secretory carrier membrane protein 2	215	Cytoplasmic (Potential).|Interaction with SLC9A7.				post-Golgi vesicle-mediated transport|protein transport	integral to membrane|nucleus|recycling endosome membrane|trans-Golgi network membrane	protein binding			ovary(1)	1						GAAGCTGAAAGAGTTGTCGGA	0.488													5	17	---	---	---	---	PASS	C	75141031	C	C	75141031	3	2	25	1	0	0	0	0	1	0	0	0	13871	942	33	2	357	2	SCAMP2	15	75141031	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	20433833	75141031	27390361	306	11141										
FAH	2184	broad.mit.edu	37	chr15	80469898	80469898	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggagaaggaatgagccaggcGgctaccatatgcaagtccaa	13	9	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr15:80469898G>T	uc002bfj.2	+	12	1015	c.933G>T	c.(931-933)GCG>GCT	p.A311A	FAH_uc002bfk.1_Silent_p.A311A|FAH_uc002bfm.1_Silent_p.A311A|FAH_uc002bfn.1_Silent_p.A241A|FAH_uc010bln.1_RNA|FAH_uc010blo.1_RNA	NM_000137	NP_000128	P16930	FAAA_HUMAN	fumarylacetoacetase	311					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	fumarylacetoacetase activity|metal ion binding				0						TGAGCCAGGCGGCTACCATAT	0.403									Tyrosinemia_type_1				17	57	---	---	---	---	PASS	T	80469898	T	T	80469898	2	4	25	1	0	0	0	0	0	0	0	1	5371	1103	39	1		1	FAH	15	80469898	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	5328867	80469898	22061494	307	11142										
CHD2	1106	broad.mit.edu	37	chr15	93482893	93482893	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	attcttctgatgaggatgatGatgatgacgaagctcccaaa	10	7	2	6			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr15:93482893G>A	uc002bsp.2	+	7	1212	c.637G>A	c.(637-639)GAT>AAT	p.D213N	CHD2_uc002bsm.1_Missense_Mutation_p.D213N|CHD2_uc002bsn.2_Missense_Mutation_p.D213N|CHD2_uc002bso.1_Missense_Mutation_p.D213N|CHD2_uc010urb.1_Missense_Mutation_p.D226N	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	213					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			TGAGGATGATGATGATGACGA	0.443													23	63	---	---	---	---	PASS	A	93482893	A	A	93482893	3	1	25	1	0	0	0	0	1	0	0	0	3325	1290	45	2	659	2	CHD2	15	93482893	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	13012995	93482893	9048499	308	11143										
SPATA8	145946	broad.mit.edu	37	chr15	97327381	97327381	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acccctgtgttctcttctgcAgaacctcgtcgcgacatttc	7	15	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr15:97327381A>C	uc002bue.2	+	2	300	c.90_splice	c.e2-2	p.R30_splice	uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8											ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			TCTCTTCTGCAGAACCTCGTC	0.577													10	28	---	---	---	---	PASS	C	97327381	C	C	97327381	5	2	25	1	0	0	0	0	0	0	1	0	15014	202	7	5	94	5	SPATA8	15	97327381	Splice_Site	SNP	A	TCGA-21-5782-01A-01D-1632-08	3844488	97327381	5204011	309	11144										
ABCC6	368	broad.mit.edu	37	chr16	16278887	16278887	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atggtgatgcaatccttcccGgcagctgcagggcacaagag	13	11	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr16:16278887G>A	uc002den.3	-	15	1909	c.1872C>T	c.(1870-1872)GCC>GCT	p.A624A	ABCC6_uc010bvo.2_RNA|ABCC6_uc010uzz.1_Silent_p.A636A	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	624	Cytoplasmic (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances	p.A624V(1)		skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		AATCCTTCCCGGCAGCTGCAG	0.652													6	25	---	---	---	---	PASS	A	16278887	A	A	16278887	2	1	25	1	0	0	0	0	0	0	0	1	57	1103	39	1		1	ABCC6	16	16278887	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08		16278887	74075866	310	11145										
ACSM2B	348158	broad.mit.edu	37	chr16	20554480	20554480	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctggagttaatgatatcatcTgcccgtcccataaactggaa	8	10	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr16:20554480T>G	uc002dhj.3	-	12	1596	c.1386A>C	c.(1384-1386)GCA>GCC	p.A462A	ACSM2B_uc002dhk.3_Silent_p.A462A|ACSM2B_uc010bwf.1_Silent_p.A462A	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	462					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						TGATATCATCTGCCCGTCCCA	0.507													40	252	---	---	---	---	PASS	G	20554480	G	G	20554480	2	3	25	1	0	0	0	0	0	0	0	1	184	1567	55	5		5	ACSM2B	16	20554480	Silent	SNP	T	TCGA-21-5782-01A-01D-1632-08	4275593	20554480	69800273	311	11146										
PALB2	79728	broad.mit.edu	37	chr16	23641656	23641656	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgaaagtctgtgatactgaGaaaagacagtagttgcttta	10	5	1	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr16:23641656G>C	uc002dlx.1	-	5	2019	c.1819C>G	c.(1819-1821)CTC>GTC	p.L607V		NM_024675	NP_078951	Q86YC2	PALB2_HUMAN	partner and localizer of BRCA2	607					double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)		GTGATACTGAGAAAAGACAGT	0.408			F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				9	68	---	---	---	---	PASS	C	23641656	C	C	23641656	3	2	25	1	0	0	0	0	1	0	0	0	11406	942	33	2	1777	2	PALB2	16	23641656	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	3087176	23641656	66713097	312	11147										
MYST1	84148	broad.mit.edu	37	chr16	31142524	31142524	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttctccccacagtggactccGtctgcctcaagtgggcaccc	9	17	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr16:31142524G>C	uc002eay.2	+	11	1339	c.1321G>C	c.(1321-1323)GTC>CTC	p.V441L	MYST1_uc002eax.2_3'UTR|MYST1_uc002eaz.2_Missense_Mutation_p.V283L|MYST1_uc002eba.2_3'UTR|MYST1_uc002ebb.2_RNA	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	441					histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						AGTGGACTCCGTCTGCCTCAA	0.667													5	14	---	---	---	---	PASS	C	31142524	C	C	31142524	3	2	25	1	0	0	0	0	1	0	0	0	10102	1145	40	4	1455	4	MYST1	16	31142524	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	7500868	31142524	59212229	313	11148										
ARMC5	79798	broad.mit.edu	37	chr16	31473871	31473871	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tagatgagctccggcagcgcCgggatcctaatggagctagc	14	11	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr16:31473871C>T	uc002ecc.2	+	3	1532	c.1003C>T	c.(1003-1005)CGG>TGG	p.R335W	ARMC5_uc010vfn.1_Missense_Mutation_p.R430W|ARMC5_uc010vfo.1_Missense_Mutation_p.R367W|ARMC5_uc002eca.3_Missense_Mutation_p.R335W|ARMC5_uc010vfp.1_Intron|ARMC5_uc002ecb.2_Missense_Mutation_p.R335W	NM_001105247	NP_001098717	Q96C12	ARMC5_HUMAN	armadillo repeat containing 5 isoform a	335	ARM 5.						binding	p.R335C(1)		pancreas(1)	1						CCGGCAGCGCCGGGATCCTAA	0.652													11	26	---	---	---	---	PASS	T	31473871	T	T	31473871	3	4	25	1	0	0	0	0	1	0	0	0	954	643	23	1	1013	1	ARMC5	16	31473871	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	331347	31473871	58880882	314	11149										
NOD2	64127	broad.mit.edu	37	chr16	50741806	50741806	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgccacggtgaaagcgaatgGattggctgccttccttctac	11	11	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr16:50741806G>C	uc002egm.1	+	3	686	c.581G>C	c.(580-582)GGA>GCA	p.G194A	NOD2_uc010cbk.1_Missense_Mutation_p.G167A|NOD2_uc002egl.1_Intron|NOD2_uc010cbl.1_5'Flank|NOD2_uc010cbm.1_5'Flank|NOD2_uc010cbn.1_5'Flank|NOD2_uc010cbo.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	194	CARD 2.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				AAAGCGAATGGATTGGCTGCC	0.483													25	70	---	---	---	---	PASS	C	50741806	C	C	50741806	3	2	25	1	0	0	0	0	1	0	0	0	10517	1174	41	2	591	2	NOD2	16	50741806	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	19267935	50741806	39612947	315	11150										
NUP93	9688	broad.mit.edu	37	chr16	56792532	56792532	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgagtgcagccaccacctttGagcctcttgagcctgtgaag	11	12	1	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr16:56792532G>T	uc002eka.2	+	3	383	c.262G>T	c.(262-264)GAG>TAG	p.E88*		NM_014669	NP_055484	Q8N1F7	NUP93_HUMAN	nucleoporin 93kDa	88					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(1)|lung(1)	2						CACCACCTTTGAGCCTCTTGA	0.537													12	42	---	---	---	---	PASS	T	56792532	T	T	56792532	4	4	25	1	0	0	0	0	0	1	0	0	10772	1291	45	2	268	2	NUP93	16	56792532	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	6050726	56792532	33562221	316	11151										
CES2	8824	broad.mit.edu	37	chr16	66977219	66977219	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cagttaaattcactgaggaaGaggagcagctaagcaggaag	13	6	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr16:66977219G>T	uc002eqr.2	+	11	2630	c.1630G>T	c.(1630-1632)GAG>TAG	p.E544*	CES2_uc002eqq.2_Nonsense_Mutation_p.E528*|CES2_uc002eqs.2_Nonsense_Mutation_p.E387*	NM_003869	NP_003860	O00748	EST2_HUMAN	carboxylesterase 2 isoform 1	480					catabolic process	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0663)|Epithelial(162;0.166)		CACTGAGGAAGAGGAGCAGCT	0.542													14	32	---	---	---	---	PASS	T	66977219	T	T	66977219	4	4	25	1	0	0	0	0	0	1	0	0	3270	943	33	2	1672	2	CES2	16	66977219	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	10184687	66977219	23377534	317	11152										
RLTPR	146206	broad.mit.edu	37	chr16	67683724	67683724	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cccaggtctgtggtctgggaCcggaaccacacatctgcttt	11	13	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr16:67683724C>T	uc002etn.2	+	21	2055	c.1935C>T	c.(1933-1935)GAC>GAT	p.D645D	RLTPR_uc010cel.1_Silent_p.D638D|RLTPR_uc010vjr.1_Silent_p.D609D	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	645	Tropomodulin-like.|LRR 15.									breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		TGGTCTGGGACCGGAACCACA	0.662													9	39	---	---	---	---	PASS	T	67683724	T	T	67683724	2	4	25	1	0	0	0	0	0	0	0	1	13394	506	18	3		3	RLTPR	16	67683724	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	706505	67683724	22671029	318	11153										
PRMT7	54496	broad.mit.edu	37	chr16	68390996	68390996	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cccactgcaagcaggccgtcTacttcttcagccctgcccca	7	19	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr16:68390996T>A	uc002evy.1	+	19	2224	c.1948T>A	c.(1948-1950)TAC>AAC	p.Y650N	PRMT7_uc010vlg.1_Missense_Mutation_p.Y600N|PRMT7_uc002evz.1_Missense_Mutation_p.Y422N	NM_019023	NP_061896	Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	650					cell differentiation|DNA methylation involved in gamete generation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	[myelin basic protein]-arginine N-methyltransferase activity|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N monomethyltransferase activity|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		GCAGGCCGTCTACTTCTTCAG	0.612													7	45	---	---	---	---	PASS	A	68390996	A	A	68390996	3	1	25	1	0	0	0	0	1	0	0	0	12541	1522	53	5	2014	5	PRMT7	16	68390996	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	707272	68390996	21963757	319	11154										
GLG1	2734	broad.mit.edu	37	chr16	74497378	74497378	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tctgcttccggacagaacctCtgcaaagaaacagtttgata	8	10	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr16:74497378C>G	uc002fcy.3	-	20	2718	c.2668_splice	c.e20-1	p.R890_splice	GLG1_uc002fcx.2_Splice_Site_p.R890_splice|GLG1_uc002fcw.3_Splice_Site_p.R879_splice|GLG1_uc002fcz.3_Splice_Site_p.R307_splice	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3							Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						GACAGAACCTCTGCAAAGAAA	0.323													24	77	---	---	---	---	PASS	G	74497378	G	G	74497378	5	3	25	1	0	0	0	0	0	0	1	0	6436	927	32	2	980	2	GLG1	16	74497378	Splice_Site	SNP	C	TCGA-21-5782-01A-01D-1632-08	6106382	74497378	15857375	320	11155										
ZFP3	124961	broad.mit.edu	37	chr17	4996231	4996231	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acactggagagaagccttatGagtgccaagaatgtcagaag	12	7	1	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:4996231G>C	uc002gaq.2	+	2	1557	c.1432G>C	c.(1432-1434)GAG>CAG	p.E478Q		NM_153018	NP_694563	Q96NJ6	ZFP3_HUMAN	zinc finger protein-3	478	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAAGCCTTATGAGTGCCAAGA	0.413													15	32	---	---	---	---	PASS	C	4996231	C	C	4996231	3	2	25	1	0	0	0	0	1	0	0	0	17640	1291	45	2	1434	2	ZFP3	17	4996231	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08		4996231	76198979	321	11156										
WSCD1	23302	broad.mit.edu	37	chr17	5983988	5983988	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgcccaggggcatggccaaaCctttcttccgactccagaag	10	14	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:5983988C>A	uc010cli.2	+	2	389	c.10C>A	c.(10-12)CCT>ACT	p.P4T	WSCD1_uc002gcn.2_Missense_Mutation_p.P4T|WSCD1_uc002gco.2_Missense_Mutation_p.P4T|WSCD1_uc010clj.2_5'UTR	NM_015253	NP_056068	Q658N2	WSCD1_HUMAN	WSC domain containing 1	4						integral to membrane	sulfotransferase activity				0						CATGGCCAAACCTTTCTTCCG	0.657													9	26	---	---	---	---	PASS	A	5983988	A	A	5983988	3	1	25	1	0	0	0	0	1	0	0	0	17403	507	18	3	12	3	WSCD1	17	5983988	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	987757	5983988	75211222	322	11157										
KIAA0753	9851	broad.mit.edu	37	chr17	6531662	6531662	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggcaccagagctggagatttCtactttggatggctggtggc	15	8	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:6531662C>A	uc002gde.3	-	3	852	c.493G>T	c.(493-495)GAA>TAA	p.E165*	KIAA0753_uc010clo.2_5'UTR|KIAA0753_uc010vte.1_5'UTR	NM_014804	NP_055619	Q2KHM9	K0753_HUMAN	hypothetical protein LOC9851	165						centrosome					0				COAD - Colon adenocarcinoma(228;0.157)		CTGGAGATTTCTACTTTGGAT	0.488													11	31	---	---	---	---	PASS	A	6531662	A	A	6531662	4	1	25	1	0	0	0	0	0	1	0	0	8191	922	32	2	2478	2	KIAA0753	17	6531662	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	547674	6531662	74663548	323	11158										
TP53	7157	broad.mit.edu	37	chr17	7578265	7578265	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gcaaatttccttccactcggAtaagatgctgaggaggggcc	12	10	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:7578265A>C	uc002gim.2	-	6	778	c.584T>G	c.(583-585)ATC>AGC	p.I195S	TP53_uc002gig.1_Missense_Mutation_p.I195S|TP53_uc002gih.2_Missense_Mutation_p.I195S|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.I63S|TP53_uc010cng.1_Missense_Mutation_p.I63S|TP53_uc002gii.1_Missense_Mutation_p.I63S|TP53_uc010cnh.1_Missense_Mutation_p.I195S|TP53_uc010cni.1_Missense_Mutation_p.I195S|TP53_uc002gij.2_Missense_Mutation_p.I195S|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.I102S|TP53_uc002gio.2_Missense_Mutation_p.I63S|TP53_uc010vug.1_Missense_Mutation_p.I156S	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	195	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		I -> F (in sporadic cancers; somatic mutation).|I -> L (in a sporadic cancer; somatic mutation).|I -> S (in sporadic cancers; somatic mutation).|I -> T (in sporadic cancers; somatic mutation).|I -> V (in a sporadic cancer; somatic mutation).|I -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|I -> N (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.I195T(61)|p.I195F(16)|p.I195N(12)|p.0?(7)|p.I195S(4)|p.A189_V197delAPPQHLIRV(4)|p.I195fs*14(3)|p.I195fs*52(3)|p.K164_P219del(1)|p.I195L(1)|p.I195fs*50(1)|p.P191fs*6(1)|p.I195_G199delIRVEG(1)|p.H193_I195delHLI(1)|p.H193_I195>AP(1)|p.I195fs*12(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)		TTCCACTCGGATAAGATGCTG	0.552		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	25	---	---	---	---	PASS	C	7578265	C	C	7578265	3	2	25	1	0	0	0	0	1	0	0	0	16378	333	12	5	710	5	TP53	17	7578265	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	1046603	7578265	73616945	324	11159										
MYH4	4622	broad.mit.edu	37	chr17	10366280	10366280	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgggttggtggtgatcagaaGcatttctgaacacatggaaa	13	5	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:10366280G>A	uc002gmn.2	-	11	1021	c.910C>T	c.(910-912)CTT>TTT	p.L304F	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	304	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						GTGATCAGAAGCATTTCTGAA	0.433													11	18	---	---	---	---	PASS	A	10366280	A	A	10366280	3	1	25	1	0	0	0	0	1	0	0	0	10037	971	34	3	5029	3	MYH4	17	10366280	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2788015	10366280	70828930	325	11160										
SPAG5	10615	broad.mit.edu	37	chr17	26906445	26906445	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgtagcagggaacaaagactCtgaagctcagtagtcataat	10	7	3	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:26906445C>T	uc002hbq.2	-	18	3035	c.2943G>A	c.(2941-2943)CAG>CAA	p.Q981Q	ALDOC_uc002hbp.2_5'Flank|ALDOC_uc010cro.2_5'Flank	NM_006461	NP_006452	Q96R06	SPAG5_HUMAN	sperm associated antigen 5	981	Potential.				cell division|mitosis|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytoplasm|spindle pole	protein binding			central_nervous_system(1)	1	Lung NSC(42;0.00431)					AACAAAGACTCTGAAGCTCAG	0.493													38	89	---	---	---	---	PASS	T	26906445	T	T	26906445	2	4	25	1	0	0	0	0	0	0	0	1	14981	912	32	2		2	SPAG5	17	26906445	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	16540165	26906445	54288765	326	11161										
MYO18A	399687	broad.mit.edu	37	chr17	27449231	27449231	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gccacaccttctccgtctcaTtccaggcctcttctgctgca	6	18	4	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:27449231T>G	uc002hdt.1	-	3	1198	c.1040A>C	c.(1039-1041)AAT>ACT	p.N347T	MYO18A_uc010wbc.1_5'Flank|MYO18A_uc002hds.2_5'UTR|MYO18A_uc010csa.1_Missense_Mutation_p.N347T|MYO18A_uc002hdu.1_Missense_Mutation_p.N347T|MYO18A_uc010wbd.1_Missense_Mutation_p.N16T	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	347					anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CTCCGTCTCATTCCAGGCCTC	0.552													3	4	---	---	---	---	PASS	G	27449231	G	G	27449231	3	3	25	1	0	0	0	0	1	0	0	0	10065	1493	52	5	5284	5	MYO18A	17	27449231	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	542786	27449231	53745979	327	11162										
CCDC55	84081	broad.mit.edu	37	chr17	28499605	28499605	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gggaagctgctaagaagcagGccatgaaacaggtaaggtag	15	6	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:28499605G>T	uc002heu.2	+	3	188	c.160G>T	c.(160-162)GCC>TCC	p.A54S	CCDC55_uc002hev.2_5'UTR|CCDC55_uc010wbl.1_5'UTR|CCDC55_uc010wbm.1_5'UTR|CCDC55_uc002hex.2_5'UTR	NM_032141	NP_115517	Q9H0G5	NSRP1_HUMAN	coiled-coil domain containing 55 isoform 1	54					developmental process|nucleocytoplasmic transport|regulation of alternative nuclear mRNA splicing, via spliceosome	nuclear speck|ribonucleoprotein complex	mRNA binding|protein binding				0						TAAGAAGCAGGCCATGAAACA	0.383													6	23	---	---	---	---	PASS	T	28499605	T	T	28499605	3	4	25	1	0	0	0	0	1	0	0	0	2825	1203	42	3	170	3	CCDC55	17	28499605	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1050374	28499605	52695605	328	11163										
GAS2L2	246176	broad.mit.edu	37	chr17	34072636	34072636	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cactgcgagggatgaccccaGaccttgtgccctgcggacag	13	14	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:34072636G>T	uc002hjv.1	-	6	1908	c.1880C>A	c.(1879-1881)TCT>TAT	p.S627Y		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	627					cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GATGACCCCAGACCTTGTGCC	0.577													39	117	---	---	---	---	PASS	T	34072636	T	T	34072636	3	4	25	1	0	0	0	0	1	0	0	0	6247	942	33	2	766	2	GAS2L2	17	34072636	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	5573031	34072636	47122574	329	11164										
KRT13	3860	broad.mit.edu	37	chr17	39658978	39658978	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agctcaatctccaggccttgGagcgtgcgcctgagctccgt	12	14	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:39658978G>T	uc002hwu.1	-	5	1047	c.984C>A	c.(982-984)CTC>CTA	p.L328L	KRT13_uc002hwv.1_Silent_p.L328L|KRT13_uc002hww.2_Silent_p.L221L|KRT13_uc010wfr.1_Silent_p.L221L|KRT13_uc010cxo.2_Silent_p.L328L|KRT13_uc002hwx.1_Silent_p.L316L	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	328	Rod.|Coil 2.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				CCAGGCCTTGGAGCGTGCGCC	0.587													35	98	---	---	---	---	PASS	T	39658978	T	T	39658978	2	4	25	1	0	0	0	0	0	0	0	1	8450	1161	41	2		2	KRT13	17	39658978	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	5586342	39658978	41536232	330	11165										
KRT17	3872	broad.mit.edu	37	chr17	39777062	39777062	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctccacgctgccaatcagccCctggatctgggacagctgca	10	16	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:39777062C>A	uc002hxh.2	-	6	1151	c.1030G>T	c.(1030-1032)GGG>TGG	p.G344W	JUP_uc010wfs.1_Intron	NM_000422	NP_000413	Q04695	K1C17_HUMAN	keratin 17	344	Peptide epitope S4; induces T-cell and keratinocyte proliferation and IFN-gamma production.|Coil 2.|Rod.				epidermis development	cytoplasm|intermediate filament	protein binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2		Breast(137;0.000307)				CCAATCAGCCCCTGGATCTGG	0.607									Steatocystoma_Multiplex				13	54	---	---	---	---	PASS	A	39777062	A	A	39777062	3	1	25	1	0	0	0	0	1	0	0	0	8454	623	22	3	280	3	KRT17	17	39777062	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	118084	39777062	41418148	331	11166										
BRCA1	672	broad.mit.edu	37	chr17	41246589	41246589	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tttccttacttccagcccatCtgttatgttggctccttgct	6	13	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:41246589C>G	uc002icq.2	-	10	1191	c.959G>C	c.(958-960)AGA>ACA	p.R320T	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.R249T|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.R273T|BRCA1_uc002ict.2_Missense_Mutation_p.R320T|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.R320T|BRCA1_uc002ide.1_Missense_Mutation_p.R151T|BRCA1_uc010cyy.1_Missense_Mutation_p.R320T|BRCA1_uc010whs.1_Missense_Mutation_p.R320T|BRCA1_uc010cyz.2_Missense_Mutation_p.R273T|BRCA1_uc010cza.2_Missense_Mutation_p.R294T|BRCA1_uc010wht.1_Missense_Mutation_p.R24T	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	320					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TCCAGCCCATCTGTTATGTTG	0.413			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			28	114	---	---	---	---	PASS	G	41246589	G	G	41246589	3	3	25	1	0	0	0	0	1	0	0	0	1498	913	32	2	4758	2	BRCA1	17	41246589	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1469527	41246589	39948621	332	11167										
TMEM106A	113277	broad.mit.edu	37	chr17	41365217	41365217	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgccttgtgaaggaactgctGatgccagcttcgtgacttgt	12	9	0	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:41365217G>A	uc002idn.1	+	3	394	c.157G>A	c.(157-159)GAT>AAT	p.D53N	TMEM106A_uc010why.1_Missense_Mutation_p.D5N|TMEM106A_uc010cze.1_Missense_Mutation_p.D53N|TMEM106A_uc010whz.1_Missense_Mutation_p.D53N	NM_145041	NP_659478	Q96A25	T106A_HUMAN	transmembrane protein 106A	53						integral to membrane					0		Breast(137;0.0164)		BRCA - Breast invasive adenocarcinoma(366;0.0917)		AGGAACTGCTGATGCCAGCTT	0.552													23	61	---	---	---	---	PASS	A	41365217	A	A	41365217	3	1	25	1	0	0	0	0	1	0	0	0	16017	1290	45	2	159	2	TMEM106A	17	41365217	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	118628	41365217	39829993	333	11168										
TANC2	26115	broad.mit.edu	37	chr17	61432617	61432617	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctagaatgggaggattttcaGcagagaatggagaacctctc	12	7	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:61432617G>A	uc002jal.3	+	12	2249	c.2226G>A	c.(2224-2226)CAG>CAA	p.Q742Q	TANC2_uc010wpe.1_Silent_p.Q652Q|TANC2_uc002jam.1_Silent_p.Q109Q	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	742							binding			ovary(2)	2						AGGATTTTCAGCAGAGAATGG	0.478													8	29	---	---	---	---	PASS	A	61432617	A	A	61432617	2	1	25	1	0	0	0	0	0	0	0	1	15542	962	34	3		3	TANC2	17	61432617	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	20067400	61432617	19762593	334	11169										
ERN1	2081	broad.mit.edu	37	chr17	62175585	62175585	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tttcaggaagcgtcactgtgCtggtacttccaaaaatctgc	9	10	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:62175585C>T	uc002jdz.2	-	2	184	c.71G>A	c.(70-72)AGC>AAC	p.S24N		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	24	Lumenal (Potential).				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						CGTCACTGTGCTGGTACTTCC	0.448													13	31	---	---	---	---	PASS	T	62175585	T	T	62175585	3	4	25	1	0	0	0	0	1	0	0	0	5237	797	28	3	2946	3	ERN1	17	62175585	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	742968	62175585	19019625	335	11170										
TMC6	11322	broad.mit.edu	37	chr17	76116838	76116838	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aaatcctcccagcactggccCtgcaggacgcccaccctgcg	9	19	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:76116838C>A	uc002juj.1	-	12	1737	c.1611G>T	c.(1609-1611)CAG>CAT	p.Q537H	TMC6_uc002jui.1_Intron|TMC6_uc010dhf.1_Missense_Mutation_p.Q370H|TMC6_uc002juk.2_Missense_Mutation_p.Q537H|TMC6_uc010dhg.1_Intron|TMC6_uc002jul.1_Missense_Mutation_p.Q537H|TMC6_uc002jum.3_Missense_Mutation_p.Q328H|TMC6_uc002jun.3_Missense_Mutation_p.Q537H|TMC6_uc002juo.2_3'UTR	NM_007267	NP_009198	Q7Z403	TMC6_HUMAN	transmembrane channel-like 6	537	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			AGCACTGGCCCTGCAGGACGC	0.622									Epidermodysplasia_Verruciformis_Familial_Clustering_of				23	65	---	---	---	---	PASS	A	76116838	A	A	76116838	3	1	25	1	0	0	0	0	1	0	0	0	15986	680	24	3	838	3	TMC6	17	76116838	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	13941253	76116838	5078372	336	11171										
P4HB	5034	broad.mit.edu	37	chr17	79803439	79803439	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tctggagggaaggcgcaccgTcctgtcggcactggcaggaa	16	11	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:79803439T>C	uc002kbn.1	-	9	1554	c.1357A>G	c.(1357-1359)ACG>GCG	p.T453A	P4HB_uc002kbl.1_Missense_Mutation_p.T130A|P4HB_uc002kbm.1_Missense_Mutation_p.T130A	NM_000918	NP_000909	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta subunit precursor	453	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|lipid metabolic process|lipoprotein metabolic process|peptidyl-proline hydroxylation to 4-hydroxy-L-proline	cell surface|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|extracellular region|melanosome|plasma membrane	electron carrier activity|procollagen-proline 4-dioxygenase activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			AGGCGCACCGTCCTGTCGGCA	0.642													5	12	---	---	---	---	PASS	C	79803439	C	C	79803439	3	2	25	1	0	0	0	0	1	0	0	0	11359	1667	58	5	181	5	P4HB	17	79803439	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	3686601	79803439	1391771	337	11172										
NOTUM	147111	broad.mit.edu	37	chr17	79910847	79910847	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gacagtctgcctagcttccgTtgctcagcatccccagcagc	9	16	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:79910847T>A	uc010wvg.1	-	11	1753	c.1481A>T	c.(1480-1482)AAC>ATC	p.N494I		NM_178493	NP_848588	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog precursor	494						extracellular region	hydrolase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CTAGCTTCCGTTGCTCAGCAT	0.667													24	67	---	---	---	---	PASS	A	79910847	A	A	79910847	3	1	25	1	0	0	0	0	1	0	0	0	10552	1725	60	5	13	5	NOTUM	17	79910847	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	107408	79910847	1284363	338	11173										
FN3K	64122	broad.mit.edu	37	chr17	80708298	80708298	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccgttgctctcgtaggtgaaGatcccggatctgttttgtgg	13	9	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr17:80708298G>C	uc010wvs.1	+	6	658	c.597G>C	c.(595-597)AAG>AAC	p.K199N	TBCD_uc002kfx.1_5'Flank|TBCD_uc002kfy.1_5'Flank|TBCD_uc002kfz.2_5'Flank	NM_022158	NP_071441	Q9H479	FN3K_HUMAN	fructosamine 3 kinase	199					fructoselysine metabolic process		fructosamine-3-kinase activity				0	Breast(20;0.000523)|all_neural(118;0.0952)		BRCA - Breast invasive adenocarcinoma(99;0.0344)|OV - Ovarian serous cystadenocarcinoma(97;0.061)			CGTAGGTGAAGATCCCGGATC	0.577													18	26	---	---	---	---	PASS	C	80708298	C	C	80708298	3	2	25	1	0	0	0	0	1	0	0	0	5963	933	33	2	619	2	FN3K	17	80708298	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	797451	80708298	486912	339	11174										
LPIN2	9663	broad.mit.edu	37	chr18	2920816	2920816	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tctttcttgtattaattcacCcttggggttcacggtgaata	8	8	4	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr18:2920816C>G	uc002klo.2	-	19	2745	c.2506G>C	c.(2506-2508)GGT>CGT	p.G836R		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	836	C-LIP.				fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		ATTAATTCACCCTTGGGGTTC	0.493													7	56	---	---	---	---	PASS	G	2920816	G	G	2920816	3	3	25	1	0	0	0	0	1	0	0	0	8919	623	22	4	192	4	LPIN2	18	2920816	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08		2920816	75156432	340	11175										
SLC14A2	8170	broad.mit.edu	37	chr18	43262473	43262473	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	taacaaagtatcaggcctacGatgtctcctaagtttccctg	7	11	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr18:43262473G>A	uc010dnj.2	+	21	3073	c.2752G>A	c.(2752-2754)GAT>AAT	p.D918N	SLC14A2_uc002lbe.2_Missense_Mutation_p.D918N	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	918						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						TCAGGCCTACGATGTCTCCTA	0.498													9	36	---	---	---	---	PASS	A	43262473	A	A	43262473	3	1	25	1	0	0	0	0	1	0	0	0	14397	1058	37	2	2826	2	SLC14A2	18	43262473	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	40341657	43262473	34814775	341	11176										
KIAA0427	9811	broad.mit.edu	37	chr18	46145966	46145966	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcctctgcagcatcagcctcCtcggaggcagggagcagccg	13	15	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr18:46145966C>T	uc002ldc.2	+	2	315	c.30C>T	c.(28-30)TCC>TCT	p.S10S	KIAA0427_uc002ldd.2_Silent_p.S10S	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	10	Interaction with NCBP1/CBP80.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						CATCAGCCTCCTCGGAGGCAG	0.637													5	4	---	---	---	---	PASS	T	46145966	T	T	46145966	2	4	25	1	0	0	0	0	0	0	0	1	8176	668	24	3		3	KIAA0427	18	46145966	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	2883493	46145966	31931282	342	11177										
DOT1L	84444	broad.mit.edu	37	chr19	2216567	2216567	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcgaagcagaacacgccccaGtacctggcctcacccctgga	9	17	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:2216567G>T	uc002lvb.3	+	20	2247	c.2211G>T	c.(2209-2211)CAG>CAT	p.Q737H	DOT1L_uc002lvc.1_Missense_Mutation_p.Q31H|uc002lvd.1_5'Flank|DOT1L_uc002lve.1_Missense_Mutation_p.Q31H	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	737						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACACGCCCCAGTACCTGGCCT	0.672													15	46	---	---	---	---	PASS	T	2216567	T	T	2216567	3	4	25	1	0	0	0	0	1	0	0	0	4709	1020	36	3	2289	3	DOT1L	19	2216567	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08		2216567	56912416	343	11178										
ZNF556	80032	broad.mit.edu	37	chr19	2878324	2878324	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aagaaatcctgtacatctaaGtaatgggggaaaacctgtgc	10	7	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:2878324G>T	uc002lwp.1	+	4	1455	c.1368G>T	c.(1366-1368)AAG>AAT	p.K456N	ZNF556_uc002lwq.2_Missense_Mutation_p.K455N	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	456					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTACATCTAAGTAATGGGGGA	0.333													4	41	---	---	---	---	PASS	T	2878324	T	T	2878324	3	4	25	1	0	0	0	0	1	0	0	0	17984	1020	36	3	1382	3	ZNF556	19	2878324	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	661757	2878324	56250659	344	11179										
STAP2	55620	broad.mit.edu	37	chr19	4333705	4333705	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acctaccttgaacttgatctCctgatcccggagaatcaggc	8	13	2	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:4333705C>A	uc002mab.2	-	3	380	c.283G>T	c.(283-285)GAG>TAG	p.E95*	STAP2_uc002mac.2_Nonsense_Mutation_p.E95*|STAP2_uc002mad.2_5'UTR	NM_001013841	NP_001013863	Q9UGK3	STAP2_HUMAN	signal transducing adaptor family member 2	95	PH.					cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		AACTTGATCTCCTGATCCCGG	0.537													10	26	---	---	---	---	PASS	A	4333705	A	A	4333705	4	1	25	1	0	0	0	0	0	1	0	0	15252	864	30	2	1110	2	STAP2	19	4333705	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1455381	4333705	54795278	345	11180										
C3	718	broad.mit.edu	37	chr19	6678018	6678018	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctccacccaagtgtccttccCgatgatgtagctgaggctgg	11	13	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:6678018C>G	uc002mfm.2	-	41	4929	c.4867G>C	c.(4867-4869)GGG>CGG	p.G1623R	C3_uc002mfl.2_Missense_Mutation_p.G359R	NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	1623	NTR.				complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		GTGTCCTTCCCGATGATGTAG	0.622													14	53	---	---	---	---	PASS	G	6678018	G	G	6678018	3	3	25	1	0	0	0	0	1	0	0	0	2204	652	23	4	128	4	C3	19	6678018	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2344313	6678018	52450965	346	11181										
INSR	3643	broad.mit.edu	37	chr19	7117363	7117363	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cttgagcaggttgacaatctCcaggaaggttggcctcatct	11	10	3	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:7117363C>T	uc002mgd.1	-	22	3962	c.3853G>A	c.(3853-3855)GAG>AAG	p.E1285K	INSR_uc002mge.1_Missense_Mutation_p.E1273K	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	1285	Protein kinase.|Cytoplasmic (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TTGACAATCTCCAGGAAGGTT	0.597													16	55	---	---	---	---	PASS	T	7117363	T	T	7117363	3	4	25	1	0	0	0	0	1	0	0	0	7773	864	30	2	299	2	INSR	19	7117363	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	439345	7117363	52011620	347	11182										
EVI5L	115704	broad.mit.edu	37	chr19	7913882	7913882	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgtgcagcgccacggacatgCccgtcaagaaccagtactcc	10	15	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:7913882C>T	uc002min.2	+	4	557	c.403C>T	c.(403-405)CCC>TCC	p.P135S	EVI5L_uc010xjz.1_Missense_Mutation_p.P135S|EVI5L_uc002mio.1_5'Flank	NM_145245	NP_660288	Q96CN4	EVI5L_HUMAN	ecotropic viral integration site 5-like isoform	135	Rab-GAP TBC.					intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						CACGGACATGCCCGTCAAGAA	0.642													3	25	---	---	---	---	PASS	T	7913882	T	T	7913882	3	4	25	1	0	0	0	0	1	0	0	0	5290	739	26	3	413	3	EVI5L	19	7913882	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	796519	7913882	51215101	348	11183										
ICAM1	3383	broad.mit.edu	37	chr19	10394882	10394882	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cctatggcaacgactccttcTcggccaaggcctcagtcagt	9	15	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:10394882T>C	uc002mnq.2	+	4	1130	c.811T>C	c.(811-813)TCG>CCG	p.S271P	ICAM1_uc010xle.1_Missense_Mutation_p.S49P|ICAM4_uc002mnr.1_5'Flank|ICAM4_uc002mns.1_5'Flank|ICAM4_uc002mnt.1_5'Flank	NM_000201	NP_000192	P05362	ICAM1_HUMAN	intercellular adhesion molecule 1 precursor	271	Ig-like C2-type 3.|Extracellular (Potential).				adhesion to symbiont|heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking|positive regulation of cellular extravasation|regulation of immune response|regulation of leukocyte mediated cytotoxicity|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell|virion attachment, binding of host cell surface receptor	extracellular space|integral to plasma membrane	integrin binding|transmembrane receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;2.81e-06)|all cancers(31;6.56e-06)		Natalizumab(DB00108)|Simvastatin(DB00641)	CGACTCCTTCTCGGCCAAGGC	0.627													9	31	---	---	---	---	PASS	C	10394882	C	C	10394882	3	2	25	1	0	0	0	0	1	0	0	0	7479	1551	54	5	825	5	ICAM1	19	10394882	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	2481000	10394882	48734101	349	11184										
KANK2	25959	broad.mit.edu	37	chr19	11304442	11304442	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	catactgagggtagaagccaCggccgcagtaggaataggct	14	9	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:11304442C>T	uc010dxv.2	-	6	872	c.314G>A	c.(313-315)CGT>CAT	p.R105H	KANK2_uc002mqm.2_Missense_Mutation_p.R105H|KANK2_uc002mqo.3_Missense_Mutation_p.R105H|KANK2_uc002mqp.1_Translation_Start_Site|KANK2_uc002mqq.2_Missense_Mutation_p.R105H	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	105											0						GTAGAAGCCACGGCCGCAGTA	0.667													13	44	---	---	---	---	PASS	T	11304442	T	T	11304442	3	4	25	1	0	0	0	0	1	0	0	0	7977	536	19	1	2305	1	KANK2	19	11304442	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	909560	11304442	47824541	350	11185										
TNPO2	30000	broad.mit.edu	37	chr19	12814277	12814277	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tttcaccaatggcccaggtgGcgttgttgcagacggagatg	14	9	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:12814277G>A	uc002muo.2	-	19	2359	c.2174C>T	c.(2173-2175)GCC>GTC	p.A725V	TNPO2_uc002mup.2_Missense_Mutation_p.A817V|TNPO2_uc002muq.2_Missense_Mutation_p.A725V|TNPO2_uc002mur.2_Missense_Mutation_p.A725V	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	725	HEAT 12.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						GGCCCAGGTGGCGTTGTTGCA	0.607													18	68	---	---	---	---	PASS	A	12814277	A	A	12814277	3	1	25	1	0	0	0	0	1	0	0	0	16333	1203	42	3	543	3	TNPO2	19	12814277	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1509835	12814277	46314706	351	11186										
AKAP8	10270	broad.mit.edu	37	chr19	15479110	15479110	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttcccttctcttcttcacatCctcgtcctcgtcctccttct	2	19	4	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:15479110C>A	uc002nav.2	-	9	1157	c.1096G>T	c.(1096-1098)GAT>TAT	p.D366Y	AKAP8_uc010dzy.2_5'UTR|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Missense_Mutation_p.D180Y	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	366					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						ttcttcacatcctcgtcctcg	0.458													12	72	---	---	---	---	PASS	A	15479110	A	A	15479110	3	1	25	1	0	0	0	0	1	0	0	0	457	855	30	2	1006	2	AKAP8	19	15479110	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2664833	15479110	43649873	352	11187										
ZNF208	7757	broad.mit.edu	37	chr19	22155187	22155187	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttgtagggtttctctccagtAtgaattttcttatgataact	7	6	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:22155187A>C	uc002nqp.2	-	5	2498	c.2349T>G	c.(2347-2349)CAT>CAG	p.H783Q	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TCTCTCCAGTATGAATTTTCT	0.373													18	46	---	---	---	---	PASS	C	22155187	C	C	22155187	3	2	25	1	0	0	0	0	1	0	0	0	17763	446	16	5	1197	5	ZNF208	19	22155187	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	6676077	22155187	36973796	353	11188										
TSHZ3	57616	broad.mit.edu	37	chr19	31767946	31767946	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acatgatgtacttcccttctGaggtctgccggaggctggcg	13	11	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:31767946G>A	uc002nsy.3	-	2	2818	c.2753C>T	c.(2752-2754)TCA>TTA	p.S918L		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	918	Homeobox; atypical.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CTTCCCTTCTGAGGTCTGCCG	0.632													4	18	---	---	---	---	PASS	A	31767946	A	A	31767946	3	1	25	1	0	0	0	0	1	0	0	0	16622	1294	45	2	496	2	TSHZ3	19	31767946	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	9612759	31767946	27361037	354	11189										
LRP3	4037	broad.mit.edu	37	chr19	33698454	33698454	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tccccaatgctggaggccagCgatgatgaggccctgttggt	14	11	0	2	rs150965907		TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:33698454C>T	uc010edh.2	+	7	2379	c.2286C>T	c.(2284-2286)AGC>AGT	p.S762S	LRP3_uc002nuk.3_Silent_p.S636S	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	762	Cytoplasmic (Potential).				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					TGGAGGCCAGCGATGATGAGG	0.652													5	10	---	---	---	---	PASS	T	33698454	T	T	33698454	2	4	25	1	0	0	0	0	0	0	0	1	8958	767	27	1		1	LRP3	19	33698454	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	1930508	33698454	25430529	355	11190										
ZNF181	339318	broad.mit.edu	37	chr19	35231910	35231910	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aaagtcaatggtggaaagaaActtttgaattctaataaaag	8	3	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:35231910A>G	uc002nvu.3	+	4	1087	c.624A>G	c.(622-624)AAA>AAG	p.K208K	ZNF181_uc010xsa.1_Silent_p.K207K|ZNF181_uc010xsb.1_Silent_p.K207K|ZNF181_uc010xsc.1_Silent_p.K143K	NM_001029997	NP_001025168	Q2M3W8	ZN181_HUMAN	zinc finger protein 181 isoform 1	208					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			GTGGAAAGAAACTTTTGAATT	0.343													11	90	---	---	---	---	PASS	G	35231910	G	G	35231910	2	3	25	1	0	0	0	0	0	0	0	1	17746	40	2	5		5	ZNF181	19	35231910	Silent	SNP	A	TCGA-21-5782-01A-01D-1632-08	1533456	35231910	23897073	356	11191										
NPHS1	4868	broad.mit.edu	37	chr19	36330159	36330159	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctggggtagtgatgggaagcTgggtccctttgtcagccagt	16	8	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:36330159T>A	uc002oby.2	-	22	3089	c.3089A>T	c.(3088-3090)CAG>CTG	p.Q1030L	NPHS1_uc010eem.1_RNA	NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	1030	Fibronectin type-III.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GATGGGAAGCTGGGTCCCTTT	0.473													22	52	---	---	---	---	PASS	A	36330159	A	A	36330159	3	1	25	1	0	0	0	0	1	0	0	0	10582	1580	55	5	668	5	NPHS1	19	36330159	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	1098249	36330159	22798824	357	11192										
GGN	199720	broad.mit.edu	37	chr19	38876086	38876086	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agagacgttgcgtggcaggcGgcgatggcgtggctggtggt	21	7	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:38876086G>T	uc002oij.1	-	3	1951	c.1816C>A	c.(1816-1818)CGC>AGC	p.R606S	GGN_uc002oik.1_RNA|GGN_uc010efy.1_3'UTR	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	606	Interactions with ZNF403/GGNBP2 and OAZ3 (By similarity).				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CGTGGCAGGCGGCGATGGCGT	0.637													4	23	---	---	---	---	PASS	T	38876086	T	T	38876086	3	4	25	1	0	0	0	0	1	0	0	0	6358	1116	39	1	150	1	GGN	19	38876086	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2545927	38876086	20252897	358	11193										
SAMD4B	55095	broad.mit.edu	37	chr19	39866417	39866417	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgggctgcttttaccacgccCgatcacgcacctctctcgcc	8	19	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:39866417C>G	uc002olb.2	+	7	1830	c.795C>G	c.(793-795)CCC>CCG	p.P265P	SAMD4B_uc002ola.2_Silent_p.P265P	NM_018028	NP_060498	Q5PRF9	SMAG2_HUMAN	sterile alpha motif domain containing 4B	265							protein binding				0	all_cancers(60;2.5e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			TTACCACGCCCGATCACGCAC	0.647													16	115	---	---	---	---	PASS	G	39866417	G	G	39866417	2	3	25	1	0	0	0	0	0	0	0	1	13822	639	23	4		4	SAMD4B	19	39866417	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	990331	39866417	19262566	359	11194										
CEACAM8	1088	broad.mit.edu	37	chr19	43092999	43092999	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggctgagttagtggtgtggcAggcataggatccgctgttct	16	7	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:43092999A>T	uc002oud.2	-	4	997	c.895T>A	c.(895-897)TGC>AGC	p.C299S	uc010eif.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron	NM_001816	NP_001807	P31997	CEAM8_HUMAN	carcinoembryonic antigen-related cell adhesion	299	Ig-like C2-type 2.				immune response	anchored to membrane|extracellular space|integral to plasma membrane				ovary(1)	1		Prostate(69;0.00899)				GTGGTGTGGCAGGCATAGGAT	0.493													16	65	---	---	---	---	PASS	T	43092999	T	T	43092999	3	4	25	1	0	0	0	0	1	0	0	0	3198	188	7	5	162	5	CEACAM8	19	43092999	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	3226582	43092999	16035984	360	11195										
PHLDB3	653583	broad.mit.edu	37	chr19	43998909	43998909	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aagtaggggtggcagcggagTgggccacggcatcctggagc	19	9	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:43998909T>C	uc002own.3	-	9	1353	c.1094A>G	c.(1093-1095)CAC>CGC	p.H365R	PHLDB3_uc010eit.2_Missense_Mutation_p.H69R	NM_198850	NP_942147	Q6NSJ2	PHLB3_HUMAN	pleckstrin homology-like domain, family B,	365											0		Prostate(69;0.0153)				GGCAGCGGAGTGGGCCACGGC	0.592													4	10	---	---	---	---	PASS	C	43998909	C	C	43998909	3	2	25	1	0	0	0	0	1	0	0	0	11853	1696	59	5	860	5	PHLDB3	19	43998909	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	905910	43998909	15130074	361	11196										
SYMPK	8189	broad.mit.edu	37	chr19	46318944	46318944	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tccttcaaggtcagcccgccCgctgccgtctcctggtgacc	10	18	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:46318944C>T	uc002pdn.2	-	27	3944	c.3699G>A	c.(3697-3699)GCG>GCA	p.A1233A	RSPH6A_uc002pdm.2_5'Flank	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	1233					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		TCAGCCCGCCCGCTGCCGTCT	0.701													3	13	---	---	---	---	PASS	T	46318944	T	T	46318944	2	4	25	1	0	0	0	0	0	0	0	1	15436	639	23	1		1	SYMPK	19	46318944	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	2320035	46318944	12810039	362	11197										
SYMPK	8189	broad.mit.edu	37	chr19	46331129	46331129	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acttgcggaccacctccaggGcactctctgtgatgagtggc	12	13	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:46331129G>A	uc002pdn.2	-	15	2278	c.2033C>T	c.(2032-2034)GCC>GTC	p.A678V	SYMPK_uc002pdo.1_Missense_Mutation_p.A678V|SYMPK_uc002pdp.1_Missense_Mutation_p.A678V	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	678					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		CACCTCCAGGGCACTCTCTGT	0.652													29	101	---	---	---	---	PASS	A	46331129	A	A	46331129	3	1	25	1	0	0	0	0	1	0	0	0	15436	1203	42	3	1843	3	SYMPK	19	46331129	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	12185	46331129	12797854	363	11198										
IGFL3	388555	broad.mit.edu	37	chr19	46627157	46627157	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctttacctggtacagctccgGgagatgggagataagtgaca	13	8	0	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:46627157G>A	uc002pea.1	-	3	361	c.336C>T	c.(334-336)TCC>TCT	p.S112S		NM_207393	NP_997276	Q6UXB1	IGFL3_HUMAN	IGF-like family member 3 precursor	112						extracellular region	protein binding				0		Ovarian(192;0.0175)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00473)|GBM - Glioblastoma multiforme(486;0.0149)|Epithelial(262;0.239)		TACAGCTCCGGGAGATGGGAG	0.493													51	165	---	---	---	---	PASS	A	46627157	A	A	46627157	2	1	25	1	0	0	0	0	0	0	0	1	7588	1219	43	3		3	IGFL3	19	46627157	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	296028	46627157	12501826	364	11199										
SLC8A2	6543	broad.mit.edu	37	chr19	47969318	47969318	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aacggtgcccacgctggtctCaccgttggccttggtgatgg	14	12	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:47969318C>T	uc002pgx.2	-	2	621	c.343G>A	c.(343-345)GAG>AAG	p.E115K	SLC8A2_uc010xyq.1_Intron|SLC8A2_uc010xyr.1_Intron|SLC8A2_uc010ele.2_Missense_Mutation_p.E115K	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	115	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		ACGCTGGTCTCACCGTTGGCC	0.577													13	48	---	---	---	---	PASS	T	47969318	T	T	47969318	3	4	25	1	0	0	0	0	1	0	0	0	14707	835	29	2	2458	2	SLC8A2	19	47969318	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1342161	47969318	11159665	365	11200										
PNKP	11284	broad.mit.edu	37	chr19	50365447	50365447	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gaacaggacacttacccccaGggaatcccactgcgacaacc	8	16	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:50365447G>A	uc002pqh.2	-	11	1173	c.1121C>T	c.(1120-1122)CCT>CTT	p.P374L	PNKP_uc002pqg.2_Missense_Mutation_p.P155L|PNKP_uc002pqi.2_Missense_Mutation_p.P335L|PNKP_uc002pqj.2_Missense_Mutation_p.P374L|PNKP_uc010enm.2_Missense_Mutation_p.P343L|PNKP_uc002pqk.2_Missense_Mutation_p.P374L	NM_007254	NP_009185	Q96T60	PNKP_HUMAN	polynucleotide kinase 3' phosphatase	374	ATP (Potential).				DNA damage response, detection of DNA damage|DNA-dependent DNA replication|nucleotide-excision repair, DNA damage removal|response to oxidative stress|response to radiation	nucleolus	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|damaged DNA binding|double-stranded DNA binding|endonuclease activity|nucleotide kinase activity|polynucleotide 3'-phosphatase activity|protein binding			ovary(1)|kidney(1)	2		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0118)|OV - Ovarian serous cystadenocarcinoma(262;0.0134)		CTTACCCCCAGGGAATCCCAC	0.692								Other_BER_factors					4	8	---	---	---	---	PASS	A	50365447	A	A	50365447	3	1	25	1	0	0	0	0	1	0	0	0	12147	1000	35	3	468	3	PNKP	19	50365447	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2396129	50365447	8763536	366	11201										
LILRA2	11027	broad.mit.edu	37	chr19	55086198	55086198	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agtgcctccttctctcctagGagcctacagcaaacccaccc	6	18	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:55086198G>C	uc002qgg.3	+	4	442	c.353G>C	c.(352-354)GGA>GCA	p.G118A	LILRA2_uc010ern.2_Missense_Mutation_p.G118A|LILRA2_uc002qgf.2_Missense_Mutation_p.G118A|LILRA2_uc010yfe.1_Missense_Mutation_p.G118A|LILRA2_uc010yff.1_Missense_Mutation_p.G106A|LILRA2_uc010ero.2_Missense_Mutation_p.G106A|LILRA2_uc010yfg.1_Missense_Mutation_p.G118A	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	118	Extracellular (Potential).|Ig-like C2-type 2.				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		TCTCTCCTAGGAGCCTACAGC	0.607													11	71	---	---	---	---	PASS	C	55086198	C	C	55086198	3	2	25	1	0	0	0	0	1	0	0	0	8785	1188	41	2	367	2	LILRA2	19	55086198	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	4720751	55086198	4042785	367	11202										
NLRP2	55655	broad.mit.edu	37	chr19	55494355	55494355	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cacccgcacggggctgttccTgcgtttcctctgcagccggt	12	16	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:55494355T>G	uc002qij.2	+	6	1375	c.1289T>G	c.(1288-1290)CTG>CGG	p.L430R	NLRP2_uc010yfp.1_Missense_Mutation_p.L407R|NLRP2_uc010esn.2_Missense_Mutation_p.L406R|NLRP2_uc010eso.2_Missense_Mutation_p.L427R|NLRP2_uc010esp.2_Missense_Mutation_p.L408R	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	430	NACHT.				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		GGGCTGTTCCTGCGTTTCCTC	0.721													4	8	---	---	---	---	PASS	G	55494355	G	G	55494355	3	3	25	1	0	0	0	0	1	0	0	0	10477	1580	55	5	1307	5	NLRP2	19	55494355	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	408157	55494355	3634628	368	11203										
ZNF470	388566	broad.mit.edu	37	chr19	57089577	57089577	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acagtggcaaaagaccgtatGaatgtcttgaatgtgggaag	13	5	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:57089577G>T	uc002qnl.3	+	6	2456	c.1780G>T	c.(1780-1782)GAA>TAA	p.E594*	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	594	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		AAGACCGTATGAATGTCTTGA	0.433													16	64	---	---	---	---	PASS	T	57089577	T	T	57089577	4	4	25	1	0	0	0	0	0	1	0	0	17926	1291	45	2	1794	2	ZNF470	19	57089577	Nonsense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1595222	57089577	2039406	369	11204										
ZNF548	147694	broad.mit.edu	37	chr19	57909797	57909797	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccagcatttctgttctgacaGgttcttggcatggagctgag	12	9	3	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:57909797G>T	uc002qom.2	+	3	393	c.143_splice	c.e3-1	p.G48_splice	ZNF547_uc002qpm.3_Intron|ZNF548_uc002qon.2_Splice_Site_p.G51_splice	NM_152909	NP_690873	Q8NEK5	ZN548_HUMAN	zinc finger protein 548						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGTTCTGACAGGTTCTTGGCA	0.507													14	51	---	---	---	---	PASS	T	57909797	T	T	57909797	5	4	25	1	0	0	0	0	0	0	1	0	17977	1014	35	3	192	3	ZNF548	19	57909797	Splice_Site	SNP	G	TCGA-21-5782-01A-01D-1632-08	820220	57909797	1219186	370	11205										
ZNF416	55659	broad.mit.edu	37	chr19	58084835	58084835	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgtcactttccaagggtttcTctgcactatgatgcttctgg	9	10	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr19:58084835T>G	uc002qpf.2	-	4	608	c.437A>C	c.(436-438)GAG>GCG	p.E146A	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	146					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		CAAGGGTTTCTCTGCACTATG	0.522													12	27	---	---	---	---	PASS	G	58084835	G	G	58084835	3	3	25	1	0	0	0	0	1	0	0	0	17890	1551	54	5	1351	5	ZNF416	19	58084835	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	175038	58084835	1044148	371	11206										
SIRPD	128646	broad.mit.edu	37	chr20	1532540	1532540	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtttgaaattgtagattaatTtccggtttggccctgttccc	9	8	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr20:1532540T>A	uc002wfi.2	-	2	262	c.218A>T	c.(217-219)AAA>ATA	p.K73I		NM_178460	NP_848555	Q9H106	SIRPD_HUMAN	signal-regulatory protein delta precursor	73	Ig-like V-type.					extracellular region				ovary(1)|kidney(1)|skin(1)	3						GTAGATTAATTTCCGGTTTGG	0.458													9	45	---	---	---	---	PASS	A	1532540	A	A	1532540	3	1	25	1	0	0	0	0	1	0	0	0	14335	1841	64	5	387	5	SIRPD	20	1532540	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08		1532540	61492980	372	11207										
SIRPG	55423	broad.mit.edu	37	chr20	1629992	1629992	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtgcagagtggctgtctttcCaactgtgaccaacaggagct	12	10	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr20:1629992C>T	uc002wfm.1	-	2	201	c.136G>A	c.(136-138)GGA>AGA	p.G46R	SIRPG_uc002wfn.1_Missense_Mutation_p.G46R|SIRPG_uc002wfo.1_Missense_Mutation_p.G46R	NM_018556	NP_061026	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma isoform 1	46	Extracellular (Potential).|Ig-like V-type.				blood coagulation|cell adhesion|cell junction assembly|cell-cell signaling|intracellular signal transduction|leukocyte migration|negative regulation of cell proliferation|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to membrane|intracellular|plasma membrane	protein binding			ovary(1)	1						GCTGTCTTTCCAACTGTGACC	0.512													9	43	---	---	---	---	PASS	T	1629992	T	T	1629992	3	4	25	1	0	0	0	0	1	0	0	0	14336	603	21	3	1043	3	SIRPG	20	1629992	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	97452	1629992	61395528	373	11208										
SIGLEC1	6614	broad.mit.edu	37	chr20	3675336	3675336	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cgtggaggctgatgggtgcaGctaggctcgtggtggctgag	20	7	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr20:3675336G>A	uc002wja.2	-	11	2918	c.2918C>T	c.(2917-2919)GCT>GTT	p.A973V	SIGLEC1_uc002wjb.1_5'Flank|SIGLEC1_uc002wiz.3_Missense_Mutation_p.A973V	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	973	Ig-like C2-type 9.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						GATGGGTGCAGCTAGGCTCGT	0.602													10	30	---	---	---	---	PASS	A	3675336	A	A	3675336	3	1	25	1	0	0	0	0	1	0	0	0	14305	971	34	3	2255	3	SIGLEC1	20	3675336	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2045344	3675336	59350184	374	11209										
RALGAPA2	57186	broad.mit.edu	37	chr20	20392785	20392785	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttcgagatacagagctcgctCttcatagctgcggtaatcgg	11	10	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr20:20392785C>T	uc002wrz.2	-	38	5646	c.5503G>A	c.(5503-5505)GAG>AAG	p.E1835K	RALGAPA2_uc010gcx.2_Missense_Mutation_p.E1539K|RALGAPA2_uc010zsg.1_Missense_Mutation_p.E1283K	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1835	Rap-GAP.				activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						AGAGCTCGCTCTTCATAGCTG	0.458													32	100	---	---	---	---	PASS	T	20392785	T	T	20392785	3	4	25	1	0	0	0	0	1	0	0	0	13014	922	32	2	126	2	RALGAPA2	20	20392785	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	16717449	20392785	42632735	375	11210										
KIAA0406	9675	broad.mit.edu	37	chr20	36625155	36625155	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	actgcctggtacccacctagGtccagtctctcacagagggg	11	14	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr20:36625155G>A	uc002xhl.2	-	7	3203	c.2994C>T	c.(2992-2994)GAC>GAT	p.D998D	KIAA0406_uc002xhm.2_Silent_p.D998D	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	998							binding				0		Myeloproliferative disorder(115;0.00874)				ACCCACCTAGGTCCAGTCTCT	0.612													24	90	---	---	---	---	PASS	A	36625155	A	A	36625155	2	1	25	1	0	0	0	0	0	0	0	1	8173	1252	44	3		3	KIAA0406	20	36625155	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	16232370	36625155	26400365	376	11211										
PREX1	57580	broad.mit.edu	37	chr20	47249125	47249125	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tggtagctgtcgaggtagaaGatgaccttcagcgcctgccg	14	10	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr20:47249125G>A	uc002xtw.1	-	34	4343	c.4320C>T	c.(4318-4320)ATC>ATT	p.I1440I	PREX1_uc002xtv.1_Silent_p.I737I	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1440					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			CGAGGTAGAAGATGACCTTCA	0.612													13	27	---	---	---	---	PASS	A	47249125	A	A	47249125	2	1	25	1	0	0	0	0	0	0	0	1	12476	932	33	2		2	PREX1	20	47249125	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	10623970	47249125	15776395	377	11212										
BCAS1	8537	broad.mit.edu	37	chr20	52570017	52570017	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	actgctgccgcttctcaggtCtcttttggagcttgtcccca	9	14	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr20:52570017C>A	uc002xws.2	-	11	1972	c.1634G>T	c.(1633-1635)AGA>ATA	p.R545I	BCAS1_uc010zza.1_Missense_Mutation_p.R211I|BCAS1_uc010zzb.1_Missense_Mutation_p.R471I|BCAS1_uc010gim.2_Missense_Mutation_p.R401I|BCAS1_uc002xwt.2_Missense_Mutation_p.R531I|BCAS1_uc010gil.1_Missense_Mutation_p.R467I	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	545						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			CTTCTCAGGTCTCTTTTGGAG	0.542													19	57	---	---	---	---	PASS	A	52570017	A	A	52570017	3	1	25	1	0	0	0	0	1	0	0	0	1350	913	32	2	128	2	BCAS1	20	52570017	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	5320892	52570017	10455503	378	11213										
CBLN4	140689	broad.mit.edu	37	chr20	54573783	54573783	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccccgcaaaggcagatattaCtggttttccatttaacatca	6	11	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr20:54573783C>T	uc002xxa.2	-	3	1221	c.436G>A	c.(436-438)GTA>ATA	p.V146I		NM_080617	NP_542184	Q9NTU7	CBLN4_HUMAN	cerebellin 4 precursor	146	C1q.					cell junction|extracellular region|synapse				ovary(3)|pancreas(1)	4			Colorectal(105;0.202)			GCAGATATTACTGGTTTTCCA	0.353													7	42	---	---	---	---	PASS	T	54573783	T	T	54573783	3	4	25	1	0	0	0	0	1	0	0	0	2707	565	20	3	173	3	CBLN4	20	54573783	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2003766	54573783	8451737	379	11214										
OSBPL2	9885	broad.mit.edu	37	chr20	60856156	60856156	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	accaaccccacctgctgcgtCcacaacgtcatcatcgggaa	7	17	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr20:60856156C>A	uc002yck.1	+	8	919	c.717C>A	c.(715-717)GTC>GTA	p.V239V	OSBPL2_uc002ycl.1_Silent_p.V227V|OSBPL2_uc011aah.1_Silent_p.V147V|OSBPL2_uc002ycm.1_Silent_p.V51V	NM_144498	NP_653081	Q9H1P3	OSBL2_HUMAN	oxysterol-binding protein-like protein 2 isoform	239					lipid transport		lipid binding			ovary(1)|central_nervous_system(1)	2	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;1.33e-06)			CCTGCTGCGTCCACAACGTCA	0.532													26	84	---	---	---	---	PASS	A	60856156	A	A	60856156	2	1	25	1	0	0	0	0	0	0	0	1	11278	842	30	2		2	OSBPL2	20	60856156	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	6282373	60856156	2169364	380	11215										
OPRL1	4987	broad.mit.edu	37	chr20	62724187	62724187	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgcccccgcatctgctgctCaatgccagccacggcgcctt	9	19	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr20:62724187C>G	uc002yic.2	+	3	516	c.114C>G	c.(112-114)CTC>CTG	p.L38L	OPRL1_uc002yid.2_Silent_p.L38L|OPRL1_uc002yif.3_Silent_p.L38L	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	38	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					ATCTGCTGCTCAATGCCAGCC	0.662													10	43	---	---	---	---	PASS	G	62724187	G	G	62724187	2	3	25	1	0	0	0	0	0	0	0	1	10886	813	29	2		2	OPRL1	20	62724187	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	1868031	62724187	301333	381	11216										
KRTAP24-1	643803	broad.mit.edu	37	chr21	31654736	31654736	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggtagcttttataccccaaaGtactcaatctgcagtggttt	8	9	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr21:31654736G>C	uc002ynv.2	-	1	541	c.515C>G	c.(514-516)ACT>AGT	p.T172S		NM_001085455	NP_001078924	Q3LI83	KR241_HUMAN	keratin associated protein 24-1	172						keratin filament	structural molecule activity				0						ATACCCCAAAGTACTCAATCT	0.438													19	86	---	---	---	---	PASS	C	31654736	C	C	31654736	3	2	25	1	0	0	0	0	1	0	0	0	8542	1029	36	4	253	4	KRTAP24-1	21	31654736	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08		31654736	16475159	382	11217										
BRWD1	54014	broad.mit.edu	37	chr21	40670440	40670440	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgggtggaatttctttatcCaacataggaccgatgcgctg	11	9	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr21:40670440C>A	uc002yxk.1	-	5	406	c.267G>T	c.(265-267)TTG>TTT	p.L89F	BRWD1_uc002yxl.2_Missense_Mutation_p.L89F|BRWD1_uc002yxm.2_Missense_Mutation_p.L89F	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	89					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				TTTCTTTATCCAACATAGGAC	0.363													23	104	---	---	---	---	PASS	A	40670440	A	A	40670440	3	1	25	1	0	0	0	0	1	0	0	0	1525	593	21	3	7100	3	BRWD1	21	40670440	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	9015704	40670440	7459455	383	11218										
TRPM2	7226	broad.mit.edu	37	chr21	45825915	45825915	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccaagatcatcattgtgaagCggatggtaagggggcggggg	18	6	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr21:45825915C>T	uc002zet.1	+	19	2998	c.2785C>T	c.(2785-2787)CGG>TGG	p.R929W	TRPM2_uc002zeu.1_Missense_Mutation_p.R929W|TRPM2_uc002zew.1_Missense_Mutation_p.R929W|TRPM2_uc010gpt.1_Missense_Mutation_p.R929W|TRPM2_uc002zex.1_Missense_Mutation_p.R715W|TRPM2_uc002zey.1_Missense_Mutation_p.R442W	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	929	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CATTGTGAAGCGGATGGTAAG	0.637													26	121	---	---	---	---	PASS	T	45825915	T	T	45825915	3	4	25	1	0	0	0	0	1	0	0	0	16583	759	27	1	2855	1	TRPM2	21	45825915	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	5155475	45825915	2303980	384	11219										
COL6A2	1292	broad.mit.edu	37	chr21	47531447	47531447	+	Missense_Mutation	SNP	G	C	C													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggaatcctgggggccatccaGgcccagcagcaggaggtcat							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr21:47531447G>C	uc002zia.1	+	2	139	c.57G>C	c.(55-57)CAG>CAC	p.Q19H	COL6A2_uc002zhy.1_Missense_Mutation_p.Q19H|COL6A2_uc002zhz.1_Missense_Mutation_p.Q19H|COL6A2_uc002zib.1_Intron	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	19					axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GGGCCATCCAGGCCCAGCAGC	0.672													6	29	---	---	---	---	PASS	C	47531447	C	C	47531447	3	2	25	1	0	0	0	0	1	0	0	0	3700	991	35	4	59	4	COL6A2	21	47531447	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1705532	47531447	598448	385	11220	307	2								
COL6A2	1292	broad.mit.edu	37	chr21	47531448	47531448	+	Missense_Mutation	SNP	G	T	T													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gaatcctgggggccatccagGcccagcagcaggaggtcatc							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr21:47531448G>T	uc002zia.1	+	2	140	c.58G>T	c.(58-60)GCC>TCC	p.A20S	COL6A2_uc002zhy.1_Missense_Mutation_p.A20S|COL6A2_uc002zhz.1_Missense_Mutation_p.A20S|COL6A2_uc002zib.1_Intron	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	20					axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GGCCATCCAGGCCCAGCAGCA	0.672													7	29	---	---	---	---	PASS	T	47531448	T	T	47531448	3	4	25	1	0	0	0	0	1	0	0	0	3700	1203	42	3	60	3	COL6A2	21	47531448	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1	47531448	598447	386	11221	307	2								
CCT8L2	150160	broad.mit.edu	37	chr22	17072241	17072241	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgggatcttgacatagctgGaaataggcatcaatgccgtg	12	8	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr22:17072241G>C	uc002zlp.1	-	1	1460	c.1200C>G	c.(1198-1200)TTC>TTG	p.F400L		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	400					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				GACATAGCTGGAAATAGGCAT	0.557													8	54	---	---	---	---	PASS	C	17072241	C	C	17072241	3	2	25	1	0	0	0	0	1	0	0	0	2961	1165	41	2	477	2	CCT8L2	22	17072241	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08		17072241	34232325	387	11222										
TOP3B	8940	broad.mit.edu	37	chr22	22322090	22322090	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgtctttgtcagtgttaaccTgcaggaaaaaggataaaggg	12	5	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr22:22322090T>C	uc002zvs.2	-	8	1174	c.739_splice	c.e8-1	p.V247_splice	TOP3B_uc010gtm.1_Splice_Site|TOP3B_uc002zvr.2_Splice_Site|TOP3B_uc010gtl.2_Splice_Site_p.V247_splice|TOP3B_uc002zvt.3_Splice_Site_p.V247_splice	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta						DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		AGTGTTAACCTGCAGGAAAAA	0.483													9	35	---	---	---	---	PASS	C	22322090	C	C	22322090	5	2	25	1	0	0	0	0	0	0	1	0	16365	1594	55	5	1895	5	TOP3B	22	22322090	Splice_Site	SNP	T	TCGA-21-5782-01A-01D-1632-08	5249849	22322090	28982476	388	11223										
ADORA2A	135	broad.mit.edu	37	chr22	24836814	24836814	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	catgctgggtgtctatttgcGgatcttcctggcggcgcgac	14	11	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr22:24836814G>T	uc002zzx.2	+	5	1359	c.596G>T	c.(595-597)CGG>CTG	p.R199L	ADORA2A_uc002zzy.3_Missense_Mutation_p.R199L|ADORA2A_uc011ajs.1_Missense_Mutation_p.R60L|ADORA2A_uc010gup.2_Missense_Mutation_p.R199L|ADORA2A_uc010guq.2_Missense_Mutation_p.R199L|ADORA2A_uc003aab.2_Missense_Mutation_p.R199L|ADORA2A_uc003aac.2_Missense_Mutation_p.R60L|C22orf45_uc003aad.1_Intron	NM_000675	NP_000666	P29274	AA2AR_HUMAN	adenosine A2a receptor	199	Cytoplasmic.				apoptosis|blood coagulation|cAMP biosynthetic process|cellular defense response|inflammatory response|nerve growth factor receptor signaling pathway|phagocytosis|sensory perception	integral to plasma membrane|membrane fraction	enzyme binding				0	Colorectal(2;0.196)				Caffeine(DB00201)|Defibrotide(DB04932)|Pegademase bovine(DB00061)|Theophylline(DB00277)	GTCTATTTGCGGATCTTCCTG	0.592													44	137	---	---	---	---	PASS	T	24836814	T	T	24836814	3	4	25	1	0	0	0	0	1	0	0	0	327	1116	39	1	602	1	ADORA2A	22	24836814	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2514724	24836814	26467752	389	11224										
HORMAD2	150280	broad.mit.edu	37	chr22	30572094	30572094	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gcagtcagcaaagttctgagTgctccaggaagaagaggaag	14	7	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr22:30572094T>C	uc003agy.2	+	11	927	c.862T>C	c.(862-864)TGC>CGC	p.C288R		NM_152510	NP_689723	Q8N7B1	HORM2_HUMAN	HORMA domain containing 2	288					meiosis|mitosis	chromosome|nucleus					0			Epithelial(10;0.125)			AAGTTCTGAGTGCTCCAGGAA	0.383													8	21	---	---	---	---	PASS	C	30572094	C	C	30572094	3	2	25	1	0	0	0	0	1	0	0	0	7287	1696	59	5	900	5	HORMAD2	22	30572094	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	5735280	30572094	20732472	390	11225										
SLC35E4	339665	broad.mit.edu	37	chr22	31042935	31042935	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcactctttcaggaatgttcCtttaccacaactgcgagttc	6	12	3	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr22:31042935C>G	uc003ais.1	+	2	1615	c.970C>G	c.(970-972)CTT>GTT	p.L324V	SLC35E4_uc003ait.2_Intron	NM_001001479	NP_001001479	Q6ICL7	S35E4_HUMAN	solute carrier family 35, member E4	324	Helical; (Potential).					integral to membrane					0						AGGAATGTTCCTTTACCACAA	0.627													15	46	---	---	---	---	PASS	G	31042935	G	G	31042935	3	3	25	1	0	0	0	0	1	0	0	0	14587	681	24	4	976	4	SLC35E4	22	31042935	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	470841	31042935	20261631	391	11226										
TRIOBP	11078	broad.mit.edu	37	chr22	38165342	38165342	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctcgcagggcatgggcaatgGctgcgggcgcagcaacgagc	17	12	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr22:38165342G>T	uc003atr.2	+	21	7080	c.6809G>T	c.(6808-6810)GGC>GTC	p.G2270V	TRIOBP_uc003atu.2_Missense_Mutation_p.G2098V|TRIOBP_uc003atw.2_Missense_Mutation_p.G557V|TRIOBP_uc003atx.1_Missense_Mutation_p.G153V|TRIOBP_uc010gxh.2_Missense_Mutation_p.G153V	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	2270					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					ATGGGCAATGGCTGCGGGCGC	0.667													5	11	---	---	---	---	PASS	T	38165342	T	T	38165342	3	4	25	1	0	0	0	0	1	0	0	0	16550	1203	42	3	7185	3	TRIOBP	22	38165342	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	7122407	38165342	13139224	392	11227										
TNRC6B	23112	broad.mit.edu	37	chr22	40657837	40657837	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cccaacccctctcttttagtGcccgaagtgacgaaaccaag	7	15	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr22:40657837G>A	uc011aor.1	+	4	328	c.117G>A	c.(115-117)GTG>GTA	p.V39V	TNRC6B_uc003aym.2_Silent_p.V75V|TNRC6B_uc003ayn.3_Silent_p.V39V|TNRC6B_uc003ayo.2_5'Flank	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	39	Potential.				gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						CTCTTTTAGTGCCCGAAGTGA	0.373													7	35	---	---	---	---	PASS	A	40657837	A	A	40657837	2	1	25	1	0	0	0	0	0	0	0	1	16338	1333	46	3		3	TNRC6B	22	40657837	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	2492495	40657837	10646729	393	11228										
PLXNB2	23654	broad.mit.edu	37	chr22	50728004	50728004	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gcttgtagaagatgtcacggGcctcccgggtgcctgtgtaa	14	10	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chr22:50728004G>A	uc003bkv.3	-	3	1116	c.1010C>T	c.(1009-1011)GCC>GTC	p.A337V		NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	337	Extracellular (Potential).|Sema.				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GATGTCACGGGCCTCCCGGGT	0.677													12	23	---	---	---	---	PASS	A	50728004	A	A	50728004	3	1	25	1	0	0	0	0	1	0	0	0	12124	1203	42	3	4646	3	PLXNB2	22	50728004	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	10070167	50728004	576562	394	11229										
MXRA5	25878	broad.mit.edu	37	chrX	3242718	3242718	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tacacatccattggtttcttGatgtcacagaccaagttcac	6	11	3	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:3242718G>C	uc004crg.3	-	5	1165	c.1008C>G	c.(1006-1008)ATC>ATG	p.I336M		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	336						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TTGGTTTCTTGATGTCACAGA	0.463													9	38	---	---	---	---	PASS	C	3242718	C	C	3242718	3	2	25	1	0	0	0	0	1	0	0	0	10003	1280	45	2	7490	2	MXRA5	23	3242718	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08		3242718	152027842	395	11230										
SHROOM2	357	broad.mit.edu	37	chrX	9864571	9864571	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggaggctcggcacctttgcaGagtatcaggcctcttggaag	14	10	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:9864571G>A	uc004csu.1	+	4	2713	c.2623G>A	c.(2623-2625)GAG>AAG	p.E875K		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	875					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				CACCTTTGCAGAGTATCAGGC	0.637													5	15	---	---	---	---	PASS	A	9864571	A	A	9864571	3	1	25	1	0	0	0	0	1	0	0	0	14294	943	33	2	2637	2	SHROOM2	23	9864571	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	6621853	9864571	145405989	396	11231										
MID1	4281	broad.mit.edu	37	chrX	10450578	10450578	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atgatcattctccttcagagAgtgttccgcttgggagatga	11	8	3	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:10450578A>T	uc004cte.3	-	5	1146	c.955T>A	c.(955-957)TCT>ACT	p.S319T	MID1_uc004ctd.3_Missense_Mutation_p.S30T|MID1_uc004ctg.3_Missense_Mutation_p.S319T|MID1_uc004cth.3_Missense_Mutation_p.S281T|MID1_uc004ctk.3_Missense_Mutation_p.S319T|MID1_uc004cti.3_Missense_Mutation_p.S319T|MID1_uc004ctj.3_Missense_Mutation_p.S319T|MID1_uc011mie.1_RNA|MID1_uc004ctm.1_Missense_Mutation_p.S370T|MID1_uc004ctn.1_Missense_Mutation_p.S319T|MID1_uc004cto.1_Missense_Mutation_p.S281T|MID1_uc010ndw.1_Missense_Mutation_p.S30T|MID1_uc004cts.1_Missense_Mutation_p.S86T|MID1_uc004ctt.2_Missense_Mutation_p.S370T|MID1_uc004ctu.2_Missense_Mutation_p.S319T|MID1_uc004ctv.2_Missense_Mutation_p.S332T|MID1_uc004ctw.2_Missense_Mutation_p.S281T|MID1_uc010ndy.1_Missense_Mutation_p.S283T|MID1_uc004ctc.3_Missense_Mutation_p.S86T|MID1_uc004ctp.1_Intron|MID1_uc004ctq.1_Missense_Mutation_p.S86T|MID1_uc004ctr.1_Missense_Mutation_p.S86T|MID1_uc010ndu.1_Missense_Mutation_p.S86T|MID1_uc010ndv.1_Missense_Mutation_p.S30T|MID1_uc010ndx.1_RNA	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1	319					microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3						TCCTTCAGAGAGTGTTCCGCT	0.522													19	60	---	---	---	---	PASS	T	10450578	T	T	10450578	3	4	25	1	0	0	0	0	1	0	0	0	9576	304	11	5	1072	5	MID1	23	10450578	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	586007	10450578	144819982	397	11232										
ARHGAP6	395	broad.mit.edu	37	chrX	11162211	11162211	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cttctccgagccccccggggCcgcgtcctcttgcatagcca	10	19	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:11162211C>A	uc004cup.1	-	11	2938	c.2065G>T	c.(2065-2067)GCC>TCC	p.A689S	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cur.1_Missense_Mutation_p.A689S|ARHGAP6_uc004cum.1_Missense_Mutation_p.A486S|ARHGAP6_uc004cun.1_Missense_Mutation_p.A509S|ARHGAP6_uc010neb.1_Missense_Mutation_p.A511S|ARHGAP6_uc011mif.1_3'UTR	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	689					actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						CCCCCCGGGGCCGCGTCCTCT	0.582											OREG0019666	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	87	---	---	---	---	PASS	A	11162211	A	A	11162211	3	1	25	1	0	0	0	0	1	0	0	0	887	739	26	3	993	3	ARHGAP6	23	11162211	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	711633	11162211	144108349	398	11233										
MSL3	10943	broad.mit.edu	37	chrX	11783734	11783734	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agtctctgaggcggtccacgCgccacagtgccaactgtgac	12	14	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:11783734C>T	uc004cuw.2	+	9	1162	c.1057C>T	c.(1057-1059)CGC>TGC	p.R353C	MSL3_uc004cuv.1_Missense_Mutation_p.R353C|MSL3_uc004cux.2_Missense_Mutation_p.R294C|MSL3_uc011mig.1_Missense_Mutation_p.R204C|MSL3_uc011mih.1_Missense_Mutation_p.R341C|MSL3_uc004cuy.2_Missense_Mutation_p.R187C	NM_078629	NP_523353	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	353					histone H4-K16 acetylation|multicellular organismal development|transcription from RNA polymerase II promoter	MSL complex	DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCGGTCCACGCGCCACAGTGC	0.622													19	141	---	---	---	---	PASS	T	11783734	T	T	11783734	3	4	25	1	0	0	0	0	1	0	0	0	9879	768	27	1	1091	1	MSL3	23	11783734	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	621523	11783734	143486826	399	11234										
RAB9A	9367	broad.mit.edu	37	chrX	13727078	13727078	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggtcaggagcgattccgaagCctgaggacaccattttacag	12	10	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:13727078C>T	uc004cvm.2	+	3	395	c.213C>T	c.(211-213)AGC>AGT	p.S71S	RAB9A_uc010neh.2_Silent_p.S71S	NM_004251	NP_004242	P51151	RAB9A_HUMAN	RAB9A, member RAS oncogene family	71					protein transport|small GTPase mediated signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome|lysosome|plasma membrane	GDP binding|GTP binding|GTPase activity|protein binding			ovary(1)	1						GATTCCGAAGCCTGAGGACAC	0.413													46	161	---	---	---	---	PASS	T	13727078	T	T	13727078	2	4	25	1	0	0	0	0	0	0	0	1	12958	738	26	3		3	RAB9A	23	13727078	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	1943344	13727078	141543482	400	11235										
FIGF	2277	broad.mit.edu	37	chrX	15365296	15365296	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aggcatttacctgcaggtgtCtgggtgaaatagcttgtgct	13	7	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:15365296C>G	uc004cwt.1	-	6	1437	c.928G>C	c.(928-930)GAC>CAC	p.D310H		NM_004469	NP_004460	O43915	VEGFD_HUMAN	vascular endothelial growth factor D	310	4.|4 X 16 AA repeats of C-X(10)-C-X-C- X(1,3)-C.				angiogenesis|cell differentiation|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of cell proliferation|positive regulation of mast cell chemotaxis|vascular endothelial growth factor receptor signaling pathway	extracellular space|membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity|platelet-derived growth factor receptor binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Hepatocellular(33;0.183)					CTGCAGGTGTCTGGGTGAAAT	0.423													31	97	---	---	---	---	PASS	G	15365296	G	G	15365296	3	3	25	1	0	0	0	0	1	0	0	0	5889	913	32	2	144	2	FIGF	23	15365296	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1638218	15365296	139905264	401	11236										
NHS	4810	broad.mit.edu	37	chrX	17750265	17750265	+	Missense_Mutation	SNP	C	A	A													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cctgaagagccccatactgcCcaaacctcctggggagctca							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:17750265C>A	uc004cxx.2	+	8	4912	c.4574C>A	c.(4573-4575)CCC>CAC	p.P1525H	NHS_uc011mix.1_Missense_Mutation_p.P1546H|NHS_uc004cxy.2_Missense_Mutation_p.P1369H|NHS_uc004cxz.2_Missense_Mutation_p.P1348H|NHS_uc004cya.2_Missense_Mutation_p.P1248H	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1525						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					CCCATACTGCCCAAACCTCCT	0.547													10	64	---	---	---	---	PASS	A	17750265	A	A	17750265	3	1	25	1	0	0	0	0	1	0	0	0	10411	623	22	3	4709	3	NHS	23	17750265	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2384969	17750265	137520295	402	11237	308	2								
NHS	4810	broad.mit.edu	37	chrX	17750266	17750266	+	Silent	SNP	C	A	A													0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgaagagccccatactgccCaaacctcctggggagctcac							TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:17750266C>A	uc004cxx.2	+	8	4913	c.4575C>A	c.(4573-4575)CCC>CCA	p.P1525P	NHS_uc011mix.1_Silent_p.P1546P|NHS_uc004cxy.2_Silent_p.P1369P|NHS_uc004cxz.2_Silent_p.P1348P|NHS_uc004cya.2_Silent_p.P1248P	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1525						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					CCATACTGCCCAAACCTCCTG	0.547													10	65	---	---	---	---	PASS	A	17750266	A	A	17750266	2	1	25	1	0	0	0	0	0	0	0	1	10411	581	21	3		3	NHS	23	17750266	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	1	17750266	137520294	403	11238	308	2								
PPEF1	5475	broad.mit.edu	37	chrX	18767943	18767943	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gtctcttgaaagcgaacaggAcatgagggatagatgggatt	14	5	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:18767943A>G	uc004cyq.2	+	7	750	c.269A>G	c.(268-270)GAC>GGC	p.D90G	PPEF1_uc004cyp.2_Missense_Mutation_p.D90G|PPEF1_uc004cyr.2_Missense_Mutation_p.D90G|PPEF1_uc004cys.2_Missense_Mutation_p.D90G|PPEF1_uc011mja.1_Missense_Mutation_p.D25G|PPEF1_uc011mjb.1_Missense_Mutation_p.D34G	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding	90					detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)					AGCGAACAGGACATGAGGGAT	0.353													29	90	---	---	---	---	PASS	G	18767943	G	G	18767943	3	3	25	1	0	0	0	0	1	0	0	0	12307	275	10	5	283	5	PPEF1	23	18767943	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	1017677	18767943	136502617	404	11239										
GPR64	10149	broad.mit.edu	37	chrX	19025395	19025395	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aatgtgactgtcacgtttctTgtcaagttcctgacggtcag	10	9	4	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:19025395T>C	uc004cyx.2	-	20	1811	c.1647A>G	c.(1645-1647)ACA>ACG	p.T549T	GPR64_uc004cyy.2_Silent_p.T546T|GPR64_uc004cyz.2_Silent_p.T535T|GPR64_uc004czb.2_Silent_p.T549T|GPR64_uc004czc.2_Silent_p.T533T|GPR64_uc004czd.2_Silent_p.T525T|GPR64_uc004cze.2_Silent_p.T519T|GPR64_uc004czf.2_Silent_p.T511T|GPR64_uc004cza.2_Silent_p.T527T|GPR64_uc004cyw.2_Silent_p.T533T|GPR64_uc010nfj.2_Intron	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	549	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					TCACGTTTCTTGTCAAGTTCC	0.502													14	43	---	---	---	---	PASS	C	19025395	C	C	19025395	2	2	25	1	0	0	0	0	0	0	0	1	6705	1799	63	5		5	GPR64	23	19025395	Silent	SNP	T	TCGA-21-5782-01A-01D-1632-08	257452	19025395	136245165	405	11240										
DDX53	168400	broad.mit.edu	37	chrX	23018668	23018668	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agcagtcgtggagtgcgaaaAgagaaaatgggcagatctac	14	6	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:23018668A>G	uc004daj.2	+	1	582	c.494A>G	c.(493-495)AAG>AGG	p.K165R		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	165						nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						GAGTGCGAAAAGAGAAAATGG	0.428													21	73	---	---	---	---	PASS	G	23018668	G	G	23018668	3	3	25	1	0	0	0	0	1	0	0	0	4371	72	3	5	496	5	DDX53	23	23018668	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	3993273	23018668	132251892	406	11241										
DMD	1756	broad.mit.edu	37	chrX	32305785	32305785	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gctatgaataatgtcaatccGacctgagctttgttgtagac	9	8	1	3	rs140791274	byFrequency	TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:32305785G>A	uc004dda.1	-	43	6395	c.6151C>T	c.(6151-6153)CGG>TGG	p.R2051W	DMD_uc004dcw.2_Missense_Mutation_p.R707W|DMD_uc004dcx.2_Missense_Mutation_p.R710W|DMD_uc004dcz.2_Missense_Mutation_p.R1928W|DMD_uc004dcy.1_Missense_Mutation_p.R2047W|DMD_uc004ddb.1_Missense_Mutation_p.R2043W|DMD_uc010ngo.1_Intron|DMD_uc010ngn.1_RNA	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2051	Spectrin 14.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				ATGTCAATCCGACCTGAGCTT	0.348													11	35	---	---	---	---	PASS	A	32305785	A	A	32305785	3	1	25	1	0	0	0	0	1	0	0	0	4580	1057	37	2	5202	2	DMD	23	32305785	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	9287117	32305785	122964775	407	11242										
FAM47A	158724	broad.mit.edu	37	chrX	34150174	34150174	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	attttggggagtaaaaactcGtcacggcgacaaacgagagt	12	7	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:34150174G>A	uc004ddg.2	-	1	255	c.222C>T	c.(220-222)GAC>GAT	p.D74D		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	74										ovary(4)|central_nervous_system(1)	5						GTAAAAACTCGTCACGGCGAC	0.532													21	52	---	---	---	---	PASS	A	34150174	A	A	34150174	2	1	25	1	0	0	0	0	0	0	0	1	5569	1136	40	1		1	FAM47A	23	34150174	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	1844389	34150174	121120386	408	11243										
CXorf59	286464	broad.mit.edu	37	chrX	36083860	36083860	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aaaacattattttaaagaatGgtaagctatgtatgacttat	6	3	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:36083860G>T	uc004ddk.1	+	2	229	c.43G>T	c.(43-45)GAT>TAT	p.D15Y		NM_173695	NP_775966	Q8N9S7	CX059_HUMAN	hypothetical protein LOC286464	15						integral to membrane				central_nervous_system(1)	1						TTTAAAGAATGGTAAGCTATG	0.308													6	27	---	---	---	---	PASS	T	36083860	T	T	36083860	3	4	25	1	0	0	0	0	1	0	0	0	4115	1362	47	3	45	3	CXorf59	23	36083860	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1933686	36083860	119186700	409	11244										
CXorf36	79742	broad.mit.edu	37	chrX	45060020	45060020	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgagacccacagcagcagggCcagccagccagggcggaggg	17	13	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:45060020C>A	uc004dgg.2	-	1	127	c.52G>T	c.(52-54)GCC>TCC	p.A18S	CXorf36_uc004dgi.3_Missense_Mutation_p.A18S	NM_176819	NP_789789	Q9H7Y0	CX036_HUMAN	hypothetical protein LOC79742 isoform 1	18						extracellular region				lung(1)	1						AGCAGCAGGGCCAGCCAGCCA	0.632													9	18	---	---	---	---	PASS	A	45060020	A	A	45060020	3	1	25	1	0	0	0	0	1	0	0	0	4106	739	26	3	1324	3	CXorf36	23	45060020	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	8976160	45060020	110210540	410	11245										
USP11	8237	broad.mit.edu	37	chrX	47101575	47101575	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cttcaagtccacgctggtgtGccccgattgtggcaatgtat	11	11	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:47101575G>T	uc004dhp.2	+	10	1403	c.1403G>T	c.(1402-1404)TGC>TTC	p.C468F	USP11_uc004dhq.2_Missense_Mutation_p.C195F	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	468					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						ACGCTGGTGTGCCCCGATTGT	0.542													8	23	---	---	---	---	PASS	T	47101575	T	T	47101575	3	4	25	1	0	0	0	0	1	0	0	0	17039	1319	46	3	1441	3	USP11	23	47101575	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	2041555	47101575	108168985	411	11246										
GATA1	2623	broad.mit.edu	37	chrX	48650417	48650417	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gatctggatggaaaaggcagCaccagcttcctggagacttt	12	9	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:48650417C>A	uc004dkq.3	+	3	478	c.387C>A	c.(385-387)AGC>AGA	p.S129R		NM_002049	NP_002040	P15976	GATA1_HUMAN	GATA binding protein 1	129					basophil differentiation|eosinophil differentiation|erythrocyte development|megakaryocyte differentiation|platelet aggregation|platelet formation|positive regulation of anti-apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|regulation of glycoprotein biosynthetic process|transcription from RNA polymerase II promoter	nuclear membrane|nucleolus|nucleoplasm	C2H2 zinc finger domain binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.?(2)|p.V74_C199del(1)		haematopoietic_and_lymphoid_tissue(246)|lung(2)	248						GAAAAGGCAGCACCAGCTTCC	0.612			Mis|F		megakaryoblastic leukemia of Downs Syndrome								6	43	---	---	---	---	PASS	A	48650417	A	A	48650417	3	1	25	1	0	0	0	0	1	0	0	0	6253	709	25	3	393	3	GATA1	23	48650417	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1548842	48650417	106620143	412	11247										
CCDC120	90060	broad.mit.edu	37	chrX	48922153	48922153	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cggggtcagtgatcaccaccCagggagtctgcctgggcatg	15	12	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:48922153C>A	uc010nik.2	+	6	1084	c.577C>A	c.(577-579)CAG>AAG	p.Q193K	CCDC120_uc011mmq.1_Missense_Mutation_p.Q181K|CCDC120_uc004dmf.2_Missense_Mutation_p.Q193K|CCDC120_uc010nil.2_Missense_Mutation_p.Q193K|CCDC120_uc011mmr.1_Missense_Mutation_p.Q193K|CCDC120_uc011mms.1_Missense_Mutation_p.Q181K	NM_033626	NP_296375	Q96HB5	CC120_HUMAN	coiled-coil domain containing 120 isoform 3	193							protein binding			pancreas(1)	1						GATCACCACCCAGGGAGTCTG	0.657													4	8	---	---	---	---	PASS	A	48922153	A	A	48922153	3	1	25	1	0	0	0	0	1	0	0	0	2756	595	21	3	591	3	CCDC120	23	48922153	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	271736	48922153	106348407	413	11248										
PRICKLE3	4007	broad.mit.edu	37	chrX	49032245	49032245	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gcgagctggagcaagattccGagtctgaccctgatcccgcg	13	13	1	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:49032245G>A	uc004dmy.1	-	9	1651	c.1625C>T	c.(1624-1626)TCG>TTG	p.S542L	PRICKLE3_uc011mmv.1_Missense_Mutation_p.S474L|PRICKLE3_uc011mmw.1_Missense_Mutation_p.S461L|PRICKLE3_uc011mmx.1_Missense_Mutation_p.S504L	NM_006150	NP_006141	O43900	PRIC3_HUMAN	LIM domain only 6	542							protein binding|zinc ion binding			breast(1)	1						GCAAGATTCCGAGTCTGACCC	0.502													27	98	---	---	---	---	PASS	A	49032245	A	A	49032245	3	1	25	1	0	0	0	0	1	0	0	0	12488	1059	37	2	226	2	PRICKLE3	23	49032245	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	110092	49032245	106238315	414	11249										
GPR173	54328	broad.mit.edu	37	chrX	53105980	53105980	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgcacaaggctccttactaCttcctgctggacctgtgcct	8	15	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:53105980C>T	uc004dru.2	+	2	435	c.177C>T	c.(175-177)TAC>TAT	p.Y59Y		NM_018969	NP_061842	Q9NS66	GP173_HUMAN	G protein-coupled receptor 173	59	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						CTCCTTACTACTTCCTGCTGG	0.597													11	58	---	---	---	---	PASS	T	53105980	T	T	53105980	2	4	25	1	0	0	0	0	0	0	0	1	6671	576	20	3		3	GPR173	23	53105980	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	4073735	53105980	102164580	415	11250										
ITIH5L	347365	broad.mit.edu	37	chrX	54783783	54783783	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctgggacctgtggaacttgaGattgtatttgggaatgtgct	14	5	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:54783783G>T	uc004dtj.2	-	8	2754	c.2724C>A	c.(2722-2724)ATC>ATA	p.I908I		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	908	Pro-rich.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						TGGAACTTGAGATTGTATTTG	0.562													7	48	---	---	---	---	PASS	T	54783783	T	T	54783783	2	4	25	1	0	0	0	0	0	0	0	1	7908	932	33	2		2	ITIH5L	23	54783783	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	1677803	54783783	100486777	416	11251										
FAAH2	158584	broad.mit.edu	37	chrX	57358226	57358226	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atatgatttacagcatattgTaggtggaagttctggtgagt	12	3	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:57358226T>A	uc004dvc.2	+	4	757	c.608T>A	c.(607-609)GTA>GAA	p.V203E		NM_174912	NP_777572	Q6GMR7	FAAH2_HUMAN	fatty acid amide hydrolase 2	203						integral to membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|hydrolase activity			ovary(3)	3						CAGCATATTGTAGGTGGAAGT	0.333										HNSCC(52;0.14)			21	83	---	---	---	---	PASS	A	57358226	A	A	57358226	3	1	25	1	0	0	0	0	1	0	0	0	5354	1638	57	5	622	5	FAAH2	23	57358226	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	2574443	57358226	97912334	417	11252										
ZXDB	158586	broad.mit.edu	37	chrX	57618658	57618658	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggcgggcccgggcggcggcgCgaggaggccagcacggcatc	21	14	0	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:57618658C>T	uc004dvd.2	+	1	390	c.177C>T	c.(175-177)CGC>CGT	p.R59R		NM_007157	NP_009088	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	59					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						ggcggcggcgcgAGGAGGCCA	0.537													4	11	---	---	---	---	PASS	T	57618658	T	T	57618658	2	4	25	1	0	0	0	0	0	0	0	1	18248	755	27	1		1	ZXDB	23	57618658	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	260432	57618658	97651902	418	11253										
SPIN4	139886	broad.mit.edu	37	chrX	62570674	62570674	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggacacgccatctacccccaTcggaggcacggttggaggag	14	13	1	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:62570674T>G	uc004dvf.2	-	1	545	c.25A>C	c.(25-27)ATG>CTG	p.M9L		NM_001012968	NP_001012986	Q56A73	SPIN4_HUMAN	spindlin family, member 4	9					gamete generation					ovary(1)|lung(1)	2						TCTACCCCCATCGGAGGCACG	0.537													5	33	---	---	---	---	PASS	G	62570674	G	G	62570674	3	3	25	1	0	0	0	0	1	0	0	0	15055	1435	50	5	728	5	SPIN4	23	62570674	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	4952016	62570674	92699886	419	11254										
MTMR8	55613	broad.mit.edu	37	chrX	63445176	63445176	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	aagcacacgtacacagtccaGatggccatgactgacagcag	10	12	0	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:63445176G>T	uc011mou.1	-	10	1548	c.1480C>A	c.(1480-1482)CTG>ATG	p.L494M	ASB12_uc004dvp.1_Missense_Mutation_p.L110M|ASB12_uc004dvq.1_Missense_Mutation_p.L119M|ASB12_uc004dvr.1_Missense_Mutation_p.L119M	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	310	Myotubularin phosphatase.					nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						ACACAGTCCAGATGGCCATGA	0.532													5	17	---	---	---	---	PASS	T	63445176	T	T	63445176	3	4	25	1	0	0	0	0	1	0	0	0	9949	933	33	2		2	MTMR8	23	63445176	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	874502	63445176	91825384	420	11255										
LAS1L	81887	broad.mit.edu	37	chrX	64737901	64737901	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	catgcagagccctgcaaagcTcctcttttctgggccagaag	10	13	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:64737901T>A	uc004dwa.1	-	12	1965	c.1893A>T	c.(1891-1893)GGA>GGT	p.G631G	LAS1L_uc004dwc.1_Silent_p.G614G|LAS1L_uc004dwd.1_Silent_p.G572G|LAS1L_uc004dvy.1_Silent_p.G144G|LAS1L_uc004dvz.1_Silent_p.G144G	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	631						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						CCTGCAAAGCTCCTCTTTTCT	0.483													5	21	---	---	---	---	PASS	A	64737901	A	A	64737901	2	1	25	1	0	0	0	0	0	0	0	1	8636	1538	54	5		5	LAS1L	23	64737901	Silent	SNP	T	TCGA-21-5782-01A-01D-1632-08	1292725	64737901	90532659	421	11256										
TAF1	6872	broad.mit.edu	37	chrX	70603821	70603821	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gttctggacagatgagagaaCaagagaggcaagcttcaggt	14	6	2	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:70603821C>G	uc004dzu.3	+	13	2005	c.1954C>G	c.(1954-1956)CAA>GAA	p.Q652E	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.Q673E	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	652					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				GATGAGAGAACAAGAGAGGCA	0.428													20	93	---	---	---	---	PASS	G	70603821	G	G	70603821	3	3	25	1	0	0	0	0	1	0	0	0	15510	479	17	4	2067	4	TAF1	23	70603821	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	5865920	70603821	84666739	422	11257										
TAF1	6872	broad.mit.edu	37	chrX	70621431	70621431	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atgaggactaacaaattctgCcccctctattatcaaacaaa	4	11	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:70621431C>G	uc004dzu.3	+	25	3888	c.3837C>G	c.(3835-3837)TGC>TGG	p.C1279W	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.C1300W|TAF1_uc004dzv.3_Missense_Mutation_p.C453W	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	1279					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				ACAAATTCTGCCCCCTCTATT	0.443													12	73	---	---	---	---	PASS	G	70621431	G	G	70621431	3	3	25	1	0	0	0	0	1	0	0	0	15510	747	26	4	3998	4	TAF1	23	70621431	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	17610	70621431	84649129	423	11258										
ZDHHC15	158866	broad.mit.edu	37	chrX	74641769	74641769	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctggatattcttgatgaagcCaaggttgaacccatttttct	8	8	2	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:74641769C>A	uc004ecg.2	-	9	1271	c.793G>T	c.(793-795)GGC>TGC	p.G265C	ZDHHC15_uc004ech.2_Missense_Mutation_p.G256C|ZDHHC15_uc011mqo.1_RNA	NM_144969	NP_659406	Q96MV8	ZDH15_HUMAN	zinc finger, DHHC-type containing 15 isoform 1	265						integral to membrane	zinc ion binding			ovary(2)	2						TTGATGAAGCCAAGGTTGAAC	0.428													17	37	---	---	---	---	PASS	A	74641769	A	A	74641769	3	1	25	1	0	0	0	0	1	0	0	0	17602	594	21	3	232	3	ZDHHC15	23	74641769	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	4020338	74641769	80628791	424	11259										
MAGEE1	57692	broad.mit.edu	37	chrX	75650228	75650228	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tctgtggagtttgtatggcaGcgttacttagactacaggcc	12	8	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:75650228G>T	uc004ecm.1	+	1	2112	c.1905G>T	c.(1903-1905)CAG>CAT	p.Q635H		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	635	MAGE 1.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						TTGTATGGCAGCGTTACTTAG	0.478													10	24	---	---	---	---	PASS	T	75650228	T	T	75650228	3	4	25	1	0	0	0	0	1	0	0	0	9185	962	34	3	1907	3	MAGEE1	23	75650228	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1008459	75650228	79620332	425	11260										
TAF9B	51616	broad.mit.edu	37	chrX	77393468	77393468	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	agtttgctcacatctcttggGggaggagaggtaaaagattg	14	5	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:77393468G>T	uc004eda.2	-	3	332	c.261C>A	c.(259-261)CCC>CCA	p.P87P		NM_015975	NP_057059	Q9HBM6	TAF9B_HUMAN	transcription associated factor 9B	87					negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell growth|transcription initiation, DNA-dependent	transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding				0						CATCTCTTGGGGGAGGAGAGG	0.338													18	76	---	---	---	---	PASS	T	77393468	T	T	77393468	2	4	25	1	0	0	0	0	0	0	0	1	15533	1219	43	3		3	TAF9B	23	77393468	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	1743240	77393468	77877092	426	11261										
SATL1	340562	broad.mit.edu	37	chrX	84362765	84362765	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gcctatttggcttgtgcctgAttggctggtgcctacttgtc	12	10	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:84362765A>T	uc011mqx.1	-	1	1210	c.1210T>A	c.(1210-1212)TCA>ACA	p.S404T	SATL1_uc004een.2_Missense_Mutation_p.S404T	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	217	Gln-rich.						N-acetyltransferase activity			breast(2)	2						CTTGTGCCTGATTGGCTGGTG	0.532													21	66	---	---	---	---	PASS	T	84362765	T	T	84362765	3	4	25	1	0	0	0	0	1	0	0	0	13855	333	12	5	708	5	SATL1	23	84362765	Missense_Mutation	SNP	A	TCGA-21-5782-01A-01D-1632-08	6969297	84362765	70907795	427	11262										
SYTL4	94121	broad.mit.edu	37	chrX	99956580	99956580	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcaaacggcccaggctctccTggcaccgggcacaggtccga	12	16	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:99956580T>C	uc004egd.3	-	5	556	c.200A>G	c.(199-201)CAG>CGG	p.Q67R	SYTL4_uc010nnc.2_Missense_Mutation_p.Q67R|SYTL4_uc004ege.3_Missense_Mutation_p.Q67R|SYTL4_uc004egf.3_Missense_Mutation_p.Q67R|SYTL4_uc004egg.3_Missense_Mutation_p.Q67R	NM_080737	NP_542775	Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	67	RabBD.|FYVE-type.				exocytosis|intracellular protein transport	extrinsic to membrane|plasma membrane|synaptic vesicle|transport vesicle membrane	neurexin binding|phospholipid binding|Rab GTPase binding|transporter activity|zinc ion binding			ovary(2)	2					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CAGGCTCTCCTGGCACCGGGC	0.547													13	81	---	---	---	---	PASS	C	99956580	C	C	99956580	3	2	25	1	0	0	0	0	1	0	0	0	15482	1580	55	5	1875	5	SYTL4	23	99956580	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	15593815	99956580	55313980	428	11263										
BTK	695	broad.mit.edu	37	chrX	100630170	100630170	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctcatagtaggagagtttgtGcacggtcaagagaaacaggc	13	7	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:100630170G>T	uc004ehg.2	-	2	296	c.103C>A	c.(103-105)CAC>AAC	p.H35N	BTK_uc010nnn.2_Missense_Mutation_p.H35N|BTK_uc010nno.2_Missense_Mutation_p.H69N|BTK_uc004ehi.2_Missense_Mutation_p.H35N	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	35	PH.				calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						GAGAGTTTGTGCACGGTCAAG	0.433									Agammaglobulinemia_X-linked				39	101	---	---	---	---	PASS	T	100630170	T	T	100630170	3	4	25	1	0	0	0	0	1	0	0	0	1557	1319	46	3	1948	3	BTK	23	100630170	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	673590	100630170	54640390	429	11264										
CHRDL1	91851	broad.mit.edu	37	chrX	109963158	109963158	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cacaatacacgtttccctccTgccaaggagaaacagaatta	6	12	0	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:109963158T>A	uc004eou.3	-	6	797	c.448_splice	c.e6-1	p.E150_splice	CHRDL1_uc004eov.2_Splice_Site_p.E144_splice|CHRDL1_uc004eow.2_Splice_Site_p.E149_splice|CHRDL1_uc010nps.2_Splice_Site_p.E149_splice|CHRDL1_uc004eot.2_Intron|CHRDL1_uc011mss.1_Intron|CHRDL1_uc004eox.3_Intron	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor						BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						GTTTCCCTCCTGCCAAGGAGA	0.468													13	31	---	---	---	---	PASS	A	109963158	A	A	109963158	5	1	25	1	0	0	0	0	0	0	1	0	3373	1594	55	5	958	5	CHRDL1	23	109963158	Splice_Site	SNP	T	TCGA-21-5782-01A-01D-1632-08	9332988	109963158	45307402	430	11265										
WDR44	54521	broad.mit.edu	37	chrX	117540902	117540902	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ggaatgccatacacaagaccAgttaaattcaaagcagcaca	7	10	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:117540902A>G	uc004eqn.2	+	10	1871	c.1446A>G	c.(1444-1446)CCA>CCG	p.P482P	WDR44_uc004eqo.2_Silent_p.P482P|WDR44_uc011mtr.1_Silent_p.P457P|WDR44_uc010nqi.2_Silent_p.P192P	NM_019045	NP_061918	Q5JSH3	WDR44_HUMAN	WD repeat domain 44 protein	482						cytosol|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm				lung(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5						ACACAAGACCAGTTAAATTCA	0.373													30	66	---	---	---	---	PASS	G	117540902	G	G	117540902	2	3	25	1	0	0	0	0	0	0	0	1	17293	175	7	5		5	WDR44	23	117540902	Silent	SNP	A	TCGA-21-5782-01A-01D-1632-08	7577744	117540902	37729658	431	11266										
C1GALT1C1	29071	broad.mit.edu	37	chrX	119760290	119760290	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	acagatttggtattaaatacAtcttttccatcagcatcttc	4	9	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:119760290A>G	uc004esy.2	-	3	1079	c.732T>C	c.(730-732)GAT>GAC	p.D244D	C1GALT1C1_uc004esz.2_Silent_p.D244D	NM_152692	NP_689905	Q96EU7	C1GLC_HUMAN	C1GALT1-specific chaperone 1	244	Lumenal (Potential).					integral to membrane					0						TATTAAATACATCTTTTCCAT	0.388													27	91	---	---	---	---	PASS	G	119760290	G	G	119760290	2	3	25	1	0	0	0	0	0	0	0	1	1953	214	8	5		5	C1GALT1C1	23	119760290	Silent	SNP	A	TCGA-21-5782-01A-01D-1632-08	2219388	119760290	35510270	432	11267										
STAG2	10735	broad.mit.edu	37	chrX	123224532	123224532	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	cctccactattatgagagagCccaaaagattacggcctgag	9	11	0	4			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:123224532C>T	uc004etz.3	+	30	3724	c.3385C>T	c.(3385-3387)CCC>TCC	p.P1129S	STAG2_uc004eua.2_Missense_Mutation_p.P1129S|STAG2_uc004eub.2_Missense_Mutation_p.P1129S|STAG2_uc004euc.2_Missense_Mutation_p.P1129S|STAG2_uc004eud.2_Missense_Mutation_p.P1129S|STAG2_uc004eue.2_Missense_Mutation_p.P1129S	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	1129					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						TATGAGAGAGCCCAAAAGATT	0.408													22	65	---	---	---	---	PASS	T	123224532	T	T	123224532	3	4	25	1	0	0	0	0	1	0	0	0	15242	739	26	3	3499	3	STAG2	23	123224532	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	3464242	123224532	32046028	433	11268										
ODZ1	10178	broad.mit.edu	37	chrX	123538947	123538947	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttcctctgccgccactcgatGaggtttgcattgtgctctcc	9	14	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:123538947G>C	uc004euj.2	-	26	5368	c.5304C>G	c.(5302-5304)CTC>CTG	p.L1768L	ODZ1_uc011muj.1_Silent_p.L1774L|ODZ1_uc010nqy.2_Silent_p.L1775L	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1768	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GCCACTCGATGAGGTTTGCAT	0.517													24	77	---	---	---	---	PASS	C	123538947	C	C	123538947	2	2	25	1	0	0	0	0	0	0	0	1	10834	1277	45	2		2	ODZ1	23	123538947	Silent	SNP	G	TCGA-21-5782-01A-01D-1632-08	314415	123538947	31731613	434	11269										
UTP14A	10813	broad.mit.edu	37	chrX	129063396	129063396	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	taggatccacatggaacaccCagagggctttccaaaagctg	10	11	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:129063396C>T	uc004euz.2	+	15	2156	c.2128C>T	c.(2128-2130)CAG>TAG	p.Q710*	UTP14A_uc011mup.1_Nonsense_Mutation_p.Q658*|UTP14A_uc011muq.1_Nonsense_Mutation_p.Q656*	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	710					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						ATGGAACACCCAGAGGGCTTT	0.507													22	64	---	---	---	---	PASS	T	129063396	T	T	129063396	4	4	25	1	0	0	0	0	0	1	0	0	17092	595	21	3	2186	3	UTP14A	23	129063396	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	5524449	129063396	26207164	435	11270										
FRMD7	90167	broad.mit.edu	37	chrX	131219974	131219974	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ttctgatgaaagtgcatgatCttgccctctaaacagtcttg	8	9	4	3			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:131219974C>G	uc004ewn.2	-	6	649	c.471G>C	c.(469-471)AAG>AAC	p.K157N	FRMD7_uc011muy.1_Missense_Mutation_p.K142N	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	157	FERM.				regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					AGTGCATGATCTTGCCCTCTA	0.453													36	117	---	---	---	---	PASS	G	131219974	G	G	131219974	3	3	25	1	0	0	0	0	1	0	0	0	6055	912	32	2	1701	2	FRMD7	23	131219974	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	2156578	131219974	24050586	436	11271										
MAP7D3	79649	broad.mit.edu	37	chrX	135312596	135312596	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcacatctgttagtggttttAgaaactgtttcttttttctt	6	6	4	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:135312596A>T	uc004ezt.2	-	10	1789	c.1698T>A	c.(1696-1698)TCT>TCA	p.S566S	MAP7D3_uc004ezs.2_Silent_p.S530S|MAP7D3_uc011mwc.1_Silent_p.S548S|MAP7D3_uc010nsa.1_Silent_p.S524S	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	566	Potential.					cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					TAGTGGTTTTAGAAACTGTTT	0.353													16	98	---	---	---	---	PASS	T	135312596	T	T	135312596	2	4	25	1	0	0	0	0	0	0	0	1	9269	407	15	5		5	MAP7D3	23	135312596	Silent	SNP	A	TCGA-21-5782-01A-01D-1632-08	4092622	135312596	19957964	437	11272										
GPR112	139378	broad.mit.edu	37	chrX	135427978	135427978	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	caactaccaatatcaccccaCtgaaagcatctccagagggc	6	15	2	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:135427978C>A	uc004ezu.1	+	6	2404	c.2113C>A	c.(2113-2115)CTG>ATG	p.L705M	GPR112_uc010nsb.1_Missense_Mutation_p.L500M|GPR112_uc010nsc.1_Missense_Mutation_p.L472M	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	705	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TATCACCCCACTGAAAGCATC	0.393													14	64	---	---	---	---	PASS	A	135427978	A	A	135427978	3	1	25	1	0	0	0	0	1	0	0	0	6629	564	20	3	2123	3	GPR112	23	135427978	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	115382	135427978	19842582	438	11273										
GPR112	139378	broad.mit.edu	37	chrX	135496412	135496412	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gttgacgccatctctcaagtCaactgcaactagctccactt	6	14	3	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:135496412C>A	uc004ezu.1	+	25	9422	c.9131C>A	c.(9130-9132)TCA>TAA	p.S3044*	GPR112_uc010nsb.1_Nonsense_Mutation_p.S2839*	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	3044	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TCTCTCAAGTCAACTGCAACT	0.418													41	138	---	---	---	---	PASS	A	135496412	A	A	135496412	4	1	25	1	0	0	0	0	0	1	0	0	6629	838	29	2	9217	2	GPR112	23	135496412	Nonsense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	68434	135496412	19774148	439	11274										
FGF13	2258	broad.mit.edu	37	chrX	137715014	137715014	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tcttttgccctcactggctaCgttgattcattgtggctcat	8	11	4	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:137715014C>G	uc004fam.2	-	5	1397	c.735G>C	c.(733-735)ACG>ACC	p.T245T	FGF13_uc004fan.2_Silent_p.T192T|FGF13_uc011mwi.1_Silent_p.T226T|FGF13_uc004faq.2_Silent_p.T255T|FGF13_uc004far.2_Silent_p.T226T|FGF13_uc011mwj.1_Silent_p.T255T|FGF13_uc011mwk.1_Silent_p.T199T	NM_004114	NP_004105	Q92913	FGF13_HUMAN	fibroblast growth factor 13 isoform 1	245					cell-cell signaling|MAPKKK cascade|nervous system development	cytoplasm|nucleus	growth factor activity|protein kinase activator activity			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					TCACTGGCTACGTTGATTCAT	0.502													42	132	---	---	---	---	PASS	G	137715014	G	G	137715014	2	3	25	1	0	0	0	0	0	0	0	1	5842	523	19	4		4	FGF13	23	137715014	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	2218602	137715014	17555546	440	11275										
SLITRK4	139065	broad.mit.edu	37	chrX	142717782	142717782	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ctattgccattgacgtgcagCttcttcgcatttaaaggttt	8	9	1	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:142717782C>A	uc004fbx.2	-	2	1519	c.1143G>T	c.(1141-1143)AAG>AAT	p.K381N	SLITRK4_uc004fby.2_Missense_Mutation_p.K381N	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	381	Extracellular (Potential).|LRR 7.					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TGACGTGCAGCTTCTTCGCAT	0.413													34	148	---	---	---	---	PASS	A	142717782	A	A	142717782	3	1	25	1	0	0	0	0	1	0	0	0	14745	796	28	3	1374	3	SLITRK4	23	142717782	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	5002768	142717782	12552778	441	11276										
PASD1	139135	broad.mit.edu	37	chrX	150817144	150817144	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gccgtgtacgttgaacccgcTgctgctgctgctgctgctgc	13	14	0	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:150817144T>A	uc004fev.3	+	9	1019	c.687T>A	c.(685-687)GCT>GCA	p.A229A		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	229	Poly-Ala.					nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TTGAACCCgctgctgctgctg	0.348													22	72	---	---	---	---	PASS	A	150817144	A	A	150817144	2	1	25	1	0	0	0	0	0	0	0	1	11471	1567	55	5		5	PASD1	23	150817144	Silent	SNP	T	TCGA-21-5782-01A-01D-1632-08	8099362	150817144	4453416	442	11277										
PNMA3	29944	broad.mit.edu	37	chrX	152226044	152226044	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	gctgatggaatgcttacgggGccctgctctccaggtggtca	14	11	2	1			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:152226044G>T	uc004fhc.2	+	2	968	c.632G>T	c.(631-633)GGC>GTC	p.G211V	PNMA5_uc004fha.3_5'Flank|PNMA3_uc004fhd.2_5'Flank	NM_013364	NP_037496	Q9UL41	PNMA3_HUMAN	paraneoplastic cancer-testis-brain antigen	211					apoptosis	nucleolus	nucleic acid binding|zinc ion binding			skin(2)|large_intestine(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					tgcttacggggccctgctctc	0													19	72	---	---	---	---	PASS	T	152226044	T	T	152226044	3	4	25	1	0	0	0	0	1	0	0	0	12155	1203	42	3	634	3	PNMA3	23	152226044	Missense_Mutation	SNP	G	TCGA-21-5782-01A-01D-1632-08	1408900	152226044	3044516	443	11278										
FLNA	2316	broad.mit.edu	37	chrX	153587658	153587658	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	tgacgttgaggctgtaggtgCcagcctcataagggatgtac	14	8	1	2			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:153587658C>G	uc004fkk.2	-	25	4508	c.4259G>C	c.(4258-4260)GGC>GCC	p.G1420A	FLNA_uc011mzn.1_5'Flank|FLNA_uc010nuu.1_Missense_Mutation_p.G1420A	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1420	Filamin 12.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GCTGTAGGTGCCAGCCTCATA	0.637													21	77	---	---	---	---	PASS	G	153587658	G	G	153587658	3	3	25	1	0	0	0	0	1	0	0	0	5933	739	26	4	3780	4	FLNA	23	153587658	Missense_Mutation	SNP	C	TCGA-21-5782-01A-01D-1632-08	1361614	153587658	1682902	444	11279										
FLNA	2316	broad.mit.edu	37	chrX	153595790	153595790	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	ccgtaggcacgggctttcttCgggttcagtttgggccgcaa	14	11	2	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:153595790C>A	uc004fkk.2	-	5	1092	c.843G>T	c.(841-843)CCG>CCT	p.P281P	FLNA_uc010nuu.1_Silent_p.P281P	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	281	Filamin 1.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGGCTTTCTTCGGGTTCAGTT	0.622													14	48	---	---	---	---	PASS	A	153595790	A	A	153595790	2	1	25	1	0	0	0	0	0	0	0	1	5933	871	31	2		2	FLNA	23	153595790	Silent	SNP	C	TCGA-21-5782-01A-01D-1632-08	8132	153595790	1674770	445	11280										
F8	2157	broad.mit.edu	37	chrX	154134724	154134724	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.203196347031963	89	6.38188244357806e-21	2.9120641218721	3.71221248630887	2.32528865461847	0.417966919334386	0.801770950033723	58	atcttcaacttctgctcttaTatatggccccaggagtccca	6	13	4	0			TCGA-21-5782-01A-01D-1632-08	TCGA-21-5782-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c2ad4a0-5d57-4e27-9f35-058b2f205f50	50497294-50a7-42e2-b6f7-f5d379589860	g.chrX:154134724T>C	uc004fmt.2	-	15	5515	c.5344A>G	c.(5344-5346)ATA>GTA	p.I1782V	F8_uc010nvi.1_Translation_Start_Site	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	1782	F5/8 type A 3.|Plastocyanin-like 5.		I -> R (in HEMA; severe sporadic).		acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TCTGCTCTTATATATGGCCCC	0.343													25	92	---	---	---	---	PASS	C	154134724	C	C	154134724	3	2	25	1	0	0	0	0	1	0	0	0	5350	1406	49	5	1787	5	F8	23	154134724	Missense_Mutation	SNP	T	TCGA-21-5782-01A-01D-1632-08	538934	154134724	1135836	446	11281										
AADACL4	343066	broad.mit.edu	37	chr1	12726115	12726115	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	agaaagcgtcggaggtgcagCggtggccgccatcacccagg	16	12	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:12726115C>A	uc001auf.2	+	4	593	c.593C>A	c.(592-594)GCG>GAG	p.A198E		NM_001013630	NP_001013652	Q5VUY2	ADCL4_HUMAN	arylacetamide deacetylase-like 4	198	Lumenal (Potential).					integral to membrane	carboxylesterase activity				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000937)|all_lung(284;0.00122)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.81e-07)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0384)		GGAGGTGCAGCGGTGGCCGCC	0.582													6	42	---	---	---	---	PASS	A	12726115	A	A	12726115	3	1	26	1	0	0	0	0	1	0	0	0	13	768	27	1	607	1	AADACL4	1	12726115	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08		12726115	236524506	1	11282										
PAX7	5081	broad.mit.edu	37	chr1	19062345	19062345	+	Missense_Mutation	SNP	G	T	T													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acagcgtggaccccgtggccGgctatcagtacggccagtac					rs145120435	byFrequency	TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:19062345G>T	uc001bay.2	+	8	1973	c.1375G>T	c.(1375-1377)GGC>TGC	p.G459C	PAX7_uc001baz.2_Missense_Mutation_p.G457C|PAX7_uc010oct.1_Missense_Mutation_p.G459C	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	459					anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		CCCCGTGGCCGGCTATCAGTA	0.672			T	FOXO1A	alveolar rhabdomyosarcoma								8	65	---	---	---	---	PASS	T	19062345	T	T	19062345	3	4	26	1	0	0	0	0	1	0	0	0	11484	1116	39	1	1405	1	PAX7	1	19062345	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	6336230	19062345	230188276	2	11283	309	2								
PAX7	5081	broad.mit.edu	37	chr1	19062346	19062346	+	Missense_Mutation	SNP	G	C	C													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cagcgtggaccccgtggccgGctatcagtacggccagtacg							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:19062346G>C	uc001bay.2	+	8	1974	c.1376G>C	c.(1375-1377)GGC>GCC	p.G459A	PAX7_uc001baz.2_Missense_Mutation_p.G457A|PAX7_uc010oct.1_Missense_Mutation_p.G459A	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	459					anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		CCCGTGGCCGGCTATCAGTAC	0.672			T	FOXO1A	alveolar rhabdomyosarcoma								8	65	---	---	---	---	PASS	C	19062346	C	C	19062346	3	2	26	1	0	0	0	0	1	0	0	0	11484	1203	42	4	1406	4	PAX7	1	19062346	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	1	19062346	230188275	3	11284	309	2								
EXTL1	2134	broad.mit.edu	37	chr1	26349716	26349716	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gtggactccttccggcccggCtttgatgtggccctcccttt	11	15	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:26349716C>A	uc001blf.2	+	1	1446	c.579C>A	c.(577-579)GGC>GGA	p.G193G		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	193	Lumenal (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		TCCGGCCCGGCTTTGATGTGG	0.697													5	27	---	---	---	---	PASS	A	26349716	A	A	26349716	2	1	26	1	0	0	0	0	0	0	0	1	5325	784	28	3		3	EXTL1	1	26349716	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	7287370	26349716	222900905	4	11285										
CSMD2	114784	broad.mit.edu	37	chr1	34003047	34003047	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acctctcacctatgcagctgGgctgggtgccactccatgtc	10	15	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:34003047G>T	uc001bxn.1	-	60	9391	c.9362C>A	c.(9361-9363)CCC>CAC	p.P3121H	CSMD2_uc001bxm.1_Missense_Mutation_p.P3265H	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3121	Extracellular (Potential).|Sushi 24.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TATGCAGCTGGGCTGGGTGCC	0.582													9	92	---	---	---	---	PASS	T	34003047	T	T	34003047	3	4	26	1	0	0	0	0	1	0	0	0	3945	1232	43	3	1141	3	CSMD2	1	34003047	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	7653331	34003047	215247574	5	11286										
CTPS	1503	broad.mit.edu	37	chr1	41461729	41461729	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	atgctgatgaaatggaaagaGatggctgacaggtttgcctg	14	5	0	4			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:41461729G>C	uc001cgk.3	+	8	1369	c.861G>C	c.(859-861)GAG>GAC	p.E287D	CTPS_uc010ojo.1_Missense_Mutation_p.E56D|CTPS_uc010ojp.1_Missense_Mutation_p.E294D|CTPS_uc001cgl.3_Missense_Mutation_p.E287D|CTPS_uc010ojq.1_Missense_Mutation_p.E131D|CTPS_uc009vwe.2_Missense_Mutation_p.E7D	NM_001905	NP_001896	P17812	PYRG1_HUMAN	CTP synthase	287					CTP biosynthetic process|glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|response to drug	cytosol	ATP binding|CTP synthase activity|protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)			L-Glutamine(DB00130)	AATGGAAAGAGATGGCTGACA	0.468													3	26	---	---	---	---	PASS	C	41461729	C	C	41461729	3	2	26	1	0	0	0	0	1	0	0	0	4022	933	33	2	887	2	CTPS	1	41461729	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	7458682	41461729	207788892	6	11287										
PARS2	25973	broad.mit.edu	37	chr1	55223696	55223696	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aggccgcctgctccttactgCccttcttaggggggatgagg	14	12	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:55223696C>T	uc001cxy.2	-	2	1222	c.1139G>A	c.(1138-1140)GGC>GAC	p.G380D		NM_152268	NP_689481	Q7L3T8	SYPM_HUMAN	prolyl-tRNA synthetase (mitochondrial)(putative)	380					prolyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|proline-tRNA ligase activity			ovary(2)	2					L-Proline(DB00172)	CTCCTTACTGCCCTTCTTAGG	0.607													3	64	---	---	---	---	PASS	T	55223696	T	T	55223696	3	4	26	1	0	0	0	0	1	0	0	0	11467	739	26	3	292	3	PARS2	1	55223696	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	13761967	55223696	194026925	7	11288										
WLS	79971	broad.mit.edu	37	chr1	68697929	68697929	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tggaacacgagcagaatcccAccaacaatgcacagcttctt	7	13	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:68697929A>G	uc001def.1	-	1	325	c.54T>C	c.(52-54)GGT>GGC	p.G18G	WLS_uc001dee.2_Silent_p.G18G|WLS_uc001deg.1_Silent_p.G18G|WLS_uc001deh.1_Silent_p.G18G	NM_024911	NP_079187	Q5T9L3	WLS_HUMAN	G protein-coupled receptor 177 isoform 1	18					multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0						GCAGAATCCCACCAACAATGC	0.468													6	43	---	---	---	---	PASS	G	68697929	G	G	68697929	2	3	26	1	0	0	0	0	0	0	0	1	17373	146	6	5		5	WLS	1	68697929	Silent	SNP	A	TCGA-21-5784-01A-01D-1632-08	13474233	68697929	180552692	8	11289										
LRRC8C	84230	broad.mit.edu	37	chr1	90179820	90179820	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tcaggcagtggttgatgtttCcagccatctccagaagatgt	11	9	2	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:90179820C>T	uc001dnl.3	+	3	1933	c.1691C>T	c.(1690-1692)TCC>TTC	p.S564F		NM_032270	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member	564						endoplasmic reticulum membrane|integral to membrane				ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		GTTGATGTTTCCAGCCATCTC	0.448													4	55	---	---	---	---	PASS	T	90179820	T	T	90179820	3	4	26	1	0	0	0	0	1	0	0	0	9023	855	30	2	1697	2	LRRC8C	1	90179820	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	21481891	90179820	159070801	9	11290										
KCNC4	3749	broad.mit.edu	37	chr1	110754586	110754586	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cggcagcaccgcgacgccgaGgaggcgctcgacatcttcga	14	15	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:110754586G>A	uc001dzh.2	+	1	522	c.465G>A	c.(463-465)GAG>GAA	p.E155E	KCNC4_uc001dzf.2_Silent_p.E155E|KCNC4_uc009wfr.2_Silent_p.E155E|KCNC4_uc001dzg.2_Silent_p.E155E|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	155	Cytoplasmic (Potential).				synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		all_cancers(81;9.88e-06)|all_epithelial(167;3.23e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0238)|all cancers(265;0.0693)|Epithelial(280;0.0748)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.135)		GCGACGCCGAGGAGGCGCTCG	0.716													3	15	---	---	---	---	PASS	A	110754586	A	A	110754586	2	1	26	1	0	0	0	0	0	0	0	1	8017	991	35	3		3	KCNC4	1	110754586	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	20574766	110754586	138496035	10	11291										
CHI3L2	1117	broad.mit.edu	37	chr1	111777527	111777527	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cactcgtattgcttctttccAggttccaccctatggtggat	8	12	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:111777527A>G	uc001eam.2	+	5	401	c.330_splice	c.e5-2	p.G110_splice	CHI3L2_uc001ean.2_Splice_Site_p.G100_splice|CHI3L2_uc001eao.2_Splice_Site_p.G31_splice|CHI3L2_uc009wga.2_Splice_Site_p.G31_splice	NM_004000	NP_003991	Q15782	CH3L2_HUMAN	chitinase 3-like 2 isoform a						chitin catabolic process	extracellular space	cation binding|chitinase activity			central_nervous_system(1)	1		all_cancers(81;1.89e-05)|all_epithelial(167;7.36e-06)|all_lung(203;0.00018)|Lung NSC(277;0.000359)		Lung(183;0.0171)|Colorectal(144;0.0387)|all cancers(265;0.0464)|LUSC - Lung squamous cell carcinoma(189;0.0872)|Epithelial(280;0.0994)|COAD - Colon adenocarcinoma(174;0.141)		GCTTCTTTCCAGGTTCCACCC	0.398													4	46	---	---	---	---	PASS	G	111777527	G	G	111777527	5	3	26	1	0	0	0	0	0	0	1	0	3341	202	7	5	346	5	CHI3L2	1	111777527	Splice_Site	SNP	A	TCGA-21-5784-01A-01D-1632-08	1022941	111777527	137473094	11	11292										
NOTCH2	4853	broad.mit.edu	37	chr1	120465271	120465271	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ccactcactgacgacagacaCaagagggtatgacagggtcc	11	12	1	4			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:120465271C>A	uc001eik.2	-	27	5246	c.4990G>T	c.(4990-4992)GTG>TTG	p.V1664L		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1664	Negative regulatory region (NRR).|Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACGACAGACACAAGAGGGTAT	0.517			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				6	65	---	---	---	---	PASS	A	120465271	A	A	120465271	3	1	26	1	0	0	0	0	1	0	0	0	10548	478	17	3	2457	3	NOTCH2	1	120465271	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	8687744	120465271	128785350	12	11293										
HIST2H2BF	440689	broad.mit.edu	37	chr1	149783657	149783657	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aggcgggacgcctctcccgcGatgcgctcgaagatgtcgtt	14	13	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:149783657G>A	uc001esr.2	-	1	272	c.222C>T	c.(220-222)ATC>ATT	p.I74I	HIST2H2BF_uc010pbj.1_Silent_p.I74I|HIST2H2BF_uc010pbk.1_Silent_p.I74I	NM_001024599	NP_001019770	Q5QNW6	H2B2F_HUMAN	histone cluster 2, H2bf isoform a	74					nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)					CCTCTCCCGCGATGCGCTCGA	0.642													7	115	---	---	---	---	PASS	A	149783657	A	A	149783657	2	1	26	1	0	0	0	0	0	0	0	1	7180	1048	37	2		2	HIST2H2BF	1	149783657	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	29318386	149783657	99466964	13	11294										
FLG2	388698	broad.mit.edu	37	chr1	152327943	152327943	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gactgacttgagccagaactGtgttggccatagctagactg	12	9	0	4			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:152327943G>T	uc001ezw.3	-	3	2392	c.2319C>A	c.(2317-2319)CAC>CAA	p.H773Q	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	773	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGCCAGAACTGTGTTGGCCAT	0.512													73	238	---	---	---	---	PASS	T	152327943	T	T	152327943	3	4	26	1	0	0	0	0	1	0	0	0	5923	1368	48	3	4860	3	FLG2	1	152327943	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	2544286	152327943	96922678	14	11295										
SH2D2A	9047	broad.mit.edu	37	chr1	156779583	156779583	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cttcggtcctcagggaaagtCctgcaggctcaggagtctgc	13	12	3	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:156779583C>T	uc001fqd.2	-	6	724	c.584G>A	c.(583-585)GGA>GAA	p.G195E	SH2D2A_uc001fqc.1_Missense_Mutation_p.G167E|SH2D2A_uc009wsh.2_Missense_Mutation_p.G205E|SH2D2A_uc001fqe.2_Missense_Mutation_p.G177E|SH2D2A_uc010phs.1_Missense_Mutation_p.G195E	NM_003975	NP_003966	Q9NP31	SH22A_HUMAN	SH2 domain protein 2A isoform 2	195	Pro-rich.				angiogenesis|cell differentiation|signal transduction	cytoplasm|soluble fraction	SH3 domain binding|SH3/SH2 adaptor activity				0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CAGGGAAAGTCCTGCAGGCTC	0.557													12	118	---	---	---	---	PASS	T	156779583	T	T	156779583	3	4	26	1	0	0	0	0	1	0	0	0	14232	855	30	2	597	2	SH2D2A	1	156779583	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	4451640	156779583	92471038	15	11296										
FCRL5	83416	broad.mit.edu	37	chr1	157508921	157508921	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	actgcgctgggggccaaagcCattgtcagctgtgcagtagt	14	10	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:157508921C>A	uc001fqu.2	-	7	1515	c.1357G>T	c.(1357-1359)GGC>TGC	p.G453C	FCRL5_uc009wsm.2_Missense_Mutation_p.G453C|FCRL5_uc010phv.1_Missense_Mutation_p.G453C|FCRL5_uc010phw.1_Missense_Mutation_p.G368C|FCRL5_uc001fqv.1_Missense_Mutation_p.G453C|FCRL5_uc010phx.1_Missense_Mutation_p.G204C	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	453	Extracellular (Potential).|Ig-like C2-type 4.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				GGGCCAAAGCCATTGTCAGCT	0.597													4	42	---	---	---	---	PASS	A	157508921	A	A	157508921	3	1	26	1	0	0	0	0	1	0	0	0	5798	594	21	3	1620	3	FCRL5	1	157508921	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	729338	157508921	91741700	16	11297										
FCRL2	79368	broad.mit.edu	37	chr1	157737267	157737267	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgcagcctgggccccaggagAcctgagggtgaggacagggc	18	11	0	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:157737267A>T	uc001fre.2	-	6	975	c.916T>A	c.(916-918)TCT>ACT	p.S306T	FCRL2_uc001frd.2_Missense_Mutation_p.S53T|FCRL2_uc010phz.1_Missense_Mutation_p.S306T|FCRL2_uc009wsp.2_Intron	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	306	Ig-like C2-type 4.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GCCCCAGGAGACCTGAGGGTG	0.537													12	56	---	---	---	---	PASS	T	157737267	T	T	157737267	3	4	26	1	0	0	0	0	1	0	0	0	5795	275	10	5	638	5	FCRL2	1	157737267	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	228346	157737267	91513354	17	11298										
CD1B	910	broad.mit.edu	37	chr1	158300799	158300799	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttgagtttgtgcccaggtacTattggtaaaggacgaggtct	13	6	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:158300799T>C	uc001frx.2	-	2	223	c.115A>G	c.(115-117)AGT>GGT	p.S39G	CD1B_uc001frw.2_Translation_Start_Site|CD1B_uc010pic.1_Missense_Mutation_p.S39G	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	39	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					GCCCAGGTACTATTGGTAAAG	0.502													56	165	---	---	---	---	PASS	C	158300799	C	C	158300799	3	2	26	1	0	0	0	0	1	0	0	0	2975	1522	53	5	906	5	CD1B	1	158300799	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	563532	158300799	90949822	18	11299										
SPTA1	6708	broad.mit.edu	37	chr1	158627340	158627340	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tctctctgatccatgtttctGcttcatgcaggtcagccagg	9	12	5	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:158627340G>C	uc001fst.1	-	19	2931	c.2732C>G	c.(2731-2733)GCA>GGA	p.A911G		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	911	Spectrin 10.				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)					CCATGTTTCTGCTTCATGCAG	0.473													23	115	---	---	---	---	PASS	C	158627340	C	C	158627340	3	2	26	1	0	0	0	0	1	0	0	0	15115	1319	46	4	4663	4	SPTA1	1	158627340	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	326541	158627340	90623281	19	11300										
PYHIN1	149628	broad.mit.edu	37	chr1	158908926	158908926	+	Missense_Mutation	SNP	A	T	T													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aaaaggagtaagatgtccaaAgagcagactcggccttcctg							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:158908926A>T	uc001ftb.2	+	4	713	c.468A>T	c.(466-468)AAA>AAT	p.K156N	PYHIN1_uc001fta.3_Missense_Mutation_p.K156N|PYHIN1_uc001ftc.2_Missense_Mutation_p.K147N|PYHIN1_uc001ftd.2_Missense_Mutation_p.K156N|PYHIN1_uc001fte.2_Missense_Mutation_p.K147N	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	156					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					AGATGTCCAAAGAGCAGACTC	0.468													13	49	---	---	---	---	PASS	T	158908926	T	T	158908926	3	4	26	1	0	0	0	0	1	0	0	0	12865	69	3	5	478	5	PYHIN1	1	158908926	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	281586	158908926	90341695	20	11301	310	2								
PYHIN1	149628	broad.mit.edu	37	chr1	158908927	158908927	+	Nonsense_Mutation	SNP	G	T	T													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aaaggagtaagatgtccaaaGagcagactcggccttcctgc							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:158908927G>T	uc001ftb.2	+	4	714	c.469G>T	c.(469-471)GAG>TAG	p.E157*	PYHIN1_uc001fta.3_Nonsense_Mutation_p.E157*|PYHIN1_uc001ftc.2_Nonsense_Mutation_p.E148*|PYHIN1_uc001ftd.2_Nonsense_Mutation_p.E157*|PYHIN1_uc001fte.2_Nonsense_Mutation_p.E148*	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	157					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					GATGTCCAAAGAGCAGACTCG	0.473													12	48	---	---	---	---	PASS	T	158908927	T	T	158908927	4	4	26	1	0	0	0	0	0	1	0	0	12865	943	33	2	479	2	PYHIN1	1	158908927	Nonsense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	1	158908927	90341694	21	11302	310	2								
ATP1A4	480	broad.mit.edu	37	chr1	160137139	160137139	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cagtcttacagctctgtggcGgagatgagagagaaaaaccc	12	9	2	3	rs141489030		TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:160137139G>A	uc001fve.3	+	10	1907	c.1428G>A	c.(1426-1428)GCG>GCA	p.A476A	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_5'UTR	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	476	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GCTCTGTGGCGGAGATGAGAG	0.517													5	128	---	---	---	---	PASS	A	160137139	A	A	160137139	2	1	26	1	0	0	0	0	0	0	0	1	1131	1103	39	1		1	ATP1A4	1	160137139	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	1228212	160137139	89113482	22	11303										
COPA	1314	broad.mit.edu	37	chr1	160262293	160262293	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ccagttgcgattaggatagcCatacatggagggtaggcagg	15	7	0	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:160262293C>A	uc009wti.2	-	28	3335	c.2941G>T	c.(2941-2943)GGC>TGC	p.G981C	COPA_uc001fvv.3_Missense_Mutation_p.G990C	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	981					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TTAGGATAGCCATACATGGAG	0.502													6	95	---	---	---	---	PASS	A	160262293	A	A	160262293	3	1	26	1	0	0	0	0	1	0	0	0	3727	594	21	3	757	3	COPA	1	160262293	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	125154	160262293	88988328	23	11304										
NCSTN	23385	broad.mit.edu	37	chr1	160314557	160314557	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gaggaagatatatatcccctTaaataaaacagctccctgtg	7	9	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:160314557T>A	uc001fvx.2	+	2	255	c.131T>A	c.(130-132)TTA>TAA	p.L44*	COPA_uc009wti.2_5'Flank|COPA_uc001fvv.3_5'Flank|COPA_uc009wtj.1_5'Flank|NCSTN_uc009wtk.1_RNA|NCSTN_uc001fvy.2_Nonsense_Mutation_p.L24*|NCSTN_uc010pjf.1_Nonsense_Mutation_p.L44*	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	44	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TATATCCCCTTAAATAAAACA	0.428													4	47	---	---	---	---	PASS	A	160314557	A	A	160314557	4	1	26	1	0	0	0	0	0	1	0	0	10241	1764	61	5	137	5	NCSTN	1	160314557	Nonsense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	52264	160314557	88936064	24	11305										
TNN	63923	broad.mit.edu	37	chr1	175046900	175046900	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tggcccgggtgaagaagctgGaggaagagatggtggagatg	20	4	0	4			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:175046900G>A	uc001gkl.1	+	2	459	c.346G>A	c.(346-348)GAG>AAG	p.E116K	TNN_uc010pmx.1_Missense_Mutation_p.E116K	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	116					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GAAGAAGCTGGAGGAAGAGAT	0.532													3	17	---	---	---	---	PASS	A	175046900	A	A	175046900	3	1	26	1	0	0	0	0	1	0	0	0	16320	1175	41	2	348	2	TNN	1	175046900	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	14732343	175046900	74203721	25	11306										
ASTN1	460	broad.mit.edu	37	chr1	176838058	176838058	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggttatagtggtagaggaccCggtgtaaggtgggggaaccc	18	6	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:176838058C>A	uc001glc.2	-	22	3781	c.3569G>T	c.(3568-3570)CGG>CTG	p.R1190L	ASTN1_uc001glb.1_Missense_Mutation_p.R1190L|ASTN1_uc001gld.1_Missense_Mutation_p.R1190L	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	1198					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GTAGAGGACCCGGTGTAAGGT	0.498													11	52	---	---	---	---	PASS	A	176838058	A	A	176838058	3	1	26	1	0	0	0	0	1	0	0	0	1064	652	23	1	327	1	ASTN1	1	176838058	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	1791158	176838058	72412563	26	11307										
FAM5B	57795	broad.mit.edu	37	chr1	177250530	177250530	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctggcaaagtccgacttgacCttttctcctgcttgctccgg	9	14	1	1	rs147964469	by1000genomes	TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:177250530C>A	uc001glf.2	+	8	2530	c.2218C>A	c.(2218-2220)CTT>ATT	p.L740I	FAM5B_uc001glg.2_Missense_Mutation_p.L635I	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	740						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CCGACTTGACCTTTTCTCCTG	0.552													5	51	---	---	---	---	PASS	A	177250530	A	A	177250530	3	1	26	1	0	0	0	0	1	0	0	0	5593	681	24	3	2244	3	FAM5B	1	177250530	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	412472	177250530	72000091	27	11308										
TPR	7175	broad.mit.edu	37	chr1	186304493	186304493	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	attagaaggttcttgaggctCatctctctgctcaaggtgtc	10	9	5	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:186304493C>T	uc001grv.2	-	34	5185	c.4888G>A	c.(4888-4890)GAG>AAG	p.E1630K		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1630	Potential.				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)		TCTTGAGGCTCATCTCTCTGC	0.393			T	NTRK1	papillary thyroid								8	92	---	---	---	---	PASS	T	186304493	T	T	186304493	3	4	26	1	0	0	0	0	1	0	0	0	16413	835	29	2	2275	2	TPR	1	186304493	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	9053963	186304493	62946128	28	11309										
FAM5C	339479	broad.mit.edu	37	chr1	190067166	190067166	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggttaactacataatttggtCgtgtcataatccattgtgtt	8	6	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:190067166C>G	uc001gse.1	-	8	2515	c.2283G>C	c.(2281-2283)ACG>ACC	p.T761T	FAM5C_uc010pot.1_Silent_p.T659T	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	761						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					ATAATTTGGTCGTGTCATAAT	0.393													23	110	---	---	---	---	PASS	G	190067166	G	G	190067166	2	3	26	1	0	0	0	0	0	0	0	1	5594	871	31	2		2	FAM5C	1	190067166	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	3762673	190067166	59183455	29	11310										
UCHL5	51377	broad.mit.edu	37	chr1	192998516	192998516	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	atttaacataaagtctctttAcctggcgaaactgttgtgta	7	7	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:192998516A>T	uc001gsm.2	-	5	565	c.434_splice	c.e5+1	p.R145_splice	UCHL5_uc001gsn.2_Splice_Site|UCHL5_uc001gso.2_Splice_Site_p.R145_splice|UCHL5_uc010pov.1_Intron|UCHL5_uc001gsp.2_Splice_Site_p.R145_splice|UCHL5_uc001gsq.2_Splice_Site_p.R145_splice|UCHL5_uc010pow.1_Splice_Site_p.R21_splice|UCHL5_uc010pox.1_Splice_Site_p.R21_splice	NM_015984	NP_057068	Q9Y5K5	UCHL5_HUMAN	ubiquitin carboxyl-terminal hydrolase L5						DNA recombination|DNA repair|protein deubiquitination|regulation of proteasomal protein catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytosol|Ino80 complex|proteasome complex	endopeptidase inhibitor activity|omega peptidase activity|proteasome binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|ovary(1)	3						AAGTCTCTTTACCTGGCGAAA	0.299													9	31	---	---	---	---	PASS	T	192998516	T	T	192998516	5	4	26	1	0	0	0	0	0	0	1	0	16919	405	14	5	581	5	UCHL5	1	192998516	Splice_Site	SNP	A	TCGA-21-5784-01A-01D-1632-08	2931350	192998516	56252105	30	11311										
CRB1	23418	broad.mit.edu	37	chr1	197390837	197390837	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgaccagcaatggtgttgctCtgcttaacttctataatatg	8	8	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:197390837C>A	uc001gtz.2	+	6	2014	c.1879C>A	c.(1879-1881)CTG>ATG	p.L627M	CRB1_uc010poz.1_Missense_Mutation_p.L558M|CRB1_uc010ppa.1_Intron|CRB1_uc009wza.2_Missense_Mutation_p.L515M|CRB1_uc010ppb.1_Missense_Mutation_p.L627M|CRB1_uc010ppc.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.L108M|CRB1_uc001gub.1_Missense_Mutation_p.L276M	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	627	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TGGTGTTGCTCTGCTTAACTT	0.418													7	124	---	---	---	---	PASS	A	197390837	A	A	197390837	3	1	26	1	0	0	0	0	1	0	0	0	3848	912	32	2	1901	2	CRB1	1	197390837	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	4392321	197390837	51859784	31	11312										
CACNA1S	779	broad.mit.edu	37	chr1	201021734	201021734	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggtctggaagttgttgttccGgtttatttgggtcccatcca	12	8	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:201021734G>T	uc001gvv.2	-	32	4131	c.3904C>A	c.(3904-3906)CGG>AGG	p.R1302R		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1302	Extracellular (Potential).|IV.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TTGTTGTTCCGGTTTATTTGG	0.557													13	59	---	---	---	---	PASS	T	201021734	T	T	201021734	2	4	26	1	0	0	0	0	0	0	0	1	2547	1115	39	1		1	CACNA1S	1	201021734	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	3630897	201021734	48228887	32	11313										
ATP2B4	493	broad.mit.edu	37	chr1	203678504	203678504	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctctgctaggctttgtcacaGatctgaagcaggattatcag	10	9	4	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:203678504G>A	uc001gzw.2	+	11	2517	c.1633G>A	c.(1633-1635)GAT>AAT	p.D545N	ATP2B4_uc001gzv.2_Missense_Mutation_p.D545N|ATP2B4_uc009xaq.2_Missense_Mutation_p.D545N	NM_001684	NP_001675	P23634	AT2B4_HUMAN	plasma membrane calcium ATPase 4 isoform 4b	545	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|skin(1)	3	all_cancers(21;0.071)|all_epithelial(62;0.228)		BRCA - Breast invasive adenocarcinoma(75;0.109)			CTTTGTCACAGATCTGAAGCA	0.532													11	70	---	---	---	---	PASS	A	203678504	A	A	203678504	3	1	26	1	0	0	0	0	1	0	0	0	1142	942	33	2	1671	2	ATP2B4	1	203678504	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	2656770	203678504	45572117	33	11314										
OR2M2	391194	broad.mit.edu	37	chr1	248343741	248343741	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctaccttctcctggatcctgGgctctacagatggaatcatt	8	12	3	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr1:248343741G>A	uc010pzf.1	+	1	454	c.454G>A	c.(454-456)GGC>AGC	p.G152S		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CTGGATCCTGGGCTCTACAGA	0.443													69	252	---	---	---	---	PASS	A	248343741	A	A	248343741	3	1	26	1	0	0	0	0	1	0	0	0	11010	1232	43	3	456	3	OR2M2	1	248343741	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	44665237	248343741	906880	34	11315										
LPIN1	23175	broad.mit.edu	37	chr2	11911570	11911570	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cgagaatggaatgccagctgAaaaggggctctgtggacagg	16	7	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:11911570A>T	uc010yjn.1	+	5	635	c.361A>T	c.(361-363)AAA>TAA	p.K121*	LPIN1_uc010yjm.1_Nonsense_Mutation_p.K170*|LPIN1_uc002rbt.2_Nonsense_Mutation_p.K121*|LPIN1_uc002rbs.2_Nonsense_Mutation_p.K121*	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	121					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		ATGCCAGCTGAAAAGGGGCTC	0.532													4	33	---	---	---	---	PASS	T	11911570	T	T	11911570	4	4	26	1	0	0	0	0	0	1	0	0	8918	247	9	5	371	5	LPIN1	2	11911570	Nonsense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08		11911570	231287803	35	11316										
HEATR5B	54497	broad.mit.edu	37	chr2	37241016	37241016	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tttgagaacagccagtttttCcatggtcgtggcactctctc	9	11	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:37241016C>G	uc002rpp.1	-	27	4348	c.4252G>C	c.(4252-4254)GAA>CAA	p.E1418Q	HEATR5B_uc010ezy.1_Missense_Mutation_p.E2Q|HEATR5B_uc002rpq.3_Missense_Mutation_p.E2Q	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1418							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				GCCAGTTTTTCCATGGTCGTG	0.448													5	72	---	---	---	---	PASS	G	37241016	G	G	37241016	3	3	26	1	0	0	0	0	1	0	0	0	7032	864	30	2	2003	2	HEATR5B	2	37241016	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	25329446	37241016	205958357	36	11317										
SLC8A1	6546	broad.mit.edu	37	chr2	40656383	40656383	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acttggtagttagctaattcTattaattgctctatttcttt	5	6	3	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:40656383T>C	uc002rrx.2	-	1	1062	c.1038A>G	c.(1036-1038)ATA>ATG	p.I346M	SLC8A1_uc002rry.2_Missense_Mutation_p.I346M|SLC8A1_uc002rrz.2_Missense_Mutation_p.I346M|SLC8A1_uc002rsa.2_Missense_Mutation_p.I346M|SLC8A1_uc002rsd.3_Missense_Mutation_p.I346M|SLC8A1_uc002rsb.1_Missense_Mutation_p.I346M|SLC8A1_uc010fan.1_Missense_Mutation_p.I346M|SLC8A1_uc002rsc.1_Missense_Mutation_p.I346M	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	346	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	TAGCTAATTCTATTAATTGCT	0.403													11	119	---	---	---	---	PASS	C	40656383	C	C	40656383	3	2	26	1	0	0	0	0	1	0	0	0	14706	1512	53	5	2031	5	SLC8A1	2	40656383	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	3415367	40656383	202542990	37	11318										
SPTBN1	6711	broad.mit.edu	37	chr2	54870178	54870178	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggacatgtcttacgatgaagCcagaaatctgcacagtaaat	9	8	2	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:54870178C>G	uc002rxu.2	+	19	4166	c.3917C>G	c.(3916-3918)GCC>GGC	p.A1306G	SPTBN1_uc002rxx.2_Missense_Mutation_p.A1293G	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1306	Spectrin 10.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			TACGATGAAGCCAGAAATCTG	0.423													3	66	---	---	---	---	PASS	G	54870178	G	G	54870178	3	3	26	1	0	0	0	0	1	0	0	0	15118	739	26	4	4100	4	SPTBN1	2	54870178	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	14213795	54870178	188329195	38	11319										
R3HDM1	23518	broad.mit.edu	37	chr2	136409402	136409402	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgttccagtccactgtggttCttcagtctccacagcagtct	8	13	4	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:136409402C>T	uc002tuo.2	+	17	2093	c.1723C>T	c.(1723-1725)CTT>TTT	p.L575F	R3HDM1_uc010fni.2_Missense_Mutation_p.L574F|R3HDM1_uc002tup.2_Missense_Mutation_p.L520F|R3HDM1_uc010zbh.1_Missense_Mutation_p.L323F	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	575							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		CACTGTGGTTCTTCAGTCTCC	0.373													18	145	---	---	---	---	PASS	T	136409402	T	T	136409402	3	4	26	1	0	0	0	0	1	0	0	0	12887	913	32	2	1781	2	R3HDM1	2	136409402	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	81539224	136409402	106789971	39	11320										
LRP1B	53353	broad.mit.edu	37	chr2	141232732	141232732	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgtctatgagatccatccatGttgctaaattcaatgtgatt	7	7	2	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:141232732G>T	uc002tvj.1	-	60	10572	c.9600C>A	c.(9598-9600)AAC>AAA	p.N3200K		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3200	Extracellular (Potential).|LDL-receptor class B 31.				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)		ATCCATCCATGTTGCTAAATT	0.299										TSP Lung(27;0.18)			7	70	---	---	---	---	PASS	T	141232732	T	T	141232732	3	4	26	1	0	0	0	0	1	0	0	0	8955	1368	48	3	4327	3	LRP1B	2	141232732	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	4823330	141232732	101966641	40	11321										
MBD5	55777	broad.mit.edu	37	chr2	149226272	149226272	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctgatgttttcacaagaagtAatcctggttttcatggagct	9	7	2	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:149226272A>T	uc002twm.3	+	9	1748	c.760A>T	c.(760-762)AAT>TAT	p.N254Y	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.N254Y|MBD5_uc002twn.1_5'Flank	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	254						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		CACAAGAAGTAATCCTGGTTT	0.473													7	96	---	---	---	---	PASS	T	149226272	T	T	149226272	3	4	26	1	0	0	0	0	1	0	0	0	9347	362	13	5	774	5	MBD5	2	149226272	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	7993540	149226272	93973101	41	11322										
NEB	4703	broad.mit.edu	37	chr2	152501057	152501057	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggaagatcgtaaccttttctCttcagctcctcataacccat	5	13	3	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:152501057C>A	uc010fnx.2	-	56	7760	c.7569G>T	c.(7567-7569)AAG>AAT	p.K2523N		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2523					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		AACCTTTTCTCTTCAGCTCCT	0.383													6	68	---	---	---	---	PASS	A	152501057	A	A	152501057	3	1	26	1	0	0	0	0	1	0	0	0	10302	912	32	2	18625	2	NEB	2	152501057	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	3274785	152501057	90698316	42	11323										
SCN3A	6328	broad.mit.edu	37	chr2	165984203	165984203	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	agtatttaagttttcaaagtCagactctccaacagcaattg	6	8	3	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:165984203C>A	uc002ucx.2	-	18	3823	c.3331G>T	c.(3331-3333)GAC>TAC	p.D1111Y	SCN3A_uc002ucy.2_Missense_Mutation_p.D1062Y|SCN3A_uc002ucz.2_Missense_Mutation_p.D1062Y|SCN3A_uc002uda.1_Missense_Mutation_p.D931Y|SCN3A_uc002udb.1_Missense_Mutation_p.D931Y	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1111						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	TTTTCAAAGTCAGACTCTCCA	0.363													4	82	---	---	---	---	PASS	A	165984203	A	A	165984203	3	1	26	1	0	0	0	0	1	0	0	0	13918	826	29	2	2715	2	SCN3A	2	165984203	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	13483146	165984203	77215170	43	11324										
SCN1A	6323	broad.mit.edu	37	chr2	166892650	166892650	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tacagcaattggtacagtcaCagtaagactggggttgttta	11	6	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:166892650C>T	uc010zcz.1	-	16	3322	c.3304G>A	c.(3304-3306)GTG>ATG	p.V1102M	SCN1A_uc002udo.3_Missense_Mutation_p.V982M|SCN1A_uc010fpk.2_Missense_Mutation_p.V954M	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1113						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GGTACAGTCACAGTAAGACTG	0.363													7	85	---	---	---	---	PASS	T	166892650	T	T	166892650	3	4	26	1	0	0	0	0	1	0	0	0	13914	478	17	3	2736	3	SCN1A	2	166892650	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	908447	166892650	76306723	44	11325										
ITGA6	3655	broad.mit.edu	37	chr2	173349564	173349564	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aagaaaatctgggctatcctCaagagttcagtttcgaaacc	8	9	3	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:173349564C>G	uc002uhp.1	+	12	1807	c.1604C>G	c.(1603-1605)TCA>TGA	p.S535*	ITGA6_uc010zdy.1_Nonsense_Mutation_p.S416*|ITGA6_uc002uho.1_Nonsense_Mutation_p.S535*|ITGA6_uc010fqm.1_Nonsense_Mutation_p.S181*	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a	574	Extracellular (Potential).				blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			GGGCTATCCTCAAGAGTTCAG	0.393													4	61	---	---	---	---	PASS	G	173349564	G	G	173349564	4	3	26	1	0	0	0	0	0	1	0	0	7880	838	29	2	1650	2	ITGA6	2	173349564	Nonsense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	6456914	173349564	69849809	45	11326										
TTN	7273	broad.mit.edu	37	chr2	179574506	179574506	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggaaccagccacacgtccctCaagtttgaaagaattccctt	7	13	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:179574506C>T	uc010zfg.1	-	96	25032	c.24808G>A	c.(24808-24810)GAG>AAG	p.E8270K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E4931K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9197							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)			ACACGTCCCTCAAGTTTGAAA	0.383													11	75	---	---	---	---	PASS	T	179574506	T	T	179574506	3	4	26	1	0	0	0	0	1	0	0	0	16732	835	29	2	76045	2	TTN	2	179574506	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	6224942	179574506	63624867	46	11327										
TTN	7273	broad.mit.edu	37	chr2	179590615	179590615	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aatacttgtgtggaagttttTggatgcaatcttgtatttct	9	4	2	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:179590615T>A	uc010zfg.1	-	67	16926	c.16702A>T	c.(16702-16704)AAA>TAA	p.K5568*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.K2229*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6495							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)			TGGAAGTTTTTGGATGCAATC	0.433													3	36	---	---	---	---	PASS	A	179590615	A	A	179590615	4	1	26	1	0	0	0	0	0	1	0	0	16732	1821	63	5	84267	5	TTN	2	179590615	Nonsense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	16109	179590615	63608758	47	11328										
TTN	7273	broad.mit.edu	37	chr2	179632624	179632624	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gatgggatcagaaggcggtgGacatatttctccttctgaat	12	7	3	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:179632624G>C	uc010zfg.1	-	40	9557	c.9333C>G	c.(9331-9333)GTC>GTG	p.V3111V	TTN_uc010zfh.1_Silent_p.V3065V|TTN_uc010zfi.1_Silent_p.V3065V|TTN_uc010zfj.1_Silent_p.V3065V|TTN_uc002unb.2_Silent_p.V3111V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3111							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)			GAAGGCGGTGGACATATTTCT	0.453													3	56	---	---	---	---	PASS	C	179632624	C	C	179632624	2	2	26	1	0	0	0	0	0	0	0	1	16732	1161	41	2		2	TTN	2	179632624	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	42009	179632624	63566749	48	11329										
SESTD1	91404	broad.mit.edu	37	chr2	180011185	180011185	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gaaagtttaaatccacagacCtggaaaacaccaaaggagta	8	8	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:180011185C>A	uc002uni.3	-	8	732	c.582_splice	c.e8-1	p.R194_splice		NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1						regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			ATCCACAGACCTGGAAAACAC	0.308													4	42	---	---	---	---	PASS	A	180011185	A	A	180011185	5	1	26	1	0	0	0	0	0	0	1	0	14127	695	24	3	1553	3	SESTD1	2	180011185	Splice_Site	SNP	C	TCGA-21-5784-01A-01D-1632-08	378561	180011185	63188188	49	11330										
MAP2	4133	broad.mit.edu	37	chr2	210560608	210560608	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	attcagagtgaggaagaagaGatagaagcccagggagaata	14	4	1	6			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:210560608G>A	uc002vde.1	+	7	3962	c.3714G>A	c.(3712-3714)GAG>GAA	p.E1238E	MAP2_uc002vdc.1_Silent_p.E1238E|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.E1234E	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1238					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)	AGGAAGAAGAGATAGAAGCCC	0.483													4	35	---	---	---	---	PASS	A	210560608	A	A	210560608	2	1	26	1	0	0	0	0	0	0	0	1	9235	933	33	2		2	MAP2	2	210560608	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	30549423	210560608	32638765	50	11331										
CPS1	1373	broad.mit.edu	37	chr2	211469853	211469853	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctatgaccaaccaaattctgGtggagaagtcagtgacaggt	11	8	2	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:211469853G>C	uc002vee.3	+	17	1996	c.1864G>C	c.(1864-1866)GTG>CTG	p.V622L	CPS1_uc010fur.2_Missense_Mutation_p.V628L|CPS1_uc010fus.2_Missense_Mutation_p.V171L	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	622	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)		CCAAATTCTGGTGGAGAAGTC	0.383													7	59	---	---	---	---	PASS	C	211469853	C	C	211469853	3	2	26	1	0	0	0	0	1	0	0	0	3823	1261	44	4	1952	4	CPS1	2	211469853	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	909245	211469853	31729520	51	11332										
SPHKAP	80309	broad.mit.edu	37	chr2	228884364	228884364	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgagataatctaataaatgcAtcctgcagcacggattctgc	8	9	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:228884364A>T	uc002vpq.2	-	7	1253	c.1206T>A	c.(1204-1206)GAT>GAA	p.D402E	SPHKAP_uc002vpp.2_Missense_Mutation_p.D402E|SPHKAP_uc010zlx.1_Missense_Mutation_p.D402E	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	402						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TAATAAATGCATCCTGCAGCA	0.448													8	76	---	---	---	---	PASS	T	228884364	T	T	228884364	3	4	26	1	0	0	0	0	1	0	0	0	15047	214	8	5	3920	5	SPHKAP	2	228884364	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	17414511	228884364	14315009	52	11333										
COL6A3	1293	broad.mit.edu	37	chr2	238249779	238249779	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gccaaatccacaggatgggtCgatgttgcagatgtctagaa	12	8	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr2:238249779C>T	uc002vwl.2	-	38	8065	c.7780G>A	c.(7780-7782)GAC>AAC	p.D2594N	COL6A3_uc002vwo.2_Missense_Mutation_p.D2388N|COL6A3_uc010znj.1_Missense_Mutation_p.D1987N|COL6A3_uc002vwj.2_5'UTR	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2594	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CAGGATGGGTCGATGTTGCAG	0.532													5	76	---	---	---	---	PASS	T	238249779	T	T	238249779	3	4	26	1	0	0	0	0	1	0	0	0	3701	884	31	2	1781	2	COL6A3	2	238249779	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	9365415	238249779	4949594	53	11334										
TRANK1	9881	broad.mit.edu	37	chr3	36872686	36872686	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gccctggaaaggactgccacCtcggaagctgccccctcaaa	10	16	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr3:36872686C>T	uc003cgj.2	-	12	6908	c.6606G>A	c.(6604-6606)GAG>GAA	p.E2202E		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2752					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						GGACTGCCACCTCGGAAGCTG	0.562													16	39	---	---	---	---	PASS	T	36872686	T	T	36872686	2	4	26	1	0	0	0	0	0	0	0	1	16451	680	24	3		3	TRANK1	3	36872686	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08		36872686	161149744	54	11335										
NISCH	11188	broad.mit.edu	37	chr3	52526102	52526102	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cccctgcgccccaagacactCctgctcaccagctccgagat	7	20	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr3:52526102C>G	uc011beg.1	+	22	4191	c.4119C>G	c.(4117-4119)CTC>CTG	p.L1373L	NISCH_uc003ded.3_Silent_p.L1373L|NISCH_uc003dee.3_Silent_p.L862L|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_Silent_p.L122L	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	1373					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		CCAAGACACTCCTGCTCACCA	0.652													7	40	---	---	---	---	PASS	G	52526102	G	G	52526102	2	3	26	1	0	0	0	0	0	0	0	1	10432	842	30	2		2	NISCH	3	52526102	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	15653416	52526102	145496328	55	11336										
PXK	54899	broad.mit.edu	37	chr3	58381473	58381473	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gcaaataaaaacatatggacGgcaaatattagaggtaagag	10	4	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr3:58381473G>T	uc003djz.1	+	9	908	c.809G>T	c.(808-810)CGG>CTG	p.R270L	PXK_uc003djx.1_Missense_Mutation_p.R270L|PXK_uc003djy.1_Missense_Mutation_p.R253L|PXK_uc003dka.1_Missense_Mutation_p.R270L|PXK_uc003dkb.1_Missense_Mutation_p.R187L|PXK_uc003dkc.1_Missense_Mutation_p.R253L|PXK_uc011bfe.1_Missense_Mutation_p.R237L|PXK_uc010hnj.1_Missense_Mutation_p.R237L|PXK_uc003dkd.1_Missense_Mutation_p.R133L|PXK_uc010hnk.1_Missense_Mutation_p.R44L	NM_017771	NP_060241	Q7Z7A4	PXK_HUMAN	PX domain containing serine/threonine kinase	270	Protein kinase.				cell communication|inflammatory response|negative regulation of ATPase activity|negative regulation of ion transport|regulation of synaptic transmission	centrosome|cytoplasm|nucleus|plasma membrane	actin binding|ATP binding|phosphatidylinositol binding|phosphatidylinositol binding|protein C-terminus binding|protein kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000249)|KIRC - Kidney renal clear cell carcinoma(10;0.00346)|Kidney(10;0.00368)|OV - Ovarian serous cystadenocarcinoma(275;0.22)		ACATATGGACGGCAAATATTA	0.353													7	33	---	---	---	---	PASS	T	58381473	T	T	58381473	3	4	26	1	0	0	0	0	1	0	0	0	12849	1116	39	1	843	1	PXK	3	58381473	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	5855371	58381473	139640957	56	11337										
PPP4R2	151987	broad.mit.edu	37	chr3	73114104	73114104	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgaggggcatgaggtaaaaaGactcaggtttgacaaagaag	14	4	1	5			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr3:73114104G>C	uc003dph.1	+	8	810	c.740G>C	c.(739-741)AGA>ACA	p.R247T	PPP4R2_uc003dpi.1_Missense_Mutation_p.R190T	NM_174907	NP_777567	Q9NY27	PP4R2_HUMAN	protein phosphatase 4, regulatory subunit 2	247					mRNA processing|protein modification process|regulation of double-strand break repair via homologous recombination|RNA splicing	centrosome|nucleus|protein phosphatase 4 complex	protein binding, bridging|protein phosphatase type 4 regulator activity			lung(1)	1		Prostate(10;0.0187)|Lung SC(41;0.236)		Epithelial(33;1.76e-07)|BRCA - Breast invasive adenocarcinoma(55;9.42e-05)|LUSC - Lung squamous cell carcinoma(21;0.00211)|Lung(16;0.00643)|KIRC - Kidney renal clear cell carcinoma(39;0.0164)|Kidney(39;0.0193)|OV - Ovarian serous cystadenocarcinoma(275;0.031)		GAGGTAAAAAGACTCAGGTTT	0.433													7	39	---	---	---	---	PASS	C	73114104	C	C	73114104	3	2	26	1	0	0	0	0	1	0	0	0	12404	942	33	2	770	2	PPP4R2	3	73114104	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	14732631	73114104	124908326	57	11338										
PDZRN3	23024	broad.mit.edu	37	chr3	73433601	73433601	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cttgagctgctgcatcttgtGggcgcgcacgatgctcaggc	14	12	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr3:73433601G>C	uc003dpl.1	-	10	2212	c.2116C>G	c.(2116-2118)CAC>GAC	p.H706D	PDZRN3_uc011bgh.1_Missense_Mutation_p.H363D|PDZRN3_uc010hoe.1_Missense_Mutation_p.H404D|PDZRN3_uc011bgf.1_Missense_Mutation_p.H423D|PDZRN3_uc011bgg.1_Missense_Mutation_p.H426D	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	706							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		TGCATCTTGTGGGCGCGCACG	0.617													3	37	---	---	---	---	PASS	C	73433601	C	C	73433601	3	2	26	1	0	0	0	0	1	0	0	0	11709	1348	47	4	1088	4	PDZRN3	3	73433601	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	319497	73433601	124588829	58	11339										
PROS1	5627	broad.mit.edu	37	chr3	93619761	93619761	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aaatgcttggcttcaaagagCattcatccacatctataaat	5	9	3	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr3:93619761C>A	uc003drb.3	-	7	955	c.614G>T	c.(613-615)TGC>TTC	p.C205F	PROS1_uc010hoo.2_Missense_Mutation_p.C74F|PROS1_uc003dqz.3_Missense_Mutation_p.C74F	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	205	EGF-like 3; calcium-binding (Potential).				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	CTTCAAAGAGCATTCATCCAC	0.383													11	28	---	---	---	---	PASS	A	93619761	A	A	93619761	3	1	26	1	0	0	0	0	1	0	0	0	12558	710	25	3	1452	3	PROS1	3	93619761	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	20186160	93619761	104402669	59	11340										
DCBLD2	131566	broad.mit.edu	37	chr3	98518445	98518445	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggttccccgtagccttgaaaGtggatgtggagggctgacca	15	9	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr3:98518445G>T	uc003dtd.2	-	16	2462	c.2099C>A	c.(2098-2100)ACT>AAT	p.T700N	DCBLD2_uc003dte.2_Missense_Mutation_p.T714N	NM_080927	NP_563615	Q96PD2	DCBD2_HUMAN	discoidin, CUB and LCCL domain containing 2	700	Cytoplasmic (Potential).				cell adhesion|intracellular receptor mediated signaling pathway|negative regulation of cell growth|wound healing	cell surface|integral to plasma membrane				ovary(2)|central_nervous_system(1)	3						AGCCTTGAAAGTGGATGTGGA	0.547													17	93	---	---	---	---	PASS	T	98518445	T	T	98518445	3	4	26	1	0	0	0	0	1	0	0	0	4281	1029	36	3	232	3	DCBLD2	3	98518445	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	4898684	98518445	99503985	60	11341										
ATR	545	broad.mit.edu	37	chr3	142259785	142259785	+	Missense_Mutation	SNP	C	A	A													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aatcatccttgaatcgaaggCcagttctcagtgtggtcatc							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr3:142259785C>A	uc003eux.3	-	18	3664	c.3542G>T	c.(3541-3543)GGC>GTC	p.G1181V		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1181					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						GAATCGAAGGCCAGTTCTCAG	0.383								Other_conserved_DNA_damage_response_genes					6	42	---	---	---	---	PASS	A	142259785	A	A	142259785	3	1	26	1	0	0	0	0	1	0	0	0	1204	739	26	3	4512	3	ATR	3	142259785	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	43741340	142259785	55762645	61	11342	311	2								
ATR	545	broad.mit.edu	37	chr3	142259786	142259786	+	Missense_Mutation	SNP	C	A	A													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	atcatccttgaatcgaaggcCagttctcagtgtggtcatca							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr3:142259786C>A	uc003eux.3	-	18	3663	c.3541G>T	c.(3541-3543)GGC>TGC	p.G1181C		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1181					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						AATCGAAGGCCAGTTCTCAGT	0.383								Other_conserved_DNA_damage_response_genes					6	44	---	---	---	---	PASS	A	142259786	A	A	142259786	3	1	26	1	0	0	0	0	1	0	0	0	1204	594	21	3	4513	3	ATR	3	142259786	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	1	142259786	55762644	62	11343	311	2								
HLTF	6596	broad.mit.edu	37	chr3	148786123	148786123	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	atggccgtaagagttttaccCttaaaaatgttttaaaaaga	7	5	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr3:148786123C>T	uc003ewq.1	-	8	1113	c.895_splice	c.e8-1	p.G299_splice	HLTF_uc003ewr.1_Splice_Site_p.G299_splice|HLTF_uc003ews.1_Splice_Site_p.G299_splice|HLTF_uc010hve.1_Splice_Site_p.G299_splice	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor						chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			GAGTTTTACCCTTAAAAATGT	0.333													17	127	---	---	---	---	PASS	T	148786123	T	T	148786123	5	4	26	1	0	0	0	0	0	0	1	0	7215	695	24	3	2207	3	HLTF	3	148786123	Splice_Site	SNP	C	TCGA-21-5784-01A-01D-1632-08	6526337	148786123	49236307	63	11344										
RNF13	11342	broad.mit.edu	37	chr3	149678729	149678729	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tcatttggggctttatcggaAtcccgctcacatcagaacat	8	11	3	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr3:149678729A>T	uc003exn.3	+	11	1768	c.984A>T	c.(982-984)GAA>GAT	p.E328D	RNF13_uc003exp.3_Missense_Mutation_p.E328D|RNF13_uc010hvh.2_Missense_Mutation_p.E209D	NM_007282	NP_009213	O43567	RNF13_HUMAN	ring finger protein 13	328	Cytoplasmic (Potential).				protein autoubiquitination	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane|nuclear inner membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		all_neural(597;0.0138)|Myeloproliferative disorder(1037;0.0255)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CTTTATCGGAATCCCGCTCAC	0.413													5	65	---	---	---	---	PASS	T	149678729	T	T	149678729	3	4	26	1	0	0	0	0	1	0	0	0	13437	98	4	5	1018	5	RNF13	3	149678729	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	892606	149678729	48343701	64	11345										
ZBBX	79740	broad.mit.edu	37	chr3	167016091	167016091	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gaaaaatgagctagaaatttAcctgcaagtgtaatcctagt	8	6	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr3:167016091A>T	uc003fep.2	-	18	2202	c.1879_splice	c.e18+1	p.G627_splice	ZBBX_uc011bpc.1_Splice_Site_p.E627_splice|ZBBX_uc003feq.2_Splice_Site_p.G598_splice	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing							intracellular	zinc ion binding			ovary(2)	2						CTAGAAATTTACCTGCAAGTG	0.328													12	60	---	---	---	---	PASS	T	167016091	T	T	167016091	5	4	26	1	0	0	0	0	0	0	1	0	17513	405	14	5	537	5	ZBBX	3	167016091	Splice_Site	SNP	A	TCGA-21-5784-01A-01D-1632-08	17337362	167016091	31006339	65	11346										
TACC3	10460	broad.mit.edu	37	chr4	1730122	1730122	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggccaaatggccagctcctcGaggagcggacctgtaaaact	12	12	0	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr4:1730122G>C	uc003gdo.2	+	4	1101	c.993G>C	c.(991-993)TCG>TCC	p.S331S	TACC3_uc010ibz.2_Silent_p.S331S|TACC3_uc003gdp.2_Intron|TACC3_uc010ica.2_5'Flank	NM_006342	NP_006333	Q9Y6A5	TACC3_HUMAN	transforming, acidic coiled-coil containing	331						centrosome				ovary(1)|central_nervous_system(1)	2		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.00765)|Epithelial(3;0.0126)			CCAGCTCCTCGAGGAGCGGAC	0.597													5	37	---	---	---	---	PASS	C	1730122	C	C	1730122	2	2	26	1	0	0	0	0	0	0	0	1	15500	1045	37	2		2	TACC3	4	1730122	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08		1730122	189424154	66	11347										
JAKMIP1	152789	broad.mit.edu	37	chr4	6107434	6107434	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cgcgcctcggtcagcagcgcCgtcttgaccttgtcggccgc	13	17	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr4:6107434C>G	uc003giu.3	-	3	666	c.390G>C	c.(388-390)ACG>ACC	p.T130T	JAKMIP1_uc010idb.1_Silent_p.T130T|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Silent_p.T130T|JAKMIP1_uc011bwc.1_Intron|JAKMIP1_uc003giv.3_Silent_p.T130T|JAKMIP1_uc010ide.2_Silent_p.T130T	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	130	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TCAGCAGCGCCGTCTTGACCT	0.716													4	20	---	---	---	---	PASS	G	6107434	G	G	6107434	2	3	26	1	0	0	0	0	0	0	0	1	7940	639	23	4		4	JAKMIP1	4	6107434	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	4377312	6107434	185046842	67	11348										
DRD5	1816	broad.mit.edu	37	chr4	9783788	9783788	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tcacaggtggtcaccgcctgCctgctgaccctactcatcat	8	16	4	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr4:9783788C>T	uc003gmb.3	+	1	531	c.135C>T	c.(133-135)TGC>TGT	p.C45C		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	45	Helical; Name=1; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	TCACCGCCTGCCTGCTGACCC	0.692													4	17	---	---	---	---	PASS	T	9783788	T	T	9783788	2	4	26	1	0	0	0	0	0	0	0	1	4760	747	26	3		3	DRD5	4	9783788	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	3676354	9783788	181370488	68	11349										
CWH43	80157	broad.mit.edu	37	chr4	49040076	49040076	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgacctcgacaggaaactgcAggctattgctgtttcaaaac	9	10	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr4:49040076A>G	uc003gyv.2	+	13	1864	c.1682A>G	c.(1681-1683)CAG>CGG	p.Q561R	CWH43_uc011bzl.1_Missense_Mutation_p.Q534R	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	561					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						AGGAAACTGCAGGCTATTGCT	0.363													29	143	---	---	---	---	PASS	G	49040076	G	G	49040076	3	3	26	1	0	0	0	0	1	0	0	0	4073	188	7	5	1732	5	CWH43	4	49040076	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	39256288	49040076	142114200	69	11350										
AMBN	258	broad.mit.edu	37	chr4	71467241	71467241	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ccagtctgctgctgcaaccaCcaaccaggccacagcactga	8	17	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr4:71467241C>T	uc003hfl.2	+	6	476	c.401C>T	c.(400-402)ACC>ATC	p.T134I		NM_016519	NP_057603	Q9NP70	AMBN_HUMAN	ameloblastin precursor	134					bone mineralization|cell adhesion|cell proliferation|odontogenesis of dentine-containing tooth	proteinaceous extracellular matrix	growth factor activity|structural constituent of tooth enamel			ovary(3)|skin(1)	4			Lung(101;0.235)			GCTGCAACCACCAACCAGGCC	0.547											OREG0016218	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	100	---	---	---	---	PASS	T	71467241	T	T	71467241	3	4	26	1	0	0	0	0	1	0	0	0	563	507	18	3	423	3	AMBN	4	71467241	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	22427165	71467241	119687035	70	11351										
ANKRD17	26057	broad.mit.edu	37	chr4	73941987	73941987	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgcacactgttcatgtgaggTgcccagggtccagtccacac	11	13	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr4:73941987T>C	uc003hgp.2	-	34	7890	c.7773A>G	c.(7771-7773)GCA>GCG	p.A2591A	ANKRD17_uc003hgo.2_Silent_p.A2478A|ANKRD17_uc003hgq.2_Silent_p.A2340A|ANKRD17_uc003hgr.2_Silent_p.A2590A	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	2591					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCATGTGAGGTGCCCAGGGTC	0.373													3	13	---	---	---	---	PASS	C	73941987	C	C	73941987	2	2	26	1	0	0	0	0	0	0	0	1	646	1683	59	5		5	ANKRD17	4	73941987	Silent	SNP	T	TCGA-21-5784-01A-01D-1632-08	2474746	73941987	117212289	71	11352										
ANKRD17	26057	broad.mit.edu	37	chr4	74005579	74005579	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tctccctcagaaagctgctcTccaactccaacaggagttag	7	14	3	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr4:74005579T>G	uc003hgp.2	-	15	2871	c.2754A>C	c.(2752-2754)GGA>GGC	p.G918G	ANKRD17_uc003hgo.2_Silent_p.G805G|ANKRD17_uc003hgq.2_Intron|ANKRD17_uc003hgr.2_Silent_p.G918G|ANKRD17_uc011cbd.1_Silent_p.G483G	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	918	Gln-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			AAAGCTGCTCTCCAACTCCAA	0.463													12	79	---	---	---	---	PASS	G	74005579	G	G	74005579	2	3	26	1	0	0	0	0	0	0	0	1	646	1538	54	5		5	ANKRD17	4	74005579	Silent	SNP	T	TCGA-21-5784-01A-01D-1632-08	63592	74005579	117148697	72	11353										
ENPEP	2028	broad.mit.edu	37	chr4	111482632	111482632	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tagggaacaagtgctggaaaCagtgaaaaacaatatagagt	11	4	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr4:111482632C>T	uc003iab.3	+	20	3134	c.2792C>T	c.(2791-2793)ACA>ATA	p.T931I		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	931	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	GTGCTGGAAACAGTGAAAAAC	0.363													5	25	---	---	---	---	PASS	T	111482632	T	T	111482632	3	4	26	1	0	0	0	0	1	0	0	0	5128	478	17	3	2870	3	ENPEP	4	111482632	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	37477053	111482632	79671644	73	11354										
NDST4	64579	broad.mit.edu	37	chr4	115856388	115856388	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tagaaggattgtgagaaaaaGttcacctcctctgatacttt	8	7	2	3	rs141975586		TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr4:115856388G>C	uc003ibu.2	-	6	2189	c.1510C>G	c.(1510-1512)CTT>GTT	p.L504V	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	504	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		GTGAGAAAAAGTTCACCTCCT	0.368													8	52	---	---	---	---	PASS	C	115856388	C	C	115856388	3	2	26	1	0	0	0	0	1	0	0	0	10258	1029	36	4	1144	4	NDST4	4	115856388	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	4373756	115856388	75297888	74	11355										
PCDH10	57575	broad.mit.edu	37	chr4	134075494	134075494	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cgagcagagctcagctatctAgttgacagacctcgccgagt	11	12	2	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr4:134075494A>T	uc003iha.2	+	2	3490	c.2664A>T	c.(2662-2664)CTA>CTT	p.L888L		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	888	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TCAGCTATCTAGTTGACAGAC	0.378													6	32	---	---	---	---	PASS	T	134075494	T	T	134075494	2	4	26	1	0	0	0	0	0	0	0	1	11507	407	15	5		5	PCDH10	4	134075494	Silent	SNP	A	TCGA-21-5784-01A-01D-1632-08	18219106	134075494	57078782	75	11356										
FSTL5	56884	broad.mit.edu	37	chr4	162841620	162841620	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tttttcaggcaagcagctctGtgcacttcacagtggttttc	9	10	3	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr4:162841620G>T	uc003iqh.2	-	4	781	c.345C>A	c.(343-345)CAC>CAA	p.H115Q	FSTL5_uc003iqi.2_Missense_Mutation_p.H114Q|FSTL5_uc010iqv.2_Missense_Mutation_p.H114Q	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	115	Kazal-like.					extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		AAGCAGCTCTGTGCACTTCAC	0.438													8	45	---	---	---	---	PASS	T	162841620	T	T	162841620	3	4	26	1	0	0	0	0	1	0	0	0	6080	1368	48	3	2250	3	FSTL5	4	162841620	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	28766126	162841620	28312656	76	11357										
ADAMTS16	170690	broad.mit.edu	37	chr5	5237108	5237108	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acttatgcaaactctactgtAtcgcagaaggatttgatttc	7	8	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr5:5237108A>G	uc003jdl.2	+	14	2188	c.2050A>G	c.(2050-2052)ATC>GTC	p.I684V	ADAMTS16_uc003jdk.1_Missense_Mutation_p.I684V|ADAMTS16_uc010itk.1_Intron	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	684	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						ACTCTACTGTATCGCAGAAGG	0.338													7	103	---	---	---	---	PASS	G	5237108	G	G	5237108	3	3	26	1	0	0	0	0	1	0	0	0	261	449	16	5	2104	5	ADAMTS16	5	5237108	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08		5237108	175678152	77	11358										
CDH12	1010	broad.mit.edu	37	chr5	22078623	22078623	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aaattgattccatacccagcCacgtttaacacgttggaaat	6	10	0	1	rs147912407		TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr5:22078623C>A	uc010iuc.2	-	2	621	c.163G>T	c.(163-165)GGC>TGC	p.G55C	CDH12_uc011cno.1_Missense_Mutation_p.G55C|CDH12_uc003jgk.2_Missense_Mutation_p.G55C	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	55	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CATACCCAGCCACGTTTAACA	0.468										HNSCC(59;0.17)			63	93	---	---	---	---	PASS	A	22078623	A	A	22078623	3	1	26	1	0	0	0	0	1	0	0	0	3098	594	21	3	2265	3	CDH12	5	22078623	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	16841515	22078623	158836637	78	11359										
ADAMTS12	81792	broad.mit.edu	37	chr5	33624455	33624455	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tctcatagtcacagccaaccAtctgtggggaagagaggtgg	13	9	3	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr5:33624455A>C	uc003jia.1	-	14	2187	c.2024T>G	c.(2023-2025)ATG>AGG	p.M675R	ADAMTS12_uc010iuq.1_Intron	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	675	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						ACAGCCAACCATCTGTGGGGA	0.532										HNSCC(64;0.19)			5	34	---	---	---	---	PASS	C	33624455	C	C	33624455	3	2	26	1	0	0	0	0	1	0	0	0	257	231	8	5	2804	5	ADAMTS12	5	33624455	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	11545832	33624455	147290805	79	11360										
ADAMTS12	81792	broad.mit.edu	37	chr5	33649789	33649789	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gtcattttctttcccatcatGctggatgccgaagctggcag	10	11	3	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr5:33649789G>T	uc003jia.1	-	8	1367	c.1204C>A	c.(1204-1206)CAT>AAT	p.H402N	ADAMTS12_uc010iuq.1_Missense_Mutation_p.H402N	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	402	Peptidase M12B.	Zinc; catalytic (By similarity).			proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TTCCCATCATGCTGGATGCCG	0.512										HNSCC(64;0.19)			20	36	---	---	---	---	PASS	T	33649789	T	T	33649789	3	4	26	1	0	0	0	0	1	0	0	0	257	1319	46	3	3648	3	ADAMTS12	5	33649789	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	25334	33649789	147265471	80	11361										
C6	729	broad.mit.edu	37	chr5	41181587	41181587	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgacttgagaatgagccttgTtgattttcattgtgtccaag	10	6	1	4			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr5:41181587T>C	uc003jmk.2	-	7	1011	c.801A>G	c.(799-801)CAA>CAG	p.Q267Q	C6_uc003jml.1_Silent_p.Q267Q	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	267	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				ATGAGCCTTGTTGATTTTCAT	0.358													28	40	---	---	---	---	PASS	C	41181587	C	C	41181587	2	2	26	1	0	0	0	0	0	0	0	1	2315	1722	60	5		5	C6	5	41181587	Silent	SNP	T	TCGA-21-5784-01A-01D-1632-08	7531798	41181587	139733673	81	11362										
VCAN	1462	broad.mit.edu	37	chr5	82816206	82816206	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	agaaacactaataccagagaTgagaacagatacttatacag	7	7	0	4			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr5:82816206T>C	uc003kii.3	+	7	2437	c.2081T>C	c.(2080-2082)ATG>ACG	p.M694T	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.M694T|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	694	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ATACCAGAGATGAGAACAGAT	0.333													7	39	---	---	---	---	PASS	C	82816206	C	C	82816206	3	2	26	1	0	0	0	0	1	0	0	0	17135	1464	51	5	2103	5	VCAN	5	82816206	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	41634619	82816206	98099054	82	11363										
ZNF608	57507	broad.mit.edu	37	chr5	123982838	123982838	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gcccatatgcatactggccaTaataaagtgactgagccagg	10	10	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr5:123982838T>C	uc003ktq.1	-	4	3362	c.3239A>G	c.(3238-3240)TAT>TGT	p.Y1080C	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Missense_Mutation_p.Y1080C|ZNF608_uc003ktt.1_Missense_Mutation_p.Y1080C|ZNF608_uc003ktp.1_5'Flank	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	1080						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		ATACTGGCCATAATAAAGTGA	0.483													8	37	---	---	---	---	PASS	C	123982838	C	C	123982838	3	2	26	1	0	0	0	0	1	0	0	0	18031	1406	49	5	1323	5	ZNF608	5	123982838	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	41166632	123982838	56932422	83	11364										
PCDHB16	57717	broad.mit.edu	37	chr5	140564188	140564188	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cggccagacccaggccaactCgctcactgtctacctggtgg	11	16	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr5:140564188C>T	uc003liv.2	+	1	3209	c.2054C>T	c.(2053-2055)TCG>TTG	p.S685L	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	685	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGGCCAACTCGCTCACTGTC	0.692													5	92	---	---	---	---	PASS	T	140564188	T	T	140564188	3	4	26	1	0	0	0	0	1	0	0	0	11541	893	31	2	2056	2	PCDHB16	5	140564188	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	16581350	140564188	40351072	84	11365										
KIF4B	285643	broad.mit.edu	37	chr5	154395721	154395721	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aacgccatctgaatgacctcCttgaagacagaaagatcctg	8	11	1	6			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr5:154395721C>T	uc010jih.1	+	1	2462	c.2302C>T	c.(2302-2304)CTT>TTT	p.L768F		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	768	Interaction with PRC1 (By similarity).|Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			GAATGACCTCCTTGAAGACAG	0.453													6	23	---	---	---	---	PASS	T	154395721	T	T	154395721	3	4	26	1	0	0	0	0	1	0	0	0	8304	681	24	3	2304	3	KIF4B	5	154395721	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	13831533	154395721	26519539	85	11366										
KIAA0319	9856	broad.mit.edu	37	chr6	24556934	24556934	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gagggggtcgcagtgaccatGgccagaacacttcagaaggc	15	10	1	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr6:24556934G>T	uc011djo.1	-	18	2995	c.2758C>A	c.(2758-2760)CAT>AAT	p.H920N	KIAA0319_uc011djp.1_Missense_Mutation_p.H875N|KIAA0319_uc003neh.1_Missense_Mutation_p.H920N|KIAA0319_uc011djq.1_Missense_Mutation_p.H911N|KIAA0319_uc011djr.1_Missense_Mutation_p.H920N|KIAA0319_uc010jpt.1_Missense_Mutation_p.H331N	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	920	Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						CAGTGACCATGGCCAGAACAC	0.502													6	29	---	---	---	---	PASS	T	24556934	T	T	24556934	3	4	26	1	0	0	0	0	1	0	0	0	8168	1348	47	3	476	3	KIAA0319	6	24556934	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08		24556934	146558133	86	11367										
HIST1H2AH	85235	broad.mit.edu	37	chr6	27114908	27114908	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttcagtaagttgtgaccagtAtgtctggacgtggcaagcaa	12	7	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr6:27114908A>G	uc003niz.2	+	1	1	c.1A>G	c.(1-3)ATG>GTG	p.M1V	HIST1H2BK_uc003nix.1_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080596	NP_542163	Q96KK5	H2A1H_HUMAN	histone cluster 1, H2ah	1					nucleosome assembly	nucleosome|nucleus	DNA binding				0						TGTGACCAGTATGTCTGGACG	0.542													17	63	---	---	---	---	PASS	G	27114908	G	G	27114908	3	3	26	1	0	0	0	0	1	0	0	0	7134	463	16	5	3	5	HIST1H2AH	6	27114908	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	2557974	27114908	144000159	87	11368										
OR2J2	26707	broad.mit.edu	37	chr6	29141953	29141953	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tagtggatcacttcttctgtGaagttccagcacttctgcgt	9	10	4	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr6:29141953G>T	uc011dlm.1	+	1	643	c.541G>T	c.(541-543)GAA>TAA	p.E181*		NM_030905	NP_112167	O76002	OR2J2_HUMAN	olfactory receptor, family 2, subfamily J,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTCTTCTGTGAAGTTCCAGC	0.448													5	133	---	---	---	---	PASS	T	29141953	T	T	29141953	4	4	26	1	0	0	0	0	0	1	0	0	11003	1291	45	2	543	2	OR2J2	6	29141953	Nonsense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	2027045	29141953	141973114	88	11369										
PKHD1	5314	broad.mit.edu	37	chr6	51752042	51752042	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cagcaccacacactctgttcCcctacagaaattaagaagag	6	13	1	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr6:51752042C>A	uc003pah.1	-	44	7274	c.6998G>T	c.(6997-6999)GGG>GTG	p.G2333V	PKHD1_uc010jzn.1_Missense_Mutation_p.G316V|PKHD1_uc003pai.2_Missense_Mutation_p.G2333V	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2333	PbH1 4.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CACTCTGTTCCCCTACAGAAA	0.393													8	47	---	---	---	---	PASS	A	51752042	A	A	51752042	3	1	26	1	0	0	0	0	1	0	0	0	11971	637	22	3	5361	3	PKHD1	6	51752042	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	22610089	51752042	119363025	89	11370										
CD109	135228	broad.mit.edu	37	chr6	74521937	74521937	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ccttgattcagcttgctgtgGtacagccaacggcagttaat	10	10	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr6:74521937G>A	uc003php.2	+	29	4137	c.3712G>A	c.(3712-3714)GTA>ATA	p.V1238I	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Missense_Mutation_p.V1221I|CD109_uc010kba.2_Missense_Mutation_p.V1161I	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	1238						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						GCTTGCTGTGGTACAGCCAAC	0.338													12	74	---	---	---	---	PASS	A	74521937	A	A	74521937	3	1	26	1	0	0	0	0	1	0	0	0	2963	1261	44	3	3826	3	CD109	6	74521937	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	22769895	74521937	96593130	90	11371										
COL12A1	1303	broad.mit.edu	37	chr6	75847265	75847265	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgttagatgttgcattgtacActtgaaggtttcgtgggcca	12	6	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr6:75847265A>T	uc003phs.2	-	31	5448	c.5282T>A	c.(5281-5283)GTG>GAG	p.V1761E	COL12A1_uc003pht.2_Missense_Mutation_p.V597E	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1761	Fibronectin type-III 13.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TGCATTGTACACTTGAAGGTT	0.453													12	32	---	---	---	---	PASS	T	75847265	T	T	75847265	3	4	26	1	0	0	0	0	1	0	0	0	3669	159	6	5	4053	5	COL12A1	6	75847265	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	1325328	75847265	95267802	91	11372										
ROS1	6098	broad.mit.edu	37	chr6	117710738	117710738	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gaaaatgaccttgccatctgTgacaagaaagtcattgtttt	8	7	2	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr6:117710738T>A	uc003pxp.1	-	12	1733	c.1534A>T	c.(1534-1536)ACA>TCA	p.T512S	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	512	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TTGCCATCTGTGACAAGAAAG	0.418			T	GOPC|ROS1	glioblastoma|NSCLC								5	41	---	---	---	---	PASS	A	117710738	A	A	117710738	3	1	26	1	0	0	0	0	1	0	0	0	13531	1696	59	5	5637	5	ROS1	6	117710738	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	41863473	117710738	53404329	92	11373										
LAMA2	3908	broad.mit.edu	37	chr6	129722441	129722441	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aagagggcaatgacatactcGatgaagccaaccgtcttgca	10	10	1	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr6:129722441G>A	uc003qbn.2	+	38	5623	c.5518G>A	c.(5518-5520)GAT>AAT	p.D1840N	LAMA2_uc003qbo.2_Missense_Mutation_p.D1840N	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1840	Domain II and I.|Potential.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TGACATACTCGATGAAGCCAA	0.398													12	48	---	---	---	---	PASS	A	129722441	A	A	129722441	3	1	26	1	0	0	0	0	1	0	0	0	8606	1058	37	2	5668	2	LAMA2	6	129722441	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	12011703	129722441	41392626	93	11374										
THSD7A	221981	broad.mit.edu	37	chr7	11464372	11464372	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acagttctcccgcatattcaCaaaggtcaccttgcagatgc	7	13	3	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr7:11464372C>A	uc003ssf.3	-	15	3586	c.3334G>T	c.(3334-3336)GTG>TTG	p.V1112L		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1112	TSP type-1 11.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		CGCATATTCACAAAGGTCACC	0.483										HNSCC(18;0.044)			25	143	---	---	---	---	PASS	A	11464372	A	A	11464372	3	1	26	1	0	0	0	0	1	0	0	0	15876	478	17	3	1691	3	THSD7A	7	11464372	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08		11464372	147674291	94	11375										
DNAH11	8701	broad.mit.edu	37	chr7	21779282	21779282	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggcagcttcaccatcaatccCaggctacaggtagggtgttg	12	11	2	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr7:21779282C>T	uc003svc.2	+	49	7957	c.7926C>T	c.(7924-7926)CCC>CCT	p.P2642P		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2642	AAA 3 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CCATCAATCCCAGGCTACAGG	0.433									Kartagener_syndrome				7	39	---	---	---	---	PASS	T	21779282	T	T	21779282	2	4	26	1	0	0	0	0	0	0	0	1	4599	581	21	3		3	DNAH11	7	21779282	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	10314910	21779282	137359381	95	11376										
NPVF	64111	broad.mit.edu	37	chr7	25266386	25266386	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cacttttggctgttgttgttCtcccaaacctttggggcagg	11	10	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr7:25266386C>T	uc003sxo.2	-	2	445	c.398G>A	c.(397-399)AGA>AAA	p.R133K		NM_022150	NP_071433	Q9HCQ7	RFRP_HUMAN	neuropeptide VF precursor	133					neuropeptide signaling pathway	extracellular region|membrane	G-protein coupled receptor activity			ovary(1)	1						TGTTGTTGTTCTCCCAAACCT	0.488													26	139	---	---	---	---	PASS	T	25266386	T	T	25266386	3	4	26	1	0	0	0	0	1	0	0	0	10605	913	32	2	200	2	NPVF	7	25266386	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	3487104	25266386	133872277	96	11377										
NPVF	64111	broad.mit.edu	37	chr7	25266428	25266428	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	taggaacacgtctcacgaggCtcacctccatatttcttcca	6	14	3	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr7:25266428C>T	uc003sxo.2	-	2	403	c.356G>A	c.(355-357)AGC>AAC	p.S119N		NM_022150	NP_071433	Q9HCQ7	RFRP_HUMAN	neuropeptide VF precursor	119					neuropeptide signaling pathway	extracellular region|membrane	G-protein coupled receptor activity			ovary(1)	1						TCTCACGAGGCTCACCTCCAT	0.493													24	151	---	---	---	---	PASS	T	25266428	T	T	25266428	3	4	26	1	0	0	0	0	1	0	0	0	10605	797	28	3	242	3	NPVF	7	25266428	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	42	25266428	133872235	97	11378										
MRPS24	64951	broad.mit.edu	37	chr7	43906544	43906544	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cgaaggaaaacatcctccacCgttcgctctgcggcatggtc	10	14	1	0	rs9154	byFrequency	TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr7:43906544C>A	uc003tit.1	-	4	309	c.258G>T	c.(256-258)ACG>ACT	p.T86T		NM_032014	NP_114403	Q96EL2	RT24_HUMAN	mitochondrial ribosomal protein S24 precursor	86					translation	mitochondrial large ribosomal subunit|mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0						CATCCTCCACCGTTCGCTCTG	0.557													3	53	---	---	---	---	PASS	A	43906544	A	A	43906544	2	1	26	1	0	0	0	0	0	0	0	1	9835	639	23	1		1	MRPS24	7	43906544	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	18640116	43906544	115232119	98	11379										
ZPBP	11055	broad.mit.edu	37	chr7	50097591	50097591	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	actttacttcttaccatataTagcatattttagttgaagac	4	7	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr7:50097591T>A	uc003tou.2	-	4	551	c.481A>T	c.(481-483)ATA>TTA	p.I161L	ZPBP_uc011kci.1_Missense_Mutation_p.I87L|ZPBP_uc010kyw.2_Missense_Mutation_p.I160L	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	161					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					TTACCATATATAGCATATTTT	0.284													3	35	---	---	---	---	PASS	A	50097591	A	A	50097591	3	1	26	1	0	0	0	0	1	0	0	0	18216	1406	49	5	594	5	ZPBP	7	50097591	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	6191047	50097591	109041072	99	11380										
CACNA2D1	781	broad.mit.edu	37	chr7	81588591	81588591	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cagtagaagtgtgatcttacCaagacattgttatcaaagca	8	7	2	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr7:81588591C>A	uc003uhr.1	-	38	3415	c.3159G>T	c.(3157-3159)TTG>TTT	p.L1053F	CACNA2D1_uc011kgy.1_Missense_Mutation_p.L265F	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	1065	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	GTGATCTTACCAAGACATTGT	0.368													11	50	---	---	---	---	PASS	A	81588591	A	A	81588591	3	1	26	1	0	0	0	0	1	0	0	0	2548	608	21	3	124	3	CACNA2D1	7	81588591	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	31491000	81588591	77550072	100	11381										
ZNF804B	219578	broad.mit.edu	37	chr7	88956788	88956788	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gttaaggcagcaatctgaatGgtaagaattaaaggtgtctg	12	4	2	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr7:88956788G>C	uc011khi.1	+	3	918	c.380G>C	c.(379-381)TGT>TCT	p.C127S		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	127						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CAATCTGAATGGTAAGAATTA	0.363										HNSCC(36;0.09)			7	36	---	---	---	---	PASS	C	88956788	C	C	88956788	3	2	26	1	0	0	0	0	1	0	0	0	18168	1362	47	4	390	4	ZNF804B	7	88956788	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	7368197	88956788	70181875	101	11382										
DYNC1I1	1780	broad.mit.edu	37	chr7	95499246	95499246	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gtcacccaagtggatttcctGccaagggaagtagtgtccta	11	10	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr7:95499246G>T	uc003uoc.3	+	6	754	c.477G>T	c.(475-477)CTG>CTT	p.L159L	DYNC1I1_uc003uod.3_Silent_p.L142L|DYNC1I1_uc003uob.2_Silent_p.L122L|DYNC1I1_uc003uoe.3_Silent_p.L139L|DYNC1I1_uc010lfl.2_Silent_p.L148L	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	159					vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			TGGATTTCCTGCCAAGGGAAG	0.448													13	61	---	---	---	---	PASS	T	95499246	T	T	95499246	2	4	26	1	0	0	0	0	0	0	0	1	4842	1306	46	3		3	DYNC1I1	7	95499246	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	6542458	95499246	63639417	102	11383										
PLOD3	8985	broad.mit.edu	37	chr7	100855937	100855937	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	agaaacacccgggggggaggCtggaagatgcaacacgcagg	17	9	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr7:100855937C>G	uc003uyd.2	-	9	1336	c.880_splice	c.e9-1	p.P294_splice	PLOD3_uc010lhs.2_Splice_Site	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase						protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	GGGGGGGAGGCTGGAAGATGC	0.642													4	23	---	---	---	---	PASS	G	100855937	G	G	100855937	5	3	26	1	0	0	0	0	0	0	1	0	12103	811	28	4	1381	4	PLOD3	7	100855937	Splice_Site	SNP	C	TCGA-21-5784-01A-01D-1632-08	5356691	100855937	58282726	103	11384										
FLNC	2318	broad.mit.edu	37	chr7	128486411	128486411	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctgtgcccaagagccccttcCgagtgggcgtgaccgagggc	15	14	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr7:128486411C>T	uc003vnz.3	+	23	4230	c.4021C>T	c.(4021-4023)CGA>TGA	p.R1341*	FLNC_uc003voa.3_Nonsense_Mutation_p.R1341*	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1341	Filamin 11.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GAGCCCCTTCCGAGTGGGCGT	0.647													5	28	---	---	---	---	PASS	T	128486411	T	T	128486411	4	4	26	1	0	0	0	0	0	1	0	0	5935	644	23	1	4111	1	FLNC	7	128486411	Nonsense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	27630474	128486411	30652252	104	11385										
KIAA1549	57670	broad.mit.edu	37	chr7	138545946	138545946	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acccccactgggtggctcgcCtctcttcctgggaaggggtg	14	14	1	0	rs60797311	by1000genomes	TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr7:138545946C>A	uc011kql.1	-	16	5235	c.5186G>T	c.(5185-5187)AGG>ATG	p.R1729M	KIAA1549_uc011kqi.1_Missense_Mutation_p.R513M|KIAA1549_uc003vuk.3_Missense_Mutation_p.R1679M|KIAA1549_uc011kqj.1_Missense_Mutation_p.R1729M|KIAA1549_uc011kqk.1_Missense_Mutation_p.R513M	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1729						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GGTGGCTCGCCTCTCTTCCTG	0.647			O	BRAF	pilocytic astrocytoma								7	36	---	---	---	---	PASS	A	138545946	A	A	138545946	3	1	26	1	0	0	0	0	1	0	0	0	8244	681	24	3	686	3	KIAA1549	7	138545946	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	10059535	138545946	20592717	105	11386										
SGCZ	137868	broad.mit.edu	37	chr8	13959919	13959919	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	attgcagatggagctccttcCtgcaggtggccttgaagtct	12	10	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:13959919C>A	uc003wwq.2	-	7	1370	c.710G>T	c.(709-711)AGG>ATG	p.R237M	SGCZ_uc010lss.2_Missense_Mutation_p.R190M	NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta	224	Extracellular (Potential).				cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		GAGCTCCTTCCTGCAGGTGGC	0.522													15	55	---	---	---	---	PASS	A	13959919	A	A	13959919	3	1	26	1	0	0	0	0	1	0	0	0	14204	681	24	3	236	3	SGCZ	8	13959919	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08		13959919	132404103	106	11387										
TEX15	56154	broad.mit.edu	37	chr8	30702473	30702473	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	taagaattctctgcttatccAagtaagattttgaagattct	6	6	2	4			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:30702473A>T	uc003xil.2	-	1	4061	c.4061T>A	c.(4060-4062)TTG>TAG	p.L1354*		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1354										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		CTGCTTATCCAAGTAAGATTT	0.393													23	86	---	---	---	---	PASS	T	30702473	T	T	30702473	4	4	26	1	0	0	0	0	0	1	0	0	15776	131	5	5	4324	5	TEX15	8	30702473	Nonsense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	16742554	30702473	115661549	107	11388										
WHSC1L1	54904	broad.mit.edu	37	chr8	38187351	38187351	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	agtcattttcaatgctttctCtgcatgggcaatgccaatat	7	9	3	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:38187351C>T	uc003xli.2	-	6	1644	c.1126G>A	c.(1126-1128)GAG>AAG	p.E376K	WHSC1L1_uc011lbm.1_Missense_Mutation_p.E376K|WHSC1L1_uc010lwe.2_Missense_Mutation_p.E376K|WHSC1L1_uc003xlj.2_Missense_Mutation_p.E376K	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	376					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			AATGCTTTCTCTGCATGGGCA	0.383			T	NUP98	AML								7	295	---	---	---	---	PASS	T	38187351	T	T	38187351	3	4	26	1	0	0	0	0	1	0	0	0	17360	922	32	2	3350	2	WHSC1L1	8	38187351	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	7484878	38187351	108176671	108	11389										
GINS4	84296	broad.mit.edu	37	chr8	41397202	41397202	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gctttatcctcacagatagaGaagtttttccctcatgtcct	6	11	2	2	rs141057295		TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:41397202G>A	uc003xnx.2	+	5	513	c.303G>A	c.(301-303)GAG>GAA	p.E101E	GINS4_uc003xny.2_Silent_p.E101E	NM_032336	NP_115712	Q9BRT9	SLD5_HUMAN	GINS complex subunit 4	101					DNA strand elongation involved in DNA replication|S phase of mitotic cell cycle	cytoplasm|nucleoplasm		p.E101E(1)		skin(1)	1	Ovarian(28;0.014)|Colorectal(14;0.0202)|Lung SC(25;0.211)	all_lung(54;0.00732)|Lung NSC(58;0.0207)|Hepatocellular(245;0.0462)|Esophageal squamous(32;0.0844)	Colorectal(10;0.0014)|OV - Ovarian serous cystadenocarcinoma(14;0.00329)|LUSC - Lung squamous cell carcinoma(45;0.0137)|COAD - Colon adenocarcinoma(11;0.0147)			CACAGATAGAGAAGTTTTTCC	0.463													9	99	---	---	---	---	PASS	A	41397202	A	A	41397202	2	1	26	1	0	0	0	0	0	0	0	1	6390	933	33	2		2	GINS4	8	41397202	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	3209851	41397202	104966820	109	11390										
AP3M2	10947	broad.mit.edu	37	chr8	42015516	42015516	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acaatgtagttgtggtttatGaggtattggaagagatgctt	13	2	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:42015516G>C	uc003xop.2	+	4	622	c.331G>C	c.(331-333)GAG>CAG	p.E111Q	AP3M2_uc003xoo.2_Missense_Mutation_p.E111Q|AP3M2_uc010lxe.2_RNA|AP3M2_uc003xoq.1_5'UTR|AP3M2_uc003xor.1_Missense_Mutation_p.E111Q	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	111					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			TGTGGTTTATGAGGTATTGGA	0.403													9	102	---	---	---	---	PASS	C	42015516	C	C	42015516	3	2	26	1	0	0	0	0	1	0	0	0	748	1291	45	2	337	2	AP3M2	8	42015516	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	618314	42015516	104348506	110	11391										
VCPIP1	80124	broad.mit.edu	37	chr8	67577946	67577946	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tccataaagacttcttccatAgcagcaacaagcctaagtaa	5	11	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:67577946A>G	uc003xwn.2	-	1	1507	c.1248T>C	c.(1246-1248)GCT>GCC	p.A416A	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	416					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			CTTCTTCCATAGCAGCAACAA	0.388													20	127	---	---	---	---	PASS	G	67577946	G	G	67577946	2	3	26	1	0	0	0	0	0	0	0	1	17138	407	15	5		5	VCPIP1	8	67577946	Silent	SNP	A	TCGA-21-5784-01A-01D-1632-08	25562430	67577946	78786076	111	11392										
ZFHX4	79776	broad.mit.edu	37	chr8	77620155	77620155	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aaagcaatgagtggaggttgAagtgtattgccattggcaac	13	5	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:77620155A>G	uc003yav.2	+	3	3274	c.2887A>G	c.(2887-2889)AAG>GAG	p.K963E	ZFHX4_uc003yat.1_Missense_Mutation_p.K963E|ZFHX4_uc003yau.1_Missense_Mutation_p.K989E|ZFHX4_uc003yaw.1_Missense_Mutation_p.K963E	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	963						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GTGGAGGTTGAAGTGTATTGC	0.433										HNSCC(33;0.089)			8	55	---	---	---	---	PASS	G	77620155	G	G	77620155	3	3	26	1	0	0	0	0	1	0	0	0	17632	247	9	5	2971	5	ZFHX4	8	77620155	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	10042209	77620155	68743867	112	11393										
ZBTB10	65986	broad.mit.edu	37	chr8	81412556	81412556	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acgaatttagaagattgctcAgtaatgcagccacctgttgc	9	9	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:81412556A>G	uc003ybx.3	+	2	2398	c.1800A>G	c.(1798-1800)TCA>TCG	p.S600S	ZBTB10_uc003ybv.3_Silent_p.S308S|ZBTB10_uc003ybw.3_Silent_p.S600S|ZBTB10_uc010lzt.2_Silent_p.S600S	NM_001105539	NP_001099009	Q96DT7	ZBT10_HUMAN	zinc finger and BTB domain containing 10 isoform	600					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)	1	all_cancers(3;1.68e-09)|all_epithelial(4;5.13e-11)|Lung NSC(7;1.75e-07)|all_lung(9;7.38e-07)|Breast(3;2.96e-06)		BRCA - Breast invasive adenocarcinoma(6;0.000434)|Epithelial(68;0.00486)|all cancers(69;0.0296)			AAGATTGCTCAGTAATGCAGC	0.343													3	6	---	---	---	---	PASS	G	81412556	G	G	81412556	2	3	26	1	0	0	0	0	0	0	0	1	17520	175	7	5		5	ZBTB10	8	81412556	Silent	SNP	A	TCGA-21-5784-01A-01D-1632-08	3792401	81412556	64951466	113	11394										
CNGB3	54714	broad.mit.edu	37	chr8	87680270	87680270	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgtatgaatctatgctgtttGgaagtttaattcgctttaag	9	4	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:87680270G>T	uc003ydx.2	-	5	666	c.620C>A	c.(619-621)CCA>CAA	p.P207Q	CNGB3_uc010maj.2_Missense_Mutation_p.P69Q	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	207	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						TATGCTGTTTGGAAGTTTAAT	0.388													24	162	---	---	---	---	PASS	T	87680270	T	T	87680270	3	4	26	1	0	0	0	0	1	0	0	0	3601	1348	47	3	1865	3	CNGB3	8	87680270	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	6267714	87680270	58683752	114	11395										
RUNX1T1	862	broad.mit.edu	37	chr8	93003993	93003993	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aggtggggtagggtgaggcaGgccattgggctggtaggata	21	4	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:93003993G>T	uc003yfd.2	-	6	949	c.865C>A	c.(865-867)CTG>ATG	p.L289M	RUNX1T1_uc003yfc.1_Missense_Mutation_p.L262M|RUNX1T1_uc003yfe.1_Missense_Mutation_p.L252M|RUNX1T1_uc010mao.2_Missense_Mutation_p.L262M|RUNX1T1_uc011lgi.1_Missense_Mutation_p.L300M|RUNX1T1_uc010man.1_Translation_Start_Site|RUNX1T1_uc003yfb.1_Missense_Mutation_p.L252M	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	289					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GGGTGAGGCAGGCCATTGGGC	0.557													8	70	---	---	---	---	PASS	T	93003993	T	T	93003993	3	4	26	1	0	0	0	0	1	0	0	0	13747	991	35	3	973	3	RUNX1T1	8	93003993	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	5323723	93003993	53360029	115	11396										
CSMD3	114788	broad.mit.edu	37	chr8	113326784	113326784	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aagatttgggtaactgtcagGatatccagggctcaatatga	11	6	2	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:113326784G>C	uc003ynu.2	-	48	7582	c.7423C>G	c.(7423-7425)CCT>GCT	p.P2475A	CSMD3_uc003yns.2_Missense_Mutation_p.P1677A|CSMD3_uc003ynt.2_Missense_Mutation_p.P2435A|CSMD3_uc011lhx.1_Missense_Mutation_p.P2371A|CSMD3_uc003ynw.1_Missense_Mutation_p.P186A	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2475	CUB 14.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TAACTGTCAGGATATCCAGGG	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			8	47	---	---	---	---	PASS	C	113326784	C	C	113326784	3	2	26	1	0	0	0	0	1	0	0	0	3946	1174	41	2	3796	2	CSMD3	8	113326784	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	20322791	113326784	33037238	116	11397										
MTBP	27085	broad.mit.edu	37	chr8	121509646	121509646	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cttatagaaagacgaaagttGgcaaagcagcctgaaacagt	10	7	0	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:121509646G>A	uc003ypc.1	+	14	1506	c.1461G>A	c.(1459-1461)TTG>TTA	p.L487L		NM_022045	NP_071328	Q96DY7	MTBP_HUMAN	Mdm2, transformed 3T3 cell double minute 2, p53	487					cell cycle arrest					skin(2)|ovary(1)	3	Lung NSC(37;5.68e-08)|Ovarian(258;0.00769)|all_neural(195;0.0804)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00503)			GACGAAAGTTGGCAAAGCAGC	0.328													10	36	---	---	---	---	PASS	A	121509646	A	A	121509646	2	1	26	1	0	0	0	0	0	0	0	1	9912	1339	47	3		3	MTBP	8	121509646	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	8182862	121509646	24854376	117	11398										
KLHL38	340359	broad.mit.edu	37	chr8	124664148	124664148	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tcctccctgagctgacagccAtgccccccagcacatagatg	8	17	0	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:124664148A>T	uc003yqs.1	-	1	1043	c.1019T>A	c.(1018-1020)ATG>AAG	p.M340K		NM_001081675	NP_001075144	Q2WGJ6	KLH38_HUMAN	kelch-like 38	340	Kelch 2.										0						GCTGACAGCCATGCCCCCCAG	0.592													17	51	---	---	---	---	PASS	T	124664148	T	T	124664148	3	4	26	1	0	0	0	0	1	0	0	0	8390	217	8	5	738	5	KLHL38	8	124664148	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	3154502	124664148	21699874	118	11399										
COL22A1	169044	broad.mit.edu	37	chr8	139601533	139601533	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tacccggccgggcagcaaggCtggcgaagtaggcacactgg	16	12	0	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:139601533C>A	uc003yvd.2	-	65	5291	c.4844G>T	c.(4843-4845)AGC>ATC	p.S1615I	COL22A1_uc011ljo.1_Missense_Mutation_p.S895I	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1615					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)			GGCAGCAAGGCTGGCGAAGTA	0.607										HNSCC(7;0.00092)			7	26	---	---	---	---	PASS	A	139601533	A	A	139601533	3	1	26	1	0	0	0	0	1	0	0	0	3681	797	28	3	40	3	COL22A1	8	139601533	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	14937385	139601533	6762489	119	11400										
COL22A1	169044	broad.mit.edu	37	chr8	139733018	139733018	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ccaggcagaccatcttccccTctttctcctggttctccctg	6	18	4	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr8:139733018T>A	uc003yvd.2	-	27	2766	c.2319A>T	c.(2317-2319)AGA>AGT	p.R773S	COL22A1_uc011ljo.1_Missense_Mutation_p.R73S	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	773	Collagen-like 5.|Pro-rich.|Gly-rich.				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)			CATCTTCCCCTCTTTCTCCTG	0.483										HNSCC(7;0.00092)			15	143	---	---	---	---	PASS	A	139733018	A	A	139733018	3	1	26	1	0	0	0	0	1	0	0	0	3681	1548	54	5	2717	5	COL22A1	8	139733018	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	131485	139733018	6631004	120	11401										
LINGO2	158038	broad.mit.edu	37	chr9	27949789	27949789	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cctgaaggcggatcaggtcaGagaacatgcctgcttcaata	11	10	3	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:27949789G>T	uc003zqu.1	-	2	1075	c.881C>A	c.(880-882)TCT>TAT	p.S294Y	LINGO2_uc010mjf.1_Missense_Mutation_p.S294Y|LINGO2_uc003zqv.1_Missense_Mutation_p.S294Y	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	294	LRR 10.|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)		GATCAGGTCAGAGAACATGCC	0.522													9	45	---	---	---	---	PASS	T	27949789	T	T	27949789	3	4	26	1	0	0	0	0	1	0	0	0	8815	942	33	2	943	2	LINGO2	9	27949789	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08		27949789	113263642	121	11402										
TAF1L	138474	broad.mit.edu	37	chr9	32635006	32635006	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctgaggccaaaaaggaagggGcaatgatggagggcaagatg	17	5	0	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:32635006G>C	uc003zrg.1	-	1	662	c.572C>G	c.(571-573)GCC>GGC	p.A191G	uc003zrh.1_RNA	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	191					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		AAAGGAAGGGGCAATGATGGA	0.483													4	35	---	---	---	---	PASS	C	32635006	C	C	32635006	3	2	26	1	0	0	0	0	1	0	0	0	15520	1203	42	4	4912	4	TAF1L	9	32635006	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	4685217	32635006	108578425	122	11403										
FLJ46321	389763	broad.mit.edu	37	chr9	84608660	84608660	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cagacagacttttctgccccCgccacacagcatcgtagacg	8	16	1	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:84608660C>T	uc004amn.2	+	4	3322	c.3275C>T	c.(3274-3276)CCG>CTG	p.P1092L		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1092						integral to membrane					0						TTTCTGCCCCCGCCACACAGC	0.517													4	43	---	---	---	---	PASS	T	84608660	T	T	84608660	3	4	26	1	0	0	0	0	1	0	0	0	5932	652	23	1	3289	1	FLJ46321	9	84608660	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	51973654	84608660	56604771	123	11404										
C9orf79	286234	broad.mit.edu	37	chr9	90502826	90502826	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tggacatgctcactgccgcaGacaggctgcccactcaagcc	10	16	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:90502826G>T	uc004app.3	+	4	3459	c.3424G>T	c.(3424-3426)GAC>TAC	p.D1142Y		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	1142						integral to membrane				ovary(3)	3						CACTGCCGCAGACAGGCTGCC	0.652													4	39	---	---	---	---	PASS	T	90502826	T	T	90502826	3	4	26	1	0	0	0	0	1	0	0	0	2497	942	33	2	3438	2	C9orf79	9	90502826	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	5894166	90502826	50710605	124	11405										
ZFP37	7539	broad.mit.edu	37	chr9	115805640	115805640	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgttctcacatgttcggtaaGagatgagttatacctaaaag	9	6	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:115805640G>C	uc004bgm.1	-	4	1286	c.1258C>G	c.(1258-1260)CTT>GTT	p.L420V	ZFP37_uc011lwz.1_Missense_Mutation_p.L435V|ZFP37_uc011lxa.1_Missense_Mutation_p.L421V	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	420	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TGTTCGGTAAGAGATGAGTTA	0.388													8	109	---	---	---	---	PASS	C	115805640	C	C	115805640	3	2	26	1	0	0	0	0	1	0	0	0	17645	942	33	2	638	2	ZFP37	9	115805640	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	25302814	115805640	25407791	125	11406										
TLR4	7099	broad.mit.edu	37	chr9	120475061	120475061	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgaaccctatgaactttatcCaaccaggtgcatttaaagaa	6	9	0	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:120475061C>A	uc004bjz.2	+	3	946	c.655C>A	c.(655-657)CAA>AAA	p.Q219K	TLR4_uc004bka.2_Missense_Mutation_p.Q179K|TLR4_uc004bkb.2_Missense_Mutation_p.Q19K	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	219	LRR 7.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						GAACTTTATCCAACCAGGTGC	0.363													5	66	---	---	---	---	PASS	A	120475061	A	A	120475061	3	1	26	1	0	0	0	0	1	0	0	0	15950	595	21	3	665	3	TLR4	9	120475061	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	4669421	120475061	20738370	126	11407										
TRAF1	7185	broad.mit.edu	37	chr9	123675906	123675906	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tccagggccatgggcccagaCtccaggccacagcccagccg	12	18	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:123675906C>A	uc004bku.1	-	5	977	c.405G>T	c.(403-405)GAG>GAT	p.E135D	TRAF1_uc011lyg.1_Missense_Mutation_p.E13D|TRAF1_uc010mvl.1_Missense_Mutation_p.E135D	NM_005658	NP_005649	Q13077	TRAF1_HUMAN	TNF receptor-associated factor 1	135					apoptosis|positive regulation of NF-kappaB transcription factor activity|protein complex assembly|regulation of apoptosis|signal transduction	cytoplasm	protein binding|zinc ion binding			skin(2)|ovary(1)	3						TGGGCCCAGACTCCAGGCCAC	0.632													12	47	---	---	---	---	PASS	A	123675906	A	A	123675906	3	1	26	1	0	0	0	0	1	0	0	0	16434	564	20	3	861	3	TRAF1	9	123675906	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	3200845	123675906	17537525	127	11408										
CEP110	11064	broad.mit.edu	37	chr9	123874791	123874791	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gtcagaagcaatatgagctgGaacaggaattggccttttat	11	6	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:123874791G>A	uc004bkx.1	+	7	1088	c.1057G>A	c.(1057-1059)GAA>AAA	p.E353K	CEP110_uc004bkw.2_Missense_Mutation_p.E353K|CEP110_uc004bky.1_5'UTR	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	353					cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						ATATGAGCTGGAACAGGAATT	0.328													6	47	---	---	---	---	PASS	A	123874791	A	A	123874791	3	1	26	1	0	0	0	0	1	0	0	0	3245	1175	41	2	1083	2	CEP110	9	123874791	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	198885	123874791	17338640	128	11409										
OR1L1	26737	broad.mit.edu	37	chr9	125423912	125423912	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctttgctgataagaagaataAaaggagaaattttggacaga	10	3	0	5			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:125423912A>G	uc011lza.1	+	1	68	c.68A>G	c.(67-69)AAA>AGA	p.K23R		NM_001005236	NP_001005236	Q8NH94	OR1L1_HUMAN	olfactory receptor, family 1, subfamily L,	23	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						AAGAAGAATAAAAGGAGAAAT	0.279													6	34	---	---	---	---	PASS	G	125423912	G	G	125423912	3	3	26	1	0	0	0	0	1	0	0	0	10963	29	1	5		5	OR1L1	9	125423912	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	1549121	125423912	15789519	129	11410										
LMX1B	4010	broad.mit.edu	37	chr9	129455563	129455563	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acgcagcagcgaagagccttCaaggcctccttcgaggtctc	11	14	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:129455563C>T	uc004bqj.2	+	4	683	c.633C>T	c.(631-633)TTC>TTT	p.F211F	LMX1B_uc004bqi.2_Silent_p.F211F|LMX1B_uc011maa.1_Silent_p.F211F	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	211	Homeobox.				dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GAAGAGCCTTCAAGGCCTCCT	0.582									Nail-Patella_Syndrome				3	13	---	---	---	---	PASS	T	129455563	T	T	129455563	2	4	26	1	0	0	0	0	0	0	0	1	8862	825	29	2		2	LMX1B	9	129455563	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	4031651	129455563	11757868	130	11411										
KIAA0649	9858	broad.mit.edu	37	chr9	138379288	138379288	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctgctgccaaaagtgcttttGgtcagctgcccagctgtgcc	11	13	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:138379288G>T	uc004cfr.1	+	4	3481	c.2932G>T	c.(2932-2934)GGT>TGT	p.G978C		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	978						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		AAGTGCTTTTGGTCAGCTGCC	0.632													7	32	---	---	---	---	PASS	T	138379288	T	T	138379288	3	4	26	1	0	0	0	0	1	0	0	0	8187	1348	47	3	2934	3	KIAA0649	9	138379288	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	8923725	138379288	2834143	131	11412										
ABCA2	20	broad.mit.edu	37	chr9	139912284	139912284	+	Missense_Mutation	SNP	C	A	A													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gccacgatgtgctggatggtCatggccacggagtagaccca							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:139912284C>A	uc011mem.1	-	15	2311	c.2163G>T	c.(2161-2163)ATG>ATT	p.M721I	ABCA2_uc011mel.1_Missense_Mutation_p.M722I|ABCA2_uc004ckl.1_Missense_Mutation_p.M652I|ABCA2_uc004ckm.1_Missense_Mutation_p.M752I|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	721					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GCTGGATGGTCATGGCCACGG	0.667													4	15	---	---	---	---	PASS	A	139912284	A	A	139912284	3	1	26	1	0	0	0	0	1	0	0	0	32	826	29	2	5280	2	ABCA2	9	139912284	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	1532996	139912284	1301147	132	11413	312	2								
ABCA2	20	broad.mit.edu	37	chr9	139912285	139912285	+	Missense_Mutation	SNP	A	T	T													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ccacgatgtgctggatggtcAtggccacggagtagacccag							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr9:139912285A>T	uc011mem.1	-	15	2310	c.2162T>A	c.(2161-2163)ATG>AAG	p.M721K	ABCA2_uc011mel.1_Missense_Mutation_p.M722K|ABCA2_uc004ckl.1_Missense_Mutation_p.M652K|ABCA2_uc004ckm.1_Missense_Mutation_p.M752K|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	721					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CTGGATGGTCATGGCCACGGA	0.662													4	15	---	---	---	---	PASS	T	139912285	T	T	139912285	3	4	26	1	0	0	0	0	1	0	0	0	32	217	8	5	5281	5	ABCA2	9	139912285	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	1	139912285	1301146	133	11414	312	2								
GAD2	2572	broad.mit.edu	37	chr10	26506596	26506596	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cggcatcggaaacaaactgtGcggtgagtgcccagggaccg	15	11	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr10:26506596G>T	uc001isp.2	+	2	637	c.134G>T	c.(133-135)TGC>TTC	p.C45F	GAD2_uc009xkr.2_Missense_Mutation_p.C45F|GAD2_uc001isq.2_Missense_Mutation_p.C45F	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	45					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	AACAAACTGTGCGGTGAGTGC	0.642													5	14	---	---	---	---	PASS	T	26506596	T	T	26506596	3	4	26	1	0	0	0	0	1	0	0	0	6180	1319	46	3	140	3	GAD2	10	26506596	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08		26506596	109028151	134	11415										
CHAT	1103	broad.mit.edu	37	chr10	50870714	50870714	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ataacagggatggccattgaCaaccacctgctggcactgcg	11	12	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr10:50870714C>T	uc001jhz.2	+	14	2016	c.1863C>T	c.(1861-1863)GAC>GAT	p.D621D	CHAT_uc001jhv.1_Silent_p.D503D|CHAT_uc001jhx.1_Silent_p.D503D|CHAT_uc001jhy.1_Silent_p.D503D|CHAT_uc001jia.2_Silent_p.D503D|CHAT_uc010qgs.1_Silent_p.D503D	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	621					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	TGGCCATTGACAACCACCTGC	0.567													14	55	---	---	---	---	PASS	T	50870714	T	T	50870714	2	4	26	1	0	0	0	0	0	0	0	1	3313	477	17	3		3	CHAT	10	50870714	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	24364118	50870714	84664033	135	11416										
SORCS1	114815	broad.mit.edu	37	chr10	108431020	108431020	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aaaatcagcctcagtgcagaCacagggttcagattccatag	9	10	3	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr10:108431020C>A	uc001kym.2	-	16	2172	c.2164G>T	c.(2164-2166)GTC>TTC	p.V722F	SORCS1_uc001kyl.2_Missense_Mutation_p.V722F|SORCS1_uc009xxs.2_Missense_Mutation_p.V722F|SORCS1_uc001kyn.1_Missense_Mutation_p.V722F|SORCS1_uc001kyo.2_Missense_Mutation_p.V722F	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	722	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TCAGTGCAGACACAGGGTTCA	0.423													8	46	---	---	---	---	PASS	A	108431020	A	A	108431020	3	1	26	1	0	0	0	0	1	0	0	0	14930	478	17	3	1620	3	SORCS1	10	108431020	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	57560306	108431020	27103727	136	11417										
ACSL5	51703	broad.mit.edu	37	chr10	114187011	114187011	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cttcatccagagccattttcCattgaaaatgggctcttgac	7	11	2	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr10:114187011C>T	uc001kzs.2	+	21	2088	c.1947C>T	c.(1945-1947)TCC>TCT	p.S649S	ACSL5_uc001kzt.2_Silent_p.S649S|ACSL5_uc001kzu.2_Silent_p.S705S|ACSL5_uc009xxz.2_Silent_p.S625S|ACSL5_uc010qrj.1_Silent_p.S431S	NM_203379	NP_976313	Q9ULC5	ACSL5_HUMAN	acyl-CoA synthetase long-chain family member 5	649	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(2)|skin(1)	3		Colorectal(252;0.117)|Breast(234;0.222)		Epithelial(162;0.0343)|all cancers(201;0.137)		AGCCATTTTCCATTGAAAATG	0.458													11	68	---	---	---	---	PASS	T	114187011	T	T	114187011	2	4	26	1	0	0	0	0	0	0	0	1	180	581	21	3		3	ACSL5	10	114187011	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	5755991	114187011	21347736	137	11418										
PNLIPRP3	119548	broad.mit.edu	37	chr10	118231330	118231330	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gtggaagcgaagtcactcaaGgaactgtctttcttcgtgta	11	8	4	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr10:118231330G>C	uc001lcl.3	+	10	1212	c.1111G>C	c.(1111-1113)GGA>CGA	p.G371R		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	371	PLAT.				lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		AGTCACTCAAGGAACTGTCTT	0.463													11	85	---	---	---	---	PASS	C	118231330	C	C	118231330	3	2	26	1	0	0	0	0	1	0	0	0	12152	1001	35	4	1149	4	PNLIPRP3	10	118231330	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	4044319	118231330	17303417	138	11419										
KIAA1598	57698	broad.mit.edu	37	chr10	118728205	118728205	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tttaacggcttcatctcgttCttgcctaattttgtcacact	5	11	4	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr10:118728205C>T	uc009xyw.2	-	3	628	c.130G>A	c.(130-132)GAA>AAA	p.E44K	KIAA1598_uc001lcz.3_Missense_Mutation_p.E44K|KIAA1598_uc010qso.1_5'UTR|KIAA1598_uc010qsp.1_Missense_Mutation_p.E44K|KIAA1598_uc010qsq.1_5'UTR|KIAA1598_uc001lcy.3_Missense_Mutation_p.E14K	NM_001127211	NP_001120683	A0MZ66	SHOT1_HUMAN	shootin1 isoform a	44	Potential.				axon guidance	axon					0				all cancers(201;0.00494)		TCATCTCGTTCTTGCCTAATT	0.313													5	16	---	---	---	---	PASS	T	118728205	T	T	118728205	3	4	26	1	0	0	0	0	1	0	0	0	8246	922	32	2	1825	2	KIAA1598	10	118728205	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	496875	118728205	16806542	139	11420										
NUP98	4928	broad.mit.edu	37	chr11	3724058	3724058	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gctctgggagtacgacattcTtgcacagagacacttggtga	12	9	2	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr11:3724058T>C	uc001lyh.2	-	23	3438	c.3147A>G	c.(3145-3147)CAA>CAG	p.Q1049Q	NUP98_uc001lyi.2_Silent_p.Q1049Q|NUP98_uc001lyg.2_Silent_p.Q117Q	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1066					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		TACGACATTCTTGCACAGAGA	0.458			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								4	37	---	---	---	---	PASS	C	3724058	C	C	3724058	2	2	26	1	0	0	0	0	0	0	0	1	10773	1606	56	5		5	NUP98	11	3724058	Silent	SNP	T	TCGA-21-5784-01A-01D-1632-08		3724058	131282458	140	11421										
OR52E8	390079	broad.mit.edu	37	chr11	5878401	5878401	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ataagtatgagggatgatacGatgcccacagaagggcagcc	13	8	0	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr11:5878401G>C	uc010qzr.1	-	1	532	c.532C>G	c.(532-534)CGT>GGT	p.R178G	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	178	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGGATGATACGATGCCCACAG	0.502													6	100	---	---	---	---	PASS	C	5878401	C	C	5878401	3	2	26	1	0	0	0	0	1	0	0	0	11118	1058	37	2	423	2	OR52E8	11	5878401	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	2154343	5878401	129128115	141	11422										
ARFIP2	23647	broad.mit.edu	37	chr11	6499300	6499300	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tcatactgtttcacagtcatGagcgtgtcttccatggtctt	8	10	5	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr11:6499300G>T	uc001mdk.2	-	6	803	c.666C>A	c.(664-666)CTC>CTA	p.L222L	ARFIP2_uc001mdl.2_Silent_p.L222L|ARFIP2_uc010ral.1_Silent_p.L184L|ARFIP2_uc010ram.1_Silent_p.L128L|ARFIP2_uc010ran.1_Silent_p.L255L|ARFIP2_uc001mdm.2_RNA	NM_012402	NP_036534	P53365	ARFP2_HUMAN	ADP-ribosylation factor interacting protein 2	222	AH.				actin cytoskeleton organization|cellular component movement|lamellipodium assembly|ruffle organization|small GTPase mediated signal transduction	cell cortex|plasma membrane|ruffle	GTP binding|GTP-dependent protein binding|Rac GTPase binding				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;3.41e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TCACAGTCATGAGCGTGTCTT	0.512													4	52	---	---	---	---	PASS	T	6499300	T	T	6499300	2	4	26	1	0	0	0	0	0	0	0	1	855	1277	45	2		2	ARFIP2	11	6499300	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	620899	6499300	128507216	142	11423										
OR5D18	219438	broad.mit.edu	37	chr11	55587763	55587763	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tcatcgttctcacatcttatGcgttcattgttgtaaccatc	5	11	4	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr11:55587763G>T	uc010rin.1	+	1	658	c.658G>T	c.(658-660)GCG>TCG	p.A220S		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				CACATCTTATGCGTTCATTGT	0.483													15	83	---	---	---	---	PASS	T	55587763	T	T	55587763	3	4	26	1	0	0	0	0	1	0	0	0	11157	1319	46	3	660	3	OR5D18	11	55587763	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	49088463	55587763	79418753	143	11424										
OR5B3	441608	broad.mit.edu	37	chr11	58170189	58170189	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggtggacaaaggcttctggtAtactgaagctgagtgcatct	13	7	2	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr11:58170189A>G	uc010rkf.1	-	1	694	c.694T>C	c.(694-696)TAC>CAC	p.Y232H		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GGCTTCTGGTATACTGAAGCT	0.408													3	40	---	---	---	---	PASS	G	58170189	G	G	58170189	3	3	26	1	0	0	0	0	1	0	0	0	11152	449	16	5	252	5	OR5B3	11	58170189	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	2582426	58170189	76836327	144	11425										
NDUFV1	4723	broad.mit.edu	37	chr11	67379895	67379895	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggagcggatgcagcggtttgCccagcagcatcaggcccggc	16	13	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr11:67379895C>T	uc001omj.2	+	10	1514	c.1361C>T	c.(1360-1362)GCC>GTC	p.A454V	NDUFV1_uc010rpv.1_Missense_Mutation_p.A353V|NDUFV1_uc001oml.2_Missense_Mutation_p.A447V|NDUFV1_uc001omk.3_Missense_Mutation_p.A445V|NDUFV1_uc010rpw.1_Missense_Mutation_p.A163V	NM_007103	NP_009034	P49821	NDUV1_HUMAN	NADH dehydrogenase ubiquinone flavoprotein 1	454					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|FMN binding|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity			skin(1)	1					NADH(DB00157)	CAGCGGTTTGCCCAGCAGCAT	0.617													3	29	---	---	---	---	PASS	T	67379895	T	T	67379895	3	4	26	1	0	0	0	0	1	0	0	0	10299	739	26	3	1399	3	NDUFV1	11	67379895	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	9209706	67379895	67626621	145	11426										
CCDC89	220388	broad.mit.edu	37	chr11	85396970	85396970	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgggactgctcttcaatgcgGgagcgaagcatagccttctc	12	11	3	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr11:85396970G>A	uc001pau.1	-	1	351	c.204C>T	c.(202-204)TCC>TCT	p.S68S		NM_152723	NP_689936	Q8N998	CCD89_HUMAN	coiled-coil domain containing 89	68	Potential.					cytoplasm|nucleus					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				CTTCAATGCGGGAGCGAAGCA	0.587													3	35	---	---	---	---	PASS	A	85396970	A	A	85396970	2	1	26	1	0	0	0	0	0	0	0	1	2866	1219	43	3		3	CCDC89	11	85396970	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	18017075	85396970	49609546	146	11427										
GRIA4	2893	broad.mit.edu	37	chr11	105845170	105845170	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggcagaagcgaagagaatgaAggtggcaaagagtgcacaga	16	5	0	5			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr11:105845170A>T	uc001pix.2	+	16	2989	c.2543A>T	c.(2542-2544)AAG>ATG	p.K848M	GRIA4_uc001piw.2_Missense_Mutation_p.K848M|GRIA4_uc010rvm.1_RNA|GRIA4_uc009yxl.1_RNA	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	848	Cytoplasmic (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	AAGAGAATGAAGGTGGCAAAG	0.473													6	62	---	---	---	---	PASS	T	105845170	T	T	105845170	3	4	26	1	0	0	0	0	1	0	0	0	6770	86	3	5	2757	5	GRIA4	11	105845170	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	20448200	105845170	29161346	147	11428										
EXPH5	23086	broad.mit.edu	37	chr11	108383971	108383971	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	agatgcattaaaaccaaaccCgttgctcttggctgagtcct	8	11	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr11:108383971C>A	uc001pkk.2	-	6	2374	c.2263G>T	c.(2263-2265)GGG>TGG	p.G755W	EXPH5_uc010rvy.1_Missense_Mutation_p.G567W|EXPH5_uc010rvz.1_Missense_Mutation_p.G599W|EXPH5_uc010rwa.1_Missense_Mutation_p.G679W	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	755					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		AAACCAAACCCGTTGCTCTTG	0.413													12	85	---	---	---	---	PASS	A	108383971	A	A	108383971	3	1	26	1	0	0	0	0	1	0	0	0	5322	652	23	1	3710	1	EXPH5	11	108383971	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	2538801	108383971	26622545	148	11429										
OR8D2	283160	broad.mit.edu	37	chr11	124189347	124189347	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gttatagacccaaaaaagatGcccacagccaagagatggga	10	9	0	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr11:124189347G>T	uc010sah.1	-	1	747	c.747C>A	c.(745-747)GGC>GGA	p.G249G		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0525)		CAAAAAAGATGCCCACAGCCA	0.423													7	90	---	---	---	---	PASS	T	124189347	T	T	124189347	2	4	26	1	0	0	0	0	0	0	0	1	11232	1306	46	3		3	OR8D2	11	124189347	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	15805376	124189347	10817169	149	11430										
ROBO3	64221	broad.mit.edu	37	chr11	124743726	124743726	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cccaacccacaaactggggcTgcagtcacgtcttatgtgat	9	13	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr11:124743726T>A	uc001qbc.2	+	11	1944	c.1752T>A	c.(1750-1752)GCT>GCA	p.A584A		NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	584	Fibronectin type-III 1.|Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		AAACTGGGGCTGCAGTCACGT	0.527													3	17	---	---	---	---	PASS	A	124743726	A	A	124743726	2	1	26	1	0	0	0	0	0	0	0	1	13515	1567	55	5		5	ROBO3	11	124743726	Silent	SNP	T	TCGA-21-5784-01A-01D-1632-08	554379	124743726	10262790	150	11431										
KCNJ1	3758	broad.mit.edu	37	chr11	128710050	128710050	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cattgccaaattctatgttgCaccttccatctttggagact	6	11	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr11:128710050C>T	uc001qeo.1	-	2	197	c.146G>A	c.(145-147)TGC>TAC	p.C49Y	KCNJ1_uc001qep.1_Missense_Mutation_p.C30Y|KCNJ1_uc001qeq.1_Missense_Mutation_p.C30Y|KCNJ1_uc001qer.1_Missense_Mutation_p.C30Y|KCNJ1_uc001qes.1_Missense_Mutation_p.C30Y	NM_000220	NP_000211	P48048	IRK1_HUMAN	potassium inwardly-rectifying channel J1 isoform	49	Cytoplasmic (By similarity).				excretion	voltage-gated potassium channel complex	ATP binding|inward rectifier potassium channel activity			ovary(3)|breast(1)	4	all_hematologic(175;0.0641)	all_lung(97;4.89e-06)|Lung NSC(97;9.34e-06)|Breast(109;0.00123)|all_hematologic(192;0.00793)|Renal(330;0.0112)|all_neural(223;0.0189)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;4.05e-06)|LUSC - Lung squamous cell carcinoma(976;0.008)|Lung(977;0.00942)	Acetohexamide(DB00414)|Chlorpropamide(DB00672)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Glimepiride(DB00222)|Glipizide(DB01067)|Glycodiazine(DB01382)|Minoxidil(DB00350)|Nateglinide(DB00731)|Repaglinide(DB00912)|Tolazamide(DB00839)|Tolbutamide(DB01124)	TTCTATGTTGCACCTTCCATC	0.438													12	105	---	---	---	---	PASS	T	128710050	T	T	128710050	3	4	26	1	0	0	0	0	1	0	0	0	8043	710	25	3	1033	3	KCNJ1	11	128710050	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	3966324	128710050	6296466	151	11432										
GRIN2B	2904	broad.mit.edu	37	chr12	14019082	14019082	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acgagctctgctgcctgacaCggccaggacggccaacacca	11	16	1	1	rs79046967		TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr12:14019082C>A	uc001rbt.2	-	2	240	c.61G>T	c.(61-63)GTG>TTG	p.V21L		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	21					response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CTGCCTGACACGGCCAGGACG	0.577													3	15	---	---	---	---	PASS	A	14019082	A	A	14019082	3	1	26	1	0	0	0	0	1	0	0	0	6780	536	19	1	4441	1	GRIN2B	12	14019082	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08		14019082	119832813	152	11433										
GUCY2C	2984	broad.mit.edu	37	chr12	14809478	14809478	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	atgattggtctcattggtctCcagaggaaagatattttcag	10	6	3	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr12:14809478C>G	uc001rcd.2	-	12	1575	c.1438G>C	c.(1438-1440)GAG>CAG	p.E480Q		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	480	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TCATTGGTCTCCAGAGGAAAG	0.373													7	91	---	---	---	---	PASS	G	14809478	G	G	14809478	3	3	26	1	0	0	0	0	1	0	0	0	6896	864	30	2	1847	2	GUCY2C	12	14809478	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	790396	14809478	119042417	153	11434										
KIF21A	55605	broad.mit.edu	37	chr12	39734052	39734052	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gatttttaagcaaccttgcaTgttctttttgagctgcttga	8	7	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr12:39734052T>A	uc001rly.2	-	16	2371	c.2225A>T	c.(2224-2226)CAT>CTT	p.H742L	KIF21A_uc001rlw.2_Missense_Mutation_p.H59L|KIF21A_uc001rlx.2_Missense_Mutation_p.H729L|KIF21A_uc001rlz.2_Missense_Mutation_p.H729L|KIF21A_uc010skl.1_Missense_Mutation_p.H729L	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	742					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				CAACCTTGCATGTTCTTTTTG	0.333													6	45	---	---	---	---	PASS	A	39734052	A	A	39734052	3	1	26	1	0	0	0	0	1	0	0	0	8288	1464	51	5	2891	5	KIF21A	12	39734052	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	24924574	39734052	94117843	154	11435										
ANKS1B	56899	broad.mit.edu	37	chr12	99166848	99166848	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aggcagtaaacacatgacagTagtggtgattagacttcaaa	10	6	1	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr12:99166848T>A	uc001tge.1	-	24	3893	c.3476A>T	c.(3475-3477)TAC>TTC	p.Y1159F	ANKS1B_uc001tgf.1_Missense_Mutation_p.Y675F|ANKS1B_uc001tgk.2_Missense_Mutation_p.Y456F|ANKS1B_uc010svd.1_Missense_Mutation_p.Y165F|ANKS1B_uc001tgd.1_Missense_Mutation_p.Y325F|ANKS1B_uc009ztq.2_Missense_Mutation_p.Y61F|ANKS1B_uc010sve.1_Missense_Mutation_p.Y189F|ANKS1B_uc001tgh.3_Missense_Mutation_p.Y165F|ANKS1B_uc001tgi.2_Missense_Mutation_p.Y409F|ANKS1B_uc009ztr.2_Missense_Mutation_p.Y349F|ANKS1B_uc001tgj.2_Missense_Mutation_p.Y325F|ANKS1B_uc009ztp.2_Missense_Mutation_p.Y190F|ANKS1B_uc010svf.1_Missense_Mutation_p.Y189F|ANKS1B_uc001tgg.3_Missense_Mutation_p.Y257F|ANKS1B_uc010svg.1_Missense_Mutation_p.Y294F|ANKS1B_uc009zts.1_Missense_Mutation_p.Y385F	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	1159	PID.					Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		CACATGACAGTAGTGGTGATT	0.443													4	24	---	---	---	---	PASS	A	99166848	A	A	99166848	3	1	26	1	0	0	0	0	1	0	0	0	689	1638	57	5	397	5	ANKS1B	12	99166848	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	59432796	99166848	34685047	155	11436										
NT5DC3	51559	broad.mit.edu	37	chr12	104187249	104187249	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gccatgatcagccagtttggCcaacactgcgcgggtctgct	12	13	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr12:104187249C>T	uc010swe.1	-	8	897	c.856G>A	c.(856-858)GCC>ACC	p.A286T		NM_001031701	NP_001026871	Q86UY8	NT5D3_HUMAN	5'-nucleotidase domain containing 3	286							hydrolase activity|metal ion binding			ovary(2)|skin(1)	3						GCCAGTTTGGCCAACACTGCG	0.443													3	37	---	---	---	---	PASS	T	104187249	T	T	104187249	3	4	26	1	0	0	0	0	1	0	0	0	10692	739	26	3	818	3	NT5DC3	12	104187249	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	5020401	104187249	29664646	156	11437										
TMEM132D	121256	broad.mit.edu	37	chr12	129566354	129566354	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	catcaggatctgtccgccttGcagcttggcgatcctgggct	12	13	2	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr12:129566354G>T	uc009zyl.1	-	7	2201	c.1873C>A	c.(1873-1875)CAA>AAA	p.Q625K	TMEM132D_uc001uia.2_Missense_Mutation_p.Q163K	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	625	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TGTCCGCCTTGCAGCTTGGCG	0.527													6	54	---	---	---	---	PASS	T	129566354	T	T	129566354	3	4	26	1	0	0	0	0	1	0	0	0	16044	1328	46	3	1438	3	TMEM132D	12	129566354	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	25379105	129566354	4285541	157	11438										
ALG5	29880	broad.mit.edu	37	chr13	37524105	37524105	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cattttccgagtttgctcaaGcctccaggcaccagtcaaat	7	13	2	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr13:37524105G>A	uc001uvy.2	-	10	1016	c.949C>T	c.(949-951)CTT>TTT	p.L317F	ALG5_uc010teq.1_Missense_Mutation_p.L287F|ALG5_uc010ter.1_RNA	NM_013338	NP_037470	Q9Y673	ALG5_HUMAN	dolichyl-phosphate beta-glucosyltransferase	317	Lumenal (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate beta-glucosyltransferase activity|oligosaccharyl transferase activity				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)		all cancers(112;5.79e-07)|Epithelial(112;1.81e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00785)|BRCA - Breast invasive adenocarcinoma(63;0.0127)|GBM - Glioblastoma multiforme(144;0.0472)		GTTTGCTCAAGCCTCCAGGCA	0.363													6	42	---	---	---	---	PASS	A	37524105	A	A	37524105	3	1	26	1	0	0	0	0	1	0	0	0	521	971	34	3	29	3	ALG5	13	37524105	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08		37524105	77645773	158	11439										
CSNK1A1L	122011	broad.mit.edu	37	chr13	37678416	37678416	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttattcttgtttttttcagtTtgcttgcctgtctgggtttg	9	6	3	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr13:37678416T>A	uc001uwm.1	-	1	1386	c.978A>T	c.(976-978)CAA>CAT	p.Q326H		NM_145203	NP_660204	Q8N752	KC1AL_HUMAN	casein kinase 1, alpha 1-like	326					Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)	1		Lung NSC(96;7.97e-05)|Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.109)		all cancers(112;3.58e-07)|Epithelial(112;1.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00695)|BRCA - Breast invasive adenocarcinoma(63;0.0117)|GBM - Glioblastoma multiforme(144;0.0407)		TTTTTTCAGTTTGCTTGCCTG	0.463													17	54	---	---	---	---	PASS	A	37678416	A	A	37678416	3	1	26	1	0	0	0	0	1	0	0	0	3951	1838	64	5	39	5	CSNK1A1L	13	37678416	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	154311	37678416	77491462	159	11440										
C13orf23	80209	broad.mit.edu	37	chr13	39603489	39603489	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttgagtatattgaccacttcTgttggctggacagccaccat	9	10	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr13:39603489T>C	uc001uwy.2	-	4	1077	c.204A>G	c.(202-204)ACA>ACG	p.T68T	C13orf23_uc001uwz.2_Silent_p.T46T	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	68										ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		TGACCACTTCTGTTGGCTGGA	0.299													5	56	---	---	---	---	PASS	C	39603489	C	C	39603489	2	2	26	1	0	0	0	0	0	0	0	1	1721	1567	55	5		5	C13orf23	13	39603489	Silent	SNP	T	TCGA-21-5784-01A-01D-1632-08	1925073	39603489	75566389	160	11441										
DAOA	267012	broad.mit.edu	37	chr13	106142326	106142326	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tccttgcctatgaggcctctAaggaccgcaggcagcctcta	10	14	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr13:106142326A>T	uc001vqb.2	+	4	632	c.358A>T	c.(358-360)AAG>TAG	p.K120*	DAOA_uc010tjf.1_Nonsense_Mutation_p.K49*|DAOA_uc001vpz.2_RNA|DAOA_uc010agd.2_RNA|DAOA_uc010tjg.1_Nonsense_Mutation_p.K92*|DAOA_uc001vqc.2_RNA|DAOA_uc001vqe.2_RNA	NM_172370	NP_758958	P59103	DAOA_HUMAN	D-amino acid oxidase activator isoform 1	120						Golgi apparatus					0	Lung NSC(43;0.01)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					tgaggcctctaaggaccgcag	0													7	27	---	---	---	---	PASS	T	106142326	T	T	106142326	4	4	26	1	0	0	0	0	0	1	0	0	4232	363	13	5	481	5	DAOA	13	106142326	Nonsense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	66538837	106142326	9027552	161	11442										
OR4M1	441670	broad.mit.edu	37	chr14	20248835	20248835	+	Missense_Mutation	SNP	G	A	A													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	atgttcttgctcacagtgatGgcctatgaccgctatgctgc							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr14:20248835G>A	uc010tku.1	+	1	354	c.354G>A	c.(352-354)ATG>ATA	p.M118I		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	118	Helical; Name=3; (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)		TCACAGTGATGGCCTATGACC	0.507													17	190	---	---	---	---	PASS	A	20248835	A	A	20248835	3	1	26	1	0	0	0	0	1	0	0	0	11075	1348	47	3	356	3	OR4M1	14	20248835	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08		20248835	87100705	162	11443	313	2								
OR4M1	441670	broad.mit.edu	37	chr14	20248836	20248836	+	Missense_Mutation	SNP	G	T	T													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgttcttgctcacagtgatgGcctatgaccgctatgctgct							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr14:20248836G>T	uc010tku.1	+	1	355	c.355G>T	c.(355-357)GCC>TCC	p.A119S		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	119	Helical; Name=3; (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)		CACAGTGATGGCCTATGACCG	0.512													18	187	---	---	---	---	PASS	T	20248836	T	T	20248836	3	4	26	1	0	0	0	0	1	0	0	0	11075	1203	42	3	357	3	OR4M1	14	20248836	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	1	20248836	87100704	163	11444	313	2								
PRKD1	5587	broad.mit.edu	37	chr14	30066794	30066794	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tcttcattaaatgggaatgtGccgcttaggcttacatagat	9	7	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr14:30066794G>A	uc001wqh.2	-	16	2518	c.2337C>T	c.(2335-2337)GGC>GGT	p.G779G		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	779	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		ATGGGAATGTGCCGCTTAGGC	0.463													9	82	---	---	---	---	PASS	A	30066794	A	A	30066794	2	1	26	1	0	0	0	0	0	0	0	1	12518	1306	46	3		3	PRKD1	14	30066794	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	9817958	30066794	77282746	164	11445										
BAZ1A	11177	broad.mit.edu	37	chr14	35231082	35231082	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tggcaatgactctgaagttaGggaagttgggactattttct	12	5	2	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr14:35231082G>A	uc001wsk.2	-	24	4692	c.4124C>T	c.(4123-4125)CCT>CTT	p.P1375L	BAZ1A_uc001wsl.2_Missense_Mutation_p.P1343L	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1375					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		TCTGAAGTTAGGGAAGTTGGG	0.403													10	114	---	---	---	---	PASS	A	35231082	A	A	35231082	3	1	26	1	0	0	0	0	1	0	0	0	1329	1000	35	3	562	3	BAZ1A	14	35231082	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	5164288	35231082	72118458	165	11446										
SERPINA4	5267	broad.mit.edu	37	chr14	95035794	95035794	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gaggctgcagcagccaccagCttcgcgatcaaattcttctc	9	14	3	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr14:95035794C>A	uc001ydk.2	+	5	1212	c.1146C>A	c.(1144-1146)AGC>AGA	p.S382R	SERPINA4_uc010avd.2_Missense_Mutation_p.S419R|SERPINA4_uc001ydl.2_Missense_Mutation_p.S382R	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	382				S -> T (in Ref. 1 and 2).	regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		CAGCCACCAGCTTCGCGATCA	0.557													5	26	---	---	---	---	PASS	A	95035794	A	A	95035794	3	1	26	1	0	0	0	0	1	0	0	0	14091	796	28	3	1160	3	SERPINA4	14	95035794	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	59804712	95035794	12313746	166	11447										
ATP10A	57194	broad.mit.edu	37	chr15	25959128	25959128	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tcctgctcctgagcaagctcCgaggcccagttgtccgcctg	11	16	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr15:25959128C>A	uc010ayu.2	-	10	2143	c.2037G>T	c.(2035-2037)TCG>TCT	p.S679S		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	679	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GAGCAAGCTCCGAGGCCCAGT	0.677													4	28	---	---	---	---	PASS	A	25959128	A	A	25959128	2	1	26	1	0	0	0	0	0	0	0	1	1116	639	23	1		1	ATP10A	15	25959128	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08		25959128	76572264	167	11448										
RPAP1	26015	broad.mit.edu	37	chr15	41827820	41827820	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgcttctcttaccagatgttGctgatttcccctgtggggca	10	11	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr15:41827820G>T	uc001zod.2	-	5	555	c.431C>A	c.(430-432)GCA>GAA	p.A144E		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	144						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		ACCAGATGTTGCTGATTTCCC	0.502													3	48	---	---	---	---	PASS	T	41827820	T	T	41827820	3	4	26	1	0	0	0	0	1	0	0	0	13541	1319	46	3	3834	3	RPAP1	15	41827820	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	15868692	41827820	60703572	168	11449										
SLC24A5	283652	broad.mit.edu	37	chr15	48434509	48434509	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tcagttctatatgaacttggAattattggaaataataaaat	6	3	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr15:48434509A>T	uc001zwe.2	+	9	1537	c.1464A>T	c.(1462-1464)GGA>GGT	p.G488G	SLC24A5_uc010bel.2_Silent_p.G428G|MYEF2_uc001zwg.3_3'UTR|MYEF2_uc001zwh.3_3'UTR|MYEF2_uc001zwi.3_3'UTR|MYEF2_uc001zwj.3_3'UTR|SLC24A5_uc001zwk.2_Silent_p.G119G	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	488	Helical; Name=11; (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)		ATGAACTTGGAATTATTGGAA	0.373													7	57	---	---	---	---	PASS	T	48434509	T	T	48434509	2	4	26	1	0	0	0	0	0	0	0	1	14469	233	9	5		5	SLC24A5	15	48434509	Silent	SNP	A	TCGA-21-5784-01A-01D-1632-08	6606689	48434509	54096883	169	11450										
WDR72	256764	broad.mit.edu	37	chr15	53908393	53908393	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acgttactccattttgtcttCacaggcaagacattaaaagg	7	9	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr15:53908393C>T	uc002acj.2	-	15	2052	c.2010G>A	c.(2008-2010)GTG>GTA	p.V670V	WDR72_uc010bfi.1_Silent_p.V670V	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	670										lung(1)|skin(1)	2				all cancers(107;0.0511)		ATTTTGTCTTCACAGGCAAGA	0.343													3	28	---	---	---	---	PASS	T	53908393	T	T	53908393	2	4	26	1	0	0	0	0	0	0	0	1	17319	813	29	2		2	WDR72	15	53908393	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	5473884	53908393	48622999	170	11451										
ZNF280D	54816	broad.mit.edu	37	chr15	56961049	56961049	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	caggaggcaatccttctagtTgtttaggttttataaatgtt	9	5	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr15:56961049T>A	uc002adu.2	-	14	1734	c.1517A>T	c.(1516-1518)CAA>CTA	p.Q506L	ZNF280D_uc002adv.2_Missense_Mutation_p.Q493L|ZNF280D_uc010bfq.2_Missense_Mutation_p.Q506L|ZNF280D_uc002adw.1_Missense_Mutation_p.Q534L|ZNF280D_uc010bfr.1_RNA|ZNF280D_uc010bfp.2_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	506					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		TCCTTCTAGTTGTTTAGGTTT	0.333													4	60	---	---	---	---	PASS	A	56961049	A	A	56961049	3	1	26	1	0	0	0	0	1	0	0	0	17814	1812	63	5	1458	5	ZNF280D	15	56961049	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	3052656	56961049	45570343	171	11452										
LBXCOR1	390598	broad.mit.edu	37	chr15	68118713	68118713	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ccgagaacttcgccttcgatGtggtgcacgagtgcgcgtgg	15	11	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr15:68118713G>A	uc002aqy.1	+	2	520	c.520G>A	c.(520-522)GTG>ATG	p.V174M		NM_001031807	NP_001026977	P84550	SKOR1_HUMAN	transcriptional corepressor Corl1	183					negative regulation of BMP signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|dendrite|neuronal cell body|nucleus	nucleotide binding|SMAD binding|transcription repressor activity				0						CGCCTTCGATGTGGTGCACGA	0.607													6	57	---	---	---	---	PASS	A	68118713	A	A	68118713	3	1	26	1	0	0	0	0	1	0	0	0	8655	1377	48	3	526	3	LBXCOR1	15	68118713	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	11157664	68118713	34412679	172	11453										
RASGRF1	5923	broad.mit.edu	37	chr15	79339108	79339108	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctgttcaggaagatgctgctGacgtcgtcgtgtgtgatggg	16	7	1	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr15:79339108G>A	uc002beq.2	-	5	1233	c.858C>T	c.(856-858)GTC>GTT	p.V286V	RASGRF1_uc002bep.2_Silent_p.V286V|RASGRF1_uc010blm.1_Silent_p.V208V|RASGRF1_uc002ber.3_Silent_p.V286V	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	286	DH.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						AGATGCTGCTGACGTCGTCGT	0.572													10	82	---	---	---	---	PASS	A	79339108	A	A	79339108	2	1	26	1	0	0	0	0	0	0	0	1	13072	1277	45	2		2	RASGRF1	15	79339108	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	11220395	79339108	23192284	173	11454										
ALPK3	57538	broad.mit.edu	37	chr15	85383868	85383868	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	caaggggaaggcacccctcaGggctagaagcgagggggtgc	18	10	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr15:85383868G>A	uc002ble.2	+	5	2131	c.1964G>A	c.(1963-1965)AGG>AAG	p.R655K		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	655					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GCACCCCTCAGGGCTAGAAGC	0.652													3	43	---	---	---	---	PASS	A	85383868	A	A	85383868	3	1	26	1	0	0	0	0	1	0	0	0	546	1000	35	3	1982	3	ALPK3	15	85383868	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	6044760	85383868	17147524	174	11455										
CDH8	1006	broad.mit.edu	37	chr16	61747770	61747770	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tttttcttgatggtgaaattCggattgttgaccatttctgg	10	5	2	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr16:61747770C>T	uc002eog.1	-	10	1881	c.1629G>A	c.(1627-1629)CCG>CCA	p.P543P		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	543	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TGGTGAAATTCGGATTGTTGA	0.333													5	35	---	---	---	---	PASS	T	61747770	T	T	61747770	2	4	26	1	0	0	0	0	0	0	0	1	3116	871	31	2		2	CDH8	16	61747770	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08		61747770	28606983	175	11456										
COX4I1	1327	broad.mit.edu	37	chr16	85840455	85840455	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cttagcctccaagtgggactAcgaaaagaacgagtggaaga	12	8	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr16:85840455A>T	uc002fje.2	+	5	649	c.485A>T	c.(484-486)TAC>TTC	p.Y162F	COX4I1_uc002fjf.2_3'UTR|COX4I1_uc002fjg.1_3'UTR|COX4I1_uc010vom.1_Missense_Mutation_p.Y129F	NM_001861	NP_001852	P13073	COX41_HUMAN	cytochrome c oxidase subunit IV isoform 1	162					respiratory electron transport chain	mitochondrial inner membrane|nucleus	cytochrome-c oxidase activity|protein binding			lung(1)	1		Renal(780;0.228)				AAGTGGGACTACGAAAAGAAC	0.557													6	32	---	---	---	---	PASS	T	85840455	T	T	85840455	3	4	26	1	0	0	0	0	1	0	0	0	3769	391	14	5	499	5	COX4I1	16	85840455	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	24092685	85840455	4514298	176	11457										
TCF25	22980	broad.mit.edu	37	chr16	89973675	89973675	+	Missense_Mutation	SNP	G	T	T													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgaccacgcagtctgtgatgGggtttgatcctctgcctcct							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr16:89973675G>T	uc002fpb.2	+	16	1826	c.1744G>T	c.(1744-1746)GGG>TGG	p.G582W	TCF25_uc002fpc.2_Missense_Mutation_p.G347W	NM_014972	NP_055787	Q9BQ70	TCF25_HUMAN	NULP1	582					heart development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(9;4.71e-08)|Lung NSC(15;0.000192)|all_lung(18;0.000319)|all_neural(9;0.0122)|all_hematologic(23;0.027)		BRCA - Breast invasive adenocarcinoma(80;0.0288)		GTCTGTGATGGGGTTTGATCC	0.567													35	169	---	---	---	---	PASS	T	89973675	T	T	89973675	3	4	26	1	0	0	0	0	1	0	0	0	15690	1232	43	3	1806	3	TCF25	16	89973675	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	4133220	89973675	381078	177	11458	314	2								
TCF25	22980	broad.mit.edu	37	chr16	89973676	89973676	+	Missense_Mutation	SNP	G	T	T													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gaccacgcagtctgtgatggGgtttgatcctctgcctcctt							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr16:89973676G>T	uc002fpb.2	+	16	1827	c.1745G>T	c.(1744-1746)GGG>GTG	p.G582V	TCF25_uc002fpc.2_Missense_Mutation_p.G347V	NM_014972	NP_055787	Q9BQ70	TCF25_HUMAN	NULP1	582					heart development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(9;4.71e-08)|Lung NSC(15;0.000192)|all_lung(18;0.000319)|all_neural(9;0.0122)|all_hematologic(23;0.027)		BRCA - Breast invasive adenocarcinoma(80;0.0288)		TCTGTGATGGGGTTTGATCCT	0.572													35	169	---	---	---	---	PASS	T	89973676	T	T	89973676	3	4	26	1	0	0	0	0	1	0	0	0	15690	1232	43	3	1807	3	TCF25	16	89973676	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	1	89973676	381077	178	11459	314	2								
SMG6	23293	broad.mit.edu	37	chr17	2203562	2203562	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggacttcttcctcctccaccCgactggcggattctttgcta	8	15	2	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr17:2203562C>A	uc002fub.1	-	2	540	c.485G>T	c.(484-486)CGG>CTG	p.R162L	SMG6_uc002fud.1_Missense_Mutation_p.R131L	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	162	Interaction with telomeric DNA.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						CTCCTCCACCCGACTGGCGGA	0.463													34	158	---	---	---	---	PASS	A	2203562	A	A	2203562	3	1	26	1	0	0	0	0	1	0	0	0	14797	652	23	1	3846	1	SMG6	17	2203562	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08		2203562	78991648	179	11460										
ITGAE	3682	broad.mit.edu	37	chr17	3663533	3663533	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctttggctctctgaaagtctGggggatcaatgcttcctgag	12	9	3	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr17:3663533G>A	uc002fwo.3	-	7	746	c.647C>T	c.(646-648)CCA>CTA	p.P216L		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	216	VWFA.|Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		CTGAAAGTCTGGGGGATCAAT	0.473													7	28	---	---	---	---	PASS	A	3663533	A	A	3663533	3	1	26	1	0	0	0	0	1	0	0	0	7885	1348	47	3	2992	3	ITGAE	17	3663533	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	1459971	3663533	77531677	180	11461										
TP53	7157	broad.mit.edu	37	chr17	7579414	7579414	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gggacagaagatgacaggggCcaggagggggctggtgcagg	22	6	0	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr17:7579414C>T	uc002gim.2	-	4	467	c.273G>A	c.(271-273)TGG>TGA	p.W91*	TP53_uc002gig.1_Nonsense_Mutation_p.W91*|TP53_uc002gih.2_Nonsense_Mutation_p.W91*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Nonsense_Mutation_p.W91*|TP53_uc010cni.1_Nonsense_Mutation_p.W91*|TP53_uc002gij.2_Nonsense_Mutation_p.W91*|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Nonsense_Mutation_p.W52*|TP53_uc010cnk.1_Nonsense_Mutation_p.W106*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	91	Interaction with WWOX.		W -> C (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.W91*(11)|p.0?(7)|p.G59fs*23(3)|p.V73fs*9(1)|p.D48fs*55(1)|p.P92fs*57(1)|p.W91fs*57(1)|p.A88fs*52(1)|p.W91fs*13(1)|p.P87fs*54(1)|p.P13fs*18(1)|p.S33fs*23(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)		ATGACAGGGGCCAGGAGGGGG	0.627		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)			14	40	---	---	---	---	PASS	T	7579414	T	T	7579414	4	4	26	1	0	0	0	0	0	1	0	0	16378	740	26	3	1029	3	TP53	17	7579414	Nonsense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	3915881	7579414	73615796	181	11462										
DNAH9	1770	broad.mit.edu	37	chr17	11572717	11572717	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acggtataccagatttggcaAacatgcggcgcacactcatg	10	11	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr17:11572717A>G	uc002gne.2	+	17	3027	c.2959A>G	c.(2959-2961)AAC>GAC	p.N987D	DNAH9_uc010coo.2_Missense_Mutation_p.N281D	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	987	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AGATTTGGCAAACATGCGGCG	0.557													3	23	---	---	---	---	PASS	G	11572717	G	G	11572717	3	3	26	1	0	0	0	0	1	0	0	0	4608	14	1	5	3025	5	DNAH9	17	11572717	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	3993303	11572717	69622493	182	11463										
LLGL1	3996	broad.mit.edu	37	chr17	18136004	18136004	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	agggccgcctcctgtccctgCttgatgacagcagtctgcat	11	14	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr17:18136004C>A	uc002gsp.2	+	4	341	c.280C>A	c.(280-282)CTT>ATT	p.L94I		NM_004140	NP_004131	Q15334	L2GL1_HUMAN	lethal giant larvae homolog 1	94	WD 2.				cortical actin cytoskeleton organization|exocytosis|protein complex assembly	cortical actin cytoskeleton	protein kinase binding|structural molecule activity			breast(2)|skin(2)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)	6	all_neural(463;0.228)					CCTGTCCCTGCTTGATGACAG	0.592													7	61	---	---	---	---	PASS	A	18136004	A	A	18136004	3	1	26	1	0	0	0	0	1	0	0	0	8833	797	28	3	294	3	LLGL1	17	18136004	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	6563287	18136004	63059206	183	11464										
FOXN1	8456	broad.mit.edu	37	chr17	26851655	26851655	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggccactgcccagccggcccCggccctgggcccttcaggct	13	20	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr17:26851655C>T	uc010crm.2	+	3	456	c.258C>T	c.(256-258)CCC>CCT	p.P86P	FOXN1_uc002hbj.2_Silent_p.P86P	NM_003593	NP_003584	O15353	FOXN1_HUMAN	forkhead box N1	86					defense response|embryo development|epithelial cell proliferation|keratinocyte differentiation|organ morphogenesis|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|thymus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			skin(1)	1	Lung NSC(42;0.00431)					CAGCCGGCCCCGGCCCTGGGC	0.687													9	27	---	---	---	---	PASS	T	26851655	T	T	26851655	2	4	26	1	0	0	0	0	0	0	0	1	6019	639	23	1		1	FOXN1	17	26851655	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	8715651	26851655	54343555	184	11465										
CDK5R1	8851	broad.mit.edu	37	chr17	30815095	30815095	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cgtccaccagtgagctgcttCgctgcctgggtgagtttctc	12	13	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr17:30815095C>G	uc002hhn.2	+	2	678	c.457C>G	c.(457-459)CGC>GGC	p.R153G	CDK5R1_uc010wca.1_Missense_Mutation_p.R153G|CDK5R1_uc010ctc.2_5'UTR	NM_003885	NP_003876	Q15078	CD5R1_HUMAN	cyclin-dependent kinase 5, regulatory subunit 1	153					axon guidance|axonal fasciculation|brain development|cell proliferation|embryo development|ionotropic glutamate receptor signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of transcription, DNA-dependent|neuron cell-cell adhesion|neuron migration|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of neuron apoptosis|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation	axon|contractile fiber|cyclin-dependent protein kinase 5 holoenzyme complex|cytosol|dendritic spine|growth cone|neuromuscular junction|neuronal cell body|perinuclear region of cytoplasm|plasma membrane	cadherin binding|calcium ion binding|protein kinase binding			ovary(1)	1		Breast(31;0.159)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.0938)			TGAGCTGCTTCGCTGCCTGGG	0.682													4	57	---	---	---	---	PASS	G	30815095	G	G	30815095	3	3	26	1	0	0	0	0	1	0	0	0	3143	884	31	2	459	2	CDK5R1	17	30815095	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	3963440	30815095	50380115	185	11466										
GRN	2896	broad.mit.edu	37	chr17	42426621	42426621	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tcagttctgccctgtggcctGctgcctggaccccggaggag	14	14	2	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr17:42426621G>A	uc002igp.1	+	2	308	c.89G>A	c.(88-90)TGC>TAC	p.C30Y	GRN_uc002igq.1_Missense_Mutation_p.C30Y|GRN_uc002igr.1_5'Flank	NM_002087	NP_002078	P28799	GRN_HUMAN	granulin precursor	30					signal transduction	extracellular space	cytokine activity|growth factor activity			ovary(2)|central_nervous_system(2)|skin(1)	5		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		CCTGTGGCCTGCTGCCTGGAC	0.647													3	42	---	---	---	---	PASS	A	42426621	A	A	42426621	3	1	26	1	0	0	0	0	1	0	0	0	6804	1319	46	3	91	3	GRN	17	42426621	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	11611526	42426621	38768589	186	11467										
SCN4A	6329	broad.mit.edu	37	chr17	62036723	62036723	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gctgtcgaagatattccaacCctgctggaaatactcgtagg	10	10	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr17:62036723C>A	uc002jds.1	-	12	1998	c.1921G>T	c.(1921-1923)GGT>TGT	p.G641C		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	641	Helical; Name=S3 of repeat II; (Potential).|II.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	ATATTCCAACCCTGCTGGAAA	0.557													4	21	---	---	---	---	PASS	A	62036723	A	A	62036723	3	1	26	1	0	0	0	0	1	0	0	0	13920	623	22	3	3641	3	SCN4A	17	62036723	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	19610102	62036723	19158487	187	11468										
H3F3B	3021	broad.mit.edu	37	chr17	73775177	73775177	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggtagagggagcgcttttccTggcggctttcgtggccagct	16	10	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr17:73775177T>C	uc002jpl.2	-	2	212	c.79A>G	c.(79-81)AGG>GGG	p.R27G		NM_005324	NP_005315	P84243	H33_HUMAN	H3 histone, family 3B	27					blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding			ovary(1)	1	all_cancers(13;1.5e-07)		all cancers(21;2.61e-06)|Epithelial(20;7.39e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCGCTTTTCCTGGCGGCTTTC	0.622											OREG0024740	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	19	---	---	---	---	PASS	C	73775177	C	C	73775177	3	2	26	1	0	0	0	0	1	0	0	0	6934	1579	55	5	343	5	H3F3B	17	73775177	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	11738454	73775177	7420033	188	11469										
ZNF521	25925	broad.mit.edu	37	chr18	22669518	22669518	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	atgggcagagaaaatatgctGctgcaacttgtttgcttgaa	11	6	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr18:22669518G>T	uc002kvk.2	-	7	4064	c.3817C>A	c.(3817-3819)CAG>AAG	p.Q1273K	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.Q1273K|ZNF521_uc002kvl.2_Missense_Mutation_p.Q1053K	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	1273	C2H2-type 29.				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)					AAAATATGCTGCTGCAACTTG	0.398			T	PAX5	ALL								10	57	---	---	---	---	PASS	T	22669518	T	T	22669518	3	4	26	1	0	0	0	0	1	0	0	0	17962	1328	46	3	126	3	ZNF521	18	22669518	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08		22669518	55407730	189	11470										
DSG4	147409	broad.mit.edu	37	chr18	28993227	28993227	+	Missense_Mutation	SNP	C	A	A													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttttgatcctcagcttgcacCcaatgttgtagtaaccgaag							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr18:28993227C>A	uc002kwq.2	+	16	2927	c.2792C>A	c.(2791-2793)CCC>CAC	p.P931H	DSG4_uc002kwr.2_Missense_Mutation_p.P950H	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	931	Cytoplasmic (Potential).|Desmoglein repeat 2.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			CAGCTTGCACCCAATGTTGTA	0.413													28	124	---	---	---	---	PASS	A	28993227	A	A	28993227	3	1	26	1	0	0	0	0	1	0	0	0	4779	623	22	3	2975	3	DSG4	18	28993227	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	6323709	28993227	49084021	190	11471	315	2								
DSG4	147409	broad.mit.edu	37	chr18	28993228	28993228	+	Silent	SNP	C	G	G													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tttgatcctcagcttgcaccCaatgttgtagtaaccgaagc							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr18:28993228C>G	uc002kwq.2	+	16	2928	c.2793C>G	c.(2791-2793)CCC>CCG	p.P931P	DSG4_uc002kwr.2_Silent_p.P950P	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	931	Cytoplasmic (Potential).|Desmoglein repeat 2.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			AGCTTGCACCCAATGTTGTAG	0.413													28	128	---	---	---	---	PASS	G	28993228	G	G	28993228	2	3	26	1	0	0	0	0	0	0	0	1	4779	581	21	4		4	DSG4	18	28993228	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	1	28993228	49084020	191	11472	315	2								
DSG2	1829	broad.mit.edu	37	chr18	29126518	29126518	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttctagcacctgcttccactCtgcaatccagttaccagatt	5	14	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr18:29126518C>T	uc002kwu.3	+	15	3357	c.3169C>T	c.(3169-3171)CTG>TTG	p.L1057L	uc002kwv.3_Intron	NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	1057	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			TGCTTCCACTCTGCAATCCAG	0.517													7	64	---	---	---	---	PASS	T	29126518	T	T	29126518	2	4	26	1	0	0	0	0	0	0	0	1	4777	912	32	2		2	DSG2	18	29126518	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	133290	29126518	48950730	192	11473										
DCC	1630	broad.mit.edu	37	chr18	50705330	50705330	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctctgcaactttgatttctcAgggaacgagcattgaataca	8	9	2	2	rs34244428		TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr18:50705330A>T	uc002lfe.1	+	9	2006	c.1419_splice	c.e9-2	p.R473_splice	DCC_uc010xdr.1_Splice_Site_p.R321_splice|DCC_uc010dpf.1_Splice_Site_p.R128_splice	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor						apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TTGATTTCTCAGGGAACGAGC	0.438													4	27	---	---	---	---	PASS	T	50705330	T	T	50705330	5	4	26	1	0	0	0	0	0	0	1	0	4282	202	7	5	1451	5	DCC	18	50705330	Splice_Site	SNP	A	TCGA-21-5784-01A-01D-1632-08	21578812	50705330	27371918	193	11474										
C18orf54	162681	broad.mit.edu	37	chr18	51887006	51887006	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cttcagtatctgccctgctgGcaagctgcaccctgagtggt	11	13	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr18:51887006G>C	uc002lfn.3	+	2	180	c.64G>C	c.(64-66)GCA>CCA	p.A22P	C18orf54_uc002lfo.3_Missense_Mutation_p.A22P	NM_173529	NP_775800	Q8IYD9	CR054_HUMAN	hypothetical protein LOC162681 precursor	22						extracellular region				ovary(1)|skin(1)	2				Colorectal(16;0.0206)|READ - Rectum adenocarcinoma(59;0.186)		TGCCCTGCTGGCAAGCTGCAC	0.418													17	71	---	---	---	---	PASS	C	51887006	C	C	51887006	3	2	26	1	0	0	0	0	1	0	0	0	1904	1203	42	4	66	4	C18orf54	18	51887006	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	1181676	51887006	26190242	194	11475										
KDSR	2531	broad.mit.edu	37	chr18	61022457	61022457	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttcaaaggtactaacttcaaGatcttcaaattttcctgaca	4	9	4	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr18:61022457G>T	uc010dpw.2	-	5	552	c.397C>A	c.(397-399)CTT>ATT	p.L133I	KDSR_uc010xem.1_Missense_Mutation_p.L133I	NM_002035	NP_002026	Q06136	KDSR_HUMAN	3-ketodihydrosphingosine reductase precursor	133	Cytoplasmic (Potential).				3-keto-sphinganine metabolic process	endoplasmic reticulum membrane|extracellular space|integral to membrane	3-dehydrosphinganine reductase activity|binding			skin(1)	1						CTAACTTCAAGATCTTCAAAT	0.413													21	71	---	---	---	---	PASS	T	61022457	T	T	61022457	3	4	26	1	0	0	0	0	1	0	0	0	8140	942	33	2	625	2	KDSR	18	61022457	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	9135451	61022457	17054791	195	11476										
C18orf22	79863	broad.mit.edu	37	chr18	77794645	77794645	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tggctcaagaaatttgcctcGaaaaccaagtaatgcggcgg	11	9	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr18:77794645G>C	uc002lns.2	+	1	288	c.150G>C	c.(148-150)TCG>TCC	p.S50S	TXNL4A_uc010drg.2_5'Flank|C18orf22_uc010drh.2_Silent_p.S50S|C18orf22_uc010dri.1_RNA	NM_024805	NP_079081	Q8N0V3	RBFA_HUMAN	hypothetical protein LOC79863 precursor	50					rRNA processing	mitochondrion					0		all_cancers(4;3.21e-14)|all_epithelial(4;7.11e-09)|all_lung(4;0.00366)|Lung NSC(4;0.00683)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0545)|all_hematologic(56;0.15)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;6.46e-08)|BRCA - Breast invasive adenocarcinoma(31;0.00376)		AATTTGCCTCGAAAACCAAGT	0.632													4	55	---	---	---	---	PASS	C	77794645	C	C	77794645	2	2	26	1	0	0	0	0	0	0	0	1	1898	1045	37	2		2	C18orf22	18	77794645	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	16772188	77794645	282603	196	11477										
THEG	51298	broad.mit.edu	37	chr19	372678	372678	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aatctcttgggccgagacagTtcctccacgcggcgggacac	12	14	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr19:372678T>A	uc002lol.2	-	5	627	c.588A>T	c.(586-588)GAA>GAT	p.E196D	THEG_uc002lom.2_Missense_Mutation_p.E172D	NM_016585	NP_057669	Q9P2T0	THEG_HUMAN	Theg homolog isoform 1	196	THEG 2.				cell differentiation|chaperone-mediated protein complex assembly|multicellular organismal development|spermatogenesis	nucleus	protein binding			ovary(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCGAGACAGTTCCTCCACGC	0.552													4	40	---	---	---	---	PASS	A	372678	A	A	372678	3	1	26	1	0	0	0	0	1	0	0	0	15854	1722	60	5	567	5	THEG	19	372678	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08		372678	58756305	197	11478										
PLIN5	440503	broad.mit.edu	37	chr19	4529157	4529157	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttccagtacaacatccacagCatggctcacggagcgcttca	8	14	2	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr19:4529157C>A	uc002mas.2	-	5	501	c.448G>T	c.(448-450)GCT>TCT	p.A150S	PLIN5_uc002mat.1_3'UTR	NM_001013706	NP_001013728	Q00G26	PLIN5_HUMAN	lipid storage droplet protein 5	150						lipid particle					0						ACATCCACAGCATGGCTCACG	0.627													8	135	---	---	---	---	PASS	A	4529157	A	A	4529157	3	1	26	1	0	0	0	0	1	0	0	0	12093	710	25	3	959	3	PLIN5	19	4529157	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	4156479	4529157	54599826	198	11479										
C3	718	broad.mit.edu	37	chr19	6707815	6707815	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctggtggcgacctcacctgcCctctgggcggtctgctggcc	14	16	3	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr19:6707815C>G	uc002mfm.2	-	15	2033	c.1971G>C	c.(1969-1971)AGG>AGC	p.R657S		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	657					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		CCTCACCTGCCCTCTGGGCGG	0.557													5	78	---	---	---	---	PASS	G	6707815	G	G	6707815	3	3	26	1	0	0	0	0	1	0	0	0	2204	622	22	4	3128	4	C3	19	6707815	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	2178658	6707815	52421168	199	11480										
ZNF763	284390	broad.mit.edu	37	chr19	12089452	12089452	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acaatgtgttaaatcctttaGttattctgctacccatcgaa	5	9	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr19:12089452G>T	uc002msw.2	+	4	868	c.713G>T	c.(712-714)AGT>ATT	p.S238I	ZNF763_uc010xmf.1_Missense_Mutation_p.S258I|ZNF763_uc002msv.2_Missense_Mutation_p.S241I|ZNF763_uc010xmg.1_Missense_Mutation_p.S116I	NM_001012753	NP_001012771	Q0D2J5	ZN763_HUMAN	zinc finger protein 763	238	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						AAATCCTTTAGTTATTCTGCT	0.378													6	55	---	---	---	---	PASS	T	12089452	T	T	12089452	3	4	26	1	0	0	0	0	1	0	0	0	18134	1029	36	3	736	3	ZNF763	19	12089452	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	5381637	12089452	47039531	200	11481										
ZNF98	148198	broad.mit.edu	37	chr19	22574667	22574667	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	atttgtagggtttctctccaGtatgaattatcttatgtgta	8	5	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr19:22574667G>T	uc002nqt.2	-	4	1492	c.1370C>A	c.(1369-1371)ACT>AAT	p.T457N		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	457					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				TTTCTCTCCAGTATGAATTAT	0.373													3	76	---	---	---	---	PASS	T	22574667	T	T	22574667	3	4	26	1	0	0	0	0	1	0	0	0	18200	1029	36	3	352	3	ZNF98	19	22574667	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	10485215	22574667	36554316	201	11482										
FCGBP	8857	broad.mit.edu	37	chr19	40367871	40367871	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggacagctggctgggcagggTgggccacagacctcatagtg	17	10	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr19:40367871T>G	uc002omp.3	-	29	13097	c.13089A>C	c.(13087-13089)CCA>CCC	p.P4363P		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4363	TIL 10.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CTGGGCAGGGTGGGCCACAGA	0.622													6	21	---	---	---	---	PASS	G	40367871	G	G	40367871	2	3	26	1	0	0	0	0	0	0	0	1	5778	1683	59	5		5	FCGBP	19	40367871	Silent	SNP	T	TCGA-21-5784-01A-01D-1632-08	17793204	40367871	18761112	202	11483										
PEG3	5178	broad.mit.edu	37	chr19	57328547	57328547	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acgctcatggcttttctcatCtcactaccacattcaaaggg	6	13	4	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr19:57328547C>T	uc002qnu.2	-	7	1614	c.1263G>A	c.(1261-1263)GAG>GAA	p.E421E	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.E392E|PEG3_uc002qnv.2_Silent_p.E421E|PEG3_uc002qnw.2_Silent_p.E297E|PEG3_uc002qnx.2_Silent_p.E295E|PEG3_uc010etr.2_Silent_p.E421E	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	421					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CTTTTCTCATCTCACTACCAC	0.493													18	106	---	---	---	---	PASS	T	57328547	T	T	57328547	2	4	26	1	0	0	0	0	0	0	0	1	11720	912	32	2		2	PEG3	19	57328547	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	16960676	57328547	1800436	203	11484										
IDH3B	3420	broad.mit.edu	37	chr20	2641562	2641562	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ccagaccacctacctcagccGcatatcataggaggctagct	8	15	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr20:2641562G>A	uc002wgp.2	-	5	400	c.391C>T	c.(391-393)CGG>TGG	p.R131W	IDH3B_uc002wgq.2_Missense_Mutation_p.R131W|IDH3B_uc002wgr.2_5'UTR|IDH3B_uc010zpz.1_Missense_Mutation_p.R131W	NM_006899	NP_008830	O43837	IDH3B_HUMAN	isocitrate dehydrogenase 3, beta subunit isoform	131					isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	electron carrier activity|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0					NADH(DB00157)	TACCTCAGCCGCATATCATAG	0.567													3	58	---	---	---	---	PASS	A	2641562	A	A	2641562	3	1	26	1	0	0	0	0	1	0	0	0	7497	1086	38	1	958	1	IDH3B	20	2641562	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08		2641562	60383958	204	11485										
SIGLEC1	6614	broad.mit.edu	37	chr20	3677499	3677499	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ccatgtggccctggcccatgTctaggagggctgacagcttt	13	12	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr20:3677499T>C	uc002wja.2	-	10	2417	c.2417A>G	c.(2416-2418)GAC>GGC	p.D806G	SIGLEC1_uc002wiz.3_Missense_Mutation_p.D806G	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	806	Ig-like C2-type 8.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						CTGGCCCATGTCTAGGAGGGC	0.622													3	32	---	---	---	---	PASS	C	3677499	C	C	3677499	3	2	26	1	0	0	0	0	1	0	0	0	14305	1667	58	5	2760	5	SIGLEC1	20	3677499	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	1035937	3677499	59348021	205	11486										
MKKS	8195	broad.mit.edu	37	chr20	10389284	10389284	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttcattacctaccttcagctCatcccaggcagtgtcatttc	5	14	4	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr20:10389284C>T	uc002wnt.1	-	4	2040	c.1153G>A	c.(1153-1155)GAG>AAG	p.E385K	MKKS_uc002wnu.1_Missense_Mutation_p.E385K|MKKS_uc010zrd.1_RNA	NM_018848	NP_061336	Q9NPJ1	MKKS_HUMAN	McKusick-Kaufman syndrome protein	385					brain morphogenesis|cerebral cortex development|convergent extension involved in gastrulation|detection of mechanical stimulus involved in sensory perception of sound|fat cell differentiation|flagellum assembly|gonad development|heart looping|hippocampus development|intracellular transport|melanosome transport|photoreceptor cell maintenance|pigment granule aggregation in cell center|protein folding|regulation of cilium beat frequency involved in ciliary motility|sensory perception of smell|social behavior|spermatid development|striatum development	cytosol|microtubule organizing center|motile cilium	ATP binding|unfolded protein binding				0						ACCTTCAGCTCATCCCAGGCA	0.388									Bardet-Biedl_syndrome				4	56	---	---	---	---	PASS	T	10389284	T	T	10389284	3	4	26	1	0	0	0	0	1	0	0	0	9600	835	29	2	571	2	MKKS	20	10389284	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	6711785	10389284	52636236	206	11487										
SEL1L2	80343	broad.mit.edu	37	chr20	13856732	13856732	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aaggcagtagcgttattttgCggcacggcagcattcccctc	11	12	0	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr20:13856732C>T	uc010gcf.2	-	12	1138	c.1056G>A	c.(1054-1056)CCG>CCA	p.P352P	SEL1L2_uc002woq.3_Silent_p.P213P|SEL1L2_uc010zrl.1_Silent_p.P352P|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	352	Extracellular (Potential).|Sel1-like 6.					integral to membrane	binding			ovary(2)	2						CGTTATTTTGCGGCACGGCAG	0.318													9	116	---	---	---	---	PASS	T	13856732	T	T	13856732	2	4	26	1	0	0	0	0	0	0	0	1	14011	755	27	1		1	SEL1L2	20	13856732	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	3467448	13856732	49168788	207	11488										
SEMG2	6407	broad.mit.edu	37	chr20	43850411	43850411	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ccacatggacaaaagggccaGcactattttggacaaaaaga	9	9	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr20:43850411G>A	uc010ggz.2	+	2	195	c.138G>A	c.(136-138)CAG>CAA	p.Q46Q	SEMG2_uc002xnk.2_Silent_p.Q46Q|SEMG2_uc002xnl.2_Silent_p.Q46Q	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	46					sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				AAAAGGGCCAGCACTATTTTG	0.388													6	88	---	---	---	---	PASS	A	43850411	A	A	43850411	2	1	26	1	0	0	0	0	0	0	0	1	14045	962	34	3		3	SEMG2	20	43850411	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	29993679	43850411	19175109	208	11489										
ZFP64	55734	broad.mit.edu	37	chr20	50769200	50769200	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	agcggcggcagcctggacgaTggtgttcgcctggggcacct	17	12	0	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr20:50769200T>A	uc002xwl.2	-	6	1880	c.1531A>T	c.(1531-1533)ATC>TTC	p.I511F	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.I509F|ZFP64_uc002xwn.2_Missense_Mutation_p.I457F	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	511					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GCCTGGACGATGGTGTTCGCC	0.647													3	27	---	---	---	---	PASS	A	50769200	A	A	50769200	3	1	26	1	0	0	0	0	1	0	0	0	17649	1464	51	5	1709	5	ZFP64	20	50769200	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	6918789	50769200	12256320	209	11490										
ZNF217	7764	broad.mit.edu	37	chr20	52199112	52199112	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gggtaggccggtgttgcattAagacatgtttattaaggtct	13	5	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr20:52199112A>G	uc002xwq.3	-	1	525	c.254T>C	c.(253-255)TTA>TCA	p.L85S	ZNF217_uc010gij.1_Missense_Mutation_p.L77S	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	85	C2H2-type 1.				negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			GTGTTGCATTAAGACATGTTT	0.458													24	134	---	---	---	---	PASS	G	52199112	G	G	52199112	3	3	26	1	0	0	0	0	1	0	0	0	17769	372	13	5	2908	5	ZNF217	20	52199112	Missense_Mutation	SNP	A	TCGA-21-5784-01A-01D-1632-08	1429912	52199112	10826408	210	11491										
CECR2	27443	broad.mit.edu	37	chr22	17956717	17956717	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	agggctgctatcaacgaagaGatatcacgtgagtaattctg	11	7	3	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr22:17956717G>T	uc010gqw.1	+	1	214	c.88G>T	c.(88-90)GAT>TAT	p.D30Y	CECR2_uc010gqv.1_5'UTR|CECR2_uc002zml.2_5'UTR	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	72					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		TCAACGAAGAGATATCACGTG	0.463													3	32	---	---	---	---	PASS	T	17956717	T	T	17956717	3	4	26	1	0	0	0	0	1	0	0	0	3206	933	33	2	92	2	CECR2	22	17956717	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08		17956717	33347849	211	11492										
ZDHHC8	29801	broad.mit.edu	37	chr22	20126807	20126807	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctggccaacttcagcatggcCactttcatggaccctggtgt	10	13	2	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr22:20126807C>T	uc002zrq.2	+	2	301	c.195C>T	c.(193-195)GCC>GCT	p.A65A	ZDHHC8_uc002zrr.1_Silent_p.A65A|ZDHHC8_uc010gsa.2_5'Flank	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	65	Helical; (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					TCAGCATGGCCACTTTCATGG	0.562													9	105	---	---	---	---	PASS	T	20126807	T	T	20126807	2	4	26	1	0	0	0	0	0	0	0	1	17618	581	21	3		3	ZDHHC8	22	20126807	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	2170090	20126807	31177759	212	11493										
KCNJ4	3761	broad.mit.edu	37	chr22	38824079	38824079	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggccgttcttcttgacgaagCggttgcggcgcttccgccgg	15	13	2	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chr22:38824079C>A	uc003avs.1	-	2	156	c.59G>T	c.(58-60)CGC>CTC	p.R20L	KCNJ4_uc003avt.1_Missense_Mutation_p.R20L	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	20	Cytoplasmic (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					CTTGACGAAGCGGTTGCGGCG	0.642													69	326	---	---	---	---	PASS	A	38824079	A	A	38824079	3	1	26	1	0	0	0	0	1	0	0	0	8053	768	27	1	1282	1	KCNJ4	22	38824079	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	18697272	38824079	12480487	213	11494										
CSF2RA	1438	broad.mit.edu	37	chrX	1424412	1424412	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgaatgataaccatgaggtgGaagacgaggtaggcaggggt	17	4	0	4			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:1424412G>C	uc010nct.2	+	13	1439	c.1117G>C	c.(1117-1119)GAA>CAA	p.E373Q	CSF2RA_uc011mhb.1_Missense_Mutation_p.E373Q|CSF2RA_uc004cpq.2_3'UTR|CSF2RA_uc004cpn.2_Missense_Mutation_p.E373Q|CSF2RA_uc004cpo.2_Missense_Mutation_p.E373Q|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Missense_Mutation_p.E240Q|CSF2RA_uc004cpp.2_Intron|CSF2RA_uc010ncv.2_Missense_Mutation_p.E407Q|CSF2RA_uc004cpr.2_3'UTR	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	373	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CCATGAGGTGGAAGACGAGGT	0.557													8	73	---	---	---	---	PASS	C	1424412	C	C	1424412	3	2	26	1	0	0	0	0	1	0	0	0	3934	1175	41	2	1261	2	CSF2RA	23	1424412	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08		1424412	153846148	214	11495										
PPEF1	5475	broad.mit.edu	37	chrX	18822079	18822079	+	Missense_Mutation	SNP	G	T	T													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	caaatacgtgccgaggagggGgctgctattttggaccagat							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:18822079G>T	uc004cyq.2	+	14	1616	c.1135G>T	c.(1135-1137)GGC>TGC	p.G379C	PPEF1_uc004cyp.2_Missense_Mutation_p.G351C|PPEF1_uc004cyr.2_Intron|PPEF1_uc004cys.2_Missense_Mutation_p.G379C|PPEF1_uc011mja.1_Missense_Mutation_p.G314C|PPEF1_uc011mjb.1_Missense_Mutation_p.G323C	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding	379	Catalytic.				detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)					CCGAGGAGGGGGCTGCTATTT	0.418													5	84	---	---	---	---	PASS	T	18822079	T	T	18822079	3	4	26	1	0	0	0	0	1	0	0	0	12307	1232	43	3	1177	3	PPEF1	23	18822079	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	17397667	18822079	136448481	215	11496	316	2								
PPEF1	5475	broad.mit.edu	37	chrX	18822080	18822080	+	Missense_Mutation	SNP	G	T	T													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aaatacgtgccgaggaggggGctgctattttggaccagatg							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:18822080G>T	uc004cyq.2	+	14	1617	c.1136G>T	c.(1135-1137)GGC>GTC	p.G379V	PPEF1_uc004cyp.2_Missense_Mutation_p.G351V|PPEF1_uc004cyr.2_Intron|PPEF1_uc004cys.2_Missense_Mutation_p.G379V|PPEF1_uc011mja.1_Missense_Mutation_p.G314V|PPEF1_uc011mjb.1_Missense_Mutation_p.G323V	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding	379	Catalytic.				detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)					CGAGGAGGGGGCTGCTATTTT	0.418													6	83	---	---	---	---	PASS	T	18822080	T	T	18822080	3	4	26	1	0	0	0	0	1	0	0	0	12307	1203	42	3	1178	3	PPEF1	23	18822080	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	1	18822080	136448480	216	11497	316	2								
YY2	404281	broad.mit.edu	37	chrX	21875391	21875391	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tcttatagcggctgcgaaaaGatgttccgggattacgccgc	12	10	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:21875391G>A	uc011mjp.1	+	1	789	c.789G>A	c.(787-789)AAG>AAA	p.K263K	MBTPS2_uc004dae.2_Intron|MBTPS2_uc010nfr.2_Intron|YY2_uc010nfq.2_Silent_p.K481K|MBTPS2_uc004dab.2_Intron	NM_206923	NP_996806	O15391	TYY2_HUMAN	YY2 transcription factor	263	Mediates transcriptional repression.|C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|plasma membrane	DNA binding|zinc ion binding			breast(1)|skin(1)	2						GCTGCGAAAAGATGTTCCGGG	0.488													10	162	---	---	---	---	PASS	A	21875391	A	A	21875391	2	1	26	1	0	0	0	0	0	0	0	1	17506	933	33	2		2	YY2	23	21875391	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	3053311	21875391	133395169	217	11498										
POLA1	5422	broad.mit.edu	37	chrX	24760118	24760118	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	aaaataaattccatttaataGtccaggacgctgatgggtgg	10	6	0	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:24760118G>C	uc004dbl.2	+	22	2352	c.2329_splice	c.e22-1	p.S777_splice	SCARNA23_uc004dbo.1_5'Flank	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1						cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	CCATTTAATAGTCCAGGACGC	0.378													18	69	---	---	---	---	PASS	C	24760118	C	C	24760118	5	2	26	1	0	0	0	0	0	0	1	0	12187	1043	36	4	2414	4	POLA1	23	24760118	Splice_Site	SNP	G	TCGA-21-5784-01A-01D-1632-08	2884727	24760118	130510442	218	11499										
MAGEB6	158809	broad.mit.edu	37	chrX	26212947	26212947	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cattcaatctatggggatgcTcggaagatcattactgaaga	10	7	3	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:26212947T>A	uc004dbr.2	+	2	1133	c.984T>A	c.(982-984)GCT>GCA	p.A328A	MAGEB6_uc010ngc.1_Silent_p.A108A	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	328	MAGE.									ovary(3)	3						ATGGGGATGCTCGGAAGATCA	0.498													14	131	---	---	---	---	PASS	A	26212947	A	A	26212947	2	1	26	1	0	0	0	0	0	0	0	1	9179	1538	54	5		5	MAGEB6	23	26212947	Silent	SNP	T	TCGA-21-5784-01A-01D-1632-08	1452829	26212947	129057613	219	11500										
CXorf21	80231	broad.mit.edu	37	chrX	30578234	30578234	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttgtctgcagcactgtgactCtctgacttctgctatgttgg	10	10	3	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:30578234C>A	uc004dcg.1	-	3	515	c.239G>T	c.(238-240)AGA>ATA	p.R80I		NM_025159	NP_079435	Q9HAI6	CX021_HUMAN	hypothetical protein LOC80231	80										ovary(1)	1						CACTGTGACTCTCTGACTTCT	0.453													18	149	---	---	---	---	PASS	A	30578234	A	A	30578234	3	1	26	1	0	0	0	0	1	0	0	0	4101	913	32	2	670	2	CXorf21	23	30578234	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	4365287	30578234	124692326	220	11501										
FAM47A	158724	broad.mit.edu	37	chrX	34149282	34149282	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctccgcgtggagactggaccCccgacgagtcttgggaggcg	16	13	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:34149282C>A	uc004ddg.2	-	1	1147	c.1114G>T	c.(1114-1116)GGG>TGG	p.G372W		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	372										ovary(4)|central_nervous_system(1)	5						AGACTGGACCCCCGACGAGTC	0.632													8	46	---	---	---	---	PASS	A	34149282	A	A	34149282	3	1	26	1	0	0	0	0	1	0	0	0	5569	623	22	3	1265	3	FAM47A	23	34149282	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	3571048	34149282	121121278	221	11502										
FAM47C	442444	broad.mit.edu	37	chrX	37026659	37026659	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggagggcatggacgacttccGctacggctgtcagtctcctg	14	12	2	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:37026659G>T	uc004ddl.1	+	1	190	c.176G>T	c.(175-177)CGC>CTC	p.R59L		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	59										ovary(3)	3						GACGACTTCCGCTACGGCTGT	0.557													3	42	---	---	---	---	PASS	T	37026659	T	T	37026659	3	4	26	1	0	0	0	0	1	0	0	0	5571	1087	38	1	178	1	FAM47C	23	37026659	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	2877377	37026659	118243901	222	11503										
FAM47C	442444	broad.mit.edu	37	chrX	37029127	37029127	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cccctgagtgcagagcaaccTatcaagaccaaaagaataag	8	11	1	4			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:37029127T>G	uc004ddl.1	+	1	2658	c.2644T>G	c.(2644-2646)TAT>GAT	p.Y882D		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	882										ovary(3)	3						CAGAGCAACCTATCAAGACCA	0.458													5	80	---	---	---	---	PASS	G	37029127	G	G	37029127	3	3	26	1	0	0	0	0	1	0	0	0	5571	1522	53	5	2646	5	FAM47C	23	37029127	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	2468	37029127	118241433	223	11504										
BCOR	54880	broad.mit.edu	37	chrX	39933450	39933450	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttggagagcctggccgcgggGaactcgctgctaactgtcat	14	11	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:39933450G>A	uc004den.3	-	4	1441	c.1149C>T	c.(1147-1149)TTC>TTT	p.F383F	BCOR_uc004dep.3_Silent_p.F383F|BCOR_uc004deo.3_Silent_p.F383F|BCOR_uc004dem.3_Silent_p.F383F|BCOR_uc004deq.3_Silent_p.F383F	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	383					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						TGGCCGCGGGGAACTCGCTGC	0.602													4	25	---	---	---	---	PASS	A	39933450	A	A	39933450	2	1	26	1	0	0	0	0	0	0	0	1	1386	1165	41	2		2	BCOR	23	39933450	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	2904323	39933450	115337110	224	11505										
PHF16	9767	broad.mit.edu	37	chrX	46918459	46918459	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gcaagacacatcccctttccCacagttcaatgcaaaggtga	7	13	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:46918459C>A	uc004dgx.2	+	11	2503	c.2452C>A	c.(2452-2454)CAC>AAC	p.H818N	PHF16_uc004dgy.2_Missense_Mutation_p.H818N	NM_001077445	NP_001070913	Q92613	JADE3_HUMAN	PHD finger protein 16	818					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0						TCCCCTTTCCCACAGTTCAAT	0.448													3	30	---	---	---	---	PASS	A	46918459	A	A	46918459	3	1	26	1	0	0	0	0	1	0	0	0	11827	594	21	3	2490	3	PHF16	23	46918459	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	6985009	46918459	108352101	225	11506										
WAS	7454	broad.mit.edu	37	chrX	48542349	48542349	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ccacgagaaccagcgactctTtgagatgcttggacgaaaat	10	10	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:48542349T>A	uc004dkm.3	+	1	164	c.107T>A	c.(106-108)TTT>TAT	p.F36Y		NM_000377	NP_000368	P42768	WASP_HUMAN	Wiskott-Aldrich syndrome protein	36					blood coagulation|defense response|epidermis development|immune response|T cell receptor signaling pathway	actin cytoskeleton|cytosol	identical protein binding|small GTPase regulator activity			ovary(1)	1		all_lung(315;1.27e-10)				CAGCGACTCTTTGAGATGCTT	0.537			Mis|N|F|S			lymphoma			Wiskott-Aldrich_syndrome				6	59	---	---	---	---	PASS	A	48542349	A	A	48542349	3	1	26	1	0	0	0	0	1	0	0	0	17248	1841	64	5	109	5	WAS	23	48542349	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	1623890	48542349	106728211	226	11507										
PRICKLE3	4007	broad.mit.edu	37	chrX	49032071	49032071	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cctgacgaggcatccctgcgCgagagtccctggggagcgat	15	13	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:49032071C>A	uc004dmy.1	-	9	1825	c.1799G>T	c.(1798-1800)CGC>CTC	p.R600L	PRICKLE3_uc011mmv.1_Missense_Mutation_p.R532L|PRICKLE3_uc011mmw.1_Missense_Mutation_p.R519L|PRICKLE3_uc011mmx.1_Missense_Mutation_p.R562L	NM_006150	NP_006141	O43900	PRIC3_HUMAN	LIM domain only 6	600							protein binding|zinc ion binding			breast(1)	1						CATCCCTGCGCGAGAGTCCCT	0.602													4	51	---	---	---	---	PASS	A	49032071	A	A	49032071	3	1	26	1	0	0	0	0	1	0	0	0	12488	768	27	1	52	1	PRICKLE3	23	49032071	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	489722	49032071	106238489	227	11508										
AKAP4	8852	broad.mit.edu	37	chrX	49957892	49957892	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	caccgactttctcagcactaGtcagtgacttgcatgggtct	9	12	3	1	rs146755588		TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:49957892G>T	uc004dow.1	-	5	1596	c.1472C>A	c.(1471-1473)ACT>AAT	p.T491N	AKAP4_uc004dov.1_Intron|AKAP4_uc010njp.1_Missense_Mutation_p.T313N|AKAP4_uc004dou.1_Missense_Mutation_p.T482N	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	491					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					CTCAGCACTAGTCAGTGACTT	0.458													13	123	---	---	---	---	PASS	T	49957892	T	T	49957892	3	4	26	1	0	0	0	0	1	0	0	0	453	1029	36	3	1100	3	AKAP4	23	49957892	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	925821	49957892	105312668	228	11509										
MAGEH1	28986	broad.mit.edu	37	chrX	55479403	55479403	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttgtaattatgactgggattCggacgatgatgcagaggttg	14	4	0	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:55479403C>A	uc004dum.2	+	1	866	c.596C>A	c.(595-597)TCG>TAG	p.S199*		NM_014061	NP_054780	Q9H213	MAGH1_HUMAN	melanoma antigen, family H, 1 protein	199					apoptosis					ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GACTGGGATTCGGACGATGAT	0.493													5	85	---	---	---	---	PASS	A	55479403	A	A	55479403	4	1	26	1	0	0	0	0	0	1	0	0	9188	893	31	2	598	2	MAGEH1	23	55479403	Nonsense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	5521511	55479403	99791157	229	11510										
LAS1L	81887	broad.mit.edu	37	chrX	64738141	64738141	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tgctcctcctgttgctgggcCtttgcttcagacccgaagct	10	14	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:64738141C>A	uc004dwa.1	-	12	1725	c.1653G>T	c.(1651-1653)AAG>AAT	p.K551N	LAS1L_uc004dwc.1_Missense_Mutation_p.K534N|LAS1L_uc004dwd.1_Missense_Mutation_p.K492N|LAS1L_uc004dvy.1_Missense_Mutation_p.K64N|LAS1L_uc004dvz.1_Missense_Mutation_p.K64N	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	551						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						GTTGCTGGGCCTTTGCTTCAG	0.507													16	106	---	---	---	---	PASS	A	64738141	A	A	64738141	3	1	26	1	0	0	0	0	1	0	0	0	8636	680	24	3	563	3	LAS1L	23	64738141	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	9258738	64738141	90532419	230	11511										
AR	367	broad.mit.edu	37	chrX	66765158	66765158	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cggcgccagtttgctgctgcTgcagcagcagcagcagcagc	14	14	0	0	rs78686797		TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:66765158T>A	uc004dwu.1	+	1	1285	c.170T>A	c.(169-171)CTG>CAG	p.L57Q	AR_uc011mpd.1_Missense_Mutation_p.L57Q|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.L57Q	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	57	Poly-Leu.|Modulating.		L -> Q (in prostate cancer).		cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	TTGCTGCTGCTgcagcagcag	0.338									Androgen_Insensitivity_Syndrome				3	26	---	---	---	---	PASS	A	66765158	A	A	66765158	3	1	26	1	0	0	0	0	1	0	0	0	836	1580	55	5	172	5	AR	23	66765158	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	2027017	66765158	88505402	231	11512										
ATRX	546	broad.mit.edu	37	chrX	76937558	76937558	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tttccctgttgacttctcagCataatcagataattcatcct	4	11	3	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:76937558C>T	uc004ecp.3	-	9	3422	c.3190G>A	c.(3190-3192)GCT>ACT	p.A1064T	ATRX_uc004ecq.3_Missense_Mutation_p.A1026T|ATRX_uc004eco.3_Missense_Mutation_p.A849T|ATRX_uc004ecr.2_Missense_Mutation_p.A996T|ATRX_uc010nlx.1_Missense_Mutation_p.A1035T|ATRX_uc010nly.1_Missense_Mutation_p.A1009T	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1064					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	GACTTCTCAGCATAATCAGAT	0.338			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						20	184	---	---	---	---	PASS	T	76937558	T	T	76937558	3	4	26	1	0	0	0	0	1	0	0	0	1208	710	25	3	4396	3	ATRX	23	76937558	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	10172400	76937558	78333002	232	11513										
COL4A6	1288	broad.mit.edu	37	chrX	107454957	107454957	+	Missense_Mutation	SNP	T	C	C													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggtcaccttttgatcctttcTgaccaggaagcccctgagta							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:107454957T>C	uc004enw.3	-	7	561	c.458A>G	c.(457-459)CAG>CGG	p.Q153R	COL4A6_uc004env.3_Missense_Mutation_p.Q152R|COL4A6_uc011msn.1_Missense_Mutation_p.Q152R|COL4A6_uc010npk.2_Missense_Mutation_p.Q152R	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	153	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						TGATCCTTTCTGACCAGGAAG	0.398									Alport_syndrome_with_Diffuse_Leiomyomatosis				10	101	---	---	---	---	PASS	C	107454957	C	C	107454957	3	2	26	1	0	0	0	0	1	0	0	0	3695	1580	55	5	4773	5	COL4A6	23	107454957	Missense_Mutation	SNP	T	TCGA-21-5784-01A-01D-1632-08	30517399	107454957	47815603	233	11514	317	2								
COL4A6	1288	broad.mit.edu	37	chrX	107454958	107454958	+	Missense_Mutation	SNP	G	T	T													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gtcaccttttgatcctttctGaccaggaagcccctgagtaa							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:107454958G>T	uc004enw.3	-	7	560	c.457C>A	c.(457-459)CAG>AAG	p.Q153K	COL4A6_uc004env.3_Missense_Mutation_p.Q152K|COL4A6_uc011msn.1_Missense_Mutation_p.Q152K|COL4A6_uc010npk.2_Missense_Mutation_p.Q152K	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	153	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						GATCCTTTCTGACCAGGAAGC	0.403									Alport_syndrome_with_Diffuse_Leiomyomatosis				10	101	---	---	---	---	PASS	T	107454958	T	T	107454958	3	4	26	1	0	0	0	0	1	0	0	0	3695	1299	45	2	4774	2	COL4A6	23	107454958	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	1	107454958	47815602	234	11515	317	2								
WDR44	54521	broad.mit.edu	37	chrX	117576644	117576644	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cagatcaaagcaagtttcagGtaaattggcaatgagatgtt	10	5	2	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:117576644G>T	uc004eqn.2	+	17	2809	c.2384_splice	c.e17+1	p.S795_splice	WDR44_uc004eqo.2_Splice_Site_p.S795_splice|WDR44_uc011mtr.1_Splice_Site_p.S706_splice|WDR44_uc010nqi.2_Splice_Site_p.S505_splice	NM_019045	NP_061918	Q5JSH3	WDR44_HUMAN	WD repeat domain 44 protein							cytosol|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm				lung(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5						CAAGTTTCAGGTAAATTGGCA	0.388													8	36	---	---	---	---	PASS	T	117576644	T	T	117576644	5	4	26	1	0	0	0	0	0	0	1	0	17293	1275	44	3	2451	3	WDR44	23	117576644	Splice_Site	SNP	G	TCGA-21-5784-01A-01D-1632-08	10121686	117576644	37693916	235	11516										
GLUD2	2747	broad.mit.edu	37	chrX	120182743	120182743	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	agtcaaagccaagatcattgCtgaaggtgccaatgggccaa	11	9	2	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:120182743C>A	uc004eto.2	+	1	1282	c.1205C>A	c.(1204-1206)GCT>GAT	p.A402D		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	402					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	AAGATCATTGCTGAAGGTGCC	0.483													14	158	---	---	---	---	PASS	A	120182743	A	A	120182743	3	1	26	1	0	0	0	0	1	0	0	0	6477	797	28	3	1207	3	GLUD2	23	120182743	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	2606099	120182743	35087817	236	11517										
THOC2	57187	broad.mit.edu	37	chrX	122831592	122831592	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttttttcttctaaacaatttGtctcaatgtctataatgatg	4	6	4	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:122831592G>T	uc004etu.2	-	5	316	c.284C>A	c.(283-285)ACA>AAA	p.T95K	THOC2_uc011muh.1_Missense_Mutation_p.T16K|THOC2_uc011mui.1_5'UTR	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	95					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TAAACAATTTGTCTCAATGTC	0.274													3	8	---	---	---	---	PASS	T	122831592	T	T	122831592	3	4	26	1	0	0	0	0	1	0	0	0	15862	1377	48	3	4633	3	THOC2	23	122831592	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	2648849	122831592	32438968	237	11518										
ODZ1	10178	broad.mit.edu	37	chrX	123514829	123514829	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	caggtcttcctccagagaccCaagcttaatgaagtagtgag	10	10	1	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:123514829C>G	uc004euj.2	-	31	7799	c.7735G>C	c.(7735-7737)GGG>CGG	p.G2579R	ODZ1_uc011muj.1_Missense_Mutation_p.G2585R|ODZ1_uc010nqy.2_Missense_Mutation_p.G2586R	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2579	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TCCAGAGACCCAAGCTTAATG	0.498													6	70	---	---	---	---	PASS	G	123514829	G	G	123514829	3	3	26	1	0	0	0	0	1	0	0	0	10834	594	21	4	446	4	ODZ1	23	123514829	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	683237	123514829	31755731	238	11519										
ODZ1	10178	broad.mit.edu	37	chrX	123540170	123540170	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gttggaaacaatcttaccttGttttaaaatatatatggtac	6	5	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:123540170G>T	uc004euj.2	-	25	5195	c.5131C>A	c.(5131-5133)CAA>AAA	p.Q1711K	ODZ1_uc011muj.1_Missense_Mutation_p.Q1717K|ODZ1_uc010nqy.2_Missense_Mutation_p.Q1718K	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1711	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						ATCTTACCTTGTTTTAAAATA	0.408													6	98	---	---	---	---	PASS	T	123540170	T	T	123540170	3	4	26	1	0	0	0	0	1	0	0	0	10834	1386	48	3	3074	3	ODZ1	23	123540170	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	25341	123540170	31730390	239	11520										
SMARCA1	6594	broad.mit.edu	37	chrX	128645952	128645952	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	gcaattgtttgtaaagttttCccaaggccctgcattatcat	7	9	1	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:128645952C>A	uc004eun.3	-	6	752	c.639G>T	c.(637-639)GGG>GGT	p.G213G	SMARCA1_uc004eup.3_Silent_p.G213G|SMARCA1_uc011muk.1_Silent_p.G213G|SMARCA1_uc011mul.1_Silent_p.G213G	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	213	Helicase ATP-binding.|ATP (Potential).				ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						GTAAAGTTTTCCCAAGGCCCT	0.353													15	169	---	---	---	---	PASS	A	128645952	A	A	128645952	2	1	26	1	0	0	0	0	0	0	0	1	14768	842	30	2		2	SMARCA1	23	128645952	Silent	SNP	C	TCGA-21-5784-01A-01D-1632-08	5105782	128645952	26624608	240	11521										
ZDHHC9	51114	broad.mit.edu	37	chrX	128940418	128940418	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ggcatctcttcgggagtgctGctgtcctccggcatctcatt	11	13	2	0			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:128940418G>T	uc004euv.2	-	10	1392	c.1023C>A	c.(1021-1023)AGC>AGA	p.S341R	ZDHHC9_uc004euw.2_Missense_Mutation_p.S341R	NM_001008222	NP_001008223	Q9Y397	ZDHC9_HUMAN	zinc finger, DHHC domain containing 9	341	Cytoplasmic (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1						CGGGAGTGCTGCTGTCCTCCG	0.502													16	83	---	---	---	---	PASS	T	128940418	T	T	128940418	3	4	26	1	0	0	0	0	1	0	0	0	17619	1310	46	3	75	3	ZDHHC9	23	128940418	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	294466	128940418	26330142	241	11522										
IGSF1	3547	broad.mit.edu	37	chrX	130409717	130409717	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acagaactgggctcagcaaaCaaccatggcttagggaatgt	11	9	1	1			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:130409717C>G	uc004ewd.2	-	16	3157	c.2919G>C	c.(2917-2919)TTG>TTC	p.L973F	IGSF1_uc004ewe.3_Missense_Mutation_p.L967F|IGSF1_uc004ewf.2_Missense_Mutation_p.L953F	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	973	Extracellular (Potential).|Ig-like C2-type 10.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GCTCAGCAAACAACCATGGCT	0.458													5	102	---	---	---	---	PASS	G	130409717	G	G	130409717	3	3	26	1	0	0	0	0	1	0	0	0	7596	477	17	4	1111	4	IGSF1	23	130409717	Missense_Mutation	SNP	C	TCGA-21-5784-01A-01D-1632-08	1469299	130409717	24860843	242	11523										
ATP11C	286410	broad.mit.edu	37	chrX	138886687	138886687	+	Silent	SNP	G	T	T													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	acataacaggttccatcagtGgtgcaagatgatagaagaat							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:138886687G>T	uc004faz.2	-	6	606	c.507C>A	c.(505-507)ACC>ACA	p.T169T	ATP11C_uc004fba.2_Silent_p.T169T	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	169	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					TTCCATCAGTGGTGCAAGATG	0.383													8	179	---	---	---	---	PASS	T	138886687	T	T	138886687	2	4	26	1	0	0	0	0	0	0	0	1	1121	1335	47	3		3	ATP11C	23	138886687	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	8476970	138886687	16383873	243	11524	318	2								
ATP11C	286410	broad.mit.edu	37	chrX	138886688	138886688	+	Missense_Mutation	SNP	G	T	T													0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cataacaggttccatcagtgGtgcaagatgatagaagaata							TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:138886688G>T	uc004faz.2	-	6	605	c.506C>A	c.(505-507)ACC>AAC	p.T169N	ATP11C_uc004fba.2_Missense_Mutation_p.T169N	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	169	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					TCCATCAGTGGTGCAAGATGA	0.378													8	176	---	---	---	---	PASS	T	138886688	T	T	138886688	3	4	26	1	0	0	0	0	1	0	0	0	1121	1261	44	3	3055	3	ATP11C	23	138886688	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	1	138886688	16383872	244	11525	318	2								
MAGEC3	139081	broad.mit.edu	37	chrX	140985527	140985527	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	tttgaaagatatggaagacaGagcccaggccataattgaca	10	7	0	5			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:140985527G>A	uc011mwp.1	+	8	1841	c.1841G>A	c.(1840-1842)AGA>AAA	p.R614K	MAGEC3_uc004fbs.2_3'UTR|MAGEC3_uc010nsj.2_3'UTR	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	614	MAGE 2.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ATGGAAGACAGAGCCCAGGCC	0.478													3	76	---	---	---	---	PASS	A	140985527	A	A	140985527	3	1	26	1	0	0	0	0	1	0	0	0	9182	942	33	2	2238	2	MAGEC3	23	140985527	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	2098839	140985527	14285033	245	11526										
MAGEC1	9947	broad.mit.edu	37	chrX	140995782	140995782	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttctcctcctccacttcattGagcccattcagtgaagagtc	6	14	3	3			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:140995782G>T	uc004fbt.2	+	4	2878	c.2592G>T	c.(2590-2592)TTG>TTT	p.L864F	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	864							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CCACTTCATTGAGCCCATTCA	0.507										HNSCC(15;0.026)			14	178	---	---	---	---	PASS	T	140995782	T	T	140995782	3	4	26	1	0	0	0	0	1	0	0	0	9180	1281	45	2	2598	2	MAGEC1	23	140995782	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	10255	140995782	14274778	246	11527										
MAGEA6	4105	broad.mit.edu	37	chrX	151870130	151870130	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	catgctatgagttcctgtggGgtccaagggccctcattgaa	12	10	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:151870130G>A	uc004ffq.1	+	3	1014	c.820G>A	c.(820-822)GGT>AGT	p.G274S	MAGEA6_uc004ffr.1_Missense_Mutation_p.G274S|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	274	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					GTTCCTGTGGGGTCCAAGGGC	0.532													9	130	---	---	---	---	PASS	A	151870130	A	A	151870130	3	1	26	1	0	0	0	0	1	0	0	0	9170	1232	43	3	822	3	MAGEA6	23	151870130	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	10874348	151870130	3400430	247	11528										
FLNA	2316	broad.mit.edu	37	chrX	153580937	153580937	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ctaccagggattttcaggctGaggtcacaatgactaccaac	9	11	2	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:153580937G>T	uc004fkk.2	-	40	6735	c.6486C>A	c.(6484-6486)CTC>CTA	p.L2162L	FLNA_uc004fki.2_Silent_p.L205L|FLNA_uc011mzn.1_Silent_p.L295L|FLNA_uc010nuu.1_Silent_p.L2154L	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2162	Filamin 20.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TTTTCAGGCTGAGGTCACAAT	0.637													5	68	---	---	---	---	PASS	T	153580937	T	T	153580937	2	4	26	1	0	0	0	0	0	0	0	1	5933	1277	45	2		2	FLNA	23	153580937	Silent	SNP	G	TCGA-21-5784-01A-01D-1632-08	1710807	153580937	1689623	248	11529										
PLXNA3	55558	broad.mit.edu	37	chrX	153698898	153698898	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	ttcgacttcctggatgagcaGgcggaccagcgccagatcag	13	12	1	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:153698898G>T	uc004flm.2	+	30	5273	c.5100G>T	c.(5098-5100)CAG>CAT	p.Q1700H		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1700	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGGATGAGCAGGCGGACCAGC	0.622													10	97	---	---	---	---	PASS	T	153698898	T	T	153698898	3	4	26	1	0	0	0	0	1	0	0	0	12121	991	35	3	5214	3	PLXNA3	23	153698898	Missense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	117961	153698898	1571662	249	11530										
IL9R	3581	broad.mit.edu	37	chrX	155235072	155235072	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0916666666666667	22	0.0354496745569512	1.57271897810219	1.1068989875206	1.79487928130264	0.00405185036096857	0.0551675010685721	8	cactggaggatgatgtggtaGaggaggagcgttatacaggc	17	5	0	2			TCGA-21-5784-01A-01D-1632-08	TCGA-21-5784-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f79285af-c364-4ec3-97d3-70a7d9b5800b	0f97a5be-e137-4732-8874-6b6d7443f271	g.chrX:155235072G>T	uc004fnv.1	+	6	888	c.709G>T	c.(709-711)GAG>TAG	p.E237*	IL9R_uc010nvn.2_Nonsense_Mutation_p.E216*|IL9R_uc004fnu.1_Nonsense_Mutation_p.E272*	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor	237	Extracellular (Potential).|Fibronectin type-III.				cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TGATGTGGTAGAGGAGGAGCG	0.582													6	35	---	---	---	---	PASS	T	155235072	T	T	155235072	4	4	26	1	0	0	0	0	0	1	0	0	7708	943	33	2	731	2	IL9R	23	155235072	Nonsense_Mutation	SNP	G	TCGA-21-5784-01A-01D-1632-08	1536174	155235072	35488	250	11531										
TPRG1L	127262	broad.mit.edu	37	chr1	3544178	3544178	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gccactttcacagaacacccGatggctggcgcagatgagaa	11	12	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:3544178G>T	uc001akm.2	+	4	666	c.585G>T	c.(583-585)CCG>CCT	p.P195P	TPRG1L_uc009vlj.2_Silent_p.P136P	NM_182752	NP_877429	Q5T0D9	TPRGL_HUMAN	tumor protein p63 regulated 1-like	195						cell junction|synaptic vesicle					0	all_cancers(77;0.0119)|all_epithelial(69;0.00481)|Ovarian(185;0.0634)|Lung NSC(156;0.162)|all_lung(157;0.172)	all_epithelial(116;7.37e-22)|all_lung(118;8.23e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.41e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.83e-22)|GBM - Glioblastoma multiforme(42;4.77e-14)|Colorectal(212;1.12e-05)|COAD - Colon adenocarcinoma(227;5.61e-05)|Kidney(185;0.000351)|BRCA - Breast invasive adenocarcinoma(365;0.000688)|KIRC - Kidney renal clear cell carcinoma(229;0.00553)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.201)		CAGAACACCCGATGGCTGGCG	0.532													13	49	---	---	---	---	PASS	T	3544178	T	T	3544178	2	4	27	1	0	0	0	0	0	0	0	1	16416	1045	37	2		2	TPRG1L	1	3544178	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08		3544178	245706443	1	11532										
PRDM2	7799	broad.mit.edu	37	chr1	14108874	14108874	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	attaaaatgcaaagcatgcaGactccgttgggcaagaccag	10	9	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:14108874G>T	uc001avi.2	+	8	5440	c.4584G>T	c.(4582-4584)CAG>CAT	p.Q1528H	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.Q1528H|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.Q1327H|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1528						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		AAAGCATGCAGACTCCGTTGG	0.537													27	23	---	---	---	---	PASS	T	14108874	T	T	14108874	3	4	27	1	0	0	0	0	1	0	0	0	12458	933	33	2	4610	2	PRDM2	1	14108874	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	10564696	14108874	235141747	2	11533										
MUL1	79594	broad.mit.edu	37	chr1	20827763	20827763	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgaaggactgaatcgaggggTggaacttctcatacacagtc	12	8	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:20827763T>G	uc001bdi.3	-	4	636	c.479A>C	c.(478-480)CAC>CCC	p.H160P		NM_024544	NP_078820	Q969V5	MUL1_HUMAN	mitochondrial ubiquitin ligase activator of NFKB	160	Mitochondrial intermembrane (Potential).				activation of caspase activity|activation of JUN kinase activity|induction of apoptosis|mitochondrial fission|mitochondrion localization|negative regulation of cell growth|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to mitochondrial outer membrane|nucleus|peroxisome	identical protein binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00748)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000137)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)		AATCGAGGGGTGGAACTTCTC	0.597													4	47	---	---	---	---	PASS	G	20827763	G	G	20827763	3	3	27	1	0	0	0	0	1	0	0	0	9984	1696	59	5	583	5	MUL1	1	20827763	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	6718889	20827763	228422858	3	11534										
HIVEP3	59269	broad.mit.edu	37	chr1	41979252	41979252	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggtgggccaggcgggggcgcCtctgaggatggtctggacag	21	9	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:41979252C>A	uc001cgz.3	-	8	6853	c.5640G>T	c.(5638-5640)GAG>GAT	p.E1880D	HIVEP3_uc001cha.3_Missense_Mutation_p.E1880D|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1880					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				GCGGGGGCGCCTCTGAGGATG	0.652													13	9	---	---	---	---	PASS	A	41979252	A	A	41979252	3	1	27	1	0	0	0	0	1	0	0	0	7188	680	24	3	1588	3	HIVEP3	1	41979252	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	21151489	41979252	207271369	4	11535										
TMEM125	128218	broad.mit.edu	37	chr1	43738664	43738664	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aacagctgatgagctcggctGtgcaggacatgaactgcatc	12	10	0	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:43738664G>A	uc001cir.2	+	4	841	c.271G>A	c.(271-273)GTG>ATG	p.V91M	EBNA1BP2_uc001cio.2_5'Flank|TMEM125_uc001cis.2_Missense_Mutation_p.V91M	NM_144626	NP_653227	Q96AQ2	TM125_HUMAN	transmembrane protein 125	91						integral to membrane				breast(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GAGCTCGGCTGTGCAGGACAT	0.637													6	8	---	---	---	---	PASS	A	43738664	A	A	43738664	3	1	27	1	0	0	0	0	1	0	0	0	16034	1377	48	3	273	3	TMEM125	1	43738664	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1759412	43738664	205511957	5	11536										
FAM159A	348378	broad.mit.edu	37	chr1	53108615	53108615	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cgcctgtgtgctctgctaccTgttcatcagctctaagcccc	8	16	4	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:53108615T>A	uc001cuf.2	+	2	363	c.263T>A	c.(262-264)CTG>CAG	p.L88Q	FAM159A_uc001cug.1_RNA|FAM159A_uc001cuh.2_RNA	NM_001042693	NP_001036158	Q6UWV7	F159A_HUMAN	hypothetical protein LOC348378	88	Helical; (Potential).					integral to membrane					0						CTCTGCTACCTGTTCATCAGC	0.522													6	110	---	---	---	---	PASS	A	53108615	A	A	53108615	3	1	27	1	0	0	0	0	1	0	0	0	5468	1580	55	5	269	5	FAM159A	1	53108615	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	9369951	53108615	196142006	6	11537										
IL12RB2	3595	broad.mit.edu	37	chr1	67861305	67861305	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atcctgaaccgctggtcatcAgtgaagtccttcatcaagtg	9	11	4	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:67861305A>G	uc001ddu.2	+	16	2762	c.2122A>G	c.(2122-2124)AGT>GGT	p.S708G	IL12RB2_uc010oqi.1_3'UTR|IL12RB2_uc010oqj.1_3'UTR|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Missense_Mutation_p.S622G|IL12RB2_uc010oqm.1_3'UTR|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	708	Cytoplasmic (Potential).				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						GCTGGTCATCAGTGAAGTCCT	0.542													12	22	---	---	---	---	PASS	G	67861305	G	G	67861305	3	3	27	1	0	0	0	0	1	0	0	0	7627	188	7	5	2180	5	IL12RB2	1	67861305	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	14752690	67861305	181389316	7	11538										
C1orf173	127254	broad.mit.edu	37	chr1	75078365	75078371	+	Frame_Shift_Del	DEL	CAAGCCT	-	-													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aaagtagcctcgtttgcctcCaagcctggaacctttccgat							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:75078365_75078371delCAAGCCT	uc001dgg.2	-	9	1342_1348	c.1123_1129delAGGCTTG	c.(1123-1131)AGGCTTGGAfs	p.R375fs	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Frame_Shift_Del_p.R169fs	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	375_377										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CGTTTGCCTCCAAGCCTGGAACCTTTC	0.459													17	16	---	---	---	---		-	75078371	-	-	75078365	7	5	27	1	0	1	0	1	0	0	0	0	2014	603	21	0	3487	0	C1orf173	1	75078365	Frame_Shift_Del	DEL	CAAGCCT	TCGA-21-5786-01A-01D-1632-08	7217060	75078365	174172256	8	11539										
ASB17	127247	broad.mit.edu	37	chr1	76387906	76387906	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agtactattgttaagacaatGttgatagggtttttttctct	8	4	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:76387906G>T	uc001dhe.1	-	2	680	c.540C>A	c.(538-540)AAC>AAA	p.N180K	ASB17_uc001dhf.1_RNA	NM_080868	NP_543144	Q8WXJ9	ASB17_HUMAN	ankyrin repeat and SOCS box-containing 17	180					intracellular signal transduction					ovary(1)	1						TTAAGACAATGTTGATAGGGT	0.363													17	18	---	---	---	---	PASS	T	76387906	T	T	76387906	3	4	27	1	0	0	0	0	1	0	0	0	1021	1368	48	3	355	3	ASB17	1	76387906	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1309541	76387906	172862715	9	11540										
SSX2IP	117178	broad.mit.edu	37	chr1	85124070	85124070	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tctgatgctgtttgtaagctGctctctcacagtttcacagg	9	10	4	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:85124070G>C	uc001dkh.2	-	10	1284	c.1009C>G	c.(1009-1011)CAG>GAG	p.Q337E	SSX2IP_uc001dkf.2_Missense_Mutation_p.Q310E|SSX2IP_uc001dkg.2_RNA|SSX2IP_uc010orz.1_Missense_Mutation_p.Q310E|SSX2IP_uc001dki.2_Missense_Mutation_p.Q337E|SSX2IP_uc010osa.1_Missense_Mutation_p.Q310E|SSX2IP_uc001dkj.2_Missense_Mutation_p.Q337E|SSX2IP_uc009wci.2_Intron|SSX2IP_uc001dkk.1_Missense_Mutation_p.Q333E	NM_014021	NP_054740	Q9Y2D8	ADIP_HUMAN	synovial sarcoma, X breakpoint 2 interacting	337					cell adhesion	nucleus|protein complex				ovary(2)	2				all cancers(265;0.0053)|Epithelial(280;0.0214)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		TTTGTAAGCTGCTCTCTCACA	0.428													13	21	---	---	---	---	PASS	C	85124070	C	C	85124070	3	2	27	1	0	0	0	0	1	0	0	0	15203	1328	46	4	859	4	SSX2IP	1	85124070	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	8736164	85124070	164126551	10	11541										
GTF2B	2959	broad.mit.edu	37	chr1	89322963	89322963	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctgccacagagatggggctcCtcccaggaaccaagtccagt	11	14	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:89322963C>A	uc001dmo.3	-	6	862	c.743G>T	c.(742-744)AGG>ATG	p.R248M		NM_001514	NP_001505	Q00403	TF2B_HUMAN	general transcription factor IIB	248	2.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	thyroid hormone receptor binding|translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0131)|Epithelial(280;0.0255)		GATGGGGCTCCTCCCAGGAAC	0.507													18	22	---	---	---	---	PASS	A	89322963	A	A	89322963	3	1	27	1	0	0	0	0	1	0	0	0	6855	681	24	3	215	3	GTF2B	1	89322963	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	4198893	89322963	159927658	11	11542										
AGL	178	broad.mit.edu	37	chr1	100350190	100350190	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aaatcatctgacacaattcaGtcctcactttaaatctggca	4	11	5	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:100350190G>T	uc001dsi.1	+	20	3012	c.2612G>T	c.(2611-2613)AGT>ATT	p.S871I	AGL_uc001dsj.1_Missense_Mutation_p.S871I|AGL_uc001dsk.1_Missense_Mutation_p.S871I|AGL_uc001dsl.1_Missense_Mutation_p.S871I|AGL_uc001dsm.1_Missense_Mutation_p.S855I|AGL_uc001dsn.1_Missense_Mutation_p.S854I	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	871	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		ACACAATTCAGTCCTCACTTT	0.363													3	35	---	---	---	---	PASS	T	100350190	T	T	100350190	3	4	27	1	0	0	0	0	1	0	0	0	384	1029	36	3	2755	3	AGL	1	100350190	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	11027227	100350190	148900431	12	11543										
COL11A1	1301	broad.mit.edu	37	chr1	103488510	103488510	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctgggaatcataatcctctcCcgttagatattcttcagtaa	6	10	4	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:103488510C>A	uc001dul.2	-	8	1351	c.1033G>T	c.(1033-1035)GGA>TGA	p.G345*	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Nonsense_Mutation_p.G357*|COL11A1_uc001dun.2_Nonsense_Mutation_p.G306*|COL11A1_uc009weh.2_Intron	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	345	Nonhelical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TAATCCTCTCCCGTTAGATAT	0.338													19	21	---	---	---	---	PASS	A	103488510	A	A	103488510	4	1	27	1	0	0	0	0	0	1	0	0	3667	632	22	3	4627	3	COL11A1	1	103488510	Nonsense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	3138320	103488510	145762111	13	11544										
INSRR	3645	broad.mit.edu	37	chr1	156828411	156828411	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggccacagactaggcactgcCattgtcccagccctggcttg	11	15	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:156828411C>T	uc010pht.1	-	1	257	c.3G>A	c.(1-3)ATG>ATA	p.M1I	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron|INSRR_uc009wsj.1_Missense_Mutation_p.M1I|NTRK1_uc001fqh.1_5'Flank|NTRK1_uc001fqi.1_5'Flank|NTRK1_uc009wsk.1_5'Flank	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	1					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TAGGCACTGCCATTGTCCCAG	0.597													10	40	---	---	---	---	PASS	T	156828411	T	T	156828411	3	4	27	1	0	0	0	0	1	0	0	0	7774	594	21	3	3977	3	INSRR	1	156828411	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	53339901	156828411	92422210	14	11545										
OR10Z1	128368	broad.mit.edu	37	chr1	158576496	158576496	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctggcctggctgggggggacCaggctatctcctatgtgggc	17	11	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:158576496C>A	uc010pio.1	+	1	268	c.268C>A	c.(268-270)CAG>AAG	p.Q90K		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					TGGGGGGGACCAGGCTATCTC	0.542													32	138	---	---	---	---	PASS	A	158576496	A	A	158576496	3	1	27	1	0	0	0	0	1	0	0	0	10923	595	21	3	270	3	OR10Z1	1	158576496	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	1748085	158576496	90674125	15	11546										
OR6N1	128372	broad.mit.edu	37	chr1	158736077	158736077	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gttggggtcatgagggttggGtagtggaggggccggcagat	22	4	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:158736077G>T	uc010piq.1	-	1	396	c.396C>A	c.(394-396)TAC>TAA	p.Y132*		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	132	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TGAGGGTTGGGTAGTGGAGGG	0.517													6	17	---	---	---	---	PASS	T	158736077	T	T	158736077	4	4	27	1	0	0	0	0	0	1	0	0	11206	1256	44	3	545	3	OR6N1	1	158736077	Nonsense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	159581	158736077	90514544	16	11547										
ATP1A4	480	broad.mit.edu	37	chr1	160151781	160151781	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tggctgcatttctgtcctacActccaggcatggacgtggcc	11	13	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:160151781A>T	uc001fve.3	+	20	3408	c.2929A>T	c.(2929-2931)ACT>TCT	p.T977S	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Missense_Mutation_p.T480S|ATP1A4_uc001fvh.2_Missense_Mutation_p.T113S	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	977	Extracellular (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCTGTCCTACACTCCAGGCAT	0.532													38	85	---	---	---	---	PASS	T	160151781	T	T	160151781	3	4	27	1	0	0	0	0	1	0	0	0	1131	159	6	5	3007	5	ATP1A4	1	160151781	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	1415704	160151781	89098840	17	11548										
FCRLB	127943	broad.mit.edu	37	chr1	161697367	161697367	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aaaggagccacaggccctccGggagctcaggggaacgcccg	15	14	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:161697367G>A	uc001gbh.2	+	8	1430	c.1196G>A	c.(1195-1197)CGG>CAG	p.R399Q	FCRLB_uc009wus.2_Missense_Mutation_p.R399Q|FCRLB_uc001gbj.2_3'UTR|FCRLB_uc001gbk.2_3'UTR|FCRLB_uc001gbl.2_3'UTR|FCRLB_uc001gbm.2_3'UTR|FCRLB_uc001gbi.2_Missense_Mutation_p.R399Q|FCRLB_uc001gbn.3_3'UTR	NM_001002901	NP_001002901	Q6BAA4	FCRLB_HUMAN	Fc receptor-like B	399						endoplasmic reticulum					0	all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00634)			CAGGCCCTCCGGGAGCTCAGG	0.637													8	40	---	---	---	---	PASS	A	161697367	A	A	161697367	3	1	27	1	0	0	0	0	1	0	0	0	5801	1116	39	1	1218	1	FCRLB	1	161697367	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1545586	161697367	87553254	18	11549										
SELP	6403	broad.mit.edu	37	chr1	169586577	169586577	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agcgattctggcagtatttaCgggaaatattccatgagtat	10	6	1	1	rs7529463	byFrequency	TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:169586577C>A	uc001ggi.3	-	3	235	c.170G>T	c.(169-171)CGT>CTT	p.R57L	SELP_uc001ggh.2_5'UTR|SELP_uc009wvr.2_Missense_Mutation_p.R57L	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	57	Extracellular (Potential).				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	GCAGTATTTACGGGAAATATT	0.408													60	65	---	---	---	---	PASS	A	169586577	A	A	169586577	3	1	27	1	0	0	0	0	1	0	0	0	14019	536	19	1	2378	1	SELP	1	169586577	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	7889210	169586577	79664044	19	11550										
TNR	7143	broad.mit.edu	37	chr1	175335252	175335252	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tccgaggaggctgtcaccatGaggtctcggggactgtcaag	15	10	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:175335252G>T	uc001gkp.1	-	9	2157	c.2076C>A	c.(2074-2076)CTC>CTA	p.L692L	TNR_uc009wwu.1_Silent_p.L692L	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	692	Fibronectin type-III 5.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CTGTCACCATGAGGTCTCGGG	0.517													18	22	---	---	---	---	PASS	T	175335252	T	T	175335252	2	4	27	1	0	0	0	0	0	0	0	1	16335	1277	45	2		2	TNR	1	175335252	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	5748675	175335252	73915369	20	11551										
PAPPA2	60676	broad.mit.edu	37	chr1	176668393	176668393	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caagccgacaccctcaccctGtgggtcacttccttcttcat	6	17	4	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:176668393G>A	uc001gkz.2	+	8	4068	c.2904G>A	c.(2902-2904)CTG>CTA	p.L968L	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	968					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CCCTCACCCTGTGGGTCACTT	0.562													70	102	---	---	---	---	PASS	A	176668393	A	A	176668393	2	1	27	1	0	0	0	0	0	0	0	1	11433	1364	48	3		3	PAPPA2	1	176668393	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	1333141	176668393	72582228	21	11552										
SEC16B	89866	broad.mit.edu	37	chr1	177906551	177906551	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgctgtgggctgggctggagCaggcaggtctgctcaggtgt	19	8	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:177906551C>G	uc001gli.1	-	19	2391	c.2301G>C	c.(2299-2301)CTG>CTC	p.L767L	SEC16B_uc001glk.1_Silent_p.L444L|SEC16B_uc009wwy.1_Silent_p.L322L|SEC16B_uc001glh.1_Silent_p.L426L|SEC16B_uc009wwz.1_Silent_p.L426L|SEC16B_uc001glj.1_Silent_p.L768L	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	767					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4						TGGGCTGGAGCAGGCAGGTCT	0.602													5	6	---	---	---	---	PASS	G	177906551	G	G	177906551	2	3	27	1	0	0	0	0	0	0	0	1	13987	697	25	4		4	SEC16B	1	177906551	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	1238158	177906551	71344070	22	11553										
CEP350	9857	broad.mit.edu	37	chr1	180061849	180061849	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agtcgaacagaagattttcaGaccccatctccagttctcag	7	12	3	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:180061849G>T	uc001gnt.2	+	34	6992	c.6609G>T	c.(6607-6609)CAG>CAT	p.Q2203H	CEP350_uc009wxl.2_Missense_Mutation_p.Q2202H|CEP350_uc001gnv.2_Missense_Mutation_p.Q338H|CEP350_uc001gnw.1_5'UTR|CEP350_uc001gnx.1_5'UTR	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	2203						centrosome|nucleus|spindle				ovary(4)	4						AAGATTTTCAGACCCCATCTC	0.383													3	6	---	---	---	---	PASS	T	180061849	T	T	180061849	3	4	27	1	0	0	0	0	1	0	0	0	3254	933	33	2	6739	2	CEP350	1	180061849	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2155298	180061849	69188772	23	11554										
CACNA1E	777	broad.mit.edu	37	chr1	181620509	181620509	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggagccacctggaattggctGtacttcatccccctcatcat	8	14	3	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:181620509G>A	uc001gow.2	+	7	1152	c.987G>A	c.(985-987)CTG>CTA	p.L329L	CACNA1E_uc009wxr.2_Silent_p.L236L|CACNA1E_uc009wxs.2_Silent_p.L236L	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	329	I.|Helical; Name=S6 of repeat I.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GGAATTGGCTGTACTTCATCC	0.423													20	54	---	---	---	---	PASS	A	181620509	A	A	181620509	2	1	27	1	0	0	0	0	0	0	0	1	2542	1364	48	3		3	CACNA1E	1	181620509	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	1558660	181620509	67630112	24	11555										
APOBEC4	403314	broad.mit.edu	37	chr1	183616857	183616857	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cttttcatctgcctccttgcTacttgcaaactgttctgtga	6	12	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:183616857T>C	uc001gqn.2	-	2	1332	c.1060A>G	c.(1060-1062)AGC>GGC	p.S354G	RGL1_uc010pof.1_Intron|RGL1_uc001gqm.2_Intron|RGL1_uc010pog.1_Intron|RGL1_uc010poh.1_Intron	NM_203454	NP_982279	Q8WW27	ABEC4_HUMAN	apolipoprotein B	354					mRNA processing		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0						GCCTCCTTGCTACTTGCAAAC	0.408													4	139	---	---	---	---	PASS	C	183616857	C	C	183616857	3	2	27	1	0	0	0	0	1	0	0	0	796	1522	53	5	47	5	APOBEC4	1	183616857	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	1996348	183616857	65633764	25	11556										
FAM5C	339479	broad.mit.edu	37	chr1	190067323	190067323	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtggggagagtttatttacaCggtctctgatctctagtagt	12	6	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:190067323C>T	uc001gse.1	-	8	2358	c.2126G>A	c.(2125-2127)CGT>CAT	p.R709H	FAM5C_uc010pot.1_Missense_Mutation_p.R607H	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	709						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TTTATTTACACGGTCTCTGAT	0.488													28	35	---	---	---	---	PASS	T	190067323	T	T	190067323	3	4	27	1	0	0	0	0	1	0	0	0	5594	536	19	1	178	1	FAM5C	1	190067323	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	6450466	190067323	59183298	26	11557										
NR5A2	2494	broad.mit.edu	37	chr1	200017815	200017815	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctaaaatcatggcctatttgCagcaagagcaggctaaccga	9	10	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:200017815C>A	uc001gvb.2	+	5	1185	c.979C>A	c.(979-981)CAG>AAG	p.Q327K	NR5A2_uc001gvc.2_Missense_Mutation_p.Q281K|NR5A2_uc009wzh.2_Missense_Mutation_p.Q287K|NR5A2_uc010pph.1_Missense_Mutation_p.Q255K	NM_205860	NP_995582	O00482	NR5A2_HUMAN	nuclear receptor subfamily 5, group A, member 2	327					embryo development|positive regulation of viral genome replication|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	lipid binding|protein binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Prostate(682;0.19)					GGCCTATTTGCAGCAAGAGCA	0.498													23	40	---	---	---	---	PASS	A	200017815	A	A	200017815	3	1	27	1	0	0	0	0	1	0	0	0	10636	711	25	3	997	3	NR5A2	1	200017815	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	9950492	200017815	49232806	27	11558										
IPO9	55705	broad.mit.edu	37	chr1	201825050	201825050	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	attatcctgtacatgcaaatCactgaggagcaggtaaataa	8	7	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:201825050C>G	uc001gwz.2	+	10	1160	c.1110C>G	c.(1108-1110)ATC>ATG	p.I370M		NM_018085	NP_060555	Q96P70	IPO9_HUMAN	importin 9	370					protein import into nucleus	cytoplasm|nucleus	histone binding|protein transporter activity			ovary(2)	2						ACATGCAAATCACTGAGGAGC	0.343													16	24	---	---	---	---	PASS	G	201825050	G	G	201825050	3	3	27	1	0	0	0	0	1	0	0	0	7799	816	29	2	1148	2	IPO9	1	201825050	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	1807235	201825050	47425571	28	11559										
OPTC	26254	broad.mit.edu	37	chr1	203466142	203466142	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cgctcctgcaaccagcatcaGtcccgccaagagcactacgg	9	17	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:203466142G>T	uc001gzu.1	+	3	385	c.269G>T	c.(268-270)AGT>ATT	p.S90I		NM_014359	NP_055174	Q9UBM4	OPT_HUMAN	opticin precursor	90	Ser/Thr-rich.					proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.109)			ACCAGCATCAGTCCCGCCAAG	0.547													5	17	---	---	---	---	PASS	T	203466142	T	T	203466142	3	4	27	1	0	0	0	0	1	0	0	0	10888	1029	36	3	275	3	OPTC	1	203466142	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1641092	203466142	45784479	29	11560										
PLXNA2	5362	broad.mit.edu	37	chr1	208390374	208390374	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	accccggcccgggtgcagccGaagggcagggacacgtatga	16	13	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:208390374G>A	uc001hgz.2	-	2	1652	c.894C>T	c.(892-894)TTC>TTT	p.F298F	PLXNA2_uc001hha.3_Silent_p.F352F	NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	298	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GGGTGCAGCCGAAGGGCAGGG	0.627													19	32	---	---	---	---	PASS	A	208390374	A	A	208390374	2	1	27	1	0	0	0	0	0	0	0	1	12120	1049	37	2		2	PLXNA2	1	208390374	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	4924232	208390374	40860247	30	11561										
RCOR3	55758	broad.mit.edu	37	chr1	211447576	211447576	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgaatacattgcaattgcaaAggaaaagcatggctacaatg	9	6	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:211447576A>T	uc001hig.2	+	3	321	c.152A>T	c.(151-153)AAG>ATG	p.K51M	RCOR3_uc010psv.1_RNA|RCOR3_uc001hie.2_Missense_Mutation_p.K109M|RCOR3_uc010psw.1_Missense_Mutation_p.K109M|RCOR3_uc001hif.2_Missense_Mutation_p.K109M	NM_018254	NP_060724	Q9P2K3	RCOR3_HUMAN	REST corepressor 3 isoform d	51	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		GCAATTGCAAAGGAAAAGCAT	0.313													10	12	---	---	---	---	PASS	T	211447576	T	T	211447576	3	4	27	1	0	0	0	0	1	0	0	0	13184	72	3	5	340	5	RCOR3	1	211447576	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	3057202	211447576	37803045	31	11562										
ESRRG	2104	broad.mit.edu	37	chr1	216824386	216824386	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aggatttacgtctgcgctttGtgatttcacattcattcgtg	9	8	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:216824386G>T	uc001hkw.1	-	3	684	c.518C>A	c.(517-519)ACA>AAA	p.T173K	ESRRG_uc001hky.1_Missense_Mutation_p.T150K|ESRRG_uc009xdp.1_Missense_Mutation_p.T150K|ESRRG_uc001hkz.1_Intron|ESRRG_uc010puc.1_Missense_Mutation_p.T150K|ESRRG_uc001hla.1_Missense_Mutation_p.T150K|ESRRG_uc001hlb.1_Missense_Mutation_p.T150K|ESRRG_uc010pud.1_5'UTR|ESRRG_uc001hlc.1_Missense_Mutation_p.T150K|ESRRG_uc001hld.1_Missense_Mutation_p.T150K|ESRRG_uc001hkx.1_Missense_Mutation_p.T178K|ESRRG_uc009xdo.1_Missense_Mutation_p.T150K|ESRRG_uc001hle.1_Missense_Mutation_p.T150K	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	173	Nuclear receptor.|NR C4-type.				positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	TCTGCGCTTTGTGATTTCACA	0.428													14	50	---	---	---	---	PASS	T	216824386	T	T	216824386	3	4	27	1	0	0	0	0	1	0	0	0	5262	1377	48	3	878	3	ESRRG	1	216824386	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	5376810	216824386	32426235	32	11563										
C1orf55	163859	broad.mit.edu	37	chr1	226173095	226173095	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agagaagagtcttgctgcccGctcctgcagagtgcccccac	11	15	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:226173095G>A	uc001hpu.3	-	7	1317	c.1264C>T	c.(1264-1266)CGG>TGG	p.R422W	C1orf55_uc001hpv.2_3'UTR	NM_152608	NP_689821	Q6IQ49	CA055_HUMAN	hypothetical protein LOC163859	422										lung(1)	1	Breast(184;0.197)					CTTGCTGCCCGCTCCTGCAGA	0.502													30	38	---	---	---	---	PASS	A	226173095	A	A	226173095	3	1	27	1	0	0	0	0	1	0	0	0	2047	1086	38	1	95	1	C1orf55	1	226173095	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	9348709	226173095	23077526	33	11564										
OBSCN	84033	broad.mit.edu	37	chr1	228433333	228433333	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggtgggcaaagcagatgctgGggagtacagctgcgaggctg	19	7	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:228433333G>C	uc009xez.1	+	12	3745	c.3701G>C	c.(3700-3702)GGG>GCG	p.G1234A	OBSCN_uc001hsn.2_Missense_Mutation_p.G1234A	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1234	Ig-like 12.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCAGATGCTGGGGAGTACAGC	0.522													12	42	---	---	---	---	PASS	C	228433333	C	C	228433333	3	2	27	1	0	0	0	0	1	0	0	0	10812	1232	43	4	3743	4	OBSCN	1	228433333	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2260238	228433333	20817288	34	11565										
URB2	9816	broad.mit.edu	37	chr1	229771178	229771178	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gaagacgggagccatgaagaAccttctggctcccatggaca	12	11	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:229771178A>T	uc001hts.1	+	4	954	c.818A>T	c.(817-819)AAC>ATC	p.N273I	URB2_uc009xfd.1_Missense_Mutation_p.N273I	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	273						nucleolus				central_nervous_system(2)|ovary(1)	3						GCCATGAAGAACCTTCTGGCT	0.547													20	28	---	---	---	---	PASS	T	229771178	T	T	229771178	3	4	27	1	0	0	0	0	1	0	0	0	17022	43	2	5	828	5	URB2	1	229771178	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	1337845	229771178	19479443	35	11566										
SIPA1L2	57568	broad.mit.edu	37	chr1	232600782	232600782	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgatgaactcattggagatcCcgagaagacattcaatgtca	9	8	3	5			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:232600782C>A	uc001hvg.2	-	7	2782	c.2624G>T	c.(2623-2625)GGG>GTG	p.G875V	SIPA1L2_uc001hvf.2_5'Flank	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	875					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				ATTGGAGATCCCGAGAAGACA	0.478													10	22	---	---	---	---	PASS	A	232600782	A	A	232600782	3	1	27	1	0	0	0	0	1	0	0	0	14330	623	22	3	2604	3	SIPA1L2	1	232600782	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2829604	232600782	16649839	36	11567										
ACTN2	88	broad.mit.edu	37	chr1	236925901	236925901	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcgttctcttccgcactctaCggggagagcgatctgtgatg	13	11	3	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:236925901C>A	uc001hyf.2	+	21	2871	c.2667C>A	c.(2665-2667)TAC>TAA	p.Y889*	ACTN2_uc001hyg.2_Nonsense_Mutation_p.Y681*|ACTN2_uc009xgi.1_Nonsense_Mutation_p.Y889*|ACTN2_uc010pxu.1_Nonsense_Mutation_p.Y578*|ACTN2_uc001hyh.2_Nonsense_Mutation_p.Y577*	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	889					focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			CCGCACTCTACGGGGAGAGCG	0.532													11	21	---	---	---	---	PASS	A	236925901	A	A	236925901	4	1	27	1	0	0	0	0	0	1	0	0	205	547	19	1	2749	1	ACTN2	1	236925901	Nonsense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	4325119	236925901	12324720	37	11568										
RYR2	6262	broad.mit.edu	37	chr1	237619948	237619948	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tagaccgtttgcacgtctacAgcagtgcagcacactttgct	9	12	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:237619948A>T	uc001hyl.1	+	16	1645	c.1525A>T	c.(1525-1527)AGC>TGC	p.S509C		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	509	Cytoplasmic (By similarity).				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)			GCACGTCTACAGCAGTGCAGC	0.433													11	47	---	---	---	---	PASS	T	237619948	T	T	237619948	3	4	27	1	0	0	0	0	1	0	0	0	13769	188	7	5	1587	5	RYR2	1	237619948	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	694047	237619948	11630673	38	11569										
FMN2	56776	broad.mit.edu	37	chr1	240370304	240370304	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agctctcaggttagaagaaaAggaagtacggcatcatagga	12	6	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:240370304A>G	uc010pyd.1	+	5	2417	c.2192A>G	c.(2191-2193)AAG>AGG	p.K731R	FMN2_uc010pye.1_Missense_Mutation_p.K735R	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	731					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TTAGAAGAAAAGGAAGTACGG	0.557													12	21	---	---	---	---	PASS	G	240370304	G	G	240370304	3	3	27	1	0	0	0	0	1	0	0	0	5950	72	3	5	2210	5	FMN2	1	240370304	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	2750356	240370304	8880317	39	11570										
EXO1	9156	broad.mit.edu	37	chr1	242042374	242042374	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aagttgttttagttggtctgGaggtcttggagatttttcaa	12	3	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:242042374G>T	uc001hzh.2	+	13	2378	c.1838G>T	c.(1837-1839)GGA>GTA	p.G613V	EXO1_uc001hzi.2_Missense_Mutation_p.G613V|EXO1_uc001hzj.2_Missense_Mutation_p.G613V|EXO1_uc009xgq.2_Missense_Mutation_p.G612V	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	613	Interaction with MSH2.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			AGTTGGTCTGGAGGTCTTGGA	0.463								Direct_reversal_of_damage|Editing_and_processing_nucleases					31	47	---	---	---	---	PASS	T	242042374	T	T	242042374	3	4	27	1	0	0	0	0	1	0	0	0	5300	1174	41	2	1876	2	EXO1	1	242042374	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1672070	242042374	7208247	40	11571										
SDCCAG8	10806	broad.mit.edu	37	chr1	243449593	243449593	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggaggaactctctggaatgaAaaataaaatacaagtagttg	10	4	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:243449593A>T	uc001hzw.2	+	5	596	c.440A>T	c.(439-441)AAA>ATA	p.K147I	SDCCAG8_uc010pyk.1_Missense_Mutation_p.K2I|SDCCAG8_uc010pyl.1_Missense_Mutation_p.K2I|SDCCAG8_uc001hzx.2_Missense_Mutation_p.K2I	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	147	Potential.				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		TCTGGAATGAAAAATAAAATA	0.358													21	34	---	---	---	---	PASS	T	243449593	T	T	243449593	3	4	27	1	0	0	0	0	1	0	0	0	13959	14	1	5	458	5	SDCCAG8	1	243449593	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	1407219	243449593	5801028	41	11572										
ZNF238	10472	broad.mit.edu	37	chr1	244217443	244217443	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atgacattgtcaaagtctgcAaaaagaagctgaaagagaaa	9	5	2	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:244217443A>G	uc001iae.2	+	1	862	c.340A>G	c.(340-342)AAA>GAA	p.K114E	ZNF238_uc001iad.3_Missense_Mutation_p.K123E|ZNF238_uc001iaf.1_Missense_Mutation_p.K114E	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	114					negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			CAAAGTCTGCAAAAAGAAGCT	0.458													12	13	---	---	---	---	PASS	G	244217443	G	G	244217443	3	3	27	1	0	0	0	0	1	0	0	0	17787	131	5	5	373	5	ZNF238	1	244217443	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	767850	244217443	5033178	42	11573										
OR2AK2	391191	broad.mit.edu	37	chr1	248129356	248129356	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cgtgtgcttattgtggtattCcagatgagctcaggaaaagg	13	6	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:248129356C>A	uc010pzd.1	+	1	723	c.723C>A	c.(721-723)TTC>TTA	p.F241L	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	241	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TTGTGGTATTCCAGATGAGCT	0.463													4	27	---	---	---	---	PASS	A	248129356	A	A	248129356	3	1	27	1	0	0	0	0	1	0	0	0	10986	854	30	2	725	2	OR2AK2	1	248129356	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	3911913	248129356	1121265	43	11574										
OR2T12	127064	broad.mit.edu	37	chr1	248458694	248458694	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	catgtccatgagggaaagttGgctcaggaggaagtacatgg	15	6	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:248458694G>A	uc010pzj.1	-	1	187	c.187C>T	c.(187-189)CAA>TAA	p.Q63*		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	63	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			AGGGAAAGTTGGCTCAGGAGG	0.557													41	24	---	---	---	---	PASS	A	248458694	A	A	248458694	4	1	27	1	0	0	0	0	0	1	0	0	11019	1357	47	3	778	3	OR2T12	1	248458694	Nonsense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	329338	248458694	791927	44	11575										
OR2T6	254879	broad.mit.edu	37	chr1	248551010	248551010	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tttcggtgtcatttgtgccgTcttcttcatggccatgatag	10	9	4	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:248551010T>C	uc001iei.1	+	1	101	c.101T>C	c.(100-102)GTC>GCC	p.V34A		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	34	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATTTGTGCCGTCTTCTTCATG	0.463													14	41	---	---	---	---	PASS	C	248551010	C	C	248551010	3	2	27	1	0	0	0	0	1	0	0	0	11029	1667	58	5	103	5	OR2T6	1	248551010	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	92316	248551010	699611	45	11576										
OR2T3	343173	broad.mit.edu	37	chr1	248636960	248636960	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atttccccgtcaggctgtggGatccagatgttcttctacct	9	12	3	1	rs146200189		TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:248636960G>T	uc001iel.1	+	1	309	c.309G>T	c.(307-309)GGG>GGT	p.G103G		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	103	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.G103G(1)		skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CAGGCTGTGGGATCCAGATGT	0.547													7	38	---	---	---	---	PASS	T	248636960	T	T	248636960	2	4	27	1	0	0	0	0	0	0	0	1	11023	1161	41	2		2	OR2T3	1	248636960	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	85950	248636960	613661	46	11577										
OR2T10	127069	broad.mit.edu	37	chr1	248756338	248756338	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aagaggctgaccactgtaatGtgggaggagcaggtggtgaa	17	5	0	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr1:248756338G>T	uc010pzn.1	-	1	732	c.732C>A	c.(730-732)CAC>CAA	p.H244Q		NM_001004693	NP_001004693	Q8NGZ9	O2T10_HUMAN	olfactory receptor, family 2, subfamily T,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCACTGTAATGTGGGAGGAGC	0.453													9	21	---	---	---	---	PASS	T	248756338	T	T	248756338	3	4	27	1	0	0	0	0	1	0	0	0	11017	1368	48	3	209	3	OR2T10	1	248756338	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	119378	248756338	494283	47	11578										
ODC1	4953	broad.mit.edu	37	chr2	10582277	10582277	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gacggaaagtatttgtccaaCgctgggttgattacgccggt	13	8	0	1	rs114981547	by1000genomes	TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:10582277C>A	uc010exg.1	-	9	1208	c.774G>T	c.(772-774)GCG>GCT	p.A258A	ODC1_uc002ran.1_5'Flank|ODC1_uc002rao.1_Silent_p.A258A|ODC1_uc010yjd.1_Silent_p.A128A	NM_002539	NP_002530	P11926	DCOR_HUMAN	ornithine decarboxylase 1	258					polyamine biosynthetic process|regulation of cellular amino acid metabolic process|response to virus	cytosol	ornithine decarboxylase activity|protein binding			ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.161)	Pyridoxal Phosphate(DB00114)|Spermine(DB00127)	ATTTGTCCAACGCTGGGTTGA	0.463													40	24	---	---	---	---	PASS	A	10582277	A	A	10582277	2	1	27	1	0	0	0	0	0	0	0	1	10825	523	19	1		1	ODC1	2	10582277	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08		10582277	232617096	48	11579										
AHSA2	130872	broad.mit.edu	37	chr2	61412642	61412642	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcttcccttctccaggttcaGgcctcatctccagtggcact	7	16	5	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:61412642G>C	uc002sbc.1	+	4	1667	c.81G>C	c.(79-81)CAG>CAC	p.Q27H	AHSA2_uc002sbb.1_RNA	NM_152392	NP_689605	Q719I0	AHSA2_HUMAN	AHA1, activator of heat shock 90kDa protein	189					response to stress	cytoplasm	ATPase activator activity|chaperone binding			breast(1)	1			Epithelial(17;0.0994)			TCCAGGTTCAGGCCTCATCTC	0.453													15	230	---	---	---	---	PASS	C	61412642	C	C	61412642	3	2	27	1	0	0	0	0	1	0	0	0	419	991	35	4	87	4	AHSA2	2	61412642	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	50830365	61412642	181786731	49	11580										
OTX1	5013	broad.mit.edu	37	chr2	63282959	63282959	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggctcagcgcccgcgtccgtGtcggtgccggagccattggc	16	15	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:63282959G>C	uc002scd.2	+	5	821	c.573G>C	c.(571-573)GTG>GTC	p.V191V	OTX1_uc010ypt.1_Silent_p.V125V	NM_014562	NP_055377	P32242	OTX1_HUMAN	orthodenticle homeobox 1	191						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(2)	2	Lung NSC(7;0.121)|all_lung(7;0.211)					CCGCGTCCGTGTCGGTGCCGG	0.682													23	43	---	---	---	---	PASS	C	63282959	C	C	63282959	2	2	27	1	0	0	0	0	0	0	0	1	11320	1364	48	4		4	OTX1	2	63282959	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	1870317	63282959	179916414	50	11581										
DYSF	8291	broad.mit.edu	37	chr2	71795186	71795186	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agttcaaccagtttgctgagGggaagctgtctgtctttgct	12	8	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:71795186G>A	uc002sie.2	+	25	2993	c.2617G>A	c.(2617-2619)GGG>AGG	p.G873R	DYSF_uc010feg.2_Missense_Mutation_p.G904R|DYSF_uc010feh.2_Missense_Mutation_p.G859R|DYSF_uc002sig.3_Missense_Mutation_p.G859R|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.G873R|DYSF_uc010fef.2_Missense_Mutation_p.G890R|DYSF_uc010fei.2_Missense_Mutation_p.G890R|DYSF_uc010fek.2_Missense_Mutation_p.G891R|DYSF_uc010fej.2_Missense_Mutation_p.G860R|DYSF_uc010fel.2_Missense_Mutation_p.G860R|DYSF_uc010feo.2_Missense_Mutation_p.G905R|DYSF_uc010fem.2_Missense_Mutation_p.G874R|DYSF_uc010fen.2_Missense_Mutation_p.G891R|DYSF_uc002sif.2_Missense_Mutation_p.G874R	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	873	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GTTTGCTGAGGGGAAGCTGTC	0.597													21	76	---	---	---	---	PASS	A	71795186	A	A	71795186	3	1	27	1	0	0	0	0	1	0	0	0	4859	1232	43	3	2907	3	DYSF	2	71795186	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	8512227	71795186	171404187	51	11582										
ALMS1	7840	broad.mit.edu	37	chr2	73716954	73716954	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcagaacccatcatcatgcaGagccaagcatgtcaaccttt	7	13	3	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:73716954G>C	uc002sje.1	+	12	7982	c.7871G>C	c.(7870-7872)AGA>ACA	p.R2624T	ALMS1_uc002sjf.1_Missense_Mutation_p.R2580T|ALMS1_uc002sjg.2_Missense_Mutation_p.R2010T|ALMS1_uc002sjh.1_Missense_Mutation_p.R2010T	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2622					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TCATCATGCAGAGCCAAGCAT	0.448													12	95	---	---	---	---	PASS	C	73716954	C	C	73716954	3	2	27	1	0	0	0	0	1	0	0	0	535	942	33	2	7903	2	ALMS1	2	73716954	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1921768	73716954	169482419	52	11583										
ACTG2	72	broad.mit.edu	37	chr2	74136211	74136211	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gaaaccttcaatgtccctgcCatgtacgtcgccattcaagc	7	14	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:74136211C>T	uc002sjw.2	+	5	518	c.396C>T	c.(394-396)GCC>GCT	p.A132A	ACTG2_uc010fey.2_Silent_p.A132A|ACTG2_uc010yrn.1_Silent_p.A89A	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	132					muscle contraction	cytoskeleton|cytosol	ATP binding				0						ATGTCCCTGCCATGTACGTCG	0.443													29	117	---	---	---	---	PASS	T	74136211	T	T	74136211	2	4	27	1	0	0	0	0	0	0	0	1	197	581	21	3		3	ACTG2	2	74136211	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	419257	74136211	169063162	53	11584										
ACTG2	72	broad.mit.edu	37	chr2	74140623	74140623	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgtccacaggcatcgtcctgGattcaggtgatggcgtcacc	12	12	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:74140623G>T	uc002sjw.2	+	6	585	c.463G>T	c.(463-465)GAT>TAT	p.D155Y	ACTG2_uc010fey.2_Missense_Mutation_p.D155Y|ACTG2_uc010yrn.1_Missense_Mutation_p.D112Y	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	155					muscle contraction	cytoskeleton|cytosol	ATP binding				0						CATCGTCCTGGATTCAGGTGA	0.517													32	61	---	---	---	---	PASS	T	74140623	T	T	74140623	3	4	27	1	0	0	0	0	1	0	0	0	197	1174	41	2	481	2	ACTG2	2	74140623	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	4412	74140623	169058750	54	11585										
HK2	3099	broad.mit.edu	37	chr2	75115034	75115034	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gttacttgcattgcaggttcGagaaaatgatcagtggaatg	12	5	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:75115034G>C	uc002snd.2	+	16	4150	c.2224G>C	c.(2224-2226)GAG>CAG	p.E742Q		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	742	Substrate 2 binding.|Catalytic.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						TTGCAGGTTCGAGAAAATGAT	0.502													9	97	---	---	---	---	PASS	C	75115034	C	C	75115034	3	2	27	1	0	0	0	0	1	0	0	0	7191	1059	37	2	2286	2	HK2	2	75115034	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	974411	75115034	168084339	55	11586										
REG1A	5967	broad.mit.edu	37	chr2	79349232	79349232	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgacttcaatgtctggattgGcctccatgaccccaaaaagg	9	11	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:79349232G>T	uc002snz.2	+	4	405	c.302G>T	c.(301-303)GGC>GTC	p.G101V	REG1A_uc010ffx.1_3'UTR|REG1A_uc010ysd.1_Missense_Mutation_p.G101V	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	101	C-type lectin.			G -> A (in Ref. 2; AAA36559).	positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						GTCTGGATTGGCCTCCATGAC	0.498													20	73	---	---	---	---	PASS	T	79349232	T	T	79349232	3	4	27	1	0	0	0	0	1	0	0	0	13210	1203	42	3	312	3	REG1A	2	79349232	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	4234198	79349232	163850141	56	11587										
REG3A	5068	broad.mit.edu	37	chr2	79384779	79384779	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ccatgcaaagtaattcatcaCatcactgctactccactccc	3	16	3	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:79384779C>A	uc002sod.1	-	4	634	c.379G>T	c.(379-381)GTG>TTG	p.V127L	REG3A_uc002soe.1_Missense_Mutation_p.V127L|REG3A_uc002sof.1_Missense_Mutation_p.V127L	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	127	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						TAATTCATCACATCACTGCTA	0.542													22	84	---	---	---	---	PASS	A	79384779	A	A	79384779	3	1	27	1	0	0	0	0	1	0	0	0	13212	478	17	3	156	3	REG3A	2	79384779	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	35547	79384779	163814594	57	11588										
EPB41L5	57669	broad.mit.edu	37	chr2	120847927	120847927	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tacttttctttttcagggcaAagaacaggaacatacatttg	7	7	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:120847927A>T	uc002tmg.2	+	12	1004	c.878A>T	c.(877-879)AAA>ATA	p.K293I	EPB41L5_uc010flk.2_Missense_Mutation_p.K293I|EPB41L5_uc010fll.2_Missense_Mutation_p.K293I|EPB41L5_uc002tmh.3_Missense_Mutation_p.K293I|EPB41L5_uc010flm.2_Missense_Mutation_p.K97I	NM_020909	NP_065960	Q9HCM4	E41L5_HUMAN	erythrocyte membrane protein band 4.1 like 5	293	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1						TTTCAGGGCAAAGAACAGGAA	0.358													241	63	---	---	---	---	PASS	T	120847927	T	T	120847927	3	4	27	1	0	0	0	0	1	0	0	0	5157	14	1	5	920	5	EPB41L5	2	120847927	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	41463148	120847927	122351446	58	11589										
RAB3GAP1	22930	broad.mit.edu	37	chr2	135893434	135893434	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caaatttaaggccggaaggaCggctctatcagcatgggaaa	12	8	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:135893434C>T	uc002tuj.2	+	17	1880	c.1855C>T	c.(1855-1857)CGG>TGG	p.R619W	RAB3GAP1_uc010fnf.2_Missense_Mutation_p.R619W|RAB3GAP1_uc010fng.2_Missense_Mutation_p.R444W|RAB3GAP1_uc010fnh.1_RNA	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein	619				R->A: No effect.		centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		GCCGGAAGGACGGCTCTATCA	0.423													24	24	---	---	---	---	PASS	T	135893434	T	T	135893434	3	4	27	1	0	0	0	0	1	0	0	0	12935	527	19	1	1921	1	RAB3GAP1	2	135893434	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	15045507	135893434	107305939	59	11590										
ZEB2	9839	broad.mit.edu	37	chr2	145157072	145157072	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cagtgaccaaatctattaaaGtacgtagcttctctttcttt	5	9	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:145157072G>T	uc002tvu.2	-	8	2162	c.1682C>A	c.(1681-1683)ACT>AAT	p.T561N	ZEB2_uc002tvv.2_Missense_Mutation_p.T555N|ZEB2_uc010zbm.1_Missense_Mutation_p.T532N|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.T590N	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	561						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		ATCTATTAAAGTACGTAGCTT	0.393													4	68	---	---	---	---	PASS	T	145157072	T	T	145157072	3	4	27	1	0	0	0	0	1	0	0	0	17621	1029	36	3	1974	3	ZEB2	2	145157072	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	9263638	145157072	98042301	60	11591										
CSRNP3	80034	broad.mit.edu	37	chr2	166514429	166514429	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gccgccataacagcgtgcgcCagtacactcttggcgagttt	11	13	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:166514429C>A	uc002udf.2	+	5	683	c.307C>A	c.(307-309)CAG>AAG	p.Q103K	CSRNP3_uc002udg.2_Missense_Mutation_p.Q103K	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	103					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						CAGCGTGCGCCAGTACACTCT	0.547													9	14	---	---	---	---	PASS	A	166514429	A	A	166514429	3	1	27	1	0	0	0	0	1	0	0	0	3965	595	21	3	313	3	CSRNP3	2	166514429	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	21357357	166514429	76684944	61	11592										
XIRP2	129446	broad.mit.edu	37	chr2	168105796	168105796	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctgataaccaactctccacaAcatcgccagaaacagtcgct	5	15	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:168105796A>T	uc002udx.2	+	8	7912	c.7894A>T	c.(7894-7896)ACA>TCA	p.T2632S	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.T2457S|XIRP2_uc010fpq.2_Missense_Mutation_p.T2410S|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2457					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ACTCTCCACAACATCGCCAGA	0.448													22	25	---	---	---	---	PASS	T	168105796	T	T	168105796	3	4	27	1	0	0	0	0	1	0	0	0	17427	43	2	5	7924	5	XIRP2	2	168105796	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	1591367	168105796	75093577	62	11593										
TTN	7273	broad.mit.edu	37	chr2	179631324	179631324	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctcaaattcaacaacagcacGctgtttctcaatgacctgtt	5	12	3	1	rs140664731	byFrequency	TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:179631324G>C	uc010zfg.1	-	41	9711	c.9487C>G	c.(9487-9489)CGT>GGT	p.R3163G	TTN_uc010zfh.1_Missense_Mutation_p.R3117G|TTN_uc010zfi.1_Missense_Mutation_p.R3117G|TTN_uc010zfj.1_Missense_Mutation_p.R3117G|TTN_uc002umz.1_5'Flank|TTN_uc002unb.2_Missense_Mutation_p.R3163G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3163							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)			ACAACAGCACGCTGTTTCTCA	0.363													20	11	---	---	---	---	PASS	C	179631324	C	C	179631324	3	2	27	1	0	0	0	0	1	0	0	0	16732	1087	38	4	101789	4	TTN	2	179631324	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	11525528	179631324	63568049	63	11594										
TTN	7273	broad.mit.edu	37	chr2	179644751	179644751	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcttctacataagttctgacCactacagtatctttggccat	5	11	4	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:179644751C>A	uc010zfg.1	-	22	3929	c.3705G>T	c.(3703-3705)GTG>GTT	p.V1235V	TTN_uc010zfh.1_Silent_p.V1189V|TTN_uc010zfi.1_Silent_p.V1189V|TTN_uc010zfj.1_Silent_p.V1189V|TTN_uc002unb.2_Silent_p.V1235V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1235							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)			AAGTTCTGACCACTACAGTAT	0.269													26	26	---	---	---	---	PASS	A	179644751	A	A	179644751	2	1	27	1	0	0	0	0	0	0	0	1	16732	581	21	3		3	TTN	2	179644751	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	13427	179644751	63554622	64	11595										
UBE2E3	10477	broad.mit.edu	37	chr2	181927572	181927572	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tttgaccaacagagcagaacAcgacaggatagccagacagt	10	10	0	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:181927572A>G	uc002unq.1	+	7	800	c.581A>G	c.(580-582)CAC>CGC	p.H194R	UBE2E3_uc002unr.1_Missense_Mutation_p.H194R|UBE2E3_uc010fri.1_Missense_Mutation_p.H194R	NM_182678	NP_872619	Q969T4	UB2E3_HUMAN	ubiquitin-conjugating enzyme E2E 3	194					protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|regulation of growth	cytoplasm|nucleolus	ATP binding|protein binding|ubiquitin-protein ligase activity			ovary(1)	1						AGAGCAGAACACGACAGGATA	0.438													11	6	---	---	---	---	PASS	G	181927572	G	G	181927572	3	3	27	1	0	0	0	0	1	0	0	0	16851	159	6	5	599	5	UBE2E3	2	181927572	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	2282821	181927572	61271801	65	11596										
NCKAP1	10787	broad.mit.edu	37	chr2	183843592	183843592	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	acttagggaagtcatagtgtTaacaaaagaggacatgatga	11	4	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:183843592T>A	uc002upc.2	-	14	1795	c.1393A>T	c.(1393-1395)AAC>TAC	p.N465Y	NCKAP1_uc002upb.2_Missense_Mutation_p.N471Y	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	465					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			GTCATAGTGTTAACAAAAGAG	0.239													3	19	---	---	---	---	PASS	A	183843592	A	A	183843592	3	1	27	1	0	0	0	0	1	0	0	0	10221	1754	61	5	2065	5	NCKAP1	2	183843592	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	1916020	183843592	59355781	66	11597										
ZDBF2	57683	broad.mit.edu	37	chr2	207171568	207171568	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	catctggatgctgaaggaaaAgaacggcacattgacctgga	12	8	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:207171568A>T	uc002vbp.2	+	5	2566	c.2316A>T	c.(2314-2316)AAA>AAT	p.K772N		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	772							nucleic acid binding|zinc ion binding			ovary(3)	3						CTGAAGGAAAAGAACGGCACA	0.423													57	44	---	---	---	---	PASS	T	207171568	T	T	207171568	3	4	27	1	0	0	0	0	1	0	0	0	17596	69	3	5	2326	5	ZDBF2	2	207171568	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	23327976	207171568	36027805	67	11598										
ZDBF2	57683	broad.mit.edu	37	chr2	207176300	207176300	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggctagcaaacaaactgagaGgtaatgaggtaaaatagaag	12	4	0	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:207176300G>T	uc002vbp.2	+	5	7298	c.7048G>T	c.(7048-7050)GGT>TGT	p.G2350C		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	2350							nucleic acid binding|zinc ion binding			ovary(3)	3						CAAACTGAGAGGTAATGAGGT	0.403													5	10	---	---	---	---	PASS	T	207176300	T	T	207176300	3	4	27	1	0	0	0	0	1	0	0	0	17596	1000	35	3	7058	3	ZDBF2	2	207176300	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	4732	207176300	36023073	68	11599										
MYL1	4632	broad.mit.edu	37	chr2	211158470	211158470	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cgtagttgatgcagccattgGagtcttcttgacctgccatc	10	11	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:211158470G>T	uc002vec.2	-	5	662	c.533C>A	c.(532-534)TCC>TAC	p.S178Y	MYL1_uc002veb.2_Missense_Mutation_p.S134Y	NM_079420	NP_524144	P05976	MYL1_HUMAN	fast skeletal myosin alkali light chain 1	178	EF-hand 3.				muscle filament sliding|muscle organ development	cytosol|muscle myosin complex|sarcomere	calcium ion binding|structural constituent of muscle			ovary(1)	1				Epithelial(149;0.00573)|Lung(261;0.0422)|LUSC - Lung squamous cell carcinoma(261;0.0444)|all cancers(144;0.057)		GCAGCCATTGGAGTCTTCTTG	0.428													7	101	---	---	---	---	PASS	T	211158470	T	T	211158470	3	4	27	1	0	0	0	0	1	0	0	0	10043	1174	41	2	59	2	MYL1	2	211158470	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	3982170	211158470	32040903	69	11600										
PLCD4	84812	broad.mit.edu	37	chr2	219501078	219501078	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aaatcccgaaatgactttatTggtcagtacaccctgccttg	7	11	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:219501078T>A	uc002vij.1	+	15	2340	c.2145T>A	c.(2143-2145)ATT>ATA	p.I715I		NM_032726	NP_116115	Q9BRC7	PLCD4_HUMAN	phospholipase C, delta 4	715	C2.				intracellular signal transduction|lipid catabolic process	endoplasmic reticulum|membrane|nucleus	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)	3		Renal(207;0.0915)		Epithelial(149;5.11e-07)|all cancers(144;0.000104)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		ATGACTTTATTGGTCAGTACA	0.542													31	127	---	---	---	---	PASS	A	219501078	A	A	219501078	2	1	27	1	0	0	0	0	0	0	0	1	12033	1800	63	5		5	PLCD4	2	219501078	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	8342608	219501078	23698295	70	11601										
STK11IP	114790	broad.mit.edu	37	chr2	220472790	220472790	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atggttcgtgcagcagcaccCggagctggagctcatgagca	14	11	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:220472790C>T	uc002vml.2	+	14	1317	c.1274C>T	c.(1273-1275)CCG>CTG	p.P425L	STK11IP_uc010zll.1_Missense_Mutation_p.P382L|STK11IP_uc002vmm.1_Missense_Mutation_p.P414L	NM_052902	NP_443134	Q8N1F8	S11IP_HUMAN	LKB1 interacting protein	425					protein localization	cytoplasm	protein kinase binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;2.69e-07)|all cancers(144;5.91e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAGCAGCACCCGGAGCTGGAG	0.637													10	8	---	---	---	---	PASS	T	220472790	T	T	220472790	3	4	27	1	0	0	0	0	1	0	0	0	15287	652	23	1	1328	1	STK11IP	2	220472790	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	971712	220472790	22726583	71	11602										
CXCR7	57007	broad.mit.edu	37	chr2	237489723	237489723	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttctaccccgagcacagcatCaaggagtggctgatcggcat	11	12	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:237489723C>G	uc010fyq.2	+	3	845	c.615C>G	c.(613-615)ATC>ATG	p.I205M	CXCR7_uc002vwd.2_Missense_Mutation_p.I205M	NM_020311	NP_064707	P25106	CXCR7_HUMAN	chemokine orphan receptor 1	205	Extracellular (Potential).				interspecies interaction between organisms	integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3		Breast(86;0.000182)|Renal(207;0.00339)|all_hematologic(139;0.0048)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|all_lung(227;0.147)|all_neural(83;0.223)		Epithelial(121;8.35e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.09e-11)|Kidney(56;1.11e-07)|KIRC - Kidney renal clear cell carcinoma(57;3.03e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000176)|Lung(119;0.00468)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.118)		AGCACAGCATCAAGGAGTGGC	0.567													4	70	---	---	---	---	PASS	G	237489723	G	G	237489723	3	3	27	1	0	0	0	0	1	0	0	0	4096	816	29	2	617	2	CXCR7	2	237489723	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	17016933	237489723	5709650	72	11603										
COL6A3	1293	broad.mit.edu	37	chr2	238263551	238263551	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atgaggctcaccttagctccGgggggtccccttcggccaaa	12	14	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:238263551G>A	uc002vwl.2	-	24	6903	c.6618C>T	c.(6616-6618)CCC>CCT	p.P2206P	COL6A3_uc002vwo.2_Silent_p.P2000P|COL6A3_uc010znj.1_Silent_p.P1599P|COL6A3_uc002vwp.1_Silent_p.P27P	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2206	Triple-helical region.|Collagen-like 3.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CCTTAGCTCCGGGGGGTCCCC	0.577													7	3	---	---	---	---	PASS	A	238263551	A	A	238263551	2	1	27	1	0	0	0	0	0	0	0	1	3701	1103	39	1		1	COL6A3	2	238263551	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	773828	238263551	4935822	73	11604										
GPC1	2817	broad.mit.edu	37	chr2	241401910	241401910	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gggaggccccgagagagctgCgcctgcgggccacccgtgcc	17	16	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr2:241401910C>T	uc002vyw.3	+	3	849	c.628C>T	c.(628-630)CGC>TGC	p.R210C		NM_002081	NP_002072	P35052	GPC1_HUMAN	glypican 1 precursor	210					axon guidance	anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			breast(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;4.51e-33)|all cancers(36;1.74e-30)|OV - Ovarian serous cystadenocarcinoma(60;4.73e-15)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;9.1e-06)|Colorectal(34;0.000487)|Lung(119;0.0013)|LUSC - Lung squamous cell carcinoma(224;0.0154)|COAD - Colon adenocarcinoma(134;0.0194)|READ - Rectum adenocarcinoma(96;0.0949)		GAGAGAGCTGCGCCTGCGGGC	0.711													12	6	---	---	---	---	PASS	T	241401910	T	T	241401910	3	4	27	1	0	0	0	0	1	0	0	0	6597	768	27	1	638	1	GPC1	2	241401910	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	3138359	241401910	1797463	74	11605										
TTLL3	26140	broad.mit.edu	37	chr3	9874874	9874874	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cccatggcgatgtgtcatcgGcggatgggggtccgcccagc	16	13	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:9874874G>A	uc003btg.2	+	11	1857	c.1641G>A	c.(1639-1641)CGG>CGA	p.R547R	ARPC4_uc003btc.1_Intron|TTLL3_uc003btd.3_Intron|TTLL3_uc003btf.3_Intron|TTLL3_uc010hco.1_Intron|TTLL3_uc003bth.3_Silent_p.R335R|TTLL3_uc011atj.1_Silent_p.R483R|TTLL3_uc003btj.3_Intron|TTLL3_uc003bti.3_Silent_p.R335R	NM_001025930	NP_001021100	Q9Y4R7	TTLL3_HUMAN	tubulin tyrosine ligase-like family, member 3	547					axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)					TGTGTCATCGGCGGATGGGGG	0.622													11	13	---	---	---	---	PASS	A	9874874	A	A	9874874	2	1	27	1	0	0	0	0	0	0	0	1	16725	1190	42	3		3	TTLL3	3	9874874	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08		9874874	188147556	75	11606										
TMEM40	55287	broad.mit.edu	37	chr3	12791327	12791327	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gggaggaggatgctgaagtcTccatggcttttcctggagga	16	7	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:12791327T>A	uc003bxg.1	-	2	132	c.5A>T	c.(4-6)GAG>GTG	p.E2V	TMEM40_uc003bxh.1_Missense_Mutation_p.E2V|TMEM40_uc003bxi.1_Missense_Mutation_p.E2V|TMEM40_uc011auv.1_Missense_Mutation_p.E18V	NM_018306	NP_060776	Q8WWA1	TMM40_HUMAN	transmembrane protein 40	2						integral to membrane					0						TGCTGAAGTCTCCATGGCTTT	0.348													11	19	---	---	---	---	PASS	A	12791327	A	A	12791327	3	1	27	1	0	0	0	0	1	0	0	0	16160	1551	54	5	740	5	TMEM40	3	12791327	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	2916453	12791327	185231103	76	11607										
CCR8	1237	broad.mit.edu	37	chr3	39374082	39374082	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgacctgctttttgtcttctCcttcccctttcagacctact	4	15	3	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:39374082C>A	uc010hhr.2	+	2	398	c.260C>A	c.(259-261)TCC>TAC	p.S87Y	CCR8_uc003cjm.2_Intron	NM_005201	NP_005192	P51685	CCR8_HUMAN	chemokine (C-C motif) receptor 8	87	Helical; Name=2; (Potential).				cell adhesion|chemotaxis|elevation of cytosolic calcium ion concentration|immune response	integral to plasma membrane	coreceptor activity			ovary(1)|lung(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0504)|Kidney(284;0.0635)		TTTGTCTTCTCCTTCCCCTTT	0.498													75	70	---	---	---	---	PASS	A	39374082	A	A	39374082	3	1	27	1	0	0	0	0	1	0	0	0	2947	855	30	2	262	2	CCR8	3	39374082	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	26582755	39374082	158648348	77	11608										
MYL3	4634	broad.mit.edu	37	chr3	46899752	46899752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtttagctggacatgatgtgCttcacaaatgctggaaagaa	11	6	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:46899752C>A	uc003cql.1	-	6	663	c.570G>T	c.(568-570)AAG>AAT	p.K190N		NM_000258	NP_000249	P08590	MYL3_HUMAN	slow skeletal ventricular myosin alkali light	190	EF-hand 3.				cardiac muscle contraction|muscle filament sliding|positive regulation of ATPase activity|regulation of striated muscle contraction|regulation of the force of heart contraction|ventricular cardiac muscle tissue morphogenesis	A band|cytosol|I band|muscle myosin complex	actin monomer binding|calcium ion binding|myosin II heavy chain binding|structural constituent of muscle				0				BRCA - Breast invasive adenocarcinoma(193;0.00116)|KIRC - Kidney renal clear cell carcinoma(197;0.00557)|Kidney(197;0.0063)		ACATGATGTGCTTCACAAATG	0.602													15	7	---	---	---	---	PASS	A	46899752	A	A	46899752	3	1	27	1	0	0	0	0	1	0	0	0	10048	796	28	3	21	3	MYL3	3	46899752	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	7525670	46899752	151122678	78	11609										
CCDC51	79714	broad.mit.edu	37	chr3	48476522	48476522	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgtgctgcatggcaaacccaGggctgcgccccatcatcctg	11	15	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:48476522G>A	uc003csz.2	-	2	138	c.17C>T	c.(16-18)CCT>CTT	p.P6L	CCDC51_uc003cta.2_Intron|CCDC51_uc003ctb.2_Intron|CCDC51_uc003ctc.2_Missense_Mutation_p.P6L|CCDC51_uc003ctd.2_Intron	NM_024661	NP_078937	Q96ER9	CCD51_HUMAN	coiled-coil domain containing 51	6						integral to membrane					0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		GGCAAACCCAGGGCTGCGCCC	0.597													5	9	---	---	---	---	PASS	A	48476522	A	A	48476522	3	1	27	1	0	0	0	0	1	0	0	0	2821	1000	35	3	1230	3	CCDC51	3	48476522	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1576770	48476522	149545908	79	11610										
GBE1	2632	broad.mit.edu	37	chr3	81640303	81640303	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aatattcactgtaatcacctGagaaaccttgaccttagaaa	5	9	2	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:81640303G>A	uc003dqg.2	-	10	1404	c.1121C>T	c.(1120-1122)TCA>TTA	p.S374L	GBE1_uc011bgm.1_Missense_Mutation_p.S333L	NM_000158	NP_000149	Q04446	GLGB_HUMAN	glucan (1,4-alpha-), branching enzyme 1	374					glucose metabolic process|glycogen biosynthetic process	cytosol	1,4-alpha-glucan branching enzyme activity|cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds	p.S374*(1)		ovary(3)	3		Lung NSC(201;0.0117)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0654)|Epithelial(33;0.00305)|LUSC - Lung squamous cell carcinoma(29;0.00646)|BRCA - Breast invasive adenocarcinoma(55;0.00813)|Lung(72;0.0129)|KIRC - Kidney renal clear cell carcinoma(39;0.212)|Kidney(39;0.247)		GTAATCACCTGAGAAACCTTG	0.358									Glycogen_Storage_Disease_type_IV				3	6	---	---	---	---	PASS	A	81640303	A	A	81640303	3	1	27	1	0	0	0	0	1	0	0	0	6270	1294	45	2	1019	2	GBE1	3	81640303	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	33163781	81640303	116382127	80	11611										
EPHA3	2042	broad.mit.edu	37	chr3	89259464	89259464	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agtatacttcaaaaagtgccCatttacagtgaagaatctgg	8	7	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:89259464C>T	uc003dqy.2	+	3	833	c.608C>T	c.(607-609)CCA>CTA	p.P203L	EPHA3_uc003dqx.1_Missense_Mutation_p.P203L|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	203	Extracellular (Potential).|Cys-rich.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		AAAAAGTGCCCATTTACAGTG	0.453										TSP Lung(6;0.00050)			47	82	---	---	---	---	PASS	T	89259464	T	T	89259464	3	4	27	1	0	0	0	0	1	0	0	0	5168	594	21	3	618	3	EPHA3	3	89259464	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	7619161	89259464	108762966	81	11612										
CCDC54	84692	broad.mit.edu	37	chr3	107097078	107097078	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgagaaaaaaacaatttctcCccaaatgaaaactctgaaga	5	8	2	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:107097078C>A	uc003dwi.1	+	1	891	c.644C>A	c.(643-645)CCC>CAC	p.P215H		NM_032600	NP_115989	Q8NEL0	CCD54_HUMAN	coiled-coil domain containing 54	215											0						ACAATTTCTCCCCAAATGAAA	0.393													22	42	---	---	---	---	PASS	A	107097078	A	A	107097078	3	1	27	1	0	0	0	0	1	0	0	0	2824	623	22	3	646	3	CCDC54	3	107097078	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	17837614	107097078	90925352	82	11613										
CD96	10225	broad.mit.edu	37	chr3	111298029	111298029	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cggaagttctcttgccacatTagagtcggtcctaacaaaat	8	10	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:111298029T>A	uc003dxw.2	+	5	917	c.747T>A	c.(745-747)ATT>ATA	p.I249I	CD96_uc003dxv.2_Silent_p.I233I|CD96_uc003dxx.2_Silent_p.I233I|CD96_uc010hpy.1_Silent_p.I233I	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor	249	Extracellular (Potential).				cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						CTTGCCACATTAGAGTCGGTC	0.473									Opitz_Trigonocephaly_syndrome				35	57	---	---	---	---	PASS	A	111298029	A	A	111298029	2	1	27	1	0	0	0	0	0	0	0	1	3048	1742	61	5		5	CD96	3	111298029	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	4200951	111298029	86724401	83	11614										
IGSF11	152404	broad.mit.edu	37	chr3	118621385	118621385	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcctataccaaggacccggcCcgactctgggctggtaccat	10	15	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:118621385C>A	uc003ebw.2	-	7	1525	c.1278G>T	c.(1276-1278)CGG>CGT	p.R426R	IGSF11_uc011biv.1_Silent_p.R398R|IGSF11_uc003ebx.2_Silent_p.R402R|IGSF11_uc003eby.2_Silent_p.R425R|IGSF11_uc003ebz.2_Silent_p.R401R|IGSF11_uc010hqs.2_Silent_p.R425R	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	426	Cytoplasmic (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						AGGACCCGGCCCGACTCTGGG	0.542													31	73	---	---	---	---	PASS	A	118621385	A	A	118621385	2	1	27	1	0	0	0	0	0	0	0	1	7598	610	22	3		3	IGSF11	3	118621385	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	7323356	118621385	79401045	84	11615										
GOLGB1	2804	broad.mit.edu	37	chr3	121414947	121414947	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tctactttcttctccaatctCttctggtttttgcttcattt	3	11	6	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:121414947C>A	uc003eei.3	-	13	4534	c.4408G>T	c.(4408-4410)GAG>TAG	p.E1470*	GOLGB1_uc010hrc.2_Nonsense_Mutation_p.E1475*|GOLGB1_uc003eej.3_Nonsense_Mutation_p.E1436*|GOLGB1_uc011bjm.1_Nonsense_Mutation_p.E1356*|GOLGB1_uc010hrd.1_Nonsense_Mutation_p.E1434*	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1470	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TCTCCAATCTCTTCTGGTTTT	0.403													89	165	---	---	---	---	PASS	A	121414947	A	A	121414947	4	1	27	1	0	0	0	0	0	1	0	0	6565	922	32	2	5411	2	GOLGB1	3	121414947	Nonsense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2793562	121414947	76607483	85	11616										
CCDC37	348807	broad.mit.edu	37	chr3	126138990	126138990	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggaggtttctgcagacgatgCggctggggcggagcccgtct	18	10	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:126138990C>A	uc003eiu.1	+	11	1099	c.1000C>A	c.(1000-1002)CGG>AGG	p.R334R	CCDC37_uc010hsg.1_Silent_p.R335R	NM_182628	NP_872434	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37	334										ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.166)		GCAGACGATGCGGCTGGGGCG	0.647													9	17	---	---	---	---	PASS	A	126138990	A	A	126138990	2	1	27	1	0	0	0	0	0	0	0	1	2809	759	27	1		1	CCDC37	3	126138990	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	4724043	126138990	71883440	86	11617										
PIK3R4	30849	broad.mit.edu	37	chr3	130464034	130464034	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctacagaaaggatctgggagGgagcaatgccagcaagctga	14	8	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:130464034G>C	uc003enj.2	-	2	610	c.29C>G	c.(28-30)CCC>CGC	p.P10R		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	10					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						GATCTGGGAGGGAGCAATGCC	0.383													21	26	---	---	---	---	PASS	C	130464034	C	C	130464034	3	2	27	1	0	0	0	0	1	0	0	0	11921	1232	43	4	4123	4	PIK3R4	3	130464034	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	4325044	130464034	67558396	87	11618										
DNAJC13	23317	broad.mit.edu	37	chr3	132182590	132182590	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caggagcttgccctaagtgaAggtgccttacctcgacactt	10	12	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:132182590A>G	uc003eor.2	+	17	1886	c.1821A>G	c.(1819-1821)GAA>GAG	p.E607E	DNAJC13_uc010htq.1_Silent_p.E607E	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	607							heat shock protein binding			ovary(1)|breast(1)	2						CCCTAAGTGAAGGTGCCTTAC	0.408													16	48	---	---	---	---	PASS	G	132182590	G	G	132182590	2	3	27	1	0	0	0	0	0	0	0	1	4632	69	3	5		5	DNAJC13	3	132182590	Silent	SNP	A	TCGA-21-5786-01A-01D-1632-08	1718556	132182590	65839840	88	11619										
ZIC4	84107	broad.mit.edu	37	chr3	147109008	147109008	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aagcgccgctcgcagccctcGaactcgcatctgaagggctt	11	15	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:147109008G>A	uc003ewd.1	-	4	987	c.714C>T	c.(712-714)TTC>TTT	p.F238F	ZIC4_uc003ewc.1_Silent_p.F168F|ZIC4_uc011bno.1_Silent_p.F288F	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	238	C2H2-type 4.					nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						CGCAGCCCTCGAACTCGCATC	0.622													8	12	---	---	---	---	PASS	A	147109008	A	A	147109008	2	1	27	1	0	0	0	0	0	0	0	1	17678	1049	37	2		2	ZIC4	3	147109008	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	14926418	147109008	50913422	89	11620										
VEPH1	79674	broad.mit.edu	37	chr3	157034940	157034940	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	actgtataggcagtaatgacCcttcagggagcaggtgaaga	13	7	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:157034940C>A	uc003fbj.1	-	10	2103	c.1786G>T	c.(1786-1788)GGT>TGT	p.G596C	VEPH1_uc003fbk.1_Missense_Mutation_p.G596C|VEPH1_uc010hvu.1_Missense_Mutation_p.G596C	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	596						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			CAGTAATGACCCTTCAGGGAG	0.398													18	38	---	---	---	---	PASS	A	157034940	A	A	157034940	3	1	27	1	0	0	0	0	1	0	0	0	17151	623	22	3	735	3	VEPH1	3	157034940	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	9925932	157034940	40987490	90	11621										
IFT80	57560	broad.mit.edu	37	chr3	160102367	160102367	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gatatgctttggttcttttaAaagagatatctttagtctca	7	5	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:160102367A>G	uc011boy.1	-	2	455	c.22T>C	c.(22-24)TTA>CTA	p.L8L	IFT80_uc003fda.2_Intron|IFT80_uc003fdb.1_5'UTR|IFT80_uc003fdd.1_5'UTR|IFT80_uc003fde.1_5'UTR	NM_020800	NP_065851	Q9P2H3	IFT80_HUMAN	WD repeat domain 56	8						cilium axoneme|microtubule basal body				ovary(1)	1			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			GGTTCTTTTAAAAGAGATATC	0.259													7	21	---	---	---	---	PASS	G	160102367	G	G	160102367	2	3	27	1	0	0	0	0	0	0	0	1	7564	11	1	5		5	IFT80	3	160102367	Silent	SNP	A	TCGA-21-5786-01A-01D-1632-08	3067427	160102367	37920063	91	11622										
KPNA4	3840	broad.mit.edu	37	chr3	160226054	160226054	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	attttgttggataaggtaagCcacctgaagaataaaaacaa	8	5	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:160226054C>A	uc003fdn.2	-	15	1519	c.1213G>T	c.(1213-1215)GCT>TCT	p.A405S		NM_002268	NP_002259	O00629	IMA4_HUMAN	karyopherin alpha 4	405	ARM 9.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			ATAAGGTAAGCCACCTGAAGA	0.333													6	13	---	---	---	---	PASS	A	160226054	A	A	160226054	3	1	27	1	0	0	0	0	1	0	0	0	8432	739	26	3	364	3	KPNA4	3	160226054	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	123687	160226054	37796376	92	11623										
SLITRK3	22865	broad.mit.edu	37	chr3	164906718	164906718	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtgatgcactggttggtgccCcaataaggtgagaatctcca	12	9	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:164906718C>G	uc003fej.3	-	2	2345	c.1901G>C	c.(1900-1902)GGG>GCG	p.G634A	SLITRK3_uc003fek.2_Missense_Mutation_p.G634A	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	634	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GGTTGGTGCCCCAATAAGGTG	0.527										HNSCC(40;0.11)			7	13	---	---	---	---	PASS	G	164906718	G	G	164906718	3	3	27	1	0	0	0	0	1	0	0	0	14744	623	22	4	1036	4	SLITRK3	3	164906718	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	4680664	164906718	33115712	93	11624										
SLITRK3	22865	broad.mit.edu	37	chr3	164908356	164908356	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tggtatataatttcctcataGaattcctctgcagatacagt	6	8	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:164908356G>C	uc003fej.3	-	2	707	c.263C>G	c.(262-264)TCT>TGT	p.S88C	SLITRK3_uc003fek.2_Missense_Mutation_p.S88C	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	88	LRR 1.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						TTTCCTCATAGAATTCCTCTG	0.353										HNSCC(40;0.11)			33	64	---	---	---	---	PASS	C	164908356	C	C	164908356	3	2	27	1	0	0	0	0	1	0	0	0	14744	942	33	2	2674	2	SLITRK3	3	164908356	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1638	164908356	33114074	94	11625										
SERPINI2	5276	broad.mit.edu	37	chr3	167189477	167189477	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gaaccaaagttattccaaggGgtgaaaatataatgttgtcc	9	6	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:167189477G>T	uc003fer.1	-	1	204	c.146C>A	c.(145-147)CCC>CAC	p.P49H	SERPINI2_uc003fes.1_Missense_Mutation_p.P59H|SERPINI2_uc003fet.1_Missense_Mutation_p.P49H	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),	49					cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						TATTCCAAGGGGTGAAAATAT	0.393													4	124	---	---	---	---	PASS	T	167189477	T	T	167189477	3	4	27	1	0	0	0	0	1	0	0	0	14119	1232	43	3	1103	3	SERPINI2	3	167189477	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2281121	167189477	30832953	95	11626										
SPATA16	83893	broad.mit.edu	37	chr3	172835144	172835144	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atttcatcaatgtagaccaaCttcatttccacatccattat	2	11	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr3:172835144C>T	uc003fin.3	-	2	536	c.378G>A	c.(376-378)AAG>AAA	p.K126K		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	126					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			TGTAGACCAACTTCATTTCCA	0.423													45	71	---	---	---	---	PASS	T	172835144	T	T	172835144	2	4	27	1	0	0	0	0	0	0	0	1	15000	564	20	3		3	SPATA16	3	172835144	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	5645667	172835144	25187286	96	11627										
RGS12	6002	broad.mit.edu	37	chr4	3318114	3318114	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctgtcaatgaaatcaacgtgAaaaaagcatctcatgaagat	7	7	3	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:3318114A>T	uc003ggw.2	+	2	1121	c.217A>T	c.(217-219)AAA>TAA	p.K73*	RGS12_uc003ggu.2_Nonsense_Mutation_p.K73*|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Nonsense_Mutation_p.K73*|RGS12_uc003ggx.1_Nonsense_Mutation_p.K73*	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	73	PDZ.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		AATCAACGTGAAAAAAGCATC	0.517													9	26	---	---	---	---	PASS	T	3318114	T	T	3318114	4	4	27	1	0	0	0	0	0	1	0	0	13295	247	9	5	219	5	RGS12	4	3318114	Nonsense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08		3318114	187836162	97	11628										
SLIT2	9353	broad.mit.edu	37	chr4	20598066	20598066	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tctgtgagttttctccacccAtggtcctccctcgtaccagc	7	16	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:20598066A>C	uc003gpr.1	+	32	3553	c.3349A>C	c.(3349-3351)ATG>CTG	p.M1117L	SLIT2_uc003gps.1_Missense_Mutation_p.M1109L	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1117					apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TTCTCCACCCATGGTCCTCCC	0.398													4	45	---	---	---	---	PASS	C	20598066	C	C	20598066	3	2	27	1	0	0	0	0	1	0	0	0	14740	217	8	5	3475	5	SLIT2	4	20598066	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	17279952	20598066	170556210	98	11629										
GBA3	57733	broad.mit.edu	37	chr4	22748973	22748973	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gttaaaaaatggggttactcCcattgtgaccctctaccact	7	11	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:22748973C>A	uc003gqp.3	+	3	432	c.341C>A	c.(340-342)CCC>CAC	p.P114H	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Missense_Mutation_p.P115H	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	114					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						GGGGTTACTCCCATTGTGACC	0.378													23	74	---	---	---	---	PASS	A	22748973	A	A	22748973	3	1	27	1	0	0	0	0	1	0	0	0	6268	623	22	3	351	3	GBA3	4	22748973	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2150907	22748973	168405303	99	11630			1	13		3	3	633	N	G_C	3.719113e-05
GBA3	57733	broad.mit.edu	37	chr4	22749246	22749246	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	taaggctcatgccagatcctGgcacagctatgattccttat	8	11	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:22749246G>A	uc003gqp.3	+	3	705	c.614G>A	c.(613-615)TGG>TAG	p.W205*	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Nonsense_Mutation_p.W206*	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	205					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						GCCAGATCCTGGCACAGCTAT	0.448													28	59	---	---	---	---	PASS	A	22749246	A	A	22749246	4	1	27	1	0	0	0	0	0	1	0	0	6268	1357	47	3	624	3	GBA3	4	22749246	Nonsense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	273	22749246	168405030	100	11631			1	13		3	3	633	N	G_C	3.719113e-05
GBA3	57733	broad.mit.edu	37	chr4	22749605	22749605	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agaacaagaaaggagaactaGgtattctccaggatgcggaa	12	6	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:22749605G>C	uc003gqp.3	+	3	1064	c.973G>C	c.(973-975)GGT>CGT	p.G325R	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Missense_Mutation_p.G326R	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	325					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						AGGAGAACTAGGTATTCTCCA	0.383													3	9	---	---	---	---	PASS	C	22749605	C	C	22749605	3	2	27	1	0	0	0	0	1	0	0	0	6268	1000	35	4	983	4	GBA3	4	22749605	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	359	22749605	168404671	101	11632			1	13		3	3	633	N	G_C	3.719113e-05
RBM47	54502	broad.mit.edu	37	chr4	40439916	40439916	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cctcagccgcgccgccgcccCtggctgccttctggtagcgc	12	20	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:40439916C>A	uc003gvc.2	-	4	1705	c.995G>T	c.(994-996)AGG>ATG	p.R332M	RBM47_uc003gvd.2_Missense_Mutation_p.R332M|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Missense_Mutation_p.R294M|RBM47_uc003gvg.1_Missense_Mutation_p.R332M	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	332						nucleus	nucleotide binding|RNA binding			breast(3)	3						GCCGCCGCCCCTGGCTGCCTT	0.652													10	24	---	---	---	---	PASS	A	40439916	A	A	40439916	3	1	27	1	0	0	0	0	1	0	0	0	13141	681	24	3	802	3	RBM47	4	40439916	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	17690311	40439916	150714360	102	11633										
DCAF4L1	285429	broad.mit.edu	37	chr4	41984529	41984529	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agtacggctcctttgctgttTaatggctgtcgctccgggga	13	10	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:41984529T>A	uc003gwk.2	+	1	817	c.720T>A	c.(718-720)TTT>TTA	p.F240L		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	240										skin(1)	1						CTTTGCTGTTTAATGGCTGTC	0.552													32	78	---	---	---	---	PASS	A	41984529	A	A	41984529	3	1	27	1	0	0	0	0	1	0	0	0	4271	1751	61	5	722	5	DCAF4L1	4	41984529	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	1544613	41984529	149169747	103	11634										
GABRA2	2555	broad.mit.edu	37	chr4	46305618	46305618	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtggaaatgagctgtcattaCagtatattcacctggaagaa	10	6	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:46305618C>A	uc003gxc.3	-	7	1388	c.715G>T	c.(715-717)GTA>TTA	p.V239L	GABRA2_uc010igc.2_Missense_Mutation_p.V239L|GABRA2_uc011bzc.1_Missense_Mutation_p.V184L|GABRA2_uc003gxe.2_Missense_Mutation_p.V239L	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	239	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GCTGTCATTACAGTATATTCA	0.348													9	23	---	---	---	---	PASS	A	46305618	A	A	46305618	3	1	27	1	0	0	0	0	1	0	0	0	6161	478	17	3	652	3	GABRA2	4	46305618	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	4321089	46305618	144848658	104	11635										
PDGFRA	5156	broad.mit.edu	37	chr4	55152076	55152076	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aaaattgtgaagatctgtgaCtttggcctggccagagacat	11	7	1	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:55152076C>G	uc003han.3	+	18	2839	c.2508C>G	c.(2506-2508)GAC>GAG	p.D836E	PDGFRA_uc003haa.2_Missense_Mutation_p.D596E	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	836	Protein kinase.|Cytoplasmic (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	AGATCTGTGACTTTGGCCTGG	0.502			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			25	93	---	---	---	---	PASS	G	55152076	G	G	55152076	3	3	27	1	0	0	0	0	1	0	0	0	11661	564	20	4	2574	4	PDGFRA	4	55152076	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	8846458	55152076	136002200	105	11636										
KDR	3791	broad.mit.edu	37	chr4	55970937	55970937	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atgatcaaaatgtcatttgtGctattagagaacatggtggc	10	5	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:55970937G>T	uc003has.2	-	13	2162	c.1860C>A	c.(1858-1860)AGC>AGA	p.S620R	KDR_uc003hat.1_Missense_Mutation_p.S620R|KDR_uc011bzx.1_Missense_Mutation_p.S620R	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	620	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)	TGTCATTTGTGCTATTAGAGA	0.453			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			7	34	---	---	---	---	PASS	T	55970937	T	T	55970937	3	4	27	1	0	0	0	0	1	0	0	0	8139	1310	46	3	2282	3	KDR	4	55970937	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	818861	55970937	135183339	106	11637										
KDR	3791	broad.mit.edu	37	chr4	55987285	55987285	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgcaagtaatttgaagagttGtattagccttaattgtaagt	9	3	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:55987285G>T	uc003has.2	-	2	442	c.140C>A	c.(139-141)ACA>AAA	p.T47K	KDR_uc003hat.1_Missense_Mutation_p.T47K|KDR_uc011bzx.1_Missense_Mutation_p.T47K	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	47	Ig-like C2-type 1.|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)	TTGAAGAGTTGTATTAGCCTT	0.328			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			14	31	---	---	---	---	PASS	T	55987285	T	T	55987285	3	4	27	1	0	0	0	0	1	0	0	0	8139	1377	48	3	4046	3	KDR	4	55987285	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	16348	55987285	135166991	107	11638										
UGT2B4	7363	broad.mit.edu	37	chr4	70361033	70361033	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gaacagaagtcctccactatGcttttcaattgcgtagccag	8	11	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:70361033G>T	uc003hek.3	-	1	594	c.547C>A	c.(547-549)CAT>AAT	p.H183N	UGT2B4_uc011cap.1_Missense_Mutation_p.H47N|UGT2B4_uc003hel.3_Missense_Mutation_p.H183N	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	183					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						CCTCCACTATGCTTTTCAATT	0.443													20	15	---	---	---	---	PASS	T	70361033	T	T	70361033	3	4	27	1	0	0	0	0	1	0	0	0	16958	1319	46	3	1063	3	UGT2B4	4	70361033	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	14373748	70361033	120793243	108	11639										
SHROOM3	57619	broad.mit.edu	37	chr4	77661306	77661306	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aactttggcaagaccaagtcAgccttctcatctctccagaa	6	13	3	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:77661306A>G	uc011cbx.1	+	5	2933	c.1980A>G	c.(1978-1980)TCA>TCG	p.S660S	SHROOM3_uc011cbz.1_Silent_p.S484S|SHROOM3_uc003hkf.1_Silent_p.S535S|SHROOM3_uc003hkg.2_Silent_p.S438S	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	660					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			AGACCAAGTCAGCCTTCTCAT	0.592													28	37	---	---	---	---	PASS	G	77661306	G	G	77661306	2	3	27	1	0	0	0	0	0	0	0	1	14295	175	7	5		5	SHROOM3	4	77661306	Silent	SNP	A	TCGA-21-5786-01A-01D-1632-08	7300273	77661306	113492970	109	11640										
COL25A1	84570	broad.mit.edu	37	chr4	109784501	109784501	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tccgggggctccaggttcccCtcgctcacctcttccaggag	11	17	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:109784501C>T	uc003hze.1	-	20	1657	c.1126G>A	c.(1126-1128)GGG>AGG	p.G376R	COL25A1_uc003hzg.2_Missense_Mutation_p.G376R|COL25A1_uc003hzd.2_RNA|COL25A1_uc003hzf.2_Missense_Mutation_p.G157R	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	376	Extracellular (Potential).|Collagen-like 5.					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		CCAGGTTCCCCTCGCTCACCT	0.493													10	9	---	---	---	---	PASS	T	109784501	T	T	109784501	3	4	27	1	0	0	0	0	1	0	0	0	3684	681	24	3	994	3	COL25A1	4	109784501	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	32123195	109784501	81369775	110	11641										
SEC24B	10427	broad.mit.edu	37	chr4	110441621	110441621	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttatcacagcctcaaatgttGattgtgtctgatatagatgg	9	6	3	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:110441621G>T	uc003hzk.2	+	12	2281	c.2226G>T	c.(2224-2226)TTG>TTT	p.L742F	SEC24B_uc003hzl.2_Missense_Mutation_p.L707F|SEC24B_uc011cfp.1_Missense_Mutation_p.L772F|SEC24B_uc011cfq.1_Missense_Mutation_p.L741F|SEC24B_uc011cfr.1_Missense_Mutation_p.L706F	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	742					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		CTCAAATGTTGATTGTGTCTG	0.358													29	17	---	---	---	---	PASS	T	110441621	T	T	110441621	3	4	27	1	0	0	0	0	1	0	0	0	13995	1281	45	2	2272	2	SEC24B	4	110441621	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	657120	110441621	80712655	111	11642										
ANK2	287	broad.mit.edu	37	chr4	114275181	114275181	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	acgtgccaaaaaagaccaccCacaggccacatccagctgcg	8	16	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:114275181C>A	uc003ibe.3	+	38	5507	c.5407C>A	c.(5407-5409)CAC>AAC	p.H1803N	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_5'Flank|ANK2_uc011cgb.1_Missense_Mutation_p.H1818N	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1770					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AAAGACCACCCACAGGCCACA	0.522													29	24	---	---	---	---	PASS	A	114275181	A	A	114275181	3	1	27	1	0	0	0	0	1	0	0	0	621	594	21	3	5622	3	ANK2	4	114275181	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	3833560	114275181	76879095	112	11643										
PCDH10	57575	broad.mit.edu	37	chr4	134075502	134075502	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gctcagctatctagttgacaGacctcgccgagttaacaggt	10	11	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:134075502G>C	uc003iha.2	+	2	3498	c.2672G>C	c.(2671-2673)AGA>ACA	p.R891T		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	891	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CTAGTTGACAGACCTCGCCGA	0.368													8	9	---	---	---	---	PASS	C	134075502	C	C	134075502	3	2	27	1	0	0	0	0	1	0	0	0	11507	942	33	2	2738	2	PCDH10	4	134075502	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	19800321	134075502	57078774	113	11644										
FAT1	2195	broad.mit.edu	37	chr4	187535395	187535395	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cacctgaacccaataacgtgTaagtaatttcagcgttagag	8	9	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr4:187535395T>C	uc003izf.2	-	12	9367	c.9179A>G	c.(9178-9180)TAC>TGC	p.Y3060C		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3060	Extracellular (Potential).|Cadherin 28.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CAATAACGTGTAAGTAATTTC	0.383										HNSCC(5;0.00058)			47	42	---	---	---	---	PASS	C	187535395	C	C	187535395	3	2	27	1	0	0	0	0	1	0	0	0	5689	1638	57	5	4651	5	FAT1	4	187535395	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	53459893	187535395	3618881	114	11645										
SLC6A19	340024	broad.mit.edu	37	chr5	1208963	1208963	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gctgcggcggggcagcctggGtgtgtggagctccatccacc	17	13	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:1208963G>T	uc003jbw.3	+	2	361	c.305G>T	c.(304-306)GGT>GTT	p.G102V		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	102	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GGCAGCCTGGGTGTGTGGAGC	0.682													30	29	---	---	---	---	PASS	T	1208963	T	T	1208963	3	4	27	1	0	0	0	0	1	0	0	0	14682	1261	44	3	311	3	SLC6A19	5	1208963	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08		1208963	179706297	115	11646										
ADAMTS16	170690	broad.mit.edu	37	chr5	5303769	5303769	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cggccagagcgcagctgctgCccgacgctgtctgcacctcc	12	18	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:5303769C>T	uc003jdl.2	+	20	3214	c.3076C>T	c.(3076-3078)CCC>TCC	p.P1026S	ADAMTS16_uc003jdk.1_Missense_Mutation_p.P1026S	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1026	TSP type-1 4.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GCAGCTGCTGCCCGACGCTGT	0.637													13	32	---	---	---	---	PASS	T	5303769	T	T	5303769	3	4	27	1	0	0	0	0	1	0	0	0	261	739	26	3	3154	3	ADAMTS16	5	5303769	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	4094806	5303769	175611491	116	11647										
KIAA0947	23379	broad.mit.edu	37	chr5	5489359	5489359	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aagatcctggaagcttggcgGagagaggcctccaaaagcgt	14	9	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:5489359G>T	uc003jdm.3	+	19	6939	c.6717G>T	c.(6715-6717)CGG>CGT	p.R2239R		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	2239										ovary(1)|central_nervous_system(1)	2						AAGCTTGGCGGAGAGAGGCCT	0.532													10	19	---	---	---	---	PASS	T	5489359	T	T	5489359	2	4	27	1	0	0	0	0	0	0	0	1	8202	1161	41	2		2	KIAA0947	5	5489359	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	185590	5489359	175425901	117	11648										
CDH18	1016	broad.mit.edu	37	chr5	19520841	19520841	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggtggattgtcattgacatcCagaactctaatacccactgt	8	10	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:19520841C>A	uc003jgc.2	-	9	1814	c.1437G>T	c.(1435-1437)CTG>CTT	p.L479L	CDH18_uc003jgd.2_Silent_p.L479L|CDH18_uc011cnm.1_Silent_p.L479L	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	479	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CATTGACATCCAGAACTCTAA	0.403													39	109	---	---	---	---	PASS	A	19520841	A	A	19520841	2	1	27	1	0	0	0	0	0	0	0	1	3103	581	21	3		3	CDH18	5	19520841	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	14031482	19520841	161394419	118	11649										
CDH12	1010	broad.mit.edu	37	chr5	21752000	21752000	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gggactctgccacggacccaCtcccttcgtaggcatatgtg	11	14	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:21752000C>T	uc010iuc.2	-	12	2689	c.2231G>A	c.(2230-2232)AGT>AAT	p.S744N	CDH12_uc011cno.1_Missense_Mutation_p.S704N|CDH12_uc003jgk.2_Missense_Mutation_p.S744N|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	744	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CACGGACCCACTCCCTTCGTA	0.507										HNSCC(59;0.17)			42	51	---	---	---	---	PASS	T	21752000	T	T	21752000	3	4	27	1	0	0	0	0	1	0	0	0	3098	565	20	3	157	3	CDH12	5	21752000	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2231159	21752000	159163260	119	11650										
NPR3	4883	broad.mit.edu	37	chr5	32780908	32780908	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttgccatgactgatgtggagGcgggcacccaggaggtgagc	17	9	0	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:32780908G>T	uc003jhv.2	+	5	1494	c.1276G>T	c.(1276-1278)GCG>TCG	p.A426S	NPR3_uc010iuo.2_Missense_Mutation_p.A210S|NPR3_uc011cnz.1_Missense_Mutation_p.A210S|NPR3_uc003jhu.2_Missense_Mutation_p.A426S	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	426	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	TGATGTGGAGGCGGGCACCCA	0.567													65	87	---	---	---	---	PASS	T	32780908	T	T	32780908	3	4	27	1	0	0	0	0	1	0	0	0	10596	1203	42	3	1294	3	NPR3	5	32780908	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	11028908	32780908	148134352	120	11651										
ADAMTS12	81792	broad.mit.edu	37	chr5	33576326	33576326	+	Missense_Mutation	SNP	G	T	T													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	catgttgtttggaagtttcaGgtggttacggtttgccgtct							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:33576326G>T	uc003jia.1	-	19	3968	c.3805C>A	c.(3805-3807)CTG>ATG	p.L1269M	ADAMTS12_uc010iuq.1_Missense_Mutation_p.L1184M	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1269	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GGAAGTTTCAGGTGGTTACGG	0.488										HNSCC(64;0.19)			54	198	---	---	---	---	PASS	T	33576326	T	T	33576326	3	4	27	1	0	0	0	0	1	0	0	0	257	991	35	3	1003	3	ADAMTS12	5	33576326	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	795418	33576326	147338934	121	11652	319	2								
ADAMTS12	81792	broad.mit.edu	37	chr5	33576327	33576327	+	Missense_Mutation	SNP	G	T	T													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atgttgtttggaagtttcagGtggttacggtttgccgtctt							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:33576327G>T	uc003jia.1	-	19	3967	c.3804C>A	c.(3802-3804)CAC>CAA	p.H1268Q	ADAMTS12_uc010iuq.1_Missense_Mutation_p.H1183Q	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1268	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GAAGTTTCAGGTGGTTACGGT	0.488										HNSCC(64;0.19)			56	195	---	---	---	---	PASS	T	33576327	T	T	33576327	3	4	27	1	0	0	0	0	1	0	0	0	257	1252	44	3	1004	3	ADAMTS12	5	33576327	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1	33576327	147338933	122	11653	319	2								
RAI14	26064	broad.mit.edu	37	chr5	34814735	34814735	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ataacttcgactccactatcGggaaaggaatcggtattttt	8	8	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:34814735G>T	uc003jir.2	+	12	1096	c.900G>T	c.(898-900)TCG>TCT	p.S300S	RAI14_uc010iur.2_Silent_p.S271S|RAI14_uc011coj.1_Silent_p.S300S|RAI14_uc010ius.1_Silent_p.S229S|RAI14_uc003jis.2_Silent_p.S303S|RAI14_uc003jit.2_Silent_p.S300S|RAI14_uc011cok.1_Silent_p.S292S	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	300						cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					CTCCACTATCGGGAAAGGAAT	0.333													27	69	---	---	---	---	PASS	T	34814735	T	T	34814735	2	4	27	1	0	0	0	0	0	0	0	1	13008	1103	39	1		1	RAI14	5	34814735	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	1238408	34814735	146100525	123	11654										
GHR	2690	broad.mit.edu	37	chr5	42718921	42718921	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aaaataactcaccttatcatGatgcttgccctgctactcag	5	12	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:42718921G>A	uc003jmt.2	+	10	1355	c.1312G>A	c.(1312-1314)GAT>AAT	p.D438N	GHR_uc011cpq.1_Missense_Mutation_p.D251N	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	438	Cytoplasmic (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	ACCTTATCATGATGCTTGCCC	0.473													11	30	---	---	---	---	PASS	A	42718921	A	A	42718921	3	1	27	1	0	0	0	0	1	0	0	0	6371	1290	45	2	1346	2	GHR	5	42718921	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	7904186	42718921	138196339	124	11655										
HCN1	348980	broad.mit.edu	37	chr5	45267203	45267203	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tagagtacctattcgatctaGtcggtcaatggcaactgtct	9	9	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:45267203G>T	uc003jok.2	-	7	1796	c.1771C>A	c.(1771-1773)CTA>ATA	p.L591I		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	591	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						ATTCGATCTAGTCGGTCAATG	0.383													24	52	---	---	---	---	PASS	T	45267203	T	T	45267203	3	4	27	1	0	0	0	0	1	0	0	0	6996	1020	36	3	909	3	HCN1	5	45267203	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2548282	45267203	135648057	125	11656										
PARP8	79668	broad.mit.edu	37	chr5	50125732	50125732	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcttcccatcttagctccatGgtgcaatgtatggaagtgga	10	9	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:50125732G>T	uc003jon.3	+	23	2352	c.2170G>T	c.(2170-2172)GGT>TGT	p.G724C	PARP8_uc011cpz.1_Missense_Mutation_p.G616C|PARP8_uc003joo.2_Missense_Mutation_p.G724C|PARP8_uc003jop.2_Missense_Mutation_p.G682C	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	724	PARP catalytic.					intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				TTAGCTCCATGGTGCAATGTA	0.363													32	25	---	---	---	---	PASS	T	50125732	T	T	50125732	3	4	27	1	0	0	0	0	1	0	0	0	11465	1348	47	3	2256	3	PARP8	5	50125732	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	4858529	50125732	130789528	126	11657										
MAST4	375449	broad.mit.edu	37	chr5	66461843	66461843	+	Missense_Mutation	SNP	G	A	A													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgtcccactgcacactgacaGggctcctctagacgccaagc							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:66461843G>A	uc003jut.1	+	28	6337	c.6269G>A	c.(6268-6270)AGG>AAG	p.R2090K	MAST4_uc003juw.2_Missense_Mutation_p.R2018K|MAST4_uc003jux.2_Intron	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	2282						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)		CACACTGACAGGGCTCCTCTA	0.647											OREG0016638	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	7	---	---	---	---	PASS	A	66461843	A	A	66461843	3	1	27	1	0	0	0	0	1	0	0	0	9327	1000	35	3	7080	3	MAST4	5	66461843	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	16336111	66461843	114453417	127	11658	320	2								
MAST4	375449	broad.mit.edu	37	chr5	66461844	66461844	+	Missense_Mutation	SNP	G	T	T													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtcccactgcacactgacagGgctcctctagacgccaagcc							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:66461844G>T	uc003jut.1	+	28	6338	c.6270G>T	c.(6268-6270)AGG>AGT	p.R2090S	MAST4_uc003juw.2_Missense_Mutation_p.R2018S|MAST4_uc003jux.2_Intron	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	2282						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)		ACACTGACAGGGCTCCTCTAG	0.642											OREG0016638	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	7	---	---	---	---	PASS	T	66461844	T	T	66461844	3	4	27	1	0	0	0	0	1	0	0	0	9327	1223	43	3	7081	3	MAST4	5	66461844	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1	66461844	114453416	128	11659	320	2								
CHD1	1105	broad.mit.edu	37	chr5	98235274	98235274	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgagggtttcttctgtctccCaagtgttgtggatatgggac	13	7	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:98235274C>G	uc003knf.2	-	7	1143	c.995G>C	c.(994-996)TGG>TCG	p.W332S		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	332	Chromo 1.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	TTCTGTCTCCCAAGTGTTGTG	0.368													57	65	---	---	---	---	PASS	G	98235274	G	G	98235274	3	3	27	1	0	0	0	0	1	0	0	0	3323	595	21	4	4253	4	CHD1	5	98235274	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	31773430	98235274	82679986	129	11660										
PCDHB8	56128	broad.mit.edu	37	chr5	140558688	140558688	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgcatttaccagcccaatacCtgagaatgcgcctgaaactg	8	12	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:140558688C>T	uc011dai.1	+	1	1259	c.1073C>T	c.(1072-1074)CCT>CTT	p.P358L	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	358	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCCCAATACCTGAGAATGCG	0.458													49	827	---	---	---	---	PASS	T	140558688	T	T	140558688	3	4	27	1	0	0	0	0	1	0	0	0	11548	681	24	3	1075	3	PCDHB8	5	140558688	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	42323414	140558688	40356572	130	11661										
PCDHB16	57717	broad.mit.edu	37	chr5	140564015	140564015	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aatggcgaggtgcgcaccgcCaggctgctgagcgagcgcga	17	12	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:140564015C>A	uc003liv.2	+	1	3036	c.1881C>A	c.(1879-1881)GCC>GCA	p.A627A	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	627	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGCGCACCGCCAGGCTGCTGA	0.697													41	58	---	---	---	---	PASS	A	140564015	A	A	140564015	2	1	27	1	0	0	0	0	0	0	0	1	11541	581	21	3		3	PCDHB16	5	140564015	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	5327	140564015	40351245	131	11662										
PCDHB10	56126	broad.mit.edu	37	chr5	140572824	140572824	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	actgtacgcatcgttgtcttGgacgtcaatgacaatgcccc	9	12	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:140572824G>T	uc003lix.2	+	1	873	c.699G>T	c.(697-699)TTG>TTT	p.L233F		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	233	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGTTGTCTTGGACGTCAATG	0.552													33	29	---	---	---	---	PASS	T	140572824	T	T	140572824	3	4	27	1	0	0	0	0	1	0	0	0	11535	1339	47	3	701	3	PCDHB10	5	140572824	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	8809	140572824	40342436	132	11663										
PCDHGA1	56114	broad.mit.edu	37	chr5	140712227	140712227	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cccgctctccgccactgtcaCgctcaccgtggccgtggccg	11	20	3	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:140712227C>T	uc003lji.1	+	1	1976	c.1976C>T	c.(1975-1977)ACG>ATG	p.T659M	PCDHGA1_uc011dan.1_Missense_Mutation_p.T659M	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	659	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCACTGTCACGCTCACCGTG	0.687													37	15	---	---	---	---	PASS	T	140712227	T	T	140712227	3	4	27	1	0	0	0	0	1	0	0	0	11550	536	19	1	1978	1	PCDHGA1	5	140712227	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	139403	140712227	40203033	133	11664										
NIPAL4	348938	broad.mit.edu	37	chr5	156890327	156890327	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cttgcgactcgtggccacggGagccactcgagctggtaggt	15	12	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:156890327G>C	uc003lwx.3	+	2	565	c.449G>C	c.(448-450)GGA>GCA	p.G150A	ADAM19_uc003lww.1_Intron|NIPAL4_uc011ddq.1_Missense_Mutation_p.G150A|NIPAL4_uc010jin.1_Missense_Mutation_p.E85Q	NM_001099287	NP_001092757	Q0D2K0	NIPA4_HUMAN	ichthyin protein	150	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						GTGGCCACGGGAGCCACTCGA	0.612													8	5	---	---	---	---	PASS	C	156890327	C	C	156890327	3	2	27	1	0	0	0	0	1	0	0	0	10427	1174	41	2	455	2	NIPAL4	5	156890327	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	16178100	156890327	24024933	134	11665										
SLIT3	6586	broad.mit.edu	37	chr5	168175347	168175347	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	catgcctctggggagggcgcGgagccccttgttgctgcatc	15	13	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:168175347G>T	uc003mab.2	-	20	2650	c.2230C>A	c.(2230-2232)CGC>AGC	p.R744S	SLIT3_uc010jjg.2_Missense_Mutation_p.R744S	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	744	LRRNT 4.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGGAGGGCGCGGAGCCCCTTG	0.632													24	21	---	---	---	---	PASS	T	168175347	T	T	168175347	3	4	27	1	0	0	0	0	1	0	0	0	14741	1116	39	1	2409	1	SLIT3	5	168175347	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	11285020	168175347	12739913	135	11666										
NOP16	51491	broad.mit.edu	37	chr5	175815445	175815445	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ccccctcaccattcgatccgCggcgctgccttccgtcgagc	9	20	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:175815445C>T	uc011dfl.1	-	1	96	c.96G>A	c.(94-96)CCG>CCA	p.P32P	NOP16_uc003med.2_Silent_p.P32P|NOP16_uc003mee.2_Silent_p.P32P|NOP16_uc011dfm.1_Silent_p.P32P|HIGD2A_uc003meg.2_5'Flank	NM_016391	NP_057475	Q9Y3C1	NOP16_HUMAN	NOP16 nucleolar protein homolog	32				PR -> RG (in Ref. 2; AAD34112 and 3; AAF29075).		nucleolus				ovary(1)|central_nervous_system(1)	2						ATTCGATCCGCGGCGCTGCCT	0.647													46	26	---	---	---	---	PASS	T	175815445	T	T	175815445	2	4	27	1	0	0	0	0	0	0	0	1	10537	755	27	1		1	NOP16	5	175815445	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	7640098	175815445	5099815	136	11667										
DOK3	79930	broad.mit.edu	37	chr5	176936823	176936823	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctggttcagctgggcacgcgCgtctgatcgcagtctggctc	14	13	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr5:176936823C>A	uc003mhk.2	-	1	36	c.31G>T	c.(31-33)GCG>TCG	p.A11S	DOK3_uc003mhh.3_5'Flank|DOK3_uc003mhi.3_Intron|DOK3_uc003mhj.3_Intron|DOK3_uc003mhl.2_Intron	NM_024872	NP_079148	Q7L591	DOK3_HUMAN	docking protein 3 isoform 1	11						cytoplasm|plasma membrane	insulin receptor binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	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)|Epithelial(233;0.191)			TGGGCACGCGCGTCTGATCGC	0.711													6	7	---	---	---	---	PASS	A	176936823	A	A	176936823	3	1	27	1	0	0	0	0	1	0	0	0	4698	768	27	1	1835	1	DOK3	5	176936823	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	1121378	176936823	3978437	137	11668										
NRSN1	140767	broad.mit.edu	37	chr6	24146060	24146060	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cagaagtttaaagaacgaatCgcagacatcaaagcccacac	7	11	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:24146060C>T	uc010jpq.1	+	4	711	c.474C>T	c.(472-474)ATC>ATT	p.I158I		NM_080723	NP_542454	Q8IZ57	NRSN1_HUMAN	neurensin 1	158					nervous system development	growth cone|integral to membrane|neuronal cell body|transport vesicle					0						AAGAACGAATCGCAGACATCA	0.498													12	36	---	---	---	---	PASS	T	24146060	T	T	24146060	2	4	27	1	0	0	0	0	0	0	0	1	10662	874	31	2		2	NRSN1	6	24146060	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08		24146060	146969007	138	11669										
OR2B6	26212	broad.mit.edu	37	chr6	27925264	27925264	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgtacagtcccacaaatgctAgtaaatttatgcagcatcag	7	9	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:27925264A>T	uc011dkx.1	+	1	246	c.246A>T	c.(244-246)CTA>CTT	p.L82L		NM_012367	NP_036499	P58173	OR2B6_HUMAN	olfactory receptor, family 2, subfamily B,	82	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CACAAATGCTAGTAAATTTAT	0.433													19	66	---	---	---	---	PASS	T	27925264	T	T	27925264	2	4	27	1	0	0	0	0	0	0	0	1	10991	407	15	5		5	OR2B6	6	27925264	Silent	SNP	A	TCGA-21-5786-01A-01D-1632-08	3779204	27925264	143189803	139	11670										
OR14J1	442191	broad.mit.edu	37	chr6	29275313	29275313	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atactgtgatacctccaacaCtcaatccagtcatttatagc	4	12	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:29275313C>T	uc011dln.1	+	1	847	c.847C>T	c.(847-849)CTC>TTC	p.L283F		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACCTCCAACACTCAATCCAGT	0.418													4	95	---	---	---	---	PASS	T	29275313	T	T	29275313	3	4	27	1	0	0	0	0	1	0	0	0	10948	565	20	3	849	3	OR14J1	6	29275313	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	1350049	29275313	141839754	140	11671										
DHX16	8449	broad.mit.edu	37	chr6	30633402	30633402	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtgccggctcagctccacgtCcccaaaaaggaactcctcat	8	16	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:30633402C>G	uc003nqz.2	-	5	987	c.775G>C	c.(775-777)GAC>CAC	p.D259H	DHX16_uc011dmo.1_Missense_Mutation_p.D199H	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	259					mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4						AGCTCCACGTCCCCAAAAAGG	0.627													29	36	---	---	---	---	PASS	G	30633402	G	G	30633402	3	3	27	1	0	0	0	0	1	0	0	0	4502	855	30	2	2414	2	DHX16	6	30633402	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	1358089	30633402	140481665	141	11672										
VARS2	57176	broad.mit.edu	37	chr6	30892295	30892295	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aggcctggttgcccccctgcCcccagcatctcggttgcccc	10	20	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:30892295C>A	uc003nsc.1	+	25	3263	c.2631C>A	c.(2629-2631)GCC>GCA	p.A877A	VARS2_uc011dmx.1_Silent_p.A877A|VARS2_uc011dmy.1_Silent_p.A737A|VARS2_uc011dmz.1_Silent_p.A907A|VARS2_uc011dna.1_Silent_p.A875A|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_Silent_p.A315A|VARS2_uc010jsg.1_Silent_p.A249A|VARS2_uc010jsh.1_Silent_p.A21A	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	877					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						GCCCCCCTGCCCCCAGCATCT	0.682													4	23	---	---	---	---	PASS	A	30892295	A	A	30892295	2	1	27	1	0	0	0	0	0	0	0	1	17121	610	22	3		3	VARS2	6	30892295	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	258893	30892295	140222772	142	11673										
PNPLA1	285848	broad.mit.edu	37	chr6	36260856	36260856	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aggccctatactgcagctgcTtcgtcccggtgtactgtggc	12	13	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:36260856T>A	uc010jwf.2	+	3	457	c.457T>A	c.(457-459)TTC>ATC	p.F153I	PNPLA1_uc003olw.1_Missense_Mutation_p.F58I|PNPLA1_uc010jwe.1_Missense_Mutation_p.F58I	NM_001145717	NP_001139189	Q8N8W4	PLPL1_HUMAN	patatin-like phospholipase domain containing 1	153	Patatin.				lipid catabolic process		hydrolase activity			large_intestine(1)|pancreas(1)|breast(1)|skin(1)	4						CTGCAGCTGCTTCGTCCCGGT	0.662													24	32	---	---	---	---	PASS	A	36260856	A	A	36260856	3	1	27	1	0	0	0	0	1	0	0	0	12164	1609	56	5	467	5	PNPLA1	6	36260856	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	5368561	36260856	134854211	143	11674										
DNAH8	1769	broad.mit.edu	37	chr6	38840381	38840381	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtggttctggaaagacaaccGttatcacgattctaatgaag	10	7	3	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:38840381G>T	uc003ooe.1	+	48	7009	c.6409G>T	c.(6409-6411)GTT>TTT	p.V2137F		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AAAGACAACCGTTATCACGAT	0.428													22	60	---	---	---	---	PASS	T	38840381	T	T	38840381	3	4	27	1	0	0	0	0	1	0	0	0	4607	1145	40	1	6591	1	DNAH8	6	38840381	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2579525	38840381	132274686	144	11675										
GUCA1A	2978	broad.mit.edu	37	chr6	42141454	42141454	+	Missense_Mutation	SNP	A	C	C													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agtgcccctctggccaactcAccctctatgagttccgccag							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:42141454A>C	uc003orx.2	+	3	748	c.103A>C	c.(103-105)ACC>CCC	p.T35P	GUCA1A_uc011duo.1_RNA|GUCA1A_uc010jxt.2_Missense_Mutation_p.T35P	NM_000409	NP_000400	P43080	GUC1A_HUMAN	guanylate cyclase activator 1A (retina)	35	EF-hand 1.				signal transduction|visual perception	membrane	calcium ion binding|calcium sensitive guanylate cyclase activator activity				0	Colorectal(47;0.196)		STAD - Stomach adenocarcinoma(11;5.54e-05)|Epithelial(12;0.000167)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TGGCCAACTCACCCTCTATGA	0.552													33	35	---	---	---	---	PASS	C	42141454	C	C	42141454	3	2	27	1	0	0	0	0	1	0	0	0	6888	159	6	5	105	5	GUCA1A	6	42141454	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	3301073	42141454	128973613	145	11676	321	2								
GUCA1A	2978	broad.mit.edu	37	chr6	42141463	42141463	+	Nonsense_Mutation	SNP	G	T	T													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctggccaactcaccctctatGagttccgccagttcttcggc							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:42141463G>T	uc003orx.2	+	3	757	c.112G>T	c.(112-114)GAG>TAG	p.E38*	GUCA1A_uc011duo.1_RNA|GUCA1A_uc010jxt.2_Nonsense_Mutation_p.E38*	NM_000409	NP_000400	P43080	GUC1A_HUMAN	guanylate cyclase activator 1A (retina)	38	EF-hand 1.				signal transduction|visual perception	membrane	calcium ion binding|calcium sensitive guanylate cyclase activator activity				0	Colorectal(47;0.196)		STAD - Stomach adenocarcinoma(11;5.54e-05)|Epithelial(12;0.000167)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CACCCTCTATGAGTTCCGCCA	0.557													36	43	---	---	---	---	PASS	T	42141463	T	T	42141463	4	4	27	1	0	0	0	0	0	1	0	0	6888	1291	45	2	114	2	GUCA1A	6	42141463	Nonsense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	9	42141463	128973604	146	11677	321	2								
AARS2	57505	broad.mit.edu	37	chr6	44271932	44271932	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gctcacctgggtggtcacatCcaagcgcagctgctcaggat	12	13	3	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:44271932C>A	uc010jza.1	-	14	1996	c.1993G>T	c.(1993-1995)GAT>TAT	p.D665Y	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	665					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	GTGGTCACATCCAAGCGCAGC	0.592											OREG0017473	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	21	---	---	---	---	PASS	A	44271932	A	A	44271932	3	1	27	1	0	0	0	0	1	0	0	0	20	855	30	2	1000	2	AARS2	6	44271932	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2130469	44271932	126843135	147	11678										
TDRD6	221400	broad.mit.edu	37	chr6	46658453	46658453	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cagagaaatggtatctgtgaAgaatatttattcaattagtg	9	3	2	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:46658453A>G	uc003oyj.2	+	1	2588	c.2588A>G	c.(2587-2589)AAG>AGG	p.K863R	TDRD6_uc010jze.2_Missense_Mutation_p.K857R	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	863	Tudor 4.				cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			GTATCTGTGAAGAATATTTAT	0.373													27	51	---	---	---	---	PASS	G	46658453	G	G	46658453	3	3	27	1	0	0	0	0	1	0	0	0	15731	72	3	5	2590	5	TDRD6	6	46658453	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	2386521	46658453	124456614	148	11679										
CRISP2	7180	broad.mit.edu	37	chr6	49660607	49660607	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggagatcttgatactggcaaCtattggctgtaacaaaaaca	9	7	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:49660607C>A	uc003ozq.2	-	10	867	c.611G>T	c.(610-612)AGT>ATT	p.S204I	CRISP2_uc003ozl.2_Missense_Mutation_p.S204I|CRISP2_uc003ozn.2_Missense_Mutation_p.S204I|CRISP2_uc003ozr.2_Missense_Mutation_p.S204I|CRISP2_uc003ozo.2_Missense_Mutation_p.S204I|CRISP2_uc003ozm.2_Missense_Mutation_p.S239I|CRISP2_uc003ozp.2_Missense_Mutation_p.S204I	NM_001142408	NP_001135880	P16562	CRIS2_HUMAN	cysteine-rich secretory protein 2 precursor	204						extracellular space				skin(1)	1	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			ATACTGGCAACTATTGGCTGT	0.413													19	28	---	---	---	---	PASS	A	49660607	A	A	49660607	3	1	27	1	0	0	0	0	1	0	0	0	3880	565	20	3	124	3	CRISP2	6	49660607	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	3002154	49660607	121454460	149	11680										
KLHL31	401265	broad.mit.edu	37	chr6	53517037	53517037	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gttgcggccgcccgcggcgtAcacgagcccgttgaacacgc	14	16	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:53517037A>T	uc003pcb.3	-	3	1405	c.1264T>A	c.(1264-1266)TAC>AAC	p.Y422N	uc003pcc.1_Silent_p.V143V	NM_001003760	NP_001003760	Q9H511	KLH31_HUMAN	kelch repeat and BTB (POZ) domain containing 1	422	Kelch 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent					ovary(1)	1	Lung NSC(77;0.0158)					CCCGCGGCGTACACGAGCCCG	0.632													29	40	---	---	---	---	PASS	T	53517037	T	T	53517037	3	4	27	1	0	0	0	0	1	0	0	0	8385	391	14	5	644	5	KLHL31	6	53517037	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	3856430	53517037	117598030	150	11681										
TINAG	27283	broad.mit.edu	37	chr6	54214629	54214629	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggcatgccacgaagccatgtCccaacaacgtagaaaaatct	8	12	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:54214629C>G	uc003pcj.2	+	7	1161	c.1015C>G	c.(1015-1017)CCC>GCC	p.P339A	TINAG_uc010jzt.2_RNA	NM_014464	NP_055279	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	339					cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			GAAGCCATGTCCCAACAACGT	0.443													32	26	---	---	---	---	PASS	G	54214629	G	G	54214629	3	3	27	1	0	0	0	0	1	0	0	0	15918	855	30	2	1041	2	TINAG	6	54214629	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	697592	54214629	116900438	151	11682										
BAI3	577	broad.mit.edu	37	chr6	69949024	69949024	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctctctggctaggtacatacGctctgagagatccataatac	8	11	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:69949024G>C	uc003pev.3	+	20	3168	c.2720G>C	c.(2719-2721)CGC>CCC	p.R907P	BAI3_uc010kak.2_Missense_Mutation_p.R907P|BAI3_uc011dxx.1_Missense_Mutation_p.R113P|BAI3_uc003pex.1_Missense_Mutation_p.R37P	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	907	Cytoplasmic (Potential).				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)				AGGTACATACGCTCTGAGAGA	0.368													55	60	---	---	---	---	PASS	C	69949024	C	C	69949024	3	2	27	1	0	0	0	0	1	0	0	0	1300	1087	38	4	2790	4	BAI3	6	69949024	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	15734395	69949024	101166043	152	11683										
SEC63	11231	broad.mit.edu	37	chr6	108227913	108227913	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tattagaatattatccgttgGtctgcttgtggcatctttat	8	6	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:108227913G>C	uc003psc.3	-	9	1071	c.802C>G	c.(802-804)CCA>GCA	p.P268A	SEC63_uc003psb.3_Missense_Mutation_p.P128A	NM_007214	NP_009145	Q9UGP8	SEC63_HUMAN	SEC63-like protein	268	SEC63 1.|Cytoplasmic (Potential).				protein folding|protein targeting to membrane	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|receptor activity|unfolded protein binding			ovary(1)|skin(1)	2		all_cancers(87;5.35e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0294)		BRCA - Breast invasive adenocarcinoma(108;0.0079)|Epithelial(106;0.0356)|all cancers(137;0.0525)|OV - Ovarian serous cystadenocarcinoma(136;0.054)		TTATCCGTTGGTCTGCTTGTG	0.343													39	31	---	---	---	---	PASS	C	108227913	C	C	108227913	3	2	27	1	0	0	0	0	1	0	0	0	14005	1261	44	4	1532	4	SEC63	6	108227913	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	38278889	108227913	62887154	153	11684										
REV3L	5980	broad.mit.edu	37	chr6	111694287	111694287	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	acacagaaagaatccattatTgagttagaccgagttgttag	9	6	0	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:111694287T>A	uc003puy.3	-	13	5594	c.5271A>T	c.(5269-5271)TCA>TCT	p.S1757S	REV3L_uc003pux.3_Silent_p.S1679S|REV3L_uc003puz.3_Silent_p.S1679S	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1757					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		AATCCATTATTGAGTTAGACC	0.393								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					6	107	---	---	---	---	PASS	A	111694287	A	A	111694287	2	1	27	1	0	0	0	0	0	0	0	1	13240	1799	63	5		5	REV3L	6	111694287	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	3466374	111694287	59420780	154	11685										
PTPRK	5796	broad.mit.edu	37	chr6	128400010	128400010	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caacaatacagttattgtggTggcagtttcattgagagagg	12	5	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:128400010T>A	uc003qbk.2	-	11	2198	c.1831A>T	c.(1831-1833)ACC>TCC	p.T611S	PTPRK_uc003qbj.2_Missense_Mutation_p.T611S|PTPRK_uc010kfc.2_Missense_Mutation_p.T611S|PTPRK_uc011ebu.1_Missense_Mutation_p.T611S|PTPRK_uc003qbl.1_Missense_Mutation_p.T481S|PTPRK_uc011ebv.1_Missense_Mutation_p.T611S	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	611	Extracellular (Potential).|Fibronectin type-III 4.				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		GTTATTGTGGTGGCAGTTTCA	0.328													7	40	---	---	---	---	PASS	A	128400010	A	A	128400010	3	1	27	1	0	0	0	0	1	0	0	0	12805	1696	59	5	2593	5	PTPRK	6	128400010	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	16705723	128400010	42715057	155	11686										
ARHGAP18	93663	broad.mit.edu	37	chr6	129932709	129932709	+	Nonsense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tggcagctccagggatccgtAagaggccttctgtttccaaa	11	11	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:129932709A>C	uc003qbr.2	-	8	1180	c.1091T>G	c.(1090-1092)TTA>TGA	p.L364*	ARHGAP18_uc011ebw.1_Nonsense_Mutation_p.L364*	NM_033515	NP_277050	Q8N392	RHG18_HUMAN	Rho GTPase activating protein 18	364	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			ovary(2)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(136;0.0621)|GBM - Glioblastoma multiforme(226;0.0638)|all cancers(137;0.074)		AGGGATCCGTAAGAGGCCTTC	0.358													4	18	---	---	---	---	PASS	C	129932709	C	C	129932709	4	2	27	1	0	0	0	0	0	1	0	0	868	372	13	5	932	5	ARHGAP18	6	129932709	Nonsense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	1532699	129932709	41182358	156	11687										
ENPP3	5169	broad.mit.edu	37	chr6	132014758	132014758	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgtggatcaacagtggctggCtgttaggttcgtgtatctgt	14	6	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:132014758C>T	uc003qcu.3	+	16	1753	c.1406C>T	c.(1405-1407)GCT>GTT	p.A469V	ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Missense_Mutation_p.A469V	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	469	Extracellular (Potential).|Phosphodiesterase.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		CAGTGGCTGGCTGTTAGGTTC	0.398													33	32	---	---	---	---	PASS	T	132014758	T	T	132014758	3	4	27	1	0	0	0	0	1	0	0	0	5131	797	28	3	1464	3	ENPP3	6	132014758	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2082049	132014758	39100309	157	11688										
TXLNB	167838	broad.mit.edu	37	chr6	139610030	139610030	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gagctgttcagagtgattagCctccatcttgggagtagtat	12	7	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:139610030C>A	uc011eds.1	-	2	172	c.7G>T	c.(7-9)GCT>TCT	p.A3S		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	3						cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		GAGTGATTAGCCTCCATCTTG	0.453													17	10	---	---	---	---	PASS	A	139610030	A	A	139610030	3	1	27	1	0	0	0	0	1	0	0	0	16785	739	26	3	2083	3	TXLNB	6	139610030	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	7595272	139610030	31505037	158	11689										
SHPRH	257218	broad.mit.edu	37	chr6	146248399	146248399	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttctctgtacaattctgctgCcaaggcatactcacctaaag	6	12	3	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:146248399C>T	uc003qlf.2	-	15	3526	c.3127G>A	c.(3127-3129)GCA>ACA	p.A1043T	SHPRH_uc003qld.2_Missense_Mutation_p.A1052T|SHPRH_uc003qle.2_Missense_Mutation_p.A1052T|SHPRH_uc003qlg.1_Missense_Mutation_p.A599T|SHPRH_uc003qlh.2_5'UTR|SHPRH_uc003qli.1_5'UTR	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	1043					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		AATTCTGCTGCCAAGGCATAC	0.353													17	10	---	---	---	---	PASS	T	146248399	T	T	146248399	3	4	27	1	0	0	0	0	1	0	0	0	14291	739	26	3	2005	3	SHPRH	6	146248399	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	6638369	146248399	24866668	159	11690										
SYNE1	23345	broad.mit.edu	37	chr6	152720802	152720802	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gctggcctgggttttggagcAcaactggctcacggcttcat	13	11	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:152720802A>G	uc010kiw.2	-	48	7788	c.7186T>C	c.(7186-7188)TGC>CGC	p.C2396R	SYNE1_uc003qot.3_Missense_Mutation_p.C2403R|SYNE1_uc003qou.3_Missense_Mutation_p.C2396R|SYNE1_uc010kjb.1_Missense_Mutation_p.C2379R	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2396	Spectrin 3.|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)		GTTTTGGAGCACAACTGGCTC	0.502										HNSCC(10;0.0054)			11	128	---	---	---	---	PASS	G	152720802	G	G	152720802	3	3	27	1	0	0	0	0	1	0	0	0	15442	159	6	5	19676	5	SYNE1	6	152720802	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	6472403	152720802	18394265	160	11691										
SYNE1	23345	broad.mit.edu	37	chr6	152720890	152720890	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gctgagtggtacttgcggcaCaagctattgagattttcttg	12	7	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:152720890C>A	uc010kiw.2	-	48	7700	c.7098G>T	c.(7096-7098)TTG>TTT	p.L2366F	SYNE1_uc003qot.3_Missense_Mutation_p.L2373F|SYNE1_uc003qou.3_Missense_Mutation_p.L2366F|SYNE1_uc010kjb.1_Missense_Mutation_p.L2349F	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2366	Spectrin 3.|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)		ACTTGCGGCACAAGCTATTGA	0.423										HNSCC(10;0.0054)			52	47	---	---	---	---	PASS	A	152720890	A	A	152720890	3	1	27	1	0	0	0	0	1	0	0	0	15442	477	17	3	19764	3	SYNE1	6	152720890	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	88	152720890	18394177	161	11692										
LPA	4018	broad.mit.edu	37	chr6	160978499	160978499	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cacctgattctgtttctgagCattgtgtcagattgcagtac	9	9	3	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr6:160978499C>T	uc003qtl.2	-	30	4856	c.4736G>A	c.(4735-4737)TGC>TAC	p.C1579Y		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4087	Kringle 36.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	TGTTTCTGAGCATTGTGTCAG	0.493													7	53	---	---	---	---	PASS	T	160978499	T	T	160978499	3	4	27	1	0	0	0	0	1	0	0	0	8903	710	25	3	1430	3	LPA	6	160978499	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	8257609	160978499	10136568	162	11693										
CYP2W1	54905	broad.mit.edu	37	chr7	1026301	1026301	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctcggggccctgctccagctGcaccggcccgtcctgcgcaa	12	19	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:1026301G>A	uc003sjq.1	+	5	700	c.687G>A	c.(685-687)CTG>CTA	p.L229L	CYP2W1_uc003sjr.1_Silent_p.L229L	NM_017781	NP_060251	Q8TAV3	CP2W1_HUMAN	cytochrome P450, family 2, subfamily W,	229					xenobiotic metabolic process	endoplasmic reticulum membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		TGCTCCAGCTGCACCGGCCCG	0.701													21	9	---	---	---	---	PASS	A	1026301	A	A	1026301	2	1	27	1	0	0	0	0	0	0	0	1	4176	1306	46	3		3	CYP2W1	7	1026301	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08		1026301	158112362	163	11694										
HOXA5	3202	broad.mit.edu	37	chr7	27182915	27182915	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ccgggcgagggggccacggcGgagcagggcagcggatcggg	23	11	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:27182915G>A	uc003syn.1	-	1	373	c.312C>T	c.(310-312)TCC>TCT	p.S104S		NM_019102	NP_061975	P20719	HXA5_HUMAN	homeobox A5	104					negative regulation of angiogenesis|negative regulation of erythrocyte differentiation|positive regulation of apoptosis|positive regulation of myeloid cell differentiation|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGGCCACGGCGGAGCAGGGCA	0.736													6	7	---	---	---	---	PASS	A	27182915	A	A	27182915	2	1	27	1	0	0	0	0	0	0	0	1	7295	1103	39	1		1	HOXA5	7	27182915	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	26156614	27182915	131955748	164	11695										
HECW1	23072	broad.mit.edu	37	chr7	43483903	43483903	+	Frame_Shift_Del	DEL	G	-	-													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	acctgatggaaagcggcagtGgggaacctcggtctgaggca							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:43483903delG	uc003tid.1	+	11	1737	c.1132delG	c.(1132-1134)GGGfs	p.G378fs	HECW1_uc011kbi.1_Frame_Shift_Del_p.G378fs	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	378					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						AAGCGGCAGTGGGGAACCTCG	0.567													21	18	---	---	---	---		-	43483903	-	-	43483903	7	5	27	1	0	1	0	1	0	0	0	0	7042	1348	47	0	1166	0	HECW1	7	43483903	Frame_Shift_Del	DEL	G	TCGA-21-5786-01A-01D-1632-08	16300988	43483903	115654760	165	11696										
ZNF117	51351	broad.mit.edu	37	chr7	64438773	64438773	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tggaaaactttgccagattcTctacatttgtggggattctc	9	8	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:64438773T>A	uc003ttr.2	-	4	2461	c.1176A>T	c.(1174-1176)AGA>AGT	p.R392S		NM_015852	NP_056936	Q03924	ZN117_HUMAN	zinc finger protein 117	392	C2H2-type 11; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Lung NSC(55;0.0295)|all_lung(88;0.0691)				TGCCAGATTCTCTACATTTGT	0.393													5	134	---	---	---	---	PASS	A	64438773	A	A	64438773	3	1	27	1	0	0	0	0	1	0	0	0	17714	1548	54	5	279	5	ZNF117	7	64438773	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	20954870	64438773	94699890	166	11697										
SEMA3E	9723	broad.mit.edu	37	chr7	83034833	83034833	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggtaggtagcaaaaaaacgtCctctgaaaaattaaaggcca	9	7	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:83034833C>A	uc003uhy.1	-	9	1397	c.931G>T	c.(931-933)GAC>TAC	p.D311Y		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	311	Sema.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				AAAAAAACGTCCTCTGAAAAA	0.313													11	22	---	---	---	---	PASS	A	83034833	A	A	83034833	3	1	27	1	0	0	0	0	1	0	0	0	14028	855	30	2	1432	2	SEMA3E	7	83034833	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	18596060	83034833	76103830	167	11698										
ZNF498	221785	broad.mit.edu	37	chr7	99227148	99227148	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcttatggctgtgtggagtgTgggaagggctttaccctgag	16	6	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:99227148T>G	uc003url.1	+	8	1467	c.1140T>G	c.(1138-1140)TGT>TGG	p.C380W	ZNF498_uc003urm.1_Missense_Mutation_p.C216W|ZNF498_uc010lge.1_Missense_Mutation_p.C216W|ZNF498_uc003urn.2_Intron|ZNF498_uc010lgf.1_Missense_Mutation_p.C308W|ZNF498_uc003uro.1_Missense_Mutation_p.C164W	NM_145115	NP_660090	Q6NSZ9	ZN498_HUMAN	zinc finger and SCAN domain containing 25	380	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_epithelial(64;1.95e-08)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					GTGTGGAGTGTGGGAAGGGCT	0.552													28	27	---	---	---	---	PASS	G	99227148	G	G	99227148	3	3	27	1	0	0	0	0	1	0	0	0	17944	1702	59	5	1158	5	ZNF498	7	99227148	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	16192315	99227148	59911515	168	11699										
RELN	5649	broad.mit.edu	37	chr7	103417016	103417016	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	acgcttacctccttgttcacAcaactgctgggctaaagcat	7	13	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:103417016A>T	uc003vca.2	-	4	692	c.532T>A	c.(532-534)TGT>AGT	p.C178S	RELN_uc010liz.2_Missense_Mutation_p.C178S	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	178	Reelin.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCTTGTTCACACAACTGCTGG	0.393													43	49	---	---	---	---	PASS	T	103417016	T	T	103417016	3	4	27	1	0	0	0	0	1	0	0	0	13220	159	6	5	10098	5	RELN	7	103417016	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	4189868	103417016	55721647	169	11700										
CDHR3	222256	broad.mit.edu	37	chr7	105621509	105621509	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gatgaggttggtgtcacagaCctgcaagtcctgactgtcca	12	10	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:105621509C>A	uc003vdl.3	+	3	453	c.345C>A	c.(343-345)GAC>GAA	p.D115E	CDHR3_uc003vdk.2_5'UTR|CDHR3_uc011kls.1_RNA|CDHR3_uc003vdm.3_Missense_Mutation_p.D102E|CDHR3_uc011klt.1_Missense_Mutation_p.D27E	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	115	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						GTGTCACAGACCTGCAAGTCC	0.463													10	7	---	---	---	---	PASS	A	105621509	A	A	105621509	3	1	27	1	0	0	0	0	1	0	0	0	3120	506	18	3	355	3	CDHR3	7	105621509	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2204493	105621509	53517154	170	11701										
NAMPT	10135	broad.mit.edu	37	chr7	105893566	105893566	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cctttttggaccttttgttgGgatcagcaactgggtccttg	11	9	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:105893566G>C	uc003vdq.2	-	10	1570	c.1262C>G	c.(1261-1263)CCC>CGC	p.P421R		NM_005746	NP_005737	P43490	NAMPT_HUMAN	nicotinamide phosphoribosyltransferase	421					cell-cell signaling|NAD biosynthetic process|nicotinamide metabolic process|positive regulation of cell proliferation|positive regulation of nitric-oxide synthase biosynthetic process|signal transduction|water-soluble vitamin metabolic process	cytosol	cytokine activity|nicotinamide phosphoribosyltransferase activity|nicotinate phosphoribosyltransferase activity|nicotinate-nucleotide diphosphorylase (carboxylating) activity			large_intestine(1)	1						CCTTTTGTTGGGATCAGCAAC	0.403													14	65	---	---	---	---	PASS	C	105893566	C	C	105893566	3	2	27	1	0	0	0	0	1	0	0	0	10149	1232	43	4	221	4	NAMPT	7	105893566	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	272057	105893566	53245097	171	11702										
CBLL1	79872	broad.mit.edu	37	chr7	107398612	107398612	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agtgatcctgtgcagcgaatTgagcagtgtacacgaggttc	13	8	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:107398612T>G	uc003veq.2	+	6	795	c.465T>G	c.(463-465)ATT>ATG	p.I155M	CBLL1_uc011kme.1_Missense_Mutation_p.I34M|CBLL1_uc011kmf.1_Missense_Mutation_p.I154M	NM_024814	NP_079090	Q75N03	HAKAI_HUMAN	Cas-Br-M (murine) ecotropic retroviral	155					cell-cell adhesion|negative regulation of cell adhesion|positive regulation of cell migration|positive regulation of endocytosis		protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|skin(2)|lung(1)	5						TGCAGCGAATTGAGCAGTGTA	0.363													47	41	---	---	---	---	PASS	G	107398612	G	G	107398612	3	3	27	1	0	0	0	0	1	0	0	0	2703	1800	63	5	487	5	CBLL1	7	107398612	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	1505046	107398612	51740051	172	11703										
CTTNBP2	83992	broad.mit.edu	37	chr7	117450849	117450849	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctgctctcagcagcagccagCtgtgcggacatcctttcttg	10	14	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:117450849C>T	uc003vjf.2	-	3	476	c.384G>A	c.(382-384)CAG>CAA	p.Q128Q		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	128	Potential.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		CAGCAGCCAGCTGTGCGGACA	0.493													12	170	---	---	---	---	PASS	T	117450849	T	T	117450849	2	4	27	1	0	0	0	0	0	0	0	1	4045	796	28	3		3	CTTNBP2	7	117450849	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	10052237	117450849	41687814	173	11704										
RNF133	168433	broad.mit.edu	37	chr7	122338528	122338528	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aatcataaccacaacgacatCttcaaatgcctgatgaaaca	4	11	3	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:122338528C>T	uc003vkj.1	-	1	681	c.445G>A	c.(445-447)GAT>AAT	p.D149N	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron	NM_139175	NP_631914	Q8WVZ7	RN133_HUMAN	ring finger protein 133	149	PA.					endoplasmic reticulum membrane|integral to membrane	ligase activity|zinc ion binding			skin(1)	1						ACAACGACATCTTCAAATGCC	0.433													41	34	---	---	---	---	PASS	T	122338528	T	T	122338528	3	4	27	1	0	0	0	0	1	0	0	0	13439	913	32	2	689	2	RNF133	7	122338528	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	4887679	122338528	36800135	174	11705										
CASP2	835	broad.mit.edu	37	chr7	142989494	142989494	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgtgaagcactgagggagacCaagcaaggccacctggagga	15	9	0	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:142989494C>T	uc003wco.2	+	3	474	c.327C>T	c.(325-327)ACC>ACT	p.T109T	CASP2_uc003wcp.2_Intron|CASP2_uc011kta.1_Intron|CASP2_uc003wcq.2_RNA	NM_032982	NP_116764	P42575	CASP2_HUMAN	caspase 2 isoform 1 preproprotein	109	CARD.				apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|protein maturation by peptide bond cleavage	cytosol	cysteine-type endopeptidase activity|enzyme binding|protein binding|protein domain specific binding			lung(2)|ovary(1)	3	Melanoma(164;0.059)					TGAGGGAGACCAAGCAAGGCC	0.522													7	55	---	---	---	---	PASS	T	142989494	T	T	142989494	2	4	27	1	0	0	0	0	0	0	0	1	2671	581	21	3		3	CASP2	7	142989494	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	20650966	142989494	16149169	175	11706										
TAS2R60	338398	broad.mit.edu	37	chr7	143141054	143141054	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ccacagaatgtatcagaactAtttaaggaaccatctacaac	5	10	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:143141054A>G	uc011ktg.1	+	1	509	c.509A>G	c.(508-510)TAT>TGT	p.Y170C	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	170	Extracellular (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					TATCAGAACTATTTAAGGAAC	0.433													5	114	---	---	---	---	PASS	G	143141054	G	G	143141054	3	3	27	1	0	0	0	0	1	0	0	0	15582	449	16	5	511	5	TAS2R60	7	143141054	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	151560	143141054	15997609	176	11707										
MLL3	58508	broad.mit.edu	37	chr7	151860104	151860104	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcttccaacagggattgatgGtgaatcaggaacaaatgaag	12	6	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:151860104G>A	uc003wla.2	-	43	10777	c.10558C>T	c.(10558-10560)CCA>TCA	p.P3520S	MLL3_uc003wkz.2_Missense_Mutation_p.P2581S|MLL3_uc003wky.2_Missense_Mutation_p.P1029S	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3520					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGGATTGATGGTGAATCAGGA	0.463			N		medulloblastoma								6	89	---	---	---	---	PASS	A	151860104	A	A	151860104	3	1	27	1	0	0	0	0	1	0	0	0	9622	1261	44	3	4245	3	MLL3	7	151860104	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	8719050	151860104	7278559	177	11708										
CNPY1	285888	broad.mit.edu	37	chr7	155295777	155295777	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcactcctagagctcagtatGattagcagaagtttcacaca	8	10	2	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:155295777G>T	uc003wmc.1	-	4	410	c.265C>A	c.(265-267)CAT>AAT	p.H89N		NM_001103176	NP_001096646	Q3B7I2	CNPY1_HUMAN	canopy 1 homolog	89											0	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		AGCTCAGTATGATTAGCAGAA	0.383													9	4	---	---	---	---	PASS	T	155295777	T	T	155295777	3	4	27	1	0	0	0	0	1	0	0	0	3627	1290	45	2	17	2	CNPY1	7	155295777	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	3435673	155295777	3842886	178	11709										
NCAPG2	54892	broad.mit.edu	37	chr7	158445095	158445095	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgcaacttcttcatctgaatCtgttttctgaatcaaggaac	6	9	6	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr7:158445095C>A	uc003wnv.1	-	23	2969	c.2824G>T	c.(2824-2826)GAT>TAT	p.D942Y	NCAPG2_uc010lqu.1_Missense_Mutation_p.D734Y|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.D942Y|NCAPG2_uc011kwe.1_Missense_Mutation_p.D942Y|NCAPG2_uc011kwc.1_Missense_Mutation_p.D443Y|NCAPG2_uc011kwd.1_Missense_Mutation_p.D385Y	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	942					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		TCATCTGAATCTGTTTTCTGA	0.363													5	68	---	---	---	---	PASS	A	158445095	A	A	158445095	3	1	27	1	0	0	0	0	1	0	0	0	10208	913	32	2	631	2	NCAPG2	7	158445095	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	3149318	158445095	693568	179	11710										
CSMD1	64478	broad.mit.edu	37	chr8	3200838	3200838	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtataggtgagttgaaaaccTtggtcggtgtcagatccatt	12	6	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:3200838T>A	uc011kwk.1	-	23	4002	c.3612A>T	c.(3610-3612)CAA>CAT	p.Q1204H	CSMD1_uc011kwj.1_Missense_Mutation_p.Q596H|CSMD1_uc003wqe.2_Missense_Mutation_p.Q360H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1204	Extracellular (Potential).|CUB 7.					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)		GTTGAAAACCTTGGTCGGTGT	0.398													23	15	---	---	---	---	PASS	A	3200838	A	A	3200838	3	1	27	1	0	0	0	0	1	0	0	0	3944	1606	56	5	7277	5	CSMD1	8	3200838	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08		3200838	143163184	180	11711										
FAM167A	83648	broad.mit.edu	37	chr8	11301903	11301903	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcacccacttcttccacgtgGatctggggcacagacattct	9	14	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:11301903G>C	uc010lry.1	-	2	638	c.18C>G	c.(16-18)ATC>ATG	p.I6M	FAM167A_uc003wtw.2_Missense_Mutation_p.I6M	NM_053279	NP_444509	Q96KS9	F167A_HUMAN	hypothetical protein LOC83648	6											0						CTTCCACGTGGATCTGGGGCA	0.672													55	60	---	---	---	---	PASS	C	11301903	C	C	11301903	3	2	27	1	0	0	0	0	1	0	0	0	5483	1164	41	2	634	2	FAM167A	8	11301903	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	8101065	11301903	135062119	181	11712										
SGCZ	137868	broad.mit.edu	37	chr8	14412337	14412337	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	acaaagaagtataagcacctCtttcgccatccataaattcc	4	12	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:14412337C>T	uc003wwq.2	-	2	798	c.138G>A	c.(136-138)AAG>AAA	p.K46K	SGCZ_uc010lss.2_Silent_p.K33K	NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta	33	Cytoplasmic (Potential).				cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		ATAAGCACCTCTTTCGCCATC	0.393													5	99	---	---	---	---	PASS	T	14412337	T	T	14412337	2	4	27	1	0	0	0	0	0	0	0	1	14204	912	32	2		2	SGCZ	8	14412337	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	3110434	14412337	131951685	182	11713										
PIWIL2	55124	broad.mit.edu	37	chr8	22165558	22165558	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caatgaactgatgcgttgggGgctccgtctgcaaaaggatg	14	8	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:22165558G>T	uc003xbn.2	+	14	1806	c.1658G>T	c.(1657-1659)GGG>GTG	p.G553V	PIWIL2_uc011kzf.1_Missense_Mutation_p.G553V|PIWIL2_uc010ltv.2_Missense_Mutation_p.G553V	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2	553					DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		ATGCGTTGGGGGCTCCGTCTG	0.443													4	7	---	---	---	---	PASS	T	22165558	T	T	22165558	3	4	27	1	0	0	0	0	1	0	0	0	11958	1232	43	3	1708	3	PIWIL2	8	22165558	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	7753221	22165558	124198464	183	11714										
TMEM66	51669	broad.mit.edu	37	chr8	29927179	29927179	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgtgaactcagacttaaagcCtgggggaggaggtcctgctg	15	8	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:29927179C>A	uc003xhs.2	-	3	863	c.679G>T	c.(679-681)GGC>TGC	p.G227C	TMEM66_uc003xht.2_Missense_Mutation_p.G227C|TMEM66_uc003xhu.2_Missense_Mutation_p.G191C|TMEM66_uc003xhv.2_Missense_Mutation_p.G55C	NM_016127	NP_057211	Q96BY9	TMM66_HUMAN	transmembrane protein 66 precursor	227						integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(542;0.0993)|Kidney(114;0.119)		GACTTAAAGCCTGGGGGAGGA	0.502													22	21	---	---	---	---	PASS	A	29927179	A	A	29927179	3	1	27	1	0	0	0	0	1	0	0	0	16192	681	24	3	356	3	TMEM66	8	29927179	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	7761621	29927179	116436843	184	11715										
UNC5D	137970	broad.mit.edu	37	chr8	35579873	35579873	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	attgactcttctgcattgacAggtggcttccagaccttcaa	8	11	3	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:35579873A>T	uc003xjr.1	+	9	1591	c.1263A>T	c.(1261-1263)ACA>ACT	p.T421T	UNC5D_uc003xjs.1_Silent_p.T416T|UNC5D_uc003xju.1_5'Flank|UNC5D_uc003xjt.1_Silent_p.T179T	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	421	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CTGCATTGACAGGTGGCTTCC	0.552													49	41	---	---	---	---	PASS	T	35579873	T	T	35579873	2	4	27	1	0	0	0	0	0	0	0	1	16992	175	7	5		5	UNC5D	8	35579873	Silent	SNP	A	TCGA-21-5786-01A-01D-1632-08	5652694	35579873	110784149	185	11716										
PRKDC	5591	broad.mit.edu	37	chr8	48706936	48706936	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tatgatgaagggataaacaaTagcctgcgggtagttatcag	12	5	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:48706936T>C	uc003xqi.2	-	75	10642	c.10585A>G	c.(10585-10587)ATT>GTT	p.I3529V	PRKDC_uc003xqj.2_Missense_Mutation_p.I3529V|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3529	FAT.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				GGATAAACAATAGCCTGCGGG	0.443								NHEJ					7	19	---	---	---	---	PASS	C	48706936	C	C	48706936	3	2	27	1	0	0	0	0	1	0	0	0	12521	1406	49	5	1853	5	PRKDC	8	48706936	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	13127063	48706936	97657086	186	11717										
XKR4	114786	broad.mit.edu	37	chr8	56015839	56015839	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	actcatccacatcttgcagcTcgggcaaatctggaggtact	9	12	3	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:56015839T>A	uc003xsf.2	+	1	823	c.791T>A	c.(790-792)CTC>CAC	p.L264H		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	264	Helical; (Potential).					integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			ATCTTGCAGCTCGGGCAAATC	0.572													15	35	---	---	---	---	PASS	A	56015839	A	A	56015839	3	1	27	1	0	0	0	0	1	0	0	0	17430	1551	54	5	793	5	XKR4	8	56015839	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	7308903	56015839	90348183	187	11718										
FAM110B	90362	broad.mit.edu	37	chr8	59059317	59059317	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggccgcaggagcccgcaggaGggcggctcccacgtgggcag	19	14	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:59059317G>C	uc003xtj.1	+	5	1408	c.528G>C	c.(526-528)GAG>GAC	p.E176D		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	176						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				GCCCGCAGGAGGGCGGCTCCC	0.677													7	16	---	---	---	---	PASS	C	59059317	C	C	59059317	3	2	27	1	0	0	0	0	1	0	0	0	5397	991	35	4	530	4	FAM110B	8	59059317	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	3043478	59059317	87304705	188	11719										
RAB2A	5862	broad.mit.edu	37	chr8	61484660	61484660	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gggaaacagataaaacttcaGatatgggatacggtaagtat	11	4	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:61484660G>T	uc003xud.1	+	3	382	c.174G>T	c.(172-174)CAG>CAT	p.Q58H	RAB2A_uc011lef.1_Missense_Mutation_p.Q34H	NM_002865	NP_002856	P61019	RAB2A_HUMAN	RAB2A, member RAS oncogene family	58					ER to Golgi vesicle-mediated transport|protein transport|small GTPase mediated signal transduction	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|melanosome	GDP binding|GTP binding|GTPase activity				0			BRCA - Breast invasive adenocarcinoma(89;0.0805)			TAAAACTTCAGATATGGGATA	0.318													10	23	---	---	---	---	PASS	T	61484660	T	T	61484660	3	4	27	1	0	0	0	0	1	0	0	0	12917	933	33	2	184	2	RAB2A	8	61484660	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2425343	61484660	84879362	189	11720										
VCPIP1	80124	broad.mit.edu	37	chr8	67579091	67579091	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtctctccgcttcaaaagccCccccgaagcagccgccgacg	9	19	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:67579091C>A	uc003xwn.2	-	1	362	c.103G>T	c.(103-105)GGG>TGG	p.G35W	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	35					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			TTCAAAAGCCCCCCCGAAGCA	0.517													7	8	---	---	---	---	PASS	A	67579091	A	A	67579091	3	1	27	1	0	0	0	0	1	0	0	0	17138	623	22	3	3577	3	VCPIP1	8	67579091	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	6094431	67579091	78784931	190	11721										
PREX2	80243	broad.mit.edu	37	chr8	69104662	69104662	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gctgcctgtgcaaacacagcTtgcagtgcttctggggttgg	14	10	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:69104662T>A	uc003xxv.1	+	37	4533	c.4506T>A	c.(4504-4506)GCT>GCA	p.A1502A		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1502					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CAAACACAGCTTGCAGTGCTT	0.552													5	18	---	---	---	---	PASS	A	69104662	A	A	69104662	2	1	27	1	0	0	0	0	0	0	0	1	12477	1596	56	5		5	PREX2	8	69104662	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	1525571	69104662	77259360	191	11722										
SLCO5A1	81796	broad.mit.edu	37	chr8	70744523	70744523	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agcacatgcacaccaggaagCaacgggaatccgtgaggacc	12	12	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:70744523C>A	uc003xyl.2	-	2	1093	c.386G>T	c.(385-387)TGC>TTC	p.C129F	SLCO5A1_uc010lzb.2_Missense_Mutation_p.C129F|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Missense_Mutation_p.C129F|SLCO5A1_uc010lzc.2_Missense_Mutation_p.C129F	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	129	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			CACCAGGAAGCAACGGGAATC	0.552											OREG0018815	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	26	---	---	---	---	PASS	A	70744523	A	A	70744523	3	1	27	1	0	0	0	0	1	0	0	0	14731	710	25	3	2196	3	SLCO5A1	8	70744523	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	1639861	70744523	75619499	192	11723										
KCNB2	9312	broad.mit.edu	37	chr8	73849404	73849404	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gagcacctccagcatcgacaGcttcaccagctgtgccaccg	9	17	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:73849404G>T	uc003xzb.2	+	3	2402	c.1814G>T	c.(1813-1815)AGC>ATC	p.S605I		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	605	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			AGCATCGACAGCTTCACCAGC	0.582													17	45	---	---	---	---	PASS	T	73849404	T	T	73849404	3	4	27	1	0	0	0	0	1	0	0	0	8013	971	34	3	1820	3	KCNB2	8	73849404	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	3104881	73849404	72514618	193	11724										
OSR2	116039	broad.mit.edu	37	chr8	99961377	99961377	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caatgtgcacgagatcacccGctccaccatcacggagatgg	10	14	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:99961377G>C	uc003yir.2	+	2	732	c.197G>C	c.(196-198)CGC>CCC	p.R66P	OSR2_uc010mbn.2_Missense_Mutation_p.R66P|OSR2_uc003yiq.2_Missense_Mutation_p.R66P|OSR2_uc011lgx.1_Missense_Mutation_p.R187P	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	66					bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding			central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			GAGATCACCCGCTCCACCATC	0.647													22	32	---	---	---	---	PASS	C	99961377	C	C	99961377	3	2	27	1	0	0	0	0	1	0	0	0	11294	1087	38	4	199	4	OSR2	8	99961377	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	26111973	99961377	46402645	194	11725										
ZFPM2	23414	broad.mit.edu	37	chr8	106810992	106810992	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcctgtggcatctggtatcgGagtgagcggaatctgcaggc	15	9	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:106810992G>T	uc003ymd.2	+	7	803	c.780G>T	c.(778-780)CGG>CGT	p.R260R	ZFPM2_uc011lhs.1_5'UTR|uc003yme.1_5'Flank	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	260	C2HC-type 1.				blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			TCTGGTATCGGAGTGAGCGGA	0.488													9	28	---	---	---	---	PASS	T	106810992	T	T	106810992	2	4	27	1	0	0	0	0	0	0	0	1	17655	1161	41	2		2	ZFPM2	8	106810992	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	6849615	106810992	39553030	195	11726										
CSMD3	114788	broad.mit.edu	37	chr8	114111122	114111122	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caatcagcattgttatggtaCtcattaggaaaactagggct	9	7	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:114111122C>A	uc003ynu.2	-	5	939	c.780G>T	c.(778-780)GAG>GAT	p.E260D	CSMD3_uc003ynt.2_Missense_Mutation_p.E220D|CSMD3_uc011lhx.1_Missense_Mutation_p.E260D|CSMD3_uc010mcx.1_Missense_Mutation_p.E260D	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	260	Extracellular (Potential).|CUB 2.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TGTTATGGTACTCATTAGGAA	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			24	34	---	---	---	---	PASS	A	114111122	A	A	114111122	3	1	27	1	0	0	0	0	1	0	0	0	3946	564	20	3	10611	3	CSMD3	8	114111122	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	7300130	114111122	32252900	196	11727										
EXT1	2131	broad.mit.edu	37	chr8	119122650	119122650	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gctttggccagcatcgcctgGccgatgtcaaaccccacgtc	10	16	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:119122650G>A	uc003yok.1	-	1	1409	c.636C>T	c.(634-636)GGC>GGT	p.G212G		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	212	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			GCATCGCCTGGCCGATGTCAA	0.468			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				63	65	---	---	---	---	PASS	A	119122650	A	A	119122650	2	1	27	1	0	0	0	0	0	0	0	1	5323	1190	42	3		3	EXT1	8	119122650	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	5011528	119122650	27241372	197	11728										
DEPDC6	64798	broad.mit.edu	37	chr8	120940741	120940741	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	actgattgactggctgattgAacacaaagaggcttctgaca	10	8	1	6			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:120940741A>T	uc003yow.3	+	2	411	c.224A>T	c.(223-225)GAA>GTA	p.E75V	DEPDC6_uc011lid.1_Intron	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	75	DEP 1.				intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TGGCTGATTGAACACAAAGAG	0.458													40	40	---	---	---	---	PASS	T	120940741	T	T	120940741	3	4	27	1	0	0	0	0	1	0	0	0	4443	246	9	5	230	5	DEPDC6	8	120940741	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	1818091	120940741	25423281	198	11729										
ZFAT	57623	broad.mit.edu	37	chr8	135614255	135614255	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcacagggtggcagggctgtGctttcggcctgcggggaggc	19	10	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:135614255G>A	uc003yup.2	-	6	1882	c.1707C>T	c.(1705-1707)AGC>AGT	p.S569S	ZFAT_uc003yun.2_Silent_p.S557S|ZFAT_uc003yuo.2_Silent_p.S557S|ZFAT_uc010meh.2_Silent_p.S557S|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Silent_p.S557S|ZFAT_uc010mej.2_Silent_p.S507S|ZFAT_uc003yur.2_Silent_p.S557S	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	569					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			GCAGGGCTGTGCTTTCGGCCT	0.597													16	20	---	---	---	---	PASS	A	135614255	A	A	135614255	2	1	27	1	0	0	0	0	0	0	0	1	17629	1310	46	3		3	ZFAT	8	135614255	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	14673514	135614255	10749767	199	11730										
EIF2C2	27161	broad.mit.edu	37	chr8	141583033	141583033	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	catgtgttccacgatttcccTgaaacaaagacaaaagtcgg	8	10	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:141583033T>A	uc003yvn.2	-	3	256	c.216_splice	c.e3-1	p.R72_splice	EIF2C2_uc010men.2_Splice_Site|EIF2C2_uc010meo.2_Splice_Site_p.R72_splice	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1						mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			ACGATTTCCCTGAAACAAAGA	0.383													25	50	---	---	---	---	PASS	A	141583033	A	A	141583033	5	1	27	1	0	0	0	0	0	0	1	0	5006	1594	55	5	2433	5	EIF2C2	8	141583033	Splice_Site	SNP	T	TCGA-21-5786-01A-01D-1632-08	5968778	141583033	4780989	200	11731										
OPLAH	26873	broad.mit.edu	37	chr8	145112765	145112765	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atcctgactcttacctttgcGgtagcaggcgggtcctgggt	13	11	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr8:145112765G>A	uc003zar.3	-	9	1232	c.1150C>T	c.(1150-1152)CGC>TGC	p.R384C	OPLAH_uc003zas.1_5'Flank|OPLAH_uc003zat.1_Missense_Mutation_p.R162C	NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	384							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	TTACCTTTGCGGTAGCAGGCG	0.662													6	12	---	---	---	---	PASS	A	145112765	A	A	145112765	3	1	27	1	0	0	0	0	1	0	0	0	10876	1116	39	1	2794	1	OPLAH	8	145112765	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	3529732	145112765	1251257	201	11732										
HAUS6	54801	broad.mit.edu	37	chr9	19096745	19096745	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aattatatgaaaggcatcacGgttcagcttgtcaaacatgt	8	7	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr9:19096745G>A	uc003znk.2	-	2	404	c.151C>T	c.(151-153)CGT>TGT	p.R51C		NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	51					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						AAGGCATCACGGTTCAGCTTG	0.299													8	4	---	---	---	---	PASS	A	19096745	A	A	19096745	3	1	27	1	0	0	0	0	1	0	0	0	6970	1116	39	1	2780	1	HAUS6	9	19096745	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08		19096745	122116686	202	11733										
CDKN2A	1029	broad.mit.edu	37	chr9	21974768	21974768	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cctctacccgaccccgggccGcggccgtggccagccagtca	12	20	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr9:21974768G>T	uc003zpk.2	-	1	271	c.59C>A	c.(58-60)GCG>GAG	p.A20E	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_Missense_Mutation_p.A20E|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Intron	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	20	ANK 1.		A -> P (in a lung tumor and melanoma).|A -> S (in a biliary tract tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(23)|p.A20P(3)|p.A19_A20insTA(3)|p.A20A(2)|p.A20T(2)|p.A20E(1)|p.A20fs*26(1)|p.S12fs*20(1)|p.A17fs*5(1)|p.M9_A20>X(1)|p.A20fs*6(1)|p.A20_A21del(1)|p.A20S(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		ACCCCGGGCCGCGGCCGTGGC	0.736		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			10	8	---	---	---	---	PASS	T	21974768	T	T	21974768	3	4	27	1	0	0	0	0	1	0	0	0	3161	1087	38	1	624	1	CDKN2A	9	21974768	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2878023	21974768	119238663	203	11734										
LINGO2	158038	broad.mit.edu	37	chr9	27949549	27949549	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	taggttgctggccaccaaacTgcagggtgggctgtcgctgc	15	11	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr9:27949549T>A	uc003zqu.1	-	2	1315	c.1121A>T	c.(1120-1122)CAG>CTG	p.Q374L	LINGO2_uc010mjf.1_Missense_Mutation_p.Q374L|LINGO2_uc003zqv.1_Missense_Mutation_p.Q374L	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	374	LRRCT.|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)		GCCACCAAACTGCAGGGTGGG	0.542													22	17	---	---	---	---	PASS	A	27949549	A	A	27949549	3	1	27	1	0	0	0	0	1	0	0	0	8815	1580	55	5	703	5	LINGO2	9	27949549	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	5974781	27949549	113263882	204	11735										
GALT	2592	broad.mit.edu	37	chr9	34647934	34647934	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcctcagtcacagaggagctGggtgcccagtacccttgggt	14	12	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr9:34647934G>T	uc003zve.2	+	5	550	c.483G>T	c.(481-483)CTG>CTT	p.L161L	GALT_uc003zvf.2_Silent_p.L52L|GALT_uc003zvg.2_Silent_p.L33L|GALT_uc003zvh.2_Silent_p.L113L|GALT_uc011lop.1_Silent_p.L113L|IL11RA_uc003zvi.2_5'Flank	NM_000155	NP_000146	P07902	GALT_HUMAN	galactose-1-phosphate uridylyltransferase	161					galactose catabolic process	cytosol	UDP-glucose:hexose-1-phosphate uridylyltransferase activity|zinc ion binding				0	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.173)		CAGAGGAGCTGGGTGCCCAGT	0.587									Galactosemia				22	22	---	---	---	---	PASS	T	34647934	T	T	34647934	2	4	27	1	0	0	0	0	0	0	0	1	6230	1335	47	3		3	GALT	9	34647934	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	6698385	34647934	106565497	205	11736										
FBXO10	26267	broad.mit.edu	37	chr9	37537356	37537356	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gctcctggtagaggtgggccCagaaatgagccccccaatac	12	13	0	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr9:37537356C>T	uc004aab.2	-	3	1219	c.1170G>A	c.(1168-1170)CTG>CTA	p.L390L	FBXO10_uc004aac.2_Silent_p.L406L|FBXO10_uc004aad.2_Intron	NM_012166	NP_036298	Q9UK96	FBX10_HUMAN	F-box protein 10	390						ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(5)	5				GBM - Glioblastoma multiforme(29;0.0107)		GAGGTGGGCCCAGAAATGAGC	0.587													3	1	---	---	---	---	PASS	T	37537356	T	T	37537356	2	4	27	1	0	0	0	0	0	0	0	1	5726	581	21	3		3	FBXO10	9	37537356	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	2889422	37537356	103676075	206	11737										
CBWD6	644019	broad.mit.edu	37	chr9	69238318	69238318	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atctgccaaagcaacttgccTaaaatagcaaacaaaaagaa	5	9	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr9:69238318T>A	uc004afj.3	-	8	682	c.576_splice	c.e8-1	p.R192_splice	CBWD6_uc004afk.3_Intron|CBWD6_uc011lrf.1_Intron	NM_001085457	NP_001078926	Q4V339	CBWD6_HUMAN	COBW domain containing 6								ATP binding				0						GCAACTTGCCTAAAATAGCAA	0.269													7	64	---	---	---	---	PASS	A	69238318	A	A	69238318	5	1	27	1	0	0	0	0	0	0	1	0	2716	1536	53	5	645	5	CBWD6	9	69238318	Splice_Site	SNP	T	TCGA-21-5786-01A-01D-1632-08	31700962	69238318	71975113	207	11738										
PTCH1	5727	broad.mit.edu	37	chr9	98215785	98215785	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aatgaagtcgaactcagatcCcgccagcatcagcactccca	7	15	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr9:98215785C>T	uc004avk.3	-	20	3612	c.3424G>A	c.(3424-3426)GGA>AGA	p.G1142R	PTCH1_uc010mro.2_Missense_Mutation_p.G991R|PTCH1_uc010mrp.2_Missense_Mutation_p.G991R|PTCH1_uc010mrq.2_Missense_Mutation_p.G991R|PTCH1_uc004avl.3_Missense_Mutation_p.G991R|PTCH1_uc010mrr.2_Missense_Mutation_p.G1076R|PTCH1_uc004avm.3_Missense_Mutation_p.G1141R	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	1142	Extracellular (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				AACTCAGATCCCGCCAGCATC	0.483									Basal_Cell_Nevus_syndrome				27	19	---	---	---	---	PASS	T	98215785	T	T	98215785	3	4	27	1	0	0	0	0	1	0	0	0	12730	632	22	3	935	3	PTCH1	9	98215785	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	28977467	98215785	42997646	208	11739										
PTCH1	5727	broad.mit.edu	37	chr9	98278916	98278916	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cccccttgccttgtcgctgcGggtctctttgtctcccctgt	9	17	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr9:98278916G>T	uc004avm.3	-	1	332	c.187C>A	c.(187-189)CGC>AGC	p.R63S	PTCH1_uc010mrr.2_5'UTR|PTCH1_uc004avo.2_5'UTR|PTCH1_uc010mrv.1_RNA|PTCH1_uc010mrw.1_RNA	NM_001083603	NP_001077072	Q13635	PTC1_HUMAN	patched isoform L'	Error:Variant_position_missing_in_Q13635_after_alignment					embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				TTGTCGCTGCGGGTCTCTTTG	0.398									Basal_Cell_Nevus_syndrome				12	7	---	---	---	---	PASS	T	98278916	T	T	98278916	3	4	27	1	0	0	0	0	1	0	0	0	12730	1116	39	1	4457	1	PTCH1	9	98278916	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	63131	98278916	42934515	209	11740										
C9orf4	23732	broad.mit.edu	37	chr9	111899836	111899836	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agctgatggcataaaaatgtCttcatacttgtaaatactga	7	6	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr9:111899836C>A	uc004bdw.1	-	5	934	c.934G>T	c.(934-936)GAC>TAC	p.D312Y		NM_014334	NP_055149	Q9P0K9	CI004_HUMAN	hypothetical protein LOC23732	312						integral to membrane					0						ATAAAAATGTCTTCATACTTG	0.433													49	31	---	---	---	---	PASS	A	111899836	A	A	111899836	3	1	27	1	0	0	0	0	1	0	0	0	2480	913	32	2	104	2	C9orf4	9	111899836	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	13620920	111899836	29313595	210	11741										
SFMBT2	57713	broad.mit.edu	37	chr10	7239578	7239578	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctctgcaatccttcctttgtTcaggtaagggcctgagaaac	9	11	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:7239578T>C	uc009xio.1	-	15	1721	c.1630A>G	c.(1630-1632)AAC>GAC	p.N544D	SFMBT2_uc001ijn.1_Missense_Mutation_p.N544D|SFMBT2_uc010qay.1_Intron	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	544					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						CTTCCTTTGTTCAGGTAAGGG	0.517													29	29	---	---	---	---	PASS	C	7239578	C	C	7239578	3	2	27	1	0	0	0	0	1	0	0	0	14158	1783	62	5	1082	5	SFMBT2	10	7239578	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08		7239578	128295169	211	11742										
CREM	1390	broad.mit.edu	37	chr10	35500642	35500642	+	Nonsense_Mutation	SNP	C	T	T													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atgtaaaatgtctggagagcCgagttgcagtgctggaagtc							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:35500642C>T	uc001iyb.2	+	8	976	c.814C>T	c.(814-816)CGA>TGA	p.R272*	CREM_uc001ixy.2_Nonsense_Mutation_p.R68*|CREM_uc001ixz.2_3'UTR|CREM_uc001iya.2_3'UTR|CREM_uc001iyc.2_Nonsense_Mutation_p.R193*|CREM_uc001iyd.2_3'UTR|CREM_uc001iye.2_3'UTR|CREM_uc001iyf.2_Nonsense_Mutation_p.R242*|CREM_uc001iyg.2_Nonsense_Mutation_p.R179*|CREM_uc001iyh.2_Nonsense_Mutation_p.R217*|CREM_uc001iyi.2_Nonsense_Mutation_p.R154*|CREM_uc001iyj.2_Nonsense_Mutation_p.R151*|CREM_uc001iyk.2_3'UTR|CREM_uc001iyl.2_Nonsense_Mutation_p.R93*|CREM_uc001iym.2_3'UTR|CREM_uc001iyn.2_Nonsense_Mutation_p.R81*|CREM_uc001iyo.2_3'UTR|CREM_uc001iyp.2_3'UTR|CREM_uc001iyq.2_Nonsense_Mutation_p.R85*|CREM_uc001iyr.2_3'UTR|CREM_uc001iys.2_Nonsense_Mutation_p.R68*|CREM_uc001iyt.2_3'UTR	NM_181571	NP_853549	Q03060	CREM_HUMAN	cAMP responsive element modulator isoform a	333	Leucine-zipper (By similarity).				cell differentiation|multicellular organismal development|signal transduction|spermatogenesis	nucleus	cAMP response element binding protein binding|protein binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TCTGGAGAGCCGAGTTGCAGT	0.388													20	17	---	---	---	---	PASS	T	35500642	T	T	35500642	4	4	27	1	0	0	0	0	0	1	0	0	3868	644	23	1	1241	1	CREM	10	35500642	Nonsense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	28261064	35500642	100034105	212	11743	322	2								
CREM	1390	broad.mit.edu	37	chr10	35500644	35500644	+	Silent	SNP	A	C	C													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtaaaatgtctggagagccgAgttgcagtgctggaagtcca							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:35500644A>C	uc001iyb.2	+	8	978	c.816A>C	c.(814-816)CGA>CGC	p.R272R	CREM_uc001ixy.2_Silent_p.R68R|CREM_uc001ixz.2_3'UTR|CREM_uc001iya.2_3'UTR|CREM_uc001iyc.2_Silent_p.R193R|CREM_uc001iyd.2_3'UTR|CREM_uc001iye.2_3'UTR|CREM_uc001iyf.2_Silent_p.R242R|CREM_uc001iyg.2_Silent_p.R179R|CREM_uc001iyh.2_Silent_p.R217R|CREM_uc001iyi.2_Silent_p.R154R|CREM_uc001iyj.2_Silent_p.R151R|CREM_uc001iyk.2_3'UTR|CREM_uc001iyl.2_Silent_p.R93R|CREM_uc001iym.2_3'UTR|CREM_uc001iyn.2_Silent_p.R81R|CREM_uc001iyo.2_3'UTR|CREM_uc001iyp.2_3'UTR|CREM_uc001iyq.2_Silent_p.R85R|CREM_uc001iyr.2_3'UTR|CREM_uc001iys.2_Silent_p.R68R|CREM_uc001iyt.2_3'UTR	NM_181571	NP_853549	Q03060	CREM_HUMAN	cAMP responsive element modulator isoform a	333	Leucine-zipper (By similarity).				cell differentiation|multicellular organismal development|signal transduction|spermatogenesis	nucleus	cAMP response element binding protein binding|protein binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TGGAGAGCCGAGTTGCAGTGC	0.383													21	16	---	---	---	---	PASS	C	35500644	C	C	35500644	2	2	27	1	0	0	0	0	0	0	0	1	3868	291	11	5		5	CREM	10	35500644	Silent	SNP	A	TCGA-21-5786-01A-01D-1632-08	2	35500644	100034103	213	11744	322	2								
ZNF33A	7581	broad.mit.edu	37	chr10	38343433	38343433	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtaataggaataccatttaaTgtggatgtaagttcttttcc	8	5	1	0	rs150308253		TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:38343433T>A	uc001izh.2	+	5	556	c.378T>A	c.(376-378)AAT>AAA	p.N126K	ZNF33A_uc001izg.2_Missense_Mutation_p.N127K|ZNF33A_uc010qev.1_Missense_Mutation_p.N133K|ZNF33A_uc001izi.1_Missense_Mutation_p.N127K	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	126						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						TACCATTTAATGTGGATGTAA	0.343													24	24	---	---	---	---	PASS	A	38343433	A	A	38343433	3	1	27	1	0	0	0	0	1	0	0	0	17851	1461	51	5	395	5	ZNF33A	10	38343433	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	2842789	38343433	97191314	214	11745										
SGMS1	259230	broad.mit.edu	37	chr10	52103495	52103495	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgccccactccatggggtacTgagagcgctccagttctggc	12	14	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:52103495T>A	uc001jje.2	-	7	1334	c.380A>T	c.(379-381)CAG>CTG	p.Q127L	SGMS1_uc010qhk.1_Intron|SGMS1_uc009xot.1_Intron|SGMS1_uc009xou.1_Missense_Mutation_p.Q127L|SGMS1_uc010qhl.1_RNA	NM_147156	NP_671512	Q86VZ5	SMS1_HUMAN	sphingomyelin synthase 1	133					apoptosis|cell growth|sphingomyelin biosynthetic process	endoplasmic reticulum|Golgi trans cisterna|integral to Golgi membrane|nucleus|plasma membrane	ceramide cholinephosphotransferase activity|kinase activity|sphingomyelin synthase activity			ovary(1)|kidney(1)	2						CATGGGGTACTGAGAGCGCTC	0.502													33	49	---	---	---	---	PASS	A	52103495	A	A	52103495	3	1	27	1	0	0	0	0	1	0	0	0	14214	1580	55	5	881	5	SGMS1	10	52103495	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	13760062	52103495	83431252	215	11746										
MBL2	4153	broad.mit.edu	37	chr10	54529030	54529030	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttttgatacgtgccatttctGtttgcagagcttttctttct	7	8	3	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:54529030G>A	uc001jjt.2	-	3	415	c.350C>T	c.(349-351)ACA>ATA	p.T117I		NM_000242	NP_000233	P11226	MBL2_HUMAN	soluble mannose-binding lectin precursor	117					acute-phase response|complement activation, classical pathway|complement activation, lectin pathway|defense response to Gram-positive bacterium|negative regulation of growth of symbiont in host|opsonization|response to oxidative stress	collagen|extracellular space	bacterial cell surface binding|calcium-dependent protein binding|eukaryotic cell surface binding|mannose binding|receptor binding			ovary(1)	1						TGCCATTTCTGTTTGCAGAGC	0.383													31	73	---	---	---	---	PASS	A	54529030	A	A	54529030	3	1	27	1	0	0	0	0	1	0	0	0	9350	1377	48	3	404	3	MBL2	10	54529030	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2425535	54529030	81005717	216	11747										
PCDH15	65217	broad.mit.edu	37	chr10	55582004	55582004	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgaagctgaaggaggtggagGgcaaggaatagaaggaggtg	20	2	0	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:55582004G>T	uc001jju.1	-	33	5877	c.5482C>A	c.(5482-5484)CCT>ACT	p.P1828T	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.P1825T|PCDH15_uc010qhw.1_Missense_Mutation_p.P1788T|PCDH15_uc010qhx.1_Missense_Mutation_p.P1759T|PCDH15_uc010qhy.1_Missense_Mutation_p.P1835T|PCDH15_uc010qhz.1_Missense_Mutation_p.P1830T|PCDH15_uc010qia.1_Missense_Mutation_p.P1808T|PCDH15_uc010qib.1_Missense_Mutation_p.P1805T	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1828	Poly-Pro.|Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ggaggtggagggcaaggaata	0.279										HNSCC(58;0.16)			23	49	---	---	---	---	PASS	T	55582004	T	T	55582004	3	4	27	1	0	0	0	0	1	0	0	0	11511	1232	43	3	1995	3	PCDH15	10	55582004	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1052974	55582004	79952743	217	11748										
PCDH15	65217	broad.mit.edu	37	chr10	55582375	55582375	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aagaatgtaaaacacaaggcCttgaaggagaaagttccaag	10	6	0	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:55582375C>A	uc001jju.1	-	33	5506	c.5111G>T	c.(5110-5112)AGG>ATG	p.R1704M	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.R1701M|PCDH15_uc010qhw.1_Missense_Mutation_p.R1664M|PCDH15_uc010qhx.1_Missense_Mutation_p.R1635M|PCDH15_uc010qhy.1_Missense_Mutation_p.R1711M|PCDH15_uc010qhz.1_Missense_Mutation_p.R1706M|PCDH15_uc010qia.1_Missense_Mutation_p.R1684M|PCDH15_uc010qib.1_Missense_Mutation_p.R1681M	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1704	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AACACAAGGCCTTGAAGGAGA	0.388										HNSCC(58;0.16)			19	35	---	---	---	---	PASS	A	55582375	A	A	55582375	3	1	27	1	0	0	0	0	1	0	0	0	11511	681	24	3	2366	3	PCDH15	10	55582375	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	371	55582375	79952372	218	11749										
TMEM26	219623	broad.mit.edu	37	chr10	63212657	63212657	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gggcactctcaccatttgtaGcctctgccgcgcttgaactt	9	14	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:63212657G>A	uc001jlo.2	-	1	552	c.183C>T	c.(181-183)GGC>GGT	p.G61G	TMEM26_uc010qij.1_RNA|TMEM26_uc001jlq.2_RNA|uc001jlr.2_RNA	NM_178505	NP_848600	Q6ZUK4	TMM26_HUMAN	transmembrane protein 26	61						integral to membrane					0	Prostate(12;0.0112)					ACCATTTGTAGCCTCTGCCGC	0.632													46	55	---	---	---	---	PASS	A	63212657	A	A	63212657	2	1	27	1	0	0	0	0	0	0	0	1	16148	958	34	3		3	TMEM26	10	63212657	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	7630282	63212657	72322090	219	11750										
PPP3CB	5532	broad.mit.edu	37	chr10	75231333	75231333	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caaactatcaaaagcttccaTacaagcttcatagactcttt	3	11	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:75231333T>C	uc001jue.2	-	5	697	c.562A>G	c.(562-564)ATG>GTG	p.M188V	PPP3CB_uc001juf.2_Missense_Mutation_p.M188V|PPP3CB_uc001jug.2_Missense_Mutation_p.M188V|PPP3CB_uc001jui.2_Missense_Mutation_p.M206V|PPP3CB_uc001juh.2_Missense_Mutation_p.M102V	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	188	Catalytic.									skin(1)	1	Prostate(51;0.0119)					AAAGCTTCCATACAAGCTTCA	0.338													17	61	---	---	---	---	PASS	C	75231333	C	C	75231333	3	2	27	1	0	0	0	0	1	0	0	0	12398	1406	49	5	1055	5	PPP3CB	10	75231333	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	12018676	75231333	60303414	220	11751										
LDB3	11155	broad.mit.edu	37	chr10	88451677	88451677	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctccctattaaggaccttgcCgtagacagcgcctctcccgt	8	16	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:88451677C>A	uc001kdv.2	+	5	737	c.714C>A	c.(712-714)GCC>GCA	p.A238A	LDB3_uc010qml.1_Silent_p.A238A|LDB3_uc010qmm.1_Silent_p.A306A|LDB3_uc001kdu.2_Silent_p.A191A|LDB3_uc009xsz.2_Intron|LDB3_uc001kdr.2_Silent_p.A191A|LDB3_uc009xsy.2_Silent_p.A306A|LDB3_uc001kds.2_Silent_p.A238A|LDB3_uc001kdt.2_RNA	NM_007078	NP_009009	O75112	LDB3_HUMAN	LIM domain binding 3 isoform 1	238						cytoskeleton|perinuclear region of cytoplasm|pseudopodium	zinc ion binding			ovary(1)	1						AGGACCTTGCCGTAGACAGCG	0.607													29	59	---	---	---	---	PASS	A	88451677	A	A	88451677	2	1	27	1	0	0	0	0	0	0	0	1	8697	639	23	1		1	LDB3	10	88451677	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	13220344	88451677	47083070	221	11752										
FAM22A	728118	broad.mit.edu	37	chr10	88985864	88985864	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agttggactcaggagcatctGgtgagccaggtcactctctg	13	10	4	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:88985864G>A	uc001kek.2	+	1	660	c.277G>A	c.(277-279)GGT>AGT	p.G93S	LOC728190_uc009xtc.2_Intron|LOC728190_uc009xtd.2_Intron	NM_001099338	NP_001092808	Q8IVF1	FA22A_HUMAN	hypothetical protein LOC728118	93											0						AGGAGCATCTGGTGAGCCAGG	0.542													29	10	---	---	---	---	PASS	A	88985864	A	A	88985864	3	1	27	1	0	0	0	0	1	0	0	0	5543	1348	47	3	279	3	FAM22A	10	88985864	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	534187	88985864	46548883	222	11753										
CNNM1	26507	broad.mit.edu	37	chr10	101090567	101090567	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agggtgaccagcggcacaacAttgtggacattttatttgtc	11	8	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:101090567A>G	uc001kpp.3	+	1	1712	c.1423A>G	c.(1423-1425)ATT>GTT	p.I475V	CNNM1_uc009xwe.2_Missense_Mutation_p.I475V|CNNM1_uc010qpi.1_Missense_Mutation_p.I475V|CNNM1_uc009xwf.2_Missense_Mutation_p.I475V	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	475	CBS 1.				ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		GCGGCACAACATTGTGGACAT	0.607													18	20	---	---	---	---	PASS	G	101090567	G	G	101090567	3	3	27	1	0	0	0	0	1	0	0	0	3612	217	8	5	1425	5	CNNM1	10	101090567	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	12104703	101090567	34444180	223	11754										
SLC25A28	81894	broad.mit.edu	37	chr10	101371025	101371025	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cagctgggtggtgtagctgcGgtaaaaggccccggcccctt	15	12	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:101371025G>A	uc001kpx.2	-	4	805	c.676C>T	c.(676-678)CGC>TGC	p.R226C	SLC25A28_uc001kpy.2_Missense_Mutation_p.R39C	NM_031212	NP_112489	Q96A46	MFRN2_HUMAN	solute carrier family 25, member 28	226	Solcar 2.				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Colorectal(252;0.234)		Epithelial(162;2.57e-10)|all cancers(201;2.01e-08)		GTGTAGCTGCGGTAAAAGGCC	0.532													28	52	---	---	---	---	PASS	A	101371025	A	A	101371025	3	1	27	1	0	0	0	0	1	0	0	0	14491	1116	39	1	422	1	SLC25A28	10	101371025	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	280458	101371025	34163722	224	11755										
CUTC	51076	broad.mit.edu	37	chr10	101514391	101514391	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agactcgggaatgaagtttcGgtaaaaatgtattcttcgat	10	5	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:101514391G>A	uc001kqd.3	+	8	855	c.707G>A	c.(706-708)CGA>CAA	p.R236Q	CUTC_uc001kqe.3_RNA	NM_015960	NP_057044	Q9NTM9	CUTC_HUMAN	cutC copper transporter homolog	236					copper ion homeostasis|copper ion transport|protein tetramerization	cytoplasm|nucleus	copper ion binding			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3e-10)|all cancers(201;2.37e-08)		ATGAAGTTTCGGTAAAAATGT	0.378													38	96	---	---	---	---	PASS	A	101514391	A	A	101514391	3	1	27	1	0	0	0	0	1	0	0	0	4063	1130	39	1	737	1	CUTC	10	101514391	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	143366	101514391	34020356	225	11756										
SORCS3	22986	broad.mit.edu	37	chr10	106737162	106737162	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cagacgaaggggcgacctatCagaagtatcggctcaccttc	11	12	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:106737162C>A	uc001kyi.1	+	4	1092	c.865C>A	c.(865-867)CAG>AAG	p.Q289K		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	289	BNR 2.|Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GGCGACCTATCAGAAGTATCG	0.458													18	31	---	---	---	---	PASS	A	106737162	A	A	106737162	3	1	27	1	0	0	0	0	1	0	0	0	14932	827	29	2	879	2	SORCS3	10	106737162	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	5222771	106737162	28797585	226	11757										
SORCS1	114815	broad.mit.edu	37	chr10	108339127	108339127	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtggatagagggacacgcacCttttaaacttgtagatgacg	12	7	0	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:108339127C>A	uc001kym.2	-	25	3379	c.3371G>T	c.(3370-3372)AGG>ATG	p.R1124M	SORCS1_uc001kyl.2_Missense_Mutation_p.R1124M|SORCS1_uc009xxs.2_Missense_Mutation_p.R1124M|SORCS1_uc001kyn.1_Missense_Mutation_p.R1124M|SORCS1_uc001kyo.2_Missense_Mutation_p.R1124M	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	1124	Cytoplasmic (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		GGACACGCACCTTTTAAACTT	0.532													10	35	---	---	---	---	PASS	A	108339127	A	A	108339127	3	1	27	1	0	0	0	0	1	0	0	0	14930	695	24	3	377	3	SORCS1	10	108339127	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	1601965	108339127	27195620	227	11758										
SMC3	9126	broad.mit.edu	37	chr10	112357972	112357972	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcaaaggaaatttaaagcatCtagagatagcatattatcag	8	5	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:112357972C>G	uc001kze.2	+	20	2318	c.2192C>G	c.(2191-2193)TCT>TGT	p.S731C		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	731	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)		TTTAAAGCATCTAGAGATAGC	0.348													55	104	---	---	---	---	PASS	G	112357972	G	G	112357972	3	3	27	1	0	0	0	0	1	0	0	0	14784	913	32	2	2270	2	SMC3	10	112357972	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	4018845	112357972	23176775	228	11759										
EIF3A	8661	broad.mit.edu	37	chr10	120801831	120801831	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tccaaccctcgcctgggaccCcggtcatcatcagcattacg	8	17	3	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:120801831C>A	uc001ldu.2	-	19	3347	c.3201G>T	c.(3199-3201)CGG>CGT	p.R1067R	EIF3A_uc010qsu.1_Silent_p.R1033R|EIF3A_uc009xzg.1_Silent_p.R106R	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	1067	15.|Asp-rich.|25 X 10 AA approximate tandem repeats of [DE]-[DE]-[DE]-R-[SEVGFPILV]-[HPSN]- [RSW]-[RL]-[DRGTIHN]-[EPMANLGDT].				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		GCCTGGGACCCCGGTCATCAT	0.637													67	137	---	---	---	---	PASS	A	120801831	A	A	120801831	2	1	27	1	0	0	0	0	0	0	0	1	5012	610	22	3		3	EIF3A	10	120801831	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	8443859	120801831	14732916	229	11760										
PLEKHA1	59338	broad.mit.edu	37	chr10	124175428	124175428	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gacagaaataatctgaaacgGtcacaaagccatcttcctta	6	10	3	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr10:124175428G>T	uc001lge.1	+	7	645	c.522G>T	c.(520-522)CGG>CGT	p.R174R	PLEKHA1_uc001lgf.1_Silent_p.R174R|PLEKHA1_uc001lgg.1_Silent_p.R174R|PLEKHA1_uc001lgh.2_Silent_p.R174R	NM_001001974	NP_001001974	Q9HB21	PKHA1_HUMAN	pleckstrin homology domain containing, family A	174					B cell receptor signaling pathway|cellular response to hydrogen peroxide|establishment of protein localization|negative regulation of protein kinase B signaling cascade|phosphatidylinositol 3-kinase cascade|ruffle organization	cytoplasm|nucleus|ruffle membrane	PDZ domain binding|phosphatidylinositol-3,4-bisphosphate binding			kidney(1)	1		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				ATCTGAAACGGTCACAAAGCC	0.343													15	23	---	---	---	---	PASS	T	124175428	T	T	124175428	2	4	27	1	0	0	0	0	0	0	0	1	12055	1248	44	3		3	PLEKHA1	10	124175428	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	3373597	124175428	11359319	230	11761										
HRAS	3265	broad.mit.edu	37	chr11	533874	533874	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcatggcgctgtactcctccTggccggcggtatccaggatg	14	13	0	0	rs121913233		TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:533874T>C	uc001lpv.2	-	3	370	c.182A>G	c.(181-183)CAG>CGG	p.Q61R	HRAS_uc010qvw.1_Missense_Mutation_p.Q61R|HRAS_uc010qvx.1_Missense_Mutation_p.Q61R|HRAS_uc010qvy.1_RNA	NM_005343	NP_005334	P01112	RASH_HUMAN	v-Ha-ras Harvey rat sarcoma viral oncogene	61	GTP.		Q -> L (in melanoma; strongly reduced GTP hydrolysis in the presence of RAF1; increases transformation of cultured cell lines).	Q->V: Strongly increased transformation of cultured cell lines.|Q->I: Moderately increased transformation of cultured cell lines.	activation of MAPKK activity|axon guidance|blood coagulation|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|Ras protein signal transduction|synaptic transmission	cytosol|Golgi membrane|plasma membrane	GTP binding|GTPase activity|protein C-terminus binding	p.Q61R(112)|p.Q61L(93)|p.Q61K(39)|p.Q61H(20)|p.Q61P(3)|p.Q61Q(1)|p.Q61E(1)		urinary_tract(174)|thyroid(155)|skin(126)|upper_aerodigestive_tract(112)|soft_tissue(37)|prostate(29)|salivary_gland(24)|cervix(23)|stomach(14)|pituitary(10)|lung(9)|haematopoietic_and_lymphoid_tissue(9)|breast(6)|testis(5)|endometrium(4)|bone(3)|large_intestine(2)|oesophagus(2)|penis(2)|kidney(1)|adrenal_gland(1)|thymus(1)	749		all_cancers(49;4.37e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;7.63e-28)|Epithelial(43;7.29e-27)|OV - Ovarian serous cystadenocarcinoma(40;7.15e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Sulindac(DB00605)	GTACTCCTCCTGGCCGGCGGT	0.597	Q61L(KNS62_LUNG)|Q61L(NCIH1915_LUNG)|Q61L(KYSE30_OESOPHAGUS)	6	Mis		infrequent sarcomas|rare other types	rhadomyosarcoma|ganglioneuroblastoma|bladder			Costello_syndrome	HNSCC(11;0.0054)			4	54	---	---	---	---	PASS	C	533874	C	C	533874	3	2	27	1	0	0	0	0	1	0	0	0	7348	1580	55	5	466	5	HRAS	11	533874	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08		533874	134472642	231	11762										
NAP1L4	4676	broad.mit.edu	37	chr11	2985954	2985954	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tttcactttaatatcctgcaGgtgtttcaagattggttcat	7	7	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:2985954G>A	uc001lxc.2	-	8	703	c.562C>T	c.(562-564)CTG>TTG	p.L188L	NAP1L4_uc010qxm.1_Silent_p.L188L|NAP1L4_uc010qxn.1_Silent_p.L188L|SNORA54_uc001lxd.1_5'Flank	NM_005969	NP_005960	Q99733	NP1L4_HUMAN	nucleosome assembly protein 1-like 4	188					nucleosome assembly	chromatin assembly complex|cytoplasm	unfolded protein binding			ovary(1)	1		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00301)|LUSC - Lung squamous cell carcinoma(625;0.211)		ATATCCTGCAGGTGTTTCAAG	0.398													7	10	---	---	---	---	PASS	A	2985954	A	A	2985954	2	1	27	1	0	0	0	0	0	0	0	1	10159	991	35	3		3	NAP1L4	11	2985954	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	2452080	2985954	132020562	232	11763										
UBQLN3	50613	broad.mit.edu	37	chr11	5529644	5529644	+	Frame_Shift_Del	DEL	G	-	-													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cctgagatgagggtgacgatGggggaactctgtttactgat							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:5529644delG	uc001may.1	-	2	1231	c.1145delC	c.(1144-1146)CCAfs	p.P382fs	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	382										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGGTGACGATGGGGGAACTCT	0.567													60	52	---	---	---	---		-	5529644	-	-	5529644	7	5	27	1	0	1	0	1	0	0	0	0	16895	1348	47	0	826	0	UBQLN3	11	5529644	Frame_Shift_Del	DEL	G	TCGA-21-5786-01A-01D-1632-08	2543690	5529644	129476872	233	11764										
OR52N2	390077	broad.mit.edu	37	chr11	5842195	5842195	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gttgctctcctgattggtgtGtttgatatctgctgtatctc	10	8	3	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:5842195G>T	uc010qzp.1	+	1	630	c.630G>T	c.(628-630)GTG>GTT	p.V210V	TRIM5_uc001mbq.1_Intron	NM_001005174	NP_001005174	Q8NGI0	O52N2_HUMAN	olfactory receptor, family 52, subfamily N,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.49e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGATTGGTGTGTTTGATATCT	0.458													69	61	---	---	---	---	PASS	T	5842195	T	T	5842195	2	4	27	1	0	0	0	0	0	0	0	1	11128	1364	48	3		3	OR52N2	11	5842195	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	312551	5842195	129164321	234	11765										
CTR9	9646	broad.mit.edu	37	chr11	10785972	10785972	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	attttagacttggaaacctaGgggaggctaaggtaggaaaa	13	4	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:10785972G>T	uc001mja.2	+	11	1551	c.1402G>T	c.(1402-1404)GGG>TGG	p.G468W		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	468	TPR 9.				histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		TGGAAACCTAGGGGAGGCTAA	0.388													27	26	---	---	---	---	PASS	T	10785972	T	T	10785972	3	4	27	1	0	0	0	0	1	0	0	0	4024	1000	35	3	1444	3	CTR9	11	10785972	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	4943777	10785972	124220544	235	11766										
NELL1	4745	broad.mit.edu	37	chr11	20699477	20699477	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caactctttgttcctttccaGtggtgggctttgggatggac	12	9	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:20699477G>A	uc001mqe.2	+	2	209	c.56_splice	c.e2-1	p.V19_splice	NELL1_uc001mqf.2_Splice_Site_p.V19_splice|NELL1_uc009yid.2_Splice_Site_p.V47_splice|NELL1_uc010rdo.1_Splice_Site_p.V19_splice|NELL1_uc010rdp.1_Splice_Site	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor						cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						TTCCTTTCCAGTGGTGGGCTT	0.498													28	16	---	---	---	---	PASS	A	20699477	A	A	20699477	5	1	27	1	0	0	0	0	0	0	1	0	10333	1043	36	3	61	3	NELL1	11	20699477	Splice_Site	SNP	G	TCGA-21-5786-01A-01D-1632-08	9913505	20699477	114307039	236	11767										
DCDC1	341019	broad.mit.edu	37	chr11	31312327	31312327	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aaagaacaggcttggttttcCgtcttttgatatcagtagga	10	6	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:31312327C>A	uc001msv.2	-	7	1029	c.827G>T	c.(826-828)CGG>CTG	p.R276L	DCDC1_uc001msu.1_Intron	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	276					intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					CTTGGTTTTCCGTCTTTTGAT	0.378													29	21	---	---	---	---	PASS	A	31312327	A	A	31312327	3	1	27	1	0	0	0	0	1	0	0	0	4284	652	23	1	249	1	DCDC1	11	31312327	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	10612850	31312327	103694189	237	11768										
API5	8539	broad.mit.edu	37	chr11	43344985	43344985	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttgtctcttttccaggtcctAgaagatgtgactggtgaaga	11	7	1	5			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:43344985A>T	uc010rfh.1	+	6	722	c.549A>T	c.(547-549)CTA>CTT	p.L183L	API5_uc010rfg.1_Silent_p.L172L|API5_uc001mxf.2_Silent_p.L183L|API5_uc010rfi.1_Silent_p.L129L|API5_uc001mxg.2_Silent_p.L57L	NM_001142930	NP_001136402	Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5 isoform a	183					anti-apoptosis|apoptosis	cytoplasm|spliceosomal complex	fibroblast growth factor binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						TCCAGGTCCTAGAAGATGTGA	0.358													15	11	---	---	---	---	PASS	T	43344985	T	T	43344985	2	4	27	1	0	0	0	0	0	0	0	1	773	407	15	5		5	API5	11	43344985	Silent	SNP	A	TCGA-21-5786-01A-01D-1632-08	12032658	43344985	91661531	238	11769										
CHRM4	1132	broad.mit.edu	37	chr11	46407307	46407307	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcctccagcttgccattgcgCagctcctcccgggcggcctc	10	19	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:46407307C>G	uc001nct.1	-	1	801	c.801G>C	c.(799-801)CTG>CTC	p.L267L		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	267	Cytoplasmic (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	TGCCATTGCGCAGCTCCTCCC	0.662													4	14	---	---	---	---	PASS	G	46407307	G	G	46407307	2	3	27	1	0	0	0	0	0	0	0	1	3379	697	25	4		4	CHRM4	11	46407307	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	3062322	46407307	88599209	239	11770										
OR4C12	283093	broad.mit.edu	37	chr11	50003963	50003963	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agaaccaaaaatactacaaaCgtgactttctccattatggg	6	9	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:50003963C>A	uc010ria.1	-	1	75	c.75G>T	c.(73-75)ACG>ACT	p.T25T		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	25	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						ATACTACAAACGTGACTTTCT	0.408													9	49	---	---	---	---	PASS	A	50003963	A	A	50003963	2	1	27	1	0	0	0	0	0	0	0	1	11046	523	19	1		1	OR4C12	11	50003963	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	3596656	50003963	85002553	240	11771										
OR5D16	390144	broad.mit.edu	37	chr11	55606555	55606555	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tctttttcttttgcacctttGtagtgactgaattaattcta	5	7	3	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:55606555G>C	uc010rio.1	+	1	328	c.328G>C	c.(328-330)GTA>CTA	p.V110L		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				TTGCACCTTTGTAGTGACTGA	0.433													35	120	---	---	---	---	PASS	C	55606555	C	C	55606555	3	2	27	1	0	0	0	0	1	0	0	0	11156	1377	48	4	330	4	OR5D16	11	55606555	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	5602592	55606555	79399961	241	11772										
OR5I1	10798	broad.mit.edu	37	chr11	55703463	55703463	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cgcatacagatgcccctagaCatcacaactgtgtacaataa	6	12	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:55703463C>T	uc010ris.1	-	1	414	c.414G>A	c.(412-414)ATG>ATA	p.M138I		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TGCCCCTAGACATCACAACTG	0.443													9	22	---	---	---	---	PASS	T	55703463	T	T	55703463	3	4	27	1	0	0	0	0	1	0	0	0	11164	478	17	3	533	3	OR5I1	11	55703463	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	96908	55703463	79303053	242	11773										
OR5F1	338674	broad.mit.edu	37	chr11	55761731	55761731	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcagcgggcgacatatggccGcatacctgtcataggccatt	12	12	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:55761731G>T	uc010riv.1	-	1	371	c.371C>A	c.(370-372)GCG>GAG	p.A124E		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					ACATATGGCCGCATACCTGTC	0.507													6	40	---	---	---	---	PASS	T	55761731	T	T	55761731	3	4	27	1	0	0	0	0	1	0	0	0	11158	1087	38	1	576	1	OR5F1	11	55761731	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	58268	55761731	79244785	243	11774										
OR5T1	390155	broad.mit.edu	37	chr11	56043272	56043272	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctatctattcactctaatagGcaatttagggctggttgtac	8	8	3	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:56043272G>T	uc001nio.1	+	1	158	c.158G>T	c.(157-159)GGC>GTC	p.G53V		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	53	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					ACTCTAATAGGCAATTTAGGG	0.348													12	56	---	---	---	---	PASS	T	56043272	T	T	56043272	3	4	27	1	0	0	0	0	1	0	0	0	11181	1203	42	3	160	3	OR5T1	11	56043272	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	281541	56043272	78963244	244	11775										
OR5T1	390155	broad.mit.edu	37	chr11	56043836	56043836	+	Missense_Mutation	SNP	A	C	C													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gttggccattctgaagatgcAgtctgctgaagggaggagaa							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:56043836A>C	uc001nio.1	+	1	722	c.722A>C	c.(721-723)CAG>CCG	p.Q241P		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	241	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					CTGAAGATGCAGTCTGCTGAA	0.428													49	83	---	---	---	---	PASS	C	56043836	C	C	56043836	3	2	27	1	0	0	0	0	1	0	0	0	11181	188	7	5	724	5	OR5T1	11	56043836	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	564	56043836	78962680	245	11776	323	2								
OR5T1	390155	broad.mit.edu	37	chr11	56043837	56043837	+	Missense_Mutation	SNP	G	T	T													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttggccattctgaagatgcaGtctgctgaagggaggagaaa							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:56043837G>T	uc001nio.1	+	1	723	c.723G>T	c.(721-723)CAG>CAT	p.Q241H		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	241	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TGAAGATGCAGTCTGCTGAAG	0.423													51	84	---	---	---	---	PASS	T	56043837	T	T	56043837	3	4	27	1	0	0	0	0	1	0	0	0	11181	1020	36	3	725	3	OR5T1	11	56043837	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1	56043837	78962679	246	11777	323	2								
OR5M9	390162	broad.mit.edu	37	chr11	56230024	56230024	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttctcagactgtagatcatgGgattcaacataggaattact	8	7	3	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:56230024G>T	uc010rjj.1	-	1	854	c.854C>A	c.(853-855)CCC>CAC	p.P285H		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					GTAGATCATGGGATTCAACAT	0.423													15	61	---	---	---	---	PASS	T	56230024	T	T	56230024	3	4	27	1	0	0	0	0	1	0	0	0	11177	1232	43	3	80	3	OR5M9	11	56230024	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	186187	56230024	78776492	247	11778										
OR5M9	390162	broad.mit.edu	37	chr11	56230412	56230412	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ataagtccatagtgtgcataTtaggctgacagagaatccat	9	7	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:56230412T>C	uc010rjj.1	-	1	466	c.466A>G	c.(466-468)ATA>GTA	p.I156V		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					AGTGTGCATATTAGGCTGACA	0.463													31	43	---	---	---	---	PASS	C	56230412	C	C	56230412	3	2	27	1	0	0	0	0	1	0	0	0	11177	1493	52	5	468	5	OR5M9	11	56230412	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	388	56230412	78776104	248	11779										
OR5M1	390168	broad.mit.edu	37	chr11	56380693	56380693	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aagacactgtgtgaagcatcCagcgtaggagatggtcttct	12	8	2	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:56380693C>A	uc001nja.1	-	1	286	c.286G>T	c.(286-288)GGA>TGA	p.G96*		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						GTGAAGCATCCAGCGTAGGAG	0.463													14	43	---	---	---	---	PASS	A	56380693	A	A	56380693	4	1	27	1	0	0	0	0	0	1	0	0	11172	603	21	3	665	3	OR5M1	11	56380693	Nonsense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	150281	56380693	78625823	249	11780										
SLC43A1	8501	broad.mit.edu	37	chr11	57268684	57268684	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atgaggatccccagtggcagGgtggtggcgctgagcacgaa	17	9	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:57268684G>C	uc001nkk.2	-	3	391	c.273C>G	c.(271-273)ACC>ACG	p.T91T	SLC43A1_uc001nkl.2_Silent_p.T91T	NM_003627	NP_003618	O75387	LAT3_HUMAN	solute carrier family 43, member 1	91	Helical; (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	neutral amino acid transmembrane transporter activity				0						CCAGTGGCAGGGTGGTGGCGC	0.662													21	25	---	---	---	---	PASS	C	57268684	C	C	57268684	2	2	27	1	0	0	0	0	0	0	0	1	14632	1219	43	4		4	SLC43A1	11	57268684	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	887991	57268684	77737832	250	11781										
OR9I1	219954	broad.mit.edu	37	chr11	57886380	57886380	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttcagcaggggtgggaggtcAcagaagaagaagtttatttg	15	4	2	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:57886380A>C	uc001nml.1	-	1	537	c.537T>G	c.(535-537)TGT>TGG	p.C179W	OR9Q1_uc001nmj.2_Intron	NM_001005211	NP_001005211	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I,	179	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Breast(21;0.0589)				GTGGGAGGTCACAGAAGAAGA	0.493													9	16	---	---	---	---	PASS	C	57886380	C	C	57886380	3	2	27	1	0	0	0	0	1	0	0	0	11253	157	6	5	411	5	OR9I1	11	57886380	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	617696	57886380	77120136	251	11782										
MS4A4A	51338	broad.mit.edu	37	chr11	60068526	60068526	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aggaattagaactacaaaagGcctggtgagtaatattttct	9	5	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:60068526G>C	uc001noz.2	+	4	393	c.383G>C	c.(382-384)GGC>GCC	p.G128A	MS4A4A_uc001npa.2_Missense_Mutation_p.G109A|MS4A4A_uc001npb.2_Missense_Mutation_p.G109A|MS4A4A_uc001npc.2_Missense_Mutation_p.G109A	NM_148975	NP_683876	Q96JQ5	M4A4A_HUMAN	membrane-spanning 4-domains, subfamily A, member	128	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						ACTACAAAAGGCCTGGTGAGT	0.303													4	19	---	---	---	---	PASS	C	60068526	C	C	60068526	3	2	27	1	0	0	0	0	1	0	0	0	9862	1203	42	4	397	4	MS4A4A	11	60068526	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2182146	60068526	74937990	252	11783										
SLC22A6	9356	broad.mit.edu	37	chr11	62749475	62749475	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cgtgtgtgaatgggcatccaCtccacatctggaaagagggt	13	9	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:62749475C>A	uc001nwk.2	-	4	943	c.636G>T	c.(634-636)GAG>GAT	p.E212D	SLC22A6_uc001nwl.2_Missense_Mutation_p.E212D|SLC22A6_uc001nwj.2_Missense_Mutation_p.E212D|SLC22A6_uc001nwm.2_Missense_Mutation_p.E212D	NM_004790	NP_004781	Q4U2R8	S22A6_HUMAN	solute carrier family 22 member 6 isoform a	212	Helical; (Potential).				alpha-ketoglutarate transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|protein binding				0						TGGGCATCCACTCCACATCTG	0.597													4	8	---	---	---	---	PASS	A	62749475	A	A	62749475	3	1	27	1	0	0	0	0	1	0	0	0	14458	564	20	3	1083	3	SLC22A6	11	62749475	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2680949	62749475	72257041	253	11784										
PC	5091	broad.mit.edu	37	chr11	66617769	66617769	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aacttggagccaagccccatGctgtgggcctggaagtgcag	14	11	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:66617769G>A	uc001ojn.1	-	17	2689	c.2640C>T	c.(2638-2640)AGC>AGT	p.S880S	PC_uc001ojo.1_Silent_p.S880S|PC_uc001ojp.1_Silent_p.S880S|PC_uc001ojm.1_5'Flank	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	880					gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	CAAGCCCCATGCTGTGGGCCT	0.592													18	32	---	---	---	---	PASS	A	66617769	A	A	66617769	2	1	27	1	0	0	0	0	0	0	0	1	11497	1310	46	3		3	PC	11	66617769	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	3868294	66617769	68388747	254	11785										
SESN3	143686	broad.mit.edu	37	chr11	94963997	94963997	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gagcaggtagttggcggcggCcgacgggctgccgccgcccc	18	15	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:94963997C>T	uc001pfk.1	-	1	250	c.28G>A	c.(28-30)GCC>ACC	p.A10T	SESN3_uc010rug.1_Intron|SESN3_uc001pfl.2_Missense_Mutation_p.A10T	NM_144665	NP_653266	P58005	SESN3_HUMAN	sestrin 3	10					cell cycle arrest	nucleus					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.234)		TTGGCGGCGGCCGACGGGCTG	0.751													14	10	---	---	---	---	PASS	T	94963997	T	T	94963997	3	4	27	1	0	0	0	0	1	0	0	0	14126	739	26	3	1490	3	SESN3	11	94963997	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	28346228	94963997	40042519	255	11786										
APOA5	116519	broad.mit.edu	37	chr11	116661392	116661392	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gaagagctctttgaagcggcCggtgtggtgcaccacgcggc	16	11	1	2	rs2075291	byFrequency	TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:116661392C>T	uc001ppr.2	-	3	561	c.553G>A	c.(553-555)GGC>AGC	p.G185S	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Missense_Mutation_p.G185S|APOA5_uc009yzf.2_Missense_Mutation_p.G185S|APOA5_uc009yzg.2_Missense_Mutation_p.G211S	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	185					acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		TTGAAGCGGCCGGTGTGGTGC	0.692													14	18	---	---	---	---	PASS	T	116661392	T	T	116661392	3	4	27	1	0	0	0	0	1	0	0	0	784	652	23	1	551	1	APOA5	11	116661392	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	21697395	116661392	18345124	256	11787										
SIK3	23387	broad.mit.edu	37	chr11	116717266	116717266	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gacctcccaggcttgccccaCattctgcaagaccaaaaaga	7	15	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:116717266C>A	uc001ppy.2	-	23	3674	c.3638G>T	c.(3637-3639)TGT>TTT	p.C1213F	SIK3_uc001ppz.2_Missense_Mutation_p.C1052F|SIK3_uc001pqa.2_Missense_Mutation_p.C1153F|SIK3_uc001ppw.2_Missense_Mutation_p.C570F|SIK3_uc001ppx.2_Missense_Mutation_p.C591F	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	1213						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						GCTTGCCCCACATTCTGCAAG	0.522													13	23	---	---	---	---	PASS	A	116717266	A	A	116717266	3	1	27	1	0	0	0	0	1	0	0	0	14319	478	17	3	157	3	SIK3	11	116717266	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	55874	116717266	18289250	257	11788										
CBL	867	broad.mit.edu	37	chr11	119103223	119103223	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ccaccttatatcttagacctGctaccagatacctaccagca	4	15	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:119103223G>A	uc001pwe.2	+	2	399	c.261G>A	c.(259-261)CTG>CTA	p.L87L		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral	87	Cbl-PTB.|4H.				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		TCTTAGACCTGCTACCAGATA	0.438									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome				7	33	---	---	---	---	PASS	A	119103223	A	A	119103223	2	1	27	1	0	0	0	0	0	0	0	1	2700	1306	46	3		3	CBL	11	119103223	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	2385957	119103223	15903293	258	11789										
CBL	867	broad.mit.edu	37	chr11	119149393	119149393	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gaacgagctgatgatactctCttcatgatgaaggaattggc	11	7	2	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:119149393C>A	uc001pwe.2	+	9	1539	c.1401C>A	c.(1399-1401)CTC>CTA	p.L467L		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral	467	Asp/Glu-rich (acidic).				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding	p.E366_K477del(1)		haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		ATGATACTCTCTTCATGATGA	0.463									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome				3	39	---	---	---	---	PASS	A	119149393	A	A	119149393	2	1	27	1	0	0	0	0	0	0	0	1	2700	900	32	2		2	CBL	11	119149393	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	46170	119149393	15857123	259	11790										
OR4D5	219875	broad.mit.edu	37	chr11	123810823	123810823	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgcattgactatccagctgcCattctgtgggcctgacaagc	10	12	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:123810823C>A	uc001pzk.1	+	1	500	c.500C>A	c.(499-501)CCA>CAA	p.P167Q		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		ATCCAGCTGCCATTCTGTGGG	0.478													15	50	---	---	---	---	PASS	A	123810823	A	A	123810823	3	1	27	1	0	0	0	0	1	0	0	0	11057	594	21	3	502	3	OR4D5	11	123810823	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	4661430	123810823	11195693	260	11791										
ST14	6768	broad.mit.edu	37	chr11	130079677	130079677	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caggcgtgtacacaaggctcCctctgtttcgggactggatc	12	12	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:130079677C>G	uc001qfw.2	+	19	2720	c.2527C>G	c.(2527-2529)CCT>GCT	p.P843A		NM_021978	NP_068813	Q9Y5Y6	ST14_HUMAN	matriptase	843	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(2)|skin(2)|central_nervous_system(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000602)|Breast(109;0.000962)|all_lung(97;0.00126)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0183)|Lung(977;0.228)	Urokinase(DB00013)	CACAAGGCTCCCTCTGTTTCG	0.637													20	23	---	---	---	---	PASS	G	130079677	G	G	130079677	3	3	27	1	0	0	0	0	1	0	0	0	15210	623	22	4	2601	4	ST14	11	130079677	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	6268854	130079677	4926839	261	11792										
OPCML	4978	broad.mit.edu	37	chr11	132812855	132812855	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctccccctgccggaccgtcaCgttgtccatagctttgggga	11	15	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:132812855C>A	uc001qgs.2	-	1	183	c.133G>T	c.(133-135)GTG>TTG	p.V45L	OPCML_uc001qgu.2_Missense_Mutation_p.V38L|OPCML_uc010sck.1_Missense_Mutation_p.V45L|OPCML_uc001qgt.2_Missense_Mutation_p.V45L|OPCML_uc010scl.1_Missense_Mutation_p.V4L	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	45	Ig-like C2-type 1.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		CGGACCGTCACGTTGTCCATA	0.662													12	49	---	---	---	---	PASS	A	132812855	A	A	132812855	3	1	27	1	0	0	0	0	1	0	0	0	10874	536	19	1	932	1	OPCML	11	132812855	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2733178	132812855	2193661	262	11793										
IGSF9B	22997	broad.mit.edu	37	chr11	133790758	133790758	+	Frame_Shift_Del	DEL	C	-	-													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aagggccggggggcagggggCcgggcctggcctgtggcctg							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr11:133790758delC	uc001qgx.3	-	18	3093	c.2862delG	c.(2860-2862)CGGfs	p.R954fs		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	954	Pro-rich.|Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		GGGCAGGGGGCCGGGCCTGGC	0.706													19	13	---	---	---	---		-	133790758	-	-	133790758	7	5	27	1	0	1	0	1	0	0	0	0	7606	726	26	0	1195	0	IGSF9B	11	133790758	Frame_Shift_Del	DEL	C	TCGA-21-5786-01A-01D-1632-08	977903	133790758	1215758	263	11794										
WNT5B	81029	broad.mit.edu	37	chr12	1749057	1749057	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caaggagtttgtggatgcccGggagcgagagaagaactttg	16	6	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:1749057G>T	uc009zdq.2	+	4	778	c.536G>T	c.(535-537)CGG>CTG	p.R179L	WNT5B_uc001qjj.2_Missense_Mutation_p.R179L|WNT5B_uc001qjk.2_Missense_Mutation_p.R179L|WNT5B_uc001qjl.2_Missense_Mutation_p.R179L	NM_032642	NP_116031	Q9H1J7	WNT5B_HUMAN	wingless-type MMTV integration site family,	179					angiogenesis|anterior/posterior pattern formation|cell migration involved in gastrulation|cellular response to retinoic acid|chondrocyte differentiation|convergent extension involved in axis elongation|convergent extension involved in gastrulation|dorsal/ventral axis specification|endocrine pancreas development|fat cell differentiation|lens fiber cell development|negative regulation of canonical Wnt receptor signaling pathway|neuron differentiation|positive regulation of cell migration|positive regulation of fat cell differentiation|respiratory system development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding			skin(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00109)			GTGGATGCCCGGGAGCGAGAG	0.647													29	33	---	---	---	---	PASS	T	1749057	T	T	1749057	3	4	27	1	0	0	0	0	1	0	0	0	17389	1116	39	1	546	1	WNT5B	12	1749057	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08		1749057	132102838	264	11795										
ITFG2	55846	broad.mit.edu	37	chr12	2933282	2933282	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	acgacctccctgtgactcgtGccctgcttcaccaaacgctc	7	18	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:2933282G>T	uc001qlb.1	+	12	1331	c.1267G>T	c.(1267-1269)GCC>TCC	p.A423S	ITFG2_uc010seb.1_Missense_Mutation_p.A246S|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	423											0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			TGTGACTCGTGCCCTGCTTCA	0.602													62	76	---	---	---	---	PASS	T	2933282	T	T	2933282	3	4	27	1	0	0	0	0	1	0	0	0	7870	1319	46	3	1313	3	ITFG2	12	2933282	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1184225	2933282	130918613	265	11796										
AKAP3	10566	broad.mit.edu	37	chr12	4736244	4736244	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggttcagggctctggtcacgCttgaaaatggtctcactaag	12	9	4	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:4736244C>A	uc001qnb.3	-	4	2053	c.1824G>T	c.(1822-1824)AAG>AAT	p.K608N		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	608					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						TCTGGTCACGCTTGAAAATGG	0.478													11	156	---	---	---	---	PASS	A	4736244	A	A	4736244	3	1	27	1	0	0	0	0	1	0	0	0	452	796	28	3	745	3	AKAP3	12	4736244	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	1802962	4736244	129115651	266	11797										
ANO2	57101	broad.mit.edu	37	chr12	5708742	5708742	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtttcgaatgggcagagtcaGtttctccagcttcggtctca	11	10	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:5708742G>C	uc001qnm.2	-	21	2213	c.2141C>G	c.(2140-2142)ACT>AGT	p.T714S		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	719	Extracellular (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						GGCAGAGTCAGTTTCTCCAGC	0.453													29	147	---	---	---	---	PASS	C	5708742	C	C	5708742	3	2	27	1	0	0	0	0	1	0	0	0	697	1029	36	4	879	4	ANO2	12	5708742	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	972498	5708742	128143153	267	11798										
VWF	7450	broad.mit.edu	37	chr12	6085427	6085427	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtgcttcggtggacacacacCtgtagacataagttttcgtg	11	9	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:6085427C>T	uc001qnn.1	-	43	7538	c.7288_splice	c.e43-1	p.V2430_splice	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein						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)	GGACACACACCTGTAGACATA	0.378													44	63	---	---	---	---	PASS	T	6085427	T	T	6085427	5	4	27	1	0	0	0	0	0	0	1	0	17243	695	24	3	1194	3	VWF	12	6085427	Splice_Site	SNP	C	TCGA-21-5786-01A-01D-1632-08	376685	6085427	127766468	268	11799										
A2ML1	144568	broad.mit.edu	37	chr12	9016433	9016433	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aaacctactccatcatcgaaCgccagcccttggtctgagcc	7	16	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:9016433C>A	uc001quz.3	+	29	3644	c.3546C>A	c.(3544-3546)AAC>AAA	p.N1182K	A2ML1_uc001qva.1_Missense_Mutation_p.N762K|A2ML1_uc010sgm.1_Missense_Mutation_p.N682K	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	1026						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						CATCATCGAACGCCAGCCCTT	0.483													51	75	---	---	---	---	PASS	A	9016433	A	A	9016433	3	1	27	1	0	0	0	0	1	0	0	0	5	535	19	1	3660	1	A2ML1	12	9016433	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2931006	9016433	124835462	269	11800										
MANSC1	54682	broad.mit.edu	37	chr12	12483101	12483101	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aaagagcagggacccgataaGaagccatttttcaaatggaa	10	7	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:12483101G>C	uc001rai.1	-	4	1414	c.1156C>G	c.(1156-1158)CTT>GTT	p.L386V	MANSC1_uc010shm.1_Missense_Mutation_p.L320V|MANSC1_uc001raj.1_Missense_Mutation_p.L352V|MANSC1_uc009zht.1_Missense_Mutation_p.L305V	NM_018050	NP_060520	Q9H8J5	MANS1_HUMAN	MANSC domain containing 1 precursor	386	Helical; (Potential).					integral to membrane					0		Prostate(47;0.0865)		BRCA - Breast invasive adenocarcinoma(232;0.185)		GACCCGATAAGAAGCCATTTT	0.527													41	63	---	---	---	---	PASS	C	12483101	C	C	12483101	3	2	27	1	0	0	0	0	1	0	0	0	9224	942	33	2	143	2	MANSC1	12	12483101	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	3466668	12483101	121368794	270	11801										
GRIN2B	2904	broad.mit.edu	37	chr12	13768106	13768106	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gacaccatgacactgatgccTgtctctatgaagggcacaga	10	11	1	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:13768106T>A	uc001rbt.2	-	7	1775	c.1596A>T	c.(1594-1596)ACA>ACT	p.T532T		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	532	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CACTGATGCCTGTCTCTATGA	0.512													73	94	---	---	---	---	PASS	A	13768106	A	A	13768106	2	1	27	1	0	0	0	0	0	0	0	1	6780	1567	55	5		5	GRIN2B	12	13768106	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	1285005	13768106	120083789	271	11802										
RERGL	79785	broad.mit.edu	37	chr12	18234228	18234228	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgagtttgaagtttatcaggAtgtccttgataattctgata	9	4	2	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:18234228A>G	uc001rdq.2	-	6	709	c.515T>C	c.(514-516)ATC>ACC	p.I172T	RERGL_uc001rdr.2_Missense_Mutation_p.I171T	NM_024730	NP_079006	Q9H628	RERGL_HUMAN	RERG/RAS-like	172	Small GTPase-like.				signal transduction	membrane	GTP binding|GTPase activity				0						GTTTATCAGGATGTCCTTGAT	0.398													44	80	---	---	---	---	PASS	G	18234228	G	G	18234228	3	3	27	1	0	0	0	0	1	0	0	0	13233	333	12	5	106	5	RERGL	12	18234228	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	4466122	18234228	115617667	272	11803										
RERGL	79785	broad.mit.edu	37	chr12	18241849	18241849	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cttaccaaaattagaagcatAttctccaatgaatcgcttag	5	9	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:18241849A>T	uc001rdq.2	-	3	291	c.97T>A	c.(97-99)TAT>AAT	p.Y33N	RERGL_uc001rdr.2_Missense_Mutation_p.Y32N	NM_024730	NP_079006	Q9H628	RERGL_HUMAN	RERG/RAS-like	33	Small GTPase-like.				signal transduction	membrane	GTP binding|GTPase activity				0						TTAGAAGCATATTCTCCAATG	0.328													50	87	---	---	---	---	PASS	T	18241849	T	T	18241849	3	4	27	1	0	0	0	0	1	0	0	0	13233	449	16	5	536	5	RERGL	12	18241849	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	7621	18241849	115610046	273	11804										
SLCO1B3	28234	broad.mit.edu	37	chr12	21243002	21243002	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caaacttagaattcttaaacGacagtgaacattttgtacct	5	8	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:21243002G>A	uc010sil.1	+	16	2274	c.2209G>A	c.(2209-2211)GAC>AAC	p.D737N	LST-3TM12_uc010sim.1_Missense_Mutation_p.D676N|LST-3TM12_uc010sin.1_Missense_Mutation_p.D629N			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					ATTCTTAAACGACAGTGAACA	0.303													9	23	---	---	---	---	PASS	A	21243002	A	A	21243002	3	1	27	1	0	0	0	0	1	0	0	0	14724	1058	37	2		2	SLCO1B3	12	21243002	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	3001153	21243002	112608893	274	11805										
SLCO1B1	10599	broad.mit.edu	37	chr12	21349910	21349910	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gataactcctactgattctcGatgggttggagcttggtggc	13	8	1	1	rs11045853	byFrequency	TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:21349910G>C	uc001req.3	+	8	862	c.758G>C	c.(757-759)CGA>CCA	p.R253P		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	253	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	ACTGATTCTCGATGGGTTGGA	0.363													81	120	---	---	---	---	PASS	C	21349910	C	C	21349910	3	2	27	1	0	0	0	0	1	0	0	0	14723	1058	37	2	784	2	SLCO1B1	12	21349910	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	106908	21349910	112501985	275	11806										
KLHDC5	57542	broad.mit.edu	37	chr12	27950953	27950953	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tctacatcatgagcagagacGtcaccctgtcgaccagcttg	9	13	3	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:27950953G>T	uc001rij.2	+	3	1449	c.1372G>T	c.(1372-1374)GTC>TTC	p.V458F	KLHDC5_uc009zjj.2_RNA	NM_020782	NP_065833	Q9P2K6	KLDC5_HUMAN	kelch domain containing 5	458	Kelch 6.									ovary(1)|central_nervous_system(1)	2	Lung SC(9;0.0873)					GAGCAGAGACGTCACCCTGTC	0.498													52	68	---	---	---	---	PASS	T	27950953	T	T	27950953	3	4	27	1	0	0	0	0	1	0	0	0	8359	1145	40	1	1382	1	KLHDC5	12	27950953	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	6601043	27950953	105900942	276	11807										
ADAMTS20	80070	broad.mit.edu	37	chr12	43822445	43822445	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	taagaatacttacgggtgacCaatcccctgcttgccactct	7	13	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:43822445C>A	uc010skx.1	-	25	3647	c.3647G>T	c.(3646-3648)TGG>TTG	p.W1216L	ADAMTS20_uc001rno.1_Missense_Mutation_p.W334L|ADAMTS20_uc001rnp.1_Missense_Mutation_p.W370L	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1216	TSP type-1 8.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TACGGGTGACCAATCCCCTGC	0.333													3	12	---	---	---	---	PASS	A	43822445	A	A	43822445	3	1	27	1	0	0	0	0	1	0	0	0	266	595	21	3	2144	3	ADAMTS20	12	43822445	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	15871492	43822445	90029450	277	11808										
ADAMTS20	80070	broad.mit.edu	37	chr12	43860456	43860456	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttaacataaatttacttactCtaggaattcagtaacatatt	3	6	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:43860456C>A	uc010skx.1	-	9	1366	c.1366G>T	c.(1366-1368)GAT>TAT	p.D456Y		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	456	Peptidase M12B.			D -> E (in Ref. 2; CAD56159/CAD56160).		proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TTTACTTACTCTAGGAATTCA	0.308													7	31	---	---	---	---	PASS	A	43860456	A	A	43860456	3	1	27	1	0	0	0	0	1	0	0	0	266	927	32	2	4489	2	ADAMTS20	12	43860456	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	38011	43860456	89991439	278	11809										
ENDOU	8909	broad.mit.edu	37	chr12	48107147	48107147	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgttcttcaagtcatcgacaAactcttgctctgagccatag	7	11	5	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:48107147A>G	uc001rpu.1	-	7	930	c.776T>C	c.(775-777)TTT>TCT	p.F259S	ENDOU_uc010sll.1_Missense_Mutation_p.F25S|ENDOU_uc001rpt.1_Missense_Mutation_p.F218S|ENDOU_uc010slm.1_Missense_Mutation_p.F196S	NM_006025	NP_006016	P21128	ENDOU_HUMAN	placental protein 11 precursor	259					female pregnancy|immune response|proteolysis	cytoplasm|extracellular space|plasma membrane	endoribonuclease activity|growth factor activity|manganese ion binding|polysaccharide binding|RNA binding|scavenger receptor activity|serine-type peptidase activity			ovary(2)|pancreas(1)	3						GTCATCGACAAACTCTTGCTC	0.522													27	86	---	---	---	---	PASS	G	48107147	G	G	48107147	3	3	27	1	0	0	0	0	1	0	0	0	5116	14	1	5	472	5	ENDOU	12	48107147	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	4246691	48107147	85744748	279	11810										
AMHR2	269	broad.mit.edu	37	chr12	53823386	53823386	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cctggacccctactcaaccaCaaggcccagctgccatcatg	7	18	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:53823386C>T	uc001scx.1	+	8	1195	c.1117C>T	c.(1117-1119)CAA>TAA	p.Q373*	AMHR2_uc009zmy.1_Nonsense_Mutation_p.Q373*	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	373	Cytoplasmic (Potential).|Protein kinase.				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	TACTCAACCACAAGGCCCAGC	0.577									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				4	18	---	---	---	---	PASS	T	53823386	T	T	53823386	4	4	27	1	0	0	0	0	0	1	0	0	573	479	17	3	1147	3	AMHR2	12	53823386	Nonsense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	5716239	53823386	80028509	280	11811										
NCKAP1L	3071	broad.mit.edu	37	chr12	54920461	54920461	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttccagagtcatccgcaacgCcctcctgcagcagacacaac	7	17	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:54920461C>T	uc001sgc.3	+	21	2385	c.2306C>T	c.(2305-2307)GCC>GTC	p.A769V	NCKAP1L_uc010sox.1_Missense_Mutation_p.A311V|NCKAP1L_uc010soy.1_Missense_Mutation_p.A719V	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	769				NA -> KP (in Ref. 1; AAA35964).	actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						ATCCGCAACGCCCTCCTGCAG	0.517													6	28	---	---	---	---	PASS	T	54920461	T	T	54920461	3	4	27	1	0	0	0	0	1	0	0	0	10222	739	26	3	2388	3	NCKAP1L	12	54920461	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	1097075	54920461	78931434	281	11812										
LRP1	4035	broad.mit.edu	37	chr12	57587745	57587745	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctgcatcgggaactccagccGctgcaaccagtttgtggatt	11	12	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:57587745G>T	uc001snd.2	+	48	8334	c.7868G>T	c.(7867-7869)CGC>CTC	p.R2623L	MIR1228_hsa-mir-1228|MI0006318_5'Flank	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	2623	LDL-receptor class A 13.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	AACTCCAGCCGCTGCAACCAG	0.622													4	31	---	---	---	---	PASS	T	57587745	T	T	57587745	3	4	27	1	0	0	0	0	1	0	0	0	8951	1087	38	1	8058	1	LRP1	12	57587745	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2667284	57587745	76264150	282	11813										
MON2	23041	broad.mit.edu	37	chr12	62946856	62946856	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aactatgtgtggatccccgtCctgctgtcaggaagagtgca	12	10	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:62946856C>A	uc001sre.2	+	24	3503	c.3112C>A	c.(3112-3114)CCT>ACT	p.P1038T	MON2_uc009zqj.2_Missense_Mutation_p.P1038T|MON2_uc010ssl.1_Missense_Mutation_p.P966T|MON2_uc010ssm.1_Missense_Mutation_p.P1015T|MON2_uc010ssn.1_Missense_Mutation_p.P1038T|MON2_uc001srf.2_Missense_Mutation_p.P801T	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	1039					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		GGATCCCCGTCCTGCTGTCAG	0.458													20	102	---	---	---	---	PASS	A	62946856	A	A	62946856	3	1	27	1	0	0	0	0	1	0	0	0	9700	855	30	2	3206	2	MON2	12	62946856	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	5359111	62946856	70905039	283	11814										
ZFC3H1	196441	broad.mit.edu	37	chr12	72056843	72056843	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agctctgactgctgctgaacCcggatcctgctcctcctccc	8	18	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:72056843C>A	uc001swo.2	-	1	907	c.548G>T	c.(547-549)GGG>GTG	p.G183V	ZFC3H1_uc010sts.1_Missense_Mutation_p.G183V|ZFC3H1_uc001swp.2_Missense_Mutation_p.G183V|THAP2_uc001swq.2_5'Flank	NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	183					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						GCTGCTGAACCCGGATCCTGC	0.642													67	91	---	---	---	---	PASS	A	72056843	A	A	72056843	3	1	27	1	0	0	0	0	1	0	0	0	17630	623	22	3	5561	3	ZFC3H1	12	72056843	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	9109987	72056843	61795052	284	11815										
TRHDE	29953	broad.mit.edu	37	chr12	72956818	72956818	+	Frame_Shift_Del	DEL	C	-	-													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcacttaaacttcagaataaCaggtatgacattctttttta							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:72956818delC	uc001sxa.2	+	9	1935	c.1905delC	c.(1903-1905)AACfs	p.N635fs		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	635	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TTCAGAATAACAGGTATGACA	0.264													80	46	---	---	---	---		-	72956818	-	-	72956818	7	5	27	1	0	1	0	1	0	0	0	0	16476	477	17	0	1939	0	TRHDE	12	72956818	Frame_Shift_Del	DEL	C	TCGA-21-5786-01A-01D-1632-08	899975	72956818	60895077	285	11816										
SYT1	6857	broad.mit.edu	37	chr12	79611379	79611379	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgttctgccaagcaacgccaCagagccagccagtcctggag	11	14	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:79611379C>G	uc001sys.2	+	5	751	c.80C>G	c.(79-81)ACA>AGA	p.T27R	SYT1_uc001syt.2_Missense_Mutation_p.T27R|SYT1_uc001syu.2_Missense_Mutation_p.T27R|SYT1_uc001syv.2_Missense_Mutation_p.T27R	NM_001135805	NP_001129277	P21579	SYT1_HUMAN	synaptotagmin I	27	Vesicular (Potential).				detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6						AGCAACGCCACAGAGCCAGCC	0.493													7	30	---	---	---	---	PASS	G	79611379	G	G	79611379	3	3	27	1	0	0	0	0	1	0	0	0	15462	478	17	4	82	4	SYT1	12	79611379	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	6654561	79611379	54240516	286	11817										
MYF6	4618	broad.mit.edu	37	chr12	81101699	81101699	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	catgtcctggcgcccccgggCctgcagcctccacactgccc	10	21	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:81101699C>A	uc001szf.1	+	1	254	c.201C>A	c.(199-201)GGC>GGA	p.G67G		NM_002469	NP_002460	P23409	MYF6_HUMAN	myogenic factor 6	67					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						CGCCCCCGGGCCTGCAGCCTC	0.652													12	33	---	---	---	---	PASS	A	81101699	A	A	81101699	2	1	27	1	0	0	0	0	0	0	0	1	10028	726	26	3		3	MYF6	12	81101699	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	1490320	81101699	52750196	287	11818										
C12orf50	160419	broad.mit.edu	37	chr12	88376963	88376963	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aatcattatatgatgttgacGtatatttgtctgagggaaaa	9	3	2	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:88376963G>A	uc001tam.1	-	12	1304	c.1136C>T	c.(1135-1137)ACG>ATG	p.T379M		NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	379										skin(2)|ovary(1)	3						TGATGTTGACGTATATTTGTC	0.294													28	44	---	---	---	---	PASS	A	88376963	A	A	88376963	3	1	27	1	0	0	0	0	1	0	0	0	1695	1145	40	1	116	1	C12orf50	12	88376963	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	7275264	88376963	45474932	288	11819										
C12orf12	196477	broad.mit.edu	37	chr12	91347960	91347960	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgatgaattgggtggtgttgGgcggcgctcgcatgccaggc	18	8	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:91347960G>T	uc001tbj.2	-	1	994	c.560C>A	c.(559-561)CCC>CAC	p.P187H		NM_152638	NP_689851	Q8TC90	CL012_HUMAN	hypothetical protein LOC196477	187										central_nervous_system(1)|pancreas(1)	2						GGTGGTGTTGGGCGGCGCTCG	0.657													16	67	---	---	---	---	PASS	T	91347960	T	T	91347960	3	4	27	1	0	0	0	0	1	0	0	0	1676	1232	43	3	664	3	C12orf12	12	91347960	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2970997	91347960	42503935	289	11820										
GLT8D2	83468	broad.mit.edu	37	chr12	104390537	104390537	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agtcccacgagtctgtttatGtcctgagcagagggcaaatc	11	10	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:104390537G>A	uc001tkh.1	-	8	982	c.576C>T	c.(574-576)GAC>GAT	p.D192D	GLT8D2_uc001tki.1_Silent_p.D192D	NM_031302	NP_112592	Q9H1C3	GL8D2_HUMAN	glycosyltransferase 8 domain containing 2	192	Lumenal (Potential).					integral to membrane	transferase activity, transferring glycosyl groups			ovary(1)|skin(1)	2						GTCTGTTTATGTCCTGAGCAG	0.522													13	57	---	---	---	---	PASS	A	104390537	A	A	104390537	2	1	27	1	0	0	0	0	0	0	0	1	6470	1368	48	3		3	GLT8D2	12	104390537	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	13042577	104390537	29461358	290	11821										
ATP2A2	488	broad.mit.edu	37	chr12	110780213	110780213	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	acaacaacatgaaacagttcAtccgctacctcatctcgtcc	4	15	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:110780213A>C	uc001tqk.3	+	15	2841	c.2278A>C	c.(2278-2280)ATC>CTC	p.I760L	ATP2A2_uc001tql.3_Missense_Mutation_p.I760L|ATP2A2_uc010sxy.1_Missense_Mutation_p.I733L	NM_170665	NP_733765	P16615	AT2A2_HUMAN	ATPase, Ca++ transporting, slow twitch 2 isoform	760	Helical; Name=5; (By similarity).				ATP biosynthetic process|cell adhesion|epidermis development|platelet activation|sarcoplasmic reticulum calcium ion transport	integral to plasma membrane|microsome|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|protein C-terminus binding|S100 alpha binding			ovary(3)|skin(1)	4						GAAACAGTTCATCCGCTACCT	0.522													3	24	---	---	---	---	PASS	C	110780213	C	C	110780213	3	2	27	1	0	0	0	0	1	0	0	0	1137	217	8	5	2336	5	ATP2A2	12	110780213	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	6389676	110780213	23071682	291	11822										
ATP2A2	488	broad.mit.edu	37	chr12	110780229	110780229	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gttcatccgctacctcatctCgtccaacgtcggggaagttg	10	13	3	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:110780229C>T	uc001tqk.3	+	15	2857	c.2294C>T	c.(2293-2295)TCG>TTG	p.S765L	ATP2A2_uc001tql.3_Missense_Mutation_p.S765L|ATP2A2_uc010sxy.1_Missense_Mutation_p.S738L	NM_170665	NP_733765	P16615	AT2A2_HUMAN	ATPase, Ca++ transporting, slow twitch 2 isoform	765	Helical; Name=5; (By similarity).		S -> L (in DD).		ATP biosynthetic process|cell adhesion|epidermis development|platelet activation|sarcoplasmic reticulum calcium ion transport	integral to plasma membrane|microsome|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|protein C-terminus binding|S100 alpha binding			ovary(3)|skin(1)	4						TACCTCATCTCGTCCAACGTC	0.522													3	16	---	---	---	---	PASS	T	110780229	T	T	110780229	3	4	27	1	0	0	0	0	1	0	0	0	1137	893	31	2	2352	2	ATP2A2	12	110780229	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	16	110780229	23071666	292	11823										
OAS2	4939	broad.mit.edu	37	chr12	113444232	113444232	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgccaggtcagctgagttctGgctccacacccagccccgag	11	16	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:113444232G>A	uc001tuj.2	+	8	1623	c.1483G>A	c.(1483-1485)GGC>AGC	p.G495S	OAS2_uc001tui.1_Missense_Mutation_p.G495S	NM_016817	NP_058197	P29728	OAS2_HUMAN	2'-5'-oligoadenylate synthetase 2 isoform 1	495	OAS domain 2.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|membrane|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(1)	1						GCTGAGTTCTGGCTCCACACC	0.448													22	32	---	---	---	---	PASS	A	113444232	A	A	113444232	3	1	27	1	0	0	0	0	1	0	0	0	10800	1348	47	3	1584	3	OAS2	12	113444232	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2664003	113444232	20407663	293	11824										
TMEM132B	114795	broad.mit.edu	37	chr12	126138840	126138840	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtgagcagggcaacatccccCattcccacgactgggtctgg	12	14	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr12:126138840C>T	uc001uhe.1	+	9	2829	c.2821C>T	c.(2821-2823)CAT>TAT	p.H941Y	TMEM132B_uc001uhf.1_Missense_Mutation_p.H453Y	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	941	Cytoplasmic (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		CAACATCCCCCATTCCCACGA	0.502													12	42	---	---	---	---	PASS	T	126138840	T	T	126138840	3	4	27	1	0	0	0	0	1	0	0	0	16043	594	21	3	2855	3	TMEM132B	12	126138840	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	12694608	126138840	7713055	294	11825										
TPTE2	93492	broad.mit.edu	37	chr13	20038618	20038618	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caattggatttctatagaaaGactgccttccagaagatgga	9	7	1	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr13:20038618G>C	uc001umd.2	-	11	930	c.719C>G	c.(718-720)TCT>TGT	p.S240C	TPTE2_uc009zzk.2_RNA|TPTE2_uc009zzl.2_Missense_Mutation_p.S129C|TPTE2_uc001ume.2_Missense_Mutation_p.S163C|TPTE2_uc009zzm.2_5'UTR|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	240	Phosphatase tensin-type.					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		TCTATAGAAAGACTGCCTTCC	0.313													27	26	---	---	---	---	PASS	C	20038618	C	C	20038618	3	2	27	1	0	0	0	0	1	0	0	0	16428	942	33	2	893	2	TPTE2	13	20038618	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08		20038618	95131260	295	11826										
FRY	10129	broad.mit.edu	37	chr13	32729647	32729647	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gagaatgaacattggtttacGggcattcttggtcatagctg	12	6	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr13:32729647G>A	uc001utx.2	+	15	1995	c.1499G>A	c.(1498-1500)CGG>CAG	p.R500Q	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	500					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		ATTGGTTTACGGGCATTCTTG	0.423													21	13	---	---	---	---	PASS	A	32729647	A	A	32729647	3	1	27	1	0	0	0	0	1	0	0	0	6063	1116	39	1	1557	1	FRY	13	32729647	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	12691029	32729647	82440231	296	11827										
MLNR	2862	broad.mit.edu	37	chr13	49794875	49794875	+	Silent	SNP	C	A	A													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cacatgaccgcgctcagcgtCgagcgctacctggccatctg							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr13:49794875C>A	uc010tgj.1	+	1	402	c.402C>A	c.(400-402)GTC>GTA	p.V134V		NM_001507	NP_001498	O43193	MTLR_HUMAN	motilin receptor	134	Helical; Name=3; (Potential).				digestion	integral to plasma membrane	growth hormone-releasing hormone receptor activity				0		all_lung(13;8.31e-06)|Lung NSC(96;0.000251)|Breast(56;0.0008)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;6.1e-09)		CGCTCAGCGTCGAGCGCTACC	0.746													7	3	---	---	---	---	PASS	A	49794875	A	A	49794875	2	1	27	1	0	0	0	0	0	0	0	1	9632	871	31	2		2	MLNR	13	49794875	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	17065228	49794875	65375003	297	11828	324	2								
MLNR	2862	broad.mit.edu	37	chr13	49794876	49794876	+	Nonsense_Mutation	SNP	G	T	T													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	acatgaccgcgctcagcgtcGagcgctacctggccatctgc							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr13:49794876G>T	uc010tgj.1	+	1	403	c.403G>T	c.(403-405)GAG>TAG	p.E135*		NM_001507	NP_001498	O43193	MTLR_HUMAN	motilin receptor	135	Cytoplasmic (Potential).				digestion	integral to plasma membrane	growth hormone-releasing hormone receptor activity				0		all_lung(13;8.31e-06)|Lung NSC(96;0.000251)|Breast(56;0.0008)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;6.1e-09)		GCTCAGCGTCGAGCGCTACCT	0.741													7	3	---	---	---	---	PASS	T	49794876	T	T	49794876	4	4	27	1	0	0	0	0	0	1	0	0	9632	1059	37	2	405	2	MLNR	13	49794876	Nonsense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1	49794876	65375002	298	11829	324	2								
INTS6	26512	broad.mit.edu	37	chr13	51963478	51963478	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctacaggggaaggatctggtCctgctttttcaaagtttatt	10	7	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr13:51963478C>A	uc001vfk.2	-	6	1330	c.716G>T	c.(715-717)GGA>GTA	p.G239V	INTS6_uc001vfj.2_Missense_Mutation_p.G226V|INTS6_uc001vfl.2_Missense_Mutation_p.G61V	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	239					snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)		AGGATCTGGTCCTGCTTTTTC	0.373													49	46	---	---	---	---	PASS	A	51963478	A	A	51963478	3	1	27	1	0	0	0	0	1	0	0	0	7782	855	30	2	1999	2	INTS6	13	51963478	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2168602	51963478	63206400	299	11830										
NEK5	341676	broad.mit.edu	37	chr13	52693542	52693542	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctttgaagcttctttttcttGtatgggcatctaaattacat	6	7	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr13:52693542G>T	uc001vge.2	-	4	267	c.127C>A	c.(127-129)CAA>AAA	p.Q43K	NEK5_uc001vgf.2_Missense_Mutation_p.Q43K	NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	43	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		TCTTTTTCTTGTATGGGCATC	0.333													14	11	---	---	---	---	PASS	T	52693542	T	T	52693542	3	4	27	1	0	0	0	0	1	0	0	0	10327	1386	48	3	2075	3	NEK5	13	52693542	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	730064	52693542	62476336	300	11831										
NALCN	259232	broad.mit.edu	37	chr13	101936327	101936327	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cctggggcttgttgacatccAcagctaccagctgccaacct	9	15	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr13:101936327A>T	uc001vox.1	-	10	1280	c.1091T>A	c.(1090-1092)GTG>GAG	p.V364E	NALCN_uc001voy.2_Missense_Mutation_p.V79E|NALCN_uc001voz.2_Missense_Mutation_p.V364E|NALCN_uc001vpa.2_Missense_Mutation_p.V364E	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	364	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GTTGACATCCACAGCTACCAG	0.458													26	7	---	---	---	---	PASS	T	101936327	T	T	101936327	3	4	27	1	0	0	0	0	1	0	0	0	10148	159	6	5	4265	5	NALCN	13	101936327	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	49242785	101936327	13233551	301	11832										
MYO16	23026	broad.mit.edu	37	chr13	109496795	109496795	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	taagcagcagtctcaggacaGcatccctgaaaaccccatga	8	13	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr13:109496795G>T	uc001vqt.1	+	10	1262	c.1136G>T	c.(1135-1137)AGC>ATC	p.S379I	MYO16_uc010agk.1_Missense_Mutation_p.S401I|MYO16_uc001vqu.1_Missense_Mutation_p.S179I	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	379					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			TCTCAGGACAGCATCCCTGAA	0.438													30	11	---	---	---	---	PASS	T	109496795	T	T	109496795	3	4	27	1	0	0	0	0	1	0	0	0	10064	971	34	3	1170	3	MYO16	13	109496795	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	7560468	109496795	5673083	302	11833										
OR4M1	441670	broad.mit.edu	37	chr14	20248696	20248696	+	Frame_Shift_Del	DEL	G	-	-													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tctggccctccttgatatttGgtactcttccattacagccc							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:20248696delG	uc010tku.1	+	1	215	c.215delG	c.(214-216)TGGfs	p.W72fs		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	72	Helical; Name=2; (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)		CTTGATATTTGGTACTCTTCC	0.428													99	128	---	---	---	---		-	20248696	-	-	20248696	7	5	27	1	0	1	0	1	0	0	0	0	11075	1357	47	0	217	0	OR4M1	14	20248696	Frame_Shift_Del	DEL	G	TCGA-21-5786-01A-01D-1632-08		20248696	87100844	303	11834										
OR4K15	81127	broad.mit.edu	37	chr14	20444238	20444238	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	accagccagttggcattcacTgttaatctgccattttgtgg	9	10	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:20444238T>C	uc010tkx.1	+	1	561	c.561T>C	c.(559-561)ACT>ACC	p.T187T		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGGCATTCACTGTTAATCTGC	0.448													101	45	---	---	---	---	PASS	C	20444238	C	C	20444238	2	2	27	1	0	0	0	0	0	0	0	1	11070	1567	55	5		5	OR4K15	14	20444238	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	195542	20444238	86905302	304	11835										
MDGA2	161357	broad.mit.edu	37	chr14	47504487	47504487	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caatggtgatttttcctgtgGaacagtcagattgggtggaa	13	5	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:47504487G>T	uc001wwj.3	-	8	1535	c.1339C>A	c.(1339-1341)CCA>ACA	p.P447T	MDGA2_uc001wwi.3_Missense_Mutation_p.P218T|MDGA2_uc010ani.2_Intron	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	447	Ig-like 5.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						TTTTCCTGTGGAACAGTCAGA	0.373													22	67	---	---	---	---	PASS	T	47504487	T	T	47504487	3	4	27	1	0	0	0	0	1	0	0	0	9407	1174	41	2	1571	2	MDGA2	14	47504487	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	27060249	47504487	59845053	305	11836										
TRIM9	114088	broad.mit.edu	37	chr14	51446186	51446186	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atgggaccttgttgttcatcGttgataaaaaatgtcaagtt	9	5	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:51446186G>T	uc001wyx.3	-	9	2754	c.1989C>A	c.(1987-1989)AAC>AAA	p.N663K	TRIM9_uc001wyy.2_Missense_Mutation_p.N744K	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	663	B30.2/SPRY.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					GTTGTTCATCGTTGATAAAAA	0.473													61	110	---	---	---	---	PASS	T	51446186	T	T	51446186	3	4	27	1	0	0	0	0	1	0	0	0	16546	1136	40	1	151	1	TRIM9	14	51446186	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	3941699	51446186	55903354	306	11837										
DACT1	51339	broad.mit.edu	37	chr14	59113158	59113158	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caccgtcagggagaaaacgcGggccgggagcaagaagtgtc	16	10	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:59113158G>T	uc001xdw.2	+	4	1981	c.1817G>T	c.(1816-1818)CGG>CTG	p.R606L	DACT1_uc010trv.1_Missense_Mutation_p.R325L|DACT1_uc001xdx.2_Missense_Mutation_p.R569L|DACT1_uc010trw.1_Missense_Mutation_p.R325L	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	606					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						GAGAAAACGCGGGCCGGGAGC	0.612													9	7	---	---	---	---	PASS	T	59113158	T	T	59113158	3	4	27	1	0	0	0	0	1	0	0	0	4222	1116	39	1	1831	1	DACT1	14	59113158	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	7666972	59113158	48236382	307	11838										
PPM1A	5494	broad.mit.edu	37	chr14	60749954	60749954	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gaaagaacgaattcagaatgCaggtggctctgtaatgattc	11	6	2	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:60749954C>T	uc010apn.2	+	3	935	c.533C>T	c.(532-534)GCA>GTA	p.A178V	PPM1A_uc001xew.3_Missense_Mutation_p.A251V|PPM1A_uc001xex.3_Missense_Mutation_p.A178V|PPM1A_uc001xey.3_Missense_Mutation_p.A178V	NM_021003	NP_066283	P35813	PPM1A_HUMAN	protein phosphatase 1A isoform 1	178					cell cycle arrest|insulin receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein dephosphorylation|Wnt receptor signaling pathway	cytosol|nucleus|protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein serine/threonine phosphatase activity|signal transducer activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.046)		ATTCAGAATGCAGGTGGCTCT	0.443													37	27	---	---	---	---	PASS	T	60749954	T	T	60749954	3	4	27	1	0	0	0	0	1	0	0	0	12335	710	25	3	758	3	PPM1A	14	60749954	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	1636796	60749954	46599586	308	11839										
PCNX	22990	broad.mit.edu	37	chr14	71455316	71455316	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcgaggaggcagtgtcatttCgccgtgaacgcagcacattt	13	10	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:71455316C>T	uc001xmo.2	+	7	2790	c.2344C>T	c.(2344-2346)CGC>TGC	p.R782C	PCNX_uc001xmn.3_Missense_Mutation_p.R782C|PCNX_uc010are.1_Intron	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	782						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)		AGTGTCATTTCGCCGTGAACG	0.557													39	50	---	---	---	---	PASS	T	71455316	T	T	71455316	3	4	27	1	0	0	0	0	1	0	0	0	11591	884	31	2	2370	2	PCNX	14	71455316	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	10705362	71455316	35894224	309	11840										
DPF3	8110	broad.mit.edu	37	chr14	73238547	73238547	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctgcgctctgcacacagccgTgagttgtaactccggcagtg	12	13	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:73238547T>G	uc001xnc.2	-	2	100	c.87A>C	c.(85-87)TCA>TCC	p.S29S	DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Silent_p.S29S|DPF3_uc010ttq.1_Silent_p.S39S	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	29					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		CACACAGCCGTGAGTTGTAAC	0.582													13	24	---	---	---	---	PASS	G	73238547	G	G	73238547	2	3	27	1	0	0	0	0	0	0	0	1	4718	1683	59	5		5	DPF3	14	73238547	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	1783231	73238547	34110993	310	11841										
YLPM1	56252	broad.mit.edu	37	chr14	75302033	75302033	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agggccataggttttgtggtCggacagactgattgggagaa	16	5	0	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:75302033C>T	uc001xqj.3	+	20	6484	c.6360C>T	c.(6358-6360)GTC>GTT	p.V2120V	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1925					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		GTTTTGTGGTCGGACAGACTG	0.438													14	39	---	---	---	---	PASS	T	75302033	T	T	75302033	2	4	27	1	0	0	0	0	0	0	0	1	17483	871	31	2		2	YLPM1	14	75302033	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	2063486	75302033	32047507	311	11842										
NRXN3	9369	broad.mit.edu	37	chr14	79432646	79432646	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ccactcttcaggcttacaccTccatgcacctcttcttccag	4	18	4	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:79432646T>A	uc001xun.2	+	9	2046	c.1555T>A	c.(1555-1557)TCC>ACC	p.S519T	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.S644T	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	892	Extracellular (Potential).|Laminin G-like 5.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GGCTTACACCTCCATGCACCT	0.498													4	72	---	---	---	---	PASS	A	79432646	A	A	79432646	3	1	27	1	0	0	0	0	1	0	0	0	10667	1551	54	5	1581	5	NRXN3	14	79432646	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	4130613	79432646	27916894	312	11843										
NRXN3	9369	broad.mit.edu	37	chr14	79434533	79434533	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caggtgatctctatatggctGgtctggcccaaggcatgtac	12	10	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:79434533G>T	uc001xun.2	+	11	2358	c.1867G>T	c.(1867-1869)GGT>TGT	p.G623C	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.G748C	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	996	Extracellular (Potential).|Laminin G-like 5.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CTATATGGCTGGTCTGGCCCA	0.473													21	26	---	---	---	---	PASS	T	79434533	T	T	79434533	3	4	27	1	0	0	0	0	1	0	0	0	10667	1348	47	3	1901	3	NRXN3	14	79434533	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1887	79434533	27915007	313	11844										
GALC	2581	broad.mit.edu	37	chr14	88454828	88454828	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ataatccaatatctgagaacGatagggctctgggtaattta	9	6	2	1	rs73312829	by1000genomes	TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:88454828G>A	uc001xvt.2	-	2	634	c.235C>T	c.(235-237)CGT>TGT	p.R79C	GALC_uc010tvx.1_Missense_Mutation_p.R53C|GALC_uc010tvy.1_Intron|GALC_uc010tvz.1_Missense_Mutation_p.R23C|GALC_uc001xvu.1_Missense_Mutation_p.R79C	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	79			R -> H (in GLD).		carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0						ATCTGAGAACGATAGGGCTCT	0.318													23	44	---	---	---	---	PASS	A	88454828	A	A	88454828	3	1	27	1	0	0	0	0	1	0	0	0	6201	1058	37	2	1949	2	GALC	14	88454828	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	9020295	88454828	18894712	314	11845										
SPATA7	55812	broad.mit.edu	37	chr14	88892720	88892720	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aagtcatcacaaatggtcctGagaagaactccagttcctcc	7	12	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:88892720G>T	uc001xwq.2	+	6	668	c.517G>T	c.(517-519)GAG>TAG	p.E173*	SPATA7_uc001xwr.2_Nonsense_Mutation_p.E141*|SPATA7_uc001xws.2_Nonsense_Mutation_p.E109*|SPATA7_uc001xwt.2_Nonsense_Mutation_p.E67*|SPATA7_uc001xwu.2_5'Flank	NM_018418	NP_060888	Q9P0W8	SPAT7_HUMAN	spermatogenesis-associated protein 7 isoform a	173					response to stimulus|visual perception					ovary(1)	1						AAATGGTCCTGAGAAGAACTC	0.498													13	53	---	---	---	---	PASS	T	88892720	T	T	88892720	4	4	27	1	0	0	0	0	0	1	0	0	15013	1291	45	2	539	2	SPATA7	14	88892720	Nonsense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	437892	88892720	18456820	315	11846										
RPS6KA5	9252	broad.mit.edu	37	chr14	91386632	91386632	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	taattcatacattagaacacCcaaactccaccagtcaactg	3	13	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:91386632C>A	uc001xys.2	-	7	939	c.724G>T	c.(724-726)GGT>TGT	p.G242C	RPS6KA5_uc010twi.1_Missense_Mutation_p.G163C|RPS6KA5_uc001xyt.2_Missense_Mutation_p.G242C|RPS6KA5_uc010att.1_RNA	NM_004755	NP_004746	O75582	KS6A5_HUMAN	ribosomal protein S6 kinase, polypeptide 5	242	Protein kinase 1.				axon guidance|epidermal growth factor receptor signaling pathway|histone phosphorylation|innate immune response|interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter|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	cytoplasm|nucleoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1		all_cancers(154;0.0148)|Melanoma(154;0.099)|all_epithelial(191;0.146)		Epithelial(152;0.182)|BRCA - Breast invasive adenocarcinoma(234;0.201)		ATTAGAACACCCAAACTCCAC	0.289													16	78	---	---	---	---	PASS	A	91386632	A	A	91386632	3	1	27	1	0	0	0	0	1	0	0	0	13654	623	22	3	1734	3	RPS6KA5	14	91386632	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2493912	91386632	15962908	316	11847										
UBR7	55148	broad.mit.edu	37	chr14	93677055	93677055	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tggaatgcaaattacttcctGtaagtaagcactgtaactat	7	7	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:93677055G>C	uc001ybm.3	+	3	581	c.345_splice	c.e3+1	p.P115_splice	UBR7_uc001ybn.3_Splice_Site_p.P39_splice|UBR7_uc010auq.2_Splice_Site	NM_175748	NP_786924	Q8N806	UBR7_HUMAN	ubiquitin protein ligase E3 component n-recognin								ubiquitin-protein ligase activity|zinc ion binding				0						ATTACTTCCTGTAAGTAAGCA	0.294													7	5	---	---	---	---	PASS	C	93677055	C	C	93677055	5	2	27	1	0	0	0	0	0	0	1	0	16903	1391	48	4	356	4	UBR7	14	93677055	Splice_Site	SNP	G	TCGA-21-5786-01A-01D-1632-08	2290423	93677055	13672485	317	11848										
SERPINA12	145264	broad.mit.edu	37	chr14	94953751	94953751	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttgacgacgagtggtgtctcCatgggcagagtctgtgctcc	14	10	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:94953751C>T	uc001ydj.2	-	6	1930	c.1134G>A	c.(1132-1134)ATG>ATA	p.M378I		NM_173850	NP_776249	Q8IW75	SPA12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	378					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			central_nervous_system(2)|ovary(1)|lung(1)	4				COAD - Colon adenocarcinoma(157;0.235)		GTGGTGTCTCCATGGGCAGAG	0.537													41	49	---	---	---	---	PASS	T	94953751	T	T	94953751	3	4	27	1	0	0	0	0	1	0	0	0	14089	594	21	3	114	3	SERPINA12	14	94953751	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	1276696	94953751	12395789	318	11849										
CCNK	8812	broad.mit.edu	37	chr14	99961950	99961950	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgatgtacaatttggccagtTtggagatgacccaaaggtaa	11	6	0	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr14:99961950T>A	uc001ygi.3	+	4	525	c.395T>A	c.(394-396)TTT>TAT	p.F132Y	CCNK_uc001ygg.3_Missense_Mutation_p.F132Y	NM_001099402	NP_001092872	O75909	CCNK_HUMAN	cyclin K isoform 1	132					cell division|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein kinase binding				0		all_cancers(154;0.224)|all_epithelial(191;0.0643)|Melanoma(154;0.0866)				TTTGGCCAGTTTGGAGATGAC	0.378													24	142	---	---	---	---	PASS	A	99961950	A	A	99961950	3	1	27	1	0	0	0	0	1	0	0	0	2930	1841	64	5	405	5	CCNK	14	99961950	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	5008199	99961950	7387590	319	11850										
MAGEL2	54551	broad.mit.edu	37	chr15	23890379	23890379	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcattcatattgggctgtggGacccatggaactgcaggcag	14	9	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:23890379G>A	uc001ywj.3	-	1	797	c.702C>T	c.(700-702)GTC>GTT	p.V234V		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		TGGGCTGTGGGACCCATGGAA	0.587													21	47	---	---	---	---	PASS	A	23890379	A	A	23890379	2	1	27	1	0	0	0	0	0	0	0	1	9189	1161	41	2		2	MAGEL2	15	23890379	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08		23890379	78641013	320	11851										
C15orf2	23742	broad.mit.edu	37	chr15	24921562	24921562	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aaggaccccccttagcagcgGagaagcatcgtccacatcca	9	15	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:24921562G>T	uc001ywo.2	+	1	1022	c.548G>T	c.(547-549)GGA>GTA	p.G183V		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	183					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CTTAGCAGCGGAGAAGCATCG	0.597													5	14	---	---	---	---	PASS	T	24921562	T	T	24921562	3	4	27	1	0	0	0	0	1	0	0	0	1784	1174	41	2	550	2	C15orf2	15	24921562	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1031183	24921562	77609830	321	11852										
OCA2	4948	broad.mit.edu	37	chr15	28096622	28096622	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aggttcaggagcacgggaatCtgtggaggaagaggacattg	17	5	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:28096622C>A	uc001zbh.3	-	22	2355	c.2245_splice	c.e22-1	p.I749_splice	OCA2_uc010ayv.2_Splice_Site_p.I725_splice	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II						eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		GCACGGGAATCTGTGGAGGAA	0.557									Oculocutaneous_Albinism				4	11	---	---	---	---	PASS	A	28096622	A	A	28096622	5	1	27	1	0	0	0	0	0	0	1	0	10815	927	32	2	284	2	OCA2	15	28096622	Splice_Site	SNP	C	TCGA-21-5786-01A-01D-1632-08	3175060	28096622	74434770	322	11853										
RYR3	6263	broad.mit.edu	37	chr15	33872198	33872198	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggaaacaatcgcacagctgcCcccatcaccctgcctataga	7	16	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:33872198C>A	uc001zhi.2	+	13	1360	c.1290C>A	c.(1288-1290)GCC>GCA	p.A430A	RYR3_uc010bar.2_Silent_p.A430A	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	430	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GCACAGCTGCCCCCATCACCC	0.552													8	5	---	---	---	---	PASS	A	33872198	A	A	33872198	2	1	27	1	0	0	0	0	0	0	0	1	13770	610	22	3		3	RYR3	15	33872198	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	5775576	33872198	68659194	323	11854										
TGM7	116179	broad.mit.edu	37	chr15	43571926	43571926	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cagaagcgcaccaccagtccGatgggcccccgagggtgggt	15	14	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:43571926G>A	uc001zrf.1	-	10	1580	c.1575C>T	c.(1573-1575)ATC>ATT	p.I525I		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	525					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	CCACCAGTCCGATGGGCCCCC	0.647													19	25	---	---	---	---	PASS	A	43571926	A	A	43571926	2	1	27	1	0	0	0	0	0	0	0	1	15832	1048	37	2		2	TGM7	15	43571926	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	9699728	43571926	58959466	324	11855										
TRPM7	54822	broad.mit.edu	37	chr15	50897096	50897096	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atcattacataaggtcctgcCtgttgatttacagctagaaa	7	8	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:50897096C>A	uc001zyt.3	-	21	3219	c.2955G>T	c.(2953-2955)CAG>CAT	p.Q985H	TRPM7_uc010bew.1_Missense_Mutation_p.Q985H|TRPM7_uc001zyu.2_Missense_Mutation_p.Q543H	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	985	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		AAGGTCCTGCCTGTTGATTTA	0.299													9	9	---	---	---	---	PASS	A	50897096	A	A	50897096	3	1	27	1	0	0	0	0	1	0	0	0	16588	680	24	3	2718	3	TRPM7	15	50897096	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	7325170	50897096	51634296	325	11856										
UNC13C	440279	broad.mit.edu	37	chr15	54305590	54305590	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caagcagccttgcaccctctGagggcagctctgacggggag	14	13	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:54305590G>T	uc002ack.2	+	1	490	c.490G>T	c.(490-492)GAG>TAG	p.E164*		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	164					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TGCACCCTCTGAGGGCAGCTC	0.453													17	25	---	---	---	---	PASS	T	54305590	T	T	54305590	4	4	27	1	0	0	0	0	0	1	0	0	16983	1291	45	2	492	2	UNC13C	15	54305590	Nonsense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	3408494	54305590	48225802	326	11857										
MEGF11	84465	broad.mit.edu	37	chr15	66223228	66223228	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ttgttacagctacagatggaCgagcagttggggccataggt	14	7	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:66223228C>A	uc002apm.2	-	11	1482	c.1341G>T	c.(1339-1341)TCG>TCT	p.S447S	MEGF11_uc002apl.2_Silent_p.S372S|MEGF11_uc002apn.1_Silent_p.S447S	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	447	EGF-like 8.					basolateral plasma membrane|integral to membrane				pancreas(1)	1						TACAGATGGACGAGCAGTTGG	0.557													17	28	---	---	---	---	PASS	A	66223228	A	A	66223228	2	1	27	1	0	0	0	0	0	0	0	1	9461	523	19	1		1	MEGF11	15	66223228	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	11917638	66223228	36308164	327	11858										
NEO1	4756	broad.mit.edu	37	chr15	73408948	73408948	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtggatacactctcagttagAggctcttctgttatattaaa	8	7	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:73408948A>T	uc002avm.3	+	2	340	c.198A>T	c.(196-198)AGA>AGT	p.R66S	NEO1_uc010ukx.1_Missense_Mutation_p.R66S|NEO1_uc010uky.1_Missense_Mutation_p.R66S|NEO1_uc010ukz.1_5'UTR	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	66	Extracellular (Potential).|Ig-like C2-type 1.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						TCTCAGTTAGAGGCTCTTCTG	0.358													39	88	---	---	---	---	PASS	T	73408948	T	T	73408948	3	4	27	1	0	0	0	0	1	0	0	0	10336	301	11	5	204	5	NEO1	15	73408948	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	7185720	73408948	29122444	328	11859										
NEO1	4756	broad.mit.edu	37	chr15	73414925	73414925	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tttatgctgggaacaatgcaAttctgaattgtgaagttaat	9	4	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:73414925A>G	uc002avm.3	+	3	650	c.508A>G	c.(508-510)ATT>GTT	p.I170V	NEO1_uc010ukx.1_Missense_Mutation_p.I170V|NEO1_uc010uky.1_Missense_Mutation_p.I170V|NEO1_uc010ukz.1_5'UTR	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	170	Extracellular (Potential).|Ig-like C2-type 2.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						GAACAATGCAATTCTGAATTG	0.383													5	79	---	---	---	---	PASS	G	73414925	G	G	73414925	3	3	27	1	0	0	0	0	1	0	0	0	10336	101	4	5	518	5	NEO1	15	73414925	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	5977	73414925	29116467	329	11860										
GOLGA6A	342096	broad.mit.edu	37	chr15	74364586	74364586	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcccggctctccaggtcctcTgggatgtttggcgtgggccg	15	13	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:74364586T>C	uc002axa.1	-	14	1607	c.1566A>G	c.(1564-1566)CCA>CCG	p.P522P	uc010ulg.1_5'Flank	NM_001038640	NP_001033729	Q9NYA3	GOG6A_HUMAN	golgi autoantigen, golgin subfamily a, 6	522	Potential.										0						CCAGGTCCTCTGGGATGTTTG	0.637													4	113	---	---	---	---	PASS	C	74364586	C	C	74364586	2	2	27	1	0	0	0	0	0	0	0	1	6557	1567	55	5		5	GOLGA6A	15	74364586	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	949661	74364586	28166806	330	11861										
FAM154B	283726	broad.mit.edu	37	chr15	82575389	82575389	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tccgcaagattattcctgcaGtgaaggccttctaataacca	7	11	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:82575389G>T	uc002bgv.2	+	3	1252	c.1183G>T	c.(1183-1185)GTG>TTG	p.V395L	FAM154B_uc010unr.1_Missense_Mutation_p.V380L|FAM154B_uc010uns.1_RNA	NM_001008226	NP_001008227	Q658L1	F154B_HUMAN	hypothetical protein LOC283726	395										skin(2)	2						TATTCCTGCAGTGAAGGCCTT	0.348													20	30	---	---	---	---	PASS	T	82575389	T	T	82575389	3	4	27	1	0	0	0	0	1	0	0	0	5464	1029	36	3	1193	3	FAM154B	15	82575389	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	8210803	82575389	19956003	331	11862										
LRRC28	123355	broad.mit.edu	37	chr15	99796311	99796311	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggagagactctatatgaaaaGgaactccctgacatccttgg	10	9	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:99796311G>T	uc002bva.1	+	2	304	c.149G>T	c.(148-150)AGG>ATG	p.R50M	LRRC28_uc010urs.1_RNA|LRRC28_uc002bvb.1_Translation_Start_Site|LRRC28_uc010urt.1_Translation_Start_Site|LRRC28_uc002bvc.1_Missense_Mutation_p.R50M|LRRC28_uc010uru.1_Missense_Mutation_p.R50M|LRRC28_uc002bvd.1_Missense_Mutation_p.R50M	NM_144598	NP_653199	Q86X40	LRC28_HUMAN	leucine rich repeat containing 28	50	LRR 2.										0	Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00106)			TATATGAAAAGGAACTCCCTG	0.348													20	32	---	---	---	---	PASS	T	99796311	T	T	99796311	3	4	27	1	0	0	0	0	1	0	0	0	8982	1000	35	3	151	3	LRRC28	15	99796311	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	17220922	99796311	2735081	332	11863										
OR4F6	390648	broad.mit.edu	37	chr15	102345983	102345983	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcctgggactctctgactcgCggaagatccagctcctcctc	9	16	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr15:102345983C>T	uc010utr.1	+	1	61	c.61C>T	c.(61-63)CGG>TGG	p.R21W		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	21	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			CTCTGACTCGCGGAAGATCCA	0.498													49	87	---	---	---	---	PASS	T	102345983	T	T	102345983	3	4	27	1	0	0	0	0	1	0	0	0	11066	759	27	1	63	1	OR4F6	15	102345983	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2549672	102345983	185409	333	11864										
AQP8	343	broad.mit.edu	37	chr16	25232839	25232839	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgatcggaggcctcaacctgGtgatgctcctcccgtactgg	12	13	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:25232839G>C	uc002doc.2	+	3	404	c.322G>C	c.(322-324)GTG>CTG	p.V108L		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	108	Helical; (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		CCTCAACCTGGTGATGCTCCT	0.627													31	31	---	---	---	---	PASS	C	25232839	C	C	25232839	3	2	27	1	0	0	0	0	1	0	0	0	832	1261	44	4	332	4	AQP8	16	25232839	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08		25232839	65121914	334	11865										
GDPD3	79153	broad.mit.edu	37	chr16	30123732	30123732	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	accatgcgccggtctgacccGtgagcaaagtggcctggggg	16	12	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:30123732G>A	uc002dwp.2	-	5	457	c.378C>T	c.(376-378)CAC>CAT	p.H126H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|GDPD3_uc002dwq.2_Silent_p.H64H|LOC100271831_uc010vei.1_5'Flank	NM_024307	NP_077283	Q7L5L3	GDPD3_HUMAN	glycerophosphodiester phosphodiesterase domain	126	Extracellular (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0						GGTCTGACCCGTGAGCAAAGT	0.607											OREG0023731	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	21	---	---	---	---	PASS	A	30123732	A	A	30123732	2	1	27	1	0	0	0	0	0	0	0	1	6325	1136	40	1		1	GDPD3	16	30123732	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	4890893	30123732	60231021	335	11866										
ABCC12	94160	broad.mit.edu	37	chr16	48117870	48117870	+	Missense_Mutation	SNP	G	T	T													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcagttgagaactgtgttgaGgcggtgggcgatggtcagca							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:48117870G>T	uc002efc.1	-	28	4289	c.3943C>A	c.(3943-3945)CTC>ATC	p.L1315I	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1315	ABC transporter 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				ACTGTGTTGAGGCGGTGGGCG	0.522													33	49	---	---	---	---	PASS	T	48117870	T	T	48117870	3	4	27	1	0	0	0	0	1	0	0	0	52	1000	35	3	144	3	ABCC12	16	48117870	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	17994138	48117870	42236883	336	11867	325	2								
ABCC12	94160	broad.mit.edu	37	chr16	48117871	48117871	+	Silent	SNP	G	T	T													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cagttgagaactgtgttgagGcggtgggcgatggtcagcac							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:48117871G>T	uc002efc.1	-	28	4288	c.3942C>A	c.(3940-3942)CGC>CGA	p.R1314R	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1314	ABC transporter 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CTGTGTTGAGGCGGTGGGCGA	0.522													33	49	---	---	---	---	PASS	T	48117871	T	T	48117871	2	4	27	1	0	0	0	0	0	0	0	1	52	1190	42	3		3	ABCC12	16	48117871	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	1	48117871	42236882	337	11868	325	2								
SALL1	6299	broad.mit.edu	37	chr16	51174581	51174581	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agtactcgtggggatattgtCcaaatgctcaggcacaggat	12	8	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:51174581C>T	uc010vgs.1	-	2	1583	c.1552G>A	c.(1552-1554)GAC>AAC	p.D518N	SALL1_uc010vgr.1_Missense_Mutation_p.D421N|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	518					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GGGATATTGTCCAAATGCTCA	0.517													26	53	---	---	---	---	PASS	T	51174581	T	T	51174581	3	4	27	1	0	0	0	0	1	0	0	0	13810	855	30	2	2430	2	SALL1	16	51174581	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	3056710	51174581	39180172	338	11869										
CES1	1066	broad.mit.edu	37	chr16	55855365	55855365	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	caaagctggcaatgttgtccTggacccagcgcagggcagcc	13	13	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:55855365T>C	uc002eim.2	-	5	713	c.605A>G	c.(604-606)CAG>CGG	p.Q202R	CES1_uc002eil.2_Missense_Mutation_p.Q203R|CES1_uc002ein.2_Missense_Mutation_p.Q202R	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	202					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	AATGTTGTCCTGGACCCAGCG	0.582													16	18	---	---	---	---	PASS	C	55855365	C	C	55855365	3	2	27	1	0	0	0	0	1	0	0	0	3269	1580	55	5	1138	5	CES1	16	55855365	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	4680784	55855365	34499388	339	11870										
SLC12A3	6559	broad.mit.edu	37	chr16	56936405	56936405	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atctcagatgaggagattacGaagaacagagtcaaggtgca	12	6	2	5			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:56936405G>A	uc010ccm.2	+	24	2870	c.2841G>A	c.(2839-2841)ACG>ACA	p.T947T	SLC12A3_uc002ekd.3_Silent_p.T956T|SLC12A3_uc010ccn.2_Silent_p.T955T	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	947	Cytoplasmic (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	AGGAGATTACGAAGAACAGAG	0.582													17	29	---	---	---	---	PASS	A	56936405	A	A	56936405	2	1	27	1	0	0	0	0	0	0	0	1	14384	1045	37	2		2	SLC12A3	16	56936405	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	1081040	56936405	33418348	340	11871										
CCDC102A	92922	broad.mit.edu	37	chr16	57550347	57550347	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggaactgcttcttcagcttgCcatgcacatgcttcaggtct	9	12	4	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:57550347C>T	uc002elw.2	-	7	1490	c.1277G>A	c.(1276-1278)GGC>GAC	p.G426D		NM_033212	NP_149989	Q96A19	C102A_HUMAN	coiled-coil domain containing 102A	426										ovary(1)	1						CTTCAGCTTGCCATGCACATG	0.627													11	12	---	---	---	---	PASS	T	57550347	T	T	57550347	3	4	27	1	0	0	0	0	1	0	0	0	2736	739	26	3	387	3	CCDC102A	16	57550347	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	613942	57550347	32804406	341	11872										
CNOT1	23019	broad.mit.edu	37	chr16	58585531	58585531	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gctgactccagttggcctggTgaccgtaaccgttttagcaa	11	11	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:58585531T>A	uc002env.2	-	23	3456	c.3163A>T	c.(3163-3165)ACC>TCC	p.T1055S	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.T1050S|CNOT1_uc002enx.2_Missense_Mutation_p.T1055S|CNOT1_uc002enz.1_Missense_Mutation_p.T484S|CNOT1_uc010vik.1_Missense_Mutation_p.T51S|SNORA46_uc002eny.1_5'Flank	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1055					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		GTTGGCCTGGTGACCGTAACC	0.383													37	63	---	---	---	---	PASS	A	58585531	A	A	58585531	3	1	27	1	0	0	0	0	1	0	0	0	3617	1696	59	5	4297	5	CNOT1	16	58585531	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	1035184	58585531	31769222	342	11873										
CDH8	1006	broad.mit.edu	37	chr16	61859083	61859083	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gaagggcagtttttataataGctgagggggaaaatggaaga	15	2	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:61859083G>T	uc002eog.1	-	5	920	c.668C>A	c.(667-669)GCT>GAT	p.A223D	CDH8_uc002eoh.2_5'UTR	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	223	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TTTTATAATAGCTGAGGGGGA	0.438													14	30	---	---	---	---	PASS	T	61859083	T	T	61859083	3	4	27	1	0	0	0	0	1	0	0	0	3116	985	34	3	1763	3	CDH8	16	61859083	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	3273552	61859083	28495670	343	11874										
EXOC3L	283849	broad.mit.edu	37	chr16	67221658	67221658	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cacgtatcctctcgcagctgCtccagctcccgaaggctcac	8	18	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:67221658C>A	uc002erx.1	-	5	751	c.510G>T	c.(508-510)GAG>GAT	p.E170D	EXOC3L_uc002erv.1_RNA|EXOC3L_uc002erw.1_Intron|EXOC3L_uc002ery.1_Missense_Mutation_p.E114D|EXOC3L_uc010vje.1_Missense_Mutation_p.E109D	NM_178516	NP_848611	Q86VI1	EX3L1_HUMAN	exocyst complex component 3-like	170	Mediates interaction with EXOC2, EXOC4 and EXOC5 (By similarity).				exocytosis|peptide hormone secretion	exocyst|stored secretory granule|transport vesicle					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0021)|Epithelial(162;0.0073)|all cancers(182;0.0616)		CTCGCAGCTGCTCCAGCTCCC	0.597													20	32	---	---	---	---	PASS	A	67221658	A	A	67221658	3	1	27	1	0	0	0	0	1	0	0	0	5304	796	28	3	1770	3	EXOC3L	16	67221658	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	5362575	67221658	23133095	344	11875										
PLEKHG4	25894	broad.mit.edu	37	chr16	67322470	67322470	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgacagcagctgtgtgtcagGgcaggccctgggtaggggcc	18	10	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:67322470G>C	uc002eso.3	+	20	6068	c.3533G>C	c.(3532-3534)GGG>GCG	p.G1178A	PLEKHG4_uc002esp.3_Missense_Mutation_p.G985A|PLEKHG4_uc002esq.3_Missense_Mutation_p.G1178A|PLEKHG4_uc010cef.2_Missense_Mutation_p.G1178A|PLEKHG4_uc002ess.3_Missense_Mutation_p.G1178A|PLEKHG4_uc010ceg.2_Missense_Mutation_p.G1097A	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	1178					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		TGTGTGTCAGGGCAGGCCCTG	0.612													40	66	---	---	---	---	PASS	C	67322470	C	C	67322470	3	2	27	1	0	0	0	0	1	0	0	0	12071	1232	43	4	3611	4	PLEKHG4	16	67322470	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	100812	67322470	23032283	345	11876										
ADAMTS18	170692	broad.mit.edu	37	chr16	77331223	77331223	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agcgttgcagattttgggctCagttactggcttggtttttg	13	6	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:77331223C>G	uc002ffc.3	-	18	3183	c.2764G>C	c.(2764-2766)GAG>CAG	p.E922Q	ADAMTS18_uc010chc.1_Missense_Mutation_p.E510Q|ADAMTS18_uc002ffe.1_Missense_Mutation_p.E618Q	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	922					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						ATTTTGGGCTCAGTTACTGGC	0.398													43	53	---	---	---	---	PASS	G	77331223	G	G	77331223	3	3	27	1	0	0	0	0	1	0	0	0	263	835	29	2	925	2	ADAMTS18	16	77331223	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	10008753	77331223	13023530	346	11877										
SLC38A8	146167	broad.mit.edu	37	chr16	84050257	84050257	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agcggcatccggacccacagCcctgaggggtcggccagggc	16	15	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:84050257C>A	uc002fhg.1	-	8	1029	c.1029G>T	c.(1027-1029)GGG>GGT	p.G343G		NM_001080442	NP_001073911	A6NNN8	S38A8_HUMAN	solute carrier family 38, member 8	343					amino acid transport|sodium ion transport	integral to membrane					0						GGACCCACAGCCCTGAGGGGT	0.647													3	47	---	---	---	---	PASS	A	84050257	A	A	84050257	2	1	27	1	0	0	0	0	0	0	0	1	14610	726	26	3		3	SLC38A8	16	84050257	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	6719034	84050257	6304496	347	11878										
KCNG4	93107	broad.mit.edu	37	chr16	84270958	84270958	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cgtccagggcacccaccttcCgcaccctccggtagtaaagg	10	17	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:84270958C>T	uc010voc.1	-	2	255	c.134G>A	c.(133-135)CGG>CAG	p.R45Q	KCNG4_uc002fhu.1_Missense_Mutation_p.R45Q	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	45	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						ACCCACCTTCCGCACCCTCCG	0.627													17	30	---	---	---	---	PASS	T	84270958	T	T	84270958	3	4	27	1	0	0	0	0	1	0	0	0	8030	652	23	1	1431	1	KCNG4	16	84270958	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	220701	84270958	6083795	348	11879										
FANCA	2175	broad.mit.edu	37	chr16	89816153	89816153	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gttaccgtttgtacattagcAgctccctctgtctctgaagg	9	11	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr16:89816153A>G	uc002fou.1	-	32	3266	c.3224T>C	c.(3223-3225)CTG>CCG	p.L1075P	FANCA_uc010vpn.1_Missense_Mutation_p.L1075P|FANCA_uc010vpo.1_Missense_Mutation_p.L161P	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	1075					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		GTACATTAGCAGCTCCCTCTG	0.577			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				5	15	---	---	---	---	PASS	G	89816153	G	G	89816153	3	3	27	1	0	0	0	0	1	0	0	0	5662	188	7	5	1191	5	FANCA	16	89816153	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	5545195	89816153	538600	349	11880										
TP53	7157	broad.mit.edu	37	chr17	7578461	7578461	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtagatggccatggcgcggaCgcgggtgccgggcgggggtg	23	9	0	1	rs121912654		TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr17:7578461C>A	uc002gim.2	-	5	663	c.469G>T	c.(469-471)GTC>TTC	p.V157F	TP53_uc002gig.1_Missense_Mutation_p.V157F|TP53_uc002gih.2_Missense_Mutation_p.V157F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.V25F|TP53_uc010cng.1_Missense_Mutation_p.V25F|TP53_uc002gii.1_Missense_Mutation_p.V25F|TP53_uc010cnh.1_Missense_Mutation_p.V157F|TP53_uc010cni.1_Missense_Mutation_p.V157F|TP53_uc002gij.2_Missense_Mutation_p.V157F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.V64F|TP53_uc002gio.2_Missense_Mutation_p.V25F|TP53_uc010vug.1_Missense_Mutation_p.V118F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	157	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> I (in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).|V -> A (in sporadic cancers; somatic mutation).|V -> L (in sporadic cancers; somatic mutation).|V -> F (in sporadic cancers; somatic mutation).|V -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.V157F(139)|p.V157I(10)|p.V157D(8)|p.V157G(7)|p.0?(7)|p.V157L(6)|p.V157V(5)|p.V157fs*13(3)|p.R156_I162delRVRAMAI(2)|p.T155fs*23(2)|p.V157del(2)|p.V157fs*9(2)|p.P153fs*22(2)|p.V157fs*22(2)|p.V157fs*24(2)|p.V157_C176del20(1)|p.R156_A161delRVRAMA(1)|p.P151_V173del23(1)|p.V157A(1)|p.R156_R158delRVR(1)|p.R156fs*12(1)|p.R156fs*18(1)|p.R156_A161del(1)|p.V157_M160delVRAM(1)|p.D148fs*23(1)|p.V157_R158delVR(1)|p.S149fs*72(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.R156fs*20(1)|p.V157_I162delVRAMAI(1)|p.V157fs*23(1)|p.V157fs*21(1)|p.V157fs*25(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)		ATGGCGCGGACGCGGGTGCCG	0.617		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)			21	19	---	---	---	---	PASS	A	7578461	A	A	7578461	3	1	27	1	0	0	0	0	1	0	0	0	16378	536	19	1	829	1	TP53	17	7578461	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08		7578461	73616749	350	11881										
RCVRN	5957	broad.mit.edu	37	chr17	9808247	9808247	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcagggcgatgacgtactccTtgaagtccagggtgccgtcg	15	11	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr17:9808247T>C	uc002gme.1	-	1	438	c.251A>G	c.(250-252)AAG>AGG	p.K84R		NM_002903	NP_002894	P35243	RECO_HUMAN	recoverin	84	EF-hand 2.|1; low affinity (By similarity).				visual perception		calcium ion binding|calcium sensitive guanylate cyclase activator activity				0						GACGTACTCCTTGAAGTCCAG	0.607													23	9	---	---	---	---	PASS	C	9808247	C	C	9808247	3	2	27	1	0	0	0	0	1	0	0	0	13186	1609	56	5	363	5	RCVRN	17	9808247	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	2229786	9808247	71386963	351	11882										
MYH3	4621	broad.mit.edu	37	chr17	10555833	10555833	+	Silent	SNP	C	T	T													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atgtcttcgatcctgtcgaaCttgggggggttcatggcgta					rs147410236	byFrequency	TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr17:10555833C>T	uc002gmq.1	-	3	329	c.252G>A	c.(250-252)AAG>AAA	p.K84K		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	84	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TCCTGTCGAACTTGGGGGGGT	0.502													16	10	---	---	---	---	PASS	T	10555833	T	T	10555833	2	4	27	1	0	0	0	0	0	0	0	1	10036	564	20	3		3	MYH3	17	10555833	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	747586	10555833	70639377	352	11883	326	2								
MYH3	4621	broad.mit.edu	37	chr17	10555834	10555834	+	Missense_Mutation	SNP	T	A	A													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgtcttcgatcctgtcgaacTtgggggggttcatggcgtac							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr17:10555834T>A	uc002gmq.1	-	3	328	c.251A>T	c.(250-252)AAG>ATG	p.K84M		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	84	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CCTGTCGAACTTGGGGGGGTT	0.502													17	10	---	---	---	---	PASS	A	10555834	A	A	10555834	3	1	27	1	0	0	0	0	1	0	0	0	10036	1609	56	5	5723	5	MYH3	17	10555834	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	1	10555834	70639376	353	11884	326	2								
PIRT	644139	broad.mit.edu	37	chr17	10728806	10728806	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	catgataacgatgggcttgcGgtagatttcccagttactcc	10	10	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr17:10728806G>T	uc010col.2	-	2	452	c.157C>A	c.(157-159)CGC>AGC	p.R53S		NM_001101387	NP_001094857	P0C851	PIRT_HUMAN	phosphoinositide-interacting regulator of	53						integral to membrane				ovary(1)	1						ATGGGCTTGCGGTAGATTTCC	0.587													10	10	---	---	---	---	PASS	T	10728806	T	T	10728806	3	4	27	1	0	0	0	0	1	0	0	0	11945	1116	39	1	260	1	PIRT	17	10728806	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	172972	10728806	70466404	354	11885										
ACCN1	40	broad.mit.edu	37	chr17	32483084	32483084	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcatggcccacacggtgcagGaactccagcatgctgaactg	11	13	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr17:32483084G>A	uc002hhu.2	-	1	742	c.468C>T	c.(466-468)TTC>TTT	p.F156F		NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	156	Extracellular (By similarity).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	CACGGTGCAGGAACTCCAGCA	0.577													42	30	---	---	---	---	PASS	A	32483084	A	A	32483084	2	1	27	1	0	0	0	0	0	0	0	1	128	1165	41	2		2	ACCN1	17	32483084	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	21754278	32483084	48712126	355	11886										
ARSG	22901	broad.mit.edu	37	chr17	66303806	66303806	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgggagcaaactgggcagaaAcaaaggacactgccaacctt	11	10	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr17:66303806A>C	uc002jhc.2	+	2	968	c.172A>C	c.(172-174)ACA>CCA	p.T58P	ARSG_uc002jhb.1_Intron	NM_014960	NP_055775	Q96EG1	ARSG_HUMAN	Arylsulfatase G precursor	58					sulfur compound metabolic process	endoplasmic reticulum|extracellular space|lysosome	arylsulfatase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;5.34e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			CTGGGCAGAAACAAAGGACAC	0.488													9	26	---	---	---	---	PASS	C	66303806	C	C	66303806	3	2	27	1	0	0	0	0	1	0	0	0	992	43	2	5	174	5	ARSG	17	66303806	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	33820722	66303806	14891404	356	11887										
CCDC137	339230	broad.mit.edu	37	chr17	79634874	79634874	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgaaaaacccgatcagtaacAagaagaggaagaaagcaggt	11	6	1	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr17:79634874A>G	uc002kbc.3	+	2	286	c.250A>G	c.(250-252)AAG>GAG	p.K84E	C17orf90_uc002kba.2_5'Flank|C17orf90_uc002kbb.2_5'Flank|CCDC137_uc002kbd.2_RNA	NM_199287	NP_954981	Q6PK04	CC137_HUMAN	coiled-coil domain containing 137	84								p.K84K(1)		central_nervous_system(1)	1	all_neural(118;0.0878)|all_lung(278;0.23)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GATCAGTAACAAGAAGAGGAA	0.502													8	11	---	---	---	---	PASS	G	79634874	G	G	79634874	3	3	27	1	0	0	0	0	1	0	0	0	2771	131	5	5	256	5	CCDC137	17	79634874	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	13331068	79634874	1560336	357	11888										
ENOSF1	55556	broad.mit.edu	37	chr18	706489	706489	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ccaacttcagtgccttttccCagagtgaaggtaattccaca	7	12	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr18:706489C>A	uc002kku.3	-	2	249	c.174G>T	c.(172-174)CTG>CTT	p.L58L	ENOSF1_uc002kkt.3_Missense_Mutation_p.W15L|ENOSF1_uc010dke.2_RNA|ENOSF1_uc010dkf.2_Silent_p.L79L|ENOSF1_uc002kkv.3_Silent_p.L58L|ENOSF1_uc002kkw.3_5'UTR|ENOSF1_uc002kkx.3_Silent_p.L58L|ENOSF1_uc010wyt.1_RNA	NM_017512	NP_059982	Q7L5Y1	ENOF1_HUMAN	enolase superfamily 1 isoform rTS beta	58					cellular amino acid catabolic process	mitochondrion	isomerase activity|metal ion binding			ovary(1)	1						TGCCTTTTCCCAGAGTGAAGG	0.428													35	74	---	---	---	---	PASS	A	706489	A	A	706489	2	1	27	1	0	0	0	0	0	0	0	1	5125	595	21	3		3	ENOSF1	18	706489	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08		706489	77370759	358	11889										
ADCYAP1	116	broad.mit.edu	37	chr18	905402	905402	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cgcagaatgaccatgtgtagCggagcgaggctggccctgct	15	11	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr18:905402C>A	uc010dkg.2	+	2	134	c.15C>A	c.(13-15)AGC>AGA	p.S5R	ADCYAP1_uc010dkh.2_Missense_Mutation_p.S5R	NM_001099733	NP_001093203	P18509	PACA_HUMAN	adenylate cyclase activating polypeptide	5					activation of adenylate cyclase activity|cell-cell signaling|female pregnancy|nerve growth factor receptor signaling pathway|regulation of G-protein coupled receptor protein signaling pathway	extracellular region|soluble fraction	neuropeptide hormone activity|peptide hormone receptor binding				0						CCATGTGTAGCGGAGCGAGGC	0.622													22	60	---	---	---	---	PASS	A	905402	A	A	905402	3	1	27	1	0	0	0	0	1	0	0	0	302	767	27	1	17	1	ADCYAP1	18	905402	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	198913	905402	77171846	359	11890										
DLGAP1	9229	broad.mit.edu	37	chr18	3534287	3534287	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cctggagaagcttcaggaacCagtggccatcccggtggcac	13	13	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr18:3534287C>G	uc002kmf.2	-	7	2451	c.2384G>C	c.(2383-2385)TGG>TCG	p.W795S	DLGAP1_uc010wyz.1_Missense_Mutation_p.W795S|DLGAP1_uc002kme.1_Missense_Mutation_p.W493S|DLGAP1_uc010dkn.2_Missense_Mutation_p.W503S|DLGAP1_uc010wyw.1_Missense_Mutation_p.W501S|DLGAP1_uc010wyx.1_Missense_Mutation_p.W517S|DLGAP1_uc010wyy.1_Missense_Mutation_p.W479S|DLGAP1_uc002kmg.2_Missense_Mutation_p.W493S	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	795					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				CTTCAGGAACCAGTGGCCATC	0.587													14	29	---	---	---	---	PASS	G	3534287	G	G	3534287	3	3	27	1	0	0	0	0	1	0	0	0	4559	595	21	4	565	4	DLGAP1	18	3534287	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2628885	3534287	74542961	360	11891										
ZNF519	162655	broad.mit.edu	37	chr18	14105711	14105711	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgatgtccaagatgtaagccCctggtaaaagctttgccacg	10	10	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr18:14105711C>A	uc002kst.1	-	3	981	c.828G>T	c.(826-828)AGG>AGT	p.R276S	ZNF519_uc002ksq.1_Intron|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_Intron	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	276					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GATGTAAGCCCCTGGTAAAAG	0.348													20	56	---	---	---	---	PASS	A	14105711	A	A	14105711	3	1	27	1	0	0	0	0	1	0	0	0	17961	622	22	3	798	3	ZNF519	18	14105711	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	10571424	14105711	63971537	361	11892										
ZNF519	162655	broad.mit.edu	37	chr18	14124370	14124371	+	Frame_Shift_Del	DEL	AG	-	-													0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cagggagacgaggtttctgtAgttctccaacatcacatctc							TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr18:14124370_14124371delAG	uc002kst.1	-	2	261_262	c.108_109delCT	c.(106-111)AACTACfs	p.N36fs	ZNF519_uc002ksq.1_RNA|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_RNA	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	36_37	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGGTTTCTGTAGTTCTCCAACA	0.401													76	33	---	---	---	---		-	14124371	-	-	14124370	7	5	27	1	0	1	0	1	0	0	0	0	17961	420	15	0	1521	0	ZNF519	18	14124370	Frame_Shift_Del	DEL	AG	TCGA-21-5786-01A-01D-1632-08	18659	14124370	63952878	362	11893										
DSG1	1828	broad.mit.edu	37	chr18	28923500	28923500	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgttcccgaatgttcagatgGagcaattcattcatgggcag	11	8	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr18:28923500G>T	uc002kwp.2	+	12	1987	c.1775G>T	c.(1774-1776)GGA>GTA	p.G592V	DSG1_uc010xbp.1_5'Flank	NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	592	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			TGTTCAGATGGAGCAATTCAT	0.488													35	35	---	---	---	---	PASS	T	28923500	T	T	28923500	3	4	27	1	0	0	0	0	1	0	0	0	4776	1174	41	2	1821	2	DSG1	18	28923500	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	14799130	28923500	49153748	363	11894										
DCC	1630	broad.mit.edu	37	chr18	51013254	51013254	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cacctgtggatatccccaccCgcagttcactctccggcctg	8	18	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr18:51013254C>A	uc002lfe.1	+	26	4411	c.3824C>A	c.(3823-3825)CCG>CAG	p.P1275Q	DCC_uc010dpf.1_Missense_Mutation_p.P910Q	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1275	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TATCCCCACCCGCAGTTCACT	0.537													22	25	---	---	---	---	PASS	A	51013254	A	A	51013254	3	1	27	1	0	0	0	0	1	0	0	0	4282	652	23	1	3926	1	DCC	18	51013254	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	22089754	51013254	27063994	364	11895										
TNFRSF11A	8792	broad.mit.edu	37	chr18	60021677	60021677	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcacgaccccccggcgctgcGcgtgcacggctgggtaccac	14	18	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr18:60021677G>T	uc002lin.2	+	4	375	c.337G>T	c.(337-339)GCG>TCG	p.A113S	TNFRSF11A_uc010dpv.2_Missense_Mutation_p.A113S	NM_003839	NP_003830	Q9Y6Q6	TNR11_HUMAN	tumor necrosis factor receptor superfamily,	113	Extracellular (Potential).				adaptive immune response|cell-cell signaling|circadian temperature homeostasis|monocyte chemotaxis|osteoclast differentiation|positive regulation of cell proliferation|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|response to interleukin-1|response to lipopolysaccharide	external side of plasma membrane|integral to membrane	metal ion binding|tumor necrosis factor receptor activity			breast(2)|lung(1)	3		Colorectal(73;0.188)				CCGGCGCTGCGCGTGCACGGC	0.731									Paget_Disease_of_Bone				9	9	---	---	---	---	PASS	T	60021677	T	T	60021677	3	4	27	1	0	0	0	0	1	0	0	0	16281	1087	38	1	351	1	TNFRSF11A	18	60021677	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	9008423	60021677	18055571	365	11896										
SERPINB4	6318	broad.mit.edu	37	chr18	61305235	61305235	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	attcccatggttctcaacgtGtccttgaggtcatagctctc	8	12	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr18:61305235G>A	uc002ljf.2	-	8	977	c.891C>T	c.(889-891)GAC>GAT	p.D297D	SERPINB4_uc002lje.2_Silent_p.D276D|SERPINB4_uc002ljg.2_Silent_p.D297D	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	297					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						TTCTCAACGTGTCCTTGAGGT	0.448													4	47	---	---	---	---	PASS	A	61305235	A	A	61305235	2	1	27	1	0	0	0	0	0	0	0	1	14103	1368	48	3		3	SERPINB4	18	61305235	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	1283558	61305235	16772013	366	11897										
SALL3	27164	broad.mit.edu	37	chr18	76753214	76753214	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcccaatgtgtcggtgttcgAgcccaaagccagcgccgagg	14	13	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr18:76753214A>T	uc002lmt.2	+	2	1223	c.1223A>T	c.(1222-1224)GAG>GTG	p.E408V	SALL3_uc010dra.2_Missense_Mutation_p.E15V	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	408					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		TCGGTGTTCGAGCCCAAAGCC	0.657													8	3	---	---	---	---	PASS	T	76753214	T	T	76753214	3	4	27	1	0	0	0	0	1	0	0	0	13812	304	11	5	1229	5	SALL3	18	76753214	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	15447979	76753214	1324034	367	11898										
CTDP1	9150	broad.mit.edu	37	chr18	77477959	77477959	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gctcatcaggacgggcgcccGggggcccccagcaccctcca	13	19	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr18:77477959G>T	uc002lnh.1	+	10	2507	c.2360G>T	c.(2359-2361)CGG>CTG	p.R787L	CTDP1_uc002lni.1_Missense_Mutation_p.R787L|CTDP1_uc010drd.1_Missense_Mutation_p.R787L	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	787					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		ACGGGCGCCCGGGGGCCCCCA	0.672													24	17	---	---	---	---	PASS	T	77477959	T	T	77477959	3	4	27	1	0	0	0	0	1	0	0	0	4002	1116	39	1	2398	1	CTDP1	18	77477959	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	724745	77477959	599289	368	11899										
TMPRSS9	360200	broad.mit.edu	37	chr19	2413858	2413858	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cctggaggccaccaccaaagCcagcatgcctctggccccca	9	19	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:2413858C>A	uc010xgx.1	+	9	1313	c.1313C>A	c.(1312-1314)GCC>GAC	p.A438D	TMPRSS9_uc002lvv.1_Missense_Mutation_p.A472D	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	438	Extracellular (Potential).				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACCACCAAAGCCAGCATGCCT	0.672													18	14	---	---	---	---	PASS	A	2413858	A	A	2413858	3	1	27	1	0	0	0	0	1	0	0	0	16250	739	26	3	1347	3	TMPRSS9	19	2413858	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08		2413858	56715125	369	11900										
ZNF555	148254	broad.mit.edu	37	chr19	2853168	2853168	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	acactggagagaaaccctacGaatgcaaacagtgtgggaag	12	8	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:2853168G>T	uc002lwo.2	+	4	1194	c.1105G>T	c.(1105-1107)GAA>TAA	p.E369*	ZNF555_uc002lwn.3_Nonsense_Mutation_p.E368*	NM_152791	NP_690004	Q8NEP9	ZN555_HUMAN	zinc finger protein 555	369	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAAACCCTACGAATGCAAACA	0.453													9	25	---	---	---	---	PASS	T	2853168	T	T	2853168	4	4	27	1	0	0	0	0	0	1	0	0	17983	1059	37	2	1119	2	ZNF555	19	2853168	Nonsense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	439310	2853168	56275815	370	11901										
FBN3	84467	broad.mit.edu	37	chr19	8130877	8130877	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctgcccctctggctggacacCccagggtcctgccatgtggc	12	17	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:8130877C>G	uc002mjf.2	-	63	8377	c.8356G>C	c.(8356-8358)GGT>CGT	p.G2786R	FBN3_uc002mje.2_Missense_Mutation_p.G582R	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2786						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GGCTGGACACCCCAGGGTCCT	0.692													36	14	---	---	---	---	PASS	G	8130877	G	G	8130877	3	3	27	1	0	0	0	0	1	0	0	0	5704	623	22	4	77	4	FBN3	19	8130877	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	5277709	8130877	50998106	371	11902										
SMARCA4	6597	broad.mit.edu	37	chr19	11105646	11105646	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcagaagaaagagaacgagcGgatcgagaaggagcgcatgc	16	7	0	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:11105646G>C	uc002mqf.3	+	9	1846	c.1562G>C	c.(1561-1563)CGG>CCG	p.R521P	SMARCA4_uc010dxp.2_Missense_Mutation_p.R521P|SMARCA4_uc010dxo.2_Missense_Mutation_p.R521P|SMARCA4_uc002mqg.1_Missense_Mutation_p.R521P|SMARCA4_uc010dxq.2_Missense_Mutation_p.R521P|SMARCA4_uc010dxr.2_Missense_Mutation_p.R521P|SMARCA4_uc002mqj.3_Missense_Mutation_p.R521P|SMARCA4_uc010dxs.2_Missense_Mutation_p.R521P|SMARCA4_uc002mqe.2_Missense_Mutation_p.R521P	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	521	HSA.				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GAGAACGAGCGGATCGAGAAG	0.567			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				6	1	---	---	---	---	PASS	C	11105646	C	C	11105646	3	2	27	1	0	0	0	0	1	0	0	0	14770	1116	39	4	1592	4	SMARCA4	19	11105646	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	2974769	11105646	48023337	372	11903										
DOCK6	57572	broad.mit.edu	37	chr19	11326504	11326504	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcgccgaaccatttcttgtcGagctccgatggtacccagaa	9	13	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:11326504G>A	uc002mqs.3	-	31	4035	c.3994C>T	c.(3994-3996)CGA>TGA	p.R1332*	DOCK6_uc010xlq.1_Nonsense_Mutation_p.R671*	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1332					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						ATTTCTTGTCGAGCTCCGATG	0.537													10	39	---	---	---	---	PASS	A	11326504	A	A	11326504	4	1	27	1	0	0	0	0	0	1	0	0	4691	1066	37	2	2221	2	DOCK6	19	11326504	Nonsense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	220858	11326504	47802479	373	11904										
CNN1	1264	broad.mit.edu	37	chr19	11657765	11657765	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tacacaggtgcagtccacccTcctggctttggccagcatgg	11	14	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:11657765T>A	uc002msc.1	+	4	535	c.371T>A	c.(370-372)CTC>CAC	p.L124H	CNN1_uc010xmb.1_Missense_Mutation_p.L74H|CNN1_uc010xmc.1_Missense_Mutation_p.L74H	NM_001299	NP_001290	P51911	CNN1_HUMAN	calponin 1, basic, smooth muscle	124	CH.				actomyosin structure organization|regulation of smooth muscle contraction	cytoskeleton	actin binding|calmodulin binding				0						CAGTCCACCCTCCTGGCTTTG	0.592													42	30	---	---	---	---	PASS	A	11657765	A	A	11657765	3	1	27	1	0	0	0	0	1	0	0	0	3609	1551	54	5	385	5	CNN1	19	11657765	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	331261	11657765	47471218	374	11905										
PKN1	5585	broad.mit.edu	37	chr19	14574959	14574959	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gatcctccttccagcccatcGagcctggtgagggtcccccc	10	18	0	1	rs2230538	by1000genomes	TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:14574959G>T	uc002myp.2	+	12	1893	c.1725G>T	c.(1723-1725)TCG>TCT	p.S575S	PKN1_uc002myq.2_Silent_p.S581S	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	575					activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						CCAGCCCATCGAGCCTGGTGA	0.532													19	16	---	---	---	---	PASS	T	14574959	T	T	14574959	2	4	27	1	0	0	0	0	0	0	0	1	11979	1045	37	2		2	PKN1	19	14574959	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	2917194	14574959	44554024	375	11906										
ZNF333	84449	broad.mit.edu	37	chr19	14805852	14805852	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cctttgaggatgtggccgtgGagttcatccaggagtgggca	16	8	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:14805852G>T	uc002mzn.2	+	3	168	c.34G>T	c.(34-36)GAG>TAG	p.E12*	ZNF333_uc010dzq.2_Nonsense_Mutation_p.E12*|ZNF333_uc002mzk.3_5'UTR|ZNF333_uc002mzl.3_Nonsense_Mutation_p.E12*|ZNF333_uc002mzm.2_Nonsense_Mutation_p.E12*|ZNF333_uc010dzr.1_RNA	NM_032433	NP_115809	Q96JL9	ZN333_HUMAN	zinc finger protein 333	12	KRAB 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TGTGGCCGTGGAGTTCATCCA	0.567													30	26	---	---	---	---	PASS	T	14805852	T	T	14805852	4	4	27	1	0	0	0	0	0	1	0	0	17847	1175	41	2	40	2	ZNF333	19	14805852	Nonsense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	230893	14805852	44323131	376	11907										
ZNF676	163223	broad.mit.edu	37	chr19	22364051	22364051	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	taaattctttcatgttgagaTaggtgtgaaagcatgcaaaa	9	4	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:22364051T>A	uc002nqs.1	-	3	786	c.468A>T	c.(466-468)CTA>CTT	p.L156L		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	156					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CATGTTGAGATAGGTGTGAAA	0.318													36	33	---	---	---	---	PASS	A	22364051	A	A	22364051	2	1	27	1	0	0	0	0	0	0	0	1	18080	1393	49	5		5	ZNF676	19	22364051	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	7558199	22364051	36764932	377	11908										
WDR62	284403	broad.mit.edu	37	chr19	36549728	36549728	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cacagcccagaacagcagtgGcctaacctgtgaccccggca	10	16	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:36549728G>T	uc002odc.2	+	2	315	c.224G>T	c.(223-225)GGC>GTC	p.G75V	WDR62_uc002odd.2_Missense_Mutation_p.G75V|WDR62_uc010eer.2_Missense_Mutation_p.G75V|WDR62_uc002odb.2_Missense_Mutation_p.G75V	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	75					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			AACAGCAGTGGCCTAACCTGT	0.542													4	15	---	---	---	---	PASS	T	36549728	T	T	36549728	3	4	27	1	0	0	0	0	1	0	0	0	17310	1203	42	3	230	3	WDR62	19	36549728	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	14185677	36549728	22579255	378	11909										
DMRTC2	63946	broad.mit.edu	37	chr19	42351680	42351680	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agggccacaagcgcctctgcCtcttccaggcttgcgagtgt	12	14	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:42351680C>T	uc002ors.2	+	2	267	c.184C>T	c.(184-186)CTC>TTC	p.L62F	DMRTC2_uc002orr.1_5'UTR|DMRTC2_uc010xwe.1_Missense_Mutation_p.L62F	NM_001040283	NP_001035373	Q8IXT2	DMRTD_HUMAN	DMRT-like family C2	62	DM.				cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0						GCGCCTCTGCCTCTTCCAGGC	0.607													30	61	---	---	---	---	PASS	T	42351680	T	T	42351680	3	4	27	1	0	0	0	0	1	0	0	0	4591	681	24	3	186	3	DMRTC2	19	42351680	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	5801952	42351680	16777303	379	11910										
PHLDB3	653583	broad.mit.edu	37	chr19	44008084	44008084	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcggctgctctcagtgctgcTgccttctcccacttcttctt	8	16	4	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:44008084T>C	uc002own.3	-	2	446	c.187A>G	c.(187-189)AGC>GGC	p.S63G	PHLDB3_uc002owo.2_Missense_Mutation_p.S63G	NM_198850	NP_942147	Q6NSJ2	PHLB3_HUMAN	pleckstrin homology-like domain, family B,	63											0		Prostate(69;0.0153)				TCAGTGCTGCTGCCTTCTCCC	0.682													17	29	---	---	---	---	PASS	C	44008084	C	C	44008084	3	2	27	1	0	0	0	0	1	0	0	0	11853	1580	55	5	1795	5	PHLDB3	19	44008084	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	1656404	44008084	15120899	380	11911										
CKM	1158	broad.mit.edu	37	chr19	45822920	45822920	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gctgaggtcggggtactcctCctcaggcttgtaattcagct	12	11	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:45822920C>A	uc002pbd.2	-	2	126	c.52G>T	c.(52-54)GAG>TAG	p.E18*		NM_001824	NP_001815	P06732	KCRM_HUMAN	muscle creatine kinase	18	Phosphagen kinase N-terminal.				creatine metabolic process	cytosol	ATP binding|creatine kinase activity			skin(1)	1		Ovarian(192;0.0336)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;2.29e-44)|Epithelial(262;1.05e-38)|GBM - Glioblastoma multiforme(486;3.56e-07)	Creatine(DB00148)	GGGTACTCCTCCTCAGGCTTG	0.527													45	77	---	---	---	---	PASS	A	45822920	A	A	45822920	4	1	27	1	0	0	0	0	0	1	0	0	3448	864	30	2	1121	2	CKM	19	45822920	Nonsense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	1814836	45822920	13306063	381	11912										
MED25	81857	broad.mit.edu	37	chr19	50333387	50333387	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ccccctccagtcaaagcagcCagtccccctgcctcccgccg	7	23	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:50333387C>T	uc002ppw.1	+	7	784	c.731C>T	c.(730-732)CCA>CTA	p.P244L	MED25_uc010ybe.1_Intron|MED25_uc002ppx.1_Missense_Mutation_p.P25L	NM_030973	NP_112235	Q71SY5	MED25_HUMAN	mediator complex subunit 25	244	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm				ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00822)|GBM - Glioblastoma multiforme(134;0.0122)		TCAAAGCAGCCAGTCCCCCTG	0.647													47	61	---	---	---	---	PASS	T	50333387	T	T	50333387	3	4	27	1	0	0	0	0	1	0	0	0	9443	594	21	3	757	3	MED25	19	50333387	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	4510467	50333387	8795596	382	11913										
SHANK1	50944	broad.mit.edu	37	chr19	51175289	51175289	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcataccgatagatttttgcCggagcatcaacccaggtcct	9	12	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:51175289C>T	uc002psx.1	-	21	2679	c.2660G>A	c.(2659-2661)CGG>CAG	p.R887Q	SHANK1_uc002psw.1_Missense_Mutation_p.R271Q	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	887					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		AGATTTTTGCCGGAGCATCAA	0.562													5	16	---	---	---	---	PASS	T	51175289	T	T	51175289	3	4	27	1	0	0	0	0	1	0	0	0	14264	652	23	1	3837	1	SHANK1	19	51175289	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	841902	51175289	7953694	383	11914										
KLK15	55554	broad.mit.edu	37	chr19	51329080	51329080	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tcttcatggtttccctgatcCactccaagtagtggcagact	8	12	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:51329080C>T	uc002ptl.2	-	5	774	c.743G>A	c.(742-744)TGG>TAG	p.W248*	KLK1_uc002ptk.1_5'Flank|KLK1_uc010ycg.1_5'Flank|KLK15_uc002ptm.2_Nonsense_Mutation_p.W163*|KLK15_uc002ptn.2_3'UTR|KLK15_uc002pto.2_Nonsense_Mutation_p.W247*|KLK15_uc010ych.1_RNA|KLK15_uc010yci.1_3'UTR|KLK15_uc010eod.2_RNA	NM_017509	NP_059979	Q9H2R5	KLK15_HUMAN	kallikrein-related peptidase 15 isoform 4	248	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)|breast(1)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00758)|GBM - Glioblastoma multiforme(134;0.0143)		TTCCCTGATCCACTCCAAGTA	0.572													15	25	---	---	---	---	PASS	T	51329080	T	T	51329080	4	4	27	1	0	0	0	0	0	1	0	0	8403	595	21	3	31	3	KLK15	19	51329080	Nonsense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	153791	51329080	7799903	384	11915										
LILRB1	10859	broad.mit.edu	37	chr19	55144657	55144657	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	aaataccaggctgaattcccCatgggtcctgtgacctcagc	9	13	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:55144657C>A	uc002qgj.2	+	8	1489	c.1149C>A	c.(1147-1149)CCC>CCA	p.P383P	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Silent_p.P383P|LILRB1_uc002qgk.2_Silent_p.P383P|LILRB1_uc002qgm.2_Silent_p.P383P|LILRB1_uc010erq.2_Silent_p.P383P|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	383	Ig-like C2-type 4.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		CTGAATTCCCCATGGGTCCTG	0.562										HNSCC(37;0.09)			35	70	---	---	---	---	PASS	A	55144657	A	A	55144657	2	1	27	1	0	0	0	0	0	0	0	1	8790	581	21	3		3	LILRB1	19	55144657	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	3815577	55144657	3984326	385	11916										
BRSK1	84446	broad.mit.edu	37	chr19	55805501	55805501	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cctcctggagaccagctgcgGgtgagtggggactgggctcc	17	12	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:55805501G>C	uc002qkg.2	+	5	852	c.575G>C	c.(574-576)GGG>GCG	p.G192A	BRSK1_uc002qkf.2_Missense_Mutation_p.G208A	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	192	Protein kinase.				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)		ACCAGCTGCGGGTGAGTGGGG	0.612													56	108	---	---	---	---	PASS	C	55805501	C	C	55805501	3	2	27	1	0	0	0	0	1	0	0	0	1523	1246	43	4	593	4	BRSK1	19	55805501	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	660844	55805501	3323482	386	11917										
ZSCAN22	342945	broad.mit.edu	37	chr19	58849997	58849997	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atgggacagagcctccatacAcctactcagggaagaggtcc	11	12	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:58849997A>G	uc002qsc.2	+	3	928	c.781A>G	c.(781-783)ACC>GCC	p.T261A	ZSCAN22_uc010yhz.1_Silent_p.T255T	NM_181846	NP_862829	P10073	ZSC22_HUMAN	zinc finger and SCAN domain containing 22	261					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0289)		GCCTCCATACACCTACTCAGG	0.532													84	131	---	---	---	---	PASS	G	58849997	G	G	58849997	3	3	27	1	0	0	0	0	1	0	0	0	18231	159	6	5	787	5	ZSCAN22	19	58849997	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	3044496	58849997	278986	387	11918										
RPS5	6193	broad.mit.edu	37	chr19	58906108	58906108	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctggagcgtgtggccaagtcCaaccgctgattttcccagct	11	13	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr19:58906108C>G	uc002qsn.2	+	6	678	c.606C>G	c.(604-606)TCC>TCG	p.S202S	RPS5_uc002qso.2_Silent_p.S202S	NM_001009	NP_001000	P46782	RS5_HUMAN	ribosomal protein S5	202					endocrine pancreas development|regulation of translational fidelity|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	mRNA binding|structural constituent of ribosome				0		all_cancers(17;1.71e-22)|all_epithelial(17;1.69e-16)|Lung NSC(17;2.25e-06)|all_lung(17;9.97e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Breast(46;0.0194)|Ovarian(87;0.0443)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.171)|GBM - Glioblastoma multiforme(193;0.0323)|Lung(386;0.0543)|LUSC - Lung squamous cell carcinoma(496;0.176)		TGGCCAAGTCCAACCGCTGAT	0.572													24	62	---	---	---	---	PASS	G	58906108	G	G	58906108	2	3	27	1	0	0	0	0	0	0	0	1	13648	581	21	4		4	RPS5	19	58906108	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	56111	58906108	222875	388	11919										
GPCPD1	56261	broad.mit.edu	37	chr20	5554612	5554612	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gtattttcttgaactttagcCagcctgaaaagaagaaatac	7	7	1	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr20:5554612C>T	uc002wme.3	-	11	1218	c.1005G>A	c.(1003-1005)CTG>CTA	p.L335L	GPCPD1_uc002wmd.3_Silent_p.L154L	NM_019593	NP_062539	Q9NPB8	GPCP1_HUMAN	hypothetical protein LOC56261	335	GDPD.				glycerol metabolic process|lipid metabolic process		carbohydrate binding|glycerophosphodiester phosphodiesterase activity				0						GAACTTTAGCCAGCCTGAAAA	0.318													48	40	---	---	---	---	PASS	T	5554612	T	T	5554612	2	4	27	1	0	0	0	0	0	0	0	1	6603	581	21	3		3	GPCPD1	20	5554612	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08		5554612	57470908	389	11920										
SSTR4	6754	broad.mit.edu	37	chr20	23016271	23016271	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cggcgggcatggtcgctatcCagtgcatctacgcgctggtg	15	12	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr20:23016271C>G	uc002wsr.2	+	1	215	c.151C>G	c.(151-153)CAG>GAG	p.Q51E		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	51	Helical; Name=1; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GGTCGCTATCCAGTGCATCTA	0.537													78	48	---	---	---	---	PASS	G	23016271	G	G	23016271	3	3	27	1	0	0	0	0	1	0	0	0	15199	595	21	4	153	4	SSTR4	20	23016271	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	17461659	23016271	40009249	390	11921										
CD93	22918	broad.mit.edu	37	chr20	23065047	23065047	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cagagccagggccagcaggaGtaggatggccaccacggtgc	16	12	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr20:23065047G>T	uc002wsv.2	-	1	1931	c.1783C>A	c.(1783-1785)CTC>ATC	p.L595I		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	595	Helical; (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GCCAGCAGGAGTAGGATGGCC	0.572													46	237	---	---	---	---	PASS	T	23065047	T	T	23065047	3	4	27	1	0	0	0	0	1	0	0	0	3047	1029	36	3	183	3	CD93	20	23065047	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	48776	23065047	39960473	391	11922										
TMEM90B	79953	broad.mit.edu	37	chr20	24524213	24524213	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gaggagttccaggagctggaGgtcacaggatgtgtttgtca	16	6	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr20:24524213G>A	uc002wtw.1	+	2	1113	c.480G>A	c.(478-480)GAG>GAA	p.E160E		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	160	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						AGGAGCTGGAGGTCACAGGAT	0.512													20	118	---	---	---	---	PASS	A	24524213	A	A	24524213	2	1	27	1	0	0	0	0	0	0	0	1	16216	1014	35	3		3	TMEM90B	20	24524213	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	1459166	24524213	38501307	392	11923										
PYGB	5834	broad.mit.edu	37	chr20	25259697	25259697	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cttgtgcgaccttcaggtggCcatccagctgaacgacaccc	10	15	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr20:25259697C>A	uc002wup.2	+	9	1113	c.1004C>A	c.(1003-1005)GCC>GAC	p.A335D		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	335					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	CTTCAGGTGGCCATCCAGCTG	0.607													16	13	---	---	---	---	PASS	A	25259697	A	A	25259697	3	1	27	1	0	0	0	0	1	0	0	0	12860	739	26	3	1038	3	PYGB	20	25259697	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	735484	25259697	37765823	393	11924										
KIAA1755	85449	broad.mit.edu	37	chr20	36850858	36850858	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tggacgtctgtacctgacatCagggctgaagtccagcctgc	12	12	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr20:36850858C>T	uc002xhy.1	-	10	2682	c.2410G>A	c.(2410-2412)GAT>AAT	p.D804N	KIAA1755_uc002xhx.1_Missense_Mutation_p.D82N	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	804										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				TACCTGACATCAGGGCTGAAG	0.637											OREG0025921	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	45	---	---	---	---	PASS	T	36850858	T	T	36850858	3	4	27	1	0	0	0	0	1	0	0	0	8257	826	29	2	1212	2	KIAA1755	20	36850858	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	11591161	36850858	26174662	394	11925										
STK4	6789	broad.mit.edu	37	chr20	43607148	43607148	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agattgttgctattaagcaaGttcctgtggaatcagacctc	9	8	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr20:43607148G>T	uc002xnb.2	+	3	271	c.181G>T	c.(181-183)GTT>TTT	p.V61F	STK4_uc010ggx.2_Missense_Mutation_p.V61F|STK4_uc010ggy.2_Missense_Mutation_p.V61F|STK4_uc010ggw.1_Missense_Mutation_p.V61F	NM_006282	NP_006273	Q13043	STK4_HUMAN	serine/threonine kinase 4	61	Protein kinase.				apoptosis|cell morphogenesis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of apoptosis|protein autophosphorylation	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein homodimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity|transcription factor binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				TATTAAGCAAGTTCCTGTGGA	0.418													27	35	---	---	---	---	PASS	T	43607148	T	T	43607148	3	4	27	1	0	0	0	0	1	0	0	0	15305	1029	36	3	191	3	STK4	20	43607148	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	6756290	43607148	19418372	395	11926										
SLC12A5	57468	broad.mit.edu	37	chr20	44663630	44663630	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agtcccttcatcaacagcacCgacacagagaagggaaagga	10	11	2	1	rs143969641	byFrequency	TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr20:44663630C>G	uc010zxl.1	+	2	241	c.165C>G	c.(163-165)ACC>ACG	p.T55T	SLC12A5_uc002xra.2_Silent_p.T32T|SLC12A5_uc010zxm.1_RNA|SLC12A5_uc002xrb.2_Silent_p.T32T	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	55	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	TCAACAGCACCGACACAGAGA	0.527													13	48	---	---	---	---	PASS	G	44663630	G	G	44663630	2	3	27	1	0	0	0	0	0	0	0	1	14386	639	23	4		4	SLC12A5	20	44663630	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	1056482	44663630	18361890	396	11927										
NFATC2	4773	broad.mit.edu	37	chr20	50049180	50049180	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cacgaggcaggagggggactCggccaccatcgggtgctggg	19	11	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr20:50049180C>T	uc002xwd.2	-	9	2366	c.2146G>A	c.(2146-2148)GAG>AAG	p.E716K	NFATC2_uc002xwc.2_Missense_Mutation_p.E716K|NFATC2_uc010zyv.1_Missense_Mutation_p.E497K|NFATC2_uc010zyw.1_Missense_Mutation_p.E497K|NFATC2_uc010zyx.1_Missense_Mutation_p.E696K|NFATC2_uc010zyy.1_Missense_Mutation_p.E497K|NFATC2_uc010zyz.1_Missense_Mutation_p.E497K|NFATC2_uc002xwe.2_Missense_Mutation_p.E696K	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	716					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					GAGGGGGACTCGGCCACCATC	0.672													19	21	---	---	---	---	PASS	T	50049180	T	T	50049180	3	4	27	1	0	0	0	0	1	0	0	0	10362	893	31	2	687	2	NFATC2	20	50049180	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	5385550	50049180	12976340	397	11928										
NTSR1	4923	broad.mit.edu	37	chr20	61340679	61340679	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggcttcggcaacgcttcgggCaacgcgtcggagcgcgtcct	15	14	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr20:61340679C>G	uc002ydf.2	+	1	491	c.120C>G	c.(118-120)GGC>GGG	p.G40G		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1	40	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			ACGCTTCGGGCAACGCGTCGG	0.731													6	8	---	---	---	---	PASS	G	61340679	G	G	61340679	2	3	27	1	0	0	0	0	0	0	0	1	10710	697	25	4		4	NTSR1	20	61340679	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	11291499	61340679	1684841	398	11929										
KRTAP13-2	337959	broad.mit.edu	37	chr21	31744283	31744283	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctgcagagcaaggaggttctGgggcggtagcaggaggtctg	19	7	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr21:31744283G>T	uc002ynz.3	-	1	275	c.249C>A	c.(247-249)CCC>CCA	p.P83P		NM_181621	NP_853652	Q52LG2	KR132_HUMAN	keratin associated protein 13-2	83	4.|5 X 10 AA approximate repeats.					intermediate filament					0						AGGAGGTTCTGGGGCGGTAGC	0.607													24	6	---	---	---	---	PASS	T	31744283	T	T	31744283	2	4	27	1	0	0	0	0	0	0	0	1	8523	1335	47	3		3	KRTAP13-2	21	31744283	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08		31744283	16385612	399	11930										
TIAM1	7074	broad.mit.edu	37	chr21	32513449	32513449	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ccctcacctcttttttctcaCcagtctgttcagcaatcagc	4	16	6	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr21:32513449C>A	uc002yow.1	-	23	4233	c.3761G>T	c.(3760-3762)GGT>GTT	p.G1254V	TIAM1_uc011adk.1_Missense_Mutation_p.G1254V|TIAM1_uc011adl.1_Missense_Mutation_p.G1194V	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1254					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TTTTTTCTCACCAGTCTGTTC	0.408													18	12	---	---	---	---	PASS	A	32513449	A	A	32513449	3	1	27	1	0	0	0	0	1	0	0	0	15887	507	18	3	1042	3	TIAM1	21	32513449	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	769166	32513449	15616446	400	11931										
TRAPPC10	7109	broad.mit.edu	37	chr21	45494322	45494322	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	actcaaacattgcccacactGtggggctatggagctatgcc	10	12	1	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr21:45494322G>T	uc002zea.2	+	8	1325	c.1156G>T	c.(1156-1158)GTG>TTG	p.V386L	TRAPPC10_uc010gpo.2_Missense_Mutation_p.V97L	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	386					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						TGCCCACACTGTGGGGCTATG	0.572													13	19	---	---	---	---	PASS	T	45494322	T	T	45494322	3	4	27	1	0	0	0	0	1	0	0	0	16454	1377	48	3	1186	3	TRAPPC10	21	45494322	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	12980873	45494322	2635573	401	11932										
CCT8L2	150160	broad.mit.edu	37	chr22	17073187	17073187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cccggaggagccatgctgctGggtgctccagctccagggcc	15	15	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:17073187G>T	uc002zlp.1	-	1	514	c.254C>A	c.(253-255)CCA>CAA	p.P85Q		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	85					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				CCATGCTGCTGGGTGCTCCAG	0.627													12	30	---	---	---	---	PASS	T	17073187	T	T	17073187	3	4	27	1	0	0	0	0	1	0	0	0	2961	1348	47	3	1423	3	CCT8L2	22	17073187	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08		17073187	34231379	402	11933										
SCARF2	91179	broad.mit.edu	37	chr22	20780198	20780198	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gctggggctgggcgcggcctCggagcctggcggcggtggtg	23	11	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:20780198C>T	uc002zsj.1	-	11	2185	c.2080G>A	c.(2080-2082)GAG>AAG	p.E694K	SCARF2_uc002zsk.1_Missense_Mutation_p.E689K	NM_153334	NP_699165	Q96GP6	SREC2_HUMAN	scavenger receptor class F, member 2 isoform 1	689	Pro-rich.|Cytoplasmic (Potential).				cell adhesion	integral to membrane	protein binding|receptor activity			breast(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GGCGCGGCCTCGGAGCCTGGC	0.721													4	13	---	---	---	---	PASS	T	20780198	T	T	20780198	3	4	27	1	0	0	0	0	1	0	0	0	13884	893	31	2	536	2	SCARF2	22	20780198	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	3707011	20780198	30524368	403	11934										
MYO18B	84700	broad.mit.edu	37	chr22	26272168	26272168	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ccctgcagattcgccgactgGctgcacagtgcatccagaag	11	14	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:26272168G>A	uc003abz.1	+	24	4343	c.4093G>A	c.(4093-4095)GCT>ACT	p.A1365T	MYO18B_uc003aca.1_Missense_Mutation_p.A1246T|MYO18B_uc010guy.1_Missense_Mutation_p.A1247T|MYO18B_uc010guz.1_Missense_Mutation_p.A1246T|MYO18B_uc011aka.1_Missense_Mutation_p.A519T|MYO18B_uc011akb.1_Missense_Mutation_p.A878T	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1365	IQ.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TCGCCGACTGGCTGCACAGTG	0.572													5	15	---	---	---	---	PASS	A	26272168	A	A	26272168	3	1	27	1	0	0	0	0	1	0	0	0	10066	1203	42	3	4183	3	MYO18B	22	26272168	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	5491970	26272168	25032398	404	11935										
SEZ6L	23544	broad.mit.edu	37	chr22	26773647	26773647	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tctttcccccagatgtcgctActattccaacctccgcctgc	5	18	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:26773647A>T	uc003acb.2	+	16	3107	c.2951A>T	c.(2950-2952)TAC>TTC	p.Y984F	SEZ6L_uc003acc.2_Missense_Mutation_p.Y983F|SEZ6L_uc011akc.1_Missense_Mutation_p.Y973F|SEZ6L_uc003acd.2_Missense_Mutation_p.Y909F|SEZ6L_uc011akd.1_Missense_Mutation_p.Y971F|SEZ6L_uc003ace.2_Missense_Mutation_p.Y908F|SEZ6L_uc003acf.1_Missense_Mutation_p.Y756F|SEZ6L_uc010gvc.1_Missense_Mutation_p.Y680F|SEZ6L_uc011ake.1_RNA	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	984	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						AGATGTCGCTACTATTCCAAC	0.512													32	40	---	---	---	---	PASS	T	26773647	T	T	26773647	3	4	27	1	0	0	0	0	1	0	0	0	14143	391	14	5	3013	5	SEZ6L	22	26773647	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	501479	26773647	24530919	405	11936										
CHEK2	11200	broad.mit.edu	37	chr22	29092887	29092887	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atacagaatgccaatttcttAcctttataagacagtcctct	4	10	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:29092887A>G	uc003adu.1	-	10	1167	c.1095_splice	c.e10+1	p.K365_splice	CHEK2_uc003ads.1_Splice_Site_p.K144_splice|CHEK2_uc010gvh.1_Splice_Site_p.K274_splice|CHEK2_uc010gvi.1_Intron|CHEK2_uc010gvj.1_Intron|CHEK2_uc003adr.1_Splice_Site|CHEK2_uc010gvk.1_Splice_Site|CHEK2_uc003adt.1_Splice_Site_p.K408_splice|CHEK2_uc003adv.1_Intron|CHEK2_uc003adw.1_Splice_Site_p.K365_splice|CHEK2_uc003adx.1_Splice_Site_p.K144_splice|CHEK2_uc003ady.1_Splice_Site_p.K365_splice|CHEK2_uc003adz.1_Splice_Site_p.K169_splice	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a						cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						CCAATTTCTTACCTTTATAAG	0.358			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				16	18	---	---	---	---	PASS	G	29092887	G	G	29092887	5	3	27	1	0	0	0	0	0	0	1	0	3335	405	14	5	558	5	CHEK2	22	29092887	Splice_Site	SNP	A	TCGA-21-5786-01A-01D-1632-08	2319240	29092887	22211679	406	11937										
RFPL2	10739	broad.mit.edu	37	chr22	32586857	32586857	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atcaccattaggtggaactgAaggagccaaaaatgggcgca	12	8	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:32586857A>T	uc003amg.3	-	5	1975	c.1039T>A	c.(1039-1041)TCA>ACA	p.S347T	RFPL2_uc003ame.3_Missense_Mutation_p.S286T|RFPL2_uc003amf.3_Missense_Mutation_p.S257T|RFPL2_uc003amh.3_Missense_Mutation_p.S257T	NM_001098527	NP_001091997	O75678	RFPL2_HUMAN	ret finger protein-like 2 isoform 2	347	B30.2/SPRY.						zinc ion binding			skin(1)	1						GGTGGAACTGAAGGAGCCAAA	0.488													40	64	---	---	---	---	PASS	T	32586857	T	T	32586857	3	4	27	1	0	0	0	0	1	0	0	0	13254	246	9	5	101	5	RFPL2	22	32586857	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	3493970	32586857	18717709	407	11938										
SYN3	8224	broad.mit.edu	37	chr22	32937569	32937569	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	agactcacatgtaagccttgTagttggatccaattttctgg	9	8	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:32937569T>C	uc003amx.2	-	7	1064	c.905A>G	c.(904-906)TAC>TGC	p.Y302C	SYN3_uc003amy.2_Missense_Mutation_p.Y302C|SYN3_uc003amz.2_Missense_Mutation_p.Y301C	NM_003490	NP_003481	O14994	SYN3_HUMAN	synapsin III isoform IIIa	302	C; actin-binding and synaptic-vesicle binding.				neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1						GTAAGCCTTGTAGTTGGATCC	0.592													15	18	---	---	---	---	PASS	C	32937569	C	C	32937569	3	2	27	1	0	0	0	0	1	0	0	0	15439	1638	57	5	865	5	SYN3	22	32937569	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	350712	32937569	18366997	408	11939										
MCM5	4174	broad.mit.edu	37	chr22	35809887	35809887	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggctccctgatggacttactCgccgaggagacatcaacctg	11	13	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:35809887C>A	uc003anu.3	+	9	1205	c.1111C>A	c.(1111-1113)CGC>AGC	p.R371S	MCM5_uc010gwr.2_Missense_Mutation_p.R180S|MCM5_uc003anv.3_Missense_Mutation_p.R328S|MCM5_uc010gws.1_Intron|MCM5_uc003anw.1_Missense_Mutation_p.R155S	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	371	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						TGGACTTACTCGCCGAGGAGA	0.562													26	30	---	---	---	---	PASS	A	35809887	A	A	35809887	3	1	27	1	0	0	0	0	1	0	0	0	9390	884	31	2	1141	2	MCM5	22	35809887	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2872318	35809887	15494679	409	11940										
SSTR3	6753	broad.mit.edu	37	chr22	37602607	37602607	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tacaggtagctgatgcgcatCgtgctggacttctccccagt	11	12	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:37602607C>G	uc003ara.2	-	2	1298	c.1236G>C	c.(1234-1236)ACG>ACC	p.T412T	SSTR3_uc003arb.2_Silent_p.T412T	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	412	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						TGATGCGCATCGTGCTGGACT	0.657													28	34	---	---	---	---	PASS	G	37602607	G	G	37602607	2	3	27	1	0	0	0	0	0	0	0	1	15198	871	31	2		2	SSTR3	22	37602607	Silent	SNP	C	TCGA-21-5786-01A-01D-1632-08	1792720	37602607	13701959	410	11941										
CACNA1I	8911	broad.mit.edu	37	chr22	40080432	40080432	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcactggcactggaaccctcCccaagattgcgctgcagggc	12	15	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:40080432C>T	uc003ayc.2	+	36	5956	c.5956C>T	c.(5956-5958)CCC>TCC	p.P1986S	CACNA1I_uc003ayd.2_Missense_Mutation_p.P1951S|CACNA1I_uc003aye.2_Missense_Mutation_p.P1901S|CACNA1I_uc003ayf.2_Missense_Mutation_p.P1866S	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1986	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	TGGAACCCTCCCCAAGATTGC	0.637													4	13	---	---	---	---	PASS	T	40080432	T	T	40080432	3	4	27	1	0	0	0	0	1	0	0	0	2546	623	22	3	6098	3	CACNA1I	22	40080432	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2477825	40080432	11224134	411	11942										
TNRC6B	23112	broad.mit.edu	37	chr22	40662558	40662558	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tgtgtctgggtggggtgaagGagggcagaatgaaatcggga	20	3	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:40662558G>T	uc011aor.1	+	5	2535	c.2324G>T	c.(2323-2325)GGA>GTA	p.G775V	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Missense_Mutation_p.G775V|TNRC6B_uc003ayo.2_Missense_Mutation_p.G579V	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	775					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						TGGGGTGAAGGAGGGCAGAAT	0.498													13	11	---	---	---	---	PASS	T	40662558	T	T	40662558	3	4	27	1	0	0	0	0	1	0	0	0	16338	1174	41	2	2463	2	TNRC6B	22	40662558	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	582126	40662558	10642008	412	11943										
EP300	2033	broad.mit.edu	37	chr22	41565529	41565529	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gagtatacatatcttacctcGatagtgttcatttcttccgt	6	9	3	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:41565529G>A	uc003azl.3	+	26	4590	c.4195G>A	c.(4195-4197)GAT>AAT	p.D1399N		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1399				D->Y: Does not interact with TFAP2A and inhibits transcriptional coactivation of TFAP2A by CITED2. Does not inhibit interaction with CITED2, DNA-binding of TFAP2A or nuclear localization of TFAP2A or CITED2.	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	p.D1399Y(1)		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						ATCTTACCTCGATAGTGTTCA	0.338			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				24	46	---	---	---	---	PASS	A	41565529	A	A	41565529	3	1	27	1	0	0	0	0	1	0	0	0	5148	1058	37	2	4297	2	EP300	22	41565529	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	902971	41565529	9739037	413	11944										
MEI1	150365	broad.mit.edu	37	chr22	42159237	42159237	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cttcctcctgtcgctgcaggAccagggcgagcgccccccac	11	19	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chr22:42159237A>T	uc003baz.1	+	19	2205	c.2180A>T	c.(2179-2181)GAC>GTC	p.D727V	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc011apd.1_RNA|MEI1_uc003bbb.1_Missense_Mutation_p.D113V|MEI1_uc003bbc.1_Missense_Mutation_p.D95V|MEI1_uc010gym.1_Missense_Mutation_p.D95V|MEI1_uc003bbd.1_Intron	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	727							binding			central_nervous_system(1)|skin(1)	2						TCGCTGCAGGACCAGGGCGAG	0.527											OREG0026596	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	32	---	---	---	---	PASS	T	42159237	T	T	42159237	3	4	27	1	0	0	0	0	1	0	0	0	9465	275	10	5	2254	5	MEI1	22	42159237	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08	593708	42159237	9145329	414	11945										
SLC25A6	293	broad.mit.edu	37	chrX	1505504	1505504	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ggccgcggcccttagatcacCttcttgagctcgtcgtacag	11	14	2	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:1505504C>G	uc004cpt.2	-	4	984	c.888G>C	c.(886-888)AAG>AAC	p.K296N	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	296	Helical; Name=6; (By similarity).|Solcar 3.				active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	CTTAGATCACCTTCTTGAGCT	0.612													52	73	---	---	---	---	PASS	G	1505504	G	G	1505504	3	3	27	1	0	0	0	0	1	0	0	0	14513	680	24	4	12	4	SLC25A6	23	1505504	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08		1505504	153765056	415	11946										
MAP3K15	389840	broad.mit.edu	37	chrX	19389643	19389643	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	actgagagatgcaactcttcGgaactctgaaaacacacaca	7	11	2	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:19389643G>T	uc004czk.1	-	24	3176	c.1539C>A	c.(1537-1539)TCC>TCA	p.S513S	MAP3K15_uc004czj.1_Silent_p.S473S|MAP3K15_uc004czi.1_5'UTR	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	1038							ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					GCAACTCTTCGGAACTCTGAA	0.468													30	4	---	---	---	---	PASS	T	19389643	T	T	19389643	2	4	27	1	0	0	0	0	0	0	0	1	9249	1103	39	1		1	MAP3K15	23	19389643	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	17884139	19389643	135880917	416	11947										
MAGEB18	286514	broad.mit.edu	37	chrX	26157961	26157961	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gcaagatgaaagtcctggagTttgtagccaagatacatgat	11	6	0	4			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:26157961T>A	uc004dbq.1	+	2	1046	c.859T>A	c.(859-861)TTT>ATT	p.F287I		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	287	MAGE.						protein binding			central_nervous_system(1)	1						AGTCCTGGAGTTTGTAGCCAA	0.522													10	7	---	---	---	---	PASS	A	26157961	A	A	26157961	3	1	27	1	0	0	0	0	1	0	0	0	9175	1725	60	5	861	5	MAGEB18	23	26157961	Missense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	6768318	26157961	129112599	417	11948										
MAGEB6	158809	broad.mit.edu	37	chrX	26212377	26212377	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gatgagaaaagtccaagcacTtcccatgatgtctccgttcc	8	12	1	2	rs138255352	by1000genomes	TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:26212377T>A	uc004dbr.2	+	2	563	c.414T>A	c.(412-414)ACT>ACA	p.T138T	MAGEB6_uc010ngc.1_5'UTR	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	138	Ser-rich.									ovary(3)	3						GTCCAAGCACTTCCCATGATG	0.537													35	8	---	---	---	---	PASS	A	26212377	A	A	26212377	2	1	27	1	0	0	0	0	0	0	0	1	9179	1596	56	5		5	MAGEB6	23	26212377	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	54416	26212377	129058183	418	11949										
FAM47A	158724	broad.mit.edu	37	chrX	34148160	34148160	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gccaggcatttcatagccctTgcttagaatgaaatccttaa	7	10	1	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:34148160T>A	uc004ddg.2	-	1	2269	c.2236A>T	c.(2236-2238)AAG>TAG	p.K746*		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	746										ovary(4)|central_nervous_system(1)	5						TCATAGCCCTTGCTTAGAATG	0.413													59	20	---	---	---	---	PASS	A	34148160	A	A	34148160	4	1	27	1	0	0	0	0	0	1	0	0	5569	1821	63	5	143	5	FAM47A	23	34148160	Nonsense_Mutation	SNP	T	TCGA-21-5786-01A-01D-1632-08	7935783	34148160	121122400	419	11950										
SLC7A3	84889	broad.mit.edu	37	chrX	70148090	70148090	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	cgaaaggcacaaatcctccaGagcccagaggacccaagcta	9	14	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:70148090G>A	uc004dyn.2	-	5	883	c.725C>T	c.(724-726)TCT>TTT	p.S242F	SLC7A3_uc004dyo.2_Missense_Mutation_p.S242F	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	242	Helical; Name=6; (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AAATCCTCCAGAGCCCAGAGG	0.488													7	3	---	---	---	---	PASS	A	70148090	A	A	70148090	3	1	27	1	0	0	0	0	1	0	0	0	14698	942	33	2	1166	2	SLC7A3	23	70148090	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	35999930	70148090	85122470	420	11951										
CXCR3	2833	broad.mit.edu	37	chrX	70836893	70836893	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tagcggtcaaagctgatgcaGgccagcaggagggctcctgc	15	11	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:70836893G>C	uc004eaf.2	-	2	497	c.429C>G	c.(427-429)GCC>GCG	p.A143A	BCYRN1_uc011mpt.1_Intron|CXCR3_uc011mpx.1_Silent_p.A190A	NM_001504	NP_001495	P49682	CXCR3_HUMAN	chemokine (C-X-C motif) receptor 3 isoform A	143	Helical; Name=3; (Potential).				cell adhesion|cellular component movement|chemotaxis|elevation of cytosolic calcium ion concentration	cytoplasm|integral to plasma membrane	C-X-C chemokine receptor activity			ovary(2)|central_nervous_system(1)	3	Renal(35;0.156)					AGCTGATGCAGGCCAGCAGGA	0.522													4	4	---	---	---	---	PASS	C	70836893	C	C	70836893	2	2	27	1	0	0	0	0	0	0	0	1	4092	987	35	4		4	CXCR3	23	70836893	Silent	SNP	G	TCGA-21-5786-01A-01D-1632-08	688803	70836893	84433667	421	11952										
ITM2A	9452	broad.mit.edu	37	chrX	78619025	78619025	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	catctcccagaggagccctcTttttcctgggtggcaactcg	10	14	2	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:78619025T>C	uc004edh.2	-	2	473	c.138A>G	c.(136-138)AAA>AAG	p.K46K	ITM2A_uc011mqr.1_Intron	NM_004867	NP_004858	O43736	ITM2A_HUMAN	integral membrane protein 2A	46						integral to membrane	protein binding			lung(2)	2						AGGAGCCCTCTTTTTCCTGGG	0.403													7	5	---	---	---	---	PASS	C	78619025	C	C	78619025	2	2	27	1	0	0	0	0	0	0	0	1	7912	1606	56	5		5	ITM2A	23	78619025	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	7782132	78619025	76651535	422	11953										
TGIF2LX	90316	broad.mit.edu	37	chrX	89177512	89177512	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gagcaccgaggcgtctgtgcCggccaagtcagggcccagtg	16	13	2	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:89177512C>A	uc004efe.2	+	2	477	c.428C>A	c.(427-429)CCG>CAG	p.P143Q		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	143						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GCGTCTGTGCCGGCCAAGTCA	0.587													28	11	---	---	---	---	PASS	A	89177512	A	A	89177512	3	1	27	1	0	0	0	0	1	0	0	0	15824	652	23	1	430	1	TGIF2LX	23	89177512	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	10558487	89177512	66093048	423	11954										
PCDH11X	27328	broad.mit.edu	37	chrX	91134039	91134039	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctttcaagcccgacagccctGatttggcccgacactacaaa	7	15	1	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:91134039G>T	uc004efk.1	+	2	3645	c.2800G>T	c.(2800-2802)GAT>TAT	p.D934Y	PCDH11X_uc004efl.1_Missense_Mutation_p.D934Y|PCDH11X_uc004efo.1_Missense_Mutation_p.D934Y|PCDH11X_uc010nmv.1_Missense_Mutation_p.D934Y|PCDH11X_uc004efm.1_Missense_Mutation_p.D934Y|PCDH11X_uc004efn.1_Missense_Mutation_p.D934Y|PCDH11X_uc004efh.1_Missense_Mutation_p.D934Y|PCDH11X_uc004efj.1_Missense_Mutation_p.D934Y	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	934	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CGACAGCCCTGATTTGGCCCG	0.473													67	14	---	---	---	---	PASS	T	91134039	T	T	91134039	3	4	27	1	0	0	0	0	1	0	0	0	11508	1290	45	2	2806	2	PCDH11X	23	91134039	Missense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	1956527	91134039	64136521	424	11955										
DRP2	1821	broad.mit.edu	37	chrX	100509889	100509889	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gccacacgccgacacacactCccgaattgagcattttgcca	7	16	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:100509889C>T	uc004egz.2	+	19	2525	c.2156C>T	c.(2155-2157)TCC>TTC	p.S719F	DRP2_uc011mrh.1_Missense_Mutation_p.S641F	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	719					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						GACACACACTCCCGAATTGAG	0.577													38	17	---	---	---	---	PASS	T	100509889	T	T	100509889	3	4	27	1	0	0	0	0	1	0	0	0	4764	855	30	2	2222	2	DRP2	23	100509889	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	9375850	100509889	54760671	425	11956										
KIAA1210	57481	broad.mit.edu	37	chrX	118221161	118221161	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	gggccctttgatgacatctgTggctggaatttagacctatc	11	9	1	3			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:118221161T>C	uc004era.3	-	11	4032	c.4032A>G	c.(4030-4032)CCA>CCG	p.P1344P		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1344										ovary(4)|skin(1)	5						ATGACATCTGTGGCTGGAATT	0.483													148	45	---	---	---	---	PASS	C	118221161	C	C	118221161	2	2	27	1	0	0	0	0	0	0	0	1	8214	1683	59	5		5	KIAA1210	23	118221161	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	17711272	118221161	37049399	426	11957										
SAGE1	55511	broad.mit.edu	37	chrX	134993741	134993741	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tttcatttggattccagatgCtactgtcattcacgatatcc	6	10	3	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:134993741C>A	uc004ezh.2	+	18	2317	c.2150C>A	c.(2149-2151)GCT>GAT	p.A717D	SAGE1_uc010nry.1_Missense_Mutation_p.A686D|SAGE1_uc011mvv.1_Missense_Mutation_p.A341D	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	717										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					ATTCCAGATGCTACTGTCATT	0.433													48	16	---	---	---	---	PASS	A	134993741	A	A	134993741	3	1	27	1	0	0	0	0	1	0	0	0	13809	797	28	3	2216	3	SAGE1	23	134993741	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	16772580	134993741	20276819	427	11958										
GPR112	139378	broad.mit.edu	37	chrX	135428121	135428121	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	acatccataaccaatatgccTgaatttaaacttaccacttt	2	11	0	1			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:135428121T>A	uc004ezu.1	+	6	2547	c.2256T>A	c.(2254-2256)CCT>CCA	p.P752P	GPR112_uc010nsb.1_Silent_p.P547P|GPR112_uc010nsc.1_Silent_p.P519P	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	752	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					CCAATATGCCTGAATTTAAAC	0.378													28	16	---	---	---	---	PASS	A	135428121	A	A	135428121	2	1	27	1	0	0	0	0	0	0	0	1	6629	1567	55	5		5	GPR112	23	135428121	Silent	SNP	T	TCGA-21-5786-01A-01D-1632-08	434380	135428121	19842439	428	11959										
CXorf66	347487	broad.mit.edu	37	chrX	139038632	139038632	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	atgacttgcttaatttttttGagcatgatgacttggatgac	9	5	0	5			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:139038632G>C	uc004fbb.2	-	3	531	c.509C>G	c.(508-510)TCA>TGA	p.S170*		NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor	170	Ser-rich.|Cytoplasmic (Potential).					integral to membrane					0						TAATTTTTTTGAGCATGATGA	0.398													136	51	---	---	---	---	PASS	C	139038632	C	C	139038632	4	2	27	1	0	0	0	0	0	1	0	0	4118	1294	45	2	580	2	CXorf66	23	139038632	Nonsense_Mutation	SNP	G	TCGA-21-5786-01A-01D-1632-08	3610511	139038632	16231928	429	11960										
AVPR2	554	broad.mit.edu	37	chrX	153171711	153171711	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	ctggggggcgccgcaggggaCgccggacaggcagccccggt	20	14	0	0	rs113115774		TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:153171711C>A	uc004fjh.3	+	2	822	c.751C>A	c.(751-753)CGC>AGC	p.R251S	AVPR2_uc004fjg.3_Missense_Mutation_p.R40S|AVPR2_uc004fji.2_Missense_Mutation_p.R251S	NM_000054	NP_000045	P30518	V2R_HUMAN	arginine vasopressin receptor 2 isoform 1	251	Cytoplasmic (Potential).				activation of adenylate cyclase activity|excretion|G-protein signaling, coupled to cAMP nucleotide second messenger|hemostasis|positive regulation of gene expression|transmembrane transport|water transport	endoplasmic reticulum|endosome|Golgi apparatus|integral to plasma membrane	vasopressin receptor activity			breast(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Conivaptan(DB00872)|Terlipressin(DB02638)|Vasopressin(DB00067)	CCGCAGGGGACGCCGGACAGG	0.647													33	9	---	---	---	---	PASS	A	153171711	A	A	153171711	3	1	27	1	0	0	0	0	1	0	0	0	1233	536	19	1	757	1	AVPR2	23	153171711	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	14133079	153171711	2098849	430	11961										
IL9R	3581	broad.mit.edu	37	chrX	155239643	155239643	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tggaggaggaacaggagggcCctgggaccaggctcccgggg	20	10	0	0			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrX:155239643C>G	uc004fnv.1	+	9	1314	c.1135C>G	c.(1135-1137)CCT>GCT	p.P379A	IL9R_uc004fnu.1_3'UTR	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor	379	Cytoplasmic (Potential).				cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					ACAGGAGGGCCCTGGGACCAG	0.647													14	36	---	---	---	---	PASS	G	155239643	G	G	155239643	3	3	27	1	0	0	0	0	1	0	0	0	7708	623	22	4	1169	4	IL9R	23	155239643	Missense_Mutation	SNP	C	TCGA-21-5786-01A-01D-1632-08	2067932	155239643	30917	431	11962										
TBL1Y	90665	broad.mit.edu	37	chrY	6938804	6938804	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0377358490566038	16	0.891169791169396	0.806894557232923	1.4288757784333	0.467632072941807	0.387032616408581	0.787411185107113	0	tatggaacctgaatgagaatAgcaacgggggctccacccag	12	10	0	2			TCGA-21-5786-01A-01D-1632-08	TCGA-21-5786-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	d7404e0f-d171-419b-97d3-807570aba129	6f23b703-d797-4ed4-af3a-b68993090c8b	g.chrY:6938804A>T	uc004frb.2	+	10	1281	c.634A>T	c.(634-636)AGC>TGC	p.S212C	TBL1Y_uc004frc.2_Missense_Mutation_p.S212C|TBL1Y_uc004frd.2_Missense_Mutation_p.S212C|TBL1Y_uc011nap.1_Missense_Mutation_p.S54C	NM_033284	NP_150600	Q9BQ87	TBL1Y_HUMAN	transducin beta-like 1Y	212	WD 1.				transcription, DNA-dependent						0						GAATGAGAATAGCAACGGGGG	0.483													38	13	---	---	---	---	PASS	T	6938804	T	T	6938804	3	4	27	1	0	0	0	0	1	0	0	0	15638	420	15	5	652	5	TBL1Y	24	6938804	Missense_Mutation	SNP	A	TCGA-21-5786-01A-01D-1632-08		6938804	52434762	432	11963										
PUSL1	126789	broad.mit.edu	37	chr1	1244324	1244324	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggccgtcaggggcactcagcGcgccgtcggggtccagaact	16	14	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:1244324G>T	uc001aed.2	+	2	137	c.107G>T	c.(106-108)CGC>CTC	p.R36L	ACAP3_uc001aeb.2_5'Flank|ACAP3_uc001aec.1_Intron|PUSL1_uc010nyi.1_Intron|PUSL1_uc009vjx.2_5'Flank	NM_153339	NP_699170	Q8N0Z8	PUSL1_HUMAN	pseudouridylate synthase-like 1	36					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			skin(1)	1	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;4.95e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GGCACTCAGCGCGCCGTCGGG	0.771													3	3	---	---	---	---	PASS	T	1244324	T	T	1244324	3	4	28	1	0	0	0	0	1	0	0	0	12835	1087	38	1	113	1	PUSL1	1	1244324	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08		1244324	248006297	1	11964										
VPS13D	55187	broad.mit.edu	37	chr1	12557583	12557583	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acagagggttcggaaaccgcGttgctgcacggggccccagg	16	12	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:12557583G>T	uc001atv.2	+	68	12833	c.12692G>T	c.(12691-12693)CGT>CTT	p.R4231L	VPS13D_uc001atw.2_Missense_Mutation_p.R4206L|VPS13D_uc001atx.2_Missense_Mutation_p.R3418L|VPS13D_uc009vnl.2_RNA|VPS13D_uc010obd.1_Missense_Mutation_p.R229L	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	4230					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		CGGAAACCGCGTTGCTGCACG	0.507													6	47	---	---	---	---	PASS	T	12557583	T	T	12557583	3	4	28	1	0	0	0	0	1	0	0	0	17189	1145	40	1	12958	1	VPS13D	1	12557583	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	11313259	12557583	236693038	2	11965										
SPEN	23013	broad.mit.edu	37	chr1	16259730	16259730	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgttcggaaagacaaagggcGccagaaaacaacccgatcac	10	11	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:16259730G>A	uc001axk.1	+	11	7199	c.6995G>A	c.(6994-6996)CGC>CAC	p.R2332H	SPEN_uc010obp.1_Missense_Mutation_p.R2291H	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2332	RID.|Interaction with MSX2 (By similarity).				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GACAAAGGGCGCCAGAAAACA	0.502													4	46	---	---	---	---	PASS	A	16259730	A	A	16259730	3	1	28	1	0	0	0	0	1	0	0	0	15037	1087	38	1	7037	1	SPEN	1	16259730	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	3702147	16259730	232990891	3	11966										
C1orf64	149563	broad.mit.edu	37	chr1	16332412	16332412	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttggtcttttcctctcttctAggtgggaagctggctggcca	12	10	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:16332412A>T	uc001axn.2	+	2	151	c.83_splice	c.e2-2	p.G28_splice		NM_178840	NP_849162	Q8NEQ6	CA064_HUMAN	hypothetical protein LOC149563											breast(2)	2		Colorectal(325;0.000435)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;3.25e-07)|COAD - Colon adenocarcinoma(227;2.08e-05)|BRCA - Breast invasive adenocarcinoma(304;9.19e-05)|Kidney(64;0.000165)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.0114)|READ - Rectum adenocarcinoma(331;0.0649)		CCTCTCTTCTAGGTGGGAAGC	0.398													66	200	---	---	---	---	PASS	T	16332412	T	T	16332412	5	4	28	1	0	0	0	0	0	0	1	0	2054	434	15	5	87	5	C1orf64	1	16332412	Splice_Site	SNP	A	TCGA-21-5787-01A-01D-1632-08	72682	16332412	232918209	4	11967										
ATP13A2	23400	broad.mit.edu	37	chr1	17331277	17331277	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gccccaactgccgcctggctCcggccatcctctgcctggga	11	19	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:17331277C>A	uc001baa.2	-	5	577	c.387G>T	c.(385-387)CGG>CGT	p.R129R	ATP13A2_uc001bab.2_Silent_p.R129R|ATP13A2_uc001bac.2_Silent_p.R129R	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	129	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		CCGCCTGGCTCCGGCCATCCT	0.667													17	54	---	---	---	---	PASS	A	17331277	A	A	17331277	2	1	28	1	0	0	0	0	0	0	0	1	1124	842	30	2		2	ATP13A2	1	17331277	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	998865	17331277	231919344	5	11968										
PADI3	51702	broad.mit.edu	37	chr1	17594354	17594354	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctggaagacatgtctgtcatGgtcctgcggacgcagggccc	14	12	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:17594354G>T	uc001bai.2	+	6	589	c.549G>T	c.(547-549)ATG>ATT	p.M183I		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	183					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	TGTCTGTCATGGTCCTGCGGA	0.587													12	44	---	---	---	---	PASS	T	17594354	T	T	17594354	3	4	28	1	0	0	0	0	1	0	0	0	11379	1348	47	3	571	3	PADI3	1	17594354	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	263077	17594354	231656267	6	11969										
PDIK1L	149420	broad.mit.edu	37	chr1	26448341	26448341	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cttgtagcttgtagaaacttCattaaaaggagaaattgcct	8	6	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:26448341C>T	uc010oew.1	+	3	572	c.299C>T	c.(298-300)TCA>TTA	p.S100L	PDIK1L_uc001blj.3_Missense_Mutation_p.S100L|PDIK1L_uc009vsb.2_Missense_Mutation_p.S100L	NM_152835	NP_690048	Q8N165	PDK1L_HUMAN	PDLIM1 interacting kinase 1 like	100	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity				0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00239)|all_lung(284;0.00366)|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;7.32e-26)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000735)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.015)|READ - Rectum adenocarcinoma(331;0.0649)		GTAGAAACTTCATTAAAAGGA	0.333													17	70	---	---	---	---	PASS	T	26448341	T	T	26448341	3	4	28	1	0	0	0	0	1	0	0	0	11673	838	29	2	305	2	PDIK1L	1	26448341	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	8853987	26448341	222802280	7	11970										
BAI2	576	broad.mit.edu	37	chr1	32210249	32210249	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gggaggcgggcccgagttacCtgtctgcgccatgtatagcc	15	12	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:32210249C>A	uc001btn.2	-	5	1276	c.922G>T	c.(922-924)GGC>TGC	p.G308C	BAI2_uc010ogo.1_Missense_Mutation_p.V5L|BAI2_uc010ogp.1_Missense_Mutation_p.V296L|BAI2_uc010ogq.1_Missense_Mutation_p.G308C|BAI2_uc001bto.2_Missense_Mutation_p.G308C|BAI2_uc001btq.1_Missense_Mutation_p.G296C|BAI2_uc010ogr.1_Missense_Mutation_p.V296L	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	308	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)		CCCGAGTTACCTGTCTGCGCC	0.627													7	11	---	---	---	---	PASS	A	32210249	A	A	32210249	3	1	28	1	0	0	0	0	1	0	0	0	1299	695	24	3	3951	3	BAI2	1	32210249	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	5761908	32210249	217040372	8	11971										
ZMYM1	79830	broad.mit.edu	37	chr1	35580552	35580552	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caaagcttaactttgtcataGatgatagttgcataaacttc	6	7	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:35580552G>C	uc001bym.2	+	11	3269	c.3121G>C	c.(3121-3123)GAT>CAT	p.D1041H	ZMYM1_uc001byn.2_Missense_Mutation_p.D1041H|ZMYM1_uc010ohu.1_Missense_Mutation_p.D1022H|ZMYM1_uc001byo.2_Missense_Mutation_p.D681H|ZMYM1_uc009vut.2_Missense_Mutation_p.D966H	NM_024772	NP_079048	Q5SVZ6	ZMYM1_HUMAN	zinc finger, MYM domain containing 1	1041						nucleus	nucleic acid binding|protein dimerization activity|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CTTTGTCATAGATGATAGTTG	0.333													9	109	---	---	---	---	PASS	C	35580552	C	C	35580552	3	2	28	1	0	0	0	0	1	0	0	0	17696	942	33	2	3155	2	ZMYM1	1	35580552	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	3370303	35580552	213670069	9	11972										
KIAA0754	643314	broad.mit.edu	37	chr1	39877045	39877045	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aaagagaacaagcaaacacaGcagtggtggaggatggatcc	13	7	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:39877045G>T	uc009vvt.1	+	1	1870	c.1108G>T	c.(1108-1110)GCA>TCA	p.A370S	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc010oiu.1_Intron	NM_015038	NP_055853	O94854	K0754_HUMAN	hypothetical protein LOC643314	234											0	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	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)			AGCAAACACAGCAGTGGTGGA	0.478											OREG0013393	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	62	---	---	---	---	PASS	T	39877045	T	T	39877045	3	4	28	1	0	0	0	0	1	0	0	0	8192	971	34	3	1110	3	KIAA0754	1	39877045	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	4296493	39877045	209373576	10	11973										
B4GALT2	8704	broad.mit.edu	37	chr1	44446880	44446880	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gagcgcgtctgcaaggctgtGctccttctctgcctgctgca	12	14	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:44446880G>A	uc001clg.2	+	2	418	c.48G>A	c.(46-48)GTG>GTA	p.V16V	B4GALT2_uc001clh.2_5'UTR|B4GALT2_uc010okl.1_Silent_p.V45V|B4GALT2_uc001cli.2_Silent_p.V16V	NM_003780	NP_003771	O60909	B4GT2_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	16	Helical; Signal-anchor for type II membrane protein; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			N-Acetyl-D-glucosamine(DB00141)	GCAAGGCTGTGCTCCTTCTCT	0.687													6	36	---	---	---	---	PASS	A	44446880	A	A	44446880	2	1	28	1	0	0	0	0	0	0	0	1	1271	1306	46	3		3	B4GALT2	1	44446880	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	4569835	44446880	204803741	11	11974										
KLF17	128209	broad.mit.edu	37	chr1	44595240	44595240	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctgcctgagcgtggtatgagCtactgcccccaagcgactct	11	14	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:44595240C>T	uc001clp.2	+	2	355	c.297C>T	c.(295-297)AGC>AGT	p.S99S	KLF17_uc009vxf.1_Silent_p.S62S	NM_173484	NP_775755	Q5JT82	KLF17_HUMAN	zinc finger protein 393	99					regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					GTGGTATGAGCTACTGCCCCC	0.557													12	57	---	---	---	---	PASS	T	44595240	T	T	44595240	2	4	28	1	0	0	0	0	0	0	0	1	8345	796	28	3		3	KLF17	1	44595240	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	148360	44595240	204655381	12	11975										
MAST2	23139	broad.mit.edu	37	chr1	46485316	46485316	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tggcttttgtgatgcagctgGtgaaaaagctgatgattatc	12	5	0	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:46485316G>A	uc001cov.2	+	11	1520	c.1237G>A	c.(1237-1239)GTG>ATG	p.V413M	MAST2_uc001cow.2_Missense_Mutation_p.V413M|MAST2_uc001coy.1_Intron|MAST2_uc001coz.1_Missense_Mutation_p.V298M|MAST2_uc009vya.2_Missense_Mutation_p.V335M|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	413					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)					GATGCAGCTGGTGAAAAAGCT	0.507													11	38	---	---	---	---	PASS	A	46485316	A	A	46485316	3	1	28	1	0	0	0	0	1	0	0	0	9325	1261	44	3	1279	3	MAST2	1	46485316	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1890076	46485316	202765305	13	11976										
PRKAA2	5563	broad.mit.edu	37	chr1	57159485	57159485	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aatttctgagaactagttgcGgatctccaaattatgcagca	8	8	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:57159485G>C	uc001cyk.3	+	5	594	c.523G>C	c.(523-525)GGA>CGA	p.G175R		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	175	Protein kinase.				carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						AACTAGTTGCGGATCTCCAAA	0.308													16	80	---	---	---	---	PASS	C	57159485	C	C	57159485	3	2	28	1	0	0	0	0	1	0	0	0	12494	1117	39	4	541	4	PRKAA2	1	57159485	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	10674169	57159485	192091136	14	11977										
LRRIQ3	127255	broad.mit.edu	37	chr1	74648457	74648457	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cagataatacacatatattcTttaactttgcaaacccattg	3	9	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:74648457T>A	uc001dfy.3	-	3	530	c.338A>T	c.(337-339)AAG>ATG	p.K113M	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	113	LRR 3.									ovary(2)	2						ACATATATTCTTTAACTTTGC	0.333													14	49	---	---	---	---	PASS	A	74648457	A	A	74648457	3	1	28	1	0	0	0	0	1	0	0	0	9030	1609	56	5	1560	5	LRRIQ3	1	74648457	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	17488972	74648457	174602164	15	11978										
C1orf173	127254	broad.mit.edu	37	chr1	75038038	75038038	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	catcagatcccatttcatttGggggagcttttgtctcttcc	8	11	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:75038038G>A	uc001dgg.2	-	14	3575	c.3356C>T	c.(3355-3357)CCA>CTA	p.P1119L		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1119	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CATTTCATTTGGGGGAGCTTT	0.443													50	60	---	---	---	---	PASS	A	75038038	A	A	75038038	3	1	28	1	0	0	0	0	1	0	0	0	2014	1348	47	3	1240	3	C1orf173	1	75038038	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	389581	75038038	174212583	16	11979										
FUBP1	8880	broad.mit.edu	37	chr1	78422308	78422324	+	Frame_Shift_Del	DEL	GTGGCTGTGCTTGCTGT	-	-													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acctgcaggggctgctggtgGtggctgtgcttgctgttgat							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:78422308_78422324delGTGGCTGTGCTTGCTGT	uc001dii.2	-	17	1727_1743	c.1638_1654delACAGCAAGCACAGCCAC	c.(1636-1656)CAACAGCAAGCACAGCCACCAfs	p.Q546fs	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Frame_Shift_Del_p.Q567fs	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	546_552	Pro-rich.				transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						GCTGCTGGTGGTGGCTGTGCTTGCTGTTGATAATAGT	0.433													62	30	---	---	---	---		-	78422324	-	-	78422308	7	5	28	1	0	1	0	1	0	0	0	0	6092	1261	44	0	296	0	FUBP1	1	78422308	Frame_Shift_Del	DEL	GTGGCTGTGCTTGCTGT	TCGA-21-5787-01A-01D-1632-08	3384270	78422308	170828313	17	11980										
MCOLN2	255231	broad.mit.edu	37	chr1	85412758	85412758	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tttacattcttcaattttggCatcactgtcaaaatagattt	4	7	4	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:85412758C>A	uc001dkm.2	-	7	1046	c.805G>T	c.(805-807)GCC>TCC	p.A269S	MCOLN2_uc001dkn.2_RNA	NM_153259	NP_694991	Q8IZK6	MCLN2_HUMAN	mucolipin 2	269						integral to membrane	ion channel activity			ovary(3)|upper_aerodigestive_tract(1)	4				all cancers(265;0.0111)|Epithelial(280;0.0263)|OV - Ovarian serous cystadenocarcinoma(397;0.217)		TCAATTTTGGCATCACTGTCA	0.313													30	58	---	---	---	---	PASS	A	85412758	A	A	85412758	3	1	28	1	0	0	0	0	1	0	0	0	9396	710	25	3	927	3	MCOLN2	1	85412758	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	6990450	85412758	163837863	18	11981										
MCOLN3	55283	broad.mit.edu	37	chr1	85487781	85487781	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggtaaggccccagcacgatcCatccacagaagcagtaacct	9	14	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:85487781C>A	uc001dkp.2	-	11	1385	c.1292G>T	c.(1291-1293)TGG>TTG	p.W431L	MCOLN3_uc001dko.2_Missense_Mutation_p.W50L|MCOLN3_uc001dkq.2_Missense_Mutation_p.W375L	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	431	Helical; (Potential).					integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		CAGCACGATCCATCCACAGAA	0.453													15	86	---	---	---	---	PASS	A	85487781	A	A	85487781	3	1	28	1	0	0	0	0	1	0	0	0	9397	595	21	3	381	3	MCOLN3	1	85487781	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	75023	85487781	163762840	19	11982										
TGFBR3	7049	broad.mit.edu	37	chr1	92178020	92178020	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	taatggtgtaatgagacatcCtatcagggttcgaatatgga	11	5	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:92178020C>A	uc001doh.2	-	13	2412	c.1946G>T	c.(1945-1947)AGG>ATG	p.R649M	TGFBR3_uc009wde.2_Intron|TGFBR3_uc010osy.1_Missense_Mutation_p.R607M|TGFBR3_uc001doi.2_Missense_Mutation_p.R648M|TGFBR3_uc001doj.2_Missense_Mutation_p.R648M	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	649	ZP.|Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		ATGAGACATCCTATCAGGGTT	0.403													16	55	---	---	---	---	PASS	A	92178020	A	A	92178020	3	1	28	1	0	0	0	0	1	0	0	0	15820	681	24	3	629	3	TGFBR3	1	92178020	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	6690239	92178020	157072601	20	11983										
DNTTIP2	30836	broad.mit.edu	37	chr1	94342030	94342030	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gttgtgtcaattacaaacaaTgcattgtcacatgacagact	7	8	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:94342030T>A	uc001dqf.2	-	2	1499	c.1461A>T	c.(1459-1461)GCA>GCT	p.A487A	DNTTIP2_uc010otm.1_RNA|DNTTIP2_uc009wdo.1_Silent_p.A282A	NM_014597	NP_055412	Q5QJE6	TDIF2_HUMAN	deoxynucleotidyltransferase, terminal,	487					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_lung(203;0.0111)|Lung NSC(277;0.0347)		all cancers(265;0.00679)|GBM - Glioblastoma multiforme(16;0.0278)|Epithelial(280;0.128)		TTACAAACAATGCATTGTCAC	0.358													23	34	---	---	---	---	PASS	A	94342030	A	A	94342030	2	1	28	1	0	0	0	0	0	0	0	1	4682	1451	51	5		5	DNTTIP2	1	94342030	Silent	SNP	T	TCGA-21-5787-01A-01D-1632-08	2164010	94342030	154908591	21	11984										
VCAM1	7412	broad.mit.edu	37	chr1	101200237	101200237	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcgcctataccatccgaaagGcccagttgaaggatgcggga	13	11	0	1	rs146573744		TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:101200237G>T	uc001dti.2	+	8	2092	c.1972G>T	c.(1972-1974)GCC>TCC	p.A658S	VCAM1_uc001dtj.2_Missense_Mutation_p.A566S|VCAM1_uc010ouj.1_Missense_Mutation_p.A596S	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	658	Ig-like C2-type 7.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	CATCCGAAAGGCCCAGTTGAA	0.388													41	38	---	---	---	---	PASS	T	101200237	T	T	101200237	3	4	28	1	0	0	0	0	1	0	0	0	17134	1203	42	3	2002	3	VCAM1	1	101200237	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	6858207	101200237	148050384	22	11985										
GNAI3	2773	broad.mit.edu	37	chr1	110134722	110134722	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atgccagtttgaagatctgaAcagaagaaaagataccaagg	10	6	1	6			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:110134722A>G	uc001dxz.2	+	8	1089	c.932A>G	c.(931-933)AAC>AGC	p.N311S		NM_006496	NP_006487	P08754	GNAI3_HUMAN	guanine nucleotide binding protein (G protein),	311					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|metabotropic serotonin receptor binding|signal transducer activity			ovary(1)	1		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.046)|Colorectal(144;0.119)|Epithelial(280;0.139)|all cancers(265;0.147)|LUSC - Lung squamous cell carcinoma(189;0.237)		GAAGATCTGAACAGAAGAAAA	0.403													13	50	---	---	---	---	PASS	G	110134722	G	G	110134722	3	3	28	1	0	0	0	0	1	0	0	0	6506	43	2	5	962	5	GNAI3	1	110134722	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	8934485	110134722	139115899	23	11986										
WNT2B	7482	broad.mit.edu	37	chr1	113058889	113058889	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tacacccgtggccgacaccaTgaccagcgtggggactttga	12	13	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:113058889T>A	uc001ecb.2	+	3	1046	c.531T>A	c.(529-531)CAT>CAA	p.H177Q	WNT2B_uc001eca.2_Missense_Mutation_p.H158Q|WNT2B_uc009wgg.2_Missense_Mutation_p.H85Q	NM_024494	NP_078613	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family,	177					chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity			ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCCGACACCATGACCAGCGTG	0.582													20	73	---	---	---	---	PASS	A	113058889	A	A	113058889	3	1	28	1	0	0	0	0	1	0	0	0	17384	1461	51	5	674	5	WNT2B	1	113058889	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	2924167	113058889	136191732	24	11987										
CASQ2	845	broad.mit.edu	37	chr1	116280898	116280898	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtttgatgtagtcttcaatgCgttcgaaggcttggacttcc	11	8	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:116280898C>A	uc001efx.3	-	4	743	c.479G>T	c.(478-480)CGC>CTC	p.R160L	CASQ2_uc010owu.1_Intron	NM_001232	NP_001223	O14958	CASQ2_HUMAN	cardiac calsequestrin 2 precursor	160					heart development|striated muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;1.25e-06)|all_epithelial(167;1.02e-06)|all_lung(203;8.03e-06)|Lung NSC(69;5.01e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		GTCTTCAATGCGTTCGAAGGC	0.448													30	128	---	---	---	---	PASS	A	116280898	A	A	116280898	3	1	28	1	0	0	0	0	1	0	0	0	2681	768	27	1	752	1	CASQ2	1	116280898	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3222009	116280898	132969723	25	11988										
ITGA10	8515	broad.mit.edu	37	chr1	145538010	145538010	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgacctttctgctagagtttGagtttagctgctcctctctc	8	11	2	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:145538010G>C	uc001eoa.2	+	22	2765	c.2689G>C	c.(2689-2691)GAG>CAG	p.E897Q	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.E766Q|ITGA10_uc009wiw.2_Missense_Mutation_p.E754Q|ITGA10_uc010oyw.1_Missense_Mutation_p.E842Q	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	897	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GCTAGAGTTTGAGTTTAGCTG	0.537													34	249	---	---	---	---	PASS	C	145538010	C	C	145538010	3	2	28	1	0	0	0	0	1	0	0	0	7873	1291	45	2	2775	2	ITGA10	1	145538010	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	29257112	145538010	103712611	26	11989										
ARHGEF2	9181	broad.mit.edu	37	chr1	155920118	155920118	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctgtggggcggagacagacgGctgctaccttcctcctcgct	13	14	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:155920118G>T	uc001fmt.2	-	21	2977	c.2859C>A	c.(2857-2859)AGC>AGA	p.S953R	ARHGEF2_uc001fmq.2_Missense_Mutation_p.S191R|ARHGEF2_uc001fmr.2_Missense_Mutation_p.S925R|ARHGEF2_uc001fms.2_Missense_Mutation_p.S952R|ARHGEF2_uc001fmu.2_Missense_Mutation_p.S997R	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	953					actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					GAGACAGACGGCTGCTACCTT	0.627													46	56	---	---	---	---	PASS	T	155920118	T	T	155920118	3	4	28	1	0	0	0	0	1	0	0	0	903	1194	42	3	109	3	ARHGEF2	1	155920118	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	10382108	155920118	93330503	27	11990										
IQGAP3	128239	broad.mit.edu	37	chr1	156499987	156499987	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cgtaggttccgcaggacgcgCcgctgcttctctgccagtgg	14	14	1	0	rs139798063		TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:156499987C>A	uc001fpf.2	-	34	4389	c.4314G>T	c.(4312-4314)CGG>CGT	p.R1438R		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1438					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCAGGACGCGCCGCTGCTTCT	0.642													4	3	---	---	---	---	PASS	A	156499987	A	A	156499987	2	1	28	1	0	0	0	0	0	0	0	1	7816	726	26	3		3	IQGAP3	1	156499987	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	579869	156499987	92750634	28	11991										
ARHGEF11	9826	broad.mit.edu	37	chr1	156947996	156947996	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aaagccaggaggattattacCtgcagaggtttgggtcctgt	13	7	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:156947996C>T	uc001fqo.2	-	6	1550	c.510G>A	c.(508-510)CAG>CAA	p.Q170Q	ARHGEF11_uc001fqn.2_Silent_p.Q170Q	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	170					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)					GGATTATTACCTGCAGAGGTT	0.542													17	9	---	---	---	---	PASS	T	156947996	T	T	156947996	2	4	28	1	0	0	0	0	0	0	0	1	896	695	24	3		3	ARHGEF11	1	156947996	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	448009	156947996	92302625	29	11992										
IFI16	3428	broad.mit.edu	37	chr1	158985664	158985664	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aaattgaatctattccagtaAaaggaccagccctatcaaga	6	9	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:158985664A>C	uc001ftf.1	+	4	875	c.268A>C	c.(268-270)AAA>CAA	p.K90Q	IFI16_uc001ftg.2_Missense_Mutation_p.K90Q|IFI16_uc010pis.1_Missense_Mutation_p.K90Q	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	90	Lys-rich.				cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					TATTCCAGTAAAAGGACCAGC	0.433													15	20	---	---	---	---	PASS	C	158985664	C	C	158985664	3	2	28	1	0	0	0	0	1	0	0	0	7511	15	1	5	274	5	IFI16	1	158985664	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	2037668	158985664	90264957	30	11993										
OR10J5	127385	broad.mit.edu	37	chr1	159505223	159505223	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aatttattatctcattgataGtggtatcaatgcaagaaagt	7	4	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:159505223G>T	uc010piw.1	-	1	575	c.575C>A	c.(574-576)ACT>AAT	p.T192N		NM_001004469	NP_001004469	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J,	192	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_hematologic(112;0.0429)					CTCATTGATAGTGGTATCAAT	0.388													17	12	---	---	---	---	PASS	T	159505223	T	T	159505223	3	4	28	1	0	0	0	0	1	0	0	0	10912	1029	36	3	356	3	OR10J5	1	159505223	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	519559	159505223	89745398	31	11994										
NOS1AP	9722	broad.mit.edu	37	chr1	162335298	162335298	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aacaaggacatgctccagcaCatctccctgctggtcaagca	8	14	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:162335298C>T	uc001gbv.2	+	9	1431	c.1044C>T	c.(1042-1044)CAC>CAT	p.H348H	NOS1AP_uc010pks.1_RNA|NOS1AP_uc001gbw.2_Silent_p.H343H|NOS1AP_uc009wut.1_Silent_p.H53H	NM_014697	NP_055512	O75052	CAPON_HUMAN	nitric oxide synthase 1 (neuronal) adaptor	348	Potential.				regulation of apoptosis|regulation of nitric oxide biosynthetic process|regulation of nitric-oxide synthase activity		nitric-oxide synthase binding|PDZ domain binding			lung(2)|upper_aerodigestive_tract(1)	3	all_hematologic(112;0.203)		BRCA - Breast invasive adenocarcinoma(70;0.0537)			TGCTCCAGCACATCTCCCTGC	0.602													26	22	---	---	---	---	PASS	T	162335298	T	T	162335298	2	4	28	1	0	0	0	0	0	0	0	1	10542	477	17	3		3	NOS1AP	1	162335298	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	2830075	162335298	86915323	32	11995										
SFT2D2	375035	broad.mit.edu	37	chr1	168208375	168208375	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtttttcattataggtacagCctttccttcataccatttgc	5	10	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:168208375C>T	uc001gfi.3	+	7	483	c.420C>T	c.(418-420)AGC>AGT	p.S140S	TBX19_uc001gfj.3_Intron	NM_199344	NP_955376	O95562	SFT2B_HUMAN	SFT2 domain containing 2	140	Helical; Name=4; (Potential).				protein transport|vesicle-mediated transport	integral to membrane				skin(1)	1	all_hematologic(923;0.215)					ATAGGTACAGCCTTTCCTTCA	0.373													39	48	---	---	---	---	PASS	T	168208375	T	T	168208375	2	4	28	1	0	0	0	0	0	0	0	1	14186	738	26	3		3	SFT2D2	1	168208375	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	5873077	168208375	81042246	33	11996										
C1orf114	57821	broad.mit.edu	37	chr1	169391178	169391178	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tagtagtgtcttctagtggaGgaacttccaaatcaactaac	8	8	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:169391178G>T	uc001gga.1	-	3	659	c.491C>A	c.(490-492)CCT>CAT	p.P164H	C1orf114_uc001gfz.1_Missense_Mutation_p.P164H|C1orf114_uc009wvq.1_Missense_Mutation_p.P164H|C1orf114_uc001ggb.2_Missense_Mutation_p.P164H|C1orf114_uc001ggc.1_Missense_Mutation_p.P164H	NM_021179	NP_067002	Q5TID7	CA114_HUMAN	hypothetical protein LOC57821	164											0	all_hematologic(923;0.208)					TTCTAGTGGAGGAACTTCCAA	0.338													32	29	---	---	---	---	PASS	T	169391178	T	T	169391178	3	4	28	1	0	0	0	0	1	0	0	0	1987	1000	35	3	1051	3	C1orf114	1	169391178	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1182803	169391178	79859443	34	11997										
FMO4	2329	broad.mit.edu	37	chr1	171292329	171292329	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcctgaaatacattcagtttAaggtaagatactttgggtta	8	5	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:171292329A>T	uc001gho.2	+	4	536	c.319A>T	c.(319-321)AAG>TAG	p.K107*		NM_002022	NP_002013	P31512	FMO4_HUMAN	flavin containing monooxygenase 4	107					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			kidney(2)|skin(1)	3	all_cancers(6;3.9e-08)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					CATTCAGTTTAAGGTAAGATA	0.338													19	18	---	---	---	---	PASS	T	171292329	T	T	171292329	4	4	28	1	0	0	0	0	0	1	0	0	5957	363	13	5	325	5	FMO4	1	171292329	Nonsense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	1901151	171292329	77958292	35	11998										
TDRD5	163589	broad.mit.edu	37	chr1	179561940	179561940	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tattggacatgcctgatgttGttcgtgtctgccccggtgca	12	10	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:179561940G>T	uc001gnf.1	+	2	440	c.190G>T	c.(190-192)GTT>TTT	p.V64F	TDRD5_uc010pnp.1_Missense_Mutation_p.V64F|uc010pno.1_5'Flank	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	64	Lotus/OST-HTH 1.				DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						GCCTGATGTTGTTCGTGTCTG	0.428													23	45	---	---	---	---	PASS	T	179561940	T	T	179561940	3	4	28	1	0	0	0	0	1	0	0	0	15730	1377	48	3	192	3	TDRD5	1	179561940	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	8269611	179561940	69688681	36	11999										
FAM5C	339479	broad.mit.edu	37	chr1	190067840	190067840	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cttgtacttattgctcttcaAggtgaggagcatccgcttac	9	10	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:190067840A>T	uc001gse.1	-	8	1841	c.1609T>A	c.(1609-1611)TTG>ATG	p.L537M	FAM5C_uc010pot.1_Missense_Mutation_p.L435M	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	537						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TTGCTCTTCAAGGTGAGGAGC	0.453													19	69	---	---	---	---	PASS	T	190067840	T	T	190067840	3	4	28	1	0	0	0	0	1	0	0	0	5594	69	3	5	695	5	FAM5C	1	190067840	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	10505900	190067840	59182781	37	12000										
OPTC	26254	broad.mit.edu	37	chr1	203472730	203472730	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cttctgtgaccccgaggagcAcaaacacacccgcaggcagc	10	16	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:203472730A>C	uc001gzu.1	+	7	997	c.881A>C	c.(880-882)CAC>CCC	p.H294P		NM_014359	NP_055174	Q9UBM4	OPT_HUMAN	opticin precursor	294						proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.109)			CCCGAGGAGCACAAACACACC	0.592													13	39	---	---	---	---	PASS	C	203472730	C	C	203472730	3	2	28	1	0	0	0	0	1	0	0	0	10888	159	6	5	903	5	OPTC	1	203472730	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	13404890	203472730	45777891	38	12001										
FLVCR1	28982	broad.mit.edu	37	chr1	213046038	213046038	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agccttcaaagaaaaacctcGgtatccaccaagtcaggctc	7	13	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:213046038G>A	uc001hjt.2	+	3	1100	c.902G>A	c.(901-903)CGG>CAG	p.R301Q		NM_014053	NP_054772	Q9Y5Y0	FLVC1_HUMAN	feline leukemia virus subgroup C cellular	301					cell death|cellular iron ion homeostasis|heme export|transmembrane transport	integral to plasma membrane	heme transporter activity|protein binding|receptor activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.00733)|all cancers(67;0.013)|GBM - Glioblastoma multiforme(131;0.0845)|Epithelial(68;0.11)		GAAAAACCTCGGTATCCACCA	0.313													30	11	---	---	---	---	PASS	A	213046038	A	A	213046038	3	1	28	1	0	0	0	0	1	0	0	0	5945	1116	39	1	912	1	FLVCR1	1	213046038	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	9573308	213046038	36204583	39	12002										
MOSC1	64757	broad.mit.edu	37	chr1	220971262	220971262	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cttgatcctttctgaggcgtCgctggcggatctcaactcca	10	13	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:220971262C>G	uc001hms.2	+	4	907	c.659C>G	c.(658-660)TCG>TGG	p.S220W	MOSC1_uc001hmt.2_Missense_Mutation_p.S220W	NM_022746	NP_073583	Q5VT66	MOSC1_HUMAN	MOCO sulphurase C-terminal domain containing 1	220	MOSC.						molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.0358)		TCTGAGGCGTCGCTGGCGGAT	0.438													15	67	---	---	---	---	PASS	G	220971262	G	G	220971262	3	3	28	1	0	0	0	0	1	0	0	0	9713	893	31	2	673	2	MOSC1	1	220971262	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	7925224	220971262	28279359	40	12003										
TRIM11	81559	broad.mit.edu	37	chr1	228582761	228582761	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cccccagggcccagctggtgCggtccccaacctccacctcc	9	22	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:228582761C>A	uc001hss.2	-	6	1307	c.1052G>T	c.(1051-1053)CGC>CTC	p.R351L	TRIM11_uc010pvx.1_Missense_Mutation_p.R350L	NM_145214	NP_660215	Q96F44	TRI11_HUMAN	tripartite motif-containing 11	351	B30.2/SPRY.				response to virus	cytoplasm|nucleus	protein binding|zinc ion binding			lung(3)|ovary(1)	4		Prostate(94;0.0724)				CCAGCTGGTGCGGTCCCCAAC	0.687													25	13	---	---	---	---	PASS	A	228582761	A	A	228582761	3	1	28	1	0	0	0	0	1	0	0	0	16484	768	27	1	358	1	TRIM11	1	228582761	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	7611499	228582761	20667860	41	12004										
NUP133	55746	broad.mit.edu	37	chr1	229613401	229613401	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgggtagtcatccatcaggtCtacactgatttgggtaactg	11	8	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:229613401C>G	uc001htn.2	-	13	1791	c.1699G>C	c.(1699-1701)GAC>CAC	p.D567H		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	567					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				TCCATCAGGTCTACACTGATT	0.448													17	9	---	---	---	---	PASS	G	229613401	G	G	229613401	3	3	28	1	0	0	0	0	1	0	0	0	10754	913	32	2	1827	2	NUP133	1	229613401	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1030640	229613401	19637220	42	12005										
EDARADD	128178	broad.mit.edu	37	chr1	236645688	236645688	+	Frame_Shift_Del	DEL	G	-	-													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gacgtgatcaggataaagctGgatccgtgtcacccaacggt							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:236645688delG	uc001hxu.1	+	6	452	c.387delG	c.(385-387)CTGfs	p.L129fs	EDARADD_uc001hxv.1_Frame_Shift_Del_p.L119fs	NM_145861	NP_665860	Q8WWZ3	EDAD_HUMAN	EDAR-associated death domain isoform A	129	Death.				cell differentiation|signal transduction	cytoplasm					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.0232)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			GGATAAAGCTGGATCCGTGTC	0.502													40	35	---	---	---	---		-	236645688	-	-	236645688	7	5	28	1	0	1	0	1	0	0	0	0	4906	1335	47	0	444	0	EDARADD	1	236645688	Frame_Shift_Del	DEL	G	TCGA-21-5787-01A-01D-1632-08	7032287	236645688	12604933	43	12006										
AKT3	10000	broad.mit.edu	37	chr1	243858999	243858999	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aaaaggaagtatcttggcctCcagttttttatatattctcc	6	8	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:243858999C>A	uc001iab.1	-	2	147	c.66G>T	c.(64-66)TGG>TGT	p.W22C	AKT3_uc001hzz.1_Missense_Mutation_p.W22C	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	22	PH.				signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)			ATCTTGGCCTCCAGTTTTTTA	0.343													22	13	---	---	---	---	PASS	A	243858999	A	A	243858999	3	1	28	1	0	0	0	0	1	0	0	0	481	856	30	2	1469	2	AKT3	1	243858999	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	7213311	243858999	5391622	44	12007										
OR2B11	127623	broad.mit.edu	37	chr1	247615256	247615256	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgaaggctttaggggagtccCctaagaagctatggttgtca	13	7	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:247615256C>A	uc010pyx.1	-	1	29	c.29G>T	c.(28-30)GGG>GTG	p.G10V		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			AGGGGAGTCCCCTAAGAAGCT	0.483													15	21	---	---	---	---	PASS	A	247615256	A	A	247615256	3	1	28	1	0	0	0	0	1	0	0	0	10988	623	22	3	927	3	OR2B11	1	247615256	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3756257	247615256	1635365	45	12008										
OR2T1	26696	broad.mit.edu	37	chr1	248570299	248570299	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caccattctcacacccatgcTgaaccccctcatctacagcc	3	20	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr1:248570299T>C	uc010pzm.1	+	1	1004	c.1004T>C	c.(1003-1005)CTG>CCG	p.L335P		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	335	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ACACCCATGCTGAACCCCCTC	0.532													32	122	---	---	---	---	PASS	C	248570299	C	C	248570299	3	2	28	1	0	0	0	0	1	0	0	0	11016	1580	55	5	1006	5	OR2T1	1	248570299	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	955043	248570299	680322	46	12009										
SNTG2	54221	broad.mit.edu	37	chr2	1079263	1079263	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gaaaatgcctatgacatccgGctgaagctgacgaaagaggt	12	8	0	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:1079263G>T	uc002qwq.2	+	2	260	c.132G>T	c.(130-132)CGG>CGT	p.R44R	SNTG2_uc002qwp.2_RNA|SNTG2_uc010ewi.2_Silent_p.R44R	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	44					central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		ATGACATCCGGCTGAAGCTGA	0.473													14	45	---	---	---	---	PASS	T	1079263	T	T	1079263	2	4	28	1	0	0	0	0	0	0	0	1	14875	1190	42	3		3	SNTG2	2	1079263	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08		1079263	242120110	47	12010										
SNTG2	54221	broad.mit.edu	37	chr2	1251115	1251115	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcaggttgtgcatatggggtGggtaaatgagaaactccaag	15	5	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:1251115G>T	uc002qwq.2	+	12	1033	c.905G>T	c.(904-906)TGG>TTG	p.W302L	SNTG2_uc010ewi.2_Missense_Mutation_p.W175L	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	302	PH.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		CATATGGGGTGGGTAAATGAG	0.502													8	20	---	---	---	---	PASS	T	1251115	T	T	1251115	3	4	28	1	0	0	0	0	1	0	0	0	14875	1357	47	3	951	3	SNTG2	2	1251115	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	171852	1251115	241948258	48	12011										
KLF11	8462	broad.mit.edu	37	chr2	10188590	10188590	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttgcccctgctccagtgttcAtcacctctagccaaaactgt	6	15	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:10188590A>T	uc002raf.1	+	3	1288	c.1126A>T	c.(1126-1128)ATC>TTC	p.I376F	KLF11_uc010yjc.1_Missense_Mutation_p.I359F	NM_003597	NP_003588	O14901	KLF11_HUMAN	Kruppel-like factor 11	376					apoptosis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|regulation of transcription involved in S phase of mitotic cell cycle	nucleus	sequence-specific DNA binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.133)|OV - Ovarian serous cystadenocarcinoma(76;0.228)		TCCAGTGTTCATCACCTCTAG	0.572											OREG0014425	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	61	---	---	---	---	PASS	T	10188590	T	T	10188590	3	4	28	1	0	0	0	0	1	0	0	0	8339	217	8	5	1136	5	KLF11	2	10188590	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	8937475	10188590	233010783	49	12012										
NTSR2	23620	broad.mit.edu	37	chr2	11802343	11802343	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcagttagtgccaaggggagCacgaaggacaccagcacatt	13	10	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:11802343C>A	uc002rbq.3	-	2	722	c.648G>T	c.(646-648)GTG>GTT	p.V216V		NM_012344	NP_036476	O95665	NTR2_HUMAN	neurotensin receptor 2	216	Extracellular (Potential).				sensory perception	integral to plasma membrane					0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.129)|OV - Ovarian serous cystadenocarcinoma(76;0.24)	Levocabastine(DB01106)	CCAAGGGGAGCACGAAGGACA	0.642													24	90	---	---	---	---	PASS	A	11802343	A	A	11802343	2	1	28	1	0	0	0	0	0	0	0	1	10711	697	25	3		3	NTSR2	2	11802343	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	1613753	11802343	231397030	50	12013										
VSNL1	7447	broad.mit.edu	37	chr2	17773402	17773402	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aggacctggtgaagagcacaGagtttaatgagcatgaactc	12	7	0	5			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:17773402G>T	uc002rcm.2	+	2	445	c.61G>T	c.(61-63)GAG>TAG	p.E21*		NM_003385	NP_003376	P62760	VISL1_HUMAN	visinin-like 1	21							calcium ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GAAGAGCACAGAGTTTAATGA	0.458													27	52	---	---	---	---	PASS	T	17773402	T	T	17773402	4	4	28	1	0	0	0	0	0	1	0	0	17224	943	33	2	63	2	VSNL1	2	17773402	Nonsense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	5971059	17773402	225425971	51	12014										
APOB	338	broad.mit.edu	37	chr2	21229833	21229833	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gacatgaaggactggcagctCtaatgatggcaggattaatg	13	6	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:21229833C>A	uc002red.2	-	26	10035	c.9907G>T	c.(9907-9909)GAG>TAG	p.E3303*		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3303					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ACTGGCAGCTCTAATGATGGC	0.443													17	49	---	---	---	---	PASS	A	21229833	A	A	21229833	4	1	28	1	0	0	0	0	0	1	0	0	785	922	32	2	3800	2	APOB	2	21229833	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3456431	21229833	221969540	52	12015										
RAB10	10890	broad.mit.edu	37	chr2	26350784	26350784	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcaaatataaacatcgaaaaGgcgttcctcacgttagctga	8	9	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:26350784G>A	uc002rgv.2	+	5	1232	c.483G>A	c.(481-483)AAG>AAA	p.K161K		NM_016131	NP_057215	P61026	RAB10_HUMAN	ras-related GTP-binding protein RAB10	161					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACATCGAAAAGGCGTTCCTCA	0.348													21	64	---	---	---	---	PASS	A	26350784	A	A	26350784	2	1	28	1	0	0	0	0	0	0	0	1	12890	991	35	3		3	RAB10	2	26350784	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	5120951	26350784	216848589	53	12016										
BIRC6	57448	broad.mit.edu	37	chr2	32820204	32820204	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtggctgttatgaagaaattAcagtttggtaagatgaaatt	11	2	0	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:32820204A>G	uc010ezu.2	+	68	13739	c.13605A>G	c.(13603-13605)TTA>TTG	p.L4535L		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4535					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)					TGAAGAAATTACAGTTTGGTA	0.303													5	8	---	---	---	---	PASS	G	32820204	G	G	32820204	2	3	28	1	0	0	0	0	0	0	0	1	1438	388	14	5		5	BIRC6	2	32820204	Silent	SNP	A	TCGA-21-5787-01A-01D-1632-08	6469420	32820204	210379169	54	12017										
CALM2	805	broad.mit.edu	37	chr2	47388885	47388885	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	catagtttacttgaccatcaCcatcaatatctgcttccctg	4	13	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:47388885C>G	uc002rvt.2	-	5	556	c.398G>C	c.(397-399)GGT>GCT	p.G133A	C2orf61_uc010fbd.2_Intron|CALM2_uc010fbe.2_RNA	NM_001743	NP_001734	P62158	CALM_HUMAN	calmodulin 2	133	4.|EF-hand 4.				activation of phospholipase C activity|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen catabolic process|muscle contraction|negative regulation of ryanodine-sensitive calcium-release channel activity|nerve growth factor receptor signaling pathway|nitric oxide metabolic process|platelet activation|platelet degranulation|positive regulation of ryanodine-sensitive calcium-release channel activity|regulation of cytokinesis|regulation of nitric-oxide synthase activity|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to calcium ion|synaptic transmission	centrosome|cytosol|extracellular region|nucleoplasm|plasma membrane|spindle microtubule|spindle pole	calcium ion binding|N-terminal myristoylation domain binding|phospholipase binding|protein domain specific binding|thioesterase binding|titin binding	p.0?(2)			0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)		Aprindine(DB01429)|Bepridil(DB01244)|Dibucaine(DB00527)|Felodipine(DB01023)|Flunarizine(DB04841)|Fluphenazine(DB00623)|Isoflurane(DB00753)|Loperamide(DB00836)|Miconazole(DB01110)|Perphenazine(DB00850)|Phenoxybenzamine(DB00925)|Pimozide(DB01100)|Promethazine(DB01069)	TTGACCATCACCATCAATATC	0.383													13	55	---	---	---	---	PASS	G	47388885	G	G	47388885	3	3	28	1	0	0	0	0	1	0	0	0	2585	507	18	4	59	4	CALM2	2	47388885	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	14568681	47388885	195810488	55	12018										
VRK2	7444	broad.mit.edu	37	chr2	58312046	58312046	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aaaatggcccgttattttcaGaacttaaattttatcagaga	6	6	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:58312046G>C	uc002rzo.2	+	7	962	c.217G>C	c.(217-219)GAA>CAA	p.E73Q	VRK2_uc010fcb.2_Missense_Mutation_p.E73Q|VRK2_uc002rzs.2_Missense_Mutation_p.E73Q|VRK2_uc002rzr.2_Missense_Mutation_p.E73Q|VRK2_uc010fcc.2_Intron|VRK2_uc002rzv.2_Missense_Mutation_p.E73Q|VRK2_uc010fcd.2_Missense_Mutation_p.E50Q|VRK2_uc002rzp.2_Missense_Mutation_p.E73Q|VRK2_uc010ypg.1_Missense_Mutation_p.E73Q|VRK2_uc002rzq.2_Missense_Mutation_p.E73Q|VRK2_uc002rzu.2_Missense_Mutation_p.E73Q|VRK2_uc002rzt.2_5'UTR|VRK2_uc010yph.1_5'Flank	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	73	Protein kinase.					integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						GTTATTTTCAGAACTTAAATT	0.279													9	17	---	---	---	---	PASS	C	58312046	C	C	58312046	3	2	28	1	0	0	0	0	1	0	0	0	17217	943	33	2	227	2	VRK2	2	58312046	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	10923161	58312046	184887327	56	12019										
C2orf86	51057	broad.mit.edu	37	chr2	63609202	63609202	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	actggaagatgatgtctatcAggcccagctgtcctcgagtg	12	10	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:63609202A>G	uc002sch.2	-	11	1909	c.1463T>C	c.(1462-1464)CTG>CCG	p.L488P	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Missense_Mutation_p.L329P|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Missense_Mutation_p.L296P|C2orf86_uc002sci.1_Missense_Mutation_p.L464P	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	488					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						GATGTCTATCAGGCCCAGCTG	0.408													10	19	---	---	---	---	PASS	G	63609202	G	G	63609202	3	3	28	1	0	0	0	0	1	0	0	0	2201	188	7	5	809	5	C2orf86	2	63609202	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	5297156	63609202	179590171	57	12020										
MDH1	4190	broad.mit.edu	37	chr2	63824696	63824696	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gccttagataaatacgccaaGaagtcagttaaggtgaccaa	9	8	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:63824696G>T	uc002scj.1	+	4	419	c.363G>T	c.(361-363)AAG>AAT	p.K121N	MDH1_uc010ypv.1_Missense_Mutation_p.K139N|MDH1_uc010ypw.1_Missense_Mutation_p.K26N	NM_005917	NP_005908	P40925	MDHC_HUMAN	cytosolic malate dehydrogenase	121					gluconeogenesis|tricarboxylic acid cycle	centrosome|cytosol	L-malate dehydrogenase activity|malic enzyme activity			kidney(2)	2					NADH(DB00157)	AATACGCCAAGAAGTCAGTTA	0.363													8	25	---	---	---	---	PASS	T	63824696	T	T	63824696	3	4	28	1	0	0	0	0	1	0	0	0	9408	933	33	2	377	2	MDH1	2	63824696	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	215494	63824696	179374677	58	12021										
DYSF	8291	broad.mit.edu	37	chr2	71817372	71817372	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	taccatctacgctgctacatGtaccaggcccgggacctggc	10	15	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:71817372G>T	uc002sie.2	+	32	3850	c.3474G>T	c.(3472-3474)ATG>ATT	p.M1158I	DYSF_uc010feg.2_Missense_Mutation_p.M1189I|DYSF_uc010feh.2_Missense_Mutation_p.M1144I|DYSF_uc002sig.3_Missense_Mutation_p.M1144I|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.M1158I|DYSF_uc010fef.2_Missense_Mutation_p.M1175I|DYSF_uc010fei.2_Missense_Mutation_p.M1175I|DYSF_uc010fek.2_Missense_Mutation_p.M1176I|DYSF_uc010fej.2_Missense_Mutation_p.M1145I|DYSF_uc010fel.2_Missense_Mutation_p.M1145I|DYSF_uc010feo.2_Missense_Mutation_p.M1190I|DYSF_uc010fem.2_Missense_Mutation_p.M1159I|DYSF_uc010fen.2_Missense_Mutation_p.M1176I|DYSF_uc002sif.2_Missense_Mutation_p.M1159I|DYSF_uc010yqy.1_Missense_Mutation_p.M39I	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1158	Cytoplasmic (Potential).|C2 4.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GCTGCTACATGTACCAGGCCC	0.572													15	39	---	---	---	---	PASS	T	71817372	T	T	71817372	3	4	28	1	0	0	0	0	1	0	0	0	4859	1377	48	3	3792	3	DYSF	2	71817372	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	7992676	71817372	171382001	59	12022										
LRRTM4	80059	broad.mit.edu	37	chr2	77746335	77746335	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cgtggaaaatgagcaaagttGatcttggaaaactggttgtg	13	4	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:77746335G>C	uc002snr.2	-	3	1075	c.660C>G	c.(658-660)ATC>ATG	p.I220M	LRRTM4_uc002snq.2_Missense_Mutation_p.I220M|LRRTM4_uc002sns.2_Missense_Mutation_p.I220M|LRRTM4_uc002snt.2_Missense_Mutation_p.I221M	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	220	LRR 7.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GAGCAAAGTTGATCTTGGAAA	0.448													6	29	---	---	---	---	PASS	C	77746335	C	C	77746335	3	2	28	1	0	0	0	0	1	0	0	0	9042	1280	45	2	1126	2	LRRTM4	2	77746335	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	5928963	77746335	165453038	60	12023										
CTNNA2	1496	broad.mit.edu	37	chr2	80772182	80772182	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggatggcagccacccagattGacagcctgtgtccccaggta	12	13	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:80772182G>T	uc010ysh.1	+	9	1371	c.1366G>T	c.(1366-1368)GAC>TAC	p.D456Y	CTNNA2_uc010yse.1_Missense_Mutation_p.D456Y|CTNNA2_uc010ysf.1_Missense_Mutation_p.D456Y|CTNNA2_uc010ysg.1_Missense_Mutation_p.D456Y|CTNNA2_uc010ysi.1_Missense_Mutation_p.D88Y	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	456					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						CACCCAGATTGACAGCCTGTG	0.478													8	23	---	---	---	---	PASS	T	80772182	T	T	80772182	3	4	28	1	0	0	0	0	1	0	0	0	4013	1290	45	2	1192	2	CTNNA2	2	80772182	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	3025847	80772182	162427191	61	12024										
SH2D6	284948	broad.mit.edu	37	chr2	85663660	85663660	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccccttgtggacagacacagCggcagccgggaactcacctg	12	15	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:85663660C>T	uc002spq.2	+	4	644	c.483C>T	c.(481-483)AGC>AGT	p.S161S	SH2D6_uc002spo.2_RNA|SH2D6_uc002spp.2_RNA	NM_198482	NP_940884	Q7Z4S9	SH2D6_HUMAN	SH2 domain containing 6	161	SH2.									central_nervous_system(1)	1						ACAGACACAGCGGCAGCCGGG	0.642													8	31	---	---	---	---	PASS	T	85663660	T	T	85663660	2	4	28	1	0	0	0	0	0	0	0	1	14238	767	27	1		1	SH2D6	2	85663660	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	4891478	85663660	157535713	62	12025										
NCKAP5	344148	broad.mit.edu	37	chr2	133540314	133540314	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcccatgctgactgctgaagCtgcctgagctccccagggag	12	14	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:133540314C>A	uc002ttp.2	-	14	4444	c.4070G>T	c.(4069-4071)AGC>ATC	p.S1357I	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1357							protein binding				0						ACTGCTGAAGCTGCCTGAGCT	0.617													13	13	---	---	---	---	PASS	A	133540314	A	A	133540314	3	1	28	1	0	0	0	0	1	0	0	0	10223	797	28	3	1687	3	NCKAP5	2	133540314	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	47876654	133540314	109659059	63	12026										
THSD7B	80731	broad.mit.edu	37	chr2	137814067	137814067	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgtggtgttttcatgttgacGggtggacaagtcacctgtct	13	7	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:137814067G>T	uc002tva.1	+	2	124	c.124G>T	c.(124-126)GGG>TGG	p.G42W	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_5'UTR	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TCATGTTGACGGGTGGACAAG	0.527													14	16	---	---	---	---	PASS	T	137814067	T	T	137814067	3	4	28	1	0	0	0	0	1	0	0	0	15877	1116	39	1	130	1	THSD7B	2	137814067	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	4273753	137814067	105385306	64	12027										
NEB	4703	broad.mit.edu	37	chr2	152520222	152520222	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgtccaccggggtgtggaagGaggtcttggatttctcatat	14	7	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:152520222G>A	uc010fnx.2	-	45	5794	c.5603C>T	c.(5602-5604)TCC>TTC	p.S1868F		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1868					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GGTGTGGAAGGAGGTCTTGGA	0.537													9	21	---	---	---	---	PASS	A	152520222	A	A	152520222	3	1	28	1	0	0	0	0	1	0	0	0	10302	1174	41	2	20635	2	NEB	2	152520222	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	14706155	152520222	90679151	65	12028										
GALNT13	114805	broad.mit.edu	37	chr2	155098644	155098644	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccttagaactgtttacagtgTgataaatcgttccccacact	6	11	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:155098644T>A	uc002tyr.3	+	5	980	c.413T>A	c.(412-414)GTG>GAG	p.V138E	GALNT13_uc002tyt.3_Missense_Mutation_p.V138E|GALNT13_uc010foc.1_5'UTR	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	138	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						GTTTACAGTGTGATAAATCGT	0.358													17	27	---	---	---	---	PASS	A	155098644	A	A	155098644	3	1	28	1	0	0	0	0	1	0	0	0	6211	1696	59	5	423	5	GALNT13	2	155098644	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	2578422	155098644	88100729	66	12029										
FIGN	55137	broad.mit.edu	37	chr2	164467453	164467453	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aataggtgtcaaaccatggcCctggtaggtgtagccaggaa	13	8	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:164467453C>A	uc002uck.1	-	3	1200	c.889G>T	c.(889-891)GGC>TGC	p.G297C		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	297						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						AAACCATGGCCCTGGTAGGTG	0.577													23	31	---	---	---	---	PASS	A	164467453	A	A	164467453	3	1	28	1	0	0	0	0	1	0	0	0	5891	623	22	3	1394	3	FIGN	2	164467453	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	9368809	164467453	78731920	67	12030										
SCN3A	6328	broad.mit.edu	37	chr2	165947258	165947258	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctataaactgggtcgcatcgGgatcaaacttttcccaaacc	7	12	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:165947258G>T	uc002ucx.2	-	28	5897	c.5405C>A	c.(5404-5406)CCC>CAC	p.P1802H	SCN3A_uc010zcy.1_Missense_Mutation_p.P285H|SCN3A_uc002ucy.2_Missense_Mutation_p.P1753H|SCN3A_uc002ucz.2_Missense_Mutation_p.P1753H	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1802						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	GGTCGCATCGGGATCAAACTT	0.453													29	28	---	---	---	---	PASS	T	165947258	T	T	165947258	3	4	28	1	0	0	0	0	1	0	0	0	13918	1232	43	3	601	3	SCN3A	2	165947258	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1479805	165947258	77252115	68	12031										
SCN2A	6326	broad.mit.edu	37	chr2	166166936	166166936	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtgtttgcgctaataggattGcagttgttcatgggcaacct	12	7	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:166166936G>T	uc002udc.2	+	7	1091	c.801G>T	c.(799-801)TTG>TTT	p.L267F	SCN2A_uc002udd.2_Missense_Mutation_p.L267F|SCN2A_uc002ude.2_Missense_Mutation_p.L267F	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	267	I.|Helical; Name=S5 of repeat I; (Potential).				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	TAATAGGATTGCAGTTGTTCA	0.408													42	60	---	---	---	---	PASS	T	166166936	T	T	166166936	3	4	28	1	0	0	0	0	1	0	0	0	13916	1310	46	3	919	3	SCN2A	2	166166936	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	219678	166166936	77032437	69	12032										
SCN7A	6332	broad.mit.edu	37	chr2	167262800	167262800	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aggatcacagtcagaccattTactgttgaaaattgcatcaa	7	8	3	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:167262800T>G	uc002udu.1	-	25	4466	c.4339A>C	c.(4339-4341)AAA>CAA	p.K1447Q		NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	1447					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TCAGACCATTTACTGTTGAAA	0.383													35	43	---	---	---	---	PASS	G	167262800	G	G	167262800	3	3	28	1	0	0	0	0	1	0	0	0	13923	1763	61	5	713	5	SCN7A	2	167262800	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	1095864	167262800	75936573	70	12033										
PPIG	9360	broad.mit.edu	37	chr2	170488342	170488342	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tctactgtccgtccagaagaGatccctcctatacctgaaaa	6	13	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:170488342G>T	uc002uez.2	+	11	1048	c.828G>T	c.(826-828)GAG>GAT	p.E276D	PPIG_uc010fpx.2_Missense_Mutation_p.E261D|PPIG_uc010fpy.2_Missense_Mutation_p.E269D|PPIG_uc002ufa.2_Missense_Mutation_p.E276D|PPIG_uc002ufb.2_Missense_Mutation_p.E276D|PPIG_uc002ufd.2_Missense_Mutation_p.E273D	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G	276					protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	GTCCAGAAGAGATCCCTCCTA	0.323													24	31	---	---	---	---	PASS	T	170488342	T	T	170488342	3	4	28	1	0	0	0	0	1	0	0	0	12324	933	33	2	862	2	PPIG	2	170488342	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	3225542	170488342	72711031	71	12034										
PDE11A	50940	broad.mit.edu	37	chr2	178762881	178762881	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttcttgacaattttctccagGtcagtctgttcttcaaagag	7	9	6	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:178762881G>T	uc002ulq.2	-	4	1524	c.1206C>A	c.(1204-1206)GAC>GAA	p.D402E	PDE11A_uc002ulr.2_Missense_Mutation_p.D152E|PDE11A_uc002uls.1_Missense_Mutation_p.D44E|PDE11A_uc002ult.1_Missense_Mutation_p.D152E|PDE11A_uc002ulu.1_Missense_Mutation_p.D44E	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	402	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TTTTCTCCAGGTCAGTCTGTT	0.383									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				12	25	---	---	---	---	PASS	T	178762881	T	T	178762881	3	4	28	1	0	0	0	0	1	0	0	0	11631	1252	44	3	1663	3	PDE11A	2	178762881	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	8274539	178762881	64436492	72	12035										
TTN	7273	broad.mit.edu	37	chr2	179613060	179613060	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttttcatcaatactacttttCtccaccatagttctatttga	2	10	4	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:179613060C>T	uc002unb.2	-	46	14291	c.14067G>A	c.(14065-14067)GAG>GAA	p.E4689E	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TACTACTTTTCTCCACCATAG	0.313													39	37	---	---	---	---	PASS	T	179613060	T	T	179613060	2	4	28	1	0	0	0	0	0	0	0	1	16732	912	32	2		2	TTN	2	179613060	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	850179	179613060	63586313	73	12036										
DNAH7	56171	broad.mit.edu	37	chr2	196723359	196723359	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tttttcagttttggcaacttCtacagactctttctcaatca	4	10	5	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:196723359C>A	uc002utj.3	-	43	8007	c.7906G>T	c.(7906-7908)GAA>TAA	p.E2636*		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2636	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TTGGCAACTTCTACAGACTCT	0.398													32	30	---	---	---	---	PASS	A	196723359	A	A	196723359	4	1	28	1	0	0	0	0	0	1	0	0	4606	922	32	2	4260	2	DNAH7	2	196723359	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	17110299	196723359	46476014	74	12037										
GTF3C3	9330	broad.mit.edu	37	chr2	197631415	197631415	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tggcagggcccacgtaaactGaggtatcgattaagaaagga	13	7	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:197631415G>A	uc002uts.2	-	17	2502	c.2412C>T	c.(2410-2412)CTC>CTT	p.L804L	GTF3C3_uc010zgu.1_Silent_p.L775L	NM_012086	NP_036218	Q9Y5Q9	TF3C3_HUMAN	general transcription factor IIIC, polypeptide	804						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(3)|breast(3)|pancreas(1)	7						CACGTAAACTGAGGTATCGAT	0.333													18	20	---	---	---	---	PASS	A	197631415	A	A	197631415	2	1	28	1	0	0	0	0	0	0	0	1	6874	1277	45	2		2	GTF3C3	2	197631415	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	908056	197631415	45567958	75	12038										
MPP4	58538	broad.mit.edu	37	chr2	202519560	202519560	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gaaagcagaactaaacatacGtggcacagcactttgaaaat	8	8	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:202519560G>T	uc002uyk.3	-	18	1589	c.1381C>A	c.(1381-1383)CAC>AAC	p.H461N	MPP4_uc002uyi.3_Missense_Mutation_p.H79N|MPP4_uc010ftj.2_Missense_Mutation_p.H454N|MPP4_uc010zhq.1_Missense_Mutation_p.H430N|MPP4_uc010zhr.1_Missense_Mutation_p.H437N|MPP4_uc010zhs.1_Missense_Mutation_p.H386N|MPP4_uc002uyj.3_Missense_Mutation_p.H426N|MPP4_uc010zht.1_Missense_Mutation_p.H403N|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.H417N	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	461	Guanylate kinase-like.					cytoplasm	protein binding				0						CTAAACATACGTGGCACAGCA	0.358													3	1	---	---	---	---	PASS	T	202519560	T	T	202519560	3	4	28	1	0	0	0	0	1	0	0	0	9736	1159	40	1	552	1	MPP4	2	202519560	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	4888145	202519560	40679813	76	12039										
PARD3B	117583	broad.mit.edu	37	chr2	206165406	206165406	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gaggccgaggctgcaatgagAgctttagagcagccattgac	14	9	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:206165406A>T	uc002var.1	+	17	2545	c.2338A>T	c.(2338-2340)AGC>TGC	p.S780C	PARD3B_uc010fub.1_Missense_Mutation_p.S780C|PARD3B_uc002vao.1_Missense_Mutation_p.S780C|PARD3B_uc002vap.1_Missense_Mutation_p.S718C|PARD3B_uc002vaq.1_Intron	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	780					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		CTGCAATGAGAGCTTTAGAGC	0.498													26	30	---	---	---	---	PASS	T	206165406	T	T	206165406	3	4	28	1	0	0	0	0	1	0	0	0	11444	304	11	5	2404	5	PARD3B	2	206165406	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	3645846	206165406	37033967	77	12040										
INO80D	54891	broad.mit.edu	37	chr2	206927738	206927738	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgtatatgtttcccttcataCatcacgtgactctattcctt	4	11	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:206927738C>A	uc002vaz.3	-	3	408	c.3G>T	c.(1-3)ATG>ATT	p.M1I		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	1					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						TCCCTTCATACATCACGTGAC	0.428													5	7	---	---	---	---	PASS	A	206927738	A	A	206927738	3	1	28	1	0	0	0	0	1	0	0	0	7749	478	17	3	3116	3	INO80D	2	206927738	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	762332	206927738	36271635	78	12041										
ABCA12	26154	broad.mit.edu	37	chr2	215840712	215840712	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agtatagccatgatcttcttCagcaacagtccaaagccatc	6	12	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:215840712C>T	uc002vew.2	-	34	5398	c.5178G>A	c.(5176-5178)CTG>CTA	p.L1726L	ABCA12_uc002vev.2_Silent_p.L1408L|ABCA12_uc010zjn.1_Silent_p.L653L	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1726					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TGATCTTCTTCAGCAACAGTC	0.448													17	23	---	---	---	---	PASS	T	215840712	T	T	215840712	2	4	28	1	0	0	0	0	0	0	0	1	30	813	29	2		2	ABCA12	2	215840712	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	8912974	215840712	27358661	79	12042										
DOCK10	55619	broad.mit.edu	37	chr2	225642886	225642886	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cctggattatcttcacattgTctgctccaaatttatctgca	5	11	4	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:225642886T>A	uc010fwz.1	-	51	6010	c.5771A>T	c.(5770-5772)GAC>GTC	p.D1924V	DOCK10_uc002vob.2_Missense_Mutation_p.D1918V|DOCK10_uc002voa.2_Missense_Mutation_p.D580V	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1924	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		CTTCACATTGTCTGCTCCAAA	0.353													4	17	---	---	---	---	PASS	A	225642886	A	A	225642886	3	1	28	1	0	0	0	0	1	0	0	0	4685	1667	58	5	813	5	DOCK10	2	225642886	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	9802174	225642886	17556487	80	12043										
ALPP	250	broad.mit.edu	37	chr2	233246046	233246046	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggctatgtgctcaaggacggCgcccggccggatgttaccga	15	12	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:233246046C>A	uc002vsq.2	+	10	1443	c.1278C>A	c.(1276-1278)GGC>GGA	p.G426G	ALPP_uc002vsr.2_RNA	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	426						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		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;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		TCAAGGACGGCGCCCGGCCGG	0.697													18	36	---	---	---	---	PASS	A	233246046	A	A	233246046	2	1	28	1	0	0	0	0	0	0	0	1	548	755	27	1		1	ALPP	2	233246046	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	7603160	233246046	9953327	81	12044										
CAPN10	11132	broad.mit.edu	37	chr2	241536337	241536337	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cagtgacaccgagttccaccCcatcggcttccatatcttcc	6	17	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr2:241536337C>T	uc002vzk.1	+	9	1905	c.1721C>T	c.(1720-1722)CCC>CTC	p.P574L	CAPN10_uc002vzl.1_Intron|CAPN10_uc002vzm.1_Intron|CAPN10_uc002vzn.1_Missense_Mutation_p.P446L|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_Intron|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	574	Domain III 2.				actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		GAGTTCCACCCCATCGGCTTC	0.642													8	18	---	---	---	---	PASS	T	241536337	T	T	241536337	3	4	28	1	0	0	0	0	1	0	0	0	2623	623	22	3	1755	3	CAPN10	2	241536337	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	8290291	241536337	1663036	82	12045										
CHL1	10752	broad.mit.edu	37	chr3	391221	391221	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcacgattttcacgttatagTagaaggtacctttcccatgt	7	9	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:391221T>A	uc003bou.2	+	9	1251	c.980T>A	c.(979-981)GTA>GAA	p.V327E	CHL1_uc003bot.2_Missense_Mutation_p.V343E|CHL1_uc003bow.1_Missense_Mutation_p.V327E|CHL1_uc011asi.1_Missense_Mutation_p.V343E	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	327	Ig-like C2-type 3.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		CACGTTATAGTAGAAGGTACC	0.388													34	47	---	---	---	---	PASS	A	391221	A	A	391221	3	1	28	1	0	0	0	0	1	0	0	0	3349	1638	57	5	1058	5	CHL1	3	391221	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08		391221	197631209	83	12046										
CHL1	10752	broad.mit.edu	37	chr3	404903	404903	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gctttctttgtccataggcaGaaggtggaagaagtgaaacc	12	7	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:404903G>T	uc003bou.2	+	13	1645	c.1374G>T	c.(1372-1374)CAG>CAT	p.Q458H	CHL1_uc003bot.2_Missense_Mutation_p.Q474H|CHL1_uc003bow.1_Missense_Mutation_p.Q458H|CHL1_uc011asi.1_Missense_Mutation_p.Q474H	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	458	Ig-like C2-type 5.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		TCCATAGGCAGAAGGTGGAAG	0.453													6	22	---	---	---	---	PASS	T	404903	T	T	404903	3	4	28	1	0	0	0	0	1	0	0	0	3349	933	33	2	1468	2	CHL1	3	404903	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	13682	404903	197617527	84	12047										
CHL1	10752	broad.mit.edu	37	chr3	432834	432834	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gccttatatatttcaaacacCagaaggaggtgagaggataa	10	6	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:432834C>T	uc003bou.2	+	21	3006	c.2735C>T	c.(2734-2736)CCA>CTA	p.P912L	CHL1_uc003bot.2_Missense_Mutation_p.P928L|CHL1_uc003bow.1_Missense_Mutation_p.P912L|CHL1_uc011asi.1_Missense_Mutation_p.P928L	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	912	Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		TTTCAAACACCAGAAGGAGGT	0.343													17	24	---	---	---	---	PASS	T	432834	T	T	432834	3	4	28	1	0	0	0	0	1	0	0	0	3349	594	21	3	2861	3	CHL1	3	432834	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	27931	432834	197589596	85	12048										
GRM7	2917	broad.mit.edu	37	chr3	7494373	7494373	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	attgacgcagtctatgctatGgctcacgcccttcaccacat	7	14	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:7494373G>T	uc003bqm.2	+	6	1528	c.1254G>T	c.(1252-1254)ATG>ATT	p.M418I	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.M418I|GRM7_uc003bql.2_Missense_Mutation_p.M418I|GRM7_uc003bqn.1_Missense_Mutation_p.M1I|GRM7_uc010hch.1_5'UTR	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	418	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	TCTATGCTATGGCTCACGCCC	0.478													4	21	---	---	---	---	PASS	T	7494373	T	T	7494373	3	4	28	1	0	0	0	0	1	0	0	0	6802	1348	47	3	1276	3	GRM7	3	7494373	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	7061539	7494373	190528057	86	12049										
RARB	5915	broad.mit.edu	37	chr3	25611395	25611395	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcccttcactctgccagctgGgtaaatacaccacggtaaga	8	13	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:25611395G>T	uc011awl.1	+	4	682	c.616G>T	c.(616-618)GGT>TGT	p.G206C	RARB_uc003cdi.1_Missense_Mutation_p.G87C|RARB_uc003cdh.2_Missense_Mutation_p.G199C	NM_016152	NP_057236	P10826	RARB_HUMAN	retinoic acid receptor, beta isoform 2	206	Ligand-binding.			G -> A (in Ref. 2; CAA68398).	embryonic digestive tract development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	protein binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|large_intestine(1)|pancreas(1)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tamibarotene(DB04942)|Tazarotene(DB00799)	CTGCCAGCTGGGTAAATACAC	0.448													15	28	---	---	---	---	PASS	T	25611395	T	T	25611395	3	4	28	1	0	0	0	0	1	0	0	0	13053	1232	43	3	609	3	RARB	3	25611395	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	18117022	25611395	172411035	87	12050										
RPL14	9045	broad.mit.edu	37	chr3	40503622	40503622	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agaaggttcctgcccagaaaGccacaggccagaaagcagcg	12	12	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:40503622G>A	uc003ckg.2	+	6	598	c.547G>A	c.(547-549)GCC>ACC	p.A183T	RPL14_uc003ckh.2_Missense_Mutation_p.A183T|RPL14_uc003cki.2_Missense_Mutation_p.A134T	NM_003973	NP_003964	P50914	RL14_HUMAN	ribosomal protein L14	183	4 X 5 AA tandem repeats of Q-K-A-[PAS]-X.|1-3.				endocrine pancreas development|ribosomal large subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		TGCCCAGAAAGCCACAGGCCA	0.448													6	8	---	---	---	---	PASS	A	40503622	A	A	40503622	3	1	28	1	0	0	0	0	1	0	0	0	13561	971	34	3	576	3	RPL14	3	40503622	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	14892227	40503622	157518808	88	12051										
KIF9	64147	broad.mit.edu	37	chr3	47307259	47307259	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtgggtgagcttgcactgccGaaaggggatgtggtcccgct	17	9	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:47307259G>A	uc010hjp.2	-	9	1481	c.877C>T	c.(877-879)CGG>TGG	p.R293W	KIF9_uc003cqx.2_Missense_Mutation_p.R293W|KIF9_uc003cqy.2_Missense_Mutation_p.R293W|KIF9_uc011bat.1_RNA|KIF9_uc011bau.1_RNA	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	293					blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		TTGCACTGCCGAAAGGGGATG	0.577													4	40	---	---	---	---	PASS	A	47307259	A	A	47307259	3	1	28	1	0	0	0	0	1	0	0	0	8310	1057	37	2	1551	2	KIF9	3	47307259	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	6803637	47307259	150715171	89	12052										
BSN	8927	broad.mit.edu	37	chr3	49662655	49662655	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cccccacatcaccctactccGtccctcagatcgcccccctt	3	24	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:49662655G>T	uc003cxe.3	+	2	586	c.472G>T	c.(472-474)GTC>TTC	p.V158F		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	158					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		ACCCTACTCCGTCCCTCAGAT	0.632													12	10	---	---	---	---	PASS	T	49662655	T	T	49662655	3	4	28	1	0	0	0	0	1	0	0	0	1530	1145	40	1	478	1	BSN	3	49662655	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	2355396	49662655	148359775	90	12053										
PARP3	10039	broad.mit.edu	37	chr3	51980220	51980220	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cactccaaactgggtaatcgGaagctgctgtggcatggcac	12	11	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:51980220G>T	uc003dby.2	+	9	1508	c.1137G>T	c.(1135-1137)CGG>CGT	p.R379R	PARP3_uc003dbz.2_Silent_p.R386R	NM_005485	NP_005476	Q9Y6F1	PARP3_HUMAN	poly (ADP-ribose) polymerase family, member 3	379	PARP catalytic.				DNA repair|protein ADP-ribosylation	centriole|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		TGGGTAATCGGAAGCTGCTGT	0.592													13	21	---	---	---	---	PASS	T	51980220	T	T	51980220	2	4	28	1	0	0	0	0	0	0	0	1	11462	1161	41	2		2	PARP3	3	51980220	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	2317565	51980220	146042210	91	12054										
ERC2	26059	broad.mit.edu	37	chr3	55984525	55984525	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tctagtaactgagcatttttCttcttttccaactgttgatt	5	8	3	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:55984525C>G	uc003dhr.1	-	13	2587	c.2331G>C	c.(2329-2331)AAG>AAC	p.K777N	ERC2_uc003dhq.1_RNA|ERC2_uc003dht.1_Missense_Mutation_p.K256N	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	777	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		GAGCATTTTTCTTCTTTTCCA	0.438													4	46	---	---	---	---	PASS	G	55984525	G	G	55984525	3	3	28	1	0	0	0	0	1	0	0	0	5211	912	32	2	562	2	ERC2	3	55984525	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	4004305	55984525	142037905	92	12055										
CADPS	8618	broad.mit.edu	37	chr3	62423866	62423866	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acgaaagtcacgtaggcgtcGgccacgtccatcccgggttt	12	13	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:62423866G>T	uc003dll.2	-	28	4050	c.3690C>A	c.(3688-3690)GCC>GCA	p.A1230A	CADPS_uc003dlj.1_Silent_p.A185A|CADPS_uc003dlk.1_Silent_p.A678A|CADPS_uc003dlm.2_Silent_p.A1191A|CADPS_uc003dln.2_Silent_p.A1151A	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	1230	Mediates targeting and association with DCVs (By similarity).			A -> P (in Ref. 6; AAA79701).	exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		CGTAGGCGTCGGCCACGTCCA	0.448													8	15	---	---	---	---	PASS	T	62423866	T	T	62423866	2	4	28	1	0	0	0	0	0	0	0	1	2570	1103	39	1		1	CADPS	3	62423866	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	6439341	62423866	135598564	93	12056										
PDZRN3	23024	broad.mit.edu	37	chr3	73433323	73433323	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gaggctggcccgtaggcttcCgtggtccccacagccccttc	12	17	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:73433323C>T	uc003dpl.1	-	10	2490	c.2394G>A	c.(2392-2394)ACG>ACA	p.T798T	PDZRN3_uc011bgh.1_Silent_p.T455T|PDZRN3_uc010hoe.1_Silent_p.T496T|PDZRN3_uc011bgf.1_Silent_p.T515T|PDZRN3_uc011bgg.1_Silent_p.T518T	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	798							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		CGTAGGCTTCCGTGGTCCCCA	0.652													15	20	---	---	---	---	PASS	T	73433323	T	T	73433323	2	4	28	1	0	0	0	0	0	0	0	1	11709	639	23	1		1	PDZRN3	3	73433323	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	11009457	73433323	124589107	94	12057										
OR5H15	403274	broad.mit.edu	37	chr3	97888265	97888265	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aaggaaagccttttccacctGtggagcccatctcttctctg	8	13	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:97888265G>A	uc011bgu.1	+	1	722	c.722G>A	c.(721-723)TGT>TAT	p.C241Y		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTTTCCACCTGTGGAGCCCAT	0.423													16	48	---	---	---	---	PASS	A	97888265	A	A	97888265	3	1	28	1	0	0	0	0	1	0	0	0	11161	1377	48	3	724	3	OR5H15	3	97888265	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	24454942	97888265	100134165	95	12058										
FILIP1L	11259	broad.mit.edu	37	chr3	99552094	99552094	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgagttcaatgaggcagaagAagtggttccacctagggagc	14	7	1	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:99552094A>T	uc003dtm.2	-	6	3856	c.3393T>A	c.(3391-3393)CTT>CTA	p.L1131L	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc010hpf.2_Silent_p.L707L|FILIP1L_uc010hpg.2_Silent_p.L891L	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	1131						cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						GAGGCAGAAGAAGTGGTTCCA	0.343													6	28	---	---	---	---	PASS	T	99552094	T	T	99552094	2	4	28	1	0	0	0	0	0	0	0	1	5895	233	9	5		5	FILIP1L	3	99552094	Silent	SNP	A	TCGA-21-5787-01A-01D-1632-08	1663829	99552094	98470336	96	12059										
B4GALT4	8702	broad.mit.edu	37	chr3	118948703	118948703	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcaacacttactgaggtaagGagacacagaagggcagttgt	13	7	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:118948703G>C	uc003ecg.2	-	3	885	c.244C>G	c.(244-246)CCT>GCT	p.P82A	B4GALT4_uc003ece.1_Missense_Mutation_p.P82A|B4GALT4_uc003ecf.2_RNA|B4GALT4_uc003ech.2_Missense_Mutation_p.P82A|B4GALT4_uc003eci.2_Missense_Mutation_p.P82A|B4GALT4_uc011biy.1_Intron	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	82	Lumenal (Potential).				membrane lipid metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding|N-acetyllactosamine synthase activity				0				GBM - Glioblastoma multiforme(114;0.222)	N-Acetyl-D-glucosamine(DB00141)	CTGAGGTAAGGAGACACAGAA	0.323													7	30	---	---	---	---	PASS	C	118948703	C	C	118948703	3	2	28	1	0	0	0	0	1	0	0	0	1273	1174	41	2	814	2	B4GALT4	3	118948703	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	19396609	118948703	79073727	97	12060										
KALRN	8997	broad.mit.edu	37	chr3	124437893	124437893	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cctgctggggaaccctgagtTtgctgccccagaagtcattc	11	13	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:124437893T>A	uc003ehg.2	+	60	8664	c.8537T>A	c.(8536-8538)TTT>TAT	p.F2846Y	KALRN_uc003ehk.2_Missense_Mutation_p.F1149Y	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2845	Protein kinase.				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						AACCCTGAGTTTGCTGCCCCA	0.567													6	34	---	---	---	---	PASS	A	124437893	A	A	124437893	3	1	28	1	0	0	0	0	1	0	0	0	7975	1841	64	5	8931	5	KALRN	3	124437893	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	5489190	124437893	73584537	98	12061										
KIAA1257	57501	broad.mit.edu	37	chr3	128712011	128712011	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgcacgggcggtcagagtcaGactcctgggccctggccttg	15	13	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:128712011G>C	uc003elj.3	-	2	333	c.137C>G	c.(136-138)TCT>TGT	p.S46C	KIAA1257_uc003elg.1_Missense_Mutation_p.S46C|KIAA1257_uc003eli.3_5'Flank	NM_020741	NP_065792	Q9ULG3	K1257_HUMAN	hypothetical protein LOC57501	46											0						GTCAGAGTCAGACTCCTGGGC	0.597													8	38	---	---	---	---	PASS	C	128712011	C	C	128712011	3	2	28	1	0	0	0	0	1	0	0	0	8218	942	33	2	1120	2	KIAA1257	3	128712011	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	4274118	128712011	69310419	99	12062										
KY	339855	broad.mit.edu	37	chr3	134322631	134322631	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aatttgaatgggacattccgGttggcaggaagcacacctga	12	8	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:134322631G>T	uc010hty.2	-	11	1838	c.1776C>A	c.(1774-1776)AAC>AAA	p.N592K	KY_uc011blw.1_3'UTR|KY_uc011blx.1_Missense_Mutation_p.N571K	NM_178554	NP_848649	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase	Error:Variant_position_missing_in_Q8NBH2_after_alignment						cytoskeleton|Z disc	peptidase activity			ovary(2)	2						GGACATTCCGGTTGGCAGGAA	0.562													4	20	---	---	---	---	PASS	T	134322631	T	T	134322631	3	4	28	1	0	0	0	0	1	0	0	0	8586	1252	44	3	213	3	KY	3	134322631	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	5610620	134322631	63699799	100	12063										
SLC9A9	285195	broad.mit.edu	37	chr3	143412110	143412110	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tctccatttttcagctggccAgcatgtatcatagccttcac	6	13	4	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:143412110A>G	uc003evn.2	-	5	755	c.573T>C	c.(571-573)GCT>GCC	p.A191A	SLC9A9_uc011bnk.1_Silent_p.A65A	NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	191					regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						TCAGCTGGCCAGCATGTATCA	0.358													15	25	---	---	---	---	PASS	G	143412110	G	G	143412110	2	3	28	1	0	0	0	0	0	0	0	1	14721	175	7	5		5	SLC9A9	3	143412110	Silent	SNP	A	TCGA-21-5787-01A-01D-1632-08	9089479	143412110	54610320	101	12064										
PLCH1	23007	broad.mit.edu	37	chr3	155200017	155200017	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggagtgcaggtagtttcataAactgtgttcgttgcatgttt	12	5	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:155200017A>G	uc011bok.1	-	23	4099	c.3822T>C	c.(3820-3822)GTT>GTC	p.V1274V	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Silent_p.V1236V	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1274					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TAGTTTCATAAACTGTGTTCG	0.478													19	99	---	---	---	---	PASS	G	155200017	G	G	155200017	2	3	28	1	0	0	0	0	0	0	0	1	12037	1	1	5		5	PLCH1	3	155200017	Silent	SNP	A	TCGA-21-5787-01A-01D-1632-08	11787907	155200017	42822413	102	12065										
SI	6476	broad.mit.edu	37	chr3	164700802	164700802	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttacatacctggtttaaattAaattgtacagataaatatag	5	4	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:164700802A>T	uc003fei.2	-	46	5297	c.5235T>A	c.(5233-5235)TTT>TTA	p.F1745L		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1745	Sucrase.|Lumenal.		F -> C (in CSID).		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)	GGTTTAAATTAAATTGTACAG	0.224										HNSCC(35;0.089)			3	22	---	---	---	---	PASS	T	164700802	T	T	164700802	3	4	28	1	0	0	0	0	1	0	0	0	14297	359	13	5	260	5	SI	3	164700802	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	9500785	164700802	33321628	103	12066										
SI	6476	broad.mit.edu	37	chr3	164767661	164767661	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aagctggaaacttcattcatGtcctgaatggatacaaaatg	8	7	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:164767661G>T	uc003fei.2	-	14	1577	c.1515C>A	c.(1513-1515)GAC>GAA	p.D505E		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	505	Lumenal.|Isomaltase.	Nucleophile.			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)	CTTCATTCATGTCCTGAATGG	0.284										HNSCC(35;0.089)			10	29	---	---	---	---	PASS	T	164767661	T	T	164767661	3	4	28	1	0	0	0	0	1	0	0	0	14297	1368	48	3	4108	3	SI	3	164767661	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	66859	164767661	33254769	104	12067										
SI	6476	broad.mit.edu	37	chr3	164780170	164780170	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gaaacacacctgttgatactGttgaactacttgttctggtg	9	8	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:164780170G>T	uc003fei.2	-	9	1071	c.1009C>A	c.(1009-1011)CAG>AAG	p.Q337K		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	337	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)	TGTTGATACTGTTGAACTACT	0.323										HNSCC(35;0.089)			24	35	---	---	---	---	PASS	T	164780170	T	T	164780170	3	4	28	1	0	0	0	0	1	0	0	0	14297	1386	48	3	4634	3	SI	3	164780170	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	12509	164780170	33242260	105	12068										
SI	6476	broad.mit.edu	37	chr3	164793779	164793779	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aatcagagagatttccaatcCactaaatttctttcttgcca	4	10	3	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:164793779C>A	uc003fei.2	-	2	84	c.22G>T	c.(22-24)GGA>TGA	p.G8*		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	8	Cytoplasmic.				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)	ATTTCCAATCCACTAAATTTC	0.269										HNSCC(35;0.089)			14	36	---	---	---	---	PASS	A	164793779	A	A	164793779	4	1	28	1	0	0	0	0	0	1	0	0	14297	603	21	3	5649	3	SI	3	164793779	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	13609	164793779	33228651	106	12069										
ZMAT3	64393	broad.mit.edu	37	chr3	178785487	178785487	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtggccactgacataggaggCgagggtgagggctgcttagg	19	7	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:178785487C>A	uc003fjg.2	-	2	313	c.54G>T	c.(52-54)TCG>TCT	p.S18S	ZMAT3_uc010hxa.2_Silent_p.S18S|ZMAT3_uc003fji.2_Silent_p.S18S	NM_022470	NP_071915	Q9HA38	ZMAT3_HUMAN	p53 target zinc finger protein isoform 1	18					apoptosis|protein transport|regulation of growth|response to DNA damage stimulus|transmembrane transport	nucleolus	RNA binding|zinc ion binding			ovary(2)	2	all_cancers(143;3.31e-18)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;6.74e-27)|GBM - Glioblastoma multiforme(14;0.00448)|BRCA - Breast invasive adenocarcinoma(182;0.0527)			ACATAGGAGGCGAGGGTGAGG	0.572													15	95	---	---	---	---	PASS	A	178785487	A	A	178785487	2	1	28	1	0	0	0	0	0	0	0	1	17690	755	27	1		1	ZMAT3	3	178785487	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	13991708	178785487	19236943	107	12070										
VPS8	23355	broad.mit.edu	37	chr3	184689483	184689483	+	Silent	SNP	G	T	T													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gatgttgaagatactatggtGgagaccattgctctttgcca							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:184689483G>T	uc003fpb.1	+	39	3528	c.3357G>T	c.(3355-3357)GTG>GTT	p.V1119V	VPS8_uc010hyd.1_Silent_p.V1029V|VPS8_uc010hye.1_Silent_p.V548V	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	1121							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			ATACTATGGTGGAGACCATTG	0.363													4	11	---	---	---	---	PASS	T	184689483	T	T	184689483	2	4	28	1	0	0	0	0	0	0	0	1	17215	1335	47	3		3	VPS8	3	184689483	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	5903996	184689483	13332947	108	12071	327	2								
VPS8	23355	broad.mit.edu	37	chr3	184689484	184689484	+	Nonsense_Mutation	SNP	G	T	T													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atgttgaagatactatggtgGagaccattgctctttgccag							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:184689484G>T	uc003fpb.1	+	39	3529	c.3358G>T	c.(3358-3360)GAG>TAG	p.E1120*	VPS8_uc010hyd.1_Nonsense_Mutation_p.E1030*|VPS8_uc010hye.1_Nonsense_Mutation_p.E549*	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	1122							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TACTATGGTGGAGACCATTGC	0.363													4	11	---	---	---	---	PASS	T	184689484	T	T	184689484	4	4	28	1	0	0	0	0	0	1	0	0	17215	1175	41	2	3514	2	VPS8	3	184689484	Nonsense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1	184689484	13332946	109	12072	327	2								
BDH1	622	broad.mit.edu	37	chr3	197238900	197238900	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cagggcgtgtgtgacagcatCgatgacaggggacgtgtctg	17	8	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr3:197238900C>T	uc003fxr.2	-	8	1300	c.898G>A	c.(898-900)GAT>AAT	p.D300N	BDH1_uc003fxs.2_Missense_Mutation_p.D300N|BDH1_uc003fxt.2_Missense_Mutation_p.D213N|BDH1_uc003fxu.2_Missense_Mutation_p.D300N	NM_203314	NP_976059	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1	300					cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			ovary(1)	1	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	GTGACAGCATCGATGACAGGG	0.577													10	82	---	---	---	---	PASS	T	197238900	T	T	197238900	3	4	28	1	0	0	0	0	1	0	0	0	1390	884	31	2	137	2	BDH1	3	197238900	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	12549416	197238900	783530	110	12073										
ZNF595	152687	broad.mit.edu	37	chr4	86363	86363	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgtggcaaagcctttagacaGtccaggagcctgaatgaaca	11	9	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:86363G>C	uc003fzv.1	+	6	1125	c.969G>C	c.(967-969)CAG>CAC	p.Q323H	ZNF595_uc003fzu.1_Intron|ZNF718_uc003fzt.3_Intron|ZNF595_uc011bus.1_Missense_Mutation_p.Q91H|ZNF595_uc011but.1_Missense_Mutation_p.Q91H	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	323					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		CCTTTAGACAGTCCAGGAGCC	0.378													27	25	---	---	---	---	PASS	C	86363	C	C	86363	3	2	28	1	0	0	0	0	1	0	0	0	18022	1029	36	4	982	4	ZNF595	4	86363	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08		86363	191067913	111	12074										
PIGG	54872	broad.mit.edu	37	chr4	493149	493149	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggctgggctccgggactttcGctacctgttgcgtagcgatc	14	12	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:493149G>A	uc003gak.3	+	1	161	c.25G>A	c.(25-27)GCT>ACT	p.A9T	PIGG_uc003gaj.3_Missense_Mutation_p.A9T|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Missense_Mutation_p.A9T|PIGG_uc003gal.3_Intron|ZNF721_uc003gag.2_5'UTR|ZNF721_uc010ibe.2_5'UTR|ZNF721_uc003gah.1_RNA|PIGG_uc003gai.2_RNA|PIGG_uc011buw.1_5'UTR|PIGG_uc003gam.2_5'UTR|PIGG_uc003gan.2_5'UTR	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	9	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						CGGGACTTTCGCTACCTGTTG	0.662													5	11	---	---	---	---	PASS	A	493149	A	A	493149	3	1	28	1	0	0	0	0	1	0	0	0	11888	1087	38	1	27	1	PIGG	4	493149	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	406786	493149	190661127	112	12075										
PIGG	54872	broad.mit.edu	37	chr4	499606	499606	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgataagacaagcaaaagcaGctggaaaaagaatagtcttt	9	5	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:499606G>C	uc003gak.3	+	3	596	c.460G>C	c.(460-462)GCT>CCT	p.A154P	PIGG_uc003gaj.3_Missense_Mutation_p.A154P|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Intron|PIGG_uc003gal.3_Missense_Mutation_p.A65P|PIGG_uc003gai.2_RNA|PIGG_uc011buw.1_Missense_Mutation_p.A32P|PIGG_uc003gam.2_Missense_Mutation_p.A65P|PIGG_uc003gan.2_Missense_Mutation_p.A65P	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	154	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						AGCAAAAGCAGCTGGAAAAAG	0.433													14	50	---	---	---	---	PASS	C	499606	C	C	499606	3	2	28	1	0	0	0	0	1	0	0	0	11888	971	34	4	470	4	PIGG	4	499606	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	6457	499606	190654670	113	12076										
DHX15	1665	broad.mit.edu	37	chr4	24556484	24556484	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agatctcaacaggatgtgtaCgcccaggaatagttaggaga	12	7	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:24556484C>A	uc003gqx.2	-	5	1112	c.944G>T	c.(943-945)CGT>CTT	p.R315L		NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	315					mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				AGGATGTGTACGCCCAGGAAT	0.388													7	62	---	---	---	---	PASS	A	24556484	A	A	24556484	3	1	28	1	0	0	0	0	1	0	0	0	4501	536	19	1	1483	1	DHX15	4	24556484	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	24056878	24556484	166597792	114	12077										
ANAPC4	29945	broad.mit.edu	37	chr4	25391798	25391798	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gaggaagctctggatttattGagctttatgcttatggaatg	12	4	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:25391798G>T	uc003gro.2	+	8	685	c.556G>T	c.(556-558)GAG>TAG	p.E186*	ANAPC4_uc003grp.2_Nonsense_Mutation_p.E71*|ANAPC4_uc010iet.1_5'UTR|ANAPC4_uc010ieu.1_5'UTR	NM_013367	NP_037499	Q9UJX5	APC4_HUMAN	anaphase-promoting complex subunit 4	186					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding|ubiquitin-protein ligase activity			ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5		Breast(46;0.0503)				TGGATTTATTGAGCTTTATGC	0.338													9	49	---	---	---	---	PASS	T	25391798	T	T	25391798	4	4	28	1	0	0	0	0	0	1	0	0	604	1291	45	2	582	2	ANAPC4	4	25391798	Nonsense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	835314	25391798	165762478	115	12078										
PGM2	55276	broad.mit.edu	37	chr4	37841787	37841787	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cgtggcctcaagcttgggacGattctttaattgatagcagt	11	8	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:37841787G>A	uc011byb.1	+	6	698	c.625G>A	c.(625-627)GAT>AAT	p.D209N	PGM2_uc011bya.1_Missense_Mutation_p.D70N|PGM2_uc011byc.1_Missense_Mutation_p.D49N	NM_018290	NP_060760	Q96G03	PGM2_HUMAN	phosphoglucomutase 2	209					glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity|phosphopentomutase activity			ovary(1)	1						AGCTTGGGACGATTCTTTAAT	0.403													11	58	---	---	---	---	PASS	A	37841787	A	A	37841787	3	1	28	1	0	0	0	0	1	0	0	0	11798	1058	37	2	647	2	PGM2	4	37841787	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	12449989	37841787	153312489	116	12079										
BEND4	389206	broad.mit.edu	37	chr4	42145769	42145769	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agtgaaaaccctcaaaaaggCagaagtttgttgtttccttt	8	7	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:42145769C>A	uc003gwn.2	-	3	1310	c.730G>T	c.(730-732)GCC>TCC	p.A244S	BEND4_uc003gwm.2_Missense_Mutation_p.A244S|BEND4_uc011byy.1_Missense_Mutation_p.A244S	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	244											0						CTCAAAAAGGCAGAAGTTTGT	0.468													3	20	---	---	---	---	PASS	A	42145769	A	A	42145769	3	1	28	1	0	0	0	0	1	0	0	0	1400	710	25	3	890	3	BEND4	4	42145769	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	4303982	42145769	149008507	117	12080										
GABRG1	2565	broad.mit.edu	37	chr4	46043106	46043106	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aattttggcaatgcgtatgtGtatccttccttccctccaag	7	11	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:46043106G>C	uc003gxb.2	-	9	1449	c.1297C>G	c.(1297-1299)CAC>GAC	p.H433D		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	433	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		ATGCGTATGTGTATCCTTCCT	0.408													15	53	---	---	---	---	PASS	C	46043106	C	C	46043106	3	2	28	1	0	0	0	0	1	0	0	0	6171	1377	48	4	104	4	GABRG1	4	46043106	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	3897337	46043106	145111170	118	12081										
GABRA4	2557	broad.mit.edu	37	chr4	46967068	46967068	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggctttgatgtcttccttttGgctttttccatttgaatatt	7	7	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:46967068G>T	uc003gxg.2	-	8	1192	c.1053C>A	c.(1051-1053)GCC>GCA	p.A351A		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	351	Cytoplasmic (Probable).				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			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TCTTCCTTTTGGCTTTTTCCA	0.468													18	38	---	---	---	---	PASS	T	46967068	T	T	46967068	2	4	28	1	0	0	0	0	0	0	0	1	6163	1335	47	3		3	GABRA4	4	46967068	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	923962	46967068	144187208	119	12082										
GABRA4	2557	broad.mit.edu	37	chr4	46973213	46973213	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcataaaataacccatcttcCgtctgaggtggaagtaaacc	7	10	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:46973213C>A	uc003gxg.2	-	7	900	c.761G>T	c.(760-762)CGG>CTG	p.R254L		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	254	Extracellular (Probable).				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			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ACCCATCTTCCGTCTGAGGTG	0.383													19	27	---	---	---	---	PASS	A	46973213	A	A	46973213	3	1	28	1	0	0	0	0	1	0	0	0	6163	652	23	1	915	1	GABRA4	4	46973213	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	6145	46973213	144181063	120	12083										
CORIN	10699	broad.mit.edu	37	chr4	47655610	47655610	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcatcgtcacagtcggcctgGccatcacatcttctggaagc	9	14	5	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:47655610G>A	uc003gxm.2	-	13	1896	c.1803C>T	c.(1801-1803)GGC>GGT	p.G601G	CORIN_uc011bzf.1_Silent_p.G462G|CORIN_uc011bzg.1_Silent_p.G534G|CORIN_uc011bzh.1_Silent_p.G564G	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	601	Extracellular (Potential).|LDL-receptor class A 5.				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						AGTCGGCCTGGCCATCACATC	0.403													10	57	---	---	---	---	PASS	A	47655610	A	A	47655610	2	1	28	1	0	0	0	0	0	0	0	1	3752	1190	42	3		3	CORIN	4	47655610	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	682397	47655610	143498666	121	12084										
SGCB	6443	broad.mit.edu	37	chr4	52890241	52890241	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcttgtagcgtacccagtcaCcactacccaactggtctcca	7	16	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:52890241C>A	uc003gzj.2	-	6	899	c.839G>T	c.(838-840)GGT>GTT	p.G280V	SGCB_uc011bzp.1_Missense_Mutation_p.G210V	NM_000232	NP_000223	Q16585	SGCB_HUMAN	sarcoglycan, beta	280	Extracellular (Potential).|Cys-rich.				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma					0			GBM - Glioblastoma multiforme(4;7.63e-12)|LUSC - Lung squamous cell carcinoma(32;0.00204)			TACCCAGTCACCACTACCCAA	0.517													25	44	---	---	---	---	PASS	A	52890241	A	A	52890241	3	1	28	1	0	0	0	0	1	0	0	0	14200	507	18	3	121	3	SGCB	4	52890241	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	5234631	52890241	138264035	122	12085										
SPATA18	132671	broad.mit.edu	37	chr4	52926996	52926996	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caagtcacgccttttgccttGgctggaggcttcctttactg	10	12	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:52926996G>T	uc003gzl.2	+	3	520	c.242G>T	c.(241-243)TGG>TTG	p.W81L	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.W81L|SPATA18_uc003gzk.1_Missense_Mutation_p.W81L	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	81					mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			CTTTTGCCTTGGCTGGAGGCT	0.378													24	54	---	---	---	---	PASS	T	52926996	T	T	52926996	3	4	28	1	0	0	0	0	1	0	0	0	15002	1357	47	3	252	3	SPATA18	4	52926996	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	36755	52926996	138227280	123	12086										
PDGFRA	5156	broad.mit.edu	37	chr4	54257635	54257635	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gaagttacaccaggtgcagaGatccaagatggcagattcaa	11	8	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:54257635G>C	uc003haa.2	+	9	861	c.675G>C	c.(673-675)GAG>GAC	p.E225D	FIP1L1_uc003gzx.3_Missense_Mutation_p.E210D|FIP1L1_uc011bzt.1_Missense_Mutation_p.E225D|FIP1L1_uc003gzy.2_Missense_Mutation_p.E225D|FIP1L1_uc011bzu.1_Missense_Mutation_p.E210D|FIP1L1_uc003gzz.2_Intron|FIP1L1_uc003hab.2_Intron|FIP1L1_uc003hac.2_Intron	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	Error:Variant_position_missing_in_P16234_after_alignment					cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	CAGGTGCAGAGATCCAAGATG	0.358			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			17	35	---	---	---	---	PASS	C	54257635	C	C	54257635	3	2	28	1	0	0	0	0	1	0	0	0	11661	933	33	2		2	PDGFRA	4	54257635	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1330639	54257635	136896641	124	12087										
KIAA1211	57482	broad.mit.edu	37	chr4	57182429	57182429	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cttccacccggagggactccGctgaaccttccagcagccgc	10	18	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:57182429G>T	uc003hbk.2	+	8	3152	c.2761G>T	c.(2761-2763)GCT>TCT	p.A921S	KIAA1211_uc010iha.2_Missense_Mutation_p.A914S|KIAA1211_uc011bzz.1_Missense_Mutation_p.A831S|KIAA1211_uc003hbm.1_Missense_Mutation_p.A807S	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	921										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					GAGGGACTCCGCTGAACCTTC	0.657													9	11	---	---	---	---	PASS	T	57182429	T	T	57182429	3	4	28	1	0	0	0	0	1	0	0	0	8215	1087	38	1	2779	1	KIAA1211	4	57182429	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	2924794	57182429	133971847	125	12088										
UNC5C	8633	broad.mit.edu	37	chr4	96127913	96127913	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gggcccacagctcaccacagGggtcaaaagtgtctgagagt	13	11	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:96127913G>T	uc003htp.1	-	11	1922	c.1768C>A	c.(1768-1770)CCT>ACT	p.P590T	UNC5C_uc010ilc.1_Missense_Mutation_p.P609T	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	590	Cytoplasmic (Potential).|ZU5.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		CTCACCACAGGGGTCAAAAGT	0.537													17	18	---	---	---	---	PASS	T	96127913	T	T	96127913	3	4	28	1	0	0	0	0	1	0	0	0	16990	1232	43	3	1051	3	UNC5C	4	96127913	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	38945484	96127913	95026363	126	12089										
ANK2	287	broad.mit.edu	37	chr4	114195682	114195682	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cagctgcttctacaacatatGgctcatccagatgcggccac	8	14	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:114195682G>A	uc003ibe.3	+	15	1660	c.1560G>A	c.(1558-1560)ATG>ATA	p.M520I	ANK2_uc003ibd.3_Missense_Mutation_p.M499I|ANK2_uc003ibf.3_Missense_Mutation_p.M520I|ANK2_uc003ibc.2_Missense_Mutation_p.M496I|ANK2_uc011cgb.1_Missense_Mutation_p.M535I	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	520	ANK 15.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TACAACATATGGCTCATCCAG	0.507													30	39	---	---	---	---	PASS	A	114195682	A	A	114195682	3	1	28	1	0	0	0	0	1	0	0	0	621	1348	47	3	1643	3	ANK2	4	114195682	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	18067769	114195682	76958594	127	12090										
SLC25A31	83447	broad.mit.edu	37	chr4	128651829	128651829	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcggtggcgcccatcgagcgGgtgaagctgctgctgcaggt	18	11	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:128651829G>C	uc003ifl.2	+	1	275	c.129G>C	c.(127-129)CGG>CGC	p.R43R		NM_031291	NP_112581	Q9H0C2	ADT4_HUMAN	solute carrier family 25 (mitochondrial carrier;	43	Solcar 1.|Helical; Name=1; (Potential).				transmembrane transport	cilium|flagellum|integral to membrane|mitochondrial inner membrane	binding|transporter activity				0						CCATCGAGCGGGTGAAGCTGC	0.652													17	20	---	---	---	---	PASS	C	128651829	C	C	128651829	2	2	28	1	0	0	0	0	0	0	0	1	14495	1219	43	4		4	SLC25A31	4	128651829	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	14456147	128651829	62502447	128	12091										
POU4F2	5458	broad.mit.edu	37	chr4	147561554	147561554	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acgcatcaagctgggggtgaCccaggcagatgtgggctccg	16	11	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:147561554C>A	uc003ikv.2	+	2	1072	c.824C>A	c.(823-825)ACC>AAC	p.T275N		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	275	POU-specific.				estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					CTGGGGGTGACCCAGGCAGAT	0.667													7	18	---	---	---	---	PASS	A	147561554	A	A	147561554	3	1	28	1	0	0	0	0	1	0	0	0	12279	507	18	3	830	3	POU4F2	4	147561554	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	18909725	147561554	43592722	129	12092										
LRBA	987	broad.mit.edu	37	chr4	151771880	151771880	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aaacatatagacaaaccttcTccacatctgtatatctgttt	3	10	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:151771880T>A	uc010ipj.2	-	24	4474	c.4000A>T	c.(4000-4002)AGA>TGA	p.R1334*	LRBA_uc003ilt.3_5'Flank|LRBA_uc003ilu.3_Nonsense_Mutation_p.R1334*	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1334	WD 1.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					ACAAACCTTCTCCACATCTGT	0.313													12	20	---	---	---	---	PASS	A	151771880	A	A	151771880	4	1	28	1	0	0	0	0	0	1	0	0	8931	1559	54	5	4731	5	LRBA	4	151771880	Nonsense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	4210326	151771880	39382396	130	12093										
FAM198B	51313	broad.mit.edu	37	chr4	159076762	159076762	+	Splice_Site	SNP	C	A	A													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgcttgatttgataaacttaCctgtaacaaaaaatcaaaga							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:159076762C>A	uc003ipp.3	-	3	1577	c.1125_splice	c.e3+1	p.Q375_splice	FAM198B_uc003ipq.3_Splice_Site_p.Q383_splice|FAM198B_uc003ipr.3_Splice_Site_p.Q375_splice	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2							Golgi membrane|integral to membrane					0						GATAAACTTACCTGTAACAAA	0.413													11	19	---	---	---	---	PASS	A	159076762	A	A	159076762	5	1	28	1	0	0	0	0	0	0	1	0	5529	521	18	3	445	3	FAM198B	4	159076762	Splice_Site	SNP	C	TCGA-21-5787-01A-01D-1632-08	7304882	159076762	32077514	131	12094	328	2								
FAM198B	51313	broad.mit.edu	37	chr4	159076763	159076763	+	Missense_Mutation	SNP	C	A	A													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcttgatttgataaacttacCtgtaacaaaaaatcaaagag							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:159076763C>A	uc003ipp.3	-	3	1577	c.1125G>T	c.(1123-1125)CAG>CAT	p.Q375H	FAM198B_uc003ipq.3_Missense_Mutation_p.Q383H|FAM198B_uc003ipr.3_Missense_Mutation_p.Q375H	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	375	Extracellular (Potential).					Golgi membrane|integral to membrane					0						ATAAACTTACCTGTAACAAAA	0.408													12	21	---	---	---	---	PASS	A	159076763	A	A	159076763	3	1	28	1	0	0	0	0	1	0	0	0	5529	695	24	3	446	3	FAM198B	4	159076763	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1	159076763	32077513	132	12095	328	2								
ODZ3	55714	broad.mit.edu	37	chr4	183714418	183714418	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggatgaagatggtttcctacGtcaaaggggcacggaaatct	13	7	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr4:183714418G>T	uc003ivd.1	+	25	6630	c.6593G>T	c.(6592-6594)CGT>CTT	p.R2198L		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2198	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GGTTTCCTACGTCAAAGGGGC	0.493													23	32	---	---	---	---	PASS	T	183714418	T	T	183714418	3	4	28	1	0	0	0	0	1	0	0	0	10836	1145	40	1	6691	1	ODZ3	4	183714418	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	24637655	183714418	7439858	133	12096										
CTNND2	1501	broad.mit.edu	37	chr5	11364909	11364909	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tctgatagacgcggtcttcaTagatgggatctatgtggtgt	13	6	4	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:11364909T>C	uc003jfa.1	-	8	1416	c.1271A>G	c.(1270-1272)TAT>TGT	p.Y424C	CTNND2_uc010itt.2_Missense_Mutation_p.Y333C|CTNND2_uc011cmy.1_Missense_Mutation_p.Y87C|CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_5'UTR	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	424	ARM 1.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GCGGTCTTCATAGATGGGATC	0.617													10	41	---	---	---	---	PASS	C	11364909	C	C	11364909	3	2	28	1	0	0	0	0	1	0	0	0	4020	1406	49	5	2466	5	CTNND2	5	11364909	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08		11364909	169550351	134	12097										
PRDM9	56979	broad.mit.edu	37	chr5	23510028	23510028	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aaaatttttgcttcttttcaGgtctcagagccactcgacca	6	11	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:23510028G>C	uc003jgo.2	+	4	376	c.194_splice	c.e4-1	p.G65_splice		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9						meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						CTTCTTTTCAGGTCTCAGAGC	0.483										HNSCC(3;0.000094)			9	41	---	---	---	---	PASS	C	23510028	C	C	23510028	5	2	28	1	0	0	0	0	0	0	1	0	12463	1014	35	4	203	4	PRDM9	5	23510028	Splice_Site	SNP	G	TCGA-21-5787-01A-01D-1632-08	12145119	23510028	157405232	135	12098										
CDH10	1008	broad.mit.edu	37	chr5	24487815	24487815	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caccaccatacatttctgctAgcttattaaaccgagggccc	6	14	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:24487815A>G	uc003jgr.1	-	12	2656	c.2324T>C	c.(2323-2325)CTA>CCA	p.L775P	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	775	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CATTTCTGCTAGCTTATTAAA	0.423										HNSCC(23;0.051)			55	159	---	---	---	---	PASS	G	24487815	G	G	24487815	3	3	28	1	0	0	0	0	1	0	0	0	3096	420	15	5	46	5	CDH10	5	24487815	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	977787	24487815	156427445	136	12099										
UGT3A1	133688	broad.mit.edu	37	chr5	35965778	35965778	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cagcaaggaagggaatactgGaacataagacaaggggcttg	14	6	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:35965778G>A	uc003jjv.1	-	4	710	c.553C>T	c.(553-555)CCA>TCA	p.P185S	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.P185S|UGT3A1_uc011cor.1_Missense_Mutation_p.P151S|UGT3A1_uc003jjy.1_Missense_Mutation_p.P131S	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	185	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGGAATACTGGAACATAAGAC	0.468													36	42	---	---	---	---	PASS	A	35965778	A	A	35965778	3	1	28	1	0	0	0	0	1	0	0	0	16960	1174	41	2	1116	2	UGT3A1	5	35965778	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	11477963	35965778	144949482	137	12100										
C6	729	broad.mit.edu	37	chr5	41186173	41186173	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccatgctaggctgtcataccTcaaagccgacattttccaga	7	13	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:41186173T>A	uc003jmk.2	-	6	935	c.725A>T	c.(724-726)GAG>GTG	p.E242V	C6_uc003jml.1_Missense_Mutation_p.E242V	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	242	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				CTGTCATACCTCAAAGCCGAC	0.403													16	68	---	---	---	---	PASS	A	41186173	A	A	41186173	3	1	28	1	0	0	0	0	1	0	0	0	2315	1565	54	5	2131	5	C6	5	41186173	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	5220395	41186173	139729087	138	12101										
FBXO4	26272	broad.mit.edu	37	chr5	41927343	41927343	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atggtgcattttttgactacAtggcagtgtaagtatctagt	10	5	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:41927343A>C	uc003jmq.2	+	2	474	c.418A>C	c.(418-420)ATG>CTG	p.M140L	FBXO4_uc003jmp.2_Missense_Mutation_p.M140L|FBXO4_uc003jmr.2_Missense_Mutation_p.M140L	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	140					positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)				TTTTGACTACATGGCAGTGTA	0.274													15	104	---	---	---	---	PASS	C	41927343	C	C	41927343	3	2	28	1	0	0	0	0	1	0	0	0	5748	217	8	5	424	5	FBXO4	5	41927343	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	741170	41927343	138987917	139	12102										
HCN1	348980	broad.mit.edu	37	chr5	45645705	45645705	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	taagcattattaaatcccagTaaaacctacaacaaataaaa	2	8	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:45645705T>G	uc003jok.2	-	2	456	c.431A>C	c.(430-432)TAC>TCC	p.Y144S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	144	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TAAATCCCAGTAAAACCTACA	0.303													29	53	---	---	---	---	PASS	G	45645705	G	G	45645705	3	3	28	1	0	0	0	0	1	0	0	0	6996	1638	57	5	2269	5	HCN1	5	45645705	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	3718362	45645705	135269555	140	12103										
VCAN	1462	broad.mit.edu	37	chr5	82837984	82837984	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cctgtggaatttaatactgaGgttgcaacaccaccattttc	7	10	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:82837984G>T	uc003kii.3	+	8	9518	c.9162G>T	c.(9160-9162)GAG>GAT	p.E3054D	VCAN_uc003kij.3_Missense_Mutation_p.E2067D|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.E1718D	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3054	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TTAATACTGAGGTTGCAACAC	0.438													26	36	---	---	---	---	PASS	T	82837984	T	T	82837984	3	4	28	1	0	0	0	0	1	0	0	0	17135	991	35	3	9188	3	VCAN	5	82837984	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	37192279	82837984	98077276	141	12104										
KCNN2	3781	broad.mit.edu	37	chr5	113740484	113740484	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tttaatgactatatgcccagGaactgtactcttggttttta	7	7	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:113740484G>T	uc003kqo.2	+	3	1389	c.932G>T	c.(931-933)GGA>GTA	p.G311V		NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	311	Helical; Name=Segment S5; (Potential).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		ATATGCCCAGGAACTGTACTC	0.363													46	52	---	---	---	---	PASS	T	113740484	T	T	113740484	3	4	28	1	0	0	0	0	1	0	0	0	8079	1174	41	2	942	2	KCNN2	5	113740484	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	30902500	113740484	67174776	142	12105										
KDM3B	51780	broad.mit.edu	37	chr5	137726770	137726770	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cctagttcatcgcaacctttGacttttggaagtggaaggag	11	8	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:137726770G>C	uc003lcy.1	+	8	1649	c.1449G>C	c.(1447-1449)TTG>TTC	p.L483F	KDM3B_uc010jew.1_Missense_Mutation_p.L139F|KDM3B_uc011cys.1_Intron	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	483					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						CGCAACCTTTGACTTTTGGAA	0.458													6	45	---	---	---	---	PASS	C	137726770	C	C	137726770	3	2	28	1	0	0	0	0	1	0	0	0	8127	1281	45	2	1479	2	KDM3B	5	137726770	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	23986286	137726770	43188490	143	12106										
PCDHA4	56144	broad.mit.edu	37	chr5	140188233	140188233	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gacgcggacgcgcaggagaaCgcgctggtgtcctactcgct	15	13	0	1	rs139246893		TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:140188233C>T	uc003lhi.2	+	1	1562	c.1461C>T	c.(1459-1461)AAC>AAT	p.N487N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.N487N|PCDHA4_uc011daa.1_Silent_p.N487N	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	487	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCAGGAGAACGCGCTGGTGT	0.657													15	22	---	---	---	---	PASS	T	140188233	T	T	140188233	2	4	28	1	0	0	0	0	0	0	0	1	11526	535	19	1		1	PCDHA4	5	140188233	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	2461463	140188233	40727027	144	12107										
PCDHB14	56122	broad.mit.edu	37	chr5	140604611	140604611	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccatcaacgcggacaatggcCacctgtttgccctcaggtcg	10	15	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:140604611C>A	uc003ljb.2	+	1	1534	c.1534C>A	c.(1534-1536)CAC>AAC	p.H512N	PCDHB14_uc011dal.1_Missense_Mutation_p.H359N	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	512	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGACAATGGCCACCTGTTTGC	0.667													28	42	---	---	---	---	PASS	A	140604611	A	A	140604611	3	1	28	1	0	0	0	0	1	0	0	0	11539	594	21	3	1536	3	PCDHB14	5	140604611	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	416378	140604611	40310649	145	12108										
C5orf46	389336	broad.mit.edu	37	chr5	147281261	147281261	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tctctgtgcccaggaggcttAggaatttggggaagtctggc	15	8	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:147281261A>G	uc010jgp.2	-	2	183	c.146T>C	c.(145-147)CTA>CCA	p.L49P	C5orf46_uc003lou.2_Missense_Mutation_p.L49P|C5orf46_uc003lov.3_Missense_Mutation_p.L49P	NM_206966	NP_996849	Q6UWT4	CE046_HUMAN	hypothetical protein LOC389336 precursor	49						extracellular region					0						CAGGAGGCTTAGGAATTTGGG	0.423													14	29	---	---	---	---	PASS	G	147281261	G	G	147281261	3	3	28	1	0	0	0	0	1	0	0	0	2305	420	15	5	125	5	C5orf46	5	147281261	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	6676650	147281261	33633999	146	12109										
HTR4	3360	broad.mit.edu	37	chr5	147889347	147889347	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tttggtctctgtcctcatgcGatgagtgctatgctggtctg	12	9	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:147889347G>A	uc003lpn.2	-	6	912	c.748C>T	c.(748-750)CGC>TGC	p.R250C	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Missense_Mutation_p.R250C|HTR4_uc003lpj.1_Missense_Mutation_p.R250C|HTR4_uc003lpk.2_Missense_Mutation_p.R250C|HTR4_uc011dby.1_Missense_Mutation_p.R250C|HTR4_uc003lpl.2_Missense_Mutation_p.R264C|HTR4_uc003lpm.2_Missense_Mutation_p.R250C|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Missense_Mutation_p.R250C	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	250	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	GTCCTCATGCGATGAGTGCTA	0.547													7	42	---	---	---	---	PASS	A	147889347	A	A	147889347	3	1	28	1	0	0	0	0	1	0	0	0	7449	1058	37	2	722	2	HTR4	5	147889347	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	608086	147889347	33025913	147	12110										
ARSI	340075	broad.mit.edu	37	chr5	149676932	149676932	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	actggcccagggcccccaagCacccccattaaagtcaggat	9	16	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:149676932C>A	uc003lrv.2	-	2	2144	c.1555G>T	c.(1555-1557)GCT>TCT	p.A519S		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	519						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGCCCCCAAGCACCCCCATTA	0.602													28	70	---	---	---	---	PASS	A	149676932	A	A	149676932	3	1	28	1	0	0	0	0	1	0	0	0	994	710	25	3	158	3	ARSI	5	149676932	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1787585	149676932	31238328	148	12111										
TIMD4	91937	broad.mit.edu	37	chr5	156346549	156346549	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttactatctccaatgtagtcTagcctgtaaacagaaaagag	7	8	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:156346549T>C	uc003lwh.2	-	9	1113	c.1056A>G	c.(1054-1056)CTA>CTG	p.L352L	TIMD4_uc010jii.2_Silent_p.L324L|TIMD4_uc003lwg.2_Silent_p.L54L	NM_138379	NP_612388	Q96H15	TIMD4_HUMAN	T-cell immunoglobulin and mucin domain	352	Cytoplasmic (Potential).					integral to membrane				ovary(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CAATGTAGTCTAGCCTGTAAA	0.408													22	20	---	---	---	---	PASS	C	156346549	C	C	156346549	2	2	28	1	0	0	0	0	0	0	0	1	15900	1509	53	5		5	TIMD4	5	156346549	Silent	SNP	T	TCGA-21-5787-01A-01D-1632-08	6669617	156346549	24568711	149	12112										
TIMD4	91937	broad.mit.edu	37	chr5	156378573	156378573	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gctcgggagtcagaagacctGtggcttcctccggaagggtg	16	10	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:156378573G>A	uc003lwh.2	-	3	686	c.629C>T	c.(628-630)ACA>ATA	p.T210I	TIMD4_uc010jii.2_Missense_Mutation_p.T210I	NM_138379	NP_612388	Q96H15	TIMD4_HUMAN	T-cell immunoglobulin and mucin domain	210	Extracellular (Potential).|Thr-rich.					integral to membrane				ovary(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CAGAAGACCTGTGGCTTCCTC	0.527													7	34	---	---	---	---	PASS	A	156378573	A	A	156378573	3	1	28	1	0	0	0	0	1	0	0	0	15900	1377	48	3	535	3	TIMD4	5	156378573	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	32024	156378573	24536687	150	12113										
HAVCR1	26762	broad.mit.edu	37	chr5	156484938	156484939	+	Frame_Shift_Ins	INS	-	C	C													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	taggatgaggcttaagatgaINSccacttgaggatgcattatg							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:156484938_156484939insC	uc010jij.1	-	2	201_202	c.16_17insG	c.(16-18)GTCfs	p.V6fs	HAVCR1_uc003lwi.2_Frame_Shift_Ins_p.V6fs|HAVCR1_uc011ddm.1_Frame_Shift_Ins_p.V6fs	NM_001099414	NP_001092884	Q96D42	HAVR1_HUMAN	hepatitis A virus cellular receptor 1	6					interspecies interaction between organisms	integral to membrane	receptor activity			ovary(1)|skin(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GCTTAAGATGACCACTTGAGGA	0.515													25	12	---	---	---	---		C	156484939	C	C	156484938	7	5	28	1	0	1	1	0	0	0	0	0	6973	275	10	0	1109	0	HAVCR1	5	156484938	Frame_Shift_Ins	INS	-	TCGA-21-5787-01A-01D-1632-08	106365	156484938	24430322	151	12114										
DOCK2	1794	broad.mit.edu	37	chr5	169188602	169188602	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tacagtctatgaatgagataGtccagagcaacctctttaaa	7	8	2	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:169188602G>T	uc003maf.2	+	25	2607	c.2527G>T	c.(2527-2529)GTC>TTC	p.V843F	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.V335F	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	843					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAATGAGATAGTCCAGAGCAA	0.488													17	74	---	---	---	---	PASS	T	169188602	T	T	169188602	3	4	28	1	0	0	0	0	1	0	0	0	4687	1029	36	3	2625	3	DOCK2	5	169188602	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	12703664	169188602	11726658	152	12115										
LCP2	3937	broad.mit.edu	37	chr5	169697761	169697761	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agttggggaaaggcttggcaGgcaggatggagttctgcaga	18	5	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:169697761G>A	uc003man.1	-	7	692	c.485C>T	c.(484-486)CCT>CTT	p.P162L	LCP2_uc011det.1_5'UTR|LCP2_uc010jjo.1_5'Flank	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	162					immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		AGGCTTGGCAGGCAGGATGGA	0.592													7	30	---	---	---	---	PASS	A	169697761	A	A	169697761	3	1	28	1	0	0	0	0	1	0	0	0	8692	1000	35	3	1176	3	LCP2	5	169697761	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	509159	169697761	11217499	153	12116										
UNC5A	90249	broad.mit.edu	37	chr5	176295812	176295812	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggctccggaacgaggacctgGtggacccgtccctggacccc	14	16	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:176295812G>T	uc003mey.2	+	5	760	c.568G>T	c.(568-570)GTG>TTG	p.V190L	UNC5A_uc003mex.1_Missense_Mutation_p.V190L|UNC5A_uc010jkg.1_Missense_Mutation_p.V150L	NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	190	Ig-like C2-type.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CGAGGACCTGGTGGACCCGTC	0.672													7	46	---	---	---	---	PASS	T	176295812	T	T	176295812	3	4	28	1	0	0	0	0	1	0	0	0	16988	1261	44	3	586	3	UNC5A	5	176295812	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	6598051	176295812	4619448	154	12117										
HK3	3101	broad.mit.edu	37	chr5	176314654	176314654	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gccacggcagtcaccatcgcCactccccggccaccaccatc	7	22	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:176314654C>A	uc003mfa.2	-	11	1490	c.1398G>T	c.(1396-1398)GTG>GTT	p.V466V	HK3_uc003mez.2_Silent_p.V22V	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	466	Regulatory.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCACCATCGCCACTCCCCGGC	0.647													12	21	---	---	---	---	PASS	A	176314654	A	A	176314654	2	1	28	1	0	0	0	0	0	0	0	1	7192	581	21	3		3	HK3	5	176314654	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	18842	176314654	4600606	155	12118										
UIMC1	51720	broad.mit.edu	37	chr5	176334156	176334156	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gttccaagaaactaaggagtCggccttcactgtggcctttt	10	10	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr5:176334156C>A	uc011dfp.1	-	13	2038	c.1871G>T	c.(1870-1872)CGA>CTA	p.R624L	UIMC1_uc003mfc.1_Missense_Mutation_p.R501L|UIMC1_uc003mfd.1_Missense_Mutation_p.R254L	NM_016290	NP_057374	Q96RL1	UIMC1_HUMAN	ubiquitin interaction motif containing 1	624					double-strand break repair|G2/M transition DNA damage checkpoint|histone H2A K63-linked deubiquitination|negative regulation of transcription, DNA-dependent|positive regulation of DNA repair|response to ionizing radiation|transcription, DNA-dependent	BRCA1-A complex	histone binding|K63-linked polyubiquitin binding			ovary(3)|skin(1)	4	all_cancers(89;7.96e-05)|Renal(175;0.000269)|Lung NSC(126;0.00476)|all_lung(126;0.00806)	Medulloblastoma(196;0.0145)|all_neural(177;0.0325)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACTAAGGAGTCGGCCTTCACT	0.468													6	28	---	---	---	---	PASS	A	176334156	A	A	176334156	3	1	28	1	0	0	0	0	1	0	0	0	16968	884	31	2	300	2	UIMC1	5	176334156	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	19502	176334156	4581104	156	12119										
FAM50B	26240	broad.mit.edu	37	chr6	3850460	3850460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acgcggccgaggccaggcgcGccggaaacctgggcaagaac	16	14	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:3850460G>T	uc003mvu.2	+	2	527	c.415G>T	c.(415-417)GCC>TCC	p.A139S		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	139						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				GGCCAGGCGCGCCGGAAACCT	0.612													11	14	---	---	---	---	PASS	T	3850460	T	T	3850460	3	4	28	1	0	0	0	0	1	0	0	0	5578	1087	38	1	417	1	FAM50B	6	3850460	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08		3850460	167264607	157	12120										
C6orf146	222826	broad.mit.edu	37	chr6	4070123	4070123	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aggatgattgattacattaaAgccagtttccactgaagatt	8	6	0	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:4070123A>T	uc003mvx.2	-	7	674	c.334T>A	c.(334-336)TTT>ATT	p.F112I	C6orf146_uc010jnq.1_Intron|C6orf146_uc003mvy.2_Missense_Mutation_p.F49I	NM_173563	NP_775834	Q8IXS0	CF146_HUMAN	hypothetical protein LOC222826	112										ovary(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				ATTACATTAAAGCCAGTTTCC	0.318													14	41	---	---	---	---	PASS	T	4070123	T	T	4070123	3	4	28	1	0	0	0	0	1	0	0	0	2335	72	3	5	1196	5	C6orf146	6	4070123	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	219663	4070123	167044944	158	12121										
HIST1H4K	8362	broad.mit.edu	37	chr6	27799002	27799002	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agaaagggacgctcaaccacCgaaaccgtagagggtgcggc	14	11	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:27799002C>A	uc003njr.2	-	1	304	c.304G>T	c.(304-306)GGT>TGT	p.G102C		NM_003541	NP_003532	P62805	H4_HUMAN	histone cluster 1, H4k	102					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding				0						GCTCAACCACCGAAACCGTAG	0.577													12	32	---	---	---	---	PASS	A	27799002	A	A	27799002	3	1	28	1	0	0	0	0	1	0	0	0	7175	652	23	1	11	1	HIST1H4K	6	27799002	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	23728879	27799002	143316065	159	12122										
HIST1H2AK	8330	broad.mit.edu	37	chr6	27806029	27806029	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgcggagcagtcggtgcactCggcccactgggaactgaaga	15	11	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:27806029C>G	uc003njs.2	-	1	89	c.89G>C	c.(88-90)CGA>CCA	p.R30P	HIST1H2BN_uc003njt.1_5'Flank|HIST1H2BN_uc003nju.1_5'Flank|HIST1H2BN_uc003njv.2_5'Flank	NM_003510	NP_003501	P0C0S8	H2A1_HUMAN	histone cluster 1, H2ak	30					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding			upper_aerodigestive_tract(1)	1						TCGGTGCACTCGGCCCACTGG	0.632													5	40	---	---	---	---	PASS	G	27806029	G	G	27806029	3	3	28	1	0	0	0	0	1	0	0	0	7137	884	31	2	307	2	HIST1H2AK	6	27806029	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	7027	27806029	143309038	160	12123										
CDSN	1041	broad.mit.edu	37	chr6	31084548	31084548	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agaggtgattgggggacaggGcttgcctggaaggccaccat	17	8	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:31084548G>A	uc003nsm.1	-	2	871	c.844C>T	c.(844-846)CCC>TCC	p.P282S	PSORS1C1_uc003nsl.1_Intron|PSORS1C1_uc010jsj.1_Intron	NM_001264	NP_001255	Q15517	CDSN_HUMAN	corneodesmosin precursor	282	Ser-rich.				cell-cell adhesion|keratinocyte differentiation|skin morphogenesis	cornified envelope|desmosome|extracellular region	protein homodimerization activity			ovary(1)|pancreas(1)	2						GGGGGACAGGGCTTGCCTGGA	0.587													15	26	---	---	---	---	PASS	A	31084548	A	A	31084548	3	1	28	1	0	0	0	0	1	0	0	0	3179	1203	42	3	749	3	CDSN	6	31084548	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	3278519	31084548	140030519	161	12124										
UHRF1BP1	54887	broad.mit.edu	37	chr6	34839685	34839685	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgtttttggtgcccacaggaGaggtttttgaacagcaggtg	14	6	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:34839685G>C	uc003oju.3	+	20	4414	c.4180G>C	c.(4180-4182)GAG>CAG	p.E1394Q	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	1394										ovary(3)	3						GCCCACAGGAGAGGTTTTTGA	0.502													5	22	---	---	---	---	PASS	C	34839685	C	C	34839685	3	2	28	1	0	0	0	0	1	0	0	0	16965	943	33	2	4258	2	UHRF1BP1	6	34839685	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	3755137	34839685	136275382	162	12125										
FRS3	10817	broad.mit.edu	37	chr6	41738623	41738623	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gggctcgggccccggccggcGgaaatcaaagttgaagaccc	15	13	1	2	rs142682061		TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:41738623G>A	uc003orc.1	-	7	1457	c.1213C>T	c.(1213-1215)CGC>TGC	p.R405C		NM_006653	NP_006644	O43559	FRS3_HUMAN	fibroblast growth factor receptor substrate 3	405					fibroblast growth factor receptor signaling pathway	plasma membrane	fibroblast growth factor receptor binding|insulin receptor binding			ovary(2)	2	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CCCGGCCGGCGGAAATCAAAG	0.682													10	46	---	---	---	---	PASS	A	41738623	A	A	41738623	3	1	28	1	0	0	0	0	1	0	0	0	6062	1116	39	1	269	1	FRS3	6	41738623	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	6898938	41738623	129376444	163	12126										
HSP90AB1	3326	broad.mit.edu	37	chr6	44218232	44218232	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atcaggaagaactaaacaagAccaagcctatttggaccaga	8	9	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:44218232A>T	uc003oxa.1	+	6	937	c.853A>T	c.(853-855)ACC>TCC	p.T285S	HSP90AB1_uc011dvr.1_Missense_Mutation_p.T275S|HSP90AB1_uc003oxb.1_Missense_Mutation_p.T285S|HSP90AB1_uc011dvs.1_Missense_Mutation_p.T105S|HSP90AB1_uc003oxc.1_5'UTR	NM_007355	NP_031381	P08238	HS90B_HUMAN	heat shock 90kDa protein 1, beta	285					axon guidance|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of nitric oxide biosynthetic process|protein folding|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to unfolded protein	cytosol|melanosome	ATP binding|nitric-oxide synthase regulator activity|TPR domain binding|unfolded protein binding			lung(3)|breast(1)	4	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			ACTAAACAAGACCAAGCCTAT	0.284													14	42	---	---	---	---	PASS	T	44218232	T	T	44218232	3	4	28	1	0	0	0	0	1	0	0	0	7402	275	10	5	871	5	HSP90AB1	6	44218232	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	2479609	44218232	126896835	164	12127										
TDRD6	221400	broad.mit.edu	37	chr6	46661523	46661523	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caagagtgtgtcacaaaaggCgccatggagctatttacact	10	9	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:46661523C>T	uc003oyj.2	+	1	5658	c.5658C>T	c.(5656-5658)GGC>GGT	p.G1886G	TDRD6_uc010jze.2_Silent_p.G1880G	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1886					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			TCACAAAAGGCGCCATGGAGC	0.498													24	31	---	---	---	---	PASS	T	46661523	T	T	46661523	2	4	28	1	0	0	0	0	0	0	0	1	15731	755	27	1		1	TDRD6	6	46661523	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	2443291	46661523	124453544	165	12128										
GPR111	222611	broad.mit.edu	37	chr6	47647862	47647862	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tataaaaataagtgtatataCtggaaagtctgagaccataa	7	4	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:47647862C>A	uc010jzj.1	+	5	528	c.527C>A	c.(526-528)ACT>AAT	p.T176N	GPR111_uc010jzk.1_Missense_Mutation_p.T108N|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	176	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						AGTGTATATACTGGAAAGTCT	0.333													21	38	---	---	---	---	PASS	A	47647862	A	A	47647862	3	1	28	1	0	0	0	0	1	0	0	0	6628	565	20	3	337	3	GPR111	6	47647862	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	986339	47647862	123467205	166	12129										
GPR111	222611	broad.mit.edu	37	chr6	47649302	47649302	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acttcggaaggtgccttcccCttctcaggtcatcagcattg	9	13	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:47649302C>A	uc010jzj.1	+	6	1008	c.1007C>A	c.(1006-1008)CCT>CAT	p.P336H	GPR111_uc010jzk.1_Missense_Mutation_p.P268H|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	336	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						GTGCCTTCCCCTTCTCAGGTC	0.418													38	107	---	---	---	---	PASS	A	47649302	A	A	47649302	3	1	28	1	0	0	0	0	1	0	0	0	6628	681	24	3	821	3	GPR111	6	47649302	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1440	47649302	123465765	167	12130										
CRISP3	10321	broad.mit.edu	37	chr6	49696558	49696558	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tactatagagatcttcgtacTtgcaaccattggctggaata	8	8	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:49696558T>C	uc003ozs.2	-	8	638	c.623A>G	c.(622-624)AAG>AGG	p.K208R		NM_006061	NP_006052	P54108	CRIS3_HUMAN	cysteine-rich secretory protein 3 precursor	208					innate immune response	proteinaceous extracellular matrix|specific granule				skin(2)	2	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			ATCTTCGTACTTGCAACCATT	0.363													21	63	---	---	---	---	PASS	C	49696558	C	C	49696558	3	2	28	1	0	0	0	0	1	0	0	0	3881	1609	56	5	118	5	CRISP3	6	49696558	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	2047256	49696558	121418509	168	12131										
FAM83B	222584	broad.mit.edu	37	chr6	54735284	54735284	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agcacagcacatggtactgaTgattcctgtgatgatacctt	9	9	0	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:54735284T>C	uc003pck.2	+	2	356	c.240T>C	c.(238-240)GAT>GAC	p.D80D		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	80										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					ATGGTACTGATGATTCCTGTG	0.428													57	131	---	---	---	---	PASS	C	54735284	C	C	54735284	2	2	28	1	0	0	0	0	0	0	0	1	5634	1461	51	5		5	FAM83B	6	54735284	Silent	SNP	T	TCGA-21-5787-01A-01D-1632-08	5038726	54735284	116379783	169	12132										
FAM83B	222584	broad.mit.edu	37	chr6	54805042	54805042	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agccatctgatagtctcagtGtggcgtcctcatcacgggaa	11	11	4	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:54805042G>T	uc003pck.2	+	5	1389	c.1273G>T	c.(1273-1275)GTG>TTG	p.V425L		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	425										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					TAGTCTCAGTGTGGCGTCCTC	0.478													23	34	---	---	---	---	PASS	T	54805042	T	T	54805042	3	4	28	1	0	0	0	0	1	0	0	0	5634	1377	48	3	1287	3	FAM83B	6	54805042	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	69758	54805042	116310025	170	12133										
FAM83B	222584	broad.mit.edu	37	chr6	54805695	54805695	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aactatatatataaaaccttGggtgtaaataagcagacaga	7	5	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:54805695G>C	uc003pck.2	+	5	2042	c.1926G>C	c.(1924-1926)TTG>TTC	p.L642F		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	642										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					ATAAAACCTTGGGTGTAAATA	0.358													18	44	---	---	---	---	PASS	C	54805695	C	C	54805695	3	2	28	1	0	0	0	0	1	0	0	0	5634	1339	47	4	1940	4	FAM83B	6	54805695	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	653	54805695	116309372	171	12134										
GFRAL	389400	broad.mit.edu	37	chr6	55198715	55198715	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	attgtactgtgaacaaactgCttggaaaaaaatgtatcaat	7	5	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:55198715C>A	uc003pcm.1	+	3	375	c.289C>A	c.(289-291)CTT>ATT	p.L97I		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	97	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			GAACAAACTGCTTGGAAAAAA	0.294													33	107	---	---	---	---	PASS	A	55198715	A	A	55198715	3	1	28	1	0	0	0	0	1	0	0	0	6351	797	28	3	299	3	GFRAL	6	55198715	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	393020	55198715	115916352	172	12135										
DST	667	broad.mit.edu	37	chr6	56350150	56350150	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcatcaccaaatcaatgtctCcatgaacaggctggtcttct	6	12	6	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:56350150C>A	uc003pdf.2	-	82	14838	c.14810G>T	c.(14809-14811)GGA>GTA	p.G4937V	DST_uc003pcz.3_Missense_Mutation_p.G4759V|DST_uc011dxj.1_Missense_Mutation_p.G4788V|DST_uc011dxk.1_Missense_Mutation_p.G4799V|DST_uc003pcy.3_Missense_Mutation_p.G4433V|DST_uc003pda.3_Missense_Mutation_p.G129V	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6845	Spectrin 19.				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)			ATCAATGTCTCCATGAACAGG	0.393													23	66	---	---	---	---	PASS	A	56350150	A	A	56350150	3	1	28	1	0	0	0	0	1	0	0	0	4783	855	30	2	2281	2	DST	6	56350150	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1151435	56350150	114764917	173	12136										
BAI3	577	broad.mit.edu	37	chr6	69758173	69758173	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggttgactgggcaagaaactCagaagatagggtagtaattc	13	5	1	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:69758173C>G	uc003pev.3	+	14	2652	c.2204C>G	c.(2203-2205)TCA>TGA	p.S735*	BAI3_uc010kak.2_Nonsense_Mutation_p.S735*	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	735	Extracellular (Potential).				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)				GCAAGAAACTCAGAAGATAGG	0.388													17	25	---	---	---	---	PASS	G	69758173	G	G	69758173	4	3	28	1	0	0	0	0	0	1	0	0	1300	838	29	2	2250	2	BAI3	6	69758173	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	13408023	69758173	101356894	174	12137										
COL12A1	1303	broad.mit.edu	37	chr6	75814930	75814930	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caatttccttactgcagggcCtggaggtcctggaggtccaa	12	11	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:75814930C>A	uc003phs.2	-	54	8423	c.8257G>T	c.(8257-8259)GGC>TGC	p.G2753C	COL12A1_uc003pht.2_Missense_Mutation_p.G1589C	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2753	Triple-helical region (COL2) with 1 imperfection.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						ACTGCAGGGCCTGGAGGTCCT	0.388													9	19	---	---	---	---	PASS	A	75814930	A	A	75814930	3	1	28	1	0	0	0	0	1	0	0	0	3669	681	24	3	986	3	COL12A1	6	75814930	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	6056757	75814930	95300137	175	12138										
ME1	4199	broad.mit.edu	37	chr6	84055988	84055988	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gccaatttacccacagggatGcccattccattacagccaag	7	14	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:84055988G>A	uc003pjy.2	-	5	610	c.504C>T	c.(502-504)GGC>GGT	p.G168G	ME1_uc011dzb.1_Silent_p.G93G|ME1_uc011dzc.1_Silent_p.G2G	NM_002395	NP_002386	P48163	MAOX_HUMAN	cytosolic malic enzyme 1	168					carbohydrate metabolic process|cellular lipid metabolic process|malate metabolic process|NADP biosynthetic process|response to carbohydrate stimulus|response to hormone stimulus	cytosol	ADP binding|electron carrier activity|malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|manganese ion binding|NAD binding|NADP binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;1.28e-06)|Acute lymphoblastic leukemia(125;5.03e-07)|all_hematologic(105;0.000238)|all_epithelial(107;0.00218)		BRCA - Breast invasive adenocarcinoma(397;0.0641)	NADH(DB00157)	CCACAGGGATGCCCATTCCAT	0.448													3	43	---	---	---	---	PASS	A	84055988	A	A	84055988	2	1	28	1	0	0	0	0	0	0	0	1	9417	1306	46	3		3	ME1	6	84055988	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	8241058	84055988	87059079	176	12139										
CNR1	1268	broad.mit.edu	37	chr6	88854435	88854435	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cagtttgaacagaaacacgtTgcggctatctttgcggtgga	12	8	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:88854435T>A	uc011dzq.1	-	2	4122	c.559A>T	c.(559-561)AAC>TAC	p.N187Y	CNR1_uc010kbz.2_Missense_Mutation_p.N187Y|CNR1_uc011dzr.1_Missense_Mutation_p.N187Y|CNR1_uc011dzs.1_Missense_Mutation_p.N187Y|CNR1_uc003pmq.3_Missense_Mutation_p.N187Y|CNR1_uc011dzt.1_Missense_Mutation_p.N187Y|CNR1_uc010kca.2_Missense_Mutation_p.N154Y	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	187	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	AGAAACACGTTGCGGCTATCT	0.557													12	12	---	---	---	---	PASS	A	88854435	A	A	88854435	3	1	28	1	0	0	0	0	1	0	0	0	3631	1812	63	5	863	5	CNR1	6	88854435	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	4798447	88854435	82260632	177	12140										
MDN1	23195	broad.mit.edu	37	chr6	90499535	90499535	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tagtcaatatcctccagaagGatccagtggcccattgtggc	10	11	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:90499535G>C	uc003pnn.1	-	7	1310	c.1194C>G	c.(1192-1194)ATC>ATG	p.I398M	MDN1_uc003pnp.1_Missense_Mutation_p.I398M	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	398					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)		CCTCCAGAAGGATCCAGTGGC	0.478													12	31	---	---	---	---	PASS	C	90499535	C	C	90499535	3	2	28	1	0	0	0	0	1	0	0	0	9415	1164	41	2	15980	2	MDN1	6	90499535	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1645100	90499535	80615532	178	12141										
GJA10	84694	broad.mit.edu	37	chr6	90604410	90604410	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atgcattccctatctctttgAtcaggttctgggttttacag	8	9	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:90604410A>T	uc011eaa.1	+	1	223	c.223A>T	c.(223-225)ATC>TTC	p.I75F		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	75	Extracellular (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		TATCTCTTTGATCAGGTTCTG	0.458													19	21	---	---	---	---	PASS	T	90604410	T	T	90604410	3	4	28	1	0	0	0	0	1	0	0	0	6401	333	12	5	225	5	GJA10	6	90604410	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	104875	90604410	80510657	179	12142										
SIM1	6492	broad.mit.edu	37	chr6	100896435	100896435	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgtagcttgatctccgtgacGgcgctgggaggcagcgagtg	17	9	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:100896435G>T	uc003pqj.3	-	6	870	c.663C>A	c.(661-663)GCC>GCA	p.A221A	SIM1_uc010kcu.2_Silent_p.A221A	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	221	PAS 2.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		TCTCCGTGACGGCGCTGGGAG	0.602													9	19	---	---	---	---	PASS	T	100896435	T	T	100896435	2	4	28	1	0	0	0	0	0	0	0	1	14323	1103	39	1		1	SIM1	6	100896435	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	10292025	100896435	70218632	180	12143										
HEY2	23493	broad.mit.edu	37	chr6	126080274	126080274	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cacttttaggctactttgacGcacacgctcttgccatggac	8	13	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:126080274G>C	uc003qad.2	+	5	531	c.340G>C	c.(340-342)GCA>CCA	p.A114P	HEY2_uc011ebr.1_Missense_Mutation_p.A68P	NM_012259	NP_036391	Q9UBP5	HEY2_HUMAN	hairy/enhancer-of-split related with YRPW motif	114	Transcriptional repression and interaction with NCOR1 and SIN3A (By similarity).				negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription initiation from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|Notch signaling pathway|smooth muscle cell differentiation|transcription, DNA-dependent	transcriptional repressor complex	histone deacetylase binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0608)|GBM - Glioblastoma multiforme(226;0.0361)|all cancers(137;0.193)		CTACTTTGACGCACACGCTCT	0.527													15	28	---	---	---	---	PASS	C	126080274	C	C	126080274	3	2	28	1	0	0	0	0	1	0	0	0	7079	1087	38	4	358	4	HEY2	6	126080274	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	25183839	126080274	45034793	181	12144										
C6orf97	80129	broad.mit.edu	37	chr6	151857477	151857477	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cttacgatcatctttcggaaGtcccggtcacgcgggagcag	12	12	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:151857477G>T	uc003qol.2	+	2	171	c.82G>T	c.(82-84)GTC>TTC	p.V28F		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	28											0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		TCTTTCGGAAGTCCCGGTCAC	0.438													25	37	---	---	---	---	PASS	T	151857477	T	T	151857477	3	4	28	1	0	0	0	0	1	0	0	0	2374	1029	36	3	88	3	C6orf97	6	151857477	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	25777203	151857477	19257590	182	12145										
PARK2	5071	broad.mit.edu	37	chr6	162394435	162394435	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gaggtggggtgtgctccacaTttaaagaaaaattcctgaaa	11	6	0	2	rs137853060		TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:162394435T>G	uc003qtx.3	-	6	767	c.633A>C	c.(631-633)AAA>AAC	p.K211N	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_Missense_Mutation_p.K20N|PARK2_uc003qtw.3_Missense_Mutation_p.K20N|PARK2_uc003qty.3_Missense_Mutation_p.K183N|PARK2_uc003qtz.3_Missense_Mutation_p.K62N|PARK2_uc010kke.1_Missense_Mutation_p.K211N	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	211	SYT11 binding 1.		K -> R (in PARK; early onset).|K -> N (in PARK; early and late onset; severely compromises the mitochondrial localization).		aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GTGCTCCACATTTAAAGAAAA	0.413													5	19	---	---	---	---	PASS	G	162394435	G	G	162394435	3	3	28	1	0	0	0	0	1	0	0	0	11449	1490	52	5	792	5	PARK2	6	162394435	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	10536958	162394435	8720632	183	12146										
THBS2	7058	broad.mit.edu	37	chr6	169637402	169637402	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cacaggtcacagagcatgaaGaccaaggtgaccagtggctc	12	11	1	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr6:169637402G>T	uc003qwt.2	-	10	1588	c.1340C>A	c.(1339-1341)TCT>TAT	p.S447Y		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	447	TSP type-1 2.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		AGAGCATGAAGACCAAGGTGA	0.582													10	8	---	---	---	---	PASS	T	169637402	T	T	169637402	3	4	28	1	0	0	0	0	1	0	0	0	15851	942	33	2	2234	2	THBS2	6	169637402	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	7242967	169637402	1477665	184	12147										
CYP2W1	54905	broad.mit.edu	37	chr7	1024653	1024653	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acggtgcgtgccctgcacagCctgggcgtgggccgggagcc	18	14	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:1024653C>A	uc003sjq.1	+	3	418	c.405C>A	c.(403-405)AGC>AGA	p.S135R	CYP2W1_uc003sjr.1_Missense_Mutation_p.S135R	NM_017781	NP_060251	Q8TAV3	CP2W1_HUMAN	cytochrome P450, family 2, subfamily W,	135					xenobiotic metabolic process	endoplasmic reticulum membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		CCCTGCACAGCCTGGGCGTGG	0.662													10	25	---	---	---	---	PASS	A	1024653	A	A	1024653	3	1	28	1	0	0	0	0	1	0	0	0	4176	738	26	3	415	3	CYP2W1	7	1024653	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08		1024653	158114010	185	12148										
BAZ1B	9031	broad.mit.edu	37	chr7	72865210	72865210	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aactttgcacctagcattttCtgcggacatatcccacttga	6	12	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:72865210C>A	uc003tyc.2	-	14	3892	c.3547G>T	c.(3547-3549)GAA>TAA	p.E1183*		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	1183					ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				CTAGCATTTTCTGCGGACATA	0.428													15	70	---	---	---	---	PASS	A	72865210	A	A	72865210	4	1	28	1	0	0	0	0	0	1	0	0	1330	922	32	2	928	2	BAZ1B	7	72865210	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	71840557	72865210	86273453	186	12149										
SEMA3C	10512	broad.mit.edu	37	chr7	80387723	80387723	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtcccgcgccaggcagcagtCagcacaggctgtaccataga	12	14	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:80387723C>T	uc003uhj.2	-	15	2129	c.1567G>A	c.(1567-1569)GAC>AAC	p.D523N	SEMA3C_uc011kgw.1_Missense_Mutation_p.D541N	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	523					immune response|response to drug	membrane	receptor activity			ovary(1)	1						AGGCAGCAGTCAGCACAGGCT	0.517													15	63	---	---	---	---	PASS	T	80387723	T	T	80387723	3	4	28	1	0	0	0	0	1	0	0	0	14026	826	29	2	704	2	SEMA3C	7	80387723	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	7522513	80387723	78750940	187	12150										
ZNF804B	219578	broad.mit.edu	37	chr7	88965180	88965180	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tagaggctccttcgcaagtcCcatgcacaattcaacttgca	7	13	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:88965180C>T	uc011khi.1	+	4	3422	c.2884C>T	c.(2884-2886)CCA>TCA	p.P962S		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	962						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TTCGCAAGTCCCATGCACAAT	0.388										HNSCC(36;0.09)			13	88	---	---	---	---	PASS	T	88965180	T	T	88965180	3	4	28	1	0	0	0	0	1	0	0	0	18168	623	22	3	2898	3	ZNF804B	7	88965180	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	8577457	88965180	70173483	188	12151										
SAMD9	54809	broad.mit.edu	37	chr7	92731247	92731247	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agaataatgttggccaagatGaaatttagcttttcttttga	8	4	1	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:92731247G>A	uc003umf.2	-	3	4420	c.4164C>T	c.(4162-4164)TTC>TTT	p.F1388F	SAMD9_uc003umg.2_Silent_p.F1388F	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1388						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			TGGCCAAGATGAAATTTAGCT	0.358													6	117	---	---	---	---	PASS	A	92731247	A	A	92731247	2	1	28	1	0	0	0	0	0	0	0	1	13826	1281	45	2		2	SAMD9	7	92731247	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	3766067	92731247	66407416	189	12152										
LRRN3	54674	broad.mit.edu	37	chr7	110763333	110763333	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcctacataatcttcttcgaCttcatctcaattcaaataga	3	11	5	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:110763333C>G	uc003vft.3	+	4	1551	c.505C>G	c.(505-507)CTT>GTT	p.L169V	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.L169V|LRRN3_uc003vfs.3_Missense_Mutation_p.L169V	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	169	Extracellular (Potential).|LRR 5.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		TCTTCTTCGACTTCATCTCAA	0.368													25	57	---	---	---	---	PASS	G	110763333	G	G	110763333	3	3	28	1	0	0	0	0	1	0	0	0	9036	565	20	4	507	4	LRRN3	7	110763333	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	18032086	110763333	48375330	190	12153										
DOCK4	9732	broad.mit.edu	37	chr7	111430539	111430539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aaagttgccactccgcctctGctcccagtccatcatatcat	5	16	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:111430539G>T	uc003vfx.2	-	31	3558	c.3289C>A	c.(3289-3291)CAG>AAG	p.Q1097K	DOCK4_uc011kmm.1_5'Flank|DOCK4_uc003vfw.2_Missense_Mutation_p.Q538K|DOCK4_uc003vfy.2_Missense_Mutation_p.Q1133K	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1097	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				CTCCGCCTCTGCTCCCAGTCC	0.488													5	19	---	---	---	---	PASS	T	111430539	T	T	111430539	3	4	28	1	0	0	0	0	1	0	0	0	4689	1328	46	3	2699	3	DOCK4	7	111430539	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	667206	111430539	47708124	191	12154										
MET	4233	broad.mit.edu	37	chr7	116415134	116415134	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtgattgggcccagtagcctGattgtgcatttcaatgaagt	12	7	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:116415134G>C	uc003vij.2	+	15	3415	c.3228G>C	c.(3226-3228)CTG>CTC	p.L1076L	MET_uc010lkh.2_Silent_p.L1094L|MET_uc011knj.1_Silent_p.L646L	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	1076	Cytoplasmic (Potential).				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding	p.Q1029_G1105del(1)		upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			CCAGTAGCCTGATTGTGCATT	0.428			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				5	95	---	---	---	---	PASS	C	116415134	C	C	116415134	2	2	28	1	0	0	0	0	0	0	0	1	9485	1277	45	2		2	MET	7	116415134	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	4984595	116415134	42723529	192	12155										
NAA38	51691	broad.mit.edu	37	chr7	117828398	117828398	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aaagccatgaacgagtattcAgctcttcacagggggtagaa	11	8	3	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:117828398A>T	uc003vjg.2	+	3	331	c.139A>T	c.(139-141)AGC>TGC	p.S47C		NM_016200	NP_057284	O95777	NAA38_HUMAN	U6 snRNA-associated Sm-like protein LSm8	47					nuclear mRNA splicing, via spliceosome	nucleus|ribonucleoprotein complex	protein binding|U6 snRNA binding				0						ACGAGTATTCAGCTCTTCACA	0.338													7	48	---	---	---	---	PASS	T	117828398	T	T	117828398	3	4	28	1	0	0	0	0	1	0	0	0	10124	188	7	5	149	5	NAA38	7	117828398	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	1413264	117828398	41310265	193	12156										
POT1	25913	broad.mit.edu	37	chr7	124493080	124493080	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcaagaccctgattccccgaCcgtaactggtacctccatga	8	15	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:124493080C>A	uc003vlm.2	-	10	1416	c.815G>T	c.(814-816)GGT>GTT	p.G272V	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_Missense_Mutation_p.G141V|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	272	DNA binding.				DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						GATTCCCCGACCGTAACTGGT	0.358													20	23	---	---	---	---	PASS	A	124493080	A	A	124493080	3	1	28	1	0	0	0	0	1	0	0	0	12260	507	18	3	1129	3	POT1	7	124493080	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	6664682	124493080	34645583	194	12157										
OPN1SW	611	broad.mit.edu	37	chr7	128415662	128415662	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggctgccgcaactttttgtaGcgcagtgtggccaccagcac	12	13	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:128415662G>T	uc003vnt.3	-	1	183	c.183C>A	c.(181-183)CGC>CGA	p.R61R		NM_001708	NP_001699	P03999	OPSB_HUMAN	opsin 1 (cone pigments), short-wave-sensitive	61	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0						ACTTTTTGTAGCGCAGTGTGG	0.557													11	59	---	---	---	---	PASS	T	128415662	T	T	128415662	2	4	28	1	0	0	0	0	0	0	0	1	10880	958	34	3		3	OPN1SW	7	128415662	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	3922582	128415662	30723001	195	12158										
FLNC	2318	broad.mit.edu	37	chr7	128492756	128492756	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cgccagcatccgtgccccctCgggcaacgaggagccctgcc	12	19	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:128492756C>T	uc003vnz.3	+	36	6163	c.5954C>T	c.(5953-5955)TCG>TTG	p.S1985L	FLNC_uc003voa.3_Missense_Mutation_p.S1952L	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1985	Filamin 18.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CGTGCCCCCTCGGGCAACGAG	0.657													26	44	---	---	---	---	PASS	T	128492756	T	T	128492756	3	4	28	1	0	0	0	0	1	0	0	0	5935	893	31	2	6096	2	FLNC	7	128492756	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	77094	128492756	30645907	196	12159										
KLHDC10	23008	broad.mit.edu	37	chr7	129736794	129736794	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acgatgggacccagttaggaGgcgcttcattcagtcctgtc	12	11	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:129736794G>T	uc003vpj.1	+	2	335	c.200G>T	c.(199-201)AGG>ATG	p.R67M	KLHDC10_uc003vpk.1_Intron|KLHDC10_uc010lmb.1_Intron	NM_014997	NP_055812	Q6PID8	KLD10_HUMAN	kelch domain containing 10	67											0						CCAGTTAGGAGGCGCTTCATT	0.413													23	15	---	---	---	---	PASS	T	129736794	T	T	129736794	3	4	28	1	0	0	0	0	1	0	0	0	8355	1000	35	3	206	3	KLHDC10	7	129736794	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1244038	129736794	29401869	197	12160										
PTN	5764	broad.mit.edu	37	chr7	136938369	136938369	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gccattctccacagtcagacTtcttcacttttttttctgaa	4	12	5	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:136938369T>G	uc003vtq.2	-	3	494	c.131A>C	c.(130-132)AAG>ACG	p.K44T	PTN_uc010lmx.2_Missense_Mutation_p.K44T|PTN_uc003vtr.1_Missense_Mutation_p.K44T	NM_002825	NP_002816	P21246	PTN_HUMAN	pleiotrophin	44					nervous system development|positive regulation of cell division|positive regulation of cell proliferation|transmembrane receptor protein tyrosine phosphatase signaling pathway	endoplasmic reticulum|extracellular space	growth factor activity|heparin binding|protein phosphatase inhibitor activity			upper_aerodigestive_tract(1)|pancreas(1)	2						ACAGTCAGACTTCTTCACTTT	0.453													8	18	---	---	---	---	PASS	G	136938369	G	G	136938369	3	3	28	1	0	0	0	0	1	0	0	0	12768	1609	56	5	387	5	PTN	7	136938369	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	7201575	136938369	22200294	198	12161										
KIAA1549	57670	broad.mit.edu	37	chr7	138546004	138546004	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gggtgggactccggggcctaCacctgcggtgctggcaggct	18	12	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:138546004C>T	uc011kql.1	-	16	5177	c.5128G>A	c.(5128-5130)GTA>ATA	p.V1710I	KIAA1549_uc011kqi.1_Missense_Mutation_p.V494I|KIAA1549_uc003vuk.3_Missense_Mutation_p.V1660I|KIAA1549_uc011kqj.1_Missense_Mutation_p.V1710I|KIAA1549_uc011kqk.1_Missense_Mutation_p.V494I	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1710						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						CCGGGGCCTACACCTGCGGTG	0.697			O	BRAF	pilocytic astrocytoma								15	35	---	---	---	---	PASS	T	138546004	T	T	138546004	3	4	28	1	0	0	0	0	1	0	0	0	8244	478	17	3	744	3	KIAA1549	7	138546004	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1607635	138546004	20592659	199	12162										
BRAF	673	broad.mit.edu	37	chr7	140481403	140481403	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctttcccttgtagactgttcCaaatgatccagatccaattc	5	12	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:140481403C>T	uc003vwc.3	-	11	1466	c.1405G>A	c.(1405-1407)GGA>AGA	p.G469R		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	469	ATP (By similarity).|Protein kinase.		G -> A (in NHL; also in a lung adenocarcinoma sample; somatic mutation; elevated kinase activity; efficiently induces cell transformation).|G -> E (in CFC syndrome and colon cancer).|G -> R (in NHL).|G -> V (in a colorectal adenocarcinoma sample; somatic mutation).		activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.G469A(19)|p.G469V(12)|p.G469S(6)|p.G469R(6)|p.G469E(5)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TAGACTGTTCCAAATGATCCA	0.373		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				14	82	---	---	---	---	PASS	T	140481403	T	T	140481403	3	4	28	1	0	0	0	0	1	0	0	0	1496	603	21	3	927	3	BRAF	7	140481403	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1935399	140481403	18657260	200	12163										
MGAM	8972	broad.mit.edu	37	chr7	141754598	141754598	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tatgaagttccagtccctctGaacatacccagcatgccatc	6	14	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:141754598G>C	uc003vwy.2	+	27	3258	c.3204G>C	c.(3202-3204)CTG>CTC	p.L1068L		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1068	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	CAGTCCCTCTGAACATACCCA	0.438													25	105	---	---	---	---	PASS	C	141754598	C	C	141754598	2	2	28	1	0	0	0	0	0	0	0	1	9541	1277	45	2		2	MGAM	7	141754598	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	1273195	141754598	17384065	201	12164										
CNTNAP2	26047	broad.mit.edu	37	chr7	146536824	146536824	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgctgggggatggtctccatCagacagcgaccattatcaat	11	10	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:146536824C>G	uc003weu.1	+	3	746	c.230C>G	c.(229-231)TCA>TGA	p.S77*		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	77	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TGGTCTCCATCAGACAGCGAC	0.443										HNSCC(39;0.1)			3	63	---	---	---	---	PASS	G	146536824	G	G	146536824	4	3	28	1	0	0	0	0	0	1	0	0	3647	838	29	2	240	2	CNTNAP2	7	146536824	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	4782226	146536824	12601839	202	12165										
ASB10	136371	broad.mit.edu	37	chr7	150873367	150873367	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	accaaggcgaagagggaggaGtagaaacgctgatgtttctg	15	6	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:150873367G>A	uc003wjm.1	-	5	1497	c.1371C>T	c.(1369-1371)TAC>TAT	p.Y457Y	ASB10_uc003wjl.1_Silent_p.Y419Y|ASB10_uc003wjn.1_Silent_p.Y397Y	NM_001142459	NP_001135931	Q8WXI3	ASB10_HUMAN	ankyrin repeat and SOCS box-containing 10	412	SOCS box.				intracellular signal transduction						0			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGAGGGAGGAGTAGAAACGCT	0.647													6	19	---	---	---	---	PASS	A	150873367	A	A	150873367	2	1	28	1	0	0	0	0	0	0	0	1	1014	1024	36	3		3	ASB10	7	150873367	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	4336543	150873367	8265296	203	12166										
ESYT2	57488	broad.mit.edu	37	chr7	158590750	158590750	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ataaattggcaaatgaaaggCcacatgtgttttacagtctg	9	6	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr7:158590750C>A	uc003wob.1	-	3	600	c.534G>T	c.(532-534)TGG>TGT	p.W178C	ESYT2_uc003woc.1_Missense_Mutation_p.W2C|ESYT2_uc003wod.1_Missense_Mutation_p.W178C	NM_020728	NP_065779	A0FGR8	ESYT2_HUMAN	family with sequence similarity 62 (C2 domain	206						integral to membrane|plasma membrane				central_nervous_system(2)|kidney(1)	3						AAATGAAAGGCCACATGTGTT	0.428													9	25	---	---	---	---	PASS	A	158590750	A	A	158590750	3	1	28	1	0	0	0	0	1	0	0	0	5265	740	26	3	2227	3	ESYT2	7	158590750	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	7717383	158590750	547913	204	12167										
NRG1	3084	broad.mit.edu	37	chr8	32621848	32621848	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aggactaacccagcaggccgCttctcgacacaggaagaaat	10	12	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:32621848C>A	uc003xiv.2	+	12	2368	c.1851C>A	c.(1849-1851)CGC>CGA	p.R617R	NRG1_uc010lvo.2_3'UTR|NRG1_uc003xiu.2_Silent_p.R622R|NRG1_uc003xiw.2_Silent_p.R614R|NRG1_uc003xit.2_3'UTR|NRG1_uc010lvr.2_Silent_p.R359R|NRG1_uc010lvs.2_Silent_p.R359R|NRG1_uc010lvp.2_Silent_p.R571R|NRG1_uc010lvq.2_Silent_p.R554R|NRG1_uc011lbg.1_3'UTR|NRG1_uc011lbh.1_Silent_p.R460R|NRG1_uc003xja.2_Silent_p.R428R	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	617	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		CAGCAGGCCGCTTCTCGACAC	0.512													5	20	---	---	---	---	PASS	A	32621848	A	A	32621848	2	1	28	1	0	0	0	0	0	0	0	1	10647	784	28	3		3	NRG1	8	32621848	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08		32621848	113742174	205	12168										
CHRNA6	8973	broad.mit.edu	37	chr8	42623538	42623538	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cacagccagagacacaagccCccatgaaggaatccctgccc	8	17	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:42623538C>A	uc003xpj.2	-	1	82	c.36G>T	c.(34-36)GGG>GGT	p.G12G	CHRNA6_uc011lcw.1_Silent_p.G12G	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	12						cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GACACAAGCCCCCATGAAGGA	0.423													15	19	---	---	---	---	PASS	A	42623538	A	A	42623538	2	1	28	1	0	0	0	0	0	0	0	1	3387	610	22	3		3	CHRNA6	8	42623538	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	10001690	42623538	103740484	206	12169										
POTEA	340441	broad.mit.edu	37	chr8	43155726	43155726	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cgaatggtgaaatttttaatCaagaaaaaagctaatttaaa	6	3	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:43155726C>A	uc003xpz.1	+	4	697	c.654C>A	c.(652-654)ATC>ATA	p.I218I	POTEA_uc003xqa.1_Silent_p.I218I	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	218	ANK 4.									ovary(1)	1						AATTTTTAATCAAGAAAAAAG	0.333													4	37	---	---	---	---	PASS	A	43155726	A	A	43155726	2	1	28	1	0	0	0	0	0	0	0	1	12261	816	29	2		2	POTEA	8	43155726	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	532188	43155726	103208296	207	12170										
UBE2V2	7336	broad.mit.edu	37	chr8	48955617	48955617	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	taaagttcctcgtaattttcGcttgttggaagaacttgaag	9	6	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:48955617G>T	uc003xqm.2	+	2	62	c.41G>T	c.(40-42)CGC>CTC	p.R14L		NM_003350	NP_003341	Q15819	UB2V2_HUMAN	ubiquitin-conjugating enzyme E2v2	14					cell proliferation|DNA double-strand break processing|protein polyubiquitination|regulation of DNA repair	cytoplasm|nucleus|UBC13-MMS2 complex	acid-amino acid ligase activity|protein binding				0		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00171)|all_lung(136;0.00196)				CGTAATTTTCGCTTGTTGGAA	0.373								Direct_reversal_of_damage|Rad6_pathway					18	49	---	---	---	---	PASS	T	48955617	T	T	48955617	3	4	28	1	0	0	0	0	1	0	0	0	16873	1087	38	1	47	1	UBE2V2	8	48955617	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	5799891	48955617	97408405	208	12171										
SNAI2	6591	broad.mit.edu	37	chr8	49832788	49832788	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gctttctgagccactgtggtCcttggaggaggtgtcagatg	15	8	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:49832788C>A	uc003xqp.2	-	2	456	c.292G>T	c.(292-294)GAC>TAC	p.D98Y		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	98					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				CCACTGTGGTCCTTGGAGGAG	0.527													47	116	---	---	---	---	PASS	A	49832788	A	A	49832788	3	1	28	1	0	0	0	0	1	0	0	0	14827	855	30	2	522	2	SNAI2	8	49832788	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	877171	49832788	96531234	209	12172										
PXDNL	137902	broad.mit.edu	37	chr8	52322064	52322064	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcctgcgagctgtgcatccaGataaattggcgatgaggctg	14	9	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:52322064G>T	uc003xqu.3	-	17	2221	c.2120C>A	c.(2119-2121)TCT>TAT	p.S707Y	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	707					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TGTGCATCCAGATAAATTGGC	0.617													14	23	---	---	---	---	PASS	T	52322064	T	T	52322064	3	4	28	1	0	0	0	0	1	0	0	0	12848	942	33	2	2299	2	PXDNL	8	52322064	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	2489276	52322064	94041958	210	12173										
IL7	3574	broad.mit.edu	37	chr8	79650857	79650857	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acttgcgagcagcacggaatAaaaacataccttcctattat	6	10	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:79650857A>T	uc003ybg.2	-	4	843	c.242T>A	c.(241-243)TTA>TAA	p.L81*	IL7_uc003ybe.2_Intron|IL7_uc011lfm.1_Intron|IL7_uc003ybh.2_RNA|IL7_uc003ybi.3_RNA	NM_000880	NP_000871	P13232	IL7_HUMAN	interleukin 7 precursor	81					bone resorption|cell-cell signaling|humoral immune response|organ morphogenesis|positive regulation of B cell proliferation|positive regulation of T cell differentiation	extracellular space	cytokine activity|growth factor activity|interleukin-7 receptor binding				0						AGCACGGAATAAAAACATACC	0.353													12	55	---	---	---	---	PASS	T	79650857	T	T	79650857	4	4	28	1	0	0	0	0	0	1	0	0	7704	372	13	5	303	5	IL7	8	79650857	Nonsense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	27328793	79650857	66713165	211	12174										
STMN2	11075	broad.mit.edu	37	chr8	80577099	80577099	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caaggaactccaggttgaacTgtctggctgaagcaagggag	14	8	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:80577099T>A	uc003ybj.2	+	5	581	c.530T>A	c.(529-531)CTG>CAG	p.L177Q	STMN2_uc010lzp.2_RNA|STMN2_uc011lfn.1_Intron|STMN2_uc003ybk.2_RNA	NM_007029	NP_008960	Q93045	STMN2_HUMAN	superiorcervical ganglia, neural specific 10	177	Potential.				intracellular signal transduction|negative regulation of microtubule depolymerization|negative regulation of microtubule polymerization|negative regulation of neuron projection development|neuron differentiation|positive regulation of microtubule depolymerization|positive regulation of neuron projection development	axon|growth cone|membrane|membrane fraction|perinuclear region of cytoplasm|soluble fraction	protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(9;8.34e-05)		Epithelial(68;0.0229)|all cancers(69;0.0874)			CAGGTTGAACTGTCTGGCTGA	0.493													8	16	---	---	---	---	PASS	A	80577099	A	A	80577099	3	1	28	1	0	0	0	0	1	0	0	0	15308	1580	55	5	548	5	STMN2	8	80577099	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	926242	80577099	65786923	212	12175										
FABP12	646486	broad.mit.edu	37	chr8	82441723	82441723	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctcaaactcttctcccagctTaaaggagatctcattatttt	4	11	4	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:82441723T>A	uc011lfp.1	-	2	196	c.196A>T	c.(196-198)AAG>TAG	p.K66*	FABP12_uc003ycg.3_RNA	NM_001105281	NP_001098751	A6NFH5	FBP12_HUMAN	fatty acid binding protein 12	66							lipid binding|transporter activity				0						TCTCCCAGCTTAAAGGAGATC	0.423													23	136	---	---	---	---	PASS	A	82441723	A	A	82441723	4	1	28	1	0	0	0	0	0	1	0	0	5356	1763	61	5	236	5	FABP12	8	82441723	Nonsense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	1864624	82441723	63922299	213	12176										
OSR2	116039	broad.mit.edu	37	chr8	99962918	99962918	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aagaaaaacccttcaaatgtCaggagtgtgggaaaggattt	11	5	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:99962918C>A	uc003yir.2	+	3	1226	c.691C>A	c.(691-693)CAG>AAG	p.Q231K	OSR2_uc010mbn.2_Missense_Mutation_p.Q231K|OSR2_uc003yiq.2_Missense_Mutation_p.Q231K|OSR2_uc011lgx.1_Missense_Mutation_p.Q352K	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	231	C2H2-type 3.				bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding			central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			CTTCAAATGTCAGGAGTGTGG	0.358													7	18	---	---	---	---	PASS	A	99962918	A	A	99962918	3	1	28	1	0	0	0	0	1	0	0	0	11294	827	29	2	697	2	OSR2	8	99962918	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	17521195	99962918	46401104	214	12177										
OSR2	116039	broad.mit.edu	37	chr8	99963890	99963890	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aggcgaaactgtgatctgcgGcggcacagcctgactcacac	12	13	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:99963890G>C	uc003yir.2	+	4	1435	c.900G>C	c.(898-900)CGG>CGC	p.R300R	OSR2_uc003yiq.2_Missense_Mutation_p.G273A|OSR2_uc011lgx.1_Silent_p.R421R	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	300	C2H2-type 5; degenerate.				bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding			central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			GTGATCTGCGGCGGCACAGCC	0.587													5	12	---	---	---	---	PASS	C	99963890	C	C	99963890	2	2	28	1	0	0	0	0	0	0	0	1	11294	1203	42	4		4	OSR2	8	99963890	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	972	99963890	46400132	215	12178										
ZFPM2	23414	broad.mit.edu	37	chr8	106811149	106811149	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcttttcaaatgctcgagctCtagaaatgcacctgaattca	7	10	3	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:106811149C>A	uc003ymd.2	+	7	960	c.937C>A	c.(937-939)CTA>ATA	p.L313I	ZFPM2_uc011lhs.1_Missense_Mutation_p.L44I|uc003yme.1_5'Flank	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	313	C2H2-type 1.				blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			TGCTCGAGCTCTAGAAATGCA	0.438													41	111	---	---	---	---	PASS	A	106811149	A	A	106811149	3	1	28	1	0	0	0	0	1	0	0	0	17655	912	32	2	963	2	ZFPM2	8	106811149	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	6847259	106811149	39552873	216	12179										
ZFPM2	23414	broad.mit.edu	37	chr8	106814663	106814663	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aagggctaggagagtgctacCacccaagatgtgatatcttt	11	8	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:106814663C>A	uc003ymd.2	+	8	2376	c.2353C>A	c.(2353-2355)CAC>AAC	p.H785N	ZFPM2_uc011lhs.1_Missense_Mutation_p.H516N	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	785					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AGAGTGCTACCACCCAAGATG	0.448													7	35	---	---	---	---	PASS	A	106814663	A	A	106814663	3	1	28	1	0	0	0	0	1	0	0	0	17655	594	21	3	2383	3	ZFPM2	8	106814663	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3514	106814663	39549359	217	12180										
CSMD3	114788	broad.mit.edu	37	chr8	113697955	113697955	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtgcagtaaagttagacaggCagggaactggtgaaacagga	15	5	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:113697955C>T	uc003ynu.2	-	15	2321	c.2162G>A	c.(2161-2163)TGC>TAC	p.C721Y	CSMD3_uc003yns.2_5'UTR|CSMD3_uc003ynt.2_Missense_Mutation_p.C681Y|CSMD3_uc011lhx.1_Missense_Mutation_p.C617Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	721	Extracellular (Potential).|CUB 4.					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						GTTAGACAGGCAGGGAACTGG	0.313										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			19	62	---	---	---	---	PASS	T	113697955	T	T	113697955	3	4	28	1	0	0	0	0	1	0	0	0	3946	710	25	3	9189	3	CSMD3	8	113697955	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	6883292	113697955	32666067	218	12181										
MTSS1	9788	broad.mit.edu	37	chr8	125565595	125565595	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctccccccgctcttctggccCatctggaggggctggcaaca	11	17	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:125565595C>T	uc003yrk.2	-	14	2440	c.1906G>A	c.(1906-1908)GGG>AGG	p.G636R	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_Missense_Mutation_p.G285R|MTSS1_uc011lin.1_Missense_Mutation_p.G410R|MTSS1_uc011lio.1_Missense_Mutation_p.G526R|MTSS1_uc003yri.2_Missense_Mutation_p.G354R|MTSS1_uc003yrj.2_Missense_Mutation_p.G611R|MTSS1_uc003yrl.2_Missense_Mutation_p.G640R	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	636	Pro-rich.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			TCTTCTGGCCCATCTGGAGGG	0.642													10	37	---	---	---	---	PASS	T	125565595	T	T	125565595	3	4	28	1	0	0	0	0	1	0	0	0	9962	594	21	3	365	3	MTSS1	8	125565595	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	11867640	125565595	20798427	219	12182										
COL22A1	169044	broad.mit.edu	37	chr8	139611078	139611078	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcctttgtggcctgggattcCagggtccccaggctggcctt	14	13	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:139611078C>A	uc003yvd.2	-	61	4696	c.4249G>T	c.(4249-4251)GGA>TGA	p.G1417*	COL22A1_uc011ljo.1_Nonsense_Mutation_p.G697*	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1417	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)			CCTGGGATTCCAGGGTCCCCA	0.602										HNSCC(7;0.00092)			16	44	---	---	---	---	PASS	A	139611078	A	A	139611078	4	1	28	1	0	0	0	0	0	1	0	0	3681	603	21	3	651	3	COL22A1	8	139611078	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	14045483	139611078	6752944	220	12183										
SLC45A4	57210	broad.mit.edu	37	chr8	142231724	142231724	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aacgccaaagaggacgccaaCgcagagggcgaggatgaagg	16	9	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:142231724C>A	uc003ywd.1	-	2	537	c.229G>T	c.(229-231)GTT>TTT	p.V77F	SLC45A4_uc003ywc.1_Missense_Mutation_p.V77F|SLC45A4_uc010meq.1_Missense_Mutation_p.V75F	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	128	Helical; (Potential).				transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|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;0.0493)			AGGACGCCAACGCAGAGGGCG	0.622													15	53	---	---	---	---	PASS	A	142231724	A	A	142231724	3	1	28	1	0	0	0	0	1	0	0	0	14643	536	19	1	2195	1	SLC45A4	8	142231724	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	2620646	142231724	4132298	221	12184										
CYP11B1	1584	broad.mit.edu	37	chr8	143960541	143960541	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gatgcaggctgtccacctgtTgcagcttctccacgtcctcc	9	16	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:143960541T>G	uc003yxi.2	-	2	309	c.302A>C	c.(301-303)CAA>CCA	p.Q101P	CYP11B1_uc003yxh.2_5'Flank|CYP11B1_uc003yxj.2_Missense_Mutation_p.Q101P|CYP11B1_uc010mey.2_Missense_Mutation_p.Q146P	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	101					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	GTCCACCTGTTGCAGCTTCTC	0.612									Familial_Hyperaldosteronism_type_I				26	33	---	---	---	---	PASS	G	143960541	G	G	143960541	3	3	28	1	0	0	0	0	1	0	0	0	4145	1812	63	5	1241	5	CYP11B1	8	143960541	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	1728817	143960541	2403481	222	12185										
EXOSC4	54512	broad.mit.edu	37	chr8	145135440	145135440	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccaggctgcccgagatgtgcAcaccctcttagatcgagtgg	12	13	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:145135440A>T	uc003zau.2	+	3	784	c.674A>T	c.(673-675)CAC>CTC	p.H225L	GPAA1_uc003zav.1_5'Flank|GPAA1_uc003zaw.1_5'Flank|GPAA1_uc003zax.2_5'Flank	NM_019037	NP_061910	Q9NPD3	EXOS4_HUMAN	exosome component 4	225					DNA deamination|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear mRNA surveillance|positive regulation of cell growth	cytosol|exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5'-exoribonuclease activity|AU-rich element binding|protein binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;3.48e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CGAGATGTGCACACCCTCTTA	0.617													33	40	---	---	---	---	PASS	T	145135440	T	T	145135440	3	4	28	1	0	0	0	0	1	0	0	0	5317	159	6	5	684	5	EXOSC4	8	145135440	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	1174899	145135440	1228582	223	12186										
FOXH1	8928	broad.mit.edu	37	chr8	145699739	145699739	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccccttggaagagggcgtctAgatcgcagagcagccctggg	15	12	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr8:145699739A>G	uc003zdc.2	-	3	1559	c.980T>C	c.(979-981)CTA>CCA	p.L327P		NM_003923	NP_003914	O75593	FOXH1_HUMAN	forkhead box H1	327	SMAD-interaction domain (SID).|SMAD interaction motif (SIM).				axial mesoderm development|blood vessel development|cell migration involved in gastrulation|embryonic heart tube anterior/posterior pattern formation|floor plate formation|heart looping|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|specification of organ position|transforming growth factor beta receptor signaling pathway	activin responsive factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|R-SMAD binding|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 factor binding				0	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.76e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			GAGGGCGTCTAGATCGCAGAG	0.677													11	40	---	---	---	---	PASS	G	145699739	G	G	145699739	3	3	28	1	0	0	0	0	1	0	0	0	6008	420	15	5	121	5	FOXH1	8	145699739	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	564299	145699739	664283	224	12187										
KIAA2026	158358	broad.mit.edu	37	chr9	5968861	5968861	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cataaccaagaataacttccCtgcattcatggataggctgt	7	10	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:5968861C>A	uc003zjq.3	-	3	1586	c.1370G>T	c.(1369-1371)AGG>ATG	p.R457M		NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	457								p.V457F(1)		ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		AATAACTTCCCTGCATTCATG	0.388													19	10	---	---	---	---	PASS	A	5968861	A	A	5968861	3	1	28	1	0	0	0	0	1	0	0	0	8270	681	24	3	4965	3	KIAA2026	9	5968861	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08		5968861	135244570	225	12188										
HAUS6	54801	broad.mit.edu	37	chr9	19089422	19089422	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctacttactgtgcattttccTgatatttttgggtaacacaa	6	8	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:19089422T>C	uc003znk.2	-	5	825	c.572A>G	c.(571-573)CAG>CGG	p.Q191R	HAUS6_uc003znl.1_Missense_Mutation_p.Q55R	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	191	Potential.				cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						TGCATTTTCCTGATATTTTTG	0.348													3	37	---	---	---	---	PASS	C	19089422	C	C	19089422	3	2	28	1	0	0	0	0	1	0	0	0	6970	1580	55	5	2347	5	HAUS6	9	19089422	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	13120561	19089422	122124009	226	12189										
CDKN2A	1029	broad.mit.edu	37	chr9	21994138	21994138	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttttcgagggcctttcctacCtggtcttctaggaagcggct	11	11	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:21994138C>A	uc003zpl.2	-	1	353	c.316G>T	c.(316-318)GGT>TGT	p.G106C	MTAP_uc003zpi.1_Intron|CDKN2BAS_uc010miw.1_5'Flank|CDKN2BAS_uc010mix.1_5'Flank|CDKN2BAS_uc003zpm.2_5'Flank	NM_058195	NP_478102	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 4	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(197)|p.V106V(2)|p.V106M(2)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCTTTCCTACCTGGTCTTCTA	0.602		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			7	10	---	---	---	---	PASS	A	21994138	A	A	21994138	3	1	28	1	0	0	0	0	1	0	0	0	3161	695	24	3	687	3	CDKN2A	9	21994138	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	2904716	21994138	119219293	227	12190										
DMRTA1	63951	broad.mit.edu	37	chr9	22451417	22451417	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	taagattttcccaaattacaGgcgcagccggctagaaggca	10	10	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:22451417G>T	uc003zpp.1	+	2	1247	c.1022G>T	c.(1021-1023)AGG>ATG	p.R341M		NM_022160	NP_071443	Q5VZB9	DMRTA_HUMAN	DMRT-like family A1	341					cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|skin(1)	2		all_cancers(5;4.09e-243)|Acute lymphoblastic leukemia(3;8.25e-150)|all_hematologic(3;4.25e-147)|Esophageal squamous(3;2.32e-09)|Renal(3;1.71e-07)|Breast(3;2.07e-06)|Hepatocellular(5;0.00563)		GBM - Glioblastoma multiforme(1;5.12e-278)|Lung(24;8.2e-52)|LUSC - Lung squamous cell carcinoma(38;1.46e-37)|OV - Ovarian serous cystadenocarcinoma(39;0.0517)		CCAAATTACAGGCGCAGCCGG	0.483													19	19	---	---	---	---	PASS	T	22451417	T	T	22451417	3	4	28	1	0	0	0	0	1	0	0	0	4588	1000	35	3	1028	3	DMRTA1	9	22451417	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	457279	22451417	118762014	228	12191										
ELAVL2	1993	broad.mit.edu	37	chr9	23692818	23692818	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aaatatacaccaccctgttcCagggtgcccagggatattaa	8	11	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:23692818C>T	uc003zpu.2	-	7	1092	c.817G>A	c.(817-819)GGA>AGA	p.G273R	ELAVL2_uc003zps.2_Missense_Mutation_p.G260R|ELAVL2_uc003zpt.2_Missense_Mutation_p.G260R|ELAVL2_uc003zpv.2_Missense_Mutation_p.G273R|ELAVL2_uc003zpw.2_Missense_Mutation_p.G260R	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	273					regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		CACCCTGTTCCAGGGTGCCCA	0.458													25	28	---	---	---	---	PASS	T	23692818	T	T	23692818	3	4	28	1	0	0	0	0	1	0	0	0	5050	603	21	3	266	3	ELAVL2	9	23692818	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1241401	23692818	117520613	229	12192										
B4GALT1	2683	broad.mit.edu	37	chr9	33166879	33166879	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gactgggctggagtcgccacCcgggcgcggctgggaggagg	21	11	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:33166879C>A	uc003zsg.2	-	1	478	c.289G>T	c.(289-291)GGT>TGT	p.G97C		NM_001497	NP_001488	P15291	B4GT1_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	97	Lumenal (Potential).			SSQPRPGGDSSPVVDSGPGPASNLT -> GKHAKSSFKQFL LQIKELSNPIDLD (in Ref. 6; AAA68219).	oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	basolateral plasma membrane|brush border membrane|desmosome|external side of plasma membrane|extracellular region|glycocalyx|Golgi cisterna membrane|Golgi trans cisterna|integral to membrane	alpha-tubulin binding|beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|beta-tubulin binding|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity|protein binding|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(29;0.0084)	GBM - Glioblastoma multiforme(74;0.121)	N-Acetyl-D-glucosamine(DB00141)	GAGTCGCCACCCGGGCGCGGC	0.741													3	4	---	---	---	---	PASS	A	33166879	A	A	33166879	3	1	28	1	0	0	0	0	1	0	0	0	1270	623	22	3	931	3	B4GALT1	9	33166879	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	9474061	33166879	108046552	230	12193										
C9orf89	84270	broad.mit.edu	37	chr9	95872957	95872957	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttctaccgagccctgtatatCcatgcccagcccctgcacag	7	17	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:95872957C>T	uc004atd.2	+	3	436	c.258C>T	c.(256-258)ATC>ATT	p.I86I	C9orf89_uc004ate.2_RNA|C9orf89_uc004atf.2_RNA	NM_032310	NP_115686	Q96LW7	BINCA_HUMAN	chromosome 9 open reading frame 89	86	CARD.				negative regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|nucleus	CARD domain binding				0						CCCTGTATATCCAtgcccagc	0.517													8	33	---	---	---	---	PASS	T	95872957	T	T	95872957	2	4	28	1	0	0	0	0	0	0	0	1	2503	845	30	2		2	C9orf89	9	95872957	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	62706078	95872957	45340474	231	12194										
ZNF462	58499	broad.mit.edu	37	chr9	109773256	109773256	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gaatgaaacagtagccatctGtgtagtaactgccgacaaat	9	8	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:109773256G>T	uc004bcz.2	+	13	7755	c.7466G>T	c.(7465-7467)TGT>TTT	p.C2489F	ZNF462_uc010mto.2_Missense_Mutation_p.C2398F|ZNF462_uc004bda.2_Missense_Mutation_p.C2397F|ZNF462_uc011lvz.1_Missense_Mutation_p.C446F|uc004bdc.1_Intron	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	2489					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						GTAGCCATCTGTGTAGTAACT	0.413													13	27	---	---	---	---	PASS	T	109773256	T	T	109773256	3	4	28	1	0	0	0	0	1	0	0	0	17923	1377	48	3	7512	3	ZNF462	9	109773256	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	13900299	109773256	31440175	232	12195										
DBC1	1620	broad.mit.edu	37	chr9	121929944	121929944	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cagccctccgaatggctcccGctaaaggggttgacatagac	11	13	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:121929944G>C	uc004bkc.2	-	8	2160	c.1704C>G	c.(1702-1704)AGC>AGG	p.S568R		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	568					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						AATGGCTCCCGCTAAAGGGGT	0.557													5	32	---	---	---	---	PASS	C	121929944	C	C	121929944	3	2	28	1	0	0	0	0	1	0	0	0	4247	1078	38	4	585	4	DBC1	9	121929944	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	12156688	121929944	19283487	233	12196										
NUP188	23511	broad.mit.edu	37	chr9	131730888	131730888	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atactttgagatggcacccaGtgacttacttgtattaacca	7	9	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:131730888G>C	uc004bws.1	+	9	711	c.689G>C	c.(688-690)AGT>ACT	p.S230T		NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	230					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						ATGGCACCCAGTGACTTACTT	0.433													18	45	---	---	---	---	PASS	C	131730888	C	C	131730888	3	2	28	1	0	0	0	0	1	0	0	0	10758	1029	36	4	723	4	NUP188	9	131730888	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	9800944	131730888	9482543	234	12197										
POMT1	10585	broad.mit.edu	37	chr9	134394307	134394307	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcccggggctaccacgggagCacggtgtggaacgtggagga	18	10	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:134394307C>T	uc004cav.2	+	15	1717	c.1515C>T	c.(1513-1515)AGC>AGT	p.S505S	POMT1_uc004cax.2_Silent_p.S483S|POMT1_uc011mcj.1_Silent_p.S261S|POMT1_uc004cau.2_Silent_p.S483S|POMT1_uc004caw.2_Silent_p.S429S|POMT1_uc011mck.1_Silent_p.S366S|POMT1_uc011mcl.1_Silent_p.S331S|POMT1_uc011mcm.1_Silent_p.S453S|POMT1_uc011mcn.1_3'UTR	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	505	MIR 3.				multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		ACCACGGGAGCACGGTGTGGA	0.627													12	40	---	---	---	---	PASS	T	134394307	T	T	134394307	2	4	28	1	0	0	0	0	0	0	0	1	12245	709	25	3		3	POMT1	9	134394307	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	2663419	134394307	6819124	235	12198										
KCNT1	57582	broad.mit.edu	37	chr9	138669247	138669247	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcaagaacaagctgatcatcGtctcggcagagacggccggc	12	12	3	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:138669247G>A	uc011mdq.1	+	21	2487	c.2413G>A	c.(2413-2415)GTC>ATC	p.V805I	KCNT1_uc011mdr.1_Missense_Mutation_p.V632I|KCNT1_uc010nbf.2_Missense_Mutation_p.V760I|KCNT1_uc004cgo.1_Missense_Mutation_p.V554I	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	805						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		GCTGATCATCGTCTCGGCAGA	0.512													18	28	---	---	---	---	PASS	A	138669247	A	A	138669247	3	1	28	1	0	0	0	0	1	0	0	0	8091	1145	40	1	2495	1	KCNT1	9	138669247	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	4274940	138669247	2544184	236	12199										
NOTCH1	4851	broad.mit.edu	37	chr9	139405214	139405214	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caggatgcgccgtgccggcaCgggctcagaacgcactcgtt	14	14	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr9:139405214C>A	uc004chz.2	-	17	2631	c.2631G>T	c.(2629-2631)CCG>CCT	p.P877P	NOTCH1_uc004cia.1_Silent_p.P107P	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	877	Extracellular (Potential).|EGF-like 23; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CGTGCCGGCACGGGCTCAGAA	0.692			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			8	24	---	---	---	---	PASS	A	139405214	A	A	139405214	2	1	28	1	0	0	0	0	0	0	0	1	10547	523	19	1		1	NOTCH1	9	139405214	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	735967	139405214	1808217	237	12200										
SEC61A2	55176	broad.mit.edu	37	chr10	12191907	12191907	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgtatgtcatgacggggatgTatggggaccctgcagaaatg	15	6	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:12191907T>A	uc001ile.2	+	6	556	c.409T>A	c.(409-411)TAT>AAT	p.Y137N	SEC61A2_uc010qbq.1_Missense_Mutation_p.Y115N|SEC61A2_uc001ilf.3_RNA|SEC61A2_uc001ilh.3_RNA|SEC61A2_uc001ilg.3_Missense_Mutation_p.Y137N	NM_018144	NP_060614	Q9H9S3	S61A2_HUMAN	Sec61 alpha form 2 isoform a	137	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity			ovary(1)	1		Renal(717;0.228)				GACGGGGATGTATGGGGACCC	0.443													14	86	---	---	---	---	PASS	A	12191907	A	A	12191907	3	1	28	1	0	0	0	0	1	0	0	0	14001	1638	57	5	431	5	SEC61A2	10	12191907	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08		12191907	123342840	238	12201										
SEPHS1	22929	broad.mit.edu	37	chr10	13378352	13378352	+	Splice_Site	DEL	T	-	-													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tggcacacgctatcctgcccTgggaagagagggaaacatga							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:13378352delT	uc001imk.2	-	4	657	c.298_splice	c.e4-1	p.G100_splice	SEPHS1_uc001imh.2_Frame_Shift_Del_p.Q23fs|SEPHS1_uc010qbs.1_Splice_Site_p.G52_splice|SEPHS1_uc001imi.2_Splice_Site_p.G100_splice|SEPHS1_uc001imj.2_Splice_Site_p.G100_splice|SEPHS1_uc010qbt.1_Splice_Site_p.G33_splice|SEPHS1_uc009xje.2_Splice_Site_p.G100_splice	NM_012247	NP_036379	P49903	SPS1_HUMAN	selenophosphate synthetase 1						protein modification process		ATP binding|GTP binding|selenide, water dikinase activity			skin(1)	1						TATCCTGCCCTGGGAAGAGAG	0.507													19	12	---	---	---	---		-	13378352	-	-	13378352	8	5	28	1	0	1	0	1	0	0	1	0	14054	1594	55	0	906	0	SEPHS1	10	13378352	Splice_Site	DEL	T	TCGA-21-5787-01A-01D-1632-08	1186445	13378352	122156395	239	12202										
SLC39A12	221074	broad.mit.edu	37	chr10	18276475	18276475	+	Frame_Shift_Del	DEL	C	-	-													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atgctggggacagcgctggtCcttttccatagctgtgagga							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:18276475delC	uc001ipo.2	+	7	1437	c.1164delC	c.(1162-1164)GTCfs	p.V388fs	SLC39A12_uc001ipn.2_Frame_Shift_Del_p.V388fs|SLC39A12_uc001ipp.2_Frame_Shift_Del_p.V388fs|SLC39A12_uc010qck.1_Frame_Shift_Del_p.V254fs	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	388	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						CAGCGCTGGTCCTTTTCCATA	0.547													60	33	---	---	---	---		-	18276475	-	-	18276475	7	5	28	1	0	1	0	1	0	0	0	0	14615	842	30	0	1186	0	SLC39A12	10	18276475	Frame_Shift_Del	DEL	C	TCGA-21-5787-01A-01D-1632-08	4898123	18276475	117258272	240	12203										
CACNB2	783	broad.mit.edu	37	chr10	18825123	18825123	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ataaactggctcagtgtcctCcagtaagttatctctatata	6	9	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:18825123C>A	uc001ipr.2	+	12	1360	c.1300C>A	c.(1300-1302)CCA>ACA	p.P434T	CACNB2_uc009xjz.1_Missense_Mutation_p.P184T|CACNB2_uc001ips.2_Missense_Mutation_p.P410T|CACNB2_uc001ipt.2_Missense_Mutation_p.P396T|CACNB2_uc001ipu.2_Missense_Mutation_p.P406T|CACNB2_uc001ipv.2_Missense_Mutation_p.P382T|CACNB2_uc009xka.1_Missense_Mutation_p.P368T|CACNB2_uc001ipw.2_Missense_Mutation_p.P341T|CACNB2_uc001ipx.2_Missense_Mutation_p.P379T|CACNB2_uc001ipz.2_Missense_Mutation_p.P356T|CACNB2_uc001ipy.2_Missense_Mutation_p.P380T|CACNB2_uc010qco.1_Missense_Mutation_p.P348T|CACNB2_uc001iqa.2_Missense_Mutation_p.P386T|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	434					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TCAGTGTCCTCCAGTAAGTTA	0.299													17	21	---	---	---	---	PASS	A	18825123	A	A	18825123	3	1	28	1	0	0	0	0	1	0	0	0	2553	855	30	2	1656	2	CACNB2	10	18825123	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	548648	18825123	116709624	241	12204										
PIP4K2A	5305	broad.mit.edu	37	chr10	22880610	22880610	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cggccacgtcttcactggtaAtagtcttgatgatgtatctt	9	9	4	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:22880610A>G	uc001irl.3	-	4	688	c.440T>C	c.(439-441)ATT>ACT	p.I147T	PIP4K2A_uc010qcu.1_5'UTR	NM_005028	NP_005019	P48426	PI42A_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	147	PIPK.						1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding			ovary(1)|skin(1)	2						TTCACTGGTAATAGTCTTGAT	0.463													10	80	---	---	---	---	PASS	G	22880610	G	G	22880610	3	3	28	1	0	0	0	0	1	0	0	0	11936	101	4	5	808	5	PIP4K2A	10	22880610	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	4055487	22880610	112654137	242	12205										
SVIL	6840	broad.mit.edu	37	chr10	29813479	29813479	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgtctcgtgtctattctgttCcgggtagaaatcgcttttga	10	8	3	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:29813479C>A	uc001iut.1	-	14	3261	c.2508G>T	c.(2506-2508)CGG>CGT	p.R836R	SVIL_uc010qdw.1_5'Flank|SVIL_uc001iuu.1_Silent_p.R410R	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	836					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				CTATTCTGTTCCGGGTAGAAA	0.498													10	67	---	---	---	---	PASS	A	29813479	A	A	29813479	2	1	28	1	0	0	0	0	0	0	0	1	15418	842	30	2		2	SVIL	10	29813479	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	6932869	29813479	105721268	243	12206										
C10orf68	79741	broad.mit.edu	37	chr10	33103303	33103303	+	Missense_Mutation	SNP	G	A	A													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgtttatttctatagggcctGatatagaacaattgacagat							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:33103303G>A	uc001iwn.3	+	12	1389	c.916G>A	c.(916-918)GAT>AAT	p.D306N	C10orf68_uc001iwl.1_Intron|C10orf68_uc001iwm.1_Missense_Mutation_p.D282N|C10orf68_uc010qei.1_Missense_Mutation_p.D254N|C10orf68_uc001iwo.3_RNA	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	306										skin(2)|ovary(1)	3						TATAGGGCCTGATATAGAACA	0.348													46	61	---	---	---	---	PASS	A	33103303	A	A	33103303	3	1	28	1	0	0	0	0	1	0	0	0	1613	1290	45	2	954	2	C10orf68	10	33103303	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	3289824	33103303	102431444	244	12207	329	2								
C10orf68	79741	broad.mit.edu	37	chr10	33103304	33103304	+	Missense_Mutation	SNP	A	T	T													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtttatttctatagggcctgAtatagaacaattgacagatg							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:33103304A>T	uc001iwn.3	+	12	1390	c.917A>T	c.(916-918)GAT>GTT	p.D306V	C10orf68_uc001iwl.1_Intron|C10orf68_uc001iwm.1_Missense_Mutation_p.D282V|C10orf68_uc010qei.1_Missense_Mutation_p.D254V|C10orf68_uc001iwo.3_RNA	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	306										skin(2)|ovary(1)	3						ATAGGGCCTGATATAGAACAA	0.343													45	62	---	---	---	---	PASS	T	33103304	T	T	33103304	3	4	28	1	0	0	0	0	1	0	0	0	1613	333	12	5	955	5	C10orf68	10	33103304	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	1	33103304	102431443	245	12208	329	2								
ANKRD30A	91074	broad.mit.edu	37	chr10	37442556	37442556	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttacccaaggctacacatcaAaaagaaatagataaaataaa	4	7	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:37442556A>G	uc001iza.1	+	13	1695	c.1596A>G	c.(1594-1596)CAA>CAG	p.Q532Q		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						CTACACATCAAAAAGAAATAG	0.308													6	148	---	---	---	---	PASS	G	37442556	G	G	37442556	2	3	28	1	0	0	0	0	0	0	0	1	658	11	1	5		5	ANKRD30A	10	37442556	Silent	SNP	A	TCGA-21-5787-01A-01D-1632-08	4339252	37442556	98092191	246	12209										
CSGALNACT2	55454	broad.mit.edu	37	chr10	43678762	43678762	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	catctttatcgaaaatacttAcatggtgacctcattgtgat	6	8	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:43678762A>T	uc001jan.2	+	8	1736	c.1401A>T	c.(1399-1401)TTA>TTT	p.L467F		NM_018590	NP_061060	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate	467	Lumenal (Potential).				chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process	Golgi cisterna membrane|integral to Golgi membrane	glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding			ovary(1)	1						GAAAATACTTACATGGTGACC	0.458													65	80	---	---	---	---	PASS	T	43678762	T	T	43678762	3	4	28	1	0	0	0	0	1	0	0	0	3939	388	14	5	1427	5	CSGALNACT2	10	43678762	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	6236206	43678762	91855985	247	12210										
ZNF488	118738	broad.mit.edu	37	chr10	48370751	48370751	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cgggatgtgggcagtgcggaGctggcactgttggtagcccc	18	10	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:48370751G>T	uc001jex.2	+	2	381	c.219G>T	c.(217-219)GAG>GAT	p.E73D	ZNF488_uc001jey.2_Intron	NM_153034	NP_694579	Q96MN9	ZN488_HUMAN	zinc finger protein 488	73					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GCAGTGCGGAGCTGGCACTGT	0.701													5	28	---	---	---	---	PASS	T	48370751	T	T	48370751	3	4	28	1	0	0	0	0	1	0	0	0	17937	962	34	3	221	3	ZNF488	10	48370751	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	4691989	48370751	87163996	248	12211										
RBP3	5949	broad.mit.edu	37	chr10	48390116	48390116	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cccccagtccgctcgcccacCacgatggccctgcgcatctg	9	21	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:48390116C>T	uc001jez.2	-	1	876	c.762G>A	c.(760-762)GTG>GTA	p.V254V		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	254	4 X approximate tandem repeats.|1.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	GCTCGCCCACCACGATGGCCC	0.662													11	21	---	---	---	---	PASS	T	48390116	T	T	48390116	2	4	28	1	0	0	0	0	0	0	0	1	13157	581	21	3		3	RBP3	10	48390116	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	19365	48390116	87144631	249	12212										
MAPK8	5599	broad.mit.edu	37	chr10	49618206	49618206	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttcattctgctggaattattCatcgggttagtagaagaaac	9	6	3	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:49618206C>T	uc009xnz.2	+	5	669	c.445C>T	c.(445-447)CAT>TAT	p.H149Y	MAPK8_uc001jgl.2_Missense_Mutation_p.H149Y|MAPK8_uc001jgm.2_Missense_Mutation_p.H149Y|MAPK8_uc001jgo.2_Missense_Mutation_p.H149Y|MAPK8_uc009xoa.2_Missense_Mutation_p.H149Y|MAPK8_uc001jgn.2_Missense_Mutation_p.H149Y|MAPK8_uc010qgk.1_Missense_Mutation_p.H149Y|MAPK8_uc001jgp.2_Missense_Mutation_p.H149Y|MAPK8_uc001jgq.2_Missense_Mutation_p.H149Y	NM_139047	NP_620635	P45983	MK08_HUMAN	mitogen-activated protein kinase 8 isoform JNK1	149	Protein kinase.				activation of pro-apoptotic gene products|cellular response to mechanical stimulus|induction of apoptosis by intracellular signals|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of apoptosis|negative regulation of protein binding|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of deacetylase activity|regulation of protein localization|regulation of sequence-specific DNA binding transcription factor activity|response to UV|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|nucleoplasm	ATP binding|histone deacetylase binding|histone deacetylase regulator activity|JUN kinase activity|protein binding			central_nervous_system(3)|lung(2)|stomach(1)|ovary(1)|kidney(1)	8		Ovarian(717;0.0221)|Lung SC(717;0.113)|all_neural(218;0.116)		Epithelial(53;3.46e-65)|Lung(62;0.125)		TGGAATTATTCATCGGGTTAG	0.289													13	132	---	---	---	---	PASS	T	49618206	T	T	49618206	3	4	28	1	0	0	0	0	1	0	0	0	9283	826	29	2	459	2	MAPK8	10	49618206	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1228090	49618206	85916541	250	12213										
CHAT	1103	broad.mit.edu	37	chr10	50854662	50854662	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccacagggcactccagctccTtcacggcggaggctacagca	11	16	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:50854662T>A	uc001jhz.2	+	8	1376	c.1223T>A	c.(1222-1224)CTT>CAT	p.L408H	CHAT_uc001jhv.1_Missense_Mutation_p.L290H|CHAT_uc001jhx.1_Missense_Mutation_p.L290H|CHAT_uc001jhy.1_Missense_Mutation_p.L290H|CHAT_uc001jia.2_Missense_Mutation_p.L290H|CHAT_uc010qgs.1_Missense_Mutation_p.L290H	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	408					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	CTCCAGCTCCTTCACGGCGGA	0.642													21	29	---	---	---	---	PASS	A	50854662	A	A	50854662	3	1	28	1	0	0	0	0	1	0	0	0	3313	1609	56	5	1297	5	CHAT	10	50854662	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	1236456	50854662	84680085	251	12214										
ANK3	288	broad.mit.edu	37	chr10	62029914	62029914	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tggctaggctctggcttgcaCcattgtcaagaagaaacttg	11	9	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:62029914C>A	uc001jky.2	-	5	680	c.488G>T	c.(487-489)GGT>GTT	p.G163V	ANK3_uc010qih.1_Missense_Mutation_p.G146V|ANK3_uc001jkz.3_Missense_Mutation_p.G157V|ANK3_uc001jlb.1_5'UTR	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	163	ANK 3.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CTGGCTTGCACCATTGTCAAG	0.398													34	42	---	---	---	---	PASS	A	62029914	A	A	62029914	3	1	28	1	0	0	0	0	1	0	0	0	622	507	18	3	13134	3	ANK3	10	62029914	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	11175252	62029914	73504833	252	12215										
CTNNA3	29119	broad.mit.edu	37	chr10	68040337	68040337	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcaatgagcttttgcttaagGcttccaaggcaacattcact	7	10	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:68040337G>T	uc009xpn.1	-	13	1898	c.1775C>A	c.(1774-1776)GCC>GAC	p.A592D	CTNNA3_uc001jmw.2_Missense_Mutation_p.A592D	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	592					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						TTTGCTTAAGGCTTCCAAGGC	0.323													6	64	---	---	---	---	PASS	T	68040337	T	T	68040337	3	4	28	1	0	0	0	0	1	0	0	0	4014	1203	42	3	936	3	CTNNA3	10	68040337	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	6010423	68040337	67494410	253	12216										
NPFFR1	64106	broad.mit.edu	37	chr10	72026002	72026002	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atgcagagcaggaagatgagCgcataggccacaatgaacat	12	8	0	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:72026002C>A	uc010qjk.1	-	1	153	c.147G>T	c.(145-147)GCG>GCT	p.A49A		NM_022146	NP_071429	Q9GZQ6	NPFF1_HUMAN	neuropeptide FF receptor 1	51	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	neuropeptide receptor activity				0						GGAAGATGAGCGCATAGGCCA	0.547													3	18	---	---	---	---	PASS	A	72026002	A	A	72026002	2	1	28	1	0	0	0	0	0	0	0	1	10577	755	27	1		1	NPFFR1	10	72026002	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	3985665	72026002	63508745	254	12217										
KIAA0913	23053	broad.mit.edu	37	chr10	75549948	75549948	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agaccccacagcagggccctCagcatcggaccagagtactt	10	15	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:75549948C>G	uc009xrl.2	+	7	871	c.839C>G	c.(838-840)TCA>TGA	p.S280*	KIAA0913_uc001jve.2_Nonsense_Mutation_p.S280*|KIAA0913_uc001jvf.2_Nonsense_Mutation_p.S280*|KIAA0913_uc001jvh.2_5'Flank|KIAA0913_uc001jvi.2_5'Flank|KIAA0913_uc010qkr.1_5'Flank|KIAA0913_uc001jvj.2_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	280							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					GCAGGGCCCTCAGCATCGGAC	0.532													6	36	---	---	---	---	PASS	G	75549948	G	G	75549948	4	3	28	1	0	0	0	0	0	1	0	0	8200	838	29	2	865	2	KIAA0913	10	75549948	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3523946	75549948	59984799	255	12218										
KIAA0913	23053	broad.mit.edu	37	chr10	75551984	75551984	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcccctcatcacagcggggtCcccgccgcctctcagctgaa	9	19	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:75551984C>G	uc009xrl.2	+	10	1719	c.1687C>G	c.(1687-1689)CCC>GCC	p.P563A	KIAA0913_uc001jve.2_Missense_Mutation_p.P563A|KIAA0913_uc001jvf.2_Missense_Mutation_p.P563A|KIAA0913_uc001jvh.2_RNA|KIAA0913_uc001jvi.2_5'UTR|KIAA0913_uc010qkr.1_5'UTR|KIAA0913_uc001jvj.2_5'UTR	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	563	Gly-rich.						zinc ion binding			breast(1)	1	Prostate(51;0.0112)					ACAGCGGGGTCCCCGCCGCCT	0.657													6	28	---	---	---	---	PASS	G	75551984	G	G	75551984	3	3	28	1	0	0	0	0	1	0	0	0	8200	855	30	2	1725	2	KIAA0913	10	75551984	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	2036	75551984	59982763	256	12219										
CYP2C9	1559	broad.mit.edu	37	chr10	96745850	96745850	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acaacaaagaatttcccaacCcagagatgtttgaccctcat	5	12	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:96745850C>A	uc001kka.3	+	8	1235	c.1210C>A	c.(1210-1212)CCA>ACA	p.P404T	CYP2C9_uc009xut.2_Missense_Mutation_p.P402T	NM_000771	NP_000762	P11712	CP2C9_HUMAN	cytochrome P450, family 2, subfamily C,	404					exogenous drug catabolic process|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative demethylation|steroid metabolic process|urea metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|caffeine oxidase activity|drug binding|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(4)|ovary(2)	6		Colorectal(252;0.0902)		all cancers(201;6.93e-05)	Acenocoumarol(DB01418)|Alosetron(DB00969)|Amiodarone(DB01118)|Antihemophilic Factor(DB00025)|Aprepitant(DB00673)|Bosentan(DB00559)|Carprofen(DB00821)|Carvedilol(DB01136)|Celecoxib(DB00482)|Clomipramine(DB01242)|Dapsone(DB00250)|Delavirdine(DB00705)|Desloratadine(DB00967)|Desogestrel(DB00304)|Diclofenac(DB00586)|Esomeprazole(DB00736)|Etodolac(DB00749)|Fluconazole(DB00196)|Fluoxetine(DB00472)|Flurbiprofen(DB00712)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Gemfibrozil(DB01241)|Ginkgo biloba(DB01381)|Glibenclamide(DB01016)|Glimepiride(DB00222)|Glipizide(DB01067)|Guanfacine(DB01018)|Hydromorphone(DB00327)|Ibuprofen(DB01050)|Imipramine(DB00458)|Irbesartan(DB01029)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Losartan(DB00678)|Lumiracoxib(DB01283)|Marinol(DB00470)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mephenytoin(DB00532)|Metronidazole(DB00916)|Miconazole(DB01110)|Midazolam(DB00683)|Montelukast(DB00471)|Nateglinide(DB00731)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Oxymorphone(DB01192)|Pantoprazole(DB00213)|Paramethadione(DB00617)|Phenprocoumon(DB00946)|Phenytoin(DB00252)|Pravastatin(DB00175)|Quinidine(DB00908)|Ritonavir(DB00503)|Rosiglitazone(DB00412)|Sertraline(DB01104)|Sildenafil(DB00203)|Sulfamethoxazole(DB01015)|Suprofen(DB00870)|Tamoxifen(DB00675)|Tenoxicam(DB00469)|Terfenadine(DB00342)|Tolbutamide(DB01124)|Torasemide(DB00214)|Troleandomycin(DB01361)|Valdecoxib(DB00580)|Valsartan(DB00177)|Voriconazole(DB00582)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zileuton(DB00744)	ATTTCCCAACCCAGAGATGTT	0.373													41	61	---	---	---	---	PASS	A	96745850	A	A	96745850	3	1	28	1	0	0	0	0	1	0	0	0	4168	623	22	3	1240	3	CYP2C9	10	96745850	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	21193866	96745850	38788897	257	12220										
SLIT1	6585	broad.mit.edu	37	chr10	98761031	98761031	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cactccacccatgacaggggGcgcgtggtctggcagatggc	15	13	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:98761031G>A	uc001kmw.2	-	37	4695	c.4443C>T	c.(4441-4443)CGC>CGT	p.R1481R		NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	1481	CTCK.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		ATGACAGGGGGCGCGTGGTCT	0.657													16	87	---	---	---	---	PASS	A	98761031	A	A	98761031	2	1	28	1	0	0	0	0	0	0	0	1	14739	1190	42	3		3	SLIT1	10	98761031	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	2015181	98761031	36773716	258	12221										
CNNM1	26507	broad.mit.edu	37	chr10	101148047	101148047	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gctgtctcctgcagccgttcCcacgagagcaggtcagggag	14	13	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:101148047C>A	uc001kpp.3	+	9	2952	c.2663C>A	c.(2662-2664)CCC>CAC	p.P888H	CNNM1_uc010qpi.1_Missense_Mutation_p.P909H|CNNM1_uc009xwf.2_Intron|CNNM1_uc009xwg.2_Missense_Mutation_p.P288H	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	888					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		GCAGCCGTTCCCACGAGAGCA	0.617													4	17	---	---	---	---	PASS	A	101148047	A	A	101148047	3	1	28	1	0	0	0	0	1	0	0	0	3612	623	22	3	2697	3	CNNM1	10	101148047	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	2387016	101148047	34386700	259	12222										
C10orf2	56652	broad.mit.edu	37	chr10	102749641	102749641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccatggacagcaaagcatcaGgtgagactcccagattccag	10	12	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:102749641G>T	uc001ksf.2	+	2	2159	c.1484G>T	c.(1483-1485)AGG>ATG	p.R495M	MRPL43_uc001kry.1_5'Flank|MRPL43_uc010qpu.1_5'Flank|MRPL43_uc001krz.1_5'Flank|MRPL43_uc001ksa.1_5'Flank|MRPL43_uc001ksb.1_5'Flank|MRPL43_uc001ksd.1_5'Flank|MRPL43_uc001ksc.2_5'Flank|MRPL43_uc001kse.2_5'Flank|C10orf2_uc001ksg.2_Missense_Mutation_p.R495M|C10orf2_uc001ksi.2_Missense_Mutation_p.R41M|C10orf2_uc010qpv.1_Missense_Mutation_p.R41M|C10orf2_uc001ksh.2_RNA	NM_021830	NP_068602	Q96RR1	PEO1_HUMAN	twinkle isoform A	495	SF4 helicase.				cell death|mitochondrial DNA replication|protein hexamerization|protein homooligomerization|transcription from mitochondrial promoter	mitochondrial nucleoid	5'-3' DNA helicase activity|ATP binding|protease binding|single-stranded DNA binding			ovary(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CAAAGCATCAGGTGAGACTCC	0.522													18	120	---	---	---	---	PASS	T	102749641	T	T	102749641	3	4	28	1	0	0	0	0	1	0	0	0	1597	1014	35	3	1490	3	C10orf2	10	102749641	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1601594	102749641	32785106	260	12223										
ITPRIP	85450	broad.mit.edu	37	chr10	106075072	106075072	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aatgtgtccccatcggcgcgGaccaccttgatctggccgta	11	14	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:106075072G>A	uc001kye.2	-	2	811	c.738C>T	c.(736-738)GTC>GTT	p.V246V	ITPRIP_uc001kyf.2_Silent_p.V246V|ITPRIP_uc001kyg.2_Silent_p.V246V	NM_033397	NP_203755	Q8IWB1	IPRI_HUMAN	inositol 1,4,5-triphosphate receptor interacting	246						plasma membrane					0						CATCGGCGCGGACCACCTTGA	0.657													20	22	---	---	---	---	PASS	A	106075072	A	A	106075072	2	1	28	1	0	0	0	0	0	0	0	1	7923	1161	41	2		2	ITPRIP	10	106075072	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	3325431	106075072	29459675	261	12224										
PNLIPRP3	119548	broad.mit.edu	37	chr10	118196264	118196264	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggttagggtgtttcaaagatGgtttaccatggaccaggact	13	6	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:118196264G>C	uc001lcl.3	+	2	192	c.91G>C	c.(91-93)GGT>CGT	p.G31R		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	31					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		TTTCAAAGATGGTTTACCATG	0.448													12	73	---	---	---	---	PASS	C	118196264	C	C	118196264	3	2	28	1	0	0	0	0	1	0	0	0	12152	1348	47	4	97	4	PNLIPRP3	10	118196264	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	12121192	118196264	17338483	262	12225										
PDZD8	118987	broad.mit.edu	37	chr10	119044594	119044594	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgaattttcggtggtagtggGtgacttcctacagctaattt	11	6	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:119044594G>A	uc001lde.1	-	5	1849	c.1650C>T	c.(1648-1650)CAC>CAT	p.H550H		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	550					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		GTGGTAGTGGGTGACTTCCTA	0.413													77	89	---	---	---	---	PASS	A	119044594	A	A	119044594	2	1	28	1	0	0	0	0	0	0	0	1	11705	1252	44	3		3	PDZD8	10	119044594	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	848330	119044594	16490153	263	12226										
SEC23IP	11196	broad.mit.edu	37	chr10	121692597	121692597	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gaatgttaaatggaggccgcCgaattgactacgttctccaa	10	9	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:121692597C>T	uc001leu.1	+	17	2911	c.2839C>T	c.(2839-2841)CGA>TGA	p.R947*	SEC23IP_uc010qtc.1_Nonsense_Mutation_p.R736*|SEC23IP_uc009xzk.1_RNA	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	947	DDHD.				Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		TGGAGGCCGCCGAATTGACTA	0.363													35	32	---	---	---	---	PASS	T	121692597	T	T	121692597	4	4	28	1	0	0	0	0	0	1	0	0	13993	644	23	1	2905	1	SEC23IP	10	121692597	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	2648003	121692597	13842150	264	12227										
TACC2	10579	broad.mit.edu	37	chr10	123985957	123985957	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggagagccctgtcaagtcatCtcccgtccgcatgtcagagt	11	13	4	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:123985957C>T	uc001lfv.2	+	13	8045	c.7685C>T	c.(7684-7686)TCT>TTT	p.S2562F	TACC2_uc001lfw.2_Missense_Mutation_p.S708F|TACC2_uc009xzx.2_Missense_Mutation_p.S2517F|TACC2_uc010qtv.1_Missense_Mutation_p.S2566F|TACC2_uc001lfx.2_Missense_Mutation_p.S266F|TACC2_uc001lfy.2_Missense_Mutation_p.S262F|TACC2_uc001lfz.2_Missense_Mutation_p.S640F|TACC2_uc001lga.2_Missense_Mutation_p.S640F|TACC2_uc009xzy.2_Missense_Mutation_p.S652F|TACC2_uc001lgb.2_Missense_Mutation_p.S597F|TACC2_uc010qtw.1_Missense_Mutation_p.S657F	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	2562						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				GTCAAGTCATCTCCCGTCCGC	0.517													5	19	---	---	---	---	PASS	T	123985957	T	T	123985957	3	4	28	1	0	0	0	0	1	0	0	0	15499	913	32	2	7803	2	TACC2	10	123985957	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	2293360	123985957	11548790	265	12228										
C10orf90	118611	broad.mit.edu	37	chr10	128193390	128193390	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggggcccccacagggtctctCctctttgggcggcagctctg	14	15	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:128193390C>A	uc001ljq.2	-	3	500	c.379G>T	c.(379-381)GAG>TAG	p.E127*	C10orf90_uc001ljp.2_Nonsense_Mutation_p.E80*|C10orf90_uc010qum.1_Nonsense_Mutation_p.E224*|C10orf90_uc009yao.2_Nonsense_Mutation_p.E224*|C10orf90_uc001ljs.1_Nonsense_Mutation_p.E80*	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	127										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		CAGGGTCTCTCCTCTTTGGGC	0.642											OREG0020616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	44	---	---	---	---	PASS	A	128193390	A	A	128193390	4	1	28	1	0	0	0	0	0	1	0	0	1623	864	30	2	1748	2	C10orf90	10	128193390	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	4207433	128193390	7341357	266	12229										
STK32C	282974	broad.mit.edu	37	chr10	134036456	134036456	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctgcctgcacgtcctggaggCtggagagccggtgctcgggg	18	12	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:134036456C>A	uc001lle.1	-	9	1168	c.1028G>T	c.(1027-1029)AGC>ATC	p.S343I	STK32C_uc001lld.1_Missense_Mutation_p.S226I|STK32C_uc010quu.1_Missense_Mutation_p.S356I|STK32C_uc001llb.2_Missense_Mutation_p.S114I|STK32C_uc001llc.1_RNA	NM_173575	NP_775846	Q86UX6	ST32C_HUMAN	serine/threonine kinase 32C	343	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|breast(1)	5		all_cancers(35;2.72e-11)|all_epithelial(44;2.33e-08)|Lung NSC(174;0.000855)|all_lung(145;0.00146)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.112)|Melanoma(40;0.124)|Glioma(114;0.203)		Epithelial(32;3.99e-05)|all cancers(32;5.58e-05)|OV - Ovarian serous cystadenocarcinoma(35;9.96e-05)|BRCA - Breast invasive adenocarcinoma(275;0.222)		GTCCTGGAGGCTGGAGAGCCG	0.687													4	1	---	---	---	---	PASS	A	134036456	A	A	134036456	3	1	28	1	0	0	0	0	1	0	0	0	15298	797	28	3	448	3	STK32C	10	134036456	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	5843066	134036456	1498291	267	12230										
NKX6-2	84504	broad.mit.edu	37	chr10	134598853	134598853	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tccgggcccgccaggtacttGgtctgctcgaaggttttctc	12	13	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr10:134598853G>T	uc001llr.2	-	2	595	c.510C>A	c.(508-510)ACC>ACA	p.T170T		NM_177400	NP_796374	Q9C056	NKX62_HUMAN	NK6 transcription factor related, locus 2	170	Homeobox.					nucleus	sequence-specific DNA binding transcription factor activity				0		all_cancers(35;2.79e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0584)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;4.06e-05)|Epithelial(32;5.53e-05)|all cancers(32;5.99e-05)		CCAGGTACTTGGTCTGCTCGA	0.687													3	9	---	---	---	---	PASS	T	134598853	T	T	134598853	2	4	28	1	0	0	0	0	0	0	0	1	10458	1335	47	3		3	NKX6-2	10	134598853	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	562397	134598853	935894	268	12231										
MUC2	4583	broad.mit.edu	37	chr11	1097290	1097290	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tccccgagctgggtgtcctcGtctcctacaatggcctgtcc	10	16	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:1097290G>T	uc001lsx.1	+	38	13819	c.13792G>T	c.(13792-13794)GTC>TTC	p.V4598F		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4598	VWFD 4.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	GGGTGTCCTCGTCTCCTACAA	0.612													13	18	---	---	---	---	PASS	T	1097290	T	T	1097290	3	4	28	1	0	0	0	0	1	0	0	0	9975	1145	40	1	6836	1	MUC2	11	1097290	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08		1097290	133909226	269	12232										
MUC5B	727897	broad.mit.edu	37	chr11	1265969	1265969	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cacgggcttcacagccacccCctcctccagcccagggacgg	10	20	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:1265969C>A	uc009ycr.1	+	48	9899	c.9773C>A	c.(9772-9774)CCC>CAC	p.P3258H	MUC5B_uc001ltb.2_Missense_Mutation_p.P2623H	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2620	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACAGCCACCCCCTCCTCCAGC	0.652													25	27	---	---	---	---	PASS	A	1265969	A	A	1265969	3	1	28	1	0	0	0	0	1	0	0	0	9979	623	22	3	7990	3	MUC5B	11	1265969	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	168679	1265969	133740547	270	12233										
OR51A4	401666	broad.mit.edu	37	chr11	4967860	4967860	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtgaaagggaagggaagaacCaggagcatgctcttaaagga	15	5	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:4967860C>T	uc010qys.1	-	1	471	c.471G>A	c.(469-471)CTG>CTA	p.L157L		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGGGAAGAACCAGGAGCATGC	0.438													16	50	---	---	---	---	PASS	T	4967860	T	T	4967860	2	4	28	1	0	0	0	0	0	0	0	1	11087	581	21	3		3	OR51A4	11	4967860	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	3701891	4967860	130038656	271	12234										
OR51A2	401667	broad.mit.edu	37	chr11	4976473	4976473	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtgaaagggaagggaagaacCaggagcatgctcttaaagga	15	5	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:4976473C>T	uc010qyt.1	-	1	471	c.471G>A	c.(469-471)CTG>CTA	p.L157L		NM_001004748	NP_001004748	Q8NGJ7	O51A2_HUMAN	olfactory receptor, family 51, subfamily A,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGGGAAGAACCAGGAGCATGC	0.438													34	163	---	---	---	---	PASS	T	4976473	T	T	4976473	2	4	28	1	0	0	0	0	0	0	0	1	11086	581	21	3		3	OR51A2	11	4976473	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	8613	4976473	130030043	272	12235										
MMP26	56547	broad.mit.edu	37	chr11	5013285	5013285	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agctccataatgtaccccacTtactggtatcacgaccctag	6	14	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:5013285T>A	uc001lzv.2	+	5	705	c.687T>A	c.(685-687)ACT>ACA	p.T229T		NM_021801	NP_068573	Q9NRE1	MMP26_HUMAN	matrix metalloproteinase 26 preproprotein	229					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Medulloblastoma(188;0.0025)|Breast(177;0.0204)|all_neural(188;0.0227)		Epithelial(150;1.33e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0287)|LUSC - Lung squamous cell carcinoma(625;0.191)		TGTACCCCACTTACTGGTATC	0.468													11	24	---	---	---	---	PASS	A	5013285	A	A	5013285	2	1	28	1	0	0	0	0	0	0	0	1	9663	1596	56	5		5	MMP26	11	5013285	Silent	SNP	T	TCGA-21-5787-01A-01D-1632-08	36812	5013285	129993231	273	12236										
FAM160A2	84067	broad.mit.edu	37	chr11	6245432	6245432	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cagcactgagatcgtctgcaCccccaggagctgcccgaggg	13	15	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:6245432C>G	uc001mcl.3	-	3	544	c.185G>C	c.(184-186)GGT>GCT	p.G62A	FAM160A2_uc001mck.3_Missense_Mutation_p.G62A|FAM160A2_uc001mcm.2_Missense_Mutation_p.G62A	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	62					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						ATCGTCTGCACCCCCAGGAGC	0.572													15	29	---	---	---	---	PASS	G	6245432	G	G	6245432	3	3	28	1	0	0	0	0	1	0	0	0	5469	507	18	4	2815	4	FAM160A2	11	6245432	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1232147	6245432	128761084	274	12237										
SMPD1	6609	broad.mit.edu	37	chr11	6412809	6412809	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccacctgtgggcactgggacAttttctcatcttggaacatc	9	12	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:6412809A>G	uc001mcw.2	+	2	688	c.514A>G	c.(514-516)ATT>GTT	p.I172V	SMPD1_uc001mcv.1_Intron|SMPD1_uc009yex.2_RNA|SMPD1_uc001mcx.2_Missense_Mutation_p.I172V|SMPD1_uc009yew.2_Missense_Mutation_p.I171V	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	170					cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)	GCACTGGGACATTTTCTCATC	0.617													6	1	---	---	---	---	PASS	G	6412809	G	G	6412809	3	3	28	1	0	0	0	0	1	0	0	0	14804	217	8	5	520	5	SMPD1	11	6412809	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	167377	6412809	128593707	275	12238										
OR10A4	283297	broad.mit.edu	37	chr11	6898584	6898584	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgccgtcagctgaggggaaaCatcaggcattctccacctgt	11	12	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:6898584C>T	uc010rat.1	+	1	706	c.706C>T	c.(706-708)CAT>TAT	p.H236Y		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	236	Cytoplasmic (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)		TGAGGGGAAACATCAGGCATT	0.517													22	30	---	---	---	---	PASS	T	6898584	T	T	6898584	3	4	28	1	0	0	0	0	1	0	0	0	10892	478	17	3	708	3	OR10A4	11	6898584	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	485775	6898584	128107932	276	12239										
NLRP14	338323	broad.mit.edu	37	chr11	7081200	7081200	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctacacaacaagagcctgacGcatctggatctaggatcaaa	8	11	3	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:7081200G>T	uc001mfb.1	+	9	3032	c.2709G>T	c.(2707-2709)ACG>ACT	p.T903T		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	903	LRR 7.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		AGAGCCTGACGCATCTGGATC	0.453													21	82	---	---	---	---	PASS	T	7081200	T	T	7081200	2	4	28	1	0	0	0	0	0	0	0	1	10476	1074	38	1		1	NLRP14	11	7081200	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	182616	7081200	127925316	277	12240										
NLRP10	338322	broad.mit.edu	37	chr11	7981634	7981634	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctgcatagtgagggtcatctCatcattcccttcctgctcct	7	14	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:7981634C>A	uc001mfv.1	-	2	1542	c.1525G>T	c.(1525-1527)GAG>TAG	p.E509*		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	509							ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AGGGTCATCTCATCATTCCCT	0.493													23	32	---	---	---	---	PASS	A	7981634	A	A	7981634	4	1	28	1	0	0	0	0	0	1	0	0	10472	835	29	2	446	2	NLRP10	11	7981634	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	900434	7981634	127024882	278	12241										
AMPD3	272	broad.mit.edu	37	chr11	10527417	10527417	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgaaatcagaagagatcaccGccttgaccaactaggtccag	9	11	2	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:10527417G>T	uc001mio.1	+	15	2625	c.2290G>T	c.(2290-2292)GCC>TCC	p.A764S	AMPD3_uc010rbz.1_Missense_Mutation_p.A605S|AMPD3_uc001min.1_Missense_Mutation_p.A773S|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.A771S|AMPD3_uc009yfy.2_Missense_Mutation_p.A764S	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	764					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		AGAGATCACCGCCTTGACCAA	0.433													22	25	---	---	---	---	PASS	T	10527417	T	T	10527417	3	4	28	1	0	0	0	0	1	0	0	0	587	1087	38	1	2395	1	AMPD3	11	10527417	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	2545783	10527417	124479099	279	12242										
ANO5	203859	broad.mit.edu	37	chr11	22297660	22297660	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtacagagattacagatatcCtcctgatgacgagaataaat	8	7	0	5			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:22297660C>T	uc001mqi.2	+	21	2752	c.2435C>T	c.(2434-2436)CCT>CTT	p.P812L	ANO5_uc001mqj.2_Missense_Mutation_p.P811L	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	812	Extracellular (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						TACAGATATCCTCCTGATGAC	0.323													16	41	---	---	---	---	PASS	T	22297660	T	T	22297660	3	4	28	1	0	0	0	0	1	0	0	0	700	681	24	3	2517	3	ANO5	11	22297660	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	11770243	22297660	112708856	280	12243										
C11orf74	119710	broad.mit.edu	37	chr11	36669697	36669697	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttaaaagaatggacaaacagAcggaagaggtactccacagg	11	7	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:36669697A>T	uc001mwy.1	+	5	563	c.490A>T	c.(490-492)ACG>TCG	p.T164S	C11orf74_uc010rfd.1_RNA|C11orf74_uc001mww.1_Missense_Mutation_p.T90S|C11orf74_uc001mwx.1_RNA|C11orf74_uc001mwz.1_Missense_Mutation_p.T90S|C11orf74_uc010rfe.1_RNA	NM_138787	NP_620142	Q86VG3	CK074_HUMAN	hypothetical protein LOC119710	164											0	all_lung(20;0.226)	all_hematologic(20;0.0118)				GGACAAACAGACGGAAGAGGT	0.448													46	48	---	---	---	---	PASS	T	36669697	T	T	36669697	3	4	28	1	0	0	0	0	1	0	0	0	1662	275	10	5	504	5	C11orf74	11	36669697	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	14372037	36669697	98336819	281	12244										
DGKZ	8525	broad.mit.edu	37	chr11	46399764	46399764	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcaggtcactgcaaggggatGctgcaccccctcaaggtgag	14	12	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:46399764G>T	uc001ncn.1	+	27	3048	c.2923G>T	c.(2923-2925)GCT>TCT	p.A975S	DGKZ_uc001nch.1_Missense_Mutation_p.A803S|DGKZ_uc010rgq.1_Missense_Mutation_p.A730S|DGKZ_uc001ncj.1_Missense_Mutation_p.A753S|DGKZ_uc010rgr.1_Missense_Mutation_p.A752S|DGKZ_uc001nck.1_Missense_Mutation_p.A565S|DGKZ_uc001ncl.2_Missense_Mutation_p.A787S|DGKZ_uc001ncm.2_Missense_Mutation_p.A786S|DGKZ_uc009yky.1_Missense_Mutation_p.A787S|DGKZ_uc010rgs.1_Missense_Mutation_p.A764S|MDK_uc009ykz.1_5'Flank|MDK_uc001nco.2_5'Flank	NM_001105540	NP_001099010	Q13574	DGKZ_HUMAN	diacylglycerol kinase zeta isoform 4	975					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell migration|intracellular signal transduction|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of mitotic cell cycle|platelet activation	cytoplasm|lamellipodium|nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|diacylglycerol kinase activity|lipid kinase activity|metal ion binding|protein binding|protein C-terminus binding			pancreas(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.0259)|Lung(87;0.141)		GCAAGGGGATGCTGCACCCCC	0.647													3	11	---	---	---	---	PASS	T	46399764	T	T	46399764	3	4	28	1	0	0	0	0	1	0	0	0	4474	1319	46	3	3472	3	DGKZ	11	46399764	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	9730067	46399764	88606752	282	12245										
OR4X1	390113	broad.mit.edu	37	chr11	48285559	48285559	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	attgtggtgaccatcctggcCagcaaagtgctcacctcccc	9	15	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:48285559C>A	uc010rht.1	+	1	147	c.147C>A	c.(145-147)GCC>GCA	p.A49A		NM_001004726	NP_001004726	Q8NH49	OR4X1_HUMAN	olfactory receptor, family 4, subfamily X,	49	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3						CCATCCTGGCCAGCAAAGTGC	0.493													7	43	---	---	---	---	PASS	A	48285559	A	A	48285559	2	1	28	1	0	0	0	0	0	0	0	1	11084	581	21	3		3	OR4X1	11	48285559	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	1885795	48285559	86720957	283	12246										
OR4A16	81327	broad.mit.edu	37	chr11	55110725	55110726	+	Frame_Shift_Ins	INS	-	A	A													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgtcctcctgggcctcactcINSaagatcctgatgtgaaaaaa							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:55110725_55110726insA	uc010rie.1	+	1	49_50	c.49_50insA	c.(49-51)CAAfs	p.Q17fs		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						GGGCCTCACTCAAGATCCTGAT	0.406													23	26	---	---	---	---		A	55110726	A	A	55110725	7	5	28	1	0	1	1	0	0	0	0	0	11041	827	29	0	51	0	OR4A16	11	55110725	Frame_Shift_Ins	INS	-	TCGA-21-5787-01A-01D-1632-08	6825166	55110725	79895791	284	12247										
OR4C16	219428	broad.mit.edu	37	chr11	55340018	55340018	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccatcataagccagtgggtcTgtggtgttttgatggctgtg	14	7	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:55340018T>C	uc010rih.1	+	1	415	c.415T>C	c.(415-417)TGT>CGT	p.C139R		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	139	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				CCAGTGGGTCTGTGGTGTTTT	0.512													29	87	---	---	---	---	PASS	C	55340018	C	C	55340018	3	2	28	1	0	0	0	0	1	0	0	0	11049	1580	55	5	417	5	OR4C16	11	55340018	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	229293	55340018	79666498	285	12248										
OR8H2	390151	broad.mit.edu	37	chr11	55872966	55872966	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctctcatcactgggccttatGtgattggctttatagactcc	8	11	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:55872966G>T	uc010riy.1	+	1	448	c.448G>T	c.(448-450)GTG>TTG	p.V150L		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					TGGGCCTTATGTGATTGGCTT	0.458										HNSCC(53;0.14)			82	92	---	---	---	---	PASS	T	55872966	T	T	55872966	3	4	28	1	0	0	0	0	1	0	0	0	11238	1377	48	3	450	3	OR8H2	11	55872966	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	532948	55872966	79133550	286	12249										
OR9Q1	219956	broad.mit.edu	37	chr11	57947063	57947063	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttagagatgattattctgatCctcatggatcaccagctcca	7	10	3	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:57947063C>A	uc001nmj.2	+	3	463	c.147C>A	c.(145-147)ATC>ATA	p.I49I		NM_001005212	NP_001005212	Q8NGQ5	OR9Q1_HUMAN	olfactory receptor, family 9, subfamily Q,	49	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.222)				TTATTCTGATCCTCATGGATC	0.453													31	106	---	---	---	---	PASS	A	57947063	A	A	57947063	2	1	28	1	0	0	0	0	0	0	0	1	11255	845	30	2		2	OR9Q1	11	57947063	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	2074097	57947063	77059453	287	12250										
OR9Q2	219957	broad.mit.edu	37	chr11	57958292	57958292	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttcaccttctttgcctccatCgactgctaccttctggccat	5	16	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:57958292C>A	uc010rka.1	+	1	330	c.330C>A	c.(328-330)ATC>ATA	p.I110I		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				TTGCCTCCATCGACTGCTACC	0.592													41	54	---	---	---	---	PASS	A	57958292	A	A	57958292	2	1	28	1	0	0	0	0	0	0	0	1	11256	874	31	2		2	OR9Q2	11	57958292	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	11229	57958292	77048224	288	12251										
OR10Q1	219960	broad.mit.edu	37	chr11	57995641	57995641	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aggcccggcggcggccctcgGcagaacggatgctcaggatg	17	13	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:57995641G>A	uc010rkd.1	-	1	707	c.707C>T	c.(706-708)GCC>GTC	p.A236V		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				GCGGCCCTCGGCAGAACGGAT	0.627													13	14	---	---	---	---	PASS	A	57995641	A	A	57995641	3	1	28	1	0	0	0	0	1	0	0	0	10916	1203	42	3	256	3	OR10Q1	11	57995641	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	37349	57995641	77010875	289	12252										
OR10Q1	219960	broad.mit.edu	37	chr11	57995753	57995753	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atagaggacagcctggtgcaCgcggatgtcagcgcaggcca	15	11	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:57995753C>A	uc010rkd.1	-	1	595	c.595G>T	c.(595-597)GTG>TTG	p.V199L		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	199	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				GCCTGGTGCACGCGGATGTCA	0.592													12	16	---	---	---	---	PASS	A	57995753	A	A	57995753	3	1	28	1	0	0	0	0	1	0	0	0	10916	536	19	1	368	1	OR10Q1	11	57995753	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	112	57995753	77010763	290	12253										
OR5B3	441608	broad.mit.edu	37	chr11	58170746	58170746	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gacaggaatcccagaatatcAatacaataattcccaggttt	6	9	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:58170746A>C	uc010rkf.1	-	1	137	c.137T>G	c.(136-138)TTG>TGG	p.L46W		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	46	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CCAGAATATCAATACAATAAT	0.423													41	40	---	---	---	---	PASS	C	58170746	C	C	58170746	3	2	28	1	0	0	0	0	1	0	0	0	11152	131	5	5	809	5	OR5B3	11	58170746	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	174993	58170746	76835770	291	12254										
DAGLA	747	broad.mit.edu	37	chr11	61488164	61488165	+	Frame_Shift_Ins	INS	-	C	C													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgacaggtttgtgatcctgtINSccgtggtgctcttcggcctg							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:61488164_61488165insC	uc001nsa.2	+	3	220_221	c.109_110insC	c.(109-111)TCCfs	p.S37fs		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	37	Helical; (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		TGTGATCCTGTCCGTGGTGCTC	0.639													22	17	---	---	---	---		C	61488165	C	C	61488164	7	5	28	1	0	1	1	0	0	0	0	0	4226	1667	58	0	115	0	DAGLA	11	61488164	Frame_Shift_Ins	INS	-	TCGA-21-5787-01A-01D-1632-08	3317418	61488164	73518352	292	12255										
SLC22A9	114571	broad.mit.edu	37	chr11	63137701	63137701	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccacatcctggacaatgacaCtgtctctgacaatgacactg	7	13	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:63137701C>G	uc001nww.2	+	1	441	c.173C>G	c.(172-174)ACT>AGT	p.T58S	SLC22A9_uc001nwx.2_RNA	NM_080866	NP_543142	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion/cation	58	Extracellular (Potential).				transmembrane transport	integral to membrane				breast(2)|large_intestine(1)	3						GACAATGACACTGTCTCTGAC	0.493													54	52	---	---	---	---	PASS	G	63137701	G	G	63137701	3	3	28	1	0	0	0	0	1	0	0	0	14461	565	20	4	175	4	SLC22A9	11	63137701	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1649537	63137701	71868815	293	12256										
KRTAP5-9	3846	broad.mit.edu	37	chr11	71259993	71259993	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aggctgtgggtcatcctgctGccagtgcagctgctgcaagc	14	12	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:71259993G>T	uc001oqs.1	+	1	528	c.290G>T	c.(289-291)TGC>TTC	p.C97F		NM_005553	NP_005544	P26371	KRA59_HUMAN	keratin associated protein 5-9	97	8 X 4 AA repeats of C-C-X-P.				epidermis development	keratin filament					0						TCATCCTGCTGCCAGTGCAGC	0.622													61	63	---	---	---	---	PASS	T	71259993	T	T	71259993	3	4	28	1	0	0	0	0	1	0	0	0	8568	1319	46	3	292	3	KRTAP5-9	11	71259993	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	8122292	71259993	63746523	294	12257										
CCDC89	220388	broad.mit.edu	37	chr11	85396052	85396052	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aggaagcagaaacttccctaTggagagagatggcggagttt	14	6	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:85396052T>A	uc001pau.1	-	1	1269	c.1122A>T	c.(1120-1122)CCA>CCT	p.P374P		NM_152723	NP_689936	Q8N998	CCD89_HUMAN	coiled-coil domain containing 89	374						cytoplasm|nucleus					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				AACTTCCCTATGGAGAGAGAT	0.418													12	21	---	---	---	---	PASS	A	85396052	A	A	85396052	2	1	28	1	0	0	0	0	0	0	0	1	2866	1451	51	5		5	CCDC89	11	85396052	Silent	SNP	T	TCGA-21-5787-01A-01D-1632-08	14136059	85396052	49610464	295	12258										
PRSS23	11098	broad.mit.edu	37	chr11	86519020	86519020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cctcagcagtagtggagatgGggcccaacaccgagactcag	13	12	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:86519020G>T	uc001pcb.2	+	2	551	c.335G>T	c.(334-336)GGG>GTG	p.G112V	PRSS23_uc001pcc.1_Intron|PRSS23_uc010rts.1_Missense_Mutation_p.G80V	NM_007173	NP_009104	O95084	PRS23_HUMAN	protease, serine, 23 precursor	112					proteolysis	extracellular region|nucleus	serine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				AGTGGAGATGGGGCCCAACAC	0.522													26	22	---	---	---	---	PASS	T	86519020	T	T	86519020	3	4	28	1	0	0	0	0	1	0	0	0	12620	1232	43	3	337	3	PRSS23	11	86519020	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1122968	86519020	48487496	296	12259										
GRM5	2915	broad.mit.edu	37	chr11	88780463	88780463	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttgcctgctgagcatctgaaGgcacaaccctcatgaaatat	8	11	2	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:88780463G>A	uc001pcq.2	-	1	778	c.578C>T	c.(577-579)CCT>CTT	p.P193L	GRM5_uc009yvm.2_Missense_Mutation_p.P193L|GRM5_uc009yvn.1_Missense_Mutation_p.P193L	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	193	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	AGCATCTGAAGGCACAACCCT	0.458													26	27	---	---	---	---	PASS	A	88780463	A	A	88780463	3	1	28	1	0	0	0	0	1	0	0	0	6800	1000	35	3	3096	3	GRM5	11	88780463	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	2261443	88780463	46226053	297	12260										
MMP12	4321	broad.mit.edu	37	chr11	102745647	102745647	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gaagcagtggcctgcaggagCagtattagaagaaacttcat	12	7	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:102745647C>A	uc001phk.2	-	1	66	c.21G>T	c.(19-21)CTG>CTT	p.L7L		NM_002426	NP_002417	P39900	MMP12_HUMAN	matrix metalloproteinase 12 preproprotein	7					positive regulation of epithelial cell proliferation involved in wound healing|proteolysis|wound healing, spreading of epidermal cells	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)	CCTGCAGGAGCAGTATTAGAA	0.408													5	2	---	---	---	---	PASS	A	102745647	A	A	102745647	2	1	28	1	0	0	0	0	0	0	0	1	9651	697	25	3		3	MMP12	11	102745647	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	13965184	102745647	32260869	298	12261										
GUCY1A2	2977	broad.mit.edu	37	chr11	106558379	106558379	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tggctttggaccagtccttaCctccaggaaatagcagatcc	9	12	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:106558379C>A	uc001pjg.1	-	8	2485	c.2095G>T	c.(2095-2097)GTA>TTA	p.V699L	GUCY1A2_uc010rvo.1_Missense_Mutation_p.V720L|GUCY1A2_uc009yxn.1_Missense_Mutation_p.V730L	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	699					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CCAGTCCTTACCTCCAGGAAA	0.458													59	78	---	---	---	---	PASS	A	106558379	A	A	106558379	3	1	28	1	0	0	0	0	1	0	0	0	6893	507	18	3	107	3	GUCY1A2	11	106558379	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3812732	106558379	28448137	299	12262										
HTR3A	3359	broad.mit.edu	37	chr11	113860388	113860388	+	Frame_Shift_Del	DEL	C	-	-													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agactggctgcgcgtgggctCcgtgctggacaagctgctat							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:113860388delC	uc010rxb.1	+	8	1687	c.1454delC	c.(1453-1455)TCCfs	p.S485fs	HTR3A_uc010rxa.1_Frame_Shift_Del_p.S453fs|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Frame_Shift_Del_p.S432fs	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	447	HA-stretch.|Cytoplasmic (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	CGCGTGGGCTCCGTGCTGGAC	0.602													28	29	---	---	---	---		-	113860388	-	-	113860388	7	5	28	1	0	1	0	1	0	0	0	0	7444	855	30	0	1510	0	HTR3A	11	113860388	Frame_Shift_Del	DEL	C	TCGA-21-5787-01A-01D-1632-08	7302009	113860388	21146128	300	12263										
APOA4	337	broad.mit.edu	37	chr11	116691973	116691973	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acgtcctcggccaagggcgcCagcctctgccgcagctcctc	11	19	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:116691973C>G	uc001pps.1	-	3	905	c.801G>C	c.(799-801)CTG>CTC	p.L267L		NM_000482	NP_000473			apolipoprotein A-IV precursor												0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		CCAAGGGCGCCAGCCTCTGCC	0.657													19	31	---	---	---	---	PASS	G	116691973	G	G	116691973	2	3	28	1	0	0	0	0	0	0	0	1	783	581	21	4		4	APOA4	11	116691973	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	2831585	116691973	18314543	301	12264										
ZNF202	7753	broad.mit.edu	37	chr11	123597134	123597134	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atagtacaaaagaagggtttTtctccagtatgtgtcctctg	9	7	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:123597134T>C	uc001pzd.1	-	9	1918	c.1518A>G	c.(1516-1518)GAA>GAG	p.E506E	ZNF202_uc001pzc.1_Silent_p.E282E|ZNF202_uc001pze.1_Silent_p.E506E|ZNF202_uc001pzf.1_Silent_p.E506E	NM_003455	NP_003446	O95125	ZN202_HUMAN	zinc finger protein 202	506					lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.03)		AGAAGGGTTTTTCTCCAGTAT	0.453													22	67	---	---	---	---	PASS	C	123597134	C	C	123597134	2	2	28	1	0	0	0	0	0	0	0	1	17760	1838	64	5		5	ZNF202	11	123597134	Silent	SNP	T	TCGA-21-5787-01A-01D-1632-08	6905161	123597134	11409382	302	12265										
KCNJ5	3762	broad.mit.edu	37	chr11	128781668	128781668	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtgtccagaggggattatacTcctcttggtccaggccatcc	11	12	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:128781668T>C	uc001qet.2	+	2	814	c.500T>C	c.(499-501)CTC>CCC	p.L167P	KCNJ5_uc009zck.2_Missense_Mutation_p.L167P|KCNJ5_uc001qew.2_Missense_Mutation_p.L167P	NM_000890	NP_000881	P48544	IRK5_HUMAN	potassium inwardly-rectifying channel J5	167	Helical; Name=M2; (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1	all_hematologic(175;0.0641)	Lung NSC(97;0.00038)|all_lung(97;0.000817)|Breast(109;0.00123)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0059)|LUSC - Lung squamous cell carcinoma(976;0.021)|Lung(977;0.0215)	Glibenclamide(DB01016)	GGGATTATACTCCTCTTGGTC	0.537													29	99	---	---	---	---	PASS	C	128781668	C	C	128781668	3	2	28	1	0	0	0	0	1	0	0	0	8054	1551	54	5	502	5	KCNJ5	11	128781668	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	5184534	128781668	6224848	303	12266										
OPCML	4978	broad.mit.edu	37	chr11	132307179	132307179	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atcgttcaacgcgctgcattCgtactccccggactggtctc	9	15	2	0	rs148167692		TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr11:132307179C>G	uc001qgs.2	-	4	651	c.601G>C	c.(601-603)GAA>CAA	p.E201Q	OPCML_uc001qgu.2_Missense_Mutation_p.E194Q|OPCML_uc010sck.1_Missense_Mutation_p.E201Q|OPCML_uc001qgt.2_Missense_Mutation_p.E200Q|OPCML_uc010scl.1_Missense_Mutation_p.E160Q	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	201	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity	p.E201K(1)		ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		GCGCTGCATTCGTACTCCCCG	0.532													33	15	---	---	---	---	PASS	G	132307179	G	G	132307179	3	3	28	1	0	0	0	0	1	0	0	0	10874	893	31	2	452	2	OPCML	11	132307179	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3525511	132307179	2699337	304	12267										
KCNA5	3741	broad.mit.edu	37	chr12	5154550	5154550	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gggtgttccgcatcttcaagCtctcccgccactccaagggg	11	15	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:5154550C>A	uc001qni.2	+	1	1466	c.1237C>A	c.(1237-1239)CTC>ATC	p.L413I		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	413	Helical; Voltage-sensor; Name=Segment S4; (Potential).					Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						CATCTTCAAGCTCTCCCGCCA	0.642													7	7	---	---	---	---	PASS	A	5154550	A	A	5154550	3	1	28	1	0	0	0	0	1	0	0	0	8006	797	28	3	1239	3	KCNA5	12	5154550	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08		5154550	128697345	305	12268										
VWF	7450	broad.mit.edu	37	chr12	6184682	6184682	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tggcagcgggcaaacaccgaGgtgctcttcagaagctggca	14	11	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:6184682G>A	uc001qnn.1	-	7	943	c.693C>T	c.(691-693)ACC>ACT	p.T231T	VWF_uc010set.1_Silent_p.T231T	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	231	VWFD 1.				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)	CAAACACCGAGGTGCTCTTCA	0.627													13	8	---	---	---	---	PASS	A	6184682	A	A	6184682	2	1	28	1	0	0	0	0	0	0	0	1	17243	987	35	3		3	VWF	12	6184682	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	1030132	6184682	127667213	306	12269										
CD163	9332	broad.mit.edu	37	chr12	7639250	7639250	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caaaatgagcagaaccagtgGcattaatggcctctccacag	9	11	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:7639250G>C	uc001qsz.3	-	10	2431	c.2303C>G	c.(2302-2304)GCC>GGC	p.A768G	CD163_uc001qta.3_Missense_Mutation_p.A768G|CD163_uc009zfw.2_Missense_Mutation_p.A801G	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	768	SRCR 7.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						AGAACCAGTGGCATTAATGGC	0.537													72	80	---	---	---	---	PASS	C	7639250	C	C	7639250	3	2	28	1	0	0	0	0	1	0	0	0	2967	1203	42	4	1195	4	CD163	12	7639250	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1454568	7639250	126212645	307	12270										
APOBEC1	339	broad.mit.edu	37	chr12	7805255	7805255	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcatggatgggtgaaaatctCtttctgacgtaaattttttt	8	5	3	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:7805255C>G	uc001qtb.2	-	3	255	c.221G>C	c.(220-222)AGA>ACA	p.R74T	APOBEC1_uc001qtc.2_Missense_Mutation_p.R29T|APOBEC1_uc010sgf.1_Missense_Mutation_p.R74T	NM_001644	NP_001635	P41238	ABEC1_HUMAN	apolipoprotein B mRNA editing enzyme	74					cytidine to uridine editing|DNA demethylation|lipid metabolic process|mRNA modification|mRNA processing|negative regulation of methylation-dependent chromatin silencing	nucleoplasm	cytidine deaminase activity|RNA binding|zinc ion binding				0						GTGAAAATCTCTTTCTGACGt	0.473													11	18	---	---	---	---	PASS	G	7805255	G	G	7805255	3	3	28	1	0	0	0	0	1	0	0	0	787	913	32	2	501	2	APOBEC1	12	7805255	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	166005	7805255	126046640	308	12271										
GYS2	2998	broad.mit.edu	37	chr12	21693479	21693479	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttgcaagaatcatctggagaAcggaaccgcctgtcaacgat	10	10	3	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:21693479A>T	uc001rfb.2	-	14	1929	c.1674T>A	c.(1672-1674)CGT>CGA	p.R558R		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	558					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						CATCTGGAGAACGGAACCGCC	0.423													56	37	---	---	---	---	PASS	T	21693479	T	T	21693479	2	4	28	1	0	0	0	0	0	0	0	1	6913	30	2	5		5	GYS2	12	21693479	Silent	SNP	A	TCGA-21-5787-01A-01D-1632-08	13888224	21693479	112158416	309	12272										
GYS2	2998	broad.mit.edu	37	chr12	21699353	21699353	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tctaacaaactcttcatagtCcatgggtagtaagggactgg	10	8	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:21699353C>G	uc001rfb.2	-	12	1729	c.1474G>C	c.(1474-1476)GAC>CAC	p.D492H		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	492					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						TCTTCATAGTCCATGGGTAGT	0.378													8	17	---	---	---	---	PASS	G	21699353	G	G	21699353	3	3	28	1	0	0	0	0	1	0	0	0	6913	855	30	2	657	2	GYS2	12	21699353	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	5874	21699353	112152542	310	12273										
BICD1	636	broad.mit.edu	37	chr12	32481359	32481359	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcgtcaaagagcagcggctcGggagctagcccccatgattg	13	12	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:32481359G>T	uc001rku.2	+	5	2051	c.1970G>T	c.(1969-1971)CGG>CTG	p.R657L	BICD1_uc001rkv.2_Missense_Mutation_p.R657L|BICD1_uc010skd.1_RNA	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	657					anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton	p.R657Q(1)		large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			GCAGCGGCTCGGGAGCTAGCC	0.502													42	27	---	---	---	---	PASS	T	32481359	T	T	32481359	3	4	28	1	0	0	0	0	1	0	0	0	1428	1116	39	1	1988	1	BICD1	12	32481359	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	10782006	32481359	101370536	311	12274										
LIMA1	51474	broad.mit.edu	37	chr12	50642452	50642452	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caatagccgatgacttgttcTtgttgacaagagaaagttct	9	7	2	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:50642452T>C	uc001rwj.3	-	2	257	c.83A>G	c.(82-84)AAG>AGG	p.K28R	LIMA1_uc001rwk.3_Missense_Mutation_p.K28R|LIMA1_uc010smr.1_RNA|LIMA1_uc010sms.1_RNA	NM_016357	NP_057441	Q9UHB6	LIMA1_HUMAN	LIM domain and actin binding 1 isoform b	28					actin filament bundle assembly|negative regulation of actin filament depolymerization|ruffle organization	cytoplasm|focal adhesion|stress fiber	actin filament binding|actin monomer binding|zinc ion binding			ovary(1)	1						TGACTTGTTCTTGTTGACAAG	0.443													45	32	---	---	---	---	PASS	C	50642452	C	C	50642452	3	2	28	1	0	0	0	0	1	0	0	0	8796	1609	56	5	2239	5	LIMA1	12	50642452	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	18161093	50642452	83209443	312	12275										
DIP2B	57609	broad.mit.edu	37	chr12	51089048	51089048	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttcttctttctttgtttttcAgaatgtaatgaataagatgc	6	5	4	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:51089048A>C	uc001rwv.2	+	15	1876	c.1720_splice	c.e15-2	p.N574_splice	DIP2B_uc009zlt.2_Splice_Site_p.N4_splice	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B							nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						TTTGTTTTTCAGAATGTAATG	0.313													58	34	---	---	---	---	PASS	C	51089048	C	C	51089048	5	2	28	1	0	0	0	0	0	0	1	0	4528	202	7	5	1776	5	DIP2B	12	51089048	Splice_Site	SNP	A	TCGA-21-5787-01A-01D-1632-08	446596	51089048	82762847	313	12276										
OR6C6	283365	broad.mit.edu	37	chr12	55688865	55688865	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acattggcgtcttgagccggGgatccagcagggtgaggatg	17	8	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:55688865G>T	uc010sph.1	-	1	152	c.152C>A	c.(151-153)CCC>CAC	p.P51H		NM_001005493	NP_001005493	A6NF89	OR6C6_HUMAN	olfactory receptor, family 6, subfamily C,	51	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|skin(1)	2						CTTGAGCCGGGGATCCAGCAG	0.413													16	19	---	---	---	---	PASS	T	55688865	T	T	55688865	3	4	28	1	0	0	0	0	1	0	0	0	11194	1232	43	3	794	3	OR6C6	12	55688865	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	4599817	55688865	78163030	314	12277										
LRP1	4035	broad.mit.edu	37	chr12	57563000	57563000	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cccagttcaagtgcaacagcGggcgttgcatccccgagcac	11	15	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:57563000G>T	uc001snd.2	+	20	3539	c.3073G>T	c.(3073-3075)GGG>TGG	p.G1025W	LRP1_uc009zpi.1_RNA	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1025	LDL-receptor class A 7.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GTGCAACAGCGGGCGTTGCAT	0.602													29	29	---	---	---	---	PASS	T	57563000	T	T	57563000	3	4	28	1	0	0	0	0	1	0	0	0	8951	1116	39	1	3151	1	LRP1	12	57563000	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1874135	57563000	76288895	315	12278										
LRP1	4035	broad.mit.edu	37	chr12	57573861	57573861	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggaccgatggtgacaacatcAgcatggccaacatggatggc	13	10	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:57573861A>T	uc001snd.2	+	31	5639	c.5173A>T	c.(5173-5175)AGC>TGC	p.S1725C		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1725	LDL-receptor class B 15.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TGACAACATCAGCATGGCCAA	0.637													73	58	---	---	---	---	PASS	T	57573861	T	T	57573861	3	4	28	1	0	0	0	0	1	0	0	0	8951	188	7	5	5295	5	LRP1	12	57573861	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	10861	57573861	76278034	316	12279										
IRAK3	11213	broad.mit.edu	37	chr12	66620557	66620557	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tattttacagagactgagaaGttctgtctgatttatccata	7	6	2	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:66620557G>A	uc001sth.2	+	7	810	c.708G>A	c.(706-708)AAG>AAA	p.K236K	IRAK3_uc010ssy.1_Silent_p.K175K	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	236	Protein kinase.				interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		AGACTGAGAAGTTCTGTCTGA	0.363													29	21	---	---	---	---	PASS	A	66620557	A	A	66620557	2	1	28	1	0	0	0	0	0	0	0	1	7824	1020	36	3		3	IRAK3	12	66620557	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	9046696	66620557	67231338	317	12280										
GRIP1	23426	broad.mit.edu	37	chr12	66788127	66788127	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aattgctccggaactttcttGctcatctgtaataaatgcca	6	10	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:66788127G>T	uc001stk.2	-	16	2075	c.1834C>A	c.(1834-1836)CAA>AAA	p.Q612K	GRIP1_uc010sta.1_Missense_Mutation_p.Q556K|GRIP1_uc001stj.2_Missense_Mutation_p.Q394K|GRIP1_uc001stl.1_Missense_Mutation_p.Q504K|GRIP1_uc001stm.2_Missense_Mutation_p.Q612K	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	664					androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		GAACTTTCTTGCTCATCTGTA	0.388													24	17	---	---	---	---	PASS	T	66788127	T	T	66788127	3	4	28	1	0	0	0	0	1	0	0	0	6787	1328	46	3	1432	3	GRIP1	12	66788127	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	167570	66788127	67063768	318	12281										
CNOT2	4848	broad.mit.edu	37	chr12	70732322	70732322	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ataataaccagcagaaaaaaGggatccaggtgttacctgat	9	7	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:70732322G>T	uc001svv.2	+	10	1579	c.1000G>T	c.(1000-1002)GGG>TGG	p.G334W	CNOT2_uc009zro.2_Missense_Mutation_p.G334W|CNOT2_uc009zrp.2_Missense_Mutation_p.G314W|CNOT2_uc009zrq.2_Missense_Mutation_p.G334W|CNOT2_uc001svw.1_Missense_Mutation_p.G74W	NM_014515	NP_055330	Q9NZN8	CNOT2_HUMAN	CCR4-NOT transcription complex, subunit 2	334					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	protein binding|RNA polymerase II transcription cofactor activity				0	Renal(347;0.236)		GBM - Glioblastoma multiforme(1;4.77e-09)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			GCAGAAAAAAGGGATCCAGGT	0.323													32	34	---	---	---	---	PASS	T	70732322	T	T	70732322	3	4	28	1	0	0	0	0	1	0	0	0	3619	1000	35	3	1034	3	CNOT2	12	70732322	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	3944195	70732322	63119573	319	12282										
TMTC2	160335	broad.mit.edu	37	chr12	83289921	83289921	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tccttctccttgcctactatGgtttgaagagcccgagcgta	9	12	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:83289921G>T	uc001szt.2	+	3	1411	c.979G>T	c.(979-981)GGT>TGT	p.G327C	TMTC2_uc001szr.1_Missense_Mutation_p.G327C|TMTC2_uc001szs.1_Missense_Mutation_p.G327C|TMTC2_uc010suk.1_Missense_Mutation_p.G82C	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	327	Helical; (Potential).					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						TGCCTACTATGGTTTGAAGAG	0.463													45	37	---	---	---	---	PASS	T	83289921	T	T	83289921	3	4	28	1	0	0	0	0	1	0	0	0	16258	1348	47	3	989	3	TMTC2	12	83289921	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	12557599	83289921	50561974	320	12283										
NTS	4922	broad.mit.edu	37	chr12	86272314	86272314	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acaatataccagctccacaaAatctgtcacagcagggcttt	6	12	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:86272314A>C	uc001tag.2	+	3	434	c.327A>C	c.(325-327)AAA>AAC	p.K109N		NM_006183	NP_006174	P30990	NEUT_HUMAN	neurotensin/neuromedin N preproprotein	109					regulation of blood vessel size|signal transduction	extracellular region|soluble fraction|transport vesicle	neuropeptide hormone activity				0						AGCTCCACAAAATCTGTCACA	0.363													37	22	---	---	---	---	PASS	C	86272314	C	C	86272314	3	2	28	1	0	0	0	0	1	0	0	0	10709	11	1	5	337	5	NTS	12	86272314	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	2982393	86272314	47579581	321	12284										
ATP2B1	490	broad.mit.edu	37	chr12	90020239	90020239	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tctatatcatacctgctttgCcaatctgaacagccagtttt	5	11	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:90020239C>A	uc001tbh.2	-	7	1302	c.1121G>T	c.(1120-1122)GGC>GTC	p.G374V	ATP2B1_uc001tbg.2_Missense_Mutation_p.G374V|ATP2B1_uc001tbf.2_Missense_Mutation_p.G44V	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	374	Helical; (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						ACCTGCTTTGCCAATCTGAAC	0.318													24	21	---	---	---	---	PASS	A	90020239	A	A	90020239	3	1	28	1	0	0	0	0	1	0	0	0	1139	739	26	3	2755	3	ATP2B1	12	90020239	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3747925	90020239	43831656	322	12285										
ELK3	2004	broad.mit.edu	37	chr12	96617398	96617398	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttgcagttgctgctggatcaGaaacatgagcatttgatctg	11	7	2	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:96617398G>A	uc001teo.1	+	2	333	c.54G>A	c.(52-54)CAG>CAA	p.Q18Q		NM_005230	NP_005221	P41970	ELK3_HUMAN	ELK3 protein	18	ETS.				negative regulation of transcription, DNA-dependent|signal transduction	mitochondrion	protein binding|purine-rich negative regulatory element binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	all_cancers(2;0.00173)					TGCTGGATCAGAAACATGAGC	0.527													22	21	---	---	---	---	PASS	A	96617398	A	A	96617398	2	1	28	1	0	0	0	0	0	0	0	1	5060	933	33	2		2	ELK3	12	96617398	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	6597159	96617398	37234497	323	12286										
C12orf48	55010	broad.mit.edu	37	chr12	102589749	102589749	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agggtgtaaatccatctgttGgaagatcaacaattggaacg	11	6	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:102589749G>T	uc001tjf.2	+	11	1532	c.1420G>T	c.(1420-1422)GGA>TGA	p.G474*	C12orf48_uc001tjg.2_Nonsense_Mutation_p.G393*|C12orf48_uc010swa.1_Nonsense_Mutation_p.G551*|C12orf48_uc001tjh.2_Nonsense_Mutation_p.G393*|C12orf48_uc010swb.1_Missense_Mutation_p.W167L|C12orf48_uc009zuc.2_Nonsense_Mutation_p.G28*|C12orf48_uc001tjj.2_Nonsense_Mutation_p.G189*|C12orf48_uc001tjk.2_3'UTR|C12orf48_uc009zud.2_Missense_Mutation_p.W281L	NM_017915	NP_060385	Q9NWS1	PR1BP_HUMAN	hypothetical protein LOC55010	474					response to DNA damage stimulus	cytoplasm|nucleus	DNA binding				0						TCCATCTGTTGGAAGATCAAC	0.313													15	18	---	---	---	---	PASS	T	102589749	T	T	102589749	4	4	28	1	0	0	0	0	0	1	0	0	1692	1349	47	3	1211	3	C12orf48	12	102589749	Nonsense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	5972351	102589749	31262146	324	12287										
HSP90B1	7184	broad.mit.edu	37	chr12	104327872	104327872	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aaatgactgaagcacaggaaGatggccagtcaacttctgaa	10	8	2	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:104327872G>C	uc001tkb.1	+	5	655	c.550G>C	c.(550-552)GAT>CAT	p.D184H	HSP90B1_uc010swg.1_Intron|HSP90B1_uc009zui.1_Missense_Mutation_p.D184H	NM_003299	NP_003290	P14625	ENPL_HUMAN	heat shock protein 90kDa beta, member 1	184					actin rod assembly|anti-apoptosis|cellular response to ATP|ER-associated protein catabolic process|protein folding|protein transport|regulation of phosphoprotein phosphatase activity|response to hypoxia|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|melanosome|microsome|midbody|perinuclear region of cytoplasm	ATP binding|calcium ion binding|low-density lipoprotein particle receptor binding|protein phosphatase binding|RNA binding|unfolded protein binding|virion binding			ovary(2)|skin(1)	3					Rifabutin(DB00615)	AGCACAGGAAGATGGCCAGTC	0.423													6	82	---	---	---	---	PASS	C	104327872	C	C	104327872	3	2	28	1	0	0	0	0	1	0	0	0	7403	942	33	2	568	2	HSP90B1	12	104327872	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1738123	104327872	29524023	325	12288										
TXNRD1	7296	broad.mit.edu	37	chr12	104709579	104709580	+	Frame_Shift_Ins	INS	-	G	G													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggaggaacatgtgtgaatgtINSgggttgcatacctaaaaaac							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:104709579_104709580insG	uc010swk.1	+	7	657_658	c.635_636insG	c.(634-636)GTGfs	p.V212fs	TXNRD1_uc010swl.1_Frame_Shift_Ins_p.V62fs|TXNRD1_uc010swm.1_Frame_Shift_Ins_p.V114fs|TXNRD1_uc010swn.1_Frame_Shift_Ins_p.V62fs|TXNRD1_uc010swo.1_Frame_Shift_Ins_p.V62fs|TXNRD1_uc010swp.1_Frame_Shift_Ins_p.V24fs|TXNRD1_uc010swq.1_Frame_Shift_Ins_p.V112fs|TXNRD1_uc001tku.2_RNA|TXNRD1_uc009zun.2_Frame_Shift_Ins_p.V128fs	NM_001093771	NP_001087240	Q16881	TRXR1_HUMAN	thioredoxin reductase 1 isoform 3	212					cell redox homeostasis|cellular lipid metabolic process|electron transport chain|nucleobase, nucleoside and nucleotide interconversion|signal transduction|transport	cytosol|nucleolus	electron carrier activity|flavin adenine dinucleotide binding|NADP binding|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity				0						TGTGTGAATGTGGGTTGCATAC	0.406													12	16	---	---	---	---		G	104709580	G	G	104709579	7	5	28	1	0	1	1	0	0	0	0	0	16804	1696	59	0	675	0	TXNRD1	12	104709579	Frame_Shift_Ins	INS	-	TCGA-21-5787-01A-01D-1632-08	381707	104709579	29142316	326	12289										
USP30	84749	broad.mit.edu	37	chr12	109520495	109520495	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccaagggaacgttgaacgggGaaaaggtggaacaccagagg	16	7	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:109520495G>T	uc010sxi.1	+	10	999	c.895G>T	c.(895-897)GAA>TAA	p.E299*	USP30_uc001tnu.3_Nonsense_Mutation_p.E268*|USP30_uc001tnw.3_Nonsense_Mutation_p.E16*	NM_032663	NP_116052	Q70CQ3	UBP30_HUMAN	ubiquitin specific peptidase 30	299	Cytoplasmic (Potential).				ubiquitin-dependent protein catabolic process	integral to membrane|mitochondrial outer membrane	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(1)	1						GTTGAACGGGGAAAAGGTGGA	0.463													9	15	---	---	---	---	PASS	T	109520495	T	T	109520495	4	4	28	1	0	0	0	0	0	1	0	0	17058	1175	41	2	933	2	USP30	12	109520495	Nonsense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	4810916	109520495	24331400	327	12290										
DDX54	79039	broad.mit.edu	37	chr12	113612734	113612734	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agccggatgagcacgggctcCgtgaggcctgcaggagacat	16	11	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:113612734C>A	uc001tup.2	-	9	910	c.882G>T	c.(880-882)ACG>ACT	p.T294T	DDX54_uc001tuq.3_Silent_p.T294T	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	294	Helicase ATP-binding.				estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						GCACGGGCTCCGTGAGGCCTG	0.488											OREG0022139	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	5	---	---	---	---	PASS	A	113612734	A	A	113612734	2	1	28	1	0	0	0	0	0	0	0	1	4372	639	23	1		1	DDX54	12	113612734	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	4092239	113612734	20239161	328	12291										
MMP17	4326	broad.mit.edu	37	chr12	132335647	132335647	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggggccccgcgcccctccagGacaacatgaccagagccgct	12	18	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr12:132335647G>T	uc001ujc.1	+	10	1739	c.1640G>T	c.(1639-1641)GGA>GTA	p.G547V	MMP17_uc001ujd.1_Missense_Mutation_p.G463V	NM_016155	NP_057239	Q9ULZ9	MMP17_HUMAN	matrix metalloproteinase 17 preproprotein	547					proteolysis	anchored to membrane|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.82e-07)|Epithelial(86;1.51e-06)|all cancers(50;2.35e-05)		GCCCCTCCAGGACAACATGAC	0.706													6	3	---	---	---	---	PASS	T	132335647	T	T	132335647	3	4	28	1	0	0	0	0	1	0	0	0	9656	1174	41	2	1678	2	MMP17	12	132335647	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	18722913	132335647	1516248	329	12292										
BRCA2	675	broad.mit.edu	37	chr13	32914784	32914784	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtcttcactattcacctacgTctagacaaaatgtatcaaaa	4	10	5	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr13:32914784T>A	uc001uub.1	+	11	6519	c.6292T>A	c.(6292-6294)TCT>ACT	p.S2098T		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2098					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TTCACCTACGTCTAGACAAAA	0.348			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			16	30	---	---	---	---	PASS	A	32914784	A	A	32914784	3	1	28	1	0	0	0	0	1	0	0	0	1499	1667	58	5	6330	5	BRCA2	13	32914784	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08		32914784	82255094	330	12293										
PCDH17	27253	broad.mit.edu	37	chr13	58208879	58208879	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gccgtcaagtgcaagcgcgaGaacaaggagatccgcactta	12	11	1	2	rs150039929	byFrequency	TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr13:58208879G>A	uc001vhq.1	+	1	3091	c.2199G>A	c.(2197-2199)GAG>GAA	p.E733E	PCDH17_uc010aec.1_Silent_p.E733E	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	733	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GCAAGCGCGAGAACAAGGAGA	0.557													9	21	---	---	---	---	PASS	A	58208879	A	A	58208879	2	1	28	1	0	0	0	0	0	0	0	1	11512	933	33	2		2	PCDH17	13	58208879	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	25294095	58208879	56960999	331	12294										
KLHL1	57626	broad.mit.edu	37	chr13	70535578	70535578	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gactgaactcagaacaagccTgaaagagtcacaggttctaa	9	9	3	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr13:70535578T>C	uc001vip.2	-	3	1475	c.681_splice	c.e3-1	p.R227_splice	KLHL1_uc010thm.1_Splice_Site_p.R166_splice	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein						actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		AGAACAAGCCTGAAAGAGTCA	0.418													3	25	---	---	---	---	PASS	C	70535578	C	C	70535578	5	2	28	1	0	0	0	0	0	0	1	0	8365	1594	55	5	1603	5	KLHL1	13	70535578	Splice_Site	SNP	T	TCGA-21-5787-01A-01D-1632-08	12326699	70535578	44634300	332	12295										
CLYBL	171425	broad.mit.edu	37	chr13	100518518	100518518	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aacaagtagtaaagaaacccTggatattctctacgcccggc	8	11	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr13:100518518T>A	uc001vok.2	+	6	673	c.659T>A	c.(658-660)CTG>CAG	p.L220Q	CLYBL_uc010tix.1_Missense_Mutation_p.W221R|CLYBL_uc010tiy.1_Missense_Mutation_p.L186Q	NM_206808	NP_996531	Q8N0X4	CLYBL_HUMAN	citrate lyase beta like precursor	220					cellular aromatic compound metabolic process	citrate lyase complex|mitochondrion	citrate (pro-3S)-lyase activity|metal ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					AAAGAAACCCTGGATATTCTC	0.423													22	37	---	---	---	---	PASS	A	100518518	A	A	100518518	3	1	28	1	0	0	0	0	1	0	0	0	3573	1580	55	5	681	5	CLYBL	13	100518518	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	29982940	100518518	14651360	333	12296										
CLYBL	171425	broad.mit.edu	37	chr13	100543577	100543577	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttctctgttttccagggggcCtttactttccaagggagtat	10	9	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr13:100543577C>A	uc001vok.2	+	8	947	c.933C>A	c.(931-933)GCC>GCA	p.A311A		NM_206808	NP_996531	Q8N0X4	CLYBL_HUMAN	citrate lyase beta like precursor	311					cellular aromatic compound metabolic process	citrate lyase complex|mitochondrion	citrate (pro-3S)-lyase activity|metal ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TCCAGGGGGCCTTTACTTTCC	0.413													3	41	---	---	---	---	PASS	A	100543577	A	A	100543577	2	1	28	1	0	0	0	0	0	0	0	1	3573	668	24	3		3	CLYBL	13	100543577	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	25059	100543577	14626301	334	12297										
OR4K14	122740	broad.mit.edu	37	chr14	20483023	20483023	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	accaggagcaccatctcagcCccaccagtaaagtgcaagaa	8	14	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:20483023C>A	uc010tky.1	-	1	330	c.330G>T	c.(328-330)GGG>GGT	p.G110G		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		CCATCTCAGCCCCACCAGTAA	0.453													9	24	---	---	---	---	PASS	A	20483023	A	A	20483023	2	1	28	1	0	0	0	0	0	0	0	1	11069	610	22	3		3	OR4K14	14	20483023	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08		20483023	86866517	335	12298										
OR10G3	26533	broad.mit.edu	37	chr14	22038649	22038649	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgaggcgagggacaatgatgGaggagatgctcatatcaatg	15	5	2	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:22038649G>T	uc010tmb.1	-	1	227	c.227C>A	c.(226-228)TCC>TAC	p.S76Y		NM_001005465	NP_001005465	Q8NGC4	O10G3_HUMAN	olfactory receptor, family 10, subfamily G,	76	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|central_nervous_system(1)	2	all_cancers(95;0.000987)			GBM - Glioblastoma multiforme(265;0.0139)		GACAATGATGGAGGAGATGCT	0.478													7	20	---	---	---	---	PASS	T	22038649	T	T	22038649	3	4	28	1	0	0	0	0	1	0	0	0	10900	1174	41	2	717	2	OR10G3	14	22038649	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1555626	22038649	85310891	336	12299										
C14orf93	60686	broad.mit.edu	37	chr14	23465173	23465173	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcacagagagtacaagatccCgcttgcgcctggagttcttc	10	12	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:23465173C>T	uc001wib.1	-	3	1212	c.902G>A	c.(901-903)CGG>CAG	p.R301Q	C14orf93_uc001wic.1_Missense_Mutation_p.R121Q|C14orf93_uc001wid.1_Missense_Mutation_p.R301Q|C14orf93_uc001wig.2_Missense_Mutation_p.R301Q|C14orf93_uc001wih.2_Missense_Mutation_p.R301Q|C14orf93_uc001wie.2_Missense_Mutation_p.R301Q|C14orf93_uc001wia.3_Missense_Mutation_p.R301Q|C14orf93_uc001wif.2_Missense_Mutation_p.R121Q	NM_021944	NP_068763	Q9H972	CN093_HUMAN	hypothetical protein LOC60686 precursor	301						extracellular region				ovary(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.0127)		TACAAGATCCCGCTTGCGCCT	0.527													10	65	---	---	---	---	PASS	T	23465173	T	T	23465173	3	4	28	1	0	0	0	0	1	0	0	0	1782	652	23	1	734	1	C14orf93	14	23465173	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1426524	23465173	83884367	337	12300										
HEATR5A	25938	broad.mit.edu	37	chr14	31856449	31856449	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgaaacacaacggcgacagcAgacggcatcgatctgagttt	11	10	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:31856449A>G	uc001wrf.3	-	2	264	c.187T>C	c.(187-189)TGC>CGC	p.C63R	HEATR5A_uc010ami.2_5'UTR|HEATR5A_uc001wrg.1_5'UTR|HEATR5A_uc010tpk.1_Missense_Mutation_p.C356R	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	350							binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		CGGCGACAGCAGACGGCATCG	0.458													7	56	---	---	---	---	PASS	G	31856449	G	G	31856449	3	3	28	1	0	0	0	0	1	0	0	0	7031	188	7	5	5190	5	HEATR5A	14	31856449	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	8391276	31856449	75493091	338	12301										
NUBPL	80224	broad.mit.edu	37	chr14	32034246	32034246	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttgcacttgcactagcagcgAacgattcggtaggtgtttat	11	8	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:32034246A>T	uc001wrk.3	+	3	338	c.283A>T	c.(283-285)AAC>TAC	p.N95Y	NUBPL_uc010amj.2_RNA	NM_025152	NP_079428	Q8TB37	NUBPL_HUMAN	nucleotide binding protein-like	95					mitochondrial respiratory chain complex I assembly|mitochondrion morphogenesis	mitochondrion	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding				0	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.214)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0677)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0102)		ACTAGCAGCGAACGATTCGGT	0.234													19	40	---	---	---	---	PASS	T	32034246	T	T	32034246	3	4	28	1	0	0	0	0	1	0	0	0	10717	246	9	5	293	5	NUBPL	14	32034246	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	177797	32034246	75315294	339	12302										
NIN	51199	broad.mit.edu	37	chr14	51210134	51210134	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aacaagaattgtccatgtacCttttcctgagaagccaccag	7	11	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:51210134C>A	uc001wym.2	-	24	5492	c.5301G>T	c.(5299-5301)AAG>AAT	p.K1767N	NIN_uc001wyi.2_Missense_Mutation_p.K1767N|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.K1054N|NIN_uc010tqp.1_Missense_Mutation_p.K1773N|NIN_uc001wyo.2_Missense_Mutation_p.K1767N	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1767	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					GTCCATGTACCTTTTCCTGAG	0.433			T	PDGFRB	MPD								14	25	---	---	---	---	PASS	A	51210134	A	A	51210134	3	1	28	1	0	0	0	0	1	0	0	0	10417	695	24	3	1280	3	NIN	14	51210134	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	19175888	51210134	56139406	340	12303										
TRIM9	114088	broad.mit.edu	37	chr14	51446134	51446134	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cctgttcaggctgaccgcagGgaagaagaggccctccacgt	13	13	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:51446134G>T	uc001wyx.3	-	9	2806	c.2041C>A	c.(2041-2043)CCT>ACT	p.P681T	TRIM9_uc001wyy.2_Missense_Mutation_p.P762T	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	681	B30.2/SPRY.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					CTGACCGCAGGGAAGAAGAGG	0.507													42	80	---	---	---	---	PASS	T	51446134	T	T	51446134	3	4	28	1	0	0	0	0	1	0	0	0	16546	1232	43	3	99	3	TRIM9	14	51446134	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	236000	51446134	55903406	341	12304										
TXNDC16	57544	broad.mit.edu	37	chr14	52907324	52907324	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atgaatccaagtatttctgcTttaccagtgtcaatattgct	6	8	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:52907324T>G	uc001wzs.2	-	19	2410	c.1961A>C	c.(1960-1962)AAG>ACG	p.K654T	TXNDC16_uc010tqu.1_Missense_Mutation_p.K649T|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	654					cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					GTATTTCTGCTTTACCAGTGT	0.294													10	28	---	---	---	---	PASS	G	52907324	G	G	52907324	3	3	28	1	0	0	0	0	1	0	0	0	16792	1609	56	5	528	5	TXNDC16	14	52907324	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	1461190	52907324	54442216	342	12305										
PSMC6	5706	broad.mit.edu	37	chr14	53178142	53178142	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttctagatatttgccgagagAggtggatccactggtttata	11	6	1	2	rs11545962		TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:53178142A>G	uc010tqx.1	+	6	383	c.383A>G	c.(382-384)GAG>GGG	p.E128G	PSMC6_uc010tqw.1_Missense_Mutation_p.E94G	NM_002806	NP_002797	P62333	PRS10_HUMAN	proteasome 26S ATPase subunit 6	114					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding, bridging			lung(1)	1	Breast(41;0.176)					TTGCCGAGAGAGGTGGATCCA	0.373													27	96	---	---	---	---	PASS	G	53178142	G	G	53178142	3	3	28	1	0	0	0	0	1	0	0	0	12691	304	11	5	405	5	PSMC6	14	53178142	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	270818	53178142	54171398	343	12306										
SPTB	6710	broad.mit.edu	37	chr14	65249149	65249149	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcggagctcctggcagccgaGaggtgctgggtcttctcctt	14	12	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:65249149G>A	uc001xht.2	-	19	4179	c.4125C>T	c.(4123-4125)CTC>CTT	p.L1375L	SPTB_uc001xhr.2_Silent_p.L1375L|SPTB_uc001xhs.2_Silent_p.L1375L|SPTB_uc001xhu.2_Silent_p.L1375L|SPTB_uc010aqi.2_Silent_p.L36L	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1375	Spectrin 11.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TGGCAGCCGAGAGGTGCTGGG	0.632													20	65	---	---	---	---	PASS	A	65249149	A	A	65249149	2	1	28	1	0	0	0	0	0	0	0	1	15117	929	33	2		2	SPTB	14	65249149	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	12071007	65249149	42100391	344	12307										
PCNX	22990	broad.mit.edu	37	chr14	71514572	71514572	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggtttgaagttgctacgatcCtcttttagcagccctacata	8	10	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:71514572C>T	uc001xmo.2	+	22	4655	c.4209C>T	c.(4207-4209)TCC>TCT	p.S1403S	PCNX_uc010are.1_Silent_p.S1292S|PCNX_uc010arf.1_Silent_p.S263S	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1403						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)		TGCTACGATCCTCTTTTAGCA	0.378													19	85	---	---	---	---	PASS	T	71514572	T	T	71514572	2	4	28	1	0	0	0	0	0	0	0	1	11591	668	24	3		3	PCNX	14	71514572	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	6265423	71514572	35834968	345	12308										
LTBP2	4053	broad.mit.edu	37	chr14	75019063	75019063	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	attcgtccctgccgatgcagCggcctccgttcaggcagggg	14	14	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:75019063C>T	uc001xqa.2	-	6	1613	c.1226G>A	c.(1225-1227)CGC>CAC	p.R409H		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	409	EGF-like 2.				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GCCGATGCAGCGGCCTCCGTT	0.642													6	20	---	---	---	---	PASS	T	75019063	T	T	75019063	3	4	28	1	0	0	0	0	1	0	0	0	9074	768	27	1	4363	1	LTBP2	14	75019063	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3504491	75019063	32330477	346	12309										
TMEM63C	57156	broad.mit.edu	37	chr14	77706943	77706943	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	accttccaggactccaggatGgccaagcggtgagcaccagg	13	13	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:77706943G>T	uc001xtf.2	+	13	1268	c.1056G>T	c.(1054-1056)ATG>ATT	p.M352I	TMEM63C_uc010asq.1_Missense_Mutation_p.M352I	NM_020431	NP_065164	Q9P1W3	TM63C_HUMAN	transmembrane protein 63C	352						integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0342)		ACTCCAGGATGGCCAAGCGGT	0.627													10	13	---	---	---	---	PASS	T	77706943	T	T	77706943	3	4	28	1	0	0	0	0	1	0	0	0	16189	1348	47	3	1098	3	TMEM63C	14	77706943	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	2687880	77706943	29642597	347	12310										
C14orf174	161394	broad.mit.edu	37	chr14	77844701	77844701	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggactaaaccagactttccaGaccacaagccaagaaagtct	7	12	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:77844701G>A	uc001xtq.1	+	1	940	c.940G>A	c.(940-942)GAC>AAC	p.D314N	TMED8_uc010ast.1_5'Flank|TMED8_uc001xto.1_5'Flank	NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	314											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		AGACTTTCCAGACCACAAGCC	0.448													11	29	---	---	---	---	PASS	A	77844701	A	A	77844701	3	1	28	1	0	0	0	0	1	0	0	0	1759	942	33	2	942	2	C14orf174	14	77844701	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	137758	77844701	29504839	348	12311										
KCNK13	56659	broad.mit.edu	37	chr14	90650582	90650582	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cgcctgatcaccatcatcgcCtacatcatgaagtcgtgcca	7	15	3	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:90650582C>A	uc001xye.1	+	2	904	c.462C>A	c.(460-462)GCC>GCA	p.A154A		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	154	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				CCATCATCGCCTACATCATGA	0.572													37	56	---	---	---	---	PASS	A	90650582	A	A	90650582	2	1	28	1	0	0	0	0	0	0	0	1	8061	668	24	3		3	KCNK13	14	90650582	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	12805881	90650582	16698958	349	12312										
SLC24A4	123041	broad.mit.edu	37	chr14	92909799	92909799	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctccgtgtactacaccatctCtgtcatcgtgctcatcgtgg	8	14	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:92909799C>A	uc001yak.2	+	7	611	c.587C>A	c.(586-588)TCT>TAT	p.S196Y	SLC24A4_uc001yai.2_Missense_Mutation_p.S149Y|SLC24A4_uc010twm.1_Missense_Mutation_p.S213Y|SLC24A4_uc001yaj.2_Missense_Mutation_p.S196Y|SLC24A4_uc010auj.2_Missense_Mutation_p.S104Y|SLC24A4_uc010twn.1_Translation_Start_Site	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	213	Helical; (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		TACACCATCTCTGTCATCGTG	0.647													10	19	---	---	---	---	PASS	A	92909799	A	A	92909799	3	1	28	1	0	0	0	0	1	0	0	0	14468	913	32	2	613	2	SLC24A4	14	92909799	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	2259217	92909799	14439741	350	12313										
KIAA1409	57578	broad.mit.edu	37	chr14	94053224	94053224	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agatcaccctcaatttttagCctacattcaggaccacatgt	5	12	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:94053224C>A	uc001ybv.1	+	19	2554	c.2471C>A	c.(2470-2472)GCC>GAC	p.A824D	KIAA1409_uc001ybs.1_Missense_Mutation_p.A824D	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1001						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CAATTTTTAGCCTACATTCAG	0.353													25	113	---	---	---	---	PASS	A	94053224	A	A	94053224	3	1	28	1	0	0	0	0	1	0	0	0	8230	739	26	3	2545	3	KIAA1409	14	94053224	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1143425	94053224	13296316	351	12314										
SETD3	84193	broad.mit.edu	37	chr14	99879360	99879360	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acgcgggaaccatcctctgtGggaatttggttttgcctcgt	12	10	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr14:99879360G>A	uc001ygc.2	-	8	947	c.777C>T	c.(775-777)CCC>CCT	p.P259P	SETD3_uc001ygd.2_Silent_p.P259P|SETD3_uc001ygf.2_Silent_p.P259P	NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	259	SET.				peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				CATCCTCTGTGGGAATTTGGT	0.463													7	43	---	---	---	---	PASS	A	99879360	A	A	99879360	2	1	28	1	0	0	0	0	0	0	0	1	14132	1335	47	3		3	SETD3	14	99879360	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	5826136	99879360	7470180	352	12315										
RYR3	6263	broad.mit.edu	37	chr15	33855210	33855210	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cctgggacctctaaaaagaaAggtgagagtcagaatatctg	11	7	3	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:33855210A>C	uc001zhi.2	+	11	1215	c.1145A>C	c.(1144-1146)AAG>ACG	p.K382T	RYR3_uc010bar.2_Missense_Mutation_p.K382T	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	382	Cytoplasmic (By similarity).|MIR 5.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CTAAAAAGAAAGGTGAGAGTC	0.453													14	51	---	---	---	---	PASS	C	33855210	C	C	33855210	3	2	28	1	0	0	0	0	1	0	0	0	13770	86	3	5	1187	5	RYR3	15	33855210	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08		33855210	68676182	353	12316										
RYR3	6263	broad.mit.edu	37	chr15	33938613	33938613	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caaggtgacgcataagacatTtggcacacagaatagcaatg	10	8	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:33938613T>A	uc001zhi.2	+	29	3897	c.3827T>A	c.(3826-3828)TTT>TAT	p.F1276Y	RYR3_uc010bar.2_Missense_Mutation_p.F1276Y	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1276	4 X approximate repeats.|B30.2/SPRY 3.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CATAAGACATTTGGCACACAG	0.527													36	87	---	---	---	---	PASS	A	33938613	A	A	33938613	3	1	28	1	0	0	0	0	1	0	0	0	13770	1841	64	5	3941	5	RYR3	15	33938613	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	83403	33938613	68592779	354	12317										
C15orf41	84529	broad.mit.edu	37	chr15	36989588	36989588	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tagagaaaaacctgtccttcCtaggtaagtattattcacat	6	8	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:36989588C>A	uc001zje.3	+	8	791	c.541C>A	c.(541-543)CTA>ATA	p.L181I	C15orf41_uc001zjd.2_Missense_Mutation_p.L181I|C15orf41_uc010bbb.1_Missense_Mutation_p.L83I|C15orf41_uc001zjf.2_Missense_Mutation_p.L83I|C15orf41_uc010uci.1_Missense_Mutation_p.L83I	NM_001130010	NP_001123482	Q9Y2V0	CO041_HUMAN	hypothetical protein LOC84529 isoform 1	181							protein binding			pancreas(1)	1		all_epithelial(112;3.06e-10)|Lung NSC(122;6.48e-08)|all_lung(180;8.31e-07)|Melanoma(134;0.222)		all cancers(64;1.76e-19)|GBM - Glioblastoma multiforme(113;5.03e-07)|BRCA - Breast invasive adenocarcinoma(123;0.11)		CCTGTCCTTCCTAGGTAAGTA	0.408													13	52	---	---	---	---	PASS	A	36989588	A	A	36989588	3	1	28	1	0	0	0	0	1	0	0	0	1795	680	24	3	571	3	C15orf41	15	36989588	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3050975	36989588	65541804	355	12318										
BUB1B	701	broad.mit.edu	37	chr15	40477472	40477472	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gatgaggcttctacagcagaGttgtctaagcctacagtcca	10	10	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:40477472G>A	uc001zkx.3	+	7	1070	c.858G>A	c.(856-858)GAG>GAA	p.E286E	BUB1B_uc010ucl.1_Silent_p.E149E	NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	286					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		CTACAGCAGAGTTGTCTAAGC	0.483			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				20	68	---	---	---	---	PASS	A	40477472	A	A	40477472	2	1	28	1	0	0	0	0	0	0	0	1	1571	1020	36	3		3	BUB1B	15	40477472	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	3487884	40477472	62053920	356	12319										
PLCB2	5330	broad.mit.edu	37	chr15	40587238	40587238	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gggttcccttggggtaaatgCggctcatctggcgcttgttg	15	9	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:40587238C>T	uc001zld.2	-	18	2106	c.1805G>A	c.(1804-1806)CGC>CAC	p.R602H	PLCB2_uc010bbo.2_Missense_Mutation_p.R598H|PLCB2_uc010ucm.1_Missense_Mutation_p.R602H	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	602	PI-PLC Y-box.				activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		GGGGTAAATGCGGCTCATCTG	0.567													4	94	---	---	---	---	PASS	T	40587238	T	T	40587238	3	4	28	1	0	0	0	0	1	0	0	0	12028	768	27	1	1812	1	PLCB2	15	40587238	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	109766	40587238	61944154	357	12320										
SPTBN5	51332	broad.mit.edu	37	chr15	42168377	42168377	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctcagctgcttcgtgccgctTgagtgtctgcaggatgtttc	12	11	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:42168377T>C	uc001zos.2	-	21	4285	c.3952A>G	c.(3952-3954)AAG>GAG	p.K1318E		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	1353	Spectrin 10.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		TCGTGCCGCTTGAGTGTCTGC	0.637													11	17	---	---	---	---	PASS	C	42168377	C	C	42168377	3	2	28	1	0	0	0	0	1	0	0	0	15121	1821	63	5	7159	5	SPTBN5	15	42168377	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	1581139	42168377	60363015	358	12321										
SLC12A1	6557	broad.mit.edu	37	chr15	48533761	48533761	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	catgctggccattttcatcaCcactgttgcctacttagggg	9	12	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:48533761C>A	uc001zwn.3	+	10	1481	c.1265C>A	c.(1264-1266)ACC>AAC	p.T422N	SLC12A1_uc010uew.1_Missense_Mutation_p.T228N|SLC12A1_uc010bem.2_Missense_Mutation_p.T422N|SLC12A1_uc001zwq.3_Missense_Mutation_p.T193N|SLC12A1_uc001zwr.3_Missense_Mutation_p.T149N	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	422	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	ATTTTCATCACCACTGTTGCC	0.448													26	95	---	---	---	---	PASS	A	48533761	A	A	48533761	3	1	28	1	0	0	0	0	1	0	0	0	14382	507	18	3	1399	3	SLC12A1	15	48533761	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	6365384	48533761	53997631	359	12322										
SCG3	29106	broad.mit.edu	37	chr15	51975481	51975481	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acctgctaaaggcaataacaGaaaaggaaaaaattgagaaa	8	5	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:51975481G>A	uc002abh.2	+	4	655	c.247G>A	c.(247-249)GAA>AAA	p.E83K	SCG3_uc010ufz.1_5'UTR	NM_013243	NP_037375	Q8WXD2	SCG3_HUMAN	secretogranin III isoform 1 precursor	83					platelet activation|platelet degranulation	extracellular region|stored secretory granule				ovary(1)	1				all cancers(107;0.00488)		GGCAATAACAGAAAAGGAAAA	0.368													38	91	---	---	---	---	PASS	A	51975481	A	A	51975481	3	1	28	1	0	0	0	0	1	0	0	0	13892	943	33	2	261	2	SCG3	15	51975481	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	3441720	51975481	50555911	360	12323										
CGNL1	84952	broad.mit.edu	37	chr15	57731420	57731420	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggagtacctgattgaattcaGtaggaacttgggcaagtcaa	12	6	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:57731420G>A	uc002aeg.2	+	2	1299	c.1223G>A	c.(1222-1224)AGT>AAT	p.S408N	CGNL1_uc010bfw.2_Missense_Mutation_p.S408N	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	408	Head.					myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		ATTGAATTCAGTAGGAACTTG	0.552													12	100	---	---	---	---	PASS	A	57731420	A	A	57731420	3	1	28	1	0	0	0	0	1	0	0	0	3304	1029	36	3	1225	3	CGNL1	15	57731420	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	5755939	57731420	44799972	361	12324										
SPG21	51324	broad.mit.edu	37	chr15	65273355	65273355	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atcttactgtcatcatcatcCacaataatctggagggaagg	8	9	5	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:65273355C>A	uc002aod.2	-	3	165	c.72G>T	c.(70-72)GTG>GTT	p.V24V	SPG21_uc002aoe.2_Silent_p.V24V|SPG21_uc010bhb.2_Silent_p.V24V|SPG21_uc010bhc.2_5'UTR	NM_001127889	NP_001121361	Q9NZD8	SPG21_HUMAN	spastic paraplegia 21 isoform a	24					cell death	cytosol|endosome membrane|trans-Golgi network transport vesicle	CD4 receptor binding				0						CATCATCATCCACAATAATCT	0.408													3	46	---	---	---	---	PASS	A	65273355	A	A	65273355	2	1	28	1	0	0	0	0	0	0	0	1	15042	581	21	3		3	SPG21	15	65273355	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	7541935	65273355	37258037	362	12325										
ITGA11	22801	broad.mit.edu	37	chr15	68661615	68661615	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggtttccagtggggcgcccaCgaccagcctgggaaggaaga	16	11	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:68661615C>A	uc002ari.2	-	3	259	c.172G>T	c.(172-174)GTG>TTG	p.V58L	ITGA11_uc010bib.2_Missense_Mutation_p.V58L	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	58	FG-GAP 1.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	GGGGCGCCCACGACCAGCCTG	0.562													13	20	---	---	---	---	PASS	A	68661615	A	A	68661615	3	1	28	1	0	0	0	0	1	0	0	0	7874	536	19	1	3506	1	ITGA11	15	68661615	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3388260	68661615	33869777	363	12326										
NOX5	79400	broad.mit.edu	37	chr15	69320642	69320642	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agctgcaggaggcactgaccCtgctcatccatggcagcccc	11	16	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:69320642C>A	uc002ars.1	+	3	282	c.262C>A	c.(262-264)CTG>ATG	p.L88M	NOX5_uc002arp.1_Missense_Mutation_p.L70M|NOX5_uc002arq.1_Missense_Mutation_p.L70M|NOX5_uc010bid.1_Missense_Mutation_p.L81M|NOX5_uc002arr.1_Missense_Mutation_p.L88M|NOX5_uc010bie.1_Translation_Start_Site	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	88	Cytoplasmic (Potential).|N-terminal regulatory region; interacts with the C-terminal catalytic region in a calcium-dependent manner.|EF-hand 2.				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						GGCACTGACCCTGCTCATCCA	0.557													64	62	---	---	---	---	PASS	A	69320642	A	A	69320642	3	1	28	1	0	0	0	0	1	0	0	0	10559	680	24	3	305	3	NOX5	15	69320642	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	659027	69320642	33210750	364	12327										
ARNT2	9915	broad.mit.edu	37	chr15	80762560	80762560	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tctcgtgctttctggaaagaGagaatcatagtgaaatcgaa	10	6	3	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:80762560G>T	uc002bfr.2	+	4	362	c.196G>T	c.(196-198)GAG>TAG	p.E66*	ARNT2_uc002bfq.2_Nonsense_Mutation_p.E66*|ARNT2_uc010unm.1_Nonsense_Mutation_p.E55*|ARNT2_uc002bfs.2_Nonsense_Mutation_p.E55*	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	66	Basic motif.				central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			TCTGGAAAGAGAGAATCATAG	0.463													5	8	---	---	---	---	PASS	T	80762560	T	T	80762560	4	4	28	1	0	0	0	0	0	1	0	0	966	956	33	2	210	2	ARNT2	15	80762560	Nonsense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	11441918	80762560	21768832	365	12328										
NTRK3	4916	broad.mit.edu	37	chr15	88799374	88799374	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tacacttggctgggcaaagaGagacatccatctccgatcgc	10	12	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr15:88799374G>C	uc002bme.1	-	2	173	c.11C>G	c.(10-12)TCT>TGT	p.S4C	NTRK3_uc002bmh.2_Missense_Mutation_p.S4C|NTRK3_uc002bmf.1_Missense_Mutation_p.S4C|NTRK3_uc010bnh.1_Missense_Mutation_p.S4C|NTRK3_uc002bmg.2_Missense_Mutation_p.S4C	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	4					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)			TGGGCAAAGAGAGACATCCAT	0.348			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			7	21	---	---	---	---	PASS	C	88799374	C	C	88799374	3	2	28	1	0	0	0	0	1	0	0	0	10708	942	33	2	2842	2	NTRK3	15	88799374	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	8036814	88799374	13732018	366	12329										
UQCRC2	7385	broad.mit.edu	37	chr16	21968570	21968570	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtttagagattttattccctCaaagttgcccccaaagttaa	6	9	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:21968570C>G	uc002djx.2	+	2	184	c.48C>G	c.(46-48)CTC>CTG	p.L16L	UQCRC2_uc002djy.2_Silent_p.L16L|UQCRC2_uc010bxa.2_RNA	NM_003366	NP_003357	P22695	QCR2_HUMAN	ubiquinol-cytochrome c reductase core protein II	16					aerobic respiration|oxidative phosphorylation|proteolysis|respiratory electron transport chain|transport		metalloendopeptidase activity|zinc ion binding			large_intestine(2)	2				GBM - Glioblastoma multiforme(48;0.0264)		TTTATTCCCTCAAAGTTGCCC	0.458													5	26	---	---	---	---	PASS	G	21968570	G	G	21968570	2	3	28	1	0	0	0	0	0	0	0	1	17017	813	29	2		2	UQCRC2	16	21968570	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08		21968570	68386183	367	12330										
CACNG3	10368	broad.mit.edu	37	chr16	24358077	24358077	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gctttccgaggcgtgtgcaaGaaaatcgatcacttccctga	10	11	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:24358077G>C	uc002dmf.2	+	2	1434	c.234G>C	c.(232-234)AAG>AAC	p.K78N		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	78					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0				GBM - Glioblastoma multiforme(48;0.0809)		GCGTGTGCAAGAAAATCGATC	0.577													21	33	---	---	---	---	PASS	C	24358077	C	C	24358077	3	2	28	1	0	0	0	0	1	0	0	0	2558	933	33	2	240	2	CACNG3	16	24358077	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	2389507	24358077	65996676	368	12331										
XPO6	23214	broad.mit.edu	37	chr16	28123164	28123164	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccagtggcatctttctctgtGgggcaacagcactgggcttc	12	12	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:28123164G>A	uc002dpa.1	-	17	2816	c.2315C>T	c.(2314-2316)CCA>CTA	p.P772L	XPO6_uc002dpb.1_Missense_Mutation_p.P758L|XPO6_uc010vcp.1_Missense_Mutation_p.P772L	NM_015171	NP_055986	Q96QU8	XPO6_HUMAN	exportin 6	772					protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2						CTTTCTCTGTGGGGCAACAGC	0.567													17	21	---	---	---	---	PASS	A	28123164	A	A	28123164	3	1	28	1	0	0	0	0	1	0	0	0	17445	1348	47	3	1094	3	XPO6	16	28123164	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	3765087	28123164	62231589	369	12332										
IL27	246778	broad.mit.edu	37	chr16	28511049	28511049	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggacagcagcagcaactcccGcacggcccgagataagacga	12	14	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:28511049G>T	uc002dqc.2	-	5	678	c.655C>A	c.(655-657)CGG>AGG	p.R219R	uc010vct.1_Intron	NM_145659	NP_663634	Q8NEV9	IL27A_HUMAN	interleukin 27 precursor	219					inflammatory response|innate immune response|positive regulation of interferon-gamma biosynthetic process|regulation of defense response to virus|regulation of T cell proliferation|regulation of T-helper 1 cell differentiation	extracellular space	cytokine activity|interleukin-27 receptor binding				0						AGCAACTCCCGCACGGCCCGA	0.667													3	15	---	---	---	---	PASS	T	28511049	T	T	28511049	2	4	28	1	0	0	0	0	0	0	0	1	7680	1086	38	1		1	IL27	16	28511049	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	387885	28511049	61843704	370	12333										
ITGAX	3687	broad.mit.edu	37	chr16	31388586	31388586	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgtctacactgtggttagcaGgtcagcaggtaccccactgc	11	12	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:31388586G>T	uc002ebu.1	+	23	2856	c.2789G>T	c.(2788-2790)AGC>ATC	p.S930I	ITGAX_uc002ebt.2_Missense_Mutation_p.S930I	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	930	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GTGGTTAGCAGGTCAGCAGGT	0.498													29	38	---	---	---	---	PASS	T	31388586	T	T	31388586	3	4	28	1	0	0	0	0	1	0	0	0	7889	1014	35	3	2879	3	ITGAX	16	31388586	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	2877537	31388586	58966167	371	12334										
ZNF267	10308	broad.mit.edu	37	chr16	31925796	31925796	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	taaaatttttatatctttcaGatgtgttttcgcattataac	4	5	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:31925796G>T	uc002ecs.3	+	4	436	c.227_splice	c.e4-1	p.D76_splice		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						ATATCTTTCAGATGTGTTTTC	0.318													10	33	---	---	---	---	PASS	T	31925796	T	T	31925796	5	4	28	1	0	0	0	0	0	0	1	0	17803	956	33	2	240	2	ZNF267	16	31925796	Splice_Site	SNP	G	TCGA-21-5787-01A-01D-1632-08	537210	31925796	58428957	372	12335										
PHKB	5257	broad.mit.edu	37	chr16	47622821	47622821	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tctcattgcctccagaatacAgatgctgccctgctcccctg	7	16	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:47622821A>T	uc002eev.3	+	10	928	c.876A>T	c.(874-876)ACA>ACT	p.T292T	PHKB_uc002eeu.3_Silent_p.T285T	NM_000293	NP_000284	Q93100	KPBB_HUMAN	phosphorylase kinase, beta isoform a	292					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				TCCAGAATACAGATGCTGCCC	0.443													24	32	---	---	---	---	PASS	T	47622821	T	T	47622821	2	4	28	1	0	0	0	0	0	0	0	1	11845	175	7	5		5	PHKB	16	47622821	Silent	SNP	A	TCGA-21-5787-01A-01D-1632-08	15697025	47622821	42731932	373	12336										
MMP2	4313	broad.mit.edu	37	chr16	55523690	55523690	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aagatgtggtgtgcgaccacAgccaactacgatgatgaccg	12	10	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:55523690A>T	uc002ehz.3	+	7	1445	c.1134A>T	c.(1132-1134)ACA>ACT	p.T378T	MMP2_uc010vhd.1_Silent_p.T302T|MMP2_uc010ccc.2_Silent_p.T328T	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	378	Fibronectin type-II 3.|Collagen-binding.				angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	GTGCGACCACAGCCAACTACG	0.582													15	37	---	---	---	---	PASS	T	55523690	T	T	55523690	2	4	28	1	0	0	0	0	0	0	0	1	9658	175	7	5		5	MMP2	16	55523690	Silent	SNP	A	TCGA-21-5787-01A-01D-1632-08	7900869	55523690	34831063	374	12337										
SLC12A3	6559	broad.mit.edu	37	chr16	56926012	56926012	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cagttaaccccgtgtttgacCcagcggaggacgggaaggaa	14	10	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:56926012C>G	uc010ccm.2	+	20	2415	c.2386C>G	c.(2386-2388)CCA>GCA	p.P796A	SLC12A3_uc002ekd.3_Missense_Mutation_p.P796A|SLC12A3_uc010ccn.2_Missense_Mutation_p.P795A	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	796	Cytoplasmic (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	CGTGTTTGACCCAGCGGAGGA	0.587													34	49	---	---	---	---	PASS	G	56926012	G	G	56926012	3	3	28	1	0	0	0	0	1	0	0	0	14384	623	22	4	2464	4	SLC12A3	16	56926012	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1402322	56926012	33428741	375	12338										
CDH8	1006	broad.mit.edu	37	chr16	61859003	61859003	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caggccaccagagtgtccacCcatatctttggcttggataa	9	12	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:61859003C>A	uc002eog.1	-	5	1000	c.748G>T	c.(748-750)GGT>TGT	p.G250C	CDH8_uc002eoh.2_Missense_Mutation_p.G19C	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	250	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		GAGTGTCCACCCATATCTTTG	0.448													17	40	---	---	---	---	PASS	A	61859003	A	A	61859003	3	1	28	1	0	0	0	0	1	0	0	0	3116	623	22	3	1683	3	CDH8	16	61859003	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	4932991	61859003	28495750	376	12339										
CES3	23491	broad.mit.edu	37	chr16	66998388	66998388	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cactgtctttggtggatctgCcggtgggagcatcatctctg	13	10	4	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:66998388C>A	uc002eqt.2	+	5	762	c.689C>A	c.(688-690)GCC>GAC	p.A230D	CES3_uc010cdz.2_Missense_Mutation_p.A230D|CES3_uc010cea.2_RNA|CES3_uc010viw.1_5'Flank	NM_024922	NP_079198	Q6UWW8	EST3_HUMAN	carboxylesterase 3 precursor	230						endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity			ovary(3)|central_nervous_system(2)	5		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0488)|Epithelial(162;0.127)		GGTGGATCTGCCGGTGGGAGC	0.592													4	18	---	---	---	---	PASS	A	66998388	A	A	66998388	3	1	28	1	0	0	0	0	1	0	0	0	3271	739	26	3	707	3	CES3	16	66998388	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	5139385	66998388	23356365	377	12340										
ATP6V0D1	9114	broad.mit.edu	37	chr16	67487556	67487556	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atcgatgactgacaccgtcaGaggtgatgcctcgttggcca	12	11	1	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:67487556G>C	uc002ete.1	-	2	293	c.193C>G	c.(193-195)CTG>GTG	p.L65V	ATP6V0D1_uc010vjo.1_Missense_Mutation_p.L65V|ATP6V0D1_uc010vjn.1_5'UTR	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit	65					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		GACACCGTCAGAGGTGATGCC	0.542													14	48	---	---	---	---	PASS	C	67487556	C	C	67487556	3	2	28	1	0	0	0	0	1	0	0	0	1173	933	33	2	890	2	ATP6V0D1	16	67487556	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	489168	67487556	22867197	378	12341										
CDH1	999	broad.mit.edu	37	chr16	68844241	68844241	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctgtcatggaaggtgctcttCcaggtatatccactaatgag	10	9	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:68844241C>T	uc002ewg.1	+	6	953	c.829C>T	c.(829-831)CCA>TCA	p.P277S	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.P277S	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	277	Cadherin 2.|Extracellular (Potential).		Missing (found in gastric carcinoma cell lines).		adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.G274_P277del(2)|p.?(2)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		AGGTGCTCTTCCAGGTATATC	0.448			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				13	87	---	---	---	---	PASS	T	68844241	T	T	68844241	3	4	28	1	0	0	0	0	1	0	0	0	3095	855	30	2	851	2	CDH1	16	68844241	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1356685	68844241	21510512	379	12342										
PDPR	55066	broad.mit.edu	37	chr16	70170101	70170101	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgttgtcattgctcagagccTctgttgagttcccttctgag	10	10	4	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:70170101T>A	uc002eyf.1	+	10	1959	c.1002T>A	c.(1000-1002)CCT>CCA	p.P334P	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Silent_p.P234P|PDPR_uc002eyg.1_Silent_p.P62P	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	334					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)		GCTCAGAGCCTCTGTTGAGTT	0.443													4	9	---	---	---	---	PASS	A	70170101	A	A	70170101	2	1	28	1	0	0	0	0	0	0	0	1	11689	1538	54	5		5	PDPR	16	70170101	Silent	SNP	T	TCGA-21-5787-01A-01D-1632-08	1325860	70170101	20184652	380	12343										
KARS	3735	broad.mit.edu	37	chr16	75665710	75665710	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcccctcattccggaactggCgtccaatttcataaacccgg	7	15	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:75665710C>G	uc002feq.2	-	8	1007	c.959G>C	c.(958-960)CGC>CCC	p.R320P	KARS_uc002fer.2_Missense_Mutation_p.R348P|KARS_uc002fes.2_Missense_Mutation_p.R164P	NM_005548	NP_005539	Q15046	SYK_HUMAN	lysyl-tRNA synthetase isoform 2	320					interspecies interaction between organisms|lysyl-tRNA aminoacylation|tRNA processing	cytosol|extracellular region|mitochondrial matrix|nucleus|plasma membrane|soluble fraction	ATP binding|lysine-tRNA ligase activity|metal ion binding|tRNA binding			ovary(2)	2					L-Lysine(DB00123)	CCGGAACTGGCGTCCAATTTC	0.438													28	110	---	---	---	---	PASS	G	75665710	G	G	75665710	3	3	28	1	0	0	0	0	1	0	0	0	7980	768	27	4	862	4	KARS	16	75665710	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	5495609	75665710	14689043	381	12344										
ADAMTS18	170692	broad.mit.edu	37	chr16	77375636	77375636	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aacggtcccttctgctgcggGcataaacttggtctcacacc	9	14	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:77375636G>C	uc002ffc.3	-	11	2094	c.1675C>G	c.(1675-1677)CCC>GCC	p.P559A	ADAMTS18_uc010chc.1_Missense_Mutation_p.P147A|ADAMTS18_uc002ffe.1_Missense_Mutation_p.P255A	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	559	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TCTGCTGCGGGCATAAACTTG	0.413													11	34	---	---	---	---	PASS	C	77375636	C	C	77375636	3	2	28	1	0	0	0	0	1	0	0	0	263	1203	42	4	2042	4	ADAMTS18	16	77375636	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1709926	77375636	12979117	382	12345										
VAT1L	57687	broad.mit.edu	37	chr16	77850859	77850859	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gatggtgcgacaagggaataTtgacaaccctcccaagactc	10	11	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr16:77850859T>C	uc002ffg.1	+	2	372	c.275T>C	c.(274-276)ATT>ACT	p.I92T		NM_020927	NP_065978	Q9HCJ6	VAT1L_HUMAN	vesicle amine transport protein 1 homolog (T.	92							oxidoreductase activity|zinc ion binding			central_nervous_system(1)	1						CAAGGGAATATTGACAACCCT	0.448													14	30	---	---	---	---	PASS	C	77850859	C	C	77850859	3	2	28	1	0	0	0	0	1	0	0	0	17127	1493	52	5	281	5	VAT1L	16	77850859	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	475223	77850859	12503894	383	12346										
FAM57A	79850	broad.mit.edu	37	chr17	641263	641263	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acacatcatgcggtcattctCtttgtccttgtgccagtcgc	8	13	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:641263C>G	uc002frp.2	+	3	425	c.384C>G	c.(382-384)CTC>CTG	p.L128L	FAM57A_uc002frq.2_Silent_p.L128L|FAM57A_uc002frr.2_Silent_p.L38L	NM_024792	NP_079068	Q8TBR7	FA57A_HUMAN	family with sequence similarity 57, member A	128	TLC.|Helical; (Potential).					integral to membrane|plasma membrane					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0217)		CGGTCATTCTCTTTGTCCTTG	0.483													12	47	---	---	---	---	PASS	G	641263	G	G	641263	2	3	28	1	0	0	0	0	0	0	0	1	5588	900	32	2		2	FAM57A	17	641263	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08		641263	80553947	384	12347										
OR1G1	8390	broad.mit.edu	37	chr17	3030217	3030217	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agataatcaggcaaagcacaCaaatgagtcctgtgagaccc	9	10	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:3030217C>G	uc002fvc.1	-	1	629	c.629G>C	c.(628-630)TGT>TCT	p.C210S		NM_003555	NP_003546	P47890	OR1G1_HUMAN	olfactory receptor, family 1, subfamily G,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GCAAAGCACACAAATGAGTCC	0.507													6	33	---	---	---	---	PASS	G	3030217	G	G	3030217	3	3	28	1	0	0	0	0	1	0	0	0	10957	478	17	4	316	4	OR1G1	17	3030217	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	2388954	3030217	78164993	385	12348										
DLG4	1742	broad.mit.edu	37	chr17	7100162	7100162	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggagatgaagatgccttcacCgtcctcgccacccacgatgt	10	14	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:7100162C>G	uc002get.3	-	11	2327	c.1126G>C	c.(1126-1128)GGT>CGT	p.G376R	DLG4_uc010vtm.1_RNA|DLG4_uc010vtn.1_Missense_Mutation_p.G273R|DLG4_uc010cly.2_Missense_Mutation_p.G330R|DLG4_uc010vto.1_Missense_Mutation_p.G373R	NM_001365	NP_001356	P78352	DLG4_HUMAN	post-synaptic density protein 95 isoform 1	333	PDZ 3.				axon guidance|learning|protein complex assembly|protein localization to synapse|signal transduction|synaptic transmission	cell junction|cortical cytoskeleton|endocytic vesicle membrane|neuron spine|postsynaptic density|postsynaptic membrane|synaptosome	protein binding|protein C-terminus binding			ovary(1)|breast(1)	2						ATGCCTTCACCGTCCTCGCCA	0.642													6	7	---	---	---	---	PASS	G	7100162	G	G	7100162	3	3	28	1	0	0	0	0	1	0	0	0	4557	652	23	4	1225	4	DLG4	17	7100162	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	4069945	7100162	74095048	386	12349										
TP53	7157	broad.mit.edu	37	chr17	7578403	7578403	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agcagcgctcatggtgggggCagcgcctcacaacctccgtc	13	15	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:7578403C>T	uc002gim.2	-	5	721	c.527G>A	c.(526-528)TGC>TAC	p.C176Y	TP53_uc002gig.1_Missense_Mutation_p.C176Y|TP53_uc002gih.2_Missense_Mutation_p.C176Y|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C44Y|TP53_uc010cng.1_Missense_Mutation_p.C44Y|TP53_uc002gii.1_Missense_Mutation_p.C44Y|TP53_uc010cnh.1_Missense_Mutation_p.C176Y|TP53_uc010cni.1_Missense_Mutation_p.C176Y|TP53_uc002gij.2_Missense_Mutation_p.C176Y|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C83Y|TP53_uc002gio.2_Missense_Mutation_p.C44Y|TP53_uc010vug.1_Missense_Mutation_p.C137Y	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	176	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	CP -> FS (in a sporadic cancer; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in sporadic cancers; somatic mutation).|C -> F (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C176F(102)|p.C176Y(56)|p.C176S(19)|p.C176W(11)|p.C176R(8)|p.C176fs*71(7)|p.0?(7)|p.C176*(6)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.C176G(3)|p.C176fs*5(3)|p.R175_E180delRCPHHE(3)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.C176fs*65(1)|p.C176_P177delCP(1)|p.V173fs*69(1)|p.C176fs*68(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R174_H178>S(1)|p.C44Y(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R42fs*24(1)|p.C83Y(1)|p.C176fs*72(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R174fs*70(1)|p.C176del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.C176fs*6(1)|p.R174fs*3(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)		ATGGTGGGGGCAGCGCCTCAC	0.652		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)			16	17	---	---	---	---	PASS	T	7578403	T	T	7578403	3	4	28	1	0	0	0	0	1	0	0	0	16378	710	25	3	771	3	TP53	17	7578403	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	478241	7578403	73616807	387	12350										
CHD3	1107	broad.mit.edu	37	chr17	7802420	7802420	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggaagggctgaactggctacGcttctcctgggcccagggca	15	12	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:7802420G>T	uc002gje.2	+	14	2393	c.2243G>T	c.(2242-2244)CGC>CTC	p.R748L	CHD3_uc002gjd.2_Missense_Mutation_p.R807L|CHD3_uc002gjf.2_Missense_Mutation_p.R748L	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	748	Helicase ATP-binding.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				AACTGGCTACGCTTCTCCTGG	0.522													44	41	---	---	---	---	PASS	T	7802420	T	T	7802420	3	4	28	1	0	0	0	0	1	0	0	0	3326	1087	38	1	2578	1	CHD3	17	7802420	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	224017	7802420	73392790	388	12351										
MYH8	4626	broad.mit.edu	37	chr17	10323421	10323421	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggattccttgggctccgccaCaaagacagatgttttagcat	10	10	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:10323421C>A	uc002gmm.2	-	3	219	c.124G>T	c.(124-126)GTG>TTG	p.V42L	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	42	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GGCTCCGCCACAAAGACAGAT	0.463									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				9	203	---	---	---	---	PASS	A	10323421	A	A	10323421	3	1	28	1	0	0	0	0	1	0	0	0	10041	478	17	3	5841	3	MYH8	17	10323421	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	2521001	10323421	70871789	389	12352										
MAP2K3	5606	broad.mit.edu	37	chr17	21204287	21204287	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttctacactgtcaccttctaCggggcactattcagagaggt	9	11	4	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:21204287C>G	uc002gys.2	+	5	646	c.381C>G	c.(379-381)TAC>TAG	p.Y127*	MAP2K3_uc002gyt.2_Nonsense_Mutation_p.Y98*|MAP2K3_uc002gyu.2_Nonsense_Mutation_p.Y98*	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	127	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		TCACCTTCTACGGGGCACTAT	0.587													33	47	---	---	---	---	PASS	G	21204287	G	G	21204287	4	3	28	1	0	0	0	0	0	1	0	0	9238	547	19	4	399	4	MAP2K3	17	21204287	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	10880866	21204287	59990923	390	12353										
NOS2	4843	broad.mit.edu	37	chr17	26114756	26114756	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ttcgatagcttgaggtagaaGctcatctggaggggtaggct	15	6	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:26114756G>T	uc002gzu.2	-	5	679	c.415C>A	c.(415-417)CTT>ATT	p.L139I	NOS2_uc010crh.1_Missense_Mutation_p.L139I|NOS2_uc010wab.1_Missense_Mutation_p.L139I	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	139					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	TGAGGTAGAAGCTCATCTGGA	0.517													15	70	---	---	---	---	PASS	T	26114756	T	T	26114756	3	4	28	1	0	0	0	0	1	0	0	0	10543	971	34	3	3138	3	NOS2	17	26114756	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	4910469	26114756	55080454	391	12354										
ACACA	31	broad.mit.edu	37	chr17	35487034	35487034	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gacagccagtgcaggacagtGaaaaccccttcaaagtcatc	9	12	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:35487034G>T	uc002hnm.2	-	46	5870	c.5679C>A	c.(5677-5679)TTC>TTA	p.F1893L	ACACA_uc002hnk.2_Missense_Mutation_p.F1815L|ACACA_uc002hnl.2_Missense_Mutation_p.F1835L|ACACA_uc002hnn.2_Missense_Mutation_p.F1893L|ACACA_uc002hno.2_Missense_Mutation_p.F1930L|ACACA_uc010cuy.2_Missense_Mutation_p.F538L|ACACA_uc010wdc.1_Missense_Mutation_p.F19L	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1893	Carboxyltransferase.				acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	GCAGGACAGTGAAAACCCCTT	0.547													24	87	---	---	---	---	PASS	T	35487034	T	T	35487034	3	4	28	1	0	0	0	0	1	0	0	0	106	1281	45	2	1405	2	ACACA	17	35487034	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	9372278	35487034	45708176	392	12355										
SYNRG	11276	broad.mit.edu	37	chr17	35913322	35913322	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agccaatttcatgtcaaactGaacagagagtgcatcttcag	8	9	4	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:35913322G>A	uc002hoa.2	-	14	2586	c.2503C>T	c.(2503-2505)CAG>TAG	p.Q835*	SYNRG_uc010wde.1_Nonsense_Mutation_p.Q757*|SYNRG_uc010wdf.1_Nonsense_Mutation_p.Q757*|SYNRG_uc002hoc.2_Nonsense_Mutation_p.Q756*|SYNRG_uc002hoe.2_Nonsense_Mutation_p.Q757*|SYNRG_uc002hod.2_Nonsense_Mutation_p.Q757*|SYNRG_uc010wdg.1_Nonsense_Mutation_p.Q674*|SYNRG_uc002hob.2_Nonsense_Mutation_p.Q835*|SYNRG_uc002hof.2_Nonsense_Mutation_p.Q547*|SYNRG_uc010cvd.1_Nonsense_Mutation_p.Q635*	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	835					endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						ATGTCAAACTGAACAGAGAGT	0.473													16	74	---	---	---	---	PASS	A	35913322	A	A	35913322	4	1	28	1	0	0	0	0	0	1	0	0	15457	1299	45	2	1550	2	SYNRG	17	35913322	Nonsense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	426288	35913322	45281888	393	12356										
HOXB3	3213	broad.mit.edu	37	chr17	46629778	46629778	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agccattgctgccagggtacGaggaatagcctccgaagaga	13	10	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:46629778G>T	uc002inn.2	-	1	459	c.59C>A	c.(58-60)TCG>TAG	p.S20*	HOXB3_uc010wlm.1_Intron|HOXB3_uc010dbf.2_Nonsense_Mutation_p.S20*|HOXB3_uc010dbg.2_Nonsense_Mutation_p.S20*|HOXB3_uc002ino.2_Nonsense_Mutation_p.S20*|HOXB3_uc010wlk.1_Intron|HOXB3_uc010wll.1_Intron	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	20					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GCCAGGGTACGAGGAATAGCC	0.637													10	20	---	---	---	---	PASS	T	46629778	T	T	46629778	4	4	28	1	0	0	0	0	0	1	0	0	7302	1059	37	2	1244	2	HOXB3	17	46629778	Nonsense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	10716456	46629778	34565432	394	12357										
HOXB13	10481	broad.mit.edu	37	chr17	46805521	46805521	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agagtctgcaccacagacacGtccaggtaactggccatagg	11	12	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:46805521G>T	uc002ioa.2	-	1	591	c.435C>A	c.(433-435)GAC>GAA	p.D145E		NM_006361	NP_006352	Q92826	HXB13_HUMAN	homeobox B13	145					angiogenesis|epidermis development|response to wounding		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CCACAGACACGTCCAGGTAAC	0.607													35	75	---	---	---	---	PASS	T	46805521	T	T	46805521	3	4	28	1	0	0	0	0	1	0	0	0	7300	1136	40	1	427	1	HOXB13	17	46805521	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	175743	46805521	34389689	395	12358										
KIF2B	84643	broad.mit.edu	37	chr17	51902221	51902221	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	actctgttagggaaggatacCacaatttcagggaagggatc	12	7	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:51902221C>A	uc002iua.2	+	1	1983	c.1827C>A	c.(1825-1827)ACC>ACA	p.T609T	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	609					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						GGAAGGATACCACAATTTCAG	0.423													7	51	---	---	---	---	PASS	A	51902221	A	A	51902221	2	1	28	1	0	0	0	0	0	0	0	1	8298	581	21	3		3	KIF2B	17	51902221	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	5096700	51902221	29292989	396	12359										
KIF2B	84643	broad.mit.edu	37	chr17	51902243	51902243	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caatttcagggaagggatctAgccaatggctggaaaacatc	11	8	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:51902243A>G	uc002iua.2	+	1	2005	c.1849A>G	c.(1849-1851)AGC>GGC	p.S617G	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	617					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						GAAGGGATCTAGCCAATGGCT	0.433													21	32	---	---	---	---	PASS	G	51902243	G	G	51902243	3	3	28	1	0	0	0	0	1	0	0	0	8298	420	15	5	1851	5	KIF2B	17	51902243	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	22	51902243	29292967	397	12360										
CBX2	84733	broad.mit.edu	37	chr17	77757695	77757695	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aagaaggcccagatcctggtGgccaaacccgagctgaagga	13	11	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr17:77757695G>T	uc002jxc.2	+	5	495	c.453G>T	c.(451-453)GTG>GTT	p.V151V		NM_005189	NP_005180	Q14781	CBX2_HUMAN	chromobox homolog 2 isoform 1	151					cell differentiation|chromatin modification|development of primary sexual characteristics|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	PcG protein complex	DNA binding				0			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			AGATCCTGGTGGCCAAACCCG	0.602													10	20	---	---	---	---	PASS	T	77757695	T	T	77757695	2	4	28	1	0	0	0	0	0	0	0	1	2718	1335	47	3		3	CBX2	17	77757695	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	25855452	77757695	3437515	398	12361										
LAMA1	284217	broad.mit.edu	37	chr18	6978311	6978311	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gccccgccacgtccctcagcGtgctcaccgcgctctggctt	10	20	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr18:6978311G>A	uc002knm.2	-	43	6168	c.6074C>T	c.(6073-6075)ACG>ATG	p.T2025M	LAMA1_uc010wzj.1_Missense_Mutation_p.T1501M	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2025	Domain II and I.				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)	GTCCCTCAGCGTGCTCACCGC	0.537													15	34	---	---	---	---	PASS	A	6978311	A	A	6978311	3	1	28	1	0	0	0	0	1	0	0	0	8605	1145	40	1	3237	1	LAMA1	18	6978311	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08		6978311	71098937	399	12362										
CEP192	55125	broad.mit.edu	37	chr18	13059268	13059268	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acaggcagaagctttggccaGcaccgtcactctcactgcca	9	15	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr18:13059268G>A	uc010xac.1	+	21	4525	c.4445G>A	c.(4444-4446)AGC>AAC	p.S1482N	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.S1007N|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_5'UTR|CEP192_uc002krs.1_Missense_Mutation_p.S1223N	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1482										ovary(4)|pancreas(1)	5						GCTTTGGCCAGCACCGTCACT	0.458													17	57	---	---	---	---	PASS	A	13059268	A	A	13059268	3	1	28	1	0	0	0	0	1	0	0	0	3251	971	34	3	4523	3	CEP192	18	13059268	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	6080957	13059268	65017980	400	12363										
GALNT1	2589	broad.mit.edu	37	chr18	33271056	33271056	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cggaaagctacaccttacacGtttccaggaggcacagggca	11	12	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr18:33271056G>A	uc010dmu.2	+	8	1112	c.1059G>A	c.(1057-1059)ACG>ACA	p.T353T	GALNT1_uc002kyz.3_Silent_p.T293T|GALNT1_uc002kzb.2_Silent_p.T353T	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	353	Lumenal (Potential).				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						CACCTTACACGTTTCCAGGAG	0.403													46	57	---	---	---	---	PASS	A	33271056	A	A	33271056	2	1	28	1	0	0	0	0	0	0	0	1	6207	1132	40	1		1	GALNT1	18	33271056	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	20211788	33271056	44806192	401	12364										
DCC	1630	broad.mit.edu	37	chr18	50976950	50976950	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acctgcttgtgatcattgtgGtcaccgttggtgtcatcaca	10	10	4	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr18:50976950G>C	uc002lfe.1	+	23	3897	c.3310G>C	c.(3310-3312)GTC>CTC	p.V1104L	DCC_uc010dpf.1_Missense_Mutation_p.V739L	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1104	Helical; (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		GATCATTGTGGTCACCGTTGG	0.527													16	17	---	---	---	---	PASS	C	50976950	C	C	50976950	3	2	28	1	0	0	0	0	1	0	0	0	4282	1261	44	4	3400	4	DCC	18	50976950	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	17705894	50976950	27100298	402	12365										
VPS4B	9525	broad.mit.edu	37	chr18	61071041	61071041	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cactccatttcacatttggtCgttctataacaatggcacct	5	12	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr18:61071041C>A	uc002lix.2	-	5	643	c.383G>T	c.(382-384)CGA>CTA	p.R128L	VPS4B_uc010dpx.2_Missense_Mutation_p.R128L|VPS4B_uc010dpy.2_Missense_Mutation_p.R10L|VPS4B_uc010dpz.1_Missense_Mutation_p.R10L	NM_004869	NP_004860	O75351	VPS4B_HUMAN	vacuolar protein sorting factor 4B	128					cell cycle|cell division|cellular membrane organization|endosome to lysosome transport via multivesicular body sorting pathway|intracellular cholesterol transport|protein transport|response to lipid	cytosol|early endosome|late endosome membrane|lysosome|nucleus|vacuolar membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding			ovary(1)	1						CACATTTGGTCGTTCTATAAC	0.348													7	21	---	---	---	---	PASS	A	61071041	A	A	61071041	3	1	28	1	0	0	0	0	1	0	0	0	17210	884	31	2	979	2	VPS4B	18	61071041	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	10094091	61071041	17006207	403	12366										
RTTN	25914	broad.mit.edu	37	chr18	67813010	67813010	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gctaaaagctttaatgctagCgaacggaccctgagaacaca	9	10	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr18:67813010C>T	uc002lkp.2	-	18	2387	c.2319G>A	c.(2317-2319)TCG>TCA	p.S773S	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	773							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TTAATGCTAGCGAACGGACCC	0.383													16	41	---	---	---	---	PASS	T	67813010	T	T	67813010	2	4	28	1	0	0	0	0	0	0	0	1	13737	755	27	1		1	RTTN	18	67813010	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	6741969	67813010	10264238	404	12367										
FBXO15	201456	broad.mit.edu	37	chr18	71740710	71740710	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctactgctaatattcagtccCaaaccaatggttgatttttg	6	9	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr18:71740710C>A	uc002lle.2	-	10	1627	c.1291G>T	c.(1291-1293)GGG>TGG	p.G431W	FBXO15_uc002lld.2_RNA|FBXO15_uc002llf.2_Missense_Mutation_p.G507W	NM_152676	NP_689889	Q8NCQ5	FBX15_HUMAN	F-box protein 15 isoform 1	431										ovary(2)|pancreas(1)	3		Esophageal squamous(42;0.103)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.143)		TATTCAGTCCCAAACCAATGG	0.363													37	59	---	---	---	---	PASS	A	71740710	A	A	71740710	3	1	28	1	0	0	0	0	1	0	0	0	5728	594	21	3	17	3	FBXO15	18	71740710	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3927700	71740710	6336538	405	12368										
NFATC1	4772	broad.mit.edu	37	chr18	77211765	77211765	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggaagaagatggtcctgtctGgccacaacttcctgcaggac	12	11	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr18:77211765G>T	uc010xfg.1	+	6	2305	c.1852G>T	c.(1852-1854)GGC>TGC	p.G618C	NFATC1_uc002lnc.1_Missense_Mutation_p.G618C|NFATC1_uc010xff.1_Silent_p.L589L|NFATC1_uc002lnd.2_Missense_Mutation_p.G618C|NFATC1_uc002lne.2_Missense_Mutation_p.G146C|NFATC1_uc010xfh.1_Missense_Mutation_p.G618C|NFATC1_uc010xfi.1_Missense_Mutation_p.G605C|NFATC1_uc010xfj.1_Missense_Mutation_p.G146C|NFATC1_uc002lnf.2_Missense_Mutation_p.G605C|NFATC1_uc002lng.2_Missense_Mutation_p.G605C|NFATC1_uc010xfk.1_Missense_Mutation_p.G605C	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	618					intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		GGTCCTGTCTGGCCACAACTT	0.612													14	30	---	---	---	---	PASS	T	77211765	T	T	77211765	3	4	28	1	0	0	0	0	1	0	0	0	10361	1348	47	3	1966	3	NFATC1	18	77211765	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	5471055	77211765	865483	406	12369										
GRIN3B	116444	broad.mit.edu	37	chr19	1008638	1008638	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccctgcagatgagcatctacCacttcgcgggcctcttcgtg	10	15	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:1008638C>A	uc002lqo.1	+	7	2488	c.2488C>A	c.(2488-2490)CAC>AAC	p.H830N	uc002lqp.1_RNA	NM_138690	NP_619635	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic,	830	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|protein insertion into membrane|regulation of calcium ion transport	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|ionotropic glutamate receptor activity|neurotransmitter receptor activity				0		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Glycine(DB00145)|L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	GAGCATCTACCACTTCGCGGG	0.667													17	15	---	---	---	---	PASS	A	1008638	A	A	1008638	3	1	28	1	0	0	0	0	1	0	0	0	6784	594	21	3	2514	3	GRIN3B	19	1008638	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08		1008638	58120345	407	12370										
STK11	6794	broad.mit.edu	37	chr19	1207064	1207065	+	Frame_Shift_Ins	INS	-	C	C													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctcatcggcaagtacctgatINSgggggacctgctgggggaag							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:1207064_1207065insC	uc002lrl.1	+	1	1267_1268	c.152_153insC	c.(151-153)ATGfs	p.M51fs		NM_000455	NP_000446	Q15831	STK11_HUMAN	serine/threonine protein kinase 11	51	Protein kinase.				anoikis|cell cycle arrest|energy reserve metabolic process|insulin receptor signaling pathway|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.0?(19)|p.?(3)|p.D53fs*11(1)|p.L50_D53del(1)|p.M51fs*14(1)		lung(174)|cervix(35)|skin(15)|large_intestine(12)|pancreas(6)|gastrointestinal_tract_(site_indeterminate)(5)|stomach(4)|ovary(4)|breast(2)|upper_aerodigestive_tract(1)|testis(1)|liver(1)|biliary_tract(1)|small_intestine(1)|urinary_tract(1)|oesophagus(1)|prostate(1)|kidney(1)	266		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Renal(1328;0.0183)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.00942)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGTACCTGATGGGGGACCTGC	0.604		14	D|Mis|N|F|S		NSCLC|pancreatic	jejunal harmartoma|ovarian|testicular|pancreatic			Peutz-Jeghers_syndrome	TSP Lung(3;<1E-08)			18	13	---	---	---	---		C	1207065	C	C	1207064	7	5	28	1	0	1	1	0	0	0	0	0	15286	1464	51	0	154	0	STK11	19	1207064	Frame_Shift_Ins	INS	-	TCGA-21-5787-01A-01D-1632-08	198426	1207064	57921919	408	12371										
PCSK4	54760	broad.mit.edu	37	chr19	1483315	1483315	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agtgtggagcgcgtgcccatGgggctggtgagcgagatctc	18	9	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:1483315G>A	uc002ltb.1	-	12	1601	c.1539C>T	c.(1537-1539)CCC>CCT	p.P513P	PCSK4_uc002lsz.2_5'UTR|PCSK4_uc002lta.2_Silent_p.P325P	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	513					proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGTGCCCATGGGGCTGGTGA	0.687													9	8	---	---	---	---	PASS	A	1483315	A	A	1483315	2	1	28	1	0	0	0	0	0	0	0	1	11602	1335	47	3		3	PCSK4	19	1483315	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	276251	1483315	57645668	409	12372										
ZNF554	115196	broad.mit.edu	37	chr19	2834379	2834379	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggagagaagccctacgggtgCggtgagtgcgggaaagcctt	18	8	0	2	rs151263242	by1000genomes	TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:2834379C>T	uc002lwm.2	+	5	1344	c.1146C>T	c.(1144-1146)TGC>TGT	p.C382C	ZNF554_uc002lwl.2_Silent_p.C331C	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	382	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTACGGGTGCGGTGAGTGCG	0.542													12	27	---	---	---	---	PASS	T	2834379	T	T	2834379	2	4	28	1	0	0	0	0	0	0	0	1	17982	776	27	1		1	ZNF554	19	2834379	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	1351064	2834379	56294604	410	12373										
TIMM44	10469	broad.mit.edu	37	chr19	7997724	7997724	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtccagggatgactcactcaCccagcaagtcggtgaccttg	11	13	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:7997724C>G	uc002miz.2	-	8	864	c.862_splice	c.e8+1	p.G288_splice	TIMM44_uc002mja.2_Splice_Site_p.G28_splice|TIMM44_uc010dvx.1_Splice_Site	NM_006351	NP_006342	O43615	TIM44_HUMAN	translocase of inner mitochondrial membrane 44						protein targeting to mitochondrion	mitochondrial inner membrane presequence translocase complex|mitochondrial matrix	ATP binding|P-P-bond-hydrolysis-driven protein transmembrane transporter activity			ovary(1)	1						GACTCACTCACCCAGCAAGTC	0.637													11	43	---	---	---	---	PASS	G	7997724	G	G	7997724	5	3	28	1	0	0	0	0	0	0	1	0	15909	521	18	4	519	4	TIMM44	19	7997724	Splice_Site	SNP	C	TCGA-21-5787-01A-01D-1632-08	5163345	7997724	51131259	411	12374										
MUC16	94025	broad.mit.edu	37	chr19	9000454	9000454	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gctcttaccagaccctgaagGactctctccgtggtgttaaa	9	12	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:9000454G>T	uc002mkp.2	-	54	40734	c.40530C>A	c.(40528-40530)GTC>GTA	p.V13510V	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.V327V|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13512	SEA 10.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GACCCTGAAGGACTCTCTCCG	0.488													15	23	---	---	---	---	PASS	T	9000454	T	T	9000454	2	4	28	1	0	0	0	0	0	0	0	1	9973	1161	41	2		2	MUC16	19	9000454	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	1002730	9000454	50128529	412	12375										
MUC16	94025	broad.mit.edu	37	chr19	9006411	9006411	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gctcttgaacaagggcttgaGctgttggggagggagaggga	19	5	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:9006411G>A	uc002mkp.2	-	45	39811	c.39607C>T	c.(39607-39609)CTC>TTC	p.L13203F	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.L20F|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13205	SEA 8.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AAGGGCTTGAGCTGTTGGGGA	0.577													8	19	---	---	---	---	PASS	A	9006411	A	A	9006411	3	1	28	1	0	0	0	0	1	0	0	0	9973	985	34	3	4076	3	MUC16	19	9006411	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	5957	9006411	50122572	413	12376										
MUC16	94025	broad.mit.edu	37	chr19	9065064	9065064	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tatctgtggtgacttcagagGtggccagtatttcaactgag	12	7	3	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:9065064G>T	uc002mkp.2	-	3	22586	c.22382C>A	c.(22381-22383)ACC>AAC	p.T7461N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7463	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GACTTCAGAGGTGGCCAGTAT	0.483													28	37	---	---	---	---	PASS	T	9065064	T	T	9065064	3	4	28	1	0	0	0	0	1	0	0	0	9973	1261	44	3	21469	3	MUC16	19	9065064	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	58653	9065064	50063919	414	12377										
OR7D4	125958	broad.mit.edu	37	chr19	9325318	9325318	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acagatgtcaacaaaggacaGgttggagaggaagaagtaca	13	5	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:9325318G>T	uc002mla.1	-	1	196	c.196C>A	c.(196-198)CTG>ATG	p.L66M		NM_001005191	NP_001005191	Q8NG98	OR7D4_HUMAN	olfactory receptor, family 7, subfamily D,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						ACAAAGGACAGGTTGGAGAGG	0.552													16	38	---	---	---	---	PASS	T	9325318	T	T	9325318	3	4	28	1	0	0	0	0	1	0	0	0	11220	991	35	3	746	3	OR7D4	19	9325318	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	260254	9325318	49803665	415	12378										
CALR	811	broad.mit.edu	37	chr19	13049502	13049502	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cctcggcccgccatgctgctAtccgtgccgctgctgctcgg	12	18	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:13049502A>G	uc002mvu.2	+	1	89	c.9A>G	c.(7-9)CTA>CTG	p.L3L		NM_004343	NP_004334	P27797	CALR_HUMAN	calreticulin precursor	3					cell cycle arrest|cellular senescence|glucocorticoid receptor signaling pathway|negative regulation of neuron differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of steroid hormone receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of translation|peptide antigen assembly with MHC class I protein complex|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of phagocytosis|post-translational protein modification|protein export from nucleus|protein maturation by protein folding|protein N-linked glycosylation via asparagine|protein stabilization|regulation of apoptosis|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|extracellular space|MHC class I peptide loading complex|nucleus|perinuclear region of cytoplasm|polysome|proteinaceous extracellular matrix	androgen receptor binding|calcium ion binding|chaperone binding|complement component C1q binding|DNA binding|integrin binding|mRNA binding|protein binding involved in protein folding|sugar binding|ubiquitin protein ligase binding|unfolded protein binding|zinc ion binding			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCATGCTGCTATCCGTGCCGC	0.711											OREG0025278	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	6	---	---	---	---	PASS	G	13049502	G	G	13049502	2	3	28	1	0	0	0	0	0	0	0	1	2592	436	16	5		5	CALR	19	13049502	Silent	SNP	A	TCGA-21-5787-01A-01D-1632-08	3724184	13049502	46079481	416	12379										
IL27RA	9466	broad.mit.edu	37	chr19	14159970	14159970	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tactgccttcctccccagcaCccctagtggggccaacgctt	8	18	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:14159970C>T	uc002mxx.2	+	10	1669	c.1246C>T	c.(1246-1248)CCC>TCC	p.P416S		NM_004843	NP_004834	Q6UWB1	I27RA_HUMAN	class I cytokine receptor precursor	416	Extracellular (Potential).|Fibronectin type-III 3.				cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0						CTCCCCAGCACCCCTAGTGGG	0.642											OREG0025303	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	23	---	---	---	---	PASS	T	14159970	T	T	14159970	3	4	28	1	0	0	0	0	1	0	0	0	7681	507	18	3	1284	3	IL27RA	19	14159970	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1110468	14159970	44969013	417	12380										
OR10H5	284433	broad.mit.edu	37	chr19	15905094	15905094	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctacaccgtggccatcatccCgcgcatgctggccgacctgc	10	18	1	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:15905094C>G	uc010xos.1	+	1	236	c.236C>G	c.(235-237)CCG>CGG	p.P79R		NM_001004466	NP_001004466	Q8NGA6	O10H5_HUMAN	olfactory receptor, family 10, subfamily H,	79	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GCCATCATCCCGCGCATGCTG	0.617													34	27	---	---	---	---	PASS	G	15905094	G	G	15905094	3	3	28	1	0	0	0	0	1	0	0	0	10909	652	23	4	238	4	OR10H5	19	15905094	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	1745124	15905094	43223889	418	12381										
LRRC25	126364	broad.mit.edu	37	chr19	18507777	18507777	+	Translation_Start_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gccagggtgccccccattcaAgcaacctacgtagagacacc	9	16	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:18507777A>T	uc002niw.2	-	1	639	c.-3T>A	c.(-5--1)GCTTG>GCATG		LRRC25_uc002nix.2_Translation_Start_Site	NM_145256	NP_660299	Q8N386	LRC25_HUMAN	leucine rich repeat containing 25 precursor							integral to membrane					0						CCCCCATTCAAGCAACCTACG	0.612													10	12	---	---	---	---	PASS	T	18507777	T	T	18507777	1	4	28	1	0	0	0	0	0	0	0	0	8980	87	3	5		5	LRRC25	19	18507777	Translation_Start_Site	SNP	A	TCGA-21-5787-01A-01D-1632-08	2602683	18507777	40621206	419	12382										
LPAR2	9170	broad.mit.edu	37	chr19	19737866	19737867	+	Frame_Shift_Del	DEL	CG	-	-													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acgcccgcgaagaggtcagcCgcggccagattgccgagcag					rs148440416		TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:19737866_19737867delCG	uc002nnb.3	-	2	366_367	c.227_228delCG	c.(226-228)GCGfs	p.A76fs	LPAR2_uc002nna.3_Frame_Shift_Del_p.A76fs|LPAR2_uc002nnc.3_Frame_Shift_Del_p.A76fs	NM_004720	NP_004711	Q9HBW0	LPAR2_HUMAN	lysophosphatidic acid receptor 2	76	Helical; Name=2; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration	cell surface|integral to plasma membrane	LIM domain binding|lipid binding			ovary(1)|breast(1)	2						AGAGGTCAGCCGCGGCCAGATT	0.634													15	8	---	---	---	---		-	19737867	-	-	19737866	7	5	28	1	0	1	0	1	0	0	0	0	8905	639	23	0	835	0	LPAR2	19	19737866	Frame_Shift_Del	DEL	CG	TCGA-21-5787-01A-01D-1632-08	1230089	19737866	39391117	420	12383										
ZNF676	163223	broad.mit.edu	37	chr19	22364156	22364156	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gaatttgaacatttatgaaaGacgtttgcatatttgccaca	7	6	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:22364156G>T	uc002nqs.1	-	3	681	c.363C>A	c.(361-363)GTC>GTA	p.V121V		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	121					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				ATTTATGAAAGACGTTTGCAT	0.333													41	49	---	---	---	---	PASS	T	22364156	T	T	22364156	2	4	28	1	0	0	0	0	0	0	0	1	18080	929	33	2		2	ZNF676	19	22364156	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	2626290	22364156	36764827	421	12384										
C19orf2	8725	broad.mit.edu	37	chr19	30500150	30500150	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atgatgatgatgatgacgacGacgacgacaacattgacgac	11	8	0	6			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:30500150G>T	uc002nsr.2	+	8	955	c.925G>T	c.(925-927)GAC>TAC	p.D309Y	C19orf2_uc002nsq.2_Missense_Mutation_p.D291Y|C19orf2_uc002nss.2_Missense_Mutation_p.D269Y|C19orf2_uc002nst.2_Missense_Mutation_p.D233Y	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	309	Poly-Asp.				protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		tgatgacgacgacgacgacaa	0.254													15	20	---	---	---	---	PASS	T	30500150	T	T	30500150	3	4	28	1	0	0	0	0	1	0	0	0	1911	1058	37	2	955	2	C19orf2	19	30500150	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	8135994	30500150	28628833	422	12385										
ZNF536	9745	broad.mit.edu	37	chr19	30935706	30935706	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccagcgaccccgaggtgcctGtgcccatgggcggcatgtcc	14	16	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:30935706G>T	uc002nsu.1	+	2	1375	c.1237G>T	c.(1237-1239)GTG>TTG	p.V413L	ZNF536_uc010edd.1_Missense_Mutation_p.V413L	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	413					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CGAGGTGCCTGTGCCCATGGG	0.627													20	30	---	---	---	---	PASS	T	30935706	T	T	30935706	3	4	28	1	0	0	0	0	1	0	0	0	17971	1377	48	3	1239	3	ZNF536	19	30935706	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	435556	30935706	28193277	423	12386										
FXYD1	5348	broad.mit.edu	37	chr19	35632052	35632052	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acagactaccagtccctgcaGatcggaggcctcgtcatcgc	10	15	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:35632052G>T	uc002nyc.2	+	4	182	c.111G>T	c.(109-111)CAG>CAT	p.Q37H	LGI4_uc002nxy.1_Intron|FXYD1_uc002nyb.1_RNA|FXYD1_uc002nyd.2_Missense_Mutation_p.Q37H|FXYD7_uc010xsp.1_5'Flank|FXYD7_uc002nye.1_5'Flank|FXYD7_uc002nyf.1_5'Flank	NM_021902	NP_068702	O00168	PLM_HUMAN	phospholemman precursor	37	Helical; (Potential).				muscle contraction	chloride channel complex|integral to plasma membrane	chloride channel activity				0	all_lung(56;7.56e-09)|Lung NSC(56;1.1e-08)|Esophageal squamous(110;0.162)		Epithelial(14;2.32e-21)|OV - Ovarian serous cystadenocarcinoma(14;3.17e-20)|all cancers(14;2.43e-18)|LUSC - Lung squamous cell carcinoma(66;0.0849)			AGTCCCTGCAGATCGGAGGCC	0.458													9	30	---	---	---	---	PASS	T	35632052	T	T	35632052	3	4	28	1	0	0	0	0	1	0	0	0	6117	933	33	2	121	2	FXYD1	19	35632052	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	4696346	35632052	23496931	424	12387										
ZNF540	163255	broad.mit.edu	37	chr19	38103481	38103481	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gagtacattctagaattcatActggagagaaaccatatgaa	8	6	2	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:38103481A>T	uc002ogq.2	+	5	1632	c.1300A>T	c.(1300-1302)ACT>TCT	p.T434S	ZNF540_uc002ogu.2_Missense_Mutation_p.T434S|ZNF540_uc010efq.2_Missense_Mutation_p.T402S	NM_152606	NP_689819	Q8NDQ6	ZN540_HUMAN	zinc finger protein 540	434					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TAGAATTCATACTGGAGAGAA	0.398													20	58	---	---	---	---	PASS	T	38103481	T	T	38103481	3	4	28	1	0	0	0	0	1	0	0	0	17972	391	14	5	1314	5	ZNF540	19	38103481	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	2471429	38103481	21025502	425	12388										
ZNF607	84775	broad.mit.edu	37	chr19	38189147	38189147	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	atgtctaacaagatatgaggCacagtgaaatgccttcccac	8	10	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:38189147C>A	uc002ohc.1	-	5	2481	c.1885G>T	c.(1885-1887)GCC>TCC	p.A629S	ZNF607_uc002ohb.1_Missense_Mutation_p.A628S	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	629	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			AGATATGAGGCACAGTGAAAT	0.368													29	65	---	---	---	---	PASS	A	38189147	A	A	38189147	3	1	28	1	0	0	0	0	1	0	0	0	18030	710	25	3	209	3	ZNF607	19	38189147	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	85666	38189147	20939836	426	12389										
ZNF780A	284323	broad.mit.edu	37	chr19	40581570	40581570	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gttgaacaaggtttgagctaCgattaaaggacttcccacat	9	8	0	2	rs143775764	by1000genomes	TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:40581570C>T	uc002omy.2	-	6	1004	c.779G>A	c.(778-780)CGT>CAT	p.R260H	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.R260H|ZNF780A_uc010xvh.1_Missense_Mutation_p.R261H	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	260	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					GTTTGAGCTACGATTAAAGGA	0.403													47	123	---	---	---	---	PASS	T	40581570	T	T	40581570	3	4	28	1	0	0	0	0	1	0	0	0	18149	536	19	1	1277	1	ZNF780A	19	40581570	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	2392423	40581570	18547413	427	12390										
ATP1A3	478	broad.mit.edu	37	chr19	42485656	42485656	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccggaaagcccagagtacctGgtatttgttggtggaattga	13	7	0	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:42485656G>A	uc002osg.2	-	11	1589	c.1435C>T	c.(1435-1437)CAG>TAG	p.Q479*	ATP1A3_uc010xwf.1_Nonsense_Mutation_p.Q490*|ATP1A3_uc010xwg.1_Nonsense_Mutation_p.Q449*|ATP1A3_uc010xwh.1_Nonsense_Mutation_p.Q492*|ATP1A3_uc002osh.2_Nonsense_Mutation_p.Q479*	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	479	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						CAGAGTACCTGGTATTTGTTG	0.458													15	40	---	---	---	---	PASS	A	42485656	A	A	42485656	4	1	28	1	0	0	0	0	0	1	0	0	1130	1357	47	3	1658	3	ATP1A3	19	42485656	Nonsense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1904086	42485656	16643327	428	12391										
ZNF233	353355	broad.mit.edu	37	chr19	44777881	44777881	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agctccaaccagaactcctgTcttccctctcatgagcttac	5	16	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:44777881T>A	uc002oyz.1	+	5	1195	c.1068T>A	c.(1066-1068)TGT>TGA	p.C356*	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF233_uc002oyy.1_Nonsense_Mutation_p.C171*	NM_181756	NP_861421	A6NK53	ZN233_HUMAN	zinc finger protein 233	356	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2		Prostate(69;0.0435)|all_neural(266;0.226)				AGAACTCCTGTCTTCCCTCTC	0.502													7	46	---	---	---	---	PASS	A	44777881	A	A	44777881	4	1	28	1	0	0	0	0	0	1	0	0	17783	1673	58	5	1082	5	ZNF233	19	44777881	Nonsense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	2292225	44777881	14351102	429	12392										
APOC1	341	broad.mit.edu	37	chr19	45422442	45422442	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccccacagggagtggttttcAgagacatttcagaaagtgaa	11	8	2	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:45422442A>T	uc002pac.1	+	5	459	c.207A>T	c.(205-207)TCA>TCT	p.S69S	APOC1_uc002pad.1_Silent_p.S69S|APOC1_uc002pae.1_Silent_p.S69S|APOC1_uc002paf.1_RNA	NM_001645	NP_001636	P02654	APOC1_HUMAN	apolipoprotein C-I precursor	69					cholesterol efflux|chylomicron remnant clearance|high-density lipoprotein particle remodeling|lipoprotein metabolic process|negative regulation of cholesterol transport|negative regulation of fatty acid biosynthetic process|negative regulation of lipoprotein lipase activity|negative regulation of phosphatidylcholine catabolic process|negative regulation of receptor-mediated endocytosis|negative regulation of very-low-density lipoprotein particle clearance|phospholipid efflux|positive regulation of cholesterol esterification|very-low-density lipoprotein particle assembly|very-low-density lipoprotein particle clearance	chylomicron|endoplasmic reticulum|high-density lipoprotein particle|very-low-density lipoprotein particle	fatty acid binding|phosphatidylcholine binding|phosphatidylcholine-sterol O-acyltransferase activator activity|phospholipase inhibitor activity				0	Lung NSC(12;0.0018)|all_lung(12;0.00481)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00327)|Epithelial(262;0.174)		AGTGGTTTTCAGAGACATTTC	0.532													70	121	---	---	---	---	PASS	T	45422442	T	T	45422442	2	4	28	1	0	0	0	0	0	0	0	1	797	175	7	5		5	APOC1	19	45422442	Silent	SNP	A	TCGA-21-5787-01A-01D-1632-08	644561	45422442	13706541	430	12393										
SFRS16	11129	broad.mit.edu	37	chr19	45567390	45567390	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gatgaggaggcagccgcagcCgctgctgccgcagcagcatc	15	14	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:45567390C>T	uc002pak.2	+	12	1124	c.1026C>T	c.(1024-1026)GCC>GCT	p.A342A	SFRS16_uc002pal.2_RNA|SFRS16_uc010xxh.1_Silent_p.A280A|SFRS16_uc002pam.2_Silent_p.A342A|SFRS16_uc002pan.1_RNA	NM_007056	NP_008987	Q8N2M8	CLASR_HUMAN	splicing factor, arginine/serine-rich 16	342					mRNA processing|RNA splicing	nucleus					0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CAGCCGCAGCCGCTGCTGCCG	0.721													3	15	---	---	---	---	PASS	T	45567390	T	T	45567390	2	4	28	1	0	0	0	0	0	0	0	1	14172	639	23	1		1	SFRS16	19	45567390	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	144948	45567390	13561593	431	12394										
NUCB1	4924	broad.mit.edu	37	chr19	49422505	49422505	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aggagttcctcgcatccactCagaggaaggagtttggggac	14	9	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:49422505C>T	uc002plb.3	+	10	1036	c.964C>T	c.(964-966)CAG>TAG	p.Q322*	NUCB1_uc002pla.2_Nonsense_Mutation_p.Q322*|NUCB1_uc002plc.2_Nonsense_Mutation_p.Q322*|NUCB1_uc002pld.2_5'UTR	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	322	EF-hand 2.					ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		CGCATCCACTCAGAGGAAGGA	0.607													7	37	---	---	---	---	PASS	T	49422505	T	T	49422505	4	4	28	1	0	0	0	0	0	1	0	0	10718	827	29	2	998	2	NUCB1	19	49422505	Nonsense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	3855115	49422505	9706478	432	12395										
ALDH16A1	126133	broad.mit.edu	37	chr19	49962966	49962966	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	aagcaccagcggctgctgtgGaccctggaatccctggtgac	13	13	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:49962966G>A	uc002pnt.2	+	4	476	c.360G>A	c.(358-360)TGG>TGA	p.W120*	ALDH16A1_uc010yar.1_Nonsense_Mutation_p.W120*|ALDH16A1_uc010yas.1_5'UTR|ALDH16A1_uc010yat.1_Intron	NM_153329	NP_699160	Q8IZ83	A16A1_HUMAN	aldehyde dehydrogenase 16 family, member A1	120							oxidoreductase activity|protein binding			skin(1)	1		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00156)|GBM - Glioblastoma multiforme(486;0.0251)		GGCTGCTGTGGACCCTGGAAT	0.622													7	40	---	---	---	---	PASS	A	49962966	A	A	49962966	4	1	28	1	0	0	0	0	0	1	0	0	488	1183	41	2	374	2	ALDH16A1	19	49962966	Nonsense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	540461	49962966	9166017	433	12396										
MED25	81857	broad.mit.edu	37	chr19	50331706	50331706	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgaccgctctgcccctgcagGttcatgggcgggggtggtga	17	11	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:50331706G>C	uc002ppw.1	+	4	359	c.306G>C	c.(304-306)AAG>AAC	p.K102N	MED25_uc010ybe.1_Intron|MED25_uc002ppx.1_5'Flank	NM_030973	NP_112235	Q71SY5	MED25_HUMAN	mediator complex subunit 25	102	Interaction with the Mediator complex.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm				ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00822)|GBM - Glioblastoma multiforme(134;0.0122)		GCCCCTGCAGGTTCATGGGCG	0.607													18	141	---	---	---	---	PASS	C	50331706	C	C	50331706	3	2	28	1	0	0	0	0	1	0	0	0	9443	1275	44	4	320	4	MED25	19	50331706	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	368740	50331706	8797277	434	12397										
SYT3	84258	broad.mit.edu	37	chr19	51140631	51140631	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggtccgagaccaggatgagtGcccgccggcagaggtcatcc	15	13	1	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:51140631G>T	uc002pst.2	-	1	672	c.38C>A	c.(37-39)GCA>GAA	p.A13E	SYT3_uc002psv.2_Missense_Mutation_p.A13E|SYT3_uc010ycd.1_Missense_Mutation_p.A13E	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	13	Vesicular (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		CAGGATGAGTGCCCGCCGGCA	0.617													15	45	---	---	---	---	PASS	T	51140631	T	T	51140631	3	4	28	1	0	0	0	0	1	0	0	0	15472	1319	46	3	1766	3	SYT3	19	51140631	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	808925	51140631	7988352	435	12398										
VN1R4	317703	broad.mit.edu	37	chr19	53770079	53770079	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctcatgagaacaaaggggctGagagttgggaaacatacact	12	7	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:53770079G>T	uc010ydu.1	-	1	840	c.840C>A	c.(838-840)CTC>CTA	p.L280L		NM_173857	NP_776256	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	280	Helical; Name=7; (Potential).				response to pheromone	actin cytoskeleton|cytoplasm|integral to membrane|plasma membrane	pheromone receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.00294)		CAAAGGGGCTGAGAGTTGGGA	0.418										HNSCC(26;0.072)			8	44	---	---	---	---	PASS	T	53770079	T	T	53770079	2	4	28	1	0	0	0	0	0	0	0	1	17177	1277	45	2		2	VN1R4	19	53770079	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	2629448	53770079	5358904	436	12399										
LILRA1	11024	broad.mit.edu	37	chr19	55110733	55110733	+	Frame_Shift_Del	DEL	A	-	-													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccctcagcccaccacaaaacAagtccgattccaaggctggt					rs138750900		TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:55110733delA	uc002qgh.1	+	8	1476	c.1294delA	c.(1294-1296)AAGfs	p.K432fs	LILRA1_uc010yfh.1_Frame_Shift_Del_p.K432fs	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	432	Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		ACCACAAAACAAGTCCGATTC	0.498													6	8	---	---	---	---		-	55110733	-	-	55110733	7	5	28	1	0	1	0	1	0	0	0	0	8784	131	5	0	1320	0	LILRA1	19	55110733	Frame_Shift_Del	DEL	A	TCGA-21-5787-01A-01D-1632-08	1340654	55110733	4018250	437	12400										
LILRB1	10859	broad.mit.edu	37	chr19	55144088	55144088	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	agccccaggctgggctctccCaggccaacttcaccctgggc	11	18	2	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:55144088C>A	uc002qgj.2	+	7	1175	c.835C>A	c.(835-837)CAG>AAG	p.Q279K	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Missense_Mutation_p.Q279K|LILRB1_uc002qgk.2_Missense_Mutation_p.Q279K|LILRB1_uc002qgm.2_Missense_Mutation_p.Q279K|LILRB1_uc010erq.2_Missense_Mutation_p.Q279K|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	279	Ig-like C2-type 3.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		TGGGCTCTCCCAGGCCAACTT	0.622										HNSCC(37;0.09)			19	15	---	---	---	---	PASS	A	55144088	A	A	55144088	3	1	28	1	0	0	0	0	1	0	0	0	8790	595	21	3	853	3	LILRB1	19	55144088	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	33355	55144088	3984895	438	12401										
SBK2	646643	broad.mit.edu	37	chr19	56042609	56042609	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccaatgccgtaggccgtcacGatggctgagtgcgcgcccag	14	14	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:56042609G>A	uc010ygc.1	-	2	357	c.357C>T	c.(355-357)ATC>ATT	p.I119I		NM_001101401	NP_001094871	P0C263	SBK2_HUMAN	SH3-binding domain kinase family, member 2	119	Protein kinase.						ATP binding|protein serine/threonine kinase activity				0						AGGCCGTCACGATGGCTGAGT	0.652													5	34	---	---	---	---	PASS	A	56042609	A	A	56042609	2	1	28	1	0	0	0	0	0	0	0	1	13861	1048	37	2		2	SBK2	19	56042609	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	898521	56042609	3086374	439	12402										
ZNF773	374928	broad.mit.edu	37	chr19	58017855	58017855	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cttaaaaagacaagagggcaGggtcccagttttgaggagtt	13	6	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:58017855G>A	uc002qox.2	+	4	532	c.392G>A	c.(391-393)AGG>AAG	p.R131K	ZNF547_uc002qpm.3_Intron|ZNF773_uc002qoy.2_Missense_Mutation_p.R130K|ZNF773_uc002qoz.2_Intron	NM_198542	NP_940944	Q6PK81	ZN773_HUMAN	zinc finger protein 773	131					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)		CAAGAGGGCAGGGTCCCAGTT	0.507													17	40	---	---	---	---	PASS	A	58017855	A	A	58017855	3	1	28	1	0	0	0	0	1	0	0	0	18143	1000	35	3	406	3	ZNF773	19	58017855	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1975246	58017855	1111128	440	12403										
ZNF256	10172	broad.mit.edu	37	chr19	58453295	58453295	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cacattcatcacattgatgaGgtcttactccagtgtgaatt	7	9	3	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:58453295G>T	uc002qqu.2	-	3	1116	c.881C>A	c.(880-882)CCT>CAT	p.P294H	ZNF256_uc010euj.2_Missense_Mutation_p.P141H	NM_005773	NP_005764	Q9Y2P7	ZN256_HUMAN	zinc finger protein 256	294					multicellular organismal development|negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0155)		ACATTGATGAGGTCTTACTCC	0.398													38	85	---	---	---	---	PASS	T	58453295	T	T	58453295	3	4	28	1	0	0	0	0	1	0	0	0	17796	1000	35	3	1006	3	ZNF256	19	58453295	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	435440	58453295	675688	441	12404										
ZSCAN1	284312	broad.mit.edu	37	chr19	58549348	58549348	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cggcagttccagtaccacgtGgcgagcgggccgcacctcgc	14	16	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr19:58549348G>T	uc002qrc.1	+	3	391	c.144G>T	c.(142-144)GTG>GTT	p.V48V	ZSCAN1_uc002qra.1_Silent_p.V48V|ZSCAN1_uc002qrb.1_Silent_p.V48V	NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	48	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		AGTACCACGTGGCGAGCGGGC	0.706													4	17	---	---	---	---	PASS	T	58549348	T	T	58549348	2	4	28	1	0	0	0	0	0	0	0	1	18223	1335	47	3		3	ZSCAN1	19	58549348	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	96053	58549348	579635	442	12405										
PDYN	5173	broad.mit.edu	37	chr20	1961244	1961244	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctccttggggtcctcctcagCgagatagagtgtgccagtct	12	12	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:1961244C>G	uc010gaj.2	-	3	732	c.490G>C	c.(490-492)GCT>CCT	p.A164P	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.A164P|PDYN_uc010zpt.1_Missense_Mutation_p.A9P	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	164					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						TCCTCCTCAGCGAGATAGAGT	0.597													19	58	---	---	---	---	PASS	G	1961244	G	G	1961244	3	3	28	1	0	0	0	0	1	0	0	0	11699	768	27	4	278	4	PDYN	20	1961244	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08		1961244	61064276	443	12406										
ADRA1D	146	broad.mit.edu	37	chr20	4202246	4202246	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tggcgccctcggccacctcgTgtgggacgcctagggacaca	14	15	0	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:4202246T>A	uc002wkr.2	-	2	1698	c.1643A>T	c.(1642-1644)CAC>CTC	p.H548L		NM_000678	NP_000669	P25100	ADA1D_HUMAN	alpha-1D-adrenergic receptor	548	Cytoplasmic (By similarity).			KPPSAFREWRLLGPFRRPTTQLRAKVSSLSHKIRAGGAQRA EAACAQRSEVEAVSLGVPHEVAEGATCQAYELADYSNLRET DI -> SHPAPSASGGCWGRSGDPRPSCAPKSPACRTRSPP GARSAQRQRAPSAQRWRLCP (in Ref. 1).	cell proliferation|cell-cell signaling|DNA metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|multicellular organismal development|positive regulation of cell proliferation	integral to plasma membrane	alpha1-adrenergic receptor activity				0					Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Methotrimeprazine(DB01403)|Norepinephrine(DB00368)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)	GGCCACCTCGTGTGGGACGCC	0.682													7	26	---	---	---	---	PASS	A	4202246	A	A	4202246	3	1	28	1	0	0	0	0	1	0	0	0	336	1696	59	5	79	5	ADRA1D	20	4202246	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	2241002	4202246	58823274	444	12407										
CHGB	1114	broad.mit.edu	37	chr20	5903358	5903358	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtgaagagaaacaccttgaaGagccaggagagacacaaaac	11	8	0	5			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:5903358G>T	uc002wmg.2	+	4	874	c.568G>T	c.(568-570)GAG>TAG	p.E190*	CHGB_uc010zqz.1_5'UTR	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	190						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						ACACCTTGAAGAGCCAGGAGA	0.483													7	29	---	---	---	---	PASS	T	5903358	T	T	5903358	4	4	28	1	0	0	0	0	0	1	0	0	3339	943	33	2	582	2	CHGB	20	5903358	Nonsense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	1701112	5903358	57122162	445	12408										
SPTLC3	55304	broad.mit.edu	37	chr20	12989918	12989918	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctctgtcacttcacacccatGgctaaccctggaggtggtgc	10	14	3	0			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:12989918G>T	uc002wod.1	+	1	292	c.3G>T	c.(1-3)ATG>ATT	p.M1I	SPTLC3_uc002wob.1_RNA|SPTLC3_uc002woc.2_Missense_Mutation_p.M1I	NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	1					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	TCACACCCATGGCTAACCCTG	0.498													11	37	---	---	---	---	PASS	T	12989918	T	T	12989918	3	4	28	1	0	0	0	0	1	0	0	0	15124	1348	47	3	5	3	SPTLC3	20	12989918	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	7086560	12989918	50035602	446	12409										
PCSK2	5126	broad.mit.edu	37	chr20	17417378	17417378	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cggatgctggaccagccattCatgacagacatcatcgaggc	11	12	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:17417378C>T	uc002wpm.2	+	8	1055	c.735C>T	c.(733-735)TTC>TTT	p.F245F	PCSK2_uc002wpl.2_Silent_p.F226F|PCSK2_uc010zrm.1_Silent_p.F210F	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	245	Catalytic.				enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ACCAGCCATTCATGACAGACA	0.577													11	27	---	---	---	---	PASS	T	17417378	T	T	17417378	2	4	28	1	0	0	0	0	0	0	0	1	11601	825	29	2		2	PCSK2	20	17417378	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	4427460	17417378	45608142	447	12410										
SLC24A3	57419	broad.mit.edu	37	chr20	19677556	19677556	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cctcattgtggccagacaagGtgggacttccagtggcaatg	13	10	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:19677556G>T	uc002wrl.2	+	14	1803	c.1606_splice	c.e14+1	p.G536_splice		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24							integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						GCCAGACAAGGTGGGACTTCC	0.358													6	26	---	---	---	---	PASS	T	19677556	T	T	19677556	5	4	28	1	0	0	0	0	0	0	1	0	14467	1275	44	3	1661	3	SLC24A3	20	19677556	Splice_Site	SNP	G	TCGA-21-5787-01A-01D-1632-08	2260178	19677556	43347964	448	12411										
PYGB	5834	broad.mit.edu	37	chr20	25255237	25255237	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cttctttccaggtagaggagGccgatgactggctgcgctac	13	11	1	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:25255237G>T	uc002wup.2	+	5	647	c.538G>T	c.(538-540)GCC>TCC	p.A180S		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	180					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	GGTAGAGGAGGCCGATGACTG	0.652													8	31	---	---	---	---	PASS	T	25255237	T	T	25255237	3	4	28	1	0	0	0	0	1	0	0	0	12860	1203	42	3	556	3	PYGB	20	25255237	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	5577681	25255237	37770283	449	12412										
C20orf186	149954	broad.mit.edu	37	chr20	31673958	31673958	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cctagggggcatcaaagtcaAgctgctgcgagggtgagtgc	16	9	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:31673958A>C	uc010zue.1	+	5	929	c.914A>C	c.(913-915)AAG>ACG	p.K305T		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	305						cytoplasm|extracellular region	lipid binding				0						ATCAAAGTCAAGCTGCTGCGA	0.582													23	60	---	---	---	---	PASS	C	31673958	C	C	31673958	3	2	28	1	0	0	0	0	1	0	0	0	2098	72	3	5	932	5	C20orf186	20	31673958	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	6418721	31673958	31351562	450	12413										
GDF5	8200	broad.mit.edu	37	chr20	34022581	34022581	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tgaccacgggacctcggtcaTctagagagaacacccagaag	11	12	2	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:34022581T>A	uc002xck.1	-	2	951	c.632A>T	c.(631-633)GAT>GTT	p.D211V	GDF5_uc010gfc.1_Missense_Mutation_p.D211V|uc002xcj.2_Missense_Mutation_p.I331N|GDF5_uc010zvc.1_Missense_Mutation_p.D211V	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	211					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			ACCTCGGTCATCTAGAGAGAA	0.607													39	84	---	---	---	---	PASS	A	34022581	A	A	34022581	3	1	28	1	0	0	0	0	1	0	0	0	6316	1449	50	5	877	5	GDF5	20	34022581	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	2348623	34022581	29002939	451	12414										
PTPRT	11122	broad.mit.edu	37	chr20	40747043	40747043	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cgagtgcaggagaggcttacCctgcccacttccaccaggtt	11	14	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:40747043C>T	uc002xkg.2	-	21	3166	c.2982G>A	c.(2980-2982)AGG>AGA	p.R994R	PTPRT_uc010ggj.2_Silent_p.R1013R|PTPRT_uc010ggi.2_Silent_p.R197R	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	994	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				AGAGGCTTACCCTGCCCACTT	0.443													22	60	---	---	---	---	PASS	T	40747043	T	T	40747043	2	4	28	1	0	0	0	0	0	0	0	1	12812	637	22	3		3	PTPRT	20	40747043	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	6724462	40747043	22278477	452	12415										
NEURL2	140825	broad.mit.edu	37	chr20	44519371	44519371	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccagactggcggggtccagcGcggtcagaccgagacgcaga	16	13	1	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:44519371G>A	uc002xqg.1	-	1	531	c.260C>T	c.(259-261)GCG>GTG	p.A87V	CTSA_uc002xqh.2_5'Flank|CTSA_uc002xqj.3_5'Flank|CTSA_uc002xqi.2_5'Flank|CTSA_uc010zxi.1_5'Flank|CTSA_uc002xqk.3_5'Flank	NM_080749	NP_542787	Q9BR09	NEUL2_HUMAN	neuralized-like protein 2	87	NHR.				intracellular signal transduction						0		Myeloproliferative disorder(115;0.0122)				GGGGTCCAGCGCGGTCAGACC	0.667													15	18	---	---	---	---	PASS	A	44519371	A	A	44519371	3	1	28	1	0	0	0	0	1	0	0	0	10346	1087	38	1	605	1	NEURL2	20	44519371	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	3772328	44519371	18506149	453	12416										
CYP24A1	1591	broad.mit.edu	37	chr20	52782348	52782348	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tctggagaagcccaaatctcTtctcatacaacacgaggcag	8	12	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:52782348T>C	uc002xwv.2	-	5	1063	c.665A>G	c.(664-666)AAG>AGG	p.K222R	CYP24A1_uc002xwu.1_Missense_Mutation_p.K80R|CYP24A1_uc002xww.2_Missense_Mutation_p.K222R	NM_000782	NP_000773	Q07973	CP24A_HUMAN	cytochrome P450 family 24 subfamily A	222					hormone biosynthetic process|osteoblast differentiation|vitamin D catabolic process|vitamin D receptor signaling pathway|xenobiotic metabolic process	mitochondrial inner membrane	1-alpha,25-dihydroxyvitamin D3 24-hydroxylase activity|electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		STAD - Stomach adenocarcinoma(23;0.206)		Calcidiol(DB00146)|Calcitriol(DB00136)|Cholecalciferol(DB00169)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	CCCAAATCTCTTCTCATACAA	0.398													31	62	---	---	---	---	PASS	C	52782348	C	C	52782348	3	2	28	1	0	0	0	0	1	0	0	0	4154	1609	56	5	907	5	CYP24A1	20	52782348	Missense_Mutation	SNP	T	TCGA-21-5787-01A-01D-1632-08	8262977	52782348	10243172	454	12417										
BMP7	655	broad.mit.edu	37	chr20	55803413	55803413	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gcttccccttctgggatcttGgaaagatcaaaccggaactc	9	12	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:55803413G>T	uc010gip.1	-	2	1012	c.483C>A	c.(481-483)TCC>TCA	p.S161S	BMP7_uc010giq.1_Silent_p.S161S|BMP7_uc002xyc.2_Silent_p.S161S	NM_001719	NP_001710	P18075	BMP7_HUMAN	bone morphogenetic protein 7 precursor	161					BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)			CTGGGATCTTGGAAAGATCAA	0.522													68	112	---	---	---	---	PASS	T	55803413	T	T	55803413	2	4	28	1	0	0	0	0	0	0	0	1	1465	1335	47	3		3	BMP7	20	55803413	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	3021065	55803413	7222107	455	12418										
KCNQ2	3785	broad.mit.edu	37	chr20	62065176	62065176	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cggtacctgtacatgggcacGgtgaccgttcgctcgtagta	13	11	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:62065176G>C	uc002yey.1	-	8	1281	c.1104C>G	c.(1102-1104)ACC>ACG	p.T368T	KCNQ2_uc002yez.1_Silent_p.T368T|KCNQ2_uc002yfa.1_Silent_p.T368T|KCNQ2_uc002yfb.1_Silent_p.T368T|KCNQ2_uc011aax.1_Silent_p.T368T|KCNQ2_uc002yfc.1_Silent_p.T368T	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	368	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	ACATGGGCACGGTGACCGTTC	0.532													38	57	---	---	---	---	PASS	C	62065176	C	C	62065176	2	2	28	1	0	0	0	0	0	0	0	1	8083	1103	39	4		4	KCNQ2	20	62065176	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	6261763	62065176	960344	456	12419										
RTEL1	51750	broad.mit.edu	37	chr20	62326724	62326724	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gggaagacccagagcaagatCtcgtccttccttagacagag	11	11	1	5			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr20:62326724C>T	uc002yfu.1	+	34	3886	c.3543C>T	c.(3541-3543)ATC>ATT	p.I1181I	RTEL1_uc002yft.1_Silent_p.I1181I|RTEL1_uc011abd.1_Silent_p.I1205I|RTEL1_uc011abe.1_Silent_p.I958I|RTEL1_uc002yfw.2_RNA|RTEL1_uc002yfx.1_Silent_p.I426I|TNFRSF6B_uc002yfy.2_5'UTR|TNFRSF6B_uc002yfz.2_5'Flank	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1	1181					DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)			AGAGCAAGATCTCGTCCTTCC	0.652													10	189	---	---	---	---	PASS	T	62326724	T	T	62326724	2	4	28	1	0	0	0	0	0	0	0	1	13720	903	32	2		2	RTEL1	20	62326724	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	261548	62326724	698796	457	12420										
KRTAP19-6	337973	broad.mit.edu	37	chr21	31914084	31914084	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tagcctccacagccacagccAtagcccagaccaccaaagcc	6	19	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr21:31914084A>G	uc002yok.1	-	1	98	c.69T>C	c.(67-69)TAT>TAC	p.Y23Y		NM_181612	NP_853643	Q3LI70	KR196_HUMAN	keratin associated protein 19-6	23						intermediate filament					0						AGCCACAGCCATAGCCCAGAC	0.522													56	43	---	---	---	---	PASS	G	31914084	G	G	31914084	2	3	28	1	0	0	0	0	0	0	0	1	8533	224	8	5		5	KRTAP19-6	21	31914084	Silent	SNP	A	TCGA-21-5787-01A-01D-1632-08		31914084	16215811	458	12421										
TIAM1	7074	broad.mit.edu	37	chr21	32502633	32502633	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggaaagcctgtgagatcctaCctgcagaggagaaggaacca	13	9	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr21:32502633C>A	uc002yow.1	-	26	4415	c.3943G>T	c.(3943-3945)GTA>TTA	p.V1315L	TIAM1_uc011adk.1_Missense_Mutation_p.V1315L|TIAM1_uc011adl.1_Missense_Mutation_p.V1255L	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1315	PH 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TGAGATCCTACCTGCAGAGGA	0.527													41	29	---	---	---	---	PASS	A	32502633	A	A	32502633	3	1	28	1	0	0	0	0	1	0	0	0	15887	521	18	3	848	3	TIAM1	21	32502633	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	588549	32502633	15627262	459	12422										
HUNK	30811	broad.mit.edu	37	chr21	33296969	33296969	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ctgggggcaacctgatgcacAagatctatgagaagaagcgg	14	8	1	4			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr21:33296969A>G	uc002yph.2	+	2	811	c.451A>G	c.(451-453)AAG>GAG	p.K151E		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	151	Protein kinase.				multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						CCTGATGCACAAGATCTATGA	0.562													34	38	---	---	---	---	PASS	G	33296969	G	G	33296969	3	3	28	1	0	0	0	0	1	0	0	0	7458	131	5	5	457	5	HUNK	21	33296969	Missense_Mutation	SNP	A	TCGA-21-5787-01A-01D-1632-08	794336	33296969	14832926	460	12423										
DYRK1A	1859	broad.mit.edu	37	chr21	38878446	38878446	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gtgggagagcccggtcggatCcgacgcaccagcatcggcac	15	14	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr21:38878446C>T	uc002ywk.2	+	10	1666	c.1591C>T	c.(1591-1593)CCG>TCG	p.P531S	DYRK1A_uc002ywi.2_Missense_Mutation_p.P531S|DYRK1A_uc002ywj.2_Missense_Mutation_p.P522S|DYRK1A_uc002ywl.2_Intron|DYRK1A_uc002ywm.2_Intron|DYRK1A_uc011aei.1_Missense_Mutation_p.P292S	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	531					nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						CCGGTCGGATCCGACGCACCA	0.537													10	24	---	---	---	---	PASS	T	38878446	T	T	38878446	3	4	28	1	0	0	0	0	1	0	0	0	4854	855	30	2	1629	2	DYRK1A	21	38878446	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	5581477	38878446	9251449	461	12424										
ISX	91464	broad.mit.edu	37	chr22	35463099	35463099	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	caatgtgtgctgaggtgggcCctgctctctgcaggggtatg	16	9	1	1	rs138420595		TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr22:35463099C>A	uc003anj.2	+	1	970	c.19C>A	c.(19-21)CCT>ACT	p.P7T	ISX_uc011amg.1_5'UTR	NM_001008494	NP_001008494	Q2M1V0	ISX_HUMAN	intestine-specific homeobox	7						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)	5						TGAGGTGGGCCCTGCTCTCTG	0.602													6	9	---	---	---	---	PASS	A	35463099	A	A	35463099	3	1	28	1	0	0	0	0	1	0	0	0	7865	623	22	3	21	3	ISX	22	35463099	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08		35463099	15841467	462	12425										
PICK1	9463	broad.mit.edu	37	chr22	38470389	38470390	+	Frame_Shift_Del	DEL	GC	-	-													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	tcctgcgctgccgccaggagGcgcgcgcccgcttctcccag							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr22:38470389_38470390delGC	uc003auq.2	+	12	1300_1301	c.910_911delGC	c.(910-912)GCGfs	p.A304fs	PICK1_uc003aur.2_Frame_Shift_Del_p.A304fs|PICK1_uc003aus.2_Frame_Shift_Del_p.A304fs|PICK1_uc003aut.2_Frame_Shift_Del_p.A304fs	NM_012407	NP_036539	Q9NRD5	PICK1_HUMAN	protein interacting with C kinase 1	304	AH.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|DNA methylation involved in embryo development|DNA methylation involved in gamete generation|monoamine transport|neuronal ion channel clustering|protein phosphorylation|receptor clustering|retrograde vesicle-mediated transport, Golgi to ER|synaptic transmission	cell junction|endocytic vesicle membrane|Golgi apparatus|perinuclear region of cytoplasm|presynaptic membrane	ATPase activity|metal ion binding|protein C-terminus binding|protein kinase C binding|receptor binding				0	Melanoma(58;0.045)					CCGCCAGGAGGCGCGCGCCCGC	0.673													16	10	---	---	---	---		-	38470390	-	-	38470389	7	5	28	1	0	1	0	1	0	0	0	0	11881	1203	42	0	952	0	PICK1	22	38470389	Frame_Shift_Del	DEL	GC	TCGA-21-5787-01A-01D-1632-08	3007290	38470389	12834177	463	12426										
TRMU	55687	broad.mit.edu	37	chr22	46751480	46751480	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ccgattccgccaccagatggCactaggtgactgacgggagg	14	12	0	3			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chr22:46751480C>T	uc003bhp.2	+	9	1377	c.1013C>T	c.(1012-1014)GCA>GTA	p.A338V	TRMU_uc003bhq.2_Missense_Mutation_p.A120V|TRMU_uc003bhs.2_Missense_Mutation_p.A338V|TRMU_uc003bhr.2_Missense_Mutation_p.A224V|TRMU_uc003bht.2_Missense_Mutation_p.A191V|TRMU_uc003bhu.2_Missense_Mutation_p.A120V|TRMU_uc003bhv.2_Missense_Mutation_p.A191V	NM_018006	NP_060476	O75648	MTU1_HUMAN	tRNA 5-methylaminomethyl-2-thiouridylate	338						mitochondrion	ATP binding|sulfurtransferase activity|tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity|tRNA binding			ovary(1)	1		Ovarian(80;0.00965)|Breast(42;0.0194)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00449)|LUAD - Lung adenocarcinoma(64;0.248)		CACCAGATGGCACTAGGTGAC	0.632											OREG0026654	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	27	---	---	---	---	PASS	T	46751480	T	T	46751480	3	4	28	1	0	0	0	0	1	0	0	0	16568	710	25	3	1047	3	TRMU	22	46751480	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	8281091	46751480	4553086	464	12427										
ARHGAP6	395	broad.mit.edu	37	chrX	11200215	11200215	+	Frame_Shift_Del	DEL	G	-	-													0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cttttttgagcttccaactcGgaatatccccactgtctgga							TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chrX:11200215delG	uc004cup.1	-	6	2170	c.1297delC	c.(1297-1299)CGAfs	p.R433fs	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cur.1_Frame_Shift_Del_p.R433fs|ARHGAP6_uc004cum.1_Frame_Shift_Del_p.R230fs|ARHGAP6_uc004cun.1_Frame_Shift_Del_p.R253fs|ARHGAP6_uc010neb.1_Frame_Shift_Del_p.R255fs|ARHGAP6_uc011mif.1_Frame_Shift_Del_p.R230fs	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	433	Rho-GAP.				actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						CTTCCAACTCGGAATATCCCC	0.373													64	48	---	---	---	---		-	11200215	-	-	11200215	7	5	28	1	0	1	0	1	0	0	0	0	887	1124	39	0	1781	0	ARHGAP6	23	11200215	Frame_Shift_Del	DEL	G	TCGA-21-5787-01A-01D-1632-08		11200215	144070345	465	12428										
NHS	4810	broad.mit.edu	37	chrX	17746085	17746085	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cccgcccaaatgatttggatGgtaaaataatacaatatgga	8	7	0	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chrX:17746085G>T	uc004cxx.2	+	6	4134	c.3796G>T	c.(3796-3798)GGT>TGT	p.G1266C	NHS_uc011mix.1_Missense_Mutation_p.G1287C|NHS_uc004cxy.2_Missense_Mutation_p.G1110C|NHS_uc004cxz.2_Missense_Mutation_p.G1089C|NHS_uc004cya.2_Missense_Mutation_p.G989C	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1266						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					TGATTTGGATGGTAAAATAAT	0.473													15	22	---	---	---	---	PASS	T	17746085	T	T	17746085	3	4	28	1	0	0	0	0	1	0	0	0	10411	1348	47	3	3923	3	NHS	23	17746085	Missense_Mutation	SNP	G	TCGA-21-5787-01A-01D-1632-08	6545870	17746085	137524475	466	12429										
ZNF711	7552	broad.mit.edu	37	chrX	84502614	84502614	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	ggaagtcttggattgcacacGccagactctagaatggccca	11	11	2	2			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chrX:84502614G>T	uc004eeo.2	+	3	383	c.36G>T	c.(34-36)ACG>ACT	p.T12T	ZNF711_uc004eep.2_Silent_p.T12T|ZNF711_uc004eeq.2_Silent_p.T12T	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	12					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						GATTGCACACGCCAGACTCTA	0.328													22	26	---	---	---	---	PASS	T	84502614	T	T	84502614	2	4	28	1	0	0	0	0	0	0	0	1	18113	1074	38	1		1	ZNF711	23	84502614	Silent	SNP	G	TCGA-21-5787-01A-01D-1632-08	66756529	84502614	70767946	467	12430										
IRS4	8471	broad.mit.edu	37	chrX	107977058	107977058	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	gagacttctttgtctaggccCctccccaggaactttccagg	9	14	2	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chrX:107977058C>A	uc004eoc.2	-	1	2550	c.2517G>T	c.(2515-2517)AGG>AGT	p.R839S		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	839						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						TGTCTAGGCCCCTCCCCAGGA	0.502													71	69	---	---	---	---	PASS	A	107977058	A	A	107977058	3	1	28	1	0	0	0	0	1	0	0	0	7842	622	22	3	1260	3	IRS4	23	107977058	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	23474444	107977058	47293502	468	12431										
RGAG1	57529	broad.mit.edu	37	chrX	109694517	109694517	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	acacagccagtgccagctccCagctctgaggcaatgtcccc	9	17	1	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chrX:109694517C>G	uc004eor.1	+	3	918	c.672C>G	c.(670-672)CCC>CCG	p.P224P	RGAG1_uc011msr.1_Silent_p.P224P	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	224										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TGCCAGCTCCCAGCTCTGAGG	0.478													19	23	---	---	---	---	PASS	G	109694517	G	G	109694517	2	3	28	1	0	0	0	0	0	0	0	1	13274	581	21	4		4	RGAG1	23	109694517	Silent	SNP	C	TCGA-21-5787-01A-01D-1632-08	1717459	109694517	45576043	469	12432										
RGAG1	57529	broad.mit.edu	37	chrX	109694617	109694617	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835117773019272	39	0.000562083522532009	1.78790561328148	2.70630841121495	1.24231979272694	0.439388599735995	0.801770950033723	17	cctctggagagatatcttcgCtgctaatgtcaggcacggac	11	11	3	1			TCGA-21-5787-01A-01D-1632-08	TCGA-21-5787-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7cb79e4b-c1f1-434d-b13b-6c2eb7760ee8	0a0a8afb-1b2e-4f01-97a6-725caa618c5d	g.chrX:109694617C>A	uc004eor.1	+	3	1018	c.772C>A	c.(772-774)CTG>ATG	p.L258M	RGAG1_uc011msr.1_Missense_Mutation_p.L258M	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	258										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GATATCTTCGCTGCTAATGTC	0.483													22	24	---	---	---	---	PASS	A	109694617	A	A	109694617	3	1	28	1	0	0	0	0	1	0	0	0	13274	796	28	3	774	3	RGAG1	23	109694617	Missense_Mutation	SNP	C	TCGA-21-5787-01A-01D-1632-08	100	109694617	45575943	470	12433										
HIVEP3	59269	broad.mit.edu	37	chr1	42048314	42048314	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttcctcgtccccaaggctctTctctttcctcctcttcctca	3	19	4	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:42048314T>A	uc001cgz.3	-	4	3368	c.2155A>T	c.(2155-2157)AAG>TAG	p.K719*	HIVEP3_uc001cha.3_Nonsense_Mutation_p.K719*|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	719	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CCAAGGCTCTTCTCTTTCCTC	0.537													53	42	---	---	---	---	PASS	A	42048314	A	A	42048314	4	1	29	1	0	0	0	0	0	1	0	0	7188	1792	62	5	5089	5	HIVEP3	1	42048314	Nonsense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08		42048314	207202307	1	12434										
PTPRF	5792	broad.mit.edu	37	chr1	44019608	44019608	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	agtgccaagctctcagtgctCgaaggtacgtgctagggaga	14	9	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:44019608C>G	uc001cjr.2	+	5	715	c.375C>G	c.(373-375)CTC>CTG	p.L125L	PTPRF_uc001cjq.3_Silent_p.L125L|PTPRF_uc001cjs.2_Silent_p.L125L|PTPRF_uc001cjt.3_Silent_p.L125L	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	125	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				TCTCAGTGCTCGAAGGTACGT	0.597													14	36	---	---	---	---	PASS	G	44019608	G	G	44019608	2	3	29	1	0	0	0	0	0	0	0	1	12801	871	31	2		2	PTPRF	1	44019608	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	1971294	44019608	205231013	2	12435										
TOE1	114034	broad.mit.edu	37	chr1	45805976	45805976	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cagctcccgcagcttccgacGgtgagcggcttcccagaggt	13	15	0	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:45805976G>C	uc009vxq.2	+	1	635	c.52G>C	c.(52-54)GGT>CGT	p.G18R	MUTYH_uc001cnf.2_5'Flank|MUTYH_uc009vxo.2_5'Flank|MUTYH_uc001cng.2_5'Flank|MUTYH_uc001cnj.2_5'Flank|MUTYH_uc001cni.2_5'Flank|MUTYH_uc001cnh.2_5'Flank|MUTYH_uc001cno.2_5'UTR|MUTYH_uc001cnk.2_5'UTR|MUTYH_uc010oll.1_5'UTR|MUTYH_uc001cnm.2_5'UTR|MUTYH_uc001cnl.2_5'UTR|MUTYH_uc009vxp.2_5'UTR|MUTYH_uc001cnn.2_5'UTR|TOE1_uc001cnq.3_RNA|TOE1_uc010olm.1_Missense_Mutation_p.G18R|TOE1_uc010oln.1_Missense_Mutation_p.G18R|TOE1_uc001cnr.3_RNA	NM_025077	NP_079353	Q96GM8	TOE1_HUMAN	target of EGR1, member 1 (nuclear)	18						nuclear speck|nucleolus	nucleic acid binding|zinc ion binding			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)					AGCTTCCGACGGTGAGCGGCT	0.627													10	15	---	---	---	---	PASS	C	45805976	C	C	45805976	3	2	29	1	0	0	0	0	1	0	0	0	16346	1130	39	4	54	4	TOE1	1	45805976	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	1786368	45805976	203444645	3	12436										
GBP4	115361	broad.mit.edu	37	chr1	89658722	89658722	+	Missense_Mutation	SNP	C	G	G													0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cgcaaactcgctggagtcctCagcttcatcaggtctggggc							TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:89658722C>G	uc001dnb.2	-	5	651	c.535G>C	c.(535-537)GAG>CAG	p.E179Q		NM_052941	NP_443173	Q96PP9	GBP4_HUMAN	guanylate binding protein 4	179						cytoplasm	GTP binding|GTPase activity				0				all cancers(265;0.00723)|Epithelial(280;0.0291)		CTGGAGTCCTCAGCTTCATCA	0.483													5	140	---	---	---	---	PASS	G	89658722	G	G	89658722	3	3	29	1	0	0	0	0	1	0	0	0	6276	835	29	2	1415	2	GBP4	1	89658722	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	43852746	89658722	159591899	4	12437	330	2								
GBP4	115361	broad.mit.edu	37	chr1	89658731	89658731	+	Missense_Mutation	SNP	C	G	G													0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gctggagtcctcagcttcatCaggtctggggcaggattttg							TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:89658731C>G	uc001dnb.2	-	5	642	c.526G>C	c.(526-528)GAT>CAT	p.D176H		NM_052941	NP_443173	Q96PP9	GBP4_HUMAN	guanylate binding protein 4	176						cytoplasm	GTP binding|GTPase activity				0				all cancers(265;0.00723)|Epithelial(280;0.0291)		TCAGCTTCATCAGGTCTGGGG	0.478													4	142	---	---	---	---	PASS	G	89658731	G	G	89658731	3	3	29	1	0	0	0	0	1	0	0	0	6276	826	29	2	1424	2	GBP4	1	89658731	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	9	89658731	159591890	5	12438	330	2								
AKNAD1	254268	broad.mit.edu	37	chr1	109394998	109394998	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gtctccttcatttgctggaaTatgaagagctgcagtgcatt	10	8	2	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:109394998T>A	uc001dwa.2	-	2	558	c.289A>T	c.(289-291)ATT>TTT	p.I97F	AKNAD1_uc010ovb.1_Intron|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	97										ovary(3)	3						TTTGCTGGAATATGAAGAGCT	0.393													73	86	---	---	---	---	PASS	A	109394998	A	A	109394998	3	1	29	1	0	0	0	0	1	0	0	0	464	1406	49	5	2281	5	AKNAD1	1	109394998	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08	19736267	109394998	139855623	6	12439										
CSF1	1435	broad.mit.edu	37	chr1	110466216	110466216	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cccaagggacagagctttccCcctccaggccaggagggggc	14	15	0	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:110466216C>T	uc001dyu.2	+	6	1386	c.973C>T	c.(973-975)CCC>TCC	p.P325S	CSF1_uc001dyt.2_Missense_Mutation_p.P325S|CSF1_uc001dyv.3_Intron|CSF1_uc001dyw.3_Missense_Mutation_p.P325S	NM_172212	NP_757351	P09603	CSF1_HUMAN	colony stimulating factor 1 isoform a precursor	325	Lumenal (Potential).				cell proliferation|developmental process involved in reproduction|macrophage differentiation|monocyte activation|osteoclast differentiation|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of cellular protein metabolic process|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|positive regulation of macrophage differentiation|positive regulation of monocyte differentiation|positive regulation of mononuclear cell proliferation|positive regulation of protein kinase activity	extracellular space|integral to membrane|perinuclear region of cytoplasm|plasma membrane|receptor complex	cytokine activity|growth factor activity|macrophage colony-stimulating factor receptor binding|protein homodimerization activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Acute lymphoblastic leukemia(138;0.204)		Lung(183;0.0238)|Colorectal(144;0.112)|all cancers(265;0.117)|Epithelial(280;0.127)|LUSC - Lung squamous cell carcinoma(189;0.135)		AGAGCTTTCCCCCTCCAGGCC	0.582											OREG0013645	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	109	---	---	---	---	PASS	T	110466216	T	T	110466216	3	4	29	1	0	0	0	0	1	0	0	0	3931	623	22	3	995	3	CSF1	1	110466216	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	1071218	110466216	138784405	7	12440										
ATP1A1	476	broad.mit.edu	37	chr1	116940528	116940528	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	agggatgccaaggcctgcgtAgtacacggcagtgatctaaa	13	9	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:116940528A>T	uc001ege.2	+	15	2331	c.1992A>T	c.(1990-1992)GTA>GTT	p.V664V	ATP1A1_uc010owv.1_Silent_p.V633V|ATP1A1_uc010oww.1_Silent_p.V664V|ATP1A1_uc010owx.1_Silent_p.V633V|C1orf203_uc009whb.2_Intron|ATP1A1_uc001egh.2_5'Flank	NM_000701	NP_000692	P05023	AT1A1_HUMAN	Na+/K+ -ATPase alpha 1 subunit isoform a	664	Cytoplasmic (Potential).				ATP biosynthetic process	melanosome|sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Captopril(DB01197)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Esomeprazole(DB00736)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Ouabain(DB01092)|Pantoprazole(DB00213)|Trichlormethiazide(DB01021)	AGGCCTGCGTAGTACACGGCA	0.468													83	81	---	---	---	---	PASS	T	116940528	T	T	116940528	2	4	29	1	0	0	0	0	0	0	0	1	1128	407	15	5		5	ATP1A1	1	116940528	Silent	SNP	A	TCGA-22-0944-01A-01D-1521-08	6474312	116940528	132310093	8	12441										
RPTN	126638	broad.mit.edu	37	chr1	152129183	152129183	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	caggctgactgtggtgggagTtctgcctttcttcctcgtgc	13	11	2	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:152129183T>A	uc001ezs.1	-	3	457	c.392A>T	c.(391-393)AAC>ATC	p.N131I		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	131	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						GTGGTGGGAGTTCTGCCTTTC	0.527													66	499	---	---	---	---	PASS	A	152129183	A	A	152129183	3	1	29	1	0	0	0	0	1	0	0	0	13664	1725	60	5	1966	5	RPTN	1	152129183	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08	35188655	152129183	97121438	9	12442										
C1orf114	57821	broad.mit.edu	37	chr1	169366527	169366527	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tttaaggaagaataaacattCctcttgctttcttagttctt	5	7	3	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:169366527C>T	uc001gga.1	-	5	1486	c.1318G>A	c.(1318-1320)GAA>AAA	p.E440K	C1orf114_uc001gfz.1_Missense_Mutation_p.E439K|C1orf114_uc009wvq.1_Missense_Mutation_p.E439K	NM_021179	NP_067002	Q5TID7	CA114_HUMAN	hypothetical protein LOC57821	440											0	all_hematologic(923;0.208)					AATAAACATTCCTCTTGCTTT	0.418													23	88	---	---	---	---	PASS	T	169366527	T	T	169366527	3	4	29	1	0	0	0	0	1	0	0	0	1987	864	30	2	219	2	C1orf114	1	169366527	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	17237344	169366527	79884094	10	12443										
PM20D1	148811	broad.mit.edu	37	chr1	205814506	205814506	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	accatagatgatgccatcacGctccaacccagagaatgggg	10	12	1	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:205814506G>A	uc001hdj.2	-	3	481	c.436C>T	c.(436-438)CGT>TGT	p.R146C	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	146						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			ATGCCATCACGCTCCAACCCA	0.572													67	149	---	---	---	---	PASS	A	205814506	A	A	205814506	3	1	29	1	0	0	0	0	1	0	0	0	12128	1087	38	1	1116	1	PM20D1	1	205814506	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	36447979	205814506	43436115	11	12444										
SRGAP2	23380	broad.mit.edu	37	chr1	206619426	206619426	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tcccttctcctccagtttatCacagttcagtgaagagaaca	6	12	3	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:206619426C>T	uc001hdy.2	+	15	1952	c.1619C>T	c.(1618-1620)TCA>TTA	p.S540L	SRGAP2_uc010prt.1_Missense_Mutation_p.S463L|SRGAP2_uc001hdx.2_Missense_Mutation_p.S540L|SRGAP2_uc010pru.1_Missense_Mutation_p.S463L|SRGAP2_uc010prv.1_Missense_Mutation_p.S464L	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	627	Rho-GAP.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					TCCAGTTTATCACAGTTCAGT	0.547													23	75	---	---	---	---	PASS	T	206619426	T	T	206619426	3	4	29	1	0	0	0	0	1	0	0	0	15145	838	29	2	1678	2	SRGAP2	1	206619426	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	804920	206619426	42631195	12	12445										
RD3	343035	broad.mit.edu	37	chr1	211654707	211654707	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	atctcagcagggctcctggtGgacagccgggatggggcctc	16	12	1	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:211654707G>A	uc001him.2	-	2	1215	c.51C>T	c.(49-51)TCC>TCT	p.S17S	RD3_uc001hin.2_RNA|RD3_uc009xda.2_Intron	NM_183059	NP_898882	Q7Z3Z2	RD3_HUMAN	retinal degeneration 3	17					response to stimulus|visual perception					ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00284)|all cancers(67;0.0279)|Epithelial(68;0.0689)		GGCTCCTGGTGGACAGCCGGG	0.632													43	113	---	---	---	---	PASS	A	211654707	A	A	211654707	2	1	29	1	0	0	0	0	0	0	0	1	13187	1335	47	3		3	RD3	1	211654707	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08	5035281	211654707	37595914	13	12446										
SMYD2	56950	broad.mit.edu	37	chr1	214454741	214454741	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gtgctcacggtcaacgagcgGggcaaccactgcgagtactg	14	12	2	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:214454741G>T	uc010ptx.1	+	1	177	c.144G>T	c.(142-144)CGG>CGT	p.R48R	SMYD2_uc009xdj.2_5'UTR|SMYD2_uc010ptw.1_RNA|SMYD2_uc009xdl.1_RNA	NM_020197	NP_064582	Q9NRG4	SMYD2_HUMAN	SET and MYND domain containing 2	48					negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|regulation of DNA damage response, signal transduction by p53 class mediator|transcription, DNA-dependent	cytosol|nucleus	histone methyltransferase activity (H3-K36 specific)|p53 binding|RNA polymerase II core binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0122)|all cancers(67;0.0209)|GBM - Glioblastoma multiforme(131;0.106)|Epithelial(68;0.144)		TCAACGAGCGGGGCAACCACT	0.632													11	24	---	---	---	---	PASS	T	214454741	T	T	214454741	2	4	29	1	0	0	0	0	0	0	0	1	14822	1219	43	3		3	SMYD2	1	214454741	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08	2800034	214454741	34795880	14	12447										
TLR5	7100	broad.mit.edu	37	chr1	223285747	223285747	+	Nonsense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cagtccactgagactctgctAtacaagctattagctgcgag	9	11	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:223285747A>C	uc001hnv.1	-	4	1073	c.627T>G	c.(625-627)TAT>TAG	p.Y209*	TLR5_uc001hnw.1_Nonsense_Mutation_p.Y209*	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	209	Extracellular (Potential).				cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		AGACTCTGCTATACAAGCTAT	0.443													15	150	---	---	---	---	PASS	C	223285747	C	C	223285747	4	2	29	1	0	0	0	0	0	1	0	0	15951	456	16	5	1953	5	TLR5	1	223285747	Nonsense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	8831006	223285747	25964874	15	12448										
RYR2	6262	broad.mit.edu	37	chr1	237947700	237947700	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	aggagaggccggaagagcagGggccgaggatggctttcttc	18	8	1	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:237947700G>C	uc001hyl.1	+	90	12808	c.12688G>C	c.(12688-12690)GGG>CGG	p.G4230R	RYR2_uc010pya.1_Missense_Mutation_p.G645R	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4230					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)			GGAAGAGCAGGGGCCGAGGAT	0.537													17	51	---	---	---	---	PASS	C	237947700	C	C	237947700	3	2	29	1	0	0	0	0	1	0	0	0	13769	1232	43	4	13046	4	RYR2	1	237947700	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	14661953	237947700	11302921	16	12449										
FMN2	56776	broad.mit.edu	37	chr1	240370312	240370312	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ggttagaagaaaaggaagtaCggcatcataggattttagag	13	3	1	3	rs145706266	byFrequency	TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr1:240370312C>A	uc010pyd.1	+	5	2425	c.2200C>A	c.(2200-2202)CGG>AGG	p.R734R	FMN2_uc010pye.1_Silent_p.R738R	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	734					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AAAGGAAGTACGGCATCATAG	0.562													6	92	---	---	---	---	PASS	A	240370312	A	A	240370312	2	1	29	1	0	0	0	0	0	0	0	1	5950	527	19	1		1	FMN2	1	240370312	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	2422612	240370312	8880309	17	12450										
LRPPRC	10128	broad.mit.edu	37	chr2	44161358	44161358	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cttcttggcctctttgtaatTtcctgtttgtaggaaggcaa	9	8	2	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr2:44161358T>A	uc002rtr.2	-	25	2765	c.2707A>T	c.(2707-2709)AAT>TAT	p.N903Y	LRPPRC_uc010yob.1_Missense_Mutation_p.N803Y	NM_133259	NP_573566	P42704	LPPRC_HUMAN	leucine-rich PPR motif-containing protein	903					mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TCTTTGTAATTTCCTGTTTGT	0.338													41	66	---	---	---	---	PASS	A	44161358	A	A	44161358	3	1	29	1	0	0	0	0	1	0	0	0	8965	1841	64	5	1533	5	LRPPRC	2	44161358	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08		44161358	199038015	18	12451										
NRXN1	9378	broad.mit.edu	37	chr2	50464081	50464081	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tatacgtgatttgtccaccaCctttgctaaagatatatgtc	6	9	0	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr2:50464081C>G	uc010fbp.2	-	2	1094	c.287G>C	c.(286-288)GGT>GCT	p.G96A	NRXN1_uc002rxb.3_Missense_Mutation_p.G803A|NRXN1_uc010fbq.2_Missense_Mutation_p.G1171A|NRXN1_uc002rxe.3_Missense_Mutation_p.G1131A|NRXN1_uc002rxc.1_RNA	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	96	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TTGTCCACCACCTTTGCTAAA	0.428													11	170	---	---	---	---	PASS	G	50464081	G	G	50464081	3	3	29	1	0	0	0	0	1	0	0	0	10665	507	18	4	1155	4	NRXN1	2	50464081	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	6302723	50464081	192735292	19	12452										
DYSF	8291	broad.mit.edu	37	chr2	71886094	71886094	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cagctggccgcccagggaccCcaggagtgcttggtccgtat	14	14	0	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr2:71886094C>G	uc002sie.2	+	43	5101	c.4725C>G	c.(4723-4725)CCC>CCG	p.P1575P	DYSF_uc010feg.2_Silent_p.P1606P|DYSF_uc010feh.2_Silent_p.P1582P|DYSF_uc002sig.3_Silent_p.P1561P|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.P1596P|DYSF_uc010fef.2_Silent_p.P1613P|DYSF_uc010fei.2_Silent_p.P1592P|DYSF_uc010fek.2_Silent_p.P1593P|DYSF_uc010fej.2_Silent_p.P1583P|DYSF_uc010fel.2_Silent_p.P1562P|DYSF_uc010feo.2_Silent_p.P1607P|DYSF_uc010fem.2_Silent_p.P1597P|DYSF_uc010fen.2_Silent_p.P1614P|DYSF_uc002sif.2_Silent_p.P1576P|DYSF_uc010yqy.1_Silent_p.P456P|DYSF_uc010yqz.1_Silent_p.P336P	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1575	Cytoplasmic (Potential).|C2 5.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CCCAGGGACCCCAGGAGTGCT	0.572													33	230	---	---	---	---	PASS	G	71886094	G	G	71886094	2	3	29	1	0	0	0	0	0	0	0	1	4859	610	22	4		4	DYSF	2	71886094	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	21422013	71886094	171313279	20	12453										
LRRTM4	80059	broad.mit.edu	37	chr2	77746266	77746266	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	catgtcaaaccttggctaatGgagcgaatcctgttccattg	9	10	1	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr2:77746266G>A	uc002snr.2	-	3	1144	c.729C>T	c.(727-729)TCC>TCT	p.S243S	LRRTM4_uc002snq.2_Silent_p.S243S|LRRTM4_uc002sns.2_Silent_p.S243S|LRRTM4_uc002snt.2_Silent_p.S244S	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	243	LRR 8.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		CTTGGCTAATGGAGCGAATCC	0.448													8	50	---	---	---	---	PASS	A	77746266	A	A	77746266	2	1	29	1	0	0	0	0	0	0	0	1	9042	1335	47	3		3	LRRTM4	2	77746266	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08	5860172	77746266	165453107	21	12454										
CNTNAP5	129684	broad.mit.edu	37	chr2	125175047	125175047	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	caggaaacatgaatgctgacAgcgtggtgcaccacaagcta	11	10	0	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr2:125175047A>C	uc002tno.2	+	4	773	c.409A>C	c.(409-411)AGC>CGC	p.S137R	CNTNAP5_uc010flu.2_Missense_Mutation_p.S137R	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	137	F5/8 type C.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GAATGCTGACAGCGTGGTGCA	0.483													8	58	---	---	---	---	PASS	C	125175047	C	C	125175047	3	2	29	1	0	0	0	0	1	0	0	0	3650	188	7	5	423	5	CNTNAP5	2	125175047	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	47428781	125175047	118024326	22	12455										
TUBA3D	113457	broad.mit.edu	37	chr2	132238108	132238108	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	agtcatctcagctgagaaggCctaccacgagcagctgtctg	11	12	3	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr2:132238108C>T	uc002tsu.3	+	4	949	c.842C>T	c.(841-843)GCC>GTC	p.A281V		NM_080386	NP_525125	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	281					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(221;0.13)		GCTGAGAAGGCCTACCACGAG	0.582													142	113	---	---	---	---	PASS	T	132238108	T	T	132238108	3	4	29	1	0	0	0	0	1	0	0	0	16744	739	26	3	856	3	TUBA3D	2	132238108	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	7063061	132238108	110961265	23	12456										
LRP1B	53353	broad.mit.edu	37	chr2	141283440	141283440	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ctttaattcatctgaatagtCtccacagtcattagacccgt	5	11	4	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr2:141283440C>A	uc002tvj.1	-	49	8971	c.7999G>T	c.(7999-8001)GAC>TAC	p.D2667Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2667	Extracellular (Potential).|LDL-receptor class A 14.				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)		TCTGAATAGTCTCCACAGTCA	0.413										TSP Lung(27;0.18)			63	61	---	---	---	---	PASS	A	141283440	A	A	141283440	3	1	29	1	0	0	0	0	1	0	0	0	8955	913	32	2	5972	2	LRP1B	2	141283440	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	9045332	141283440	101915933	24	12457										
PDE1A	5136	broad.mit.edu	37	chr2	183104928	183104928	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttttgtcatccccattttccGtgtaaaggtagaagccaacc	7	11	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr2:183104928G>T	uc002uos.2	-	4	391	c.307C>A	c.(307-309)CGG>AGG	p.R103R	PDE1A_uc010zfp.1_5'UTR|PDE1A_uc002uoq.1_Silent_p.R103R|PDE1A_uc010zfq.1_Silent_p.R103R|PDE1A_uc002uor.2_Silent_p.R87R|PDE1A_uc002uou.2_Silent_p.R69R	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	103					activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			CCCATTTTCCGTGTAAAGGTA	0.423													117	207	---	---	---	---	PASS	T	183104928	T	T	183104928	2	4	29	1	0	0	0	0	0	0	0	1	11633	1144	40	1		1	PDE1A	2	183104928	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08	41821488	183104928	60094445	25	12458										
PARD3B	117583	broad.mit.edu	37	chr2	206480528	206480528	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cagaagaaccccatgactgcAgccgtatagctgagtgccac	10	13	0	4			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr2:206480528A>G	uc002var.1	+	23	3816	c.3609A>G	c.(3607-3609)GCA>GCG	p.A1203A	PARD3B_uc002vao.1_Silent_p.A1102A|PARD3B_uc002vap.1_Silent_p.A1141A|PARD3B_uc002vaq.1_Silent_p.A1134A|uc010fuc.1_5'Flank	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	1203					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		CCATGACTGCAGCCGTATAGC	0.587													66	67	---	---	---	---	PASS	G	206480528	G	G	206480528	2	3	29	1	0	0	0	0	0	0	0	1	11444	175	7	5		5	PARD3B	2	206480528	Silent	SNP	A	TCGA-22-0944-01A-01D-1521-08	23375600	206480528	36718845	26	12459										
SATB1	6304	broad.mit.edu	37	chr3	18436276	18436276	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttggaagaggtgtccggacaGagggctggctgccatgggag	19	7	0	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr3:18436276G>C	uc003cbh.2	-	7	2619	c.884C>G	c.(883-885)TCT>TGT	p.S295C	SATB1_uc003cbi.2_Missense_Mutation_p.S295C|SATB1_uc003cbj.2_Missense_Mutation_p.S295C	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	295					cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						TGTCCGGACAGAGGGCTGGCT	0.582													43	50	---	---	---	---	PASS	C	18436276	C	C	18436276	3	2	29	1	0	0	0	0	1	0	0	0	13853	942	33	2	1427	2	SATB1	3	18436276	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08		18436276	179586154	27	12460										
XYLB	9942	broad.mit.edu	37	chr3	38415993	38415993	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ctggaggaaggtgacattgcGgtaaggcgacttcccacacc	13	11	0	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr3:38415993G>T	uc003cic.2	+	11	997	c.888G>T	c.(886-888)GCG>GCT	p.A296A	XYLB_uc011ayp.1_Silent_p.A159A|XYLB_uc003cid.1_Silent_p.A218A	NM_005108	NP_005099	O75191	XYLB_HUMAN	xylulokinase	296					D-xylose metabolic process|generation of precursor metabolites and energy|xylulose catabolic process		ATP binding|xylulokinase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.00372)|Kidney(284;0.00405)		GTGACATTGCGGTAAGGCGAC	0.562													46	46	---	---	---	---	PASS	T	38415993	T	T	38415993	2	4	29	1	0	0	0	0	0	0	0	1	17459	1130	39	1		1	XYLB	3	38415993	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08	19979717	38415993	159606437	28	12461										
NT5DC2	64943	broad.mit.edu	37	chr3	52562310	52562310	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	agcgagaagatgtccatgaaCtgcttaatggagggaccctg	13	8	0	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr3:52562310C>T	uc003deo.2	-	6	973	c.549G>A	c.(547-549)CAG>CAA	p.Q183Q	NT5DC2_uc003dem.2_Silent_p.Q53Q|NT5DC2_uc003den.2_Silent_p.Q220Q|NT5DC2_uc010hmi.2_Silent_p.Q195Q|NT5DC2_uc010hmj.2_5'UTR	NM_022908	NP_075059	Q9H857	NT5D2_HUMAN	5'-nucleotidase domain containing 2 isoform 2	183							hydrolase activity|metal ion binding				0				BRCA - Breast invasive adenocarcinoma(193;1.7e-05)|Kidney(197;0.00177)|KIRC - Kidney renal clear cell carcinoma(197;0.002)|OV - Ovarian serous cystadenocarcinoma(275;0.0476)		TGTCCATGAACTGCTTAATGG	0.572													49	69	---	---	---	---	PASS	T	52562310	T	T	52562310	2	4	29	1	0	0	0	0	0	0	0	1	10691	564	20	3		3	NT5DC2	3	52562310	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	14146317	52562310	145460120	29	12462										
MAGI1	9223	broad.mit.edu	37	chr3	65342499	65342499	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ccgcctcttggggccgttggCggctgccgcgcgctcggcct	16	17	1	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr3:65342499C>T	uc003dmn.2	-	23	4469	c.3943G>A	c.(3943-3945)GCC>ACC	p.A1315T	MAGI1_uc003dmm.2_3'UTR	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	1344	Poly-Ala.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		GGGCCGTTGGCGGCTGCCGCG	0.697													3	32	---	---	---	---	PASS	T	65342499	T	T	65342499	3	4	29	1	0	0	0	0	1	0	0	0	9190	768	27	1	449	1	MAGI1	3	65342499	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	12780189	65342499	132679931	30	12463										
MAGI1	9223	broad.mit.edu	37	chr3	65367554	65367554	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	aatgaatgaaatacatacccGcaaaaaccactttacgccgc	5	12	0	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr3:65367554G>A	uc003dmn.2	-	16	3225	c.2699C>T	c.(2698-2700)GCG>GTG	p.A900V	MAGI1_uc003dmm.2_Missense_Mutation_p.A928V|MAGI1_uc003dmo.2_Missense_Mutation_p.A928V|MAGI1_uc003dmp.2_Missense_Mutation_p.A900V|MAGI1_uc003dmq.1_5'Flank|MAGI1_uc010hnx.1_Missense_Mutation_p.A211V	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	928					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		ATACATACCCGCAAAAACCAC	0.473													11	52	---	---	---	---	PASS	A	65367554	A	A	65367554	3	1	29	1	0	0	0	0	1	0	0	0	9190	1087	38	1	1867	1	MAGI1	3	65367554	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	25055	65367554	132654876	31	12464										
ARHGAP31	57514	broad.mit.edu	37	chr3	119120970	119120970	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttgggtatgttctacacttcGaacgacagccctagcaaatc	8	11	1	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr3:119120970G>C	uc003ecj.3	+	10	1903	c.1371G>C	c.(1369-1371)TCG>TCC	p.S457S		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	457					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						TCTACACTTCGAACGACAGCC	0.592													64	129	---	---	---	---	PASS	C	119120970	C	C	119120970	2	2	29	1	0	0	0	0	0	0	0	1	880	1045	37	2		2	ARHGAP31	3	119120970	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08	53753416	119120970	78901460	32	12465										
ZIC4	84107	broad.mit.edu	37	chr3	147114021	147114021	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gcagcgaggttcaccgtcagGttcatgcccccgtagccatg	12	14	3	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr3:147114021G>T	uc003ewd.1	-	3	579	c.306C>A	c.(304-306)AAC>AAA	p.N102K	ZIC4_uc003ewc.1_Missense_Mutation_p.N32K|ZIC4_uc011bno.1_Missense_Mutation_p.N152K	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	102						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						TCACCGTCAGGTTCATGCCCC	0.697													19	43	---	---	---	---	PASS	T	147114021	T	T	147114021	3	4	29	1	0	0	0	0	1	0	0	0	17678	1252	44	3	710	3	ZIC4	3	147114021	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	27993051	147114021	50908409	33	12466										
SLC7A14	57709	broad.mit.edu	37	chr3	170185011	170185011	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ggcccgccccagtcctcctgGctctcgccctctgtggcgta	11	19	2	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr3:170185011G>T	uc003fgz.2	-	8	2464	c.2148C>A	c.(2146-2148)AGC>AGA	p.S716R	CLDN11_uc011bpt.1_Intron|uc003fha.1_5'Flank	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	716						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			AGTCCTCCTGGCTCTCGCCCT	0.577													22	232	---	---	---	---	PASS	T	170185011	T	T	170185011	3	4	29	1	0	0	0	0	1	0	0	0	14696	1194	42	3	171	3	SLC7A14	3	170185011	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	23070990	170185011	27837419	34	12467										
ZNF721	170960	broad.mit.edu	37	chr4	436622	436622	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tatgaattctcctatgtacaTaaaggattgcggactgtcta	8	7	2	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr4:436622T>C	uc003gag.2	-	3	2325	c.1634A>G	c.(1633-1635)TAT>TGT	p.Y545C	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.Y577C|ZNF721_uc010ibe.2_Missense_Mutation_p.Y533C	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	545						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						CCTATGTACATAAAGGATTGC	0.403													104	112	---	---	---	---	PASS	C	436622	C	C	436622	3	2	29	1	0	0	0	0	1	0	0	0	18119	1406	49	5	1141	5	ZNF721	4	436622	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08		436622	190717654	35	12468										
ZBTB49	166793	broad.mit.edu	37	chr4	4304558	4304558	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tgaacccaagtcagatgatgGtttgacaaagaggttggaat	12	5	1	5			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr4:4304558G>A	uc003ghu.2	+	3	1170	c.995G>A	c.(994-996)GGT>GAT	p.G332D	ZBTB49_uc003ghv.2_5'UTR|ZBTB49_uc010icy.2_RNA|ZBTB49_uc010icz.2_Missense_Mutation_p.G32D	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	332					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TCAGATGATGGTTTGACAAAG	0.418													45	46	---	---	---	---	PASS	A	4304558	A	A	4304558	3	1	29	1	0	0	0	0	1	0	0	0	17547	1261	44	3	1001	3	ZBTB49	4	4304558	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	3867936	4304558	186849718	36	12469										
PCDH7	5099	broad.mit.edu	37	chr4	30724309	30724309	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tgaaatccgcaagattgggcGcatccccctcaaggacgggg	13	12	1	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr4:30724309G>A	uc003gsk.1	+	1	2273	c.1265G>A	c.(1264-1266)CGC>CAC	p.R422H	PCDH7_uc011bxw.1_Missense_Mutation_p.R375H|PCDH7_uc011bxx.1_Missense_Mutation_p.R422H	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	422	Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						AAGATTGGGCGCATCCCCCTC	0.627													3	67	---	---	---	---	PASS	A	30724309	A	A	30724309	3	1	29	1	0	0	0	0	1	0	0	0	11516	1087	38	1	1267	1	PCDH7	4	30724309	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	26419751	30724309	160429967	37	12470										
ODZ3	55714	broad.mit.edu	37	chr4	183594205	183594205	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ataacaccatagattccggaGaacttgatattggccgaaga	9	8	0	4			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr4:183594205G>A	uc003ivd.1	+	6	1196	c.1159G>A	c.(1159-1161)GAA>AAA	p.E387K		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	387	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		AGATTCCGGAGAACTTGATAT	0.358													5	16	---	---	---	---	PASS	A	183594205	A	A	183594205	3	1	29	1	0	0	0	0	1	0	0	0	10836	943	33	2	1181	2	ODZ3	4	183594205	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	152869896	183594205	7560071	38	12471										
CDH6	1004	broad.mit.edu	37	chr5	31305407	31305407	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cggttagaattgtggtggagGatgtagatgagccacctgtc	15	6	0	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr5:31305407G>T	uc003jhe.1	+	7	1452	c.1126G>T	c.(1126-1128)GAT>TAT	p.D376Y	CDH6_uc003jhd.1_Missense_Mutation_p.D376Y	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	376	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						TGTGGTGGAGGATGTAGATGA	0.458													50	132	---	---	---	---	PASS	T	31305407	T	T	31305407	3	4	29	1	0	0	0	0	1	0	0	0	3114	1174	41	2	1148	2	CDH6	5	31305407	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08		31305407	149609853	39	12472										
ADAMTS12	81792	broad.mit.edu	37	chr5	33549443	33549443	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gtggtcccggctgtccacgcActgaatctcgcgtatcttga	11	13	2	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr5:33549443A>T	uc003jia.1	-	21	4334	c.4171T>A	c.(4171-4173)TGC>AGC	p.C1391S	ADAMTS12_uc010iuq.1_Missense_Mutation_p.C1306S	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1391	TSP type-1 6.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CTGTCCACGCACTGAATCTCG	0.572										HNSCC(64;0.19)			41	202	---	---	---	---	PASS	T	33549443	T	T	33549443	3	4	29	1	0	0	0	0	1	0	0	0	257	159	6	5	629	5	ADAMTS12	5	33549443	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	2244036	33549443	147365817	40	12473										
CKMT2	1160	broad.mit.edu	37	chr5	80548572	80548572	+	Missense_Mutation	SNP	G	A	A													0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tggccgagtgcctcacccccGccatttatgccaagcttcgc							TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr5:80548572G>A	uc003khc.3	+	4	453	c.211G>A	c.(211-213)GCC>ACC	p.A71T	RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Missense_Mutation_p.A71T|CKMT2_uc003khd.3_Missense_Mutation_p.A71T|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816	P17540	KCRS_HUMAN	sarcomeric mitochondrial creatine kinase	71	Phosphagen kinase N-terminal.				creatine metabolic process|muscle contraction	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;2.29e-44)|Epithelial(54;1.05e-38)|all cancers(79;4.15e-34)	Creatine(DB00148)	CCTCACCCCCGCCATTTATGC	0.612													53	51	---	---	---	---	PASS	A	80548572	A	A	80548572	3	1	29	1	0	0	0	0	1	0	0	0	3451	1087	38	1	217	1	CKMT2	5	80548572	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	46999129	80548572	100366688	41	12474	331	2								
CKMT2	1160	broad.mit.edu	37	chr5	80548574	80548574	+	Silent	SNP	C	A	A													0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gccgagtgcctcacccccgcCatttatgccaagcttcgcaa							TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr5:80548574C>A	uc003khc.3	+	4	455	c.213C>A	c.(211-213)GCC>GCA	p.A71A	RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Silent_p.A71A|CKMT2_uc003khd.3_Silent_p.A71A|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816	P17540	KCRS_HUMAN	sarcomeric mitochondrial creatine kinase	71	Phosphagen kinase N-terminal.				creatine metabolic process|muscle contraction	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;2.29e-44)|Epithelial(54;1.05e-38)|all cancers(79;4.15e-34)	Creatine(DB00148)	TCACCCCCGCCATTTATGCCA	0.612													51	54	---	---	---	---	PASS	A	80548574	A	A	80548574	2	1	29	1	0	0	0	0	0	0	0	1	3451	581	21	3		3	CKMT2	5	80548574	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	2	80548574	100366686	42	12475	331	2								
PCDHGA1	56114	broad.mit.edu	37	chr5	140710522	140710522	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tgatcaccgcgcgcaggataGaccgggaggagctctgcgct	15	12	2	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr5:140710522G>A	uc003lji.1	+	1	271	c.271G>A	c.(271-273)GAC>AAC	p.D91N	PCDHGA1_uc011dan.1_Missense_Mutation_p.D91N	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	91	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGCAGGATAGACCGGGAGGA	0.512													8	249	---	---	---	---	PASS	A	140710522	A	A	140710522	3	1	29	1	0	0	0	0	1	0	0	0	11550	942	33	2	273	2	PCDHGA1	5	140710522	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	60161948	140710522	40204738	43	12476										
GRIA1	2890	broad.mit.edu	37	chr5	153078581	153078581	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tgatggaaaatacggagcccGagaccctgacacgaaggcct	12	11	0	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr5:153078581G>A	uc003lva.3	+	10	1765	c.1400G>A	c.(1399-1401)CGA>CAA	p.R467Q	GRIA1_uc003luy.3_Missense_Mutation_p.R467Q|GRIA1_uc003luz.3_Missense_Mutation_p.R372Q|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.R387Q|GRIA1_uc011dcx.1_Missense_Mutation_p.R398Q|GRIA1_uc011dcy.1_Missense_Mutation_p.R477Q|GRIA1_uc011dcz.1_Missense_Mutation_p.R477Q|GRIA1_uc010jia.1_Missense_Mutation_p.R447Q	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	467	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TACGGAGCCCGAGACCCTGAC	0.562													20	34	---	---	---	---	PASS	A	153078581	A	A	153078581	3	1	29	1	0	0	0	0	1	0	0	0	6767	1058	37	2	1438	2	GRIA1	5	153078581	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	12368059	153078581	27836679	44	12477										
NEDD9	4739	broad.mit.edu	37	chr6	11185599	11185599	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttgcgaatgtcctgggcagtCacctgccgtgtcagcgtgtc	13	12	2	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr6:11185599C>T	uc003mzv.2	-	7	2468	c.2301G>A	c.(2299-2301)GTG>GTA	p.V767V	NEDD9_uc010joz.2_Silent_p.V767V|NEDD9_uc003mzw.3_Silent_p.V621V	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	767					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			CCTGGGCAGTCACCTGCCGTG	0.557													7	199	---	---	---	---	PASS	T	11185599	T	T	11185599	2	4	29	1	0	0	0	0	0	0	0	1	10313	813	29	2		2	NEDD9	6	11185599	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08		11185599	159929468	45	12478										
EYS	346007	broad.mit.edu	37	chr6	66205194	66205194	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tccaatttaccacatatgatGagggttgtggatgccattct	9	8	1	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr6:66205194G>A	uc011dxu.1	-	4	648	c.110C>T	c.(109-111)TCA>TTA	p.S37L	EYS_uc003peq.2_Missense_Mutation_p.S37L|EYS_uc003per.1_Missense_Mutation_p.S37L|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	37					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						CACATATGATGAGGGTTGTGG	0.393													7	279	---	---	---	---	PASS	A	66205194	A	A	66205194	3	1	29	1	0	0	0	0	1	0	0	0	5332	1294	45	2	9446	2	EYS	6	66205194	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	55019595	66205194	104909873	46	12479										
MARCKS	4082	broad.mit.edu	37	chr6	114181255	114181255	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tcaagaagtctttcaagctgAgcggcttctccttcaagaag	9	10	5	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr6:114181255A>T	uc003pvy.3	+	2	894	c.499A>T	c.(499-501)AGC>TGC	p.S167C		NM_002356	NP_002347	P29966	MARCS_HUMAN	myristoylated alanine-rich protein kinase C	167	Calmodulin-binding (PSD).				energy reserve metabolic process|regulation of insulin secretion	actin cytoskeleton|plasma membrane	actin filament binding|calmodulin binding				0		all_cancers(87;7.65e-05)|all_epithelial(87;0.000296)|all_hematologic(75;0.0172)|Colorectal(196;0.0317)|all_lung(197;0.198)		Epithelial(106;1.59e-07)|all cancers(137;9.85e-07)|OV - Ovarian serous cystadenocarcinoma(136;0.000322)		TTTCAAGCTGAGCGGCTTCTC	0.493													19	33	---	---	---	---	PASS	T	114181255	T	T	114181255	3	4	29	1	0	0	0	0	1	0	0	0	9309	304	11	5	505	5	MARCKS	6	114181255	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	47976061	114181255	56933812	47	12480										
GRM1	2911	broad.mit.edu	37	chr6	146480556	146480556	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	aggcctctgtatcgcccattCtgacaaaatctacagcaacg	7	13	3	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr6:146480556C>G	uc010khw.1	+	3	1243	c.773C>G	c.(772-774)TCT>TGT	p.S258C	GRM1_uc010khu.1_Missense_Mutation_p.S258C|GRM1_uc010khv.1_Missense_Mutation_p.S258C|GRM1_uc003qll.2_Missense_Mutation_p.S258C|GRM1_uc011edz.1_Missense_Mutation_p.S258C|GRM1_uc011eea.1_Missense_Mutation_p.S258C	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	258	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	ATCGCCCATTCTGACAAAATC	0.527													23	148	---	---	---	---	PASS	G	146480556	G	G	146480556	3	3	29	1	0	0	0	0	1	0	0	0	6796	913	32	2	779	2	GRM1	6	146480556	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	32299301	146480556	24634511	48	12481										
C6orf72	116254	broad.mit.edu	37	chr6	149903651	149903651	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	acgttttcccagtattctttCagtttttgaacatcatggtg	7	8	3	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr6:149903651C>T	uc003qmq.1	+	7	820	c.793C>T	c.(793-795)CAG>TAG	p.Q265*		NM_138785	NP_620140	Q9NU53	CF072_HUMAN	hypothetical protein LOC116254 precursor	265	Extracellular (Potential).					integral to membrane					0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;9.66e-12)|GBM - Glioblastoma multiforme(68;0.171)		AGTATTCTTTCAGTTTTTGAA	0.363													6	320	---	---	---	---	PASS	T	149903651	T	T	149903651	4	4	29	1	0	0	0	0	0	1	0	0	2371	827	29	2	819	2	C6orf72	6	149903651	Nonsense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	3423095	149903651	21211416	49	12482										
GLI3	2737	broad.mit.edu	37	chr7	42005902	42005902	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttgaggcggtactgctgggcGggcgtgaggctgagcaggct	20	8	0	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr7:42005902G>A	uc011kbh.1	-	15	2860	c.2769C>T	c.(2767-2769)CCC>CCT	p.P923P	GLI3_uc011kbg.1_Silent_p.P864P	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	923					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						ACTGCTGGGCGGGCGTGAGGC	0.716									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				7	16	---	---	---	---	PASS	A	42005902	A	A	42005902	2	1	29	1	0	0	0	0	0	0	0	1	6439	1103	39	1		1	GLI3	7	42005902	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08		42005902	117132761	50	12483										
TNS3	64759	broad.mit.edu	37	chr7	47408322	47408322	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tacacccctctggacagccaCcctactgctggtccctcggg	9	18	1	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr7:47408322C>G	uc003tnv.2	-	17	2288	c.1921G>C	c.(1921-1923)GTG>CTG	p.V641L	TNS3_uc003tnw.2_Missense_Mutation_p.V641L	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	641						focal adhesion	protein binding			ovary(4)	4						TGGACAGCCACCCTACTGCTG	0.662													41	166	---	---	---	---	PASS	G	47408322	G	G	47408322	3	3	29	1	0	0	0	0	1	0	0	0	16341	507	18	4	2476	4	TNS3	7	47408322	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	5402420	47408322	111730341	51	12484										
BAZ1B	9031	broad.mit.edu	37	chr7	72892464	72892464	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cttctgcgtgcctttggccaTatccaacaaagtcatctgct	7	13	3	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr7:72892464T>C	uc003tyc.2	-	7	1672	c.1327A>G	c.(1327-1329)ATG>GTG	p.M443V		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	443	Lys-rich.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				CCTTTGGCCATATCCAACAAA	0.478													74	232	---	---	---	---	PASS	C	72892464	C	C	72892464	3	2	29	1	0	0	0	0	1	0	0	0	1330	1406	49	5	3176	5	BAZ1B	7	72892464	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08	25484142	72892464	86246199	52	12485										
LRRN3	54674	broad.mit.edu	37	chr7	110763554	110763554	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gaaaacttagaaagcatctcTttttacgataacaggcttat	6	7	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr7:110763554T>G	uc003vft.3	+	4	1772	c.726T>G	c.(724-726)TCT>TCG	p.S242S	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Silent_p.S242S|LRRN3_uc003vfs.3_Silent_p.S242S	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	242	Extracellular (Potential).|LRR 8.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		AAAGCATCTCTTTTTACGATA	0.348													65	123	---	---	---	---	PASS	G	110763554	G	G	110763554	2	3	29	1	0	0	0	0	0	0	0	1	9036	1596	56	5		5	LRRN3	7	110763554	Silent	SNP	T	TCGA-22-0944-01A-01D-1521-08	37871090	110763554	48375109	53	12486										
CFTR	1080	broad.mit.edu	37	chr7	117232171	117232171	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ctcatgggatgtgattctttCgaccaatttagtgcagaaag	10	7	2	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr7:117232171C>T	uc003vjd.2	+	14	2082	c.1950C>T	c.(1948-1950)TTC>TTT	p.F650F	CFTR_uc011knq.1_Silent_p.F56F	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	650	Cytoplasmic (Potential).				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	GTGATTCTTTCGACCAATTTA	0.383									Cystic_Fibrosis				9	143	---	---	---	---	PASS	T	117232171	T	T	117232171	2	4	29	1	0	0	0	0	0	0	0	1	3294	883	31	2		2	CFTR	7	117232171	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	6468617	117232171	41906492	54	12487										
CCDC136	64753	broad.mit.edu	37	chr7	128452070	128452070	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	agtcctacgggaagagctatGgtagcatggtccccagcaat	12	10	0	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr7:128452070G>A	uc003vnv.1	+	13	2612	c.2245G>A	c.(2245-2247)GGT>AGT	p.G749S	CCDC136_uc003vnu.1_Intron|CCDC136_uc003vnw.1_Intron|CCDC136_uc003vnx.1_Missense_Mutation_p.G565S|CCDC136_uc010llq.1_Missense_Mutation_p.G118S|CCDC136_uc003vny.1_Missense_Mutation_p.G359S	NM_022742	NP_073579	Q96JN2	CC136_HUMAN	coiled-coil domain containing 136	749						integral to membrane	protein binding			ovary(2)	2						GAAGAGCTATGGTAGCATGGT	0.498													50	127	---	---	---	---	PASS	A	128452070	A	A	128452070	3	1	29	1	0	0	0	0	1	0	0	0	2770	1348	47	3	2295	3	CCDC136	7	128452070	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	11219899	128452070	30686593	55	12488										
FLNC	2318	broad.mit.edu	37	chr7	128494225	128494225	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tgtttggggacttcctgggcCgggagcgcctgggatccttc	16	11	0	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr7:128494225C>T	uc003vnz.3	+	40	6891	c.6682C>T	c.(6682-6684)CGG>TGG	p.R2228W	FLNC_uc003voa.3_Missense_Mutation_p.R2195W	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2228	Intradomain insert.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CTTCCTGGGCCGGGAGCGCCT	0.716													9	33	---	---	---	---	PASS	T	128494225	T	T	128494225	3	4	29	1	0	0	0	0	1	0	0	0	5935	643	23	1	6840	1	FLNC	7	128494225	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	42155	128494225	30644438	56	12489										
AHCYL2	23382	broad.mit.edu	37	chr7	129040166	129040166	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cctggaagggagagtcagaaGatgacttttggtggtgtatc	15	5	1	4			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr7:129040166G>A	uc011kov.1	+	6	913	c.859G>A	c.(859-861)GAT>AAT	p.D287N	AHCYL2_uc003vot.2_Missense_Mutation_p.D286N|AHCYL2_uc003vov.2_Missense_Mutation_p.D184N|AHCYL2_uc011kow.1_Missense_Mutation_p.D185N|AHCYL2_uc011kox.1_Missense_Mutation_p.D184N	NM_015328	NP_056143	Q96HN2	SAHH3_HUMAN	S-adenosylhomocysteine hydrolase-like 2 isoform	287					one-carbon metabolic process		adenosylhomocysteinase activity	p.D287G(1)		ovary(2)	2						AGAGTCAGAAGATGACTTTTG	0.448													63	118	---	---	---	---	PASS	A	129040166	A	A	129040166	3	1	29	1	0	0	0	0	1	0	0	0	411	942	33	2	1003	2	AHCYL2	7	129040166	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	545941	129040166	30098497	57	12490										
TAS2R41	259287	broad.mit.edu	37	chr7	143175723	143175723	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ctttctgtccctgatcattgAtgccgcaaaatttatctcca	5	12	3	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr7:143175723A>G	uc003wdc.1	+	1	758	c.758A>G	c.(757-759)GAT>GGT	p.D253G	uc003wda.2_Intron	NM_176883	NP_795364	P59536	T2R41_HUMAN	taste receptor, type 2, member 41	253	Helical; Name=6; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			pancreas(1)|skin(1)	2	Melanoma(164;0.15)					CTGATCATTGATGCCGCAAAA	0.498													55	137	---	---	---	---	PASS	G	143175723	G	G	143175723	3	3	29	1	0	0	0	0	1	0	0	0	15576	333	12	5	760	5	TAS2R41	7	143175723	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	14135557	143175723	15962940	58	12491										
GIMAP8	155038	broad.mit.edu	37	chr7	150174631	150174631	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	aactcagataacaaagccctTcggcgcatttttaaaaagtg	7	9	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr7:150174631T>A	uc003whj.2	+	5	2091	c.1761T>A	c.(1759-1761)CTT>CTA	p.L587L		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	587						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		ACAAAGCCCTTCGGCGCATTT	0.468													74	162	---	---	---	---	PASS	A	150174631	A	A	150174631	2	1	29	1	0	0	0	0	0	0	0	1	6385	1770	62	5		5	GIMAP8	7	150174631	Silent	SNP	T	TCGA-22-0944-01A-01D-1521-08	6998908	150174631	8964032	59	12492										
CLN8	2055	broad.mit.edu	37	chr8	1728668	1728668	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	atccggtggactggaacttcGcacagccagaagccaagagc	12	12	0	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr8:1728668G>T	uc003wpo.3	+	3	1101	c.796G>T	c.(796-798)GCA>TCA	p.A266S		NM_018941	NP_061764	Q9UBY8	CLN8_HUMAN	ceroid-lipofuscinosis, neuronal 8	266					cell death|ceramide biosynthetic process|cholesterol metabolic process|lipid transport|negative regulation of proteolysis|phospholipid metabolic process	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(12;0.0563)|Colorectal(14;0.0815)|Hepatocellular(245;0.0831)		BRCA - Breast invasive adenocarcinoma(11;7.67e-05)|READ - Rectum adenocarcinoma(644;0.0913)		CTGGAACTTCGCACAGCCAGA	0.577													65	153	---	---	---	---	PASS	T	1728668	T	T	1728668	3	4	29	1	0	0	0	0	1	0	0	0	3546	1087	38	1	802	1	CLN8	8	1728668	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08		1728668	144635354	60	12493										
AMAC1L2	83650	broad.mit.edu	37	chr8	11189016	11189016	+	Missense_Mutation	SNP	G	C	C													0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tggcaacgctgccactgttcGcaaaggttcttccaccgtat							TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr8:11189016G>C	uc003wtp.1	+	1	522	c.401G>C	c.(400-402)CGC>CCC	p.R134P		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	134	DUF6 1.					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		GCCACTGTTCGCAAAGGTTCT	0.607													70	168	---	---	---	---	PASS	C	11189016	C	C	11189016	3	2	29	1	0	0	0	0	1	0	0	0	560	1087	38	4	403	4	AMAC1L2	8	11189016	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	9460348	11189016	135175006	61	12494	332	2								
AMAC1L2	83650	broad.mit.edu	37	chr8	11189017	11189017	+	Silent	SNP	C	T	T													0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ggcaacgctgccactgttcgCaaaggttcttccaccgtatg							TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr8:11189017C>T	uc003wtp.1	+	1	523	c.402C>T	c.(400-402)CGC>CGT	p.R134R		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	134	DUF6 1.					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		CCACTGTTCGCAAAGGTTCTT	0.607													71	172	---	---	---	---	PASS	T	11189017	T	T	11189017	2	4	29	1	0	0	0	0	0	0	0	1	560	697	25	3		3	AMAC1L2	8	11189017	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	1	11189017	135175005	62	12495	332	2								
DOCK5	80005	broad.mit.edu	37	chr8	25126369	25126369	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttgctctgacaggttggtacAgaggatataccctccaaaat	9	9	1	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr8:25126369A>G	uc003xeg.2	+	3	273	c.136A>G	c.(136-138)AGA>GGA	p.R46G	DOCK5_uc010luf.1_RNA|DOCK5_uc003xef.2_Missense_Mutation_p.R46G	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	46	SH3.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		AGGTTGGTACAGAGGATATAC	0.299													5	22	---	---	---	---	PASS	G	25126369	G	G	25126369	3	3	29	1	0	0	0	0	1	0	0	0	4690	180	7	5	146	5	DOCK5	8	25126369	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	13937352	25126369	121237653	63	12496										
RP1	6101	broad.mit.edu	37	chr8	55540872	55540872	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	attagaaaaccatgacactgAtatctttaatacagtggtaa	6	6	1	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr8:55540872A>T	uc003xsd.1	+	4	4578	c.4430A>T	c.(4429-4431)GAT>GTT	p.D1477V	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1477					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CATGACACTGATATCTTTAAT	0.358													36	93	---	---	---	---	PASS	T	55540872	T	T	55540872	3	4	29	1	0	0	0	0	1	0	0	0	13532	333	12	5	4440	5	RP1	8	55540872	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	30414503	55540872	90823150	64	12497										
TRPA1	8989	broad.mit.edu	37	chr8	72935258	72935258	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tgaaaagaacaatggctatcAtcatcctctgtctcagagat	7	9	4	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr8:72935258A>T	uc003xza.2	-	27	3418	c.3243T>A	c.(3241-3243)GAT>GAA	p.D1081E	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	1081	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AATGGCTATCATCATCCTCTG	0.398													45	106	---	---	---	---	PASS	T	72935258	T	T	72935258	3	4	29	1	0	0	0	0	1	0	0	0	16574	214	8	5	120	5	TRPA1	8	72935258	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	17394386	72935258	73428764	65	12498										
CSMD3	114788	broad.mit.edu	37	chr8	113299462	113299462	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gtacctggatcgccacatgtCccagtagcatcacctgcaat	8	14	1	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr8:113299462C>A	uc003ynu.2	-	58	9321	c.9162G>T	c.(9160-9162)GGG>GGT	p.G3054G	CSMD3_uc003yns.2_Silent_p.G2256G|CSMD3_uc003ynt.2_Silent_p.G3014G|CSMD3_uc011lhx.1_Silent_p.G2885G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3054	Extracellular (Potential).|Sushi 22.					integral to membrane|plasma membrane		p.G3054E(1)		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						CGCCACATGTCCCAGTAGCAT	0.438										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			45	100	---	---	---	---	PASS	A	113299462	A	A	113299462	2	1	29	1	0	0	0	0	0	0	0	1	3946	842	30	2		2	CSMD3	8	113299462	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	40364204	113299462	33064560	66	12499										
CSMD3	114788	broad.mit.edu	37	chr8	113395831	113395831	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gtcttggagcattgttgtctCccccatcataaaagtccaga	8	11	3	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr8:113395831C>A	uc003ynu.2	-	37	6155	c.5996G>T	c.(5995-5997)GGA>GTA	p.G1999V	CSMD3_uc003yns.2_Missense_Mutation_p.G1201V|CSMD3_uc003ynt.2_Missense_Mutation_p.G1959V|CSMD3_uc011lhx.1_Missense_Mutation_p.G1895V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1999	Extracellular (Potential).|CUB 11.					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						ATTGTTGTCTCCCCCATCATA	0.318										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			32	91	---	---	---	---	PASS	A	113395831	A	A	113395831	3	1	29	1	0	0	0	0	1	0	0	0	3946	855	30	2	5267	2	CSMD3	8	113395831	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	96369	113395831	32968191	67	12500										
SH3GL2	6456	broad.mit.edu	37	chr9	17795590	17795590	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	agctctgtacgactttgaacCtgaaaatgaaggggagttgg	13	6	1	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr9:17795590C>A	uc003zna.2	+	9	1196	c.908C>A	c.(907-909)CCT>CAT	p.P303H	SH3GL2_uc011lmy.1_Missense_Mutation_p.P256H	NM_003026	NP_003017	Q99962	SH3G2_HUMAN	SH3-domain GRB2-like 2	303	SH3.				axon guidance|central nervous system development|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	cytosol|Golgi membrane|plasma membrane	identical protein binding|lipid binding			skin(1)	1				GBM - Glioblastoma multiforme(50;2.71e-10)|Lung(42;0.203)		GACTTTGAACCTGAAAATGAA	0.468													44	37	---	---	---	---	PASS	A	17795590	A	A	17795590	3	1	29	1	0	0	0	0	1	0	0	0	14251	681	24	3	942	3	SH3GL2	9	17795590	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08		17795590	123417841	68	12501										
DCAF10	79269	broad.mit.edu	37	chr9	37801401	37801401	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	acctcgagtactcgcccgacGggtaagcgcggcccctcgga	13	16	0	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr9:37801401G>T	uc004aao.2	+	1	612	c.538G>T	c.(538-540)GGG>TGG	p.G180W	uc004aan.1_5'Flank|DCAF10_uc010mlz.2_Intron	NM_024345	NP_077321	Q5QP82	DCA10_HUMAN	WD repeat domain 32	180	WD 1.					CUL4 RING ubiquitin ligase complex				central_nervous_system(1)	1						CTCGCCCGACGGGTAAGCGCG	0.736													8	16	---	---	---	---	PASS	T	37801401	T	T	37801401	3	4	29	1	0	0	0	0	1	0	0	0	4261	1130	39	1	540	1	DCAF10	9	37801401	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	20005811	37801401	103412030	69	12502										
C9orf102	375748	broad.mit.edu	37	chr9	98683538	98683538	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	aggacgtgactttgatacttCaatcttctgagccttgtacc	8	10	3	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr9:98683538C>T	uc004avt.3	+	7	1661	c.1273C>T	c.(1273-1275)CAA>TAA	p.Q425*	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Nonsense_Mutation_p.Q127*|C9orf102_uc010mry.1_Nonsense_Mutation_p.Q127*|C9orf102_uc010mrz.2_Nonsense_Mutation_p.Q236*|C9orf102_uc004avu.2_5'Flank	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	425					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				TTTGATACTTCAATCTTCTGA	0.348													8	142	---	---	---	---	PASS	T	98683538	T	T	98683538	4	4	29	1	0	0	0	0	0	1	0	0	2445	827	29	2	1299	2	C9orf102	9	98683538	Nonsense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	60882137	98683538	42529893	70	12503										
COL15A1	1306	broad.mit.edu	37	chr9	101778305	101778305	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gcagccacaacagaggagccCctcatcacagctgggggtga	13	13	2	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr9:101778305C>G	uc004azb.1	+	11	1757	c.1551C>G	c.(1549-1551)CCC>CCG	p.P517P		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	517	Nonhelical region 1 (NC1).|4.|4 X tandem repeats.				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				CAGAGGAGCCCCTCATCACAG	0.592													16	34	---	---	---	---	PASS	G	101778305	G	G	101778305	2	3	29	1	0	0	0	0	0	0	0	1	3672	610	22	4		4	COL15A1	9	101778305	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	3094767	101778305	39435126	71	12504										
OR1Q1	158131	broad.mit.edu	37	chr9	125377461	125377461	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tgaagatggtggtcatgtgcCatgctctctcccaccttcat	9	12	3	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr9:125377461C>A	uc011lyy.1	+	1	445	c.445C>A	c.(445-447)CAT>AAT	p.H149N		NM_012364	NP_036496	Q15612	OR1Q1_HUMAN	olfactory receptor, family 1, subfamily Q,	149	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GGTCATGTGCCATGCTCTCTC	0.488													47	218	---	---	---	---	PASS	A	125377461	A	A	125377461	3	1	29	1	0	0	0	0	1	0	0	0	10971	594	21	3	447	3	OR1Q1	9	125377461	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	23599156	125377461	15835970	72	12505										
OR1L4	254973	broad.mit.edu	37	chr9	125487159	125487159	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tacagcctgaggaacaaagaTatgaaaaggggtttgaagaa	12	4	0	5			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr9:125487159T>C	uc004bmu.1	+	1	891	c.891T>C	c.(889-891)GAT>GAC	p.D297D		NM_001005235	NP_001005235	Q8NGR5	OR1L4_HUMAN	olfactory receptor, family 1, subfamily L,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGAACAAAGATATGAAAAGGG	0.398													52	77	---	---	---	---	PASS	C	125487159	C	C	125487159	2	2	29	1	0	0	0	0	0	0	0	1	10965	1403	49	5		5	OR1L4	9	125487159	Silent	SNP	T	TCGA-22-0944-01A-01D-1521-08	109698	125487159	15726272	73	12506										
NUP188	23511	broad.mit.edu	37	chr9	131745571	131745571	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	agtgtattgttctccaaccaGgttaacgacagtgatctccc	8	11	2	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr9:131745571G>A	uc004bws.1	+	18	1819	c.1797_splice	c.e18-1	p.R599_splice	NUP188_uc004bwu.2_5'Flank	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa						carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						TCTCCAACCAGGTTAACGACA	0.463													5	225	---	---	---	---	PASS	A	131745571	A	A	131745571	5	1	29	1	0	0	0	0	0	0	1	0	10758	1014	35	3	1866	3	NUP188	9	131745571	Splice_Site	SNP	G	TCGA-22-0944-01A-01D-1521-08	6258412	131745571	9467860	74	12507										
C10orf18	54906	broad.mit.edu	37	chr10	5803317	5803317	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttcagagtgcaaatatcattGaattgcttcattatcaccag	6	8	4	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr10:5803317G>C	uc001iij.2	+	19	7682	c.7057G>C	c.(7057-7059)GAA>CAA	p.E2353Q	C10orf18_uc001iik.2_Missense_Mutation_p.E1197Q	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	2353										ovary(1)|central_nervous_system(1)	2						AAATATCATTGAATTGCTTCA	0.338													7	245	---	---	---	---	PASS	C	5803317	C	C	5803317	3	2	29	1	0	0	0	0	1	0	0	0	1596	1291	45	2	7119	2	C10orf18	10	5803317	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08		5803317	129731430	75	12508										
MYO3A	53904	broad.mit.edu	37	chr10	26310568	26310568	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tcccatgagagcactcttcaAaataccaaggtcagatgact	7	11	3	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr10:26310568A>C	uc001isn.2	+	8	1082	c.722A>C	c.(721-723)AAA>ACA	p.K241T	MYO3A_uc009xko.1_Missense_Mutation_p.K241T|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Missense_Mutation_p.K241T|MYO3A_uc001ism.2_Missense_Mutation_p.K241T	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	241	Protein kinase.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GCACTCTTCAAAATACCAAGG	0.507													59	133	---	---	---	---	PASS	C	26310568	C	C	26310568	3	2	29	1	0	0	0	0	1	0	0	0	10076	14	1	5	744	5	MYO3A	10	26310568	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	20507251	26310568	109224179	76	12509										
CCNY	219771	broad.mit.edu	37	chr10	35854998	35854998	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	attgctgcagttcaacatcaAtgttccttccagtgtctatg	7	10	3	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr10:35854998A>G	uc001iyw.3	+	9	974	c.794A>G	c.(793-795)AAT>AGT	p.N265S	CCNY_uc001iyu.3_Missense_Mutation_p.N211S|CCNY_uc001iyv.3_Missense_Mutation_p.N211S|CCNY_uc001iyx.3_Missense_Mutation_p.N211S|CCNY_uc009xmb.2_Missense_Mutation_p.N240S|CCNY_uc010qet.1_Missense_Mutation_p.N132S	NM_145012	NP_659449	Q8ND76	CCNY_HUMAN	cyclin Y isoform 1	265	Cyclin N-terminal.				cell division|G2/M transition of mitotic cell cycle|positive regulation of cyclin-dependent protein kinase activity|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	cyclin-dependent protein kinase regulator activity|protein kinase binding				0						TTCAACATCAATGTTCCTTCC	0.483													75	247	---	---	---	---	PASS	G	35854998	G	G	35854998	3	3	29	1	0	0	0	0	1	0	0	0	2936	101	4	5	828	5	CCNY	10	35854998	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	9544430	35854998	99679749	77	12510										
BMPR1A	657	broad.mit.edu	37	chr10	88672053	88672053	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	caatcgtgatttggaacaggAtgaagcatttattccagttg	10	6	0	2	rs141608069		TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr10:88672053A>T	uc001kdy.2	+	8	1135	c.587A>T	c.(586-588)GAT>GTT	p.D196V		NM_004329	NP_004320	P36894	BMR1A_HUMAN	bone morphogenetic protein receptor, type IA	196	Cytoplasmic (Potential).				BMP signaling pathway|immune response|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	integral to membrane|plasma membrane	ATP binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta receptor activity			lung(3)|large_intestine(1)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	8						TTGGAACAGGATGAAGCATTT	0.358			Mis|N|F			gastrointestinal polyps			Hereditary_Mixed_Polyposis_syndrome_type_2|Juvenile_Polyposis				50	80	---	---	---	---	PASS	T	88672053	T	T	88672053	3	4	29	1	0	0	0	0	1	0	0	0	1469	333	12	5	609	5	BMPR1A	10	88672053	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	52817055	88672053	46862694	78	12511										
OR52B2	255725	broad.mit.edu	37	chr11	6191414	6191414	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gttccatgacaataaccactAtcaggatgctgtttcccagg	8	11	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr11:6191414A>T	uc010qzy.1	-	1	143	c.143T>A	c.(142-144)ATA>AAA	p.I48K		NM_001004052	NP_001004052	Q96RD2	O52B2_HUMAN	olfactory receptor, family 52, subfamily B,	48	Helical; Name=1; (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;3.69e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AATAACCACTATCAGGATGCT	0.498													54	117	---	---	---	---	PASS	T	6191414	T	T	6191414	3	4	29	1	0	0	0	0	1	0	0	0	11111	449	16	5	831	5	OR52B2	11	6191414	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08		6191414	128815102	79	12512										
CNGA4	1262	broad.mit.edu	37	chr11	6265463	6265463	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttgctcgcctcctggctgagCtggagtccagcgcacttaag	12	13	0	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr11:6265463C>A	uc001mco.2	+	6	1659	c.1552C>A	c.(1552-1554)CTG>ATG	p.L518M	CNGA4_uc010raa.1_3'UTR|CNGA4_uc001mcn.2_3'UTR	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	518	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCTGGCTGAGCTGGAGTCCAG	0.597													39	109	---	---	---	---	PASS	A	6265463	A	A	6265463	3	1	29	1	0	0	0	0	1	0	0	0	3599	796	28	3	1574	3	CNGA4	11	6265463	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	74049	6265463	128741053	80	12513										
OR2AG2	338755	broad.mit.edu	37	chr11	6789694	6789694	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	caggacacacagaaagggagGtgcatagtgtacatggtatg	14	6	0	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr11:6789694G>T	uc001meq.1	-	1	495	c.495C>A	c.(493-495)CAC>CAA	p.H165Q		NM_001004490	NP_001004490	A6NM03	O2AG2_HUMAN	olfactory receptor, family 2, subfamily AG,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		AGAAAGGGAGGTGCATAGTGT	0.512													53	95	---	---	---	---	PASS	T	6789694	T	T	6789694	3	4	29	1	0	0	0	0	1	0	0	0	10985	1252	44	3	459	3	OR2AG2	11	6789694	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	524231	6789694	128216822	81	12514										
TRAF6	7189	broad.mit.edu	37	chr11	36522776	36522776	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttatgctcacgtaccttattGattttatgatgcaggctttg	8	7	1	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr11:36522776G>A	uc001mwr.1	-	3	630	c.290C>T	c.(289-291)TCA>TTA	p.S97L	TRAF6_uc001mws.1_Missense_Mutation_p.S97L	NM_145803	NP_665802	Q9Y4K3	TRAF6_HUMAN	TNF receptor-associated factor 6	97	Interaction with TAX1BP1.|RING-type.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|ossification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell cytokine production|protein autoubiquitination|protein K63-linked ubiquitination|response to interleukin-1|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cell cortex|cytosol|endosome membrane|internal side of plasma membrane|nuclear membrane	histone deacetylase binding|mitogen-activated protein kinase kinase kinase binding|protein kinase B binding|protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				GTACCTTATTGATTTTATGAT	0.423													7	19	---	---	---	---	PASS	A	36522776	A	A	36522776	3	1	29	1	0	0	0	0	1	0	0	0	16442	1294	45	2	1302	2	TRAF6	11	36522776	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	29733082	36522776	98483740	82	12515										
PTPRJ	5795	broad.mit.edu	37	chr11	48164469	48164469	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gttttgttttgttttgttttAgatccccctcctccagatgg	8	9	0	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr11:48164469A>G	uc001ngp.3	+	12	2799	c.2444_splice	c.e12-2	p.D815_splice		NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J						contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						gttttgttttAGATCCCCCTC	0.398													15	32	---	---	---	---	PASS	G	48164469	G	G	48164469	5	3	29	1	0	0	0	0	0	0	1	0	12804	434	15	5	2497	5	PTPRJ	11	48164469	Splice_Site	SNP	A	TCGA-22-0944-01A-01D-1521-08	11641693	48164469	86842047	83	12516										
SPTBN2	6712	broad.mit.edu	37	chr11	66472844	66472844	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ccgtgattcctccagccgggCccgccgcgccgctgccaact	11	20	0	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr11:66472844C>A	uc001ojd.2	-	14	1975	c.1903G>T	c.(1903-1905)GCC>TCC	p.A635S		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	635	Spectrin 3.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						TCCAGCCGGGCCCGCCGCGCC	0.672													16	46	---	---	---	---	PASS	A	66472844	A	A	66472844	3	1	29	1	0	0	0	0	1	0	0	0	15119	739	26	3	5365	3	SPTBN2	11	66472844	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	18308375	66472844	68533672	84	12517										
TBC1D10C	374403	broad.mit.edu	37	chr11	67177085	67177085	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttgtggtgcagcccccggagGagcccagaccaccgcggcgg	16	15	0	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr11:67177085G>T	uc001ola.2	+	10	1230	c.1201G>T	c.(1201-1203)GAG>TAG	p.E401*	PPP1CA_uc001okx.1_Intron|TBC1D10C_uc001okz.2_3'UTR|TBC1D10C_uc001olb.2_RNA	NM_198517	NP_940919	Q8IV04	TB10C_HUMAN	TBC1 domain family, member 10C	401						intracellular	Rab GTPase activator activity				0			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			GCCCCCGGAGGAGCCCAGACC	0.726													7	4	---	---	---	---	PASS	T	67177085	T	T	67177085	4	4	29	1	0	0	0	0	0	1	0	0	15597	1175	41	2	1235	2	TBC1D10C	11	67177085	Nonsense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	704241	67177085	67829431	85	12518										
PRCP	5547	broad.mit.edu	37	chr11	82549495	82549495	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tagtagtgatccaggagggcCttggtctcacaccccactgt	11	12	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr11:82549495C>A	uc001ozs.2	-	8	1321	c.1208G>T	c.(1207-1209)AGG>ATG	p.R403M	PRCP_uc001ozr.2_Missense_Mutation_p.R424M	NM_005040	NP_005031	P42785	PCP_HUMAN	prolylcarboxypeptidase isoform 1 preproprotein	403					blood coagulation, intrinsic pathway|proteolysis	lysosome|plasma membrane	protein binding|serine-type carboxypeptidase activity			skin(1)	1						CCAGGAGGGCCTTGGTCTCAC	0.408													41	114	---	---	---	---	PASS	A	82549495	A	A	82549495	3	1	29	1	0	0	0	0	1	0	0	0	12449	681	24	3	290	3	PRCP	11	82549495	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	15372410	82549495	52457021	86	12519										
FAT3	120114	broad.mit.edu	37	chr11	92534971	92534971	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cgcgcaggaagtgtaccgagGgaatgtgaaggagagcgacc	17	8	0	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr11:92534971G>T	uc001pdj.3	+	9	8809	c.8792G>T	c.(8791-8793)GGG>GTG	p.G2931V		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2931	Cadherin 27.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GTGTACCGAGGGAATGTGAAG	0.542										TCGA Ovarian(4;0.039)			44	132	---	---	---	---	PASS	T	92534971	T	T	92534971	3	4	29	1	0	0	0	0	1	0	0	0	5691	1232	43	3	8826	3	FAT3	11	92534971	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	9985476	92534971	42471545	87	12520										
TECTA	7007	broad.mit.edu	37	chr11	121039502	121039502	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tgaagtagtgttgacgactcGagatgtgctgtatgtagggg	16	4	0	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr11:121039502G>A	uc010rzo.1	+	19	5867	c.5867G>A	c.(5866-5868)CGA>CAA	p.R1956Q		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1956	ZP.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TTGACGACTCGAGATGTGCTG	0.483													58	160	---	---	---	---	PASS	A	121039502	A	A	121039502	3	1	29	1	0	0	0	0	1	0	0	0	15744	1058	37	2	5941	2	TECTA	11	121039502	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	28504531	121039502	13967014	88	12521										
FLI1	2313	broad.mit.edu	37	chr11	128680432	128680432	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cgccagctgtatcacctgggAggggaccaacggggagttca	15	11	2	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr11:128680432A>T	uc010sbu.1	+	9	1249	c.908A>T	c.(907-909)GAG>GTG	p.E303V	FLI1_uc010sbt.1_Missense_Mutation_p.E110V|FLI1_uc010sbv.1_Missense_Mutation_p.E270V|FLI1_uc009zci.2_Missense_Mutation_p.E237V	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1	303	ETS.				hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		ATCACCTGGGAGGGGACCAAC	0.617			T	EWSR1	Ewing sarcoma								11	20	---	---	---	---	PASS	T	128680432	T	T	128680432	3	4	29	1	0	0	0	0	1	0	0	0	5924	304	11	5	942	5	FLI1	11	128680432	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	7640930	128680432	6326084	89	12522										
BCL2L14	79370	broad.mit.edu	37	chr12	12247859	12247859	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	catggatccagcagcacggtGgatgggtaagcgtatcctat	13	9	0	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr12:12247859G>A	uc001rac.2	+	5	1141	c.940G>A	c.(940-942)GGA>AGA	p.G314R	ETV6_uc001raa.1_Intron|BCL2L14_uc001raf.1_Intron|BCL2L14_uc001rad.2_Missense_Mutation_p.G314R|BCL2L14_uc001rae.2_3'UTR	NM_138723	NP_620049	Q9BZR8	B2L14_HUMAN	BCL2-like 14 isoform 1	314	BH2.				apoptosis|regulation of apoptosis	cytosol|endomembrane system|intracellular organelle|membrane	protein binding			skin(1)	1		Prostate(47;0.0872)		BRCA - Breast invasive adenocarcinoma(232;0.154)		GCAGCACGGTGGATGGGTAAG	0.428													34	77	---	---	---	---	PASS	A	12247859	A	A	12247859	3	1	29	1	0	0	0	0	1	0	0	0	1372	1349	47	3	1039	3	BCL2L14	12	12247859	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08		12247859	121604036	90	12523										
WBP11	51729	broad.mit.edu	37	chr12	14952603	14952603	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttctccatgtctcggattatCtgttttggatccttcatctt	6	10	5	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr12:14952603C>G	uc001rci.2	-	4	317	c.156G>C	c.(154-156)CAG>CAC	p.Q52H		NM_016312	NP_057396	Q9Y2W2	WBP11_HUMAN	WW domain binding protein 11	52					mRNA processing|RNA splicing|rRNA processing	cytoplasm	single-stranded DNA binding|WW domain binding			ovary(1)|lung(1)	2						CTCGGATTATCTGTTTTGGAT	0.413													13	64	---	---	---	---	PASS	G	14952603	G	G	14952603	3	3	29	1	0	0	0	0	1	0	0	0	17255	912	32	2	1805	2	WBP11	12	14952603	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	2704744	14952603	118899292	91	12524										
OVCH1	341350	broad.mit.edu	37	chr12	29617471	29617471	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cttccccatccggtcacagcAcagatctccgaggaaaatag	8	14	2	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr12:29617471A>G	uc001rix.1	-	18	2094	c.2094T>C	c.(2092-2094)TGT>TGC	p.C698C		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	698	Peptidase S1 2.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					CGGTCACAGCACAGATCTCCG	0.443													28	53	---	---	---	---	PASS	G	29617471	G	G	29617471	2	3	29	1	0	0	0	0	0	0	0	1	11323	157	6	5		5	OVCH1	12	29617471	Silent	SNP	A	TCGA-22-0944-01A-01D-1521-08	14664868	29617471	104234424	92	12525										
DNM1L	10059	broad.mit.edu	37	chr12	32871652	32871652	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tgccatggatgtattgatggGaagggttattccagtcaaac	12	6	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr12:32871652G>A	uc001rld.2	+	7	856	c.695G>A	c.(694-696)GGA>GAA	p.G232E	DNM1L_uc010skf.1_RNA|DNM1L_uc010skg.1_Intron|DNM1L_uc001rle.2_Missense_Mutation_p.G232E|DNM1L_uc001rlf.2_Missense_Mutation_p.G232E|DNM1L_uc010skh.1_Missense_Mutation_p.G298E|DNM1L_uc001rlg.2_Missense_Mutation_p.G298E|DNM1L_uc001rlh.2_Missense_Mutation_p.G285E|DNM1L_uc010ski.1_Intron	NM_012062	NP_036192	O00429	DNM1L_HUMAN	dynamin 1-like isoform 1	232	GTPase domain.				cellular component disassembly involved in apoptosis|mitochondrial fragmentation involved in apoptosis|mitochondrial membrane organization|positive regulation of mitochondrial fission	cis-Golgi network|cytosol|endomembrane system|endoplasmic reticulum|mitochondrial outer membrane	GTP binding|GTPase activity|ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2	Lung NSC(5;2.15e-06)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					GTATTGATGGGAAGGGTTATT	0.398													78	199	---	---	---	---	PASS	A	32871652	A	A	32871652	3	1	29	1	0	0	0	0	1	0	0	0	4671	1174	41	2	721	2	DNM1L	12	32871652	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	3254181	32871652	100980243	93	12526										
YARS2	51067	broad.mit.edu	37	chr12	32906869	32906869	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cacctttccactgaatcgtcCggttgcctgacaaagaattg	8	12	0	3	rs147551647	byFrequency	TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr12:32906869C>A	uc001rli.2	-	2	996	c.930G>T	c.(928-930)CCG>CCT	p.P310P		NM_001040436	NP_001035526	Q9Y2Z4	SYYM_HUMAN	tyrosyl-tRNA synthetase 2, mitochondrial	310					tyrosyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|RNA binding|tyrosine-tRNA ligase activity				0	Lung NSC(5;2.43e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)				L-Tyrosine(DB00135)	CTGAATCGTCCGGTTGCCTGA	0.398													80	257	---	---	---	---	PASS	A	32906869	A	A	32906869	2	1	29	1	0	0	0	0	0	0	0	1	17465	639	23	1		1	YARS2	12	32906869	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	35217	32906869	100945026	94	12527										
NAV3	89795	broad.mit.edu	37	chr12	78400573	78400573	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	aggatgatgatgccttttctGaatctggtgaaatggaaggt	13	4	2	4			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr12:78400573G>T	uc001syp.2	+	8	1428	c.1255G>T	c.(1255-1257)GAA>TAA	p.E419*	NAV3_uc001syo.2_Nonsense_Mutation_p.E419*	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	419						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TGCCTTTTCTGAATCTGGTGA	0.498										HNSCC(70;0.22)			88	142	---	---	---	---	PASS	T	78400573	T	T	78400573	4	4	29	1	0	0	0	0	0	1	0	0	10185	1291	45	2	1285	2	NAV3	12	78400573	Nonsense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	45493704	78400573	55451322	95	12528										
UTP20	27340	broad.mit.edu	37	chr12	101750711	101750711	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tctcattttctagtattttgCtgaaagtgtgtgccctactc	7	9	2	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr12:101750711C>T	uc001tia.1	+	43	5698	c.5542C>T	c.(5542-5544)CTG>TTG	p.L1848L		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1848	HEAT 2.				endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TAGTATTTTGCTGAAAGTGTG	0.368													15	60	---	---	---	---	PASS	T	101750711	T	T	101750711	2	4	29	1	0	0	0	0	0	0	0	1	17096	796	28	3		3	UTP20	12	101750711	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	23350138	101750711	32101184	96	12529										
DTX1	1840	broad.mit.edu	37	chr12	113531399	113531399	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cccgtgtgcctgacgcgggcCcccaagcccatcctgcaccc	10	21	0	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr12:113531399C>G	uc001tuk.1	+	4	1395	c.1059C>G	c.(1057-1059)GCC>GCG	p.A353A		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	353	Pro-rich.				negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						TGACGCGGGCCCCCAAGCCCA	0.716													15	16	---	---	---	---	PASS	G	113531399	G	G	113531399	2	3	29	1	0	0	0	0	0	0	0	1	4793	610	22	4		4	DTX1	12	113531399	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	11780688	113531399	20320496	97	12530										
CHFR	55743	broad.mit.edu	37	chr12	133419614	133419614	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cacatggcgtggtgagctttCacctgagtgcggcagttacg	14	10	1	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr12:133419614C>T	uc001ulf.2	-	17	2019	c.1935G>A	c.(1933-1935)GTG>GTA	p.V645V	CHFR_uc001ulc.1_RNA|CHFR_uc001ule.2_Silent_p.V633V|CHFR_uc010tbs.1_Silent_p.V644V|CHFR_uc001uld.2_Silent_p.V604V|CHFR_uc010tbt.1_Silent_p.V553V	NM_001161344	NP_001154816	Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains	645	PBZ-type.				cell division|mitosis|mitotic cell cycle checkpoint|modification-dependent protein catabolic process|protein polyubiquitination	PML body	nucleotide binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00552)|all_epithelial(31;0.226)		OV - Ovarian serous cystadenocarcinoma(86;2.59e-08)|Epithelial(86;6.38e-07)|all cancers(50;1.56e-05)		GGTGAGCTTTCACCTGAGTGC	0.527													5	29	---	---	---	---	PASS	T	133419614	T	T	133419614	2	4	29	1	0	0	0	0	0	0	0	1	3337	813	29	2		2	CHFR	12	133419614	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	19888215	133419614	432281	98	12531										
KLHL1	57626	broad.mit.edu	37	chr13	70681657	70681657	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cacaccgcttctctcttggcTtttgagcaggcgactctggc	10	14	3	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr13:70681657T>G	uc001vip.2	-	1	969	c.175A>C	c.(175-177)AGC>CGC	p.S59R	KLHL1_uc010thm.1_Missense_Mutation_p.S59R|ATXN8OS_uc010aej.1_RNA	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	59	Ser-rich.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		CTCTCTTGGCTTTTGAGCAGG	0.473													63	49	---	---	---	---	PASS	G	70681657	G	G	70681657	3	3	29	1	0	0	0	0	1	0	0	0	8365	1609	56	5	2115	5	KLHL1	13	70681657	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08		70681657	44488221	99	12532										
PRKD1	5587	broad.mit.edu	37	chr14	30133053	30133053	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	atgcacatctcttatggtaaTtcagaccacaccctggaaag	7	11	2	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr14:30133053T>C	uc001wqh.2	-	4	729	c.548A>G	c.(547-549)AAT>AGT	p.N183S		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	183	Phorbol-ester/DAG-type 1.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		CTTATGGTAATTCAGACCACA	0.368													193	123	---	---	---	---	PASS	C	30133053	C	C	30133053	3	2	29	1	0	0	0	0	1	0	0	0	12518	1493	52	5	2250	5	PRKD1	14	30133053	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08		30133053	77216487	100	12533										
LRFN5	145581	broad.mit.edu	37	chr14	42356395	42356395	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	attgataacattcctaagggGaccttctcccatttgcacaa	6	11	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr14:42356395G>A	uc001wvm.2	+	3	1765	c.567G>A	c.(565-567)GGG>GGA	p.G189G	LRFN5_uc010ana.2_Silent_p.G189G	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	189	Extracellular (Potential).|LRR 6.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TTCCTAAGGGGACCTTCTCCC	0.418										HNSCC(30;0.082)			42	38	---	---	---	---	PASS	A	42356395	A	A	42356395	2	1	29	1	0	0	0	0	0	0	0	1	8941	1161	41	2		2	LRFN5	14	42356395	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08	12223342	42356395	64993145	101	12534										
SIPA1L1	26037	broad.mit.edu	37	chr14	72138033	72138033	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	atacctgaaagatctggcagAaaagaatgtcaccaacaccc	7	11	2	4			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr14:72138033A>T	uc001xms.2	+	8	2801	c.2453A>T	c.(2452-2454)GAA>GTA	p.E818V	SIPA1L1_uc001xmt.2_Missense_Mutation_p.E818V|SIPA1L1_uc001xmu.2_Missense_Mutation_p.E818V|SIPA1L1_uc001xmv.2_Missense_Mutation_p.E818V|SIPA1L1_uc010ttm.1_Missense_Mutation_p.E293V	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	818	Rap-GAP.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		GATCTGGCAGAAAAGAATGTC	0.483													18	76	---	---	---	---	PASS	T	72138033	T	T	72138033	3	4	29	1	0	0	0	0	1	0	0	0	14329	246	9	5	2479	5	SIPA1L1	14	72138033	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	29781638	72138033	35211507	102	12535										
RPS6KA5	9252	broad.mit.edu	37	chr14	91366504	91366504	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gttactttttttatgcacacActttcgacaaattgaaaaac	4	8	0	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr14:91366504A>G	uc001xys.2	-	11	1542	c.1327T>C	c.(1327-1329)TGT>CGT	p.C443R	RPS6KA5_uc010twi.1_Missense_Mutation_p.C364R|RPS6KA5_uc001xyt.2_Missense_Mutation_p.C443R	NM_004755	NP_004746	O75582	KS6A5_HUMAN	ribosomal protein S6 kinase, polypeptide 5	443	Protein kinase 2.				axon guidance|epidermal growth factor receptor signaling pathway|histone phosphorylation|innate immune response|interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter|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	cytoplasm|nucleoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1		all_cancers(154;0.0148)|Melanoma(154;0.099)|all_epithelial(191;0.146)		Epithelial(152;0.182)|BRCA - Breast invasive adenocarcinoma(234;0.201)		TTATGCACACACTTTCGACAA	0.338													7	198	---	---	---	---	PASS	G	91366504	G	G	91366504	3	3	29	1	0	0	0	0	1	0	0	0	13654	159	6	5	1115	5	RPS6KA5	14	91366504	Missense_Mutation	SNP	A	TCGA-22-0944-01A-01D-1521-08	19228471	91366504	15983036	103	12536										
MARK3	4140	broad.mit.edu	37	chr14	103941438	103941438	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ctcccggaaatcaagtggcaGtgctgttggaggaaagggaa	15	7	1	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr14:103941438G>T	uc001ymz.3	+	13	2039	c.1373G>T	c.(1372-1374)AGT>ATT	p.S458I	MARK3_uc001ymx.3_Missense_Mutation_p.S458I|MARK3_uc001ymw.3_Missense_Mutation_p.S458I|MARK3_uc001yna.3_Missense_Mutation_p.S442I|MARK3_uc001ymy.3_Missense_Mutation_p.S379I|MARK3_uc010awp.2_Missense_Mutation_p.S481I|MARK3_uc010tyb.1_Missense_Mutation_p.S253I|MARK3_uc010awq.2_5'UTR	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	458							ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			TCAAGTGGCAGTGCTGTTGGA	0.483													56	33	---	---	---	---	PASS	T	103941438	T	T	103941438	3	4	29	1	0	0	0	0	1	0	0	0	9314	1029	36	3	1423	3	MARK3	14	103941438	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	12574934	103941438	3408102	104	12537										
OR4M2	390538	broad.mit.edu	37	chr15	22369231	22369231	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tgctctgttaatgtcctatgCcttccttctggccttgttca	7	12	3	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr15:22369231C>A	uc010tzu.1	+	1	656	c.656C>A	c.(655-657)GCC>GAC	p.A219D	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	219	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		ATGTCCTATGCCTTCCTTCTG	0.478													53	543	---	---	---	---	PASS	A	22369231	A	A	22369231	3	1	29	1	0	0	0	0	1	0	0	0	11076	739	26	3	658	3	OR4M2	15	22369231	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08		22369231	80162161	105	12538										
B2M	567	broad.mit.edu	37	chr15	45007661	45007661	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tactcacgtcatccagcagaGaatggaaagtcaaatttcct	7	10	3	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr15:45007661G>A	uc001zuc.2	+	2	168	c.108G>A	c.(106-108)GAG>GAA	p.E36E	B2M_uc010uek.1_Silent_p.E36E|B2M_uc010bdx.1_Silent_p.E36E	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor	36	Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding			ovary(2)|skin(1)	3		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		ATCCAGCAGAGAATGGAAAGT	0.408													31	267	---	---	---	---	PASS	A	45007661	A	A	45007661	2	1	29	1	0	0	0	0	0	0	0	1	1244	933	33	2		2	B2M	15	45007661	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08	22638430	45007661	57523731	106	12539										
IGF1R	3480	broad.mit.edu	37	chr15	99456467	99456467	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ggtggagaacgaccatatccGtggggccaagagtgagatct	15	8	1	3	rs56248469		TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr15:99456467G>A	uc002bul.2	+	8	1834	c.1784G>A	c.(1783-1785)CGT>CAT	p.R595H	IGF1R_uc010urq.1_Missense_Mutation_p.R595H|IGF1R_uc010bon.2_Missense_Mutation_p.R595H|IGF1R_uc010urr.1_Missense_Mutation_p.R45H	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	595	Fibronectin type-III 1.				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	GACCATATCCGTGGGGCCAAG	0.557													75	214	---	---	---	---	PASS	A	99456467	A	A	99456467	3	1	29	1	0	0	0	0	1	0	0	0	7571	1145	40	1	1814	1	IGF1R	15	99456467	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	54448806	99456467	3074925	107	12540										
SLC6A2	6530	broad.mit.edu	37	chr16	55719106	55719106	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gggattcatgacatcggcctGccccagtggcagctcttgct	12	13	2	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr16:55719106G>T	uc002eif.2	+	5	807	c.696G>T	c.(694-696)CTG>CTT	p.L232L	SLC6A2_uc010ccd.2_Silent_p.L232L|SLC6A2_uc002eig.2_Silent_p.L232L|SLC6A2_uc002eih.2_Silent_p.L232L|SLC6A2_uc002eii.2_Silent_p.L127L|SLC6A2_uc002eij.2_5'UTR	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	232	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	ACATCGGCCTGCCCCAGTGGC	0.557													12	42	---	---	---	---	PASS	T	55719106	T	T	55719106	2	4	29	1	0	0	0	0	0	0	0	1	14683	1306	46	3		3	SLC6A2	16	55719106	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08		55719106	34635647	108	12541										
CDH16	1014	broad.mit.edu	37	chr16	66946299	66946299	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gcatggccaccagagtcccgGgctccacatcctcagggagg	13	15	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr16:66946299G>T	uc002eql.2	-	12	1467	c.1394C>A	c.(1393-1395)CCC>CAC	p.P465H	CDH16_uc010cdy.2_Missense_Mutation_p.P465H|CDH16_uc002eqm.2_Missense_Mutation_p.P368H	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	465	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		CAGAGTCCCGGGCTCCACATC	0.607													105	53	---	---	---	---	PASS	T	66946299	T	T	66946299	3	4	29	1	0	0	0	0	1	0	0	0	3101	1232	43	3	1123	3	CDH16	16	66946299	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	11227193	66946299	23408454	109	12542										
FTSJD1	55783	broad.mit.edu	37	chr16	71319357	71319357	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	accgatgggattttaagtagTggttgagactagctataaaa	11	4	0	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr16:71319357T>G	uc010cga.2	-	3	873	c.467A>C	c.(466-468)CAC>CCC	p.H156P	FTSJD1_uc002ezy.3_Missense_Mutation_p.H156P|FTSJD1_uc002ezz.3_Missense_Mutation_p.H156P	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	156						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						TTTTAAGTAGTGGTTGAGACT	0.413													177	112	---	---	---	---	PASS	G	71319357	G	G	71319357	3	3	29	1	0	0	0	0	1	0	0	0	6090	1696	59	5	1849	5	FTSJD1	16	71319357	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08	4373058	71319357	19035396	110	12543										
AP1G1	164	broad.mit.edu	37	chr16	71795457	71795457	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ataagaaacgacccaggataTttatggctaggacctaaaga	9	7	0	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr16:71795457T>C	uc010cgg.2	-	10	1246	c.932A>G	c.(931-933)AAT>AGT	p.N311S	AP1G1_uc002fba.2_Missense_Mutation_p.N314S|AP1G1_uc002fbb.2_Missense_Mutation_p.N334S|AP1G1_uc010vmg.1_RNA	NM_001128	NP_001119	O43747	AP1G1_HUMAN	adaptor-related protein complex 1, gamma 1	311					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|recycling endosome	kinesin binding|protein transporter activity			ovary(2)	2		Ovarian(137;0.125)				ACCCAGGATATTTATGGCTAG	0.328													67	161	---	---	---	---	PASS	C	71795457	C	C	71795457	3	2	29	1	0	0	0	0	1	0	0	0	732	1493	52	5	1592	5	AP1G1	16	71795457	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08	476100	71795457	18559296	111	12544										
DHX38	9785	broad.mit.edu	37	chr16	72142486	72142486	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gcatctgtgctgcctatttcCaccaagcagccaagctcaag	8	14	2	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr16:72142486C>A	uc002fcb.2	+	23	3590	c.3235C>A	c.(3235-3237)CAC>AAC	p.H1079N	DHX38_uc010vmp.1_Missense_Mutation_p.H391N	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	1079					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				TGCCTATTTCCACCAAGCAGC	0.557													3	54	---	---	---	---	PASS	A	72142486	A	A	72142486	3	1	29	1	0	0	0	0	1	0	0	0	4511	594	21	3	3321	3	DHX38	16	72142486	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	347029	72142486	18212267	112	12545										
CNTNAP4	85445	broad.mit.edu	37	chr16	76501333	76501333	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gaggctcatttctatcagcgGcaaagtggtagatctgattt	11	7	4	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr16:76501333G>A	uc002feu.1	+	12	1953	c.1568G>A	c.(1567-1569)GGC>GAC	p.G523D	CNTNAP4_uc002fev.1_Missense_Mutation_p.G387D|CNTNAP4_uc010chb.1_Missense_Mutation_p.G450D|CNTNAP4_uc002fex.1_Missense_Mutation_p.G526D|CNTNAP4_uc002few.2_Missense_Mutation_p.G498D	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	523	Extracellular (Potential).|Laminin G-like 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TCTATCAGCGGCAAAGTGGTA	0.443													4	53	---	---	---	---	PASS	A	76501333	A	A	76501333	3	1	29	1	0	0	0	0	1	0	0	0	3649	1203	42	3	1619	3	CNTNAP4	16	76501333	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	4358847	76501333	13853420	113	12546										
CNTNAP4	85445	broad.mit.edu	37	chr16	76532475	76532475	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gttttttaggaccaatgacaCtggattgcttgcttataaag	9	6	0	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr16:76532475C>A	uc002feu.1	+	17	2634	c.2249C>A	c.(2248-2250)ACT>AAT	p.T750N	CNTNAP4_uc002fev.1_Missense_Mutation_p.T614N|CNTNAP4_uc010chb.1_Missense_Mutation_p.T677N|CNTNAP4_uc002fex.1_Missense_Mutation_p.T753N	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	750	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						ACCAATGACACTGGATTGCTT	0.373													28	41	---	---	---	---	PASS	A	76532475	A	A	76532475	3	1	29	1	0	0	0	0	1	0	0	0	3649	565	20	3	2320	3	CNTNAP4	16	76532475	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	31142	76532475	13822278	114	12547										
ZNF276	92822	broad.mit.edu	37	chr16	89789138	89789138	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cccaccttgtctccgtttgtCtgcaagagctgccacgccca	8	17	2	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr16:89789138C>G	uc002fos.3	+	2	502	c.405C>G	c.(403-405)GTC>GTG	p.V135V	C16orf7_uc002fom.1_5'Flank|ZNF276_uc010ciq.2_5'UTR|ZNF276_uc002fop.2_Silent_p.V60V|ZNF276_uc002foq.3_Silent_p.V60V|ZNF276_uc010cir.2_RNA|ZNF276_uc002for.3_5'UTR|ZNF276_uc010cis.2_5'UTR|ZNF276_uc002fot.3_RNA|ZNF276_uc010vpm.1_5'Flank|ZNF276_uc010cit.1_5'Flank	NM_001113525	NP_001106997	Q8N554	ZN276_HUMAN	zinc finger protein 276 isoform a	135	ZAD.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0278)		CTCCGTTTGTCTGCAAGAGCT	0.642													44	115	---	---	---	---	PASS	G	89789138	G	G	89789138	2	3	29	1	0	0	0	0	0	0	0	1	17808	900	32	2		2	ZNF276	16	89789138	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	13256663	89789138	565615	115	12548										
FANCA	2175	broad.mit.edu	37	chr16	89838110	89838110	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tgttcccgtggctccagtctCggcgtgttgatgctgagctg	14	11	1	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr16:89838110C>A	uc002fou.1	-	23	2169	c.2127G>T	c.(2125-2127)CCG>CCT	p.P709P	FANCA_uc010vpn.1_Silent_p.P709P	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	709					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		GCTCCAGTCTCGGCGTGTTGA	0.527			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				86	156	---	---	---	---	PASS	A	89838110	A	A	89838110	2	1	29	1	0	0	0	0	0	0	0	1	5662	871	31	2		2	FANCA	16	89838110	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	48972	89838110	516643	116	12549										
TP53	7157	broad.mit.edu	37	chr17	7577580	7577580	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	aactgttacacatgtagttgTagtggatggtggtacagtca	12	5	1	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr17:7577580T>C	uc002gim.2	-	7	895	c.701A>G	c.(700-702)TAC>TGC	p.Y234C	TP53_uc002gig.1_Missense_Mutation_p.Y234C|TP53_uc002gih.2_Missense_Mutation_p.Y234C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y102C|TP53_uc010cng.1_Missense_Mutation_p.Y102C|TP53_uc002gii.1_Missense_Mutation_p.Y102C|TP53_uc010cnh.1_Missense_Mutation_p.Y234C|TP53_uc010cni.1_Missense_Mutation_p.Y234C|TP53_uc002gij.2_Missense_Mutation_p.Y234C|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.Y141C|TP53_uc002gio.2_Missense_Mutation_p.Y102C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	234	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> F (in a sporadic cancer; somatic mutation).|Y -> K (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|Y -> N (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Y -> S (in sporadic cancers; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).|Y -> Q (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.Y234C(70)|p.Y234H(13)|p.Y234N(11)|p.0?(7)|p.Y234S(6)|p.Y234*(4)|p.Y234D(3)|p.Y234del(3)|p.Y234fs*2(1)|p.V225fs*23(1)|p.Y234fs*6(1)|p.Y234fs*5(1)|p.Y234fs*4(1)|p.Y234R(1)|p.Y234Y(1)|p.H233_C242del10(1)|p.D228fs*12(1)|p.Y234F(1)|p.I232_Y236delIHYNY(1)|p.Y141S(1)|p.T230_Y234delTTIHY(1)|p.H233fs*6(1)|p.Y234_N235insX(1)|p.I232fs*5(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)		CATGTAGTTGTAGTGGATGGT	0.572		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)			34	37	---	---	---	---	PASS	C	7577580	C	C	7577580	3	2	29	1	0	0	0	0	1	0	0	0	16378	1638	57	5	589	5	TP53	17	7577580	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08		7577580	73617630	117	12550										
FLOT2	2319	broad.mit.edu	37	chr17	27208211	27208211	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gcttgggtggaagcctcaccTggggcagggcctctagcacc	15	13	2	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr17:27208211T>A	uc002hdc.2	-	9	1220	c.1097A>T	c.(1096-1098)CAG>CTG	p.Q366L		NM_004475	NP_004466	Q14254	FLOT2_HUMAN	flotillin 2	366					cell adhesion|epidermis development	cell surface|endocytic vesicle|endosome|membrane fraction					0	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;3.26e-06)|all cancers(11;1.76e-05)|BRCA - Breast invasive adenocarcinoma(11;0.00015)|OV - Ovarian serous cystadenocarcinoma(11;0.0602)			AAGCCTCACCTGGGGCAGGGC	0.587													9	29	---	---	---	---	PASS	A	27208211	A	A	27208211	3	1	29	1	0	0	0	0	1	0	0	0	5937	1594	55	5	201	5	FLOT2	17	27208211	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08	19630631	27208211	53986999	118	12551										
SUZ12	23512	broad.mit.edu	37	chr17	30320963	30320963	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttggtgtactctgaactgccGcaaactttatagtttactca	7	9	2	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr17:30320963G>A	uc002hgs.2	+	12	1595	c.1373G>A	c.(1372-1374)CGC>CAC	p.R458H	SUZ12_uc002hgt.2_Missense_Mutation_p.R435H	NM_015355	NP_056170	Q15022	SUZ12_HUMAN	joined to JAZF1	458	C2H2-type.				negative regulation of cell differentiation|transcription, DNA-dependent	ESC/E(Z) complex	histone methyltransferase activity|methylated histone residue binding|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.041)|Ovarian(249;0.182)|Breast(31;0.231)				CTGAACTGCCGCAAACTTTAT	0.313			T	JAZF1	endometrial stromal tumours								5	199	---	---	---	---	PASS	A	30320963	A	A	30320963	3	1	29	1	0	0	0	0	1	0	0	0	15413	1087	38	1	1419	1	SUZ12	17	30320963	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	3112752	30320963	50874247	119	12552										
PSMC5	5705	broad.mit.edu	37	chr17	61907223	61907223	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gccatctagttcgcctattgCgggaggagctacagctgctg	13	11	1	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr17:61907223C>T	uc002jcb.2	+	4	219	c.178C>T	c.(178-180)CGG>TGG	p.R60W	FTSJ3_uc002jbz.2_5'Flank|FTSJ3_uc002jca.2_5'Flank|PSMC5_uc010ddy.2_Missense_Mutation_p.R37W|PSMC5_uc010ddz.2_5'UTR|PSMC5_uc002jcc.2_Missense_Mutation_p.R52W|PSMC5_uc002jcd.2_Missense_Mutation_p.R52W	NM_002805	NP_002796	P62195	PRS8_HUMAN	proteasome 26S ATPase subunit 5	60			R -> Q (in a colorectal cancer sample; somatic mutation).		anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of programmed cell death|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of transcription, DNA-dependent|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|transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|thyrotropin-releasing hormone receptor binding|transcription cofactor activity|transcription factor binding	p.R60Q(1)		large_intestine(1)	1						TCGCCTATTGCGGGAGGAGCT	0.522													37	86	---	---	---	---	PASS	T	61907223	T	T	61907223	3	4	29	1	0	0	0	0	1	0	0	0	12690	759	27	1	192	1	PSMC5	17	61907223	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	31586260	61907223	19287987	120	12553										
PTPRM	5797	broad.mit.edu	37	chr18	8113488	8113488	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	actcttgtttttctagtgtcTatcaaatagttgttgaggaa	8	5	4	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr18:8113488T>C	uc002knn.3	+	12	2364	c.1861T>C	c.(1861-1863)TAT>CAT	p.Y621H	PTPRM_uc010dkv.2_Missense_Mutation_p.Y621H|PTPRM_uc010wzl.1_Missense_Mutation_p.Y408H	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	621	Fibronectin type-III 4.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				TTCTAGTGTCTATCAAATAGT	0.393													29	142	---	---	---	---	PASS	C	8113488	C	C	8113488	3	2	29	1	0	0	0	0	1	0	0	0	12806	1522	53	5	1907	5	PTPRM	18	8113488	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08		8113488	69963760	121	12554										
NOL4	8715	broad.mit.edu	37	chr18	31599521	31599521	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ccctgaagcaattgaactgtGccccagagtctcattgccat	8	13	1	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr18:31599521G>A	uc010dmi.2	-	6	1046	c.817C>T	c.(817-819)CAC>TAC	p.H273Y	NOL4_uc010xbs.1_5'UTR|NOL4_uc002kxr.3_Missense_Mutation_p.H109Y|NOL4_uc010xbt.1_Missense_Mutation_p.H199Y|NOL4_uc010dmh.2_Missense_Mutation_p.H199Y|NOL4_uc010xbu.1_Missense_Mutation_p.H273Y|NOL4_uc002kxt.3_Missense_Mutation_p.H273Y|NOL4_uc010xbv.1_Missense_Mutation_p.H22Y|NOL4_uc010xbw.1_Missense_Mutation_p.H159Y	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	273						nucleolus	RNA binding			ovary(3)	3						ATTGAACTGTGCCCCAGAGTC	0.438													39	106	---	---	---	---	PASS	A	31599521	A	A	31599521	3	1	29	1	0	0	0	0	1	0	0	0	10524	1319	46	3	1123	3	NOL4	18	31599521	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	23486033	31599521	46477727	122	12555										
SETBP1	26040	broad.mit.edu	37	chr18	42530539	42530539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ccatcaaggcaccctctctgGatccaaccaaccataagagg	7	15	2	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr18:42530539G>T	uc010dni.2	+	4	1530	c.1234G>T	c.(1234-1236)GAT>TAT	p.D412Y		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	412						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		ACCCTCTCTGGATCCAACCAA	0.483									Schinzel-Giedion_syndrome				30	74	---	---	---	---	PASS	T	42530539	T	T	42530539	3	4	29	1	0	0	0	0	1	0	0	0	14129	1174	41	2	1437	2	SETBP1	18	42530539	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	10931018	42530539	35546709	123	12556										
ST8SIA5	29906	broad.mit.edu	37	chr18	44284606	44284606	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gtggagttatattcaaaaggCccctcataaaattcaaagta	7	7	3	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr18:44284606C>A	uc002lcj.1	-	2	721	c.153G>T	c.(151-153)GGG>GGT	p.G51G	ST8SIA5_uc002lci.1_5'UTR|ST8SIA5_uc010xcy.1_Silent_p.G87G|ST8SIA5_uc010xcz.1_Intron|ST8SIA5_uc010dno.1_Silent_p.G87G	NM_013305	NP_037437	O15466	SIA8E_HUMAN	ST8 alpha-N-acetyl-neuraminide	51	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						ATTCAAAAGGCCCCTCATAAA	0.512													79	177	---	---	---	---	PASS	A	44284606	A	A	44284606	2	1	29	1	0	0	0	0	0	0	0	1	15234	726	26	3		3	ST8SIA5	18	44284606	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08	1754067	44284606	33792642	124	12557										
CDH20	28316	broad.mit.edu	37	chr18	59221438	59221438	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ggcagtgctggtgttgctcaTtttgtccatgaggcggcacc	14	10	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr18:59221438T>A	uc010dps.1	+	11	1928	c.1916T>A	c.(1915-1917)ATT>AAT	p.I639N	CDH20_uc002lif.2_Missense_Mutation_p.I633N	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	639	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				GTGTTGCTCATTTTGTCCATG	0.542													55	85	---	---	---	---	PASS	A	59221438	A	A	59221438	3	1	29	1	0	0	0	0	1	0	0	0	3106	1493	52	5	1958	5	CDH20	18	59221438	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08	14936832	59221438	18855810	125	12558										
ZNF136	7695	broad.mit.edu	37	chr19	12298583	12298583	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tcagttatctcaactcctttCgaacacatgaaatgattcac	4	11	3	2	rs149571290		TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr19:12298583C>A	uc002mti.2	+	4	1490	c.1390C>A	c.(1390-1392)CGA>AGA	p.R464R	ZNF136_uc010xmh.1_Silent_p.R398R	NM_003437	NP_003428	P52737	ZN136_HUMAN	zinc finger protein 136	464	C2H2-type 12.				negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|transcription corepressor activity|zinc ion binding			ovary(1)|pancreas(1)	2						CAACTCCTTTCGAACACATGA	0.393													3	87	---	---	---	---	PASS	A	12298583	A	A	12298583	2	1	29	1	0	0	0	0	0	0	0	1	17723	876	31	2		2	ZNF136	19	12298583	Silent	SNP	C	TCGA-22-0944-01A-01D-1521-08		12298583	46830400	126	12559										
PLVAP	83483	broad.mit.edu	37	chr19	17476990	17476990	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	gcagccatgtacctctgattGttcgtgtagatgacctgccc	10	12	1	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr19:17476990G>A	uc002ngk.1	-	2	434	c.384C>T	c.(382-384)AAC>AAT	p.N128N		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	128	Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						ACCTCTGATTGTTCGTGTAGA	0.537													34	213	---	---	---	---	PASS	A	17476990	A	A	17476990	2	1	29	1	0	0	0	0	0	0	0	1	12116	1368	48	3		3	PLVAP	19	17476990	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08	5178407	17476990	41651993	127	12560										
LRRC25	126364	broad.mit.edu	37	chr19	18507431	18507431	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ctccagggcacagttgcagtCggcctgcaggtcaaggtcac	13	13	2	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr19:18507431C>T	uc002niw.2	-	1	985	c.343G>A	c.(343-345)GAC>AAC	p.D115N	LRRC25_uc002nix.2_Missense_Mutation_p.D115N	NM_145256	NP_660299	Q8N386	LRC25_HUMAN	leucine rich repeat containing 25 precursor	115	Extracellular (Potential).					integral to membrane					0						CAGTTGCAGTCGGCCTGCAGG	0.632													28	49	---	---	---	---	PASS	T	18507431	T	T	18507431	3	4	29	1	0	0	0	0	1	0	0	0	8980	884	31	2	582	2	LRRC25	19	18507431	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	1030441	18507431	40621552	128	12561										
NUCB1	4924	broad.mit.edu	37	chr19	49422520	49422520	+	Frame_Shift_Del	DEL	G	-	-													0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ccactcagaggaaggagtttGgggacaccggggagggctgg							TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr19:49422520delG	uc002plb.3	+	10	1051	c.979delG	c.(979-981)GGGfs	p.G327fs	NUCB1_uc002pla.2_Frame_Shift_Del_p.G327fs|NUCB1_uc002plc.2_Frame_Shift_Del_p.G327fs|NUCB1_uc002pld.2_5'UTR	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	327	EF-hand 2.					ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		GAAGGAGTTTGGGGACACCGG	0.582													63	58	---	---	---	---		-	49422520	-	-	49422520	7	5	29	1	0	1	0	1	0	0	0	0	10718	1348	47	0	1013	0	NUCB1	19	49422520	Frame_Shift_Del	DEL	G	TCGA-22-0944-01A-01D-1521-08	30915089	49422520	9706463	129	12562										
ZNF665	79788	broad.mit.edu	37	chr19	53668050	53668050	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cttataaggtttctcaccagTgtgaattctctgatgaattg	8	7	2	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr19:53668050T>G	uc010eqm.1	-	4	1793	c.1693A>C	c.(1693-1695)ACT>CCT	p.T565P		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	500					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		TTCTCACCAGTGTGAATTCTC	0.393													41	148	---	---	---	---	PASS	G	53668050	G	G	53668050	3	3	29	1	0	0	0	0	1	0	0	0	18070	1696	59	5	347	5	ZNF665	19	53668050	Missense_Mutation	SNP	T	TCGA-22-0944-01A-01D-1521-08	4245530	53668050	5460933	130	12563										
LILRB3	11025	broad.mit.edu	37	chr19	54745537	54745537	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	taatagcatgtgaacctccaCctgtggctgggggtcacggg	14	10	1	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr19:54745537C>T	uc002qej.1	-	4		c.696_splice	c.e4+1		LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Silent_p.R191R|LILRA6_uc002qek.1_Silent_p.R191R|LILRB3_uc010erh.1_Intron|LILRA6_uc002qel.1_Silent_p.R191R|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_Splice_Site|LILRB3_uc002qeo.1_Silent_p.R191R|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Silent_p.R191R|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Silent_p.R191R|LILRA6_uc010yep.1_Silent_p.R191R|LILRA6_uc010yeq.1_Silent_p.R191R|LILRA6_uc002qet.3_Splice_Site|LILRA6_uc002qeu.1_Silent_p.R191R|LILRA6_uc002qev.1_Silent_p.R52R			O75022	LIRB3_HUMAN	Synthetic construct DNA, clone: pF1KB7252, Homo sapiens LILRA6 gene for leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 6, without stop codon, in Flexi system.						cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	transmembrane receptor activity			skin(2)|ovary(1)	3	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TGAACCTCCACCTGTGGCTGG	0.632													39	36	---	---	---	---	PASS	T	54745537	T	T	54745537	5	4	29	1	0	0	0	0	0	0	1	0	8792	506	18	3		3	LILRB3	19	54745537	Splice_Site	SNP	C	TCGA-22-0944-01A-01D-1521-08	1077487	54745537	4383446	131	12564										
ASXL1	171023	broad.mit.edu	37	chr20	31024614	31024614	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cacatgcctttgttggcagcGtcaagaatgagaagactttt	10	8	1	3	rs147456014	byFrequency	TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr20:31024614G>A	uc002wxs.2	+	12	4525	c.4099G>A	c.(4099-4101)GTC>ATC	p.V1367I	ASXL1_uc010geb.2_Missense_Mutation_p.V1258I	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	1367					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						TGTTGGCAGCGTCAAGAATGA	0.537			F|N|Mis		MDS|CMML								45	149	---	---	---	---	PASS	A	31024614	A	A	31024614	3	1	29	1	0	0	0	0	1	0	0	0	1066	1145	40	1	4155	1	ASXL1	20	31024614	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08		31024614	32000906	132	12565										
C20orf177	63939	broad.mit.edu	37	chr20	58519998	58519998	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	aacaggcagctgtgattctgGactcagcagattcctgtaag	11	9	2	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr20:58519998G>A	uc002yba.2	+	5	1415	c.1000G>A	c.(1000-1002)GAC>AAC	p.D334N	C20orf177_uc010zzx.1_Missense_Mutation_p.D177N|C20orf177_uc002ybc.2_Missense_Mutation_p.D334N	NM_022106	NP_071389	Q9NTX9	CT177_HUMAN	hypothetical protein LOC63939	334										ovary(2)|breast(1)	3	all_lung(29;0.00693)		BRCA - Breast invasive adenocarcinoma(7;1.22e-08)			TGTGATTCTGGACTCAGCAGA	0.527													30	58	---	---	---	---	PASS	A	58519998	A	A	58519998	3	1	29	1	0	0	0	0	1	0	0	0	2096	1174	41	2	1002	2	C20orf177	20	58519998	Missense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	27495384	58519998	4505522	133	12566										
IFNGR2	3460	broad.mit.edu	37	chr21	34793789	34793789	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tccttttttccttcccagcaCcgacagtaaatggttcacgg	7	13	1	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr21:34793789C>T	uc002yrp.3	+	3	857	c.209C>T	c.(208-210)ACC>ATC	p.T70I	IFNGR2_uc002yrq.3_Missense_Mutation_p.T89I|IFNGR2_uc010gma.2_5'UTR|IFNGR2_uc002yrr.3_5'UTR	NM_005534	NP_005525	P38484	INGR2_HUMAN	interferon gamma receptor 2 precursor	70	Extracellular (Potential).|Fibronectin type-III 1.				regulation of interferon-gamma-mediated signaling pathway|response to virus	endoplasmic reticulum|integral to plasma membrane	interferon-gamma receptor activity				0					Interferon gamma-1b(DB00033)	CTTCCCAGCACCGACAGTAAA	0.448													37	70	---	---	---	---	PASS	T	34793789	T	T	34793789	3	4	29	1	0	0	0	0	1	0	0	0	7550	507	18	3	219	3	IFNGR2	21	34793789	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08		34793789	13336106	134	12567										
MORC3	23515	broad.mit.edu	37	chr21	37747568	37747568	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	ttttaggacaagttgttgaaCaaatgagtgaaatcagtagt	10	3	1	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr21:37747568C>A	uc002yvi.2	+	17	2870	c.2794C>A	c.(2794-2796)CAA>AAA	p.Q932K		NM_015358	NP_056173	Q14149	MORC3_HUMAN	MORC family CW-type zinc finger 3	932					cell aging|maintenance of protein location in nucleus|negative regulation of fibroblast proliferation|peptidyl-serine phosphorylation|protein stabilization	aggresome|intermediate filament cytoskeleton|PML body	ATP binding|zinc ion binding			ovary(2)	2						AGTTGTTGAACAAATGAGTGA	0.318													46	62	---	---	---	---	PASS	A	37747568	A	A	37747568	3	1	29	1	0	0	0	0	1	0	0	0	9703	479	17	3	2860	3	MORC3	21	37747568	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	2953779	37747568	10382327	135	12568										
CECR2	27443	broad.mit.edu	37	chr22	18022266	18022266	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tcggtcacgtgatggattccCgagtcatgagaccacctgtc	11	12	2	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chr22:18022266C>T	uc010gqw.1	+	15	2494	c.2368C>T	c.(2368-2370)CGA>TGA	p.R790*	CECR2_uc010gqv.1_Nonsense_Mutation_p.R649*|CECR2_uc002zml.2_Nonsense_Mutation_p.R649*	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	832					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		GATGGATTCCCGAGTCATGAG	0.602													22	101	---	---	---	---	PASS	T	18022266	T	T	18022266	4	4	29	1	0	0	0	0	0	1	0	0	3206	644	23	1	2428	1	CECR2	22	18022266	Nonsense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08		18022266	33282300	136	12569										
WDR45	11152	broad.mit.edu	37	chrX	48932917	48932917	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cgtactgcccaatcataggcCccaccttgcccacgcgagcc	8	19	1	0			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chrX:48932917C>T	uc004dmk.1	-	10	1023	c.851G>A	c.(850-852)GGG>GAG	p.G284E	PRAF2_uc004dmh.2_5'Flank|PRAF2_uc004dmi.2_5'Flank|PRAF2_uc011mmt.1_Intron|WDR45_uc004dmj.1_Missense_Mutation_p.G245E|WDR45_uc004dml.1_Missense_Mutation_p.G285E|WDR45_uc004dmm.1_Missense_Mutation_p.G249E|WDR45_uc010nim.1_Intron|WDR45_uc004dmn.1_Missense_Mutation_p.G175E|WDR45_uc004dmo.1_Missense_Mutation_p.G307E|WDR45_uc004dmp.1_Missense_Mutation_p.G285E	NM_001029896	NP_001025067	Q9Y484	WIPI4_HUMAN	WD repeat domain 45 isoform 2	284					autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1						AATCATAGGCCCCACCTTGCC	0.622													14	3	---	---	---	---	PASS	T	48932917	T	T	48932917	3	4	29	1	0	0	0	0	1	0	0	0	17294	623	22	3	239	3	WDR45	23	48932917	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08		48932917	106337643	137	12570										
GPRASP1	9737	broad.mit.edu	37	chrX	101911509	101911509	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	aagaagccagtatacaggctGgatctcaggcagtagaggaa	13	7	1	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chrX:101911509G>T	uc004ejj.3	+	5	3469	c.2668G>T	c.(2668-2670)GGA>TGA	p.G890*	GPRASP1_uc004eji.3_Nonsense_Mutation_p.G890*|GPRASP1_uc010nod.2_Nonsense_Mutation_p.G890*	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	890	Glu-rich.					cytoplasm	protein binding			ovary(1)|lung(1)	2						TATACAGGCTGGATCTCAGGC	0.507													83	51	---	---	---	---	PASS	T	101911509	T	T	101911509	4	4	29	1	0	0	0	0	0	1	0	0	6722	1349	47	3	2670	3	GPRASP1	23	101911509	Nonsense_Mutation	SNP	G	TCGA-22-0944-01A-01D-1521-08	52978592	101911509	53359051	138	12571										
MAGEC1	9947	broad.mit.edu	37	chrX	140995582	140995582	+	Missense_Mutation	SNP	C	T	T													0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tccaaagttcccatgagagtCctcagagtcctcctgagggg							TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chrX:140995582C>T	uc004fbt.2	+	4	2678	c.2392C>T	c.(2392-2394)CCT>TCT	p.P798S	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	798							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CCATGAGAGTCCTCAGAGTCC	0.567										HNSCC(15;0.026)			171	121	---	---	---	---	PASS	T	140995582	T	T	140995582	3	4	29	1	0	0	0	0	1	0	0	0	9180	855	30	2	2398	2	MAGEC1	23	140995582	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	39084073	140995582	14274978	139	12572	333	2								
MAGEC1	9947	broad.mit.edu	37	chrX	140995591	140995591	+	Missense_Mutation	SNP	C	A	A													0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	cccatgagagtcctcagagtCctcctgaggggcctgcccag							TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chrX:140995591C>A	uc004fbt.2	+	4	2687	c.2401C>A	c.(2401-2403)CCT>ACT	p.P801T	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	801							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TCCTCAGAGTCCTCCTGAGGG	0.562										HNSCC(15;0.026)			168	114	---	---	---	---	PASS	A	140995591	A	A	140995591	3	1	29	1	0	0	0	0	1	0	0	0	9180	855	30	2	2407	2	MAGEC1	23	140995591	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	9	140995591	14274969	140	12573	333	2								
PASD1	139135	broad.mit.edu	37	chrX	150840052	150840052	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	tgtgtccttacagaagcagcCaaacacattacgccacgttg	8	12	0	1			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chrX:150840052C>G	uc004fev.3	+	13	1570	c.1238C>G	c.(1237-1239)CCA>CGA	p.P413R		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	413						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CAGAAGCAGCCAAACACATTA	0.502													10	220	---	---	---	---	PASS	G	150840052	G	G	150840052	3	3	29	1	0	0	0	0	1	0	0	0	11471	594	21	4	1284	4	PASD1	23	150840052	Missense_Mutation	SNP	C	TCGA-22-0944-01A-01D-1521-08	9844461	150840052	4430508	141	12574										
CNGA2	1260	broad.mit.edu	37	chrX	150911761	150911761	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	atgtttgagttctttgaccgGacagagacacgcaccaacta	9	10	1	3			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chrX:150911761G>T	uc004fey.1	+	7	1010	c.786G>T	c.(784-786)CGG>CGT	p.R262R		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	262	Extracellular (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TCTTTGACCGGACAGAGACAC	0.517													112	54	---	---	---	---	PASS	T	150911761	T	T	150911761	2	4	29	1	0	0	0	0	0	0	0	1	3597	1161	41	2		2	CNGA2	23	150911761	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08	71709	150911761	4358799	142	12575										
L1CAM	3897	broad.mit.edu	37	chrX	153136336	153136336	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.115107913669065	16	0.0211947489106215	1.83747215576273	2.37340153452685	1.66643086466779	0.092215182731215	0.370956530532388	7	atgtagtctgagtggttgtcGgaggtgagcacattggcaaa	15	5	1	2			TCGA-22-0944-01A-01D-1521-08	TCGA-22-0944-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	818a6f09-a7fd-4cce-8373-adb4bcb5bc8c	dbe683e0-334a-4f6e-ba93-f656948ecda2	g.chrX:153136336G>A	uc004fjb.2	-	6	711	c.603C>T	c.(601-603)TCC>TCT	p.S201S	L1CAM_uc004fjc.2_Silent_p.S201S|L1CAM_uc010nuo.2_Silent_p.S196S|L1CAM_uc004fjd.1_Silent_p.S15S|L1CAM_uc004fje.1_Silent_p.S196S	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	201	Extracellular (Potential).|Ig-like C2-type 2.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGTGGTTGTCGGAGGTGAGCA	0.587													69	26	---	---	---	---	PASS	A	153136336	A	A	153136336	2	1	29	1	0	0	0	0	0	0	0	1	8588	1103	39	1		1	L1CAM	23	153136336	Silent	SNP	G	TCGA-22-0944-01A-01D-1521-08	2224575	153136336	2134224	143	12576										
MED18	54797	broad.mit.edu	37	chr1	28660972	28660972	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aaagcctcatccaccgccttCgtggtttgtgtgacaacatg	9	12	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:28660972C>T	uc001bpt.3	+	3	363	c.118C>T	c.(118-120)CGT>TGT	p.R40C	MED18_uc009vtg.2_Missense_Mutation_p.R40C	NM_017638	NP_060108	Q9BUE0	MED18_HUMAN	mediator complex subunit 18	40					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex	identical protein binding				0		Colorectal(325;0.000147)|Lung NSC(340;0.000818)|all_lung(284;0.000996)|Renal(390;0.00357)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0557)|Ovarian(437;0.113)		OV - Ovarian serous cystadenocarcinoma(117;2.36e-22)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0141)|READ - Rectum adenocarcinoma(331;0.0649)		CCACCGCCTTCGTGGTTTGTG	0.478													125	329	---	---	---	---	PASS	T	28660972	T	T	28660972	3	4	30	1	0	0	0	0	1	0	0	0	9436	884	31	2	124	2	MED18	1	28660972	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08		28660972	220589649	1	12577										
GRIK3	2899	broad.mit.edu	37	chr1	37346432	37346432	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agatggactggacggcattgGtgcaggagccctgtgatggg	18	7	0	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:37346432G>T	uc001caz.2	-	3	488	c.353C>A	c.(352-354)ACC>AAC	p.T118N	GRIK3_uc001cba.1_Missense_Mutation_p.T118N	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	118	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity	p.T118T(1)		ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GACGGCATTGGTGCAGGAGCC	0.627													19	50	---	---	---	---	PASS	T	37346432	T	T	37346432	3	4	30	1	0	0	0	0	1	0	0	0	6775	1261	44	3	2462	3	GRIK3	1	37346432	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	8685460	37346432	211904189	2	12578										
INPP5B	3633	broad.mit.edu	37	chr1	38397681	38397681	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cagctctgcgcacctataccGagacagccacaggaattcag	9	14	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:38397681G>C	uc001ccg.1	-	7	530	c.436C>G	c.(436-438)CGG>GGG	p.R146G	INPP5B_uc009vvk.1_Missense_Mutation_p.R87G|INPP5B_uc001cch.2_Missense_Mutation_p.R87G|INPP5B_uc001ccf.1_5'Flank	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	146					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CACCTATACCGAGACAGCCAC	0.612													5	69	---	---	---	---	PASS	C	38397681	C	C	38397681	3	2	30	1	0	0	0	0	1	0	0	0	7755	1057	37	2	2377	2	INPP5B	1	38397681	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	1051249	38397681	210852940	3	12579										
SMAP2	64744	broad.mit.edu	37	chr1	40882625	40882625	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccatgcctgcaggctatatgGgtggcatgcaggcatcaatg	13	10	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:40882625G>T	uc001cfj.2	+	9	1086	c.1021G>T	c.(1021-1023)GGT>TGT	p.G341C	SMAP2_uc001cfk.2_Missense_Mutation_p.G311C|SMAP2_uc010oji.1_Missense_Mutation_p.G258C|SMAP2_uc010ojj.1_Missense_Mutation_p.G157C	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	341	Interaction with PICALM (By similarity).|Met-rich.				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)			AGGCTATATGGGTGGCATGCA	0.577													21	100	---	---	---	---	PASS	T	40882625	T	T	40882625	3	4	30	1	0	0	0	0	1	0	0	0	14767	1232	43	3	1055	3	SMAP2	1	40882625	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	2484944	40882625	208367996	4	12580										
ZMYND12	84217	broad.mit.edu	37	chr1	42896432	42896432	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	taatgggatggtcttcagttGaaatgagacttaataactct	9	5	3	2	rs143931631	byFrequency	TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:42896432G>A	uc001chj.2	-	8	1343	c.1073C>T	c.(1072-1074)TCA>TTA	p.S358L	ZMYND12_uc010ojt.1_Missense_Mutation_p.S248L	NM_032257	NP_115633	Q9H0C1	ZMY12_HUMAN	zinc finger, MYND-type containing 12 isoform 1	358						intracellular	zinc ion binding			ovary(1)	1	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GTCTTCAGTTGAAATGAGACT	0.453													59	216	---	---	---	---	PASS	A	42896432	A	A	42896432	3	1	30	1	0	0	0	0	1	0	0	0	17704	1294	45	2	28	2	ZMYND12	1	42896432	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	2013807	42896432	206354189	5	12581										
ZFYVE9	9372	broad.mit.edu	37	chr1	52703393	52703393	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	atctaaatccagagattgccAcaatgtggattgatgaaaat	8	6	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:52703393A>G	uc001cto.2	+	4	476	c.304A>G	c.(304-306)ACA>GCA	p.T102A	ZFYVE9_uc001ctn.2_Missense_Mutation_p.T102A|ZFYVE9_uc001ctp.2_Missense_Mutation_p.T102A	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	102					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						AGAGATTGCCACAATGTGGAT	0.438													42	136	---	---	---	---	PASS	G	52703393	G	G	52703393	3	3	30	1	0	0	0	0	1	0	0	0	17668	159	6	5	310	5	ZFYVE9	1	52703393	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	9806961	52703393	196547228	6	12582										
KANK4	163782	broad.mit.edu	37	chr1	62740491	62740491	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccaagtgatgcctcccttggCaccacgggagaccagttttg	11	13	0	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:62740491C>A	uc001dah.3	-	3	662	c.285G>T	c.(283-285)GTG>GTT	p.V95V	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	95										ovary(3)|skin(2)|lung(1)	6						CCTCCCTTGGCACCACGGGAG	0.607													4	181	---	---	---	---	PASS	A	62740491	A	A	62740491	2	1	30	1	0	0	0	0	0	0	0	1	7979	697	25	3		3	KANK4	1	62740491	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	10037098	62740491	186510130	7	12583										
LEPROT	54741	broad.mit.edu	37	chr1	65895721	65895721	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	atttcctgttattcttgctcGtgtggctgtggtaagtttta	10	6	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:65895721G>A	uc001dcf.2	+	3	358	c.269G>A	c.(268-270)CGT>CAT	p.R90H	LEPR_uc001dcg.2_Intron|LEPR_uc001dch.2_Intron|LEPR_uc001dci.2_Intron|LEPR_uc009waq.2_Intron|LEPROT_uc009wap.2_Missense_Mutation_p.R99H	NM_017526	NP_059996	O15243	OBRG_HUMAN	leptin receptor gene-related protein	90						endosome membrane|Golgi membrane|integral to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		ATTCTTGCTCGTGTGGCTGTG	0.433													106	514	---	---	---	---	PASS	A	65895721	A	A	65895721	3	1	30	1	0	0	0	0	1	0	0	0	8732	1145	40	1	279	1	LEPROT	1	65895721	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	3155230	65895721	183354900	8	12584										
LRRC7	57554	broad.mit.edu	37	chr1	70505002	70505002	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agcgccacagaaatggccatGtttagaagggtcaatgagcc	12	9	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:70505002G>T	uc001dep.2	+	19	3411	c.3381G>T	c.(3379-3381)ATG>ATT	p.M1127I	LRRC7_uc009wbg.2_Missense_Mutation_p.M411I|LRRC7_uc001deq.2_Missense_Mutation_p.M368I	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1127						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						AAATGGCCATGTTTAGAAGGG	0.587													54	229	---	---	---	---	PASS	T	70505002	T	T	70505002	3	4	30	1	0	0	0	0	1	0	0	0	9020	1377	48	3	3455	3	LRRC7	1	70505002	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	4609281	70505002	178745619	9	12585										
ST6GALNAC3	256435	broad.mit.edu	37	chr1	76779598	76779598	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tactaaactgctttggacaaCctggtacaaagtggatacca	8	9	0	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:76779598C>T	uc001dhh.2	+	2	290	c.127C>T	c.(127-129)CCT>TCT	p.P43S	ST6GALNAC3_uc001dhg.3_Missense_Mutation_p.P43S|ST6GALNAC3_uc010orh.1_Intron	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	43	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						CTTTGGACAACCTGGTACAAA	0.448													6	181	---	---	---	---	PASS	T	76779598	T	T	76779598	3	4	30	1	0	0	0	0	1	0	0	0	15224	507	18	3	133	3	ST6GALNAC3	1	76779598	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	6274596	76779598	172471023	10	12586										
ELTD1	64123	broad.mit.edu	37	chr1	79387437	79387437	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tggtatcaggtgagtaattcCaaaatgcacatagactccta	8	8	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:79387437C>T	uc001diq.3	-	9	1274	c.1118G>A	c.(1117-1119)TGG>TAG	p.W373*		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	373	GPS.|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)		TGAGTAATTCCAAAATGCACA	0.398													19	103	---	---	---	---	PASS	T	79387437	T	T	79387437	4	4	30	1	0	0	0	0	0	1	0	0	5084	595	21	3	982	3	ELTD1	1	79387437	Nonsense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	2607839	79387437	169863184	11	12587										
VCAM1	7412	broad.mit.edu	37	chr1	101186048	101186048	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gcagctcaagcttttaaaatCgagaccaccccagaatctag	7	12	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:101186048C>G	uc001dti.2	+	2	201	c.81C>G	c.(79-81)ATC>ATG	p.I27M	VCAM1_uc001dtj.2_Missense_Mutation_p.I27M|VCAM1_uc010ouj.1_Missense_Mutation_p.I27M	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	27	Ig-like C2-type 1.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	CTTTTAAAATCGAGACCACCC	0.408													50	214	---	---	---	---	PASS	G	101186048	G	G	101186048	3	3	30	1	0	0	0	0	1	0	0	0	17134	874	31	2	87	2	VCAM1	1	101186048	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	21798611	101186048	148064573	12	12588										
OLFM3	118427	broad.mit.edu	37	chr1	102296361	102296361	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttctcaagtttaagacttcaAtagactgggacatgttctga	8	7	3	3	rs150051854	byFrequency	TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:102296361A>T	uc001duf.2	-	3	370	c.299T>A	c.(298-300)ATT>AAT	p.I100N	OLFM3_uc001dug.2_Missense_Mutation_p.I80N|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_Missense_Mutation_p.I5N|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	100	Potential.					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)		TAAGACTTCAATAGACTGGGA	0.353													31	135	---	---	---	---	PASS	T	102296361	T	T	102296361	3	4	30	1	0	0	0	0	1	0	0	0	10854	101	4	5	1153	5	OLFM3	1	102296361	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	1110313	102296361	146954260	13	12589										
CASQ2	845	broad.mit.edu	37	chr1	116244008	116244008	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cagctcctcagcagttggaaGatcgtcatcatctggaatct	9	11	5	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:116244008G>T	uc001efx.3	-	11	1318	c.1054C>A	c.(1054-1056)CTT>ATT	p.L352I	CASQ2_uc010owu.1_Missense_Mutation_p.L281I	NM_001232	NP_001223	O14958	CASQ2_HUMAN	cardiac calsequestrin 2 precursor	352					heart development|striated muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;1.25e-06)|all_epithelial(167;1.02e-06)|all_lung(203;8.03e-06)|Lung NSC(69;5.01e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		GCAGTTGGAAGATCGTCATCA	0.398													14	112	---	---	---	---	PASS	T	116244008	T	T	116244008	3	4	30	1	0	0	0	0	1	0	0	0	2681	942	33	2	149	2	CASQ2	1	116244008	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	13947647	116244008	133006613	14	12590										
HRNR	388697	broad.mit.edu	37	chr1	152187662	152187662	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aacctgagctagatccgtgtCgttcacccctagatgactgt	9	12	1	4			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:152187662C>A	uc001ezt.1	-	3	6519	c.6443G>T	c.(6442-6444)CGA>CTA	p.R2148L		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2148					keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGATCCGTGTCGTTCACCCCT	0.587													30	696	---	---	---	---	PASS	A	152187662	A	A	152187662	3	1	30	1	0	0	0	0	1	0	0	0	7359	884	31	2	2113	2	HRNR	1	152187662	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	35943654	152187662	97062959	15	12591										
FCRL1	115350	broad.mit.edu	37	chr1	157772324	157772324	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgaaggtttaaacctacagcCcctttgtaccaaaggaaggt	9	9	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:157772324C>A	uc001frg.2	-	4	563	c.450G>T	c.(448-450)GGG>GGT	p.G150G	FCRL1_uc001frf.2_5'Flank|FCRL1_uc001frh.2_Silent_p.G150G|FCRL1_uc001fri.2_Silent_p.G150G|FCRL1_uc001frj.2_Intron	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	150	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			AACCTACAGCCCCTTTGTACC	0.517													40	107	---	---	---	---	PASS	A	157772324	A	A	157772324	2	1	30	1	0	0	0	0	0	0	0	1	5794	610	22	3		3	FCRL1	1	157772324	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	5584662	157772324	91478297	16	12592										
PVRL4	81607	broad.mit.edu	37	chr1	161049520	161049520	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggttgcgtgggggcggcggcTgctccacgcggccctcgtaa	18	13	0	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:161049520T>A	uc001fxo.2	-	2	598	c.299A>T	c.(298-300)CAG>CTG	p.Q100L		NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	100	Ig-like V-type 1.|Extracellular (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			GGGCGGCGGCTGCTCCACGCG	0.692													13	25	---	---	---	---	PASS	A	161049520	A	A	161049520	3	1	30	1	0	0	0	0	1	0	0	0	12842	1580	55	5	1265	5	PVRL4	1	161049520	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	3277196	161049520	88201101	17	12593										
FAM5C	339479	broad.mit.edu	37	chr1	190203572	190203572	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gaatctaggttgtcatagttActgcagccaagaggaccagt	11	8	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:190203572A>T	uc001gse.1	-	5	886	c.654T>A	c.(652-654)AGT>AGA	p.S218R	FAM5C_uc010pot.1_Missense_Mutation_p.S116R	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	218						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TGTCATAGTTACTGCAGCCAA	0.373													43	110	---	---	---	---	PASS	T	190203572	T	T	190203572	3	4	30	1	0	0	0	0	1	0	0	0	5594	388	14	5	1662	5	FAM5C	1	190203572	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	29154052	190203572	59047049	18	12594										
CRB1	23418	broad.mit.edu	37	chr1	197390731	197390731	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gactcctgtaaggagaaatgCatcgcgaaagctcctactcc	9	12	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:197390731C>A	uc001gtz.2	+	6	1908	c.1773C>A	c.(1771-1773)TGC>TGA	p.C591*	CRB1_uc010poz.1_Nonsense_Mutation_p.C522*|CRB1_uc010ppa.1_Intron|CRB1_uc009wza.2_Nonsense_Mutation_p.C479*|CRB1_uc010ppb.1_Nonsense_Mutation_p.C591*|CRB1_uc010ppc.1_Intron|CRB1_uc010ppd.1_Nonsense_Mutation_p.C72*|CRB1_uc001gub.1_Nonsense_Mutation_p.C240*	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	591	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						AGGAGAAATGCATCGCGAAAG	0.463													11	229	---	---	---	---	PASS	A	197390731	A	A	197390731	4	1	30	1	0	0	0	0	0	1	0	0	3848	718	25	3	1795	3	CRB1	1	197390731	Nonsense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	7187159	197390731	51859890	19	12595										
IRF6	3664	broad.mit.edu	37	chr1	209969720	209969720	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aatgatcgagccctggggctGagggatgtcacacacttgat	13	9	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:209969720G>A	uc001hhq.1	-	4	615	c.352C>T	c.(352-354)CAG>TAG	p.Q118*	IRF6_uc010psm.1_Nonsense_Mutation_p.Q23*|IRF6_uc009xct.1_Nonsense_Mutation_p.Q118*	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	118					cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		CCCTGGGGCTGAGGGATGTCA	0.522										HNSCC(57;0.16)			29	85	---	---	---	---	PASS	A	209969720	A	A	209969720	4	1	30	1	0	0	0	0	0	1	0	0	7834	1299	45	2	1075	2	IRF6	1	209969720	Nonsense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	12578989	209969720	39280901	20	12596										
B3GALNT2	148789	broad.mit.edu	37	chr1	235617588	235617588	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ctcgggtactccaactcctgCcactttccggttcggtcaac	8	16	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:235617588C>G	uc001hxc.2	-	10	1420	c.1191G>C	c.(1189-1191)TGG>TGC	p.W397C		NM_152490	NP_689703	Q8NCR0	B3GL2_HUMAN	beta-1,3-N-acetylgalactosaminyltransferase 2	397	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			breast(1)	1	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.0539)|Prostate(94;0.0353)	OV - Ovarian serous cystadenocarcinoma(106;0.000117)			CCAACTCCTGCCACTTTCCGG	0.498													8	107	---	---	---	---	PASS	G	235617588	G	G	235617588	3	3	30	1	0	0	0	0	1	0	0	0	1246	740	26	4	323	4	B3GALNT2	1	235617588	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	25647868	235617588	13633033	21	12597										
ZNF496	84838	broad.mit.edu	37	chr1	247471832	247471832	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	caggcctggaactctggcacCtgcagctcctcacgtttcct	9	16	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:247471832C>A	uc001ico.2	-	8	1416	c.951G>T	c.(949-951)CAG>CAT	p.Q317H	ZNF496_uc009xgv.2_Missense_Mutation_p.Q353H|ZNF496_uc001icp.2_Missense_Mutation_p.Q317H|ZNF496_uc001icq.1_Missense_Mutation_p.Q92H	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	317					positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			ACTCTGGCACCTGCAGCTCCT	0.488													90	241	---	---	---	---	PASS	A	247471832	A	A	247471832	3	1	30	1	0	0	0	0	1	0	0	0	17942	680	24	3	820	3	ZNF496	1	247471832	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	11854244	247471832	1778789	22	12598										
OR2G2	81470	broad.mit.edu	37	chr1	247752411	247752411	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgcttctcccacctgacagtGgtcaccatcttttatggaac	7	13	3	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:247752411G>A	uc010pyy.1	+	1	750	c.750G>A	c.(748-750)GTG>GTA	p.V250V		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	250	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			ACCTGacagtggtcaccatct	0.408													15	177	---	---	---	---	PASS	A	247752411	A	A	247752411	2	1	30	1	0	0	0	0	0	0	0	1	10998	1335	47	3		3	OR2G2	1	247752411	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	280579	247752411	1498210	23	12599										
OR2L3	391192	broad.mit.edu	37	chr1	248224406	248224406	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	atgagcaaaagaatgtgtgtGctgatgataacagggtcttg	13	4	1	4			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr1:248224406G>T	uc001idx.1	+	1	423	c.423G>T	c.(421-423)GTG>GTT	p.V141V	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			GAATGTGTGTGCTGATGATAA	0.438													86	272	---	---	---	---	PASS	T	248224406	T	T	248224406	2	4	30	1	0	0	0	0	0	0	0	1	11008	1306	46	3		3	OR2L3	1	248224406	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	471995	248224406	1026215	24	12600										
ADCY3	109	broad.mit.edu	37	chr2	25061400	25061400	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggtttcaatacccttctcttCtaggtaatcacagcggctgc	8	12	4	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:25061400C>A	uc002rfs.3	-	7	1646	c.1447G>T	c.(1447-1449)GAA>TAA	p.E483*	ADCY3_uc002rfr.3_Nonsense_Mutation_p.E116*|ADCY3_uc010ykm.1_Nonsense_Mutation_p.E483*	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	483	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					CCCTTCTCTTCTAGGTAATCA	0.532													51	243	---	---	---	---	PASS	A	25061400	A	A	25061400	4	1	30	1	0	0	0	0	0	1	0	0	295	922	32	2	2047	2	ADCY3	2	25061400	Nonsense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08		25061400	218137973	25	12601										
C2orf39	92749	broad.mit.edu	37	chr2	26654794	26654794	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgaagaaagtagaggactatGagaagcagctgaacaggcag	14	5	0	5			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:26654794G>C	uc002rhg.2	+	7	882	c.808G>C	c.(808-810)GAG>CAG	p.E270Q	C2orf39_uc010eym.1_RNA	NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	270	Potential.										0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGAGGACTATGAGAAGCAGCT	0.493													50	164	---	---	---	---	PASS	C	26654794	C	C	26654794	3	2	30	1	0	0	0	0	1	0	0	0	2164	1291	45	2	834	2	C2orf39	2	26654794	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	1593394	26654794	216544579	26	12602										
ABCG5	64240	broad.mit.edu	37	chr2	44051083	44051083	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gcgttcagcatgcctgtgtaCggggtggcgcccacaaactg	14	12	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:44051083C>A	uc002rtn.2	-	9	1433	c.1293G>T	c.(1291-1293)CCG>CCT	p.P431P	ABCG5_uc002rtm.2_Silent_p.P36P|ABCG5_uc002rto.2_Silent_p.P260P|ABCG5_uc002rtp.2_Silent_p.P36P	NM_022436	NP_071881	Q9H222	ABCG5_HUMAN	ATP-binding cassette sub-family G member 5	431	Helical; Name=2; (Potential).|ABC transmembrane type-2.				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			ovary(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TGCCTGTGTACGGGGTGGCGC	0.537													15	115	---	---	---	---	PASS	A	44051083	A	A	44051083	2	1	30	1	0	0	0	0	0	0	0	1	71	523	19	1		1	ABCG5	2	44051083	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	17396289	44051083	199148290	27	12603										
MPHOSPH10	10199	broad.mit.edu	37	chr2	71360216	71360216	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aattttacaatactttcagaAtgcagttagtgaaacaatta	5	5	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:71360216A>G	uc002sht.1	+	2	630	c.278A>G	c.(277-279)AAT>AGT	p.N93S	MCEE_uc002shs.2_5'Flank|MPHOSPH10_uc010feb.1_Missense_Mutation_p.N93S	NM_005791	NP_005782	O00566	MPP10_HUMAN	M-phase phosphoprotein 10	93					RNA splicing, via transesterification reactions|rRNA processing	chromosome|nucleolus|small nucleolar ribonucleoprotein complex	protein binding			skin(2)|ovary(1)	3						TACTTTCAGAATGCAGTTAGT	0.383													11	75	---	---	---	---	PASS	G	71360216	G	G	71360216	3	3	30	1	0	0	0	0	1	0	0	0	9725	101	4	5	284	5	MPHOSPH10	2	71360216	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	27309133	71360216	171839157	28	12604										
REV1	51455	broad.mit.edu	37	chr2	100019492	100019492	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	actctgaatcctttttggtgAaccaatggtttttttcttct	6	8	3	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:100019492A>G	uc002tad.2	-	20	3456	c.3244T>C	c.(3244-3246)TCA>CCA	p.S1082P	REV1_uc002tac.2_Missense_Mutation_p.S1081P	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	1082					DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						CTTTTTGGTGAACCAATGGtt	0.373								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					11	116	---	---	---	---	PASS	G	100019492	G	G	100019492	3	3	30	1	0	0	0	0	1	0	0	0	13239	246	9	5	527	5	REV1	2	100019492	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	28659276	100019492	143179881	29	12605										
MAP4K4	9448	broad.mit.edu	37	chr2	102460737	102460737	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gcagagagacagaagcggatTgagcagcagaaagaacagag	15	6	0	7			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:102460737T>A	uc002tbg.2	+	12	1252	c.1197T>A	c.(1195-1197)ATT>ATA	p.I399I	MAP4K4_uc002tbc.2_Silent_p.I399I|MAP4K4_uc002tbd.2_Silent_p.I399I|MAP4K4_uc002tbe.2_Silent_p.I399I|MAP4K4_uc002tbf.2_Silent_p.I399I|MAP4K4_uc010yvy.1_Silent_p.I399I|MAP4K4_uc002tbh.2_Silent_p.I399I|MAP4K4_uc002tbi.2_Silent_p.I252I|MAP4K4_uc010yvz.1_Silent_p.I379I|MAP4K4_uc002tbk.2_5'UTR|MAP4K4_uc002tbj.1_Silent_p.I295I	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	399					intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						AGAAGCGGATTGAGCAGCAGA	0.478													4	17	---	---	---	---	PASS	A	102460737	A	A	102460737	2	1	30	1	0	0	0	0	0	0	0	1	9262	1800	63	5		5	MAP4K4	2	102460737	Silent	SNP	T	TCGA-22-1002-01A-01D-1521-08	2441245	102460737	140738636	30	12606										
IL1RL1	9173	broad.mit.edu	37	chr2	102968370	102968370	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gtttgactcccttggctgccCagaagcaatagtgcctgctg	11	12	0	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:102968370C>G	uc002tbu.1	+	11	1931	c.1660C>G	c.(1660-1662)CAG>GAG	p.Q554E	IL18R1_uc002tbw.3_Intron	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	554	Cytoplasmic (Potential).				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4						CTTGGCTGCCCAGAAGCAATA	0.498													12	96	---	---	---	---	PASS	G	102968370	G	G	102968370	3	3	30	1	0	0	0	0	1	0	0	0	7663	595	21	4	1715	4	IL1RL1	2	102968370	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	507633	102968370	140231003	31	12607										
PDE11A	50940	broad.mit.edu	37	chr2	178936561	178936561	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	caattccagaaagaactgacGctcattatgctttttcagat	6	9	2	4	rs77063376	by1000genomes	TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:178936561G>T	uc002ulq.2	-	1	922	c.604C>A	c.(604-606)CGT>AGT	p.R202S	PDE11A_uc002ulr.2_Intron|PDE11A_uc002ult.1_Intron	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	202					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			AAGAACTGACGCTCATTATGC	0.478									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				35	240	---	---	---	---	PASS	T	178936561	T	T	178936561	3	4	30	1	0	0	0	0	1	0	0	0	11631	1087	38	1	2277	1	PDE11A	2	178936561	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	75968191	178936561	64262812	32	12608										
TTN	7273	broad.mit.edu	37	chr2	179576701	179576701	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aaggaaagttgatgcagaaaCttctcccacgctgttttcag	9	9	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:179576701C>A	uc010zfg.1	-	93	24348	c.24124G>T	c.(24124-24126)GTT>TTT	p.V8042F	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.V4703F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8969							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)			GATGCAGAAACTTCTCCCACG	0.353													37	132	---	---	---	---	PASS	A	179576701	A	A	179576701	3	1	30	1	0	0	0	0	1	0	0	0	16732	565	20	3	76741	3	TTN	2	179576701	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	640140	179576701	63622672	33	12609										
TTN	7273	broad.mit.edu	37	chr2	179640549	179640549	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cgagacttgagctccacagcGgtaatggcttcataatagcc	10	11	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:179640549G>T	uc010zfg.1	-	28	6266	c.6042C>A	c.(6040-6042)ACC>ACA	p.T2014T	TTN_uc010zfh.1_Silent_p.T1968T|TTN_uc010zfi.1_Silent_p.T1968T|TTN_uc010zfj.1_Silent_p.T1968T|TTN_uc002unb.2_Silent_p.T2014T|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2014							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)			GCTCCACAGCGGTAATGGCTT	0.458													78	259	---	---	---	---	PASS	T	179640549	T	T	179640549	2	4	30	1	0	0	0	0	0	0	0	1	16732	1103	39	1		1	TTN	2	179640549	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	63848	179640549	63558824	34	12610										
PGAP1	80055	broad.mit.edu	37	chr2	197706014	197706014	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aatgaagacaaagcatggaaGcctatataaatgtgctgacc	9	7	0	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:197706014G>T	uc002utw.2	-	27	2827	c.2713C>A	c.(2713-2715)CTT>ATT	p.L905I	PGAP1_uc002utx.2_Missense_Mutation_p.L731I|PGAP1_uc010fsi.2_Missense_Mutation_p.L144I	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	905	Helical; (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						AAGCATGGAAGCCTATATAAA	0.368													14	72	---	---	---	---	PASS	T	197706014	T	T	197706014	3	4	30	1	0	0	0	0	1	0	0	0	11777	971	34	3	59	3	PGAP1	2	197706014	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	18065465	197706014	45493359	35	12611										
CLK1	1195	broad.mit.edu	37	chr2	201724413	201724413	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggaaacttacgctttatgatCgatgcactccacaacttttc	6	11	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:201724413C>A	uc002uwe.2	-	5	719	c.538G>T	c.(538-540)GAT>TAT	p.D180Y	CLK1_uc002uwd.2_5'Flank|CLK1_uc010zhi.1_Missense_Mutation_p.D222Y|CLK1_uc002uwf.2_5'UTR|CLK1_uc002uwg.2_Missense_Mutation_p.D29Y|CLK1_uc010fsv.2_RNA	NM_004071	NP_004062	P49759	CLK1_HUMAN	CDC-like kinase 1 isoform 1	180	Protein kinase.				cell proliferation	nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			pancreas(2)	2						GCTTTATGATCGATGCACTCC	0.363													17	108	---	---	---	---	PASS	A	201724413	A	A	201724413	3	1	30	1	0	0	0	0	1	0	0	0	3536	884	31	2	952	2	CLK1	2	201724413	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	4018399	201724413	41474960	36	12612										
ERBB4	2066	broad.mit.edu	37	chr2	212652768	212652768	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	acatcctgaactaccatttgTtgacacaagagtcaagttgg	8	9	1	3	rs78887537		TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:212652768T>C	uc002veg.1	-	4	636	c.538A>G	c.(538-540)ACA>GCA	p.T180A	ERBB4_uc002veh.1_Missense_Mutation_p.T180A|ERBB4_uc010zji.1_Missense_Mutation_p.T180A|ERBB4_uc010zjj.1_Missense_Mutation_p.T180A|ERBB4_uc010fut.1_Missense_Mutation_p.T180A	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	180	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CTACCATTTGTTGACACAAGA	0.363										TSP Lung(8;0.080)			21	109	---	---	---	---	PASS	C	212652768	C	C	212652768	3	2	30	1	0	0	0	0	1	0	0	0	5209	1725	60	5	3488	5	ERBB4	2	212652768	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	10928355	212652768	30546605	37	12613										
PECR	55825	broad.mit.edu	37	chr2	216930136	216930136	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gggaaagaaactggcctcctCcattgttcaccaagaaattg	9	10	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:216930136C>T	uc002vft.2	-	3	391	c.323G>A	c.(322-324)GGA>GAA	p.G108E	PECR_uc010zjq.1_RNA|PECR_uc002vfr.2_5'UTR|PECR_uc002vfs.2_5'UTR|PECR_uc002vfu.1_Missense_Mutation_p.G127E	NM_018441	NP_060911	Q9BY49	PECR_HUMAN	peroxisomal trans-2-enoyl-CoA reductase	108					fatty acid biosynthetic process|regulation of apoptosis	peroxisome	binding|trans-2-enoyl-CoA reductase (NADPH) activity				0		Renal(323;0.0327)		Epithelial(149;3.8e-06)|all cancers(144;0.000272)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Adenine(DB00173)	CTGGCCTCCTCCATTGTTCAC	0.418													24	177	---	---	---	---	PASS	T	216930136	T	T	216930136	3	4	30	1	0	0	0	0	1	0	0	0	11717	855	30	2	612	2	PECR	2	216930136	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	4277368	216930136	26269237	38	12614										
GIGYF2	26058	broad.mit.edu	37	chr2	233677120	233677120	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gaatatctgatcagaacatcAttccctcagtaactaggtct	6	10	5	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr2:233677120A>T	uc002vti.3	+	20	2363	c.2026A>T	c.(2026-2028)ATT>TTT	p.I676F	GIGYF2_uc010zmj.1_Missense_Mutation_p.I676F|GIGYF2_uc002vtg.2_Missense_Mutation_p.I670F|GIGYF2_uc002vtj.3_Missense_Mutation_p.I697F|GIGYF2_uc002vtk.3_Missense_Mutation_p.I676F|GIGYF2_uc002vth.3_Missense_Mutation_p.I670F|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Missense_Mutation_p.I507F|GIGYF2_uc002vtq.3_Missense_Mutation_p.I9F	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	676	Gln-rich.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		TCAGAACATCATTCCCTCAGT	0.378													20	67	---	---	---	---	PASS	T	233677120	T	T	233677120	3	4	30	1	0	0	0	0	1	0	0	0	6378	217	8	5	2158	5	GIGYF2	2	233677120	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	16746984	233677120	9522253	39	12615										
ATG7	10533	broad.mit.edu	37	chr3	11340856	11340856	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gtgactctgctgggctgccaGctcgcttaacattggagttc	12	11	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr3:11340856G>T	uc003bwc.2	+	3	298	c.181G>T	c.(181-183)GCT>TCT	p.A61S	ATG7_uc003bwd.2_Missense_Mutation_p.A61S|ATG7_uc011aum.1_Missense_Mutation_p.A61S	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	61					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						TGGGCTGCCAGCTCGCTTAAC	0.368													49	175	---	---	---	---	PASS	T	11340856	T	T	11340856	3	4	30	1	0	0	0	0	1	0	0	0	1101	971	34	3	187	3	ATG7	3	11340856	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08		11340856	186681574	40	12616										
ARPP21	10777	broad.mit.edu	37	chr3	35835355	35835355	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	acaaccttaggctgattggcCcacactgcccctccagcact	7	17	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr3:35835355C>T	uc003cgb.2	+	20	2608	c.2344C>T	c.(2344-2346)CCA>TCA	p.P782S	ARPP21_uc003cga.2_Missense_Mutation_p.P763S|ARPP21_uc011axy.1_Missense_Mutation_p.P783S|ARPP21_uc003cgf.2_Missense_Mutation_p.P618S|ARPP21_uc003cgg.2_Missense_Mutation_p.P305S	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	782						cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						GCTGATTGGCCCACACTGCCC	0.537													29	101	---	---	---	---	PASS	T	35835355	T	T	35835355	3	4	30	1	0	0	0	0	1	0	0	0	978	623	22	3	2427	3	ARPP21	3	35835355	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	24494499	35835355	162187075	41	12617										
CCDC36	339834	broad.mit.edu	37	chr3	49294148	49294148	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttttcaaccagcattaagaaTgcctgccaaaaatatcaagc	5	10	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr3:49294148T>C	uc003cwk.2	+	10	1605	c.1218T>C	c.(1216-1218)AAT>AAC	p.N406N	CCDC36_uc011bck.1_Silent_p.N406N	NM_178173	NP_835467	Q8IYA8	CCD36_HUMAN	coiled-coil domain containing 36	406										ovary(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(193;9.11e-05)|Kidney(197;0.00248)|KIRC - Kidney renal clear cell carcinoma(197;0.00262)		GCATTAAGAATGCCTGCCAAA	0.458													34	120	---	---	---	---	PASS	C	49294148	C	C	49294148	2	2	30	1	0	0	0	0	0	0	0	1	2808	1461	51	5		5	CCDC36	3	49294148	Silent	SNP	T	TCGA-22-1002-01A-01D-1521-08	13458793	49294148	148728282	42	12618										
ARHGEF3	50650	broad.mit.edu	37	chr3	56763415	56763415	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cagtctgactcactgtccgaTtggtccatctgctcaagttt	8	12	4	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr3:56763415T>C	uc003dig.2	-	10	1633	c.1464A>G	c.(1462-1464)CAA>CAG	p.Q488Q	ARHGEF3_uc011bew.1_Silent_p.Q488Q|ARHGEF3_uc003dih.2_Silent_p.Q520Q|ARHGEF3_uc011bev.1_Silent_p.Q459Q|ARHGEF3_uc003dif.2_Silent_p.Q494Q|ARHGEF3_uc010hmy.1_Silent_p.Q286Q	NM_019555	NP_062455	Q9NR81	ARHG3_HUMAN	Rho guanine nucleotide exchange factor 3 isoform	488					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)		CACTGTCCGATTGGTCCATCT	0.557													30	119	---	---	---	---	PASS	C	56763415	C	C	56763415	2	2	30	1	0	0	0	0	0	0	0	1	904	1490	52	5		5	ARHGEF3	3	56763415	Silent	SNP	T	TCGA-22-1002-01A-01D-1521-08	7469267	56763415	141259015	43	12619										
SHQ1	55164	broad.mit.edu	37	chr3	72799702	72799702	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agaaagggaccttgcaaagaActgactgtctcagatggact	11	8	1	4			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr3:72799702A>C	uc003dpf.2	-	11	1574	c.1467T>G	c.(1465-1467)AGT>AGG	p.S489R	SHQ1_uc010hod.2_Missense_Mutation_p.S400R	NM_018130	NP_060600	Q6PI26	SHQ1_HUMAN	SHQ1 homolog	489	Ser-rich.				ribonucleoprotein complex assembly	cytosol|nucleoplasm	protein binding			ovary(2)|large_intestine(1)	3		Prostate(10;0.00482)|Lung NSC(201;0.0339)|Myeloproliferative disorder(1037;0.204)		BRCA - Breast invasive adenocarcinoma(55;9.68e-05)|Epithelial(33;0.000563)|LUSC - Lung squamous cell carcinoma(21;0.00229)|Lung(16;0.00688)|KIRC - Kidney renal clear cell carcinoma(39;0.018)|Kidney(39;0.0213)		CTTGCAAAGAACTGACTGTCT	0.473													13	159	---	---	---	---	PASS	C	72799702	C	C	72799702	3	2	30	1	0	0	0	0	1	0	0	0	14292	40	2	5	270	5	SHQ1	3	72799702	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	16036287	72799702	125222728	44	12620										
DZIP3	9666	broad.mit.edu	37	chr3	108363259	108363259	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aggagttaccgcaatccaaaCagtttgacttatgcctcctg	8	11	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr3:108363259C>T	uc003dxd.2	+	14	1812	c.1390C>T	c.(1390-1392)CAG>TAG	p.Q464*	DZIP3_uc003dxf.1_Nonsense_Mutation_p.Q464*|DZIP3_uc011bhm.1_Intron|DZIP3_uc003dxe.1_Nonsense_Mutation_p.Q464*|DZIP3_uc003dxg.1_Nonsense_Mutation_p.Q187*	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	464					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GCAATCCAAACAGTTTGACTT	0.428													29	269	---	---	---	---	PASS	T	108363259	T	T	108363259	4	4	30	1	0	0	0	0	0	1	0	0	4865	479	17	3	1440	3	DZIP3	3	108363259	Nonsense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	35563557	108363259	89659171	45	12621										
CD80	941	broad.mit.edu	37	chr3	119256055	119256055	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gacacatgaagctgtggttgGttgtcatattgaaatccagt	11	6	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr3:119256055G>C	uc003ecq.2	-	4	1024	c.629C>G	c.(628-630)ACC>AGC	p.T210S	CD80_uc010hqt.1_Missense_Mutation_p.T210S|CD80_uc010hqu.1_Intron	NM_005191	NP_005182	P33681	CD80_HUMAN	CD80 antigen precursor	210	Extracellular (Potential).|Ig-like C2-type.				interspecies interaction between organisms|intracellular signal transduction|positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of signal transduction|positive regulation of T-helper 1 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation	intracellular	coreceptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2					Abatacept(DB01281)	GCTGTGGTTGGTTGTCATATT	0.393													80	379	---	---	---	---	PASS	C	119256055	C	C	119256055	3	2	30	1	0	0	0	0	1	0	0	0	3038	1261	44	4	249	4	CD80	3	119256055	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	10892796	119256055	78766375	46	12622										
C3orf15	89876	broad.mit.edu	37	chr3	119434428	119434428	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gggcagaaccatacacttttCctcctacttctactaagcac	5	14	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr3:119434428C>A	uc003ede.3	+	6	597	c.520C>A	c.(520-522)CCT>ACT	p.P174T	C3orf15_uc003edc.2_Missense_Mutation_p.P174T|C3orf15_uc010hqy.1_Missense_Mutation_p.P174T|C3orf15_uc010hqz.2_Missense_Mutation_p.P112T|C3orf15_uc011bjd.1_Missense_Mutation_p.P48T|C3orf15_uc011bje.1_Missense_Mutation_p.P154T|C3orf15_uc010hra.1_5'UTR	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	174						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		ATACACTTTTCCTCCTACTTC	0.368													137	397	---	---	---	---	PASS	A	119434428	A	A	119434428	3	1	30	1	0	0	0	0	1	0	0	0	2209	855	30	2	542	2	C3orf15	3	119434428	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	178373	119434428	78588002	47	12623										
ABCC5	10057	broad.mit.edu	37	chr3	183683230	183683230	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gtagcattgaggatccaggcCtgctgggccacataagcgaa	13	10	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr3:183683230C>G	uc003fmg.2	-	13	2058	c.1893G>C	c.(1891-1893)CAG>CAC	p.Q631H	ABCC5_uc011bqt.1_Missense_Mutation_p.Q159H|ABCC5_uc010hxl.2_Missense_Mutation_p.Q631H	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	631	ABC transporter 1.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GGATCCAGGCCTGCTGGGCCA	0.473													43	201	---	---	---	---	PASS	G	183683230	G	G	183683230	3	3	30	1	0	0	0	0	1	0	0	0	56	680	24	4	2492	4	ABCC5	3	183683230	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	64248802	183683230	14339200	48	12624										
MUC4	4585	broad.mit.edu	37	chr3	195517500	195517500	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttcttagaaaaagctgttgtGtcctgagtagaagtccttga	10	6	1	4			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr3:195517500G>A	uc011bto.1	-	2	1411	c.951C>T	c.(949-951)GAC>GAT	p.D317D	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Silent_p.D199D	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	322					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AAGCTGTTGTGTCCTGAGTAG	0.463													53	261	---	---	---	---	PASS	A	195517500	A	A	195517500	2	1	30	1	0	0	0	0	0	0	0	1	9978	1368	48	3		3	MUC4	3	195517500	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	11834270	195517500	2504930	49	12625										
C4orf50	389197	broad.mit.edu	37	chr4	5981919	5981919	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	accttggcctggagctcctcCtggaggcgggtggcctcgtc	15	14	0	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr4:5981919C>A	uc003git.1	-	2	240	c.150G>T	c.(148-150)CAG>CAT	p.Q50H		NM_207405	NP_997288	Q6ZRC1	CD050_HUMAN	hypothetical protein LOC389197	50	Potential.									pancreas(2)|breast(1)	3						GGAGCTCCTCCTGGAGGCGGG	0.652													6	61	---	---	---	---	PASS	A	5981919	A	A	5981919	3	1	30	1	0	0	0	0	1	0	0	0	2276	680	24	3	704	3	C4orf50	4	5981919	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08		5981919	185172357	50	12626										
TBC1D14	57533	broad.mit.edu	37	chr4	7012487	7012487	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aaaccctgtcaaatggcgttTtttagagtggaccatggcct	10	9	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr4:7012487T>G	uc011bwg.1	+	11	1705	c.1626T>G	c.(1624-1626)TTT>TTG	p.F542L	TBC1D14_uc003gjs.3_Missense_Mutation_p.F542L|TBC1D14_uc010idh.2_Missense_Mutation_p.F262L|TBC1D14_uc011bwh.1_Missense_Mutation_p.F189L|TBC1D14_uc003gju.3_Missense_Mutation_p.F33L	NM_001113361	NP_001106832	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14 isoform a	542	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			ovary(1)|pancreas(1)	2						AAATGGCGTTTTTTAGAGTGG	0.443													35	302	---	---	---	---	PASS	G	7012487	G	G	7012487	3	3	30	1	0	0	0	0	1	0	0	0	15600	1838	64	5	1671	5	TBC1D14	4	7012487	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	1030568	7012487	184141789	51	12627										
PDGFRA	5156	broad.mit.edu	37	chr4	55139838	55139838	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggaggagaccatcgccgtgcGatgcctggctaagaatctcc	13	12	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr4:55139838G>T	uc003han.3	+	10	1830	c.1499G>T	c.(1498-1500)CGA>CTA	p.R500L	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Missense_Mutation_p.R394L|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	500	Ig-like C2-type 5.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity	p.R500R(1)		soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	ATCGCCGTGCGATGCCTGGCT	0.557			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			18	141	---	---	---	---	PASS	T	55139838	T	T	55139838	3	4	30	1	0	0	0	0	1	0	0	0	11661	1058	37	2	1533	2	PDGFRA	4	55139838	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	48127351	55139838	136014438	52	12628										
RASGEF1B	153020	broad.mit.edu	37	chr4	82363480	82363480	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gtcaaattttgcagtcttcaCtttggcccaagtttttttta	6	8	3	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr4:82363480C>G	uc003hmi.1	-	9	1123	c.979G>C	c.(979-981)GTG>CTG	p.V327L	RASGEF1B_uc003hmj.1_Missense_Mutation_p.V326L|RASGEF1B_uc010ijq.1_Missense_Mutation_p.V285L	NM_152545	NP_689758	Q0VAM2	RGF1B_HUMAN	RasGEF domain family, member 1B	327	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						GCAGTCTTCACTTTGGCCCAA	0.388													13	138	---	---	---	---	PASS	G	82363480	G	G	82363480	3	3	30	1	0	0	0	0	1	0	0	0	13070	565	20	4	466	4	RASGEF1B	4	82363480	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	27223642	82363480	108790796	53	12629										
ADH4	127	broad.mit.edu	37	chr4	100062715	100062715	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gtttgacgttggtcactcctGgcccaatactttccacaata	7	12	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr4:100062715G>T	uc003hun.2	-	3	315	c.239C>A	c.(238-240)CCA>CAA	p.P80Q	uc003hum.1_Intron|ADH4_uc011ced.1_Missense_Mutation_p.P99Q	NM_000670	NP_000661	P08319	ADH4_HUMAN	class II alcohol dehydrogenase, pi subunit	80					alcohol catabolic process|cellular aldehyde metabolic process|ethanol oxidation|quinone cofactor metabolic process|retinol metabolic process|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	alcohol dehydrogenase activity, zinc-dependent|all-trans retinal binding|benzaldehyde dehydrogenase activity|NAD binding|NADPH:quinone reductase activity|retinol binding|retinol dehydrogenase activity|zinc ion binding			skin(2)	2				OV - Ovarian serous cystadenocarcinoma(123;4.48e-08)	NADH(DB00157)	GGTCACTCCTGGCCCAATACT	0.413													7	72	---	---	---	---	PASS	T	100062715	T	T	100062715	3	4	30	1	0	0	0	0	1	0	0	0	310	1348	47	3	931	3	ADH4	4	100062715	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	17699235	100062715	91091561	54	12630										
ENPEP	2028	broad.mit.edu	37	chr4	111409723	111409723	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agtggccaccgatcatgaacCaacagatgccaggaaatctt	9	11	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr4:111409723C>T	uc003iab.3	+	2	1013	c.671C>T	c.(670-672)CCA>CTA	p.P224L		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	224	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	GATCATGAACCAACAGATGCC	0.393													9	54	---	---	---	---	PASS	T	111409723	T	T	111409723	3	4	30	1	0	0	0	0	1	0	0	0	5128	594	21	3	677	3	ENPEP	4	111409723	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	11347008	111409723	79744553	55	12631										
C4orf21	55345	broad.mit.edu	37	chr4	113544995	113544995	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	caaggcatttaagaaacagaCtctccaaacatgctcctttg	6	11	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr4:113544995C>A	uc003iau.2	-	4	351	c.140G>T	c.(139-141)AGT>ATT	p.S47I	C4orf21_uc003iaw.2_Missense_Mutation_p.S47I	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		AAGAAACAGACTCTCCAAACA	0.259													4	42	---	---	---	---	PASS	A	113544995	A	A	113544995	3	1	30	1	0	0	0	0	1	0	0	0	2254	565	20	3	6274	3	C4orf21	4	113544995	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	2135272	113544995	77609281	56	12632										
ANK2	287	broad.mit.edu	37	chr4	114257161	114257161	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cacagtggtgccccaggtgcAggccgtcttcccagaggggg	16	13	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr4:114257161A>C	uc003ibe.3	+	30	3639	c.3539A>C	c.(3538-3540)CAG>CCG	p.Q1180P	ANK2_uc003ibd.3_Missense_Mutation_p.Q1171P|ANK2_uc003ibf.3_Missense_Mutation_p.Q1180P|ANK2_uc011cgc.1_Missense_Mutation_p.Q356P|ANK2_uc003ibg.3_Missense_Mutation_p.Q175P|ANK2_uc003ibc.2_Missense_Mutation_p.Q1156P|ANK2_uc011cgb.1_Missense_Mutation_p.Q1195P	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1147					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CCCCAGGTGCAGGCCGTCTTC	0.532													23	179	---	---	---	---	PASS	C	114257161	C	C	114257161	3	2	30	1	0	0	0	0	1	0	0	0	621	188	7	5	3722	5	ANK2	4	114257161	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	712166	114257161	76897115	57	12633										
INTU	27152	broad.mit.edu	37	chr4	128584730	128584730	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cagctcgactcagaaacctcAaaggaagaggtgagtgtcct	11	10	2	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr4:128584730A>G	uc003ifk.1	+	4	1033	c.963A>G	c.(961-963)TCA>TCG	p.S321S	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	321										ovary(1)	1						CAGAAACCTCAAAGGAAGAGG	0.423													13	112	---	---	---	---	PASS	G	128584730	G	G	128584730	2	3	30	1	0	0	0	0	0	0	0	1	7786	117	5	5		5	INTU	4	128584730	Silent	SNP	A	TCGA-22-1002-01A-01D-1521-08	14327569	128584730	62569546	58	12634										
DNAH5	1767	broad.mit.edu	37	chr5	13871757	13871757	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gttttggaaatagagaatctGggactcaaattcagaaagca	10	5	3	2	rs141168110	byFrequency	TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr5:13871757G>T	uc003jfd.2	-	23	3556	c.3514C>A	c.(3514-3516)CAG>AAG	p.Q1172K		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1172	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TAGAGAATCTGGGACTCAAAT	0.403									Kartagener_syndrome				48	100	---	---	---	---	PASS	T	13871757	T	T	13871757	3	4	30	1	0	0	0	0	1	0	0	0	4604	1357	47	3	10588	3	DNAH5	5	13871757	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08		13871757	167043503	59	12635										
PRDM9	56979	broad.mit.edu	37	chr5	23510043	23510043	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tttcaggtctcagagccactCgaccagctttcatgtgtcac	8	13	4	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr5:23510043C>T	uc003jgo.2	+	4	390	c.208C>T	c.(208-210)CGA>TGA	p.R70*		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	70	KRAB-related.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						CAGAGCCACTCGACCAGCTTT	0.483										HNSCC(3;0.000094)			8	172	---	---	---	---	PASS	T	23510043	T	T	23510043	4	4	30	1	0	0	0	0	0	1	0	0	12463	876	31	2	218	2	PRDM9	5	23510043	Nonsense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	9638286	23510043	157405217	60	12636										
SPEF2	79925	broad.mit.edu	37	chr5	35793334	35793334	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gaagttcctgttagtaacctCaatgccttggcccattccct	7	13	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr5:35793334C>T	uc003jjo.2	+	32	4739	c.4628C>T	c.(4627-4629)TCA>TTA	p.S1543L	SPEF2_uc003jjp.1_Missense_Mutation_p.S1029L|SPEF2_uc003jjr.2_Missense_Mutation_p.S598L	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1543					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TTAGTAACCTCAATGCCTTGG	0.463													18	202	---	---	---	---	PASS	T	35793334	T	T	35793334	3	4	30	1	0	0	0	0	1	0	0	0	15034	838	29	2	4775	2	SPEF2	5	35793334	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	12283291	35793334	145121926	61	12637										
JMY	133746	broad.mit.edu	37	chr5	78533462	78533462	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cagcgagctgcggcagaaggGctacgaagaagtgcttcagc	15	10	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr5:78533462G>A	uc003kfx.3	+	1	1509	c.989G>A	c.(988-990)GGC>GAC	p.G330D		NM_152405	NP_689618	Q8N9B5	JMY_HUMAN	junction-mediating and regulatory protein	330	Potential.				'de novo' actin filament nucleation|actin polymerization-dependent cell motility|Arp2/3 complex-mediated actin nucleation|cell cycle arrest|DNA repair|induction of apoptosis|positive regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter	cell leading edge|cytoplasm|cytoskeleton|nucleus	actin binding|transcription coactivator activity				0		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;4.45e-45)|Epithelial(54;5.85e-40)|all cancers(79;2.89e-35)		CGGCAGAAGGGCTACGAAGAA	0.582													16	88	---	---	---	---	PASS	A	78533462	A	A	78533462	3	1	30	1	0	0	0	0	1	0	0	0	7957	1203	42	3	991	3	JMY	5	78533462	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	42740128	78533462	102381798	62	12638										
MEGF10	84466	broad.mit.edu	37	chr5	126755734	126755734	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ctctggcgttcttgtcgcacAggctggcacggggtggactg	16	11	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr5:126755734A>G	uc003kuh.3	+	13	1789	c.1427_splice	c.e13-2	p.G476_splice	MEGF10_uc010jdc.1_Splice_Site_p.G476_splice|MEGF10_uc010jdd.1_Splice_Site_p.G476_splice|MEGF10_uc003kui.3_Splice_Site_p.G476_splice	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor						cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		CTTGTCGCACAGGCTGGCACG	0.557													18	84	---	---	---	---	PASS	G	126755734	G	G	126755734	5	3	30	1	0	0	0	0	0	0	1	0	9460	202	7	5	1467	5	MEGF10	5	126755734	Splice_Site	SNP	A	TCGA-22-1002-01A-01D-1521-08	48222272	126755734	54159526	63	12639										
KIF20A	10112	broad.mit.edu	37	chr5	137518647	137518647	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cattgctgggctctcttctaTcagtcagtgtaccagcagta	9	11	4	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr5:137518647T>C	uc003lcj.2	+	7	1296	c.800T>C	c.(799-801)ATC>ACC	p.I267T	KIF20A_uc011cyo.1_Missense_Mutation_p.I249T	NM_005733	NP_005724	O95235	KI20A_HUMAN	kinesin family member 20A	267	Kinesin-motor.				cytokinesis|M phase of mitotic cell cycle|microtubule-based movement|protein transport|vesicle-mediated transport	Golgi apparatus|microtubule|nucleoplasm	ATP binding|microtubule motor activity|protein binding|transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CTCTCTTCTATCAGTCAGTGT	0.517													24	70	---	---	---	---	PASS	C	137518647	C	C	137518647	3	2	30	1	0	0	0	0	1	0	0	0	8286	1435	50	5	822	5	KIF20A	5	137518647	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	10762913	137518647	43396613	64	12640										
PCDHA6	56142	broad.mit.edu	37	chr5	140209904	140209904	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gcccacgctggtgtgctccaGcgcagtggggagctggtcgt	17	12	0	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr5:140209904G>A	uc003lho.2	+	1	2255	c.2228G>A	c.(2227-2229)AGC>AAC	p.S743N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Missense_Mutation_p.S743N	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	743	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGTGCTCCAGCGCAGTGGGG	0.682													13	45	---	---	---	---	PASS	A	140209904	A	A	140209904	3	1	30	1	0	0	0	0	1	0	0	0	11528	971	34	3	2230	3	PCDHA6	5	140209904	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	2691257	140209904	40705356	65	12641										
PCDHA13	56136	broad.mit.edu	37	chr5	140263278	140263278	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccgccgggctgccacatcttCacggtgtctgctcaggacgc	12	16	4	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr5:140263278C>G	uc003lif.2	+	1	1425	c.1425C>G	c.(1423-1425)TTC>TTG	p.F475L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.F475L|PCDHA13_uc003lid.2_Missense_Mutation_p.F475L	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	475	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCACATCTTCACGGTGTCTG	0.667													20	92	---	---	---	---	PASS	G	140263278	G	G	140263278	3	3	30	1	0	0	0	0	1	0	0	0	11523	825	29	2	1427	2	PCDHA13	5	140263278	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	53374	140263278	40651982	66	12642										
PCDHB7	56129	broad.mit.edu	37	chr5	140554682	140554682	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	atgaggtgtgcctgactggaGgctccgggacaaatgagttc	15	8	0	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr5:140554682G>T	uc003lit.2	+	1	2440	c.2266G>T	c.(2266-2268)GGC>TGC	p.G756C	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	756	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTGACTGGAGGCTCCGGGAC	0.557													24	283	---	---	---	---	PASS	T	140554682	T	T	140554682	3	4	30	1	0	0	0	0	1	0	0	0	11547	1000	35	3	2268	3	PCDHB7	5	140554682	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	291404	140554682	40360578	67	12643										
PCDHB14	56122	broad.mit.edu	37	chr5	140604043	140604043	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	actataaatattcaggcaacAgatggtgggggtctttcagg	12	6	3	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr5:140604043A>G	uc003ljb.2	+	1	966	c.966A>G	c.(964-966)ACA>ACG	p.T322T	PCDHB14_uc011dal.1_Silent_p.T169T	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	322	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCAGGCAACAGATGGTGGGG	0.373													27	120	---	---	---	---	PASS	G	140604043	G	G	140604043	2	3	30	1	0	0	0	0	0	0	0	1	11539	175	7	5		5	PCDHB14	5	140604043	Silent	SNP	A	TCGA-22-1002-01A-01D-1521-08	49361	140604043	40311217	68	12644										
GABRA6	2559	broad.mit.edu	37	chr5	161128669	161128669	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttggaggcaccagtaaaataGaccagtattctcgaattctc	8	9	2	1	rs142468532		TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr5:161128669G>T	uc003lyu.2	+	9	1590	c.1252G>T	c.(1252-1254)GAC>TAC	p.D418Y	GABRA6_uc003lyv.2_Missense_Mutation_p.D189Y	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	418	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CAGTAAAATAGACCAGTATTC	0.473										TCGA Ovarian(5;0.080)			36	86	---	---	---	---	PASS	T	161128669	T	T	161128669	3	4	30	1	0	0	0	0	1	0	0	0	6165	942	33	2	1286	2	GABRA6	5	161128669	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	20524626	161128669	19786591	69	12645										
EXOC2	55770	broad.mit.edu	37	chr6	572615	572615	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgtcaatttttcaacaaaggCcaccctgtggggagttttgt	10	8	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr6:572615C>A	uc003mtd.2	-	13	1482	c.1348G>T	c.(1348-1350)GCC>TCC	p.A450S	EXOC2_uc003mte.2_Missense_Mutation_p.A450S|EXOC2_uc011dho.1_Missense_Mutation_p.A45S	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	450					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		TCAACAAAGGCCACCCTGTGG	0.433													35	156	---	---	---	---	PASS	A	572615	A	A	572615	3	1	30	1	0	0	0	0	1	0	0	0	5302	739	26	3	1490	3	EXOC2	6	572615	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08		572615	170542452	70	12646										
CDYL	9425	broad.mit.edu	37	chr6	4952549	4952549	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gctgacagcgcaggaggcgtGtggcaagggcctggtctccc	17	12	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr6:4952549G>T	uc003mwi.2	+	8	1675	c.1544G>T	c.(1543-1545)TGT>TTT	p.C515F	CDYL_uc003mwj.2_Missense_Mutation_p.C461F|CDYL_uc003mwk.2_Missense_Mutation_p.C226F|CDYL_uc011dhx.1_Missense_Mutation_p.C329F|CDYL_uc011dhy.1_Missense_Mutation_p.C329F	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	515					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		CAGGAGGCGTGTGGCAAGGGC	0.567													26	101	---	---	---	---	PASS	T	4952549	T	T	4952549	3	4	30	1	0	0	0	0	1	0	0	0	3185	1377	48	3	1404	3	CDYL	6	4952549	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	4379934	4952549	166162518	71	12647										
GMNN	51053	broad.mit.edu	37	chr6	24781805	24781805	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agaatctagtgaaaataaaaAtcttggaggagtcacccagg	10	6	3	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr6:24781805A>G	uc003nem.2	+	4	437	c.230A>G	c.(229-231)AAT>AGT	p.N77S	GMNN_uc003nen.2_Missense_Mutation_p.N77S	NM_015895	NP_056979	O75496	GEMI_HUMAN	geminin	77					M/G1 transition of mitotic cell cycle|negative regulation of cell cycle|negative regulation of DNA replication|negative regulation of transcription, DNA-dependent	cytosol|nucleoplasm	histone deacetylase binding			ovary(1)	1						GAAAATAAAAATCTTGGAGGA	0.353													17	78	---	---	---	---	PASS	G	24781805	G	G	24781805	3	3	30	1	0	0	0	0	1	0	0	0	6493	101	4	5	240	5	GMNN	6	24781805	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	19829256	24781805	146333262	72	12648										
HIST1H2BD	3017	broad.mit.edu	37	chr6	26158775	26158775	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	accaagtacaccagttccaaGtaactttgccaagtaagcat	6	11	0	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr6:26158775G>C	uc003ngr.2	+	1	427	c.378G>C	c.(376-378)AAG>AAC	p.K126N	HIST1H2BD_uc003ngs.2_Missense_Mutation_p.K126N	NM_021063	NP_066407	P58876	H2B1D_HUMAN	histone cluster 1, H2bd	126					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|pancreas(1)	2						CCAGTTCCAAGTAACTTTGCC	0.512													18	134	---	---	---	---	PASS	C	26158775	C	C	26158775	3	2	30	1	0	0	0	0	1	0	0	0	7143	1020	36	4	380	4	HIST1H2BD	6	26158775	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	1376970	26158775	144956292	73	12649										
PRIM2	5558	broad.mit.edu	37	chr6	57472406	57472406	+	Missense_Mutation	SNP	C	A	A													0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agctgctgaagcaaaagttgCagtcatacaagatctctcct							TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr6:57472406C>A	uc003pdx.2	+	13	1282	c.1195C>A	c.(1195-1197)CAG>AAG	p.Q399K		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	399					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		GCAAAAGTTGCAGTCATACAA	0.438													12	90	---	---	---	---	PASS	A	57472406	A	A	57472406	3	1	30	1	0	0	0	0	1	0	0	0	12491	711	25	3	1237	3	PRIM2	6	57472406	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	31313631	57472406	113642661	74	12650	334	2								
PRIM2	5558	broad.mit.edu	37	chr6	57472407	57472407	+	Missense_Mutation	SNP	A	G	G													0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gctgctgaagcaaaagttgcAgtcatacaagatctctcctg							TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr6:57472407A>G	uc003pdx.2	+	13	1283	c.1196A>G	c.(1195-1197)CAG>CGG	p.Q399R		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	399					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		CAAAAGTTGCAGTCATACAAG	0.438													13	89	---	---	---	---	PASS	G	57472407	G	G	57472407	3	3	30	1	0	0	0	0	1	0	0	0	12491	188	7	5	1238	5	PRIM2	6	57472407	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	1	57472407	113642660	75	12651	334	2								
HTR1E	3354	broad.mit.edu	37	chr6	87725839	87725839	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttgaaaagttccatgcctccAtcaggatcccccccttcgac	6	16	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr6:87725839A>G	uc003pli.2	+	2	1490	c.787A>G	c.(787-789)ATC>GTC	p.I263V		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	263	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	CCATGCCTCCATCAGGATCCC	0.502													40	391	---	---	---	---	PASS	G	87725839	G	G	87725839	3	3	30	1	0	0	0	0	1	0	0	0	7439	217	8	5	789	5	HTR1E	6	87725839	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	30253432	87725839	83389228	76	12652										
C6orf225	619208	broad.mit.edu	37	chr6	112420591	112420591	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tccagtgctgcctgtaatggGaaggagatgtcaccaaccag	12	10	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr6:112420591G>T	uc003pvs.2	+	3	530	c.105G>T	c.(103-105)GGG>GGT	p.G35G		NM_001033564	NP_001028736	Q4G0N7	CF225_HUMAN	hypothetical protein LOC619208	35											0						CCTGTAATGGGAAGGAGATGT	0.453													7	218	---	---	---	---	PASS	T	112420591	T	T	112420591	2	4	30	1	0	0	0	0	0	0	0	1	2358	1161	41	2		2	C6orf225	6	112420591	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	24694752	112420591	58694476	77	12653										
CLVS2	134829	broad.mit.edu	37	chr6	123332243	123332243	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	catagactggagtaacttcaCtttcaagcaagcctctaaac	6	11	3	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr6:123332243C>A	uc003pzi.1	+	3	1372	c.503C>A	c.(502-504)ACT>AAT	p.T168N		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	168	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						AGTAACTTCACTTTCAAGCAA	0.413													23	97	---	---	---	---	PASS	A	123332243	A	A	123332243	3	1	30	1	0	0	0	0	1	0	0	0	3572	565	20	3	509	3	CLVS2	6	123332243	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	10911652	123332243	47782824	78	12654										
ADAT2	134637	broad.mit.edu	37	chr6	143771755	143771755	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cctctgccgacaccgagcacGcgccgcttgcagctggcttg	12	17	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr6:143771755G>A	uc003qjj.2	-	1	87	c.41C>T	c.(40-42)GCG>GTG	p.A14V	PEX3_uc011edx.1_5'Flank|PEX3_uc003qjl.2_5'Flank	NM_182503	NP_872309	Q7Z6V5	ADAT2_HUMAN	deaminase domain containing 1	14					tRNA processing		hydrolase activity|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(155;5.61e-06)|GBM - Glioblastoma multiforme(68;0.0115)		CACCGAGCACGCGCCGCTTGC	0.672													24	142	---	---	---	---	PASS	A	143771755	A	A	143771755	3	1	30	1	0	0	0	0	1	0	0	0	285	1087	38	1	558	1	ADAT2	6	143771755	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	20439512	143771755	27343312	79	12655										
GNA12	2768	broad.mit.edu	37	chr7	2834600	2834600	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccggctgaaagcctccctgaTgccagaatccctccagagtg	10	15	0	4			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:2834600T>A	uc003smu.2	-	2	651	c.487A>T	c.(487-489)ATC>TTC	p.I163F	GNA12_uc011jwb.1_Missense_Mutation_p.I163F|GNA12_uc003smt.2_Missense_Mutation_p.I104F	NM_007353	NP_031379	Q03113	GNA12_HUMAN	guanine nucleotide binding protein (G protein)	163					G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|Rho protein signal transduction	brush border membrane|heterotrimeric G-protein complex	D5 dopamine receptor binding|G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.02e-13)		GCCTCCCTGATGCCAGAATCC	0.572													54	163	---	---	---	---	PASS	A	2834600	A	A	2834600	3	1	30	1	0	0	0	0	1	0	0	0	6500	1464	51	5	670	5	GNA12	7	2834600	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08		2834600	156304063	80	12656										
SDK1	221935	broad.mit.edu	37	chr7	4273008	4273008	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cgggtggtggctgtgaatgaGgcgggctacggggagcccag	21	8	0	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:4273008G>T	uc003smx.2	+	41	6088	c.5949G>T	c.(5947-5949)GAG>GAT	p.E1983D	SDK1_uc010kso.2_Missense_Mutation_p.E1239D|SDK1_uc003smy.2_Missense_Mutation_p.E470D|SDK1_uc003smz.2_Missense_Mutation_p.E43D	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1983	Fibronectin type-III 13.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CTGTGAATGAGGCGGGCTACG	0.612													17	109	---	---	---	---	PASS	T	4273008	T	T	4273008	3	4	30	1	0	0	0	0	1	0	0	0	13968	991	35	3	6111	3	SDK1	7	4273008	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	1438408	4273008	154865655	81	12657										
SP4	6671	broad.mit.edu	37	chr7	21469888	21469888	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ctcaaacacctgctgctactGagtctgaagcccagagctcc	8	15	2	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:21469888G>T	uc003sva.2	+	3	1286	c.1105G>T	c.(1105-1107)GAG>TAG	p.E369*	SP4_uc003svb.2_Nonsense_Mutation_p.E56*	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	369					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						TGCTGCTACTGAGTCTGAAGC	0.478													17	128	---	---	---	---	PASS	T	21469888	T	T	21469888	4	4	30	1	0	0	0	0	0	1	0	0	14966	1291	45	2	1115	2	SP4	7	21469888	Nonsense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	17196880	21469888	137668775	82	12658										
DNAH11	8701	broad.mit.edu	37	chr7	21847537	21847537	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tcaatccattaagtcctttgAagctcaagagaagacactct	6	10	3	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:21847537A>G	uc003svc.2	+	64	10254	c.10223A>G	c.(10222-10224)GAA>GGA	p.E3408G		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3408	Potential.|Stalk (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AAGTCCTTTGAAGCTCAAGAG	0.473									Kartagener_syndrome				10	50	---	---	---	---	PASS	G	21847537	G	G	21847537	3	3	30	1	0	0	0	0	1	0	0	0	4599	246	9	5	10474	5	DNAH11	7	21847537	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	377649	21847537	137291126	83	12659										
NEUROD6	63974	broad.mit.edu	37	chr7	31378481	31378481	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tttttggccagtcgtaaagtCtctattttggacagtttctg	9	7	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:31378481C>G	uc003tch.2	-	2	755	c.402G>C	c.(400-402)GAG>GAC	p.E134D		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	134	Helix-loop-helix motif.				cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						GTCGTAAAGTCTCTATTTTGG	0.463													35	144	---	---	---	---	PASS	G	31378481	G	G	31378481	3	3	30	1	0	0	0	0	1	0	0	0	10351	912	32	2	615	2	NEUROD6	7	31378481	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	9530944	31378481	127760182	84	12660										
NEUROD6	63974	broad.mit.edu	37	chr7	31378518	31378518	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tctgggttttagaataacagGggaccacttttcttaagttg	10	6	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:31378518G>A	uc003tch.2	-	2	718	c.365C>T	c.(364-366)CCC>CTC	p.P122L		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	122	Helix-loop-helix motif.				cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						AGAATAACAGGGGACCACTTT	0.478													38	179	---	---	---	---	PASS	A	31378518	A	A	31378518	3	1	30	1	0	0	0	0	1	0	0	0	10351	1232	43	3	652	3	NEUROD6	7	31378518	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	37	31378518	127760145	85	12661										
GLI3	2737	broad.mit.edu	37	chr7	42007413	42007413	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gatggcactgaggtctcctaTactacctccatcggtcagag	10	12	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:42007413T>C	uc011kbh.1	-	14	2303	c.2212A>G	c.(2212-2214)ATA>GTA	p.I738V	GLI3_uc011kbg.1_Missense_Mutation_p.I679V	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	738					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						AGGTCTCCTATACTACCTCCA	0.552									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				44	222	---	---	---	---	PASS	C	42007413	C	C	42007413	3	2	30	1	0	0	0	0	1	0	0	0	6439	1406	49	5	2538	5	GLI3	7	42007413	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	10628895	42007413	117131250	86	12662										
COBL	23242	broad.mit.edu	37	chr7	51096398	51096398	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gctctctggattctgcgtctGcgtgggcacaggggtggagg	18	9	3	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:51096398G>A	uc003tpr.3	-	10	2580	c.2395C>T	c.(2395-2397)CAG>TAG	p.Q799*	COBL_uc003tps.2_Nonsense_Mutation_p.Q856*|COBL_uc011kcl.1_Nonsense_Mutation_p.Q799*|COBL_uc003tpp.3_Nonsense_Mutation_p.Q585*|COBL_uc003tpq.3_Nonsense_Mutation_p.Q740*|COBL_uc003tpo.3_Nonsense_Mutation_p.Q341*	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	799										skin(3)|ovary(2)	5	Glioma(55;0.08)					TTCTGCGTCTGCGTGGGCACA	0.622													5	91	---	---	---	---	PASS	A	51096398	A	A	51096398	4	1	30	1	0	0	0	0	0	1	0	0	3653	1328	46	3	1406	3	COBL	7	51096398	Nonsense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	9088985	51096398	108042265	87	12663										
WBSCR17	64409	broad.mit.edu	37	chr7	70597922	70597922	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cttccacgagatccggccgcGcgccgaggtggccaacctca	12	17	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:70597922G>A	uc003tvy.2	+	1	134	c.134G>A	c.(133-135)CGC>CAC	p.R45H		NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	45	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				ATCCGGCCGCGCGCCGAGGTG	0.682													7	23	---	---	---	---	PASS	A	70597922	A	A	70597922	3	1	30	1	0	0	0	0	1	0	0	0	17261	1087	38	1	136	1	WBSCR17	7	70597922	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	19501524	70597922	88540741	88	12664										
WNT2	7472	broad.mit.edu	37	chr7	116960739	116960739	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tcggccacgccctggctaatGgcacgcatcacatctggatg	11	14	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:116960739G>A	uc003viz.2	-	2	492	c.192C>T	c.(190-192)GCC>GCT	p.A64A	WNT2_uc003vja.2_5'UTR	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	64					atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		CCTGGCTAATGGCACGCATCA	0.602													8	48	---	---	---	---	PASS	A	116960739	A	A	116960739	2	1	30	1	0	0	0	0	0	0	0	1	17383	1335	47	3		3	WNT2	7	116960739	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	46362817	116960739	42177924	89	12665										
FLNC	2318	broad.mit.edu	37	chr7	128485048	128485048	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tcggtgaggcagccaccttcActgtggactgctcagaggca	13	12	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:128485048A>T	uc003vnz.3	+	21	3738	c.3529A>T	c.(3529-3531)ACT>TCT	p.T1177S	FLNC_uc003voa.3_Missense_Mutation_p.T1177S	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1177	Filamin 10.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						AGCCACCTTCACTGTGGACTG	0.647													17	48	---	---	---	---	PASS	T	128485048	T	T	128485048	3	4	30	1	0	0	0	0	1	0	0	0	5935	159	6	5	3611	5	FLNC	7	128485048	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	11524309	128485048	30653615	90	12666										
DGKI	9162	broad.mit.edu	37	chr7	137257552	137257552	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	atacactggaacttcagttcCtgaatctttggggtgagatc	10	8	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:137257552C>A	uc003vtt.2	-	18	1795	c.1794G>T	c.(1792-1794)CAG>CAT	p.Q598H	DGKI_uc003vtu.2_Missense_Mutation_p.Q298H	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	598					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						ACTTCAGTTCCTGAATCTTTG	0.373													56	128	---	---	---	---	PASS	A	137257552	A	A	137257552	3	1	30	1	0	0	0	0	1	0	0	0	4471	680	24	3	1471	3	DGKI	7	137257552	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	8772504	137257552	21881111	91	12667										
TBXAS1	6916	broad.mit.edu	37	chr7	139715640	139715640	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cctgagcactggccaagcccGgagaccttcaaccctgaaag	10	15	1	3	rs147299625		TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:139715640G>A	uc011kqv.1	+	12	1649	c.1485G>A	c.(1483-1485)CCG>CCA	p.P495P	TBXAS1_uc003vvh.2_Silent_p.P449P|TBXAS1_uc010lne.2_Silent_p.P381P|TBXAS1_uc011kqu.1_Silent_p.P400P|TBXAS1_uc003vvi.2_Silent_p.P449P|TBXAS1_uc003vvj.2_Silent_p.P449P|TBXAS1_uc011kqw.1_Silent_p.P429P	NM_001130966	NP_001124438	P24557	THAS_HUMAN	thromboxane A synthase 1, platelet isoform	448	Cytoplasmic (Potential).				hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|thromboxane-A synthase activity			ovary(2)|breast(1)	3	Melanoma(164;0.0142)					GGCCAAGCCCGGAGACCTTCA	0.597													4	121	---	---	---	---	PASS	A	139715640	A	A	139715640	2	1	30	1	0	0	0	0	0	0	0	1	15661	1103	39	1		1	TBXAS1	7	139715640	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	2458088	139715640	19423023	92	12668										
MKRN1	23608	broad.mit.edu	37	chr7	140155025	140155025	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cttcatcaaaatacctgcacGccttgttgctggaaaggaaa	8	10	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr7:140155025G>A	uc003vvt.2	-	7	1331	c.1106C>T	c.(1105-1107)GCG>GTG	p.A369V	MKRN1_uc003vvs.2_Missense_Mutation_p.A305V|MKRN1_uc011krd.1_Missense_Mutation_p.A103V	NM_013446	NP_038474	Q9UHC7	MKRN1_HUMAN	makorin ring finger protein 1 isoform 1	369	C3H1-type 4.						ligase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.00956)					ATACCTGCACGCCTTGTTGCT	0.473													6	285	---	---	---	---	PASS	A	140155025	A	A	140155025	3	1	30	1	0	0	0	0	1	0	0	0	9606	1087	38	1	350	1	MKRN1	7	140155025	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	439385	140155025	18983638	93	12669										
PRSS55	203074	broad.mit.edu	37	chr8	10387042	10387042	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggtgacagatctattttcgaGggaagaactcggtattccag	12	7	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:10387042G>A	uc003wta.2	+	2	195	c.180G>A	c.(178-180)GAG>GAA	p.E60E	uc010lru.2_Intron|PRSS55_uc003wtb.2_RNA	NM_198464	NP_940866	Q6UWB4	PRS55_HUMAN	hypothetical protein LOC203074 precursor	60	Extracellular (Potential).				proteolysis	integral to membrane	serine-type endopeptidase activity			ovary(1)	1						CTATTTTCGAGGGAAGAACTC	0.517													37	280	---	---	---	---	PASS	A	10387042	A	A	10387042	2	1	30	1	0	0	0	0	0	0	0	1	12634	991	35	3		3	PRSS55	8	10387042	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08		10387042	135976980	94	12670										
BRF2	55290	broad.mit.edu	37	chr8	37704488	37704488	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tccaaatctgcatacaacagCgtgcagatggcccccattgt	8	13	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:37704488C>A	uc003xkk.2	-	3	530	c.420G>T	c.(418-420)ACG>ACT	p.T140T		NM_018310	NP_060780	Q9HAW0	BRF2_HUMAN	RNA polymerase III transcription initiation	140	1.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter|transcription initiation, DNA-dependent	nucleoplasm	protein binding|zinc ion binding				0		Lung NSC(58;0.118)|all_lung(54;0.195)	BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;1.81e-10)			CATACAACAGCGTGCAGATGG	0.527													79	593	---	---	---	---	PASS	A	37704488	A	A	37704488	2	1	30	1	0	0	0	0	0	0	0	1	1511	755	27	1		1	BRF2	8	37704488	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	27317446	37704488	108659534	95	12671										
GOT1L1	137362	broad.mit.edu	37	chr8	37794297	37794297	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agaactcaaagccttgagacAcaaagtattgtaagattcta	7	7	2	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:37794297A>G	uc011lbj.1	-	6	804	c.704T>C	c.(703-705)GTG>GCG	p.V235A		NM_152413	NP_689626	Q8NHS2	AATC2_HUMAN	glutamic-oxaloacetic transaminase 1-like 1	235					biosynthetic process|cellular amino acid metabolic process	cytoplasm	pyridoxal phosphate binding|transaminase activity			ovary(1)	1	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;1.37e-11)			gccttgagacacaaagtattg	0.184													13	64	---	---	---	---	PASS	G	37794297	G	G	37794297	3	3	30	1	0	0	0	0	1	0	0	0	6580	159	6	5		5	GOT1L1	8	37794297	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	89809	37794297	108569725	96	12672										
ASH2L	9070	broad.mit.edu	37	chr8	37968287	37968287	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aatgtgccttagtgctttggCcaacctgacatggcagtccc	10	12	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:37968287C>T	uc003xkt.3	+	5	579	c.521C>T	c.(520-522)GCC>GTC	p.A174V	ASH2L_uc011lbk.1_Missense_Mutation_p.A35V|ASH2L_uc003xku.3_Missense_Mutation_p.A80V|ASH2L_uc010lwa.2_Missense_Mutation_p.A80V	NM_004674	NP_004665	Q9UBL3	ASH2L_HUMAN	ash2-like isoform a	174					hemopoiesis|histone H3-K4 methylation|positive regulation of cell proliferation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription from RNA polymerase II promoter	Set1C/COMPASS complex	metal ion binding|protein binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2	Colorectal(12;0.000501)	Lung NSC(58;0.0295)|all_lung(54;0.0413)				AGTGCTTTGGCCAACCTGACA	0.403													3	50	---	---	---	---	PASS	T	37968287	T	T	37968287	3	4	30	1	0	0	0	0	1	0	0	0	1042	739	26	3	539	3	ASH2L	8	37968287	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	173990	37968287	108395735	97	12673										
WHSC1L1	54904	broad.mit.edu	37	chr8	38146064	38146064	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccgctccgttttgatgatctCtgcatcagggtatagtctct	9	11	3	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:38146064C>T	uc003xli.2	-	19	3960	c.3442G>A	c.(3442-3444)GAG>AAG	p.E1148K	WHSC1L1_uc011lbm.1_Missense_Mutation_p.E1148K|WHSC1L1_uc010lwe.2_Missense_Mutation_p.E1099K	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1148	SET.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			TTGATGATCTCTGCATCAGGG	0.532			T	NUP98	AML								114	817	---	---	---	---	PASS	T	38146064	T	T	38146064	3	4	30	1	0	0	0	0	1	0	0	0	17360	922	32	2	895	2	WHSC1L1	8	38146064	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	177777	38146064	108217958	98	12674			1	14		4	4	93	C		7.015121e-11
WHSC1L1	54904	broad.mit.edu	37	chr8	38146112	38146112	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gcactggttctgacaacgatCtccagctgggcacacctgcg	11	14	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:38146112C>T	uc003xli.2	-	19	3912	c.3394G>A	c.(3394-3396)GAT>AAT	p.D1132N	WHSC1L1_uc011lbm.1_Missense_Mutation_p.D1132N|WHSC1L1_uc010lwe.2_Missense_Mutation_p.D1083N	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1132	AWS.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			TGACAACGATCTCCAGCTGGG	0.517			T	NUP98	AML								73	826	---	---	---	---	PASS	T	38146112	T	T	38146112	3	4	30	1	0	0	0	0	1	0	0	0	17360	913	32	2	943	2	WHSC1L1	8	38146112	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	48	38146112	108217910	99	12675			1	14		4	4	93	C		7.015121e-11
WHSC1L1	54904	broad.mit.edu	37	chr8	38146142	38146142	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gcacacctgcgggtggcattCatactgcaacattctgttca	9	12	3	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:38146142C>T	uc003xli.2	-	19	3882	c.3364G>A	c.(3364-3366)GAA>AAA	p.E1122K	WHSC1L1_uc011lbm.1_Missense_Mutation_p.E1122K|WHSC1L1_uc010lwe.2_Missense_Mutation_p.E1073K	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1122	AWS.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			GGGTGGCATTCATACTGCAAC	0.517			T	NUP98	AML								78	818	---	---	---	---	PASS	T	38146142	T	T	38146142	3	4	30	1	0	0	0	0	1	0	0	0	17360	835	29	2	973	2	WHSC1L1	8	38146142	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	30	38146142	108217880	100	12676			1	14		4	4	93	C		7.015121e-11
WHSC1L1	54904	broad.mit.edu	37	chr8	38146156	38146156	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggcattcatactgcaacattCtgttcaggcactccgattcc	7	13	3	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:38146156C>T	uc003xli.2	-	19	3868	c.3350G>A	c.(3349-3351)AGA>AAA	p.R1117K	WHSC1L1_uc011lbm.1_Missense_Mutation_p.R1117K|WHSC1L1_uc010lwe.2_Missense_Mutation_p.R1068K	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1117	AWS.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			CTGCAACATTCTGTTCAGGCA	0.512			T	NUP98	AML								79	773	---	---	---	---	PASS	T	38146156	T	T	38146156	3	4	30	1	0	0	0	0	1	0	0	0	17360	913	32	2	987	2	WHSC1L1	8	38146156	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	14	38146156	108217866	101	12677			1	14		4	4	93	C		7.015121e-11
ANK1	286	broad.mit.edu	37	chr8	41547781	41547781	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	atggtgatgttcaggtggcaGagaatgtgctgggtgtcctc	16	6	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:41547781G>T	uc003xok.2	-	33	4152	c.4068C>A	c.(4066-4068)CTC>CTA	p.L1356L	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Silent_p.L672L|ANK1_uc003xoi.2_Silent_p.L1356L|ANK1_uc003xoj.2_Silent_p.L1356L|ANK1_uc003xol.2_Silent_p.L1356L|ANK1_uc003xom.2_Silent_p.L1397L	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1356					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TCAGGTGGCAGAGAATGTGCT	0.607													4	169	---	---	---	---	PASS	T	41547781	T	T	41547781	2	4	30	1	0	0	0	0	0	0	0	1	620	929	33	2		2	ANK1	8	41547781	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	3401625	41547781	104816241	102	12678										
AP3M2	10947	broad.mit.edu	37	chr8	42023010	42023010	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttcaaacgctgggaatctgaGcgcatcctctccttcatccc	7	15	4	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:42023010G>A	uc003xop.2	+	7	1026	c.735G>A	c.(733-735)GAG>GAA	p.E245E	AP3M2_uc003xoo.2_Silent_p.E245E|AP3M2_uc010lxe.2_RNA|AP3M2_uc003xoq.1_Silent_p.E130E|AP3M2_uc003xor.1_Silent_p.E245E	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	245	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			GGGAATCTGAGCGCATCCTCT	0.478													16	376	---	---	---	---	PASS	A	42023010	A	A	42023010	2	1	30	1	0	0	0	0	0	0	0	1	748	962	34	3		3	AP3M2	8	42023010	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	475229	42023010	104341012	103	12679										
TERF1	7013	broad.mit.edu	37	chr8	73932953	73932953	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aatgatgaacgaattacaccCttggaatcagccctgatgat	8	9	1	4			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:73932953C>T	uc003xzd.2	+	3	475	c.450C>T	c.(448-450)CCC>CCT	p.P150P	TERF1_uc003xzc.2_RNA|TERF1_uc003xze.2_Silent_p.P150P	NM_017489	NP_059523	P54274	TERF1_HUMAN	telomeric repeat binding factor 1 isoform 1	150	TRFH dimerization.				age-dependent telomere shortening|cell division|G2/M transition of mitotic cell cycle|induction of apoptosis|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of telomere maintenance via semi-conservative replication|negative regulation of telomere maintenance via telomerase|positive regulation of microtubule polymerization|positive regulation of mitosis|positive regulation of mitotic cell cycle|protein homooligomerization|regulation of transcription, DNA-dependent|telomere maintenance via telomerase|telomere maintenance via telomerase|telomere maintenance via telomere shortening	chromosome, telomeric region|cytoplasm|nuclear telomere cap complex|nucleoplasm|nucleus|spindle	caspase activator activity|DNA bending activity|double-stranded telomeric DNA binding|identical protein binding|microtubule binding|protein heterodimerization activity|protein homodimerization activity|telomerase inhibitor activity|telomeric DNA binding	p.P150S(1)		ovary(1)|lung(1)|skin(1)	3	Breast(64;0.218)		Epithelial(68;0.0984)			GAATTACACCCTTGGAATCAG	0.294													11	53	---	---	---	---	PASS	T	73932953	T	T	73932953	2	4	30	1	0	0	0	0	0	0	0	1	15758	668	24	3		3	TERF1	8	73932953	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	31909943	73932953	72431069	104	12680										
ZFHX4	79776	broad.mit.edu	37	chr8	77765924	77765924	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttacccaaaagatgatgaaaTagaacaactctccactgttc	5	10	1	4			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:77765924T>C	uc003yav.2	+	10	7019	c.6632T>C	c.(6631-6633)ATA>ACA	p.I2211T	ZFHX4_uc003yau.1_Missense_Mutation_p.I2256T|ZFHX4_uc003yaw.1_Missense_Mutation_p.I2211T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2211	Homeobox 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GATGATGAAATAGAACAACTC	0.408										HNSCC(33;0.089)			5	35	---	---	---	---	PASS	C	77765924	C	C	77765924	3	2	30	1	0	0	0	0	1	0	0	0	17632	1406	49	5	6801	5	ZFHX4	8	77765924	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	3832971	77765924	68598098	105	12681										
HAS2	3037	broad.mit.edu	37	chr8	122640991	122640991	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttcgtcccagtgctctgaagGctgtgtacatgacttctctt	9	11	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:122640991G>A	uc003yph.2	-	2	1128	c.590C>T	c.(589-591)GCC>GTC	p.A197V		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	197	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			TGCTCTGAAGGCTGTGTACAT	0.433													52	297	---	---	---	---	PASS	A	122640991	A	A	122640991	3	1	30	1	0	0	0	0	1	0	0	0	6962	1203	42	3	1080	3	HAS2	8	122640991	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	44875067	122640991	23723031	106	12682										
FER1L6	654463	broad.mit.edu	37	chr8	125072483	125072483	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccagacatcacccagatctaCccggttcctgccaacattcg	6	17	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr8:125072483C>A	uc003yqw.2	+	23	3143	c.2937C>A	c.(2935-2937)TAC>TAA	p.Y979*	uc003yqy.1_RNA	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	979	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			CCCAGATCTACCCGGTTCCTG	0.582													54	238	---	---	---	---	PASS	A	125072483	A	A	125072483	4	1	30	1	0	0	0	0	0	1	0	0	5815	518	18	3	3023	3	FER1L6	8	125072483	Nonsense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	2431492	125072483	21291539	107	12683										
DMRT1	1761	broad.mit.edu	37	chr9	968063	968063	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tattagtaacaagagcacaaAggcagtgcttgaatgtgagc	11	6	0	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr9:968063A>G	uc003zgv.2	+	5	1195	c.1046A>G	c.(1045-1047)AAG>AGG	p.K349R		NM_021951	NP_068770	Q9Y5R6	DMRT1_HUMAN	doublesex and mab-3 related transcription factor	349					cell differentiation|male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(10;2.66e-10)|Lung NSC(10;2.82e-10)|Breast(48;0.232)		Lung(218;0.037)		AAGAGCACAAAGGCAGTGCTT	0.547													15	67	---	---	---	---	PASS	G	968063	G	G	968063	3	3	30	1	0	0	0	0	1	0	0	0	4585	72	3	5	1064	5	DMRT1	9	968063	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08		968063	140245368	108	12684										
BNC2	54796	broad.mit.edu	37	chr9	16552593	16552593	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gccgtgcagtatgtgcagtaCctcctcttgcttcaggacgc	11	13	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr9:16552593C>A	uc003zml.2	-	5	744	c.604G>T	c.(604-606)GTA>TTA	p.V202L	BNC2_uc011lmw.1_Missense_Mutation_p.V107L|BNC2_uc003zmm.2_Missense_Mutation_p.V160L|BNC2_uc003zmq.1_Missense_Mutation_p.V216L|BNC2_uc003zmr.1_Missense_Mutation_p.V239L|BNC2_uc003zmp.1_Missense_Mutation_p.V230L|BNC2_uc010mij.1_Missense_Mutation_p.V124L|BNC2_uc011lmv.1_Missense_Mutation_p.V28L|BNC2_uc003zmo.1_Missense_Mutation_p.V124L	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	202					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		ATGTGCAGTACCTCCTCTTGC	0.577													38	96	---	---	---	---	PASS	A	16552593	A	A	16552593	3	1	30	1	0	0	0	0	1	0	0	0	1475	507	18	3	2707	3	BNC2	9	16552593	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	15584530	16552593	124660838	109	12685										
TAF1L	138474	broad.mit.edu	37	chr9	32633383	32633383	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	catatttacaatctggtgctCcaggatctttgccaggtttc	8	10	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr9:32633383C>A	uc003zrg.1	-	1	2285	c.2195G>T	c.(2194-2196)GGA>GTA	p.G732V	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	732					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		ATCTGGTGCTCCAGGATCTTT	0.438													60	180	---	---	---	---	PASS	A	32633383	A	A	32633383	3	1	30	1	0	0	0	0	1	0	0	0	15520	855	30	2	3289	2	TAF1L	9	32633383	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	16080790	32633383	108580048	110	12686										
PRUNE2	158471	broad.mit.edu	37	chr9	79270405	79270405	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggggatgtccattcctacatCctctgacagtagtctgcaaa	9	11	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr9:79270405C>A	uc010mpk.2	-	10	8414	c.8290G>T	c.(8290-8292)GAT>TAT	p.D2764Y	PRUNE2_uc011lsk.1_Missense_Mutation_p.D13Y|PRUNE2_uc011lsl.1_Missense_Mutation_p.D28Y|PRUNE2_uc011lsm.1_Missense_Mutation_p.D28Y|PRUNE2_uc004akj.3_Missense_Mutation_p.D217Y|PRUNE2_uc010mpl.1_Missense_Mutation_p.D217Y	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	2764					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						ATTCCTACATCCTCTGACAGT	0.468													5	24	---	---	---	---	PASS	A	79270405	A	A	79270405	3	1	30	1	0	0	0	0	1	0	0	0	12641	855	30	2	1016	2	PRUNE2	9	79270405	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	46637022	79270405	61943026	111	12687										
RASEF	158158	broad.mit.edu	37	chr9	85615900	85615900	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cttgtattccacttctgagtCatactcattgggatctctca	6	11	5	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr9:85615900C>A	uc004amo.1	-	10	1609	c.1348G>T	c.(1348-1350)GAC>TAC	p.D450Y		NM_152573	NP_689786	Q8IZ41	RASEF_HUMAN	RAS and EF-hand domain containing	450					protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3						ACTTCTGAGTCATACTCATTG	0.517													18	85	---	---	---	---	PASS	A	85615900	A	A	85615900	3	1	30	1	0	0	0	0	1	0	0	0	13068	826	29	2	906	2	RASEF	9	85615900	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	6345495	85615900	55597531	112	12688										
PAPPA	5069	broad.mit.edu	37	chr9	119158849	119158849	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgcttgtcgggacccccaggCccaagaacacagccggaaag	12	14	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr9:119158849C>A	uc004bjn.2	+	22	5219	c.4838C>A	c.(4837-4839)GCC>GAC	p.A1613D	PAPPA_uc011lxq.1_Missense_Mutation_p.A988D	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1613					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GACCCCCAGGCCCAAGAACAC	0.522													54	286	---	---	---	---	PASS	A	119158849	A	A	119158849	3	1	30	1	0	0	0	0	1	0	0	0	11432	739	26	3	4924	3	PAPPA	9	119158849	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	33542949	119158849	22054582	113	12689										
KIAA0649	9858	broad.mit.edu	37	chr9	138378128	138378128	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aacaccagacccactgctggGctgcaaaaggaagcgtagag	12	11	0	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr9:138378128G>T	uc004cfr.1	+	4	2321	c.1772G>T	c.(1771-1773)GGC>GTC	p.G591V		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	591						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		CCACTGCTGGGCTGCAAAAGG	0.617													27	110	---	---	---	---	PASS	T	138378128	T	T	138378128	3	4	30	1	0	0	0	0	1	0	0	0	8187	1203	42	3	1774	3	KIAA0649	9	138378128	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	19219279	138378128	2835303	114	12690										
MTPAP	55149	broad.mit.edu	37	chr10	30604932	30604932	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttttatcgaaagcaaaattgCcaaaatactcaaaaaattcc	3	8	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr10:30604932C>A	uc001iva.3	-	8	1409	c.1346G>T	c.(1345-1347)GGC>GTC	p.G449V	MTPAP_uc001ivb.3_Missense_Mutation_p.G579V	NM_018109	NP_060579	Q9NVV4	PAPD1_HUMAN	PAP associated domain containing 1 precursor	449	PAP-associated.				cell death|histone mRNA catabolic process|mRNA polyadenylation|transcription, DNA-dependent	mitochondrion	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|protein homodimerization activity|RNA binding|UTP binding			ovary(1)	1						AGCAAAATTGCCAAAATACTC	0.289													3	45	---	---	---	---	PASS	A	30604932	A	A	30604932	3	1	30	1	0	0	0	0	1	0	0	0	9956	739	26	3	410	3	MTPAP	10	30604932	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08		30604932	104929815	115	12691										
ITGB1	3688	broad.mit.edu	37	chr10	33217124	33217124	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cattgagtaagacaggtccaTaaggtagtagaggtcaatgg	13	5	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr10:33217124T>C	uc001iws.3	-	5	581	c.445A>G	c.(445-447)ATG>GTG	p.M149V	ITGB1_uc001iwp.3_Missense_Mutation_p.M149V|ITGB1_uc001iwq.3_Missense_Mutation_p.M149V|ITGB1_uc001iwr.3_Missense_Mutation_p.M149V|ITGB1_uc001iwt.3_Missense_Mutation_p.M149V|ITGB1_uc001iwu.1_Missense_Mutation_p.M149V	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	149	Extracellular (Potential).|VWFA.				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				GACAGGTCCATAAGGTAGTAG	0.368													47	230	---	---	---	---	PASS	C	33217124	C	C	33217124	3	2	30	1	0	0	0	0	1	0	0	0	7890	1406	49	5	2237	5	ITGB1	10	33217124	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	2612192	33217124	102317623	116	12692										
RBP3	5949	broad.mit.edu	37	chr10	48390601	48390601	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gggaggctcgggggtgctggGctcataggagatgaccaggc	20	8	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr10:48390601G>A	uc001jez.2	-	1	391	c.277C>T	c.(277-279)CCC>TCC	p.P93S		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	93	4 X approximate tandem repeats.|1.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	GGGGTGCTGGGCTCATAGGAG	0.622													37	173	---	---	---	---	PASS	A	48390601	A	A	48390601	3	1	30	1	0	0	0	0	1	0	0	0	13157	1203	42	3	3482	3	RBP3	10	48390601	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	15173477	48390601	87144146	117	12693										
BICC1	80114	broad.mit.edu	37	chr10	60573693	60573693	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tggaattggacctggaagtcAtagtgaatttgcagcttcta	11	6	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr10:60573693A>G	uc001jki.1	+	18	2480	c.2480A>G	c.(2479-2481)CAT>CGT	p.H827R	BICC1_uc001jkj.1_Missense_Mutation_p.H468R	NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	827					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						CCTGGAAGTCATAGTGAATTT	0.448													39	184	---	---	---	---	PASS	G	60573693	G	G	60573693	3	3	30	1	0	0	0	0	1	0	0	0	1427	217	8	5	2550	5	BICC1	10	60573693	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	12183092	60573693	74961054	118	12694										
RTKN2	219790	broad.mit.edu	37	chr10	63999436	63999436	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	acattttcaaaacatatatcTgtgattgttttatccacatt	3	7	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr10:63999436T>A	uc001jlw.2	-	5	556	c.459A>T	c.(457-459)ACA>ACT	p.T153T	RTKN2_uc001jlx.2_Silent_p.T153T	NM_145307	NP_660350	Q8IZC4	RTKN2_HUMAN	rhotekin 2	153					signal transduction	intracellular					0	Prostate(12;0.0297)|all_hematologic(501;0.215)					AACATATATCTGTGATTGTTT	0.269													4	12	---	---	---	---	PASS	A	63999436	A	A	63999436	2	1	30	1	0	0	0	0	0	0	0	1	13723	1567	55	5		5	RTKN2	10	63999436	Silent	SNP	T	TCGA-22-1002-01A-01D-1521-08	3425743	63999436	71535311	119	12695										
CTNNA3	29119	broad.mit.edu	37	chr10	68979521	68979521	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gctttgagggaagcaacatcAgaatgctccaaacaagctga	10	9	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr10:68979521A>G	uc009xpn.1	-	6	810	c.687T>C	c.(685-687)TCT>TCC	p.S229S	CTNNA3_uc001jmw.2_Silent_p.S229S|CTNNA3_uc001jmx.3_Silent_p.S229S|CTNNA3_uc009xpo.1_Silent_p.S89S|CTNNA3_uc001jna.2_Silent_p.S241S	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	229					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						AAGCAACATCAGAATGCTCCA	0.418													43	172	---	---	---	---	PASS	G	68979521	G	G	68979521	2	3	30	1	0	0	0	0	0	0	0	1	4014	175	7	5		5	CTNNA3	10	68979521	Silent	SNP	A	TCGA-22-1002-01A-01D-1521-08	4980085	68979521	66555226	120	12696										
LGI1	9211	broad.mit.edu	37	chr10	95518045	95518045	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgccctgccgtgtgtacttgTaccaaagataatgctttatg	9	9	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr10:95518045T>A	uc001kjc.3	+	1	480	c.144T>A	c.(142-144)TGT>TGA	p.C48*	LGI1_uc010qnv.1_Nonsense_Mutation_p.C48*|LGI1_uc001kjd.3_Nonsense_Mutation_p.C48*|LGI1_uc009xui.2_RNA|LGI1_uc001kje.2_RNA	NM_005097	NP_005088	O95970	LGI1_HUMAN	leucine-rich, glioma inactivated 1 precursor	48	LRRNT.				axon guidance|cell proliferation|positive regulation of cell growth|positive regulation of synaptic transmission	cell junction|extracellular space|synapse	receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4		Colorectal(252;0.124)				TGTGTACTTGTACCAAAGATA	0.438													37	181	---	---	---	---	PASS	A	95518045	A	A	95518045	4	1	30	1	0	0	0	0	0	1	0	0	8751	1644	57	5	146	5	LGI1	10	95518045	Nonsense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	26538524	95518045	40016702	121	12697										
PLCE1	51196	broad.mit.edu	37	chr10	96006091	96006091	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gcctgacggaaggggtcttgGatctttttgcagtgaaggct	15	7	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr10:96006091G>T	uc001kjk.2	+	8	3443	c.2809G>T	c.(2809-2811)GAT>TAT	p.D937Y	PLCE1_uc010qnx.1_Missense_Mutation_p.D937Y|PLCE1_uc001kjm.2_Missense_Mutation_p.D629Y	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	937					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				AGGGGTCTTGGATCTTTTTGC	0.458													40	174	---	---	---	---	PASS	T	96006091	T	T	96006091	3	4	30	1	0	0	0	0	1	0	0	0	12034	1174	41	2	3121	2	PLCE1	10	96006091	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	488046	96006091	39528656	122	12698										
COL17A1	1308	broad.mit.edu	37	chr10	105815545	105815545	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cggcgatgctctcaccatttTcctgttccatcattagcttc	6	14	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr10:105815545T>C	uc001kxr.2	-	18	1851	c.1682A>G	c.(1681-1683)GAA>GGA	p.E561G	COL17A1_uc010qqv.1_Missense_Mutation_p.E545G	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	561	Extracellular (Potential).|Nonhelical region (NC16).				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		CTCACCATTTTCCTGTTCCAT	0.557													16	76	---	---	---	---	PASS	C	105815545	C	C	105815545	3	2	30	1	0	0	0	0	1	0	0	0	3674	1783	62	5	2967	5	COL17A1	10	105815545	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	9809454	105815545	29719202	123	12699										
ADAM12	8038	broad.mit.edu	37	chr10	127737858	127737858	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tttgtgcctgcaagcacaagCcctgggtccggcatgtcatc	11	13	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr10:127737858C>T	uc001ljk.2	-	16	2303	c.1890G>A	c.(1888-1890)GGG>GGA	p.G630G	ADAM12_uc010qul.1_Silent_p.G581G|ADAM12_uc001ljm.2_Silent_p.G630G|ADAM12_uc001ljn.2_Silent_p.G627G|ADAM12_uc001ljl.3_Silent_p.G627G	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	630	Extracellular (Potential).|Cys-rich.				cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		CAAGCACAAGCCCTGGGTCCG	0.517													79	514	---	---	---	---	PASS	T	127737858	T	T	127737858	2	4	30	1	0	0	0	0	0	0	0	1	236	726	26	3		3	ADAM12	10	127737858	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	21922313	127737858	7796889	124	12700										
CYP2E1	1571	broad.mit.edu	37	chr10	135342029	135342029	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttcacgctgtacgtgggctcGcagcgcatggtggtgatgca	15	10	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr10:135342029G>T	uc001lnj.1	+	2	255	c.222G>T	c.(220-222)TCG>TCT	p.S74S	CYP2E1_uc001lnk.1_Intron|CYP2E1_uc009ybl.1_Intron|CYP2E1_uc009ybm.1_Intron	NM_000773	NP_000764	P05181	CP2E1_HUMAN	cytochrome P450, family 2, subfamily E,	74					drug metabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|enzyme binding|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen|oxygen binding			central_nervous_system(3)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)	Acetaminophen(DB00316)|Chlorzoxazone(DB00356)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Dacarbazine(DB00851)|Dapsone(DB00250)|Enflurane(DB00228)|Eszopiclone(DB00402)|Ethanol(DB00898)|Ethosuximide(DB00593)|Fomepizole(DB01213)|Glutathione(DB00143)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Isoniazid(DB00951)|Menadione(DB00170)|Mephenytoin(DB00532)|Methoxyflurane(DB01028)|Midazolam(DB00683)|Mitoxantrone(DB01204)|Nicotine(DB00184)|Nifedipine(DB01115)|Nitrofurantoin(DB00698)|Orphenadrine(DB01173)|Phenelzine(DB00780)|Quinidine(DB00908)|S-Adenosylmethionine(DB00118)|Sevoflurane(DB01236)|Theophylline(DB00277)|Tolbutamide(DB01124)	ACGTGGGCTCGCAGCGCATGG	0.682									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				21	71	---	---	---	---	PASS	T	135342029	T	T	135342029	2	4	30	1	0	0	0	0	0	0	0	1	4170	1074	38	1		1	CYP2E1	10	135342029	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	7604171	135342029	192718	125	12701										
LRDD	55367	broad.mit.edu	37	chr11	804285	804285	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggtccaagctcagccggttgCcgcccaggaaaggcagcgcc	14	15	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:804285C>T	uc001lro.1	-	2	246	c.104G>A	c.(103-105)GGC>GAC	p.G35D	LRDD_uc009yck.1_5'Flank|LRDD_uc001lrk.1_Missense_Mutation_p.G35D|LRDD_uc001lrl.1_5'UTR|LRDD_uc001lrm.1_5'UTR|LRDD_uc001lrn.1_5'UTR|LRDD_uc001lrp.1_5'UTR	NM_145886	NP_665893	Q9HB75	PIDD_HUMAN	leucine rich repeat and death domain containing	35					apoptosis|signal transduction	cytoplasm|nucleus	death receptor binding				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CAGCCGGTTGCCGCCCAGGAA	0.662													3	50	---	---	---	---	PASS	T	804285	T	T	804285	3	4	30	1	0	0	0	0	1	0	0	0	8936	739	26	3	2688	3	LRDD	11	804285	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08		804285	134202231	126	12702										
MUC5B	727897	broad.mit.edu	37	chr11	1276684	1276684	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ctgcatcagcgaccactgcaGgggccgccttgaggtgccct	13	15	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:1276684G>A	uc009ycr.1	+	59	17099	c.16973G>A	c.(16972-16974)AGG>AAG	p.R5658K	MUC5B_uc001ltb.2_Missense_Mutation_p.R5324K	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5321					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GACCACTGCAGGGGCCGCCTT	0.667													3	10	---	---	---	---	PASS	A	1276684	A	A	1276684	3	1	30	1	0	0	0	0	1	0	0	0	9979	1000	35	3	16117	3	MUC5B	11	1276684	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	472399	1276684	133729832	127	12703										
OR52B4	143496	broad.mit.edu	37	chr11	4388864	4388864	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agacagcatggagaatcagcAtataggaaataaaaattagt	9	4	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:4388864A>C	uc010qye.1	-	1	662	c.662T>G	c.(661-663)ATG>AGG	p.M221R		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	221	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0249)|all_neural(188;0.0577)		Epithelial(150;1.57e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0826)|LUSC - Lung squamous cell carcinoma(625;0.19)		GAGAATCAGCATATAGGAAAT	0.388													27	91	---	---	---	---	PASS	C	4388864	C	C	4388864	3	2	30	1	0	0	0	0	1	0	0	0	11112	217	8	5	286	5	OR52B4	11	4388864	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	3112180	4388864	130617652	128	12704										
OR52J3	119679	broad.mit.edu	37	chr11	5068293	5068293	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ctcacataatagcccattccTactgtgagcacatgggcatt	7	12	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:5068293T>C	uc010qyv.1	+	1	538	c.538T>C	c.(538-540)TAC>CAC	p.Y180H		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGCCCATTCCTACTGTGAGCA	0.418													13	192	---	---	---	---	PASS	C	5068293	C	C	5068293	3	2	30	1	0	0	0	0	1	0	0	0	11122	1522	53	5	540	5	OR52J3	11	5068293	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	679429	5068293	129938223	129	12705										
TPP1	1200	broad.mit.edu	37	chr11	6637572	6637572	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cgaagagcagggtgagacccCgagcggcagccttcatgagc	15	12	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:6637572C>T	uc001mel.1	-	8	1110	c.1049G>A	c.(1048-1050)CGG>CAG	p.R350Q	TPP1_uc001mek.1_Missense_Mutation_p.R107Q	NM_000391	NP_000382	O14773	TPP1_HUMAN	tripeptidyl-peptidase I preproprotein	350					bone resorption|cell death|lipid metabolic process|lysosome organization|nervous system development|neuromuscular process controlling balance|peptide catabolic process|protein catabolic process|proteolysis	lysosome|melanosome|soluble fraction	metal ion binding|peptide binding|protein binding|serine-type endopeptidase activity|tripeptidyl-peptidase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;3.45e-09)|BRCA - Breast invasive adenocarcinoma(625;0.131)		GGTGAGACCCCGAGCGGCAGC	0.562													9	180	---	---	---	---	PASS	T	6637572	T	T	6637572	3	4	30	1	0	0	0	0	1	0	0	0	16408	652	23	1	666	1	TPP1	11	6637572	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	1569279	6637572	128368944	130	12706										
HTATIP2	10553	broad.mit.edu	37	chr11	20404575	20404575	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gcccaggtgaatggctggttAgaaagttctttggctcctta	12	8	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:20404575A>G	uc009yia.1	+	6	619	c.553A>G	c.(553-555)AGA>GGA	p.R185G	HTATIP2_uc009yib.1_Missense_Mutation_p.R185G|HTATIP2_uc001mpx.2_Missense_Mutation_p.R219G|HTATIP2_uc001mpz.2_Missense_Mutation_p.R185G	NM_006410	NP_006401	Q9BUP3	HTAI2_HUMAN	HIV-1 Tat interactive protein 2, 30kDa isoform	185					angiogenesis|anti-apoptosis|apoptosis|cell differentiation|cellular amino acid metabolic process|induction of apoptosis|interspecies interaction between organisms|nuclear import|regulation of angiogenesis|regulation of transcription from RNA polymerase II promoter	cytoplasm|nuclear envelope	NAD binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor|protein binding|transcription coactivator activity				0						ATGGCTGGTTAGAAAGTTCTT	0.428													11	61	---	---	---	---	PASS	G	20404575	G	G	20404575	3	3	30	1	0	0	0	0	1	0	0	0	7432	412	15	5	776	5	HTATIP2	11	20404575	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	13767003	20404575	114601941	131	12707										
OR4B1	119765	broad.mit.edu	37	chr11	48238463	48238463	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gtgtttctccccgtgtacctTgccacggtggtgggcaatgg	14	11	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:48238463T>C	uc010rhs.1	+	1	102	c.102T>C	c.(100-102)CTT>CTC	p.L34L		NM_001005470	NP_001005470	Q8NGF8	OR4B1_HUMAN	olfactory receptor, family 4, subfamily B,	34	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|pancreas(1)	4						CCGTGTACCTTGCCACGGTGG	0.512													32	243	---	---	---	---	PASS	C	48238463	C	C	48238463	2	2	30	1	0	0	0	0	0	0	0	1	11044	1799	63	5		5	OR4B1	11	48238463	Silent	SNP	T	TCGA-22-1002-01A-01D-1521-08	27833888	48238463	86768053	132	12708										
OR4C3	256144	broad.mit.edu	37	chr11	48346728	48346728	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cactatcacctccagccccaCgctggcttcccctgtgtatt	6	18	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:48346728C>A	uc010rhv.1	+	1	236	c.236C>A	c.(235-237)ACG>AAG	p.T79K		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	52	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TCCAGCCCCACGCTGGCTTCC	0.448													5	188	---	---	---	---	PASS	A	48346728	A	A	48346728	3	1	30	1	0	0	0	0	1	0	0	0	11050	536	19	1	238	1	OR4C3	11	48346728	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	108265	48346728	86659788	133	12709										
OR4C13	283092	broad.mit.edu	37	chr11	49974694	49974694	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gccctctctacctgtgtctcCcacatcacagttgtcatctt	5	16	5	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:49974694C>A	uc010rhz.1	+	1	720	c.720C>A	c.(718-720)TCC>TCA	p.S240S		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	240	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						CCTGTGTCTCCCACATCACAG	0.458													56	265	---	---	---	---	PASS	A	49974694	A	A	49974694	2	1	30	1	0	0	0	0	0	0	0	1	11047	610	22	3		3	OR4C13	11	49974694	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	1627966	49974694	85031822	134	12710										
APLNR	187	broad.mit.edu	37	chr11	57003922	57003922	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agctcacagtggccaccatgGagtagtccatgtagcactgc	11	12	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:57003922G>C	uc001njo.2	-	1	1006	c.557C>G	c.(556-558)TCC>TGC	p.S186C	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	186	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						GGCCACCATGGAGTAGTCCAT	0.617													7	77	---	---	---	---	PASS	C	57003922	C	C	57003922	3	2	30	1	0	0	0	0	1	0	0	0	777	1174	41	2	589	2	APLNR	11	57003922	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	7029228	57003922	78002594	135	12711										
RTN4RL2	349667	broad.mit.edu	37	chr11	57235245	57235245	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccacccagcactcagcgactCttcctgcagaacaacctcat	5	18	3	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:57235245C>T	uc010rjt.1	+	2	195	c.195C>T	c.(193-195)CTC>CTT	p.L65L		NM_178570	NP_848665	Q86UN3	R4RL2_HUMAN	reticulon 4 receptor-like 2 precursor	65	LRR 1.				axon regeneration	anchored to plasma membrane	receptor activity				0						CTCAGCGACTCTTCCTGCAGA	0.617													9	227	---	---	---	---	PASS	T	57235245	T	T	57235245	2	4	30	1	0	0	0	0	0	0	0	1	13732	900	32	2		2	RTN4RL2	11	57235245	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	231323	57235245	77771271	136	12712										
OR5B3	441608	broad.mit.edu	37	chr11	58170406	58170406	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aaagagagactaaatgtgtcCccagtgtggatggaggcatt	13	6	0	2	rs141530938		TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:58170406C>A	uc010rkf.1	-	1	477	c.477G>T	c.(475-477)GGG>GGT	p.G159G		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	159	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TAAATGTGTCCCCAGTGTGGA	0.453													18	143	---	---	---	---	PASS	A	58170406	A	A	58170406	2	1	30	1	0	0	0	0	0	0	0	1	11152	610	22	3		3	OR5B3	11	58170406	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	935161	58170406	76836110	137	12713										
OR10V1	390201	broad.mit.edu	37	chr11	59481095	59481095	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aggccaatggggtgatggaaGatgtatagaagatttctaga	14	3	1	5			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:59481095G>T	uc001nof.1	-	1	224	c.224C>A	c.(223-225)TCT>TAT	p.S75Y		NM_001005324	NP_001005324	Q8NGI7	O10V1_HUMAN	olfactory receptor, family 10, subfamily V,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGTGATGGAAGATGTATAGAA	0.443													13	53	---	---	---	---	PASS	T	59481095	T	T	59481095	3	4	30	1	0	0	0	0	1	0	0	0	10920	942	33	2	709	2	OR10V1	11	59481095	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	1310689	59481095	75525421	138	12714										
LRRC32	2615	broad.mit.edu	37	chr11	76371859	76371859	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tctcgggagcgcggccaggtCggggaaatggagcagtttgt	18	8	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:76371859C>A	uc001oxq.3	-	3	1021	c.778G>T	c.(778-780)GAC>TAC	p.D260Y	LRRC32_uc001oxr.3_Missense_Mutation_p.D260Y|LRRC32_uc010rsf.1_Missense_Mutation_p.D260Y	NM_005512	NP_005503	Q14392	LRC32_HUMAN	leucine rich repeat containing 32 precursor	260	LRR 9.|Extracellular (Potential).					integral to plasma membrane					0						GCGGCCAGGTCGGGGAAATGG	0.627													17	122	---	---	---	---	PASS	A	76371859	A	A	76371859	3	1	30	1	0	0	0	0	1	0	0	0	8987	884	31	2	1214	2	LRRC32	11	76371859	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	16890764	76371859	58634657	139	12715										
APOA4	337	broad.mit.edu	37	chr11	116692448	116692448	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggggcagcagccgggccctcAgctcctccagctccttccca	11	19	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:116692448A>T	uc001pps.1	-	3	430	c.326T>A	c.(325-327)CTG>CAG	p.L109Q		NM_000482	NP_000473			apolipoprotein A-IV precursor												0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		ccgggccctcagctcctccag	0.05													10	43	---	---	---	---	PASS	T	116692448	T	T	116692448	3	4	30	1	0	0	0	0	1	0	0	0	783	188	7	5	868	5	APOA4	11	116692448	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	40320589	116692448	18314068	140	12716										
OR6X1	390260	broad.mit.edu	37	chr11	123624487	123624487	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gaacagccccgtagagcaggGagacaactgtcaggtgcgag	15	10	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:123624487G>T	uc010rzy.1	-	1	740	c.740C>A	c.(739-741)TCC>TAC	p.S247Y		NM_001005188	NP_001005188	Q8NH79	OR6X1_HUMAN	olfactory receptor, family 6, subfamily X,	247	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		GTAGAGCAGGGAGACAACTGT	0.468													29	107	---	---	---	---	PASS	T	123624487	T	T	123624487	3	4	30	1	0	0	0	0	1	0	0	0	11212	1174	41	2	200	2	OR6X1	11	123624487	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	6932039	123624487	11382029	141	12717										
ROBO4	54538	broad.mit.edu	37	chr11	124765025	124765025	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttttcagcaggtggtgggacCcagctcacaaagacagtgcc	12	11	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr11:124765025C>A	uc001qbg.2	-	7	1241	c.1101G>T	c.(1099-1101)TGG>TGT	p.W367C	ROBO4_uc010sas.1_Missense_Mutation_p.W222C|ROBO4_uc001qbh.2_Missense_Mutation_p.W257C|ROBO4_uc001qbi.2_5'Flank|ROBO4_uc010sat.1_5'UTR	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	367	Fibronectin type-III 2.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		GTGGTGGGACCCAGCTCACAA	0.562													6	101	---	---	---	---	PASS	A	124765025	A	A	124765025	3	1	30	1	0	0	0	0	1	0	0	0	13516	624	22	3	1970	3	ROBO4	11	124765025	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	1140538	124765025	10241491	142	12718										
A2ML1	144568	broad.mit.edu	37	chr12	9020640	9020640	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggaggcctcaggccagggctGtgtctatgtgcaggtaagta	16	8	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:9020640G>T	uc001quz.3	+	30	4018	c.3920G>T	c.(3919-3921)TGT>TTT	p.C1307F	A2ML1_uc001qva.1_Missense_Mutation_p.C887F|A2ML1_uc010sgm.1_Missense_Mutation_p.C807F|A2ML1_uc001qvb.1_RNA	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	1151						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						GGCCAGGGCTGTGTCTATGTG	0.498													16	111	---	---	---	---	PASS	T	9020640	T	T	9020640	3	4	30	1	0	0	0	0	1	0	0	0	5	1377	48	3	4038	3	A2ML1	12	9020640	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08		9020640	124831255	143	12719										
PZP	5858	broad.mit.edu	37	chr12	9313081	9313081	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttgcatagcagaacctaataTgtcacctggggaatgtgaaa	10	7	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:9313081T>C	uc001qvl.2	-	24	2907	c.2878A>G	c.(2878-2880)ATA>GTA	p.I960V	PZP_uc009zgl.2_Missense_Mutation_p.I746V|PZP_uc010sgo.1_RNA	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						GAACCTAATATGTCACCTGGG	0.353													21	137	---	---	---	---	PASS	C	9313081	C	C	9313081	3	2	30	1	0	0	0	0	1	0	0	0	12869	1464	51	5	1622	5	PZP	12	9313081	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	292441	9313081	124538814	144	12720										
CAPZA3	93661	broad.mit.edu	37	chr12	18891942	18891942	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cttggaagaattacaggagtTatccaatgaagccctgagaa	10	7	0	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:18891942T>A	uc001rdy.2	+	1	898	c.740T>A	c.(739-741)TTA>TAA	p.L247*	PLCZ1_uc001rdv.3_5'Flank|PLCZ1_uc001rdw.3_5'Flank|PLCZ1_uc010sid.1_5'Flank	NM_033328	NP_201585	Q96KX2	CAZA3_HUMAN	capping protein alpha 3	247					actin cytoskeleton organization|actin filament capping	F-actin capping protein complex	actin binding			ovary(1)|central_nervous_system(1)	2	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)	Hepatocellular(102;0.194)				TTACAGGAGTTATCCAATGAA	0.433													17	84	---	---	---	---	PASS	A	18891942	A	A	18891942	4	1	30	1	0	0	0	0	0	1	0	0	2642	1764	61	5	742	5	CAPZA3	12	18891942	Nonsense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	9578861	18891942	114959953	145	12721										
SLCO1B3	28234	broad.mit.edu	37	chr12	21028260	21028260	+	Silent	SNP	C	A	A													0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ctattttccattatttcttcCataccattttttttcttgcc							TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:21028260C>A	uc001rek.2	+	8	945	c.819C>A	c.(817-819)TCC>TCA	p.S273S	SLCO1B3_uc001rel.2_Silent_p.S273S|SLCO1B3_uc010sil.1_Silent_p.S273S|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Silent_p.S98S	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	273	Helical; Name=6; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TTATTTCTTCCATACCATTTT	0.363													28	157	---	---	---	---	PASS	A	21028260	A	A	21028260	2	1	30	1	0	0	0	0	0	0	0	1	14724	581	21	3		3	SLCO1B3	12	21028260	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	2136318	21028260	112823635	146	12722	335	2								
SLCO1B3	28234	broad.mit.edu	37	chr12	21028261	21028261	+	Missense_Mutation	SNP	A	T	T													0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tattttccattatttcttccAtaccattttttttcttgccg							TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:21028261A>T	uc001rek.2	+	8	946	c.820A>T	c.(820-822)ATA>TTA	p.I274L	SLCO1B3_uc001rel.2_Missense_Mutation_p.I274L|SLCO1B3_uc010sil.1_Missense_Mutation_p.I274L|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Missense_Mutation_p.I99L	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	274	Helical; Name=6; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TATTTCTTCCATACCATTTTT	0.363													27	156	---	---	---	---	PASS	T	21028261	T	T	21028261	3	4	30	1	0	0	0	0	1	0	0	0	14724	217	8	5	846	5	SLCO1B3	12	21028261	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	1	21028261	112823634	147	12723	335	2								
MLL2	8085	broad.mit.edu	37	chr12	49420213	49420213	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggaacacaaggccccccacaCggaacatgtgcagccgttct	10	15	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:49420213C>A	uc001rta.3	-	48	15536	c.15536G>T	c.(15535-15537)CGT>CTT	p.R5179L		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5179	FYR N-terminal.		R -> H (in KABS).		chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GCCCCCCACACGGAACATGTG	0.592			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			8	54	---	---	---	---	PASS	A	49420213	A	A	49420213	3	1	30	1	0	0	0	0	1	0	0	0	9621	536	19	1	1105	1	MLL2	12	49420213	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	28391952	49420213	84431682	148	12724										
MLL2	8085	broad.mit.edu	37	chr12	49441830	49441830	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cctctgccccccggccaaagCtgccacataccacacacatg	6	20	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:49441830C>A	uc001rta.3	-	14	4154	c.4154G>T	c.(4153-4155)AGC>ATC	p.S1385I		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1385	PHD-type 3.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CCGGCCAAAGCTGCCACATAC	0.547			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			28	86	---	---	---	---	PASS	A	49441830	A	A	49441830	3	1	30	1	0	0	0	0	1	0	0	0	9621	797	28	3	12623	3	MLL2	12	49441830	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	21617	49441830	84410065	149	12725										
OR10A7	121364	broad.mit.edu	37	chr12	55615657	55615657	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tcctacactgtcatcacaccTatgctaaaccccatcatcta	2	16	4	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:55615657T>A	uc010spf.1	+	1	849	c.849T>A	c.(847-849)CCT>CCA	p.P283P		NM_001005280	NP_001005280	Q8NGE5	O10A7_HUMAN	olfactory receptor, family 10, subfamily A,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)	4						TCATCACACCTATGCTAAACC	0.468													25	108	---	---	---	---	PASS	A	55615657	A	A	55615657	2	1	30	1	0	0	0	0	0	0	0	1	10895	1509	53	5		5	OR10A7	12	55615657	Silent	SNP	T	TCGA-22-1002-01A-01D-1521-08	6173827	55615657	78236238	150	12726										
METTL7B	196410	broad.mit.edu	37	chr12	56077825	56077825	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cccacatcatgggaaaggctGtcaaataatctttcccaagc	7	12	3	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:56077825G>T	uc010spr.1	+	2	936	c.727G>T	c.(727-729)GTC>TTC	p.V243F		NM_152637	NP_689850	Q6UX53	MET7B_HUMAN	methyltransferase like 7B precursor	243							methyltransferase activity				0						GGGAAAGGCTGTCAAATAATC	0.522													52	143	---	---	---	---	PASS	T	56077825	T	T	56077825	3	4	30	1	0	0	0	0	1	0	0	0	9506	1377	48	3	733	3	METTL7B	12	56077825	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	462168	56077825	77774070	151	12727										
SMARCC2	6601	broad.mit.edu	37	chr12	56572240	56572240	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aatgatgatgtggtgggtctGttcagtcacattgtcctcat	11	7	4	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:56572240G>A	uc001skb.2	-	14	1364	c.1258C>T	c.(1258-1260)CAG>TAG	p.Q420*	SMARCC2_uc001skd.2_Nonsense_Mutation_p.Q420*|SMARCC2_uc001ska.2_Nonsense_Mutation_p.Q420*|SMARCC2_uc001skc.2_Nonsense_Mutation_p.Q420*|SMARCC2_uc010sqf.1_Nonsense_Mutation_p.Q309*	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	420					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)			TGGTGGGTCTGTTCAGTCACA	0.512													36	159	---	---	---	---	PASS	A	56572240	A	A	56572240	4	1	30	1	0	0	0	0	0	1	0	0	14776	1386	48	3	2543	3	SMARCC2	12	56572240	Nonsense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	494415	56572240	77279655	152	12728										
PPFIA2	8499	broad.mit.edu	37	chr12	81693080	81693080	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tcctagtttcattctcttacCtctagccatgcgaccacagt	5	14	3	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:81693080C>A	uc001szo.1	-	23	2885	c.2724G>T	c.(2722-2724)GAG>GAT	p.E908D	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	834										ovary(3)|lung(2)|pancreas(1)	6						ATTCTCTTACCTCTAGCCATG	0.438													4	23	---	---	---	---	PASS	A	81693080	A	A	81693080	3	1	30	1	0	0	0	0	1	0	0	0	12310	695	24	3	1089	3	PPFIA2	12	81693080	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	25120840	81693080	52158815	153	12729										
SLC5A8	160728	broad.mit.edu	37	chr12	101603442	101603442	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cggctgacatgaagctagcgGtgagggacagcgccacgggc	17	11	0	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:101603442G>T	uc001thz.3	-	1	575	c.185C>A	c.(184-186)ACC>AAC	p.T62N		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	62	Helical; (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						GAAGCTAGCGGTGAGGGACAG	0.607													13	62	---	---	---	---	PASS	T	101603442	T	T	101603442	3	4	30	1	0	0	0	0	1	0	0	0	14671	1261	44	3	1707	3	SLC5A8	12	101603442	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	19910362	101603442	32248453	154	12730										
RNF10	9921	broad.mit.edu	37	chr12	121001268	121001268	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggaggaagcagtgtctgaacCagagcctgaggggttgccag	17	8	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr12:121001268C>G	uc001typ.3	+	9	1856	c.1373C>G	c.(1372-1374)CCA>CGA	p.P458R	RNF10_uc010szk.1_RNA|RNF10_uc001tyq.3_Missense_Mutation_p.P369R	NM_014868	NP_055683	Q8N5U6	RNF10_HUMAN	ring finger protein 10	458					negative regulation of Schwann cell proliferation|positive regulation of myelination|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GTGTCTGAACCAGAGCCTGAG	0.522													19	103	---	---	---	---	PASS	G	121001268	G	G	121001268	3	3	30	1	0	0	0	0	1	0	0	0	13422	594	21	4	1407	4	RNF10	12	121001268	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	19397826	121001268	12850627	155	12731										
LNX2	222484	broad.mit.edu	37	chr13	28143222	28143222	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	caaggccaggctcctcactcCatgtggaaagagacgctgat	11	12	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr13:28143222C>A	uc001url.3	-	3	908	c.599G>T	c.(598-600)TGG>TTG	p.W200L	LNX2_uc001urm.1_Missense_Mutation_p.W200L	NM_153371	NP_699202	Q8N448	LNX2_HUMAN	ligand of numb-protein X 2	200							zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	6		Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.113)|all cancers(112;0.127)|Epithelial(112;0.248)		CTCCTCACTCCATGTGGAAAG	0.527													64	324	---	---	---	---	PASS	A	28143222	A	A	28143222	3	1	30	1	0	0	0	0	1	0	0	0	8866	595	21	3	1505	3	LNX2	13	28143222	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08		28143222	87026656	156	12732										
SLC10A2	6555	broad.mit.edu	37	chr13	103718501	103718501	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	atggtcagcaccgtacttagGaccacacttaggatgttatt	9	9	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr13:103718501G>T	uc001vpy.3	-	1	696	c.99C>A	c.(97-99)GTC>GTA	p.V33V		NM_000452	NP_000443	Q12908	NTCP2_HUMAN	solute carrier family 10 (sodium/bile acid	33	Helical; (Potential).				bile acid metabolic process|organic anion transport	integral to plasma membrane	bile acid:sodium symporter activity			ovary(3)|skin(1)	4	all_neural(89;0.0662)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					CCGTACTTAGGACCACACTTA	0.483													44	179	---	---	---	---	PASS	T	103718501	T	T	103718501	2	4	30	1	0	0	0	0	0	0	0	1	14374	1161	41	2		2	SLC10A2	13	103718501	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	75575279	103718501	11451377	157	12733										
LIG4	3981	broad.mit.edu	37	chr13	108862691	108862691	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gaatgaatggggtaagagaaCcttcagtaggagaagcacca	13	6	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr13:108862691C>A	uc001vqn.2	-	2	1199	c.926G>T	c.(925-927)GGT>GTT	p.G309V	LIG4_uc001vqo.2_Missense_Mutation_p.G309V|LIG4_uc010agg.1_Missense_Mutation_p.G242V|LIG4_uc010agf.2_Missense_Mutation_p.G309V|LIG4_uc001vqp.2_Missense_Mutation_p.G309V	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	309					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					GGTAAGAGAACCTTCAGTAGG	0.363								NHEJ					15	184	---	---	---	---	PASS	A	108862691	A	A	108862691	3	1	30	1	0	0	0	0	1	0	0	0	8783	507	18	3	1813	3	LIG4	13	108862691	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	5144190	108862691	6307187	158	12734										
MYH7	4625	broad.mit.edu	37	chr14	23884662	23884662	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gcctcctccacttcagtctgGagctgggacaggtcagcatc	11	14	3	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr14:23884662G>T	uc001wjx.2	-	36	5317	c.5211C>A	c.(5209-5211)CTC>CTA	p.L1737L		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1737	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CTTCAGTCTGGAGCTGGGACA	0.567													27	174	---	---	---	---	PASS	T	23884662	T	T	23884662	2	4	30	1	0	0	0	0	0	0	0	1	10039	1161	41	2		2	MYH7	14	23884662	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08		23884662	83464878	159	12735										
NYNRIN	57523	broad.mit.edu	37	chr14	24886215	24886215	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccttcagggcctcctccactGatgccacaccgttcaaggtc	8	17	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr14:24886215G>T	uc001wpf.3	+	9	5578	c.5260G>T	c.(5260-5262)GAT>TAT	p.D1754Y		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	1754	Integrase catalytic.				DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						CTCCTCCACTGATGCCACACC	0.597													8	64	---	---	---	---	PASS	T	24886215	T	T	24886215	3	4	30	1	0	0	0	0	1	0	0	0	10796	1290	45	2	5290	2	NYNRIN	14	24886215	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	1001553	24886215	82463325	160	12736										
PRKD1	5587	broad.mit.edu	37	chr14	30066964	30066964	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	accaaaatcacaaagtttcaCctgttgatgaaaggatttgc	7	8	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr14:30066964C>A	uc001wqh.2	-	16	2348	c.2167G>T	c.(2167-2169)GTG>TTG	p.V723L		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	723	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		CAAAGTTTCACCTGTTGATGA	0.433													14	80	---	---	---	---	PASS	A	30066964	A	A	30066964	3	1	30	1	0	0	0	0	1	0	0	0	12518	521	18	3	583	3	PRKD1	14	30066964	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	5180749	30066964	77282576	161	12737										
DCAF5	8816	broad.mit.edu	37	chr14	69522303	69522303	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cgtcgaggtctccagtacatCctggctgcttgtatgggctc	12	12	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr14:69522303C>A	uc001xkp.2	-	9	1319	c.1100G>T	c.(1099-1101)GGA>GTA	p.G367V	DCAF5_uc001xkq.2_Missense_Mutation_p.G366V	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	367	WD 6.					CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						TCCAGTACATCCTGGCTGCTT	0.478													64	310	---	---	---	---	PASS	A	69522303	A	A	69522303	3	1	30	1	0	0	0	0	1	0	0	0	4273	855	30	2	1732	2	DCAF5	14	69522303	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	39455339	69522303	37827237	162	12738										
C14orf166B	145497	broad.mit.edu	37	chr14	77294668	77294668	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gagccagtacgacagagcagCgataaaatgctctactgtga	11	9	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr14:77294668C>T	uc001xsx.2	+	2	237	c.123C>T	c.(121-123)AGC>AGT	p.S41S	C14orf166B_uc010asn.1_5'UTR|C14orf166B_uc001xsw.2_RNA|C14orf166B_uc010aso.1_RNA|C14orf166B_uc010tvg.1_RNA|C14orf166B_uc010tvh.1_5'Flank	NM_194287	NP_919263	Q0VAA2	CN16B_HUMAN	hypothetical protein LOC145497	41											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0306)		GACAGAGCAGCGATAAAATGC	0.488													3	64	---	---	---	---	PASS	T	77294668	T	T	77294668	2	4	30	1	0	0	0	0	0	0	0	1	1757	767	27	1		1	C14orf166B	14	77294668	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	7772365	77294668	30054872	163	12739										
MKRN3	7681	broad.mit.edu	37	chr15	23810970	23810970	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ctcagaagcccacgaggcagCcggggcccaggcaggtgctg	16	14	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr15:23810970C>A	uc001ywh.3	+	1	517	c.41C>A	c.(40-42)GCC>GAC	p.A14D	MKRN3_uc001ywi.2_Missense_Mutation_p.A14D|MKRN3_uc010ayi.1_Missense_Mutation_p.A14D	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	14						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		CACGAGGCAGCCGGGGCCCAG	0.622													8	29	---	---	---	---	PASS	A	23810970	A	A	23810970	3	1	30	1	0	0	0	0	1	0	0	0	9608	739	26	3	43	3	MKRN3	15	23810970	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08		23810970	78720422	164	12740										
MAGEL2	54551	broad.mit.edu	37	chr15	23890424	23890424	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tctacacaggcaaagggatcCtgcagagcatatggcagtga	12	9	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr15:23890424C>A	uc001ywj.3	-	1	752	c.657G>T	c.(655-657)CAG>CAT	p.Q219H		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		CAAAGGGATCCTGCAGAGCAT	0.567													36	121	---	---	---	---	PASS	A	23890424	A	A	23890424	3	1	30	1	0	0	0	0	1	0	0	0	9189	680	24	3	1287	3	MAGEL2	15	23890424	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	79454	23890424	78640968	165	12741										
GABRB3	2562	broad.mit.edu	37	chr15	26793204	26793204	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	attgctgaattcctggtatcGccaatgccgcctgagacctc	9	13	0	2	rs147235962		TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr15:26793204G>T	uc001zaz.2	-	9	1300	c.1158C>A	c.(1156-1158)GGC>GGA	p.G386G	GABRB3_uc010uae.1_Silent_p.G301G|GABRB3_uc001zba.2_Silent_p.G386G|GABRB3_uc001zbb.2_Silent_p.G442G	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	386	Cytoplasmic (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)	TCCTGGTATCGCCAATGCCGC	0.473													21	226	---	---	---	---	PASS	T	26793204	T	T	26793204	2	4	30	1	0	0	0	0	0	0	0	1	6168	1074	38	1		1	GABRB3	15	26793204	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	2902780	26793204	75738188	166	12742										
APBA2	321	broad.mit.edu	37	chr15	29346771	29346771	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	caggaggaggacattgaccaGatcgtggcagagatcaagat	14	7	1	4			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr15:29346771G>T	uc001zck.2	+	3	891	c.684G>T	c.(682-684)CAG>CAT	p.Q228H	APBA2_uc010azj.2_Missense_Mutation_p.Q228H|APBA2_uc010uat.1_Missense_Mutation_p.Q228H|APBA2_uc001zcl.2_Missense_Mutation_p.Q228H|APBA2_uc010uas.1_Missense_Mutation_p.Q228H	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	228	STXBP1-binding.				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)		ACATTGACCAGATCGTGGCAG	0.647													4	32	---	---	---	---	PASS	T	29346771	T	T	29346771	3	4	30	1	0	0	0	0	1	0	0	0	757	933	33	2	686	2	APBA2	15	29346771	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	2553567	29346771	73184621	167	12743										
RYR3	6263	broad.mit.edu	37	chr15	34130031	34130031	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttccagaaggccatggaaggGcaaaaacagtacacgcagtc	11	10	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr15:34130031G>A	uc001zhi.2	+	89	11920	c.11850G>A	c.(11848-11850)GGG>GGA	p.G3950G	RYR3_uc010bar.2_Silent_p.G3945G	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3950	EF-hand.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CCATGGAAGGGCAAAAACAGT	0.408													4	170	---	---	---	---	PASS	A	34130031	A	A	34130031	2	1	30	1	0	0	0	0	0	0	0	1	13770	1190	42	3		3	RYR3	15	34130031	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	4783260	34130031	68401361	168	12744										
FBN1	2200	broad.mit.edu	37	chr15	48782195	48782195	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cccgacggagcagcagcaggCgtccatgcggtggcggccag	17	14	0	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr15:48782195C>A	uc001zwx.1	-	25	3263	c.2935G>T	c.(2935-2937)GCC>TCC	p.A979S		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	979	TB 5.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CAGCAGCAGGCGTCCATGCGG	0.607													23	100	---	---	---	---	PASS	A	48782195	A	A	48782195	3	1	30	1	0	0	0	0	1	0	0	0	5702	768	27	1	5848	1	FBN1	15	48782195	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	14652164	48782195	53749197	169	12745										
RASGRF1	5923	broad.mit.edu	37	chr15	79298689	79298689	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tccagcagccgctccacactGgcgtagcggatctgcagcac	11	16	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr15:79298689G>T	uc002beq.2	-	15	2328	c.1953C>A	c.(1951-1953)GCC>GCA	p.A651A	RASGRF1_uc002bep.2_Silent_p.A638A|RASGRF1_uc010blm.1_Silent_p.A560A|RASGRF1_uc002ber.3_Silent_p.A638A|RASGRF1_uc010unh.1_Silent_p.A46A	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	651	N-terminal Ras-GEF.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						GCTCCACACTGGCGTAGCGGA	0.572													15	64	---	---	---	---	PASS	T	79298689	T	T	79298689	2	4	30	1	0	0	0	0	0	0	0	1	13072	1335	47	3		3	RASGRF1	15	79298689	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	30516494	79298689	23232703	170	12746										
AP3B2	8120	broad.mit.edu	37	chr15	83349700	83349700	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aggttacagagtttccggtaGtttttgtgaatcaggtcgat	12	5	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr15:83349700G>T	uc010uoh.1	-	7	837	c.660C>A	c.(658-660)AAC>AAA	p.N220K	AP3B2_uc010uoi.1_Missense_Mutation_p.N220K|AP3B2_uc010uoj.1_Missense_Mutation_p.N188K|AP3B2_uc010uog.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	220					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)			GTTTCCGGTAGTTTTTGTGAA	0.592													12	47	---	---	---	---	PASS	T	83349700	T	T	83349700	3	4	30	1	0	0	0	0	1	0	0	0	745	1020	36	3	2592	3	AP3B2	15	83349700	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	4051011	83349700	19181692	171	12747										
FSD2	123722	broad.mit.edu	37	chr15	83428314	83428314	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gtggaactgttattcttataTctggagttgttctgttgtgc	11	5	3	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr15:83428314T>C	uc002bjd.2	-	13	2203	c.2036A>G	c.(2035-2037)GAT>GGT	p.D679G	FSD2_uc010uol.1_Missense_Mutation_p.D634G|FSD2_uc010uom.1_Missense_Mutation_p.D634G	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	679	B30.2/SPRY.									central_nervous_system(1)	1						TATTCTTATATCTGGAGTTGT	0.299													3	22	---	---	---	---	PASS	C	83428314	C	C	83428314	3	2	30	1	0	0	0	0	1	0	0	0	6071	1435	50	5	217	5	FSD2	15	83428314	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	78614	83428314	19103078	172	12748										
RHBDF1	64285	broad.mit.edu	37	chr16	111619	111619	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgctgcgagaagcccacgggCgcgatgccatagatgcacac	13	13	0	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr16:111619C>A	uc002cfl.3	-	12	1432	c.1284G>T	c.(1282-1284)GCG>GCT	p.A428A	RHBDF1_uc010uty.1_Silent_p.A451A|RHBDF1_uc010utz.1_Silent_p.A428A|RHBDF1_uc010bqo.1_RNA	NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	428	Helical; (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				AGCCCACGGGCGCGATGCCAT	0.667													17	70	---	---	---	---	PASS	A	111619	A	A	111619	2	1	30	1	0	0	0	0	0	0	0	1	13319	755	27	1		1	RHBDF1	16	111619	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08		111619	90243134	173	12749										
CLCN7	1186	broad.mit.edu	37	chr16	1501634	1501634	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccacacacacctggcgggtcGtggaagaggctcaccacgct	12	15	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr16:1501634G>A	uc002clv.2	-	16	1547	c.1437C>T	c.(1435-1437)CAC>CAT	p.H479H	CLCN7_uc002clu.2_5'Flank|CLCN7_uc002clw.2_Silent_p.H455H	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	479						integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				CTGGCGGGTCGTGGAAGAGGC	0.637													7	36	---	---	---	---	PASS	A	1501634	A	A	1501634	2	1	30	1	0	0	0	0	0	0	0	1	3468	1136	40	1		1	CLCN7	16	1501634	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	1390015	1501634	88853119	174	12750										
ZNF75A	7627	broad.mit.edu	37	chr16	3367355	3367355	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gcacagagtgggaaaatggcAccaagattttccagtgaaga	12	7	0	4			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr16:3367355A>T	uc002cut.3	+	6	903	c.377A>T	c.(376-378)CAC>CTC	p.H126L	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	126					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						GGAAAATGGCACCAAGATTTT	0.403													8	70	---	---	---	---	PASS	T	3367355	T	T	3367355	3	4	30	1	0	0	0	0	1	0	0	0	18130	159	6	5	387	5	ZNF75A	16	3367355	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	1865721	3367355	86987398	175	12751										
A2BP1	54715	broad.mit.edu	37	chr16	7680645	7680645	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gccaaccaggagggatcttcCatgtacagtgcccccagttc	10	14	1	0	rs147636119	by1000genomes	TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr16:7680645C>A	uc002cys.2	+	11	1705	c.717C>A	c.(715-717)TCC>TCA	p.S239S	A2BP1_uc010buf.1_Silent_p.S239S|A2BP1_uc002cyr.1_Silent_p.S238S|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Silent_p.S282S|A2BP1_uc010uya.1_Silent_p.S196S|A2BP1_uc002cyv.1_Silent_p.S239S|A2BP1_uc010uyb.1_Silent_p.S239S|A2BP1_uc002cyw.2_Silent_p.S259S|A2BP1_uc002cyy.2_Silent_p.S259S|A2BP1_uc002cyx.2_Silent_p.S259S|A2BP1_uc010uyc.1_Intron	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	239					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		AGGGATCTTCCATGTACAGTG	0.483													21	102	---	---	---	---	PASS	A	7680645	A	A	7680645	2	1	30	1	0	0	0	0	0	0	0	1	3	581	21	3		3	A2BP1	16	7680645	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	4313290	7680645	82674108	176	12752										
PDILT	204474	broad.mit.edu	37	chr16	20380837	20380837	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggcatttttactcaggaagcTgcggccaaatttcttgaggc	11	9	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr16:20380837T>A	uc002dhc.1	-	8	1316	c.1093A>T	c.(1093-1095)AGC>TGC	p.S365C		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	365					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						CTCAGGAAGCTGCGGCCAAAT	0.423													63	261	---	---	---	---	PASS	A	20380837	A	A	20380837	3	1	30	1	0	0	0	0	1	0	0	0	11674	1580	55	5	681	5	PDILT	16	20380837	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	12700192	20380837	69973916	177	12753										
PDILT	204474	broad.mit.edu	37	chr16	20410427	20410427	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	atgggggcactcacggaaaaGcaccatgaggaagcgggtct	15	9	2	1	rs147993256	byFrequency	TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr16:20410427G>A	uc002dhc.1	-	2	419	c.196C>T	c.(196-198)CTT>TTT	p.L66F		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	66					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						TCACGGAAAAGCACCATGAGG	0.542													4	73	---	---	---	---	PASS	A	20410427	A	A	20410427	3	1	30	1	0	0	0	0	1	0	0	0	11674	971	34	3	1602	3	PDILT	16	20410427	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	29590	20410427	69944326	178	12754										
ITGAD	3681	broad.mit.edu	37	chr16	31422791	31422791	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agaaccggggtgctgtctacCtgtttcacggagcctcagaa	12	11	3	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr16:31422791C>G	uc002ebv.1	+	14	1709	c.1660C>G	c.(1660-1662)CTG>GTG	p.L554V	ITGAD_uc010cap.1_Missense_Mutation_p.L555V	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	554	FG-GAP 6.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						TGCTGTCTACCTGTTTCACGG	0.607													26	152	---	---	---	---	PASS	G	31422791	G	G	31422791	3	3	30	1	0	0	0	0	1	0	0	0	7884	680	24	4	1714	4	ITGAD	16	31422791	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	11012364	31422791	58931962	179	12755										
CX3CL1	6376	broad.mit.edu	37	chr16	57416881	57416881	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aagatggcaggagagatggcGgagggccttcgctacatccc	15	10	0	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr16:57416881G>C	uc002eli.2	+	3	1198	c.1131G>C	c.(1129-1131)GCG>GCC	p.A377A		NM_002996	NP_002987	P78423	X3CL1_HUMAN	chemokine (C-X3-C motif) ligand 1 precursor	377	Cytoplasmic (Potential).				cell adhesion|cytokine-mediated signaling pathway|defense response|immune response|leukocyte adhesive activation|positive regulation of calcium-independent cell-cell adhesion|positive regulation of inflammatory response	cell surface|extracellular space|integral to membrane|plasma membrane	chemokine activity				0						GAGAGATGGCGGAGGGCCTTC	0.587													28	113	---	---	---	---	PASS	C	57416881	C	C	57416881	2	2	30	1	0	0	0	0	0	0	0	1	4074	1103	39	4		4	CX3CL1	16	57416881	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	25994090	57416881	32937872	180	12756										
CDH16	1014	broad.mit.edu	37	chr16	66950228	66950228	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tccagggccctggtcaccagCaggaagccagaatctggatc	12	13	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr16:66950228C>A	uc002eql.2	-	4	307	c.234G>T	c.(232-234)CTG>CTT	p.L78L	CDH16_uc010cdy.2_Silent_p.L78L|CDH16_uc002eqm.2_Silent_p.L78L	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	78	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		TGGTCACCAGCAGGAAGCCAG	0.632													4	155	---	---	---	---	PASS	A	66950228	A	A	66950228	2	1	30	1	0	0	0	0	0	0	0	1	3101	697	25	3		3	CDH16	16	66950228	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	9533347	66950228	23404525	181	12757										
SLC9A5	6553	broad.mit.edu	37	chr16	67289821	67289821	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgctgaaatggcctcgctctCcgccattcttgcgtgagttc	10	13	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr16:67289821C>A	uc002esm.2	+	5	962	c.899C>A	c.(898-900)TCC>TAC	p.S300Y	SLC9A5_uc010cee.2_Missense_Mutation_p.S5Y|SLC9A5_uc010vji.1_5'UTR	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	300					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		GCCTCGCTCTCCGCCATTCTT	0.617													4	94	---	---	---	---	PASS	A	67289821	A	A	67289821	3	1	30	1	0	0	0	0	1	0	0	0	14717	855	30	2	917	2	SLC9A5	16	67289821	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	339593	67289821	23064932	182	12758										
HYDIN	54768	broad.mit.edu	37	chr16	70902522	70902522	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgtttctgggtacgtccaccCacttgactgtgtgcatgcgg	12	11	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr16:70902522C>T	uc002ezr.2	-	66	11386	c.11258G>A	c.(11257-11259)TGG>TAG	p.W3753*	HYDIN_uc010cfy.2_5'Flank	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3754										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TACGTCCACCCACTTGACTGT	0.517													16	61	---	---	---	---	PASS	T	70902522	T	T	70902522	4	4	30	1	0	0	0	0	0	1	0	0	7467	595	21	3	4188	3	HYDIN	16	70902522	Nonsense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	3612701	70902522	19452231	183	12759										
CLEC3A	10143	broad.mit.edu	37	chr16	78062080	78062080	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttgaaggaaattcaagccctGcagacaggtaaggtgcagac	12	8	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr16:78062080G>T	uc002ffh.3	+	2	273	c.192G>T	c.(190-192)CTG>CTT	p.L64L		NM_005752	NP_005743	O75596	CLC3A_HUMAN	C-type lectin domain family 3 member A	64					skeletal system development	extracellular region	sugar binding				0						TTCAAGCCCTGCAGACAGGTA	0.443													22	49	---	---	---	---	PASS	T	78062080	T	T	78062080	2	4	30	1	0	0	0	0	0	0	0	1	3510	1306	46	3		3	CLEC3A	16	78062080	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	7159558	78062080	12292673	184	12760										
ABR	29	broad.mit.edu	37	chr17	916363	916363	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	accccgttcatctcaatcacGtccgtgtgccagttcttggt	8	14	4	0	rs147397030	by1000genomes	TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:916363G>C	uc002fsd.2	-	17	1943	c.1833C>G	c.(1831-1833)GAC>GAG	p.D611E	ABR_uc002fse.2_Missense_Mutation_p.D565E|ABR_uc010vqf.1_Missense_Mutation_p.D62E|ABR_uc010vqg.1_Missense_Mutation_p.D393E|ABR_uc002fsg.2_Missense_Mutation_p.D574E|ABR_uc002fsh.1_Intron|ABR_uc002fsf.2_5'Flank	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	611					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		TCTCAATCACGTCCGTGTGCC	0.622													7	114	---	---	---	---	PASS	C	916363	C	C	916363	3	2	30	1	0	0	0	0	1	0	0	0	99	1136	40	4	774	4	ABR	17	916363	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08		916363	80278847	185	12761										
SMG6	23293	broad.mit.edu	37	chr17	2202345	2202345	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cctcatgtgctgctctacctCctcgggactcatggtgctgg	11	14	3	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:2202345C>T	uc002fub.1	-	2	1757	c.1702G>A	c.(1702-1704)GAG>AAG	p.E568K	SMG6_uc002fud.1_Missense_Mutation_p.E537K	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	568	Potential.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						TGCTCTACCTCCTCGGGACTC	0.582													61	506	---	---	---	---	PASS	T	2202345	T	T	2202345	3	4	30	1	0	0	0	0	1	0	0	0	14797	864	30	2	2629	2	SMG6	17	2202345	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	1285982	2202345	78992865	186	12762										
SHPK	23729	broad.mit.edu	37	chr17	3524666	3524666	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cacactgccaggctcggcgaTgtctgggagcaggtggacag	16	11	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:3524666T>C	uc002fvz.1	-	5	791	c.688A>G	c.(688-690)ATC>GTC	p.I230V		NM_013276	NP_037408	Q9UHJ6	SHPK_HUMAN	carbohydrate kinase-like	230					carbohydrate metabolic process	cytoplasm	ATP binding|sedoheptulokinase activity			ovary(1)	1				COAD - Colon adenocarcinoma(5;0.0828)		GGCTCGGCGATGTCTGGGAGC	0.557													6	146	---	---	---	---	PASS	C	3524666	C	C	3524666	3	2	30	1	0	0	0	0	1	0	0	0	14290	1464	51	5	760	5	SHPK	17	3524666	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	1322321	3524666	77670544	187	12763										
ANKFY1	51479	broad.mit.edu	37	chr17	4088199	4088199	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tctgcagatggacgctgtccGccaagctggtcagggatgcg	15	11	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:4088199G>A	uc002fxq.1	-	12	1651	c.1613C>T	c.(1612-1614)GCG>GTG	p.A538V	ANKFY1_uc002fxn.2_Missense_Mutation_p.A580V|ANKFY1_uc002fxo.2_Missense_Mutation_p.A538V|ANKFY1_uc002fxp.2_Missense_Mutation_p.A537V|ANKFY1_uc010ckp.2_Missense_Mutation_p.A479V	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	538						endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						GACGCTGTCCGCCAAGCTGGT	0.592													6	112	---	---	---	---	PASS	A	4088199	A	A	4088199	3	1	30	1	0	0	0	0	1	0	0	0	626	1087	38	1	1955	1	ANKFY1	17	4088199	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	563533	4088199	77107011	188	12764										
MYH3	4621	broad.mit.edu	37	chr17	10535885	10535885	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gatctcgatttcattcaggtCcccctccatcttcttcttga	5	14	6	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:10535885C>T	uc002gmq.1	-	33	4941	c.4864G>A	c.(4864-4866)GAC>AAC	p.D1622N		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1622	Potential.		D -> A (in DA2B).		muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TCATTCAGGTCCCCCTCCATC	0.587													117	447	---	---	---	---	PASS	T	10535885	T	T	10535885	3	4	30	1	0	0	0	0	1	0	0	0	10036	855	30	2	990	2	MYH3	17	10535885	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	6447686	10535885	70659325	189	12765										
ULK2	9706	broad.mit.edu	37	chr17	19687111	19687111	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cacgtatctcaggctgggagCtgcctctgctcctggagggg	15	12	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:19687111C>A	uc002gwm.3	-	22	2868	c.2359G>T	c.(2359-2361)GCT>TCT	p.A787S	ULK2_uc002gwn.2_Missense_Mutation_p.A787S	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	787					signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					AGGCTGGGAGCTGCCTCTGCT	0.652													38	91	---	---	---	---	PASS	A	19687111	A	A	19687111	3	1	30	1	0	0	0	0	1	0	0	0	16973	797	28	3	775	3	ULK2	17	19687111	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	9151226	19687111	61508099	190	12766										
NOS2	4843	broad.mit.edu	37	chr17	26110067	26110067	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	catctcccgtcagttggtagGttcctgttgtttctatctcc	8	12	4	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:26110067G>A	uc002gzu.2	-	6	797	c.533C>T	c.(532-534)ACC>ATC	p.T178I	NOS2_uc010crh.1_Missense_Mutation_p.T178I|NOS2_uc010wab.1_Missense_Mutation_p.T178I	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	178					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	CAGTTGGTAGGTTCCTGTTGT	0.547													36	186	---	---	---	---	PASS	A	26110067	A	A	26110067	3	1	30	1	0	0	0	0	1	0	0	0	10543	1261	44	3	3016	3	NOS2	17	26110067	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	6422956	26110067	55085143	191	12767										
NLK	51701	broad.mit.edu	37	chr17	26370294	26370294	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tcatcagcactcgcatcatcCacagcagcagctggatattg	8	13	3	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:26370294C>T	uc010crj.2	+	1	607	c.395C>T	c.(394-396)CCA>CTA	p.P132L	NLK_uc010cri.1_RNA	NM_016231	NP_057315	Q9UBE8	NLK_HUMAN	nemo like kinase	132					intracellular protein kinase cascade|negative regulation of Wnt receptor signaling pathway|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|serine phosphorylation of STAT3 protein|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|MAP kinase activity|SH2 domain binding|transcription factor binding|ubiquitin protein ligase binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_lung(13;0.000343)|Lung NSC(42;0.00184)			UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		TCGCATCATCCACAGCAGCAG	0.547													42	187	---	---	---	---	PASS	T	26370294	T	T	26370294	3	4	30	1	0	0	0	0	1	0	0	0	10466	594	21	3	397	3	NLK	17	26370294	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	260227	26370294	54824916	192	12768										
POLDIP2	26073	broad.mit.edu	37	chr17	26680782	26680782	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aagtgtgagttttgcctttcAcctccttggagccatggcca	10	11	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:26680782A>G	uc002haz.2	-	7	509	c.377T>C	c.(376-378)GTG>GCG	p.V126A	POLDIP2_uc010wag.1_RNA	NM_015584	NP_056399	Q9Y2S7	PDIP2_HUMAN	DNA polymerase delta interacting protein 2	126						mitochondrial nucleoid|nucleus					0	all_lung(13;0.000354)|Lung NSC(42;0.00115)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		TTTGCCTTTCACCTCCTTGGA	0.537													13	391	---	---	---	---	PASS	G	26680782	G	G	26680782	3	3	30	1	0	0	0	0	1	0	0	0	12194	159	6	5	761	5	POLDIP2	17	26680782	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	310488	26680782	54514428	193	12769										
CCL4	6351	broad.mit.edu	37	chr17	34431319	34431319	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	atgaagctctgcgtgactgtCctgtctctcctcatgctagt	9	12	3	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:34431319C>G	uc002hkw.1	+	1	100	c.21C>G	c.(19-21)GTC>GTG	p.V7V	CCL4_uc002hkx.1_RNA	NM_002984	NP_002975	P13236	CCL4_HUMAN	chemokine C-C motif ligand 4 isoform 1	7					cell adhesion|cell-cell signaling|cellular component movement|chemotaxis|establishment or maintenance of cell polarity|immune response|inflammatory response|response to virus|viral genome replication	extracellular space	chemokine activity|receptor signaling protein tyrosine kinase activity				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GCGTGACTGTCCTGTCTCTCC	0.517													142	693	---	---	---	---	PASS	G	34431319	G	G	34431319	2	3	30	1	0	0	0	0	0	0	0	1	2902	842	30	2		2	CCL4	17	34431319	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	7750537	34431319	46763891	194	12770										
FBXO47	494188	broad.mit.edu	37	chr17	37107844	37107844	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agttttttacctggtttgctGcagacagccatttgtatctt	8	8	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:37107844G>C	uc002hrc.2	-	6	806	c.606C>G	c.(604-606)TGC>TGG	p.C202W		NM_001008777	NP_001008777	Q5MNV8	FBX47_HUMAN	F-box protein 47	202											0						CTGGTTTGCTGCAGACAGCCA	0.318													21	125	---	---	---	---	PASS	C	37107844	C	C	37107844	3	2	30	1	0	0	0	0	1	0	0	0	5756	1311	46	4	776	4	FBXO47	17	37107844	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	2676525	37107844	44087366	195	12771										
KCNH4	23415	broad.mit.edu	37	chr17	40330146	40330146	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccttcatgcctccctggcccCggcggccaaagtggccggtc	12	18	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:40330146C>T	uc002hzb.2	-	4	890	c.557G>A	c.(556-558)CGG>CAG	p.R186Q		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	186	Cytoplasmic (Potential).				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)		TCCCTGGCCCCGGCGGCCAAA	0.592													33	187	---	---	---	---	PASS	T	40330146	T	T	40330146	3	4	30	1	0	0	0	0	1	0	0	0	8034	652	23	1	2548	1	KCNH4	17	40330146	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	3222302	40330146	40865064	196	12772										
UBTF	7343	broad.mit.edu	37	chr17	42289030	42289030	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ctgggacagcagcttccactGctggctgcacagcaccatgc	11	15	0	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:42289030G>A	uc002igb.2	-	9	1058	c.991C>T	c.(991-993)CAG>TAG	p.Q331*	UBTF_uc002igc.2_Nonsense_Mutation_p.Q294*|UBTF_uc010czs.2_Nonsense_Mutation_p.Q331*|UBTF_uc002igd.2_Nonsense_Mutation_p.Q294*|UBTF_uc010czt.2_Nonsense_Mutation_p.Q331*|UBTF_uc002ige.2_Nonsense_Mutation_p.Q294*	NM_014233	NP_055048	P17480	UBF1_HUMAN	upstream binding transcription factor, RNA	331	HMG box 3.				positive regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm	DNA binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		AGCTTCCACTGCTGGCTGCAC	0.587													35	169	---	---	---	---	PASS	A	42289030	A	A	42289030	4	1	30	1	0	0	0	0	0	1	0	0	16906	1328	46	3	1351	3	UBTF	17	42289030	Nonsense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	1958884	42289030	38906180	197	12773										
KIF18B	146909	broad.mit.edu	37	chr17	43010134	43010134	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cttggagcttcttcctcagaGcggctacctggaacagaagc	11	12	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:43010134G>T	uc010wji.1	-	9	1246	c.1145C>A	c.(1144-1146)GCT>GAT	p.A382D	KIF18B_uc002iht.2_Missense_Mutation_p.A382D|KIF18B_uc010wjh.1_Missense_Mutation_p.A382D	NM_001080443	NP_001073912			kinesin family member 18B											ovary(2)	2		Prostate(33;0.155)				CTTCCTCAGAGCGGCTACCTG	0.642													26	135	---	---	---	---	PASS	T	43010134	T	T	43010134	3	4	30	1	0	0	0	0	1	0	0	0	8281	971	34	3	1453	3	KIF18B	17	43010134	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	721104	43010134	38185076	198	12774										
KIF18B	146909	broad.mit.edu	37	chr17	43013655	43013655	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccgctgactgtccagctcccGaggggtggggggccgcaccc	16	16	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:43013655G>T	uc010wji.1	-	2	159	c.58C>A	c.(58-60)CGG>AGG	p.R20R	KIF18B_uc002iht.2_Silent_p.R20R|KIF18B_uc010wjh.1_Silent_p.R20R	NM_001080443	NP_001073912			kinesin family member 18B											ovary(2)	2		Prostate(33;0.155)				TCCAGCTCCCGAGGGGTGGGG	0.647													4	14	---	---	---	---	PASS	T	43013655	T	T	43013655	2	4	30	1	0	0	0	0	0	0	0	1	8281	1057	37	2		2	KIF18B	17	43013655	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	3521	43013655	38181555	199	12775										
OSBPL7	114881	broad.mit.edu	37	chr17	45897348	45897348	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccaccctaccttgtgccagcCcttcagaggccacttcctct	6	19	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:45897348C>G	uc002ilx.1	-	3	393	c.190G>C	c.(190-192)GGC>CGC	p.G64R	OSBPL7_uc002ilw.1_5'Flank	NM_145798	NP_665741	Q9BZF2	OSBL7_HUMAN	oxysterol-binding protein-like protein 7	64	PH.				lipid transport		lipid binding				0						TTGTGCCAGCCCTTCAGAGGC	0.637													8	41	---	---	---	---	PASS	G	45897348	G	G	45897348	3	3	30	1	0	0	0	0	1	0	0	0	11282	623	22	4	2422	4	OSBPL7	17	45897348	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	2883693	45897348	35297862	200	12776										
BZRAP1	9256	broad.mit.edu	37	chr17	56393786	56393786	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agtgagggtgagggacccacCtataacgtgctaggaagacc	14	9	0	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:56393786C>T	uc002ivx.3	-	15	2859	c.1988G>A	c.(1987-1989)AGC>AAC	p.S663N	BZRAP1_uc010dcs.2_Missense_Mutation_p.S603N|BZRAP1_uc010wnt.1_Missense_Mutation_p.S663N	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	663	SH3 1.					mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AGGGACCCACCTATAACGTGC	0.657													4	168	---	---	---	---	PASS	T	56393786	T	T	56393786	3	4	30	1	0	0	0	0	1	0	0	0	1577	695	24	3	3653	3	BZRAP1	17	56393786	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	10496438	56393786	24801424	201	12777										
TBX4	9496	broad.mit.edu	37	chr17	59557523	59557523	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccccagctctcagccacaccGgacgtgggccccctgctcgg	11	20	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:59557523G>A	uc002izi.2	+	7	909	c.864G>A	c.(862-864)CCG>CCA	p.P288P	TBX4_uc010ddo.2_Silent_p.P288P|TBX4_uc010woy.1_Silent_p.P288P	NM_018488	NP_060958	P57082	TBX4_HUMAN	T-box 4	288					leg morphogenesis|skeletal system morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						CAGCCACACCGGACGTGGGCC	0.637													22	198	---	---	---	---	PASS	A	59557523	A	A	59557523	2	1	30	1	0	0	0	0	0	0	0	1	15657	1103	39	1		1	TBX4	17	59557523	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	3163737	59557523	21637687	202	12778										
UBE2O	63893	broad.mit.edu	37	chr17	74394577	74394577	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	acgtcgtccccactcggcctCagcttgaaccacttcaccat	6	18	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:74394577C>A	uc002jrm.3	-	11	1937	c.1872G>T	c.(1870-1872)CTG>CTT	p.L624L	UBE2O_uc002jrn.3_Silent_p.L624L|UBE2O_uc002jrl.3_Silent_p.L227L	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	624							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						CACTCGGCCTCAGCTTGAACC	0.602											OREG0024751	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	185	---	---	---	---	PASS	A	74394577	A	A	74394577	2	1	30	1	0	0	0	0	0	0	0	1	16865	813	29	2		2	UBE2O	17	74394577	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	14837054	74394577	6800633	203	12779										
PGS1	9489	broad.mit.edu	37	chr17	76388642	76388642	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gctgcctgtgtccagaaggcGtgcaccggttccagtggatc	14	12	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:76388642G>A	uc002jvm.2	+	2	241	c.229G>A	c.(229-231)GTG>ATG	p.V77M	PGS1_uc010wtt.1_RNA	NM_024419	NP_077733	Q32NB8	PGPS1_HUMAN	phosphatidylglycerophosphate synthase 1	77					phospholipid biosynthetic process	endoplasmic reticulum|mitochondrion	ATP binding|CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activity				0			BRCA - Breast invasive adenocarcinoma(99;0.00144)|OV - Ovarian serous cystadenocarcinoma(97;0.031)			TCCAGAAGGCGTGCACCGGTT	0.537													29	117	---	---	---	---	PASS	A	76388642	A	A	76388642	3	1	30	1	0	0	0	0	1	0	0	0	11808	1145	40	1	235	1	PGS1	17	76388642	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	1994065	76388642	4806568	204	12780										
CSNK1D	1453	broad.mit.edu	37	chr17	80210985	80210985	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gtgctggtgggtgcgtgcatCccggtacttcttggccagcc	15	12	1	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr17:80210985C>A	uc002kej.2	-	4	788	c.472G>T	c.(472-474)GAT>TAT	p.D158Y	SLC16A3_uc002kee.2_Intron|CSNK1D_uc002kef.2_Missense_Mutation_p.D158Y|CSNK1D_uc002kei.2_Missense_Mutation_p.D158Y|CSNK1D_uc010wvj.1_Intron|CSNK1D_uc010dil.2_5'Flank|CSNK1D_uc002keh.2_Missense_Mutation_p.D23Y|CSNK1D_uc010dim.1_5'Flank	NM_001893	NP_001884	P48730	KC1D_HUMAN	casein kinase 1, delta isoform 1	158	Protein kinase.				circadian regulation of gene expression|DNA repair|G2/M transition of mitotic cell cycle|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|regulation of circadian rhythm|Wnt receptor signaling pathway	centrosome|cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			breast(2)	2	Breast(20;0.00136)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.227)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0155)			GTGCGTGCATCCCGGTACTTC	0.592													64	224	---	---	---	---	PASS	A	80210985	A	A	80210985	3	1	30	1	0	0	0	0	1	0	0	0	3952	855	30	2	836	2	CSNK1D	17	80210985	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	3822343	80210985	984225	205	12781										
EPB41L3	23136	broad.mit.edu	37	chr18	5416197	5416197	+	Missense_Mutation	SNP	T	A	A													0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttgatcccctaggtaaggccTccctgggccatcagagtcca							TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr18:5416197T>A	uc002kmt.1	-	13	1773	c.1687A>T	c.(1687-1689)AGG>TGG	p.R563W	EPB41L3_uc010wzh.1_Intron|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Intron|EPB41L3_uc010wzf.1_Intron|EPB41L3_uc010wzg.1_Intron|EPB41L3_uc010dkr.2_Intron	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	563	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						AGGTAAGGCCTCCCTGGGCCA	0.557													47	192	---	---	---	---	PASS	A	5416197	A	A	5416197	3	1	30	1	0	0	0	0	1	0	0	0	5154	1550	54	5	1616	5	EPB41L3	18	5416197	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08		5416197	72661051	206	12782	336	2								
EPB41L3	23136	broad.mit.edu	37	chr18	5416198	5416198	+	Silent	SNP	C	A	A													0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgatcccctaggtaaggcctCcctgggccatcagagtccaa							TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr18:5416198C>A	uc002kmt.1	-	13	1772	c.1686G>T	c.(1684-1686)GGG>GGT	p.G562G	EPB41L3_uc010wzh.1_Intron|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Intron|EPB41L3_uc010wzf.1_Intron|EPB41L3_uc010wzg.1_Intron|EPB41L3_uc010dkr.2_Intron	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	562	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GGTAAGGCCTCCCTGGGCCAT	0.562													48	189	---	---	---	---	PASS	A	5416198	A	A	5416198	2	1	30	1	0	0	0	0	0	0	0	1	5154	842	30	2		2	EPB41L3	18	5416198	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08	1	5416198	72661050	207	12783	336	2								
SYT4	6860	broad.mit.edu	37	chr18	40850570	40850570	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	acatgagtcttcttcttggaGattctctttttggcatggta	9	7	4	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr18:40850570G>T	uc002law.2	-	4	1383	c.1014C>A	c.(1012-1014)ATC>ATA	p.I338I	SYT4_uc010dng.2_RNA|SYT4_uc010xcm.1_Silent_p.I320I|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	338	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						TCTTCTTGGAGATTCTCTTTT	0.433													27	165	---	---	---	---	PASS	T	40850570	T	T	40850570	2	4	30	1	0	0	0	0	0	0	0	1	15473	932	33	2		2	SYT4	18	40850570	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	35434372	40850570	37226678	208	12784										
ZNF532	55205	broad.mit.edu	37	chr18	56648807	56648807	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gacctgaaagaaatgacagaTgccaccaatgaggaggaaac	11	8	0	5			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr18:56648807T>A	uc002lho.2	+	10	3916	c.3369T>A	c.(3367-3369)GAT>GAA	p.D1123E	ZNF532_uc002lhp.2_Missense_Mutation_p.D1121E|ZNF532_uc010xeg.1_Missense_Mutation_p.D1121E|ZNF532_uc002lhr.2_Missense_Mutation_p.D1121E|ZNF532_uc002lhs.2_Missense_Mutation_p.D1121E|ZNF532_uc010xeh.1_Missense_Mutation_p.D211E	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	1123					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						AAATGACAGATGCCACCAATG	0.443													30	143	---	---	---	---	PASS	A	56648807	A	A	56648807	3	1	30	1	0	0	0	0	1	0	0	0	17969	1461	51	5	3395	5	ZNF532	18	56648807	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	15798237	56648807	21428441	209	12785										
SERPINB8	5271	broad.mit.edu	37	chr18	61649041	61649041	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	actgaagagtgcaggaagcaTataaatgactgggtggcaga	14	5	0	4			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr18:61649041T>A	uc002ljv.2	+	4	562	c.393T>A	c.(391-393)CAT>CAA	p.H131Q	SERPINB8_uc002ljs.1_Missense_Mutation_p.H131Q|SERPINB8_uc002ljt.2_Missense_Mutation_p.H131Q|SERPINB8_uc002lju.2_Missense_Mutation_p.H131Q|SERPINB8_uc010xex.1_5'UTR	NM_198833	NP_942130	P50452	SPB8_HUMAN	serine (or cysteine) proteinase inhibitor, clade	131					regulation of proteolysis	cytosol	protein binding|serine-type endopeptidase inhibitor activity			skin(1)	1		Esophageal squamous(42;0.129)				GCAGGAAGCATATAAATGACT	0.428													55	252	---	---	---	---	PASS	A	61649041	A	A	61649041	3	1	30	1	0	0	0	0	1	0	0	0	14107	1403	49	5	403	5	SERPINB8	18	61649041	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	5000234	61649041	16428207	210	12786										
RTTN	25914	broad.mit.edu	37	chr18	67672496	67672496	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ctgatgggcttttcaaagctGtttttgcctagaacaatcca	8	9	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr18:67672496G>A	uc002lkp.2	-	48	6601	c.6533C>T	c.(6532-6534)ACA>ATA	p.T2178I	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.T1266I|RTTN_uc002lkn.2_Missense_Mutation_p.T168I|RTTN_uc010dqp.2_Missense_Mutation_p.T430I	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	2178							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TTTCAAAGCTGTTTTTGCCTA	0.343													6	125	---	---	---	---	PASS	A	67672496	A	A	67672496	3	1	30	1	0	0	0	0	1	0	0	0	13737	1377	48	3	155	3	RTTN	18	67672496	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	6023455	67672496	10404752	211	12787										
TSHZ1	10194	broad.mit.edu	37	chr18	72998468	72998468	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ctgctcccctgagccagcagGaatggccgcagaggtggccc	14	15	0	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr18:72998468G>T	uc002lly.2	+	2	1534	c.971G>T	c.(970-972)GGA>GTA	p.G324V		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	369						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GAGCCAGCAGGAATGGCCGCA	0.627													29	87	---	---	---	---	PASS	T	72998468	T	T	72998468	3	4	30	1	0	0	0	0	1	0	0	0	16620	1174	41	2	973	2	TSHZ1	18	72998468	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	5325972	72998468	5078780	212	12788										
TJP3	27134	broad.mit.edu	37	chr19	3728466	3728466	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	atctgggaacagcacacggcCacactgtccaaggtgaggcc	12	13	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:3728466C>T	uc010xhv.1	+	1	93	c.93C>T	c.(91-93)GCC>GCT	p.A31A	TJP3_uc010xhs.1_Silent_p.A12A|TJP3_uc010xht.1_Intron|TJP3_uc010xhu.1_Silent_p.A21A|TJP3_uc010xhw.1_Silent_p.A31A	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	12	PDZ 1.					tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCACACGGCCACACTGTCCA	0.597													11	37	---	---	---	---	PASS	T	3728466	T	T	3728466	2	4	30	1	0	0	0	0	0	0	0	1	15928	581	21	3		3	TJP3	19	3728466	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08		3728466	55400517	213	12789										
FBN3	84467	broad.mit.edu	37	chr19	8206868	8206868	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tggggatgaagccgcggcggCaggggtgtggctgtgcaggg	23	7	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:8206868C>A	uc002mjf.2	-	6	716	c.695G>T	c.(694-696)TGC>TTC	p.C232F		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	232	TB 1.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GCCGCGGCGGCAGGGGTGTGG	0.637													11	50	---	---	---	---	PASS	A	8206868	A	A	8206868	3	1	30	1	0	0	0	0	1	0	0	0	5704	710	25	3	7966	3	FBN3	19	8206868	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	4478402	8206868	50922115	214	12790										
HNRNPM	4670	broad.mit.edu	37	chr19	8550681	8550681	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgggctccggcattgagcgcAtgggcccgctgggcctcgac	16	14	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:8550681A>G	uc010dwe.2	+	14	1449	c.1369A>G	c.(1369-1371)ATG>GTG	p.M457V	HNRNPM_uc010xke.1_Missense_Mutation_p.M403V|HNRNPM_uc010dwd.2_Missense_Mutation_p.M418V|HNRNPM_uc002mka.2_Missense_Mutation_p.M322V|HNRNPM_uc002mkb.1_5'Flank	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	457	8.|27 X 6 AA repeats of [GEVSTPAN]-[ILMV]- [DE]-[RH]-[MLVI]-[GAV].				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						CATTGAGCGCATGGGCCCGCT	0.687													27	133	---	---	---	---	PASS	G	8550681	G	G	8550681	3	3	30	1	0	0	0	0	1	0	0	0	7271	217	8	5	1423	5	HNRNPM	19	8550681	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	343813	8550681	50578302	215	12791										
MUC16	94025	broad.mit.edu	37	chr19	9068728	9068728	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggaggtactgtgctcttgcaAtgtggaagttacaggagaag	15	5	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:9068728A>T	uc002mkp.2	-	3	18922	c.18718T>A	c.(18718-18720)TTG>ATG	p.L6240M		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6242	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGCTCTTGCAATGTGGAAGTT	0.493													18	125	---	---	---	---	PASS	T	9068728	T	T	9068728	3	4	30	1	0	0	0	0	1	0	0	0	9973	98	4	5	25133	5	MUC16	19	9068728	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	518047	9068728	50060255	216	12792										
MUC16	94025	broad.mit.edu	37	chr19	9070944	9070944	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aggcagtatttgtctctgttGttgagctggtcttctcagac	11	8	3	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:9070944G>T	uc002mkp.2	-	3	16706	c.16502C>A	c.(16501-16503)ACA>AAA	p.T5501K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5503	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTCTCTGTTGTTGAGCTGGT	0.473													13	111	---	---	---	---	PASS	T	9070944	T	T	9070944	3	4	30	1	0	0	0	0	1	0	0	0	9973	1377	48	3	27349	3	MUC16	19	9070944	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	2216	9070944	50058039	217	12793										
MUC16	94025	broad.mit.edu	37	chr19	9071179	9071179	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agtccctacattggtcactgCggtgtttgtggaatgatgca	12	8	1	1	rs138208562	by1000genomes	TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:9071179C>T	uc002mkp.2	-	3	16471	c.16267G>A	c.(16267-16269)GCA>ACA	p.A5423T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5425	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTGGTCACTGCGGTGTTTGTG	0.502													68	640	---	---	---	---	PASS	T	9071179	T	T	9071179	3	4	30	1	0	0	0	0	1	0	0	0	9973	768	27	1	27584	1	MUC16	19	9071179	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	235	9071179	50057804	218	12794										
DOCK6	57572	broad.mit.edu	37	chr19	11314989	11314989	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gttcttgtagacctcattcaCcgcctcgtagagcccgccct	8	16	3	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:11314989C>A	uc002mqs.3	-	40	5148	c.5107G>T	c.(5107-5109)GTG>TTG	p.V1703L	DOCK6_uc002mqr.3_Missense_Mutation_p.V101L|DOCK6_uc010xlq.1_Missense_Mutation_p.V1042L	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1703	DHR-2.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						ACCTCATTCACCGCCTCGTAG	0.592											OREG0025251	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	47	---	---	---	---	PASS	A	11314989	A	A	11314989	3	1	30	1	0	0	0	0	1	0	0	0	4691	507	18	3	1072	3	DOCK6	19	11314989	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	2243810	11314989	47813994	219	12795										
ILVBL	10994	broad.mit.edu	37	chr19	15234201	15234201	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ctcaccggacaggcgggccaTagcatcagcagcaaagacgg	13	13	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:15234201T>C	uc002nam.2	-	3	443	c.322A>G	c.(322-324)ATG>GTG	p.M108V	ILVBL_uc010dzw.2_Missense_Mutation_p.M1V|ILVBL_uc010dzx.1_Missense_Mutation_p.M108V	NM_006844	NP_006835	A1L0T0	ILVBL_HUMAN	ilvB (bacterial acetolactate synthase)-like	108						integral to membrane	magnesium ion binding|thiamine pyrophosphate binding|transferase activity			ovary(2)	2						AGGCGGGCCATAGCATCAGCA	0.612													16	63	---	---	---	---	PASS	C	15234201	C	C	15234201	3	2	30	1	0	0	0	0	1	0	0	0	7715	1406	49	5	1632	5	ILVBL	19	15234201	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	3919212	15234201	43894782	220	12796										
KIAA1683	80726	broad.mit.edu	37	chr19	18376717	18376717	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgggttctcatggatggagcCtgaggtgttgggagttccgg	18	6	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:18376717C>A	uc002nin.2	-	3	1849	c.1633G>T	c.(1633-1635)GGC>TGC	p.G545C	KIAA1683_uc010ebn.2_Missense_Mutation_p.G545C|KIAA1683_uc010xqe.1_Missense_Mutation_p.G499C	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	545						mitochondrion				ovary(2)	2						TGGATGGAGCCTGAGGTGTTG	0.587													7	71	---	---	---	---	PASS	A	18376717	A	A	18376717	3	1	30	1	0	0	0	0	1	0	0	0	8251	681	24	3	2478	3	KIAA1683	19	18376717	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	3142516	18376717	40752266	221	12797										
ZNF99	7652	broad.mit.edu	37	chr19	22940611	22940611	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	catttgtagggtttctttccAgtatgaattatcttatgttt	7	5	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:22940611A>G	uc010xrh.1	-	5	1827	c.1827T>C	c.(1825-1827)ACT>ACC	p.T609T		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)				GTTTCTTTCCAGTATGAATTA	0.363													11	99	---	---	---	---	PASS	G	22940611	G	G	22940611	2	3	30	1	0	0	0	0	0	0	0	1	18201	175	7	5		5	ZNF99	19	22940611	Silent	SNP	A	TCGA-22-1002-01A-01D-1521-08	4563894	22940611	36188372	222	12798										
ZNF99	7652	broad.mit.edu	37	chr19	22941338	22941338	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	aattgctaaaagctttgctgCattcttcacatttgtagggt	8	7	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:22941338C>T	uc010xrh.1	-	5	1100	c.1100G>A	c.(1099-1101)TGC>TAC	p.C367Y		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)				AGCTTTGCTGCATTCTTCACA	0.358													12	91	---	---	---	---	PASS	T	22941338	T	T	22941338	3	4	30	1	0	0	0	0	1	0	0	0	18201	710	25	3	2024	3	ZNF99	19	22941338	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	727	22941338	36187645	223	12799										
ZNF99	7652	broad.mit.edu	37	chr19	22952122	22952122	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tcacatcccaaaatgtcaacGatccctgaaaaacacaacaa	3	13	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:22952122G>C	uc010xrh.1	-	2	71	c.71C>G	c.(70-72)TCG>TGG	p.S24W		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)				AAATGTCAACGATCCCTGAAA	0.388													15	97	---	---	---	---	PASS	C	22952122	C	C	22952122	3	2	30	1	0	0	0	0	1	0	0	0	18201	1059	37	2	3065	2	ZNF99	19	22952122	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	10784	22952122	36176861	224	12800										
LSM14A	26065	broad.mit.edu	37	chr19	34712450	34712450	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggctgaagaaagaagattaaAtgctgaaacatttggaatcc	10	5	0	5			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:34712450A>G	uc002nvb.3	+	9	1371	c.1175A>G	c.(1174-1176)AAT>AGT	p.N392S	LSM14A_uc002nva.3_Missense_Mutation_p.N392S|LSM14A_uc010xru.1_Missense_Mutation_p.N351S|LSM14A_uc002nvc.3_Missense_Mutation_p.N198S	NM_001114093	NP_001107565	Q8ND56	LS14A_HUMAN	LSM14 homolog A isoform a	392	TFG box.				cytoplasmic mRNA processing body assembly|multicellular organismal development|regulation of translation	cytoplasmic mRNA processing body|intracellular membrane-bounded organelle|stress granule				skin(1)	1	Esophageal squamous(110;0.162)					AGAAGATTAAATGCTGAAACA	0.463													12	65	---	---	---	---	PASS	G	34712450	G	G	34712450	3	3	30	1	0	0	0	0	1	0	0	0	9054	101	4	5	1209	5	LSM14A	19	34712450	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	11760328	34712450	24416533	225	12801										
ARHGAP33	115703	broad.mit.edu	37	chr19	36273406	36273406	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tctgctcacctaccagctctAtgggaagttcagtgtgagta	10	10	4	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:36273406A>G	uc002obr.1	+	13	1302	c.1217A>G	c.(1216-1218)TAT>TGT	p.Y406C	ARHGAP33_uc002obs.1_Missense_Mutation_p.Y406C|ARHGAP33_uc002obt.1_Missense_Mutation_p.Y270C|ARHGAP33_uc010eel.2_5'UTR|ARHGAP33_uc002obv.1_5'Flank	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	406	Rho-GAP.				cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						TACCAGCTCTATGGGAAGTTC	0.617													16	65	---	---	---	---	PASS	G	36273406	G	G	36273406	3	3	30	1	0	0	0	0	1	0	0	0	882	449	16	5	1267	5	ARHGAP33	19	36273406	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	1560956	36273406	22855577	226	12802										
ARHGAP33	115703	broad.mit.edu	37	chr19	36276001	36276001	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccaaggccccggcctcacctGcggaaaggtgagtgggatgc	15	13	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:36276001G>A	uc002obr.1	+	17	1799	c.1714G>A	c.(1714-1716)GCG>ACG	p.A572T	ARHGAP33_uc002obs.1_Missense_Mutation_p.A572T|ARHGAP33_uc002obt.1_Missense_Mutation_p.A436T|ARHGAP33_uc010eel.2_Missense_Mutation_p.A160T|ARHGAP33_uc002obv.1_Missense_Mutation_p.A160T	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	572					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						GGCCTCACCTGCGGAAAGGTG	0.701													5	9	---	---	---	---	PASS	A	36276001	A	A	36276001	3	1	30	1	0	0	0	0	1	0	0	0	882	1319	46	3	1780	3	ARHGAP33	19	36276001	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	2595	36276001	22852982	227	12803										
ZNF585A	199704	broad.mit.edu	37	chr19	37644466	37644466	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gagaggatacttgtttataaCtgaggatttttctacattga	9	4	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:37644466C>T	uc002ofo.1	-	5	566	c.335G>A	c.(334-336)AGT>AAT	p.S112N	ZNF585A_uc002ofm.1_Missense_Mutation_p.S57N|ZNF585A_uc002ofn.1_Missense_Mutation_p.S57N	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	112					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTGTTTATAACTGAGGATTTT	0.353													18	331	---	---	---	---	PASS	T	37644466	T	T	37644466	3	4	30	1	0	0	0	0	1	0	0	0	18014	565	20	3	1978	3	ZNF585A	19	37644466	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	1368465	37644466	21484517	228	12804										
RYR1	6261	broad.mit.edu	37	chr19	38948696	38948696	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccatctctcctgcagcatccGccccaacatctttgtgggcc	7	18	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:38948696G>T	uc002oit.2	+	18	2061	c.1931G>T	c.(1930-1932)CGC>CTC	p.R644L	RYR1_uc002oiu.2_Missense_Mutation_p.R644L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	644	Cytoplasmic.|B30.2/SPRY 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TGCAGCATCCGCCCCAACATC	0.557													49	176	---	---	---	---	PASS	T	38948696	T	T	38948696	3	4	30	1	0	0	0	0	1	0	0	0	13768	1087	38	1	2001	1	RYR1	19	38948696	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	1304230	38948696	20180287	229	12805										
HIPK4	147746	broad.mit.edu	37	chr19	40886743	40886743	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tagggggtcccatcttctgcGgccacgacgggcgtgggggg	19	11	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:40886743G>A	uc002onp.2	-	3	1440	c.1155C>T	c.(1153-1155)GCC>GCT	p.A385A		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	385						cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			CATCTTCTGCGGCCACGACGG	0.662													8	201	---	---	---	---	PASS	A	40886743	A	A	40886743	2	1	30	1	0	0	0	0	0	0	0	1	7119	1103	39	1		1	HIPK4	19	40886743	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	1938047	40886743	18242240	230	12806										
CYP2A6	1548	broad.mit.edu	37	chr19	41354251	41354251	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tgatgacattggagactgtgCggctcaggaagaaggtggga	17	5	1	4			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:41354251C>T	uc002opl.3	-	4	548	c.527G>A	c.(526-528)CGC>CAC	p.R176H	CYP2A6_uc010ehe.1_5'UTR|CYP2A6_uc010ehf.1_RNA	NM_000762	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A,	176					coumarin catabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|enzyme binding|heme binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Chlorzoxazone(DB00356)|Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Formoterol(DB00983)|Halothane(DB01159)|Letrozole(DB01006)|Methoxsalen(DB00553)|Metyrapone(DB01011)|Nicotine(DB00184)|Pilocarpine(DB01085)|Tolbutamide(DB01124)|Tranylcypromine(DB00752)	GGAGACTGTGCGGCTCAGGAA	0.527													8	228	---	---	---	---	PASS	T	41354251	T	T	41354251	3	4	30	1	0	0	0	0	1	0	0	0	4162	768	27	1	981	1	CYP2A6	19	41354251	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	467508	41354251	17774732	231	12807										
AXL	558	broad.mit.edu	37	chr19	41744043	41744043	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tggacccactggcttcctgtGgagacgccggagggaggtaa	16	10	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:41744043G>T	uc010ehj.2	+	7	1168	c.978G>T	c.(976-978)GTG>GTT	p.V326V	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Silent_p.V326V|AXL_uc010ehk.2_Silent_p.V326V	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	326	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						GGCTTCCTGTGGAGACGCCGG	0.622													31	210	---	---	---	---	PASS	T	41744043	T	T	41744043	2	4	30	1	0	0	0	0	0	0	0	1	1238	1335	47	3		3	AXL	19	41744043	Silent	SNP	G	TCGA-22-1002-01A-01D-1521-08	389792	41744043	17384940	232	12808										
CIC	23152	broad.mit.edu	37	chr19	42795618	42795618	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cctccgccccaccccccaaaGgtgagacctgggccgggcag	12	19	0	1	rs71336809		TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:42795618G>C	uc002otf.1	+	10	2738	c.2698G>C	c.(2698-2700)GCC>CCC	p.A900P		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	900	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				ACCCCCCAAAGGTGAGACCTG	0.617			T	DUX4	soft tissue sarcoma								17	167	---	---	---	---	PASS	C	42795618	C	C	42795618	3	2	30	1	0	0	0	0	1	0	0	0	3424	1014	35	4	2736	4	CIC	19	42795618	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	1051575	42795618	16333365	233	12809										
CA11	770	broad.mit.edu	37	chr19	49142814	49142814	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ccagggacttactcttgtagGagatgcgagtgatggtgtcg	15	7	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:49142814G>T	uc002pjz.1	-	6	1194	c.632C>A	c.(631-633)TCC>TAC	p.S211Y	SEC1_uc010xzv.1_Intron|SEC1_uc002pka.2_Intron|SEC1_uc010xzw.1_Intron|SEC1_uc010ema.2_Intron|DBP_uc002pjx.3_5'Flank|DBP_uc002pjy.2_5'Flank|DBP_uc010elz.1_5'Flank	NM_001217	NP_001208	O75493	CAH11_HUMAN	carbonic anhydrase XI precursor	211						extracellular region					0		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000103)|all cancers(93;0.000119)|GBM - Glioblastoma multiforme(486;0.00634)|Epithelial(262;0.016)		ACTCTTGTAGGAGATGCGAGT	0.577													13	62	---	---	---	---	PASS	T	49142814	T	T	49142814	3	4	30	1	0	0	0	0	1	0	0	0	2512	1174	41	2	370	2	CA11	19	49142814	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	6347196	49142814	9986169	234	12810										
KCNC3	3748	broad.mit.edu	37	chr19	50823879	50823879	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tggagccatcaggggaagggGcatagtcggtgaggaggaag	20	5	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:50823879G>A	uc002pru.1	-	3	2436	c.2141C>T	c.(2140-2142)GCC>GTC	p.A714V	KCNC3_uc002prt.1_Missense_Mutation_p.A350V	NM_004977	NP_004968	Q14003	KCNC3_HUMAN	Shaw-related voltage-gated potassium channel	714	Cytoplasmic (Potential).				cell death	voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1		all_neural(266;0.057)|Ovarian(192;0.208)		OV - Ovarian serous cystadenocarcinoma(262;0.00283)|GBM - Glioblastoma multiforme(134;0.0181)		AGGGGAAGGGGCATAGTCGGT	0.662													4	43	---	---	---	---	PASS	A	50823879	A	A	50823879	3	1	30	1	0	0	0	0	1	0	0	0	8016	1203	42	3	140	3	KCNC3	19	50823879	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	1681065	50823879	8305104	235	12811										
EPN1	29924	broad.mit.edu	37	chr19	56203162	56203162	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	acgtcttcacggccccagctCctgccccgaccacagacccc	7	22	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr19:56203162C>A	uc002qlw.2	+	7	1147	c.805C>A	c.(805-807)CCT>ACT	p.P269T	EPN1_uc002qlv.2_Missense_Mutation_p.P244T|EPN1_uc010etd.2_Missense_Mutation_p.P269T|EPN1_uc002qlx.2_Missense_Mutation_p.P355T	NM_001130072	NP_001123544	Q9Y6I3	EPN1_HUMAN	epsin 1 isoform b	269	Ala/Gly/Pro-rich.				endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|cytoplasm|nucleus|plasma membrane	lipid binding				0		Colorectal(82;0.00244)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.112)		GGCCCCAGCTCCTGCCCCGAC	0.697													4	183	---	---	---	---	PASS	A	56203162	A	A	56203162	3	1	30	1	0	0	0	0	1	0	0	0	5185	855	30	2	1168	2	EPN1	19	56203162	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	5379283	56203162	2925821	236	12812										
C20orf54	113278	broad.mit.edu	37	chr20	744208	744208	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	caatgctgagggtggcagccAggtggtaggcaactggccca	16	10	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr20:744208A>C	uc002wed.3	-	3	1346	c.1007T>G	c.(1006-1008)CTG>CGG	p.L336R	C20orf54_uc002wee.2_Missense_Mutation_p.L336R	NM_033409	NP_212134	Q9NQ40	RFT2_HUMAN	hypothetical protein LOC113278 precursor	336	Helical; (Potential).				sensory perception of sound	integral to plasma membrane	riboflavin transporter activity			ovary(2)	2						GGTGGCAGCCAGGTGGTAGGC	0.587													19	148	---	---	---	---	PASS	C	744208	C	C	744208	3	2	30	1	0	0	0	0	1	0	0	0	2114	188	7	5	414	5	C20orf54	20	744208	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08		744208	62281312	237	12813										
IDH3B	3420	broad.mit.edu	37	chr20	2644400	2644400	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agccctccaccctcacgtccTcggcctcaattgggggaaga	10	16	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr20:2644400T>C	uc002wgp.2	-	3	131	c.122A>G	c.(121-123)GAG>GGG	p.E41G	IDH3B_uc002wgq.2_Missense_Mutation_p.E41G|IDH3B_uc002wgr.2_5'UTR|IDH3B_uc010zpz.1_Missense_Mutation_p.E41G	NM_006899	NP_008830	O43837	IDH3B_HUMAN	isocitrate dehydrogenase 3, beta subunit isoform	41					isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	electron carrier activity|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0					NADH(DB00157)	CCTCACGTCCTCGGCCTCAAT	0.622													11	106	---	---	---	---	PASS	C	2644400	C	C	2644400	3	2	30	1	0	0	0	0	1	0	0	0	7497	1551	54	5	1235	5	IDH3B	20	2644400	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08	1900192	2644400	60381120	238	12814										
SLC23A2	9962	broad.mit.edu	37	chr20	4843520	4843520	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gcccagagcgagcatgagggCtgctccgcactgtatcacgc	13	14	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr20:4843520C>A	uc002wlg.1	-	14	1765	c.1390G>T	c.(1390-1392)GCC>TCC	p.A464S	SLC23A2_uc010zqr.1_Missense_Mutation_p.A349S|SLC23A2_uc002wlh.1_Missense_Mutation_p.A464S	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	464	Helical; (Potential).				L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						AGCATGAGGGCTGCTCCGCAC	0.572													12	66	---	---	---	---	PASS	A	4843520	A	A	4843520	3	1	30	1	0	0	0	0	1	0	0	0	14463	797	28	3	578	3	SLC23A2	20	4843520	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	2199120	4843520	58182000	239	12815										
PREX1	57580	broad.mit.edu	37	chr20	47244106	47244106	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cgcggagcaccctggggcatCtggtccttgactcgcaggtt	14	13	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr20:47244106C>A	uc002xtw.1	-	39	4940	c.4917G>T	c.(4915-4917)CAG>CAT	p.Q1639H	PREX1_uc002xtv.1_Missense_Mutation_p.Q936H	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1639					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			CCTGGGGCATCTGGTCCTTGA	0.647													22	126	---	---	---	---	PASS	A	47244106	A	A	47244106	3	1	30	1	0	0	0	0	1	0	0	0	12476	912	32	2	70	2	PREX1	20	47244106	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	42400586	47244106	15781414	240	12816										
PREX1	57580	broad.mit.edu	37	chr20	47258756	47258756	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tggtctcttcgaaagcccggCtcatgactggccccttgagg	12	13	2	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr20:47258756C>A	uc002xtw.1	-	29	3748	c.3725G>T	c.(3724-3726)AGC>ATC	p.S1242I	PREX1_uc002xtv.1_Missense_Mutation_p.S539I	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1242					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GAAAGCCCGGCTCATGACTGG	0.577													21	64	---	---	---	---	PASS	A	47258756	A	A	47258756	3	1	30	1	0	0	0	0	1	0	0	0	12476	797	28	3	1302	3	PREX1	20	47258756	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	14650	47258756	15766764	241	12817										
KRTAP11-1	337880	broad.mit.edu	37	chr21	32253716	32253716	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agccagtctggaaggaactgGgcaaacagatgccgcccagg	14	11	1	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr21:32253716G>T	uc002yov.2	-	1	159	c.128C>A	c.(127-129)CCC>CAC	p.P43H		NM_175858	NP_787054	Q8IUC1	KR111_HUMAN	keratin associated protein 11-1	43						keratin filament	structural molecule activity			pancreas(1)	1						GAAGGAACTGGGCAAACAGAT	0.577													12	95	---	---	---	---	PASS	T	32253716	T	T	32253716	3	4	30	1	0	0	0	0	1	0	0	0	8517	1232	43	3	367	3	KRTAP11-1	21	32253716	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08		32253716	15876179	242	12818										
TRPM2	7226	broad.mit.edu	37	chr21	45858950	45858950	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tccgtcctctgtctgtccagGgctcccgggagccaggggag	15	14	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr21:45858950G>T	uc002zet.1	+	31	4381	c.4168G>T	c.(4168-4170)GGC>TGC	p.G1390C	TRPM2_uc002zeu.1_Missense_Mutation_p.G1390C|TRPM2_uc002zew.1_Missense_Mutation_p.G1390C|TRPM2_uc010gpt.1_Missense_Mutation_p.G1440C|TRPM2_uc002zex.1_Missense_Mutation_p.G1176C|TRPM2_uc002zey.1_Missense_Mutation_p.G869C|TRPM2_uc011aff.1_Missense_Mutation_p.G71C	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	1390	NAD.|Nudix hydrolase.|Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GTCTGTCCAGGGCTCCCGGGA	0.657													10	73	---	---	---	---	PASS	T	45858950	T	T	45858950	3	4	30	1	0	0	0	0	1	0	0	0	16583	1246	43	3	4286	3	TRPM2	21	45858950	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	13605234	45858950	2270945	243	12819										
KRTAP10-1	386677	broad.mit.edu	37	chr21	45959294	45959294	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	gggcacagcaggaggagacaGgcatacagcaggcgggccgg	19	10	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr21:45959294G>T	uc002zfh.1	-	1	785	c.740C>A	c.(739-741)CCT>CAT	p.P247H	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198691	NP_941964	P60331	KR101_HUMAN	keratin associated protein 10-1	247	22.|24 X 5 AA repeats of C-C-X(3).					keratin filament				skin(1)	1						GGAGGAGACAGGCATACAGCA	0.721													10	67	---	---	---	---	PASS	T	45959294	T	T	45959294	3	4	30	1	0	0	0	0	1	0	0	0	8505	1000	35	3	112	3	KRTAP10-1	21	45959294	Missense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	100344	45959294	2170601	244	12820										
POFUT2	23275	broad.mit.edu	37	chr21	46702334	46702334	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ctggacggacagacaggagaCgtttagacccctggtctcct	12	12	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr21:46702334C>T	uc002zhc.2	-	4	593	c.568G>A	c.(568-570)GTC>ATC	p.V190I	POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Missense_Mutation_p.V190I|POFUT2_uc011afp.1_Missense_Mutation_p.V190I	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	190					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)		AGACAGGAGACGTTTAGACCC	0.557													21	61	---	---	---	---	PASS	T	46702334	T	T	46702334	3	4	30	1	0	0	0	0	1	0	0	0	12184	536	19	1	884	1	POFUT2	21	46702334	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	743040	46702334	1427561	245	12821										
MAPK1	5594	broad.mit.edu	37	chr22	22160146	22160146	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	taacctggctgaccttgagaTcacaggtggtgttgagcagc	13	9	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr22:22160146T>C	uc002zvn.2	-	3	725	c.485A>G	c.(484-486)GAT>GGT	p.D162G	MAPK1_uc002zvo.2_Missense_Mutation_p.D162G|MAPK1_uc010gtk.1_Missense_Mutation_p.D162G	NM_002745	NP_002736	P28482	MK01_HUMAN	mitogen-activated protein kinase 1	162	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|induction of apoptosis|innate immune response|insulin receptor signaling pathway|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription, DNA-dependent	cytosol|nucleoplasm	ATP binding|DNA binding|MAP kinase activity|phosphatase binding|RNA polymerase II carboxy-terminal domain kinase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	Colorectal(54;0.105)	all_lung(157;3.89e-05)		READ - Rectum adenocarcinoma(21;0.0689)	Arsenic trioxide(DB01169)	GACCTTGAGATCACAGGTGGT	0.373													38	237	---	---	---	---	PASS	C	22160146	C	C	22160146	3	2	30	1	0	0	0	0	1	0	0	0	9271	1435	50	5	621	5	MAPK1	22	22160146	Missense_Mutation	SNP	T	TCGA-22-1002-01A-01D-1521-08		22160146	29144420	246	12822										
XRCC6	2547	broad.mit.edu	37	chr22	42024181	42024181	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tggttgatgcctccaaggctAtgtttgaatctcagagtgaa	11	7	1	4			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr22:42024181A>G	uc003bao.1	+	3	212	c.142A>G	c.(142-144)ATG>GTG	p.M48V	XRCC6_uc003bap.1_Missense_Mutation_p.M48V|XRCC6_uc011apc.1_Intron|XRCC6_uc003baq.1_Missense_Mutation_p.M48V|XRCC6_uc003bar.1_Missense_Mutation_p.M48V|XRCC6_uc003bas.1_Intron	NM_001469	NP_001460	P12956	XRCC6_HUMAN	ATP-dependent DNA helicase II, 70 kDa subunit	48	Ser-rich (potentially targets for phosphorylation).				DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5						CTCCAAGGCTATGTTTGAATC	0.323								Direct_reversal_of_damage|NHEJ					5	169	---	---	---	---	PASS	G	42024181	G	G	42024181	3	3	30	1	0	0	0	0	1	0	0	0	17454	449	16	5	148	5	XRCC6	22	42024181	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	19864035	42024181	9280385	247	12823										
CERK	64781	broad.mit.edu	37	chr22	47089397	47089397	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ttgctttgcctgcaaacaaaGcatctgaaagacaagaatat	7	8	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chr22:47089397G>T	uc003bia.2	-	10	1160	c.1053C>A	c.(1051-1053)TGC>TGA	p.C351*	CERK_uc010hae.2_Nonsense_Mutation_p.C153*	NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	351					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TGCAAACAAAGCATCTGAAAG	0.433													31	104	---	---	---	---	PASS	T	47089397	T	T	47089397	4	4	30	1	0	0	0	0	0	1	0	0	3267	963	34	3	576	3	CERK	22	47089397	Nonsense_Mutation	SNP	G	TCGA-22-1002-01A-01D-1521-08	5065216	47089397	4215169	248	12824										
P2RY8	286530	broad.mit.edu	37	chrX	1584630	1584630	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agacacagcgtgagcttgtaCacgtggtagtagctcttgcc	12	10	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chrX:1584630C>A	uc004cpz.2	-	2	1070	c.822G>T	c.(820-822)GTG>GTT	p.V274V		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	274	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TGAGCTTGTACACGTGGTAGT	0.557			T	CRLF2	B-ALL|Downs associated ALL								15	92	---	---	---	---	PASS	A	1584630	A	A	1584630	2	1	30	1	0	0	0	0	0	0	0	1	11355	465	17	3		3	P2RY8	23	1584630	Silent	SNP	C	TCGA-22-1002-01A-01D-1521-08		1584630	153685930	249	12825										
STS	412	broad.mit.edu	37	chrX	7177621	7177621	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	caattgtctggggctactccAcgtgcctctaggcgtttttt	10	11	2	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chrX:7177621A>G	uc004cry.3	+	5	874	c.629A>G	c.(628-630)CAC>CGC	p.H210R		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	210	Cytoplasmic.				female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)	GGGCTACTCCACGTGCCTCTA	0.557									Ichthyosis				22	51	---	---	---	---	PASS	G	7177621	G	G	7177621	3	3	30	1	0	0	0	0	1	0	0	0	15331	159	6	5	647	5	STS	23	7177621	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	5592991	7177621	148092939	250	12826										
ZNF182	7569	broad.mit.edu	37	chrX	47836919	47836919	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tactcagtatggaagaacaaTtttgcacatccattatcata	5	8	2	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chrX:47836919T>C	uc004dir.2	-	7	913	c.567A>G	c.(565-567)AAA>AAG	p.K189K	ZNF182_uc004dis.2_Silent_p.K170K|ZNF182_uc004dit.2_Silent_p.K189K|ZNF182_uc011mlu.1_Silent_p.K169K	NM_006962	NP_008893	P17025	ZN182_HUMAN	zinc finger protein 21 isoform 1	189					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3						GGAAGAACAATTTTGCACATC	0.353													25	50	---	---	---	---	PASS	C	47836919	C	C	47836919	2	2	30	1	0	0	0	0	0	0	0	1	17747	1490	52	5		5	ZNF182	23	47836919	Silent	SNP	T	TCGA-22-1002-01A-01D-1521-08	40659298	47836919	107433641	251	12827										
IQSEC2	23096	broad.mit.edu	37	chrX	53279921	53279921	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	cagctggcggtggacagagcCgcgatctgagcggtcactca	15	12	3	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chrX:53279921C>A	uc004dsd.2	-	5	2038	c.1837G>T	c.(1837-1839)GGC>TGC	p.G613C	IQSEC2_uc004dsc.2_Missense_Mutation_p.G408C	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	603	Pro-rich.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						TGGACAGAGCCGCGATCTGAG	0.662													9	5	---	---	---	---	PASS	A	53279921	A	A	53279921	3	1	30	1	0	0	0	0	1	0	0	0	7818	652	23	1	2673	1	IQSEC2	23	53279921	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	5443002	53279921	101990639	252	12828										
ARHGEF9	23229	broad.mit.edu	37	chrX	62917183	62917183	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tccggcactgcttcagatagCcctgtagacaaagaaaaagc	9	11	1	3			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chrX:62917183C>T	uc004dvl.2	-	4	1222	c.383G>A	c.(382-384)GGC>GAC	p.G128D	ARHGEF9_uc004dvj.1_Missense_Mutation_p.G17D|ARHGEF9_uc004dvk.1_5'UTR|ARHGEF9_uc011mos.1_Missense_Mutation_p.G107D|ARHGEF9_uc004dvm.1_Missense_Mutation_p.G107D|ARHGEF9_uc011mot.1_Missense_Mutation_p.G75D|ARHGEF9_uc004dvn.2_Missense_Mutation_p.G135D	NM_015185	NP_056000	O43307	ARHG9_HUMAN	Cdc42 guanine exchange factor 9	128	DH.				apoptosis|induction of apoptosis by extracellular signals|ion transmembrane transport|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(5)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	8						CTTCAGATAGCCCTGTAGACA	0.353													14	24	---	---	---	---	PASS	T	62917183	T	T	62917183	3	4	30	1	0	0	0	0	1	0	0	0	912	753	26	3	1195	3	ARHGEF9	23	62917183	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	9637262	62917183	92353377	253	12829										
UPRT	139596	broad.mit.edu	37	chrX	74516241	74516241	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	agaatgcatggtgaccactcCaacaggtaactagggctgtt	11	9	0	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chrX:74516241C>T	uc004ecb.1	+	3	623	c.494C>T	c.(493-495)CCA>CTA	p.P165L	UPRT_uc010nlu.1_Missense_Mutation_p.P165L|UPRT_uc004ecc.1_RNA|UPRT_uc004ecd.1_Missense_Mutation_p.P165L|UPRT_uc004ece.1_Missense_Mutation_p.P29L	NM_145052	NP_659489	Q96BW1	UPP_HUMAN	uracil phosphoribosyltransferase (FUR1) homolog	165					nucleoside metabolic process	cytoplasm|nucleus					0						GTGACCACTCCAACAGGTAAC	0.383													14	76	---	---	---	---	PASS	T	74516241	T	T	74516241	3	4	30	1	0	0	0	0	1	0	0	0	17011	594	21	3	504	3	UPRT	23	74516241	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	11599058	74516241	80754319	254	12830										
XIAP	331	broad.mit.edu	37	chrX	123019959	123019959	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	actgggcaggttgtagatatAtcagacaccatatacccgag	10	9	1	2			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chrX:123019959A>G	uc010nqu.2	+	2	573	c.447A>G	c.(445-447)ATA>ATG	p.I149M	XIAP_uc004etx.2_Missense_Mutation_p.I149M|XIAP_uc010nqv.2_Intron	NM_001167	NP_001158	P98170	XIAP_HUMAN	baculoviral IAP repeat-containing protein 4	149	Interaction with caspase-7.			I->A: Reduced inhibition of caspase-3.	anti-apoptosis|apoptosis|induction of apoptosis by intracellular signals|response to DNA damage stimulus	cytosol	caspase inhibitor activity|ligase activity|protein binding|zinc ion binding			ovary(1)|lung(1)	2						TTGTAGATATATCAGACACCA	0.443									X-linked_Lymphoproliferative_syndrome				41	97	---	---	---	---	PASS	G	123019959	G	G	123019959	3	3	30	1	0	0	0	0	1	0	0	0	17425	439	16	5	449	5	XIAP	23	123019959	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08	48503718	123019959	32250601	255	12831										
ENOX2	10495	broad.mit.edu	37	chrX	129804102	129804102	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	tcatacaggtcatctcgagcCtgtgcgaaatcaacgtggag	11	10	4	0			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chrX:129804102C>A	uc004evw.2	-	8	1036	c.618G>T	c.(616-618)CAG>CAT	p.Q206H	ENOX2_uc004evx.2_Missense_Mutation_p.Q177H|ENOX2_uc004evy.2_Missense_Mutation_p.Q177H|ENOX2_uc004evv.2_Missense_Mutation_p.Q33H	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	206	RRM.				cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						CATCTCGAGCCTGTGCGAAAT	0.488													20	47	---	---	---	---	PASS	A	129804102	A	A	129804102	3	1	30	1	0	0	0	0	1	0	0	0	5127	680	24	3	1250	3	ENOX2	23	129804102	Missense_Mutation	SNP	C	TCGA-22-1002-01A-01D-1521-08	6784143	129804102	25466458	256	12832										
ATP11C	286410	broad.mit.edu	37	chrX	138908947	138908947	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	ggatgattgccaacaaacacTgtgcgtgtgccaactcgttt	10	10	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chrX:138908947T>A	uc004faz.2	-	2	171	c.72A>T	c.(70-72)ACA>ACT	p.T24T	ATP11C_uc004fba.2_Silent_p.T24T	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	24	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					CAACAAACACTGTGCGTGTGC	0.388													29	53	---	---	---	---	PASS	A	138908947	A	A	138908947	2	1	30	1	0	0	0	0	0	0	0	1	1121	1567	55	5		5	ATP11C	23	138908947	Silent	SNP	T	TCGA-22-1002-01A-01D-1521-08	9104845	138908947	16361613	257	12833										
AMELY	266	broad.mit.edu	37	chrY	6738083	6738083	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0431372549019608	11	0.681458566345435	0.939565006037227	1.06158643539271	0.900740005787755	0.165321742179371	0.503628779786616	0	atataaccagggtgcccaggAtgaggtggtagcttttatag	13	6	0	1			TCGA-22-1002-01A-01D-1521-08	TCGA-22-1002-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	7c7604fe-8321-46cb-ac34-0e7994b8853b	0f742fdf-b0ec-4c30-b82d-e9c2c6e1b123	g.chrY:6738083A>T	uc004fra.1	-	2	78	c.66T>A	c.(64-66)CAT>CAA	p.H22Q	AMELY_uc004fqz.2_Missense_Mutation_p.H22Q	NM_001143	NP_001134	Q99218	AMELY_HUMAN	amelogenin, Y-linked precursor	22					biomineral tissue development	proteinaceous extracellular matrix	structural constituent of tooth enamel				0						GGTGCCCAGGATGAGGTGGTA	0.254													18	171	---	---	---	---	PASS	T	6738083	T	T	6738083	3	4	30	1	0	0	0	0	1	0	0	0	570	330	12	5	528	5	AMELY	24	6738083	Missense_Mutation	SNP	A	TCGA-22-1002-01A-01D-1521-08		6738083	52635483	258	12834										
PLA2G2E	30814	broad.mit.edu	37	chr1	20249215	20249215	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tcatcttctcgatcatcaccCcaaactgaaccaggttcccg	5	16	5	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr1:20249215C>G	uc001bct.1	-	2	132	c.74G>C	c.(73-75)GGG>GCG	p.G25A		NM_014589	NP_055404	Q9NZK7	PA2GE_HUMAN	phospholipase A2, group IIE precursor	25					inflammatory response|lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|phospholipase A2 activity				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|GBM - Glioblastoma multiforme(114;0.000146)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GATCATCACCCCAAACTGAAC	0.522													18	125	---	---	---	---	PASS	G	20249215	G	G	20249215	3	3	31	1	0	0	0	0	1	0	0	0	11998	623	22	4	366	4	PLA2G2E	1	20249215	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08		20249215	229001406	1	12835										
AGL	178	broad.mit.edu	37	chr1	100346221	100346221	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	atataatagtcatgaagaggGcagattagtttaccgatatg	10	4	1	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr1:100346221G>C	uc001dsi.1	+	14	2169	c.1769G>C	c.(1768-1770)GGC>GCC	p.G590A	AGL_uc001dsj.1_Missense_Mutation_p.G590A|AGL_uc001dsk.1_Missense_Mutation_p.G590A|AGL_uc001dsl.1_Missense_Mutation_p.G590A|AGL_uc001dsm.1_Missense_Mutation_p.G574A|AGL_uc001dsn.1_Missense_Mutation_p.G573A	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	590	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		CATGAAGAGGGCAGATTAGTT	0.398													46	158	---	---	---	---	PASS	C	100346221	C	C	100346221	3	2	31	1	0	0	0	0	1	0	0	0	384	1203	42	4	1888	4	AGL	1	100346221	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	80097006	100346221	148904400	2	12836										
PTPN14	5784	broad.mit.edu	37	chr1	214557127	214557127	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ggtcttcttgtggtgatactGagggagctgggggacctcgt	17	7	2	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr1:214557127G>C	uc001hkk.1	-	13	2342	c.2071C>G	c.(2071-2073)CAG>GAG	p.Q691E	PTPN14_uc010pty.1_Missense_Mutation_p.Q592E	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	691					lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		TGGTGATACTGAGGGAGCTGG	0.632													18	73	---	---	---	---	PASS	C	214557127	C	C	214557127	3	2	31	1	0	0	0	0	1	0	0	0	12783	1299	45	2	1520	2	PTPN14	1	214557127	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	114210906	214557127	34693494	3	12837										
RAB4A	5867	broad.mit.edu	37	chr1	229434748	229434748	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gatgtttttggaaacaagtgCgctcacaggggagaatgtag	14	5	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr1:229434748C>T	uc001hth.2	+	6	678	c.470C>T	c.(469-471)GCG>GTG	p.A157V	RAB4A_uc001hti.2_RNA|RAB4A_uc001htj.2_RNA	NM_004578	NP_004569	P20338	RAB4A_HUMAN	RAB4A, member RAS oncogene family	152	GTP.						GDP binding|GTP binding|GTPase activity			ovary(1)	1	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.178)				GAAACAAGTGCGCTCACAGGG	0.353													16	111	---	---	---	---	PASS	T	229434748	T	T	229434748	3	4	31	1	0	0	0	0	1	0	0	0	12946	768	27	1	492	1	RAB4A	1	229434748	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	14877621	229434748	19815873	4	12838										
PLD5	200150	broad.mit.edu	37	chr1	242451818	242451818	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	taaggccttcaggaatatttTccaccagggcaattcttaga	8	9	2	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr1:242451818T>C	uc001hzn.1	-	3	468	c.341A>G	c.(340-342)GAA>GGA	p.E114G	PLD5_uc001hzl.3_Missense_Mutation_p.E52G|PLD5_uc001hzm.3_Intron|PLD5_uc001hzo.1_Missense_Mutation_p.E22G			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	114						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			AGGAATATTTTCCACCAGGGC	0.343													4	38	---	---	---	---	PASS	C	242451818	C	C	242451818	3	2	31	1	0	0	0	0	1	0	0	0	12049	1783	62	5	1301	5	PLD5	1	242451818	Missense_Mutation	SNP	T	TCGA-22-1011-01A-01D-1521-08	13017070	242451818	6798803	5	12839										
HS1BP3	64342	broad.mit.edu	37	chr2	20840770	20840770	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tctgggctgcctgccaactcGgcatccttggagacacagcg	12	14	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr2:20840770G>A	uc002rdw.1	-	3	410	c.369C>T	c.(367-369)GCC>GCT	p.A123A	HS1BP3_uc002rdx.2_Silent_p.A123A|HS1BP3_uc002rdy.2_Silent_p.A123A	NM_022460	NP_071905	Q53T59	H1BP3_HUMAN	HCLS1 binding protein 3	123	PX.				cell communication		phosphatidylinositol binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGCCAACTCGGCATCCTTGG	0.617													47	266	---	---	---	---	PASS	A	20840770	A	A	20840770	2	1	31	1	0	0	0	0	0	0	0	1	7361	1103	39	1		1	HS1BP3	2	20840770	Silent	SNP	G	TCGA-22-1011-01A-01D-1521-08		20840770	222358603	6	12840										
ASXL2	55252	broad.mit.edu	37	chr2	25965491	25965491	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	cttacttaaagtggtttgctCattcaatggtatctcagcct	7	9	3	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr2:25965491C>G	uc002rgs.2	-	12	3936	c.3715G>C	c.(3715-3717)GAG>CAG	p.E1239Q	ASXL2_uc002rgt.1_Missense_Mutation_p.E722Q	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1239					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGGTTTGCTCATTCAATGGT	0.438													9	78	---	---	---	---	PASS	G	25965491	G	G	25965491	3	3	31	1	0	0	0	0	1	0	0	0	1067	835	29	2	596	2	ASXL2	2	25965491	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	5124721	25965491	217233882	7	12841										
SLC30A6	55676	broad.mit.edu	37	chr2	32396399	32396399	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	accacaaagatccttttttgGcaagttgttacgggaattta	8	7	0	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr2:32396399G>T	uc002roe.1	+	2	84	c.47G>T	c.(46-48)GGC>GTC	p.G16V	SLC30A6_uc002rof.1_Missense_Mutation_p.G16V|SLC30A6_uc010ymw.1_Intron|SLC30A6_uc010ezr.1_Missense_Mutation_p.G16V|SLC30A6_uc002rog.1_5'UTR|SLC30A6_uc010ezs.1_Intron|SLC30A6_uc002roh.1_5'UTR	NM_017964	NP_060434	Q6NXT4	ZNT6_HUMAN	solute carrier family 30 (zinc transporter),	16	Cytoplasmic (Potential).					Golgi membrane|integral to membrane	zinc ion transmembrane transporter activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TCCTTTTTTGGCAAGTTGTTA	0.338													10	102	---	---	---	---	PASS	T	32396399	T	T	32396399	3	4	31	1	0	0	0	0	1	0	0	0	14559	1203	42	3	53	3	SLC30A6	2	32396399	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	6430908	32396399	210802974	8	12842										
LTBP1	4052	broad.mit.edu	37	chr2	33518261	33518261	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ctggaaccaaacgtctgcgcAaatggtgattgttccaacct	9	11	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr2:33518261A>T	uc002ros.2	+	20	3150	c.3150A>T	c.(3148-3150)GCA>GCT	p.A1050A	LTBP1_uc002rot.2_Silent_p.A724A|LTBP1_uc002rou.2_Silent_p.A723A|LTBP1_uc002rov.2_Silent_p.A670A|LTBP1_uc010ymz.1_Silent_p.A723A|LTBP1_uc010yna.1_Silent_p.A670A|LTBP1_uc010ynb.1_5'UTR	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1049	EGF-like 8; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				ACGTCTGCGCAAATGGTGATT	0.428													13	65	---	---	---	---	PASS	T	33518261	T	T	33518261	2	4	31	1	0	0	0	0	0	0	0	1	9073	117	5	5		5	LTBP1	2	33518261	Silent	SNP	A	TCGA-22-1011-01A-01D-1521-08	1121862	33518261	209681112	9	12843										
DYNC2LI1	51626	broad.mit.edu	37	chr2	44031784	44031784	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aaaacttgctattttaggatCtcctcctgttcctgaaaatg	6	9	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr2:44031784C>A	uc002rtk.2	+	11	902	c.806C>A	c.(805-807)TCT>TAT	p.S269Y	DYNC2LI1_uc002rtj.2_Missense_Mutation_p.S269Y|DYNC2LI1_uc002rtl.2_Missense_Mutation_p.S270Y|DYNC2LI1_uc010ynz.1_Missense_Mutation_p.S143Y	NM_016008	NP_057092	Q8TCX1	DC2L1_HUMAN	dynein 2 light intermediate chain isoform 1	269						apical part of cell|axonemal dynein complex|cilium axoneme|cytoplasm|microtubule|motile primary cilium	motor activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				ATTTTAGGATCTCCTCCTGTT	0.368													20	101	---	---	---	---	PASS	A	44031784	A	A	44031784	3	1	31	1	0	0	0	0	1	0	0	0	4847	913	32	2	947	2	DYNC2LI1	2	44031784	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	10513523	44031784	199167589	10	12844										
CCDC88A	55704	broad.mit.edu	37	chr2	55571645	55571645	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aaaacttgattgtcttctttTaattcctataaatgtttatc	3	6	2	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr2:55571645T>A	uc002ryv.2	-	11	1889	c.1047A>T	c.(1045-1047)TTA>TTT	p.L349F	CCDC88A_uc010yoz.1_Missense_Mutation_p.L349F|CCDC88A_uc010ypa.1_Missense_Mutation_p.L349F|CCDC88A_uc010ypb.1_Missense_Mutation_p.L251F	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	349	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						TGTCTTCTTTTAATTCCTATA	0.274													8	33	---	---	---	---	PASS	A	55571645	A	A	55571645	3	1	31	1	0	0	0	0	1	0	0	0	2863	1751	61	5	4656	5	CCDC88A	2	55571645	Missense_Mutation	SNP	T	TCGA-22-1011-01A-01D-1521-08	11539861	55571645	187627728	11	12845										
ETAA1	54465	broad.mit.edu	37	chr2	67637061	67637061	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	agaggaagaagagaaaaataGaaagtgttctcctgaagaaa	11	3	1	6			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr2:67637061G>C	uc002sdz.1	+	6	2811	c.2672G>C	c.(2671-2673)AGA>ACA	p.R891T		NM_019002	NP_061875	Q9NY74	ETAA1_HUMAN	ETAA16 protein	891						cytoplasm|nucleus				ovary(3)|large_intestine(1)	4						GAGAAAAATAGAAAGTGTTCT	0.338													26	162	---	---	---	---	PASS	C	67637061	C	C	67637061	3	2	31	1	0	0	0	0	1	0	0	0	5267	942	33	2	2694	2	ETAA1	2	67637061	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	12065416	67637061	175562312	12	12846										
ETAA1	54465	broad.mit.edu	37	chr2	67637099	67637099	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aaattcagagaaaaagacaaGaagcactggttcggagaatg	11	5	1	4			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr2:67637099G>C	uc002sdz.1	+	6	2849	c.2710G>C	c.(2710-2712)GAA>CAA	p.E904Q		NM_019002	NP_061875	Q9NY74	ETAA1_HUMAN	ETAA16 protein	904						cytoplasm|nucleus				ovary(3)|large_intestine(1)	4						AAAAAGACAAGAAGCACTGGT	0.353													31	155	---	---	---	---	PASS	C	67637099	C	C	67637099	3	2	31	1	0	0	0	0	1	0	0	0	5267	943	33	2	2732	2	ETAA1	2	67637099	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	38	67637099	175562274	13	12847										
INO80B	83444	broad.mit.edu	37	chr2	74684855	74684855	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gccgccgcgctgctctgtccCcggctgtccccatccgcgcc	11	22	1	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr2:74684855C>G	uc002slg.2	+	5	980	c.935C>G	c.(934-936)CCC>CGC	p.P312R	INO80B_uc002slf.1_3'UTR|INO80B_uc010yrr.1_Missense_Mutation_p.P284R|WBP1_uc002slh.1_Intron|INO80B_uc002sli.1_RNA|INO80B_uc010yrs.1_Missense_Mutation_p.P330R|WBP1_uc002slj.1_5'Flank|WBP1_uc002slk.1_5'Flank|WBP1_uc002sll.1_5'Flank	NM_031288	NP_112578	Q9C086	IN80B_HUMAN	high mobility group AT-hook 1-like 4	312	HIT-type.				DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex|nucleolus	metal ion binding|protein binding			pancreas(1)	1						TGCTCTGTCCCCGGCTGTCCC	0.701													4	38	---	---	---	---	PASS	G	74684855	G	G	74684855	3	3	31	1	0	0	0	0	1	0	0	0	7747	623	22	4	953	4	INO80B	2	74684855	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	7047756	74684855	168514518	14	12848										
LRP1B	53353	broad.mit.edu	37	chr2	141816564	141816564	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	atccttacgatattgtagttAtcagaattggttgcatacaa	7	6	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr2:141816564A>T	uc002tvj.1	-	9	2268	c.1296T>A	c.(1294-1296)GAT>GAA	p.D432E	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	432	Extracellular (Potential).				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)		TATTGTAGTTATCAGAATTGG	0.289										TSP Lung(27;0.18)			20	86	---	---	---	---	PASS	T	141816564	T	T	141816564	3	4	31	1	0	0	0	0	1	0	0	0	8955	446	16	5	12835	5	LRP1B	2	141816564	Missense_Mutation	SNP	A	TCGA-22-1011-01A-01D-1521-08	67131709	141816564	101382809	15	12849										
C2orf67	151050	broad.mit.edu	37	chr2	210889937	210889937	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gacttcatcagaaagatcttCtatctggaattagaaataaa	6	6	5	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr2:210889937C>G	uc002vds.2	-	13	2663	c.2455G>C	c.(2455-2457)GAA>CAA	p.E819Q	C2orf67_uc002vdt.2_Missense_Mutation_p.E777Q	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	819										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		GAAAGATCTTCTATCTGGAAT	0.289													13	67	---	---	---	---	PASS	G	210889937	G	G	210889937	3	3	31	1	0	0	0	0	1	0	0	0	2186	922	32	2	520	2	C2orf67	2	210889937	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	69073373	210889937	32309436	16	12850										
GRM7	2917	broad.mit.edu	37	chr3	7721866	7721866	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	caatgtccagaaacggaagcGaagcttcaaggcggtagtca	12	9	2	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr3:7721866G>A	uc003bqm.2	+	9	2856	c.2582G>A	c.(2581-2583)CGA>CAA	p.R861Q	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.R861Q|GRM7_uc003bql.2_Missense_Mutation_p.R861Q|GRM7_uc003bqn.1_Missense_Mutation_p.R444Q	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	861	Cytoplasmic (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	AAACGGAAGCGAAGCTTCAAG	0.517													5	98	---	---	---	---	PASS	A	7721866	A	A	7721866	3	1	31	1	0	0	0	0	1	0	0	0	6802	1058	37	2	2616	2	GRM7	3	7721866	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08		7721866	190300564	17	12851										
HRH1	3269	broad.mit.edu	37	chr3	11301122	11301122	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	cgctctgtccagcagcccctCaggtaccttaagtatcgtac	8	15	2	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr3:11301122C>T	uc010hdr.2	+	2	741	c.399C>T	c.(397-399)CTC>CTT	p.L133L	HRH1_uc010hds.2_Silent_p.L133L|HRH1_uc010hdt.2_Silent_p.L133L|HRH1_uc003bwb.3_Silent_p.L133L	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1	133	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	AGCAGCCCCTCAGGTACCTTA	0.532													32	157	---	---	---	---	PASS	T	11301122	T	T	11301122	2	4	31	1	0	0	0	0	0	0	0	1	7355	813	29	2		2	HRH1	3	11301122	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	3579256	11301122	186721308	18	12852										
SEMA3G	56920	broad.mit.edu	37	chr3	52476317	52476317	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ccgcacgaagttggcgcactCtgtctgcggggagaaggagg	17	10	2	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr3:52476317C>A	uc003dea.1	-	4	343	c.343G>T	c.(343-345)GAG>TAG	p.E115*		NM_020163	NP_064548	Q9NS98	SEM3G_HUMAN	semaphorin sem2 precursor	115	Sema.				multicellular organismal development	extracellular region|membrane	receptor activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00173)|KIRC - Kidney renal clear cell carcinoma(197;0.00196)|OV - Ovarian serous cystadenocarcinoma(275;0.0333)		TTGGCGCACTCTGTCTGCGGG	0.662													23	74	---	---	---	---	PASS	A	52476317	A	A	52476317	4	1	31	1	0	0	0	0	0	1	0	0	14030	922	32	2	2057	2	SEMA3G	3	52476317	Nonsense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	41175195	52476317	145546113	19	12853										
CLRN1	7401	broad.mit.edu	37	chr3	150659416	150659416	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ctaggggaccatgcagagttTcaaaaggttttccaaaagca	10	8	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr3:150659416T>C	uc003eyk.1	-	2	677	c.386A>G	c.(385-387)GAA>GGA	p.E129G	CLRN1OS_uc011bny.1_Intron|CLRN1_uc003eyj.2_Missense_Mutation_p.E53G|CLRN1_uc010hvj.1_RNA	NM_174878	NP_777367	P58418	CLRN1_HUMAN	clarin 1 isoform a	129					equilibrioception|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			ATGCAGAGTTTCAAAAGGTTT	0.408													12	70	---	---	---	---	PASS	C	150659416	C	C	150659416	3	2	31	1	0	0	0	0	1	0	0	0	3557	1783	62	5	345	5	CLRN1	3	150659416	Missense_Mutation	SNP	T	TCGA-22-1011-01A-01D-1521-08	98183099	150659416	47363014	20	12854										
C3orf70	285382	broad.mit.edu	37	chr3	184801052	184801052	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ctcttttgaaattaaggcatCgtgtgcagagacctcctcag	9	10	2	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr3:184801052C>A	uc003fpd.2	-	2	687	c.496G>T	c.(496-498)GAT>TAT	p.D166Y		NM_001025266	NP_001020437	A6NLC5	CC070_HUMAN	hypothetical protein LOC285382	166											0						ATTAAGGCATCGTGTGCAGAG	0.458													12	142	---	---	---	---	PASS	A	184801052	A	A	184801052	3	1	31	1	0	0	0	0	1	0	0	0	2242	884	31	2	260	2	C3orf70	3	184801052	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	34141636	184801052	13221378	21	12855										
FETUB	26998	broad.mit.edu	37	chr3	186358473	186358473	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	cgacgcccaggaatacagacGggcaagtagggacagttccc	13	12	0	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr3:186358473G>T	uc010hyq.2	+	2	485	c.224G>T	c.(223-225)CGG>CTG	p.R75L	FETUB_uc011brz.1_Intron|FETUB_uc003fqn.2_Missense_Mutation_p.R75L|FETUB_uc003fqo.2_5'UTR|FETUB_uc010hyr.2_Missense_Mutation_p.R75L|FETUB_uc010hys.2_5'UTR|FETUB_uc003fqp.3_Missense_Mutation_p.R75L	NM_014375	NP_055190	Q9UGM5	FETUB_HUMAN	fetuin B precursor	75	Cystatin fetuin-B-type 1.					extracellular space	cysteine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0479)		GAATACAGACGGGCAAGTAGG	0.567													41	203	---	---	---	---	PASS	T	186358473	T	T	186358473	3	4	31	1	0	0	0	0	1	0	0	0	5821	1130	39	1	226	1	FETUB	3	186358473	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	1557421	186358473	11663957	22	12856										
OSTalpha	200931	broad.mit.edu	37	chr3	195954570	195954570	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tgctgctttggtctctggatCcctcgttccctggtgctggt	12	12	1	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr3:195954570C>T	uc003fwd.2	+	4	525	c.324C>T	c.(322-324)ATC>ATT	p.I108I	OSTalpha_uc010iac.1_5'UTR|OSTalpha_uc003fwe.2_5'Flank	NM_152672	NP_689885	Q86UW1	OSTA_HUMAN	organic solute transporter alpha	108	Helical; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(1)	1	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;8.83e-25)|all cancers(36;8.38e-23)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;7.51e-07)|Lung(62;1.06e-06)	GBM - Glioblastoma multiforme(46;0.00202)		GTCTCTGGATCCCTCGTTCCC	0.642													15	107	---	---	---	---	PASS	T	195954570	T	T	195954570	2	4	31	1	0	0	0	0	0	0	0	1	11300	845	30	2		2	OSTalpha	3	195954570	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	9596097	195954570	2067860	23	12857										
DSPP	1834	broad.mit.edu	37	chr4	88534399	88534399	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	caaccatagagaaagcaaacGcgtagaaaatagaatcacca	7	9	1	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr4:88534399G>A	uc003hqu.2	+	4	1181	c.1061G>A	c.(1060-1062)CGC>CAC	p.R354H		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	354					biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		GAAAGCAAACGCGTAGAAAAT	0.418													21	37	---	---	---	---	PASS	A	88534399	A	A	88534399	3	1	31	1	0	0	0	0	1	0	0	0	4782	1087	38	1	1071	1	DSPP	4	88534399	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08		88534399	102619877	24	12858										
LRRC14B	389257	broad.mit.edu	37	chr5	195433	195433	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aagctttcaaaactgctctaGaaaacttctccagagcactc	5	12	3	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr5:195433G>C	uc003jal.1	+	2	1538	c.1510G>C	c.(1510-1512)GAA>CAA	p.E504Q		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	504										skin(1)	1						AACTGCTCTAGAAAACTTCTC	0.478													5	100	---	---	---	---	PASS	C	195433	C	C	195433	3	2	31	1	0	0	0	0	1	0	0	0	8969	943	33	2	1516	2	LRRC14B	5	195433	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08		195433	180719827	25	12859										
C5orf22	55322	broad.mit.edu	37	chr5	31538616	31538616	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gaaaaggacacagcaacacaGagaagtgaccagacttgcct	10	10	0	3	rs145324653	byFrequency	TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr5:31538616G>A	uc003jhj.3	+	4	754	c.627G>A	c.(625-627)CAG>CAA	p.Q209Q	C5orf22_uc011cnw.1_RNA|C5orf22_uc003jhk.3_5'UTR	NM_018356	NP_060826	Q49AR2	CE022_HUMAN	hypothetical protein LOC55322	209										ovary(2)	2						CAGCAACACAGAGAAGTGACC	0.453													12	76	---	---	---	---	PASS	A	31538616	A	A	31538616	2	1	31	1	0	0	0	0	0	0	0	1	2285	933	33	2		2	C5orf22	5	31538616	Silent	SNP	G	TCGA-22-1011-01A-01D-1521-08	31343183	31538616	149376644	26	12860										
SLC45A2	51151	broad.mit.edu	37	chr5	33963987	33963987	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ttcagagatactgcacagatGaacagtaaaacacaaagtga	8	7	1	4			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr5:33963987G>A	uc003jid.2	-	3	789	c.697C>T	c.(697-699)CAT>TAT	p.H233Y	SLC45A2_uc003jie.2_Missense_Mutation_p.H233Y|SLC45A2_uc003jif.3_Intron|SLC45A2_uc011coe.1_Intron	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	233	Helical; Name=6; (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						CTGCACAGATGAACAGTAAAA	0.488													24	142	---	---	---	---	PASS	A	33963987	A	A	33963987	3	1	31	1	0	0	0	0	1	0	0	0	14641	1290	45	2	930	2	SLC45A2	5	33963987	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	2425371	33963987	146951273	27	12861										
UGT3A1	133688	broad.mit.edu	37	chr5	35957443	35957443	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	cttgaggacttcctgggactGatgggtgttcaacatggagc	14	8	1	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr5:35957443G>C	uc003jjv.1	-	5	1079	c.922C>G	c.(922-924)CAG>GAG	p.Q308E	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.Q308E|UGT3A1_uc011cor.1_Missense_Mutation_p.Q274E	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	308	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TCCTGGGACTGATGGGTGTTC	0.488													8	96	---	---	---	---	PASS	C	35957443	C	C	35957443	3	2	31	1	0	0	0	0	1	0	0	0	16960	1299	45	2	661	2	UGT3A1	5	35957443	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	1993456	35957443	144957817	28	12862										
DAB2	1601	broad.mit.edu	37	chr5	39383250	39383250	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ttcaggcaagaaggatgcctGaggcgttggtcgaggaagag	17	6	1	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr5:39383250G>A	uc003jlx.2	-	10	1342	c.811C>T	c.(811-813)CAG>TAG	p.Q271*	DAB2_uc003jlw.2_Nonsense_Mutation_p.Q250*	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	271					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			AAGGATGCCTGAGGCGTTGGT	0.453													44	184	---	---	---	---	PASS	A	39383250	A	A	39383250	4	1	31	1	0	0	0	0	0	1	0	0	4218	1299	45	2	1521	2	DAB2	5	39383250	Nonsense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	3425807	39383250	141532010	29	12863										
SEPP1	6414	broad.mit.edu	37	chr5	42807125	42807125	+	RNA	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aagatgtgtgtattttaatcGagaagagattccttgatgat	10	3	0	5			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr5:42807125G>C	uc011cps.1	-	4		c.477C>G			SEPP1_uc011cpt.1_RNA|SEPP1_uc011cpu.1_RNA|SEPP1_uc011cpv.1_RNA|SEPP1_uc003jna.2_RNA			P49908	SEPP1_HUMAN	Homo sapiens cDNA FLJ37321 fis, clone BRAMY2018122.						response to oxidative stress	extracellular region	selenium binding				0						TATTTTAATCGAGAAGAGATT	0.308													11	118	---	---	---	---	PASS	C	42807125	C	C	42807125	1	2	31	0	1	0	0	0	0	0	0	0	14057	1066	37	2		2	SEPP1	5	42807125	RNA	SNP	G	TCGA-22-1011-01A-01D-1521-08	3423875	42807125	138108135	30	12864										
PAM	5066	broad.mit.edu	37	chr5	102309957	102309957	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	caaatgtagtccaaaaaaagGatcttggtcgatctgatgcc	9	8	2	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr5:102309957G>C	uc003knw.2	+	14	1673	c.1300G>C	c.(1300-1302)GAT>CAT	p.D434H	PAM_uc003kns.2_Intron|PAM_uc003knt.2_Missense_Mutation_p.D434H|PAM_uc003knu.2_Missense_Mutation_p.D434H|PAM_uc003knv.2_Missense_Mutation_p.D434H|PAM_uc011cuz.1_Missense_Mutation_p.D337H|PAM_uc003knx.1_Intron|PAM_uc003kny.1_RNA	NM_000919	NP_000910	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	434	Peptidylglycine alpha-hydroxylating monooxygenase (By similarity).|Intragranular (Potential).				peptide metabolic process|protein modification process	extracellular region|integral to membrane|stored secretory granule	L-ascorbic acid binding|peptidylamidoglycolate lyase activity|peptidylglycine monooxygenase activity|protein binding				0		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	CCAAAAAAAGGATCTTGGTCG	0.418													20	87	---	---	---	---	PASS	C	102309957	C	C	102309957	3	2	31	1	0	0	0	0	1	0	0	0	11412	1174	41	2	1354	2	PAM	5	102309957	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	59502832	102309957	78605303	31	12865										
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139905808	139905808	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ctttagcccaacaaaaggcaGataaaaataaaataaatgga	6	6	0	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr5:139905808G>A	uc003lfs.1	+	26	4844	c.4720G>A	c.(4720-4722)GAT>AAT	p.D1574N	ANKHD1_uc003lfr.2_Missense_Mutation_p.D1574N|ANKHD1_uc003lfu.1_Missense_Mutation_p.D1054N|ANKHD1-EIF4EBP3_uc011czh.1_Missense_Mutation_p.D313N|ANKHD1_uc003lfw.2_Missense_Mutation_p.D212N|ANKHD1_uc010jfl.2_Missense_Mutation_p.D9N|ANKHD1-EIF4EBP3_uc003lfx.1_5'Flank	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1574						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAAAAGGCAGATAAAAATAA	0.393													29	158	---	---	---	---	PASS	A	139905808	A	A	139905808	3	1	31	1	0	0	0	0	1	0	0	0	629	942	33	2	4822	2	ANKHD1-EIF4EBP3	5	139905808	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	37595851	139905808	41009452	32	12866										
PCDHB8	56128	broad.mit.edu	37	chr5	140558690	140558690	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	catttaccagcccaatacctGagaatgcgcctgaaactgtg	8	12	0	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr5:140558690G>C	uc011dai.1	+	1	1261	c.1075G>C	c.(1075-1077)GAG>CAG	p.E359Q	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	359	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCCAATACCTGAGAATGCGCC	0.448													21	555	---	---	---	---	PASS	C	140558690	C	C	140558690	3	2	31	1	0	0	0	0	1	0	0	0	11548	1291	45	2	1077	2	PCDHB8	5	140558690	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	652882	140558690	40356570	33	12867										
AFAP1L1	134265	broad.mit.edu	37	chr5	148680751	148680751	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gatgatggggagcccagcaaAggagccagccctgagctagc	15	11	0	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr5:148680751A>C	uc003lqh.2	+	4	416	c.285A>C	c.(283-285)AAA>AAC	p.K95N	AFAP1L1_uc003lqg.3_Missense_Mutation_p.K95N|AFAP1L1_uc010jgy.2_Missense_Mutation_p.K95N	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	95							protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCCCAGCAAAGGAGCCAGCC	0.587													20	86	---	---	---	---	PASS	C	148680751	C	C	148680751	3	2	31	1	0	0	0	0	1	0	0	0	354	69	3	5	299	5	AFAP1L1	5	148680751	Missense_Mutation	SNP	A	TCGA-22-1011-01A-01D-1521-08	8122061	148680751	32234509	34	12868										
IL12B	3593	broad.mit.edu	37	chr5	158750298	158750298	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aggtgaggaccaccatttctCcaggggcatccggataccaa	11	12	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr5:158750298C>G	uc003lxr.1	-	3	170	c.128G>C	c.(127-129)GGA>GCA	p.G43A		NM_002187	NP_002178	P29460	IL12B_HUMAN	interleukin 12B precursor	43	Ig-like C2-type.				cell cycle arrest|cell migration|defense response to Gram-negative bacterium|interferon-gamma biosynthetic process|natural killer cell activation|negative regulation of interleukin-10 production|negative regulation of interleukin-17 production|negative regulation of smooth muscle cell proliferation|positive regulation of activated T cell proliferation|positive regulation of activation of JAK2 kinase activity|positive regulation of cell adhesion|positive regulation of defense response to virus by host|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-17 production|positive regulation of memory T cell differentiation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|positive regulation of natural killer cell proliferation|positive regulation of NF-kappaB import into nucleus|positive regulation of NK T cell activation|positive regulation of NK T cell proliferation|positive regulation of osteoclast differentiation|positive regulation of smooth muscle cell apoptosis|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat4 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|regulation of tyrosine phosphorylation of Stat1 protein|response to UV-B|sexual reproduction|T-helper 1 type immune response|T-helper cell differentiation	interleukin-12 complex|interleukin-23 complex|membrane	cytokine activity|cytokine receptor activity|interleukin-12 receptor binding|protein heterodimerization activity				0	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)			CACCATTTCTCCAGGGGCATC	0.413													8	51	---	---	---	---	PASS	G	158750298	G	G	158750298	3	3	31	1	0	0	0	0	1	0	0	0	7625	855	30	2	878	2	IL12B	5	158750298	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	10069547	158750298	22164962	35	12869										
HIVEP1	3096	broad.mit.edu	37	chr6	12161695	12161695	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aaaaacagagattcagttatGagcgatctggatatgatctt	9	5	3	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr6:12161695G>C	uc003nac.2	+	8	6690	c.6511G>C	c.(6511-6513)GAG>CAG	p.E2171Q	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2171					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				ATTCAGTTATGAGCGATCTGG	0.383													25	140	---	---	---	---	PASS	C	12161695	C	C	12161695	3	2	31	1	0	0	0	0	1	0	0	0	7186	1291	45	2	6537	2	HIVEP1	6	12161695	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08		12161695	158953372	36	12870										
KIF13A	63971	broad.mit.edu	37	chr6	17781126	17781126	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	accgaggaatcccaagaggcTgtggctgaaacctaggagtt	13	9	0	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr6:17781126T>A	uc003ncg.3	-	31	3786	c.3681A>T	c.(3679-3681)ACA>ACT	p.T1227T	KIF13A_uc003ncf.2_Silent_p.T1214T|KIF13A_uc003nch.3_Silent_p.T1227T|KIF13A_uc003nci.3_Silent_p.T1214T|KIF13A_uc003nce.1_5'Flank	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	1227					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			CCCAAGAGGCTGTGGCTGAAA	0.408													12	78	---	---	---	---	PASS	A	17781126	A	A	17781126	2	1	31	1	0	0	0	0	0	0	0	1	8274	1567	55	5		5	KIF13A	6	17781126	Silent	SNP	T	TCGA-22-1011-01A-01D-1521-08	5619431	17781126	153333941	37	12871										
KDM1B	221656	broad.mit.edu	37	chr6	18207729	18207729	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ggtgataattgaaaaactggCagaagggcttgacattcaac	11	6	1	4			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr6:18207729C>T	uc003nco.1	+	9	1226	c.1151C>T	c.(1150-1152)GCA>GTA	p.A384V	KDM1B_uc003ncn.1_Missense_Mutation_p.A355V	NM_153042	NP_694587	Q8NB78	KDM1B_HUMAN	amine oxidase (flavin containing) domain 1	587					multicellular organismal development|regulation of DNA methylation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-monomethyl-K4 specific)|oxidoreductase activity|zinc ion binding			skin(1)	1						GAAAAACTGGCAGAAGGGCTT	0.517													10	81	---	---	---	---	PASS	T	18207729	T	T	18207729	3	4	31	1	0	0	0	0	1	0	0	0	8123	710	25	3	1102	3	KDM1B	6	18207729	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	426603	18207729	152907338	38	12872										
DCDC2	51473	broad.mit.edu	37	chr6	24205305	24205305	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ccccgtgtttcagacctctcTgctccagctttgaaaatgcc	7	15	2	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr6:24205305T>A	uc003ndx.2	-	8	1250	c.948A>T	c.(946-948)GCA>GCT	p.A316A	DCDC2_uc003ndy.2_Silent_p.A316A|DCDC2_uc003ndw.2_Silent_p.A67A	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	316					cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				CAGACCTCTCTGCTCCAGCTT	0.423													39	217	---	---	---	---	PASS	A	24205305	A	A	24205305	2	1	31	1	0	0	0	0	0	0	0	1	4285	1567	55	5		5	DCDC2	6	24205305	Silent	SNP	T	TCGA-22-1011-01A-01D-1521-08	5997576	24205305	146909762	39	12873										
MSH5	4439	broad.mit.edu	37	chr6	31729633	31729633	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gatggcaacgatcttgtcttCttctatcaggtttgcgaagg	11	8	5	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr6:31729633C>G	uc003nwv.1	+	23	2299	c.2220C>G	c.(2218-2220)TTC>TTG	p.F740L	MSH5_uc003nwt.1_Missense_Mutation_p.F757L|MSH5_uc003nwu.1_Missense_Mutation_p.F741L|MSH5_uc003nww.1_Missense_Mutation_p.F740L|MSH5_uc003nwx.1_Missense_Mutation_p.F758L|MSH5_uc011dof.1_Missense_Mutation_p.F439L|MSH5_uc003nwy.1_Missense_Mutation_p.F414L|MSH5_uc003nwz.3_RNA|C6orf26_uc003nxa.3_5'Flank	NM_172166	NP_751898	O43196	MSH5_HUMAN	mutS homolog 5 isoform c	740					chiasma assembly|homologous chromosome segregation|meiotic prophase II|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			ovary(2)|breast(1)	3						ATCTTGTCTTCTTCTATCAGG	0.522								Direct_reversal_of_damage|MMR					51	246	---	---	---	---	PASS	G	31729633	G	G	31729633	3	3	31	1	0	0	0	0	1	0	0	0	9873	912	32	2	2360	2	MSH5	6	31729633	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	7524328	31729633	139385434	40	12874										
ZNF318	24149	broad.mit.edu	37	chr6	43316086	43316086	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ttggaggaggagtttgagaaCgatgacactttttctgggct	14	5	1	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr6:43316086C>T	uc003oux.2	-	6	3126	c.3048G>A	c.(3046-3048)TCG>TCA	p.S1016S	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	1016					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			AGTTTGAGAACGATGACACTT	0.378													48	241	---	---	---	---	PASS	T	43316086	T	T	43316086	2	4	31	1	0	0	0	0	0	0	0	1	17833	523	19	1		1	ZNF318	6	43316086	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	11586453	43316086	127798981	41	12875										
L3MBTL3	84456	broad.mit.edu	37	chr6	130415488	130415488	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	agggattggccatttcaagaGagcgagacatctgggccctc	13	10	2	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr6:130415488G>C	uc003qbt.2	+	18	1882	c.1712G>C	c.(1711-1713)AGA>ACA	p.R571T	L3MBTL3_uc003qbu.2_Missense_Mutation_p.R546T	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	571					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		CATTTCAAGAGAGCGAGACAT	0.418													15	61	---	---	---	---	PASS	C	130415488	C	C	130415488	3	2	31	1	0	0	0	0	1	0	0	0	8593	942	33	2	1774	2	L3MBTL3	6	130415488	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	87099402	130415488	40699579	42	12876										
JAZF1	221895	broad.mit.edu	37	chr7	27872493	27872493	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tgtgtggtgccgcaggccctGagctgtcttgtaactcttcc	12	12	2	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr7:27872493G>C	uc003szn.2	-	5	899	c.658C>G	c.(658-660)CAG>GAG	p.Q220E	JAZF1_uc003szm.2_Missense_Mutation_p.Q156E	NM_175061	NP_778231	Q86VZ6	JAZF1_HUMAN	JAZF zinc finger 1	220	C2H2-type 3; degenerate.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcriptional repressor complex	nucleic acid binding|transcription corepressor activity|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131						CGCAGGCCCTGAGCTGTCTTG	0.483			T	SUZ12	endometrial stromal tumours								18	125	---	---	---	---	PASS	C	27872493	C	C	27872493	3	2	31	1	0	0	0	0	1	0	0	0	7946	1299	45	2	77	2	JAZF1	7	27872493	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08		27872493	131266170	43	12877										
AKAP9	10142	broad.mit.edu	37	chr7	91718793	91718793	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	actgcatgcacaaatgaatgGtaggaaaattactctgaaaa	8	6	1	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr7:91718793G>T	uc003ulg.2	+	38	9533	c.9308G>T	c.(9307-9309)GGT>GTT	p.G3103V	AKAP9_uc003ulf.2_Missense_Mutation_p.G3095V|AKAP9_uc003uli.2_Missense_Mutation_p.G2726V|AKAP9_uc003ulj.2_Missense_Mutation_p.G873V|AKAP9_uc003ulk.2_Missense_Mutation_p.G378V|AKAP9_uc003ull.2_5'Flank	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3107					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CAAATGAATGGTAGGAAAATT	0.388			T	BRAF	papillary thyroid								22	644	---	---	---	---	PASS	T	91718793	T	T	91718793	3	4	31	1	0	0	0	0	1	0	0	0	459	1261	44	3	9458	3	AKAP9	7	91718793	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	63846300	91718793	67419870	44	12878										
SAMD9	54809	broad.mit.edu	37	chr7	92731423	92731423	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	taggtttctcctgcatctctCtacttgaagtggctcactga	8	11	4	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr7:92731423C>G	uc003umf.2	-	3	4244	c.3988G>C	c.(3988-3990)GAG>CAG	p.E1330Q	SAMD9_uc003umg.2_Missense_Mutation_p.E1330Q	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1330						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			CTGCATCTCTCTACTTGAAGT	0.363													43	860	---	---	---	---	PASS	G	92731423	G	G	92731423	3	3	31	1	0	0	0	0	1	0	0	0	13826	922	32	2	785	2	SAMD9	7	92731423	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	1012630	92731423	66407240	45	12879										
MLL5	55904	broad.mit.edu	37	chr7	104747986	104747986	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	cagaccttcagctaggactcGatgcagttgagccaactgcc	10	13	1	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr7:104747986G>C	uc003vcm.2	+	22	3616	c.3082G>C	c.(3082-3084)GAT>CAT	p.D1028H	MLL5_uc010ljc.2_Missense_Mutation_p.D1028H|MLL5_uc010lje.1_RNA|MLL5_uc010ljf.1_RNA|MLL5_uc010ljg.2_5'UTR|MLL5_uc010ljh.1_5'Flank	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1028					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						GCTAGGACTCGATGCAGTTGA	0.522													18	93	---	---	---	---	PASS	C	104747986	C	C	104747986	3	2	31	1	0	0	0	0	1	0	0	0	9624	1058	37	2	3160	2	MLL5	7	104747986	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	12016563	104747986	54390677	46	12880										
SLC13A1	6561	broad.mit.edu	37	chr7	122755608	122755608	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ttactcatagcaggagcccaCgaagggtaagtgtagaggtc	13	8	1	1	rs150844958		TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr7:122755608C>A	uc003vkm.2	-	15	1777	c.1752G>T	c.(1750-1752)TCG>TCT	p.S584S	SLC13A1_uc010lks.2_Silent_p.S460S	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	584						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	CAGGAGCCCACGAAGGGTAAG	0.403													19	96	---	---	---	---	PASS	A	122755608	A	A	122755608	2	1	31	1	0	0	0	0	0	0	0	1	14391	523	19	1		1	SLC13A1	7	122755608	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	18007622	122755608	36383055	47	12881										
GPR37	2861	broad.mit.edu	37	chr7	124387341	124387341	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tgtacgttggtggcagcacgGaagcggtctatgcacagagc	15	9	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr7:124387341G>A	uc003vli.2	-	2	1731	c.1080C>T	c.(1078-1080)TTC>TTT	p.F360F		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	360	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						TGGCAGCACGGAAGCGGTCTA	0.488													12	68	---	---	---	---	PASS	A	124387341	A	A	124387341	2	1	31	1	0	0	0	0	0	0	0	1	6691	1165	41	2		2	GPR37	7	124387341	Silent	SNP	G	TCGA-22-1011-01A-01D-1521-08	1631733	124387341	34751322	48	12882										
GRM8	2918	broad.mit.edu	37	chr7	126882877	126882877	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	agcacacttcacatccgaagCatctttctctattaatgcct	4	13	3	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr7:126882877C>G	uc003vlr.2	-	1	693	c.382G>C	c.(382-384)GCT>CCT	p.A128P	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.A128P|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	128	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	ACATCCGAAGCATCTTTCTCT	0.502										HNSCC(24;0.065)			19	81	---	---	---	---	PASS	G	126882877	G	G	126882877	3	3	31	1	0	0	0	0	1	0	0	0	6803	710	25	4	2434	4	GRM8	7	126882877	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	2495536	126882877	32255786	49	12883										
SLC4A2	6522	broad.mit.edu	37	chr7	150767109	150767109	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ggtggagcagatggtcatctCtgaccagatcaaggccgagg	15	9	3	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr7:150767109C>G	uc003wit.3	+	9	1479	c.1223C>G	c.(1222-1224)TCT>TGT	p.S408C	SLC4A2_uc011kve.1_Missense_Mutation_p.S399C|SLC4A2_uc003wiu.3_Missense_Mutation_p.S394C|SLC4A2_uc003wiv.3_5'Flank	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	408	Cytoplasmic (Potential).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ATGGTCATCTCTGACCAGATC	0.622													22	102	---	---	---	---	PASS	G	150767109	G	G	150767109	3	3	31	1	0	0	0	0	1	0	0	0	14654	913	32	2	1253	2	SLC4A2	7	150767109	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	23884232	150767109	8371554	50	12884										
MYOM2	9172	broad.mit.edu	37	chr8	2092716	2092716	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	caggccaagtacgtcagcatGaccatcaaaggcgtgacctc	10	13	2	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr8:2092716G>C	uc003wpx.3	+	37	4347	c.4209G>C	c.(4207-4209)ATG>ATC	p.M1403I	MYOM2_uc011kwi.1_Missense_Mutation_p.M828I	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1403	Ig-like C2-type 5.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		ACGTCAGCATGACCATCAAAG	0.537													25	112	---	---	---	---	PASS	C	2092716	C	C	2092716	3	2	31	1	0	0	0	0	1	0	0	0	10092	1290	45	2	4351	2	MYOM2	8	2092716	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08		2092716	144271306	51	12885										
BLK	640	broad.mit.edu	37	chr8	11412926	11412926	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tgggcccaggatgaatgggaGatcccccggcagtctctcag	14	12	2	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr8:11412926G>A	uc003wty.2	+	8	1286	c.705G>A	c.(703-705)GAG>GAA	p.E235E	BLK_uc003wtz.2_Silent_p.E164E	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	235					intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		ATGAATGGGAGATCCCCCGGC	0.612													27	141	---	---	---	---	PASS	A	11412926	A	A	11412926	2	1	31	1	0	0	0	0	0	0	0	1	1444	933	33	2		2	BLK	8	11412926	Silent	SNP	G	TCGA-22-1011-01A-01D-1521-08	9320210	11412926	134951096	52	12886										
PIWIL2	55124	broad.mit.edu	37	chr8	22172591	22172591	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	caccaggcttcggagtgtggCccagaagattttacttcaga	11	10	1	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr8:22172591C>T	uc003xbn.2	+	18	2289	c.2141C>T	c.(2140-2142)GCC>GTC	p.A714V	PIWIL2_uc011kzf.1_Missense_Mutation_p.A714V|PIWIL2_uc010ltv.2_Missense_Mutation_p.A714V	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2	714	Piwi.				DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		CGGAGTGTGGCCCAGAAGATT	0.483													31	110	---	---	---	---	PASS	T	22172591	T	T	22172591	3	4	31	1	0	0	0	0	1	0	0	0	11958	739	26	3	2207	3	PIWIL2	8	22172591	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	10759665	22172591	124191431	53	12887										
PXDNL	137902	broad.mit.edu	37	chr8	52366145	52366145	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gttggcatgacaggtaaatcGaccatgatcccgttgtgtga	12	8	0	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr8:52366145G>C	uc003xqu.3	-	10	1284	c.1183C>G	c.(1183-1185)CGA>GGA	p.R395G		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	395	Ig-like C2-type 2.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CAGGTAAATCGACCATGATCC	0.483													19	100	---	---	---	---	PASS	C	52366145	C	C	52366145	3	2	31	1	0	0	0	0	1	0	0	0	12848	1066	37	2	3264	2	PXDNL	8	52366145	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	30193554	52366145	93997877	54	12888										
DPY19L4	286148	broad.mit.edu	37	chr8	95780703	95780703	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ttttctgcgattgacacagtCttctttattacctttctaca	4	10	4	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr8:95780703C>T	uc003ygx.2	+	12	1380	c.1256C>T	c.(1255-1257)TCT>TTT	p.S419F		NM_181787	NP_861452	Q7Z388	D19L4_HUMAN	dpy-19-like 4	419						integral to membrane				ovary(2)	2	Breast(36;3.85e-06)					TTGACACAGTCTTCTTTATTA	0.323													11	72	---	---	---	---	PASS	T	95780703	T	T	95780703	3	4	31	1	0	0	0	0	1	0	0	0	4743	913	32	2	1302	2	DPY19L4	8	95780703	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	43414558	95780703	50583319	55	12889										
GPAA1	8733	broad.mit.edu	37	chr8	145138051	145138051	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ctgagctacgtggcgggcatCgcctggttcttggcgctggt	16	11	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr8:145138051C>G	uc003zax.2	+	2	209	c.99C>G	c.(97-99)ATC>ATG	p.I33M	GPAA1_uc003zav.1_Translation_Start_Site|GPAA1_uc003zaw.1_Intron	NM_003801	NP_003792	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment	33	Helical; (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein complex assembly|protein retention in ER lumen	GPI-anchor transamidase complex	tubulin binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TGGCGGGCATCGCCTGGTTCT	0.672													11	57	---	---	---	---	PASS	G	145138051	G	G	145138051	3	3	31	1	0	0	0	0	1	0	0	0	6587	874	31	2	105	2	GPAA1	8	145138051	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	49357348	145138051	1225971	56	12890										
APBA1	320	broad.mit.edu	37	chr9	72131759	72131759	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tgtactcctcggcctcgggcCggtactgcacagcataggcg	13	14	0	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr9:72131759C>A	uc004ahh.2	-	2	644	c.368G>T	c.(367-369)CGG>CTG	p.R123L		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	123					axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						GGCCTCGGGCCGGTACTGCAC	0.731													4	37	---	---	---	---	PASS	A	72131759	A	A	72131759	3	1	31	1	0	0	0	0	1	0	0	0	756	652	23	1	2193	1	APBA1	9	72131759	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08		72131759	69081672	57	12891										
PHF2	5253	broad.mit.edu	37	chr9	96407915	96407915	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ctgtgcttccctgcagtgctGaagacgtggtggcccgtgtg	15	11	0	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr9:96407915G>A	uc004aub.2	+	4	451	c.304G>A	c.(304-306)GAA>AAA	p.E102K	PHF2_uc011lug.1_5'UTR	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	102					liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		CTGCAGTGCTGAAGACGTGGT	0.647													18	132	---	---	---	---	PASS	A	96407915	A	A	96407915	3	1	31	1	0	0	0	0	1	0	0	0	11830	1291	45	2	318	2	PHF2	9	96407915	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	24276156	96407915	44805516	58	12892										
TLR4	7099	broad.mit.edu	37	chr9	120470908	120470908	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aatccccgacaacctcccctTctcaaccaagaacctggacc	4	19	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr9:120470908T>G	uc004bjz.2	+	2	452	c.161T>G	c.(160-162)TTC>TGC	p.F54C	TLR4_uc004bka.2_Missense_Mutation_p.F14C|TLR4_uc004bkb.2_Intron	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	54	Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						AACCTCCCCTTCTCAACCAAG	0.438													32	128	---	---	---	---	PASS	G	120470908	G	G	120470908	3	3	31	1	0	0	0	0	1	0	0	0	15950	1783	62	5	167	5	TLR4	9	120470908	Missense_Mutation	SNP	T	TCGA-22-1011-01A-01D-1521-08	24062993	120470908	20742523	59	12893										
MAPKAP1	79109	broad.mit.edu	37	chr9	128432143	128432143	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	cactgaatatttttgcatttGatctggttttgtctctcttt	6	7	3	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr9:128432143G>C	uc004bpv.2	-	3	636	c.303C>G	c.(301-303)ATC>ATG	p.I101M	MAPKAP1_uc004bpw.2_Translation_Start_Site|MAPKAP1_uc004bpx.2_Intron|MAPKAP1_uc004bpy.2_Missense_Mutation_p.I101M|MAPKAP1_uc004bpz.2_Missense_Mutation_p.I101M|MAPKAP1_uc010mxa.2_RNA|MAPKAP1_uc004bqa.2_Missense_Mutation_p.I101M	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	101	Interaction with MAP3K2.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4						TTTTGCATTTGATCTGGTTTT	0.259													6	21	---	---	---	---	PASS	C	128432143	C	C	128432143	3	2	31	1	0	0	0	0	1	0	0	0	9288	1280	45	2	1323	2	MAPKAP1	9	128432143	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	7961235	128432143	12781288	60	12894										
TPRN	286262	broad.mit.edu	37	chr9	140086755	140086755	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tgcctccctcggggcctgctCcagcgcctgctcctgccact	10	20	0	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr9:140086755C>G	uc004clt.2	-	3	1846	c.1846G>C	c.(1846-1848)GAG>CAG	p.E616Q	TPRN_uc004clu.2_Missense_Mutation_p.E616Q	NM_173691	NP_775962	Q4KMQ1	TPRN_HUMAN	hypothetical protein LOC286262 isoform 2	677					sensory perception of sound	stereocilium					0						GGGGCCTGCTCCAGCGCCTGC	0.677													6	40	---	---	---	---	PASS	G	140086755	G	G	140086755	3	3	31	1	0	0	0	0	1	0	0	0	16418	864	30	2	194	2	TPRN	9	140086755	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	11654612	140086755	1126676	61	12895										
PARD3	56288	broad.mit.edu	37	chr10	34759074	34759074	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tgaggaagccagctgttgttGaccagcgtgtgggatttttc	14	7	0	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr10:34759074G>C	uc010qej.1	-	4	521	c.521C>G	c.(520-522)TCA>TGA	p.S174*	PARD3_uc010qek.1_Nonsense_Mutation_p.S174*|PARD3_uc010qel.1_Nonsense_Mutation_p.S174*|PARD3_uc010qem.1_Nonsense_Mutation_p.S174*|PARD3_uc010qen.1_Nonsense_Mutation_p.S174*|PARD3_uc010qeo.1_Nonsense_Mutation_p.S174*|PARD3_uc010qep.1_Nonsense_Mutation_p.S174*|PARD3_uc010qeq.1_Nonsense_Mutation_p.S174*|PARD3_uc001ixp.1_Nonsense_Mutation_p.S39*|PARD3_uc001ixq.1_Nonsense_Mutation_p.S174*|PARD3_uc001ixr.1_Nonsense_Mutation_p.S174*|PARD3_uc001ixt.1_Nonsense_Mutation_p.S39*|PARD3_uc001ixu.1_Nonsense_Mutation_p.S174*	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	174					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)				AGCTGTTGTTGACCAGCGTGT	0.507													30	128	---	---	---	---	PASS	C	34759074	C	C	34759074	4	2	31	1	0	0	0	0	0	1	0	0	11443	1294	45	2	3672	2	PARD3	10	34759074	Nonsense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08		34759074	100775673	62	12896										
PLCE1	51196	broad.mit.edu	37	chr10	96039545	96039545	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ttgctattttacaggctcatCagttagcatctatgcaagtg	8	8	3	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr10:96039545C>T	uc001kjk.2	+	20	5306	c.4672C>T	c.(4672-4674)CAG>TAG	p.Q1558*	PLCE1_uc010qnx.1_Nonsense_Mutation_p.Q1542*|PLCE1_uc001kjm.2_Nonsense_Mutation_p.Q1250*|uc001kjo.1_RNA	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1558					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				ACAGGCTCATCAGTTAGCATC	0.388											OREG0020383	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	76	---	---	---	---	PASS	T	96039545	T	T	96039545	4	4	31	1	0	0	0	0	0	1	0	0	12034	827	29	2	5032	2	PLCE1	10	96039545	Nonsense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	61280471	96039545	39495202	63	12897										
PSD	5662	broad.mit.edu	37	chr10	104176760	104176760	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ggtggggagatggcacagtcGccttccgagcagaagcgcat	16	10	0	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr10:104176760G>A	uc001kvg.1	-	2	563	c.36C>T	c.(34-36)GGC>GGT	p.G12G	PSD_uc001kvh.1_Intron|PSD_uc009xxd.1_Silent_p.G12G|PSD_uc001kvi.1_Silent_p.G12G|FBXL15_uc001kvj.1_5'Flank|FBXL15_uc001kvk.2_5'Flank	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	12					regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		TGGCACAGTCGCCTTCCGAGC	0.721													4	21	---	---	---	---	PASS	A	104176760	A	A	104176760	2	1	31	1	0	0	0	0	0	0	0	1	12646	1074	38	1		1	PSD	10	104176760	Silent	SNP	G	TCGA-22-1011-01A-01D-1521-08	8137215	104176760	31357987	64	12898										
OR51V1	283111	broad.mit.edu	37	chr11	5221326	5221326	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gggcatagtaactattgaatCggatgtctgaacaggctaag	12	6	1	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr11:5221326C>G	uc010qyz.1	-	1	605	c.605G>C	c.(604-606)CGA>CCA	p.R202P		NM_001004760	NP_001004760	Q9H2C8	O51V1_HUMAN	olfactory receptor, family 51, subfamily V,	202	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.83e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTATTGAATCGGATGTCTGA	0.408													12	106	---	---	---	---	PASS	G	5221326	G	G	5221326	3	3	31	1	0	0	0	0	1	0	0	0	11107	884	31	2	363	2	OR51V1	11	5221326	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08		5221326	129785190	65	12899										
OR2D2	120776	broad.mit.edu	37	chr11	6913340	6913340	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aggtcatgatgttagggtaaCgcagaggattgcagattgca	14	5	1	3	rs143950338		TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr11:6913340C>T	uc010rau.1	-	1	392	c.392G>A	c.(391-393)CGT>CAT	p.R131H		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GTTAGGGTAACGCAGAGGATT	0.498													16	141	---	---	---	---	PASS	T	6913340	T	T	6913340	3	4	31	1	0	0	0	0	1	0	0	0	10994	536	19	1	537	1	OR2D2	11	6913340	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	1692014	6913340	128093176	66	12900										
EIF4G2	1982	broad.mit.edu	37	chr11	10820951	10820951	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	cgctgggggggtttacttcaCtagaaatgtactgtaagaag	13	6	1	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr11:10820951C>G	uc001mjc.2	-	20	2762	c.2345G>C	c.(2344-2346)AGT>ACT	p.S782T	EIF4G2_uc001mjb.2_Missense_Mutation_p.S576T|EIF4G2_uc009ygf.2_Missense_Mutation_p.S576T|EIF4G2_uc001mjd.2_Missense_Mutation_p.S744T	NM_001418	NP_001409	P78344	IF4G2_HUMAN	eukaryotic translation initiation factor 4	782	W2.				cell cycle arrest|cell death|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		GTTTACTTCACTAGAAATGTA	0.423													10	87	---	---	---	---	PASS	G	10820951	G	G	10820951	3	3	31	1	0	0	0	0	1	0	0	0	5037	565	20	4	390	4	EIF4G2	11	10820951	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	3907611	10820951	124185565	67	12901										
SPDYC	387778	broad.mit.edu	37	chr11	64940229	64940229	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	catggtggggttcagagggtCtgtccacaggtccctgttcg	15	10	2	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr11:64940229C>T	uc010rnz.1	+	6	591	c.591C>T	c.(589-591)GTC>GTT	p.V197V		NM_001008778	NP_001008778	Q5MJ68	SPDYC_HUMAN	speedy C	197					cell cycle	nucleus	protein kinase binding				0						TTCAGAGGGTCTGTCCACAGG	0.647													16	88	---	---	---	---	PASS	T	64940229	T	T	64940229	2	4	31	1	0	0	0	0	0	0	0	1	15027	900	32	2		2	SPDYC	11	64940229	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	54119278	64940229	70066287	68	12902										
SPDYC	387778	broad.mit.edu	37	chr11	64940371	64940371	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	cttctctgacctctgaatgtCatcgccctccctcccaaaat	4	17	3	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr11:64940371C>T	uc010rnz.1	+	6	733	c.733C>T	c.(733-735)CAT>TAT	p.H245Y		NM_001008778	NP_001008778	Q5MJ68	SPDYC_HUMAN	speedy C	245					cell cycle	nucleus	protein kinase binding				0						CTCTGAATGTCATCGCCCTCC	0.572													16	138	---	---	---	---	PASS	T	64940371	T	T	64940371	3	4	31	1	0	0	0	0	1	0	0	0	15027	826	29	2	755	2	SPDYC	11	64940371	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	142	64940371	70066145	69	12903										
SF3B2	10992	broad.mit.edu	37	chr11	65835421	65835421	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ccattgtccttcgcagaagtGagacacctcagctcttcact	7	14	3	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr11:65835421G>C	uc001ogy.1	+	20	2375	c.2335G>C	c.(2335-2337)GAG>CAG	p.E779Q	PACS1_uc001ogz.1_5'Flank|PACS1_uc001oha.1_5'Flank	NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	779					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						TCGCAGAAGTGAGACACCTCA	0.527											OREG0021094	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	141	---	---	---	---	PASS	C	65835421	C	C	65835421	3	2	31	1	0	0	0	0	1	0	0	0	14151	1291	45	2	2413	2	SF3B2	11	65835421	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	895050	65835421	69171095	70	12904										
FAT3	120114	broad.mit.edu	37	chr11	92534482	92534482	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aacaggcactattaagcttgAcaaacgccttgaccgtgaaa	8	10	0	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr11:92534482A>G	uc001pdj.3	+	9	8320	c.8303A>G	c.(8302-8304)GAC>GGC	p.D2768G		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2768	Extracellular (Potential).|Cadherin 25.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ATTAAGCTTGACAAACGCCTT	0.448										TCGA Ovarian(4;0.039)			8	36	---	---	---	---	PASS	G	92534482	G	G	92534482	3	3	31	1	0	0	0	0	1	0	0	0	5691	275	10	5	8337	5	FAT3	11	92534482	Missense_Mutation	SNP	A	TCGA-22-1011-01A-01D-1521-08	26699061	92534482	42472034	71	12905										
SIK3	23387	broad.mit.edu	37	chr11	116730126	116730126	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gccgcgcccactggagcctgCagctgtgcctggcatgttgc	14	15	0	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr11:116730126C>T	uc001ppy.2	-	19	2338	c.2302G>A	c.(2302-2304)GCA>ACA	p.A768T	SIK3_uc001ppz.2_Missense_Mutation_p.A667T|SIK3_uc001pqa.2_Missense_Mutation_p.A768T|SIK3_uc001ppw.2_Missense_Mutation_p.A185T|SIK3_uc001ppx.2_Missense_Mutation_p.A206T|SIK3_uc001pqb.2_Missense_Mutation_p.A71T	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	768	Gln-rich.					cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						CTGGAGCCTGCAGCTGTGCCT	0.597											OREG0003491	type=REGULATORY REGION|Gene=AK022302|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	15	86	---	---	---	---	PASS	T	116730126	T	T	116730126	3	4	31	1	0	0	0	0	1	0	0	0	14319	710	25	3	1509	3	SIK3	11	116730126	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	24195644	116730126	18276390	72	12906										
ABCD2	225	broad.mit.edu	37	chr12	40010967	40010967	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tttctgaagttgtttcatttCtacctatagagaggaaaaag	8	5	3	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr12:40010967C>G	uc001rmb.2	-	2	1369	c.943G>C	c.(943-945)GAA>CAA	p.E315Q		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	315	ABC transmembrane type-1.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						TGTTTCATTTCTACCTATAGA	0.299													7	73	---	---	---	---	PASS	G	40010967	G	G	40010967	3	3	31	1	0	0	0	0	1	0	0	0	61	922	32	2	1315	2	ABCD2	12	40010967	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08		40010967	93840928	73	12907										
RASSF9	9182	broad.mit.edu	37	chr12	86199520	86199520	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gattctagttagtggaggaaGaaccctttcggagcctctcc	11	10	2	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr12:86199520G>A	uc001taf.1	-	2	607	c.268C>T	c.(268-270)CTT>TTT	p.L90F		NM_005447	NP_005438	O75901	RASF9_HUMAN	Ras association (RalGDS/AF-6) domain family	90	Ras-associating.				endosome transport|protein targeting|signal transduction	cytosol|endosome|trans-Golgi network transport vesicle membrane	protein binding|transporter activity			ovary(1)	1						AGTGGAGGAAGAACCCTTTCG	0.463													33	110	---	---	---	---	PASS	A	86199520	A	A	86199520	3	1	31	1	0	0	0	0	1	0	0	0	13093	942	33	2	1043	2	RASSF9	12	86199520	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	46188553	86199520	47652375	74	12908										
PRDM4	11108	broad.mit.edu	37	chr12	108145615	108145615	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gctcacagaatccacagacaGaggttcatgacttctggagc	10	11	3	4			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr12:108145615G>A	uc001tmp.2	-	5	1140	c.703C>T	c.(703-705)CTG>TTG	p.L235L	PRDM4_uc001tmq.2_RNA	NM_012406	NP_036538	Q9UKN5	PRDM4_HUMAN	PR domain containing 4	235					cell proliferation|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						TCCACAGACAGAGGTTCATGA	0.532													14	85	---	---	---	---	PASS	A	108145615	A	A	108145615	2	1	31	1	0	0	0	0	0	0	0	1	12459	933	33	2		2	PRDM4	12	108145615	Silent	SNP	G	TCGA-22-1011-01A-01D-1521-08	21946095	108145615	25706280	75	12909										
KCTD10	83892	broad.mit.edu	37	chr12	109895804	109895804	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gcctccaacataccttatttGaagtcgctataagtttttgt	6	9	0	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr12:109895804G>T	uc001toi.1	-	4	555	c.467C>A	c.(466-468)TCA>TAA	p.S156*	KCTD10_uc001toh.1_RNA|KCTD10_uc009zvi.1_Nonsense_Mutation_p.S153*|KCTD10_uc001toj.1_Nonsense_Mutation_p.S165*|KCTD10_uc001tok.1_5'UTR	NM_031954	NP_114160	Q9H3F6	BACD3_HUMAN	potassium channel tetramerisation domain	156					proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0						TACCTTATTTGAAGTCGCTAT	0.373													17	76	---	---	---	---	PASS	T	109895804	T	T	109895804	4	4	31	1	0	0	0	0	0	1	0	0	8097	1294	45	2	490	2	KCTD10	12	109895804	Nonsense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	1750189	109895804	23956091	76	12910										
STARD13	90627	broad.mit.edu	37	chr13	33704299	33704299	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tcctcatccccgtgcctcccGgtgacccatttctgtctcct	6	19	3	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr13:33704299G>A	uc001uuw.2	-	5	641	c.515C>T	c.(514-516)CCG>CTG	p.P172L	STARD13_uc001uuu.2_Missense_Mutation_p.P164L|STARD13_uc001uuv.2_Missense_Mutation_p.P54L|STARD13_uc001uux.2_Missense_Mutation_p.P137L|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Missense_Mutation_p.P157L	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	172					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		CGTGCCTCCCGGTGACCCATT	0.577													13	34	---	---	---	---	PASS	A	33704299	A	A	33704299	3	1	31	1	0	0	0	0	1	0	0	0	15255	1116	39	1	2866	1	STARD13	13	33704299	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08		33704299	81465579	77	12911										
SIX4	51804	broad.mit.edu	37	chr14	61190296	61190296	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tgtggctctcgaggatgctgTagagctcggggtagatgccc	16	9	1	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr14:61190296T>C	uc001xfc.2	-	1	497	c.497A>G	c.(496-498)TAC>TGC	p.Y166C	SIX4_uc010app.1_Missense_Mutation_p.Y158C	NM_017420	NP_059116	Q9UIU6	SIX4_HUMAN	sine oculis homeobox homolog 4	166						nucleus				breast(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0275)		GAGGATGCTGTAGAGCTCGGG	0.682													4	43	---	---	---	---	PASS	C	61190296	C	C	61190296	3	2	31	1	0	0	0	0	1	0	0	0	14349	1638	57	5	1860	5	SIX4	14	61190296	Missense_Mutation	SNP	T	TCGA-22-1011-01A-01D-1521-08		61190296	46159244	78	12912										
SNAPC1	6617	broad.mit.edu	37	chr14	62249063	62249063	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aaagcaactaggaaaaaagaGaagaaagaaagattgaaacc	9	4	0	5	rs145109867		TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr14:62249063G>C	uc001xft.2	+	8	1028	c.924G>C	c.(922-924)GAG>GAC	p.E308D		NM_003082	NP_003073	Q16533	SNPC1_HUMAN	small nuclear RNA activating complex,	308					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.0639)|BRCA - Breast invasive adenocarcinoma(234;0.186)		GGAAAAAAGAGAAGAAAGAAA	0.393													5	70	---	---	---	---	PASS	C	62249063	C	C	62249063	3	2	31	1	0	0	0	0	1	0	0	0	14834	933	33	2	954	2	SNAPC1	14	62249063	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	1058767	62249063	45100477	79	12913										
SNAPC1	6617	broad.mit.edu	37	chr14	62249095	62249095	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	attgaaaccagcaggaaggaAgatgtctctcagaaacaaag	10	7	2	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr14:62249095A>C	uc001xft.2	+	8	1060	c.956A>C	c.(955-957)AAG>ACG	p.K319T		NM_003082	NP_003073	Q16533	SNPC1_HUMAN	small nuclear RNA activating complex,	319					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.0639)|BRCA - Breast invasive adenocarcinoma(234;0.186)		GCAGGAAGGAAGATGTCTCTC	0.368													4	48	---	---	---	---	PASS	C	62249095	C	C	62249095	3	2	31	1	0	0	0	0	1	0	0	0	14834	72	3	5	986	5	SNAPC1	14	62249095	Missense_Mutation	SNP	A	TCGA-22-1011-01A-01D-1521-08	32	62249095	45100445	80	12914										
GALNTL1	57452	broad.mit.edu	37	chr14	69792679	69792679	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	cttcctctttgcatcctcagCggaagactgtctactcctga	7	14	3	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr14:69792679C>T	uc010aqu.1	+	5	596	c.503C>T	c.(502-504)CCG>CTG	p.P168L	GALNTL1_uc001xla.1_Missense_Mutation_p.P168L|GALNTL1_uc001xlb.1_Missense_Mutation_p.P168L	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	168	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		GCATCCTCAGCGGAAGACTGT	0.562													11	100	---	---	---	---	PASS	T	69792679	T	T	69792679	3	4	31	1	0	0	0	0	1	0	0	0	6221	782	27	1	521	1	GALNTL1	14	69792679	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	7543584	69792679	37556861	81	12915										
C14orf68	283600	broad.mit.edu	37	chr14	100793708	100793708	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gcgcctccggcctcgtccgcGtgagtaggggcagccagggt	17	14	0	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr14:100793708G>A	uc001yhc.2	+	4	400	c.327_splice	c.e4+1	p.R109_splice	C14orf68_uc001yhd.2_Splice_Site	NM_207117	NP_997000	Q6Q0C1	S2547_HUMAN	chromosome 14 open reading frame 68						transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0		Melanoma(154;0.152)				CCTCGTCCGCGTGAGTAGGGG	0.662													8	67	---	---	---	---	PASS	A	100793708	A	A	100793708	5	1	31	1	0	0	0	0	0	0	1	0	1778	1159	40	1	342	1	C14orf68	14	100793708	Splice_Site	SNP	G	TCGA-22-1011-01A-01D-1521-08	31001029	100793708	6555832	82	12916										
HSP90AA1	3320	broad.mit.edu	37	chr14	102552590	102552590	+	Missense_Mutation	SNP	C	G	G													0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	atgagctctctcagaaagatCtctttgttcgagtagaaagt							TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr14:102552590C>G	uc001yku.3	-	2	316	c.126G>C	c.(124-126)GAG>GAC	p.E42D	HSP90AA1_uc001ykv.3_Missense_Mutation_p.E164D|HSP90AA1_uc001ykw.1_5'UTR|HSP90AA1_uc001ykx.1_Missense_Mutation_p.E31D	NM_005348	NP_005339	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 2	42					axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	TCAGAAAGATCTCTTTGTTCG	0.428													7	72	---	---	---	---	PASS	G	102552590	G	G	102552590	3	3	31	1	0	0	0	0	1	0	0	0	7401	912	32	2	2112	2	HSP90AA1	14	102552590	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	1758882	102552590	4796950	83	12917	337	2								
HSP90AA1	3320	broad.mit.edu	37	chr14	102552599	102552599	+	Silent	SNP	C	G	G													0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ctcagaaagatctctttgttCgagtagaaagtattgatgat							TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr14:102552599C>G	uc001yku.3	-	2	307	c.117G>C	c.(115-117)TCG>TCC	p.S39S	HSP90AA1_uc001ykv.3_Silent_p.S161S|HSP90AA1_uc001ykw.1_5'UTR|HSP90AA1_uc001ykx.1_Silent_p.S28S	NM_005348	NP_005339	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 2	39					axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	TCTCTTTGTTCGAGTAGAAAG	0.428													8	69	---	---	---	---	PASS	G	102552599	G	G	102552599	2	3	31	1	0	0	0	0	0	0	0	1	7401	871	31	2		2	HSP90AA1	14	102552599	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	9	102552599	4796941	84	12918	337	2								
AQR	9716	broad.mit.edu	37	chr15	35202438	35202438	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tatgttgggtttggccacttCaacgacagtgaaagccacaa	10	9	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr15:35202438C>T	uc001ziv.2	-	17	1742	c.1561G>A	c.(1561-1563)GAA>AAA	p.E521K		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	521						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		TTGGCCACTTCAACGACAGTG	0.468													26	170	---	---	---	---	PASS	T	35202438	T	T	35202438	3	4	31	1	0	0	0	0	1	0	0	0	835	835	29	2	2972	2	AQR	15	35202438	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08		35202438	67328954	85	12919										
PYGO1	26108	broad.mit.edu	37	chr15	55838974	55838974	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aaatgttgattaggcatgttGacattctgacttagtgcatt	9	5	1	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr15:55838974G>A	uc010bfl.1	-	3	563	c.507C>T	c.(505-507)GTC>GTT	p.V169V	PYGO1_uc002adf.1_Silent_p.V169V	NM_015617	NP_056432	Q9Y3Y4	PYGO1_HUMAN	pygopus homolog 1	169	Asn-rich.				Wnt receptor signaling pathway	nucleus	zinc ion binding			ovary(1)|skin(1)	2				all cancers(107;0.0131)|GBM - Glioblastoma multiforme(80;0.18)		TAGGCATGTTGACATTCTGAC	0.378													26	152	---	---	---	---	PASS	A	55838974	A	A	55838974	2	1	31	1	0	0	0	0	0	0	0	1	12863	1277	45	2		2	PYGO1	15	55838974	Silent	SNP	G	TCGA-22-1011-01A-01D-1521-08	20636536	55838974	46692418	86	12920										
MYO9A	4649	broad.mit.edu	37	chr15	72338533	72338533	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	cgttcttctgttacccgtagCcatgactgcaggctaccata	8	13	2	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr15:72338533C>T	uc002atl.3	-	2	845	c.372G>A	c.(370-372)TGG>TGA	p.W124*	MYO9A_uc010biq.2_Intron|MYO9A_uc002ato.2_Nonsense_Mutation_p.W124*|MYO9A_uc002atn.1_Nonsense_Mutation_p.W124*	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	124					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						TTACCCGTAGCCATGACTGCA	0.448													35	132	---	---	---	---	PASS	T	72338533	T	T	72338533	4	4	31	1	0	0	0	0	0	1	0	0	10084	740	26	3	7438	3	MYO9A	15	72338533	Nonsense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	16499559	72338533	30192859	87	12921										
PDE8A	5151	broad.mit.edu	37	chr15	85664067	85664067	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	atgaggtcgctgcactcatcGcagccaccattcatgatgtg	10	12	2	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr15:85664067G>A	uc002blh.2	+	18	1963	c.1774G>A	c.(1774-1776)GCA>ACA	p.A592T	PDE8A_uc002bli.2_Missense_Mutation_p.A546T|PDE8A_uc010bnc.2_Missense_Mutation_p.A345T|PDE8A_uc010bnd.2_Missense_Mutation_p.A345T|PDE8A_uc002blj.2_Missense_Mutation_p.A212T|PDE8A_uc002blk.2_Missense_Mutation_p.A212T|PDE8A_uc002bll.2_5'UTR	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	592	Catalytic (By similarity).				cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			TGCACTCATCGCAGCCACCAT	0.468													34	95	---	---	---	---	PASS	A	85664067	A	A	85664067	3	1	31	1	0	0	0	0	1	0	0	0	11653	1087	38	1	1844	1	PDE8A	15	85664067	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	13325534	85664067	16867325	88	12922										
HAGHL	84264	broad.mit.edu	37	chr16	777524	777524	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gtgaccatgaaggtcaaggtCatccccgtgctcgaggacaa	12	11	2	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr16:777524C>T	uc002cjl.1	+	2	296	c.15C>T	c.(13-15)GTC>GTT	p.V5V	CCDC78_uc002cjf.2_5'Flank|CCDC78_uc002cji.3_5'Flank|CCDC78_uc002cjg.2_5'Flank|CCDC78_uc002cjj.3_5'Flank|CCDC78_uc002cjh.2_5'Flank|CCDC78_uc010uuo.1_5'Flank|CCDC78_uc002cjk.2_5'Flank|HAGHL_uc002cjm.1_Silent_p.V5V|HAGHL_uc002cjn.1_Silent_p.V5V|HAGHL_uc002cjo.1_Silent_p.V5V|HAGHL_uc010uup.1_Silent_p.V5V	NM_207112	NP_996995	Q6PII5	HAGHL_HUMAN	hydroxyacylglutathione hydrolase-like isoform 1	5							hydrolase activity|metal ion binding				0		Hepatocellular(780;0.00335)				AGGTCAAGGTCATCCCCGTGC	0.672													7	23	---	---	---	---	PASS	T	777524	T	T	777524	2	4	31	1	0	0	0	0	0	0	0	1	6946	813	29	2		2	HAGHL	16	777524	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08		777524	89577229	89	12923										
VASN	114990	broad.mit.edu	37	chr16	4431778	4431778	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gcagctgcccgcaaccccttCaactgcgtgtgccccctgag	10	18	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr16:4431778C>T	uc002cwj.1	+	2	1055	c.900C>T	c.(898-900)TTC>TTT	p.F300F	CORO7_uc002cwe.2_Intron|CORO7_uc002cwf.2_Intron|CORO7_uc002cwg.3_Intron|CORO7_uc002cwh.3_Intron|CORO7_uc010uxh.1_Intron|CORO7_uc010uxi.1_Intron|CORO7_uc002cwi.1_Intron|CORO7_uc010uxj.1_Intron|CORO7_uc010btp.1_Intron	NM_138440	NP_612449	Q6EMK4	VASN_HUMAN	slit-like 2 precursor	300	Extracellular (Potential).|LRRCT.					extracellular region|integral to membrane					0						GCAACCCCTTCAACTGCGTGT	0.687													6	34	---	---	---	---	PASS	T	4431778	T	T	4431778	2	4	31	1	0	0	0	0	0	0	0	1	17124	825	29	2		2	VASN	16	4431778	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	3654254	4431778	85922975	90	12924										
ANKS4B	257629	broad.mit.edu	37	chr16	21262054	21262054	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	cagagcatacaaatgcagctGggtcccaggaagaaagttct	11	9	1	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr16:21262054G>A	uc010bwp.1	+	2	1210	c.1167G>A	c.(1165-1167)CTG>CTA	p.L389L	CRYM_uc010bwq.1_Intron	NM_145865	NP_665872	Q8N8V4	ANS4B_HUMAN	harmonin-interacting ankyrin-repeat containing	389	SAM.									ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0565)		AAATGCAGCTGGGTCCCAGGA	0.507													36	156	---	---	---	---	PASS	A	21262054	A	A	21262054	2	1	31	1	0	0	0	0	0	0	0	1	691	1335	47	3		3	ANKS4B	16	21262054	Silent	SNP	G	TCGA-22-1011-01A-01D-1521-08	16830276	21262054	69092699	91	12925										
SCNN1B	6338	broad.mit.edu	37	chr16	23391849	23391849	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	atcatcgactttgtgtggatCaccatcatcaagctggtggc	10	10	4	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr16:23391849C>T	uc002dln.2	+	13	1826	c.1650C>T	c.(1648-1650)ATC>ATT	p.I550I		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	550	Cytoplasmic (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	TTGTGTGGATCACCATCATCA	0.627													43	298	---	---	---	---	PASS	T	23391849	T	T	23391849	2	4	31	1	0	0	0	0	0	0	0	1	13928	816	29	2		2	SCNN1B	16	23391849	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	2129795	23391849	66962904	92	12926										
VPS35	55737	broad.mit.edu	37	chr16	46694409	46694409	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ggatgagaccttcataaattGgcccctcggattctggtgat	11	9	2	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr16:46694409G>T	uc002eef.3	-	17	2465	c.2366C>A	c.(2365-2367)CCA>CAA	p.P789Q	VPS35_uc002eed.2_3'UTR|VPS35_uc002eee.2_Missense_Mutation_p.P750Q	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	789					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				TTCATAAATTGGCCCCTCGGA	0.423													16	109	---	---	---	---	PASS	T	46694409	T	T	46694409	3	4	31	1	0	0	0	0	1	0	0	0	17200	1348	47	3	28	3	VPS35	16	46694409	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	23302560	46694409	43660344	93	12927										
SALL1	6299	broad.mit.edu	37	chr16	51175080	51175080	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gaagccactttttcagaggaCggggtggtaactgccgctgc	14	10	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr16:51175080C>T	uc010vgs.1	-	2	1084	c.1053G>A	c.(1051-1053)CCG>CCA	p.P351P	SALL1_uc010vgr.1_Silent_p.P254P|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	351					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TTTCAGAGGACGGGGTGGTAA	0.507													20	59	---	---	---	---	PASS	T	51175080	T	T	51175080	2	4	31	1	0	0	0	0	0	0	0	1	13810	523	19	1		1	SALL1	16	51175080	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	4480671	51175080	39179673	94	12928										
PDPR	55066	broad.mit.edu	37	chr16	70166157	70166157	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ccaattttcactgagggcaaGaaccagctggagattcagaa	10	9	2	4			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr16:70166157G>C	uc002eyf.1	+	9	1908	c.951G>C	c.(949-951)AAG>AAC	p.K317N	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.K217N|PDPR_uc002eyg.1_Missense_Mutation_p.K45N	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	317					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)		CTGAGGGCAAGAACCAGCTGG	0.428													8	110	---	---	---	---	PASS	C	70166157	C	C	70166157	3	2	31	1	0	0	0	0	1	0	0	0	11689	933	33	2	977	2	PDPR	16	70166157	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	18991077	70166157	20188596	95	12929										
AP1G1	164	broad.mit.edu	37	chr16	71803595	71803595	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	aggaggactacagatgtgtgGaggacacctgaaagaaaaga	14	5	0	4			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr16:71803595G>C	uc010cgg.2	-	6	887	c.573C>G	c.(571-573)CTC>CTG	p.L191L	AP1G1_uc002fba.2_Silent_p.L191L|AP1G1_uc002fbb.2_Silent_p.L214L|AP1G1_uc010vmg.1_RNA|AP1G1_uc010vmh.1_Silent_p.L273L	NM_001128	NP_001119	O43747	AP1G1_HUMAN	adaptor-related protein complex 1, gamma 1	191					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|recycling endosome	kinesin binding|protein transporter activity			ovary(2)	2		Ovarian(137;0.125)				CAGATGTGTGGAGGACACCTG	0.418													15	136	---	---	---	---	PASS	C	71803595	C	C	71803595	2	2	31	1	0	0	0	0	0	0	0	1	732	1161	41	2		2	AP1G1	16	71803595	Silent	SNP	G	TCGA-22-1011-01A-01D-1521-08	1637438	71803595	18551158	96	12930										
PLCG2	5336	broad.mit.edu	37	chr16	81934360	81934360	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ccagctgccctcgcccagccAgctgcgggagaagatcatca	11	16	2	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr16:81934360A>T	uc002fgt.2	+	14	1489	c.1337A>T	c.(1336-1338)CAG>CTG	p.Q446L	PLCG2_uc010chg.1_Missense_Mutation_p.Q446L	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	446	PI-PLC X-box.				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						TCGCCCAGCCAGCTGCGGGAG	0.632													16	58	---	---	---	---	PASS	T	81934360	T	T	81934360	3	4	31	1	0	0	0	0	1	0	0	0	12036	188	7	5	1387	5	PLCG2	16	81934360	Missense_Mutation	SNP	A	TCGA-22-1011-01A-01D-1521-08	10130765	81934360	8420393	97	12931										
TP53	7157	broad.mit.edu	37	chr17	7577127	7577127	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	acaggcacaaacacgcacctCaaagctgttccgtcccagta	7	15	1	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr17:7577127C>T	uc002gim.2	-	8	1005	c.811G>A	c.(811-813)GAG>AAG	p.E271K	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.E271K|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.E139K|TP53_uc010cng.1_Missense_Mutation_p.E139K|TP53_uc002gii.1_Missense_Mutation_p.E139K|TP53_uc010cnh.1_Missense_Mutation_p.E271K|TP53_uc010cni.1_Missense_Mutation_p.E271K|TP53_uc002gij.2_Missense_Mutation_p.E271K	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	271	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> D (in sporadic cancers; somatic mutation).|E -> G (in sporadic cancers; somatic mutation).|E -> V (in an osteosarcoma with no family history; germline mutation and in sporadic cancers; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).|E -> R (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|E -> A (in sporadic cancers; somatic mutation).|E -> Q (in sporadic cancers; somatic mutation).|E -> 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.E271K(22)|p.E271*(14)|p.0?(7)|p.E271V(5)|p.E271Q(3)|p.E271G(3)|p.E271D(3)|p.?(2)|p.G266_E271delGRNSFE(2)|p.E271E(2)|p.E271fs*73(1)|p.E258fs*71(1)|p.E271_R273delEVR(1)|p.F270fs*72(1)|p.S269fs*21(1)|p.L265_K305del41(1)|p.F270_D281del12(1)|p.E271P(1)|p.E271del(1)|p.S269fs*34(1)|p.E271fs*34(1)|p.E271fs*35(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)		ACACGCACCTCAAAGCTGTTC	0.537		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)			9	43	---	---	---	---	PASS	T	7577127	T	T	7577127	3	4	31	1	0	0	0	0	1	0	0	0	16378	835	29	2	475	2	TP53	17	7577127	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08		7577127	73618083	98	12932										
DNAH2	146754	broad.mit.edu	37	chr17	7678646	7678646	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tcctccactcagtatttttaGaaggccctgtggaggtgagt	11	9	1	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr17:7678646G>C	uc002giu.1	+	29	4821	c.4807G>C	c.(4807-4809)GAA>CAA	p.E1603Q		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1603	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				AGTATTTTTAGAAGGCCCTGT	0.468													7	21	---	---	---	---	PASS	C	7678646	C	C	7678646	3	2	31	1	0	0	0	0	1	0	0	0	4602	943	33	2	4921	2	DNAH2	17	7678646	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	101519	7678646	73516564	99	12933										
TRIM37	4591	broad.mit.edu	37	chr17	57093108	57093108	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tcaccgatactgccatgtatCaaggctcggggagaactgtg	12	10	2	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr17:57093108C>G	uc002iwy.3	-	21	2883	c.2439G>C	c.(2437-2439)TTG>TTC	p.L813F	TRIM37_uc002iwz.3_Missense_Mutation_p.L813F|TRIM37_uc002ixa.3_Missense_Mutation_p.L691F|TRIM37_uc010woc.1_Missense_Mutation_p.L779F	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	813						perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TGCCATGTATCAAGGCTCGGG	0.428									Mulibrey_Nanism				32	88	---	---	---	---	PASS	G	57093108	G	G	57093108	3	3	31	1	0	0	0	0	1	0	0	0	16508	825	29	2	479	2	TRIM37	17	57093108	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	49414462	57093108	24102102	100	12934										
LAMA1	284217	broad.mit.edu	37	chr18	7080394	7080394	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	catctccggccccttctcgcCacaggtggcattggtgctga	11	15	2	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr18:7080394C>G	uc002knm.2	-	2	218	c.124G>C	c.(124-126)GGC>CGC	p.G42R	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	42	Laminin N-terminal.				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)	CCCTTCTCGCCACAGGTGGCA	0.537													25	81	---	---	---	---	PASS	G	7080394	G	G	7080394	3	3	31	1	0	0	0	0	1	0	0	0	8605	594	21	4	9351	4	LAMA1	18	7080394	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08		7080394	70996854	101	12935										
KIAA1543	57662	broad.mit.edu	37	chr19	7676774	7676774	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	atcgaggaagctctgcagatCatccacagtgccgagccccg	11	14	2	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr19:7676774C>A	uc002mgv.3	+	11	1496	c.1395C>A	c.(1393-1395)ATC>ATA	p.I465I	KIAA1543_uc002mgu.3_Silent_p.I492I|KIAA1543_uc002mgw.2_5'Flank	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	465	Pro-rich.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						CTCTGCAGATCATCCACAGTG	0.731													5	39	---	---	---	---	PASS	A	7676774	A	A	7676774	2	1	31	1	0	0	0	0	0	0	0	1	8243	816	29	2		2	KIAA1543	19	7676774	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08		7676774	51452209	102	12936										
MUC16	94025	broad.mit.edu	37	chr19	9045652	9045652	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	cttccagccagtgtattgaaGgtggttgttgtcttggccac	12	9	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr19:9045652G>T	uc002mkp.2	-	5	36183	c.35979C>A	c.(35977-35979)ACC>ACA	p.T11993T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11995	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGTATTGAAGGTGGTTGTTG	0.478													9	57	---	---	---	---	PASS	T	9045652	T	T	9045652	2	4	31	1	0	0	0	0	0	0	0	1	9973	987	35	3		3	MUC16	19	9045652	Silent	SNP	G	TCGA-22-1011-01A-01D-1521-08	1368878	9045652	50083331	103	12937										
PDE4C	5143	broad.mit.edu	37	chr19	18329162	18329162	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	acctcgagggcgggcgtagcCagcagcacatgcgtggactg	16	12	0	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr19:18329162C>T	uc010xqc.1	-	10	1692	c.1212G>A	c.(1210-1212)CTG>CTA	p.L404L	PDE4C_uc002nik.3_Silent_p.L404L|PDE4C_uc002nil.3_Silent_p.L404L|PDE4C_uc002nif.3_Silent_p.L173L|PDE4C_uc002nig.3_Intron|PDE4C_uc002nih.3_Silent_p.L174L|PDE4C_uc010ebk.2_Silent_p.L298L|PDE4C_uc002nii.3_Silent_p.L372L|PDE4C_uc010ebl.2_Silent_p.L118L|PDE4C_uc010xqd.1_Silent_p.L173L	NM_001098819	NP_001092289	Q08493	PDE4C_HUMAN	phosphodiesterase 4C isoform PDE4C-2	404					signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|skin(2)|central_nervous_system(1)	5					Dyphylline(DB00651)	CGGGCGTAGCCAGCAGCACAT	0.667													27	187	---	---	---	---	PASS	T	18329162	T	T	18329162	2	4	31	1	0	0	0	0	0	0	0	1	11641	581	21	3		3	PDE4C	19	18329162	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	9283510	18329162	40799821	104	12938										
FXYD5	53827	broad.mit.edu	37	chr19	35649254	35649254	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ttctggactccagatgcagtCtacacagaactccagcccac	7	15	2	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr19:35649254C>G	uc002nyg.1	+	4	236	c.150C>G	c.(148-150)GTC>GTG	p.V50V	FXYD5_uc010xsq.1_Silent_p.V50V|FXYD5_uc002nyh.1_Silent_p.V50V	NM_014164	NP_054883	Q96DB9	FXYD5_HUMAN	FXYD domain-containing ion transport regulator 5	50	Extracellular (Potential).				microvillus assembly|negative regulation of calcium-dependent cell-cell adhesion	integral to membrane	actin binding|cadherin binding|ion channel activity				0	all_lung(56;9.4e-09)|Lung NSC(56;1.4e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.75e-22)|OV - Ovarian serous cystadenocarcinoma(14;3.17e-20)|all cancers(14;7.07e-19)|LUSC - Lung squamous cell carcinoma(66;0.0221)			CAGATGCAGTCTACACAGAAC	0.547													13	110	---	---	---	---	PASS	G	35649254	G	G	35649254	2	3	31	1	0	0	0	0	0	0	0	1	6121	900	32	2		2	FXYD5	19	35649254	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	17320092	35649254	23479729	105	12939										
ZFP14	57677	broad.mit.edu	37	chr19	36832035	36832035	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gtaaaggccttcccacactcCttacattcatagggtttctc	6	13	2	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr19:36832035C>G	uc002odx.1	-	4	786	c.693G>C	c.(691-693)AAG>AAC	p.K231N	ZFP14_uc010xtd.1_Missense_Mutation_p.K232N|ZFP14_uc010eex.1_Missense_Mutation_p.K231N	NM_020917	NP_065968	Q9HCL3	ZFP14_HUMAN	zinc finger protein 14-like	231	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.162)					TCCCACACTCCTTACATTCAT	0.443													22	110	---	---	---	---	PASS	G	36832035	G	G	36832035	3	3	31	1	0	0	0	0	1	0	0	0	17636	680	24	4	912	4	ZFP14	19	36832035	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	1182781	36832035	22296948	106	12940										
ZNF570	148268	broad.mit.edu	37	chr19	37966894	37966894	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tgatgctagagaactacaggAtcttggtatcactgggtaag	12	6	2	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr19:37966894A>T	uc002ogk.1	+	3	674	c.145A>T	c.(145-147)ATC>TTC	p.I49F	ZNF570_uc010efl.1_Missense_Mutation_p.I105F|ZNF570_uc010xtr.1_5'UTR	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	49	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAACTACAGGATCTTGGTATC	0.418													24	110	---	---	---	---	PASS	T	37966894	T	T	37966894	3	4	31	1	0	0	0	0	1	0	0	0	17999	333	12	5	151	5	ZNF570	19	37966894	Missense_Mutation	SNP	A	TCGA-22-1011-01A-01D-1521-08	1134859	37966894	21162089	107	12941										
ZNF571	51276	broad.mit.edu	37	chr19	38055940	38055940	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	accatgaattttctcatgttGagtaagatatgcaacacgaa	7	7	1	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr19:38055940G>C	uc002ogt.2	-	4	1491	c.1390C>G	c.(1390-1392)CAA>GAA	p.Q464E	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Missense_Mutation_p.Q464E	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	464	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTCTCATGTTGAGTAAGATAT	0.363													18	106	---	---	---	---	PASS	C	38055940	C	C	38055940	3	2	31	1	0	0	0	0	1	0	0	0	18000	1299	45	2	443	2	ZNF571	19	38055940	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	89046	38055940	21073043	108	12942										
ZNF571	51276	broad.mit.edu	37	chr19	38056864	38056864	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	attatgattttcctcatgttGaataaggcatgacaggtagc	9	6	1	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr19:38056864G>C	uc002ogt.2	-	4	567	c.466C>G	c.(466-468)CAA>GAA	p.Q156E	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Missense_Mutation_p.Q156E	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	156	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCCTCATGTTGAATAAGGCAT	0.343													20	82	---	---	---	---	PASS	C	38056864	C	C	38056864	3	2	31	1	0	0	0	0	1	0	0	0	18000	1299	45	2	1367	2	ZNF571	19	38056864	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	924	38056864	21072119	109	12943										
ZNF780B	163131	broad.mit.edu	37	chr19	40541731	40541731	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tgatgtcgaacaagctttgtCagaagagtaaaggcctttct	10	7	2	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr19:40541731C>G	uc002omu.2	-	5	1100	c.1035G>C	c.(1033-1035)CTG>CTC	p.L345L	ZNF780B_uc002omv.2_Silent_p.L197L	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	345	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					CAAGCTTTGTCAGAAGAGTAA	0.438													11	98	---	---	---	---	PASS	G	40541731	G	G	40541731	2	3	31	1	0	0	0	0	0	0	0	1	18150	813	29	2		2	ZNF780B	19	40541731	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	2484867	40541731	18587252	110	12944										
SERTAD1	29950	broad.mit.edu	37	chr19	40928838	40928838	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ctcgtccagctccggagcttCctccttgcccggcccatcct	8	20	0	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr19:40928838C>T	uc002ont.3	-	2	775	c.616G>A	c.(616-618)GAA>AAA	p.E206K		NM_013376	NP_037508	Q9UHV2	SRTD1_HUMAN	SERTA domain containing 1	206					positive regulation of cell proliferation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TCCGGAGCTTCCTCCTTGCCC	0.612													4	44	---	---	---	---	PASS	T	40928838	T	T	40928838	3	4	31	1	0	0	0	0	1	0	0	0	14120	864	30	2	98	2	SERTAD1	19	40928838	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	387107	40928838	18200145	111	12945										
SPTBN4	57731	broad.mit.edu	37	chr19	40993680	40993680	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gcccgcgtgggctgccacatCggggacctctatgtggacct	14	14	1	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr19:40993680C>T	uc002ony.2	+	3	332	c.246C>T	c.(244-246)ATC>ATT	p.I82I	SPTBN4_uc002onx.2_Silent_p.I82I|SPTBN4_uc002onz.2_Silent_p.I82I	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	82	CH 1.|Actin-binding.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GCTGCCACATCGGGGACCTCT	0.657													17	76	---	---	---	---	PASS	T	40993680	T	T	40993680	2	4	31	1	0	0	0	0	0	0	0	1	15120	874	31	2		2	SPTBN4	19	40993680	Silent	SNP	C	TCGA-22-1011-01A-01D-1521-08	64842	40993680	18135303	112	12946										
PSG6	5675	broad.mit.edu	37	chr19	43420433	43420433	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tcgtccactgtaggcaggccCatatataatttgaccgtgta	9	10	0	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr19:43420433C>G	uc002ovj.1	-	2	323	c.271G>C	c.(271-273)GGG>CGG	p.G91R	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG6_uc002ovf.1_Missense_Mutation_p.G91R|PSG6_uc002ovg.1_Missense_Mutation_p.G91R	NM_002782	NP_002773	Q00889	PSG6_HUMAN	pregnancy specific beta-1-glycoprotein 6 isoform	91	Ig-like V-type.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				TAGGCAGGCCCATATATAATT	0.443													67	452	---	---	---	---	PASS	G	43420433	G	G	43420433	3	3	31	1	0	0	0	0	1	0	0	0	12659	594	21	4	1095	4	PSG6	19	43420433	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08	2426753	43420433	15708550	113	12947										
MYH7B	57644	broad.mit.edu	37	chr20	33589814	33589814	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	agcacgagctggatgatgcgGaggagcgggcagacatggcg	19	8	0	2			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr20:33589814G>C	uc002xbi.1	+	42	5958	c.5866G>C	c.(5866-5868)GAG>CAG	p.E1956Q		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	1914	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			GGATGATGCGGAGGAGCGGGC	0.667													19	87	---	---	---	---	PASS	C	33589814	C	C	33589814	3	2	31	1	0	0	0	0	1	0	0	0	10040	1175	41	2	6032	2	MYH7B	20	33589814	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08		33589814	29435706	114	12948										
EWSR1	2130	broad.mit.edu	37	chr22	29692264	29692264	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	gggcaacccatgatccacatCtacctggacaaggaaacagg	10	12	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chr22:29692264C>G	uc003aet.2	+	12	1528	c.1200C>G	c.(1198-1200)ATC>ATG	p.I400M	EWSR1_uc003aev.2_Missense_Mutation_p.I405M|EWSR1_uc003aew.2_Missense_Mutation_p.I344M|EWSR1_uc003aex.2_Missense_Mutation_p.I399M|EWSR1_uc003aey.2_Missense_Mutation_p.I195M|EWSR1_uc003aez.2_Missense_Mutation_p.I61M	NM_005243	NP_005234	Q01844	EWS_HUMAN	Ewing sarcoma breakpoint region 1 isoform 2	400	RRM.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	calmodulin binding|nucleotide binding|RNA binding|zinc ion binding		EWSR1/FLI1(2266)|EWSR1/ATF1(323)|EWSR1/WT1(231)|EWSR1/ERG(162)|EWSR1/NR4A3(140)|EWSR1/DDIT3(43)|EWSR1/CREB1(42)|EWSR1/FEV(10)|EWSR1/POU5F1(10)|EWSR1/ETV1(7)|EWSR1/ETV4(6)|EWSR1/ZNF384(4)|EWSR1/PBX1(3)|EWSR1/SP3(3)|EWSR1/PATZ1(2)	bone(2526)|soft_tissue(702)|skin(8)|autonomic_ganglia(4)|haematopoietic_and_lymphoid_tissue(4)|salivary_gland(2)|central_nervous_system(2)|NS(2)|pancreas(2)|lung(1)|ovary(1)	3254						TGATCCACATCTACCTGGACA	0.468			T	FLI1|ERG|ZNF278|NR4A3|FEV|ATF1|ETV1|ETV4|WT1|ZNF384|CREB1|POU5F1| PBX1	Ewing sarcoma| desmoplastic small round cell tumor |ALL|clear cell sarcoma|sarcoma|myoepithelioma								22	83	---	---	---	---	PASS	G	29692264	G	G	29692264	3	3	31	1	0	0	0	0	1	0	0	0	5296	903	32	2	1363	2	EWSR1	22	29692264	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08		29692264	21612302	115	12949										
UBA1	7317	broad.mit.edu	37	chrX	47070251	47070251	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	catcccttagctcacaagctCaggagcgccgttctggtctg	10	14	4	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chrX:47070251C>T	uc004dhj.3	+	19	2361	c.2210C>T	c.(2209-2211)TCA>TTA	p.S737L	UBA1_uc004dhk.3_Missense_Mutation_p.S737L|UBA1_uc004dhm.2_Missense_Mutation_p.S185L	NM_153280	NP_695012	P22314	UBA1_HUMAN	ubiquitin-activating enzyme E1	737					cell death|protein modification process		ATP binding|ligase activity|protein binding|small protein activating enzyme activity			ovary(1)	1						CTCACAAGCTCAGGAGCGCCG	0.542													9	13	---	---	---	---	PASS	T	47070251	T	T	47070251	3	4	31	1	0	0	0	0	1	0	0	0	16824	838	29	2	2280	2	UBA1	23	47070251	Missense_Mutation	SNP	C	TCGA-22-1011-01A-01D-1521-08		47070251	108200309	116	12950										
PORCN	64840	broad.mit.edu	37	chrX	48378761	48378761	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	atcacctctttctctcccacAgggctacggcatggcataca	7	15	3	0			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chrX:48378761A>T	uc010nie.1	+	15	1443	c.1285_splice	c.e15-2	p.G429_splice	PORCN_uc004djr.1_Splice_Site_p.G424_splice|PORCN_uc004djs.1_Splice_Site_p.G418_splice|PORCN_uc004djt.1_Splice_Site_p.G347_splice|PORCN_uc011mlx.1_Splice_Site_p.G347_splice|PORCN_uc004dju.1_Splice_Site_p.G287_splice|PORCN_uc004djv.1_Splice_Site_p.G429_splice|PORCN_uc004djw.1_Splice_Site_p.G423_splice|EBP_uc004djx.3_5'Flank|EBP_uc004djy.3_5'Flank|EBP_uc004djz.2_5'Flank	NM_203475	NP_982301	Q9H237	PORCN_HUMAN	porcupine isoform D						Wnt receptor signaling pathway	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(2)|central_nervous_system(1)	3						TCTCTCCCACAGGGCTACGGC	0.522													18	45	---	---	---	---	PASS	T	48378761	T	T	48378761	5	4	31	1	0	0	0	0	0	0	1	0	12258	202	7	5	1337	5	PORCN	23	48378761	Splice_Site	SNP	A	TCGA-22-1011-01A-01D-1521-08	1308510	48378761	106891799	117	12951										
SAGE1	55511	broad.mit.edu	37	chrX	134987410	134987410	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	acctgttccatcggtttccaGatgctaccatcgctcacaat	6	14	1	1			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chrX:134987410G>T	uc004ezh.2	+	5	481	c.314_splice	c.e5-1	p.D105_splice	SAGE1_uc010nry.1_Splice_Site_p.D74_splice|SAGE1_uc011mvv.1_Splice_Site_p.D105_splice	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1											ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					TCGGTTTCCAGATGCTACCAT	0.438													25	59	---	---	---	---	PASS	T	134987410	T	T	134987410	5	4	31	1	0	0	0	0	0	0	1	0	13809	956	33	2	327	2	SAGE1	23	134987410	Splice_Site	SNP	G	TCGA-22-1011-01A-01D-1521-08	86608649	134987410	20283150	118	12952										
MAGEA3	4102	broad.mit.edu	37	chrX	151935729	151935729	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	ttgctgaagatcacaggaaaGaaatactgccaatttccgac	8	9	1	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chrX:151935729G>C	uc004fgp.2	-	3	647	c.438C>G	c.(436-438)TTC>TTG	p.F146L		NM_005362	NP_005353	P43357	MAGA3_HUMAN	melanoma antigen family A, 3	146	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					TCACAGGAAAGAAATACTGCC	0.517													45	103	---	---	---	---	PASS	C	151935729	C	C	151935729	3	2	31	1	0	0	0	0	1	0	0	0	9167	933	33	2	510	2	MAGEA3	23	151935729	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08	16948319	151935729	3334831	119	12953										
USP9Y	8287	broad.mit.edu	37	chrY	14922619	14922619	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.420168067226891	50	2.16156144643801e-16	3.55673133450911	4.00132275132275	3.04862685815067	0.084353506877441	0.358101819968982	36	tatttcagagcacagcaagaGagaagggtaaatattcaggt	11	5	2	3			TCGA-22-1011-01A-01D-1521-08	TCGA-22-1011-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9924f9f-fd86-434c-a83d-393d65272e64	db1a34ae-8288-4f5b-bcb9-eecbc91063ca	g.chrY:14922619G>C	uc004fst.1	+	29	5050	c.4105G>C	c.(4105-4107)GAG>CAG	p.E1369Q	USP9Y_uc010nwu.1_RNA	NM_004654	NP_004645	O00507	USP9Y_HUMAN	ubiquitin specific protease 9, Y-linked	1369					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						CACAGCAAGAGAGAAGGGTAA	0.318													3	23	---	---	---	---	PASS	C	14922619	C	C	14922619	3	2	31	1	0	0	0	0	1	0	0	0	17088	943	33	2	4211	2	USP9Y	24	14922619	Missense_Mutation	SNP	G	TCGA-22-1011-01A-01D-1521-08		14922619	44450947	120	12954										
PRDM16	63976	broad.mit.edu	37	chr1	3347564	3347564	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ggacagcctggccgggaagtCgcaggatgacaccgtgtccc	15	13	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:3347564C>G	uc001akf.2	+	15	3493	c.3413C>G	c.(3412-3414)TCG>TGG	p.S1138W	PRDM16_uc001akc.2_Missense_Mutation_p.S1137W|PRDM16_uc001akd.2_Missense_Mutation_p.S1137W|PRDM16_uc001ake.2_Missense_Mutation_p.S1138W|PRDM16_uc009vlh.2_Missense_Mutation_p.S838W	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	1138	Mediates interaction with SKI and regulation of TGF-beta signaling.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		GCCGGGAAGTCGCAGGATGAC	0.493			T	EVI1	MDS|AML								3	11	---	---	---	---	PASS	G	3347564	G	G	3347564	3	3	32	1	0	0	0	0	1	0	0	0	12457	893	31	2	3471	2	PRDM16	1	3347564	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08		3347564	245903057	1	12955										
CCDC27	148870	broad.mit.edu	37	chr1	3683924	3683924	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cctgcagaggtggaagcagcTgcaggaggatttgcagagca	16	8	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:3683924T>C	uc001akv.2	+	10	1739	c.1658T>C	c.(1657-1659)CTG>CCG	p.L553P		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	553										skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		TGGAAGCAGCTGCAGGAGGAT	0.597													10	67	---	---	---	---	PASS	C	3683924	C	C	3683924	3	2	32	1	0	0	0	0	1	0	0	0	2801	1580	55	5	1696	5	CCDC27	1	3683924	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	336360	3683924	245566697	2	12956										
CA6	765	broad.mit.edu	37	chr1	9022676	9022676	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	accctgaaaacacttattacAgcaacttcatttctcatctg	3	12	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:9022676A>G	uc001apm.2	+	5	556	c.532A>G	c.(532-534)AGC>GGC	p.S178G	CA6_uc009vmn.2_Missense_Mutation_p.S118G	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	178					one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)		CACTTATTACAGCAACTTCAT	0.498													24	148	---	---	---	---	PASS	G	9022676	G	G	9022676	3	3	32	1	0	0	0	0	1	0	0	0	2521	188	7	5	550	5	CA6	1	9022676	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	5338752	9022676	240227945	3	12957										
EPHA8	2046	broad.mit.edu	37	chr1	22923930	22923930	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gcagtttcactcgggagatcGaggcctctaggatccacatc	11	12	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:22923930G>C	uc001bfx.1	+	10	2016	c.1891G>C	c.(1891-1893)GAG>CAG	p.E631Q		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	631	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TCGGGAGATCGAGGCCTCTAG	0.652													4	175	---	---	---	---	PASS	C	22923930	C	C	22923930	3	2	32	1	0	0	0	0	1	0	0	0	5173	1059	37	2	2102	2	EPHA8	1	22923930	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	13901254	22923930	226326691	4	12958										
CNKSR1	10256	broad.mit.edu	37	chr1	26513718	26513718	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agtctggaaagtggacatgaTcagaagaagaaatagttaag	12	3	2	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:26513718T>G	uc001bln.3	+	15	1447	c.1389T>G	c.(1387-1389)GAT>GAG	p.D463E	CNKSR1_uc001blm.3_Missense_Mutation_p.D456E|CNKSR1_uc009vsd.2_Missense_Mutation_p.D198E|CNKSR1_uc009vse.2_Missense_Mutation_p.D198E|CNKSR1_uc001blo.2_Missense_Mutation_p.D198E	NM_006314	NP_006305	Q969H4	CNKR1_HUMAN	connector enhancer of kinase suppressor of Ras	463	PH.				Rho protein signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cell cortex|cell-cell junction	protein binding, bridging			lung(1)|kidney(1)	2		Colorectal(325;3.46e-05)|all_lung(284;0.000116)|Lung NSC(340;0.000154)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.72e-26)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|BRCA - Breast invasive adenocarcinoma(304;0.000959)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00823)|READ - Rectum adenocarcinoma(331;0.0649)		GTGGACATGATCAGAAGAAGA	0.527													18	45	---	---	---	---	PASS	G	26513718	G	G	26513718	3	3	32	1	0	0	0	0	1	0	0	0	3606	1432	50	5	1426	5	CNKSR1	1	26513718	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	3589788	26513718	222736903	5	12959										
BAI2	576	broad.mit.edu	37	chr1	32196407	32196407	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctacagcccctcacctccagGgagcccatcttcatggtaga	8	16	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:32196407G>T	uc001btn.2	-	29	4728	c.4374C>A	c.(4372-4374)TCC>TCA	p.S1458S	BAI2_uc001btm.2_Silent_p.S452S|BAI2_uc001btp.1_Silent_p.S452S|BAI2_uc010ogn.1_Silent_p.S428S|BAI2_uc010ogo.1_Silent_p.S1067S|BAI2_uc010ogp.1_Silent_p.S1391S|BAI2_uc010ogq.1_Silent_p.S1425S|BAI2_uc001bto.2_Silent_p.S1458S	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	1458	Cytoplasmic (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)		TCACCTCCAGGGAGCCCATCT	0.682													28	108	---	---	---	---	PASS	T	32196407	T	T	32196407	2	4	32	1	0	0	0	0	0	0	0	1	1299	1219	43	3		3	BAI2	1	32196407	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	5682689	32196407	217054214	6	12960										
CSMD2	114784	broad.mit.edu	37	chr1	34208955	34208955	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cgagacgggccacgtggccaCtgcttgtgatggaggaggga	18	9	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:34208955C>A	uc001bxn.1	-	14	2008	c.1979G>T	c.(1978-1980)AGT>ATT	p.S660I	CSMD2_uc001bxm.1_Missense_Mutation_p.S700I	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	660	Extracellular (Potential).|CUB 4.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CACGTGGCCACTGCTTGTGAT	0.592													17	88	---	---	---	---	PASS	A	34208955	A	A	34208955	3	1	32	1	0	0	0	0	1	0	0	0	3945	565	20	3	8708	3	CSMD2	1	34208955	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	2012548	34208955	215041666	7	12961										
MACF1	23499	broad.mit.edu	37	chr1	39801075	39801075	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctgaagaaataagagaaaatCaaggggaagtgattttggaa	12	2	1	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:39801075C>G	uc010oiu.1	+	1	4266	c.4135C>G	c.(4135-4137)CAA>GAA	p.Q1379E	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2944					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)			AAGAGAAAATCAAGGGGAAGT	0.378													7	135	---	---	---	---	PASS	G	39801075	G	G	39801075	3	3	32	1	0	0	0	0	1	0	0	0	9144	827	29	2	8906	2	MACF1	1	39801075	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	5592120	39801075	209449546	8	12962										
TSPAN1	10103	broad.mit.edu	37	chr1	46650002	46650002	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cctcatcgcagccggcgttgTggtctttgctcttggtttcc	11	13	3	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:46650002T>C	uc001cpd.2	+	4	661	c.197T>C	c.(196-198)GTG>GCG	p.V66A	TSPAN1_uc009vyd.1_Missense_Mutation_p.V66A	NM_005727	NP_005718	O60635	TSN1_HUMAN	tetraspan 1	66	Helical; (Potential).					integral to membrane|lysosomal membrane				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Medulloblastoma(700;0.00498)|all_neural(321;0.0212)				GCCGGCGTTGTGGTCTTTGCT	0.557													5	75	---	---	---	---	PASS	C	46650002	C	C	46650002	3	2	32	1	0	0	0	0	1	0	0	0	16630	1696	59	5	203	5	TSPAN1	1	46650002	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	6848927	46650002	202600619	9	12963										
NFIA	4774	broad.mit.edu	37	chr1	61824824	61824824	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	catttgttatttcagctccaCaaagcgcctcaagtctgtgg	8	11	3	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:61824824C>G	uc001czw.2	+	6	1308	c.824C>G	c.(823-825)ACA>AGA	p.T275R	NFIA_uc001czy.2_Missense_Mutation_p.T267R|NFIA_uc010oos.1_Missense_Mutation_p.T320R|NFIA_uc001czv.2_Missense_Mutation_p.T275R	NM_001134673	NP_001128145	Q12857	NFIA_HUMAN	nuclear factor I/A isoform 1	275					DNA replication|viral genome replication	cell junction|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)|skin(1)	2						TTCAGCTCCACAAAGCGCCTC	0.502													6	394	---	---	---	---	PASS	G	61824824	G	G	61824824	3	3	32	1	0	0	0	0	1	0	0	0	10370	478	17	4	992	4	NFIA	1	61824824	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	15174822	61824824	187425797	10	12964										
C1orf173	127254	broad.mit.edu	37	chr1	75055466	75055466	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tctgcaatctcttgggttccTttctccgttccttctttaag	6	12	4	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:75055466T>A	uc001dgg.2	-	12	2244	c.2025A>T	c.(2023-2025)AAA>AAT	p.K675N	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.K469N	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	675	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTTGGGTTCCTTTCTCCGTTC	0.408													37	185	---	---	---	---	PASS	A	75055466	A	A	75055466	3	1	32	1	0	0	0	0	1	0	0	0	2014	1606	56	5	2579	5	C1orf173	1	75055466	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	13230642	75055466	174195155	11	12965										
FAM73A	374986	broad.mit.edu	37	chr1	78272736	78272736	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	caaagcagatgaagatgataTtaaacttgttaatattcctg	7	5	0	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:78272736T>C	uc001dhx.2	+	5	619	c.587T>C	c.(586-588)ATT>ACT	p.I196T	FAM73A_uc010ork.1_Missense_Mutation_p.I196T|FAM73A_uc010orl.1_Missense_Mutation_p.I158T|FAM73A_uc001dhy.1_5'UTR	NM_198549	NP_940951	Q8NAN2	FA73A_HUMAN	hypothetical protein LOC374986	196						integral to membrane				ovary(1)	1				Colorectal(170;0.226)		GAAGATGATATTAAACTTGTT	0.343													7	178	---	---	---	---	PASS	C	78272736	C	C	78272736	3	2	32	1	0	0	0	0	1	0	0	0	5617	1493	52	5	605	5	FAM73A	1	78272736	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	3217270	78272736	170977885	12	12966										
ELTD1	64123	broad.mit.edu	37	chr1	79403966	79403966	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gttcttttatggatctgatcTgagaaaaaatgagtccagaa	9	5	3	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:79403966T>G	uc001diq.3	-	5	553	c.397_splice	c.e5-1	p.I133_splice		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain						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)		GGATCTGATCTGAGAAAAAAT	0.313													9	41	---	---	---	---	PASS	G	79403966	G	G	79403966	5	3	32	1	0	0	0	0	0	0	1	0	5084	1594	55	5	1721	5	ELTD1	1	79403966	Splice_Site	SNP	T	TCGA-22-1012-01A-01D-1521-08	1131230	79403966	169846655	13	12967										
CELSR2	1952	broad.mit.edu	37	chr1	109815822	109815822	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cctggcaaggccccctggccAggagactttgggaccacagc	13	15	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:109815822A>T	uc001dxa.3	+	32	8434	c.8373A>T	c.(8371-8373)CCA>CCT	p.P2791P		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2791	Cytoplasmic (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		CCCCCTGGCCAGGAGACTTTG	0.647													31	95	---	---	---	---	PASS	T	109815822	T	T	109815822	2	4	32	1	0	0	0	0	0	0	0	1	3222	175	7	5		5	CELSR2	1	109815822	Silent	SNP	A	TCGA-22-1012-01A-01D-1521-08	30411856	109815822	139434799	14	12968										
FLG	2312	broad.mit.edu	37	chr1	152277174	152277174	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtccgcccatgggcagactcAgactgttcatgagtgctcac	11	13	3	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:152277174A>T	uc001ezu.1	-	3	10224	c.10188T>A	c.(10186-10188)TCT>TCA	p.S3396S		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3396	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGGCAGACTCAGACTGTTCAT	0.612									Ichthyosis				128	608	---	---	---	---	PASS	T	152277174	T	T	152277174	2	4	32	1	0	0	0	0	0	0	0	1	5922	175	7	5		5	FLG	1	152277174	Silent	SNP	A	TCGA-22-1012-01A-01D-1521-08	42461352	152277174	96973447	15	12969										
ETV3	2117	broad.mit.edu	37	chr1	157104020	157104020	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tcctcttgttgtaatagtatCtgtaaaaacaggaatacatg	7	6	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:157104020C>A	uc001fqr.2	-	4	574	c.285_splice	c.e4-1	p.R95_splice	ETV3_uc001fqt.2_Intron	NM_001145312	NP_001138784	P41162	ETV3_HUMAN	ets variant gene 3 isoform 1								sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(266;0.158)	Prostate(1639;0.174)				GTAATAGTATCTGTAAAAACA	0.368													22	78	---	---	---	---	PASS	A	157104020	A	A	157104020	5	1	32	1	0	0	0	0	0	0	1	0	5279	927	32	2	1294	2	ETV3	1	157104020	Splice_Site	SNP	C	TCGA-22-1012-01A-01D-1521-08	4826846	157104020	92146601	16	12970										
CD1D	912	broad.mit.edu	37	chr1	158151509	158151509	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cgccaaaatgctacgcttatCctgtgagctgagggatagga	12	9	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:158151509C>G	uc001frr.2	+	3	825	c.326C>G	c.(325-327)TCC>TGC	p.S109C	CD1D_uc009wsr.1_Missense_Mutation_p.S109C|CD1D_uc009wss.2_Missense_Mutation_p.S109C|CD1D_uc009wst.1_Missense_Mutation_p.S5C	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	109	Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					CTACGCTTATCCTGTGAGCTG	0.532													16	122	---	---	---	---	PASS	G	158151509	G	G	158151509	3	3	32	1	0	0	0	0	1	0	0	0	2977	855	30	2	332	2	CD1D	1	158151509	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	1047489	158151509	91099112	17	12971										
PEA15	8682	broad.mit.edu	37	chr1	160182942	160182942	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	catctttgagatctcccgccGtcctgacctactcactatgg	7	15	3	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:160182942G>A	uc001fvk.2	+	3	405	c.215G>A	c.(214-216)CGT>CAT	p.R72H	PEA15_uc001fvl.2_Missense_Mutation_p.R93H|PEA15_uc001fvm.2_Missense_Mutation_p.R50H	NM_003768	NP_003759	Q15121	PEA15_HUMAN	phosphoprotein enriched in astrocytes 15	72	DED.				anti-apoptosis|apoptosis|carbohydrate transport|negative regulation of glucose import	cytoplasm|microtubule associated complex	protein binding				0	all_cancers(52;3.11e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			ATCTCCCGCCGTCCTGACCTA	0.542													22	264	---	---	---	---	PASS	A	160182942	A	A	160182942	3	1	32	1	0	0	0	0	1	0	0	0	11711	1145	40	1	221	1	PEA15	1	160182942	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	2031433	160182942	89067679	18	12972										
NCSTN	23385	broad.mit.edu	37	chr1	160319459	160319459	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cagtgcccaaatgatgggttTggtaagtgtcccaaaggatc	12	8	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:160319459T>C	uc001fvx.2	+	4	559	c.435T>C	c.(433-435)TTT>TTC	p.F145F	NCSTN_uc009wtk.1_RNA|NCSTN_uc001fvy.2_Silent_p.F125F|NCSTN_uc010pjf.1_Silent_p.F145F|NCSTN_uc001fvz.2_5'Flank|NCSTN_uc010pjg.1_5'Flank	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	145	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			ATGATGGGTTTGGTAAGTGTC	0.507													47	95	---	---	---	---	PASS	C	160319459	C	C	160319459	2	2	32	1	0	0	0	0	0	0	0	1	10241	1826	63	5		5	NCSTN	1	160319459	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	136517	160319459	88931162	19	12973										
POU2F1	5451	broad.mit.edu	37	chr1	167343475	167343475	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgctggagccaccatctccgCctctgctgccacgcccatga	9	18	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:167343475C>G	uc001gec.2	+	7	626	c.464C>G	c.(463-465)GCC>GGC	p.A155G	POU2F1_uc010plg.1_RNA|POU2F1_uc001ged.2_Missense_Mutation_p.A153G|POU2F1_uc001gee.2_Missense_Mutation_p.A155G|POU2F1_uc010plh.1_Intron|POU2F1_uc001gef.2_Missense_Mutation_p.A167G|POU2F1_uc001geg.2_Missense_Mutation_p.A53G	NM_002697	NP_002688	P14859	PO2F1_HUMAN	POU class 2 homeobox 1	155					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|skin(2)|breast(1)	5						ACCATCTCCGCCTCTGCTGCC	0.622													17	38	---	---	---	---	PASS	G	167343475	G	G	167343475	3	3	32	1	0	0	0	0	1	0	0	0	12271	739	26	4	482	4	POU2F1	1	167343475	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	7024016	167343475	81907146	20	12974										
SELP	6403	broad.mit.edu	37	chr1	169564103	169564103	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gcttattaacatgtagttctGagcatttcacagctgcagaa	8	8	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:169564103G>T	uc001ggi.3	-	13	2179	c.2114C>A	c.(2113-2115)TCA>TAA	p.S705*	SELP_uc001ggh.2_Nonsense_Mutation_p.S540*|SELP_uc009wvr.2_Nonsense_Mutation_p.S705*	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	705	Extracellular (Potential).|Sushi 9.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	ATGTAGTTCTGAGCATTTCAC	0.398													11	91	---	---	---	---	PASS	T	169564103	T	T	169564103	4	4	32	1	0	0	0	0	0	1	0	0	14019	1294	45	2	394	2	SELP	1	169564103	Nonsense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	2220628	169564103	79686518	21	12975										
CFHR5	81494	broad.mit.edu	37	chr1	196973805	196973805	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttccagagtctactgcatatTgtgggccccctccatctatt	7	13	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:196973805T>C	uc001gts.3	+	9	1473	c.1345T>C	c.(1345-1347)TGT>CGT	p.C449R		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	449	Sushi 8.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						TACTGCATATTGTGGGCCCCC	0.368													7	238	---	---	---	---	PASS	C	196973805	C	C	196973805	3	2	32	1	0	0	0	0	1	0	0	0	3288	1812	63	5	1379	5	CFHR5	1	196973805	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	27409702	196973805	52276816	22	12976										
CHIT1	1118	broad.mit.edu	37	chr1	203188958	203188958	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	caggggtccccttctgcagcCactgttgcacagcagcatcc	10	16	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:203188958C>T	uc001gzn.2	-	8	845	c.749G>A	c.(748-750)TGG>TAG	p.W250*	FMOD_uc010pqi.1_Intron|CHIT1_uc001gzm.1_RNA|CHIT1_uc009xal.1_Nonsense_Mutation_p.W41*|CHIT1_uc009xam.1_RNA|CHIT1_uc009xan.1_RNA|CHIT1_uc001gzo.2_Nonsense_Mutation_p.W241*	NM_003465	NP_003456	Q13231	CHIT1_HUMAN	chitotriosidase precursor	250					chitin catabolic process|immune response|response to bacterium	extracellular space|lysosome	cation binding|chitin binding|endochitinase activity				0						CTTCTGCAGCCACTGTTGCAC	0.582											OREG0006436	type=TRANSCRIPTION FACTOR BINDING SITE|Gene=CHIT1|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	25	42	---	---	---	---	PASS	T	203188958	T	T	203188958	4	4	32	1	0	0	0	0	0	1	0	0	3346	595	21	3	667	3	CHIT1	1	203188958	Nonsense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	6215153	203188958	46061663	23	12977										
PLEKHA6	22874	broad.mit.edu	37	chr1	204228610	204228610	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgggcaggctgttccccaccCcctggcactcttgggccctc	11	18	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:204228610C>A	uc001hau.2	-	8	1100	c.783G>T	c.(781-783)GGG>GGT	p.G261G	PLEKHA6_uc009xaw.1_5'Flank|PLEKHA6_uc009xax.1_5'Flank|PLEKHA6_uc009xay.1_5'Flank|PLEKHA6_uc009xaz.1_5'Flank|PLEKHA6_uc009xba.1_5'Flank|PLEKHA6_uc009xbb.1_5'Flank|PLEKHA6_uc009xbc.1_5'Flank	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	261	Pro-rich.									ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			GTTCCCCACCCCCTGGCACTC	0.662													31	68	---	---	---	---	PASS	A	204228610	A	A	204228610	2	1	32	1	0	0	0	0	0	0	0	1	12060	610	22	3		3	PLEKHA6	1	204228610	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	1039652	204228610	45022011	24	12978										
EPRS	2058	broad.mit.edu	37	chr1	220170329	220170329	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tctctaacatactgaccttaGgggatttttcagcttttagc	7	9	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:220170329G>A	uc001hly.1	-	18	2807	c.2537C>T	c.(2536-2538)CCT>CTT	p.P846L	EPRS_uc010puf.1_Missense_Mutation_p.P597L|EPRS_uc001hlz.1_Missense_Mutation_p.P853L	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	846	WHEP-TRS 2.|3 X 57 AA approximate repeats.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	ACTGACCTTAGGGGATTTTTC	0.388													76	278	---	---	---	---	PASS	A	220170329	A	A	220170329	3	1	32	1	0	0	0	0	1	0	0	0	5191	1000	35	3	2061	3	EPRS	1	220170329	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	15941719	220170329	29080292	25	12979										
EPRS	2058	broad.mit.edu	37	chr1	220179484	220179484	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acatactgcttaaagtcctcGtcttttcctagcactggctt	6	12	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:220179484G>C	uc001hly.1	-	15	2184	c.1914C>G	c.(1912-1914)GAC>GAG	p.D638E	EPRS_uc010puf.1_Missense_Mutation_p.D389E|EPRS_uc001hlz.1_Missense_Mutation_p.D645E|EPRS_uc009xdt.1_Intron	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	638	Glutamyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	TAAAGTCCTCGTCTTTTCCTA	0.363													53	191	---	---	---	---	PASS	C	220179484	C	C	220179484	3	2	32	1	0	0	0	0	1	0	0	0	5191	1136	40	4	2696	4	EPRS	1	220179484	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	9155	220179484	29071137	26	12980										
EPRS	2058	broad.mit.edu	37	chr1	220198593	220198593	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agcttttgcatgcccaatgtGtaagtaactaaaacaaaaac	6	8	0	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:220198593G>T	uc001hly.1	-	7	901	c.631C>A	c.(631-633)CAC>AAC	p.H211N	EPRS_uc010puf.1_5'UTR|EPRS_uc001hlz.1_Missense_Mutation_p.H211N|EPRS_uc009xdt.1_Missense_Mutation_p.H12N	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	211	Glutamyl-tRNA synthetase.|"HIGH" region.	ATP (By similarity).			glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	TGCCCAATGTGTAAGTAACTA	0.323													16	73	---	---	---	---	PASS	T	220198593	T	T	220198593	3	4	32	1	0	0	0	0	1	0	0	0	5191	1377	48	3	4011	3	EPRS	1	220198593	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	19109	220198593	29052028	27	12981										
ARF1	375	broad.mit.edu	37	chr1	228285654	228285654	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	caggccacctgcgccaccagCggcgacgggctctatgaagg	14	15	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:228285654C>T	uc001hrr.2	+	5	714	c.486C>T	c.(484-486)AGC>AGT	p.S162S	ARF1_uc001hrs.2_Silent_p.S162S|ARF1_uc001hrt.2_Missense_Mutation_p.R84W|ARF1_uc009xev.2_RNA|ARF1_uc001hru.2_Silent_p.S162S|ARF1_uc001hrv.2_Silent_p.S162S|ARF1_uc001hrw.2_Silent_p.S162S	NM_001024226	NP_001019397	P84077	ARF1_HUMAN	ADP-ribosylation factor 1	162					cellular copper ion homeostasis|COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|protein transport|regulation of defense response to virus by virus|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction|viral reproduction	cytosol|Golgi membrane|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity|protein binding|receptor signaling protein activity				0		Prostate(94;0.0405)				GCGCCACCAGCGGCGACGGGC	0.612													4	100	---	---	---	---	PASS	T	228285654	T	T	228285654	2	4	32	1	0	0	0	0	0	0	0	1	844	767	27	1		1	ARF1	1	228285654	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	8087061	228285654	20964967	28	12982										
KIAA1804	84451	broad.mit.edu	37	chr1	233482294	233482294	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aggaccaccaaaatgagcacAgcaggcacctatgcctggat	10	12	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:233482294A>T	uc001hvt.3	+	2	1173	c.912A>T	c.(910-912)ACA>ACT	p.T304T	KIAA1804_uc001hvs.1_Silent_p.T304T	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	304	Protein kinase.				activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				AAATGAGCACAGCAGGCACCT	0.463													53	100	---	---	---	---	PASS	T	233482294	T	T	233482294	2	4	32	1	0	0	0	0	0	0	0	1	8259	175	7	5		5	KIAA1804	1	233482294	Silent	SNP	A	TCGA-22-1012-01A-01D-1521-08	5196640	233482294	15768327	29	12983										
HNRNPU	3192	broad.mit.edu	37	chr1	245018908	245018908	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atatccgccacgattcccagGggctaaaagacaagagctgt	10	11	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:245018908G>A	uc001iaz.1	-	12	2388	c.2170C>T	c.(2170-2172)CCT>TCT	p.P724S	HNRNPU_uc001iaw.1_RNA|HNRNPU_uc001iax.1_RNA|HNRNPU_uc001iay.1_Missense_Mutation_p.P448S|HNRNPU_uc001iba.1_Missense_Mutation_p.P705S	NM_031844	NP_114032	Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U	724	RNA-binding RGG-box.|Gly-rich.				CRD-mediated mRNA stabilization	catalytic step 2 spliceosome|cell surface|CRD-mediated mRNA stability complex|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	ATP binding|DNA binding|protein binding|RNA binding				0	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			CGATTCCCAGGGGCTAAAAGA	0.463													23	124	---	---	---	---	PASS	A	245018908	A	A	245018908	3	1	32	1	0	0	0	0	1	0	0	0	7273	1232	43	3	319	3	HNRNPU	1	245018908	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	11536614	245018908	4231713	30	12984										
SMYD3	64754	broad.mit.edu	37	chr1	246027182	246027182	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctcatcaccagttagcatatCagcatcctgctcaggccaga	7	14	4	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr1:246027182C>T	uc001ibl.2	-	9	915	c.820G>A	c.(820-822)GAT>AAT	p.D274N	SMYD3_uc001ibk.2_Missense_Mutation_p.D215N|SMYD3_uc001ibi.2_Missense_Mutation_p.D85N|SMYD3_uc001ibj.2_Missense_Mutation_p.D85N	NM_022743	NP_073580	Q9H7B4	SMYD3_HUMAN	SET and MYND domain containing 3	274						cytoplasm|nucleus	histone-lysine N-methyltransferase activity|protein binding|zinc ion binding				0	all_cancers(71;0.000291)|all_epithelial(71;0.000174)|Ovarian(71;0.0377)|all_lung(81;0.0568)|Lung NSC(105;0.0804)|Breast(184;0.173)|Melanoma(84;0.242)	all_cancers(173;0.0496)|Acute lymphoblastic leukemia(190;0.164)	OV - Ovarian serous cystadenocarcinoma(106;0.0129)	all cancers(4;0.028)|GBM - Glioblastoma multiforme(49;0.0537)		GTTAGCATATCAGCATCCTGC	0.284													9	98	---	---	---	---	PASS	T	246027182	T	T	246027182	3	4	32	1	0	0	0	0	1	0	0	0	14823	826	29	2	482	2	SMYD3	1	246027182	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	1008274	246027182	3223439	31	12985										
MYT1L	23040	broad.mit.edu	37	chr2	1842948	1842948	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtgtgaggaagctgccgctgAcgtggcctgagccgtcgcat	16	11	0	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:1842948A>G	uc002qxe.2	-	21	3880	c.3053T>C	c.(3052-3054)GTC>GCC	p.V1018A	MYT1L_uc002qxd.2_Missense_Mutation_p.V1016A|MYT1L_uc010ewk.2_Missense_Mutation_p.V14A	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	1018	C2HC-type 6.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		GCTGCCGCTGACGTGGCCTGA	0.652													4	22	---	---	---	---	PASS	G	1842948	G	G	1842948	3	3	32	1	0	0	0	0	1	0	0	0	10107	275	10	5	527	5	MYT1L	2	1842948	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08		1842948	241356425	32	12986										
TMEM214	54867	broad.mit.edu	37	chr2	27260540	27260540	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tctttcctgtccagagccacCcctagctgtccccctgagat	7	17	1	2	rs77468296	byFrequency	TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:27260540C>T	uc002ria.3	+	9	1232	c.1122C>T	c.(1120-1122)ACC>ACT	p.T374T	TMEM214_uc010yle.1_RNA|TMEM214_uc002rib.3_Silent_p.T329T	NM_017727	NP_060197	Q6NUQ4	TM214_HUMAN	transmembrane protein 214 isoform 1	374						integral to membrane	protein binding				0						CCAGAGCCACCCCTAGCTGTC	0.552													24	169	---	---	---	---	PASS	T	27260540	T	T	27260540	2	4	32	1	0	0	0	0	0	0	0	1	16134	610	22	3		3	TMEM214	2	27260540	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	25417592	27260540	215938833	33	12987										
TTC27	55622	broad.mit.edu	37	chr2	32927940	32927940	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgatcctccggacaaaacttGagaaaggaagtactcgccga	10	10	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:32927940G>C	uc002rom.2	+	10	1417	c.1186G>C	c.(1186-1188)GAG>CAG	p.E396Q	TTC27_uc010ymx.1_Missense_Mutation_p.E346Q	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	396							protein binding			central_nervous_system(1)	1						GACAAAACTTGAGAAAGGAAG	0.433													27	225	---	---	---	---	PASS	C	32927940	C	C	32927940	3	2	32	1	0	0	0	0	1	0	0	0	16692	1291	45	2	1224	2	TTC27	2	32927940	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	5667400	32927940	210271433	34	12988										
RASGRP3	25780	broad.mit.edu	37	chr2	33752259	33752259	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cggcaattactgcaattaccGcaaggcctttgccgactgcg	10	13	0	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:33752259G>T	uc002rox.2	+	11	1490	c.863G>T	c.(862-864)CGC>CTC	p.R288L	RASGRP3_uc010ync.1_Missense_Mutation_p.R288L|RASGRP3_uc002roy.2_Missense_Mutation_p.R288L	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	288	Ras-GEF.				MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					TGCAATTACCGCAAGGCCTTT	0.458													7	71	---	---	---	---	PASS	T	33752259	T	T	33752259	3	4	32	1	0	0	0	0	1	0	0	0	13076	1087	38	1	893	1	RASGRP3	2	33752259	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	824319	33752259	209447114	35	12989										
MAP4K3	8491	broad.mit.edu	37	chr2	39485574	39485574	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccttggagatttactattttTatacaacctagaggaaaaaa	6	6	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:39485574T>C	uc002rro.2	-	31	2476	c.2385A>G	c.(2383-2385)ATA>ATG	p.I795M	MAP4K3_uc002rrp.2_Missense_Mutation_p.I774M|MAP4K3_uc010yns.1_Missense_Mutation_p.I348M	NM_003618	NP_003609	Q8IVH8	M4K3_HUMAN	mitogen-activated protein kinase kinase kinase	795	CNH.				JNK cascade		ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(3)|lung(3)|stomach(1)|pancreas(1)	8		all_hematologic(82;0.211)				TTACTATTTTTATACAACCTA	0.294													23	70	---	---	---	---	PASS	C	39485574	C	C	39485574	3	2	32	1	0	0	0	0	1	0	0	0	9261	1744	61	5	315	5	MAP4K3	2	39485574	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	5733315	39485574	203713799	36	12990										
FSHR	2492	broad.mit.edu	37	chr2	49217732	49217732	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctttttggagagaatgaatcTtgtgaacatctggaaggtgc	12	5	2	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:49217732T>A	uc002rww.2	-	5	493	c.419A>T	c.(418-420)AAG>ATG	p.K140M	FSHR_uc002rwx.2_Missense_Mutation_p.K140M|FSHR_uc010fbn.2_Missense_Mutation_p.K140M|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	140	Extracellular (Potential).|LRR 4.				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	AGAATGAATCTTGTGAACATC	0.383									Gonadal_Dysgenesis_46_XX				33	132	---	---	---	---	PASS	A	49217732	A	A	49217732	3	1	32	1	0	0	0	0	1	0	0	0	6073	1609	56	5	1692	5	FSHR	2	49217732	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	9732158	49217732	193981641	37	12991										
NRXN1	9378	broad.mit.edu	37	chr2	50723176	50723176	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttgtcattgagaggtttattTgagcttcctttgatgaggtt	11	4	1	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:50723176T>C	uc010fbq.2	-	15	4534	c.3057A>G	c.(3055-3057)TCA>TCG	p.S1019S	NRXN1_uc002rxb.3_Silent_p.S651S|NRXN1_uc002rxe.3_Silent_p.S979S|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	168	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GAGGTTTATTTGAGCTTCCTT	0.398													3	33	---	---	---	---	PASS	C	50723176	C	C	50723176	2	2	32	1	0	0	0	0	0	0	0	1	10665	1799	63	5		5	NRXN1	2	50723176	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	1505444	50723176	192476197	38	12992										
C2orf78	388960	broad.mit.edu	37	chr2	74042951	74042951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agagagagaagtggttgttgGcagtgctacagtcagtaaca	14	5	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:74042951G>T	uc002sjr.1	+	3	1722	c.1601G>T	c.(1600-1602)GGC>GTC	p.G534V		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	534										ovary(2)	2						GTGGTTGTTGGCAGTGCTACA	0.493													10	37	---	---	---	---	PASS	T	74042951	T	T	74042951	3	4	32	1	0	0	0	0	1	0	0	0	2195	1203	42	3	1611	3	C2orf78	2	74042951	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	23319775	74042951	169156422	39	12993										
UNC50	25972	broad.mit.edu	37	chr2	99234637	99234637	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cctttcttttccagcattgcCatttttgaaaaatacagtaa	4	9	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:99234637C>T	uc002szc.3	+	6	802	c.650C>T	c.(649-651)CCA>CTA	p.P217L	C2orf64_uc002sza.2_Intron|UNC50_uc002szb.2_Missense_Mutation_p.P217L|UNC50_uc010yvl.1_Missense_Mutation_p.P234L	NM_014044	NP_054763	Q53HI1	UNC50_HUMAN	unc-50 homolog	217	Cytoplasmic (Potential).				protein transport	Golgi membrane|integral to membrane|nuclear inner membrane	RNA binding				0						CCAGCATTGCCATTTTTGAAA	0.353													6	22	---	---	---	---	PASS	T	99234637	T	T	99234637	3	4	32	1	0	0	0	0	1	0	0	0	16987	594	21	3	668	3	UNC50	2	99234637	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	25191686	99234637	143964736	40	12994										
KCNJ3	3760	broad.mit.edu	37	chr2	155711809	155711809	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	caaattaagaaaaatgaactCtgatcgcttcacataacaaa	4	8	2	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:155711809C>A	uc002tyv.1	+	3	1685	c.1490C>A	c.(1489-1491)TCT>TAT	p.S497Y	KCNJ3_uc010zce.1_3'UTR	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	497	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	AAAATGAACTCTGATCGCTTC	0.418													3	23	---	---	---	---	PASS	A	155711809	A	A	155711809	3	1	32	1	0	0	0	0	1	0	0	0	8052	913	32	2	1500	2	KCNJ3	2	155711809	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	56477172	155711809	87487564	41	12995										
DPP4	1803	broad.mit.edu	37	chr2	162902048	162902048	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agcatttattttaccttcacGtagttgtattctaagagaat	6	6	2	1	rs141276765		TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:162902048G>T	uc002ubz.2	-	5	921	c.360C>A	c.(358-360)TAC>TAA	p.Y120*	DPP4_uc010fpb.2_5'UTR|DPP4_uc002uca.1_RNA|DPP4_uc002ucb.1_RNA	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	120	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	TTACCTTCACGTAGTTGTATT	0.299													48	116	---	---	---	---	PASS	T	162902048	T	T	162902048	4	4	32	1	0	0	0	0	0	1	0	0	4729	1140	40	1	2028	1	DPP4	2	162902048	Nonsense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	7190239	162902048	80297325	42	12996										
FIGN	55137	broad.mit.edu	37	chr2	164591418	164591418	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccaaaactgacataccataaAcactggtgctactgatcatt	5	11	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:164591418A>G	uc002uck.1	-	2	331	c.20T>C	c.(19-21)GTT>GCT	p.V7A		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	7						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						CATACCATAAACACTGGTGCT	0.378													30	82	---	---	---	---	PASS	G	164591418	G	G	164591418	3	3	32	1	0	0	0	0	1	0	0	0	5891	43	2	5	2267	5	FIGN	2	164591418	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	1689370	164591418	78607955	43	12997										
TTN	7273	broad.mit.edu	37	chr2	179399830	179399830	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgtcttctttgaggatgtttCaacacaacgatggacaattc	8	8	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:179399830C>G	uc010zfg.1	-	307	94032	c.93808G>C	c.(93808-93810)GAA>CAA	p.E31270Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E24965Q|TTN_uc010zfi.1_Missense_Mutation_p.E24898Q|TTN_uc010zfj.1_Missense_Mutation_p.E24773Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32197							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)			GAGGATGTTTCAACACAACGA	0.383													31	219	---	---	---	---	PASS	G	179399830	G	G	179399830	3	3	32	1	0	0	0	0	1	0	0	0	16732	835	29	2	6487	2	TTN	2	179399830	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	14808412	179399830	63799543	44	12998										
TTN	7273	broad.mit.edu	37	chr2	179408666	179408666	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aactttgtccactattagcaAtgagtagctctcagtggtgt	9	8	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:179408666A>G	uc010zfg.1	-	295	88725	c.88501T>C	c.(88501-88503)TTG>CTG	p.L29501L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.L23196L|TTN_uc010zfi.1_Silent_p.L23129L|TTN_uc010zfj.1_Silent_p.L23004L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30428							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)			ACTATTAGCAATGAGTAGCTC	0.448													63	176	---	---	---	---	PASS	G	179408666	G	G	179408666	2	3	32	1	0	0	0	0	0	0	0	1	16732	98	4	5		5	TTN	2	179408666	Silent	SNP	A	TCGA-22-1012-01A-01D-1521-08	8836	179408666	63790707	45	12999										
TTN	7273	broad.mit.edu	37	chr2	179417067	179417067	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cattcttaatactcaaagtaAttttgttttcagttttactg	4	6	3	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:179417067A>G	uc010zfg.1	-	284	83080	c.82856T>C	c.(82855-82857)ATT>ACT	p.I27619T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I21314T|TTN_uc010zfi.1_Missense_Mutation_p.I21247T|TTN_uc010zfj.1_Missense_Mutation_p.I21122T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28546							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)			ACTCAAAGTAATTTTGTTTTC	0.383													33	98	---	---	---	---	PASS	G	179417067	G	G	179417067	3	3	32	1	0	0	0	0	1	0	0	0	16732	101	4	5	17531	5	TTN	2	179417067	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	8401	179417067	63782306	46	13000										
TTN	7273	broad.mit.edu	37	chr2	179610450	179610450	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtgccactttcctcaacagtGaaccttcttccttggactaa	6	13	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:179610450G>C	uc002unb.2	-	46	16901	c.16677C>G	c.(16675-16677)TTC>TTG	p.F5559L	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CCTCAACAGTGAACCTTCTTC	0.418													46	174	---	---	---	---	PASS	C	179610450	C	C	179610450	3	2	32	1	0	0	0	0	1	0	0	0	16732	1281	45	2	93620	2	TTN	2	179610450	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	193383	179610450	63588923	47	13001										
DYTN	391475	broad.mit.edu	37	chr2	207527699	207527699	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cagttcctcttcctccagctCatcctttctctccttgatgt	4	16	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:207527699C>T	uc002vbr.1	-	11	1678	c.1561G>A	c.(1561-1563)GAG>AAG	p.E521K		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	521	Potential.					plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		TCCTCCAGCTCATCCTTTCTC	0.463													74	277	---	---	---	---	PASS	T	207527699	T	T	207527699	3	4	32	1	0	0	0	0	1	0	0	0	4861	835	29	2	183	2	DYTN	2	207527699	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	27917249	207527699	35671674	48	13002										
PTH2R	5746	broad.mit.edu	37	chr2	209345847	209345847	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agttctagctaccaaaatctGggagaccaatgcagttgggc	11	9	2	1	rs151296979		TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:209345847G>T	uc002vdb.2	+	10	1247	c.1034G>T	c.(1033-1035)TGG>TTG	p.W345L	PTH2R_uc010zjb.1_Missense_Mutation_p.W356L	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	345	Cytoplasmic (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		ACCAAAATCTGGGAGACCAAT	0.343													25	74	---	---	---	---	PASS	T	209345847	T	T	209345847	3	4	32	1	0	0	0	0	1	0	0	0	12760	1357	47	3	1072	3	PTH2R	2	209345847	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1818148	209345847	33853526	49	13003										
MAP2	4133	broad.mit.edu	37	chr2	210545476	210545476	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctattgtttgatctttagcaGctgaagaaacagctaatctg	8	7	2	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:210545476G>C	uc002vde.1	+	6	627	c.379G>C	c.(379-381)GCT>CCT	p.A127P	MAP2_uc002vdc.1_Missense_Mutation_p.A127P|MAP2_uc002vdd.1_Missense_Mutation_p.A127P|MAP2_uc002vdf.1_Missense_Mutation_p.A127P|MAP2_uc002vdg.1_Missense_Mutation_p.A127P|MAP2_uc002vdh.1_Missense_Mutation_p.A127P|MAP2_uc002vdi.1_Missense_Mutation_p.A127P	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	127					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)	ATCTTTAGCAGCTGAAGAAAC	0.428													89	369	---	---	---	---	PASS	C	210545476	C	C	210545476	3	2	32	1	0	0	0	0	1	0	0	0	9235	971	34	4	389	4	MAP2	2	210545476	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1199629	210545476	32653897	50	13004										
BARD1	580	broad.mit.edu	37	chr2	215645366	215645366	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gcaacagcttcattgctgagGgactagacatcactcgcctg	10	12	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:215645366G>T	uc002veu.2	-	4	1367	c.1232C>A	c.(1231-1233)CCC>CAC	p.P411H	BARD1_uc010zjm.1_Missense_Mutation_p.P267H	NM_000465	NP_000456	Q99728	BARD1_HUMAN	BRCA1 associated RING domain 1	411					cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		CATTGCTGAGGGACTAGACAT	0.408									Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				4	196	---	---	---	---	PASS	T	215645366	T	T	215645366	3	4	32	1	0	0	0	0	1	0	0	0	1312	1232	43	3	1133	3	BARD1	2	215645366	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	5099890	215645366	27554007	51	13005										
AGFG1	3267	broad.mit.edu	37	chr2	228401617	228401617	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tattttataattttttaaagCtacgccttccacaaatccat	2	9	0	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr2:228401617C>G	uc002vpc.2	+	10	1536	c.1286C>G	c.(1285-1287)GCT>GGT	p.A429G	AGFG1_uc002vpd.2_Missense_Mutation_p.A453G|AGFG1_uc002vpe.2_Missense_Mutation_p.A429G|AGFG1_uc002vpf.2_Missense_Mutation_p.A389G	NM_004504	NP_004495	P52594	AGFG1_HUMAN	HIV-1 Rev binding protein isoform 2	429				A -> R (in Ref. 2; CAA61667).	cell differentiation|mRNA export from nucleus|multicellular organismal development|regulation of ARF GTPase activity|spermatogenesis	cytoplasmic membrane-bounded vesicle|Golgi apparatus|nuclear pore	ARF GTPase activator activity|DNA binding|protein binding|RNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4						TTTTTTAAAGCTACGCCTTCC	0.328													10	91	---	---	---	---	PASS	G	228401617	G	G	228401617	3	3	32	1	0	0	0	0	1	0	0	0	380	811	28	4	1400	4	AGFG1	2	228401617	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	12756251	228401617	14797756	52	13006										
FBXW12	285231	broad.mit.edu	37	chr3	48416948	48416948	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	caaagcaagagctttgtgccTgggatgtgcaagaggtgagt	15	6	0	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:48416948T>C	uc003csr.2	+	5	577	c.391T>C	c.(391-393)TGG>CGG	p.W131R	FBXW12_uc010hjv.2_Missense_Mutation_p.W112R|FBXW12_uc003css.2_Missense_Mutation_p.W131R|FBXW12_uc010hjw.2_Missense_Mutation_p.W52R	NM_207102	NP_996985	Q6X9E4	FBW12_HUMAN	F-box and WD repeat domain containing 12 isoform	131	WD 1.										0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCTTTGTGCCTGGGATGTGCA	0.423													34	127	---	---	---	---	PASS	C	48416948	C	C	48416948	3	2	32	1	0	0	0	0	1	0	0	0	5765	1580	55	5	442	5	FBXW12	3	48416948	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08		48416948	149605482	53	13007										
QRICH1	54870	broad.mit.edu	37	chr3	49067898	49067898	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aggcatctcagtgcatagtgCttgcattggccactgcgatg	12	10	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:49067898C>G	uc010hkq.2	-	11	2614	c.2318G>C	c.(2317-2319)AGC>ACC	p.S773T	IMPDH2_uc003cvt.2_5'Flank|IMPDH2_uc010hkp.1_5'Flank|QRICH1_uc003cvu.2_Missense_Mutation_p.S773T|QRICH1_uc003cvv.2_Missense_Mutation_p.S773T	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	773										ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GTGCATAGTGCTTGCATTGGC	0.483													5	94	---	---	---	---	PASS	G	49067898	G	G	49067898	3	3	32	1	0	0	0	0	1	0	0	0	12879	797	28	4	16	4	QRICH1	3	49067898	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	650950	49067898	148954532	54	13008										
DOCK3	1795	broad.mit.edu	37	chr3	51265417	51265417	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttggctctgattacagcaaaGgacaaaggggaaaagaaact	11	6	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:51265417G>T	uc011bds.1	+	17	1568	c.1545G>T	c.(1543-1545)AAG>AAT	p.K515N		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	515	DHR-1.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		TTACAGCAAAGGACAAAGGGG	0.428													6	60	---	---	---	---	PASS	T	51265417	T	T	51265417	3	4	32	1	0	0	0	0	1	0	0	0	4688	991	35	3	1611	3	DOCK3	3	51265417	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	2197519	51265417	146757013	55	13009										
PBRM1	55193	broad.mit.edu	37	chr3	52651314	52651314	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttatagtgcctggcattccgGaacatcagcttcatgtcttc	8	11	3	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:52651314G>A	uc003des.2	-	14	1794	c.1782C>T	c.(1780-1782)TTC>TTT	p.F594F	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Silent_p.F594F|PBRM1_uc003der.2_Silent_p.F562F|PBRM1_uc003det.2_Silent_p.F609F|PBRM1_uc003deu.2_Silent_p.F609F|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Silent_p.F594F|PBRM1_uc010hmk.1_Silent_p.F594F|PBRM1_uc003dey.2_Silent_p.F594F|PBRM1_uc003dez.1_Silent_p.F594F|PBRM1_uc003dfb.1_Silent_p.F507F|PBRM1_uc003dfc.2_5'Flank	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	594	Bromo 4.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TGGCATTCCGGAACATCAGCT	0.463			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								12	70	---	---	---	---	PASS	A	52651314	A	A	52651314	2	1	32	1	0	0	0	0	0	0	0	1	11491	1165	41	2		2	PBRM1	3	52651314	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	1385897	52651314	145371116	56	13010										
KLF15	28999	broad.mit.edu	37	chr3	126071007	126071007	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aaggtctgcccctggatgttGaccaggagctgggcaacctt	13	11	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:126071007G>A	uc011bkk.1	-	2	941	c.759C>T	c.(757-759)GTC>GTT	p.V253V		NM_014079	NP_054798	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	253						nucleus	DNA binding|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(114;0.147)		CCTGGATGTTGACCAGGAGCT	0.622													3	16	---	---	---	---	PASS	A	126071007	A	A	126071007	2	1	32	1	0	0	0	0	0	0	0	1	8343	1277	45	2		2	KLF15	3	126071007	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	73419693	126071007	71951423	57	13011										
H1FOO	132243	broad.mit.edu	37	chr3	129268069	129268069	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agaaggctcgcaagcaaggcGgcgcggccaaggacaccagg	16	12	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:129268069G>T	uc003emu.2	+	3	609	c.604G>T	c.(604-606)GGC>TGC	p.G202C	H1FOO_uc003emv.2_Missense_Mutation_p.G63C	NM_153833	NP_722575	Q8IZA3	H1FOO_HUMAN	H1 histone family, member O, oocyte-specific	202					meiosis|nucleosome assembly	cytoplasm|nucleosome	DNA binding			skin(1)	1						CAAGCAAGGCGGCGCGGCCAA	0.647													3	6	---	---	---	---	PASS	T	129268069	T	T	129268069	3	4	32	1	0	0	0	0	1	0	0	0	6922	1116	39	1	614	1	H1FOO	3	129268069	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	3197062	129268069	68754361	58	13012										
KY	339855	broad.mit.edu	37	chr3	134322634	134322634	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttgaatgggacattccggttGgcaggaagcacacctgacag	13	9	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:134322634G>C	uc010hty.2	-	11	1835	c.1773C>G	c.(1771-1773)GCC>GCG	p.A591A	KY_uc011blw.1_3'UTR|KY_uc011blx.1_Silent_p.A570A	NM_178554	NP_848649	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase	Error:Variant_position_missing_in_Q8NBH2_after_alignment						cytoskeleton|Z disc	peptidase activity			ovary(2)	2						CATTCCGGTTGGCAGGAAGCA	0.557													6	87	---	---	---	---	PASS	C	134322634	C	C	134322634	2	2	32	1	0	0	0	0	0	0	0	1	8586	1335	47	4		4	KY	3	134322634	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	5054565	134322634	63699796	59	13013										
PRR23B	389151	broad.mit.edu	37	chr3	138739282	138739282	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tccagcaccaggtcgacgtcGtccaggggcacacgcagggc	14	15	0	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:138739282G>A	uc003esy.1	-	1	487	c.222C>T	c.(220-222)GAC>GAT	p.D74D		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	74										breast(1)	1						GGTCGACGTCGTCCAGGGGCA	0.697													11	41	---	---	---	---	PASS	A	138739282	A	A	138739282	2	1	32	1	0	0	0	0	0	0	0	1	12595	1136	40	1		1	PRR23B	3	138739282	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	4416648	138739282	59283148	60	13014										
TSC22D2	9819	broad.mit.edu	37	chr3	150128694	150128694	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtgcccgctccaagcgtgccTagtgtgtctaccacttctgt	10	14	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:150128694T>A	uc003exv.2	+	1	1907	c.1557T>A	c.(1555-1557)CCT>CCA	p.P519P	TSC22D2_uc003exw.2_RNA|TSC22D2_uc003exx.2_Silent_p.P519P	NM_014779	NP_055594	O75157	T22D2_HUMAN	TSC22 domain family, member 2	519							sequence-specific DNA binding transcription factor activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CAAGCGTGCCTAGTGTGTCTA	0.632													5	85	---	---	---	---	PASS	A	150128694	A	A	150128694	2	1	32	1	0	0	0	0	0	0	0	1	16605	1509	53	5		5	TSC22D2	3	150128694	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	11389412	150128694	47893736	61	13015										
ZBBX	79740	broad.mit.edu	37	chr3	166960356	166960356	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	taaggaaatctgtggaaatcTgacttatattcagtgattgg	10	4	3	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:166960356T>A	uc003fep.2	-	20	2536	c.2213A>T	c.(2212-2214)CAG>CTG	p.Q738L	ZBBX_uc011bpc.1_Missense_Mutation_p.Q777L|ZBBX_uc003feq.2_Missense_Mutation_p.Q709L	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	738						intracellular	zinc ion binding			ovary(2)	2						TGTGGAAATCTGACTTATATT	0.368													32	76	---	---	---	---	PASS	A	166960356	A	A	166960356	3	1	32	1	0	0	0	0	1	0	0	0	17513	1580	55	5	197	5	ZBBX	3	166960356	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	16831662	166960356	31062074	62	13016										
MFN1	55669	broad.mit.edu	37	chr3	179096197	179096197	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cgatgcaccgatgaagtaaaCgccttagtgcttcagaccca	9	12	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:179096197C>T	uc003fjs.2	+	13	1524	c.1398C>T	c.(1396-1398)AAC>AAT	p.N466N	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Silent_p.N494N|MFN1_uc010hxc.2_Intron	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	466	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			ATGAAGTAAACGCCTTAGTGC	0.353													8	96	---	---	---	---	PASS	T	179096197	T	T	179096197	2	4	32	1	0	0	0	0	0	0	0	1	9523	535	19	1		1	MFN1	3	179096197	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	12135841	179096197	18926233	63	13017										
ABCF3	55324	broad.mit.edu	37	chr3	183907499	183907499	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gcaggagcggctgctcaaccAgcagcgtgaatatgaggcgc	15	11	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:183907499A>G	uc003fmz.2	+	13	1401	c.1268A>G	c.(1267-1269)CAG>CGG	p.Q423R	ABCF3_uc003fna.2_Missense_Mutation_p.Q417R|ABCF3_uc003fnb.2_Missense_Mutation_p.Q104R	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	423	ABC transporter 1.						ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CTGCTCAACCAGCAGCGTGAA	0.607													12	29	---	---	---	---	PASS	G	183907499	G	G	183907499	3	3	32	1	0	0	0	0	1	0	0	0	67	188	7	5	1318	5	ABCF3	3	183907499	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	4811302	183907499	14114931	64	13018										
EPHB3	2049	broad.mit.edu	37	chr3	184294844	184294844	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctgggcctgacggagcgccgGgtccacatcagccatctgct	13	15	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:184294844G>T	uc003foz.2	+	5	1664	c.1227G>T	c.(1225-1227)CGG>CGT	p.R409R		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	409	Fibronectin type-III 1.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			CGGAGCGCCGGGTCCACATCA	0.647													45	116	---	---	---	---	PASS	T	184294844	T	T	184294844	2	4	32	1	0	0	0	0	0	0	0	1	5176	1219	43	3		3	EPHB3	3	184294844	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	387345	184294844	13727586	65	13019										
LRRC15	131578	broad.mit.edu	37	chr3	194080070	194080070	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tctgcatcaggacagcttggCtcctcttcttgcagcagcaa	9	13	4	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr3:194080070C>A	uc003ftu.2	-	2	1789	c.1703G>T	c.(1702-1704)AGC>ATC	p.S568I	LRRC15_uc003ftt.2_Missense_Mutation_p.S574I	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	568	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		GACAGCTTGGCTCCTCTTCTT	0.597													13	161	---	---	---	---	PASS	A	194080070	A	A	194080070	3	1	32	1	0	0	0	0	1	0	0	0	8970	797	28	3	46	3	LRRC15	3	194080070	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	9785226	194080070	3942360	66	13020										
WHSC2	7469	broad.mit.edu	37	chr4	1985126	1985126	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gttcatctcaaacactgtgtCcaccagcatggttgtgctac	8	12	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:1985126C>T	uc003gem.2	-	11	1780	c.1540G>A	c.(1540-1542)GAC>AAC	p.D514N	WHSC2_uc003gek.2_Missense_Mutation_p.D240N|WHSC2_uc003gel.2_Missense_Mutation_p.D428N|WHSC2_uc003gen.2_Missense_Mutation_p.D368N	NM_005663	NP_005654	Q9H3P2	NELFA_HUMAN	Wolf-Hirschhorn syndrome candidate 2 protein	503					multicellular organismal development|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm				skin(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0155)			AACACTGTGTCCACCAGCATG	0.597													45	202	---	---	---	---	PASS	T	1985126	T	T	1985126	3	4	32	1	0	0	0	0	1	0	0	0	17361	855	30	2	83	2	WHSC2	4	1985126	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08		1985126	189169150	67	13021										
TBC1D14	57533	broad.mit.edu	37	chr4	6925734	6925734	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tttaccaacgtcaccttgagCtctatcaaggaaacccgtgg	8	12	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:6925734C>A	uc011bwg.1	+	2	697	c.618C>A	c.(616-618)AGC>AGA	p.S206R	TBC1D14_uc003gjs.3_Missense_Mutation_p.S206R	NM_001113361	NP_001106832	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14 isoform a	206						intracellular	Rab GTPase activator activity			ovary(1)|pancreas(1)	2						TCACCTTGAGCTCTATCAAGG	0.488													10	61	---	---	---	---	PASS	A	6925734	A	A	6925734	3	1	32	1	0	0	0	0	1	0	0	0	15600	796	28	3	620	3	TBC1D14	4	6925734	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	4940608	6925734	184228542	68	13022										
ZNF518B	85460	broad.mit.edu	37	chr4	10445664	10445664	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	actggcgtggcaacatgagcCttcctggccactctgctttt	10	13	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:10445664C>A	uc003gmn.2	-	3	2776	c.2289G>T	c.(2287-2289)AAG>AAT	p.K763N		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	763					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						CAACATGAGCCTTCCTGGCCA	0.453													54	107	---	---	---	---	PASS	A	10445664	A	A	10445664	3	1	32	1	0	0	0	0	1	0	0	0	17960	680	24	3	939	3	ZNF518B	4	10445664	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	3519930	10445664	180708612	69	13023										
PROM1	8842	broad.mit.edu	37	chr4	16010597	16010597	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgaatcatactcttccaatgTaggtaaatttctgtggatgt	8	6	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:16010597T>C	uc003goo.2	-	11	1488	c.1276A>G	c.(1276-1278)ACA>GCA	p.T426A	PROM1_uc003gor.2_Missense_Mutation_p.T426A|PROM1_uc003gos.2_Missense_Mutation_p.T417A|PROM1_uc003got.2_Missense_Mutation_p.T426A|PROM1_uc003gou.2_Missense_Mutation_p.T417A|PROM1_uc003gop.2_Missense_Mutation_p.T417A|PROM1_uc003goq.3_Missense_Mutation_p.T417A|PROM1_uc010iec.1_Missense_Mutation_p.T304A	NM_006017	NP_006008	O43490	PROM1_HUMAN	prominin 1 isoform 1	426	Extracellular (Potential).				camera-type eye photoreceptor cell differentiation|photoreceptor cell maintenance|retina layer formation	apical plasma membrane|cell surface|integral to plasma membrane|microvillus membrane|photoreceptor outer segment membrane|plasma membrane	beta-actinin binding|cadherin binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	7						TCTTCCAATGTAGGTAAATTT	0.378													8	30	---	---	---	---	PASS	C	16010597	C	C	16010597	3	2	32	1	0	0	0	0	1	0	0	0	12555	1638	57	5	1385	5	PROM1	4	16010597	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	5564933	16010597	175143679	70	13024										
GABRG1	2565	broad.mit.edu	37	chr4	46043016	46043016	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aagtagattttataagtaaaGatagccaacccaataaacca	5	7	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:46043016G>T	uc003gxb.2	-	9	1539	c.1387C>A	c.(1387-1389)CTT>ATT	p.L463I		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	463	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		TATAAGTAAAGATAGCCAACC	0.318													9	81	---	---	---	---	PASS	T	46043016	T	T	46043016	3	4	32	1	0	0	0	0	1	0	0	0	6171	942	33	2	14	2	GABRG1	4	46043016	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	30032419	46043016	145111260	71	13025										
CEP135	9662	broad.mit.edu	37	chr4	56878146	56878146	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agctattagaaaaagaaattCaagaggtaatatatttattt	6	2	1	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:56878146C>G	uc003hbi.2	+	21	3031	c.2797C>G	c.(2797-2799)CAA>GAA	p.Q933E	CEP135_uc003hbj.2_Missense_Mutation_p.Q639E	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	933	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					AAAAGAAATTCAAGAGGTAAT	0.289													7	53	---	---	---	---	PASS	G	56878146	G	G	56878146	3	3	32	1	0	0	0	0	1	0	0	0	3247	827	29	2	2875	2	CEP135	4	56878146	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	10835130	56878146	134276130	72	13026										
CNOT6L	246175	broad.mit.edu	37	chr4	78650191	78650191	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccaatgcatgtgggcatttgCcactataagcagctgtttgt	10	9	0	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:78650191C>T	uc011ccd.1	-	10	1200	c.1069G>A	c.(1069-1071)GCA>ACA	p.A357T	CNOT6L_uc003hks.2_Missense_Mutation_p.A357T|CNOT6L_uc003hkt.1_Missense_Mutation_p.A200T	NM_144571	NP_653172	Q96LI5	CNO6L_HUMAN	CCR4-NOT transcription complex, subunit 6-like	357					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	exonuclease activity|protein binding	p.V357I(1)		large_intestine(1)	1						TGGGCATTTGCCACTATAAGC	0.388													4	230	---	---	---	---	PASS	T	78650191	T	T	78650191	3	4	32	1	0	0	0	0	1	0	0	0	3623	739	26	3	610	3	CNOT6L	4	78650191	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	21772045	78650191	112504085	73	13027										
HERC6	55008	broad.mit.edu	37	chr4	89361102	89361102	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tttatgaggaatttcagagaGgattttatagagtctgtgag	12	2	2	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:89361102G>C	uc011cdi.1	+	21	2815	c.2632G>C	c.(2632-2634)GGA>CGA	p.G878R	HERC6_uc011cdj.1_Missense_Mutation_p.G842R|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	878	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		ATTTCAGAGAGGATTTTATAG	0.333													20	29	---	---	---	---	PASS	C	89361102	C	C	89361102	3	2	32	1	0	0	0	0	1	0	0	0	7062	1001	35	4	2511	4	HERC6	4	89361102	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	10710911	89361102	101793174	74	13028										
NHEDC1	150159	broad.mit.edu	37	chr4	103822366	103822366	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccccagaatgcccataagtaGagctccatttggagctgtga	10	11	0	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:103822366G>T	uc003hww.2	-	12	1578	c.1456C>A	c.(1456-1458)CTA>ATA	p.L486I	NHEDC1_uc003hwu.2_Intron|NHEDC1_uc010ilm.2_Intron|NHEDC1_uc003hwv.2_Intron|NHEDC1_uc011cev.1_Missense_Mutation_p.L259I	NM_139173	NP_631912	Q4ZJI4	NHDC1_HUMAN	Na+/H+ exchanger domain containing 1 isoform 1	486	Helical; (Potential).					integral to membrane	solute:hydrogen antiporter activity			ovary(1)|skin(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;1.5e-08)		CCCATAAGTAGAGCTCCATTT	0.413													17	522	---	---	---	---	PASS	T	103822366	T	T	103822366	3	4	32	1	0	0	0	0	1	0	0	0	10400	933	33	2	195	2	NHEDC1	4	103822366	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	14461264	103822366	87331910	75	13029										
GAR1	54433	broad.mit.edu	37	chr4	110745172	110745172	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgggggcttcagaggaggaaGaggtggtggtttcagaggtg	21	3	2	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:110745172G>T	uc003hzt.2	+	6	930	c.623G>T	c.(622-624)AGA>ATA	p.R208I	GAR1_uc003hzu.2_Missense_Mutation_p.R208I|GAR1_uc010imi.2_Missense_Mutation_p.R190I	NM_018983	NP_061856	Q9NY12	GAR1_HUMAN	nucleolar protein family A, member 1	208	RGG-box 2.				rRNA processing|snRNA pseudouridine synthesis	box H/ACA snoRNP complex|Cajal body	cation channel activity|pseudouridine synthase activity|snoRNA binding				0						AGAGGAGGAAGAGGTGGTGGT	0.318													75	120	---	---	---	---	PASS	T	110745172	T	T	110745172	3	4	32	1	0	0	0	0	1	0	0	0	6240	942	33	2	641	2	GAR1	4	110745172	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	6922806	110745172	80409104	76	13030										
FBXW7	55294	broad.mit.edu	37	chr4	153244194	153244194	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gactaggtttcgaataaattCacccgttttcaagtcccata	6	10	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:153244194C>A	uc003ims.2	-	12	2112	c.1963G>T	c.(1963-1965)GAA>TAA	p.E655*	FBXW7_uc011cii.1_Nonsense_Mutation_p.E655*|FBXW7_uc003imt.2_Nonsense_Mutation_p.E655*|FBXW7_uc011cih.1_Nonsense_Mutation_p.E479*|FBXW7_uc003imq.2_Nonsense_Mutation_p.E575*|FBXW7_uc003imr.2_Nonsense_Mutation_p.E537*	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	655	WD 7.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				CGAATAAATTCACCCGTTTTC	0.468			Mis|N|D|F		colorectal|endometrial|T-ALL								86	152	---	---	---	---	PASS	A	153244194	A	A	153244194	4	1	32	1	0	0	0	0	0	1	0	0	5769	835	29	2	164	2	FBXW7	4	153244194	Nonsense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	42499022	153244194	37910082	77	13031										
TRIM60	166655	broad.mit.edu	37	chr4	165961611	165961611	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	actaaacaccagaagcactaCatttgccctattaagaaagc	5	11	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:165961611C>T	uc003iqy.1	+	3	557	c.387C>T	c.(385-387)TAC>TAT	p.Y129Y	TRIM60_uc010iqx.1_Silent_p.Y129Y	NM_152620	NP_689833	Q495X7	TRI60_HUMAN	ring finger protein 129	129	B box-type.					intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0844)		AGAAGCACTACATTTGCCCTA	0.388													4	107	---	---	---	---	PASS	T	165961611	T	T	165961611	2	4	32	1	0	0	0	0	0	0	0	1	16532	489	17	3		3	TRIM60	4	165961611	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	12717417	165961611	25192665	78	13032										
CLCN3	1182	broad.mit.edu	37	chr4	170628195	170628195	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	taaatggataccctttcttgGatgcaaaagaagaattcact	7	7	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:170628195G>T	uc003isi.2	+	11	2436	c.1927G>T	c.(1927-1929)GAT>TAT	p.D643Y	CLCN3_uc003ish.2_Missense_Mutation_p.D643Y|CLCN3_uc011cjz.1_Missense_Mutation_p.D626Y|CLCN3_uc011cka.1_Missense_Mutation_p.D616Y|CLCN3_uc003isj.1_Missense_Mutation_p.D616Y	NM_001829	NP_001820	P51790	CLCN3_HUMAN	chloride channel 3 isoform b	643	Cytoplasmic (By similarity).				endosomal lumen acidification	cell surface|early endosome membrane|Golgi membrane|integral to membrane|late endosome membrane|transport vesicle membrane	antiporter activity|ATP binding|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|voltage-gated chloride channel activity			breast(2)|ovary(1)	3		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0233)|LUSC - Lung squamous cell carcinoma(193;0.131)		CCCTTTCTTGGATGCAAAAGA	0.468													19	143	---	---	---	---	PASS	T	170628195	T	T	170628195	3	4	32	1	0	0	0	0	1	0	0	0	3464	1174	41	2	1965	2	CLCN3	4	170628195	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	4666584	170628195	20526081	79	13033										
FAT1	2195	broad.mit.edu	37	chr4	187541367	187541367	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gggtccaatttgaaagtgttCatgatgttccttgaggtagt	12	5	1	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr4:187541367C>A	uc003izf.2	-	10	6561	c.6373G>T	c.(6373-6375)GAA>TAA	p.E2125*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2125	Extracellular (Potential).|Cadherin 19.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TGAAAGTGTTCATGATGTTCC	0.423										HNSCC(5;0.00058)			87	171	---	---	---	---	PASS	A	187541367	A	A	187541367	4	1	32	1	0	0	0	0	0	1	0	0	5689	835	29	2	7465	2	FAT1	4	187541367	Nonsense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	16913172	187541367	3612909	80	13034										
SLC6A19	340024	broad.mit.edu	37	chr5	1213604	1213604	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tacatcacctccacgctgccCtatgtcgtcctgaccatctt	5	17	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:1213604C>G	uc003jbw.3	+	5	746	c.690C>G	c.(688-690)CCC>CCG	p.P230P		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	230	Helical; Name=5; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			CCACGCTGCCCTATGTCGTCC	0.572													8	109	---	---	---	---	PASS	G	1213604	G	G	1213604	2	3	32	1	0	0	0	0	0	0	0	1	14682	668	24	4		4	SLC6A19	5	1213604	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08		1213604	179701656	81	13035										
PAPD7	11044	broad.mit.edu	37	chr5	6743891	6743891	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttctgcagagggacctgaatGaagtttttacaggtggaatt	12	5	1	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:6743891G>A	uc003jdx.1	+	6	562	c.433G>A	c.(433-435)GAA>AAA	p.E145K	PAPD7_uc011cmn.1_Missense_Mutation_p.E136K|PAPD7_uc010itl.1_5'Flank	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	145					cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						GGACCTGAATGAAGTTTTTAC	0.348													24	397	---	---	---	---	PASS	A	6743891	A	A	6743891	3	1	32	1	0	0	0	0	1	0	0	0	11426	1291	45	2	451	2	PAPD7	5	6743891	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	5530287	6743891	174171369	82	13036										
MYO10	4651	broad.mit.edu	37	chr5	16694657	16694657	+	Missense_Mutation	SNP	C	A	A													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgagggcctcctgcttggagCggaaccacaagaaggtttca							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:16694657C>A	uc003jft.3	-	27	4091	c.3623G>T	c.(3622-3624)CGC>CTC	p.R1208L	MYO10_uc011cnc.1_Missense_Mutation_p.R87L|MYO10_uc011cnd.1_Missense_Mutation_p.R565L|MYO10_uc011cne.1_Missense_Mutation_p.R565L|MYO10_uc010itx.2_Missense_Mutation_p.R831L	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1208					axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CTGCTTGGAGCGGAACCACAA	0.572													187	149	---	---	---	---	PASS	A	16694657	A	A	16694657	3	1	32	1	0	0	0	0	1	0	0	0	10062	768	27	1	2613	1	MYO10	5	16694657	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	9950766	16694657	164220603	83	13037	338	2								
MYO10	4651	broad.mit.edu	37	chr5	16694658	16694658	+	Missense_Mutation	SNP	G	A	A													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gagggcctcctgcttggagcGgaaccacaagaaggtttcat							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:16694658G>A	uc003jft.3	-	27	4090	c.3622C>T	c.(3622-3624)CGC>TGC	p.R1208C	MYO10_uc011cnc.1_Missense_Mutation_p.R87C|MYO10_uc011cnd.1_Missense_Mutation_p.R565C|MYO10_uc011cne.1_Missense_Mutation_p.R565C|MYO10_uc010itx.2_Missense_Mutation_p.R831C	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1208					axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						TGCTTGGAGCGGAACCACAAG	0.567													187	150	---	---	---	---	PASS	A	16694658	A	A	16694658	3	1	32	1	0	0	0	0	1	0	0	0	10062	1116	39	1	2614	1	MYO10	5	16694658	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1	16694658	164220602	84	13038	338	2								
BASP1	10409	broad.mit.edu	37	chr5	17275787	17275787	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cccaaaaagactgaggcgccCgcagctcctgccgcccagga	11	17	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:17275787C>T	uc003jfx.2	+	2	641	c.462C>T	c.(460-462)CCC>CCT	p.P154P		NM_006317	NP_006308	P80723	BASP1_HUMAN	brain abundant, membrane attached signal protein	154					glomerular visceral epithelial cell differentiation|negative regulation of transcription, DNA-dependent	cytoplasm|cytoskeleton|growth cone|nuclear speck|plasma membrane	protein domain specific binding|transcription corepressor activity|transcription regulatory region DNA binding				0						CTGAGGCGCCCGCAGCTCCTG	0.502													9	11	---	---	---	---	PASS	T	17275787	T	T	17275787	2	4	32	1	0	0	0	0	0	0	0	1	1317	639	23	1		1	BASP1	5	17275787	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	581129	17275787	163639473	85	13039										
CDH10	1008	broad.mit.edu	37	chr5	24593368	24593368	+	Splice_Site	SNP	C	A	A													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gccattttaacacaagcttaCcttgcctacgtactgataat							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:24593368C>A	uc003jgr.1	-	2	563	c.231_splice	c.e2+1	p.K77_splice	CDH10_uc011cnu.1_Splice_Site	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CACAAGCTTACCTTGCCTACG	0.318										HNSCC(23;0.051)			151	136	---	---	---	---	PASS	A	24593368	A	A	24593368	5	1	32	1	0	0	0	0	0	0	1	0	3096	521	18	3	2178	3	CDH10	5	24593368	Splice_Site	SNP	C	TCGA-22-1012-01A-01D-1521-08	7317581	24593368	156321892	86	13040	339	2								
CDH10	1008	broad.mit.edu	37	chr5	24593369	24593369	+	Missense_Mutation	SNP	C	A	A													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccattttaacacaagcttacCttgcctacgtactgataatc							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:24593369C>A	uc003jgr.1	-	2	563	c.231G>T	c.(229-231)AAG>AAT	p.K77N	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	77	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ACAAGCTTACCTTGCCTACGT	0.323										HNSCC(23;0.051)			153	137	---	---	---	---	PASS	A	24593369	A	A	24593369	3	1	32	1	0	0	0	0	1	0	0	0	3096	695	24	3	2179	3	CDH10	5	24593369	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	1	24593369	156321891	87	13041	339	2								
C5orf22	55322	broad.mit.edu	37	chr5	31534400	31534400	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttctaccctttatataccggGccataggctcaaagcatctt	6	12	3	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:31534400G>T	uc003jhj.3	+	2	230	c.103G>T	c.(103-105)GCC>TCC	p.A35S	RNASEN_uc003jhh.2_5'Flank|RNASEN_uc003jhg.2_5'Flank|RNASEN_uc003jhi.2_5'Flank|C5orf22_uc011cnw.1_RNA|C5orf22_uc003jhk.3_5'UTR	NM_018356	NP_060826	Q49AR2	CE022_HUMAN	hypothetical protein LOC55322	35										ovary(2)	2						TATATACCGGGCCATAGGCTC	0.423													20	285	---	---	---	---	PASS	T	31534400	T	T	31534400	3	4	32	1	0	0	0	0	1	0	0	0	2285	1203	42	3	109	3	C5orf22	5	31534400	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	6941031	31534400	149380860	88	13042										
ADAMTS12	81792	broad.mit.edu	37	chr5	33527346	33527346	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccttctttgcctttgggtgtGtgtgatgtgtgtctggggac	15	7	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:33527346G>T	uc003jia.1	-	24	4895	c.4732C>A	c.(4732-4734)CAC>AAC	p.H1578N	ADAMTS12_uc010iuq.1_Missense_Mutation_p.H1493N	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1578				H -> R (in Ref. 4; AAI31734).	proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CTTTGGGTGTGTGTGATGTGT	0.532										HNSCC(64;0.19)			56	537	---	---	---	---	PASS	T	33527346	T	T	33527346	3	4	32	1	0	0	0	0	1	0	0	0	257	1377	48	3	56	3	ADAMTS12	5	33527346	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1992946	33527346	147387914	89	13043										
NNT	23530	broad.mit.edu	37	chr5	43644885	43644885	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tacgatgggtcatgtcattaGaggaactgtagtgatgaaag	13	4	2	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:43644885G>C	uc003joe.2	+	9	1526	c.1271G>C	c.(1270-1272)AGA>ACA	p.R424T	NNT_uc003jof.2_Missense_Mutation_p.R424T	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	424	Mitochondrial matrix.				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	CATGTCATTAGAGGAACTGTA	0.333													127	99	---	---	---	---	PASS	C	43644885	C	C	43644885	3	2	32	1	0	0	0	0	1	0	0	0	10510	942	33	2	1301	2	NNT	5	43644885	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	10117539	43644885	137270375	90	13044										
PCDHGB2	56103	broad.mit.edu	37	chr5	140739886	140739886	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ggctcagcgtccgggacttgCcagcccggaagctgcgggtt	16	13	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:140739886C>T	uc003ljs.1	+	1	184	c.184C>T	c.(184-186)CCA>TCA	p.P62S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Missense_Mutation_p.P62S	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	62	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGGGACTTGCCAGCCCGGAA	0.537													5	125	---	---	---	---	PASS	T	140739886	T	T	140739886	3	4	32	1	0	0	0	0	1	0	0	0	11563	739	26	3	186	3	PCDHGB2	5	140739886	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	97095001	140739886	40175374	91	13045										
PCDHGA10	56106	broad.mit.edu	37	chr5	140794992	140794992	+	Silent	SNP	T	G	G													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tttgtgggcgtggacggggtTcgggctttcctgcagaccta							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:140794992T>G	uc003lkl.1	+	1	2250	c.2250T>G	c.(2248-2250)GTT>GTG	p.V750V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Silent_p.V750V|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	750	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGACGGGGTTCGGGCTTTCC	0.632													41	102	---	---	---	---	PASS	G	140794992	G	G	140794992	2	3	32	1	0	0	0	0	0	0	0	1	11551	1770	62	5		5	PCDHGA10	5	140794992	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	55106	140794992	40120268	92	13046	340	2								
PCDHGA10	56106	broad.mit.edu	37	chr5	140794994	140794994	+	Missense_Mutation	SNP	G	A	A													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgtgggcgtggacggggttcGggctttcctgcagacctatt							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:140794994G>A	uc003lkl.1	+	1	2252	c.2252G>A	c.(2251-2253)CGG>CAG	p.R751Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.R751Q|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	751	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGGGGTTCGGGCTTTCCTG	0.627													43	103	---	---	---	---	PASS	A	140794994	A	A	140794994	3	1	32	1	0	0	0	0	1	0	0	0	11551	1116	39	1	2254	1	PCDHGA10	5	140794994	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	2	140794994	40120266	93	13047	340	2								
TIGD6	81789	broad.mit.edu	37	chr5	149374569	149374569	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccccttcatcttcacttcctGcttcactggtattttcgcca	4	16	4	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:149374569G>T	uc003lri.2	-	2	2105	c.1343C>A	c.(1342-1344)GCA>GAA	p.A448E	TIGD6_uc003lrj.2_Missense_Mutation_p.A448E	NM_030953	NP_112215	Q17RP2	TIGD6_HUMAN	hypothetical protein LOC81789	448					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TTCACTTCCTGCTTCACTGGT	0.438													53	140	---	---	---	---	PASS	T	149374569	T	T	149374569	3	4	32	1	0	0	0	0	1	0	0	0	15897	1319	46	3	226	3	TIGD6	5	149374569	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	8579575	149374569	31540691	94	13048										
FAT2	2196	broad.mit.edu	37	chr5	150947352	150947352	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ggtgactctcaccatcaccaCgcggctgccaggaggggaaa	13	13	2	1	rs149703698		TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:150947352C>A	uc003lue.3	-	1	1154	c.1141G>T	c.(1141-1143)GTG>TTG	p.V381L	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.V381L	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	381	Extracellular (Potential).|Cadherin 3.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACCATCACCACGCGGCTGCCA	0.498													4	136	---	---	---	---	PASS	A	150947352	A	A	150947352	3	1	32	1	0	0	0	0	1	0	0	0	5690	536	19	1	12000	1	FAT2	5	150947352	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	1572783	150947352	29967908	95	13049										
CYFIP2	26999	broad.mit.edu	37	chr5	156788526	156788526	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aggacatcattgagtacgcaGagctcaaaacagacgtgttc	10	9	2	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:156788526G>C	uc003lwq.2	+	28	3097	c.2959G>C	c.(2959-2961)GAG>CAG	p.E987Q	CYFIP2_uc011ddn.1_Missense_Mutation_p.E961Q|CYFIP2_uc011ddo.1_Missense_Mutation_p.E791Q|CYFIP2_uc003lwr.2_Missense_Mutation_p.E987Q|CYFIP2_uc003lws.2_Missense_Mutation_p.E987Q|CYFIP2_uc003lwt.2_Missense_Mutation_p.E890Q|CYFIP2_uc011ddp.1_Missense_Mutation_p.E721Q	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	1012					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)			TGAGTACGCAGAGCTCAAAAC	0.547													7	68	---	---	---	---	PASS	C	156788526	C	C	156788526	3	2	32	1	0	0	0	0	1	0	0	0	4138	943	33	2	3057	2	CYFIP2	5	156788526	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	5841174	156788526	24126734	96	13050										
ADRA1B	147	broad.mit.edu	37	chr5	159344738	159344738	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aggccaagggccacaaccccAggagttccatagctgtcaaa	10	13	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:159344738A>G	uc003lxt.1	+	1	999	c.826A>G	c.(826-828)AGG>GGG	p.R276G		NM_000679	NP_000670	P35368	ADA1B_HUMAN	alpha-1B-adrenergic receptor	276	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)	CCACAACCCCAGGAGTTCCAT	0.502													61	135	---	---	---	---	PASS	G	159344738	G	G	159344738	3	3	32	1	0	0	0	0	1	0	0	0	335	179	7	5	828	5	ADRA1B	5	159344738	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	2556212	159344738	21570522	97	13051										
TSPAN17	26262	broad.mit.edu	37	chr5	176084646	176084646	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cggccccacccagccgacatGttttctttggcctgggtggt	12	14	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:176084646G>T	uc003met.2	+	9	1175	c.946G>T	c.(946-948)GTT>TTT	p.V316F	TSPAN17_uc003mes.3_3'UTR|TSPAN17_uc003meu.2_Missense_Mutation_p.V313F|TSPAN17_uc003mev.2_3'UTR|TSPAN17_uc003mew.2_3'UTR	NM_012171	NP_036303	Q96FV3	TSN17_HUMAN	transmembrane 4 superfamily member 17 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0	all_cancers(89;0.00141)|Renal(175;0.000269)|Lung NSC(126;0.00814)|all_lung(126;0.0133)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			cagccgacatgttttctttgg	0.169													13	46	---	---	---	---	PASS	T	176084646	T	T	176084646	3	4	32	1	0	0	0	0	1	0	0	0	16638	1377	48	3	980	3	TSPAN17	5	176084646	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	16739908	176084646	4830614	98	13052										
GFPT2	9945	broad.mit.edu	37	chr5	179740888	179740888	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cgagagatggagctgcccacGgtgttggtgacgcccacggt	16	11	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr5:179740888G>A	uc003mlw.1	-	14	1448	c.1350C>T	c.(1348-1350)ACC>ACT	p.T450T		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	450	SIS 1.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	AGCTGCCCACGGTGTTGGTGA	0.701													3	23	---	---	---	---	PASS	A	179740888	A	A	179740888	2	1	32	1	0	0	0	0	0	0	0	1	6346	1103	39	1		1	GFPT2	5	179740888	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	3656242	179740888	1174372	99	13053										
PHACTR1	221692	broad.mit.edu	37	chr6	12749917	12749917	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgcctcccacattaatggcgGcatcctcggaggatgatata	10	11	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:12749917G>T	uc010jpc.2	+	4	477	c.145G>T	c.(145-147)GCA>TCA	p.A49S	PHACTR1_uc011dir.1_Missense_Mutation_p.A49S|PHACTR1_uc003nag.1_Missense_Mutation_p.A49S|PHACTR1_uc003nah.1_Missense_Mutation_p.A49S|PHACTR1_uc003nai.2_Missense_Mutation_p.A49S	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	49						cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			ATTAATGGCGGCATCCTCGGA	0.458													12	17	---	---	---	---	PASS	T	12749917	T	T	12749917	3	4	32	1	0	0	0	0	1	0	0	0	11809	1203	42	3	151	3	PHACTR1	6	12749917	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08		12749917	158365150	100	13054										
MYLIP	29116	broad.mit.edu	37	chr6	16144053	16144053	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atcagcaccagggcggccagCgggctctaccgagcgataac	13	14	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:16144053C>T	uc003nbq.2	+	5	1023	c.786C>T	c.(784-786)AGC>AGT	p.S262S	MYLIP_uc003nbr.2_Silent_p.S81S	NM_013262	NP_037394	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting	262	FERM.			SG -> TR (in Ref. 3; AAF87323).	cellular component movement|nervous system development	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)			GGGCGGCCAGCGGGCTCTACC	0.522													8	310	---	---	---	---	PASS	T	16144053	T	T	16144053	2	4	32	1	0	0	0	0	0	0	0	1	10055	767	27	1		1	MYLIP	6	16144053	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	3394136	16144053	154971014	101	13055										
USP49	25862	broad.mit.edu	37	chr6	41773584	41773584	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccacactgagtggagcatggCgaagggcgacactagggccc	15	12	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:41773584C>A	uc003ori.2	-	4	1360	c.1138G>T	c.(1138-1140)GCC>TCC	p.A380S		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	380					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TGGAGCATGGCGAAGGGCGAC	0.597													14	108	---	---	---	---	PASS	A	41773584	A	A	41773584	3	1	32	1	0	0	0	0	1	0	0	0	17077	768	27	1	800	1	USP49	6	41773584	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	25629531	41773584	129341483	102	13056										
ABCC10	89845	broad.mit.edu	37	chr6	43410728	43410728	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gaaaaggagctctatctcctCgatgaccctctggccgctgt	10	13	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:43410728C>T	uc003ouy.1	+	10	2462	c.2247C>T	c.(2245-2247)CTC>CTT	p.L749L	ABCC10_uc003ouz.1_Silent_p.L721L|ABCC10_uc010jyo.1_5'UTR	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	749	ABC transporter 1.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			TCTATCTCCTCGATGACCCTC	0.582													10	130	---	---	---	---	PASS	T	43410728	T	T	43410728	2	4	32	1	0	0	0	0	0	0	0	1	50	871	31	2		2	ABCC10	6	43410728	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	1637144	43410728	127704339	103	13057										
PGK2	5232	broad.mit.edu	37	chr6	49754769	49754769	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aggcagtacttgatgcttggGatggaagccttgatcctctg	13	8	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:49754769G>A	uc003ozu.2	-	1	239	c.132C>T	c.(130-132)ATC>ATT	p.I44I		NM_138733	NP_620061	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	44					glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			ovary(1)	1	Lung NSC(77;0.0402)					TGATGCTTGGGATGGAAGCCT	0.463													62	165	---	---	---	---	PASS	A	49754769	A	A	49754769	2	1	32	1	0	0	0	0	0	0	0	1	11791	1164	41	2		2	PGK2	6	49754769	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	6344041	49754769	121360298	104	13058										
EEF1A1	1915	broad.mit.edu	37	chr6	74229735	74229735	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acgacaatgttgatatgagtCttttcctttcccattttggc	7	9	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:74229735C>G	uc003phi.2	-	1	52	c.15G>C	c.(13-15)AAG>AAC	p.K5N	EEF1A1_uc003phd.2_5'Flank|EEF1A1_uc003phe.2_Missense_Mutation_p.K5N|EEF1A1_uc003phf.2_Missense_Mutation_p.K5N|EEF1A1_uc003phg.2_Missense_Mutation_p.K5N|EEF1A1_uc003phh.2_5'UTR|EEF1A1_uc003phj.2_Missense_Mutation_p.K5N|EEF1A1_uc003phk.2_Missense_Mutation_p.K5N|EEF1A1_uc003phl.2_Missense_Mutation_p.K5N|EEF1A1_uc003phm.1_RNA	NM_001402	NP_001393	P68104	EF1A1_HUMAN	eukaryotic translation elongation factor 1 alpha	5						cytosol|eukaryotic translation elongation factor 1 complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0						TGATATGAGTCTTTTCCTTTC	0.433													52	139	---	---	---	---	PASS	G	74229735	G	G	74229735	3	3	32	1	0	0	0	0	1	0	0	0	4923	912	32	2	1401	2	EEF1A1	6	74229735	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	24474966	74229735	96885332	105	13059										
MYO6	4646	broad.mit.edu	37	chr6	76550324	76550324	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aacccactcctagaagccttTggaaatgcgaagactgttcg	9	11	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:76550324T>C	uc003pih.1	+	8	855	c.576T>C	c.(574-576)TTT>TTC	p.F192F	MYO6_uc003pig.1_Silent_p.F192F|MYO6_uc003pii.1_Silent_p.F192F	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	192	Myosin head-like.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		TAGAAGCCTTTGGAAATGCGA	0.343													39	150	---	---	---	---	PASS	C	76550324	C	C	76550324	2	2	32	1	0	0	0	0	0	0	0	1	10081	1809	63	5		5	MYO6	6	76550324	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	2320589	76550324	94564743	106	13060										
MDN1	23195	broad.mit.edu	37	chr6	90377791	90377791	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgccctcgccttctccaattCcacctccctcatagtcatgg	5	18	3	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:90377791C>G	uc003pnn.1	-	84	14152	c.14036G>C	c.(14035-14037)GGA>GCA	p.G4679A		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4679					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)		TTCTCCAATTCCACCTCCCTC	0.433													28	300	---	---	---	---	PASS	G	90377791	G	G	90377791	3	3	32	1	0	0	0	0	1	0	0	0	9415	855	30	2	2830	2	MDN1	6	90377791	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	13827467	90377791	80737276	107	13061										
SFRS18	25957	broad.mit.edu	37	chr6	99852551	99852551	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgtgacatccagcagaatttCtgttagaagcatttttgtca	8	7	2	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:99852551C>G	uc003ppo.3	-	9	1258	c.1030G>C	c.(1030-1032)GAA>CAA	p.E344Q	SFRS18_uc003ppp.3_Missense_Mutation_p.E344Q|SFRS18_uc011eag.1_Missense_Mutation_p.E344Q	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	344						nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		AGCAGAATTTCTGTTAGAAGC	0.318													18	107	---	---	---	---	PASS	G	99852551	G	G	99852551	3	3	32	1	0	0	0	0	1	0	0	0	14174	922	32	2	1403	2	SFRS18	6	99852551	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	9474760	99852551	71262516	108	13062										
SIM1	6492	broad.mit.edu	37	chr6	100895250	100895250	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccagccgccgtgtttcgccaGgaacctgtagtacttggtgg	13	12	0	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:100895250G>C	uc003pqj.3	-	8	1099	c.892C>G	c.(892-894)CTG>GTG	p.L298V	SIM1_uc010kcu.2_Missense_Mutation_p.L298V	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	298	PAC.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		TGTTTCGCCAGGAACCTGTAG	0.592													7	64	---	---	---	---	PASS	C	100895250	C	C	100895250	3	2	32	1	0	0	0	0	1	0	0	0	14323	991	35	4	1424	4	SIM1	6	100895250	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1042699	100895250	70219817	109	13063										
CDK19	23097	broad.mit.edu	37	chr6	111067360	111067360	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tacaagccgacatggatattCctgtgccttcaatttgcttc	7	11	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:111067360C>G	uc003puh.1	-	2	246	c.173G>C	c.(172-174)GGA>GCA	p.G58A	CDK19_uc003pui.1_5'UTR	NM_015076	NP_055891	Q9BWU1	CDK19_HUMAN	cell division cycle 2-like 6 (CDK8-like)	58	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						CATGGATATTCCTGTGCCTTC	0.279													5	192	---	---	---	---	PASS	G	111067360	G	G	111067360	3	3	32	1	0	0	0	0	1	0	0	0	3135	855	30	2	1383	2	CDK19	6	111067360	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	10172110	111067360	60047707	110	13064										
C6orf58	352999	broad.mit.edu	37	chr6	127898557	127898557	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tcagacagccaggtattttgCaaaatttgcaccagataatg	8	8	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:127898557C>A	uc003qbh.2	+	1	239	c.227C>A	c.(226-228)GCA>GAA	p.A76E		NM_001010905	NP_001010905	Q6P5S2	CF058_HUMAN	hypothetical protein LOC352999 precursor	76						extracellular region					0				GBM - Glioblastoma multiforme(226;0.0405)|all cancers(137;0.156)		AGGTATTTTGCAAAATTTGCA	0.388													22	326	---	---	---	---	PASS	A	127898557	A	A	127898557	3	1	32	1	0	0	0	0	1	0	0	0	2367	710	25	3	229	3	C6orf58	6	127898557	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	16831197	127898557	43216510	111	13065										
TMEM181	57583	broad.mit.edu	37	chr6	159046773	159046773	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgactgcattgactttcgtaGtacttgtcattaggtaagaa	9	6	1	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:159046773G>T	uc003qrm.3	+	13	1518	c.1507G>T	c.(1507-1509)GTA>TTA	p.V503L	TMEM181_uc010kjr.1_Missense_Mutation_p.V334L	NM_020823	NP_065874	Q9P2C4	TM181_HUMAN	G protein-coupled receptor 178	503	Helical; (Potential).				pathogenesis	integral to membrane	toxin binding			ovary(2)|central_nervous_system(1)	3		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;8.15e-18)|BRCA - Breast invasive adenocarcinoma(81;1.38e-05)		GACTTTCGTAGTACTTGTCAT	0.338													11	58	---	---	---	---	PASS	T	159046773	T	T	159046773	3	4	32	1	0	0	0	0	1	0	0	0	16097	1029	36	3	1557	3	TMEM181	6	159046773	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	31148216	159046773	12068294	112	13066										
T	6862	broad.mit.edu	37	chr6	166574401	166574401	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aggcattccaaggctggaccAattgtcatgggattgcagca	12	9	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr6:166574401A>C	uc003quu.1	-	8	1451	c.958T>G	c.(958-960)TGG>GGG	p.W320G	T_uc003qut.1_Missense_Mutation_p.W321G|T_uc003quv.1_Missense_Mutation_p.W262G	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	320					anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		AGGCTGGACCAATTGTCATGG	0.517									Chordoma_Familial_Clustering_of				7	163	---	---	---	---	PASS	C	166574401	C	C	166574401	3	2	32	1	0	0	0	0	1	0	0	0	15485	130	5	5	357	5	T	6	166574401	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	7527628	166574401	4540666	113	13067										
TNRC18	84629	broad.mit.edu	37	chr7	5352353	5352353	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ggaggcgcctggggctggggCgcgggcgtcttcttgcctgg	21	11	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr7:5352353C>T	uc003soi.3	-	27	8518	c.8169G>A	c.(8167-8169)GCG>GCA	p.A2723A		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2723							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GGGGCTGGGGCGCGGGCGTCT	0.746													9	25	---	---	---	---	PASS	T	5352353	T	T	5352353	2	4	32	1	0	0	0	0	0	0	0	1	16336	755	27	1		1	TNRC18	7	5352353	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08		5352353	153786310	114	13068										
NXPH1	30010	broad.mit.edu	37	chr7	8790697	8790697	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cttctgaaatcaggaagcagCaaatccacactaaagcacat	6	11	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr7:8790697C>A	uc003srv.2	+	3	1025	c.114C>A	c.(112-114)AGC>AGA	p.S38R	NXPH1_uc011jxh.1_5'UTR	NM_152745	NP_689958	P58417	NXPH1_HUMAN	neurexophilin 1 precursor	38	II.					extracellular region				ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0628)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)		CAGGAAGCAGCAAATCCACAC	0.418													46	164	---	---	---	---	PASS	A	8790697	A	A	8790697	3	1	32	1	0	0	0	0	1	0	0	0	10790	709	25	3	120	3	NXPH1	7	8790697	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	3438344	8790697	150347966	115	13069										
TWISTNB	221830	broad.mit.edu	37	chr7	19738155	19738155	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tcctcctcccagatgccattCgcattattagtattctgcag	6	13	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr7:19738155C>G	uc003sup.1	-	4	822	c.801G>C	c.(799-801)GCG>GCC	p.A267A		NM_001002926	NP_001002926	Q3B726	RPA43_HUMAN	TWIST neighbor	267	Lys-rich.					microtubule cytoskeleton|nucleolus	DNA-directed RNA polymerase activity			ovary(1)	1						AGATGCCATTCGCATTATTAG	0.478													171	757	---	---	---	---	PASS	G	19738155	G	G	19738155	2	3	32	1	0	0	0	0	0	0	0	1	16781	871	31	2		2	TWISTNB	7	19738155	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	10947458	19738155	139400508	116	13070										
ABCB5	340273	broad.mit.edu	37	chr7	20725340	20725340	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atattaaaaaagctgatgaaCagatggagtcaatgacatat	8	4	1	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr7:20725340C>A	uc003suw.3	+	7	1102	c.556C>A	c.(556-558)CAG>AAG	p.Q186K	ABCB5_uc010kuh.2_Missense_Mutation_p.Q631K	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	186	Extracellular (Potential).				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						AGCTGATGAACAGATGGAGTC	0.348													3	72	---	---	---	---	PASS	A	20725340	A	A	20725340	3	1	32	1	0	0	0	0	1	0	0	0	44	479	17	3	1990	3	ABCB5	7	20725340	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	987185	20725340	138413323	117	13071										
DNAH11	8701	broad.mit.edu	37	chr7	21604007	21604007	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aagagttttgtaatctcttcAttaaccaggtatgaagcatc	7	7	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr7:21604007A>C	uc003svc.2	+	6	1217	c.1186A>C	c.(1186-1188)ATT>CTT	p.I396L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	396	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TAATCTCTTCATTAACCAGGT	0.353									Kartagener_syndrome				25	60	---	---	---	---	PASS	C	21604007	C	C	21604007	3	2	32	1	0	0	0	0	1	0	0	0	4599	217	8	5	1208	5	DNAH11	7	21604007	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	878667	21604007	137534656	118	13072										
AVL9	23080	broad.mit.edu	37	chr7	32584372	32584372	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agtatttggtatctcttgctAtcgacaaattgaagccaagg	9	7	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr7:32584372A>G	uc003tcv.1	+	3	427	c.281A>G	c.(280-282)TAT>TGT	p.Y94C	AVL9_uc011kai.1_Missense_Mutation_p.Y94C|AVL9_uc010kwj.1_5'UTR	NM_015060	NP_055875	Q8NBF6	AVL9_HUMAN	AVL9 homolog (S. cerevisiase)	94						integral to membrane					0						ATCTCTTGCTATCGACAAATT	0.353													31	49	---	---	---	---	PASS	G	32584372	G	G	32584372	3	3	32	1	0	0	0	0	1	0	0	0	1228	449	16	5	291	5	AVL9	7	32584372	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	10980365	32584372	126554291	119	13073										
BAZ1B	9031	broad.mit.edu	37	chr7	72891486	72891486	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctctgcagacatctgctgtcTggtctccatgtggtcttgca	10	12	5	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr7:72891486T>G	uc003tyc.2	-	7	2650	c.2305A>C	c.(2305-2307)AGA>CGA	p.R769R		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	769	Potential.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				ATCTGCTGTCTGGTCTCCATG	0.368													16	174	---	---	---	---	PASS	G	72891486	G	G	72891486	2	3	32	1	0	0	0	0	0	0	0	1	1330	1588	55	5		5	BAZ1B	7	72891486	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	40307114	72891486	86247177	120	13074										
PTPRZ1	5803	broad.mit.edu	37	chr7	121653467	121653467	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agaatcacaggaaaaggtaaTgaatgattcagacacccacg	9	8	2	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr7:121653467T>A	uc003vjy.2	+	12	4762	c.4367T>A	c.(4366-4368)ATG>AAG	p.M1456K	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1456	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						GAAAAGGTAATGAATGATTCA	0.323													54	95	---	---	---	---	PASS	A	121653467	A	A	121653467	3	1	32	1	0	0	0	0	1	0	0	0	12814	1464	51	5	4413	5	PTPRZ1	7	121653467	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	48761981	121653467	37485196	121	13075										
AASS	10157	broad.mit.edu	37	chr7	121718032	121718032	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aaggatgtctgattccaaagCtgtctctcatcacaatcata	6	10	5	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr7:121718032C>T	uc003vka.2	-	22	2618	c.2522G>A	c.(2521-2523)AGC>AAC	p.S841N	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.S841N|AASS_uc011knw.1_Missense_Mutation_p.S329N	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	841	Saccharopine dehydrogenase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	GATTCCAAAGCTGTCTCTCAT	0.358													216	579	---	---	---	---	PASS	T	121718032	T	T	121718032	3	4	32	1	0	0	0	0	1	0	0	0	24	797	28	3	266	3	AASS	7	121718032	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	64565	121718032	37420631	122	13076										
SPAM1	6677	broad.mit.edu	37	chr7	123599691	123599691	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	attcaagtgactatcttcacCtcaacccagataattttgct	4	11	4	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr7:123599691C>T	uc003vld.2	+	6	1600	c.1198C>T	c.(1198-1200)CTC>TTC	p.L400F	SPAM1_uc003vle.2_Missense_Mutation_p.L400F|SPAM1_uc011koa.1_Missense_Mutation_p.L56F|SPAM1_uc003vlf.3_Missense_Mutation_p.L400F|SPAM1_uc010lku.2_Missense_Mutation_p.L400F	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	400					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	CTATCTTCACCTCAACCCAGA	0.408													48	124	---	---	---	---	PASS	T	123599691	T	T	123599691	3	4	32	1	0	0	0	0	1	0	0	0	14986	681	24	3	1208	3	SPAM1	7	123599691	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	1881659	123599691	35538972	123	13077										
GRM8	2918	broad.mit.edu	37	chr7	126544719	126544719	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cacgtgggattttctgtgacTgagcaatgcaaacaccacct	9	11	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr7:126544719T>A	uc003vlr.2	-	3	1057	c.746A>T	c.(745-747)CAG>CTG	p.Q249L	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.Q249L|GRM8_uc010lkz.1_RNA|GRM8_uc003vlu.1_5'UTR	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	249	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TTTCTGTGACTGAGCAATGCA	0.378										HNSCC(24;0.065)			47	169	---	---	---	---	PASS	A	126544719	A	A	126544719	3	1	32	1	0	0	0	0	1	0	0	0	6803	1580	55	5	2062	5	GRM8	7	126544719	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	2945028	126544719	32593944	124	13078										
CHRM2	1129	broad.mit.edu	37	chr7	136700371	136700371	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aacatgcccagcagtgacgaTggcctggagcacaacaaaat	10	11	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr7:136700371T>A	uc003vtf.1	+	4	1382	c.759T>A	c.(757-759)GAT>GAA	p.D253E	CHRM2_uc003vtg.1_Missense_Mutation_p.D253E|CHRM2_uc003vtj.1_Missense_Mutation_p.D253E|CHRM2_uc003vtk.1_Missense_Mutation_p.D253E|CHRM2_uc003vtl.1_Missense_Mutation_p.D253E|CHRM2_uc003vtm.1_Missense_Mutation_p.D253E|CHRM2_uc003vti.1_Missense_Mutation_p.D253E|CHRM2_uc003vto.1_Missense_Mutation_p.D253E|CHRM2_uc003vtn.1_Missense_Mutation_p.D253E|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	253	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	GCAGTGACGATGGCCTGGAGC	0.507													21	62	---	---	---	---	PASS	A	136700371	A	A	136700371	3	1	32	1	0	0	0	0	1	0	0	0	3377	1461	51	5	761	5	CHRM2	7	136700371	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	10155652	136700371	22438292	125	13079										
CSMD1	64478	broad.mit.edu	37	chr8	2824228	2824228	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atgccatcactactgacaatCattccgttggtgggtgtgcc	10	11	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr8:2824228C>T	uc011kwk.1	-	58	9357	c.8967G>A	c.(8965-8967)ATG>ATA	p.M2989I	CSMD1_uc011kwj.1_Missense_Mutation_p.M2318I|CSMD1_uc010lrg.2_Intron	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2989	Extracellular (Potential).|Sushi 23.					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)		TACTGACAATCATTCCGTTGG	0.532													5	25	---	---	---	---	PASS	T	2824228	T	T	2824228	3	4	32	1	0	0	0	0	1	0	0	0	3944	826	29	2	1782	2	CSMD1	8	2824228	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08		2824228	143539794	126	13080										
CYP7A1	1581	broad.mit.edu	37	chr8	59409687	59409687	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccctgcagggttttgatgaaAgtgtcgtttatgttttcagt	11	6	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr8:59409687A>T	uc003xtm.3	-	3	447	c.384T>A	c.(382-384)ACT>ACA	p.T128T		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	128					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				TTTTGATGAAAGTGTCGTTTA	0.433									Neonatal_Giant_Cell_Hepatitis				45	159	---	---	---	---	PASS	T	59409687	T	T	59409687	2	4	32	1	0	0	0	0	0	0	0	1	4196	59	3	5		5	CYP7A1	8	59409687	Silent	SNP	A	TCGA-22-1012-01A-01D-1521-08	56585459	59409687	86954335	127	13081										
YTHDF3	253943	broad.mit.edu	37	chr8	64100053	64100053	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgctggtgtctggtctcaggAtaagtggaagggcaaatttg	15	5	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr8:64100053A>G	uc003xuy.2	+	5	1800	c.1484A>G	c.(1483-1485)GAT>GGT	p.D495G	YTHDF3_uc010lys.2_Missense_Mutation_p.D439G|YTHDF3_uc003xuz.2_Missense_Mutation_p.D439G|YTHDF3_uc003xva.2_Missense_Mutation_p.D439G|YTHDF3_uc011len.1_Missense_Mutation_p.D439G	NM_152758	NP_689971	Q7Z739	YTHD3_HUMAN	YTH domain family, member 3	495	YTH.										0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)			TGGTCTCAGGATAAGTGGAAG	0.393													3	89	---	---	---	---	PASS	G	64100053	G	G	64100053	3	3	32	1	0	0	0	0	1	0	0	0	17497	333	12	5	1497	5	YTHDF3	8	64100053	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	4690366	64100053	82263969	128	13082										
NCOA2	10499	broad.mit.edu	37	chr8	71044152	71044152	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccgcaaggccagatacagctGgtccaggagagctccctcat	11	14	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr8:71044152G>A	uc003xyn.1	-	16	3406	c.3244C>T	c.(3244-3246)CAG>TAG	p.Q1082*	NCOA2_uc011lfb.1_Nonsense_Mutation_p.Q170*	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	1082	LLXXLXXXL motif.			LLDQL->AADQA: Reduces transcriptional coactivation and disrupts interaction with CREBBP/CBP.|DQ->AA: Has little effect on transcriptional coactivation.	cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			AGATACAGCTGGTCCAGGAGA	0.532			T	RUNXBP2	AML								11	17	---	---	---	---	PASS	A	71044152	A	A	71044152	4	1	32	1	0	0	0	0	0	1	0	0	10229	1357	47	3	1182	3	NCOA2	8	71044152	Nonsense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	6944099	71044152	75319870	129	13083										
ZFHX4	79776	broad.mit.edu	37	chr8	77768505	77768505	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cccggaatgaacggtccatcCtccttgccgggatttccaca	9	15	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr8:77768505C>A	uc003yav.2	+	10	9600	c.9213C>A	c.(9211-9213)TCC>TCA	p.S3071S	ZFHX4_uc003yau.1_Silent_p.S3116S|ZFHX4_uc003yaw.1_Silent_p.S3071S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3071	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACGGTCCATCCTCCTTGCCGG	0.502										HNSCC(33;0.089)			9	87	---	---	---	---	PASS	A	77768505	A	A	77768505	2	1	32	1	0	0	0	0	0	0	0	1	17632	668	24	3		3	ZFHX4	8	77768505	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	6724353	77768505	68595517	130	13084										
ANKRD46	157567	broad.mit.edu	37	chr8	101534833	101534833	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gaagggtagcaccccactcaCataataagcaatgccaagag	9	11	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr8:101534833C>T	uc003yjm.2	-	5	840	c.636_splice	c.e5+1	p.Y212_splice	ANKRD46_uc003yjn.1_Missense_Mutation_p.V213M|ANKRD46_uc003yjo.1_Missense_Mutation_p.V213M|ANKRD46_uc003yjp.1_Missense_Mutation_p.V213M	NM_198401	NP_940683	Q86W74	ANR46_HUMAN	ankyrin repeat domain 46							integral to membrane					0	all_cancers(14;5.07e-05)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000353)|all_lung(17;0.000998)		Epithelial(11;2.61e-11)|all cancers(13;5.03e-09)|OV - Ovarian serous cystadenocarcinoma(57;4.49e-06)|STAD - Stomach adenocarcinoma(118;0.0957)			ACCCCACTCACATAATAAGCA	0.488													14	96	---	---	---	---	PASS	T	101534833	T	T	101534833	5	4	32	1	0	0	0	0	0	0	1	0	674	478	17	3	53	3	ANKRD46	8	101534833	Splice_Site	SNP	C	TCGA-22-1012-01A-01D-1521-08	23766328	101534833	44829189	131	13085										
FER1L6	654463	broad.mit.edu	37	chr8	125035716	125035716	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atccctgacgttttcatctgGatgctcagcaacaacaggag	9	11	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr8:125035716G>T	uc003yqw.2	+	18	2372	c.2166G>T	c.(2164-2166)TGG>TGT	p.W722C	uc003yqx.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	722	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TTTTCATCTGGATGCTCAGCA	0.532													80	193	---	---	---	---	PASS	T	125035716	T	T	125035716	3	4	32	1	0	0	0	0	1	0	0	0	5815	1183	41	2	2232	2	FER1L6	8	125035716	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	23500883	125035716	21328306	132	13086										
FER1L6	654463	broad.mit.edu	37	chr8	125058096	125058096	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agatgtgaaggagctggcagAgtccccgcccttagtggtgg	16	9	0	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr8:125058096A>C	uc003yqw.2	+	21	2884	c.2678A>C	c.(2677-2679)GAG>GCG	p.E893A		NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	893	Cytoplasmic (Potential).|C2 3.					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			GAGCTGGCAGAGTCCCCGCCC	0.562													113	318	---	---	---	---	PASS	C	125058096	C	C	125058096	3	2	32	1	0	0	0	0	1	0	0	0	5815	304	11	5	2756	5	FER1L6	8	125058096	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	22380	125058096	21305926	133	13087										
KCNK9	51305	broad.mit.edu	37	chr8	140630900	140630900	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atggtcaagaacctgaggacGaccaggttgaggaaggcccc	14	10	1	3	rs113907649		TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr8:140630900G>A	uc003yvf.1	-	2	790	c.726C>T	c.(724-726)GTC>GTT	p.V242V	KCNK9_uc003yvg.1_Silent_p.V242V|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	242	Cytoplasmic (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			ACCTGAGGACGACCAGGTTGA	0.572													21	72	---	---	---	---	PASS	A	140630900	A	A	140630900	2	1	32	1	0	0	0	0	0	0	0	1	8072	1045	37	2		2	KCNK9	8	140630900	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	15572804	140630900	5733122	134	13088										
SCRIB	23513	broad.mit.edu	37	chr8	144893462	144893462	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agcgcctcgaggtggttccgGtccacgttgaggttggtcag	16	10	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr8:144893462G>T	uc003yzp.1	-	10	967	c.960C>A	c.(958-960)GAC>GAA	p.D320E	SCRIB_uc003yzo.1_Missense_Mutation_p.D320E	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	320	LRR 13.|Sufficient for targeting to adherens junction and to inhibit cell proliferation.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			GGTGGTTCCGGTCCACGTTGA	0.667													6	40	---	---	---	---	PASS	T	144893462	T	T	144893462	3	4	32	1	0	0	0	0	1	0	0	0	13937	1252	44	3	4119	3	SCRIB	8	144893462	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	4262562	144893462	1470560	135	13089										
MPDZ	8777	broad.mit.edu	37	chr9	13110012	13110012	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gaaagaaagactggaacttgCaggctcctgctgatgacctg	12	9	0	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr9:13110012C>A	uc010mhy.2	-	43	5845	c.5794G>T	c.(5794-5796)GCA>TCA	p.A1932S	MPDZ_uc003zkx.3_Missense_Mutation_p.A156S|MPDZ_uc003zky.3_Missense_Mutation_p.A495S|MPDZ_uc010mib.2_Missense_Mutation_p.A666S|MPDZ_uc010mhx.2_Missense_Mutation_p.A783S|MPDZ_uc011lmm.1_Missense_Mutation_p.A820S|MPDZ_uc003zkz.3_Missense_Mutation_p.A654S|MPDZ_uc010mhz.2_Missense_Mutation_p.A1928S|MPDZ_uc011lmn.1_Missense_Mutation_p.A1899S|MPDZ_uc003zlb.3_Missense_Mutation_p.A1932S	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1961					interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		CTGGAACTTGCAGGCTCCTGC	0.458													12	22	---	---	---	---	PASS	A	13110012	A	A	13110012	3	1	32	1	0	0	0	0	1	0	0	0	9722	710	25	3	343	3	MPDZ	9	13110012	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08		13110012	128103419	136	13090										
CDKN2A	1029	broad.mit.edu	37	chr9	21974792	21974792	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccgtggccagccagtcagccGaaggctccatgctgctcccc	11	18	1	0	rs141798398		TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr9:21974792G>T	uc003zpk.2	-	1	247	c.35C>A	c.(34-36)TCG>TAG	p.S12*	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_Nonsense_Mutation_p.S12*|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Intron	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	12	ANK 1.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(23)|p.S12*(3)|p.S12fs*6(1)|p.S12fs*14(1)|p.S7_A19del(1)|p.M9_A20>X(1)|p.P11_S12insAAGSSMEP(1)|p.S12fs*20(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCAGTCAGCCGAAGGCTCCAT	0.761		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			3	7	---	---	---	---	PASS	T	21974792	T	T	21974792	4	4	32	1	0	0	0	0	0	1	0	0	3161	1059	37	2	648	2	CDKN2A	9	21974792	Nonsense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	8864780	21974792	119238639	137	13091										
TOPORS	10210	broad.mit.edu	37	chr9	32541551	32541551	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	catcgagagtttgttcaactGaagctgccagaggtggaata	12	7	1	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr9:32541551G>A	uc003zrb.2	-	3	3139	c.2972C>T	c.(2971-2973)TCA>TTA	p.S991L	TOPORS_uc003zrc.2_Missense_Mutation_p.S924L	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	991					DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		TTGTTCAACTGAAGCTGCCAG	0.413													10	281	---	---	---	---	PASS	A	32541551	A	A	32541551	3	1	32	1	0	0	0	0	1	0	0	0	16367	1294	45	2	169	2	TOPORS	9	32541551	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	10566759	32541551	108671880	138	13092										
TAF1L	138474	broad.mit.edu	37	chr9	32631934	32631934	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	catcttttgtagtccgtatgCgcacataggcatcaatgaca	8	10	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr9:32631934C>T	uc003zrg.1	-	1	3734	c.3644G>A	c.(3643-3645)CGC>CAC	p.R1215H	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1215					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		AGTCCGTATGCGCACATAGGC	0.433													22	227	---	---	---	---	PASS	T	32631934	T	T	32631934	3	4	32	1	0	0	0	0	1	0	0	0	15520	768	27	1	1840	1	TAF1L	9	32631934	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	90383	32631934	108581497	139	13093										
TAF1L	138474	broad.mit.edu	37	chr9	32632145	32632145	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cattcgccgtagttccttccGctcctgctcctcccattcac	5	19	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr9:32632145G>A	uc003zrg.1	-	1	3523	c.3433C>T	c.(3433-3435)CGG>TGG	p.R1145W	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1145					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		AGTTCCTTCCGCTCCTGCTCC	0.468													40	89	---	---	---	---	PASS	A	32632145	A	A	32632145	3	1	32	1	0	0	0	0	1	0	0	0	15520	1086	38	1	2051	1	TAF1L	9	32632145	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	211	32632145	108581286	140	13094										
PTPN3	5774	broad.mit.edu	37	chr9	112151660	112151660	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttagcagcaggaatttccatCtggtaagaaattggtaaagt	10	5	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr9:112151660C>T	uc004bed.2	-	22	2219	c.2107_splice	c.e22-1	p.M703_splice	PTPN3_uc004beb.2_Splice_Site_p.M572_splice|PTPN3_uc004bec.2_Splice_Site_p.M527_splice|PTPN3_uc010mtu.2_Splice_Site|PTPN3_uc011lwg.1_Splice_Site_p.M658_splice|PTPN3_uc011lwh.1_Splice_Site_p.M549_splice|PTPN3_uc011lwd.1_Splice_Site_p.M171_splice|PTPN3_uc011lwe.1_Splice_Site_p.M416_splice|PTPN3_uc011lwf.1_Splice_Site_p.M371_splice	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type						negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						GAATTTCCATCTGGTAAGAAA	0.463													3	86	---	---	---	---	PASS	T	112151660	T	T	112151660	5	4	32	1	0	0	0	0	0	0	1	0	12789	927	32	2	655	2	PTPN3	9	112151660	Splice_Site	SNP	C	TCGA-22-1012-01A-01D-1521-08	79519515	112151660	29061771	141	13095										
KCNT1	57582	broad.mit.edu	37	chr9	138669264	138669264	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atcgtctcggcagagacggcCggcaatgggctgtacaactt	13	11	1	1	rs139114208	byFrequency	TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr9:138669264C>A	uc011mdq.1	+	21	2504	c.2430C>A	c.(2428-2430)GCC>GCA	p.A810A	KCNT1_uc011mdr.1_Silent_p.A637A|KCNT1_uc010nbf.2_Silent_p.A765A|KCNT1_uc004cgo.1_Silent_p.A559A	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	810						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		CAGAGACGGCCGGCAATGGGC	0.557													28	80	---	---	---	---	PASS	A	138669264	A	A	138669264	2	1	32	1	0	0	0	0	0	0	0	1	8091	639	23	1		1	KCNT1	9	138669264	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	26517604	138669264	2544167	142	13096										
LARP4B	23185	broad.mit.edu	37	chr10	890987	890987	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctggctgtctggttgagactCatttcctcctacataaaagt	8	10	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:890987C>T	uc001ifs.1	-	5	480	c.439G>A	c.(439-441)GAG>AAG	p.E147K		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	147							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						GGTTGAGACTCATTTCCTCCT	0.388													36	86	---	---	---	---	PASS	T	890987	T	T	890987	3	4	32	1	0	0	0	0	1	0	0	0	8631	835	29	2	1829	2	LARP4B	10	890987	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08		890987	134643760	143	13097										
ITIH5	80760	broad.mit.edu	37	chr10	7618578	7618578	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtagctcacagccagggcctGggcccgctgccgcagccgct	14	17	1	0	rs75233092		TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:7618578G>T	uc001ijq.2	-	10	1895	c.1816C>A	c.(1816-1818)CAG>AAG	p.Q606K	ITIH5_uc001ijp.2_Missense_Mutation_p.Q392K|ITIH5_uc001ijr.1_Missense_Mutation_p.Q606K	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	606					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						GCCAGGGCCTGGGCCCGCTGC	0.647													13	34	---	---	---	---	PASS	T	7618578	T	T	7618578	3	4	32	1	0	0	0	0	1	0	0	0	7907	1357	47	3	1155	3	ITIH5	10	7618578	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	6727591	7618578	127916169	144	13098										
STAM	8027	broad.mit.edu	37	chr10	17742236	17742236	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tttagtgatgatgttcaggtAgagacaatagaaccagagcc	11	6	1	5			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:17742236A>T	uc001ipj.1	+	9	1086	c.870A>T	c.(868-870)GTA>GTT	p.V290V	STAM_uc010qcf.1_Silent_p.V179V|STAM_uc009xjw.1_5'UTR	NM_003473	NP_003464	Q92783	STAM1_HUMAN	signal transducing adaptor molecule 1	290					cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	SH3/SH2 adaptor activity			large_intestine(1)|ovary(1)	2						ATGTTCAGGTAGAGACAATAG	0.313													12	114	---	---	---	---	PASS	T	17742236	T	T	17742236	2	4	32	1	0	0	0	0	0	0	0	1	15247	407	15	5		5	STAM	10	17742236	Silent	SNP	A	TCGA-22-1012-01A-01D-1521-08	10123658	17742236	117792511	145	13099										
ANKRD26	22852	broad.mit.edu	37	chr10	27382400	27382400	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atccgcaagatttggatcagCaccatgttctagcagaatag	9	9	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:27382400C>T	uc001ith.2	-	3	581	c.409G>A	c.(409-411)GCT>ACT	p.A137T	ANKRD26_uc009xku.1_Missense_Mutation_p.A137T	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	137	ANK 3.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TTTGGATCAGCACCATGTTCT	0.413													12	107	---	---	---	---	PASS	T	27382400	T	T	27382400	3	4	32	1	0	0	0	0	1	0	0	0	654	710	25	3	4851	3	ANKRD26	10	27382400	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	9640164	27382400	108152347	146	13100										
ANKRD30A	91074	broad.mit.edu	37	chr10	37421200	37421200	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccacttttactatccataacGaaaagaagtgagcaaattgt	6	8	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:37421200G>C	uc001iza.1	+	4	474	c.375G>C	c.(373-375)ACG>ACC	p.T125T		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	181	ANK 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						TATCCATAACGAAAAGAAGTG	0.284													17	94	---	---	---	---	PASS	C	37421200	C	C	37421200	2	2	32	1	0	0	0	0	0	0	0	1	658	1045	37	2		2	ANKRD30A	10	37421200	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	10038800	37421200	98113547	147	13101										
HNRNPF	3185	broad.mit.edu	37	chr10	43882414	43882414	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gttgagaggagagaagaagtTgtaaatgtcgttctcggtcg	15	4	1	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:43882414T>A	uc009xmh.1	-	3	1406	c.919A>T	c.(919-921)AAC>TAC	p.N307Y	HNRNPF_uc001jar.2_Missense_Mutation_p.N307Y|HNRNPF_uc001jas.2_Missense_Mutation_p.N307Y|HNRNPF_uc001jat.2_Missense_Mutation_p.N307Y|HNRNPF_uc001jav.2_Missense_Mutation_p.N307Y|HNRNPF_uc001jau.2_Missense_Mutation_p.N307Y|uc010qfa.1_Silent_p.V32V	NM_001098208	NP_001091678	P52597	HNRPF_HUMAN	heterogeneous nuclear ribonucleoprotein F	307	RRM 3.				regulation of RNA splicing	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding				0						GAGAAGAAGTTGTAAATGTCG	0.517													13	113	---	---	---	---	PASS	A	43882414	A	A	43882414	3	1	32	1	0	0	0	0	1	0	0	0	7265	1812	63	5	332	5	HNRNPF	10	43882414	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	6461214	43882414	91652333	148	13102										
HNRNPF	3185	broad.mit.edu	37	chr10	43882837	43882837	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtgtttccctagagccttctCagctaactcctgcgaggcaa	9	13	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:43882837C>G	uc009xmh.1	-	3	983	c.496G>C	c.(496-498)GAG>CAG	p.E166Q	HNRNPF_uc001jar.2_Missense_Mutation_p.E166Q|HNRNPF_uc001jas.2_Missense_Mutation_p.E166Q|HNRNPF_uc001jat.2_Missense_Mutation_p.E166Q|HNRNPF_uc001jav.2_Missense_Mutation_p.E166Q|HNRNPF_uc001jau.2_Missense_Mutation_p.E166Q|uc010qfa.1_3'UTR	NM_001098208	NP_001091678	P52597	HNRPF_HUMAN	heterogeneous nuclear ribonucleoprotein F	166	RRM 2.				regulation of RNA splicing	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding				0						AGAGCCTTCTCAGCTAACTCC	0.522													19	139	---	---	---	---	PASS	G	43882837	G	G	43882837	3	3	32	1	0	0	0	0	1	0	0	0	7265	835	29	2	755	2	HNRNPF	10	43882837	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	423	43882837	91651910	149	13103										
RBP3	5949	broad.mit.edu	37	chr10	48390698	48390698	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gggtctgagatgctcagaatCtcatggctcttgatggcctg	13	9	4	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:48390698C>A	uc001jez.2	-	1	294	c.180G>T	c.(178-180)GAG>GAT	p.E60D		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	60	4 X approximate tandem repeats.|1.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	TGCTCAGAATCTCATGGCTCT	0.592													29	116	---	---	---	---	PASS	A	48390698	A	A	48390698	3	1	32	1	0	0	0	0	1	0	0	0	13157	912	32	2	3579	2	RBP3	10	48390698	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	4507861	48390698	87144049	150	13104										
AGAP7	653268	broad.mit.edu	37	chr10	51465318	51465318	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gttggtgcttttcttctttaGgtgtttctttttattggcat	9	5	3	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:51465318G>T	uc001jio.2	-	7	1264	c.1138C>A	c.(1138-1140)CTA>ATA	p.L380I	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron	NM_001077685	NP_001071153	Q5VUJ5	AGAP7_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	380	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						TTCTTCTTTAGGTGTTTCTTT	0.527													48	142	---	---	---	---	PASS	T	51465318	T	T	51465318	3	4	32	1	0	0	0	0	1	0	0	0	373	991	35	3	857	3	AGAP7	10	51465318	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	3074620	51465318	84069429	151	13105										
A1CF	29974	broad.mit.edu	37	chr10	52573658	52573658	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttggggttttaatgtgacagGattcattggggtgagctcca	14	5	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:52573658G>A	uc001jjj.2	-	10	1494	c.1306C>T	c.(1306-1308)CCT>TCT	p.P436S	A1CF_uc010qhn.1_Missense_Mutation_p.P436S|A1CF_uc001jji.2_Missense_Mutation_p.P428S|A1CF_uc001jjh.2_Missense_Mutation_p.P436S|A1CF_uc010qho.1_Missense_Mutation_p.P444S|A1CF_uc009xov.2_Missense_Mutation_p.P428S	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	436					cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						AATGTGACAGGATTCATTGGG	0.438													56	182	---	---	---	---	PASS	A	52573658	A	A	52573658	3	1	32	1	0	0	0	0	1	0	0	0	2	1174	41	2	494	2	A1CF	10	52573658	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1108340	52573658	82961089	152	13106										
CTNNA3	29119	broad.mit.edu	37	chr10	67829247	67829247	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aggcagttgagtcatcttagCctaaaacatgtgataattag	9	6	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:67829247C>A	uc009xpn.1	-	15	2101	c.1978G>T	c.(1978-1980)GCT>TCT	p.A660S	CTNNA3_uc001jmw.2_Missense_Mutation_p.A660S	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	660					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						GTCATCTTAGCCTAAAACATG	0.328													22	175	---	---	---	---	PASS	A	67829247	A	A	67829247	3	1	32	1	0	0	0	0	1	0	0	0	4014	753	26	3	725	3	CTNNA3	10	67829247	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	15255589	67829247	67705500	153	13107										
MYPN	84665	broad.mit.edu	37	chr10	69935179	69935179	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gcagtgattcgagacttgggGaaaaaaataactttcagtga	11	5	1	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:69935179G>A	uc001jnm.3	+	13	2849	c.2664G>A	c.(2662-2664)GGG>GGA	p.G888G	MYPN_uc001jnn.3_Silent_p.G613G|MYPN_uc001jno.3_Silent_p.G888G|MYPN_uc009xpt.2_Silent_p.G888G|MYPN_uc010qit.1_Silent_p.G594G|MYPN_uc010qiu.1_Intron	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	888						nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						GAGACTTGGGGAAAAAAATAA	0.363													16	124	---	---	---	---	PASS	A	69935179	A	A	69935179	2	1	32	1	0	0	0	0	0	0	0	1	10098	1161	41	2		2	MYPN	10	69935179	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	2105932	69935179	65599568	154	13108										
OIT3	170392	broad.mit.edu	37	chr10	74684331	74684331	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtgagcggcttggaaagcttGgtggagagctgctttgccac	16	8	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:74684331G>A	uc001jte.1	+	7	1514	c.1296G>A	c.(1294-1296)TTG>TTA	p.L432L	OIT3_uc009xqs.1_Intron	NM_152635	NP_689848	Q8WWZ8	OIT3_HUMAN	oncoprotein-induced transcript 3 precursor	432	ZP.					nuclear envelope	calcium ion binding			ovary(2)	2	Prostate(51;0.0198)					TGGAAAGCTTGGTGGAGAGCT	0.557													11	90	---	---	---	---	PASS	A	74684331	A	A	74684331	2	1	32	1	0	0	0	0	0	0	0	1	10849	1339	47	3		3	OIT3	10	74684331	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	4749152	74684331	60850416	155	13109										
SEC24C	9632	broad.mit.edu	37	chr10	75520505	75520505	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gcccggggccctcagtctaaTtatggaggcccctacccagc	11	16	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:75520505T>A	uc001juw.2	+	7	1064	c.885T>A	c.(883-885)AAT>AAA	p.N295K	SEC24C_uc010qkn.1_RNA|SEC24C_uc009xrj.1_Missense_Mutation_p.N153K|SEC24C_uc001jux.2_Missense_Mutation_p.N295K|SEC24C_uc010qko.1_Missense_Mutation_p.N153K|SEC24C_uc010qkp.1_Intron|SEC24C_uc010qkq.1_Intron	NM_004922	NP_004913	P53992	SC24C_HUMAN	SEC24-related protein C	295					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|zinc ion binding			skin(2)|central_nervous_system(1)	3	Prostate(51;0.0112)					CTCAGTCTAATTATGGAGGCC	0.582													22	161	---	---	---	---	PASS	A	75520505	A	A	75520505	3	1	32	1	0	0	0	0	1	0	0	0	13996	1490	52	5	903	5	SEC24C	10	75520505	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	836174	75520505	60014242	156	13110										
GLUD1	2746	broad.mit.edu	37	chr10	88834324	88834324	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ataccaataaagccctttttTgctagctccatggtgaacct	6	11	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:88834324T>G	uc001keh.2	-	4	727	c.630A>C	c.(628-630)GCA>GCC	p.A210A	GLUD1_uc001keg.2_Silent_p.A43A|GLUD1_uc010qmp.1_Silent_p.A77A	NM_005271	NP_005262	P00367	DHE3_HUMAN	glutamate dehydrogenase 1 precursor	210					glutamate biosynthetic process|glutamate catabolic process|positive regulation of insulin secretion	mitochondrial matrix	ADP binding|ATP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|identical protein binding|leucine binding|NAD+ binding				0					L-Glutamic Acid(DB00142)|NADH(DB00157)	AGCCCTTTTTTGCTAGCTCCA	0.239													5	236	---	---	---	---	PASS	G	88834324	G	G	88834324	2	3	32	1	0	0	0	0	0	0	0	1	6476	1799	63	5		5	GLUD1	10	88834324	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	13313819	88834324	46700423	157	13111										
LGI1	9211	broad.mit.edu	37	chr10	95518036	95518036	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aagccaaaatgccctgccgtGtgtacttgtaccaaagataa	8	10	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:95518036G>A	uc001kjc.3	+	1	471	c.135G>A	c.(133-135)GTG>GTA	p.V45V	LGI1_uc010qnv.1_Silent_p.V45V|LGI1_uc001kjd.3_Silent_p.V45V|LGI1_uc009xui.2_RNA|LGI1_uc001kje.2_RNA	NM_005097	NP_005088	O95970	LGI1_HUMAN	leucine-rich, glioma inactivated 1 precursor	45	LRRNT.				axon guidance|cell proliferation|positive regulation of cell growth|positive regulation of synaptic transmission	cell junction|extracellular space|synapse	receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4		Colorectal(252;0.124)				GCCCTGCCGTGTGTACTTGTA	0.453													16	183	---	---	---	---	PASS	A	95518036	A	A	95518036	2	1	32	1	0	0	0	0	0	0	0	1	8751	1364	48	3		3	LGI1	10	95518036	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	6683712	95518036	40016711	158	13112										
PDCD11	22984	broad.mit.edu	37	chr10	105162882	105162882	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttttctcttctagtccctgtGtgagggaatgcgtattttgg	11	7	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:105162882G>T	uc001kwy.1	+	4	329	c.242G>T	c.(241-243)TGT>TTT	p.C81F		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	81					mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		TAGTCCCTGTGTGAGGGAATG	0.443													84	289	---	---	---	---	PASS	T	105162882	T	T	105162882	3	4	32	1	0	0	0	0	1	0	0	0	11617	1377	48	3	252	3	PDCD11	10	105162882	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	9644846	105162882	30371865	159	13113										
LRRC27	80313	broad.mit.edu	37	chr10	134188614	134188614	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttgaagctaaaattgggattAaccttgaacaaagatcgtcg	9	6	0	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:134188614A>C	uc010quw.1	+	11	1656	c.1461A>C	c.(1459-1461)TTA>TTC	p.L487F	LRRC27_uc001llg.2_RNA|LRRC27_uc001lli.2_Missense_Mutation_p.L487F|LRRC27_uc001llj.2_Missense_Mutation_p.L425F	NM_030626	NP_085129	Q9C0I9	LRC27_HUMAN	leucine rich repeat containing 27 isoform a	487										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)		AATTGGGATTAACCTTGAACA	0.488													8	84	---	---	---	---	PASS	C	134188614	C	C	134188614	3	2	32	1	0	0	0	0	1	0	0	0	8981	359	13	5	1681	5	LRRC27	10	134188614	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	29025732	134188614	1346133	160	13114										
KNDC1	85442	broad.mit.edu	37	chr10	135011179	135011179	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ggctgtcacctcctccccagGtgtaccaggaggaagagacc	12	14	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr10:135011179G>T	uc001llz.1	+	12	1814	c.1813G>T	c.(1813-1815)GTG>TTG	p.V605L	KNDC1_uc001lma.1_Missense_Mutation_p.V540L|KNDC1_uc001lmb.1_Missense_Mutation_p.V17L	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	605	KIND 2.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		TCCTCCCCAGGTGTACCAGGA	0.677													27	155	---	---	---	---	PASS	T	135011179	T	T	135011179	3	4	32	1	0	0	0	0	1	0	0	0	8426	1275	44	3	1859	3	KNDC1	10	135011179	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	822565	135011179	523568	161	13115										
TH	7054	broad.mit.edu	37	chr11	2185535	2185535	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccctccagggagcgccgcacGgcctgggggctgtccagcac	15	17	0	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:2185535G>T	uc001lvq.2	-	14	1534	c.1515C>A	c.(1513-1515)GCC>GCA	p.A505A	TH_uc001lvp.2_Silent_p.A501A|TH_uc001lvr.2_Silent_p.A474A|TH_uc010qxj.1_Silent_p.A478A|TH_uc001lvs.2_Silent_p.A380A|TH_uc001lvt.2_Silent_p.A384A	NM_199292	NP_954986	P07101	TY3H_HUMAN	tyrosine hydroxylase isoform a	505					dopamine biosynthetic process from tyrosine|embryonic camera-type eye morphogenesis|epinephrine biosynthetic process|eye photoreceptor cell development|heart morphogenesis|hormone biosynthetic process|learning|locomotory behavior|memory|neurotransmitter biosynthetic process|neurotransmitter secretion|norepinephrine biosynthetic process|pigmentation|regulation of heart contraction|response to ethanol|response to hypoxia|synaptic transmission, dopaminergic|visual perception	cytosol|internal side of plasma membrane|melanosome membrane|nucleus|perikaryon|smooth endoplasmic reticulum	protein binding|tyrosine 3-monooxygenase activity				0		all_epithelial(84;1.46e-23)|Lung NSC(207;4.44e-11)|all_lung(207;1.11e-09)|Ovarian(85;1.78e-06)|Breast(177;1.78e-05)|Medulloblastoma(188;0.0208)|all_neural(188;0.0416)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;8.45e-09)|Lung(200;0.000152)|LUSC - Lung squamous cell carcinoma(625;0.00154)	L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Metyrosine(DB00765)|Tetrahydrobiopterin(DB00360)	AGCGCCGCACGGCCTGGGGGC	0.672													15	38	---	---	---	---	PASS	T	2185535	T	T	2185535	2	4	32	1	0	0	0	0	0	0	0	1	15835	1103	39	1		1	TH	11	2185535	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08		2185535	132820981	162	13116										
OR52A5	390054	broad.mit.edu	37	chr11	5153746	5153746	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aactaaaattagggaatttcCaatcacaccaataagataca	4	8	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:5153746C>A	uc010qyx.1	-	1	127	c.127G>T	c.(127-129)GGA>TGA	p.G43*		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.G43E(1)		skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		AGGGAATTTCCAATCACACCA	0.403													30	121	---	---	---	---	PASS	A	5153746	A	A	5153746	4	1	32	1	0	0	0	0	0	1	0	0	11110	603	21	3	826	3	OR52A5	11	5153746	Nonsense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	2968211	5153746	129852770	163	13117										
PIK3C2A	5286	broad.mit.edu	37	chr11	17132046	17132046	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tctagtccttctttaagccaGatcttatccataatctttat	3	10	4	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:17132046G>C	uc001mmq.3	-	21	3543	c.3477C>G	c.(3475-3477)ATC>ATG	p.I1159M	PIK3C2A_uc009ygu.1_Translation_Start_Site|PIK3C2A_uc010rcw.1_Missense_Mutation_p.I779M|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	1159	PI3K/PI4K.				cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	CTTTAAGCCAGATCTTATCCA	0.358													17	176	---	---	---	---	PASS	C	17132046	C	C	17132046	3	2	32	1	0	0	0	0	1	0	0	0	11909	932	33	2	1631	2	PIK3C2A	11	17132046	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	11978300	17132046	117874470	164	13118										
MRGPRX1	259249	broad.mit.edu	37	chr11	18956325	18956325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtccaaggttgagatggttgGatccatgctcagaaacccta	11	9	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:18956325G>T	uc001mpg.2	-	1	225	c.7C>A	c.(7-9)CCA>ACA	p.P3T		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	3	Extracellular (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						GAGATGGTTGGATCCATGCTC	0.413													101	501	---	---	---	---	PASS	T	18956325	T	T	18956325	3	4	32	1	0	0	0	0	1	0	0	0	9766	1174	41	2	965	2	MRGPRX1	11	18956325	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1824279	18956325	116050191	165	13119										
SLC17A6	57084	broad.mit.edu	37	chr11	22363311	22363311	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agcaccatccaccgcgggggCaaggtcatcaaggaggtggg	16	11	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:22363311C>G	uc001mqk.2	+	2	737	c.324C>G	c.(322-324)GGC>GGG	p.G108G		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	108	Vesicular (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						ACCGCGGGGGCAAGGTCATCA	0.632													12	69	---	---	---	---	PASS	G	22363311	G	G	22363311	2	3	32	1	0	0	0	0	0	0	0	1	14421	697	25	4		4	SLC17A6	11	22363311	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	3406986	22363311	112643205	166	13120										
C11orf41	25758	broad.mit.edu	37	chr11	33682446	33682446	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtgttcgccatcccagctgcCaacagacctggcttcaccgg	10	16	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:33682446C>A	uc001mup.3	+	19	5296	c.5172C>A	c.(5170-5172)GCC>GCA	p.A1724A		NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	1718						integral to membrane				ovary(2)	2						TCCCAGCTGCCAACAGACCTG	0.582													12	36	---	---	---	---	PASS	A	33682446	A	A	33682446	2	1	32	1	0	0	0	0	0	0	0	1	1640	581	21	3		3	C11orf41	11	33682446	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	11319135	33682446	101324070	167	13121										
CD44	960	broad.mit.edu	37	chr11	35227749	35227749	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgatttcttcaacccaatctCacaccccatgggacgaggtc	7	14	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:35227749C>G	uc001mvu.2	+	11	1807	c.1373C>G	c.(1372-1374)TCA>TGA	p.S458*	CD44_uc001mvv.2_Nonsense_Mutation_p.S415*|CD44_uc001mvw.2_Intron|CD44_uc001mvx.2_Intron|CD44_uc001mvy.2_Intron|CD44_uc001mwc.3_Intron|CD44_uc010rer.1_Intron|CD44_uc009ykh.2_Intron|CD44_uc010res.1_Nonsense_Mutation_p.S22*|CD44_uc010ret.1_Intron|CD44_uc010reu.1_Intron	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	458	Extracellular (Potential).|Stem.				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	all_cancers(35;0.212)|all_lung(20;0.0874)|all_epithelial(35;0.112)	all_hematologic(20;0.107)	STAD - Stomach adenocarcinoma(6;0.00731)		Hyaluronidase(DB00070)	AACCCAATCTCACACCCCATG	0.468													4	260	---	---	---	---	PASS	G	35227749	G	G	35227749	4	3	32	1	0	0	0	0	0	1	0	0	3017	838	29	2	1415	2	CD44	11	35227749	Nonsense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	1545303	35227749	99778767	168	13122										
SYT13	57586	broad.mit.edu	37	chr11	45268004	45268004	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atcagcaccaccaggaggcgGttggcagccgggaggtagct	16	11	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:45268004G>A	uc001myq.2	-	5	1032	c.906C>T	c.(904-906)AAC>AAT	p.N302N	SYT13_uc009yku.1_Silent_p.N158N	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	302	C2 2.|Cytoplasmic (Potential).					transport vesicle				ovary(1)	1						CCAGGAGGCGGTTGGCAGCCG	0.572													31	89	---	---	---	---	PASS	A	45268004	A	A	45268004	2	1	32	1	0	0	0	0	0	0	0	1	15466	1252	44	3		3	SYT13	11	45268004	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	10040255	45268004	89738512	169	13123										
CHST1	8534	broad.mit.edu	37	chr11	45671891	45671891	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gctgcgctcgcggcacgcctCggccgccacggtcaggttga	15	16	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:45671891C>T	uc001mys.1	-	4	1254	c.583G>A	c.(583-585)GAG>AAG	p.E195K		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	195	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CGGCACGCCTCGGCCGCCACG	0.697													10	57	---	---	---	---	PASS	T	45671891	T	T	45671891	3	4	32	1	0	0	0	0	1	0	0	0	3397	893	31	2	656	2	CHST1	11	45671891	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	403887	45671891	89334625	170	13124										
FOLH1	2346	broad.mit.edu	37	chr11	49175955	49175955	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgggccacagtgaggtgataTttaaacattggatcataaaa	10	5	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:49175955T>C	uc001ngy.2	-	16	1974	c.1713A>G	c.(1711-1713)AAA>AAG	p.K571K	FOLH1_uc001ngx.2_Silent_p.K3K|FOLH1_uc001ngz.2_Silent_p.K571K|FOLH1_uc009yly.2_Silent_p.K556K|FOLH1_uc009ylz.2_Silent_p.K556K|FOLH1_uc009yma.2_Silent_p.K263K	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	571	NAALADase.|Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	TGAGGTGATATTTAAACATTG	0.398													4	134	---	---	---	---	PASS	C	49175955	C	C	49175955	2	2	32	1	0	0	0	0	0	0	0	1	5979	1490	52	5		5	FOLH1	11	49175955	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	3504064	49175955	85830561	171	13125										
OR4C46	119749	broad.mit.edu	37	chr11	51515878	51515878	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctggaactcttcattgctgcCaacagtggattcatctgctt	8	11	4	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:51515878C>G	uc010ric.1	+	1	597	c.597C>G	c.(595-597)GCC>GCG	p.A199A		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	199	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TCATTGCTGCCAACAGTGGAT	0.483													28	187	---	---	---	---	PASS	G	51515878	G	G	51515878	2	3	32	1	0	0	0	0	0	0	0	1	11051	581	21	4		4	OR4C46	11	51515878	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	2339923	51515878	83490638	172	13126										
OR4P4	81300	broad.mit.edu	37	chr11	55406513	55406513	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtataccatcagagcatactCtgcagagagacgcagcaaag	10	10	2	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:55406513C>T	uc010rij.1	+	1	680	c.680C>T	c.(679-681)TCT>TTT	p.S227F		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						AGAGCATACTCTGCAGAGAGA	0.393													47	170	---	---	---	---	PASS	T	55406513	T	T	55406513	3	4	32	1	0	0	0	0	1	0	0	0	11080	913	32	2	682	2	OR4P4	11	55406513	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	3890635	55406513	79600003	173	13127										
OR5A1	219982	broad.mit.edu	37	chr11	59210840	59210840	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cacccatgtacttcttcctaAgcaacttatctttcattgac	3	13	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:59210840A>C	uc001nnx.1	+	1	199	c.199A>C	c.(199-201)AGC>CGC	p.S67R		NM_001004728	NP_001004728	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2						CTTCTTCCTAAGCAACTTATC	0.488													34	320	---	---	---	---	PASS	C	59210840	C	C	59210840	3	2	32	1	0	0	0	0	1	0	0	0	11139	72	3	5	201	5	OR5A1	11	59210840	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	3804327	59210840	75795676	174	13128										
RAB3IL1	5866	broad.mit.edu	37	chr11	61672049	61672049	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acagtcaacctcggccacctTcactgtgggcagcgtctgcg	11	15	3	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:61672049T>G	uc001nso.2	-	7	1026	c.868A>C	c.(868-870)AAG>CAG	p.K290Q	RAB3IL1_uc001nsp.2_Missense_Mutation_p.K264Q	NM_013401	NP_037533	Q8TBN0	R3GEF_HUMAN	RAB3A interacting protein (rabin3)-like 1	290							protein binding			skin(2)|central_nervous_system(1)	3						TCGGCCACCTTCACTGTGGGC	0.622													5	26	---	---	---	---	PASS	G	61672049	G	G	61672049	3	3	32	1	0	0	0	0	1	0	0	0	12937	1792	62	5	296	5	RAB3IL1	11	61672049	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	2461209	61672049	73334467	175	13129										
PHOX2A	401	broad.mit.edu	37	chr11	71952160	71952160	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acgcacctgcacgcgagcctCagtgaggtcgatcttgagcg	13	13	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:71952160C>T	uc001osh.3	-	2	563	c.391G>A	c.(391-393)GAG>AAG	p.E131K		NM_005169	NP_005160	O14813	PHX2A_HUMAN	paired-like homeobox 2a	131	Homeobox.				noradrenergic neuron differentiation|positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						ACGCGAGCCTCAGTGAGGTCG	0.592													11	66	---	---	---	---	PASS	T	71952160	T	T	71952160	3	4	32	1	0	0	0	0	1	0	0	0	11858	835	29	2	471	2	PHOX2A	11	71952160	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	10280111	71952160	63054356	176	13130										
GRM5	2915	broad.mit.edu	37	chr11	88583186	88583186	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cacccgggccttgggcaagtGacttgtgagcttcttcagca	12	12	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:88583186G>C	uc001pcq.2	-	2	999	c.799C>G	c.(799-801)CAC>GAC	p.H267D	GRM5_uc009yvm.2_Missense_Mutation_p.H267D	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	267	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	TTGGGCAAGTGACTTGTGAGC	0.542													39	70	---	---	---	---	PASS	C	88583186	C	C	88583186	3	2	32	1	0	0	0	0	1	0	0	0	6800	1290	45	2	2871	2	GRM5	11	88583186	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	16631026	88583186	46423330	177	13131										
NOX4	50507	broad.mit.edu	37	chr11	89135615	89135615	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	catgaaaatgttctgagaaaTactctggtaaggaaatattc	8	5	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:89135615T>A	uc001pct.2	-	9	964	c.725A>T	c.(724-726)TAT>TTT	p.Y242F	NOX4_uc009yvr.2_Missense_Mutation_p.Y217F|NOX4_uc001pcu.2_Missense_Mutation_p.Y168F|NOX4_uc001pcw.2_Intron|NOX4_uc001pcx.2_Intron|NOX4_uc001pcv.2_Missense_Mutation_p.Y242F|NOX4_uc009yvo.2_Intron|NOX4_uc010rtu.1_Missense_Mutation_p.Y76F|NOX4_uc009yvp.2_Intron|NOX4_uc010rtv.1_Missense_Mutation_p.Y218F|NOX4_uc009yvq.2_Missense_Mutation_p.Y218F|NOX4_uc009yvs.1_RNA	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	242	Extracellular (Potential).|Ferric oxidoreductase.				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				TTCTGAGAAATACTCTGGTAA	0.423													38	258	---	---	---	---	PASS	A	89135615	A	A	89135615	3	1	32	1	0	0	0	0	1	0	0	0	10558	1406	49	5	1051	5	NOX4	11	89135615	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	552429	89135615	45870901	178	13132										
CEP164	22897	broad.mit.edu	37	chr11	117265653	117265653	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	caggaaaggaagctccaggaTttagagttggaccttgaaac	12	7	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:117265653T>C	uc001prc.2	+	22	2925	c.2778T>C	c.(2776-2778)GAT>GAC	p.D926D	CEP164_uc001prb.2_Silent_p.D929D|CEP164_uc010rxk.1_Silent_p.D900D|CEP164_uc001prf.2_Intron|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Silent_p.D359D	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	926	Glu-rich.				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)		AGCTCCAGGATTTAGAGTTGG	0.517													58	318	---	---	---	---	PASS	C	117265653	C	C	117265653	2	2	32	1	0	0	0	0	0	0	0	1	3249	1490	52	5		5	CEP164	11	117265653	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	28130038	117265653	17740863	179	13133										
FEZ1	9638	broad.mit.edu	37	chr11	125359634	125359634	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cgagcaggagggtcgaaggtCctcaaactcttcatccagac	11	12	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:125359634C>T	uc001qbx.2	-	2	192	c.40G>A	c.(40-42)GAC>AAC	p.D14N	FEZ1_uc010sbc.1_Missense_Mutation_p.D14N|FEZ1_uc001qby.1_Missense_Mutation_p.D14N	NM_005103	NP_005094	Q99689	FEZ1_HUMAN	zygin 1 isoform 1	14					axon guidance|cell adhesion|transport	microtubule|plasma membrane				central_nervous_system(3)|ovary(1)	4	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0934)		GGTCGAAGGTCCTCAAACTCT	0.532													14	125	---	---	---	---	PASS	T	125359634	T	T	125359634	3	4	32	1	0	0	0	0	1	0	0	0	5823	855	30	2	1178	2	FEZ1	11	125359634	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	8093981	125359634	9646882	180	13134										
DCPS	28960	broad.mit.edu	37	chr11	126208221	126208221	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	caagaaggctgaagcggaccGgattgttttcgagaacccag	13	9	0	3	rs140993180		TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr11:126208221G>A	uc001qdp.2	+	4	892	c.563G>A	c.(562-564)CGG>CAG	p.R188Q		NM_014026	NP_054745	Q96C86	DCPS_HUMAN	mRNA decapping enzyme	188					deadenylation-dependent decapping of nuclear-transcribed mRNA|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	exoribonuclease activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00156)|Lung NSC(97;0.00949)|all_lung(97;0.0101)|Medulloblastoma(222;0.0425)|all_neural(223;0.0604)		BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.08)		GAAGCGGACCGGATTGTTTTC	0.502													13	81	---	---	---	---	PASS	A	126208221	A	A	126208221	3	1	32	1	0	0	0	0	1	0	0	0	4301	1116	39	1	577	1	DCPS	11	126208221	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	848587	126208221	8798295	181	13135										
CACNA1C	775	broad.mit.edu	37	chr12	2797827	2797827	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctcctgggctgagaccacccCcggtggcgggggcagcagcg	17	15	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:2797827C>A	uc009zdu.1	+	49	6561	c.6248C>A	c.(6247-6249)CCC>CAC	p.P2083H	CACNA1C_uc009zdv.1_Missense_Mutation_p.P1997H|CACNA1C_uc001qkb.2_Missense_Mutation_p.P2000H|CACNA1C_uc001qkc.2_Missense_Mutation_p.P2019H|CACNA1C_uc001qke.2_Missense_Mutation_p.P1989H|CACNA1C_uc001qkf.2_Missense_Mutation_p.P2008H|CACNA1C_uc001qjz.2_Missense_Mutation_p.P2000H|CACNA1C_uc001qkd.2_Missense_Mutation_p.P2019H|CACNA1C_uc001qkg.2_Missense_Mutation_p.P2006H|CACNA1C_uc009zdw.1_Missense_Mutation_p.P2041H|CACNA1C_uc001qkh.2_Missense_Mutation_p.P2008H|CACNA1C_uc001qkl.2_Missense_Mutation_p.P2048H|CACNA1C_uc001qkn.2_Missense_Mutation_p.P2000H|CACNA1C_uc001qko.2_Missense_Mutation_p.P2020H|CACNA1C_uc001qkp.2_Missense_Mutation_p.P2000H|CACNA1C_uc001qkr.2_Missense_Mutation_p.P2017H|CACNA1C_uc001qku.2_Missense_Mutation_p.P2035H|CACNA1C_uc001qkq.2_Missense_Mutation_p.P2028H|CACNA1C_uc001qks.2_Missense_Mutation_p.P2000H|CACNA1C_uc001qkt.2_Missense_Mutation_p.P2019H|CACNA1C_uc001qki.1_Missense_Mutation_p.P1807H|CACNA1C_uc001qkj.1_Missense_Mutation_p.P1771H|CACNA1C_uc001qkk.1_Missense_Mutation_p.P1736H|CACNA1C_uc001qkm.1_Missense_Mutation_p.P1796H|CACNA1C_uc010sea.1_Missense_Mutation_p.P691H|uc001qkx.1_Intron|CACNA1C_uc001qky.1_Missense_Mutation_p.P318H	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	2083	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GAGACCACCCCCGGTGGCGGG	0.711													19	32	---	---	---	---	PASS	A	2797827	A	A	2797827	3	1	32	1	0	0	0	0	1	0	0	0	2540	623	22	3	6890	3	CACNA1C	12	2797827	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08		2797827	131054068	182	13136										
CCND2	894	broad.mit.edu	37	chr12	4409107	4409107	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	accgtcaggaccaacgtgacGgatccaagtcggaggatgaa	13	10	1	2	rs3217921	byFrequency	TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:4409107G>C	uc001qmo.2	+	5	1107	c.802G>C	c.(802-804)GGA>CGA	p.G268R		NM_001759	NP_001750	P30279	CCND2_HUMAN	cyclin D2	268					cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding			haematopoietic_and_lymphoid_tissue(1)|breast(1)|kidney(1)	3			all cancers(3;4.15e-10)|GBM - Glioblastoma multiforme(3;6.34e-05)|Colorectal(7;0.00245)|OV - Ovarian serous cystadenocarcinoma(31;0.00301)|COAD - Colon adenocarcinoma(12;0.0264)|STAD - Stomach adenocarcinoma(119;0.206)			CCAACGTGACGGATCCAAGTC	0.567			T	IGL@	NHL,CLL								6	110	---	---	---	---	PASS	C	4409107	C	C	4409107	3	2	32	1	0	0	0	0	1	0	0	0	2917	1117	39	4	820	4	CCND2	12	4409107	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1611280	4409107	129442788	183	13137										
NDUFA9	4704	broad.mit.edu	37	chr12	4778914	4778914	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	taatttcttacaggtcgtagAtgtatccaaaggaattgtta	8	5	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:4778914A>T	uc001qnc.2	+	8	741	c.731A>T	c.(730-732)GAT>GTT	p.D244V	NDUFA9_uc010ses.1_Missense_Mutation_p.D25V	NM_005002	NP_004993	Q16795	NDUA9_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	244					mitochondrial electron transport, NADH to ubiquinone|sodium ion transport	mitochondrial matrix|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	CAGGTCGTAGATGTATCCAAA	0.299													75	173	---	---	---	---	PASS	T	4778914	T	T	4778914	3	4	32	1	0	0	0	0	1	0	0	0	10272	333	12	5	761	5	NDUFA9	12	4778914	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	369807	4778914	129072981	184	13138										
GDF3	9573	broad.mit.edu	37	chr12	7848201	7848201	+	Frame_Shift_Del	DEL	G	-	-													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aggcacaggttggaacttctGgggtgaaggcgccttatcta							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:7848201delG	uc001qte.2	-	1	160	c.124delC	c.(124-126)CAGfs	p.Q42fs		NM_020634	NP_065685	Q9NR23	GDF3_HUMAN	growth differentiation factor 3 precursor	42					eye development|growth|skeletal system development	extracellular space	cytokine activity|growth factor activity			skin(3)|ovary(1)|lung(1)|central_nervous_system(1)	6						TGGAACTTCTGGGGTGAAGGC	0.483													87	39	---	---	---	---		-	7848201	-	-	7848201	7	5	32	1	0	1	0	1	0	0	0	0	6315	1357	47	0	978	0	GDF3	12	7848201	Frame_Shift_Del	DEL	G	TCGA-22-1012-01A-01D-1521-08	3069287	7848201	126003694	185	13139										
SLC2A13	114134	broad.mit.edu	37	chr12	40442010	40442010	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tggcactgtcatagaagcaaTgcctataaaaacaatgaaaa	7	7	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:40442010T>C	uc010skm.1	-	2	610	c.559A>G	c.(559-561)ATT>GTT	p.I187V	SLC2A13_uc001rmf.2_Missense_Mutation_p.I187V	NM_052885	NP_443117	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose	187	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)				ATAGAAGCAATGCCTATAAAA	0.388										HNSCC(50;0.14)			63	153	---	---	---	---	PASS	C	40442010	C	C	40442010	3	2	32	1	0	0	0	0	1	0	0	0	14542	1464	51	5	1423	5	SLC2A13	12	40442010	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	32593809	40442010	93409885	186	13140										
MFSD5	84975	broad.mit.edu	37	chr12	53646886	53646886	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgtggccttgcctctacagtCctctttggcctagtggcctc	10	14	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:53646886C>A	uc001sci.1	+	2	458	c.267C>A	c.(265-267)GTC>GTA	p.V89V	MFSD5_uc001sch.1_Silent_p.V196V	NM_032889	NP_116278	Q6N075	MFSD5_HUMAN	major facilitator superfamily domain containing	89	Helical; (Potential).				transport	integral to membrane				skin(2)|ovary(1)	3						CCTCTACAGTCCTCTTTGGCC	0.498													66	501	---	---	---	---	PASS	A	53646886	A	A	53646886	2	1	32	1	0	0	0	0	0	0	0	1	9534	842	30	2		2	MFSD5	12	53646886	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	13204876	53646886	80205009	187	13141										
AAAS	8086	broad.mit.edu	37	chr12	53708616	53708616	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gggggtgccatgcaaagacaCgcaagcagcagctggaccta	14	11	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:53708616C>A	uc001scr.3	-	6	627	c.464G>T	c.(463-465)CGT>CTT	p.R155L	AAAS_uc001scs.3_Intron	NM_015665	NP_056480	Q9NRG9	AAAS_HUMAN	achalasia, adrenocortical insufficiency,	155	WD 1.				carbohydrate metabolic process|glucose transport|nucleocytoplasmic transport|regulation of glucose transport|regulation of nucleocytoplasmic transport|transmembrane transport|viral reproduction	nuclear pore				ovary(1)	1						TGCAAAGACACGCAAGCAGCA	0.527													11	35	---	---	---	---	PASS	A	53708616	A	A	53708616	3	1	32	1	0	0	0	0	1	0	0	0	8	536	19	1	1220	1	AAAS	12	53708616	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	61730	53708616	80143279	188	13142										
OR6C1	390321	broad.mit.edu	37	chr12	55715175	55715175	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	attaaaccctcagcaaaagaTagagtgtccttgagcaaggg	10	8	1	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:55715175T>C	uc010spi.1	+	1	792	c.792T>C	c.(790-792)GAT>GAC	p.D264D		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						CAGCAAAAGATAGAGTGTCCT	0.438													35	184	---	---	---	---	PASS	C	55715175	C	C	55715175	2	2	32	1	0	0	0	0	0	0	0	1	11190	1403	49	5		5	OR6C1	12	55715175	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	2006559	55715175	78136720	189	13143										
MDM1	56890	broad.mit.edu	37	chr12	68715378	68715378	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttttaattccatctctgcttCcaattttaaacgatcgtcta	3	10	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:68715378C>G	uc001stz.2	-	6	968	c.832G>C	c.(832-834)GAA>CAA	p.E278Q	MDM1_uc010stc.1_Missense_Mutation_p.E233Q|MDM1_uc009zqv.1_5'UTR	NM_017440	NP_059136	Q8TC05	MDM1_HUMAN	mouse Mdm1 nuclear protein homolog isoform 1	278						nucleus				ovary(3)|skin(2)	5			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000174)		ATCTCTGCTTCCAATTTTAAA	0.313													9	65	---	---	---	---	PASS	G	68715378	G	G	68715378	3	3	32	1	0	0	0	0	1	0	0	0	9412	864	30	2	1348	2	MDM1	12	68715378	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	13000203	68715378	65136517	190	13144										
ZFC3H1	196441	broad.mit.edu	37	chr12	72057376	72057376	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctggaggccggggccggagtAtctgcggtcgccatccgggg	19	12	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:72057376A>G	uc001swo.2	-	1	374	c.15T>C	c.(13-15)GAT>GAC	p.D5D	ZFC3H1_uc010sts.1_Silent_p.D5D|ZFC3H1_uc001swp.2_Silent_p.D5D|THAP2_uc001swq.2_5'Flank	NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	5					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						GGGCCGGAGTATCTGCGGTCG	0.602											OREG0021993	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	187	---	---	---	---	PASS	G	72057376	G	G	72057376	2	3	32	1	0	0	0	0	0	0	0	1	17630	446	16	5		5	ZFC3H1	12	72057376	Silent	SNP	A	TCGA-22-1012-01A-01D-1521-08	3341998	72057376	61794519	191	13145										
PAH	5053	broad.mit.edu	37	chr12	103237469	103237469	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aactctctgccacgtaatagAggggctggaactccgtgaca	11	11	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:103237469A>G	uc001tjq.1	-	12	1626	c.1154T>C	c.(1153-1155)CTG>CCG	p.L385P		NM_000277	NP_000268	P00439	PH4H_HUMAN	phenylalanine hydroxylase	385					catecholamine biosynthetic process|L-phenylalanine catabolic process|neurotransmitter biosynthetic process	cytosol	phenylalanine 4-monooxygenase activity			ovary(4)	4					Epinephrine(DB00668)|L-Phenylalanine(DB00120)|Levodopa(DB01235)|Norepinephrine(DB00368)|Tetrahydrobiopterin(DB00360)	CACGTAATAGAGGGGCTGGAA	0.527													28	100	---	---	---	---	PASS	G	103237469	G	G	103237469	3	3	32	1	0	0	0	0	1	0	0	0	11394	304	11	5	216	5	PAH	12	103237469	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	31180093	103237469	30614426	192	13146										
MYO1H	283446	broad.mit.edu	37	chr12	109880040	109880040	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agatgaaggagacattaatcCgaaagtgcttcagctaatta	9	6	1	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:109880040C>T	uc010sxo.1	+	4	451	c.176C>T	c.(175-177)CCG>CTG	p.P59L	MYO1H_uc010sxn.1_Missense_Mutation_p.P868L			Q8N1T3	MYO1H_HUMAN	SubName: Full=cDNA FLJ54829, moderately similar to Myosin Ic; SubName: Full=Myosin IH, isoform CRA_a;	59						myosin complex	motor activity				0						GACATTAATCCGAAAGTGCTT	0.443													21	70	---	---	---	---	PASS	T	109880040	T	T	109880040	3	4	32	1	0	0	0	0	1	0	0	0	10075	652	23	1	2705	1	MYO1H	12	109880040	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	6642571	109880040	23971855	193	13147										
RASAL1	8437	broad.mit.edu	37	chr12	113539713	113539713	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cctgagctggtcccgccccaGgagcagctgccgatacactg	12	16	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:113539713G>A	uc001tum.1	-	20	2496	c.2203C>T	c.(2203-2205)CTG>TTG	p.L735L	RASAL1_uc010syp.1_Silent_p.L736L|RASAL1_uc001tul.2_Silent_p.L707L|RASAL1_uc001tun.1_Silent_p.L737L	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	735					intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						TCCCGCCCCAGGAGCAGCTGC	0.652													10	87	---	---	---	---	PASS	A	113539713	A	A	113539713	2	1	32	1	0	0	0	0	0	0	0	1	13063	991	35	3		3	RASAL1	12	113539713	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	3659673	113539713	20312182	194	13148										
SLC24A6	80024	broad.mit.edu	37	chr12	113758204	113758204	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tcaggaacacagccaccatgTagaaaacgatgtccctgaag	9	11	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:113758204T>C	uc001tvc.2	-	7	836	c.626A>G	c.(625-627)TAC>TGC	p.Y209C	SLC24A6_uc001tuz.2_5'Flank|SLC24A6_uc001tva.2_RNA|SLC24A6_uc001tvb.2_Intron	NM_024959	NP_079235	Q6J4K2	NCKX6_HUMAN	solute carrier family 24 member 6 precursor	209	Helical; Name=4; (Potential).				response to stimulus|sodium ion transport	integral to membrane|plasma membrane	calcium:cation antiporter activity			central_nervous_system(1)	1						AGCCACCATGTAGAAAACGAT	0.612													23	448	---	---	---	---	PASS	C	113758204	C	C	113758204	3	2	32	1	0	0	0	0	1	0	0	0	14470	1638	57	5	1168	5	SLC24A6	12	113758204	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	218491	113758204	20093691	195	13149										
NOS1	4842	broad.mit.edu	37	chr12	117718548	117718548	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acctctgtgaactgcacattGgctgggtcccccagggtgga	13	12	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:117718548G>T	uc001twm.1	-	8	2192	c.1506C>A	c.(1504-1506)GCC>GCA	p.A502A		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	502					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	ACTGCACATTGGCTGGGTCCC	0.597													32	99	---	---	---	---	PASS	T	117718548	T	T	117718548	2	4	32	1	0	0	0	0	0	0	0	1	10541	1335	47	3		3	NOS1	12	117718548	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	3960344	117718548	16133347	196	13150										
GPR81	27198	broad.mit.edu	37	chr12	123214157	123214157	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	actcgagggcaccgtccagaGgaaatagagtctagcagaca	12	10	1	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:123214157G>A	uc001ucz.2	-	1	973	c.730C>T	c.(730-732)CTC>TTC	p.L244F	GPR81_uc001ucw.1_RNA	NM_032554	NP_115943	Q9BXC0	HCAR1_HUMAN	G protein-coupled receptor 81	244	Extracellular (Potential).				response to estradiol stimulus	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.14e-05)|Epithelial(86;3.25e-05)|BRCA - Breast invasive adenocarcinoma(302;0.197)		ACCGTCCAGAGGAAATAGAGT	0.567													45	123	---	---	---	---	PASS	A	123214157	A	A	123214157	3	1	32	1	0	0	0	0	1	0	0	0	6711	1000	35	3	314	3	GPR81	12	123214157	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	5495609	123214157	10637738	197	13151										
ULK1	8408	broad.mit.edu	37	chr12	132400609	132400609	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gccctccccagccgtcccacGgcctgcagtcctgccggaac	10	21	0	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr12:132400609G>C	uc001uje.2	+	19	2051	c.1783G>C	c.(1783-1785)GGC>CGC	p.G595R		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	595					autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		GCCGTCCCACGGCCTGCAGTC	0.692													31	40	---	---	---	---	PASS	C	132400609	C	C	132400609	3	2	32	1	0	0	0	0	1	0	0	0	16972	1116	39	4	1857	4	ULK1	12	132400609	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	9186452	132400609	1451286	198	13152										
TUBA3C	7278	broad.mit.edu	37	chr13	19753680	19753680	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atctggactcctgcctgcccCacgtggatagagatacactc	9	14	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr13:19753680C>A	uc009zzj.2	-	2	76	c.27G>T	c.(25-27)GTG>GTT	p.V9V		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	9					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		CTGCCTGCCCCACGTGGATAG	0.453													36	99	---	---	---	---	PASS	A	19753680	A	A	19753680	2	1	32	1	0	0	0	0	0	0	0	1	16743	581	21	3		3	TUBA3C	13	19753680	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08		19753680	95416198	199	13153										
MPHOSPH8	54737	broad.mit.edu	37	chr13	20220920	20220920	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	agttaaaaagggtgaaataaGagatttaaagacgaaaacaa	9	2	0	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr13:20220920G>C	uc001umh.2	+	3	716	c.707G>C	c.(706-708)AGA>ACA	p.R236T	MPHOSPH8_uc001umf.1_Missense_Mutation_p.R236T|MPHOSPH8_uc001umg.2_Missense_Mutation_p.R236T|MPHOSPH8_uc001umi.2_5'UTR	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	236	Lys-rich.				cell cycle	cytoplasm|nucleus					0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		ggtgaaataagagatttaaag	0.164													7	53	---	---	---	---	PASS	C	20220920	C	C	20220920	3	2	32	1	0	0	0	0	1	0	0	0	9727	942	33	2	717	2	MPHOSPH8	13	20220920	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	467240	20220920	94948958	200	13154										
RNF17	56163	broad.mit.edu	37	chr13	25356003	25356003	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cacttgaacacatgcagaagCaaacgatagaggaaagagaa	10	7	0	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr13:25356003C>A	uc001upr.2	+	6	573	c.532C>A	c.(532-534)CAA>AAA	p.Q178K	RNF17_uc010tdd.1_Missense_Mutation_p.Q37K|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.Q178K|RNF17_uc001ups.2_Missense_Mutation_p.Q117K|RNF17_uc001upq.1_Missense_Mutation_p.Q178K	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	178					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		CATGCAGAAGCAAACGATAGA	0.303													3	88	---	---	---	---	PASS	A	25356003	A	A	25356003	3	1	32	1	0	0	0	0	1	0	0	0	13461	711	25	3	554	3	RNF17	13	25356003	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	5135083	25356003	89813875	201	13155										
CDX2	1045	broad.mit.edu	37	chr13	28539154	28539154	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tctttcgtcctggttttcacTgtggaggaaggagaagtgag	14	6	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr13:28539154T>C	uc001urv.2	-	2	716	c.542_splice	c.e2-1	p.V181_splice		NM_001265	NP_001256	Q99626	CDX2_HUMAN	caudal type homeobox 2						organ morphogenesis|transcription from RNA polymerase II promoter		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(110;0.191)|all_hematologic(3;0.0447)|Acute lymphoblastic leukemia(6;0.155)	Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0407)|all cancers(112;0.0491)|OV - Ovarian serous cystadenocarcinoma(117;0.199)		TGGTTTTCACTGTGGAGGAAG	0.527			T	ETV6	AML								6	39	---	---	---	---	PASS	C	28539154	C	C	28539154	5	2	32	1	0	0	0	0	0	0	1	0	3183	1594	55	5	409	5	CDX2	13	28539154	Splice_Site	SNP	T	TCGA-22-1012-01A-01D-1521-08	3183151	28539154	86630724	202	13156										
WBP4	11193	broad.mit.edu	37	chr13	41642710	41642710	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tctttagaaattttggagccAagcataacaccagtaaccag	7	9	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr13:41642710A>G	uc001uxt.2	+	5	389	c.276A>G	c.(274-276)CCA>CCG	p.P92P	WBP4_uc010tfd.1_Silent_p.P71P	NM_007187	NP_009118	O75554	WBP4_HUMAN	WW domain-containing binding protein 4	92					nuclear mRNA cis splicing, via spliceosome	nuclear speck|spliceosomal complex	nucleic acid binding|proline-rich region binding|zinc ion binding			breast(2)|kidney(1)	3		Lung NSC(96;3.55e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;3.11e-09)|Epithelial(112;3.37e-06)|OV - Ovarian serous cystadenocarcinoma(117;8.3e-05)|GBM - Glioblastoma multiforme(144;0.00102)|BRCA - Breast invasive adenocarcinoma(63;0.07)		TTTTGGAGCCAAGCATAACAC	0.289													11	114	---	---	---	---	PASS	G	41642710	G	G	41642710	2	3	32	1	0	0	0	0	0	0	0	1	17258	117	5	5		5	WBP4	13	41642710	Silent	SNP	A	TCGA-22-1012-01A-01D-1521-08	13103556	41642710	73527168	203	13157										
KLHL1	57626	broad.mit.edu	37	chr13	70314629	70314629	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccacctttccactgtattcaGatagctccagccatcatggc	6	15	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr13:70314629G>T	uc001vip.2	-	8	2493	c.1699C>A	c.(1699-1701)CTG>ATG	p.L567M	KLHL1_uc010thm.1_Missense_Mutation_p.L506M	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	567	Kelch 3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		ACTGTATTCAGATAGCTCCAG	0.398													16	79	---	---	---	---	PASS	T	70314629	T	T	70314629	3	4	32	1	0	0	0	0	1	0	0	0	8365	933	33	2	563	2	KLHL1	13	70314629	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	28671919	70314629	44855249	204	13158										
EDNRB	1910	broad.mit.edu	37	chr13	78474768	78474768	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gacaaggaccaggcaaaagaCggttttggccacttcccgtc	11	12	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr13:78474768C>T	uc001vko.2	-	5	1231	c.973G>A	c.(973-975)GTC>ATC	p.V325I	EDNRB_uc001vkq.1_Missense_Mutation_p.V325I|uc001vkn.1_Intron|EDNRB_uc010aez.1_Missense_Mutation_p.V325I|EDNRB_uc001vkp.1_Missense_Mutation_p.V408I	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	325	Helical; Name=6; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	AGGCAAAAGACGGTTTTGGCC	0.418													38	89	---	---	---	---	PASS	T	78474768	T	T	78474768	3	4	32	1	0	0	0	0	1	0	0	0	4920	536	19	1	488	1	EDNRB	13	78474768	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	8160139	78474768	36695110	205	13159										
DCT	1638	broad.mit.edu	37	chr13	95131309	95131309	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ggaccactccagggccttgtGtcggctcgcacctctgtgca	12	15	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr13:95131309G>C	uc001vlv.3	-	1	628	c.201C>G	c.(199-201)GAC>GAG	p.D67E	DCT_uc010afh.2_Missense_Mutation_p.D67E	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	67	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		AGGGCCTTGTGTCGGCTCGCA	0.607													7	150	---	---	---	---	PASS	C	95131309	C	C	95131309	3	2	32	1	0	0	0	0	1	0	0	0	4304	1368	48	4	1497	4	DCT	13	95131309	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	16656541	95131309	20038569	206	13160										
ABCC4	10257	broad.mit.edu	37	chr13	95715008	95715008	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atcgtgaagtccaatttcagTtgtcaagatcttatcaatcc	6	9	4	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr13:95715008T>C	uc001vmd.3	-	26	3435	c.3316A>G	c.(3316-3318)ACT>GCT	p.T1106A	ABCC4_uc010afj.2_5'UTR|ABCC4_uc010afk.2_Missense_Mutation_p.T1059A	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	1106	ABC transporter 2.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	CCAATTTCAGTTGTCAAGATC	0.413													58	229	---	---	---	---	PASS	C	95715008	C	C	95715008	3	2	32	1	0	0	0	0	1	0	0	0	55	1725	60	5	685	5	ABCC4	13	95715008	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	583699	95715008	19454870	207	13161										
EFNB2	1948	broad.mit.edu	37	chr13	107145564	107145564	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gttgttgttgccgctgcgctTgggtgtggccagtgtgctga	17	8	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr13:107145564T>A	uc001vqi.2	-	5	851	c.826A>T	c.(826-828)AAG>TAG	p.K276*		NM_004093	NP_004084	P52799	EFNB2_HUMAN	ephrin B2 precursor	276	Cytoplasmic (Potential).				cell differentiation|cell-cell signaling|interspecies interaction between organisms|nervous system development	integral to plasma membrane	ephrin receptor binding			ovary(1)	1	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					CCGCTGCGCTTGGGTGTGGCC	0.597													36	88	---	---	---	---	PASS	A	107145564	A	A	107145564	4	1	32	1	0	0	0	0	0	1	0	0	4956	1821	63	5	179	5	EFNB2	13	107145564	Nonsense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	11430556	107145564	8024314	208	13162										
MYH6	4624	broad.mit.edu	37	chr14	23854130	23854130	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgggcggtcacttacatccgTgatggccttcttggccttct	11	12	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr14:23854130T>G	uc001wjv.2	-	35	5351	c.5284A>C	c.(5284-5286)ACG>CCG	p.T1762P		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1762	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CTTACATCCGTGATGGCCTTC	0.582													28	150	---	---	---	---	PASS	G	23854130	G	G	23854130	3	3	32	1	0	0	0	0	1	0	0	0	10038	1696	59	5	555	5	MYH6	14	23854130	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08		23854130	83495410	209	13163										
AKAP6	9472	broad.mit.edu	37	chr14	33291373	33291373	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtattaccaaacatacccctGactgtttgggagaagaatta	8	8	0	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr14:33291373G>A	uc001wrq.2	+	13	4524	c.4354G>A	c.(4354-4356)GAC>AAC	p.D1452N		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1452					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		ACATACCCCTGACTGTTTGGG	0.358													27	61	---	---	---	---	PASS	A	33291373	A	A	33291373	3	1	32	1	0	0	0	0	1	0	0	0	455	1290	45	2	4400	2	AKAP6	14	33291373	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	9437243	33291373	74058167	210	13164										
ARID4A	5926	broad.mit.edu	37	chr14	58814583	58814583	+	Nonsense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgaaagagaagagatagaatTaaaatctccgagggtgagtt	12	3	1	5			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr14:58814583T>G	uc001xdp.2	+	15	1645	c.1391T>G	c.(1390-1392)TTA>TGA	p.L464*	ARID4A_uc001xdo.2_Nonsense_Mutation_p.L464*|ARID4A_uc001xdq.2_Nonsense_Mutation_p.L464*|ARID4A_uc010apg.1_Nonsense_Mutation_p.L142*	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	464					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						GAGATAGAATTAAAATCTCCG	0.294													18	54	---	---	---	---	PASS	G	58814583	G	G	58814583	4	3	32	1	0	0	0	0	0	1	0	0	919	1764	61	5	1445	5	ARID4A	14	58814583	Nonsense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	25523210	58814583	48534957	211	13165										
PAPLN	89932	broad.mit.edu	37	chr14	73726051	73726051	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acaggggagaacgaggtgacCccaggggcgaccaaggcacc	16	12	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr14:73726051C>G	uc010ttx.1	+	15	1946	c.1783C>G	c.(1783-1785)CCC>GCC	p.P595A	PAPLN_uc001xnw.3_Missense_Mutation_p.P568A|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.P595A|PAPLN_uc010arm.2_5'Flank	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	595						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		ACGAGGTGACCCCAGGGGCGA	0.662													17	118	---	---	---	---	PASS	G	73726051	G	G	73726051	3	3	32	1	0	0	0	0	1	0	0	0	11428	623	22	4	1756	4	PAPLN	14	73726051	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	14911468	73726051	33623489	212	13166										
HERC2	8924	broad.mit.edu	37	chr15	28358790	28358790	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aacgcgggccattccttcccGaacagcagccacctgctcat	8	17	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr15:28358790G>A	uc001zbj.2	-	91	14054	c.13948C>T	c.(13948-13950)CGG>TGG	p.R4650W	HERC2_uc001zbi.2_Missense_Mutation_p.R339W	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4650	HECT.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ATTCCTTCCCGAACAGCAGCC	0.542													14	33	---	---	---	---	PASS	A	28358790	A	A	28358790	3	1	32	1	0	0	0	0	1	0	0	0	7058	1057	37	2	568	2	HERC2	15	28358790	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08		28358790	74172602	213	13167										
EIF2AK4	440275	broad.mit.edu	37	chr15	40241344	40241344	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tctttgaactggcttaccacGtgcagtcatttctcagcgag	9	11	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr15:40241344G>A	uc001zkm.1	+	4	438	c.388G>A	c.(388-390)GTG>ATG	p.V130M	EIF2AK4_uc001zkl.2_Missense_Mutation_p.V130M	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	130	RWD.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		GGCTTACCACGTGCAGTCATT	0.468													16	296	---	---	---	---	PASS	A	40241344	A	A	40241344	3	1	32	1	0	0	0	0	1	0	0	0	4999	1145	40	1	402	1	EIF2AK4	15	40241344	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	11882554	40241344	62290048	214	13168										
MAPKBP1	23005	broad.mit.edu	37	chr15	42109934	42109934	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgccaggaccgaaatattcgGtgggcgtcccctcctcagac	11	14	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr15:42109934G>T	uc001zok.3	+	17	2208	c.1922_splice	c.e17+1	p.R641_splice	MAPKBP1_uc001zoj.3_Splice_Site_p.R635_splice|MAPKBP1_uc010bcj.2_Splice_Site_p.R142_splice|MAPKBP1_uc010bci.2_Splice_Site_p.R635_splice|MAPKBP1_uc010udb.1_Splice_Site_p.R474_splice|MAPKBP1_uc010bck.2_Splice_Site|MAPKBP1_uc010bcl.2_Splice_Site_p.R142_splice	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein											central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		GAAATATTCGGTGGGCGTCCC	0.572													10	19	---	---	---	---	PASS	T	42109934	T	T	42109934	5	4	32	1	0	0	0	0	0	0	1	0	9292	1275	44	3	1985	3	MAPKBP1	15	42109934	Splice_Site	SNP	G	TCGA-22-1012-01A-01D-1521-08	1868590	42109934	60421458	215	13169										
HDC	3067	broad.mit.edu	37	chr15	50534807	50534807	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aaagcagtcatcaactgggtCcagcagggtttcaagatgga	12	8	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr15:50534807C>G	uc001zxz.2	-	12	1745	c.1639G>C	c.(1639-1641)GAC>CAC	p.D547H	HDC_uc001zxy.2_Missense_Mutation_p.D290H|HDC_uc010uff.1_Missense_Mutation_p.D514H	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	547					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	TCAACTGGGTCCAGCAGGGTT	0.522													30	129	---	---	---	---	PASS	G	50534807	G	G	50534807	3	3	32	1	0	0	0	0	1	0	0	0	7015	855	30	2	353	2	HDC	15	50534807	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	8424873	50534807	51996585	216	13170										
RFX7	64864	broad.mit.edu	37	chr15	56386134	56386134	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttcattcccaaacctctcacTgcatcatcattgtcggaatc	4	14	4	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr15:56386134T>C	uc010bfn.2	-	9	3792	c.3792A>G	c.(3790-3792)GCA>GCG	p.A1264A	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Silent_p.A1078A	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	1167					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						AACCTCTCACTGCATCATCAT	0.423													37	75	---	---	---	---	PASS	C	56386134	C	C	56386134	2	2	32	1	0	0	0	0	0	0	0	1	13268	1567	55	5		5	RFX7	15	56386134	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	5851327	56386134	46145258	217	13171										
SCAPER	49855	broad.mit.edu	37	chr15	77021063	77021063	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ggcctgccgctctgcctctaGagctctcttgcgttcctaat	9	15	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr15:77021063G>C	uc002bby.2	-	16	2097	c.2038C>G	c.(2038-2040)CTA>GTA	p.L680V	SCAPER_uc010bkr.2_5'UTR|SCAPER_uc002bbx.2_Missense_Mutation_p.L434V|SCAPER_uc002bbz.1_Missense_Mutation_p.L551V|SCAPER_uc002bca.1_Missense_Mutation_p.L545V|SCAPER_uc002bcb.1_Missense_Mutation_p.L686V	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	679	Glu-rich.			RAL->AAA: No effect on CCNA2/CDK2 complex-binding.		endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						TCTGCCTCTAGAGCTCTCTTG	0.368													7	33	---	---	---	---	PASS	C	77021063	C	C	77021063	3	2	32	1	0	0	0	0	1	0	0	0	13878	933	33	2	2228	2	SCAPER	15	77021063	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	20634929	77021063	25510329	218	13172										
ACSBG1	23205	broad.mit.edu	37	chr15	78486325	78486325	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	accactccggggagttgaagCcgaggatggccacactgtgg	15	11	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr15:78486325C>A	uc002bdh.2	-	4	547	c.491G>T	c.(490-492)GGC>GTC	p.G164V	ACSBG1_uc010umw.1_Missense_Mutation_p.G160V|ACSBG1_uc010umx.1_Intron|ACSBG1_uc010umy.1_Missense_Mutation_p.G57V	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	164					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						GGAGTTGAAGCCGAGGATGGC	0.662													5	37	---	---	---	---	PASS	A	78486325	A	A	78486325	3	1	32	1	0	0	0	0	1	0	0	0	173	739	26	3	1727	3	ACSBG1	15	78486325	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	1465262	78486325	24045067	219	13173										
ST8SIA2	8128	broad.mit.edu	37	chr15	92977483	92977483	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tttttcccttccagagctgaAgttgtaataaacggctcctc	7	11	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr15:92977483A>T	uc002bra.2	+	3	323	c.168A>T	c.(166-168)GAA>GAT	p.E56D	ST8SIA2_uc002brb.2_Missense_Mutation_p.E35D	NM_006011	NP_006002	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide	56	Lumenal (Potential).				axon guidance|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity				0	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			CCAGAGCTGAAGTTGTAATAA	0.433													35	198	---	---	---	---	PASS	T	92977483	T	T	92977483	3	4	32	1	0	0	0	0	1	0	0	0	15231	69	3	5	178	5	ST8SIA2	15	92977483	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	14491158	92977483	9553909	220	13174										
SOLH	6650	broad.mit.edu	37	chr16	597775	597775	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gcaccagccgcgtagaggccGgcagctccacctcgggcagt	14	16	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr16:597775G>A	uc002chi.2	+	4	1300	c.937G>A	c.(937-939)GGC>AGC	p.G313S	SOLH_uc002chh.1_Missense_Mutation_p.G313S	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	313					proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				CGTAGAGGCCGGCAGCTCCAC	0.677													14	17	---	---	---	---	PASS	A	597775	A	A	597775	3	1	32	1	0	0	0	0	1	0	0	0	14925	1116	39	1	939	1	SOLH	16	597775	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08		597775	89756978	221	13175										
SEPT12	124404	broad.mit.edu	37	chr16	4836106	4836106	+	Missense_Mutation	SNP	C	A	A													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acttgcccagcccgctttgcCctgggagtggcaaccggatg							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr16:4836106C>A	uc002cxq.2	-	3	308	c.167G>T	c.(166-168)GGG>GTG	p.G56V	SEPT12_uc002cxr.2_Missense_Mutation_p.G56V|SEPT12_uc010bty.2_RNA|uc002cxt.2_5'Flank	NM_144605	NP_653206	Q8IYM1	SEP12_HUMAN	septin 12 isoform 2	56	GTP (By similarity).			G->N: Abolishes binding to GTP and to SEPT11, and also abolishes the ability of SEPT12 to form filamentous structures.	cell cycle|cell division	cleavage furrow|midbody|perinuclear region of cytoplasm|septin complex|spindle|stress fiber	GDP binding|GTP binding|phosphatidylinositol binding|protein homodimerization activity			skin(1)	1						CCCGCTTTGCCCTGGGAGTGG	0.478													19	43	---	---	---	---	PASS	A	4836106	A	A	4836106	3	1	32	1	0	0	0	0	1	0	0	0	14062	637	22	3	941	3	SEPT12	16	4836106	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	4238331	4836106	85518647	222	13176	341	2								
SEPT12	124404	broad.mit.edu	37	chr16	4836107	4836107	+	Splice_Site	SNP	C	A	A													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cttgcccagcccgctttgccCtgggagtggcaaccggatga							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr16:4836107C>A	uc002cxq.2	-	3	308	c.167_splice	c.e3-1	p.G56_splice	SEPT12_uc002cxr.2_Splice_Site_p.G56_splice|SEPT12_uc010bty.2_Splice_Site|uc002cxt.2_5'Flank	NM_144605	NP_653206	Q8IYM1	SEP12_HUMAN	septin 12 isoform 2						cell cycle|cell division	cleavage furrow|midbody|perinuclear region of cytoplasm|septin complex|spindle|stress fiber	GDP binding|GTP binding|phosphatidylinositol binding|protein homodimerization activity			skin(1)	1						CCGCTTTGCCCTGGGAGTGGC	0.473													20	44	---	---	---	---	PASS	A	4836107	A	A	4836107	5	1	32	1	0	0	0	0	0	0	1	0	14062	695	24	3	942	3	SEPT12	16	4836107	Splice_Site	SNP	C	TCGA-22-1012-01A-01D-1521-08	1	4836107	85518646	223	13177	341	2								
TMEM186	25880	broad.mit.edu	37	chr16	8890269	8890269	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aggttctgatggcatcaaaaCggtaaaacatccagaatttc	8	8	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr16:8890269C>T	uc002cze.2	-	2	216	c.182G>A	c.(181-183)CGT>CAT	p.R61H	PMM2_uc002czf.3_5'Flank|PMM2_uc010uyf.1_5'Flank|PMM2_uc010uyg.1_5'Flank|PMM2_uc010uyh.1_5'Flank|PMM2_uc010buj.2_5'Flank|PMM2_uc010uyi.1_5'Flank|PMM2_uc010uye.1_5'Flank	NM_015421	NP_056236	Q96B77	TM186_HUMAN	transmembrane protein 186	61						integral to membrane|mitochondrion				ovary(1)	1						GGCATCAAAACGGTAAAACAT	0.512													45	132	---	---	---	---	PASS	T	8890269	T	T	8890269	3	4	32	1	0	0	0	0	1	0	0	0	16105	536	19	1	463	1	TMEM186	16	8890269	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	4054162	8890269	81464484	224	13178										
NSMCE1	197370	broad.mit.edu	37	chr16	27268767	27268767	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ggtactcacggtcatggaccTtgtagcagtgcgtctgcaag	13	10	3	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr16:27268767T>C	uc002doi.1	-	2	223	c.125A>G	c.(124-126)AAG>AGG	p.K42R	NSMCE1_uc002doj.1_RNA	NM_145080	NP_659547	Q8WV22	NSE1_HUMAN	non-SMC element 1 homolog	42					DNA recombination|DNA repair|intracellular signal transduction	nucleus	zinc ion binding				0						GTCATGGACCTTGTAGCAGTG	0.547													25	202	---	---	---	---	PASS	C	27268767	C	C	27268767	3	2	32	1	0	0	0	0	1	0	0	0	10675	1609	56	5	703	5	NSMCE1	16	27268767	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	18378498	27268767	63085986	225	13179										
KIAA0556	23247	broad.mit.edu	37	chr16	27751428	27751428	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acctcatcttcaatggcaagTtagacaaaggagatagggag	11	7	3	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr16:27751428T>G	uc002dow.2	+	15	1834	c.1810T>G	c.(1810-1812)TTA>GTA	p.L604V		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	604										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						CAATGGCAAGTTAGACAAAGG	0.473													54	120	---	---	---	---	PASS	G	27751428	G	G	27751428	3	3	32	1	0	0	0	0	1	0	0	0	8183	1722	60	5	1868	5	KIAA0556	16	27751428	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	482661	27751428	62603325	226	13180										
GOT2	2806	broad.mit.edu	37	chr16	58750702	58750702	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtaggccatgtcaaagaacgCaaagagattccttttctgag	10	8	2	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr16:58750702C>A	uc002eof.1	-	7	832	c.718G>T	c.(718-720)GCG>TCG	p.A240S	GOT2_uc010vim.1_Missense_Mutation_p.A197S	NM_002080	NP_002071	P00505	AATM_HUMAN	aspartate aminotransferase 2 precursor	240					aspartate catabolic process|fatty acid transport|gluconeogenesis|response to ethanol	mitochondrial matrix|plasma membrane	L-aspartate:2-oxoglutarate aminotransferase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	TCAAAGAACGCAAAGAGATTC	0.453													22	76	---	---	---	---	PASS	A	58750702	A	A	58750702	3	1	32	1	0	0	0	0	1	0	0	0	6581	710	25	3	590	3	GOT2	16	58750702	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	30999274	58750702	31604051	227	13181										
C16orf48	84080	broad.mit.edu	37	chr16	67698949	67698949	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cttgtcgtacttgggtgagcGccacagagctttcaggggcc	14	11	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr16:67698949G>A	uc002etw.1	-	3	686	c.403C>T	c.(403-405)CGC>TGC	p.R135C	C16orf48_uc002etv.1_5'Flank|C16orf48_uc010cem.1_Missense_Mutation_p.R135C|C16orf86_uc002etx.1_5'Flank|C16orf86_uc002ety.2_5'Flank|C16orf86_uc002etz.2_5'Flank	NM_032140	NP_115516	Q9H0I2	CP048_HUMAN	hypothetical protein LOC84080	135						microtubule cytoskeleton	protein binding				0		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		TTGGGTGAGCGCCACAGAGCT	0.597													7	245	---	---	---	---	PASS	A	67698949	A	A	67698949	3	1	32	1	0	0	0	0	1	0	0	0	1816	1087	38	1	657	1	C16orf48	16	67698949	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	8948247	67698949	22655804	228	13182										
WWP2	11060	broad.mit.edu	37	chr16	69965469	69965469	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccaggcagacgcttttcgaaGattccttccaacaggttaga	9	11	0	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr16:69965469G>T	uc002exu.1	+	16	1668	c.1579G>T	c.(1579-1581)GAT>TAT	p.D527Y	WWP2_uc002exv.1_Missense_Mutation_p.D527Y|WWP2_uc010vlm.1_Missense_Mutation_p.D411Y|WWP2_uc010vln.1_Missense_Mutation_p.D145Y|WWP2_uc002exw.1_Missense_Mutation_p.D88Y|uc002exx.1_5'Flank|MIR140_hsa-mir-140|MI0000456_5'Flank	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	527					entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						GCTTTTCGAAGATTCCTTCCA	0.502													32	64	---	---	---	---	PASS	T	69965469	T	T	69965469	3	4	32	1	0	0	0	0	1	0	0	0	17413	942	33	2	1637	2	WWP2	16	69965469	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	2266520	69965469	20389284	229	13183										
BCAR1	9564	broad.mit.edu	37	chr16	75263596	75263596	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgtagtgggtcacctggctgCgcacgtcagcagccttggcc	14	13	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr16:75263596C>T	uc002fdv.2	-	7	2549	c.2426G>A	c.(2425-2427)CGC>CAC	p.R809H	BCAR1_uc002fdt.2_Missense_Mutation_p.R262H|BCAR1_uc002fdu.2_Missense_Mutation_p.R599H|BCAR1_uc010cgu.2_Missense_Mutation_p.R798H|BCAR1_uc010vna.1_Missense_Mutation_p.R807H|BCAR1_uc010vnb.1_Missense_Mutation_p.R855H|BCAR1_uc002fdw.2_Missense_Mutation_p.R809H|BCAR1_uc010vnc.1_Missense_Mutation_p.R661H|BCAR1_uc010vnd.1_Missense_Mutation_p.R827H|BCAR1_uc002fdx.2_Missense_Mutation_p.R827H	NM_014567	NP_055382	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	809					actin filament organization|B cell receptor signaling pathway|blood coagulation|cell adhesion|cell division|cell migration|cell proliferation|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|integrin-mediated signaling pathway|nerve growth factor receptor signaling pathway|platelet-derived growth factor receptor signaling pathway|positive regulation of cell migration|regulation of apoptosis|regulation of cell growth|T cell receptor signaling pathway	cytosol|focal adhesion|membrane fraction|ruffle	protein kinase binding|protein phosphatase binding|SH3 domain binding|signal transducer activity			central_nervous_system(5)|breast(2)|prostate(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.169)		CACCTGGCTGCGCACGTCAGC	0.632													14	44	---	---	---	---	PASS	T	75263596	T	T	75263596	3	4	32	1	0	0	0	0	1	0	0	0	1348	768	27	1	190	1	BCAR1	16	75263596	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	5298127	75263596	15091157	230	13184										
PKD1L2	114780	broad.mit.edu	37	chr16	81161381	81161381	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cttaccttgacgtgctttggCgatcagtccccaaggggacc	11	13	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr16:81161381C>T	uc002fgh.1	-	38	6335	c.6335G>A	c.(6334-6336)CGC>CAC	p.R2112H	PKD1L2_uc002fgf.1_5'UTR|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	2112	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CGTGCTTTGGCGATCAGTCCC	0.517													14	37	---	---	---	---	PASS	T	81161381	T	T	81161381	3	4	32	1	0	0	0	0	1	0	0	0	11965	768	27	1	1076	1	PKD1L2	16	81161381	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	5897785	81161381	9193372	231	13185										
PKD1L2	114780	broad.mit.edu	37	chr16	81248675	81248675	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tccagatctgaaggacgcccGgcatcctgggtgcagaaatg	13	11	1	3	rs79108751	byFrequency	TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr16:81248675G>T	uc002fgh.1	-	3	588	c.588C>A	c.(586-588)GCC>GCA	p.A196A	PKD1L2_uc002fgj.2_Silent_p.A196A	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	196	SUEL-type lectin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AAGGACGCCCGGCATCCTGGG	0.642											OREG0023964	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	10	---	---	---	---	PASS	T	81248675	T	T	81248675	2	4	32	1	0	0	0	0	0	0	0	1	11965	1103	39	1		1	PKD1L2	16	81248675	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	87294	81248675	9106078	232	13186										
PRPF8	10594	broad.mit.edu	37	chr17	1585256	1585256	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtccaagggcggctcctcatCatcaaaagggggaaaacgca	12	11	3	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:1585256C>A	uc002fte.2	-	5	625	c.511G>T	c.(511-513)GAT>TAT	p.D171Y		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	171						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		GGCTCCTCATCATCAAAAGGG	0.512													4	156	---	---	---	---	PASS	A	1585256	A	A	1585256	3	1	32	1	0	0	0	0	1	0	0	0	12575	826	29	2	6652	2	PRPF8	17	1585256	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08		1585256	79609954	233	13187										
CTNS	1497	broad.mit.edu	37	chr17	3561418	3561418	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acgtggctgcagtttctcttCtgcttctcctacatcaagct	7	13	4	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:3561418C>A	uc002fwb.2	+	10	1394	c.801C>A	c.(799-801)TTC>TTA	p.F267L	CTNS_uc002fwa.2_Missense_Mutation_p.F267L|CTNS_uc010ckj.2_Missense_Mutation_p.F267L|CTNS_uc010vrv.1_Missense_Mutation_p.F120L|CTNS_uc010vrw.1_Missense_Mutation_p.F159L	NM_004937	NP_004928	O60931	CTNS_HUMAN	cystinosin isoform 2	267	Helical; (Potential).|PQ-loop 2.				ATP metabolic process|brain development|cognition|glutathione metabolic process	integral to membrane|late endosome|lysosomal membrane	L-cystine transmembrane transporter activity				0				COAD - Colon adenocarcinoma(5;0.0829)	L-Cystine(DB00138)	AGTTTCTCTTCTGCTTCTCCT	0.587													6	112	---	---	---	---	PASS	A	3561418	A	A	3561418	3	1	32	1	0	0	0	0	1	0	0	0	4021	912	32	2	831	2	CTNS	17	3561418	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	1976162	3561418	77633792	234	13188										
TP53	7157	broad.mit.edu	37	chr17	7578177	7578177	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	accccagttgcaaaccagacCtcaggcggctcatagggcac	10	15	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:7578177C>G	uc002gim.2	-	6	866	c.672G>C	c.(670-672)GAG>GAC	p.E224D	TP53_uc002gig.1_Missense_Mutation_p.E224D|TP53_uc002gih.2_Missense_Mutation_p.E224D|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.E92D|TP53_uc010cng.1_Missense_Mutation_p.E92D|TP53_uc002gii.1_Missense_Mutation_p.E92D|TP53_uc010cnh.1_Missense_Mutation_p.E224D|TP53_uc010cni.1_Missense_Mutation_p.E224D|TP53_uc002gij.2_Missense_Mutation_p.E224D|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.E131D|TP53_uc002gio.2_Missense_Mutation_p.E92D|TP53_uc010vug.1_Missense_Mutation_p.E185D	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	224	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> D (in sporadic cancers; somatic mutation).|E -> G (in sporadic cancers; somatic mutation).|E -> V (in a sporadic cancer; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.E224D(11)|p.0?(7)|p.E224E(6)|p.E224K(5)|p.E224*(4)|p.?(3)|p.E224G(2)|p.E224fs*4(1)|p.E224fs*5(1)|p.V218_E224delVPYEPPE(1)|p.E224fs*23(1)|p.V225fs*24(1)|p.E224fs*24(1)|p.E224_V225insXX(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)		CAAACCAGACCTCAGGCGGCT	0.522		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)			15	35	---	---	---	---	PASS	G	7578177	G	G	7578177	3	3	32	1	0	0	0	0	1	0	0	0	16378	695	24	4	622	4	TP53	17	7578177	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	4016759	7578177	73617033	235	13189										
UNC45B	146862	broad.mit.edu	37	chr17	33498393	33498393	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	caccaccctggtgaactgcaCcaacagctacgatgtcaagg	9	14	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:33498393C>G	uc002hja.2	+	13	1845	c.1748C>G	c.(1747-1749)ACC>AGC	p.T583S	UNC45B_uc002hjb.2_Missense_Mutation_p.T581S|UNC45B_uc002hjc.2_Missense_Mutation_p.T581S|UNC45B_uc010cto.2_Missense_Mutation_p.T502S	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	583					cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				GTGAACTGCACCAACAGCTAC	0.567											OREG0024327	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	183	---	---	---	---	PASS	G	33498393	G	G	33498393	3	3	32	1	0	0	0	0	1	0	0	0	16986	507	18	4	1794	4	UNC45B	17	33498393	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	25920216	33498393	47696817	236	13190										
TMEM99	147184	broad.mit.edu	37	chr17	38991294	38991294	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccgatgcctgcccatcagttCtttactctgaggtgttagag	10	11	3	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:38991294C>G	uc002hvj.1	+	3	833	c.526C>G	c.(526-528)CTT>GTT	p.L176V		NM_145274	NP_660317	Q8N816	TMM99_HUMAN	transmembrane protein 99 precursor	176						integral to membrane				skin(1)	1		Breast(137;0.000301)				CCCATCAGTTCTTTACTCTGA	0.393													33	288	---	---	---	---	PASS	G	38991294	G	G	38991294	3	3	32	1	0	0	0	0	1	0	0	0	16223	913	32	2	528	2	TMEM99	17	38991294	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	5492901	38991294	42203916	237	13191										
KRT31	3881	broad.mit.edu	37	chr17	39550377	39550377	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tggagagacagggtccgatgGgcttgctgcacgcgttggtc	17	9	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:39550377G>T	uc002hwn.2	-	7	1195	c.1142C>A	c.(1141-1143)CCC>CAC	p.P381H	KRT31_uc010cxn.2_3'UTR	NM_002277	NP_002268	Q15323	K1H1_HUMAN	keratin 31	381	Tail.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000496)				GGGTCCGATGGGCTTGCTGCA	0.557													24	109	---	---	---	---	PASS	T	39550377	T	T	39550377	3	4	32	1	0	0	0	0	1	0	0	0	8467	1232	43	3	112	3	KRT31	17	39550377	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	559083	39550377	41644833	238	13192										
JUP	3728	broad.mit.edu	37	chr17	39912009	39912009	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aggccgcctaggccagcatgTggtctgcagtggggtacggg	18	10	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:39912009T>C	uc002hxq.2	-	14	2502	c.2225A>G	c.(2224-2226)CAC>CGC	p.H742R	JUP_uc010wfs.1_Intron|JUP_uc002hxr.2_Missense_Mutation_p.H742R|JUP_uc002hxs.2_Missense_Mutation_p.H742R	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	742					adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		GGCCAGCATGTGGTCTGCAGT	0.637													17	60	---	---	---	---	PASS	C	39912009	C	C	39912009	3	2	32	1	0	0	0	0	1	0	0	0	7972	1696	59	5	16	5	JUP	17	39912009	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	361632	39912009	41283201	239	13193										
DBF4B	80174	broad.mit.edu	37	chr17	42815778	42815778	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aaggccccgttcctcaaaatCgaagatgaaagcaggtgagt	11	9	1	3	rs61660093		TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:42815778C>G	uc002ihf.2	+	9	912	c.699C>G	c.(697-699)ATC>ATG	p.I233M	DBF4B_uc010wjb.1_RNA|DBF4B_uc002ihe.2_Missense_Mutation_p.I47M|DBF4B_uc010wjc.1_Missense_Mutation_p.I217M	NM_145663	NP_663696	Q8NFT6	DBF4B_HUMAN	DBF4 homolog B isoform 1	233					cell cycle	nucleus	nucleic acid binding|zinc ion binding				0		Prostate(33;0.0322)				TCCTCAAAATCGAAGATGAAA	0.587													54	168	---	---	---	---	PASS	G	42815778	G	G	42815778	3	3	32	1	0	0	0	0	1	0	0	0	4249	874	31	2	778	2	DBF4B	17	42815778	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	2903769	42815778	38379432	240	13194										
KIF18B	146909	broad.mit.edu	37	chr17	43004447	43004447	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgaacaggggcacaggtgccCtggggagggaggacagggaa	20	7	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:43004447C>T	uc010wji.1	-	14	2387	c.2286_splice	c.e14-1	p.R762_splice	KIF18B_uc002iht.2_Splice_Site_p.R771_splice|KIF18B_uc010wjh.1_Splice_Site_p.R759_splice	NM_001080443	NP_001073912			kinesin family member 18B											ovary(2)	2		Prostate(33;0.155)				CACAGGTGCCCTGGGGAGGGA	0.463													10	26	---	---	---	---	PASS	T	43004447	T	T	43004447	5	4	32	1	0	0	0	0	0	0	1	0	8281	695	24	3	293	3	KIF18B	17	43004447	Splice_Site	SNP	C	TCGA-22-1012-01A-01D-1521-08	188669	43004447	38190763	241	13195										
MAPT	4137	broad.mit.edu	37	chr17	44096082	44096082	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atatcacccacgtccctggcGgaggaaataaaaaggtaaag	10	9	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:44096082G>A	uc002ijr.3	+	13	2367	c.2047G>A	c.(2047-2049)GGA>AGA	p.G683R	MAPT_uc010dau.2_Missense_Mutation_p.G701R|MAPT_uc002ijs.3_Missense_Mutation_p.G366R|MAPT_uc002ijx.3_Missense_Mutation_p.G337R|MAPT_uc002ijt.3_Missense_Mutation_p.G308R|MAPT_uc002iju.3_Missense_Mutation_p.G277R|MAPT_uc002ijv.3_Missense_Mutation_p.G284R	NM_016835	NP_058519	P10636	TAU_HUMAN	microtubule-associated protein tau isoform 1	683	Tau/MAP 4.				cellular component disassembly involved in apoptosis|microtubule cytoskeleton organization|negative regulation of microtubule depolymerization|positive regulation of axon extension|positive regulation of microtubule polymerization|regulation of autophagy	axon|cytosol|growth cone|microtubule|microtubule associated complex|nuclear periphery|plasma membrane|tubulin complex	apolipoprotein E binding|enzyme binding|identical protein binding|lipoprotein particle binding|microtubule binding|protein binding|SH3 domain binding|structural constituent of cytoskeleton			pancreas(1)	1		Melanoma(429;0.216)				CGTCCCTGGCGGAGGAAATAA	0.512													62	164	---	---	---	---	PASS	A	44096082	A	A	44096082	3	1	32	1	0	0	0	0	1	0	0	0	9297	1117	39	1	2151	1	MAPT	17	44096082	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1091635	44096082	37099128	242	13196										
WNT9B	7484	broad.mit.edu	37	chr17	44952487	44952487	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gcttcaaagagacagctttcCtgtacgcggtgtcctctgcc	10	13	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:44952487C>G	uc002ikw.1	+	3	392	c.355C>G	c.(355-357)CTG>GTG	p.L119V	WNT9B_uc002ikx.1_Missense_Mutation_p.L119V	NM_003396	NP_003387	O14905	WNT9B_HUMAN	wingless-type MMTV integration site family,	119					anterior/posterior pattern formation|axis specification|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|collecting duct development|cornea development in camera-type eye|endoderm development|establishment of planar polarity involved in nephron morphogenesis|kidney rudiment formation|male genitalia development|mesonephric duct formation|metanephric tubule development|neuron differentiation|palate development|regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|uterus morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway|Wnt receptor signaling pathway, planar cell polarity pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			GACAGCTTTCCTGTACGCGGT	0.542													40	388	---	---	---	---	PASS	G	44952487	G	G	44952487	3	3	32	1	0	0	0	0	1	0	0	0	17396	680	24	4	365	4	WNT9B	17	44952487	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	856405	44952487	36242723	243	13197										
CDC27	996	broad.mit.edu	37	chr17	45232092	45232092	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	attacaggaggtgtattagtGtagttttgtaaataggatcc	11	3	0	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:45232092G>A	uc002ild.3	-	8	1030	c.903C>T	c.(901-903)TAC>TAT	p.Y301Y	CDC27_uc002ile.3_Silent_p.Y301Y|CDC27_uc002ilf.3_Silent_p.Y301Y|CDC27_uc010wkp.1_Silent_p.Y240Y|CDC27_uc010wkq.1_RNA	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2	301					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5						GTGTATTAGTGTAGTTTTGTA	0.388													17	62	---	---	---	---	PASS	A	45232092	A	A	45232092	2	1	32	1	0	0	0	0	0	0	0	1	3066	1372	48	3		3	CDC27	17	45232092	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	279605	45232092	35963118	244	13198										
ABCC3	8714	broad.mit.edu	37	chr17	48745019	48745019	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgggagcccagcttcctgaaGcaggtggagggcatcaggca	16	10	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:48745019G>T	uc002isl.2	+	12	1616	c.1536G>T	c.(1534-1536)AAG>AAT	p.K512N	ABCC3_uc002isk.3_Missense_Mutation_p.K512N	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	512	ABC transmembrane type-1 1.|Cytoplasmic (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	GCTTCCTGAAGCAGGTGGAGG	0.592													21	51	---	---	---	---	PASS	T	48745019	T	T	48745019	3	4	32	1	0	0	0	0	1	0	0	0	54	962	34	3	1582	3	ABCC3	17	48745019	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	3512927	48745019	32450191	245	13199										
ACE	1636	broad.mit.edu	37	chr17	61560819	61560819	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	caatttaaccatccttttccAgaaccaagtatcaggggatc	6	11	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:61560819A>G	uc002jau.1	+	10	1510	c.1488_splice	c.e10-2	p.R496_splice	ACE_uc010wpi.1_Splice_Site_p.E448_splice|ACE_uc010ddu.1_Splice_Site_p.R313_splice|ACE_uc002jav.1_5'Flank|ACE_uc010ddv.1_5'Flank|ACE_uc010wpj.1_5'Flank|ACE_uc002jaw.1_5'Flank|ACE_uc010wpk.1_5'Flank	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1						arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	ATCCTTTTCCAGAACCAAGTA	0.453													36	146	---	---	---	---	PASS	G	61560819	G	G	61560819	5	3	32	1	0	0	0	0	0	0	1	0	136	202	7	5	1524	5	ACE	17	61560819	Splice_Site	SNP	A	TCGA-22-1012-01A-01D-1521-08	12815800	61560819	19634391	246	13200										
SLC16A6	9120	broad.mit.edu	37	chr17	66267246	66267246	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tcttacgaatgggctccctgTtgaggacaaaaccagctccg	10	12	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:66267246T>A	uc002jgz.1	-	5	1243	c.1055A>T	c.(1054-1056)AAC>ATC	p.N352I	ARSG_uc002jhc.2_Intron|SLC16A6_uc002jha.1_Missense_Mutation_p.N352I	NM_004694	NP_004685	O15403	MOT7_HUMAN	solute carrier family 16, member 6	352	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity				0	all_cancers(12;1.24e-09)		BRCA - Breast invasive adenocarcinoma(8;3.17e-08)|LUSC - Lung squamous cell carcinoma(166;0.24)		Pyruvic acid(DB00119)	GGGCTCCCTGTTGAGGACAAA	0.458													26	130	---	---	---	---	PASS	A	66267246	A	A	66267246	3	1	32	1	0	0	0	0	1	0	0	0	14412	1725	60	5	524	5	SLC16A6	17	66267246	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	4706427	66267246	14927964	247	13201										
KCNJ2	3759	broad.mit.edu	37	chr17	68171404	68171404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cctcgcagacatcttcaccaCgtgtgtggacattcgctggc	10	14	2	1	rs104894585		TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr17:68171404C>A	uc010dfg.2	+	2	625	c.224C>A	c.(223-225)ACG>AAG	p.T75K	KCNJ2_uc002jir.2_Missense_Mutation_p.T75K	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	75	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					ATCTTCACCACGTGTGTGGAC	0.512													70	174	---	---	---	---	PASS	A	68171404	A	A	68171404	3	1	32	1	0	0	0	0	1	0	0	0	8051	536	19	1	226	1	KCNJ2	17	68171404	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	1904158	68171404	13023806	248	13202										
PSMA8	143471	broad.mit.edu	37	chr18	23731827	23731827	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgacaatttttataggacttActgctgatgctagagtagta	9	5	0	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr18:23731827A>G	uc002kvq.2	+	3	367	c.253A>G	c.(253-255)ACT>GCT	p.T85A	PSMA8_uc002kvo.2_Missense_Mutation_p.T41A|PSMA8_uc002kvp.2_Missense_Mutation_p.T79A|PSMA8_uc002kvr.2_Missense_Mutation_p.T53A	NM_144662	NP_653263	Q8TAA3	PSA7L_HUMAN	proteasome alpha 8 subunit isoform 1	85					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|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	threonine-type endopeptidase activity			skin(1)	1	all_cancers(21;0.000585)|Lung NSC(5;0.00148)|all_lung(6;0.0038)|Ovarian(20;0.124)		OV - Ovarian serous cystadenocarcinoma(3;0.000324)|all cancers(3;0.000954)|LUSC - Lung squamous cell carcinoma(2;0.181)			TATAGGACTTACTGCTGATGC	0.363													12	183	---	---	---	---	PASS	G	23731827	G	G	23731827	3	3	32	1	0	0	0	0	1	0	0	0	12673	391	14	5	263	5	PSMA8	18	23731827	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08		23731827	54345421	249	13203										
CDH2	1000	broad.mit.edu	37	chr18	25570124	25570124	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atgttgtcaacatggtaccgGcatgaagcccttcttcttgg	10	10	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr18:25570124G>A	uc002kwg.2	-	10	1994	c.1535C>T	c.(1534-1536)GCC>GTC	p.A512V	CDH2_uc010xbn.1_Missense_Mutation_p.A481V	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	512	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						CATGGTACCGGCATGAAGCCC	0.413													5	252	---	---	---	---	PASS	A	25570124	A	A	25570124	3	1	32	1	0	0	0	0	1	0	0	0	3105	1203	42	3	1213	3	CDH2	18	25570124	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1838297	25570124	52507124	250	13204										
PSTPIP2	9050	broad.mit.edu	37	chr18	43579495	43579495	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	catttctgctcatagttcttCtttgcctttgtcattatgaa	5	9	5	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr18:43579495C>A	uc002lbp.3	-	7	519	c.423G>T	c.(421-423)AAG>AAT	p.K141N	PSTPIP2_uc002lbq.3_Missense_Mutation_p.K141N	NM_024430	NP_077748	Q9H939	PPIP2_HUMAN	proline-serine-threonine phosphatase interacting	141	Potential.					membrane				ovary(1)	1						CATAGTTCTTCTTTGCCTTTG	0.498													4	166	---	---	---	---	PASS	A	43579495	A	A	43579495	3	1	32	1	0	0	0	0	1	0	0	0	12722	912	32	2	613	2	PSTPIP2	18	43579495	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	18009371	43579495	34497753	251	13205										
SERPINB13	5275	broad.mit.edu	37	chr18	61260205	61260205	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gggttgaaagcaaaacaaatGgtagagtatgggtgggtcat	15	3	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr18:61260205G>T	uc002ljc.2	+	5	640	c.472G>T	c.(472-474)GAA>TAA	p.E158*	SERPINB13_uc002ljd.2_5'UTR|SERPINB13_uc010xep.1_Nonsense_Mutation_p.E167*|SERPINB13_uc010xeq.1_Intron|SERPINB13_uc010xer.1_Intron	NM_012397	NP_036529	Q9UIV8	SPB13_HUMAN	serine (or cysteine) proteinase inhibitor, clade	158					regulation of proteolysis|response to UV	cytoplasm|extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)	1						CAAAACAAATGGTAGAGTATG	0.264													39	127	---	---	---	---	PASS	T	61260205	T	T	61260205	4	4	32	1	0	0	0	0	0	1	0	0	14100	1362	47	3	486	3	SERPINB13	18	61260205	Nonsense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	17680710	61260205	16817043	252	13206										
ZNF236	7776	broad.mit.edu	37	chr18	74625717	74625717	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttgtaggtgtgactattgcaAcaaaggctttaagaagtcca	10	6	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr18:74625717A>G	uc002lmi.2	+	18	3116	c.2918A>G	c.(2917-2919)AAC>AGC	p.N973S	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	973	C2H2-type 18.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GACTATTGCAACAAAGGCTTT	0.468													23	92	---	---	---	---	PASS	G	74625717	G	G	74625717	3	3	32	1	0	0	0	0	1	0	0	0	17786	43	2	5	2988	5	ZNF236	18	74625717	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	13365512	74625717	3451531	253	13207										
SALL3	27164	broad.mit.edu	37	chr18	76753289	76753289	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	caaggtcttcggcagcgacaGcgcgctccagatccacctgc	11	16	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr18:76753289G>C	uc002lmt.2	+	2	1298	c.1298G>C	c.(1297-1299)AGC>ACC	p.S433T	SALL3_uc010dra.2_Missense_Mutation_p.S40T	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	433	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		GGCAGCGACAGCGCGCTCCAG	0.622													11	27	---	---	---	---	PASS	C	76753289	C	C	76753289	3	2	32	1	0	0	0	0	1	0	0	0	13812	971	34	4	1304	4	SALL3	18	76753289	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	2127572	76753289	1323959	254	13208										
SPPL2B	56928	broad.mit.edu	37	chr19	2351493	2351493	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctgatgcagcgtggccagccCgctctcctctacctggtgcc	11	17	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:2351493C>T	uc002lvs.2	+	15	1496	c.1416C>T	c.(1414-1416)CCC>CCT	p.P472P	SPPL2B_uc002lvr.2_Silent_p.P472P	NM_152988	NP_694533	Q8TCT7	PSL1_HUMAN	signal peptide peptidase-like 2B isoform 2	472						Golgi membrane|integral to membrane	aspartic-type endopeptidase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTGGCCAGCCCGCTCTCCTCT	0.682													80	76	---	---	---	---	PASS	T	2351493	T	T	2351493	2	4	32	1	0	0	0	0	0	0	0	1	15088	639	23	1		1	SPPL2B	19	2351493	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08		2351493	56777490	255	13209										
STAP2	55620	broad.mit.edu	37	chr19	4327374	4327374	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tcaccttgtaatgccggaccAcgtgcgtcctgcaccaggag	11	14	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:4327374A>C	uc002mab.2	-	7	696	c.599T>G	c.(598-600)GTG>GGG	p.V200G	STAP2_uc002mac.2_Missense_Mutation_p.V200G|STAP2_uc002mad.2_Missense_Mutation_p.V93G	NM_001013841	NP_001013863	Q9UGK3	STAP2_HUMAN	signal transducing adaptor family member 2	200	SH2.					cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		ATGCCGGACCACGTGCGTCCT	0.642													3	60	---	---	---	---	PASS	C	4327374	C	C	4327374	3	2	32	1	0	0	0	0	1	0	0	0	15252	159	6	5	778	5	STAP2	19	4327374	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	1975881	4327374	54801609	256	13210										
MUC16	94025	broad.mit.edu	37	chr19	9062137	9062137	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	accactgggcacttcagaaaGgacagtgcttccctctgtgg	11	12	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:9062137G>T	uc002mkp.2	-	3	25513	c.25309C>A	c.(25309-25311)CTT>ATT	p.L8437I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8439	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACTTCAGAAAGGACAGTGCTT	0.522													85	151	---	---	---	---	PASS	T	9062137	T	T	9062137	3	4	32	1	0	0	0	0	1	0	0	0	9973	1000	35	3	18542	3	MUC16	19	9062137	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	4734763	9062137	50066846	257	13211										
MUC16	94025	broad.mit.edu	37	chr19	9084383	9084383	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ggcagtgtcagtgctgaccaTggtgctgaaagttcttactg	13	8	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:9084383T>C	uc002mkp.2	-	1	7636	c.7432A>G	c.(7432-7434)ATG>GTG	p.M2478V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2478	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGCTGACCATGGTGCTGAAA	0.517											OREG0006611	type=TRANSCRIPTION FACTOR BINDING SITE|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	39	62	---	---	---	---	PASS	C	9084383	C	C	9084383	3	2	32	1	0	0	0	0	1	0	0	0	9973	1464	51	5	36427	5	MUC16	19	9084383	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	22246	9084383	50044600	258	13212										
DOCK6	57572	broad.mit.edu	37	chr19	11361676	11361676	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gagggcagcaatgagtcagcTgccaggttcctcaggtcgaa	14	10	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:11361676T>G	uc002mqs.3	-	6	635	c.594A>C	c.(592-594)GCA>GCC	p.A198A		NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	198					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						ATGAGTCAGCTGCCAGGTTCC	0.652													6	45	---	---	---	---	PASS	G	11361676	G	G	11361676	2	3	32	1	0	0	0	0	0	0	0	1	4691	1567	55	5		5	DOCK6	19	11361676	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	2277293	11361676	47767307	259	13213										
ZNF91	7644	broad.mit.edu	37	chr19	23544808	23544808	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aaaagctttgccacattcttCacatttgtagggtttctctc	6	10	3	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:23544808C>A	uc002nre.2	-	4	1086	c.973G>T	c.(973-975)GAA>TAA	p.E325*	ZNF91_uc010xrj.1_Nonsense_Mutation_p.E293*	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	325	C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				CCACATTCTTCACATTTGTAG	0.388													33	228	---	---	---	---	PASS	A	23544808	A	A	23544808	4	1	32	1	0	0	0	0	0	1	0	0	18197	835	29	2	2606	2	ZNF91	19	23544808	Nonsense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	12183132	23544808	35584175	260	13214										
ZNF527	84503	broad.mit.edu	37	chr19	37870038	37870038	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tcaggggttggtgaccttcaGagatgtggcgctagactttt	14	7	2	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:37870038G>T	uc010efk.1	+	3	161	c.50G>T	c.(49-51)AGA>ATA	p.R17I	ZNF527_uc002ogf.3_Missense_Mutation_p.R17I|ZNF527_uc010xtq.1_RNA|ZNF527_uc002oge.2_Missense_Mutation_p.R17I	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	17	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTGACCTTCAGAGATGTGGCG	0.433													30	109	---	---	---	---	PASS	T	37870038	T	T	37870038	3	4	32	1	0	0	0	0	1	0	0	0	17965	942	33	2	56	2	ZNF527	19	37870038	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	14325230	37870038	21258945	261	13215										
ZNF573	126231	broad.mit.edu	37	chr19	38229489	38229489	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttacacacatagggtttctcAccagtatgaattctctcatg	6	10	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:38229489A>G	uc002ohe.2	-	4	1924	c.1902T>C	c.(1900-1902)GGT>GGC	p.G634G	ZNF573_uc010efs.2_Silent_p.G547G|ZNF573_uc002ohd.2_Silent_p.G632G|ZNF573_uc002ohf.2_Silent_p.G576G|ZNF573_uc002ohg.2_Silent_p.G546G	NM_152360	NP_689573	Q86YE8	ZN573_HUMAN	zinc finger protein 573	614					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)|Lung(45;0.0813)|LUSC - Lung squamous cell carcinoma(53;0.146)			AGGGTTTCTCACCAGTATGAA	0.408													15	312	---	---	---	---	PASS	G	38229489	G	G	38229489	2	3	32	1	0	0	0	0	0	0	0	1	18002	146	6	5		5	ZNF573	19	38229489	Silent	SNP	A	TCGA-22-1012-01A-01D-1521-08	359451	38229489	20899494	262	13216										
FBXO27	126433	broad.mit.edu	37	chr19	39516090	39516090	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acgatcacactggagttggtCacacgggctccatagtggcc	12	12	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:39516090C>T	uc002okh.2	-	6	895	c.813G>A	c.(811-813)GTG>GTA	p.V271V		NM_178820	NP_849142	Q8NI29	FBX27_HUMAN	F-box protein 27	271	FBA.				protein catabolic process	SCF ubiquitin ligase complex	glycoprotein binding			ovary(1)	1	all_cancers(60;3.79e-07)|all_lung(34;1.26e-07)|Lung NSC(34;1.46e-07)|all_epithelial(25;4.69e-07)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			TGGAGTTGGTCACACGGGCTC	0.587													12	126	---	---	---	---	PASS	T	39516090	T	T	39516090	2	4	32	1	0	0	0	0	0	0	0	1	5737	813	29	2		2	FBXO27	19	39516090	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	1286601	39516090	19612893	263	13217										
HNRNPUL1	11100	broad.mit.edu	37	chr19	41784998	41784998	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tcagatcaatgaggaaatctCcgtgaagcaccttccgtcta	8	11	4	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:41784998C>T	uc002oqb.3	+	6	1092	c.803C>T	c.(802-804)TCC>TTC	p.S268F	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Missense_Mutation_p.S168F|HNRNPUL1_uc002oqa.3_Missense_Mutation_p.S168F|HNRNPUL1_uc010ehm.2_Missense_Mutation_p.S268F|HNRNPUL1_uc002oqc.3_Intron|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Missense_Mutation_p.S168F|HNRNPUL1_uc010ehn.2_Missense_Mutation_p.S168F|HNRNPUL1_uc010eho.2_Missense_Mutation_p.S168F|HNRNPUL1_uc010xvy.1_Missense_Mutation_p.S168F|HNRNPUL1_uc010ehp.2_Missense_Mutation_p.S124F|HNRNPUL1_uc010ehl.1_Missense_Mutation_p.S168F	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	268	B30.2/SPRY.|Necessary for interaction with TP53.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						GAGGAAATCTCCGTGAAGCAC	0.557													31	201	---	---	---	---	PASS	T	41784998	T	T	41784998	3	4	32	1	0	0	0	0	1	0	0	0	7274	855	30	2	825	2	HNRNPUL1	19	41784998	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	2268908	41784998	17343985	264	13218										
NLRP12	91662	broad.mit.edu	37	chr19	54314294	54314294	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cacggtgcgcggtggctcggGgcgctcctcgtctggctcaa	16	14	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:54314294G>T	uc002qch.3	-	3	839	c.619C>A	c.(619-621)CCC>ACC	p.P207T	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Missense_Mutation_p.P207T|NLRP12_uc002qcj.3_Missense_Mutation_p.P207T|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.P207T	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	207					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		GGTGGCTCGGGGCGCTCCTCG	0.647													13	117	---	---	---	---	PASS	T	54314294	T	T	54314294	3	4	32	1	0	0	0	0	1	0	0	0	10474	1232	43	3	2694	3	NLRP12	19	54314294	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	12529296	54314294	4814689	265	13219										
NLRP13	126204	broad.mit.edu	37	chr19	56422060	56422060	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gtgaccaacgtagagcaaatGctgttccatgcgtgcatcct	10	11	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:56422060G>T	uc010ygg.1	-	6	2176	c.2151C>A	c.(2149-2151)AGC>AGA	p.S717R		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	717							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)		TAGAGCAAATGCTGTTCCATG	0.458													21	156	---	---	---	---	PASS	T	56422060	T	T	56422060	3	4	32	1	0	0	0	0	1	0	0	0	10475	1310	46	3	1002	3	NLRP13	19	56422060	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	2107766	56422060	2706923	266	13220										
ZNF667	63934	broad.mit.edu	37	chr19	56953098	56953098	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tttgcagttccagaaaacatCttcccacattccttacactc	3	14	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr19:56953098C>T	uc002qnd.2	-	5	1428	c.1266G>A	c.(1264-1266)AAG>AAA	p.K422K	ZNF667_uc010etl.2_Silent_p.K204K|ZNF667_uc002qne.2_Silent_p.K422K|ZNF667_uc010etm.2_Silent_p.K365K	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	422	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		CAGAAAACATCTTCCCACATT	0.343													16	64	---	---	---	---	PASS	T	56953098	T	T	56953098	2	4	32	1	0	0	0	0	0	0	0	1	18071	912	32	2		2	ZNF667	19	56953098	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	531038	56953098	2175885	267	13221										
CRNKL1	51340	broad.mit.edu	37	chr20	20033048	20033048	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acgctagaaatcggctctgaGagctcaccgaaaccacaaag	9	12	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr20:20033048G>T	uc002wrs.2	-	2	454	c.422C>A	c.(421-423)TCT>TAT	p.S141Y	C20orf26_uc010gcw.1_5'Flank|C20orf26_uc010zse.1_5'Flank|C20orf26_uc002wru.2_5'Flank|CRNKL1_uc002wrt.1_Missense_Mutation_p.S129Y	NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	141					spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						TCGGCTCTGAGAGCTCACCGA	0.597													12	108	---	---	---	---	PASS	T	20033048	T	T	20033048	3	4	32	1	0	0	0	0	1	0	0	0	3891	942	33	2	2180	2	CRNKL1	20	20033048	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08		20033048	42992472	268	13222										
CST11	140880	broad.mit.edu	37	chr20	23433296	23433296	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tccttgttatactggtcggtGatccactgcaagctgtcctt	9	11	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr20:23433296G>T	uc002wtf.1	-	1	187	c.153C>A	c.(151-153)ATC>ATA	p.I51I	CST11_uc002wtg.1_Silent_p.I51I	NM_130794	NP_570612	Q9H112	CST11_HUMAN	cystatin 11 isoform 1 precursor	51					defense response to bacterium	cytoplasm|nucleus	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					ACTGGTCGGTGATCCACTGCA	0.493													43	314	---	---	---	---	PASS	T	23433296	T	T	23433296	2	4	32	1	0	0	0	0	0	0	0	1	3971	1280	45	2		2	CST11	20	23433296	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	3400248	23433296	39592224	269	13223										
NINL	22981	broad.mit.edu	37	chr20	25448084	25448084	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cttgtctttctttaaaacctCaatttccttcctgttgaaga	4	10	3	2	rs35479032	byFrequency	TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr20:25448084C>G	uc002wux.1	-	19	3438	c.3364G>C	c.(3364-3366)GAG>CAG	p.E1122Q	NINL_uc010gdn.1_Missense_Mutation_p.E773Q	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1122	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						TTTAAAACCTCAATTTCCTTC	0.498													39	215	---	---	---	---	PASS	G	25448084	G	G	25448084	3	3	32	1	0	0	0	0	1	0	0	0	10420	835	29	2	808	2	NINL	20	25448084	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	2014788	25448084	37577436	270	13224										
PTPRT	11122	broad.mit.edu	37	chr20	40739003	40739003	+	Frame_Shift_Del	DEL	G	-	-													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccactatgggcccagcttccGgggggttgaggaacttgacc							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr20:40739003delG	uc002xkg.2	-	23	3408	c.3224delC	c.(3223-3225)CCGfs	p.P1075fs	PTPRT_uc010ggj.2_Frame_Shift_Del_p.P1094fs|PTPRT_uc010ggi.2_Frame_Shift_Del_p.P278fs	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1075	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CCCAGCTTCCGGGGGGTTGAG	0.453													80	41	---	---	---	---		-	40739003	-	-	40739003	7	5	32	1	0	1	0	1	0	0	0	0	12812	1116	39	0	1137	0	PTPRT	20	40739003	Frame_Shift_Del	DEL	G	TCGA-22-1012-01A-01D-1521-08	15290919	40739003	22286517	271	13225										
SFRS6	6431	broad.mit.edu	37	chr20	42087023	42087023	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acggcttcgtggagttcgagGactcccgcgacgccgacgac	14	14	0	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr20:42087023G>A	uc010zwg.1	+	2	300	c.130G>A	c.(130-132)GAC>AAC	p.D44N	SFRS6_uc002xki.2_5'UTR|SFRS6_uc002xkk.2_Missense_Mutation_p.D44N	NM_006275	NP_006266	Q13247	SRSF6_HUMAN	arginine/serine-rich splicing factor 6	44	RRM 1.				mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			GGAGTTCGAGGACTCCCGCGA	0.716													3	16	---	---	---	---	PASS	A	42087023	A	A	42087023	3	1	32	1	0	0	0	0	1	0	0	0	14181	1174	41	2	136	2	SFRS6	20	42087023	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1348020	42087023	20938497	272	13226										
GDAP1L1	78997	broad.mit.edu	37	chr20	42893100	42893100	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cccaggccaagatcttggagCatgatgatgtgagctacctg	12	10	1	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr20:42893100C>A	uc002xlq.2	+	5	728	c.661C>A	c.(661-663)CAT>AAT	p.H221N	GDAP1L1_uc002xlp.1_Missense_Mutation_p.H221N|GDAP1L1_uc010zwl.1_Missense_Mutation_p.H240N|GDAP1L1_uc010zwm.1_Missense_Mutation_p.H163N|GDAP1L1_uc010zwn.1_Missense_Mutation_p.H29N	NM_024034	NP_076939	Q96MZ0	GD1L1_HUMAN	ganglioside-induced differentiation-associated	221	GST C-terminal.									large_intestine(1)	1		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			GATCTTGGAGCATGATGATGT	0.557													17	35	---	---	---	---	PASS	A	42893100	A	A	42893100	3	1	32	1	0	0	0	0	1	0	0	0	6308	710	25	3	679	3	GDAP1L1	20	42893100	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	806077	42893100	20132420	273	13227										
ARFGEF2	10564	broad.mit.edu	37	chr20	47633845	47633845	+	Missense_Mutation	SNP	G	A	A													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aaaacttagtaatatccaatGgagagaaattcagtcctgaa							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr20:47633845G>A	uc002xtx.3	+	32	4527	c.4375G>A	c.(4375-4377)GGA>AGA	p.G1459R	ARFGEF2_uc010zyf.1_Missense_Mutation_p.G752R	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1459					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			AATATCCAATGGAGAGAAATT	0.363													23	208	---	---	---	---	PASS	A	47633845	A	A	47633845	3	1	32	1	0	0	0	0	1	0	0	0	853	1349	47	3	4501	3	ARFGEF2	20	47633845	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	4740745	47633845	15391675	274	13228	342	2								
ARFGEF2	10564	broad.mit.edu	37	chr20	47633846	47633846	+	Missense_Mutation	SNP	G	T	T													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aaacttagtaatatccaatgGagagaaattcagtcctgaag							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr20:47633846G>T	uc002xtx.3	+	32	4528	c.4376G>T	c.(4375-4377)GGA>GTA	p.G1459V	ARFGEF2_uc010zyf.1_Missense_Mutation_p.G752V	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1459					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			ATATCCAATGGAGAGAAATTC	0.368													23	214	---	---	---	---	PASS	T	47633846	T	T	47633846	3	4	32	1	0	0	0	0	1	0	0	0	853	1174	41	2	4502	2	ARFGEF2	20	47633846	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1	47633846	15391674	275	13229	342	2								
CASS4	57091	broad.mit.edu	37	chr20	55027721	55027721	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	taagagaatttctggattttGcccgaggagtccatgggact	12	7	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr20:55027721G>T	uc002xxp.2	+	6	1714	c.1489G>T	c.(1489-1491)GCC>TCC	p.A497S	CASS4_uc002xxq.3_Missense_Mutation_p.A497S|CASS4_uc002xxr.2_Missense_Mutation_p.A497S|CASS4_uc010zze.1_Missense_Mutation_p.A443S|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	497					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						TCTGGATTTTGCCCGAGGAGT	0.488													8	107	---	---	---	---	PASS	T	55027721	T	T	55027721	3	4	32	1	0	0	0	0	1	0	0	0	2683	1319	46	3	1507	3	CASS4	20	55027721	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	7393875	55027721	7997799	276	13230										
GAB4	128954	broad.mit.edu	37	chr22	17443699	17443699	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gcatggtcttctgcagggccTgggtcttctccagatccacc	11	14	4	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr22:17443699T>C	uc002zlw.2	-	10	1757	c.1649A>G	c.(1648-1650)CAG>CGG	p.Q550R		NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	550										large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				CTGCAGGGCCTGGGTCTTCTC	0.607													24	87	---	---	---	---	PASS	C	17443699	C	C	17443699	3	2	32	1	0	0	0	0	1	0	0	0	6151	1580	55	5	79	5	GAB4	22	17443699	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08		17443699	33860867	277	13231										
USP18	11274	broad.mit.edu	37	chr22	18653530	18653530	+	Missense_Mutation	SNP	T	A	A													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gatttttcaggtcttgaagcTgacccatttgccccagaccc							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr22:18653530T>A	uc002zny.2	+	8	1072	c.734T>A	c.(733-735)CTG>CAG	p.L245Q		NM_017414	NP_059110	Q9UMW8	UBP18_HUMAN	ubiquitin specific protease 18	245					regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway|ubiquitin-dependent protein catabolic process	cytosol|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			breast(1)	1						GTCTTGAAGCTGACCCATTTG	0.483													23	245	---	---	---	---	PASS	A	18653530	A	A	18653530	3	1	32	1	0	0	0	0	1	0	0	0	17046	1580	55	5	760	5	USP18	22	18653530	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	1209831	18653530	32651036	278	13232	343	2								
USP18	11274	broad.mit.edu	37	chr22	18653534	18653534	+	Silent	SNP	C	T	T													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tttcaggtcttgaagctgacCcatttgccccagaccctgac					rs113750800		TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr22:18653534C>T	uc002zny.2	+	8	1076	c.738C>T	c.(736-738)ACC>ACT	p.T246T		NM_017414	NP_059110	Q9UMW8	UBP18_HUMAN	ubiquitin specific protease 18	246					regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway|ubiquitin-dependent protein catabolic process	cytosol|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			breast(1)	1						TGAAGCTGACCCATTTGCCCC	0.493													24	240	---	---	---	---	PASS	T	18653534	T	T	18653534	2	4	32	1	0	0	0	0	0	0	0	1	17046	610	22	3		3	USP18	22	18653534	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	4	18653534	32651032	279	13233	343	2								
CLTCL1	8218	broad.mit.edu	37	chr22	19221124	19221124	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	actctggaatttctggaccgTctctctggtacgcaggattc	10	11	4	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr22:19221124T>C	uc002zpb.2	-	8	1264	c.1189A>G	c.(1189-1191)ACG>GCG	p.T397A	CLTCL1_uc011agv.1_Missense_Mutation_p.T397A|CLTCL1_uc011agw.1_Missense_Mutation_p.T397A	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	397	Globular terminal domain.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					TTCTGGACCGTCTCTCTGGTA	0.458			T	?	ALCL								19	67	---	---	---	---	PASS	C	19221124	C	C	19221124	3	2	32	1	0	0	0	0	1	0	0	0	3567	1667	58	5	3833	5	CLTCL1	22	19221124	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	567590	19221124	32083442	280	13234										
PI4KA	5297	broad.mit.edu	37	chr22	21119398	21119398	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gaatccttacgggggtgaccGtgtcattcttcatggctgag	13	9	3	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr22:21119398G>A	uc002zsz.3	-	21	2621	c.2390C>T	c.(2389-2391)ACG>ATG	p.T797M		NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	797					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			GGGGGTGACCGTGTCATTCTT	0.498													37	490	---	---	---	---	PASS	A	21119398	A	A	21119398	3	1	32	1	0	0	0	0	1	0	0	0	11873	1145	40	1	3884	1	PI4KA	22	21119398	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1898274	21119398	30185168	281	13235										
DEPDC5	9681	broad.mit.edu	37	chr22	32234677	32234677	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tctgttgttttcaggagggaCgaagatggtgtgcagatgac	15	5	2	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr22:32234677C>T	uc003als.2	+	27	2476	c.2334C>T	c.(2332-2334)GAC>GAT	p.D778D	DEPDC5_uc011als.1_Silent_p.D709D|DEPDC5_uc011alu.1_Silent_p.D787D|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Silent_p.D778D|DEPDC5_uc003alu.2_Silent_p.D227D|DEPDC5_uc003alv.2_RNA|DEPDC5_uc011alw.1_Silent_p.D108D|DEPDC5_uc003alw.2_Silent_p.D76D|DEPDC5_uc011alx.1_Translation_Start_Site	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	778					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						TCAGGAGGGACGAAGATGGTG	0.483													21	204	---	---	---	---	PASS	T	32234677	T	T	32234677	2	4	32	1	0	0	0	0	0	0	0	1	4442	535	19	1		1	DEPDC5	22	32234677	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	11115279	32234677	19069889	282	13236										
LARGE	9215	broad.mit.edu	37	chr22	34000432	34000432	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgcccataccttgagctcgtCtgcattgtagaagtccacac	8	13	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr22:34000432C>A	uc003and.3	-	6	1183	c.604G>T	c.(604-606)GAC>TAC	p.D202Y	LARGE_uc003ane.3_Missense_Mutation_p.D202Y|LARGE_uc010gwp.2_Missense_Mutation_p.D202Y|LARGE_uc011ame.1_Missense_Mutation_p.D134Y|LARGE_uc011amf.1_Missense_Mutation_p.D202Y	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	202	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				TTGAGCTCGTCTGCATTGTAG	0.547													32	132	---	---	---	---	PASS	A	34000432	A	A	34000432	3	1	32	1	0	0	0	0	1	0	0	0	8627	913	32	2	1710	2	LARGE	22	34000432	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	1765755	34000432	17304134	283	13237										
MYH9	4627	broad.mit.edu	37	chr22	36690217	36690217	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tgacctgcagctcctgcagcTgcgcctccactttcttgcgc	9	17	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr22:36690217T>G	uc003apg.2	-	28	3989	c.3758A>C	c.(3757-3759)CAG>CCG	p.Q1253P		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1253	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity	p.K1249_E1256delKVEAQLQE(1)		breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CTCCTGCAGCTGCGCCTCCAC	0.647			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				16	192	---	---	---	---	PASS	G	36690217	G	G	36690217	3	3	32	1	0	0	0	0	1	0	0	0	10042	1580	55	5	2180	5	MYH9	22	36690217	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	2689785	36690217	14614349	284	13238										
PLXNB2	23654	broad.mit.edu	37	chr22	50714336	50714336	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	acctcgtcatagtacttctgCgtgtattggtagagctggtg	12	8	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chr22:50714336C>T	uc003bkv.3	-	36	5500	c.5394G>A	c.(5392-5394)ACG>ACA	p.T1798T	PLXNB2_uc003bkt.1_Silent_p.T590T|PLXNB2_uc003bku.1_Silent_p.T783T	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1798	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		AGTACTTCTGCGTGTATTGGT	0.657											OREG0026679	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	53	---	---	---	---	PASS	T	50714336	T	T	50714336	2	4	32	1	0	0	0	0	0	0	0	1	12124	755	27	1		1	PLXNB2	22	50714336	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	14024119	50714336	590230	285	13239										
CSF2RA	1438	broad.mit.edu	37	chrX	1407771	1407771	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tccagtattttttgtacataCgaaactcaaagtaagtgttc	6	7	1	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:1407771C>T	uc010nct.2	+	7	785	c.463C>T	c.(463-465)CGA>TGA	p.R155*	CSF2RA_uc011mhb.1_Nonsense_Mutation_p.R155*|CSF2RA_uc004cpq.2_Nonsense_Mutation_p.R155*|CSF2RA_uc004cpn.2_Nonsense_Mutation_p.R155*|CSF2RA_uc004cpo.2_Nonsense_Mutation_p.R155*|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Nonsense_Mutation_p.R22*|CSF2RA_uc004cpp.2_Nonsense_Mutation_p.R155*|CSF2RA_uc010ncv.2_Nonsense_Mutation_p.R155*|CSF2RA_uc004cpr.2_Nonsense_Mutation_p.R155*	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	155	Extracellular (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	TTTGTACATACGAAACTCAAA	0.393													39	142	---	---	---	---	PASS	T	1407771	T	T	1407771	4	4	32	1	0	0	0	0	0	1	0	0	3934	528	19	1	477	1	CSF2RA	23	1407771	Nonsense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08		1407771	153862789	286	13240										
SHROOM2	357	broad.mit.edu	37	chrX	9862559	9862559	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cgaccacctgggcagccacaGcaagcgcgactcggcctacg	12	17	0	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:9862559G>C	uc004csu.1	+	4	701	c.611G>C	c.(610-612)AGC>ACC	p.S204T		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	204					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				GGCAGCCACAGCAAGCGCGAC	0.622													3	63	---	---	---	---	PASS	C	9862559	C	C	9862559	3	2	32	1	0	0	0	0	1	0	0	0	14294	971	34	4	625	4	SHROOM2	23	9862559	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	8454788	9862559	145408001	287	13241										
POLA1	5422	broad.mit.edu	37	chrX	24751921	24751921	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccatatgctttcaaagaagtCattgagaaaaaggtaaagtg	9	5	2	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:24751921C>G	uc004dbl.2	+	17	1826	c.1803C>G	c.(1801-1803)GTC>GTG	p.V601V	POLA1_uc004dbn.2_Silent_p.V465V	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	601					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	TCAAAGAAGTCATTGAGAAAA	0.338													24	102	---	---	---	---	PASS	G	24751921	G	G	24751921	2	3	32	1	0	0	0	0	0	0	0	1	12187	813	29	2		2	POLA1	23	24751921	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	14889362	24751921	130518639	288	13242										
CXorf59	286464	broad.mit.edu	37	chrX	36103515	36103515	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gacttttccaaatataataaGaccatttatgatgtgctgct	6	7	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:36103515G>T	uc004ddk.1	+	5	687	c.501G>T	c.(499-501)AAG>AAT	p.K167N		NM_173695	NP_775966	Q8N9S7	CX059_HUMAN	hypothetical protein LOC286464	167						integral to membrane				central_nervous_system(1)	1						AATATAATAAGACCATTTATG	0.353													54	129	---	---	---	---	PASS	T	36103515	T	T	36103515	3	4	32	1	0	0	0	0	1	0	0	0	4115	933	33	2	515	2	CXorf59	23	36103515	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	11351594	36103515	119167045	289	13243										
RPGR	6103	broad.mit.edu	37	chrX	38145005	38145005	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gctcacttttttgtactcctCtccatcctgcctttcattct	3	15	4	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:38145005C>T	uc004ded.1	-	15	3415	c.3247G>A	c.(3247-3249)GAG>AAG	p.E1083K	RPGR_uc004deb.2_Intron|RPGR_uc004dea.2_Intron|RPGR_uc004dec.2_Intron	NM_001034853	NP_001030025	Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator isoform C	865	Glu-rich.				intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						TTGTACTCCTCTCCATCCTGC	0.289													6	438	---	---	---	---	PASS	T	38145005	T	T	38145005	3	4	32	1	0	0	0	0	1	0	0	0	13548	922	32	2	774	2	RPGR	23	38145005	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	2041490	38145005	117125555	290	13244										
AKAP4	8852	broad.mit.edu	37	chrX	49957274	49957274	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cagattctactagtttatctAtaaattgcccgttcgcttgc	6	10	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:49957274A>C	uc004dow.1	-	5	2214	c.2090T>G	c.(2089-2091)ATA>AGA	p.I697R	AKAP4_uc004dov.1_Missense_Mutation_p.I314R|AKAP4_uc010njp.1_Missense_Mutation_p.I519R|AKAP4_uc004dou.1_Missense_Mutation_p.I688R	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	697					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					TAGTTTATCTATAAATTGCCC	0.473													4	134	---	---	---	---	PASS	C	49957274	C	C	49957274	3	2	32	1	0	0	0	0	1	0	0	0	453	449	16	5	482	5	AKAP4	23	49957274	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	11812269	49957274	105313286	291	13245										
LAS1L	81887	broad.mit.edu	37	chrX	64734720	64734720	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cactcagtcttgcatgttgaGggttccagccgctgctctag	11	12	3	1	rs146839918		TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:64734720G>A	uc004dwa.1	-	13	2133	c.2061C>T	c.(2059-2061)CCC>CCT	p.P687P	LAS1L_uc004dwc.1_Silent_p.P670P|LAS1L_uc004dwd.1_Silent_p.P628P|LAS1L_uc004dvy.1_Silent_p.P200P|LAS1L_uc004dvz.1_Silent_p.P200P	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	687						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						TGCATGTTGAGGGTTCCAGCC	0.557													3	24	---	---	---	---	PASS	A	64734720	A	A	64734720	2	1	32	1	0	0	0	0	0	0	0	1	8636	987	35	3		3	LAS1L	23	64734720	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	14777446	64734720	90535840	292	13246										
OPHN1	4983	broad.mit.edu	37	chrX	67432046	67432046	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atgaacagactatgaagaaaGgccaagacctagggaaaaca	10	7	0	5			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:67432046G>T	uc004dww.3	-	8	900	c.606C>A	c.(604-606)GCC>GCA	p.A202A	OPHN1_uc011mpg.1_Silent_p.A202A|OPHN1_uc004dwx.2_Silent_p.A202A	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	202					axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						TATGAAGAAAGGCCAAGACCT	0.378													3	38	---	---	---	---	PASS	T	67432046	T	T	67432046	2	4	32	1	0	0	0	0	0	0	0	1	10875	987	35	3		3	OPHN1	23	67432046	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	2697326	67432046	87838514	293	13247										
EFNB1	1947	broad.mit.edu	37	chrX	68058546	68058546	+	Missense_Mutation	SNP	C	A	A													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ccgagcagaagcagggcggcCctatgagtactacaagctgt							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:68058546C>A	uc004dxd.3	+	2	995	c.215C>A	c.(214-216)CCC>CAC	p.P72H	EFNB1_uc004dxe.2_Missense_Mutation_p.P72H	NM_004429	NP_004420	P98172	EFNB1_HUMAN	ephrin-B1 precursor	72	Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to plasma membrane|soluble fraction|synapse	ephrin receptor binding				0						GCAGGGCGGCCCTATGAGTAC	0.572													4	28	---	---	---	---	PASS	A	68058546	A	A	68058546	3	1	32	1	0	0	0	0	1	0	0	0	4955	623	22	3	221	3	EFNB1	23	68058546	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	626500	68058546	87212014	294	13248	344	2								
EFNB1	1947	broad.mit.edu	37	chrX	68058547	68058547	+	Silent	SNP	C	T	T													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cgagcagaagcagggcggccCtatgagtactacaagctgta							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:68058547C>T	uc004dxd.3	+	2	996	c.216C>T	c.(214-216)CCC>CCT	p.P72P	EFNB1_uc004dxe.2_Silent_p.P72P	NM_004429	NP_004420	P98172	EFNB1_HUMAN	ephrin-B1 precursor	72	Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to plasma membrane|soluble fraction|synapse	ephrin receptor binding				0						CAGGGCGGCCCTATGAGTACT	0.577													4	29	---	---	---	---	PASS	T	68058547	T	T	68058547	2	4	32	1	0	0	0	0	0	0	0	1	4955	668	24	3		3	EFNB1	23	68058547	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	1	68058547	87212013	295	13249	344	2								
PJA1	64219	broad.mit.edu	37	chrX	68381405	68381405	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ttggccacctctacatccacTgcgagagactccaagtgcgc	9	15	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:68381405T>C	uc004dxh.2	-	2	1963	c.1677A>G	c.(1675-1677)GCA>GCG	p.A559A	PJA1_uc011mpi.1_Silent_p.A277A|PJA1_uc004dxg.2_Silent_p.A371A|PJA1_uc004dxi.2_Silent_p.A504A	NM_145119	NP_660095	Q8NG27	PJA1_HUMAN	praja 1 isoform a	559							zinc ion binding				0						CTACATCCACTGCGAGAGACT	0.552													20	125	---	---	---	---	PASS	C	68381405	C	C	68381405	2	2	32	1	0	0	0	0	0	0	0	1	11961	1567	55	5		5	PJA1	23	68381405	Silent	SNP	T	TCGA-22-1012-01A-01D-1521-08	322858	68381405	86889155	296	13250										
GDPD2	54857	broad.mit.edu	37	chrX	69649804	69649804	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	aagatcgggctaatgtccaaCgacgggcacctggaatgcgc	13	11	0	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:69649804C>G	uc004dyh.2	+	12	1449	c.1198C>G	c.(1198-1200)CGA>GGA	p.R400G	GDPD2_uc010nky.1_Missense_Mutation_p.N252K|GDPD2_uc011mpk.1_Missense_Mutation_p.R400G|GDPD2_uc011mpl.1_Missense_Mutation_p.R321G|GDPD2_uc011mpm.1_Missense_Mutation_p.R321G	NM_017711	NP_060181	Q9HCC8	GDPD2_HUMAN	osteoblast differentiation promoting factor	400	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol inositolphosphodiesterase activity|metal ion binding			ovary(2)	2	Renal(35;0.156)					TAATGTCCAACGACGGGCACC	0.537													9	100	---	---	---	---	PASS	G	69649804	G	G	69649804	3	3	32	1	0	0	0	0	1	0	0	0	6324	528	19	4	1240	4	GDPD2	23	69649804	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	1268399	69649804	85620756	297	13251										
ITM2A	9452	broad.mit.edu	37	chrX	78618612	78618612	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atcctcagaatcaaaaaagcAcatctctccacggtaaatgg	6	11	3	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:78618612A>T	uc004edh.2	-	3	603	c.268T>A	c.(268-270)TGC>AGC	p.C90S	ITM2A_uc011mqr.1_Missense_Mutation_p.C46S	NM_004867	NP_004858	O43736	ITM2A_HUMAN	integral membrane protein 2A	90						integral to membrane	protein binding			lung(2)	2						TCAAAAAAGCACATCTCTCCA	0.413													7	45	---	---	---	---	PASS	T	78618612	T	T	78618612	3	4	32	1	0	0	0	0	1	0	0	0	7912	159	6	5	539	5	ITM2A	23	78618612	Missense_Mutation	SNP	A	TCGA-22-1012-01A-01D-1521-08	8968808	78618612	76651948	298	13252										
NAP1L3	4675	broad.mit.edu	37	chrX	92928264	92928264	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctcttcggcaaccccatgggCgacaggttccgagaccattt	10	14	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:92928264C>A	uc004efq.2	-	1	345	c.40G>T	c.(40-42)GCC>TCC	p.A14S	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	14					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						ACCCCATGGGCGACAGGTTCC	0.418													20	157	---	---	---	---	PASS	A	92928264	A	A	92928264	3	1	32	1	0	0	0	0	1	0	0	0	10158	768	27	1	1484	1	NAP1L3	23	92928264	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	14309652	92928264	62342296	299	13253										
CSTF2	1478	broad.mit.edu	37	chrX	100077295	100077295	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gttatggcttctgtgaatacCaagaccaagagacagcactt	9	9	1	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:100077295C>G	uc004egh.2	+	3	251	c.193C>G	c.(193-195)CAA>GAA	p.Q65E	CSTF2_uc010nnd.2_Missense_Mutation_p.Q65E|CSTF2_uc004egi.2_Missense_Mutation_p.Q65E	NM_001325	NP_001316	P33240	CSTF2_HUMAN	cleavage stimulation factor subunit 2	65	RRM.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cleavage body|mRNA cleavage and polyadenylation specificity factor complex	nucleotide binding|protein binding|protein binding|RNA binding			skin(1)	1						CTGTGAATACCAAGACCAAGA	0.473													11	79	---	---	---	---	PASS	G	100077295	G	G	100077295	3	3	32	1	0	0	0	0	1	0	0	0	3984	595	21	4	203	4	CSTF2	23	100077295	Missense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	7149031	100077295	55193265	300	13254										
GLA	2717	broad.mit.edu	37	chrX	100653447	100653447	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gagagctttggcttgagggcTgatgtgtcggaggtcattag	17	5	1	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:100653447T>A	uc004ehl.1	-	6	1020	c.910A>T	c.(910-912)AGC>TGC	p.S304C		NM_000169	NP_000160	P06280	AGAL_HUMAN	alpha-galactosidase A precursor	304					glycoside catabolic process|glycosphingolipid catabolic process|glycosylceramide catabolic process|negative regulation of nitric oxide biosynthetic process|negative regulation of nitric-oxide synthase activity|oligosaccharide metabolic process	extracellular region|Golgi apparatus|lysosome	cation binding|protein homodimerization activity|raffinose alpha-galactosidase activity|receptor binding				0					Agalsidase beta(DB00103)	GCTTGAGGGCTGATGTGTCGG	0.498													33	310	---	---	---	---	PASS	A	100653447	A	A	100653447	3	1	32	1	0	0	0	0	1	0	0	0	6426	1580	55	5	387	5	GLA	23	100653447	Missense_Mutation	SNP	T	TCGA-22-1012-01A-01D-1521-08	576152	100653447	54617113	301	13255										
COL4A5	1287	broad.mit.edu	37	chrX	107814652	107814652	+	Nonsense_Mutation	SNP	G	T	T													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	actccttctagggagaacgtGgatttccaggcagtcccggt							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:107814652G>T	uc004enz.1	+	7	596	c.394G>T	c.(394-396)GGA>TGA	p.G132*	COL4A5_uc011mso.1_Nonsense_Mutation_p.G132*	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	132	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						GGGAGAACGTGGATTTCCAGG	0.363									Alport_syndrome_with_Diffuse_Leiomyomatosis				45	380	---	---	---	---	PASS	T	107814652	T	T	107814652	4	4	32	1	0	0	0	0	0	1	0	0	3694	1349	47	3	420	3	COL4A5	23	107814652	Nonsense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	7161205	107814652	47455908	302	13256	345	2								
COL4A5	1287	broad.mit.edu	37	chrX	107814653	107814653	+	Missense_Mutation	SNP	G	T	T													0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ctccttctagggagaacgtgGatttccaggcagtcccggtt							TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:107814653G>T	uc004enz.1	+	7	597	c.395G>T	c.(394-396)GGA>GTA	p.G132V	COL4A5_uc011mso.1_Missense_Mutation_p.G132V	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	132	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						GGAGAACGTGGATTTCCAGGC	0.363									Alport_syndrome_with_Diffuse_Leiomyomatosis				45	379	---	---	---	---	PASS	T	107814653	T	T	107814653	3	4	32	1	0	0	0	0	1	0	0	0	3694	1174	41	2	421	2	COL4A5	23	107814653	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	1	107814653	47455907	303	13257	345	2								
GUCY2F	2986	broad.mit.edu	37	chrX	108619187	108619187	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tctttggaaggctgcaatctCcactggttgcaggccatggc	12	11	2	0			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:108619187C>A	uc004eod.3	-	19	3544	c.3268G>T	c.(3268-3270)GAG>TAG	p.E1090*	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	1090	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						GCTGCAATCTCCACTGGTTGC	0.502													44	326	---	---	---	---	PASS	A	108619187	A	A	108619187	4	1	32	1	0	0	0	0	0	1	0	0	6898	864	30	2	62	2	GUCY2F	23	108619187	Nonsense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	804534	108619187	46651373	304	13258										
KIAA1210	57481	broad.mit.edu	37	chrX	118220627	118220627	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	gcagcatccaggagcccctgGgaagtgcttctgattttatg	12	10	1	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:118220627G>T	uc004era.3	-	11	4566	c.4566C>A	c.(4564-4566)TCC>TCA	p.S1522S		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1522										ovary(4)|skin(1)	5						GGAGCCCCTGGGAAGTGCTTC	0.493													16	104	---	---	---	---	PASS	T	118220627	T	T	118220627	2	4	32	1	0	0	0	0	0	0	0	1	8214	1219	43	3		3	KIAA1210	23	118220627	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	9601440	118220627	37049933	305	13259										
NKRF	55922	broad.mit.edu	37	chrX	118724761	118724761	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tactcaggatttgtcttacaCgcctgaatacaacgagttaa	7	9	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:118724761C>A	uc004erq.2	-	2	1280	c.627G>T	c.(625-627)GCG>GCT	p.A209A	NKRF_uc004err.2_Silent_p.A209A	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	209	Active repression domain.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2						TTGTCTTACACGCCTGAATAC	0.353													12	100	---	---	---	---	PASS	A	118724761	A	A	118724761	2	1	32	1	0	0	0	0	0	0	0	1	10447	523	19	1		1	NKRF	23	118724761	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	504134	118724761	36545799	306	13260										
NKRF	55922	broad.mit.edu	37	chrX	118724823	118724823	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	atcagatccagaagtcatttCtggattagaaaggttcttcc	8	8	4	3			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:118724823C>A	uc004erq.2	-	2	1218	c.565G>T	c.(565-567)GAA>TAA	p.E189*	NKRF_uc004err.2_Nonsense_Mutation_p.E189*	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	189	Active repression domain.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2						GAAGTCATTTCTGGATTAGAA	0.363													21	142	---	---	---	---	PASS	A	118724823	A	A	118724823	4	1	32	1	0	0	0	0	0	1	0	0	10447	922	32	2	1511	2	NKRF	23	118724823	Nonsense_Mutation	SNP	C	TCGA-22-1012-01A-01D-1521-08	62	118724823	36545737	307	13261										
UPF3B	65109	broad.mit.edu	37	chrX	118979257	118979257	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tactatagcgggatattcctGacctgtttagaaaaaaaata	7	6	0	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:118979257G>T	uc004erz.1	-	4	450	c.373C>A	c.(373-375)CAG>AAG	p.Q125K	UPF3B_uc004esa.1_Missense_Mutation_p.Q125K	NM_080632	NP_542199	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B	125	Sufficient for association with EJC core.|Necessary for interaction with UPF2.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|termination of RNA polymerase II transcription	cytosol|exon-exon junction complex|nucleoplasm	mRNA binding|nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(2)|kidney(1)	3						GGATATTCCTGACCTGTTTAG	0.358													13	114	---	---	---	---	PASS	T	118979257	T	T	118979257	3	4	32	1	0	0	0	0	1	0	0	0	17003	1299	45	2	1110	2	UPF3B	23	118979257	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	254434	118979257	36291303	308	13262										
GRIA3	2892	broad.mit.edu	37	chrX	122598733	122598733	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cagagatccaaaattgctgtGtacgagaaaatgtggtctta	10	6	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:122598733G>T	uc004etq.3	+	14	2387	c.2094G>T	c.(2092-2094)GTG>GTT	p.V698V	GRIA3_uc004etr.3_Silent_p.V698V|GRIA3_uc004ets.3_RNA	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	698	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	AAATTGCTGTGTACGAGAAAA	0.413													20	171	---	---	---	---	PASS	T	122598733	T	T	122598733	2	4	32	1	0	0	0	0	0	0	0	1	6769	1364	48	3		3	GRIA3	23	122598733	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	3619476	122598733	32671827	309	13263										
SPANXN2	494119	broad.mit.edu	37	chrX	142795238	142795238	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ggtcttcgtcctcctgtgaaGatccttcagatgagtccagg	11	11	2	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:142795238G>A	uc004fbz.2	-	2	1194	c.440C>T	c.(439-441)TCT>TTT	p.S147F		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	147										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CTCCTGTGAAGATCCTTCAGA	0.532													76	628	---	---	---	---	PASS	A	142795238	A	A	142795238	3	1	32	1	0	0	0	0	1	0	0	0	14991	942	33	2	106	2	SPANXN2	23	142795238	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	20196505	142795238	12475322	310	13264										
SPANXN2	494119	broad.mit.edu	37	chrX	142795316	142795316	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	ggtcttcgtcctcctgtgaaGatccttcagatgagtccagg	11	11	2	4			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:142795316G>A	uc004fbz.2	-	2	1116	c.362C>T	c.(361-363)TCT>TTT	p.S121F		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	121										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CTCCTGTGAAGATCCTTCAGA	0.522													5	423	---	---	---	---	PASS	A	142795316	A	A	142795316	3	1	32	1	0	0	0	0	1	0	0	0	14991	942	33	2	184	2	SPANXN2	23	142795316	Missense_Mutation	SNP	G	TCGA-22-1012-01A-01D-1521-08	78	142795316	12475244	311	13265										
AFF2	2334	broad.mit.edu	37	chrX	148037249	148037249	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	cccatggagactatttctctGcctcctccaatcatccaacc	4	17	2	1			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:148037249G>C	uc004fcp.2	+	11	2153	c.1674G>C	c.(1672-1674)CTG>CTC	p.L558L	AFF2_uc004fcq.2_Silent_p.L548L|AFF2_uc004fcr.2_Silent_p.L519L|AFF2_uc011mxb.1_Silent_p.L523L|AFF2_uc004fcs.2_Silent_p.L525L|AFF2_uc011mxc.1_Silent_p.L199L	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	558					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					CTATTTCTCTGCCTCCTCCAA	0.458													79	558	---	---	---	---	PASS	C	148037249	C	C	148037249	2	2	32	1	0	0	0	0	0	0	0	1	357	1306	46	4		4	AFF2	23	148037249	Silent	SNP	G	TCGA-22-1012-01A-01D-1521-08	5241933	148037249	7233311	312	13266										
VMA21	203547	broad.mit.edu	37	chrX	150573518	150573518	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.111475409836066	34	0.000499054076744287	1.88177115172307	2.43310455477315	1.49951332560834	0.83739013315881	1	16	tcacgacagtggcgtgaaggCaaacaggattaaagtgaaca	12	7	1	2			TCGA-22-1012-01A-01D-1521-08	TCGA-22-1012-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b75368a-d57f-4787-a0ef-3f478c7d22bc	1742f2eb-421d-4f74-aa9a-c21380c222cb	g.chrX:150573518C>A	uc004feu.2	+	3	370	c.294C>A	c.(292-294)GGC>GGA	p.G98G		NM_001017980	NP_001017980	Q3ZAQ7	VMA21_HUMAN	VMA21 vacuolar H+-ATPase homolog	98					vacuolar proton-transporting V-type ATPase complex assembly	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to membrane|lysosome					0						GGCGTGAAGGCAAACAGGATT	0.423													11	119	---	---	---	---	PASS	A	150573518	A	A	150573518	2	1	32	1	0	0	0	0	0	0	0	1	17172	697	25	3		3	VMA21	23	150573518	Silent	SNP	C	TCGA-22-1012-01A-01D-1521-08	2536269	150573518	4697042	313	13267										
CHD5	26038	broad.mit.edu	37	chr1	6169932	6169932	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gctggtggctctcggcgaggCactccacttcagccaggcgg	15	14	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:6169932C>T	uc001amb.1	-	38	5601	c.5501G>A	c.(5500-5502)TGC>TAC	p.C1834Y	CHD5_uc001alz.1_Missense_Mutation_p.C691Y|CHD5_uc001ama.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1834					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		CTCGGCGAGGCACTCCACTTC	0.657													10	118	---	---	---	---	PASS	T	6169932	T	T	6169932	3	4	33	1	0	0	0	0	1	0	0	0	3328	710	25	3	379	3	CHD5	1	6169932	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08		6169932	243080689	1	13268										
VPS13D	55187	broad.mit.edu	37	chr1	12309329	12309329	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgaagatggtgtcaccaatcCctcccatccttttgcttttg	7	12	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:12309329C>T	uc001atv.2	+	6	638	c.497C>T	c.(496-498)CCC>CTC	p.P166L	VPS13D_uc001atw.2_Missense_Mutation_p.P166L	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	166					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		GTCACCAATCCCTCCCATCCT	0.403													26	87	---	---	---	---	PASS	T	12309329	T	T	12309329	3	4	33	1	0	0	0	0	1	0	0	0	17189	623	22	3	515	3	VPS13D	1	12309329	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	6139397	12309329	236941292	2	13269										
SPEN	23013	broad.mit.edu	37	chr1	16257530	16257530	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggatgcaacagaaagaaaaaGaaaaagaccagaaacccaaa	8	7	0	5			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:16257530G>C	uc001axk.1	+	11	4999	c.4795G>C	c.(4795-4797)GAA>CAA	p.E1599Q	SPEN_uc010obp.1_Missense_Mutation_p.E1558Q	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1599	Potential.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GAAAGAAAAAGAAAAAGACCA	0.418													8	153	---	---	---	---	PASS	C	16257530	C	C	16257530	3	2	33	1	0	0	0	0	1	0	0	0	15037	943	33	2	4837	2	SPEN	1	16257530	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	3948201	16257530	232993091	3	13270										
C1orf89	79363	broad.mit.edu	37	chr1	16559053	16559053	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	caggggcctcacctgctatgCgggccagctgtccagggagg	16	13	1	0	rs142028968	byFrequency	TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:16559053C>T	uc001ayd.2	-	4	901	c.479G>A	c.(478-480)CGC>CAC	p.R160H		NM_030907	NP_112169	Q9BU20	RSG1_HUMAN	hypothetical protein LOC79363	160	Small GTPase-like.				cellular protein localization|cilium assembly|exocytosis|protein transport|regulation of exocytosis|regulation of vesicle fusion|small GTPase mediated signal transduction	cilium|microtubule basal body	GTP binding	p.R160H(1)			0		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;3.2e-07)|COAD - Colon adenocarcinoma(227;2.07e-05)|BRCA - Breast invasive adenocarcinoma(304;9.12e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.0114)|READ - Rectum adenocarcinoma(331;0.0649)		ACCTGCTATGCGGGCCAGCTG	0.587													4	127	---	---	---	---	PASS	T	16559053	T	T	16559053	3	4	33	1	0	0	0	0	1	0	0	0	2066	768	27	1	305	1	C1orf89	1	16559053	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	301523	16559053	232691568	4	13271										
ZNF436	80818	broad.mit.edu	37	chr1	23689210	23689210	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttccacactcattacatttgTgaggcttctctccagtgtgg	8	11	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:23689210T>A	uc001bgt.2	-	3	1046	c.665A>T	c.(664-666)CAC>CTC	p.H222L	ZNF436_uc001bgu.2_Missense_Mutation_p.H222L	NM_030634	NP_085137	Q9C0F3	ZN436_HUMAN	zinc finger protein 436	222	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;5.97e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000977)|KIRC - Kidney renal clear cell carcinoma(1967;0.00336)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		ATTACATTTGTGAGGCTTCTC	0.468													54	199	---	---	---	---	PASS	A	23689210	A	A	23689210	3	1	33	1	0	0	0	0	1	0	0	0	17906	1696	59	5	751	5	ZNF436	1	23689210	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	7130157	23689210	225561411	5	13272										
CSF3R	1441	broad.mit.edu	37	chr1	36941154	36941154	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gctctgctcccagtctccacAgaatctgtggctccgggtcc	10	16	3	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:36941154A>T	uc001caw.1	-	4	363	c.185T>A	c.(184-186)CTG>CAG	p.L62Q	CSF3R_uc001cav.1_Missense_Mutation_p.L62Q|CSF3R_uc001cax.1_Missense_Mutation_p.L62Q|CSF3R_uc001cay.1_Missense_Mutation_p.L62Q	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	62	Ig-like C2-type.|Extracellular (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	CAGTCTCCACAGAATCTGTGG	0.602													17	104	---	---	---	---	PASS	T	36941154	T	T	36941154	3	4	33	1	0	0	0	0	1	0	0	0	3937	188	7	5	2571	5	CSF3R	1	36941154	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	13251944	36941154	212309467	6	13273										
GPX7	2882	broad.mit.edu	37	chr1	53073986	53073986	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tggaagtacctagtagccccAgatggaaaggtggtaggggc	16	7	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:53073986A>T	uc001cue.2	+	3	492	c.453A>T	c.(451-453)CCA>CCT	p.P151P		NM_015696	NP_056511	Q96SL4	GPX7_HUMAN	glutathione peroxidase 7 precursor	151					response to oxidative stress	extracellular region	glutathione peroxidase activity				0					Glutathione(DB00143)	TAGTAGCCCCAGATGGAAAGG	0.557													50	113	---	---	---	---	PASS	T	53073986	T	T	53073986	2	4	33	1	0	0	0	0	0	0	0	1	6745	175	7	5		5	GPX7	1	53073986	Silent	SNP	A	TCGA-22-1016-01A-01D-1521-08	16132832	53073986	196176635	7	13274										
C8A	731	broad.mit.edu	37	chr1	57349309	57349309	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggtgtaggtgtatcccactcAcaagacacttcattcttgaa	8	10	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:57349309A>T	uc001cyo.2	+	6	942	c.810A>T	c.(808-810)TCA>TCT	p.S270S		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	270	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						TATCCCACTCACAAGACACTT	0.408													28	85	---	---	---	---	PASS	T	57349309	T	T	57349309	2	4	33	1	0	0	0	0	0	0	0	1	2416	146	6	5		5	C8A	1	57349309	Silent	SNP	A	TCGA-22-1016-01A-01D-1521-08	4275323	57349309	191901312	8	13275										
DNAJC6	9829	broad.mit.edu	37	chr1	65858250	65858250	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggtgacaagcctcatggagtCaagaagcccagcaaaaagca	11	10	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:65858250C>G	uc001dcd.1	+	12	1598	c.1434C>G	c.(1432-1434)GTC>GTG	p.V478V	DNAJC6_uc001dcc.1_Silent_p.V509V|DNAJC6_uc010opc.1_Silent_p.V465V|DNAJC6_uc001dce.1_Silent_p.V535V	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	478	Pro-rich.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						CTCATGGAGTCAAGAAGCCCA	0.532													17	69	---	---	---	---	PASS	G	65858250	G	G	65858250	2	3	33	1	0	0	0	0	0	0	0	1	4653	813	29	2		2	DNAJC6	1	65858250	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	8508941	65858250	183392371	9	13276										
IFI44L	10964	broad.mit.edu	37	chr1	79102885	79102885	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttcacaaagaagtattaaacTgtggtgagtctcactgaact	8	7	2	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:79102885T>A	uc010oro.1	+	6	1224	c.1045T>A	c.(1045-1047)TGT>AGT	p.C349S	IFI44L_uc010orp.1_Missense_Mutation_p.C86S|IFI44L_uc010orq.1_Missense_Mutation_p.C86S	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	349						cytoplasm					0						AGTATTAAACTGTGGTGAGTC	0.224													21	65	---	---	---	---	PASS	A	79102885	A	A	79102885	3	1	33	1	0	0	0	0	1	0	0	0	7518	1580	55	5	1063	5	IFI44L	1	79102885	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	13244635	79102885	170147736	10	13277										
IFI44	10561	broad.mit.edu	37	chr1	79120789	79120789	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	attctgctgctgggtccaatTggagctgggaagtccagctt	13	9	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:79120789T>C	uc001dip.3	+	4	709	c.585T>C	c.(583-585)ATT>ATC	p.I195I	IFI44_uc010orr.1_Silent_p.I195I|IFI44_uc010ors.1_5'UTR	NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	195					response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2						TGGGTCCAATTGGAGCTGGGA	0.468													28	218	---	---	---	---	PASS	C	79120789	C	C	79120789	2	2	33	1	0	0	0	0	0	0	0	1	7517	1800	63	5		5	IFI44	1	79120789	Silent	SNP	T	TCGA-22-1016-01A-01D-1521-08	17904	79120789	170129832	11	13278										
ELTD1	64123	broad.mit.edu	37	chr1	79392575	79392575	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagaaaaacagcttacctttCgatgacttaatgtaaatgtt	6	7	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:79392575C>G	uc001diq.3	-	8	1235	c.1079G>C	c.(1078-1080)CGA>CCA	p.R360P		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	360	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)		GCTTACCTTTCGATGACTTAA	0.353													28	62	---	---	---	---	PASS	G	79392575	G	G	79392575	3	3	33	1	0	0	0	0	1	0	0	0	5084	884	31	2	1025	2	ELTD1	1	79392575	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	271786	79392575	169858046	12	13279										
SYDE2	84144	broad.mit.edu	37	chr1	85624609	85624609	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggacatgggaattggctgttCaatcattacttctggcccat	10	9	3	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:85624609C>T	uc009wcm.2	-	7	3458	c.3409G>A	c.(3409-3411)GAA>AAA	p.E1137K		NM_032184	NP_115560	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2	1137					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|central_nervous_system(1)	2				all cancers(265;0.0126)|Epithelial(280;0.0336)		ATTGGCTGTTCAATCATTACT	0.348													23	57	---	---	---	---	PASS	T	85624609	T	T	85624609	3	4	33	1	0	0	0	0	1	0	0	0	15433	835	29	2	179	2	SYDE2	1	85624609	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	6232034	85624609	163626012	13	13280										
BCAR3	8412	broad.mit.edu	37	chr1	94047862	94047862	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gacccccagcgcttaccctgCagtccatgctcagtacgtgc	9	17	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:94047862C>T	uc001dpz.2	-	7	1957	c.1682G>A	c.(1681-1683)TGC>TAC	p.C561Y	BCAR3_uc001dqa.2_Missense_Mutation_p.C561Y|BCAR3_uc001dqb.2_Missense_Mutation_p.C561Y|BCAR3_uc001dpx.3_Missense_Mutation_p.C237Y|BCAR3_uc001dpy.2_Missense_Mutation_p.C470Y|BCAR3_uc009wdm.1_Missense_Mutation_p.C237Y	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	561	Ras-GEF.				response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		GCTTACCCTGCAGTCCATGCT	0.537													32	194	---	---	---	---	PASS	T	94047862	T	T	94047862	3	4	33	1	0	0	0	0	1	0	0	0	1349	710	25	3	819	3	BCAR3	1	94047862	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	8423253	94047862	155202759	14	13281										
TRIM33	51592	broad.mit.edu	37	chr1	114969855	114969855	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cacaatggaaacgtattgctCcattagcagcagggacagga	11	9	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:114969855C>G	uc001eew.2	-	8	1448	c.1364G>C	c.(1363-1365)GGA>GCA	p.G455A	TRIM33_uc010owr.1_Missense_Mutation_p.G63A|TRIM33_uc010ows.1_Missense_Mutation_p.G63A|TRIM33_uc001eex.2_Missense_Mutation_p.G455A	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	455					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACGTATTGCTCCATTAGCAGC	0.363			T	RET	papillary thyroid								28	213	---	---	---	---	PASS	G	114969855	G	G	114969855	3	3	33	1	0	0	0	0	1	0	0	0	16504	855	30	2	2071	2	TRIM33	1	114969855	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	20921993	114969855	134280766	15	13282										
AMPD1	270	broad.mit.edu	37	chr1	115229390	115229390	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gaggcatagtcaccagtaatCtgcactctctgaaaatcagg	9	10	4	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:115229390C>A	uc001efe.1	-	4	441	c.357G>T	c.(355-357)CAG>CAT	p.Q119H	AMPD1_uc001eff.1_Missense_Mutation_p.Q115H	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	119					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	CACCAGTAATCTGCACTCTCT	0.473													34	137	---	---	---	---	PASS	A	115229390	A	A	115229390	3	1	33	1	0	0	0	0	1	0	0	0	585	912	32	2	1938	2	AMPD1	1	115229390	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	259535	115229390	134021231	16	13283										
SYCP1	6847	broad.mit.edu	37	chr1	115399274	115399274	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aaaaatggggaaaacattgaTtcaggtaggagcatggaaaa	12	3	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:115399274T>C	uc001efr.2	+	3	398	c.189T>C	c.(187-189)GAT>GAC	p.D63D	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Silent_p.D63D|SYCP1_uc009wgw.2_Silent_p.D63D	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	63	Asp/Glu-rich (acidic).				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		AAAACATTGATTCAGGTAGGA	0.318													20	65	---	---	---	---	PASS	C	115399274	C	C	115399274	2	2	33	1	0	0	0	0	0	0	0	1	15428	1490	52	5		5	SYCP1	1	115399274	Silent	SNP	T	TCGA-22-1016-01A-01D-1521-08	169884	115399274	133851347	17	13284										
CD101	9398	broad.mit.edu	37	chr1	117559882	117559882	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tggctggcatggggcaggatGgcattgtgcagctgggtgcc	19	8	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:117559882G>T	uc010oxb.1	+	5	1457	c.1399G>T	c.(1399-1401)GGC>TGC	p.G467C	CD101_uc009whd.2_Missense_Mutation_p.G467C|CD101_uc010oxc.1_Missense_Mutation_p.G467C|CD101_uc010oxd.1_Missense_Mutation_p.G405C	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	467	Extracellular (Potential).|Ig-like C2-type 4.				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GGGGCAGGATGGCATTGTGCA	0.587													19	91	---	---	---	---	PASS	T	117559882	T	T	117559882	3	4	33	1	0	0	0	0	1	0	0	0	2962	1348	47	3	1417	3	CD101	1	117559882	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	2160608	117559882	131690739	18	13285										
GJA8	2703	broad.mit.edu	37	chr1	147380457	147380457	+	Missense_Mutation	SNP	C	A	A													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gggactaacggcggcccggaCcagggcagcgtcaagaagag							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:147380457C>A	uc001epu.1	+	2	438	c.375C>A	c.(373-375)GAC>GAA	p.D125E		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	125	Cytoplasmic (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					GCGGCCCGGACCAGGGCAGCG	0.642													26	52	---	---	---	---	PASS	A	147380457	A	A	147380457	3	1	33	1	0	0	0	0	1	0	0	0	6405	506	18	3	377	3	GJA8	1	147380457	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	29820575	147380457	101870164	19	13286	346	2								
GJA8	2703	broad.mit.edu	37	chr1	147380458	147380458	+	Missense_Mutation	SNP	C	A	A													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggactaacggcggcccggacCagggcagcgtcaagaagagc							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:147380458C>A	uc001epu.1	+	2	439	c.376C>A	c.(376-378)CAG>AAG	p.Q126K		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	126	Cytoplasmic (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					CGGCCCGGACCAGGGCAGCGT	0.647													27	55	---	---	---	---	PASS	A	147380458	A	A	147380458	3	1	33	1	0	0	0	0	1	0	0	0	6405	595	21	3	378	3	GJA8	1	147380458	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	1	147380458	101870163	20	13287	346	2								
VPS45	11311	broad.mit.edu	37	chr1	150048324	150048324	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtttcagatttcagtaatgtGatcagcaagagtgacgtgaa	11	5	3	5			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:150048324G>C	uc001etp.2	+	4	876	c.303G>C	c.(301-303)GTG>GTC	p.V101V	VPS45_uc010pbp.1_RNA|VPS45_uc010pbq.1_Silent_p.V65V|VPS45_uc010pbs.1_Silent_p.V65V|VPS45_uc001etq.2_5'Flank|VPS45_uc009wlm.1_Silent_p.V101V|VPS45_uc010pbr.1_Silent_p.V65V	NM_007259	NP_009190	Q9NRW7	VPS45_HUMAN	vacuolar protein sorting 45A	101					blood coagulation|intracellular protein transport|vesicle docking involved in exocytosis	endosome membrane|Golgi membrane|integral to membrane of membrane fraction				central_nervous_system(1)|skin(1)	2	Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			TCAGTAATGTGATCAGCAAGA	0.408													37	177	---	---	---	---	PASS	C	150048324	C	C	150048324	2	2	33	1	0	0	0	0	0	0	0	1	17208	1277	45	2		2	VPS45	1	150048324	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	2667866	150048324	99202297	21	13288										
RPTN	126638	broad.mit.edu	37	chr1	152128744	152128744	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccacagcctaattcctgaccTagcctctcagactgtccaca	5	17	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:152128744T>A	uc001ezs.1	-	3	896	c.831A>T	c.(829-831)CTA>CTT	p.L277L		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	277	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						ATTCCTGACCTAGCCTCTCAG	0.458													126	431	---	---	---	---	PASS	A	152128744	A	A	152128744	2	1	33	1	0	0	0	0	0	0	0	1	13664	1509	53	5		5	RPTN	1	152128744	Silent	SNP	T	TCGA-22-1016-01A-01D-1521-08	2080420	152128744	97121877	22	13289										
LCE3E	353145	broad.mit.edu	37	chr1	152538465	152538465	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cccgccttgctgaccactgcCcctgtcacaggagttggacc	10	17	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:152538465C>T	uc001faa.2	-	2	276	c.220G>A	c.(220-222)GGC>AGC	p.G74S		NM_178435	NP_848522	Q5T5B0	LCE3E_HUMAN	late cornified envelope 3E	74					keratinization					ovary(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		Lung(1;0.000294)|LUAD - Lung adenocarcinoma(1;0.00527)|LUSC - Lung squamous cell carcinoma(543;0.206)	UCEC - Uterine corpus endometrioid carcinoma (5;0.153)		TGACCACTGCCCCTGTCACAG	0.652													43	171	---	---	---	---	PASS	T	152538465	T	T	152538465	3	4	33	1	0	0	0	0	1	0	0	0	8673	623	22	3	62	3	LCE3E	1	152538465	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	409721	152538465	96712156	23	13290										
ATP8B2	57198	broad.mit.edu	37	chr1	154316369	154316369	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cctttccactctgcctccagGagtacgcaggggaagggctg	13	13	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:154316369G>T	uc001fex.2	+	18	1858	c.1858G>T	c.(1858-1860)GAG>TAG	p.E620*		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	606	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CTGCCTCCAGGAGTACGCAGG	0.393													39	85	---	---	---	---	PASS	T	154316369	T	T	154316369	4	4	33	1	0	0	0	0	0	1	0	0	1195	1188	41	2	2058	2	ATP8B2	1	154316369	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	1777904	154316369	94934252	24	13291										
CLK2	1196	broad.mit.edu	37	chr1	155240753	155240753	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcgctctgaggagtggtaccTtcgaggatgcggcatctgga	15	9	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:155240753T>A	uc001fjy.2	-	2	306	c.16A>T	c.(16-18)AGG>TGG	p.R6W	RAG1AP1_uc010pey.1_Intron|CLK2_uc001fjw.2_Missense_Mutation_p.R6W|CLK2_uc001fjx.2_Translation_Start_Site|CLK2_uc009wqm.2_Missense_Mutation_p.R6W	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	6						nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	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)			GAGTGGTACCTTCGAGGATGC	0.527								Other_conserved_DNA_damage_response_genes					39	123	---	---	---	---	PASS	A	155240753	A	A	155240753	3	1	33	1	0	0	0	0	1	0	0	0	3537	1608	56	5	1528	5	CLK2	1	155240753	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	924384	155240753	94009868	25	13292										
PEAR1	375033	broad.mit.edu	37	chr1	156877949	156877949	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggagtgcccggtgggccgctTtgggcaggactgtgctgaga	19	9	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:156877949T>A	uc001fqj.1	+	9	1048	c.932T>A	c.(931-933)TTT>TAT	p.F311Y	PEAR1_uc009wsl.1_Missense_Mutation_p.F112Y|PEAR1_uc001fqk.1_Translation_Start_Site	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	311	EGF-like 4.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GTGGGCCGCTTTGGGCAGGAC	0.726													4	26	---	---	---	---	PASS	A	156877949	A	A	156877949	3	1	33	1	0	0	0	0	1	0	0	0	11712	1841	64	5	962	5	PEAR1	1	156877949	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	1637196	156877949	92372672	26	13293										
FCRL3	115352	broad.mit.edu	37	chr1	157667071	157667071	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cctgctccagcccaatccgaGggtctggctatctctgaaga	10	14	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:157667071G>T	uc001frb.2	-	6	995	c.703C>A	c.(703-705)CTC>ATC	p.L235I	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.L235I|FCRL3_uc009wsn.2_Intron|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_5'UTR|FCRL3_uc001frc.1_Missense_Mutation_p.L235I	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	235	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					CCCAATCCGAGGGTCTGGCTA	0.577													49	215	---	---	---	---	PASS	T	157667071	T	T	157667071	3	4	33	1	0	0	0	0	1	0	0	0	5796	1000	35	3	1541	3	FCRL3	1	157667071	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	789122	157667071	91583550	27	13294										
FCRL1	115350	broad.mit.edu	37	chr1	157773749	157773749	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggcagcgatctggagcttggGggagctgctccagcctgggc	18	11	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:157773749G>T	uc001frg.2	-	3	318	c.205C>A	c.(205-207)CCC>ACC	p.P69T	FCRL1_uc001frf.2_5'Flank|FCRL1_uc001frh.2_Missense_Mutation_p.P69T|FCRL1_uc001fri.2_Missense_Mutation_p.P69T|FCRL1_uc001frj.2_RNA	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	69	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TGGAGCTTGGGGGAGCTGCTC	0.562													51	208	---	---	---	---	PASS	T	157773749	T	T	157773749	3	4	33	1	0	0	0	0	1	0	0	0	5794	1232	43	3	1186	3	FCRL1	1	157773749	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	106678	157773749	91476872	28	13295										
CD5L	922	broad.mit.edu	37	chr1	157804345	157804345	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccataggcatgcttgttgcaGcgtttttgagtcagtacagc	11	9	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:157804345G>A	uc001frk.3	-	4	713	c.570C>T	c.(568-570)CGC>CGT	p.R190R		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	190	SRCR 2.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GCTTGTTGCAGCGTTTTTGAG	0.592													39	132	---	---	---	---	PASS	A	157804345	A	A	157804345	2	1	33	1	0	0	0	0	0	0	0	1	3027	958	34	3		3	CD5L	1	157804345	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	30596	157804345	91446276	29	13296										
SPTA1	6708	broad.mit.edu	37	chr1	158647593	158647593	+	Nonsense_Mutation	SNP	C	A	A													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggtgagtacaggttccttctCcttgatccactggatggctt							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:158647593C>A	uc001fst.1	-	7	1043	c.844G>T	c.(844-846)GAG>TAG	p.E282*		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	282	Spectrin 4.				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)					GGTTCCTTCTCCTTGATCCAC	0.473													19	100	---	---	---	---	PASS	A	158647593	A	A	158647593	4	1	33	1	0	0	0	0	0	1	0	0	15115	864	30	2	6599	2	SPTA1	1	158647593	Nonsense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	843248	158647593	90603028	30	13297	347	2								
SPTA1	6708	broad.mit.edu	37	chr1	158647594	158647594	+	Missense_Mutation	SNP	C	A	A													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtgagtacaggttccttctcCttgatccactggatggcttc							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:158647594C>A	uc001fst.1	-	7	1042	c.843G>T	c.(841-843)AAG>AAT	p.K281N		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	281	Spectrin 4.				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)					GTTCCTTCTCCTTGATCCACT	0.478													18	100	---	---	---	---	PASS	A	158647594	A	A	158647594	3	1	33	1	0	0	0	0	1	0	0	0	15115	680	24	3	6600	3	SPTA1	1	158647594	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	1	158647594	90603027	31	13298	347	2								
F5	2153	broad.mit.edu	37	chr1	169541508	169541508	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgaggatggatgctcaagggCttatctgccttatttttaaa	10	6	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:169541508C>A	uc001ggg.1	-	3	469	c.324G>T	c.(322-324)AAG>AAT	p.K108N	F5_uc010plr.1_RNA	NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	108	F5/8 type A 1.|Plastocyanin-like 1.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TGCTCAAGGGCTTATCTGCCT	0.323													23	75	---	---	---	---	PASS	A	169541508	A	A	169541508	3	1	33	1	0	0	0	0	1	0	0	0	5348	796	28	3	6442	3	F5	1	169541508	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	10893914	169541508	79709113	32	13299										
SELP	6403	broad.mit.edu	37	chr1	169581473	169581473	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	acctttacacactggggctgGggctgtccatacccccgagg	12	14	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:169581473G>T	uc001ggi.3	-	6	1008	c.943C>A	c.(943-945)CCA>ACA	p.P315T	SELP_uc001ggh.2_Missense_Mutation_p.P150T|SELP_uc009wvr.2_Missense_Mutation_p.P315T	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	315	Extracellular (Potential).|Sushi 2.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	ACTGGGGCTGGGGCTGTCCAT	0.488													46	189	---	---	---	---	PASS	T	169581473	T	T	169581473	3	4	33	1	0	0	0	0	1	0	0	0	14019	1232	43	3	1593	3	SELP	1	169581473	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	39965	169581473	79669148	33	13300										
TNN	63923	broad.mit.edu	37	chr1	175097181	175097181	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttggtaggagatgcagctggGacgggaagaccagaggtttg	18	5	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:175097181G>C	uc001gkl.1	+	14	3172	c.3059G>C	c.(3058-3060)GGA>GCA	p.G1020A		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	1020	Fibronectin type-III 9.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		ATGCAGCTGGGACGGGAAGAC	0.547													30	147	---	---	---	---	PASS	C	175097181	C	C	175097181	3	2	33	1	0	0	0	0	1	0	0	0	16320	1174	41	2	3109	2	TNN	1	175097181	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	5515708	175097181	74153440	34	13301										
TNR	7143	broad.mit.edu	37	chr1	175328799	175328799	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctccacctcacccactggtgCcttccactgcagcagggctt	8	18	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:175328799C>T	uc001gkp.1	-	13	3004	c.2923G>A	c.(2923-2925)GCA>ACA	p.A975T	TNR_uc009wwu.1_Missense_Mutation_p.A975T	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	975	Fibronectin type-III 8.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CCCACTGGTGCCTTCCACTGC	0.493													43	130	---	---	---	---	PASS	T	175328799	T	T	175328799	3	4	33	1	0	0	0	0	1	0	0	0	16335	739	26	3	1189	3	TNR	1	175328799	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	231618	175328799	73921822	35	13302										
TNR	7143	broad.mit.edu	37	chr1	175331844	175331844	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctcgctttcctccctgccccGcacgctgttgaggctgattt	9	16	0	2	rs150401432		TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:175331844G>A	uc001gkp.1	-	12	2890	c.2809C>T	c.(2809-2811)CGG>TGG	p.R937W	TNR_uc009wwu.1_Missense_Mutation_p.R937W	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	937	Fibronectin type-III 7.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TCCCTGCCCCGCACGCTGTTG	0.552													50	118	---	---	---	---	PASS	A	175331844	A	A	175331844	3	1	33	1	0	0	0	0	1	0	0	0	16335	1086	38	1	1307	1	TNR	1	175331844	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	3045	175331844	73918777	36	13303										
NCF2	4688	broad.mit.edu	37	chr1	183543663	183543663	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtcgattttggaatgtctggGctcagacttcatgctcgtgg	13	8	3	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:183543663G>T	uc001gqj.3	-	4	735	c.460C>A	c.(460-462)CCC>ACC	p.P154T	NCF2_uc010pod.1_Intron|NCF2_uc010poe.1_Intron|NCF2_uc001gqk.3_Missense_Mutation_p.P154T	NM_000433	NP_000424	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	154	TPR 3.				cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3						GAATGTCTGGGCTCAGACTTC	0.443													134	363	---	---	---	---	PASS	T	183543663	T	T	183543663	3	4	33	1	0	0	0	0	1	0	0	0	10217	1203	42	3	1168	3	NCF2	1	183543663	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	8211819	183543663	65706958	37	13304										
SYT14	255928	broad.mit.edu	37	chr1	210273672	210273672	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgattggaaattatgcagttCggtttagactgtatggtgta	12	3	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:210273672C>T	uc009xcv.2	+	6	1102	c.1030C>T	c.(1030-1032)CGG>TGG	p.R344W	SYT14_uc001hhs.3_Missense_Mutation_p.R389W|SYT14_uc001hht.3_Missense_Mutation_p.R344W|SYT14_uc001hhu.3_Intron|SYT14_uc010psn.1_Missense_Mutation_p.R389W|SYT14_uc010pso.1_Missense_Mutation_p.R306W	NM_153262	NP_694994	Q8NB59	SYT14_HUMAN	synaptotagmin XIV isoform 4	344	Cytoplasmic (Potential).|C2 1.					integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)		TTATGCAGTTCGGTTTAGACT	0.348													40	144	---	---	---	---	PASS	T	210273672	T	T	210273672	3	4	33	1	0	0	0	0	1	0	0	0	15467	875	31	2	1191	2	SYT14	1	210273672	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	26730009	210273672	38976949	38	13305										
KCNH1	3756	broad.mit.edu	37	chr1	210948737	210948737	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	caggttccgggagaaggaatGggagaaggccgtgtagaatt	17	5	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:210948737G>T	uc001hib.2	-	10	2235	c.2065C>A	c.(2065-2067)CAT>AAT	p.H689N	KCNH1_uc001hic.2_Missense_Mutation_p.H662N	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	689	Cytoplasmic (Potential).|cNMP.|Calmodulin-binding.				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		GAGAAGGAATGGGAGAAGGCC	0.483													28	91	---	---	---	---	PASS	T	210948737	T	T	210948737	3	4	33	1	0	0	0	0	1	0	0	0	8031	1348	47	3	912	3	KCNH1	1	210948737	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	675065	210948737	38301884	39	13306										
USH2A	7399	broad.mit.edu	37	chr1	215853703	215853703	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttctaacccgtacaggtgggCttgatggcttgttccctgta	11	10	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:215853703C>A	uc001hku.1	-	62	12469	c.12082G>T	c.(12082-12084)GCC>TCC	p.A4028S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4028	Fibronectin type-III 25.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TACAGGTGGGCTTGATGGCTT	0.398										HNSCC(13;0.011)			53	178	---	---	---	---	PASS	A	215853703	A	A	215853703	3	1	33	1	0	0	0	0	1	0	0	0	17033	797	28	3	3570	3	USH2A	1	215853703	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	4904966	215853703	33396918	40	13307										
USH2A	7399	broad.mit.edu	37	chr1	216017726	216017726	+	Nonsense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttgtagagcttattatttacAtagatagaatactcagtgac	7	5	1	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:216017726A>C	uc001hku.1	-	46	9555	c.9168T>G	c.(9166-9168)TAT>TAG	p.Y3056*		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3056	Fibronectin type-III 17.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TATTATTTACATAGATAGAAT	0.418										HNSCC(13;0.011)			39	108	---	---	---	---	PASS	C	216017726	C	C	216017726	4	2	33	1	0	0	0	0	0	1	0	0	17033	224	8	5	6548	5	USH2A	1	216017726	Nonsense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	164023	216017726	33232895	41	13308										
MARK1	4139	broad.mit.edu	37	chr1	220792066	220792066	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcttctgaagaaattattagTcctgaatccaataaagagag	7	6	2	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:220792066T>C	uc001hmn.3	+	9	1475	c.878T>C	c.(877-879)GTC>GCC	p.V293A	MARK1_uc009xdw.2_Missense_Mutation_p.V293A|MARK1_uc010pun.1_Missense_Mutation_p.V293A|MARK1_uc001hmm.3_Missense_Mutation_p.V271A	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1	293	Protein kinase.				intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		AAATTATTAGTCCTGAATCCA	0.338													35	96	---	---	---	---	PASS	C	220792066	C	C	220792066	3	2	33	1	0	0	0	0	1	0	0	0	9312	1667	58	5	912	5	MARK1	1	220792066	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	4774340	220792066	28458555	42	13309										
LIN9	286826	broad.mit.edu	37	chr1	226496871	226496871	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccgcgccgctttttcaaaggCtgcccgccgcggtgcattgt	12	15	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:226496871C>G	uc001hqa.2	-	1	328	c.18G>C	c.(16-18)CAG>CAC	p.Q6H	LIN9_uc001hqb.2_Missense_Mutation_p.Q6H|LIN9_uc001hqc.2_Intron|LIN9_uc009xel.1_Missense_Mutation_p.Q6H	NM_173083	NP_775106	Q5TKA1	LIN9_HUMAN	lin-9 homolog	Error:Variant_position_missing_in_Q5TKA1_after_alignment					cell cycle|DNA replication	nucleoplasm					0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.131)		TTTTCAAAGGCTGCCCGCCGC	0.522													19	49	---	---	---	---	PASS	G	226496871	G	G	226496871	3	3	33	1	0	0	0	0	1	0	0	0	8813	796	28	4	1718	4	LIN9	1	226496871	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	5704805	226496871	22753750	43	13310										
ACTN2	88	broad.mit.edu	37	chr1	236894586	236894586	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gaaatcgctgagaagcacctGgatattcctaaaatgttgga	10	7	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:236894586G>T	uc001hyf.2	+	7	873	c.669G>T	c.(667-669)CTG>CTT	p.L223L	ACTN2_uc001hyg.2_5'UTR|ACTN2_uc009xgi.1_Silent_p.L223L|ACTN2_uc010pxu.1_Silent_p.L8L	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	223	CH 2.|Actin-binding.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			AGAAGCACCTGGATATTCCTA	0.368													49	164	---	---	---	---	PASS	T	236894586	T	T	236894586	2	4	33	1	0	0	0	0	0	0	0	1	205	1335	47	3		3	ACTN2	1	236894586	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	10397715	236894586	12356035	44	13311										
FMN2	56776	broad.mit.edu	37	chr1	240497454	240497454	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttccactgccagaaccccagGacctttttcaggcctcacag	7	16	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:240497454G>T	uc010pyd.1	+	13	4915	c.4690G>T	c.(4690-4692)GAC>TAC	p.D1564Y	FMN2_uc010pye.1_Missense_Mutation_p.D1568Y|FMN2_uc010pyf.1_Missense_Mutation_p.D210Y|FMN2_uc010pyg.1_Missense_Mutation_p.D160Y	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1564	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AGAACCCCAGGACCTTTTTCA	0.353													116	381	---	---	---	---	PASS	T	240497454	T	T	240497454	3	4	33	1	0	0	0	0	1	0	0	0	5950	1174	41	2	4740	2	FMN2	1	240497454	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	3602868	240497454	8753167	45	13312										
TRIM58	25893	broad.mit.edu	37	chr1	248039387	248039387	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	attactgggaggttctggtgGgagaaggagcagagtggggt	20	3	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr1:248039387G>A	uc001ido.2	+	6	1105	c.1057G>A	c.(1057-1059)GGA>AGA	p.G353R	OR2W3_uc001idp.1_Intron	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	353	B30.2/SPRY.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GGTTCTGGTGGGAGAAGGAGC	0.572													36	123	---	---	---	---	PASS	A	248039387	A	A	248039387	3	1	33	1	0	0	0	0	1	0	0	0	16528	1233	43	3	1079	3	TRIM58	1	248039387	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	7541933	248039387	1211234	46	13313										
RNF144A	9781	broad.mit.edu	37	chr2	7164553	7164553	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	catcaagcgctgccccaagtGcaaagtctacatcgagcgag	10	13	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:7164553G>T	uc002qys.2	+	7	1005	c.563G>T	c.(562-564)TGC>TTC	p.C188F	RNF144A_uc002qyt.2_Missense_Mutation_p.C37F	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	188	RING-type 2; degenerate.					Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		TGCCCCAAGTGCAAAGTCTAC	0.567													33	129	---	---	---	---	PASS	T	7164553	T	T	7164553	3	4	33	1	0	0	0	0	1	0	0	0	13445	1319	46	3	581	3	RNF144A	2	7164553	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08		7164553	236034820	47	13314										
SLC5A6	8884	broad.mit.edu	37	chr2	27426649	27426649	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aatcgttaaagtgggtacctGagagagccgctgaagaggca	14	7	0	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:27426649G>C	uc002rjd.2	-	10	1483	c.1092C>G	c.(1090-1092)CTC>CTG	p.L364L	SLC5A6_uc010eyv.1_Silent_p.L364L	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	364					biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	GTGGGTACCTGAGAGAGCCGC	0.577													4	71	---	---	---	---	PASS	C	27426649	C	C	27426649	2	2	33	1	0	0	0	0	0	0	0	1	14669	1277	45	2		2	SLC5A6	2	27426649	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	20262096	27426649	215772724	48	13315										
TRMT61B	55006	broad.mit.edu	37	chr2	29084171	29084171	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttatgactcgtccttgtgatCcaacttaagtaaaaaataat	5	7	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:29084171C>G	uc002rmm.2	-	3	838	c.806G>C	c.(805-807)GGA>GCA	p.G269A	TRMT61B_uc002rmn.2_Missense_Mutation_p.G269A|TRMT61B_uc010ezk.2_RNA	NM_017910	NP_060380	Q9BVS5	TR61B_HUMAN	tRNA methyltransferase 61 homolog B	269							tRNA (adenine-N1-)-methyltransferase activity				0						TCCTTGTGATCCAACTTAAGT	0.254													22	80	---	---	---	---	PASS	G	29084171	G	G	29084171	3	3	33	1	0	0	0	0	1	0	0	0	16567	855	30	2	647	2	TRMT61B	2	29084171	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	1657522	29084171	214115202	49	13316										
XDH	7498	broad.mit.edu	37	chr2	31598422	31598422	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagctcctccttccagagccTgccagagagcagggcgtggg	14	14	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:31598422T>A	uc002rnv.1	-	15	1507	c.1428_splice	c.e15-1	p.K476_splice		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase						purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	TTCCAGAGCCTGCCAGAGAGC	0.567													18	47	---	---	---	---	PASS	A	31598422	A	A	31598422	5	1	33	1	0	0	0	0	0	0	1	0	17423	1594	55	5	2663	5	XDH	2	31598422	Splice_Site	SNP	T	TCGA-22-1016-01A-01D-1521-08	2514251	31598422	211600951	50	13317										
ABCG8	64241	broad.mit.edu	37	chr2	44078926	44078926	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcattgcccagatgcggctgCccagaaccttctcccaggcc	9	17	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:44078926C>T	uc002rtq.2	+	4	616	c.526C>T	c.(526-528)CCC>TCC	p.P176S	ABCG8_uc010yoa.1_Missense_Mutation_p.P176S	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	176	ABC transporter.|Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GATGCGGCTGCCCAGAACCTT	0.612													40	174	---	---	---	---	PASS	T	44078926	T	T	44078926	3	4	33	1	0	0	0	0	1	0	0	0	72	739	26	3	540	3	ABCG8	2	44078926	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	12480504	44078926	199120447	51	13318										
NRXN1	9378	broad.mit.edu	37	chr2	50779808	50779808	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gggcttttatttttatagtaCctgaccccatgtccaggagg	10	9	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:50779808C>T	uc010fbq.2	-	9	3273	c.1796G>A	c.(1795-1797)GGT>GAT	p.G599D	NRXN1_uc002rxb.3_Missense_Mutation_p.G231D|NRXN1_uc002rxe.3_Missense_Mutation_p.G559D|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TTTTATAGTACCTGACCCCAT	0.438													55	152	---	---	---	---	PASS	T	50779808	T	T	50779808	3	4	33	1	0	0	0	0	1	0	0	0	10665	507	18	3	3170	3	NRXN1	2	50779808	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	6700882	50779808	192419565	52	13319										
SMEK2	57223	broad.mit.edu	37	chr2	55825555	55825555	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agtatctttttacttacctgCaacatgctgactatctcaac	4	11	2	1	rs147118353		TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:55825555C>A	uc002rzc.2	-	4	1293	c.918G>T	c.(916-918)TTG>TTT	p.L306F	SMEK2_uc002rzb.2_Missense_Mutation_p.L306F|SMEK2_uc002rzd.2_Missense_Mutation_p.L306F|SMEK2_uc002rza.2_Missense_Mutation_p.L182F	NM_001122964	NP_001116436	Q5MIZ7	P4R3B_HUMAN	SMEK homolog 2, suppressor of mek1 isoform 1	306						microtubule organizing center|nucleus	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TACTTACCTGCAACATGCTGA	0.328													22	72	---	---	---	---	PASS	A	55825555	A	A	55825555	3	1	33	1	0	0	0	0	1	0	0	0	14794	709	25	3	1687	3	SMEK2	2	55825555	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	5045747	55825555	187373818	53	13320										
PNO1	56902	broad.mit.edu	37	chr2	68385526	68385526	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttacagagtgggaaagaagaAacaaggaaaattccagtccc	10	7	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:68385526A>G	uc002seh.2	+	2	284	c.222A>G	c.(220-222)GAA>GAG	p.E74E	WDR92_uc002sed.1_5'Flank|WDR92_uc002see.1_5'Flank|WDR92_uc002sef.1_5'Flank|WDR92_uc002seg.1_5'Flank	NM_020143	NP_064528	Q9NRX1	PNO1_HUMAN	partner of NOB1	74						nucleolus	RNA binding				0						GGAAAGAAGAAACAAGGAAAA	0.408													29	216	---	---	---	---	PASS	G	68385526	G	G	68385526	2	3	33	1	0	0	0	0	0	0	0	1	12161	11	1	5		5	PNO1	2	68385526	Silent	SNP	A	TCGA-22-1016-01A-01D-1521-08	12559971	68385526	174813847	54	13321										
CTNNA2	1496	broad.mit.edu	37	chr2	80136857	80136857	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cgagacgaccggcgcgagagGatcgtggcggagtgcaacgc	18	11	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:80136857G>T	uc010ysh.1	+	6	995	c.990G>T	c.(988-990)AGG>AGT	p.R330S	CTNNA2_uc010yse.1_Missense_Mutation_p.R330S|CTNNA2_uc010ysf.1_Missense_Mutation_p.R330S|CTNNA2_uc010ysg.1_Missense_Mutation_p.R330S	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	330					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GGCGCGAGAGGATCGTGGCGG	0.627													29	103	---	---	---	---	PASS	T	80136857	T	T	80136857	3	4	33	1	0	0	0	0	1	0	0	0	4013	1165	41	2		2	CTNNA2	2	80136857	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	11751331	80136857	163062516	55	13322										
KCNIP3	30818	broad.mit.edu	37	chr2	96040934	96040934	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	caacgcctttgatgcggacgGgaacggggccatccactttg	13	12	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:96040934G>T	uc002sup.2	+	5	540	c.425G>T	c.(424-426)GGG>GTG	p.G142V	KCNIP3_uc002suq.2_Missense_Mutation_p.G116V	NM_013434	NP_038462	Q9Y2W7	CSEN_HUMAN	Kv channel interacting protein 3 isoform 1	142	EF-hand 2.				apoptosis|signal transduction|transcription, DNA-dependent	endoplasmic reticulum|Golgi apparatus|nucleus|plasma membrane	calcium ion binding|DNA binding|potassium channel activity|transcription corepressor activity|voltage-gated ion channel activity			breast(2)|ovary(1)	3				READ - Rectum adenocarcinoma(193;0.13)		GATGCGGACGGGAACGGGGCC	0.617													30	119	---	---	---	---	PASS	T	96040934	T	T	96040934	3	4	33	1	0	0	0	0	1	0	0	0	8041	1232	43	3	550	3	KCNIP3	2	96040934	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	15904077	96040934	147158439	56	13323										
IL1R2	7850	broad.mit.edu	37	chr2	102636172	102636172	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccactcacttactcgtacacGatgtggccctggaagatgct	9	13	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:102636172G>T	uc002tbm.2	+	5	815	c.586G>T	c.(586-588)GAT>TAT	p.D196Y	IL1R2_uc002tbn.2_Missense_Mutation_p.D196Y|IL1R2_uc002tbo.1_Missense_Mutation_p.D196Y	NM_004633	NP_004624	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II precursor	196	Extracellular (Potential).|Ig-like C2-type 2.				immune response	integral to membrane|plasma membrane	interleukin-1, Type II, blocking receptor activity			ovary(1)|breast(1)	2					Anakinra(DB00026)	ACTCGTACACGATGTGGCCCT	0.428													10	50	---	---	---	---	PASS	T	102636172	T	T	102636172	3	4	33	1	0	0	0	0	1	0	0	0	7659	1058	37	2	600	2	IL1R2	2	102636172	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	6595238	102636172	140563201	57	13324										
CNTNAP5	129684	broad.mit.edu	37	chr2	125261909	125261909	+	Missense_Mutation	SNP	C	A	A													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctccgaaccacagattgtgcCcatcacatttgtcaactcca							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:125261909C>A	uc002tno.2	+	8	1464	c.1100C>A	c.(1099-1101)CCC>CAC	p.P367H	CNTNAP5_uc010flu.2_Missense_Mutation_p.P368H	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	367	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		CAGATTGTGCCCATCACATTT	0.458													13	104	---	---	---	---	PASS	A	125261909	A	A	125261909	3	1	33	1	0	0	0	0	1	0	0	0	3650	623	22	3	1130	3	CNTNAP5	2	125261909	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	22625737	125261909	117937464	58	13325	348	2								
CNTNAP5	129684	broad.mit.edu	37	chr2	125261910	125261910	+	Silent	SNP	C	A	A													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tccgaaccacagattgtgccCatcacatttgtcaactccag							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:125261910C>A	uc002tno.2	+	8	1465	c.1101C>A	c.(1099-1101)CCC>CCA	p.P367P	CNTNAP5_uc010flu.2_Silent_p.P368P	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	367	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		AGATTGTGCCCATCACATTTG	0.463													12	105	---	---	---	---	PASS	A	125261910	A	A	125261910	2	1	33	1	0	0	0	0	0	0	0	1	3650	581	21	3		3	CNTNAP5	2	125261910	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	1	125261910	117937463	59	13326	348	2								
ERCC3	2071	broad.mit.edu	37	chr2	128030506	128030506	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctggagaatttgcatcctttCcccctgagacgtaggtccgt	10	12	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:128030506C>A	uc002toh.1	-	11	1857	c.1762G>T	c.(1762-1764)GAA>TAA	p.E588*	ERCC3_uc002toe.1_Nonsense_Mutation_p.E343*|ERCC3_uc002tof.1_Nonsense_Mutation_p.E524*|ERCC3_uc002tog.1_Nonsense_Mutation_p.E524*	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	588	Helicase C-terminal.				cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		TGCATCCTTTCCCCCTGAGAC	0.453			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				18	88	---	---	---	---	PASS	A	128030506	A	A	128030506	4	1	33	1	0	0	0	0	0	1	0	0	5214	864	30	2	606	2	ERCC3	2	128030506	Nonsense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	2768596	128030506	115168867	60	13327										
LCT	3938	broad.mit.edu	37	chr2	136566200	136566200	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttcattgccgtggaaggccaCgaagggtcctcctcctcagc	11	14	2	0	rs151165674		TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:136566200C>A	uc002tuu.1	-	8	3728	c.3717G>T	c.(3715-3717)TCG>TCT	p.S1239S		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1239	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TGGAAGGCCACGAAGGGTCCT	0.562													31	186	---	---	---	---	PASS	A	136566200	A	A	136566200	2	1	33	1	0	0	0	0	0	0	0	1	8693	523	19	1		1	LCT	2	136566200	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	8535694	136566200	106633173	61	13328										
MCM6	4175	broad.mit.edu	37	chr2	136617013	136617013	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggctgaactcctccacgtgcCtgttcaaggttatcacataa	8	12	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:136617013C>A	uc002tuw.2	-	9	1297	c.1221_splice	c.e9-1	p.K407_splice		NM_005915	NP_005906	Q14566	MCM6_HUMAN	minichromosome maintenance complex component 6						cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|identical protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.166)	Atorvastatin(DB01076)	CTCCACGTGCCTGTTCAAGGT	0.438													10	51	---	---	---	---	PASS	A	136617013	A	A	136617013	5	1	33	1	0	0	0	0	0	0	1	0	9391	695	24	3	1281	3	MCM6	2	136617013	Splice_Site	SNP	C	TCGA-22-1016-01A-01D-1521-08	50813	136617013	106582360	62	13329										
CXCR4	7852	broad.mit.edu	37	chr2	136873423	136873423	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcttcacggaaacagggttcCttcatggagtcatagtcccc	9	12	4	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:136873423C>T	uc002tuz.2	-	2	170	c.75G>A	c.(73-75)AAG>AAA	p.K25K	CXCR4_uc002tuy.2_Silent_p.K29K|CXCR4_uc010fnk.2_Silent_p.K10K	NM_003467	NP_003458	P61073	CXCR4_HUMAN	chemokine (C-X-C motif) receptor 4 isoform b	25	Extracellular.				activation of MAPK activity|apoptosis|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|inflammatory response|initiation of viral infection|regulation of chemotaxis|response to hypoxia|response to virus	cell leading edge|cell surface|cytoplasmic membrane-bounded vesicle|integral to membrane|plasma membrane	actin binding|C-X-C chemokine receptor activity|coreceptor activity|myosin light chain binding|ubiquitin binding|ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.155)	Framycetin(DB00452)	AACAGGGTTCCTTCATGGAGT	0.428													34	139	---	---	---	---	PASS	T	136873423	T	T	136873423	2	4	33	1	0	0	0	0	0	0	0	1	4093	680	24	3		3	CXCR4	2	136873423	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	256410	136873423	106325950	63	13330										
LRP1B	53353	broad.mit.edu	37	chr2	141643896	141643896	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agaaaagatgatgaatgcttCaaaaggatctgaaattaaat	8	3	2	5			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:141643896C>A	uc002tvj.1	-	24	4747	c.3775G>T	c.(3775-3777)GAA>TAA	p.E1259*	LRP1B_uc010fnl.1_Nonsense_Mutation_p.E441*	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1259	Extracellular (Potential).				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)		ATGAATGCTTCAAAAGGATCT	0.284										TSP Lung(27;0.18)			11	94	---	---	---	---	PASS	A	141643896	A	A	141643896	4	1	33	1	0	0	0	0	0	1	0	0	8955	835	29	2	10296	2	LRP1B	2	141643896	Nonsense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	4770473	141643896	101555477	64	13331										
ZEB2	9839	broad.mit.edu	37	chr2	145158831	145158831	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aggccttgccacactctgtgCatttgaacttgcgattacct	8	12	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:145158831C>A	uc002tvu.2	-	7	1331	c.851G>T	c.(850-852)TGC>TTC	p.C284F	ZEB2_uc002tvv.2_Missense_Mutation_p.C278F|ZEB2_uc010zbm.1_Missense_Mutation_p.C255F|ZEB2_uc010fnp.2_Missense_Mutation_p.C192F|ZEB2_uc010fnq.1_Missense_Mutation_p.C313F	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	284	C2H2-type 3.					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		ACACTCTGTGCATTTGAACTT	0.438													90	214	---	---	---	---	PASS	A	145158831	A	A	145158831	3	1	33	1	0	0	0	0	1	0	0	0	17621	710	25	3	2809	3	ZEB2	2	145158831	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	3514935	145158831	98040542	65	13332										
SLC4A10	57282	broad.mit.edu	37	chr2	162834234	162834234	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttacatttttgtcataagctCcccttcctaatcactctaga	3	12	3	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:162834234C>T	uc002ubx.3	+	26	3531	c.3347C>T	c.(3346-3348)TCC>TTC	p.S1116F	SLC4A10_uc002uby.3_Missense_Mutation_p.S1086F|SLC4A10_uc010zcs.1_Missense_Mutation_p.S1097F	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	1116	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						GTCATAAGCTCCCCTTCCTAA	0.323													13	124	---	---	---	---	PASS	T	162834234	T	T	162834234	3	4	33	1	0	0	0	0	1	0	0	0	14651	855	30	2	3534	2	SLC4A10	2	162834234	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	17675403	162834234	80365139	66	13333										
PPIG	9360	broad.mit.edu	37	chr2	170465179	170465179	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgaaaactttacttctctatAgacgagagtttcgctgttaa	7	7	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:170465179A>G	uc002uez.2	+	7	510	c.290_splice	c.e7-2	p.D97_splice	PPIG_uc010fpx.2_Splice_Site_p.D82_splice|PPIG_uc010fpy.2_Splice_Site_p.D93_splice|PPIG_uc002ufa.2_Splice_Site_p.D97_splice|PPIG_uc002ufb.2_Splice_Site_p.D97_splice|PPIG_uc002ufc.1_Splice_Site_p.D97_splice|PPIG_uc002ufd.2_Splice_Site_p.D97_splice	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G						protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	ACTTCTCTATAGACGAGAGTT	0.328													24	53	---	---	---	---	PASS	G	170465179	G	G	170465179	5	3	33	1	0	0	0	0	0	0	1	0	12324	434	15	5	306	5	PPIG	2	170465179	Splice_Site	SNP	A	TCGA-22-1016-01A-01D-1521-08	7630945	170465179	72734194	67	13334										
RAPGEF4	11069	broad.mit.edu	37	chr2	173891408	173891408	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	caatttatgattgggaactcTtcaactgcgtgcatgaggta	10	7	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:173891408T>C	uc002uhv.3	+	24	2549	c.2362T>C	c.(2362-2364)TTC>CTC	p.F788L	RAPGEF4_uc002uhw.3_Missense_Mutation_p.F644L	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	788	Ras-GEF.				blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			TTGGGAACTCTTCAACTGCGT	0.428													26	156	---	---	---	---	PASS	C	173891408	C	C	173891408	3	2	33	1	0	0	0	0	1	0	0	0	13046	1609	56	5	2472	5	RAPGEF4	2	173891408	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	3426229	173891408	69307965	68	13335										
HOXD3	3232	broad.mit.edu	37	chr2	177033895	177033895	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcttcctgagtgcacaatgcAgaaggctgcttactatgaaa	10	9	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:177033895A>G	uc002ukt.1	+	2	229	c.53A>G	c.(52-54)CAG>CGG	p.Q18R		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	18					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		TGCACAATGCAGAAGGCTGCT	0.527													21	130	---	---	---	---	PASS	G	177033895	G	G	177033895	3	3	33	1	0	0	0	0	1	0	0	0	7323	188	7	5	55	5	HOXD3	2	177033895	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	3142487	177033895	66165478	69	13336										
TTN	7273	broad.mit.edu	37	chr2	179414904	179414904	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	accaagttactcgaggcactGgtcttccttgtaccaaagct	8	12	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:179414904G>A	uc010zfg.1	-	286	84181	c.83957C>T	c.(83956-83958)CCA>CTA	p.P27986L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P21681L|TTN_uc010zfi.1_Missense_Mutation_p.P21614L|TTN_uc010zfj.1_Missense_Mutation_p.P21489L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28913							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)			TCGAGGCACTGGTCTTCCTTG	0.413													95	223	---	---	---	---	PASS	A	179414904	A	A	179414904	3	1	33	1	0	0	0	0	1	0	0	0	16732	1348	47	3	16422	3	TTN	2	179414904	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	2381009	179414904	63784469	70	13337										
TTN	7273	broad.mit.edu	37	chr2	179641375	179641375	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	caagtggctttccatcatggAgccactccaccaccatcgtt	7	15	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:179641375A>T	uc010zfg.1	-	28	5440	c.5216T>A	c.(5215-5217)CTC>CAC	p.L1739H	TTN_uc010zfh.1_Missense_Mutation_p.L1693H|TTN_uc010zfi.1_Missense_Mutation_p.L1693H|TTN_uc010zfj.1_Missense_Mutation_p.L1693H|TTN_uc002unb.2_Missense_Mutation_p.L1739H|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1739							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)			TCCATCATGGAGCCACTCCAC	0.478													8	96	---	---	---	---	PASS	T	179641375	T	T	179641375	3	4	33	1	0	0	0	0	1	0	0	0	16732	304	11	5	106112	5	TTN	2	179641375	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	226471	179641375	63557998	71	13338										
ZNF804A	91752	broad.mit.edu	37	chr2	185800578	185800578	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agaaaactgtaatgaaatttCccaacgagttgttgtggatt	9	5	0	2	rs147922206		TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:185800578C>A	uc002uph.2	+	4	1049	c.455C>A	c.(454-456)TCC>TAC	p.S152Y		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	152						intracellular	zinc ion binding	p.S152F(1)		ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						AATGAAATTTCCCAACGAGTT	0.368													27	106	---	---	---	---	PASS	A	185800578	A	A	185800578	3	1	33	1	0	0	0	0	1	0	0	0	18167	855	30	2	469	2	ZNF804A	2	185800578	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	6159203	185800578	57398795	72	13339										
ZNF804A	91752	broad.mit.edu	37	chr2	185801937	185801937	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aagaaaaaagttatgtcagcAtcatcatatggagaaaacca	7	6	3	2	rs144621375		TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:185801937A>T	uc002uph.2	+	4	2408	c.1814A>T	c.(1813-1815)CAT>CTT	p.H605L		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	605						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TTATGTCAGCATCATCATATG	0.328													69	139	---	---	---	---	PASS	T	185801937	T	T	185801937	3	4	33	1	0	0	0	0	1	0	0	0	18167	217	8	5	1828	5	ZNF804A	2	185801937	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	1359	185801937	57397436	73	13340										
DNAH7	56171	broad.mit.edu	37	chr2	196759835	196759835	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgaagaatcttctcggaaaaGaatgcagtcatttgcaaatt	8	6	3	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:196759835G>C	uc002utj.3	-	30	4862	c.4761C>G	c.(4759-4761)TTC>TTG	p.F1587L		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1587	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TCTCGGAAAAGAATGCAGTCA	0.368													21	80	---	---	---	---	PASS	C	196759835	C	C	196759835	3	2	33	1	0	0	0	0	1	0	0	0	4606	933	33	2	7457	2	DNAH7	2	196759835	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	10957898	196759835	46439538	74	13341										
DNAH7	56171	broad.mit.edu	37	chr2	196765006	196765006	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agaaatattgtgttctctacCttcagattcccagcagcagt	7	10	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:196765006C>A	uc002utj.3	-	28	4649	c.4548G>T	c.(4546-4548)AAG>AAT	p.K1516N		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1516					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TGTTCTCTACCTTCAGATTCC	0.398													42	175	---	---	---	---	PASS	A	196765006	A	A	196765006	3	1	33	1	0	0	0	0	1	0	0	0	4606	695	24	3	7678	3	DNAH7	2	196765006	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	5171	196765006	46434367	75	13342										
PTH2R	5746	broad.mit.edu	37	chr2	209358071	209358071	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	accgccatgtggcagccgcaGatgcggctcagtgctcacca	12	15	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:209358071G>T	uc002vdb.2	+	13	1553	c.1340G>T	c.(1339-1341)AGA>ATA	p.R447I	PTH2R_uc010zjb.1_Missense_Mutation_p.R458I|PTH2R_uc010fuo.1_Intron	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	447	Cytoplasmic (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		GGCAGCCGCAGATGCGGCTCA	0.592													10	31	---	---	---	---	PASS	T	209358071	T	T	209358071	3	4	33	1	0	0	0	0	1	0	0	0	12760	942	33	2	1390	2	PTH2R	2	209358071	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	12593065	209358071	33841302	76	13343										
DES	1674	broad.mit.edu	37	chr2	220286269	220286269	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cctaccggaagctgctggagGgagaggagagccggtgaggg	20	8	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:220286269G>C	uc002vll.2	+	6	1317	c.1231G>C	c.(1231-1233)GGA>CGA	p.G411R		NM_001927	NP_001918	P17661	DESM_HUMAN	desmin	411	Rod.|Coil 2B.				cytoskeleton organization|muscle filament sliding|regulation of heart contraction	cytosol|Z disc	protein binding|structural constituent of cytoskeleton			central_nervous_system(2)	2		Renal(207;0.0183)		Epithelial(149;5.25e-07)|all cancers(144;0.000103)|Lung(261;0.00533)|LUSC - Lung squamous cell carcinoma(224;0.008)		GCTGCTGGAGGGAGAGGAGAG	0.622													9	78	---	---	---	---	PASS	C	220286269	C	C	220286269	3	2	33	1	0	0	0	0	1	0	0	0	4449	1233	43	4	1253	4	DES	2	220286269	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	10928198	220286269	22913104	77	13344										
IRS1	3667	broad.mit.edu	37	chr2	227662673	227662673	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgcgagggcggaactcatcaCtcatggcccgcatggcctcc	12	15	3	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:227662673C>A	uc002voh.3	-	1	834	c.782G>T	c.(781-783)AGT>ATT	p.S261I		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	261	IRS-type PTB.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GAACTCATCACTCATGGCCCG	0.642											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	98	---	---	---	---	PASS	A	227662673	A	A	227662673	3	1	33	1	0	0	0	0	1	0	0	0	7840	565	20	3	2950	3	IRS1	2	227662673	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	7376404	227662673	15536700	78	13345										
SPHKAP	80309	broad.mit.edu	37	chr2	228846552	228846552	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cactttccaggacttccgatGaaccagctgcacgacatcta	7	14	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:228846552G>A	uc002vpq.2	-	12	5031	c.4984C>T	c.(4984-4986)CAT>TAT	p.H1662Y	SPHKAP_uc002vpp.2_Missense_Mutation_p.H1633Y|SPHKAP_uc010zlx.1_3'UTR	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1662						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GACTTCCGATGAACCAGCTGC	0.493													14	75	---	---	---	---	PASS	A	228846552	A	A	228846552	3	1	33	1	0	0	0	0	1	0	0	0	15047	1290	45	2	122	2	SPHKAP	2	228846552	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	1183879	228846552	14352821	79	13346										
SCLY	51540	broad.mit.edu	37	chr2	238978060	238978060	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccccatttcattacttcctcGgtggaacacgactccatccg	6	16	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr2:238978060G>T	uc010fyv.2	+	4	490	c.426G>T	c.(424-426)TCG>TCT	p.S142S	SCLY_uc002vxm.3_Silent_p.S109S|SCLY_uc002vxn.2_Silent_p.S142S|SCLY_uc010znq.1_Intron|SCLY_uc010znr.1_Intron	NM_016510	NP_057594	Q96I15	SCLY_HUMAN	selenocysteine lyase	142					cellular amino acid metabolic process	cytosol	pyridoxal phosphate binding|selenocysteine lyase activity|transferase activity			ovary(2)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;1.37e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.6e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;8.25e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000128)|Lung(119;0.0118)|LUSC - Lung squamous cell carcinoma(224;0.0285)		TTACTTCCTCGGTGGAACACG	0.597													13	47	---	---	---	---	PASS	T	238978060	T	T	238978060	2	4	33	1	0	0	0	0	0	0	0	1	13907	1103	39	1		1	SCLY	2	238978060	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	10131508	238978060	4221313	80	13347										
SCN5A	6331	broad.mit.edu	37	chr3	38674754	38674754	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gccagggactcccgtgtgaaCctgcggaagctgctggtgcc	15	13	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:38674754C>G	uc003cio.2	-	2	239	c.45G>C	c.(43-45)AGG>AGC	p.R15S	SCN5A_uc003cin.2_Missense_Mutation_p.R15S|SCN5A_uc003cil.3_Missense_Mutation_p.R15S|SCN5A_uc010hhi.2_Missense_Mutation_p.R15S|SCN5A_uc010hhk.2_Missense_Mutation_p.R15S|SCN5A_uc011ayr.1_Missense_Mutation_p.R15S	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	15					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	CCCGTGTGAACCTGCGGAAGC	0.627													15	48	---	---	---	---	PASS	G	38674754	G	G	38674754	3	3	33	1	0	0	0	0	1	0	0	0	13922	506	18	4	6209	4	SCN5A	3	38674754	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08		38674754	159347676	81	13348										
SCN10A	6336	broad.mit.edu	37	chr3	38835283	38835283	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tccaggggctccccgatcagTtctgctgggagctcaccata	11	14	3	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:38835283T>C	uc003ciq.2	-	1	219	c.219A>G	c.(217-219)GAA>GAG	p.E73E		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	73					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CCCCGATCAGTTCTGCTGGGA	0.552													96	169	---	---	---	---	PASS	C	38835283	C	C	38835283	2	2	33	1	0	0	0	0	0	0	0	1	13912	1722	60	5		5	SCN10A	3	38835283	Silent	SNP	T	TCGA-22-1016-01A-01D-1521-08	160529	38835283	159187147	82	13349										
TTC21A	199223	broad.mit.edu	37	chr3	39153986	39153986	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctgggtggacctgacctcagAcaagccccacactgcgaaga	11	14	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:39153986A>T	uc003cjc.2	+	5	650	c.473A>T	c.(472-474)GAC>GTC	p.D158V	TTC21A_uc003cja.2_Missense_Mutation_p.D158V|TTC21A_uc010hho.1_Intron|TTC21A_uc003cjb.2_Intron|TTC21A_uc003cje.2_Missense_Mutation_p.D158V|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Intron	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	158	TPR 3.						binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		CTGACCTCAGACAAGCCCCAC	0.522													20	47	---	---	---	---	PASS	T	39153986	T	T	39153986	3	4	33	1	0	0	0	0	1	0	0	0	16684	275	10	5	491	5	TTC21A	3	39153986	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	318703	39153986	158868444	83	13350										
NBEAL2	23218	broad.mit.edu	37	chr3	47037075	47037075	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tctgcaccctatggatacagCacctacccctgcccccaccc	5	21	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:47037075C>T	uc003cqp.2	+	13	2029	c.1850C>T	c.(1849-1851)GCA>GTA	p.A617V	NBEAL2_uc003cqq.1_Missense_Mutation_p.A583V|NBEAL2_uc010hjm.1_Missense_Mutation_p.A178V	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	617							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		ATGGATACAGCACCTACCCCT	0.637													20	42	---	---	---	---	PASS	T	47037075	T	T	47037075	3	4	33	1	0	0	0	0	1	0	0	0	10189	710	25	3	1900	3	NBEAL2	3	47037075	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	7883089	47037075	150985355	84	13351										
FLNB	2317	broad.mit.edu	37	chr3	58090918	58090918	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcggacttcgtggtagaatcCattggctctgaagtggggtc	15	8	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:58090918C>A	uc003djj.2	+	11	1887	c.1722C>A	c.(1720-1722)TCC>TCA	p.S574S	FLNB_uc010hne.2_Silent_p.S574S|FLNB_uc003djk.2_Silent_p.S574S|FLNB_uc010hnf.2_Silent_p.S574S|FLNB_uc003djl.2_Silent_p.S405S|FLNB_uc003djm.2_Silent_p.S405S	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	574	Filamin 4.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		TGGTAGAATCCATTGGCTCTG	0.582													8	118	---	---	---	---	PASS	A	58090918	A	A	58090918	2	1	33	1	0	0	0	0	0	0	0	1	5934	581	21	3		3	FLNB	3	58090918	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	11053843	58090918	139931512	85	13352										
FAM19A1	407738	broad.mit.edu	37	chr3	68587941	68587941	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gggaaatggtggtgtgagatGgagccttgcctagaaggaga	18	4	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:68587941G>T	uc003dnd.2	+	4	510	c.294G>T	c.(292-294)ATG>ATT	p.M98I	FAM19A1_uc003dne.2_Missense_Mutation_p.M98I|FAM19A1_uc003dng.2_Missense_Mutation_p.M98I	NM_213609	NP_998774	Q7Z5A9	F19A1_HUMAN	family with sequence similarity 19 (chemokine	98						endoplasmic reticulum|extracellular region				ovary(1)	1		Lung NSC(201;0.0117)		BRCA - Breast invasive adenocarcinoma(55;7.7e-05)|Epithelial(33;0.000937)|KIRC - Kidney renal clear cell carcinoma(39;0.0579)|Kidney(39;0.0743)		GGTGTGAGATGGAGCCTTGCC	0.458													18	67	---	---	---	---	PASS	T	68587941	T	T	68587941	3	4	33	1	0	0	0	0	1	0	0	0	5531	1348	47	3	304	3	FAM19A1	3	68587941	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	10497023	68587941	129434489	86	13353										
TMF1	7110	broad.mit.edu	37	chr3	69072406	69072406	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcttcgagatctaatcgaagTtcttctgcctcttctgcttt	6	11	6	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:69072406T>C	uc003dnn.2	-	17	3451	c.3204A>G	c.(3202-3204)GAA>GAG	p.E1068E	TMF1_uc011bfx.1_Silent_p.E1071E	NM_007114	NP_009045	P82094	TMF1_HUMAN	TATA element modulatory factor 1	1068	Potential.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi membrane|nucleus	DNA binding|protein binding|transcription cofactor activity				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;4.48e-05)|Epithelial(33;0.000274)|LUSC - Lung squamous cell carcinoma(21;0.0123)|KIRC - Kidney renal clear cell carcinoma(39;0.211)|Kidney(39;0.247)		CTAATCGAAGTTCTTCTGCCT	0.299													9	42	---	---	---	---	PASS	C	69072406	C	C	69072406	2	2	33	1	0	0	0	0	0	0	0	1	16225	1722	60	5		5	TMF1	3	69072406	Silent	SNP	T	TCGA-22-1016-01A-01D-1521-08	484465	69072406	128950024	87	13354										
OR5H6	79295	broad.mit.edu	37	chr3	97983348	97983348	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aagaccctcaccttcatatcCcaatgtacttattccttggg	5	13	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:97983348C>T	uc003dsi.1	+	1	220	c.220C>T	c.(220-222)CCA>TCA	p.P74S		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						CCTTCATATCCCAATGTACTT	0.418													75	393	---	---	---	---	PASS	T	97983348	T	T	97983348	3	4	33	1	0	0	0	0	1	0	0	0	11163	623	22	3	222	3	OR5H6	3	97983348	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	28910942	97983348	100039082	88	13355										
HHLA2	11148	broad.mit.edu	37	chr3	108072579	108072579	+	Nonsense_Mutation	SNP	G	T	T													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gaatttacacctgctatgtaGgaacagcaattcaagtgatt							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:108072579G>T	uc003dwy.3	+	4	537	c.370G>T	c.(370-372)GGA>TGA	p.G124*	HHLA2_uc011bhl.1_Nonsense_Mutation_p.G60*|HHLA2_uc010hpu.2_Nonsense_Mutation_p.G124*|HHLA2_uc003dwz.2_Nonsense_Mutation_p.G124*	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	124	Ig-like V-type 1.					integral to membrane				ovary(1)	1						CTGCTATGTAGGAACAGCAAT	0.393													5	49	---	---	---	---	PASS	T	108072579	T	T	108072579	4	4	33	1	0	0	0	0	0	1	0	0	7095	1001	35	3	376	3	HHLA2	3	108072579	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	10089231	108072579	89949851	89	13356	349	2								
HHLA2	11148	broad.mit.edu	37	chr3	108072580	108072580	+	Missense_Mutation	SNP	G	T	T													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aatttacacctgctatgtagGaacagcaattcaagtgatta							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:108072580G>T	uc003dwy.3	+	4	538	c.371G>T	c.(370-372)GGA>GTA	p.G124V	HHLA2_uc011bhl.1_Missense_Mutation_p.G60V|HHLA2_uc010hpu.2_Missense_Mutation_p.G124V|HHLA2_uc003dwz.2_Missense_Mutation_p.G124V	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	124	Ig-like V-type 1.					integral to membrane				ovary(1)	1						TGCTATGTAGGAACAGCAATT	0.388													5	48	---	---	---	---	PASS	T	108072580	T	T	108072580	3	4	33	1	0	0	0	0	1	0	0	0	7095	1174	41	2	377	2	HHLA2	3	108072580	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	1	108072580	89949850	90	13357	349	2								
HHLA2	11148	broad.mit.edu	37	chr3	108074178	108074178	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttcatcttatgaatgtacaaTtgaaaattcactgctgaagc	6	7	3	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:108074178T>A	uc003dwy.3	+	5	802	c.635T>A	c.(634-636)ATT>AAT	p.I212N	HHLA2_uc011bhl.1_Missense_Mutation_p.I148N|HHLA2_uc010hpu.2_Missense_Mutation_p.I212N|HHLA2_uc003dwz.2_Missense_Mutation_p.I212N	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	212	Ig-like C1-type.					integral to membrane				ovary(1)	1						GAATGTACAATTGAAAATTCA	0.413													31	160	---	---	---	---	PASS	A	108074178	A	A	108074178	3	1	33	1	0	0	0	0	1	0	0	0	7095	1493	52	5	645	5	HHLA2	3	108074178	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	1598	108074178	89948252	91	13358										
POLQ	10721	broad.mit.edu	37	chr3	121217424	121217424	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctcttcaactcccactagctCtgccacccttttcattgaag	4	16	4	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:121217424C>T	uc003eee.3	-	13	2182	c.2053G>A	c.(2053-2055)GAG>AAG	p.E685K		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	685					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		CCCACTAGCTCTGCCACCCTT	0.433								DNA_polymerases_(catalytic_subunits)					30	126	---	---	---	---	PASS	T	121217424	T	T	121217424	3	4	33	1	0	0	0	0	1	0	0	0	12208	922	32	2	5791	2	POLQ	3	121217424	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	13143246	121217424	76805006	92	13359										
HCLS1	3059	broad.mit.edu	37	chr3	121350949	121350949	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cgggccactcccaacctaccTccttggtaatcatatacagc	6	16	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:121350949T>A	uc003eeh.3	-	13	1448	c.1323A>T	c.(1321-1323)GGA>GGT	p.G441G	HCLS1_uc011bjj.1_Silent_p.G404G	NM_005335	NP_005326	P14317	HCLS1_HUMAN	hematopoietic cell-specific Lyn substrate 1	441	SH3.				erythrocyte differentiation|intracellular signal transduction|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of STAT protein|response to hormone stimulus	mitochondrion|nucleus|plasma membrane	DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(114;0.0912)		CCAACCTACCTCCTTGGTAAT	0.433													37	201	---	---	---	---	PASS	A	121350949	A	A	121350949	2	1	33	1	0	0	0	0	0	0	0	1	6995	1565	54	5		5	HCLS1	3	121350949	Silent	SNP	T	TCGA-22-1016-01A-01D-1521-08	133525	121350949	76671481	93	13360										
PARP9	83666	broad.mit.edu	37	chr3	122247311	122247311	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtgactgtacatattcctggGtgcatgtccacaaatactga	9	9	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:122247311G>A	uc010hri.2	-	11	2610	c.2465C>T	c.(2464-2466)ACC>ATC	p.T822I	PARP9_uc003eff.3_Missense_Mutation_p.T787I|PARP9_uc011bjs.1_Missense_Mutation_p.T787I|PARP9_uc003efg.2_Missense_Mutation_p.T367I|PARP9_uc003efi.2_Missense_Mutation_p.T787I|PARP9_uc003efh.2_Missense_Mutation_p.T822I	NM_001146102	NP_001139574	Q8IXQ6	PARP9_HUMAN	poly (ADP-ribose) polymerase family, member 9	822	PARP catalytic.				cell migration	cytosol|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)|pancreas(1)|prostate(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0519)		ATATTCCTGGGTGCATGTCCA	0.458													35	152	---	---	---	---	PASS	A	122247311	A	A	122247311	3	1	33	1	0	0	0	0	1	0	0	0	11466	1261	44	3	103	3	PARP9	3	122247311	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	896362	122247311	75775119	94	13361										
CCDC14	64770	broad.mit.edu	37	chr3	123634001	123634001	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tttgttgaagaggaacagatTacaggtgtacacagtttatt	10	4	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:123634001T>A	uc011bjx.1	-	13	2578	c.2487A>T	c.(2485-2487)GTA>GTT	p.V829V	CCDC14_uc003egv.3_Silent_p.V470V|CCDC14_uc003egx.3_Silent_p.V629V|CCDC14_uc010hrt.2_Silent_p.V788V|CCDC14_uc003egy.3_Silent_p.V629V|CCDC14_uc003egz.2_Intron	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	829						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		AGGAACAGATTACAGGTGTAC	0.433													16	56	---	---	---	---	PASS	A	123634001	A	A	123634001	2	1	33	1	0	0	0	0	0	0	0	1	2773	1741	61	5		5	CCDC14	3	123634001	Silent	SNP	T	TCGA-22-1016-01A-01D-1521-08	1386690	123634001	74388429	95	13362										
ALDH1L1	10840	broad.mit.edu	37	chr3	125874343	125874343	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agcgatcagcctcacggcctGcacctggggagatccagtgg	14	13	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:125874343G>T	uc003eim.1	-	5	722	c.532C>A	c.(532-534)CAG>AAG	p.Q178K	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Intron|ALDH1L1_uc003eio.2_5'UTR|ALDH1L1_uc010hsf.1_Missense_Mutation_p.Q204K|ALDH1L1_uc003eip.1_Intron|ALDH1L1_uc011bkj.1_Missense_Mutation_p.Q3K	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	178	GART.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	CTCACGGCCTGCACCTGGGGA	0.617													24	88	---	---	---	---	PASS	T	125874343	T	T	125874343	3	4	33	1	0	0	0	0	1	0	0	0	494	1328	46	3	2252	3	ALDH1L1	3	125874343	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	2240342	125874343	72148087	96	13363										
TMCC1	23023	broad.mit.edu	37	chr3	129389565	129389565	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aatttgttccgaatgagtgaGgcaatctctctgggctttga	11	7	2	3	rs115654568	by1000genomes	TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:129389565G>A	uc003emz.3	-	5	1620	c.1119C>T	c.(1117-1119)GCC>GCT	p.A373A	TMCC1_uc003emy.3_Silent_p.A49A|TMCC1_uc011blc.1_Silent_p.A194A|TMCC1_uc010htg.2_Silent_p.A259A	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	373						integral to membrane				skin(1)	1						GAATGAGTGAGGCAATCTCTC	0.532													22	113	---	---	---	---	PASS	A	129389565	A	A	129389565	2	1	33	1	0	0	0	0	0	0	0	1	15989	987	35	3		3	TMCC1	3	129389565	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	3515222	129389565	68632865	97	13364										
COL6A6	131873	broad.mit.edu	37	chr3	130311431	130311431	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gggagagcaaggtactaaggGatgctatggcaccaaaggtc	15	7	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:130311431G>A	uc010htl.2	+	13	4350	c.4319G>A	c.(4318-4320)GGA>GAA	p.G1440E	COL6A6_uc003eni.3_5'UTR	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1440	Triple-helical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GGTACTAAGGGATGCTATGGC	0.413													13	66	---	---	---	---	PASS	A	130311431	A	A	130311431	3	1	33	1	0	0	0	0	1	0	0	0	3703	1174	41	2	4369	2	COL6A6	3	130311431	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	921866	130311431	67710999	98	13365										
SLCO2A1	6578	broad.mit.edu	37	chr3	133661470	133661470	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcagaaccatcatgtagaggGggttgtgggagatgcaggct	17	6	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:133661470G>T	uc003eqa.3	-	11	1878	c.1604C>A	c.(1603-1605)CCC>CAC	p.P535H	SLCO2A1_uc003eqb.3_Missense_Mutation_p.P459H|SLCO2A1_uc011blv.1_Missense_Mutation_p.P354H	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	535	Helical; Name=10; (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						CATGTAGAGGGGGTTGTGGGA	0.582													9	86	---	---	---	---	PASS	T	133661470	T	T	133661470	3	4	33	1	0	0	0	0	1	0	0	0	14726	1232	43	3	343	3	SLCO2A1	3	133661470	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	3350039	133661470	64360960	99	13366										
CLDN18	51208	broad.mit.edu	37	chr3	137717748	137717748	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcagggcttggggttcgtggTttcactgattgggattgcgg	17	6	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:137717748T>G	uc003ero.1	+	1	91	c.38T>G	c.(37-39)GTT>GGT	p.V13G		NM_001002026	NP_001002026	P56856	CLD18_HUMAN	claudin 18 isoform 2	13	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity			upper_aerodigestive_tract(1)|ovary(1)	2						GGGTTCGTGGTTTCACTGATT	0.557													56	180	---	---	---	---	PASS	G	137717748	G	G	137717748	3	3	33	1	0	0	0	0	1	0	0	0	3479	1725	60	5	40	5	CLDN18	3	137717748	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	4056278	137717748	60304682	100	13367										
CPA3	1359	broad.mit.edu	37	chr3	148601448	148601448	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agataactatcggggctctgCaccagagtccgagaaagaga	12	9	1	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:148601448C>A	uc003ewm.2	+	9	879	c.827C>A	c.(826-828)GCA>GAA	p.A276E		NM_001870	NP_001861	P15088	CBPA3_HUMAN	carboxypeptidase A3 precursor	276					proteolysis	stored secretory granule|transport vesicle	metallocarboxypeptidase activity|zinc ion binding			breast(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			CGGGGCTCTGCACCAGAGTCC	0.473													35	158	---	---	---	---	PASS	A	148601448	A	A	148601448	3	1	33	1	0	0	0	0	1	0	0	0	3791	710	25	3	861	3	CPA3	3	148601448	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	10883700	148601448	49420982	101	13368										
GPR149	344758	broad.mit.edu	37	chr3	154145492	154145492	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	acgacgttctggaccaccatGtgcatctgcaagggcaagag	12	11	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:154145492G>T	uc003faa.2	-	2	1087	c.987C>A	c.(985-987)CAC>CAA	p.H329Q		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	329	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			GGACCACCATGTGCATCTGCA	0.498													9	107	---	---	---	---	PASS	T	154145492	T	T	154145492	3	4	33	1	0	0	0	0	1	0	0	0	6654	1368	48	3	1220	3	GPR149	3	154145492	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	5544044	154145492	43876938	102	13369										
SLITRK3	22865	broad.mit.edu	37	chr3	164908235	164908235	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttttcatgtagatatagtctCtttaaaatcttaagaccatt	4	6	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:164908235C>A	uc003fej.3	-	2	828	c.384G>T	c.(382-384)AAG>AAT	p.K128N	SLITRK3_uc003fek.2_Missense_Mutation_p.K128N	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	128	LRR 3.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GATATAGTCTCTTTAAAATCT	0.353										HNSCC(40;0.11)			28	103	---	---	---	---	PASS	A	164908235	A	A	164908235	3	1	33	1	0	0	0	0	1	0	0	0	14744	912	32	2	2553	2	SLITRK3	3	164908235	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	10762743	164908235	33114195	103	13370										
BCHE	590	broad.mit.edu	37	chr3	165491250	165491250	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	catcatgtaattgttccagcGatggaatcctgctttccact	7	11	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:165491250G>A	uc003fem.3	-	4	1889	c.1729C>T	c.(1729-1731)CGC>TGC	p.R577C	BCHE_uc003fen.3_RNA	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	577					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	TTGTTCCAGCGATGGAATCCT	0.318													12	98	---	---	---	---	PASS	A	165491250	A	A	165491250	3	1	33	1	0	0	0	0	1	0	0	0	1358	1058	37	2	83	2	BCHE	3	165491250	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	583015	165491250	32531180	104	13371										
MCF2L2	23101	broad.mit.edu	37	chr3	182947497	182947497	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tctaatattcccaaagagaaAgtccttgttattctgaagaa	6	7	2	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:182947497A>C	uc003fli.1	-	17	2092	c.2002T>G	c.(2002-2004)TTT>GTT	p.F668V	MCF2L2_uc003flj.1_Missense_Mutation_p.F668V|MCF2L2_uc011bqr.1_RNA	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	668	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			CCAAAGAGAAAGTCCTTGTTA	0.353													19	260	---	---	---	---	PASS	C	182947497	C	C	182947497	3	2	33	1	0	0	0	0	1	0	0	0	9380	72	3	5	1398	5	MCF2L2	3	182947497	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	17456247	182947497	15074933	105	13372										
ATP13A4	84239	broad.mit.edu	37	chr3	193232568	193232568	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	acgtgccatgctggtctccaGtaaaacaccaaggggaggat	12	10	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:193232568G>C	uc003ftd.2	-	2	261	c.153C>G	c.(151-153)TAC>TAG	p.Y51*	ATP13A4_uc003fte.1_Nonsense_Mutation_p.Y51*|ATP13A4_uc011bsr.1_5'UTR	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	51	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)		CTGGTCTCCAGTAAAACACCA	0.507													95	126	---	---	---	---	PASS	C	193232568	C	C	193232568	4	2	33	1	0	0	0	0	0	1	0	0	1126	1024	36	4	3553	4	ATP13A4	3	193232568	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	10285071	193232568	4789862	106	13373										
GP5	2814	broad.mit.edu	37	chr3	194118758	194118758	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cgggggcaacggcggaaatgTggctgtcggagatcatgagg	19	7	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:194118758T>A	uc003ftv.1	-	2	285	c.254A>T	c.(253-255)CAC>CTC	p.H85L		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	85	LRR 1.|Extracellular (Potential).				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		GGCGGAAATGTGGCTGTCGGA	0.602													15	127	---	---	---	---	PASS	A	194118758	A	A	194118758	3	1	33	1	0	0	0	0	1	0	0	0	6583	1696	59	5	1432	5	GP5	3	194118758	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	886190	194118758	3903672	107	13374										
LRRC33	375387	broad.mit.edu	37	chr3	196387449	196387449	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cgtggacggcaacgtgaccaAcatcaccaccgtcagcctct	9	16	3	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:196387449A>G	uc003fwv.2	+	3	1039	c.935A>G	c.(934-936)AAC>AGC	p.N312S		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	312	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		AACGTGACCAACATCACCACC	0.597													25	155	---	---	---	---	PASS	G	196387449	G	G	196387449	3	3	33	1	0	0	0	0	1	0	0	0	8988	43	2	5	941	5	LRRC33	3	196387449	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	2268691	196387449	1634981	108	13375										
LRRC33	375387	broad.mit.edu	37	chr3	196387891	196387891	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cctagctgtgtggatttcagGaatatggcatctttaaggag	12	6	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr3:196387891G>T	uc003fwv.2	+	3	1481	c.1377G>T	c.(1375-1377)AGG>AGT	p.R459S		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	459	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		TGGATTTCAGGAATATGGCAT	0.567													40	264	---	---	---	---	PASS	T	196387891	T	T	196387891	3	4	33	1	0	0	0	0	1	0	0	0	8988	1165	41	2	1383	2	LRRC33	3	196387891	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	442	196387891	1634539	109	13376										
GAK	2580	broad.mit.edu	37	chr4	853487	853487	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agagccacaaggggccggctGacctccaggagagaagaggg	17	10	0	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:853487G>A	uc003gbm.3	-	24	3389	c.3190C>T	c.(3190-3192)CAG>TAG	p.Q1064*	GAK_uc003gbn.3_Nonsense_Mutation_p.Q985*|GAK_uc010ibi.2_Nonsense_Mutation_p.Q245*|GAK_uc010ibj.2_RNA|GAK_uc003gbl.3_Nonsense_Mutation_p.Q917*	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	1064					cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		GGGGCCGGCTGACCTCCAGGA	0.617													20	110	---	---	---	---	PASS	A	853487	A	A	853487	4	1	33	1	0	0	0	0	0	1	0	0	6195	1299	45	2	765	2	GAK	4	853487	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08		853487	190300789	110	13377										
WHSC1	7468	broad.mit.edu	37	chr4	1920071	1920071	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggagaaatggcagaatcctcAggagtcagtgaagaagctgc	14	7	2	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:1920071A>T	uc003gdz.3	+	5	1307	c.1131A>T	c.(1129-1131)TCA>TCT	p.S377S	WHSC1_uc003geb.3_Silent_p.S377S|WHSC1_uc003gec.3_Silent_p.S377S|WHSC1_uc003ged.3_Silent_p.S377S|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gdx.2_Silent_p.S377S|WHSC1_uc003gdy.1_Silent_p.S377S|WHSC1_uc010icd.1_Silent_p.S377S|WHSC1_uc003gea.1_Silent_p.S377S|WHSC1_uc010ice.1_Silent_p.S377S|WHSC1_uc003geh.1_Silent_p.S377S	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	377					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		CAGAATCCTCAGGAGTCAGTG	0.517			T	IGH@	MM								36	108	---	---	---	---	PASS	T	1920071	T	T	1920071	2	4	33	1	0	0	0	0	0	0	0	1	17359	175	7	5		5	WHSC1	4	1920071	Silent	SNP	A	TCGA-22-1016-01A-01D-1521-08	1066584	1920071	189234205	111	13378										
POLN	353497	broad.mit.edu	37	chr4	2130962	2130962	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	acatggccctcggggagatcGtgagaatcttgtcttcttta	11	9	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:2130962G>T	uc003ger.2	-	16	1811	c.1811C>A	c.(1810-1812)ACG>AAG	p.T604K	POLN_uc010icg.1_Missense_Mutation_p.T52K|POLN_uc010ich.1_Missense_Mutation_p.T136K	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	604					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			CGGGGAGATCGTGAGAATCTT	0.393								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					11	73	---	---	---	---	PASS	T	2130962	T	T	2130962	3	4	33	1	0	0	0	0	1	0	0	0	12207	1145	40	1	927	1	POLN	4	2130962	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	210891	2130962	189023314	112	13379										
CYTL1	54360	broad.mit.edu	37	chr4	5018600	5018600	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcatgatggtgtacagcttcCgtgctttgtccttcaaggaa	10	9	2	1	rs138259359		TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:5018600C>T	uc003gig.2	-	3	315	c.290G>A	c.(289-291)CGG>CAG	p.R97Q		NM_018659	NP_061129	Q9NRR1	CYTL1_HUMAN	cytokine-like 1 precursor	97					signal transduction	extracellular space|soluble fraction	receptor binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.164)		GTACAGCTTCCGTGCTTTGTC	0.493													51	291	---	---	---	---	PASS	T	5018600	T	T	5018600	3	4	33	1	0	0	0	0	1	0	0	0	4208	652	23	1	128	1	CYTL1	4	5018600	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	2887638	5018600	186135676	113	13380										
STK32B	55351	broad.mit.edu	37	chr4	5141673	5141673	+	Missense_Mutation	SNP	G	C	C													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttctgcgggccattggtaaaGggagttttggaaaggtaaga							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:5141673G>C	uc003gih.1	+	2	158	c.94G>C	c.(94-96)GGG>CGG	p.G32R	STK32B_uc010ida.1_5'UTR	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	32	ATP (By similarity).|Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						CATTGGTAAAGGGAGTTTTGG	0.408													56	207	---	---	---	---	PASS	C	5141673	C	C	5141673	3	2	33	1	0	0	0	0	1	0	0	0	15297	1000	35	4	100	4	STK32B	4	5141673	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	123073	5141673	186012603	114	13381	350	2								
STK32B	55351	broad.mit.edu	37	chr4	5141674	5141674	+	Missense_Mutation	SNP	G	T	T													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tctgcgggccattggtaaagGgagttttggaaaggtaagaa							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:5141674G>T	uc003gih.1	+	2	159	c.95G>T	c.(94-96)GGG>GTG	p.G32V	STK32B_uc010ida.1_5'UTR	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	32	ATP (By similarity).|Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						ATTGGTAAAGGGAGTTTTGGA	0.408													53	209	---	---	---	---	PASS	T	5141674	T	T	5141674	3	4	33	1	0	0	0	0	1	0	0	0	15297	1232	43	3	101	3	STK32B	4	5141674	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	1	5141674	186012602	115	13382	350	2								
EVC2	132884	broad.mit.edu	37	chr4	5620295	5620295	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgctgcagcagaactcgggcCcggatcttggggagggccaa	16	11	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:5620295C>A	uc003gij.2	-	15	2670	c.2616G>T	c.(2614-2616)CGG>CGT	p.R872R	EVC2_uc011bwb.1_Silent_p.R312R|EVC2_uc003gik.2_Silent_p.R792R	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	872						integral to membrane				large_intestine(3)|ovary(2)	5						GAACTCGGGCCCGGATCTTGG	0.602													26	64	---	---	---	---	PASS	A	5620295	A	A	5620295	2	1	33	1	0	0	0	0	0	0	0	1	5286	610	22	3		3	EVC2	4	5620295	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	478621	5620295	185533981	116	13383										
TBC1D14	57533	broad.mit.edu	37	chr4	6925386	6925386	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtccacgtgaggaggaagcaGtccgactccgacctcatccc	11	15	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:6925386G>T	uc011bwg.1	+	2	349	c.270G>T	c.(268-270)CAG>CAT	p.Q90H	TBC1D14_uc003gjs.3_Missense_Mutation_p.Q90H	NM_001113361	NP_001106832	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14 isoform a	90						intracellular	Rab GTPase activator activity			ovary(1)|pancreas(1)	2						GGAGGAAGCAGTCCGACTCCG	0.682													40	104	---	---	---	---	PASS	T	6925386	T	T	6925386	3	4	33	1	0	0	0	0	1	0	0	0	15600	1020	36	3	272	3	TBC1D14	4	6925386	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	1305091	6925386	184228890	117	13384										
PPARGC1A	10891	broad.mit.edu	37	chr4	23803878	23803878	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagatttactgtgcactcctCaatttcaccaaaaacttcaa	3	12	3	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:23803878C>G	uc003gqs.2	-	11	2230	c.2110G>C	c.(2110-2112)GAG>CAG	p.E704Q	PPARGC1A_uc003gqt.2_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	704	RRM.				androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				GTGCACTCCTCAATTTCACCA	0.423													20	162	---	---	---	---	PASS	G	23803878	G	G	23803878	3	3	33	1	0	0	0	0	1	0	0	0	12300	835	29	2	298	2	PPARGC1A	4	23803878	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	16878492	23803878	167350398	118	13385										
ARAP2	116984	broad.mit.edu	37	chr4	36179599	36179599	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgtgatttcagtgcatttaaTagtatgctgatccagtcatt	8	6	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:36179599T>C	uc003gsq.1	-	9	2045	c.1707A>G	c.(1705-1707)CTA>CTG	p.L569L	ARAP2_uc003gsr.1_Silent_p.L569L	NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	569	PH 1.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						GTGCATTTAATAGTATGCTGA	0.368													34	87	---	---	---	---	PASS	C	36179599	C	C	36179599	2	2	33	1	0	0	0	0	0	0	0	1	839	1393	49	5		5	ARAP2	4	36179599	Silent	SNP	T	TCGA-22-1016-01A-01D-1521-08	12375721	36179599	154974677	119	13386										
WDR19	57728	broad.mit.edu	37	chr4	39219646	39219646	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcaagaagaacgtgagactcGgcttttcccagcagtggatg	12	9	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:39219646G>C	uc003gtv.2	+	14	1554	c.1400G>C	c.(1399-1401)CGG>CCG	p.R467P	WDR19_uc003gtu.1_Missense_Mutation_p.G466R|WDR19_uc011byi.1_Missense_Mutation_p.R307P|WDR19_uc003gtw.1_Missense_Mutation_p.R64P	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19	467					cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1						CGTGAGACTCGGCTTTTCCCA	0.373													56	353	---	---	---	---	PASS	C	39219646	C	C	39219646	3	2	33	1	0	0	0	0	1	0	0	0	17276	1116	39	4	1454	4	WDR19	4	39219646	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	3040047	39219646	151934630	120	13387										
TEC	7006	broad.mit.edu	37	chr4	48147470	48147470	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agtcctcctcgcacattgcaCcttcccgaatagctttgatt	6	14	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:48147470C>A	uc003gxz.2	-	13	1299	c.1208G>T	c.(1207-1209)GGT>GTT	p.G403V		NM_003215	NP_003206	P42680	TEC_HUMAN	tec protein tyrosine kinase	403	Protein kinase.				intracellular protein kinase cascade	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)	9						GCACATTGCACCTTCCCGAAT	0.448													58	202	---	---	---	---	PASS	A	48147470	A	A	48147470	3	1	33	1	0	0	0	0	1	0	0	0	15739	507	18	3	711	3	TEC	4	48147470	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	8927824	48147470	143006806	121	13388										
UGT2B15	7366	broad.mit.edu	37	chr4	69513034	69513034	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aaactcaatccagaagactgCtcgatccaggggcttcattg	9	11	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:69513034C>A	uc011cal.1	-	6	1419	c.1381G>T	c.(1381-1383)GCA>TCA	p.A461S		NM_001076	NP_001067	P54855	UDB15_HUMAN	UDP glycosyltransferase 2B15 precursor	461					steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity				0						CAGAAGACTGCTCGATCCAGG	0.423													78	208	---	---	---	---	PASS	A	69513034	A	A	69513034	3	1	33	1	0	0	0	0	1	0	0	0	16955	797	28	3	1832	3	UGT2B15	4	69513034	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	21365564	69513034	121641242	122	13389										
ENAM	10117	broad.mit.edu	37	chr4	71508517	71508517	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aagaatccaaccagcccctgGagaaactctcaacagtatga	7	12	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:71508517G>A	uc011caw.1	+	9	1655	c.1374G>A	c.(1372-1374)TGG>TGA	p.W458*		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	458					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			CCAGCCCCTGGAGAAACTCTC	0.388													22	74	---	---	---	---	PASS	A	71508517	A	A	71508517	4	1	33	1	0	0	0	0	0	1	0	0	5112	1183	41	2	1404	2	ENAM	4	71508517	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	1995483	71508517	119645759	123	13390										
ENAM	10117	broad.mit.edu	37	chr4	71509842	71509842	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tccatcctatggtcttgcacCtggggagaaccaagacacca	9	13	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:71509842C>G	uc011caw.1	+	9	2980	c.2699C>G	c.(2698-2700)CCT>CGT	p.P900R		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	900					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			GGTCTTGCACCTGGGGAGAAC	0.517													39	110	---	---	---	---	PASS	G	71509842	G	G	71509842	3	3	33	1	0	0	0	0	1	0	0	0	5112	681	24	4	2729	4	ENAM	4	71509842	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	1325	71509842	119644434	124	13391										
ADAMTS3	9508	broad.mit.edu	37	chr4	73179413	73179413	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	catgggattattgcactggcGtgttctgaaacgaacaccag	11	9	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:73179413G>C	uc003hgk.1	-	12	1763	c.1726C>G	c.(1726-1728)CGC>GGC	p.R576G	ADAMTS3_uc003hgl.2_5'Flank	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	576	TSP type-1 1.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TTGCACTGGCGTGTTCTGAAA	0.378													13	107	---	---	---	---	PASS	C	73179413	C	C	73179413	3	2	33	1	0	0	0	0	1	0	0	0	267	1145	40	4	1935	4	ADAMTS3	4	73179413	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	1669571	73179413	117974863	125	13392										
NUDT9	53343	broad.mit.edu	37	chr4	88356355	88356355	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtcttggctggacccaggtgGgcagatcctcagatcaggtg	15	10	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:88356355G>T	uc003hqq.2	+	2	653	c.330G>T	c.(328-330)TGG>TGT	p.W110C	NUDT9_uc003hqr.2_Missense_Mutation_p.W60C|NUDT9_uc010ikl.2_Missense_Mutation_p.W110C	NM_024047	NP_076952	Q9BW91	NUDT9_HUMAN	nudix-type motif 9 isoform a	110						mitochondrion	ADP-ribose diphosphatase activity				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000937)		GACCCAGGTGGGCAGATCCTC	0.453													30	60	---	---	---	---	PASS	T	88356355	T	T	88356355	3	4	33	1	0	0	0	0	1	0	0	0	10746	1241	43	3	336	3	NUDT9	4	88356355	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	15176942	88356355	102797921	126	13393										
IBSP	3381	broad.mit.edu	37	chr4	88732843	88732843	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	accccaccacaagtctatagAaccacttccccaccttttgg	4	17	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:88732843A>C	uc003hqx.3	+	7	833	c.735A>C	c.(733-735)AGA>AGC	p.R245S		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	245					biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		AAGTCTATAGAACCACTTCCC	0.502													18	49	---	---	---	---	PASS	C	88732843	C	C	88732843	3	2	33	1	0	0	0	0	1	0	0	0	7475	243	9	5	757	5	IBSP	4	88732843	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	376488	88732843	102421433	127	13394										
TBCK	93627	broad.mit.edu	37	chr4	107156479	107156479	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tctcataagaggaggaatgtCaactcttgcttctttccaga	8	9	4	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:107156479C>G	uc010ilv.2	-	15	1761	c.1396G>C	c.(1396-1398)GAC>CAC	p.D466H	TBCK_uc003hyb.2_Missense_Mutation_p.D209H|TBCK_uc003hye.2_Missense_Mutation_p.D427H|TBCK_uc003hyc.2_Missense_Mutation_p.D403H|TBCK_uc003hyd.2_Missense_Mutation_p.D294H|TBCK_uc003hyf.2_Missense_Mutation_p.D466H	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like	466	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						GGAGGAATGTCAACTCTTGCT	0.348													14	47	---	---	---	---	PASS	G	107156479	G	G	107156479	3	3	33	1	0	0	0	0	1	0	0	0	15633	826	29	2	1333	2	TBCK	4	107156479	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	18423636	107156479	83997797	128	13395										
ANK2	287	broad.mit.edu	37	chr4	114199653	114199653	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccatgttgctgctcattatgAcaaccagaaggtggcgctgc	11	11	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:114199653A>G	uc003ibe.3	+	17	1920	c.1820A>G	c.(1819-1821)GAC>GGC	p.D607G	ANK2_uc003ibd.3_Missense_Mutation_p.D586G|ANK2_uc003ibf.3_Missense_Mutation_p.D607G|ANK2_uc003ibc.2_Missense_Mutation_p.D583G|ANK2_uc011cgb.1_Missense_Mutation_p.D622G	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	607	ANK 18.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GCTCATTATGACAACCAGAAG	0.493											OREG0016024	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	77	---	---	---	---	PASS	G	114199653	G	G	114199653	3	3	33	1	0	0	0	0	1	0	0	0	621	275	10	5	1911	5	ANK2	4	114199653	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	7043174	114199653	76954623	129	13396										
ANK2	287	broad.mit.edu	37	chr4	114239775	114239775	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cttctagtcctattcattcaGggtgagtaaatcaatattat	6	7	4	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:114239775G>T	uc003ibe.3	+	26	2999	c.2899G>T	c.(2899-2901)GGT>TGT	p.G967C	ANK2_uc003ibd.3_Missense_Mutation_p.G946C|ANK2_uc003ibf.3_Missense_Mutation_p.G967C|ANK2_uc011cgc.1_Missense_Mutation_p.G176C|ANK2_uc003ibg.3_Translation_Start_Site|ANK2_uc003ibc.2_Missense_Mutation_p.G943C|ANK2_uc011cgb.1_Missense_Mutation_p.G982C	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	967	ZU5.|Interaction with SPTBN1.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TATTCATTCAGGGTGAGTAAA	0.428													16	28	---	---	---	---	PASS	T	114239775	T	T	114239775	3	4	33	1	0	0	0	0	1	0	0	0	621	1014	35	3	3026	3	ANK2	4	114239775	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	40122	114239775	76914501	130	13397										
SMAD1	4086	broad.mit.edu	37	chr4	146479017	146479017	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gagatacatctgcacggcccCctccagtggctggataaagt	11	12	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:146479017C>T	uc003ikc.2	+	7	1745	c.1329C>T	c.(1327-1329)CCC>CCT	p.P443P	SMAD1_uc003ikd.2_Silent_p.P443P|SMAD1_uc010iov.2_Silent_p.P443P|SMAD1_uc011cic.1_Silent_p.P404P	NM_005900	NP_005891	Q15797	SMAD1_HUMAN	Sma- and Mad-related protein 1	443	MH2.				BMP signaling pathway|embryonic pattern specification|primary miRNA processing|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|nuclear inner membrane	co-SMAD binding|I-SMAD binding|identical protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity			ovary(1)	1	all_hematologic(180;0.151)					TGCACGGCCCCCTCCAGTGGC	0.488											OREG0016348	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	80	167	---	---	---	---	PASS	T	146479017	T	T	146479017	2	4	33	1	0	0	0	0	0	0	0	1	14757	610	22	3		3	SMAD1	4	146479017	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	32239242	146479017	44675259	131	13398										
DCLK2	166614	broad.mit.edu	37	chr4	151153969	151153969	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgcacagagacatcaaaccaGagaatctcttggtatgtcat	8	9	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:151153969G>T	uc003ilm.3	+	10	1655	c.1555G>T	c.(1555-1557)GAG>TAG	p.E519*	DCLK2_uc003iln.3_Nonsense_Mutation_p.E518*|DCLK2_uc003ilo.3_Nonsense_Mutation_p.E536*|DCLK2_uc003ilp.3_RNA	NM_001040260	NP_001035350	Q8N568	DCLK2_HUMAN	doublecortin-like kinase 2 isoform a	519	Protein kinase.				intracellular signal transduction	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)					CATCAAACCAGAGAATCTCTT	0.443													91	228	---	---	---	---	PASS	T	151153969	T	T	151153969	4	4	33	1	0	0	0	0	0	1	0	0	4292	943	33	2	1593	2	DCLK2	4	151153969	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	4674952	151153969	40000307	132	13399										
CCDC110	256309	broad.mit.edu	37	chr4	186379985	186379985	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgtttttttctctaacatttCtttttcatcttgtatcaaca	2	8	5	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr4:186379985C>A	uc003ixu.3	-	6	1832	c.1756G>T	c.(1756-1758)GAA>TAA	p.E586*	CCDC110_uc003ixv.3_Nonsense_Mutation_p.E549*|CCDC110_uc011ckt.1_Nonsense_Mutation_p.E586*	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	586	Potential.					nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		TCTAACATTTCTTTTTCATCT	0.308													47	54	---	---	---	---	PASS	A	186379985	A	A	186379985	4	1	33	1	0	0	0	0	0	1	0	0	2747	922	32	2	753	2	CCDC110	4	186379985	Nonsense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	35226016	186379985	4774291	133	13400										
PLEKHG4B	153478	broad.mit.edu	37	chr5	143301	143301	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cccggcacaggagacttcccCagccaggtgcccaagcaggt	12	16	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:143301C>T	uc003jak.2	+	2	599	c.549C>T	c.(547-549)CCC>CCT	p.P183P		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	183					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		GAGACTTCCCCAGCCAGGTGC	0.672													50	194	---	---	---	---	PASS	T	143301	T	T	143301	2	4	33	1	0	0	0	0	0	0	0	1	12072	581	21	3		3	PLEKHG4B	5	143301	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08		143301	180771959	134	13401										
DNAH5	1767	broad.mit.edu	37	chr5	13885213	13885213	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttgaaatgagagagtaactcGcgggcttcttcccctaacat	9	10	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:13885213G>A	uc003jfd.2	-	19	2910	c.2868C>T	c.(2866-2868)CGC>CGT	p.R956R		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	956	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGAGTAACTCGCGGGCTTCTT	0.443									Kartagener_syndrome				31	136	---	---	---	---	PASS	A	13885213	A	A	13885213	2	1	33	1	0	0	0	0	0	0	0	1	4604	1074	38	1		1	DNAH5	5	13885213	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	13741912	13885213	167030047	135	13402										
PDZD2	23037	broad.mit.edu	37	chr5	32074332	32074332	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cttcttggtagctcagtggaCttagaggagagtatcccaga	12	8	2	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:32074332C>A	uc003jhl.2	+	18	3508	c.3120C>A	c.(3118-3120)GAC>GAA	p.D1040E	PDZD2_uc003jhm.2_Missense_Mutation_p.D1040E|PDZD2_uc011cnx.1_Missense_Mutation_p.D866E	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1040					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GCTCAGTGGACTTAGAGGAGA	0.592													29	150	---	---	---	---	PASS	A	32074332	A	A	32074332	3	1	33	1	0	0	0	0	1	0	0	0	11701	564	20	3	3186	3	PDZD2	5	32074332	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	18189119	32074332	148840928	136	13403										
HEATR7B2	133558	broad.mit.edu	37	chr5	41058234	41058234	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagggcacctggcccagggcGtatccacggaagtcttcccg	13	15	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:41058234G>T	uc003jmj.3	-	7	1177	c.687C>A	c.(685-687)TAC>TAA	p.Y229*	HEATR7B2_uc003jmi.3_5'UTR	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	229	HEAT 2.						binding			ovary(6)|central_nervous_system(2)	8						GGCCCAGGGCGTATCCACGGA	0.517													54	56	---	---	---	---	PASS	T	41058234	T	T	41058234	4	4	33	1	0	0	0	0	0	1	0	0	7035	1140	40	1	4214	1	HEATR7B2	5	41058234	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	8983902	41058234	139857026	137	13404										
CMYA5	202333	broad.mit.edu	37	chr5	79054627	79054627	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	accaaattctgccaccagcaCaacaattgcagtttactgga	6	12	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:79054627C>A	uc003kgc.2	+	7	11234	c.11162C>A	c.(11161-11163)ACA>AAA	p.T3721K		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3721	Fibronectin type-III 1.					perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GCCACCAGCACAACAATTGCA	0.373													29	80	---	---	---	---	PASS	A	79054627	A	A	79054627	3	1	33	1	0	0	0	0	1	0	0	0	3590	478	17	3	11188	3	CMYA5	5	79054627	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	37996393	79054627	101860633	138	13405										
ANKRD34B	340120	broad.mit.edu	37	chr5	79854552	79854552	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gggaaagctcctgaacctcgCctttctaaaactgcatgatt	8	11	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:79854552C>A	uc010jam.2	-	4	1637	c.1287G>T	c.(1285-1287)AGG>AGT	p.R429S	ANKRD34B_uc003kgw.2_Silent_p.G429G|ANKRD34B_uc010jan.2_Missense_Mutation_p.R429S	NM_001004441	NP_001004441	A5PLL1	AN34B_HUMAN	ankyrin repeat domain 34B	429				R -> G (in Ref. 1; CAH18341).		cytoplasm|nucleus				pancreas(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-46)|Epithelial(54;5.64e-41)|all cancers(79;3.24e-36)		CTGAACCTCGCCTTTCTAAAA	0.468													72	136	---	---	---	---	PASS	A	79854552	A	A	79854552	3	1	33	1	0	0	0	0	1	0	0	0	663	738	26	3	261	3	ANKRD34B	5	79854552	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	799925	79854552	101060708	139	13406										
SLCO4C1	353189	broad.mit.edu	37	chr5	101572647	101572647	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctttatgaaatgacacatctGtggctgatggaggtggttta	12	5	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:101572647G>T	uc003knm.2	-	13	2377	c.2090C>A	c.(2089-2091)ACA>AAA	p.T697K		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	697	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		TGACACATCTGTGGCTGATGG	0.328													45	100	---	---	---	---	PASS	T	101572647	T	T	101572647	3	4	33	1	0	0	0	0	1	0	0	0	14730	1377	48	3	88	3	SLCO4C1	5	101572647	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	21718095	101572647	79342613	140	13407										
SLC27A6	28965	broad.mit.edu	37	chr5	128301899	128301899	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cacttcttgcagaaactcctGttcccttacttttgggatga	7	11	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:128301899G>C	uc003kuy.2	+	2	465	c.69G>C	c.(67-69)CTG>CTC	p.L23L	SLC27A6_uc003kuz.2_Silent_p.L23L	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	23	Helical; (Potential).				long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		AGAAACTCCTGTTCCCTTACT	0.502													41	103	---	---	---	---	PASS	C	128301899	C	C	128301899	2	2	33	1	0	0	0	0	0	0	0	1	14530	1364	48	4		4	SLC27A6	5	128301899	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	26729252	128301899	52613361	141	13408										
C5orf15	56951	broad.mit.edu	37	chr5	133295551	133295551	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gagggatgagggaccacagaTgctcctccacttttcttggt	12	10	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:133295551T>A	uc003kyo.2	-	2	431	c.300A>T	c.(298-300)GCA>GCT	p.A100A		NM_020199	NP_064584	Q8NC54	KCT2_HUMAN	keratinocytes associated transmembrane protein 2	100	Extracellular (Potential).					integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00806)|Kidney(363;0.02)			GGACCACAGATGCTCCTCCAC	0.468													25	35	---	---	---	---	PASS	A	133295551	A	A	133295551	2	1	33	1	0	0	0	0	0	0	0	1	2283	1451	51	5		5	C5orf15	5	133295551	Silent	SNP	T	TCGA-22-1016-01A-01D-1521-08	4993652	133295551	47619709	142	13409										
PCDHA8	56140	broad.mit.edu	37	chr5	140222998	140222998	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cggcgctggtggatgtcaacGtgtacctgatcatcgccatc	12	12	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:140222998G>C	uc003lhs.2	+	1	2092	c.2092G>C	c.(2092-2094)GTG>CTG	p.V698L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.V698L	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	698	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGATGTCAACGTGTACCTGAT	0.642													30	69	---	---	---	---	PASS	C	140222998	C	C	140222998	3	2	33	1	0	0	0	0	1	0	0	0	11530	1145	40	4	2094	4	PCDHA8	5	140222998	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	6927447	140222998	40692262	143	13410										
PCDHB10	56126	broad.mit.edu	37	chr5	140573390	140573390	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cgagtacaacatcactatcaCcgtcactgacttggggacac	8	13	3	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:140573390C>T	uc003lix.2	+	1	1439	c.1265C>T	c.(1264-1266)ACC>ATC	p.T422I		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	422	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATCACTATCACCGTCACTGAC	0.517													46	95	---	---	---	---	PASS	T	140573390	T	T	140573390	3	4	33	1	0	0	0	0	1	0	0	0	11535	507	18	3	1267	3	PCDHB10	5	140573390	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	350392	140573390	40341870	144	13411										
PCDHGA4	56111	broad.mit.edu	37	chr5	140736415	140736415	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcagcaatgtgtcactgagcCtctttgtgctggaccagaac	11	11	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:140736415C>A	uc003ljq.1	+	1	1648	c.1648C>A	c.(1648-1650)CTC>ATC	p.L550I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.L550I	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	550	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTCACTGAGCCTCTTTGTGCT	0.562													119	268	---	---	---	---	PASS	A	140736415	A	A	140736415	3	1	33	1	0	0	0	0	1	0	0	0	11556	681	24	3	1650	3	PCDHGA4	5	140736415	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	163025	140736415	40178845	145	13412										
PCDHGB7	56099	broad.mit.edu	37	chr5	140797688	140797688	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcggggacttacttgtgaagGaccgaatagaccgtgagcaa	14	8	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:140797688G>A	uc003lkn.1	+	1	407	c.262G>A	c.(262-264)GAC>AAC	p.D88N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.D88N|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	88	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTTGTGAAGGACCGAATAGA	0.493													40	110	---	---	---	---	PASS	A	140797688	A	A	140797688	3	1	33	1	0	0	0	0	1	0	0	0	11568	1174	41	2	264	2	PCDHGB7	5	140797688	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	61273	140797688	40117572	146	13413										
ABLIM3	22885	broad.mit.edu	37	chr5	148627364	148627364	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gctccaaagtggaattggccGgctgattctgaaggaagaaa	13	7	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:148627364G>T	uc003lpy.2	+	18	1822	c.1571G>T	c.(1570-1572)CGG>CTG	p.R524L	ABLIM3_uc003lpz.1_Missense_Mutation_p.R524L|ABLIM3_uc003lqa.1_Missense_Mutation_p.R421L|ABLIM3_uc003lqb.2_Missense_Mutation_p.R413L|ABLIM3_uc003lqc.1_Missense_Mutation_p.R491L|ABLIM3_uc003lqd.1_Missense_Mutation_p.R429L|ABLIM3_uc003lqf.2_Missense_Mutation_p.R413L|ABLIM3_uc003lqe.1_Missense_Mutation_p.R413L	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3	524					axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAATTGGCCGGCTGATTCTG	0.572													21	73	---	---	---	---	PASS	T	148627364	T	T	148627364	3	4	33	1	0	0	0	0	1	0	0	0	96	1116	39	1	1637	1	ABLIM3	5	148627364	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	7829676	148627364	32287896	147	13414										
GRIA1	2890	broad.mit.edu	37	chr5	153190660	153190660	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcccccgcaacagcggggcaGgagccagcagcggcggcagt	16	15	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:153190660G>T	uc003lva.3	+	16	2961	c.2596G>T	c.(2596-2598)GGA>TGA	p.G866*	GRIA1_uc003luy.3_Nonsense_Mutation_p.G866*|GRIA1_uc003luz.3_Nonsense_Mutation_p.G771*|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Nonsense_Mutation_p.G786*|GRIA1_uc011dcx.1_Nonsense_Mutation_p.G797*|GRIA1_uc011dcy.1_Nonsense_Mutation_p.G876*|GRIA1_uc011dcz.1_Nonsense_Mutation_p.G876*	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	866	Cytoplasmic (Potential).			AGA -> TAP (in Ref. 1; AAA58613).	synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CAGCGGGGCAGGAGCCAGCAG	0.572													33	24	---	---	---	---	PASS	T	153190660	T	T	153190660	4	4	33	1	0	0	0	0	0	1	0	0	6767	1001	35	3	2777	3	GRIA1	5	153190660	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	4563296	153190660	27724600	148	13415										
GABRG2	2566	broad.mit.edu	37	chr5	161524751	161524751	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agcaacatggtggggaaaatCtggattccagacactttctt	10	8	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:161524751C>A	uc003lyz.3	+	4	793	c.435C>A	c.(433-435)ATC>ATA	p.I145I	GABRG2_uc010jjc.2_Silent_p.I145I|GABRG2_uc003lyy.3_Silent_p.I145I|GABRG2_uc011dej.1_Silent_p.I50I	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	145	Extracellular (Probable).				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)		TGGGGAAAATCTGGATTCCAG	0.423													7	159	---	---	---	---	PASS	A	161524751	A	A	161524751	2	1	33	1	0	0	0	0	0	0	0	1	6172	903	32	2		2	GABRG2	5	161524751	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	8334091	161524751	19390509	149	13416										
ODZ2	57451	broad.mit.edu	37	chr5	167655043	167655043	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttggacgctgcaacatctccCtgcctatggagaatggctta	10	11	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:167655043C>A	uc010jjd.2	+	25	5401	c.5401C>A	c.(5401-5403)CTG>ATG	p.L1801M	ODZ2_uc003lzr.3_Missense_Mutation_p.L1571M|ODZ2_uc003lzt.3_Missense_Mutation_p.L1174M|ODZ2_uc010jje.2_Missense_Mutation_p.L1065M	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		CAACATCTCCCTGCCTATGGA	0.532													3	42	---	---	---	---	PASS	A	167655043	A	A	167655043	3	1	33	1	0	0	0	0	1	0	0	0	10835	680	24	3	5499	3	ODZ2	5	167655043	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	6130292	167655043	13260217	150	13417										
DOCK2	1794	broad.mit.edu	37	chr5	169494609	169494609	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagtaccagagtgatgagacCctccccatcaacccactctc	6	17	2	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:169494609C>A	uc003maf.2	+	45	4643	c.4563C>A	c.(4561-4563)ACC>ACA	p.T1521T	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.T1013T|DOCK2_uc003mah.2_Silent_p.T77T	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1521	DHR-2.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GTGATGAGACCCTCCCCATCA	0.502													34	127	---	---	---	---	PASS	A	169494609	A	A	169494609	2	1	33	1	0	0	0	0	0	0	0	1	4687	610	22	3		3	DOCK2	5	169494609	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	1839566	169494609	11420651	151	13418										
FOXI1	2299	broad.mit.edu	37	chr5	169533463	169533463	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	acaagagcaaggccggctggCagaactccatccgccacaac	10	15	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:169533463C>T	uc003mai.3	+	1	547	c.502C>T	c.(502-504)CAG>TAG	p.Q168*	FOXI1_uc003maj.3_Nonsense_Mutation_p.Q168*	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	168	Fork-head.				epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGCCGGCTGGCAGAACTCCAT	0.617									Pendred_syndrome				11	43	---	---	---	---	PASS	T	169533463	T	T	169533463	4	4	33	1	0	0	0	0	0	1	0	0	6009	711	25	3	504	3	FOXI1	5	169533463	Nonsense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	38854	169533463	11381797	152	13419										
RANBP17	64901	broad.mit.edu	37	chr5	170610348	170610348	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgaacacttcccttttcttgGcatcagtgacaatcatagtc	6	11	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr5:170610348G>A	uc003mba.2	+	18	1968	c.1952G>A	c.(1951-1953)GGC>GAC	p.G651D	RANBP17_uc003mbb.2_5'UTR|RANBP17_uc003mbd.2_Missense_Mutation_p.G14D|RANBP17_uc010jjs.2_RNA|RANBP17_uc003mbc.2_Missense_Mutation_p.G14D	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	651					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)			CCTTTTCTTGGCATCAGTGAC	0.388			T	TRD@	ALL								31	76	---	---	---	---	PASS	A	170610348	A	A	170610348	3	1	33	1	0	0	0	0	1	0	0	0	13027	1203	42	3	2022	3	RANBP17	5	170610348	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	1076885	170610348	10304912	153	13420										
FKSG83	83954	broad.mit.edu	37	chr6	27293586	27293586	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agctttctattgcatcaaagAaatcctgataaaaattattt	4	6	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:27293586A>G	uc010jqt.2	+	1	1009	c.525A>G	c.(523-525)AGA>AGG	p.R175R	FKSG83_uc010jqs.1_3'UTR	NM_032030	NP_114419	Q3KNW7	Q3KNW7_HUMAN	FKSG83	175						integral to membrane	pheromone receptor activity				0						TGCATCAAAGAAATCCTGATA	0.244													16	23	---	---	---	---	PASS	G	27293586	G	G	27293586	2	3	33	1	0	0	0	0	0	0	0	1	5918	243	9	5		5	FKSG83	6	27293586	Silent	SNP	A	TCGA-22-1016-01A-01D-1521-08		27293586	143821481	154	13421										
OR12D3	81797	broad.mit.edu	37	chr6	29342388	29342388	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtattctgcaggacctgttcTtaaacagaaggaagccaatt	9	8	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:29342388T>C	uc003nme.2	-	1	681	c.677A>G	c.(676-678)AAG>AGG	p.K226R		NM_030959	NP_112221	Q9UGF7	O12D3_HUMAN	olfactory receptor, family 12, subfamily D,	226	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3						GGACCTGTTCTTAAACAGAAG	0.438													45	111	---	---	---	---	PASS	C	29342388	C	C	29342388	3	2	33	1	0	0	0	0	1	0	0	0	10932	1609	56	5	277	5	OR12D3	6	29342388	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	2048802	29342388	141772679	155	13422										
GRM4	2914	broad.mit.edu	37	chr6	34101084	34101084	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aagttctccacagggcttgcCctctgagccccggccatgca	10	16	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:34101084C>T	uc003oir.3	-	1	360	c.190G>A	c.(190-192)GGC>AGC	p.G64S	GRM4_uc011dsn.1_Missense_Mutation_p.G64S|GRM4_uc010jvh.2_Missense_Mutation_p.G64S|GRM4_uc010jvi.2_5'UTR|GRM4_uc010jvk.1_5'UTR	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	64	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	CAGGGCTTGCCCTCTGAGCCC	0.607													7	73	---	---	---	---	PASS	T	34101084	T	T	34101084	3	4	33	1	0	0	0	0	1	0	0	0	6799	623	22	3	2588	3	GRM4	6	34101084	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	4758696	34101084	137013983	156	13423										
ANKS1A	23294	broad.mit.edu	37	chr6	34957033	34957033	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccacctccagcaaagccaccGcccgatgaagaggaagaaga	10	14	0	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:34957033G>T	uc003ojx.3	+	9	1384	c.1242G>T	c.(1240-1242)CCG>CCT	p.P414P	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	414						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						CAAAGCCACCGCCCGATGAAG	0.413													63	215	---	---	---	---	PASS	T	34957033	T	T	34957033	2	4	33	1	0	0	0	0	0	0	0	1	688	1074	38	1		1	ANKS1A	6	34957033	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	855949	34957033	136158034	157	13424										
DAAM2	23500	broad.mit.edu	37	chr6	39847238	39847238	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccactgaagtccttcaactgGgtgaagctgaatgaggtgag	13	8	1	5			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:39847238G>T	uc003oow.2	+	14	1986	c.1830G>T	c.(1828-1830)TGG>TGT	p.W610C	DAAM2_uc010jxc.2_Missense_Mutation_p.W610C|DAAM2_uc003oox.2_Missense_Mutation_p.W610C	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	610	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CCTTCAACTGGGTGAAGCTGA	0.607													24	150	---	---	---	---	PASS	T	39847238	T	T	39847238	3	4	33	1	0	0	0	0	1	0	0	0	4216	1241	43	3	1880	3	DAAM2	6	39847238	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	4890205	39847238	131267829	158	13425										
UBR2	23304	broad.mit.edu	37	chr6	42641542	42641542	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	attttaggatgactgtcttaGgtcattgacgagatttgccg	11	6	2	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:42641542G>T	uc011dur.1	+	37	4100	c.4100G>T	c.(4099-4101)AGG>ATG	p.R1367M	UBR2_uc011dus.1_Missense_Mutation_p.R1012M|UBR2_uc003osh.2_RNA|UBR2_uc011dut.1_Translation_Start_Site	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	1367					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			GACTGTCTTAGGTCATTGACG	0.393													23	116	---	---	---	---	PASS	T	42641542	T	T	42641542	3	4	33	1	0	0	0	0	1	0	0	0	16899	1000	35	3	4392	3	UBR2	6	42641542	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	2794304	42641542	128473525	159	13426										
BCKDHB	594	broad.mit.edu	37	chr6	80837262	80837262	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	attttttttttgattttcacAgggcaaactcagaaaatgaa	6	5	2	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:80837262A>T	uc003pjd.2	+	2	264	c.197_splice	c.e2-2	p.G66_splice	BCKDHB_uc003pje.2_Splice_Site_p.G66_splice	NM_000056	NP_000047	P21953	ODBB_HUMAN	branched chain keto acid dehydrogenase E1 beta						branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|carboxy-lyase activity|protein binding				0		all_cancers(76;1.38e-05)|Acute lymphoblastic leukemia(125;1.15e-05)|all_hematologic(105;0.00118)|all_epithelial(107;0.0149)		BRCA - Breast invasive adenocarcinoma(397;0.0291)		TGATTTTCACAGGGCAAACTC	0.343													34	224	---	---	---	---	PASS	T	80837262	T	T	80837262	5	4	33	1	0	0	0	0	0	0	1	0	1360	202	7	5	201	5	BCKDHB	6	80837262	Splice_Site	SNP	A	TCGA-22-1016-01A-01D-1521-08	38195720	80837262	90277805	160	13427										
FHL5	9457	broad.mit.edu	37	chr6	97053784	97053784	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cttttggagtacaggttcccGcaaaatggaatttaagggaa	11	6	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:97053784G>T	uc003pos.1	+	5	746	c.341G>T	c.(340-342)CGC>CTC	p.R114L	FHL5_uc003pot.1_Missense_Mutation_p.R114L	NM_020482	NP_065228	Q5TD97	FHL5_HUMAN	activator of cAMP-responsive element modulator	114	LIM zinc-binding 2.					nucleus	zinc ion binding			ovary(2)	2		all_cancers(76;1.57e-07)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00266)|Colorectal(196;0.0341)|Lung NSC(302;0.204)		BRCA - Breast invasive adenocarcinoma(108;0.0948)		ACAGGTTCCCGCAAAATGGAA	0.353													16	96	---	---	---	---	PASS	T	97053784	T	T	97053784	3	4	33	1	0	0	0	0	1	0	0	0	5881	1087	38	1	351	1	FHL5	6	97053784	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	16216522	97053784	74061283	161	13428										
KLHL32	114792	broad.mit.edu	37	chr6	97561755	97561755	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	taatggatgtggatactctcCatacagttgccctgtcccac	8	12	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:97561755C>A	uc010kcm.1	+	7	1196	c.724C>A	c.(724-726)CAT>AAT	p.H242N	KLHL32_uc003poy.2_Missense_Mutation_p.H242N|KLHL32_uc011ead.1_Missense_Mutation_p.H206N|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Missense_Mutation_p.H173N|KLHL32_uc003ppa.2_Intron	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	242										ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		GGATACTCTCCATACAGTTGC	0.537													34	208	---	---	---	---	PASS	A	97561755	A	A	97561755	3	1	33	1	0	0	0	0	1	0	0	0	8386	594	21	3	746	3	KLHL32	6	97561755	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	507971	97561755	73553312	162	13429										
TSPYL1	7259	broad.mit.edu	37	chr6	116600879	116600879	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cacctgtgtcgcctcgctttGgtcgcggagcctcaggtact	12	14	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:116600879G>T	uc003pwp.3	-	1	402	c.115C>A	c.(115-117)CAA>AAA	p.Q39K	DSE_uc011ebf.1_Intron|DSE_uc003pwq.1_5'UTR|DSE_uc003pwr.2_5'Flank|DSE_uc003pws.2_5'Flank	NM_003309	NP_003300	Q9H0U9	TSYL1_HUMAN	TSPY-like 1	39					nucleosome assembly	nucleolus					0		all_cancers(87;0.0144)|all_epithelial(87;0.021)|Colorectal(196;0.234)		all cancers(137;0.0235)|OV - Ovarian serous cystadenocarcinoma(136;0.0469)|GBM - Glioblastoma multiforme(226;0.0503)|Epithelial(106;0.094)		GCCTCGCTTTGGTCGCGGAGC	0.652													18	111	---	---	---	---	PASS	T	116600879	T	T	116600879	3	4	33	1	0	0	0	0	1	0	0	0	16656	1357	47	3	1202	3	TSPYL1	6	116600879	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	19039124	116600879	54514188	163	13430										
RFX6	222546	broad.mit.edu	37	chr6	117241515	117241515	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	accagcatgtcgttaattctAtggtgtctgatattgaaagg	10	6	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:117241515A>T	uc003pxm.2	+	12	1288	c.1225A>T	c.(1225-1227)ATG>TTG	p.M409L		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	409					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						CGTTAATTCTATGGTGTCTGA	0.403													80	268	---	---	---	---	PASS	T	117241515	T	T	117241515	3	4	33	1	0	0	0	0	1	0	0	0	13267	449	16	5	1271	5	RFX6	6	117241515	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	640636	117241515	53873552	164	13431										
ENPP1	5167	broad.mit.edu	37	chr6	132204869	132204869	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	caagtggaatatattctgaaGctttgcttactacaaatata	6	6	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:132204869G>T	uc011ecf.1	+	22	2286	c.2266G>T	c.(2266-2268)GCT>TCT	p.A756S		NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	756	Nuclease.|Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	ATATTCTGAAGCTTTGCTTAC	0.274													32	147	---	---	---	---	PASS	T	132204869	T	T	132204869	3	4	33	1	0	0	0	0	1	0	0	0	5129	971	34	3	2352	3	ENPP1	6	132204869	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	14963354	132204869	38910198	165	13432										
HBS1L	10767	broad.mit.edu	37	chr6	135363228	135363228	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	attcttccacaggctcaacgGaaggtttgtcacgccgtgaa	10	11	3	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:135363228G>A	uc003qez.2	-	3	353	c.146C>T	c.(145-147)TCC>TTC	p.S49F	HBS1L_uc011ecy.1_5'UTR|HBS1L_uc011ecz.1_Intron|HBS1L_uc011eda.1_Intron|HBS1L_uc003qfa.2_Missense_Mutation_p.S49F	NM_006620	NP_006611	Q9Y450	HBS1L_HUMAN	Hsp70 subfamily B suppressor 1-like protein	49					signal transduction		GTP binding|GTPase activity|translation elongation factor activity			skin(2)	2	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0046)|GBM - Glioblastoma multiforme(68;0.00702)		AGGCTCAACGGAAGGTTTGTC	0.343													21	58	---	---	---	---	PASS	A	135363228	A	A	135363228	3	1	33	1	0	0	0	0	1	0	0	0	6987	1174	41	2	3445	2	HBS1L	6	135363228	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	3158359	135363228	35751839	166	13433										
SYNE1	23345	broad.mit.edu	37	chr6	152638029	152638029	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agctggcttgcagaattccaTgcaatagttccatgagccaa	9	10	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:152638029T>C	uc010kiw.2	-	87	17267	c.16665A>G	c.(16663-16665)GCA>GCG	p.A5555A	SYNE1_uc010kiv.2_Silent_p.A79A|SYNE1_uc003qos.3_Silent_p.A79A|SYNE1_uc003qot.3_Silent_p.A5484A|SYNE1_uc003qou.3_Silent_p.A5555A|SYNE1_uc010kiz.2_Silent_p.A1310A	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5555	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)		CAGAATTCCATGCAATAGTTC	0.333										HNSCC(10;0.0054)			28	86	---	---	---	---	PASS	C	152638029	C	C	152638029	2	2	33	1	0	0	0	0	0	0	0	1	15442	1451	51	5		5	SYNE1	6	152638029	Silent	SNP	T	TCGA-22-1016-01A-01D-1521-08	17274801	152638029	18477038	167	13434										
MAS1	4142	broad.mit.edu	37	chr6	160328057	160328057	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tctcaactggcaggaacgccTcagtcgggaatgcacatcgg	12	12	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:160328057T>A	uc003qsz.2	+	1	84	c.70T>A	c.(70-72)TCA>ACA	p.S24T		NM_002377	NP_002368	P04201	MAS_HUMAN	MAS1 oncogene	24	Extracellular (Potential).				anatomical structure morphogenesis|cell proliferation|protein kinase C signaling cascade	integral to plasma membrane	angiotensin type II receptor activity			ovary(2)|lung(2)	4		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.44e-18)|BRCA - Breast invasive adenocarcinoma(81;5.6e-06)		CAGGAACGCCTCAGTCGGGAA	0.517													28	159	---	---	---	---	PASS	A	160328057	A	A	160328057	3	1	33	1	0	0	0	0	1	0	0	0	9320	1551	54	5	72	5	MAS1	6	160328057	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	7690028	160328057	10787010	168	13435										
GPR31	2853	broad.mit.edu	37	chr6	167571221	167571221	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aggaaggtccacagcgccacCgcgttgcccagcagacccag	12	16	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:167571221C>A	uc011egq.1	-	1	99	c.99G>T	c.(97-99)GCG>GCT	p.A33A		NM_005299	NP_005290	O00270	GPR31_HUMAN	G protein-coupled receptor 31	33	Helical; Name=1; (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;4.81e-20)|BRCA - Breast invasive adenocarcinoma(81;4.45e-06)|GBM - Glioblastoma multiforme(31;0.00492)		ACAGCGCCACCGCGTTGCCCA	0.647													8	48	---	---	---	---	PASS	A	167571221	A	A	167571221	2	1	33	1	0	0	0	0	0	0	0	1	6687	639	23	1		1	GPR31	6	167571221	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	7243164	167571221	3543846	169	13436										
KIF25	3834	broad.mit.edu	37	chr6	168430290	168430290	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	catggacctcaggtcagcttCagcgtgagaagcaggccagg	14	11	3	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:168430290C>T	uc003qwk.1	+	2	287	c.25C>T	c.(25-27)CAG>TAG	p.Q9*	KIF25_uc010kkt.1_RNA|KIF25_uc003qwl.1_Nonsense_Mutation_p.Q9*	NM_030615	NP_085118	Q9UIL4	KIF25_HUMAN	kinesin family member 25 isoform 1	9	Kinesin-motor.				microtubule-based movement|mitotic sister chromatid segregation	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(1)|pancreas(1)	2		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		AGGTCAGCTTCAGCGTGAGAA	0.627													38	363	---	---	---	---	PASS	T	168430290	T	T	168430290	4	4	33	1	0	0	0	0	0	1	0	0	8293	827	29	2	27	2	KIF25	6	168430290	Nonsense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	859069	168430290	2684777	170	13437										
THBS2	7058	broad.mit.edu	37	chr6	169648707	169648707	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gccaggccgacgtcctccagGgagaccacatgccgggtgcc	14	16	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr6:169648707G>A	uc003qwt.2	-	4	662	c.414C>T	c.(412-414)TCC>TCT	p.S138S		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	138	TSP N-terminal.|Heparin-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CGTCCTCCAGGGAGACCACAT	0.642													26	92	---	---	---	---	PASS	A	169648707	A	A	169648707	2	1	33	1	0	0	0	0	0	0	0	1	15851	1219	43	3		3	THBS2	6	169648707	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	1218417	169648707	1466360	171	13438										
ABCB5	340273	broad.mit.edu	37	chr7	20782677	20782677	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aacttctgcagagactttatGaccccgtgcaaggacaagtg	10	10	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:20782677G>T	uc003suw.3	+	16	2413	c.1867G>T	c.(1867-1869)GAC>TAC	p.D623Y	ABCB5_uc010kuh.2_Missense_Mutation_p.D1068Y	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	623	Cytoplasmic (Potential).|ABC transporter 2.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						GAGACTTTATGACCCCGTGCA	0.478													18	35	---	---	---	---	PASS	T	20782677	T	T	20782677	3	4	33	1	0	0	0	0	1	0	0	0	44	1290	45	2	3337	2	ABCB5	7	20782677	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08		20782677	138355986	172	13439										
GRB10	2887	broad.mit.edu	37	chr7	50680468	50680468	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctgaacgctgtcatccagcaCgtcctggtttgctcgtcctc	9	15	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:50680468C>A	uc003tpi.2	-	10	1195	c.1164G>T	c.(1162-1164)ACG>ACT	p.T388T	GRB10_uc003tph.3_Silent_p.T330T|GRB10_uc003tpj.2_Silent_p.T342T|GRB10_uc003tpk.2_Silent_p.T388T|GRB10_uc010kzb.2_Silent_p.T330T|GRB10_uc003tpl.2_Silent_p.T382T|GRB10_uc003tpm.2_Silent_p.T330T|GRB10_uc003tpn.2_Silent_p.T330T	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	388	PH.				insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					TCATCCAGCACGTCCTGGTTT	0.473									Russell-Silver_syndrome				28	30	---	---	---	---	PASS	A	50680468	A	A	50680468	2	1	33	1	0	0	0	0	0	0	0	1	6756	523	19	1		1	GRB10	7	50680468	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	29897791	50680468	108458195	173	13440										
DTX2	113878	broad.mit.edu	37	chr7	76134751	76134751	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcttcacagtgggcacgtccAgcaccacgggtgagacggac	13	13	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:76134751A>G	uc003uff.3	+	12	2258	c.1702A>G	c.(1702-1704)AGC>GGC	p.S568G	DTX2_uc011kgk.1_Missense_Mutation_p.S477G|DTX2_uc003ufg.3_Missense_Mutation_p.S568G|DTX2_uc003ufh.3_Missense_Mutation_p.S568G|DTX2_uc003ufj.3_Missense_Mutation_p.S521G|DTX2_uc003ufk.3_Missense_Mutation_p.S199G|DTX2_uc003ufm.3_Missense_Mutation_p.S281G|DTX2_uc003ufn.3_Missense_Mutation_p.S153G	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	568					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						GGGCACGTCCAGCACCACGGG	0.502													8	29	---	---	---	---	PASS	G	76134751	G	G	76134751	3	3	33	1	0	0	0	0	1	0	0	0	4794	188	7	5	1736	5	DTX2	7	76134751	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	25454283	76134751	83003912	174	13441										
ZNF804B	219578	broad.mit.edu	37	chr7	88963897	88963897	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccaagaagattatcaatatcCgaaaccaaagacgatgatag	7	8	1	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:88963897C>A	uc011khi.1	+	4	2139	c.1601C>A	c.(1600-1602)CCG>CAG	p.P534Q		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	534						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TATCAATATCCGAAACCAAAG	0.368										HNSCC(36;0.09)			35	64	---	---	---	---	PASS	A	88963897	A	A	88963897	3	1	33	1	0	0	0	0	1	0	0	0	18168	652	23	1	1615	1	ZNF804B	7	88963897	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	12829146	88963897	70174766	175	13442										
STAG3	10734	broad.mit.edu	37	chr7	99796200	99796200	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gccgcaggcgaatttctgtaCtggaagtgagtggggctcct	15	9	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:99796200C>T	uc003utx.1	+	13	1502	c.1347C>T	c.(1345-1347)TAC>TAT	p.Y449Y	STAG3_uc010lgs.1_Silent_p.Y237Y|STAG3_uc011kjk.1_Silent_p.Y391Y|STAG3_uc003uub.1_5'Flank	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	449					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AATTTCTGTACTGGAAGTGAG	0.552													34	50	---	---	---	---	PASS	T	99796200	T	T	99796200	2	4	33	1	0	0	0	0	0	0	0	1	15243	576	20	3		3	STAG3	7	99796200	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	10832303	99796200	59342463	176	13443										
KCND2	3751	broad.mit.edu	37	chr7	119915061	119915061	+	Silent	SNP	C	A	A													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctggccttctttggcctcatCccggaaatcatcggcgactg							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:119915061C>A	uc003vjj.1	+	1	1340	c.375C>A	c.(373-375)ATC>ATA	p.I125I		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	125	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TTGGCCTCATCCCGGAAATCA	0.582													96	222	---	---	---	---	PASS	A	119915061	A	A	119915061	2	1	33	1	0	0	0	0	0	0	0	1	8019	845	30	2		2	KCND2	7	119915061	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	20118861	119915061	39223602	177	13444	351	2								
KCND2	3751	broad.mit.edu	37	chr7	119915062	119915062	+	Missense_Mutation	SNP	C	A	A													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tggccttctttggcctcatcCcggaaatcatcggcgactgc							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:119915062C>A	uc003vjj.1	+	1	1341	c.376C>A	c.(376-378)CCG>ACG	p.P126T		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	126	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TGGCCTCATCCCGGAAATCAT	0.582													94	222	---	---	---	---	PASS	A	119915062	A	A	119915062	3	1	33	1	0	0	0	0	1	0	0	0	8019	623	22	3	378	3	KCND2	7	119915062	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	1	119915062	39223601	178	13445	351	2								
KLHDC10	23008	broad.mit.edu	37	chr7	129760629	129760629	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctgttagtatttggaggtacGggcatcccatttggagagag	14	6	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:129760629G>T	uc003vpj.1	+	4	651	c.516G>T	c.(514-516)ACG>ACT	p.T172T	KLHDC10_uc003vpk.1_Silent_p.T143T|KLHDC10_uc010lmb.1_Silent_p.T69T	NM_014997	NP_055812	Q6PID8	KLD10_HUMAN	kelch domain containing 10	172	Kelch 2.										0						TTGGAGGTACGGGCATCCCAT	0.478													77	137	---	---	---	---	PASS	T	129760629	T	T	129760629	2	4	33	1	0	0	0	0	0	0	0	1	8355	1103	39	1		1	KLHDC10	7	129760629	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	9845567	129760629	29378034	179	13446										
KRBA1	84626	broad.mit.edu	37	chr7	149422441	149422441	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gctcaccgctggaagccctgGaagcctgtctgaagggcatt	13	12	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:149422441G>A	uc003wfz.2	+	10	1561	c.1162G>A	c.(1162-1164)GAA>AAA	p.E388K	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_Missense_Mutation_p.E56K	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	388										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GGAAGCCCTGGAAGCCTGTCT	0.592													8	12	---	---	---	---	PASS	A	149422441	A	A	149422441	3	1	33	1	0	0	0	0	1	0	0	0	8439	1175	41	2	1196	2	KRBA1	7	149422441	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	19661812	149422441	9716222	180	13447										
SSPO	23145	broad.mit.edu	37	chr7	149497030	149497030	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gatggaggccaggaccctgcCaccaggtatggcagctgtga	15	11	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:149497030C>A	uc010lpk.2	+	49	7070	c.7070C>A	c.(7069-7071)CCA>CAA	p.P2357Q		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2357					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AGGACCCTGCCACCAGGTATG	0.647													13	23	---	---	---	---	PASS	A	149497030	A	A	149497030	3	1	33	1	0	0	0	0	1	0	0	0	15188	594	21	3	7256	3	SSPO	7	149497030	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	74589	149497030	9641633	181	13448										
GIMAP8	155038	broad.mit.edu	37	chr7	150171294	150171294	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcttgtctgagagcagaagcTggagaaaaaagaaagtttcg	12	5	2	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:150171294T>C	uc003whj.2	+	4	1207	c.877T>C	c.(877-879)TGG>CGG	p.W293R		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	293						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		GAGCAGAAGCTGGAGAAAAAA	0.458													50	105	---	---	---	---	PASS	C	150171294	C	C	150171294	3	2	33	1	0	0	0	0	1	0	0	0	6385	1580	55	5	887	5	GIMAP8	7	150171294	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	674264	150171294	8967369	182	13449										
GIMAP7	168537	broad.mit.edu	37	chr7	150217926	150217926	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aagatgctttcagaaatatgGcataggtttttgtcgaaatg	10	4	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:150217926G>C	uc003whk.2	+	2	994	c.864G>C	c.(862-864)TGG>TGC	p.W288C		NM_153236	NP_694968	Q8NHV1	GIMA7_HUMAN	GTPase, IMAP family member 7	288							GTP binding			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CAGAAATATGGCATAGGTTTT	0.254													14	45	---	---	---	---	PASS	C	150217926	C	C	150217926	3	2	33	1	0	0	0	0	1	0	0	0	6384	1212	42	4	866	4	GIMAP7	7	150217926	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	46632	150217926	8920737	183	13450										
NCAPG2	54892	broad.mit.edu	37	chr7	158438254	158438254	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgcacagcagccgtgaggcaCacaatgccttcaatatcatt	8	12	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr7:158438254C>A	uc003wnv.1	-	26	3382	c.3237G>T	c.(3235-3237)GTG>GTT	p.V1079V	NCAPG2_uc010lqu.1_Silent_p.V824V|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Silent_p.V1079V|NCAPG2_uc011kwe.1_Silent_p.V1079V|NCAPG2_uc011kwc.1_Silent_p.V533V|NCAPG2_uc011kwd.1_Silent_p.V522V	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	1079					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		CCGTGAGGCACACAATGCCTT	0.418													26	66	---	---	---	---	PASS	A	158438254	A	A	158438254	2	1	33	1	0	0	0	0	0	0	0	1	10208	465	17	3		3	NCAPG2	7	158438254	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	8220328	158438254	700409	184	13451										
MYOM2	9172	broad.mit.edu	37	chr8	2026941	2026941	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtgagggcagtgaacagtgcGggcatcagccgaccctccag	15	12	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:2026941G>T	uc003wpx.3	+	12	1527	c.1389G>T	c.(1387-1389)GCG>GCT	p.A463A	MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	463	Fibronectin type-III 1.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		TGAACAGTGCGGGCATCAGCC	0.537													65	313	---	---	---	---	PASS	T	2026941	T	T	2026941	2	4	33	1	0	0	0	0	0	0	0	1	10092	1103	39	1		1	MYOM2	8	2026941	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08		2026941	144337081	185	13452										
CSMD1	64478	broad.mit.edu	37	chr8	3565943	3565943	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gaaagggactcacagacagaGtttttatggcttccatcctt	9	9	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:3565943G>T	uc011kwk.1	-	7	1392	c.1002C>A	c.(1000-1002)AAC>AAA	p.N334K		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	334	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)		CACAGACAGAGTTTTTATGGC	0.468													8	24	---	---	---	---	PASS	T	3565943	T	T	3565943	3	4	33	1	0	0	0	0	1	0	0	0	3944	1020	36	3	9761	3	CSMD1	8	3565943	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	1539002	3565943	142798079	186	13453										
SGK223	157285	broad.mit.edu	37	chr8	8176148	8176148	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tctggaactcatcgaacttgCggtactgggaagcagacacg	12	10	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:8176148C>T	uc003wsh.3	-	5	3737	c.3737G>A	c.(3736-3738)CGC>CAC	p.R1246H		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	1246	Protein kinase.						ATP binding|non-membrane spanning protein tyrosine kinase activity				0						ATCGAACTTGCGGTACTGGGA	0.622													4	63	---	---	---	---	PASS	T	8176148	T	T	8176148	3	4	33	1	0	0	0	0	1	0	0	0	14210	768	27	1	475	1	SGK223	8	8176148	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	4610205	8176148	138187874	187	13454										
DEFB136	613210	broad.mit.edu	37	chr8	11831460	11831460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	atccttttaatgaacccatgGatctttggcttgcgggggtt	11	8	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:11831460G>T	uc011kxm.1	-	2	223	c.223C>A	c.(223-225)CCA>ACA	p.P75T		NM_001033018	NP_001028190	Q30KP8	DB136_HUMAN	beta-defensin 136 precursor	75					defense response to bacterium	extracellular region					0			STAD - Stomach adenocarcinoma(15;0.033)	COAD - Colon adenocarcinoma(149;0.163)		TGAACCCATGGATCTTTGGCT	0.458													46	202	---	---	---	---	PASS	T	11831460	T	T	11831460	3	4	33	1	0	0	0	0	1	0	0	0	4420	1174	41	2	15	2	DEFB136	8	11831460	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	3655312	11831460	134532562	188	13455										
ANK1	286	broad.mit.edu	37	chr8	41530291	41530291	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	atgtcagacatctccagcatGgtgtcatgctccgtggccgc	11	13	3	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:41530291G>C	uc003xok.2	-	38	4761	c.4677C>G	c.(4675-4677)ACC>ACG	p.T1559T	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Intron|ANK1_uc003xoi.2_Silent_p.T1559T|ANK1_uc003xoj.2_Silent_p.T1559T|ANK1_uc003xol.2_Intron|ANK1_uc003xom.2_Silent_p.T1600T	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1559	55 kDa regulatory domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TCTCCAGCATGGTGTCATGCT	0.607													21	68	---	---	---	---	PASS	C	41530291	C	C	41530291	2	2	33	1	0	0	0	0	0	0	0	1	620	1335	47	4		4	ANK1	8	41530291	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	29698831	41530291	104833731	189	13456										
CHRNA6	8973	broad.mit.edu	37	chr8	42608376	42608376	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agaaatagccctgcagttccAaatacacagacaattataaa	5	9	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:42608376A>G	uc003xpj.2	-	6	1477	c.1431T>C	c.(1429-1431)TTT>TTC	p.F477F	CHRNA6_uc011lcw.1_Silent_p.F462F	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	477	Helical; (Potential).					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			CTGCAGTTCCAAATACACAGA	0.353													10	335	---	---	---	---	PASS	G	42608376	G	G	42608376	2	3	33	1	0	0	0	0	0	0	0	1	3387	127	5	5		5	CHRNA6	8	42608376	Silent	SNP	A	TCGA-22-1016-01A-01D-1521-08	1078085	42608376	103755646	190	13457										
CHD7	55636	broad.mit.edu	37	chr8	61765996	61765996	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctatttcagagaaaggttccGaagaggatgaagaggaaaag	13	4	1	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:61765996G>T	uc003xue.2	+	31	7189	c.6712G>T	c.(6712-6714)GAA>TAA	p.E2238*		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2238	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)			GAAAGGTTCCGAAGAGGATGA	0.527													66	54	---	---	---	---	PASS	T	61765996	T	T	61765996	4	4	33	1	0	0	0	0	0	1	0	0	3330	1059	37	2	6830	2	CHD7	8	61765996	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	19157620	61765996	84598026	191	13458										
COPS5	10987	broad.mit.edu	37	chr8	67971496	67971496	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtattcatatgcagcagcctGagcatttactcgggtttcag	10	9	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:67971496G>C	uc003xxe.2	-	2	659	c.328C>G	c.(328-330)CAG>GAG	p.Q110E	COPS5_uc003xxd.2_Missense_Mutation_p.Q46E|COPS5_uc003xxf.2_Missense_Mutation_p.Q155E|COPS5_uc010lyu.1_5'Flank|COPS5_uc010lyv.1_Missense_Mutation_p.Q110E	NM_006837	NP_006828	Q92905	CSN5_HUMAN	COP9 signalosome subunit 5	110	MPN.				cullin deneddylation|transcription from RNA polymerase II promoter	eukaryotic translation initiation factor 3 complex|signalosome	metal ion binding|metallopeptidase activity|protein binding|transcription coactivator activity|translation initiation factor activity			ovary(1)|skin(1)	2	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00389)|OV - Ovarian serous cystadenocarcinoma(28;0.00691)|all cancers(69;0.0205)|BRCA - Breast invasive adenocarcinoma(89;0.153)			GCAGCAGCCTGAGCATTTACT	0.408													7	163	---	---	---	---	PASS	C	67971496	C	C	67971496	3	2	33	1	0	0	0	0	1	0	0	0	3736	1299	45	2	704	2	COPS5	8	67971496	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	6205500	67971496	78392526	192	13459										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885963	88885963	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agctggtcagtgttggtattCgccagtatgcggttaaatcg	13	7	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:88885963C>A	uc003ydz.2	-	1	334	c.237G>T	c.(235-237)GCG>GCT	p.A79A		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	79										ovary(1)	1						TGTTGGTATTCGCCAGTATGC	0.552													52	162	---	---	---	---	PASS	A	88885963	A	A	88885963	2	1	33	1	0	0	0	0	0	0	0	1	4272	871	31	2		2	DCAF4L2	8	88885963	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	20914467	88885963	57478059	193	13460										
PKHD1L1	93035	broad.mit.edu	37	chr8	110451248	110451248	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	acttcacagatattagatgcCttttgcccaagttgtctcct	6	11	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:110451248C>A	uc003yne.2	+	32	3987	c.3883C>A	c.(3883-3885)CTT>ATT	p.L1295I		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1295	Extracellular (Potential).|IPT/TIG 6.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TATTAGATGCCTTTTGCCCAA	0.393										HNSCC(38;0.096)			126	151	---	---	---	---	PASS	A	110451248	A	A	110451248	3	1	33	1	0	0	0	0	1	0	0	0	11972	681	24	3	4009	3	PKHD1L1	8	110451248	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	21565285	110451248	35912774	194	13461										
CSMD3	114788	broad.mit.edu	37	chr8	113293416	113293416	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tacttacttgtacagttaggTaaagttccagaccatgttcc	7	9	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:113293416T>A	uc003ynu.2	-	59	9654	c.9495A>T	c.(9493-9495)TTA>TTT	p.L3165F	CSMD3_uc003yns.2_Missense_Mutation_p.L2367F|CSMD3_uc003ynt.2_Missense_Mutation_p.L3125F|CSMD3_uc011lhx.1_Missense_Mutation_p.L2996F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3165	Extracellular (Potential).|Sushi 23.					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						TACAGTTAGGTAAAGTTCCAG	0.318										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			33	121	---	---	---	---	PASS	A	113293416	A	A	113293416	3	1	33	1	0	0	0	0	1	0	0	0	3946	1635	57	5	1680	5	CSMD3	8	113293416	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	2842168	113293416	33070606	195	13462										
TRPS1	7227	broad.mit.edu	37	chr8	116426604	116426604	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggaatgcttgatcgccaaatCtagaggaatgtcattgtctg	11	7	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:116426604C>G	uc003ynz.2	-	6	3952	c.3493G>C	c.(3493-3495)GAT>CAT	p.D1165H	TRPS1_uc011lhy.1_Missense_Mutation_p.D1169H|TRPS1_uc003yny.2_Missense_Mutation_p.D1178H|TRPS1_uc010mcy.2_Missense_Mutation_p.D1165H	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1165	Transcriptional repressor domain (By similarity).|Mediates interaction with RNF4 (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			ATCGCCAAATCTAGAGGAATG	0.473									Langer-Giedion_syndrome				53	54	---	---	---	---	PASS	G	116426604	G	G	116426604	3	3	33	1	0	0	0	0	1	0	0	0	16590	913	32	2	356	2	TRPS1	8	116426604	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	3133188	116426604	29937418	196	13463										
SLC30A8	169026	broad.mit.edu	37	chr8	118175695	118175695	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aatagccgacccaatctgcaCattcatcttttccatcctgg	5	14	3	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:118175695C>A	uc003yoh.2	+	6	985	c.755C>A	c.(754-756)ACA>AAA	p.T252K	SLC30A8_uc010mcz.2_Missense_Mutation_p.T203K|SLC30A8_uc011lia.1_Missense_Mutation_p.T203K|SLC30A8_uc003yog.2_Missense_Mutation_p.T203K	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	252	Helical; (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			CCAATCTGCACATTCATCTTT	0.378													58	99	---	---	---	---	PASS	A	118175695	A	A	118175695	3	1	33	1	0	0	0	0	1	0	0	0	14561	478	17	3	777	3	SLC30A8	8	118175695	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	1749091	118175695	28188327	197	13464										
TRAPPC9	83696	broad.mit.edu	37	chr8	141449292	141449292	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gccttggcaccgcttcttgtAatgtctagaaaatacatgaa	8	9	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:141449292A>G	uc003yvj.2	-	3	723	c.589T>C	c.(589-591)TAC>CAC	p.Y197H	TRAPPC9_uc003yvh.2_Missense_Mutation_p.Y295H|TRAPPC9_uc003yvi.1_Missense_Mutation_p.Y197H	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	197					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						CGCTTCTTGTAATGTCTAGAA	0.473													35	137	---	---	---	---	PASS	G	141449292	G	G	141449292	3	3	33	1	0	0	0	0	1	0	0	0	16462	362	13	5	2941	5	TRAPPC9	8	141449292	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	23273597	141449292	4914730	198	13465										
CYP11B1	1584	broad.mit.edu	37	chr8	143958177	143958177	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagcgagacaggctcctgggCatgaacatgagctggacggt	15	10	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr8:143958177C>A	uc003yxi.2	-	4	727	c.720G>T	c.(718-720)ATG>ATT	p.M240I	CYP11B1_uc010mex.2_5'Flank|CYP11B1_uc003yxh.2_5'Flank|CYP11B1_uc003yxj.2_Missense_Mutation_p.M240I|CYP11B1_uc010mey.2_Missense_Mutation_p.M311I	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	240					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	GGCTCCTGGGCATGAACATGA	0.622									Familial_Hyperaldosteronism_type_I				7	34	---	---	---	---	PASS	A	143958177	A	A	143958177	3	1	33	1	0	0	0	0	1	0	0	0	4145	710	25	3	815	3	CYP11B1	8	143958177	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	2508885	143958177	2405845	199	13466										
SH3GL2	6456	broad.mit.edu	37	chr9	17761492	17761492	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgactaaaacaattgaatacCttcaacccaatccaggtaag	5	10	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr9:17761492C>A	uc003zna.2	+	3	460	c.172C>A	c.(172-174)CTT>ATT	p.L58I	SH3GL2_uc011lmx.1_Missense_Mutation_p.L23I|SH3GL2_uc011lmy.1_Missense_Mutation_p.L11I	NM_003026	NP_003017	Q99962	SH3G2_HUMAN	SH3-domain GRB2-like 2	58	BAR.|Binds and tubulates liposomes (By similarity).				axon guidance|central nervous system development|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	cytosol|Golgi membrane|plasma membrane	identical protein binding|lipid binding			skin(1)	1				GBM - Glioblastoma multiforme(50;2.71e-10)|Lung(42;0.203)		AATTGAATACCTTCAACCCAA	0.353													28	119	---	---	---	---	PASS	A	17761492	A	A	17761492	3	1	33	1	0	0	0	0	1	0	0	0	14251	681	24	3	182	3	SH3GL2	9	17761492	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08		17761492	123451939	200	13467										
KLHL9	55958	broad.mit.edu	37	chr9	21333639	21333639	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccagttcaccagctgcactgCgcccaccaactgcatacaaa	6	17	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr9:21333639C>A	uc003zoy.2	-	1	1791	c.1220G>T	c.(1219-1221)CGC>CTC	p.R407L	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	407	Kelch 3.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody		p.R407C(1)		ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		AGCTGCACTGCGCCCACCAAC	0.448													25	128	---	---	---	---	PASS	A	21333639	A	A	21333639	3	1	33	1	0	0	0	0	1	0	0	0	8396	768	27	1	637	1	KLHL9	9	21333639	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	3572147	21333639	119879792	201	13468										
HNRNPK	3190	broad.mit.edu	37	chr9	86585085	86585085	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	acttaaactgacctgttctgCagcaaatactgtgcattctg	7	10	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr9:86585085C>G	uc004ang.3	-	16	1577	c.1353G>C	c.(1351-1353)CTG>CTC	p.L451L	HNRNPK_uc011lsw.1_Silent_p.L211L|HNRNPK_uc004and.3_Silent_p.L211L|HNRNPK_uc004ank.3_Silent_p.L450L|HNRNPK_uc004anf.3_Silent_p.L451L|HNRNPK_uc004anh.3_Silent_p.L427L|HNRNPK_uc011lsx.1_Silent_p.L427L|HNRNPK_uc004ani.3_Silent_p.L450L|HNRNPK_uc004anj.3_Silent_p.L450L|HNRNPK_uc004ann.3_Silent_p.L426L|HNRNPK_uc004anl.3_Silent_p.L451L|HNRNPK_uc004anm.3_Silent_p.L451L|uc004ano.1_5'Flank|MIR7-1_hsa-mir-7-1|MI0000263_5'Flank	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	451	KH 3.				interspecies interaction between organisms|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of low-density lipoprotein particle clearance|signal transduction	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nuclear chromatin|nucleoplasm	protein binding|RNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|single-stranded DNA binding			skin(1)	1						ACCTGTTCTGCAGCAAATACT	0.358													53	101	---	---	---	---	PASS	G	86585085	G	G	86585085	2	3	33	1	0	0	0	0	0	0	0	1	7269	697	25	4		4	HNRNPK	9	86585085	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	65251446	86585085	54628346	202	13469										
SLC35D2	11046	broad.mit.edu	37	chr9	99114388	99114388	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctgagcacggtgaacatcggTaggctgccaggaaaagagtg	15	8	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr9:99114388T>A	uc004awc.2	-	5	427	c.351A>T	c.(349-351)CTA>CTT	p.L117L	SLC35D2_uc010msd.2_RNA|SLC35D2_uc010mse.2_Intron|SLC35D2_uc010msf.2_Silent_p.L117L|SLC35D2_uc004awd.2_Intron|SLC35D2_uc004awe.2_Silent_p.L117L	NM_007001	NP_008932	Q76EJ3	S35D2_HUMAN	solute carrier family 35, member D2	117	Cytoplasmic (Potential).					Golgi membrane|integral to membrane	nucleotide-sugar transmembrane transporter activity				0		Acute lymphoblastic leukemia(62;0.0167)				TGAACATCGGTAGGCTGCCAG	0.383													10	31	---	---	---	---	PASS	A	99114388	A	A	99114388	2	1	33	1	0	0	0	0	0	0	0	1	14582	1625	57	5		5	SLC35D2	9	99114388	Silent	SNP	T	TCGA-22-1016-01A-01D-1521-08	12529303	99114388	42099043	203	13470										
OR13C9	286362	broad.mit.edu	37	chr9	107379751	107379751	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tagaatattatgaccacagtCagatgggctgagcaggtaga	12	6	1	5			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr9:107379751C>A	uc011lvr.1	-	1	735	c.735G>T	c.(733-735)CTG>CTT	p.L245L		NM_001001956	NP_001001956	Q8NGT0	O13C9_HUMAN	olfactory receptor, family 13, subfamily C,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGACCACAGTCAGATGGGCTG	0.413													54	90	---	---	---	---	PASS	A	107379751	A	A	107379751	2	1	33	1	0	0	0	0	0	0	0	1	10939	813	29	2		2	OR13C9	9	107379751	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	8265363	107379751	33833680	204	13471										
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112898997	112898997	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agctccacaaccagctcacgGtgttcttcccgagatggaga	10	13	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr9:112898997G>A	uc004bei.2	+	9	2061	c.1869G>A	c.(1867-1869)CGG>CGA	p.R623R	PALM2-AKAP2_uc004bek.3_Silent_p.R391R|PALM2-AKAP2_uc004bej.3_Silent_p.R391R|PALM2-AKAP2_uc004bel.1_Silent_p.R201R|AKAP2_uc011lwi.1_Silent_p.R249R|AKAP2_uc004bem.2_Silent_p.R249R|PALM2-AKAP2_uc010mtw.1_Silent_p.R209R|AKAP2_uc011lwj.1_Silent_p.R160R|PALM2-AKAP2_uc004ben.2_Silent_p.R160R	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	160							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						CCAGCTCACGGTGTTCTTCCC	0.572													14	48	---	---	---	---	PASS	A	112898997	A	A	112898997	2	1	33	1	0	0	0	0	0	0	0	1	11410	1248	44	3		3	PALM2-AKAP2	9	112898997	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	5519246	112898997	28314434	205	13472										
TTF1	7270	broad.mit.edu	37	chr9	135277305	135277305	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctgcatatcagccccaacctCactgcccacttgtgatcctt	5	17	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr9:135277305C>G	uc004cbl.2	-	2	956	c.904G>C	c.(904-906)GAG>CAG	p.E302Q	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Intron	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	302					negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		GCCCCAACCTCACTGCCCACT	0.448													16	341	---	---	---	---	PASS	G	135277305	G	G	135277305	3	3	33	1	0	0	0	0	1	0	0	0	16715	835	29	2	1853	2	TTF1	9	135277305	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	22378308	135277305	5936126	206	13473										
GBGT1	26301	broad.mit.edu	37	chr9	136029595	136029595	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agtagtgcacccggtacccaCgcatgaagaactcctcggct	10	14	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr9:136029595C>A	uc004ccw.2	-	7	694	c.413G>T	c.(412-414)CGT>CTT	p.R138L	RALGDS_uc011mcw.1_Intron|GBGT1_uc004ccx.2_Missense_Mutation_p.R91L|GBGT1_uc010nab.2_Silent_p.A150A|GBGT1_uc011mcx.1_Missense_Mutation_p.R121L|GBGT1_uc010nac.1_Missense_Mutation_p.R2L|GBGT1_uc004ccy.1_3'UTR	NM_021996	NP_068836	Q8N5D6	GBGT1_HUMAN	globoside	138	Lumenal (Potential).				carbohydrate metabolic process|glycolipid biosynthetic process	Golgi membrane|integral to membrane	metal ion binding				0				OV - Ovarian serous cystadenocarcinoma(145;3.49e-06)|Epithelial(140;2.59e-05)		CCGGTACCCACGCATGAAGAA	0.597													25	42	---	---	---	---	PASS	A	136029595	A	A	136029595	3	1	33	1	0	0	0	0	1	0	0	0	6272	536	19	1	634	1	GBGT1	9	136029595	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	752290	136029595	5183836	207	13474										
NOTCH1	4851	broad.mit.edu	37	chr9	139412363	139412363	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcccagcgtgttgatgcactTgcccgcatgctcgcaggggt	14	13	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr9:139412363T>A	uc004chz.2	-	8	1282	c.1282A>T	c.(1282-1284)AAG>TAG	p.K428*		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	428	Extracellular (Potential).|EGF-like 11; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		TTGATGCACTTGCCCGCATGC	0.667			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			24	52	---	---	---	---	PASS	A	139412363	A	A	139412363	4	1	33	1	0	0	0	0	0	1	0	0	10547	1821	63	5	6493	5	NOTCH1	9	139412363	Nonsense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	3382768	139412363	1801068	208	13475										
ABCA2	20	broad.mit.edu	37	chr9	139916869	139916869	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttgggcagcgacaagttttgCgtcaggaaacgccagagctc	13	10	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr9:139916869C>A	uc011mem.1	-	5	646	c.498G>T	c.(496-498)ACG>ACT	p.T166T	ABCA2_uc011mel.1_Silent_p.T167T|ABCA2_uc004ckl.1_Silent_p.T97T|ABCA2_uc004ckm.1_Silent_p.T197T|ABCA2_uc004cko.1_5'UTR|ABCA2_uc010nca.2_Silent_p.T97T	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	166					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		ACAAGTTTTGCGTCAGGAAAC	0.647													7	14	---	---	---	---	PASS	A	139916869	A	A	139916869	2	1	33	1	0	0	0	0	0	0	0	1	32	755	27	1		1	ABCA2	9	139916869	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	504506	139916869	1296562	209	13476										
ANKRD26	22852	broad.mit.edu	37	chr10	27323831	27323831	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctagcagaagactttgctttTcactctcagcttgaagtttt	7	9	2	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr10:27323831T>C	uc001ith.2	-	24	3717	c.3545A>G	c.(3544-3546)GAA>GGA	p.E1182G	ANKRD26_uc001itg.2_Missense_Mutation_p.E869G|ANKRD26_uc009xku.1_Missense_Mutation_p.E1183G	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1182	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						ACTTTGCTTTTCACTCTCAGC	0.353													47	185	---	---	---	---	PASS	C	27323831	C	C	27323831	3	2	33	1	0	0	0	0	1	0	0	0	654	1783	62	5	1628	5	ANKRD26	10	27323831	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08		27323831	108210916	210	13477										
PCDH15	65217	broad.mit.edu	37	chr10	55719602	55719602	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcatcaaaagcaaccaccacCaacttaaaaagcaataaaaa	2	11	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr10:55719602C>T	uc001jju.1	-	23	3407	c.3012G>A	c.(3010-3012)TTG>TTA	p.L1004L	PCDH15_uc010qhq.1_Silent_p.L1009L|PCDH15_uc010qhr.1_Silent_p.L1004L|PCDH15_uc010qhs.1_Silent_p.L1016L|PCDH15_uc010qht.1_Silent_p.L1011L|PCDH15_uc010qhu.1_Silent_p.L1004L|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.L1004L|PCDH15_uc010qhw.1_Silent_p.L967L|PCDH15_uc010qhx.1_Silent_p.L933L|PCDH15_uc010qhy.1_Silent_p.L1009L|PCDH15_uc010qhz.1_Silent_p.L1004L|PCDH15_uc010qia.1_Silent_p.L982L|PCDH15_uc010qib.1_Silent_p.L982L	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1004	Extracellular (Potential).|Cadherin 9.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CAACCACCACCAACTTAAAAA	0.393										HNSCC(58;0.16)			8	81	---	---	---	---	PASS	T	55719602	T	T	55719602	2	4	33	1	0	0	0	0	0	0	0	1	11511	593	21	3		3	PCDH15	10	55719602	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	28395771	55719602	79815145	211	13478										
TMEM26	219623	broad.mit.edu	37	chr10	63170096	63170096	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ataactaaggggtgtggtggGagtcgtcggaggtgactggg	20	4	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr10:63170096G>A	uc001jlo.2	-	6	1460	c.1091C>T	c.(1090-1092)TCC>TTC	p.S364F	TMEM26_uc010qij.1_RNA|TMEM26_uc001jlp.1_RNA	NM_178505	NP_848600	Q6ZUK4	TMM26_HUMAN	transmembrane protein 26	364						integral to membrane					0	Prostate(12;0.0112)					GGTGTGGTGGGAGTCGTCGGA	0.572													12	66	---	---	---	---	PASS	A	63170096	A	A	63170096	3	1	33	1	0	0	0	0	1	0	0	0	16148	1174	41	2	19	2	TMEM26	10	63170096	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	7450494	63170096	72364651	212	13479										
CYP2C19	1557	broad.mit.edu	37	chr10	96602727	96602727	+	Missense_Mutation	SNP	C	A	A													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	atcgacctcatccccaccagCctgccccatgcagtgacctg							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr10:96602727C>A	uc010qnz.1	+	7	1095	c.1095C>A	c.(1093-1095)AGC>AGA	p.S365R	CYP2C19_uc010qny.1_Missense_Mutation_p.S343R	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	365					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	TCCCCACCAGCCTGCCCCATG	0.522													65	194	---	---	---	---	PASS	A	96602727	A	A	96602727	3	1	33	1	0	0	0	0	1	0	0	0	4166	738	26	3	1121	3	CYP2C19	10	96602727	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	33432631	96602727	38932020	213	13480	352	2								
CYP2C19	1557	broad.mit.edu	37	chr10	96602728	96602728	+	Missense_Mutation	SNP	C	A	A													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcgacctcatccccaccagcCtgccccatgcagtgacctgt							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr10:96602728C>A	uc010qnz.1	+	7	1096	c.1096C>A	c.(1096-1098)CTG>ATG	p.L366M	CYP2C19_uc010qny.1_Missense_Mutation_p.L344M	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	366					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity	p.L366Q(1)		ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	CCCCACCAGCCTGCCCCATGC	0.522													65	193	---	---	---	---	PASS	A	96602728	A	A	96602728	3	1	33	1	0	0	0	0	1	0	0	0	4166	680	24	3	1122	3	CYP2C19	10	96602728	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	1	96602728	38932019	214	13481	352	2								
SLC25A28	81894	broad.mit.edu	37	chr10	101370858	101370858	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agtgttttgcaaacgtccagTggggttgtggctgcggcagc	16	8	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr10:101370858T>C	uc001kpx.2	-	4	972	c.843A>G	c.(841-843)CCA>CCG	p.P281P	SLC25A28_uc001kpy.2_Silent_p.P94P	NM_031212	NP_112489	Q96A46	MFRN2_HUMAN	solute carrier family 25, member 28	281	Solcar 3.				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Colorectal(252;0.234)		Epithelial(162;2.57e-10)|all cancers(201;2.01e-08)		AAACGTCCAGTGGGGTTGTGG	0.562													28	64	---	---	---	---	PASS	C	101370858	C	C	101370858	2	2	33	1	0	0	0	0	0	0	0	1	14491	1683	59	5		5	SLC25A28	10	101370858	Silent	SNP	T	TCGA-22-1016-01A-01D-1521-08	4768130	101370858	34163889	215	13482										
PNLIP	5406	broad.mit.edu	37	chr10	118314941	118314941	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgggccacctagatttctttCcaaatggaggagtggaaatg	12	7	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr10:118314941C>G	uc001lcm.2	+	8	776	c.733C>G	c.(733-735)CCA>GCA	p.P245A		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	245					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	AGATTTCTTTCCAAATGGAGG	0.388													31	183	---	---	---	---	PASS	G	118314941	G	G	118314941	3	3	33	1	0	0	0	0	1	0	0	0	12149	855	30	2	759	2	PNLIP	10	118314941	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	16944083	118314941	17219806	216	13483										
SEC23IP	11196	broad.mit.edu	37	chr10	121677443	121677443	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	attttataacagccccacctActgtcagacaattgtggaaa	6	10	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr10:121677443A>T	uc001leu.1	+	9	1712	c.1640A>T	c.(1639-1641)TAC>TTC	p.Y547F	SEC23IP_uc010qtc.1_Missense_Mutation_p.Y336F|SEC23IP_uc009xzk.1_5'Flank	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	547					Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		AGCCCCACCTACTGTCAGACA	0.383													25	143	---	---	---	---	PASS	T	121677443	T	T	121677443	3	4	33	1	0	0	0	0	1	0	0	0	13993	391	14	5	1674	5	SEC23IP	10	121677443	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	3362502	121677443	13857304	217	13484										
FAM24A	118670	broad.mit.edu	37	chr10	124672393	124672393	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agtcttgtccatctctccagTgctgtgaaggttgtagaatg	11	8	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr10:124672393T>A	uc001lgv.2	+	3	362	c.241T>A	c.(241-243)TGC>AGC	p.C81S		NM_001029888	NP_001025059	A6NFZ4	FA24A_HUMAN	family with sequence similarity 24, member A	81						extracellular region				ovary(2)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.124)|COAD - Colon adenocarcinoma(40;0.141)		ATCTCTCCAGTGCTGTGAAGG	0.507													19	119	---	---	---	---	PASS	A	124672393	A	A	124672393	3	1	33	1	0	0	0	0	1	0	0	0	5547	1696	59	5	247	5	FAM24A	10	124672393	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	2994950	124672393	10862354	218	13485										
ADAM12	8038	broad.mit.edu	37	chr10	127806717	127806717	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcttttcagcttcttcgctgGgaagagtttgtatctgttgg	12	7	3	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr10:127806717G>T	uc001ljk.2	-	6	915	c.502C>A	c.(502-504)CCA>ACA	p.P168T	ADAM12_uc010qul.1_Missense_Mutation_p.P165T|ADAM12_uc001ljm.2_Missense_Mutation_p.P168T|ADAM12_uc001ljn.2_Missense_Mutation_p.P165T|ADAM12_uc001ljl.3_Missense_Mutation_p.P165T	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	168					cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		TTCTTCGCTGGGAAGAGTTTG	0.423													32	151	---	---	---	---	PASS	T	127806717	T	T	127806717	3	4	33	1	0	0	0	0	1	0	0	0	236	1232	43	3	2407	3	ADAM12	10	127806717	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	3134324	127806717	7728030	219	13486										
FAM196A	642938	broad.mit.edu	37	chr10	128974520	128974520	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cgcagatatccttaaaccgcAcctgcagggctttgttccgt	9	13	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr10:128974520A>T	uc001lju.1	-	1	181	c.140T>A	c.(139-141)GTG>GAG	p.V47E	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.V47E|FAM196A_uc001ljv.1_Missense_Mutation_p.V47E|FAM196A_uc009yap.1_Missense_Mutation_p.V47E	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	47										ovary(2)	2						CTTAAACCGCACCTGCAGGGC	0.607													48	280	---	---	---	---	PASS	T	128974520	T	T	128974520	3	4	33	1	0	0	0	0	1	0	0	0	5528	159	6	5	1311	5	FAM196A	10	128974520	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	1167803	128974520	6560227	220	13487										
TUBGCP2	10844	broad.mit.edu	37	chr10	135106147	135106147	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agctcctgtcgtggagcaggCtcagcgtggaccccccaaga	13	14	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr10:135106147C>G	uc001lmg.1	-	8	1427	c.1070G>C	c.(1069-1071)AGC>ACC	p.S357T	TUBGCP2_uc001lmf.1_5'Flank|TUBGCP2_uc010qvc.1_Missense_Mutation_p.S385T|TUBGCP2_uc009ybk.1_Missense_Mutation_p.S357T|TUBGCP2_uc010qvd.1_Missense_Mutation_p.S227T|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	357					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		GTGGAGCAGGCTCAGCGTGGA	0.622													6	46	---	---	---	---	PASS	G	135106147	G	G	135106147	3	3	33	1	0	0	0	0	1	0	0	0	16763	797	28	4	1682	4	TUBGCP2	10	135106147	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	6131627	135106147	428600	221	13488										
NUP98	4928	broad.mit.edu	37	chr11	3714580	3714580	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	actgggagcacacgtttattTgcttcttttctgagagctgc	10	9	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:3714580T>G	uc001lyh.2	-	27	4484	c.4193A>C	c.(4192-4194)CAA>CCA	p.Q1398P	NUP98_uc001lyi.2_Missense_Mutation_p.Q1398P|NUP98_uc001lyg.2_Missense_Mutation_p.Q363P	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1415					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		CACGTTTATTTGCTTCTTTTC	0.458			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								24	146	---	---	---	---	PASS	G	3714580	G	G	3714580	3	3	33	1	0	0	0	0	1	0	0	0	10773	1812	63	5	1237	5	NUP98	11	3714580	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08		3714580	131291936	222	13489										
OR52M1	119772	broad.mit.edu	37	chr11	4566615	4566615	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagcccatgtactttttcttGtgcatgttggctgccattga	9	10	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:4566615G>T	uc010qyf.1	+	1	195	c.195G>T	c.(193-195)TTG>TTT	p.L65F		NM_001004137	NP_001004137	Q8NGK5	O52M1_HUMAN	olfactory receptor, family 52, subfamily M,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACTTTTTCTTGTGCATGTTGG	0.522													42	92	---	---	---	---	PASS	T	4566615	T	T	4566615	3	4	33	1	0	0	0	0	1	0	0	0	11126	1368	48	3	197	3	OR52M1	11	4566615	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	852035	4566615	130439901	223	13490										
OR51B2	79345	broad.mit.edu	37	chr11	5345100	5345100	+	Missense_Mutation	SNP	C	A	A													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cccttagaaacactcccactCctaacgctatgactctagta							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:5345100C>A	uc001mao.1	-	1	483	c.428G>T	c.(427-429)GGA>GTA	p.G143V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CACTCCCACTCCTAACGCTAT	0.413													31	104	---	---	---	---	PASS	A	5345100	A	A	5345100	3	1	33	1	0	0	0	0	1	0	0	0	11089	855	30	2	514	2	OR51B2	11	5345100	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	778485	5345100	129661416	224	13491	353	2								
OR51B2	79345	broad.mit.edu	37	chr11	5345101	5345101	+	Nonsense_Mutation	SNP	C	A	A													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccttagaaacactcccactcCtaacgctatgactctagtat							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:5345101C>A	uc001mao.1	-	1	482	c.427G>T	c.(427-429)GGA>TGA	p.G143*	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTCCCACTCCTAACGCTATG	0.408													33	106	---	---	---	---	PASS	A	5345101	A	A	5345101	4	1	33	1	0	0	0	0	0	1	0	0	11089	690	24	3	515	3	OR51B2	11	5345101	Nonsense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	1	5345101	129661415	225	13492	353	2								
OR56A1	120796	broad.mit.edu	37	chr11	6048063	6048063	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	caatagggttcaatgcaggaGgaataaggtgatgaaggacg	15	4	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:6048063G>T	uc010qzw.1	-	1	872	c.872C>A	c.(871-873)CCT>CAT	p.P291H		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	291	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAATGCAGGAGGAATAAGGTG	0.463													34	80	---	---	---	---	PASS	T	6048063	T	T	6048063	3	4	33	1	0	0	0	0	1	0	0	0	11133	1000	35	3	88	3	OR56A1	11	6048063	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	702962	6048063	128958453	226	13493										
NLRP14	338323	broad.mit.edu	37	chr11	7079636	7079636	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgatggtggagtaaagcttaTgagtgatgccctgcaacatg	13	6	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:7079636T>C	uc001mfb.1	+	8	2911	c.2588T>C	c.(2587-2589)ATG>ACG	p.M863T		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	863	LRR 5.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		GTAAAGCTTATGAGTGATGCC	0.388													59	133	---	---	---	---	PASS	C	7079636	C	C	7079636	3	2	33	1	0	0	0	0	1	0	0	0	10476	1464	51	5	2614	5	NLRP14	11	7079636	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	1031573	7079636	127926880	227	13494										
NAV2	89797	broad.mit.edu	37	chr11	19901506	19901506	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagcagccccagaagcagcaCctctcctcacctctgccgcc	7	21	3	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:19901506C>G	uc010rdm.1	+	5	964	c.603C>G	c.(601-603)CAC>CAG	p.H201Q	NAV2_uc001mpp.2_Missense_Mutation_p.H137Q|NAV2_uc001mpr.3_Missense_Mutation_p.H201Q	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	201	Gln-rich.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						agaagcagcaCCTCTCCTCAC	0.537													5	6	---	---	---	---	PASS	G	19901506	G	G	19901506	3	3	33	1	0	0	0	0	1	0	0	0	10184	506	18	4	700	4	NAV2	11	19901506	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	12821870	19901506	115105010	228	13495										
FIBIN	387758	broad.mit.edu	37	chr11	27016314	27016314	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcctgctgagcctcaccctgCgggaggagttcaccgtgctg	14	14	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:27016314C>A	uc001mrd.2	+	1	687	c.241C>A	c.(241-243)CGG>AGG	p.R81R		NM_203371	NP_976249	Q8TAL6	FIBIN_HUMAN	fin bud initiation factor homolog precursor	81						extracellular region|Golgi apparatus					0						CCTCACCCTGCGGGAGGAGTT	0.657													13	28	---	---	---	---	PASS	A	27016314	A	A	27016314	2	1	33	1	0	0	0	0	0	0	0	1	5885	759	27	1		1	FIBIN	11	27016314	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	7114808	27016314	107990202	229	13496										
ACCS	84680	broad.mit.edu	37	chr11	44102757	44102757	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gatgtctgggctccgctttgGcacgctgtacacagaaaacc	11	12	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:44102757G>T	uc009yks.1	+	12	1142	c.998G>T	c.(997-999)GGC>GTC	p.G333V	EXT2_uc010rfo.1_Intron|ACCS_uc001mxx.2_Missense_Mutation_p.G333V	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	333							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						CTCCGCTTTGGCACGCTGTAC	0.627													19	165	---	---	---	---	PASS	T	44102757	T	T	44102757	3	4	33	1	0	0	0	0	1	0	0	0	133	1203	42	3	1040	3	ACCS	11	44102757	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	17086443	44102757	90903759	230	13497										
MADD	8567	broad.mit.edu	37	chr11	47305939	47305939	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttggcagatgtggaccctctGacacatgcagcactggggga	14	10	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:47305939G>C	uc001ner.1	+	12	2171	c.1980G>C	c.(1978-1980)CTG>CTC	p.L660L	MADD_uc001neq.2_Silent_p.L660L|MADD_uc001nev.1_Silent_p.L660L|MADD_uc001nes.1_Silent_p.L660L|MADD_uc001net.1_Silent_p.L660L|MADD_uc009yln.1_Silent_p.L660L|MADD_uc001neu.1_Silent_p.L660L|MADD_uc001nex.2_Silent_p.L660L|MADD_uc001nez.2_Silent_p.L660L|MADD_uc001new.2_Silent_p.L660L	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	660					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		TGGACCCTCTGACACATGCAG	0.597													26	166	---	---	---	---	PASS	C	47305939	C	C	47305939	2	2	33	1	0	0	0	0	0	0	0	1	9152	1277	45	2		2	MADD	11	47305939	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	3203182	47305939	87700577	231	13498										
FOLH1	2346	broad.mit.edu	37	chr11	49175785	49175785	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggaagggtaacataccaaatGatacactgtatgtcttcatt	8	7	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:49175785G>T	uc001ngy.2	-	16	2144	c.1883C>A	c.(1882-1884)TCA>TAA	p.S628*	FOLH1_uc001ngx.2_Nonsense_Mutation_p.S60*|FOLH1_uc001ngz.2_Nonsense_Mutation_p.S628*|FOLH1_uc009yly.2_Nonsense_Mutation_p.S613*|FOLH1_uc009ylz.2_Nonsense_Mutation_p.S613*|FOLH1_uc009yma.2_Nonsense_Mutation_p.S320*	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	628	Extracellular (Probable).	Charge relay system (Potential).			proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	CATACCAAATGATACACTGTA	0.313													7	212	---	---	---	---	PASS	T	49175785	T	T	49175785	4	4	33	1	0	0	0	0	0	1	0	0	5979	1294	45	2	385	2	FOLH1	11	49175785	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	1869846	49175785	85830731	232	13499										
OR5D14	219436	broad.mit.edu	37	chr11	55563077	55563077	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcatggagcccacctttgccCttttaggtttcacagattac	8	12	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:55563077C>T	uc010rim.1	+	1	46	c.46C>T	c.(46-48)CTT>TTT	p.L16F		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				CACCTTTGCCCTTTTAGGTTT	0.408													92	193	---	---	---	---	PASS	T	55563077	T	T	55563077	3	4	33	1	0	0	0	0	1	0	0	0	11155	681	24	3	48	3	OR5D14	11	55563077	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	6387292	55563077	79443439	233	13500										
OR5D18	219438	broad.mit.edu	37	chr11	55587837	55587837	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gccttctccacctgtgcctcCcacctgactgccatcaccat	5	20	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:55587837C>T	uc010rin.1	+	1	732	c.732C>T	c.(730-732)TCC>TCT	p.S244S		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				CCTGTGCCTCCCACCTGACTG	0.517													28	136	---	---	---	---	PASS	T	55587837	T	T	55587837	2	4	33	1	0	0	0	0	0	0	0	1	11157	610	22	3		3	OR5D18	11	55587837	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	24760	55587837	79418679	234	13501										
SPRYD5	84767	broad.mit.edu	37	chr11	55655637	55655637	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aggacatttttcagcaactcAatgaaagcaaagccagaatg	8	8	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:55655637A>G	uc010rip.1	+	4	729	c.637A>G	c.(637-639)AAT>GAT	p.N213D	SPRYD5_uc010riq.1_Missense_Mutation_p.N70D	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	213						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				TCAGCAACTCAATGAAAGCAA	0.448													26	93	---	---	---	---	PASS	G	55655637	G	G	55655637	3	3	33	1	0	0	0	0	1	0	0	0	15110	130	5	5	647	5	SPRYD5	11	55655637	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	67800	55655637	79350879	235	13502										
OR5J2	282775	broad.mit.edu	37	chr11	55944867	55944867	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tatggtaccttaatctttagCtacattcagccaagctccca	5	12	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:55944867C>T	uc010rjb.1	+	1	774	c.774C>T	c.(772-774)AGC>AGT	p.S258S		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	258	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					TAATCTTTAGCTACATTCAGC	0.453													74	210	---	---	---	---	PASS	T	55944867	T	T	55944867	2	4	33	1	0	0	0	0	0	0	0	1	11165	796	28	3		3	OR5J2	11	55944867	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	289230	55944867	79061649	236	13503										
CTNND1	1500	broad.mit.edu	37	chr11	57583454	57583454	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tttggatgatgaggggggccAagtgtcttacccctccatgg	14	9	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:57583454A>T	uc001nmc.3	+	20	3447	c.2876A>T	c.(2875-2877)CAA>CTA	p.Q959L	CTNND1_uc001nlh.1_Intron|CTNND1_uc001nlu.3_Intron|CTNND1_uc001nlt.3_Intron|CTNND1_uc001nls.3_Missense_Mutation_p.Q831L|CTNND1_uc001nlw.3_Intron|CTNND1_uc001nmf.3_Intron|CTNND1_uc001nmd.3_Missense_Mutation_p.Q905L|CTNND1_uc001nlk.3_Intron|CTNND1_uc001nme.3_Missense_Mutation_p.Q953L|CTNND1_uc001nll.3_Intron|CTNND1_uc001nmg.3_Intron|CTNND1_uc001nlj.3_Missense_Mutation_p.Q899L|CTNND1_uc001nlr.3_Intron|CTNND1_uc001nlp.3_Missense_Mutation_p.Q878L|CTNND1_uc001nlx.3_Missense_Mutation_p.Q636L|CTNND1_uc001nlz.3_Intron|CTNND1_uc009ymn.2_Intron|CTNND1_uc001nlm.3_Intron|CTNND1_uc001nly.3_Missense_Mutation_p.Q630L|CTNND1_uc001nmb.3_Intron|CTNND1_uc001nma.3_Missense_Mutation_p.Q609L|CTNND1_uc001nmi.3_Missense_Mutation_p.Q858L|CTNND1_uc001nmh.3_Intron|CTNND1_uc001nlq.3_Intron|CTNND1_uc001nln.3_Intron|CTNND1_uc001nli.3_Missense_Mutation_p.Q932L|CTNND1_uc001nlo.3_Missense_Mutation_p.Q852L|CTNND1_uc001nlv.3_Intron	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	959					adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				GAGGGGGGCCAAGTGTCTTAC	0.498													8	34	---	---	---	---	PASS	T	57583454	T	T	57583454	3	4	33	1	0	0	0	0	1	0	0	0	4019	130	5	5	2946	5	CTNND1	11	57583454	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	1638587	57583454	77423062	237	13504										
SLC22A9	114571	broad.mit.edu	37	chr11	63143203	63143203	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tagaaaagctgcacacaggaGtggaatgaagaatgccagag	13	6	0	4	rs1801518		TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:63143203G>C	uc001nww.2	+	5	1185	c.917G>C	c.(916-918)AGT>ACT	p.S306T	SLC22A9_uc001nwx.2_RNA	NM_080866	NP_543142	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion/cation	306	Cytoplasmic (Potential).				transmembrane transport	integral to membrane				breast(2)|large_intestine(1)	3						GCACACAGGAGTGGAATGAAG	0.468													21	141	---	---	---	---	PASS	C	63143203	C	C	63143203	3	2	33	1	0	0	0	0	1	0	0	0	14461	1029	36	4	935	4	SLC22A9	11	63143203	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	5559749	63143203	71863313	238	13505										
MARK2	2011	broad.mit.edu	37	chr11	63666289	63666289	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gatgaaagaaaaagaggctcGagccaaattccgccaggtag	12	8	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:63666289G>A	uc001nxw.2	+	6	1037	c.458G>A	c.(457-459)CGA>CAA	p.R153Q	MARK2_uc001nxx.2_Missense_Mutation_p.R153Q|MARK2_uc001nxy.2_Missense_Mutation_p.R153Q|MARK2_uc001nxv.3_Missense_Mutation_p.R153Q|MARK2_uc001nxz.3_Missense_Mutation_p.R120Q|MARK2_uc009yoy.2_Missense_Mutation_p.R120Q	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	153	Protein kinase.				cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						AAAGAGGCTCGAGCCAAATTC	0.517													5	79	---	---	---	---	PASS	A	63666289	A	A	63666289	3	1	33	1	0	0	0	0	1	0	0	0	9313	1058	37	2	480	2	MARK2	11	63666289	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	523086	63666289	71340227	239	13506										
TIGD3	220359	broad.mit.edu	37	chr11	65124390	65124390	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggctggctcccggcaaaacgCccccgtcctcgcacaaaacc	9	19	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:65124390C>A	uc001odo.3	+	2	1274	c.1111C>A	c.(1111-1113)CCC>ACC	p.P371T		NM_145719	NP_663771	Q6B0B8	TIGD3_HUMAN	tigger transposable element derived 3	371					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						CGGCAAAACGCCCCCGTCCTC	0.637													66	162	---	---	---	---	PASS	A	65124390	A	A	65124390	3	1	33	1	0	0	0	0	1	0	0	0	15894	739	26	3	1113	3	TIGD3	11	65124390	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	1458101	65124390	69882126	240	13507										
BBS1	582	broad.mit.edu	37	chr11	66287220	66287220	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccttcaccattttagccaagGtcagcgtcaggtctggccct	9	14	4	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:66287220G>A	uc001oij.1	+	8	735	c.723_splice	c.e8+1	p.K241_splice	BBS1_uc001oii.1_Splice_Site_p.K278_splice|BBS1_uc010rpf.1_Splice_Site|BBS1_uc010rpg.1_Intron|BBS1_uc001oik.1_Splice_Site_p.K165_splice|BBS1_uc001oil.1_Splice_Site_p.K241_splice	NM_024649	NP_078925	Q8NFJ9	BBS1_HUMAN	Bardet-Biedl syndrome 1						nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	BBSome|cilium membrane|cytoplasm	protein binding			ovary(1)	1						TTTAGCCAAGGTCAGCGTCAG	0.547									Bardet-Biedl_syndrome				13	67	---	---	---	---	PASS	A	66287220	A	A	66287220	5	1	33	1	0	0	0	0	0	0	1	0	1335	1275	44	3	754	3	BBS1	11	66287220	Splice_Site	SNP	G	TCGA-22-1016-01A-01D-1521-08	1162830	66287220	68719296	241	13508										
INPPL1	3636	broad.mit.edu	37	chr11	71942192	71942192	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcgagtggctggacctactgCgcgggggcctcaaggagctt	17	11	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:71942192C>T	uc001osf.2	+	12	1603	c.1456C>T	c.(1456-1458)CGC>TGC	p.R486C	INPPL1_uc001osg.2_Missense_Mutation_p.R244C	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	486					actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						GGACCTACTGCGCGGGGGCCT	0.602													11	352	---	---	---	---	PASS	T	71942192	T	T	71942192	3	4	33	1	0	0	0	0	1	0	0	0	7761	768	27	1	1502	1	INPPL1	11	71942192	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	5654972	71942192	63064324	242	13509										
ATG16L2	89849	broad.mit.edu	37	chr11	72539536	72539536	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	atcgacctgcgtgtcagcaaCatccgccaggtgttcaggta	11	12	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:72539536C>G	uc001otd.2	+	15	1645	c.1605C>G	c.(1603-1605)AAC>AAG	p.N535K	ATG16L2_uc001ote.2_Missense_Mutation_p.N429K|ATG16L2_uc009ytj.1_Missense_Mutation_p.H151D|ATG16L2_uc001otf.2_Missense_Mutation_p.N290K|ATG16L2_uc001otg.2_Missense_Mutation_p.N269K|ATG16L2_uc009ytk.2_Missense_Mutation_p.N290K	NM_033388	NP_203746	Q8NAA4	A16L2_HUMAN	ATG16 autophagy related 16-like 2	535	WD 5.				autophagy|protein transport	cytoplasm	protein binding				0			BRCA - Breast invasive adenocarcinoma(5;2.73e-06)			GTGTCAGCAACATCCGCCAGG	0.597													30	165	---	---	---	---	PASS	G	72539536	G	G	72539536	3	3	33	1	0	0	0	0	1	0	0	0	1092	477	17	4	1663	4	ATG16L2	11	72539536	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	597344	72539536	62466980	243	13510										
C11orf82	220042	broad.mit.edu	37	chr11	82644184	82644184	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgtgttataggaagtataatGatgtctctgatctttgcaaa	9	4	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:82644184G>A	uc001ozt.2	+	6	2048	c.1804G>A	c.(1804-1806)GAT>AAT	p.D602N	C11orf82_uc010rsr.1_Missense_Mutation_p.D301N|C11orf82_uc010rss.1_Missense_Mutation_p.D301N|C11orf82_uc009yvd.2_Intron	NM_145018	NP_659455	Q8IXT1	NOXIN_HUMAN	nitric oxide-inducible gene protein	602					apoptosis|cell cycle arrest	cytoplasm|nucleus				ovary(2)	2						GAAGTATAATGATGTCTCTGA	0.308													28	80	---	---	---	---	PASS	A	82644184	A	A	82644184	3	1	33	1	0	0	0	0	1	0	0	0	1665	1290	45	2	1818	2	C11orf82	11	82644184	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	10104648	82644184	52362332	244	13511										
HEPHL1	341208	broad.mit.edu	37	chr11	93806196	93806196	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cctatgtcttttcagtgactCtgatctctacttcacacaag	5	12	5	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:93806196C>G	uc001pep.2	+	7	1395	c.1238C>G	c.(1237-1239)TCT>TGT	p.S413C	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	413	Plastocyanin-like 3.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				TTCAGTGACTCTGATCTCTAC	0.358													20	35	---	---	---	---	PASS	G	93806196	G	G	93806196	3	3	33	1	0	0	0	0	1	0	0	0	7055	913	32	2	1264	2	HEPHL1	11	93806196	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	11162012	93806196	41200320	245	13512										
MMP20	9313	broad.mit.edu	37	chr11	102449824	102449824	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tactcctgaaaattcttcttCagtattctttggatagtctt	5	8	5	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:102449824C>T	uc001phc.2	-	9	1310	c.1297G>A	c.(1297-1299)GAA>AAA	p.E433K		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein	433	Hemopexin-like 3.				proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		AATTCTTCTTCAGTATTCTTT	0.308													24	665	---	---	---	---	PASS	T	102449824	T	T	102449824	3	4	33	1	0	0	0	0	1	0	0	0	9659	835	29	2	162	2	MMP20	11	102449824	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	8643628	102449824	32556692	246	13513										
CLDN25	644672	broad.mit.edu	37	chr11	113650528	113650528	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gggagtgactatggcctggaGtttccgtgcaaaagtccagc	14	9	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:113650528G>A	uc009yyw.1	+	1	11	c.11G>A	c.(10-12)AGT>AAT	p.S4N		NM_001101389	NP_001094859	C9JDP6	CLD25_HUMAN	claudin 25	4	Cytoplasmic (Potential).					integral to membrane|tight junction	structural molecule activity				0						ATGGCCTGGAGTTTCCGTGCA	0.547													61	119	---	---	---	---	PASS	A	113650528	A	A	113650528	3	1	33	1	0	0	0	0	1	0	0	0	3485	1029	36	3	13	3	CLDN25	11	113650528	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	11200704	113650528	21355988	247	13514										
DSCAML1	57453	broad.mit.edu	37	chr11	117303185	117303185	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gttgacagcttggctgaactCagcatctgtcacagggatgg	13	9	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr11:117303185C>A	uc001prh.1	-	30	5244	c.5242G>T	c.(5242-5244)GAG>TAG	p.E1748*		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1688	Cytoplasmic (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TGGCTGAACTCAGCATCTGTC	0.502													30	79	---	---	---	---	PASS	A	117303185	A	A	117303185	4	1	33	1	0	0	0	0	0	1	0	0	4769	835	29	2	1115	2	DSCAML1	11	117303185	Nonsense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	3652657	117303185	17703331	248	13515										
ZNF384	171017	broad.mit.edu	37	chr12	6776898	6776898	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctctaagagctggccaggtgCtccacctggatggtgctggt	14	11	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:6776898C>T	uc010sfh.1	-	11	1924	c.1716G>A	c.(1714-1716)GAG>GAA	p.E572E	ZNF384_uc001qpz.2_Silent_p.E511E|ZNF384_uc001qqa.2_Silent_p.E511E|ZNF384_uc001qqb.2_Silent_p.E495E|ZNF384_uc001qqc.2_Silent_p.E511E|ZNF384_uc001qqd.2_Silent_p.E456E|ZNF384_uc001qqe.2_Silent_p.E495E	NM_001135734	NP_001129206	Q8TF68	ZN384_HUMAN	nuclear matrix transcription factor 4 isoform d	572					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/ZNF384(4)	haematopoietic_and_lymphoid_tissue(4)|central_nervous_system(3)|kidney(1)	8						TGGCCAGGTGCTCCACCTGGA	0.552			T	EWSR1|TAF15 	ALL								46	407	---	---	---	---	PASS	T	6776898	T	T	6776898	2	4	33	1	0	0	0	0	0	0	0	1	17872	796	28	3		3	ZNF384	12	6776898	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08		6776898	127074997	249	13516										
ACSM4	341392	broad.mit.edu	37	chr12	7457012	7457012	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcttacacaaagatcaccagCtttggacgcctctgactctt	7	13	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:7457012C>A	uc001qsx.1	+	1	85	c.85C>A	c.(85-87)CTT>ATT	p.L29I		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	29					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						AGATCACCAGCTTTGGACGCC	0.473													157	174	---	---	---	---	PASS	A	7457012	A	A	7457012	3	1	33	1	0	0	0	0	1	0	0	0	186	797	28	3	87	3	ACSM4	12	7457012	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	680114	7457012	126394883	250	13517										
APOBEC1	339	broad.mit.edu	37	chr12	7805100	7805100	+	Frame_Shift_Del	DEL	G	-	-													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cctgagaccttgccgattttGttgatccatgtgccaaaaaa							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:7805100delG	uc001qtb.2	-	3	410	c.376delC	c.(376-378)CAAfs	p.Q126fs	APOBEC1_uc001qtc.2_Frame_Shift_Del_p.Q81fs|APOBEC1_uc010sgf.1_Frame_Shift_Del_p.Q126fs	NM_001644	NP_001635	P41238	ABEC1_HUMAN	apolipoprotein B mRNA editing enzyme	126					cytidine to uridine editing|DNA demethylation|lipid metabolic process|mRNA modification|mRNA processing|negative regulation of methylation-dependent chromatin silencing	nucleoplasm	cytidine deaminase activity|RNA binding|zinc ion binding				0						TGCCGATTTTGTTGATCCATG	0.438													104	99	---	---	---	---		-	7805100	-	-	7805100	7	5	33	1	0	1	0	1	0	0	0	0	787	1386	48	0	346	0	APOBEC1	12	7805100	Frame_Shift_Del	DEL	G	TCGA-22-1016-01A-01D-1521-08	348088	7805100	126046795	251	13518										
A2ML1	144568	broad.mit.edu	37	chr12	9010650	9010650	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	atggcaggaaaccagctcccCagtggctgctatgccaacgt	11	13	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:9010650C>G	uc001quz.3	+	26	3314	c.3216C>G	c.(3214-3216)CCC>CCG	p.P1072P	A2ML1_uc001qva.1_Silent_p.P652P|A2ML1_uc010sgm.1_Silent_p.P572P	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	916						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						ACCAGCTCCCCAGTGGCTGCT	0.522													95	73	---	---	---	---	PASS	G	9010650	G	G	9010650	2	3	33	1	0	0	0	0	0	0	0	1	5	581	21	4		4	A2ML1	12	9010650	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	1205550	9010650	124841245	252	13519										
ITPR2	3709	broad.mit.edu	37	chr12	26868762	26868762	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gctggtgttgcaattgacagCattcacctattaatgaagaa	9	7	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:26868762C>G	uc001rhg.2	-	7	1048	c.631G>C	c.(631-633)GCT>CCT	p.A211P		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	211	Cytoplasmic (Potential).|MIR 2.				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)					CAATTGACAGCATTCACCTAT	0.328													23	95	---	---	---	---	PASS	G	26868762	G	G	26868762	3	3	33	1	0	0	0	0	1	0	0	0	7921	710	25	4	7678	4	ITPR2	12	26868762	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	17858112	26868762	106983133	253	13520										
NELL2	4753	broad.mit.edu	37	chr12	44913981	44913981	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	attcacactccacatctgggCaaggcaggggccaacaatca	9	13	3	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:44913981C>A	uc001rog.2	-	19	2802	c.2207G>T	c.(2206-2208)TGC>TTC	p.C736F	NELL2_uc001rof.3_Missense_Mutation_p.C735F|NELL2_uc001roh.2_Missense_Mutation_p.C736F|NELL2_uc009zkd.2_Missense_Mutation_p.C688F|NELL2_uc010skz.1_Missense_Mutation_p.C786F|NELL2_uc010sla.1_Missense_Mutation_p.C759F	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	736	VWFC 4.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		CACATCTGGGCAAGGCAGGGG	0.557													7	46	---	---	---	---	PASS	A	44913981	A	A	44913981	3	1	33	1	0	0	0	0	1	0	0	0	10334	710	25	3	251	3	NELL2	12	44913981	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	18045219	44913981	88937914	254	13521										
NELL2	4753	broad.mit.edu	37	chr12	45097609	45097609	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagatggaattctccatgcaGttatgcctttcagaacaaaa	7	9	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:45097609G>A	uc001rog.2	-	12	1813	c.1218C>T	c.(1216-1218)AAC>AAT	p.N406N	NELL2_uc001rof.3_Silent_p.N405N|NELL2_uc001roh.2_Silent_p.N406N|NELL2_uc009zkd.2_Silent_p.N405N|NELL2_uc010skz.1_Silent_p.N456N|NELL2_uc010sla.1_Silent_p.N429N|NELL2_uc001roi.1_Silent_p.N406N|NELL2_uc010slb.1_Silent_p.N405N|NELL2_uc001roj.2_Silent_p.N406N	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	406	EGF-like 1.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		TCTCCATGCAGTTATGCCTTT	0.353													42	74	---	---	---	---	PASS	A	45097609	A	A	45097609	2	1	33	1	0	0	0	0	0	0	0	1	10334	1020	36	3		3	NELL2	12	45097609	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	183628	45097609	88754286	255	13522										
VDR	7421	broad.mit.edu	37	chr12	48238763	48238763	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcctggatggcctcaatcagCgcggcgtcctgcaccccagg	12	16	2	0	rs4987032		TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:48238763C>T	uc001rqm.2	-	11	1332	c.1050G>A	c.(1048-1050)GCG>GCA	p.A350A	VDR_uc001rql.2_Silent_p.A400A|VDR_uc001rqn.2_Silent_p.A350A|VDR_uc010slq.1_Silent_p.A318A	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	350	Ligand-binding.				decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	CCTCAATCAGCGCGGCGTCCT	0.652													20	125	---	---	---	---	PASS	T	48238763	T	T	48238763	2	4	33	1	0	0	0	0	0	0	0	1	17146	755	27	1		1	VDR	12	48238763	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	3141154	48238763	85613132	256	13523										
COL2A1	1280	broad.mit.edu	37	chr12	48371186	48371186	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aggggctccaggagctcccaCagcaccagtctcaccacgat	10	16	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:48371186C>A	uc001rqu.2	-	46	3371	c.3190G>T	c.(3190-3192)GTG>TTG	p.V1064L	COL2A1_uc001rqt.2_5'Flank|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.V995L	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1064	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	GGAGCTCCCACAGCACCAGTC	0.582													14	34	---	---	---	---	PASS	A	48371186	A	A	48371186	3	1	33	1	0	0	0	0	1	0	0	0	3687	478	17	3	1309	3	COL2A1	12	48371186	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	132423	48371186	85480709	257	13524										
DDX23	9416	broad.mit.edu	37	chr12	49230390	49230390	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aatgacctccaagatgtgtgGgggcagagaagagtctttcc	13	8	1	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:49230390G>A	uc001rsm.2	-	10	1289	c.1198C>T	c.(1198-1200)CCA>TCA	p.P400S		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	400	Q motif.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6						AAGATGTGTGGGGGCAGAGAA	0.512													35	204	---	---	---	---	PASS	A	49230390	A	A	49230390	3	1	33	1	0	0	0	0	1	0	0	0	4350	1232	43	3	1296	3	DDX23	12	49230390	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	859204	49230390	84621505	258	13525										
MLL2	8085	broad.mit.edu	37	chr12	49431142	49431142	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gagggcatgagctggtggctGggtgggcatcagtggctggg	22	6	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:49431142G>A	uc001rta.3	-	34	9997	c.9997C>T	c.(9997-9999)CAG>TAG	p.Q3333*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3333	Gln-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GCTGGTGGCTGGGTGGGCATC	0.617			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			12	15	---	---	---	---	PASS	A	49431142	A	A	49431142	4	1	33	1	0	0	0	0	0	1	0	0	9621	1357	47	3	6700	3	MLL2	12	49431142	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	200752	49431142	84420753	259	13526										
TUBA1A	7846	broad.mit.edu	37	chr12	49579509	49579509	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctcaatatcgaggtttctacGacagatgtcatagatggcct	9	9	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:49579509G>A	uc009zlf.2	-	4	912	c.640C>T	c.(640-642)CGT>TGT	p.R214C	TUBA1B_uc001rto.2_Intron|TUBA1A_uc001rtp.2_Missense_Mutation_p.R214C|TUBA1A_uc001rtq.2_Missense_Mutation_p.R61C|TUBA1A_uc001rtr.2_Missense_Mutation_p.R61C|TUBA1A_uc009zlg.2_Missense_Mutation_p.R61C	NM_006009	NP_006000	Q71U36	TBA1A_HUMAN	tubulin, alpha 1a	214					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|structural molecule activity				0						AGGTTTCTACGACAGATGTCA	0.473													65	161	---	---	---	---	PASS	A	49579509	A	A	49579509	3	1	33	1	0	0	0	0	1	0	0	0	16740	1058	37	2	719	2	TUBA1A	12	49579509	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	148367	49579509	84272386	260	13527										
SPATS2	65244	broad.mit.edu	37	chr12	49918540	49918540	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgtgtccttgagtagcccaaGtgatgcctctgctgcttcct	10	12	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:49918540G>C	uc001rud.2	+	13	2176	c.1187G>C	c.(1186-1188)AGT>ACT	p.S396T	SPATS2_uc001rue.2_RNA|SPATS2_uc009zli.1_Missense_Mutation_p.S396T|SPATS2_uc001ruf.2_Missense_Mutation_p.S396T|SPATS2_uc001rug.2_Missense_Mutation_p.S396T	NM_023071	NP_075559	Q86XZ4	SPAS2_HUMAN	spermatogenesis associated, serine-rich 2	396	Ser-rich.					cytoplasm				breast(1)	1						AGTAGCCCAAGTGATGCCTCT	0.478													34	216	---	---	---	---	PASS	C	49918540	C	C	49918540	3	2	33	1	0	0	0	0	1	0	0	0	15018	1029	36	4	1229	4	SPATS2	12	49918540	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	339031	49918540	83933355	261	13528										
MCRS1	10445	broad.mit.edu	37	chr12	49958314	49958314	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	taccaacgctcctggacctcCcgaagggtgaagcggcagct	12	14	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:49958314C>A	uc001ruk.1	-	6	698	c.507G>T	c.(505-507)CGG>CGT	p.R169R	MCRS1_uc001rui.1_Silent_p.R182R|MCRS1_uc001ruj.1_Silent_p.R156R|MCRS1_uc001rul.1_Silent_p.R169R|MCRS1_uc009zlj.1_5'UTR|MCRS1_uc001rum.1_Silent_p.R156R|MCRS1_uc001run.1_Silent_p.R169R	NM_006337	NP_006328	Q96EZ8	MCRS1_HUMAN	microspherule protein 1 isoform 1	169					DNA recombination|DNA repair|protein modification process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|MLL1 complex|nucleolus	protein binding			large_intestine(1)	1						CCTGGACCTCCCGAAGGGTGA	0.597													9	30	---	---	---	---	PASS	A	49958314	A	A	49958314	2	1	33	1	0	0	0	0	0	0	0	1	9399	610	22	3		3	MCRS1	12	49958314	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	39774	49958314	83893581	262	13529										
ANKRD52	283373	broad.mit.edu	37	chr12	56648716	56648716	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	acattcaggctggctcccttGttgaggagcaggttcaccgt	12	11	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:56648716G>T	uc001skm.3	-	6	573	c.483C>A	c.(481-483)AAC>AAA	p.N161K	ANKRD52_uc001skn.1_RNA	NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	161	ANK 5.						protein binding			ovary(2)	2						TGGCTCCCTTGTTGAGGAGCA	0.498													15	124	---	---	---	---	PASS	T	56648716	T	T	56648716	3	4	33	1	0	0	0	0	1	0	0	0	678	1368	48	3	2839	3	ANKRD52	12	56648716	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	6690402	56648716	77203179	263	13530										
PTPRR	5801	broad.mit.edu	37	chr12	71050497	71050497	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cactcacctatccatacgaaGctggcagacaatgcttagtg	8	12	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:71050497G>T	uc001swi.1	-	13	2283	c.1867C>A	c.(1867-1869)CTT>ATT	p.L623I	PTPRR_uc001swf.1_RNA|PTPRR_uc001swg.1_RNA|PTPRR_uc001swh.1_Missense_Mutation_p.L378I|PTPRR_uc009zrs.2_Missense_Mutation_p.L472I|PTPRR_uc010stq.1_Missense_Mutation_p.L511I	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	623	Tyrosine-protein phosphatase.|Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		TCCATACGAAGCTGGCAGACA	0.458													45	212	---	---	---	---	PASS	T	71050497	T	T	71050497	3	4	33	1	0	0	0	0	1	0	0	0	12810	971	34	3	114	3	PTPRR	12	71050497	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	14401781	71050497	62801398	264	13531										
RAB21	23011	broad.mit.edu	37	chr12	72176356	72176356	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tacttttttttaaggtatgcAgaatctgtgggagcaaaaca	9	5	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:72176356A>T	uc001swt.2	+	6	705	c.453A>T	c.(451-453)GCA>GCT	p.A151A		NM_014999	NP_055814	Q9UL25	RAB21_HUMAN	RAB21, member RAS oncogene family	151					protein transport|small GTPase mediated signal transduction	cleavage furrow|cytoplasmic vesicle membrane|early endosome membrane|endoplasmic reticulum membrane|Golgi membrane	GDP binding|GTP binding|GTPase activity|protein binding				0						TAAGGTATGCAGAATCTGTGG	0.299													27	73	---	---	---	---	PASS	T	72176356	T	T	72176356	2	4	33	1	0	0	0	0	0	0	0	1	12908	175	7	5		5	RAB21	12	72176356	Silent	SNP	A	TCGA-22-1016-01A-01D-1521-08	1125859	72176356	61675539	265	13532										
TPH2	121278	broad.mit.edu	37	chr12	72332809	72332809	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tttccagtaaatactgggcaCggagagggttttccctggat	12	8	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:72332809C>T	uc009zrw.1	+	1	184	c.43C>T	c.(43-45)CGG>TGG	p.R15W	TPH2_uc001swy.2_5'Flank	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	15					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	ATACTGGGCACGGAGAGGGTT	0.498											OREG0021996	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	126	---	---	---	---	PASS	T	72332809	T	T	72332809	3	4	33	1	0	0	0	0	1	0	0	0	16399	527	19	1	45	1	TPH2	12	72332809	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	156453	72332809	61519086	266	13533										
DUSP6	1848	broad.mit.edu	37	chr12	89745570	89745570	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcgccgggtgaagcggtcccGgtcctcgccgcgcgtgaaga	17	14	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:89745570G>A	uc001tay.2	-	1	727	c.247C>T	c.(247-249)CGG>TGG	p.R83W	DUSP6_uc001taz.2_Missense_Mutation_p.R83W	NM_001946	NP_001937	Q16828	DUS6_HUMAN	dual specificity phosphatase 6 isoform a	83	Rhodanese.				dorsal/ventral pattern formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|nerve growth factor receptor signaling pathway|positive regulation of apoptosis|regulation of endodermal cell fate specification|regulation of fibroblast growth factor receptor signaling pathway|regulation of heart growth|response to nitrosative stress|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|nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0						AAGCGGTCCCGGTCCTCGCCG	0.682													8	13	---	---	---	---	PASS	A	89745570	A	A	89745570	3	1	33	1	0	0	0	0	1	0	0	0	4829	1115	39	1	910	1	DUSP6	12	89745570	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	17412761	89745570	44106325	267	13534										
KERA	11081	broad.mit.edu	37	chr12	91449570	91449570	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agggtcaggttctccagattGctaaaggtcccttgaggaat	12	8	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:91449570G>A	uc001tbl.2	-	2	1108	c.489C>T	c.(487-489)AGC>AGT	p.S163S		NM_007035	NP_008966	O60938	KERA_HUMAN	keratocan precursor	163	LRR 4.				response to stimulus|visual perception	proteinaceous extracellular matrix				skin(1)	1						TCTCCAGATTGCTAAAGGTCC	0.403													53	296	---	---	---	---	PASS	A	91449570	A	A	91449570	2	1	33	1	0	0	0	0	0	0	0	1	8143	1310	46	3		3	KERA	12	91449570	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	1704000	91449570	42402325	268	13535										
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100453798	100453798	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aaactgtagtgcattcagctGgctatagaggttgggagatg	14	5	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:100453798G>A	uc001tgq.2	-	13	1802	c.1573C>T	c.(1573-1575)CAG>TAG	p.Q525*	UHRF1BP1L_uc001tgp.2_Nonsense_Mutation_p.Q175*	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	525										ovary(2)	2						GCATTCAGCTGGCTATAGAGG	0.343													30	82	---	---	---	---	PASS	A	100453798	A	A	100453798	4	1	33	1	0	0	0	0	0	1	0	0	16966	1357	47	3	2857	3	UHRF1BP1L	12	100453798	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	9004228	100453798	33398097	269	13536										
ACAD10	80724	broad.mit.edu	37	chr12	112191650	112191650	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcggacatcgcgcagtcgcgCgtggagattgagcaggcacg	17	11	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:112191650C>T	uc001tsq.2	+	19	3092	c.2892C>T	c.(2890-2892)CGC>CGT	p.R964R	ACAD10_uc009zvx.2_Silent_p.R995R|ACAD10_uc001tss.1_Intron	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	964							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						CGCAGTCGCGCGTGGAGATTG	0.657											OREG0022130	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	40	---	---	---	---	PASS	T	112191650	T	T	112191650	2	4	33	1	0	0	0	0	0	0	0	1	108	755	27	1		1	ACAD10	12	112191650	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	11737852	112191650	21660245	270	13537										
BCL7A	605	broad.mit.edu	37	chr12	122481907	122481907	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtgcccagcgacggcaccgaGgccaaggtggatgaggccca	16	13	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:122481907G>T	uc001ubp.2	+	4	524	c.387G>T	c.(385-387)GAG>GAT	p.E129D	BCL7A_uc001ubo.2_Missense_Mutation_p.E129D	NM_001024808	NP_001019979	Q4VC05	BCL7A_HUMAN	B-cell CLL/lymphoma 7A isoform b	129					negative regulation of transcription, DNA-dependent					ovary(1)|lung(1)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000202)|Epithelial(86;0.000386)|BRCA - Breast invasive adenocarcinoma(302;0.231)		ACGGCACCGAGGCCAAGGTGG	0.647			T	MYC	BNHL								25	136	---	---	---	---	PASS	T	122481907	T	T	122481907	3	4	33	1	0	0	0	0	1	0	0	0	1378	991	35	3	401	3	BCL7A	12	122481907	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	10290257	122481907	11369988	271	13538										
KNTC1	9735	broad.mit.edu	37	chr12	123089137	123089137	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcaagatatctgctttgaaaTtctgcctttatttagctgag	7	7	3	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:123089137T>C	uc001ucv.2	+	49	5291	c.5128T>C	c.(5128-5130)TTC>CTC	p.F1710L	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	1710					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		TGCTTTGAAATTCTGCCTTTA	0.318													16	54	---	---	---	---	PASS	C	123089137	C	C	123089137	3	2	33	1	0	0	0	0	1	0	0	0	8428	1493	52	5	5318	5	KNTC1	12	123089137	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	607230	123089137	10762758	272	13539										
SLC15A4	121260	broad.mit.edu	37	chr12	129285415	129285415	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcacctgcgatacttgcaaaGatctcgctgatcccaatcag	7	13	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:129285415G>C	uc001uhu.2	-	6	1451	c.1398C>G	c.(1396-1398)ATC>ATG	p.I466M	SLC15A4_uc001uhv.2_RNA	NM_145648	NP_663623	Q8N697	S15A4_HUMAN	solute carrier family 15, member 4	466	Helical; (Potential).				oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.69e-06)|Epithelial(86;1.17e-05)|all cancers(50;5.07e-05)		TACTTGCAAAGATCTCGCTGA	0.542													26	74	---	---	---	---	PASS	C	129285415	C	C	129285415	3	2	33	1	0	0	0	0	1	0	0	0	14401	932	33	2	347	2	SLC15A4	12	129285415	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	6196278	129285415	4566480	273	13540										
PIWIL1	9271	broad.mit.edu	37	chr12	130827641	130827641	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agcaggaggaacagccaagtCacaaggtgaagagaaagtaa	13	6	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr12:130827641C>A	uc001uik.2	+	3	275	c.185C>A	c.(184-186)TCA>TAA	p.S62*	PIWIL1_uc001uij.1_Nonsense_Mutation_p.S62*	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	62					gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		ACAGCCAAGTCACAAGGTGAA	0.433													20	44	---	---	---	---	PASS	A	130827641	A	A	130827641	4	1	33	1	0	0	0	0	0	1	0	0	11957	838	29	2	191	2	PIWIL1	12	130827641	Nonsense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	1542226	130827641	3024254	274	13541										
ATP12A	479	broad.mit.edu	37	chr13	25280467	25280467	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctagggatgccaaggccgctGtggtgactggcatggagctg	17	9	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr13:25280467G>T	uc001upp.2	+	15	2222	c.2035G>T	c.(2035-2037)GTG>TTG	p.V679L	ATP12A_uc010aaa.2_Missense_Mutation_p.V685L	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	679	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	CAAGGCCGCTGTGGTGACTGG	0.557													16	81	---	---	---	---	PASS	T	25280467	T	T	25280467	3	4	33	1	0	0	0	0	1	0	0	0	1122	1377	48	3	2111	3	ATP12A	13	25280467	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08		25280467	89889411	275	13542										
NBEA	26960	broad.mit.edu	37	chr13	35672485	35672485	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cttaaaagttcagtagccatGcaagaacagatgctgggtgg	12	7	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr13:35672485G>T	uc001uvb.2	+	12	1829	c.1623G>T	c.(1621-1623)ATG>ATT	p.M541I		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	541						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CAGTAGCCATGCAAGAACAGA	0.368													6	9	---	---	---	---	PASS	T	35672485	T	T	35672485	3	4	33	1	0	0	0	0	1	0	0	0	10187	1319	46	3	1665	3	NBEA	13	35672485	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	10392018	35672485	79497393	276	13543										
STOML3	161003	broad.mit.edu	37	chr13	39541076	39541076	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttcttctcggtggctaccgtGctcaaggtctgcaggtagcg	13	11	4	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr13:39541076G>T	uc001uwx.2	-	7	900	c.762C>A	c.(760-762)AGC>AGA	p.S254R	STOML3_uc010tez.1_Missense_Mutation_p.S245R	NM_145286	NP_660329	Q8TAV4	STML3_HUMAN	stomatin-like 3 isoform 1	254	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Lung NSC(96;1.42e-05)|Prostate(109;0.00851)|Breast(139;0.0199)|Lung SC(185;0.0743)		all cancers(112;2.93e-08)|Epithelial(112;3.64e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00107)|BRCA - Breast invasive adenocarcinoma(63;0.00349)|GBM - Glioblastoma multiforme(144;0.0137)		TGGCTACCGTGCTCAAGGTCT	0.507													38	81	---	---	---	---	PASS	T	39541076	T	T	39541076	3	4	33	1	0	0	0	0	1	0	0	0	15314	1310	46	3	117	3	STOML3	13	39541076	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	3868591	39541076	75628802	277	13544										
C13orf23	80209	broad.mit.edu	37	chr13	39596551	39596551	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cctgcattgttataagcaccTaaaataaaaacacaatagaa	4	8	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr13:39596551T>A	uc001uwy.2	-	9	1517	c.644_splice	c.e9-1	p.S215_splice	C13orf23_uc001uwz.2_Splice_Site_p.S193_splice	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1											ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		TATAAGCACCTAAAATAAAAA	0.363													46	117	---	---	---	---	PASS	A	39596551	A	A	39596551	5	1	33	1	0	0	0	0	0	0	1	0	1721	1536	53	5	2212	5	C13orf23	13	39596551	Splice_Site	SNP	T	TCGA-22-1016-01A-01D-1521-08	55475	39596551	75573327	278	13545										
GPC5	2262	broad.mit.edu	37	chr13	92380805	92380805	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggtaaataggatttgtggccGccctgtaagaacacccacac	10	11	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr13:92380805G>T	uc010tif.1	+	4	1406	c.1040G>T	c.(1039-1041)CGC>CTC	p.R347L		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	347						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				ATTTGTGGCCGCCCTGTAAGA	0.418													63	137	---	---	---	---	PASS	T	92380805	T	T	92380805	3	4	33	1	0	0	0	0	1	0	0	0	6601	1087	38	1	1054	1	GPC5	13	92380805	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	52784254	92380805	22789073	279	13546										
UGGT2	55757	broad.mit.edu	37	chr13	96555254	96555254	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tctagaaatagctgtgttctCttcatttatttttgatgtag	7	5	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr13:96555254C>A	uc001vmt.2	-	21	2526	c.2356G>T	c.(2356-2358)GAG>TAG	p.E786*		NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	786					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						GCTGTGTTCTCTTCATTTATT	0.338													43	100	---	---	---	---	PASS	A	96555254	A	A	96555254	4	1	33	1	0	0	0	0	0	1	0	0	16939	922	32	2	2270	2	UGGT2	13	96555254	Nonsense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	4174449	96555254	18614624	280	13547										
OR11H4	390442	broad.mit.edu	37	chr14	20711839	20711839	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	taacgactcctctttttaatCctctgatctatactcttcgt	3	12	4	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr14:20711839C>G	uc010tld.1	+	1	889	c.889C>G	c.(889-891)CCT>GCT	p.P297A		NM_001004479	NP_001004479	Q8NGC9	O11H4_HUMAN	olfactory receptor, family 11, subfamily H,	297	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.000888)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0146)		TCTTTTTAATCCTCTGATCTA	0.398													33	161	---	---	---	---	PASS	G	20711839	G	G	20711839	3	3	33	1	0	0	0	0	1	0	0	0	10928	855	30	2	891	2	OR11H4	14	20711839	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08		20711839	86637701	281	13548										
MYH6	4624	broad.mit.edu	37	chr14	23873957	23873957	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgtccttcttgccacggtcaCctatggctgcaatgctggca	10	13	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr14:23873957C>T	uc001wjv.2	-	7	672	c.605G>A	c.(604-606)GGT>GAT	p.G202D	MYH6_uc010akp.1_Missense_Mutation_p.G202D	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	202	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GCCACGGTCACCTATGGCTGC	0.592													16	53	---	---	---	---	PASS	T	23873957	T	T	23873957	3	4	33	1	0	0	0	0	1	0	0	0	10038	507	18	3	5346	3	MYH6	14	23873957	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	3162118	23873957	83475583	282	13549										
C14orf28	122525	broad.mit.edu	37	chr14	45373614	45373614	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttaggtgtggtggcttaagaGaattttcccaacgaattttc	10	6	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr14:45373614G>T	uc001wvo.2	+	4	897	c.631G>T	c.(631-633)GAA>TAA	p.E211*	C14orf28_uc001wvp.1_Nonsense_Mutation_p.E211*	NM_001017923	NP_001017923	Q4W4Y0	CN028_HUMAN	hypothetical protein LOC122525	211										ovary(1)	1						TGGCTTAAGAGAATTTTCCCA	0.388													45	253	---	---	---	---	PASS	T	45373614	T	T	45373614	4	4	33	1	0	0	0	0	0	1	0	0	1770	943	33	2	641	2	C14orf28	14	45373614	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	21499657	45373614	61975926	283	13550										
SOS2	6655	broad.mit.edu	37	chr14	50623787	50623787	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	actgattggctgctcgccttTctctattgccaatttgtctg	8	11	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr14:50623787T>A	uc001wxs.3	-	12	2085	c.1987A>T	c.(1987-1989)AAA>TAA	p.K663*	SOS2_uc010tql.1_Nonsense_Mutation_p.K630*|SOS2_uc010tqm.1_RNA|SOS2_uc001wxt.2_Nonsense_Mutation_p.K351*	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	663	N-terminal Ras-GEF.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TGCTCGCCTTTCTCTATTGCC	0.363													13	52	---	---	---	---	PASS	A	50623787	A	A	50623787	4	1	33	1	0	0	0	0	0	1	0	0	14937	1792	62	5	2059	5	SOS2	14	50623787	Nonsense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	5250173	50623787	56725753	284	13551										
C14orf101	54916	broad.mit.edu	37	chr14	57052579	57052579	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctaccgcgtcaatcttctctGtggcttatttggagcagtag	10	10	3	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr14:57052579G>T	uc001xcm.2	+	3	415	c.293G>T	c.(292-294)TGT>TTT	p.C98F	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xck.2_Missense_Mutation_p.C98F|C14orf101_uc010aot.1_Missense_Mutation_p.C98F|C14orf101_uc001xcl.1_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_5'UTR	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	98	Helical; (Potential).					integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		AATCTTCTCTGTGGCTTATTT	0.413													31	225	---	---	---	---	PASS	T	57052579	T	T	57052579	3	4	33	1	0	0	0	0	1	0	0	0	1734	1377	48	3	303	3	C14orf101	14	57052579	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	6428792	57052579	50296961	285	13552										
GALNTL1	57452	broad.mit.edu	37	chr14	69813862	69813862	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttcctgcttggaatggggatCtgcagagggtctgccaagaa	14	8	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr14:69813862C>A	uc010aqu.1	+	13	1470	c.1377C>A	c.(1375-1377)ATC>ATA	p.I459I	GALNTL1_uc001xla.1_Silent_p.I459I|GALNTL1_uc001xlb.1_Silent_p.I459I	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	459	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		GAATGGGGATCTGCAGAGGGT	0.592											OREG0022763	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	64	---	---	---	---	PASS	A	69813862	A	A	69813862	2	1	33	1	0	0	0	0	0	0	0	1	6221	903	32	2		2	GALNTL1	14	69813862	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	12761283	69813862	37535678	286	13553										
LTBP2	4053	broad.mit.edu	37	chr14	75017795	75017795	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcacagtgttcaggtaacacCggcccagcagtcctcgaggc	11	14	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr14:75017795C>A	uc001xqa.2	-	7	2045	c.1658G>T	c.(1657-1659)CGG>CTG	p.R553L		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	553	TB 1.				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CAGGTAACACCGGCCCAGCAG	0.637													12	73	---	---	---	---	PASS	A	75017795	A	A	75017795	3	1	33	1	0	0	0	0	1	0	0	0	9074	652	23	1	3927	1	LTBP2	14	75017795	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	5203933	75017795	32331745	287	13554										
ISM2	145501	broad.mit.edu	37	chr14	77944917	77944917	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aggggtaggggctcatctcaCcaggacaggagggcaggtca	17	9	3	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr14:77944917C>G	uc001xtz.2	-	5	1188	c.1114_splice	c.e5+1	p.G372_splice	ISM2_uc001xua.2_Splice_Site_p.L256_splice|ISM2_uc001xty.2_Splice_Site_p.G284_splice|ISM2_uc010tvl.1_Splice_Site_p.G291_splice	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1							extracellular region				skin(1)	1						GCTCATCTCACCAGGACAGGA	0.637													26	73	---	---	---	---	PASS	G	77944917	G	G	77944917	5	3	33	1	0	0	0	0	0	0	1	0	7861	521	18	4	612	4	ISM2	14	77944917	Splice_Site	SNP	C	TCGA-22-1016-01A-01D-1521-08	2927122	77944917	29404623	288	13555										
DYNC1H1	1778	broad.mit.edu	37	chr14	102504837	102504837	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agttttgaacccggtgctgaAccgtgaagtgcggcgaacag	14	9	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr14:102504837A>T	uc001yks.2	+	58	11113	c.10949A>T	c.(10948-10950)AAC>ATC	p.N3650I		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3650	AAA 5 (By similarity).				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						CCGGTGCTGAACCGTGAAGTG	0.537													15	91	---	---	---	---	PASS	T	102504837	T	T	102504837	3	4	33	1	0	0	0	0	1	0	0	0	4841	43	2	5	11179	5	DYNC1H1	14	102504837	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	24559920	102504837	4844703	289	13556										
AHNAK2	113146	broad.mit.edu	37	chr14	105417279	105417279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttgcctggggcagacaccccGaacgacggcatcttgaactt	11	13	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr14:105417279G>T	uc010axc.1	-	7	4629	c.4509C>A	c.(4507-4509)TTC>TTA	p.F1503L	AHNAK2_uc001ypx.2_Missense_Mutation_p.F1403L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1503						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)			CAGACACCCCGAACGACGGCA	0.602													11	91	---	---	---	---	PASS	T	105417279	T	T	105417279	3	4	33	1	0	0	0	0	1	0	0	0	415	1049	37	2	12882	2	AHNAK2	14	105417279	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	2912442	105417279	1932261	290	13557										
SNRPN	6638	broad.mit.edu	37	chr15	25222129	25222129	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgccaattccccaggcccctGctggattggcaggccctgtc	11	16	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:25222129G>T	uc001ywp.1	+	10	1263	c.373G>T	c.(373-375)GCT>TCT	p.A125S	SNRPN_uc001ywq.1_Missense_Mutation_p.A125S|SNRPN_uc001ywr.1_Missense_Mutation_p.A125S|SNRPN_uc001yws.1_Missense_Mutation_p.A125S|SNRPN_uc001ywt.1_Missense_Mutation_p.A125S|SNRPN_uc001ywv.1_Missense_Mutation_p.A128S|SNRPN_uc001yww.1_Missense_Mutation_p.A125S|SNRPN_uc001ywx.1_Missense_Mutation_p.A125S|SNRPN_uc001ywz.1_Intron|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	125					RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		CCAGGCCCCTGCTGGATTGGC	0.587									Prader-Willi_syndrome				22	97	---	---	---	---	PASS	T	25222129	T	T	25222129	3	4	33	1	0	0	0	0	1	0	0	0	14870	1319	46	3	387	3	SNRPN	15	25222129	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08		25222129	77309263	291	13558										
OCA2	4948	broad.mit.edu	37	chr15	28116342	28116342	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttgtcaatcagggacgacgcCagggctgagacccacaccac	11	14	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:28116342C>A	uc001zbh.3	-	21	2312	c.2202G>T	c.(2200-2202)CTG>CTT	p.L734L	OCA2_uc010ayv.2_Silent_p.L710L	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	734	Helical; (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		GGGACGACGCCAGGGCTGAGA	0.577									Oculocutaneous_Albinism				6	77	---	---	---	---	PASS	A	28116342	A	A	28116342	2	1	33	1	0	0	0	0	0	0	0	1	10815	581	21	3		3	OCA2	15	28116342	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	2894213	28116342	74415050	292	13559										
RYR3	6263	broad.mit.edu	37	chr15	33925293	33925293	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagaataaaacaaggatggaCctatggcatccaacaggtaa	9	8	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:33925293C>A	uc001zhi.2	+	24	3081	c.3011C>A	c.(3010-3012)ACC>AAC	p.T1004N	RYR3_uc010bar.2_Missense_Mutation_p.T1004N	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1004	2.|4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CAAGGATGGACCTATGGCATC	0.413													12	70	---	---	---	---	PASS	A	33925293	A	A	33925293	3	1	33	1	0	0	0	0	1	0	0	0	13770	507	18	3	3105	3	RYR3	15	33925293	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	5808951	33925293	68606099	293	13560										
LTK	4058	broad.mit.edu	37	chr15	41796998	41796998	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctgtcttggatgtgaagatgCcctccaggaaggcctctggg	14	10	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:41796998C>T	uc001zoa.3	-	17	2271	c.2093G>A	c.(2092-2094)GGC>GAC	p.G698D	LTK_uc001zob.3_Missense_Mutation_p.G637D|LTK_uc010ucx.1_Missense_Mutation_p.G568D|LTK_uc010bcg.2_Missense_Mutation_p.G396D	NM_002344	NP_002335	P29376	LTK_HUMAN	leukocyte receptor tyrosine kinase isoform 1	698	Protein kinase.|Cytoplasmic (Potential).				apoptosis|cell proliferation|phosphatidylinositol 3-kinase cascade|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|central_nervous_system(1)	7		all_cancers(109;1.89e-19)|all_epithelial(112;2.28e-16)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.172)		OV - Ovarian serous cystadenocarcinoma(18;2.1e-17)|GBM - Glioblastoma multiforme(113;1.34e-06)|Colorectal(105;0.0148)|BRCA - Breast invasive adenocarcinoma(123;0.113)		TGTGAAGATGCCCTCCAGGAA	0.597										TSP Lung(18;0.14)			14	103	---	---	---	---	PASS	T	41796998	T	T	41796998	3	4	33	1	0	0	0	0	1	0	0	0	9080	739	26	3	517	3	LTK	15	41796998	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	7871705	41796998	60734394	294	13561										
TYRO3	7301	broad.mit.edu	37	chr15	41865899	41865899	+	Missense_Mutation	SNP	G	T	T													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggcgttcggggtgaccatgtGggagatcatgacacgtgggc							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:41865899G>T	uc001zof.1	+	18	2392	c.2168G>T	c.(2167-2169)TGG>TTG	p.W723L		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	723	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GTGACCATGTGGGAGATCATG	0.572													19	207	---	---	---	---	PASS	T	41865899	T	T	41865899	3	4	33	1	0	0	0	0	1	0	0	0	16811	1357	47	3	2238	3	TYRO3	15	41865899	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	68901	41865899	60665493	295	13562	354	2								
TYRO3	7301	broad.mit.edu	37	chr15	41865900	41865900	+	Missense_Mutation	SNP	G	T	T													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcgttcggggtgaccatgtgGgagatcatgacacgtgggca					rs138665905		TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:41865900G>T	uc001zof.1	+	18	2393	c.2169G>T	c.(2167-2169)TGG>TGT	p.W723C		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	723	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		TGACCATGTGGGAGATCATGA	0.572													19	206	---	---	---	---	PASS	T	41865900	T	T	41865900	3	4	33	1	0	0	0	0	1	0	0	0	16811	1241	43	3	2239	3	TYRO3	15	41865900	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	1	41865900	60665492	296	13563	354	2								
PLA2G4F	255189	broad.mit.edu	37	chr15	42439472	42439472	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttactgctgcagacgtgaacCtgggcacgctcaatggggcc	13	12	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:42439472C>A	uc001zoz.2	-	13	1332	c.1269G>T	c.(1267-1269)CAG>CAT	p.Q423H	PLA2G4F_uc010bcq.2_5'Flank|PLA2G4F_uc001zoy.2_Missense_Mutation_p.Q55H|PLA2G4F_uc010bcr.2_Missense_Mutation_p.Q174H|PLA2G4F_uc001zpa.2_Missense_Mutation_p.Q174H|PLA2G4F_uc010bcs.2_Missense_Mutation_p.Q210H	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	423	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		AGACGTGAACCTGGGCACGCT	0.622													17	89	---	---	---	---	PASS	A	42439472	A	A	42439472	3	1	33	1	0	0	0	0	1	0	0	0	12006	680	24	3	1312	3	PLA2G4F	15	42439472	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	573572	42439472	60091920	297	13564										
USP50	373509	broad.mit.edu	37	chr15	50822029	50822029	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gttgtatttaggatatttccGgaaaattgagcaaatataag	9	3	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:50822029G>A	uc001zyq.3	-	6	1096	c.916C>T	c.(916-918)CGG>TGG	p.R306W		NM_203494	NP_987090	E9PP86	E9PP86_HUMAN	ubiquitin specific protease 50	301					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			lung(1)|breast(1)	2				all cancers(107;0.000519)|GBM - Glioblastoma multiforme(94;0.00288)		GGATATTTCCGGAAAATTGAG	0.368													15	102	---	---	---	---	PASS	A	50822029	A	A	50822029	3	1	33	1	0	0	0	0	1	0	0	0	17079	1115	39	1	111	1	USP50	15	50822029	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	8382557	50822029	51709363	298	13565										
RNF111	54778	broad.mit.edu	37	chr15	59344503	59344503	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gttttttctttttgtttccaGgaagtattgatgaagatgtt	9	3	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:59344503G>A	uc002afv.2	+	3	1160	c.881_splice	c.e3-1	p.G294_splice	RNF111_uc002afs.2_Splice_Site_p.G294_splice|RNF111_uc002aft.2_Splice_Site_p.G294_splice|RNF111_uc002afu.2_Splice_Site_p.G294_splice|RNF111_uc002afw.2_Splice_Site_p.G294_splice	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111						multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		TTTGTTTCCAGGAAGTATTGA	0.368													35	170	---	---	---	---	PASS	A	59344503	A	A	59344503	5	1	33	1	0	0	0	0	0	0	1	0	13425	1014	35	3	886	3	RNF111	15	59344503	Splice_Site	SNP	G	TCGA-22-1016-01A-01D-1521-08	8522474	59344503	43186889	299	13566										
ISLR2	57611	broad.mit.edu	37	chr15	74425284	74425284	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agtctgtccgcgaacaagatCactgtgctgcggcgcggggc	15	12	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:74425284C>T	uc002axd.2	+	4	958	c.189C>T	c.(187-189)ATC>ATT	p.I63I	ISLR2_uc002axe.2_Silent_p.I63I|ISLR2_uc010bjg.2_Silent_p.I63I|ISLR2_uc010bjf.2_Silent_p.I63I	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	63	LRR 1.|Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CGAACAAGATCACTGTGCTGC	0.647													26	104	---	---	---	---	PASS	T	74425284	T	T	74425284	2	4	33	1	0	0	0	0	0	0	0	1	7859	816	29	2		2	ISLR2	15	74425284	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	15080781	74425284	28106108	300	13567			1	15		7	6	635	N	G_C	2.32672e-13
ISLR2	57611	broad.mit.edu	37	chr15	74425431	74425431	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctgagccacaacttcatatcCagctttccgtggagcgacct	8	14	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:74425431C>T	uc002axd.2	+	4	1105	c.336C>T	c.(334-336)TCC>TCT	p.S112S	ISLR2_uc002axe.2_Silent_p.S112S|ISLR2_uc010bjg.2_Silent_p.S112S|ISLR2_uc010bjf.2_Silent_p.S112S	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	112	LRR 3.|Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						ACTTCATATCCAGCTTTCCGT	0.637													16	136	---	---	---	---	PASS	T	74425431	T	T	74425431	2	4	33	1	0	0	0	0	0	0	0	1	7859	581	21	3		3	ISLR2	15	74425431	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	147	74425431	28105961	301	13568			1	15		7	6	635	N	G_C	2.32672e-13
ISLR2	57611	broad.mit.edu	37	chr15	74425535	74425535	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggacgcactcggtgcgctacCcgacctgcgttccctgcgca	12	17	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:74425535C>T	uc002axd.2	+	4	1209	c.440C>T	c.(439-441)CCC>CTC	p.P147L	ISLR2_uc002axe.2_Missense_Mutation_p.P147L|ISLR2_uc010bjg.2_Missense_Mutation_p.P147L|ISLR2_uc010bjf.2_Missense_Mutation_p.P147L	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	147	Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						GGTGCGCTACCCGACCTGCGT	0.637													15	117	---	---	---	---	PASS	T	74425535	T	T	74425535	3	4	33	1	0	0	0	0	1	0	0	0	7859	623	22	3	442	3	ISLR2	15	74425535	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	104	74425535	28105857	302	13569			1	15		7	6	635	N	G_C	2.32672e-13
ISLR2	57611	broad.mit.edu	37	chr15	74425602	74425602	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcgcctggcaccttcgacgcGcttagcgcgctgtcacactt	11	16	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:74425602G>T	uc002axd.2	+	4	1276	c.507G>T	c.(505-507)GCG>GCT	p.A169A	ISLR2_uc002axe.2_Silent_p.A169A|ISLR2_uc010bjg.2_Silent_p.A169A|ISLR2_uc010bjf.2_Silent_p.A169A	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	169	Extracellular (Potential).|LRR 5.				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CCTTCGACGCGCTTAGCGCGC	0.667													50	127	---	---	---	---	PASS	T	74425602	T	T	74425602	2	4	33	1	0	0	0	0	0	0	0	1	7859	1074	38	1		1	ISLR2	15	74425602	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	67	74425602	28105790	303	13570			1	15		7	6	635	N	G_C	2.32672e-13
ISLR2	57611	broad.mit.edu	37	chr15	74425682	74425682	+	Missense_Mutation	SNP	C	T	T													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgtgtggctgcaggcctgggCcgcgagcacccgggtgtcct							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:74425682C>T	uc002axd.2	+	4	1356	c.587C>T	c.(586-588)GCC>GTC	p.A196V	ISLR2_uc002axe.2_Missense_Mutation_p.A196V|ISLR2_uc010bjg.2_Missense_Mutation_p.A196V|ISLR2_uc010bjf.2_Missense_Mutation_p.A196V	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	196	Extracellular (Potential).|LRRCT.				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CAGGCCTGGGCCGCGAGCACC	0.692													13	141	---	---	---	---	PASS	T	74425682	T	T	74425682	3	4	33	1	0	0	0	0	1	0	0	0	7859	739	26	3	589	3	ISLR2	15	74425682	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	80	74425682	28105710	304	13571	355	2	1	15		7	6	635	N	G_C	2.32672e-13
ISLR2	57611	broad.mit.edu	37	chr15	74425689	74425689	+	Silent	SNP	C	T	T													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctgcaggcctgggccgcgagCacccgggtgtccttacccga							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:74425689C>T	uc002axd.2	+	4	1363	c.594C>T	c.(592-594)AGC>AGT	p.S198S	ISLR2_uc002axe.2_Silent_p.S198S|ISLR2_uc010bjg.2_Silent_p.S198S|ISLR2_uc010bjf.2_Silent_p.S198S	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	198	Extracellular (Potential).|LRRCT.				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						GGGCCGCGAGCACCCGGGTGT	0.682													13	142	---	---	---	---	PASS	T	74425689	T	T	74425689	2	4	33	1	0	0	0	0	0	0	0	1	7859	709	25	3		3	ISLR2	15	74425689	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	7	74425689	28105703	305	13572	355	2	1	15		7	6	635	N	G_C	2.32672e-13
ISLR2	57611	broad.mit.edu	37	chr15	74425918	74425918	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctcgcctgcaatggcaacttCagatccccggtggcaccgta	10	15	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:74425918C>T	uc002axd.2	+	4	1592	c.823C>T	c.(823-825)CAG>TAG	p.Q275*	ISLR2_uc002axe.2_Nonsense_Mutation_p.Q275*|ISLR2_uc010bjg.2_Nonsense_Mutation_p.Q275*|ISLR2_uc010bjf.2_Nonsense_Mutation_p.Q275*	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	275	Ig-like.|Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						ATGGCAACTTCAGATCCCCGG	0.463													5	69	---	---	---	---	PASS	T	74425918	T	T	74425918	4	4	33	1	0	0	0	0	0	1	0	0	7859	827	29	2	825	2	ISLR2	15	74425918	Nonsense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	229	74425918	28105474	306	13573			1	15		7	6	635	N	G_C	2.32672e-13
CYP1A1	1543	broad.mit.edu	37	chr15	75013047	75013047	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcaccttctcacttaacaccTtgtcgatagcaccatcaggg	6	14	3	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:75013047T>A	uc002ayp.3	-	7	1444	c.1322A>T	c.(1321-1323)AAG>ATG	p.K441M	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Missense_Mutation_p.K177M|CYP1A1_uc010bjx.2_Missense_Mutation_p.K177M|CYP1A1_uc002ayq.3_Missense_Mutation_p.K441M|CYP1A1_uc010bjy.2_Missense_Mutation_p.K412M	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	441					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	ACTTAACACCTTGTCGATAGC	0.522									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				36	231	---	---	---	---	PASS	A	75013047	A	A	75013047	3	1	33	1	0	0	0	0	1	0	0	0	4149	1609	56	5	220	5	CYP1A1	15	75013047	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	587129	75013047	27518345	307	13574										
ZSCAN2	54993	broad.mit.edu	37	chr15	85164479	85164479	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aaccgatccagccttaacacGcatcaggggatccacactgg	9	14	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:85164479G>A	uc002bkr.2	+	3	1279	c.1053G>A	c.(1051-1053)ACG>ACA	p.T351T	ZSCAN2_uc010bmz.1_Silent_p.T349T|ZSCAN2_uc010bna.2_Silent_p.T201T|ZSCAN2_uc010uox.1_Intron|ZSCAN2_uc010uoy.1_Intron|ZSCAN2_uc010uoz.1_Intron	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	351	C2H2-type 5.				cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		GCCTTAACACGCATCAGGGGA	0.507													48	217	---	---	---	---	PASS	A	85164479	A	A	85164479	2	1	33	1	0	0	0	0	0	0	0	1	18228	1074	38	1		1	ZSCAN2	15	85164479	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	10151432	85164479	17366913	308	13575										
WDR93	56964	broad.mit.edu	37	chr15	90286557	90286557	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agaagaacccagagaaggagGaggagcactgggcccggctt	16	9	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:90286557G>A	uc002boj.2	+	17	2097	c.1996G>A	c.(1996-1998)GAG>AAG	p.E666K	WDR93_uc010bnr.2_Missense_Mutation_p.E638K|WDR93_uc010upz.1_Missense_Mutation_p.E383K	NM_020212	NP_064597	Q6P2C0	WDR93_HUMAN	WD repeat domain 93	666					electron transport chain	mitochondrial inner membrane	oxidoreductase activity, acting on NADH or NADPH			ovary(2)	2	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			AGAGAAGGAGGAGGAGCACTG	0.587													5	129	---	---	---	---	PASS	A	90286557	A	A	90286557	3	1	33	1	0	0	0	0	1	0	0	0	17337	1175	41	2	2058	2	WDR93	15	90286557	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	5122078	90286557	12244835	309	13576										
SEMA4B	10509	broad.mit.edu	37	chr15	90771643	90771643	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagcgtgcaccccaagacctGccctgtggtgctgccccctg	11	18	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:90771643G>T	uc002boy.2	+	15	2565	c.2282G>T	c.(2281-2283)TGC>TTC	p.C761F	SEMA4B_uc002boz.2_Missense_Mutation_p.C761F|SEMA4B_uc010uqd.1_Missense_Mutation_p.C599F|SEMA4B_uc002bpa.2_Missense_Mutation_p.C599F|SEMA4B_uc010bnv.1_Intron	NM_020210	NP_064595			semaphorin 4B precursor											ovary(1)|breast(1)|kidney(1)	3	Melanoma(11;0.00551)|Lung NSC(78;0.0125)|all_lung(78;0.0272)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.217)			CCCAAGACCTGCCCTGTGGTG	0.637													5	25	---	---	---	---	PASS	T	90771643	T	T	90771643	3	4	33	1	0	0	0	0	1	0	0	0	14032	1319	46	3	2336	3	SEMA4B	15	90771643	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	485086	90771643	11759749	310	13577										
BLM	641	broad.mit.edu	37	chr15	91312729	91312729	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcttcgccagaagtttccttCtgttccggtgatggctctta	10	11	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:91312729C>T	uc002bpr.2	+	12	2565	c.2468C>T	c.(2467-2469)TCT>TTT	p.S823F	BLM_uc010uqh.1_Missense_Mutation_p.S823F|BLM_uc010uqi.1_Missense_Mutation_p.S448F|BLM_uc010bnx.2_Missense_Mutation_p.S823F|BLM_uc002bps.1_Missense_Mutation_p.S385F	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	823	Helicase ATP-binding.				double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			AAGTTTCCTTCTGTTCCGGTG	0.438			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				13	162	---	---	---	---	PASS	T	91312729	T	T	91312729	3	4	33	1	0	0	0	0	1	0	0	0	1445	913	32	2	2510	2	BLM	15	91312729	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	541086	91312729	11218663	311	13578										
ADAMTS17	170691	broad.mit.edu	37	chr15	100871232	100871232	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gaggggctggattagcacctGctcctgcccaagctgaatga	13	11	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr15:100871232G>C	uc002bvv.1	-	3	557	c.478C>G	c.(478-480)CAG>GAG	p.Q160E	ADAMTS17_uc002bvx.1_5'UTR	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	160					proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		ATTAGCACCTGCTCCTGCCCA	0.597													39	104	---	---	---	---	PASS	C	100871232	C	C	100871232	3	2	33	1	0	0	0	0	1	0	0	0	262	1328	46	4	2889	4	ADAMTS17	15	100871232	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	9558503	100871232	1660160	312	13579										
LMF1	64788	broad.mit.edu	37	chr16	919971	919971	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgctggggtcacctggcttgCacttgaactcgtagtcctcc	11	13	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:919971C>T	uc002ckj.2	-	9	1332	c.1328G>A	c.(1327-1329)TGC>TAC	p.C443Y	LMF1_uc010brg.2_5'Flank|LMF1_uc010brh.2_Missense_Mutation_p.C226Y|LMF1_uc010bri.2_Missense_Mutation_p.C206Y|LMF1_uc002ckk.2_Missense_Mutation_p.C226Y	NM_022773	NP_073610	Q96S06	LMF1_HUMAN	lipase maturation factor 1	443	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0		Hepatocellular(780;0.00308)				ACCTGGCTTGCACTTGAACTC	0.662													19	30	---	---	---	---	PASS	T	919971	T	T	919971	3	4	33	1	0	0	0	0	1	0	0	0	8845	710	25	3	387	3	LMF1	16	919971	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08		919971	89434782	313	13580										
BAIAP3	8938	broad.mit.edu	37	chr16	1394641	1394641	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctgggctggttgtgctggctGacgccgtctatgatgacctt	14	10	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:1394641G>T	uc002clk.1	+	19	1804	c.1804G>T	c.(1804-1806)GAC>TAC	p.D602Y	BAIAP3_uc002clj.2_Missense_Mutation_p.D584Y|BAIAP3_uc010uuz.1_Missense_Mutation_p.D567Y|BAIAP3_uc010uva.1_Missense_Mutation_p.D539Y|BAIAP3_uc010uvc.1_Missense_Mutation_p.D531Y	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	602					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				TGTGCTGGCTGACGCCGTCTA	0.647													94	226	---	---	---	---	PASS	T	1394641	T	T	1394641	3	4	33	1	0	0	0	0	1	0	0	0	1304	1290	45	2	1878	2	BAIAP3	16	1394641	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	474670	1394641	88960112	314	13581										
TBC1D24	57465	broad.mit.edu	37	chr16	2549416	2549416	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgctcatcaagaccacgcagAaggaggtgagcaggggccct	14	11	2	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:2549416A>C	uc002cql.2	+	5	1341	c.1201A>C	c.(1201-1203)AAG>CAG	p.K401Q	TBC1D24_uc002cqk.2_Missense_Mutation_p.K395Q|TBC1D24_uc002cqm.2_Intron|TBC1D24_uc010bsm.2_Intron	NM_020705	NP_065756	Q9ULP9	TBC24_HUMAN	TBC1 domain family, member 24	401	TLD.				neuron projection development	cytoplasm	protein binding|Rab GTPase activator activity				0						GACCACGCAGAAGGAGGTGAG	0.622													6	22	---	---	---	---	PASS	C	2549416	C	C	2549416	3	2	33	1	0	0	0	0	1	0	0	0	15611	247	9	5	1193	5	TBC1D24	16	2549416	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	1154775	2549416	87805337	315	13582										
CIITA	4261	broad.mit.edu	37	chr16	10996530	10996530	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgcagtgcctttctccagttCctcgttgagctgcctgaatc	9	13	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:10996530C>G	uc002dai.3	+	8	777	c.644C>G	c.(643-645)TCC>TGC	p.S215C	CIITA_uc002daj.3_Missense_Mutation_p.S216C|CIITA_uc002dak.3_Missense_Mutation_p.S166C|CIITA_uc002dag.2_Missense_Mutation_p.S215C|CIITA_uc002dah.2_Missense_Mutation_p.S167C|CIITA_uc010bup.1_Missense_Mutation_p.S215C	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	215					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						TTCTCCAGTTCCTCGTTGAGC	0.468			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								30	73	---	---	---	---	PASS	G	10996530	G	G	10996530	3	3	33	1	0	0	0	0	1	0	0	0	3428	855	30	2	674	2	CIITA	16	10996530	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	8447114	10996530	79358223	316	13583										
LITAF	9516	broad.mit.edu	37	chr16	11650373	11650373	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gaggccacacgtacttggatTgttattggggatgggcgctg	16	7	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:11650373T>A	uc002daz.2	-	2	447	c.214A>T	c.(214-216)AAT>TAT	p.N72Y	LITAF_uc002dba.2_Missense_Mutation_p.N72Y|LITAF_uc002dbb.2_Missense_Mutation_p.N72Y|LITAF_uc002dbc.2_Missense_Mutation_p.N72Y|LITAF_uc002dbd.2_Missense_Mutation_p.N72Y|LITAF_uc002dbe.3_Missense_Mutation_p.N72Y	NM_004862	NP_004853	Q99732	LITAF_HUMAN	lipopolysaccharide-induced TNF-alpha factor	72					apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|lysosomal membrane	signal transducer activity|WW domain binding			liver(1)	1						GTACTTGGATTGTTATTGGGG	0.577													8	52	---	---	---	---	PASS	A	11650373	A	A	11650373	3	1	33	1	0	0	0	0	1	0	0	0	8830	1812	63	5	369	5	LITAF	16	11650373	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	653843	11650373	78704380	317	13584										
TMC5	79838	broad.mit.edu	37	chr16	19475265	19475265	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttctcattcatcctgaacttCagcttcatcataatccctca	2	14	6	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:19475265C>T	uc002dgc.3	+	8	2153	c.1404C>T	c.(1402-1404)TTC>TTT	p.F468F	TMC5_uc010vaq.1_Silent_p.F468F|TMC5_uc002dgb.3_Silent_p.F468F|TMC5_uc010var.1_Silent_p.F468F|TMC5_uc002dgd.1_Silent_p.F222F|TMC5_uc002dge.3_Silent_p.F222F|TMC5_uc002dgf.3_Silent_p.F151F|TMC5_uc002dgg.3_Silent_p.F109F	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	468	Helical; (Potential).					integral to membrane				skin(1)	1						TCCTGAACTTCAGCTTCATCA	0.458													8	134	---	---	---	---	PASS	T	19475265	T	T	19475265	2	4	33	1	0	0	0	0	0	0	0	1	15985	825	29	2		2	TMC5	16	19475265	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	7824892	19475265	70879488	318	13585										
ACSM2A	123876	broad.mit.edu	37	chr16	20471532	20471532	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aatagtaggcaactggtgtcCctgcagtggggccaccagga	14	10	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:20471532C>A	uc010bwe.2	+	3	335	c.96C>A	c.(94-96)TCC>TCA	p.S32S	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Intron|ACSM2A_uc002dhf.3_Silent_p.S32S|ACSM2A_uc002dhg.3_Silent_p.S32S|ACSM2A_uc010vay.1_Intron	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	32					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						AACTGGTGTCCCTGCAGTGGG	0.512													47	78	---	---	---	---	PASS	A	20471532	A	A	20471532	2	1	33	1	0	0	0	0	0	0	0	1	183	610	22	3		3	ACSM2A	16	20471532	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	996267	20471532	69883221	319	13586										
SCNN1G	6340	broad.mit.edu	37	chr16	23208724	23208724	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	acagagattgagacagcaatGgtcacctctataggaatgca	10	8	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:23208724G>C	uc002dlm.1	+	6	1192	c.1053G>C	c.(1051-1053)ATG>ATC	p.M351I		NM_001039	NP_001030	P51170	SCNNG_HUMAN	sodium channel, nonvoltage-gated 1, gamma	351	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane|integral to plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(48;0.0366)	Amiloride(DB00594)|Triamterene(DB00384)	AGACAGCAATGGTCACCTCTA	0.463													17	69	---	---	---	---	PASS	C	23208724	C	C	23208724	3	2	33	1	0	0	0	0	1	0	0	0	13930	1348	47	4	1071	4	SCNN1G	16	23208724	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	2737192	23208724	67146029	320	13587										
HS3ST4	9951	broad.mit.edu	37	chr16	26147398	26147398	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttcccttgcctaaagaagccAgaagacagcagtgccccgag	10	13	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:26147398A>T	uc002dof.2	+	2	1592	c.1200A>T	c.(1198-1200)CCA>CCT	p.P400P		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	400	Lumenal (Potential).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		TAAAGAAGCCAGAAGACAGCA	0.473													18	53	---	---	---	---	PASS	T	26147398	T	T	26147398	2	4	33	1	0	0	0	0	0	0	0	1	7367	175	7	5		5	HS3ST4	16	26147398	Silent	SNP	A	TCGA-22-1016-01A-01D-1521-08	2938674	26147398	64207355	321	13588										
MMP15	4324	broad.mit.edu	37	chr16	58077461	58077461	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagcgtggagaccctgggtaCcccaagcccatcagtgtctg	12	14	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:58077461C>T	uc002ena.2	+	9	2473	c.1500C>T	c.(1498-1500)TAC>TAT	p.Y500Y		NM_002428	NP_002419	P51511	MMP15_HUMAN	matrix metalloproteinase 15 preproprotein	500	Hemopexin-like 3.|Extracellular (Potential).				protein modification process|proteolysis	extracellular matrix|integral to plasma membrane	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|protein binding|zinc ion binding			central_nervous_system(2)|breast(1)	3						ACCCTGGGTACCCCAAGCCCA	0.617													7	58	---	---	---	---	PASS	T	58077461	T	T	58077461	2	4	33	1	0	0	0	0	0	0	0	1	9654	518	18	3		3	MMP15	16	58077461	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	31930063	58077461	32277292	322	13589										
RANBP10	57610	broad.mit.edu	37	chr16	67765377	67765377	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aagtagaataaaccttacttTgtctgttctttatggacgcc	7	8	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:67765377T>G	uc002eud.2	-	7	1003	c.887A>C	c.(886-888)CAA>CCA	p.Q296P	RANBP10_uc010ceo.2_Missense_Mutation_p.Q67P|RANBP10_uc010vju.1_Missense_Mutation_p.Q240P|RANBP10_uc010vjv.1_Missense_Mutation_p.Q179P|RANBP10_uc010vjw.1_5'Flank|RANBP10_uc010vjx.1_Missense_Mutation_p.Q296P|RANBP10_uc010vjy.1_Missense_Mutation_p.Q164P	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	296	CTLH.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		AACCTTACTTTGTCTGTTCTT	0.488													17	68	---	---	---	---	PASS	G	67765377	G	G	67765377	3	3	33	1	0	0	0	0	1	0	0	0	13026	1812	63	5	1007	5	RANBP10	16	67765377	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	9687916	67765377	22589376	323	13590										
DPEP3	64180	broad.mit.edu	37	chr16	68012234	68012234	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagcacatagaaactgcgcaGcacagagaggctgctgtcca	11	12	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:68012234G>A	uc002evc.3	-	4	791	c.697C>T	c.(697-699)CTG>TTG	p.L233L	DPEP3_uc010cex.2_Silent_p.L233L	NM_022357	NP_071752	Q9H4B8	DPEP3_HUMAN	dipeptidase 3 isoform a	208					meiosis	anchored to membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			breast(3)	3		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0117)|Epithelial(162;0.0481)|all cancers(182;0.236)		AAACTGCGCAGCACAGAGAGG	0.552													10	97	---	---	---	---	PASS	A	68012234	A	A	68012234	2	1	33	1	0	0	0	0	0	0	0	1	4715	962	34	3		3	DPEP3	16	68012234	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	246857	68012234	22342519	324	13591										
CDH1	999	broad.mit.edu	37	chr16	68835620	68835620	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aaaggacagcctatttttccCtcgacacccgattcaaagtg	7	12	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:68835620C>T	uc002ewg.1	+	3	335	c.211C>T	c.(211-213)CTC>TTC	p.L71F	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.L71F	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	71				SL -> P (in Ref. 3; AAA61259).	adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding			breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		CTATTTTTCCCTCGACACCCG	0.458			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				41	198	---	---	---	---	PASS	T	68835620	T	T	68835620	3	4	33	1	0	0	0	0	1	0	0	0	3095	681	24	3	221	3	CDH1	16	68835620	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	823386	68835620	21519133	325	13592										
BCMO1	53630	broad.mit.edu	37	chr16	81314536	81314536	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctgaaggaagaagatggccaAgtctactgccagccggaatt	12	9	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:81314536A>G	uc002fgn.1	+	8	1394	c.1176A>G	c.(1174-1176)CAA>CAG	p.Q392Q	BCMO1_uc010vnp.1_Silent_p.Q323Q	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	392					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						AAGATGGCCAAGTCTACTGCC	0.443													4	57	---	---	---	---	PASS	G	81314536	G	G	81314536	2	3	33	1	0	0	0	0	0	0	0	1	1384	69	3	5		5	BCMO1	16	81314536	Silent	SNP	A	TCGA-22-1016-01A-01D-1521-08	12478916	81314536	9040217	326	13593										
DPEP1	1800	broad.mit.edu	37	chr16	89704357	89704357	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	actggctgacaacctgctgaGggtcttcgaggctgtggaac	14	10	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr16:89704357G>T	uc010cin.2	+	10	1246	c.1043G>T	c.(1042-1044)AGG>ATG	p.R348M	DPEP1_uc002fnr.3_Missense_Mutation_p.R348M|DPEP1_uc002fns.3_Missense_Mutation_p.R348M	NM_001128141	NP_001121613	P16444	DPEP1_HUMAN	dipeptidase 1 precursor	348					proteolysis	anchored to membrane|apical plasma membrane|microvillus membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity|protein binding			large_intestine(1)	1		all_lung(18;0.0054)|all_hematologic(23;0.094)		BRCA - Breast invasive adenocarcinoma(80;0.0258)	Cilastatin(DB01597)	AACCTGCTGAGGGTCTTCGAG	0.642													4	25	---	---	---	---	PASS	T	89704357	T	T	89704357	3	4	33	1	0	0	0	0	1	0	0	0	4713	1000	35	3	1077	3	DPEP1	16	89704357	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	8389821	89704357	650396	327	13594										
PITPNA	5306	broad.mit.edu	37	chr17	1438521	1438521	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttctgcaggccccaccacttGaacttgacggtcaccagttt	8	14	2	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr17:1438521G>C	uc002fst.3	-	8	856	c.600C>G	c.(598-600)TTC>TTG	p.F200L	PITPNA_uc010cjt.2_Missense_Mutation_p.F84L|PITPNA_uc010cju.2_Missense_Mutation_p.F98L	NM_006224	NP_006215	Q00169	PIPNA_HUMAN	phosphatidylinositol transfer protein, alpha	200					axon guidance|lipid metabolic process|visual perception	cytoplasm	phosphatidylcholine transmembrane transporter activity|phosphatidylinositol transporter activity|protein binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0845)		CCCACCACTTGAACTTGACGG	0.502													18	85	---	---	---	---	PASS	C	1438521	C	C	1438521	3	2	33	1	0	0	0	0	1	0	0	0	11947	1281	45	2	224	2	PITPNA	17	1438521	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08		1438521	79756689	328	13595										
TP53	7157	broad.mit.edu	37	chr17	7578190	7578190	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	accagacctcaggcggctcaTagggcaccaccacactatgt	9	15	2	1	rs121912666		TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr17:7578190T>C	uc002gim.2	-	6	853	c.659A>G	c.(658-660)TAT>TGT	p.Y220C	TP53_uc002gig.1_Missense_Mutation_p.Y220C|TP53_uc002gih.2_Missense_Mutation_p.Y220C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y88C|TP53_uc010cng.1_Missense_Mutation_p.Y88C|TP53_uc002gii.1_Missense_Mutation_p.Y88C|TP53_uc010cnh.1_Missense_Mutation_p.Y220C|TP53_uc010cni.1_Missense_Mutation_p.Y220C|TP53_uc002gij.2_Missense_Mutation_p.Y220C|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.Y127C|TP53_uc002gio.2_Missense_Mutation_p.Y88C|TP53_uc010vug.1_Missense_Mutation_p.Y181C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	220	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> N (in sporadic cancers; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> S (in a brain tumor with no family history; germline mutation and in sporadic cancers; somatic mutation).|Y -> F (in a sporadic cancer; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Y220C(205)|p.Y220N(12)|p.Y220H(9)|p.Y220S(9)|p.0?(7)|p.Y220fs*27(4)|p.Y220*(3)|p.Y220D(2)|p.Y127C(2)|p.D208fs*1(1)|p.Y220_P223delYEPP(1)|p.?(1)|p.V218_E224delVPYEPPE(1)|p.V218_E221delVPYE(1)|p.V218_Y220delVPY(1)|p.Y220fs*25(1)|p.V216_Y220delVVVPY(1)|p.Y220fs*1(1)|p.Y220fs*2(1)|p.V218fs*26(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)		AGGCGGCTCATAGGGCACCAC	0.557		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	42	---	---	---	---	PASS	C	7578190	C	C	7578190	3	2	33	1	0	0	0	0	1	0	0	0	16378	1406	49	5	635	5	TP53	17	7578190	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	6139669	7578190	73617020	329	13596										
TRIM16	10626	broad.mit.edu	37	chr17	15532053	15532053	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agactggttctgaaaatttgCaggcaaacttgtgaaccaga	10	7	1	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr17:15532053C>T	uc002gox.2	-	9	2128	c.1571G>A	c.(1570-1572)TGC>TAC	p.C524Y	TRIM16_uc002gor.1_Intron|TRIM16_uc002gow.2_Missense_Mutation_p.C308Y|TRIM16_uc002goy.2_Missense_Mutation_p.C394Y	NM_006470	NP_006461	O95361	TRI16_HUMAN	tripartite motif-containing 16	524	B30.2/SPRY.				histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		TGAAAATTTGCAGGCAAACTT	0.517													5	126	---	---	---	---	PASS	T	15532053	T	T	15532053	3	4	33	1	0	0	0	0	1	0	0	0	16488	710	25	3	127	3	TRIM16	17	15532053	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	7953863	15532053	65663157	330	13597										
C17orf66	256957	broad.mit.edu	37	chr17	34182401	34182401	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	caattgaggcacaaaggattAatgtttcttgtagctgcatt	9	6	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr17:34182401A>T	uc002hke.1	-	15	1528	c.1379T>A	c.(1378-1380)TTA>TAA	p.L460*	C17orf66_uc010wck.1_RNA|C17orf66_uc010wcl.1_Nonsense_Mutation_p.L420*	NM_152781	NP_689994	A2RTY3	CQ066_HUMAN	hypothetical protein LOC256957	460							binding			breast(2)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		ACAAAGGATTAATGTTTCTTG	0.493													41	75	---	---	---	---	PASS	T	34182401	T	T	34182401	4	4	33	1	0	0	0	0	0	1	0	0	1874	372	13	5	337	5	C17orf66	17	34182401	Nonsense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	18650348	34182401	47012809	331	13598										
CDC6	990	broad.mit.edu	37	chr17	38451705	38451705	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcgcaaagcactggatgtttGcaggtgagttacggctctgt	13	8	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr17:38451705G>A	uc002huj.1	+	8	1391	c.1181G>A	c.(1180-1182)TGC>TAC	p.C394Y		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	394					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						CTGGATGTTTGCAGGTGAGTT	0.403													66	116	---	---	---	---	PASS	A	38451705	A	A	38451705	3	1	33	1	0	0	0	0	1	0	0	0	3083	1319	46	3	1207	3	CDC6	17	38451705	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	4269304	38451705	42743505	332	13599										
KRTAP1-3	81850	broad.mit.edu	37	chr17	39190672	39190672	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcctcggcgtggtgcagctgGcagcaggttgggggtgtgca	20	9	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr17:39190672G>T	uc002hvv.2	-	1	436	c.402C>A	c.(400-402)TGC>TGA	p.C134*		NM_030966	NP_112228	Q8IUG1	KRA13_HUMAN	keratin associated protein 1-3	144						extracellular region|keratin filament	structural constituent of epidermis				0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			GGTGCAGCTGGCAGCAGGTTG	0.672													24	39	---	---	---	---	PASS	T	39190672	T	T	39190672	4	4	33	1	0	0	0	0	0	1	0	0	8503	1195	42	3	105	3	KRTAP1-3	17	39190672	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	738967	39190672	42004538	333	13600										
FKBP10	60681	broad.mit.edu	37	chr17	39975846	39975846	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	acatcatccccgggatggacCaggggctgcagggtgcctgc	15	13	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr17:39975846C>A	uc002hxv.2	+	6	1307	c.982C>A	c.(982-984)CAG>AAG	p.Q328K	FKBP10_uc002hxw.1_Missense_Mutation_p.Q31K	NM_021939	NP_068758	Q96AY3	FKB10_HUMAN	FK506 binding protein 10 precursor	328	PPIase FKBP-type 3.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Breast(137;0.00122)		BRCA - Breast invasive adenocarcinoma(366;0.148)		CGGGATGGACCAGGGGCTGCA	0.617													8	22	---	---	---	---	PASS	A	39975846	A	A	39975846	3	1	33	1	0	0	0	0	1	0	0	0	5902	595	21	3	1004	3	FKBP10	17	39975846	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	785174	39975846	41219364	334	13601										
NSF	4905	broad.mit.edu	37	chr17	44770427	44770427	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gagcagctaaacaacatcctAgtcattggtatgtttacttt	7	8	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr17:44770427A>C	uc002iku.2	+	10	1208	c.1104A>C	c.(1102-1104)CTA>CTC	p.L368L	NSF_uc010wke.1_Silent_p.L274L|NSF_uc010wkf.1_Silent_p.L274L|NSF_uc010wkg.1_Silent_p.L363L	NM_006178	NP_006169	P46459	NSF_HUMAN	vesicle-fusing ATPase	368					protein transport|synaptic transmission	cytosol	ATP binding|metal ion binding			ovary(1)	1		Melanoma(429;0.203)	BRCA - Breast invasive adenocarcinoma(9;0.0257)	BRCA - Breast invasive adenocarcinoma(366;0.241)		ACAACATCCTAGTCATTGGTA	0.393													18	140	---	---	---	---	PASS	C	44770427	C	C	44770427	2	2	33	1	0	0	0	0	0	0	0	1	10671	407	15	5		5	NSF	17	44770427	Silent	SNP	A	TCGA-22-1016-01A-01D-1521-08	4794581	44770427	36424783	335	13602										
ANKRD40	91369	broad.mit.edu	37	chr17	48777095	48777095	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtgatgcagggggtgtggagGggcccccattctgcatctgg	18	9	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr17:48777095G>A	uc002iso.2	-	3	698	c.443C>T	c.(442-444)CCC>CTC	p.P148L		NM_052855	NP_443087	Q6AI12	ANR40_HUMAN	ankyrin repeat domain 40	148	Pro-rich.										0			BRCA - Breast invasive adenocarcinoma(22;2.03e-09)			GGGTGTGGAGGGGCCCCCATT	0.582													38	80	---	---	---	---	PASS	A	48777095	A	A	48777095	3	1	33	1	0	0	0	0	1	0	0	0	669	1232	43	3	675	3	ANKRD40	17	48777095	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	4006668	48777095	32418115	336	13603										
NUP85	79902	broad.mit.edu	37	chr17	73230817	73230817	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctgtccttgatgacgtctcgGattgcccctcggtctttctg	10	13	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr17:73230817G>A	uc002jng.1	+	17	1961	c.1701G>A	c.(1699-1701)CGG>CGA	p.R567R	NUP85_uc010dgd.1_Silent_p.R522R|NUP85_uc010wrv.1_Silent_p.R521R|NUP85_uc002jnh.1_Silent_p.R170R	NM_024844	NP_079120	Q9BW27	NUP85_HUMAN	nucleoporin 85	567					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|nuclear membrane|Nup107-160 complex|spindle	protein binding			ovary(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		all cancers(21;3.45e-06)			TGACGTCTCGGATTGCCCCTC	0.522													9	268	---	---	---	---	PASS	A	73230817	A	A	73230817	2	1	33	1	0	0	0	0	0	0	0	1	10770	1161	41	2		2	NUP85	17	73230817	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	24453722	73230817	7964393	337	13604										
NUP85	79902	broad.mit.edu	37	chr17	73230872	73230872	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagacgccttgccccttttgGaacagaaacaggtgaaggtt	11	10	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr17:73230872G>A	uc002jng.1	+	17	2016	c.1756G>A	c.(1756-1758)GAA>AAA	p.E586K	NUP85_uc010dgd.1_Missense_Mutation_p.E541K|NUP85_uc010wrv.1_Missense_Mutation_p.E540K|NUP85_uc002jnh.1_Missense_Mutation_p.E189K	NM_024844	NP_079120	Q9BW27	NUP85_HUMAN	nucleoporin 85	586					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|nuclear membrane|Nup107-160 complex|spindle	protein binding			ovary(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		all cancers(21;3.45e-06)			GCCCCTTTTGGAACAGAAACA	0.517													8	215	---	---	---	---	PASS	A	73230872	A	A	73230872	3	1	33	1	0	0	0	0	1	0	0	0	10770	1175	41	2	1822	2	NUP85	17	73230872	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	55	73230872	7964338	338	13605										
MBD3L1	85509	broad.mit.edu	37	chr19	8953366	8953366	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agaagtgtgatggccaagagTtcacagaggaagcaacgtga	14	6	1	5			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:8953366T>A	uc002mko.2	+	1	98	c.12T>A	c.(10-12)AGT>AGA	p.S4R		NM_145208	NP_660209	Q8WWY6	MB3L1_HUMAN	methyl-CpG binding domain protein 3-like	4	Transcription repressor.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						TGGCCAAGAGTTCACAGAGGA	0.423													25	57	---	---	---	---	PASS	A	8953366	A	A	8953366	3	1	33	1	0	0	0	0	1	0	0	0	9345	1722	60	5	14	5	MBD3L1	19	8953366	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08		8953366	50175617	339	13606										
ZNF560	147741	broad.mit.edu	37	chr19	9578580	9578580	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttccacattccttacattcaTaggggtttttaataatgtgt	6	7	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:9578580T>A	uc002mlp.1	-	10	1253	c.1043A>T	c.(1042-1044)TAT>TTT	p.Y348F	ZNF560_uc010dwr.1_Missense_Mutation_p.Y242F	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	348	C2H2-type 2.				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						CTTACATTCATAGGGGTTTTT	0.368													46	182	---	---	---	---	PASS	A	9578580	A	A	9578580	3	1	33	1	0	0	0	0	1	0	0	0	17988	1406	49	5	1333	5	ZNF560	19	9578580	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	625214	9578580	49550403	340	13607										
NCAN	1463	broad.mit.edu	37	chr19	19349112	19349112	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agttccagggccactgttacCgctattttgcccaccggagg	11	13	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:19349112C>T	uc002nlz.2	+	11	3400	c.3301C>T	c.(3301-3303)CGC>TGC	p.R1101C	NCAN_uc010ecc.1_Missense_Mutation_p.R665C|NCAN_uc002nma.2_5'Flank	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	1101	C-type lectin.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			CCACTGTTACCGCTATTTTGC	0.657													53	93	---	---	---	---	PASS	T	19349112	T	T	19349112	3	4	33	1	0	0	0	0	1	0	0	0	10204	652	23	1	3339	1	NCAN	19	19349112	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	9770532	19349112	39779871	341	13608										
ZNF208	7757	broad.mit.edu	37	chr19	22171626	22171626	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agttctctaacatcacatttCtatataaattctgctgtgca	4	9	4	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:22171626C>G	uc002nqp.2	-	2	238	c.89G>C	c.(88-90)AGA>ACA	p.R30T	ZNF208_uc002nqo.1_Missense_Mutation_p.R30T|ZNF208_uc002nqq.2_RNA	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				CATCACATTTCTATATAAATT	0.388													98	188	---	---	---	---	PASS	G	22171626	G	G	22171626	3	3	33	1	0	0	0	0	1	0	0	0	17763	913	32	2	3765	2	ZNF208	19	22171626	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	2822514	22171626	36957357	342	13609										
ZNF99	7652	broad.mit.edu	37	chr19	22941436	22941436	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttgccacattcttcacatttGcagggtttctctgcagtatg	8	10	3	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:22941436G>C	uc010xrh.1	-	5	1002	c.1002C>G	c.(1000-1002)TGC>TGG	p.C334W		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)				CTTCACATTTGCAGGGTTTCT	0.378													45	66	---	---	---	---	PASS	C	22941436	C	C	22941436	3	2	33	1	0	0	0	0	1	0	0	0	18201	1311	46	4	2122	4	ZNF99	19	22941436	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	769810	22941436	36187547	343	13610										
TSHZ3	57616	broad.mit.edu	37	chr19	31768009	31768009	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggaggtgctgggggttccagTttgactggcggcccttcctc	16	11	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:31768009T>A	uc002nsy.3	-	2	2755	c.2690A>T	c.(2689-2691)AAC>ATC	p.N897I		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	897	Homeobox; atypical.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					GGGGTTCCAGTTTGACTGGCG	0.622													20	39	---	---	---	---	PASS	A	31768009	A	A	31768009	3	1	33	1	0	0	0	0	1	0	0	0	16622	1725	60	5	559	5	TSHZ3	19	31768009	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	8826573	31768009	27360974	344	13611										
CHST8	64377	broad.mit.edu	37	chr19	34263302	34263302	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtgcccaaggccggctgctcCaattggaagcgggtgctcat	14	12	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:34263302C>A	uc002nus.3	+	5	1114	c.609C>A	c.(607-609)TCC>TCA	p.S203S	CHST8_uc002nut.3_Silent_p.S203S|CHST8_uc002nuu.2_Silent_p.S203S	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	203	PAPS (By similarity).|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)					CCGGCTGCTCCAATTGGAAGC	0.687													43	46	---	---	---	---	PASS	A	34263302	A	A	34263302	2	1	33	1	0	0	0	0	0	0	0	1	3410	581	21	3		3	CHST8	19	34263302	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	2495293	34263302	24865681	345	13612										
ZNF599	148103	broad.mit.edu	37	chr19	35250252	35250252	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agctatagtaaaaggcttttGcacattctttgcactccaag	7	9	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:35250252G>C	uc010edn.1	-	4	1842	c.1454C>G	c.(1453-1455)GCA>GGA	p.A485G	ZNF599_uc010edm.1_Missense_Mutation_p.A448G	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	485	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			AAAGGCTTTTGCACATTCTTT	0.428													32	284	---	---	---	---	PASS	C	35250252	C	C	35250252	3	2	33	1	0	0	0	0	1	0	0	0	18026	1319	46	4	316	4	ZNF599	19	35250252	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	986950	35250252	23878731	346	13613										
FFAR3	2865	broad.mit.edu	37	chr19	35850518	35850518	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtctgctttgggccctacaaCgtgtcccatgtcgtgggcta	12	12	1	0	rs147416906		TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:35850518C>A	uc002nzd.2	+	2	801	c.726C>A	c.(724-726)AAC>AAA	p.N242K	FFAR3_uc010xsu.1_Intron	NM_005304	NP_005295	O14843	FFAR3_HUMAN	free fatty acid receptor 3	242	Helical; Name=6; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding				0	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;1.29e-19)|OV - Ovarian serous cystadenocarcinoma(14;4.63e-18)|all cancers(14;5.19e-17)|LUSC - Lung squamous cell carcinoma(66;0.0221)			GGCCCTACAACGTGTCCCATG	0.632													58	181	---	---	---	---	PASS	A	35850518	A	A	35850518	3	1	33	1	0	0	0	0	1	0	0	0	5829	535	19	1	728	1	FFAR3	19	35850518	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	600266	35850518	23278465	347	13614										
ZNF260	339324	broad.mit.edu	37	chr19	37005989	37005989	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgcattcatgagatttctctCcagtatgcattttcttatgc	6	9	3	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:37005989C>A	uc002oee.1	-	4	996	c.152G>T	c.(151-153)GGA>GTA	p.G51V	ZNF260_uc002oed.1_Missense_Mutation_p.G48V|ZNF260_uc010eey.1_Missense_Mutation_p.G48V|ZNF260_uc002oef.1_Missense_Mutation_p.G48V	NM_001012756	NP_001012774	Q3ZCT1	ZN260_HUMAN	zinc finger protein 260	51					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					AGATTTCTCTCCAGTATGCAT	0.368													119	156	---	---	---	---	PASS	A	37005989	A	A	37005989	3	1	33	1	0	0	0	0	1	0	0	0	17799	855	30	2	1090	2	ZNF260	19	37005989	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	1155471	37005989	22122994	348	13615										
ZNF527	84503	broad.mit.edu	37	chr19	37870113	37870113	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gaaggatttatacagagatgTcatgttggagaactacagga	12	4	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:37870113T>C	uc010efk.1	+	3	236	c.125T>C	c.(124-126)GTC>GCC	p.V42A	ZNF527_uc002ogf.3_Missense_Mutation_p.V42A|ZNF527_uc010xtq.1_RNA|ZNF527_uc002oge.2_Missense_Mutation_p.V42A	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	42	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TACAGAGATGTCATGTTGGAG	0.438													74	189	---	---	---	---	PASS	C	37870113	C	C	37870113	3	2	33	1	0	0	0	0	1	0	0	0	17965	1667	58	5	131	5	ZNF527	19	37870113	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	864124	37870113	21258870	349	13616										
FCGBP	8857	broad.mit.edu	37	chr19	40433896	40433896	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgtcagctccgctgtgtcagGcttggcatttagtgcctgca	12	11	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:40433896G>T	uc002omp.3	-	2	381	c.373C>A	c.(373-375)CCT>ACT	p.P125T		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	125	IgGFc-binding.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GCTGTGTCAGGCTTGGCATTT	0.567													39	59	---	---	---	---	PASS	T	40433896	T	T	40433896	3	4	33	1	0	0	0	0	1	0	0	0	5778	1203	42	3	15984	3	FCGBP	19	40433896	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	2563783	40433896	18695087	350	13617										
MEGF8	1954	broad.mit.edu	37	chr19	42863288	42863288	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cacgcctcagccctgttaggGgacaccatggtggttcttgg	13	12	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:42863288G>T	uc002otl.3	+	30	5816	c.5181G>T	c.(5179-5181)GGG>GGT	p.G1727G	MEGF8_uc002otm.3_Silent_p.G1335G	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	1794	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				CCCTGTTAGGGGACACCATGG	0.657													3	13	---	---	---	---	PASS	T	42863288	T	T	42863288	2	4	33	1	0	0	0	0	0	0	0	1	9463	1219	43	3		3	MEGF8	19	42863288	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	2429392	42863288	16265695	351	13618										
ZNF227	7770	broad.mit.edu	37	chr19	44740736	44740736	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gggagagaaaccccatatatGtgaggagtgtggtaaggcct	15	6	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:44740736G>T	uc002oyu.2	+	6	2358	c.2153G>T	c.(2152-2154)TGT>TTT	p.C718F	ZNF227_uc010xwu.1_Missense_Mutation_p.C667F|ZNF227_uc002oyv.2_Missense_Mutation_p.C718F|ZNF227_uc010xwv.1_Missense_Mutation_p.C667F|ZNF227_uc010xww.1_Missense_Mutation_p.C639F|ZNF227_uc002oyw.2_Missense_Mutation_p.C690F|ZNF227_uc010ejh.2_Missense_Mutation_p.C711F|ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_3'UTR	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	718	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)				CCCCATATATGTGAGGAGTGT	0.468													39	190	---	---	---	---	PASS	T	44740736	T	T	44740736	3	4	33	1	0	0	0	0	1	0	0	0	17778	1377	48	3	2167	3	ZNF227	19	44740736	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	1877448	44740736	14388247	352	13619										
ZNF615	284370	broad.mit.edu	37	chr19	52497156	52497156	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ttctctcctgtatgagtttgCtgatgtgtgataagactgtt	10	6	1	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:52497156C>A	uc002pye.1	-	6	1465	c.1173G>T	c.(1171-1173)CAG>CAT	p.Q391H	ZNF615_uc002pyf.1_Missense_Mutation_p.Q402H|ZNF615_uc002pyg.1_Missense_Mutation_p.Q283H|ZNF615_uc002pyh.1_Missense_Mutation_p.Q402H|ZNF615_uc010epi.1_Missense_Mutation_p.Q398H|ZNF615_uc010ydg.1_Missense_Mutation_p.Q396H	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	391	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TATGAGTTTGCTGATGTGTGA	0.393													47	137	---	---	---	---	PASS	A	52497156	A	A	52497156	3	1	33	1	0	0	0	0	1	0	0	0	18037	796	28	3	1026	3	ZNF615	19	52497156	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	7756420	52497156	6631827	353	13620										
PPP2R1A	5518	broad.mit.edu	37	chr19	52714673	52714673	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cggcgactggttcacctcccGcacctcggcctgcggcctct	11	19	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:52714673G>A	uc002pyp.2	+	4	590	c.431G>A	c.(430-432)CGC>CAC	p.R144H	PPP2R1A_uc010ydk.1_Missense_Mutation_p.R89H|PPP2R1A_uc010epm.1_Missense_Mutation_p.R184H|PPP2R1A_uc002pyq.2_5'UTR	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	144	PP2A subunit B binding.|SV40 small T antigen binding.|HEAT 4.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		TTCACCTCCCGCACCTCGGCC	0.642			Mis		clear cell ovarian carcinoma								63	66	---	---	---	---	PASS	A	52714673	A	A	52714673	3	1	33	1	0	0	0	0	1	0	0	0	12382	1087	38	1	445	1	PPP2R1A	19	52714673	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	217517	52714673	6414310	354	13621										
ZNF528	84436	broad.mit.edu	37	chr19	52909268	52909268	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	acgtgatgttggagaattatAggaacctggtctccctgggt	13	7	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:52909268A>T	uc002pzh.2	+	5	550	c.124A>T	c.(124-126)AGG>TGG	p.R42W	ZNF528_uc002pzi.2_5'UTR	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	42	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		GGAGAATTATAGGAACCTGGT	0.507													86	271	---	---	---	---	PASS	T	52909268	T	T	52909268	3	4	33	1	0	0	0	0	1	0	0	0	17966	411	15	5	130	5	ZNF528	19	52909268	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	194595	52909268	6219715	355	13622										
ZNF331	55422	broad.mit.edu	37	chr19	54081100	54081100	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cggccatcagcttacacaacAtcagaaaacgcacagtgggg	10	12	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:54081100A>G	uc002qbx.1	+	7	2720	c.1286A>G	c.(1285-1287)CAT>CGT	p.H429R	ZNF331_uc002qby.1_Missense_Mutation_p.H429R|ZNF331_uc002qbz.1_Missense_Mutation_p.H429R|ZNF331_uc002qca.1_Missense_Mutation_p.H429R|ZNF331_uc010eqr.1_Missense_Mutation_p.H429R|ZNF331_uc002qcb.1_Missense_Mutation_p.H429R|ZNF331_uc002qcc.1_Missense_Mutation_p.H429R|ZNF331_uc002qcd.1_Missense_Mutation_p.H429R	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	429	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		CTTACACAACATCAGAAAACG	0.493			T	?	follicular thyroid adenoma								22	58	---	---	---	---	PASS	G	54081100	G	G	54081100	3	3	33	1	0	0	0	0	1	0	0	0	17846	217	8	5	1296	5	ZNF331	19	54081100	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	1171832	54081100	5047883	356	13623										
CNOT3	4849	broad.mit.edu	37	chr19	54656311	54656311	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agctctatcagcaggccatgGaagaggccgcctggcaccac	12	14	2	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:54656311G>T	uc002qdj.1	+	15	2163	c.1852G>T	c.(1852-1854)GAA>TAA	p.E618*	CNOT3_uc010yel.1_Nonsense_Mutation_p.E618*|CNOT3_uc002qdi.2_Nonsense_Mutation_p.E531*|CNOT3_uc002qdk.1_Nonsense_Mutation_p.E618*|CNOT3_uc010ere.1_RNA|CNOT3_uc002qdl.2_Nonsense_Mutation_p.E73*	NM_014516	NP_055331	O75175	CNOT3_HUMAN	CCR4-NOT transcription complex, subunit 3	618	Pro-rich.				nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GCAGGCCATGGAAGAGGCCGC	0.627													22	84	---	---	---	---	PASS	T	54656311	T	T	54656311	4	4	33	1	0	0	0	0	0	1	0	0	3620	1175	41	2	1906	2	CNOT3	19	54656311	Nonsense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	575211	54656311	4472672	357	13624										
LILRA2	11027	broad.mit.edu	37	chr19	55087569	55087569	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agtgaccccctggagctcgtGgtctcaggtgagggccctga	15	12	1	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:55087569G>T	uc002qgg.3	+	6	1337	c.1248G>T	c.(1246-1248)GTG>GTT	p.V416V	LILRA2_uc010ern.2_Silent_p.V416V|LILRA2_uc002qgf.2_Silent_p.V416V|LILRA2_uc010yfe.1_Silent_p.V416V|LILRA2_uc010yff.1_Silent_p.V404V|LILRA2_uc010ero.2_Silent_p.V404V|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	416	Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		TGGAGCTCGTGGTCTCAGGTG	0.607													62	123	---	---	---	---	PASS	T	55087569	T	T	55087569	2	4	33	1	0	0	0	0	0	0	0	1	8785	1335	47	3		3	LILRA2	19	55087569	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	431258	55087569	4041414	358	13625										
NLRP7	199713	broad.mit.edu	37	chr19	55450872	55450872	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gaggtcggactcctgcacccCgagcctttccaggtcctctc	10	17	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:55450872C>A	uc002qih.3	-	4	1391	c.1315G>T	c.(1315-1317)GGG>TGG	p.G439W	NLRP7_uc002qig.3_Missense_Mutation_p.G439W|NLRP7_uc002qii.3_Missense_Mutation_p.G439W|NLRP7_uc010esk.2_Missense_Mutation_p.G439W|NLRP7_uc010esl.2_Missense_Mutation_p.G467W	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	439	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		TCCTGCACCCCGAGCCTTTCC	0.662													20	87	---	---	---	---	PASS	A	55450872	A	A	55450872	3	1	33	1	0	0	0	0	1	0	0	0	10482	652	23	1	1830	1	NLRP7	19	55450872	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	363303	55450872	3678111	359	13626										
ZNF524	147807	broad.mit.edu	37	chr19	56113998	56113998	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgcggcccttccgctgcccgCtgtgcccccgccgcttccgc	11	22	0	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr19:56113998C>T	uc002qlk.1	+	2	603	c.520C>T	c.(520-522)CTG>TTG	p.L174L	FIZ1_uc002qlj.3_5'Flank	NM_153219	NP_694951	Q96C55	ZN524_HUMAN	zinc finger protein 524	174	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		CCGCTGCCCGCTGTGCCCCCG	0.726													3	7	---	---	---	---	PASS	T	56113998	T	T	56113998	2	4	33	1	0	0	0	0	0	0	0	1	17963	796	28	3		3	ZNF524	19	56113998	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	663126	56113998	3014985	360	13627										
TGM6	343641	broad.mit.edu	37	chr20	2398084	2398084	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gccacgacctgagactggccCtgtgcttggccaacctcacc	10	17	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr20:2398084C>T	uc002wfy.1	+	10	1604	c.1543C>T	c.(1543-1545)CTG>TTG	p.L515L	TGM6_uc010gal.1_Silent_p.L515L	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	515					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	GAGACTGGCCCTGTGCTTGGC	0.647													21	34	---	---	---	---	PASS	T	2398084	T	T	2398084	2	4	33	1	0	0	0	0	0	0	0	1	15831	680	24	3		3	TGM6	20	2398084	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08		2398084	60627436	361	13628										
EMILIN3	90187	broad.mit.edu	37	chr20	39990768	39990768	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctccccagccaatgttgctaGgcgctcctcgaggctctgca	10	16	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr20:39990768G>A	uc002xjy.1	-	4	1665	c.1441C>T	c.(1441-1443)CTA>TTA	p.L481L		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	481	Potential.					proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				AATGTTGCTAGGCGCTCCTCG	0.632													36	105	---	---	---	---	PASS	A	39990768	A	A	39990768	2	1	33	1	0	0	0	0	0	0	0	1	5095	991	35	3		3	EMILIN3	20	39990768	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	37592684	39990768	23034752	362	13629										
TOX2	84969	broad.mit.edu	37	chr20	42694707	42694707	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gcccacccccatggcactccAggtgcagctggcgatgagcc	12	17	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr20:42694707A>T	uc002xlf.3	+	6	1279	c.1262A>T	c.(1261-1263)CAG>CTG	p.Q421L	TOX2_uc010ggo.2_Missense_Mutation_p.Q439L|TOX2_uc002xle.3_Missense_Mutation_p.Q397L|TOX2_uc010ggp.2_Missense_Mutation_p.Q397L|TOX2_uc002xlg.2_Intron|TOX2_uc010zwk.1_Missense_Mutation_p.Q317L	NM_001098798	NP_001092268	Q96NM4	TOX2_HUMAN	TOX high mobility group box family member 2	421	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)			ATGGCACTCCAGGTGCAGCTG	0.672													15	24	---	---	---	---	PASS	T	42694707	T	T	42694707	3	4	33	1	0	0	0	0	1	0	0	0	16375	188	7	5	1472	5	TOX2	20	42694707	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	2703939	42694707	20330813	363	13630										
JPH2	57158	broad.mit.edu	37	chr20	42788378	42788378	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gctgcagcatgcggcgcttgGtgtccttgaccagcacgttg	14	12	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr20:42788378G>T	uc002xli.1	-	2	1922	c.1049C>A	c.(1048-1050)ACC>AAC	p.T350N		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	350	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			GCGGCGCTTGGTGTCCTTGAC	0.662													13	42	---	---	---	---	PASS	T	42788378	T	T	42788378	3	4	33	1	0	0	0	0	1	0	0	0	7961	1261	44	3	1057	3	JPH2	20	42788378	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	93671	42788378	20237142	364	13631										
SPATA2	9825	broad.mit.edu	37	chr20	48522404	48522404	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtgcgggaggcggtcgaggcCctgagtctggcctgggtact	19	10	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr20:48522404C>G	uc010gie.2	-	3	1665	c.1315G>C	c.(1315-1317)GGC>CGC	p.G439R	SPATA2_uc002xuw.2_Missense_Mutation_p.G439R|SPATA2_uc010zyn.1_Missense_Mutation_p.G302R	NM_001135773	NP_001129245	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	439					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			CGGTCGAGGCCCTGAGTCTGG	0.662													29	107	---	---	---	---	PASS	G	48522404	G	G	48522404	3	3	33	1	0	0	0	0	1	0	0	0	15004	623	22	4	251	4	SPATA2	20	48522404	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	5734026	48522404	14503116	365	13632										
ZNF831	128611	broad.mit.edu	37	chr20	57768092	57768092	+	Frame_Shift_Del	DEL	C	-	-													0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gagctcaggcacagtccccaCccaagacaggaggacccctg							TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr20:57768092delC	uc002yan.2	+	1	2018	c.2018delC	c.(2017-2019)ACCfs	p.T673fs		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	673						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					ACAGTCCCCACCCAAGACAGG	0.612													41	19	---	---	---	---		-	57768092	-	-	57768092	7	5	33	1	0	1	0	1	0	0	0	0	18182	507	18	0	2020	0	ZNF831	20	57768092	Frame_Shift_Del	DEL	C	TCGA-22-1016-01A-01D-1521-08	9245688	57768092	5257428	366	13633										
ZNF831	128611	broad.mit.edu	37	chr20	57829194	57829194	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aaggccttcttcctttgggtCcaaaggaacttttccccacc	7	14	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr20:57829194C>A	uc002yan.2	+	5	4430	c.4430C>A	c.(4429-4431)TCC>TAC	p.S1477Y		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1477						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					TCCTTTGGGTCCAAAGGAACT	0.498													56	88	---	---	---	---	PASS	A	57829194	A	A	57829194	3	1	33	1	0	0	0	0	1	0	0	0	18182	855	30	2	4448	2	ZNF831	20	57829194	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	61102	57829194	5196326	367	13634										
COL20A1	57642	broad.mit.edu	37	chr20	61942764	61942764	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agcacctctgcctccgccccGggcgctgaccctggccgcag	12	20	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr20:61942764G>T	uc011aau.1	+	12	1512	c.1412G>T	c.(1411-1413)CGG>CTG	p.R471L	COL20A1_uc011aav.1_Missense_Mutation_p.R292L	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	471	Fibronectin type-III 3.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CCTCCGCCCCGGGCGCTGACC	0.682													4	7	---	---	---	---	PASS	T	61942764	T	T	61942764	3	4	33	1	0	0	0	0	1	0	0	0	3679	1116	39	1	1454	1	COL20A1	20	61942764	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	4113570	61942764	1082756	368	13635										
KRTAP13-3	337960	broad.mit.edu	37	chr21	31798006	31798006	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tagtagcaggaggtgtggcaGgggctggactcaacacacaa	15	8	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr21:31798006G>A	uc002yob.1	-	1	225	c.225C>T	c.(223-225)CCC>CCT	p.P75P		NM_181622	NP_853653	Q3SY46	KR133_HUMAN	keratin associated protein 13-3	75	3.|5 X 10 AA approximate repeats.					intermediate filament				ovary(1)|lung(1)	2						AGGTGTGGCAGGGGCTGGACT	0.567													31	72	---	---	---	---	PASS	A	31798006	A	A	31798006	2	1	33	1	0	0	0	0	0	0	0	1	8524	987	35	3		3	KRTAP13-3	21	31798006	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08		31798006	16331889	369	13636										
MYH9	4627	broad.mit.edu	37	chr22	36705391	36705391	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agcagtgtggcgatgttgtcAttcaggggatccatgttctt	13	7	3	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr22:36705391A>C	uc003apg.2	-	15	2010	c.1779T>G	c.(1777-1779)AAT>AAG	p.N593K	MYH9_uc003aph.1_Missense_Mutation_p.N457K	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	593	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CGATGTTGTCATTCAGGGGAT	0.572			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				15	50	---	---	---	---	PASS	C	36705391	C	C	36705391	3	2	33	1	0	0	0	0	1	0	0	0	10042	214	8	5	4211	5	MYH9	22	36705391	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08		36705391	14599175	370	13637										
SELO	83642	broad.mit.edu	37	chr22	50654264	50654264	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tgtgcctccctggaggagctGaggctggccttccggcccca	14	15	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr22:50654264G>A	uc011arr.1	+	6	1528	c.1470G>A	c.(1468-1470)CTG>CTA	p.L490L	SELO_uc010hap.2_Silent_p.L301L|SELO_uc003bjy.2_Silent_p.L170L|SELO_uc003bjz.2_Missense_Mutation_p.E243K	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O	490											0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		TGGAGGAGCTGAGGCTGGCCT	0.567													8	130	---	---	---	---	PASS	A	50654264	A	A	50654264	2	1	33	1	0	0	0	0	0	0	0	1	14018	1277	45	2		2	SELO	22	50654264	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	13948873	50654264	650302	371	13638										
MAPK11	5600	broad.mit.edu	37	chr22	50705455	50705455	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcatctcctcgtccgcctggCgcgccagcccaaaatccagg	9	18	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chr22:50705455C>A	uc003bkr.2	-	7	576	c.518G>T	c.(517-519)CGC>CTC	p.R173L	MAPK11_uc010hax.2_5'UTR|MAPK11_uc011ars.1_RNA|MAPK11_uc010hay.1_RNA|MAPK11_uc011art.1_3'UTR|MAPK11_uc010haz.2_Missense_Mutation_p.R65L	NM_002751	NP_002742	Q15759	MK11_HUMAN	mitogen-activated protein kinase 11	173	Protein kinase.				activation of MAPK activity|innate immune response|mRNA metabolic process|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of muscle cell differentiation|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|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|nucleoplasm	ATP binding|MAP kinase activity|protein binding			lung(1)|breast(1)	2		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GTCCGCCTGGCGCGCCAGCCC	0.662													17	43	---	---	---	---	PASS	A	50705455	A	A	50705455	3	1	33	1	0	0	0	0	1	0	0	0	9273	768	27	1	600	1	MAPK11	22	50705455	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	51191	50705455	599111	372	13639										
ACE2	59272	broad.mit.edu	37	chrX	15591560	15591560	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gtatgtttcatcatggggcaCaggttccaccaccccaacta	8	13	2	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:15591560C>A	uc004cxa.1	-	11	1639	c.1471G>T	c.(1471-1473)GTG>TTG	p.V491L	ACE2_uc004cxb.2_Missense_Mutation_p.V491L	NM_021804	NP_068576	Q9BYF1	ACE2_HUMAN	angiotensin I converting enzyme 2 precursor	491	Extracellular (Potential).				angiotensin-mediated drinking behavior|proteolysis|receptor biosynthetic process|regulation of cell proliferation|virion attachment, binding of host cell surface receptor	cell surface|extracellular space|integral to membrane|membrane raft|plasma membrane	carboxypeptidase activity|glycoprotein binding|metallopeptidase activity|peptidyl-dipeptidase activity|viral receptor activity|zinc ion binding			ovary(3)	3	Hepatocellular(33;0.183)				Moexipril(DB00691)	TCATGGGGCACAGGTTCCACC	0.428													55	69	---	---	---	---	PASS	A	15591560	A	A	15591560	3	1	33	1	0	0	0	0	1	0	0	0	137	478	17	3	978	3	ACE2	23	15591560	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08		15591560	139679000	373	13640										
CNKSR2	22866	broad.mit.edu	37	chrX	21508631	21508631	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tatccctgtcgtcagatcctCtggtttcacagtctgctcac	7	14	5	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:21508631C>G	uc004czx.1	+	6	652	c.616C>G	c.(616-618)CTG>GTG	p.L206V	CNKSR2_uc004czw.2_Missense_Mutation_p.L206V|CNKSR2_uc011mjn.1_Missense_Mutation_p.L206V|CNKSR2_uc011mjo.1_Missense_Mutation_p.L206V	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	206					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						GTCAGATCCTCTGGTTTCACA	0.418													20	107	---	---	---	---	PASS	G	21508631	G	G	21508631	3	3	33	1	0	0	0	0	1	0	0	0	3607	912	32	2	638	2	CNKSR2	23	21508631	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	5917071	21508631	133761929	374	13641										
DCAF8L1	139425	broad.mit.edu	37	chrX	27997796	27997796	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gctctctgtaacaggtgacgCacgaagaaccgaagcatgcg	12	11	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:27997796C>A	uc004dbx.1	-	1	1771	c.1656G>T	c.(1654-1656)GTG>GTT	p.V552V		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	552										ovary(3)|skin(1)	4						ACAGGTGACGCACGAAGAACC	0.478													56	88	---	---	---	---	PASS	A	27997796	A	A	27997796	2	1	33	1	0	0	0	0	0	0	0	1	4277	697	25	3		3	DCAF8L1	23	27997796	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	6489165	27997796	127272764	375	13642										
CACNA1F	778	broad.mit.edu	37	chrX	49065032	49065032	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gactggaggtgggagtccccCtgtcatcatcactgggccca	13	13	3	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:49065032C>T	uc004dnb.2	-	43	5161	c.5099G>A	c.(5098-5100)AGG>AAG	p.R1700K	CACNA1F_uc010nip.2_Missense_Mutation_p.R1689K	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	1700	Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	GGGAGTCCCCCTGTCATCATC	0.587													16	13	---	---	---	---	PASS	T	49065032	T	T	49065032	3	4	33	1	0	0	0	0	1	0	0	0	2543	681	24	3	858	3	CACNA1F	23	49065032	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	21067236	49065032	106205528	376	13643										
HUWE1	10075	broad.mit.edu	37	chrX	53563496	53563496	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gaagatggattgatggtgtaGgtgactcgatcaccaggtga	15	5	1	4	rs3761631		TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:53563496G>A	uc004dsp.2	-	79	12672	c.12270C>T	c.(12268-12270)ACC>ACT	p.T4090T	HUWE1_uc004dsn.2_Silent_p.T2898T	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	4090	HECT.				base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						TGATGGTGTAGGTGACTCGAT	0.502													49	52	---	---	---	---	PASS	A	53563496	A	A	53563496	2	1	33	1	0	0	0	0	0	0	0	1	7461	987	35	3		3	HUWE1	23	53563496	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	4498464	53563496	101707064	377	13644										
MAGED2	10916	broad.mit.edu	37	chrX	54836517	54836517	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	gctgatacaaaggtcaatacAaaggctcaggagactgaggc	12	8	2	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:54836517A>C	uc004dtk.1	+	3	502	c.408A>C	c.(406-408)ACA>ACC	p.T136T	MAGED2_uc004dtl.1_Silent_p.T136T|MAGED2_uc004dtm.1_Silent_p.T98T|MAGED2_uc010nkc.1_Silent_p.T136T|MAGED2_uc004dtn.1_Silent_p.T136T|MAGED2_uc004dto.1_Silent_p.T110T	NM_177433	NP_803182	Q9UNF1	MAGD2_HUMAN	melanoma antigen family D, 2	136										ovary(2)|breast(1)	3						AGGTCAATACAAAGGCTCAGG	0.552													9	11	---	---	---	---	PASS	C	54836517	C	C	54836517	2	2	33	1	0	0	0	0	0	0	0	1	9184	117	5	5		5	MAGED2	23	54836517	Silent	SNP	A	TCGA-22-1016-01A-01D-1521-08	1273021	54836517	100434043	378	13645										
GDPD2	54857	broad.mit.edu	37	chrX	69646855	69646855	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ctggtgggacaccgaggggcCcccatggtgagtgttggaca	17	10	0	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:69646855C>A	uc004dyh.2	+	8	947	c.696C>A	c.(694-696)GCC>GCA	p.A232A	GDPD2_uc010nkx.1_Silent_p.A232A|GDPD2_uc010nky.1_Silent_p.A18A|GDPD2_uc011mpk.1_Silent_p.A232A|GDPD2_uc011mpl.1_Silent_p.A153A|GDPD2_uc011mpm.1_Silent_p.A153A	NM_017711	NP_060181	Q9HCC8	GDPD2_HUMAN	osteoblast differentiation promoting factor	232	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol inositolphosphodiesterase activity|metal ion binding			ovary(2)	2	Renal(35;0.156)					ACCGAGGGGCCCCCATGGTGA	0.617													29	26	---	---	---	---	PASS	A	69646855	A	A	69646855	2	1	33	1	0	0	0	0	0	0	0	1	6324	610	22	3		3	GDPD2	23	69646855	Silent	SNP	C	TCGA-22-1016-01A-01D-1521-08	14810338	69646855	85623705	379	13646										
NAP1L2	4674	broad.mit.edu	37	chrX	72433581	72433581	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aggagtgagtgtatcaacgtTttttaaaacagttagccaaa	9	5	1	1			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:72433581T>A	uc004ebi.2	-	1	1104	c.748A>T	c.(748-750)AAC>TAC	p.N250Y	NAP1L2_uc011mqj.1_Missense_Mutation_p.N108Y	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	250					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					GTATCAACGTTTTTTAAAACA	0.363													11	68	---	---	---	---	PASS	A	72433581	A	A	72433581	3	1	33	1	0	0	0	0	1	0	0	0	10157	1841	64	5	638	5	NAP1L2	23	72433581	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	2786726	72433581	82836979	380	13647										
KLHL4	56062	broad.mit.edu	37	chrX	86869436	86869436	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	acaaatatttcctatttccaGgttggttctcagcgcagtgt	8	9	1	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:86869436G>T	uc004efb.2	+	3	773	c.591_splice	c.e3-1	p.R197_splice	KLHL4_uc004efa.2_Splice_Site_p.R197_splice	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1							cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CCTATTTCCAGGTTGGTTCTC	0.368													26	41	---	---	---	---	PASS	T	86869436	T	T	86869436	5	4	33	1	0	0	0	0	0	0	1	0	8391	1014	35	3	600	3	KLHL4	23	86869436	Splice_Site	SNP	G	TCGA-22-1016-01A-01D-1521-08	14435855	86869436	68401124	381	13648										
TGIF2LX	90316	broad.mit.edu	37	chrX	89177593	89177593	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	aaagggccagatgtcaagagAgaagcaaccagatccggagt	13	8	1	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:89177593A>G	uc004efe.2	+	2	558	c.509A>G	c.(508-510)GAG>GGG	p.E170G		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	170						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						ATGTCAAGAGAGAAGCAACCA	0.587													14	31	---	---	---	---	PASS	G	89177593	G	G	89177593	3	3	33	1	0	0	0	0	1	0	0	0	15824	304	11	5	511	5	TGIF2LX	23	89177593	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	2308157	89177593	66092967	382	13649										
TGIF2LX	90316	broad.mit.edu	37	chrX	89177791	89177791	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cgagctggagctagagaagaAgcaagagcctaatccatgat	12	8	0	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:89177791A>C	uc004efe.2	+	2	756	c.707A>C	c.(706-708)AAG>ACG	p.K236T		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	236						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						CTAGAGAAGAAGCAAGAGCCT	0.483													22	46	---	---	---	---	PASS	C	89177791	C	C	89177791	3	2	33	1	0	0	0	0	1	0	0	0	15824	72	3	5	709	5	TGIF2LX	23	89177791	Missense_Mutation	SNP	A	TCGA-22-1016-01A-01D-1521-08	198	89177791	66092769	383	13650										
TEX13A	56157	broad.mit.edu	37	chrX	104464163	104464163	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ggattctctccagcttctctGtggtctccatggaggcagcc	11	13	3	0			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:104464163G>C	uc004ema.2	-	5	825	c.713C>G	c.(712-714)ACA>AGA	p.T238R	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Missense_Mutation_p.Q239E	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	238						intracellular	zinc ion binding			ovary(2)	2						CAGCTTCTCTGTGGTCTCCAT	0.627													14	17	---	---	---	---	PASS	C	104464163	C	C	104464163	3	2	33	1	0	0	0	0	1	0	0	0	15773	1386	48	4	520	4	TEX13A	23	104464163	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	15286372	104464163	50806397	384	13651										
CAPN6	827	broad.mit.edu	37	chrX	110497519	110497519	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cctttgtccaatgagactccTgaacagccaaacaggaaaat	7	11	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:110497519T>C	uc004epc.1	-	3	446	c.278A>G	c.(277-279)CAG>CGG	p.Q93R	CAPN6_uc011msu.1_5'UTR	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	93	Calpain catalytic.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						ATGAGACTCCTGAACAGCCAA	0.458													38	66	---	---	---	---	PASS	C	110497519	C	C	110497519	3	2	33	1	0	0	0	0	1	0	0	0	2630	1580	55	5	1691	5	CAPN6	23	110497519	Missense_Mutation	SNP	T	TCGA-22-1016-01A-01D-1521-08	6033356	110497519	44773041	385	13652										
LUZP4	51213	broad.mit.edu	37	chrX	114541191	114541191	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	tcagagagatctcatagccaCtcagaaagatctcatagcca	7	11	4	4			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:114541191C>A	uc004eqa.2	+	4	798	c.764C>A	c.(763-765)ACT>AAT	p.T255N	LUZP4_uc004eqb.2_Missense_Mutation_p.T173N	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	255						nucleus				ovary(2)	2						CTCATAGCCACTCAGAAAGAT	0.473													8	100	---	---	---	---	PASS	A	114541191	A	A	114541191	3	1	33	1	0	0	0	0	1	0	0	0	9088	565	20	3	778	3	LUZP4	23	114541191	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	4043672	114541191	40729369	386	13653										
NKAP	79576	broad.mit.edu	37	chrX	119077307	119077307	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agaagcgaaggggatgccccGgggcgcagagggccgctctc	18	12	1	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:119077307G>A	uc004esh.2	-	1	429	c.262C>T	c.(262-264)CGG>TGG	p.R88W		NM_024528	NP_078804	Q8N5F7	NKAP_HUMAN	NFKB activating protein	88	Ser-rich.				negative regulation of transcription, DNA-dependent|Notch signaling pathway|positive regulation of alpha-beta T cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	chromatin binding|protein binding			ovary(2)	2						GGGATGCCCCGGGGCGCAGAG	0.652													14	23	---	---	---	---	PASS	A	119077307	A	A	119077307	3	1	33	1	0	0	0	0	1	0	0	0	10439	1115	39	1	1021	1	NKAP	23	119077307	Missense_Mutation	SNP	G	TCGA-22-1016-01A-01D-1521-08	4536116	119077307	36193253	387	13654										
SH2D1A	4068	broad.mit.edu	37	chrX	123504098	123504098	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	cagcatttcagaagccagatCaaggcattgtaatacctctg	8	10	3	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:123504098C>A	uc004euf.3	+	3	619	c.274C>A	c.(274-276)CAA>AAA	p.Q92K	SH2D1A_uc004euh.3_Missense_Mutation_p.Q92K|SH2D1A_uc004eug.3_RNA|SH2D1A_uc010nqw.2_RNA|SH2D1A_uc004eui.3_RNA|SH2D1A_uc010nqx.2_RNA	NM_002351	NP_002342	O60880	SH21A_HUMAN	SH2 domain protein 1A isoform 1	92	SH2.				cell-cell signaling|cellular defense response	cytoplasm	SH3/SH2 adaptor activity				0						GAAGCCAGATCAAGGCATTGT	0.378									X-linked_Lymphoproliferative_syndrome				79	93	---	---	---	---	PASS	A	123504098	A	A	123504098	3	1	33	1	0	0	0	0	1	0	0	0	14230	827	29	2	284	2	SH2D1A	23	123504098	Missense_Mutation	SNP	C	TCGA-22-1016-01A-01D-1521-08	4426791	123504098	31766462	388	13655										
UBE2NL	389898	broad.mit.edu	37	chrX	142967583	142967583	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	ccattagcaaatgatgtagtGgagcagtggaagaccaacga	12	7	0	2			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:142967583G>A	uc004fca.2	+	1	411	c.381G>A	c.(379-381)GTG>GTA	p.V127V		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	127							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					ATGATGTAGTGGAGCAGTGGA	0.448													48	88	---	---	---	---	PASS	A	142967583	A	A	142967583	2	1	33	1	0	0	0	0	0	0	0	1	16864	1335	47	3		3	UBE2NL	23	142967583	Silent	SNP	G	TCGA-22-1016-01A-01D-1521-08	19463485	142967583	12302977	389	13656										
VAMP7	6845	broad.mit.edu	37	chrX	155127868	155127868	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	28	0.0498592789956855	1.43906291129245	2.43340084125253	0.931536259541985	0.49497422753308	0.81842946137857	9	agagcacagacagcacttccAtatgccatgaatagcgagtt	9	10	0	3			TCGA-22-1016-01A-01D-1521-08	TCGA-22-1016-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	935b113e-f5ed-4a07-8e1d-1603daba7f40	1845bc27-c3d3-4254-909c-2dc91f9e296b	g.chrX:155127868A>G	uc004fnr.2	+	4	471	c.297A>G	c.(295-297)CCA>CCG	p.P99P	VAMP7_uc004fnt.2_Silent_p.P58P|VAMP7_uc011naa.1_Silent_p.P60P|VAMP7_uc011nab.1_5'UTR|VAMP7_uc004fns.2_Silent_p.P99P|VAMP7_uc011nac.1_Silent_p.P32P	NM_005638	NP_005629	P51809	VAMP7_HUMAN	vesicle-associated membrane protein 7 isoform 1	99	Longin.|Cytoplasmic (Potential).				calcium ion-dependent exocytosis|endosome to lysosome transport|eosinophil degranulation|ER to Golgi vesicle-mediated transport|neutrophil degranulation|phagocytosis, engulfment|post-Golgi vesicle-mediated transport|protein transport|vesicle fusion	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|phagocytic vesicle membrane|plasma membrane|SNARE complex|transport vesicle membrane	protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CAGCACTTCCATATGCCATGA	0.393													64	151	---	---	---	---	PASS	G	155127868	G	G	155127868	2	3	33	1	0	0	0	0	0	0	0	1	17114	204	8	5		5	VAMP7	23	155127868	Silent	SNP	A	TCGA-22-1016-01A-01D-1521-08	12160285	155127868	142692	390	13657										
NPHP4	261734	broad.mit.edu	37	chr1	5940192	5940192	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	acgccttgagcttccagtcgTgaggaggctgcctccagaga	13	12	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:5940192T>A	uc001alq.1	-	19	2859	c.2593A>T	c.(2593-2595)ACG>TCG	p.T865S	NPHP4_uc001als.1_RNA|NPHP4_uc009vlt.1_RNA|NPHP4_uc001alt.1_RNA	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	865					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		CTTCCAGTCGTGAGGAGGCTG	0.517													39	25	---	---	---	---	PASS	A	5940192	A	A	5940192	3	1	34	1	0	0	0	0	1	0	0	0	10581	1696	59	5	1735	5	NPHP4	1	5940192	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08		5940192	243310429	1	13658										
PRDM2	7799	broad.mit.edu	37	chr1	14105332	14105332	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgcaaatccccagaactaaaGaagaggccaatggtgatgta	10	8	0	4			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:14105332G>C	uc001avi.2	+	8	1898	c.1042G>C	c.(1042-1044)GAA>CAA	p.E348Q	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.E348Q|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.E105Q|PRDM2_uc001avk.2_Missense_Mutation_p.E147Q|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	348						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		CAGAACTAAAGAAGAGGCCAA	0.413													6	117	---	---	---	---	PASS	C	14105332	C	C	14105332	3	2	34	1	0	0	0	0	1	0	0	0	12458	943	33	2	1068	2	PRDM2	1	14105332	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	8165140	14105332	235145289	2	13659										
IGSF21	84966	broad.mit.edu	37	chr1	18703338	18703338	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttcacgtggacgcgggttggGagccgcctcctggacggcag	17	12	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:18703338G>T	uc001bau.1	+	8	1529	c.1146G>T	c.(1144-1146)GGG>GGT	p.G382G	IGSF21_uc001bav.1_Silent_p.G203G	NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	382	Ig-like 2.					extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		CGCGGGTTGGGAGCCGCCTCC	0.647													91	93	---	---	---	---	PASS	T	18703338	T	T	18703338	2	4	34	1	0	0	0	0	0	0	0	1	7599	1161	41	2		2	IGSF21	1	18703338	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	4598006	18703338	230547283	3	13660										
NBPF3	84224	broad.mit.edu	37	chr1	21804673	21804673	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gaagaggaggaagccccccaGgagtcctgggatgaaggtga	17	8	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:21804673G>A	uc001ber.2	+	9	1379	c.1029G>A	c.(1027-1029)CAG>CAA	p.Q343Q	NBPF3_uc001bes.2_Silent_p.Q287Q|NBPF3_uc009vqb.2_Silent_p.Q368Q|NBPF3_uc010odm.1_Silent_p.Q273Q	NM_032264	NP_115640	Q9H094	NBPF3_HUMAN	neuroblastoma breakpoint family, member 3	343	NBPF 2.					cytoplasm				upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(284;2.16e-05)|Lung NSC(340;2.19e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|OV - Ovarian serous cystadenocarcinoma(117;7.53e-27)|COAD - Colon adenocarcinoma(152;1.18e-05)|GBM - Glioblastoma multiforme(114;3.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000143)|STAD - Stomach adenocarcinoma(196;0.00306)|KIRC - Kidney renal clear cell carcinoma(1967;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		AAGCCCCCCAGGAGTCCTGGG	0.507													40	105	---	---	---	---	PASS	A	21804673	A	A	21804673	2	1	34	1	0	0	0	0	0	0	0	1	10197	991	35	3		3	NBPF3	1	21804673	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	3101335	21804673	227445948	4	13661										
ASAP3	55616	broad.mit.edu	37	chr1	23763446	23763446	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aggtccaaggtgagtgactgCatgcgcgaaaagcgcacgcc	14	11	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:23763446C>A	uc001bha.2	-	15	1558	c.1434G>T	c.(1432-1434)ATG>ATT	p.M478I	ASAP3_uc001bgy.1_5'Flank|ASAP3_uc001bgz.1_RNA|ASAP3_uc010odz.1_Missense_Mutation_p.M347I|ASAP3_uc010oea.1_Missense_Mutation_p.M469I|ASAP3_uc001bhb.2_Missense_Mutation_p.M1I	NM_017707	NP_060177	Q8TDY4	ASAP3_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	478	Arf-GAP.				regulation of ARF GTPase activity	cytoplasm	ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						TGAGTGACTGCATGCGCGAAA	0.657													4	78	---	---	---	---	PASS	A	23763446	A	A	23763446	3	1	34	1	0	0	0	0	1	0	0	0	1012	710	25	3	1321	3	ASAP3	1	23763446	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	1958773	23763446	225487175	5	13662										
CSMD2	114784	broad.mit.edu	37	chr1	34049276	34049276	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aactcatcatattgcttctcGctgaggaagtactccactgt	7	11	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:34049276G>C	uc001bxn.1	-	48	7241	c.7212C>G	c.(7210-7212)AGC>AGG	p.S2404R	CSMD2_uc001bxm.1_Missense_Mutation_p.S2402R	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2404	CUB 14.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				ATTGCTTCTCGCTGAGGAAGT	0.413													62	57	---	---	---	---	PASS	C	34049276	C	C	34049276	3	2	34	1	0	0	0	0	1	0	0	0	3945	1078	38	4	3339	4	CSMD2	1	34049276	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	10285830	34049276	215201345	6	13663										
KCNQ4	9132	broad.mit.edu	37	chr1	41283880	41283880	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggcttggagtacatcgtccgGgtctggtccgccggatgctg	16	11	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:41283880G>A	uc001cgh.1	+	3	532	c.450G>A	c.(448-450)CGG>CGA	p.R150R	KCNQ4_uc001cgi.1_Silent_p.R150R	NM_004700	NP_004691	P56696	KCNQ4_HUMAN	potassium voltage-gated channel KQT-like protein	150	Helical; Name=Segment S2; (Potential).				sensory perception of sound	basal plasma membrane|voltage-gated potassium channel complex				central_nervous_system(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.38e-17)			ACATCGTCCGGGTCTGGTCCG	0.617													56	205	---	---	---	---	PASS	A	41283880	A	A	41283880	2	1	34	1	0	0	0	0	0	0	0	1	8085	1219	43	3		3	KCNQ4	1	41283880	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	7234604	41283880	207966741	7	13664										
PLK3	1263	broad.mit.edu	37	chr1	45271337	45271337	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tctgcgcctgctccgggaccGcagcccagcctaggacccaa	11	18	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:45271337G>A	uc001cmn.2	+	15	2028	c.1928G>A	c.(1927-1929)CGC>CAC	p.R643H	PLK3_uc001cmo.2_RNA|BTBD19_uc010old.1_5'Flank|BTBD19_uc010ole.1_5'Flank	NM_004073	NP_004064	Q9H4B4	PLK3_HUMAN	polo-like kinase 3	643						membrane	ATP binding|protein binding|protein serine/threonine kinase activity				0	Acute lymphoblastic leukemia(166;0.155)					CTCCGGGACCGCAGCCCAGCC	0.652													10	267	---	---	---	---	PASS	A	45271337	A	A	45271337	3	1	34	1	0	0	0	0	1	0	0	0	12097	1087	38	1	1986	1	PLK3	1	45271337	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	3987457	45271337	203979284	8	13665										
KANK4	163782	broad.mit.edu	37	chr1	62734103	62734103	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctgggccgtcacacttcttcTctgcctcgctgtcagacaag	9	15	4	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:62734103T>A	uc001dah.3	-	5	2464	c.2087A>T	c.(2086-2088)GAG>GTG	p.E696V	KANK4_uc001dai.3_Missense_Mutation_p.E68V|KANK4_uc001dag.3_Missense_Mutation_p.E52V	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	696										ovary(3)|skin(2)|lung(1)	6						ACACTTCTTCTCTGCCTCGCT	0.587													59	129	---	---	---	---	PASS	A	62734103	A	A	62734103	3	1	34	1	0	0	0	0	1	0	0	0	7979	1551	54	5	924	5	KANK4	1	62734103	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	17462766	62734103	186516518	9	13666										
C1orf173	127254	broad.mit.edu	37	chr1	75072462	75072462	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctcatttctttttggtatcaCatactctctctctttcctca	2	13	6	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:75072462C>A	uc001dgg.2	-	10	1531	c.1312G>T	c.(1312-1314)GTG>TTG	p.V438L	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.V232L	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	438	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TTTGGTATCACATACTCTCTC	0.408													28	36	---	---	---	---	PASS	A	75072462	A	A	75072462	3	1	34	1	0	0	0	0	1	0	0	0	2014	478	17	3	3300	3	C1orf173	1	75072462	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	12338359	75072462	174178159	10	13667										
GSTM5	2949	broad.mit.edu	37	chr1	110257798	110257798	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgatgtccttgacatgaagcGtatatttgagcccaagtgct	10	8	0	4			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:110257798G>A	uc001dyn.2	+	7	574	c.503G>A	c.(502-504)CGT>CAT	p.R168H	GSTM5_uc010ovu.1_Missense_Mutation_p.R127H	NM_000851	NP_000842	P46439	GSTM5_HUMAN	glutathione S-transferase mu 5	168	GST C-terminal.				xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity			central_nervous_system(6)	6		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Colorectal(144;0.0131)|all cancers(265;0.0252)|Epithelial(280;0.0265)|Lung(183;0.0425)|COAD - Colon adenocarcinoma(174;0.0474)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	GACATGAAGCGTATATTTGAG	0.473													14	438	---	---	---	---	PASS	A	110257798	A	A	110257798	3	1	34	1	0	0	0	0	1	0	0	0	6841	1145	40	1	529	1	GSTM5	1	110257798	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	35185336	110257798	138992823	11	13668										
IQGAP3	128239	broad.mit.edu	37	chr1	156524120	156524120	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	catcccgggcctccagggccCggttaatcaggaccacagct	11	16	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:156524120C>A	uc001fpf.2	-	13	1430	c.1355G>T	c.(1354-1356)CGG>CTG	p.R452L	IQGAP3_uc009wsb.1_Missense_Mutation_p.R409L	NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	452					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CTCCAGGGCCCGGTTAATCAG	0.617													4	91	---	---	---	---	PASS	A	156524120	A	A	156524120	3	1	34	1	0	0	0	0	1	0	0	0	7816	652	23	1	3644	1	IQGAP3	1	156524120	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	46266322	156524120	92726501	12	13669										
HAPLN2	60484	broad.mit.edu	37	chr1	156594436	156594436	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgtaacgcgggctggctgctCgagggctccgtgcgctaccc	15	14	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:156594436C>A	uc001fpn.1	+	6	1007	c.600C>A	c.(598-600)CTC>CTA	p.L200L		NM_021817	NP_068589	Q9GZV7	HPLN2_HUMAN	brain link protein-1 precursor	200	Link 1.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCTGGCTGCTCGAGGGCTCCG	0.726													4	62	---	---	---	---	PASS	A	156594436	A	A	156594436	2	1	34	1	0	0	0	0	0	0	0	1	6955	871	31	2		2	HAPLN2	1	156594436	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	70316	156594436	92656185	13	13670										
ETV3L	440695	broad.mit.edu	37	chr1	157062600	157062600	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggagcaggctttacttccagCccctcgggcctgagggacaa	13	13	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:157062600C>A	uc001fqq.1	-	5	1212	c.927G>T	c.(925-927)GGG>GGT	p.G309G		NM_001004341	NP_001004341	Q6ZN32	ETV3L_HUMAN	ets variant 3-like	309						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Hepatocellular(266;0.158)	Prostate(1639;0.184)				TTACTTCCAGCCCCTCGGGCC	0.627													120	21	---	---	---	---	PASS	A	157062600	A	A	157062600	2	1	34	1	0	0	0	0	0	0	0	1	5280	726	26	3		3	ETV3L	1	157062600	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	468164	157062600	92188021	14	13671										
CRP	1401	broad.mit.edu	37	chr1	159683677	159683677	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tggagctactgtgacttcagGaacctcgaataatatttcag	9	8	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:159683677G>A	uc001ftw.2	-	2	417	c.313C>T	c.(313-315)CCT>TCT	p.P105S	CRP_uc001ftx.1_Intron|CRP_uc001fty.1_RNA	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	105	Pentaxin.				acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	GTGACTTCAGGAACCTCGAAT	0.468													123	33	---	---	---	---	PASS	A	159683677	A	A	159683677	3	1	34	1	0	0	0	0	1	0	0	0	3895	1174	41	2	365	2	CRP	1	159683677	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	2621077	159683677	89566944	15	13672										
SELE	6401	broad.mit.edu	37	chr1	169698481	169698481	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tggctgcacctcacagagccAttctgaggctggcggacggc	14	13	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:169698481A>T	uc001ggm.3	-	7	1093	c.936T>A	c.(934-936)AAT>AAA	p.N312K	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	312	Extracellular (Potential).|Sushi 3.				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					TCACAGAGCCATTCTGAGGCT	0.522													17	4	---	---	---	---	PASS	T	169698481	T	T	169698481	3	4	34	1	0	0	0	0	1	0	0	0	14013	214	8	5	924	5	SELE	1	169698481	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	10014804	169698481	79552140	16	13673										
TOR1AIP2	163590	broad.mit.edu	37	chr1	179820290	179820290	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcttctgttttatcctttggAtgtttccccacatttgcttc	5	11	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:179820290A>C	uc001gnk.2	-	4	631	c.243T>G	c.(241-243)CAT>CAG	p.H81Q	TOR1AIP2_uc001gnl.2_Missense_Mutation_p.H81Q	NM_145034	NP_659471	Q8NFQ8	TOIP2_HUMAN	torsin A interacting protein 2	81						endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1						TATCCTTTGGATGTTTCCCCA	0.443													3	112	---	---	---	---	PASS	C	179820290	C	C	179820290	3	2	34	1	0	0	0	0	1	0	0	0	16370	330	12	5	1181	5	TOR1AIP2	1	179820290	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	10121809	179820290	69430331	17	13674										
CACNA1E	777	broad.mit.edu	37	chr1	181479612	181479612	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tccttaactccgctttcccaCgccatttgagtacatgatcc	5	15	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:181479612C>T	uc001gow.2	+	2	432	c.267_splice	c.e2-1	p.P89_splice	CACNA1E_uc009wxr.2_5'Flank|CACNA1E_uc009wxs.2_5'Flank	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,						energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CGCTTTCCCACGCCATTTGAG	0.532													55	14	---	---	---	---	PASS	T	181479612	T	T	181479612	5	4	34	1	0	0	0	0	0	0	1	0	2542	550	19	1	272	1	CACNA1E	1	181479612	Splice_Site	SNP	C	TCGA-22-4591-01A-01D-1267-08	1659322	181479612	67771009	18	13675										
GLT25D2	23127	broad.mit.edu	37	chr1	183944266	183944266	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccatttttccctcgcagttcGaagggctgcctgtcgtagtt	10	12	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:183944266G>T	uc001gqr.2	-	3	829	c.457C>A	c.(457-459)CGA>AGA	p.R153R	GLT25D2_uc010poj.1_Silent_p.R153R|GLT25D2_uc001gqs.2_Silent_p.R33R	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	153					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						CTCGCAGTTCGAAGGGCTGCC	0.423													4	42	---	---	---	---	PASS	T	183944266	T	T	183944266	2	4	34	1	0	0	0	0	0	0	0	1	6467	1066	37	2		2	GLT25D2	1	183944266	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	2464654	183944266	65306355	19	13676										
FAM5C	339479	broad.mit.edu	37	chr1	190234022	190234022	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gcagtggatgcaatttgaatGtggtgaagtctccgaagggt	15	5	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:190234022G>A	uc001gse.1	-	4	823	c.591C>T	c.(589-591)CAC>CAT	p.H197H	FAM5C_uc010pot.1_Silent_p.H95H	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	197						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CAATTTGAATGTGGTGAAGTC	0.423													107	40	---	---	---	---	PASS	A	190234022	A	A	190234022	2	1	34	1	0	0	0	0	0	0	0	1	5594	1368	48	3		3	FAM5C	1	190234022	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	6289756	190234022	59016599	20	13677										
ASPM	259266	broad.mit.edu	37	chr1	197072612	197072612	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttttgctggatgactaatgcTgctgttttaaacaatctaaa	7	6	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:197072612T>C	uc001gtu.2	-	18	6026	c.5769A>G	c.(5767-5769)GCA>GCG	p.A1923A	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1923	IQ 11.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TGACTAATGCTGCTGTTTTAA	0.423													27	7	---	---	---	---	PASS	C	197072612	C	C	197072612	2	2	34	1	0	0	0	0	0	0	0	1	1056	1567	55	5		5	ASPM	1	197072612	Silent	SNP	T	TCGA-22-4591-01A-01D-1267-08	6838590	197072612	52178009	21	13678										
ASPM	259266	broad.mit.edu	37	chr1	197112527	197112527	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tctcctctttggccattaacAtttacggaattaaaggaagt	7	8	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:197112527A>T	uc001gtu.2	-	3	1112	c.855T>A	c.(853-855)AAT>AAA	p.N285K	ASPM_uc001gtv.2_Missense_Mutation_p.N285K|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	285					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GGCCATTAACATTTACGGAAT	0.343													12	66	---	---	---	---	PASS	T	197112527	T	T	197112527	3	4	34	1	0	0	0	0	1	0	0	0	1056	214	8	5	9682	5	ASPM	1	197112527	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	39915	197112527	52138094	22	13679										
MARK1	4139	broad.mit.edu	37	chr1	220777445	220777445	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cttagttgcccatggaagaaTgaaagagaaagaggcccgtg	13	7	0	4			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:220777445T>G	uc001hmn.3	+	6	1058	c.461T>G	c.(460-462)ATG>AGG	p.M154R	MARK1_uc009xdw.2_Missense_Mutation_p.M154R|MARK1_uc010pun.1_Missense_Mutation_p.M154R|MARK1_uc001hmm.3_Missense_Mutation_p.M132R	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1	154	Protein kinase.				intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		CATGGAAGAATGAAAGAGAAA	0.343													15	2	---	---	---	---	PASS	G	220777445	G	G	220777445	3	3	34	1	0	0	0	0	1	0	0	0	9312	1464	51	5	483	5	MARK1	1	220777445	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	23664918	220777445	28473176	23	13680										
MTR	4548	broad.mit.edu	37	chr1	236992548	236992548	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tccacctgccactgcttttgAaggacatatgttactgtctg	8	11	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:236992548A>T	uc001hyi.3	+	12	1478	c.1055A>T	c.(1054-1056)GAA>GTA	p.E352V	MTR_uc010pxw.1_5'UTR|MTR_uc010pxx.1_Missense_Mutation_p.E352V|MTR_uc010pxy.1_Missense_Mutation_p.E352V|MTR_uc009xgj.1_3'UTR	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	352					nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	ACTGCTTTTGAAGGACATATG	0.393													50	17	---	---	---	---	PASS	T	236992548	T	T	236992548	3	4	34	1	0	0	0	0	1	0	0	0	9958	246	9	5	1101	5	MTR	1	236992548	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	16215103	236992548	12258073	24	13681										
RYR2	6262	broad.mit.edu	37	chr1	237774248	237774248	+	Missense_Mutation	SNP	C	A	A													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggttggtgcagtgtttggatCctctgcagttcatgtctctt							TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:237774248C>A	uc001hyl.1	+	36	4990	c.4870C>A	c.(4870-4872)CCT>ACT	p.P1624T		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1624	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GTGTTTGGATCCTCTGCAGTT	0.517													8	2	---	---	---	---	PASS	A	237774248	A	A	237774248	3	1	34	1	0	0	0	0	1	0	0	0	13769	855	30	2	5012	2	RYR2	1	237774248	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	781700	237774248	11476373	25	13682	356	2								
RYR2	6262	broad.mit.edu	37	chr1	237774249	237774249	+	Missense_Mutation	SNP	C	A	A													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gttggtgcagtgtttggatcCtctgcagttcatgtctcttc							TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:237774249C>A	uc001hyl.1	+	36	4991	c.4871C>A	c.(4870-4872)CCT>CAT	p.P1624H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1624	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TGTTTGGATCCTCTGCAGTTC	0.517													8	2	---	---	---	---	PASS	A	237774249	A	A	237774249	3	1	34	1	0	0	0	0	1	0	0	0	13769	681	24	3	5013	3	RYR2	1	237774249	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	1	237774249	11476372	26	13683	356	2								
CNST	163882	broad.mit.edu	37	chr1	246811035	246811035	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cggttctgagaatgtgctctGtggaaataatcaaatatctg	10	6	4	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:246811035G>T	uc001ibp.2	+	9	1910	c.1532G>T	c.(1531-1533)TGT>TTT	p.C511F	CNST_uc001ibo.3_Missense_Mutation_p.C511F	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						AATGTGCTCTGTGGAAATAAT	0.448													4	98	---	---	---	---	PASS	T	246811035	T	T	246811035	3	4	34	1	0	0	0	0	1	0	0	0	3634	1377	48	3	1562	3	CNST	1	246811035	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	9036786	246811035	2439586	27	13684										
OR2L13	284521	broad.mit.edu	37	chr1	248262792	248262792	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcatattctttctggcctcgGtgggtaactcggccatgatt	10	10	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr1:248262792G>A	uc001ids.2	+	3	452	c.115G>A	c.(115-117)GTG>ATG	p.V39M		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			TCTGGCCTCGGTGGGTAACTC	0.463													58	14	---	---	---	---	PASS	A	248262792	A	A	248262792	3	1	34	1	0	0	0	0	1	0	0	0	11006	1261	44	3	117	3	OR2L13	1	248262792	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	1451757	248262792	987829	28	13685										
SPAST	6683	broad.mit.edu	37	chr2	32339808	32339808	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctggatctgcaggcctttcaGgccaccatagagcacctagt	10	13	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:32339808G>A	uc002roc.2	+	5	1005	c.784G>A	c.(784-786)GGC>AGC	p.G262S	SPAST_uc002rod.2_Missense_Mutation_p.G230S	NM_014946	NP_055761	Q9UBP0	SPAST_HUMAN	spastin isoform 1	262	Required for interaction with RTN1.|Sufficient for microtubule severing.|Sufficient for interaction with microtubules.				cell cycle|cell death|cell differentiation|cytokinesis, completion of separation|ER to Golgi vesicle-mediated transport|microtubule bundle formation|microtubule severing|nervous system development|protein hexamerization|protein homooligomerization	endoplasmic reticulum|endosome|integral to membrane|microtubule|microtubule organizing center|nucleus|perinuclear region of cytoplasm|spindle	alpha-tubulin binding|ATP binding|beta-tubulin binding|microtubule binding|microtubule-severing ATPase activity			breast(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					AGGCCTTTCAGGCCACCATAG	0.453													46	54	---	---	---	---	PASS	A	32339808	A	A	32339808	3	1	34	1	0	0	0	0	1	0	0	0	14996	1000	35	3	802	3	SPAST	2	32339808	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08		32339808	210859565	29	13686										
CYP26B1	56603	broad.mit.edu	37	chr2	72359597	72359597	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tccggacaccgccaccgaacGggaggtaatggaagcggcca	14	13	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:72359597G>A	uc002sih.1	-	6	1298	c.1298C>T	c.(1297-1299)CCG>CTG	p.P433L	CYP26B1_uc010yra.1_Missense_Mutation_p.P416L|CYP26B1_uc010yrb.1_Missense_Mutation_p.P358L	NM_019885	NP_063938	Q9NR63	CP26B_HUMAN	cytochrome P450, family 26, subfamily b,	433					cell fate determination|embryonic limb morphogenesis|male meiosis|negative regulation of retinoic acid receptor signaling pathway|proximal/distal pattern formation|retinoic acid catabolic process|spermatogenesis|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			skin(2)	2						GCCACCGAACGGGAGGTAATG	0.637													144	158	---	---	---	---	PASS	A	72359597	A	A	72359597	3	1	34	1	0	0	0	0	1	0	0	0	4156	1116	39	1	244	1	CYP26B1	2	72359597	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	40019789	72359597	170839776	30	13687										
RAB11FIP5	26056	broad.mit.edu	37	chr2	73303134	73303134	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gccttaccttcagccttttgGtgtccaccatctggccagcc	8	16	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:73303134G>C	uc002siu.3	-	4	1986	c.1745C>G	c.(1744-1746)ACC>AGC	p.T582S	RAB11FIP5_uc002sis.3_5'UTR|RAB11FIP5_uc002sit.3_Missense_Mutation_p.T504S	NM_015470	NP_056285	Q9BXF6	RFIP5_HUMAN	RAB11 family interacting protein 5 (class I)	582					protein transport	mitochondrial outer membrane|recycling endosome membrane	gamma-tubulin binding				0						CAGCCTTTTGGTGTCCACCAT	0.612													18	856	---	---	---	---	PASS	C	73303134	C	C	73303134	3	2	34	1	0	0	0	0	1	0	0	0	12897	1261	44	4	224	4	RAB11FIP5	2	73303134	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	943537	73303134	169896239	31	13688										
CNGA3	1261	broad.mit.edu	37	chr2	99013414	99013414	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cctcaccgagtaccccgaagCcaagaaggccctggaggaga	12	14	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:99013414C>A	uc002syt.2	+	8	2198	c.1781C>A	c.(1780-1782)GCC>GAC	p.A594D	CNGA3_uc002syu.2_Missense_Mutation_p.A576D|CNGA3_uc010fij.2_Missense_Mutation_p.A598D	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	594	cGMP.				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						TACCCCGAAGCCAAGAAGGCC	0.607													98	98	---	---	---	---	PASS	A	99013414	A	A	99013414	3	1	34	1	0	0	0	0	1	0	0	0	3598	739	26	3	1807	3	CNGA3	2	99013414	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	25710280	99013414	144185959	32	13689										
LONRF2	164832	broad.mit.edu	37	chr2	100906865	100906865	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cgtccttaatctccagcatgCatccatactctgaaagcctg	6	14	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:100906865C>T	uc002tal.3	-	10	2415	c.1775G>A	c.(1774-1776)TGC>TAC	p.C592Y	LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	592	Lon.				proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						CTCCAGCATGCATCCATACTC	0.453													65	122	---	---	---	---	PASS	T	100906865	T	T	100906865	3	4	34	1	0	0	0	0	1	0	0	0	8895	710	25	3	501	3	LONRF2	2	100906865	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	1893451	100906865	142292508	33	13690										
DPP10	57628	broad.mit.edu	37	chr2	116525900	116525900	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agcccgtgttttctagagacGgcagcaaattctttatgaca	9	9	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:116525900G>A	uc002tla.1	+	13	1598	c.1141G>A	c.(1141-1143)GGC>AGC	p.G381S	DPP10_uc002tlb.1_Missense_Mutation_p.G331S|DPP10_uc002tlc.1_Missense_Mutation_p.G377S|DPP10_uc002tle.2_Missense_Mutation_p.G385S|DPP10_uc002tlf.1_Missense_Mutation_p.G374S	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	381	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TTCTAGAGACGGCAGCAAATT	0.453													3	7	---	---	---	---	PASS	A	116525900	A	A	116525900	3	1	34	1	0	0	0	0	1	0	0	0	4727	1116	39	1	1362	1	DPP10	2	116525900	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	15619035	116525900	126673473	34	13691										
CCDC93	54520	broad.mit.edu	37	chr2	118688708	118688708	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtctcttctcattttgttctCttgctttttcttttccatct	3	11	5	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:118688708C>G	uc002tlj.2	-	23	1873	c.1747G>C	c.(1747-1749)GAG>CAG	p.E583Q		NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	583	Potential.									large_intestine(1)|ovary(1)	2						ATTTTGTTCTCTTGCTTTTTC	0.418													4	162	---	---	---	---	PASS	G	118688708	G	G	118688708	3	3	34	1	0	0	0	0	1	0	0	0	2872	922	32	2	156	2	CCDC93	2	118688708	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	2162808	118688708	124510665	35	13692										
ZEB2	9839	broad.mit.edu	37	chr2	145157428	145157428	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccaagtaaaggggcttccatCcctacacctaagtgctgcat	8	13	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:145157428C>T	uc002tvu.2	-	8	1806	c.1326G>A	c.(1324-1326)GGG>GGA	p.G442G	ZEB2_uc002tvv.2_Silent_p.G436G|ZEB2_uc010zbm.1_Silent_p.G413G|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Silent_p.G471G	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	442	SMAD-MH2 binding domain (By similarity).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		GGGCTTCCATCCCTACACCTA	0.453													3	21	---	---	---	---	PASS	T	145157428	T	T	145157428	2	4	34	1	0	0	0	0	0	0	0	1	17621	842	30	2		2	ZEB2	2	145157428	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	26468720	145157428	98041945	36	13693										
ACVR1C	130399	broad.mit.edu	37	chr2	158443728	158443728	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggtgcagtgttatgttgttgCaaaaatctgtgaagcagcat	12	5	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:158443728C>T	uc002tzk.3	-	2	518	c.275G>A	c.(274-276)TGC>TAC	p.C92Y	ACVR1C_uc002tzl.3_Missense_Mutation_p.C92Y|ACVR1C_uc010fof.2_Missense_Mutation_p.C92Y|ACVR1C_uc010foe.2_Missense_Mutation_p.C42Y	NM_145259	NP_660302	Q8NER5	ACV1C_HUMAN	activin A receptor, type IC isoform 1	92	Extracellular (Potential).				apoptosis|cell differentiation|regulation of apoptosis	activin receptor complex	activin receptor activity, type I|ATP binding|transforming growth factor beta receptor activity			lung(3)|ovary(2)|skin(2)	7						TATGTTGTTGCAAAAATCTGT	0.388													8	42	---	---	---	---	PASS	T	158443728	T	T	158443728	3	4	34	1	0	0	0	0	1	0	0	0	222	710	25	3	1238	3	ACVR1C	2	158443728	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	13286300	158443728	84755645	37	13694										
SCN1A	6323	broad.mit.edu	37	chr2	166892736	166892736	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgctgccagttcctataccaCttgtagttccatttacatct	5	12	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:166892736C>G	uc010zcz.1	-	16	3236	c.3218G>C	c.(3217-3219)AGT>ACT	p.S1073T	SCN1A_uc002udo.3_Missense_Mutation_p.S953T|SCN1A_uc010fpk.2_Missense_Mutation_p.S925T	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1084						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TCCTATACCACTTGTAGTTCC	0.348													12	9	---	---	---	---	PASS	G	166892736	G	G	166892736	3	3	34	1	0	0	0	0	1	0	0	0	13914	565	20	4	2822	4	SCN1A	2	166892736	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	8449008	166892736	76306637	38	13695										
SCN1A	6323	broad.mit.edu	37	chr2	166900488	166900488	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cccacatcctttgctcgcccTctaaagctgaaaaggcttgt	7	14	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:166900488T>A	uc010zcz.1	-	11	1752	c.1734A>T	c.(1732-1734)AGA>AGT	p.R578S	SCN1A_uc002udo.3_Missense_Mutation_p.R447S|SCN1A_uc010fpk.2_Missense_Mutation_p.R447S	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	578						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TTGCTCGCCCTCTAAAGCTGA	0.463													9	26	---	---	---	---	PASS	A	166900488	A	A	166900488	3	1	34	1	0	0	0	0	1	0	0	0	13914	1548	54	5	4359	5	SCN1A	2	166900488	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	7752	166900488	76298885	39	13696										
LRP2	4036	broad.mit.edu	37	chr2	170022562	170022562	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tggtgaattacagggaacatCcactgaaaggaaagatagaa	11	5	0	4			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:170022562C>G	uc002ues.2	-	62	11851	c.11638G>C	c.(11638-11640)GAT>CAT	p.D3880H		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3880	LDL-receptor class A 34.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CAGGGAACATCCACTGAAAGG	0.403													12	23	---	---	---	---	PASS	G	170022562	G	G	170022562	3	3	34	1	0	0	0	0	1	0	0	0	8956	855	30	2	2401	2	LRP2	2	170022562	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	3122074	170022562	73176811	40	13697										
STAT4	6775	broad.mit.edu	37	chr2	191899283	191899283	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	accgtttgtaccttgcagaaCttggcccaggtgaggtgacc	12	11	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:191899283C>G	uc002usm.1	-	18	1865	c.1611G>C	c.(1609-1611)AAG>AAC	p.K537N	STAT4_uc002usn.1_Missense_Mutation_p.K537N|STAT4_uc010zgk.1_Missense_Mutation_p.K382N|STAT4_uc002uso.2_Missense_Mutation_p.K537N	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	537					JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			CCTTGCAGAACTTGGCCCAGG	0.368													3	42	---	---	---	---	PASS	G	191899283	G	G	191899283	3	3	34	1	0	0	0	0	1	0	0	0	15266	564	20	4	663	4	STAT4	2	191899283	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	21876721	191899283	51300090	41	13698										
ANKRD44	91526	broad.mit.edu	37	chr2	197878319	197878319	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gataagcgcttccacacattCtgtgtgtcctttaaaggcag	9	10	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:197878319C>T	uc002uua.1	-	18	1842	c.1765G>A	c.(1765-1767)GAA>AAA	p.E589K	ANKRD44_uc002utz.3_Missense_Mutation_p.E321K	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	614	ANK 18.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			TCCACACATTCTGTGTGTCCT	0.502													13	216	---	---	---	---	PASS	T	197878319	T	T	197878319	3	4	34	1	0	0	0	0	1	0	0	0	672	922	32	2	1030	2	ANKRD44	2	197878319	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	5979036	197878319	45321054	42	13699										
ALS2	57679	broad.mit.edu	37	chr2	202598015	202598015	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttaccacttcaaaacaagtaGcaagctttagcaaaactttt	4	9	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:202598015G>A	uc002uyo.2	-	13	2920	c.2564C>T	c.(2563-2565)GCT>GTT	p.A855V	ALS2_uc002uyp.3_Missense_Mutation_p.A855V|ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	855	DH.				cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						AAAACAAGTAGCAAGCTTTAG	0.378													5	16	---	---	---	---	PASS	A	202598015	A	A	202598015	3	1	34	1	0	0	0	0	1	0	0	0	550	971	34	3	2497	3	ALS2	2	202598015	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	4719696	202598015	40601358	43	13700										
INO80D	54891	broad.mit.edu	37	chr2	206869230	206869230	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	atgccactgtgagaactcagCtggtggccaaaggctgcgct	13	11	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:206869230C>A	uc002vaz.3	-	11	3351	c.2946G>T	c.(2944-2946)CAG>CAT	p.Q982H		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	Error:Variant_position_missing_in_Q53TQ3_after_alignment					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						GAGAACTCAGCTGGTGGCCAA	0.567													3	25	---	---	---	---	PASS	A	206869230	A	A	206869230	3	1	34	1	0	0	0	0	1	0	0	0	7749	796	28	3	141	3	INO80D	2	206869230	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	4271215	206869230	36330143	44	13701										
CPS1	1373	broad.mit.edu	37	chr2	211476995	211476995	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gttgtctgaaccaagcagcaCgcgtatctatgccattgcca	9	12	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:211476995C>A	uc002vee.3	+	20	2678	c.2546C>A	c.(2545-2547)ACG>AAG	p.T849K	CPS1_uc010fur.2_Missense_Mutation_p.T855K|CPS1_uc010fus.2_Missense_Mutation_p.T398K	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	849					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)		CCAAGCAGCACGCGTATCTAT	0.428													3	22	---	---	---	---	PASS	A	211476995	A	A	211476995	3	1	34	1	0	0	0	0	1	0	0	0	3823	536	19	1	2646	1	CPS1	2	211476995	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	4607765	211476995	31722378	45	13702										
COL4A3	1285	broad.mit.edu	37	chr2	228102699	228102699	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cctagggttgtgtctgtaaaGacaaaggccagtgcttctgt	12	8	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:228102699G>C	uc002vom.1	+	2	265	c.103G>C	c.(103-105)GAC>CAC	p.D35H	COL4A3_uc002von.1_Missense_Mutation_p.D35H|COL4A3_uc002voo.1_Missense_Mutation_p.D35H|COL4A3_uc002vop.1_Missense_Mutation_p.D35H|uc002voq.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	35	7S domain.				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)		TGTCTGTAAAGACAAAGGCCA	0.428													4	117	---	---	---	---	PASS	C	228102699	C	C	228102699	3	2	34	1	0	0	0	0	1	0	0	0	3691	942	33	2	109	2	COL4A3	2	228102699	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	16625704	228102699	15096674	46	13703										
DNAJB3	414061	broad.mit.edu	37	chr2	234652362	234652362	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tccgcccccgcctcgccataGcggtcatagatatcgcgttt	9	16	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:234652362G>A	uc002vuz.2	-	1	300	c.201C>T	c.(199-201)CGC>CGT	p.R67R	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron	NM_001001394	NP_001001394	Q8WWF6	DNJB3_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 3	67	J.				protein folding		heat shock protein binding|unfolded protein binding				0						CCTCGCCATAGCGGTCATAGA	0.622													165	503	---	---	---	---	PASS	A	234652362	A	A	234652362	2	1	34	1	0	0	0	0	0	0	0	1	4621	958	34	3		3	DNAJB3	2	234652362	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	6549663	234652362	8547011	47	13704										
HDAC4	9759	broad.mit.edu	37	chr2	239975206	239975206	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agcgaggccatggcggtgacCgtctcggcttcttcgttctc	13	13	3	1	rs114003127	byFrequency	TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr2:239975206C>T	uc002vyk.3	-	26	3957	c.3165G>A	c.(3163-3165)ACG>ACA	p.T1055T	HDAC4_uc010fyy.2_Silent_p.T1012T	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	1055	Nuclear export signal (By similarity).|Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		TGGCGGTGACCGTCTCGGCTT	0.672													61	163	---	---	---	---	PASS	T	239975206	T	T	239975206	2	4	34	1	0	0	0	0	0	0	0	1	7009	639	23	1		1	HDAC4	2	239975206	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	5322844	239975206	3224167	48	13705										
IL17RC	84818	broad.mit.edu	37	chr3	9971821	9971821	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggctgtacttcactacccagCaaagcctccacggttaggac	9	14	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:9971821C>A	uc003bua.2	+	14	1715	c.1479C>A	c.(1477-1479)AGC>AGA	p.S493R	CIDEC_uc003bto.2_Intron|IL17RC_uc010hcs.2_Missense_Mutation_p.S397R|IL17RC_uc003btz.2_Missense_Mutation_p.S422R|IL17RC_uc011atp.1_Missense_Mutation_p.S261R|IL17RC_uc003bud.2_Intron|IL17RC_uc003bub.2_Missense_Mutation_p.S407R|IL17RC_uc010hct.2_Missense_Mutation_p.S422R|IL17RC_uc010hcu.2_Missense_Mutation_p.S405R|IL17RC_uc010hcv.2_Missense_Mutation_p.S390R|IL17RC_uc011atq.1_Missense_Mutation_p.S407R|IL17RC_uc003buc.2_5'UTR|IL17RC_uc003bue.2_Missense_Mutation_p.S58R	NM_153461	NP_703191	Q8NAC3	I17RC_HUMAN	interleukin 17 receptor C isoform 1 precursor	493	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|pancreas(1)	2						CACTACCCAGCAAAGCCTCCA	0.562													4	141	---	---	---	---	PASS	A	9971821	A	A	9971821	3	1	34	1	0	0	0	0	1	0	0	0	7641	709	25	3	1533	3	IL17RC	3	9971821	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08		9971821	188050609	49	13706										
LRRFIP2	9209	broad.mit.edu	37	chr3	37152528	37152528	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgctatgtctaagactgctaTagtttctctggtcaaagtag	9	7	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:37152528T>C	uc003cgp.2	-	10	890	c.467A>G	c.(466-468)TAT>TGT	p.Y156C	LRRFIP2_uc011ayf.1_Intron|LRRFIP2_uc003cgr.2_Intron|LRRFIP2_uc003cgs.3_Intron|LRRFIP2_uc003cgt.3_Intron	NM_006309	NP_006300	Q9Y608	LRRF2_HUMAN	leucine rich repeat (in FLII) interacting	156	DVL3-binding.|Ser-rich.				Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1						AAGACTGCTATAGTTTCTCTG	0.353													5	2	---	---	---	---	PASS	C	37152528	C	C	37152528	3	2	34	1	0	0	0	0	1	0	0	0	9028	1406	49	5	1778	5	LRRFIP2	3	37152528	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	27180707	37152528	160869902	50	13707										
NBEAL2	23218	broad.mit.edu	37	chr3	47045732	47045732	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cccagtctcatctcctagccAgactcccagaccccagcctg	6	20	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:47045732A>G	uc003cqp.2	+	37	6226	c.6047A>G	c.(6046-6048)CAG>CGG	p.Q2016R	NBEAL2_uc010hjm.1_Missense_Mutation_p.Q1393R|NBEAL2_uc010hjn.1_Missense_Mutation_p.Q412R|NBEAL2_uc010hjo.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	2016							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		TCTCCTAGCCAGACTCCCAGA	0.607													257	148	---	---	---	---	PASS	G	47045732	G	G	47045732	3	3	34	1	0	0	0	0	1	0	0	0	10189	188	7	5	6193	5	NBEAL2	3	47045732	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	9893204	47045732	150976698	51	13708										
APEH	327	broad.mit.edu	37	chr3	49720046	49720046	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgtggcccttatgggtggttCccatggtggcttcatttcct	12	10	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:49720046C>T	uc003cxf.2	+	19	2160	c.1760C>T	c.(1759-1761)TCC>TTC	p.S587F	APEH_uc010hkw.1_Missense_Mutation_p.S587F	NM_001640	NP_001631	P13798	ACPH_HUMAN	N-acylaminoacyl-peptide hydrolase	587		Charge relay system.			proteolysis	cytoplasm|nuclear membrane	serine-type endopeptidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		ATGGGTGGTTCCCATGGTGGC	0.572													151	262	---	---	---	---	PASS	T	49720046	T	T	49720046	3	4	34	1	0	0	0	0	1	0	0	0	768	855	30	2	1834	2	APEH	3	49720046	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	2674314	49720046	148302384	52	13709										
MAPKAPK3	7867	broad.mit.edu	37	chr3	50679721	50679721	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cgggatattggcactgccatCcagtttctgcacagccataa	9	12	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:50679721C>T	uc003day.1	+	7	1058	c.462C>T	c.(460-462)ATC>ATT	p.I154I	MAPKAPK3_uc003daz.1_Silent_p.I154I|MAPKAPK3_uc003dba.1_Silent_p.I154I|MAPKAPK3_uc010hlr.1_Silent_p.I154I	NM_004635	NP_004626	Q16644	MAPK3_HUMAN	mitogen-activated protein kinase-activated	154	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.0188)|Kidney(197;0.0223)		GCACTGCCATCCAGTTTCTGC	0.552													58	18	---	---	---	---	PASS	T	50679721	T	T	50679721	2	4	34	1	0	0	0	0	0	0	0	1	9290	845	30	2		2	MAPKAPK3	3	50679721	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	959675	50679721	147342709	53	13710										
ACY1	95	broad.mit.edu	37	chr3	52021589	52021589	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	taggcttttgaggagcagctGcagagctggtgccaggcagc	16	9	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:52021589G>T	uc003dcp.2	+	12	931	c.870G>T	c.(868-870)CTG>CTT	p.L290L	ACY1_uc011bea.1_Silent_p.L380L|ACY1_uc011beb.1_Silent_p.L290L|ACY1_uc003dcq.2_Silent_p.L290L	NM_000666	NP_000657	Q03154	ACY1_HUMAN	aminoacylase 1	290					cellular amino acid metabolic process|proteolysis	cytosol	aminoacylase activity|metal ion binding|metallopeptidase activity			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	L-Aspartic Acid(DB00128)	AGGAGCAGCTGCAGAGCTGGT	0.592													4	80	---	---	---	---	PASS	T	52021589	T	T	52021589	2	4	34	1	0	0	0	0	0	0	0	1	226	1306	46	3		3	ACY1	3	52021589	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	1341868	52021589	146000841	54	13711										
ROBO2	6092	broad.mit.edu	37	chr3	77607299	77607299	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	actgcagattaagaatttacGggtaagtaatattggacttg	10	4	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:77607299G>A	uc003dpy.3	+	9	2079	c.1436G>A	c.(1435-1437)CGG>CAG	p.R479Q	ROBO2_uc003dpz.2_Missense_Mutation_p.R483Q|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.R483Q	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	479	Ig-like C2-type 5.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		AAGAATTTACGGGTAAGTAAT	0.358													4	6	---	---	---	---	PASS	A	77607299	A	A	77607299	3	1	34	1	0	0	0	0	1	0	0	0	13514	1130	39	1	1472	1	ROBO2	3	77607299	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	25585710	77607299	120415131	55	13712										
EPHA3	2042	broad.mit.edu	37	chr3	89521680	89521680	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttccgcacaacaggtgactgGcttaatggtgtctggacagc	12	10	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:89521680G>A	uc003dqy.2	+	16	2982	c.2757G>A	c.(2755-2757)TGG>TGA	p.W919*	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	919	Cytoplasmic (Potential).|SAM.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		CAGGTGACTGGCTTAATGGTG	0.448										TSP Lung(6;0.00050)			67	21	---	---	---	---	PASS	A	89521680	A	A	89521680	4	1	34	1	0	0	0	0	0	1	0	0	5168	1212	42	3	2845	3	EPHA3	3	89521680	Nonsense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	11914381	89521680	108500750	56	13713										
GPR128	84873	broad.mit.edu	37	chr3	100354555	100354555	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agcaccacttaataacatttCttctgaagtccagattttaa	4	9	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:100354555C>T	uc003duc.2	+	5	750	c.482C>T	c.(481-483)TCT>TTT	p.S161F	GPR128_uc011bhc.1_5'UTR	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	161	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						AATAACATTTCTTCTGAAGTC	0.368													18	17	---	---	---	---	PASS	T	100354555	T	T	100354555	3	4	34	1	0	0	0	0	1	0	0	0	6641	913	32	2	500	2	GPR128	3	100354555	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	10832875	100354555	97667875	57	13714										
IMPG2	50939	broad.mit.edu	37	chr3	100962542	100962542	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctgtgggccaagccacactaAccatctctgtggagtgaaca	10	12	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:100962542A>T	uc003duq.1	-	13	2836	c.2633T>A	c.(2632-2634)GTT>GAT	p.V878D	IMPG2_uc011bhe.1_Missense_Mutation_p.V741D	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	878	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						AGCCACACTAACCATCTCTGT	0.463													20	17	---	---	---	---	PASS	T	100962542	T	T	100962542	3	4	34	1	0	0	0	0	1	0	0	0	7729	43	2	5	1120	5	IMPG2	3	100962542	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	607987	100962542	97059888	58	13715										
MORC1	27136	broad.mit.edu	37	chr3	108723688	108723688	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gcattcttcaggcacccttcAgttggttgagctctccagac	9	13	4	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:108723688A>G	uc003dxl.2	-	20	2148	c.2061T>C	c.(2059-2061)ACT>ACC	p.T687T	MORC1_uc011bhn.1_Silent_p.T666T	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	687					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						GGCACCCTTCAGTTGGTTGAG	0.358													45	107	---	---	---	---	PASS	G	108723688	G	G	108723688	2	3	34	1	0	0	0	0	0	0	0	1	9701	175	7	5		5	MORC1	3	108723688	Silent	SNP	A	TCGA-22-4591-01A-01D-1267-08	7761146	108723688	89298742	59	13716										
ADPRH	141	broad.mit.edu	37	chr3	119305233	119305233	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gcggctgtggggctgccatgCgggccatgtgcatcggtctc	17	12	1	0	rs137924029	byFrequency	TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:119305233C>T	uc003ecs.2	+	4	698	c.400C>T	c.(400-402)CGG>TGG	p.R134W	ADPRH_uc010hqv.2_Missense_Mutation_p.R134W|ADPRH_uc011bjb.1_Missense_Mutation_p.R27W|ADPRH_uc003ect.2_Missense_Mutation_p.R134W	NM_001125	NP_001116	P54922	ADPRH_HUMAN	ADP-ribosylarginine hydrolase	134					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding			ovary(1)	1		Lung NSC(201;0.0977)		GBM - Glioblastoma multiforme(114;0.23)		GGCTGCCATGCGGGCCATGTG	0.612													8	694	---	---	---	---	PASS	T	119305233	T	T	119305233	3	4	34	1	0	0	0	0	1	0	0	0	331	759	27	1	406	1	ADPRH	3	119305233	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	10581545	119305233	78717197	60	13717										
SEC22A	26984	broad.mit.edu	37	chr3	122942416	122942416	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tacactgtagttttattagcTctctgggagtgagctacatg	10	7	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:122942416T>C	uc003ege.2	+	3	272	c.193T>C	c.(193-195)TCT>CCT	p.S65P	SEC22A_uc003egf.2_Missense_Mutation_p.S65P	NM_012430	NP_036562	Q96IW7	SC22A_HUMAN	SEC22 vesicle trafficking protein homolog A	65	Cytoplasmic (Potential).|Longin.				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|integral to membrane	transporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0548)		TTTTATTAGCTCTCTGGGAGT	0.358													40	102	---	---	---	---	PASS	C	122942416	C	C	122942416	3	2	34	1	0	0	0	0	1	0	0	0	13988	1551	54	5	199	5	SEC22A	3	122942416	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	3637183	122942416	75080014	61	13718										
SOX14	8403	broad.mit.edu	37	chr3	137483637	137483637	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cgccgggaccatgtccaaacCttcagaccacatcaagcggc	9	16	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:137483637C>A	uc003erm.1	+	1	59	c.11C>A	c.(10-12)CCT>CAT	p.P4H		NM_004189	NP_004180	O95416	SOX14_HUMAN	SRY-box 14	4					negative regulation of transcription from RNA polymerase II promoter|nervous system development|transcription, DNA-dependent	nucleus	sequence-specific DNA binding				0						ATGTCCAAACCTTCAGACCAC	0.637													52	401	---	---	---	---	PASS	A	137483637	A	A	137483637	3	1	34	1	0	0	0	0	1	0	0	0	14945	681	24	3	13	3	SOX14	3	137483637	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	14541221	137483637	60538793	62	13719										
SUCNR1	56670	broad.mit.edu	37	chr3	151598819	151598819	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	catacttccccttataaatcCtgttataactgacaatggca	4	11	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:151598819C>T	uc003ezf.1	+	3	587	c.488C>T	c.(487-489)CCT>CTT	p.P163L		NM_033050	NP_149039	Q9BXA5	SUCR1_HUMAN	succinate receptor 1	163	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)		Succinic acid(DB00139)	CTTATAAATCCTGTTATAACT	0.403													45	98	---	---	---	---	PASS	T	151598819	T	T	151598819	3	4	34	1	0	0	0	0	1	0	0	0	15365	681	24	3	494	3	SUCNR1	3	151598819	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	14115182	151598819	46423611	63	13720										
SENP2	59343	broad.mit.edu	37	chr3	185337233	185337233	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tggaccaaaggggtaaatctCtttgaacaagaaattattct	8	6	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:185337233C>G	uc003fpn.2	+	13	1560	c.1389C>G	c.(1387-1389)CTC>CTG	p.L463L	SENP2_uc011brv.1_Silent_p.L453L|SENP2_uc011brw.1_Silent_p.L276L	NM_021627	NP_067640	Q9HC62	SENP2_HUMAN	SUMO1/sentrin/SMT3 specific protease 2	463	Protease.				mRNA transport|protein desumoylation|protein transport|proteolysis|regulation of Wnt receptor signaling pathway|transmembrane transport|Wnt receptor signaling pathway	cytoplasm|nuclear membrane|nuclear pore	protein binding|SUMO-specific protease activity				0	all_cancers(143;1.28e-10)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			GGGTAAATCTCTTTGAACAAG	0.408													93	55	---	---	---	---	PASS	G	185337233	G	G	185337233	2	3	34	1	0	0	0	0	0	0	0	1	14047	900	32	2		2	SENP2	3	185337233	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	33738414	185337233	12685197	64	13721										
BCL6	604	broad.mit.edu	37	chr3	187449662	187449662	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggttgatctcaggatctagaTtgatcacactaaggttgcat	10	7	3	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr3:187449662T>C	uc003frp.3	-	4	675	c.218A>G	c.(217-219)AAT>AGT	p.N73S	BCL6_uc011bsf.1_Missense_Mutation_p.N73S|BCL6_uc010hza.2_Intron|BCL6_uc003frq.1_Missense_Mutation_p.N73S	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	73	BTB.				negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		AGGATCTAGATTGATCACACT	0.443			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								14	98	---	---	---	---	PASS	C	187449662	C	C	187449662	3	2	34	1	0	0	0	0	1	0	0	0	1376	1493	52	5	1930	5	BCL6	3	187449662	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	2112429	187449662	10572768	65	13722										
GAK	2580	broad.mit.edu	37	chr4	898519	898519	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcttcagaaccgtgtcgcacGaaagggggcctcgagattcc	12	12	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr4:898519G>A	uc003gbm.3	-	5	630	c.431C>T	c.(430-432)TCG>TTG	p.S144L	GAK_uc003gbn.3_Missense_Mutation_p.S65L|GAK_uc010ibk.1_Intron|GAK_uc003gbo.2_RNA|GAK_uc003gbl.3_Missense_Mutation_p.S8L	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	144	Protein kinase.		S -> L.		cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		CGTGTCGCACGAAAGGGGGCC	0.463													80	30	---	---	---	---	PASS	A	898519	A	A	898519	3	1	34	1	0	0	0	0	1	0	0	0	6195	1059	37	2	3600	2	GAK	4	898519	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08		898519	190255757	66	13723										
YTHDC1	91746	broad.mit.edu	37	chr4	69179845	69179845	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tatatcgacctctctcccctCggtctctgtctcgatcacat	5	16	4	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr4:69179845C>T	uc003hdx.2	-	17	2509	c.2156G>A	c.(2155-2157)CGA>CAA	p.R719Q	YTHDC1_uc003hdy.2_Missense_Mutation_p.R701Q	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	719	Arg-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						TCTCTCCCctcggtctctgtc	0.159													3	20	---	---	---	---	PASS	T	69179845	T	T	69179845	3	4	34	1	0	0	0	0	1	0	0	0	17493	884	31	2	31	2	YTHDC1	4	69179845	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	68281326	69179845	121974431	67	13724										
WDFY3	23001	broad.mit.edu	37	chr4	85717868	85717868	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcatgtaagctaaaaacattAtcagtacccagaccttccag	5	11	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr4:85717868A>C	uc003hpd.2	-	19	3381	c.2973T>G	c.(2971-2973)GAT>GAG	p.D991E		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	991						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TAAAAACATTATCAGTACCCA	0.408													66	199	---	---	---	---	PASS	C	85717868	C	C	85717868	3	2	34	1	0	0	0	0	1	0	0	0	17267	446	16	5	7807	5	WDFY3	4	85717868	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	16538023	85717868	105436408	68	13725										
IBSP	3381	broad.mit.edu	37	chr4	88731837	88731837	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgagaataccacactttctgCtacaacactgggctatggag	9	10	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr4:88731837C>A	uc003hqx.3	+	6	424	c.326C>A	c.(325-327)GCT>GAT	p.A109D		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	109	Asp/Glu-rich (acidic).				biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		ACACTTTCTGCTACAACACTG	0.433													4	70	---	---	---	---	PASS	A	88731837	A	A	88731837	3	1	34	1	0	0	0	0	1	0	0	0	7475	797	28	3	344	3	IBSP	4	88731837	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	3013969	88731837	102422439	69	13726										
CXXC4	80319	broad.mit.edu	37	chr4	105412321	105412321	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccgcatttgagcttgttcatGcattcccccgccaaaggtct	8	14	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr4:105412321G>A	uc003hxg.2	-	1	147	c.132C>T	c.(130-132)TGC>TGT	p.C44C	uc003hxh.1_Intron|CXXC4_uc010ilo.2_Intron	NM_025212	NP_079488	Q9H2H0	CXXC4_HUMAN	CXXC finger 4	44					negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway|zygotic specification of dorsal/ventral axis		DNA binding|PDZ domain binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;3.05e-08)		GCTTGTTCATGCATTCCCCCG	0.547													36	855	---	---	---	---	PASS	A	105412321	A	A	105412321	2	1	34	1	0	0	0	0	0	0	0	1	4098	1311	46	3		3	CXXC4	4	105412321	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	16680484	105412321	85741955	70	13727										
PITX2	5308	broad.mit.edu	37	chr4	111542336	111542336	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctacccggactcgggcttccGtaaggttggtccacacagcg	12	14	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr4:111542336G>A	uc003iad.2	-	4	956	c.374C>T	c.(373-375)ACG>ATG	p.T125M	PITX2_uc003iac.2_Missense_Mutation_p.T132M|PITX2_uc003iae.2_Missense_Mutation_p.T79M|PITX2_uc010iml.2_Intron|PITX2_uc003iaf.2_Missense_Mutation_p.T125M|PITX2_uc003iag.1_Missense_Mutation_p.T132M	NM_153426	NP_700475	Q99697	PITX2_HUMAN	paired-like homeodomain transcription factor 2	125	Homeobox.				determination of left/right symmetry|organ morphogenesis	transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription factor binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00222)		TCGGGCTTCCGTAAGGTTGGT	0.592													23	85	---	---	---	---	PASS	A	111542336	A	A	111542336	3	1	34	1	0	0	0	0	1	0	0	0	11955	1145	40	1	587	1	PITX2	4	111542336	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	6130015	111542336	79611940	71	13728										
ANK2	287	broad.mit.edu	37	chr4	114294293	114294293	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gaaacagtcacagaagaagaAtacattgatgagcatggaca	10	6	1	5			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr4:114294293A>C	uc003ibe.3	+	44	11758	c.11658A>C	c.(11656-11658)GAA>GAC	p.E3886D	ANK2_uc003ibd.3_Missense_Mutation_p.E1792D|ANK2_uc003ibf.3_Missense_Mutation_p.E1801D|ANK2_uc011cgc.1_Missense_Mutation_p.E977D|ANK2_uc003ibg.3_Missense_Mutation_p.E816D|ANK2_uc003ibh.3_Missense_Mutation_p.E506D|ANK2_uc011cgd.1_Missense_Mutation_p.E1188D|ANK2_uc010imr.2_5'Flank|ANK2_uc010ims.2_5'Flank	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3853					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CAGAAGAAGAATACATTGATG	0.403													16	51	---	---	---	---	PASS	C	114294293	C	C	114294293	3	2	34	1	0	0	0	0	1	0	0	0	621	98	4	5	11897	5	ANK2	4	114294293	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	2751957	114294293	76859983	72	13729										
ANKRD50	57182	broad.mit.edu	37	chr4	125599886	125599886	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cgggcagaacagagaagcaaTagccatggtggaaagaactc	13	8	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr4:125599886T>C	uc003ifg.3	-	2	953	c.687A>G	c.(685-687)CTA>CTG	p.L229L	ANKRD50_uc011cgo.1_Silent_p.L50L|ANKRD50_uc010inw.2_Silent_p.L229L	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	229										central_nervous_system(1)	1						AGAGAAGCAATAGCCATGGTG	0.408													25	65	---	---	---	---	PASS	C	125599886	C	C	125599886	2	2	34	1	0	0	0	0	0	0	0	1	677	1393	49	5		5	ANKRD50	4	125599886	Silent	SNP	T	TCGA-22-4591-01A-01D-1267-08	11305593	125599886	65554390	73	13730										
OTUD4	54726	broad.mit.edu	37	chr4	146067571	146067571	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aaaatcctcaactctttcacGatcaggttttctgtcaaata	4	10	6	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr4:146067571G>C	uc003ika.3	-	14	1213	c.1075C>G	c.(1075-1077)CGT>GGT	p.R359G	OTUD4_uc003ijz.3_Missense_Mutation_p.R358G	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	423							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					ACTCTTTCACGATCAGGTTTT	0.313													14	10	---	---	---	---	PASS	C	146067571	C	C	146067571	3	2	34	1	0	0	0	0	1	0	0	0	11314	1058	37	2	2106	2	OTUD4	4	146067571	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	20467685	146067571	45086705	74	13731										
TKTL2	84076	broad.mit.edu	37	chr4	164393664	164393664	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgatattggcttgagaaatgGctcccattcggagctgatcg	12	8	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr4:164393664G>T	uc003iqp.3	-	1	1384	c.1223C>A	c.(1222-1224)GCC>GAC	p.A408D		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	408						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TTGAGAAATGGCTCCCATTCG	0.502													28	20	---	---	---	---	PASS	T	164393664	T	T	164393664	3	4	34	1	0	0	0	0	1	0	0	0	15933	1203	42	3	661	3	TKTL2	4	164393664	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	18326093	164393664	26760612	75	13732										
ODZ3	55714	broad.mit.edu	37	chr4	183245202	183245202	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gaaagaacgcaggccttactGctccctgaccaagagcagac	10	13	0	4			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr4:183245202G>T	uc003ivd.1	+	1	66	c.29G>T	c.(28-30)TGC>TTC	p.C10F	ODZ3_uc010irv.1_Missense_Mutation_p.C10F	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	10	Cytoplasmic (Potential).|Teneurin N-terminal.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		AGGCCTTACTGCTCCCTGACC	0.527													6	10	---	---	---	---	PASS	T	183245202	T	T	183245202	3	4	34	1	0	0	0	0	1	0	0	0	10836	1319	46	3	31	3	ODZ3	4	183245202	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	18851538	183245202	7909074	76	13733										
CTNND2	1501	broad.mit.edu	37	chr5	10973793	10973793	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	taggtctcgtaatcttttctGctgggctcctgtgggactgg	13	9	3	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr5:10973793G>T	uc003jfa.1	-	22	3595	c.3450C>A	c.(3448-3450)AGC>AGA	p.S1150R	CTNND2_uc010itt.2_Missense_Mutation_p.S1059R|CTNND2_uc011cmy.1_Missense_Mutation_p.S813R|CTNND2_uc011cmz.1_Missense_Mutation_p.S717R|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.S742R	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	1150					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						AATCTTTTCTGCTGGGCTCCT	0.547													5	208	---	---	---	---	PASS	T	10973793	T	T	10973793	3	4	34	1	0	0	0	0	1	0	0	0	4020	1310	46	3	231	3	CTNND2	5	10973793	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08		10973793	169941467	77	13734										
DNAH5	1767	broad.mit.edu	37	chr5	13719115	13719115	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtggtcatccagaggcggaaCgcatcatgtacaagctcagt	12	10	3	1	rs140284455		TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr5:13719115C>T	uc003jfd.2	-	72	12417	c.12375G>A	c.(12373-12375)GCG>GCA	p.A4125A	DNAH5_uc003jfc.2_Silent_p.A293A	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4125	AAA 6 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGAGGCGGAACGCATCATGTA	0.493									Kartagener_syndrome				7	108	---	---	---	---	PASS	T	13719115	T	T	13719115	2	4	34	1	0	0	0	0	0	0	0	1	4604	523	19	1		1	DNAH5	5	13719115	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	2745322	13719115	167196145	78	13735										
PRDM9	56979	broad.mit.edu	37	chr5	23527770	23527770	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gaggacacacacaggggagaAgccctacgtctgcagggagt	15	10	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr5:23527770A>T	uc003jgo.2	+	11	2755	c.2573A>T	c.(2572-2574)AAG>ATG	p.K858M		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	858					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						ACAGGGGAGAAGCCCTACGTC	0.592										HNSCC(3;0.000094)			44	540	---	---	---	---	PASS	T	23527770	T	T	23527770	3	4	34	1	0	0	0	0	1	0	0	0	12463	72	3	5	2611	5	PRDM9	5	23527770	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	9808655	23527770	157387490	79	13736										
PDZD2	23037	broad.mit.edu	37	chr5	32088003	32088003	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gggggccagacctcctccccGaggagggcctgggctgctgg	18	14	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr5:32088003G>C	uc003jhl.2	+	20	4837	c.4449G>C	c.(4447-4449)CCG>CCC	p.P1483P	PDZD2_uc003jhm.2_Silent_p.P1483P	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1483					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CCTCCTCCCCGAGGAGGGCCT	0.642													21	166	---	---	---	---	PASS	C	32088003	C	C	32088003	2	2	34	1	0	0	0	0	0	0	0	1	11701	1045	37	2		2	PDZD2	5	32088003	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	8560233	32088003	148827257	80	13737										
HEATR7B2	133558	broad.mit.edu	37	chr5	41004481	41004481	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtccttgtttgcagcactatTtccttgaagtagaagctcac	8	10	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr5:41004481T>G	uc003jmj.3	-	37	4651	c.4161A>C	c.(4159-4161)GAA>GAC	p.E1387D	HEATR7B2_uc003jmi.3_Missense_Mutation_p.E942D	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1387	HEAT 15.						binding			ovary(6)|central_nervous_system(2)	8						GCAGCACTATTTCCTTGAAGT	0.463													27	269	---	---	---	---	PASS	G	41004481	G	G	41004481	3	3	34	1	0	0	0	0	1	0	0	0	7035	1838	64	5	620	5	HEATR7B2	5	41004481	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	8916478	41004481	139910779	81	13738										
GZMA	3001	broad.mit.edu	37	chr5	54403983	54403983	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aagcaaaaattaacaaatatGtgactatccttcatctacct	3	9	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr5:54403983G>T	uc003jpm.2	+	4	425	c.388G>T	c.(388-390)GTG>TTG	p.V130L		NM_006144	NP_006135	P12544	GRAA_HUMAN	granzyme A precursor	130	Peptidase S1.				cleavage of lamin|cytolysis|immune response|negative regulation of DNA binding|negative regulation of endodeoxyribonuclease activity|negative regulation of oxidoreductase activity|positive regulation of apoptosis	extracellular region|immunological synapse|nucleus	protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				TAACAAATATGTGACTATCCT	0.368													8	2	---	---	---	---	PASS	T	54403983	T	T	54403983	3	4	34	1	0	0	0	0	1	0	0	0	6915	1377	48	3	402	3	GZMA	5	54403983	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	13399502	54403983	126511277	82	13739										
PLK2	10769	broad.mit.edu	37	chr5	57752858	57752858	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agaaattcttagctgggcttGataagtggaaatctggaact	11	5	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr5:57752858G>C	uc003jrn.2	-	8	1197	c.1070C>G	c.(1069-1071)TCA>TGA	p.S357*		NM_006622	NP_006613	Q9NYY3	PLK2_HUMAN	polo-like kinase 2	357					positive regulation of I-kappaB kinase/NF-kappaB cascade		ATP binding|protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|lung(1)|skin(1)	4		all_cancers(5;1.76e-12)|all_epithelial(5;2.09e-13)|all_lung(5;6.64e-05)|Lung NSC(5;0.000127)|Prostate(74;0.055)|Breast(144;0.0602)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;7.03e-37)		AGCTGGGCTTGATAAGTGGAA	0.403													23	10	---	---	---	---	PASS	C	57752858	C	C	57752858	4	2	34	1	0	0	0	0	0	1	0	0	12096	1294	45	2	1015	2	PLK2	5	57752858	Nonsense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	3348875	57752858	123162402	83	13740										
PAPD4	167153	broad.mit.edu	37	chr5	78944446	78944447	+	Frame_Shift_Ins	INS	-	A	A													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttttcttaaatagttgtgtgINSgagtttgacttgaatgtaaa							TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr5:78944446_78944447insA	uc010jae.1	+	10	1246_1247	c.828_829insA	c.(826-831)GTGGAGfs	p.V276fs	PAPD4_uc003kgb.2_Frame_Shift_Ins_p.V276fs|PAPD4_uc010jaf.1_Frame_Shift_Ins_p.V276fs|PAPD4_uc003kga.2_Frame_Shift_Ins_p.V272fs|PAPD4_uc003kfz.2_Frame_Shift_Ins_p.V276fs	NM_001114393	NP_001107865	Q6PIY7	GLD2_HUMAN	PAP associated domain containing 4	276_277					histone mRNA catabolic process|mRNA processing|RNA polyadenylation	cytoplasm	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity			ovary(1)	1		Lung NSC(167;0.00293)|all_lung(232;0.00323)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;8.61e-47)|Epithelial(54;1.32e-41)|all cancers(79;2.45e-36)		ataGTTGTGTGGAGTTTGACTT	0.267													4	2	---	---	---	---		A	78944447	A	A	78944446	7	5	34	1	0	1	1	0	0	0	0	0	11424	1335	47	0	858	0	PAPD4	5	78944446	Frame_Shift_Ins	INS	-	TCGA-22-4591-01A-01D-1267-08	21191588	78944446	101970814	84	13741										
ANKRD34B	340120	broad.mit.edu	37	chr5	79855219	79855219	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gatctttaaagccaaaaagcGtcagttccgtttcagaagaa	8	8	3	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr5:79855219G>A	uc010jam.2	-	4	970	c.620C>T	c.(619-621)ACG>ATG	p.T207M	ANKRD34B_uc003kgw.2_Missense_Mutation_p.T207M|ANKRD34B_uc010jan.2_Missense_Mutation_p.T207M	NM_001004441	NP_001004441	A5PLL1	AN34B_HUMAN	ankyrin repeat domain 34B	207						cytoplasm|nucleus				pancreas(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-46)|Epithelial(54;5.64e-41)|all cancers(79;3.24e-36)		GCCAAAAAGCGTCAGTTCCGT	0.498													33	8	---	---	---	---	PASS	A	79855219	A	A	79855219	3	1	34	1	0	0	0	0	1	0	0	0	663	1145	40	1	928	1	ANKRD34B	5	79855219	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	910773	79855219	101060041	85	13742										
FAT2	2196	broad.mit.edu	37	chr5	150924660	150924660	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctggaccatatgaaacatatCtgtgccattcaagagaaagt	8	8	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr5:150924660C>T	uc003lue.3	-	9	6041	c.6028G>A	c.(6028-6030)GAT>AAT	p.D2010N	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	2010	Extracellular (Potential).|Cadherin 17.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGAAACATATCTGTGCCATTC	0.498													24	47	---	---	---	---	PASS	T	150924660	T	T	150924660	3	4	34	1	0	0	0	0	1	0	0	0	5690	913	32	2	7081	2	FAT2	5	150924660	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	71069441	150924660	29990600	86	13743										
FAT2	2196	broad.mit.edu	37	chr5	150948429	150948429	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggaggagagaatcccttctaGaggcttctcacaggtcgcac	12	11	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr5:150948429G>A	uc003lue.3	-	1	77	c.64C>T	c.(64-66)CTA>TTA	p.L22L	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Silent_p.L22L	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	22	Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATCCCTTCTAGAGGCTTCTCA	0.473													79	33	---	---	---	---	PASS	A	150948429	A	A	150948429	2	1	34	1	0	0	0	0	0	0	0	1	5690	933	33	2		2	FAT2	5	150948429	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	23769	150948429	29966831	87	13744										
RNF145	153830	broad.mit.edu	37	chr5	158588402	158588402	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccaccccagctgggcccgaaGccacacgttatagtaggaat	10	14	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr5:158588402G>C	uc003lxp.2	-	10	1811	c.1498C>G	c.(1498-1500)CTT>GTT	p.L500V	RNF145_uc011ddy.1_Missense_Mutation_p.L514V|RNF145_uc003lxo.1_Missense_Mutation_p.L528V|RNF145_uc011ddz.1_Missense_Mutation_p.L517V|RNF145_uc010jiq.1_Missense_Mutation_p.L530V	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	500	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGGGCCCGAAGCCACACGTTA	0.488													25	42	---	---	---	---	PASS	C	158588402	C	C	158588402	3	2	34	1	0	0	0	0	1	0	0	0	13447	971	34	4	501	4	RNF145	5	158588402	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	7639973	158588402	22326858	88	13745										
GCM2	9247	broad.mit.edu	37	chr6	10876187	10876187	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gccatttgtctcttgatggcGcttcttctagcttctgtctc	8	12	5	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr6:10876187G>A	uc003mzn.3	-	4	591	c.519C>T	c.(517-519)AGC>AGT	p.S173S	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	173	GCM.				cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				TCTTGATGGCGCTTCTTCTAG	0.468													44	150	---	---	---	---	PASS	A	10876187	A	A	10876187	2	1	34	1	0	0	0	0	0	0	0	1	6298	1078	38	1		1	GCM2	6	10876187	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08		10876187	160238880	89	13746										
HIST1H1T	3010	broad.mit.edu	37	chr6	26108213	26108213	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agagaggttcggcactttgcGacttgcacttatcaagccag	11	10	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr6:26108213G>A	uc003ngj.2	-	1	152	c.109C>T	c.(109-111)CGC>TGC	p.R37C		NM_005323	NP_005314	P22492	H1T_HUMAN	histone cluster 1, H1t	37					cell differentiation|multicellular organismal development|nucleosome assembly|spermatogenesis	nucleosome	DNA binding			ovary(2)	2						GGCACTTTGCGACTTGCACTT	0.537													7	74	---	---	---	---	PASS	A	26108213	A	A	26108213	3	1	34	1	0	0	0	0	1	0	0	0	7127	1058	37	2	518	2	HIST1H1T	6	26108213	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	15232026	26108213	145006854	90	13747										
HIST1H1D	3007	broad.mit.edu	37	chr6	26234508	26234508	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cgccagtttcactttttcttCggagctgccttctttgcctt	7	13	3	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr6:26234508C>T	uc003nhd.2	-	1	709	c.654G>A	c.(652-654)CCG>CCA	p.P218P		NM_005320	NP_005311	P16402	H13_HUMAN	histone cluster 1, H1d	218					nucleosome assembly	nucleosome|nucleus	DNA binding			skin(1)	1		all_hematologic(11;0.0945)|Acute lymphoblastic leukemia(11;0.167)				ACTTTTTCTTCGGAGCTGCCT	0.512													9	241	---	---	---	---	PASS	T	26234508	T	T	26234508	2	4	34	1	0	0	0	0	0	0	0	1	7125	871	31	2		2	HIST1H1D	6	26234508	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	126295	26234508	144880559	91	13748										
MYO6	4646	broad.mit.edu	37	chr6	76602391	76602391	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcagtgatgaggcccaggccGacctggcgctgcggaggtac	16	12	1	2	rs61739689		TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr6:76602391G>T	uc003pih.1	+	28	3370	c.3091G>T	c.(3091-3093)GAC>TAC	p.D1031Y	MYO6_uc003pig.1_Missense_Mutation_p.D1031Y|MYO6_uc003pii.1_Missense_Mutation_p.D1031Y|MYO6_uc003pij.1_5'Flank	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	1031					actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		GGCCCAGGCCGACCTGGCGCT	0.612													10	105	---	---	---	---	PASS	T	76602391	T	T	76602391	3	4	34	1	0	0	0	0	1	0	0	0	10081	1058	37	2	3197	2	MYO6	6	76602391	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	50367883	76602391	94512676	92	13749										
GABRR1	2569	broad.mit.edu	37	chr6	89888578	89888578	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tttatcaatggcgtgggtgtCgattctcatgctcacatagc	10	9	3	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr6:89888578C>A	uc003pna.2	-	10	1806	c.1351G>T	c.(1351-1353)GAC>TAC	p.D451Y	GABRR1_uc011dzv.1_Missense_Mutation_p.D428Y	NM_002042	NP_002033	P24046	GBRR1_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 1	451	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|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			pancreas(1)	1		all_cancers(76;9.49e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.46e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00917)	Picrotoxin(DB00466)	GCGTGGGTGTCGATTCTCATG	0.453													4	104	---	---	---	---	PASS	A	89888578	A	A	89888578	3	1	34	1	0	0	0	0	1	0	0	0	6176	884	31	2	92	2	GABRR1	6	89888578	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	13286187	89888578	81226489	93	13750										
CDK19	23097	broad.mit.edu	37	chr6	110943359	110943359	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggggtatggaatctggcagcCggcaaatacactaaaaatca	11	8	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr6:110943359C>A	uc003puh.1	-	11	1115	c.1042G>T	c.(1042-1044)GGC>TGC	p.G348C	CDK19_uc003pui.1_Missense_Mutation_p.G288C|CDK19_uc011eax.1_Missense_Mutation_p.G224C	NM_015076	NP_055891	Q9BWU1	CDK19_HUMAN	cell division cycle 2-like 6 (CDK8-like)	348							ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						ATCTGGCAGCCGGCAAATACA	0.313													188	60	---	---	---	---	PASS	A	110943359	A	A	110943359	3	1	34	1	0	0	0	0	1	0	0	0	3135	652	23	1	478	1	CDK19	6	110943359	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	21054781	110943359	60171708	94	13751										
ROS1	6098	broad.mit.edu	37	chr6	117709116	117709116	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	caggagggtcttgggtggatActttcacctcataggtccag	13	9	3	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr6:117709116A>G	uc003pxp.1	-	13	2040	c.1841T>C	c.(1840-1842)GTA>GCA	p.V614A	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	614	Fibronectin type-III 3.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TTGGGTGGATACTTTCACCTC	0.443			T	GOPC|ROS1	glioblastoma|NSCLC								3	79	---	---	---	---	PASS	G	117709116	G	G	117709116	3	3	34	1	0	0	0	0	1	0	0	0	13531	391	14	5	5326	5	ROS1	6	117709116	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	6765757	117709116	53405951	95	13752										
MAP3K4	4216	broad.mit.edu	37	chr6	161507496	161507496	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccaaagcacttggatttgctAaaatgttgagaaaggtgagc	11	6	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr6:161507496A>G	uc003qtn.2	+	8	2600	c.2458A>G	c.(2458-2460)AAA>GAA	p.K820E	MAP3K4_uc010kkc.1_Missense_Mutation_p.K820E|MAP3K4_uc003qto.2_Missense_Mutation_p.K820E|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.K273E	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	820					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)		TGGATTTGCTAAAATGTTGAG	0.388													10	9	---	---	---	---	PASS	G	161507496	G	G	161507496	3	3	34	1	0	0	0	0	1	0	0	0	9252	363	13	5	2488	5	MAP3K4	6	161507496	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	43798380	161507496	9607571	96	13753										
AMZ1	155185	broad.mit.edu	37	chr7	2740243	2740243	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggcctacaacccgcagaggaCgctcttctgcaccctgctca	9	17	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:2740243C>T	uc003smr.1	+	2	519	c.158C>T	c.(157-159)ACG>ATG	p.T53M	AMZ1_uc003sms.1_Missense_Mutation_p.T53M|AMZ1_uc011jwa.1_5'Flank	NM_133463	NP_597720	Q400G9	AMZ1_HUMAN	archaelysin family metallopeptidase 1	53							metallopeptidase activity|zinc ion binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;5.03e-14)		CCGCAGAGGACGCTCTTCTGC	0.667													8	721	---	---	---	---	PASS	T	2740243	T	T	2740243	3	4	34	1	0	0	0	0	1	0	0	0	596	536	19	1	160	1	AMZ1	7	2740243	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08		2740243	156398420	97	13754										
DNAH11	8701	broad.mit.edu	37	chr7	21765480	21765480	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggtggcagaaagagatgaaaGcagtgaaatttccgtcgcag	14	6	0	4			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:21765480G>T	uc003svc.2	+	46	7370	c.7339G>T	c.(7339-7341)GCA>TCA	p.A2447S		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2447					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AGAGATGAAAGCAGTGAAATT	0.378									Kartagener_syndrome				7	16	---	---	---	---	PASS	T	21765480	T	T	21765480	3	4	34	1	0	0	0	0	1	0	0	0	4599	971	34	3	7518	3	DNAH11	7	21765480	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	19025237	21765480	137373183	98	13755										
BLVRA	644	broad.mit.edu	37	chr7	43827557	43827557	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttggccgagccggctccgtgCggatgagggacttgcggaat	17	10	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:43827557C>T	uc003tir.2	+	3	150	c.67C>T	c.(67-69)CGG>TGG	p.R23W	BLVRA_uc010kxv.2_Missense_Mutation_p.R23W	NM_000712	NP_000703	P53004	BIEA_HUMAN	biliverdin reductase A precursor	23					heme catabolic process	cytosol	biliverdin reductase activity|zinc ion binding			ovary(1)	1					NADH(DB00157)	CGGCTCCGTGCGGATGAGGGA	0.547													100	223	---	---	---	---	PASS	T	43827557	T	T	43827557	3	4	34	1	0	0	0	0	1	0	0	0	1451	759	27	1	73	1	BLVRA	7	43827557	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	22062077	43827557	115311106	99	13756										
PKD1L1	168507	broad.mit.edu	37	chr7	47971571	47971571	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgtgctgtctgcggtcccagTagcacacagccgcctgtgat	12	13	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:47971571T>A	uc003tny.1	-	5	481	c.481A>T	c.(481-483)ACT>TCT	p.T161S		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	161	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GCGGTCCCAGTAGCACACAGC	0.507													82	124	---	---	---	---	PASS	A	47971571	A	A	47971571	3	1	34	1	0	0	0	0	1	0	0	0	11964	1638	57	5	8280	5	PKD1L1	7	47971571	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	4144014	47971571	111167092	100	13757										
VSTM2A	222008	broad.mit.edu	37	chr7	54617564	54617564	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	caatgacatctcccacaagcTtcagatttccaaagtgagga	7	11	2	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:54617564T>C	uc010kzf.2	+	4	740	c.335T>C	c.(334-336)CTT>CCT	p.L112P	VSTM2A_uc010kze.2_Missense_Mutation_p.L112P|VSTM2A_uc003tqc.3_Missense_Mutation_p.L112P	NM_182546	NP_872352	Q8TAG5	VTM2A_HUMAN	V-set and transmembrane domain containing 2	112	Ig-like V-type.					extracellular region					0			STAD - Stomach adenocarcinoma(5;0.0525)			TCCCACAAGCTTCAGATTTCC	0.413													11	27	---	---	---	---	PASS	C	54617564	C	C	54617564	3	2	34	1	0	0	0	0	1	0	0	0	17226	1609	56	5	349	5	VSTM2A	7	54617564	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	6645993	54617564	104521099	101	13758										
ADAM22	53616	broad.mit.edu	37	chr7	87765310	87765310	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cttaggtgaatgtaaatgcgAggacacgtggtccgggtgca	15	7	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:87765310A>T	uc003ujn.2	+	14	1263	c.1184A>T	c.(1183-1185)GAG>GTG	p.E395V	ADAM22_uc003ujk.1_Missense_Mutation_p.E395V|ADAM22_uc003ujl.1_Missense_Mutation_p.E395V|ADAM22_uc003ujm.2_Missense_Mutation_p.E395V|ADAM22_uc003ujo.2_Missense_Mutation_p.E395V|ADAM22_uc003ujp.1_Missense_Mutation_p.E447V	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	395	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			TGTAAATGCGAGGACACGTGG	0.383													16	35	---	---	---	---	PASS	T	87765310	T	T	87765310	3	4	34	1	0	0	0	0	1	0	0	0	244	304	11	5	1238	5	ADAM22	7	87765310	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	33147746	87765310	71373353	102	13759										
STEAP1	26872	broad.mit.edu	37	chr7	89791267	89791267	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	atgcctggattgagcatgatGtttggagaatggagatttat	13	3	0	4			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:89791267G>A	uc003ujx.2	+	4	837	c.637G>A	c.(637-639)GTT>ATT	p.V213I	STEAP1_uc010lem.2_Missense_Mutation_p.V213I	NM_012449	NP_036581	Q9UHE8	STEA1_HUMAN	six transmembrane epithelial antigen of the	213	Ferric oxidoreductase.				electron transport chain|ion transport|iron ion homeostasis	cell-cell junction|endosome membrane|integral to plasma membrane	channel activity|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	all_hematologic(106;0.112)					TGAGCATGATGTTTGGAGAAT	0.393													10	106	---	---	---	---	PASS	A	89791267	A	A	89791267	3	1	34	1	0	0	0	0	1	0	0	0	15276	1377	48	3	647	3	STEAP1	7	89791267	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	2025957	89791267	69347396	103	13760										
SAMD9	54809	broad.mit.edu	37	chr7	92734091	92734091	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttagactcaggatcaaactcCaatacagcaaaccatttaat	4	10	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:92734091C>A	uc003umf.2	-	3	1576	c.1320G>T	c.(1318-1320)TTG>TTT	p.L440F	SAMD9_uc003umg.2_Missense_Mutation_p.L440F	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	440						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			GATCAAACTCCAATACAGCAA	0.353													3	38	---	---	---	---	PASS	A	92734091	A	A	92734091	3	1	34	1	0	0	0	0	1	0	0	0	13826	593	21	3	3453	3	SAMD9	7	92734091	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	2942824	92734091	66404572	104	13761										
CALCR	799	broad.mit.edu	37	chr7	93106878	93106878	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	taaacactctacctgatggaTcaaaatccggaaaataatct	5	9	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:93106878T>A	uc003umv.1	-	5	623	c.362A>T	c.(361-363)GAT>GTT	p.D121V	CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.D103V|CALCR_uc003umw.2_Missense_Mutation_p.D103V	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	103	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	ACCTGATGGATCAAAATCCGG	0.408													4	25	---	---	---	---	PASS	A	93106878	A	A	93106878	3	1	34	1	0	0	0	0	1	0	0	0	2579	1435	50	5	1208	5	CALCR	7	93106878	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	372787	93106878	66031785	105	13762										
DLX5	1749	broad.mit.edu	37	chr7	96653605	96653605	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctggttggtggcgcttgggaCgcggttgtaggcgccgccgt	19	10	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:96653605C>G	uc003uon.2	-	1	539	c.331G>C	c.(331-333)GTC>CTC	p.V111L	DLX5_uc011kim.1_Missense_Mutation_p.V111L	NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	111					cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					GCGCTTGGGACGCGGTTGTAG	0.637													53	290	---	---	---	---	PASS	G	96653605	G	G	96653605	3	3	34	1	0	0	0	0	1	0	0	0	4574	536	19	4	550	4	DLX5	7	96653605	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	3546727	96653605	62485058	106	13763										
ASNS	440	broad.mit.edu	37	chr7	97488680	97488680	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aaggctccacttttaaaaagGgagtcgcggagtgcttcaat	11	8	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:97488680G>A	uc003uot.3	-	5	1024	c.518C>T	c.(517-519)CCC>CTC	p.P173L	ASNS_uc011kin.1_Missense_Mutation_p.P90L|ASNS_uc003uou.3_Missense_Mutation_p.P173L|ASNS_uc003uov.3_Missense_Mutation_p.P173L|ASNS_uc011kio.1_Missense_Mutation_p.P152L|ASNS_uc003uow.3_Missense_Mutation_p.P152L|ASNS_uc003uox.3_Missense_Mutation_p.P90L	NM_133436	NP_597680	P08243	ASNS_HUMAN	asparagine synthetase	173	Glutamine amidotransferase type-2.				cellular response to glucose starvation|glutamine metabolic process|negative regulation of apoptosis|positive regulation of mitotic cell cycle	cytosol|soluble fraction	asparagine synthase (glutamine-hydrolyzing) activity|ATP binding			ovary(1)	1	all_cancers(62;6.64e-09)|all_epithelial(64;1.58e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0342)|all_lung(186;0.0369)				Adenosine triphosphate(DB00171)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TTTTAAAAAGGGAGTCGCGGA	0.373													4	162	---	---	---	---	PASS	A	97488680	A	A	97488680	3	1	34	1	0	0	0	0	1	0	0	0	1048	1232	43	3	1203	3	ASNS	7	97488680	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	835075	97488680	61649983	107	13764										
AP1S1	1174	broad.mit.edu	37	chr7	100799995	100799995	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcatgcaggttgtcctggctCgaaagcccaagatgtgcagc	12	11	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:100799995C>T	uc003uxv.3	+	2	234	c.124C>T	c.(124-126)CGA>TGA	p.R42*		NM_001283	NP_001274	P61966	AP1S1_HUMAN	adaptor-related protein complex 1, sigma 1	42					intracellular protein transport|post-Golgi vesicle-mediated transport|receptor-mediated endocytosis|regulation of defense response to virus by virus|response to virus|viral reproduction	AP-1 adaptor complex|coated pit|cytosol|lysosomal membrane	protein binding|protein transporter activity				0	Lung NSC(181;0.168)|all_lung(186;0.215)					TGTCCTGGCTCGAAAGCCCAA	0.542													6	59	---	---	---	---	PASS	T	100799995	T	T	100799995	4	4	34	1	0	0	0	0	0	1	0	0	736	876	31	2	130	2	AP1S1	7	100799995	Nonsense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	3311315	100799995	58338668	108	13765										
ALKBH4	54784	broad.mit.edu	37	chr7	102098135	102098135	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tccggggcagccgacggggcCgagcagaggagcaggctccc	18	14	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:102098135C>T	uc003uzl.2	-	3	620	c.615G>A	c.(613-615)TCG>TCA	p.S205S	ALKBH4_uc003uzm.2_Silent_p.S132S	NM_017621	NP_060091	Q9NXW9	ALKB4_HUMAN	alkB, alkylation repair homolog 4	205						cytoplasm|nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CCGACGGGGCCGAGCAGAGGA	0.711													6	44	---	---	---	---	PASS	T	102098135	T	T	102098135	2	4	34	1	0	0	0	0	0	0	0	1	529	639	23	1		1	ALKBH4	7	102098135	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	1298140	102098135	57040528	109	13766										
NAPEPLD	222236	broad.mit.edu	37	chr7	102769006	102769006	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	catttggaatagaggggtttTtccatgttggccacggattc	12	7	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:102769006T>C	uc003vbc.2	-	2	546	c.218A>G	c.(217-219)AAA>AGA	p.K73R	NAPEPLD_uc003vbd.2_Missense_Mutation_p.K73R|NAPEPLD_uc011klj.1_Missense_Mutation_p.K146R|NAPEPLD_uc003vbe.2_RNA|NAPEPLD_uc003vbf.2_Missense_Mutation_p.K73R	NM_198990	NP_945341	Q6IQ20	NAPEP_HUMAN	N-acyl phosphatidylethanolamine phospholipase D	73					phospholipid catabolic process	membrane	metal ion binding			skin(1)	1						AGAGGGGTTTTTCCATGTTGG	0.403													5	132	---	---	---	---	PASS	C	102769006	C	C	102769006	3	2	34	1	0	0	0	0	1	0	0	0	10163	1841	64	5	979	5	NAPEPLD	7	102769006	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	670871	102769006	56369657	110	13767										
PUS7	54517	broad.mit.edu	37	chr7	105108864	105108872	+	In_Frame_Del	DEL	TAGCTTTGG	-	-													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttaccatgttattccacacaTagctttggtagctatgaata							TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:105108864_105108872delTAGCTTTGG	uc003vcx.2	-	12	1656_1664	c.1437_1445delCCAAAGCTA	c.(1435-1446)TACCAAAGCTAT>TAT	p.479_482YQSY>Y	PUS7_uc010lji.2_In_Frame_Del_p.485_488YQSY>Y|PUS7_uc003vcy.2_In_Frame_Del_p.479_482YQSY>Y|PUS7_uc003vcz.1_In_Frame_Del_p.479_482YQSY>Y	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog	479_482	TRUD.				pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						ATTCCACACATAGCTTTGGTAGCTATGAA	0.368													341	172	---	---	---	---		-	105108872	-	-	105108864	7	5	34	1	0	1	0	1	0	0	0	0	12833	1406	49	0	560	0	PUS7	7	105108864	In_Frame_Del	DEL	TAGCTTTGG	TCGA-22-4591-01A-01D-1267-08	2339858	105108864	54029799	111	13768										
C7orf33	202865	broad.mit.edu	37	chr7	148288129	148288129	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gggcaaggcgccggattgacCttcgcctgagtgggagggca	18	10	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr7:148288129C>T	uc003wew.2	+	1	473	c.112C>T	c.(112-114)CTT>TTT	p.L38F		NM_145304	NP_660347	Q8WU49	CG033_HUMAN	hypothetical protein LOC202865	38										central_nervous_system(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			CCGGATTGACCTTCGCCTGAG	0.557													46	156	---	---	---	---	PASS	T	148288129	T	T	148288129	3	4	34	1	0	0	0	0	1	0	0	0	2388	681	24	3	114	3	C7orf33	7	148288129	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	43179265	148288129	10850534	112	13769										
CSMD1	64478	broad.mit.edu	37	chr8	2813175	2813175	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	catgttctgtgctcagatccCcctgcgaggaaaaagcctgg	11	12	2	1	rs34079122		TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr8:2813175C>G	uc011kwk.1	-	64	10323	c.9933G>C	c.(9931-9933)GGG>GGC	p.G3311G	CSMD1_uc011kwj.1_Silent_p.G2640G|CSMD1_uc010lrg.2_Silent_p.G1202G	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3311	Sushi 28.|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)		GCTCAGATCCCCCTGCGAGGA	0.493													6	13	---	---	---	---	PASS	G	2813175	G	G	2813175	2	3	34	1	0	0	0	0	0	0	0	1	3944	610	22	4		4	CSMD1	8	2813175	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08		2813175	143550847	113	13770										
SOX7	83595	broad.mit.edu	37	chr8	10584038	10584038	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agcccgggtccacgcgcttgCacagccgcttggcctgcttc	12	17	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr8:10584038C>G	uc003wtf.2	-	2	456	c.377G>C	c.(376-378)TGC>TCC	p.C126S	SOX7_uc011kwz.1_Missense_Mutation_p.C178S|uc003wtg.1_5'Flank	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	126					endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		CACGCGCTTGCACAGCCGCTT	0.687													34	30	---	---	---	---	PASS	G	10584038	G	G	10584038	3	3	34	1	0	0	0	0	1	0	0	0	14956	710	25	4	793	4	SOX7	8	10584038	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	7770863	10584038	135779984	114	13771										
DLC1	10395	broad.mit.edu	37	chr8	13357035	13357035	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttacttatagagtcagtaacTtttctctccccactttcttt	3	11	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr8:13357035T>A	uc003wwm.2	-	2	990	c.546A>T	c.(544-546)AAA>AAT	p.K182N	DLC1_uc003wwn.2_Missense_Mutation_p.K182N|DLC1_uc011kxy.1_Missense_Mutation_p.K182N	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	182					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						AGTCAGTAACTTTTCTCTCCC	0.393													3	23	---	---	---	---	PASS	A	13357035	A	A	13357035	3	1	34	1	0	0	0	0	1	0	0	0	4550	1606	56	5	4193	5	DLC1	8	13357035	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	2772997	13357035	133006987	115	13772										
GPR124	25960	broad.mit.edu	37	chr8	37696509	37696509	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cccagggaggtggggggcgcCggggcagggctgcaccccgt	21	13	0	0	rs148091415		TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr8:37696509C>A	uc003xkj.2	+	15	2658	c.2295C>A	c.(2293-2295)GCC>GCA	p.A765A	GPR124_uc010lvy.2_Silent_p.A548A	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	765	Extracellular (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			TGGGGGGCGCCGGGGCAGGGC	0.662													4	198	---	---	---	---	PASS	A	37696509	A	A	37696509	2	1	34	1	0	0	0	0	0	0	0	1	6638	639	23	1		1	GPR124	8	37696509	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	24339474	37696509	108667513	116	13773										
VPS13B	157680	broad.mit.edu	37	chr8	100712132	100712132	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcaaacctcaatggaagcctTagtgtcaaggcaacacaaaa	7	10	3	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr8:100712132T>C	uc003yiv.2	+	36	6612	c.6501T>C	c.(6499-6501)CTT>CTC	p.L2167L	VPS13B_uc003yiw.2_Silent_p.L2142L	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2167					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			ATGGAAGCCTTAGTGTCAAGG	0.423													6	8	---	---	---	---	PASS	C	100712132	C	C	100712132	2	2	34	1	0	0	0	0	0	0	0	1	17187	1741	61	5		5	VPS13B	8	100712132	Silent	SNP	T	TCGA-22-4591-01A-01D-1267-08	63015623	100712132	45651890	117	13774										
FBXO43	286151	broad.mit.edu	37	chr8	101154288	101154288	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aagatgtggaacaaaaatctCtgaaggtggagtacttggag	13	4	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr8:101154288C>A	uc003yjd.2	-	2	907	c.194G>T	c.(193-195)AGA>ATA	p.R65I	FBXO43_uc003yje.2_Missense_Mutation_p.R31I|FBXO43_uc010mbp.1_Missense_Mutation_p.R65I	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	65					meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			ACAAAAATCTCTGAAGGTGGA	0.393													17	41	---	---	---	---	PASS	A	101154288	A	A	101154288	3	1	34	1	0	0	0	0	1	0	0	0	5752	913	32	2	1948	2	FBXO43	8	101154288	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	442156	101154288	45209734	118	13775										
NUDCD1	84955	broad.mit.edu	37	chr8	110287659	110287659	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tctcttataagttccccttgTttatctccaattactagctc	3	12	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr8:110287659T>C	uc003ynb.3	-	7	1206	c.1095A>G	c.(1093-1095)AAA>AAG	p.K365K	NUDCD1_uc003yna.2_Silent_p.K336K|NUDCD1_uc010mcl.2_Silent_p.K278K|NUDCD1_uc010mcm.1_Silent_p.K278K	NM_032869	NP_116258	Q96RS6	NUDC1_HUMAN	NudC domain containing 1 isoform 1	365										ovary(1)|breast(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;1.56e-12)			GTTCCCCTTGTTTATCTCCAA	0.393													9	26	---	---	---	---	PASS	C	110287659	C	C	110287659	2	2	34	1	0	0	0	0	0	0	0	1	10722	1722	60	5		5	NUDCD1	8	110287659	Silent	SNP	T	TCGA-22-4591-01A-01D-1267-08	9133371	110287659	36076363	119	13776										
FAM135B	51059	broad.mit.edu	37	chr8	139164047	139164047	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	atgaagagatctggtcctggGgttttcaagtgctatgacgc	13	7	2	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr8:139164047G>A	uc003yuy.2	-	13	2842	c.2671C>T	c.(2671-2673)CCC>TCC	p.P891S	FAM135B_uc003yux.2_Missense_Mutation_p.P792S|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.P453S|FAM135B_uc003yvb.2_Missense_Mutation_p.P453S	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	891										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)			CTGGTCCTGGGGTTTTCAAGT	0.468										HNSCC(54;0.14)			4	167	---	---	---	---	PASS	A	139164047	A	A	139164047	3	1	34	1	0	0	0	0	1	0	0	0	5449	1232	43	3	1581	3	FAM135B	8	139164047	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	28876388	139164047	7199975	120	13777										
SCRIB	23513	broad.mit.edu	37	chr8	144874434	144874434	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttctcggcctccagggcccgGagctcggcaggggacagggc	17	14	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr8:144874434G>T	uc003yzp.1	-	32	4477	c.4470C>A	c.(4468-4470)CTC>CTA	p.L1490L	SCRIB_uc003yzn.1_Silent_p.L223L|SCRIB_uc003yzo.1_Silent_p.L1490L	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	1490					activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			CCAGGGCCCGGAGCTCGGCAG	0.746													9	24	---	---	---	---	PASS	T	144874434	T	T	144874434	2	4	34	1	0	0	0	0	0	0	0	1	13937	1161	41	2		2	SCRIB	8	144874434	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	5710387	144874434	1489588	121	13778										
ARHGAP39	80728	broad.mit.edu	37	chr8	145773151	145773151	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctccggacttgacgcccaggCgctggtccctcagcaggcag	13	16	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr8:145773151C>A	uc003zdt.1	-	6	1874	c.1319G>T	c.(1318-1320)CGC>CTC	p.R440L	ARHGAP39_uc011llk.1_Missense_Mutation_p.R440L|ARHGAP39_uc003zds.1_Missense_Mutation_p.R440L	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	440					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						GACGCCCAGGCGCTGGTCCCT	0.711													15	48	---	---	---	---	PASS	A	145773151	A	A	145773151	3	1	34	1	0	0	0	0	1	0	0	0	884	768	27	1	2057	1	ARHGAP39	8	145773151	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	898717	145773151	590871	122	13779										
MPDZ	8777	broad.mit.edu	37	chr9	13205963	13205963	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	caaatctgcatcttttgtgaCgtcttcccttgacatgagct	7	11	3	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr9:13205963C>T	uc010mia.1	-	10	1483	c.1426G>A	c.(1426-1428)GTC>ATC	p.V476I	MPDZ_uc010mhy.2_Missense_Mutation_p.V476I|MPDZ_uc010mhz.2_Missense_Mutation_p.V476I|MPDZ_uc011lmn.1_Missense_Mutation_p.V476I|MPDZ_uc003zlb.3_Missense_Mutation_p.V476I	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	476					interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		TCTTTTGTGACGTCTTCCCTT	0.418													8	9	---	---	---	---	PASS	T	13205963	T	T	13205963	3	4	34	1	0	0	0	0	1	0	0	0	9722	536	19	1	4843	1	MPDZ	9	13205963	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08		13205963	128007468	123	13780										
LINGO2	158038	broad.mit.edu	37	chr9	27948899	27948899	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tccagctacctccccttccaCaacagcaccattgttttttc	3	17	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr9:27948899C>A	uc003zqu.1	-	2	1965	c.1771G>T	c.(1771-1773)GTG>TTG	p.V591L	LINGO2_uc010mjf.1_Missense_Mutation_p.V591L|LINGO2_uc003zqv.1_Missense_Mutation_p.V591L	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	591	Cytoplasmic (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)		TCCCCTTCCACAACAGCACCA	0.448													3	33	---	---	---	---	PASS	A	27948899	A	A	27948899	3	1	34	1	0	0	0	0	1	0	0	0	8815	478	17	3	53	3	LINGO2	9	27948899	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	14742936	27948899	113264532	124	13781										
ZBTB5	9925	broad.mit.edu	37	chr9	37441983	37441983	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	actgcttgcgcttatgaaggCgtctcatggggaagggcgtg	16	8	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr9:37441983C>T	uc003zzx.2	-	2	766	c.566G>A	c.(565-567)CGC>CAC	p.R189H		NM_014872	NP_055687	O15062	ZBTB5_HUMAN	zinc finger and BTB domain containing 5	189					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(29;0.00733)|Lung(182;0.226)		CTTATGAAGGCGTCTCATGGG	0.597													6	165	---	---	---	---	PASS	T	37441983	T	T	37441983	3	4	34	1	0	0	0	0	1	0	0	0	17548	768	27	1	1471	1	ZBTB5	9	37441983	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	9493084	37441983	103771448	125	13782										
GOLGA2	2801	broad.mit.edu	37	chr9	131024972	131024972	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	atttctcttgcttcaggtccTcattgctttggctatggcca	8	11	3	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr9:131024972T>C	uc011maw.1	-	13	936	c.923A>G	c.(922-924)GAG>GGG	p.E308G	GOLGA2_uc010mxw.2_Intron|GOLGA2_uc004buh.2_5'Flank|GOLGA2_uc004bul.1_Missense_Mutation_p.E209G|uc004bun.2_5'Flank	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	308	Potential.					Golgi cisterna membrane	protein binding			ovary(1)	1						CTTCAGGTCCTCATTGCTTTG	0.483													3	57	---	---	---	---	PASS	C	131024972	C	C	131024972	3	2	34	1	0	0	0	0	1	0	0	0	6552	1551	54	5	2141	5	GOLGA2	9	131024972	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	93582989	131024972	10188459	126	13783										
CCBL1	883	broad.mit.edu	37	chr9	131597803	131597803	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aggaagtagctgccctgaggGatgatgggcttcaggcccac	15	10	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr9:131597803G>T	uc004bwh.2	-	10	1184	c.999C>A	c.(997-999)ATC>ATA	p.I333I	CCBL1_uc004bwf.2_Silent_p.I367I|CCBL1_uc004bwg.2_RNA|CCBL1_uc010myn.2_Silent_p.I333I|CCBL1_uc004bwj.2_Silent_p.I283I|CCBL1_uc011mbl.1_Silent_p.I427I|CCBL1_uc004bwi.2_RNA|CCBL1_uc010myo.2_Silent_p.I290I	NM_004059	NP_004050	Q16773	KAT1_HUMAN	kynurenine aminotransferase I isoform a	333					kynurenine metabolic process|L-phenylalanine catabolic process|tryptophan catabolic process	cytosol|nucleus	1-aminocyclopropane-1-carboxylate synthase activity|cysteine-S-conjugate beta-lyase activity|glutamine-phenylpyruvate transaminase activity|kynurenine-oxoglutarate transaminase activity|L-glutamine:pyruvate aminotransferase activity|L-phenylalanine:pyruvate aminotransferase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)	1					L-Glutamine(DB00130)|Pyridoxal Phosphate(DB00114)	TGCCCTGAGGGATGATGGGCT	0.612													98	187	---	---	---	---	PASS	T	131597803	T	T	131597803	2	4	34	1	0	0	0	0	0	0	0	1	2732	1164	41	2		2	CCBL1	9	131597803	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	572831	131597803	9615628	127	13784										
CRAT	1384	broad.mit.edu	37	chr9	131859550	131859550	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cggtcggtgtagcctcggtgGgcctgcacggccttccgcag	16	14	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr9:131859550G>A	uc004bxh.2	-	12	1788	c.1506C>T	c.(1504-1506)GCC>GCT	p.A502A	CRAT_uc004bxg.2_Silent_p.A481A|CRAT_uc004bxk.3_Silent_p.A481A	NM_000755	NP_000746	P43155	CACP_HUMAN	carnitine acetyltransferase precursor	502					energy derivation by oxidation of organic compounds|fatty acid beta-oxidation using acyl-CoA oxidase|transport	endoplasmic reticulum|mitochondrial inner membrane|peroxisomal matrix	carnitine O-acetyltransferase activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)	L-Carnitine(DB00583)	AGCCTCGGTGGGCCTGCACGG	0.617													10	5	---	---	---	---	PASS	A	131859550	A	A	131859550	2	1	34	1	0	0	0	0	0	0	0	1	3847	1219	43	3		3	CRAT	9	131859550	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	261747	131859550	9353881	128	13785										
FUBP3	8939	broad.mit.edu	37	chr9	133506963	133506963	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggggaccaatctcggagcacCtggagccttcggacagagtc	14	12	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr9:133506963C>T	uc004bzr.1	+	14	1406	c.1298C>T	c.(1297-1299)CCT>CTT	p.P433L	FUBP3_uc004bzs.1_Missense_Mutation_p.P346L	NM_003934	NP_003925	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	433					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		CTCGGAGCACCTGGAGCCTTC	0.602													50	23	---	---	---	---	PASS	T	133506963	T	T	133506963	3	4	34	1	0	0	0	0	1	0	0	0	6093	681	24	3	1352	3	FUBP3	9	133506963	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	1647413	133506963	7706468	129	13786										
ZNF438	220929	broad.mit.edu	37	chr10	31139078	31139078	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aaatgtcccctcctggccagCaacctgcatcagggcatagt	9	14	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr10:31139078C>A	uc010qdz.1	-	7	691	c.256G>T	c.(256-258)GCT>TCT	p.A86S	ZNF438_uc001ivn.2_Missense_Mutation_p.A37S|ZNF438_uc010qdy.1_Missense_Mutation_p.A76S|ZNF438_uc001ivo.3_Intron|ZNF438_uc009xlg.2_Missense_Mutation_p.A86S|ZNF438_uc001ivp.3_Missense_Mutation_p.A76S|ZNF438_uc010qea.1_Missense_Mutation_p.A86S|ZNF438_uc010qeb.1_Missense_Mutation_p.A86S|ZNF438_uc010qec.1_Intron	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	86					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				TCCTGGCCAGCAACCTGCATC	0.517													43	72	---	---	---	---	PASS	A	31139078	A	A	31139078	3	1	34	1	0	0	0	0	1	0	0	0	17907	710	25	3	2238	3	ZNF438	10	31139078	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08		31139078	104395669	130	13787										
GDF10	2662	broad.mit.edu	37	chr10	48429112	48429112	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctctgcagcgtcactgccacGctgttgggctccgagatggc	13	14	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr10:48429112G>T	uc001jfb.2	-	2	1230	c.774C>A	c.(772-774)AGC>AGA	p.S258R	GDF10_uc009xnp.2_Missense_Mutation_p.S257R|GDF10_uc009xnq.1_Missense_Mutation_p.S258R	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	258					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						TCACTGCCACGCTGTTGGGCT	0.687													181	20	---	---	---	---	PASS	T	48429112	T	T	48429112	3	4	34	1	0	0	0	0	1	0	0	0	6311	1078	38	1	670	1	GDF10	10	48429112	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	17290034	48429112	87105635	131	13788										
SGMS1	259230	broad.mit.edu	37	chr10	52103273	52103273	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgtattttaagagcagccacTgaattaaccagagtcctaca	7	9	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr10:52103273T>A	uc001jje.2	-	7	1556	c.602A>T	c.(601-603)CAG>CTG	p.Q201L	SGMS1_uc010qhk.1_Intron|SGMS1_uc009xot.1_Intron|SGMS1_uc009xou.1_Missense_Mutation_p.Q201L|SGMS1_uc010qhl.1_RNA	NM_147156	NP_671512	Q86VZ5	SMS1_HUMAN	sphingomyelin synthase 1	207	Helical; (Potential).				apoptosis|cell growth|sphingomyelin biosynthetic process	endoplasmic reticulum|Golgi trans cisterna|integral to Golgi membrane|nucleus|plasma membrane	ceramide cholinephosphotransferase activity|kinase activity|sphingomyelin synthase activity			ovary(1)|kidney(1)	2						GAGCAGCCACTGAATTAACCA	0.358													18	13	---	---	---	---	PASS	A	52103273	A	A	52103273	3	1	34	1	0	0	0	0	1	0	0	0	14214	1580	55	5	659	5	SGMS1	10	52103273	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	3674161	52103273	83431474	132	13789										
ANK3	288	broad.mit.edu	37	chr10	61832077	61832077	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtggctcccgaactctcccaTgttctaaagacctttttgtc	7	13	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr10:61832077T>C	uc001jky.2	-	37	8754	c.8562A>G	c.(8560-8562)ACA>ACG	p.T2854T	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2854					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						AACTCTCCCATGTTCTAAAGA	0.428													18	24	---	---	---	---	PASS	C	61832077	C	C	61832077	2	2	34	1	0	0	0	0	0	0	0	1	622	1451	51	5		5	ANK3	10	61832077	Silent	SNP	T	TCGA-22-4591-01A-01D-1267-08	9728804	61832077	73702670	133	13790										
CDH23	64072	broad.mit.edu	37	chr10	73558235	73558235	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gggaccacactcattgctgtGgcagccgtggaccctgacaa	12	13	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr10:73558235G>A	uc001jrx.3	+	48	7331	c.6954G>A	c.(6952-6954)GTG>GTA	p.V2318V	CDH23_uc001jsg.3_Silent_p.V78V|CDH23_uc001jsh.3_Silent_p.V78V|CDH23_uc001jsi.3_Silent_p.V78V	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	2318	Cadherin 22.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						TCATTGCTGTGGCAGCCGTGG	0.612													85	67	---	---	---	---	PASS	A	73558235	A	A	73558235	2	1	34	1	0	0	0	0	0	0	0	1	3108	1335	47	3		3	CDH23	10	73558235	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	11726158	73558235	61976512	134	13791										
NRG3	10718	broad.mit.edu	37	chr10	83635374	83635374	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	caaatggatcgtggtgggctCcgtcaaggagtacgtgccca	14	10	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr10:83635374C>A	uc001kco.2	+	1	305	c.278C>A	c.(277-279)TCC>TAC	p.S93Y	NRG3_uc010qlz.1_Missense_Mutation_p.S93Y|NRG3_uc001kcp.2_5'Flank|NRG3_uc001kcq.2_5'Flank	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	93	Extracellular (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)		GTGGTGGGCTCCGTCAAGGAG	0.612													42	107	---	---	---	---	PASS	A	83635374	A	A	83635374	3	1	34	1	0	0	0	0	1	0	0	0	10649	855	30	2	280	2	NRG3	10	83635374	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	10077139	83635374	51899373	135	13792										
WAPAL	23063	broad.mit.edu	37	chr10	88260207	88260207	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcgatttttaaaatcgtcatCcttcatctccaaaaggggat	6	9	3	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr10:88260207C>G	uc001kdo.2	-	3	1235	c.793G>C	c.(793-795)GAT>CAT	p.D265H	WAPAL_uc001kdn.2_Missense_Mutation_p.D308H|WAPAL_uc009xsw.2_Missense_Mutation_p.D265H	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	265	Mediates interaction with the cohesin complex.|Potential.				cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						AAATCGTCATCCTTCATCTCC	0.358													16	17	---	---	---	---	PASS	G	88260207	G	G	88260207	3	3	34	1	0	0	0	0	1	0	0	0	17245	855	30	2	2847	2	WAPAL	10	88260207	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	4624833	88260207	47274540	136	13793										
TLX1	3195	broad.mit.edu	37	chr10	102893992	102893992	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gccgcgcacgtccttcacacGcctgcagatctgcgagctgg	12	16	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr10:102893992G>T	uc001ksw.2	+	2	867	c.629G>T	c.(628-630)CGC>CTC	p.R210L		NM_005521	NP_005512	P31314	TLX1_HUMAN	T-cell leukemia homeobox 1	210	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1				Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		TCCTTCACACGCCTGCAGATC	0.637			T	TRB@|TRD@	T-ALL								22	26	---	---	---	---	PASS	T	102893992	T	T	102893992	3	4	34	1	0	0	0	0	1	0	0	0	15956	1087	38	1	635	1	TLX1	10	102893992	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	14633785	102893992	32640755	137	13794										
GPAM	57678	broad.mit.edu	37	chr10	113924309	113924309	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggaagtatagctggtaacaaCgcttgctccagggaaagtag	13	7	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr10:113924309C>T	uc009xxy.1	-	13	1479	c.1281G>A	c.(1279-1281)GCG>GCA	p.A427A	GPAM_uc001kzp.2_Silent_p.A427A|GPAM_uc001kzq.1_Silent_p.A427A	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate	427					phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		CTGGTAACAACGCTTGCTCCA	0.363													3	7	---	---	---	---	PASS	T	113924309	T	T	113924309	2	4	34	1	0	0	0	0	0	0	0	1	6588	523	19	1		1	GPAM	10	113924309	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	11030317	113924309	21610438	138	13795										
FAM160B1	57700	broad.mit.edu	37	chr10	116606016	116606016	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctgatgttttgcttcaagaaAtggtgttttttatccttgga	9	5	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr10:116606016A>G	uc001lcb.2	+	10	1623	c.1288A>G	c.(1288-1290)ATG>GTG	p.M430V	FAM160B1_uc001lcc.2_Missense_Mutation_p.M430V	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	430										lung(1)	1						GCTTCAAGAAATGGTGTTTTT	0.433													34	45	---	---	---	---	PASS	G	116606016	G	G	116606016	3	3	34	1	0	0	0	0	1	0	0	0	5470	101	4	5	1326	5	FAM160B1	10	116606016	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	2681707	116606016	18928731	139	13796										
DOCK1	1793	broad.mit.edu	37	chr10	128798486	128798486	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aaaatcagttttgtctgtcaGattgttcgcgtgggtcgcat	11	7	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr10:128798486G>T	uc001ljt.2	+	10	964	c.900G>T	c.(898-900)CAG>CAT	p.Q300H	DOCK1_uc010qun.1_Missense_Mutation_p.Q300H	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	300					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		TTGTCTGTCAGATTGTTCGCG	0.453													4	43	---	---	---	---	PASS	T	128798486	T	T	128798486	3	4	34	1	0	0	0	0	1	0	0	0	4684	933	33	2	938	2	DOCK1	10	128798486	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	12192470	128798486	6736261	140	13797										
KNDC1	85442	broad.mit.edu	37	chr10	135025267	135025267	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gggccgagggcaaccctcgcGgcacagacctggagaacccc	14	16	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr10:135025267G>T	uc001llz.1	+	23	4142	c.4141G>T	c.(4141-4143)GGC>TGC	p.G1381C		NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1381					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		CAACCCTCGCGGCACAGACCT	0.662													42	77	---	---	---	---	PASS	T	135025267	T	T	135025267	3	4	34	1	0	0	0	0	1	0	0	0	8426	1116	39	1	4231	1	KNDC1	10	135025267	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	6226781	135025267	509480	141	13798										
RIC8A	60626	broad.mit.edu	37	chr11	212652	212652	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggatgtgaggacacggcctgAggttggggagatgctgcgga	20	6	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:212652A>T	uc001log.2	+	7	1428	c.1103A>T	c.(1102-1104)GAG>GTG	p.E368V	RIC8A_uc001lof.2_Missense_Mutation_p.E374V|RIC8A_uc001loh.2_Missense_Mutation_p.E361V	NM_021932	NP_068751	Q9NPQ8	RIC8A_HUMAN	resistance to inhibitors of cholinesterase 8	368						cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity				0		all_cancers(49;9.23e-07)|all_epithelial(84;0.000315)|Breast(177;0.00122)|Ovarian(85;0.0202)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.45e-27)|Epithelial(43;2.94e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.86e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		ACACGGCCTGAGGTTGGGGAG	0.602													18	81	---	---	---	---	PASS	T	212652	T	T	212652	3	4	34	1	0	0	0	0	1	0	0	0	13355	304	11	5	1147	5	RIC8A	11	212652	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08		212652	134793864	142	13799										
MUC5B	727897	broad.mit.edu	37	chr11	1266611	1266611	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gaccaccccgggccacaccaGggccacctccaggaccacgg	11	20	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:1266611G>C	uc009ycr.1	+	49	10376	c.10250G>C	c.(10249-10251)AGG>ACG	p.R3417T	MUC5B_uc001ltb.2_Missense_Mutation_p.R2837T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2834	7 X Cys-rich subdomain repeats.|Thr-rich.			R -> T (in Ref. 4; CAA96577).|Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GGCCACACCAGGGCCACCTCC	0.692													17	366	---	---	---	---	PASS	C	1266611	C	C	1266611	3	2	34	1	0	0	0	0	1	0	0	0	9979	1000	35	4	8632	4	MUC5B	11	1266611	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	1053959	1266611	133739905	143	13800										
BRSK2	9024	broad.mit.edu	37	chr11	1466647	1466647	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	atgcactcactgggctgcttCcgagaccgcaacaagctgct	10	14	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:1466647C>T	uc001lti.2	+	10	1322	c.936C>T	c.(934-936)TTC>TTT	p.F312F	BRSK2_uc009ycv.1_Silent_p.F312F|BRSK2_uc001lth.1_Silent_p.F312F|BRSK2_uc001ltj.2_Silent_p.F312F|BRSK2_uc001ltk.2_RNA|BRSK2_uc001ltl.2_Silent_p.F312F|BRSK2_uc001ltm.2_Silent_p.F358F|BRSK2_uc001ltn.2_RNA|BRSK2_uc010qwx.1_RNA	NM_003957	NP_003948	Q8IWQ3	BRSK2_HUMAN	BR serine/threonine kinase 2	312	UBA.				establishment of cell polarity|neuron differentiation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)		TGGGCTGCTTCCGAGACCGCA	0.687													16	81	---	---	---	---	PASS	T	1466647	T	T	1466647	2	4	34	1	0	0	0	0	0	0	0	1	1524	854	30	2		2	BRSK2	11	1466647	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	200036	1466647	133539869	144	13801										
OR52I2	143502	broad.mit.edu	37	chr11	4608932	4608932	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgcggcctggttggggcaggAtgtagtgcccttgcacaccc	15	12	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:4608932A>G	uc010qyh.1	+	1	890	c.890A>G	c.(889-891)GAT>GGT	p.D297G		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	297	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTGGGGCAGGATGTAGTGCCC	0.517													27	165	---	---	---	---	PASS	G	4608932	G	G	4608932	3	3	34	1	0	0	0	0	1	0	0	0	11121	333	12	5	892	5	OR52I2	11	4608932	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	3142285	4608932	130397584	145	13802										
OR52A4	390053	broad.mit.edu	37	chr11	5142097	5142097	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	attaaataccttaagtcgtgCctctttcagaggcaagtgaa	8	8	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:5142097C>T	uc001lzz.1	-	1	712	c.712G>A	c.(712-714)GCA>ACA	p.A238T		NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		TTAAGTCGTGCCTCTTTCAGA	0.353													14	16	---	---	---	---	PASS	T	5142097	T	T	5142097	3	4	34	1	0	0	0	0	1	0	0	0	11109	739	26	3	206	3	OR52A4	11	5142097	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	533165	5142097	129864419	146	13803										
SBF2	81846	broad.mit.edu	37	chr11	10014013	10014013	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggacctctttctgaaacaaaAcctgcaaatgccattccact	5	13	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:10014013A>G	uc001mib.2	-	12	1383	c.1245T>C	c.(1243-1245)GGT>GGC	p.G415G	SBF2_uc001mif.3_Silent_p.G171G	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	415	dDENN.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		CTGAAACAAAACCTGCAAATG	0.368													7	26	---	---	---	---	PASS	G	10014013	G	G	10014013	2	3	34	1	0	0	0	0	0	0	0	1	13859	30	2	5		5	SBF2	11	10014013	Silent	SNP	A	TCGA-22-4591-01A-01D-1267-08	4871916	10014013	124992503	147	13804										
LDLRAD3	143458	broad.mit.edu	37	chr11	36103249	36103249	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	accttcttcccctgtgccagCggcatccattgcatcattgg	8	15	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:36103249C>A	uc001mwk.1	+	3	277	c.240C>A	c.(238-240)AGC>AGA	p.S80R	LDLRAD3_uc010rey.1_Missense_Mutation_p.S31R|LDLRAD3_uc010rez.1_5'UTR	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	80	Extracellular (Potential).|LDL-receptor class A 2.					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)				CCTGTGCCAGCGGCATCCATT	0.522													4	160	---	---	---	---	PASS	A	36103249	A	A	36103249	3	1	34	1	0	0	0	0	1	0	0	0	8707	767	27	1	250	1	LDLRAD3	11	36103249	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	26089236	36103249	98903267	148	13805										
LRRC4C	57689	broad.mit.edu	37	chr11	40136214	40136214	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	atcttgtagaaaatgaccagCatcactgcagccatgagtgt	9	9	2	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:40136214C>T	uc001mxa.1	-	2	3593	c.1629G>A	c.(1627-1629)ATG>ATA	p.M543I	LRRC4C_uc001mxc.1_Missense_Mutation_p.M539I|LRRC4C_uc001mxd.1_Missense_Mutation_p.M539I|LRRC4C_uc001mxb.1_Missense_Mutation_p.M539I	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	543	Helical; (Potential).				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				AAATGACCAGCATCACTGCAG	0.443													17	48	---	---	---	---	PASS	T	40136214	T	T	40136214	3	4	34	1	0	0	0	0	1	0	0	0	9008	710	25	3	297	3	LRRC4C	11	40136214	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	4032965	40136214	94870302	149	13806										
OR5L1	219437	broad.mit.edu	37	chr11	55579641	55579641	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aagatgggctctgcagagggCaggcacaaagccttctccac	12	12	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:55579641C>A	uc001nhw.1	+	1	699	c.699C>A	c.(697-699)GGC>GGA	p.G233G		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	233	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				CTGCAGAGGGCAGGCACAAAG	0.507													13	63	---	---	---	---	PASS	A	55579641	A	A	55579641	2	1	34	1	0	0	0	0	0	0	0	1	11170	697	25	3		3	OR5L1	11	55579641	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	15443427	55579641	79426875	150	13807										
OR5B3	441608	broad.mit.edu	37	chr11	58170531	58170531	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cactgctgcatagcggtcatAggccattgaggccaagaggt	13	10	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:58170531A>T	uc010rkf.1	-	1	352	c.352T>A	c.(352-354)TAT>AAT	p.Y118N		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	118	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TAGCGGTCATAGGCCATTGAG	0.458													36	18	---	---	---	---	PASS	T	58170531	T	T	58170531	3	4	34	1	0	0	0	0	1	0	0	0	11152	420	15	5	594	5	OR5B3	11	58170531	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	2590890	58170531	76835985	151	13808										
OR5B2	390190	broad.mit.edu	37	chr11	58190570	58190570	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctgaggaaaaagtacatgggGgtgtggagacaagagtccat	15	5	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:58190570G>T	uc010rkg.1	-	1	165	c.165C>A	c.(163-165)ACC>ACA	p.T55T		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AGTACATGGGGGTGTGGAGAC	0.507													6	25	---	---	---	---	PASS	T	58190570	T	T	58190570	2	4	34	1	0	0	0	0	0	0	0	1	11150	1219	43	3		3	OR5B2	11	58190570	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	20039	58190570	76815946	152	13809										
AHNAK	79026	broad.mit.edu	37	chr11	62288552	62288552	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcatctcaggcatcttaaatTtgggccccttcaattttcct	5	12	4	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:62288552T>G	uc001ntl.2	-	5	13637	c.13337A>C	c.(13336-13338)AAA>ACA	p.K4446T	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4446					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CATCTTAAATTTGGGCCCCTT	0.448													8	339	---	---	---	---	PASS	G	62288552	G	G	62288552	3	3	34	1	0	0	0	0	1	0	0	0	414	1841	64	5	4455	5	AHNAK	11	62288552	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	4097982	62288552	72717964	153	13810										
SPTBN2	6712	broad.mit.edu	37	chr11	66454595	66454595	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cttggcatccttgtaaaagcCgaggctcccacgccgcagga	11	14	0	0	rs112384228		TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:66454595C>A	uc001ojd.2	-	35	6838	c.6766G>T	c.(6766-6768)GGC>TGC	p.G2256C	SPTBN2_uc001ojc.1_Silent_p.S116S	NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	2256	PH.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						TTGTAAAAGCCGAGGCTCCCA	0.667													6	398	---	---	---	---	PASS	A	66454595	A	A	66454595	3	1	34	1	0	0	0	0	1	0	0	0	15119	652	23	1	418	1	SPTBN2	11	66454595	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	4166043	66454595	68551921	154	13811										
FADD	8772	broad.mit.edu	37	chr11	70049646	70049646	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	accgagctcaagttcctatgCctcgggcgcgtgggcaagcg	14	13	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:70049646C>A	uc001opm.2	+	1	378	c.81C>A	c.(79-81)TGC>TGA	p.C27*		NM_003824	NP_003815	Q13158	FADD_HUMAN	Fas-associated via death domain	27	DED.				activation of caspase activity|activation of pro-apoptotic gene products|cellular response to mechanical stimulus|defense response to virus|induction of apoptosis via death domain receptors|innate immune response|interspecies interaction between organisms|necrotic cell death|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|signal transduction	cytosol	death receptor binding|identical protein binding			ovary(1)|lung(1)|pancreas(1)	3	Esophageal squamous(2;1.19e-45)		LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			AGTTCCTATGCCTCGGGCGCG	0.672													24	90	---	---	---	---	PASS	A	70049646	A	A	70049646	4	1	34	1	0	0	0	0	0	1	0	0	5364	747	26	3	83	3	FADD	11	70049646	Nonsense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	3595051	70049646	64956870	155	13812										
C11orf30	56946	broad.mit.edu	37	chr11	76207484	76207484	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcctttgccacctggtattaAacctaccatccaaatcaaac	3	14	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:76207484A>C	uc001oxl.2	+	9	1477	c.1334A>C	c.(1333-1335)AAA>ACA	p.K445T	C11orf30_uc009yuj.1_Missense_Mutation_p.K460T|C11orf30_uc010rsa.1_Missense_Mutation_p.K395T|C11orf30_uc001oxm.2_Intron|C11orf30_uc010rsb.1_Missense_Mutation_p.K460T|C11orf30_uc010rsc.1_Missense_Mutation_p.K460T|C11orf30_uc001oxn.2_Missense_Mutation_p.K446T|C11orf30_uc010rsd.1_Missense_Mutation_p.K459T	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	445	Interaction with BRCA2.|Gln-rich.				chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						CCTGGTATTAAACCTACCATC	0.378													33	121	---	---	---	---	PASS	C	76207484	C	C	76207484	3	2	34	1	0	0	0	0	1	0	0	0	1636	14	1	5	1364	5	C11orf30	11	76207484	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	6157838	76207484	58799032	156	13813										
DLAT	1737	broad.mit.edu	37	chr11	111915876	111915876	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccataggctccggcagctgtTgtgcctcccacaggtcctgg	12	15	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:111915876T>A	uc001pmo.2	+	9	1871	c.1212T>A	c.(1210-1212)GTT>GTA	p.V404V	DLAT_uc009yyk.1_Silent_p.V299V|DLAT_uc010rwr.1_Silent_p.V277V	NM_001931	NP_001922	P10515	ODP2_HUMAN	dihydrolipoamide S-acetyltransferase precursor	404					glycolysis|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial pyruvate dehydrogenase complex	dihydrolipoyllysine-residue acetyltransferase activity|protein binding				0		all_cancers(61;4.53e-11)|all_epithelial(67;2.76e-06)|Melanoma(852;9.42e-06)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0512)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)		Epithelial(105;4.87e-07)|BRCA - Breast invasive adenocarcinoma(274;6.83e-07)|all cancers(92;9.63e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0557)	NADH(DB00157)	CGGCAGCTGTTGTGCCTCCCA	0.478													196	99	---	---	---	---	PASS	A	111915876	A	A	111915876	2	1	34	1	0	0	0	0	0	0	0	1	4549	1799	63	5		5	DLAT	11	111915876	Silent	SNP	T	TCGA-22-4591-01A-01D-1267-08	35708392	111915876	23090640	157	13814										
TEX12	56158	broad.mit.edu	37	chr11	112042610	112042610	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agttcctgcgacagaggtttAcagtgattgcaaacacatta	9	8	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr11:112042610A>G	uc001pnc.2	+	5	475	c.343A>G	c.(343-345)ACA>GCA	p.T115A	TEX12_uc001pnd.2_Missense_Mutation_p.T115A	NM_031275	NP_112565	Q9BXU0	TEX12_HUMAN	testis expressed sequence 12	115											0		all_cancers(61;5.7e-14)|all_epithelial(67;3.4e-08)|Melanoma(852;8.81e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;1.2e-06)|BRCA - Breast invasive adenocarcinoma(274;1.4e-06)|all cancers(92;1.97e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0512)		ACAGAGGTTTACAGTGATTGC	0.299													15	13	---	---	---	---	PASS	G	112042610	G	G	112042610	3	3	34	1	0	0	0	0	1	0	0	0	15772	391	14	5	357	5	TEX12	11	112042610	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	126734	112042610	22963906	158	13815										
B4GALNT3	283358	broad.mit.edu	37	chr12	662639	662639	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gccagagaagaggaagcaaaAacccagccctgagcccagcc	11	14	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr12:662639A>T	uc001qii.1	+	14	1550	c.1550A>T	c.(1549-1551)AAA>ATA	p.K517I	B4GALNT3_uc001qij.1_Missense_Mutation_p.K420I|B4GALNT3_uc001qik.1_Missense_Mutation_p.K66I	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	517	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			AGGAAGCAAAAACCCAGCCCT	0.627													47	206	---	---	---	---	PASS	T	662639	T	T	662639	3	4	34	1	0	0	0	0	1	0	0	0	1268	14	1	5	1604	5	B4GALNT3	12	662639	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08		662639	133189256	159	13816										
C3AR1	719	broad.mit.edu	37	chr12	8212693	8212693	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccagtaaaaaagtaaggctgAgaatgaccatggagagaatt	11	5	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr12:8212693A>T	uc001qtv.1	-	2	181	c.89T>A	c.(88-90)CTC>CAC	p.L30H		NM_004054	NP_004045	Q16581	C3AR_HUMAN	complement component 3a receptor 1	30	Helical; Name=1; (Potential).				blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)		AGTAAGGCTGAGAATGACCAT	0.502													96	57	---	---	---	---	PASS	T	8212693	T	T	8212693	3	4	34	1	0	0	0	0	1	0	0	0	2205	304	11	5	1363	5	C3AR1	12	8212693	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	7550054	8212693	125639202	160	13817										
SPRYD3	84926	broad.mit.edu	37	chr12	53468891	53468891	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	caactcacttgccatcatcaGcatggtaggctacagagtca	8	12	4	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr12:53468891G>C	uc001sbt.1	-	4	380	c.359C>G	c.(358-360)GCT>GGT	p.A120G	SPRYD3_uc010snw.1_5'UTR	NM_032840	NP_116229	Q8NCJ5	SPRY3_HUMAN	SPRY domain containing 3	120	B30.2/SPRY.									central_nervous_system(1)	1						GCCATCATCAGCATGGTAGGC	0.542													84	298	---	---	---	---	PASS	C	53468891	C	C	53468891	3	2	34	1	0	0	0	0	1	0	0	0	15108	971	34	4	1001	4	SPRYD3	12	53468891	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	45256198	53468891	80383004	161	13818										
HNRNPA1	3178	broad.mit.edu	37	chr12	54677612	54677612	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ataggaagcaattttggaggTggtggaagctacaatgattt	13	3	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr12:54677612T>C	uc001sfl.2	+	9	1028	c.924T>C	c.(922-924)GGT>GGC	p.G308G	HNRNPA1_uc001sfm.2_Silent_p.G256G|HNRNPA1_uc009zng.2_Silent_p.G256G|HNRNPA1_uc009znh.2_Silent_p.G256G|HNRNPA1_uc009zni.2_Silent_p.G243G|HNRNPA1_uc001sfn.2_Silent_p.G203G|HNRNPA1_uc001sfo.3_RNA|HNRNPA1_uc009znj.1_Silent_p.G211G	NM_031157	NP_112420	P09651	ROA1_HUMAN	heterogeneous nuclear ribonucleoprotein A1	308	Gly-rich.				interspecies interaction between organisms|mRNA transport|nuclear import	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	nucleotide binding|protein binding|single-stranded DNA binding	p.S308S(1)		skin(2)|ovary(1)	3						ATTTTGGAGGTGGTGGAAGCT	0.408													4	146	---	---	---	---	PASS	C	54677612	C	C	54677612	2	2	34	1	0	0	0	0	0	0	0	1	7257	1683	59	5		5	HNRNPA1	12	54677612	Silent	SNP	T	TCGA-22-4591-01A-01D-1267-08	1208721	54677612	79174283	162	13819										
LRP1	4035	broad.mit.edu	37	chr12	57588854	57588854	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtgacggcagcgatgactgtGgggatggctcagacgaggct	18	8	1	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr12:57588854G>T	uc001snd.2	+	51	8744	c.8278G>T	c.(8278-8280)GGG>TGG	p.G2760W		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	2760	Extracellular (Potential).|LDL-receptor class A 16.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CGATGACTGTGGGGATGGCTC	0.622													15	384	---	---	---	---	PASS	T	57588854	T	T	57588854	3	4	34	1	0	0	0	0	1	0	0	0	8951	1348	47	3	8480	3	LRP1	12	57588854	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	2911242	57588854	76263041	163	13820										
LRIG3	121227	broad.mit.edu	37	chr12	59274487	59274487	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aggatggtggtatactccatCacctcgccaccttgggcccg	11	14	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr12:59274487C>A	uc001sqr.2	-	13	1923	c.1677G>T	c.(1675-1677)GTG>GTT	p.V559V	LRIG3_uc009zqh.2_Silent_p.V499V|LRIG3_uc010ssh.1_RNA	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like	559	Ig-like C2-type 1.					integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			TATACTCCATCACCTCGCCAC	0.478													44	10	---	---	---	---	PASS	A	59274487	A	A	59274487	2	1	34	1	0	0	0	0	0	0	0	1	8946	813	29	2		2	LRIG3	12	59274487	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	1685633	59274487	74577408	164	13821										
SETD8	387893	broad.mit.edu	37	chr12	123889485	123889485	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttgccaccaagcagttctccCggggtgactttgtggtggaa	13	10	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr12:123889485C>T	uc001uew.2	+	7	754	c.712C>T	c.(712-714)CGG>TGG	p.R238W	SETD8_uc001uex.2_Missense_Mutation_p.R173W	NM_020382	NP_065115	Q9NQR1	SETD8_HUMAN	SET domain-containing 8	279	SET.				cell division|mitosis|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine monomethylation|regulation of DNA damage response, signal transduction by p53 class mediator|transcription, DNA-dependent	chromosome|nucleus	histone-lysine N-methyltransferase activity|p53 binding|transcription corepressor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.00101)|Epithelial(86;0.00425)		GCAGTTCTCCCGGGGTGACTT	0.547													50	181	---	---	---	---	PASS	T	123889485	T	T	123889485	3	4	34	1	0	0	0	0	1	0	0	0	14137	643	23	1	738	1	SETD8	12	123889485	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	64614998	123889485	9962410	165	13822										
EP400	57634	broad.mit.edu	37	chr12	132551417	132551417	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gcgaagcctccggtggtgtcCgtcccggcagctgtggtctc	15	14	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr12:132551417C>T	uc001ujn.2	+	48	8687	c.8652C>T	c.(8650-8652)TCC>TCT	p.S2884S	EP400_uc001ujl.2_Silent_p.S2883S|EP400_uc001ujm.2_Silent_p.S2803S|EP400_uc001ujp.2_Silent_p.S94S	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2920					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CGGTGGTGTCCGTCCCGGCAG	0.677													52	144	---	---	---	---	PASS	T	132551417	T	T	132551417	2	4	34	1	0	0	0	0	0	0	0	1	5149	639	23	1		1	EP400	12	132551417	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	8661932	132551417	1300478	166	13823										
GOLGA3	2802	broad.mit.edu	37	chr12	133350776	133350776	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggcagctgttcaggttcttgAggggctccttgctcacggcg	15	11	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr12:133350776A>G	uc001ukz.1	-	23	4833	c.4274T>C	c.(4273-4275)CTC>CCC	p.L1425P		NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1425	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CAGGTTCTTGAGGGGCTCCTT	0.602													4	168	---	---	---	---	PASS	G	133350776	G	G	133350776	3	3	34	1	0	0	0	0	1	0	0	0	6554	304	11	5	230	5	GOLGA3	12	133350776	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	799359	133350776	501119	167	13824										
CRYL1	51084	broad.mit.edu	37	chr13	21063632	21063632	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgctccagcaacttcatctcCtttctggaaaggcagagaga	9	11	3	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:21063632C>A	uc001une.2	-	3	232	c.153G>T	c.(151-153)AAG>AAT	p.K51N	CRYL1_uc001unf.2_Missense_Mutation_p.K29N|CRYL1_uc001ung.2_Missense_Mutation_p.K29N	NM_015974	NP_057058	Q9Y2S2	CRYL1_HUMAN	lambda-crystallin	51					fatty acid metabolic process	cytosol	3-hydroxyacyl-CoA dehydrogenase activity|L-gulonate 3-dehydrogenase activity|NAD+ binding|protein homodimerization activity				0		all_cancers(29;2.27e-23)|all_epithelial(30;1.69e-19)|all_lung(29;8.29e-18)|Lung SC(185;0.0262)|Ovarian(182;0.0827)|Hepatocellular(188;0.244)		all cancers(112;6.6e-05)|Epithelial(112;0.00178)|OV - Ovarian serous cystadenocarcinoma(117;0.0169)|Lung(94;0.0215)|GBM - Glioblastoma multiforme(144;0.0402)|LUSC - Lung squamous cell carcinoma(192;0.061)		ACTTCATCTCCTTTCTGGAAA	0.378											OREG0022283	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	47	---	---	---	---	PASS	A	21063632	A	A	21063632	3	1	34	1	0	0	0	0	1	0	0	0	3920	680	24	3	830	3	CRYL1	13	21063632	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08		21063632	94106246	168	13825										
SACS	26278	broad.mit.edu	37	chr13	23912373	23912373	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cattgatatgaactggcaagCctgtttttattcgtaaaggt	9	6	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:23912373C>G	uc001uon.2	-	10	6231	c.5642G>C	c.(5641-5643)GGC>GCC	p.G1881A	SACS_uc001uoo.2_Missense_Mutation_p.G1734A|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1881					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AACTGGCAAGCCTGTTTTTAT	0.413													7	16	---	---	---	---	PASS	G	23912373	G	G	23912373	3	3	34	1	0	0	0	0	1	0	0	0	13804	739	26	4	8101	4	SACS	13	23912373	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	2848741	23912373	91257505	169	13826										
RNF17	56163	broad.mit.edu	37	chr13	25416262	25416262	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctactactagtattaatgacCagctagttaaagagggccta	8	8	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:25416262C>A	uc001upr.2	+	19	2607	c.2566C>A	c.(2566-2568)CAG>AAG	p.Q856K	RNF17_uc010tdd.1_Missense_Mutation_p.Q715K|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.Q856K|RNF17_uc001ups.2_Missense_Mutation_p.Q795K|RNF17_uc010aac.2_Missense_Mutation_p.Q54K|RNF17_uc010aad.2_5'Flank	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	856					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		TATTAATGACCAGCTAGTTAA	0.328													3	24	---	---	---	---	PASS	A	25416262	A	A	25416262	3	1	34	1	0	0	0	0	1	0	0	0	13461	595	21	3	2640	3	RNF17	13	25416262	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	1503889	25416262	89753616	170	13827										
RXFP2	122042	broad.mit.edu	37	chr13	32332513	32332513	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgtgatggcaaggatgactgTgggaacggggcggacgaaga	19	5	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:32332513T>C	uc001utt.2	+	2	284	c.213T>C	c.(211-213)TGT>TGC	p.C71C	RXFP2_uc010aba.2_Silent_p.C54C	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	71	Extracellular (Potential).|LDL-receptor class A.					integral to membrane|plasma membrane					0		Lung SC(185;0.0262)		all cancers(112;0.000559)|Epithelial(112;0.0017)|OV - Ovarian serous cystadenocarcinoma(117;0.0145)|BRCA - Breast invasive adenocarcinoma(63;0.0535)		AGGATGACTGTGGGAACGGGG	0.517													7	129	---	---	---	---	PASS	C	32332513	C	C	32332513	2	2	34	1	0	0	0	0	0	0	0	1	13760	1702	59	5		5	RXFP2	13	32332513	Silent	SNP	T	TCGA-22-4591-01A-01D-1267-08	6916251	32332513	82837365	171	13828										
NBEA	26960	broad.mit.edu	37	chr13	35864535	35864535	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctttgttgtaggccttgtttGtatgaagtccagcacatctg	10	8	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:35864535G>T	uc001uvb.2	+	35	5992	c.5786G>T	c.(5785-5787)TGT>TTT	p.C1929F	NBEA_uc010abi.2_Missense_Mutation_p.C585F	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1929						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GGCCTTGTTTGTATGAAGTCC	0.303													24	36	---	---	---	---	PASS	T	35864535	T	T	35864535	3	4	34	1	0	0	0	0	1	0	0	0	10187	1377	48	3	5924	3	NBEA	13	35864535	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	3532022	35864535	79305343	172	13829										
FREM2	341640	broad.mit.edu	37	chr13	39454823	39454823	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttgcagtgctgatgtgcaggGgcaaggaaagtttcaggggg	18	5	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:39454823G>C	uc001uwv.2	+	24	9718	c.9409G>C	c.(9409-9411)GGC>CGC	p.G3137R		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	3137	Cytoplasmic (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GATGTGCAGGGGCAAGGAAAG	0.587													9	1	---	---	---	---	PASS	C	39454823	C	C	39454823	3	2	34	1	0	0	0	0	1	0	0	0	6045	1232	43	4	9503	4	FREM2	13	39454823	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	3590288	39454823	75715055	173	13830										
ZC3H13	23091	broad.mit.edu	37	chr13	46549561	46549561	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttatccctttctctcgctctTtctcgttcccgttctcgctc	4	17	4	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:46549561T>C	uc010tfw.1	-	11	2331	c.2325A>G	c.(2323-2325)GAA>GAG	p.E775E	ZC3H13_uc001vas.1_Silent_p.E775E|ZC3H13_uc001vat.1_Silent_p.E775E	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	775	Arg/Glu-rich.|Potential.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		ctctcgctctttctcgttccc	0.199													4	107	---	---	---	---	PASS	C	46549561	C	C	46549561	2	2	34	1	0	0	0	0	0	0	0	1	17562	1838	64	5		5	ZC3H13	13	46549561	Silent	SNP	T	TCGA-22-4591-01A-01D-1267-08	7094738	46549561	68620317	174	13831										
C13orf18	80183	broad.mit.edu	37	chr13	46935598	46935598	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcgagccagctgcactcaggGaacctgccagctgagaatta	11	12	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:46935598G>T	uc010acl.2	-	8	1702	c.1097C>A	c.(1096-1098)TCC>TAC	p.S366Y	C13orf18_uc001vbf.3_Missense_Mutation_p.S299Y|C13orf18_uc001vbg.3_Missense_Mutation_p.S94Y|C13orf18_uc010tfz.1_Missense_Mutation_p.S209Y|C13orf18_uc010acm.2_Missense_Mutation_p.S231Y|C13orf18_uc010acn.2_Missense_Mutation_p.S151Y|C13orf18_uc001vbe.3_Missense_Mutation_p.S366Y|C13orf18_uc001vbh.3_Missense_Mutation_p.S366Y|C13orf18_uc001vbi.3_Missense_Mutation_p.S209Y|C13orf18_uc010aco.1_Missense_Mutation_p.S366Y	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	366											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		TGCACTCAGGGAACCTGCCAG	0.428													16	4	---	---	---	---	PASS	T	46935598	T	T	46935598	3	4	34	1	0	0	0	0	1	0	0	0	1720	1174	41	2	923	2	C13orf18	13	46935598	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	386037	46935598	68234280	175	13832										
FNDC3A	22862	broad.mit.edu	37	chr13	49710673	49710673	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	attgctggtggtataaacacAggatcagcaaaaatcaagtc	9	7	2	0	rs141169070	byFrequency	TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:49710673A>G	uc001vcm.2	+	6	1001	c.696A>G	c.(694-696)ACA>ACG	p.T232T	FNDC3A_uc001vcl.1_Silent_p.T232T|FNDC3A_uc001vcn.2_Silent_p.T232T|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcp.1_Silent_p.T176T|FNDC3A_uc001vcq.2_Silent_p.T176T	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	232						Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		GTATAAACACAGGATCAGCAA	0.393													13	25	---	---	---	---	PASS	G	49710673	G	G	49710673	2	3	34	1	0	0	0	0	0	0	0	1	5969	175	7	5		5	FNDC3A	13	49710673	Silent	SNP	A	TCGA-22-4591-01A-01D-1267-08	2775075	49710673	65459205	176	13833										
INTS6	26512	broad.mit.edu	37	chr13	51963577	51963577	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gagaacacacagaatatgaaCggcctgagattaaaaaaaag	9	6	0	4			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:51963577C>T	uc001vfk.2	-	6	1231	c.617G>A	c.(616-618)CGT>CAT	p.R206H	INTS6_uc001vfj.2_Missense_Mutation_p.R193H|INTS6_uc001vfl.2_Missense_Mutation_p.R28H	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	206	VWFA.				snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)		AGAATATGAACGGCCTGAGAT	0.328													9	23	---	---	---	---	PASS	T	51963577	T	T	51963577	3	4	34	1	0	0	0	0	1	0	0	0	7782	536	19	1	2098	1	INTS6	13	51963577	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	2252904	51963577	63206301	177	13834										
DCT	1638	broad.mit.edu	37	chr13	95131312	95131312	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccactccagggccttgtgtcGgctcgcacctctgtgcactg	11	16	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:95131312G>A	uc001vlv.3	-	1	625	c.198C>T	c.(196-198)GCC>GCT	p.A66A	DCT_uc010afh.2_Silent_p.A66A	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	66	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		GCCTTGTGTCGGCTCGCACCT	0.602													31	69	---	---	---	---	PASS	A	95131312	A	A	95131312	2	1	34	1	0	0	0	0	0	0	0	1	4304	1103	39	1		1	DCT	13	95131312	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	43167735	95131312	20038566	178	13835										
UGGT2	55757	broad.mit.edu	37	chr13	96675911	96675911	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	acatctgaatagctggggagTatgcccttatagagaaagca	11	7	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:96675911T>A	uc001vmt.2	-	3	514	c.344A>T	c.(343-345)TAC>TTC	p.Y115F	UGGT2_uc010afo.2_RNA|UGGT2_uc001vmv.2_Missense_Mutation_p.Y115F|UGGT2_uc010afp.2_Missense_Mutation_p.Y115F	NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	115					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						AGCTGGGGAGTATGCCCTTAT	0.358													16	12	---	---	---	---	PASS	A	96675911	A	A	96675911	3	1	34	1	0	0	0	0	1	0	0	0	16939	1638	57	5	4354	5	UGGT2	13	96675911	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	1544599	96675911	18493967	179	13836										
NALCN	259232	broad.mit.edu	37	chr13	101714326	101714326	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgcagttcactcacagctctGatgcgcttcaggcacttctt	8	13	5	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:101714326G>T	uc001vox.1	-	41	4938	c.4749C>A	c.(4747-4749)ATC>ATA	p.I1583I		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1583	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TCACAGCTCTGATGCGCTTCA	0.473													60	15	---	---	---	---	PASS	T	101714326	T	T	101714326	2	4	34	1	0	0	0	0	0	0	0	1	10148	1280	45	2		2	NALCN	13	101714326	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	5038415	101714326	13455552	180	13837										
SOX1	6656	broad.mit.edu	37	chr13	112721993	112721993	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	atgtacagcatgatgatggaGaccgacctgcactcgcccgg	12	12	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr13:112721993G>C	uc001vsb.1	+	1	81	c.21G>C	c.(19-21)GAG>GAC	p.E7D		NM_005986	NP_005977	O00570	SOX1_HUMAN	SRY (sex determining region Y)-box 1	7					chromatin organization	nucleus	core promoter sequence-specific DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	all_lung(23;0.000652)|Lung NSC(43;0.017)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	all_cancers(25;0.000331)|Lung NSC(25;0.0496)|all_lung(25;0.0831)|all_epithelial(44;0.0868)|Breast(118;0.231)		OV - Ovarian serous cystadenocarcinoma(48;0.132)		TGATGATGGAGACCGACCTGC	0.597													12	27	---	---	---	---	PASS	C	112721993	C	C	112721993	3	2	34	1	0	0	0	0	1	0	0	0	14940	933	33	2	23	2	SOX1	13	112721993	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	11007667	112721993	2447885	181	13838										
OR11H12	440153	broad.mit.edu	37	chr14	19377713	19377713	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgtgagtggacaattcagatCttcctcttctcactctttac	6	11	5	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr14:19377713C>A	uc010tkp.1	+	1	120	c.120C>A	c.(118-120)ATC>ATA	p.I40I		NM_001013354	NP_001013372	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H,	40	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CAATTCAGATCTTCCTCTTCT	0.428													12	19	---	---	---	---	PASS	A	19377713	A	A	19377713	2	1	34	1	0	0	0	0	0	0	0	1	10927	903	32	2		2	OR11H12	14	19377713	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08		19377713	87971827	182	13839										
SALL2	6297	broad.mit.edu	37	chr14	21991967	21991967	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctcggagacagatgacacacTggttaggtccagaagaggct	13	9	0	5			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr14:21991967T>A	uc001wbe.2	-	2	2177	c.1895A>T	c.(1894-1896)CAG>CTG	p.Q632L	SALL2_uc010tly.1_Missense_Mutation_p.Q630L|SALL2_uc010tlz.1_Missense_Mutation_p.Q495L|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Missense_Mutation_p.Q497L|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	632	C2H2-type 3.						DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		GATGACACACTGGTTAGGTCC	0.587													60	249	---	---	---	---	PASS	A	21991967	A	A	21991967	3	1	34	1	0	0	0	0	1	0	0	0	13811	1580	55	5	1132	5	SALL2	14	21991967	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	2614254	21991967	85357573	183	13840										
SALL2	6297	broad.mit.edu	37	chr14	21992791	21992791	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cccatcacttctccgtagctCagctcaccacttccattctt	3	18	5	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr14:21992791C>T	uc001wbe.2	-	2	1353	c.1071G>A	c.(1069-1071)CTG>CTA	p.L357L	SALL2_uc010tly.1_Silent_p.L355L|SALL2_uc010tlz.1_Silent_p.L220L|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Silent_p.L222L|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	357							DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		CTCCGTAGCTCAGCTCACCAC	0.592													86	145	---	---	---	---	PASS	T	21992791	T	T	21992791	2	4	34	1	0	0	0	0	0	0	0	1	13811	813	29	2		2	SALL2	14	21992791	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	824	21992791	85356749	184	13841										
FANCM	57697	broad.mit.edu	37	chr14	45667984	45667984	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	taaaggaactgtctttagtgGaacaaagaaagaatgttggt	11	3	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr14:45667984G>A	uc001wwd.3	+	22	5953	c.5854G>A	c.(5854-5856)GAA>AAA	p.E1952K	FANCM_uc010anf.2_Missense_Mutation_p.E1926K|FANCM_uc001wwe.3_Missense_Mutation_p.E1488K|FANCM_uc010ang.2_Missense_Mutation_p.E1201K	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1952	Interaction with FAAP24 and EME1.				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						GTCTTTAGTGGAACAAAGAAA	0.378								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				12	30	---	---	---	---	PASS	A	45667984	A	A	45667984	3	1	34	1	0	0	0	0	1	0	0	0	5671	1175	41	2	5940	2	FANCM	14	45667984	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	23675193	45667984	61681556	185	13842										
NID2	22795	broad.mit.edu	37	chr14	52526917	52526917	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctgacttcagatcatcagccTcccctcggcagaagcccacc	7	18	3	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr14:52526917T>C	uc001wzo.2	-	3	926	c.692A>G	c.(691-693)GAG>GGG	p.E231G	NID2_uc010tqs.1_Missense_Mutation_p.E231G|NID2_uc010tqt.1_Missense_Mutation_p.E231G|NID2_uc001wzp.2_Missense_Mutation_p.E231G	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	231	NIDO.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					ATCATCAGCCTCCCCTCGGCA	0.502													7	23	---	---	---	---	PASS	C	52526917	C	C	52526917	3	2	34	1	0	0	0	0	1	0	0	0	10415	1551	54	5	3515	5	NID2	14	52526917	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	6858933	52526917	54822623	186	13843										
SGPP1	81537	broad.mit.edu	37	chr14	64194007	64194007	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggccataggtgaggaggaccAtagaaatggggatggcggtg	19	5	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr14:64194007A>G	uc001xgj.2	-	1	750	c.656T>C	c.(655-657)ATG>ACG	p.M219T		NM_030791	NP_110418	Q9BX95	SGPP1_HUMAN	sphingosine-1-phosphate phosphatase 1	219	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	dihydrosphingosine-1-phosphate phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0056)|all cancers(60;0.0141)|BRCA - Breast invasive adenocarcinoma(234;0.103)		GAGGAGGACCATAGAAATGGG	0.582													112	124	---	---	---	---	PASS	G	64194007	G	G	64194007	3	3	34	1	0	0	0	0	1	0	0	0	14219	217	8	5	681	5	SGPP1	14	64194007	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	11667090	64194007	43155533	187	13844										
VSX2	338917	broad.mit.edu	37	chr14	74711940	74711940	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gcccactacccagacgtctaTgcccgggagatgctggccat	11	15	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr14:74711940T>C	uc001xpq.2	+	3	618	c.528T>C	c.(526-528)TAT>TAC	p.Y176Y		NM_182894	NP_878314	P58304	VSX2_HUMAN	visual system homeobox 2	176	Homeobox.				multicellular organismal development|response to stimulus|visual perception	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00154)		CAGACGTCTATGCCCGGGAGA	0.582													65	75	---	---	---	---	PASS	C	74711940	C	C	74711940	2	2	34	1	0	0	0	0	0	0	0	1	17229	1471	51	5		5	VSX2	14	74711940	Silent	SNP	T	TCGA-22-4591-01A-01D-1267-08	10517933	74711940	32637600	188	13845										
GTF2A1	2957	broad.mit.edu	37	chr14	81670326	81670326	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggctgagcttgctgatgatgGtgatggtggtgatgctgctg	18	5	0	5			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr14:81670326G>A	uc001xvf.1	-	3	687	c.255C>T	c.(253-255)CAC>CAT	p.H85H	GTF2A1_uc010atb.1_Silent_p.H35H|GTF2A1_uc001xvg.1_Silent_p.H46H|GTF2A1_uc001xvh.1_Silent_p.H46H|SNORA79_uc001xvi.1_5'Flank	NM_015859	NP_056943	P52655	TF2AA_HUMAN	TFIIA alpha, p55 isoform 1	85	Poly-His.				regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|transcription factor TFIIA complex	DNA binding|protein binding|protein heterodimerization activity|TBP-class protein binding|transcription coactivator activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0287)		gctgatgatggtgatggtggt	0.259													3	18	---	---	---	---	PASS	A	81670326	A	A	81670326	2	1	34	1	0	0	0	0	0	0	0	1	6852	1252	44	3		3	GTF2A1	14	81670326	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	6958386	81670326	25679214	189	13846										
WARS	7453	broad.mit.edu	37	chr14	100803472	100803472	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgaaagacacgtccacatcaCagttgcccccaaactgcctg	7	15	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr14:100803472C>T	uc001yhf.1	-	9	1265	c.1181G>A	c.(1180-1182)TGT>TAT	p.C394Y	WARS_uc001yhe.1_Missense_Mutation_p.C200Y|WARS_uc001yhg.1_Missense_Mutation_p.C394Y|WARS_uc001yhh.1_Missense_Mutation_p.C394Y|WARS_uc001yhi.1_Missense_Mutation_p.C353Y|WARS_uc001yhj.1_Missense_Mutation_p.C353Y|WARS_uc001yhk.1_Missense_Mutation_p.C353Y|WARS_uc001yhl.1_Missense_Mutation_p.C394Y	NM_173701	NP_776049	P23381	SYWC_HUMAN	tryptophanyl-tRNA synthetase isoform a	394					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)	GTCCACATCACAGTTGCCCCC	0.557													191	702	---	---	---	---	PASS	T	100803472	T	T	100803472	3	4	34	1	0	0	0	0	1	0	0	0	17246	478	17	3	242	3	WARS	14	100803472	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	19133146	100803472	6546068	190	13847										
OR4M2	390538	broad.mit.edu	37	chr15	22369213	22369213	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctctgtggtgtgtttgattgCtctgttaatgtcctatgcct	10	8	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr15:22369213C>T	uc010tzu.1	+	1	638	c.638C>T	c.(637-639)GCT>GTT	p.A213V	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	213	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TGTTTGATTGCTCTGTTAATG	0.483													7	119	---	---	---	---	PASS	T	22369213	T	T	22369213	3	4	34	1	0	0	0	0	1	0	0	0	11076	797	28	3	640	3	OR4M2	15	22369213	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08		22369213	80162179	191	13848										
MGA	23269	broad.mit.edu	37	chr15	42057172	42057172	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctcaccctaaaaggtcccctAttctcaggaccagtggtagc	8	14	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr15:42057172A>G	uc010ucy.1	+	23	8014	c.7833A>G	c.(7831-7833)CTA>CTG	p.L2611L	MGA_uc010ucz.1_Silent_p.L2402L	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	2572						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		AAGGTCCCCTATTCTCAGGAC	0.478													43	95	---	---	---	---	PASS	G	42057172	G	G	42057172	2	3	34	1	0	0	0	0	0	0	0	1	9540	436	16	5		5	MGA	15	42057172	Silent	SNP	A	TCGA-22-4591-01A-01D-1267-08	19687959	42057172	60474220	192	13849										
CEP152	22995	broad.mit.edu	37	chr15	49036454	49036454	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tacatttaattttttttacaGctttaatgtactgcccacga	4	8	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr15:49036454G>A	uc001zwy.2	-	23	3684	c.3650C>T	c.(3649-3651)GCT>GTT	p.A1217V	CEP152_uc001zwz.2_Missense_Mutation_p.A1273V|CEP152_uc001zxa.1_Missense_Mutation_p.A1180V	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	1217					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		TTTTTTTACAGCTTTAATGTA	0.393													6	27	---	---	---	---	PASS	A	49036454	A	A	49036454	3	1	34	1	0	0	0	0	1	0	0	0	3248	971	34	3	1330	3	CEP152	15	49036454	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	6979282	49036454	53494938	193	13850										
SCG3	29106	broad.mit.edu	37	chr15	51973962	51973962	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agcgtggaagaatggggttcCtcgggaccggcacttggatt	16	8	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr15:51973962C>T	uc002abh.2	+	1	418	c.10C>T	c.(10-12)CTC>TTC	p.L4F	SCG3_uc010ufz.1_5'UTR	NM_013243	NP_037375	Q8WXD2	SCG3_HUMAN	secretogranin III isoform 1 precursor	4					platelet activation|platelet degranulation	extracellular region|stored secretory granule				ovary(1)	1				all cancers(107;0.00488)		AATGGGGTTCCTCGGGACCGG	0.522													33	19	---	---	---	---	PASS	T	51973962	T	T	51973962	3	4	34	1	0	0	0	0	1	0	0	0	13892	681	24	3	12	3	SCG3	15	51973962	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	2937508	51973962	50557430	194	13851										
FOXB1	27023	broad.mit.edu	37	chr15	60298008	60298008	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctgccagcgcccatccccacCttgctctcgaactcgccgcc	7	22	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr15:60298008C>A	uc002agj.1	+	2	1325	c.846C>A	c.(844-846)ACC>ACA	p.T282T	FOXB1_uc010bgh.1_Intron	NM_012182	NP_036314	Q99853	FOXB1_HUMAN	forkhead box B1	282					axon target recognition|cell migration in diencephalon|epithelial cell differentiation involved in mammary gland alveolus development|floor plate development|hypothalamus cell migration|inferior colliculus development|lactation|mammillothalamic axonal tract development|negative regulation of neuron apoptosis|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|telencephalon cell migration|visual learning	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(1)|central_nervous_system(1)	2						CCATCCCCACCTTGCTCTCGA	0.736													21	5	---	---	---	---	PASS	A	60298008	A	A	60298008	2	1	34	1	0	0	0	0	0	0	0	1	5992	668	24	3		3	FOXB1	15	60298008	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	8324046	60298008	42233384	195	13852										
ACAN	176	broad.mit.edu	37	chr15	89392689	89392689	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gggaggtgttcttcgccacaCgccttgagcagttcaccttc	11	13	2	1	rs144501729	by1000genomes	TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr15:89392689C>T	uc010upo.1	+	10	2127	c.1753C>T	c.(1753-1755)CGC>TGC	p.R585C	ACAN_uc002bmx.2_Missense_Mutation_p.R585C|ACAN_uc010upp.1_Missense_Mutation_p.R585C|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	585					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CTTCGCCACACGCCTTGAGCA	0.627													31	10	---	---	---	---	PASS	T	89392689	T	T	89392689	3	4	34	1	0	0	0	0	1	0	0	0	117	536	19	1	1787	1	ACAN	15	89392689	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	29094681	89392689	13138703	196	13853										
SYNM	23336	broad.mit.edu	37	chr15	99670662	99670662	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	actgaggatgttgatgtttcCgatgaagctggcctggacta	13	7	0	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr15:99670662C>T	uc002bup.2	+	6	2217	c.2097C>T	c.(2095-2097)TCC>TCT	p.S699S	SYNM_uc002buo.2_Silent_p.S699S|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	699	Tail.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						TTGATGTTTCCGATGAAGCTG	0.458													7	106	---	---	---	---	PASS	T	99670662	T	T	99670662	2	4	34	1	0	0	0	0	0	0	0	1	15452	639	23	1		1	SYNM	15	99670662	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	10277973	99670662	2860730	197	13854										
UBN1	29855	broad.mit.edu	37	chr16	4924934	4924934	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	acacagtgtcatcgttccctCctgcagttagtgaagacagc	9	12	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr16:4924934C>A	uc002cyb.2	+	15	2862	c.2523C>A	c.(2521-2523)CTC>CTA	p.L841L	UBN1_uc010uxw.1_Silent_p.L841L|UBN1_uc002cyc.2_Silent_p.L841L	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	841					chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						ATCGTTCCCTCCTGCAGTTAG	0.577													209	53	---	---	---	---	PASS	A	4924934	A	A	4924934	2	1	34	1	0	0	0	0	0	0	0	1	16889	842	30	2		2	UBN1	16	4924934	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08		4924934	85429819	198	13855										
UBN1	29855	broad.mit.edu	37	chr16	4926941	4926941	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	caccctacaaatccagcagcCcaaagctgtctggggccatg	9	15	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr16:4926941C>T	uc002cyb.2	+	16	3433	c.3094C>T	c.(3094-3096)CCA>TCA	p.P1032S	UBN1_uc010uxw.1_Missense_Mutation_p.P1032S|UBN1_uc002cyc.2_Missense_Mutation_p.P1032S	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	1032	Ser-rich.				chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						ATCCAGCAGCCCAAAGCTGTC	0.547													44	876	---	---	---	---	PASS	T	4926941	T	T	4926941	3	4	34	1	0	0	0	0	1	0	0	0	16889	623	22	3	3152	3	UBN1	16	4926941	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	2007	4926941	85427812	199	13856										
SEC14L5	9717	broad.mit.edu	37	chr16	5009369	5009369	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtccgagtctacaagtacccGtttgagctggtcatggcggt	13	10	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr16:5009369G>A	uc002cye.2	+	2	225	c.45G>A	c.(43-45)CCG>CCA	p.P15P		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	15	PRELI/MSF1.					integral to membrane|intracellular	transporter activity				0						ACAAGTACCCGTTTGAGCTGG	0.577													130	41	---	---	---	---	PASS	A	5009369	A	A	5009369	2	1	34	1	0	0	0	0	0	0	0	1	13985	1132	40	1		1	SEC14L5	16	5009369	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	82428	5009369	85345384	200	13857										
CBLN1	869	broad.mit.edu	37	chr16	49315323	49315323	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtctcattctgcccgcgggcCgggcccgccagccacgcagc	13	19	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr16:49315323C>A	uc002efq.2	-	1	393	c.54G>T	c.(52-54)CCG>CCT	p.P18P		NM_004352	NP_004343	P23435	CBLN1_HUMAN	cerebellin 1 precursor	18					nervous system development|synaptic transmission	cell junction|extracellular region|synapse					0		all_cancers(37;0.0766)|all_lung(18;0.24)				GCCCGCGGGCCGGGCCCGCCA	0.627													8	19	---	---	---	---	PASS	A	49315323	A	A	49315323	2	1	34	1	0	0	0	0	0	0	0	1	2704	639	23	1		1	CBLN1	16	49315323	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	44305954	49315323	41039430	201	13858										
NOD2	64127	broad.mit.edu	37	chr16	50745778	50745778	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	acgatgtgcatccaggcctcGgagggaaaggacagcagcgt	15	10	0	0	rs141355588		TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr16:50745778G>A	uc002egm.1	+	4	2061	c.1956G>A	c.(1954-1956)TCG>TCA	p.S652S	NOD2_uc010cbk.1_Silent_p.S625S|NOD2_uc002egl.1_Silent_p.S430S|NOD2_uc010cbl.1_Silent_p.S430S|NOD2_uc010cbm.1_Silent_p.S430S|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	652					activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				TCCAGGCCTCGGAGGGAAAGG	0.612													55	140	---	---	---	---	PASS	A	50745778	A	A	50745778	2	1	34	1	0	0	0	0	0	0	0	1	10517	1103	39	1		1	NOD2	16	50745778	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	1430455	50745778	39608975	202	13859										
ESRP2	80004	broad.mit.edu	37	chr16	68265952	68265952	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agaagggcagtccccgcagcCgcaggatcacttggtcttcc	12	14	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr16:68265952C>A	uc010cfa.1	-	10	1270	c.1082G>T	c.(1081-1083)CGG>CTG	p.R361L	ESRP2_uc002evp.1_RNA|ESRP2_uc002evq.1_Missense_Mutation_p.R351L	NM_024939	NP_079215	Q9H6T0	ESRP2_HUMAN	RNA binding motif protein 35B	361	RRM 2.				mRNA processing|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding|nucleotide binding			ovary(1)	1						TCCCCGCAGCCGCAGGATCAC	0.612													4	101	---	---	---	---	PASS	A	68265952	A	A	68265952	3	1	34	1	0	0	0	0	1	0	0	0	5259	652	23	1	1125	1	ESRP2	16	68265952	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	17520174	68265952	22088801	203	13860										
TAF1C	9013	broad.mit.edu	37	chr16	84218553	84218553	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcgctcagaccaagggggccGgtcagaaacaatgcagggcg	15	11	2	2	rs141321804	by1000genomes	TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr16:84218553G>A	uc002fhn.2	-	2	270	c.42C>T	c.(40-42)ACC>ACT	p.T14T	TAF1C_uc002fhm.2_Intron|TAF1C_uc010vnx.1_Silent_p.T14T|TAF1C_uc010vny.1_Intron|TAF1C_uc010vnz.1_Intron|TAF1C_uc002fho.2_Intron|TAF1C_uc010voa.1_Intron|TAF1C_uc002fhp.1_RNA|TAF1C_uc010vob.1_Silent_p.T14T	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	14					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						CAAGGGGGCCGGTCAGAAACA	0.607													26	84	---	---	---	---	PASS	A	84218553	A	A	84218553	2	1	34	1	0	0	0	0	0	0	0	1	15518	1103	39	1		1	TAF1C	16	84218553	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	15952601	84218553	6136200	204	13861										
TP53	7157	broad.mit.edu	37	chr17	7579480	7579480	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gcaggggccacggggggagcAgcctctggcattctgggagc	19	11	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:7579480A>G	uc002gim.2	-	4	401	c.207T>C	c.(205-207)GCT>GCC	p.A69A	TP53_uc002gig.1_Silent_p.A69A|TP53_uc002gih.2_Silent_p.A69A|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Silent_p.A69A|TP53_uc010cni.1_Silent_p.A69A|TP53_uc002gij.2_Silent_p.A69A|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Silent_p.A30A|TP53_uc010cnk.1_Silent_p.A84A	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	69	Interaction with WWOX.|Interaction with HRMT1L2.		A -> D (in a sporadic cancer; somatic mutation).|A -> G (in sporadic cancers; somatic mutation).|A -> T (in a sporadic cancer; somatic mutation).|A -> V (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.G59fs*23(3)|p.A69G(3)|p.A69fs*54(1)|p.E68fs*76(1)|p.A69fs*79(1)|p.D48fs*55(1)|p.R65_P71delRMPEAAP(1)|p.A69V(1)|p.P13fs*18(1)|p.R65fs*38(1)|p.D57_A76del20(1)|p.S33fs*23(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)		CGGGGGGAGCAGCCTCTGGCA	0.602		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)			373	125	---	---	---	---	PASS	G	7579480	G	G	7579480	2	3	34	1	0	0	0	0	0	0	0	1	16378	175	7	5		5	TP53	17	7579480	Silent	SNP	A	TCGA-22-4591-01A-01D-1267-08		7579480	73615730	205	13862										
DNAH2	146754	broad.mit.edu	37	chr17	7643087	7643087	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	atcacttcgcccgctgggaaGatggcaagcagggtcccctt	12	13	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:7643087G>T	uc002giu.1	+	8	1221	c.1207G>T	c.(1207-1209)GAT>TAT	p.D403Y	DNAH2_uc002git.2_Missense_Mutation_p.D485Y|DNAH2_uc010vuk.1_Missense_Mutation_p.D403Y	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	403	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CCGCTGGGAAGATGGCAAGCA	0.478													61	25	---	---	---	---	PASS	T	7643087	T	T	7643087	3	4	34	1	0	0	0	0	1	0	0	0	4602	942	33	2	1237	2	DNAH2	17	7643087	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	63607	7643087	73552123	206	13863										
DNAH2	146754	broad.mit.edu	37	chr17	7697572	7697572	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tccttgtcgctgctctctagGaaatgttcctgatggctgcc	10	12	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:7697572G>A	uc002giu.1	+	48	7584	c.7570G>A	c.(7570-7572)GAA>AAA	p.E2524K		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2524	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TGCTCTCTAGGAAATGTTCCT	0.597													78	32	---	---	---	---	PASS	A	7697572	A	A	7697572	3	1	34	1	0	0	0	0	1	0	0	0	4602	1188	41	2	7760	2	DNAH2	17	7697572	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	54485	7697572	73497638	207	13864										
GUCY2D	3000	broad.mit.edu	37	chr17	7910749	7910749	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctctttctccaccaggcaccGgctacttcacatgcaaatgg	7	15	3	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:7910749G>A	uc002gjt.2	+	6	1543	c.1469G>A	c.(1468-1470)CGG>CAG	p.R490Q		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	490	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				ACCAGGCACCGGCTACTTCAC	0.592													10	346	---	---	---	---	PASS	A	7910749	A	A	7910749	3	1	34	1	0	0	0	0	1	0	0	0	6897	1116	39	1	1487	1	GUCY2D	17	7910749	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	213177	7910749	73284461	208	13865										
MYH1	4619	broad.mit.edu	37	chr17	10419544	10419544	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tccaggctgcgtagcgctctTtgaggttgtacagcacagca	12	11	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:10419544T>C	uc002gmo.2	-	4	414	c.320A>G	c.(319-321)AAA>AGA	p.K107R	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	107	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						GTAGCGCTCTTTGAGGTTGTA	0.453													49	12	---	---	---	---	PASS	C	10419544	C	C	10419544	3	2	34	1	0	0	0	0	1	0	0	0	10029	1841	64	5	5647	5	MYH1	17	10419544	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	2508795	10419544	70775666	209	13866										
MYOCD	93649	broad.mit.edu	37	chr17	12642621	12642621	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cttggcccccccagcaccccCatagccgtgcatgctgctgt	9	19	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:12642621C>A	uc002gnn.2	+	7	992	c.693C>A	c.(691-693)CCC>CCA	p.P231P	MYOCD_uc002gno.2_Silent_p.P231P|MYOCD_uc002gnp.1_Silent_p.P135P	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	231					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CCAGCACCCCCATAGCCGTGC	0.587													4	76	---	---	---	---	PASS	A	12642621	A	A	12642621	2	1	34	1	0	0	0	0	0	0	0	1	10087	581	21	3		3	MYOCD	17	12642621	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	2223077	12642621	68552589	210	13867										
ATPAF2	91647	broad.mit.edu	37	chr17	17942271	17942271	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gaagcgctggggccacccgcCggccgattcaggagacggcg	17	14	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:17942271C>T	uc002gse.1	-	1	210	c.57G>A	c.(55-57)CCG>CCA	p.P19P	C17orf39_uc002gsg.1_5'Flank|ATPAF2_uc002gsd.1_RNA|ATPAF2_uc002gsf.1_RNA|ATPAF2_uc010vxf.1_Silent_p.P19P	NM_145691	NP_663729	Q8N5M1	ATPF2_HUMAN	ATP synthase mitochondrial F1 complex assembly	19					proton-transporting ATP synthase complex assembly	mitochondrion|nuclear speck	protein binding				0	all_neural(463;0.228)					GGCCACCCGCCGGCCGATTCA	0.672													47	4	---	---	---	---	PASS	T	17942271	T	T	17942271	2	4	34	1	0	0	0	0	0	0	0	1	1201	639	23	1		1	ATPAF2	17	17942271	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	5299650	17942271	63252939	211	13868										
EFCAB5	374786	broad.mit.edu	37	chr17	28380673	28380673	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aggttactgacagaacaagaAacacacagagagtcaactac	8	9	1	4			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:28380673A>C	uc002het.2	+	10	1893	c.1701A>C	c.(1699-1701)GAA>GAC	p.E567D	EFCAB5_uc010wbi.1_Missense_Mutation_p.E310D|EFCAB5_uc010wbj.1_Missense_Mutation_p.E511D|EFCAB5_uc010wbk.1_Missense_Mutation_p.E224D|EFCAB5_uc010csd.2_RNA|EFCAB5_uc010cse.2_Missense_Mutation_p.E446D|EFCAB5_uc010csf.2_Missense_Mutation_p.E446D	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	567							calcium ion binding			ovary(1)|skin(1)	2						CAGAACAAGAAACACACAGAG	0.438													4	45	---	---	---	---	PASS	C	28380673	C	C	28380673	3	2	34	1	0	0	0	0	1	0	0	0	4938	11	1	5	1739	5	EFCAB5	17	28380673	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	10438402	28380673	52814537	212	13869										
SUZ12	23512	broad.mit.edu	37	chr17	30310095	30310095	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tccaataagcaagaaaagagCaacatgggagactattcttg	9	7	1	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:30310095C>T	uc002hgs.2	+	9	1217	c.995C>T	c.(994-996)GCA>GTA	p.A332V	SUZ12_uc002hgt.2_Missense_Mutation_p.A309V	NM_015355	NP_056170	Q15022	SUZ12_HUMAN	joined to JAZF1	332					negative regulation of cell differentiation|transcription, DNA-dependent	ESC/E(Z) complex	histone methyltransferase activity|methylated histone residue binding|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.041)|Ovarian(249;0.182)|Breast(31;0.231)				AAGAAAAGAGCAACATGGGAG	0.398			T	JAZF1	endometrial stromal tumours								36	41	---	---	---	---	PASS	T	30310095	T	T	30310095	3	4	34	1	0	0	0	0	1	0	0	0	15413	710	25	3	1029	3	SUZ12	17	30310095	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	1929422	30310095	50885115	213	13870										
SPACA3	124912	broad.mit.edu	37	chr17	31323996	31323996	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cctcaccccgaacgtccccaAcgtgtgccggatgtactgct	9	17	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:31323996A>T	uc002hhs.1	+	3	554	c.479A>T	c.(478-480)AAC>ATC	p.N160I	SPACA3_uc010cte.1_RNA	NM_173847	NP_776246	Q8IXA5	SACA3_HUMAN	sperm acrosome associated 3	160	Extracellular (Potential).				cell wall macromolecule catabolic process|defense response to Gram-positive bacterium|monocyte activation|peptidoglycan catabolic process|positive regulation of macrophage activation|positive regulation of phagocytosis|response to virus	acrosomal membrane|extracellular region|integral to membrane|lysosome	bacterial cell surface binding|lysozyme activity|protein binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.193)			AACGTCCCCAACGTGTGCCGG	0.587													91	131	---	---	---	---	PASS	T	31323996	T	T	31323996	3	4	34	1	0	0	0	0	1	0	0	0	14973	43	2	5	489	5	SPACA3	17	31323996	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	1013901	31323996	49871214	214	13871										
TBX21	30009	broad.mit.edu	37	chr17	45820467	45820467	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtacgtccacccggactcccCcaacacaggagcgcactgga	10	17	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:45820467C>G	uc002ilv.1	+	3	888	c.677C>G	c.(676-678)CCC>CGC	p.P226R		NM_013351	NP_037483	Q9UL17	TBX21_HUMAN	T-box 21	226	T-box.				lymphocyte migration|multicellular organismal development|positive regulation of transcription, DNA-dependent|response to virus	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						CCGGACTCCCCCAACACAGGA	0.562													29	407	---	---	---	---	PASS	G	45820467	G	G	45820467	3	3	34	1	0	0	0	0	1	0	0	0	15654	623	22	4	687	4	TBX21	17	45820467	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	14496471	45820467	35374743	215	13872										
SP6	80320	broad.mit.edu	37	chr17	45924822	45924822	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gcttggccaggtggtcgctgCgcatgaagacgcggctgcag	17	11	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:45924822C>T	uc002img.1	-	2	1306	c.974G>A	c.(973-975)CGC>CAC	p.R325H	SP6_uc002imh.1_Missense_Mutation_p.R325H	NM_199262	NP_954871	Q3SY56	SP6_HUMAN	Sp6 transcription factor	325	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GTGGTCGCTGCGCATGAAGAC	0.692													9	253	---	---	---	---	PASS	T	45924822	T	T	45924822	3	4	34	1	0	0	0	0	1	0	0	0	14968	768	27	1	160	1	SP6	17	45924822	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	104355	45924822	35270388	216	13873										
SPATA20	64847	broad.mit.edu	37	chr17	48632997	48632997	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tgcccatcactgatccctgcGaattacgaaaactactacat	5	13	1	1	rs150608206	byFrequency	TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:48632997G>A	uc002irf.2	+	16	2476	c.2335G>A	c.(2335-2337)GAA>AAA	p.E779K	SPATA20_uc002irc.2_Missense_Mutation_p.E446K|SPATA20_uc002ire.2_Missense_Mutation_p.E735K|SPATA20_uc002ird.2_Missense_Mutation_p.E795K|SPATA20_uc002irg.2_RNA	NM_022827	NP_073738	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	779					cell differentiation|mannose metabolic process|multicellular organismal development|spermatogenesis	extracellular region	mannose-6-phosphate isomerase activity|protein binding				0	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			TGATCCCTGCGAATTACGAAA	0.567													31	297	---	---	---	---	PASS	A	48632997	A	A	48632997	3	1	34	1	0	0	0	0	1	0	0	0	15005	1059	37	2	2449	2	SPATA20	17	48632997	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	2708175	48632997	32562213	217	13874										
VEZF1	7716	broad.mit.edu	37	chr17	56051910	56051934	+	Frame_Shift_Del	DEL	GGGGCGGCTAATGTCATAGGTGTGG	-	-													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtctcattgctatattgagaGgggcggctaatgtcataggt					rs144484670		TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:56051910_56051934delGGGGCGGCTAATGTCATAGGTGTGG	uc002ivf.1	-	6	1609_1633	c.1466_1490delCCACACCTATGACATTAGCCGCCCC	c.(1465-1491)CCCACACCTATGACATTAGCCGCCCCTfs	p.P489fs		NM_007146	NP_009077	Q14119	VEZF1_HUMAN	zinc finger protein 161	489_497					cellular defense response|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						TATATTGAGAGGGGCGGCTAATGTCATAGGTGTGGGTAGATTCAT	0.476													54	37	---	---	---	---		-	56051934	-	-	56051910	7	5	34	1	0	1	0	1	0	0	0	0	17152	1000	35	0	79	0	VEZF1	17	56051910	Frame_Shift_Del	DEL	GGGGCGGCTAATGTCATAGGTGTGG	TCGA-22-4591-01A-01D-1267-08	7418913	56051910	25143300	218	13875										
EPX	8288	broad.mit.edu	37	chr17	56270816	56270816	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccggtagcagccaccaggacAgttgttcgggccgcagatta	13	12	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:56270816A>G	uc002ivq.2	+	3	341	c.255A>G	c.(253-255)ACA>ACG	p.T85T		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	85					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						CCACCAGGACAGTTGTTCGGG	0.572													467	190	---	---	---	---	PASS	G	56270816	G	G	56270816	2	3	34	1	0	0	0	0	0	0	0	1	5200	175	7	5		5	EPX	17	56270816	Silent	SNP	A	TCGA-22-4591-01A-01D-1267-08	218906	56270816	24924394	219	13876										
BZRAP1	9256	broad.mit.edu	37	chr17	56389406	56389406	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gaaggtggcccagtaggtacTggggctggcaggtgggcact	19	8	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:56389406T>C	uc002ivx.3	-	17	3647	c.2776A>G	c.(2776-2778)AGT>GGT	p.S926G	BZRAP1_uc010dcs.2_Missense_Mutation_p.S866G|BZRAP1_uc010wnt.1_Missense_Mutation_p.S926G	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	926	Fibronectin type-III 2.					mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CAGTAGGTACTGGGGCTGGCA	0.622													513	187	---	---	---	---	PASS	C	56389406	C	C	56389406	3	2	34	1	0	0	0	0	1	0	0	0	1577	1580	55	5	2857	5	BZRAP1	17	56389406	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	118590	56389406	24805804	220	13877										
CLTC	1213	broad.mit.edu	37	chr17	57760366	57760366	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gaattagaagaacttatcaaCtactatcaggtattaacgag	7	6	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:57760366C>G	uc002ixq.1	+	24	4307	c.3864C>G	c.(3862-3864)AAC>AAG	p.N1288K	CLTC_uc002ixp.2_Missense_Mutation_p.N1288K|CLTC_uc002ixr.1_Missense_Mutation_p.N1292K	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	1288	Heavy chain arm.|Proximal segment.|Involved in binding clathrin light chain (By similarity).				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					AACTTATCAACTACTATCAGG	0.378			T	ALK|TFE3	ALCL|renal 								22	14	---	---	---	---	PASS	G	57760366	G	G	57760366	3	3	34	1	0	0	0	0	1	0	0	0	3566	564	20	4	3958	4	CLTC	17	57760366	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	1370960	57760366	23434844	221	13878										
RNFT1	51136	broad.mit.edu	37	chr17	58040566	58040566	+	Missense_Mutation	SNP	G	T	T													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tccagttcctggaggactgtGcagttggctacgattggctt					rs142393490		TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:58040566G>T	uc002iya.2	-	2	229	c.136C>A	c.(136-138)CAC>AAC	p.H46N	uc002iye.1_5'Flank|RNFT1_uc002iyb.2_RNA|RNFT1_uc002iyc.2_5'UTR|RNFT1_uc010wop.1_Missense_Mutation_p.H46N|RNFT1_uc002iyd.3_Missense_Mutation_p.H46N	NM_016125	NP_057209	Q5M7Z0	RNFT1_HUMAN	PTD016 protein	46						integral to membrane	zinc ion binding				0	all_cancers(5;1.58e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;7.95e-12)|all cancers(12;1.34e-10)			GGAGGACTGTGCAGTTGGCTA	0.473													47	222	---	---	---	---	PASS	T	58040566	T	T	58040566	3	4	34	1	0	0	0	0	1	0	0	0	13501	1319	46	3	1203	3	RNFT1	17	58040566	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	280200	58040566	23154644	222	13879	357	2								
RNFT1	51136	broad.mit.edu	37	chr17	58040567	58040567	+	Silent	SNP	C	T	T													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccagttcctggaggactgtgCagttggctacgattggcttg							TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:58040567C>T	uc002iya.2	-	2	228	c.135G>A	c.(133-135)CTG>CTA	p.L45L	uc002iye.1_5'Flank|RNFT1_uc002iyb.2_RNA|RNFT1_uc002iyc.2_5'UTR|RNFT1_uc010wop.1_Silent_p.L45L|RNFT1_uc002iyd.3_Silent_p.L45L	NM_016125	NP_057209	Q5M7Z0	RNFT1_HUMAN	PTD016 protein	45						integral to membrane	zinc ion binding				0	all_cancers(5;1.58e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;7.95e-12)|all cancers(12;1.34e-10)			GAGGACTGTGCAGTTGGCTAC	0.473													46	220	---	---	---	---	PASS	T	58040567	T	T	58040567	2	4	34	1	0	0	0	0	0	0	0	1	13501	697	25	3		3	RNFT1	17	58040567	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	1	58040567	23154643	223	13880	357	2								
TBX2	6909	broad.mit.edu	37	chr17	59481839	59481839	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agggcttccgggacaccgggAacggccggcgggagaaaagg	19	10	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:59481839A>T	uc010wox.1	+	4	1149	c.868A>T	c.(868-870)AAC>TAC	p.N290Y	TBX2_uc002ize.2_Missense_Mutation_p.N280Y|TBX2_uc002izg.2_Missense_Mutation_p.N136Y	NM_005994	NP_005985	Q13207	TBX2_HUMAN	T-box 2	290					cell aging|positive regulation of cell proliferation		sequence-specific DNA binding				0						GGACACCGGGAACGGCCGGCG	0.682													14	69	---	---	---	---	PASS	T	59481839	T	T	59481839	3	4	34	1	0	0	0	0	1	0	0	0	15652	246	9	5	882	5	TBX2	17	59481839	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	1441272	59481839	21713371	224	13881										
APOH	350	broad.mit.edu	37	chr17	64210707	64210707	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccattcttaaatttttcctgAatctttactctctctccttg	2	12	4	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:64210707A>T	uc002jfn.3	-	7	905	c.846T>A	c.(844-846)ATT>ATA	p.I282I		NM_000042	NP_000033	P02749	APOH_HUMAN	apolipoprotein H precursor	282	Sushi-like.				blood coagulation, intrinsic pathway|negative regulation of angiogenesis|negative regulation of blood coagulation|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of myeloid cell apoptosis|negative regulation of smooth muscle cell apoptosis|plasminogen activation|positive regulation of lipoprotein lipase activity|triglyceride metabolic process|triglyceride transport	cell surface|chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	eukaryotic cell surface binding|glycoprotein binding|heparin binding|lipoprotein lipase activator activity|phospholipid binding				0			BRCA - Breast invasive adenocarcinoma(6;9.74e-08)			ATTTTTCCTGAATCTTTACTC	0.363													20	162	---	---	---	---	PASS	T	64210707	T	T	64210707	2	4	34	1	0	0	0	0	0	0	0	1	804	242	9	5		5	APOH	17	64210707	Silent	SNP	A	TCGA-22-4591-01A-01D-1267-08	4728868	64210707	16984503	225	13882										
PSMD12	5718	broad.mit.edu	37	chr17	65346408	65346408	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttgataggaaggtctgtgatTtcctcaacataagtacagca	9	7	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:65346408T>A	uc002jfy.2	-	4	428	c.342A>T	c.(340-342)GAA>GAT	p.E114D	PSMD12_uc002jga.2_Missense_Mutation_p.E94D|PSMD12_uc002jfz.2_Missense_Mutation_p.E55D|PSMD12_uc010det.1_Missense_Mutation_p.E114D	NM_002816	NP_002807	O00232	PSD12_HUMAN	proteasome 26S non-ATPase subunit 12 isoform 1	114					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding				0	all_cancers(12;2.38e-11)|all_epithelial(3;8.27e-13)					GGTCTGTGATTTCCTCAACAT	0.333													6	24	---	---	---	---	PASS	A	65346408	A	A	65346408	3	1	34	1	0	0	0	0	1	0	0	0	12695	1838	64	5	1060	5	PSMD12	17	65346408	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	1135701	65346408	15848802	226	13883										
ABCA9	10350	broad.mit.edu	37	chr17	67045446	67045446	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tttaggaatggggctgaagcCactttgttcattatctcttg	10	7	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:67045446C>A	uc002jhu.2	-	3	425	c.282G>T	c.(280-282)GTG>GTT	p.V94V	ABCA9_uc010dez.2_Silent_p.V94V|ABCA9_uc002jhv.2_Silent_p.V94V	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	94					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					GGGCTGAAGCCACTTTGTTCA	0.348													7	22	---	---	---	---	PASS	A	67045446	A	A	67045446	2	1	34	1	0	0	0	0	0	0	0	1	39	581	21	3		3	ABCA9	17	67045446	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	1699038	67045446	14149764	227	13884										
GGA3	23163	broad.mit.edu	37	chr17	73237582	73237582	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cccgggagaggttgtcactgGcttgcaggatgtcccctgga	15	11	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:73237582G>A	uc002jni.1	-	10	854	c.845C>T	c.(844-846)GCC>GTC	p.A282V	GGA3_uc002jnj.1_Missense_Mutation_p.A249V|GGA3_uc010wrw.1_Missense_Mutation_p.A160V|GGA3_uc002jnk.1_Missense_Mutation_p.A210V|GGA3_uc010wrx.1_Missense_Mutation_p.A160V|GGA3_uc010wry.1_Missense_Mutation_p.A210V	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	282	GAT.|Binds to ARF1 (in long isoform).				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			GTTGTCACTGGCTTGCAGGAT	0.522													18	597	---	---	---	---	PASS	A	73237582	A	A	73237582	3	1	34	1	0	0	0	0	1	0	0	0	6354	1203	42	3	1446	3	GGA3	17	73237582	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	6192136	73237582	7957628	228	13885										
RHBDF2	79651	broad.mit.edu	37	chr17	74475254	74475254	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aggtcacgctggcacgaggcCttcaggcggccgtagcgcat	15	13	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:74475254C>T	uc002jrq.1	-	5	758	c.465G>A	c.(463-465)AAG>AAA	p.K155K	RHBDF2_uc002jrp.1_Silent_p.K126K|RHBDF2_uc002jrr.1_Silent_p.K7K|RHBDF2_uc010wtf.1_Silent_p.K126K|RHBDF2_uc002jrs.1_Silent_p.K126K	NM_024599	NP_078875	Q6PJF5	RHDF2_HUMAN	rhomboid, veinlet-like 6 isoform 1	155	Cytoplasmic (Potential).				negative regulation of protein secretion|protein transport|proteolysis	endoplasmic reticulum membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity				0						GGCACGAGGCCTTCAGGCGGC	0.682													62	241	---	---	---	---	PASS	T	74475254	T	T	74475254	2	4	34	1	0	0	0	0	0	0	0	1	13320	680	24	3		3	RHBDF2	17	74475254	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	1237672	74475254	6719956	229	13886										
TNRC6C	57690	broad.mit.edu	37	chr17	76046155	76046155	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccagccgaagcacctctaacGgtgtgaatggggaatgggga	15	9	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:76046155G>A	uc002jud.2	+	4	1612	c.1012G>A	c.(1012-1014)GGT>AGT	p.G338S	TNRC6C_uc002juf.2_Missense_Mutation_p.G338S|TNRC6C_uc002jue.2_Missense_Mutation_p.G338S	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	338	Sufficient for interaction with argonaute family proteins.|Gly-rich.				gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			CACCTCTAACGGTGTGAATGG	0.557													50	258	---	---	---	---	PASS	A	76046155	A	A	76046155	3	1	34	1	0	0	0	0	1	0	0	0	16339	1116	39	1	1014	1	TNRC6C	17	76046155	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	1570901	76046155	5149055	230	13887										
CD7	924	broad.mit.edu	37	chr17	80274690	80274690	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gaagtcgatgcggccccggaAccgtctgtccgtagtgggca	15	12	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr17:80274690A>G	uc002kel.1	-	2	359	c.250T>C	c.(250-252)TTC>CTC	p.F84L	CD7_uc010din.2_Missense_Mutation_p.F84L|CD7_uc002kem.2_Missense_Mutation_p.V65A|CD7_uc010wvk.1_Missense_Mutation_p.F84L	NM_006137	NP_006128	P09564	CD7_HUMAN	CD7 antigen precursor	84	Ig-like.|Extracellular (Probable).				immune response|T cell activation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|membrane fraction|plasma membrane	receptor activity				0	Breast(20;0.000675)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.249)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0667)			CGGCCCCGGAACCGTCTGTCC	0.637													138	566	---	---	---	---	PASS	G	80274690	G	G	80274690	3	3	34	1	0	0	0	0	1	0	0	0	3032	43	2	5	484	5	CD7	17	80274690	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	4228535	80274690	920520	231	13888										
CABYR	26256	broad.mit.edu	37	chr18	21723346	21723346	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aatactactatggatataaaAgatctggttaaacaatttca	5	5	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr18:21723346A>G	uc002kux.2	+	3	320	c.168A>G	c.(166-168)AAA>AAG	p.K56K	CABYR_uc010xbb.1_Intron|CABYR_uc002kuy.2_Silent_p.K56K|CABYR_uc002kuz.2_Silent_p.K56K|CABYR_uc002kva.2_Intron|CABYR_uc002kvb.2_Intron|CABYR_uc002kvc.2_Silent_p.K56K	NM_012189	NP_036321	O75952	CABYR_HUMAN	calcium-binding tyrosine	56					ciliary or flagellar motility|signal transduction|sperm capacitation	cytoplasm|cytoskeleton|flagellum|motile cilium|nucleus	calcium ion binding|cAMP-dependent protein kinase regulator activity|enzyme binding|protein heterodimerization activity|SH3 domain binding				0	all_cancers(21;9.13e-05)|all_epithelial(16;5.49e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0305)|Ovarian(20;0.17)					TGGATATAAAAGATCTGGTTA	0.274													16	7	---	---	---	---	PASS	G	21723346	G	G	21723346	2	3	34	1	0	0	0	0	0	0	0	1	2536	69	3	5		5	CABYR	18	21723346	Silent	SNP	A	TCGA-22-4591-01A-01D-1267-08		21723346	56353902	232	13889										
ZNF521	25925	broad.mit.edu	37	chr18	22806790	22806790	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	accatggttgagctgtccacTgagaggttggaatctggagt	14	7	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr18:22806790T>A	uc002kvk.2	-	4	1339	c.1092A>T	c.(1090-1092)TCA>TCT	p.S364S	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.S364S|ZNF521_uc002kvl.2_Silent_p.S144S	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	364					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)					AGCTGTCCACTGAGAGGTTGG	0.582			T	PAX5	ALL								6	55	---	---	---	---	PASS	A	22806790	A	A	22806790	2	1	34	1	0	0	0	0	0	0	0	1	17962	1567	55	5		5	ZNF521	18	22806790	Silent	SNP	T	TCGA-22-4591-01A-01D-1267-08	1083444	22806790	55270458	233	13890										
NOL4	8715	broad.mit.edu	37	chr18	31523135	31523135	+	Missense_Mutation	SNP	G	T	T													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aagtaaggtgggaaggaataGgtcgagactaaaaaaaaaaa							TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr18:31523135G>T	uc010dmi.2	-	9	1665	c.1436C>A	c.(1435-1437)CCT>CAT	p.P479H	NOL4_uc010xbs.1_Missense_Mutation_p.P194H|NOL4_uc002kxr.3_Missense_Mutation_p.P251H|NOL4_uc010xbt.1_Missense_Mutation_p.P405H|NOL4_uc010dmh.2_Missense_Mutation_p.P341H|NOL4_uc010xbu.1_Missense_Mutation_p.P415H|NOL4_uc002kxt.3_Intron|NOL4_uc010xbv.1_Missense_Mutation_p.P164H	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	479						nucleolus	RNA binding			ovary(3)	3						GGAAGGAATAGGTCGAGACTA	0.408													4	13	---	---	---	---	PASS	T	31523135	T	T	31523135	3	4	34	1	0	0	0	0	1	0	0	0	10524	1000	35	3	492	3	NOL4	18	31523135	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	8716345	31523135	46554113	234	13891	358	2								
NOL4	8715	broad.mit.edu	37	chr18	31523136	31523136	+	Missense_Mutation	SNP	G	T	T													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agtaaggtgggaaggaatagGtcgagactaaaaaaaaaaag							TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr18:31523136G>T	uc010dmi.2	-	9	1664	c.1435C>A	c.(1435-1437)CCT>ACT	p.P479T	NOL4_uc010xbs.1_Missense_Mutation_p.P194T|NOL4_uc002kxr.3_Missense_Mutation_p.P251T|NOL4_uc010xbt.1_Missense_Mutation_p.P405T|NOL4_uc010dmh.2_Missense_Mutation_p.P341T|NOL4_uc010xbu.1_Missense_Mutation_p.P415T|NOL4_uc002kxt.3_Intron|NOL4_uc010xbv.1_Missense_Mutation_p.P164T	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	479						nucleolus	RNA binding			ovary(3)	3						GAAGGAATAGGTCGAGACTAA	0.408													4	13	---	---	---	---	PASS	T	31523136	T	T	31523136	3	4	34	1	0	0	0	0	1	0	0	0	10524	1261	44	3	493	3	NOL4	18	31523136	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	1	31523136	46554112	235	13892	358	2								
KIAA1632	57724	broad.mit.edu	37	chr18	43532399	43532399	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtgaattgctgaagatctcaGaacagctgaactactgagca	10	8	1	6			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr18:43532399G>A	uc002lbm.2	-	3	1319	c.1219C>T	c.(1219-1221)CTG>TTG	p.L407L	KIAA1632_uc002lbo.1_Silent_p.L407L	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	407					autophagy						0						GAAGATCTCAGAACAGCTGAA	0.438													4	73	---	---	---	---	PASS	A	43532399	A	A	43532399	2	1	34	1	0	0	0	0	0	0	0	1	8249	933	33	2		2	KIAA1632	18	43532399	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	12009263	43532399	34544849	236	13893										
KIAA1468	57614	broad.mit.edu	37	chr18	59854962	59854962	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gccagggctccctggggaggCgtcggcggctgcagtggccc	19	14	0	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr18:59854962C>A	uc002lil.2	+	1	439	c.224C>A	c.(223-225)GCG>GAG	p.A75E	PIGN_uc002lii.3_5'Flank|PIGN_uc002lij.3_5'Flank|KIAA1468_uc002lik.1_Missense_Mutation_p.A75E|KIAA1468_uc010xel.1_Missense_Mutation_p.A75E	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	75							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				CCTGGGGAGGCGTCGGCGGCT	0.677													4	100	---	---	---	---	PASS	A	59854962	A	A	59854962	3	1	34	1	0	0	0	0	1	0	0	0	8236	768	27	1	226	1	KIAA1468	18	59854962	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	16322563	59854962	18222286	237	13894										
SALL3	27164	broad.mit.edu	37	chr18	76752543	76752543	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtggcgcagttctcgcagggCgcgcgcgcggcaggcggctc	19	14	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr18:76752543C>T	uc002lmt.2	+	2	552	c.552C>T	c.(550-552)GGC>GGT	p.G184G	SALL3_uc010dra.2_5'Flank	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	184					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		TCTCGCAGGGCGCGCGCGCGG	0.706													6	1	---	---	---	---	PASS	T	76752543	T	T	76752543	2	4	34	1	0	0	0	0	0	0	0	1	13812	755	27	1		1	SALL3	18	76752543	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	16897581	76752543	1324705	238	13895										
AES	166	broad.mit.edu	37	chr19	3061200	3061200	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gctgaaattcgtctttgatgCggtcgcaggagtccgaggtg	15	8	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:3061200C>T	uc002lwy.1	-	2	256	c.83G>A	c.(82-84)CGC>CAC	p.R28H	AES_uc002lwz.1_Missense_Mutation_p.R28H|AES_uc002lxa.1_5'UTR|AES_uc002lxb.1_Missense_Mutation_p.R95H|AES_uc002lxc.2_Missense_Mutation_p.R95H	NM_001130	NP_001121	Q08117	AES_HUMAN	amino-terminal enhancer of split isoform b	28	Gln-rich (Q domain).				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of response to cytokine stimulus|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|response to interleukin-1|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTCTTTGATGCGGTCGCAGGA	0.622													6	605	---	---	---	---	PASS	T	3061200	T	T	3061200	3	4	34	1	0	0	0	0	1	0	0	0	352	768	27	1	534	1	AES	19	3061200	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08		3061200	56067783	239	13896										
DPP9	91039	broad.mit.edu	37	chr19	4676589	4676589	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggcaggctcagaggtattccTgtagaaagtgcagcaacgtg	14	8	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:4676589T>A	uc002mba.2	-	22	2924	c.2666A>T	c.(2665-2667)CAG>CTG	p.Q889L		NM_139159	NP_631898	Q86TI2	DPP9_HUMAN	dipeptidylpeptidase 9	860					proteolysis	cytosol|membrane	aminopeptidase activity|serine-type peptidase activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00884)		GAGGTATTCCTGTAGAAAGTG	0.637													20	3	---	---	---	---	PASS	A	4676589	A	A	4676589	3	1	34	1	0	0	0	0	1	0	0	0	4733	1580	55	5	16	5	DPP9	19	4676589	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	1615389	4676589	54452394	240	13897										
TMEM146	257062	broad.mit.edu	37	chr19	5727292	5727292	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tctctaggaccgcctgtattTtcatcctacaacaacacgct	5	14	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:5727292T>A	uc002mda.2	+	3	201	c.140T>A	c.(139-141)TTT>TAT	p.F47Y	TMEM146_uc010duj.1_5'UTR	NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	47	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						CGCCTGTATTTTCATCCTACA	0.284													4	95	---	---	---	---	PASS	A	5727292	A	A	5727292	3	1	34	1	0	0	0	0	1	0	0	0	16057	1841	64	5	150	5	TMEM146	19	5727292	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	1050703	5727292	53401691	241	13898										
ADAMTS10	81794	broad.mit.edu	37	chr19	8670179	8670179	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggcgagaaggccagcagtgcCccgttgtggtccacgcgggt	17	12	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:8670179C>A	uc002mkj.1	-	4	427	c.153G>T	c.(151-153)GGG>GGT	p.G51G	ADAMTS10_uc002mkk.1_5'UTR	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	51					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						CCAGCAGTGCCCCGTTGTGGT	0.682													38	7	---	---	---	---	PASS	A	8670179	A	A	8670179	2	1	34	1	0	0	0	0	0	0	0	1	256	610	22	3		3	ADAMTS10	19	8670179	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	2942887	8670179	50458804	242	13899										
ZNF560	147741	broad.mit.edu	37	chr19	9578088	9578088	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aacacttaaagggcttctcaCcagtgtgagttctcaaatga	8	9	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:9578088C>A	uc002mlp.1	-	10	1745	c.1535G>T	c.(1534-1536)GGT>GTT	p.G512V	ZNF560_uc010dwr.1_Missense_Mutation_p.G406V	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	512					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						GGGCTTCTCACCAGTGTGAGT	0.413													20	10	---	---	---	---	PASS	A	9578088	A	A	9578088	3	1	34	1	0	0	0	0	1	0	0	0	17988	507	18	3	841	3	ZNF560	19	9578088	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	907909	9578088	49550895	243	13900										
DAND5	199699	broad.mit.edu	37	chr19	13084213	13084213	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ccggccccaggtgttctcccGgcccggctgctcagccatac	11	19	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:13084213G>T	uc002mwc.1	+	2	378	c.335G>T	c.(334-336)CGG>CTG	p.R112L	DAND5_uc010dyz.1_3'UTR	NM_152654	NP_689867	Q8N907	DAND5_HUMAN	dante precursor	112	CTCK.					extracellular region				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(19;1.87e-18)			GTGTTCTCCCGGCCCGGCTGC	0.622													143	63	---	---	---	---	PASS	T	13084213	T	T	13084213	3	4	34	1	0	0	0	0	1	0	0	0	4230	1116	39	1	341	1	DAND5	19	13084213	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	3506125	13084213	46044770	244	13901										
DNAJB1	3337	broad.mit.edu	37	chr19	14629017	14629017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gagcacgtcgtaggcctcagCgatctccttgaacttctcct	9	14	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:14629017C>A	uc002myz.1	-	1	185	c.145G>T	c.(145-147)GCT>TCT	p.A49S	DNAJB1_uc010xnr.1_Intron	NM_006145	NP_006136	P25685	DNJB1_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 1	49	J.				chaperone cofactor-dependent protein refolding|response to unfolded protein	cytoplasm|nucleolus	heat shock protein binding|unfolded protein binding				0				GBM - Glioblastoma multiforme(1328;0.0476)		TAGGCCTCAGCGATCTCCTTG	0.692													4	46	---	---	---	---	PASS	A	14629017	A	A	14629017	3	1	34	1	0	0	0	0	1	0	0	0	4615	768	27	1	889	1	DNAJB1	19	14629017	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	1544804	14629017	44499966	245	13902										
PLVAP	83483	broad.mit.edu	37	chr19	17476369	17476369	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gcttctggcgttggaggtctGagttctcgcgggccacgcgt	16	11	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:17476369G>C	uc002ngk.1	-	3	955	c.905C>G	c.(904-906)TCA>TGA	p.S302*		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	302	Potential.|Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						TTGGAGGTCTGAGTTCTCGCG	0.672													4	104	---	---	---	---	PASS	C	17476369	C	C	17476369	4	2	34	1	0	0	0	0	0	1	0	0	12116	1294	45	2	439	2	PLVAP	19	17476369	Nonsense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	2847352	17476369	41652614	246	13903										
PLVAP	83483	broad.mit.edu	37	chr19	17476431	17476431	+	Silent	SNP	G	A	A													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cgggccagctcctccaccttGgagctcatgaggctgggcat							TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:17476431G>A	uc002ngk.1	-	3	893	c.843C>T	c.(841-843)TCC>TCT	p.S281S		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	281	Potential.|Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						CCTCCACCTTGGAGCTCATGA	0.652													52	159	---	---	---	---	PASS	A	17476431	A	A	17476431	2	1	34	1	0	0	0	0	0	0	0	1	12116	1335	47	3		3	PLVAP	19	17476431	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	62	17476431	41652552	247	13904	359	2								
PLVAP	83483	broad.mit.edu	37	chr19	17476432	17476432	+	Missense_Mutation	SNP	G	A	A													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gggccagctcctccaccttgGagctcatgaggctgggcatg							TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:17476432G>A	uc002ngk.1	-	3	892	c.842C>T	c.(841-843)TCC>TTC	p.S281F		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	281	Potential.|Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						CTCCACCTTGGAGCTCATGAG	0.652													53	161	---	---	---	---	PASS	A	17476432	A	A	17476432	3	1	34	1	0	0	0	0	1	0	0	0	12116	1174	41	2	502	2	PLVAP	19	17476432	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	1	17476432	41652551	248	13905	359	2								
ZNF708	7562	broad.mit.edu	37	chr19	21476337	21476337	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cttttgccacattcttcacaCttatagggtttctctccagt	5	12	3	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:21476337C>G	uc002npq.1	-	4	1629	c.1431G>C	c.(1429-1431)AAG>AAC	p.K477N	ZNF708_uc002npr.1_Missense_Mutation_p.K413N|ZNF708_uc010ecs.1_Missense_Mutation_p.K413N	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	477	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						ATTCTTCACACTTATAGGGTT	0.333													3	32	---	---	---	---	PASS	G	21476337	G	G	21476337	3	3	34	1	0	0	0	0	1	0	0	0	18109	564	20	4	264	4	ZNF708	19	21476337	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	3999905	21476337	37652646	249	13906										
ZNF100	163227	broad.mit.edu	37	chr19	21910173	21910173	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctgtacatttgtagggtttcActccagtatgaattctttta	7	7	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:21910173A>T	uc002nqi.2	-	5	1140	c.941T>A	c.(940-942)GTG>GAG	p.V314E	ZNF100_uc002nqh.2_Missense_Mutation_p.V250E	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	314					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTAGGGTTTCACTCCAGTATG	0.388													5	59	---	---	---	---	PASS	T	21910173	T	T	21910173	3	4	34	1	0	0	0	0	1	0	0	0	17710	159	6	5	691	5	ZNF100	19	21910173	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	433836	21910173	37218810	250	13907										
ZNF208	7757	broad.mit.edu	37	chr19	22154747	22154747	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctttgtcacattcttcacatTtgtagggtgtctctccagtg	8	10	4	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:22154747T>A	uc002nqp.2	-	6	2854	c.2705A>T	c.(2704-2706)AAA>ATA	p.K902I	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTCTTCACATTTGTAGGGTGT	0.428													7	49	---	---	---	---	PASS	A	22154747	A	A	22154747	3	1	34	1	0	0	0	0	1	0	0	0	17763	1841	64	5	757	5	ZNF208	19	22154747	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	244574	22154747	36974236	251	13908										
ZNF257	113835	broad.mit.edu	37	chr19	22256289	22256289	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aggtattgctgtctctaagcCagacctgatcacctgtctgg	10	11	3	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:22256289C>A	uc010ecx.2	+	3	318	c.149C>A	c.(148-150)CCA>CAA	p.P50Q	ZNF257_uc010ecy.2_Missense_Mutation_p.P18Q	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	50	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				GTCTCTAAGCCAGACCTGATC	0.413													16	109	---	---	---	---	PASS	A	22256289	A	A	22256289	3	1	34	1	0	0	0	0	1	0	0	0	17797	594	21	3	159	3	ZNF257	19	22256289	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	101542	22256289	36872694	252	13909										
ZNF567	163081	broad.mit.edu	37	chr19	37210539	37210539	+	Nonsense_Mutation	SNP	G	T	T													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	atcatcagagaactcacacaGgagagaaaccctttgtttgc							TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:37210539G>T	uc010xtl.1	+	6	1135	c.913G>T	c.(913-915)GGA>TGA	p.G305*	ZNF567_uc002oeo.1_Nonsense_Mutation_p.G305*|ZNF567_uc010xtk.1_Nonsense_Mutation_p.G305*|ZNF567_uc002oep.3_Nonsense_Mutation_p.G274*|ZNF567_uc002oeq.1_Nonsense_Mutation_p.G274*	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	305					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AACTCACACAGGAGAGAAACC	0.418													5	8	---	---	---	---	PASS	T	37210539	T	T	37210539	4	4	34	1	0	0	0	0	0	1	0	0	17995	1001	35	3	830	3	ZNF567	19	37210539	Nonsense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	14954250	37210539	21918444	253	13910	360	2								
ZNF567	163081	broad.mit.edu	37	chr19	37210540	37210540	+	Missense_Mutation	SNP	G	T	T													0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tcatcagagaactcacacagGagagaaaccctttgtttgca							TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:37210540G>T	uc010xtl.1	+	6	1136	c.914G>T	c.(913-915)GGA>GTA	p.G305V	ZNF567_uc002oeo.1_Missense_Mutation_p.G305V|ZNF567_uc010xtk.1_Missense_Mutation_p.G305V|ZNF567_uc002oep.3_Missense_Mutation_p.G274V|ZNF567_uc002oeq.1_Missense_Mutation_p.G274V	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	305					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			ACTCACACAGGAGAGAAACCC	0.418													5	8	---	---	---	---	PASS	T	37210540	T	T	37210540	3	4	34	1	0	0	0	0	1	0	0	0	17995	1174	41	2	831	2	ZNF567	19	37210540	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	1	37210540	21918443	254	13911	360	2								
DYRK1B	9149	broad.mit.edu	37	chr19	40319211	40319211	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggttccggaacatgaagtgcCgcttcaggtgtactgcgggg	16	9	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:40319211C>T	uc002omj.2	-	6	813	c.533G>A	c.(532-534)CGG>CAG	p.R178Q	DYRK1B_uc002omi.2_Missense_Mutation_p.R178Q|DYRK1B_uc002omk.2_Missense_Mutation_p.R178Q	NM_004714	NP_004705	Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	178	Protein kinase.				positive regulation of transcription, DNA-dependent	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|transcription coactivator activity			ovary(4)|stomach(1)|central_nervous_system(1)|skin(1)	7	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)		Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)			CATGAAGTGCCGCTTCAGGTG	0.587													12	365	---	---	---	---	PASS	T	40319211	T	T	40319211	3	4	34	1	0	0	0	0	1	0	0	0	4855	652	23	1	1380	1	DYRK1B	19	40319211	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	3108671	40319211	18809772	255	13912										
AXL	558	broad.mit.edu	37	chr19	41726703	41726703	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ggagctcgcggacagcacccAgacccaggtgcccctgggtg	15	15	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:41726703A>G	uc010ehj.2	+	2	438	c.248A>G	c.(247-249)CAG>CGG	p.Q83R	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Missense_Mutation_p.Q83R|AXL_uc010ehk.2_Missense_Mutation_p.Q83R	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	83	Extracellular (Potential).|Interaction with GAS6.|Ig-like C2-type 1.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						GACAGCACCCAGACCCAGGTG	0.632													38	275	---	---	---	---	PASS	G	41726703	G	G	41726703	3	3	34	1	0	0	0	0	1	0	0	0	1238	188	7	5	254	5	AXL	19	41726703	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	1407492	41726703	17402280	256	13913										
RSPH6A	81492	broad.mit.edu	37	chr19	46313932	46313932	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gaacagcgccttctgtttctCcgccatcttgtaggtgggct	11	12	3	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:46313932C>A	uc002pdm.2	-	2	960	c.817G>T	c.(817-819)GAG>TAG	p.E273*	RSPH6A_uc002pdl.2_Nonsense_Mutation_p.E9*	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	273						intracellular				ovary(1)|central_nervous_system(1)	2						TTCTGTTTCTCCGCCATCTTG	0.632													170	399	---	---	---	---	PASS	A	46313932	A	A	46313932	4	1	34	1	0	0	0	0	0	1	0	0	13707	864	30	2	1356	2	RSPH6A	19	46313932	Nonsense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	4587229	46313932	12815051	257	13914										
ZNF473	25888	broad.mit.edu	37	chr19	50548547	50548547	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agagtacatacctgtggcatCagaaaactcacactggagaa	9	9	2	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:50548547C>T	uc002prn.2	+	5	1084	c.847C>T	c.(847-849)CAG>TAG	p.Q283*	ZNF473_uc002prm.2_Nonsense_Mutation_p.Q283*|ZNF473_uc010ybo.1_Nonsense_Mutation_p.Q271*	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	283	C2H2-type 2; degenerate.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		CCTGTGGCATCAGAAAACTCA	0.438													39	135	---	---	---	---	PASS	T	50548547	T	T	50548547	4	4	34	1	0	0	0	0	0	1	0	0	17928	827	29	2	861	2	ZNF473	19	50548547	Nonsense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	4234615	50548547	8580436	258	13915										
FPR2	2358	broad.mit.edu	37	chr19	52272372	52272372	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cggaccttggattcttgctcTagtccttaccttgccagttt	8	12	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:52272372T>C	uc002pxr.2	+	2	506	c.461T>C	c.(460-462)CTA>CCA	p.L154P	FPR2_uc002pxs.3_Missense_Mutation_p.L154P|FPR2_uc010epf.2_Missense_Mutation_p.L154P	NM_001005738	NP_001005738	P25090	FPR2_HUMAN	formyl peptide receptor-like 1	154	Helical; Name=4; (Potential).				cell adhesion|cellular component movement|chemotaxis|inflammatory response	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(3)|ovary(1)	4						ATTCTTGCTCTAGTCCTTACC	0.512													33	182	---	---	---	---	PASS	C	52272372	C	C	52272372	3	2	34	1	0	0	0	0	1	0	0	0	6039	1522	53	5	463	5	FPR2	19	52272372	Missense_Mutation	SNP	T	TCGA-22-4591-01A-01D-1267-08	1723825	52272372	6856611	259	13916										
ZNF701	55762	broad.mit.edu	37	chr19	53086017	53086017	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctcttaaaaaaacatcagatAatccatttaggagacaaaca	4	8	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:53086017A>C	uc002pzs.1	+	4	832	c.705A>C	c.(703-705)ATA>ATC	p.I235I	ZNF701_uc010ydn.1_Silent_p.I301I	NM_018260	NP_060730	Q9NV72	ZN701_HUMAN	zinc finger protein 701	235					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0105)|GBM - Glioblastoma multiforme(134;0.0402)		AACATCAGATAATCCATTTAG	0.393													16	41	---	---	---	---	PASS	C	53086017	C	C	53086017	2	2	34	1	0	0	0	0	0	0	0	1	18102	352	13	5		5	ZNF701	19	53086017	Silent	SNP	A	TCGA-22-4591-01A-01D-1267-08	813645	53086017	6042966	260	13917										
ZNF787	126208	broad.mit.edu	37	chr19	56614508	56614508	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gaaggcctctggctgctcacCtgggttctcgtgactggcca	13	13	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr19:56614508C>A	uc010eth.1	-	2	198	c.79G>T	c.(79-81)GTG>TTG	p.V27L	ZNF787_uc002qml.1_Missense_Mutation_p.G27C	NM_001002836	NP_001002836	Q6DD87	ZN787_HUMAN	zinc finger protein 787	27					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0559)		GGCTGCTCACCTGGGTTCTCG	0.642													85	98	---	---	---	---	PASS	A	56614508	A	A	56614508	3	1	34	1	0	0	0	0	1	0	0	0	18156	695	24	3	1080	3	ZNF787	19	56614508	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	3528491	56614508	2514475	261	13918										
ATRN	8455	broad.mit.edu	37	chr20	3543854	3543854	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tatttctaaataaactcaaaAggaccattcttaaggacagc	5	8	3	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr20:3543854A>G	uc002wim.2	+	10	1722	c.1632_splice	c.e10-2	p.W544_splice	ATRN_uc002wil.2_Splice_Site_p.W544_splice	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1						inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						TAAACTCAAAAGGACCATTCT	0.368													8	29	---	---	---	---	PASS	G	3543854	G	G	3543854	5	3	34	1	0	0	0	0	0	0	1	0	1206	86	3	5	1668	5	ATRN	20	3543854	Splice_Site	SNP	A	TCGA-22-4591-01A-01D-1267-08		3543854	59481666	262	13919										
C20orf26	26074	broad.mit.edu	37	chr20	20180414	20180414	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tagattgctgtctttcagttCcagaacccctacgcccactc	6	15	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr20:20180414C>G	uc002wru.2	+	17	1876	c.1800C>G	c.(1798-1800)TTC>TTG	p.F600L	C20orf26_uc010zse.1_Missense_Mutation_p.F580L	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	600										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TCTTTCAGTTCCAGAACCCCT	0.473													8	681	---	---	---	---	PASS	G	20180414	G	G	20180414	3	3	34	1	0	0	0	0	1	0	0	0	2106	854	30	2	1894	2	C20orf26	20	20180414	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	16636560	20180414	42845106	263	13920										
REM1	28954	broad.mit.edu	37	chr20	30064411	30064411	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aatcagcctccctcaaccctCccacccagaaaccttcacct	2	21	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr20:30064411C>T	uc002wwa.2	+	2	447	c.163C>T	c.(163-165)CCC>TCC	p.P55S		NM_014012	NP_054731	O75628	REM1_HUMAN	RAS-like GTP-binding protein REM	55					small GTPase mediated signal transduction	membrane	calmodulin binding|GTP binding|GTPase activity			lung(2)|pancreas(2)	4	all_cancers(5;0.000119)|Lung NSC(7;1.32e-05)|all_lung(7;2.14e-05)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			CCTCAACCCTCCCACCCAGAA	0.627													115	363	---	---	---	---	PASS	T	30064411	T	T	30064411	3	4	34	1	0	0	0	0	1	0	0	0	13222	855	30	2	165	2	REM1	20	30064411	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	9883997	30064411	32961109	264	13921										
NCOA6	23054	broad.mit.edu	37	chr20	33370010	33370010	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctatatttcctttgaaggccAcaaaaattgtggaatcctcc	6	10	0	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr20:33370010A>G	uc002xav.2	-	4	2720	c.149T>C	c.(148-150)GTG>GCG	p.V50A	NCOA6_uc002xaw.2_Missense_Mutation_p.V50A|NCOA6_uc010gew.1_Missense_Mutation_p.V50A	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	50	TBP/GTF2A-binding region.|NCOA1-binding region.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						TTTGAAGGCCACAAAAATTGT	0.338													10	3	---	---	---	---	PASS	G	33370010	G	G	33370010	3	3	34	1	0	0	0	0	1	0	0	0	10233	159	6	5	6094	5	NCOA6	20	33370010	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	3305599	33370010	29655510	265	13922										
KIAA1755	85449	broad.mit.edu	37	chr20	36845813	36845813	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	acgttctgcctccccagcccCtctggctgtagctcccagct	8	19	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr20:36845813C>G	uc002xhy.1	-	13	3015	c.2743G>C	c.(2743-2745)GGG>CGG	p.G915R	KIAA1755_uc002xhv.1_5'UTR|KIAA1755_uc002xhw.1_5'UTR|KIAA1755_uc002xhx.1_Missense_Mutation_p.G193R	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	915										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				TCCCCAGCCCCTCTGGCTGTA	0.672													42	77	---	---	---	---	PASS	G	36845813	G	G	36845813	3	3	34	1	0	0	0	0	1	0	0	0	8257	681	24	4	867	4	KIAA1755	20	36845813	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	3475803	36845813	26179707	266	13923										
ATP9A	10079	broad.mit.edu	37	chr20	50221483	50221483	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agcagctcggtgaggatcagCgaggtgaaggagatggccac	17	8	1	3	rs140124765		TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr20:50221483C>A	uc002xwg.1	-	27	2880	c.2880G>T	c.(2878-2880)TCG>TCT	p.S960S	ATP9A_uc010gih.1_Silent_p.S824S|ATP9A_uc002xwf.1_Silent_p.S132S	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	960	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						TGAGGATCAGCGAGGTGAAGG	0.597													4	145	---	---	---	---	PASS	A	50221483	A	A	50221483	2	1	34	1	0	0	0	0	0	0	0	1	1198	755	27	1		1	ATP9A	20	50221483	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	13375670	50221483	12804037	267	13924										
SALL4	57167	broad.mit.edu	37	chr20	50407509	50407509	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aggcccaggctgcaggtcacCgggcaaggagccacccgtga	15	14	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr20:50407509C>T	uc002xwh.3	-	2	1614	c.1513G>A	c.(1513-1515)GGT>AGT	p.G505S	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	505					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TGCAGGTCACCGGGCAAGGAG	0.567													102	794	---	---	---	---	PASS	T	50407509	T	T	50407509	3	4	34	1	0	0	0	0	1	0	0	0	13813	652	23	1	1660	1	SALL4	20	50407509	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	186026	50407509	12618011	268	13925										
CBLN4	140689	broad.mit.edu	37	chr20	54578952	54578952	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ctgacctgatcgaagtaaatGatgcgcgtcttgttgctcat	10	9	2	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr20:54578952G>A	uc002xxa.2	-	1	1061	c.276C>T	c.(274-276)ATC>ATT	p.I92I		NM_080617	NP_542184	Q9NTU7	CBLN4_HUMAN	cerebellin 4 precursor	92	C1q.					cell junction|extracellular region|synapse				ovary(3)|pancreas(1)	4			Colorectal(105;0.202)			CGAAGTAAATGATGCGCGTCT	0.652													119	799	---	---	---	---	PASS	A	54578952	A	A	54578952	2	1	34	1	0	0	0	0	0	0	0	1	2707	1280	45	2		2	CBLN4	20	54578952	Silent	SNP	G	TCGA-22-4591-01A-01D-1267-08	4171443	54578952	8446568	269	13926										
CASS4	57091	broad.mit.edu	37	chr20	55027547	55027547	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agctctccttggacctggatGtggccaaggagacagtgatg	14	9	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr20:55027547G>A	uc002xxp.2	+	6	1540	c.1315G>A	c.(1315-1317)GTG>ATG	p.V439M	CASS4_uc002xxq.3_Missense_Mutation_p.V439M|CASS4_uc002xxr.2_Missense_Mutation_p.V439M|CASS4_uc010zze.1_Missense_Mutation_p.V385M|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	439					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						GGACCTGGATGTGGCCAAGGA	0.567													17	46	---	---	---	---	PASS	A	55027547	A	A	55027547	3	1	34	1	0	0	0	0	1	0	0	0	2683	1377	48	3	1333	3	CASS4	20	55027547	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	448595	55027547	7997973	270	13927										
CASS4	57091	broad.mit.edu	37	chr20	55033790	55033790	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	acacacgcggcagttcagagGgacactgggatgaggactgt	15	9	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr20:55033790G>C	uc002xxp.2	+	7	2573	c.2348G>C	c.(2347-2349)GGG>GCG	p.G783A	CASS4_uc002xxr.2_Missense_Mutation_p.G783A|CASS4_uc010zze.1_Missense_Mutation_p.G729A|CASS4_uc010gio.2_Missense_Mutation_p.G346A	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	783					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						CAGTTCAGAGGGACACTGGGA	0.612													30	83	---	---	---	---	PASS	C	55033790	C	C	55033790	3	2	34	1	0	0	0	0	1	0	0	0	2683	1232	43	4	2370	4	CASS4	20	55033790	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	6243	55033790	7991730	271	13928										
USP16	10600	broad.mit.edu	37	chr21	30403061	30403061	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gaagaaacagaagaaaagccTtcagtttggctgtgtcttaa	10	6	2	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr21:30403061T>C	uc002ymy.2	+	3	409	c.207T>C	c.(205-207)CCT>CCC	p.P69P	USP16_uc002ymx.2_Silent_p.P69P|USP16_uc002ymw.2_Silent_p.P69P|USP16_uc011acm.1_Silent_p.P55P|USP16_uc011acn.1_Intron	NM_006447	NP_006438	Q9Y5T5	UBP16_HUMAN	ubiquitin specific protease 16 isoform a	69	UBP-type.				cell division|histone deubiquitination|mitosis|positive regulation of transcription, DNA-dependent|protein homotetramerization|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|histone binding|transcription coactivator activity|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(2)|breast(1)|pancreas(1)	4						AAGAAAAGCCTTCAGTTTGGC	0.348													53	13	---	---	---	---	PASS	C	30403061	C	C	30403061	2	2	34	1	0	0	0	0	0	0	0	1	17044	1596	56	5		5	USP16	21	30403061	Silent	SNP	T	TCGA-22-4591-01A-01D-1267-08		30403061	17726834	272	13929										
DIP2A	23181	broad.mit.edu	37	chr21	47986572	47986572	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cattgagacctctgtcatccGagcacacaggagcatcgctg	10	13	2	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr21:47986572G>A	uc002zjo.2	+	37	4622	c.4439G>A	c.(4438-4440)CGA>CAA	p.R1480Q	DIP2A_uc011afz.1_Missense_Mutation_p.R1476Q|DIP2A_uc002zjs.2_Missense_Mutation_p.R160Q|DIP2A_uc002zjt.2_RNA	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1480					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		TCTGTCATCCGAGCACACAGG	0.597													63	93	---	---	---	---	PASS	A	47986572	A	A	47986572	3	1	34	1	0	0	0	0	1	0	0	0	4527	1058	37	2	4698	2	DIP2A	21	47986572	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	17583511	47986572	143323	273	13930										
ELFN2	114794	broad.mit.edu	37	chr22	37769395	37769395	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gcggcttgaggaaggacacgCgctggctcaggctgtcggca	17	11	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr22:37769395C>T	uc003asq.3	-	3	2966	c.2180G>A	c.(2179-2181)CGC>CAC	p.R727H		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	727	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					GAAGGACACGCGCTGGCTCAG	0.647													24	167	---	---	---	---	PASS	T	37769395	T	T	37769395	3	4	34	1	0	0	0	0	1	0	0	0	5058	768	27	1	286	1	ELFN2	22	37769395	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08		37769395	13535171	274	13931										
ELFN2	114794	broad.mit.edu	37	chr22	37770239	37770239	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aatggagccggcatccacatCagccccgtagcgcatctcca	9	16	2	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr22:37770239C>T	uc003asq.3	-	3	2122	c.1336G>A	c.(1336-1338)GAT>AAT	p.D446N		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	446	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					GCATCCACATCAGCCCCGTAG	0.632													124	665	---	---	---	---	PASS	T	37770239	T	T	37770239	3	4	34	1	0	0	0	0	1	0	0	0	5058	826	29	2	1130	2	ELFN2	22	37770239	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	844	37770239	13534327	275	13932										
PPARA	5465	broad.mit.edu	37	chr22	46611134	46611134	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtggtccccggcagcgtggaCgagtctcccagtggagcatt	15	12	1	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chr22:46611134C>T	uc003bgw.1	+	5	539	c.273C>T	c.(271-273)GAC>GAT	p.D91D	PPARA_uc003bgx.1_Silent_p.D91D|PPARA_uc010hab.1_Silent_p.D91D|PPARA_uc003bha.2_Silent_p.D91D|PPARA_uc003bhb.1_Silent_p.D91D|PPARA_uc010hac.1_Translation_Start_Site	NM_005036	NP_005027	Q07869	PPARA_HUMAN	peroxisome proliferative activated receptor,	91					fatty acid metabolic process|fatty acid transport|negative regulation of appetite|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|negative regulation of receptor biosynthetic process|negative regulation of sequestering of triglyceride|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fatty acid beta-oxidation|regulation of cellular ketone metabolic process by positive regulation of transcription from an RNA polymerase II promoter|regulation of glycolysis by positive regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|ligand-regulated transcription factor activity|lipid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|ubiquitin conjugating enzyme binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00522)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Clofibrate(DB00636)|Fenofibrate(DB01039)|Gemfibrozil(DB01241)|Simvastatin(DB00641)	GCAGCGTGGACGAGTCTCCCA	0.562													32	266	---	---	---	---	PASS	T	46611134	T	T	46611134	2	4	34	1	0	0	0	0	0	0	0	1	12297	535	19	1		1	PPARA	22	46611134	Silent	SNP	C	TCGA-22-4591-01A-01D-1267-08	8840895	46611134	4693432	276	13933										
DMD	1756	broad.mit.edu	37	chrX	32429926	32429926	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	tctgcaatataagctgccaaCtgcttgtcaatgaatgtgag	9	8	2	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chrX:32429926C>A	uc004dda.1	-	30	4420	c.4176G>T	c.(4174-4176)CAG>CAT	p.Q1392H	DMD_uc004dcw.2_Missense_Mutation_p.Q48H|DMD_uc004dcx.2_Missense_Mutation_p.Q51H|DMD_uc004dcz.2_Missense_Mutation_p.Q1269H|DMD_uc004dcy.1_Missense_Mutation_p.Q1388H|DMD_uc004ddb.1_Missense_Mutation_p.Q1384H|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1392					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AAGCTGCCAACTGCTTGTCAA	0.453													5	1	---	---	---	---	PASS	A	32429926	A	A	32429926	3	1	34	1	0	0	0	0	1	0	0	0	4580	564	20	3	7229	3	DMD	23	32429926	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08		32429926	122840634	277	13934										
FAM47C	442444	broad.mit.edu	37	chrX	37028948	37028948	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gcctaccaagaccggagcgtCccatctaaaagaactgtttc	8	13	1	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chrX:37028948C>G	uc004ddl.1	+	1	2479	c.2465C>G	c.(2464-2466)TCC>TGC	p.S822C		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	822										ovary(3)	3						ACCGGAGCGTCCCATCTAAAA	0.542													3	66	---	---	---	---	PASS	G	37028948	G	G	37028948	3	3	34	1	0	0	0	0	1	0	0	0	5571	855	30	2	2467	2	FAM47C	23	37028948	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	4599022	37028948	118241612	278	13935										
ZNF81	347344	broad.mit.edu	37	chrX	47775904	47775904	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agaatgtgggaaagccttcaCtgataggtcaaatttcaata	9	6	3	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chrX:47775904C>G	uc010nhy.1	+	6	2227	c.1859C>G	c.(1858-1860)ACT>AGT	p.T620S		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	620	C2H2-type 11.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				AAAGCCTTCACTGATAGGTCA	0.403													2	3	---	---	---	---	PASS	G	47775904	G	G	47775904	3	3	34	1	0	0	0	0	1	0	0	0	18171	565	20	4	1873	4	ZNF81	23	47775904	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	10746956	47775904	107494656	279	13936										
ITIH5L	347365	broad.mit.edu	37	chrX	54783731	54783731	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agtaaagggcatggggagggGttctccaaggacagaggtgg	19	5	1	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chrX:54783731G>T	uc004dtj.2	-	8	2806	c.2776C>A	c.(2776-2778)CCC>ACC	p.P926T		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	926	Pro-rich.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						ATGGGGAGGGGTTCTCCAAGG	0.577													33	286	---	---	---	---	PASS	T	54783731	T	T	54783731	3	4	34	1	0	0	0	0	1	0	0	0	7908	1261	44	3	1189	3	ITIH5L	23	54783731	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	7007827	54783731	100486829	280	13937										
TAF1	6872	broad.mit.edu	37	chrX	70612494	70612494	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	agtgtctgctagaggtgactGgggtggcagatcccacgggg	18	8	1	3			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chrX:70612494G>A	uc004dzu.3	+	19	2905	c.2854G>A	c.(2854-2856)GGG>AGG	p.G952R	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.G973R|TAF1_uc004dzv.3_Missense_Mutation_p.G126R	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	952					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				AGAGGTGACTGGGGTGGCAGA	0.483													15	28	---	---	---	---	PASS	A	70612494	A	A	70612494	3	1	34	1	0	0	0	0	1	0	0	0	15510	1348	47	3	2991	3	TAF1	23	70612494	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	15828763	70612494	84658066	281	13938										
ARMCX1	51309	broad.mit.edu	37	chrX	100809045	100809045	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	cagaattgatttccctctttAataaagaatgggatagagag	9	5	1	4			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chrX:100809045A>G	uc004ehv.2	+	4	1503	c.1132A>G	c.(1132-1134)AAT>GAT	p.N378D	ARMCX1_uc004ehw.2_Missense_Mutation_p.N378D	NM_016608	NP_057692	Q9P291	ARMX1_HUMAN	armadillo repeat containing, X-linked 1	378	ARM 3.					integral to membrane	binding			ovary(3)|pancreas(1)	4						TTCCCTCTTTAATAAAGAATG	0.333													3	28	---	---	---	---	PASS	G	100809045	G	G	100809045	3	3	34	1	0	0	0	0	1	0	0	0	959	362	13	5	1134	5	ARMCX1	23	100809045	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	30196551	100809045	54461515	282	13939										
BEX4	56271	broad.mit.edu	37	chrX	102471403	102471403	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	actatatgcgcttccaaactCctgaacctgacaaccattat	4	13	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chrX:102471403C>A	uc004ejv.3	+	3	557	c.322C>A	c.(322-324)CCT>ACT	p.P108T	BEX4_uc004ejw.3_Missense_Mutation_p.P108T	NM_001080425	NP_001073894	Q9NWD9	BEX4_HUMAN	BEX family member 4	108						cytoplasm|nucleus				skin(1)	1						CTTCCAAACTCCTGAACCTGA	0.408													221	40	---	---	---	---	PASS	A	102471403	A	A	102471403	3	1	34	1	0	0	0	0	1	0	0	0	1412	855	30	2	324	2	BEX4	23	102471403	Missense_Mutation	SNP	C	TCGA-22-4591-01A-01D-1267-08	1662358	102471403	52799157	283	13940										
GLRA4	441509	broad.mit.edu	37	chrX	102974192	102974192	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	aactttacctcgatgcaggtGaatttccctgcaaggagaga	10	9	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chrX:102974192G>C	uc011mse.1	-	7	1147	c.726C>G	c.(724-726)TTC>TTG	p.F242L	GLRA4_uc010nou.2_Missense_Mutation_p.F242L	NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	242	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						CGATGCAGGTGAATTTCCCTG	0.547													4	124	---	---	---	---	PASS	C	102974192	C	C	102974192	3	2	34	1	0	0	0	0	1	0	0	0	6457	1281	45	2	634	2	GLRA4	23	102974192	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	502789	102974192	52296368	284	13941										
MCF2	4168	broad.mit.edu	37	chrX	138714570	138714570	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	ttcgttgaagaaagctggtaGgacgtaaaaccaaaaccaag	10	7	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chrX:138714570G>C	uc004fau.2	-	2	389	c.95C>G	c.(94-96)CCT>CGT	p.P32R	MCF2_uc004fav.2_Missense_Mutation_p.P32R|MCF2_uc011mwl.1_Missense_Mutation_p.P32R|MCF2_uc010nsh.1_Missense_Mutation_p.P32R|MCF2_uc011mwm.1_Missense_Mutation_p.P32R|MCF2_uc011mwn.1_Missense_Mutation_p.P177R|MCF2_uc004faw.2_Missense_Mutation_p.P92R|MCF2_uc011mwo.1_Missense_Mutation_p.P92R	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	32	CRAL-TRIO.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					AAAGCTGGTAGGACGTAAAAC	0.353													6	9	---	---	---	---	PASS	C	138714570	C	C	138714570	3	2	34	1	0	0	0	0	1	0	0	0	9378	1000	35	4	2858	4	MCF2	23	138714570	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	35740378	138714570	16555990	285	13942										
MAGEC1	9947	broad.mit.edu	37	chrX	140994860	140994860	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gagccctcctcagggggaggActccctatctcctcactact	9	16	3	0			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chrX:140994860A>G	uc004fbt.2	+	4	1956	c.1670A>G	c.(1669-1671)GAC>GGC	p.D557G	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	557							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CAGGGGGAGGACTCCCTATCT	0.572										HNSCC(15;0.026)			111	253	---	---	---	---	PASS	G	140994860	G	G	140994860	3	3	34	1	0	0	0	0	1	0	0	0	9180	275	10	5	1676	5	MAGEC1	23	140994860	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	2280290	140994860	14275700	286	13943										
VMA21	203547	broad.mit.edu	37	chrX	150572201	150572201	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	atatttcacaactaaatcttAcatatttgaaggtaatctta	3	6	3	1			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chrX:150572201A>C	uc004feu.2	+	2	228	c.152A>C	c.(151-153)TAC>TCC	p.Y51S		NM_001017980	NP_001017980	Q3ZAQ7	VMA21_HUMAN	VMA21 vacuolar H+-ATPase homolog	51					vacuolar proton-transporting V-type ATPase complex assembly	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to membrane|lysosome					0						ACTAAATCTTACATATTTGAA	0.333													9	365	---	---	---	---	PASS	C	150572201	C	C	150572201	3	2	34	1	0	0	0	0	1	0	0	0	17172	391	14	5	158	5	VMA21	23	150572201	Missense_Mutation	SNP	A	TCGA-22-4591-01A-01D-1267-08	9577341	150572201	4698359	287	13944										
L1CAM	3897	broad.mit.edu	37	chrX	153130847	153130847	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0600706713780919	17	0.47259666140212	1.08194531992863	1.95945890382797	0.77388204047461	1	1	0	gtggtaggagctatagggccGcaagccactgaggatgacac	15	9	0	2			TCGA-22-4591-01A-01D-1267-08	TCGA-22-4591-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	bcfb93d4-8653-477b-b5d2-c2832a0e3d92	372992d5-20ff-4dcf-b88a-487f5fad82e2	g.chrX:153130847G>A	uc004fjb.2	-	20	2764	c.2656C>T	c.(2656-2658)CGG>TGG	p.R886W	L1CAM_uc004fjc.2_Missense_Mutation_p.R886W|L1CAM_uc010nuo.2_Missense_Mutation_p.R881W	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	886	Extracellular (Potential).|Fibronectin type-III 3.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTATAGGGCCGCAAGCCACTG	0.612													6	462	---	---	---	---	PASS	A	153130847	A	A	153130847	3	1	34	1	0	0	0	0	1	0	0	0	8588	1086	38	1	1153	1	L1CAM	23	153130847	Missense_Mutation	SNP	G	TCGA-22-4591-01A-01D-1267-08	2558646	153130847	2139713	288	13945										
SLC2A7	155184	broad.mit.edu	37	chr1	9075206	9075206	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgtggcttcatctcctttctGaatcagggagtagcgggggc	14	9	4	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:9075206G>A	uc009vmo.1	-	6	685	c.685C>T	c.(685-687)CAG>TAG	p.Q229*		NM_207420	NP_997303	Q6PXP3	GTR7_HUMAN	intestinal facilitative glucose transporter 7	229	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity				0	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.04e-07)|COAD - Colon adenocarcinoma(227;7.66e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		TCTCCTTTCTGAATCAGGGAG	0.672													12	17	---	---	---	---	PASS	A	9075206	A	A	9075206	4	1	35	1	0	0	0	0	0	1	0	0	14550	1299	45	2	881	2	SLC2A7	1	9075206	Nonsense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08		9075206	240175415	1	13946										
PEX14	5195	broad.mit.edu	37	chr1	10689653	10689653	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gcagatcccagtcaagtcacCgtcaccctccagccctgcgg	9	18	3	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:10689653C>A	uc001arn.2	+	9	764	c.743C>A	c.(742-744)CCG>CAG	p.P248Q	PEX14_uc009vmv.2_Missense_Mutation_p.P184Q|PEX14_uc010oam.1_Missense_Mutation_p.P184Q|PEX14_uc010oan.1_Missense_Mutation_p.P205Q|PEX14_uc009vmw.2_Missense_Mutation_p.P184Q	NM_004565	NP_004556	O75381	PEX14_HUMAN	peroxisomal biogenesis factor 14	248					negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|protein homooligomerization|protein import into peroxisome matrix|transmembrane transport	integral to membrane|nucleus|peroxisomal membrane|protein complex	protein N-terminus binding|transcription corepressor activity			breast(1)	1	Ovarian(185;0.203)	all_lung(284;6.02e-06)|Lung NSC(185;9.62e-06)|Renal(390;0.000147)|Breast(348;0.000932)|Colorectal(325;0.00215)|Hepatocellular(190;0.00913)|Ovarian(437;0.023)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0292)|Colorectal(212;9.13e-08)|COAD - Colon adenocarcinoma(227;2.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000482)|Kidney(185;0.00174)|KIRC - Kidney renal clear cell carcinoma(229;0.00457)|STAD - Stomach adenocarcinoma(132;0.0249)|READ - Rectum adenocarcinoma(331;0.0419)		GTCAAGTCACCGTCACCCTCC	0.642													25	45	---	---	---	---	PASS	A	10689653	A	A	10689653	3	1	35	1	0	0	0	0	1	0	0	0	11742	652	23	1	777	1	PEX14	1	10689653	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	1614447	10689653	238560968	2	13947										
TNFRSF8	943	broad.mit.edu	37	chr1	12169625	12169625	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctgctgtcccccctgcaggcAcggcgcagaagaacacggtc	12	16	0	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:12169625A>C	uc001atq.2	+	5	646	c.424A>C	c.(424-426)ACG>CCG	p.T142P	TNFRSF8_uc010obc.1_Missense_Mutation_p.T31P	NM_001243	NP_001234	P28908	TNR8_HUMAN	tumor necrosis factor receptor superfamily,	142	TNFR-Cys 3.|Extracellular (Potential).				cellular response to mechanical stimulus|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of TRAIL biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	cytoplasm|integral to membrane|plasma membrane				skin(2)|ovary(1)|pancreas(1)|central_nervous_system(1)	5	Ovarian(185;0.249)	Lung NSC(185;8.71e-05)|all_lung(284;9.89e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)		CCCTGCAGGCACGGCGCAGAA	0.627													14	43	---	---	---	---	PASS	C	12169625	C	C	12169625	3	2	35	1	0	0	0	0	1	0	0	0	16296	159	6	5	442	5	TNFRSF8	1	12169625	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	1479972	12169625	237080996	3	13948										
KIF17	57576	broad.mit.edu	37	chr1	21031088	21031088	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gcccggttggcgtagcgcagCgtgctgagtgtctcatcgta	15	11	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:21031088C>T	uc001bdr.3	-	5	1093	c.975G>A	c.(973-975)ACG>ACA	p.T325T	KIF17_uc001bds.3_Silent_p.T325T	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	325					microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		CGTAGCGCAGCGTGCTGAGTG	0.607													27	71	---	---	---	---	PASS	T	21031088	T	T	21031088	2	4	35	1	0	0	0	0	0	0	0	1	8279	755	27	1		1	KIF17	1	21031088	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	8861463	21031088	228219533	4	13949										
EIF2C1	26523	broad.mit.edu	37	chr1	36358709	36358709	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctcctgaaggtcgactttgaGgtgacaatccctggggaagg	14	9	0	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:36358709G>T	uc001bzl.2	+	4	555	c.342G>T	c.(340-342)GAG>GAT	p.E114D	EIF2C1_uc001bzk.2_Missense_Mutation_p.E39D|EIF2C1_uc009vuy.2_5'Flank	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	114					negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TCGACTTTGAGGTGACAATCC	0.512													14	23	---	---	---	---	PASS	T	36358709	T	T	36358709	3	4	35	1	0	0	0	0	1	0	0	0	5005	991	35	3	356	3	EIF2C1	1	36358709	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	15327621	36358709	212891912	5	13950										
GNL2	29889	broad.mit.edu	37	chr1	38034731	38034731	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgattttaccaaagttctgcCgaactcgtgtgagaatctgc	9	9	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:38034731C>A	uc001cbk.2	-	13	1752	c.1589G>T	c.(1588-1590)CGG>CTG	p.R530L		NM_013285	NP_037417	Q13823	NOG2_HUMAN	guanine nucleotide binding protein-like 2	530					ribosome biogenesis	nucleolus	GTP binding|GTPase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)				AAAGTTCTGCCGAACTCGTGT	0.468													32	72	---	---	---	---	PASS	A	38034731	A	A	38034731	3	1	35	1	0	0	0	0	1	0	0	0	6536	652	23	1	622	1	GNL2	1	38034731	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	1676022	38034731	211215890	6	13951										
MACF1	23499	broad.mit.edu	37	chr1	39797158	39797158	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgagagcagaggccctctttCtgtggtggaagcaattgaaa	13	7	2	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:39797158C>T	uc010oiu.1	+	1	349	c.218C>T	c.(217-219)TCT>TTT	p.S73F	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1638					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)			GGCCCTCTTTCTGTGGTGGAA	0.488													37	48	---	---	---	---	PASS	T	39797158	T	T	39797158	3	4	35	1	0	0	0	0	1	0	0	0	9144	913	32	2	4989	2	MACF1	1	39797158	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	1762427	39797158	209453463	7	13952										
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112999476	112999476	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cagtcatcgtaccaagtaggGatcaaccaacggttccatgc	9	12	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:112999476G>A	uc001ebx.2	+	6	1590	c.1362G>A	c.(1360-1362)GGG>GGA	p.G454G	CTTNBP2NL_uc001ebz.2_RNA	NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	454						actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACCAAGTAGGGATCAACCAAC	0.527													72	117	---	---	---	---	PASS	A	112999476	A	A	112999476	2	1	35	1	0	0	0	0	0	0	0	1	4046	1161	41	2		2	CTTNBP2NL	1	112999476	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	73202318	112999476	136251145	8	13953										
ATP1A1	476	broad.mit.edu	37	chr1	116933482	116933482	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ttgtaacagggcagtgtttcAggctaaccaggaaaacctac	10	9	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:116933482A>G	uc001ege.2	+	10	1640	c.1301A>G	c.(1300-1302)CAG>CGG	p.Q434R	ATP1A1_uc010owv.1_Missense_Mutation_p.Q403R|ATP1A1_uc010oww.1_Missense_Mutation_p.Q434R|ATP1A1_uc010owx.1_Missense_Mutation_p.Q403R	NM_000701	NP_000692	P05023	AT1A1_HUMAN	Na+/K+ -ATPase alpha 1 subunit isoform a	434	Cytoplasmic (Potential).				ATP biosynthetic process	melanosome|sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Captopril(DB01197)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Esomeprazole(DB00736)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Ouabain(DB01092)|Pantoprazole(DB00213)|Trichlormethiazide(DB01021)	GCAGTGTTTCAGGCTAACCAG	0.438													3	125	---	---	---	---	PASS	G	116933482	G	G	116933482	3	3	35	1	0	0	0	0	1	0	0	0	1128	188	7	5	1355	5	ATP1A1	1	116933482	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	3934006	116933482	132317139	9	13954										
HMGCS2	3158	broad.mit.edu	37	chr1	120302554	120302554	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gctccggccccacctgtgggAcgagcattaccactgggata	12	14	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:120302554A>G	uc001eid.2	-	3	669	c.618T>C	c.(616-618)CGT>CGC	p.R206R	HMGCS2_uc010oxj.1_Intron|HMGCS2_uc001eie.2_Silent_p.R114R	NM_005518	NP_005509	P54868	HMCS2_HUMAN	hydroxymethylglutaryl-CoA synthase 2 isoform 1	206					acetoacetic acid biosynthetic process|cholesterol biosynthetic process|isoprenoid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA synthase activity			ovary(2)	2	all_cancers(5;6.38e-10)|all_epithelial(5;1.1e-10)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;1.29e-06)|Lung NSC(69;9.35e-06)|all_epithelial(167;0.00124)		Lung(183;0.0112)|LUSC - Lung squamous cell carcinoma(189;0.0595)		CACCTGTGGGACGAGCATTAC	0.517													25	38	---	---	---	---	PASS	G	120302554	G	G	120302554	2	3	35	1	0	0	0	0	0	0	0	1	7233	262	10	5		5	HMGCS2	1	120302554	Silent	SNP	A	TCGA-22-4593-01A-21D-1817-08	3369072	120302554	128948067	10	13955										
PDE4DIP	9659	broad.mit.edu	37	chr1	144873951	144873951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tggggttgctgttggattcgGccttagccccctgagatgca	14	10	0	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:144873951G>T	uc001elw.3	-	31	5297	c.5006C>A	c.(5005-5007)GCC>GAC	p.A1669D	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.A1625D|PDE4DIP_uc001elv.3_Missense_Mutation_p.A676D	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1669					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GTTGGATTCGGCCTTAGCCCC	0.498			T	PDGFRB	MPD								133	480	---	---	---	---	PASS	T	144873951	T	T	144873951	3	4	35	1	0	0	0	0	1	0	0	0	11643	1203	42	3	2090	3	PDE4DIP	1	144873951	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	24571397	144873951	104376670	11	13956										
FCGR1A	2209	broad.mit.edu	37	chr1	149763061	149763061	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gtgcaccggaaggagccccaGggggccacgtagcagcggct	17	13	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:149763061G>A	uc001esp.3	+	6	1163	c.1113G>A	c.(1111-1113)CAG>CAA	p.Q371Q	HIST2H2BF_uc010pbj.1_Intron|FCGR1A_uc009wlg.2_RNA	NM_000566	NP_000557	P12314	FCGR1_HUMAN	Fc fragment of IgG, high affinity Ia, receptor	371	Cytoplasmic (Potential).				interferon-gamma-mediated signaling pathway|phagocytosis, engulfment	integral to membrane|plasma membrane	IgG binding|receptor activity|receptor signaling protein activity			ovary(1)	1	Breast(34;0.0124)|all_hematologic(923;0.127)				Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Methyl aminolevulinate(DB00992)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Porfimer(DB00707)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	AGGAGCCCCAGGGGGCCACGT	0.547													6	26	---	---	---	---	PASS	A	149763061	A	A	149763061	2	1	35	1	0	0	0	0	0	0	0	1	5779	991	35	3		3	FCGR1A	1	149763061	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	4889110	149763061	99487560	12	13957										
RORC	6097	broad.mit.edu	37	chr1	151787643	151787643	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ccttggccaagttgttggaaTatgagggcccagagcctgag	14	9	0	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:151787643T>A	uc001ezh.2	-	5	665	c.557A>T	c.(556-558)TAT>TTT	p.Y186F	RORC_uc001ezg.2_Missense_Mutation_p.Y165F|RORC_uc010pdo.1_Missense_Mutation_p.Y240F|RORC_uc010pdp.1_Missense_Mutation_p.Y186F	NM_005060	NP_005051	P51449	RORG_HUMAN	RAR-related orphan receptor C isoform a	186	Hinge (Potential).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			GTTGTTGGAATATGAGGGCCC	0.632													13	18	---	---	---	---	PASS	A	151787643	A	A	151787643	3	1	35	1	0	0	0	0	1	0	0	0	13530	1406	49	5	1027	5	RORC	1	151787643	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08	2024582	151787643	97462978	13	13958										
KIAA0907	22889	broad.mit.edu	37	chr1	155899625	155899625	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agttaggcctttgccaggagCctgaagctagaaaaaagaga	12	7	0	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:155899625C>A	uc001fmi.1	-	3	286	c.262G>T	c.(262-264)GCT>TCT	p.A88S	KIAA0907_uc001fmj.1_Missense_Mutation_p.A88S|KIAA0907_uc009wrk.1_Missense_Mutation_p.A88S|KIAA0907_uc009wrl.1_RNA|KIAA0907_uc001fml.1_Missense_Mutation_p.A88S|KIAA0907_uc001fmm.2_Missense_Mutation_p.A88S|KIAA0907_uc001fmo.2_Missense_Mutation_p.A88S	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	88											0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			TTGCCAGGAGCCTGAAGCTAG	0.299													12	25	---	---	---	---	PASS	A	155899625	A	A	155899625	3	1	35	1	0	0	0	0	1	0	0	0	8199	739	26	3	1630	3	KIAA0907	1	155899625	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	4111982	155899625	93350996	14	13959										
IGSF9	57549	broad.mit.edu	37	chr1	159901605	159901605	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gggctcaggagccttaccttGgtccaagagacaacaggagg	14	10	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:159901605G>C	uc001fur.2	-	11	1557	c.1359C>G	c.(1357-1359)ACC>ACG	p.T453T	IGSF9_uc001fuq.2_Silent_p.T437T|IGSF9_uc001fup.2_5'UTR	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	453	Ig-like 5.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			GCCTTACCTTGGTCCAAGAGA	0.607													12	22	---	---	---	---	PASS	C	159901605	C	C	159901605	2	2	35	1	0	0	0	0	0	0	0	1	7605	1335	47	4		4	IGSF9	1	159901605	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	4001980	159901605	89349016	15	13960										
TMCO1	54499	broad.mit.edu	37	chr1	165723478	165723478	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctcttaccattgatagatctCtgttgttattcttcagtttc	5	9	4	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:165723478C>A	uc001gdj.3	-	4	391	c.242G>T	c.(241-243)AGA>ATA	p.R81I	TMCO1_uc001gdl.3_5'UTR|TMCO1_uc001gdm.3_5'UTR|TMCO1_uc001gdk.3_Missense_Mutation_p.R69I|TMCO1_uc001gdn.3_RNA	NM_019026	NP_061899	Q9UM00	TMCO1_HUMAN	transmembrane and coiled-coil domains 1	81	Potential.					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				central_nervous_system(1)	1	all_hematologic(923;0.048)|Acute lymphoblastic leukemia(8;0.155)					TGATAGATCTCTGTTGTTATT	0.338													25	43	---	---	---	---	PASS	A	165723478	A	A	165723478	3	1	35	1	0	0	0	0	1	0	0	0	15992	913	32	2	340	2	TMCO1	1	165723478	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	5821873	165723478	83527143	16	13961										
FMO1	2326	broad.mit.edu	37	chr1	171236736	171236736	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agtctgtggtttccaacagcTgcaaggagatgtcttgttac	11	8	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:171236736T>A	uc009wvz.2	+	3	323	c.187T>A	c.(187-189)TGC>AGC	p.C63S	FMO1_uc010pme.1_Intron|FMO1_uc001ghl.2_Missense_Mutation_p.C63S|FMO1_uc001ghm.2_Missense_Mutation_p.C63S|FMO1_uc001ghn.2_Missense_Mutation_p.C63S	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	63					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TTCCAACAGCTGCAAGGAGAT	0.403													37	67	---	---	---	---	PASS	A	171236736	A	A	171236736	3	1	35	1	0	0	0	0	1	0	0	0	5954	1580	55	5	193	5	FMO1	1	171236736	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08	5513258	171236736	78013885	17	13962										
RALGPS2	55103	broad.mit.edu	37	chr1	178848052	178848052	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cctagatattcccatgttgcCtcatgtccaaaaatatctca	4	12	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:178848052C>G	uc001glz.2	+	10	1099	c.761C>G	c.(760-762)CCT>CGT	p.P254R	RALGPS2_uc001gly.1_Missense_Mutation_p.P254R|RALGPS2_uc010pnb.1_Missense_Mutation_p.P254R	NM_152663	NP_689876	Q86X27	RGPS2_HUMAN	Ral GEF with PH domain and SH3 binding motif 2	254	Ras-GEF.				small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0						CCCATGTTGCCTCATGTCCAA	0.303													8	19	---	---	---	---	PASS	G	178848052	G	G	178848052	3	3	35	1	0	0	0	0	1	0	0	0	13018	681	24	4	795	4	RALGPS2	1	178848052	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	7611316	178848052	70402569	18	13963										
LAMC1	3915	broad.mit.edu	37	chr1	183087214	183087214	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tggaggcctgctcttaccccTtttgaatttcagaagctcct	8	12	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:183087214T>C	uc001gpy.3	+	11	2180	c.1923T>C	c.(1921-1923)CCT>CCC	p.P641P		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	641	Laminin IV type A.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTCTTACCCCTTTTGAATTTC	0.418													3	150	---	---	---	---	PASS	C	183087214	C	C	183087214	2	2	35	1	0	0	0	0	0	0	0	1	8614	1596	56	5		5	LAMC1	1	183087214	Silent	SNP	T	TCGA-22-4593-01A-21D-1817-08	4239162	183087214	66163407	19	13964										
LAMC2	3918	broad.mit.edu	37	chr1	183204743	183204743	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gccagtaacatggagcaactGacaagggaaactgaggacta	12	8	0	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:183204743G>A	uc001gqa.2	+	16	2648	c.2334G>A	c.(2332-2334)CTG>CTA	p.L778L	LAMC2_uc001gpz.3_Silent_p.L778L|LAMC2_uc010poa.1_Silent_p.L478L	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	778	Domain II and I.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						TGGAGCAACTGACAAGGGAAA	0.498											OREG0014042	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	24	---	---	---	---	PASS	A	183204743	A	A	183204743	2	1	35	1	0	0	0	0	0	0	0	1	8615	1277	45	2		2	LAMC2	1	183204743	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	117529	183204743	66045878	20	13965										
ADIPOR1	51094	broad.mit.edu	37	chr1	202911228	202911228	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ccagctccagtgatgtacatCacagccatgaggaagaacca	9	12	1	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:202911228C>A	uc001gyq.3	-	7	1191	c.924G>T	c.(922-924)GTG>GTT	p.V308V	ADIPOR1_uc010pqd.1_Silent_p.V232V|ADIPOR1_uc001gyr.3_Silent_p.V107V|ADIPOR1_uc001gys.3_Silent_p.V308V	NM_015999	NP_057083	Q96A54	ADR1_HUMAN	adiponectin receptor 1	308	Helical; Name=6; (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane|plasma membrane	hormone binding|protein kinase binding|receptor activity				0			BRCA - Breast invasive adenocarcinoma(75;0.141)			TGATGTACATCACAGCCATGA	0.512													35	120	---	---	---	---	PASS	A	202911228	A	A	202911228	2	1	35	1	0	0	0	0	0	0	0	1	318	813	29	2		2	ADIPOR1	1	202911228	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	19706485	202911228	46339393	21	13966										
CR2	1380	broad.mit.edu	37	chr1	207646198	207646198	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agattttccatatggaaccaCggtcacttacacatgtaacc	6	11	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:207646198C>T	uc001hfw.2	+	10	1746	c.1652C>T	c.(1651-1653)ACG>ATG	p.T551M	CR2_uc001hfv.2_Missense_Mutation_p.T551M|CR2_uc009xch.2_Missense_Mutation_p.T551M|CR2_uc009xci.1_Missense_Mutation_p.T36M	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	551	Sushi 9.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TATGGAACCACGGTCACTTAC	0.478													50	40	---	---	---	---	PASS	T	207646198	T	T	207646198	3	4	35	1	0	0	0	0	1	0	0	0	3842	536	19	1	1690	1	CR2	1	207646198	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	4734970	207646198	41604423	22	13967										
USH2A	7399	broad.mit.edu	37	chr1	216062176	216062176	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ggtgaaagggaacatcctttTgaagtgcaggcttctacctg	12	8	1	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:216062176T>C	uc001hku.1	-	41	8202	c.7815A>G	c.(7813-7815)TCA>TCG	p.S2605S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2605	Fibronectin type-III 12.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AACATCCTTTTGAAGTGCAGG	0.483										HNSCC(13;0.011)			45	35	---	---	---	---	PASS	C	216062176	C	C	216062176	2	2	35	1	0	0	0	0	0	0	0	1	17033	1799	63	5		5	USH2A	1	216062176	Silent	SNP	T	TCGA-22-4593-01A-21D-1817-08	8415978	216062176	33188445	23	13968										
MIA3	375056	broad.mit.edu	37	chr1	222801365	222801365	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgatgcctataaacttttgaAaaaagaaatgactctagact	6	6	1	5			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:222801365A>G	uc001hnl.2	+	4	812	c.803A>G	c.(802-804)AAA>AGA	p.K268R	MIA3_uc009xea.1_Missense_Mutation_p.K104R	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	268	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		AAACTTTTGAAAAAAGAAATG	0.353													22	80	---	---	---	---	PASS	G	222801365	G	G	222801365	3	3	35	1	0	0	0	0	1	0	0	0	9565	14	1	5	817	5	MIA3	1	222801365	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	6739189	222801365	26449256	24	13969										
MIA3	375056	broad.mit.edu	37	chr1	222835656	222835656	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agaggctcttcccctaccagGgtactcgatgaaggcaaggt	12	11	1	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:222835656G>A	uc001hnl.2	+	26	5253	c.5244G>A	c.(5242-5244)AGG>AGA	p.R1748R	MIA3_uc001hnm.2_Silent_p.R626R	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	1748	Pro-rich.|Cytoplasmic (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		CCCCTACCAGGGTACTCGATG	0.428													71	213	---	---	---	---	PASS	A	222835656	A	A	222835656	2	1	35	1	0	0	0	0	0	0	0	1	9565	1223	43	3		3	MIA3	1	222835656	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	34291	222835656	26414965	25	13970										
TMEM63A	9725	broad.mit.edu	37	chr1	226048639	226048639	+	Frame_Shift_Del	DEL	G	-	-													0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cctgctatgggaggacggctGgggctcacctttgcactgaa							TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:226048639delG	uc001hpm.1	-	14	1394	c.1144delC	c.(1144-1146)CAGfs	p.Q382fs		NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	382						integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					GAGGACGGCTGGGGCTCACCT	0.547													123	119	---	---	---	---		-	226048639	-	-	226048639	7	5	35	1	0	1	0	1	0	0	0	0	16187	1357	47	0	1323	0	TMEM63A	1	226048639	Frame_Shift_Del	DEL	G	TCGA-22-4593-01A-21D-1817-08	3212983	226048639	23201982	26	13971										
KIAA1804	84451	broad.mit.edu	37	chr1	233497881	233497881	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gctgctaaagcggcgtgagcAgcagctggcagagcgcgaga	17	10	0	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:233497881A>T	uc001hvt.3	+	5	1655	c.1394A>T	c.(1393-1395)CAG>CTG	p.Q465L	KIAA1804_uc001hvs.1_Missense_Mutation_p.Q465L	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	465	Leucine-zipper 2.				activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				CGGCGTGAGCAGCAGCTGGCA	0.577													19	14	---	---	---	---	PASS	T	233497881	T	T	233497881	3	4	35	1	0	0	0	0	1	0	0	0	8259	188	7	5	1412	5	KIAA1804	1	233497881	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	7449242	233497881	15752740	27	13972										
TARBP1	6894	broad.mit.edu	37	chr1	234534202	234534202	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aaaggtaccactgaaatcccGcagctaaaggaacatcagtg	9	10	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:234534202G>A	uc001hwd.2	-	26	4169	c.4169C>T	c.(4168-4170)GCG>GTG	p.A1390V		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	1390					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			CTGAAATCCCGCAGCTAAAGG	0.363													27	52	---	---	---	---	PASS	A	234534202	A	A	234534202	3	1	35	1	0	0	0	0	1	0	0	0	15552	1087	38	1	716	1	TARBP1	1	234534202	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	1036321	234534202	14716419	28	13973										
OR2W3	343171	broad.mit.edu	37	chr1	248059182	248059182	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	atcagctacatgggctgtgcCatccagctcttcctgttcct	8	14	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr1:248059182C>T	uc001idp.1	+	3	563	c.294C>T	c.(292-294)GCC>GCT	p.A98A	OR2W3_uc010pzb.1_Silent_p.A98A	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TGGGCTGTGCCATCCAGCTCT	0.562													35	84	---	---	---	---	PASS	T	248059182	T	T	248059182	2	4	35	1	0	0	0	0	0	0	0	1	11033	581	21	3		3	OR2W3	1	248059182	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	13524980	248059182	1191439	29	13974										
PLEKHH2	130271	broad.mit.edu	37	chr2	43968158	43968158	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cctgtggctcctcaggcttcAcctaaagaggaatgcagatt	10	11	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:43968158A>C	uc010yny.1	+	21	3280	c.3197A>C	c.(3196-3198)CAC>CCC	p.H1066P	PLEKHH2_uc002rtf.3_Missense_Mutation_p.H1065P	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	1066	MyTH4.					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CTCAGGCTTCACCTAAAGAGG	0.498													35	33	---	---	---	---	PASS	C	43968158	C	C	43968158	3	2	35	1	0	0	0	0	1	0	0	0	12077	159	6	5	3275	5	PLEKHH2	2	43968158	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08		43968158	199231215	30	13975										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48808979	48808979	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agctgatgaagttgccagctGtttcaaaaccaaaaaagaac	8	8	1	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:48808979G>T	uc010yol.1	+	1	1254	c.1207G>T	c.(1207-1209)GTT>TTT	p.V403F	STON1_uc002rwo.3_Missense_Mutation_p.V403F|STON1_uc010fbm.2_Missense_Mutation_p.V403F|STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.V403F|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Missense_Mutation_p.V403F	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	403					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GTTGCCAGCTGTTTCAAAACC	0.423													21	39	---	---	---	---	PASS	T	48808979	T	T	48808979	3	4	35	1	0	0	0	0	1	0	0	0	15316	1377	48	3	1209	3	STON1-GTF2A1L	2	48808979	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	4840821	48808979	194390394	31	13976										
KDM3A	55818	broad.mit.edu	37	chr2	86711188	86711188	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ccttcaggaaagagtttggtGagcaggaagtagacctagtt	13	6	1	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:86711188G>T	uc002sri.3	+	19	3328	c.3001G>T	c.(3001-3003)GAG>TAG	p.E1001*	KDM3A_uc010ytj.1_Nonsense_Mutation_p.E1001*|KDM3A_uc010ytk.1_Nonsense_Mutation_p.E949*	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	1001					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						AGAGTTTGGTGAGCAGGAAGT	0.413													4	68	---	---	---	---	PASS	T	86711188	T	T	86711188	4	4	35	1	0	0	0	0	0	1	0	0	8126	1291	45	2	3071	2	KDM3A	2	86711188	Nonsense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	37902209	86711188	156488185	32	13977										
UBXN4	23190	broad.mit.edu	37	chr2	136519470	136519470	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cctgcagaggacctcaacatCcgagtggaaaggtttgctct	11	11	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:136519470C>T	uc002tur.2	+	6	902	c.591C>T	c.(589-591)ATC>ATT	p.I197I	UBXN4_uc002tus.2_Intron	NM_014607	NP_055422	Q92575	UBXN4_HUMAN	UBX domain containing 2	197	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|nuclear envelope	protein binding			skin(2)	2						ACCTCAACATCCGAGTGGAAA	0.373													20	54	---	---	---	---	PASS	T	136519470	T	T	136519470	2	4	35	1	0	0	0	0	0	0	0	1	16913	845	30	2		2	UBXN4	2	136519470	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	49808282	136519470	106679903	33	13978										
CXCR4	7852	broad.mit.edu	37	chr2	136873097	136873097	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cgtggacgatggccaggtagCggtccagactgatgaaggcc	16	10	0	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:136873097C>A	uc002tuz.2	-	2	496	c.401G>T	c.(400-402)CGC>CTC	p.R134L	CXCR4_uc002tuy.2_Missense_Mutation_p.R138L|CXCR4_uc010fnk.2_Missense_Mutation_p.R119L	NM_003467	NP_003458	P61073	CXCR4_HUMAN	chemokine (C-X-C motif) receptor 4 isoform b	134	Important for signaling.|Cytoplasmic.			R->A: Loss of agonist-induced G-protein activation.	activation of MAPK activity|apoptosis|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|inflammatory response|initiation of viral infection|regulation of chemotaxis|response to hypoxia|response to virus	cell leading edge|cell surface|cytoplasmic membrane-bounded vesicle|integral to membrane|plasma membrane	actin binding|C-X-C chemokine receptor activity|coreceptor activity|myosin light chain binding|ubiquitin binding|ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.155)	Framycetin(DB00452)	GGCCAGGTAGCGGTCCAGACT	0.547													27	117	---	---	---	---	PASS	A	136873097	A	A	136873097	3	1	35	1	0	0	0	0	1	0	0	0	4093	768	27	1	661	1	CXCR4	2	136873097	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	353627	136873097	106326276	34	13979										
LRP1B	53353	broad.mit.edu	37	chr2	141202195	141202195	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	atcacagatgaaagctggtaGagcacagagtccagtcccac	10	11	1	4			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:141202195G>T	uc002tvj.1	-	64	11083	c.10111C>A	c.(10111-10113)CTA>ATA	p.L3371I		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3371	Extracellular (Potential).|LDL-receptor class A 22.				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)		AAAGCTGGTAGAGCACAGAGT	0.418										TSP Lung(27;0.18)			16	48	---	---	---	---	PASS	T	141202195	T	T	141202195	3	4	35	1	0	0	0	0	1	0	0	0	8955	933	33	2	3800	2	LRP1B	2	141202195	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	4329098	141202195	101997178	35	13980										
LRP1B	53353	broad.mit.edu	37	chr2	141253313	141253313	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gttggaatccaggccagcatTtgcactgggaaaagaaaaat	11	7	0	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:141253313T>C	uc002tvj.1	-	56	9827	c.8855A>G	c.(8854-8856)AAA>AGA	p.K2952R		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2952	Extracellular (Potential).|EGF-like 6.				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)		AGGCCAGCATTTGCACTGGGA	0.383										TSP Lung(27;0.18)			10	26	---	---	---	---	PASS	C	141253313	C	C	141253313	3	2	35	1	0	0	0	0	1	0	0	0	8955	1841	64	5	5088	5	LRP1B	2	141253313	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08	51118	141253313	101946060	36	13981										
LRP1B	53353	broad.mit.edu	37	chr2	141299461	141299461	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tggaccgcagtatagctcttCttccccagtccgaccagaat	8	14	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:141299461C>T	uc002tvj.1	-	44	8246	c.7274G>A	c.(7273-7275)AGA>AAA	p.R2425K		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2425	Extracellular (Potential).|LDL-receptor class B 27.				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)		TATAGCTCTTCTTCCCCAGTC	0.408										TSP Lung(27;0.18)			12	76	---	---	---	---	PASS	T	141299461	T	T	141299461	3	4	35	1	0	0	0	0	1	0	0	0	8955	913	32	2	6717	2	LRP1B	2	141299461	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	46148	141299461	101899912	37	13982										
ARL6IP6	151188	broad.mit.edu	37	chr2	153575168	153575168	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gctgagagcgggtggcggtcGgctctgcggcgccgcggtcc	20	13	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:153575168G>A	uc002tyn.2	+	1	746	c.30G>A	c.(28-30)TCG>TCA	p.S10S	ARL6IP6_uc002tym.2_Intron|ARL6IP6_uc002tyo.2_5'Flank|PRPF40A_uc002tyh.3_5'Flank|PRPF40A_uc010zcd.1_5'Flank|PRPF40A_uc002tyi.2_5'Flank|PRPF40A_uc002tyj.2_5'Flank|PRPF40A_uc002tyl.1_5'Flank	NM_152522	NP_689735	Q8N6S5	AR6P6_HUMAN	ADP-ribosylation-like factor 6 interacting	10						integral to membrane					0						GGTGGCGGTCGGCTCTGCGGC	0.692													43	39	---	---	---	---	PASS	A	153575168	A	A	153575168	2	1	35	1	0	0	0	0	0	0	0	1	945	1103	39	1		1	ARL6IP6	2	153575168	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	12275707	153575168	89624205	38	13983										
GALNT13	114805	broad.mit.edu	37	chr2	155158018	155158018	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	acacttttcctggtggcactGgtcatgtcatcaacaagaac	8	11	3	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:155158018G>T	uc002tyr.3	+	9	1639	c.1072G>T	c.(1072-1074)GGT>TGT	p.G358C	GALNT13_uc002tyt.3_Missense_Mutation_p.G358C|GALNT13_uc010foc.1_Missense_Mutation_p.G177C|GALNT13_uc010fod.2_Missense_Mutation_p.G111C	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	358	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						TGGTGGCACTGGTCATGTCAT	0.438													82	111	---	---	---	---	PASS	T	155158018	T	T	155158018	3	4	35	1	0	0	0	0	1	0	0	0	6211	1348	47	3	1098	3	GALNT13	2	155158018	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	1582850	155158018	88041355	39	13984										
KCNH7	90134	broad.mit.edu	37	chr2	163291882	163291882	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	attgtaacgtttcccaatttGctgtcctaaggaatccaacc	6	11	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:163291882G>T	uc002uch.1	-	8	1992	c.1780C>A	c.(1780-1782)CAA>AAA	p.Q594K	KCNH7_uc002uci.2_Missense_Mutation_p.Q587K	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	594	Extracellular (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	TTCCCAATTTGCTGTCCTAAG	0.433													20	104	---	---	---	---	PASS	T	163291882	T	T	163291882	3	4	35	1	0	0	0	0	1	0	0	0	8037	1328	46	3	1912	3	KCNH7	2	163291882	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	8133864	163291882	79907491	40	13985										
FN1	2335	broad.mit.edu	37	chr2	216259272	216259272	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgggatgatggtatcagagaTagggacactttccttgtcat	12	6	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:216259272T>C	uc002vfa.2	-	24	4041	c.3775A>G	c.(3775-3777)ATC>GTC	p.I1259V	FN1_uc002vfb.2_Missense_Mutation_p.I1259V|FN1_uc002vfc.2_Missense_Mutation_p.I1259V|FN1_uc002vfd.2_Missense_Mutation_p.I1259V|FN1_uc002vfe.2_Missense_Mutation_p.I1259V|FN1_uc002vff.2_Missense_Mutation_p.I1259V|FN1_uc002vfg.2_Missense_Mutation_p.I1259V|FN1_uc002vfh.2_Missense_Mutation_p.I1259V|FN1_uc002vfi.2_Missense_Mutation_p.I1259V|FN1_uc002vfj.2_Missense_Mutation_p.I1259V|FN1_uc002vez.2_5'Flank|FN1_uc010zjp.1_5'Flank	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1259	Fibronectin type-III 7.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTATCAGAGATAGGGACACTT	0.453													49	97	---	---	---	---	PASS	C	216259272	C	C	216259272	3	2	35	1	0	0	0	0	1	0	0	0	5962	1406	49	5	3750	5	FN1	2	216259272	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08	52967390	216259272	26940101	41	13986										
WDFY1	57590	broad.mit.edu	37	chr2	224809975	224809975	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agcaccgggcggctgctctgCggcctggagtggatttcggc	17	12	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:224809975C>T	uc002vnq.2	-	1	78	c.27G>A	c.(25-27)CCG>CCA	p.P9P		NM_020830	NP_065881	Q8IWB7	WDFY1_HUMAN	WD repeat and FYVE domain containing 1	9						cytosol|early endosome|nucleus	1-phosphatidylinositol binding|zinc ion binding			lung(1)	1		all_lung(227;0.00682)|Lung NSC(271;0.00859)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;5.34e-10)|all cancers(144;1.67e-07)|Lung(261;0.00807)|LUSC - Lung squamous cell carcinoma(224;0.00843)		GGCTGCTCTGCGGCCTGGAGT	0.726													12	26	---	---	---	---	PASS	T	224809975	T	T	224809975	2	4	35	1	0	0	0	0	0	0	0	1	17265	755	27	1		1	WDFY1	2	224809975	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	8550703	224809975	18389398	42	13987										
TRAF3IP1	26146	broad.mit.edu	37	chr2	239237421	239237423	+	In_Frame_Del	DEL	ATA	-	-													0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctcaagatctcaggaattggAtaataagaatgtgcgagaag							TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr2:239237421_239237423delATA	uc002vye.2	+	4	568_570	c.449_451delATA	c.(448-453)GATAAT>GAT	p.N151del	TRAF3IP1_uc002vyf.2_In_Frame_Del_p.N151del	NM_015650	NP_056465	Q8TDR0	MIPT3_HUMAN	TNF receptor-associated factor 3 interacting	151	Abolishes microtubules-binding when missing.					cytoplasm|cytoskeleton	protein binding			ovary(1)	1		all_epithelial(40;3.22e-10)|Breast(86;0.000523)|Renal(207;0.00571)|Ovarian(221;0.156)|all_hematologic(139;0.182)		Epithelial(121;9.92e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.85e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.01e-07)|BRCA - Breast invasive adenocarcinoma(100;7.72e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0184)		CAGGAATTGGATAATAAGAATGT	0.448													38	30	---	---	---	---		-	239237423	-	-	239237421	7	5	35	1	0	1	0	1	0	0	0	0	16437	333	12	0	463	0	TRAF3IP1	2	239237421	In_Frame_Del	DEL	ATA	TCGA-22-4593-01A-21D-1817-08	14427446	239237421	3961952	43	13988										
SLC25A38	54977	broad.mit.edu	37	chr3	39433022	39433022	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgcgaggccatcccccaaccGccctggagtcagtcatgctg	11	16	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr3:39433022G>T	uc003cjo.2	+	4	768	c.367G>T	c.(367-369)GCC>TCC	p.A123S		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	123	Solcar 2.				erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		TCCCCCAACCGCCCTGGAGTC	0.527													155	158	---	---	---	---	PASS	T	39433022	T	T	39433022	3	4	35	1	0	0	0	0	1	0	0	0	14502	1087	38	1	381	1	SLC25A38	3	39433022	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08		39433022	158589408	44	13989										
MAGI1	9223	broad.mit.edu	37	chr3	65342127	65342127	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gggatgtctggaacttctgcCggcatcctgtttcagattcg	12	10	3	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr3:65342127C>A	uc003dmn.2	-	23	4841	c.4315G>T	c.(4315-4317)GGC>TGC	p.G1439C	MAGI1_uc003dmm.2_3'UTR	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	1468					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		GAACTTCTGCCGGCATCCTGT	0.557													154	48	---	---	---	---	PASS	A	65342127	A	A	65342127	3	1	35	1	0	0	0	0	1	0	0	0	9190	652	23	1	77	1	MAGI1	3	65342127	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	25909105	65342127	132680303	45	13990										
C3orf38	285237	broad.mit.edu	37	chr3	88205461	88205461	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aacctagattcacatggactGaaatgtgcatcttctcctca	6	11	4	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr3:88205461G>A	uc003dqw.2	+	4	977	c.666G>A	c.(664-666)CTG>CTA	p.L222L		NM_173824	NP_776185	Q5JPI3	CC038_HUMAN	hypothetical protein LOC285237	222					apoptosis						0		Lung NSC(201;0.17)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		CACATGGACTGAAATGTGCAT	0.433													27	241	---	---	---	---	PASS	A	88205461	A	A	88205461	2	1	35	1	0	0	0	0	0	0	0	1	2228	1277	45	2		2	C3orf38	3	88205461	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	22863334	88205461	109816969	46	13991										
MYH15	22989	broad.mit.edu	37	chr3	108182048	108182048	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	taccactgtttcattaaggaGgtctttgttcttttccagcc	7	10	3	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr3:108182048G>T	uc003dxa.1	-	17	1891	c.1834C>A	c.(1834-1836)CTC>ATC	p.L612I		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	612	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TCATTAAGGAGGTCTTTGTTC	0.373													34	149	---	---	---	---	PASS	T	108182048	T	T	108182048	3	4	35	1	0	0	0	0	1	0	0	0	10034	1000	35	3	4110	3	MYH15	3	108182048	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	19976587	108182048	89840382	47	13992										
SIDT1	54847	broad.mit.edu	37	chr3	113329993	113329993	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ggtcaccgtccttggagtggTgcgtcccccaccttcttcca	10	16	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr3:113329993T>C	uc003eak.2	+	18	2508	c.1857_splice	c.e18+2	p.V619_splice	SIDT1_uc011bif.1_Splice_Site|SIDT1_uc003eaj.1_Splice_Site_p.V619_splice|SIDT1_uc011big.1_Splice_Site_p.V372_splice|SIDT1_uc011bih.1_Splice_Site|SIDT1_uc011bii.1_Splice_Site_p.V72_splice	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor							integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						CTTGGAGTGGTGCGTCCCCCA	0.463													32	79	---	---	---	---	PASS	C	113329993	C	C	113329993	5	2	35	1	0	0	0	0	0	0	1	0	14302	1710	59	5	1929	5	SIDT1	3	113329993	Splice_Site	SNP	T	TCGA-22-4593-01A-21D-1817-08	5147945	113329993	84692437	48	13993										
PLOD2	5352	broad.mit.edu	37	chr3	145828223	145828223	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tcttctggaccaccagcaaaTatgacatcaaagctgttcaa	6	11	4	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr3:145828223T>C	uc003evs.1	-	4	857	c.351A>G	c.(349-351)ATA>ATG	p.I117M	PLOD2_uc011bnm.1_Missense_Mutation_p.I62M|PLOD2_uc003evr.1_Missense_Mutation_p.I117M	NM_000935	NP_000926	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	117					protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)	CACCAGCAAATATGACATCAA	0.358													18	109	---	---	---	---	PASS	C	145828223	C	C	145828223	3	2	35	1	0	0	0	0	1	0	0	0	12102	1396	49	5	1993	5	PLOD2	3	145828223	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08	32498230	145828223	52194207	49	13994										
FETUB	26998	broad.mit.edu	37	chr3	186362564	186362564	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aaaaaaaaagatttacatgaCgtgccctgactgcccaagct	7	10	0	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr3:186362564C>T	uc010hyq.2	+	5	710	c.449C>T	c.(448-450)ACG>ATG	p.T150M	FETUB_uc011brz.1_Missense_Mutation_p.T2M|FETUB_uc003fqn.2_Missense_Mutation_p.T150M|FETUB_uc003fqo.2_Missense_Mutation_p.T45M|FETUB_uc010hyr.2_Missense_Mutation_p.T113M|FETUB_uc010hys.2_Missense_Mutation_p.T2M|FETUB_uc003fqp.3_Missense_Mutation_p.T85M	NM_014375	NP_055190	Q9UGM5	FETUB_HUMAN	fetuin B precursor	150	Cystatin fetuin-B-type 2.					extracellular space	cysteine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0479)		ATTTACATGACGTGCCCTGAC	0.393													26	154	---	---	---	---	PASS	T	186362564	T	T	186362564	3	4	35	1	0	0	0	0	1	0	0	0	5821	536	19	1	463	1	FETUB	3	186362564	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	40534341	186362564	11659866	50	13995										
OSTN	344901	broad.mit.edu	37	chr3	190936651	190936651	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgaattggtgtccctagaaaAtgatgtgattgagacaaaga	11	4	0	6			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr3:190936651A>G	uc011bsn.1	+	2	218	c.218A>G	c.(217-219)AAT>AGT	p.N73S		NM_198184	NP_937827	P61366	OSTN_HUMAN	osteocrin precursor	73					cell differentiation|multicellular organismal development|ossification		hormone activity			pancreas(1)|skin(1)	2	all_cancers(143;6.79e-09)|Ovarian(172;0.103)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000254)		TCCCTAGAAAATGATGTGATT	0.453													91	41	---	---	---	---	PASS	G	190936651	G	G	190936651	3	3	35	1	0	0	0	0	1	0	0	0	11299	101	4	5	224	5	OSTN	3	190936651	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	4574087	190936651	7085779	51	13996										
RNF168	165918	broad.mit.edu	37	chr3	196229779	196229779	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cttggccagacgctctaagcTtgcactccctgggatagtgt	11	12	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr3:196229779T>C	uc003fwq.2	-	1	804	c.266A>G	c.(265-267)AAG>AGG	p.K89R	RNF168_uc010iah.2_5'UTR	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	89					double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		CGCTCTAAGCTTGCACTCCCT	0.493													22	104	---	---	---	---	PASS	C	196229779	C	C	196229779	3	2	35	1	0	0	0	0	1	0	0	0	13459	1609	56	5	1473	5	RNF168	3	196229779	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08	5293128	196229779	1792651	52	13997										
MFI2	4241	broad.mit.edu	37	chr3	196754761	196754761	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gtccgaggtggcgcaccaccGcacctccatgccaccgagca	11	18	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr3:196754761G>A	uc003fxk.3	-	2	183	c.70C>T	c.(70-72)CGG>TGG	p.R24W	MFI2_uc003fxl.3_Missense_Mutation_p.R24W|MFI2_uc011bua.1_Missense_Mutation_p.R24W	NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	24	Antigenic epitope.|Transferrin-like 1.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		GCGCACCACCGCACCTCCATG	0.726													9	20	---	---	---	---	PASS	A	196754761	A	A	196754761	3	1	35	1	0	0	0	0	1	0	0	0	9522	1086	38	1	2407	1	MFI2	3	196754761	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	524982	196754761	1267669	53	13998										
FYTTD1	84248	broad.mit.edu	37	chr3	197505234	197505234	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agaaaccacgattaactcgtActgctgtaccttcattttta	5	10	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr3:197505234A>G	uc003fyi.2	+	8	976	c.757A>G	c.(757-759)ACT>GCT	p.T253A	FYTTD1_uc011bui.1_Missense_Mutation_p.T227A|FYTTD1_uc011buj.1_RNA|FYTTD1_uc011buk.1_Missense_Mutation_p.T186A	NM_032288	NP_115664	Q96QD9	UIF_HUMAN	forty-two-three domain containing 1 isoform 1	253					mRNA export from nucleus	nuclear speck	mRNA binding|protein binding				0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.175)		ATTAACTCGTACTGCTGTACC	0.353													15	69	---	---	---	---	PASS	G	197505234	G	G	197505234	3	3	35	1	0	0	0	0	1	0	0	0	6127	391	14	5	816	5	FYTTD1	3	197505234	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	750473	197505234	517196	54	13999										
KLB	152831	broad.mit.edu	37	chr4	39436232	39436232	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ttaaactggaatacaacaacCctcgaatcttgattgctgag	7	9	1	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr4:39436232C>T	uc003gua.2	+	2	1325	c.1228C>T	c.(1228-1230)CCT>TCT	p.P410S	KLB_uc011byj.1_Missense_Mutation_p.P410S	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	410	Extracellular (Potential).|Glycosyl hydrolase-1 1.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						ATACAACAACCCTCGAATCTT	0.428													37	15	---	---	---	---	PASS	T	39436232	T	T	39436232	3	4	35	1	0	0	0	0	1	0	0	0	8332	623	22	3	1234	3	KLB	4	39436232	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08		39436232	151718044	55	14000										
EPHA5	2044	broad.mit.edu	37	chr4	66189898	66189898	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aggctgttcatgatcttcttCtggtgaccgacaagagtcac	10	10	5	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr4:66189898C>T	uc003hcy.2	-	18	3241	c.3048G>A	c.(3046-3048)CAG>CAA	p.Q1016Q	EPHA5_uc003hcx.2_Silent_p.Q948Q|EPHA5_uc003hcz.2_Silent_p.Q994Q|EPHA5_uc011cah.1_Silent_p.Q1017Q|EPHA5_uc011cai.1_Silent_p.Q995Q	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	1016	Cytoplasmic (Potential).|SAM.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TGATCTTCTTCTGGTGACCGA	0.418										TSP Lung(17;0.13)			24	123	---	---	---	---	PASS	T	66189898	T	T	66189898	2	4	35	1	0	0	0	0	0	0	0	1	5170	912	32	2		2	EPHA5	4	66189898	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	26753666	66189898	124964378	56	14001										
EPHA5	2044	broad.mit.edu	37	chr4	66231713	66231713	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctccttagcaaattcgtggaCagcttgattgggatcctcat	9	10	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr4:66231713C>A	uc003hcy.2	-	11	2180	c.1987G>T	c.(1987-1989)GTC>TTC	p.V663F	EPHA5_uc003hcx.2_Missense_Mutation_p.V595F|EPHA5_uc003hcz.2_Missense_Mutation_p.V641F|EPHA5_uc011cah.1_Missense_Mutation_p.V664F|EPHA5_uc011cai.1_Missense_Mutation_p.V642F|EPHA5_uc003hda.2_Missense_Mutation_p.V664F	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	663	Cytoplasmic (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						AATTCGTGGACAGCTTGATTG	0.363										TSP Lung(17;0.13)			78	76	---	---	---	---	PASS	A	66231713	A	A	66231713	3	1	35	1	0	0	0	0	1	0	0	0	5170	478	17	3	1158	3	EPHA5	4	66231713	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	41815	66231713	124922563	57	14002										
ANTXR2	118429	broad.mit.edu	37	chr4	80929677	80929677	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	taaatccttcttactcaccaCtttgcagcaaaggggccaaa	6	12	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr4:80929677C>A	uc003hlz.3	-	12	1802	c.1039G>T	c.(1039-1041)GTG>TTG	p.V347L	ANTXR2_uc003hly.3_Missense_Mutation_p.V347L|ANTXR2_uc003hlx.1_RNA|ANTXR2_uc010ijn.2_Missense_Mutation_p.V244L	NM_001145794	NP_001139266	P58335	ANTR2_HUMAN	anthrax toxin receptor 2 isoform 2	347	Cytoplasmic (Potential).					endoplasmic reticulum membrane|extracellular region|integral to membrane|plasma membrane	metal ion binding|protein binding|receptor activity			ovary(1)	1						TTACTCACCACTTTGCAGCAA	0.378									Juvenile_Hyaline_Fibromatosis				35	30	---	---	---	---	PASS	A	80929677	A	A	80929677	3	1	35	1	0	0	0	0	1	0	0	0	712	565	20	3	493	3	ANTXR2	4	80929677	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	14697964	80929677	110224599	58	14003										
PTPN13	5783	broad.mit.edu	37	chr4	87706382	87706382	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	atgtaaattattatttttcaAgaatcttatatacaagaaga	4	3	2	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr4:87706382A>T	uc003hpz.2	+	39	6599	c.6119_splice	c.e39-2	p.E2040_splice	PTPN13_uc003hpy.2_Splice_Site_p.E2045_splice|PTPN13_uc003hqa.2_Splice_Site_p.E2021_splice|PTPN13_uc003hqb.2_Splice_Site_p.E1849_splice|PTPN13_uc003hqc.1_Splice_Site_p.E406_splice	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type							cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		TTATTTTTCAAGAATCTTATA	0.338													13	14	---	---	---	---	PASS	T	87706382	T	T	87706382	5	4	35	1	0	0	0	0	0	0	1	0	12782	86	3	5	6282	5	PTPN13	4	87706382	Splice_Site	SNP	A	TCGA-22-4593-01A-21D-1817-08	6776705	87706382	103447894	59	14004										
NDST3	9348	broad.mit.edu	37	chr4	118975203	118975203	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gaaaatgaactctctgagacGgcttcagaagttgactgtgg	12	7	2	4	rs145505386		TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr4:118975203G>A	uc003ibx.2	+	2	541	c.138G>A	c.(136-138)ACG>ACA	p.T46T	NDST3_uc011cgf.1_Silent_p.T46T|NDST3_uc003ibw.2_Silent_p.T46T	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	46	Lumenal (Potential).|Heparan sulfate N-deacetylase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						TCTCTGAGACGGCTTCAGAAG	0.443													102	160	---	---	---	---	PASS	A	118975203	A	A	118975203	2	1	35	1	0	0	0	0	0	0	0	1	10257	1103	39	1		1	NDST3	4	118975203	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	31268821	118975203	72179073	60	14005										
QRFPR	84109	broad.mit.edu	37	chr4	122254006	122254006	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tggacatttcttttccatgaAtagttcgaagcactgaacca	7	9	1	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr4:122254006A>G	uc010inj.1	-	4	1146	c.767T>C	c.(766-768)ATT>ACT	p.I256T	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Intron	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	256	Cytoplasmic (Potential).			VILFLLPLMVMLILYSKIGYELWIKKRVGDGSVLRTIHGKE MSKIAR -> SSSSSCLLW (in Ref. 1; AAL26488).		plasma membrane	neuropeptide Y receptor activity				0						TTTTCCATGAATAGTTCGAAG	0.358													46	73	---	---	---	---	PASS	G	122254006	G	G	122254006	3	3	35	1	0	0	0	0	1	0	0	0	12878	101	4	5	540	5	QRFPR	4	122254006	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	3278803	122254006	68900270	61	14006										
FAT4	79633	broad.mit.edu	37	chr4	126411435	126411435	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aaagctggaagtcctgcgggGcatgtctgtgttctgagtca	14	8	3	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr4:126411435G>T	uc003ifj.3	+	17	13458	c.13458G>T	c.(13456-13458)GGG>GGT	p.G4486G	FAT4_uc011cgp.1_Silent_p.G2727G|FAT4_uc003ifi.1_Silent_p.G1963G	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4486	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GTCCTGCGGGGCATGTCTGTG	0.622													64	77	---	---	---	---	PASS	T	126411435	T	T	126411435	2	4	35	1	0	0	0	0	0	0	0	1	5692	1190	42	3		3	FAT4	4	126411435	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	4157429	126411435	64742841	62	14007										
GUCY1A3	2982	broad.mit.edu	37	chr4	156651265	156651265	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cttccctagtgaaatccccgGaatctgccattttctggatg	8	12	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr4:156651265G>A	uc003iov.2	+	11	2491	c.1955G>A	c.(1954-1956)GGA>GAA	p.G652E	GUCY1A3_uc003iow.2_Missense_Mutation_p.G652E|GUCY1A3_uc010iqd.2_Missense_Mutation_p.G651E|GUCY1A3_uc003iox.2_Missense_Mutation_p.G652E|GUCY1A3_uc003ioz.2_Missense_Mutation_p.G417E|GUCY1A3_uc003ioy.2_Missense_Mutation_p.G652E|GUCY1A3_uc010iqe.2_Missense_Mutation_p.G417E|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.G652E	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	652					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		GAAATCCCCGGAATCTGCCAT	0.403													23	136	---	---	---	---	PASS	A	156651265	A	A	156651265	3	1	35	1	0	0	0	0	1	0	0	0	6894	1174	41	2	2004	2	GUCY1A3	4	156651265	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	30239830	156651265	34503011	63	14008										
SLC6A3	6531	broad.mit.edu	37	chr5	1422092	1422092	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ccgcggaggccccaggtcgtCgatgccatggctctggtgga	16	13	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr5:1422092C>T	uc003jck.2	-	5	812	c.691G>A	c.(691-693)GAC>AAC	p.D231N		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	231	Extracellular (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	CCCAGGTCGTCGATGCCATGG	0.652													24	159	---	---	---	---	PASS	T	1422092	T	T	1422092	3	4	35	1	0	0	0	0	1	0	0	0	14685	884	31	2	1215	2	SLC6A3	5	1422092	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08		1422092	179493168	64	14009										
ADCY2	108	broad.mit.edu	37	chr5	7709413	7709416	+	Frame_Shift_Del	DEL	CTTG	-	-													0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tcggtccgcatgacccggtaCttggagtcctggggggcagc							TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr5:7709413_7709416delCTTG	uc003jdz.1	+	10	1558_1561	c.1491_1494delCTTG	c.(1489-1494)TACTTGfs	p.Y497fs	ADCY2_uc011cmo.1_Frame_Shift_Del_p.Y317fs	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	497_498	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						TGACCCGGTACTTGGAGTCCTGGG	0.613													41	41	---	---	---	---		-	7709416	-	-	7709413	7	5	35	1	0	1	0	1	0	0	0	0	294	576	20	0	1529	0	ADCY2	5	7709413	Frame_Shift_Del	DEL	CTTG	TCGA-22-4593-01A-21D-1817-08	6287321	7709413	173205847	65	14010										
TRIO	7204	broad.mit.edu	37	chr5	14330959	14330959	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gtgtggggaaatctcttcatCgggccagagcattgcagaaa	13	8	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr5:14330959C>G	uc003jff.2	+	10	1810	c.1804C>G	c.(1804-1806)CGG>GGG	p.R602G	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.R553G|TRIO_uc003jfh.1_Missense_Mutation_p.R251G	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	602	Spectrin 2.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					ATCTCTTCATCGGGCCAGAGC	0.428													36	216	---	---	---	---	PASS	G	14330959	G	G	14330959	3	3	35	1	0	0	0	0	1	0	0	0	16549	875	31	2	1842	2	TRIO	5	14330959	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	6621546	14330959	166584301	66	14011										
PDZD2	23037	broad.mit.edu	37	chr5	32088280	32088280	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cacgagcttctgccagggacGgctggtcccctcctcgttcc	11	17	1	0	rs138759971		TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr5:32088280G>A	uc003jhl.2	+	20	5114	c.4726G>A	c.(4726-4728)GGC>AGC	p.G1576S	PDZD2_uc003jhm.2_Missense_Mutation_p.G1576S	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1576					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						TGCCAGGGACGGCTGGTCCCC	0.557													31	196	---	---	---	---	PASS	A	32088280	A	A	32088280	3	1	35	1	0	0	0	0	1	0	0	0	11701	1116	39	1	4800	1	PDZD2	5	32088280	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	17757321	32088280	148826980	67	14012										
PLCXD3	345557	broad.mit.edu	37	chr5	41382419	41382419	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgagcaaaatagagttcattGtcggggtctctgggcttggt	14	6	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr5:41382419G>T	uc003jmm.1	-	2	423	c.321C>A	c.(319-321)GAC>GAA	p.D107E		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	107	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						AGAGTTCATTGTCGGGGTCTC	0.443													57	132	---	---	---	---	PASS	T	41382419	T	T	41382419	3	4	35	1	0	0	0	0	1	0	0	0	12043	1368	48	3	652	3	PLCXD3	5	41382419	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	9294139	41382419	139532841	68	14013										
HCN1	348980	broad.mit.edu	37	chr5	45645701	45645701	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	attataagcattattaaatcCcagtaaaacctacaacaaat	2	8	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr5:45645701C>T	uc003jok.2	-	2	460	c.435G>A	c.(433-435)TGG>TGA	p.W145*		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	145	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TTATTAAATCCCAGTAAAACC	0.308													40	107	---	---	---	---	PASS	T	45645701	T	T	45645701	4	4	35	1	0	0	0	0	0	1	0	0	6996	624	22	3	2265	3	HCN1	5	45645701	Nonsense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	4263282	45645701	135269559	69	14014										
MAP3K1	4214	broad.mit.edu	37	chr5	56177955	56177955	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tctcctttatctcatcattcCcaattaatgtttccagcctt	2	13	3	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr5:56177955C>T	uc003jqw.3	+	14	3429	c.2928C>T	c.(2926-2928)TCC>TCT	p.S976S		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	976					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		CTCATCATTCCCAATTAATGT	0.413													6	133	---	---	---	---	PASS	T	56177955	T	T	56177955	2	4	35	1	0	0	0	0	0	0	0	1	9243	610	22	3		3	MAP3K1	5	56177955	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	10532254	56177955	124737305	70	14015										
MAP1B	4131	broad.mit.edu	37	chr5	71491801	71491801	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctgaaggaaactgagccagtCgaagcctacgtcatccagaa	10	11	1	3	rs144157105		TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr5:71491801C>A	uc003kbw.3	+	5	2860	c.2619C>A	c.(2617-2619)GTC>GTA	p.V873V	MAP1B_uc010iyw.1_Silent_p.V890V|MAP1B_uc010iyx.1_Silent_p.V747V|MAP1B_uc010iyy.1_Silent_p.V747V	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	873						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		CTGAGCCAGTCGAAGCCTACG	0.502													112	42	---	---	---	---	PASS	A	71491801	A	A	71491801	2	1	35	1	0	0	0	0	0	0	0	1	9228	871	31	2		2	MAP1B	5	71491801	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	15313846	71491801	109423459	71	14016										
FCHO2	115548	broad.mit.edu	37	chr5	72359685	72359685	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cagccaggcccacaactcctCtttctgtaggcaccattgtc	7	16	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr5:72359685C>G	uc003kcl.2	+	18	1479	c.1363C>G	c.(1363-1365)CTT>GTT	p.L455V	FCHO2_uc011csl.1_Missense_Mutation_p.L422V|FCHO2_uc010izb.2_5'UTR|FCHO2_uc011csn.1_5'UTR	NM_138782	NP_620137	Q0JRZ9	FCHO2_HUMAN	FCH domain only 2 isoform a	455	Ser-rich.									ovary(1)	1		Lung NSC(167;0.0465)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;4.6e-53)		CACAACTCCTCTTTCTGTAGG	0.423													7	18	---	---	---	---	PASS	G	72359685	G	G	72359685	3	3	35	1	0	0	0	0	1	0	0	0	5788	913	32	2	1433	2	FCHO2	5	72359685	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	867884	72359685	108555575	72	14017										
ACOT12	134526	broad.mit.edu	37	chr5	80639988	80639988	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	atgttccttacctgcctaggCgaattcgcttgcgtgcaata	9	11	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr5:80639988C>T	uc003khl.3	-	9	1026	c.971G>A	c.(970-972)CGC>CAC	p.R324H	RNU5E_uc011cto.1_Intron	NM_130767	NP_570123	Q8WYK0	ACO12_HUMAN	acyl-CoA thioesterase 12	324					acyl-CoA metabolic process|fatty acid metabolic process	cytosol	acetyl-CoA hydrolase activity|carboxylesterase activity			ovary(1)|kidney(1)	2		Lung NSC(167;0.0176)|all_lung(232;0.0205)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;1.37e-45)|Epithelial(54;1.25e-39)|all cancers(79;5.01e-34)		CCTGCCTAGGCGAATTCGCTT	0.353													34	44	---	---	---	---	PASS	T	80639988	T	T	80639988	3	4	35	1	0	0	0	0	1	0	0	0	150	768	27	1	724	1	ACOT12	5	80639988	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	8280303	80639988	100275272	73	14018										
DUSP22	56940	broad.mit.edu	37	chr6	311944	311944	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	attctgtctgtccacgatagTgccaggcctatgttggaggt	12	9	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:311944T>G	uc003msx.2	+	3	559	c.120T>G	c.(118-120)AGT>AGG	p.S40R	DUSP22_uc011dhn.1_Missense_Mutation_p.S40R|DUSP22_uc003msy.1_5'UTR	NM_020185	NP_064570	Q9NRW4	DUS22_HUMAN	dual specificity phosphatase 22	40					apoptosis|cell proliferation|inactivation of MAPK activity|multicellular organismal development|positive regulation of JNK cascade|regulation of cell proliferation|transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(77;0.228)	Breast(5;0.0249)|all_hematologic(90;0.0489)		OV - Ovarian serous cystadenocarcinoma(45;0.0277)|BRCA - Breast invasive adenocarcinoma(62;0.0669)		TCCACGATAGTGCCAGGCCTA	0.498													26	43	---	---	---	---	PASS	G	311944	G	G	311944	3	3	35	1	0	0	0	0	1	0	0	0	4821	1693	59	5	130	5	DUSP22	6	311944	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08		311944	170803123	74	14019										
NEDD9	4739	broad.mit.edu	37	chr6	11190802	11190802	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	atatccgtaacaccgccagtCggtagtgaccagtgccatta	9	12	0	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:11190802C>A	uc003mzv.2	-	5	1467	c.1300G>T	c.(1300-1302)GAC>TAC	p.D434Y	NEDD9_uc010joz.2_Missense_Mutation_p.D434Y|NEDD9_uc003mzw.3_Missense_Mutation_p.D288Y	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	434					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			CACCGCCAGTCGGTAGTGACC	0.517													4	98	---	---	---	---	PASS	A	11190802	A	A	11190802	3	1	35	1	0	0	0	0	1	0	0	0	10313	884	31	2	1216	2	NEDD9	6	11190802	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	10878858	11190802	159924265	75	14020										
ZKSCAN3	80317	broad.mit.edu	37	chr6	28327373	28327373	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cttggcctaggatggctagaGaattaagtgaaagcacagcc	12	8	0	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:28327373G>C	uc003nle.3	+	2	226	c.10G>C	c.(10-12)GAA>CAA	p.E4Q	ZKSCAN3_uc010jrc.2_Missense_Mutation_p.E4Q|ZKSCAN3_uc003nlf.3_Intron	NM_024493	NP_077819	Q9BRR0	ZKSC3_HUMAN	zinc finger with KRAB and SCAN domains 3	4					positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	chromatin binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						GATGGCTAGAGAATTAAGTGA	0.493													40	44	---	---	---	---	PASS	C	28327373	C	C	28327373	3	2	35	1	0	0	0	0	1	0	0	0	17685	943	33	2	12	2	ZKSCAN3	6	28327373	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	17136571	28327373	142787694	76	14021										
NOTCH4	4855	broad.mit.edu	37	chr6	32163314	32163314	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gctccggggacggagtaaggCaaggaggcgggatcggaatg	20	7	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:32163314C>A	uc003obb.2	-	30	6051	c.5912G>T	c.(5911-5913)TGC>TTC	p.C1971F	GPSM3_uc003oax.3_5'Flank|GPSM3_uc003oay.3_5'Flank|GPSM3_uc003oaz.2_5'Flank|NOTCH4_uc011dpt.1_3'UTR|NOTCH4_uc003oba.2_Missense_Mutation_p.C631F|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1971	Cytoplasmic (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						CGGAGTAAGGCAAGGAGGCGG	0.607													87	28	---	---	---	---	PASS	A	32163314	A	A	32163314	3	1	35	1	0	0	0	0	1	0	0	0	10551	710	25	3	103	3	NOTCH4	6	32163314	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	3835941	32163314	138951753	77	14022										
CUL9	23113	broad.mit.edu	37	chr6	43172777	43172777	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctccgagctgtttgggcctcGggcagccttcatgctggctc	13	14	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:43172777G>C	uc003ouk.2	+	23	4631	c.4556G>C	c.(4555-4557)CGG>CCG	p.R1519P	CUL9_uc003oul.2_Missense_Mutation_p.R1519P|CUL9_uc010jyk.2_Missense_Mutation_p.R671P	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1519					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TTTGGGCCTCGGGCAGCCTTC	0.602													20	75	---	---	---	---	PASS	C	43172777	C	C	43172777	3	2	35	1	0	0	0	0	1	0	0	0	4061	1116	39	4	4642	4	CUL9	6	43172777	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	11009463	43172777	127942290	78	14023										
SLC22A7	10864	broad.mit.edu	37	chr6	43266473	43266473	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cgaccactcagaattctcctCtaccattgcaactgaggtac	6	14	3	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:43266473C>A	uc003out.2	+	1	476	c.377C>A	c.(376-378)TCT>TAT	p.S126Y	SLC22A7_uc010jyl.1_Missense_Mutation_p.S126Y|SLC22A7_uc003ous.2_Missense_Mutation_p.S126Y	NM_153320	NP_696961	Q9Y694	S22A7_HUMAN	solute carrier family 22 member 7 isoform b	126						basolateral plasma membrane|integral to plasma membrane|membrane fraction	anion:anion antiporter activity|sodium-independent organic anion transmembrane transporter activity				0			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00998)|OV - Ovarian serous cystadenocarcinoma(102;0.0305)			GAATTCTCCTCTACCATTGCA	0.507													4	73	---	---	---	---	PASS	A	43266473	A	A	43266473	3	1	35	1	0	0	0	0	1	0	0	0	14459	913	32	2	379	2	SLC22A7	6	43266473	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	93696	43266473	127848594	79	14024										
C6orf223	221416	broad.mit.edu	37	chr6	43970796	43970796	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgcaggggcacggctaatgcGctctaattacccaccgccgc	11	15	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:43970796G>T	uc003own.2	+	4	680	c.662G>T	c.(661-663)CGC>CTC	p.R221L	uc003owm.1_Intron|C6orf223_uc003owo.2_Missense_Mutation_p.R201L	NM_153246	NP_694978	Q8N319	CF223_HUMAN	hypothetical protein LOC221416	221											0	all_cancers(18;2.28e-07)|all_epithelial(2;1.62e-08)|Lung NSC(15;0.000172)|all_lung(25;0.000533)|Hepatocellular(11;0.00309)|Ovarian(13;0.0437)		all cancers(41;0.00141)|Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.217)			CGGCTAATGCGCTCTAATTAC	0.637													65	23	---	---	---	---	PASS	T	43970796	T	T	43970796	3	4	35	1	0	0	0	0	1	0	0	0	2357	1087	38	1	719	1	C6orf223	6	43970796	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	704323	43970796	127144271	80	14025										
RUNX2	860	broad.mit.edu	37	chr6	45514801	45514801	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	acccttccagaccagcagcaCtccatatctctactatggca	5	16	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:45514801C>G	uc011dvx.1	+	9	1535	c.1325C>G	c.(1324-1326)ACT>AGT	p.T442S	RUNX2_uc011dvy.1_Missense_Mutation_p.T420S|RUNX2_uc003oxt.2_Missense_Mutation_p.T428S	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	442	Pro/Ser/Thr-rich.|Interaction with MYST4.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						ACCAGCAGCACTCCATATCTC	0.592													11	55	---	---	---	---	PASS	G	45514801	G	G	45514801	3	3	35	1	0	0	0	0	1	0	0	0	13748	565	20	4	1371	4	RUNX2	6	45514801	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	1544005	45514801	125600266	81	14026										
EYS	346007	broad.mit.edu	37	chr6	66063410	66063410	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gacctttatcttggcaaataCcatggaaggtgactccacag	9	10	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:66063410C>A	uc011dxu.1	-	9	1938	c.1400G>T	c.(1399-1401)GGT>GTT	p.G467V	EYS_uc003peq.2_Missense_Mutation_p.G467V|EYS_uc003per.1_Missense_Mutation_p.G467V	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	467					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						TTGGCAAATACCATGGAAGGT	0.363													20	50	---	---	---	---	PASS	A	66063410	A	A	66063410	3	1	35	1	0	0	0	0	1	0	0	0	5332	507	18	3	8136	3	EYS	6	66063410	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	20548609	66063410	105051657	82	14027										
COL19A1	1310	broad.mit.edu	37	chr6	70637829	70637829	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ttcccaaaggccttcctgagGagtactcagtagctgccatg	10	12	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:70637829G>T	uc003pfc.1	+	5	412	c.295G>T	c.(295-297)GAG>TAG	p.E99*	COL19A1_uc010kam.1_5'UTR	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	99	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CCTTCCTGAGGAGTACTCAGT	0.413													54	80	---	---	---	---	PASS	T	70637829	T	T	70637829	4	4	35	1	0	0	0	0	0	1	0	0	3676	1175	41	2	309	2	COL19A1	6	70637829	Nonsense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	4574419	70637829	100477238	83	14028										
COL12A1	1303	broad.mit.edu	37	chr6	75893694	75893694	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gagaggtcgcgaacactgagCgtggttgtctgaggccccac	15	11	1	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:75893694C>T	uc003phs.2	-	9	1330	c.1164G>A	c.(1162-1164)ACG>ACA	p.T388T	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_Silent_p.T46T	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	388	Fibronectin type-III 2.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GAACACTGAGCGTGGTTGTCT	0.512													6	138	---	---	---	---	PASS	T	75893694	T	T	75893694	2	4	35	1	0	0	0	0	0	0	0	1	3669	755	27	1		1	COL12A1	6	75893694	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	5255865	75893694	95221373	84	14029										
NT5E	4907	broad.mit.edu	37	chr6	86159901	86159901	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gcccgcgacgctactcctcgCcctgggcgcggtgctgtggc	15	17	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:86159901C>A	uc003pko.3	+	1	600	c.44C>A	c.(43-45)GCC>GAC	p.A15D	NT5E_uc003pkn.2_Missense_Mutation_p.A15D|NT5E_uc010kbr.2_Missense_Mutation_p.A15D	NM_002526	NP_002517	P21589	5NTD_HUMAN	5' nucleotidase, ecto precursor	15					DNA metabolic process|purine base metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	5'-nucleotidase activity|nucleotide binding			ovary(3)|central_nervous_system(1)	4		all_cancers(76;0.000215)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0427)		BRCA - Breast invasive adenocarcinoma(108;0.0417)	Pentoxifylline(DB00806)	CTACTCCTCGCCCTGGGCGCG	0.711													15	7	---	---	---	---	PASS	A	86159901	A	A	86159901	3	1	35	1	0	0	0	0	1	0	0	0	10693	739	26	3	46	3	NT5E	6	86159901	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	10266207	86159901	84955166	85	14030										
PRDM13	59336	broad.mit.edu	37	chr6	100062541	100062541	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cggctatcccccggagcctgGggatcccaagagcgacgaca	13	15	0	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:100062541G>T	uc003pqg.1	+	4	2291	c.2030G>T	c.(2029-2031)GGG>GTG	p.G677V		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	677					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		CCGGAGCCTGGGGATCCCAAG	0.687													15	35	---	---	---	---	PASS	T	100062541	T	T	100062541	3	4	35	1	0	0	0	0	1	0	0	0	12454	1232	43	3	2044	3	PRDM13	6	100062541	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	13902640	100062541	71052526	86	14031										
PRDM13	59336	broad.mit.edu	37	chr6	100062564	100062564	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	atcccaagagcgacgacagtGacgtggacgtctgcttcaca	11	12	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:100062564G>T	uc003pqg.1	+	4	2314	c.2053G>T	c.(2053-2055)GAC>TAC	p.D685Y		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	685					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		CGACGACAGTGACGTGGACGT	0.706													19	45	---	---	---	---	PASS	T	100062564	T	T	100062564	3	4	35	1	0	0	0	0	1	0	0	0	12454	1290	45	2	2067	2	PRDM13	6	100062564	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	23	100062564	71052503	87	14032										
HS3ST5	222537	broad.mit.edu	37	chr6	114379015	114379015	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctcttttcaattgtgatttgCtgagggtaggaaaaaggcat	11	5	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:114379015C>T	uc003pwg.3	-	2	479	c.447G>A	c.(445-447)CAG>CAA	p.Q149Q	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Silent_p.Q149Q	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	149	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		TTGTGATTTGCTGAGGGTAGG	0.368													94	96	---	---	---	---	PASS	T	114379015	T	T	114379015	2	4	35	1	0	0	0	0	0	0	0	1	7368	796	28	3		3	HS3ST5	6	114379015	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	14316451	114379015	56736052	88	14033										
PARK2	5071	broad.mit.edu	37	chr6	161969933	161969933	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gcaggtgactttcctctggtCaggctccggcagcagccccg	13	15	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:161969933C>T	uc003qtx.3	-	9	1170	c.1036G>A	c.(1036-1038)GAC>AAC	p.D346N	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Missense_Mutation_p.D155N|PARK2_uc003qtw.3_Missense_Mutation_p.D155N|PARK2_uc003qty.3_Missense_Mutation_p.D318N|PARK2_uc003qtz.3_Missense_Mutation_p.D197N|PARK2_uc010kke.1_Missense_Mutation_p.D365N|PARK2_uc011egf.1_Missense_Mutation_p.D20N	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	346	IBR-type.				aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		TTCCTCTGGTCAGGCTCCGGC	0.632													5	115	---	---	---	---	PASS	T	161969933	T	T	161969933	3	4	35	1	0	0	0	0	1	0	0	0	11449	826	29	2	377	2	PARK2	6	161969933	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	47590918	161969933	9145134	89	14034										
DLL1	28514	broad.mit.edu	37	chr6	170592599	170592599	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gcagttggccaggttgttcaTggtctccgtctccccccggc	12	15	3	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr6:170592599T>A	uc003qxm.2	-	9	2238	c.1768A>T	c.(1768-1770)ATG>TTG	p.M590L		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	590	Cytoplasmic (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		AGGTTGTTCATGGTCTCCGTC	0.642													25	80	---	---	---	---	PASS	A	170592599	A	A	170592599	3	1	35	1	0	0	0	0	1	0	0	0	4566	1464	51	5	415	5	DLL1	6	170592599	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08	8622666	170592599	522468	90	14035										
INTS1	26173	broad.mit.edu	37	chr7	1542595	1542595	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gaaatggctcgtttttctgcCactgcagcctcagccaggcg	11	13	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr7:1542595C>T	uc003skn.2	-	3	392	c.291G>A	c.(289-291)GTG>GTA	p.V97V	INTS1_uc003skq.2_Silent_p.V97V	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	97					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		GTTTTTCTGCCACTGCAGCCT	0.592													83	74	---	---	---	---	PASS	T	1542595	T	T	1542595	2	4	35	1	0	0	0	0	0	0	0	1	7775	581	21	3		3	INTS1	7	1542595	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08		1542595	157596068	91	14036										
FBXL18	80028	broad.mit.edu	37	chr7	5540481	5540481	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ttcagcagagaccagaacacGgaggagggctgggggcacgc	17	10	1	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr7:5540481G>A	uc003soo.2	-	3	1513	c.1419C>T	c.(1417-1419)TCC>TCT	p.S473S	FBXL18_uc003son.3_Silent_p.S473S	NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	473	LRR 8.									central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)		ACCAGAACACGGAGGAGGGCT	0.647													16	13	---	---	---	---	PASS	A	5540481	A	A	5540481	2	1	35	1	0	0	0	0	0	0	0	1	5714	1103	39	1		1	FBXL18	7	5540481	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	3997886	5540481	153598182	92	14037										
C7orf36	57002	broad.mit.edu	37	chr7	39612040	39612040	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tttattggactccattgaggAtatggacctttgtcatgtag	10	6	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr7:39612040A>T	uc003thc.3	+	3	425	c.416A>T	c.(415-417)GAT>GTT	p.D139V		NM_020192	NP_064577	Q9NRH1	CG036_HUMAN	hypothetical protein LOC57002	139											0						TCCATTGAGGATATGGACCTT	0.398													40	112	---	---	---	---	PASS	T	39612040	T	T	39612040	3	4	35	1	0	0	0	0	1	0	0	0	2390	333	12	5	426	5	C7orf36	7	39612040	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	34071559	39612040	119526623	93	14038										
PKD1L1	168507	broad.mit.edu	37	chr7	47886477	47886477	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tttctcaaatgtgtctatacCtgcagttcactttttcagga	6	9	4	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr7:47886477C>A	uc003tny.1	-	32	5153	c.5153G>T	c.(5152-5154)AGC>ATC	p.S1718I		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	1718	Extracellular (Potential).|GPS.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GTGTCTATACCTGCAGTTCAC	0.448													14	71	---	---	---	---	PASS	A	47886477	A	A	47886477	3	1	35	1	0	0	0	0	1	0	0	0	11964	695	24	3	3500	3	PKD1L1	7	47886477	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	8274437	47886477	111252186	94	14039										
KRIT1	889	broad.mit.edu	37	chr7	91851289	91851289	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gtgtttccctttgaggatccAgattagtcaattcagcaagt	9	8	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr7:91851289A>T	uc003ulq.1	-	12	1661	c.1490T>A	c.(1489-1491)CTG>CAG	p.L497Q	KRIT1_uc010lev.1_Missense_Mutation_p.L254Q|KRIT1_uc003ulr.1_Missense_Mutation_p.L497Q|KRIT1_uc003uls.1_Missense_Mutation_p.L497Q|KRIT1_uc003ult.1_Missense_Mutation_p.L449Q|KRIT1_uc003ulu.1_Missense_Mutation_p.L497Q|KRIT1_uc003ulv.1_Missense_Mutation_p.L497Q	NM_194456	NP_919438	O00522	KRIT1_HUMAN	krev interaction trapped 1 isoform 1	497	Required for RAP1A binding.|FERM.				angiogenesis|cell redox homeostasis|negative regulation of angiogenesis|negative regulation of endothelial cell apoptosis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|regulation of establishment of cell polarity|small GTPase mediated signal transduction	cell-cell junction|cytoskeleton	protein binding|small GTPase regulator activity			ovary(2)|lung(1)	3	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTGAGGATCCAGATTAGTCAA	0.383									Familial_Cerebral_Cavernous_Angioma				52	72	---	---	---	---	PASS	T	91851289	T	T	91851289	3	4	35	1	0	0	0	0	1	0	0	0	8445	188	7	5	744	5	KRIT1	7	91851289	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	43964812	91851289	67287374	95	14040										
LMTK2	22853	broad.mit.edu	37	chr7	97800938	97800938	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gctgcagaggatggcgtgcgAggtcgccgcggggctggccg	21	11	0	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr7:97800938A>T	uc003upd.1	+	7	1036	c.743A>T	c.(742-744)GAG>GTG	p.E248V		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	248	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)					ATGGCGTGCGAGGTCGCCGCG	0.667													41	63	---	---	---	---	PASS	T	97800938	T	T	97800938	3	4	35	1	0	0	0	0	1	0	0	0	8859	304	11	5	769	5	LMTK2	7	97800938	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	5949649	97800938	61337725	96	14041										
TBXAS1	6916	broad.mit.edu	37	chr7	139661962	139661962	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cacactttcttttgccacctAcctactggccaccaaccctg	4	18	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr7:139661962A>G	uc011kqv.1	+	10	1369	c.1205A>G	c.(1204-1206)TAC>TGC	p.Y402C	TBXAS1_uc003vvh.2_Missense_Mutation_p.Y356C|TBXAS1_uc010lne.2_Missense_Mutation_p.Y288C|TBXAS1_uc011kqu.1_Missense_Mutation_p.Y307C|TBXAS1_uc003vvi.2_Missense_Mutation_p.Y356C|TBXAS1_uc003vvj.2_Missense_Mutation_p.Y356C|TBXAS1_uc011kqw.1_Missense_Mutation_p.Y336C	NM_001130966	NP_001124438	P24557	THAS_HUMAN	thromboxane A synthase 1, platelet isoform	355	Helical; (Potential).				hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|thromboxane-A synthase activity			ovary(2)|breast(1)	3	Melanoma(164;0.0142)					TTTGCCACCTACCTACTGGCC	0.493													29	92	---	---	---	---	PASS	G	139661962	G	G	139661962	3	3	35	1	0	0	0	0	1	0	0	0	15661	391	14	5	1243	5	TBXAS1	7	139661962	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	41861024	139661962	19476701	97	14042										
PTPRN2	5799	broad.mit.edu	37	chr7	157985171	157985171	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gtacctcctctcgctgccaaCgctgtgttttgagggcctga	11	13	1	2	rs140977880	byFrequency	TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr7:157985171C>T	uc003wno.2	-	5	518	c.397G>A	c.(397-399)GTT>ATT	p.V133I	PTPRN2_uc003wnp.2_Missense_Mutation_p.V116I|PTPRN2_uc003wnq.2_Missense_Mutation_p.V133I|PTPRN2_uc003wnr.2_Missense_Mutation_p.V95I|PTPRN2_uc011kwa.1_Missense_Mutation_p.V156I	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	133	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		TCGCTGCCAACGCTGTGTTTT	0.632													13	94	---	---	---	---	PASS	T	157985171	T	T	157985171	3	4	35	1	0	0	0	0	1	0	0	0	12808	536	19	1	2726	1	PTPRN2	7	157985171	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	18323209	157985171	1153492	98	14043										
MYOM2	9172	broad.mit.edu	37	chr8	2033485	2033485	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cagctgggagccacccactcCccgtggcaaggacccgctca	11	18	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr8:2033485C>T	uc003wpx.3	+	14	1745	c.1607C>T	c.(1606-1608)CCC>CTC	p.P536L	MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	536	Fibronectin type-III 2.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CCACCCACTCCCCGTGGCAAG	0.587													13	41	---	---	---	---	PASS	T	2033485	T	T	2033485	3	4	35	1	0	0	0	0	1	0	0	0	10092	623	22	3	1657	3	MYOM2	8	2033485	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08		2033485	144330537	99	14044										
MMP16	4325	broad.mit.edu	37	chr8	89180014	89180014	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	atcctccctctccatcaaagGgagagctgtccccatggaaa	8	14	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr8:89180014G>T	uc003yeb.3	-	4	875	c.593C>A	c.(592-594)CCC>CAC	p.P198H	MMP16_uc003yec.2_Missense_Mutation_p.P198H	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	198	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						TCCATCAAAGGGAGAGCTGTC	0.448													29	28	---	---	---	---	PASS	T	89180014	T	T	89180014	3	4	35	1	0	0	0	0	1	0	0	0	9655	1232	43	3	1414	3	MMP16	8	89180014	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	87146529	89180014	57184008	100	14045										
RIMS2	9699	broad.mit.edu	37	chr8	105263842	105263842	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gccaacagatcatcgtctggGgagattatggccgcatggat	13	9	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr8:105263842G>T	uc003yls.2	+	28	4139	c.3898G>T	c.(3898-3900)GGA>TGA	p.G1300*	RIMS2_uc003ylp.2_Nonsense_Mutation_p.G1282*|RIMS2_uc003ylq.2_Nonsense_Mutation_p.G1096*|RIMS2_uc003ylr.2_Nonsense_Mutation_p.G1121*	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1344	C2 2.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CATCGTCTGGGGAGATTATGG	0.358										HNSCC(12;0.0054)			34	137	---	---	---	---	PASS	T	105263842	T	T	105263842	4	4	35	1	0	0	0	0	0	1	0	0	13368	1233	43	3	4134	3	RIMS2	8	105263842	Nonsense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	16083828	105263842	41100180	101	14046										
LRP12	29967	broad.mit.edu	37	chr8	105503379	105503379	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cattatctgcatgaccacctCgggtactctgagttgaggaa	10	10	2	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr8:105503379C>A	uc003yma.2	-	7	2197	c.2102G>T	c.(2101-2103)CGA>CTA	p.R701L	LRP12_uc003ymb.2_Missense_Mutation_p.R682L|LRP12_uc003ylz.2_Missense_Mutation_p.R107L	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	701	Cytoplasmic (Potential).				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)			ATGACCACCTCGGGTACTCTG	0.527													39	36	---	---	---	---	PASS	A	105503379	A	A	105503379	3	1	35	1	0	0	0	0	1	0	0	0	8954	884	31	2	481	2	LRP12	8	105503379	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	239537	105503379	40860643	102	14047										
OXR1	55074	broad.mit.edu	37	chr8	107718644	107718644	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tatcaggaagggacttctgcCattcaaagaaaatgacagga	10	7	3	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr8:107718644C>T	uc011lht.1	+	8	997	c.898C>T	c.(898-900)CAT>TAT	p.H300Y	OXR1_uc003ymf.2_Missense_Mutation_p.H299Y|OXR1_uc011lhu.1_Missense_Mutation_p.H292Y|OXR1_uc010mcg.2_Intron|OXR1_uc010mch.2_5'UTR|OXR1_uc003ymg.1_Missense_Mutation_p.H232Y|OXR1_uc003ymi.1_Missense_Mutation_p.H211Y	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	300					cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			GGACTTCTGCCATTCAAAGAA	0.368													42	87	---	---	---	---	PASS	T	107718644	T	T	107718644	3	4	35	1	0	0	0	0	1	0	0	0	11334	594	21	3	1128	3	OXR1	8	107718644	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	2215265	107718644	38645378	103	14048										
CSMD3	114788	broad.mit.edu	37	chr8	113364684	113364684	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tcacactgaaaggatactacAtctccaaccatatatctgtc	4	12	3	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr8:113364684A>T	uc003ynu.2	-	39	6375	c.6216T>A	c.(6214-6216)GAT>GAA	p.D2072E	CSMD3_uc003yns.2_Missense_Mutation_p.D1274E|CSMD3_uc003ynt.2_Missense_Mutation_p.D2032E|CSMD3_uc011lhx.1_Missense_Mutation_p.D1968E	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2072	Extracellular (Potential).|Sushi 11.					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						AGGATACTACATCTCCAACCA	0.338										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			26	84	---	---	---	---	PASS	T	113364684	T	T	113364684	3	4	35	1	0	0	0	0	1	0	0	0	3946	214	8	5	5039	5	CSMD3	8	113364684	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	5646040	113364684	32999338	104	14049										
CSMD3	114788	broad.mit.edu	37	chr8	113364700	113364700	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctacatctccaaccatatatCtgtctccaattttaattcca	1	13	3	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr8:113364700C>T	uc003ynu.2	-	39	6359	c.6200G>A	c.(6199-6201)AGA>AAA	p.R2067K	CSMD3_uc003yns.2_Missense_Mutation_p.R1269K|CSMD3_uc003ynt.2_Missense_Mutation_p.R2027K|CSMD3_uc011lhx.1_Missense_Mutation_p.R1963K	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2067	Extracellular (Potential).|Sushi 11.					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						AACCATATATCTGTCTCCAAT	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			28	99	---	---	---	---	PASS	T	113364700	T	T	113364700	3	4	35	1	0	0	0	0	1	0	0	0	3946	913	32	2	5055	2	CSMD3	8	113364700	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	16	113364700	32999322	105	14050										
EFR3A	23167	broad.mit.edu	37	chr8	132996394	132996394	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ttttctcctcagaatgggcaAcagctgtatcggcacatata	8	10	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr8:132996394A>T	uc003yte.2	+	15	1785	c.1584A>T	c.(1582-1584)CAA>CAT	p.Q528H		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	528						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			AGAATGGGCAACAGCTGTATC	0.353													15	34	---	---	---	---	PASS	T	132996394	T	T	132996394	3	4	35	1	0	0	0	0	1	0	0	0	4958	40	2	5	1642	5	EFR3A	8	132996394	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	19631694	132996394	13367628	106	14051										
CDKN2A	1029	broad.mit.edu	37	chr9	21971017	21971017	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gctcctcagccaggtccacgGgcagacggccccaggcatcg	13	17	1	1	rs121913386		TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr9:21971017G>A	uc003zpk.2	-	2	553	c.341C>T	c.(340-342)CCC>CTC	p.P114L	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Silent_p.A169A	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	114	ANK 4.		P -> L (in non-small cell lung carcinoma).|P -> S (found in some patients with melanoma; loss of CDK4 binding).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.P114L(21)|p.?(13)|p.P114H(3)|p.H83fs*2(2)|p.P114S(2)|p.A68fs*3(1)|p.P114P(1)|p.V115fs*11(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CAGGTCCACGGGCAGACGGCC	0.731	P114L(SKMEL30_SKIN)|P114L(WM983B_SKIN)	17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			26	9	---	---	---	---	PASS	A	21971017	A	A	21971017	3	1	35	1	0	0	0	0	1	0	0	0	3161	1232	43	3	137	3	CDKN2A	9	21971017	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08		21971017	119242414	107	14052										
IFT74	80173	broad.mit.edu	37	chr9	26984516	26984516	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gggctgagactttagctgttGagataaaagagcttcaagga	13	5	1	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr9:26984516G>A	uc010mja.2	+	6	551	c.424G>A	c.(424-426)GAG>AAG	p.E142K	IFT74_uc010mjb.2_Missense_Mutation_p.E142K|IFT74_uc003zqf.3_Missense_Mutation_p.E142K|IFT74_uc003zqg.3_Missense_Mutation_p.E142K	NM_001099223	NP_001092693	Q96LB3	IFT74_HUMAN	coiled-coil domain containing 2 isoform a	142	Potential.					cytoplasmic membrane-bounded vesicle|intraflagellar transport particle B|microtubule-based flagellum				skin(1)	1		all_neural(11;2.36e-10)		Lung(218;1.4e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)		TTTAGCTGTTGAGATAAAAGA	0.274													58	118	---	---	---	---	PASS	A	26984516	A	A	26984516	3	1	35	1	0	0	0	0	1	0	0	0	7563	1291	45	2	442	2	IFT74	9	26984516	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	5013499	26984516	114228915	108	14053										
DCAF12	25853	broad.mit.edu	37	chr9	34098402	34098402	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tttggggatgtcctttaaggCcttgtgagtgatgtgtgcat	14	5	0	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr9:34098402C>A	uc003ztt.2	-	5	1057	c.715G>T	c.(715-717)GCC>TCC	p.A239S		NM_015397	NP_056212	Q5T6F0	DCA12_HUMAN	DDB1 and CUL4 associated factor 12	239						centrosome|CUL4 RING ubiquitin ligase complex					0						TCCTTTAAGGCCTTGTGAGTG	0.478													116	40	---	---	---	---	PASS	A	34098402	A	A	34098402	3	1	35	1	0	0	0	0	1	0	0	0	4263	739	26	3	666	3	DCAF12	9	34098402	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	7113886	34098402	107115029	109	14054										
TLR4	7099	broad.mit.edu	37	chr9	120475753	120475753	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ttcctatcactcagaaacctCatttaccttgacatttctca	2	13	4	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr9:120475753C>T	uc004bjz.2	+	3	1638	c.1347C>T	c.(1345-1347)CTC>CTT	p.L449L	TLR4_uc004bka.2_Silent_p.L409L|TLR4_uc004bkb.2_Silent_p.L249L	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	449	LRR 14.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TCAGAAACCTCATTTACCTTG	0.393													38	85	---	---	---	---	PASS	T	120475753	T	T	120475753	2	4	35	1	0	0	0	0	0	0	0	1	15950	813	29	2		2	TLR4	9	120475753	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	86377351	120475753	20737678	110	14055										
GRIN1	2902	broad.mit.edu	37	chr9	140057129	140057129	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tggcctcctacaccgccaacCtggcggccttcctggtgctg	11	17	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr9:140057129C>A	uc004clk.2	+	14	2281	c.1951C>A	c.(1951-1953)CTG>ATG	p.L651M	GRIN1_uc004cli.1_Missense_Mutation_p.L326M|GRIN1_uc004clj.1_Missense_Mutation_p.L648M|GRIN1_uc004cll.2_Missense_Mutation_p.L651M|GRIN1_uc004clm.2_Missense_Mutation_p.L651M|GRIN1_uc004cln.2_Missense_Mutation_p.L669M|GRIN1_uc004clo.2_Missense_Mutation_p.L669M	NM_007327	NP_015566	Q05586	NMDZ1_HUMAN	NMDA receptor 1 isoform NR1-3 precursor	651	Helical; (Potential).				ionotropic glutamate receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|regulation of excitatory postsynaptic membrane potential|response to ethanol|visual learning	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane|synaptic vesicle|synaptosome	calcium ion binding|calmodulin binding|extracellular-glutamate-gated ion channel activity|glutamate binding|glycine binding			skin(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;6.87e-05)|Epithelial(140;0.00095)	L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	CACCGCCAACCTGGCGGCCTT	0.701													15	11	---	---	---	---	PASS	A	140057129	A	A	140057129	3	1	35	1	0	0	0	0	1	0	0	0	6778	680	24	3	2072	3	GRIN1	9	140057129	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	19581376	140057129	1156302	111	14056										
MLLT10	8028	broad.mit.edu	37	chr10	22021984	22021984	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aacagcaaatcctagtccgtCtcatcaaatacacacatttt	3	12	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr10:22021984C>T	uc001iqs.2	+	19	2771	c.2423C>T	c.(2422-2424)TCT>TTT	p.S808F	MLLT10_uc001iqt.2_Missense_Mutation_p.S792F|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Missense_Mutation_p.S792F|MLLT10_uc001ira.2_Missense_Mutation_p.S249F|MLLT10_uc001irb.2_RNA	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	808					positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						CCTAGTCCGTCTCATCAAATA	0.338			T	MLL|PICALM|CDK6	AL								21	46	---	---	---	---	PASS	T	22021984	T	T	22021984	3	4	35	1	0	0	0	0	1	0	0	0	9626	913	32	2	2493	2	MLLT10	10	22021984	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08		22021984	113512763	112	14057										
PDE6C	5146	broad.mit.edu	37	chr10	95422928	95422928	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aaaaagcaagaaggaggagcCgaaaaaggttagatgggctc	14	5	0	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr10:95422928C>T	uc001kiu.3	+	21	2649	c.2511C>T	c.(2509-2511)GCC>GCT	p.A837A		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	837					visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				AAGGAGGAGCCGAAAAAGGTT	0.428													10	25	---	---	---	---	PASS	T	95422928	T	T	95422928	2	4	35	1	0	0	0	0	0	0	0	1	11647	639	23	1		1	PDE6C	10	95422928	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	73400944	95422928	40111819	113	14058										
TRIM21	6737	broad.mit.edu	37	chr11	4407427	4407427	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ttcttcagccctggcacatgGcacacactcctgagttctgg	9	14	3	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr11:4407427G>A	uc001lyy.1	-	6	932	c.819C>T	c.(817-819)TGC>TGT	p.C273C		NM_003141	NP_003132	P19474	RO52_HUMAN	tripartite motif protein 21	273	B30.2/SPRY.				cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein deubiquitination|positive regulation of cell cycle|protein autoubiquitination|protein destabilization|protein monoubiquitination|protein polyubiquitination|protein trimerization	cytoplasmic mRNA processing body|nucleus	DNA binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;2.08e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0851)|LUSC - Lung squamous cell carcinoma(625;0.194)		CTGGCACATGGCACACACTCC	0.537													15	31	---	---	---	---	PASS	A	4407427	A	A	4407427	2	1	35	1	0	0	0	0	0	0	0	1	16492	1195	42	3		3	TRIM21	11	4407427	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08		4407427	130599089	114	14059										
COPB1	1315	broad.mit.edu	37	chr11	14501234	14501234	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	acatcagcagctgctgcttcGttgttgtcactgagaaattc	9	10	2	1	rs149921106	by1000genomes	TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr11:14501234G>A	uc001mli.2	-	11	1546	c.1239C>T	c.(1237-1239)AAC>AAT	p.N413N	COPB1_uc001mlg.2_Silent_p.N413N|COPB1_uc001mlh.2_Silent_p.N413N	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	413	HEAT 6.				COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						CTGCTGCTTCGTTGTTGTCAC	0.338													26	39	---	---	---	---	PASS	A	14501234	A	A	14501234	2	1	35	1	0	0	0	0	0	0	0	1	3728	1136	40	1		1	COPB1	11	14501234	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	10093807	14501234	120505282	115	14060										
DCDC1	341019	broad.mit.edu	37	chr11	31327799	31327799	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	caaggtgatggttggtacagTaactctggcaaagactgttc	12	7	1	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr11:31327799T>C	uc001msv.2	-	5	773	c.571A>G	c.(571-573)ACT>GCT	p.T191A	DCDC1_uc001msu.1_5'UTR	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	191	Doublecortin.				intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					GTTGGTACAGTAACTCTGGCA	0.333													19	38	---	---	---	---	PASS	C	31327799	C	C	31327799	3	2	35	1	0	0	0	0	1	0	0	0	4284	1638	57	5	513	5	DCDC1	11	31327799	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08	16826565	31327799	103678717	116	14061										
OR5M9	390162	broad.mit.edu	37	chr11	56230130	56230130	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	catgaagatgggggtcccatAaaacatagaaacagccgtca	10	9	1	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr11:56230130A>G	uc010rjj.1	-	1	748	c.748T>C	c.(748-750)TAT>CAT	p.Y250H		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	250	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					GGGGTCCCATAAAACATAGAA	0.512													29	36	---	---	---	---	PASS	G	56230130	G	G	56230130	3	3	35	1	0	0	0	0	1	0	0	0	11177	362	13	5	186	5	OR5M9	11	56230130	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	24902331	56230130	78776386	117	14062										
OR5B12	390191	broad.mit.edu	37	chr11	58206696	58206696	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ataattaaaatatgaatcctAtagaggcctttgccttccct	5	9	0	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr11:58206696A>G	uc010rkh.1	-	1	929	c.929T>C	c.(928-930)ATA>ACA	p.I310T		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TATGAATCCTATAGAGGCCTT	0.289													24	49	---	---	---	---	PASS	G	58206696	G	G	58206696	3	3	35	1	0	0	0	0	1	0	0	0	11148	449	16	5	19	5	OR5B12	11	58206696	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	1976566	58206696	76799820	118	14063										
MS4A15	219995	broad.mit.edu	37	chr11	60540959	60540959	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ttttggtgttaccaaccgggTgcgttgtcagatggccctcg	13	10	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr11:60540959T>C	uc009ynf.1	+	5	718	c.498_splice	c.e5+2	p.R166_splice	MS4A15_uc001npx.2_Splice_Site_p.R73_splice|MS4A15_uc001npy.2_Splice_Site|MS4A15_uc009yng.1_Splice_Site_p.R125_splice	NM_001098835	NP_001092305	Q8N5U1	M4A15_HUMAN	membrane-spanning 4-domains, subfamily A, member							integral to membrane	receptor activity			lung(1)	1						ACCAACCGGGTGCGTTGTCAG	0.582													18	35	---	---	---	---	PASS	C	60540959	C	C	60540959	5	2	35	1	0	0	0	0	0	0	1	0	9859	1710	59	5	514	5	MS4A15	11	60540959	Splice_Site	SNP	T	TCGA-22-4593-01A-21D-1817-08	2334263	60540959	74465557	119	14064										
PC	5091	broad.mit.edu	37	chr11	66620276	66620276	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gggctggccttgacgggaatCggggtggttggaccgtttac	18	8	0	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr11:66620276C>A	uc001ojn.1	-	12	1594	c.1545G>T	c.(1543-1545)CCG>CCT	p.P515P	PC_uc001ojo.1_Silent_p.P515P|PC_uc001ojp.1_Silent_p.P515P|PC_uc001ojm.1_5'Flank	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	515					gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	TGACGGGAATCGGGGTGGTTG	0.627													45	60	---	---	---	---	PASS	A	66620276	A	A	66620276	2	1	35	1	0	0	0	0	0	0	0	1	11497	871	31	2		2	PC	11	66620276	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	6079317	66620276	68386240	120	14065										
TPCN2	219931	broad.mit.edu	37	chr11	68848948	68848948	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	catcgtgttccgcttcctgcGtatcatccccagcatgaagg	9	14	1	1	rs146072177	by1000genomes	TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr11:68848948G>A	uc001oos.2	+	18	1786	c.1670G>A	c.(1669-1671)CGT>CAT	p.R557H	TPCN2_uc010rqg.1_Intron|TPCN2_uc001oot.2_RNA|hsa-mir-3164|MI0014194_5'Flank	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	557	Helical; Name=S4 of repeat II; (Potential).				cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CGCTTCCTGCGTATCATCCCC	0.662													4	41	---	---	---	---	PASS	A	68848948	A	A	68848948	3	1	35	1	0	0	0	0	1	0	0	0	16393	1145	40	1	1740	1	TPCN2	11	68848948	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	2228672	68848948	66157568	121	14066										
NOX4	50507	broad.mit.edu	37	chr11	89133542	89133542	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aaaggtccagaaatccaaagCcaagtctaagacaaattttt	6	8	1	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr11:89133542C>A	uc001pct.2	-	10	1091	c.852G>T	c.(850-852)TGG>TGT	p.W284C	NOX4_uc009yvr.2_Missense_Mutation_p.W259C|NOX4_uc001pcu.2_Missense_Mutation_p.W210C|NOX4_uc001pcw.2_Intron|NOX4_uc001pcx.2_Intron|NOX4_uc001pcv.2_Missense_Mutation_p.W284C|NOX4_uc009yvo.2_Intron|NOX4_uc010rtu.1_Missense_Mutation_p.W118C|NOX4_uc009yvp.2_Intron|NOX4_uc010rtv.1_Missense_Mutation_p.W260C|NOX4_uc009yvq.2_Missense_Mutation_p.W260C	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	284	Extracellular (Potential).|Ferric oxidoreductase.|Mediates interaction with TLR4.				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				AAATCCAAAGCCAAGTCTAAG	0.383													4	46	---	---	---	---	PASS	A	89133542	A	A	89133542	3	1	35	1	0	0	0	0	1	0	0	0	10558	740	26	3	920	3	NOX4	11	89133542	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	20284594	89133542	45872974	122	14067										
TULP3	7289	broad.mit.edu	37	chr12	3039413	3039413	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cagttcttccttttctgctaGatatctctgaaagtgtgaac	7	9	3	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:3039413G>C	uc010seh.1	+	5	476	c.395_splice	c.e5-1	p.D132_splice	TULP3_uc010sef.1_Splice_Site|TULP3_uc009zec.1_Splice_Site|TULP3_uc010seg.1_Splice_Site|TULP3_uc001qlj.2_Splice_Site_p.D132_splice|TULP3_uc010sei.1_Intron	NM_003324	NP_003315	O75386	TULP3_HUMAN	tubby like protein 3 isoform 1						G-protein coupled receptor protein signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|extracellular region|nucleus|plasma membrane	phosphatidylinositol-4,5-bisphosphate binding				0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			TTTTCTGCTAGATATCTCTGA	0.363													5	16	---	---	---	---	PASS	C	3039413	C	C	3039413	5	2	35	1	0	0	0	0	0	0	1	0	16772	956	33	2	412	2	TULP3	12	3039413	Splice_Site	SNP	G	TCGA-22-4593-01A-21D-1817-08		3039413	130812482	123	14068										
PRB3	5544	broad.mit.edu	37	chr12	11420269	11420269	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tggtccttgtggccttcctgGaggagggggacgttgaggtt	18	7	0	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:11420269G>C	uc001qzs.2	-	4	825	c.787C>G	c.(787-789)CCA>GCA	p.P263A	PRB4_uc001qzf.1_Intron	NM_006249	NP_006240	Q04118	PRB3_HUMAN	proline-rich protein BstNI subfamily 3	263	Pro-rich.					extracellular region	Gram-negative bacterial cell surface binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.201)			GGCCTTCCTGGAGGAGGGGGA	0.617													181	159	---	---	---	---	PASS	C	11420269	C	C	11420269	3	2	35	1	0	0	0	0	1	0	0	0	12444	1174	41	2	146	2	PRB3	12	11420269	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	8380856	11420269	122431626	124	14069										
PIK3C2G	5288	broad.mit.edu	37	chr12	18691219	18691219	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aatattatcagaaagcacagCcaactgctcttgaacctgct	6	11	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:18691219C>G	uc001rdt.2	+	24	3446	c.3330C>G	c.(3328-3330)AGC>AGG	p.S1110R	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.S1151R|PIK3C2G_uc010sic.1_Missense_Mutation_p.S929R	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	1110	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				GAAAGCACAGCCAACTGCTCT	0.368													53	39	---	---	---	---	PASS	G	18691219	G	G	18691219	3	3	35	1	0	0	0	0	1	0	0	0	11911	738	26	4	3420	4	PIK3C2G	12	18691219	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	7270950	18691219	115160676	125	14070										
PFKM	5213	broad.mit.edu	37	chr12	48535522	48535522	+	Splice_Site	SNP	G	C	C													0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ccgccatcactgatcaactaGgactctacccaagaagagct							TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:48535522G>C	uc001rrc.2	+	16	1583	c.1413_splice	c.e16-1	p.R471_splice	PFKM_uc001rra.1_Splice_Site_p.R156_splice|PFKM_uc001rrb.1_Splice_Site_p.R542_splice|PFKM_uc001rrd.2_Splice_Site_p.R156_splice|PFKM_uc001rre.1_Splice_Site_p.R471_splice|PFKM_uc001rrg.1_Splice_Site_p.R440_splice	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle						fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						TGATCAACTAGGACTCTACCC	0.468													31	159	---	---	---	---	PASS	C	48535522	C	C	48535522	5	2	35	1	0	0	0	0	0	0	1	0	11765	1014	35	4	1691	4	PFKM	12	48535522	Splice_Site	SNP	G	TCGA-22-4593-01A-21D-1817-08	29844303	48535522	85316373	126	14071	361	2								
PFKM	5213	broad.mit.edu	37	chr12	48535523	48535523	+	Missense_Mutation	SNP	G	C	C													0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cgccatcactgatcaactagGactctacccaagaagagctt							TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:48535523G>C	uc001rrc.2	+	16	1583	c.1413G>C	c.(1411-1413)AGG>AGC	p.R471S	PFKM_uc001rra.1_Missense_Mutation_p.R156S|PFKM_uc001rrb.1_Missense_Mutation_p.R542S|PFKM_uc001rrd.2_Missense_Mutation_p.R156S|PFKM_uc001rre.1_Missense_Mutation_p.R471S|PFKM_uc001rrg.1_Missense_Mutation_p.R440S	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	471					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						GATCAACTAGGACTCTACCCA	0.473													32	159	---	---	---	---	PASS	C	48535523	C	C	48535523	3	2	35	1	0	0	0	0	1	0	0	0	11765	1188	41	2	1692	2	PFKM	12	48535523	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	1	48535523	85316372	127	14072	361	2								
KCNH3	23416	broad.mit.edu	37	chr12	49938088	49938088	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ggccgtgttcgccctgctcgCgcactgggtcgcctgcgtct	14	16	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:49938088C>T	uc001ruh.1	+	7	1372	c.1112C>T	c.(1111-1113)GCG>GTG	p.A371V	KCNH3_uc010smj.1_Missense_Mutation_p.A311V	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	371	Helical; Name=Segment S5; (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						GCCCTGCTCGCGCACTGGGTC	0.552													9	20	---	---	---	---	PASS	T	49938088	T	T	49938088	3	4	35	1	0	0	0	0	1	0	0	0	8033	768	27	1	1138	1	KCNH3	12	49938088	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	1402565	49938088	83913807	128	14073										
MFSD5	84975	broad.mit.edu	37	chr12	53647205	53647205	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctgaggctgtagccagctggAtagggctggggcctgtagcg	18	9	0	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:53647205A>G	uc001sci.1	+	2	777	c.586A>G	c.(586-588)ATA>GTA	p.I196V	MFSD5_uc001sch.1_Missense_Mutation_p.I303V	NM_032889	NP_116278	Q6N075	MFSD5_HUMAN	major facilitator superfamily domain containing	196	Helical; (Potential).				transport	integral to membrane				skin(2)|ovary(1)	3						AGCCAGCTGGATAGGGCTGGG	0.627													37	124	---	---	---	---	PASS	G	53647205	G	G	53647205	3	3	35	1	0	0	0	0	1	0	0	0	9534	333	12	5	913	5	MFSD5	12	53647205	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	3709117	53647205	80204690	129	14074										
NCKAP1L	3071	broad.mit.edu	37	chr12	54903646	54903646	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ccacaggctgtgagtggagcCctcctctctttgcatttcct	9	14	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:54903646C>T	uc001sgc.3	+	7	691	c.612C>T	c.(610-612)GCC>GCT	p.A204A	NCKAP1L_uc010sox.1_5'UTR|NCKAP1L_uc010soy.1_Silent_p.A154A	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	204					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						TGAGTGGAGCCCTCCTCTCTT	0.512													100	238	---	---	---	---	PASS	T	54903646	T	T	54903646	2	4	35	1	0	0	0	0	0	0	0	1	10222	610	22	3		3	NCKAP1L	12	54903646	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	1256441	54903646	78948249	130	14075										
RAB5B	5869	broad.mit.edu	37	chr12	56384546	56384546	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	atcgttattgccctggcaggGaacaaagctgacctggccaa	11	11	0	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:56384546G>A	uc001siv.2	+	4	513	c.396G>A	c.(394-396)GGG>GGA	p.G132G	RAB5B_uc001siw.2_Silent_p.G132G|RAB5B_uc009zog.2_Silent_p.G72G|RAB5B_uc010spz.1_Intron	NM_002868	NP_002859	P61020	RAB5B_HUMAN	RAB5B, member RAS oncogene family	132					protein transport|small GTPase mediated signal transduction	early endosome membrane|melanosome|membrane fraction|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.235)			CCCTGGCAGGGAACAAAGCTG	0.502													39	122	---	---	---	---	PASS	A	56384546	A	A	56384546	2	1	35	1	0	0	0	0	0	0	0	1	12949	1161	41	2		2	RAB5B	12	56384546	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	1480900	56384546	77467349	131	14076										
LRP1	4035	broad.mit.edu	37	chr12	57570994	57570994	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgctggccggtgacattgagCacccaagggcaatcgcactg	13	12	0	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:57570994C>T	uc001snd.2	+	25	4628	c.4162C>T	c.(4162-4164)CAC>TAC	p.H1388Y		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1388	Extracellular (Potential).|LDL-receptor class B 9.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TGACATTGAGCACCCAAGGGC	0.632													6	40	---	---	---	---	PASS	T	57570994	T	T	57570994	3	4	35	1	0	0	0	0	1	0	0	0	8951	710	25	3	4260	3	LRP1	12	57570994	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	1186448	57570994	76280901	132	14077										
NXPH4	11247	broad.mit.edu	37	chr12	57619107	57619107	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gagttcggaggagtctggctGcccgggcctgtcccccaccc	14	16	1	0	rs147287568	byFrequency	TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:57619107G>T	uc010srf.1	+	2	679	c.504G>T	c.(502-504)CTG>CTT	p.L168L	NXPH4_uc009zpj.2_5'UTR	NM_007224	NP_009155	O95158	NXPH4_HUMAN	neurexophilin 4 precursor	168	IV (linker domain).				neuropeptide signaling pathway	extracellular region					0						GAGTCTGGCTGCCCGGGCCTG	0.687													23	98	---	---	---	---	PASS	T	57619107	T	T	57619107	2	4	35	1	0	0	0	0	0	0	0	1	10793	1306	46	3		3	NXPH4	12	57619107	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	48113	57619107	76232788	133	14078										
GRIP1	23426	broad.mit.edu	37	chr12	66849249	66849249	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	catggttccacgtgggctggTggagtagaggcttcgaggta	17	7	0	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:66849249T>A	uc001stk.2	-	10	1379	c.1138A>T	c.(1138-1140)ACC>TCC	p.T380S	GRIP1_uc010sta.1_Missense_Mutation_p.T324S|GRIP1_uc001stj.2_Missense_Mutation_p.T162S|GRIP1_uc001stl.1_Intron|GRIP1_uc001stm.2_Missense_Mutation_p.T380S	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	432					androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		CGTGGGCTGGTGGAGTAGAGG	0.488													41	141	---	---	---	---	PASS	A	66849249	A	A	66849249	3	1	35	1	0	0	0	0	1	0	0	0	6787	1696	59	5	2152	5	GRIP1	12	66849249	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08	9230142	66849249	67002646	134	14079										
PLXNC1	10154	broad.mit.edu	37	chr12	94649068	94649068	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgctctgagaactttcttccCtgaggtaaaagagcattgat	9	8	2	4			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:94649068C>T	uc001tdc.2	+	17	3332	c.3083C>T	c.(3082-3084)CCT>CTT	p.P1028L	PLXNC1_uc010sut.1_Missense_Mutation_p.P75L	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1028	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						ACTTTCTTCCCTGAGGTAAAA	0.413													19	48	---	---	---	---	PASS	T	94649068	T	T	94649068	3	4	35	1	0	0	0	0	1	0	0	0	12126	681	24	3	3149	3	PLXNC1	12	94649068	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	27799819	94649068	39202827	135	14080										
ANKS1B	56899	broad.mit.edu	37	chr12	99640175	99640175	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	attggaaggataggcaatgaGatcagaatcagatttagaga	12	3	2	4			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:99640175G>A	uc001tge.1	-	13	2641	c.2224C>T	c.(2224-2226)CTC>TTC	p.L742F	ANKS1B_uc001tgf.1_Missense_Mutation_p.L322F|ANKS1B_uc001tgk.2_Missense_Mutation_p.L39F|ANKS1B_uc009ztt.1_Missense_Mutation_p.L708F	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	742						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		TAGGCAATGAGATCAGAATCA	0.408													23	62	---	---	---	---	PASS	A	99640175	A	A	99640175	3	1	35	1	0	0	0	0	1	0	0	0	689	942	33	2	1866	2	ANKS1B	12	99640175	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	4991107	99640175	34211720	136	14081										
GNPTAB	79158	broad.mit.edu	37	chr12	102155097	102155097	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gaatggcgcactttgtgaaaTgacgtcttgtcaaattcttc	9	8	3	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:102155097T>C	uc001tit.2	-	15	3122	c.2943A>G	c.(2941-2943)TCA>TCG	p.S981S		NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	981					cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						CTTTGTGAAATGACGTCTTGT	0.373													43	44	---	---	---	---	PASS	C	102155097	C	C	102155097	2	2	35	1	0	0	0	0	0	0	0	1	6545	1451	51	5		5	GNPTAB	12	102155097	Silent	SNP	T	TCGA-22-4593-01A-21D-1817-08	2514922	102155097	31696798	137	14082										
STAB2	55576	broad.mit.edu	37	chr12	103984757	103984757	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	caaccttggagtcaagtgccCggatggttacaccatgatta	10	10	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr12:103984757C>T	uc001tjw.2	+	2	350	c.164C>T	c.(163-165)CCG>CTG	p.P55L		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	55	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GTCAAGTGCCCGGATGGTTAC	0.443													79	57	---	---	---	---	PASS	T	103984757	T	T	103984757	3	4	35	1	0	0	0	0	1	0	0	0	15237	652	23	1	170	1	STAB2	12	103984757	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	1829660	103984757	29867138	138	14083										
SACS	26278	broad.mit.edu	37	chr13	23928866	23928866	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cagcacctgccgcacccacgCgggcgtcaccttcctcacag	9	20	2	0	rs149638449	byFrequency	TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr13:23928866C>T	uc001uon.2	-	8	2474	c.1885G>A	c.(1885-1887)GCG>ACG	p.A629T	SACS_uc001uoo.2_Missense_Mutation_p.A482T|SACS_uc001uop.1_Missense_Mutation_p.A416T|SACS_uc001uoq.1_Missense_Mutation_p.A482T	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	629					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CGCACCCACGCGGGCGTCACC	0.562													51	14	---	---	---	---	PASS	T	23928866	T	T	23928866	3	4	35	1	0	0	0	0	1	0	0	0	13804	768	27	1	11866	1	SACS	13	23928866	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08		23928866	91241012	139	14084										
RNF17	56163	broad.mit.edu	37	chr13	25341415	25341415	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gaatttcatcaataggtcacCattgtgaacttcaatgtgga	8	7	4	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr13:25341415C>T	uc001upr.2	+	2	177	c.136C>T	c.(136-138)CAT>TAT	p.H46Y	RNF17_uc010tdd.1_5'UTR|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.H46Y|RNF17_uc001ups.2_5'UTR|RNF17_uc001upq.1_Missense_Mutation_p.H46Y	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	46	RING-type.				multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		AATAGGTCACCATTGTGAACT	0.244													18	41	---	---	---	---	PASS	T	25341415	T	T	25341415	3	4	35	1	0	0	0	0	1	0	0	0	13461	594	21	3	142	3	RNF17	13	25341415	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	1412549	25341415	89828463	140	14085										
COG6	57511	broad.mit.edu	37	chr13	40261703	40261703	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gttcgtggatttattgatgcGctcacaagagggggccccgg	15	9	1	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr13:40261703G>A	uc001uxh.2	+	9	952	c.852G>A	c.(850-852)GCG>GCA	p.A284A	COG6_uc001uxi.2_Silent_p.A232A|COG6_uc010acb.2_Silent_p.A284A	NM_020751	NP_065802	Q9Y2V7	COG6_HUMAN	component of oligomeric golgi complex 6 isoform	284					protein transport	Golgi membrane|Golgi transport complex				kidney(1)|skin(1)	2		Lung NSC(96;0.000124)|Breast(139;0.0199)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.03e-09)|Epithelial(112;7e-07)|OV - Ovarian serous cystadenocarcinoma(117;0.00015)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.0168)		TTATTGATGCGCTCACAAGAG	0.413													41	53	---	---	---	---	PASS	A	40261703	A	A	40261703	2	1	35	1	0	0	0	0	0	0	0	1	3662	1074	38	1		1	COG6	13	40261703	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	14920288	40261703	74908175	141	14086										
SLC15A1	6564	broad.mit.edu	37	chr13	99371545	99371545	+	Frame_Shift_Del	DEL	C	-	-													0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aaaggccagtgggtaacaagCttgtttactgtgaattccac							TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr13:99371545delC	uc001vno.2	-	8	663	c.586delG	c.(586-588)GCTfs	p.A196fs		NM_005073	NP_005064	P46059	S15A1_HUMAN	solute carrier family 15 (oligopeptide	196	Extracellular (Potential).				digestion|protein transport	integral to plasma membrane|membrane fraction	peptide:hydrogen symporter activity			ovary(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Cefadroxil(DB01140)|Ceftibuten(DB01415)|Cyclacillin(DB01000)	GGGTAACAAGCTTGTTTACTG	0.423													38	66	---	---	---	---		-	99371545	-	-	99371545	7	5	35	1	0	1	0	1	0	0	0	0	14398	797	28	0	1604	0	SLC15A1	13	99371545	Frame_Shift_Del	DEL	C	TCGA-22-4593-01A-21D-1817-08	59109842	99371545	15798333	142	14087										
OR4M1	441670	broad.mit.edu	37	chr14	20249180	20249180	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aaacattcaggctcaggtgaGaataccaacagggccatgtc	10	10	2	1	rs142051783	byFrequency	TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr14:20249180G>T	uc010tku.1	+	1	699	c.699G>T	c.(697-699)GAG>GAT	p.E233D		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	233	Cytoplasmic (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)		GCTCAGGTGAGAATACCAACA	0.463													56	266	---	---	---	---	PASS	T	20249180	T	T	20249180	3	4	35	1	0	0	0	0	1	0	0	0	11075	933	33	2	701	2	OR4M1	14	20249180	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08		20249180	87100360	143	14088										
TBPL2	387332	broad.mit.edu	37	chr14	55903639	55903639	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tttctttgacttcagggttcGaattaaatgcagtatccgga	9	7	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr14:55903639G>A	uc001xby.2	-	2	248	c.248C>T	c.(247-249)TCG>TTG	p.S83L		NM_199047	NP_950248	Q6SJ96	TBPL2_HUMAN	TATA box binding protein like 2	83					multicellular organismal development|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding				0						TTCAGGGTTCGAATTAAATGC	0.448													50	103	---	---	---	---	PASS	A	55903639	A	A	55903639	3	1	35	1	0	0	0	0	1	0	0	0	15643	1059	37	2	903	2	TBPL2	14	55903639	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	35654459	55903639	51445901	144	14089										
ZFYVE1	53349	broad.mit.edu	37	chr14	73437657	73437657	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gatggtcccagccacgagaaGgaacagcccggcggtcatgg	15	12	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr14:73437657G>A	uc001xnm.2	-	12	2907	c.2267C>T	c.(2266-2268)CCT>CTT	p.P756L	ZFYVE1_uc001xnl.2_Missense_Mutation_p.P341L|ZFYVE1_uc010arj.2_Missense_Mutation_p.P742L	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	756	FYVE-type 2.					endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		GCCACGAGAAGGAACAGCCCG	0.592													46	97	---	---	---	---	PASS	A	73437657	A	A	73437657	3	1	35	1	0	0	0	0	1	0	0	0	17660	1000	35	3	70	3	ZFYVE1	14	73437657	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	17534018	73437657	33911883	145	14090										
RPS6KA5	9252	broad.mit.edu	37	chr14	91444752	91444752	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gacttgtcgttctgtccttgTatgctctgtggttttggcct	11	9	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr14:91444752T>C	uc001xys.2	-	3	507	c.292A>G	c.(292-294)ACA>GCA	p.T98A	RPS6KA5_uc010twi.1_Missense_Mutation_p.T19A|RPS6KA5_uc001xyt.2_Missense_Mutation_p.T98A|RPS6KA5_uc010att.1_RNA	NM_004755	NP_004746	O75582	KS6A5_HUMAN	ribosomal protein S6 kinase, polypeptide 5	98	Protein kinase 1.				axon guidance|epidermal growth factor receptor signaling pathway|histone phosphorylation|innate immune response|interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter|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	cytoplasm|nucleoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1		all_cancers(154;0.0148)|Melanoma(154;0.099)|all_epithelial(191;0.146)		Epithelial(152;0.182)|BRCA - Breast invasive adenocarcinoma(234;0.201)		TCTGTCCTTGTATGCTCTGTG	0.393													67	64	---	---	---	---	PASS	C	91444752	C	C	91444752	3	2	35	1	0	0	0	0	1	0	0	0	13654	1638	57	5	2182	5	RPS6KA5	14	91444752	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08	18007095	91444752	15904788	146	14091										
WARS	7453	broad.mit.edu	37	chr14	100835456	100835456	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tcccgctttgagggaccttaCgagctccccttgtgtggcga	12	13	0	1	rs146689917		TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr14:100835456C>T	uc001yhf.1	-	1	151	c.67G>A	c.(67-69)GTA>ATA	p.V23I	WARS_uc001yhg.1_Missense_Mutation_p.V23I|WARS_uc001yhh.1_Missense_Mutation_p.V23I|WARS_uc001yhi.1_Intron|WARS_uc001yhj.1_Intron|WARS_uc001yhk.1_Intron|WARS_uc001yhl.1_Missense_Mutation_p.V23I|WARS_uc010twz.1_Missense_Mutation_p.V23I	NM_173701	NP_776049	P23381	SYWC_HUMAN	tryptophanyl-tRNA synthetase isoform a	23	WHEP-TRS.				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)	AGGGACCTTACGAGCTCCCCT	0.542													22	69	---	---	---	---	PASS	T	100835456	T	T	100835456	3	4	35	1	0	0	0	0	1	0	0	0	17246	536	19	1	1388	1	WARS	14	100835456	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	9390704	100835456	6514084	147	14092										
TNFAIP2	7127	broad.mit.edu	37	chr14	103599089	103599089	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctgcctctcctgtctcagccActgttcaagaggttcacgca	8	15	4	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr14:103599089A>C	uc001ymm.1	+	8	1556	c.1425A>C	c.(1423-1425)CCA>CCC	p.P475P	TNFAIP2_uc010awo.1_Silent_p.P187P|TNFAIP2_uc010txz.1_Silent_p.P144P|TNFAIP2_uc010tya.1_5'UTR	NM_006291	NP_006282	Q03169	TNAP2_HUMAN	tumor necrosis factor, alpha-induced protein 2	475					angiogenesis|cell differentiation	extracellular space				central_nervous_system(1)	1		Melanoma(154;0.155)	Epithelial(46;0.191)			TGTCTCAGCCACTGTTCAAGA	0.527													11	23	---	---	---	---	PASS	C	103599089	C	C	103599089	2	2	35	1	0	0	0	0	0	0	0	1	16270	146	6	5		5	TNFAIP2	14	103599089	Silent	SNP	A	TCGA-22-4593-01A-21D-1817-08	2763633	103599089	3750451	148	14093										
HERC2	8924	broad.mit.edu	37	chr15	28357016	28357016	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ggctggctctcctgtaagtgCgatgcgagcgtagtcatctg	14	10	3	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr15:28357016C>T	uc001zbj.2	-	93	14504	c.14398G>A	c.(14398-14400)GCA>ACA	p.A4800T	HERC2_uc001zbi.2_Missense_Mutation_p.A489T	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4800					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CCTGTAAGTGCGATGCGAGCG	0.527													20	62	---	---	---	---	PASS	T	28357016	T	T	28357016	3	4	35	1	0	0	0	0	1	0	0	0	7058	768	27	1	110	1	HERC2	15	28357016	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08		28357016	74174376	149	14094										
FAM82A2	55177	broad.mit.edu	37	chr15	41029852	41029852	+	Frame_Shift_Del	DEL	C	-	-													0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gaagctctggagggcatcttCcacagtggcactgagagggc							TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr15:41029852delC	uc001zmo.1	-	10	1342	c.1198delG	c.(1198-1200)GAAfs	p.E400fs	FAM82A2_uc001zmp.1_Frame_Shift_Del_p.E400fs|FAM82A2_uc001zmq.1_Frame_Shift_Del_p.E400fs	NM_018145	NP_060615	Q96TC7	RMD3_HUMAN	family with sequence similarity 82, member A2	400					apoptosis|cell differentiation	integral to membrane|microtubule|mitochondrial membrane|nucleus|spindle pole	protein binding				0						AGGGCATCTTCCACAGTGGCA	0.478													67	46	---	---	---	---		-	41029852	-	-	41029852	7	5	35	1	0	1	0	1	0	0	0	0	5631	864	30	0	230	0	FAM82A2	15	41029852	Frame_Shift_Del	DEL	C	TCGA-22-4593-01A-21D-1817-08	12672836	41029852	61501540	150	14095										
KBTBD13	390594	broad.mit.edu	37	chr15	65370042	65370042	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	acctgccgcagccggccgccGgcgtgccctgcgcccaggct	14	20	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr15:65370042G>A	uc010uis.1	+	1	889	c.889G>A	c.(889-891)GGC>AGC	p.G297S	RASL12_uc010uir.1_5'Flank	NM_001101362	NP_001094832	C9JR72	KBTBD_HUMAN	hypothetical protein LOC390594	297	Kelch 3.					cytoplasm					0						GCCGGCCGCCGGCGTGCCCTG	0.731													4	3	---	---	---	---	PASS	A	65370042	A	A	65370042	3	1	35	1	0	0	0	0	1	0	0	0	7992	1116	39	1	891	1	KBTBD13	15	65370042	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	24340190	65370042	37161350	151	14096										
C15orf44	81556	broad.mit.edu	37	chr15	65885801	65885801	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gctaccattccttccactttTaggctaccatggagcaggac	8	13	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr15:65885801T>C	uc002apd.2	-	8	1287	c.951A>G	c.(949-951)CTA>CTG	p.L317L	C15orf44_uc010uix.1_Silent_p.L353L|C15orf44_uc010uiz.1_Silent_p.L281L|C15orf44_uc010uja.1_Silent_p.L267L|C15orf44_uc010ujb.1_Silent_p.L238L|C15orf44_uc002ape.3_Silent_p.L317L|C15orf44_uc010uiy.1_Silent_p.L238L	NM_030800	NP_110427	Q96SY0	CO044_HUMAN	hypothetical protein LOC81556 isoform 2	317										ovary(1)	1						CTTCCACTTTTAGGCTACCAT	0.383													63	79	---	---	---	---	PASS	C	65885801	C	C	65885801	2	2	35	1	0	0	0	0	0	0	0	1	1798	1741	61	5		5	C15orf44	15	65885801	Silent	SNP	T	TCGA-22-4593-01A-21D-1817-08	515759	65885801	36645591	152	14097										
SGK269	79834	broad.mit.edu	37	chr15	77472963	77472963	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	atctgtagaggctttactttCttccttctcagtttgtacag	7	9	3	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr15:77472963C>A	uc002bcm.2	-	3	1614	c.1306G>T	c.(1306-1308)GAA>TAA	p.E436*	SGK269_uc002bcn.2_Nonsense_Mutation_p.E436*	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	436					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		GCTTTACTTTCTTCCTTCTCA	0.443													74	172	---	---	---	---	PASS	A	77472963	A	A	77472963	4	1	35	1	0	0	0	0	0	1	0	0	14211	922	32	2	3950	2	SGK269	15	77472963	Nonsense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	11587162	77472963	25058429	153	14098										
KIAA1024	23251	broad.mit.edu	37	chr15	79749217	79749217	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	catcaaggagaccttcatttCcaatgaggagccatttgtgg	10	9	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr15:79749217C>G	uc002bew.1	+	2	803	c.728C>G	c.(727-729)TCC>TGC	p.S243C	KIAA1024_uc010unk.1_Missense_Mutation_p.S243C	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	243						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						ACCTTCATTTCCAATGAGGAG	0.478													40	71	---	---	---	---	PASS	G	79749217	G	G	79749217	3	3	35	1	0	0	0	0	1	0	0	0	8205	855	30	2	730	2	KIAA1024	15	79749217	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	2276254	79749217	22782175	154	14099										
AKAP13	11214	broad.mit.edu	37	chr15	86087101	86087101	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agccaggtggccgcggagctCtcagtatccacaaccaggaa	12	13	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr15:86087101C>T	uc002blv.1	+	5	747	c.577C>T	c.(577-579)CTC>TTC	p.L193F	AKAP13_uc002blt.1_Missense_Mutation_p.L193F|AKAP13_uc002blu.1_Missense_Mutation_p.L193F	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	193					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CCGCGGAGCTCTCAGTATCCA	0.582													43	43	---	---	---	---	PASS	T	86087101	T	T	86087101	3	4	35	1	0	0	0	0	1	0	0	0	449	913	32	2	591	2	AKAP13	15	86087101	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	6337884	86087101	16444291	155	14100										
SOX8	30812	broad.mit.edu	37	chr16	1034928	1034928	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	acctgcccctgggcggccccGccccacccgagccgggccag	13	22	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr16:1034928G>A	uc002ckn.2	+	3	998	c.883G>A	c.(883-885)GCC>ACC	p.A295T		NM_014587	NP_055402	P57073	SOX8_HUMAN	SRY (sex determining region Y)-box 8	295					adipose tissue development|enteric nervous system development|fat cell differentiation|in utero embryonic development|metanephric nephron tubule formation|morphogenesis of a branching epithelium|negative regulation of apoptosis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|neural crest cell migration|oligodendrocyte differentiation|osteoblast differentiation|peripheral nervous system development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of gliogenesis|positive regulation of osteoblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone levels|renal vesicle induction|retinal rod cell differentiation|Sertoli cell development|signal transduction|spermatogenesis|ureter morphogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2		Hepatocellular(780;0.00308)				GGGCGGCCCCGCCCCACCCGA	0.716													9	14	---	---	---	---	PASS	A	1034928	A	A	1034928	3	1	35	1	0	0	0	0	1	0	0	0	14957	1087	38	1	893	1	SOX8	16	1034928	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08		1034928	89319825	156	14101										
NTN3	4917	broad.mit.edu	37	chr16	2522769	2522769	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctgtaccgactgtccggccgCcgcagcgggggtgtctgtct	15	14	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr16:2522769C>T	uc002cqj.2	+	2	1199	c.996C>T	c.(994-996)CGC>CGT	p.R332R	TBC1D24_uc002cqk.2_5'Flank|TBC1D24_uc002cql.2_5'Flank	NM_006181	NP_006172	O00634	NET3_HUMAN	netrin 3 precursor	332	Laminin EGF-like 2.				axon guidance|muscle cell differentiation|positive regulation of muscle cell differentiation	proteinaceous extracellular matrix				central_nervous_system(1)	1						TGTCCGGCCGCCGCAGCGGGG	0.687													22	79	---	---	---	---	PASS	T	2522769	T	T	2522769	2	4	35	1	0	0	0	0	0	0	0	1	10701	726	26	3		3	NTN3	16	2522769	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	1487841	2522769	87831984	157	14102										
XYLT1	64131	broad.mit.edu	37	chr16	17202563	17202563	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgcccagtgctacctgagccGgccatcaggtttgactgccc	11	15	1	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr16:17202563G>T	uc002dfa.2	-	12	2954	c.2869C>A	c.(2869-2871)CGG>AGG	p.R957R		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	957	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						TACCTGAGCCGGCCATCAGGT	0.672													11	22	---	---	---	---	PASS	T	17202563	T	T	17202563	2	4	35	1	0	0	0	0	0	0	0	1	17460	1115	39	1		1	XYLT1	16	17202563	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	14679794	17202563	73152190	158	14103										
GPRC5B	51704	broad.mit.edu	37	chr16	19883337	19883337	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	acgaagacccagccgctggcCgccagcgtgatggccaaggt	14	14	0	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr16:19883337C>G	uc002dgt.2	-	2	939	c.831G>C	c.(829-831)GCG>GCC	p.A277A	GPRC5B_uc010vav.1_Silent_p.A303A	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	277	Helical; Name=7; (Potential).									lung(1)|breast(1)|skin(1)	3						AGCCGCTGGCCGCCAGCGTGA	0.612													32	26	---	---	---	---	PASS	G	19883337	G	G	19883337	2	3	35	1	0	0	0	0	0	0	0	1	6725	639	23	4		4	GPRC5B	16	19883337	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	2680774	19883337	70471416	159	14104										
SLC5A11	115584	broad.mit.edu	37	chr16	24921729	24921729	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ccctctctcagaacgggatgCcagaggccagcagcagcagc	12	15	2	2	rs148456649		TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr16:24921729C>A	uc002dmu.2	+	15	1985	c.1753C>A	c.(1753-1755)CCA>ACA	p.P585T	SLC5A11_uc002dms.2_Missense_Mutation_p.P521T|SLC5A11_uc010vcd.1_Missense_Mutation_p.P550T|SLC5A11_uc002dmt.2_Missense_Mutation_p.P429T|SLC5A11_uc010vce.1_Missense_Mutation_p.P515T|SLC5A11_uc010bxt.2_Missense_Mutation_p.P521T|SLC5A11_uc002dmv.2_Missense_Mutation_p.P208T	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	585	Cytoplasmic (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		GAACGGGATGCCAGAGGCCAG	0.552													44	43	---	---	---	---	PASS	A	24921729	A	A	24921729	3	1	35	1	0	0	0	0	1	0	0	0	14663	739	26	3	1807	3	SLC5A11	16	24921729	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	5038392	24921729	65433024	160	14105										
SEZ6L2	26470	broad.mit.edu	37	chr16	29891243	29891243	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gtgggatccacacattcgatGgcattggggggcccaggggg	18	9	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr16:29891243G>T	uc002duq.3	-	9	1755	c.1515C>A	c.(1513-1515)GCC>GCA	p.A505A	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Silent_p.A435A|SEZ6L2_uc002dur.3_Silent_p.A435A|SEZ6L2_uc002dus.3_Silent_p.A391A|SEZ6L2_uc010vec.1_Silent_p.A505A|SEZ6L2_uc010ved.1_Silent_p.A461A	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	505	Sushi 2.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						CACATTCGATGGCATTGGGGG	0.607													133	131	---	---	---	---	PASS	T	29891243	T	T	29891243	2	4	35	1	0	0	0	0	0	0	0	1	14144	1335	47	3		3	SEZ6L2	16	29891243	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	4969514	29891243	60463510	161	14106										
C16orf78	123970	broad.mit.edu	37	chr16	49430384	49430384	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agtccactcagcggccaaacCcattccgtcgacaaagcatt	7	15	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr16:49430384C>A	uc002efr.2	+	4	488	c.445C>A	c.(445-447)CCA>ACA	p.P149T		NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970	149										central_nervous_system(1)	1						GCGGCCAAACCCATTCCGTCG	0.498													63	50	---	---	---	---	PASS	A	49430384	A	A	49430384	3	1	35	1	0	0	0	0	1	0	0	0	1835	623	22	3	459	3	C16orf78	16	49430384	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	19539141	49430384	40924369	162	14107										
TMEM208	29100	broad.mit.edu	37	chr16	67262945	67262945	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cctggttcactgcagacagtGgcaccccagcaccagagcac	10	16	1	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr16:67262945G>T	uc002esi.2	+	6	557	c.451G>T	c.(451-453)GGC>TGC	p.G151C	LRRC29_uc002ese.2_5'Flank|LRRC29_uc002esf.2_5'Flank|LRRC29_uc002esg.2_5'Flank|LRRC29_uc010vjg.1_5'Flank|TMEM208_uc002esj.2_RNA	NM_014187	NP_054906	Q9BTX3	TM208_HUMAN	HSPC171 protein	151	Helical; (Potential).					integral to membrane					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		TGCAGACAGTGGCACCCCAGC	0.587													4	101	---	---	---	---	PASS	T	67262945	T	T	67262945	3	4	35	1	0	0	0	0	1	0	0	0	16130	1348	47	3	473	3	TMEM208	16	67262945	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	17832561	67262945	23091808	163	14108										
LDHD	197257	broad.mit.edu	37	chr16	75149143	75149143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cccggtgccggtgccgaatgGgatgatgggcacaccttggc	16	12	0	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr16:75149143G>T	uc002fdm.2	-	3	327	c.280C>A	c.(280-282)CCA>ACA	p.P94T	LDHD_uc002fdn.2_Missense_Mutation_p.P94T	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	94	FAD-binding PCMH-type.						D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						GTGCCGAATGGGATGATGGGC	0.657													40	122	---	---	---	---	PASS	T	75149143	T	T	75149143	3	4	35	1	0	0	0	0	1	0	0	0	8703	1232	43	3	1279	3	LDHD	16	75149143	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	7886198	75149143	15205610	164	14109										
TAF1C	9013	broad.mit.edu	37	chr16	84214991	84214991	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	acggtcagcacccgagggtgCgcagtgaagtctgcccaacg	14	13	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr16:84214991C>A	uc002fhn.2	-	10	1413	c.1185G>T	c.(1183-1185)GCG>GCT	p.A395A	TAF1C_uc002fhm.2_Silent_p.A302A|TAF1C_uc010vnx.1_Silent_p.A369A|TAF1C_uc010vny.1_5'UTR|TAF1C_uc010vnz.1_Silent_p.A63A|TAF1C_uc002fho.2_5'UTR|TAF1C_uc010voa.1_Silent_p.A63A|TAF1C_uc002fhp.1_Intron|TAF1C_uc010vob.1_3'UTR	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	395					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						CCCGAGGGTGCGCAGTGAAGT	0.662													16	9	---	---	---	---	PASS	A	84214991	A	A	84214991	2	1	35	1	0	0	0	0	0	0	0	1	15518	755	27	1		1	TAF1C	16	84214991	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	9065848	84214991	6139762	165	14110										
KIAA1609	57707	broad.mit.edu	37	chr16	84529384	84529384	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ggagtttcctttcaacaggtGggacatggatgctgtgaact	13	7	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr16:84529384G>A	uc002fib.2	-	3	396	c.289C>T	c.(289-291)CAC>TAC	p.H97Y	KIAA1609_uc010vod.1_Missense_Mutation_p.H70Y|KIAA1609_uc002fic.2_RNA	NM_020947	NP_065998	Q6P9B6	K1609_HUMAN	hypothetical protein LOC57707	97							protein binding			ovary(2)	2						TTCAACAGGTGGGACATGGAT	0.527													46	107	---	---	---	---	PASS	A	84529384	A	A	84529384	3	1	35	1	0	0	0	0	1	0	0	0	8247	1348	47	3	1105	3	KIAA1609	16	84529384	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	314393	84529384	5825369	166	14111										
DBNDD1	79007	broad.mit.edu	37	chr16	90075214	90075214	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gctggggactcggtgttgagGttctcgtcgtccgagtcagc	16	10	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr16:90075214G>C	uc002fqf.1	-	3	485	c.297C>G	c.(295-297)AAC>AAG	p.N99K	DBNDD1_uc002fqe.1_Missense_Mutation_p.N119K|DBNDD1_uc002fqg.1_RNA	NM_001042610	NP_001036075	Q9H9R9	DBND1_HUMAN	dysbindin (dystrobrevin binding protein 1)	99						cytoplasm					0		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0275)		CGGTGTTGAGGTTCTCGTCGT	0.647													13	19	---	---	---	---	PASS	C	90075214	C	C	90075214	3	2	35	1	0	0	0	0	1	0	0	0	4253	1252	44	4	187	4	DBNDD1	16	90075214	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	5545830	90075214	279539	167	14112										
ABR	29	broad.mit.edu	37	chr17	910480	910480	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctctccacttctgagggtctCagtaacgtgggtccaaacac	9	13	3	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:910480C>A	uc002fsd.2	-	22	2525	c.2415G>T	c.(2413-2415)CTG>CTT	p.L805L	ABR_uc002fse.2_Silent_p.L759L|ABR_uc010vqf.1_Silent_p.L256L|ABR_uc010vqg.1_Silent_p.L587L|ABR_uc002fsg.2_Silent_p.L768L|ABR_uc002fsf.2_Silent_p.L342L	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	805	Rho-GAP.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		CTGAGGGTCTCAGTAACGTGG	0.577													4	69	---	---	---	---	PASS	A	910480	A	A	910480	2	1	35	1	0	0	0	0	0	0	0	1	99	813	29	2		2	ABR	17	910480	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08		910480	80284730	168	14113										
TP53	7157	broad.mit.edu	37	chr17	7579527	7579542	+	Frame_Shift_Del	DEL	ACCATTGTTCAATATC	-	-													0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tggacctgggtcttcagtgaAccattgttcaatatcgtccg							TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:7579527_7579542delACCATTGTTCAATATC	uc002gim.2	-	4	339_354	c.145_160delGATATTGAACAATGGT	c.(145-162)GATATTGAACAATGGTTCfs	p.D49fs	TP53_uc002gig.1_Frame_Shift_Del_p.D49fs|TP53_uc002gih.2_Frame_Shift_Del_p.D49fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Frame_Shift_Del_p.D49fs|TP53_uc010cni.1_Frame_Shift_Del_p.D49fs|TP53_uc002gij.2_Frame_Shift_Del_p.D49fs|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Frame_Shift_Del_p.D10fs|TP53_uc010cnk.1_Frame_Shift_Del_p.D64fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	49_54	TADII.|Interaction with HRMT1L2.		F -> Y (in a sporadic cancer; somatic mutation).|F -> L (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.W53*(10)|p.0?(7)|p.E51*(6)|p.Q52*(6)|p.D49H(4)|p.D49Y(2)|p.W53C(2)|p.Q52H(1)|p.Q52>P*(1)|p.I50fs*4(1)|p.I50fs*1(1)|p.E51fs*72(1)|p.E51fs*59(1)|p.D48fs*55(1)|p.E51_Q52insX(1)|p.E51E(1)|p.S33fs*23(1)|p.Q52fs*6(1)|p.P13fs*18(1)|p.F54fs*69(1)|p.Q52fs*67(1)|p.F54fs*3(1)|p.S46_D49delSPDD(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)		TCTTCAGTGAACCATTGTTCAATATCGTCCGGGGAC	0.56		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)			72	68	---	---	---	---		-	7579542	-	-	7579527	7	5	35	1	0	1	0	1	0	0	0	0	16378	43	2	0	1142	0	TP53	17	7579527	Frame_Shift_Del	DEL	ACCATTGTTCAATATC	TCGA-22-4593-01A-21D-1817-08	6669047	7579527	73615683	169	14114										
MYOCD	93649	broad.mit.edu	37	chr17	12656496	12656496	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tttcttccacatttctcagcCcccagtgttcccctcagcat	4	17	3	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:12656496C>A	uc002gnn.2	+	10	2190	c.1891C>A	c.(1891-1893)CCC>ACC	p.P631T	MYOCD_uc002gno.2_Missense_Mutation_p.P631T|MYOCD_uc002gnp.1_Missense_Mutation_p.P535T|MYOCD_uc002gnq.2_Missense_Mutation_p.P350T	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	631					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		ATTTCTCAGCCCCCAGTGTTC	0.537													45	159	---	---	---	---	PASS	A	12656496	A	A	12656496	3	1	35	1	0	0	0	0	1	0	0	0	10087	623	22	3	1929	3	MYOCD	17	12656496	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	5076969	12656496	68538714	170	14115										
COPS3	8533	broad.mit.edu	37	chr17	17158245	17158245	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cttgccatatcttgtaatgaTagagttaaaaaggtctgaaa	8	5	2	3	rs141030201	by1000genomes	TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:17158245T>C	uc002grd.2	-	9	1042	c.951A>G	c.(949-951)CTA>CTG	p.L317L	COPS3_uc010vwv.1_Silent_p.L297L|COPS3_uc010vww.1_Silent_p.L187L	NM_003653	NP_003644	Q9UNS2	CSN3_HUMAN	COP9 constitutive photomorphogenic homolog	317	PCI.				cullin deneddylation|response to light stimulus|signal transduction	cytoplasm|signalosome	protein binding			skin(1)	1						CTTGTAATGATAGAGTTAAAA	0.363													22	60	---	---	---	---	PASS	C	17158245	C	C	17158245	2	2	35	1	0	0	0	0	0	0	0	1	3734	1393	49	5		5	COPS3	17	17158245	Silent	SNP	T	TCGA-22-4593-01A-21D-1817-08	4501749	17158245	64036965	171	14116										
EFCAB5	374786	broad.mit.edu	37	chr17	28296243	28296243	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctgatactccaagcaagtttGacccaattaattatttgggg	8	8	0	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:28296243G>C	uc002het.2	+	4	817	c.625G>C	c.(625-627)GAC>CAC	p.D209H	EFCAB5_uc010wbi.1_Intron|EFCAB5_uc010wbj.1_Missense_Mutation_p.D153H|EFCAB5_uc010wbk.1_Intron|EFCAB5_uc010csd.2_RNA|EFCAB5_uc010cse.2_Missense_Mutation_p.D88H|EFCAB5_uc010csf.2_Missense_Mutation_p.D88H	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	209							calcium ion binding			ovary(1)|skin(1)	2						AAGCAAGTTTGACCCAATTAA	0.363													38	52	---	---	---	---	PASS	C	28296243	C	C	28296243	3	2	35	1	0	0	0	0	1	0	0	0	4938	1290	45	2	639	2	EFCAB5	17	28296243	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	11137998	28296243	52898967	172	14117										
SLFN11	91607	broad.mit.edu	37	chr17	33690031	33690031	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ccttctcaaagagtcagggtCaacattttcttttgcacatc	6	11	4	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:33690031C>T	uc010ctp.2	-	4	1238	c.796G>A	c.(796-798)GAC>AAC	p.D266N	SLFN11_uc010ctq.2_Missense_Mutation_p.D266N|SLFN11_uc002hjh.3_Missense_Mutation_p.D266N|SLFN11_uc002hjg.3_Missense_Mutation_p.D266N|SLFN11_uc010ctr.2_Missense_Mutation_p.D266N	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	266						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GAGTCAGGGTCAACATTTTCT	0.418													79	104	---	---	---	---	PASS	T	33690031	T	T	33690031	3	4	35	1	0	0	0	0	1	0	0	0	14733	826	29	2	1925	2	SLFN11	17	33690031	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	5393788	33690031	47505179	173	14118										
KRTAP4-2	85291	broad.mit.edu	37	chr17	39334259	39334259	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aggtgggctggcagcacacaGactggcagcactgcggtctg	16	11	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:39334259G>C	uc002hwd.2	-	1	202	c.158C>G	c.(157-159)TCT>TGT	p.S53C		NM_033062	NP_149051	Q9BYR5	KRA42_HUMAN	keratin associated protein 4-2	53	20 X 5 AA repeats OF C-C-[GRQVS]-[SPT]- [VSTQ].|8.					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			GCAGCACACAGACTGGCAGCA	0.672													3	117	---	---	---	---	PASS	C	39334259	C	C	39334259	3	2	35	1	0	0	0	0	1	0	0	0	8551	942	33	2	256	2	KRTAP4-2	17	39334259	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	5644228	39334259	41860951	174	14119										
WNK4	65266	broad.mit.edu	37	chr17	40937356	40937356	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gtgcacgtggaactagcggaGgaggacgacggcgagaagcc	18	9	0	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:40937356G>T	uc002ibj.2	+	6	1353	c.1332G>T	c.(1330-1332)GAG>GAT	p.E444D	WNK4_uc010wgx.1_Missense_Mutation_p.E108D|WNK4_uc002ibk.1_Missense_Mutation_p.E216D|WNK4_uc010wgy.1_Translation_Start_Site	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	444					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		AACTAGCGGAGGAGGACGACG	0.582													6	13	---	---	---	---	PASS	T	40937356	T	T	40937356	3	4	35	1	0	0	0	0	1	0	0	0	17377	991	35	3	1354	3	WNK4	17	40937356	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	1603097	40937356	40257854	175	14120										
ASB16	92591	broad.mit.edu	37	chr17	42248258	42248258	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ccggcggcgggcggctgcccAgcagtgccggagccgcaggt	19	15	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:42248258A>T	uc002ifl.1	+	1	185	c.101A>T	c.(100-102)CAG>CTG	p.Q34L	ASB16_uc002ifm.1_RNA	NM_080863	NP_543139	Q96NS5	ASB16_HUMAN	ankyrin repeat and SOCS box-containing protein	34					intracellular signal transduction		protein binding			kidney(2)	2		Breast(137;0.00765)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.114)		GCGGCTGCCCAGCAGTGCCGG	0.682													8	24	---	---	---	---	PASS	T	42248258	T	T	42248258	3	4	35	1	0	0	0	0	1	0	0	0	1020	188	7	5	103	5	ASB16	17	42248258	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	1310902	42248258	38946952	176	14121										
CRHR1	1394	broad.mit.edu	37	chr17	43893891	43893891	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ggccccgcagccctgcggggCagctagtggttcggccctgc	16	16	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:43893891C>A	uc010dap.2	+	3	449	c.184C>A	c.(184-186)CAG>AAG	p.Q62K	CRHR1_uc010wjx.1_5'UTR|CRHR1_uc002ijp.2_5'UTR|CRHR1_uc002ijm.2_Missense_Mutation_p.Q62K|CRHR1_uc002ijn.2_Intron|CRHR1_uc010dar.2_Missense_Mutation_p.Q62K|CRHR1_uc010dao.2_5'UTR|CRHR1_uc010daq.2_5'UTR|CRHR1_uc010das.1_RNA|CRHR1_uc002ijo.1_Intron	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	62	Extracellular (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		CCCTGCGGGGCAGCTAGTGGT	0.602													32	15	---	---	---	---	PASS	A	43893891	A	A	43893891	3	1	35	1	0	0	0	0	1	0	0	0	3871	711	25	3	194	3	CRHR1	17	43893891	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	1645633	43893891	37301319	177	14122										
MRC2	9902	broad.mit.edu	37	chr17	60768056	60768056	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tggagaatgtgtttgtctggGagcacctgcagagctatgag	15	6	1	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:60768056G>A	uc002jad.2	+	27	4348	c.3946G>A	c.(3946-3948)GAG>AAG	p.E1316K	MRC2_uc002jae.2_Missense_Mutation_p.E387K|MRC2_uc002jaf.2_Missense_Mutation_p.E182K	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	1316	Extracellular (Potential).|C-type lectin 8.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GTTTGTCTGGGAGCACCTGCA	0.627													27	76	---	---	---	---	PASS	A	60768056	A	A	60768056	3	1	35	1	0	0	0	0	1	0	0	0	9758	1175	41	2	4052	2	MRC2	17	60768056	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	16874165	60768056	20427154	178	14123										
ACE	1636	broad.mit.edu	37	chr17	61554676	61554676	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cagctgggcgcacgacaccaAcatcaccgcggagaatgcaa	11	14	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:61554676A>C	uc002jau.1	+	1	243	c.221A>C	c.(220-222)AAC>ACC	p.N74T	ACE_uc010wph.1_Missense_Mutation_p.N74T|ACE_uc010wpi.1_Missense_Mutation_p.N74T|ACE_uc010ddu.1_5'UTR	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	74	Extracellular (Potential).|Peptidase M2 1.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	CACGACACCAACATCACCGCG	0.522													5	6	---	---	---	---	PASS	C	61554676	C	C	61554676	3	2	35	1	0	0	0	0	1	0	0	0	136	43	2	5	223	5	ACE	17	61554676	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	786620	61554676	19640534	179	14124										
DDX42	11325	broad.mit.edu	37	chr17	61895543	61895543	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agaacagacatggaggaagcGcaggccggcatggggagaac	17	8	0	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:61895543G>A	uc002jbu.2	+	19	2859	c.2602G>A	c.(2602-2604)GCA>ACA	p.A868T	DDX42_uc002jbv.2_Missense_Mutation_p.A868T|DDX42_uc002jbx.2_Missense_Mutation_p.A604T|DDX42_uc002jby.2_Missense_Mutation_p.A414T|DDX42_uc010wps.1_Missense_Mutation_p.A236T	NM_007372	NP_031398	Q86XP3	DDX42_HUMAN	DEAD box polypeptide 42 protein	868	Gly-rich.|His-rich.				protein localization|regulation of anti-apoptosis	Cajal body|cytoplasm|nuclear speck	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)|large_intestine(1)	5						TGGAGGAAGCGCAGGCCGGCA	0.567													34	132	---	---	---	---	PASS	A	61895543	A	A	61895543	3	1	35	1	0	0	0	0	1	0	0	0	4362	1087	38	1	2668	1	DDX42	17	61895543	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	340867	61895543	19299667	180	14125										
ST6GALNAC1	55808	broad.mit.edu	37	chr17	74625591	74625591	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgtgtggggcaccttgtcctGctcctccggcggtgcctggt	15	13	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:74625591G>T	uc002jsh.2	-	2	508	c.334C>A	c.(334-336)CAG>AAG	p.Q112K	ST6GALNAC1_uc002jsi.2_5'UTR|ST6GALNAC1_uc002jsj.2_RNA	NM_018414	NP_060884	Q9NSC7	SIA7A_HUMAN	sialyltransferase 7A	112	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity				0						ACCTTGTCCTGCTCCTCCGGC	0.592													82	55	---	---	---	---	PASS	T	74625591	T	T	74625591	3	4	35	1	0	0	0	0	1	0	0	0	15222	1328	46	3	1500	3	ST6GALNAC1	17	74625591	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	12730048	74625591	6569619	181	14126										
CANT1	124583	broad.mit.edu	37	chr17	76989736	76989736	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gatgtaggaggcgactctgcCgctgtcctcctcggatttga	13	11	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:76989736C>T	uc002jwn.2	-	6	1541	c.1102G>A	c.(1102-1104)GGC>AGC	p.G368S	CANT1_uc002jwk.2_Missense_Mutation_p.G368S|CANT1_uc002jwj.2_Missense_Mutation_p.G368S|CANT1_uc002jwl.2_Intron|CANT1_uc002jwm.1_RNA	NM_001159772	NP_001153244	Q8WVQ1	CANT1_HUMAN	calcium activated nucleotidase 1	368	Lumenal (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to membrane	calcium ion binding|nucleoside-diphosphatase activity|signal transducer activity				0			BRCA - Breast invasive adenocarcinoma(99;0.0362)|OV - Ovarian serous cystadenocarcinoma(97;0.139)			GCGACTCTGCCGCTGTCCTCC	0.592			T	ETV4	prostate						OREG0024788	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	74	---	---	---	---	PASS	T	76989736	T	T	76989736	3	4	35	1	0	0	0	0	1	0	0	0	2617	652	23	1	107	1	CANT1	17	76989736	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	2364145	76989736	4205474	182	14127										
ENPP7	339221	broad.mit.edu	37	chr17	77708963	77708963	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aaatgagacggagtggagagCgaacatcgacacagtgatgg	15	6	0	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr17:77708963C>T	uc002jxa.2	+	3	541	c.521C>T	c.(520-522)GCG>GTG	p.A174V		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	174					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			GAGTGGAGAGCGAACATCGAC	0.602													16	61	---	---	---	---	PASS	T	77708963	T	T	77708963	3	4	35	1	0	0	0	0	1	0	0	0	5135	768	27	1	531	1	ENPP7	17	77708963	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	719227	77708963	3486247	183	14128										
CETN1	1068	broad.mit.edu	37	chr18	580495	580495	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cccgagctcactgaggatcaGaagcaagaagttcgggaagc	13	10	2	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr18:580495G>C	uc002kko.1	+	1	129	c.87G>C	c.(85-87)CAG>CAC	p.Q29H		NM_004066	NP_004057	Q12798	CETN1_HUMAN	centrin 1	29	EF-hand 1.				cell division|mitosis	spindle pole	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTGAGGATCAGAAGCAAGAAG	0.602													19	17	---	---	---	---	PASS	C	580495	C	C	580495	3	2	35	1	0	0	0	0	1	0	0	0	3274	933	33	2	89	2	CETN1	18	580495	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08		580495	77496753	184	14129										
DLGAP1	9229	broad.mit.edu	37	chr18	3879841	3879841	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tccttcagctcttgctgcgaGgtgtagtgcctgcgggggaa	15	10	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr18:3879841G>T	uc002kmf.2	-	1	295	c.228C>A	c.(226-228)ACC>ACA	p.T76T	DLGAP1_uc010wyz.1_Silent_p.T76T|DLGAP1_uc002kmk.2_Silent_p.T76T|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	76					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				CTTGCTGCGAGGTGTAGTGCC	0.672													60	50	---	---	---	---	PASS	T	3879841	T	T	3879841	2	4	35	1	0	0	0	0	0	0	0	1	4559	987	35	3		3	DLGAP1	18	3879841	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	3299346	3879841	74197407	185	14130										
SALL3	27164	broad.mit.edu	37	chr18	76753467	76753467	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gagtacctggacaacgtgccCacctgctcgggcatccccta	10	16	0	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr18:76753467C>T	uc002lmt.2	+	2	1476	c.1476C>T	c.(1474-1476)CCC>CCT	p.P492P	SALL3_uc010dra.2_Silent_p.P99P	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	492					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		ACAACGTGCCCACCTGCTCGG	0.647													9	23	---	---	---	---	PASS	T	76753467	T	T	76753467	2	4	35	1	0	0	0	0	0	0	0	1	13812	581	21	3		3	SALL3	18	76753467	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	72873626	76753467	1323781	186	14131										
DAPK3	1613	broad.mit.edu	37	chr19	3959564	3959564	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	atggtgtactccttcagacgCgtggtcttcaggcgccgccg	13	13	3	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:3959564C>T	uc002lzc.1	-	8	993	c.900G>A	c.(898-900)ACG>ACA	p.T300T	DAPK3_uc002lzb.1_Silent_p.T37T|DAPK3_uc002lzd.1_Silent_p.T300T	NM_001348	NP_001339	O43293	DAPK3_HUMAN	death-associated protein kinase 3	300					apoptosis|chromatin modification|induction of apoptosis|intracellular protein kinase cascade	cytoplasm|PML body	ATP binding|leucine zipper domain binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|ovary(1)|large_intestine(1)	7		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTTCAGACGCGTGGTCTTCA	0.672													15	7	---	---	---	---	PASS	T	3959564	T	T	3959564	2	4	35	1	0	0	0	0	0	0	0	1	4237	755	27	1		1	DAPK3	19	3959564	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08		3959564	55169419	187	14132										
INSR	3643	broad.mit.edu	37	chr19	7125332	7125332	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gcccttcatgaccgaggcctCattgaggaactcaatccgct	9	14	3	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:7125332C>A	uc002mgd.1	-	17	3329	c.3220G>T	c.(3220-3222)GAG>TAG	p.E1074*	INSR_uc002mge.1_Nonsense_Mutation_p.E1062*	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	1074	Protein kinase.|Cytoplasmic (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ACCGAGGCCTCATTGAGGAAC	0.597													34	46	---	---	---	---	PASS	A	7125332	A	A	7125332	4	1	35	1	0	0	0	0	0	1	0	0	7773	835	29	2	952	2	INSR	19	7125332	Nonsense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	3165768	7125332	52003651	188	14133										
FBN3	84467	broad.mit.edu	37	chr19	8174625	8174625	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgcagtttactgggtctgcaCactcgttgatgtctgtaggg	13	8	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:8174625C>G	uc002mjf.2	-	34	4367	c.4346G>C	c.(4345-4347)TGT>TCT	p.C1449S		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1449	EGF-like 23; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						TGGGTCTGCACACTCGTTGAT	0.617													79	91	---	---	---	---	PASS	G	8174625	G	G	8174625	3	3	35	1	0	0	0	0	1	0	0	0	5704	478	17	4	4203	4	FBN3	19	8174625	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	1049293	8174625	50954358	189	14134										
ADAMTS10	81794	broad.mit.edu	37	chr19	8657685	8657685	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cgtctggcacagcgtgccctCggcggccgggatgctgttgg	17	13	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:8657685C>T	uc002mkj.1	-	13	1823	c.1549G>A	c.(1549-1551)GAG>AAG	p.E517K	ADAMTS10_uc002mki.1_5'Flank|ADAMTS10_uc002mkk.1_Missense_Mutation_p.E149K	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	517	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						AGCGTGCCCTCGGCGGCCGGG	0.711													23	45	---	---	---	---	PASS	T	8657685	T	T	8657685	3	4	35	1	0	0	0	0	1	0	0	0	256	893	31	2	1818	2	ADAMTS10	19	8657685	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	483060	8657685	50471298	190	14135										
OR1M1	125963	broad.mit.edu	37	chr19	9204359	9204359	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tctgtcgcctgctggtcggcGccctctgggcgttttcctgc	13	15	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:9204359G>A	uc010xkj.1	+	1	439	c.439G>A	c.(439-441)GCC>ACC	p.A147T		NM_001004456	NP_001004456	Q8NGA1	OR1M1_HUMAN	olfactory receptor, family 1, subfamily M,	147	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3						GCTGGTCGGCGCCCTCTGGGC	0.577													35	106	---	---	---	---	PASS	A	9204359	A	A	9204359	3	1	35	1	0	0	0	0	1	0	0	0	10968	1087	38	1	441	1	OR1M1	19	9204359	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	546674	9204359	49924624	191	14136										
ILF3	3609	broad.mit.edu	37	chr19	10791697	10791697	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cctcttccccttctccagcaCgcactgcggctcgctgcctt	7	20	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:10791697C>T	uc002mpn.2	+	10	1277	c.960C>T	c.(958-960)CAC>CAT	p.H320H	ILF3_uc002mpm.2_Silent_p.H320H|ILF3_uc002mpl.2_Silent_p.H320H|ILF3_uc002mpk.2_Silent_p.H320H|ILF3_uc010xli.1_Intron|ILF3_uc002mpo.2_Silent_p.H320H|ILF3_uc002mpp.2_Silent_p.H141H	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	320	DZF.				M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			TTCTCCAGCACGCACTGCGGC	0.592													16	61	---	---	---	---	PASS	T	10791697	T	T	10791697	2	4	35	1	0	0	0	0	0	0	0	1	7712	535	19	1		1	ILF3	19	10791697	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	1587338	10791697	48337286	192	14137										
ZNF676	163223	broad.mit.edu	37	chr19	22363521	22363521	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cacatttgtagggtttctctCcagcatgaattctcttgtgt	8	9	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:22363521C>A	uc002nqs.1	-	3	1316	c.998G>T	c.(997-999)GGA>GTA	p.G333V		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	333					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				GGGTTTCTCTCCAGCATGAAT	0.403													8	102	---	---	---	---	PASS	A	22363521	A	A	22363521	3	1	35	1	0	0	0	0	1	0	0	0	18080	855	30	2	772	2	ZNF676	19	22363521	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	11571824	22363521	36765462	193	14138										
ZNF492	57615	broad.mit.edu	37	chr19	22847660	22847660	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agaagccctacaaatgtgaaGaatgtggcaaagcttttaac	9	7	0	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:22847660G>C	uc002nqw.3	+	4	1433	c.1189G>C	c.(1189-1191)GAA>CAA	p.E397Q		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	397	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				CAAATGTGAAGAATGTGGCAA	0.378													16	60	---	---	---	---	PASS	C	22847660	C	C	22847660	3	2	35	1	0	0	0	0	1	0	0	0	17940	943	33	2	1199	2	ZNF492	19	22847660	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	484139	22847660	36281323	194	14139										
ZNF492	57615	broad.mit.edu	37	chr19	22847933	22847933	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aatgtggcaaagcctttaacAactcctctattcttaacaga	5	10	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:22847933A>T	uc002nqw.3	+	4	1706	c.1462A>T	c.(1462-1464)AAC>TAC	p.N488Y		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	488	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				AGCCTTTAACAACTCCTCTAT	0.378													20	15	---	---	---	---	PASS	T	22847933	T	T	22847933	3	4	35	1	0	0	0	0	1	0	0	0	17940	130	5	5	1472	5	ZNF492	19	22847933	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	273	22847933	36281050	195	14140										
ZNF99	7652	broad.mit.edu	37	chr19	22940298	22940298	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	atgaattatctcatgttttcTaagggttgaggaattgttaa	9	3	2	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:22940298T>C	uc010xrh.1	-	5	2140	c.2140A>G	c.(2140-2142)AGA>GGA	p.R714G		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)				TCATGTTTTCTAAGGGTTGAG	0.338													14	41	---	---	---	---	PASS	C	22940298	C	C	22940298	3	2	35	1	0	0	0	0	1	0	0	0	18201	1530	53	5	984	5	ZNF99	19	22940298	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08	92365	22940298	36188685	196	14141										
C19orf2	8725	broad.mit.edu	37	chr19	30500174	30500174	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	acgacaacattgacgacgatGatggtgataacgaccatgag	11	8	0	4			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:30500174G>A	uc002nsr.2	+	8	979	c.949G>A	c.(949-951)GAT>AAT	p.D317N	C19orf2_uc002nsq.2_Missense_Mutation_p.D299N|C19orf2_uc002nss.2_Missense_Mutation_p.D277N|C19orf2_uc002nst.2_Missense_Mutation_p.D241N	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	317	Poly-Asp.				protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		tgacgacgatgatggtgataa	0.249													8	694	---	---	---	---	PASS	A	30500174	A	A	30500174	3	1	35	1	0	0	0	0	1	0	0	0	1911	1290	45	2	979	2	C19orf2	19	30500174	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	7559876	30500174	28628809	197	14142										
RYR1	6261	broad.mit.edu	37	chr19	39062862	39062862	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctgcggtgtctgagcctcctGcatacactggtggcctttct	11	13	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:39062862G>A	uc002oit.2	+	95	14080	c.13950G>A	c.(13948-13950)CTG>CTA	p.L4650L	RYR1_uc002oiu.2_Silent_p.L4645L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4650	Helical; Name=M6; (Potential).		L -> P (in CCD; autosomal recessive form).		muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TGAGCCTCCTGCATACACTGG	0.463													31	99	---	---	---	---	PASS	A	39062862	A	A	39062862	2	1	35	1	0	0	0	0	0	0	0	1	13768	1306	46	3		3	RYR1	19	39062862	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	8562688	39062862	20066121	198	14143										
RASIP1	54922	broad.mit.edu	37	chr19	49225237	49225237	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ggtcaaggtggggtggtcggTtcttaggctgctccatgaag	17	7	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:49225237T>A	uc002pki.2	-	11	2763	c.2566A>T	c.(2566-2568)ACC>TCC	p.T856S	MAMSTR_uc002pkg.2_5'Flank|RASIP1_uc002pkh.2_Missense_Mutation_p.T117S	NM_017805	NP_060275	Q5U651	RAIN_HUMAN	Ras-interacting protein 1	856	Dilute.				signal transduction	Golgi stack|perinuclear region of cytoplasm				pancreas(1)	1		all_lung(116;4.89e-06)|all_epithelial(76;7.04e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;9.98e-05)|all cancers(93;0.000272)|Epithelial(262;0.0155)|GBM - Glioblastoma multiforme(486;0.0222)		GGGTGGTCGGTTCTTAGGCTG	0.627													17	53	---	---	---	---	PASS	A	49225237	A	A	49225237	3	1	35	1	0	0	0	0	1	0	0	0	13078	1725	60	5	333	5	RASIP1	19	49225237	Missense_Mutation	SNP	T	TCGA-22-4593-01A-21D-1817-08	10162375	49225237	9903746	199	14144										
SIGLEC9	27180	broad.mit.edu	37	chr19	51628378	51628378	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ttctcctacccctcgcatggCtggatttaccctggcccagt	8	16	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:51628378C>A	uc002pvu.2	+	1	214	c.147C>A	c.(145-147)GGC>GGA	p.G49G	SIGLEC9_uc010yct.1_Silent_p.G49G	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	49	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		CCTCGCATGGCTGGATTTACC	0.577													17	50	---	---	---	---	PASS	A	51628378	A	A	51628378	2	1	35	1	0	0	0	0	0	0	0	1	14315	784	28	3		3	SIGLEC9	19	51628378	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	2403141	51628378	7500605	200	14145										
ZNF534	147658	broad.mit.edu	37	chr19	52941348	52941348	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agtaatccacattgcagataAaacttacaaatgtagtgact	6	7	0	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:52941348A>C	uc002pzk.2	+	4	735	c.674A>C	c.(673-675)AAA>ACA	p.K225T	ZNF534_uc002pzj.1_Intron|ZNF534_uc010epo.1_Intron|ZNF534_uc002pzl.2_Missense_Mutation_p.K212T	NM_001143939	NP_001137411	Q76KX8	ZN534_HUMAN	zinc finger protein 534 isoform 2	225					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATTGCAGATAAAACTTACAAA	0.383													23	75	---	---	---	---	PASS	C	52941348	C	C	52941348	3	2	35	1	0	0	0	0	1	0	0	0	17970	14	1	5	688	5	ZNF534	19	52941348	Missense_Mutation	SNP	A	TCGA-22-4593-01A-21D-1817-08	1312970	52941348	6187635	201	14146										
ZNF808	388558	broad.mit.edu	37	chr19	53057259	53057259	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	acctttcacgccatcaaagaCttcatactggagtgaaacct	6	12	3	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:53057259C>T	uc010epq.1	+	5	1267	c.1090C>T	c.(1090-1092)CTT>TTT	p.L364F	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	364	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		CCATCAAAGACTTCATACTGG	0.378													28	93	---	---	---	---	PASS	T	53057259	T	T	53057259	3	4	35	1	0	0	0	0	1	0	0	0	18170	565	20	3	1100	3	ZNF808	19	53057259	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	115911	53057259	6071724	202	14147										
ZNF160	90338	broad.mit.edu	37	chr19	53572222	53572222	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	cctgatgggtagtcagacttGaacgaacactgaaggctttc	11	9	1	4			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:53572222G>C	uc010eqk.2	-	7	1981	c.1565C>G	c.(1564-1566)TCA>TGA	p.S522*	ZNF160_uc002qaq.3_Nonsense_Mutation_p.S522*|ZNF160_uc002qar.3_Nonsense_Mutation_p.S522*	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	522	C2H2-type 10.				hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		AGTCAGACTTGAACGAACACT	0.393													3	103	---	---	---	---	PASS	C	53572222	C	C	53572222	4	2	35	1	0	0	0	0	0	1	0	0	17736	1294	45	2	895	2	ZNF160	19	53572222	Nonsense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	514963	53572222	5556761	203	14148										
PEG3	5178	broad.mit.edu	37	chr19	57325529	57325529	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ccaatgggctctgcagcctcTccatctggcccttcagcctc	8	18	4	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr19:57325529T>C	uc002qnu.2	-	7	4632	c.4281A>G	c.(4279-4281)GGA>GGG	p.G1427G	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.G1398G|PEG3_uc002qnv.2_Silent_p.G1427G|PEG3_uc002qnw.2_Silent_p.G1303G|PEG3_uc002qnx.2_Silent_p.G1301G|PEG3_uc010etr.2_Silent_p.G1427G	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1427	1-2.|Glu-rich.|4 X 5 AA repeat of P-X-G-E-A.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CTGCAGCCTCTCCATCTGGCC	0.602													3	105	---	---	---	---	PASS	C	57325529	C	C	57325529	2	2	35	1	0	0	0	0	0	0	0	1	11720	1538	54	5		5	PEG3	19	57325529	Silent	SNP	T	TCGA-22-4593-01A-21D-1817-08	3753307	57325529	1803454	204	14149										
PLK1S1	55857	broad.mit.edu	37	chr20	21142527	21142527	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgcaggttgcagtgcacgagGggattaactcaggaacagcc	14	9	1	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr20:21142527G>C	uc002wsb.2	+	5	554	c.421G>C	c.(421-423)GGG>CGG	p.G141R	PLK1S1_uc010zsh.1_Missense_Mutation_p.G38R|PLK1S1_uc010zsi.1_Missense_Mutation_p.G8R|PLK1S1_uc010zsj.1_RNA|uc002wsc.2_Intron|PLK1S1_uc002wsd.2_RNA	NM_018474	NP_060944	Q2M2Z5	KIZ_HUMAN	polo-like kinase 1 substrate 1 isoform 1	141					spindle organization	centrosome	protein kinase binding				0						AGTGCACGAGGGGATTAACTC	0.408													17	26	---	---	---	---	PASS	C	21142527	C	C	21142527	3	2	35	1	0	0	0	0	1	0	0	0	12095	1232	43	4	439	4	PLK1S1	20	21142527	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08		21142527	41882993	205	14150										
C20orf186	149954	broad.mit.edu	37	chr20	31672750	31672750	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgtccgtgcggctcctgcccGgcgtgggtgtctacctgagc	15	14	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr20:31672750G>T	uc010zue.1	+	4	745	c.730G>T	c.(730-732)GGC>TGC	p.G244C		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	244						cytoplasm|extracellular region	lipid binding				0						GCTCCTGCCCGGCGTGGGTGT	0.667													19	36	---	---	---	---	PASS	T	31672750	T	T	31672750	3	4	35	1	0	0	0	0	1	0	0	0	2098	1116	39	1	744	1	C20orf186	20	31672750	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	10530223	31672750	31352770	206	14151										
C20orf117	140710	broad.mit.edu	37	chr20	35444582	35444582	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctgtccaggtccccatagagCgagcggtacttcagcagctc	11	14	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr20:35444582C>T	uc002xgd.1	-	5	876	c.549G>A	c.(547-549)TCG>TCA	p.S183S	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	183											0		Myeloproliferative disorder(115;0.00874)				CCCCATAGAGCGAGCGGTACT	0.602													26	152	---	---	---	---	PASS	T	35444582	T	T	35444582	2	4	35	1	0	0	0	0	0	0	0	1	2083	755	27	1		1	C20orf117	20	35444582	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	3771832	35444582	27580938	207	14152										
ZNFX1	57169	broad.mit.edu	37	chr20	47880003	47880003	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgaagctcttgctctgactcCttcatctgtgtcatgatctt	7	11	6	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr20:47880003C>T	uc002xui.2	-	6	2416	c.2169G>A	c.(2167-2169)AAG>AAA	p.K723K		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	723							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GCTCTGACTCCTTCATCTGTG	0.498													9	15	---	---	---	---	PASS	T	47880003	T	T	47880003	2	4	35	1	0	0	0	0	0	0	0	1	18202	680	24	3		3	ZNFX1	20	47880003	Silent	SNP	C	TCGA-22-4593-01A-21D-1817-08	12435421	47880003	15145517	208	14153										
BCAS1	8537	broad.mit.edu	37	chr20	52645146	52645146	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ctcaggtgggagaagcgtggGatccctggcggcagagagga	19	8	1	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr20:52645146G>A	uc002xws.2	-	4	846	c.508C>T	c.(508-510)CCC>TCC	p.P170S	BCAS1_uc010zzb.1_Missense_Mutation_p.P73S|BCAS1_uc010gim.2_Missense_Mutation_p.P73S|BCAS1_uc002xwt.2_Missense_Mutation_p.P170S|BCAS1_uc010gil.1_Missense_Mutation_p.P170S|BCAS1_uc010zzc.1_Missense_Mutation_p.P73S	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	170						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			AGAAGCGTGGGATCCCTGGCG	0.612													35	215	---	---	---	---	PASS	A	52645146	A	A	52645146	3	1	35	1	0	0	0	0	1	0	0	0	1350	1174	41	2	1282	2	BCAS1	20	52645146	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	4765143	52645146	10380374	209	14154										
SYCP2	10388	broad.mit.edu	37	chr20	58440891	58440891	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tcgcttttttgatatgcactGaacttctgaaatatcttttc	5	8	2	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr20:58440891G>A	uc002yaz.2	-	41	4489	c.4350C>T	c.(4348-4350)TTC>TTT	p.F1450F		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	1450					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			GATATGCACTGAACTTCTGAA	0.204													5	40	---	---	---	---	PASS	A	58440891	A	A	58440891	2	1	35	1	0	0	0	0	0	0	0	1	15429	1281	45	2		2	SYCP2	20	58440891	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	5795745	58440891	4584629	210	14155										
PRIC285	85441	broad.mit.edu	37	chr20	62196906	62196906	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	tgtccagcagcccgtcctccCcgacggtcaccatcaccttc	7	20	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr20:62196906C>T	uc002yfm.2	-	9	4161	c.3269G>A	c.(3268-3270)GGG>GAG	p.G1090E	PRIC285_uc002yfl.1_Missense_Mutation_p.G521E	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1090					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CCCGTCCTCCCCGACGGTCAC	0.677													12	42	---	---	---	---	PASS	T	62196906	T	T	62196906	3	4	35	1	0	0	0	0	1	0	0	0	12485	623	22	3	4728	3	PRIC285	20	62196906	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	3756015	62196906	828614	211	14156										
DSCAM	1826	broad.mit.edu	37	chr21	41725408	41725408	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	ttacgtttcacgtacaggcgGcctatcaccttagcagttcc	8	13	2	0			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chr21:41725408G>A	uc002yyq.1	-	5	1370	c.918C>T	c.(916-918)GGC>GGT	p.G306G	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	306	Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CGTACAGGCGGCCTATCACCT	0.502													28	148	---	---	---	---	PASS	A	41725408	A	A	41725408	2	1	35	1	0	0	0	0	0	0	0	1	4768	1190	42	3		3	DSCAM	21	41725408	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08		41725408	6404487	212	14157										
NHS	4810	broad.mit.edu	37	chrX	17746389	17746389	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	aggtatttcagccaaaagtgCctctgataacagcaaagcag	9	9	2	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chrX:17746389C>T	uc004cxx.2	+	6	4438	c.4100C>T	c.(4099-4101)GCC>GTC	p.A1367V	NHS_uc011mix.1_Missense_Mutation_p.A1388V|NHS_uc004cxy.2_Missense_Mutation_p.A1211V|NHS_uc004cxz.2_Missense_Mutation_p.A1190V|NHS_uc004cya.2_Missense_Mutation_p.A1090V	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1367						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					GCCAAAAGTGCCTCTGATAAC	0.398													21	8	---	---	---	---	PASS	T	17746389	T	T	17746389	3	4	35	1	0	0	0	0	1	0	0	0	10411	739	26	3	4227	3	NHS	23	17746389	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08		17746389	137524171	213	14158										
CDK16	5127	broad.mit.edu	37	chrX	47086599	47086599	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	gacttgatagcgacggggccGacctcctcaccaagctgttg	12	13	1	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chrX:47086599G>A	uc004dho.2	+	13	1657	c.1261G>A	c.(1261-1263)GAC>AAC	p.D421N	CDK16_uc011mli.1_Missense_Mutation_p.D427N|CDK16_uc011mlk.1_Missense_Mutation_p.D428N|CDK16_uc011mll.1_Missense_Mutation_p.D495N	NM_006201	NP_006192	Q00536	CDK16_HUMAN	PCTAIRE protein kinase 1 isoform 1	421	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding			lung(1)	1						CGACGGGGCCGACCTCCTCAC	0.582													12	7	---	---	---	---	PASS	A	47086599	A	A	47086599	3	1	35	1	0	0	0	0	1	0	0	0	3132	1058	37	2	1549	2	CDK16	23	47086599	Missense_Mutation	SNP	G	TCGA-22-4593-01A-21D-1817-08	29340210	47086599	108183961	214	14159										
ITIH5L	347365	broad.mit.edu	37	chrX	54814966	54814966	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	atcgtactgaaccaggaagtCagccatgatgcctgacccag	10	12	1	3			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chrX:54814966C>G	uc004dtj.2	-	5	763	c.733G>C	c.(733-735)GAC>CAC	p.D245H		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	245					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						ACCAGGAAGTCAGCCATGATG	0.577													19	11	---	---	---	---	PASS	G	54814966	G	G	54814966	3	3	35	1	0	0	0	0	1	0	0	0	7908	826	29	2	3244	2	ITIH5L	23	54814966	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	7728367	54814966	100455594	215	14160										
ALG13	79868	broad.mit.edu	37	chrX	110928309	110928309	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agcagctacacaaagagggtCatctcttctattgtacctgc	8	11	3	1			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chrX:110928309C>T	uc011msy.1	+	3	395	c.361C>T	c.(361-363)CAT>TAT	p.H121Y	ALG13_uc004epi.1_Missense_Mutation_p.H121Y|ALG13_uc011msw.1_Missense_Mutation_p.H43Y|ALG13_uc011msx.1_Missense_Mutation_p.H17Y|ALG13_uc011msz.1_Missense_Mutation_p.H43Y|ALG13_uc011mta.1_Missense_Mutation_p.H17Y|ALG13_uc011mtb.1_Missense_Mutation_p.H17Y			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	121					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						CAAAGAGGGTCATCTCTTCTA	0.428													137	156	---	---	---	---	PASS	T	110928309	T	T	110928309	3	4	35	1	0	0	0	0	1	0	0	0	515	838	29	2	371	2	ALG13	23	110928309	Missense_Mutation	SNP	C	TCGA-22-4593-01A-21D-1817-08	56113343	110928309	44342251	216	14161										
SLC6A14	11254	broad.mit.edu	37	chrX	115574932	115574932	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.12037037037037	26	0.00144469753911986	1.96038886142692	3.39298072170044	1.60224089635854	0.0849733132129789	0.358101819968982	13	agtgaaatttatcagccaggGcagcttcccagtgaacaata	9	9	1	2			TCGA-22-4593-01A-21D-1817-08	TCGA-22-4593-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	b4a48075-92fd-43ab-95f3-476bcea88d7b	fc5c19b6-d735-4f4c-86b1-11a84bc07e66	g.chrX:115574932G>T	uc004eqi.2	+	5	734	c.630G>T	c.(628-630)GGG>GGT	p.G210G	SLC6A14_uc011mtm.1_RNA	NM_007231	NP_009162	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid	210	Extracellular (Potential).				cellular amino acid metabolic process|response to toxin	integral to membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)|pancreas(1)	3					L-Proline(DB00172)	ATCAGCCAGGGCAGCTTCCCA	0.328													28	48	---	---	---	---	PASS	T	115574932	T	T	115574932	2	4	35	1	0	0	0	0	0	0	0	1	14677	1190	42	3		3	SLC6A14	23	115574932	Silent	SNP	G	TCGA-22-4593-01A-21D-1817-08	4646623	115574932	39695628	217	14162										
VWA1	64856	broad.mit.edu	37	chr1	1372497	1372497	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccatacaccgagttccccttCggccagcacagctcgggtga	10	16	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:1372497C>T	uc001afs.2	+	2	484	c.264C>T	c.(262-264)TTC>TTT	p.F88F	VWA1_uc001afr.2_Intron	NM_022834	NP_073745	Q6PCB0	VWA1_HUMAN	von Willebrand factor A domain containing 1	88	VWFA.					basement membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		AGTTCCCCTTCGGCCAGCACA	0.682													9	33	---	---	---	---	PASS	T	1372497	T	T	1372497	2	4	36	1	0	0	0	0	0	0	0	1	17235	883	31	2		2	VWA1	1	1372497	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08		1372497	247878124	1	14163										
RERE	473	broad.mit.edu	37	chr1	8525994	8525994	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttcctgctcaccacttcgtcCtcggtccagcacttctcgat	6	17	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:8525994C>T	uc001ape.2	-	12	2004	c.1194G>A	c.(1192-1194)GAG>GAA	p.E398E	RERE_uc001apf.2_Silent_p.E398E|RERE_uc010nzx.1_Silent_p.E130E|RERE_uc001aph.1_Silent_p.E398E	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	398	SANT.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		CCACTTCGTCCTCGGTCCAGC	0.582													22	98	---	---	---	---	PASS	T	8525994	T	T	8525994	2	4	36	1	0	0	0	0	0	0	0	1	13231	680	24	3		3	RERE	1	8525994	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	7153497	8525994	240724627	2	14164										
UBE4B	10277	broad.mit.edu	37	chr1	10207138	10207138	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgctccgcatcctggaccccGcatatcccgagtgagtgtgc	11	15	0	1	rs147329205		TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:10207138G>A	uc001aqs.3	+	19	3294	c.2581G>A	c.(2581-2583)GCA>ACA	p.A861T	UBE4B_uc001aqr.3_Missense_Mutation_p.A732T|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Missense_Mutation_p.A316T|UBE4B_uc001aqt.1_Missense_Mutation_p.A201T	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	861					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		CCTGGACCCCGCATATCCCGA	0.493													8	612	---	---	---	---	PASS	A	10207138	A	A	10207138	3	1	36	1	0	0	0	0	1	0	0	0	16880	1087	38	1	2655	1	UBE4B	1	10207138	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1681144	10207138	239043483	3	14165										
KIF1B	23095	broad.mit.edu	37	chr1	10328223	10328223	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tatttaggacagtggcagctAcaaacatgaatgaaacaagt	9	6	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:10328223A>G	uc001aqx.3	+	7	824	c.622A>G	c.(622-624)ACA>GCA	p.T208A	KIF1B_uc001aqv.3_Missense_Mutation_p.T208A|KIF1B_uc001aqw.3_Missense_Mutation_p.T208A|KIF1B_uc001aqy.2_Missense_Mutation_p.T208A|KIF1B_uc001aqz.2_Missense_Mutation_p.T208A|KIF1B_uc001ara.2_Missense_Mutation_p.T208A|KIF1B_uc001arb.2_Missense_Mutation_p.T208A|KIF1B_uc009vmt.2_RNA	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	208	Kinesin-motor.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		AGTGGCAGCTACAAACATGAA	0.423													3	30	---	---	---	---	PASS	G	10328223	G	G	10328223	3	3	36	1	0	0	0	0	1	0	0	0	8284	391	14	5	644	5	KIF1B	1	10328223	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	121085	10328223	238922398	4	14166										
CELA2A	63036	broad.mit.edu	37	chr1	15788132	15788132	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gatagccaacagctgggtccTgacggctgcccactgcatca	11	14	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:15788132T>A	uc001awk.2	+	3	232	c.206T>A	c.(205-207)CTG>CAG	p.L69Q		NM_033440	NP_254275	P08217	CEL2A_HUMAN	elastase 2A preproprotein	69	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						AGCTGGGTCCTGACGGCTGCC	0.602													46	138	---	---	---	---	PASS	A	15788132	A	A	15788132	3	1	36	1	0	0	0	0	1	0	0	0	3211	1580	55	5	216	5	CELA2A	1	15788132	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	5459909	15788132	233462489	5	14167										
HSPB7	27129	broad.mit.edu	37	chr1	16342218	16342218	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctccggcagctggcacttgtGagcgaaggtgttcatgacag	14	10	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:16342218G>C	uc001axo.2	-	3	1197	c.370C>G	c.(370-372)CAC>GAC	p.H124D	HSPB7_uc001axp.2_Missense_Mutation_p.H207D|HSPB7_uc001axq.2_Missense_Mutation_p.H216D|HSPB7_uc001axr.2_Missense_Mutation_p.H217D|HSPB7_uc001axs.2_Missense_Mutation_p.H199D	NM_014424	NP_055239	Q9UBY9	HSPB7_HUMAN	cardiovascular heat shock protein	124					regulation of heart contraction|response to heat|response to unfolded protein	Cajal body	protein C-terminus binding				0		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.21e-08)|COAD - Colon adenocarcinoma(227;5.5e-06)|BRCA - Breast invasive adenocarcinoma(304;9.08e-05)|Kidney(64;0.000162)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00656)|READ - Rectum adenocarcinoma(331;0.0649)		TGGCACTTGTGAGCGAAGGTG	0.672													20	73	---	---	---	---	PASS	C	16342218	C	C	16342218	3	2	36	1	0	0	0	0	1	0	0	0	7422	1290	45	2	146	2	HSPB7	1	16342218	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	554086	16342218	232908403	6	14168										
LDLRAD2	401944	broad.mit.edu	37	chr1	22142441	22142441	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgcttctggcctcaggacctTgtggtgcctacttccgctgc	11	14	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:22142441T>G	uc001bfg.1	+	3	704	c.517T>G	c.(517-519)TGT>GGT	p.C173G		NM_001013693	NP_001013715	Q5SZI1	LRAD2_HUMAN	low density lipoprotein receptor class A domain	173	Extracellular (Potential).|LDL-receptor class A.					integral to membrane	receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.00166)|all_lung(284;0.00172)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;5.2e-26)|COAD - Colon adenocarcinoma(152;1.13e-05)|GBM - Glioblastoma multiforme(114;1.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00598)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)		CTCAGGACCTTGTGGTGCCTA	0.627													32	137	---	---	---	---	PASS	G	22142441	G	G	22142441	3	3	36	1	0	0	0	0	1	0	0	0	8706	1812	63	5	527	5	LDLRAD2	1	22142441	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	5800223	22142441	227108180	7	14169										
XKR8	55113	broad.mit.edu	37	chr1	28293671	28293671	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tttagcacagaagtttttccCcaaggctaaggatgaggctg	11	8	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:28293671C>T	uc001bph.1	+	3	1225	c.1148C>T	c.(1147-1149)CCC>CTC	p.P383L		NM_018053	NP_060523	Q9H6D3	XKR8_HUMAN	XK, Kell blood group complex subunit-related	383						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00588)|all_lung(284;0.00645)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;4.72e-24)|Colorectal(126;1.52e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00572)|READ - Rectum adenocarcinoma(331;0.0526)		AAGTTTTTCCCCAAGGCTAAG	0.567													24	131	---	---	---	---	PASS	T	28293671	T	T	28293671	3	4	36	1	0	0	0	0	1	0	0	0	17434	623	22	3	1158	3	XKR8	1	28293671	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	6151230	28293671	220956950	8	14170										
KCNQ4	9132	broad.mit.edu	37	chr1	41303990	41303990	+	Missense_Mutation	SNP	C	A	A													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gccccgtccccaggtgcagtCcatcgagcacaagctggacc							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:41303990C>A	uc001cgh.1	+	14	1965	c.1883C>A	c.(1882-1884)TCC>TAC	p.S628Y	KCNQ4_uc001cgi.1_Missense_Mutation_p.S574Y	NM_004700	NP_004691	P56696	KCNQ4_HUMAN	potassium voltage-gated channel KQT-like protein	628	|Cytoplasmic.|A-domain (Tetramerization).				sensory perception of sound	basal plasma membrane|voltage-gated potassium channel complex				central_nervous_system(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.38e-17)			CAGGTGCAGTCCATCGAGCAC	0.721													50	153	---	---	---	---	PASS	A	41303990	A	A	41303990	3	1	36	1	0	0	0	0	1	0	0	0	8085	855	30	2	1937	2	KCNQ4	1	41303990	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	13010319	41303990	207946631	9	14171	362	2								
KCNQ4	9132	broad.mit.edu	37	chr1	41303991	41303991	+	Silent	SNP	C	T	T													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccccgtccccaggtgcagtcCatcgagcacaagctggacct							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:41303991C>T	uc001cgh.1	+	14	1966	c.1884C>T	c.(1882-1884)TCC>TCT	p.S628S	KCNQ4_uc001cgi.1_Silent_p.S574S	NM_004700	NP_004691	P56696	KCNQ4_HUMAN	potassium voltage-gated channel KQT-like protein	628	|Cytoplasmic.|A-domain (Tetramerization).				sensory perception of sound	basal plasma membrane|voltage-gated potassium channel complex				central_nervous_system(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.38e-17)			AGGTGCAGTCCATCGAGCACA	0.726													50	157	---	---	---	---	PASS	T	41303991	T	T	41303991	2	4	36	1	0	0	0	0	0	0	0	1	8085	581	21	3		3	KCNQ4	1	41303991	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	1	41303991	207946630	10	14172	362	2								
C1orf210	149466	broad.mit.edu	37	chr1	43748952	43748952	+	Translation_Start_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tctcattcatggaggggcctGatgacaccagtgagtctcag	12	10	3	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:43748952G>C	uc001cit.3	-	2	224	c.-10C>G	c.(-12--8)ATCAG>ATGAG			NM_182517	NP_872323	Q8IVY1	CA210_HUMAN	hypothetical protein LOC149466							integral to membrane					0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GGAGGGGCCTGATGACACCAG	0.577													19	82	---	---	---	---	PASS	C	43748952	C	C	43748952	1	2	36	1	0	0	0	0	0	0	0	0	2029	1305	45	2		2	C1orf210	1	43748952	Translation_Start_Site	SNP	G	TCGA-22-4595-01A-01D-1267-08	2444961	43748952	205501669	11	14173										
MAST2	23139	broad.mit.edu	37	chr1	46489553	46489553	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tccagcaggccttcgtggagCgtgacatactgactttcgct	11	12	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:46489553C>T	uc001cov.2	+	15	1964	c.1681C>T	c.(1681-1683)CGT>TGT	p.R561C	MAST2_uc001cow.2_Missense_Mutation_p.R561C|MAST2_uc001coy.1_Missense_Mutation_p.R235C|MAST2_uc001coz.1_Missense_Mutation_p.R446C|MAST2_uc009vya.2_Missense_Mutation_p.R483C|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	561	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)					CTTCGTGGAGCGTGACATACT	0.537													43	83	---	---	---	---	PASS	T	46489553	T	T	46489553	3	4	36	1	0	0	0	0	1	0	0	0	9325	768	27	1	1739	1	MAST2	1	46489553	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	2740601	46489553	202761068	12	14174										
ZFYVE9	9372	broad.mit.edu	37	chr1	52704579	52704579	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgttccaaagactttaccctCcaaagaagattcagtaacag	6	10	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:52704579C>G	uc001cto.2	+	4	1662	c.1490C>G	c.(1489-1491)TCC>TGC	p.S497C	ZFYVE9_uc001ctn.2_Missense_Mutation_p.S497C|ZFYVE9_uc001ctp.2_Missense_Mutation_p.S497C	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	497					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						ACTTTACCCTCCAAAGAAGAT	0.383													51	132	---	---	---	---	PASS	G	52704579	G	G	52704579	3	3	36	1	0	0	0	0	1	0	0	0	17668	855	30	2	1496	2	ZFYVE9	1	52704579	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	6215026	52704579	196546042	13	14175										
LEPROT	54741	broad.mit.edu	37	chr1	65897503	65897503	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cagatcaaatggggagcctgCggccttgtgttggcaggcaa	15	9	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:65897503C>A	uc001dcf.2	+	4	386	c.297C>A	c.(295-297)TGC>TGA	p.C99*	LEPR_uc001dcg.2_Intron|LEPR_uc001dch.2_Intron|LEPR_uc001dci.2_Intron|LEPR_uc009waq.2_Intron|LEPROT_uc009wap.2_Nonsense_Mutation_p.C108*	NM_017526	NP_059996	O15243	OBRG_HUMAN	leptin receptor gene-related protein	99						endosome membrane|Golgi membrane|integral to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		GGGGAGCCTGCGGCCTTGTGT	0.398													32	68	---	---	---	---	PASS	A	65897503	A	A	65897503	4	1	36	1	0	0	0	0	0	1	0	0	8732	776	27	1	311	1	LEPROT	1	65897503	Nonsense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	13192924	65897503	183353118	14	14176										
C1orf173	127254	broad.mit.edu	37	chr1	75037713	75037713	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	atcagcccctcaggggcctgCacctttcctgctggctcagc	10	17	3	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:75037713C>G	uc001dgg.2	-	14	3900	c.3681G>C	c.(3679-3681)GTG>GTC	p.V1227V		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1227	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CAGGGGCCTGCACCTTTCCTG	0.632													25	79	---	---	---	---	PASS	G	75037713	G	G	75037713	2	3	36	1	0	0	0	0	0	0	0	1	2014	697	25	4		4	C1orf173	1	75037713	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	9140210	75037713	174212908	15	14177										
C1orf88	128344	broad.mit.edu	37	chr1	111892811	111892811	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	atctccagactgggctcaggTtccatgtctacagaaaagaa	9	10	3	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:111892811T>A	uc001eaw.2	+	5	553	c.473T>A	c.(472-474)GTT>GAT	p.V158D	C1orf88_uc001eax.2_Missense_Mutation_p.V125D|C1orf88_uc009wge.1_Silent_p.G81G|C1orf88_uc001eay.2_Missense_Mutation_p.V71D	NM_181643	NP_857594	Q8TCI5	CA088_HUMAN	hypothetical protein LOC128344	158										ovary(1)|skin(1)	2		all_cancers(81;3.21e-05)|all_epithelial(167;1.19e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0239)|Colorectal(144;0.0301)|all cancers(265;0.0677)|Epithelial(280;0.0897)|COAD - Colon adenocarcinoma(174;0.116)|LUSC - Lung squamous cell carcinoma(189;0.135)		TGGGCTCAGGTTCCATGTCTA	0.398													69	242	---	---	---	---	PASS	A	111892811	A	A	111892811	3	1	36	1	0	0	0	0	1	0	0	0	2065	1725	60	5	491	5	C1orf88	1	111892811	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	36855098	111892811	137357810	16	14178										
BCAN	63827	broad.mit.edu	37	chr1	156618367	156618367	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cttctccacccaggagaactGttcctgggtgaccctccaga	9	15	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:156618367G>T	uc001fpp.2	+	6	1113	c.777G>T	c.(775-777)CTG>CTT	p.L259L	BCAN_uc001fpo.2_Silent_p.L259L	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	259	Link 2.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CAGGAGAACTGTTCCTGGGTG	0.338													48	179	---	---	---	---	PASS	T	156618367	T	T	156618367	2	4	36	1	0	0	0	0	0	0	0	1	1345	1364	48	3		3	BCAN	1	156618367	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	44725556	156618367	92632254	17	14179										
FCRL3	115352	broad.mit.edu	37	chr1	157668205	157668205	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tccacatgcacggcatcactGagggaggatcctcgggtctt	12	12	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:157668205G>C	uc001frb.2	-	4	559	c.267C>G	c.(265-267)CTC>CTG	p.L89L	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Silent_p.L89L|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_5'Flank|FCRL3_uc001frc.1_Silent_p.L89L	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	89	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					CGGCATCACTGAGGGAGGATC	0.463													49	289	---	---	---	---	PASS	C	157668205	C	C	157668205	2	2	36	1	0	0	0	0	0	0	0	1	5796	1277	45	2		2	FCRL3	1	157668205	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	1049838	157668205	91582416	18	14180										
CRP	1401	broad.mit.edu	37	chr1	159683350	159683350	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gggtttggtgaacacttcgcCttgcacttcatacttcagtg	10	10	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:159683350C>A	uc001ftw.2	-	2	744	c.640G>T	c.(640-642)GGC>TGC	p.G214C	CRP_uc001ftx.1_Missense_Mutation_p.G81C|CRP_uc001fty.1_RNA	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	214	Pentaxin.				acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	AACACTTCGCCTTGCACTTCA	0.557													46	134	---	---	---	---	PASS	A	159683350	A	A	159683350	3	1	36	1	0	0	0	0	1	0	0	0	3895	681	24	3	38	3	CRP	1	159683350	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	2015145	159683350	89567271	19	14181										
DCAF8	50717	broad.mit.edu	37	chr1	160209783	160209783	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcggggtagagctgatgtttCtgaggacacccagtcctcta	12	10	2	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:160209783C>A	uc001fvo.2	-	4	739	c.427G>T	c.(427-429)GAA>TAA	p.E143*	DCAF8_uc001fvn.2_Nonsense_Mutation_p.E143*|DCAF8_uc009wth.2_Nonsense_Mutation_p.E143*|DCAF8_uc010pjb.1_Nonsense_Mutation_p.E143*|DCAF8_uc010pjc.1_Nonsense_Mutation_p.E297*|DCAF8_uc001fvq.3_Nonsense_Mutation_p.E143*|DCAF8_uc001fvp.3_Nonsense_Mutation_p.E143*|uc010pjd.1_3'UTR	NM_015726	NP_056541	Q5TAQ9	DCAF8_HUMAN	DDB1 and CUL4 associated factor 8	143						CUL4 RING ubiquitin ligase complex	protein binding			skin(2)	2						GCTGATGTTTCTGAGGACACC	0.607													47	151	---	---	---	---	PASS	A	160209783	A	A	160209783	4	1	36	1	0	0	0	0	0	1	0	0	4276	922	32	2	1410	2	DCAF8	1	160209783	Nonsense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	526433	160209783	89040838	20	14182										
ADAMTS4	9507	broad.mit.edu	37	chr1	161162001	161162001	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tggacacagaccgaggagctGtccggggaacagggggtccc	17	11	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:161162001G>C	uc001fyt.3	-	8	2369	c.1941C>G	c.(1939-1941)GAC>GAG	p.D647E		NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	647	Cys-rich.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CCGAGGAGCTGTCCGGGGAAC	0.532											OREG0013940	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	176	---	---	---	---	PASS	C	161162001	C	C	161162001	3	2	36	1	0	0	0	0	1	0	0	0	268	1368	48	4	580	4	ADAMTS4	1	161162001	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	952218	161162001	88088620	21	14183										
C1orf110	339512	broad.mit.edu	37	chr1	162824578	162824578	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gagaggaagaaacttagaagGcaccctgttttcacactcct	9	10	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:162824578G>T	uc001gck.2	-	4	1061	c.886C>A	c.(886-888)CCT>ACT	p.P296T	C1orf110_uc009wuw.1_Intron|C1orf110_uc009wux.1_Missense_Mutation_p.P295T	NM_178550	NP_848645	Q86UF4	CA110_HUMAN	hypothetical protein LOC339512	296											0						AACTTAGAAGGCACCCTGTTT	0.438													61	118	---	---	---	---	PASS	T	162824578	T	T	162824578	3	4	36	1	0	0	0	0	1	0	0	0	1983	1203	42	3	26	3	C1orf110	1	162824578	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1662577	162824578	86426043	22	14184										
DPT	1805	broad.mit.edu	37	chr1	168698286	168698286	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctggtagctgaagccttgccGgttcaaattcacccacccat	8	14	2	1	rs147889127		TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:168698286G>T	uc001gfp.2	-	1	143	c.127C>A	c.(127-129)CGG>AGG	p.R43R		NM_001937	NP_001928	Q07507	DERM_HUMAN	dermatopontin precursor	43	2 X 53-55 AA tandem repeats.|1-1.				cell adhesion	extracellular space|proteinaceous extracellular matrix				ovary(1)	1	all_hematologic(923;0.208)					AAGCCTTGCCGGTTCAAATTC	0.542													29	120	---	---	---	---	PASS	T	168698286	T	T	168698286	2	4	36	1	0	0	0	0	0	0	0	1	4739	1115	39	1		1	DPT	1	168698286	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	5873708	168698286	80552335	23	14185										
KIFAP3	22920	broad.mit.edu	37	chr1	169952476	169952476	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aatcattttcatcagcaatgGatccttaaacttcagagccc	5	11	4	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:169952476G>A	uc001ggv.2	-	13	1712	c.1441C>T	c.(1441-1443)CCA>TCA	p.P481S	KIFAP3_uc010plx.1_Missense_Mutation_p.P183S	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	481					blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					ATCAGCAATGGATCCTTAAAC	0.333													44	46	---	---	---	---	PASS	A	169952476	A	A	169952476	3	1	36	1	0	0	0	0	1	0	0	0	8311	1174	41	2	969	2	KIFAP3	1	169952476	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1254190	169952476	79298145	24	14186										
C1orf125	126859	broad.mit.edu	37	chr1	179380308	179380308	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gaagaatatcatgacttataTacattacaaagagaaaggat	7	4	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:179380308T>A	uc001gmo.2	+	12	1264	c.1137T>A	c.(1135-1137)TAT>TAA	p.Y379*	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmn.1_Nonsense_Mutation_p.Y167*|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Nonsense_Mutation_p.Y379*	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	379	Potential.										0						ATGACTTATATACATTACAAA	0.284													48	135	---	---	---	---	PASS	A	179380308	A	A	179380308	4	1	36	1	0	0	0	0	0	1	0	0	1993	1413	49	5	1179	5	C1orf125	1	179380308	Nonsense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	9427832	179380308	69870313	25	14187										
NPHS2	7827	broad.mit.edu	37	chr1	179520317	179520317	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccccatccttcctataacatGggagagtctttctttttagg	7	11	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:179520317G>T	uc001gmq.3	-	8	1228	c.1143C>A	c.(1141-1143)CCC>CCA	p.P381P	C1orf125_uc009wxg.2_Intron|C1orf125_uc001gmo.2_Intron|C1orf125_uc001gmp.2_Intron|C1orf125_uc009wxh.2_Intron|NPHS2_uc009wxi.2_Silent_p.P313P|C1orf125_uc001gmr.2_RNA	NM_014625	NP_055440	Q9NP85	PODO_HUMAN	podocin	381	Cytoplasmic (Potential).				excretion	integral to plasma membrane	protein binding				0						CCTATAACATGGGAGAGTCTT	0.498													19	75	---	---	---	---	PASS	T	179520317	T	T	179520317	2	4	36	1	0	0	0	0	0	0	0	1	10583	1335	47	3		3	NPHS2	1	179520317	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	140009	179520317	69730304	26	14188										
HMCN1	83872	broad.mit.edu	37	chr1	185878584	185878584	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttttgatcccagcctgaaagAggtcactgtgtctttgagtg	11	8	2	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:185878584A>T	uc001grq.1	+	5	966	c.737A>T	c.(736-738)GAG>GTG	p.E246V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	246					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AGCCTGAAAGAGGTCACTGTG	0.388													27	106	---	---	---	---	PASS	T	185878584	T	T	185878584	3	4	36	1	0	0	0	0	1	0	0	0	7220	304	11	5	755	5	HMCN1	1	185878584	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	6358267	185878584	63372037	27	14189										
F13B	2165	broad.mit.edu	37	chr1	197021954	197021954	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttcatgtaatccacattaacAgtacatggttctgtaaaaca	5	8	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:197021954A>G	uc001gtt.1	-	9	1409	c.1365T>C	c.(1363-1365)ACT>ACC	p.T455T		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	455	Sushi 8.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CCACATTAACAGTACATGGTT	0.264													13	45	---	---	---	---	PASS	G	197021954	G	G	197021954	2	3	36	1	0	0	0	0	0	0	0	1	5341	175	7	5		5	F13B	1	197021954	Silent	SNP	A	TCGA-22-4595-01A-01D-1267-08	11143370	197021954	52228667	28	14190										
VASH2	79805	broad.mit.edu	37	chr1	213147329	213147329	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcaagtgcccactctccgacCcaagtgagaagccggggaaa	12	13	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:213147329C>A	uc001hjy.2	+	6	1116	c.912C>A	c.(910-912)ACC>ACA	p.T304T	VASH2_uc001hjv.2_RNA|VASH2_uc001hjx.2_Silent_p.T239T|VASH2_uc010ptn.1_Silent_p.T200T|VASH2_uc001hjw.2_Silent_p.T260T	NM_001136475	NP_001129947	Q86V25	VASH2_HUMAN	vasohibin 2 isoform 3	304					positive regulation of angiogenesis|positive regulation of endothelial cell proliferation	cytoplasm					0				OV - Ovarian serous cystadenocarcinoma(81;0.00479)|all cancers(67;0.00844)|GBM - Glioblastoma multiforme(131;0.0496)|Epithelial(68;0.0986)		ACTCTCCGACCCAAGTGAGAA	0.567													15	45	---	---	---	---	PASS	A	213147329	A	A	213147329	2	1	36	1	0	0	0	0	0	0	0	1	17123	610	22	3		3	VASH2	1	213147329	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	16125375	213147329	36103292	29	14191										
USH2A	7399	broad.mit.edu	37	chr1	216011388	216011388	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	atcacttggagtgtcttccaCagtggtaatttgggttccat	10	8	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:216011388C>A	uc001hku.1	-	47	9703	c.9316G>T	c.(9316-9318)GTG>TTG	p.V3106L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3106	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GTGTCTTCCACAGTGGTAATT	0.373										HNSCC(13;0.011)			65	185	---	---	---	---	PASS	A	216011388	A	A	216011388	3	1	36	1	0	0	0	0	1	0	0	0	17033	478	17	3	6396	3	USH2A	1	216011388	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	2864059	216011388	33239233	30	14192										
C1orf65	164127	broad.mit.edu	37	chr1	223567978	223567978	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gagcaggagaagatgctacgGaacctccgggagcagcacag	15	10	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:223567978G>C	uc001hoa.2	+	1	1264	c.1161G>C	c.(1159-1161)CGG>CGC	p.R387R		NM_152610	NP_689823	Q8N715	CA065_HUMAN	hypothetical protein LOC164127	387	Potential.									central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0704)		AGATGCTACGGAACCTCCGGG	0.662													13	29	---	---	---	---	PASS	C	223567978	C	C	223567978	2	2	36	1	0	0	0	0	0	0	0	1	2055	1161	41	2		2	C1orf65	1	223567978	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	7556590	223567978	25682643	31	14193										
RYR2	6262	broad.mit.edu	37	chr1	237919660	237919660	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	atcgtggcgcggctgagatgGtgctacagacaatcagtgcc	14	10	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:237919660G>A	uc001hyl.1	+	81	11338	c.11218G>A	c.(11218-11220)GTG>ATG	p.V3740M	RYR2_uc010pya.1_Missense_Mutation_p.V155M	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3740					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)			GGCTGAGATGGTGCTACAGAC	0.483													16	39	---	---	---	---	PASS	A	237919660	A	A	237919660	3	1	36	1	0	0	0	0	1	0	0	0	13769	1261	44	3	11540	3	RYR2	1	237919660	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	14351682	237919660	11330961	32	14194										
FMN2	56776	broad.mit.edu	37	chr1	240371821	240371821	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	caggaatcccaccgccccctCtgcttcctgtatcaggccct	7	19	2	0	rs111521184	byFrequency	TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:240371821C>T	uc010pyd.1	+	5	3934	c.3709C>T	c.(3709-3711)CTG>TTG	p.L1237L	FMN2_uc010pye.1_Silent_p.L1241L	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1237	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			ACCGCCCCCTCTGCTTCCTGT	0.602													19	53	---	---	---	---	PASS	T	240371821	T	T	240371821	2	4	36	1	0	0	0	0	0	0	0	1	5950	912	32	2		2	FMN2	1	240371821	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	2452161	240371821	8878800	33	14195										
RGS7	6000	broad.mit.edu	37	chr1	241146382	241146382	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gaaaatgatttatttacctgGatcttctatagttaagttct	6	5	3	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr1:241146382G>C	uc001hyv.2	-	4	553	c.223C>G	c.(223-225)CCA>GCA	p.P75A	RGS7_uc010pyh.1_Missense_Mutation_p.P49A|RGS7_uc010pyj.1_Translation_Start_Site|RGS7_uc001hyu.2_Missense_Mutation_p.P75A|RGS7_uc009xgn.1_Missense_Mutation_p.P75A|RGS7_uc001hyw.2_Missense_Mutation_p.P75A	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	75	DEP.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			TATTTACCTGGATCTTCTATA	0.299													8	15	---	---	---	---	PASS	C	241146382	C	C	241146382	3	2	36	1	0	0	0	0	1	0	0	0	13310	1174	41	2	1300	2	RGS7	1	241146382	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	774561	241146382	8104239	34	14196										
DDX1	1653	broad.mit.edu	37	chr2	15770167	15770167	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	accatttctcaggttgagccGgatataaaggtaccagtgga	11	8	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:15770167G>T	uc002rce.2	+	25	2313	c.2025G>T	c.(2023-2025)CCG>CCT	p.P675P		NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	675	Helicase C-terminal.|Necessary for interaction with HNRNPK.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		AGGTTGAGCCGGATATAAAGG	0.343													74	187	---	---	---	---	PASS	T	15770167	T	T	15770167	2	4	36	1	0	0	0	0	0	0	0	1	4341	1103	39	1		1	DDX1	2	15770167	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08		15770167	227429206	35	14197										
FAM49A	81553	broad.mit.edu	37	chr2	16740833	16740833	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aacatcagggtctcttcactCgtaaacctacttctgtactc	5	13	4	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:16740833C>T	uc010exm.1	-	9	880	c.732G>A	c.(730-732)ACG>ACA	p.T244T	FAM49A_uc002rck.1_Silent_p.T244T	NM_030797	NP_110424	Q9H0Q0	FA49A_HUMAN	family with sequence similarity 49, member A	244						intracellular					0	Acute lymphoblastic leukemia(172;0.0734)|all_hematologic(175;0.088)		GBM - Glioblastoma multiforme(3;0.00969)			TCTCTTCACTCGTAAACCTAC	0.493													49	226	---	---	---	---	PASS	T	16740833	T	T	16740833	2	4	36	1	0	0	0	0	0	0	0	1	5575	871	31	2		2	FAM49A	2	16740833	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	970666	16740833	226458540	36	14198										
C2orf44	80304	broad.mit.edu	37	chr2	24261359	24261359	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aggaaccagaatgcctggaaTagtgacttttctcgtcatgg	11	8	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:24261359T>C	uc002rep.2	-	2	1137	c.1006A>G	c.(1006-1008)ATT>GTT	p.I336V	C2orf44_uc010eya.2_Missense_Mutation_p.I336V	NM_025203	NP_079479	Q9H6R7	CB044_HUMAN	hypothetical protein LOC80304 isoform 1	336							protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATGCCTGGAATAGTGACTTTT	0.403													82	155	---	---	---	---	PASS	C	24261359	C	C	24261359	3	2	36	1	0	0	0	0	1	0	0	0	2168	1406	49	5	1171	5	C2orf44	2	24261359	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	7520526	24261359	218938014	37	14199										
ASXL2	55252	broad.mit.edu	37	chr2	25965964	25965964	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	actgtgagggcggcacaactGagagaagattctgcctccga	13	10	1	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:25965964G>A	uc002rgs.2	-	12	3463	c.3242C>T	c.(3241-3243)TCA>TTA	p.S1081L	ASXL2_uc002rgt.1_Intron	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1081					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGGCACAACTGAGAGAAGATT	0.502													90	330	---	---	---	---	PASS	A	25965964	A	A	25965964	3	1	36	1	0	0	0	0	1	0	0	0	1067	1294	45	2	1069	2	ASXL2	2	25965964	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1704605	25965964	217233409	38	14200										
KCNK12	56660	broad.mit.edu	37	chr2	47748348	47748348	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tggggtgatggcattgcgccGggccaggggcgcgccaggag	21	10	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:47748348G>T	uc002rwb.2	-	2	991	c.991C>A	c.(991-993)CGG>AGG	p.R331R	MSH2_uc002rvz.2_Intron	NM_022055	NP_071338	Q9HB15	KCNKC_HUMAN	potassium channel, subfamily K, member 12	331	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_hematologic(82;0.0495)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GCATTGCGCCGGGCCAGGGGC	0.756													6	12	---	---	---	---	PASS	T	47748348	T	T	47748348	2	4	36	1	0	0	0	0	0	0	0	1	8060	1115	39	1		1	KCNK12	2	47748348	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	21782384	47748348	195451025	39	14201										
NRXN1	9378	broad.mit.edu	37	chr2	50847250	50847250	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccaacatagaaaaagtcatcAgaccccagcatggtataatc	6	11	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:50847250A>T	uc010fbq.2	-	8	2827	c.1350T>A	c.(1348-1350)TCT>TCA	p.S450S	NRXN1_uc002rxb.3_Silent_p.S82S|NRXN1_uc002rxe.3_Silent_p.S410S|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			AAAAGTCATCAGACCCCAGCA	0.473													17	80	---	---	---	---	PASS	T	50847250	T	T	50847250	2	4	36	1	0	0	0	0	0	0	0	1	10665	175	7	5		5	NRXN1	2	50847250	Silent	SNP	A	TCGA-22-4595-01A-01D-1267-08	3098902	50847250	192352123	40	14202										
TMEM17	200728	broad.mit.edu	37	chr2	62733230	62733230	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	acacggcccggctgaagtttCccagccgctggcgcaccgga	13	16	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:62733230C>G	uc002sbt.2	-	1	375	c.35G>C	c.(34-36)GGA>GCA	p.G12A	TMEM17_uc002sbu.2_Missense_Mutation_p.G12A|TMEM17_uc002sbv.1_Intron	NM_198276	NP_938017	Q86X19	TMM17_HUMAN	transmembrane protein 17	12						integral to membrane					0	Lung NSC(7;0.0274)|all_lung(7;0.0568)		LUSC - Lung squamous cell carcinoma(7;1.31e-05)|Epithelial(17;0.169)			GCTGAAGTTTCCCAGCCGCTG	0.677													4	10	---	---	---	---	PASS	G	62733230	G	G	62733230	3	3	36	1	0	0	0	0	1	0	0	0	16082	855	30	2	577	2	TMEM17	2	62733230	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	11885980	62733230	180466143	41	14203										
C2orf3	6936	broad.mit.edu	37	chr2	75899136	75899136	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgaggtgatgttttgttttcTacagcactaattagaaacaa	8	5	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:75899136T>C	uc002sno.2	-	14	2026	c.1896A>G	c.(1894-1896)GTA>GTG	p.V632V	C2orf3_uc010ffs.2_Silent_p.V194V|C2orf3_uc002snn.2_Silent_p.V463V|C2orf3_uc010fft.2_Silent_p.V307V	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	632					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						TTTTGTTTTCTACAGCACTAA	0.343													32	89	---	---	---	---	PASS	C	75899136	C	C	75899136	2	2	36	1	0	0	0	0	0	0	0	1	2162	1509	53	5		5	C2orf3	2	75899136	Silent	SNP	T	TCGA-22-4595-01A-01D-1267-08	13165906	75899136	167300237	42	14204										
LRRTM1	347730	broad.mit.edu	37	chr2	80530588	80530588	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtgatctggttggaactcagCgtgagttccttaactcggcg	13	9	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:80530588C>A	uc002sok.1	-	2	627	c.357G>T	c.(355-357)ACG>ACT	p.T119T	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	119	LRR 2.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						TGGAACTCAGCGTGAGTTCCT	0.587										HNSCC(69;0.2)			64	233	---	---	---	---	PASS	A	80530588	A	A	80530588	2	1	36	1	0	0	0	0	0	0	0	1	9039	755	27	1		1	LRRTM1	2	80530588	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	4631452	80530588	162668785	43	14205										
KCMF1	56888	broad.mit.edu	37	chr2	85273227	85273227	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tttcttaacttttgggttatGatgaatcgagtggtgttcga	11	4	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:85273227G>C	uc002sox.3	+	5	771	c.427G>C	c.(427-429)GAT>CAT	p.D143H		NM_020122	NP_064507	Q9P0J7	KCMF1_HUMAN	potassium channel modulatory factor 1	143						intracellular	ligase activity|zinc ion binding			ovary(2)	2						TTTGGGTTATGATGAATCGAG	0.403													9	43	---	---	---	---	PASS	C	85273227	C	C	85273227	3	2	36	1	0	0	0	0	1	0	0	0	8000	1304	45	2	445	2	KCMF1	2	85273227	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	4742639	85273227	157926146	44	14206										
SFTPB	6439	broad.mit.edu	37	chr2	85890958	85890958	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcacacctgggccactgccaCagctagcgcaccctggggcg	13	17	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:85890958C>G	uc002sqh.2	-	7	691	c.685G>C	c.(685-687)GTG>CTG	p.V229L	SFTPB_uc002sqi.2_Missense_Mutation_p.V241L|SFTPB_uc002sqj.2_Missense_Mutation_p.V229L|SFTPB_uc010ysw.1_5'Flank	NM_198843	NP_942140	P07988	PSPB_HUMAN	surfactant, pulmonary-associated protein B	229	Saposin B-type 2.				organ morphogenesis|respiratory gaseous exchange|sphingolipid metabolic process	extracellular space|lysosome				ovary(1)|central_nervous_system(1)	2						GCCACTGCCACAGCTAGCGCA	0.517													2	6	---	---	---	---	PASS	G	85890958	G	G	85890958	3	3	36	1	0	0	0	0	1	0	0	0	14191	478	17	4	476	4	SFTPB	2	85890958	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	617731	85890958	157308415	45	14207										
SNRNP200	23020	broad.mit.edu	37	chr2	96949346	96949346	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcgggtctgcttgcgagacgGcacaaagacaatgacaggct	14	10	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:96949346G>A	uc002svu.2	-	33	4776	c.4690C>T	c.(4690-4692)CCG>TCG	p.P1564S	SNRNP200_uc002svt.2_Missense_Mutation_p.P174S|SNRNP200_uc010yuj.1_RNA|SNRNP200_uc002svv.1_Missense_Mutation_p.P91S	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1564	Helicase C-terminal 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						TTGCGAGACGGCACAAAGACA	0.582													5	275	---	---	---	---	PASS	A	96949346	A	A	96949346	3	1	36	1	0	0	0	0	1	0	0	0	14852	1203	42	3	1772	3	SNRNP200	2	96949346	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	11058388	96949346	146250027	46	14208										
LONRF2	164832	broad.mit.edu	37	chr2	100906846	100906846	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccatcaggaaacgttctcacGtccttaatctccagcatgca	6	14	3	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:100906846G>A	uc002tal.3	-	10	2434	c.1794C>T	c.(1792-1794)GAC>GAT	p.D598D	LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	598	Lon.				proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						ACGTTCTCACGTCCTTAATCT	0.478													55	566	---	---	---	---	PASS	A	100906846	A	A	100906846	2	1	36	1	0	0	0	0	0	0	0	1	8895	1136	40	1		1	LONRF2	2	100906846	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	3957500	100906846	142292527	47	14209										
CCDC93	54520	broad.mit.edu	37	chr2	118693071	118693071	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cagaaaagaagccatctgacCttcattctactttgcttaat	5	10	3	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:118693071C>A	uc002tlj.2	-	22	1854	c.1728G>T	c.(1726-1728)AAG>AAT	p.K576N		NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	576	Potential.									large_intestine(1)|ovary(1)	2						GCCATCTGACCTTCATTCTAC	0.498													38	83	---	---	---	---	PASS	A	118693071	A	A	118693071	3	1	36	1	0	0	0	0	1	0	0	0	2872	695	24	3	179	3	CCDC93	2	118693071	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	17786225	118693071	124506302	48	14210										
INSIG2	51141	broad.mit.edu	37	chr2	118860889	118860889	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tctttgttggtataaatcatGccagtgctgtatcctttact	7	8	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:118860889G>T	uc002tlk.2	+	3	567	c.361G>T	c.(361-363)GCC>TCC	p.A121S	INSIG2_uc010yye.1_Missense_Mutation_p.A13S|INSIG2_uc002tll.2_Missense_Mutation_p.A13S	NM_016133	NP_057217	Q9Y5U4	INSI2_HUMAN	insulin induced protein 2	121					ER-nuclear sterol response pathway	SREBP-SCAP-Insig complex				ovary(1)|central_nervous_system(1)	2						TATAAATCATGCCAGTGCTGT	0.398													51	262	---	---	---	---	PASS	T	118860889	T	T	118860889	3	4	36	1	0	0	0	0	1	0	0	0	7766	1319	46	3	367	3	INSIG2	2	118860889	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	167818	118860889	124338484	49	14211										
C2orf76	130355	broad.mit.edu	37	chr2	120069255	120069255	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	caggagtctttcgtcatcttCcaaactcaacacaagttcat	5	12	5	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:120069255C>A	uc002tls.2	-	6	788	c.247G>T	c.(247-249)GAA>TAA	p.E83*	C2orf76_uc010flf.1_Nonsense_Mutation_p.E83*|C2orf76_uc010yyg.1_RNA|C2orf76_uc002tlt.2_Nonsense_Mutation_p.E83*|C2orf76_uc002tlu.2_Nonsense_Mutation_p.E83*	NM_001017927	NP_001017927	Q3KRA6	CB076_HUMAN	hypothetical protein LOC130355	83											0						TCGTCATCTTCCAAACTCAAC	0.443													28	86	---	---	---	---	PASS	A	120069255	A	A	120069255	4	1	36	1	0	0	0	0	0	1	0	0	2193	864	30	2	141	2	C2orf76	2	120069255	Nonsense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1208366	120069255	123130118	50	14212										
POTEF	728378	broad.mit.edu	37	chr2	130877689	130877689	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cagatcttctccacggacgtGgtacctgggctccatgaagg	12	12	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:130877689G>C	uc010fmh.2	-	3	800	c.400C>G	c.(400-402)CAC>GAC	p.H134D		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	134						cell cortex	ATP binding			skin(3)|ovary(2)	5						CCACGGACGTGGTACCTGGGC	0.592													64	131	---	---	---	---	PASS	C	130877689	C	C	130877689	3	2	36	1	0	0	0	0	1	0	0	0	12265	1348	47	4	2887	4	POTEF	2	130877689	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	10808434	130877689	112321684	51	14213										
POTEE	445582	broad.mit.edu	37	chr2	131976375	131976375	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccttcatggagcccaggtacCacgtccgtggagaagatctg	12	12	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:131976375C>G	uc002tsn.2	+	1	452	c.400C>G	c.(400-402)CAC>GAC	p.H134D	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	134							ATP binding				0						GCCCAGGTACCACGTCCGTGG	0.602													14	277	---	---	---	---	PASS	G	131976375	G	G	131976375	3	3	36	1	0	0	0	0	1	0	0	0	12264	594	21	4	402	4	POTEE	2	131976375	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1098686	131976375	111222998	52	14214										
RIF1	55183	broad.mit.edu	37	chr2	152300042	152300042	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tttttataattttttgttcaGgttctttctcagtttggaat	6	4	3	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:152300042G>T	uc002txm.2	+	18	1936	c.1806_splice	c.e18-1	p.R602_splice	RIF1_uc002txl.2_Splice_Site_p.R602_splice|RIF1_uc010fnv.1_Splice_Site_p.R566_splice|RIF1_uc002txn.2_Splice_Site_p.R602_splice|RIF1_uc002txo.2_Splice_Site_p.R602_splice	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1						cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		TTTTTGTTCAGGTTCTTTCTC	0.284													76	184	---	---	---	---	PASS	T	152300042	T	T	152300042	5	4	36	1	0	0	0	0	0	0	1	0	13359	1014	35	3	1871	3	RIF1	2	152300042	Splice_Site	SNP	G	TCGA-22-4595-01A-01D-1267-08	20323667	152300042	90899331	53	14215										
LY75	4065	broad.mit.edu	37	chr2	160698800	160698800	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	caaagtggcgttcactgcagGatgtaaaattccacgtccca	9	11	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:160698800G>A	uc002ubc.3	-	24	3305	c.3236C>T	c.(3235-3237)TCC>TTC	p.S1079F	LY75_uc002ubb.3_Missense_Mutation_p.S1079F|LY75_uc010fos.2_Missense_Mutation_p.S1079F	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	1079	Extracellular (Potential).|C-type lectin 6.				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		TTCACTGCAGGATGTAAAATT	0.363													24	63	---	---	---	---	PASS	A	160698800	A	A	160698800	3	1	36	1	0	0	0	0	1	0	0	0	9099	1174	41	2	1980	2	LY75	2	160698800	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	8398758	160698800	82500573	54	14216										
PSMD14	10213	broad.mit.edu	37	chr2	162224035	162224035	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggacacagcagaacaagtctAtatctcttccctggcactgt	8	12	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:162224035A>G	uc002ubu.2	+	4	562	c.95A>G	c.(94-96)TAT>TGT	p.Y32C		NM_005805	NP_005796	O00487	PSDE_HUMAN	proteasome 26S subunit, non-ATPase 14	32	MPN.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K63-linked deubiquitination|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of proteasomal protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	endopeptidase activator activity|metal ion binding|metallopeptidase activity|proteasome binding|ubiquitin thiolesterase activity			breast(1)	1						GAACAAGTCTATATCTCTTCC	0.358													6	11	---	---	---	---	PASS	G	162224035	G	G	162224035	3	3	36	1	0	0	0	0	1	0	0	0	12697	449	16	5	101	5	PSMD14	2	162224035	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	1525235	162224035	80975338	55	14217										
SCN1A	6323	broad.mit.edu	37	chr2	166915199	166915199	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttattcaatactataaaagtCtgtaagacaggaacacaaca	5	7	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:166915199C>A	uc010zcz.1	-	2	283	c.265_splice	c.e2-1	p.T89_splice	SCN1A_uc002udo.3_5'Flank|SCN1A_uc010fpk.2_5'Flank	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha							voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CTATAAAAGTCTGTAAGACAG	0.343													11	33	---	---	---	---	PASS	A	166915199	A	A	166915199	5	1	36	1	0	0	0	0	0	0	1	0	13914	927	32	2	5865	2	SCN1A	2	166915199	Splice_Site	SNP	C	TCGA-22-4595-01A-01D-1267-08	4691164	166915199	76284174	56	14218										
TTN	7273	broad.mit.edu	37	chr2	179633453	179633453	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttccagccacaaaggtgtagTcagcagcatccccaaagtga	9	12	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:179633453T>C	uc010zfg.1	-	38	9334	c.9110A>G	c.(9109-9111)GAC>GGC	p.D3037G	TTN_uc010zfh.1_Missense_Mutation_p.D2991G|TTN_uc010zfi.1_Missense_Mutation_p.D2991G|TTN_uc010zfj.1_Missense_Mutation_p.D2991G|TTN_uc002unb.2_Missense_Mutation_p.D3037G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3037							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)			AAAGGTGTAGTCAGCAGCATC	0.408													11	40	---	---	---	---	PASS	C	179633453	C	C	179633453	3	2	36	1	0	0	0	0	1	0	0	0	16732	1667	58	5	102178	5	TTN	2	179633453	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	12718254	179633453	63565920	57	14219										
PLCL1	5334	broad.mit.edu	37	chr2	198950210	198950210	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	attccagtaacttgaatccaCaggacttttggaattgtggc	9	8	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:198950210C>A	uc010fsp.2	+	2	2260	c.1969C>A	c.(1969-1971)CAG>AAG	p.Q657K	PLCL1_uc002uuv.3_Missense_Mutation_p.Q578K	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	657	PI-PLC Y-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	CTTGAATCCACAGGACTTTTG	0.418													29	72	---	---	---	---	PASS	A	198950210	A	A	198950210	3	1	36	1	0	0	0	0	1	0	0	0	12039	479	17	3	1975	3	PLCL1	2	198950210	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	19316757	198950210	44249163	58	14220										
SPAG16	79582	broad.mit.edu	37	chr2	214727276	214727276	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	accgactctggaaggtgttgGgccttccaaaatgcaatgtg	12	9	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:214727276G>T	uc002veq.2	+	11	1230	c.1138G>T	c.(1138-1140)GGC>TGC	p.G380C	SPAG16_uc010fuz.1_Missense_Mutation_p.G231C|SPAG16_uc002ver.2_Missense_Mutation_p.G326C|SPAG16_uc010zjk.1_Missense_Mutation_p.G286C	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	380	WD 1.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		GAAGGTGTTGGGCCTTCCAAA	0.532													26	105	---	---	---	---	PASS	T	214727276	T	T	214727276	3	4	36	1	0	0	0	0	1	0	0	0	14978	1232	43	3	1196	3	SPAG16	2	214727276	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	15777066	214727276	28472097	59	14221										
VWC2L	402117	broad.mit.edu	37	chr2	215279254	215279254	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtcctgagtgcaaagaagtaAaaaacttctgtgaatatcac	8	7	2	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:215279254A>G	uc002vet.2	+	2	467	c.337A>G	c.(337-339)AAA>GAA	p.K113E	VWC2L_uc010zjl.1_Missense_Mutation_p.K113E	NM_001080500	NP_001073969	B2RUY7	VWC2L_HUMAN	von Willebrand factor C domain-containing	113						extracellular region					0						CAAAGAAGTAAAAAACTTCTG	0.373													9	36	---	---	---	---	PASS	G	215279254	G	G	215279254	3	3	36	1	0	0	0	0	1	0	0	0	17241	15	1	5	339	5	VWC2L	2	215279254	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	551978	215279254	27920119	60	14222										
CYP27A1	1593	broad.mit.edu	37	chr2	219679732	219679732	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aataagaaagtgggcctgcaGttcctgcagagacagtgctg	13	8	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:219679732G>A	uc002viz.3	+	9	2009	c.1575G>A	c.(1573-1575)CAG>CAA	p.Q525Q		NM_000784	NP_000775	Q02318	CP27A_HUMAN	cytochrome P450, family 27, subfamily A,	525					bile acid biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	cholestanetriol 26-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;9.48e-07)|all cancers(144;0.000171)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00981)	Cholecalciferol(DB00169)	TGGGCCTGCAGTTCCTGCAGA	0.592													42	65	---	---	---	---	PASS	A	219679732	A	A	219679732	2	1	36	1	0	0	0	0	0	0	0	1	4158	1020	36	3		3	CYP27A1	2	219679732	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	4400478	219679732	23519641	61	14223										
HDLBP	3069	broad.mit.edu	37	chr2	242192429	242192429	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cttgtggtcgatgttgatctCcacatagtccatccggttaa	9	10	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr2:242192429C>T	uc002waz.2	-	11	1543	c.1315G>A	c.(1315-1317)GAG>AAG	p.E439K	HDLBP_uc002wba.2_Missense_Mutation_p.E439K|HDLBP_uc002wbb.2_Missense_Mutation_p.E391K	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	439	KH 4.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		ATGTTGATCTCCACATAGTCC	0.562													55	186	---	---	---	---	PASS	T	242192429	T	T	242192429	3	4	36	1	0	0	0	0	1	0	0	0	7025	864	30	2	2563	2	HDLBP	2	242192429	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	22512697	242192429	1006944	62	14224										
CHL1	10752	broad.mit.edu	37	chr3	361468	361468	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcctgaagagcaatggagccGcttttacttggaagaggact	12	8	0	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:361468G>T	uc003bou.2	+	3	280	c.9G>T	c.(7-9)CCG>CCT	p.P3P	CHL1_uc003bot.2_Silent_p.P3P|CHL1_uc003bow.1_Silent_p.P3P|CHL1_uc011asi.1_Silent_p.P3P	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	3					axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix		p.P3S(1)		skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		CAATGGAGCCGCTTTTACTTG	0.373													12	17	---	---	---	---	PASS	T	361468	T	T	361468	2	4	36	1	0	0	0	0	0	0	0	1	3349	1074	38	1		1	CHL1	3	361468	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08		361468	197660962	63	14225										
CHL1	10752	broad.mit.edu	37	chr3	431056	431056	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccacacattgcgggtgatgaCgcctgctgtctatgcccctt	10	14	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:431056C>G	uc003bou.2	+	19	2592	c.2321C>G	c.(2320-2322)ACG>AGG	p.T774R	CHL1_uc003bot.2_Missense_Mutation_p.T790R|CHL1_uc003bow.1_Missense_Mutation_p.T774R|CHL1_uc011asi.1_Missense_Mutation_p.T790R	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	774	Fibronectin type-III 2.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		CGGGTGATGACGCCTGCTGTC	0.438													34	38	---	---	---	---	PASS	G	431056	G	G	431056	3	3	36	1	0	0	0	0	1	0	0	0	3349	536	19	4	2439	4	CHL1	3	431056	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	69588	431056	197591374	64	14226										
GRM7	2917	broad.mit.edu	37	chr3	7620396	7620396	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtcttcctggcaatgttgggGatcattgccaccatctttgt	10	10	3	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:7620396G>A	uc003bqm.2	+	8	2077	c.1803G>A	c.(1801-1803)GGG>GGA	p.G601G	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Silent_p.G601G|GRM7_uc003bql.2_Silent_p.G601G|GRM7_uc003bqn.1_Silent_p.G184G|GRM7_uc010hch.1_Silent_p.G112G	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	601	Helical; Name=1; (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	CAATGTTGGGGATCATTGCCA	0.532													86	123	---	---	---	---	PASS	A	7620396	A	A	7620396	2	1	36	1	0	0	0	0	0	0	0	1	6802	1161	41	2		2	GRM7	3	7620396	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	7189340	7620396	190402034	65	14227										
KIF9	64147	broad.mit.edu	37	chr3	47286396	47286396	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctcacccactaggtggccatCaacatccacaagccccgcct	6	19	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:47286396C>T	uc010hjp.2	-	16	2003	c.1399G>A	c.(1399-1401)GAT>AAT	p.D467N	KIF9_uc003cqx.2_Missense_Mutation_p.D467N|KIF9_uc003cqy.2_Missense_Mutation_p.D467N|KIF9_uc011bat.1_RNA	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	467					blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		AGGTGGCCATCAACATCCACA	0.527													18	35	---	---	---	---	PASS	T	47286396	T	T	47286396	3	4	36	1	0	0	0	0	1	0	0	0	8310	826	29	2	1001	2	KIF9	3	47286396	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	39666000	47286396	150736034	66	14228										
ITIH3	3699	broad.mit.edu	37	chr3	52829632	52829632	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttttcagaaacggagcctccCggaaggggtaagaactttca	11	9	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:52829632C>G	uc003dfv.2	+	2	143	c.107C>G	c.(106-108)CCG>CGG	p.P36R	ITIH3_uc011bek.1_Missense_Mutation_p.P36R	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	36	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		CGGAGCCTCCCGGAAGGGGTA	0.567													6	40	---	---	---	---	PASS	G	52829632	G	G	52829632	3	3	36	1	0	0	0	0	1	0	0	0	7905	652	23	4	113	4	ITIH3	3	52829632	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	5543236	52829632	145192798	67	14229										
EPHA3	2042	broad.mit.edu	37	chr3	89498436	89498436	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agcctaccgcaagttcacgtCagccagcgatgtatggagtt	11	11	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:89498436C>T	uc003dqy.2	+	14	2633	c.2408C>T	c.(2407-2409)TCA>TTA	p.S803L	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	803	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		AAGTTCACGTCAGCCAGCGAT	0.443										TSP Lung(6;0.00050)			82	266	---	---	---	---	PASS	T	89498436	T	T	89498436	3	4	36	1	0	0	0	0	1	0	0	0	5168	838	29	2	2488	2	EPHA3	3	89498436	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	36668804	89498436	108523994	68	14230										
KIAA1524	57650	broad.mit.edu	37	chr3	108270104	108270104	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcctcttgctgaagtttcacCaaggactctttctcttccaa	5	13	4	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:108270104C>A	uc003dxb.3	-	21	2879	c.2610G>T	c.(2608-2610)TTG>TTT	p.L870F		NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	870	Potential.					cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						GAAGTTTCACCAAGGACTCTT	0.428													14	62	---	---	---	---	PASS	A	108270104	A	A	108270104	3	1	36	1	0	0	0	0	1	0	0	0	8239	593	21	3	111	3	KIAA1524	3	108270104	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	18771668	108270104	89752326	69	14231										
ZNF80	7634	broad.mit.edu	37	chr3	113955261	113955261	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtaaaaacctttcccacattCtttgcactcgtagggctttc	6	12	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:113955261C>A	uc010hqo.2	-	1	1165	c.661G>T	c.(661-663)GAA>TAA	p.E221*	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	221	C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)				TTCCCACATTCTTTGCACTCG	0.483													70	292	---	---	---	---	PASS	A	113955261	A	A	113955261	4	1	36	1	0	0	0	0	0	1	0	0	18165	922	32	2	164	2	ZNF80	3	113955261	Nonsense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	5685157	113955261	84067169	70	14232										
IQCB1	9657	broad.mit.edu	37	chr3	121518141	121518141	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cagtacttcttataactggaCtaggagttgaaaaaagcttg	9	6	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:121518141C>T	uc010hre.1	-	8	883	c.668G>A	c.(667-669)AGT>AAT	p.S223N	IQCB1_uc003eek.2_Intron|IQCB1_uc010hrf.1_RNA	NM_001023570	NP_001018864	Q15051	IQCB1_HUMAN	IQ motif containing B1 isoform a	223					cilium assembly|maintenance of organ identity|photoreceptor cell maintenance	centrosome|photoreceptor connecting cilium	calmodulin binding				0				GBM - Glioblastoma multiforme(114;0.0983)		TATAACTGGACTAGGAGTTGA	0.333													10	55	---	---	---	---	PASS	T	121518141	T	T	121518141	3	4	36	1	0	0	0	0	1	0	0	0	7803	565	20	3	1160	3	IQCB1	3	121518141	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	7562880	121518141	76504289	71	14233										
CASR	846	broad.mit.edu	37	chr3	122003471	122003471	+	Silent	SNP	C	T	T													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gctgcccgggccacgctgcgCcgcagcaacgtctcccgcaa							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:122003471C>T	uc003eev.3	+	7	3042	c.2670C>T	c.(2668-2670)CGC>CGT	p.R890R	CASR_uc003eew.3_Silent_p.R900R	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	890	Cytoplasmic (Potential).|Interaction with RNF19A.				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	CCACGCTGCGCCGCAGCAACG	0.627													24	52	---	---	---	---	PASS	T	122003471	T	T	122003471	2	4	36	1	0	0	0	0	0	0	0	1	2682	726	26	3		3	CASR	3	122003471	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	485330	122003471	76018959	72	14234	363	2								
CASR	846	broad.mit.edu	37	chr3	122003473	122003473	+	Missense_Mutation	SNP	G	C	C													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgcccgggccacgctgcgccGcagcaacgtctcccgcaagc							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:122003473G>C	uc003eev.3	+	7	3044	c.2672G>C	c.(2671-2673)CGC>CCC	p.R891P	CASR_uc003eew.3_Missense_Mutation_p.R901P	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	891	Cytoplasmic (Potential).|Interaction with RNF19A.				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	ACGCTGCGCCGCAGCAACGTC	0.627													26	50	---	---	---	---	PASS	C	122003473	C	C	122003473	3	2	36	1	0	0	0	0	1	0	0	0	2682	1087	38	4	2724	4	CASR	3	122003473	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	2	122003473	76018957	73	14235	363	2								
HEG1	57493	broad.mit.edu	37	chr3	124732636	124732636	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gaaaaaaggaggaatactctGaatgtgaagagtttgagatt	12	2	1	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:124732636G>A	uc003ehs.3	-	6	1855	c.1787C>T	c.(1786-1788)TCA>TTA	p.S596L	HEG1_uc011bke.1_Missense_Mutation_p.S696L	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	596	Extracellular (Potential).|Ser-rich.					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						GGAATACTCTGAATGTGAAGA	0.418													26	104	---	---	---	---	PASS	A	124732636	A	A	124732636	3	1	36	1	0	0	0	0	1	0	0	0	7044	1294	45	2	2406	2	HEG1	3	124732636	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	2729163	124732636	73289794	74	14236										
COPG	22820	broad.mit.edu	37	chr3	128971157	128971157	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	atgaaactcccatcaaccctCggaaatgtgcccacatcctc	5	16	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:128971157C>T	uc003els.2	+	3	224	c.124C>T	c.(124-126)CGG>TGG	p.R42W	COPG_uc010htb.2_5'UTR	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	42					COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						CATCAACCCTCGGAAATGTGC	0.453													69	193	---	---	---	---	PASS	T	128971157	T	T	128971157	3	4	36	1	0	0	0	0	1	0	0	0	3731	875	31	2	134	2	COPG	3	128971157	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	4238521	128971157	69051273	75	14237										
EPHB1	2047	broad.mit.edu	37	chr3	134920518	134920518	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgacacctcagatcccacctAcaccagctccttggtgagtc	7	16	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:134920518A>T	uc003eqt.2	+	12	2553	c.2333A>T	c.(2332-2334)TAC>TTC	p.Y778F	EPHB1_uc003equ.2_Missense_Mutation_p.Y339F	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	778	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GATCCCACCTACACCAGCTCC	0.537													26	99	---	---	---	---	PASS	T	134920518	T	T	134920518	3	4	36	1	0	0	0	0	1	0	0	0	5174	391	14	5	2379	5	EPHB1	3	134920518	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	5949361	134920518	63101912	76	14238										
LRRIQ4	344657	broad.mit.edu	37	chr3	169546579	169546579	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttgggctcactttcaaaactGaagatacttggactaacagg	9	8	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:169546579G>T	uc003fgb.2	+	2	1053	c.1053G>T	c.(1051-1053)CTG>CTT	p.L351L		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	351	LRR 15.										0						TTTCAAAACTGAAGATACTTG	0.373													118	143	---	---	---	---	PASS	T	169546579	T	T	169546579	2	4	36	1	0	0	0	0	0	0	0	1	9031	1277	45	2		2	LRRIQ4	3	169546579	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	34626061	169546579	28475851	77	14239										
NAALADL2	254827	broad.mit.edu	37	chr3	175042061	175042061	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcctagccatgataccttcaTggtgtcactgaatccaggag	9	11	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:175042061T>G	uc003fit.2	+	5	1124	c.1037T>G	c.(1036-1038)ATG>AGG	p.M346R	NAALADL2_uc003fiu.1_Missense_Mutation_p.M339R|NAALADL2_uc010hwy.1_Missense_Mutation_p.M168R|NAALADL2_uc010hwz.1_Intron	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	346	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		GATACCTTCATGGTGTCACTG	0.423													104	565	---	---	---	---	PASS	G	175042061	G	G	175042061	3	3	36	1	0	0	0	0	1	0	0	0	10130	1464	51	5	1055	5	NAALADL2	3	175042061	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	5495482	175042061	22980369	78	14240										
CCDC39	339829	broad.mit.edu	37	chr3	180366086	180366086	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tttctttcattgtctcagtcTgtaactcctgagctttctta	5	10	5	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:180366086T>C	uc010hxe.2	-	10	1344	c.1229A>G	c.(1228-1230)CAG>CGG	p.Q410R	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	410	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TGTCTCAGTCTGTAACTCCTG	0.333													45	250	---	---	---	---	PASS	C	180366086	C	C	180366086	3	2	36	1	0	0	0	0	1	0	0	0	2811	1580	55	5	1640	5	CCDC39	3	180366086	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	5324025	180366086	17656344	79	14241										
KLHL24	54800	broad.mit.edu	37	chr3	183368731	183368731	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttttgcgttacagacttttgAggatgtatcccagcacgaag	10	8	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:183368731A>T	uc003flv.2	+	3	882	c.587A>T	c.(586-588)GAG>GTG	p.E196V	KLHL24_uc003flw.2_Missense_Mutation_p.E196V|KLHL24_uc003flx.2_Missense_Mutation_p.E196V	NM_017644	NP_060114	Q6TFL4	KLH24_HUMAN	DRE1 protein	196	BACK.					axon|cytoplasm|perikaryon				ovary(1)	1	all_cancers(143;2.88e-10)|Ovarian(172;0.0303)		all cancers(12;1.43e-42)|Epithelial(37;1.73e-36)|OV - Ovarian serous cystadenocarcinoma(80;8.75e-22)			CAGACTTTTGAGGATGTATCC	0.363													203	233	---	---	---	---	PASS	T	183368731	T	T	183368731	3	4	36	1	0	0	0	0	1	0	0	0	8379	304	11	5	589	5	KLHL24	3	183368731	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	3002645	183368731	14653699	80	14242										
PARL	55486	broad.mit.edu	37	chr3	183551362	183551362	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcctgctgtatccatggcgaTaatggctttcagggcctgaa	11	10	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:183551362T>G	uc003fmd.2	-	9	1005	c.946A>C	c.(946-948)ATC>CTC	p.I316L	PARL_uc003fme.2_Missense_Mutation_p.I266L	NM_018622	NP_061092	Q9H300	PARL_HUMAN	presenilin associated, rhomboid-like isoform 1	316	Helical; (Potential).				proteolysis	integral to membrane|mitochondrial inner membrane|nucleus	serine-type endopeptidase activity				0	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.21e-41)|Epithelial(37;1.34e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TCCATGGCGATAATGGCTTTC	0.453													26	112	---	---	---	---	PASS	G	183551362	G	G	183551362	3	3	36	1	0	0	0	0	1	0	0	0	11451	1406	49	5	201	5	PARL	3	183551362	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	182631	183551362	14471068	81	14243										
ABCC5	10057	broad.mit.edu	37	chr3	183645225	183645225	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttcaagtttcagaggtagctGagcaatctagggagaaagaa	12	5	3	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:183645225G>T	uc003fmg.2	-	28	4105	c.3940C>A	c.(3940-3942)CAG>AAG	p.Q1314K	ABCC5_uc011bqt.1_Missense_Mutation_p.Q842K|ABCC5_uc010hxl.2_Missense_Mutation_p.Q1271K	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	1314	ABC transporter 2.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			AGAGGTAGCTGAGCAATCTAG	0.458													8	82	---	---	---	---	PASS	T	183645225	T	T	183645225	3	4	36	1	0	0	0	0	1	0	0	0	56	1299	45	2	385	2	ABCC5	3	183645225	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	93863	183645225	14377205	82	14244										
HTR3D	200909	broad.mit.edu	37	chr3	183756643	183756643	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cgggaacacgaggcccagaaGcagcactcggtggagctgtg	16	11	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:183756643G>T	uc011bqv.1	+	8	1245	c.1245G>T	c.(1243-1245)AAG>AAT	p.K415N	HTR3D_uc003fmj.2_Missense_Mutation_p.K240N|HTR3D_uc011bqu.1_Missense_Mutation_p.K365N|HTR3D_uc010hxp.2_Missense_Mutation_p.K194N	NM_001163646	NP_001157118	Q70Z44	5HT3D_HUMAN	5-hydroxytryptamine receptor 3 subunit D isoform	415	Cytoplasmic (Potential).					integral to membrane|plasma membrane	extracellular ligand-gated ion channel activity|receptor activity				0	all_cancers(143;2.33e-10)|Ovarian(172;0.0303)		Epithelial(37;6.23e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			AGGCCCAGAAGCAGCACTCGG	0.637													50	154	---	---	---	---	PASS	T	183756643	T	T	183756643	3	4	36	1	0	0	0	0	1	0	0	0	7447	962	34	3	1445	3	HTR3D	3	183756643	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	111418	183756643	14265787	83	14245										
VPS8	23355	broad.mit.edu	37	chr3	184580696	184580696	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gaattacagtggataaattcAcgcacagttgtgctcttaga	9	7	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:184580696A>T	uc003fpb.1	+	15	1401	c.1230A>T	c.(1228-1230)TCA>TCT	p.S410S	VPS8_uc010hyd.1_Silent_p.S410S	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	412							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			GGATAAATTCACGCACAGTTG	0.438													41	248	---	---	---	---	PASS	T	184580696	T	T	184580696	2	4	36	1	0	0	0	0	0	0	0	1	17215	146	6	5		5	VPS8	3	184580696	Silent	SNP	A	TCGA-22-4595-01A-01D-1267-08	824053	184580696	13441734	84	14246										
RFC4	5984	broad.mit.edu	37	chr3	186508180	186508180	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agcaaatactccatcaatttTctcagctggtattacctagg	6	10	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:186508180T>C	uc003fqz.2	-	9	1040	c.817A>G	c.(817-819)AAA>GAA	p.K273E	RFC4_uc011bsc.1_Missense_Mutation_p.K273E	NM_002916	NP_002907	P35249	RFC4_HUMAN	replication factor C 4	273					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|phosphatidylinositol-mediated signaling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|large_intestine(1)	5	all_cancers(143;2.92e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)	GBM - Glioblastoma multiforme(93;0.0739)		CCATCAATTTTCTCAGCTGGT	0.443													35	174	---	---	---	---	PASS	C	186508180	C	C	186508180	3	2	36	1	0	0	0	0	1	0	0	0	13247	1792	62	5	286	5	RFC4	3	186508180	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	1927484	186508180	11514250	85	14247										
MUC4	4585	broad.mit.edu	37	chr3	195475876	195475876	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gccgctctgggggctgtagaCcaggtcgtagcccttgtagc	15	12	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr3:195475876C>G	uc011bto.1	-	25	16007	c.15547G>C	c.(15547-15549)GTC>CTC	p.V5183L	MUC4_uc010hzq.2_Missense_Mutation_p.V168L|MUC4_uc003fuz.2_Missense_Mutation_p.V909L|MUC4_uc003fva.2_Missense_Mutation_p.V791L|MUC4_uc003fvb.2_Missense_Mutation_p.V827L|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.V827L|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.V791L|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.V875L|MUC4_uc011bti.1_Missense_Mutation_p.V875L|MUC4_uc011btj.1_Missense_Mutation_p.V1052L|MUC4_uc011btk.1_Missense_Mutation_p.V791L|MUC4_uc011btl.1_Missense_Mutation_p.V820L|MUC4_uc011btm.1_Missense_Mutation_p.V1000L|MUC4_uc011btn.1_Missense_Mutation_p.V791L|MUC4_uc003fvo.2_Missense_Mutation_p.V1075L|MUC4_uc003fvp.2_Missense_Mutation_p.V1024L	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	2068					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGGCTGTAGACCAGGTCGTAG	0.602													19	103	---	---	---	---	PASS	G	195475876	G	G	195475876	3	3	36	1	0	0	0	0	1	0	0	0	9978	507	18	4	315	4	MUC4	3	195475876	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	8967696	195475876	2546554	86	14248										
GABRB1	2560	broad.mit.edu	37	chr4	47033717	47033717	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tggggcttctctctttccctGtgatgattaccatggtctgt	10	10	3	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:47033717G>T	uc003gxh.2	+	1	423	c.49G>T	c.(49-51)GTG>TTG	p.V17L	GABRB1_uc011bze.1_5'UTR|GABRB1_uc011bzd.1_Missense_Mutation_p.V17L|GABRB1_uc010igg.2_RNA	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	17					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			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	CTCTTTCCCTGTGATGATTAC	0.338													77	265	---	---	---	---	PASS	T	47033717	T	T	47033717	3	4	36	1	0	0	0	0	1	0	0	0	6166	1377	48	3	51	3	GABRB1	4	47033717	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08		47033717	144120559	87	14249										
CWH43	80157	broad.mit.edu	37	chr4	49052819	49052819	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tatagagacaaccagaaagtGgtcatagaccacagagaagt	10	7	1	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:49052819G>C	uc003gyv.2	+	15	2156	c.1974G>C	c.(1972-1974)GTG>GTC	p.V658V	CWH43_uc011bzl.1_Silent_p.V631V	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	658					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						ACCAGAAAGTGGTCATAGACC	0.408													21	85	---	---	---	---	PASS	C	49052819	C	C	49052819	2	2	36	1	0	0	0	0	0	0	0	1	4073	1335	47	4		4	CWH43	4	49052819	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	2019102	49052819	142101457	88	14250										
PDGFRA	5156	broad.mit.edu	37	chr4	55127335	55127335	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aatgaaaaggttgtgcagctGaattcatccttttctctgag	9	7	2	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:55127335G>C	uc003han.3	+	3	454	c.123G>C	c.(121-123)CTG>CTC	p.L41L	PDGFRA_uc003haa.2_Intron|PDGFRA_uc003hal.2_Silent_p.L41L|PDGFRA_uc010igq.1_Intron|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	41	Ig-like C2-type 1.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	TTGTGCAGCTGAATTCATCCT	0.463			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			87	215	---	---	---	---	PASS	C	55127335	C	C	55127335	2	2	36	1	0	0	0	0	0	0	0	1	11661	1277	45	2		2	PDGFRA	4	55127335	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	6074516	55127335	136026941	89	14251										
UGT2B4	7363	broad.mit.edu	37	chr4	70352343	70352343	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttaccaagaagatcattctgGggtatccacttgtacagccg	9	10	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:70352343G>T	uc003hek.3	-	4	1121	c.1074C>A	c.(1072-1074)CCC>CCA	p.P358P	UGT2B4_uc011cap.1_Silent_p.P222P|UGT2B4_uc003hel.3_Silent_p.P358P	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	358					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						GATCATTCTGGGGTATCCACT	0.338													33	209	---	---	---	---	PASS	T	70352343	T	T	70352343	2	4	36	1	0	0	0	0	0	0	0	1	16958	1219	43	3		3	UGT2B4	4	70352343	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	15225008	70352343	120801933	90	14252										
CCDC158	339965	broad.mit.edu	37	chr4	77290599	77290599	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctgccgctccatctggccctGacactcgctcttcaaggcct	8	18	3	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:77290599G>A	uc003hkb.3	-	10	1480	c.1327C>T	c.(1327-1329)CAG>TAG	p.Q443*		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	443	Potential.									skin(3)|ovary(2)|pancreas(1)	6						ATCTGGCCCTGACACTCGCTC	0.542													25	90	---	---	---	---	PASS	A	77290599	A	A	77290599	4	1	36	1	0	0	0	0	0	1	0	0	2790	1299	45	2	2074	2	CCDC158	4	77290599	Nonsense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	6938256	77290599	113863677	91	14253										
BMP3	651	broad.mit.edu	37	chr4	81967617	81967617	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggcctcatcggaagagccagAcgctccaatttgatgagcag	12	11	1	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:81967617A>T	uc003hmg.3	+	2	1362	c.1042A>T	c.(1042-1044)ACG>TCG	p.T348S		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	348					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						GAAGAGCCAGACGCTCCAATT	0.493													16	59	---	---	---	---	PASS	T	81967617	T	T	81967617	3	4	36	1	0	0	0	0	1	0	0	0	1461	275	10	5	1048	5	BMP3	4	81967617	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	4677018	81967617	109186659	92	14254										
C4orf17	84103	broad.mit.edu	37	chr4	100460363	100460363	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	attcattctgagcttgccgaGataaacctgttaactcatca	6	10	4	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:100460363G>A	uc003huw.2	+	7	995	c.672G>A	c.(670-672)GAG>GAA	p.E224E	C4orf17_uc003hux.2_RNA	NM_032149	NP_115525	Q53FE4	CD017_HUMAN	hypothetical protein LOC84103	224											0				OV - Ovarian serous cystadenocarcinoma(123;2.08e-08)		AGCTTGCCGAGATAAACCTGT	0.438													97	205	---	---	---	---	PASS	A	100460363	A	A	100460363	2	1	36	1	0	0	0	0	0	0	0	1	2252	933	33	2		2	C4orf17	4	100460363	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	18492746	100460363	90693913	93	14255										
ANK2	287	broad.mit.edu	37	chr4	114267166	114267166	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aacttaaacatcactttgccGatttatacaaaggtatcgta	5	8	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:114267166G>C	uc003ibe.3	+	35	4459	c.4359G>C	c.(4357-4359)CCG>CCC	p.P1453P	ANK2_uc003ibd.3_Silent_p.P1444P|ANK2_uc003ibf.3_Silent_p.P1453P|ANK2_uc011cgc.1_Silent_p.P629P|ANK2_uc003ibg.3_Silent_p.P448P|ANK2_uc003ibh.3_Silent_p.P127P|ANK2_uc011cgb.1_Silent_p.P1468P	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1420					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TCACTTTGCCGATTTATACAA	0.373													34	72	---	---	---	---	PASS	C	114267166	C	C	114267166	2	2	36	1	0	0	0	0	0	0	0	1	621	1045	37	2		2	ANK2	4	114267166	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	13806803	114267166	76887110	94	14256										
EXOSC9	5393	broad.mit.edu	37	chr4	122722986	122722986	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gaatttgtgcttacagcggcTggatggcagacaaacctatg	12	8	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:122722986T>G	uc003iea.2	+	2	179	c.71T>G	c.(70-72)CTG>CGG	p.L24R	EXOSC9_uc003idz.2_Missense_Mutation_p.L24R|EXOSC9_uc003ieb.2_Missense_Mutation_p.L8R|EXOSC9_uc010inp.1_5'Flank	NM_005033	NP_005024	Q06265	EXOS9_HUMAN	exosome component 9 isoform 2	24	ARE binding.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|immune response|nuclear mRNA surveillance|nuclear polyadenylation-dependent rRNA catabolic process|positive regulation of cell growth|rRNA processing	cytosol|nuclear exosome (RNase complex)|nucleolus|nucleolus|nucleus	3'-5'-exoribonuclease activity|AU-rich element binding|protein binding				0						TTACAGCGGCTGGATGGCAGA	0.259													31	81	---	---	---	---	PASS	G	122722986	G	G	122722986	3	3	36	1	0	0	0	0	1	0	0	0	5321	1580	55	5	77	5	EXOSC9	4	122722986	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	8455820	122722986	68431290	95	14257										
HHIP	64399	broad.mit.edu	37	chr4	145640048	145640048	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgaagtttacattttatcaaGcagtaaaagtatgacccaga	7	6	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:145640048G>C	uc003ijs.1	+	11	2355	c.1700G>C	c.(1699-1701)AGC>ACC	p.S567T		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	567						cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		ATTTTATCAAGCAGTAAAAGT	0.328													26	71	---	---	---	---	PASS	C	145640048	C	C	145640048	3	2	36	1	0	0	0	0	1	0	0	0	7092	971	34	4	1742	4	HHIP	4	145640048	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	22917062	145640048	45514228	96	14258										
GUCY1B3	2983	broad.mit.edu	37	chr4	156721094	156721094	+	Frame_Shift_Del	DEL	C	-	-													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgacatccctctgcatgatgCcacgcgcgatcttgttcttt							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:156721094delC	uc003ipc.2	+	9	1210	c.1043delC	c.(1042-1044)GCCfs	p.A348fs	GUCY1B3_uc011cio.1_Frame_Shift_Del_p.A370fs|GUCY1B3_uc011cip.1_Frame_Shift_Del_p.A328fs|GUCY1B3_uc003ipd.2_Frame_Shift_Del_p.A276fs|GUCY1B3_uc010iqf.2_Frame_Shift_Del_p.A348fs|GUCY1B3_uc010iqg.2_Frame_Shift_Del_p.A276fs|GUCY1B3_uc011ciq.1_Frame_Shift_Del_p.A276fs	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	348					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		CTGCATGATGCCACGCGCGAT	0.458													81	48	---	---	---	---		-	156721094	-	-	156721094	7	5	36	1	0	1	0	1	0	0	0	0	6895	739	26	0	1077	0	GUCY1B3	4	156721094	Frame_Shift_Del	DEL	C	TCGA-22-4595-01A-01D-1267-08	11081046	156721094	34433182	97	14259										
ACCN5	51802	broad.mit.edu	37	chr4	156757953	156757953	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttctatttcttcacaagaaaCggggcagctagagttatgtg	10	7	3	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:156757953C>A	uc003ipe.1	-	8	1170	c.1123G>T	c.(1123-1125)GTT>TTT	p.V375F		NM_017419	NP_059115	Q9NY37	ACCN5_HUMAN	amiloride-sensitive cation channel 5,	375	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0464)|Kidney(143;0.058)|COAD - Colon adenocarcinoma(41;0.141)		TCACAAGAAACGGGGCAGCTA	0.363													27	101	---	---	---	---	PASS	A	156757953	A	A	156757953	3	1	36	1	0	0	0	0	1	0	0	0	132	536	19	1	406	1	ACCN5	4	156757953	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	36859	156757953	34396323	98	14260										
FNIP2	57600	broad.mit.edu	37	chr4	159782811	159782811	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cctaccacctggcctgggtcCcaactgtcatgcctgtggat	10	15	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:159782811C>G	uc003iqe.3	+	12	1531	c.1348C>G	c.(1348-1350)CCA>GCA	p.P450A		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	450					DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		GGCCTGGGTCCCAACTGTCAT	0.473													51	155	---	---	---	---	PASS	G	159782811	G	G	159782811	3	3	36	1	0	0	0	0	1	0	0	0	5976	623	22	4	1394	4	FNIP2	4	159782811	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	3024858	159782811	31371465	99	14261										
CCDC110	256309	broad.mit.edu	37	chr4	186380094	186380094	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcactttgagttttgtgttcCttactttttagttgatctaa	6	6	2	2	rs17853848		TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr4:186380094C>A	uc003ixu.3	-	6	1723	c.1647G>T	c.(1645-1647)AAG>AAT	p.K549N	CCDC110_uc003ixv.3_Missense_Mutation_p.K512N|CCDC110_uc011ckt.1_Missense_Mutation_p.K549N	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	549	Potential.					nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		TTTTGTGTTCCTTACTTTTTA	0.303													11	47	---	---	---	---	PASS	A	186380094	A	A	186380094	3	1	36	1	0	0	0	0	1	0	0	0	2747	680	24	3	862	3	CCDC110	4	186380094	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	26597283	186380094	4774182	100	14262										
SEMA5A	9037	broad.mit.edu	37	chr5	9052140	9052140	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccgaccactccgaccagctcTctgcagagaccagaaaaggg	10	15	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:9052140T>G	uc003jek.2	-	20	3402	c.2690A>C	c.(2689-2691)GAG>GCG	p.E897A		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	897	Extracellular (Potential).|TSP type-1 7.				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						CGACCAGCTCTCTGCAGAGAC	0.572													9	33	---	---	---	---	PASS	G	9052140	G	G	9052140	3	3	36	1	0	0	0	0	1	0	0	0	14037	1565	54	5	550	5	SEMA5A	5	9052140	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08		9052140	171863120	101	14263										
PRDM9	56979	broad.mit.edu	37	chr5	23524526	23524526	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gatcttctatagaacctgccGagtcattaggccaggctgtg	11	10	3	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:23524526G>T	uc003jgo.2	+	10	1216	c.1034G>T	c.(1033-1035)CGA>CTA	p.R345L		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	345	SET.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AGAACCTGCCGAGTCATTAGG	0.552										HNSCC(3;0.000094)			32	57	---	---	---	---	PASS	T	23524526	T	T	23524526	3	4	36	1	0	0	0	0	1	0	0	0	12463	1058	37	2	1068	2	PRDM9	5	23524526	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	14472386	23524526	157390734	102	14264										
CDH9	1007	broad.mit.edu	37	chr5	26988403	26988403	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	caactgtatggaacatatagGtccagatgaataatggtata	9	5	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:26988403G>A	uc003jgs.1	-	2	207	c.38C>T	c.(37-39)ACC>ATC	p.T13I	CDH9_uc010iug.2_Missense_Mutation_p.T13I	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	13					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						GAACATATAGGTCCAGATGAA	0.343													34	155	---	---	---	---	PASS	A	26988403	A	A	26988403	3	1	36	1	0	0	0	0	1	0	0	0	3117	1261	44	3	2375	3	CDH9	5	26988403	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	3463877	26988403	153926857	103	14265										
MTMR12	54545	broad.mit.edu	37	chr5	32233887	32233887	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tggacatcttactttgaagcGcattcctttccgttggcctt	8	11	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:32233887G>A	uc003jhq.2	-	15	1836	c.1666C>T	c.(1666-1668)CGC>TGC	p.R556C	MTMR12_uc010iuk.2_Intron|MTMR12_uc010iul.2_Intron	NM_001040446	NP_001035536	Q9C0I1	MTMRC_HUMAN	myotubularin related protein 12	556	Myotubularin phosphatase.|Interaction with MTM1.					cytoplasm	phosphatase activity			ovary(1)	1						ACTTTGAAGCGCATTCCTTTC	0.473													6	579	---	---	---	---	PASS	A	32233887	A	A	32233887	3	1	36	1	0	0	0	0	1	0	0	0	9941	1087	38	1	585	1	MTMR12	5	32233887	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	5245484	32233887	148681373	104	14266										
NIPBL	25836	broad.mit.edu	37	chr5	36958243	36958243	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttggcagtgatgacccagaaGgtgacataccagtcttgttg	12	8	1	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:36958243G>T	uc003jkl.3	+	4	767	c.268G>T	c.(268-270)GGT>TGT	p.G90C	NIPBL_uc003jkk.3_Missense_Mutation_p.G90C	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	90					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			TGACCCAGAAGGTGACATACC	0.403													44	157	---	---	---	---	PASS	T	36958243	T	T	36958243	3	4	36	1	0	0	0	0	1	0	0	0	10428	1000	35	3	278	3	NIPBL	5	36958243	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	4724356	36958243	143957017	105	14267										
MRPS30	10884	broad.mit.edu	37	chr5	44809368	44809368	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cgcagaccttcgcgctgaatGccgaccgctggtaccagtac	11	15	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:44809368G>C	uc003joh.2	+	1	342	c.304G>C	c.(304-306)GCC>CCC	p.A102P	MRPS30_uc003joi.1_5'Flank	NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	102					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)					CGCGCTGAATGCCGACCGCTG	0.493													21	35	---	---	---	---	PASS	C	44809368	C	C	44809368	3	2	36	1	0	0	0	0	1	0	0	0	9840	1319	46	4	306	4	MRPS30	5	44809368	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	7851125	44809368	136105892	106	14268										
POC5	134359	broad.mit.edu	37	chr5	75008707	75008707	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcgaagagacagaactgcctCgactggagtcattttgcaca	10	10	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:75008707C>T	uc003keh.3	-	2	253	c.56G>A	c.(55-57)CGA>CAA	p.R19Q	POC5_uc010izu.2_5'Flank|POC5_uc003keg.3_5'Flank	NM_001099271	NP_001092741	Q8NA72	POC5_HUMAN	proteome of centriole 5 isoform 1	19					cell cycle	centriole				lung(1)	1						AGAACTGCCTCGACTGGAGTC	0.343													6	21	---	---	---	---	PASS	T	75008707	T	T	75008707	3	4	36	1	0	0	0	0	1	0	0	0	12177	884	31	2	1728	2	POC5	5	75008707	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	30199339	75008707	105906553	107	14269										
CMYA5	202333	broad.mit.edu	37	chr5	79028281	79028281	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aaaatggagcctcagcctccAaatgttccagagtctgagat	9	10	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:79028281A>T	uc003kgc.2	+	2	3765	c.3693A>T	c.(3691-3693)CCA>CCT	p.P1231P		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1231						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CTCAGCCTCCAAATGTTCCAG	0.413													13	16	---	---	---	---	PASS	T	79028281	T	T	79028281	2	4	36	1	0	0	0	0	0	0	0	1	3590	117	5	5		5	CMYA5	5	79028281	Silent	SNP	A	TCGA-22-4595-01A-01D-1267-08	4019574	79028281	101886979	108	14270										
GPR98	84059	broad.mit.edu	37	chr5	89913642	89913642	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgtatggagaggacgctggtGacttttttgacacatatgct	12	6	0	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:89913642G>T	uc003kju.2	+	3	325	c.229G>T	c.(229-231)GAC>TAC	p.D77Y	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	77	Extracellular (Potential).|Calx-beta 1.				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GGACGCTGGTGACTTTTTTGA	0.378													4	15	---	---	---	---	PASS	T	89913642	T	T	89913642	3	4	36	1	0	0	0	0	1	0	0	0	6721	1290	45	2	239	2	GPR98	5	89913642	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	10885361	89913642	91001618	109	14271										
RIOK2	55781	broad.mit.edu	37	chr5	96514781	96514781	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttggtacgctcccaagctatGagtttatgtttcactaattc	7	9	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:96514781G>C	uc003kmz.2	-	2	293	c.183C>G	c.(181-183)CTC>CTG	p.L61L	RIOK2_uc003kna.3_Silent_p.L61L	NM_018343	NP_060813	Q9BVS4	RIOK2_HUMAN	RIO kinase 2 isoform 1	61							ATP binding|protein serine/threonine kinase activity			kidney(1)	1		all_cancers(142;0.000125)|all_epithelial(76;8.48e-07)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0676)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0657)		CCCAAGCTATGAGTTTATGTT	0.318													15	51	---	---	---	---	PASS	C	96514781	C	C	96514781	2	2	36	1	0	0	0	0	0	0	0	1	13378	1277	45	2		2	RIOK2	5	96514781	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	6601139	96514781	84400479	110	14272										
FSTL4	23105	broad.mit.edu	37	chr5	132939579	132939579	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gactcccccacacccacatcCgggcctctgctggttcctgg	9	19	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:132939579C>A	uc003kyn.1	-	2	314	c.96G>T	c.(94-96)CCG>CCT	p.P32P		NM_015082	NP_055897	Q6MZW2	FSTL4_HUMAN	follistatin-like 4 precursor	32						extracellular region	calcium ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(142;0.244)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CACCCACATCCGGGCCTCTGC	0.537													53	105	---	---	---	---	PASS	A	132939579	A	A	132939579	2	1	36	1	0	0	0	0	0	0	0	1	6079	639	23	1		1	FSTL4	5	132939579	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	36424798	132939579	47975681	111	14273										
PDE6A	5145	broad.mit.edu	37	chr5	149324107	149324107	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtggtagttgctgaagtccaCggcagcctccttggccccaa	12	13	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:149324107C>T	uc003lrg.3	-	1	250	c.130G>A	c.(130-132)GTG>ATG	p.V44M		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	44					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CTGAAGTCCACGGCAGCCTCC	0.527													35	39	---	---	---	---	PASS	T	149324107	T	T	149324107	3	4	36	1	0	0	0	0	1	0	0	0	11645	536	19	1	2540	1	PDE6A	5	149324107	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	16384528	149324107	31591153	112	14274										
NDST1	3340	broad.mit.edu	37	chr5	149901021	149901021	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tggcccccagtcgcctgctgCcactcaagcctgtgcaggca	11	17	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:149901021C>T	uc003lsk.3	+	2	707	c.205C>T	c.(205-207)CCA>TCA	p.P69S	NDST1_uc011dcj.1_Missense_Mutation_p.P69S|NDST1_uc003lsl.2_Missense_Mutation_p.P69S	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	69	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCGCCTGCTGCCACTCAAGCC	0.677													17	22	---	---	---	---	PASS	T	149901021	T	T	149901021	3	4	36	1	0	0	0	0	1	0	0	0	10255	739	26	3	207	3	NDST1	5	149901021	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	576914	149901021	31014239	113	14275										
ZNF300	91975	broad.mit.edu	37	chr5	150276413	150276413	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tctctgcagctgaccatcacCttgacagacttttaaaatgg	7	11	2	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:150276413C>A	uc003lsy.1	-	6	655	c.388G>T	c.(388-390)GGT>TGT	p.G130C	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	130					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGACCATCACCTTGACAGACT	0.428													106	138	---	---	---	---	PASS	A	150276413	A	A	150276413	3	1	36	1	0	0	0	0	1	0	0	0	17828	681	24	3	1430	3	ZNF300	5	150276413	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	375392	150276413	30638847	114	14276										
CYFIP2	26999	broad.mit.edu	37	chr5	156819909	156819909	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aatgaggtttttgccatcctGaacaaatacatgaagtccgt	8	8	0	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:156819909G>A	uc003lwq.2	+	33	3801	c.3663G>A	c.(3661-3663)CTG>CTA	p.L1221L	CYFIP2_uc011ddn.1_Silent_p.L1195L|CYFIP2_uc011ddo.1_Silent_p.L1025L|CYFIP2_uc003lwr.2_Silent_p.L1221L|CYFIP2_uc003lws.2_Silent_p.L1221L|CYFIP2_uc003lwt.2_Silent_p.L1124L|CYFIP2_uc011ddp.1_Silent_p.L955L|CYFIP2_uc003lwv.2_Silent_p.L176L	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	1246					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)			TTGCCATCCTGAACAAATACA	0.517													41	162	---	---	---	---	PASS	A	156819909	A	A	156819909	2	1	36	1	0	0	0	0	0	0	0	1	4138	1277	45	2		2	CYFIP2	5	156819909	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	6543496	156819909	24095351	115	14277										
DOCK2	1794	broad.mit.edu	37	chr5	169122822	169122822	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cccaggatcttggaaacaaaGacctcaacagggataaaatt	8	9	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:169122822G>T	uc003maf.2	+	10	939	c.859G>T	c.(859-861)GAC>TAC	p.D287Y	DOCK2_uc011der.1_RNA	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	287					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGGAAACAAAGACCTCAACAG	0.418													136	135	---	---	---	---	PASS	T	169122822	T	T	169122822	3	4	36	1	0	0	0	0	1	0	0	0	4687	942	33	2	897	2	DOCK2	5	169122822	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	12302913	169122822	11792438	116	14278										
NSD1	64324	broad.mit.edu	37	chr5	176638319	176638319	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aaaaagggagatggcactcaGaactccgccaatcctagccc	9	13	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr5:176638319G>C	uc003mfr.3	+	5	3057	c.2919G>C	c.(2917-2919)CAG>CAC	p.Q973H	NSD1_uc003mft.3_Missense_Mutation_p.Q704H|NSD1_uc003mfs.1_Missense_Mutation_p.Q870H|NSD1_uc011dfx.1_Missense_Mutation_p.Q621H	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	973					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		ATGGCACTCAGAACTCCGCCA	0.517			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			62	55	---	---	---	---	PASS	C	176638319	C	C	176638319	3	2	36	1	0	0	0	0	1	0	0	0	10669	933	33	2	2933	2	NSD1	5	176638319	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	7515497	176638319	4276941	117	14279										
SERPINB9	5272	broad.mit.edu	37	chr6	2895721	2895721	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cagctcagcatggtagaattGaagacaggattccttaaacg	10	8	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:2895721G>T	uc003mug.2	-	4	449	c.328C>A	c.(328-330)CAA>AAA	p.Q110K	uc003mue.2_Intron	NM_004155	NP_004146	P50453	SPB9_HUMAN	serpin peptidase inhibitor, clade B, member 9	110					anti-apoptosis|cellular response to estrogen stimulus|immune response|mast cell mediated immunity|regulation of proteolysis	cytosol|extracellular space|nucleus	caspase inhibitor activity|protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.108)				TGGTAGAATTGAAGACAGGAT	0.403													49	177	---	---	---	---	PASS	T	2895721	T	T	2895721	3	4	36	1	0	0	0	0	1	0	0	0	14108	1299	45	2	818	2	SERPINB9	6	2895721	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08		2895721	168219346	118	14280										
SERPINB6	5269	broad.mit.edu	37	chr6	2948583	2948583	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	atcccgttggtcttgctgtgCtggatgaagaaaaggaaggg	15	6	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:2948583C>A	uc003muk.2	-	6	3075	c.1080G>T	c.(1078-1080)CAG>CAT	p.Q360H	SERPINB6_uc003mui.2_Missense_Mutation_p.Q243H|SERPINB6_uc003muj.2_RNA|SERPINB6_uc003mul.2_Missense_Mutation_p.Q360H|SERPINB6_uc003mum.2_Missense_Mutation_p.Q360H|SERPINB6_uc003mun.2_Missense_Mutation_p.Q360H|SERPINB6_uc003muo.2_Missense_Mutation_p.Q360H	NM_004568	NP_004559	P35237	SPB6_HUMAN	serine (or cysteine) proteinase inhibitor, clade	360					regulation of proteolysis	centrosome|cytosol|protein complex	protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Drotrecogin alfa(DB00055)	TCTTGCTGTGCTGGATGAAGA	0.612													45	163	---	---	---	---	PASS	A	2948583	A	A	2948583	3	1	36	1	0	0	0	0	1	0	0	0	14105	796	28	3	54	3	SERPINB6	6	2948583	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	52862	2948583	168166484	119	14281										
GFOD1	54438	broad.mit.edu	37	chr6	13365013	13365013	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cctgctgcggcgcatggcctCgctgatcaggtaggcggggc	17	13	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:13365013C>T	uc003nat.1	-	2	1800	c.1135G>A	c.(1135-1137)GAG>AAG	p.E379K	GFOD1_uc003nas.1_Missense_Mutation_p.E276K	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	379						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			CGCATGGCCTCGCTGATCAGG	0.612													35	65	---	---	---	---	PASS	T	13365013	T	T	13365013	3	4	36	1	0	0	0	0	1	0	0	0	6343	893	31	2	41	2	GFOD1	6	13365013	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	10416430	13365013	157750054	120	14282										
RNF182	221687	broad.mit.edu	37	chr6	13977868	13977868	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	caactggactgtgtggaactGcacgtccctgctgtttcaga	11	11	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:13977868G>A	uc003nbe.2	+	3	936	c.518G>A	c.(517-519)TGC>TAC	p.C173Y	RNF182_uc003nbf.2_Missense_Mutation_p.C173Y|RNF182_uc003nbg.2_Missense_Mutation_p.C173Y	NM_152737	NP_689950	Q8N6D2	RN182_HUMAN	ring finger protein 182	173						cytoplasm|integral to membrane|intracellular membrane-bounded organelle	protein binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Breast(50;0.00405)|Ovarian(93;0.0964)	all_hematologic(90;0.135)	Epithelial(50;0.195)			GTGTGGAACTGCACGTCCCTG	0.512													6	477	---	---	---	---	PASS	A	13977868	A	A	13977868	3	1	36	1	0	0	0	0	1	0	0	0	13466	1319	46	3	520	3	RNF182	6	13977868	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	612855	13977868	157137199	121	14283										
SCGN	10590	broad.mit.edu	37	chr6	25670275	25670275	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	acaaaaaggccatttctgagGctaaactggaagaatacact	8	8	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:25670275G>T	uc003nfb.2	+	6	645	c.442G>T	c.(442-444)GCT>TCT	p.A148S	SCGN_uc010jpz.2_Missense_Mutation_p.R57S	NM_006998	NP_008929	O76038	SEGN_HUMAN	secretagogin precursor	148						extracellular region|transport vesicle membrane	calcium ion binding			ovary(2)|pancreas(1)	3						CATTTCTGAGGCTAAACTGGA	0.299													20	461	---	---	---	---	PASS	T	25670275	T	T	25670275	3	4	36	1	0	0	0	0	1	0	0	0	13903	1203	42	3	464	3	SCGN	6	25670275	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	11692407	25670275	145444792	122	14284										
SCAND3	114821	broad.mit.edu	37	chr6	28542544	28542544	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	attgtgctggtttcatagcaAaggctacaagttatttgccg	10	7	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:28542544A>T	uc003nlo.2	-	3	2556	c.1938T>A	c.(1936-1938)CTT>CTA	p.L646L		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	646					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TTTCATAGCAAAGGCTACAAG	0.408													8	341	---	---	---	---	PASS	T	28542544	T	T	28542544	2	4	36	1	0	0	0	0	0	0	0	1	13876	1	1	5		5	SCAND3	6	28542544	Silent	SNP	A	TCGA-22-4595-01A-01D-1267-08	2872269	28542544	142572523	123	14285										
LY6G6C	80740	broad.mit.edu	37	chr6	31686934	31686934	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggaagacaaggcccagggctGgagtgggccggggtcctgcg	20	10	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:31686934G>A	uc003nwh.2	-	3	371	c.317C>T	c.(316-318)CCA>CTA	p.P106L	LY6G6C_uc010jtd.2_RNA	NM_025261	NP_079537	O95867	LY66C_HUMAN	lymphocyte antigen 6 complex G6C precursor	106	UPAR/Ly6.					anchored to membrane|plasma membrane					0						GCCCAGGGCTGGAGTGGGCCG	0.602													172	126	---	---	---	---	PASS	A	31686934	A	A	31686934	3	1	36	1	0	0	0	0	1	0	0	0	9094	1348	47	3	64	3	LY6G6C	6	31686934	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	3144390	31686934	139428133	124	14286										
SKIV2L	6499	broad.mit.edu	37	chr6	31936519	31936519	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gagatggagcggctgcgcttCctactgtcggatcagtcatt	13	10	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:31936519C>T	uc003nyn.1	+	25	3515	c.3126C>T	c.(3124-3126)TTC>TTT	p.F1042F	SKIV2L_uc011dou.1_Silent_p.F884F|SKIV2L_uc011dov.1_Silent_p.F849F|STK19_uc003nyt.2_5'Flank	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	1042						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						GGCTGCGCTTCCTACTGTCGG	0.607													44	147	---	---	---	---	PASS	T	31936519	T	T	31936519	2	4	36	1	0	0	0	0	0	0	0	1	14359	854	30	2		2	SKIV2L	6	31936519	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	249585	31936519	139178548	125	14287										
COL11A2	1302	broad.mit.edu	37	chr6	33157234	33157234	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcagggcccggagcacatccAcagggggtgcacctgggaga	16	12	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:33157234A>G	uc003ocx.1	-	2	323	c.95T>C	c.(94-96)GTG>GCG	p.V32A	COL11A2_uc003ocy.1_Missense_Mutation_p.V32A|COL11A2_uc003ocz.1_Missense_Mutation_p.V32A|COL11A2_uc003oda.2_Missense_Mutation_p.V32A	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	32	TSP N-terminal.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						GAGCACATCCACAGGGGGTGC	0.582													32	103	---	---	---	---	PASS	G	33157234	G	G	33157234	3	3	36	1	0	0	0	0	1	0	0	0	3668	159	6	5	5450	5	COL11A2	6	33157234	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	1220715	33157234	137957833	126	14288										
RGL2	5863	broad.mit.edu	37	chr6	33260956	33260956	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agccacaggaggctgagcggCggtgacctcgagaaggccta	16	11	0	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:33260956C>T	uc003odv.2	-	16	1977	c.1844G>A	c.(1843-1845)CGC>CAC	p.R615H	RGL2_uc003odu.2_Missense_Mutation_p.R175H|RGL2_uc010jur.2_Missense_Mutation_p.R175H|RGL2_uc003odw.2_Missense_Mutation_p.R533H	NM_004761	NP_004752	O15211	RGL2_HUMAN	ral guanine nucleotide dissociation	615					Ras protein signal transduction|regulation of small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity			skin(3)|lung(1)|breast(1)|pancreas(1)	6						GGCTGAGCGGCGGTGACCTCG	0.662													106	86	---	---	---	---	PASS	T	33260956	T	T	33260956	3	4	36	1	0	0	0	0	1	0	0	0	13277	768	27	1	501	1	RGL2	6	33260956	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	103722	33260956	137854111	127	14289										
SRPK1	6732	broad.mit.edu	37	chr6	35840405	35840405	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttgcttctgcagccagcctcCgaatgtactgctcattcact	7	14	3	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:35840405C>T	uc003olj.2	-	8	809	c.686G>A	c.(685-687)CGG>CAG	p.R229Q	SRPK1_uc011dtg.1_Missense_Mutation_p.R213Q|SRPK1_uc003olh.2_Missense_Mutation_p.R122Q|SRPK1_uc003oli.2_Missense_Mutation_p.R122Q	NM_003137	NP_003128	Q96SB4	SRPK1_HUMAN	SFRS protein kinase 1	229	Protein kinase.				cell differentiation|chromosome segregation|interspecies interaction between organisms|intracellular protein kinase cascade|mRNA processing|negative regulation of viral genome replication|positive regulation of viral genome replication|regulation of mRNA processing|RNA splicing	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						AGCCAGCCTCCGAATGTACTG	0.458													13	14	---	---	---	---	PASS	T	35840405	T	T	35840405	3	4	36	1	0	0	0	0	1	0	0	0	15158	652	23	1	1317	1	SRPK1	6	35840405	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	2579449	35840405	135274662	128	14290										
DNAH8	1769	broad.mit.edu	37	chr6	38819450	38819450	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agtgattcccacaccatacaGgtataatctaagaatctgtg	7	9	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:38819450G>T	uc003ooe.1	+	37	5415	c.4815G>T	c.(4813-4815)CAG>CAT	p.Q1605H		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ACACCATACAGGTATAATCTA	0.363													25	55	---	---	---	---	PASS	T	38819450	T	T	38819450	3	4	36	1	0	0	0	0	1	0	0	0	4607	1014	35	3	4953	3	DNAH8	6	38819450	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	2979045	38819450	132295617	129	14291										
KCNK5	8645	broad.mit.edu	37	chr6	39159251	39159251	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gccttcttcccgatctgcttGatgaggtcgttgtaggtctc	11	11	3	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:39159251G>C	uc003oon.2	-	5	1279	c.915C>G	c.(913-915)ATC>ATG	p.I305M		NM_003740	NP_003731	O95279	KCNK5_HUMAN	potassium channel, subfamily K, member 5	305	Cytoplasmic (Potential).				excretion	integral to plasma membrane	potassium channel activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						CGATCTGCTTGATGAGGTCGT	0.627													110	314	---	---	---	---	PASS	C	39159251	C	C	39159251	3	2	36	1	0	0	0	0	1	0	0	0	8069	1280	45	2	588	2	KCNK5	6	39159251	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	339801	39159251	131955816	130	14292										
DAAM2	23500	broad.mit.edu	37	chr6	39846265	39846265	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aaggaagagatgatgcggacGctgaacaaaatgaaggacaa	13	5	0	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:39846265G>C	uc003oow.2	+	13	1602	c.1446G>C	c.(1444-1446)ACG>ACC	p.T482T	DAAM2_uc010jxc.2_Silent_p.T482T|DAAM2_uc003oox.2_Silent_p.T482T	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	482	Potential.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					TGATGCGGACGCTGAACAAAA	0.582													7	10	---	---	---	---	PASS	C	39846265	C	C	39846265	2	2	36	1	0	0	0	0	0	0	0	1	4216	1074	38	4		4	DAAM2	6	39846265	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	687014	39846265	131268802	131	14293										
TFAP2D	83741	broad.mit.edu	37	chr6	50718971	50718971	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cttgagccaagatagatcacCactgggatcctccagaccca	8	14	1	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:50718971C>A	uc003paf.2	+	7	1585	c.1073C>A	c.(1072-1074)CCA>CAA	p.P358Q	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	358	H-S-H (helix-span-helix), dimerization.						DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					GATAGATCACCACTGGGATCC	0.343													26	107	---	---	---	---	PASS	A	50718971	A	A	50718971	3	1	36	1	0	0	0	0	1	0	0	0	15787	594	21	3	1099	3	TFAP2D	6	50718971	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	10872706	50718971	120396096	132	14294										
RIMS1	22999	broad.mit.edu	37	chr6	73100434	73100434	+	Missense_Mutation	SNP	G	T	T													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcaacagttacagctctgagGgcaagtaagtgctgtcagca							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:73100434G>T	uc003pga.2	+	30	4578	c.4501G>T	c.(4501-4503)GGC>TGC	p.G1501C	RIMS1_uc011dyb.1_Missense_Mutation_p.G898C|RIMS1_uc003pgc.2_Missense_Mutation_p.G950C|RIMS1_uc010kaq.2_Missense_Mutation_p.G821C|RIMS1_uc011dyc.1_Missense_Mutation_p.G626C|RIMS1_uc010kar.2_Missense_Mutation_p.G569C|RIMS1_uc011dyd.1_Missense_Mutation_p.G635C|RIMS1_uc003pgf.2_Missense_Mutation_p.G501C|RIMS1_uc003pgg.2_Missense_Mutation_p.G397C|RIMS1_uc003pgi.2_Missense_Mutation_p.G317C|RIMS1_uc003pgh.2_Missense_Mutation_p.G368C|RIMS1_uc003pgd.2_Missense_Mutation_p.G567C|RIMS1_uc003pge.2_Missense_Mutation_p.G541C|RIMS1_uc011dye.1_Missense_Mutation_p.G307C|RIMS1_uc011dyf.1_Missense_Mutation_p.G125C|RIMS1_uc011dyg.1_Missense_Mutation_p.G28C	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1501					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)				CAGCTCTGAGGGCAAGTAAGT	0.488													16	45	---	---	---	---	PASS	T	73100434	T	T	73100434	3	4	36	1	0	0	0	0	1	0	0	0	13367	1232	43	3	4782	3	RIMS1	6	73100434	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	22381463	73100434	98014633	133	14295	364	2								
RIMS1	22999	broad.mit.edu	37	chr6	73100435	73100435	+	Missense_Mutation	SNP	G	T	T													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	caacagttacagctctgaggGcaagtaagtgctgtcagcac							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:73100435G>T	uc003pga.2	+	30	4579	c.4502G>T	c.(4501-4503)GGC>GTC	p.G1501V	RIMS1_uc011dyb.1_Missense_Mutation_p.G898V|RIMS1_uc003pgc.2_Missense_Mutation_p.G950V|RIMS1_uc010kaq.2_Missense_Mutation_p.G821V|RIMS1_uc011dyc.1_Missense_Mutation_p.G626V|RIMS1_uc010kar.2_Missense_Mutation_p.G569V|RIMS1_uc011dyd.1_Missense_Mutation_p.G635V|RIMS1_uc003pgf.2_Missense_Mutation_p.G501V|RIMS1_uc003pgg.2_Missense_Mutation_p.G397V|RIMS1_uc003pgi.2_Missense_Mutation_p.G317V|RIMS1_uc003pgh.2_Missense_Mutation_p.G368V|RIMS1_uc003pgd.2_Missense_Mutation_p.G567V|RIMS1_uc003pge.2_Missense_Mutation_p.G541V|RIMS1_uc011dye.1_Missense_Mutation_p.G307V|RIMS1_uc011dyf.1_Missense_Mutation_p.G125V|RIMS1_uc011dyg.1_Missense_Mutation_p.G28V	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1501					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)				AGCTCTGAGGGCAAGTAAGTG	0.488													16	45	---	---	---	---	PASS	T	73100435	T	T	73100435	3	4	36	1	0	0	0	0	1	0	0	0	13367	1203	42	3	4783	3	RIMS1	6	73100435	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1	73100435	98014632	134	14296	364	2								
C6orf165	154313	broad.mit.edu	37	chr6	88128111	88128111	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tatataatatacgacaatatGaggtcttccttcagatcatt	5	7	3	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:88128111G>C	uc003plv.2	+	7	909	c.817G>C	c.(817-819)GAG>CAG	p.E273Q	C6orf165_uc003plw.2_Missense_Mutation_p.E85Q|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.E273Q	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	273										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		ACGACAATATGAGGTCTTCCT	0.403													34	125	---	---	---	---	PASS	C	88128111	C	C	88128111	3	2	36	1	0	0	0	0	1	0	0	0	2341	1291	45	2	839	2	C6orf165	6	88128111	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	15027676	88128111	82986956	135	14297										
ADAT2	134637	broad.mit.edu	37	chr6	143755110	143755110	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	atggccaccatttctgcatgTcgagtagcctgaaaagagaa	10	9	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:143755110T>A	uc003qjj.2	-	3	256	c.210A>T	c.(208-210)CGA>CGT	p.R70R	ADAT2_uc003qjk.1_RNA	NM_182503	NP_872309	Q7Z6V5	ADAT2_HUMAN	deaminase domain containing 1	70					tRNA processing		hydrolase activity|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(155;5.61e-06)|GBM - Glioblastoma multiforme(68;0.0115)		TTTCTGCATGTCGAGTAGCCT	0.428													60	103	---	---	---	---	PASS	A	143755110	A	A	143755110	2	1	36	1	0	0	0	0	0	0	0	1	285	1654	58	5		5	ADAT2	6	143755110	Silent	SNP	T	TCGA-22-4595-01A-01D-1267-08	55626999	143755110	27359957	136	14298										
SYNE1	23345	broad.mit.edu	37	chr6	152651065	152651065	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tctgatttcctcttggatgtCctgcaggttgaggtctaggt	12	8	3	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:152651065C>A	uc010kiw.2	-	78	15357	c.14755G>T	c.(14755-14757)GAC>TAC	p.D4919Y	SYNE1_uc003qot.3_Missense_Mutation_p.D4848Y|SYNE1_uc003qou.3_Missense_Mutation_p.D4919Y|SYNE1_uc010kiz.2_Missense_Mutation_p.D674Y	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4919	Cytoplasmic (Potential).|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)		TCTTGGATGTCCTGCAGGTTG	0.498										HNSCC(10;0.0054)			96	232	---	---	---	---	PASS	A	152651065	A	A	152651065	3	1	36	1	0	0	0	0	1	0	0	0	15442	855	30	2	11987	2	SYNE1	6	152651065	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	8895955	152651065	18464002	137	14299										
WTAP	9589	broad.mit.edu	37	chr6	160157288	160157288	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tttccgcaacttttttttttAggattcaagatgaccaacga	6	8	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:160157288A>T	uc003qsl.2	+	2	215	c.-7_splice	c.e2-2		WTAP_uc010kjx.2_Splice_Site|WTAP_uc003qsk.2_Splice_Site|WTAP_uc003qsm.1_Splice_Site|WTAP_uc003qsn.2_Splice_Site	NM_004906	NP_004897	Q15007	FL2D_HUMAN	Wilms' tumour 1-associating protein isoform 1						cell cycle|mRNA processing|RNA splicing	nuclear membrane|nucleolus					0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.75e-18)|BRCA - Breast invasive adenocarcinoma(81;5.93e-06)		TTTTTTTTTTAGGATTCAAGA	0.318													5	239	---	---	---	---	PASS	T	160157288	T	T	160157288	5	4	36	1	0	0	0	0	0	0	1	0	17406	434	15	5		5	WTAP	6	160157288	Splice_Site	SNP	A	TCGA-22-4595-01A-01D-1267-08	7506223	160157288	10957779	138	14300										
PHF10	55274	broad.mit.edu	37	chr6	170115902	170115902	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tttggcagctttcttaatatActcaggcactttactggctt	7	9	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr6:170115902A>C	uc011egy.1	-	6	674	c.595T>G	c.(595-597)TAT>GAT	p.Y199D	PHF10_uc011egz.1_Missense_Mutation_p.Y197D|PHF10_uc011eha.1_Missense_Mutation_p.Y50D	NM_018288	NP_060758	Q8WUB8	PHF10_HUMAN	PHD finger protein 10 isoform a	199	SAY.				nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	npBAF complex	zinc ion binding			urinary_tract(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.4e-21)|BRCA - Breast invasive adenocarcinoma(81;1.4e-07)|GBM - Glioblastoma multiforme(31;0.00176)		TTCTTAATATACTCAGGCACT	0.353													4	125	---	---	---	---	PASS	C	170115902	C	C	170115902	3	2	36	1	0	0	0	0	1	0	0	0	11821	391	14	5	929	5	PHF10	6	170115902	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	9958614	170115902	999165	139	14301										
SNX8	29886	broad.mit.edu	37	chr7	2297030	2297030	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cgggactccagctgctccacGgactccggctcgcggttctg	13	16	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:2297030G>C	uc003slw.2	-	9	1147	c.1104C>G	c.(1102-1104)TCC>TCG	p.S368S		NM_013321	NP_037453	Q9Y5X2	SNX8_HUMAN	sorting nexin 8	368					cell communication|early endosome to Golgi transport|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0853)|OV - Ovarian serous cystadenocarcinoma(56;3.79e-14)		GCTGCTCCACGGACTCCGGCT	0.687													9	33	---	---	---	---	PASS	C	2297030	C	C	2297030	2	2	36	1	0	0	0	0	0	0	0	1	14908	1103	39	4		4	SNX8	7	2297030	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08		2297030	156841633	140	14302										
AMZ1	155185	broad.mit.edu	37	chr7	2751971	2751971	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttctccctcttagagactctAcacctggactcaggcggtgg	10	13	4	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:2751971A>C	uc003smr.1	+	7	1317	c.956A>C	c.(955-957)TAC>TCC	p.Y319S	AMZ1_uc003sms.1_Silent_p.L262L|AMZ1_uc011jwa.1_Missense_Mutation_p.Y68S	NM_133463	NP_597720	Q400G9	AMZ1_HUMAN	archaelysin family metallopeptidase 1	319							metallopeptidase activity|zinc ion binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;5.03e-14)		TAGAGACTCTACACCTGGACT	0.652													12	26	---	---	---	---	PASS	C	2751971	C	C	2751971	3	2	36	1	0	0	0	0	1	0	0	0	596	391	14	5	978	5	AMZ1	7	2751971	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	454941	2751971	156386692	141	14303										
RADIL	55698	broad.mit.edu	37	chr7	4917591	4917591	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	accttcaggacaccaggggcCgacagctgggtggagagctc	15	12	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:4917591C>A	uc003snj.1	-	2	353	c.180G>T	c.(178-180)TCG>TCT	p.S60S	RADIL_uc003sng.1_RNA|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	60					cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		CACCAGGGGCCGACAGCTGGG	0.657													22	43	---	---	---	---	PASS	A	4917591	A	A	4917591	2	1	36	1	0	0	0	0	0	0	0	1	12997	639	23	1		1	RADIL	7	4917591	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	2165620	4917591	154221072	142	14304										
MRPL32	64983	broad.mit.edu	37	chr7	42977163	42977163	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agaaagcgaccatcctggttCacccagaattgacaccaaag	8	12	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:42977163C>T	uc003tia.2	+	3	602	c.555C>T	c.(553-555)TTC>TTT	p.F185F	MRPL32_uc003tib.2_RNA|MRPL32_uc003tic.2_Silent_p.F132F	NM_031903	NP_114109	Q9BYC8	RM32_HUMAN	mitochondrial ribosomal protein L32 precursor	185					translation	large ribosomal subunit|mitochondrial ribosome	structural constituent of ribosome				0						CATCCTGGTTCACCCAGAATT	0.428													24	82	---	---	---	---	PASS	T	42977163	T	T	42977163	2	4	36	1	0	0	0	0	0	0	0	1	9795	825	29	2		2	MRPL32	7	42977163	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	38059572	42977163	116161500	143	14305										
ADCY1	107	broad.mit.edu	37	chr7	45701765	45701765	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cactgccggaaaatgttcaaGgccgagatccccttctccaa	8	14	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:45701765G>C	uc003tne.3	+	8	1575	c.1557G>C	c.(1555-1557)AAG>AAC	p.K519N	ADCY1_uc003tnd.2_Missense_Mutation_p.K294N	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	519	Interaction with calmodulin (By similarity).|Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	AAATGTTCAAGGCCGAGATCC	0.542													27	61	---	---	---	---	PASS	C	45701765	C	C	45701765	3	2	36	1	0	0	0	0	1	0	0	0	292	991	35	4	1587	4	ADCY1	7	45701765	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	2724602	45701765	113436898	144	14306										
ZNF107	51427	broad.mit.edu	37	chr7	64167413	64167413	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcacactggagagaacctctAcaagtgtaaagaatgtggaa	10	7	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:64167413A>G	uc003ttd.2	+	7	1517	c.731A>G	c.(730-732)TAC>TGC	p.Y244C	ZNF107_uc003tte.2_Missense_Mutation_p.Y244C	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	244	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				GAGAACCTCTACAAGTGTAAA	0.368													25	75	---	---	---	---	PASS	G	64167413	G	G	64167413	3	3	36	1	0	0	0	0	1	0	0	0	17712	391	14	5	737	5	ZNF107	7	64167413	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	18465648	64167413	94971250	145	14307										
TYW1	55253	broad.mit.edu	37	chr7	66490007	66490007	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tggatcatgtgaagaaagaaAaggtaccgttactttgggaa	12	4	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:66490007A>T	uc003tvn.2	+	7	1131	c.982A>T	c.(982-984)AAG>TAG	p.K328*	TYW1_uc010lai.2_RNA	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	328					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				GAAGAAAGAAAAGGTACCGTT	0.413													71	198	---	---	---	---	PASS	T	66490007	T	T	66490007	4	4	36	1	0	0	0	0	0	1	0	0	16815	15	1	5	1008	5	TYW1	7	66490007	Nonsense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	2322594	66490007	92648656	146	14308										
WBSCR17	64409	broad.mit.edu	37	chr7	70880885	70880885	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcatttgcagaggagctgaaGgtccccctagaggagtatgt	13	8	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:70880885G>T	uc003tvy.2	+	4	600	c.600G>T	c.(598-600)AAG>AAT	p.K200N	WBSCR17_uc003tvz.2_Translation_Start_Site	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	200	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				AGGAGCTGAAGGTCCCCCTAG	0.498													15	73	---	---	---	---	PASS	T	70880885	T	T	70880885	3	4	36	1	0	0	0	0	1	0	0	0	17261	991	35	3	614	3	WBSCR17	7	70880885	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	4390878	70880885	88257778	147	14309										
ZNF804B	219578	broad.mit.edu	37	chr7	88965447	88965447	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gggatgcaacaacaaaagaaCaatcaaaacctttaattagt	6	7	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:88965447C>G	uc011khi.1	+	4	3689	c.3151C>G	c.(3151-3153)CAA>GAA	p.Q1051E		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1051						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AACAAAAGAACAATCAAAACC	0.353										HNSCC(36;0.09)			37	88	---	---	---	---	PASS	G	88965447	G	G	88965447	3	3	36	1	0	0	0	0	1	0	0	0	18168	479	17	4	3165	4	ZNF804B	7	88965447	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	18084562	88965447	70173216	148	14310										
PEX1	5189	broad.mit.edu	37	chr7	92147523	92147523	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tggcttttggaaaaactattCgaatttgatctagaagatgt	9	4	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:92147523C>A	uc003uly.2	-	4	500	c.404G>T	c.(403-405)CGA>CTA	p.R135L	PEX1_uc011khr.1_5'UTR|PEX1_uc010ley.2_Missense_Mutation_p.R135L|PEX1_uc011khs.1_Intron|PEX1_uc011kht.1_5'Flank	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	135					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			AAAAACTATTCGAATTTGATC	0.348													49	91	---	---	---	---	PASS	A	92147523	A	A	92147523	3	1	36	1	0	0	0	0	1	0	0	0	11735	884	31	2	3531	2	PEX1	7	92147523	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	3182076	92147523	66991140	149	14311										
ASB4	51666	broad.mit.edu	37	chr7	95167000	95167000	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	acaacagatgccatagagcaAttcctttgctttccctccca	5	14	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:95167000A>T	uc011kij.1	+	5	1210	c.1210A>T	c.(1210-1212)ATT>TTT	p.I404F		NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	404	SOCS box.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			CCATAGAGCAATTCCTTTGCT	0.413													51	158	---	---	---	---	PASS	T	95167000	T	T	95167000	3	4	36	1	0	0	0	0	1	0	0	0	1025	101	4	5	1300	5	ASB4	7	95167000	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	3019477	95167000	63971663	150	14312										
GIGYF1	64599	broad.mit.edu	37	chr7	100280005	100280005	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctcgcaccactgggtgaagcCgtcctggggcctgggaatgc	15	13	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:100280005C>T	uc003uwg.1	-	21	3710	c.2701G>A	c.(2701-2703)GGC>AGC	p.G901S		NM_022574	NP_072096	O75420	PERQ1_HUMAN	PERQ amino acid rich, with GYF domain 1	901										large_intestine(1)|central_nervous_system(1)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					TGGGTGAAGCCGTCCTGGGGC	0.652													13	35	---	---	---	---	PASS	T	100280005	T	T	100280005	3	4	36	1	0	0	0	0	1	0	0	0	6377	652	23	1	422	1	GIGYF1	7	100280005	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	5113005	100280005	58858658	151	14313										
DGKI	9162	broad.mit.edu	37	chr7	137255959	137255959	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tccaatgacttcaatataacCatcatcatgacgctgaggtt	6	10	3	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:137255959C>A	uc003vtt.2	-	19	1910	c.1909G>T	c.(1909-1911)GGT>TGT	p.G637C	DGKI_uc003vtu.2_Missense_Mutation_p.G337C	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	637					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						TCAATATAACCATCATCATGA	0.378													22	56	---	---	---	---	PASS	A	137255959	A	A	137255959	3	1	36	1	0	0	0	0	1	0	0	0	4471	594	21	3	1352	3	DGKI	7	137255959	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	36975954	137255959	21882704	152	14314										
TAS2R3	50831	broad.mit.edu	37	chr7	141464388	141464388	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cactgctcttatcctgtggtAgtaccgcatctctgatcaat	7	12	3	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:141464388A>T	uc003vwp.1	+	1	492	c.430A>T	c.(430-432)AGT>TGT	p.S144C		NM_016943	NP_058639	Q9NYW6	TA2R3_HUMAN	taste receptor T2R3	144	Helical; Name=4; (Potential).				sensory perception of taste		taste receptor activity			central_nervous_system(1)	1	Melanoma(164;0.0171)					ATCCTGTGGTAGTACCGCATC	0.473													66	132	---	---	---	---	PASS	T	141464388	T	T	141464388	3	4	36	1	0	0	0	0	1	0	0	0	15569	420	15	5	432	5	TAS2R3	7	141464388	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	4208429	141464388	17674275	153	14315										
DPP6	1804	broad.mit.edu	37	chr7	154667727	154667727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aagtgtgacggccgtggcagCggcttccaagggaccaagct	15	11	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:154667727C>A	uc003wlk.2	+	20	2124	c.1995C>A	c.(1993-1995)AGC>AGA	p.S665R	DPP6_uc003wli.2_Missense_Mutation_p.S601R|DPP6_uc003wlm.2_Missense_Mutation_p.S603R|DPP6_uc011kvq.1_Missense_Mutation_p.S558R	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	665	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			GCCGTGGCAGCGGCTTCCAAG	0.662													4	9	---	---	---	---	PASS	A	154667727	A	A	154667727	3	1	36	1	0	0	0	0	1	0	0	0	4730	767	27	1	2189	1	DPP6	7	154667727	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	13203339	154667727	4470936	154	14316										
UBE3C	9690	broad.mit.edu	37	chr7	157049687	157049687	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	actgatgaagaaaagcgcaaActgctgaagtttgtaacaag	10	6	0	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr7:157049687A>T	uc010lqs.2	+	22	3342	c.3030A>T	c.(3028-3030)AAA>AAT	p.K1010N	UBE3C_uc003wni.3_Missense_Mutation_p.K373N	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	1010	HECT.				protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		AAAAGCGCAAACTGCTGAAGT	0.423													87	216	---	---	---	---	PASS	T	157049687	T	T	157049687	3	4	36	1	0	0	0	0	1	0	0	0	16878	40	2	5	3116	5	UBE3C	7	157049687	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	2381960	157049687	2088976	155	14317										
MYOM2	9172	broad.mit.edu	37	chr8	2024291	2024291	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgccacgacgccaaccgggaCtacgtcatcgtgacctggaa	11	14	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:2024291C>T	uc003wpx.3	+	11	1329	c.1191C>T	c.(1189-1191)GAC>GAT	p.D397D	MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	397	Fibronectin type-III 1.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CCAACCGGGACTACGTCATCG	0.632													7	44	---	---	---	---	PASS	T	2024291	T	T	2024291	2	4	36	1	0	0	0	0	0	0	0	1	10092	564	20	3		3	MYOM2	8	2024291	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08		2024291	144339731	156	14318										
SPAG11A	653423	broad.mit.edu	37	chr8	7718231	7718231	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcaagggatctgcagactttTtttctgccattctggtgaga	11	8	3	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:7718231T>A	uc003wrx.2	+	3	445	c.410T>A	c.(409-411)TTT>TAT	p.F137Y	SPAG11A_uc003wry.2_3'UTR|SPAG11A_uc003wrz.2_Missense_Mutation_p.F93Y|SPAG11A_uc003wsa.2_Intron|SPAG11A_uc003wsb.2_Intron	NM_001081552	NP_001075021	Q6PDA7	SG11A_HUMAN	sperm associated antigen 11A	Error:Variant_position_missing_in_Q6PDA7_after_alignment						extracellular region					0				COAD - Colon adenocarcinoma(149;0.0162)|READ - Rectum adenocarcinoma(644;0.236)		TGCAGACTTTTTTTCTGCCAT	0.423													8	114	---	---	---	---	PASS	A	7718231	A	A	7718231	3	1	36	1	0	0	0	0	1	0	0	0	14976	1841	64	5	288	5	SPAG11A	8	7718231	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	5693940	7718231	138645791	157	14319										
FDFT1	2222	broad.mit.edu	37	chr8	11689122	11689122	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gggcaagcagtgaccctgatGatggatgccaccaatatgcc	12	11	0	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:11689122G>A	uc003wui.2	+	7	1127	c.975G>A	c.(973-975)ATG>ATA	p.M325I	FDFT1_uc003wuh.2_Missense_Mutation_p.M261I|FDFT1_uc010lsa.1_Missense_Mutation_p.M240I|FDFT1_uc011kxe.1_Missense_Mutation_p.M261I|FDFT1_uc011kxf.1_Missense_Mutation_p.M282I|FDFT1_uc011kxg.1_Missense_Mutation_p.M158I|FDFT1_uc003wuj.2_Missense_Mutation_p.M318I|FDFT1_uc010lsb.2_Missense_Mutation_p.M261I|FDFT1_uc011kxh.1_Missense_Mutation_p.M261I|FDFT1_uc011kxi.1_RNA|FDFT1_uc011kxj.1_Missense_Mutation_p.M261I|FDFT1_uc003wuk.2_Missense_Mutation_p.M384I|FDFT1_uc011kxk.1_Missense_Mutation_p.M240I	NM_004462	NP_004453	P37268	FDFT_HUMAN	squalene synthase	325					cholesterol biosynthetic process|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	farnesyl-diphosphate farnesyltransferase activity|oxidoreductase activity|protein binding|squalene synthase activity				0	all_epithelial(15;0.234)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.18)		TGACCCTGATGATGGATGCCA	0.433													78	265	---	---	---	---	PASS	A	11689122	A	A	11689122	3	1	36	1	0	0	0	0	1	0	0	0	5802	1290	45	2	1001	2	FDFT1	8	11689122	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	3970891	11689122	134674900	158	14320										
USP17L2	377630	broad.mit.edu	37	chr8	11995788	11995788	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgaacatgagaaattcatggGcatcttcctgcttgcctcta	8	10	3	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:11995788G>T	uc003wvc.1	-	1	482	c.482C>A	c.(481-483)GCC>GAC	p.A161D	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	161					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3						AAATTCATGGGCATCTTCCTG	0.532													13	34	---	---	---	---	PASS	T	11995788	T	T	11995788	3	4	36	1	0	0	0	0	1	0	0	0	17045	1203	42	3	1114	3	USP17L2	8	11995788	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	306666	11995788	134368234	159	14321										
UNC5D	137970	broad.mit.edu	37	chr8	35608194	35608194	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggacagctttgggacctatgCgctcactggagagccaatca	12	11	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:35608194C>T	uc003xjr.1	+	13	2358	c.2030C>T	c.(2029-2031)GCG>GTG	p.A677V	UNC5D_uc003xjs.1_Missense_Mutation_p.A672V|UNC5D_uc003xju.1_Missense_Mutation_p.A253V	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	677	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		GGGACCTATGCGCTCACTGGA	0.502													5	284	---	---	---	---	PASS	T	35608194	T	T	35608194	3	4	36	1	0	0	0	0	1	0	0	0	16992	768	27	1	2080	1	UNC5D	8	35608194	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	23612406	35608194	110755828	160	14322										
EFCAB1	79645	broad.mit.edu	37	chr8	49641664	49641664	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtctcttctctcacagccagTtcatagtctgcaaaagacag	7	12	5	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:49641664T>C	uc003xqo.2	-	5	673	c.513A>G	c.(511-513)GAA>GAG	p.E171E	EFCAB1_uc003xqn.3_RNA|EFCAB1_uc011ldj.1_Silent_p.E119E|EFCAB1_uc010lxx.2_RNA|EFCAB1_uc011ldk.1_RNA	NM_024593	NP_078869	Q9HAE3	EFCB1_HUMAN	EF-hand calcium binding domain 1 isoform a	171	EF-hand 3.						calcium ion binding				0		all_epithelial(80;0.0134)|Lung NSC(129;0.0207)|all_lung(136;0.0464)				TCACAGCCAGTTCATAGTCTG	0.433													23	69	---	---	---	---	PASS	C	49641664	C	C	49641664	2	2	36	1	0	0	0	0	0	0	0	1	4933	1722	60	5		5	EFCAB1	8	49641664	Silent	SNP	T	TCGA-22-4595-01A-01D-1267-08	14033470	49641664	96722358	161	14323										
RP1	6101	broad.mit.edu	37	chr8	55541884	55541884	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctgactcaaccccttgaactAaaatgcaattactttaacat	3	11	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:55541884A>T	uc003xsd.1	+	4	5590	c.5442A>T	c.(5440-5442)CTA>CTT	p.L1814L	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1814					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CCCTTGAACTAAAATGCAATT	0.443													19	52	---	---	---	---	PASS	T	55541884	T	T	55541884	2	4	36	1	0	0	0	0	0	0	0	1	13532	349	13	5		5	RP1	8	55541884	Silent	SNP	A	TCGA-22-4595-01A-01D-1267-08	5900220	55541884	90822138	162	14324										
TOX	9760	broad.mit.edu	37	chr8	59739410	59739410	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aaggctggctctgtatgctgCgagttgcttcaggtactcct	12	10	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:59739410C>G	uc003xtw.1	-	6	1197	c.976G>C	c.(976-978)GCA>CCA	p.A326P		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	326	HMG box.					nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				CTGTATGCTGCGAGTTGCTTC	0.438													12	32	---	---	---	---	PASS	G	59739410	G	G	59739410	3	3	36	1	0	0	0	0	1	0	0	0	16374	768	27	4	620	4	TOX	8	59739410	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	4197526	59739410	86624612	163	14325										
CLVS1	157807	broad.mit.edu	37	chr8	62366772	62366772	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	acattcatgccctctacacaCtcatcaagccatttcttaaa	2	14	5	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:62366772C>G	uc003xuh.2	+	4	1027	c.703C>G	c.(703-705)CTC>GTC	p.L235V	CLVS1_uc003xui.2_RNA|CLVS1_uc010lyp.2_Missense_Mutation_p.L235V	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1	235	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						CCTCTACACACTCATCAAGCC	0.438													70	270	---	---	---	---	PASS	G	62366772	G	G	62366772	3	3	36	1	0	0	0	0	1	0	0	0	3571	565	20	4	713	4	CLVS1	8	62366772	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	2627362	62366772	83997250	164	14326										
NCOA2	10499	broad.mit.edu	37	chr8	71050559	71050559	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccccatgttcatctctaattCagatggccctagaaagggag	9	11	3	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:71050559C>G	uc003xyn.1	-	15	3199	c.3037G>C	c.(3037-3039)GAA>CAA	p.E1013Q	NCOA2_uc011lfb.1_Missense_Mutation_p.E101Q	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	1013					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			ATCTCTAATTCAGATGGCCCT	0.413			T	RUNXBP2	AML								10	23	---	---	---	---	PASS	G	71050559	G	G	71050559	3	3	36	1	0	0	0	0	1	0	0	0	10229	835	29	2	1393	2	NCOA2	8	71050559	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	8683787	71050559	75313463	165	14327										
MMP16	4325	broad.mit.edu	37	chr8	89053690	89053690	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aagaagaaaaaaccctacatCacacccactcttgcatagag	5	12	2	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:89053690C>T	uc003yeb.3	-	10	2105	c.1823G>A	c.(1822-1824)TGA>TAA	p.*608*		NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	608					collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						AACCCTACATCACACCCACTC	0.433													54	129	---	---	---	---	PASS	T	89053690	T	T	89053690	2	4	36	1	0	0	0	0	0	0	0	1	9655	837	29	2		2	MMP16	8	89053690	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	18003131	89053690	57310332	166	14328										
MMP16	4325	broad.mit.edu	37	chr8	89339430	89339430	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccagtgctgaatgtgagtaaGatcatagtgaactgtgcttc	11	7	1	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:89339430G>T	uc003yeb.3	-	1	288	c.6C>A	c.(4-6)ATC>ATA	p.I2I	MMP16_uc003yec.2_Silent_p.I2I	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	2					collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						ATGTGAGTAAGATCATAGTGA	0.373													70	240	---	---	---	---	PASS	T	89339430	T	T	89339430	2	4	36	1	0	0	0	0	0	0	0	1	9655	932	33	2		2	MMP16	8	89339430	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	285740	89339430	57024592	167	14329										
ESRP1	54845	broad.mit.edu	37	chr8	95686605	95686605	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	catttatggctgcacagaagTgtcataaaaaaaacatgaag	8	6	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:95686605T>C	uc003ygq.3	+	12	1705	c.1522T>C	c.(1522-1524)TGT>CGT	p.C508R	ESRP1_uc003ygr.3_Missense_Mutation_p.C508R|ESRP1_uc003ygs.3_Missense_Mutation_p.C508R|ESRP1_uc003ygt.3_Missense_Mutation_p.C508R|ESRP1_uc003ygu.3_Missense_Mutation_p.C508R|ESRP1_uc003ygv.2_Missense_Mutation_p.C348R|ESRP1_uc003ygw.2_Missense_Mutation_p.C348R	NM_017697	NP_060167	Q6NXG1	ESRP1_HUMAN	RNA binding motif protein 35A isoform 1	508	RRM 3.				mRNA processing|regulation of RNA splicing|RNA splicing	nucleus|plasma membrane	mRNA binding|nucleotide binding		ESRP1/RAF1(4)	prostate(4)	4						TGCACAGAAGTGTCATAAAAA	0.433													31	91	---	---	---	---	PASS	C	95686605	C	C	95686605	3	2	36	1	0	0	0	0	1	0	0	0	5258	1696	59	5	1568	5	ESRP1	8	95686605	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	6347175	95686605	50677417	168	14330										
ATP6V1C1	528	broad.mit.edu	37	chr8	104075191	104075191	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttttttccatagtgttctttCagaggaccaagacagttacc	7	9	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:104075191C>T	uc003ykz.3	+	9	895	c.650C>T	c.(649-651)TCA>TTA	p.S217L	ATP6V1C1_uc010mbz.2_Missense_Mutation_p.S142L|ATP6V1C1_uc003yla.2_Missense_Mutation_p.S217L|ATP6V1C1_uc011lhl.1_Missense_Mutation_p.S142L	NM_001695	NP_001686	P21283	VATC1_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit	217					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|plasma membrane|proton-transporting V-type ATPase, V1 domain	protein binding|proton-transporting ATPase activity, rotational mechanism				0	Lung NSC(17;0.000427)|all_lung(17;0.000533)		OV - Ovarian serous cystadenocarcinoma(57;3.57e-05)|STAD - Stomach adenocarcinoma(118;0.133)			AGTGTTCTTTCAGAGGACCAA	0.348													46	139	---	---	---	---	PASS	T	104075191	T	T	104075191	3	4	36	1	0	0	0	0	1	0	0	0	1180	838	29	2	680	2	ATP6V1C1	8	104075191	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	8388586	104075191	42288831	169	14331										
TAF2	6873	broad.mit.edu	37	chr8	120770319	120770319	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcacataaactaaccttacaTagggtacagggtcattctga	8	9	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:120770319T>G	uc003you.2	-	21	3032	c.2762A>C	c.(2761-2763)TAT>TCT	p.Y921S		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	921					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TAACCTTACATAGGGTACAGG	0.289													4	152	---	---	---	---	PASS	G	120770319	G	G	120770319	3	3	36	1	0	0	0	0	1	0	0	0	15521	1406	49	5	861	5	TAF2	8	120770319	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	16695128	120770319	25593703	170	14332										
KIAA0196	9897	broad.mit.edu	37	chr8	126079900	126079900	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aagaggatcctgggattgtaCcgagagtctgttagaatctg	13	6	2	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:126079900C>T	uc003yrt.2	-	10	1541	c.1212G>A	c.(1210-1212)CGG>CGA	p.R404R	KIAA0196_uc011lir.1_Silent_p.R256R|KIAA0196_uc003yru.1_5'UTR	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	404					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			TGGGATTGTACCGAGAGTCTG	0.398													7	188	---	---	---	---	PASS	T	126079900	T	T	126079900	2	4	36	1	0	0	0	0	0	0	0	1	8161	494	18	3		3	KIAA0196	8	126079900	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	5309581	126079900	20284122	171	14333										
ADCY8	114	broad.mit.edu	37	chr8	131792811	131792811	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggacaagtcccaggacaaccGcggccagggagtactgccca	13	14	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:131792811G>C	uc003ytd.3	-	18	3837	c.3581C>G	c.(3580-3582)GCG>GGG	p.A1194G	ADCY8_uc010mds.2_Missense_Mutation_p.A1063G	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1194	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CAGGACAACCGCGGCCAGGGA	0.507										HNSCC(32;0.087)			32	75	---	---	---	---	PASS	C	131792811	C	C	131792811	3	2	36	1	0	0	0	0	1	0	0	0	300	1087	38	4	178	4	ADCY8	8	131792811	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	5712911	131792811	14571211	172	14334										
KCNQ3	3786	broad.mit.edu	37	chr8	133141622	133141622	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cgtgtctgtgtccgtctcacCctcggcgaggtaccgcttct	11	15	3	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:133141622C>A	uc003ytj.2	-	15	2731	c.2506G>T	c.(2506-2508)GGT>TGT	p.G836C	KCNQ3_uc010mdt.2_Missense_Mutation_p.G824C|uc003yti.2_5'Flank	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	836					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			TCCGTCTCACCCTCGGCGAGG	0.592													21	50	---	---	---	---	PASS	A	133141622	A	A	133141622	3	1	36	1	0	0	0	0	1	0	0	0	8084	623	22	3	116	3	KCNQ3	8	133141622	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1348811	133141622	13222400	173	14335										
COL22A1	169044	broad.mit.edu	37	chr8	139838949	139838949	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgccagatataccagtcttcCttccgagaggttttcctgaa	8	11	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:139838949C>T	uc003yvd.2	-	6	1368	c.921G>A	c.(919-921)AAG>AAA	p.K307K		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	307	TSP N-terminal.				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)			ACCAGTCTTCCTTCCGAGAGG	0.507										HNSCC(7;0.00092)			52	94	---	---	---	---	PASS	T	139838949	T	T	139838949	2	4	36	1	0	0	0	0	0	0	0	1	3681	680	24	3		3	COL22A1	8	139838949	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	6697327	139838949	6525073	174	14336										
CYP11B1	1584	broad.mit.edu	37	chr8	143955799	143955799	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agagacgtgattagttgatgGctctgaaggtgaggaggggg	19	3	1	5			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:143955799G>C	uc003yxi.2	-	9	1509	c.1502C>G	c.(1501-1503)GCC>GGC	p.A501G	CYP11B1_uc010mex.2_Missense_Mutation_p.A200G|CYP11B1_uc003yxh.2_Missense_Mutation_p.A151G|CYP11B1_uc003yxj.2_Missense_Mutation_p.A435G|CYP11B1_uc010mey.2_Missense_Mutation_p.A572G	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	501					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	TTAGTTGATGGCTCTGAAGGT	0.567									Familial_Hyperaldosteronism_type_I				7	193	---	---	---	---	PASS	C	143955799	C	C	143955799	3	2	36	1	0	0	0	0	1	0	0	0	4145	1203	42	4	13	4	CYP11B1	8	143955799	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	4116850	143955799	2408223	175	14337										
RECQL4	9401	broad.mit.edu	37	chr8	145737345	145737345	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcctccatgcctcccggctcCtgcccttcctcttcctcaaa	4	21	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr8:145737345C>T	uc003zdj.2	-	20	3374	c.3342G>A	c.(3340-3342)CAG>CAA	p.Q1114Q		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	1114					DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CTCCCGGCTCCTGCCCTTCCT	0.677			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				7	21	---	---	---	---	PASS	T	145737345	T	T	145737345	2	4	36	1	0	0	0	0	0	0	0	1	13202	680	24	3		3	RECQL4	8	145737345	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	1781546	145737345	626677	176	14338										
KIAA1161	57462	broad.mit.edu	37	chr9	34372105	34372105	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cccacgcacactcggtagctCagctctggcgctgcggcgcg	13	17	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr9:34372105C>G	uc003zue.3	-	3	1004	c.837G>C	c.(835-837)CTG>CTC	p.L279L		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	279	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		CTCGGTAGCTCAGCTCTGGCG	0.667													11	48	---	---	---	---	PASS	G	34372105	G	G	34372105	2	3	36	1	0	0	0	0	0	0	0	1	8211	813	29	2		2	KIAA1161	9	34372105	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08		34372105	106841326	177	14339										
DNAI1	27019	broad.mit.edu	37	chr9	34514434	34514434	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aattcctcgacacctatgacGcccacaacatgtcagtggac	7	14	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr9:34514434G>A	uc003zum.2	+	17	1805	c.1612G>A	c.(1612-1614)GCC>ACC	p.A538T		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	538	WD 3.				cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)		CACCTATGACGCCCACAACAT	0.557									Kartagener_syndrome				87	315	---	---	---	---	PASS	A	34514434	A	A	34514434	3	1	36	1	0	0	0	0	1	0	0	0	4609	1087	38	1	1678	1	DNAI1	9	34514434	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	142329	34514434	106698997	178	14340										
FBXO10	26267	broad.mit.edu	37	chr9	37541752	37541752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gccacagctccaaggggaggCcaccagcctccatggtcacc	11	17	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr9:37541752C>A	uc004aab.2	-	2	63	c.14G>T	c.(13-15)GGC>GTC	p.G5V	FBXO10_uc004aac.2_Missense_Mutation_p.G21V|FBXO10_uc004aad.2_Intron	NM_012166	NP_036298	Q9UK96	FBX10_HUMAN	F-box protein 10	5	F-box.					ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(5)	5				GBM - Glioblastoma multiforme(29;0.0107)		CAAGGGGAGGCCACCAGCCTC	0.493													13	49	---	---	---	---	PASS	A	37541752	A	A	37541752	3	1	36	1	0	0	0	0	1	0	0	0	5726	739	26	3	2896	3	FBXO10	9	37541752	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	3027318	37541752	103671679	179	14341										
TRPM3	80036	broad.mit.edu	37	chr9	73296450	73296450	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aaagctgtcaggatagccaaAtcaatgtcctggtgtccttc	9	10	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr9:73296450A>G	uc004aid.2	-	9	1561	c.1317T>C	c.(1315-1317)GAT>GAC	p.D439D	TRPM3_uc004ahu.2_Silent_p.D269D|TRPM3_uc004ahv.2_Silent_p.D269D|TRPM3_uc004ahw.2_Silent_p.D311D|TRPM3_uc004ahx.2_Silent_p.D286D|TRPM3_uc004ahy.2_Silent_p.D311D|TRPM3_uc004ahz.2_Silent_p.D286D|TRPM3_uc004aia.2_Silent_p.D286D|TRPM3_uc004aib.2_Silent_p.D286D|TRPM3_uc004aic.2_Silent_p.D439D|TRPM3_uc010mor.2_Silent_p.D439D	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	464	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GGATAGCCAAATCAATGTCCT	0.383													35	142	---	---	---	---	PASS	G	73296450	G	G	73296450	2	3	36	1	0	0	0	0	0	0	0	1	16584	98	4	5		5	TRPM3	9	73296450	Silent	SNP	A	TCGA-22-4595-01A-01D-1267-08	35754698	73296450	67916981	180	14342										
MRPL50	54534	broad.mit.edu	37	chr9	104160868	104160868	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aatgcccgacacagatcgcgCcgccatcttcgatgagatcc	9	15	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr9:104160868C>A	uc004bbe.2	-	1	52	c.7G>T	c.(7-9)GCG>TCG	p.A3S	MRPL50_uc011lvj.1_Missense_Mutation_p.A3S|ZNF189_uc004bbg.1_5'Flank|ZNF189_uc004bbh.1_5'Flank|ZNF189_uc004bbi.1_5'Flank|ZNF189_uc011lvk.1_5'Flank	NM_019051	NP_061924	Q8N5N7	RM50_HUMAN	mitochondrial ribosomal protein L50	3						mitochondrion|ribosome					0		Acute lymphoblastic leukemia(62;0.0559)				ACAGATCGCGCCGCCATCTTC	0.537													4	137	---	---	---	---	PASS	A	104160868	A	A	104160868	3	1	36	1	0	0	0	0	1	0	0	0	9814	739	26	3	477	3	MRPL50	9	104160868	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	30864418	104160868	37052563	181	14343										
PRPF4	9128	broad.mit.edu	37	chr9	116045413	116045413	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctcttaatttgcctttcagtAtcagcaaacctggtatcatg	6	10	4	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr9:116045413A>G	uc004bgx.2	+	5	535	c.485A>G	c.(484-486)TAT>TGT	p.Y162C	PRPF4_uc004bgy.2_Missense_Mutation_p.Y161C	NM_004697	NP_004688	O43172	PRP4_HUMAN	PRP4 pre-mRNA processing factor 4 homolog	162						Cajal body|nuclear speck|spliceosomal complex|U4/U6 snRNP	protein binding			ovary(2)|pancreas(1)	3						GCCTTTCAGTATCAGCAAACC	0.408													104	240	---	---	---	---	PASS	G	116045413	G	G	116045413	3	3	36	1	0	0	0	0	1	0	0	0	12570	463	16	5	503	5	PRPF4	9	116045413	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	11884545	116045413	25168018	182	14344										
TNC	3371	broad.mit.edu	37	chr9	117846753	117846753	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aggtctttgggaggagacacTggcaggaataagaaaggaca	15	5	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr9:117846753T>C	uc004bjj.3	-	4	2230	c.1868_splice	c.e4-1	p.V623_splice	TNC_uc010mvf.2_Splice_Site_p.V623_splice	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor						cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GAGGAGACACTGGCAGGAATA	0.502													35	68	---	---	---	---	PASS	C	117846753	C	C	117846753	5	2	36	1	0	0	0	0	0	0	1	0	16267	1594	55	5	4839	5	TNC	9	117846753	Splice_Site	SNP	T	TCGA-22-4595-01A-01D-1267-08	1801340	117846753	23366678	183	14345										
DBC1	1620	broad.mit.edu	37	chr9	121971016	121971016	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cctctctctaggcagctggtGgttgggattgtggcgacagc	15	10	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr9:121971016G>T	uc004bkc.2	-	7	1582	c.1126C>A	c.(1126-1128)CAC>AAC	p.H376N		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	376					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GGCAGCTGGTGGTTGGGATTG	0.552													18	72	---	---	---	---	PASS	T	121971016	T	T	121971016	3	4	36	1	0	0	0	0	1	0	0	0	4247	1348	47	3	1167	3	DBC1	9	121971016	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	4124263	121971016	19242415	184	14346										
CDK5RAP2	55755	broad.mit.edu	37	chr9	123330665	123330665	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcttctgacacatttgggagCactgtaaaaaggtaaaatag	9	6	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr9:123330665C>T	uc004bkf.2	-	3	310	c.129G>A	c.(127-129)CTG>CTA	p.L43L	CDK5RAP2_uc004bkg.2_Silent_p.L43L|CDK5RAP2_uc011lxw.1_5'UTR|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_5'UTR|CDK5RAP2_uc011lya.1_5'UTR|CDK5RAP2_uc004bkh.1_Silent_p.L43L	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	43				L -> V (in Ref. 3; AAP41926).	brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						CATTTGGGAGCACTGTAAAAA	0.438													81	287	---	---	---	---	PASS	T	123330665	T	T	123330665	2	4	36	1	0	0	0	0	0	0	0	1	3146	724	25	3		3	CDK5RAP2	9	123330665	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	1359649	123330665	17882766	185	14347										
ADARB2	105	broad.mit.edu	37	chr10	1245948	1245948	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccggtaggaggcgggcagctGgccgacaccctccatgcggt	16	14	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:1245948G>A	uc009xhq.2	-	8	2196	c.1822C>T	c.(1822-1824)CAG>TAG	p.Q608*	ADARB2_uc001igm.3_Nonsense_Mutation_p.Q117*	NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	608	A to I editase.				mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		GCGGGCAGCTGGCCGACACCC	0.687													8	7	---	---	---	---	PASS	A	1245948	A	A	1245948	4	1	36	1	0	0	0	0	0	1	0	0	283	1357	47	3	409	3	ADARB2	10	1245948	Nonsense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08		1245948	134288799	186	14348										
GATA3	2625	broad.mit.edu	37	chr10	8115758	8115758	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cagaccagaaaccgaaaaatGtctagcaaatccaaaaagtg	7	9	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:8115758G>A	uc001ika.2	+	6	1661	c.1104G>A	c.(1102-1104)ATG>ATA	p.M368I	GATA3_uc001ijz.2_Missense_Mutation_p.M369I	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	368					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						ACCGAAAAATGTCTAGCAAAT	0.403			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						52	83	---	---	---	---	PASS	A	8115758	A	A	8115758	3	1	36	1	0	0	0	0	1	0	0	0	6255	1377	48	3	1125	3	GATA3	10	8115758	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	6869810	8115758	127418989	187	14349										
BAMBI	25805	broad.mit.edu	37	chr10	28970226	28970226	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgatgctgcccactgtgtagCcactggttatatgtgtaaat	10	8	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:28970226C>A	uc001iuj.1	+	2	519	c.116C>A	c.(115-117)GCC>GAC	p.A39D	BAMBI_uc001iui.2_Missense_Mutation_p.A39D	NM_012342	NP_036474	Q13145	BAMBI_HUMAN	BMP and activin membrane-bound inhibitor	39	Extracellular (Potential).				cell migration|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of cell proliferation|positive regulation of epithelial to mesenchymal transition|positive regulation of protein binding|positive regulation of transcription, DNA-dependent|regulation of cell shape	cytoplasm|integral to membrane|plasma membrane	frizzled binding|type II transforming growth factor beta receptor binding			central_nervous_system(4)	4						CACTGTGTAGCCACTGGTTAT	0.463													35	68	---	---	---	---	PASS	A	28970226	A	A	28970226	3	1	36	1	0	0	0	0	1	0	0	0	1306	739	26	3	122	3	BAMBI	10	28970226	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	20854468	28970226	106564521	188	14350										
LYZL2	119180	broad.mit.edu	37	chr10	30918610	30918610	+	Missense_Mutation	SNP	G	C	C													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gctccacttagtcggtgacaGgcagctcaggggagcgtcct							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:30918610G>C	uc001ivk.2	-	1	38	c.25C>G	c.(25-27)CTG>GTG	p.L9V		NM_183058	NP_898881	Q7Z4W2	LYZL2_HUMAN	lysozyme-like 2	Error:Variant_position_missing_in_Q7Z4W2_after_alignment					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Prostate(175;0.151)				GTCGGTGACAGGCAGCTCAGG	0.502													11	26	---	---	---	---	PASS	C	30918610	C	C	30918610	3	2	36	1	0	0	0	0	1	0	0	0	9132	991	35	4	579	4	LYZL2	10	30918610	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1948384	30918610	104616137	189	14351	365	2								
LYZL2	119180	broad.mit.edu	37	chr10	30918611	30918611	+	Silent	SNP	G	A	A													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctccacttagtcggtgacagGcagctcaggggagcgtcctg							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:30918611G>A	uc001ivk.2	-	1	37	c.24C>T	c.(22-24)TGC>TGT	p.C8C		NM_183058	NP_898881	Q7Z4W2	LYZL2_HUMAN	lysozyme-like 2	Error:Variant_position_missing_in_Q7Z4W2_after_alignment					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Prostate(175;0.151)				TCGGTGACAGGCAGCTCAGGG	0.507													11	26	---	---	---	---	PASS	A	30918611	A	A	30918611	2	1	36	1	0	0	0	0	0	0	0	1	9132	1195	42	3		3	LYZL2	10	30918611	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	1	30918611	104616136	190	14352	365	2								
NRP1	8829	broad.mit.edu	37	chr10	33559685	33559685	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aatttgataaaaagaaatggCcctgaagacacaacaggagg	10	6	0	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:33559685C>A	uc001iwx.3	-	3	871	c.348G>T	c.(346-348)GGG>GGT	p.G116G	NRP1_uc001iwv.3_Silent_p.G116G|NRP1_uc009xlz.2_Silent_p.G116G|NRP1_uc001iww.3_Intron|NRP1_uc001iwy.3_Silent_p.G116G|NRP1_uc001iwz.2_Silent_p.G116G|NRP1_uc001ixa.2_Silent_p.G116G|NRP1_uc001ixb.1_Silent_p.G116G|NRP1_uc001ixc.1_Silent_p.G116G	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	116	CUB 1.|Extracellular (Potential).				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	AAAGAAATGGCCCTGAAGACA	0.413													5	146	---	---	---	---	PASS	A	33559685	A	A	33559685	2	1	36	1	0	0	0	0	0	0	0	1	10660	726	26	3		3	NRP1	10	33559685	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	2641074	33559685	101975062	191	14353										
CREM	1390	broad.mit.edu	37	chr10	35437385	35437385	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtctgctcatgtgcagactcAgactggccaaaattcaatcc	8	12	4	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:35437385A>T	uc001iyb.2	+	3	296	c.134A>T	c.(133-135)CAG>CTG	p.Q45L	CREM_uc001ixx.2_Missense_Mutation_p.Q29L|CREM_uc001ixy.2_Intron|CREM_uc001ixz.2_Intron|CREM_uc001iya.2_Missense_Mutation_p.Q45L|CREM_uc001iyc.2_Missense_Mutation_p.Q29L|CREM_uc001iyd.2_Missense_Mutation_p.Q45L|CREM_uc001iye.2_Missense_Mutation_p.Q45L	NM_181571	NP_853549	Q03060	CREM_HUMAN	cAMP responsive element modulator isoform a	45					cell differentiation|multicellular organismal development|signal transduction|spermatogenesis	nucleus	cAMP response element binding protein binding|protein binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GTGCAGACTCAGACTGGCCAA	0.428													34	84	---	---	---	---	PASS	T	35437385	T	T	35437385	3	4	36	1	0	0	0	0	1	0	0	0	3868	188	7	5	140	5	CREM	10	35437385	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	1877700	35437385	100097362	192	14354										
ZNF25	219749	broad.mit.edu	37	chr10	38241502	38241502	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcatagggtttctctcctgtGtgacttctctgatgagtttt	9	8	3	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:38241502G>C	uc001ize.1	-	6	1029	c.924C>G	c.(922-924)CAC>CAG	p.H308Q	ZNF25_uc001izf.1_Missense_Mutation_p.H272Q	NM_145011	NP_659448	P17030	ZNF25_HUMAN	zinc finger protein 25	308	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|central_nervous_system(1)	4		all_neural(218;0.0218)|Breast(68;0.0389)|Ovarian(717;0.0443)|Renal(717;0.157)				TCTCTCCTGTGTGACTTCTCT	0.438													23	74	---	---	---	---	PASS	C	38241502	C	C	38241502	3	2	36	1	0	0	0	0	1	0	0	0	17791	1368	48	4	450	4	ZNF25	10	38241502	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	2804117	38241502	97293245	193	14355										
FRMPD2	143162	broad.mit.edu	37	chr10	49440322	49440322	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgagagccaaataggatttcCcttttttggtctgaaaacaa	8	7	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:49440322C>A	uc001jgi.2	-	10	1111	c.1004G>T	c.(1003-1005)GGG>GTG	p.G335V	FRMPD2_uc001jgh.2_Missense_Mutation_p.G304V|FRMPD2_uc001jgj.2_Missense_Mutation_p.G313V	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	335					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		ATAGGATTTCCCTTTTTTGGT	0.308													15	40	---	---	---	---	PASS	A	49440322	A	A	49440322	3	1	36	1	0	0	0	0	1	0	0	0	6058	623	22	3	3005	3	FRMPD2	10	49440322	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	11198820	49440322	86094425	194	14356										
TET1	80312	broad.mit.edu	37	chr10	70446445	70446445	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	acaacaaacaacagtaagccTtcgtcactgccaaccttagg	6	13	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:70446445T>G	uc001jok.3	+	11	5890	c.5385T>G	c.(5383-5385)CCT>CCG	p.P1795P		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1795					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						ACAGTAAGCCTTCGTCACTGC	0.428													51	118	---	---	---	---	PASS	G	70446445	G	G	70446445	2	3	36	1	0	0	0	0	0	0	0	1	15766	1596	56	5		5	TET1	10	70446445	Silent	SNP	T	TCGA-22-4595-01A-01D-1267-08	21006123	70446445	65088302	195	14357										
ADAMTS14	140766	broad.mit.edu	37	chr10	72462179	72462179	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tggtgtaccgccgggaggccGtccagcaggagtgggcagaa	18	10	0	1	rs141188417		TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:72462179G>A	uc001jrh.2	+	3	634	c.634G>A	c.(634-636)GTC>ATC	p.V212I	ADAMTS14_uc001jrg.2_Missense_Mutation_p.V212I	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	212					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						CCGGGAGGCCGTCCAGCAGGA	0.622													37	68	---	---	---	---	PASS	A	72462179	A	A	72462179	3	1	36	1	0	0	0	0	1	0	0	0	259	1145	40	1	644	1	ADAMTS14	10	72462179	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	2015734	72462179	63072568	196	14358										
VCL	7414	broad.mit.edu	37	chr10	75854156	75854156	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccaaagcagctgtacaccttGagggcaagattgagcaagca	11	10	0	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:75854156G>C	uc001jwd.2	+	11	1574	c.1480G>C	c.(1480-1482)GAG>CAG	p.E494Q	VCL_uc009xrr.2_Missense_Mutation_p.E243Q|VCL_uc010qky.1_Missense_Mutation_p.E401Q|VCL_uc001jwe.2_Missense_Mutation_p.E494Q|VCL_uc010qkz.1_Intron	NM_014000	NP_054706	P18206	VINC_HUMAN	vinculin isoform meta-VCL	494	N-terminal globular head.|3.|3 X 112 AA tandem repeats.				adherens junction assembly|apical junction assembly|cell-matrix adhesion|cellular component movement|epithelial cell-cell adhesion|lamellipodium assembly|morphogenesis of an epithelium|muscle contraction|negative regulation of cell migration|platelet activation|platelet degranulation|protein localization at cell surface	costamere|cytosol|extracellular region|focal adhesion	actin binding|alpha-catenin binding|beta-catenin binding|beta-dystroglycan binding|cadherin binding|structural molecule activity		VCL/ALK(4)	kidney(4)|ovary(1)|central_nervous_system(1)	6	Prostate(51;0.0112)					TGTACACCTTGAGGGCAAGAT	0.557													17	38	---	---	---	---	PASS	C	75854156	C	C	75854156	3	2	36	1	0	0	0	0	1	0	0	0	17136	1291	45	2	1522	2	VCL	10	75854156	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	3391977	75854156	59680591	197	14359										
LRIT1	26103	broad.mit.edu	37	chr10	85997240	85997240	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gggcagccgcagctcccgcaGgcgtcgcaggccccgcagca	15	18	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:85997240G>T	uc001kcz.1	-	2	347	c.325C>A	c.(325-327)CTG>ATG	p.L109M		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	109	LRR 3.|Lumenal (Potential).					integral to endoplasmic reticulum membrane					0						AGCTCCCGCAGGCGTCGCAGG	0.741													7	15	---	---	---	---	PASS	T	85997240	T	T	85997240	3	4	36	1	0	0	0	0	1	0	0	0	8947	991	35	3	1558	3	LRIT1	10	85997240	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	10143084	85997240	49537507	198	14360										
DMBT1	1755	broad.mit.edu	37	chr10	124352026	124352026	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gatgtgcgctgctcaggacaCgagtcctacctgtggagctg	14	11	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:124352026C>A	uc001lgk.1	+	20	2521	c.2415C>A	c.(2413-2415)CAC>CAA	p.H805Q	DMBT1_uc001lgl.1_Missense_Mutation_p.H795Q|DMBT1_uc001lgm.1_Intron|DMBT1_uc009xzz.1_Missense_Mutation_p.H805Q|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yaa.1_Missense_Mutation_p.H418Q	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	805	SRCR 6.				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)				GCTCAGGACACGAGTCCTACC	0.622													4	124	---	---	---	---	PASS	A	124352026	A	A	124352026	3	1	36	1	0	0	0	0	1	0	0	0	4577	535	19	1	2493	1	DMBT1	10	124352026	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	38354786	124352026	11182721	199	14361										
SYCE1	93426	broad.mit.edu	37	chr10	135370274	135370274	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gggactcacgtggaagtcccAgaggtccttgtgctggccca	14	12	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr10:135370274A>T	uc001lno.2	-	8	622	c.517T>A	c.(517-519)TGG>AGG	p.W173R	CYP2E1_uc001lnl.1_3'UTR|SYCE1_uc001lnm.2_Missense_Mutation_p.W45R|SYCE1_uc009ybn.2_Missense_Mutation_p.W173R|SYCE1_uc001lnn.2_Missense_Mutation_p.W137R	NM_001143764	NP_001137236	Q8N0S2	SYCE1_HUMAN	synaptonemal complex central element protein 1	173	Potential.				cell division	central element				ovary(1)	1		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		TGGAAGTCCCAGAGGTCCTTG	0.517													6	13	---	---	---	---	PASS	T	135370274	T	T	135370274	3	4	36	1	0	0	0	0	1	0	0	0	15425	188	7	5	605	5	SYCE1	10	135370274	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	11018248	135370274	164473	200	14362										
MUC2	4583	broad.mit.edu	37	chr11	1088727	1088727	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cccccggtgccccaaggacaGgcccatctatgaggaggatc	12	15	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:1088727G>T	uc001lsx.1	+	26	3539	c.3512G>T	c.(3511-3513)AGG>ATG	p.R1171M		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	1171						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	CCCAAGGACAGGCCCATCTAT	0.622													7	18	---	---	---	---	PASS	T	1088727	T	T	1088727	3	4	36	1	0	0	0	0	1	0	0	0	9975	1000	35	3	3614	3	MUC2	11	1088727	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08		1088727	133917789	201	14363										
TRPM5	29850	broad.mit.edu	37	chr11	2444157	2444157	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggcctgcccttaccttgcctCgcttcttcccagaccctcca	6	20	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:2444157C>G	uc001lwm.3	-	1	119	c.110G>C	c.(109-111)CGA>CCA	p.R37P	TRPM5_uc010qxl.1_Missense_Mutation_p.R37P|TRPM5_uc009ydn.2_Missense_Mutation_p.R37P	NM_014555	NP_055370	Q9NZQ8	TRPM5_HUMAN	transient receptor potential cation channel,	37	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity|voltage-gated ion channel activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Medulloblastoma(188;0.0049)|Breast(177;0.00586)|all_epithelial(84;0.0075)|Ovarian(85;0.0256)|all_neural(188;0.0311)		BRCA - Breast invasive adenocarcinoma(625;0.00147)|LUSC - Lung squamous cell carcinoma(625;0.191)		TACCTTGCCTCGCTTCTTCCC	0.657													43	107	---	---	---	---	PASS	G	2444157	G	G	2444157	3	3	36	1	0	0	0	0	1	0	0	0	16586	884	31	2	3483	2	TRPM5	11	2444157	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1355430	2444157	132562359	202	14364										
OR52J3	119679	broad.mit.edu	37	chr11	5068057	5068057	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	taactatggagcttgtgtggCccagatgtttctgatccatg	11	8	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:5068057C>A	uc010qyv.1	+	1	302	c.302C>A	c.(301-303)GCC>GAC	p.A101D		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	101	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCTTGTGTGGCCCAGATGTTT	0.493													33	69	---	---	---	---	PASS	A	5068057	A	A	5068057	3	1	36	1	0	0	0	0	1	0	0	0	11122	739	26	3	304	3	OR52J3	11	5068057	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	2623900	5068057	129938459	203	14365										
OR52J3	119679	broad.mit.edu	37	chr11	5068180	5068180	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aaccatcttgacatcccaagTgttggtgggcattagcatgt	10	9	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:5068180T>A	uc010qyv.1	+	1	425	c.425T>A	c.(424-426)GTG>GAG	p.V142E		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACATCCCAAGTGTTGGTGGGC	0.478													25	54	---	---	---	---	PASS	A	5068180	A	A	5068180	3	1	36	1	0	0	0	0	1	0	0	0	11122	1696	59	5	427	5	OR52J3	11	5068180	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	123	5068180	129938336	204	14366										
SLC6A5	9152	broad.mit.edu	37	chr11	20657899	20657899	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccggaagccttaaccaggctGcctctctctccgttctgggc	10	16	3	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:20657899G>T	uc001mqd.2	+	11	1944	c.1671G>T	c.(1669-1671)CTG>CTT	p.L557L	SLC6A5_uc009yic.2_Silent_p.L322L	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	557	Helical; Name=8; (Potential).				synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	TAACCAGGCTGCCTCTCTCTC	0.478													25	95	---	---	---	---	PASS	T	20657899	T	T	20657899	2	4	36	1	0	0	0	0	0	0	0	1	14687	1306	46	3		3	SLC6A5	11	20657899	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	15589719	20657899	114348617	205	14367										
ACCSL	390110	broad.mit.edu	37	chr11	44074600	44074600	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gacaagttagaggaagccctGcttgaagctaggcttgaggt	14	7	0	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:44074600G>C	uc001mxw.1	+	7	986	c.930G>C	c.(928-930)CTG>CTC	p.L310L	ACCSL_uc009ykr.2_Silent_p.L129L	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	310							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						AGGAAGCCCTGCTTGAAGCTA	0.438													42	157	---	---	---	---	PASS	C	44074600	C	C	44074600	2	2	36	1	0	0	0	0	0	0	0	1	134	1306	46	4		4	ACCSL	11	44074600	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	23416701	44074600	90931916	206	14368										
DGKZ	8525	broad.mit.edu	37	chr11	46394213	46394213	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	acctgcggatcctggcgtgcGggggcgacggcacggtgagc	19	12	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:46394213G>A	uc001ncn.1	+	13	1746	c.1621G>A	c.(1621-1623)GGG>AGG	p.G541R	DGKZ_uc001nch.1_Missense_Mutation_p.G369R|DGKZ_uc010rgq.1_Missense_Mutation_p.G296R|DGKZ_uc001ncj.1_Missense_Mutation_p.G319R|DGKZ_uc010rgr.1_Missense_Mutation_p.G318R|DGKZ_uc001nck.1_Missense_Mutation_p.G131R|DGKZ_uc001ncl.2_Missense_Mutation_p.G353R|DGKZ_uc001ncm.2_Missense_Mutation_p.G352R|DGKZ_uc009yky.1_Missense_Mutation_p.G353R|DGKZ_uc010rgs.1_Missense_Mutation_p.G330R	NM_001105540	NP_001099010	Q13574	DGKZ_HUMAN	diacylglycerol kinase zeta isoform 4	541	DAGKc.|Mediates interaction with RASGRP1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell migration|intracellular signal transduction|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of mitotic cell cycle|platelet activation	cytoplasm|lamellipodium|nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|diacylglycerol kinase activity|lipid kinase activity|metal ion binding|protein binding|protein C-terminus binding			pancreas(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.0259)|Lung(87;0.141)		CCTGGCGTGCGGGGGCGACGG	0.662													16	57	---	---	---	---	PASS	A	46394213	A	A	46394213	3	1	36	1	0	0	0	0	1	0	0	0	4474	1116	39	1	2114	1	DGKZ	11	46394213	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	2319613	46394213	88612303	207	14369										
TRIM48	79097	broad.mit.edu	37	chr11	55032464	55032464	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcatagacccggtcaccataGactgtgggcacagcttttgc	10	12	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:55032464G>T	uc010rid.1	+	2	219	c.133G>T	c.(133-135)GAC>TAC	p.D45Y		NM_024114	NP_077019	Q8IWZ4	TRI48_HUMAN	tripartite motif-containing 48	29	RING-type.					intracellular	zinc ion binding				0						GGTCACCATAGACTGTGGGCA	0.468													7	446	---	---	---	---	PASS	T	55032464	T	T	55032464	3	4	36	1	0	0	0	0	1	0	0	0	16520	942	33	2	139	2	TRIM48	11	55032464	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	8638251	55032464	79974052	208	14370										
OR5L2	26338	broad.mit.edu	37	chr11	55595086	55595086	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggccatctgtaaccccctgcTgtacatggtgaccatgtctc	9	14	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:55595086T>C	uc001nhy.1	+	1	392	c.392T>C	c.(391-393)CTG>CCG	p.L131P		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				AACCCCCTGCTGTACATGGTG	0.522										HNSCC(27;0.073)			94	298	---	---	---	---	PASS	C	55595086	C	C	55595086	3	2	36	1	0	0	0	0	1	0	0	0	11171	1580	55	5	394	5	OR5L2	11	55595086	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	562622	55595086	79411430	209	14371										
OR10Q1	219960	broad.mit.edu	37	chr11	57995960	57995960	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtagtgcagcgggtggcagaTagccacatagcggtcatagg	16	8	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:57995960T>C	uc010rkd.1	-	1	388	c.388A>G	c.(388-390)ATC>GTC	p.I130V		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				GGGTGGCAGATAGCCACATAG	0.612													15	65	---	---	---	---	PASS	C	57995960	C	C	57995960	3	2	36	1	0	0	0	0	1	0	0	0	10916	1406	49	5	575	5	OR10Q1	11	57995960	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	2400874	57995960	77010556	210	14372										
OR5B12	390191	broad.mit.edu	37	chr11	58207164	58207164	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgttcccagtatgaatggatGcattcaggaaaccacagatg	10	8	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:58207164G>T	uc010rkh.1	-	1	461	c.461C>A	c.(460-462)GCA>GAA	p.A154E		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				ATGAATGGATGCATTCAGGAA	0.453													39	174	---	---	---	---	PASS	T	58207164	T	T	58207164	3	4	36	1	0	0	0	0	1	0	0	0	11148	1319	46	3	487	3	OR5B12	11	58207164	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	211204	58207164	76799352	211	14373										
MS4A14	84689	broad.mit.edu	37	chr11	60165446	60165446	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aggatatccattctggggagCacttattgtgagtactgtcg	12	7	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:60165446C>A	uc001npj.2	+	2	825	c.260C>A	c.(259-261)GCA>GAA	p.A87E	MS4A14_uc001npi.2_Intron|MS4A14_uc001npn.2_5'UTR|MS4A14_uc001npk.2_Missense_Mutation_p.A87E|MS4A14_uc001npl.2_5'UTR|MS4A14_uc001npm.2_5'UTR	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	87	Helical; (Potential).					integral to membrane	receptor activity			breast(1)	1						TTCTGGGGAGCACTTATTGTG	0.323													18	66	---	---	---	---	PASS	A	60165446	A	A	60165446	3	1	36	1	0	0	0	0	1	0	0	0	9858	710	25	3	266	3	MS4A14	11	60165446	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1958282	60165446	74841070	212	14374										
PRPF19	27339	broad.mit.edu	37	chr11	60665318	60665318	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agcccaggaccagcctctacCtgtaaagtgaagaatctccg	9	13	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:60665318C>T	uc001nqf.2	-	15	1624	c.1417G>A	c.(1417-1419)GAG>AAG	p.E473K		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	473	WD 7.				DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						CAGCCTCTACCTGTAAAGTGA	0.532													49	202	---	---	---	---	PASS	T	60665318	T	T	60665318	3	4	36	1	0	0	0	0	1	0	0	0	12564	695	24	3	105	3	PRPF19	11	60665318	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	499872	60665318	74341198	213	14375										
HRASLS5	117245	broad.mit.edu	37	chr11	63230995	63230995	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcaggcagttattggtttggGctttatgctatccactacag	10	8	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:63230995G>T	uc001nwy.2	-	6	994	c.820C>A	c.(820-822)CCC>ACC	p.P274T	HRASLS5_uc001nwz.2_Missense_Mutation_p.P264T|HRASLS5_uc010rmq.1_3'UTR|HRASLS5_uc009yos.2_RNA	NM_054108	NP_473449	Q96KN8	HRSL5_HUMAN	HRAS-like suppressor family, member 5 isoform 1	274										ovary(1)	1						ATTGGTTTGGGCTTTATGCTA	0.473													68	232	---	---	---	---	PASS	T	63230995	T	T	63230995	3	4	36	1	0	0	0	0	1	0	0	0	7351	1203	42	3	23	3	HRASLS5	11	63230995	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	2565677	63230995	71775521	214	14376										
NUDT22	84304	broad.mit.edu	37	chr11	63996966	63996966	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccaggtgcagcctgacttctGagcaggtgaggaagcactac	13	11	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:63996966G>C	uc001nyp.3	+	5	874	c.694G>C	c.(694-696)GAG>CAG	p.E232Q	NUDT22_uc009ype.2_Missense_Mutation_p.E232Q|NUDT22_uc001nyq.3_Missense_Mutation_p.E199Q|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	232	Nudix hydrolase.						hydrolase activity				0						CCTGACTTCTGAGCAGGTGAG	0.587													73	239	---	---	---	---	PASS	C	63996966	C	C	63996966	3	2	36	1	0	0	0	0	1	0	0	0	10739	1291	45	2	708	2	NUDT22	11	63996966	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	765971	63996966	71009550	215	14377										
C11orf2	738	broad.mit.edu	37	chr11	64875684	64875684	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgcagggagggcggctcaggCgccccggagcaggcagagtg	20	11	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:64875684C>T	uc001ocr.1	+	5	781	c.741C>T	c.(739-741)GGC>GGT	p.G247G	C11orf2_uc001ocs.1_Silent_p.G123G	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	247					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						GCGGCTCAGGCGCCCCGGAGC	0.721													6	8	---	---	---	---	PASS	T	64875684	T	T	64875684	2	4	36	1	0	0	0	0	0	0	0	1	1633	755	27	1		1	C11orf2	11	64875684	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	878718	64875684	70130832	216	14378										
CD248	57124	broad.mit.edu	37	chr11	66082942	66082942	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gggaagagctccggatatttGgttgagatcatagggggctg	17	5	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:66082942G>A	uc001ohm.1	-	1	1574	c.1557C>T	c.(1555-1557)ACC>ACT	p.T519T		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	519	Pro-rich.|Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	CCGGATATTTGGTTGAGATCA	0.572													76	194	---	---	---	---	PASS	A	66082942	A	A	66082942	2	1	36	1	0	0	0	0	0	0	0	1	2989	1335	47	3		3	CD248	11	66082942	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	1207258	66082942	68923574	217	14379										
DHCR7	1717	broad.mit.edu	37	chr11	71146456	71146456	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cagcaggcggtaaggcactgCggcggtgtagcgctcccagt	16	12	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:71146456C>A	uc001oqk.2	-	9	1643	c.1393G>T	c.(1393-1395)GCA>TCA	p.A465S	DHCR7_uc001oql.2_Missense_Mutation_p.A465S	NM_001163817	NP_001157289	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	465					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|nuclear outer membrane	7-dehydrocholesterol reductase activity|protein binding			ovary(1)|liver(1)	2					NADH(DB00157)	TAAGGCACTGCGGCGGTGTAG	0.652									Smith-Lemli-Opitz_syndrome				45	126	---	---	---	---	PASS	A	71146456	A	A	71146456	3	1	36	1	0	0	0	0	1	0	0	0	4477	768	27	1	38	1	DHCR7	11	71146456	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	5063514	71146456	63860060	218	14380										
MAP6	4135	broad.mit.edu	37	chr11	75298589	75298589	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctttatgggtgctgtggccaTggcactttcatccttcggat	11	10	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:75298589T>A	uc001owu.2	-	4	2022	c.1957A>T	c.(1957-1959)ATG>TTG	p.M653L		NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	653	Pro-rich.					Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					GCTGTGGCCATGGCACTTTCA	0.498													5	426	---	---	---	---	PASS	A	75298589	A	A	75298589	3	1	36	1	0	0	0	0	1	0	0	0	9264	1464	51	5	488	5	MAP6	11	75298589	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	4152133	75298589	59707927	219	14381										
FAT3	120114	broad.mit.edu	37	chr11	92590384	92590384	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tccacctttgtcacaggaggActgtgtccggggtccaacga	12	12	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:92590384A>T	uc001pdj.3	+	19	11387	c.11370A>T	c.(11368-11370)GGA>GGT	p.G3790G	FAT3_uc001pdi.3_Silent_p.G230G	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3790	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCACAGGAGGACTGTGTCCGG	0.517										TCGA Ovarian(4;0.039)			40	139	---	---	---	---	PASS	T	92590384	T	T	92590384	2	4	36	1	0	0	0	0	0	0	0	1	5691	262	10	5		5	FAT3	11	92590384	Silent	SNP	A	TCGA-22-4595-01A-01D-1267-08	17291795	92590384	42416132	220	14382										
FAT3	120114	broad.mit.edu	37	chr11	92600220	92600220	+	Missense_Mutation	SNP	T	C	C													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctgcctggactcggtgatacTgaataacaatgagctgccgc							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:92600220T>C	uc001pdj.3	+	21	11989	c.11972T>C	c.(11971-11973)CTG>CCG	p.L3991P	FAT3_uc001pdi.3_Missense_Mutation_p.L431P	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3991	Laminin G-like.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCGGTGATACTGAATAACAAT	0.637										TCGA Ovarian(4;0.039)			4	6	---	---	---	---	PASS	C	92600220	C	C	92600220	3	2	36	1	0	0	0	0	1	0	0	0	5691	1580	55	5	12054	5	FAT3	11	92600220	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	9836	92600220	42406296	221	14383	366	2								
FAT3	120114	broad.mit.edu	37	chr11	92600221	92600221	+	Silent	SNP	G	T	T													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgcctggactcggtgatactGaataacaatgagctgccgct							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:92600221G>T	uc001pdj.3	+	21	11990	c.11973G>T	c.(11971-11973)CTG>CTT	p.L3991L	FAT3_uc001pdi.3_Silent_p.L431L	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3991	Laminin G-like.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CGGTGATACTGAATAACAATG	0.637										TCGA Ovarian(4;0.039)			4	6	---	---	---	---	PASS	T	92600221	T	T	92600221	2	4	36	1	0	0	0	0	0	0	0	1	5691	1277	45	2		2	FAT3	11	92600221	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	1	92600221	42406295	222	14384	366	2								
TRPC6	7225	broad.mit.edu	37	chr11	101362427	101362427	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcacagatcaaggagtccaaCaacaaagtctttgcactgca	8	11	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:101362427C>A	uc001pgk.3	-	3	1413	c.988G>T	c.(988-990)GTT>TTT	p.V330F	TRPC6_uc009ywy.2_Intron|TRPC6_uc009ywz.1_Missense_Mutation_p.V330F	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	330	Cytoplasmic (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		AGGAGTCCAACAACAAAGTCT	0.418													69	221	---	---	---	---	PASS	A	101362427	A	A	101362427	3	1	36	1	0	0	0	0	1	0	0	0	16580	478	17	3	1851	3	TRPC6	11	101362427	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	8762206	101362427	33644089	223	14385										
MMP7	4316	broad.mit.edu	37	chr11	102398592	102398592	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttctgcattatttctatgacGcgggagtttaacattccagt	8	8	2	1	rs17879417	byFrequency	TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:102398592G>T	uc001phb.2	-	2	278	c.231C>A	c.(229-231)CGC>CGA	p.R77R	MMP7_uc009yxd.2_Silent_p.R77R|MMP7_uc010rus.1_Silent_p.R77R	NM_002423	NP_002414	P09237	MMP7_HUMAN	matrix metalloproteinase 7 preproprotein	77					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(1)	1	all_cancers(8;2.04e-05)|all_epithelial(12;0.00053)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0105)|all cancers(10;0.0496)|Lung(13;0.109)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0147)		TTTCTATGACGCGGGAGTTTA	0.408													57	182	---	---	---	---	PASS	T	102398592	T	T	102398592	2	4	36	1	0	0	0	0	0	0	0	1	9667	1074	38	1		1	MMP7	11	102398592	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	1036165	102398592	32607924	224	14386										
CASP4	837	broad.mit.edu	37	chr11	104819395	104819395	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtctctgacccacagttcccCacggtttgctatggagacat	9	13	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:104819395C>A	uc001pid.1	-	6	863	c.790G>T	c.(790-792)GGG>TGG	p.G264W	CASP4_uc001pib.1_Missense_Mutation_p.G208W|CASP4_uc009yxg.1_Missense_Mutation_p.G173W	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor	264					apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		CACAGTTCCCCACGGTTTGCT	0.488													13	98	---	---	---	---	PASS	A	104819395	A	A	104819395	3	1	36	1	0	0	0	0	1	0	0	0	2673	594	21	3	355	3	CASP4	11	104819395	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	2420803	104819395	30187121	225	14387										
EXPH5	23086	broad.mit.edu	37	chr11	108382569	108382569	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctttatgtaatgttttcccaCgttcttttcctgacaagtct	5	10	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:108382569C>A	uc001pkk.2	-	6	3776	c.3665G>T	c.(3664-3666)CGT>CTT	p.R1222L	EXPH5_uc010rvy.1_Missense_Mutation_p.R1034L|EXPH5_uc010rvz.1_Missense_Mutation_p.R1066L|EXPH5_uc010rwa.1_Missense_Mutation_p.R1146L	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1222					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		TGTTTTCCCACGTTCTTTTCC	0.383													54	263	---	---	---	---	PASS	A	108382569	A	A	108382569	3	1	36	1	0	0	0	0	1	0	0	0	5322	536	19	1	2308	1	EXPH5	11	108382569	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	3563174	108382569	26623947	226	14388										
FAM55D	54827	broad.mit.edu	37	chr11	114453140	114453140	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gccttcttggtctctgttgtCcaggtactggcacaattcag	10	11	3	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:114453140C>A	uc001ppc.2	-	3	881	c.700G>T	c.(700-702)GAC>TAC	p.D234Y	FAM55D_uc001ppd.2_Intron	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	234						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		TCTCTGTTGTCCAGGTACTGG	0.468													58	185	---	---	---	---	PASS	A	114453140	A	A	114453140	3	1	36	1	0	0	0	0	1	0	0	0	5587	855	30	2	950	2	FAM55D	11	114453140	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	6070571	114453140	20553376	227	14389										
IL10RA	3587	broad.mit.edu	37	chr11	117860271	117860271	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggctaccgggccagagtgcgGgctgtggacggcagccggca	19	12	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:117860271G>T	uc001prv.2	+	3	380	c.303G>T	c.(301-303)CGG>CGT	p.R101R	IL10RA_uc010rxl.1_Silent_p.R81R|IL10RA_uc010rxm.1_Silent_p.R81R|IL10RA_uc010rxn.1_Intron|IL10RA_uc001prw.2_5'UTR	NM_001558	NP_001549	Q13651	I10R1_HUMAN	interleukin 10 receptor, alpha precursor	101	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-10 receptor activity			ovary(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)|Epithelial(105;0.00108)		CCAGAGTGCGGGCTGTGGACG	0.577													17	39	---	---	---	---	PASS	T	117860271	T	T	117860271	2	4	36	1	0	0	0	0	0	0	0	1	7620	1219	43	3		3	IL10RA	11	117860271	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	3407131	117860271	17146245	228	14390										
HINFP	25988	broad.mit.edu	37	chr11	119004999	119004999	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aagaggagggcaagggtagcGaagggacagccctctcagcc	16	10	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr11:119004999G>C	uc001pvp.2	+	11	1534	c.1345G>C	c.(1345-1347)GAA>CAA	p.E449Q	HINFP_uc001pvq.2_Missense_Mutation_p.E449Q|HINFP_uc001pvr.2_Missense_Mutation_p.E202Q	NM_015517	NP_056332	Q9BQA5	HINFP_HUMAN	MBD2 (methyl-CpG-binding protein)-interacting	449	Interaction with NPAT.				DNA damage checkpoint|DNA repair|establishment of protein localization|in utero embryonic development|myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	enzyme binding|histone binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						CAAGGGTAGCGAAGGGACAGC	0.562											OREG0021397	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	100	---	---	---	---	PASS	C	119004999	C	C	119004999	3	2	36	1	0	0	0	0	1	0	0	0	7110	1059	37	2	1379	2	HINFP	11	119004999	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1144728	119004999	16001517	229	14391										
WNK1	65125	broad.mit.edu	37	chr12	994800	994800	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtacagcctgttgccaatgtGcctgctgtacagcagacact	10	12	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:994800G>T	uc001qio.3	+	19	5337	c.4830G>T	c.(4828-4830)GTG>GTT	p.V1610V	WNK1_uc001qip.3_Silent_p.V1363V|WNK1_uc001qir.3_Silent_p.V783V	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1610					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			TTGCCAATGTGCCTGCTGTAC	0.478													125	213	---	---	---	---	PASS	T	994800	T	T	994800	2	4	36	1	0	0	0	0	0	0	0	1	17374	1306	46	3		3	WNK1	12	994800	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08		994800	132857095	230	14392										
ZNF384	171017	broad.mit.edu	37	chr12	6788168	6788168	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccgtgatattctgggtaacgGacgcttggctgtgtggggtc	16	8	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:6788168G>T	uc010sfh.1	-	4	456	c.248C>A	c.(247-249)TCC>TAC	p.S83Y	ZNF384_uc001qpz.2_Missense_Mutation_p.S83Y|ZNF384_uc001qqa.2_Missense_Mutation_p.S83Y|ZNF384_uc001qqb.2_Missense_Mutation_p.S83Y|ZNF384_uc001qqc.2_Missense_Mutation_p.S83Y|ZNF384_uc001qqd.2_Missense_Mutation_p.S83Y|ZNF384_uc001qqe.2_Missense_Mutation_p.S83Y|ZNF384_uc009zew.1_5'Flank	NM_001135734	NP_001129206	Q8TF68	ZN384_HUMAN	nuclear matrix transcription factor 4 isoform d	83					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/ZNF384(4)	haematopoietic_and_lymphoid_tissue(4)|central_nervous_system(3)|kidney(1)	8						CTGGGTAACGGACGCTTGGCT	0.562			T	EWSR1|TAF15 	ALL								60	364	---	---	---	---	PASS	T	6788168	T	T	6788168	3	4	36	1	0	0	0	0	1	0	0	0	17872	1174	41	2	1517	2	ZNF384	12	6788168	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	5793368	6788168	127063727	231	14393										
ZNF384	171017	broad.mit.edu	37	chr12	6788212	6788212	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tggtctgacttggactctgtGtccatactgatgcctgaggg	13	9	2	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:6788212G>T	uc010sfh.1	-	4	412	c.204C>A	c.(202-204)GAC>GAA	p.D68E	ZNF384_uc001qpz.2_Missense_Mutation_p.D68E|ZNF384_uc001qqa.2_Missense_Mutation_p.D68E|ZNF384_uc001qqb.2_Missense_Mutation_p.D68E|ZNF384_uc001qqc.2_Missense_Mutation_p.D68E|ZNF384_uc001qqd.2_Missense_Mutation_p.D68E|ZNF384_uc001qqe.2_Missense_Mutation_p.D68E|ZNF384_uc009zew.1_5'Flank	NM_001135734	NP_001129206	Q8TF68	ZN384_HUMAN	nuclear matrix transcription factor 4 isoform d	68					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/ZNF384(4)	haematopoietic_and_lymphoid_tissue(4)|central_nervous_system(3)|kidney(1)	8						TGGACTCTGTGTCCATACTGA	0.592			T	EWSR1|TAF15 	ALL								59	361	---	---	---	---	PASS	T	6788212	T	T	6788212	3	4	36	1	0	0	0	0	1	0	0	0	17872	1368	48	3	1561	3	ZNF384	12	6788212	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	44	6788212	127063683	232	14394										
C1S	716	broad.mit.edu	37	chr12	7177909	7177909	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggtaaagaactatgttgactGgataatgaagactatgcagg	12	4	0	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:7177909G>A	uc001qsj.2	+	15	2740	c.2021G>A	c.(2020-2022)TGG>TAG	p.W674*	C1S_uc001qsk.2_Nonsense_Mutation_p.W674*|C1S_uc001qsl.2_Nonsense_Mutation_p.W674*|C1S_uc009zfr.2_Nonsense_Mutation_p.W507*|C1S_uc009zfs.2_RNA	NM_201442	NP_958850	P09871	C1S_HUMAN	complement component 1, s subcomponent	674	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity			skin(1)	1					Abciximab(DB00054)|Adalimumab(DB00051)|Basiliximab(DB00074)|Cetuximab(DB00002)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Rituximab(DB00073)|Trastuzumab(DB00072)	TATGTTGACTGGATAATGAAG	0.522													5	409	---	---	---	---	PASS	A	7177909	A	A	7177909	4	1	36	1	0	0	0	0	0	1	0	0	1974	1357	47	3	2063	3	C1S	12	7177909	Nonsense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	389697	7177909	126673986	233	14395										
CLEC4C	170482	broad.mit.edu	37	chr12	7882298	7882298	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggaaatttattatcgcacaaCgctcatcaaggttattgggt	9	7	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:7882298C>A	uc001qtg.1	-	6	710	c.536G>T	c.(535-537)CGT>CTT	p.R179L	CLEC4C_uc001qth.1_Missense_Mutation_p.R179L|CLEC4C_uc001qti.1_Missense_Mutation_p.R148L	NM_130441	NP_569708	Q8WTT0	CLC4C_HUMAN	C-type lectin domain family 4, member C isoform	179	Extracellular (Potential).|C-type lectin.				innate immune response	integral to membrane	sugar binding			ovary(2)|skin(1)	3				Kidney(36;0.0915)		TATCGCACAACGCTCATCAAG	0.418													93	488	---	---	---	---	PASS	A	7882298	A	A	7882298	3	1	36	1	0	0	0	0	1	0	0	0	3513	536	19	1	109	1	CLEC4C	12	7882298	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	704389	7882298	125969597	234	14396										
SLC2A3	6515	broad.mit.edu	37	chr12	8082408	8082408	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttgtgacatccttgcactctCatctttcatctcctggatgt	6	12	4	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:8082408C>T	uc001qtr.2	-	6	995	c.733G>A	c.(733-735)GAG>AAG	p.E245K	SLC2A3_uc001qts.2_3'UTR	NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	245	Cytoplasmic (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		CTTGCACTCTCATCTTTCATC	0.483													63	249	---	---	---	---	PASS	T	8082408	T	T	8082408	3	4	36	1	0	0	0	0	1	0	0	0	14545	835	29	2	777	2	SLC2A3	12	8082408	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	200110	8082408	125769487	235	14397										
CLEC4E	26253	broad.mit.edu	37	chr12	8692491	8692491	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	caggcactgagaaataggatGgggatcccagcaacagtcca	12	10	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:8692491G>A	uc001quo.1	-	2	255	c.90C>T	c.(88-90)CCC>CCT	p.P30P		NM_014358	NP_055173	Q9ULY5	CLC4E_HUMAN	C-type lectin domain family 4, member E	30	Helical; Signal-anchor for type II membrane protein; (Potential).					integral to membrane	sugar binding			central_nervous_system(1)	1	Lung SC(5;0.184)					GAAATAGGATGGGGATCCCAG	0.413													162	328	---	---	---	---	PASS	A	8692491	A	A	8692491	2	1	36	1	0	0	0	0	0	0	0	1	3515	1335	47	3		3	CLEC4E	12	8692491	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	610083	8692491	125159404	236	14398										
PZP	5858	broad.mit.edu	37	chr12	9304822	9304822	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	taaaatacacctaccattttTactgttggtttcaggggaat	7	7	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:9304822T>C	uc001qvl.2	-	32	4235	c.4206A>G	c.(4204-4206)GTA>GTG	p.V1402V	PZP_uc009zgl.2_Silent_p.V1188V	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						CTACCATTTTTACTGTTGGTT	0.363													35	141	---	---	---	---	PASS	C	9304822	C	C	9304822	2	2	36	1	0	0	0	0	0	0	0	1	12869	1741	61	5		5	PZP	12	9304822	Silent	SNP	T	TCGA-22-4595-01A-01D-1267-08	612331	9304822	124547073	237	14399										
TAS2R19	259294	broad.mit.edu	37	chr12	11174603	11174603	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cagaaaacatattaggctcaGagtaaagggtatgaggtttg	12	4	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:11174603G>C	uc010shj.1	-	1	568	c.568C>G	c.(568-570)CTG>GTG	p.L190V	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176888	NP_795369	P59542	T2R19_HUMAN	taste receptor, type 2, member 19	190	Helical; Name=5; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			skin(1)	1						ATTAGGCTCAGAGTAAAGGGT	0.398													60	310	---	---	---	---	PASS	C	11174603	C	C	11174603	3	2	36	1	0	0	0	0	1	0	0	0	15567	933	33	2	334	2	TAS2R19	12	11174603	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1869781	11174603	122677292	238	14400										
ATF7IP	55729	broad.mit.edu	37	chr12	14613884	14613884	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cattgggaacaacacttgctGtgcaggctgttccaacagca	10	11	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:14613884G>C	uc001rbw.2	+	9	2772	c.2614G>C	c.(2614-2616)GTG>CTG	p.V872L	ATF7IP_uc010shs.1_3'UTR|ATF7IP_uc001rbu.2_Missense_Mutation_p.V872L|ATF7IP_uc001rbv.1_Missense_Mutation_p.V871L|ATF7IP_uc001rbx.2_Missense_Mutation_p.V871L|ATF7IP_uc010sht.1_3'UTR|ATF7IP_uc001rby.3_Missense_Mutation_p.V872L|ATF7IP_uc001rca.2_Missense_Mutation_p.V872L	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	872					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						AACACTTGCTGTGCAGGCTGT	0.493													37	93	---	---	---	---	PASS	C	14613884	C	C	14613884	3	2	36	1	0	0	0	0	1	0	0	0	1087	1377	48	4	2644	4	ATF7IP	12	14613884	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	3439281	14613884	119238011	239	14401										
PIK3C2G	5288	broad.mit.edu	37	chr12	18715656	18715656	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggaaaataaaggaaagtctgGagtgtttccctgttaaattg	11	4	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:18715656G>T	uc001rdt.2	+	26	3603	c.3487G>T	c.(3487-3489)GAG>TAG	p.E1163*	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Nonsense_Mutation_p.E1204*|PIK3C2G_uc010sic.1_Nonsense_Mutation_p.E982*	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	1163	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				GGAAAGTCTGGAGTGTTTCCC	0.378													5	27	---	---	---	---	PASS	T	18715656	T	T	18715656	4	4	36	1	0	0	0	0	0	1	0	0	11911	1175	41	2	3585	2	PIK3C2G	12	18715656	Nonsense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	4101772	18715656	115136239	240	14402										
SLCO1A2	6579	broad.mit.edu	37	chr12	21446895	21446895	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttaccatgtttattcccgttCcaatggatgtctcacaacca	5	12	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:21446895C>T	uc001rer.2	-	10	1672	c.1421G>A	c.(1420-1422)GGA>GAA	p.G474E	SLCO1A2_uc001res.2_Missense_Mutation_p.G474E|SLCO1A2_uc010siq.1_Missense_Mutation_p.G342E|SLCO1A2_uc010sio.1_Missense_Mutation_p.G342E|SLCO1A2_uc010sip.1_Missense_Mutation_p.G342E|SLCO1A2_uc001ret.2_Missense_Mutation_p.G472E	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	474	Extracellular (Potential).|Kazal-like.				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TATTCCCGTTCCAATGGATGT	0.393													18	107	---	---	---	---	PASS	T	21446895	T	T	21446895	3	4	36	1	0	0	0	0	1	0	0	0	14722	855	30	2	611	2	SLCO1A2	12	21446895	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	2731239	21446895	112405000	241	14403										
ABCC9	10060	broad.mit.edu	37	chr12	21968726	21968726	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aggtttgatgtaagccttgaCgtgcttaagaacaggtttca	11	6	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:21968726C>A	uc001rfi.1	-	32	4014	c.3994G>T	c.(3994-3996)GTC>TTC	p.V1332F	ABCC9_uc001rfh.2_Missense_Mutation_p.V1332F|ABCC9_uc001rfj.1_Missense_Mutation_p.V1296F	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1332	Cytoplasmic (Potential).|ABC transporter 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TAAGCCTTGACGTGCTTAAGA	0.383													42	216	---	---	---	---	PASS	A	21968726	A	A	21968726	3	1	36	1	0	0	0	0	1	0	0	0	59	536	19	1	825	1	ABCC9	12	21968726	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	521831	21968726	111883169	242	14404										
ALG10	84920	broad.mit.edu	37	chr12	34175630	34175630	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gccttcagccgggcgttgcgAgagccctacatggacgagat	14	12	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:34175630A>T	uc001rlm.2	+	1	415	c.96A>T	c.(94-96)CGA>CGT	p.R32R		NM_032834	NP_116223	Q5BKT4	AG10A_HUMAN	asparagine-linked glycosylation 10 homolog	32	Extracellular (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			skin(1)	1	Lung NSC(5;3.82e-05)|Acute lymphoblastic leukemia(23;0.0142)|all_hematologic(23;0.0429)	Lung NSC(34;0.204)|all_lung(34;0.235)				GGGCGTTGCGAGAGCCCTACA	0.597													108	447	---	---	---	---	PASS	T	34175630	T	T	34175630	2	4	36	1	0	0	0	0	0	0	0	1	511	291	11	5		5	ALG10	12	34175630	Silent	SNP	A	TCGA-22-4595-01A-01D-1267-08	12206904	34175630	99676265	243	14405										
SLC4A8	9498	broad.mit.edu	37	chr12	51847358	51847358	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agaagatgttgaagatggggGagaacgctggagcaagcctt	16	5	0	5			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:51847358G>A	uc001rys.1	+	5	627	c.449G>A	c.(448-450)GGA>GAA	p.G150E	SLC4A8_uc010sni.1_Missense_Mutation_p.G97E|SLC4A8_uc001rym.2_Missense_Mutation_p.G97E|SLC4A8_uc001ryn.2_Missense_Mutation_p.G97E|SLC4A8_uc001ryo.2_Missense_Mutation_p.G97E|SLC4A8_uc001ryp.1_Missense_Mutation_p.G97E|SLC4A8_uc010snj.1_Missense_Mutation_p.G177E|SLC4A8_uc001ryq.3_Missense_Mutation_p.G150E|SLC4A8_uc001ryr.2_Missense_Mutation_p.G150E|SLC4A8_uc010snk.1_Missense_Mutation_p.G97E	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	150	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		GAAGATGGGGGAGAACGCTGG	0.418													44	104	---	---	---	---	PASS	A	51847358	A	A	51847358	3	1	36	1	0	0	0	0	1	0	0	0	14659	1174	41	2	467	2	SLC4A8	12	51847358	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	17671728	51847358	82004537	244	14406										
SCN8A	6334	broad.mit.edu	37	chr12	52156414	52156414	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cctcagtttaatggaactgaGtctagcagacgtggaggggc	14	8	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:52156414G>C	uc001ryw.2	+	15	2676	c.2498G>C	c.(2497-2499)AGT>ACT	p.S833T	SCN8A_uc010snl.1_Missense_Mutation_p.S698T|SCN8A_uc001ryy.2_Missense_Mutation_p.S698T	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	833	Helical; Name=S3 of repeat II; (Potential).|II.				axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	ATGGAACTGAGTCTAGCAGAC	0.408													46	122	---	---	---	---	PASS	C	52156414	C	C	52156414	3	2	36	1	0	0	0	0	1	0	0	0	13924	1029	36	4	2552	4	SCN8A	12	52156414	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	309056	52156414	81695481	245	14407										
NAB2	4665	broad.mit.edu	37	chr12	57485758	57485758	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcgactctaagcggcgggagGgcaagcagctcagcctgcac	14	13	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:57485758G>T	uc001smz.2	+	2	1312	c.934G>T	c.(934-936)GGC>TGC	p.G312C		NM_005967	NP_005958	Q15742	NAB2_HUMAN	NGFI-A binding protein 2	312	NCD2.				cell proliferation|negative regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	transcription corepressor activity			upper_aerodigestive_tract(1)|ovary(1)	2						GCGGCGGGAGGGCAAGCAGCT	0.547													39	87	---	---	---	---	PASS	T	57485758	T	T	57485758	3	4	36	1	0	0	0	0	1	0	0	0	10132	1232	43	3	940	3	NAB2	12	57485758	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	5329344	57485758	76366137	246	14408										
SRRM4	84530	broad.mit.edu	37	chr12	119419808	119419808	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccagtatcacggcccgcaagCcgctgccaaggtaatgatct	10	14	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr12:119419808C>A	uc001txa.1	+	1	413	c.121C>A	c.(121-123)CCG>ACG	p.P41T		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	41					cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						GGCCCGCAAGCCGCTGCCAAG	0.607													3	3	---	---	---	---	PASS	A	119419808	A	A	119419808	3	1	36	1	0	0	0	0	1	0	0	0	15170	739	26	3	123	3	SRRM4	12	119419808	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	61934050	119419808	14432087	247	14409										
RNF17	56163	broad.mit.edu	37	chr13	25363490	25363490	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tttttttaaattctagattaTccggactttgcagttaactt	5	6	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr13:25363490T>A	uc001upr.2	+	8	829	c.788T>A	c.(787-789)ATC>AAC	p.I263N	RNF17_uc010tdd.1_Missense_Mutation_p.I122N|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.I263N|RNF17_uc001ups.2_Missense_Mutation_p.I202N|RNF17_uc001upq.1_Missense_Mutation_p.I263N	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	263					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		TTCTAGATTATCCGGACTTTG	0.333													52	122	---	---	---	---	PASS	A	25363490	A	A	25363490	3	1	36	1	0	0	0	0	1	0	0	0	13461	1435	50	5	818	5	RNF17	13	25363490	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08		25363490	89806388	248	14410										
BRCA2	675	broad.mit.edu	37	chr13	32907110	32907110	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctccagtggcttcttcatttCagggtatcaaaaagtctata	7	9	5	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr13:32907110C>T	uc001uub.1	+	10	1722	c.1495C>T	c.(1495-1497)CAG>TAG	p.Q499*	BRCA2_uc001uua.1_Nonsense_Mutation_p.Q376*	NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	499					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TTCTTCATTTCAGGGTATCAA	0.358			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			34	73	---	---	---	---	PASS	T	32907110	T	T	32907110	4	4	36	1	0	0	0	0	0	1	0	0	1499	827	29	2	1529	2	BRCA2	13	32907110	Nonsense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	7543620	32907110	82262768	249	14411										
C13orf36	400120	broad.mit.edu	37	chr13	37269404	37269404	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctgcttttaatcattgccctCcagaggctcaaaaatatcat	5	11	3	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr13:37269404C>T	uc001uvt.3	+	2	635	c.189C>T	c.(187-189)CTC>CTT	p.L63L		NM_203451	NP_982276	A2A2V5	CM036_HUMAN	hypothetical protein LOC400120	63	Helical; (Potential).					integral to membrane				skin(1)	1						TCATTGCCCTCCAGAGGCTCA	0.473													105	262	---	---	---	---	PASS	T	37269404	T	T	37269404	2	4	36	1	0	0	0	0	0	0	0	1	1730	842	30	2		2	C13orf36	13	37269404	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	4362294	37269404	77900474	250	14412										
LRCH1	23143	broad.mit.edu	37	chr13	47262104	47262104	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggccacatttacaccagcacGtggaagatgggtgagtcatg	13	9	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr13:47262104G>T	uc001vbj.2	+	6	1176	c.940G>T	c.(940-942)GTG>TTG	p.V314L	LRCH1_uc010acp.2_Missense_Mutation_p.V314L|LRCH1_uc001vbk.2_Missense_Mutation_p.V314L|LRCH1_uc001vbl.3_Missense_Mutation_p.V314L	NM_015116	NP_055931	Q9Y2L9	LRCH1_HUMAN	leucine-rich repeats and calponin homology (CH)	314										ovary(1)|central_nervous_system(1)	2		all_lung(13;5.61e-07)|Lung NSC(96;0.000117)|Breast(56;0.000141)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000123)		ACACCAGCACGTGGAAGATGG	0.448													33	57	---	---	---	---	PASS	T	47262104	T	T	47262104	3	4	36	1	0	0	0	0	1	0	0	0	8932	1145	40	1	962	1	LRCH1	13	47262104	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	9992700	47262104	67907774	251	14413										
PCDH17	27253	broad.mit.edu	37	chr13	58207715	58207715	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtcaagctcatcgaccgcaaCgacaatgcgccgtccatcgg	10	15	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr13:58207715C>A	uc001vhq.1	+	1	1927	c.1035C>A	c.(1033-1035)AAC>AAA	p.N345K	PCDH17_uc010aec.1_Missense_Mutation_p.N345K	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	345	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TCGACCGCAACGACAATGCGC	0.657													38	69	---	---	---	---	PASS	A	58207715	A	A	58207715	3	1	36	1	0	0	0	0	1	0	0	0	11512	535	19	1	1037	1	PCDH17	13	58207715	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	10945611	58207715	56962163	252	14414										
COL4A1	1282	broad.mit.edu	37	chr13	110866278	110866278	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cacagccgtgcttaccttttGtcctggtggtccctgtggcc	11	14	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr13:110866278G>C	uc001vqw.3	-	3	351	c.229C>G	c.(229-231)CAA>GAA	p.Q77E	COL4A1_uc010agl.2_Missense_Mutation_p.Q77E	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	77					angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CTTACCTTTTGTCCTGGTGGT	0.522													5	585	---	---	---	---	PASS	C	110866278	C	C	110866278	3	2	36	1	0	0	0	0	1	0	0	0	3689	1386	48	4	4980	4	COL4A1	13	110866278	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	52658563	110866278	4303600	253	14415										
OR4K2	390431	broad.mit.edu	37	chr14	20345323	20345323	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gaagtaaagatagccatgagGaaactgaaaaataggtttct	10	4	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:20345323G>T	uc001vwh.1	+	1	897	c.897G>T	c.(895-897)AGG>AGT	p.R299S		NM_001005501	NP_001005501	Q8NGD2	OR4K2_HUMAN	olfactory receptor, family 4, subfamily K,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TAGCCATGAGGAAACTGAAAA	0.343													23	207	---	---	---	---	PASS	T	20345323	T	T	20345323	3	4	36	1	0	0	0	0	1	0	0	0	11072	1165	41	2	899	2	OR4K2	14	20345323	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08		20345323	87004217	254	14416										
OR4K5	79317	broad.mit.edu	37	chr14	20389653	20389653	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aggaatagggatatgaaggcTgccgtaaggaaaattgtgaa	14	3	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:20389653T>A	uc010tkw.1	+	1	888	c.888T>A	c.(886-888)GCT>GCA	p.A296A		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	296	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATATGAAGGCTGCCGTAAGGA	0.388													24	218	---	---	---	---	PASS	A	20389653	A	A	20389653	2	1	36	1	0	0	0	0	0	0	0	1	11073	1567	55	5		5	OR4K5	14	20389653	Silent	SNP	T	TCGA-22-4595-01A-01D-1267-08	44330	20389653	86959887	255	14417										
RNASE2	6036	broad.mit.edu	37	chr14	21424410	21424410	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccagttcacctggatagaatCatctaagctcctgtatcagc	7	12	4	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:21424410C>G	uc010aif.2	+	2	549	c.480C>G	c.(478-480)ATC>ATG	p.I160M	RNASE2_uc001vyl.1_Missense_Mutation_p.I160M	NM_002934	NP_002925	P10153	RNAS2_HUMAN	ribonuclease, RNase A family, 2 (liver,	160					chemotaxis|RNA catabolic process	extracellular region|lysosome	nucleic acid binding|pancreatic ribonuclease activity			ovary(1)	1	all_cancers(95;0.00381)		OV - Ovarian serous cystadenocarcinoma(11;6.3e-09)|Epithelial(56;1.42e-07)|all cancers(55;5.48e-07)	GBM - Glioblastoma multiforme(265;0.0187)		TGGATAGAATCATCTAAGCTC	0.458													96	285	---	---	---	---	PASS	G	21424410	G	G	21424410	3	3	36	1	0	0	0	0	1	0	0	0	13404	816	29	2	482	2	RNASE2	14	21424410	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1034757	21424410	85925130	256	14418										
OR5AU1	390445	broad.mit.edu	37	chr14	21623614	21623614	+	Missense_Mutation	SNP	C	A	A													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cacaatcagcgaggcacagaCctcaggagacatgatggttg							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:21623614C>A	uc010tlp.1	-	1	571	c.571G>T	c.(571-573)GTC>TTC	p.V191F		NM_001004731	NP_001004731	Q8NGC0	O5AU1_HUMAN	olfactory receptor, family 5, subfamily AU,	191	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(95;0.00238)		Epithelial(56;6.88e-07)|all cancers(55;6.02e-06)	GBM - Glioblastoma multiforme(265;0.0192)		GAGGCACAGACCTCAGGAGAC	0.502													16	59	---	---	---	---	PASS	A	21623614	A	A	21623614	3	1	36	1	0	0	0	0	1	0	0	0	11147	507	18	3	520	3	OR5AU1	14	21623614	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	199204	21623614	85725926	257	14419	367	2								
OR5AU1	390445	broad.mit.edu	37	chr14	21623615	21623615	+	Missense_Mutation	SNP	C	A	A													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	acaatcagcgaggcacagacCtcaggagacatgatggttga							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:21623615C>A	uc010tlp.1	-	1	570	c.570G>T	c.(568-570)GAG>GAT	p.E190D		NM_001004731	NP_001004731	Q8NGC0	O5AU1_HUMAN	olfactory receptor, family 5, subfamily AU,	190	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(95;0.00238)		Epithelial(56;6.88e-07)|all cancers(55;6.02e-06)	GBM - Glioblastoma multiforme(265;0.0192)		AGGCACAGACCTCAGGAGACA	0.507													15	59	---	---	---	---	PASS	A	21623615	A	A	21623615	3	1	36	1	0	0	0	0	1	0	0	0	11147	680	24	3	521	3	OR5AU1	14	21623615	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1	21623615	85725925	258	14420	367	2								
OR10G2	26534	broad.mit.edu	37	chr14	22102181	22102181	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	acacagccgctgccccatccAgggggtctttggagccagcc	12	16	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:22102181A>G	uc010tmc.1	-	1	818	c.818T>C	c.(817-819)CTG>CCG	p.L273P		NM_001005466	NP_001005466	Q8NGC3	O10G2_HUMAN	olfactory receptor, family 10, subfamily G,	273	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(95;0.00113)	Acute lymphoblastic leukemia(2;0.0279)		GBM - Glioblastoma multiforme(265;0.0142)		TGCCCCATCCAGGGGGTCTTT	0.542													18	67	---	---	---	---	PASS	G	22102181	G	G	22102181	3	3	36	1	0	0	0	0	1	0	0	0	10899	188	7	5	117	5	OR10G2	14	22102181	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	478566	22102181	85247359	259	14421										
KLHL28	54813	broad.mit.edu	37	chr14	45403624	45403624	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	catgttttctgatagtgacgCcaggacgcacattagttgca	10	9	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:45403624C>G	uc001wvq.2	-	3	1283	c.1037G>C	c.(1036-1038)GGC>GCC	p.G346A	KLHL28_uc001wvr.2_Missense_Mutation_p.G346A	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	346	Kelch 2.									ovary(1)	1						GATAGTGACGCCAGGACGCAC	0.393													42	143	---	---	---	---	PASS	G	45403624	G	G	45403624	3	3	36	1	0	0	0	0	1	0	0	0	8382	739	26	4	690	4	KLHL28	14	45403624	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	23301443	45403624	61945916	260	14422										
SDCCAG1	9147	broad.mit.edu	37	chr14	50295371	50295371	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgctgacaagctgagatcaaCatctacaagtaagggcttat	9	8	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:50295371C>T	uc001wxc.2	-	14	1455	c.1387G>A	c.(1387-1389)GTT>ATT	p.V463I	SDCCAG1_uc010anj.1_Missense_Mutation_p.V463I|SDCCAG1_uc010tqi.1_Missense_Mutation_p.V463I|SDCCAG1_uc001wxe.2_Missense_Mutation_p.V421I|SDCCAG1_uc001wxd.1_5'UTR|SDCCAG1_uc010anq.1_Missense_Mutation_p.V234I	NM_004713	NP_004704	O60524	NEMF_HUMAN	serologically defined colon cancer antigen 1	463						cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)		CTGAGATCAACATCTACAAGT	0.333													31	191	---	---	---	---	PASS	T	50295371	T	T	50295371	3	4	36	1	0	0	0	0	1	0	0	0	13957	478	17	3	1923	3	SDCCAG1	14	50295371	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	4891747	50295371	57054169	261	14423										
KCNH5	27133	broad.mit.edu	37	chr14	63174853	63174853	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttgggcttgagttccatggcAtcacggttgttctgcttaag	12	8	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:63174853A>G	uc001xfx.2	-	11	2391	c.2340T>C	c.(2338-2340)GAT>GAC	p.D780D	KCNH5_uc001xfy.2_3'UTR	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	780	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		GTTCCATGGCATCACGGTTGT	0.493													51	98	---	---	---	---	PASS	G	63174853	G	G	63174853	2	3	36	1	0	0	0	0	0	0	0	1	8035	214	8	5		5	KCNH5	14	63174853	Silent	SNP	A	TCGA-22-4595-01A-01D-1267-08	12879482	63174853	44174687	262	14424										
POMT2	29954	broad.mit.edu	37	chr14	77746415	77746415	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtgtcattgacccctgagaaGcgtaggccctgtggaataga	13	9	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:77746415G>A	uc001xti.2	-	17	1935	c.1734C>T	c.(1732-1734)CGC>CGT	p.R578R	POMT2_uc001xth.1_Silent_p.R276R	NM_013382	NP_037514	Q9UKY4	POMT2_HUMAN	protein-O-mannosyltransferase 2	578					protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)		CCCCTGAGAAGCGTAGGCCCT	0.597													46	64	---	---	---	---	PASS	A	77746415	A	A	77746415	2	1	36	1	0	0	0	0	0	0	0	1	12246	958	34	3		3	POMT2	14	77746415	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	14571562	77746415	29603125	263	14425										
VIPAR	63894	broad.mit.edu	37	chr14	77894748	77894748	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agcatcaatcttctcctcctCtgctgatcctttatctacct	3	15	5	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:77894748C>G	uc001xtt.1	-	20	1764	c.1426G>C	c.(1426-1428)GAG>CAG	p.E476Q	VIPAR_uc001xtu.1_Missense_Mutation_p.E476Q|VIPAR_uc010tvj.1_Missense_Mutation_p.E427Q|VIPAR_uc001xtv.1_Missense_Mutation_p.E476Q	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894	476					endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1						TTCTCCTCCTCTGCTGATCCT	0.483													59	57	---	---	---	---	PASS	G	77894748	G	G	77894748	3	3	36	1	0	0	0	0	1	0	0	0	17165	922	32	2	63	2	VIPAR	14	77894748	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	148333	77894748	29454792	264	14426										
EIF5	1983	broad.mit.edu	37	chr14	103802424	103802424	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttatagtcaacatggttgacGttgcaaaggcgcttaatcgg	11	7	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:103802424G>A	uc001ymq.2	+	4	646	c.124G>A	c.(124-126)GTT>ATT	p.V42I	EIF5_uc001ymr.2_Missense_Mutation_p.V42I|EIF5_uc001yms.2_Missense_Mutation_p.V42I|EIF5_uc001ymt.2_Missense_Mutation_p.V42I|EIF5_uc001ymu.2_Missense_Mutation_p.V42I|SNORA28_uc001ymv.1_5'Flank	NM_001969	NP_001960	P55010	IF5_HUMAN	eukaryotic translation initiation factor 5	42					regulation of translational initiation|RNA metabolic process	cytosol	GTP binding|GTPase activity|translation initiation factor activity			pancreas(1)|breast(1)|skin(1)	3		Melanoma(154;0.155)	Epithelial(46;0.182)			CATGGTTGACGTTGCAAAGGC	0.413													26	162	---	---	---	---	PASS	A	103802424	A	A	103802424	3	1	36	1	0	0	0	0	1	0	0	0	5040	1145	40	1	130	1	EIF5	14	103802424	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	25907676	103802424	3547116	265	14427										
AHNAK2	113146	broad.mit.edu	37	chr14	105406083	105406083	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	acgtttgacccagaaacaagGaactctttgactttagctgc	8	10	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr14:105406083G>A	uc010axc.1	-	7	15825	c.15705C>T	c.(15703-15705)TTC>TTT	p.F5235F	AHNAK2_uc001ypx.2_Silent_p.F5135F	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5235						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)			CAGAAACAAGGAACTCTTTGA	0.542													149	676	---	---	---	---	PASS	A	105406083	A	A	105406083	2	1	36	1	0	0	0	0	0	0	0	1	415	1165	41	2		2	AHNAK2	14	105406083	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	1603659	105406083	1943457	266	14428										
RPUSD2	27079	broad.mit.edu	37	chr15	40861942	40861942	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cagaaaccagttattacttcGagggcggcctgcgtaaggtg	13	9	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr15:40861942G>C	uc001zmd.1	+	1	406	c.406G>C	c.(406-408)GAG>CAG	p.E136Q		NM_152260	NP_689473	Q8IZ73	RUSD2_HUMAN	RNA pseudouridylate synthase domain containing	136					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			skin(1)	1		all_cancers(109;2.74e-14)|all_epithelial(112;1.64e-11)|Lung NSC(122;6.69e-09)|all_lung(180;1.22e-07)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.1e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0786)		TTATTACTTCGAGGGCGGCCT	0.617													14	14	---	---	---	---	PASS	C	40861942	C	C	40861942	3	2	36	1	0	0	0	0	1	0	0	0	13667	1059	37	2	408	2	RPUSD2	15	40861942	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08		40861942	61669450	267	14429										
INO80	54617	broad.mit.edu	37	chr15	41279304	41279304	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	catacgtttcttctccaactCttcgtcgtctagaagaagac	6	12	4	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr15:41279304C>T	uc001zni.2	-	31	4030	c.3817G>A	c.(3817-3819)GAG>AAG	p.E1273K	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	1273	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						TTCTCCAACTCTTCGTCGTCT	0.463													30	62	---	---	---	---	PASS	T	41279304	T	T	41279304	3	4	36	1	0	0	0	0	1	0	0	0	7746	922	32	2	877	2	INO80	15	41279304	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	417362	41279304	61252088	268	14430										
ZFP106	64397	broad.mit.edu	37	chr15	42742495	42742495	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tggggaagtggatagctctcTagaagtcttcaggatgcggt	15	6	3	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr15:42742495T>A	uc001zpw.2	-	2	2241	c.1906A>T	c.(1906-1908)AGA>TGA	p.R636*	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Nonsense_Mutation_p.R419*|ZFP106_uc001zpy.1_Nonsense_Mutation_p.R659*	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	636						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GATAGCTCTCTAGAAGTCTTC	0.453													109	258	---	---	---	---	PASS	A	42742495	A	A	42742495	4	1	36	1	0	0	0	0	0	1	0	0	17634	1530	53	5	3817	5	ZFP106	15	42742495	Nonsense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	1463191	42742495	59788897	269	14431										
UBR1	197131	broad.mit.edu	37	chr15	43314927	43314927	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cttatgataaaagtcaaatgTtacttcttcttcaggagctt	6	7	4	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr15:43314927T>C	uc001zqq.2	-	26	2878	c.2812A>G	c.(2812-2814)ACA>GCA	p.T938A	UBR1_uc010udk.1_Missense_Mutation_p.T938A	NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	938					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)		AAGTCAAATGTTACTTCTTCT	0.333													20	47	---	---	---	---	PASS	C	43314927	C	C	43314927	3	2	36	1	0	0	0	0	1	0	0	0	16898	1725	60	5	2525	5	UBR1	15	43314927	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	572432	43314927	59216465	270	14432										
B2M	567	broad.mit.edu	37	chr15	45003747	45003747	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gacagcattcgggccgagatGtctcgctccgtggccttagc	13	13	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr15:45003747G>A	uc001zuc.2	+	1	63	c.3G>A	c.(1-3)ATG>ATA	p.M1I	B2M_uc010uek.1_Missense_Mutation_p.M1I|B2M_uc010bdx.1_Missense_Mutation_p.M1I	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor	1					antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding	p.M1V(2)		ovary(2)|skin(1)	3		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		GGGCCGAGATGTCTCGCTCCG	0.612													35	66	---	---	---	---	PASS	A	45003747	A	A	45003747	3	1	36	1	0	0	0	0	1	0	0	0	1244	1377	48	3	5	3	B2M	15	45003747	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1688820	45003747	57527645	271	14433										
ATP8B4	79895	broad.mit.edu	37	chr15	50264806	50264806	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tctcccattaatggaacatcTtttaaaggtcatgatgtttt	6	7	3	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr15:50264806T>A	uc001zxu.2	-	13	1358	c.1216A>T	c.(1216-1218)AGA>TGA	p.R406*	ATP8B4_uc010ber.2_Nonsense_Mutation_p.R279*|ATP8B4_uc010ufd.1_Nonsense_Mutation_p.R279*|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	406	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		ATGGAACATCTTTTAAAGGTC	0.388													21	62	---	---	---	---	PASS	A	50264806	A	A	50264806	4	1	36	1	0	0	0	0	0	1	0	0	1197	1617	56	5	2426	5	ATP8B4	15	50264806	Nonsense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	5261059	50264806	52266586	272	14434										
LRRC49	54839	broad.mit.edu	37	chr15	71211506	71211506	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	attcactaactgaacttaacTtgcgacacaatcaaatcact	3	11	3	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr15:71211506T>C	uc002asw.2	+	7	932	c.685T>C	c.(685-687)TTG>CTG	p.L229L	LRRC49_uc002asu.2_Silent_p.L219L|LRRC49_uc002asx.2_Silent_p.L185L|LRRC49_uc010ukf.1_Silent_p.L234L|LRRC49_uc002asy.2_5'UTR|LRRC49_uc002asz.2_Silent_p.L201L	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	229	LRR 6.					cytoplasm|microtubule				ovary(1)	1						TGAACTTAACTTGCGACACAA	0.328													50	144	---	---	---	---	PASS	C	71211506	C	C	71211506	2	2	36	1	0	0	0	0	0	0	0	1	9006	1606	56	5		5	LRRC49	15	71211506	Silent	SNP	T	TCGA-22-4595-01A-01D-1267-08	20946700	71211506	31319886	273	14435										
THSD4	79875	broad.mit.edu	37	chr15	71952965	71952965	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gctgtcaggttgtgtcgggcGtgtttaagcatgccctcacc	13	11	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr15:71952965G>C	uc002atb.1	+	7	1328	c.1249G>C	c.(1249-1251)GTG>CTG	p.V417L	THSD4_uc002atd.1_Missense_Mutation_p.V91L|THSD4_uc010ukg.1_Missense_Mutation_p.V57L|THSD4_uc002ate.2_Missense_Mutation_p.V57L	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	417						proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						TGTGTCGGGCGTGTTTAAGCA	0.552													51	156	---	---	---	---	PASS	C	71952965	C	C	71952965	3	2	36	1	0	0	0	0	1	0	0	0	15875	1145	40	4	1275	4	THSD4	15	71952965	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	741459	71952965	30578427	274	14436										
SYNM	23336	broad.mit.edu	37	chr15	99672069	99672069	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcgagcccgaccggagccagCcggtctgtgaggcatgtcac	15	14	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr15:99672069C>T	uc002bup.2	+	6	3624	c.3504C>T	c.(3502-3504)AGC>AGT	p.S1168S	SYNM_uc002buo.2_Intron|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	1168	Tail.|Interaction with TLN1 and VCL.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						CCGGAGCCAGCCGGTCTGTGA	0.612													3	44	---	---	---	---	PASS	T	99672069	T	T	99672069	2	4	36	1	0	0	0	0	0	0	0	1	15452	738	26	3		3	SYNM	15	99672069	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	27719104	99672069	2859323	275	14437										
CP110	9738	broad.mit.edu	37	chr16	19556465	19556465	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	catattctttgtaatggatgCagctgaaagaatgtctattc	8	6	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr16:19556465C>A	uc002dgl.3	+	10	2883	c.2636C>A	c.(2635-2637)GCA>GAA	p.A879E	CP110_uc002dgk.3_Missense_Mutation_p.A879E			O43303	CP110_HUMAN	RecName: Full=Centrosomal protein of 110 kDa;          Short=Cep110;	879					centriole replication|G2/M transition of mitotic cell cycle|regulation of cytokinesis	centriole|cytosol	protein binding				0						GTAATGGATGCAGCTGAAAGA	0.353													4	119	---	---	---	---	PASS	A	19556465	A	A	19556465	3	1	36	1	0	0	0	0	1	0	0	0	3788	710	25	3	2670	3	CP110	16	19556465	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08		19556465	70798288	276	14438										
ACSM2A	123876	broad.mit.edu	37	chr16	20471458	20471458	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgcattggctgcgaaaagttCagggactttgcaccctgtgg	13	9	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr16:20471458C>G	uc010bwe.2	+	3	261	c.22C>G	c.(22-24)CAG>GAG	p.Q8E	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Intron|ACSM2A_uc002dhf.3_Missense_Mutation_p.Q8E|ACSM2A_uc002dhg.3_Missense_Mutation_p.Q8E|ACSM2A_uc010vay.1_Intron	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	8					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						GCGAAAAGTTCAGGGACTTTG	0.498													11	36	---	---	---	---	PASS	G	20471458	G	G	20471458	3	3	36	1	0	0	0	0	1	0	0	0	183	827	29	2	24	2	ACSM2A	16	20471458	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	914993	20471458	69883295	277	14439										
DNAH3	55567	broad.mit.edu	37	chr16	21108759	21108759	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtactttgttcttcagcatgGcctgcagaagagggtaagta	12	7	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr16:21108759G>T	uc010vbe.1	-	18	2582	c.2582C>A	c.(2581-2583)GCC>GAC	p.A861D		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	861	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CTTCAGCATGGCCTGCAGAAG	0.463													65	161	---	---	---	---	PASS	T	21108759	T	T	21108759	3	4	36	1	0	0	0	0	1	0	0	0	4603	1203	42	3	9947	3	DNAH3	16	21108759	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	637301	21108759	69245994	278	14440										
RBL2	5934	broad.mit.edu	37	chr16	53504378	53504378	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cacaagctgtgacaggctccAtccagcccctcagtgctcag	9	16	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr16:53504378A>T	uc002ehi.3	+	16	2447	c.2329A>T	c.(2329-2331)ATC>TTC	p.I777F	RBL2_uc002ehj.2_Missense_Mutation_p.I487F|RBL2_uc010vgw.1_Intron	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	777	Spacer.|Pocket; binds E1A.				cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						GACAGGCTCCATCCAGCCCCT	0.512													18	27	---	---	---	---	PASS	T	53504378	T	T	53504378	3	4	36	1	0	0	0	0	1	0	0	0	13110	217	8	5	2391	5	RBL2	16	53504378	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	32395619	53504378	36850375	279	14441										
ZNF23	7571	broad.mit.edu	37	chr16	71482506	71482506	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cactcattacattcaaaaggTttctccccagtgtgaattct	5	11	4	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr16:71482506T>C	uc002faf.2	-	6	2236	c.1422A>G	c.(1420-1422)AAA>AAG	p.K474K	ZNF23_uc002fad.2_Silent_p.K416K|ZNF23_uc002fae.2_Silent_p.K416K|ZNF23_uc010vmf.1_Silent_p.K416K|ZNF23_uc002fag.2_Silent_p.K416K|ZNF23_uc002fah.2_Silent_p.K474K|ZNF23_uc002fai.2_Silent_p.K513K	NM_145911	NP_666016	P17027	ZNF23_HUMAN	zinc finger protein 23	474					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(137;0.00768)		BRCA - Breast invasive adenocarcinoma(221;0.0686)		ATTCAAAAGGTTTCTCCCCAG	0.433													26	82	---	---	---	---	PASS	C	71482506	C	C	71482506	2	2	36	1	0	0	0	0	0	0	0	1	17780	1722	60	5		5	ZNF23	16	71482506	Silent	SNP	T	TCGA-22-4595-01A-01D-1267-08	17978128	71482506	18872247	280	14442										
ZNF23	7571	broad.mit.edu	37	chr16	71482585	71482585	+	Missense_Mutation	SNP	T	A	A													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttccacactcattacactcaTagggcttctccccagtgtga							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr16:71482585T>A	uc002faf.2	-	6	2157	c.1343A>T	c.(1342-1344)TAT>TTT	p.Y448F	ZNF23_uc002fad.2_Missense_Mutation_p.Y390F|ZNF23_uc002fae.2_Missense_Mutation_p.Y390F|ZNF23_uc010vmf.1_Missense_Mutation_p.Y390F|ZNF23_uc002fag.2_Missense_Mutation_p.Y390F|ZNF23_uc002fah.2_Missense_Mutation_p.Y448F|ZNF23_uc002fai.2_Missense_Mutation_p.Y487F	NM_145911	NP_666016	P17027	ZNF23_HUMAN	zinc finger protein 23	448	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(137;0.00768)		BRCA - Breast invasive adenocarcinoma(221;0.0686)		ATTACACTCATAGGGCTTCTC	0.458													7	71	---	---	---	---	PASS	A	71482585	A	A	71482585	3	1	36	1	0	0	0	0	1	0	0	0	17780	1406	49	5	592	5	ZNF23	16	71482585	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	79	71482585	18872168	281	14443	368	2								
ZNF23	7571	broad.mit.edu	37	chr16	71482587	71482587	+	Silent	SNP	G	A	A													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccacactcattacactcataGggcttctccccagtgtgaat							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr16:71482587G>A	uc002faf.2	-	6	2155	c.1341C>T	c.(1339-1341)CCC>CCT	p.P447P	ZNF23_uc002fad.2_Silent_p.P389P|ZNF23_uc002fae.2_Silent_p.P389P|ZNF23_uc010vmf.1_Silent_p.P389P|ZNF23_uc002fag.2_Silent_p.P389P|ZNF23_uc002fah.2_Silent_p.P447P|ZNF23_uc002fai.2_Silent_p.P486P	NM_145911	NP_666016	P17027	ZNF23_HUMAN	zinc finger protein 23	447					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(137;0.00768)		BRCA - Breast invasive adenocarcinoma(221;0.0686)		TACACTCATAGGGCTTCTCCC	0.458													6	68	---	---	---	---	PASS	A	71482587	A	A	71482587	2	1	36	1	0	0	0	0	0	0	0	1	17780	987	35	3		3	ZNF23	16	71482587	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	2	71482587	18872166	282	14444	368	2								
MLKL	197259	broad.mit.edu	37	chr16	74712798	74712798	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccccgcaaggcacactcaccTtcacttggtagccttgagtt	8	15	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr16:74712798T>C	uc002fdb.2	-	7	1478	c.1037A>G	c.(1036-1038)AAG>AGG	p.K346R	MLKL_uc002fdc.2_Intron	NM_152649	NP_689862	Q8NB16	MLKL_HUMAN	mixed lineage kinase domain-like isoform 1	346	Protein kinase.						ATP binding|protein binding|protein kinase activity			stomach(2)	2						CACACTCACCTTCACTTGGTA	0.517													26	67	---	---	---	---	PASS	C	74712798	C	C	74712798	3	2	36	1	0	0	0	0	1	0	0	0	9619	1623	56	5	429	5	MLKL	16	74712798	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	3230211	74712798	15641955	283	14445										
CHST6	4166	broad.mit.edu	37	chr16	75512582	75512582	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tggatgatgcccaagtgaagCcgttcaggcctcgtggcagc	14	11	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr16:75512582C>T	uc002fef.2	-	3	1325	c.1145G>A	c.(1144-1146)GGC>GAC	p.G382D	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Missense_Mutation_p.G382D	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	382	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						CCAAGTGAAGCCGTTCAGGCC	0.642													43	78	---	---	---	---	PASS	T	75512582	T	T	75512582	3	4	36	1	0	0	0	0	1	0	0	0	3408	739	26	3	46	3	CHST6	16	75512582	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	799784	75512582	14842171	284	14446										
ABR	29	broad.mit.edu	37	chr17	915092	915092	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cctcccagactcactggcatCgaagacggccttgagcgcct	10	16	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:915092C>T	uc002fsd.2	-	19	2205	c.2095G>A	c.(2095-2097)GAT>AAT	p.D699N	ABR_uc002fse.2_Missense_Mutation_p.D653N|ABR_uc010vqf.1_Missense_Mutation_p.D150N|ABR_uc010vqg.1_Missense_Mutation_p.D481N|ABR_uc002fsg.2_Missense_Mutation_p.D662N|ABR_uc002fsh.1_Missense_Mutation_p.D307N|ABR_uc002fsf.2_Missense_Mutation_p.D236N	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	699	Rho-GAP.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		TCACTGGCATCGAAGACGGCC	0.642													33	88	---	---	---	---	PASS	T	915092	T	T	915092	3	4	36	1	0	0	0	0	1	0	0	0	99	884	31	2	504	2	ABR	17	915092	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08		915092	80280118	285	14447										
METT10D	79066	broad.mit.edu	37	chr17	2405605	2405605	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttgtatctatttcttgcatgCattgatttactcagagccat	6	8	3	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:2405605C>T	uc002fut.2	-	2	169	c.21G>A	c.(19-21)ATG>ATA	p.M7I	METT10D_uc002fuu.3_RNA|METT10D_uc010cka.2_Intron|METT10D_uc002fuv.2_Missense_Mutation_p.M7I|METT10D_uc010vqx.1_RNA|METT10D_uc010vqy.1_5'UTR	NM_024086	NP_076991	Q86W50	MET16_HUMAN	methyltransferase 10 domain containing	7							methyltransferase activity				0						TTCTTGCATGCATTGATTTAC	0.308													5	203	---	---	---	---	PASS	T	2405605	T	T	2405605	3	4	36	1	0	0	0	0	1	0	0	0	9490	710	25	3	1703	3	METT10D	17	2405605	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1490513	2405605	78789605	286	14448										
TP53	7157	broad.mit.edu	37	chr17	7577532	7577532	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtgtgatgatggtgaggatgGgcctccggttcatgccgccc	16	10	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:7577532G>A	uc002gim.2	-	7	943	c.749C>T	c.(748-750)CCC>CTC	p.P250L	TP53_uc002gig.1_Missense_Mutation_p.P250L|TP53_uc002gih.2_Missense_Mutation_p.P250L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.P118L|TP53_uc010cng.1_Missense_Mutation_p.P118L|TP53_uc002gii.1_Missense_Mutation_p.P118L|TP53_uc010cnh.1_Missense_Mutation_p.P250L|TP53_uc010cni.1_Missense_Mutation_p.P250L|TP53_uc002gij.2_Missense_Mutation_p.P250L|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.P157L|TP53_uc002gio.2_Missense_Mutation_p.P118L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	250	|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> L (in sporadic cancers; somatic mutation).|RP -> SA (in a sporadic cancer; somatic mutation).|P -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|RP -> SS (in sporadic cancers; somatic mutation).|P -> T (in sporadic cancers; somatic mutation).|P -> Q (in sporadic cancers; somatic mutation).|P -> A (in sporadic cancers; somatic mutation).|P -> S (in sporadic cancers; somatic mutation).|P -> N (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|P -> H (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P250L(37)|p.P250S(12)|p.0?(7)|p.P250P(4)|p.P250F(3)|p.P250N(2)|p.P250A(2)|p.M246_P250delMNRRP(2)|p.P250Q(2)|p.P250_L252delPIL(2)|p.P250H(1)|p.P250_I251insXXXXXX(1)|p.N247_P250delNRRP(1)|p.P250T(1)|p.P250_T253delPILT(1)|p.R249_P250insR(1)|p.R249_I251delRPI(1)|p.R248_P250delRRP(1)|p.P250_I251insXXXXXXX(1)|p.R249_T256delRPILTIIT(1)|p.I251fs*94(1)|p.R249_P250>SS(1)|p.R249_P250delRP(1)|p.P250_I251insX(1)|p.P250fs*14(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)		GGTGAGGATGGGCCTCCGGTT	0.577		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)			38	81	---	---	---	---	PASS	A	7577532	A	A	7577532	3	1	36	1	0	0	0	0	1	0	0	0	16378	1232	43	3	541	3	TP53	17	7577532	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	5171927	7577532	73617678	287	14449										
DNAH9	1770	broad.mit.edu	37	chr17	11784586	11784586	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aagttccggctcatcctccaCaccaagctggctaatcctca	6	16	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:11784586C>A	uc002gne.2	+	55	10730	c.10662C>A	c.(10660-10662)CAC>CAA	p.H3554Q	DNAH9_uc010coo.2_Missense_Mutation_p.H2848Q|DNAH9_uc002gnf.2_5'Flank	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3554	AAA 5 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TCATCCTCCACACCAAGCTGG	0.512													36	139	---	---	---	---	PASS	A	11784586	A	A	11784586	3	1	36	1	0	0	0	0	1	0	0	0	4608	477	17	3	10880	3	DNAH9	17	11784586	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	4207054	11784586	69410624	288	14450										
TEKT3	64518	broad.mit.edu	37	chr17	15234796	15234796	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcaaattggagtggggaaagCggtccctgtagcttgaggcc	15	8	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:15234796C>A	uc002gon.2	-	3	294	c.107G>T	c.(106-108)CGC>CTC	p.R36L		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	36					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		GTGGGGAAAGCGGTCCCTGTA	0.537													38	80	---	---	---	---	PASS	A	15234796	A	A	15234796	3	1	36	1	0	0	0	0	1	0	0	0	15751	768	27	1	1393	1	TEKT3	17	15234796	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	3450210	15234796	65960414	289	14451										
NCOR1	9611	broad.mit.edu	37	chr17	16068452	16068452	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	attggagaggatggagcttcAtgtttgcctccgaatgctgg	14	7	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:16068452A>G	uc002gpo.2	-	5	699	c.459T>C	c.(457-459)CAT>CAC	p.H153H	NCOR1_uc002gpn.2_Silent_p.H153H|NCOR1_uc002gpp.1_Silent_p.H44H|NCOR1_uc002gpr.2_Silent_p.H44H|NCOR1_uc002gps.1_Silent_p.H153H|NCOR1_uc010coz.1_5'UTR|NCOR1_uc010cpb.1_Silent_p.H153H|NCOR1_uc010cpa.1_Silent_p.H153H|NCOR1_uc002gpu.2_Silent_p.H153H	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	153	Interaction with ZBTB33 and HEXIM1.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		ATGGAGCTTCATGTTTGCCTC	0.383													16	257	---	---	---	---	PASS	G	16068452	G	G	16068452	2	3	36	1	0	0	0	0	0	0	0	1	10235	214	8	5		5	NCOR1	17	16068452	Silent	SNP	A	TCGA-22-4595-01A-01D-1267-08	833656	16068452	65126758	290	14452										
CORO6	84940	broad.mit.edu	37	chr17	27944542	27944542	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcccacaggcccagctctcgCtggctcatgcgggtgaagcc	12	16	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:27944542C>G	uc002hel.2	-	5	731	c.729G>C	c.(727-729)CAG>CAC	p.Q243H	CORO6_uc002hem.2_Intron|CORO6_uc002hen.2_5'UTR	NM_032854	NP_116243	Q6QEF8	CORO6_HUMAN	coronin 6	243	WD 4.				actin cytoskeleton organization	actin cytoskeleton	actin filament binding				0						CCAGCTCTCGCTGGCTCATGC	0.697													16	32	---	---	---	---	PASS	G	27944542	G	G	27944542	3	3	36	1	0	0	0	0	1	0	0	0	3758	796	28	4	713	4	CORO6	17	27944542	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	11876090	27944542	53250668	291	14453										
TMEM132E	124842	broad.mit.edu	37	chr17	32955625	32955625	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cccttttaggtaccaagtcaCggagtggccagtggcatgtg	13	10	1	0	rs79883914		TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:32955625C>G	uc002hif.2	+	4	1100	c.772C>G	c.(772-774)CGG>GGG	p.R258G		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	258	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		TACCAAGTCACGGAGTGGCCA	0.612													13	28	---	---	---	---	PASS	G	32955625	G	G	32955625	3	3	36	1	0	0	0	0	1	0	0	0	16045	527	19	4	786	4	TMEM132E	17	32955625	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	5011083	32955625	48239585	292	14454										
EZH1	2145	broad.mit.edu	37	chr17	40861923	40861923	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcatctgttggcagcttcagGataagtgattctttgactgc	10	8	4	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:40861923G>T	uc002iaz.2	-	13	1579	c.1434C>A	c.(1432-1434)ATC>ATA	p.I478I	EZH1_uc002iba.2_Silent_p.I469I|EZH1_uc010wgt.1_Silent_p.I408I|EZH1_uc010wgu.1_Silent_p.I484I|EZH1_uc010wgv.1_Silent_p.I438I|EZH1_uc010wgw.1_Silent_p.I339I|EZH1_uc010cyp.2_Silent_p.I379I|EZH1_uc010cyq.2_Silent_p.I395I|EZH1_uc010cyo.1_Silent_p.I141I|EZH1_uc010cyr.1_Silent_p.I130I	NM_001991	NP_001982	Q92800	EZH1_HUMAN	enhancer of zeste homolog 1	478					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	chromatin binding|DNA binding			ovary(3)	3		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0784)		GCAGCTTCAGGATAAGTGATT	0.498													55	144	---	---	---	---	PASS	T	40861923	T	T	40861923	2	4	36	1	0	0	0	0	0	0	0	1	5333	1164	41	2		2	EZH1	17	40861923	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	7906298	40861923	40333287	293	14455										
ACSF2	80221	broad.mit.edu	37	chr17	48551024	48551024	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgcccctgggctttccttacAgagatgtcgccacaatgaat	9	12	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:48551024A>T	uc002iqu.2	+	13	1580	c.1476_splice	c.e13-2	p.G492_splice	ACSF2_uc010wml.1_Splice_Site_p.G449_splice|ACSF2_uc010wmm.1_Splice_Site_p.G517_splice|ACSF2_uc010wmn.1_Splice_Site_p.G479_splice|ACSF2_uc010wmo.1_Splice_Site_p.G332_splice|ACSF2_uc010dbt.1_Splice_Site	NM_025149	NP_079425	Q96CM8	ACSF2_HUMAN	acyl-CoA synthetase family member 2 precursor						fatty acid metabolic process	mitochondrion	ATP binding|ligase activity				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			CTTTCCTTACAGAGATGTCGC	0.423													136	153	---	---	---	---	PASS	T	48551024	T	T	48551024	5	4	36	1	0	0	0	0	0	0	1	0	175	202	7	5	1524	5	ACSF2	17	48551024	Splice_Site	SNP	A	TCGA-22-4595-01A-01D-1267-08	7689101	48551024	32644186	294	14456										
KIF2B	84643	broad.mit.edu	37	chr17	51902235	51902236	+	Frame_Shift_Ins	INS	-	G	G													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gataccacaatttcagggaaINSgggatctagccaatggctgg							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:51902235_51902236insG	uc002iua.2	+	1	1997_1998	c.1841_1842insG	c.(1840-1842)AAGfs	p.K614fs	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	614					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						ATTTCAGGGAAGGGATCTAGCC	0.426													216	102	---	---	---	---		G	51902236	G	G	51902235	7	5	36	1	0	1	1	0	0	0	0	0	8298	72	3	0	1843	0	KIF2B	17	51902235	Frame_Shift_Ins	INS	-	TCGA-22-4595-01A-01D-1267-08	3351211	51902235	29292975	295	14457										
DGKE	8526	broad.mit.edu	37	chr17	54921412	54921412	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccagaaaacagtacatgatgAgtgcatgaaaaatagtttaa	8	5	0	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:54921412A>T	uc002iur.2	+	3	677	c.497A>T	c.(496-498)GAG>GTG	p.E166V	DGKE_uc002ius.1_Missense_Mutation_p.E166V	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	166	Phorbol-ester/DAG-type 2.				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)					GTACATGATGAGTGCATGAAA	0.323													18	83	---	---	---	---	PASS	T	54921412	T	T	54921412	3	4	36	1	0	0	0	0	1	0	0	0	4468	304	11	5	503	5	DGKE	17	54921412	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	3019177	54921412	26273798	296	14458										
BCAS3	54828	broad.mit.edu	37	chr17	58945988	58945988	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tattcacttcgtactggggaGatggtcaagtccattcaatt	9	8	3	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:58945988G>C	uc002iyv.3	+	8	637	c.528G>C	c.(526-528)GAG>GAC	p.E176D	BCAS3_uc010wow.1_Intron|BCAS3_uc002iyu.3_Missense_Mutation_p.E176D|BCAS3_uc002iyw.3_Missense_Mutation_p.E172D	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	176						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)			GTACTGGGGAGATGGTCAAGT	0.333													82	75	---	---	---	---	PASS	C	58945988	C	C	58945988	3	2	36	1	0	0	0	0	1	0	0	0	1352	933	33	2	554	2	BCAS3	17	58945988	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	4024576	58945988	22249222	297	14459										
SCN4A	6329	broad.mit.edu	37	chr17	62042025	62042025	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gatcatgtaggtcttgccagCtgctcgaagggtctgggagt	15	8	3	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:62042025C>T	uc002jds.1	-	9	1332	c.1255G>A	c.(1255-1257)GCT>ACT	p.A419T		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	419	I.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GTCTTGCCAGCTGCTCGAAGG	0.567													9	41	---	---	---	---	PASS	T	62042025	T	T	62042025	3	4	36	1	0	0	0	0	1	0	0	0	13920	797	28	3	4319	3	SCN4A	17	62042025	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	3096037	62042025	19153185	298	14460										
RHBDF2	79651	broad.mit.edu	37	chr17	74475058	74475058	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtccatctcctccgggtggcGgaaggcccggccccgggcca	15	17	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:74475058G>A	uc002jrq.1	-	6	882	c.589C>T	c.(589-591)CGC>TGC	p.R197C	RHBDF2_uc002jrp.1_Missense_Mutation_p.R168C|RHBDF2_uc002jrr.1_Missense_Mutation_p.R49C|RHBDF2_uc010wtf.1_Missense_Mutation_p.R168C|RHBDF2_uc002jrs.1_Missense_Mutation_p.R192C	NM_024599	NP_078875	Q6PJF5	RHDF2_HUMAN	rhomboid, veinlet-like 6 isoform 1	197	Cytoplasmic (Potential).				negative regulation of protein secretion|protein transport|proteolysis	endoplasmic reticulum membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity				0						TCCGGGTGGCGGAAGGCCCGG	0.682													24	42	---	---	---	---	PASS	A	74475058	A	A	74475058	3	1	36	1	0	0	0	0	1	0	0	0	13320	1116	39	1	2037	1	RHBDF2	17	74475058	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	12433033	74475058	6720152	299	14461										
MXRA7	439921	broad.mit.edu	37	chr17	74681218	74681218	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctggtttcccctcagcttccCggggctgtatttgaaggaga	12	11	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:74681218C>A	uc002jsk.1	-	3	464	c.436G>T	c.(436-438)GGG>TGG	p.G146W	MXRA7_uc002jsl.2_Missense_Mutation_p.G146W|MXRA7_uc002jsm.2_Missense_Mutation_p.G146W	NM_001008528	NP_001008528	P84157	MXRA7_HUMAN	transmembrane anchor protein 1 isoform 1	146						integral to membrane					0						CTCAGCTTCCCGGGGCTGTAT	0.617													7	678	---	---	---	---	PASS	A	74681218	A	A	74681218	3	1	36	1	0	0	0	0	1	0	0	0	10004	652	23	1	241	1	MXRA7	17	74681218	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	206160	74681218	6513992	300	14462										
BAIAP2	10458	broad.mit.edu	37	chr17	79082295	79082295	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggcctggatgactatggagcGcggtccatgagcaggtaagg	17	8	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr17:79082295G>A	uc002jzg.2	+	13	1629	c.1521G>A	c.(1519-1521)GCG>GCA	p.A507A	BAIAP2_uc002jyz.3_Silent_p.A507A|BAIAP2_uc002jza.2_Silent_p.A507A|BAIAP2_uc002jzc.2_Silent_p.A508A|BAIAP2_uc002jzb.2_Silent_p.A264A|BAIAP2_uc002jzd.2_Silent_p.A507A|BAIAP2_uc002jzf.2_Silent_p.A507A|BAIAP2_uc002jze.2_Silent_p.A540A|BAIAP2_uc010wuh.1_Silent_p.A429A|BAIAP2_uc002jzh.2_Silent_p.A508A|BAIAP2_uc010wui.1_Silent_p.A370A	NM_017451	NP_059345	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2 isoform 2	507					axonogenesis|filopodium assembly|insulin receptor signaling pathway|regulation of actin cytoskeleton organization|response to bacterium	cell junction|cytoskeleton|cytosol|filopodium|nucleus|ruffle	cytoskeletal adaptor activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding				0	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			ACTATGGAGCGCGGTCCATGA	0.652													23	145	---	---	---	---	PASS	A	79082295	A	A	79082295	2	1	36	1	0	0	0	0	0	0	0	1	1301	1074	38	1		1	BAIAP2	17	79082295	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	4401077	79082295	2112915	301	14463										
NDC80	10403	broad.mit.edu	37	chr18	2585114	2585114	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgcttgtgtactaattagatAcatactgccatgaaagaaag	8	6	0	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr18:2585114A>T	uc002kli.2	+	7	764	c.582A>T	c.(580-582)ATA>ATT	p.I194I		NM_006101	NP_006092	O14777	NDC80_HUMAN	kinetochore associated 2	194	Interaction with the N-terminus of CDCA1.|Nuclear localization.|Interaction with RB1.				attachment of spindle microtubules to kinetochore|cell division|establishment of mitotic spindle orientation|mitotic prometaphase|mitotic sister chromatid segregation|mitotic spindle organization|phosphatidylinositol-mediated signaling	condensed nuclear chromosome outer kinetochore|cytosol|Ndc80 complex	protein binding			ovary(1)	1						CTAATTAGATACATACTGCCA	0.338													46	119	---	---	---	---	PASS	T	2585114	T	T	2585114	2	4	36	1	0	0	0	0	0	0	0	1	10242	381	14	5		5	NDC80	18	2585114	Silent	SNP	A	TCGA-22-4595-01A-01D-1267-08		2585114	75492134	302	14464										
DSG1	1828	broad.mit.edu	37	chr18	28913574	28913574	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	atacggccagtatgctcttgCtgtaagaggctctgaccgag	12	10	2	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr18:28913574C>A	uc002kwp.2	+	7	919	c.707C>A	c.(706-708)GCT>GAT	p.A236D		NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	236	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			TATGCTCTTGCTGTAAGAGGC	0.413													19	102	---	---	---	---	PASS	A	28913574	A	A	28913574	3	1	36	1	0	0	0	0	1	0	0	0	4776	797	28	3	733	3	DSG1	18	28913574	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	26328460	28913574	49163674	303	14465										
ZNF397	84307	broad.mit.edu	37	chr18	32825471	32825474	+	Frame_Shift_Del	DEL	CTAA	-	-													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aggctgaaagatgcttgattCtaactacagactctataatg							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr18:32825471_32825474delCTAA	uc010dmp.2	+	4	958_961	c.802_805delCTAA	c.(802-807)CTAACTfs	p.L268fs	ZNF397_uc010dmq.2_Intron|ZNF397_uc010dmr.2_Intron|ZNF397_uc002kyj.2_Intron	NM_001135178	NP_001128650	Q8NF99	ZN397_HUMAN	zinc finger protein 397 isoform 1	268_269					viral reproduction	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ATGCTTGATTCTAACTACAGACTC	0.417													3	3	---	---	---	---		-	32825474	-	-	32825471	7	5	36	1	0	1	0	1	0	0	0	0	17880	912	32	0	812	0	ZNF397	18	32825471	Frame_Shift_Del	DEL	CTAA	TCGA-22-4595-01A-01D-1267-08	3911897	32825471	45251777	304	14466										
ELANE	1991	broad.mit.edu	37	chr19	855689	855689	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cttctgggcaggaaccgtggGatcgccagcgtcctgcagga	15	12	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:855689G>A	uc002lqb.2	+	4	530	c.492G>A	c.(490-492)GGG>GGA	p.G164G		NM_001972	NP_001963	P08246	ELNE_HUMAN	neutrophil elastase preproprotein	164	Peptidase S1.				cellular calcium ion homeostasis|negative regulation of chemokine biosynthetic process|negative regulation of chemotaxis|negative regulation of inflammatory response|negative regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of MAP kinase activity|positive regulation of smooth muscle cell proliferation|protein catabolic process|proteolysis|response to UV	cell surface|extracellular region|stored secretory granule	bacterial cell surface binding|cytokine binding|heparin binding			pancreas(1)	1					Alpha-1-proteinase inhibitor(DB00058)|Filgrastim(DB00099)|Pegfilgrastim(DB00019)	GGAACCGTGGGATCGCCAGCG	0.706									Kostmann_syndrome				42	138	---	---	---	---	PASS	A	855689	A	A	855689	2	1	36	1	0	0	0	0	0	0	0	1	5048	1161	41	2		2	ELANE	19	855689	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08		855689	58273294	305	14467										
ATP8B3	148229	broad.mit.edu	37	chr19	1791762	1791762	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gactcaccctgcttgtccccGgtgagcacccatattttgat	8	14	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:1791762G>T	uc002ltw.2	-	20	2523	c.2289C>A	c.(2287-2289)ACC>ACA	p.T763T	ATP8B3_uc002ltv.2_Silent_p.T726T|ATP8B3_uc002ltx.2_RNA	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	763	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTTGTCCCCGGTGAGCACCC	0.512													3	47	---	---	---	---	PASS	T	1791762	T	T	1791762	2	4	36	1	0	0	0	0	0	0	0	1	1196	1103	39	1		1	ATP8B3	19	1791762	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	936073	1791762	57337221	306	14468										
MATK	4145	broad.mit.edu	37	chr19	3778537	3778537	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tacggagcccgtccatatgaGaagacctcccagagcagcac	10	14	0	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:3778537G>C	uc002lyt.2	-	13	1654	c.1254C>G	c.(1252-1254)TTC>TTG	p.F418L	MATK_uc002lyv.2_Missense_Mutation_p.F419L|MATK_uc002lyu.2_Missense_Mutation_p.F377L|MATK_uc010dtq.2_Missense_Mutation_p.F417L	NM_139355	NP_647612	P42679	MATK_HUMAN	megakaryocyte-associated tyrosine kinase isoform	418	Protein kinase.				cell proliferation|mesoderm development|positive regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(2)|ovary(1)|lung(1)|large_intestine(1)	5		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		GTCCATATGAGAAGACCTCCC	0.632													12	39	---	---	---	---	PASS	C	3778537	C	C	3778537	3	2	36	1	0	0	0	0	1	0	0	0	9332	933	33	2	277	2	MATK	19	3778537	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1986775	3778537	55350446	307	14469										
FEM1A	55527	broad.mit.edu	37	chr19	4793666	4793666	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccggccatcatgaatgccctGatcgaagcaggggcccacat	11	14	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:4793666G>C	uc002mbf.2	+	1	1939	c.1800G>C	c.(1798-1800)CTG>CTC	p.L600L	uc002mbg.1_RNA	NM_018708	NP_061178	Q9BSK4	FEM1A_HUMAN	fem-1 homolog a	600	ANK 9.				regulation of ubiquitin-protein ligase activity	cytoplasm	binding|ubiquitin-protein ligase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		TGAATGCCCTGATCGAAGCAG	0.612													26	80	---	---	---	---	PASS	C	4793666	C	C	4793666	2	2	36	1	0	0	0	0	0	0	0	1	5809	1277	45	2		2	FEM1A	19	4793666	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	1015129	4793666	54335317	308	14470										
TMEM146	257062	broad.mit.edu	37	chr19	5778597	5778597	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgtaggagatgcaagacggtCtgccagttcagggcctcagc	14	10	3	2	rs2305926	by1000genomes	TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:5778597C>T	uc002mda.2	+	22	2368	c.2307C>T	c.(2305-2307)GTC>GTT	p.V769V		NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	769	Cytoplasmic (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						GCAAGACGGTCTGCCAGTTCA	0.652													53	137	---	---	---	---	PASS	T	5778597	T	T	5778597	2	4	36	1	0	0	0	0	0	0	0	1	16057	900	32	2		2	TMEM146	19	5778597	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	984931	5778597	53350386	309	14471										
TUBB4	10382	broad.mit.edu	37	chr19	6495267	6495267	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctcagataccaggtcattcaTgttgctctcggcctcggtga	10	12	4	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:6495267T>A	uc002mfg.1	-	4	1350	c.1243A>T	c.(1243-1245)ATG>TTG	p.M415L	TUBB4_uc002mff.1_Missense_Mutation_p.M343L|MIR220B_hsa-mir-220b|MI0005529_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	415					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		AGGTCATTCATGTTGCTCTCG	0.632													92	356	---	---	---	---	PASS	A	6495267	A	A	6495267	3	1	36	1	0	0	0	0	1	0	0	0	16755	1464	51	5	95	5	TUBB4	19	6495267	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	716670	6495267	52633716	310	14472										
LDLR	3949	broad.mit.edu	37	chr19	11223989	11223989	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcttcttcaccaaccggcacGaggtcaggaagatgacgctg	11	12	4	2	rs137943601		TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:11223989G>A	uc002mqk.3	+	9	1390	c.1222G>A	c.(1222-1224)GAG>AAG	p.E408K	LDLR_uc010xlk.1_Missense_Mutation_p.E408K|LDLR_uc010xll.1_Missense_Mutation_p.E367K|LDLR_uc010xlm.1_Missense_Mutation_p.E261K|LDLR_uc010xln.1_Missense_Mutation_p.E281K|LDLR_uc010xlo.1_Missense_Mutation_p.E240K	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	408	LDL-receptor class B 1.|Extracellular (Potential).		E -> K (may contribute to familial hypercholesterolemia; Algeria-1).		cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		Lung NSC(9;0.000245)|Renal(1328;0.0007)|Hepatocellular(1079;0.0524)		GBM - Glioblastoma multiforme(1328;1.36e-05)|STAD - Stomach adenocarcinoma(1328;0.000766)|Lung(535;0.197)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	CAACCGGCACGAGGTCAGGAA	0.627													28	73	---	---	---	---	PASS	A	11223989	A	A	11223989	3	1	36	1	0	0	0	0	1	0	0	0	8704	1059	37	2	1256	2	LDLR	19	11223989	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	4728722	11223989	47904994	311	14473										
CACNA1A	773	broad.mit.edu	37	chr19	13325317	13325317	+	Missense_Mutation	SNP	T	A	A													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gctgggctcagctcttacacTtgtgaggtgtgaccagcagg							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:13325317T>A	uc010dze.2	-	39	6076	c.5840A>T	c.(5839-5841)AAG>ATG	p.K1947M	CACNA1A_uc010xnd.1_Missense_Mutation_p.K652M|CACNA1A_uc002mwx.3_Missense_Mutation_p.K652M|CACNA1A_uc010dzc.2_Missense_Mutation_p.K1472M|CACNA1A_uc002mwy.3_Missense_Mutation_p.K1946M|CACNA1A_uc002mwv.3_Missense_Mutation_p.K463M	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1947	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	GCTCTTACACTTGTGAGGTGT	0.592													21	55	---	---	---	---	PASS	A	13325317	A	A	13325317	3	1	36	1	0	0	0	0	1	0	0	0	2538	1609	56	5	1719	5	CACNA1A	19	13325317	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	2101328	13325317	45803666	312	14474	369	2								
CACNA1A	773	broad.mit.edu	37	chr19	13325326	13325326	+	Missense_Mutation	SNP	G	A	A													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agctcttacacttgtgaggtGtgaccagcaggtctagcgtc							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:13325326G>A	uc010dze.2	-	39	6067	c.5831C>T	c.(5830-5832)ACA>ATA	p.T1944I	CACNA1A_uc010xnd.1_Missense_Mutation_p.T649I|CACNA1A_uc002mwx.3_Missense_Mutation_p.T649I|CACNA1A_uc010dzc.2_Missense_Mutation_p.T1469I|CACNA1A_uc002mwy.3_Missense_Mutation_p.T1943I|CACNA1A_uc002mwv.3_Missense_Mutation_p.T460I	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1944	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	CTTGTGAGGTGTGACCAGCAG	0.602													19	55	---	---	---	---	PASS	A	13325326	A	A	13325326	3	1	36	1	0	0	0	0	1	0	0	0	2538	1377	48	3	1728	3	CACNA1A	19	13325326	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	9	13325326	45803657	313	14475	369	2								
CYP4F2	8529	broad.mit.edu	37	chr19	16008362	16008362	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gccccgaccagcaggaggagCagccaaggggatgctgccac	15	14	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:16008362C>A	uc002nbs.1	-	2	110	c.60G>T	c.(58-60)CTG>CTT	p.L20L	CYP4F2_uc010xot.1_Intron|CYP4F2_uc010xou.1_5'UTR	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	20					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						GCAGGAGGAGCAGCCAAGGGG	0.662													12	35	---	---	---	---	PASS	A	16008362	A	A	16008362	2	1	36	1	0	0	0	0	0	0	0	1	4188	697	25	3		3	CYP4F2	19	16008362	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	2683036	16008362	43120621	314	14476										
ANO8	57719	broad.mit.edu	37	chr19	17436171	17436171	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcgctgctgctgctggtagcGatgctgggcctggcgctcgt	17	12	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:17436171G>A	uc002ngf.2	-	17	2845	c.2686C>T	c.(2686-2688)CGC>TGC	p.R896C	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	896	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						TGCTGGTAGCGATGCTGGGCC	0.647													13	24	---	---	---	---	PASS	A	17436171	A	A	17436171	3	1	36	1	0	0	0	0	1	0	0	0	703	1058	37	2	1020	2	ANO8	19	17436171	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1427809	17436171	41692812	315	14477										
MAP1S	55201	broad.mit.edu	37	chr19	17838969	17838969	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	caacccccaagactgccactCgaggcccgtcgggtgagtac	11	16	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:17838969C>G	uc002nhe.1	+	5	2785	c.2776C>G	c.(2776-2778)CGA>GGA	p.R926G	MAP1S_uc010eba.1_Intron|MAP1S_uc002nhf.1_Missense_Mutation_p.R174G|MAP1S_uc010xpv.1_Missense_Mutation_p.R900G	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	926	Necessary for interaction with RASSF1 isoform A and isoform C.|Necessary for association with microtubules.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						GACTGCCACTCGAGGCCCGTC	0.612													9	33	---	---	---	---	PASS	G	17838969	G	G	17838969	3	3	36	1	0	0	0	0	1	0	0	0	9234	876	31	2	2794	2	MAP1S	19	17838969	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	402798	17838969	41290014	316	14478										
SFRS14	10147	broad.mit.edu	37	chr19	19136416	19136416	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttttttgtgctcacatttctCaatgtgacaagtttcccaac	5	10	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:19136416C>A	uc002nkx.2	-	3	887	c.741G>T	c.(739-741)TTG>TTT	p.L247F	SFRS14_uc002nkz.1_Missense_Mutation_p.L261F|SFRS14_uc002nla.1_Missense_Mutation_p.L247F|SFRS14_uc002nlb.2_Missense_Mutation_p.L247F|SFRS14_uc010xqk.1_Intron	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	247					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			TCACATTTCTCAATGTGACAA	0.478													5	387	---	---	---	---	PASS	A	19136416	A	A	19136416	3	1	36	1	0	0	0	0	1	0	0	0	14170	825	29	2	2539	2	SFRS14	19	19136416	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1297447	19136416	39992567	317	14479										
ATP13A1	57130	broad.mit.edu	37	chr19	19762502	19762502	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	caggctagggcctcacctttCtcggagggaggctgcaggat	15	11	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:19762502C>G	uc002nnh.3	-	17	2359	c.2331G>C	c.(2329-2331)GAG>GAC	p.E777D	ATP13A1_uc002nne.2_5'UTR|ATP13A1_uc002nnf.3_Missense_Mutation_p.E145D|ATP13A1_uc002nng.2_Missense_Mutation_p.E659D	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	777	Cytoplasmic (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(3)|large_intestine(2)|central_nervous_system(1)	6						CCTCACCTTTCTCGGAGGGAG	0.617													10	60	---	---	---	---	PASS	G	19762502	G	G	19762502	3	3	36	1	0	0	0	0	1	0	0	0	1123	912	32	2	1323	2	ATP13A1	19	19762502	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	626086	19762502	39366481	318	14480										
KIRREL2	84063	broad.mit.edu	37	chr19	36352134	36352134	+	Silent	SNP	G	T	T													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggcctgcggggcggcgccgcGgaggctcggctgactgtgaa							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:36352134G>T	uc002ocb.3	+	9	1379	c.1167G>T	c.(1165-1167)GCG>GCT	p.A389A	KIRREL2_uc002obz.3_Silent_p.A389A|KIRREL2_uc002oca.3_Silent_p.A339A|KIRREL2_uc002occ.3_Silent_p.A336A|KIRREL2_uc002ocd.3_Silent_p.A386A	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	389	Extracellular (Potential).|Ig-like C2-type 4.			A -> V (in Ref. 1; AAP72167).	cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GCGGCGCCGCGGAGGCTCGGC	0.692													7	16	---	---	---	---	PASS	T	36352134	T	T	36352134	2	4	36	1	0	0	0	0	0	0	0	1	8325	1103	39	1		1	KIRREL2	19	36352134	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	16589632	36352134	22776849	319	14481	370	2								
KIRREL2	84063	broad.mit.edu	37	chr19	36352135	36352135	+	Missense_Mutation	SNP	G	A	A													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcctgcggggcggcgccgcgGaggctcggctgactgtgaac							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:36352135G>A	uc002ocb.3	+	9	1380	c.1168G>A	c.(1168-1170)GAG>AAG	p.E390K	KIRREL2_uc002obz.3_Missense_Mutation_p.E390K|KIRREL2_uc002oca.3_Missense_Mutation_p.E340K|KIRREL2_uc002occ.3_Missense_Mutation_p.E337K|KIRREL2_uc002ocd.3_Missense_Mutation_p.E387K	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	390	Extracellular (Potential).|Ig-like C2-type 4.				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CGGCGCCGCGGAGGCTCGGCT	0.687													8	16	---	---	---	---	PASS	A	36352135	A	A	36352135	3	1	36	1	0	0	0	0	1	0	0	0	8325	1175	41	2	1202	2	KIRREL2	19	36352135	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1	36352135	22776848	320	14482	370	2								
SIPA1L3	23094	broad.mit.edu	37	chr19	38610161	38610161	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cgaaaactgtgtctccaacaCccccatcgactccaccggca	6	18	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:38610161C>A	uc002ohk.2	+	9	3016	c.2507C>A	c.(2506-2508)ACC>AAC	p.T836N		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	836					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GTCTCCAACACCCCCATCGAC	0.582													19	77	---	---	---	---	PASS	A	38610161	A	A	38610161	3	1	36	1	0	0	0	0	1	0	0	0	14331	507	18	3	2533	3	SIPA1L3	19	38610161	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	2258026	38610161	20518822	321	14483										
GSK3A	2931	broad.mit.edu	37	chr19	42738600	42738600	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cattgggctcccctcggaccAactgctttgcactgtgggaa	11	13	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:42738600A>C	uc002otb.1	-	6	928	c.809T>G	c.(808-810)TTG>TGG	p.L270W	GSK3A_uc002ota.1_Missense_Mutation_p.L188W|GSK3A_uc002otc.2_RNA	NM_019884	NP_063937	P49840	GSK3A_HUMAN	glycogen synthase kinase 3 alpha	270	Protein kinase.				insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of insulin receptor signaling pathway|negative regulation of transferase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein catabolic process	beta-catenin destruction complex|cytosol	ATP binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|tau-protein kinase activity			ovary(2)|lung(2)	4		Prostate(69;0.00682)				CCCTCGGACCAACTGCTTTGC	0.602													58	136	---	---	---	---	PASS	C	42738600	C	C	42738600	3	2	36	1	0	0	0	0	1	0	0	0	6823	131	5	5	666	5	GSK3A	19	42738600	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	4128439	42738600	16390383	322	14484										
PSG5	5673	broad.mit.edu	37	chr19	43690529	43690529	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccttccaggtgatgtgctgtGtgcagggaggggctgagagg	19	7	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:43690529G>T	uc002ovu.2	-	1	160	c.29C>A	c.(28-30)ACA>AAA	p.T10K	PSG6_uc010xwk.1_Intron|PSG5_uc010eir.2_5'Flank|PSG5_uc002ovx.2_Missense_Mutation_p.T10K|PSG5_uc002ovv.2_Missense_Mutation_p.T10K|PSG5_uc002ovw.2_Missense_Mutation_p.T10K	NM_002781	NP_002772	Q15238	PSG5_HUMAN	pregnancy specific beta-1-glycoprotein 5	10					female pregnancy	extracellular region				skin(3)	3		Prostate(69;0.00899)				GATGTGCTGTGTGCAGGGAGG	0.597													83	237	---	---	---	---	PASS	T	43690529	T	T	43690529	3	4	36	1	0	0	0	0	1	0	0	0	12658	1377	48	3	998	3	PSG5	19	43690529	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	951929	43690529	15438454	323	14485										
TRAPPC6A	79090	broad.mit.edu	37	chr19	45667444	45667444	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgggtgcttcctccagatacTgcaggccagaggccatcggg	14	12	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:45667444T>A	uc002paw.2	-	4	351	c.332A>T	c.(331-333)CAG>CTG	p.Q111L	TRAPPC6A_uc002pav.2_Missense_Mutation_p.Q125L			O75865	TPC6A_HUMAN	SubName: Full=TRAPPC6Adelta29-42; SubName: Full=Trafficking protein particle complex 6A, isoform CRA_a;	111				SFPLLLPMASGLQYLEEAPKFLAFT -> KLSPPPPDGLWP AVSGGSTQVPGLH (in Ref. 1; AAF28967).	vesicle-mediated transport	endoplasmic reticulum|Golgi apparatus	guanylate cyclase activity|heme binding				0		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00872)|GBM - Glioblastoma multiforme(486;0.233)		CTCCAGATACTGCAGGCCAGA	0.647													9	18	---	---	---	---	PASS	A	45667444	A	A	45667444	3	1	36	1	0	0	0	0	1	0	0	0	16460	1580	55	5	159	5	TRAPPC6A	19	45667444	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	1976915	45667444	13461539	324	14486										
MARK4	57787	broad.mit.edu	37	chr19	45797675	45797675	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	acagaacgcccgggggctgaGcgcccgtcactgttgccaaa	13	14	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:45797675G>T	uc002pbb.1	+	14	1568	c.1563G>T	c.(1561-1563)GAG>GAT	p.E521D	MARK4_uc002pba.1_Missense_Mutation_p.E521D			Q96L34	MARK4_HUMAN	RecName: Full=MAP/microtubule affinity-regulating kinase 4;          EC=2.7.11.1; AltName: Full=MAP/microtubule affinity-regulating kinase-like 1;	521					microtubule bundle formation|nervous system development|positive regulation of programmed cell death	centrosome|neuron projection	ATP binding|gamma-tubulin binding|microtubule binding|protein serine/threonine kinase activity|tau-protein kinase activity|ubiquitin binding			central_nervous_system(2)|large_intestine(1)	3		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CGGGGGCTGAGCGCCCGTCAC	0.592													12	42	---	---	---	---	PASS	T	45797675	T	T	45797675	3	4	36	1	0	0	0	0	1	0	0	0	9315	962	34	3	1617	3	MARK4	19	45797675	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	130231	45797675	13331308	325	14487										
PLA2G4C	8605	broad.mit.edu	37	chr19	48571079	48571079	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aggaagttgtgagtggtcccCcattcccactttgaagcgca	11	11	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:48571079C>A	uc002phx.2	-	13	1469	c.1071G>T	c.(1069-1071)TGG>TGT	p.W357C	PLA2G4C_uc002phw.2_Missense_Mutation_p.W292C|PLA2G4C_uc010elr.2_Missense_Mutation_p.W357C|PLA2G4C_uc010xzd.1_Missense_Mutation_p.W367C	NM_003706	NP_003697	Q9UP65	PA24C_HUMAN	phospholipase A2, group IVC isoform 1 precursor	357	PLA2c.				arachidonic acid metabolic process|glycerophospholipid catabolic process|inflammatory response|intracellular signal transduction|parturition	cytosol|membrane	calcium-independent phospholipase A2 activity|phospholipid binding			ovary(1)|skin(1)	2		all_cancers(25;2.84e-05)|all_lung(116;4.62e-05)|Lung NSC(112;7.61e-05)|all_epithelial(76;0.000192)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;8.09e-05)|all cancers(93;0.000517)|Epithelial(262;0.0135)|GBM - Glioblastoma multiforme(486;0.0717)		GAGTGGTCCCCCATTCCCACT	0.527													7	838	---	---	---	---	PASS	A	48571079	A	A	48571079	3	1	36	1	0	0	0	0	1	0	0	0	12003	624	22	3	578	3	PLA2G4C	19	48571079	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	2773404	48571079	10557904	326	14488										
NTF4	4909	broad.mit.edu	37	chr19	49564643	49564643	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	caggcccggccagtccggctGaggagtgtgcagacgcaggc	17	13	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:49564643G>C	uc002pmf.3	-	2	753	c.612C>G	c.(610-612)CTC>CTG	p.L204L	CGB7_uc010yah.1_Intron	NM_006179	NP_006170	P34130	NTF4_HUMAN	neurotrophin 5 preproprotein	204					adult locomotory behavior|epidermis development|ganglion mother cell fate determination|long-term memory|sensory organ boundary specification	endoplasmic reticulum lumen|extracellular region	growth factor activity				0		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)		CAGTCCGGCTGAGGAGTGTGC	0.602													3	57	---	---	---	---	PASS	C	49564643	C	C	49564643	2	2	36	1	0	0	0	0	0	0	0	1	10697	1277	45	2		2	NTF4	19	49564643	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	993564	49564643	9564340	327	14489										
NAPSA	9476	broad.mit.edu	37	chr19	50865269	50865269	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	catctcctggacgggacccaGagattggaggagccagtgtc	14	11	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:50865269G>C	uc002prx.2	-	3	359	c.306C>G	c.(304-306)CTC>CTG	p.L102L	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	102					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		ACGGGACCCAGAGATTGGAGG	0.542													10	24	---	---	---	---	PASS	C	50865269	C	C	50865269	2	2	36	1	0	0	0	0	0	0	0	1	10166	929	33	2		2	NAPSA	19	50865269	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	1300626	50865269	8263714	328	14490										
NLRP7	199713	broad.mit.edu	37	chr19	55450741	55450741	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tcctccccctcctccttctcCagggcgtagaacagggcagt	9	17	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:55450741C>T	uc002qih.3	-	4	1522	c.1446G>A	c.(1444-1446)CTG>CTA	p.L482L	NLRP7_uc002qig.3_Silent_p.L482L|NLRP7_uc002qii.3_Silent_p.L482L|NLRP7_uc010esk.2_Silent_p.L482L|NLRP7_uc010esl.2_Silent_p.L510L	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	482	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CCTCCTTCTCCAGGGCGTAGA	0.592													42	138	---	---	---	---	PASS	T	55450741	T	T	55450741	2	4	36	1	0	0	0	0	0	0	0	1	10482	581	21	3		3	NLRP7	19	55450741	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	4585472	55450741	3678242	329	14491										
PTPRH	5794	broad.mit.edu	37	chr19	55708542	55708542	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtcattcctctctgcccacaCggtgaaattgtacaacgtcc	7	14	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:55708542C>T	uc002qjq.2	-	9	2006	c.1933G>A	c.(1933-1935)GTG>ATG	p.V645M	PTPRH_uc010esv.2_Missense_Mutation_p.V467M|PTPRH_uc002qjs.2_Missense_Mutation_p.V652M	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	645	Extracellular (Potential).|Fibronectin type-III 7.				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)		TCTGCCCACACGGTGAAATTG	0.557													33	103	---	---	---	---	PASS	T	55708542	T	T	55708542	3	4	36	1	0	0	0	0	1	0	0	0	12803	536	19	1	1462	1	PTPRH	19	55708542	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	257801	55708542	3420441	330	14492										
TMEM190	147744	broad.mit.edu	37	chr19	55889435	55889435	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctcgctgctctccaagcaccGagggaccaagaagacgccgt	11	15	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:55889435G>C	uc002qkt.1	+	5	416	c.398G>C	c.(397-399)CGA>CCA	p.R133P		NM_139172	NP_631911	Q8WZ59	TM190_HUMAN	transmembrane protein 190 precursor	133	Cytoplasmic (Potential).					integral to membrane					0	Breast(117;0.191)		BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		TCCAAGCACCGAGGGACCAAG	0.522													22	58	---	---	---	---	PASS	C	55889435	C	C	55889435	3	2	36	1	0	0	0	0	1	0	0	0	16111	1058	37	2	416	2	TMEM190	19	55889435	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	180893	55889435	3239548	331	14493										
NLRP5	126206	broad.mit.edu	37	chr19	56539869	56539869	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgaggcatgtcctgtggtccCtctatggtgagtaccccagg	13	11	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:56539869C>A	uc002qmj.2	+	7	2270	c.2270C>A	c.(2269-2271)CCT>CAT	p.P757H	NLRP5_uc002qmi.2_Missense_Mutation_p.P738H	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	757						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)		CCTGTGGTCCCTCTATGGTGA	0.527													178	599	---	---	---	---	PASS	A	56539869	A	A	56539869	3	1	36	1	0	0	0	0	1	0	0	0	10480	681	24	3	2296	3	NLRP5	19	56539869	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	650434	56539869	2589114	332	14494										
ZNF773	374928	broad.mit.edu	37	chr19	58018583	58018583	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tttttagccaaagctcaagcCtcatgcaacatcgaaaagtt	6	10	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:58018583C>G	uc002qox.2	+	4	1260	c.1120C>G	c.(1120-1122)CTC>GTC	p.L374V	ZNF547_uc002qpm.3_Intron|ZNF773_uc002qoy.2_Missense_Mutation_p.L373V|ZNF773_uc002qoz.2_Intron	NM_198542	NP_940944	Q6PK81	ZN773_HUMAN	zinc finger protein 773	374	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)		AAGCTCAAGCCTCATGCAACA	0.418													122	453	---	---	---	---	PASS	G	58018583	G	G	58018583	3	3	36	1	0	0	0	0	1	0	0	0	18143	681	24	4	1134	4	ZNF773	19	58018583	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1478714	58018583	1110400	333	14495										
C19orf18	147685	broad.mit.edu	37	chr19	58470001	58470001	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccatttttccattatgtgacGcattctttgttttgttttct	5	8	2	1	rs139357251		TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:58470001G>A	uc002qqv.2	-	6	721	c.617C>T	c.(616-618)GCG>GTG	p.A206V		NM_152474	NP_689687	Q8NEA5	CS018_HUMAN	hypothetical protein LOC147685 precursor	206	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)		ATTATGTGACGCATTCTTTGT	0.403													13	62	---	---	---	---	PASS	A	58470001	A	A	58470001	3	1	36	1	0	0	0	0	1	0	0	0	1910	1087	38	1	34	1	C19orf18	19	58470001	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	451418	58470001	658982	334	14496										
ZNF446	55663	broad.mit.edu	37	chr19	58991801	58991801	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cgtcatccaccaccggacacAcacgagtgggccaggtgtgc	12	15	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:58991801A>T	uc002qsz.2	+	7	1178	c.1061A>T	c.(1060-1062)CAC>CTC	p.H354L	ZNF446_uc002qta.2_Missense_Mutation_p.T326S|ZNF446_uc010eur.2_3'UTR|SLC27A5_uc002qtb.2_RNA	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	354	C2H2-type 1.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		CACCGGACACACACGAGTGGG	0.667													11	44	---	---	---	---	PASS	T	58991801	T	T	58991801	3	4	36	1	0	0	0	0	1	0	0	0	17916	159	6	5	1083	5	ZNF446	19	58991801	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	521800	58991801	137182	335	14497										
SLC27A5	10998	broad.mit.edu	37	chr19	59011000	59011000	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccgacagctctcgggggccgCggtagcccacgaagggttgc	16	14	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr19:59011000C>T	uc002qtc.2	-	7	1636	c.1526G>A	c.(1525-1527)CGC>CAC	p.R509H	SLC27A5_uc002qtb.2_5'Flank	NM_012254	NP_036386	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid	509	Cytoplasmic (Probable).				bile acid and bile salt transport|bile acid biosynthetic process|very long-chain fatty acid metabolic process	endoplasmic reticulum membrane|integral to membrane	ATP binding|cholate-CoA ligase activity|long-chain fatty acid-CoA ligase activity				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.181)		TCGGGGGCCGCGGTAGCCCAC	0.657													51	195	---	---	---	---	PASS	T	59011000	T	T	59011000	3	4	36	1	0	0	0	0	1	0	0	0	14529	768	27	1	562	1	SLC27A5	19	59011000	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	19199	59011000	117983	336	14498										
C20orf26	26074	broad.mit.edu	37	chr20	20278922	20278922	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aaccatcacgtgcctttctaGggagcccttccccgcctcca	7	18	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr20:20278922G>T	uc002wru.2	+	25	3390	c.3314G>T	c.(3313-3315)AGG>ATG	p.R1105M	C20orf26_uc002wrw.2_RNA	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	1105										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TGCCTTTCTAGGGAGCCCTTC	0.478													29	91	---	---	---	---	PASS	T	20278922	T	T	20278922	3	4	36	1	0	0	0	0	1	0	0	0	2106	1000	35	3	3440	3	C20orf26	20	20278922	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08		20278922	42746598	337	14499										
XKR7	343702	broad.mit.edu	37	chr20	30584385	30584385	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aggtgctgcgggactcgcggGacgacaagcggccgctgtcc	17	13	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr20:30584385G>A	uc002wxe.2	+	3	1039	c.865G>A	c.(865-867)GAC>AAC	p.D289N		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	289						integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			GGACTCGCGGGACGACAAGCG	0.701													14	33	---	---	---	---	PASS	A	30584385	A	A	30584385	3	1	36	1	0	0	0	0	1	0	0	0	17433	1174	41	2	875	2	XKR7	20	30584385	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	10305463	30584385	32441135	338	14500										
TRPC4AP	26133	broad.mit.edu	37	chr20	33623037	33623037	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctgaaggaagctggctgtgcCcgttgactctgacacctttc	11	12	1	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr20:33623037C>A	uc002xbk.2	-	8	974	c.940G>T	c.(940-942)GGC>TGC	p.G314C	TRPC4AP_uc010zuq.1_5'UTR|TRPC4AP_uc002xbl.2_Missense_Mutation_p.G314C|TRPC4AP_uc010zur.1_Missense_Mutation_p.G275C|TRPC4AP_uc002xbm.1_Missense_Mutation_p.G314C	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	314	Interaction with TNFRSF1A (By similarity).				protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			CTGGCTGTGCCCGTTGACTCT	0.542													56	160	---	---	---	---	PASS	A	33623037	A	A	33623037	3	1	36	1	0	0	0	0	1	0	0	0	16578	623	22	3	1501	3	TRPC4AP	20	33623037	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	3038652	33623037	29402483	339	14501										
B4GALT5	9334	broad.mit.edu	37	chr20	48330202	48330202	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcagcgagcggcgcggcagcCgcagcagcccccggcgggcg	19	17	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr20:48330202C>A	uc002xuu.3	-	1	220	c.26G>T	c.(25-27)CGG>CTG	p.R9L		NM_004776	NP_004767	O43286	B4GT5_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	9	Cytoplasmic (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	galactosyltransferase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;2.51e-06)			GCGCGGCAGCCGCAGCAGCCC	0.647													2	0	---	---	---	---	PASS	A	48330202	A	A	48330202	3	1	36	1	0	0	0	0	1	0	0	0	1274	652	23	1	1176	1	B4GALT5	20	48330202	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	14707165	48330202	14695318	340	14502										
CHODL	140578	broad.mit.edu	37	chr21	19635169	19635169	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cccctgctcttactgatactGgttgcttttggaacctgttg	9	11	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr21:19635169G>A	uc002ykv.2	+	5	1087	c.696G>A	c.(694-696)CTG>CTA	p.L232L	CHODL_uc002ykr.2_Silent_p.L191L|CHODL_uc002yks.2_Silent_p.L191L|CHODL_uc002ykt.2_Intron|CHODL_uc002yku.2_Intron	NM_024944	NP_079220	Q9H9P2	CHODL_HUMAN	chondrolectin precursor	232	Helical; (Potential).				muscle organ development	integral to membrane|perinuclear region of cytoplasm	sugar binding			upper_aerodigestive_tract(1)	1		all_epithelial(11;0.21)		Epithelial(23;0.000191)|all cancers(11;0.000827)|LUSC - Lung squamous cell carcinoma(23;0.00646)|Lung(58;0.0129)|OV - Ovarian serous cystadenocarcinoma(11;0.017)|COAD - Colon adenocarcinoma(22;0.03)|Colorectal(24;0.0917)		TACTGATACTGGTTGCTTTTG	0.313													32	128	---	---	---	---	PASS	A	19635169	A	A	19635169	2	1	36	1	0	0	0	0	0	0	0	1	3364	1335	47	3		3	CHODL	21	19635169	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08		19635169	28494726	341	14503										
NCAM2	4685	broad.mit.edu	37	chr21	22782636	22782636	+	Missense_Mutation	SNP	G	T	T													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccaaacaatttattactcttGggaaggaaatcctatcaata							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr21:22782636G>T	uc002yld.1	+	10	1487	c.1238G>T	c.(1237-1239)TGG>TTG	p.W413L	NCAM2_uc011acb.1_Missense_Mutation_p.W271L	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	413	Ig-like C2-type 5.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TATTACTCTTGGGAAGGAAAT	0.299													13	64	---	---	---	---	PASS	T	22782636	T	T	22782636	3	4	36	1	0	0	0	0	1	0	0	0	10203	1357	47	3	1276	3	NCAM2	21	22782636	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	3147467	22782636	25347259	342	14504	371	2								
NCAM2	4685	broad.mit.edu	37	chr21	22782637	22782637	+	Missense_Mutation	SNP	G	T	T													0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	caaacaatttattactcttgGgaaggaaatcctatcaatat							TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr21:22782637G>T	uc002yld.1	+	10	1488	c.1239G>T	c.(1237-1239)TGG>TGT	p.W413C	NCAM2_uc011acb.1_Missense_Mutation_p.W271C	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	413	Ig-like C2-type 5.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		ATTACTCTTGGGAAGGAAATC	0.299													14	64	---	---	---	---	PASS	T	22782637	T	T	22782637	3	4	36	1	0	0	0	0	1	0	0	0	10203	1241	43	3	1277	3	NCAM2	21	22782637	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1	22782637	25347258	343	14505	371	2								
MTMR3	8897	broad.mit.edu	37	chr22	30416442	30416442	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ggcttgtgtgcaatggtgccCcagagactgaaaacagggcc	14	10	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:30416442C>A	uc003agv.3	+	17	3122	c.2794C>A	c.(2794-2796)CCA>ACA	p.P932T	MTMR3_uc003agu.3_Missense_Mutation_p.P932T|MTMR3_uc003agw.3_Missense_Mutation_p.P932T	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	932					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			CAATGGTGCCCCAGAGACTGA	0.582													5	214	---	---	---	---	PASS	A	30416442	A	A	30416442	3	1	36	1	0	0	0	0	1	0	0	0	9945	623	22	3	2852	3	MTMR3	22	30416442	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08		30416442	20888124	344	14506										
INPP5J	27124	broad.mit.edu	37	chr22	31524495	31524495	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agcttggacagaccgtatccTatggaaggtcaaggctccag	12	10	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:31524495T>C	uc003aju.3	+	9	2140	c.2048T>C	c.(2047-2049)CTA>CCA	p.L683P	INPP5J_uc003ajv.3_Missense_Mutation_p.L316P|INPP5J_uc003ajs.3_Missense_Mutation_p.L316P|INPP5J_uc011alk.1_Missense_Mutation_p.L616P|INPP5J_uc010gwg.2_Missense_Mutation_p.L248P|INPP5J_uc003ajw.2_Missense_Mutation_p.L119P|INPP5J_uc003ajt.3_Missense_Mutation_p.L315P|INPP5J_uc003ajx.2_Missense_Mutation_p.L48P|INPP5J_uc003ajy.2_Missense_Mutation_p.L48P|INPP5J_uc003ajz.2_Missense_Mutation_p.L123P	NM_001002837	NP_001002837	Q15735	PI5PA_HUMAN	phosphatidylinositol (4,5) bisphosphate	683	Catalytic (Potential).					cytoplasm|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|SH3 domain binding			skin(1)	1						GACCGTATCCTATGGAAGGTC	0.597													22	49	---	---	---	---	PASS	C	31524495	C	C	31524495	3	2	36	1	0	0	0	0	1	0	0	0	7759	1522	53	5	978	5	INPP5J	22	31524495	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	1108053	31524495	19780071	345	14507										
INPP5J	27124	broad.mit.edu	37	chr22	31524595	31524595	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	taccgcagccacatggaataCacagtcagcgaccacaagcc	8	15	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:31524595C>T	uc003aju.3	+	9	2240	c.2148C>T	c.(2146-2148)TAC>TAT	p.Y716Y	INPP5J_uc003ajv.3_Silent_p.Y349Y|INPP5J_uc003ajs.3_Silent_p.Y349Y|INPP5J_uc011alk.1_Silent_p.Y649Y|INPP5J_uc010gwg.2_Silent_p.Y281Y|INPP5J_uc003ajw.2_Silent_p.Y152Y|INPP5J_uc003ajt.3_Silent_p.Y348Y|INPP5J_uc003ajx.2_Silent_p.Y81Y|INPP5J_uc003ajy.2_Silent_p.Y81Y|INPP5J_uc003ajz.2_Silent_p.Y156Y	NM_001002837	NP_001002837	Q15735	PI5PA_HUMAN	phosphatidylinositol (4,5) bisphosphate	716	Catalytic (Potential).					cytoplasm|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|SH3 domain binding			skin(1)	1						ACATGGAATACACAGTCAGCG	0.617													18	91	---	---	---	---	PASS	T	31524595	T	T	31524595	2	4	36	1	0	0	0	0	0	0	0	1	7759	489	17	3		3	INPP5J	22	31524595	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	100	31524595	19779971	346	14508										
C22orf42	150297	broad.mit.edu	37	chr22	32545743	32545743	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gatatatatatacttacagaGgtaatcttcatatctctcct	4	8	3	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:32545743G>T	uc003amd.2	-	8	720	c.679C>A	c.(679-681)CTC>ATC	p.L227I		NM_001010859	NP_001010859	Q6IC83	CV042_HUMAN	chromosome 22 open reading frame 42	227										ovary(1)|skin(1)	2						taCTTACAGAGGTAATCTTCA	0.249													7	34	---	---	---	---	PASS	T	32545743	T	T	32545743	3	4	36	1	0	0	0	0	1	0	0	0	2149	1000	35	3	84	3	C22orf42	22	32545743	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	1021148	32545743	18758823	347	14509										
ISX	91464	broad.mit.edu	37	chr22	35463085	35463085	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	acccctgagcccctcaatgtGtgctgaggtgggccctgctc	12	15	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:35463085G>T	uc003anj.2	+	1	956	c.5G>T	c.(4-6)TGT>TTT	p.C2F	ISX_uc011amg.1_5'UTR	NM_001008494	NP_001008494	Q2M1V0	ISX_HUMAN	intestine-specific homeobox	2						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)	5						CCCTCAATGTGTGCTGAGGTG	0.617													21	66	---	---	---	---	PASS	T	35463085	T	T	35463085	3	4	36	1	0	0	0	0	1	0	0	0	7865	1377	48	3	7	3	ISX	22	35463085	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	2917342	35463085	15841481	348	14510										
MYH9	4627	broad.mit.edu	37	chr22	36737470	36737470	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcatagatgtgagggggcatCtcgtgcctcttcttgccctt	12	11	3	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:36737470C>G	uc003apg.2	-	3	666	c.435G>C	c.(433-435)GAG>GAC	p.E145D	MYH9_uc003aph.1_Missense_Mutation_p.E9D|MYH9_uc003api.1_Missense_Mutation_p.E145D	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	145	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GAGGGGGCATCTCGTGCCTCT	0.517			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				79	210	---	---	---	---	PASS	G	36737470	G	G	36737470	3	3	36	1	0	0	0	0	1	0	0	0	10042	912	32	2	5603	2	MYH9	22	36737470	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1274385	36737470	14567096	349	14511										
TMPRSS6	164656	broad.mit.edu	37	chr22	37482458	37482458	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctggcggctgcagccgtacaCcctggcagaacagaaaggtg	14	12	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:37482458C>T	uc003aqs.1	-	8	979	c.865G>A	c.(865-867)GTG>ATG	p.V289M	TMPRSS6_uc003aqt.1_Missense_Mutation_p.V280M|TMPRSS6_uc003aqu.2_Missense_Mutation_p.V280M	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	289	CUB 1.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						CAGCCGTACACCCTGGCAGAA	0.552													3	3	---	---	---	---	PASS	T	37482458	T	T	37482458	3	4	36	1	0	0	0	0	1	0	0	0	16248	521	18	3	1614	3	TMPRSS6	22	37482458	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	744988	37482458	13822108	350	14512										
TRIOBP	11078	broad.mit.edu	37	chr22	38121544	38121544	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cacctcccgaacttcctcacCtgtgtaccccgctgcctatg	6	19	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:38121544C>A	uc003atr.2	+	7	3252	c.2981C>A	c.(2980-2982)CCT>CAT	p.P994H	TRIOBP_uc003atu.2_Missense_Mutation_p.P822H|TRIOBP_uc003atq.1_Missense_Mutation_p.P994H|TRIOBP_uc003ats.1_Missense_Mutation_p.P822H	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	994					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					ACTTCCTCACCTGTGTACCCC	0.647													5	531	---	---	---	---	PASS	A	38121544	A	A	38121544	3	1	36	1	0	0	0	0	1	0	0	0	16550	681	24	3	2999	3	TRIOBP	22	38121544	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	639086	38121544	13183022	351	14513										
EP300	2033	broad.mit.edu	37	chr22	41574090	41574090	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccaggtcagcagggggtccaCtccaatccagccatgcagaa	11	14	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:41574090C>A	uc003azl.3	+	31	6770	c.6375C>A	c.(6373-6375)CAC>CAA	p.H2125Q		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	2125	Interaction with HTLV-1 Tax.|Interaction with NCOA2.				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						AGGGGGTCCACTCCAATCCAG	0.627			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				22	88	---	---	---	---	PASS	A	41574090	A	A	41574090	3	1	36	1	0	0	0	0	1	0	0	0	5148	564	20	3	6497	3	EP300	22	41574090	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	3452546	41574090	9730476	352	14514										
PACSIN2	11252	broad.mit.edu	37	chr22	43308058	43308058	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgtcgctggacacttctactCcaacggaatcatcatatgtg	8	11	3	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:43308058C>T	uc010gzg.2	-	2	251	c.29G>A	c.(28-30)GGA>GAA	p.G10E	PACSIN2_uc003bdg.3_Missense_Mutation_p.G10E|PACSIN2_uc003bde.3_Missense_Mutation_p.G10E|PACSIN2_uc003bdf.3_Missense_Mutation_p.G10E	NM_007229	NP_009160	Q9UNF0	PACN2_HUMAN	protein kinase C and casein kinase substrate in	10					actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)				CACTTCTACTCCAACGGAATC	0.473													28	130	---	---	---	---	PASS	T	43308058	T	T	43308058	3	4	36	1	0	0	0	0	1	0	0	0	11375	855	30	2	1471	2	PACSIN2	22	43308058	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1733968	43308058	7996508	353	14515										
EFCAB6	64800	broad.mit.edu	37	chr22	44004396	44004396	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ttcaaactctcttggtgtgaGgggaatatcaaaaccgtaca	9	8	3	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:44004396G>A	uc003bdy.1	-	22	2862	c.2647C>T	c.(2647-2649)CTC>TTC	p.L883F	EFCAB6_uc003bdz.1_Missense_Mutation_p.L731F|EFCAB6_uc010gzi.1_Missense_Mutation_p.L731F|EFCAB6_uc010gzj.1_Intron	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	883	EF-hand 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CTTGGTGTGAGGGGAATATCA	0.448													26	90	---	---	---	---	PASS	A	44004396	A	A	44004396	3	1	36	1	0	0	0	0	1	0	0	0	4939	1000	35	3	1902	3	EFCAB6	22	44004396	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	696338	44004396	7300170	354	14516										
TBC1D22A	25771	broad.mit.edu	37	chr22	47189457	47189457	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gaaggccaagagggtcagcaCcttccaggagtttgagagca	14	9	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:47189457C>G	uc003bib.2	+	3	314	c.179C>G	c.(178-180)ACC>AGC	p.T60S	TBC1D22A_uc010haf.2_Missense_Mutation_p.T30S|TBC1D22A_uc003bic.2_Missense_Mutation_p.T60S|TBC1D22A_uc003bie.2_Missense_Mutation_p.T41S|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.T13S	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	60						intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		AGGGTCAGCACCTTCCAGGAG	0.592													33	126	---	---	---	---	PASS	G	47189457	G	G	47189457	3	3	36	1	0	0	0	0	1	0	0	0	15608	507	18	4	189	4	TBC1D22A	22	47189457	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	3185061	47189457	4115109	355	14517										
LMF2	91289	broad.mit.edu	37	chr22	50942847	50942847	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcggctgcttgtggaagggaTacctggccacttggctctgg	16	10	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chr22:50942847T>C	uc003blp.2	-	12	1671	c.1640A>G	c.(1639-1641)TAT>TGT	p.Y547C	LMF2_uc010hba.2_Missense_Mutation_p.Y369C|LMF2_uc003blo.2_Missense_Mutation_p.Y522C	NM_033200	NP_149977	Q9BU23	LMF2_HUMAN	lipase maturation factor 2	547						endoplasmic reticulum membrane|integral to membrane				breast(1)	1		all_cancers(38;1.31e-09)|all_epithelial(38;1.81e-08)|all_lung(38;0.000817)|Breast(42;0.00387)|Lung NSC(38;0.0124)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GTGGAAGGGATACCTGGCCAC	0.547													7	36	---	---	---	---	PASS	C	50942847	C	C	50942847	3	2	36	1	0	0	0	0	1	0	0	0	8846	1406	49	5	495	5	LMF2	22	50942847	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	3753390	50942847	361719	356	14518										
GYG2	8908	broad.mit.edu	37	chrX	2778075	2778075	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	cctttataaaagcgtccaagCgggggaagcacgcgcgtctc	12	12	1	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:2778075C>A	uc004cqs.1	+	8	1181	c.899C>A	c.(898-900)GCG>GAG	p.A300E	GYG2_uc004cqt.1_Missense_Mutation_p.A269E|GYG2_uc004cqu.1_Missense_Mutation_p.A269E|GYG2_uc004cqv.1_Missense_Mutation_p.A114E|GYG2_uc004cqw.1_Missense_Mutation_p.A260E|GYG2_uc004cqx.1_Missense_Mutation_p.A269E|GYG2_uc010ndc.1_Missense_Mutation_p.A114E	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b	300					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AGCGTCCAAGCGGGGGAAGCA	0.577													6	7	---	---	---	---	PASS	A	2778075	A	A	2778075	3	1	36	1	0	0	0	0	1	0	0	0	6906	768	27	1	925	1	GYG2	23	2778075	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08		2778075	152492485	357	14519										
VCX3B	425054	broad.mit.edu	37	chrX	8433594	8433594	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ccagtgacccgaagaagaagGtgagtgaccctcccaagctc	11	13	0	5			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:8433594G>T	uc010ndo.2	+	2	409	c.102_splice	c.e2+1	p.K34_splice	VCX3B_uc011mht.1_Splice_Site_p.K34_splice|VCX3B_uc004csd.1_Splice_Site_p.K34_splice	NM_001001888	NP_001001888	Q9H321	VCX3B_HUMAN	variable charge, X-linked 3B							nucleolus					0						GAAGAAGAAGGTGAGTGACCC	0.637													4	155	---	---	---	---	PASS	T	8433594	T	T	8433594	5	4	36	1	0	0	0	0	0	0	1	0	17142	1275	44	3	105	3	VCX3B	23	8433594	Splice_Site	SNP	G	TCGA-22-4595-01A-01D-1267-08	5655519	8433594	146836966	358	14520										
BEND2	139105	broad.mit.edu	37	chrX	18195717	18195717	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gcagccattttgttcgggtcGagggattggctgtctttcaa	13	8	2	0	rs149324488		TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:18195717G>T	uc004cyj.3	-	10	1756	c.1602C>A	c.(1600-1602)CTC>CTA	p.L534L	BEND2_uc010nfb.2_Silent_p.L443L	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	534	BEN 1.									ovary(3)|kidney(1)|central_nervous_system(1)	5						TGTTCGGGTCGAGGGATTGGC	0.388													174	212	---	---	---	---	PASS	T	18195717	T	T	18195717	2	4	36	1	0	0	0	0	0	0	0	1	1398	1045	37	2		2	BEND2	23	18195717	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	9762123	18195717	137074843	359	14521										
IL1RAPL1	11141	broad.mit.edu	37	chrX	29973457	29973457	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	atcaagctcctgacggtcatTaaatggcatggaccaaaatg	9	9	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:29973457T>C	uc004dby.2	+	11	2119	c.1611T>C	c.(1609-1611)ATT>ATC	p.I537I		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	537	Cytoplasmic (Potential).|TIR.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						TGACGGTCATTAAATGGCATG	0.413													25	39	---	---	---	---	PASS	C	29973457	C	C	29973457	2	2	36	1	0	0	0	0	0	0	0	1	7661	1742	61	5		5	IL1RAPL1	23	29973457	Silent	SNP	T	TCGA-22-4595-01A-01D-1267-08	11777740	29973457	125297103	360	14522										
DDX3X	1654	broad.mit.edu	37	chrX	41201857	41201857	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtcgctggtgtgacaaatcaGatgaagatgattggtcaaaa	12	5	2	5			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:41201857G>A	uc004dfe.2	+	5	1249	c.394G>A	c.(394-396)GAT>AAT	p.D132N	DDX3X_uc010nhf.1_Missense_Mutation_p.D116N|DDX3X_uc004dff.2_Missense_Mutation_p.D132N|DDX3X_uc011mkq.1_Missense_Mutation_p.D116N|DDX3X_uc011mkr.1_Missense_Mutation_p.D132N|DDX3X_uc011mks.1_Intron|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	132					interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						TGACAAATCAGATGAAGATGA	0.453										HNSCC(61;0.18)			56	55	---	---	---	---	PASS	A	41201857	A	A	41201857	3	1	36	1	0	0	0	0	1	0	0	0	4358	942	33	2	412	2	DDX3X	23	41201857	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	11228400	41201857	114068703	361	14523										
ITIH5L	347365	broad.mit.edu	37	chrX	54776340	54776340	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agaagccatcacaggacataGgagaggtaggggtggcccag	16	8	1	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:54776340G>A	uc004dtj.2	-	13	3960	c.3930C>T	c.(3928-3930)TCC>TCT	p.S1310S		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	1310					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						ACAGGACATAGGAGAGGTAGG	0.592													10	16	---	---	---	---	PASS	A	54776340	A	A	54776340	2	1	36	1	0	0	0	0	0	0	0	1	7908	987	35	3		3	ITIH5L	23	54776340	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	13574483	54776340	100494220	362	14524										
LAS1L	81887	broad.mit.edu	37	chrX	64748148	64748148	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	ctagttacacacctgttctcGcatgtaacgcccttgagctc	7	14	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:64748148G>A	uc004dwa.1	-	7	1020	c.948C>T	c.(946-948)TGC>TGT	p.C316C	LAS1L_uc004dwc.1_Silent_p.C316C|LAS1L_uc004dwd.1_Silent_p.C274C	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	316						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						ACCTGTTCTCGCATGTAACGC	0.498											OREG0019826	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	13	---	---	---	---	PASS	A	64748148	A	A	64748148	2	1	36	1	0	0	0	0	0	0	0	1	8636	1079	38	1		1	LAS1L	23	64748148	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	9971808	64748148	90522412	363	14525										
LPAR4	2846	broad.mit.edu	37	chrX	78010794	78010794	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tttcctggccattgtctatcCttttcgatctcgtactatta	5	11	2	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:78010794C>A	uc010nme.2	+	2	833	c.428C>A	c.(427-429)CCT>CAT	p.P143H		NM_005296	NP_005287	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	143	Cytoplasmic (Potential).					integral to plasma membrane	lipid binding|purinergic nucleotide receptor activity, G-protein coupled			ovary(3)	3						ATTGTCTATCCTTTTCGATCT	0.463													59	71	---	---	---	---	PASS	A	78010794	A	A	78010794	3	1	36	1	0	0	0	0	1	0	0	0	8907	681	24	3	430	3	LPAR4	23	78010794	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	13262646	78010794	77259766	364	14526										
GPR174	84636	broad.mit.edu	37	chrX	78426664	78426664	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	atatgaaagaaacaaaacgaGctgtgatatttatgataaac	7	4	0	4			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:78426664G>T	uc004edg.1	+	1	196	c.160G>T	c.(160-162)GCT>TCT	p.A54S		NM_032553	NP_115942	Q9BXC1	GP174_HUMAN	putative purinergic receptor FKSG79	54	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)|central_nervous_system(1)	2						AACAAAACGAGCTGTGATATT	0.383										HNSCC(63;0.18)			5	14	---	---	---	---	PASS	T	78426664	T	T	78426664	3	4	36	1	0	0	0	0	1	0	0	0	6672	971	34	3	162	3	GPR174	23	78426664	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	415870	78426664	76843896	365	14527										
GPR174	84636	broad.mit.edu	37	chrX	78427455	78427455	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	agcatccaactccatgcaaaAtcctttgtgagtaaccatac	5	12	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:78427455A>T	uc004edg.1	+	1	987	c.951A>T	c.(949-951)AAA>AAT	p.K317N		NM_032553	NP_115942	Q9BXC1	GP174_HUMAN	putative purinergic receptor FKSG79	317	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)|central_nervous_system(1)	2						TCCATGCAAAATCCTTTGTGA	0.393										HNSCC(63;0.18)			44	47	---	---	---	---	PASS	T	78427455	T	T	78427455	3	4	36	1	0	0	0	0	1	0	0	0	6672	98	4	5	953	5	GPR174	23	78427455	Missense_Mutation	SNP	A	TCGA-22-4595-01A-01D-1267-08	791	78427455	76843105	366	14528										
ITM2A	9452	broad.mit.edu	37	chrX	78622693	78622693	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tttgcacggcggtaggggtaTtgaaggcgattttcaccata	13	7	1	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:78622693T>C	uc004edh.2	-	1	355	c.20A>G	c.(19-21)AAT>AGT	p.N7S	ITM2A_uc011mqr.1_Missense_Mutation_p.N7S	NM_004867	NP_004858	O43736	ITM2A_HUMAN	integral membrane protein 2A	7						integral to membrane	protein binding			lung(2)	2						GGTAGGGGTATTGAAGGCGAT	0.592													14	8	---	---	---	---	PASS	C	78622693	C	C	78622693	3	2	36	1	0	0	0	0	1	0	0	0	7912	1493	52	5	795	5	ITM2A	23	78622693	Missense_Mutation	SNP	T	TCGA-22-4595-01A-01D-1267-08	195238	78622693	76647867	367	14529										
CYLC1	1538	broad.mit.edu	37	chrX	83128574	83128574	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tatacaaagtatacaaagaaGgacacaaaaaagaatgcaaa	6	5	0	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:83128574G>A	uc004eei.1	+	4	879	c.858G>A	c.(856-858)AAG>AAA	p.K286K	CYLC1_uc004eeh.1_Silent_p.K285K	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	286	1.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						ATACAAAGAAGGACACAAAAA	0.303													18	16	---	---	---	---	PASS	A	83128574	A	A	83128574	2	1	36	1	0	0	0	0	0	0	0	1	4141	991	35	3		3	CYLC1	23	83128574	Silent	SNP	G	TCGA-22-4595-01A-01D-1267-08	4505881	83128574	72141986	368	14530										
ARMCX6	54470	broad.mit.edu	37	chrX	100871326	100871326	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tgttttattgggtgtgctcgGttggccttgcctccccctga	12	11	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:100871326G>T	uc004ehx.2	-	3	630	c.285C>A	c.(283-285)AAC>AAA	p.N95K	ARMCX6_uc004ehy.2_Missense_Mutation_p.N95K	NM_019007	NP_061880	Q7L4S7	ARMX6_HUMAN	armadillo repeat containing, X-linked 6	95						integral to membrane					0						GGTGTGCTCGGTTGGCCTTGC	0.532													96	135	---	---	---	---	PASS	T	100871326	T	T	100871326	3	4	36	1	0	0	0	0	1	0	0	0	963	1252	44	3	621	3	ARMCX6	23	100871326	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	17742752	100871326	54399234	369	14531										
BEX1	55859	broad.mit.edu	37	chrX	102318111	102318111	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aagggagggccaagggctccCctttattagcaacttgctcc	11	12	0	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:102318111C>G	uc004ejt.1	-	3	332	c.92G>C	c.(91-93)GGG>GCG	p.G31A		NM_018476	NP_060946	Q9HBH7	BEX1_HUMAN	brain expressed, X-linked 1	31					cell differentiation|nervous system development	cytoplasm|nucleus				ovary(1)	1						CAAGGGCTCCCCTTTATTAGC	0.488													260	302	---	---	---	---	PASS	G	102318111	G	G	102318111	3	3	36	1	0	0	0	0	1	0	0	0	1410	623	22	4	289	4	BEX1	23	102318111	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	1446785	102318111	52952449	370	14532										
KIAA1210	57481	broad.mit.edu	37	chrX	118215378	118215378	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	aggctcaattggctcaactgGgttctggaacttggctggga	14	8	3	0			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:118215378G>T	uc004era.3	-	14	5044	c.5044C>A	c.(5044-5046)CCA>ACA	p.P1682T		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1682										ovary(4)|skin(1)	5						GGCTCAACTGGGTTCTGGAAC	0.478													125	118	---	---	---	---	PASS	T	118215378	T	T	118215378	3	4	36	1	0	0	0	0	1	0	0	0	8214	1232	43	3	89	3	KIAA1210	23	118215378	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	15897267	118215378	37055182	371	14533										
GRIA3	2892	broad.mit.edu	37	chrX	122319751	122319751	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tttgccgtgcagttatacaaCaccaaccagaacaccaccga	6	14	0	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:122319751C>G	uc004etq.3	+	3	470	c.177C>G	c.(175-177)AAC>AAG	p.N59K	GRIA3_uc004etr.3_Missense_Mutation_p.N59K|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.N43K|GRIA3_uc010nqs.1_Missense_Mutation_p.N59K	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	59	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	AGTTATACAACACCAACCAGA	0.458													55	67	---	---	---	---	PASS	G	122319751	G	G	122319751	3	3	36	1	0	0	0	0	1	0	0	0	6769	477	17	4	183	4	GRIA3	23	122319751	Missense_Mutation	SNP	C	TCGA-22-4595-01A-01D-1267-08	4104373	122319751	32950809	372	14534										
THOC2	57187	broad.mit.edu	37	chrX	122757717	122757717	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tactcttctttccaaagcttGacccagattcaaaacttttg	4	11	3	2			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:122757717G>C	uc004etu.2	-	28	3456	c.3424C>G	c.(3424-3426)CAA>GAA	p.Q1142E	THOC2_uc010nqt.1_5'Flank|THOC2_uc004etw.1_5'Flank	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1142					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TCCAAAGCTTGACCCAGATTC	0.363													54	63	---	---	---	---	PASS	C	122757717	C	C	122757717	3	2	36	1	0	0	0	0	1	0	0	0	15862	1299	45	2	1401	2	THOC2	23	122757717	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08	437966	122757717	32512843	373	14535										
ATP2B3	492	broad.mit.edu	37	chrX	152814999	152814999	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gtgcgccacctggatgcctgCgagaccatgggcaacgccac	13	15	0	1	rs140403057		TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrX:152814999C>T	uc004fht.1	+	9	1509	c.1383C>T	c.(1381-1383)TGC>TGT	p.C461C	ATP2B3_uc004fhs.1_Silent_p.C461C	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	461	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TGGATGCCTGCGAGACCATGG	0.592													5	224	---	---	---	---	PASS	T	152814999	T	T	152814999	2	4	36	1	0	0	0	0	0	0	0	1	1141	776	27	1		1	ATP2B3	23	152814999	Silent	SNP	C	TCGA-22-4595-01A-01D-1267-08	30057282	152814999	2455561	374	14536										
DDX3Y	8653	broad.mit.edu	37	chrY	15023843	15023843	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	gagattctagaggaaagcctGgttatttcagtgaacgtgga	13	5	2	3			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrY:15023843G>C	uc004fsu.1	+	5	553	c.244G>C	c.(244-246)GGT>CGT	p.G82R	DDX3Y_uc010nwv.1_Missense_Mutation_p.G82R|DDX3Y_uc011naq.1_Missense_Mutation_p.G82R|DDX3Y_uc004fsv.2_Missense_Mutation_p.G82R|DDX3Y_uc010nww.1_Intron|DDX3Y_uc011nar.1_Missense_Mutation_p.G79R	NM_001122665	NP_001116137	O15523	DDX3Y_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 3,	82						cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|RNA binding				0						AGGAAAGCCTGGTTATTTCAG	0.383													85	99	---	---	---	---	PASS	C	15023843	C	C	15023843	3	2	36	1	0	0	0	0	1	0	0	0	4359	1348	47	4	258	4	DDX3Y	24	15023843	Missense_Mutation	SNP	G	TCGA-22-4595-01A-01D-1267-08		15023843	44349723	375	14537										
KDM5D	8284	broad.mit.edu	37	chrY	21894629	21894629	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114754098360656	42	0.000150415394557796	1.85536526066153	2.60890732822488	1.30223331745012	0.166728597233355	0.503628779786616	19	tggcaaatatatgagtcaatCtaccaaaaaaaaaaaaaaag	5	5	2	1			TCGA-22-4595-01A-01D-1267-08	TCGA-22-4595-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7fcf5123-2d1b-4666-9d39-a1aaf63cf954	850e8a4d-e0f6-4bd6-80f5-1c20e2b0e4f9	g.chrY:21894629C>A	uc004fug.2	-	9	1222	c.934_splice	c.e9-1	p.I312_splice	KDM5D_uc011naz.1_Splice_Site_p.I312_splice|KDM5D_uc010nwy.2_Splice_Site_p.I255_splice|KDM5D_uc011nba.1_Splice_Site_p.I312_splice|KDM5D_uc004fuh.2_Splice_Site_p.I267_splice	NM_004653	NP_004644	Q9BY66	KDM5D_HUMAN	jumonji, AT rich interactive domain 1D isoform						chromatin modification|spermatogenesis	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1					Vitamin C(DB00126)	ATGAGTCAATCTACCAAAAAA	0.363													6	13	---	---	---	---	PASS	A	21894629	A	A	21894629	5	1	36	1	0	0	0	0	0	0	1	0	8136	927	32	2	3859	2	KDM5D	24	21894629	Splice_Site	SNP	C	TCGA-22-4595-01A-01D-1267-08	6870786	21894629	37478937	376	14538										
KIF1B	23095	broad.mit.edu	37	chr1	10425653	10425653	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctagcgagagcagtggctatGattcaggagacatcgaaagc	13	8	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:10425653G>A	uc001aqx.3	+	43	4901	c.4699G>A	c.(4699-4701)GAT>AAT	p.D1567N	KIF1B_uc001aqw.3_Missense_Mutation_p.D1521N|KIF1B_uc001aqy.2_Missense_Mutation_p.D1541N|KIF1B_uc001aqz.2_Missense_Mutation_p.D1567N|KIF1B_uc001ara.2_Missense_Mutation_p.D1527N|KIF1B_uc001arb.2_Missense_Mutation_p.D1553N	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1567					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		CAGTGGCTATGATTCAGGAGA	0.542													59	66	---	---	---	---	PASS	A	10425653	A	A	10425653	3	1	37	1	0	0	0	0	1	0	0	0	8284	1290	45	2	6208	2	KIF1B	1	10425653	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08		10425653	238824968	1	14539										
C1orf64	149563	broad.mit.edu	37	chr1	16332706	16332706	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tcagcttccttcccagtcagCccgctctgcccccaggaggt	9	18	3	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:16332706C>T	uc001axn.2	+	2	443	c.375C>T	c.(373-375)AGC>AGT	p.S125S		NM_178840	NP_849162	Q8NEQ6	CA064_HUMAN	hypothetical protein LOC149563	125										breast(2)	2		Colorectal(325;0.000435)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;3.25e-07)|COAD - Colon adenocarcinoma(227;2.08e-05)|BRCA - Breast invasive adenocarcinoma(304;9.19e-05)|Kidney(64;0.000165)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.0114)|READ - Rectum adenocarcinoma(331;0.0649)		TCCCAGTCAGCCCGCTCTGCC	0.642													29	31	---	---	---	---	PASS	T	16332706	T	T	16332706	2	4	37	1	0	0	0	0	0	0	0	1	2054	738	26	3		3	C1orf64	1	16332706	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	5907053	16332706	232917915	2	14540										
KIF17	57576	broad.mit.edu	37	chr1	21031124	21031124	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tcgtagttgttgtccgcaggCgacaggcaggccaccatgag	14	11	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:21031124C>T	uc001bdr.3	-	5	1057	c.939G>A	c.(937-939)TCG>TCA	p.S313S	KIF17_uc001bds.3_Silent_p.S313S	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	313					microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		TGTCCGCAGGCGACAGGCAGG	0.622													22	53	---	---	---	---	PASS	T	21031124	T	T	21031124	2	4	37	1	0	0	0	0	0	0	0	1	8279	755	27	1		1	KIF17	1	21031124	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	4698418	21031124	228219497	3	14541										
HMGCL	3155	broad.mit.edu	37	chr1	24144041	24144041	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcttcagaaagcatgtctatCagcttgattttcactggagt	9	8	4	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:24144041C>A	uc001bib.2	-	3	221	c.177G>T	c.(175-177)CTG>CTT	p.L59L	HMGCL_uc010oec.1_Silent_p.L59L|HMGCL_uc009vqr.2_Intron|HMGCL_uc001bic.2_Silent_p.L34L|HMGCL_uc009vqs.1_Silent_p.L59L|HMGCL_uc001bid.1_Silent_p.L59L	NM_000191	NP_000182	P35914	HMGCL_HUMAN	3-hydroxy-3-methylglutaryl CoA lyase isoform 1	59					acetoacetic acid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA lyase activity|metal ion binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.0044)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.38e-24)|Colorectal(126;5.58e-08)|COAD - Colon adenocarcinoma(152;3.12e-06)|GBM - Glioblastoma multiforme(114;4.9e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000982)|KIRC - Kidney renal clear cell carcinoma(1967;0.0034)|STAD - Stomach adenocarcinoma(196;0.0128)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0856)|LUSC - Lung squamous cell carcinoma(448;0.188)		GCATGTCTATCAGCTTGATTT	0.448													45	46	---	---	---	---	PASS	A	24144041	A	A	24144041	2	1	37	1	0	0	0	0	0	0	0	1	7229	813	29	2		2	HMGCL	1	24144041	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	3112917	24144041	225106580	4	14542										
C1orf172	126695	broad.mit.edu	37	chr1	27277975	27277975	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtactaatgcgaatgatgccGcgtaccaggcggccctcagc	12	13	1	1	rs142079202		TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:27277975G>A	uc001bni.1	-	2	986	c.897C>T	c.(895-897)CGC>CGT	p.R299R		NM_152365	NP_689578	Q8NAX2	CA172_HUMAN	hypothetical protein LOC126695	299										large_intestine(1)|ovary(1)	2		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.37e-51)|OV - Ovarian serous cystadenocarcinoma(117;2.22e-29)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000272)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)		GAATGATGCCGCGTACCAGGC	0.602													17	23	---	---	---	---	PASS	A	27277975	A	A	27277975	2	1	37	1	0	0	0	0	0	0	0	1	2013	1074	38	1		1	C1orf172	1	27277975	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	3133934	27277975	221972646	5	14543										
S100PBP	64766	broad.mit.edu	37	chr1	33292386	33292386	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgtctctgataaaaatatgcCtgacagtgagaaccctacgt	8	9	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:33292386C>T	uc001bvz.2	+	3	963	c.686C>T	c.(685-687)CCT>CTT	p.P229L	S100PBP_uc001bwa.1_Missense_Mutation_p.P229L|S100PBP_uc001bwb.1_Missense_Mutation_p.P229L|S100PBP_uc001bwc.2_Missense_Mutation_p.P229L|S100PBP_uc001bwd.2_RNA	NM_022753	NP_073590	Q96BU1	S1PBP_HUMAN	S100P binding protein isoform a	229						nucleus	calcium-dependent protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				AAAAATATGCCTGACAGTGAG	0.448													44	52	---	---	---	---	PASS	T	33292386	T	T	33292386	3	4	37	1	0	0	0	0	1	0	0	0	13791	681	24	3	688	3	S100PBP	1	33292386	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	6014411	33292386	215958235	6	14544										
CSMD2	114784	broad.mit.edu	37	chr1	34158654	34158654	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tctcactgtccctccacactCggctgaaagaaatcccaaaa	5	15	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:34158654C>T	uc001bxn.1	-	25	3837	c.3808G>A	c.(3808-3810)GAG>AAG	p.E1270K	CSMD2_uc001bxm.1_Missense_Mutation_p.E1310K|CSMD2_uc001bxo.1_Missense_Mutation_p.E183K	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1270	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CCTCCACACTCGGCTGAAAGA	0.557													90	105	---	---	---	---	PASS	T	34158654	T	T	34158654	3	4	37	1	0	0	0	0	1	0	0	0	3945	893	31	2	6835	2	CSMD2	1	34158654	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	866268	34158654	215091967	7	14545										
CSMD2	114784	broad.mit.edu	37	chr1	34190206	34190206	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atgtgtagcccgagtcacagCtgaaggtcaccagcgcgccc	12	14	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:34190206C>T	uc001bxn.1	-	18	2704	c.2675G>A	c.(2674-2676)AGC>AAC	p.S892N	CSMD2_uc001bxm.1_Missense_Mutation_p.S932N	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	892	Sushi 5.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CGAGTCACAGCTGAAGGTCAC	0.572													33	38	---	---	---	---	PASS	T	34190206	T	T	34190206	3	4	37	1	0	0	0	0	1	0	0	0	3945	797	28	3	7996	3	CSMD2	1	34190206	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	31552	34190206	215060415	8	14546										
CSMD2	114784	broad.mit.edu	37	chr1	34190229	34190229	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaggtcaccagcgcgcccacGtagaagtcattcccatgacg	10	14	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:34190229G>C	uc001bxn.1	-	18	2681	c.2652C>G	c.(2650-2652)TAC>TAG	p.Y884*	CSMD2_uc001bxm.1_Nonsense_Mutation_p.Y924*	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	884	Sushi 5.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GCGCGCCCACGTAGAAGTCAT	0.572													36	38	---	---	---	---	PASS	C	34190229	C	C	34190229	4	2	37	1	0	0	0	0	0	1	0	0	3945	1140	40	4	8019	4	CSMD2	1	34190229	Nonsense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	23	34190229	215060392	9	14547										
COL8A2	1296	broad.mit.edu	37	chr1	36564304	36564304	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gggaccccagctgggcccctGtcccccttggggcctggcag	15	17	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:36564304G>C	uc001bzv.1	-	2	985	c.978C>G	c.(976-978)GAC>GAG	p.D326E	COL8A2_uc001bzw.1_Missense_Mutation_p.D261E	NM_005202	NP_005193	P25067	CO8A2_HUMAN	collagen, type VIII, alpha 2 precursor	326	Triple-helical region.				angiogenesis|cell-cell adhesion|extracellular matrix organization	basement membrane|collagen	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CTGGGCCCCTGTCCCCCTTGG	0.726													11	13	---	---	---	---	PASS	C	36564304	C	C	36564304	3	2	37	1	0	0	0	0	1	0	0	0	3706	1368	48	4	1137	4	COL8A2	1	36564304	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2374075	36564304	212686317	10	14548										
PTPRF	5792	broad.mit.edu	37	chr1	44069850	44069850	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atccagtcccggaccatgccGgtggagcaaggtgtgtgctg	15	11	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:44069850G>T	uc001cjr.2	+	16	3367	c.3027G>T	c.(3025-3027)CCG>CCT	p.P1009P	PTPRF_uc001cjs.2_Silent_p.P1000P|PTPRF_uc001cju.2_Intron|PTPRF_uc009vwt.2_Silent_p.P569P|PTPRF_uc001cjv.2_Silent_p.P469P|PTPRF_uc001cjw.2_Silent_p.P235P	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1009	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GGACCATGCCGGTGGAGCAAG	0.622													39	28	---	---	---	---	PASS	T	44069850	T	T	44069850	2	4	37	1	0	0	0	0	0	0	0	1	12801	1103	39	1		1	PTPRF	1	44069850	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	7505546	44069850	205180771	11	14549										
NSUN4	387338	broad.mit.edu	37	chr1	46812705	46812705	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgcttgacctatgtgcagctCctgggggaaagacactagcg	13	10	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:46812705C>T	uc001cpr.1	+	3	659	c.550C>T	c.(550-552)CCT>TCT	p.P184S	NSUN4_uc010omc.1_Missense_Mutation_p.P135S|NSUN4_uc009vyf.1_Intron|NSUN4_uc009vyg.1_Missense_Mutation_p.P135S|NSUN4_uc001cpt.1_RNA|NSUN4_uc001cps.1_RNA	NM_199044	NP_950245	Q96CB9	NSUN4_HUMAN	NOL1/NOP2/Sun domain family 4 protein	184	S-adenosyl-L-methionine binding (By similarity).						methyltransferase activity				0	Acute lymphoblastic leukemia(166;0.155)					ATGTGCAGCTCCTGGGGGAAA	0.597													42	41	---	---	---	---	PASS	T	46812705	T	T	46812705	3	4	37	1	0	0	0	0	1	0	0	0	10680	855	30	2	560	2	NSUN4	1	46812705	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2742855	46812705	202437916	12	14550										
TNNI3K	51086	broad.mit.edu	37	chr1	74832987	74832987	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agcattataagagaccacaaGatgaattgccctgtaatgaa	8	7	0	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:74832987G>T	uc001dgf.1	+	12	1276	c.1225G>T	c.(1225-1227)GAT>TAT	p.D409Y	TNNI3K_uc001dgc.1_Missense_Mutation_p.D510Y|TNNI3K_uc001dgd.2_Missense_Mutation_p.D510Y|TNNI3K_uc001dge.1_Missense_Mutation_p.D510Y	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	409	ANK 10.					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						GAGACCACAAGATGAATTGCC	0.348													60	75	---	---	---	---	PASS	T	74832987	T	T	74832987	3	4	37	1	0	0	0	0	1	0	0	0	16326	942	33	2	1626	2	TNNI3K	1	74832987	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	28020282	74832987	174417634	13	14551										
C1orf173	127254	broad.mit.edu	37	chr1	75072431	75072431	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tggctgaaacagaggttttgTtctccttgatctcatttctt	8	8	3	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:75072431T>C	uc001dgg.2	-	10	1562	c.1343A>G	c.(1342-1344)AAC>AGC	p.N448S	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.N242S	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	448	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						AGAGGTTTTGTTCTCCTTGAT	0.408													4	238	---	---	---	---	PASS	C	75072431	C	C	75072431	3	2	37	1	0	0	0	0	1	0	0	0	2014	1725	60	5	3269	5	C1orf173	1	75072431	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	239444	75072431	174178190	14	14552										
SAMD13	148418	broad.mit.edu	37	chr1	84791382	84791382	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cgtgatggatgtcgtcaattAtttccgaaccgtgggatttg	12	7	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:84791382A>G	uc001djr.2	+	3	350	c.158A>G	c.(157-159)TAT>TGT	p.Y53C	SAMD13_uc010orw.1_Missense_Mutation_p.Y39C|SAMD13_uc010orx.1_Missense_Mutation_p.Y39C	NM_001010971	NP_001010971	Q5VXD3	SAM13_HUMAN	sterile alpha motif domain containing 13 isoform	59	SAM.										0				all cancers(265;0.00667)|Epithelial(280;0.0219)|OV - Ovarian serous cystadenocarcinoma(397;0.136)		GTCGTCAATTATTTCCGAACC	0.473													38	37	---	---	---	---	PASS	G	84791382	G	G	84791382	3	3	37	1	0	0	0	0	1	0	0	0	13818	449	16	5	168	5	SAMD13	1	84791382	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	9718951	84791382	164459239	15	14553										
HFM1	164045	broad.mit.edu	37	chr1	91844640	91844640	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tggagttgtcataataatatGggcatgctgaatctcaaata	9	5	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:91844640G>T	uc001doa.3	-	9	1238	c.1138C>A	c.(1138-1140)CAT>AAT	p.H380N	HFM1_uc010osu.1_Missense_Mutation_p.H59N|HFM1_uc010osv.1_Missense_Mutation_p.H64N|HFM1_uc001doc.1_Missense_Mutation_p.H380N	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	380	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		ATAATAATATGGGCATGCTGA	0.279													31	31	---	---	---	---	PASS	T	91844640	T	T	91844640	3	4	37	1	0	0	0	0	1	0	0	0	7083	1348	47	3	3293	3	HFM1	1	91844640	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	7053258	91844640	157405981	16	14554										
LPPR4	9890	broad.mit.edu	37	chr1	99771997	99771997	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acagaagcaacagccagcccCgaatcatgcaagtcatagcc	8	14	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:99771997C>T	uc001dse.2	+	7	1829	c.1723C>T	c.(1723-1725)CGA>TGA	p.R575*	LPPR4_uc010oue.1_Nonsense_Mutation_p.R517*	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	575							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		CAGCCAGCCCCGAATCATGCA	0.552													39	41	---	---	---	---	PASS	T	99771997	T	T	99771997	4	4	37	1	0	0	0	0	0	1	0	0	8927	644	23	1	1749	1	LPPR4	1	99771997	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	7927357	99771997	149478624	17	14555										
FRRS1	391059	broad.mit.edu	37	chr1	100185123	100185123	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaggagtacagaatgggatcCtcctatgttctttggagagt	12	6	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:100185123C>A	uc001dsh.1	-	10	1689	c.1087G>T	c.(1087-1089)GGA>TGA	p.G363*		NM_001013660	NP_001013682	Q6ZNA5	FRRS1_HUMAN	stromal cell derived factor receptor 2 homolog	363	Cytochrome b561.				electron transport chain|transport	integral to membrane	ferric-chelate reductase activity|metal ion binding			skin(1)	1		all_epithelial(167;2.09e-06)|all_lung(203;0.000435)|Lung NSC(277;0.00201)		Epithelial(280;0.0718)|all cancers(265;0.126)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.206)		GAATGGGATCCTCCTATGTTC	0.398													67	70	---	---	---	---	PASS	A	100185123	A	A	100185123	4	1	37	1	0	0	0	0	0	1	0	0	6060	690	24	3	825	3	FRRS1	1	100185123	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	413126	100185123	149065498	18	14556										
CHIA	27159	broad.mit.edu	37	chr1	111854968	111854968	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cgagatcaccaccatcgaatGgaatgatgtgactctctacc	8	12	2	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:111854968G>T	uc001eas.2	+	4	315	c.212G>T	c.(211-213)TGG>TTG	p.W71L	CHIA_uc001ear.2_Intron|CHIA_uc001eaq.2_Intron|CHIA_uc009wgc.2_Intron|CHIA_uc001eat.2_Intron|CHIA_uc001eav.2_Intron|CHIA_uc001eau.2_Intron|CHIA_uc009wgd.2_Intron	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	71	Chitooligosaccharide binding (Probable).				apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		ACCATCGAATGGAATGATGTG	0.483													71	68	---	---	---	---	PASS	T	111854968	T	T	111854968	3	4	37	1	0	0	0	0	1	0	0	0	3342	1357	47	3	222	3	CHIA	1	111854968	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	11669845	111854968	137395653	19	14557										
HSD3B1	3283	broad.mit.edu	37	chr1	120054257	120054257	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttgatgtcttcggtgtcactCacagagagtctatcatgaat	9	8	5	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:120054257C>A	uc001ehv.1	+	3	422	c.277C>A	c.(277-279)CAC>AAC	p.H93N	HSD3B1_uc001ehw.2_Missense_Mutation_p.H95N	NM_000862	NP_000853	P14060	3BHS1_HUMAN	3 beta-hydroxysteroid dehydrogenase 1	93					androgen biosynthetic process|estrogen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.219)	all_lung(203;3.16e-06)|Lung NSC(69;2.19e-05)|all_epithelial(167;0.000624)		Lung(183;0.0106)|LUSC - Lung squamous cell carcinoma(189;0.0554)	NADH(DB00157)|Trilostane(DB01108)	CGGTGTCACTCACAGAGAGTC	0.507													37	50	---	---	---	---	PASS	A	120054257	A	A	120054257	3	1	37	1	0	0	0	0	1	0	0	0	7390	826	29	2	283	2	HSD3B1	1	120054257	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	8199289	120054257	129196364	20	14558										
PDE4DIP	9659	broad.mit.edu	37	chr1	144856920	144856920	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cgcaatctgctgtcttagggCactgtagtcatcaatgtggc	11	10	4	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:144856920C>T	uc001elw.3	-	40	6856	c.6565G>A	c.(6565-6567)GCC>ACC	p.A2189T	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.A2083T|PDE4DIP_uc001elv.3_Missense_Mutation_p.A1196T	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	2189					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TGTCTTAGGGCACTGTAGTCA	0.527			T	PDGFRB	MPD								21	66	---	---	---	---	PASS	T	144856920	T	T	144856920	3	4	37	1	0	0	0	0	1	0	0	0	11643	710	25	3	495	3	PDE4DIP	1	144856920	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	24802663	144856920	104393701	21	14559										
SEMA6C	10500	broad.mit.edu	37	chr1	151105867	151105867	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gacgtcggtgggcgcggcgaCaagcacaggagaccaggagg	19	10	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:151105867C>G	uc001ewu.2	-	19	2186	c.1886G>C	c.(1885-1887)TGT>TCT	p.C629S	SEMA6C_uc001ewv.2_Missense_Mutation_p.C661S|SEMA6C_uc001eww.2_Missense_Mutation_p.C621S|SEMA6C_uc010pcq.1_Intron	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	629	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GGCGCGGCGACAAGCACAGGA	0.716													24	14	---	---	---	---	PASS	G	151105867	G	G	151105867	3	3	37	1	0	0	0	0	1	0	0	0	14041	478	17	4	910	4	SEMA6C	1	151105867	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	6248947	151105867	98144754	22	14560										
LELP1	149018	broad.mit.edu	37	chr1	153177230	153177230	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaatgaccccaagactgagcCcaagaactgcgatcccaagt	8	13	0	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:153177230C>G	uc001fbl.2	+	2	157	c.47C>G	c.(46-48)CCC>CGC	p.P16R		NM_001010857	NP_001010857	Q5T871	LELP1_HUMAN	late cornified envelope-like proline-rich 1	16										ovary(1)	1	all_lung(78;3.51e-31)|Lung NSC(65;1.34e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			AAGACTGAGCCCAAGAACTGC	0.448													151	150	---	---	---	---	PASS	G	153177230	G	G	153177230	3	3	37	1	0	0	0	0	1	0	0	0	8718	623	22	4	49	4	LELP1	1	153177230	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2071363	153177230	96073391	23	14561										
S100A3	6274	broad.mit.edu	37	chr1	153520929	153520929	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tcctggaaggtgcacacgatGgcagctaccgcctgctccag	12	14	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:153520929G>A	uc001fca.1	-	2	116	c.33C>T	c.(31-33)GCC>GCT	p.A11A	S100A4_uc001fby.2_5'Flank|S100A4_uc001fbz.2_5'Flank|uc009wog.1_RNA	NM_002960	NP_002951	P33764	S10A3_HUMAN	S100 calcium binding protein A3	11							calcium ion binding|protein binding				0	all_lung(78;5.98e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGCACACGATGGCAGCTACCG	0.622													185	179	---	---	---	---	PASS	A	153520929	A	A	153520929	2	1	37	1	0	0	0	0	0	0	0	1	13779	1335	47	3		3	S100A3	1	153520929	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	343699	153520929	95729692	24	14562										
OR6Y1	391112	broad.mit.edu	37	chr1	158517052	158517052	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tggaacaatgacagtgtagaGaacagataccactttgttgg	11	6	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:158517052G>T	uc010pil.1	-	1	844	c.844C>A	c.(844-846)CTC>ATC	p.L282I		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	282	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					ACAGTGTAGAGAACAGATACC	0.453													27	289	---	---	---	---	PASS	T	158517052	T	T	158517052	3	4	37	1	0	0	0	0	1	0	0	0	11213	942	33	2	135	2	OR6Y1	1	158517052	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	4996123	158517052	90733569	25	14563										
SPTA1	6708	broad.mit.edu	37	chr1	158590027	158590027	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctgttaaccaggtataagggCtggaaggcacacctaaggcc	12	10	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:158590027C>A	uc001fst.1	-	44	6549	c.6350G>T	c.(6349-6351)AGC>ATC	p.S2117I		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2117	Spectrin 20.				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)					GGTATAAGGGCTGGAAGGCAC	0.507													62	178	---	---	---	---	PASS	A	158590027	A	A	158590027	3	1	37	1	0	0	0	0	1	0	0	0	15115	797	28	3	945	3	SPTA1	1	158590027	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	72975	158590027	90660594	26	14564										
SPTA1	6708	broad.mit.edu	37	chr1	158609675	158609675	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	attacctctgagagccagaaCtcaaagtcccggatgcttgt	9	11	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:158609675C>A	uc001fst.1	-	34	5059	c.4860G>T	c.(4858-4860)GAG>GAT	p.E1620D		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1620	Spectrin 16.				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)					AGAGCCAGAACTCAAAGTCCC	0.438													76	270	---	---	---	---	PASS	A	158609675	A	A	158609675	3	1	37	1	0	0	0	0	1	0	0	0	15115	564	20	3	2475	3	SPTA1	1	158609675	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	19648	158609675	90640946	27	14565										
SPTA1	6708	broad.mit.edu	37	chr1	158612629	158612629	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgttagtggcgtctttgtagGattcatcacaggctgtgggc	14	7	3	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:158612629G>T	uc001fst.1	-	32	4779	c.4580C>A	c.(4579-4581)TCC>TAC	p.S1527Y		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1527	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)					GTCTTTGTAGGATTCATCACA	0.443													75	241	---	---	---	---	PASS	T	158612629	T	T	158612629	3	4	37	1	0	0	0	0	1	0	0	0	15115	1174	41	2	2763	2	SPTA1	1	158612629	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2954	158612629	90637992	28	14566										
PYHIN1	149628	broad.mit.edu	37	chr1	158906870	158906870	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cttgatggaggaaaagttccCaggtgatgccggtttgggca	15	7	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:158906870C>T	uc001ftb.2	+	2	415	c.170C>T	c.(169-171)CCA>CTA	p.P57L	PYHIN1_uc001fta.3_Missense_Mutation_p.P57L|PYHIN1_uc001ftc.2_Missense_Mutation_p.P57L|PYHIN1_uc001ftd.2_Missense_Mutation_p.P57L|PYHIN1_uc001fte.2_Missense_Mutation_p.P57L	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	57	DAPIN.				cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					GAAAAGTTCCCAGGTGATGCC	0.348													89	96	---	---	---	---	PASS	T	158906870	T	T	158906870	3	4	37	1	0	0	0	0	1	0	0	0	12865	594	21	3	172	3	PYHIN1	1	158906870	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	294241	158906870	90343751	29	14567										
FCGR2B	2213	broad.mit.edu	37	chr1	161642908	161642908	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agaaattttcccgttcggatCccaacttctccatcccacaa	4	15	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:161642908C>A	uc001gaz.1	+	4	627	c.535C>A	c.(535-537)CCC>ACC	p.P179T	FCGR2B_uc009wum.1_Missense_Mutation_p.P179T|FCGR2B_uc001gay.1_Missense_Mutation_p.P178T|FCGR2B_uc001gba.1_Missense_Mutation_p.P178T|FCGR2B_uc001gbb.1_Missense_Mutation_p.P179T|FCGR2B_uc009wun.1_Missense_Mutation_p.P172T	NM_004001	NP_003992	P31994	FCG2B_HUMAN	Fc fragment of IgG, low affinity IIb, receptor	179	Ig-like C2-type 2.|Extracellular (Potential).				immune response|interspecies interaction between organisms|regulation of immune response	integral to membrane|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCGTTCGGATCCCAACTTCTC	0.493			T	?	ALL								16	77	---	---	---	---	PASS	A	161642908	A	A	161642908	3	1	37	1	0	0	0	0	1	0	0	0	5782	855	30	2	549	2	FCGR2B	1	161642908	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2736038	161642908	87607713	30	14568										
DNM3	26052	broad.mit.edu	37	chr1	172007553	172007553	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acatgaagtagaagcctacaAaaatttcaaaccagaagacc	6	9	1	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:172007553A>G	uc001gie.2	+	7	1120	c.944A>G	c.(943-945)AAA>AGA	p.K315R	DNM3_uc001gid.3_Missense_Mutation_p.K315R|DNM3_uc009wwb.2_Missense_Mutation_p.K315R|DNM3_uc001gif.2_Missense_Mutation_p.K315R	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	315					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						GAAGCCTACAAAAATTTCAAA	0.418													156	143	---	---	---	---	PASS	G	172007553	G	G	172007553	3	3	37	1	0	0	0	0	1	0	0	0	4673	14	1	5	970	5	DNM3	1	172007553	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	10364645	172007553	77243068	31	14569										
PAPPA2	60676	broad.mit.edu	37	chr1	176659333	176659333	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccacaccgacaccatgatccAtgaagtgggacatgttctgg	10	12	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:176659333A>G	uc001gkz.2	+	5	3362	c.2198A>G	c.(2197-2199)CAT>CGT	p.H733R	PAPPA2_uc001gky.1_Missense_Mutation_p.H733R|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	733	Metalloprotease.	Zinc; catalytic (By similarity).			cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						ACCATGATCCATGAAGTGGGA	0.483													160	158	---	---	---	---	PASS	G	176659333	G	G	176659333	3	3	37	1	0	0	0	0	1	0	0	0	11433	217	8	5	2212	5	PAPPA2	1	176659333	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	4651780	176659333	72591288	32	14570										
PAPPA2	60676	broad.mit.edu	37	chr1	176671778	176671778	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acagatgtatcagtaccaagTtctagctgaagctggaggag	12	7	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:176671778T>A	uc001gkz.2	+	9	4436	c.3272T>A	c.(3271-3273)GTT>GAT	p.V1091D	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1091					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CAGTACCAAGTTCTAGCTGAA	0.512													70	58	---	---	---	---	PASS	A	176671778	A	A	176671778	3	1	37	1	0	0	0	0	1	0	0	0	11433	1725	60	5	3355	5	PAPPA2	1	176671778	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	12445	176671778	72578843	33	14571										
GLT25D2	23127	broad.mit.edu	37	chr1	183942789	183942789	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagaaattagaatacaggccCcgagactccagcatgggggc	12	11	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:183942789C>G	uc001gqr.2	-	4	960	c.588G>C	c.(586-588)CGG>CGC	p.R196R	GLT25D2_uc010poj.1_Silent_p.R196R|GLT25D2_uc001gqs.2_Silent_p.R76R	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	196					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						AATACAGGCCCCGAGACTCCA	0.438													49	344	---	---	---	---	PASS	G	183942789	G	G	183942789	2	3	37	1	0	0	0	0	0	0	0	1	6467	610	22	4		4	GLT25D2	1	183942789	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	7271011	183942789	65307832	34	14572										
FAM129A	116496	broad.mit.edu	37	chr1	184859326	184859326	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gccaccggctggaagaattcGacatttaggagcagctcctc	11	12	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:184859326G>T	uc001gra.2	-	4	543	c.349C>A	c.(349-351)CGA>AGA	p.R117R	FAM129A_uc009wyh.1_Intron|FAM129A_uc009wyi.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	117					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						GGAAGAATTCGACATTTAGGA	0.448													28	85	---	---	---	---	PASS	T	184859326	T	T	184859326	2	4	37	1	0	0	0	0	0	0	0	1	5436	1066	37	2		2	FAM129A	1	184859326	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	916537	184859326	64391295	35	14573										
KCNT2	343450	broad.mit.edu	37	chr1	196448338	196448338	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aagataaccaagtaatattgTttcaaacagacttatcaatg	5	6	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:196448338T>A	uc001gtd.1	-	5	415	c.355A>T	c.(355-357)ACA>TCA	p.T119S	KCNT2_uc001gte.1_Missense_Mutation_p.T119S|KCNT2_uc001gtf.1_Missense_Mutation_p.T119S|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.T119S|KCNT2_uc009wyv.1_Missense_Mutation_p.T119S	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	119	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						AGTAATATTGTTTCAAACAGA	0.284													13	126	---	---	---	---	PASS	A	196448338	A	A	196448338	3	1	37	1	0	0	0	0	1	0	0	0	8092	1725	60	5	3148	5	KCNT2	1	196448338	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	11589012	196448338	52802283	36	14574										
F13B	2165	broad.mit.edu	37	chr1	197030958	197030958	+	Missense_Mutation	SNP	A	T	T													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gagaagaccatccatcagagAgacattgaaccacttcttca							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:197030958A>T	uc001gtt.1	-	3	451	c.407T>A	c.(406-408)CTC>CAC	p.L136H		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	136	Sushi 2.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TCCATCAGAGAGACATTGAAC	0.373													33	128	---	---	---	---	PASS	T	197030958	T	T	197030958	3	4	37	1	0	0	0	0	1	0	0	0	5341	304	11	5	1618	5	F13B	1	197030958	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	582620	197030958	52219663	37	14575	372	2								
F13B	2165	broad.mit.edu	37	chr1	197030959	197030959	+	Missense_Mutation	SNP	G	A	A													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agaagaccatccatcagagaGacattgaaccacttcttcat							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:197030959G>A	uc001gtt.1	-	3	450	c.406C>T	c.(406-408)CTC>TTC	p.L136F		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	136	Sushi 2.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CCATCAGAGAGACATTGAACC	0.373													33	131	---	---	---	---	PASS	A	197030959	A	A	197030959	3	1	37	1	0	0	0	0	1	0	0	0	5341	942	33	2	1619	2	F13B	1	197030959	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1	197030959	52219662	38	14576	372	2								
CRB1	23418	broad.mit.edu	37	chr1	197390734	197390734	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tcctgtaaggagaaatgcatCgcgaaagctcctactccact	8	12	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:197390734C>G	uc001gtz.2	+	6	1911	c.1776C>G	c.(1774-1776)ATC>ATG	p.I592M	CRB1_uc010poz.1_Missense_Mutation_p.I523M|CRB1_uc010ppa.1_Intron|CRB1_uc009wza.2_Missense_Mutation_p.I480M|CRB1_uc010ppb.1_Missense_Mutation_p.I592M|CRB1_uc010ppc.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.I73M|CRB1_uc001gub.1_Missense_Mutation_p.I241M	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	592	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						AGAAATGCATCGCGAAAGCTC	0.468													60	206	---	---	---	---	PASS	G	197390734	G	G	197390734	3	3	37	1	0	0	0	0	1	0	0	0	3848	874	31	2	1798	2	CRB1	1	197390734	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	359775	197390734	51859887	39	14577										
CRB1	23418	broad.mit.edu	37	chr1	197407761	197407761	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggcaactgcacagagttccaGactgaattaaaatgtatgtg	10	7	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:197407761G>T	uc001gtz.2	+	10	3969	c.3834G>T	c.(3832-3834)CAG>CAT	p.Q1278H	CRB1_uc010poz.1_Missense_Mutation_p.Q1254H|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.Q1166H|CRB1_uc010ppb.1_Missense_Mutation_p.Q742H|CRB1_uc010ppd.1_Missense_Mutation_p.Q759H|CRB1_uc001gub.1_Missense_Mutation_p.Q927H	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1278	Extracellular (Potential).|EGF-like 18.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						CAGAGTTCCAGACTGAATTAA	0.433													86	102	---	---	---	---	PASS	T	197407761	T	T	197407761	3	4	37	1	0	0	0	0	1	0	0	0	3848	933	33	2	3872	2	CRB1	1	197407761	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	17027	197407761	51842860	40	14578										
USH2A	7399	broad.mit.edu	37	chr1	216219889	216219889	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggttccaggagagcagcaaaGaactgggaagggatttggct	16	6	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:216219889G>T	uc001hku.1	-	32	6596	c.6209C>A	c.(6208-6210)TCT>TAT	p.S2070Y		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2070	Extracellular (Potential).|Fibronectin type-III 7.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GAGCAGCAAAGAACTGGGAAG	0.423										HNSCC(13;0.011)			67	86	---	---	---	---	PASS	T	216219889	T	T	216219889	3	4	37	1	0	0	0	0	1	0	0	0	17033	942	33	2	9563	2	USH2A	1	216219889	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	18812128	216219889	33030732	41	14579										
PSEN2	5664	broad.mit.edu	37	chr1	227079483	227079483	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttttggggagccttcataccCcgaagtctttgagcctccct	9	13	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:227079483C>T	uc009xeo.1	+	11	1437	c.1010C>T	c.(1009-1011)CCC>CTC	p.P337L	PSEN2_uc009xep.1_Missense_Mutation_p.P336L|PSEN2_uc001hqk.2_RNA	NM_000447	NP_000438	P49810	PSN2_HUMAN	presenilin 2 isoform 1	337	Cytoplasmic (Potential).				amyloid precursor protein catabolic process|anti-apoptosis|apoptosis|beta-amyloid metabolic process|calcium ion transport|induction of apoptosis by extracellular signals|intracellular signal transduction|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear inner membrane|perinuclear region of cytoplasm|Z disc	aspartic-type endopeptidase activity|protein binding			lung(2)	2		Prostate(94;0.0771)				CCTTCATACCCCGAAGTCTTT	0.552													44	102	---	---	---	---	PASS	T	227079483	T	T	227079483	3	4	37	1	0	0	0	0	1	0	0	0	12651	623	22	3	1040	3	PSEN2	1	227079483	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	10859594	227079483	22171138	42	14580										
RYR2	6262	broad.mit.edu	37	chr1	237550610	237550610	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tatggcaacggcagcttacaCgtggatgccgctttccagca	11	12	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:237550610C>T	uc001hyl.1	+	9	726	c.606C>T	c.(604-606)CAC>CAT	p.H202H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	202	Cytoplasmic (By similarity).|MIR 2.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GCAGCTTACACGTGGATGCCG	0.512													35	123	---	---	---	---	PASS	T	237550610	T	T	237550610	2	4	37	1	0	0	0	0	0	0	0	1	13769	535	19	1		1	RYR2	1	237550610	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	10471127	237550610	11700011	43	14581										
RYR2	6262	broad.mit.edu	37	chr1	237604660	237604660	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agaaaagaagtagatggcatGggaacatctgaaataaaata	10	3	1	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:237604660G>C	uc001hyl.1	+	13	1167	c.1047G>C	c.(1045-1047)ATG>ATC	p.M349I		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	349	Cytoplasmic (By similarity).				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)			TAGATGGCATGGGAACATCTG	0.403													46	121	---	---	---	---	PASS	C	237604660	C	C	237604660	3	2	37	1	0	0	0	0	1	0	0	0	13769	1348	47	4	1097	4	RYR2	1	237604660	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	54050	237604660	11645961	44	14582										
RYR2	6262	broad.mit.edu	37	chr1	237804280	237804280	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agctttgattgacctcttggGacgctgtgctcctgagatgc	12	10	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:237804280G>T	uc001hyl.1	+	47	7319	c.7199G>T	c.(7198-7200)GGA>GTA	p.G2400V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2400	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GACCTCTTGGGACGCTGTGCT	0.453													20	31	---	---	---	---	PASS	T	237804280	T	T	237804280	3	4	37	1	0	0	0	0	1	0	0	0	13769	1174	41	2	7385	2	RYR2	1	237804280	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	199620	237804280	11446341	45	14583										
RYR2	6262	broad.mit.edu	37	chr1	237872795	237872795	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tccagggcaaagtggctaaaGgagcctaacccagaagcaga	12	10	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:237872795G>C	uc001hyl.1	+	70	10278	c.10158G>C	c.(10156-10158)AAG>AAC	p.K3386N	RYR2_uc010pxz.1_Missense_Mutation_p.K341N	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3386					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)			AGTGGCTAAAGGAGCCTAACC	0.403													15	37	---	---	---	---	PASS	C	237872795	C	C	237872795	3	2	37	1	0	0	0	0	1	0	0	0	13769	991	35	4	10436	4	RYR2	1	237872795	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	68515	237872795	11377826	46	14584										
RGS7	6000	broad.mit.edu	37	chr1	240966240	240966240	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agaagctcctgataggcactGgatcttataaaacgtgggta	11	7	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:240966240G>T	uc001hyv.2	-	16	1653	c.1323C>A	c.(1321-1323)TCC>TCA	p.S441S	RGS7_uc010pyh.1_Silent_p.S415S|RGS7_uc010pyj.1_Silent_p.S357S|RGS7_uc001hyu.2_Silent_p.S441S|RGS7_uc009xgn.1_Silent_p.S388S|RGS7_uc001hyw.2_Silent_p.S441S|RGS7_uc001hyt.2_Silent_p.S273S	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	441	RGS.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			GATAGGCACTGGATCTTATAA	0.348													78	208	---	---	---	---	PASS	T	240966240	T	T	240966240	2	4	37	1	0	0	0	0	0	0	0	1	13310	1335	47	3		3	RGS7	1	240966240	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	3093445	240966240	8284381	47	14585										
WDR64	128025	broad.mit.edu	37	chr1	241929537	241929537	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagaatcccaccatggatttAttacgagtgaactgcattga	8	9	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:241929537A>G	uc001hzf.1	+	10	1248	c.1095A>G	c.(1093-1095)TTA>TTG	p.L365L	WDR64_uc001hzg.1_Silent_p.L111L	NM_144625	NP_653226	B1ANS9	WDR64_HUMAN	WD repeat domain 64	645	WD 9.									skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			CCATGGATTTATTACGAGTGA	0.368													69	108	---	---	---	---	PASS	G	241929537	G	G	241929537	2	3	37	1	0	0	0	0	0	0	0	1	17312	446	16	5		5	WDR64	1	241929537	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	963297	241929537	7321084	48	14586										
OR11L1	391189	broad.mit.edu	37	chr1	248004961	248004961	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagcaggttggctaggagaaGgggcacagtggtggacgtgt	19	6	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:248004961G>A	uc001idn.1	-	1	238	c.238C>T	c.(238-240)CTT>TTT	p.L80F		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	80	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GCTAGGAGAAGGGGCACAGTG	0.592													23	36	---	---	---	---	PASS	A	248004961	A	A	248004961	3	1	37	1	0	0	0	0	1	0	0	0	10930	1000	35	3	734	3	OR11L1	1	248004961	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	6075424	248004961	1245660	49	14587										
OR11L1	391189	broad.mit.edu	37	chr1	248005047	248005047	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gggagtgcagtcgcaggcccTggctcaccacggtgatgatg	16	11	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:248005047T>G	uc001idn.1	-	1	152	c.152A>C	c.(151-153)CAG>CCG	p.Q51P		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	51	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TCGCAGGCCCTGGCTCACCAC	0.532													16	51	---	---	---	---	PASS	G	248005047	G	G	248005047	3	3	37	1	0	0	0	0	1	0	0	0	10930	1580	55	5	820	5	OR11L1	1	248005047	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	86	248005047	1245574	50	14588										
TRIM58	25893	broad.mit.edu	37	chr1	248023976	248023976	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agttggaggacgccttgactCaggaggccaacgtggggaaa	16	8	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:248023976C>A	uc001ido.2	+	2	526	c.478C>A	c.(478-480)CAG>AAG	p.Q160K		NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	160						intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CGCCTTGACTCAGGAGGCCAA	0.488													34	45	---	---	---	---	PASS	A	248023976	A	A	248023976	3	1	37	1	0	0	0	0	1	0	0	0	16528	827	29	2	484	2	TRIM58	1	248023976	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	18929	248023976	1226645	51	14589										
OR2T8	343172	broad.mit.edu	37	chr1	248085122	248085122	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atcccacaggtccactaaccAcgacaaggttgtgtcagcct	8	14	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:248085122A>T	uc010pzc.1	+	1	803	c.803A>T	c.(802-804)CAC>CTC	p.H268L		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TCCACTAACCACGACAAGGTT	0.493													97	142	---	---	---	---	PASS	T	248085122	T	T	248085122	3	4	37	1	0	0	0	0	1	0	0	0	11030	159	6	5	805	5	OR2T8	1	248085122	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	61146	248085122	1165499	52	14590										
OR2L8	391190	broad.mit.edu	37	chr1	248112396	248112396	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atctccaccattgttcctaaGatggcatctgattttctgca	6	11	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:248112396G>T	uc001idt.1	+	1	237	c.237G>T	c.(235-237)AAG>AAT	p.K79N	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	79	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TTGTTCCTAAGATGGCATCTG	0.448													9	645	---	---	---	---	PASS	T	248112396	T	T	248112396	3	4	37	1	0	0	0	0	1	0	0	0	11009	933	33	2	239	2	OR2L8	1	248112396	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	27274	248112396	1138225	53	14591										
OR2G6	391211	broad.mit.edu	37	chr1	248685795	248685795	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tttctataccatagtcacccCacttttaaaccccattatct	1	14	3	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr1:248685795C>A	uc001ien.1	+	1	848	c.848C>A	c.(847-849)CCA>CAA	p.P283Q		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATAGTCACCCCACTTTTAAAC	0.438													56	117	---	---	---	---	PASS	A	248685795	A	A	248685795	3	1	37	1	0	0	0	0	1	0	0	0	11000	594	21	3	850	3	OR2G6	1	248685795	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	573399	248685795	564826	54	14592										
KCNS3	3790	broad.mit.edu	37	chr2	18112791	18112791	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagctccggaagaaaatctgGattagaatggagaatccagc	11	8	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:18112791G>T	uc002rcv.2	+	3	967	c.516G>T	c.(514-516)TGG>TGT	p.W172C	KCNS3_uc002rcw.2_Missense_Mutation_p.W172C	NM_002252	NP_002243	Q9BQ31	KCNS3_HUMAN	potassium voltage-gated channel	172	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					AGAAAATCTGGATTAGAATGG	0.507													27	50	---	---	---	---	PASS	T	18112791	T	T	18112791	3	4	37	1	0	0	0	0	1	0	0	0	8090	1183	41	2	518	2	KCNS3	2	18112791	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08		18112791	225086582	55	14593										
APOB	338	broad.mit.edu	37	chr2	21230128	21230128	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tttttttcaaaatgcctgtcAaaggatttgatgctctgact	7	7	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:21230128A>T	uc002red.2	-	26	9740	c.9612T>A	c.(9610-9612)TTT>TTA	p.F3204L		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3204	Heparin-binding.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AATGCCTGTCAAAGGATTTGA	0.318													23	106	---	---	---	---	PASS	T	21230128	T	T	21230128	3	4	37	1	0	0	0	0	1	0	0	0	785	127	5	5	4095	5	APOB	2	21230128	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	3117337	21230128	221969245	56	14594										
NCOA1	8648	broad.mit.edu	37	chr2	24930139	24930139	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gaaatgattcaatctgacaaCagctctagtgatggcaaacc	8	9	3	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:24930139C>G	uc002rfk.2	+	11	2058	c.1800C>G	c.(1798-1800)AAC>AAG	p.N600K	NCOA1_uc010eye.2_Missense_Mutation_p.N600K|NCOA1_uc002rfi.2_Missense_Mutation_p.N449K|NCOA1_uc002rfj.2_Missense_Mutation_p.N600K|NCOA1_uc002rfl.2_Missense_Mutation_p.N600K	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	600	Ser-rich.								PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AATCTGACAACAGCTCTAGTG	0.378			T	PAX3	alveolar rhadomyosarcoma								38	90	---	---	---	---	PASS	G	24930139	G	G	24930139	3	3	37	1	0	0	0	0	1	0	0	0	10228	477	17	4	1834	4	NCOA1	2	24930139	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	3700011	24930139	218269234	57	14595										
NCOA1	8648	broad.mit.edu	37	chr2	24974895	24974895	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	actttgctccatctctaagcCctgggagctccatggtgccg	10	14	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:24974895C>A	uc002rfk.2	+	18	4009	c.3751C>A	c.(3751-3753)CCT>ACT	p.P1251T	NCOA1_uc010eye.2_Missense_Mutation_p.P1251T|NCOA1_uc002rfi.2_Missense_Mutation_p.P1100T|NCOA1_uc002rfj.2_Missense_Mutation_p.P1251T|NCOA1_uc002rfl.2_Missense_Mutation_p.P1251T|NCOA1_uc010eyf.2_Missense_Mutation_p.P144T	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	1251									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATCTCTAAGCCCTGGGAGCTC	0.473			T	PAX3	alveolar rhadomyosarcoma								57	123	---	---	---	---	PASS	A	24974895	A	A	24974895	3	1	37	1	0	0	0	0	1	0	0	0	10228	623	22	3	3813	3	NCOA1	2	24974895	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	44756	24974895	218224478	58	14596										
FAM179A	165186	broad.mit.edu	37	chr2	29222153	29222153	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aagctggacaccccttccaaGggctggcaggcaaggaatgg	14	11	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:29222153G>C	uc010ezl.2	+	4	597	c.246G>C	c.(244-246)AAG>AAC	p.K82N	FAM179A_uc010ymm.1_Missense_Mutation_p.K82N	NM_199280	NP_954974	Q6ZUX3	F179A_HUMAN	hypothetical protein LOC165186	82							binding			ovary(3)|skin(1)	4						CCCCTTCCAAGGGCTGGCAGG	0.632													11	34	---	---	---	---	PASS	C	29222153	C	C	29222153	3	2	37	1	0	0	0	0	1	0	0	0	5505	991	35	4	256	4	FAM179A	2	29222153	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	4247258	29222153	213977220	59	14597										
ALK	238	broad.mit.edu	37	chr2	29754882	29754882	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gagggctgcaggtgcctgtgCaccgagacggccagtgtgca	17	11	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:29754882C>A	uc002rmy.2	-	4	1960	c.1053G>T	c.(1051-1053)GTG>GTT	p.V351V		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	351	MAM 1.|Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	GGTGCCTGTGCACCGAGACGG	0.597			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				52	94	---	---	---	---	PASS	A	29754882	A	A	29754882	2	1	37	1	0	0	0	0	0	0	0	1	525	697	25	3		3	ALK	2	29754882	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	532729	29754882	213444491	60	14598										
SLC8A1	6546	broad.mit.edu	37	chr2	40656957	40656957	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgaagttatggccacacactTcaattactgaaaggagaatc	8	8	1	3	rs34034084		TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:40656957T>C	uc002rrx.2	-	1	488	c.464A>G	c.(463-465)GAA>GGA	p.E155G	SLC8A1_uc002rry.2_Missense_Mutation_p.E155G|SLC8A1_uc002rrz.2_Missense_Mutation_p.E155G|SLC8A1_uc002rsa.2_Missense_Mutation_p.E155G|SLC8A1_uc002rsd.3_Missense_Mutation_p.E155G|SLC8A1_uc002rsb.1_Missense_Mutation_p.E155G|SLC8A1_uc010fan.1_Missense_Mutation_p.E155G|SLC8A1_uc002rsc.1_Missense_Mutation_p.E155G	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	155	Helical; (Potential).|Alpha-1.				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	GCCACACACTTCAATTACTGA	0.458													6	130	---	---	---	---	PASS	C	40656957	C	C	40656957	3	2	37	1	0	0	0	0	1	0	0	0	14706	1783	62	5	2605	5	SLC8A1	2	40656957	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	10902075	40656957	202542416	61	14599										
PLEKHH2	130271	broad.mit.edu	37	chr2	43871901	43871901	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	actcatgaaatttagagttcAagcaagcaagatacgagagc	9	7	2	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:43871901A>G	uc010yny.1	+	2	172	c.89A>G	c.(88-90)CAA>CGA	p.Q30R	PLEKHH2_uc002rte.3_Missense_Mutation_p.Q30R|PLEKHH2_uc002rtf.3_Missense_Mutation_p.Q30R	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	30	Potential.					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TTTAGAGTTCAAGCAAGCAAG	0.393													28	86	---	---	---	---	PASS	G	43871901	G	G	43871901	3	3	37	1	0	0	0	0	1	0	0	0	12077	130	5	5	91	5	PLEKHH2	2	43871901	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	3214944	43871901	199327472	62	14600										
PREPL	9581	broad.mit.edu	37	chr2	44573523	44573523	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gttttcttgtttaacaggctGaagatcctggaaaaagtttt	9	5	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:44573523G>T	uc002ruf.2	-	2	261	c.226C>A	c.(226-228)CAG>AAG	p.Q76K	PREPL_uc002rug.2_Missense_Mutation_p.Q76K|PREPL_uc002ruh.2_Missense_Mutation_p.Q76K|PREPL_uc010fax.2_Missense_Mutation_p.Q76K|PREPL_uc002rui.3_5'UTR|PREPL_uc002ruj.1_5'UTR|PREPL_uc002ruk.1_Missense_Mutation_p.Q76K	NM_006036	NP_006027	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like isoform C	76					proteolysis	cytosol	serine-type endopeptidase activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TTAACAGGCTGAAGATCCTGG	0.318													4	175	---	---	---	---	PASS	T	44573523	T	T	44573523	3	4	37	1	0	0	0	0	1	0	0	0	12475	1299	45	2	2009	2	PREPL	2	44573523	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	701622	44573523	198625850	63	14601										
DYSF	8291	broad.mit.edu	37	chr2	71740931	71740931	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gatcaaagcggaggcccgggGgctcccaccaccccaaggaa	13	15	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:71740931G>T	uc002sie.2	+	6	919	c.543G>T	c.(541-543)GGG>GGT	p.G181G	DYSF_uc010feg.2_Silent_p.G212G|DYSF_uc010feh.2_Silent_p.G181G|DYSF_uc002sig.3_Silent_p.G181G|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.G181G|DYSF_uc010fef.2_Silent_p.G212G|DYSF_uc010fei.2_Silent_p.G212G|DYSF_uc010fek.2_Silent_p.G213G|DYSF_uc010fej.2_Silent_p.G182G|DYSF_uc010fel.2_Silent_p.G182G|DYSF_uc010feo.2_Silent_p.G213G|DYSF_uc010fem.2_Silent_p.G182G|DYSF_uc010fen.2_Silent_p.G213G|DYSF_uc002sif.2_Silent_p.G182G	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	181	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GAGGCCCGGGGGCTCCCACCA	0.592													34	64	---	---	---	---	PASS	T	71740931	T	T	71740931	2	4	37	1	0	0	0	0	0	0	0	1	4859	1219	43	3		3	DYSF	2	71740931	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	27167408	71740931	171458442	64	14602										
DYSF	8291	broad.mit.edu	37	chr2	71795349	71795349	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gttgggaactggggcacaacGggcctcacctaccccaagtt	12	13	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:71795349G>C	uc002sie.2	+	26	3067	c.2691G>C	c.(2689-2691)ACG>ACC	p.T897T	DYSF_uc010feg.2_Silent_p.T928T|DYSF_uc010feh.2_Silent_p.T883T|DYSF_uc002sig.3_Silent_p.T883T|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.T897T|DYSF_uc010fef.2_Silent_p.T914T|DYSF_uc010fei.2_Silent_p.T914T|DYSF_uc010fek.2_Silent_p.T915T|DYSF_uc010fej.2_Silent_p.T884T|DYSF_uc010fel.2_Silent_p.T884T|DYSF_uc010feo.2_Silent_p.T929T|DYSF_uc010fem.2_Silent_p.T898T|DYSF_uc010fen.2_Silent_p.T915T|DYSF_uc002sif.2_Silent_p.T898T	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	897	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GGGGCACAACGGGCCTCACCT	0.607													136	310	---	---	---	---	PASS	C	71795349	C	C	71795349	2	2	37	1	0	0	0	0	0	0	0	1	4859	1103	39	4		4	DYSF	2	71795349	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	54418	71795349	171404024	65	14603										
LRRTM4	80059	broad.mit.edu	37	chr2	77745694	77745694	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agaggatcatggccactgagAgaaagagagccacactcccg	12	11	1	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:77745694A>T	uc002snr.2	-	3	1716	c.1301T>A	c.(1300-1302)CTC>CAC	p.L434H	LRRTM4_uc002snq.2_Missense_Mutation_p.L434H|LRRTM4_uc002sns.2_Missense_Mutation_p.L434H|LRRTM4_uc002snt.2_Missense_Mutation_p.L435H	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	434	Helical; (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GGCCACTGAGAGAAAGAGAGC	0.502													39	84	---	---	---	---	PASS	T	77745694	T	T	77745694	3	4	37	1	0	0	0	0	1	0	0	0	9042	304	11	5	485	5	LRRTM4	2	77745694	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	5950345	77745694	165453679	66	14604										
LRRTM4	80059	broad.mit.edu	37	chr2	77746911	77746911	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gggcaagctctctgagcaccCgtgagcataacaagcagcag	12	12	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:77746911C>A	uc002snr.2	-	3	499	c.84G>T	c.(82-84)ACG>ACT	p.T28T	LRRTM4_uc002snq.2_Silent_p.T28T|LRRTM4_uc002sns.2_Silent_p.T28T|LRRTM4_uc002snt.2_Silent_p.T29T	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	28						integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TCTGAGCACCCGTGAGCATAA	0.448													19	56	---	---	---	---	PASS	A	77746911	A	A	77746911	2	1	37	1	0	0	0	0	0	0	0	1	9042	639	23	1		1	LRRTM4	2	77746911	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	1217	77746911	165452462	67	14605										
CTNNA2	1496	broad.mit.edu	37	chr2	79971682	79971682	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tctcaaagaagagttggtggCtgctgtagaggatgtgcgca	15	6	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:79971682C>A	uc010ysh.1	+	2	277	c.272C>A	c.(271-273)GCT>GAT	p.A91D	CTNNA2_uc010yse.1_Missense_Mutation_p.A91D|CTNNA2_uc010ysf.1_Missense_Mutation_p.A91D|CTNNA2_uc010ysg.1_Missense_Mutation_p.A91D	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	91					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GAGTTGGTGGCTGCTGTAGAG	0.433													20	51	---	---	---	---	PASS	A	79971682	A	A	79971682	3	1	37	1	0	0	0	0	1	0	0	0	4013	797	28	3	278	3	CTNNA2	2	79971682	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2224771	79971682	163227691	68	14606										
CTNNA2	1496	broad.mit.edu	37	chr2	80136740	80136740	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aataagattatcctggacccCatgacgttcagcgaggccag	10	11	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:80136740C>G	uc010ysh.1	+	6	878	c.873C>G	c.(871-873)CCC>CCG	p.P291P	CTNNA2_uc010yse.1_Silent_p.P291P|CTNNA2_uc010ysf.1_Silent_p.P291P|CTNNA2_uc010ysg.1_Silent_p.P291P	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	291					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TCCTGGACCCCATGACGTTCA	0.552													47	112	---	---	---	---	PASS	G	80136740	G	G	80136740	2	3	37	1	0	0	0	0	0	0	0	1	4013	581	21	4		4	CTNNA2	2	80136740	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	165058	80136740	163062633	69	14607										
ANKRD36B	57730	broad.mit.edu	37	chr2	98177143	98177143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	attacctgtcccagatatagGtccctcctttatttctgtgg	7	11	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:98177143G>T	uc010yvc.1	-	8	1130	c.850C>A	c.(850-852)CCT>ACT	p.P284T	ANKRD36B_uc010yve.1_RNA|ANKRD36B_uc010fif.2_RNA	NM_025190	NP_079466	Q8N2N9	AN36B_HUMAN	ankyrin repeat domain 36B	284											0						CCAGATATAGGTCCCTCCTTT	0.313													41	133	---	---	---	---	PASS	T	98177143	T	T	98177143	3	4	37	1	0	0	0	0	1	0	0	0	666	1261	44	3	3355	3	ANKRD36B	2	98177143	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	18040403	98177143	145022230	70	14608										
IL1R1	3554	broad.mit.edu	37	chr2	102791159	102791159	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gacattgtgctttggtacagGgattcctgctatgattttct	10	7	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:102791159G>T	uc002tbq.2	+	10	1422	c.1104G>T	c.(1102-1104)AGG>AGT	p.R368S	IL1R1_uc010fix.2_Missense_Mutation_p.R368S|IL1R1_uc002tbp.2_Missense_Mutation_p.R368S|IL1R1_uc002tbr.2_Missense_Mutation_p.R368S	NM_000877	NP_000868	P14778	IL1R1_HUMAN	interleukin 1 receptor, type I precursor	368	Cytoplasmic (Potential).				innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity|platelet-derived growth factor receptor binding			skin(1)	1					Anakinra(DB00026)	TTTGGTACAGGGATTCCTGCT	0.348													4	165	---	---	---	---	PASS	T	102791159	T	T	102791159	3	4	37	1	0	0	0	0	1	0	0	0	7658	1223	43	3	1134	3	IL1R1	2	102791159	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	4614016	102791159	140408214	71	14609										
CCDC138	165055	broad.mit.edu	37	chr2	109411052	109411052	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggactgagtgttgtagtgatGcaggtgactctcctttgaaa	13	6	1	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:109411052G>T	uc002ten.1	+	5	511	c.451G>T	c.(451-453)GCA>TCA	p.A151S	CCDC138_uc002teo.1_Missense_Mutation_p.A151S|CCDC138_uc002tep.1_5'UTR|CCDC138_uc010fjm.1_5'UTR	NM_144978	NP_659415	Q96M89	CC138_HUMAN	coiled-coil domain containing 138	151											0						TTGTAGTGATGCAGGTGACTC	0.393													64	101	---	---	---	---	PASS	T	109411052	T	T	109411052	3	4	37	1	0	0	0	0	1	0	0	0	2772	1319	46	3	469	3	CCDC138	2	109411052	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	6619893	109411052	133788321	72	14610										
BUB1	699	broad.mit.edu	37	chr2	111425421	111425421	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gatatcactccagaaagctcTgaaccctaaaaaacagaaaa	5	10	2	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:111425421T>A	uc002tgc.2	-	7	685	c.573A>T	c.(571-573)TCA>TCT	p.S191S	BUB1_uc010yxh.1_Silent_p.S171S|BUB1_uc010fkb.2_Silent_p.S191S|BUB1_uc002tgd.2_Silent_p.S191S	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	191					apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		CAGAAAGCTCTGAACCCTAAA	0.338													82	177	---	---	---	---	PASS	A	111425421	A	A	111425421	2	1	37	1	0	0	0	0	0	0	0	1	1570	1567	55	5		5	BUB1	2	111425421	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	2014369	111425421	131773952	73	14611										
PTPN4	5775	broad.mit.edu	37	chr2	120720314	120720314	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aggaagatgaccctatttaaCcaagaggtaagaaggcagga	12	6	0	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:120720314C>T	uc002tmf.1	+	24	3174	c.2403C>T	c.(2401-2403)AAC>AAT	p.N801N	PTPN4_uc010flj.1_Silent_p.N514N|PTPN4_uc010yyr.1_Silent_p.N434N	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	801	Tyrosine-protein phosphatase.					cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	CCCTATTTAACCAAGAGGTAA	0.413													16	102	---	---	---	---	PASS	T	120720314	T	T	120720314	2	4	37	1	0	0	0	0	0	0	0	1	12790	506	18	3		3	PTPN4	2	120720314	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	9294893	120720314	122479059	74	14612										
GLI2	2736	broad.mit.edu	37	chr2	121746735	121746735	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tggcgctctggacgagggcaCcgggcaggtgtatcccacgg	17	12	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:121746735C>G	uc010flp.2	+	13	3275	c.3245C>G	c.(3244-3246)ACC>AGC	p.T1082S	GLI2_uc002tmq.1_Missense_Mutation_p.T754S|GLI2_uc002tmr.1_Missense_Mutation_p.T737S|GLI2_uc002tmt.3_Missense_Mutation_p.T754S|GLI2_uc002tmu.3_Missense_Mutation_p.T737S	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	1082					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				GACGAGGGCACCGGGCAGGTG	0.682													31	88	---	---	---	---	PASS	G	121746735	G	G	121746735	3	3	37	1	0	0	0	0	1	0	0	0	6438	507	18	4	3295	4	GLI2	2	121746735	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	1026421	121746735	121452638	75	14613										
CNTNAP5	129684	broad.mit.edu	37	chr2	125261888	125261888	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gggcaatgtcactttttcctGctccgaaccacagattgtgc	9	12	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:125261888G>T	uc002tno.2	+	8	1443	c.1079G>T	c.(1078-1080)TGC>TTC	p.C360F	CNTNAP5_uc010flu.2_Missense_Mutation_p.C361F	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	360	Laminin G-like 1.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		ACTTTTTCCTGCTCCGAACCA	0.458													7	83	---	---	---	---	PASS	T	125261888	T	T	125261888	3	4	37	1	0	0	0	0	1	0	0	0	3650	1319	46	3	1109	3	CNTNAP5	2	125261888	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	3515153	125261888	117937485	76	14614										
CCNT2	905	broad.mit.edu	37	chr2	135711685	135711685	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	attcaagcccacatattagcAgagaccataaggagaagcac	8	10	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:135711685A>G	uc002tuc.1	+	9	1692	c.1660A>G	c.(1660-1662)AGA>GGA	p.R554G	CCNT2_uc002tub.1_Missense_Mutation_p.R554G|CCNT2_uc010zbf.1_Missense_Mutation_p.R379G|CCNT2_uc002tud.1_Missense_Mutation_p.R217G	NM_058241	NP_490595	O60583	CCNT2_HUMAN	cyclin T2 isoform b	554					cell cycle|cell division|interspecies interaction between organisms|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein kinase binding			ovary(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.107)		ACATATTAGCAGAGACCATAA	0.483													44	90	---	---	---	---	PASS	G	135711685	G	G	135711685	3	3	37	1	0	0	0	0	1	0	0	0	2935	180	7	5	1694	5	CCNT2	2	135711685	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	10449797	135711685	107487688	77	14615										
RAB3GAP1	22930	broad.mit.edu	37	chr2	135893449	135893449	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaggacggctctatcagcatGggaaacttacactgctgcat	10	10	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:135893449G>C	uc002tuj.2	+	17	1895	c.1870G>C	c.(1870-1872)GGG>CGG	p.G624R	RAB3GAP1_uc010fnf.2_Missense_Mutation_p.G624R|RAB3GAP1_uc010fng.2_Missense_Mutation_p.G449R|RAB3GAP1_uc010fnh.1_RNA	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein	624						centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		CTATCAGCATGGGAAACTTAC	0.413													28	129	---	---	---	---	PASS	C	135893449	C	C	135893449	3	2	37	1	0	0	0	0	1	0	0	0	12935	1348	47	4	1936	4	RAB3GAP1	2	135893449	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	181764	135893449	107305924	78	14616										
LRP1B	53353	broad.mit.edu	37	chr2	141128387	141128387	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tttgcaccgaaactgatcttCcttacattcagtcacacagt	5	12	3	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:141128387C>A	uc002tvj.1	-	71	11872	c.10900G>T	c.(10900-10902)GAA>TAA	p.E3634*		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3634	Extracellular (Potential).|LDL-receptor class A 29.				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)		AACTGATCTTCCTTACATTCA	0.388										TSP Lung(27;0.18)			36	121	---	---	---	---	PASS	A	141128387	A	A	141128387	4	1	37	1	0	0	0	0	0	1	0	0	8955	864	30	2	2983	2	LRP1B	2	141128387	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	5234938	141128387	102070986	79	14617										
LRP1B	53353	broad.mit.edu	37	chr2	141128806	141128806	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atttcaaagatgctgaaataCatccatcactggcacatata	5	9	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:141128806C>G	uc002tvj.1	-	70	11789	c.10817G>C	c.(10816-10818)TGT>TCT	p.C3606S		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3606	Extracellular (Potential).|LDL-receptor class A 28.				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)		TGCTGAAATACATCCATCACT	0.279										TSP Lung(27;0.18)			13	64	---	---	---	---	PASS	G	141128806	G	G	141128806	3	3	37	1	0	0	0	0	1	0	0	0	8955	478	17	4	3070	4	LRP1B	2	141128806	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	419	141128806	102070567	80	14618										
LRP1B	53353	broad.mit.edu	37	chr2	141680640	141680640	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tctttttctccatcacagcgCcacaaatcaggaacgcaatt	5	13	4	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:141680640C>G	uc002tvj.1	-	21	4185	c.3213G>C	c.(3211-3213)TGG>TGC	p.W1071C	LRP1B_uc010fnl.1_Missense_Mutation_p.W253C	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1071	Extracellular (Potential).|LDL-receptor class A 8.				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)		CATCACAGCGCCACAAATCAG	0.418										TSP Lung(27;0.18)			31	106	---	---	---	---	PASS	G	141680640	G	G	141680640	3	3	37	1	0	0	0	0	1	0	0	0	8955	740	26	4	10870	4	LRP1B	2	141680640	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	551834	141680640	101518733	81	14619										
KCNJ3	3760	broad.mit.edu	37	chr2	155555413	155555413	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagcttgtgcccaagaagaaGcggcagcggttcgtggacaa	14	10	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:155555413G>C	uc002tyv.1	+	1	321	c.126G>C	c.(124-126)AAG>AAC	p.K42N	KCNJ3_uc010zce.1_Missense_Mutation_p.K42N	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	42	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	CCAAGAAGAAGCGGCAGCGGT	0.637													13	42	---	---	---	---	PASS	C	155555413	C	C	155555413	3	2	37	1	0	0	0	0	1	0	0	0	8052	962	34	4	128	4	KCNJ3	2	155555413	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	13874773	155555413	87643960	82	14620										
PKP4	8502	broad.mit.edu	37	chr2	159499163	159499163	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtgggatacctgccttgttgCgactgttgagaaaatctatt	11	7	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:159499163C>T	uc002tzv.2	+	11	2121	c.1861C>T	c.(1861-1863)CGA>TGA	p.R621*	PKP4_uc002tzt.1_Nonsense_Mutation_p.R473*|PKP4_uc002tzu.2_Nonsense_Mutation_p.R621*|PKP4_uc002tzw.2_Nonsense_Mutation_p.R621*|PKP4_uc002tzx.2_Nonsense_Mutation_p.R278*|PKP4_uc002tzy.1_Nonsense_Mutation_p.R279*|PKP4_uc002tzz.1_Nonsense_Mutation_p.R619*|PKP4_uc002uaa.2_Nonsense_Mutation_p.R473*	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	621	ARM 4.				cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						TGCCTTGTTGCGACTGTTGAG	0.413										HNSCC(62;0.18)			9	134	---	---	---	---	PASS	T	159499163	T	T	159499163	4	4	37	1	0	0	0	0	0	1	0	0	11987	760	27	1	1899	1	PKP4	2	159499163	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	3943750	159499163	83700210	83	14621										
IFIH1	64135	broad.mit.edu	37	chr2	163174644	163174644	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtgctcagcagcagttcaacTgcctgcatgttcccggaggt	12	12	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:163174644T>C	uc002uce.2	-	1	396	c.174A>G	c.(172-174)GCA>GCG	p.A58A	IFIH1_uc002ucf.2_Silent_p.A58A	NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	58	CARD 1.				detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1						GCAGTTCAACTGCCTGCATGT	0.607													18	77	---	---	---	---	PASS	C	163174644	C	C	163174644	2	2	37	1	0	0	0	0	0	0	0	1	7520	1567	55	5		5	IFIH1	2	163174644	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	3675481	163174644	80024729	84	14622										
SCN1A	6323	broad.mit.edu	37	chr2	166870371	166870371	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgttttcctctgccttcttcCacattgatttgacaacactt	4	12	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:166870371C>A	uc010zcz.1	-	18	3573	c.3555G>T	c.(3553-3555)GTG>GTT	p.V1185V	SCN1A_uc002udo.3_Silent_p.V1065V|SCN1A_uc010fpk.2_Silent_p.V1037V	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1196						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TGCCTTCTTCCACATTGATTT	0.383													26	179	---	---	---	---	PASS	A	166870371	A	A	166870371	2	1	37	1	0	0	0	0	0	0	0	1	13914	581	21	3		3	SCN1A	2	166870371	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	3695727	166870371	76329002	85	14623										
TTN	7273	broad.mit.edu	37	chr2	179495637	179495637	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagtctccatcacctccacaCtgtgcaggggtcgcaccagt	9	16	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:179495637C>G	uc010zfg.1	-	187	36568	c.36344G>C	c.(36343-36345)AGT>ACT	p.S12115T	TTN_uc010zfh.1_Missense_Mutation_p.S5810T|TTN_uc010zfi.1_Missense_Mutation_p.S5743T|TTN_uc010zfj.1_Missense_Mutation_p.S5618T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13042							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)			CACCTCCACACTGTGCAGGGG	0.498													21	84	---	---	---	---	PASS	G	179495637	G	G	179495637	3	3	37	1	0	0	0	0	1	0	0	0	16732	565	20	4	64145	4	TTN	2	179495637	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	12625266	179495637	63703736	86	14624										
TTN	7273	broad.mit.edu	37	chr2	179615578	179615578	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tagtgatatatgtggatgacTctccaattgtagtattggcc	10	6	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:179615578T>G	uc002unb.2	-	46	11773	c.11549A>C	c.(11548-11550)GAG>GCG	p.E3850A	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	9685							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)			TGTGGATGACTCTCCAATTGT	0.373													46	161	---	---	---	---	PASS	G	179615578	G	G	179615578	3	3	37	1	0	0	0	0	1	0	0	0	16732	1551	54	5	98748	5	TTN	2	179615578	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	119941	179615578	63583795	87	14625										
DNAH7	56171	broad.mit.edu	37	chr2	196689162	196689162	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agttcttcgccaacattttcTagcaacactggagtaaaatc	6	10	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:196689162T>A	uc002utj.3	-	49	9209	c.9108A>T	c.(9106-9108)CTA>CTT	p.L3036L		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3036	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CAACATTTTCTAGCAACACTG	0.343													64	101	---	---	---	---	PASS	A	196689162	A	A	196689162	2	1	37	1	0	0	0	0	0	0	0	1	4606	1509	53	5		5	DNAH7	2	196689162	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	17073584	196689162	46510211	88	14626										
HECW2	57520	broad.mit.edu	37	chr2	197183868	197183868	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cctgatgcatcggaagtcccTgtgtctgcgccacttgtggg	13	12	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:197183868T>A	uc002utm.1	-	9	1929	c.1746A>T	c.(1744-1746)ACA>ACT	p.T582T	HECW2_uc002utl.1_Silent_p.T226T	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	582					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						CGGAAGTCCCTGTGTCTGCGC	0.587													16	63	---	---	---	---	PASS	A	197183868	A	A	197183868	2	1	37	1	0	0	0	0	0	0	0	1	7043	1567	55	5		5	HECW2	2	197183868	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	494706	197183868	46015505	89	14627										
CCDC108	255101	broad.mit.edu	37	chr2	219877985	219877985	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aatgtggaccactgacctgcCgtgggggtagcgtgtcacca	14	11	1	1	rs146800134	byFrequency	TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:219877985C>T	uc002vjl.1	-	24	4037	c.3953G>A	c.(3952-3954)CGG>CAG	p.R1318Q		NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	1318						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACTGACCTGCCGTGGGGGTAG	0.527													6	21	---	---	---	---	PASS	T	219877985	T	T	219877985	3	4	37	1	0	0	0	0	1	0	0	0	2743	652	23	1	1872	1	CCDC108	2	219877985	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	22694117	219877985	23321388	90	14628										
CCDC108	255101	broad.mit.edu	37	chr2	219903118	219903118	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgggcgctgatggtgctgcaGgcactcatggctgcactgct	15	11	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:219903118G>T	uc002vjl.1	-	4	420	c.336C>A	c.(334-336)GCC>GCA	p.A112A	CCDC108_uc010zkp.1_Silent_p.A101A|CCDC108_uc010zkq.1_Silent_p.A47A|CCDC108_uc002vjn.2_Silent_p.A47A	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	112						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGGTGCTGCAGGCACTCATGG	0.438													11	34	---	---	---	---	PASS	T	219903118	T	T	219903118	2	4	37	1	0	0	0	0	0	0	0	1	2743	987	35	3		3	CCDC108	2	219903118	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	25133	219903118	23296255	91	14629										
DOCK10	55619	broad.mit.edu	37	chr2	225729367	225729367	+	Missense_Mutation	SNP	T	A	A													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccaccaaaacaatttcagaaTgtggattgcttacagaaaat							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:225729367T>A	uc010fwz.1	-	13	1744	c.1505A>T	c.(1504-1506)CAT>CTT	p.H502L	DOCK10_uc002vob.2_Missense_Mutation_p.H496L|DOCK10_uc002vod.1_Missense_Mutation_p.H502L	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	502							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		AATTTCAGAATGTGGATTGCT	0.363													8	72	---	---	---	---	PASS	A	225729367	A	A	225729367	3	1	37	1	0	0	0	0	1	0	0	0	4685	1464	51	5	5231	5	DOCK10	2	225729367	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	5826249	225729367	17470006	92	14630	373	2								
DOCK10	55619	broad.mit.edu	37	chr2	225729368	225729368	+	Missense_Mutation	SNP	G	T	T													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	caccaaaacaatttcagaatGtggattgcttacagaaaata							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:225729368G>T	uc010fwz.1	-	13	1743	c.1504C>A	c.(1504-1506)CAT>AAT	p.H502N	DOCK10_uc002vob.2_Missense_Mutation_p.H496N|DOCK10_uc002vod.1_Missense_Mutation_p.H502N	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	502							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		ATTTCAGAATGTGGATTGCTT	0.363													8	70	---	---	---	---	PASS	T	225729368	T	T	225729368	3	4	37	1	0	0	0	0	1	0	0	0	4685	1377	48	3	5232	3	DOCK10	2	225729368	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1	225729368	17470005	93	14631	373	2								
TRIP12	9320	broad.mit.edu	37	chr2	230657770	230657770	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tccacccttccactgcttcaCatttgcacagtctggatgcc	6	16	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:230657770C>T	uc002vpw.1	-	26	3944	c.3835G>A	c.(3835-3837)GTG>ATG	p.V1279M	TRIP12_uc002vpx.1_Missense_Mutation_p.V1327M|TRIP12_uc002vpy.1_Missense_Mutation_p.V1009M	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1279					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)		CACTGCTTCACATTTGCACAG	0.408													4	116	---	---	---	---	PASS	T	230657770	T	T	230657770	3	4	37	1	0	0	0	0	1	0	0	0	16553	478	17	3	2207	3	TRIP12	2	230657770	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	4928402	230657770	12541603	94	14632										
GPR55	9290	broad.mit.edu	37	chr2	231774970	231774970	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tggactgggaggaaggagacCacgaagacagccaggctggc	17	9	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:231774970C>A	uc002vrg.2	-	2	901	c.708G>T	c.(706-708)GTG>GTT	p.V236V	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Silent_p.V236V	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	236	Helical; Name=6; (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		GGAAGGAGACCACGAAGACAG	0.582													4	123	---	---	---	---	PASS	A	231774970	A	A	231774970	2	1	37	1	0	0	0	0	0	0	0	1	6699	581	21	3		3	GPR55	2	231774970	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	1117200	231774970	11424403	95	14633										
ALPI	248	broad.mit.edu	37	chr2	233322011	233322011	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	caggacatcgccactcagctCatctccaacatggacattga	7	14	3	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:233322011C>A	uc002vst.3	+	5	704	c.627C>A	c.(625-627)CTC>CTA	p.L209L	ALPI_uc002vsu.3_Silent_p.L120L	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	209					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		CCACTCAGCTCATCTCCAACA	0.632													52	155	---	---	---	---	PASS	A	233322011	A	A	233322011	2	1	37	1	0	0	0	0	0	0	0	1	543	813	29	2		2	ALPI	2	233322011	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	1547041	233322011	9877362	96	14634										
GIGYF2	26058	broad.mit.edu	37	chr2	233671354	233671354	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cttttctccaggtccagctcCccctcctcatatggtaagta	6	15	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:233671354C>T	uc002vti.3	+	17	2130	c.1793C>T	c.(1792-1794)CCC>CTC	p.P598L	GIGYF2_uc010zmj.1_Missense_Mutation_p.P598L|GIGYF2_uc002vtg.2_Missense_Mutation_p.P592L|GIGYF2_uc002vtj.3_Missense_Mutation_p.P619L|GIGYF2_uc002vtk.3_Missense_Mutation_p.P598L|GIGYF2_uc002vth.3_Missense_Mutation_p.P592L|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Missense_Mutation_p.P429L	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	598					cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		GGTCCAGCTCCCCCTCCTCAT	0.428													6	198	---	---	---	---	PASS	T	233671354	T	T	233671354	3	4	37	1	0	0	0	0	1	0	0	0	6378	623	22	3	1913	3	GIGYF2	2	233671354	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	349343	233671354	9528019	97	14635										
ANO7	50636	broad.mit.edu	37	chr2	242142807	242142807	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cgcctcaaccagcgccaagtCcttttccagcactgggcgcg	10	17	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr2:242142807C>T	uc002wax.2	+	9	1048	c.945C>T	c.(943-945)GTC>GTT	p.V315V		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	315	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						AGCGCCAAGTCCTTTTCCAGC	0.682													10	15	---	---	---	---	PASS	T	242142807	T	T	242142807	2	4	37	1	0	0	0	0	0	0	0	1	702	842	30	2		2	ANO7	2	242142807	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	8471453	242142807	1056566	98	14636										
CNTN6	27255	broad.mit.edu	37	chr3	1269545	1269545	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttgattttactatgagttatCactacaggttggatggaggc	11	5	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:1269545C>A	uc003boz.2	+	4	493	c.226C>A	c.(226-228)CAC>AAC	p.H76N	CNTN6_uc010hbo.2_Missense_Mutation_p.H71N|CNTN6_uc011asj.1_Missense_Mutation_p.H4N|CNTN6_uc003bpa.2_Missense_Mutation_p.H76N	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	76	Ig-like C2-type 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TATGAGTTATCACTACAGGTT	0.403													65	87	---	---	---	---	PASS	A	1269545	A	A	1269545	3	1	37	1	0	0	0	0	1	0	0	0	3645	826	29	2	236	2	CNTN6	3	1269545	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08		1269545	196752885	99	14637										
TRANK1	9881	broad.mit.edu	37	chr3	36893661	36893661	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgggctccaaattcaatgggCtgagttttccttttattccc	8	10	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:36893661C>A	uc003cgj.2	-	4	3245	c.2943G>T	c.(2941-2943)CAG>CAT	p.Q981H		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1531					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						ATTCAATGGGCTGAGTTTTCC	0.403													21	27	---	---	---	---	PASS	A	36893661	A	A	36893661	3	1	37	1	0	0	0	0	1	0	0	0	16451	796	28	3	4228	3	TRANK1	3	36893661	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	35624116	36893661	161128769	100	14638										
C3orf23	285343	broad.mit.edu	37	chr3	44409198	44409198	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tcgagagtggaaacaactctCacgtatgtaaaagtttttat	8	6	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:44409198C>A	uc010him.2	+	5	815	c.570C>A	c.(568-570)CTC>CTA	p.L190L	C3orf23_uc003cnd.3_Silent_p.L190L|C3orf23_uc003cne.3_Silent_p.L46L	NM_173826	NP_776187	Q8N3R3	CC023_HUMAN	hypothetical protein LOC285343 isoform 1	190						mitochondrion				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(197;0.0468)|Kidney(197;0.0585)		AAACAACTCTCACGTATGTAA	0.348													3	40	---	---	---	---	PASS	A	44409198	A	A	44409198	2	1	37	1	0	0	0	0	0	0	0	1	2216	813	29	2		2	C3orf23	3	44409198	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	7515537	44409198	153613232	101	14639										
RTP3	83597	broad.mit.edu	37	chr3	46542189	46542189	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcttctgtgctgggcccataCaggttacaagcctcccccca	9	16	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:46542189C>A	uc003cps.1	+	2	567	c.499C>A	c.(499-501)CAG>AAG	p.Q167K		NM_031440	NP_113628	Q9BQQ7	RTP3_HUMAN	transmembrane protein 7	167	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste|protein targeting to membrane	cytoplasm|integral to membrane	protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0173)|Kidney(197;0.0204)		TGGGCCCATACAGGTTACAAG	0.517													42	45	---	---	---	---	PASS	A	46542189	A	A	46542189	3	1	37	1	0	0	0	0	1	0	0	0	13735	479	17	3	505	3	RTP3	3	46542189	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2132991	46542189	151480241	102	14640										
WDR6	11180	broad.mit.edu	37	chr3	49050270	49050270	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctgtggaccagaccctgtttCctgggaaggtgcacagcttg	13	11	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:49050270C>T	uc003cvj.2	+	2	1531	c.1393C>T	c.(1393-1395)CCT>TCT	p.P465S	WDR6_uc011bbx.1_Missense_Mutation_p.P336S|WDR6_uc011bby.1_Intron|WDR6_uc010hkn.2_Missense_Mutation_p.P409S|WDR6_uc011bbz.1_Missense_Mutation_p.P384S	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	435	WD 7.				cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		GACCCTGTTTCCTGGGAAGGT	0.592													14	19	---	---	---	---	PASS	T	49050270	T	T	49050270	3	4	37	1	0	0	0	0	1	0	0	0	17307	855	30	2	1399	2	WDR6	3	49050270	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2508081	49050270	148972160	103	14641										
CACNA1D	776	broad.mit.edu	37	chr3	53783447	53783447	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctttgtcatcgttacatttcAggaacaaggagaaaaagagt	9	6	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:53783447A>G	uc003dgv.3	+	27	3630	c.3467A>G	c.(3466-3468)CAG>CGG	p.Q1156R	CACNA1D_uc003dgu.3_Missense_Mutation_p.Q1176R|CACNA1D_uc003dgy.3_Missense_Mutation_p.Q1156R|CACNA1D_uc003dgw.3_Missense_Mutation_p.Q823R|CACNA1D_uc003dgx.1_Missense_Mutation_p.Q304R	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1156	Dihydropyridine binding (By similarity).|Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	GTTACATTTCAGGAACAAGGA	0.428													3	94	---	---	---	---	PASS	G	53783447	G	G	53783447	3	3	37	1	0	0	0	0	1	0	0	0	2541	188	7	5	3745	5	CACNA1D	3	53783447	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	4733177	53783447	144238983	104	14642										
EPHA6	285220	broad.mit.edu	37	chr3	96706460	96706460	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tacaaagatcgacacaattgCtgctgatgagagttttaccc	8	9	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:96706460C>A	uc010how.1	+	3	780	c.737C>A	c.(736-738)GCT>GAT	p.A246D	EPHA6_uc003drp.1_Missense_Mutation_p.A246D	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	151	Ephrin-binding.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						GACACAATTGCTGCTGATGAG	0.398													83	522	---	---	---	---	PASS	A	96706460	A	A	96706460	3	1	37	1	0	0	0	0	1	0	0	0	5171	797	28	3	747	3	EPHA6	3	96706460	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	42923013	96706460	101315970	105	14643										
EPHA6	285220	broad.mit.edu	37	chr3	96706479	96706479	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gctgctgatgagagttttacCcagatggatttgggtgatcg	14	6	0	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:96706479C>A	uc010how.1	+	3	799	c.756C>A	c.(754-756)ACC>ACA	p.T252T	EPHA6_uc003drp.1_Silent_p.T252T	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	157	Ephrin-binding.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						AGAGTTTTACCCAGATGGATT	0.398													84	542	---	---	---	---	PASS	A	96706479	A	A	96706479	2	1	37	1	0	0	0	0	0	0	0	1	5171	610	22	3		3	EPHA6	3	96706479	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	19	96706479	101315951	106	14644										
OR5K4	403278	broad.mit.edu	37	chr3	98073466	98073466	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tattttacatttgtcttctcAtgtatattggaccatctgaa	5	7	3	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:98073466A>T	uc011bgv.1	+	1	769	c.769A>T	c.(769-771)ATG>TTG	p.M257L		NM_001005517	NP_001005517	A6NMS3	OR5K4_HUMAN	olfactory receptor, family 5, subfamily K,	257	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TTGTCTTCTCATGTATATTGG	0.353													77	395	---	---	---	---	PASS	T	98073466	T	T	98073466	3	4	37	1	0	0	0	0	1	0	0	0	11169	217	8	5	771	5	OR5K4	3	98073466	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	1366987	98073466	99948964	107	14645										
CBLB	868	broad.mit.edu	37	chr3	105586391	105586391	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gggatttcctcctcgaccacCagggtttctgccattcattg	9	13	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:105586391C>G	uc003dwc.2	-	2	353	c.31G>C	c.(31-33)GGT>CGT	p.G11R	CBLB_uc011bhi.1_Missense_Mutation_p.G33R|CBLB_uc003dwd.1_Missense_Mutation_p.G11R|CBLB_uc003dwe.1_Missense_Mutation_p.G11R|CBLB_uc011bhj.1_RNA	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	11					cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						CCTCGACCACCAGGGTTTCTG	0.413			Mis S		AML								111	174	---	---	---	---	PASS	G	105586391	G	G	105586391	3	3	37	1	0	0	0	0	1	0	0	0	2701	594	21	4	2989	4	CBLB	3	105586391	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	7512925	105586391	92436039	108	14646										
TRAT1	50852	broad.mit.edu	37	chr3	108572578	108572578	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagacaaggatggagatgagCaactacatgcaatagatgcc	11	8	0	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:108572578C>A	uc003dxi.1	+	6	559	c.415C>A	c.(415-417)CAA>AAA	p.Q139K	TRAT1_uc010hpx.1_Missense_Mutation_p.Q102K	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	139	Cytoplasmic (Potential).				cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						TGGAGATGAGCAACTACATGC	0.458													17	142	---	---	---	---	PASS	A	108572578	A	A	108572578	3	1	37	1	0	0	0	0	1	0	0	0	16463	711	25	3	437	3	TRAT1	3	108572578	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2986187	108572578	89449852	109	14647										
MORC1	27136	broad.mit.edu	37	chr3	108723703	108723703	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccttcagttggttgagctctCcagacagtggtaatattagc	10	9	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:108723703C>T	uc003dxl.2	-	20	2133	c.2046G>A	c.(2044-2046)TGG>TGA	p.W682*	MORC1_uc011bhn.1_Nonsense_Mutation_p.W661*	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	682					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						GTTGAGCTCTCCAGACAGTGG	0.368													298	452	---	---	---	---	PASS	T	108723703	T	T	108723703	4	4	37	1	0	0	0	0	0	1	0	0	9701	856	30	2	944	2	MORC1	3	108723703	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	151125	108723703	89298727	110	14648										
ARHGAP31	57514	broad.mit.edu	37	chr3	119134230	119134230	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgacctcatcttactgtaaaGcagacccctggagggtttac	9	11	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:119134230G>T	uc003ecj.3	+	12	3986	c.3454G>T	c.(3454-3456)GCA>TCA	p.A1152S		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	1152					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						TTACTGTAAAGCAGACCCCTG	0.537													10	149	---	---	---	---	PASS	T	119134230	T	T	119134230	3	4	37	1	0	0	0	0	1	0	0	0	880	971	34	3	3500	3	ARHGAP31	3	119134230	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	10410527	119134230	78888200	111	14649										
HGD	3081	broad.mit.edu	37	chr3	120357315	120357315	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gacttactatggtaataaggAggcctgaaggtcttatcagc	11	7	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:120357315A>C	uc003edw.2	-	12	1363	c.993T>G	c.(991-993)CCT>CCG	p.P331P	HGD_uc003edv.2_Silent_p.P190P	NM_000187	NP_000178	Q93099	HGD_HUMAN	homogentisate 1,2-dioxygenase	331					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	homogentisate 1,2-dioxygenase activity|metal ion binding				0				GBM - Glioblastoma multiforme(114;0.158)		GGTAATAAGGAGGCCTGAAGG	0.478													101	165	---	---	---	---	PASS	C	120357315	C	C	120357315	2	2	37	1	0	0	0	0	0	0	0	1	7084	291	11	5		5	HGD	3	120357315	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	1223085	120357315	77665115	112	14650										
EPHB1	2047	broad.mit.edu	37	chr3	134644715	134644715	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gggctggacggccaatcctgCgtccggggtgagtatcaaac	15	11	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:134644715C>A	uc003eqt.2	+	2	336	c.116C>A	c.(115-117)GCG>GAG	p.A39E	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_Missense_Mutation_p.A39E	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	39	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GCCAATCCTGCGTCCGGGGTG	0.463													12	32	---	---	---	---	PASS	A	134644715	A	A	134644715	3	1	37	1	0	0	0	0	1	0	0	0	5174	768	27	1	122	1	EPHB1	3	134644715	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	14287400	134644715	63377715	113	14651										
DBR1	51163	broad.mit.edu	37	chr3	137893470	137893470	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtttgcatgtgacgatacttGggcggcacggccatgcagcg	15	10	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:137893470G>A	uc003erv.2	-	1	304	c.168C>T	c.(166-168)CCC>CCT	p.P56P	DBR1_uc003eru.2_Silent_p.P5P	NM_016216	NP_057300	Q9UK59	DBR1_HUMAN	debranching enzyme homolog 1	56						nucleus	metal ion binding|RNA lariat debranching enzyme activity				0						GACGATACTTGGGCGGCACGG	0.692													8	29	---	---	---	---	PASS	A	137893470	A	A	137893470	2	1	37	1	0	0	0	0	0	0	0	1	4257	1335	47	3		3	DBR1	3	137893470	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	3248755	137893470	60128960	114	14652										
TRIM42	287015	broad.mit.edu	37	chr3	140401982	140401982	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gccgcctcactcttcagcgcCatcgccaagttcaaagcagg	9	16	4	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:140401982C>G	uc003eto.1	+	2	1211	c.1020C>G	c.(1018-1020)GCC>GCG	p.A340A		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	340						intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						TCTTCAGCGCCATCGCCAAGT	0.532													4	187	---	---	---	---	PASS	G	140401982	G	G	140401982	2	3	37	1	0	0	0	0	0	0	0	1	16514	581	21	4		4	TRIM42	3	140401982	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	2508512	140401982	57620448	115	14653										
ATR	545	broad.mit.edu	37	chr3	142178192	142178192	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctgctgactttggtagcataCactggcgaagttcttttcct	9	10	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:142178192C>G	uc003eux.3	-	43	7348	c.7226G>C	c.(7225-7227)TGT>TCT	p.C2409S	ATR_uc003euy.1_Missense_Mutation_p.C295S	NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	2409	PI3K/PI4K.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						TGGTAGCATACACTGGCGAAG	0.398								Other_conserved_DNA_damage_response_genes					31	173	---	---	---	---	PASS	G	142178192	G	G	142178192	3	3	37	1	0	0	0	0	1	0	0	0	1204	478	17	4	728	4	ATR	3	142178192	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	1776210	142178192	55844238	116	14654										
ATR	545	broad.mit.edu	37	chr3	142257406	142257406	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aggtaacaaagctactattaCatgactgagaagggagccca	10	8	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:142257406C>A	uc003eux.3	-	19	3765	c.3643G>T	c.(3643-3645)GTA>TTA	p.V1215L		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1215					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						GCTACTATTACATGACTGAGA	0.388								Other_conserved_DNA_damage_response_genes					110	168	---	---	---	---	PASS	A	142257406	A	A	142257406	3	1	37	1	0	0	0	0	1	0	0	0	1204	478	17	3	4407	3	ATR	3	142257406	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	79214	142257406	55765024	117	14655										
ZIC4	84107	broad.mit.edu	37	chr3	147120521	147120521	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggattttaacttacttgactCtttaagagtgtttcggtaaa	8	5	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:147120521C>T	uc003ewd.1	-	2	337	c.64G>A	c.(64-66)GAG>AAG	p.E22K	ZIC4_uc011bno.1_Missense_Mutation_p.E72K	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	22						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						TTACTTGACTCTTTAAGAGTG	0.313													141	242	---	---	---	---	PASS	T	147120521	T	T	147120521	3	4	37	1	0	0	0	0	1	0	0	0	17678	922	32	2	956	2	ZIC4	3	147120521	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	4863115	147120521	50901909	118	14656										
ZIC1	7545	broad.mit.edu	37	chr3	147128383	147128383	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cgcctaacgtggtcaacgggCagatgaggctcggcttctcg	14	12	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:147128383C>A	uc003ewe.2	+	1	1203	c.484C>A	c.(484-486)CAG>AAG	p.Q162K		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	162					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GGTCAACGGGCAGATGAGGCT	0.711													7	10	---	---	---	---	PASS	A	147128383	A	A	147128383	3	1	37	1	0	0	0	0	1	0	0	0	17675	711	25	3	486	3	ZIC1	3	147128383	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	7862	147128383	50894047	119	14657										
ZIC1	7545	broad.mit.edu	37	chr3	147128470	147128470	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cgcgttcggagcactatgctGcgccgcagctgcacggctac	13	15	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:147128470G>T	uc003ewe.2	+	1	1290	c.571G>T	c.(571-573)GCG>TCG	p.A191S		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	191					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GCACTATGCTGCGCCGCAGCT	0.662													37	68	---	---	---	---	PASS	T	147128470	T	T	147128470	3	4	37	1	0	0	0	0	1	0	0	0	17675	1319	46	3	573	3	ZIC1	3	147128470	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	87	147128470	50893960	120	14658										
USP13	8975	broad.mit.edu	37	chr3	179426630	179426630	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctgactgacggctctgtcctGtgtggaaagtggttctttga	13	8	2	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:179426630G>T	uc003fkh.2	+	6	771	c.690G>T	c.(688-690)CTG>CTT	p.L230L	USP13_uc003fkf.2_Silent_p.L230L	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	230	UBP-type.				ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			GCTCTGTCCTGTGTGGAAAGT	0.537													109	191	---	---	---	---	PASS	T	179426630	T	T	179426630	2	4	37	1	0	0	0	0	0	0	0	1	17041	1364	48	3		3	USP13	3	179426630	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	32298160	179426630	18595800	121	14659										
DVL3	1857	broad.mit.edu	37	chr3	183885468	183885468	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gaggtccgtgaccgcatgtgGctcaagattaccatccctaa	10	12	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:183885468G>T	uc003fms.2	+	12	1439	c.1299G>T	c.(1297-1299)TGG>TGT	p.W433C	DVL3_uc011bqw.1_Missense_Mutation_p.W416C|DVL3_uc003fmt.2_Missense_Mutation_p.W104C|DVL3_uc003fmu.2_Missense_Mutation_p.W265C	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	433	DEP.				canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			ACCGCATGTGGCTCAAGATTA	0.597													49	104	---	---	---	---	PASS	T	183885468	T	T	183885468	3	4	37	1	0	0	0	0	1	0	0	0	4837	1212	42	3	1345	3	DVL3	3	183885468	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	4458838	183885468	14136962	122	14660										
DGKG	1608	broad.mit.edu	37	chr3	185979515	185979515	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cttgtctccctccactcttgGggttcaccaagaccagcagg	9	15	3	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr3:185979515G>T	uc003fqa.2	-	15	1859	c.1322C>A	c.(1321-1323)CCC>CAC	p.P441H	DGKG_uc003fqb.2_Missense_Mutation_p.P402H|DGKG_uc003fqc.2_Missense_Mutation_p.P441H|DGKG_uc011brx.1_Missense_Mutation_p.P382H	NM_001346	NP_001337	P49619	DGKG_HUMAN	diacylglycerol kinase gamma isoform 1	441	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	all_cancers(143;3.26e-12)|Ovarian(172;0.0315)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)	GBM - Glioblastoma multiforme(93;0.0657)	Phosphatidylserine(DB00144)	TCCACTCTTGGGGTTCACCAA	0.488													15	18	---	---	---	---	PASS	T	185979515	T	T	185979515	3	4	37	1	0	0	0	0	1	0	0	0	4469	1232	43	3	1097	3	DGKG	3	185979515	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2094047	185979515	12042915	123	14661										
ZBTB49	166793	broad.mit.edu	37	chr4	4303783	4303783	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tggatgttaaaaatgtcagtGgcatagggcagatcctggac	13	6	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:4303783G>T	uc003ghu.2	+	3	395	c.220G>T	c.(220-222)GGC>TGC	p.G74C	ZBTB49_uc003ghv.2_Intron|ZBTB49_uc010icy.2_RNA|ZBTB49_uc010icz.2_5'Flank	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	74	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						AAATGTCAGTGGCATAGGGCA	0.398													49	54	---	---	---	---	PASS	T	4303783	T	T	4303783	3	4	37	1	0	0	0	0	1	0	0	0	17547	1348	47	3	226	3	ZBTB49	4	4303783	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08		4303783	186850493	124	14662										
GABRG1	2565	broad.mit.edu	37	chr4	46060535	46060535	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agtgatttcagttgagttccGtaaccctacaaatgcaaact	7	9	1	2	rs142799145		TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:46060535G>T	uc003gxb.2	-	6	882	c.730C>A	c.(730-732)CGG>AGG	p.R244R		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	244	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		GTTGAGTTCCGTAACCCTACA	0.333													36	50	---	---	---	---	PASS	T	46060535	T	T	46060535	2	4	37	1	0	0	0	0	0	0	0	1	6171	1144	40	1		1	GABRG1	4	46060535	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	41756752	46060535	145093741	125	14663										
NMU	10874	broad.mit.edu	37	chr4	56471492	56471492	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atgcaggtgaggaacgagctGcagcaacggatgcacaactg	14	9	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:56471492G>A	uc003hbc.2	-	7	491	c.385C>T	c.(385-387)CAG>TAG	p.Q129*	NMU_uc003hbd.1_Intron|NMU_uc010igv.1_RNA|NMU_uc010igw.1_Nonsense_Mutation_p.Q44*|NMU_uc010igx.1_Intron	NM_006681	NP_006672	P48645	NMU_HUMAN	neuromedin U precursor	129					neuropeptide signaling pathway	extracellular region					0	Lung NSC(11;0.00256)|all_epithelial(27;0.075)|Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.103)	LUSC - Lung squamous cell carcinoma(4;6.72e-08)|Lung(4;6.22e-07)|Epithelial(7;0.00559)	LUSC - Lung squamous cell carcinoma(721;0.0115)		GGAACGAGCTGCAGCAACGGA	0.498													66	95	---	---	---	---	PASS	A	56471492	A	A	56471492	4	1	37	1	0	0	0	0	0	1	0	0	10505	1328	46	3	151	3	NMU	4	56471492	Nonsense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	10410957	56471492	134682784	126	14664										
LPHN3	23284	broad.mit.edu	37	chr4	62598642	62598642	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgactgagtattcatccaagGatgacttcattgctggaaga	10	7	2	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:62598642G>T	uc010ihh.2	+	5	738	c.565G>T	c.(565-567)GAT>TAT	p.D189Y	LPHN3_uc003hcq.3_Missense_Mutation_p.D189Y|LPHN3_uc010ihg.1_Missense_Mutation_p.D257Y|LPHN3_uc003hcs.1_Missense_Mutation_p.D18Y	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	189	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						TTCATCCAAGGATGACTTCAT	0.473													4	64	---	---	---	---	PASS	T	62598642	T	T	62598642	3	4	37	1	0	0	0	0	1	0	0	0	8917	1174	41	2	583	2	LPHN3	4	62598642	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	6127150	62598642	128555634	127	14665										
TECRL	253017	broad.mit.edu	37	chr4	65145803	65145803	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tctttttttacaatatgaatGgaatcattgctgattttcta	5	5	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:65145803G>A	uc003hcv.2	-	12	1188	c.1079C>T	c.(1078-1080)CCA>CTA	p.P360L	TECRL_uc010ihi.2_RNA	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	360					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						CAATATGAATGGAATCATTGC	0.274													22	25	---	---	---	---	PASS	A	65145803	A	A	65145803	3	1	37	1	0	0	0	0	1	0	0	0	15743	1348	47	3	16	3	TECRL	4	65145803	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2547161	65145803	126008473	128	14666										
HERC3	8916	broad.mit.edu	37	chr4	89526980	89526980	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgaaagataagaacaatgttAtgttggggatattggtctct	11	3	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:89526980A>G	uc003hrw.1	+	3	172	c.6A>G	c.(4-6)TTA>TTG	p.L2L	HERC3_uc003hrv.2_Silent_p.L2L|HERC3_uc011cdn.1_Intron	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	2	RCC1 1.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		GAACAATGTTATGTTGGGGAT	0.393													34	45	---	---	---	---	PASS	G	89526980	G	G	89526980	2	3	37	1	0	0	0	0	0	0	0	1	7059	446	16	5		5	HERC3	4	89526980	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	24381177	89526980	101627296	129	14667										
FAM190A	401145	broad.mit.edu	37	chr4	91389384	91389384	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttcctcggtttttttgaacaGtttgccgggaggactcatat	10	8	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:91389384G>T	uc003hsv.3	+	5	1944	c.1604_splice	c.e5-1	p.V535_splice	FAM190A_uc010ikv.2_Splice_Site|FAM190A_uc003hsw.2_Splice_Site_p.V535_splice	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1											large_intestine(1)|ovary(1)	2						TTTTTGAACAGTTTGCCGGGA	0.363													14	23	---	---	---	---	PASS	T	91389384	T	T	91389384	5	4	37	1	0	0	0	0	0	0	1	0	5521	1043	36	3	1617	3	FAM190A	4	91389384	Splice_Site	SNP	G	TCGA-22-4599-01A-01D-1441-08	1862404	91389384	99764892	130	14668										
EGF	1950	broad.mit.edu	37	chr4	110864470	110864470	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	taaattggataaatgaagaaGttatttggtcaaatcaacag	8	3	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:110864470G>A	uc003hzy.3	+	3	840	c.388G>A	c.(388-390)GTT>ATT	p.V130I	EGF_uc011cfu.1_Missense_Mutation_p.V130I|EGF_uc011cfv.1_Missense_Mutation_p.V130I	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	130	LDL-receptor class B 2.|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	AAATGAAGAAGTTATTTGGTC	0.284													50	69	---	---	---	---	PASS	A	110864470	A	A	110864470	3	1	37	1	0	0	0	0	1	0	0	0	4962	1029	36	3	398	3	EGF	4	110864470	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	19475086	110864470	80289806	131	14669										
KIAA1109	84162	broad.mit.edu	37	chr4	123150382	123150382	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cattgttgagcatggttgtgCtacaaatataaaggtaagtg	11	4	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:123150382C>T	uc003ieh.2	+	23	3074	c.3029C>T	c.(3028-3030)GCT>GTT	p.A1010V	KIAA1109_uc003iei.1_Missense_Mutation_p.A763V|KIAA1109_uc010ins.1_Missense_Mutation_p.A353V	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1010					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CATGGTTGTGCTACAAATATA	0.348													71	81	---	---	---	---	PASS	T	123150382	T	T	123150382	3	4	37	1	0	0	0	0	1	0	0	0	8208	797	28	3	3119	3	KIAA1109	4	123150382	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	12285912	123150382	68003894	132	14670										
ADAD1	132612	broad.mit.edu	37	chr4	123329103	123329103	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gctataggcacaggtgaataCaattacagccaggacattaa	9	8	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:123329103C>T	uc003ieo.2	+	8	997	c.765C>T	c.(763-765)TAC>TAT	p.Y255Y	ADAD1_uc003iep.2_Silent_p.Y255Y|ADAD1_uc003ieq.2_Silent_p.Y237Y	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	255	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						CAGGTGAATACAATTACAGCC	0.408													38	51	---	---	---	---	PASS	T	123329103	T	T	123329103	2	4	37	1	0	0	0	0	0	0	0	1	231	489	17	3		3	ADAD1	4	123329103	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	178721	123329103	67825173	133	14671										
ZNF827	152485	broad.mit.edu	37	chr4	146823589	146823589	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agggaaaggaaggagctggcCggtggagggtgctcctgacc	19	8	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:146823589C>A	uc003ikn.2	-	2	870	c.822G>T	c.(820-822)CCG>CCT	p.P274P	ZNF827_uc003ikm.2_Silent_p.P274P|ZNF827_uc010iox.2_Intron	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	274					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					AGGAGCTGGCCGGTGGAGGGT	0.577													56	59	---	---	---	---	PASS	A	146823589	A	A	146823589	2	1	37	1	0	0	0	0	0	0	0	1	18177	639	23	1		1	ZNF827	4	146823589	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	23494486	146823589	44330687	134	14672										
NR3C2	4306	broad.mit.edu	37	chr4	149357300	149357300	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctcgattttcaacattagggGagcatgtcagaggagttccc	11	9	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:149357300G>A	uc003ilj.3	-	2	1047	c.713C>T	c.(712-714)TCC>TTC	p.S238F	NR3C2_uc003ilk.3_Missense_Mutation_p.S238F|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	238	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	AACATTAGGGGAGCATGTCAG	0.537													32	42	---	---	---	---	PASS	A	149357300	A	A	149357300	3	1	37	1	0	0	0	0	1	0	0	0	10631	1174	41	2	2273	2	NR3C2	4	149357300	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2533711	149357300	41796976	135	14673										
GRIA2	2891	broad.mit.edu	37	chr4	158262492	158262492	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tctcctcctacacggctaacTtagctgccttcctgactgta	6	15	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:158262492T>G	uc003ipm.3	+	12	2380	c.1921T>G	c.(1921-1923)TTA>GTA	p.L641V	GRIA2_uc011cit.1_Missense_Mutation_p.L594V|GRIA2_uc003ipl.3_Missense_Mutation_p.L641V|GRIA2_uc003ipk.3_Missense_Mutation_p.L594V|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	641	Helical; (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	CACGGCTAACTTAGCTGCCTT	0.448													4	212	---	---	---	---	PASS	G	158262492	G	G	158262492	3	3	37	1	0	0	0	0	1	0	0	0	6768	1606	56	5	1967	5	GRIA2	4	158262492	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	8905192	158262492	32891784	136	14674										
TKTL2	84076	broad.mit.edu	37	chr4	164394289	164394289	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcaattctggtagatgtctgCgccatgctcaaggggtgcag	14	9	3	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr4:164394289C>T	uc003iqp.3	-	1	759	c.598G>A	c.(598-600)GCA>ACA	p.A200T		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	200						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TAGATGTCTGCGCCATGCTCA	0.522													29	90	---	---	---	---	PASS	T	164394289	T	T	164394289	3	4	37	1	0	0	0	0	1	0	0	0	15933	768	27	1	1286	1	TKTL2	4	164394289	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	6131797	164394289	26759987	137	14675										
KIAA0947	23379	broad.mit.edu	37	chr5	5473764	5473764	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttcaacctagtgaaaaatttGgtgaagacctaagtgataac	8	6	1	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:5473764G>C	uc003jdm.3	+	16	6538	c.6316G>C	c.(6316-6318)GGT>CGT	p.G2106R		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	2106										ovary(1)|central_nervous_system(1)	2						TGAAAAATTTGGTGAAGACCT	0.398													40	44	---	---	---	---	PASS	C	5473764	C	C	5473764	3	2	37	1	0	0	0	0	1	0	0	0	8202	1348	47	4	6378	4	KIAA0947	5	5473764	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08		5473764	175441496	138	14676										
CDH10	1008	broad.mit.edu	37	chr5	24487930	24487930	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggaatcatttccttcataggCataggttgcaagtgagtcgt	11	7	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:24487930C>T	uc003jgr.1	-	12	2541	c.2209G>A	c.(2209-2211)GCC>ACC	p.A737T	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	737	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CCTTCATAGGCATAGGTTGCA	0.473										HNSCC(23;0.051)			75	203	---	---	---	---	PASS	T	24487930	T	T	24487930	3	4	37	1	0	0	0	0	1	0	0	0	3096	710	25	3	161	3	CDH10	5	24487930	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	19014166	24487930	156427330	139	14677										
RNASEN	29102	broad.mit.edu	37	chr5	31508727	31508727	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	caagggcataaaaacacgcaCctggcctggatcgttgtacc	10	12	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:31508727C>A	uc003jhg.2	-	9	1946	c.1587_splice	c.e9+1	p.Q529_splice	RNASEN_uc003jhh.2_Splice_Site_p.Q492_splice|RNASEN_uc003jhi.2_Splice_Site_p.Q492_splice|RNASEN_uc010iui.1_Splice_Site_p.Q452_splice	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1						gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						AAAACACGCACCTGGCCTGGA	0.448													65	128	---	---	---	---	PASS	A	31508727	A	A	31508727	5	1	37	1	0	0	0	0	0	0	1	0	13417	521	18	3	2644	3	RNASEN	5	31508727	Splice_Site	SNP	C	TCGA-22-4599-01A-01D-1441-08	7020797	31508727	149406533	140	14678										
ADAMTS12	81792	broad.mit.edu	37	chr5	33576935	33576935	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggttgagctatcttgccactGtttcccacccaggtctcctt	8	14	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:33576935G>T	uc003jia.1	-	19	3359	c.3196C>A	c.(3196-3198)CAG>AAG	p.Q1066K	ADAMTS12_uc010iuq.1_Missense_Mutation_p.Q981K	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1066	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TCTTGCCACTGTTTCCCACCC	0.547										HNSCC(64;0.19)			60	92	---	---	---	---	PASS	T	33576935	T	T	33576935	3	4	37	1	0	0	0	0	1	0	0	0	257	1386	48	3	1612	3	ADAMTS12	5	33576935	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2068208	33576935	147338325	141	14679										
IL7R	3575	broad.mit.edu	37	chr5	35875689	35875689	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctttgtaagaaaccaagaaaAgtgagtgtttttggtgctta	10	4	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:35875689A>T	uc003jjs.2	+	7	965	c.876A>T	c.(874-876)AAA>AAT	p.K292N	IL7R_uc011coo.1_Missense_Mutation_p.K261M|IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	292	Cytoplasmic (Potential).				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			AACCAAGAAAAGTGAGTGTTT	0.413													23	86	---	---	---	---	PASS	T	35875689	T	T	35875689	3	4	37	1	0	0	0	0	1	0	0	0	7705	86	3	5	902	5	IL7R	5	35875689	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	2298754	35875689	145039571	142	14680										
LIFR	3977	broad.mit.edu	37	chr5	38489285	38489285	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttccacaggaatgtcttcccAttttactaatatcgaatctg	5	10	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:38489285A>T	uc010ive.1	-	16	2562	c.2230T>A	c.(2230-2232)TGG>AGG	p.W744R	LIFR_uc003jli.2_Missense_Mutation_p.W744R	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	744	Fibronectin type-III 6.|Extracellular (Potential).				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					ATGTCTTCCCATTTTACTAAT	0.363			T	PLAG1	salivary adenoma								16	105	---	---	---	---	PASS	T	38489285	T	T	38489285	3	4	37	1	0	0	0	0	1	0	0	0	8780	217	8	5	1083	5	LIFR	5	38489285	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	2613596	38489285	142425975	143	14681										
ISL1	3670	broad.mit.edu	37	chr5	50683495	50683495	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gaggacggtctcttctgccgAgcagaccacgatgtggtgga	15	10	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:50683495A>T	uc003jor.2	+	3	938	c.390A>T	c.(388-390)CGA>CGT	p.R130R		NM_002202	NP_002193	P61371	ISL1_HUMAN	islet-1	130	LIM zinc-binding 2.				generation of precursor metabolites and energy|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3		Lung NSC(810;0.000845)|Breast(144;0.0411)				TCTTCTGCCGAGCAGACCACG	0.632													28	33	---	---	---	---	PASS	T	50683495	T	T	50683495	2	4	37	1	0	0	0	0	0	0	0	1	7856	291	11	5		5	ISL1	5	50683495	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	12194210	50683495	130231765	144	14682										
HTR1A	3350	broad.mit.edu	37	chr5	63256748	63256748	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acccccagccttgctctccaCgcccagcctccagttcctgc	6	22	1	0	rs34158987		TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:63256748C>T	uc011cqt.1	-	1	799	c.799G>A	c.(799-801)GTG>ATG	p.V267M		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	267	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TTGCTCTCCACGCCCAGCCTC	0.667													5	100	---	---	---	---	PASS	T	63256748	T	T	63256748	3	4	37	1	0	0	0	0	1	0	0	0	7436	536	19	1	472	1	HTR1A	5	63256748	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	12573253	63256748	117658512	145	14683										
CRHBP	1393	broad.mit.edu	37	chr5	76249897	76249897	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagggccagttcaccttcacCgccgaccggccgcagctgca	11	18	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:76249897C>T	uc003ker.2	+	3	499	c.219C>T	c.(217-219)ACC>ACT	p.T73T	CRHBP_uc010izx.2_Silent_p.T73T	NM_001882	NP_001873	P24387	CRHBP_HUMAN	corticotropin releasing hormone binding protein	73					female pregnancy|learning or memory|signal transduction	soluble fraction					0		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-51)|Epithelial(54;8.79e-46)|all cancers(79;2.49e-41)		TCACCTTCACCGCCGACCGGC	0.662													28	29	---	---	---	---	PASS	T	76249897	T	T	76249897	2	4	37	1	0	0	0	0	0	0	0	1	3870	639	23	1		1	CRHBP	5	76249897	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	12993149	76249897	104665363	146	14684										
VCAN	1462	broad.mit.edu	37	chr5	82815811	82815811	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gatgatgaagacagaacactTacagttggatctgatgagag	12	5	1	6			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:82815811T>C	uc003kii.3	+	7	2042	c.1686T>C	c.(1684-1686)CTT>CTC	p.L562L	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Silent_p.L562L|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	562	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ACAGAACACTTACAGTTGGAT	0.413													9	159	---	---	---	---	PASS	C	82815811	C	C	82815811	2	2	37	1	0	0	0	0	0	0	0	1	17135	1741	61	5		5	VCAN	5	82815811	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	6565914	82815811	98099449	147	14685										
GPR98	84059	broad.mit.edu	37	chr5	90136422	90136422	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggagtgctgaaacaattggtCgtaccatcatatctccagct	9	10	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:90136422C>T	uc003kju.2	+	78	16735	c.16639C>T	c.(16639-16641)CGT>TGT	p.R5547C	GPR98_uc003kjt.2_Missense_Mutation_p.R3253C|GPR98_uc003kjw.2_Missense_Mutation_p.R1208C	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	5547	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity	p.R5547H(1)		ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AACAATTGGTCGTACCATCAT	0.388													26	72	---	---	---	---	PASS	T	90136422	T	T	90136422	3	4	37	1	0	0	0	0	1	0	0	0	6721	884	31	2	16949	2	GPR98	5	90136422	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	7320611	90136422	90778838	148	14686										
AQPEP	206338	broad.mit.edu	37	chr5	115339035	115339035	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agagttaattatgataaattAggttggaagaaactaaatca	8	2	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:115339035A>T	uc003kro.2	+	12	2159	c.1995A>T	c.(1993-1995)TTA>TTT	p.L665F	AQPEP_uc003krp.2_RNA|AQPEP_uc003krq.2_RNA|AQPEP_uc003krr.2_RNA|AQPEP_uc003krs.2_RNA	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	665	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						ATGATAAATTAGGTTGGAAGA	0.289													68	93	---	---	---	---	PASS	T	115339035	T	T	115339035	3	4	37	1	0	0	0	0	1	0	0	0	834	417	15	5	2041	5	AQPEP	5	115339035	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	25202613	115339035	65576225	149	14687										
DDX46	9879	broad.mit.edu	37	chr5	134121181	134121181	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tcatgactccaactcgagaaCtggctttacagattactaaa	6	10	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:134121181C>G	uc003kzw.2	+	11	1537	c.1369C>G	c.(1369-1371)CTG>GTG	p.L457V	DDX46_uc003kzv.1_RNA	NM_014829	NP_055644	Q7L014	DDX46_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46	457	Helicase ATP-binding.				mRNA processing|RNA splicing	Cajal body|nuclear speck	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AACTCGAGAACTGGCTTTACA	0.403													7	154	---	---	---	---	PASS	G	134121181	G	G	134121181	3	3	37	1	0	0	0	0	1	0	0	0	4364	564	20	4	1411	4	DDX46	5	134121181	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	18782146	134121181	46794079	150	14688										
PCDHB5	26167	broad.mit.edu	37	chr5	140515253	140515253	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gagctcttgcagcttgatatAaagaccggcaatttgcttct	9	9	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:140515253A>G	uc003liq.2	+	1	454	c.237A>G	c.(235-237)ATA>ATG	p.I79M		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	79	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCTTGATATAAAGACCGGCA	0.498													53	79	---	---	---	---	PASS	G	140515253	G	G	140515253	3	3	37	1	0	0	0	0	1	0	0	0	11545	352	13	5	239	5	PCDHB5	5	140515253	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	6394072	140515253	40400007	151	14689										
PCDHGA1	56114	broad.mit.edu	37	chr5	140711782	140711782	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acctctccatcaactccgacActggggtcctgtatgcgctg	9	15	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:140711782A>C	uc003lji.1	+	1	1531	c.1531A>C	c.(1531-1533)ACT>CCT	p.T511P	PCDHGA1_uc011dan.1_Missense_Mutation_p.T511P	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	511	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAACTCCGACACTGGGGTCCT	0.557													113	106	---	---	---	---	PASS	C	140711782	C	C	140711782	3	2	37	1	0	0	0	0	1	0	0	0	11550	159	6	5	1533	5	PCDHGA1	5	140711782	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	196529	140711782	40203478	152	14690										
PCDHGB1	56104	broad.mit.edu	37	chr5	140731777	140731777	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gatggaggacagccgccactCtccgccaccgccacgctgca	11	18	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:140731777C>G	uc003ljo.1	+	1	1950	c.1950C>G	c.(1948-1950)CTC>CTG	p.L650L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGA4_uc003ljq.1_5'Flank|PCDHGB1_uc011daq.1_Silent_p.L650L|PCDHGA4_uc003ljp.1_5'Flank	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	650	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCCGCCACTCTCCGCCACCG	0.687													33	42	---	---	---	---	PASS	G	140731777	G	G	140731777	2	3	37	1	0	0	0	0	0	0	0	1	11562	900	32	2		2	PCDHGB1	5	140731777	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	19995	140731777	40183483	153	14691										
HAVCR2	84868	broad.mit.edu	37	chr5	156531691	156531691	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agttacctgggccatgtcccCtggtggtaagcatccttgga	12	11	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:156531691C>A	uc003lwk.1	-	3	608	c.464G>T	c.(463-465)AGG>ATG	p.R155M		NM_032782	NP_116171	Q8TDQ0	HAVR2_HUMAN	T cell immunoglobulin mucin 3 precursor	155	Extracellular (Potential).					integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GCCATGTCCCCTGGTGGTAAG	0.478													14	17	---	---	---	---	PASS	A	156531691	A	A	156531691	3	1	37	1	0	0	0	0	1	0	0	0	6974	681	24	3	461	3	HAVCR2	5	156531691	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	15799914	156531691	24383569	154	14692										
ATP10B	23120	broad.mit.edu	37	chr5	160059348	160059348	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctcttcaccatctgagtccaGctcctttggggtctccagtc	8	15	4	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:160059348G>A	uc003lym.1	-	13	2255	c.1408C>T	c.(1408-1410)CTG>TTG	p.L470L	ATP10B_uc003lyn.2_Silent_p.L28L	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	470	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCTGAGTCCAGCTCCTTTGGG	0.512													50	69	---	---	---	---	PASS	A	160059348	A	A	160059348	2	1	37	1	0	0	0	0	0	0	0	1	1117	962	34	3		3	ATP10B	5	160059348	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	3527657	160059348	20855912	155	14693										
CCDC99	54908	broad.mit.edu	37	chr5	169018201	169018201	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	caactaagcagaagccatggAcaggaagtgaatgaactaaa	10	7	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:169018201A>T	uc003mae.3	+	3	588	c.309A>T	c.(307-309)GGA>GGT	p.G103G	CCDC99_uc010jjj.2_Silent_p.G32G|CCDC99_uc011deq.1_5'UTR|CCDC99_uc010jjk.2_5'UTR	NM_017785	NP_060255	Q96EA4	SPDLY_HUMAN	coiled-coil domain containing 99	103	Potential.				cell division|establishment of mitotic spindle orientation|mitotic metaphase plate congression|mitotic prometaphase|protein localization to kinetochore	condensed chromosome outer kinetochore|cytosol|microtubule organizing center|nucleus|spindle pole	kinetochore binding|protein binding			ovary(1)|liver(1)	2	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAAGCCATGGACAGGAAGTGA	0.358													37	42	---	---	---	---	PASS	T	169018201	T	T	169018201	2	4	37	1	0	0	0	0	0	0	0	1	2876	262	10	5		5	CCDC99	5	169018201	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	8958853	169018201	11897059	156	14694										
STC2	8614	broad.mit.edu	37	chr5	172744980	172744980	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggctcttgctacctcgctcaCccttggcacctcggccagtc	9	18	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:172744980C>T	uc003mco.1	-	4	2089	c.779G>A	c.(778-780)GGT>GAT	p.G260D	STC2_uc003mcn.1_Missense_Mutation_p.G175D	NM_003714	NP_003705	O76061	STC2_HUMAN	stanniocalcin 2 precursor	260					cell surface receptor linked signaling pathway|cell-cell signaling	extracellular region	hormone activity			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.223)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			ACCTCGCTCACCCTTGGCACC	0.657													25	78	---	---	---	---	PASS	T	172744980	T	T	172744980	3	4	37	1	0	0	0	0	1	0	0	0	15275	507	18	3	133	3	STC2	5	172744980	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	3726779	172744980	8170280	157	14695										
CPEB4	80315	broad.mit.edu	37	chr5	173317599	173317599	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cccctctccgtggagcagctAccagagtccgtcaccaacac	8	18	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:173317599A>G	uc003mcs.3	+	1	2269	c.863A>G	c.(862-864)TAC>TGC	p.Y288C	CPEB4_uc010jju.1_Missense_Mutation_p.Y288C|CPEB4_uc010jjv.2_Missense_Mutation_p.Y288C|CPEB4_uc011dfg.1_Missense_Mutation_p.Y288C|CPEB4_uc003mct.3_5'Flank|CPEB4_uc003mcu.3_5'Flank	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	288							nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TGGAGCAGCTACCAGAGTCCG	0.582													120	170	---	---	---	---	PASS	G	173317599	G	G	173317599	3	3	37	1	0	0	0	0	1	0	0	0	3803	391	14	5	865	5	CPEB4	5	173317599	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	572619	173317599	7597661	158	14696										
ZNF354B	117608	broad.mit.edu	37	chr5	178310363	178310363	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gctatagatgtaaagaatgtGgtaaatccttcagtcgaagg	11	5	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr5:178310363G>A	uc003mjl.2	+	5	1136	c.910G>A	c.(910-912)GGT>AGT	p.G304S	ZNF354B_uc003mjm.2_Missense_Mutation_p.G304S	NM_058230	NP_478137	Q96LW1	Z354B_HUMAN	zinc finger protein 354B	304	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	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)			TAAAGAATGTGGTAAATCCTT	0.393													48	47	---	---	---	---	PASS	A	178310363	A	A	178310363	3	1	37	1	0	0	0	0	1	0	0	0	17862	1348	47	3	924	3	ZNF354B	5	178310363	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	4992764	178310363	2604897	159	14697										
PHACTR1	221692	broad.mit.edu	37	chr6	13182901	13182901	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgaggtgctccaaccgtcagAcatcatggatgggccaggta	13	10	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:13182901A>T	uc010jpc.2	+	7	979	c.647A>T	c.(646-648)GAC>GTC	p.D216V	PHACTR1_uc011dir.1_Missense_Mutation_p.D216V|PHACTR1_uc003nag.1_Missense_Mutation_p.D216V|PHACTR1_uc003nah.1_Missense_Mutation_p.D216V	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	216						cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			CAACCGTCAGACATCATGGAT	0.602													58	91	---	---	---	---	PASS	T	13182901	T	T	13182901	3	4	37	1	0	0	0	0	1	0	0	0	11809	275	10	5	665	5	PHACTR1	6	13182901	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08		13182901	157932166	160	14698										
RANBP9	10048	broad.mit.edu	37	chr6	13632623	13632623	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttcaacatttttttgtttgcAgtgttcttgccacagtctct	6	9	3	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:13632623A>T	uc003nbb.2	-	12	1985	c.1926T>A	c.(1924-1926)ACT>ACA	p.T642T	RANBP9_uc003nba.2_Silent_p.T301T	NM_005493	NP_005484	Q96S59	RANB9_HUMAN	RAN binding protein 9	642	Interaction with FMR1.				axon guidance|microtubule nucleation|protein complex assembly	cytosol|microtubule associated complex|nucleus	Ran GTPase binding			lung(1)|skin(1)	2	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)			TTTTGTTTGCAGTGTTCTTGC	0.388													93	109	---	---	---	---	PASS	T	13632623	T	T	13632623	2	4	37	1	0	0	0	0	0	0	0	1	13032	175	7	5		5	RANBP9	6	13632623	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	449722	13632623	157482444	161	14699										
HIST1H2AB	8335	broad.mit.edu	37	chr6	26033762	26033762	+	Missense_Mutation	SNP	C	A	A													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	accgagtcttagccttggcgCgagctttaccgccttgtttg							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:26033762C>A	uc003nft.1	-	1	35	c.35G>T	c.(34-36)CGC>CTC	p.R12L	HIST1H3B_uc003nfs.1_5'Flank	NM_003513	NP_003504	P04908	H2A1B_HUMAN	histone cluster 1, H2ab	12					nucleosome assembly	nucleosome|nucleus	DNA binding				0						AGCCTTGGCGCGAGCTTTACC	0.532													40	55	---	---	---	---	PASS	A	26033762	A	A	26033762	3	1	37	1	0	0	0	0	1	0	0	0	7129	768	27	1	361	1	HIST1H2AB	6	26033762	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	12401139	26033762	145081305	162	14700	374	2								
HIST1H2AB	8335	broad.mit.edu	37	chr6	26033764	26033764	+	Silent	SNP	A	C	C													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cgagtcttagccttggcgcgAgctttaccgccttgtttgcc							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:26033764A>C	uc003nft.1	-	1	33	c.33T>G	c.(31-33)GCT>GCG	p.A11A	HIST1H3B_uc003nfs.1_5'Flank	NM_003513	NP_003504	P04908	H2A1B_HUMAN	histone cluster 1, H2ab	11					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CCTTGGCGCGAGCTTTACCGC	0.527													40	55	---	---	---	---	PASS	C	26033764	C	C	26033764	2	2	37	1	0	0	0	0	0	0	0	1	7129	291	11	5		5	HIST1H2AB	6	26033764	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	2	26033764	145081303	163	14701	374	2								
BTN2A2	10385	broad.mit.edu	37	chr6	26392893	26392893	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tctggaccctggagatgtttGgaaaccaataccgggccctg	12	11	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:26392893G>A	uc003nhq.2	+	8	1356	c.1270G>A	c.(1270-1272)GGA>AGA	p.G424R	BTN2A2_uc011dkg.1_3'UTR|BTN2A2_uc003nhr.2_Missense_Mutation_p.G308R|BTN2A2_uc011dkh.1_Missense_Mutation_p.G214R|BTN2A2_uc003nhs.2_Intron|BTN2A2_uc003nht.2_Missense_Mutation_p.G424R|BTN2A2_uc011dki.1_3'UTR	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	424	B30.2/SPRY.|Cytoplasmic (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						GGAGATGTTTGGAAACCAATA	0.562													32	30	---	---	---	---	PASS	A	26392893	A	A	26392893	3	1	37	1	0	0	0	0	1	0	0	0	1561	1349	47	3	1296	3	BTN2A2	6	26392893	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	359129	26392893	144722174	164	14702										
ZNF323	64288	broad.mit.edu	37	chr6	28294603	28294603	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atttcttgctttgatgccaaCtcctggttctcaggtatact	7	10	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:28294603C>G	uc003nla.2	-	4	961	c.561G>C	c.(559-561)GAG>GAC	p.E187D	ZNF323_uc003nld.2_Missense_Mutation_p.E187D|ZNF323_uc010jra.2_Missense_Mutation_p.E187D|ZNF323_uc003nlb.2_Missense_Mutation_p.E28D|ZNF323_uc010jrb.2_Missense_Mutation_p.E28D|ZNF323_uc003nlc.2_Missense_Mutation_p.E187D	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	187					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TTGATGCCAACTCCTGGTTCT	0.343													47	53	---	---	---	---	PASS	G	28294603	G	G	28294603	3	3	37	1	0	0	0	0	1	0	0	0	17840	564	20	4	663	4	ZNF323	6	28294603	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	1901710	28294603	142820464	165	14703										
OR10C1	442194	broad.mit.edu	37	chr6	29407970	29407970	+	Frame_Shift_Del	DEL	T	-	-													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccctccagtcccctatgtacTtcttcctgcgcaccctctcg					rs115316507	byFrequency	TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:29407970delT	uc011dlp.1	+	1	178	c.178delT	c.(178-180)TTCfs	p.F60fs	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	60	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCCTATGTACTTCTTCCTGCG	0.567													82	65	---	---	---	---		-	29407970	-	-	29407970	7	5	37	1	0	1	0	1	0	0	0	0	10898	1609	56	0	180	0	OR10C1	6	29407970	Frame_Shift_Del	DEL	T	TCGA-22-4599-01A-01D-1441-08	1113367	29407970	141707097	166	14704										
GABBR1	2550	broad.mit.edu	37	chr6	29588941	29588941	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atctcagttgtgatgtggccCtccaccgcctcagtcatctc	8	15	4	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:29588941C>A	uc003nmt.3	-	11	1596	c.1260G>T	c.(1258-1260)GAG>GAT	p.E420D	GABBR1_uc003nmp.3_Missense_Mutation_p.E303D|GABBR1_uc003nms.3_Missense_Mutation_p.E303D|GABBR1_uc003nmu.3_Missense_Mutation_p.E358D|GABBR1_uc011dlr.1_Missense_Mutation_p.E243D|GABBR1_uc011dls.1_Missense_Mutation_p.E420D	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	420	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	TGATGTGGCCCTCCACCGCCT	0.517													31	32	---	---	---	---	PASS	A	29588941	A	A	29588941	3	1	37	1	0	0	0	0	1	0	0	0	6155	680	24	3	1677	3	GABBR1	6	29588941	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	180971	29588941	141526126	167	14705										
CUL9	23113	broad.mit.edu	37	chr6	43181259	43181259	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctcgtgcccctcacctcaggGaatggccctttgaccctgca	9	17	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:43181259G>T	uc003ouk.2	+	28	5517	c.5442G>T	c.(5440-5442)GGG>GGT	p.G1814G	CUL9_uc003oul.2_Silent_p.G1814G|CUL9_uc010jyk.2_Silent_p.G966G|CUL9_uc003oun.2_5'Flank	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1814					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TCACCTCAGGGAATGGCCCTT	0.632													4	76	---	---	---	---	PASS	T	43181259	T	T	43181259	2	4	37	1	0	0	0	0	0	0	0	1	4061	1161	41	2		2	CUL9	6	43181259	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	13592318	43181259	127933808	168	14706										
PRSS35	167681	broad.mit.edu	37	chr6	84233821	84233821	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	accaaagagagggtaccagaGagcatctgcgggagagagcg	16	8	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:84233821G>T	uc003pjz.2	+	2	824	c.661G>T	c.(661-663)GAG>TAG	p.E221*	PRSS35_uc010kbm.2_Nonsense_Mutation_p.E221*	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	221	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		GGGTACCAGAGAGCATCTGCG	0.532													19	36	---	---	---	---	PASS	T	84233821	T	T	84233821	4	4	37	1	0	0	0	0	0	1	0	0	12624	943	33	2	663	2	PRSS35	6	84233821	Nonsense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	41052562	84233821	86881246	169	14707										
EPHA7	2045	broad.mit.edu	37	chr6	94066583	94066583	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tagttatcctctaatccagtCtgctggggcatgtatccaat	8	10	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:94066583C>A	uc003poe.2	-	5	1417	c.1176G>T	c.(1174-1176)CAG>CAT	p.Q392H	EPHA7_uc003pof.2_Missense_Mutation_p.Q392H|EPHA7_uc011eac.1_Missense_Mutation_p.Q392H	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	392	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		CTAATCCAGTCTGCTGGGGCA	0.458													31	29	---	---	---	---	PASS	A	94066583	A	A	94066583	3	1	37	1	0	0	0	0	1	0	0	0	5172	912	32	2	1872	2	EPHA7	6	94066583	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	9832762	94066583	77048484	170	14708										
ASCC3	10973	broad.mit.edu	37	chr6	101095237	101095237	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccaaagcctcttgtcaatgaCtttactaagattcaggagcc	7	11	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:101095237C>G	uc003pqk.2	-	21	3672	c.3343G>C	c.(3343-3345)GTC>CTC	p.V1115L	ASCC3_uc011eai.1_Missense_Mutation_p.V1017L	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1115	SEC63 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		TTGTCAATGACTTTACTAAGA	0.408													48	54	---	---	---	---	PASS	G	101095237	G	G	101095237	3	3	37	1	0	0	0	0	1	0	0	0	1033	565	20	4	3353	4	ASCC3	6	101095237	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	7028654	101095237	70019830	171	14709										
OSTM1	28962	broad.mit.edu	37	chr6	108395464	108395464	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctgtacccacccccgcggctCggctgatgttgtccatcttg	10	16	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:108395464C>A	uc003psd.2	-	1	478	c.392G>T	c.(391-393)CGA>CTA	p.R131L		NM_014028	NP_054747	Q86WC4	OSTM1_HUMAN	osteopetrosis associated transmembrane protein 1	131	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1		all_cancers(87;3.82e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000195)|Colorectal(196;0.0293)|all_lung(197;0.0938)		BRCA - Breast invasive adenocarcinoma(108;0.0131)|Epithelial(106;0.0438)|OV - Ovarian serous cystadenocarcinoma(136;0.0571)|all cancers(137;0.0581)		CCCCGCGGCTCGGCTGATGTT	0.602													17	21	---	---	---	---	PASS	A	108395464	A	A	108395464	3	1	37	1	0	0	0	0	1	0	0	0	11298	884	31	2	636	2	OSTM1	6	108395464	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	7300227	108395464	62719603	172	14710										
C6orf170	221322	broad.mit.edu	37	chr6	121427234	121427234	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aggcaactcagccttcagtaGcatttcaatataatgggtgc	9	9	3	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:121427234G>C	uc003pyo.1	-	30	3468	c.3400C>G	c.(3400-3402)CTA>GTA	p.L1134V		NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	1134	Rab-GAP TBC.				multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		GCCTTCAGTAGCATTTCAATA	0.388													6	246	---	---	---	---	PASS	C	121427234	C	C	121427234	3	2	37	1	0	0	0	0	1	0	0	0	2344	962	34	4	385	4	C6orf170	6	121427234	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	13031770	121427234	49687833	173	14711										
C6orf170	221322	broad.mit.edu	37	chr6	121625726	121625726	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctacaccagctgaaagagtaGgaatatgattttccctagaa	8	8	0	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr6:121625726G>C	uc003pyo.1	-	7	883	c.815C>G	c.(814-816)CCT>CGT	p.P272R	C6orf170_uc003pyq.1_RNA	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	272					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		TGAAAGAGTAGGAATATGATT	0.289													40	52	---	---	---	---	PASS	C	121625726	C	C	121625726	3	2	37	1	0	0	0	0	1	0	0	0	2344	1000	35	4	3062	4	C6orf170	6	121625726	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	198492	121625726	49489341	174	14712										
INTS1	26173	broad.mit.edu	37	chr7	1513289	1513289	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggatgaactgcacaaacttgTtgatgaaggcagccagatgg	13	7	0	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:1513289T>G	uc003skn.2	-	42	5971	c.5870A>C	c.(5869-5871)AAC>ACC	p.N1957T	INTS1_uc003skm.1_Missense_Mutation_p.N94T	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	1957					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CACAAACTTGTTGATGAAGGC	0.567											OREG0017827	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	22	---	---	---	---	PASS	G	1513289	G	G	1513289	3	3	37	1	0	0	0	0	1	0	0	0	7775	1725	60	5	730	5	INTS1	7	1513289	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08		1513289	157625374	175	14713										
TMEM184A	202915	broad.mit.edu	37	chr7	1589575	1589575	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cttcaccaggcagaactgcaGagtggcctgggggcgacggc	16	12	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:1589575G>C	uc003skv.3	-	6	876	c.559C>G	c.(559-561)CTG>GTG	p.L187V	TMEM184A_uc003skt.3_5'UTR|TMEM184A_uc003skw.3_5'UTR	NM_001097620	NP_001091089	Q6ZMB5	T184A_HUMAN	transmembrane protein 184A	187	Helical; (Potential).					integral to membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;5.88e-15)		CAGAACTGCAGAGTGGCCTGG	0.657													43	50	---	---	---	---	PASS	C	1589575	C	C	1589575	3	2	37	1	0	0	0	0	1	0	0	0	16101	933	33	2	698	2	TMEM184A	7	1589575	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	76286	1589575	157549088	176	14714										
ICA1	3382	broad.mit.edu	37	chr7	8198194	8198194	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgtgagacaagagattgcatCtgctcgctccaagaagatcc	10	10	1	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:8198194C>G	uc003srm.2	-	7	735	c.668G>C	c.(667-669)AGA>ACA	p.R223T	ICA1_uc010ktr.2_Missense_Mutation_p.R223T|ICA1_uc003srl.2_Missense_Mutation_p.R211T|ICA1_uc003srn.3_Missense_Mutation_p.R149T|ICA1_uc003srp.3_Missense_Mutation_p.R222T|ICA1_uc010kts.2_RNA|ICA1_uc003srq.2_Missense_Mutation_p.R223T|ICA1_uc003srr.2_Missense_Mutation_p.R222T|ICA1_uc003sro.3_Missense_Mutation_p.R223T|ICA1_uc011jxg.1_Missense_Mutation_p.R223T|ICA1_uc003srs.1_Missense_Mutation_p.R223T	NM_022307	NP_071682	Q05084	ICA69_HUMAN	islet cell autoantigen 1	223	AH.				neurotransmitter transport	cell junction|cytosol|Golgi membrane|nucleus|secretory granule membrane|synaptic vesicle membrane|transport vesicle membrane				central_nervous_system(1)	1		Ovarian(82;0.0612)		UCEC - Uterine corpus endometrioid carcinoma (126;0.246)		GAGATTGCATCTGCTCGCTCC	0.358													48	158	---	---	---	---	PASS	G	8198194	G	G	8198194	3	3	37	1	0	0	0	0	1	0	0	0	7477	913	32	2	815	2	ICA1	7	8198194	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	6608619	8198194	150940469	177	14715										
TWISTNB	221830	broad.mit.edu	37	chr7	19748537	19748537	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	caccagcgcacaagcagcggCataagtcggcaactctaggc	11	14	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:19748537C>A	uc003sup.1	-	1	124	c.103G>T	c.(103-105)GCC>TCC	p.A35S		NM_001002926	NP_001002926	Q3B726	RPA43_HUMAN	TWIST neighbor	35						microtubule cytoskeleton|nucleolus	DNA-directed RNA polymerase activity			ovary(1)	1						CAAGCAGCGGCATAAGTCGGC	0.652											OREG0017879	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	55	---	---	---	---	PASS	A	19748537	A	A	19748537	3	1	37	1	0	0	0	0	1	0	0	0	16781	710	25	3	929	3	TWISTNB	7	19748537	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	11550343	19748537	139390126	178	14716										
NOD1	10392	broad.mit.edu	37	chr7	30496374	30496374	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggcaggcacacacaatctccGcatcttcggccgagaagtag	11	13	2	1	rs6947097	byFrequency	TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:30496374G>A	uc003tav.2	-	4	687	c.164C>T	c.(163-165)GCG>GTG	p.A55V	NOD1_uc010kvs.2_Missense_Mutation_p.A55V|NOD1_uc003tax.2_RNA|NOD1_uc003tay.2_RNA|NOD1_uc010kvt.2_RNA|NOD1_uc010kvu.2_RNA	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	55	CARD.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						CACAATCTCCGCATCTTCGGC	0.567													80	72	---	---	---	---	PASS	A	30496374	A	A	30496374	3	1	37	1	0	0	0	0	1	0	0	0	10516	1087	38	1	2741	1	NOD1	7	30496374	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	10747837	30496374	128642289	179	14717										
ADCYAP1R1	117	broad.mit.edu	37	chr7	31123762	31123762	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tctttttgctgcagacatggGagtggtgagccggaactgca	14	8	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:31123762G>A	uc003tca.1	+	7	558	c.335G>A	c.(334-336)GGA>GAA	p.G112E	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.G91E|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.G112E|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.G112E|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.G112E|ADCYAP1R1_uc003tcf.1_5'Flank	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	112	Extracellular (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						GCAGACATGGGAGTGGTGAGC	0.483													21	82	---	---	---	---	PASS	A	31123762	A	A	31123762	3	1	37	1	0	0	0	0	1	0	0	0	303	1174	41	2	357	2	ADCYAP1R1	7	31123762	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	627388	31123762	128014901	180	14718										
AMPH	273	broad.mit.edu	37	chr7	38475876	38475876	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaaaagcacctgatacctgaGacatgggtgagtgggtcact	12	8	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:38475876G>C	uc003tgu.2	-	12	1199	c.1130C>G	c.(1129-1131)TCT>TGT	p.S377C	AMPH_uc003tgv.2_Missense_Mutation_p.S377C|AMPH_uc003tgt.2_Missense_Mutation_p.S130C	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	377					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						TGATACCTGAGACATGGGTGA	0.463													27	114	---	---	---	---	PASS	C	38475876	C	C	38475876	3	2	37	1	0	0	0	0	1	0	0	0	588	942	33	2	997	2	AMPH	7	38475876	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	7352114	38475876	120662787	181	14719										
VPS41	27072	broad.mit.edu	37	chr7	38908827	38908827	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gaaagcctttcatacttcagCttgggttcctcttcgctctc	7	13	4	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:38908827C>A	uc003tgy.2	-	3	113	c.87G>T	c.(85-87)AAG>AAT	p.K29N	VPS41_uc003tgz.2_Missense_Mutation_p.K29N|VPS41_uc010kxn.2_Missense_Mutation_p.K29N	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	29					Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						CATACTTCAGCTTGGGTTCCT	0.418													87	146	---	---	---	---	PASS	A	38908827	A	A	38908827	3	1	37	1	0	0	0	0	1	0	0	0	17207	796	28	3	2585	3	VPS41	7	38908827	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	432951	38908827	120229836	182	14720										
H2AFV	94239	broad.mit.edu	37	chr7	44875239	44875239	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tttgagatccttagaagcatTacctgccagctccagcacct	7	13	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:44875239T>C	uc003tma.2	-	4	369	c.214A>G	c.(214-216)AAT>GAT	p.N72D	H2AFV_uc003tlz.2_Missense_Mutation_p.N72D|H2AFV_uc011kca.1_5'Flank|H2AFV_uc003tmb.2_Missense_Mutation_p.N34D|H2AFV_uc003tmc.2_Intron|H2AFV_uc003tmd.2_Missense_Mutation_p.N46D	NM_012412	NP_036544	Q71UI9	H2AV_HUMAN	H2A histone family, member V isoform 1	72					nucleosome assembly	nucleosome|nucleus	DNA binding				0						TTAGAAGCATTACCTGCCAGC	0.433													12	94	---	---	---	---	PASS	C	44875239	C	C	44875239	3	2	37	1	0	0	0	0	1	0	0	0	6927	1754	61	5	204	5	H2AFV	7	44875239	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	5966412	44875239	114263424	183	14721										
TNS3	64759	broad.mit.edu	37	chr7	47454736	47454736	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgccgtggaggatgacaaaaTgcaggaacaggggagaggca	17	6	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:47454736T>C	uc003tnv.2	-	11	909	c.542A>G	c.(541-543)CAT>CGT	p.H181R	TNS3_uc003tnw.2_Missense_Mutation_p.H181R|TNS3_uc010kyo.1_Missense_Mutation_p.H181R	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	181	C2 tensin-type.					focal adhesion	protein binding			ovary(4)	4						GATGACAAAATGCAGGAACAG	0.567													17	66	---	---	---	---	PASS	C	47454736	C	C	47454736	3	2	37	1	0	0	0	0	1	0	0	0	16341	1464	51	5	3879	5	TNS3	7	47454736	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	2579497	47454736	111683927	184	14722										
COBL	23242	broad.mit.edu	37	chr7	51111274	51111274	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctcatcactcctgagtcctcGgtcgtgtcctccgacgcaaa	8	16	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:51111274G>A	uc003tpr.3	-	8	1397	c.1212C>T	c.(1210-1212)ACC>ACT	p.T404T	COBL_uc003tps.2_Silent_p.T461T|COBL_uc011kcl.1_Silent_p.T404T|COBL_uc010kzc.2_Silent_p.T404T|COBL_uc003tpp.3_Silent_p.T190T|COBL_uc003tpq.3_Silent_p.T345T	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	404										skin(3)|ovary(2)	5	Glioma(55;0.08)					CTGAGTCCTCGGTCGTGTCCT	0.602													10	127	---	---	---	---	PASS	A	51111274	A	A	51111274	2	1	37	1	0	0	0	0	0	0	0	1	3653	1103	39	1		1	COBL	7	51111274	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	3656538	51111274	108027389	185	14723										
ZNF479	90827	broad.mit.edu	37	chr7	57194380	57194380	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acaatccaggcattgccattCctccagagagaattctatag	7	11	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:57194380C>A	uc010kzo.2	-	3	356	c.85G>T	c.(85-87)GAA>TAA	p.E29*		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	29	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	p.E29K(1)		ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			CATTGCCATTCCTCCAGAGAG	0.438													41	124	---	---	---	---	PASS	A	57194380	A	A	57194380	4	1	37	1	0	0	0	0	0	1	0	0	17930	864	30	2	1501	2	ZNF479	7	57194380	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	6083106	57194380	101944283	186	14724										
ZNF107	51427	broad.mit.edu	37	chr7	64166913	64166913	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	accccaagcaaaatattccaGtgtaataaatatgtgaaagt	6	7	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:64166913G>T	uc003ttd.2	+	7	1017	c.231G>T	c.(229-231)CAG>CAT	p.Q77H	ZNF107_uc003tte.2_Missense_Mutation_p.Q77H	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	77	C2H2-type 1; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				AAATATTCCAGTGTAATAAAT	0.333													3	97	---	---	---	---	PASS	T	64166913	T	T	64166913	3	4	37	1	0	0	0	0	1	0	0	0	17712	1020	36	3	237	3	ZNF107	7	64166913	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	6972533	64166913	94971750	187	14725										
PCLO	27445	broad.mit.edu	37	chr7	82784768	82784768	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttgagctggagtctttccaaCtccaggaggctgagctaaag	12	9	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:82784768C>A	uc003uhx.2	-	2	1478	c.1189G>T	c.(1189-1191)GTT>TTT	p.V397F	PCLO_uc003uhv.2_Missense_Mutation_p.V397F	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GTCTTTCCAACTCCAGGAGGC	0.587													109	124	---	---	---	---	PASS	A	82784768	A	A	82784768	3	1	37	1	0	0	0	0	1	0	0	0	11583	565	20	3	14352	3	PCLO	7	82784768	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	18617855	82784768	76353895	188	14726										
MGC26647	219557	broad.mit.edu	37	chr7	88424072	88424072	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agtagtcagcaacatcttttCtttctacatttgcttgtatc	5	9	4	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:88424072C>A	uc003ujv.2	-	2	367	c.185G>T	c.(184-186)AGA>ATA	p.R62I	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	62											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			AACATCTTTTCTTTCTACATT	0.388													111	165	---	---	---	---	PASS	A	88424072	A	A	88424072	3	1	37	1	0	0	0	0	1	0	0	0	9550	913	32	2	580	2	MGC26647	7	88424072	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	5639304	88424072	70714591	189	14727										
SLC26A3	1811	broad.mit.edu	37	chr7	107430025	107430025	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgtcaactgaaaaatgaattTgagttgggaaaccaaaacat	8	5	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:107430025T>A	uc003ver.2	-	6	890	c.679A>T	c.(679-681)AAA>TAA	p.K227*	SLC26A3_uc003ves.2_Nonsense_Mutation_p.K192*	NM_000111	NP_000102	P40879	S26A3_HUMAN	solute carrier family 26, member 3	227					excretion	integral to membrane|membrane fraction	inorganic anion exchanger activity|secondary active sulfate transmembrane transporter activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(3)|skin(1)	4						AAAATGAATTTGAGTTGGGAA	0.388													25	84	---	---	---	---	PASS	A	107430025	A	A	107430025	4	1	37	1	0	0	0	0	0	1	0	0	14518	1821	63	5	1679	5	SLC26A3	7	107430025	Nonsense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	19005953	107430025	51708638	190	14728										
PPP1R3A	5506	broad.mit.edu	37	chr7	113519605	113519605	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctttgttcttcatcatccttAccattgccataataatcttc	2	12	4	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:113519605A>G	uc010ljy.1	-	4	1573	c.1542T>C	c.(1540-1542)GGT>GGC	p.G514G		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	514					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						CATCATCCTTACCATTGCCAT	0.338													36	104	---	---	---	---	PASS	G	113519605	G	G	113519605	2	3	37	1	0	0	0	0	0	0	0	1	12371	378	14	5		5	PPP1R3A	7	113519605	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	6089580	113519605	45619058	191	14729										
KCND2	3751	broad.mit.edu	37	chr7	119915681	119915681	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cttcttgcttttctcgctcaCcatggctatcatcatcttcg	5	14	6	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:119915681C>T	uc003vjj.1	+	1	1960	c.995C>T	c.(994-996)ACC>ATC	p.T332I		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	332	Helical; Name=Segment S5; (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TTCTCGCTCACCATGGCTATC	0.507													89	105	---	---	---	---	PASS	T	119915681	T	T	119915681	3	4	37	1	0	0	0	0	1	0	0	0	8019	507	18	3	997	3	KCND2	7	119915681	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	6396076	119915681	39222982	192	14730										
HYAL4	23553	broad.mit.edu	37	chr7	123517197	123517197	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cttttagcaagttatcgaagCattcagttgtgagataattg	9	5	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:123517197C>T	uc003vlc.2	+	5	2072	c.1434C>T	c.(1432-1434)AGC>AGT	p.S478S	HYAL4_uc011knz.1_3'UTR	NM_012269	NP_036401	Q2M3T9	HYAL4_HUMAN	hyaluronoglucosaminidase 4	478	Cytoplasmic (Potential).				fusion of sperm to egg plasma membrane|glycosaminoglycan catabolic process	integral to membrane	hyalurononglucosaminidase activity			skin(1)	1						GTTATCGAAGCATTCAGTTGT	0.383													81	153	---	---	---	---	PASS	T	123517197	T	T	123517197	2	4	37	1	0	0	0	0	0	0	0	1	7466	709	25	3		3	HYAL4	7	123517197	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	3601516	123517197	35621466	193	14731										
LRGUK	136332	broad.mit.edu	37	chr7	133876430	133876430	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctgtcataccacaagaccacCttactttggagaaggggatc	9	11	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:133876430C>A	uc003vrm.1	+	12	1374	c.1358C>A	c.(1357-1359)CCT>CAT	p.P453H		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	453	Guanylate kinase-like.						ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						ACAAGACCACCTTACTTTGGA	0.338													4	215	---	---	---	---	PASS	A	133876430	A	A	133876430	3	1	37	1	0	0	0	0	1	0	0	0	8943	681	24	3	1404	3	LRGUK	7	133876430	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	10359233	133876430	25262233	194	14732										
SLC37A3	84255	broad.mit.edu	37	chr7	140051150	140051150	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aacagaactatcatcttggaTtgaataattcggctcatatt	6	7	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:140051150T>C	uc003vvo.2	-	9	971	c.805A>G	c.(805-807)ATC>GTC	p.I269V	SLC37A3_uc003vvp.2_Missense_Mutation_p.I269V|SLC37A3_uc010lnh.2_Missense_Mutation_p.I269V|SLC37A3_uc011kqz.1_RNA|SLC37A3_uc011kra.1_3'UTR|SLC37A3_uc011krb.1_3'UTR	NM_207113	NP_996996	Q8NCC5	SPX3_HUMAN	solute carrier family 37 (glycerol-3-phosphate	269					carbohydrate transport|transmembrane transport	integral to membrane				ovary(3)	3	Melanoma(164;0.0142)					TCATCTTGGATTGAATAATTC	0.438													101	122	---	---	---	---	PASS	C	140051150	C	C	140051150	3	2	37	1	0	0	0	0	1	0	0	0	14599	1493	52	5	856	5	SLC37A3	7	140051150	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	6174720	140051150	19087513	195	14733										
ZNF786	136051	broad.mit.edu	37	chr7	148768904	148768904	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctccaagaggccggcccctcCcggctgtgctggcaccggcg	14	18	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:148768904C>A	uc003wfh.2	-	4	1097	c.960G>T	c.(958-960)CGG>CGT	p.R320R	ZNF786_uc011kuk.1_Silent_p.R283R|ZNF786_uc003wfi.2_Silent_p.R234R	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	320					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			CCGGCCCCTCCCGGCTGTGCT	0.721													6	15	---	---	---	---	PASS	A	148768904	A	A	148768904	2	1	37	1	0	0	0	0	0	0	0	1	18155	610	22	3		3	ZNF786	7	148768904	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	8717754	148768904	10369759	196	14734										
ASB10	136371	broad.mit.edu	37	chr7	150873210	150873210	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggggctcacctagtagagcaCgccctcaaaatccagctgca	10	14	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:150873210C>A	uc003wjm.1	-	5	1654	c.1528G>T	c.(1528-1530)GTG>TTG	p.V510L	ASB10_uc003wjl.1_Missense_Mutation_p.V472L|ASB10_uc003wjn.1_Missense_Mutation_p.V450L	NM_001142459	NP_001135931	Q8WXI3	ASB10_HUMAN	ankyrin repeat and SOCS box-containing 10	465					intracellular signal transduction						0			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TAGTAGAGCACGCCCTCAAAA	0.672													20	27	---	---	---	---	PASS	A	150873210	A	A	150873210	3	1	37	1	0	0	0	0	1	0	0	0	1014	536	19	1	14	1	ASB10	7	150873210	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2104306	150873210	8265453	197	14735										
DPP6	1804	broad.mit.edu	37	chr7	154561232	154561232	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccccatcatggagctcccaaCttacaccggctccatctacc	5	19	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:154561232C>A	uc003wlk.2	+	9	1118	c.989C>A	c.(988-990)ACT>AAT	p.T330N	DPP6_uc003wli.2_Missense_Mutation_p.T266N|DPP6_uc003wlm.2_Missense_Mutation_p.T268N|DPP6_uc011kvq.1_Missense_Mutation_p.T223N	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	330	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			GAGCTCCCAACTTACACCGGC	0.527													49	32	---	---	---	---	PASS	A	154561232	A	A	154561232	3	1	37	1	0	0	0	0	1	0	0	0	4730	565	20	3	1139	3	DPP6	7	154561232	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	3688022	154561232	4577431	198	14736										
DPP6	1804	broad.mit.edu	37	chr7	154672604	154672604	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cctcgacctcacaggacgatGctgaaggagcagtacattga	11	11	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr7:154672604G>T	uc003wlk.2	+	21	2214	c.2085G>T	c.(2083-2085)ATG>ATT	p.M695I	DPP6_uc003wli.2_Missense_Mutation_p.M631I|DPP6_uc003wlm.2_Missense_Mutation_p.M633I|DPP6_uc011kvq.1_Missense_Mutation_p.M588I	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	695	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			ACAGGACGATGCTGAAGGAGC	0.562													16	117	---	---	---	---	PASS	T	154672604	T	T	154672604	3	4	37	1	0	0	0	0	1	0	0	0	4730	1319	46	3	2283	3	DPP6	7	154672604	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	111372	154672604	4466059	199	14737										
TNKS	8658	broad.mit.edu	37	chr8	9605566	9605566	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcggctttattgataaaataCaacacgtgtgtaaatgcaac	8	7	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:9605566C>T	uc003wss.2	+	18	2681	c.2676C>T	c.(2674-2676)TAC>TAT	p.Y892Y	TNKS_uc011kww.1_Silent_p.Y655Y|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	892	ANK 14.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		TGATAAAATACAACACGTGTG	0.438													56	87	---	---	---	---	PASS	T	9605566	T	T	9605566	2	4	37	1	0	0	0	0	0	0	0	1	16316	489	17	3		3	TNKS	8	9605566	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08		9605566	136758456	200	14738										
RP1L1	94137	broad.mit.edu	37	chr8	10470776	10470776	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cggggggttgctaggaccagGcctttctggcagccgtggcg	18	11	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:10470776G>T	uc003wtc.2	-	4	1061	c.832C>A	c.(832-834)CCT>ACT	p.P278T		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	278					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CTAGGACCAGGCCTTTCTGGC	0.667													47	56	---	---	---	---	PASS	T	10470776	T	T	10470776	3	4	37	1	0	0	0	0	1	0	0	0	13533	1203	42	3	6374	3	RP1L1	8	10470776	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	865210	10470776	135893246	201	14739										
SLC18A1	6570	broad.mit.edu	37	chr8	20004839	20004839	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	catagacgatgttgatgaccCcagtgatgaccatgagccag	11	10	0	6			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:20004839C>A	uc011kyq.1	-	16	1865	c.1394G>T	c.(1393-1395)GGG>GTG	p.G465V	SLC18A1_uc003wzl.2_Missense_Mutation_p.G252V|SLC18A1_uc003wzm.2_Missense_Mutation_p.G465V|SLC18A1_uc011kyr.1_Intron|SLC18A1_uc003wzn.2_Missense_Mutation_p.G433V|SLC18A1_uc010ltf.2_RNA|SLC18A1_uc003wzo.2_Missense_Mutation_p.G433V	NM_001135691	NP_001129163	P54219	VMAT1_HUMAN	solute carrier family 18 (vesicular monoamine),	465	Helical; (Potential).				neurotransmitter transport	clathrin sculpted monoamine transport vesicle membrane|integral to membrane|membrane fraction	drug transmembrane transporter activity|monoamine transmembrane transporter activity			ovary(2)	2				Colorectal(74;0.0747)		GTTGATGACCCCAGTGATGAC	0.512													31	42	---	---	---	---	PASS	A	20004839	A	A	20004839	3	1	37	1	0	0	0	0	1	0	0	0	14425	623	22	3	191	3	SLC18A1	8	20004839	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	9534063	20004839	126359183	202	14740										
PNOC	5368	broad.mit.edu	37	chr8	28196728	28196728	+	Missense_Mutation	SNP	C	G	G													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agcatctgcggcgaatgcccCgagtccggagcttgttccag							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:28196728C>G	uc010lva.2	+	3	506	c.298C>G	c.(298-300)CGA>GGA	p.R100G	PNOC_uc003xgp.2_Missense_Mutation_p.R100G|PNOC_uc011lau.1_Missense_Mutation_p.R36G	NM_006228	NP_006219	Q13519	PNOC_HUMAN	prepronociceptin precursor	100					neuropeptide signaling pathway|sensory perception|synaptic transmission	extracellular region	neuropeptide hormone activity|opioid peptide activity			central_nervous_system(1)	1		Ovarian(32;0.000953)		KIRC - Kidney renal clear cell carcinoma(542;0.104)|Kidney(114;0.125)|Colorectal(74;0.145)|BRCA - Breast invasive adenocarcinoma(99;0.245)		GCGAATGCCCCGAGTCCGGAG	0.632													29	30	---	---	---	---	PASS	G	28196728	G	G	28196728	3	3	37	1	0	0	0	0	1	0	0	0	12162	644	23	4	304	4	PNOC	8	28196728	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	8191889	28196728	118167294	203	14741	375	2								
PNOC	5368	broad.mit.edu	37	chr8	28196729	28196729	+	Missense_Mutation	SNP	G	A	A													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcatctgcggcgaatgccccGagtccggagcttgttccagg							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:28196729G>A	uc010lva.2	+	3	507	c.299G>A	c.(298-300)CGA>CAA	p.R100Q	PNOC_uc003xgp.2_Missense_Mutation_p.R100Q|PNOC_uc011lau.1_Missense_Mutation_p.R36Q	NM_006228	NP_006219	Q13519	PNOC_HUMAN	prepronociceptin precursor	100					neuropeptide signaling pathway|sensory perception|synaptic transmission	extracellular region	neuropeptide hormone activity|opioid peptide activity			central_nervous_system(1)	1		Ovarian(32;0.000953)		KIRC - Kidney renal clear cell carcinoma(542;0.104)|Kidney(114;0.125)|Colorectal(74;0.145)|BRCA - Breast invasive adenocarcinoma(99;0.245)		CGAATGCCCCGAGTCCGGAGC	0.632													31	30	---	---	---	---	PASS	A	28196729	A	A	28196729	3	1	37	1	0	0	0	0	1	0	0	0	12162	1058	37	2	305	2	PNOC	8	28196729	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1	28196729	118167293	204	14742	375	2								
CHRNA6	8973	broad.mit.edu	37	chr8	42612075	42612075	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggtcagagacccatacttgtTatagagaacaatgtcgggct	11	8	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:42612075T>C	uc003xpj.2	-	4	416	c.370A>G	c.(370-372)AAC>GAC	p.N124D	CHRNA6_uc011lcw.1_Missense_Mutation_p.N109D	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	124	Extracellular.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			CCATACTTGTTATAGAGAACA	0.448													10	111	---	---	---	---	PASS	C	42612075	C	C	42612075	3	2	37	1	0	0	0	0	1	0	0	0	3387	1754	61	5	1126	5	CHRNA6	8	42612075	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	14415346	42612075	103751947	205	14743										
FNTA	2339	broad.mit.edu	37	chr8	42924730	42924730	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agttcttttgaagtcacttcAgaaggatctacatgaggaaa	9	6	4	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:42924730A>T	uc003xps.2	+	4	482	c.434A>T	c.(433-435)CAG>CTG	p.Q145L	FNTA_uc003xpt.2_Missense_Mutation_p.Q54L|FNTA_uc003xpu.2_Missense_Mutation_p.Q78L|FNTA_uc003xpv.2_RNA	NM_002027	NP_002018	P49354	FNTA_HUMAN	farnesyltransferase, CAAX box, alpha isoform a	145	PFTA 1.				cellular component disassembly involved in apoptosis|positive regulation of deacetylase activity|positive regulation of tubulin deacetylation|protein farnesylation|protein geranylgeranylation|transforming growth factor beta receptor signaling pathway	cytosol|microtubule associated complex	alpha-tubulin binding|CAAX-protein geranylgeranyltransferase activity|microtubule binding|protein farnesyltransferase activity			ovary(1)	1	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			AAGTCACTTCAGAAGGATCTA	0.333													6	90	---	---	---	---	PASS	T	42924730	T	T	42924730	3	4	37	1	0	0	0	0	1	0	0	0	5977	188	7	5	448	5	FNTA	8	42924730	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	312655	42924730	103439292	206	14744										
SNTG1	54212	broad.mit.edu	37	chr8	51465633	51465633	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gaatgcctttcaagtcattgCtgtggatggggtctgcactg	13	8	3	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:51465633C>A	uc010lxy.1	+	13	1075	c.704C>A	c.(703-705)GCT>GAT	p.A235D	SNTG1_uc003xqs.1_Missense_Mutation_p.A235D|SNTG1_uc010lxz.1_Missense_Mutation_p.A235D|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	235					cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				CAAGTCATTGCTGTGGATGGG	0.423													12	87	---	---	---	---	PASS	A	51465633	A	A	51465633	3	1	37	1	0	0	0	0	1	0	0	0	14874	797	28	3	742	3	SNTG1	8	51465633	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	8540903	51465633	94898389	207	14745										
PXDNL	137902	broad.mit.edu	37	chr8	52366272	52366272	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gggtgtgggtggcctgtggcCatacattccaaagttgtgct	15	8	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:52366272C>A	uc003xqu.3	-	10	1157	c.1056G>T	c.(1054-1056)ATG>ATT	p.M352I		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	352	Ig-like C2-type 2.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GGCCTGTGGCCATACATTCCA	0.502													3	70	---	---	---	---	PASS	A	52366272	A	A	52366272	3	1	37	1	0	0	0	0	1	0	0	0	12848	594	21	3	3391	3	PXDNL	8	52366272	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	900639	52366272	93997750	208	14746										
TRIM55	84675	broad.mit.edu	37	chr8	67040638	67040638	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atgaagtggttttggatagaCatggggtatatggacttcag	14	3	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:67040638C>T	uc003xvv.2	+	2	494	c.268C>T	c.(268-270)CAT>TAT	p.H90Y	TRIM55_uc003xvu.2_Missense_Mutation_p.H90Y|TRIM55_uc003xvw.2_Missense_Mutation_p.H90Y|TRIM55_uc003xvx.2_Missense_Mutation_p.H90Y	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	90						cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			TTTGGATAGACATGGGGTATA	0.507													49	200	---	---	---	---	PASS	T	67040638	T	T	67040638	3	4	37	1	0	0	0	0	1	0	0	0	16526	478	17	3	274	3	TRIM55	8	67040638	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	14674366	67040638	79323384	209	14747										
PREX2	80243	broad.mit.edu	37	chr8	68956792	68956792	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtggccggatcaacacggagGtgatggaagtggagaatgtg	18	5	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:68956792G>T	uc003xxv.1	+	8	937	c.910G>T	c.(910-912)GTG>TTG	p.V304L	PREX2_uc003xxu.1_Missense_Mutation_p.V304L|PREX2_uc011lez.1_Missense_Mutation_p.V239L	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	304	PH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CAACACGGAGGTGATGGAAGT	0.408													29	77	---	---	---	---	PASS	T	68956792	T	T	68956792	3	4	37	1	0	0	0	0	1	0	0	0	12477	1261	44	3	940	3	PREX2	8	68956792	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1916154	68956792	77407230	210	14748										
ZFHX4	79776	broad.mit.edu	37	chr8	77767351	77767351	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agaaatacatctattttgatTacccatctttgccattaact	3	9	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:77767351T>A	uc003yav.2	+	10	8446	c.8059T>A	c.(8059-8061)TAC>AAC	p.Y2687N	ZFHX4_uc003yau.1_Missense_Mutation_p.Y2732N|ZFHX4_uc003yaw.1_Missense_Mutation_p.Y2687N	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2687						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTATTTTGATTACCCATCTTT	0.423										HNSCC(33;0.089)			12	38	---	---	---	---	PASS	A	77767351	A	A	77767351	3	1	37	1	0	0	0	0	1	0	0	0	17632	1754	61	5	8228	5	ZFHX4	8	77767351	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	8810559	77767351	68596671	211	14749										
ZFHX4	79776	broad.mit.edu	37	chr8	77768456	77768456	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cctgccaacagcctaccccgGactccccggccttcctccag	7	22	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:77768456G>T	uc003yav.2	+	10	9551	c.9164G>T	c.(9163-9165)GGA>GTA	p.G3055V	ZFHX4_uc003yau.1_Missense_Mutation_p.G3100V|ZFHX4_uc003yaw.1_Missense_Mutation_p.G3055V	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3055	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GCCTACCCCGGACTCCCCGGC	0.542										HNSCC(33;0.089)			40	65	---	---	---	---	PASS	T	77768456	T	T	77768456	3	4	37	1	0	0	0	0	1	0	0	0	17632	1174	41	2	9333	2	ZFHX4	8	77768456	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1105	77768456	68595566	212	14750										
SLC10A5	347051	broad.mit.edu	37	chr8	82606863	82606863	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttcacattcttgatttcttcAatgagtctttcttgcctacc	4	11	6	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:82606863A>T	uc011lfs.1	-	1	345	c.345T>A	c.(343-345)ATT>ATA	p.I115I		NM_001010893	NP_001010893	Q5PT55	NTCP5_HUMAN	solute carrier family 10 (sodium/bile acid	115	Extracellular (Potential).					integral to membrane	bile acid:sodium symporter activity				0						TGATTTCTTCAATGAGTCTTT	0.358													69	103	---	---	---	---	PASS	T	82606863	T	T	82606863	2	4	37	1	0	0	0	0	0	0	0	1	14377	126	5	5		5	SLC10A5	8	82606863	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	4838407	82606863	63757159	213	14751										
RALYL	138046	broad.mit.edu	37	chr8	85686874	85686874	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acctggaaacaagaggccccTttctgcactttacaggtaag	9	11	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:85686874T>C	uc003ycq.3	+	4	733	c.317T>C	c.(316-318)CTT>CCT	p.L106P	RALYL_uc003ycr.3_Missense_Mutation_p.L106P|RALYL_uc003ycs.3_Missense_Mutation_p.L106P|RALYL_uc010lzy.2_Missense_Mutation_p.L106P|RALYL_uc003yct.3_Missense_Mutation_p.L119P|RALYL_uc003ycu.3_Missense_Mutation_p.L33P|RALYL_uc003ycv.3_Missense_Mutation_p.L18P	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2	106							identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						AAGAGGCCCCTTTCTGCACTT	0.358													13	34	---	---	---	---	PASS	C	85686874	C	C	85686874	3	2	37	1	0	0	0	0	1	0	0	0	13020	1609	56	5	366	5	RALYL	8	85686874	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	3080011	85686874	60677148	214	14752										
CNGB3	54714	broad.mit.edu	37	chr8	87738769	87738769	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaatgctcacctgtttggacCttctttcccggggtccattt	8	12	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:87738769C>G	uc003ydx.2	-	3	374	c.328G>C	c.(328-330)GGT>CGT	p.G110R		NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	110	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						CTGTTTGGACCTTCTTTCCCG	0.453													73	255	---	---	---	---	PASS	G	87738769	G	G	87738769	3	3	37	1	0	0	0	0	1	0	0	0	3601	681	24	4	2165	4	CNGB3	8	87738769	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2051895	87738769	58625253	215	14753										
RGS22	26166	broad.mit.edu	37	chr8	101078415	101078415	+	Frame_Shift_Del	DEL	G	-	-													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagaaacagatgaaatagctGgtgatttaagtttgttgtag							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:101078415delG	uc003yjb.1	-	7	899	c.704delC	c.(703-705)CCAfs	p.P235fs	RGS22_uc003yja.1_Frame_Shift_Del_p.P54fs|RGS22_uc003yjc.1_Frame_Shift_Del_p.P223fs|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	235					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			TGAAATAGCTGGTGATTTAAG	0.343													90	58	---	---	---	---		-	101078415	-	-	101078415	7	5	37	1	0	1	0	1	0	0	0	0	13305	1348	47	0	3174	0	RGS22	8	101078415	Frame_Shift_Del	DEL	G	TCGA-22-4599-01A-01D-1441-08	13339646	101078415	45285607	216	14754										
RIMS2	9699	broad.mit.edu	37	chr8	105080743	105080743	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttttttctactcgataggtaCtatggatatagaggagagaa	10	4	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:105080743C>A	uc003yls.2	+	20	2865	c.2624C>A	c.(2623-2625)ACT>AAT	p.T875N	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Missense_Mutation_p.T948N|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TCGATAGGTACTATGGATATA	0.378										HNSCC(12;0.0054)			6	11	---	---	---	---	PASS	A	105080743	A	A	105080743	3	1	37	1	0	0	0	0	1	0	0	0	13368	580	20	3		3	RIMS2	8	105080743	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	4002328	105080743	41283279	217	14755										
TM7SF4	81501	broad.mit.edu	37	chr8	105367345	105367345	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tccaatatctgcatgcaaagCtgcttaaaaaaagatcaaag	6	8	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:105367345C>T	uc003ylx.1	+	3	1319	c.1270C>T	c.(1270-1272)CTG>TTG	p.L424L		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	424	Cytoplasmic.				osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GCATGCAAAGCTGCTTAAAAA	0.463													23	125	---	---	---	---	PASS	T	105367345	T	T	105367345	2	4	37	1	0	0	0	0	0	0	0	1	15973	796	28	3		3	TM7SF4	8	105367345	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	286602	105367345	40996677	218	14756										
EIF3E	3646	broad.mit.edu	37	chr8	109241385	109241385	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gatttcagaggccagctttcCccagagtgaacttaaagcat	9	10	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:109241385C>T	uc003ymu.2	-	6	539	c.511G>A	c.(511-513)GGA>AGA	p.G171R	EIF3E_uc003ymt.2_Missense_Mutation_p.G122R|EIF3E_uc003ymv.2_Missense_Mutation_p.G78R|EIF3E_uc010mci.1_Missense_Mutation_p.G171R	NM_001568	NP_001559	P60228	EIF3E_HUMAN	eukaryotic translation initiation factor 3,	171	Sufficient for interaction with TRIM27.				negative regulation of translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|eukaryotic translation initiation factor 3 complex|PML body	protein N-terminus binding			ovary(2)|kidney(1)	3			OV - Ovarian serous cystadenocarcinoma(57;6.84e-10)			GCCAGCTTTCCCCAGAGTGAA	0.348													34	151	---	---	---	---	PASS	T	109241385	T	T	109241385	3	4	37	1	0	0	0	0	1	0	0	0	5015	632	22	3	858	3	EIF3E	8	109241385	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	3874040	109241385	37122637	219	14757										
PKHD1L1	93035	broad.mit.edu	37	chr8	110439245	110439245	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtgcaggcctccccgctgctGtgtcagctgcagatctgcag	13	14	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:110439245G>C	uc003yne.2	+	25	2964	c.2860G>C	c.(2860-2862)GTG>CTG	p.V954L		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	954	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CCCCGCTGCTGTGTCAGCTGC	0.453										HNSCC(38;0.096)			80	110	---	---	---	---	PASS	C	110439245	C	C	110439245	3	2	37	1	0	0	0	0	1	0	0	0	11972	1377	48	4	2958	4	PKHD1L1	8	110439245	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1197860	110439245	35924777	220	14758										
PKHD1L1	93035	broad.mit.edu	37	chr8	110520439	110520439	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tggatcctgacacagaaactCgaagactttccccagtggct	9	12	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:110520439C>A	uc003yne.2	+	70	11445	c.11341C>A	c.(11341-11343)CGA>AGA	p.R3781R		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3781	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CACAGAAACTCGAAGACTTTC	0.393										HNSCC(38;0.096)			4	246	---	---	---	---	PASS	A	110520439	A	A	110520439	2	1	37	1	0	0	0	0	0	0	0	1	11972	876	31	2		2	PKHD1L1	8	110520439	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	81194	110520439	35843583	221	14759										
CSMD3	114788	broad.mit.edu	37	chr8	113275908	113275908	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccactccaggtaccattcccTacacaggtcaaaacagcagg	7	15	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:113275908T>C	uc003ynu.2	-	61	9981	c.9822A>G	c.(9820-9822)GTA>GTG	p.V3274V	CSMD3_uc003yns.2_Silent_p.V2476V|CSMD3_uc003ynt.2_Silent_p.V3234V|CSMD3_uc011lhx.1_Silent_p.V3105V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3274	Sushi 25.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TACCATTCCCTACACAGGTCA	0.408										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			18	76	---	---	---	---	PASS	C	113275908	C	C	113275908	2	2	37	1	0	0	0	0	0	0	0	1	3946	1509	53	5		5	CSMD3	8	113275908	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	2755469	113275908	33088114	222	14760										
CSMD3	114788	broad.mit.edu	37	chr8	113293450	113293450	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atgttccattggctgtgcacTgtctaactgaaggtccagaa	10	9	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:113293450T>A	uc003ynu.2	-	59	9620	c.9461A>T	c.(9460-9462)CAG>CTG	p.Q3154L	CSMD3_uc003yns.2_Missense_Mutation_p.Q2356L|CSMD3_uc003ynt.2_Missense_Mutation_p.Q3114L|CSMD3_uc011lhx.1_Missense_Mutation_p.Q2985L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3154	Extracellular (Potential).|Sushi 23.					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						GGCTGTGCACTGTCTAACTGA	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			37	127	---	---	---	---	PASS	A	113293450	A	A	113293450	3	1	37	1	0	0	0	0	1	0	0	0	3946	1580	55	5	1714	5	CSMD3	8	113293450	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	17542	113293450	33070572	223	14761										
ASAP1	50807	broad.mit.edu	37	chr8	131226848	131226848	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cctttgtaagagtagaaaacTtgacaaacgcggtgccaagg	11	8	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:131226848T>G	uc003yta.1	-	4	387	c.359A>C	c.(358-360)AAG>ACG	p.K120T	ASAP1_uc011liw.1_Missense_Mutation_p.K113T	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	120					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						AGTAGAAAACTTGACAAACGC	0.368													47	85	---	---	---	---	PASS	G	131226848	G	G	131226848	3	3	37	1	0	0	0	0	1	0	0	0	1010	1609	56	5	3134	5	ASAP1	8	131226848	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	17933398	131226848	15137174	224	14762										
TMEM71	137835	broad.mit.edu	37	chr8	133764104	133764104	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gttgccatctttgtcgcacaGgaagctgtcttcagtccaaa	9	11	3	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:133764104G>C	uc003ytp.2	-	4	470	c.241C>G	c.(241-243)CTG>GTG	p.L81V	TMEM71_uc003ytn.2_Missense_Mutation_p.L81V|TMEM71_uc003yto.2_Missense_Mutation_p.L81V	NM_144649	NP_653250	Q6P5X7	TMM71_HUMAN	transmembrane protein 71 isoform 1	81						integral to membrane				ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			TTGTCGCACAGGAAGCTGTCT	0.473													41	146	---	---	---	---	PASS	C	133764104	C	C	133764104	3	2	37	1	0	0	0	0	1	0	0	0	16197	991	35	4	674	4	TMEM71	8	133764104	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2537256	133764104	12599918	225	14763										
COL22A1	169044	broad.mit.edu	37	chr8	139614365	139614365	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gctctccactcaccctttctCctttgaatccaggctctcca	4	18	4	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:139614365C>G	uc003yvd.2	-	60	4625	c.4178G>C	c.(4177-4179)GGA>GCA	p.G1393A	COL22A1_uc011ljo.1_Missense_Mutation_p.G673A	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1393	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)			CACCCTTTCTCCTTTGAATCC	0.587										HNSCC(7;0.00092)			18	89	---	---	---	---	PASS	G	139614365	G	G	139614365	3	3	37	1	0	0	0	0	1	0	0	0	3681	855	30	2	726	2	COL22A1	8	139614365	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	5850261	139614365	6749657	226	14764										
MAPK15	225689	broad.mit.edu	37	chr8	144803248	144803248	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gaaggggtccagctctctgtGcctgagtaccgcagccgcgt	14	13	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:144803248G>A	uc003yzj.2	+	10	1037	c.996G>A	c.(994-996)GTG>GTA	p.V332V		NM_139021	NP_620590	Q8TD08	MK15_HUMAN	mitogen-activated protein kinase 15	332					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)			AGCTCTCTGTGCCTGAGTACC	0.662													6	16	---	---	---	---	PASS	A	144803248	A	A	144803248	2	1	37	1	0	0	0	0	0	0	0	1	9277	1306	46	3		3	MAPK15	8	144803248	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	5188883	144803248	1560774	227	14765										
ZNF16	7564	broad.mit.edu	37	chr8	146157623	146157623	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gaaactctggccacccatgtCatatggatgtggcctctctt	9	12	3	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr8:146157623C>T	uc003zet.2	-	4	737	c.550G>A	c.(550-552)GAC>AAC	p.D184N	ZNF16_uc003zeu.2_Missense_Mutation_p.D184N	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	184					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		CCACCCATGTCATATGGATGT	0.493													107	197	---	---	---	---	PASS	T	146157623	T	T	146157623	3	4	37	1	0	0	0	0	1	0	0	0	17735	826	29	2	1502	2	ZNF16	8	146157623	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	1354375	146157623	206399	228	14766										
IFNA14	3448	broad.mit.edu	37	chr9	21239831	21239831	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccatgagcatcaaagtcctcCtgttattcaggctgtgggtt	10	10	2	1	rs149155133		TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr9:21239831C>T	uc010mis.2	-	1	148	c.104G>A	c.(103-105)AGG>AAG	p.R35K	IFNA14_uc003zoo.1_RNA	NM_002172	NP_002163	P01570	IFN14_HUMAN	interferon, alpha 14 precursor	35					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;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		CAAAGTCCTCCTGTTATTCAG	0.493													55	79	---	---	---	---	PASS	T	21239831	T	T	21239831	3	4	37	1	0	0	0	0	1	0	0	0	7534	681	24	3	469	3	IFNA14	9	21239831	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08		21239831	119973600	229	14767										
CDKN2A	1029	broad.mit.edu	37	chr9	21971036	21971036	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gggcagacggccccaggcatCgcgcacgtccagccgcgccc	14	19	0	1	rs121913381		TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr9:21971036C>A	uc003zpk.2	-	2	534	c.322G>T	c.(322-324)GAT>TAT	p.D108Y	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.R163L	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	108			D -> Y (in a head and neck tumor).|D -> H (in a bladder tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.D108Y(14)|p.?(13)|p.D108H(9)|p.D108N(5)|p.H83fs*2(2)|p.D105fs*8(1)|p.A68fs*3(1)|p.R107fs*33(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCCCAGGCATCGCGCACGTCC	0.741		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			15	6	---	---	---	---	PASS	A	21971036	A	A	21971036	3	1	37	1	0	0	0	0	1	0	0	0	3161	884	31	2	156	2	CDKN2A	9	21971036	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	731205	21971036	119242395	230	14768										
TESK1	7016	broad.mit.edu	37	chr9	35609124	35609124	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctgcccttggtgaccactccGgagaccctggtccagcctgg	12	16	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr9:35609124G>A	uc003zxa.2	+	10	1602	c.1266G>A	c.(1264-1266)CCG>CCA	p.P422P	TESK1_uc003zwz.1_RNA|TESK1_uc010mks.2_Silent_p.P262P	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	422					cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TGACCACTCCGGAGACCCTGG	0.637													4	152	---	---	---	---	PASS	A	35609124	A	A	35609124	2	1	37	1	0	0	0	0	0	0	0	1	15764	1103	39	1		1	TESK1	9	35609124	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	13638088	35609124	105604307	231	14769										
FRMPD1	22844	broad.mit.edu	37	chr9	37740469	37740469	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gacagccaggaggagagaagCgggattgaaaccagtggctt	16	7	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr9:37740469C>T	uc004aag.1	+	15	1988	c.1944C>T	c.(1942-1944)AGC>AGT	p.S648S	FRMPD1_uc004aah.1_Silent_p.S648S|FRMPD1_uc011lqm.1_Silent_p.S470S|FRMPD1_uc011lqn.1_Silent_p.S517S	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	648						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		AGGAGAGAAGCGGGATTGAAA	0.572													23	22	---	---	---	---	PASS	T	37740469	T	T	37740469	2	4	37	1	0	0	0	0	0	0	0	1	6057	767	27	1		1	FRMPD1	9	37740469	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	2131345	37740469	103472962	232	14770										
ECM2	1842	broad.mit.edu	37	chr9	95279975	95279975	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctaaatctctgtaccagtagCggagcagaccgggcagcatt	11	11	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr9:95279975C>A	uc004ash.2	-	3	540	c.475G>T	c.(475-477)GCT>TCT	p.A159S	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ECM2_uc004asf.3_Missense_Mutation_p.A159S|ECM2_uc011lty.1_Missense_Mutation_p.A159S|ECM2_uc004asg.2_Missense_Mutation_p.A159S|ECM2_uc011ltz.1_Missense_Mutation_p.A159S|ECM2_uc004asi.2_Missense_Mutation_p.A159S	NM_001393	NP_001384	O94769	ECM2_HUMAN	extracellular matrix protein 2 precursor	159					cell-matrix adhesion		integrin binding			ovary(1)|skin(1)	2						GTACCAGTAGCGGAGCAGACC	0.403													113	322	---	---	---	---	PASS	A	95279975	A	A	95279975	3	1	37	1	0	0	0	0	1	0	0	0	4898	768	27	1	1656	1	ECM2	9	95279975	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	57539506	95279975	45933456	233	14771										
CYLC2	1539	broad.mit.edu	37	chr9	105765446	105765446	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agtgaattaagcaaaaaatcAtggaatcagcaacactttgc	7	7	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr9:105765446A>G	uc004bbs.2	+	3	151	c.81A>G	c.(79-81)TCA>TCG	p.S27S		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	27	31 X 3 AA repeats of K-K-X.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				GCAAAAAATCATGGAATCAGC	0.403													42	118	---	---	---	---	PASS	G	105765446	G	G	105765446	2	3	37	1	0	0	0	0	0	0	0	1	4142	204	8	5		5	CYLC2	9	105765446	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	10485471	105765446	35447985	234	14772										
SLC46A2	57864	broad.mit.edu	37	chr9	115652553	115652553	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gttcagcgccgccgccccgtAcagcacctccactggccagt	10	19	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr9:115652553A>G	uc004bgk.2	-	1	641	c.409T>C	c.(409-411)TAC>CAC	p.Y137H		NM_033051	NP_149040	Q9BY10	TSCOT_HUMAN	solute carrier family 46, member 2	137	Extracellular (Potential).					integral to membrane|plasma membrane	symporter activity			central_nervous_system(1)	1						GCCGCCCCGTACAGCACCTCC	0.687													7	31	---	---	---	---	PASS	G	115652553	G	G	115652553	3	3	37	1	0	0	0	0	1	0	0	0	14645	391	14	5	1034	5	SLC46A2	9	115652553	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	9887107	115652553	25560878	235	14773										
ASTN2	23245	broad.mit.edu	37	chr9	119976961	119976961	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcgacgcttctgccaacgtcGctgggcgtacagcgccacgg	14	15	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr9:119976961G>A	uc004bjs.1	-	3	792	c.691C>T	c.(691-693)CGA>TGA	p.R231*	ASTN2_uc004bjr.1_Nonsense_Mutation_p.R231*|ASTN2_uc004bjt.1_Nonsense_Mutation_p.R231*	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	231	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TGCCAACGTCGCTGGGCGTAC	0.622													21	50	---	---	---	---	PASS	A	119976961	A	A	119976961	4	1	37	1	0	0	0	0	0	1	0	0	1065	1095	38	1	3487	1	ASTN2	9	119976961	Nonsense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	4324408	119976961	21236470	236	14774										
MRRF	92399	broad.mit.edu	37	chr9	125047469	125047469	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atcccttgacaagattgctgTggtaactgctgacgggaagc	12	9	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr9:125047469T>C	uc004bmb.2	+	4	477	c.362T>C	c.(361-363)GTG>GCG	p.V121A	MRRF_uc004bmc.2_Missense_Mutation_p.V121A|MRRF_uc011lyq.1_Missense_Mutation_p.V142A|MRRF_uc010mvz.1_RNA|MRRF_uc010mwa.2_Missense_Mutation_p.V121A|MRRF_uc011lyr.1_Missense_Mutation_p.V69A|MRRF_uc004bmd.2_Missense_Mutation_p.V121A|MRRF_uc004bme.2_RNA	NM_138777	NP_620132	Q96E11	RRFM_HUMAN	mitochondrial ribosome recycling factor isoform	121					ribosome disassembly|translation	mitochondrion	sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						AAGATTGCTGTGGTAACTGCT	0.308													36	69	---	---	---	---	PASS	C	125047469	C	C	125047469	3	2	37	1	0	0	0	0	1	0	0	0	9850	1696	59	5	372	5	MRRF	9	125047469	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	5070508	125047469	16165962	237	14775										
C9orf96	169436	broad.mit.edu	37	chr9	136270036	136270036	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gaacgtgggcatgctgctggTccacctggcttcctatggtg	14	11	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr9:136270036T>C	uc004cdk.2	+	17	1917	c.1856T>C	c.(1855-1857)GTC>GCC	p.V619A	C9orf96_uc004cdl.2_RNA	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	619							ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		ATGCTGCTGGTCCACCTGGCT	0.637													30	220	---	---	---	---	PASS	C	136270036	C	C	136270036	3	2	37	1	0	0	0	0	1	0	0	0	2508	1667	58	5	1922	5	C9orf96	9	136270036	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	11222567	136270036	4943395	238	14776										
NELF	26012	broad.mit.edu	37	chr9	140351966	140351966	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cccgaggggtggggccaggaGccagctgggcacatccgggg	20	12	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr9:140351966G>A	uc004cna.2	-	3	753	c.521C>T	c.(520-522)GCT>GTT	p.A174V	C9orf167_uc011mew.1_Intron|NELF_uc011mex.1_5'Flank|NELF_uc010nci.2_5'Flank|NELF_uc011mey.1_RNA|NELF_uc011mez.1_Missense_Mutation_p.A174V|NELF_uc004cmz.2_Missense_Mutation_p.A174V|NELF_uc004cnc.2_Missense_Mutation_p.A174V|NELF_uc004cnb.2_Missense_Mutation_p.A174V	NM_001130969	NP_001124441	Q6X4W1	NELF_HUMAN	nasal embryonic LHRH factor isoform a	174						nucleus|plasma membrane					0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000222)|Epithelial(140;0.000888)		GGGGCCAGGAGCCAGCTGGGC	0.706													15	8	---	---	---	---	PASS	A	140351966	A	A	140351966	3	1	37	1	0	0	0	0	1	0	0	0	10332	971	34	3	1137	3	NELF	9	140351966	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	4081930	140351966	861465	239	14777										
ITGA8	8516	broad.mit.edu	37	chr10	15573047	15573047	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atatatatttaaagatactcActactatgcttccttctggg	5	8	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:15573047A>T	uc001ioc.1	-	28	2982	c.2982_splice	c.e28+1	p.A994_splice	ITGA8_uc010qcb.1_Splice_Site_p.V979_splice	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor						cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						AAAGATACTCACTACTATGCT	0.348													50	79	---	---	---	---	PASS	T	15573047	T	T	15573047	5	4	37	1	0	0	0	0	0	0	1	0	7882	173	6	5	219	5	ITGA8	10	15573047	Splice_Site	SNP	A	TCGA-22-4599-01A-01D-1441-08		15573047	119961700	240	14778										
ITGA8	8516	broad.mit.edu	37	chr10	15702878	15702878	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aatgcattctcagtactcacAtatccaaaattctgtgctcc	4	12	3	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:15702878A>G	uc001ioc.1	-	9	891	c.891T>C	c.(889-891)TAT>TAC	p.Y297Y	ITGA8_uc010qcb.1_Silent_p.Y282Y	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	297	Extracellular (Potential).|FG-GAP 4.				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						CAGTACTCACATATCCAAAAT	0.239													33	59	---	---	---	---	PASS	G	15702878	G	G	15702878	2	3	37	1	0	0	0	0	0	0	0	1	7882	231	8	5		5	ITGA8	10	15702878	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	129831	15702878	119831869	241	14779										
PTPLA	9200	broad.mit.edu	37	chr10	17636217	17636217	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tacttacaaggtatatatgaTgccatggttataagaagaaa	8	4	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:17636217T>C	uc001ipg.2	-	6	806	c.771A>G	c.(769-771)GCA>GCG	p.A257A		NM_014241	NP_055056	B0YJ81	HACD1_HUMAN	protein tyrosine phosphatase-like, member A	257	Helical; (Potential).				fatty acid biosynthetic process|multicellular organismal development|signal transduction	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein tyrosine phosphatase activity			central_nervous_system(1)|skin(1)	2						GTATATATGATGCCATGGTTA	0.289													26	115	---	---	---	---	PASS	C	17636217	C	C	17636217	2	2	37	1	0	0	0	0	0	0	0	1	12774	1451	51	5		5	PTPLA	10	17636217	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	1933339	17636217	117898530	242	14780										
ANUBL1	93550	broad.mit.edu	37	chr10	46147483	46147483	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggtacacccttctgaaatgcTgtggatagttaacacaaaaa	8	8	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:46147483T>C	uc001jcp.3	-	4	503	c.261_splice	c.e4-1	p.N87_splice	ANUBL1_uc001jcm.3_Splice_Site_p.N87_splice|ANUBL1_uc009xmu.2_Splice_Site_p.N13_splice|ANUBL1_uc001jcn.3_Splice_Site_p.N13_splice|ANUBL1_uc001jco.3_Splice_Site_p.N87_splice|ANUBL1_uc001jcq.2_Splice_Site|ANUBL1_uc001jcr.2_Splice_Site_p.N87_splice	NM_001128324	NP_001121796	Q86XD8	ANUB1_HUMAN	AN1, ubiquitin-like, homolog								zinc ion binding				0						TCTGAAATGCTGTGGATAGTT	0.363													42	28	---	---	---	---	PASS	C	46147483	C	C	46147483	5	2	37	1	0	0	0	0	0	0	1	0	713	1594	55	5	1952	5	ANUBL1	10	46147483	Splice_Site	SNP	T	TCGA-22-4599-01A-01D-1441-08	28511266	46147483	89387264	243	14781										
RBP3	5949	broad.mit.edu	37	chr10	48388747	48388747	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gggtggtgggggtgcttcctCtaccaccagctcgccagggc	16	13	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:48388747C>T	uc001jez.2	-	1	2245	c.2131G>A	c.(2131-2133)GAG>AAG	p.E711K		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	711	4 X approximate tandem repeats.|3.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	GGTGCTTCCTCTACCACCAGC	0.632													27	29	---	---	---	---	PASS	T	48388747	T	T	48388747	3	4	37	1	0	0	0	0	1	0	0	0	13157	922	32	2	1628	2	RBP3	10	48388747	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2241264	48388747	87146000	244	14782										
C10orf72	196740	broad.mit.edu	37	chr10	50227712	50227712	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtactacagcttgttctcctCgaagaggatctgggcgtaga	12	9	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:50227712C>A	uc001jhf.2	-	8	975	c.946G>T	c.(946-948)GAG>TAG	p.E316*		NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	316	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0						TTGTTCTCCTCGAAGAGGATC	0.522													39	52	---	---	---	---	PASS	A	50227712	A	A	50227712	4	1	37	1	0	0	0	0	0	1	0	0	1615	893	31	2	20	2	C10orf72	10	50227712	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	1838965	50227712	85307035	245	14783										
PRKG1	5592	broad.mit.edu	37	chr10	52751280	52751280	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acaaatgccagtcggtgctcCcagtgccctcgacccacatc	8	17	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:52751280C>G	uc001jjm.2	+	1	336	c.142C>G	c.(142-144)CCA>GCA	p.P48A	PRKG1_uc010qhp.1_Missense_Mutation_p.P48A	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	48	Dimerization.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		GTCGGTGCTCCCAGTGCCCTC	0.612													6	5	---	---	---	---	PASS	G	52751280	G	G	52751280	3	3	37	1	0	0	0	0	1	0	0	0	12522	623	22	4	144	4	PRKG1	10	52751280	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2523568	52751280	82783467	246	14784										
DUPD1	338599	broad.mit.edu	37	chr10	76818229	76818229	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcgacagcctcttggcagatGagtaggcattcttgaggctt	13	9	2	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:76818229G>T	uc001jwq.1	-	1	44	c.44C>A	c.(43-45)TCA>TAA	p.S15*		NM_001003892	NP_001003892	Q68J44	DUPD1_HUMAN	dual specificity phosphatase and pro isomerase	15						cytoplasm	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)	2	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					CTTGGCAGATGAGTAGGCATT	0.537													32	33	---	---	---	---	PASS	T	76818229	T	T	76818229	4	4	37	1	0	0	0	0	0	1	0	0	4804	1294	45	2	630	2	DUPD1	10	76818229	Nonsense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	24066949	76818229	58716518	247	14785										
GRID1	2894	broad.mit.edu	37	chr10	87484343	87484343	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gggcttcttaattagaatccCcactgaatagtccatgtacc	7	11	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:87484343C>T	uc001kdl.1	-	11	1725	c.1624G>A	c.(1624-1626)GGG>AGG	p.G542R	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.G113R	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	542	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	ATTAGAATCCCCACTGAATAG	0.517										Multiple Myeloma(13;0.14)			46	61	---	---	---	---	PASS	T	87484343	T	T	87484343	3	4	37	1	0	0	0	0	1	0	0	0	6771	623	22	3	1429	3	GRID1	10	87484343	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	10666114	87484343	48050404	248	14786										
WAPAL	23063	broad.mit.edu	37	chr10	88197313	88197313	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaagcagctagcaatgttccAaatattcaatcactctagag	6	9	3	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:88197313A>C	uc001kdo.2	-	19	4002	c.3560T>G	c.(3559-3561)TTG>TGG	p.L1187W	WAPAL_uc009xsv.2_Missense_Mutation_p.L446W|WAPAL_uc001kdn.2_Missense_Mutation_p.L1224W|WAPAL_uc009xsw.2_Missense_Mutation_p.L1181W	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	1187					cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						GCAATGTTCCAAATATTCAAT	0.408													33	45	---	---	---	---	PASS	C	88197313	C	C	88197313	3	2	37	1	0	0	0	0	1	0	0	0	17245	131	5	5	16	5	WAPAL	10	88197313	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	712970	88197313	47337434	249	14787										
PTEN	5728	broad.mit.edu	37	chr10	89720828	89720828	+	Frame_Shift_Del	DEL	A	-	-													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	taacaaaaaatgatcttgacAaagcaaataaagacaaagcc							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:89720828delA	uc001kfb.2	+	9	2010	c.979delA	c.(979-981)AAAfs	p.K327fs		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	327	C2 tensin-type.			KANKDKANR->AAGADAANA: Reduces growth suppression activity and promotes anchorage-independent growth. Reduces binding to phospholipid membranes in vitro; phosphatase activity towards PtdIns(3,4,5)P3 is not affected.	activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.R55fs*1(4)|p.?(2)|p.N212fs*1(2)|p.Y27fs*1(2)|p.T319_K332del(1)|p.G165_*404del(1)|p.G165_K342del(1)|p.D326fs*4(1)|p.W274_F341del(1)|p.D326_K342del(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TGATCTTGACAAAGCAAATAA	0.328		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			120	97	---	---	---	---		-	89720828	-	-	89720828	7	5	37	1	0	1	0	1	0	0	0	0	12738	131	5	0	1009	0	PTEN	10	89720828	Frame_Shift_Del	DEL	A	TCGA-22-4599-01A-01D-1441-08	1523515	89720828	45813919	250	14788										
PKD2L1	9033	broad.mit.edu	37	chr10	102052796	102052796	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cgaaaccctctccttcctcaGacgcagtcttagtagggtct	8	14	4	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:102052796G>T	uc001kqx.1	-	11	2172	c.1789C>A	c.(1789-1791)CTG>ATG	p.L597M	PKD2L1_uc009xwm.1_Missense_Mutation_p.L550M	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	597	Cytoplasmic (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		TCCTTCCTCAGACGCAGTCTT	0.552													54	56	---	---	---	---	PASS	T	102052796	T	T	102052796	3	4	37	1	0	0	0	0	1	0	0	0	11967	933	33	2	652	2	PKD2L1	10	102052796	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	12331968	102052796	33481951	251	14789										
CNNM2	54805	broad.mit.edu	37	chr10	104678750	104678750	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctcaaccgccgcacctcgggCatcatcgagatcgagatcaa	9	15	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:104678750C>T	uc001kwm.2	+	1	637	c.513C>T	c.(511-513)GGC>GGT	p.G171G	CNNM2_uc001kwn.2_Silent_p.G171G|CNNM2_uc001kwl.2_Silent_p.G171G	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	171					ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		GCACCTCGGGCATCATCGAGA	0.592													81	118	---	---	---	---	PASS	T	104678750	T	T	104678750	2	4	37	1	0	0	0	0	0	0	0	1	3613	697	25	3		3	CNNM2	10	104678750	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	2625954	104678750	30855997	252	14790										
GPR123	84435	broad.mit.edu	37	chr10	134886386	134886386	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gaggagcccagcggccgtgcAgatgggaaggcagctgctca	17	11	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr10:134886386A>G	uc001llw.2	+	3	420	c.420A>G	c.(418-420)GCA>GCG	p.A140A				Q86SQ6	GP123_HUMAN	RecName: Full=Probable G-protein coupled receptor 123;	Error:Variant_position_missing_in_Q86SQ6_after_alignment						integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		GCGGCCGTGCAGATGGGAAGG	0.592													7	8	---	---	---	---	PASS	G	134886386	G	G	134886386	2	3	37	1	0	0	0	0	0	0	0	1	6637	203	7	5		5	GPR123	10	134886386	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	30207636	134886386	648361	253	14791										
MUC6	4588	broad.mit.edu	37	chr11	1024909	1024909	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cttgcgctcggcccaggagcGccggaaggcattgagactgc	15	13	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:1024909G>A	uc001lsw.2	-	24	3211	c.3160C>T	c.(3160-3162)CGC>TGC	p.R1054C		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1054	VWFD 3.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GCCCAGGAGCGCCGGAAGGCA	0.662													13	43	---	---	---	---	PASS	A	1024909	A	A	1024909	3	1	37	1	0	0	0	0	1	0	0	0	9980	1087	38	1	4199	1	MUC6	11	1024909	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08		1024909	133981607	254	14792										
STIM1	6786	broad.mit.edu	37	chr11	4091374	4091374	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaggagcacatgaagaagatGatgaaggacttggaggggtt	16	3	0	5			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:4091374G>T	uc001lyv.2	+	6	1300	c.732G>T	c.(730-732)ATG>ATT	p.M244I	STIM1_uc009yef.2_Missense_Mutation_p.M244I|STIM1_uc009yeg.2_Missense_Mutation_p.M71I	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	244	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		TGAAGAAGATGATGAAGGACT	0.527													4	127	---	---	---	---	PASS	T	4091374	T	T	4091374	3	4	37	1	0	0	0	0	1	0	0	0	15282	1290	45	2	754	2	STIM1	11	4091374	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	3066465	4091374	130915142	255	14793										
OR51T1	401665	broad.mit.edu	37	chr11	4903906	4903906	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttctatgtgccactgatcagCctctctttggcacaccgcct	7	15	3	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:4903906C>T	uc010qyp.1	+	1	858	c.858C>T	c.(856-858)AGC>AGT	p.S286S		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	259	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		CACTGATCAGCCTCTCTTTGG	0.498													24	88	---	---	---	---	PASS	T	4903906	T	T	4903906	2	4	37	1	0	0	0	0	0	0	0	1	11106	738	26	3		3	OR51T1	11	4903906	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	812532	4903906	130102610	256	14794										
OR51G1	79324	broad.mit.edu	37	chr11	4945280	4945280	+	Missense_Mutation	SNP	G	T	T													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agagctgagtgaaacaggcaGggatgccaatctctctggta							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:4945280G>T	uc010qyr.1	-	1	290	c.290C>A	c.(289-291)CCT>CAT	p.P97H		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	97	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GAAACAGGCAGGGATGCCAAT	0.502													28	61	---	---	---	---	PASS	T	4945280	T	T	4945280	3	4	37	1	0	0	0	0	1	0	0	0	11098	1000	35	3	677	3	OR51G1	11	4945280	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	41374	4945280	130061236	257	14795	376	2								
OR51G1	79324	broad.mit.edu	37	chr11	4945281	4945281	+	Missense_Mutation	SNP	G	T	T													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gagctgagtgaaacaggcagGgatgccaatctctctggtat							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:4945281G>T	uc010qyr.1	-	1	289	c.289C>A	c.(289-291)CCT>ACT	p.P97T		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	97	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		AAACAGGCAGGGATGCCAATC	0.498													28	61	---	---	---	---	PASS	T	4945281	T	T	4945281	3	4	37	1	0	0	0	0	1	0	0	0	11098	1232	43	3	678	3	OR51G1	11	4945281	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1	4945281	130061235	258	14796	376	2								
MMP26	56547	broad.mit.edu	37	chr11	5012677	5012677	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttaccaaattctggaaatccTggagttgtccattttgacaa	7	8	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:5012677T>A	uc001lzv.2	+	4	564	c.546T>A	c.(544-546)CCT>CCA	p.P182P		NM_021801	NP_068573	Q9NRE1	MMP26_HUMAN	matrix metalloproteinase 26 preproprotein	182					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Medulloblastoma(188;0.0025)|Breast(177;0.0204)|all_neural(188;0.0227)		Epithelial(150;1.33e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0287)|LUSC - Lung squamous cell carcinoma(625;0.191)		CTGGAAATCCTGGAGTTGTCC	0.483													109	158	---	---	---	---	PASS	A	5012677	A	A	5012677	2	1	37	1	0	0	0	0	0	0	0	1	9663	1567	55	5		5	MMP26	11	5012677	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	67396	5012677	129993839	259	14797										
OR56A4	120793	broad.mit.edu	37	chr11	6023408	6023408	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcaggatggggacatctggaGgaattctcttcctggccagg	15	9	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:6023408G>C	uc010qzv.1	-	1	971	c.971C>G	c.(970-972)CCT>CGT	p.P324R		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	272	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GACATCTGGAGGAATTCTCTT	0.527													12	50	---	---	---	---	PASS	C	6023408	C	C	6023408	3	2	37	1	0	0	0	0	1	0	0	0	11135	1000	35	4	128	4	OR56A4	11	6023408	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1010731	6023408	128983108	260	14798										
STK33	65975	broad.mit.edu	37	chr11	8494723	8494723	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tatatacctcaatagcagctCcattctcaatccttatgtga	4	11	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:8494723C>A	uc001mgi.1	-	2	1245	c.326G>T	c.(325-327)GGA>GTA	p.G109V	STK33_uc001mgj.1_Missense_Mutation_p.G109V|STK33_uc001mgk.1_Missense_Mutation_p.G109V|STK33_uc010rbn.1_Missense_Mutation_p.G68V|STK33_uc001mgl.3_Intron|STK33_uc009yfp.2_Intron	NM_030906	NP_112168	Q9BYT3	STK33_HUMAN	serine/threonine kinase 33	109						Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|pancreas(1)|central_nervous_system(1)|skin(1)	7				Epithelial(150;2.13e-06)|BRCA - Breast invasive adenocarcinoma(625;0.239)		AATAGCAGCTCCATTCTCAAT	0.378													92	175	---	---	---	---	PASS	A	8494723	A	A	8494723	3	1	37	1	0	0	0	0	1	0	0	0	15299	855	30	2	1262	2	STK33	11	8494723	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2471315	8494723	126511793	261	14799										
MICALCL	84953	broad.mit.edu	37	chr11	12315632	12315632	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagaaaagtgctgagaatggTagaggaggccgtgtgctaaa	15	5	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:12315632T>A	uc001mkg.1	+	3	945	c.654T>A	c.(652-654)GGT>GGA	p.G218G		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	218					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		CTGAGAATGGTAGAGGAGGCC	0.577													37	82	---	---	---	---	PASS	A	12315632	A	A	12315632	2	1	37	1	0	0	0	0	0	0	0	1	9572	1625	57	5		5	MICALCL	11	12315632	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	3820909	12315632	122690884	262	14800										
SOX6	55553	broad.mit.edu	37	chr11	16010543	16010543	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agctgcactgctgcactcacCtaagattttgctaatgttgg	9	10	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:16010543C>A	uc001mme.2	-	14	2038	c.2005G>T	c.(2005-2007)GGA>TGA	p.G669*	SOX6_uc001mmd.2_Nonsense_Mutation_p.G632*|SOX6_uc001mmf.2_Nonsense_Mutation_p.G629*|SOX6_uc001mmg.2_Nonsense_Mutation_p.G636*	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	656	HMG box.				muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						CTGCACTCACCTAAGATTTTG	0.493											OREG0020800	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	141	---	---	---	---	PASS	A	16010543	A	A	16010543	4	1	37	1	0	0	0	0	0	1	0	0	14955	695	24	3	532	3	SOX6	11	16010543	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	3694911	16010543	118995973	263	14801										
NUCB2	4925	broad.mit.edu	37	chr11	17331130	17331130	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttctttcagatataggcatgGaccaccaagctcttctaaaa	6	10	4	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:17331130G>A	uc001mmw.2	+	6	636	c.391G>A	c.(391-393)GAC>AAC	p.D131N	NUCB2_uc001mms.1_Missense_Mutation_p.D132N|NUCB2_uc001mmt.1_Missense_Mutation_p.D131N|NUCB2_uc001mmv.1_Missense_Mutation_p.D131N|NUCB2_uc009ygz.2_Missense_Mutation_p.D131N	NM_005013	NP_005004	P80303	NUCB2_HUMAN	nucleobindin 2 precursor	131						cytosol|ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|plasma membrane	calcium ion binding|DNA binding				0						TATAGGCATGGACCACCAAGC	0.308													55	237	---	---	---	---	PASS	A	17331130	A	A	17331130	3	1	37	1	0	0	0	0	1	0	0	0	10719	1174	41	2	405	2	NUCB2	11	17331130	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1320587	17331130	117675386	264	14802										
FANCF	2188	broad.mit.edu	37	chr11	22646492	22646492	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aacccaaatgcctttctgaaGgtcatagtgcaaacgttgac	8	10	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:22646492G>T	uc001mql.1	-	1	896	c.865C>A	c.(865-867)CTT>ATT	p.L289I		NM_022725	NP_073562	Q9NPI8	FANCF_HUMAN	Fanconi anemia, complementation group F	289				L->A: Strongly reduced monoubiquitination of FANCD2; when associated with A-287; A- 339; A-341 and A-344.	DNA repair	nucleoplasm	protein binding			skin(1)	1						CCTTTCTGAAGGTCATAGTGC	0.542			N|F			AML|leukemia		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia		OREG0020844	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	122	---	---	---	---	PASS	T	22646492	T	T	22646492	3	4	37	1	0	0	0	0	1	0	0	0	5667	1000	35	3	263	3	FANCF	11	22646492	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	5315362	22646492	112360024	265	14803										
KCNA4	3739	broad.mit.edu	37	chr11	30033959	30033959	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgggctttcttcttctcagaCcgctgtcgcctcctcctccg	8	17	3	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:30033959C>A	uc001msk.2	-	2	1419	c.267G>T	c.(265-267)CGG>CGT	p.R89R		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	89						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TCTTCTCAGACCGCTGTCGCC	0.622													30	54	---	---	---	---	PASS	A	30033959	A	A	30033959	2	1	37	1	0	0	0	0	0	0	0	1	8005	494	18	3		3	KCNA4	11	30033959	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	7387467	30033959	104972557	266	14804										
RAG2	5897	broad.mit.edu	37	chr11	36614556	36614556	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	catcaaaactatttgcttctGcactgaaacaaaattcttca	3	10	4	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:36614556G>C	uc001mwv.3	-	2	1351	c.1163C>G	c.(1162-1164)GCA>GGA	p.A388G	RAG1_uc001mwt.2_RNA|C11orf74_uc010rfd.1_5'Flank|C11orf74_uc001mww.1_5'Flank|C11orf74_uc001mwx.1_5'Flank|C11orf74_uc001mwy.1_5'Flank|C11orf74_uc001mwz.1_5'Flank|C11orf74_uc010rfe.1_5'Flank	NM_000536	NP_000527	P55895	RAG2_HUMAN	recombination activating gene 2	388					chromatin modification|pre-B cell allelic exclusion|somatic diversification of immunoglobulins|T cell differentiation in thymus|V(D)J recombination	nucleus	chromatin binding|DNA binding|endonuclease activity|methylated histone residue binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|zinc ion binding			skin(3)|ovary(1)|pancreas(1)	5	all_lung(20;0.226)	all_hematologic(20;0.00756)				ATTTGCTTCTGCACTGAAACA	0.398									Familial_Hemophagocytic_Lymphohistiocytosis				65	109	---	---	---	---	PASS	C	36614556	C	C	36614556	3	2	37	1	0	0	0	0	1	0	0	0	13005	1319	46	4	424	4	RAG2	11	36614556	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	6580597	36614556	98391960	267	14805										
ACCSL	390110	broad.mit.edu	37	chr11	44069984	44069984	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgaagctgcctttgtcaaccGcgacctatccatccgtggga	10	13	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:44069984G>C	uc001mxw.1	+	1	454	c.398G>C	c.(397-399)CGC>CCC	p.R133P	ACCSL_uc009ykr.2_5'UTR	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	133							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						TTTGTCAACCGCGACCTATCC	0.488													20	123	---	---	---	---	PASS	C	44069984	C	C	44069984	3	2	37	1	0	0	0	0	1	0	0	0	134	1087	38	4	400	4	ACCSL	11	44069984	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	7455428	44069984	90936532	268	14806										
MADD	8567	broad.mit.edu	37	chr11	47296439	47296439	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atgccacctgtgcctcagaaGagggtggcactgagagctca	13	11	2	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:47296439G>T	uc001ner.1	+	3	579	c.388G>T	c.(388-390)GAG>TAG	p.E130*	MADD_uc001neq.2_Nonsense_Mutation_p.E130*|MADD_uc001nev.1_Nonsense_Mutation_p.E130*|MADD_uc001nes.1_Nonsense_Mutation_p.E130*|MADD_uc001net.1_Nonsense_Mutation_p.E130*|MADD_uc009yln.1_Nonsense_Mutation_p.E130*|MADD_uc001neu.1_Nonsense_Mutation_p.E130*|MADD_uc001nex.2_Nonsense_Mutation_p.E130*|MADD_uc001nez.2_Nonsense_Mutation_p.E130*|MADD_uc001new.2_Nonsense_Mutation_p.E130*	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	130					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		TGCCTCAGAAGAGGGTGGCAC	0.602													4	84	---	---	---	---	PASS	T	47296439	T	T	47296439	4	4	37	1	0	0	0	0	0	1	0	0	9152	943	33	2	394	2	MADD	11	47296439	Nonsense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	3226455	47296439	87710077	269	14807										
OR4B1	119765	broad.mit.edu	37	chr11	48239284	48239284	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	caaaaaggagaatccagggaGggagtgaaaaaagagcttag	14	4	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:48239284G>A	uc010rhs.1	+	1	923	c.923G>A	c.(922-924)AGG>AAG	p.R308K		NM_001005470	NP_001005470	Q8NGF8	OR4B1_HUMAN	olfactory receptor, family 4, subfamily B,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|pancreas(1)	4						AATCCAGGGAGGGAGTGAAAA	0.403													25	40	---	---	---	---	PASS	A	48239284	A	A	48239284	3	1	37	1	0	0	0	0	1	0	0	0	11044	1000	35	3	925	3	OR4B1	11	48239284	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	942845	48239284	86767232	270	14808										
OR4C11	219429	broad.mit.edu	37	chr11	55371530	55371530	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgaggacaaagatctccatgCagccaaataaatgtagtgca	9	8	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:55371530C>A	uc010rii.1	-	1	320	c.320G>T	c.(319-321)TGC>TTC	p.C107F		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	107	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GATCTCCATGCAGCCAAATAA	0.448													54	80	---	---	---	---	PASS	A	55371530	A	A	55371530	3	1	37	1	0	0	0	0	1	0	0	0	11045	710	25	3	614	3	OR4C11	11	55371530	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	7132246	55371530	79634986	271	14809										
OR4S2	219431	broad.mit.edu	37	chr11	55419153	55419153	+	Silent	SNP	C	A	A													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgtacttttatgtacatgcgCcctgatacgaccttttcaga							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:55419153C>A	uc001nhs.1	+	1	774	c.774C>A	c.(772-774)CGC>CGA	p.R258R		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	258	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				TGTACATGCGCCCTGATACGA	0.468													122	144	---	---	---	---	PASS	A	55419153	A	A	55419153	2	1	37	1	0	0	0	0	0	0	0	1	11083	726	26	3		3	OR4S2	11	55419153	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	47623	55419153	79587363	272	14810	377	2								
OR4S2	219431	broad.mit.edu	37	chr11	55419154	55419154	+	Missense_Mutation	SNP	C	A	A													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtacttttatgtacatgcgcCctgatacgaccttttcagag							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:55419154C>A	uc001nhs.1	+	1	775	c.775C>A	c.(775-777)CCT>ACT	p.P259T		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	259	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				GTACATGCGCCCTGATACGAC	0.468													121	147	---	---	---	---	PASS	A	55419154	A	A	55419154	3	1	37	1	0	0	0	0	1	0	0	0	11083	623	22	3	777	3	OR4S2	11	55419154	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	1	55419154	79587362	273	14811	377	2								
OR4C6	219432	broad.mit.edu	37	chr11	55433452	55433452	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cccatagacaaggcaatggcTgtgtcagactcaatcatcac	8	12	4	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:55433452T>A	uc001nht.3	+	3	1075	c.810T>A	c.(808-810)GCT>GCA	p.A270A	OR4C6_uc010rik.1_Silent_p.A270A	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	270	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						AGGCAATGGCTGTGTCAGACT	0.473													23	116	---	---	---	---	PASS	A	55433452	A	A	55433452	2	1	37	1	0	0	0	0	0	0	0	1	11052	1567	55	5		5	OR4C6	11	55433452	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	14298	55433452	79573064	274	14812										
OR8I2	120586	broad.mit.edu	37	chr11	55861250	55861250	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgtgataggcttcacaagctCgctgatatctgtctgggtga	12	8	3	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:55861250C>A	uc010rix.1	+	1	467	c.467C>A	c.(466-468)TCG>TAG	p.S156*		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					TTCACAAGCTCGCTGATATCT	0.433													39	149	---	---	---	---	PASS	A	55861250	A	A	55861250	4	1	37	1	0	0	0	0	0	1	0	0	11240	893	31	2	469	2	OR8I2	11	55861250	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	427798	55861250	79145266	275	14813										
OR5T3	390154	broad.mit.edu	37	chr11	56020637	56020637	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gttgaatcccatcatctataGtttgaggaacaaagaagtaa	8	6	2	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:56020637G>C	uc010rjd.1	+	1	962	c.962G>C	c.(961-963)AGT>ACT	p.S321T		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	321	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					ATCATCTATAGTTTGAGGAAC	0.308													9	95	---	---	---	---	PASS	C	56020637	C	C	56020637	3	2	37	1	0	0	0	0	1	0	0	0	11183	1029	36	4	964	4	OR5T3	11	56020637	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	159387	56020637	78985879	276	14814										
OR10Q1	219960	broad.mit.edu	37	chr11	57995796	57995796	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cgcaggacgggaggcacatcGcagaggaagtggttgatttc	16	8	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:57995796G>T	uc010rkd.1	-	1	552	c.552C>A	c.(550-552)TGC>TGA	p.C184*		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	184	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				GAGGCACATCGCAGAGGAAGT	0.642													3	50	---	---	---	---	PASS	T	57995796	T	T	57995796	4	4	37	1	0	0	0	0	0	1	0	0	10916	1079	38	1	411	1	OR10Q1	11	57995796	Nonsense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1975159	57995796	77010720	277	14815										
OR5A1	219982	broad.mit.edu	37	chr11	59211269	59211269	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tcctcgtggtggtcactgtcGgaggaacatcgttcctccaa	11	12	1	0	rs149491111	byFrequency	TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:59211269G>A	uc001nnx.1	+	1	628	c.628G>A	c.(628-630)GGA>AGA	p.G210R		NM_001004728	NP_001004728	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2						GGTCACTGTCGGAGGAACATC	0.532													76	143	---	---	---	---	PASS	A	59211269	A	A	59211269	3	1	37	1	0	0	0	0	1	0	0	0	11139	1117	39	1	630	1	OR5A1	11	59211269	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1215473	59211269	75795247	278	14816										
RAD9A	5883	broad.mit.edu	37	chr11	67160217	67160217	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	caataccaggcagccaccccTggtcaggacctgctgcgctg	11	16	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:67160217T>G	uc001okr.2	+	3	291	c.198T>G	c.(196-198)CCT>CCG	p.P66P	RAD9A_uc001oks.2_5'Flank	NM_004584	NP_004575	Q99638	RAD9A_HUMAN	RAD9 homolog	66	Possesses 3'-5' exonuclease activity.				DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint	nucleoplasm	3'-5' exonuclease activity|exodeoxyribonuclease III activity|histone deacetylase binding|protein kinase binding|SH3 domain binding				0			BRCA - Breast invasive adenocarcinoma(15;8.53e-07)			CAGCCACCCCTGGTCAGGACC	0.612								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					24	94	---	---	---	---	PASS	G	67160217	G	G	67160217	2	3	37	1	0	0	0	0	0	0	0	1	12995	1567	55	5		5	RAD9A	11	67160217	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	7948948	67160217	67846299	279	14817										
ANO1	55107	broad.mit.edu	37	chr11	69950238	69950238	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gagactctcctatcccttctCccgggagaagcagcatctgt	9	14	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:69950238C>A	uc001opj.2	+	4	979	c.674C>A	c.(673-675)TCC>TAC	p.S225Y	ANO1_uc001opk.1_Missense_Mutation_p.S197Y|ANO1_uc001opl.1_RNA	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	225	Cytoplasmic (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						TATCCCTTCTCCCGGGAGAAG	0.517													12	16	---	---	---	---	PASS	A	69950238	A	A	69950238	3	1	37	1	0	0	0	0	1	0	0	0	695	855	30	2	688	2	ANO1	11	69950238	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2790021	69950238	65056278	280	14818										
RSF1	51773	broad.mit.edu	37	chr11	77404559	77404559	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggcggggtcttacatgttggCaaggtgggcagaaccattct	15	8	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:77404559C>A	uc001oyn.2	-	8	2933	c.2813G>T	c.(2812-2814)TGC>TTC	p.C938F	RSF1_uc001oym.2_Missense_Mutation_p.C686F	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	938	PHD-type.				CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			TACATGTTGGCAAGGTGGGCA	0.418													15	19	---	---	---	---	PASS	A	77404559	A	A	77404559	3	1	37	1	0	0	0	0	1	0	0	0	13699	710	25	3	1548	3	RSF1	11	77404559	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	7454321	77404559	57601957	281	14819										
ODZ4	26011	broad.mit.edu	37	chr11	78380569	78380569	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aggccttgatgagcaggccaGctgagttgtactcaaagata	12	8	1	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:78380569G>A	uc001ozl.3	-	32	7284	c.6821C>T	c.(6820-6822)GCT>GTT	p.A2274V	ODZ4_uc001ozk.3_Missense_Mutation_p.A499V|ODZ4_uc009yvb.1_Missense_Mutation_p.A858V	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2274	Extracellular (Potential).|YD 21.				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						GAGCAGGCCAGCTGAGTTGTA	0.612													34	147	---	---	---	---	PASS	A	78380569	A	A	78380569	3	1	37	1	0	0	0	0	1	0	0	0	10837	971	34	3	1500	3	ODZ4	11	78380569	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	976010	78380569	56625947	282	14820										
FAT3	120114	broad.mit.edu	37	chr11	92087084	92087084	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cacatcacagcagtctcagcGatcgatatcgatgaacttga	8	11	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:92087084G>A	uc001pdj.3	+	1	1823	c.1806G>A	c.(1804-1806)GCG>GCA	p.A602A		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	602	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CAGTCTCAGCGATCGATATCG	0.393										TCGA Ovarian(4;0.039)			9	40	---	---	---	---	PASS	A	92087084	A	A	92087084	2	1	37	1	0	0	0	0	0	0	0	1	5691	1045	37	2		2	FAT3	11	92087084	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	13706515	92087084	42919432	283	14821										
CNTN5	53942	broad.mit.edu	37	chr11	100126584	100126584	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagcagctgacaaccacagcCcaatctcctcctacaacctt	4	18	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:100126584C>A	uc001pga.2	+	17	2437	c.2098C>A	c.(2098-2100)CCA>ACA	p.P700T	CNTN5_uc001pfz.2_Missense_Mutation_p.P700T|CNTN5_uc001pgb.2_Missense_Mutation_p.P626T|CNTN5_uc010ruk.1_5'UTR	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	700	Fibronectin type-III 1.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CAACCACAGCCCAATCTCCTC	0.512													33	125	---	---	---	---	PASS	A	100126584	A	A	100126584	3	1	37	1	0	0	0	0	1	0	0	0	3644	623	22	3	2156	3	CNTN5	11	100126584	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	8039500	100126584	34879932	284	14822										
TRPC6	7225	broad.mit.edu	37	chr11	101359755	101359755	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acaaggaacttgaccgccatTgtctgctgtcgtaaaccaga	9	11	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:101359755T>A	uc001pgk.3	-	4	1631	c.1206A>T	c.(1204-1206)ACA>ACT	p.T402T	TRPC6_uc009ywy.2_Intron|TRPC6_uc009ywz.1_Intron	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	402	Cytoplasmic (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		TGACCGCCATTGTCTGCTGTC	0.458													10	79	---	---	---	---	PASS	A	101359755	A	A	101359755	2	1	37	1	0	0	0	0	0	0	0	1	16580	1799	63	5		5	TRPC6	11	101359755	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	1233171	101359755	33646761	285	14823										
MMP8	4317	broad.mit.edu	37	chr11	102595563	102595563	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acatggagtaagagcagaaaTggaagcgtcttcagggagaa	14	5	2	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:102595563T>C	uc001phe.2	-	1	123	c.24A>G	c.(22-24)CCA>CCG	p.P8P	MMP8_uc010rut.1_5'Flank|MMP8_uc010ruu.1_5'UTR	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	8					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		AGAGCAGAAATGGAAGCGTCT	0.458													181	194	---	---	---	---	PASS	C	102595563	C	C	102595563	2	2	37	1	0	0	0	0	0	0	0	1	9668	1451	51	5		5	MMP8	11	102595563	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	1235808	102595563	32410953	286	14824										
KBTBD3	143879	broad.mit.edu	37	chr11	105923774	105923774	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ataaattttatcttcaattcCaattgcacctgcattaaagc	3	9	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:105923774C>A	uc001pja.2	-	4	2282	c.1642G>T	c.(1642-1644)GGA>TGA	p.G548*	KBTBD3_uc001pjb.2_Nonsense_Mutation_p.G548*|KBTBD3_uc009yxm.2_Nonsense_Mutation_p.G469*	NM_198439	NP_940841	Q8NAB2	KBTB3_HUMAN	BTB and kelch domain containing 3	544										ovary(1)|central_nervous_system(1)	2		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.43e-05)|Epithelial(105;0.00418)|all cancers(92;0.0299)		TCTTCAATTCCAATTGCACCT	0.398													39	100	---	---	---	---	PASS	A	105923774	A	A	105923774	4	1	37	1	0	0	0	0	0	1	0	0	7994	603	21	3	200	3	KBTBD3	11	105923774	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	3328211	105923774	29082742	287	14825										
APOA5	116519	broad.mit.edu	37	chr11	116661456	116661457	+	Frame_Shift_Ins	INS	-	A	A													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aagcctcgtccacgccccccINSagcaactgggccttggtgtc							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:116661456_116661457insA	uc001ppr.2	-	3	496_497	c.488_489insT	c.(487-489)CTGfs	p.L163fs	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Frame_Shift_Ins_p.L163fs|APOA5_uc009yzf.2_Frame_Shift_Ins_p.L163fs|APOA5_uc009yzg.2_Frame_Shift_Ins_p.L189fs	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	163					acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		CCACGCCCCCCAGCAACTGGGC	0.649													103	62	---	---	---	---		A	116661457	A	A	116661456	7	5	37	1	0	1	1	0	0	0	0	0	784	581	21	0	615	0	APOA5	11	116661456	Frame_Shift_Ins	INS	-	TCGA-22-4599-01A-01D-1441-08	10737682	116661456	18345060	288	14826										
MPZL3	196264	broad.mit.edu	37	chr11	118110946	118110946	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgatactgtgtggctgctgcTgggagggcgatatgtccagt	16	7	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:118110946T>C	uc001psm.2	-	2	222	c.220A>G	c.(220-222)AGC>GGC	p.S74G	MPZL3_uc010rxy.1_Missense_Mutation_p.S62G|MPZL3_uc010rxz.1_RNA|MPZL3_uc009yzy.2_Intron	NM_198275	NP_938016	Q6UWV2	MPZL3_HUMAN	myelin protein zero-like 3 precursor	74	Ig-like V-type.				cell adhesion	integral to membrane					0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		TGGCTGCTGCTGGGAGGGCGA	0.418													21	195	---	---	---	---	PASS	C	118110946	C	C	118110946	3	2	37	1	0	0	0	0	1	0	0	0	9751	1580	55	5	507	5	MPZL3	11	118110946	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	1449490	118110946	16895570	289	14827										
OR8B2	26595	broad.mit.edu	37	chr11	124252601	124252601	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaaacataagaaatgaggatGgtacaactgggtaccgtgat	11	5	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:124252601G>T	uc010sai.1	-	1	639	c.639C>A	c.(637-639)ACC>ACA	p.T213T		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	213	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		AAATGAGGATGGTACAACTGG	0.433													71	212	---	---	---	---	PASS	T	124252601	T	T	124252601	2	4	37	1	0	0	0	0	0	0	0	1	11227	1335	47	3		3	OR8B2	11	124252601	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	6141655	124252601	10753915	290	14828										
OR8B2	26595	broad.mit.edu	37	chr11	124252884	124252884	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tggccacatagcgatcatatGccattgaagtcaacatgtaa	8	9	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:124252884G>T	uc010sai.1	-	1	356	c.356C>A	c.(355-357)GCA>GAA	p.A119E		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GCGATCATATGCCATTGAAGT	0.403													34	38	---	---	---	---	PASS	T	124252884	T	T	124252884	3	4	37	1	0	0	0	0	1	0	0	0	11227	1319	46	3	588	3	OR8B2	11	124252884	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	283	124252884	10753632	291	14829										
OR8B3	390271	broad.mit.edu	37	chr11	124266892	124266892	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tggccacatagcgatcatatGccattgaggtcaacatgtaa	9	9	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:124266892G>T	uc010saj.1	-	1	356	c.356C>A	c.(355-357)GCA>GAA	p.A119E	OR8B2_uc001qab.3_Intron	NM_001005467	NP_001005467	Q8NGG8	OR8B3_HUMAN	olfactory receptor, family 8, subfamily B,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GCGATCATATGCCATTGAGGT	0.393													4	58	---	---	---	---	PASS	T	124266892	T	T	124266892	3	4	37	1	0	0	0	0	1	0	0	0	11228	1319	46	3	587	3	OR8B3	11	124266892	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	14008	124266892	10739624	292	14830										
ADAMTS8	11095	broad.mit.edu	37	chr11	130284669	130284670	+	Frame_Shift_Ins	INS	-	C	C													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gctggtacagggccatgcggINScccgggaggcctgtggggag							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr11:130284669_130284670insC	uc001qgg.3	-	5	1680_1681	c.1322_1323insG	c.(1321-1323)GGCfs	p.G441fs	ADAMTS8_uc001qgf.2_5'Flank	NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	441	Disintegrin.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		GGGCCATGCGGCCCGGGAGGCC	0.653													42	29	---	---	---	---		C	130284670	C	C	130284669	7	5	37	1	0	1	1	0	0	0	0	0	272	1190	42	0	1366	0	ADAMTS8	11	130284669	Frame_Shift_Ins	INS	-	TCGA-22-4599-01A-01D-1441-08	6017777	130284669	4721847	293	14831										
ITFG2	55846	broad.mit.edu	37	chr12	2929370	2929370	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gggcagctggtgtccctcaaGaaatggatgctggagggtca	16	8	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:2929370G>A	uc001qlb.1	+	5	589	c.525G>A	c.(523-525)AAG>AAA	p.K175K	ITFG2_uc010seb.1_5'UTR|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	175											0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			TGTCCCTCAAGAAATGGATGC	0.602													5	26	---	---	---	---	PASS	A	2929370	A	A	2929370	2	1	37	1	0	0	0	0	0	0	0	1	7870	933	33	2		2	ITFG2	12	2929370	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08		2929370	130922525	294	14832										
KCNA1	3736	broad.mit.edu	37	chr12	5021420	5021420	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acctccctggccatcctcagGgtcatccgcttggtaagggt	11	14	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:5021420G>T	uc001qnh.2	+	2	1981	c.876G>T	c.(874-876)AGG>AGT	p.R292S		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	292	Helical; Voltage-sensor; Name=Segment S4; (Potential).				synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CCATCCTCAGGGTCATCCGCT	0.552													54	102	---	---	---	---	PASS	T	5021420	T	T	5021420	3	4	37	1	0	0	0	0	1	0	0	0	8001	1223	43	3	878	3	KCNA1	12	5021420	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2092050	5021420	128830475	295	14833										
CD163	9332	broad.mit.edu	37	chr12	7649411	7649411	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggtttggttttaacttaccaGaacatgtcacgccagcatct	8	10	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:7649411G>T	uc001qsz.3	-	5	1225	c.1097C>A	c.(1096-1098)TCT>TAT	p.S366Y	CD163_uc001qta.3_Missense_Mutation_p.S366Y|CD163_uc009zfw.2_Missense_Mutation_p.S366Y	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	366	SRCR 3.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						TAACTTACCAGAACATGTCAC	0.343													60	144	---	---	---	---	PASS	T	7649411	T	T	7649411	3	4	37	1	0	0	0	0	1	0	0	0	2967	942	33	2	2421	2	CD163	12	7649411	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2627991	7649411	126202484	296	14834										
PZP	5858	broad.mit.edu	37	chr12	9316787	9316787	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctctcatttccacagatacaAtaggattcttctccctttgt	4	12	3	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:9316787A>G	uc001qvl.2	-	20	2585	c.2556T>C	c.(2554-2556)TAT>TAC	p.Y852Y	PZP_uc009zgl.2_Intron|PZP_uc010sgo.1_RNA|PZP_uc009zgm.1_Intron	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						CACAGATACAATAGGATTCTT	0.468													105	186	---	---	---	---	PASS	G	9316787	G	G	9316787	2	3	37	1	0	0	0	0	0	0	0	1	12869	108	4	5		5	PZP	12	9316787	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	1667376	9316787	124535108	297	14835										
LST-3TM12	338821	broad.mit.edu	37	chr12	21196331	21196331	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttggtggcttggtttccttgTgtctggaatagtatccatta	11	6	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:21196331T>A	uc010sin.1	+	6	650	c.650T>A	c.(649-651)GTG>GAG	p.V217E	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Missense_Mutation_p.V264E	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	217						membrane	transporter activity				0						GGTTTCCTTGTGTCTGGAATA	0.358													110	170	---	---	---	---	PASS	A	21196331	A	A	21196331	3	1	37	1	0	0	0	0	1	0	0	0	9066	1696	59	5	672	5	LST-3TM12	12	21196331	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	11879544	21196331	112655564	298	14836										
SLCO1A2	6579	broad.mit.edu	37	chr12	21453281	21453281	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atttagaatatgtatatttgCctttagtgattccatatttt	5	4	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:21453281C>A	uc001rer.2	-	7	1161	c.910_splice	c.e7+1	p.D304_splice	SLCO1A2_uc001res.2_Splice_Site_p.D304_splice|SLCO1A2_uc010siq.1_Splice_Site_p.D172_splice|SLCO1A2_uc010sio.1_Splice_Site_p.D172_splice|SLCO1A2_uc010sip.1_Splice_Site_p.D172_splice|SLCO1A2_uc001ret.2_Splice_Site_p.D302_splice|SLCO1A2_uc001reu.2_Splice_Site_p.D284_splice	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A						bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TGTATATTTGCCTTTAGTGAT	0.299													28	76	---	---	---	---	PASS	A	21453281	A	A	21453281	5	1	37	1	0	0	0	0	0	0	1	0	14722	753	26	3	1133	3	SLCO1A2	12	21453281	Splice_Site	SNP	C	TCGA-22-4599-01A-01D-1441-08	256950	21453281	112398614	299	14837										
DDX11	1663	broad.mit.edu	37	chr12	31241998	31241998	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atttattactgtagtcggacAcactcccagctggcccagtt	8	12	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:31241998A>G	uc001rjt.1	+	7	956	c.705A>G	c.(703-705)ACA>ACG	p.T235T	DDX11_uc010sjw.1_Silent_p.T235T|DDX11_uc010sjx.1_RNA|DDX11_uc001rjr.1_Silent_p.T235T|DDX11_uc001rjs.1_Silent_p.T235T|DDX11_uc001rju.1_5'UTR|DDX11_uc001rjv.1_Silent_p.T235T|DDX11_uc001rjw.1_Silent_p.T209T|DDX11_uc001rjx.1_5'UTR|DDX11_uc009zjn.1_RNA	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	235	Helicase ATP-binding.				G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					GTAGTCGGACACACTCCCAGC	0.522										Multiple Myeloma(12;0.14)			14	303	---	---	---	---	PASS	G	31241998	G	G	31241998	2	3	37	1	0	0	0	0	0	0	0	1	4343	146	6	5		5	DDX11	12	31241998	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	9788717	31241998	102609897	300	14838										
MLL2	8085	broad.mit.edu	37	chr12	49431484	49431484	+	Frame_Shift_Del	DEL	C	-	-													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tccaccaggcaaggtcaaagCcccactctcgagctcaaact							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:49431484delC	uc001rta.3	-	34	9655	c.9655delG	c.(9655-9657)GCTfs	p.A3219fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3219					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AAGGTCAAAGCCCCACTCTCG	0.607			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			4	8	---	---	---	---		-	49431484	-	-	49431484	7	5	37	1	0	1	0	1	0	0	0	0	9621	739	26	0	7042	0	MLL2	12	49431484	Frame_Shift_Del	DEL	C	TCGA-22-4599-01A-01D-1441-08	18189486	49431484	84420411	301	14839										
DPY19L2	283417	broad.mit.edu	37	chr12	63964606	63964606	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtagacagcttgatgcttgcCattgtaggcatggcacctgc	12	10	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:63964606C>G	uc001srp.1	-	20	2113	c.1932G>C	c.(1930-1932)ATG>ATC	p.M644I	DPY19L2_uc010sso.1_Missense_Mutation_p.M91I	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	644					multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		TGATGCTTGCCATTGTAGGCA	0.373													52	60	---	---	---	---	PASS	G	63964606	G	G	63964606	3	3	37	1	0	0	0	0	1	0	0	0	4741	594	21	4	356	4	DPY19L2	12	63964606	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	14533122	63964606	69887289	302	14840										
CPM	1368	broad.mit.edu	37	chr12	69265737	69265737	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agcagctcccgcccaacagtCtatatgtgttaaagagaaaa	8	10	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:69265737C>G	uc001sup.2	-	4	320	c.259_splice	c.e4-1	p.T87_splice	CPM_uc001sur.2_Splice_Site_p.T87_splice|CPM_uc001suq.2_Splice_Site_p.T87_splice	NM_198320	NP_938079	P14384	CBPM_HUMAN	carboxypeptidase M precursor						anatomical structure morphogenesis|proteolysis	anchored to membrane|cytoplasm|nucleus|plasma membrane	metallocarboxypeptidase activity|zinc ion binding				0	all_epithelial(5;1.09e-35)|Lung NSC(4;1.47e-33)|all_lung(4;1.02e-31)|Breast(13;1.59e-06)		all cancers(2;2.69e-50)|GBM - Glioblastoma multiforme(2;7.34e-41)|BRCA - Breast invasive adenocarcinoma(5;5.38e-10)|Lung(24;4.61e-05)|LUAD - Lung adenocarcinoma(15;0.000376)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			GCCCAACAGTCTATATGTGTT	0.443													53	34	---	---	---	---	PASS	G	69265737	G	G	69265737	5	3	37	1	0	0	0	0	0	0	1	0	3808	927	32	2	1097	2	CPM	12	69265737	Splice_Site	SNP	C	TCGA-22-4599-01A-01D-1441-08	5301131	69265737	64586158	303	14841										
CCDC38	120935	broad.mit.edu	37	chr12	96312661	96312661	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aattaaactttaccgtttccTttgctgccatttcattttct	3	10	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:96312661T>G	uc001tek.1	-	3	365	c.131A>C	c.(130-132)AAG>ACG	p.K44T		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	44										skin(1)	1						TACCGTTTCCTTTGCTGCCAT	0.358													58	50	---	---	---	---	PASS	G	96312661	G	G	96312661	3	3	37	1	0	0	0	0	1	0	0	0	2810	1609	56	5	1616	5	CCDC38	12	96312661	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	27046924	96312661	37539234	304	14842										
DDX54	79039	broad.mit.edu	37	chr12	113599121	113599121	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cttcgctctgggcctcgccgGtcagatgccccttcttcgtc	10	17	3	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:113599121G>T	uc001tup.2	-	19	2395	c.2367C>A	c.(2365-2367)GAC>GAA	p.D789E	DDX54_uc001tuq.3_Missense_Mutation_p.D789E	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	789					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						GGCCTCGCCGGTCAGATGCCC	0.572													53	33	---	---	---	---	PASS	T	113599121	T	T	113599121	3	4	37	1	0	0	0	0	1	0	0	0	4372	1252	44	3	289	3	DDX54	12	113599121	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	17286460	113599121	20252774	305	14843										
SDS	10993	broad.mit.edu	37	chr12	113831701	113831701	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aggacctggcacatacccacGaacttctcaatggcggccac	9	15	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:113831701G>A	uc001tvg.2	-	7	896	c.774C>T	c.(772-774)TTC>TTT	p.F258F		NM_006843	NP_006834	P20132	SDHL_HUMAN	serine dehydratase	258					gluconeogenesis|L-serine catabolic process|pyruvate biosynthetic process	cytoplasm	L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|protein homodimerization activity|pyridoxal phosphate binding			pancreas(1)	1					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	ACATACCCACGAACTTCTCAA	0.567													72	56	---	---	---	---	PASS	A	113831701	A	A	113831701	2	1	37	1	0	0	0	0	0	0	0	1	13975	1049	37	2		2	SDS	12	113831701	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	232580	113831701	20020194	306	14844										
CABP1	9478	broad.mit.edu	37	chr12	121098054	121098054	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaggatggctacatcaactgCcgggatctgggcaactgcat	12	10	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:121098054C>T	uc001tyu.2	+	3	808	c.741C>T	c.(739-741)TGC>TGT	p.C247C	CABP1_uc001tyv.2_Silent_p.C104C|CABP1_uc001tyw.2_Silent_p.C44C|CABP1_uc001tyx.2_Silent_p.C89C	NM_001033677	NP_001028849	Q9NZU7	CABP1_HUMAN	calcium binding protein 1 isoform 3	247	1.|EF-hand 1.					cell cortex|cell junction|Golgi apparatus|perinuclear region of cytoplasm|postsynaptic density|postsynaptic membrane	calcium ion binding|calcium-dependent protein binding|enzyme inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ACATCAACTGCCGGGATCTGG	0.572													12	83	---	---	---	---	PASS	T	121098054	T	T	121098054	2	4	37	1	0	0	0	0	0	0	0	1	2531	747	26	3		3	CABP1	12	121098054	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	7266353	121098054	12753841	307	14845										
MPHOSPH9	10198	broad.mit.edu	37	chr12	123687280	123687280	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgaggccgaagcaaccatgaCagtgttttcttcatctacag	9	10	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:123687280C>A	uc001uel.2	-	6	1323	c.1216G>T	c.(1216-1218)GTC>TTC	p.V406F	MPHOSPH9_uc010tal.1_Intron|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Intron	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	406					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		GCAACCATGACAGTGTTTTCT	0.448													26	152	---	---	---	---	PASS	A	123687280	A	A	123687280	3	1	37	1	0	0	0	0	1	0	0	0	9728	478	17	3	1939	3	MPHOSPH9	12	123687280	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2589226	123687280	10164615	308	14846										
ANKLE2	23141	broad.mit.edu	37	chr12	133324531	133324531	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gaagtcagggttctccaggaCgtccagagtcagctggcaga	14	10	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr12:133324531C>T	uc001ukx.2	-	5	1184	c.1117G>A	c.(1117-1119)GTC>ATC	p.V373I	ANKLE2_uc001uky.3_Missense_Mutation_p.V311I	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	373						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		TTCTCCAGGACGTCCAGAGTC	0.547													25	108	---	---	---	---	PASS	T	133324531	T	T	133324531	3	4	37	1	0	0	0	0	1	0	0	0	633	536	19	1	1735	1	ANKLE2	12	133324531	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	9637251	133324531	527364	309	14847										
TPTE2	93492	broad.mit.edu	37	chr13	20000609	20000609	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atcatcatacagaggtggacCgtcatatacattaattaata	6	7	3	1	rs141691551	by1000genomes	TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr13:20000609C>G	uc001umd.2	-	19	1562	c.1351G>C	c.(1351-1353)GGT>CGT	p.G451R	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Missense_Mutation_p.G340R|TPTE2_uc001ume.2_Missense_Mutation_p.G374R|TPTE2_uc009zzm.2_Missense_Mutation_p.G122R|TPTE2_uc010tcm.1_RNA|TPTE2_uc010tcl.1_Missense_Mutation_p.G122R	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	451	C2 tensin-type.					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		AGAGGTGGACCGTCATATACA	0.338													25	119	---	---	---	---	PASS	G	20000609	G	G	20000609	3	3	37	1	0	0	0	0	1	0	0	0	16428	652	23	4	229	4	TPTE2	13	20000609	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08		20000609	95169269	310	14848										
CENPJ	55835	broad.mit.edu	37	chr13	25479961	25479961	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cctggtgtccttaaaaggccCcttatcatcacagacttgtg	8	12	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr13:25479961C>A	uc001upt.3	-	7	2468	c.2215G>T	c.(2215-2217)GGG>TGG	p.G739W	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA|CENPJ_uc001upu.2_5'Flank	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	739					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		TTAAAAGGCCCCTTATCATCA	0.448													96	194	---	---	---	---	PASS	A	25479961	A	A	25479961	3	1	37	1	0	0	0	0	1	0	0	0	3234	623	22	3	1845	3	CENPJ	13	25479961	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	5479352	25479961	89689917	311	14849										
ATP8A2	51761	broad.mit.edu	37	chr13	26144967	26144967	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtgtgccacacggttgttccTgagaaggatggagataacat	13	7	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr13:26144967T>G	uc001uqk.2	+	17	1678	c.1536T>G	c.(1534-1536)CCT>CCG	p.P512P	ATP8A2_uc010tdi.1_Silent_p.P472P|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Silent_p.P22P|ATP8A2_uc001uql.1_Silent_p.P472P	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	472	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		CGGTTGTTCCTGAGAAGGATG	0.587													4	112	---	---	---	---	PASS	G	26144967	G	G	26144967	2	3	37	1	0	0	0	0	0	0	0	1	1193	1567	55	5		5	ATP8A2	13	26144967	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	665006	26144967	89024911	312	14850										
MAB21L1	4081	broad.mit.edu	37	chr13	36049898	36049898	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgaaacctggaccggattttGcgcgccgagaggtagccgga	15	10	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr13:36049898G>A	uc001uvc.2	-	1	935	c.378C>T	c.(376-378)CGC>CGT	p.R126R	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	126					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		ACCGGATTTTGCGCGCCGAGA	0.592													15	49	---	---	---	---	PASS	A	36049898	A	A	36049898	2	1	37	1	0	0	0	0	0	0	0	1	9141	1306	46	3		3	MAB21L1	13	36049898	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	9904931	36049898	79119980	313	14851										
SIAH3	283514	broad.mit.edu	37	chr13	46358134	46358134	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggtggtgggagagatggtgaGggtggaagctgccttgctct	20	5	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr13:46358134G>A	uc001vap.2	-	2	276	c.194C>T	c.(193-195)CCT>CTT	p.P65L		NM_198849	NP_942146	Q8IW03	SIAH3_HUMAN	seven in absentia homolog 3	65	SIAH-type; degenerate.|His-rich.				multicellular organismal development|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding			ovary(1)|skin(1)	2						GAGATGGTGAGGGTGGAAGCT	0.398													8	49	---	---	---	---	PASS	A	46358134	A	A	46358134	3	1	37	1	0	0	0	0	1	0	0	0	14301	1000	35	3	619	3	SIAH3	13	46358134	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	10308236	46358134	68811744	314	14852										
TBC1D4	9882	broad.mit.edu	37	chr13	75915705	75915705	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcctctgtatcaccagcttgGctcttggtgggtagagacct	12	11	3	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr13:75915705G>T	uc001vjl.1	-	6	1774	c.1427C>A	c.(1426-1428)GCC>GAC	p.A476D	TBC1D4_uc010aer.2_Missense_Mutation_p.A476D|TBC1D4_uc010aes.2_Missense_Mutation_p.A476D	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	476						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		CACCAGCTTGGCTCTTGGTGG	0.433													21	44	---	---	---	---	PASS	T	75915705	T	T	75915705	3	4	37	1	0	0	0	0	1	0	0	0	15619	1203	42	3	2533	3	TBC1D4	13	75915705	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	29557571	75915705	39254173	315	14853										
LMO7	4008	broad.mit.edu	37	chr13	76407256	76407256	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtcttgactttgggtttacaAtaaaatgggatattcctggg	11	5	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr13:76407256A>G	uc001vjv.2	+	13	3080	c.2320A>G	c.(2320-2322)ATA>GTA	p.I774V	LMO7_uc010thv.1_Missense_Mutation_p.I725V|LMO7_uc001vjt.1_Missense_Mutation_p.I673V|LMO7_uc010thw.1_Missense_Mutation_p.I624V|LMO7_uc001vjw.1_Missense_Mutation_p.I680V	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	1059	PDZ.					cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		TGGGTTTACAATAAAATGGGA	0.393													34	45	---	---	---	---	PASS	G	76407256	G	G	76407256	3	3	37	1	0	0	0	0	1	0	0	0	8855	101	4	5	3241	5	LMO7	13	76407256	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	491551	76407256	38762622	316	14854										
LIG4	3981	broad.mit.edu	37	chr13	108862550	108862550	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aagtttgcagatcagaatccTctaccattcttttaatatca	4	9	4	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr13:108862550T>A	uc001vqn.2	-	2	1340	c.1067A>T	c.(1066-1068)GAG>GTG	p.E356V	LIG4_uc001vqo.2_Missense_Mutation_p.E356V|LIG4_uc010agg.1_Missense_Mutation_p.E289V|LIG4_uc010agf.2_Missense_Mutation_p.E356V|LIG4_uc001vqp.2_Missense_Mutation_p.E356V	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	356					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					ATCAGAATCCTCTACCATTCT	0.328								NHEJ					30	148	---	---	---	---	PASS	A	108862550	A	A	108862550	3	1	37	1	0	0	0	0	1	0	0	0	8783	1551	54	5	1672	5	LIG4	13	108862550	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	32455294	108862550	6307328	317	14855										
MYH7	4625	broad.mit.edu	37	chr14	23884917	23884917	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tccgggaccgctctgtctgcTccaccacggcacgcaactcc	9	19	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:23884917T>C	uc001wjx.2	-	35	5184	c.5078A>G	c.(5077-5079)GAG>GGG	p.E1693G		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1693	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CTCTGTCTGCTCCACCACGGC	0.632													16	72	---	---	---	---	PASS	C	23884917	C	C	23884917	3	2	37	1	0	0	0	0	1	0	0	0	10039	1551	54	5	753	5	MYH7	14	23884917	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08		23884917	83464623	318	14856										
NYNRIN	57523	broad.mit.edu	37	chr14	24884692	24884693	+	Frame_Shift_Ins	INS	-	G	G													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcggaccctgaggtgcgggaINSgggccgcagggtttccaaag							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:24884692_24884693insG	uc001wpf.3	+	9	4055_4056	c.3737_3738insG	c.(3736-3738)GAGfs	p.E1246fs		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	1246					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						GAGGTGCGGGAGGGCCGCAGGG	0.629													25	19	---	---	---	---		G	24884693	G	G	24884692	7	5	37	1	0	1	1	0	0	0	0	0	10796	304	11	0	3767	0	NYNRIN	14	24884692	Frame_Shift_Ins	INS	-	TCGA-22-4599-01A-01D-1441-08	999775	24884692	82464848	319	14857										
LRFN5	145581	broad.mit.edu	37	chr14	42360908	42360908	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgacaatgtgattcaatcttCagaaacttgttcgagtcagg	9	7	4	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:42360908C>A	uc001wvm.2	+	4	3039	c.1841C>A	c.(1840-1842)TCA>TAA	p.S614*	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	614	Cytoplasmic (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		ATTCAATCTTCAGAAACTTGT	0.478										HNSCC(30;0.082)			19	53	---	---	---	---	PASS	A	42360908	A	A	42360908	4	1	37	1	0	0	0	0	0	1	0	0	8941	838	29	2	1847	2	LRFN5	14	42360908	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	17476216	42360908	64988632	320	14858										
MDGA2	161357	broad.mit.edu	37	chr14	47426643	47426643	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gctacagttataaaccccatAgttttcattggaaagactct	6	9	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:47426643A>C	uc001wwj.3	-	9	2012	c.1816T>G	c.(1816-1818)TAT>GAT	p.Y606D	MDGA2_uc001wwi.3_Missense_Mutation_p.Y377D|MDGA2_uc010ani.2_Missense_Mutation_p.Y166D	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	606	Ig-like 6.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						TAAACCCCATAGTTTTCATTG	0.398													17	88	---	---	---	---	PASS	C	47426643	C	C	47426643	3	2	37	1	0	0	0	0	1	0	0	0	9407	420	15	5	1090	5	MDGA2	14	47426643	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	5065735	47426643	59922897	321	14859										
C14orf183	196913	broad.mit.edu	37	chr14	50559321	50559321	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tttcaagttgacgtttggctCtgacatccatcttactattc	6	10	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:50559321C>T	uc010tqk.1	-	1	41	c.41G>A	c.(40-42)AGA>AAA	p.R14K		NM_001014830	NP_001014830	Q8WXQ3	CN183_HUMAN	hypothetical protein LOC196913	14											0						ACGTTTGGCTCTGACATCCAT	0.368													26	68	---	---	---	---	PASS	T	50559321	T	T	50559321	3	4	37	1	0	0	0	0	1	0	0	0	1766	913	32	2	952	2	C14orf183	14	50559321	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	3132678	50559321	56790219	322	14860										
CDKL1	8814	broad.mit.edu	37	chr14	50799106	50799106	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaatatgggtgatgcaacagCtgttcacatgtcagcctttg	10	8	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:50799106C>T	uc001wxz.2	-	8	871	c.843G>A	c.(841-843)CAG>CAA	p.Q281Q	ATP5S_uc010ant.1_Intron	NM_004196	NP_004187	Q00532	CDKL1_HUMAN	cyclin-dependent kinase-like 1	280	Protein kinase.					cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(1)|stomach(1)	2	all_epithelial(31;0.000746)|Breast(41;0.0102)					GATGCAACAGCTGTTCACATG	0.383													40	134	---	---	---	---	PASS	T	50799106	T	T	50799106	2	4	37	1	0	0	0	0	0	0	0	1	3153	796	28	3		3	CDKL1	14	50799106	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	239785	50799106	56550434	323	14861										
C14orf37	145407	broad.mit.edu	37	chr14	58605813	58605813	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tctttgttaatcgagaatgcTttatttaatgatgttgccga	8	5	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:58605813T>A	uc001xdc.2	-	2	375	c.264A>T	c.(262-264)AAA>AAT	p.K88N	C14orf37_uc010tro.1_Missense_Mutation_p.K126N|C14orf37_uc001xdd.2_Missense_Mutation_p.K88N|C14orf37_uc001xde.2_Missense_Mutation_p.K88N	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	88	Extracellular (Potential).					integral to membrane	binding				0						TCGAGAATGCTTTATTTAATG	0.473													35	108	---	---	---	---	PASS	A	58605813	A	A	58605813	3	1	37	1	0	0	0	0	1	0	0	0	1771	1606	56	5	2088	5	C14orf37	14	58605813	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	7806707	58605813	48743727	324	14862										
SPTB	6710	broad.mit.edu	37	chr14	65266561	65266561	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acttgcggctgttcaggacaGtgatggtctgctcgatccag	13	10	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:65266561G>T	uc001xht.2	-	8	1022	c.968C>A	c.(967-969)ACT>AAT	p.T323N	SPTB_uc001xhr.2_Missense_Mutation_p.T323N|SPTB_uc001xhs.2_Missense_Mutation_p.T323N|SPTB_uc001xhu.2_Missense_Mutation_p.T323N	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	323	Spectrin 1.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		GTTCAGGACAGTGATGGTCTG	0.557											OREG0022735	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	86	---	---	---	---	PASS	T	65266561	T	T	65266561	3	4	37	1	0	0	0	0	1	0	0	0	15117	1029	36	3	6199	3	SPTB	14	65266561	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	6660748	65266561	42082979	325	14863										
SLC24A4	123041	broad.mit.edu	37	chr14	92959967	92959967	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgccgatgtgccgggaagacGattagcgctgagtcgcggcc	16	11	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:92959967G>C	uc001yak.2	+	17	1837	c.1813G>C	c.(1813-1815)GAT>CAT	p.D605H	SLC24A4_uc001yai.2_Missense_Mutation_p.D558H|SLC24A4_uc010twm.1_Missense_Mutation_p.D603H|SLC24A4_uc001yaj.2_Missense_Mutation_p.D586H|SLC24A4_uc010auj.2_3'UTR|SLC24A4_uc010twn.1_Missense_Mutation_p.D378H|SLC24A4_uc001yan.2_Missense_Mutation_p.D316H	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	622	Extracellular (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		CCGGGAAGACGATTAGCGCTG	0.547													15	31	---	---	---	---	PASS	C	92959967	C	C	92959967	3	2	37	1	0	0	0	0	1	0	0	0	14468	1058	37	2	1879	2	SLC24A4	14	92959967	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	27693406	92959967	14389573	326	14864										
DLK1	8788	broad.mit.edu	37	chr14	101201173	101201173	+	Silent	SNP	C	A	A													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gacctggccgtcaacatcatCttccccgagaagatcgacat							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:101201173C>A	uc001yhs.3	+	5	1245	c.1092C>A	c.(1090-1092)ATC>ATA	p.I364I	DLK1_uc001yhu.3_Silent_p.I291I	NM_003836	NP_003827	P80370	DLK1_HUMAN	delta-like 1 homolog precursor	364	Cytoplasmic (Potential).				multicellular organismal development	extracellular space|integral to membrane|soluble fraction				ovary(2)|breast(1)|skin(1)	4		Melanoma(154;0.155)				TCAACATCATCTTCCCCGAGA	0.572													52	169	---	---	---	---	PASS	A	101201173	A	A	101201173	2	1	37	1	0	0	0	0	0	0	0	1	4564	903	32	2		2	DLK1	14	101201173	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	8241206	101201173	6148367	327	14865	378	2								
DLK1	8788	broad.mit.edu	37	chr14	101201174	101201174	+	Missense_Mutation	SNP	T	G	G													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acctggccgtcaacatcatcTtccccgagaagatcgacatg							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:101201174T>G	uc001yhs.3	+	5	1246	c.1093T>G	c.(1093-1095)TTC>GTC	p.F365V	DLK1_uc001yhu.3_Missense_Mutation_p.F292V	NM_003836	NP_003827	P80370	DLK1_HUMAN	delta-like 1 homolog precursor	365	Cytoplasmic (Potential).				multicellular organismal development	extracellular space|integral to membrane|soluble fraction				ovary(2)|breast(1)|skin(1)	4		Melanoma(154;0.155)				CAACATCATCTTCCCCGAGAA	0.577													52	171	---	---	---	---	PASS	G	101201174	G	G	101201174	3	3	37	1	0	0	0	0	1	0	0	0	4564	1609	56	5	1111	5	DLK1	14	101201174	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	1	101201174	6148366	328	14866	378	2								
BAG5	9529	broad.mit.edu	37	chr14	104027168	104027168	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcagttgcctccattataaaAtggcacaattttctctctca	5	11	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:104027168A>C	uc001yni.1	-	2	568	c.334T>G	c.(334-336)TTT>GTT	p.F112V	KLC1_uc010tyd.1_5'Flank|BAG5_uc001ynh.1_Missense_Mutation_p.F153V|BAG5_uc001ynj.1_Missense_Mutation_p.F112V|C14orf153_uc001ynl.3_5'Flank|C14orf153_uc010tyc.1_5'Flank	NM_004873	NP_004864	Q9UL15	BAG5_HUMAN	BCL2-associated athanogene 5 isoform b	112	BAG 2.				apoptosis|negative regulation of protein refolding|negative regulation of ubiquitin-protein ligase activity|neuron death|protein folding|regulation of inclusion body assembly	inclusion body|perinuclear region of cytoplasm	chaperone binding|ubiquitin protein ligase binding			ovary(2)	2		Melanoma(154;0.155)	Epithelial(46;0.144)			CCATTATAAAATGGCACAATT	0.423													41	175	---	---	---	---	PASS	C	104027168	C	C	104027168	3	2	37	1	0	0	0	0	1	0	0	0	1290	101	4	5	1013	5	BAG5	14	104027168	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	2825994	104027168	3322372	329	14867										
AHNAK2	113146	broad.mit.edu	37	chr14	105411766	105411766	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcatggaggggaggctcacgTcggcctccgccttcggcgca	16	14	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr14:105411766T>A	uc010axc.1	-	7	10142	c.10022A>T	c.(10021-10023)GAC>GTC	p.D3341V	AHNAK2_uc001ypx.2_Missense_Mutation_p.D3241V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3341						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)			GAGGCTCACGTCGGCCTCCGC	0.622													57	219	---	---	---	---	PASS	A	105411766	A	A	105411766	3	1	37	1	0	0	0	0	1	0	0	0	415	1667	58	5	7369	5	AHNAK2	14	105411766	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	1384598	105411766	1937774	330	14868										
GABRG3	2567	broad.mit.edu	37	chr15	27222257	27222257	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	actcttattctcaacaagttGctaagagaatatgataaaaa	5	6	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr15:27222257G>C	uc001zbg.1	+	2	328	c.162G>C	c.(160-162)TTG>TTC	p.L54F	GABRG3_uc001zbf.2_Missense_Mutation_p.L54F	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	54	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		TCAACAAGTTGCTAAGAGAAT	0.358													57	56	---	---	---	---	PASS	C	27222257	C	C	27222257	3	2	37	1	0	0	0	0	1	0	0	0	6173	1310	46	4	168	4	GABRG3	15	27222257	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08		27222257	75309135	331	14869										
HERC2	8924	broad.mit.edu	37	chr15	28391416	28391416	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gacgatcctgttgacgccgtCcatgactgtgagagggtcgt	14	10	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr15:28391416C>T	uc001zbj.2	-	71	11081	c.10975G>A	c.(10975-10977)GAC>AAC	p.D3659N		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3659					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TTGACGCCGTCCATGACTGTG	0.562													45	45	---	---	---	---	PASS	T	28391416	T	T	28391416	3	4	37	1	0	0	0	0	1	0	0	0	7058	855	30	2	3621	2	HERC2	15	28391416	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	1169159	28391416	74139976	332	14870										
ACAN	176	broad.mit.edu	37	chr15	89400853	89400853	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tccactgcaagtgaactggaAgggaggggaaccattggcat	14	8	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr15:89400853A>T	uc010upo.1	+	12	5411	c.5037A>T	c.(5035-5037)GAA>GAT	p.E1679D	ACAN_uc010upp.1_Missense_Mutation_p.E1679D|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	1679					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			GTGAACTGGAAGGGAGGGGAA	0.517													7	212	---	---	---	---	PASS	T	89400853	T	T	89400853	3	4	37	1	0	0	0	0	1	0	0	0	117	69	3	5	5079	5	ACAN	15	89400853	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	61009437	89400853	13130539	333	14871										
OR4F15	390649	broad.mit.edu	37	chr15	102358988	102358988	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agaactggagttcatggtcaCtgtcaatagtggactcattt	10	7	4	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr15:102358988C>G	uc010uts.1	+	1	599	c.599C>G	c.(598-600)ACT>AGT	p.T200S		NM_001001674	NP_001001674	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F,	200	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			TTCATGGTCACTGTCAATAGT	0.438													5	263	---	---	---	---	PASS	G	102358988	G	G	102358988	3	3	37	1	0	0	0	0	1	0	0	0	11061	565	20	4	601	4	OR4F15	15	102358988	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	12958135	102358988	172404	334	14872										
CCNF	899	broad.mit.edu	37	chr16	2503520	2503520	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cgccttcctcagctctccctCggggcggagaaccaaacggt	11	16	2	1	rs142982582		TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr16:2503520C>T	uc002cqd.1	+	15	1785	c.1697C>T	c.(1696-1698)TCG>TTG	p.S566L	CCNF_uc002cqe.1_Missense_Mutation_p.S258L	NM_001761	NP_001752	P41002	CCNF_HUMAN	cyclin F	566					cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)				AGCTCTCCCTCGGGGCGGAGA	0.602													23	66	---	---	---	---	PASS	T	2503520	T	T	2503520	3	4	37	1	0	0	0	0	1	0	0	0	2922	893	31	2	1755	2	CCNF	16	2503520	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08		2503520	87851233	335	14873										
CLDN9	9080	broad.mit.edu	37	chr16	3063428	3063428	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gctgggctggctggggacccTggtgtcctgcgccctgcccc	16	16	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr16:3063428T>C	uc010uwo.1	+	1	972	c.65T>C	c.(64-66)CTG>CCG	p.L22P		NM_020982	NP_066192	O95484	CLD9_HUMAN	claudin 9	22	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CTGGGGACCCTGGTGTCCTGC	0.667													20	24	---	---	---	---	PASS	C	3063428	C	C	3063428	3	2	37	1	0	0	0	0	1	0	0	0	3492	1580	55	5	67	5	CLDN9	16	3063428	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	559908	3063428	87291325	336	14874										
USP7	7874	broad.mit.edu	37	chr16	8988925	8988925	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaaacgggattccgaacgttCcgaagacctctttgtggaaa	10	9	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr16:8988925C>T	uc002czl.2	-	28	3201	c.3002G>A	c.(3001-3003)GGA>GAA	p.G1001E	USP7_uc010uyk.1_Missense_Mutation_p.G902E|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.G902E|USP7_uc002czk.2_Missense_Mutation_p.G985E	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	1001					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TCCGAACGTTCCGAAGACCTC	0.522													89	181	---	---	---	---	PASS	T	8988925	T	T	8988925	3	4	37	1	0	0	0	0	1	0	0	0	17085	855	30	2	322	2	USP7	16	8988925	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	5925497	8988925	81365828	337	14875										
ACSM2A	123876	broad.mit.edu	37	chr16	20494469	20494469	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctgcagcagcatgtgaagtcAgtgacagccccatacaagta	10	11	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr16:20494469A>G	uc010bwe.2	+	14	1838	c.1599A>G	c.(1597-1599)TCA>TCG	p.S533S	ACSM2A_uc002dhf.3_Silent_p.S533S|ACSM2A_uc002dhg.3_Silent_p.S533S|ACSM2A_uc010vay.1_Silent_p.S454S|ACSM2A_uc002dhh.3_Silent_p.S163S	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	533					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						ATGTGAAGTCAGTGACAGCCC	0.473													76	71	---	---	---	---	PASS	G	20494469	G	G	20494469	2	3	37	1	0	0	0	0	0	0	0	1	183	175	7	5		5	ACSM2A	16	20494469	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	11505544	20494469	69860284	338	14876										
AQP8	343	broad.mit.edu	37	chr16	25228740	25228740	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cacgggctggctttggggctCgtgattgccacgctggggaa	17	10	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr16:25228740C>A	uc002doc.2	+	2	316	c.234C>A	c.(232-234)CTC>CTA	p.L78L		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	78	Extracellular (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		CTTTGGGGCTCGTGATTGCCA	0.597													82	62	---	---	---	---	PASS	A	25228740	A	A	25228740	2	1	37	1	0	0	0	0	0	0	0	1	832	871	31	2		2	AQP8	16	25228740	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	4734271	25228740	65126013	339	14877										
CNOT1	23019	broad.mit.edu	37	chr16	58585606	58585606	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aacttgaccagcaagaggagCttttgctggaacctgggcct	12	10	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr16:58585606C>A	uc002env.2	-	23	3381	c.3088G>T	c.(3088-3090)GCT>TCT	p.A1030S	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.A1025S|CNOT1_uc002enx.2_Missense_Mutation_p.A1030S|CNOT1_uc002enz.1_Missense_Mutation_p.A459S|CNOT1_uc010vik.1_Missense_Mutation_p.A26S	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1030					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		GCAAGAGGAGCTTTTGCTGGA	0.413													4	189	---	---	---	---	PASS	A	58585606	A	A	58585606	3	1	37	1	0	0	0	0	1	0	0	0	3617	797	28	3	4372	3	CNOT1	16	58585606	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	33356866	58585606	31769147	340	14878										
DPEP2	64174	broad.mit.edu	37	chr16	68025838	68025838	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	attgtccagcgagtggccacCctctacaccgatgaggcagg	12	13	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr16:68025838C>T	uc010cey.2	-	4	729	c.565G>A	c.(565-567)GGT>AGT	p.G189S	DPEP2_uc002evd.3_Missense_Mutation_p.G189S|DPEP2_uc002eve.2_Missense_Mutation_p.G189S|DPEP2_uc002evf.2_RNA|DPEP2_uc002evg.2_3'UTR	NM_022355	NP_071750	Q9H4A9	DPEP2_HUMAN	dipeptidase 2 precursor	189					hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|proteolysis	anchored to membrane|plasma membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0489)|all cancers(182;0.239)		GAGTGGCCACCCTCTACACCG	0.557													28	29	---	---	---	---	PASS	T	68025838	T	T	68025838	3	4	37	1	0	0	0	0	1	0	0	0	4714	623	22	3	923	3	DPEP2	16	68025838	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	9440232	68025838	22328915	341	14879										
BCAR1	9564	broad.mit.edu	37	chr16	75263572	75263572	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcaggaggtcgcacagcaggTtgctgtagtgggtcacctgg	17	9	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr16:75263572T>A	uc002fdv.2	-	7	2573	c.2450A>T	c.(2449-2451)AAC>ATC	p.N817I	BCAR1_uc002fdt.2_Missense_Mutation_p.N270I|BCAR1_uc002fdu.2_Missense_Mutation_p.N607I|BCAR1_uc010cgu.2_Missense_Mutation_p.N806I|BCAR1_uc010vna.1_Missense_Mutation_p.N815I|BCAR1_uc010vnb.1_Missense_Mutation_p.N863I|BCAR1_uc002fdw.2_Missense_Mutation_p.N817I|BCAR1_uc010vnc.1_Missense_Mutation_p.N669I|BCAR1_uc010vnd.1_Missense_Mutation_p.N835I|BCAR1_uc002fdx.2_Missense_Mutation_p.N835I	NM_014567	NP_055382	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	817					actin filament organization|B cell receptor signaling pathway|blood coagulation|cell adhesion|cell division|cell migration|cell proliferation|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|integrin-mediated signaling pathway|nerve growth factor receptor signaling pathway|platelet-derived growth factor receptor signaling pathway|positive regulation of cell migration|regulation of apoptosis|regulation of cell growth|T cell receptor signaling pathway	cytosol|focal adhesion|membrane fraction|ruffle	protein kinase binding|protein phosphatase binding|SH3 domain binding|signal transducer activity			central_nervous_system(5)|breast(2)|prostate(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.169)		GCACAGCAGGTTGCTGTAGTG	0.652													12	24	---	---	---	---	PASS	A	75263572	A	A	75263572	3	1	37	1	0	0	0	0	1	0	0	0	1348	1725	60	5	166	5	BCAR1	16	75263572	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	7237734	75263572	15091181	342	14880										
OSGIN1	29948	broad.mit.edu	37	chr16	83998786	83998786	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgtagtcacagccgtggagtGggggacccccgatcccagca	14	13	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr16:83998786G>T	uc002fha.2	+	7	1240	c.857G>T	c.(856-858)TGG>TTG	p.W286L	OSGIN1_uc002fhb.2_Missense_Mutation_p.W203L|OSGIN1_uc002fhc.2_Missense_Mutation_p.W203L	NM_013370	NP_037502	Q9UJX0	OSGI1_HUMAN	oxidative stress induced growth inhibitor 1	286					cell differentiation|multicellular organismal development|negative regulation of cell growth		growth factor activity				0						GCCGTGGAGTGGGGGACCCCC	0.647													41	43	---	---	---	---	PASS	T	83998786	T	T	83998786	3	4	37	1	0	0	0	0	1	0	0	0	11289	1357	47	3	883	3	OSGIN1	16	83998786	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	8735214	83998786	6355967	343	14881										
KIAA0182	23199	broad.mit.edu	37	chr16	85688444	85688444	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggtgccccccagtaccgtgaCcgaggactacctgagaagct	12	14	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr16:85688444C>A	uc002fix.2	+	5	718	c.644C>A	c.(643-645)ACC>AAC	p.T215N	KIAA0182_uc002fiw.2_Missense_Mutation_p.T111N|KIAA0182_uc002fiy.2_Missense_Mutation_p.T142N	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	215							protein binding			large_intestine(3)|ovary(1)|skin(1)	5						AGTACCGTGACCGAGGACTAC	0.687													7	23	---	---	---	---	PASS	A	85688444	A	A	85688444	3	1	37	1	0	0	0	0	1	0	0	0	8159	507	18	3	662	3	KIAA0182	16	85688444	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	1689658	85688444	4666309	344	14882										
ABR	29	broad.mit.edu	37	chr17	910418	910418	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agggtacctgcgccatgacgTcatgggaccagatgtccgca	13	12	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr17:910418T>A	uc002fsd.2	-	22	2587	c.2477A>T	c.(2476-2478)GAC>GTC	p.D826V	ABR_uc002fse.2_Missense_Mutation_p.D780V|ABR_uc010vqf.1_Missense_Mutation_p.D277V|ABR_uc010vqg.1_Missense_Mutation_p.D608V|ABR_uc002fsg.2_Missense_Mutation_p.D789V|ABR_uc002fsf.2_Missense_Mutation_p.D363V	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	826	Rho-GAP.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		CGCCATGACGTCATGGGACCA	0.657													27	22	---	---	---	---	PASS	A	910418	A	A	910418	3	1	37	1	0	0	0	0	1	0	0	0	99	1667	58	5	110	5	ABR	17	910418	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08		910418	80284792	345	14883										
ATP2A3	489	broad.mit.edu	37	chr17	3844354	3844354	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggcgaagcagcgggcggtgcGgcaggcctggcgctgctgct	20	12	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr17:3844354G>C	uc002fxb.1	-	14	2162	c.2011C>G	c.(2011-2013)CGC>GGC	p.R671G	ATP2A3_uc002fwx.1_Missense_Mutation_p.R671G|ATP2A3_uc002fwy.1_Missense_Mutation_p.R671G|ATP2A3_uc002fwz.1_Missense_Mutation_p.R671G|ATP2A3_uc002fxa.1_Missense_Mutation_p.R671G|ATP2A3_uc002fxc.1_Missense_Mutation_p.R671G|ATP2A3_uc002fxd.1_Missense_Mutation_p.R671G	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	671	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		CGGGCGGTGCGGCAGGCCTGG	0.652													48	45	---	---	---	---	PASS	C	3844354	C	C	3844354	3	2	37	1	0	0	0	0	1	0	0	0	1138	1116	39	4	1231	4	ATP2A3	17	3844354	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2933936	3844354	77350856	346	14884										
TP53	7157	broad.mit.edu	37	chr17	7577548	7577548	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gatgggcctccggttcatgcCgcccatgcaggaactgttac	12	13	1	0	rs28934575		TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr17:7577548C>A	uc002gim.2	-	7	927	c.733G>T	c.(733-735)GGC>TGC	p.G245C	TP53_uc002gig.1_Missense_Mutation_p.G245C|TP53_uc002gih.2_Missense_Mutation_p.G245C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G113C|TP53_uc010cng.1_Missense_Mutation_p.G113C|TP53_uc002gii.1_Missense_Mutation_p.G113C|TP53_uc010cnh.1_Missense_Mutation_p.G245C|TP53_uc010cni.1_Missense_Mutation_p.G245C|TP53_uc002gij.2_Missense_Mutation_p.G245C|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.G152C|TP53_uc002gio.2_Missense_Mutation_p.G113C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	245	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		G -> N (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> A (in sporadic cancers; somatic mutation).|G -> V (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> R (in sporadic cancers; somatic mutation).|G -> E (in a sporadic cancer; somatic mutation).|G -> D (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> H (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|G -> L (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G245S(274)|p.G245D(93)|p.G245V(50)|p.G245C(47)|p.G245R(10)|p.G245A(8)|p.0?(7)|p.G245G(3)|p.G245fs*2(3)|p.G245N(2)|p.G245H(1)|p.G245L(1)|p.G244fs*17(1)|p.G245F(1)|p.G245E(1)|p.C242_M246>L(1)|p.C238_M246delCNSSCMGGM(1)|p.S241_G245delSCMGG(1)|p.C242fs*98(1)|p.G245fs*22(1)|p.M243fs*18(1)|p.G245del(1)|p.G245fs*14(1)|p.G245fs*17(1)|p.G245fs*16(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)		CGGTTCATGCCGCCCATGCAG	0.577	G245S(SKLMS1_SOFT_TISSUE)|G245S(LS1034_LARGE_INTESTINE)|G245S(NUGC2_STOMACH)|G245S(PANC0403_PANCREAS)|G245S(SKMEL2_SKIN)	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)			23	35	---	---	---	---	PASS	A	7577548	A	A	7577548	3	1	37	1	0	0	0	0	1	0	0	0	16378	652	23	1	557	1	TP53	17	7577548	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	3733194	7577548	73617662	347	14885										
MYH4	4622	broad.mit.edu	37	chr17	10364342	10364342	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	taaatggccaccttttcatcAgcagtgaaacccaggatgtc	8	11	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr17:10364342A>G	uc002gmn.2	-	12	1149	c.1038T>C	c.(1036-1038)GCT>GCC	p.A346A	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	346	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CCTTTTCATCAGCAGTGAAAC	0.483													47	57	---	---	---	---	PASS	G	10364342	G	G	10364342	2	3	37	1	0	0	0	0	0	0	0	1	10037	175	7	5		5	MYH4	17	10364342	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	2786794	10364342	70830868	348	14886										
KRT12	3859	broad.mit.edu	37	chr17	39023052	39023052	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aatctatcattaagattttgCatagtttctttttctgatcc	4	7	4	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr17:39023052C>T	uc002hvk.2	-	1	411	c.387G>A	c.(385-387)ATG>ATA	p.M129I		NM_000223	NP_000214	Q99456	K1C12_HUMAN	keratin 12	129	Rod.|Coil 1A.				visual perception	intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				TAAGATTTTGCATAGTTTCTT	0.448													116	276	---	---	---	---	PASS	T	39023052	T	T	39023052	3	4	37	1	0	0	0	0	1	0	0	0	8449	710	25	3	1129	3	KRT12	17	39023052	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	28658710	39023052	42172158	349	14887										
ETV4	2118	broad.mit.edu	37	chr17	41610575	41610575	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctatgttccccgaggtacccAtggccagggtggggctggga	16	11	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr17:41610575A>G	uc002idw.2	-	7	653	c.525T>C	c.(523-525)CAT>CAC	p.H175H	ETV4_uc002idv.2_5'Flank|ETV4_uc010wih.1_Intron|ETV4_uc010czh.2_Silent_p.H174H|ETV4_uc010wii.1_Silent_p.H136H|ETV4_uc002idx.2_Silent_p.H175H|ETV4_uc010wij.1_Silent_p.H136H|ETV4_uc002idy.1_Silent_p.H136H	NM_001986	NP_001977	P43268	ETV4_HUMAN	ets variant gene 4 (E1A enhancer binding	175	Gln-rich.				positive regulation of transcription, DNA-dependent	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/ETV4(6)	bone(4)|soft_tissue(2)|ovary(1)	7		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.0798)		CGAGGTACCCATGGCCAGGGT	0.577			T	EWSR1|TMPRSS2|DDX5|KLK2|CANT1	Ewing sarcoma|Prostate carcinoma								59	126	---	---	---	---	PASS	G	41610575	G	G	41610575	2	3	37	1	0	0	0	0	0	0	0	1	5281	214	8	5		5	ETV4	17	41610575	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	2587523	41610575	39584635	350	14888										
WNT3	7473	broad.mit.edu	37	chr17	44851265	44851265	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agatgtgtactgctggcccaGggccagggacctgcaggcag	16	11	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr17:44851265G>C	uc002ikv.2	-	2	210	c.91C>G	c.(91-93)CTG>GTG	p.L31V		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	31					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			TGCTGGCCCAGGGCCAGGGAC	0.622													6	33	---	---	---	---	PASS	C	44851265	C	C	44851265	3	2	37	1	0	0	0	0	1	0	0	0	17385	991	35	4	988	4	WNT3	17	44851265	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	3240690	44851265	36343945	351	14889										
SPAG9	9043	broad.mit.edu	37	chr17	49097545	49097545	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acctttatatccactgagatCtttgtccatatccagctcag	5	12	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr17:49097545C>G	uc002itc.2	-	8	1275	c.1066G>C	c.(1066-1068)GAT>CAT	p.D356H	SPAG9_uc002itb.2_Missense_Mutation_p.D342H|SPAG9_uc002itd.2_Missense_Mutation_p.D342H|SPAG9_uc002itf.2_Missense_Mutation_p.D177H|SPAG9_uc002ita.2_Missense_Mutation_p.D199H|SPAG9_uc002ite.2_Missense_Mutation_p.D186H	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	356					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			CCACTGAGATCTTTGTCCATA	0.403													3	125	---	---	---	---	PASS	G	49097545	G	G	49097545	3	3	37	1	0	0	0	0	1	0	0	0	14985	913	32	2	2991	2	SPAG9	17	49097545	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	4246280	49097545	32097665	352	14890										
PPM1E	22843	broad.mit.edu	37	chr17	56833427	56833427	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctattcctgggcgagtttcgCggaccgtgcggcggcggcga	17	12	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr17:56833427C>A	uc002iwx.2	+	1	196	c.69C>A	c.(67-69)CGC>CGA	p.R23R	PPM1E_uc010ddd.2_5'UTR	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	23	Glu-rich.				protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			GCGAGTTTCGCGGACCGTGCG	0.418													14	20	---	---	---	---	PASS	A	56833427	A	A	56833427	2	1	37	1	0	0	0	0	0	0	0	1	12338	755	27	1		1	PPM1E	17	56833427	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	7735882	56833427	24361783	353	14891										
CSHL1	1444	broad.mit.edu	37	chr17	61987119	61987119	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cggcactgcaccatgcgcagGaatgtctcgaccttgtccat	10	14	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr17:61987119G>C	uc002jda.1	-	5	683	c.621C>G	c.(619-621)TTC>TTG	p.F207L	CSHL1_uc002jcz.1_Missense_Mutation_p.F184L|CSHL1_uc002jdb.1_Missense_Mutation_p.F113L|CSHL1_uc002jdc.1_Missense_Mutation_p.F124L|CSHL1_uc002jdd.1_Missense_Mutation_p.F145L|CSHL1_uc002jde.2_3'UTR|CSHL1_uc002jdf.2_3'UTR|CSHL1_uc002jdg.2_3'UTR|CSHL1_uc002jdh.2_3'UTR	NM_022579	NP_072101	Q14406	CSHL_HUMAN	chorionic somatomammotropin hormone-like 1	207						extracellular region	hormone activity|metal ion binding				0						CCATGCGCAGGAATGTCTCGA	0.597													43	102	---	---	---	---	PASS	C	61987119	C	C	61987119	3	2	37	1	0	0	0	0	1	0	0	0	3942	1165	41	2	51	2	CSHL1	17	61987119	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	5153692	61987119	19208091	354	14892										
FADS6	283985	broad.mit.edu	37	chr17	72888777	72888777	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccaagatggtgatgccggatGcaaagaccagggcattctcc	12	11	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr17:72888777G>A	uc002jmd.1	-	2	242	c.230C>T	c.(229-231)GCA>GTA	p.A77V		NM_178128	NP_835229	Q8N9I5	FADS6_HUMAN	fatty acid desaturase domain family, member 6	83	Helical; (Potential).				fatty acid biosynthetic process	integral to membrane	oxidoreductase activity				0	all_lung(278;0.172)|Lung NSC(278;0.207)					GATGCCGGATGCAAAGACCAG	0.602													13	22	---	---	---	---	PASS	A	72888777	A	A	72888777	3	1	37	1	0	0	0	0	1	0	0	0	5368	1319	46	3	842	3	FADS6	17	72888777	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	10901658	72888777	8306433	355	14893										
TMEM200C	645369	broad.mit.edu	37	chr18	5891767	5891767	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tactgctgttggccgtggttGggacccggtggctgctgccc	16	12	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr18:5891767G>T	uc002kmx.1	-	1	337	c.296C>A	c.(295-297)CCA>CAA	p.P99Q		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	99						integral to membrane					0						GGCCGTGGTTGGGACCCGGTG	0.692													13	26	---	---	---	---	PASS	T	5891767	T	T	5891767	3	4	37	1	0	0	0	0	1	0	0	0	16122	1348	47	3	1573	3	TMEM200C	18	5891767	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08		5891767	72185481	356	14894										
LAMA1	284217	broad.mit.edu	37	chr18	6961626	6961626	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	accccgcttctccacatcccCgccgagggcagccaggatga	10	18	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr18:6961626C>T	uc002knm.2	-	53	7679	c.7585G>A	c.(7585-7587)GGG>AGG	p.G2529R	LAMA1_uc002knl.2_5'UTR|LAMA1_uc010wzj.1_Missense_Mutation_p.G2005R	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2529	Laminin G-like 3.				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)	TCCACATCCCCGCCGAGGGCA	0.537													12	34	---	---	---	---	PASS	T	6961626	T	T	6961626	3	4	37	1	0	0	0	0	1	0	0	0	8605	652	23	1	1686	1	LAMA1	18	6961626	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	1069859	6961626	71115622	357	14895										
ZNF521	25925	broad.mit.edu	37	chr18	22806795	22806795	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggttgagctgtccactgagaGgttggaatctggagtcgtac	15	7	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr18:22806795G>A	uc002kvk.2	-	4	1334	c.1087C>T	c.(1087-1089)CTC>TTC	p.L363F	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.L363F|ZNF521_uc002kvl.2_Missense_Mutation_p.L143F	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	363					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)					TCCACTGAGAGGTTGGAATCT	0.582			T	PAX5	ALL								40	145	---	---	---	---	PASS	A	22806795	A	A	22806795	3	1	37	1	0	0	0	0	1	0	0	0	17962	1000	35	3	2868	3	ZNF521	18	22806795	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	15845169	22806795	55270453	358	14896										
ASXL3	80816	broad.mit.edu	37	chr18	31226214	31226214	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttcaaaataatacagaaagaGgagtcgtcatgcccagcaga	9	8	2	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr18:31226214G>T	uc010dmg.1	+	4	307	c.252G>T	c.(250-252)GAG>GAT	p.E84D	ASXL3_uc002kxq.2_Translation_Start_Site	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	84					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TACAGAAAGAGGAGTCGTCAT	0.383													22	38	---	---	---	---	PASS	T	31226214	T	T	31226214	3	4	37	1	0	0	0	0	1	0	0	0	1068	991	35	3	266	3	ASXL3	18	31226214	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	8419419	31226214	46851034	359	14897										
POLI	11201	broad.mit.edu	37	chr18	51807181	51807181	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	actgttggcaaaattagtttCtggtgtctttaaaccaaatc	7	7	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr18:51807181C>G	uc002lfj.3	+	5	772	c.704C>G	c.(703-705)TCT>TGT	p.S235C	POLI_uc010xds.1_Intron|POLI_uc002lfk.3_Missense_Mutation_p.S132C|POLI_uc002lfl.1_Missense_Mutation_p.S167C|POLI_uc010dpg.2_5'Flank	NM_007195	NP_009126	Q9UNA4	POLI_HUMAN	DNA polymerase iota	235	UmuC.				DNA repair|DNA replication	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding|protein binding			ovary(2)|kidney(1)	3				Colorectal(16;0.0234)|READ - Rectum adenocarcinoma(59;0.197)		AAATTAGTTTCTGGTGTCTTT	0.393								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					4	140	---	---	---	---	PASS	G	51807181	G	G	51807181	3	3	37	1	0	0	0	0	1	0	0	0	12203	913	32	2	722	2	POLI	18	51807181	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	20580967	51807181	26270067	360	14898										
ALPK2	115701	broad.mit.edu	37	chr18	56203118	56203118	+	Frame_Shift_Del	DEL	C	-	-													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgtttccgtcatttgattgaCccccttctctggcgccctgt							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr18:56203118delC	uc002lhj.3	-	5	4515	c.4301delG	c.(4300-4302)GGTfs	p.G1434fs	ALPK2_uc002lhk.1_Frame_Shift_Del_p.G765fs	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1434							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						ATTTGATTGACCCCCTTCTCT	0.502													64	50	---	---	---	---		-	56203118	-	-	56203118	7	5	37	1	0	1	0	1	0	0	0	0	545	507	18	0	2247	0	ALPK2	18	56203118	Frame_Shift_Del	DEL	C	TCGA-22-4599-01A-01D-1441-08	4395937	56203118	21874130	361	14899										
CDH20	28316	broad.mit.edu	37	chr18	59212338	59212338	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	actacagcttggctcctgagGctgctaacaaccccaacttt	7	14	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr18:59212338G>A	uc010dps.1	+	9	1621	c.1609G>A	c.(1609-1611)GCT>ACT	p.A537T	CDH20_uc002lif.2_Missense_Mutation_p.A531T	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	537	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				GGCTCCTGAGGCTGCTAACAA	0.502													51	43	---	---	---	---	PASS	A	59212338	A	A	59212338	3	1	37	1	0	0	0	0	1	0	0	0	3106	1203	42	3	1643	3	CDH20	18	59212338	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	3009220	59212338	18864910	362	14900										
CD226	10666	broad.mit.edu	37	chr18	67614156	67614156	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccttatgaccatgccatgagTagggctgaaaatggctatgg	12	8	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr18:67614156T>A	uc010dqo.2	-	2	643	c.196A>T	c.(196-198)ACT>TCT	p.T66S	CD226_uc002lkm.3_Missense_Mutation_p.T66S	NM_006566	NP_006557	Q15762	CD226_HUMAN	CD226 molecule precursor	66	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion|cell recognition|positive regulation of Fc receptor mediated stimulatory signaling pathway|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	cell surface|integral to plasma membrane|membrane raft	cell adhesion molecule binding|integrin binding|protein kinase binding|receptor activity				0		Esophageal squamous(42;0.129)				ATGCCATGAGTAGGGCTGAAA	0.453													23	29	---	---	---	---	PASS	A	67614156	A	A	67614156	3	1	37	1	0	0	0	0	1	0	0	0	2986	1638	57	5	834	5	CD226	18	67614156	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	8401818	67614156	10463092	363	14901										
ATP9B	374868	broad.mit.edu	37	chr18	77067172	77067172	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttactgaggagactgagttcGcagaggctgaccaagacttc	12	9	0	6	rs113878267	byFrequency	TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr18:77067172G>C	uc002lmx.2	+	15	1725	c.1711G>C	c.(1711-1713)GCA>CCA	p.A571P	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Missense_Mutation_p.A571P|ATP9B_uc002lmz.1_Missense_Mutation_p.A265P	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	571	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		GACTGAGTTCGCAGAGGCTGA	0.557													6	131	---	---	---	---	PASS	C	77067172	C	C	77067172	3	2	37	1	0	0	0	0	1	0	0	0	1199	1087	38	4	1769	4	ATP9B	18	77067172	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	9453016	77067172	1010076	364	14902										
GRIN3B	116444	broad.mit.edu	37	chr19	1004634	1004634	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agccttcgccgggacccacgGggcgccccggcctgggccac	15	19	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:1004634G>A	uc002lqo.1	+	3	1134	c.1134G>A	c.(1132-1134)CGG>CGA	p.R378R		NM_138690	NP_619635	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic,	378	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|protein insertion into membrane|regulation of calcium ion transport	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|ionotropic glutamate receptor activity|neurotransmitter receptor activity				0		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Glycine(DB00145)|L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	GGGACCCACGGGGCGCCCCGG	0.731													4	7	---	---	---	---	PASS	A	1004634	A	A	1004634	2	1	37	1	0	0	0	0	0	0	0	1	6784	1219	43	3		3	GRIN3B	19	1004634	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08		1004634	58124349	365	14903										
MIDN	90007	broad.mit.edu	37	chr19	1255693	1255693	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tccgcatgtgcaagcccccgGgtgagtggccaccctcgggg	15	15	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:1255693G>T	uc002lrp.2	+	7	1644	c.1129G>T	c.(1129-1131)GGG>TGG	p.G377W		NM_177401	NP_796375	Q504T8	MIDN_HUMAN	midnolin	377						nucleolus					0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAAGCCCCCGGGTGAGTGGCC	0.692													6	7	---	---	---	---	PASS	T	1255693	T	T	1255693	3	4	37	1	0	0	0	0	1	0	0	0	9579	1246	43	3	1151	3	MIDN	19	1255693	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	251059	1255693	57873290	366	14904										
NFIC	4782	broad.mit.edu	37	chr19	3382208	3382208	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcgtggccgtcaaggagctgGacctctacctggcctacttc	12	14	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:3382208G>A	uc010xhi.1	+	2	591	c.529G>A	c.(529-531)GAC>AAC	p.D177N	NFIC_uc002lxo.2_Missense_Mutation_p.D168N|NFIC_uc010xhh.1_Missense_Mutation_p.D168N|NFIC_uc002lxp.2_Missense_Mutation_p.D177N|NFIC_uc010xhj.1_Missense_Mutation_p.D177N|NFIC_uc002lxq.1_Missense_Mutation_p.D129N	NM_205843	NP_995315	P08651	NFIC_HUMAN	nuclear factor I/C isoform 2	177	CTF/NF-I.				DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.8e-05)|Epithelial(107;2.94e-108)|BRCA - Breast invasive adenocarcinoma(158;0.00154)|STAD - Stomach adenocarcinoma(1328;0.191)		CAAGGAGCTGGACCTCTACCT	0.687													42	65	---	---	---	---	PASS	A	3382208	A	A	3382208	3	1	37	1	0	0	0	0	1	0	0	0	10372	1174	41	2	542	2	NFIC	19	3382208	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2126515	3382208	55746775	367	14905										
EEF2	1938	broad.mit.edu	37	chr19	3980012	3980013	+	Frame_Shift_Del	DEL	CA	-	-													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cacgaggcccacaatgttccCacaaggcacatcctcgatgg							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:3980012_3980013delCA	uc002lze.2	-	10	1481_1482	c.1398_1399delTG	c.(1396-1401)TGTGGGfs	p.C466fs		NM_001961	NP_001952	P13639	EF2_HUMAN	eukaryotic translation elongation factor 2	466_467						cytosol|ribonucleoprotein complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|GBM - Glioblastoma multiforme(1328;0.0223)|STAD - Stomach adenocarcinoma(1328;0.18)		ACAATGTTCCCACAAGGCACAT	0.594													42	36	---	---	---	---		-	3980013	-	-	3980012	7	5	37	1	0	1	0	1	0	0	0	0	4929	594	21	0	1201	0	EEF2	19	3980012	Frame_Shift_Del	DEL	CA	TCGA-22-4599-01A-01D-1441-08	597804	3980012	55148971	368	14906										
KEAP1	9817	broad.mit.edu	37	chr19	10610247	10610247	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	catgacagcaccgttcatgaCgtggaggacacacttctcgc	10	13	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:10610247C>A	uc002moq.1	-	2	619	c.463G>T	c.(463-465)GTC>TTC	p.V155F	KEAP1_uc002mor.1_Missense_Mutation_p.V155F	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CCGTTCATGACGTGGAGGACA	0.587													30	69	---	---	---	---	PASS	A	10610247	A	A	10610247	3	1	37	1	0	0	0	0	1	0	0	0	8141	536	19	1	1431	1	KEAP1	19	10610247	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	6630235	10610247	48518736	369	14907										
CACNA1A	773	broad.mit.edu	37	chr19	13335510	13335510	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tcttgatgtccagggctgtgCggatcagagccatgagggtg	16	8	2	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:13335510C>T	uc010dze.2	-	38	5941	c.5705G>A	c.(5704-5706)CGC>CAC	p.R1902H	CACNA1A_uc010xnd.1_Missense_Mutation_p.R607H|CACNA1A_uc002mwx.3_Missense_Mutation_p.R607H|CACNA1A_uc010dzc.2_Missense_Mutation_p.R1427H|CACNA1A_uc002mwy.3_Missense_Mutation_p.R1901H|CACNA1A_uc002mwv.3_Missense_Mutation_p.R418H	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1902	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	CAGGGCTGTGCGGATCAGAGC	0.607													5	25	---	---	---	---	PASS	T	13335510	T	T	13335510	3	4	37	1	0	0	0	0	1	0	0	0	2538	768	27	1	1858	1	CACNA1A	19	13335510	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2725263	13335510	45793473	370	14908										
OR10H2	26538	broad.mit.edu	37	chr19	15839471	15839471	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtgggcttggtatgtatcatGgcactgctgggctgttttct	14	7	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:15839471G>T	uc002nbm.2	+	1	638	c.618G>T	c.(616-618)ATG>ATT	p.M206I		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	206	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					TATGTATCATGGCACTGCTGG	0.512													24	125	---	---	---	---	PASS	T	15839471	T	T	15839471	3	4	37	1	0	0	0	0	1	0	0	0	10906	1348	47	3	620	3	OR10H2	19	15839471	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2503961	15839471	43289512	371	14909										
MYO9B	4650	broad.mit.edu	37	chr19	17311601	17311601	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccgccagatcaccaacgccaAtgagctcaagtacctggacg	9	15	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:17311601A>G	uc010eak.2	+	26	4678	c.4526A>G	c.(4525-4527)AAT>AGT	p.N1509S	MYO9B_uc002nfi.2_Missense_Mutation_p.N1509S|MYO9B_uc002nfj.1_Missense_Mutation_p.N1509S|MYO9B_uc002nfl.1_Missense_Mutation_p.N58S	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	1509	Tail.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						ACCAACGCCAATGAGCTCAAG	0.572													25	126	---	---	---	---	PASS	G	17311601	G	G	17311601	3	3	37	1	0	0	0	0	1	0	0	0	10085	101	4	5	4624	5	MYO9B	19	17311601	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	1472130	17311601	41817382	372	14910										
NCAN	1463	broad.mit.edu	37	chr19	19337859	19337859	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cccctgggctgatctgaccaAtgaggtggatatgcctggag	14	10	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:19337859A>G	uc002nlz.2	+	7	1736	c.1637A>G	c.(1636-1638)AAT>AGT	p.N546S	NCAN_uc010ecc.1_Missense_Mutation_p.N110S	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	546					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GATCTGACCAATGAGGTGGAT	0.602													11	61	---	---	---	---	PASS	G	19337859	G	G	19337859	3	3	37	1	0	0	0	0	1	0	0	0	10204	101	4	5	1659	5	NCAN	19	19337859	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	2026258	19337859	39791124	373	14911										
ZNF208	7757	broad.mit.edu	37	chr19	22155187	22155187	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttgtagggtttctctccagtAtgaattttcttatgataact	7	6	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:22155187A>T	uc002nqp.2	-	5	2498	c.2349T>A	c.(2347-2349)CAT>CAA	p.H783Q	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TCTCTCCAGTATGAATTTTCT	0.373													29	66	---	---	---	---	PASS	T	22155187	T	T	22155187	3	4	37	1	0	0	0	0	1	0	0	0	17763	446	16	5	1197	5	ZNF208	19	22155187	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	2817328	22155187	36973796	374	14912										
ZNF208	7757	broad.mit.edu	37	chr19	22155416	22155416	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aggttttgccacattcttcaCatttgtagggtttctcatca	7	9	4	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:22155416C>G	uc002nqp.2	-	5	2269	c.2120G>C	c.(2119-2121)TGT>TCT	p.C707S	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				ACATTCTTCACATTTGTAGGG	0.373													21	97	---	---	---	---	PASS	G	22155416	G	G	22155416	3	3	37	1	0	0	0	0	1	0	0	0	17763	478	17	4	1426	4	ZNF208	19	22155416	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	229	22155416	36973567	375	14913										
ZNF98	148198	broad.mit.edu	37	chr19	22574340	22574340	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atttctcaccagcacaatttCttttatatttggaaatcttt	3	8	3	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:22574340C>A	uc002nqt.2	-	4	1819	c.1697G>T	c.(1696-1698)AGA>ATA	p.R566I		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	566					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				AGCACAATTTCTTTTATATTT	0.328													12	13	---	---	---	---	PASS	A	22574340	A	A	22574340	3	1	37	1	0	0	0	0	1	0	0	0	18200	913	32	2	25	2	ZNF98	19	22574340	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	418924	22574340	36554643	376	14914										
LRP3	4037	broad.mit.edu	37	chr19	33695549	33695549	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tccgcccccccgcagcttccGcaactttgacgtggaggagt	11	16	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:33695549G>T	uc010edh.2	+	4	359	c.266G>T	c.(265-267)CGC>CTC	p.R89L	LRP3_uc010xrp.1_5'UTR|LRP3_uc002nuk.3_5'UTR	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	89	Extracellular (Potential).|CUB 1.				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					CGCAGCTTCCGCAACTTTGAC	0.687													63	233	---	---	---	---	PASS	T	33695549	T	T	33695549	3	4	37	1	0	0	0	0	1	0	0	0	8958	1087	38	1	280	1	LRP3	19	33695549	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	11121209	33695549	25433434	377	14915										
CATSPERG	57828	broad.mit.edu	37	chr19	38847171	38847171	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccaggcagtggtctgtgtgcGagcagataggaggtactcat	15	8	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:38847171G>T	uc002oih.3	+	10	1270	c.1183G>T	c.(1183-1185)GAG>TAG	p.E395*	CATSPERG_uc002oig.3_Nonsense_Mutation_p.E395*|CATSPERG_uc002oif.3_Nonsense_Mutation_p.E35*|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	395	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						GTCTGTGTGCGAGCAGATAGG	0.612													4	191	---	---	---	---	PASS	T	38847171	T	T	38847171	4	4	37	1	0	0	0	0	0	1	0	0	2692	1059	37	2	1217	2	CATSPERG	19	38847171	Nonsense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	5151622	38847171	20281812	378	14916										
SUPT5H	6829	broad.mit.edu	37	chr19	39964981	39964981	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggtggcgccaagcccagcagGctaccagaatacccactccc	10	17	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:39964981G>A	uc002olo.3	+	27	2938	c.2759G>A	c.(2758-2760)GGC>GAC	p.G920D	SUPT5H_uc002olp.3_Missense_Mutation_p.G920D|SUPT5H_uc002olq.3_Missense_Mutation_p.G916D|SUPT5H_uc002oln.3_Missense_Mutation_p.G920D|SUPT5H_uc002olr.3_Missense_Mutation_p.G920D|SUPT5H_uc002ols.1_Missense_Mutation_p.G543D	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	920	10 X 8 AA approximate tandem repeats of P-[TS]-P-S-P-[QA]-[SG]-Y, motif CTR2.|CTR2-7; approximate.|Pro-rich.				cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			AGCCCAGCAGGCTACCAGAAT	0.637											OREG0025462	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	54	60	---	---	---	---	PASS	A	39964981	A	A	39964981	3	1	37	1	0	0	0	0	1	0	0	0	15396	1203	42	3	2861	3	SUPT5H	19	39964981	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1117810	39964981	19164002	379	14917										
PPP1R13L	10848	broad.mit.edu	37	chr19	45899466	45899466	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	catccaggctgctctccctcCaaggcaacagctgcaggctc	9	17	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:45899466C>T	uc002pbn.2	-	6	940	c.863G>A	c.(862-864)TGG>TAG	p.W288*	PPP1R13L_uc002pbo.2_Nonsense_Mutation_p.W288*|PPP1R13L_uc002pbp.2_Nonsense_Mutation_p.W288*	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	288	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		GCTCTCCCTCCAAGGCAACAG	0.692													11	11	---	---	---	---	PASS	T	45899466	T	T	45899466	4	4	37	1	0	0	0	0	0	1	0	0	12358	595	21	3	1655	3	PPP1R13L	19	45899466	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	5934485	45899466	13229517	380	14918										
SLC8A2	6543	broad.mit.edu	37	chr19	47935529	47935529	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtccccaatgagggcggtgaGcaggccgatgaccaggatgg	17	10	0	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:47935529G>T	uc002pgx.2	-	9	2562	c.2284C>A	c.(2284-2286)CTC>ATC	p.L762I	SLC8A2_uc010xyq.1_Missense_Mutation_p.L518I|SLC8A2_uc010xyr.1_Missense_Mutation_p.L225I|SLC8A2_uc010ele.2_Missense_Mutation_p.L762I	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	762	Helical; (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		AGGGCGGTGAGCAGGCCGATG	0.627													9	109	---	---	---	---	PASS	T	47935529	T	T	47935529	3	4	37	1	0	0	0	0	1	0	0	0	14707	971	34	3	489	3	SLC8A2	19	47935529	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2036063	47935529	11193454	381	14919										
ZNF614	80110	broad.mit.edu	37	chr19	52521331	52521331	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccatgtgccaacttggagagTacatctggtttgctagtttg	11	8	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:52521331T>C	uc002pyj.2	-	4	570	c.168A>G	c.(166-168)GTA>GTG	p.V56V	ZNF614_uc002pyi.3_Silent_p.V56V|ZNF614_uc010epj.2_5'UTR	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	56	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		ACTTGGAGAGTACATCTGGTT	0.398													80	97	---	---	---	---	PASS	C	52521331	C	C	52521331	2	2	37	1	0	0	0	0	0	0	0	1	18036	1625	57	5		5	ZNF614	19	52521331	Silent	SNP	T	TCGA-22-4599-01A-01D-1441-08	4585802	52521331	6607652	382	14920										
SUV420H2	84787	broad.mit.edu	37	chr19	55853361	55853361	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gagaacgacgacctggccacCagcctcgtcctggaccccta	10	17	0	1	rs150127456		TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:55853361C>A	uc002qkj.3	+	2	305	c.57C>A	c.(55-57)ACC>ACA	p.T19T	SUV420H2_uc010esx.1_Silent_p.T19T|SUV420H2_uc002qkk.1_Silent_p.T19T|SUV420H2_uc002qkl.2_5'UTR	NM_032701	NP_116090	Q86Y97	SV422_HUMAN	suppressor of variegation 4-20 homolog 2	19					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding				0	Breast(117;0.191)		BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		ACCTGGCCACCAGCCTCGTCC	0.662													70	100	---	---	---	---	PASS	A	55853361	A	A	55853361	2	1	37	1	0	0	0	0	0	0	0	1	15412	581	21	3		3	SUV420H2	19	55853361	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	3332030	55853361	3275622	383	14921										
NLRP11	204801	broad.mit.edu	37	chr19	56320536	56320536	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tcagagtattgttctctcttCtctttatactctctgctgcc	5	12	5	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:56320536C>T	uc010ygf.1	-	5	2151	c.1440G>A	c.(1438-1440)GAG>GAA	p.E480E	NLRP11_uc002qlz.2_Silent_p.E381E|NLRP11_uc002qmb.2_Silent_p.E381E|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	480							ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		GTTCTCTCTTCTCTTTATACT	0.398													104	156	---	---	---	---	PASS	T	56320536	T	T	56320536	2	4	37	1	0	0	0	0	0	0	0	1	10473	912	32	2		2	NLRP11	19	56320536	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	467175	56320536	2808447	384	14922										
NLRP8	126205	broad.mit.edu	37	chr19	56465914	56465914	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgatggaaaagtttttccccAtatgggacattacgacttgg	10	7	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:56465914A>G	uc002qmh.2	+	3	561	c.490A>G	c.(490-492)ATA>GTA	p.I164V	NLRP8_uc010etg.2_Missense_Mutation_p.I164V	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	164						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)		GTTTTTCCCCATATGGGACAT	0.438													92	127	---	---	---	---	PASS	G	56465914	G	G	56465914	3	3	37	1	0	0	0	0	1	0	0	0	10483	217	8	5	500	5	NLRP8	19	56465914	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	145378	56465914	2663069	385	14923										
ZNF470	388566	broad.mit.edu	37	chr19	57089467	57089467	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acaccttgttcagcaccagaGagttcatactggtgagaagc	10	10	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:57089467G>T	uc002qnl.3	+	6	2346	c.1670G>T	c.(1669-1671)AGA>ATA	p.R557I	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	557	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		CAGCACCAGAGAGTTCATACT	0.448													24	103	---	---	---	---	PASS	T	57089467	T	T	57089467	3	4	37	1	0	0	0	0	1	0	0	0	17926	942	33	2	1684	2	ZNF470	19	57089467	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	623553	57089467	2039516	386	14924										
VN1R1	57191	broad.mit.edu	37	chr19	57967343	57967343	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gggcccagcagaggagacaaCagaagtcaataaaccttggg	13	9	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr19:57967343C>A	uc002qos.1	-	1	512	c.512G>T	c.(511-513)TGT>TTT	p.C171F	ZNF547_uc002qpm.3_Intron	NM_020633	NP_065684	Q9GZP7	VN1R1_HUMAN	vomeronasal 1 receptor 1	171	Helical; Name=4; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)|Breast(46;0.222)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)|Lung(386;0.171)		GAGGAGACAACAGAAGTCAAT	0.438													74	112	---	---	---	---	PASS	A	57967343	A	A	57967343	3	1	37	1	0	0	0	0	1	0	0	0	17175	478	17	3	553	3	VN1R1	19	57967343	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	877876	57967343	1161640	387	14925										
TRIB3	57761	broad.mit.edu	37	chr20	368728	368728	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gttggagttggatgacaactTagataccgagcgtcccgtcc	12	10	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:368728T>C	uc002wdm.2	+	2	580	c.74T>C	c.(73-75)TTA>TCA	p.L25S	TRIB3_uc002wdn.2_Missense_Mutation_p.L52S	NM_021158	NP_066981	Q96RU7	TRIB3_HUMAN	tribbles 3	25					apoptosis|cellular lipid metabolic process|insulin receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fatty acid biosynthetic process|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein binding|positive regulation of ubiquitin-protein ligase activity|regulation of glucose transport|regulation of MAP kinase activity|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	ATP binding|protein kinase activity|protein kinase binding|protein kinase inhibitor activity|transcription corepressor activity|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			central_nervous_system(2)	2		all_epithelial(17;0.165)|Lung NSC(37;0.191)|Breast(17;0.231)		Colorectal(46;0.101)|COAD - Colon adenocarcinoma(99;0.112)		GATGACAACTTAGATACCGAG	0.592													57	152	---	---	---	---	PASS	C	368728	C	C	368728	3	2	37	1	0	0	0	0	1	0	0	0	16481	1764	61	5	76	5	TRIB3	20	368728	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08		368728	62656792	388	14926										
SIRPA	140885	broad.mit.edu	37	chr20	1895862	1895862	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tctgatccctgtggggcccaTccagtggttcagaggagctg	14	11	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:1895862T>C	uc002wfq.2	+	3	557	c.197T>C	c.(196-198)ATC>ACC	p.I66T	SIRPA_uc010zps.1_Missense_Mutation_p.I46T|SIRPA_uc002wfr.2_Missense_Mutation_p.I66T|SIRPA_uc002wfs.2_Missense_Mutation_p.I66T|SIRPA_uc002wft.2_Missense_Mutation_p.I66T	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	66	Ig-like V-type.|Extracellular (Potential).				blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		GTGGGGCCCATCCAGTGGTTC	0.552													25	110	---	---	---	---	PASS	C	1895862	C	C	1895862	3	2	37	1	0	0	0	0	1	0	0	0	14332	1435	50	5	203	5	SIRPA	20	1895862	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	1527134	1895862	61129658	389	14927										
MCM8	84515	broad.mit.edu	37	chr20	5965480	5965480	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggtctttatcctgttagataCtccaaatgagcatcatgatc	7	9	2	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:5965480C>A	uc002wmi.2	+	15	2164	c.1787C>A	c.(1786-1788)ACT>AAT	p.T596N	MCM8_uc002wmj.2_Missense_Mutation_p.T580N|MCM8_uc002wmk.2_Missense_Mutation_p.T636N|MCM8_uc002wml.2_Missense_Mutation_p.T596N|MCM8_uc010gbp.2_Missense_Mutation_p.T549N|MCM8_uc002wmm.2_Missense_Mutation_p.T134N	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	596	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						CTGTTAGATACTCCAAATGAG	0.388													67	188	---	---	---	---	PASS	A	5965480	A	A	5965480	3	1	37	1	0	0	0	0	1	0	0	0	9393	565	20	3	1841	3	MCM8	20	5965480	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	4069618	5965480	57060040	390	14928										
HAO1	54363	broad.mit.edu	37	chr20	7866512	7866512	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atttctggcagaacatcaatCtggggaaagaaaagttcaat	9	6	4	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:7866512C>A	uc002wmw.1	-	6	838	c.814_splice	c.e6-1	p.I272_splice	HAO1_uc010gbu.2_Splice_Site_p.I272_splice	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1						cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						GAACATCAATCTGGGGAAAGA	0.468													49	188	---	---	---	---	PASS	A	7866512	A	A	7866512	5	1	37	1	0	0	0	0	0	0	1	0	6951	927	32	2	311	2	HAO1	20	7866512	Splice_Site	SNP	C	TCGA-22-4599-01A-01D-1441-08	1901032	7866512	55159008	391	14929										
TASP1	55617	broad.mit.edu	37	chr20	13415742	13415742	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aggctcggcagaacatctgcAtgaacggaggacaatcactc	11	11	2	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:13415742A>T	uc002woi.2	-	12	1162	c.1045T>A	c.(1045-1047)TGC>AGC	p.C349S	TASP1_uc010zri.1_RNA|TASP1_uc002woh.2_Missense_Mutation_p.C326S	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	349					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						GAACATCTGCATGAACGGAGG	0.428													9	29	---	---	---	---	PASS	T	13415742	T	T	13415742	3	4	37	1	0	0	0	0	1	0	0	0	15586	217	8	5	229	5	TASP1	20	13415742	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	5549230	13415742	49609778	392	14930										
ZNF133	7692	broad.mit.edu	37	chr20	18296593	18296593	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggcctgggcttcagcgacagGtcaaacctcatctcccacca	9	16	4	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:18296593G>A	uc010gcq.2	+	5	1403	c.1098G>A	c.(1096-1098)AGG>AGA	p.R366R	ZNF133_uc010zrv.1_Silent_p.R369R|ZNF133_uc010zrw.1_Silent_p.R303R|ZNF133_uc010gcr.2_Silent_p.R366R|ZNF133_uc010zrx.1_Silent_p.R271R|ZNF133_uc002wql.3_Silent_p.R365R|ZNF133_uc010gcs.2_Silent_p.R365R|ZNF133_uc010zry.1_Silent_p.R271R|ZNF133_uc002wqm.2_Silent_p.R366R	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	366	C2H2-type 6.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2						TCAGCGACAGGTCAAACCTCA	0.587													14	50	---	---	---	---	PASS	A	18296593	A	A	18296593	2	1	37	1	0	0	0	0	0	0	0	1	17720	1252	44	3		3	ZNF133	20	18296593	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	4880851	18296593	44728927	393	14931										
ENTPD6	955	broad.mit.edu	37	chr20	25193991	25193991	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cctctggtcctcaaggccacAgctggcttacgcctgttacc	9	16	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:25193991A>T	uc002wuj.2	+	5	726	c.546A>T	c.(544-546)ACA>ACT	p.T182T	ENTPD6_uc010zsy.1_Silent_p.T182T|ENTPD6_uc010gdj.1_Silent_p.T154T|ENTPD6_uc010zsz.1_Intron|ENTPD6_uc002wum.2_Silent_p.T165T|ENTPD6_uc010zta.1_Silent_p.T182T|ENTPD6_uc002wun.2_Silent_p.T182T|ENTPD6_uc002wuk.2_Silent_p.T181T|ENTPD6_uc002wul.2_Silent_p.T181T|ENTPD6_uc010ztb.1_Silent_p.T154T|ENTPD6_uc010ztc.1_Silent_p.T154T|ENTPD6_uc002wuo.2_5'UTR|ENTPD6_uc010ztd.1_5'UTR	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	182	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						TCAAGGCCACAGCTGGCTTAC	0.567													42	127	---	---	---	---	PASS	T	25193991	T	T	25193991	2	4	37	1	0	0	0	0	0	0	0	1	5143	175	7	5		5	ENTPD6	20	25193991	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	6897398	25193991	37831529	394	14932										
FAM83C	128876	broad.mit.edu	37	chr20	33880012	33880012	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	agcaccagcggtgagctctcCcgccaccacggcagcttcag	11	17	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:33880012C>G	uc010zux.1	-	1	214	c.96G>C	c.(94-96)CGG>CGC	p.R32R	FAM83C_uc002xcb.1_5'UTR	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	32										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			GTGAGCTCTCCCGCCACCACG	0.746													2	4	---	---	---	---	PASS	G	33880012	G	G	33880012	2	3	37	1	0	0	0	0	0	0	0	1	5635	610	22	4		4	FAM83C	20	33880012	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	8686021	33880012	29145508	395	14933										
PREX1	57580	broad.mit.edu	37	chr20	47292764	47292764	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagtccaccagcttgctcccGggaagcactgacttgtaggt	11	13	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:47292764G>A	uc002xtw.1	-	14	1655	c.1632C>T	c.(1630-1632)CCC>CCT	p.P544P		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	544	DEP 2.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GCTTGCTCCCGGGAAGCACTG	0.607													24	153	---	---	---	---	PASS	A	47292764	A	A	47292764	2	1	37	1	0	0	0	0	0	0	0	1	12476	1103	39	1		1	PREX1	20	47292764	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	13412752	47292764	15732756	396	14934										
ATP9A	10079	broad.mit.edu	37	chr20	50221365	50221365	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aggggtcttaccgatgaactCgtgtaagaacaccagggagg	14	8	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:50221365C>A	uc002xwg.1	-	27	2998	c.2998G>T	c.(2998-3000)GAG>TAG	p.E1000*	ATP9A_uc010gih.1_Nonsense_Mutation_p.E864*|ATP9A_uc002xwf.1_Nonsense_Mutation_p.E172*	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	1000	Extracellular (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						CCGATGAACTCGTGTAAGAAC	0.597													8	31	---	---	---	---	PASS	A	50221365	A	A	50221365	4	1	37	1	0	0	0	0	0	1	0	0	1198	893	31	2	153	2	ATP9A	20	50221365	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	2928601	50221365	12804155	397	14935										
CASS4	57091	broad.mit.edu	37	chr20	55027180	55027180	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccttcttatggctttcttgtAcccagaggcacatttccttt	6	12	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:55027180A>T	uc002xxp.2	+	6	1173	c.948A>T	c.(946-948)GTA>GTT	p.V316V	CASS4_uc002xxq.3_Silent_p.V316V|CASS4_uc002xxr.2_Silent_p.V316V|CASS4_uc010zze.1_Silent_p.V262V|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	316					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						GCTTTCTTGTACCCAGAGGCA	0.458													18	91	---	---	---	---	PASS	T	55027180	T	T	55027180	2	4	37	1	0	0	0	0	0	0	0	1	2683	378	14	5		5	CASS4	20	55027180	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	4805815	55027180	7998340	398	14936										
CASS4	57091	broad.mit.edu	37	chr20	55027972	55027972	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aagaggtttgcctccattgtCattgccaatggaaggctcct	10	10	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:55027972C>T	uc002xxp.2	+	6	1965	c.1740C>T	c.(1738-1740)GTC>GTT	p.V580V	CASS4_uc002xxq.3_Silent_p.V580V|CASS4_uc002xxr.2_Silent_p.V580V|CASS4_uc010zze.1_Silent_p.V526V|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	580					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						CCTCCATTGTCATTGCCAATG	0.463													25	69	---	---	---	---	PASS	T	55027972	T	T	55027972	2	4	37	1	0	0	0	0	0	0	0	1	2683	813	29	2		2	CASS4	20	55027972	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	792	55027972	7997548	399	14937										
ZNF831	128611	broad.mit.edu	37	chr20	57767486	57767486	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gagggccccgggccccgtgcGctccacctggacgcccccag	14	20	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:57767486G>T	uc002yan.2	+	1	1412	c.1412G>T	c.(1411-1413)CGC>CTC	p.R471L		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	471						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGCCCCGTGCGCTCCACCTGG	0.672													8	42	---	---	---	---	PASS	T	57767486	T	T	57767486	3	4	37	1	0	0	0	0	1	0	0	0	18182	1087	38	1	1414	1	ZNF831	20	57767486	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	2739514	57767486	5258034	400	14938										
DIDO1	11083	broad.mit.edu	37	chr20	61525489	61525489	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttaagtcttctttcttaacaGaagctgacaatttttgtttt	5	6	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr20:61525489G>A	uc002ydr.1	-	12	2894	c.2630C>T	c.(2629-2631)TCT>TTT	p.S877F	DIDO1_uc002yds.1_Missense_Mutation_p.S877F|DIDO1_uc002ydt.1_Missense_Mutation_p.S877F|DIDO1_uc002ydu.1_Missense_Mutation_p.S877F	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	877					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					TTTCTTAACAGAAGCTGACAA	0.512													56	143	---	---	---	---	PASS	A	61525489	A	A	61525489	3	1	37	1	0	0	0	0	1	0	0	0	4522	942	33	2	4141	2	DIDO1	20	61525489	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	3758003	61525489	1500031	401	14939										
TPTE	7179	broad.mit.edu	37	chr21	10920131	10920131	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tttttcgctgtgggttttatCtgttcgcctttctccaaaat	7	9	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr21:10920131C>G	uc002yip.1	-	19	1491	c.1123G>C	c.(1123-1125)GAT>CAT	p.D375H	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.D357H|TPTE_uc002yir.1_Missense_Mutation_p.D337H|TPTE_uc010gkv.1_Missense_Mutation_p.D237H	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	375	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TGGGTTTTATCTGTTCGCCTT	0.383													15	140	---	---	---	---	PASS	G	10920131	G	G	10920131	3	3	37	1	0	0	0	0	1	0	0	0	16427	913	32	2	556	2	TPTE	21	10920131	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08		10920131	37209764	402	14940										
TPTE	7179	broad.mit.edu	37	chr21	10943022	10943022	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tcgaagtaaatgtgtccatcTaagaataaatttaaacgatc	6	6	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr21:10943022T>C	uc002yip.1	-	12	935	c.567_splice	c.e12-1	p.R189_splice	TPTE_uc002yis.1_Splice_Site|TPTE_uc002yiq.1_Splice_Site_p.R171_splice|TPTE_uc002yir.1_Splice_Site_p.R151_splice|TPTE_uc010gkv.1_Splice_Site_p.R51_splice	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TGTGTCCATCTAAGAATAAAT	0.244													6	69	---	---	---	---	PASS	C	10943022	C	C	10943022	5	2	37	1	0	0	0	0	0	0	1	0	16427	1536	53	5	1142	5	TPTE	21	10943022	Splice_Site	SNP	T	TCGA-22-4599-01A-01D-1441-08	22891	10943022	37186873	403	14941										
KRTAP13-4	284827	broad.mit.edu	37	chr21	31802740	31802740	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctgcgttcctctctctacagGgactgtcagaagacctgctg	10	13	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr21:31802740G>A	uc011acw.1	+	1	147	c.147G>A	c.(145-147)AGG>AGA	p.R49R		NM_181600	NP_853631	Q3LI77	KR134_HUMAN	keratin associated protein 13-4	49	1.|4 X 10 AA approximate repeats.					intermediate filament					0						CTCTCTACAGGGACTGTCAGA	0.627													19	77	---	---	---	---	PASS	A	31802740	A	A	31802740	2	1	37	1	0	0	0	0	0	0	0	1	8525	1223	43	3		3	KRTAP13-4	21	31802740	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	20859718	31802740	16327155	404	14942										
KRTAP6-1	337966	broad.mit.edu	37	chr21	31986073	31986073	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	acagagggagcgggagccatAgccatagccacagcccagtc	13	13	0	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr21:31986073A>T	uc002yop.2	-	1	151	c.151T>A	c.(151-153)TAT>AAT	p.Y51N	KRTAP20-1_uc011ade.1_5'Flank	NM_181602	NP_853633	Q3LI64	KRA61_HUMAN	keratin associated protein 6-1	51						cytosol|intermediate filament					0						CGGGAGCCATAGCCATAGCCA	0.597													16	69	---	---	---	---	PASS	T	31986073	T	T	31986073	3	4	37	1	0	0	0	0	1	0	0	0	8569	420	15	5	68	5	KRTAP6-1	21	31986073	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	183333	31986073	16143822	405	14943										
PCNT	5116	broad.mit.edu	37	chr21	47841961	47841961	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaactgctggtcctgtgaccCctgcttccatctctggaagg	10	13	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr21:47841961C>T	uc002zji.3	+	32	7209	c.7102C>T	c.(7102-7104)CCT>TCT	p.P2368S	PCNT_uc002zjj.2_Missense_Mutation_p.P2250S	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2368					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TCCTGTGACCCCTGCTTCCAT	0.612													23	77	---	---	---	---	PASS	T	47841961	T	T	47841961	3	4	37	1	0	0	0	0	1	0	0	0	11590	623	22	3	7228	3	PCNT	21	47841961	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	15855888	47841961	287934	406	14944										
PRMT2	3275	broad.mit.edu	37	chr21	48068369	48068369	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ctgaatgtgcatttcttccaGaaactccacttggagatgtt	8	9	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr21:48068369G>T	uc002zjx.2	+	6	642	c.328_splice	c.e6-1	p.K110_splice	PRMT2_uc002zjw.2_Splice_Site_p.K110_splice|PRMT2_uc002zjy.2_Splice_Site_p.K110_splice|PRMT2_uc010gqm.2_Splice_Site_p.K110_splice|PRMT2_uc011aga.1_Splice_Site_p.K110_splice|PRMT2_uc011agb.1_Splice_Site_p.K110_splice|PRMT2_uc011agc.1_Splice_Site_p.K110_splice|PRMT2_uc002zjz.1_Splice_Site	NM_206962	NP_996845	P55345	ANM2_HUMAN	HMT1 hnRNP methyltransferase-like 1						developmental cell growth|induction of apoptosis|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of androgen receptor signaling pathway	cytosol|nucleus	androgen receptor binding|estrogen receptor binding|histone-arginine N-methyltransferase activity|peroxisome proliferator activated receptor binding|progesterone receptor binding|protein homodimerization activity|retinoic acid receptor binding|signal transducer activity|thyroid hormone receptor binding|transcription coactivator activity			ovary(1)	1	Breast(49;0.247)	Lung NSC(3;0.245)		Epithelial(3;1.03e-07)|OV - Ovarian serous cystadenocarcinoma(3;4.68e-07)|all cancers(3;7.48e-07)|Colorectal(79;0.167)|Lung(125;0.203)|LUSC - Lung squamous cell carcinoma(216;0.23)|READ - Rectum adenocarcinoma(84;0.248)		ATTTCTTCCAGAAACTCCACT	0.502													16	51	---	---	---	---	PASS	T	48068369	T	T	48068369	5	4	37	1	0	0	0	0	0	0	1	0	12537	956	33	2	341	2	PRMT2	21	48068369	Splice_Site	SNP	G	TCGA-22-4599-01A-01D-1441-08	226408	48068369	61526	407	14945										
ZDHHC8	29801	broad.mit.edu	37	chr22	20132768	20132768	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gcagggaccaccctcagctgAagactcccccaagtaagctt	9	15	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr22:20132768A>T	uc002zrq.2	+	11	2249	c.2143A>T	c.(2143-2145)AAG>TAG	p.K715*	ZDHHC8_uc002zrr.1_Intron|ZDHHC8_uc010gsa.2_Nonsense_Mutation_p.K521*	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	715	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					CCCTCAGCTGAAGACTCCCCC	0.632													55	274	---	---	---	---	PASS	T	20132768	T	T	20132768	4	4	37	1	0	0	0	0	0	1	0	0	17618	247	9	5	2185	5	ZDHHC8	22	20132768	Nonsense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08		20132768	31171798	408	14946										
SLC2A11	66035	broad.mit.edu	37	chr22	24224728	24224728	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cgcgctgcctgccagggctgCcgtgcccggcgcccatggga	16	17	0	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr22:24224728C>T	uc002zyn.3	+	7	867	c.768C>T	c.(766-768)TGC>TGT	p.C256C	SLC2A11_uc002zyl.1_Silent_p.C263C|SLC2A11_uc002zym.3_Silent_p.C263C|SLC2A11_uc002zyo.3_RNA|SLC2A11_uc011ajc.1_Silent_p.C263C|SLC2A11_uc002zyp.3_Silent_p.C259C	NM_001024938	NP_001020109	Q9BYW1	GTR11_HUMAN	glucose transporter protein 10 isoform c	256	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity			ovary(1)	1						GCCAGGGCTGCCGTGCCCGGC	0.701													4	17	---	---	---	---	PASS	T	24224728	T	T	24224728	2	4	37	1	0	0	0	0	0	0	0	1	14540	747	26	3		3	SLC2A11	22	24224728	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	4091960	24224728	27079838	409	14947										
SUSD2	56241	broad.mit.edu	37	chr22	24579183	24579183	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tgatgggcggcaaggactttGtggtgcggcacttcaagatg	16	7	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr22:24579183G>T	uc002zzn.1	+	2	279	c.235G>T	c.(235-237)GTG>TTG	p.V79L		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	79	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CAAGGACTTTGTGGTGCGGCA	0.637													9	68	---	---	---	---	PASS	T	24579183	T	T	24579183	3	4	37	1	0	0	0	0	1	0	0	0	15405	1377	48	3	241	3	SUSD2	22	24579183	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	354455	24579183	26725383	410	14948										
TMEM211	255349	broad.mit.edu	37	chr22	25331384	25331384	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccttggaccttggttgtgtgGggccagctgatgatgggcag	17	8	0	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr22:25331384G>A	uc003abk.1	-	3	331	c.306C>T	c.(304-306)CCC>CCT	p.P102P		NM_001001663	NP_001001663	Q6ICI0	TM211_HUMAN	transmembrane protein 211	173						integral to membrane					0						TGGTTGTGTGGGGCCAGCTGA	0.522													18	92	---	---	---	---	PASS	A	25331384	A	A	25331384	2	1	37	1	0	0	0	0	0	0	0	1	16132	1219	43	3		3	TMEM211	22	25331384	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	752201	25331384	25973182	411	14949										
C22orf42	150297	broad.mit.edu	37	chr22	32546983	32546983	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaaaaaaaatacgtacggtgGtcgtgcttggcctcagatat	10	7	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr22:32546983G>T	uc003amd.2	-	6	530	c.489C>A	c.(487-489)GAC>GAA	p.D163E		NM_001010859	NP_001010859	Q6IC83	CV042_HUMAN	chromosome 22 open reading frame 42	163										ovary(1)|skin(1)	2						ACGTACGGTGGTCGTGCTTGG	0.249													40	63	---	---	---	---	PASS	T	32546983	T	T	32546983	3	4	37	1	0	0	0	0	1	0	0	0	2149	1252	44	3	282	3	C22orf42	22	32546983	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	7215599	32546983	18757583	412	14950										
TRIOBP	11078	broad.mit.edu	37	chr22	38122339	38122339	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccggggctcagcgcctcccgGggagaccaggcacaacttgg	15	15	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr22:38122339G>C	uc003atr.2	+	7	4047	c.3776G>C	c.(3775-3777)GGG>GCG	p.G1259A	TRIOBP_uc003atu.2_Missense_Mutation_p.G1087A|TRIOBP_uc003atq.1_Missense_Mutation_p.G1259A|TRIOBP_uc003ats.1_Missense_Mutation_p.G1087A	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1259					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GCGCCTCCCGGGGAGACCAGG	0.721													12	26	---	---	---	---	PASS	C	38122339	C	C	38122339	3	2	37	1	0	0	0	0	1	0	0	0	16550	1232	43	4	3794	4	TRIOBP	22	38122339	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	5575356	38122339	13182227	413	14951										
PLA2G6	8398	broad.mit.edu	37	chr22	38529009	38529009	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttgcagccccgtttcagcagCatgcgggccatctgcgggag	14	13	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chr22:38529009C>A	uc003auy.1	-	7	1042	c.906G>T	c.(904-906)ATG>ATT	p.M302I	PLA2G6_uc003auz.1_Missense_Mutation_p.M302I|PLA2G6_uc003ava.1_Missense_Mutation_p.M302I|PLA2G6_uc003avb.2_Missense_Mutation_p.M302I|PLA2G6_uc010gxk.1_RNA|PLA2G6_uc011ano.1_Missense_Mutation_p.M267I	NM_003560	NP_003551	O60733	PA2G6_HUMAN	phospholipase A2, group VI isoform a	302	ANK 5.				cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)	GTTTCAGCAGCATGCGGGCCA	0.662													3	3	---	---	---	---	PASS	A	38529009	A	A	38529009	3	1	37	1	0	0	0	0	1	0	0	0	12008	710	25	3	1558	3	PLA2G6	22	38529009	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	406670	38529009	12775557	414	14952										
NHS	4810	broad.mit.edu	37	chrX	17746069	17746069	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagagggtctctgctgcccgCccaaatgatttggatggtaa	12	10	1	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:17746069C>T	uc004cxx.2	+	6	4118	c.3780C>T	c.(3778-3780)CGC>CGT	p.R1260R	NHS_uc011mix.1_Silent_p.R1281R|NHS_uc004cxy.2_Silent_p.R1104R|NHS_uc004cxz.2_Silent_p.R1083R|NHS_uc004cya.2_Silent_p.R983R	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1260						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					CTGCTGCCCGCCCAAATGATT	0.478													64	65	---	---	---	---	PASS	T	17746069	T	T	17746069	2	4	37	1	0	0	0	0	0	0	0	1	10411	726	26	3		3	NHS	23	17746069	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08		17746069	137524491	415	14953										
SMS	6611	broad.mit.edu	37	chrX	21990682	21990682	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gtcaggacagtactgggcggGtgaaacggtaagtccactct	14	9	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:21990682G>A	uc004dag.2	+	4	423	c.322G>A	c.(322-324)GTG>ATG	p.V108M	SMS_uc011mjq.1_Missense_Mutation_p.V12M|SMS_uc004daf.1_Intron	NM_004595	NP_004586	P52788	SPSY_HUMAN	spermine synthase	108					methionine metabolic process|spermine biosynthetic process	cytosol	spermidine synthase activity|spermine synthase activity			ovary(1)	1					Spermine(DB00127)	TACTGGGCGGGTGAAACGGTA	0.284													14	23	---	---	---	---	PASS	A	21990682	A	A	21990682	3	1	37	1	0	0	0	0	1	0	0	0	14813	1261	44	3	336	3	SMS	23	21990682	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	4244613	21990682	133279878	416	14954										
MAGEB3	4114	broad.mit.edu	37	chrX	30254770	30254771	+	Frame_Shift_Ins	INS	-	C	C													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aacacttcatatttggggagINScccagaaagctcatcaccca							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:30254770_30254771insC	uc004dca.1	+	5	1466_1467	c.729_730insC	c.(727-732)GAGCCCfs	p.E243fs		NM_002365	NP_002356	O15480	MAGB3_HUMAN	melanoma antigen family B, 3	243_244	MAGE.										0						TATTTGGGGAGCCCAGAAAGCT	0.455													19	21	---	---	---	---		C	30254771	C	C	30254770	7	5	37	1	0	1	1	0	0	0	0	0	9177	962	34	0	731	0	MAGEB3	23	30254770	Frame_Shift_Ins	INS	-	TCGA-22-4599-01A-01D-1441-08	8264088	30254770	125015790	417	14955										
FAM47B	170062	broad.mit.edu	37	chrX	34962363	34962363	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cttcaagtgggctggagaccTaggagttaatgaagaatcca	12	7	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:34962363T>G	uc004ddi.1	+	1	1433	c.1415T>G	c.(1414-1416)CTA>CGA	p.L472R		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	472										ovary(3)|breast(1)	4						GCTGGAGACCTAGGAGTTAAT	0.448													68	79	---	---	---	---	PASS	G	34962363	G	G	34962363	3	3	37	1	0	0	0	0	1	0	0	0	5570	1522	53	5	1417	5	FAM47B	23	34962363	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	4707593	34962363	120308197	418	14956										
ERAS	3266	broad.mit.edu	37	chrX	48687603	48687603	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ggagcccttccttccaggggGaaacccaccgggctcaggca	13	15	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:48687603G>A	uc004dky.1	+	1	321	c.70G>A	c.(70-72)GAA>AAA	p.E24K		NM_181532	NP_853510	Q7Z444	RASE_HUMAN	ES cell expressed Ras precursor	24					small GTPase mediated signal transduction	intracellular|plasma membrane	GTP binding|GTPase activity			lung(4)|urinary_tract(1)	5						CTTCCAGGGGGAAACCCACCG	0.657													12	5	---	---	---	---	PASS	A	48687603	A	A	48687603	3	1	37	1	0	0	0	0	1	0	0	0	5205	1175	41	2	72	2	ERAS	23	48687603	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	13725240	48687603	106582957	419	14957										
KIAA2022	340533	broad.mit.edu	37	chrX	73962784	73962784	+	Silent	SNP	G	C	C													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atatatttgataataacaggGggctccttacgggttacttt							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:73962784G>C	uc004eby.2	-	3	2225	c.1608C>G	c.(1606-1608)CCC>CCG	p.P536P		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	536					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						TAATAACAGGGGGCTCCTTAC	0.413													61	55	---	---	---	---	PASS	C	73962784	C	C	73962784	2	2	37	1	0	0	0	0	0	0	0	1	8269	1219	43	4		4	KIAA2022	23	73962784	Silent	SNP	G	TCGA-22-4599-01A-01D-1441-08	25275181	73962784	81307776	420	14958	379	2								
KIAA2022	340533	broad.mit.edu	37	chrX	73962785	73962785	+	Missense_Mutation	SNP	G	T	T													0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tatatttgataataacagggGgctccttacgggttactttt							TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:73962785G>T	uc004eby.2	-	3	2224	c.1607C>A	c.(1606-1608)CCC>CAC	p.P536H		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	536					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						AATAACAGGGGGCTCCTTACG	0.413													61	54	---	---	---	---	PASS	T	73962785	T	T	73962785	3	4	37	1	0	0	0	0	1	0	0	0	8269	1232	43	3	2951	3	KIAA2022	23	73962785	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	1	73962785	81307775	421	14959	379	2								
KIAA2022	340533	broad.mit.edu	37	chrX	73963889	73963889	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cataatccctatttagatcaCcaactttcagactgatccct	3	13	2	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:73963889C>A	uc004eby.2	-	3	1120	c.503G>T	c.(502-504)GGT>GTT	p.G168V		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	168					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						ATTTAGATCACCAACTTTCAG	0.448													31	47	---	---	---	---	PASS	A	73963889	A	A	73963889	3	1	37	1	0	0	0	0	1	0	0	0	8269	507	18	3	4055	3	KIAA2022	23	73963889	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	1104	73963889	81306671	422	14960										
LPAR4	2846	broad.mit.edu	37	chrX	78010584	78010584	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ccgcatgaaaatgagaagtgAgactgctatttttatcacca	8	8	1	3			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:78010584A>T	uc010nme.2	+	2	623	c.218A>T	c.(217-219)GAG>GTG	p.E73V		NM_005296	NP_005287	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	73	Cytoplasmic (Potential).					integral to plasma membrane	lipid binding|purinergic nucleotide receptor activity, G-protein coupled			ovary(3)	3						ATGAGAAGTGAGACTGCTATT	0.383													134	145	---	---	---	---	PASS	T	78010584	T	T	78010584	3	4	37	1	0	0	0	0	1	0	0	0	8907	304	11	5	220	5	LPAR4	23	78010584	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	4046695	78010584	77259976	423	14961										
RPS6KA6	27330	broad.mit.edu	37	chrX	83371242	83371242	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	ttctacttaacttacatcccAgtcaatatttgcaaaaaaca	2	10	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:83371242A>C	uc004eej.1	-	12	1080	c.1003T>G	c.(1003-1005)TGG>GGG	p.W335G	RPS6KA6_uc011mqt.1_Missense_Mutation_p.W335G|RPS6KA6_uc011mqu.1_Missense_Mutation_p.W232G	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	335	AGC-kinase C-terminal.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						CTTACATCCCAGTCAATATTT	0.239													22	42	---	---	---	---	PASS	C	83371242	C	C	83371242	3	2	37	1	0	0	0	0	1	0	0	0	13655	188	7	5	1278	5	RPS6KA6	23	83371242	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	5360658	83371242	71899318	424	14962										
PCDH11X	27328	broad.mit.edu	37	chrX	91132998	91132998	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cagaaaaccttccaaggcatGgtacagtaggactaatcact	8	10	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:91132998G>A	uc004efk.1	+	2	2604	c.1759G>A	c.(1759-1761)GGT>AGT	p.G587S	PCDH11X_uc004efl.1_Missense_Mutation_p.G587S|PCDH11X_uc004efo.1_Missense_Mutation_p.G587S|PCDH11X_uc010nmv.1_Missense_Mutation_p.G587S|PCDH11X_uc004efm.1_Missense_Mutation_p.G587S|PCDH11X_uc004efn.1_Missense_Mutation_p.G587S|PCDH11X_uc004efh.1_Missense_Mutation_p.G587S|PCDH11X_uc004efj.1_Missense_Mutation_p.G587S	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	587	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TCCAAGGCATGGTACAGTAGG	0.388													75	67	---	---	---	---	PASS	A	91132998	A	A	91132998	3	1	37	1	0	0	0	0	1	0	0	0	11508	1348	47	3	1765	3	PCDH11X	23	91132998	Missense_Mutation	SNP	G	TCGA-22-4599-01A-01D-1441-08	7761756	91132998	64137562	425	14963										
PCDH11X	27328	broad.mit.edu	37	chrX	91873532	91873532	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cattgtgccacagcccaccaCcgatacaggtgtctgctctc	8	16	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:91873532C>A	uc004efk.1	+	7	4482	c.3637C>A	c.(3637-3639)CCG>ACG	p.P1213T	PCDH11X_uc004efl.1_Missense_Mutation_p.P1203T|PCDH11X_uc004efo.1_Missense_Mutation_p.P1176T|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Missense_Mutation_p.P1205T|PCDH11X_uc004efn.1_Missense_Mutation_p.P1195T	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1213	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CAGCCCACCACCGATACAGGT	0.597													89	87	---	---	---	---	PASS	A	91873532	A	A	91873532	3	1	37	1	0	0	0	0	1	0	0	0	11508	507	18	3	3785	3	PCDH11X	23	91873532	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	740534	91873532	63397028	426	14964										
NRK	203447	broad.mit.edu	37	chrX	105153423	105153423	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	cctgctatcacaagatcaccAtgtgctgttgccactacatt	6	13	2	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:105153423A>G	uc004emd.2	+	13	2093	c.1790A>G	c.(1789-1791)CAT>CGT	p.H597R	NRK_uc010npc.1_Missense_Mutation_p.H265R	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	597							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						CAAGATCACCATGTGCTGTTG	0.532										HNSCC(51;0.14)			6	29	---	---	---	---	PASS	G	105153423	G	G	105153423	3	3	37	1	0	0	0	0	1	0	0	0	10655	217	8	5	1840	5	NRK	23	105153423	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	13279891	105153423	50117137	427	14965										
GRIA3	2892	broad.mit.edu	37	chrX	122387382	122387382	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gaagtttgtgtacctctatgAcacagaacgaggtaagaaga	11	6	1	4			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:122387382A>G	uc004etq.3	+	4	790	c.497A>G	c.(496-498)GAC>GGC	p.D166G	GRIA3_uc004etr.3_Missense_Mutation_p.D166G|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.D150G	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	166	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	TACCTCTATGACACAGAACGA	0.453													69	65	---	---	---	---	PASS	G	122387382	G	G	122387382	3	3	37	1	0	0	0	0	1	0	0	0	6769	275	10	5	507	5	GRIA3	23	122387382	Missense_Mutation	SNP	A	TCGA-22-4599-01A-01D-1441-08	17233959	122387382	32883178	428	14966										
ODZ1	10178	broad.mit.edu	37	chrX	123525965	123525965	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gttcttgaaataattttcccActctggtcatattccatttt	4	9	3	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:123525965A>G	uc004euj.2	-	27	5668	c.5604T>C	c.(5602-5604)AGT>AGC	p.S1868S	ODZ1_uc011muj.1_Silent_p.S1874S|ODZ1_uc010nqy.2_Silent_p.S1875S	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1868	Extracellular (Potential).|YD 7.				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TAATTTTCCCACTCTGGTCAT	0.358													67	74	---	---	---	---	PASS	G	123525965	G	G	123525965	2	3	37	1	0	0	0	0	0	0	0	1	10834	156	6	5		5	ODZ1	23	123525965	Silent	SNP	A	TCGA-22-4599-01A-01D-1441-08	1138583	123525965	31744595	429	14967										
IGSF1	3547	broad.mit.edu	37	chrX	130408582	130408582	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tattctcttacctgctgcccCcaccagctccaggggatcac	7	17	2	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:130408582C>A	uc004ewd.2	-	18	3980	c.3742G>T	c.(3742-3744)GGG>TGG	p.G1248W	IGSF1_uc004ewe.3_Missense_Mutation_p.G1242W|IGSF1_uc004ewf.2_Missense_Mutation_p.G1228W	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	1248	Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						CCTGCTGCCCCCACCAGCTCC	0.547													88	101	---	---	---	---	PASS	A	130408582	A	A	130408582	3	1	37	1	0	0	0	0	1	0	0	0	7596	623	22	3	280	3	IGSF1	23	130408582	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	6882617	130408582	24861978	430	14968										
ZIC3	7547	broad.mit.edu	37	chrX	136649618	136649618	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	gagctgtcgtgcaagtggatCgacgaggctcagctgagccg	16	10	1	1			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:136649618C>A	uc004fak.2	+	1	1273	c.768C>A	c.(766-768)ATC>ATA	p.I256I		NM_003413	NP_003404	O60481	ZIC3_HUMAN	zinc finger protein of the cerebellum 3	256	C2H2-type 1; atypical.				cell differentiation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GCAAGTGGATCGACGAGGCTC	0.617													29	49	---	---	---	---	PASS	A	136649618	A	A	136649618	2	1	37	1	0	0	0	0	0	0	0	1	17677	874	31	2		2	ZIC3	23	136649618	Silent	SNP	C	TCGA-22-4599-01A-01D-1441-08	6241036	136649618	18620942	431	14969										
F9	2158	broad.mit.edu	37	chrX	138630563	138630563	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	atggcagatgcgagcagtttTgtaaaaatagtgctgataac	11	5	0	2	rs104894807		TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:138630563T>A	uc004fas.1	+	5	462	c.433T>A	c.(433-435)TGT>AGT	p.C145S	F9_uc004fat.1_Missense_Mutation_p.C107S	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	145	EGF-like 2.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	CGAGCAGTTTTGTAAAAATAG	0.373													57	80	---	---	---	---	PASS	A	138630563	A	A	138630563	3	1	37	1	0	0	0	0	1	0	0	0	5351	1812	63	5	451	5	F9	23	138630563	Missense_Mutation	SNP	T	TCGA-22-4599-01A-01D-1441-08	1980945	138630563	16639997	432	14970										
MCF2	4168	broad.mit.edu	37	chrX	138711968	138711968	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	aaggactgtaacatctgagcCatttctttcactgtgagggc	10	9	3	2			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:138711968C>A	uc004fau.2	-	4	618	c.324G>T	c.(322-324)ATG>ATT	p.M108I	MCF2_uc004fav.2_Missense_Mutation_p.M108I|MCF2_uc011mwl.1_Missense_Mutation_p.M69I|MCF2_uc010nsh.1_Missense_Mutation_p.M108I|MCF2_uc011mwm.1_Missense_Mutation_p.M69I|MCF2_uc011mwn.1_Missense_Mutation_p.M253I|MCF2_uc004faw.2_Missense_Mutation_p.M168I|MCF2_uc011mwo.1_Missense_Mutation_p.M168I	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	108					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					ACATCTGAGCCATTTCTTTCA	0.403													160	164	---	---	---	---	PASS	A	138711968	A	A	138711968	3	1	37	1	0	0	0	0	1	0	0	0	9378	594	21	3	2621	3	MCF2	23	138711968	Missense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	81405	138711968	16558592	433	14971										
SOX3	6658	broad.mit.edu	37	chrX	139586695	139586695	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.039906103286385	17	0.913866370797927	0.786654984381292	1.04446628178356	0.645111526983966	1	1	0	tcggcgtcggtcagcagtttCcagtcggcgcccaagcgctt	13	14	1	0			TCGA-22-4599-01A-01D-1441-08	TCGA-22-4599-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	08732b51-8ec8-4888-b0c8-a0cb83181cb9	12096a0b-5d7b-455a-84d5-cd136811d54f	g.chrX:139586695C>T	uc004fbd.1	-	1	531	c.531G>A	c.(529-531)TGG>TGA	p.W177*		NM_005634	NP_005625	P41225	SOX3_HUMAN	SRY (sex determining region Y)-box 3	177	HMG box.				face development|hypothalamus development|negative regulation of neuron differentiation|pituitary gland development|regulation of transcription, DNA-dependent|sensory organ development|sex determination|transcription, DNA-dependent	nucleus	DNA binding			pancreas(1)	1	Acute lymphoblastic leukemia(192;7.65e-05)					TCAGCAGTTTCCAGTCGGCGC	0.602													5	124	---	---	---	---	PASS	T	139586695	T	T	139586695	4	4	37	1	0	0	0	0	0	1	0	0	14951	856	30	2	813	2	SOX3	23	139586695	Nonsense_Mutation	SNP	C	TCGA-22-4599-01A-01D-1441-08	874727	139586695	15683865	434	14972										
PRAMEF1	65121	broad.mit.edu	37	chr1	12853573	12853573	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gcccttcacctgcctccctcTgggatcactgatgaagacgc	9	16	3	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:12853573T>A	uc001auj.1	+	2	300	c.197T>A	c.(196-198)CTG>CAG	p.L66Q		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	66											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TGCCTCCCTCTGGGATCACTG	0.542													11	209	---	---	---	---	PASS	A	12853573	A	A	12853573	3	1	38	1	0	0	0	0	1	0	0	0	12425	1580	55	5	199	5	PRAMEF1	1	12853573	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08		12853573	236397048	1	14973										
UROD	7389	broad.mit.edu	37	chr1	45479354	45479354	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gcaggacctagaacgcctacGggatccagaagtggtagcct	13	11	0	2	rs111369324	byFrequency	TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:45479354G>A	uc001cna.1	+	5	473	c.365G>A	c.(364-366)CGG>CAG	p.R122Q	HECTD3_uc009vxk.2_5'Flank|HECTD3_uc010olh.1_5'Flank|UROD_uc010oli.1_3'UTR|UROD_uc001cnb.1_Missense_Mutation_p.R87Q|UROD_uc010olj.1_Missense_Mutation_p.R66Q|UROD_uc001cnc.1_Missense_Mutation_p.R27Q	NM_000374	NP_000365	P06132	DCUP_HUMAN	uroporphyrinogen decarboxylase	122						cytosol|microtubule cytoskeleton|nucleus	uroporphyrinogen decarboxylase activity				0	Acute lymphoblastic leukemia(166;0.155)					GAACGCCTACGGGATCCAGAA	0.577									Porphyria_Cutanea_Tarda_Type_II				7	83	---	---	---	---	PASS	A	45479354	A	A	45479354	3	1	38	1	0	0	0	0	1	0	0	0	17026	1116	39	1	383	1	UROD	1	45479354	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	32625781	45479354	203771267	2	14974										
UBE2U	148581	broad.mit.edu	37	chr1	64669744	64669744	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gctgcctatcatgcacggcaGagcttacctcttgctgcaca	9	14	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:64669744G>A	uc001dbn.1	+	1	255	c.11G>A	c.(10-12)AGA>AAA	p.R4K		NM_152489	NP_689702	Q5VVX9	UBE2U_HUMAN	ubiquitin-conjugating enzyme E2U (putative)	4							ATP binding|protein binding|ubiquitin-protein ligase activity				0						ATGCACGGCAGAGCTTACCTC	0.473													43	63	---	---	---	---	PASS	A	64669744	A	A	64669744	3	1	38	1	0	0	0	0	1	0	0	0	16871	942	33	2	13	2	UBE2U	1	64669744	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	19190390	64669744	184580877	3	14975										
LRRC7	57554	broad.mit.edu	37	chr1	70587550	70587550	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	acacagtagacctagttattCaacgtgagcttactgtctaa	7	9	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:70587550C>G	uc001dep.2	+	25	4624	c.4594C>G	c.(4594-4596)CAA>GAA	p.Q1532E	LRRC7_uc009wbg.2_Missense_Mutation_p.Q816E|LRRC7_uc001deq.2_Missense_Mutation_p.Q726E	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1532	PDZ.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CCTAGTTATTCAACGTGAGCT	0.313													25	164	---	---	---	---	PASS	G	70587550	G	G	70587550	3	3	38	1	0	0	0	0	1	0	0	0	9020	827	29	2	4692	2	LRRC7	1	70587550	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	5917806	70587550	178663071	4	14976										
MAGI3	260425	broad.mit.edu	37	chr1	114184638	114184638	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	caatcagtatgtaaacctcaCtttatgtcgtggttatccac	6	10	2	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:114184638C>T	uc001edk.2	+	10	1647	c.1466C>T	c.(1465-1467)ACT>ATT	p.T489I	MAGI3_uc001edh.3_Missense_Mutation_p.T514I|MAGI3_uc001edi.3_Missense_Mutation_p.T489I|MAGI3_uc010owm.1_Missense_Mutation_p.T514I|MAGI3_uc001edj.2_Missense_Mutation_p.T210I	NM_001142782	NP_001136254	Q5TCQ9	MAGI3_HUMAN	membrane-associated guanylate kinase-related  3	514	Interaction with PTEN.|PDZ 2.				apoptosis|interspecies interaction between organisms|intracellular signal transduction	nucleus|tight junction	ATP binding|guanylate kinase activity|protein binding			lung(3)|ovary(2)|central_nervous_system(1)	6	Lung SC(450;0.184)	all_cancers(81;2.34e-09)|all_epithelial(167;7.41e-09)|all_lung(203;7.13e-06)|Lung NSC(69;1.2e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTAAACCTCACTTTATGTCGT	0.438													7	159	---	---	---	---	PASS	T	114184638	T	T	114184638	3	4	38	1	0	0	0	0	1	0	0	0	9192	565	20	3	1504	3	MAGI3	1	114184638	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	43597088	114184638	135065983	5	14977										
ANKRD34A	284615	broad.mit.edu	37	chr1	145473733	145473733	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	acactgctggacgcctgcaaGgccaagggtacggaggtcat	14	11	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:145473733G>C	uc001enq.1	+	4	1698	c.405G>C	c.(403-405)AAG>AAC	p.K135N	NBPF10_uc001emp.3_Intron	NM_001039888	NP_001034977	Q69YU3	AN34A_HUMAN	ankyrin repeat domain 34	135	ANK 4.										0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					ACGCCTGCAAGGCCAAGGGTA	0.647													53	34	---	---	---	---	PASS	C	145473733	C	C	145473733	3	2	38	1	0	0	0	0	1	0	0	0	662	991	35	4	407	4	ANKRD34A	1	145473733	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	31289095	145473733	103776888	6	14978										
FAM63A	55793	broad.mit.edu	37	chr1	150970185	150970185	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cttgctgaagctgctgggccAgctccaagtcggtaagcccc	12	14	0	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:150970185A>T	uc001ewf.2	-	10	2928	c.1244T>A	c.(1243-1245)CTG>CAG	p.L415Q	FAM63A_uc001ewc.2_Missense_Mutation_p.L273Q|FAM63A_uc010pcm.1_Missense_Mutation_p.L320Q|FAM63A_uc001ewd.2_Missense_Mutation_p.L273Q|FAM63A_uc001ewe.2_Missense_Mutation_p.L249Q|FAM63A_uc010pcn.1_Missense_Mutation_p.L463Q|FAM63A_uc001ewg.2_Missense_Mutation_p.L415Q	NM_018379	NP_001156731	Q8N5J2	FA63A_HUMAN	hypothetical protein LOC55793 isoform 1	415	Gln-rich.						protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CTGCTGGGCCAGCTCCAAGTC	0.632													32	32	---	---	---	---	PASS	T	150970185	T	T	150970185	3	4	38	1	0	0	0	0	1	0	0	0	5596	188	7	5	173	5	FAM63A	1	150970185	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	5496452	150970185	98280436	7	14979										
GBA	2629	broad.mit.edu	37	chr1	155206051	155206051	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cttaccgtgatgatgctgtgGctgtactgcatccctcgatc	10	12	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:155206051G>C	uc001fjh.2	-	8	1359	c.1209C>G	c.(1207-1209)AGC>AGG	p.S403R	RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Missense_Mutation_p.S290R|GBA_uc010pfx.1_Missense_Mutation_p.S354R|GBA_uc001fji.2_Missense_Mutation_p.S403R|GBA_uc001fjj.2_Missense_Mutation_p.S403R|GBA_uc001fjk.2_Missense_Mutation_p.S403R|GBA_uc001fjl.2_Missense_Mutation_p.S403R|GBA_uc010pfy.1_Missense_Mutation_p.S316R	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor	403			S -> T (in GD; mild).		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)	TGATGCTGTGGCTGTACTGCA	0.562									Gaucher_disease_type_I				36	48	---	---	---	---	PASS	C	155206051	C	C	155206051	3	2	38	1	0	0	0	0	1	0	0	0	6266	1194	42	4	417	4	GBA	1	155206051	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	4235866	155206051	94044570	8	14980										
NTRK1	4914	broad.mit.edu	37	chr1	156845973	156845973	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agtgccacaacctcctgcctGagcaggacaagatgctggtg	12	12	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:156845973G>T	uc001fqh.1	+	13	1659	c.1603G>T	c.(1603-1605)GAG>TAG	p.E535*	NTRK1_uc001fqf.1_Nonsense_Mutation_p.E499*|NTRK1_uc009wsi.1_Nonsense_Mutation_p.E234*|NTRK1_uc001fqi.1_Nonsense_Mutation_p.E529*|NTRK1_uc009wsk.1_Nonsense_Mutation_p.E532*	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	535	Cytoplasmic (Potential).|Protein kinase.				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	CCTCCTGCCTGAGCAGGACAA	0.627			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			40	69	---	---	---	---	PASS	T	156845973	T	T	156845973	4	4	38	1	0	0	0	0	0	1	0	0	10706	1291	45	2	1783	2	NTRK1	1	156845973	Nonsense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	1639922	156845973	92404648	9	14981										
FCRL4	83417	broad.mit.edu	37	chr1	157555965	157555965	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gattaaaactcacctctcacAgtgacattcagcaccatgct	5	13	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:157555965A>C	uc001fqw.2	-	6	1264	c.1128T>G	c.(1126-1128)ACT>ACG	p.T376T	FCRL4_uc010phy.1_RNA	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	376	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				CACCTCTCACAGTGACATTCA	0.383													91	155	---	---	---	---	PASS	C	157555965	C	C	157555965	2	2	38	1	0	0	0	0	0	0	0	1	5797	175	7	5		5	FCRL4	1	157555965	Silent	SNP	A	TCGA-22-4601-01A-01D-1441-08	709992	157555965	91694656	10	14982										
DARC	2532	broad.mit.edu	37	chr1	159175595	159175595	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttggccccagggctaggtagCactcgcagctctgccctgtg	13	14	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:159175595C>A	uc001fto.2	+	2	606	c.366C>A	c.(364-366)AGC>AGA	p.S122R	DARC_uc001ftp.3_Missense_Mutation_p.S124R	NM_002036	NP_002027	Q16570	DUFFY_HUMAN	Duffy blood group antigen isoform b	122	Extracellular (Potential).				defense response	integral to membrane|plasma membrane	C-C chemokine binding|chemokine receptor activity			ovary(1)|lung(1)	2	all_hematologic(112;0.0429)					GGCTAGGTAGCACTCGCAGCT	0.647													55	85	---	---	---	---	PASS	A	159175595	A	A	159175595	3	1	38	1	0	0	0	0	1	0	0	0	4240	709	25	3	399	3	DARC	1	159175595	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	1619630	159175595	90075026	11	14983										
NR1I3	9970	broad.mit.edu	37	chr1	161201164	161201164	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gcgaagaggcccgcagaggaAgttttgtgtttggagacaga	16	6	0	4			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:161201164A>G	uc001fzx.2	-	6	852	c.649T>C	c.(649-651)TTC>CTC	p.F217L	TOMM40L_uc009wuf.1_Intron|NR1I3_uc001fzf.2_Missense_Mutation_p.F217L|NR1I3_uc001fzg.2_Missense_Mutation_p.F188L|NR1I3_uc001fzh.2_Missense_Mutation_p.F188L|NR1I3_uc001fzi.2_Missense_Mutation_p.F188L|NR1I3_uc001fzj.2_Missense_Mutation_p.F188L|NR1I3_uc001fzk.2_Missense_Mutation_p.F188L|NR1I3_uc001fzl.2_Missense_Mutation_p.F188L|NR1I3_uc001fzm.2_Missense_Mutation_p.F142L|NR1I3_uc001fzn.2_Missense_Mutation_p.F50L|NR1I3_uc009wug.2_Missense_Mutation_p.F50L|NR1I3_uc001fzp.2_Missense_Mutation_p.F217L|NR1I3_uc001fzo.2_Missense_Mutation_p.F50L|NR1I3_uc001fzq.2_Silent_p.T113T|NR1I3_uc001fzr.2_Silent_p.T113T|NR1I3_uc001fzs.2_Missense_Mutation_p.F50L|NR1I3_uc001fzt.2_Missense_Mutation_p.F50L|NR1I3_uc001fzu.2_Silent_p.T84T|NR1I3_uc001fzv.2_Silent_p.T84T|NR1I3_uc001fzw.2_Missense_Mutation_p.F217L|NR1I3_uc001fzy.2_Missense_Mutation_p.F217L|NR1I3_uc001fzz.2_Missense_Mutation_p.F217L|NR1I3_uc001gaa.2_Missense_Mutation_p.F217L|NR1I3_uc001gab.2_Missense_Mutation_p.F217L|NR1I3_uc001gac.2_Missense_Mutation_p.F188L|NR1I3_uc010pkm.1_Missense_Mutation_p.F188L|NR1I3_uc010pkn.1_Missense_Mutation_p.F217L	NM_001077480	NP_001070948	Q14994	NR1I3_HUMAN	constitutive androstane receptor isoform 2	217					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	androgen receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(1)|skin(1)	2	all_cancers(52;1.86e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			CCGCAGAGGAAGTTTTGTGTT	0.507													78	141	---	---	---	---	PASS	G	161201164	G	G	161201164	3	3	38	1	0	0	0	0	1	0	0	0	10621	72	3	5	535	5	NR1I3	1	161201164	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	2025569	161201164	88049457	12	14984										
ATF6	22926	broad.mit.edu	37	chr1	161928428	161928428	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ccacgttgtcagcaccatccCtgagtcattacaatagcacc	6	15	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:161928428C>A	uc001gbr.2	+	16	2064	c.1997C>A	c.(1996-1998)CCT>CAT	p.P666H	ATF6_uc001gbs.2_RNA	NM_007348	NP_031374	P18850	ATF6A_HUMAN	activating transcription factor 6	666	Lumenal (Potential).				positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response|protein folding	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|skin(1)	3	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.00953)			AGCACCATCCCTGAGTCATTA	0.547													7	215	---	---	---	---	PASS	A	161928428	A	A	161928428	3	1	38	1	0	0	0	0	1	0	0	0	1084	681	24	3	2059	3	ATF6	1	161928428	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	727264	161928428	87322193	13	14985										
RFWD2	64326	broad.mit.edu	37	chr1	175956108	175956108	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tagtgccctccagcacacagCactaacaaattcatttgtat	5	12	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:175956108C>G	uc001gku.1	-	18	2360	c.2104G>C	c.(2104-2106)GCT>CCT	p.A702P	RFWD2_uc001gkv.1_Missense_Mutation_p.A678P|RFWD2_uc001gkw.1_Missense_Mutation_p.A462P|RFWD2_uc009wwv.2_Missense_Mutation_p.A501P|RFWD2_uc001gkt.1_Missense_Mutation_p.A541P	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	702	WD 7.				DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						CAGCACACAGCACTAACAAAT	0.358													14	209	---	---	---	---	PASS	G	175956108	G	G	175956108	3	3	38	1	0	0	0	0	1	0	0	0	13260	710	25	4	103	4	RFWD2	1	175956108	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	14027680	175956108	73294513	14	14986										
XPR1	9213	broad.mit.edu	37	chr1	180832869	180832869	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggtcactcggacactatggtGttcttttacctgtggattgt	11	8	2	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:180832869G>T	uc001goi.2	+	12	1719	c.1527G>T	c.(1525-1527)GTG>GTT	p.V509V	XPR1_uc009wxn.2_Silent_p.V444V	NM_004736	NP_004727	Q9UBH6	XPR1_HUMAN	xenotropic and polytropic retrovirus receptor	509	EXS.|Helical; (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0						ACACTATGGTGTTCTTTTACC	0.373													120	237	---	---	---	---	PASS	T	180832869	T	T	180832869	2	4	38	1	0	0	0	0	0	0	0	1	17448	1364	48	3		3	XPR1	1	180832869	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	4876761	180832869	68417752	15	14987										
ZP4	57829	broad.mit.edu	37	chr1	238050087	238050087	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttacctgaagatgctgtcacGagtgacagagccacggctcc	11	12	1	4			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:238050087G>C	uc001hym.2	-	6	823	c.823C>G	c.(823-825)CGT>GGT	p.R275G	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	275	ZP.|Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			ATGCTGTCACGAGTGACAGAG	0.488													95	44	---	---	---	---	PASS	C	238050087	C	C	238050087	3	2	38	1	0	0	0	0	1	0	0	0	18215	1058	37	2	827	2	ZP4	1	238050087	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	57217218	238050087	11200534	16	14988										
OR13G1	441933	broad.mit.edu	37	chr1	247836257	247836257	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	aaagccacaagatagacaatGagaaaaaagaggaagataat	9	4	0	5			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr1:247836257G>T	uc001idi.1	-	1	87	c.87C>A	c.(85-87)CTC>CTA	p.L29L		NM_001005487	NP_001005487	Q8NGZ3	O13G1_HUMAN	olfactory receptor, family 13, subfamily G,	29	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			GATAGACAATGAGAAAAAAGA	0.423													65	20	---	---	---	---	PASS	T	247836257	T	T	247836257	2	4	38	1	0	0	0	0	0	0	0	1	10942	1277	45	2		2	OR13G1	1	247836257	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	9786170	247836257	1414364	17	14989										
RSAD2	91543	broad.mit.edu	37	chr2	7027089	7027089	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agtatttggacattctcgctAtctcctgtgacagctttgac	8	10	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:7027089A>G	uc002qyp.1	+	3	668	c.532A>G	c.(532-534)ATC>GTC	p.I178V		NM_080657	NP_542388	Q8WXG1	RSAD2_HUMAN	radical S-adenosyl methionine domain containing	178					defense response to virus	endoplasmic reticulum membrane|Golgi apparatus	catalytic activity|iron-sulfur cluster binding|metal ion binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			OV - Ovarian serous cystadenocarcinoma(76;0.191)		CATTCTCGCTATCTCCTGTGA	0.443													33	19	---	---	---	---	PASS	G	7027089	G	G	7027089	3	3	38	1	0	0	0	0	1	0	0	0	13695	449	16	5	542	5	RSAD2	2	7027089	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08		7027089	236172284	18	14990										
ADCY3	109	broad.mit.edu	37	chr2	25095475	25095475	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tcttccaggttcatcttcacCtccagcgactggcgggcctc	9	16	4	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:25095475C>T	uc002rfs.3	-	2	988	c.789G>A	c.(787-789)GAG>GAA	p.E263E	ADCY3_uc010ykm.1_Silent_p.E263E	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	263					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					TCATCTTCACCTCCAGCGACT	0.632													84	127	---	---	---	---	PASS	T	25095475	T	T	25095475	2	4	38	1	0	0	0	0	0	0	0	1	295	680	24	3		3	ADCY3	2	25095475	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	18068386	25095475	218103898	19	14991										
GPN1	11321	broad.mit.edu	37	chr2	27854712	27854712	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggtgtctagatatggacttgGacccaatggcggcatagtga	14	7	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:27854712G>C	uc010ymc.1	+	4	320	c.299G>C	c.(298-300)GGA>GCA	p.G100A	ZNF512_uc010yly.1_RNA|CCDC121_uc010eze.2_5'Flank|CCDC121_uc002rld.2_5'Flank|CCDC121_uc002rle.2_5'Flank|GPN1_uc010ezf.2_Missense_Mutation_p.G74A|GPN1_uc010yma.1_Missense_Mutation_p.G7A|GPN1_uc010ymb.1_Intron|GPN1_uc010ymd.1_Intron|GPN1_uc010yme.1_Missense_Mutation_p.G100A|GPN1_uc010ezg.1_Intron	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	86						cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						TATGGACTTGGACCCAATGGC	0.368													6	287	---	---	---	---	PASS	C	27854712	C	C	27854712	3	2	38	1	0	0	0	0	1	0	0	0	6617	1174	41	2	396	2	GPN1	2	27854712	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	2759237	27854712	215344661	20	14992			1	16		3	3	791	G		1.788821e-05
GPN1	11321	broad.mit.edu	37	chr2	27854762	27854762	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	atctctttgctaccagatttGatcaggtatatctgtcttta	6	8	4	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:27854762G>C	uc010ymc.1	+	4	370	c.349G>C	c.(349-351)GAT>CAT	p.D117H	ZNF512_uc010yly.1_RNA|CCDC121_uc002rle.2_5'Flank|GPN1_uc010ezf.2_Missense_Mutation_p.D91H|GPN1_uc010yma.1_Missense_Mutation_p.D24H|GPN1_uc010ymb.1_Intron|GPN1_uc010ymd.1_Intron|GPN1_uc010yme.1_Missense_Mutation_p.D117H|GPN1_uc010ezg.1_Intron	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	103						cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						TACCAGATTTGATCAGGTATA	0.378													5	304	---	---	---	---	PASS	C	27854762	C	C	27854762	3	2	38	1	0	0	0	0	1	0	0	0	6617	1290	45	2	446	2	GPN1	2	27854762	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	50	27854762	215344611	21	14993			1	16		3	3	791	G		1.788821e-05
GPN1	11321	broad.mit.edu	37	chr2	27855502	27855502	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gacatctttttcttttaggtGatgaaatttattgagaaggc	9	4	2	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:27855502G>A	uc010ymc.1	+	5	378	c.357G>A	c.(355-357)GTG>GTA	p.V119V	ZNF512_uc010yly.1_RNA|GPN1_uc010ezf.2_Silent_p.V93V|GPN1_uc010yma.1_Silent_p.V26V|GPN1_uc010ymb.1_Silent_p.V10V|GPN1_uc010ymd.1_5'UTR|GPN1_uc010yme.1_Silent_p.V119V|GPN1_uc010ezg.1_5'UTR	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	105						cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						TCTTTTAGGTGATGAAATTTA	0.413													8	258	---	---	---	---	PASS	A	27855502	A	A	27855502	2	1	38	1	0	0	0	0	0	0	0	1	6617	1277	45	2		2	GPN1	2	27855502	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	740	27855502	215343871	22	14994			1	16		3	3	791	G		1.788821e-05
VRK2	7444	broad.mit.edu	37	chr2	58313518	58313518	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	aacttgattatttaggaattCctctgttttatggatctggt	8	5	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:58313518C>G	uc002rzo.2	+	8	1046	c.301C>G	c.(301-303)CCT>GCT	p.P101A	VRK2_uc010fcb.2_Missense_Mutation_p.P101A|VRK2_uc002rzs.2_Missense_Mutation_p.P101A|VRK2_uc002rzr.2_Missense_Mutation_p.P101A|VRK2_uc010fcc.2_5'UTR|VRK2_uc002rzv.2_Missense_Mutation_p.P101A|VRK2_uc010fcd.2_Missense_Mutation_p.P78A|VRK2_uc002rzp.2_Missense_Mutation_p.P101A|VRK2_uc010ypg.1_Missense_Mutation_p.P101A|VRK2_uc002rzq.2_Missense_Mutation_p.P101A|VRK2_uc002rzu.2_Missense_Mutation_p.P101A|VRK2_uc002rzt.2_5'UTR|VRK2_uc010yph.1_5'UTR	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	101	Protein kinase.					integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						TTTAGGAATTCCTCTGTTTTA	0.279													5	351	---	---	---	---	PASS	G	58313518	G	G	58313518	3	3	38	1	0	0	0	0	1	0	0	0	17217	855	30	2	315	2	VRK2	2	58313518	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	30458016	58313518	184885855	23	14995										
CTNNA2	1496	broad.mit.edu	37	chr2	80646650	80646650	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tttgctagttctcattgaggCtgcaaagagcggaaatgaaa	11	6	1	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:80646650C>A	uc010ysh.1	+	8	1219	c.1214C>A	c.(1213-1215)GCT>GAT	p.A405D	CTNNA2_uc010yse.1_Missense_Mutation_p.A405D|CTNNA2_uc010ysf.1_Missense_Mutation_p.A405D|CTNNA2_uc010ysg.1_Missense_Mutation_p.A405D|CTNNA2_uc010ysi.1_Missense_Mutation_p.A37D	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	405					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						CTCATTGAGGCTGCAAAGAGC	0.433													62	32	---	---	---	---	PASS	A	80646650	A	A	80646650	3	1	38	1	0	0	0	0	1	0	0	0	4013	797	28	3	1036	3	CTNNA2	2	80646650	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	22333132	80646650	162552723	24	14996										
SNRNP200	23020	broad.mit.edu	37	chr2	96958793	96958793	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cttgatagcttttttctctgTgatacccacatatgtctgtt	6	9	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:96958793T>G	uc002svu.2	-	16	2163	c.2077A>C	c.(2077-2079)ACA>CCA	p.T693P		NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	693	Helicase C-terminal 1.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						TTTTTCTCTGTGATACCCACA	0.403													45	59	---	---	---	---	PASS	G	96958793	G	G	96958793	3	3	38	1	0	0	0	0	1	0	0	0	14852	1696	59	5	4453	5	SNRNP200	2	96958793	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	16312143	96958793	146240580	25	14997										
IL1F9	56300	broad.mit.edu	37	chr2	113737695	113737695	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	atgtgtttgtattgtgagaaGgttggagaacagcccacatt	12	5	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:113737695G>A	uc002tio.1	+	4	339	c.270G>A	c.(268-270)AAG>AAA	p.K90K	IL1F9_uc010fkr.1_Silent_p.K55K	NM_019618	NP_062564	Q9NZH8	IL36G_HUMAN	interleukin 1 family, member 9	90					cell-cell signaling	extracellular space	cytokine activity|interleukin-1 receptor antagonist activity				0						ATTGTGAGAAGGTTGGAGAAC	0.388													33	44	---	---	---	---	PASS	A	113737695	A	A	113737695	2	1	38	1	0	0	0	0	0	0	0	1	7657	991	35	3		3	IL1F9	2	113737695	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	16778902	113737695	129461678	26	14998										
XIRP2	129446	broad.mit.edu	37	chr2	168102982	168102982	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttaacatgactatctattgtCttcttcatgaaaatgatggt	6	6	4	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:168102982C>T	uc002udx.2	+	8	5098	c.5080C>T	c.(5080-5082)CTT>TTT	p.L1694F	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.L1519F|XIRP2_uc010fpq.2_Missense_Mutation_p.L1472F|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1519					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TATCTATTGTCTTCTTCATGA	0.338													35	80	---	---	---	---	PASS	T	168102982	T	T	168102982	3	4	38	1	0	0	0	0	1	0	0	0	17427	913	32	2	5110	2	XIRP2	2	168102982	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	54365287	168102982	75096391	27	14999										
LRP2	4036	broad.mit.edu	37	chr2	170055374	170055374	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ataaacgcgaggaatacaaaTatttgaattatgacattttg	7	4	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:170055374T>C	uc002ues.2	-	45	8713	c.8500A>G	c.(8500-8502)ATT>GTT	p.I2834V		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2834	LDL-receptor class A 19.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GGAATACAAATATTTGAATTA	0.348													33	70	---	---	---	---	PASS	C	170055374	C	C	170055374	3	2	38	1	0	0	0	0	1	0	0	0	8956	1406	49	5	5607	5	LRP2	2	170055374	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	1952392	170055374	73143999	28	15000										
TTN	7273	broad.mit.edu	37	chr2	179611917	179611917	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gggggtgtggagtatctctcTagagtctctcctggaggtgt	16	7	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:179611917T>C	uc002unb.2	-	46	15434	c.15210A>G	c.(15208-15210)CTA>CTG	p.L5070L	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			AGTATCTCTCTAGAGTCTCTC	0.522													51	141	---	---	---	---	PASS	C	179611917	C	C	179611917	2	2	38	1	0	0	0	0	0	0	0	1	16732	1509	53	5		5	TTN	2	179611917	Silent	SNP	T	TCGA-22-4601-01A-01D-1441-08	9556543	179611917	63587456	29	15001										
TTN	7273	broad.mit.edu	37	chr2	179615771	179615771	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gcttgtgggaagttcctcagAttctatattttgatccattt	8	7	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:179615771A>C	uc002unb.2	-	46	11580	c.11356T>G	c.(11356-11358)TCT>GCT	p.S3786A	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			AGTTCCTCAGATTCTATATTT	0.363													5	483	---	---	---	---	PASS	C	179615771	C	C	179615771	3	2	38	1	0	0	0	0	1	0	0	0	16732	333	12	5	98941	5	TTN	2	179615771	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	3854	179615771	63583602	30	15002										
DES	1674	broad.mit.edu	37	chr2	220290422	220290422	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	aggggttctgaggtccatacCaagaagacggtgatgatcaa	13	7	2	5			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:220290422C>G	uc002vll.2	+	8	1412	c.1326C>G	c.(1324-1326)ACC>ACG	p.T442T		NM_001927	NP_001918	P17661	DESM_HUMAN	desmin	442	Tail.		T -> I (in MFM1; reveals a severe disturbance of filament-formation competence and filament-filament interactions, indicating an inherent incompaibility of mutant and wild-type protein to form mixed filaments).		cytoskeleton organization|muscle filament sliding|regulation of heart contraction	cytosol|Z disc	protein binding|structural constituent of cytoskeleton			central_nervous_system(2)	2		Renal(207;0.0183)		Epithelial(149;5.25e-07)|all cancers(144;0.000103)|Lung(261;0.00533)|LUSC - Lung squamous cell carcinoma(224;0.008)		AGGTCCATACCAAGAAGACGG	0.572													4	3	---	---	---	---	PASS	G	220290422	G	G	220290422	2	3	38	1	0	0	0	0	0	0	0	1	4449	581	21	4		4	DES	2	220290422	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	40674651	220290422	22908951	31	15003										
STK11IP	114790	broad.mit.edu	37	chr2	220473376	220473376	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tacggggcagggaatgctttCtcagggtcacttctgcccac	12	12	3	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:220473376C>G	uc002vml.2	+	15	1751	c.1708C>G	c.(1708-1710)CTC>GTC	p.L570V	STK11IP_uc010zll.1_Missense_Mutation_p.L527V|STK11IP_uc002vmm.1_Missense_Mutation_p.L559V	NM_052902	NP_443134	Q8N1F8	S11IP_HUMAN	LKB1 interacting protein	570	Glu-rich.				protein localization	cytoplasm	protein kinase binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;2.69e-07)|all cancers(144;5.91e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGAATGCTTTCTCAGGGTCAC	0.607													26	20	---	---	---	---	PASS	G	220473376	G	G	220473376	3	3	38	1	0	0	0	0	1	0	0	0	15287	913	32	2	1766	2	STK11IP	2	220473376	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	182954	220473376	22725997	32	15004										
SP140	11262	broad.mit.edu	37	chr2	231106201	231106201	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttactaccatatggtaaacaAggtaactatcatttagctga	6	7	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr2:231106201A>C	uc002vql.2	+	4	604	c.489A>C	c.(487-489)CAA>CAC	p.Q163H	SP140_uc010zma.1_RNA|SP140_uc002vqk.2_Missense_Mutation_p.Q163H|SP140_uc002vqn.2_Missense_Mutation_p.Q163H|SP140_uc002vqm.2_Missense_Mutation_p.Q163H|SP140_uc010fxl.2_Missense_Mutation_p.Q163H	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	163					defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		ATGGTAAACAAGGTAACTATC	0.378													37	16	---	---	---	---	PASS	C	231106201	C	C	231106201	3	2	38	1	0	0	0	0	1	0	0	0	14962	86	3	5	620	5	SP140	2	231106201	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	10632825	231106201	12093172	33	15005										
EFHB	151651	broad.mit.edu	37	chr3	19961433	19961433	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ccagcaggtggatatctgaaGttgaaatacttttttgcttc	9	7	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr3:19961433G>T	uc003cbl.3	-	3	1084	c.888C>A	c.(886-888)AAC>AAA	p.N296K	EFHB_uc003cbm.2_Missense_Mutation_p.N166K	NM_144715	NP_653316	Q8N7U6	EFHB_HUMAN	EF hand domain family, member B	296					signal transduction	proteinaceous extracellular matrix	calcium ion binding				0						GATATCTGAAGTTGAAATACT	0.343													60	47	---	---	---	---	PASS	T	19961433	T	T	19961433	3	4	38	1	0	0	0	0	1	0	0	0	4945	1020	36	3	1657	3	EFHB	3	19961433	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08		19961433	178060997	34	15006										
STAC	6769	broad.mit.edu	37	chr3	36570437	36570437	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	atgtgttagaaccttcattgGgtgtaaggaacaggggcaga	14	5	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr3:36570437G>T	uc003cgh.1	+	10	1109	c.1070G>T	c.(1069-1071)GGG>GTG	p.G357V	STAC_uc011aya.1_Missense_Mutation_p.G296V	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	357					intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						ACCTTCATTGGGTGTAAGGAA	0.383													21	14	---	---	---	---	PASS	T	36570437	T	T	36570437	3	4	38	1	0	0	0	0	1	0	0	0	15238	1232	43	3	1108	3	STAC	3	36570437	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	16609004	36570437	161451993	35	15007										
HYAL1	3373	broad.mit.edu	37	chr3	50340387	50340387	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gggaagcaggtgggctgccaTggcacgggactggtcgagga	20	8	0	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr3:50340387T>C	uc003czp.2	-	2	133	c.1A>G	c.(1-3)ATG>GTG	p.M1V	HYAL1_uc003czm.2_Intron|HYAL1_uc003czo.2_Intron|HYAL1_uc003czq.2_Missense_Mutation_p.M1V|HYAL1_uc003czr.2_Missense_Mutation_p.M1V|HYAL1_uc003czn.2_Intron|HYAL1_uc003czs.2_Missense_Mutation_p.M1V|HYAL1_uc003czt.2_Missense_Mutation_p.M1V	NM_033159	NP_149349	Q12794	HYAL1_HUMAN	hyaluronoglucosaminidase 1 isoform 1	1						extracellular space|lysosome	hyalurononglucosaminidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)	Hyaluronidase(DB00070)	TGGGCTGCCATGGCACGGGAC	0.632													31	4	---	---	---	---	PASS	C	50340387	C	C	50340387	3	2	38	1	0	0	0	0	1	0	0	0	7463	1464	51	5	1318	5	HYAL1	3	50340387	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	13769950	50340387	147682043	36	15008										
CADPS	8618	broad.mit.edu	37	chr3	62451077	62451077	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agaagaaaacaaagtcccttCgtcatatctggataattttg	7	7	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr3:62451077C>T	uc003dll.2	-	26	3961	c.3601G>A	c.(3601-3603)GAA>AAA	p.E1201K	CADPS_uc003dlj.1_Missense_Mutation_p.E156K|CADPS_uc003dlk.1_Missense_Mutation_p.E649K|CADPS_uc003dlm.2_Missense_Mutation_p.E1162K|CADPS_uc003dln.2_Missense_Mutation_p.E1122K	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	1201	Mediates targeting and association with DCVs (By similarity).				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		AAAGTCCCTTCGTCATATCTG	0.333													5	133	---	---	---	---	PASS	T	62451077	T	T	62451077	3	4	38	1	0	0	0	0	1	0	0	0	2570	893	31	2	480	2	CADPS	3	62451077	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	12110690	62451077	135571353	37	15009										
EPHA3	2042	broad.mit.edu	37	chr3	89391048	89391048	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	aatgtgggtggaatataaaaCagtgtgagccatgcagccca	12	7	0	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr3:89391048C>T	uc003dqy.2	+	5	1339	c.1114C>T	c.(1114-1116)CAG>TAG	p.Q372*	EPHA3_uc003dqx.1_Nonsense_Mutation_p.Q372*|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	372	Extracellular (Potential).|Fibronectin type-III 1.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		GAATATAAAACAGTGTGAGCC	0.493										TSP Lung(6;0.00050)			55	23	---	---	---	---	PASS	T	89391048	T	T	89391048	4	4	38	1	0	0	0	0	0	1	0	0	5168	479	17	3	1132	3	EPHA3	3	89391048	Nonsense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	26939971	89391048	108631382	38	15010										
CD96	10225	broad.mit.edu	37	chr3	111286386	111286386	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	acagttacagcagatgaatgGaacagcaaccatacgataga	9	8	0	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr3:111286386G>T	uc003dxw.2	+	3	605	c.435G>T	c.(433-435)TGG>TGT	p.W145C	CD96_uc003dxv.2_Missense_Mutation_p.W145C|CD96_uc003dxx.2_Missense_Mutation_p.W145C|CD96_uc010hpy.1_Missense_Mutation_p.W145C	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor	145	Extracellular (Potential).				cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						CAGATGAATGGAACAGCAACC	0.328									Opitz_Trigonocephaly_syndrome				4	199	---	---	---	---	PASS	T	111286386	T	T	111286386	3	4	38	1	0	0	0	0	1	0	0	0	3048	1183	41	2	445	2	CD96	3	111286386	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	21895338	111286386	86736044	39	15011										
CCDC52	152185	broad.mit.edu	37	chr3	113169255	113169255	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	caaaccaacaagtttctgctGctctatcaactgcagtagtt	6	11	3	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr3:113169255G>A	uc003eag.3	-	15	2542	c.2251C>T	c.(2251-2253)CAG>TAG	p.Q751*	CCDC52_uc003eaf.3_RNA|CCDC52_uc003eah.1_Nonsense_Mutation_p.Q647*	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52	751	Potential.				cell division|mitosis	centriole|spindle	protein binding				0						AGTTTCTGCTGCTCTATCAAC	0.428													259	79	---	---	---	---	PASS	A	113169255	A	A	113169255	4	1	38	1	0	0	0	0	0	1	0	0	2822	1328	46	3	332	3	CCDC52	3	113169255	Nonsense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	1882869	113169255	84853175	40	15012										
FNDC3B	64778	broad.mit.edu	37	chr3	172096201	172096201	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	acctataccttcagcacaacCaaaagtgtcccccccaccat	3	18	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr3:172096201C>G	uc003fhy.2	+	24	3322	c.3150C>G	c.(3148-3150)ACC>ACG	p.T1050T	FNDC3B_uc003fhz.3_Silent_p.T1050T	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	1050						endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		TCAGCACAACCAAAAGTGTCC	0.478													6	270	---	---	---	---	PASS	G	172096201	G	G	172096201	2	3	38	1	0	0	0	0	0	0	0	1	5970	581	21	4		4	FNDC3B	3	172096201	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	58926946	172096201	25926229	41	15013										
MCF2L2	23101	broad.mit.edu	37	chr3	183056620	183056620	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tttaaactcatttcgatagtAtttaatgccaatgtcagtga	6	6	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr3:183056620A>T	uc003fli.1	-	5	544	c.454T>A	c.(454-456)TAC>AAC	p.Y152N	MCF2L2_uc003flj.1_Missense_Mutation_p.Y152N|MCF2L2_uc003flp.1_Missense_Mutation_p.Y187N	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	152	CRAL-TRIO.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TTTCGATAGTATTTAATGCCA	0.343													12	340	---	---	---	---	PASS	T	183056620	T	T	183056620	3	4	38	1	0	0	0	0	1	0	0	0	9380	449	16	5	2994	5	MCF2L2	3	183056620	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	10960419	183056620	14965810	42	15014										
RFC4	5984	broad.mit.edu	37	chr3	186510376	186510376	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tgaagcggaattttgaacatCtagaggtcaggggttcaatt	12	5	3	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr3:186510376C>A	uc003fqz.2	-	7	801	c.578G>T	c.(577-579)AGA>ATA	p.R193I	RFC4_uc011bsc.1_Missense_Mutation_p.R193I|RFC4_uc011bsd.1_Missense_Mutation_p.R193I	NM_002916	NP_002907	P35249	RFC4_HUMAN	replication factor C 4	193					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|phosphatidylinositol-mediated signaling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|large_intestine(1)	5	all_cancers(143;2.92e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)	GBM - Glioblastoma multiforme(93;0.0739)		TTTTGAACATCTAGAGGTCAG	0.363													63	153	---	---	---	---	PASS	A	186510376	A	A	186510376	3	1	38	1	0	0	0	0	1	0	0	0	13247	913	32	2	533	2	RFC4	3	186510376	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	3453756	186510376	11512054	43	15015										
CRMP1	1400	broad.mit.edu	37	chr4	5853143	5853143	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tgagggacctacctggctgtCggacatttggtagacatcct	12	10	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr4:5853143C>T	uc003gip.2	-	6	633	c.532G>A	c.(532-534)GAC>AAC	p.D178N	CRMP1_uc003gin.1_Missense_Mutation_p.D90N|CRMP1_uc003giq.2_Missense_Mutation_p.D178N|CRMP1_uc003gir.2_Missense_Mutation_p.D173N|CRMP1_uc003gis.2_Missense_Mutation_p.D292N	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	178					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		ACCTGGCTGTCGGACATTTGG	0.408													10	261	---	---	---	---	PASS	T	5853143	T	T	5853143	3	4	38	1	0	0	0	0	1	0	0	0	3890	884	31	2	1226	2	CRMP1	4	5853143	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08		5853143	185301133	44	15016										
LPHN3	23284	broad.mit.edu	37	chr4	62679560	62679560	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tggacaagtttcatacatttCtccgccaattcaccttgact	5	12	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr4:62679560C>T	uc010ihh.2	+	6	1402	c.1229C>T	c.(1228-1230)TCT>TTT	p.S410F	LPHN3_uc003hcq.3_Missense_Mutation_p.S410F|LPHN3_uc003hcs.1_Missense_Mutation_p.S239F	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	410	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						tcatacatttctccgccaatt	0.124													3	61	---	---	---	---	PASS	T	62679560	T	T	62679560	3	4	38	1	0	0	0	0	1	0	0	0	8917	913	32	2	1251	2	LPHN3	4	62679560	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	56826417	62679560	128474716	45	15017										
ANK2	287	broad.mit.edu	37	chr4	114276009	114276009	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ccataggagttaagaaagaaGatgcagctggaggaaaggag	15	4	0	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr4:114276009G>T	uc003ibe.3	+	38	6335	c.6235G>T	c.(6235-6237)GAT>TAT	p.D2079Y	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_5'Flank|ANK2_uc011cgb.1_Missense_Mutation_p.D2094Y	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2046					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TAAGAAAGAAGATGCAGCTGG	0.483													6	184	---	---	---	---	PASS	T	114276009	T	T	114276009	3	4	38	1	0	0	0	0	1	0	0	0	621	942	33	2	6450	2	ANK2	4	114276009	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	51596449	114276009	76878267	46	15018										
DDX60	55601	broad.mit.edu	37	chr4	169195106	169195106	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tttgtgggtgcaacgtacacGaccaccccgtcgtcgctctc	10	15	1	0	rs138638907		TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr4:169195106G>A	uc003irp.2	-	17	2725	c.2433C>T	c.(2431-2433)GTC>GTT	p.V811V		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	811	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		CAACGTACACGACCACCCCGT	0.453													13	146	---	---	---	---	PASS	A	169195106	A	A	169195106	2	1	38	1	0	0	0	0	0	0	0	1	4378	1045	37	2		2	DDX60	4	169195106	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	54919097	169195106	21959170	47	15019										
ODZ3	55714	broad.mit.edu	37	chr4	183676285	183676285	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	accaagtgatatggttgacaAtaggaacaaatggatgtttg	11	4	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr4:183676285A>G	uc003ivd.1	+	21	4802	c.4765A>G	c.(4765-4767)ATA>GTA	p.I1589V	ODZ3_uc003ive.1_Missense_Mutation_p.I1002V	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1589	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		ATGGTTGACAATAGGAACAAA	0.428													28	42	---	---	---	---	PASS	G	183676285	G	G	183676285	3	3	38	1	0	0	0	0	1	0	0	0	10836	101	4	5	4847	5	ODZ3	4	183676285	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	14481179	183676285	7477991	48	15020										
IRX2	153572	broad.mit.edu	37	chr5	2749025	2749025	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cctcctcgtcgtcgtcctcgTcgtcctccaggtcgtcatac	8	18	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr5:2749025T>A	uc003jda.2	-	3	1039	c.797A>T	c.(796-798)GAC>GTC	p.D266V	IRX2_uc003jdb.2_Missense_Mutation_p.D266V	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	266						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		GTCGTCCTCGTCGTCCTCCAG	0.682													9	30	---	---	---	---	PASS	A	2749025	A	A	2749025	3	1	38	1	0	0	0	0	1	0	0	0	7844	1667	58	5	626	5	IRX2	5	2749025	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08		2749025	178166235	49	15021										
UGT3A1	133688	broad.mit.edu	37	chr5	35955751	35955751	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttagagagccacatacctctTgtcttctatgacttgtttca	6	10	4	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr5:35955751T>C	uc003jjv.1	-	6	1448	c.1291A>G	c.(1291-1293)AAG>GAG	p.K431E	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.K431E|UGT3A1_uc011cor.1_Missense_Mutation_p.K397E	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	431	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ACATACCTCTTGTCTTCTATG	0.408													34	79	---	---	---	---	PASS	C	35955751	C	C	35955751	3	2	38	1	0	0	0	0	1	0	0	0	16960	1821	63	5	288	5	UGT3A1	5	35955751	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	33206726	35955751	144959509	50	15022										
UGT3A1	133688	broad.mit.edu	37	chr5	35966003	35966003	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tatttccattagctttacaaGggcttcagattcttttctgt	6	8	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr5:35966003G>A	uc003jjv.1	-	4	485	c.328C>T	c.(328-330)CTT>TTT	p.L110F	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.L110F|UGT3A1_uc011cor.1_Missense_Mutation_p.L76F|UGT3A1_uc003jjy.1_Missense_Mutation_p.L56F	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	110	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AGCTTTACAAGGGCTTCAGAT	0.274													33	58	---	---	---	---	PASS	A	35966003	A	A	35966003	3	1	38	1	0	0	0	0	1	0	0	0	16960	1000	35	3	1341	3	UGT3A1	5	35966003	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	10252	35966003	144949257	51	15023										
FBXO4	26272	broad.mit.edu	37	chr5	41941379	41941379	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agtggaatctaagcgtgcaaGatgattctcttttcagatct	9	7	4	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr5:41941379G>A	uc003jmq.2	+	7	1216	c.1160G>A	c.(1159-1161)AGA>AAA	p.R387K	FBXO4_uc003jmr.2_3'UTR	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	387					positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)				AAGCGTGCAAGATGATTCTCT	0.413													6	104	---	---	---	---	PASS	A	41941379	A	A	41941379	3	1	38	1	0	0	0	0	1	0	0	0	5748	942	33	2	1212	2	FBXO4	5	41941379	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	5975376	41941379	138973881	52	15024										
PDE4D	5144	broad.mit.edu	37	chr5	59284455	59284455	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agagggggaagctgaatattGcgacatgaaagtctccggac	14	7	1	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr5:59284455G>A	uc003jsb.2	-	3	345	c.132C>T	c.(130-132)CGC>CGT	p.R44R	PDE4D_uc010iwj.1_Silent_p.R44R|PDE4D_uc003jse.1_Silent_p.R56R	NM_006203	NP_006194	Q08499	PDE4D_HUMAN	phosphodiesterase 4D isoform 2	Error:Variant_position_missing_in_Q08499_after_alignment					signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)	GCTGAATATTGCGACATGAAA	0.483													87	36	---	---	---	---	PASS	A	59284455	A	A	59284455	2	1	38	1	0	0	0	0	0	0	0	1	11642	1306	46	3		3	PDE4D	5	59284455	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	17343076	59284455	121630805	53	15025										
RHOBTB3	22836	broad.mit.edu	37	chr5	95087983	95087983	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agccttaaatcagaagacaaGtgaaaaaatgaagaaaagaa	8	4	1	6			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr5:95087983G>A	uc003klm.2	+	5	1148	c.611G>A	c.(610-612)AGT>AAT	p.S204N	RHOBTB3_uc003klk.1_Translation_Start_Site	NM_014899	NP_055714	O94955	RHBT3_HUMAN	rho-related BTB domain containing 3	204					retrograde transport, endosome to Golgi	Golgi apparatus	ATP binding|ATPase activity|Rab GTPase binding			lung(1)|skin(1)	2		all_cancers(142;2.58e-06)|all_epithelial(76;4.19e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0164)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.79e-16)		CAGAAGACAAGTGAAAAAATG	0.318													59	27	---	---	---	---	PASS	A	95087983	A	A	95087983	3	1	38	1	0	0	0	0	1	0	0	0	13335	1029	36	3	629	3	RHOBTB3	5	95087983	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	35803528	95087983	85827277	54	15026										
NEUROG1	4762	broad.mit.edu	37	chr5	134871202	134871202	+	Frame_Shift_Del	DEL	T	-	-													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cgtcctgtgcccctggaaccTcagacgcccgggagatattg							TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr5:134871202delT	uc003lax.2	-	1	438	c.179delA	c.(178-180)GAGfs	p.E60fs		NM_006161	NP_006152	Q92886	NGN1_HUMAN	neurogenin 1	60					positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter	nucleus	chromatin binding|E-box binding|sequence-specific DNA binding transcription factor activity|transcription factor binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CCCTGGAACCTCAGACGCCCG	0.582													4	2	---	---	---	---		-	134871202	-	-	134871202	7	5	38	1	0	1	0	1	0	0	0	0	10352	1551	54	0	538	0	NEUROG1	5	134871202	Frame_Shift_Del	DEL	T	TCGA-22-4601-01A-01D-1441-08	39783219	134871202	46044058	55	15027										
PCDHB10	56126	broad.mit.edu	37	chr5	140572692	140572692	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agtggcggtgatgaaggcatGatatatccagagctagtgtt	14	5	0	4			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr5:140572692G>A	uc003lix.2	+	1	741	c.567G>A	c.(565-567)ATG>ATA	p.M189I		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	189	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATGAAGGCATGATATATCCAG	0.502													15	178	---	---	---	---	PASS	A	140572692	A	A	140572692	3	1	38	1	0	0	0	0	1	0	0	0	11535	1290	45	2	569	2	PCDHB10	5	140572692	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	5701490	140572692	40342568	56	15028										
PCDHGA1	56114	broad.mit.edu	37	chr5	140710767	140710767	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tcactccagagctaccaactCagctctaaccctcatttctc	3	17	5	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr5:140710767C>A	uc003lji.1	+	1	516	c.516C>A	c.(514-516)CTC>CTA	p.L172L	PCDHGA1_uc011dan.1_Silent_p.L172L	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	172	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTACCAACTCAGCTCTAACC	0.483													95	59	---	---	---	---	PASS	A	140710767	A	A	140710767	2	1	38	1	0	0	0	0	0	0	0	1	11550	813	29	2		2	PCDHGA1	5	140710767	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	138075	140710767	40204493	57	15029										
SH3RF2	153769	broad.mit.edu	37	chr5	145383666	145383666	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gagtggatgagaactgggcaGaaggcaagttaggagataaa	16	3	0	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr5:145383666G>A	uc003lnt.2	+	4	932	c.694G>A	c.(694-696)GAA>AAA	p.E232K	SH3RF2_uc011dbl.1_Missense_Mutation_p.E232K	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	232	SH3 2.						ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAACTGGGCAGAAGGCAAGTT	0.418													7	123	---	---	---	---	PASS	A	145383666	A	A	145383666	3	1	38	1	0	0	0	0	1	0	0	0	14259	943	33	2	704	2	SH3RF2	5	145383666	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	4672899	145383666	35531594	58	15030										
ATP10B	23120	broad.mit.edu	37	chr5	159996670	159996670	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	atcaggaagctgccgaggagCacgactccgtggaaaatggt	14	9	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr5:159996670C>T	uc003lym.1	-	25	4618	c.3771G>A	c.(3769-3771)GTG>GTA	p.V1257V	ATP10B_uc010jit.1_Silent_p.V507V	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	1257	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGCCGAGGAGCACGACTCCGT	0.488													47	31	---	---	---	---	PASS	T	159996670	T	T	159996670	2	4	38	1	0	0	0	0	0	0	0	1	1117	697	25	3		3	ATP10B	5	159996670	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	14613004	159996670	20918590	59	15031										
GABRB2	2561	broad.mit.edu	37	chr5	160721318	160721318	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tttccgatactggatgctggAggcatcataggctagcattg	12	8	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr5:160721318A>G	uc003lys.1	-	11	1527	c.1309T>C	c.(1309-1311)TCC>CCC	p.S437P	GABRB2_uc011deh.1_Missense_Mutation_p.S238P|GABRB2_uc003lyr.1_Missense_Mutation_p.S399P|GABRB2_uc003lyt.1_Missense_Mutation_p.S399P|GABRB2_uc010jiu.1_Missense_Mutation_p.S336P	NM_021911	NP_068711	P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	437	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|GABA-A receptor activity				0	Renal(175;0.00259)	Medulloblastoma(196;0.021)|all_neural(177;0.0463)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TGGATGCTGGAGGCATCATAG	0.507													7	66	---	---	---	---	PASS	G	160721318	G	G	160721318	3	3	38	1	0	0	0	0	1	0	0	0	6167	304	11	5	233	5	GABRB2	5	160721318	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	724648	160721318	20193942	60	15032										
NRN1	51299	broad.mit.edu	37	chr6	6002585	6002585	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ccggccagagaggacacttaCgtgcacacggtcttgatgtt	12	11	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr6:6002585C>G	uc003mwu.2	-	2	851	c.200_splice	c.e2+1	p.T67_splice	NRN1_uc003mwt.2_Splice_Site_p.T93_splice	NM_016588	NP_057672	Q9NPD7	NRN1_HUMAN	neuritin precursor							anchored to membrane|plasma membrane					0	Ovarian(93;0.0816)	all_hematologic(90;0.151)		OV - Ovarian serous cystadenocarcinoma(45;0.00415)		AGGACACTTACGTGCACACGG	0.622													64	164	---	---	---	---	PASS	G	6002585	G	G	6002585	5	3	38	1	0	0	0	0	0	0	1	0	10658	550	19	4	235	4	NRN1	6	6002585	Splice_Site	SNP	C	TCGA-22-4601-01A-01D-1441-08		6002585	165112482	61	15033										
OR2J3	442186	broad.mit.edu	37	chr6	29080597	29080597	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gtgaagagactaatggggtgGgaatgagcctgtgtatgtgt	17	3	0	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr6:29080597G>T	uc011dll.1	+	1	930	c.930G>T	c.(928-930)TGG>TGT	p.W310C		NM_001005216	NP_001005216	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TAATGGGGTGGGAATGAGCCT	0.373													17	51	---	---	---	---	PASS	T	29080597	T	T	29080597	3	4	38	1	0	0	0	0	1	0	0	0	11004	1241	43	3	932	3	OR2J3	6	29080597	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	23078012	29080597	142034470	62	15034										
OPN5	221391	broad.mit.edu	37	chr6	47754339	47754339	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cccgctgaaataatgactatCaatttagcagtctgtgatct	7	9	3	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr6:47754339C>T	uc003ozc.2	+	2	224	c.219C>T	c.(217-219)ATC>ATT	p.I73I	OPN5_uc003ozd.2_5'Flank	NM_181744	NP_859528	Q6U736	OPN5_HUMAN	opsin 5 isoform 1	73	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1						TAATGACTATCAATTTAGCAG	0.403													11	152	---	---	---	---	PASS	T	47754339	T	T	47754339	2	4	38	1	0	0	0	0	0	0	0	1	10883	816	29	2		2	OPN5	6	47754339	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	18673742	47754339	123360728	63	15035										
BAI3	577	broad.mit.edu	37	chr6	70049312	70049312	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gccatgacagataaacgctcCatattgtttcaaatactttt	5	9	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr6:70049312C>T	uc003pev.3	+	26	3823	c.3375C>T	c.(3373-3375)TCC>TCT	p.S1125S	BAI3_uc010kak.2_Silent_p.S1125S|BAI3_uc011dxx.1_Silent_p.S331S|BAI3_uc003pex.1_Silent_p.S255S	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1125	Extracellular (Potential).				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)				ATAAACGCTCCATATTGTTTC	0.468													136	201	---	---	---	---	PASS	T	70049312	T	T	70049312	2	4	38	1	0	0	0	0	0	0	0	1	1300	581	21	3		3	BAI3	6	70049312	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	22294973	70049312	101065755	64	15036										
ZNF292	23036	broad.mit.edu	37	chr6	87968709	87968709	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gtgaaacttcacaaaatgctCaaataaattataacattcag	4	7	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr6:87968709C>G	uc003plm.3	+	8	5403	c.5362C>G	c.(5362-5364)CAA>GAA	p.Q1788E		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1788					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		ACAAAATGCTCAAATAAATTA	0.343													3	37	---	---	---	---	PASS	G	87968709	G	G	87968709	3	3	38	1	0	0	0	0	1	0	0	0	17823	827	29	2	5392	2	ZNF292	6	87968709	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	17919397	87968709	83146358	65	15037										
CNR1	1268	broad.mit.edu	37	chr6	88854114	88854123	+	Frame_Shift_Del	DEL	ACGCATACAC	-	-													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cttccagagaatatacatgtAcgcatacacgatgaacagaa					rs35057475		TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr6:88854114_88854123delACGCATACAC	uc011dzq.1	-	2	4434_4443	c.871_880delGTGTATGCGT	c.(871-882)GTGTATGCGTACfs	p.V291fs	CNR1_uc010kbz.2_Frame_Shift_Del_p.V291fs|CNR1_uc011dzr.1_Frame_Shift_Del_p.V291fs|CNR1_uc011dzs.1_Frame_Shift_Del_p.V291fs|CNR1_uc003pmq.3_Frame_Shift_Del_p.V291fs|CNR1_uc011dzt.1_Frame_Shift_Del_p.V291fs|CNR1_uc010kca.2_Frame_Shift_Del_p.V258fs	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	291_294	Helical; Name=5; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	ATATACATGTACGCATACACGATGAACAGA	0.505													48	26	---	---	---	---		-	88854123	-	-	88854114	7	5	38	1	0	1	0	1	0	0	0	0	3631	391	14	0	542	0	CNR1	6	88854114	Frame_Shift_Del	DEL	ACGCATACAC	TCGA-22-4601-01A-01D-1441-08	885405	88854114	82260953	66	15038										
GRIK2	2898	broad.mit.edu	37	chr6	102247544	102247544	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ctgatgctgctctaatgtatGatgctgtgcatgtggtgtct	12	7	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr6:102247544G>A	uc003pqp.3	+	7	1222	c.973G>A	c.(973-975)GAT>AAT	p.D325N	GRIK2_uc003pqn.2_Missense_Mutation_p.D325N|GRIK2_uc003pqo.3_Missense_Mutation_p.D325N|GRIK2_uc010kcw.2_Missense_Mutation_p.D325N	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	325	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	TCTAATGTATGATGCTGTGCA	0.463													74	52	---	---	---	---	PASS	A	102247544	A	A	102247544	3	1	38	1	0	0	0	0	1	0	0	0	6774	1290	45	2	999	2	GRIK2	6	102247544	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	13393430	102247544	68867523	67	15039										
ARMC2	84071	broad.mit.edu	37	chr6	109225492	109225492	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttcatcatgctttagaggaaGgaaacatgcttggaaataaa	9	5	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr6:109225492G>A	uc003pss.3	+	8	1081	c.907G>A	c.(907-909)GGA>AGA	p.G303R	ARMC2_uc011eao.1_Missense_Mutation_p.G138R	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	303							binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)		TTTAGAGGAAGGAAACATGCT	0.393													114	58	---	---	---	---	PASS	A	109225492	A	A	109225492	3	1	38	1	0	0	0	0	1	0	0	0	951	1001	35	3	933	3	ARMC2	6	109225492	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	6977948	109225492	61889575	68	15040										
EPB41L2	2037	broad.mit.edu	37	chr6	131222122	131222122	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ctgtgggttttgtgcagctcTgccaccttctcttccagctc	9	14	2	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr6:131222122T>A	uc003qch.2	-	7	1310	c.1128A>T	c.(1126-1128)GCA>GCT	p.A376A	EPB41L2_uc003qcg.1_Silent_p.A376A|EPB41L2_uc011eby.1_Silent_p.A376A|EPB41L2_uc003qci.2_Silent_p.A376A|EPB41L2_uc010kfk.2_Silent_p.A376A|EPB41L2_uc010kfl.1_Silent_p.A376A	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	376	FERM.				cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		TGTGCAGCTCTGCCACCTTCT	0.478													159	69	---	---	---	---	PASS	A	131222122	A	A	131222122	2	1	38	1	0	0	0	0	0	0	0	1	5153	1567	55	5		5	EPB41L2	6	131222122	Silent	SNP	T	TCGA-22-4601-01A-01D-1441-08	21996630	131222122	39892945	69	15041										
KIAA1244	57221	broad.mit.edu	37	chr6	138607837	138607837	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	acacacccctccatgttccaGgcgtggcatttgctcgctat	8	15	0	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr6:138607837G>C	uc003qhu.2	+	16	2570	c.2570_splice	c.e16-1	p.G857_splice		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine						regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CCATGTTCCAGGCGTGGCATT	0.478													5	115	---	---	---	---	PASS	C	138607837	C	C	138607837	5	2	38	1	0	0	0	0	0	0	1	0	8217	1014	35	4	2631	4	KIAA1244	6	138607837	Splice_Site	SNP	G	TCGA-22-4601-01A-01D-1441-08	7385715	138607837	32507230	70	15042										
TMEM196	256130	broad.mit.edu	37	chr7	19765275	19765275	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ccaatgcacgcgagagacatGgaggcaaggtgcagtgggta	16	8	0	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr7:19765275G>T	uc011jyg.1	-	3	406	c.321C>A	c.(319-321)TCC>TCA	p.S107S	TMEM196_uc003sur.2_RNA	NM_152774	NP_689987	Q5HYL7	TM196_HUMAN	transmembrane protein 196	113	Helical; (Potential).					integral to membrane					0						CGAGAGACATGGAGGCAAGGT	0.527													36	30	---	---	---	---	PASS	T	19765275	T	T	19765275	2	4	38	1	0	0	0	0	0	0	0	1	16115	1335	47	3		3	TMEM196	7	19765275	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08		19765275	139373388	71	15043										
CREB5	9586	broad.mit.edu	37	chr7	28857735	28857735	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gtggcccagctgaaacagttGttgttaacacataaagactg	10	8	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr7:28857735G>A	uc003szq.2	+	10	1692	c.1302G>A	c.(1300-1302)TTG>TTA	p.L434L	CREB5_uc003szo.2_Silent_p.L401L|CREB5_uc003szr.2_Silent_p.L427L|CREB5_uc003szs.2_Silent_p.L295L	NM_182898	NP_878901	Q02930	CREB5_HUMAN	cAMP responsive element binding protein 5	434					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						TGAAACAGTTGTTGTTAACAC	0.378													25	82	---	---	---	---	PASS	A	28857735	A	A	28857735	2	1	38	1	0	0	0	0	0	0	0	1	3860	1368	48	3		3	CREB5	7	28857735	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	9092460	28857735	130280928	72	15044										
EGFR	1956	broad.mit.edu	37	chr7	55268990	55268990	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tgccgacgagtacctcatccCacagcagggcttcttcagca	9	15	3	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr7:55268990C>T	uc003tqk.2	+	25	3302	c.3056C>T	c.(3055-3057)CCA>CTA	p.P1019L	EGFR_uc010kzg.1_Missense_Mutation_p.P974L|EGFR_uc011kco.1_Missense_Mutation_p.P966L	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	1019	Cytoplasmic (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	TACCTCATCCCACAGCAGGGC	0.537		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			64	37	---	---	---	---	PASS	T	55268990	T	T	55268990	3	4	38	1	0	0	0	0	1	0	0	0	4967	594	21	3	3418	3	EGFR	7	55268990	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	26411255	55268990	103869673	73	15045										
HGF	3082	broad.mit.edu	37	chr7	81340811	81340811	+	Frame_Shift_Del	DEL	A	-	-													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	acttacggtctaaattgactAttgtaggtgtggtatcacct							TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr7:81340811delA	uc003uhl.2	-	12	1595	c.1430delT	c.(1429-1431)ATAfs	p.I477fs	HGF_uc003uhm.2_Frame_Shift_Del_p.I472fs	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	477					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						TAAATTGACTATTGTAGGTGT	0.264													19	18	---	---	---	---		-	81340811	-	-	81340811	7	5	38	1	0	1	0	1	0	0	0	0	7085	449	16	0	784	0	HGF	7	81340811	Frame_Shift_Del	DEL	A	TCGA-22-4601-01A-01D-1441-08	26071821	81340811	77797852	74	15046										
EPHB4	2050	broad.mit.edu	37	chr7	100404160	100404160	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tccggaaggcaatggcctccGgggcagtccatcggatggga	16	11	0	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr7:100404160G>A	uc003uwn.1	-	14	2857	c.2366C>T	c.(2365-2367)CCG>CTG	p.P789L	EPHB4_uc003uwm.1_Missense_Mutation_p.P696L|EPHB4_uc010lhj.1_Missense_Mutation_p.P789L	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	789	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					AATGGCCTCCGGGGCAGTCCA	0.577													4	128	---	---	---	---	PASS	A	100404160	A	A	100404160	3	1	38	1	0	0	0	0	1	0	0	0	5177	1116	39	1	613	1	EPHB4	7	100404160	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	19063349	100404160	58734503	75	15047										
RELN	5649	broad.mit.edu	37	chr7	103124226	103124226	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ctgccttgtccacagcgtggGggccactcaggtcactgttg	13	13	2	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr7:103124226G>A	uc003vca.2	-	62	10215	c.10055C>T	c.(10054-10056)CCC>CTC	p.P3352L	RELN_uc010liz.2_Missense_Mutation_p.P3352L	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3352					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CACAGCGTGGGGGCCACTCAG	0.507													63	86	---	---	---	---	PASS	A	103124226	A	A	103124226	3	1	38	1	0	0	0	0	1	0	0	0	13220	1232	43	3	343	3	RELN	7	103124226	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	2720066	103124226	56014437	76	15048										
GPR37	2861	broad.mit.edu	37	chr7	124386657	124386657	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggcgagagttcgagttccgtGgtgtactcgttgtcattgtc	14	8	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr7:124386657G>T	uc003vli.2	-	2	2415	c.1764C>A	c.(1762-1764)ACC>ACA	p.T588T		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	588	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CGAGTTCCGTGGTGTACTCGT	0.502													4	194	---	---	---	---	PASS	T	124386657	T	T	124386657	2	4	38	1	0	0	0	0	0	0	0	1	6691	1335	47	3		3	GPR37	7	124386657	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	21262431	124386657	34752006	77	15049										
OR2A25	392138	broad.mit.edu	37	chr7	143771467	143771467	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggggctcatctcactggactCcagactccacacccccatgt	8	17	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr7:143771467C>T	uc011ktx.1	+	1	155	c.155C>T	c.(154-156)TCC>TTC	p.S52F		NM_001004488	NP_001004488	A4D2G3	O2A25_HUMAN	olfactory receptor, family 2, subfamily A,	52	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					TCACTGGACTCCAGACTCCAC	0.572													42	77	---	---	---	---	PASS	T	143771467	T	T	143771467	3	4	38	1	0	0	0	0	1	0	0	0	10978	855	30	2	157	2	OR2A25	7	143771467	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	19384810	143771467	15367196	78	15050			2	17		3	3	369	C		3.884221e-06
OR2A25	392138	broad.mit.edu	37	chr7	143771729	143771729	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	accatcatgacctggaaagtCtgcatcactttggcattgac	8	11	3	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr7:143771729C>T	uc011ktx.1	+	1	417	c.417C>T	c.(415-417)GTC>GTT	p.V139V		NM_001004488	NP_001004488	A4D2G3	O2A25_HUMAN	olfactory receptor, family 2, subfamily A,	139	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					CCTGGAAAGTCTGCATCACTT	0.488													67	119	---	---	---	---	PASS	T	143771729	T	T	143771729	2	4	38	1	0	0	0	0	0	0	0	1	10978	900	32	2		2	OR2A25	7	143771729	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	262	143771729	15366934	79	15051			2	17		3	3	369	C		3.884221e-06
OR2A25	392138	broad.mit.edu	37	chr7	143771835	143771835	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gtggaccccagaaacttaatCactttttctgtgaaattatg	7	8	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr7:143771835C>T	uc011ktx.1	+	1	523	c.523C>T	c.(523-525)CAC>TAC	p.H175Y		NM_001004488	NP_001004488	A4D2G3	O2A25_HUMAN	olfactory receptor, family 2, subfamily A,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					GAAACTTAATCACTTTTTCTG	0.463													56	146	---	---	---	---	PASS	T	143771835	T	T	143771835	3	4	38	1	0	0	0	0	1	0	0	0	10978	826	29	2	525	2	OR2A25	7	143771835	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	106	143771835	15366828	80	15052			2	17		3	3	369	C		3.884221e-06
DPP6	1804	broad.mit.edu	37	chr7	154595609	154595609	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gacaacatccagtccatcacCtccggggactgggacgtgac	11	14	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr7:154595609C>T	uc003wlk.2	+	14	1572	c.1443C>T	c.(1441-1443)ACC>ACT	p.T481T	DPP6_uc003wli.2_Silent_p.T417T|DPP6_uc003wlm.2_Silent_p.T419T|DPP6_uc011kvq.1_Silent_p.T374T	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	481	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			AGTCCATCACCTCCGGGGACT	0.572													11	9	---	---	---	---	PASS	T	154595609	T	T	154595609	2	4	38	1	0	0	0	0	0	0	0	1	4730	668	24	3		3	DPP6	7	154595609	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	10823774	154595609	4543054	81	15053										
RAB11FIP1	80223	broad.mit.edu	37	chr8	37729089	37729089	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cttggactcccatttcccatCggtttttcttcctcaccacc	4	17	2	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr8:37729089C>A	uc003xkm.1	-	4	3275	c.3231G>T	c.(3229-3231)CCG>CCT	p.P1077P	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Silent_p.P406P|RAB11FIP1_uc003xko.1_Silent_p.P406P|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	1077					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			CATTTCCCATCGGTTTTTCTT	0.542											OREG0018713	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	729	---	---	---	---	PASS	A	37729089	A	A	37729089	2	1	38	1	0	0	0	0	0	0	0	1	12893	871	31	2		2	RAB11FIP1	8	37729089	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08		37729089	108634933	82	15054										
CHD7	55636	broad.mit.edu	37	chr8	61707586	61707586	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agcaagtgctttgaagaaaaAggtcaacaagggaaaaacag	11	5	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr8:61707586A>C	uc003xue.2	+	4	2615	c.2138A>C	c.(2137-2139)AAG>ACG	p.K713T		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	713	Lys-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	p.556_871dup(1)		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)			TTGAAGAAAAAGGTCAACAAG	0.408													35	66	---	---	---	---	PASS	C	61707586	C	C	61707586	3	2	38	1	0	0	0	0	1	0	0	0	3330	72	3	5	2148	5	CHD7	8	61707586	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	23978497	61707586	84656436	83	15055										
ATP6V1C1	528	broad.mit.edu	37	chr8	104054576	104054576	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttttccttttaggttggcacGttggatgtcttggttggctt	12	6	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr8:104054576G>T	uc003ykz.3	+	3	386	c.141G>T	c.(139-141)ACG>ACT	p.T47T	ATP6V1C1_uc010mbz.2_5'UTR|ATP6V1C1_uc003yla.2_Silent_p.T47T|ATP6V1C1_uc011lhl.1_Intron	NM_001695	NP_001686	P21283	VATC1_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit	47					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|plasma membrane|proton-transporting V-type ATPase, V1 domain	protein binding|proton-transporting ATPase activity, rotational mechanism				0	Lung NSC(17;0.000427)|all_lung(17;0.000533)		OV - Ovarian serous cystadenocarcinoma(57;3.57e-05)|STAD - Stomach adenocarcinoma(118;0.133)			AGGTTGGCACGTTGGATGTCT	0.358													47	131	---	---	---	---	PASS	T	104054576	T	T	104054576	2	4	38	1	0	0	0	0	0	0	0	1	1180	1132	40	1		1	ATP6V1C1	8	104054576	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	42346990	104054576	42309446	84	15056										
ADAMTSL1	92949	broad.mit.edu	37	chr9	18826299	18826299	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	taggagtgcctgaagctgaaGtcacttggttcaggaataaa	12	6	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr9:18826299G>T	uc003zne.3	+	22	4079	c.3952G>T	c.(3952-3954)GTC>TTC	p.V1318F	ADAMTSL1_uc003znf.3_Missense_Mutation_p.V19F	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	1318	Ig-like C2-type 3.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		TGAAGCTGAAGTCACTTGGTT	0.483													15	5	---	---	---	---	PASS	T	18826299	T	T	18826299	3	4	38	1	0	0	0	0	1	0	0	0	274	1029	36	3	4042	3	ADAMTSL1	9	18826299	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08		18826299	122387132	85	15057										
ADAMTSL1	92949	broad.mit.edu	37	chr9	18826395	18826395	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tgtcctcctcggatcagggcCtgtactcctgcagggcggcc	13	15	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr9:18826395C>A	uc003zne.3	+	22	4175	c.4048C>A	c.(4048-4050)CTG>ATG	p.L1350M	ADAMTSL1_uc003znf.3_Missense_Mutation_p.L51M	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	1350	Ig-like C2-type 3.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		GGATCAGGGCCTGTACTCCTG	0.557													3	30	---	---	---	---	PASS	A	18826395	A	A	18826395	3	1	38	1	0	0	0	0	1	0	0	0	274	680	24	3	4138	3	ADAMTSL1	9	18826395	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	96	18826395	122387036	86	15058										
PPP3R2	5535	broad.mit.edu	37	chr9	104356829	104356829	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agctgctggagctgccagtcCgtcaggttgttgcccaccat	12	13	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr9:104356829C>G	uc004bbr.2	-	1	455	c.384G>C	c.(382-384)ACG>ACC	p.T128T	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_RNA	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	125							calcium ion binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	GCTGCCAGTCCGTCAGGTTGT	0.507													68	37	---	---	---	---	PASS	G	104356829	G	G	104356829	2	3	38	1	0	0	0	0	0	0	0	1	12401	639	23	4		4	PPP3R2	9	104356829	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	85530434	104356829	36856602	87	15059										
TLR4	7099	broad.mit.edu	37	chr9	120475813	120475813	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttcaatggcatcttcaatggCttgtccagtctcgaagtctt	8	10	5	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr9:120475813C>A	uc004bjz.2	+	3	1698	c.1407C>A	c.(1405-1407)GGC>GGA	p.G469G	TLR4_uc004bka.2_Silent_p.G429G|TLR4_uc004bkb.2_Silent_p.G269G	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	469	Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TCTTCAATGGCTTGTCCAGTC	0.418													61	124	---	---	---	---	PASS	A	120475813	A	A	120475813	2	1	38	1	0	0	0	0	0	0	0	1	15950	784	28	3		3	TLR4	9	120475813	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	16118984	120475813	20737618	88	15060										
TUBAL3	79861	broad.mit.edu	37	chr10	5435992	5435992	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gacgatgggggcgaaggctgTcatggggaaatgtattctcg	17	6	2	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:5435992T>C	uc001ihy.2	-	4	869	c.829A>G	c.(829-831)ACA>GCA	p.T277A	TUBAL3_uc001ihz.2_Missense_Mutation_p.T237A	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	277					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						GCGAAGGCTGTCATGGGGAAA	0.517													84	107	---	---	---	---	PASS	C	5435992	C	C	5435992	3	2	38	1	0	0	0	0	1	0	0	0	16748	1667	58	5	515	5	TUBAL3	10	5435992	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08		5435992	130098755	89	15061										
CUBN	8029	broad.mit.edu	37	chr10	17130187	17130187	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	aggtaatctttgttgcagtcAtcatggtgctcgaggctcaa	11	8	4	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:17130187A>T	uc001ioo.2	-	15	1975	c.1923T>A	c.(1921-1923)GAT>GAA	p.D641E		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	641	CUB 2.				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)	TGTTGCAGTCATCATGGTGCT	0.418													19	52	---	---	---	---	PASS	T	17130187	T	T	17130187	3	4	38	1	0	0	0	0	1	0	0	0	4051	214	8	5	9160	5	CUBN	10	17130187	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	11694195	17130187	118404560	90	15062										
NEBL	10529	broad.mit.edu	37	chr10	21112199	21112199	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tggaggatcagaaatggctgTtgcatgtttaatctcttctt	10	6	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:21112199T>C	uc001iqi.2	-	19	2297	c.1900A>G	c.(1900-1902)ACA>GCA	p.T634A	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_RNA	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	634	Nebulin 17.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						GAAATGGCTGTTGCATGTTTA	0.274													33	45	---	---	---	---	PASS	C	21112199	C	C	21112199	3	2	38	1	0	0	0	0	1	0	0	0	10303	1725	60	5	1184	5	NEBL	10	21112199	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	3982012	21112199	114422548	91	15063										
GPR158	57512	broad.mit.edu	37	chr10	25878045	25878045	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gttgcagttcacaatgagctCatcatctctgctatattcca	6	11	4	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:25878045C>A	uc001isj.2	+	8	1923	c.1863C>A	c.(1861-1863)CTC>CTA	p.L621L		NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	621	Helical; Name=6; (Potential).			ELIISAIFHTI -> SWIVNSMNSHF (in Ref. 3).		integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						ACAATGAGCTCATCATCTCTG	0.398													35	55	---	---	---	---	PASS	A	25878045	A	A	25878045	2	1	38	1	0	0	0	0	0	0	0	1	6663	813	29	2		2	GPR158	10	25878045	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	4765846	25878045	109656702	92	15064										
LYZL1	84569	broad.mit.edu	37	chr10	29581497	29581497	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tacaacaccacagcccagacGgtcctggatgacggcagcat	10	14	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:29581497G>C	uc001iul.2	+	3	384	c.327G>C	c.(325-327)ACG>ACC	p.T109T		NM_032517	NP_115906	Q6UWQ5	LYZL1_HUMAN	lysozyme-like 1	63					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Breast(68;0.203)				CAGCCCAGACGGTCCTGGATG	0.552													10	50	---	---	---	---	PASS	C	29581497	C	C	29581497	2	2	38	1	0	0	0	0	0	0	0	1	9131	1103	39	4		4	LYZL1	10	29581497	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	3703452	29581497	105953250	93	15065										
PGBD3	267004	broad.mit.edu	37	chr10	50725112	50725112	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	acttgcttctatgctgtcatCtgtctctaaaaggtcagtta	7	9	5	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:50725112C>A	uc001jht.2	-	2	304	c.49G>T	c.(49-51)GAT>TAT	p.D17Y	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Missense_Mutation_p.D485Y|PGBD3_uc001jhu.2_Missense_Mutation_p.D485Y	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	17										pancreas(1)|breast(1)|skin(1)	3						ATGCTGTCATCTGTCTCTAAA	0.393													67	129	---	---	---	---	PASS	A	50725112	A	A	50725112	3	1	38	1	0	0	0	0	1	0	0	0	11782	913	32	2	1736	2	PGBD3	10	50725112	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	21143615	50725112	84809635	94	15066										
ANK3	288	broad.mit.edu	37	chr10	61932103	61932103	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cttcggtcactatcttcaggGtgtccactactgagatgtag	10	10	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:61932103G>A	uc001jky.2	-	21	2633	c.2441C>T	c.(2440-2442)ACC>ATC	p.T814I	ANK3_uc001jkx.2_5'UTR|ANK3_uc010qih.1_Missense_Mutation_p.T797I|ANK3_uc001jkz.3_Missense_Mutation_p.T808I|ANK3_uc001jlb.1_Missense_Mutation_p.T343I|ANK3_uc001jlc.1_Missense_Mutation_p.T475I	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	814	ANK 23.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TATCTTCAGGGTGTCCACTAC	0.488													33	54	---	---	---	---	PASS	A	61932103	A	A	61932103	3	1	38	1	0	0	0	0	1	0	0	0	622	1261	44	3	11117	3	ANK3	10	61932103	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	11206991	61932103	73602644	95	15067										
CDK1	983	broad.mit.edu	37	chr10	62553719	62553719	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttaatgatttggacaatcagAttaagaagatgtagctttct	8	4	2	4			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:62553719A>G	uc001jld.2	+	8	1014	c.880A>G	c.(880-882)ATT>GTT	p.I294V	CDK1_uc001jle.2_RNA|CDK1_uc001jlf.2_Missense_Mutation_p.I294V|CDK1_uc001jlg.2_Missense_Mutation_p.I237V	NM_001786	NP_001777	P06493	CDK1_HUMAN	cell division cycle 2 isoform 1	294					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						GGACAATCAGATTAAGAAGAT	0.294													10	121	---	---	---	---	PASS	G	62553719	G	G	62553719	3	3	38	1	0	0	0	0	1	0	0	0	3124	333	12	5	918	5	CDK1	10	62553719	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	621616	62553719	72981028	96	15068										
ANKRD1	27063	broad.mit.edu	37	chr10	92675931	92675931	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	aggagaagaaggaataccttAtctcgggcgctaatttttgc	11	7	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:92675931A>G	uc001khe.1	-	6	896	c.648T>C	c.(646-648)GAT>GAC	p.D216D		NM_014391	NP_055206	Q15327	ANKR1_HUMAN	cardiac ankyrin repeat protein	216					cellular lipid metabolic process|defense response|signal transduction		DNA binding				0		Colorectal(252;0.0475)				GGAATACCTTATCTCGGGCGC	0.294													34	59	---	---	---	---	PASS	G	92675931	G	G	92675931	2	3	38	1	0	0	0	0	0	0	0	1	637	446	16	5		5	ANKRD1	10	92675931	Silent	SNP	A	TCGA-22-4601-01A-01D-1441-08	30122212	92675931	42858816	97	15069										
PLCE1	51196	broad.mit.edu	37	chr10	95987096	95987096	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tgacatggctgatcctcacgGcaggctccatggaggagaag	14	10	1	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:95987096G>A	uc001kjk.2	+	5	2477	c.1843G>A	c.(1843-1845)GCA>ACA	p.A615T	PLCE1_uc010qnx.1_Missense_Mutation_p.A615T|PLCE1_uc001kjm.2_Missense_Mutation_p.A307T	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	615	Ras-GEF.				activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GATCCTCACGGCAGGCTCCAT	0.473													4	70	---	---	---	---	PASS	A	95987096	A	A	95987096	3	1	38	1	0	0	0	0	1	0	0	0	12034	1203	42	3	2143	3	PLCE1	10	95987096	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	3311165	95987096	39547651	98	15070										
PNLIPRP3	119548	broad.mit.edu	37	chr10	118220511	118220511	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tgggccatttttccacaacaCtccaaaggaagtcaggctag	9	11	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:118220511C>A	uc001lcl.3	+	6	700	c.599C>A	c.(598-600)ACT>AAT	p.T200N		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	200					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		TTCCACAACACTCCAAAGGAA	0.443													35	104	---	---	---	---	PASS	A	118220511	A	A	118220511	3	1	38	1	0	0	0	0	1	0	0	0	12152	565	20	3	621	3	PNLIPRP3	10	118220511	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	22233415	118220511	17314236	99	15071										
CUZD1	50624	broad.mit.edu	37	chr10	124596492	124596492	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cggccacagacttgtccaatCaggccagagttggtggaggg	15	10	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:124596492C>T	uc001lgq.2	-	5	1004	c.672G>A	c.(670-672)CTG>CTA	p.L224L	CUZD1_uc001lgp.2_5'UTR|CUZD1_uc009yad.2_5'UTR|CUZD1_uc009yaf.2_Intron|CUZD1_uc001lgr.2_5'UTR|CUZD1_uc010qty.1_Intron|CUZD1_uc009yae.2_Intron|CUZD1_uc001lgs.2_Silent_p.L224L|CUZD1_uc010qtz.1_Silent_p.L224L	NM_022034	NP_071317	Q86UP6	CUZD1_HUMAN	CUB and zona pellucida-like domains 1 precursor	224	Extracellular (Potential).|CUB 2.				cell cycle|cell division|cell proliferation|substrate-dependent cell migration, cell attachment to substrate|trypsinogen activation	integral to membrane|transport vesicle membrane|zymogen granule membrane				ovary(1)|skin(1)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.126)|COAD - Colon adenocarcinoma(40;0.141)		CTTGTCCAATCAGGCCAGAGT	0.468													4	71	---	---	---	---	PASS	T	124596492	T	T	124596492	2	4	38	1	0	0	0	0	0	0	0	1	4066	813	29	2		2	CUZD1	10	124596492	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	6375981	124596492	10938255	100	15072										
CYP2E1	1571	broad.mit.edu	37	chr10	135345141	135345141	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gacatccggcggttttccctGaccaccctccggaactatgg	10	15	0	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr10:135345141G>T	uc001lnj.1	+	3	423	c.390G>T	c.(388-390)CTG>CTT	p.L130L	CYP2E1_uc001lnk.1_5'UTR|CYP2E1_uc009ybl.1_Intron|CYP2E1_uc009ybm.1_5'UTR|CYP2E1_uc001lnl.1_5'UTR	NM_000773	NP_000764	P05181	CP2E1_HUMAN	cytochrome P450, family 2, subfamily E,	130					drug metabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|enzyme binding|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen|oxygen binding			central_nervous_system(3)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)	Acetaminophen(DB00316)|Chlorzoxazone(DB00356)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Dacarbazine(DB00851)|Dapsone(DB00250)|Enflurane(DB00228)|Eszopiclone(DB00402)|Ethanol(DB00898)|Ethosuximide(DB00593)|Fomepizole(DB01213)|Glutathione(DB00143)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Isoniazid(DB00951)|Menadione(DB00170)|Mephenytoin(DB00532)|Methoxyflurane(DB01028)|Midazolam(DB00683)|Mitoxantrone(DB01204)|Nicotine(DB00184)|Nifedipine(DB01115)|Nitrofurantoin(DB00698)|Orphenadrine(DB01173)|Phenelzine(DB00780)|Quinidine(DB00908)|S-Adenosylmethionine(DB00118)|Sevoflurane(DB01236)|Theophylline(DB00277)|Tolbutamide(DB01124)	GGTTTTCCCTGACCACCCTCC	0.532									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				63	85	---	---	---	---	PASS	T	135345141	T	T	135345141	2	4	38	1	0	0	0	0	0	0	0	1	4170	1277	45	2		2	CYP2E1	10	135345141	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	10748649	135345141	189606	101	15073										
CARS	833	broad.mit.edu	37	chr11	3078590	3078590	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	caccctgctgcccggaggaaTctgccatggctgggaatccc	12	15	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:3078590T>C	uc001lxh.2	-	1	82	c.8A>G	c.(7-9)GAT>GGT	p.D3G	CARS_uc001lxe.2_5'UTR|CARS_uc001lxf.2_Missense_Mutation_p.D3G|CARS_uc001lxg.2_Missense_Mutation_p.D3G|CARS_uc010qxo.1_Missense_Mutation_p.D3G|CARS_uc010qxp.1_5'UTR	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	3					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	CCCGGAGGAATCTGCCATGGC	0.726			T	ALK	ALCL								4	3	---	---	---	---	PASS	C	3078590	C	C	3078590	3	2	38	1	0	0	0	0	1	0	0	0	2657	1435	50	5	2634	5	CARS	11	3078590	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08		3078590	131927926	102	15074										
MRGPRE	116534	broad.mit.edu	37	chr11	3249739	3249739	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	aagcgcagcgttgccaggctGgtctgcacgaagcccgggaa	15	12	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:3249739G>C	uc001lxq.3	-	2	598	c.288C>G	c.(286-288)ACC>ACG	p.T96T		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	96	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		Medulloblastoma(188;0.00106)|all_epithelial(84;0.00111)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00529)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTGCCAGGCTGGTCTGCACGA	0.662													6	31	---	---	---	---	PASS	C	3249739	C	C	3249739	2	2	38	1	0	0	0	0	0	0	0	1	9764	1335	47	4		4	MRGPRE	11	3249739	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	171149	3249739	131756777	103	15075										
OR51M1	390059	broad.mit.edu	37	chr11	5411481	5411481	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agcatgccccacctgctattCatcttcttatggccaatgtc	6	14	3	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:5411481C>G	uc010qzc.1	+	1	853	c.853C>G	c.(853-855)CAT>GAT	p.H285D	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,	285						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)		ACCTGCTATTCATCTTCTTAT	0.493													18	21	---	---	---	---	PASS	G	5411481	G	G	5411481	3	3	38	1	0	0	0	0	1	0	0	0	11103	826	29	2	855	2	OR51M1	11	5411481	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	2161742	5411481	129595035	104	15076										
OR52B6	340980	broad.mit.edu	37	chr11	5602719	5602719	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gtgagcacatgggcattgccCatctgtcctgttctgatatc	10	11	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:5602719C>A	uc010qzi.1	+	1	613	c.613C>A	c.(613-615)CAT>AAT	p.H205N	HBG2_uc001mak.1_Intron	NM_001005162	NP_001005162	Q8NGF0	O52B6_HUMAN	olfactory receptor, family 52, subfamily B,	205	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;3.56e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGGCATTGCCCATCTGTCCTG	0.443													76	191	---	---	---	---	PASS	A	5602719	A	A	5602719	3	1	38	1	0	0	0	0	1	0	0	0	11113	594	21	3	615	3	OR52B6	11	5602719	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	191238	5602719	129403797	105	15077										
OR52N1	79473	broad.mit.edu	37	chr11	5809819	5809819	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gtgttgggaagggtgctggtGcacatgagcacatctgtgaa	16	6	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:5809819G>T	uc010qzo.1	-	1	228	c.228C>A	c.(226-228)TGC>TGA	p.C76*	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001913	NP_001001913	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N,	76	Helical; Name=2; (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)		GGGTGCTGGTGCACATGAGCA	0.463													34	72	---	---	---	---	PASS	T	5809819	T	T	5809819	4	4	38	1	0	0	0	0	0	1	0	0	11127	1311	46	3	737	3	OR52N1	11	5809819	Nonsense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	207100	5809819	129196697	106	15078										
OLFML1	283298	broad.mit.edu	37	chr11	7509427	7509427	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tccaagagttctcaaaaaatAtatctgtcatgctgggaaga	8	7	3	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:7509427A>G	uc001mfi.2	+	2	551	c.199A>G	c.(199-201)ATA>GTA	p.I67V	uc001mff.1_Intron|OLFML1_uc001mfh.1_Missense_Mutation_p.I67V|OLFML1_uc010raz.1_Intron|OLFML1_uc010rba.1_Missense_Mutation_p.I67V	NM_198474	NP_940876	Q6UWY5	OLFL1_HUMAN	olfactomedin-like 1 precursor	67						extracellular region				ovary(2)	2				Epithelial(150;6.96e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		CTCAAAAAATATATCTGTCAT	0.418													32	37	---	---	---	---	PASS	G	7509427	G	G	7509427	3	3	38	1	0	0	0	0	1	0	0	0	10856	449	16	5	205	5	OLFML1	11	7509427	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	1699608	7509427	127497089	107	15079										
OR5P2	120065	broad.mit.edu	37	chr11	7817568	7817568	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	actaaaataacaagcatcatGagaaagtatttttctaacaa	4	6	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:7817568G>A	uc001mfp.1	-	1	922	c.922C>T	c.(922-924)CAT>TAT	p.H308Y		NM_153444	NP_703145	Q8WZ92	OR5P2_HUMAN	olfactory receptor, family 5, subfamily P,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CAAGCATCATGAGAAAGTATT	0.388													92	111	---	---	---	---	PASS	A	7817568	A	A	7817568	3	1	38	1	0	0	0	0	1	0	0	0	11178	1290	45	2	50	2	OR5P2	11	7817568	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	308141	7817568	127188948	108	15080										
SOX6	55553	broad.mit.edu	37	chr11	15994598	15994598	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gatggtgtggtagttgccatAgtgatagcaccaggatacac	13	7	0	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:15994598A>C	uc001mme.2	-	16	2316	c.2283T>G	c.(2281-2283)ACT>ACG	p.T761T	SOX6_uc001mmd.2_Silent_p.T724T|SOX6_uc001mmf.2_Silent_p.T721T|SOX6_uc001mmg.2_Silent_p.T728T	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	748					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						TAGTTGCCATAGTGATAGCAC	0.502													24	56	---	---	---	---	PASS	C	15994598	C	C	15994598	2	2	38	1	0	0	0	0	0	0	0	1	14955	407	15	5		5	SOX6	11	15994598	Silent	SNP	A	TCGA-22-4601-01A-01D-1441-08	8177030	15994598	119011918	109	15081										
OR5L1	219437	broad.mit.edu	37	chr11	55579262	55579262	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	attctacttgttttgcacttGtgtggtcactgaggtcttcc	9	9	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:55579262G>A	uc001nhw.1	+	1	320	c.320G>A	c.(319-321)TGT>TAT	p.C107Y		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	107	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				TTTTGCACTTGTGTGGTCACT	0.463													67	138	---	---	---	---	PASS	A	55579262	A	A	55579262	3	1	38	1	0	0	0	0	1	0	0	0	11170	1377	48	3	322	3	OR5L1	11	55579262	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	39584664	55579262	79427254	110	15082										
OR5B2	390190	broad.mit.edu	37	chr11	58189942	58189942	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cattttgtctgtgtccatggAgtggctggagctgggctgca	15	8	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:58189942A>T	uc010rkg.1	-	1	793	c.793T>A	c.(793-795)TCC>ACC	p.S265T		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GTGTCCATGGAGTGGCTGGAG	0.498													37	59	---	---	---	---	PASS	T	58189942	T	T	58189942	3	4	38	1	0	0	0	0	1	0	0	0	11150	304	11	5	140	5	OR5B2	11	58189942	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	2610680	58189942	76816574	111	15083										
EEF1G	1937	broad.mit.edu	37	chr11	62334908	62334908	+	Frame_Shift_Del	DEL	G	-	-													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttctcacacagtttcacttcGcccaagacagcccggaactg					rs1061093	by1000genomes	TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:62334908delG	uc001ntm.1	-	6	761	c.615delC	c.(613-615)GGCfs	p.G205fs	EEF1G_uc010rlw.1_Frame_Shift_Del_p.G255fs|EEF1G_uc001ntn.1_Frame_Shift_Del_p.G85fs	NM_001404	NP_001395	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1	205	GST C-terminal.				response to virus	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						GTTTCACTTCGCCCAAGACAG	0.557													27	12	---	---	---	---		-	62334908	-	-	62334908	7	5	38	1	0	1	0	1	0	0	0	0	4928	1074	38	0	718	0	EEF1G	11	62334908	Frame_Shift_Del	DEL	G	TCGA-22-4601-01A-01D-1441-08	4144966	62334908	72671608	112	15084										
NAALADL1	10004	broad.mit.edu	37	chr11	64825641	64825641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gagtccaggcctgactctggGtccttccagcgctgcagcag	13	14	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:64825641G>T	uc001ocn.2	-	2	283	c.267C>A	c.(265-267)GAC>GAA	p.D89E	NAALADL1_uc010rnw.1_5'UTR	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	89	Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						CTGACTCTGGGTCCTTCCAGC	0.662													20	21	---	---	---	---	PASS	T	64825641	T	T	64825641	3	4	38	1	0	0	0	0	1	0	0	0	10129	1252	44	3	2023	3	NAALADL1	11	64825641	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	2490733	64825641	70180875	113	15085										
LTBP3	4054	broad.mit.edu	37	chr11	65325130	65325130	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gccggagcccgtgagcgtgtCtgtgctgtggccgttctctc	15	13	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:65325130C>A	uc001oej.2	-	1	570	c.301G>T	c.(301-303)GAC>TAC	p.D101Y	LTBP3_uc010roi.1_5'UTR|LTBP3_uc001oei.2_Missense_Mutation_p.D101Y|LTBP3_uc010roj.1_Missense_Mutation_p.D87Y|LTBP3_uc010rok.1_Missense_Mutation_p.D12Y	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	101	Gly-rich.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						GTGAGCGTGTCTGTGCTGTGG	0.682													25	40	---	---	---	---	PASS	A	65325130	A	A	65325130	3	1	38	1	0	0	0	0	1	0	0	0	9075	913	32	2	3722	2	LTBP3	11	65325130	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	499489	65325130	69681386	114	15086										
KRTAP5-7	440050	broad.mit.edu	37	chr11	71238460	71238460	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggctccagctgctgtgtgccCgtctgctgctgcaagcccgt	13	15	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:71238460C>A	uc001oqq.1	+	1	148	c.114C>A	c.(112-114)CCC>CCA	p.P38P		NM_001012503	NP_001012521	Q6L8G8	KRA57_HUMAN	keratin associated protein 5-7	38	1.|7 X 4 AA repeats of C-C-X-P.					keratin filament					0						GCTGTGTGCCCGTCTGCTGCT	0.687													55	87	---	---	---	---	PASS	A	71238460	A	A	71238460	2	1	38	1	0	0	0	0	0	0	0	1	8566	639	23	1		1	KRTAP5-7	11	71238460	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	5913330	71238460	63768056	115	15087										
C2CD3	26005	broad.mit.edu	37	chr11	73811639	73811639	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gcttgtcctgtcctgggctcCgcaccttattccaagtttca	8	14	1	0	rs143196767	by1000genomes	TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:73811639C>T	uc001ouu.2	-	15	2890	c.2663G>A	c.(2662-2664)CGG>CAG	p.R888Q		NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	888						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					TCCTGGGCTCCGCACCTTATT	0.438													7	111	---	---	---	---	PASS	T	73811639	T	T	73811639	3	4	38	1	0	0	0	0	1	0	0	0	2154	652	23	1	3296	1	C2CD3	11	73811639	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	2573179	73811639	61194877	116	15088										
C2CD3	26005	broad.mit.edu	37	chr11	73825470	73825470	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttaggtggtggaccagcataGctttttttgccaggggtcat	13	7	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:73825470G>C	uc001ouu.2	-	10	1916	c.1689C>G	c.(1687-1689)AGC>AGG	p.S563R	C2CD3_uc001ouv.2_Missense_Mutation_p.S563R	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	563						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					GACCAGCATAGCTTTTTTTGC	0.433													30	44	---	---	---	---	PASS	C	73825470	C	C	73825470	3	2	38	1	0	0	0	0	1	0	0	0	2154	962	34	4	4290	4	C2CD3	11	73825470	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	13831	73825470	61181046	117	15089										
KDM4D	55693	broad.mit.edu	37	chr11	94731717	94731717	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gcctatggctgcccgcagtgGgacacggtgccacacccttg	13	15	0	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:94731717G>A	uc001pfe.2	+	3	2013	c.1181G>A	c.(1180-1182)GGG>GAG	p.G394E		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	394					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GCCCGCAGTGGGACACGGTGC	0.632													10	41	---	---	---	---	PASS	A	94731717	A	A	94731717	3	1	38	1	0	0	0	0	1	0	0	0	8131	1232	43	3	1183	3	KDM4D	11	94731717	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	20906247	94731717	40274799	118	15090										
GRIA4	2893	broad.mit.edu	37	chr11	105732909	105732909	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tgtaatagactgtgagatagAgagacttcaaaacatattag	9	4	1	4			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:105732909A>C	uc001pix.2	+	5	1093	c.647A>C	c.(646-648)GAG>GCG	p.E216A	GRIA4_uc001piu.1_Missense_Mutation_p.E216A|GRIA4_uc001piw.2_Missense_Mutation_p.E216A|GRIA4_uc001piv.2_Missense_Mutation_p.E216A|GRIA4_uc009yxk.1_Missense_Mutation_p.E216A	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	216	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	TGTGAGATAGAGAGACTTCAA	0.333													26	38	---	---	---	---	PASS	C	105732909	C	C	105732909	3	2	38	1	0	0	0	0	1	0	0	0	6770	304	11	5	661	5	GRIA4	11	105732909	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	11001192	105732909	29273607	119	15091										
DSCAML1	57453	broad.mit.edu	37	chr11	117329603	117329603	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	acccgctcccgcgtggtggtGatgttctgcatctcgcccca	11	16	2	1	rs150002652		TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr11:117329603G>C	uc001prh.1	-	19	3617	c.3615C>G	c.(3613-3615)ATC>ATG	p.I1205M		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1145	Fibronectin type-III 3.|Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GCGTGGTGGTGATGTTCTGCA	0.657													48	124	---	---	---	---	PASS	C	117329603	C	C	117329603	3	2	38	1	0	0	0	0	1	0	0	0	4769	1280	45	2	2786	2	DSCAML1	11	117329603	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	11596694	117329603	17676913	120	15092										
FOXM1	2305	broad.mit.edu	37	chr12	2968732	2968732	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cctccttgatagtctgaactGgaagcaaaggagaaaaccct	9	10	1	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:2968732G>A	uc001qlf.2	-	9	1629	c.1364C>T	c.(1363-1365)CCA>CTA	p.P455L	uc001qld.2_RNA|FOXM1_uc001qle.2_Missense_Mutation_p.P493L|FOXM1_uc001qlg.2_Missense_Mutation_p.P440L|FOXM1_uc009zea.2_Missense_Mutation_p.P440L|FOXM1_uc009zeb.2_Missense_Mutation_p.P439L	NM_021953	NP_068772	Q08050	FOXM1_HUMAN	forkhead box M1 isoform 2	455					cell cycle|embryo development|liver development|negative regulation of cell aging|negative regulation of stress-activated MAPK cascade|negative regulation of transcription from RNA polymerase II promoter|pattern specification process|positive regulation of cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of cell growth|regulation of cell proliferation|regulation of oxygen and reactive oxygen species metabolic process|regulation of Ras protein signal transduction|regulation of reactive oxygen species metabolic process|regulation of sequence-specific DNA binding transcription factor activity|tissue development|transcription from RNA polymerase II promoter|vasculogenesis	cytoplasm|transcription factor complex	DNA bending activity|DNA binding|DNA binding|double-stranded DNA binding|promoter binding|protein binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|transcription factor binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.000622)			AGTCTGAACTGGAAGCAAAGG	0.532													16	142	---	---	---	---	PASS	A	2968732	A	A	2968732	3	1	38	1	0	0	0	0	1	0	0	0	6018	1348	47	3	931	3	FOXM1	12	2968732	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08		2968732	130883163	121	15093										
VWF	7450	broad.mit.edu	37	chr12	6182863	6182863	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ctggcaggtcctggcgcaagGggacacacactgcctatact	12	13	0	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:6182863G>A	uc001qnn.1	-	8	1169	c.919C>T	c.(919-921)CCT>TCT	p.P307S	VWF_uc010set.1_Missense_Mutation_p.P307S	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	307	TIL 1.				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)	CTGGCGCAAGGGGACACACAC	0.557													47	78	---	---	---	---	PASS	A	6182863	A	A	6182863	3	1	38	1	0	0	0	0	1	0	0	0	17243	1232	43	3	7702	3	VWF	12	6182863	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	3214131	6182863	127669032	122	15094										
CD163	9332	broad.mit.edu	37	chr12	7635988	7635988	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	caattcactgcagcgtcttcCttgtgcccacactcactatg	6	15	3	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:7635988C>T	uc001qsz.3	-	12	3191	c.3063G>A	c.(3061-3063)AAG>AAA	p.K1021K	CD163_uc001qta.3_Silent_p.K1021K|CD163_uc009zfw.2_Silent_p.K1054K	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	1021	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						CAGCGTCTTCCTTGTGCCCAC	0.527													23	30	---	---	---	---	PASS	T	7635988	T	T	7635988	2	4	38	1	0	0	0	0	0	0	0	1	2967	680	24	3		3	CD163	12	7635988	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	1453125	7635988	126215907	123	15095										
RIMKLB	57494	broad.mit.edu	37	chr12	8906535	8906535	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	caccatttggctgatctaagCcatcttattcgccatgaagc	7	12	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:8906535C>A	uc001quu.2	+	5	794	c.543C>A	c.(541-543)AGC>AGA	p.S181R	RIMKLB_uc009zgf.1_RNA|RIMKLB_uc001qux.2_Missense_Mutation_p.S181R|RIMKLB_uc010sgl.1_Missense_Mutation_p.S181R|RIMKLB_uc001quw.2_Missense_Mutation_p.S181R	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	181	ATP-grasp.|ATP (By similarity).				protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						CTGATCTAAGCCATCTTATTC	0.433													4	118	---	---	---	---	PASS	A	8906535	A	A	8906535	3	1	38	1	0	0	0	0	1	0	0	0	13366	738	26	3	557	3	RIMKLB	12	8906535	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	1270547	8906535	124945360	124	15096										
SLCO1C1	53919	broad.mit.edu	37	chr12	20876025	20876025	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tgttatttttgttttacagaTtttcttccatcactgaagaa	5	6	2	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:20876025T>C	uc001rej.3	+	10	1378	c.1023T>C	c.(1021-1023)GAT>GAC	p.D341D	SLCO1C1_uc010sii.1_Silent_p.D341D|SLCO1C1_uc010sij.1_Silent_p.D292D|SLCO1C1_uc009zip.2_Silent_p.D175D|SLCO1C1_uc001rei.2_Silent_p.D341D|SLCO1C1_uc010sik.1_Silent_p.D223D	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	341	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					GTTTTACAGATTTTCTTCCAT	0.413													45	85	---	---	---	---	PASS	C	20876025	C	C	20876025	2	2	38	1	0	0	0	0	0	0	0	1	14725	1507	52	5		5	SLCO1C1	12	20876025	Silent	SNP	T	TCGA-22-4601-01A-01D-1441-08	11969490	20876025	112975870	125	15097										
SLCO1A2	6579	broad.mit.edu	37	chr12	21457502	21457502	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	taatgatttaacttcctttgTacactctgcattaaaaaaaa	3	7	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:21457502T>C	uc001rer.2	-	5	699	c.448A>G	c.(448-450)ACA>GCA	p.T150A	SLCO1A2_uc001res.2_Missense_Mutation_p.T150A|SLCO1A2_uc010siq.1_Missense_Mutation_p.T18A|SLCO1A2_uc010sio.1_Missense_Mutation_p.T18A|SLCO1A2_uc010sip.1_Missense_Mutation_p.T18A|SLCO1A2_uc001ret.2_Missense_Mutation_p.T148A|SLCO1A2_uc001reu.2_Missense_Mutation_p.T130A	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	150	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						ACTTCCTTTGTACACTCTGCA	0.348													55	93	---	---	---	---	PASS	C	21457502	C	C	21457502	3	2	38	1	0	0	0	0	1	0	0	0	14722	1638	57	5	1604	5	SLCO1A2	12	21457502	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	581477	21457502	112394393	126	15098										
SLC2A13	114134	broad.mit.edu	37	chr12	40422284	40422284	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ccaaaaaactgtataaccgcCggaactgctgcaagtcccaa	7	13	0	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:40422284C>G	uc010skm.1	-	3	795	c.744G>C	c.(742-744)CCG>CCC	p.P248P	SLC2A13_uc001rmf.2_Silent_p.P248P	NM_052885	NP_443117	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose	248	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)				GTATAACCGCCGGAACTGCTG	0.413										HNSCC(50;0.14)			6	117	---	---	---	---	PASS	G	40422284	G	G	40422284	2	3	38	1	0	0	0	0	0	0	0	1	14542	639	23	4		4	SLC2A13	12	40422284	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	18964782	40422284	93429611	127	15099										
KRT76	51350	broad.mit.edu	37	chr12	53170493	53170493	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	caccttgtcgatgaaggaggCaaacttgttgttgagggtct	13	7	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:53170493C>A	uc001sax.2	-	1	637	c.583G>T	c.(583-585)GCC>TCC	p.A195S		NM_015848	NP_056932	Q01546	K22O_HUMAN	keratin 76	195	Coil 1A.|Rod.				cytoskeleton organization	keratin filament	structural molecule activity			breast(1)|skin(1)	2						ATGAAGGAGGCAAACTTGTTG	0.502													34	81	---	---	---	---	PASS	A	53170493	A	A	53170493	3	1	38	1	0	0	0	0	1	0	0	0	8489	710	25	3	1369	3	KRT76	12	53170493	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	12748209	53170493	80681402	128	15100										
LRP1	4035	broad.mit.edu	37	chr12	57573260	57573260	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gatgcccgcgagcagcgtgtGtactggtctgacgtgcggac	16	11	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:57573260G>A	uc001snd.2	+	29	5353	c.4887G>A	c.(4885-4887)GTG>GTA	p.V1629V		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1629	LDL-receptor class B 13.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	AGCAGCGTGTGTACTGGTCTG	0.587													22	43	---	---	---	---	PASS	A	57573260	A	A	57573260	2	1	38	1	0	0	0	0	0	0	0	1	8951	1364	48	3		3	LRP1	12	57573260	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	4402767	57573260	76278635	129	15101										
MON2	23041	broad.mit.edu	37	chr12	62960174	62960174	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tagttgtggatttataccaaAaaacagcgtgtcacaaagca	8	7	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:62960174A>G	uc001sre.2	+	29	4658	c.4267A>G	c.(4267-4269)AAA>GAA	p.K1423E	MON2_uc009zqj.2_Missense_Mutation_p.K1423E|MON2_uc010ssl.1_Missense_Mutation_p.K1351E|MON2_uc010ssm.1_Missense_Mutation_p.K1394E|MON2_uc010ssn.1_Missense_Mutation_p.K1417E|MON2_uc001srf.2_Missense_Mutation_p.K1186E|MON2_uc001srg.2_Missense_Mutation_p.K292E	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	1424					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		TTTATACCAAAAAACAGCGTG	0.363													83	112	---	---	---	---	PASS	G	62960174	G	G	62960174	3	3	38	1	0	0	0	0	1	0	0	0	9700	15	1	5	4381	5	MON2	12	62960174	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	5386914	62960174	70891721	130	15102										
ANKS1B	56899	broad.mit.edu	37	chr12	100166842	100166842	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttatttcatccaagagttttGataattctccagtgacggtt	7	7	2	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:100166842G>A	uc001tge.1	-	8	1403	c.986C>T	c.(985-987)TCA>TTA	p.S329L	ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Missense_Mutation_p.S295L	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	329						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		CAAGAGTTTTGATAATTCTCC	0.313													5	116	---	---	---	---	PASS	A	100166842	A	A	100166842	3	1	38	1	0	0	0	0	1	0	0	0	689	1294	45	2	3124	2	ANKS1B	12	100166842	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	37206668	100166842	33685053	131	15103										
TCHP	84260	broad.mit.edu	37	chr12	110342594	110342594	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	aaagaacaacccgaaacttcGagaggtgaaaatcagagatc	9	8	1	4			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:110342594G>T	uc001tpn.2	+	4	605	c.452G>T	c.(451-453)CGA>CTA	p.R151L	TCHP_uc001tpo.1_RNA|TCHP_uc001tpp.2_Missense_Mutation_p.R151L	NM_001143852	NP_001137324	Q9BT92	TCHP_HUMAN	trichoplein	151	Glu-rich.|Interaction with keratin proteins.				apoptosis|negative regulation of cell growth	apical cortex|centrosome|keratin filament|mitochondrion|plasma membrane	protein binding			skin(1)	1						CCGAAACTTCGAGAGGTGAAA	0.353													32	71	---	---	---	---	PASS	T	110342594	T	T	110342594	3	4	38	1	0	0	0	0	1	0	0	0	15699	1058	37	2	462	2	TCHP	12	110342594	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	10175752	110342594	23509301	132	15104										
C12orf51	283450	broad.mit.edu	37	chr12	112687950	112687950	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cactacacagcaacatacttTatacttggtctaaattgagg	6	9	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:112687950T>C	uc009zwc.2	-	18	2700	c.2682A>G	c.(2680-2682)ATA>ATG	p.I894M	C12orf51_uc010syk.1_Missense_Mutation_p.I716M|C12orf51_uc001tts.2_Missense_Mutation_p.I707M|C12orf51_uc001ttt.3_Missense_Mutation_p.I705M	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CAACATACTTTATACTTGGTC	0.373													23	20	---	---	---	---	PASS	C	112687950	C	C	112687950	3	2	38	1	0	0	0	0	1	0	0	0	1696	1744	61	5	9516	5	C12orf51	12	112687950	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	2345356	112687950	21163945	133	15105										
KDM2B	84678	broad.mit.edu	37	chr12	121958790	121958790	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agaagggaacctccttacccGcgtcctgtcctcgatctcgt	9	15	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr12:121958790G>T	uc001uat.2	-	9	1149	c.1045C>A	c.(1045-1047)CGG>AGG	p.R349R	KDM2B_uc001uas.2_Silent_p.R318R|KDM2B_uc001uau.2_Silent_p.R232R|KDM2B_uc001uav.3_Intron	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	349					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						CTCCTTACCCGCGTCCTGTCC	0.597													3	73	---	---	---	---	PASS	T	121958790	T	T	121958790	2	4	38	1	0	0	0	0	0	0	0	1	8125	1086	38	1		1	KDM2B	12	121958790	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	9270840	121958790	11893105	134	15106										
CCDC122	160857	broad.mit.edu	37	chr13	44433997	44433997	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	taatatgcattatattttatCatgtgttcctcaaaatcttc	3	7	3	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr13:44433997C>A	uc010acf.2	-	5	625	c.366G>T	c.(364-366)ATG>ATT	p.M122I	CCDC122_uc010tfn.1_Missense_Mutation_p.M122I	NM_144974	NP_659411	Q5T0U0	CC122_HUMAN	coiled-coil domain containing 122	122											0		Lung NSC(96;7.5e-06)|Breast(139;0.00765)|Hepatocellular(98;0.00826)|Prostate(109;0.0143)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000767)|BRCA - Breast invasive adenocarcinoma(63;0.128)		TATATTTTATCATGTGTTCCT	0.318													81	34	---	---	---	---	PASS	A	44433997	A	A	44433997	3	1	38	1	0	0	0	0	1	0	0	0	2758	826	29	2	467	2	CCDC122	13	44433997	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08		44433997	70735881	135	15107										
RB1	5925	broad.mit.edu	37	chr13	48934227	48934227	+	Frame_Shift_Del	DEL	A	-	-													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gtgtccttgactattttattAaactctcacctcccatgttg							TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr13:48934227delA	uc001vcb.2	+	7	848	c.682delA	c.(682-684)AAAfs	p.K228fs	RB1_uc010acs.1_RNA|RB1_uc010act.1_5'UTR	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	228					androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(5)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CTATTTTATTAAACTCTCACC	0.259		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			33	47	---	---	---	---		-	48934227	-	-	48934227	7	5	38	1	0	1	0	1	0	0	0	0	13098	363	13	0	708	0	RB1	13	48934227	Frame_Shift_Del	DEL	A	TCGA-22-4601-01A-01D-1441-08	4500230	48934227	66235651	136	15108										
PCDH17	27253	broad.mit.edu	37	chr13	58208864	58208864	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gccatgatcaccatcgccgtCaagtgcaagcgcgagaacaa	10	13	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr13:58208864C>G	uc001vhq.1	+	1	3076	c.2184C>G	c.(2182-2184)GTC>GTG	p.V728V	PCDH17_uc010aec.1_Silent_p.V728V	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	728	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CCATCGCCGTCAAGTGCAAGC	0.587													42	25	---	---	---	---	PASS	G	58208864	G	G	58208864	2	3	38	1	0	0	0	0	0	0	0	1	11512	813	29	2		2	PCDH17	13	58208864	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	9274637	58208864	56961014	137	15109										
SDR39U1	56948	broad.mit.edu	37	chr14	24909696	24909696	+	Frame_Shift_Del	DEL	C	-	-													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	acccccacggcccagcacaaCccctagagcaggaaagaggg							TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr14:24909696delC	uc001wpm.2	-	6	507	c.475delG	c.(475-477)GTTfs	p.V159fs	KHNYN_uc010tpc.1_3'UTR|KHNYN_uc001wph.3_3'UTR|KHNYN_uc010alw.2_3'UTR|SDR39U1_uc001wpi.2_Frame_Shift_Del_p.V51fs|SDR39U1_uc001wpj.2_Frame_Shift_Del_p.V77fs|SDR39U1_uc001wpk.2_Frame_Shift_Del_p.V51fs|SDR39U1_uc001wpl.2_Frame_Shift_Del_p.V104fs|SDR39U1_uc001wpn.2_Frame_Shift_Del_p.V34fs|uc001wpo.1_5'Flank	NM_020195	NP_064580	Q9NRG7	D39U1_HUMAN	short chain dehydrogenase/reductase family 39U,	185							binding			pancreas(1)	1						CCCAGCACAACCCCTAGAGCA	0.637													5	5	---	---	---	---		-	24909696	-	-	24909696	7	5	38	1	0	1	0	1	0	0	0	0	13972	507	18	0	410	0	SDR39U1	14	24909696	Frame_Shift_Del	DEL	C	TCGA-22-4601-01A-01D-1441-08		24909696	82439844	138	15110										
LRFN5	145581	broad.mit.edu	37	chr14	42357009	42357009	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ccatgagcctgatcctggttCttcagatatctcaacttcta	6	12	4	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr14:42357009C>T	uc001wvm.2	+	3	2379	c.1181C>T	c.(1180-1182)TCT>TTT	p.S394F	LRFN5_uc010ana.2_Missense_Mutation_p.S394F	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	394	Extracellular (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		GATCCTGGTTCTTCAGATATC	0.383										HNSCC(30;0.082)			43	26	---	---	---	---	PASS	T	42357009	T	T	42357009	3	4	38	1	0	0	0	0	1	0	0	0	8941	913	32	2	1183	2	LRFN5	14	42357009	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	17447313	42357009	64992531	139	15111										
GALNTL1	57452	broad.mit.edu	37	chr14	69787482	69787482	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	aggcctacctgtcggccaagCagctgaaggctggagaggac	15	11	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr14:69787482C>G	uc010aqu.1	+	2	325	c.232C>G	c.(232-234)CAG>GAG	p.Q78E	GALNTL1_uc001xla.1_Missense_Mutation_p.Q78E|GALNTL1_uc001xlb.1_Missense_Mutation_p.Q78E	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	78	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		GTCGGCCAAGCAGCTGAAGGC	0.597													50	28	---	---	---	---	PASS	G	69787482	G	G	69787482	3	3	38	1	0	0	0	0	1	0	0	0	6221	711	25	4	238	4	GALNTL1	14	69787482	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	27430473	69787482	37562058	140	15112										
PCNX	22990	broad.mit.edu	37	chr14	71444635	71444635	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tcagctgtttctgtggattcCaaagtgcgtaaagatgttgg	12	6	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr14:71444635C>T	uc001xmo.2	+	6	2027	c.1581C>T	c.(1579-1581)TCC>TCT	p.S527S	PCNX_uc001xmn.3_Silent_p.S527S|PCNX_uc010are.1_Silent_p.S527S	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	527						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)		CTGTGGATTCCAAAGTGCGTA	0.463													9	142	---	---	---	---	PASS	T	71444635	T	T	71444635	2	4	38	1	0	0	0	0	0	0	0	1	11591	581	21	3		3	PCNX	14	71444635	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	1657153	71444635	35904905	141	15113										
C14orf115	55237	broad.mit.edu	37	chr14	74824463	74824463	+	Frame_Shift_Del	DEL	G	-	-													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cctgcaggacagcttccaccGggggggcgtcgtgccacttc							TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr14:74824463delG	uc001xpw.3	+	2	1168	c.977delG	c.(976-978)CGGfs	p.R326fs		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	326					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		AGCTTCCACCGGGGGGGCGTC	0.642													44	71	---	---	---	---		-	74824463	-	-	74824463	7	5	38	1	0	1	0	1	0	0	0	0	1740	1116	39	0	979	0	C14orf115	14	74824463	Frame_Shift_Del	DEL	G	TCGA-22-4601-01A-01D-1441-08	3379828	74824463	32525077	142	15114										
ISM2	145501	broad.mit.edu	37	chr14	77948969	77948969	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggctcagccaacaggtctatCgacacctcggcctgggggtc	13	14	2	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr14:77948969C>T	uc001xtz.2	-	4	743	c.669G>A	c.(667-669)TCG>TCA	p.S223S	ISM2_uc001xua.2_Intron|ISM2_uc001xty.2_Silent_p.S135S|ISM2_uc010tvl.1_Silent_p.S142S	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	223						extracellular region				skin(1)	1						ACAGGTCTATCGACACCTCGG	0.622													44	143	---	---	---	---	PASS	T	77948969	T	T	77948969	2	4	38	1	0	0	0	0	0	0	0	1	7861	871	31	2		2	ISM2	14	77948969	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	3124506	77948969	29400571	143	15115										
ATG2B	55102	broad.mit.edu	37	chr14	96779474	96779474	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tttccacggtaagaagagatCggattggcaaataaaggggt	13	5	0	2	rs149230704	by1000genomes	TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr14:96779474C>A	uc001yfi.2	-	25	4135	c.3770G>T	c.(3769-3771)CGA>CTA	p.R1257L		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1257										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)		AAGAAGAGATCGGATTGGCAA	0.348													4	112	---	---	---	---	PASS	A	96779474	A	A	96779474	3	1	38	1	0	0	0	0	1	0	0	0	1094	884	31	2	2538	2	ATG2B	14	96779474	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	18830505	96779474	10570066	144	15116										
TRPM1	4308	broad.mit.edu	37	chr15	31329971	31329971	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	aattcacagatctttgttccGatgggaatacttctctgttt	7	8	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr15:31329971G>T	uc001zfm.2	-	19	2576	c.2448C>A	c.(2446-2448)ATC>ATA	p.I816I	TRPM1_uc010azy.2_Silent_p.I723I|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	816	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		TCTTTGTTCCGATGGGAATAC	0.438													44	69	---	---	---	---	PASS	T	31329971	T	T	31329971	2	4	38	1	0	0	0	0	0	0	0	1	16582	1048	37	2		2	TRPM1	15	31329971	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08		31329971	71201421	145	15117										
AQR	9716	broad.mit.edu	37	chr15	35166938	35166938	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gaactccaacgcgaacaaagCgagtgaagagagactgctcc	11	11	0	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr15:35166938C>T	uc001ziv.2	-	29	3546	c.3365G>A	c.(3364-3366)CGC>CAC	p.R1122H		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	1122						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		GCGAACAAAGCGAGTGAAGAG	0.433													5	146	---	---	---	---	PASS	T	35166938	T	T	35166938	3	4	38	1	0	0	0	0	1	0	0	0	835	768	27	1	1120	1	AQR	15	35166938	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	3836967	35166938	67364454	146	15118										
ATP8B4	79895	broad.mit.edu	37	chr15	50212548	50212548	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttatgccactctttaaagtaCttgtcatccaggtctctgta	6	10	3	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr15:50212548C>A	uc001zxu.2	-	18	1960	c.1818G>T	c.(1816-1818)AAG>AAT	p.K606N	ATP8B4_uc010ber.2_Missense_Mutation_p.K479N|ATP8B4_uc010ufd.1_Missense_Mutation_p.K416N|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	606	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		CTTTAAAGTACTTGTCATCCA	0.448													38	75	---	---	---	---	PASS	A	50212548	A	A	50212548	3	1	38	1	0	0	0	0	1	0	0	0	1197	564	20	3	1804	3	ATP8B4	15	50212548	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	15045610	50212548	52318844	147	15119										
HDC	3067	broad.mit.edu	37	chr15	50549709	50549709	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tttgccaaccagtccatgacGttcatctccagctctgtaca	6	14	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr15:50549709G>A	uc001zxz.2	-	4	460	c.354C>T	c.(352-354)AAC>AAT	p.N118N	HDC_uc010uff.1_Silent_p.N118N|HDC_uc010bet.1_Intron|HDC_uc010beu.1_Silent_p.N118N	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	118				N -> M (in Ref. 3; no nucleotide entry).	catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	AGTCCATGACGTTCATCTCCA	0.597													45	81	---	---	---	---	PASS	A	50549709	A	A	50549709	2	1	38	1	0	0	0	0	0	0	0	1	7015	1136	40	1		1	HDC	15	50549709	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	337161	50549709	51981683	148	15120										
MYO5A	4644	broad.mit.edu	37	chr15	52718104	52718104	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cccatgttctgaccactgtaTgcattaataatatcttctcc	4	12	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr15:52718104T>A	uc002aby.2	-	4	622	c.378A>T	c.(376-378)GCA>GCT	p.A126A	MYO5A_uc002abx.3_Silent_p.A126A|MYO5A_uc010uge.1_5'UTR	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	126	Myosin head-like.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		GACCACTGTATGCATTAATAA	0.398													38	82	---	---	---	---	PASS	A	52718104	A	A	52718104	2	1	38	1	0	0	0	0	0	0	0	1	10078	1451	51	5		5	MYO5A	15	52718104	Silent	SNP	T	TCGA-22-4601-01A-01D-1441-08	2168395	52718104	49813288	149	15121										
PPIB	5479	broad.mit.edu	37	chr15	64449012	64449012	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tgaagaactgggagccgttgGtgtctttgcctgcgttggcc	15	9	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr15:64449012G>C	uc002and.2	-	4	609	c.440C>G	c.(439-441)ACC>AGC	p.T147S	SNX22_uc002anc.1_3'UTR	NM_000942	NP_000933	P23284	PPIB_HUMAN	peptidylprolyl isomerase B precursor	147	PPIase cyclophilin-type.				protein folding	endoplasmic reticulum lumen|melanosome	peptide binding|peptidyl-prolyl cis-trans isomerase activity|unfolded protein binding				0					L-Proline(DB00172)	GGAGCCGTTGGTGTCTTTGCC	0.547													5	140	---	---	---	---	PASS	C	64449012	C	C	64449012	3	2	38	1	0	0	0	0	1	0	0	0	12319	1261	44	4	218	4	PPIB	15	64449012	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	11730908	64449012	38082380	150	15122										
TLE3	7090	broad.mit.edu	37	chr15	70351006	70351006	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cccagaccccacatacatgaCcaaggtctttggtcttggag	9	13	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr15:70351006C>G	uc002asm.2	-	11	2033	c.914G>C	c.(913-915)GGT>GCT	p.G305A	TLE3_uc002ask.2_Missense_Mutation_p.G249A|TLE3_uc002asl.2_Missense_Mutation_p.G310A|TLE3_uc010ukd.1_Missense_Mutation_p.G298A|TLE3_uc010bik.1_Intron|TLE3_uc010bil.1_Missense_Mutation_p.G305A|TLE3_uc002asn.2_Missense_Mutation_p.G305A|TLE3_uc002asp.2_Missense_Mutation_p.G305A|TLE3_uc002aso.2_Missense_Mutation_p.G305A	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	305	Pro/Ser-rich.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						ACATACATGACCAAGGTCTTT	0.498													3	7	---	---	---	---	PASS	G	70351006	G	G	70351006	3	3	38	1	0	0	0	0	1	0	0	0	15937	507	18	4	1444	4	TLE3	15	70351006	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	5901994	70351006	32180386	151	15123										
IQGAP1	8826	broad.mit.edu	37	chr15	90996157	90996157	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggagctggctaccctgcagcGacaaagtcctgaagtgagtt	13	10	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr15:90996157G>A	uc002bpl.1	+	12	1414	c.1313G>A	c.(1312-1314)CGA>CAA	p.R438Q		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	438					energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			ACCCTGCAGCGACAAAGTCCT	0.502													3	47	---	---	---	---	PASS	A	90996157	A	A	90996157	3	1	38	1	0	0	0	0	1	0	0	0	7814	1058	37	2	1359	2	IQGAP1	15	90996157	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	20645151	90996157	11535235	152	15124										
ZNF200	7752	broad.mit.edu	37	chr16	3274470	3274470	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tggaatggatgtatttagtcGttccttttcctggttatcgg	11	6	0	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr16:3274470G>A	uc002cuj.2	-	5	1242	c.610C>T	c.(610-612)CGA>TGA	p.R204*	ZNF200_uc002cum.3_Nonsense_Mutation_p.R203*|ZNF200_uc010bti.2_Nonsense_Mutation_p.R203*|ZNF200_uc002cuk.2_Nonsense_Mutation_p.R204*|ZNF200_uc002cui.2_Nonsense_Mutation_p.R203*|ZNF200_uc002cul.3_Nonsense_Mutation_p.R203*	NM_003454	NP_003445	P98182	ZN200_HUMAN	zinc finger protein 200 isoform 1	204					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						GTATTTAGTCGTTCCTTTTCC	0.368													72	107	---	---	---	---	PASS	A	3274470	A	A	3274470	4	1	38	1	0	0	0	0	0	1	0	0	17759	1153	40	1	581	1	ZNF200	16	3274470	Nonsense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08		3274470	87080283	153	15125										
SYT17	51760	broad.mit.edu	37	chr16	19236095	19236095	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gggcacaattgatcctttctAcaatgaatccttcagcttca	6	11	3	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr16:19236095A>G	uc002dfw.2	+	7	1494	c.1163A>G	c.(1162-1164)TAC>TGC	p.Y388C	SYT17_uc002dfx.2_Missense_Mutation_p.Y327C|SYT17_uc002dfy.2_Missense_Mutation_p.Y384C|SYT17_uc002dfv.1_Missense_Mutation_p.Y327C	NM_016524	NP_057608	Q9BSW7	SYT17_HUMAN	B/K protein	388	C2 2.					membrane|synaptic vesicle	transporter activity			ovary(1)	1						GATCCTTTCTACAATGAATCC	0.433													74	100	---	---	---	---	PASS	G	19236095	G	G	19236095	3	3	38	1	0	0	0	0	1	0	0	0	15470	391	14	5	1189	5	SYT17	16	19236095	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	15961625	19236095	71118658	154	15126										
RPGRIP1L	23322	broad.mit.edu	37	chr16	53636053	53636053	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggcatggagagcttcgactgTtaccctgagcttgccaatac	11	11	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr16:53636053T>C	uc002ehp.2	-	27	3947	c.3883A>G	c.(3883-3885)ACA>GCA	p.T1295A	RPGRIP1L_uc002eho.3_Missense_Mutation_p.T1215A|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.T1249A|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.T1261A	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	1295					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)				GCTTCGACTGTTACCCTGAGC	0.453													41	76	---	---	---	---	PASS	C	53636053	C	C	53636053	3	2	38	1	0	0	0	0	1	0	0	0	13550	1725	60	5	68	5	RPGRIP1L	16	53636053	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	34399958	53636053	36718700	155	15127										
CMTM2	146225	broad.mit.edu	37	chr16	66620911	66620911	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	caccttcaggacctcttcaaCgacctgattgcttgtgcgtt	8	13	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr16:66620911C>T	uc002ept.2	+	3	616	c.456C>T	c.(454-456)AAC>AAT	p.N152N	CMTM2_uc010cdu.2_Silent_p.N99N	NM_144673	NP_653274	Q8TAZ6	CKLF2_HUMAN	chemokine-like factor superfamily 2	152	MARVEL.|Helical; (Potential).				chemotaxis	extracellular space|integral to membrane	cytokine activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.068)|Epithelial(162;0.212)		ACCTCTTCAACGACCTGATTG	0.527													51	74	---	---	---	---	PASS	T	66620911	T	T	66620911	2	4	38	1	0	0	0	0	0	0	0	1	3583	535	19	1		1	CMTM2	16	66620911	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	12984858	66620911	23733842	156	15128										
PDP2	57546	broad.mit.edu	37	chr16	66918558	66918558	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttccccagtggaggaccggcGaggtgtagcctcctgcctgc	14	14	0	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr16:66918558G>C	uc002eqk.1	+	2	533	c.371G>C	c.(370-372)CGA>CCA	p.R124P		NM_020786	NP_065837	Q9P2J9	PDP2_HUMAN	pyruvate dehydrogenase phosphatase isoenzyme 2	124					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity|metal ion binding			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		GAGGACCGGCGAGGTGTAGCC	0.537													20	57	---	---	---	---	PASS	C	66918558	C	C	66918558	3	2	38	1	0	0	0	0	1	0	0	0	11686	1058	37	2	373	2	PDP2	16	66918558	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	297647	66918558	23436195	157	15129										
KCNG4	93107	broad.mit.edu	37	chr16	84271000	84271000	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ccttgatggacggcgtctccAtggggctggacaggagctga	16	10	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr16:84271000A>G	uc010voc.1	-	2	213	c.92T>C	c.(91-93)ATG>ACG	p.M31T	KCNG4_uc002fhu.1_Missense_Mutation_p.M31T	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	31	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						CGGCGTCTCCATGGGGCTGGA	0.612													36	60	---	---	---	---	PASS	G	84271000	G	G	84271000	3	3	38	1	0	0	0	0	1	0	0	0	8030	217	8	5	1473	5	KCNG4	16	84271000	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	17352442	84271000	6083753	158	15130										
ABR	29	broad.mit.edu	37	chr17	910478	910478	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tgctctccacttctgagggtCtcagtaacgtgggtccaaac	10	12	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:910478C>A	uc002fsd.2	-	22	2527	c.2417G>T	c.(2416-2418)AGA>ATA	p.R806I	ABR_uc002fse.2_Missense_Mutation_p.R760I|ABR_uc010vqf.1_Missense_Mutation_p.R257I|ABR_uc010vqg.1_Missense_Mutation_p.R588I|ABR_uc002fsg.2_Missense_Mutation_p.R769I|ABR_uc002fsf.2_Missense_Mutation_p.R343I	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	806	Rho-GAP.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		TTCTGAGGGTCTCAGTAACGT	0.582													4	94	---	---	---	---	PASS	A	910478	A	A	910478	3	1	38	1	0	0	0	0	1	0	0	0	99	913	32	2	170	2	ABR	17	910478	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08		910478	80284732	159	15131										
NLRP1	22861	broad.mit.edu	37	chr17	5433898	5433898	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gccaccatccagctgtgctgTgggttgatctcacccaggaa	11	13	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:5433898T>C	uc002gci.2	-	12	3978	c.3423A>G	c.(3421-3423)CCA>CCG	p.P1141P	NLRP1_uc002gcg.1_Silent_p.P1145P|NLRP1_uc002gck.2_Silent_p.P1141P|NLRP1_uc002gcj.2_Silent_p.P1111P|NLRP1_uc002gcl.2_Silent_p.P1111P|NLRP1_uc002gch.3_Silent_p.P1141P|NLRP1_uc010clh.2_Silent_p.P1141P	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1141					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				AGCTGTGCTGTGGGTTGATCT	0.572													33	76	---	---	---	---	PASS	C	5433898	C	C	5433898	2	2	38	1	0	0	0	0	0	0	0	1	10471	1683	59	5		5	NLRP1	17	5433898	Silent	SNP	T	TCGA-22-4601-01A-01D-1441-08	4523420	5433898	75761312	160	15132										
ZBTB4	57659	broad.mit.edu	37	chr17	7367112	7367112	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tccattgggtgtcttctcacTggcaaggaggcccgggctaa	13	11	2	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:7367112T>A	uc002ghc.3	-	4	1439	c.1189A>T	c.(1189-1191)AGT>TGT	p.S397C	ZBTB4_uc002ghd.3_Missense_Mutation_p.S397C	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	397					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		GTCTTCTCACTGGCAAGGAGG	0.567													143	57	---	---	---	---	PASS	A	7367112	A	A	7367112	3	1	38	1	0	0	0	0	1	0	0	0	17538	1580	55	5	1856	5	ZBTB4	17	7367112	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	1933214	7367112	73828098	161	15133			3	18		2	2	12	N	T_C	8.350036e-05
ZBTB4	57659	broad.mit.edu	37	chr17	7367123	7367123	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tcttctcactggcaaggaggCccgggctaatgccgtggaag	14	11	2	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:7367123C>A	uc002ghc.3	-	4	1428	c.1178G>T	c.(1177-1179)GGC>GTC	p.G393V	ZBTB4_uc002ghd.3_Missense_Mutation_p.G393V	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	393					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		GGCAAGGAGGCCCGGGCTAAT	0.582													142	55	---	---	---	---	PASS	A	7367123	A	A	7367123	3	1	38	1	0	0	0	0	1	0	0	0	17538	739	26	3	1867	3	ZBTB4	17	7367123	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	11	7367123	73828087	162	15134			3	18		2	2	12	N	T_C	8.350036e-05
TP53	7157	broad.mit.edu	37	chr17	7577121	7577121	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cccaggacaggcacaaacacGcacctcaaagctgttccgtc	8	16	1	0	rs121913343		TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:7577121G>A	uc002gim.2	-	8	1011	c.817C>T	c.(817-819)CGT>TGT	p.R273C	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141C|TP53_uc010cng.1_Missense_Mutation_p.R141C|TP53_uc002gii.1_Missense_Mutation_p.R141C|TP53_uc010cnh.1_Missense_Mutation_p.R273C|TP53_uc010cni.1_Missense_Mutation_p.R273C|TP53_uc002gij.2_Missense_Mutation_p.R273C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(467)|p.R273C(396)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.F270fs*72(1)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(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)		GCACAAACACGCACCTCAAAG	0.542	R273C(SH10TC_STOMACH)|R273C(SUDHL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(8MGBA_CENTRAL_NERVOUS_SYSTEM)|R273C(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273C(BL70_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(SW1710_URINARY_TRACT)|R273C(RH30_SOFT_TISSUE)|R273C(PANC0213_PANCREAS)|R273C(SJRH30_SOFT_TISSUE)|R273C(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(RDES_BONE)|R273C(TT2609C02_THYROID)|R273C(MFE319_ENDOMETRIUM)|R273C(RPMI8402_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(EFO27_OVARY)|R273C(NCIH1048_LUNG)|R273C(KARPAS299_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	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)			45	16	---	---	---	---	PASS	A	7577121	A	A	7577121	3	1	38	1	0	0	0	0	1	0	0	0	16378	1087	38	1	469	1	TP53	17	7577121	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	209998	7577121	73618089	163	15135										
DNAH2	146754	broad.mit.edu	37	chr17	7667312	7667312	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agatggctgctgggcgcctcCtggagctgcacacctacctg	13	14	0	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:7667312C>T	uc002giu.1	+	18	3156	c.3142C>T	c.(3142-3144)CTG>TTG	p.L1048L		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1048	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TGGGCGCCTCCTGGAGCTGCA	0.627													36	61	---	---	---	---	PASS	T	7667312	T	T	7667312	2	4	38	1	0	0	0	0	0	0	0	1	4602	680	24	3		3	DNAH2	17	7667312	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	90191	7667312	73527898	164	15136										
GAS7	8522	broad.mit.edu	37	chr17	9923208	9923208	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cggcggaggggggaccattcCaggcttctgttggagaagaa	17	8	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:9923208C>T	uc002gmg.1	-	2	351	c.190G>A	c.(190-192)GGA>AGA	p.G64R	GAS7_uc010vvd.1_Missense_Mutation_p.G16R|GAS7_uc002gmi.2_5'UTR|GAS7_uc002gmj.1_Missense_Mutation_p.G4R|GAS7_uc010coh.1_Missense_Mutation_p.G4R	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	64					cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						GGGACCATTCCAGGCTTCTGT	0.527			T	MLL	AML*								39	59	---	---	---	---	PASS	T	9923208	T	T	9923208	3	4	38	1	0	0	0	0	1	0	0	0	6250	603	21	3	1343	3	GAS7	17	9923208	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	2255896	9923208	71272002	165	15137										
MYH2	4620	broad.mit.edu	37	chr17	10441034	10441034	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ccatcccgaagtcgatgaacGtccactcgatgccttccttc	7	16	0	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:10441034G>T	uc010coi.2	-	15	1663	c.1535C>A	c.(1534-1536)ACG>AAG	p.T512K	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.T512K|MYH2_uc010coj.2_Missense_Mutation_p.T512K	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	512	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GTCGATGAACGTCCACTCGAT	0.473													86	177	---	---	---	---	PASS	T	10441034	T	T	10441034	3	4	38	1	0	0	0	0	1	0	0	0	10035	1145	40	1	4394	1	MYH2	17	10441034	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	517826	10441034	70754176	166	15138										
COPS3	8533	broad.mit.edu	37	chr17	17168116	17168116	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ctaatttttagagagattacCtgttcataaaagtagagagc	8	5	1	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:17168116C>A	uc002grd.2	-	6	712	c.621G>T	c.(619-621)CAG>CAT	p.Q207H	COPS3_uc010vwv.1_Missense_Mutation_p.Q187H|COPS3_uc010vww.1_Missense_Mutation_p.Q77H	NM_003653	NP_003644	Q9UNS2	CSN3_HUMAN	COP9 constitutive photomorphogenic homolog	207	PCI.				cullin deneddylation|response to light stimulus|signal transduction	cytoplasm|signalosome	protein binding			skin(1)	1						GAGAGATTACCTGTTCATAAA	0.403													4	133	---	---	---	---	PASS	A	17168116	A	A	17168116	3	1	38	1	0	0	0	0	1	0	0	0	3734	695	24	3	678	3	COPS3	17	17168116	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	6727082	17168116	64027094	167	15139										
KCNJ12	3768	broad.mit.edu	37	chr17	21318885	21318885	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	atgttcaccacctgtgtggaCatccgctggcggtacatgct	11	12	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:21318885C>G	uc002gyv.1	+	3	936	c.231C>G	c.(229-231)GAC>GAG	p.D77E		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	77	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	CCTGTGTGGACATCCGCTGGC	0.572										Prostate(3;0.18)			3	69	---	---	---	---	PASS	G	21318885	G	G	21318885	3	3	38	1	0	0	0	0	1	0	0	0	8046	477	17	4	233	4	KCNJ12	17	21318885	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	4150769	21318885	59876325	168	15140										
KCNJ12	3768	broad.mit.edu	37	chr17	21319631	21319631	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tgagatcctgtggggtcaccGctttgagcccgtgctcttcg	13	12	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:21319631G>T	uc002gyv.1	+	3	1682	c.977G>T	c.(976-978)CGC>CTC	p.R326L		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	326	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	TGGGGTCACCGCTTTGAGCCC	0.587										Prostate(3;0.18)			23	212	---	---	---	---	PASS	T	21319631	T	T	21319631	3	4	38	1	0	0	0	0	1	0	0	0	8046	1087	38	1	979	1	KCNJ12	17	21319631	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	746	21319631	59875579	169	15141										
MYO18A	399687	broad.mit.edu	37	chr17	27447713	27447713	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agaagcgggtggcattgccaTtaatgatggtggggctgttc	16	6	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:27447713T>C	uc002hdt.1	-	7	1807	c.1649A>G	c.(1648-1650)AAT>AGT	p.N550S	MYO18A_uc010wbc.1_Missense_Mutation_p.N92S|MYO18A_uc002hds.2_Missense_Mutation_p.N92S|MYO18A_uc010csa.1_Missense_Mutation_p.N550S|MYO18A_uc002hdu.1_Missense_Mutation_p.N550S|MYO18A_uc010wbd.1_Missense_Mutation_p.N219S	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	550	Myosin head-like.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			GGCATTGCCATTAATGATGGT	0.577													6	85	---	---	---	---	PASS	C	27447713	C	C	27447713	3	2	38	1	0	0	0	0	1	0	0	0	10065	1493	52	5	4659	5	MYO18A	17	27447713	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	6128082	27447713	53747497	170	15142										
SSH2	85464	broad.mit.edu	37	chr17	27958425	27958425	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cactcgagactcgatttcttTagcacgctccttcaccacac	5	16	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:27958425T>C	uc002heo.1	-	15	3706	c.3706A>G	c.(3706-3708)AAA>GAA	p.K1236E	SSH2_uc010wbh.1_Missense_Mutation_p.K1263E	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1236					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TCGATTTCTTTAGCACGCTCC	0.517													43	79	---	---	---	---	PASS	C	27958425	C	C	27958425	3	2	38	1	0	0	0	0	1	0	0	0	15184	1763	61	5	569	5	SSH2	17	27958425	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	510712	27958425	53236785	171	15143										
SLFN11	91607	broad.mit.edu	37	chr17	33679610	33679610	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tcattgctttcaagagctcaTacttatagtgctccacttct	5	11	4	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:33679610T>A	uc010ctp.2	-	7	2913	c.2471A>T	c.(2470-2472)TAT>TTT	p.Y824F	SLFN11_uc010ctq.2_Missense_Mutation_p.Y824F|SLFN11_uc002hjh.3_Missense_Mutation_p.Y824F|SLFN11_uc002hjg.3_Missense_Mutation_p.Y824F|SLFN11_uc010ctr.2_Missense_Mutation_p.Y824F	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	824						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CAAGAGCTCATACTTATAGTG	0.483													39	79	---	---	---	---	PASS	A	33679610	A	A	33679610	3	1	38	1	0	0	0	0	1	0	0	0	14733	1406	49	5	238	5	SLFN11	17	33679610	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	5721185	33679610	47515600	172	15144										
GPATCH8	23131	broad.mit.edu	37	chr17	42478442	42478442	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttggtcagaactcttctcatCgggttttgttccatcttcag	8	10	5	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:42478442C>A	uc002igw.1	-	8	1067	c.1003G>T	c.(1003-1005)GAT>TAT	p.D335Y	GPATCH8_uc002igv.1_Missense_Mutation_p.D257Y|GPATCH8_uc010wiz.1_Missense_Mutation_p.D257Y	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	335						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)		CTCTTCTCATCGGGTTTTGTT	0.458											OREG0024461	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	100	155	---	---	---	---	PASS	A	42478442	A	A	42478442	3	1	38	1	0	0	0	0	1	0	0	0	6594	884	31	2	3509	2	GPATCH8	17	42478442	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	8798832	42478442	38716768	173	15145										
FZD2	2535	broad.mit.edu	37	chr17	42635963	42635963	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cgggcttcgtgctccaggagCgcgtggtgtgcaacgagcgc	17	12	0	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:42635963C>T	uc002igx.1	+	1	1039	c.907C>T	c.(907-909)CGC>TGC	p.R303C		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	303	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		GCTCCAGGAGCGCGTGGTGTG	0.607													25	47	---	---	---	---	PASS	T	42635963	T	T	42635963	3	4	38	1	0	0	0	0	1	0	0	0	6130	768	27	1	909	1	FZD2	17	42635963	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	157521	42635963	38559247	174	15146										
CLTC	1213	broad.mit.edu	37	chr17	57724840	57724840	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gactgatgatgtcaccttttGgaaatggatctctttgaata	9	6	2	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:57724840G>T	uc002ixq.1	+	3	775	c.332G>T	c.(331-333)TGG>TTG	p.W111L	CLTC_uc002ixp.2_Missense_Mutation_p.W111L|CLTC_uc002ixr.1_Missense_Mutation_p.W115L	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	111	Globular terminal domain.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					GTCACCTTTTGGAAATGGATC	0.368			T	ALK|TFE3	ALCL|renal 								4	187	---	---	---	---	PASS	T	57724840	T	T	57724840	3	4	38	1	0	0	0	0	1	0	0	0	3566	1357	47	3	342	3	CLTC	17	57724840	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	15088877	57724840	23470370	175	15147										
NACA2	342538	broad.mit.edu	37	chr17	59668102	59668102	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gaatgtttccgacagcttcaCcttgaactctgaatttctcc	6	12	3	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:59668102C>G	uc002izj.2	-	1	466	c.440G>C	c.(439-441)GGT>GCT	p.G147A		NM_199290	NP_954984	Q9H009	NACA2_HUMAN	nascent-polypeptide-associated complex alpha	147					protein transport	cytoplasm|nucleus				ovary(1)	1	all_epithelial(1;3.12e-14)					GACAGCTTCACCTTGAACTCT	0.453													142	224	---	---	---	---	PASS	G	59668102	G	G	59668102	3	3	38	1	0	0	0	0	1	0	0	0	10134	507	18	4	211	4	NACA2	17	59668102	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	1943262	59668102	21527108	176	15148										
CCDC57	284001	broad.mit.edu	37	chr17	80059581	80059581	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gtccataatgttgtagttacGgatcttggggggcctctggc	14	8	2	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr17:80059581G>C	uc002kdx.1	-	17	2762	c.2725C>G	c.(2725-2727)CGT>GGT	p.R909G		NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	910										ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			TTGTAGTTACGGATCTTGGGG	0.602													70	152	---	---	---	---	PASS	C	80059581	C	C	80059581	3	2	38	1	0	0	0	0	1	0	0	0	2827	1116	39	4	26	4	CCDC57	17	80059581	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	20391479	80059581	1135629	177	15149										
MYO1F	4542	broad.mit.edu	37	chr19	8601932	8601932	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gtgtggccaccaggtcgttgGcttgtttctgaggcagaagt	15	8	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr19:8601932G>T	uc002mkg.2	-	17	1814	c.1700C>A	c.(1699-1701)GCC>GAC	p.A567D		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	567	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						caggtcgttggcttgtttctg	0.244													16	6	---	---	---	---	PASS	T	8601932	T	T	8601932	3	4	38	1	0	0	0	0	1	0	0	0	10073	1203	42	3	1644	3	MYO1F	19	8601932	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08		8601932	50527051	178	15150										
OLFM2	93145	broad.mit.edu	37	chr19	9968059	9968059	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cagactgccggagagattccTcacctcctcccgcaagcgta	9	16	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr19:9968059T>A	uc002mmp.2	-	4	488	c.460A>T	c.(460-462)AGG>TGG	p.R154W	OLFM2_uc002mmo.2_Missense_Mutation_p.R76W	NM_058164	NP_477512	O95897	NOE2_HUMAN	olfactomedin 2 precursor	154	Potential.					extracellular region				large_intestine(1)|skin(1)	2						GAGAGATTCCTCACCTCCTCC	0.627													49	18	---	---	---	---	PASS	A	9968059	A	A	9968059	3	1	38	1	0	0	0	0	1	0	0	0	10853	1550	54	5	916	5	OLFM2	19	9968059	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	1366127	9968059	49160924	179	15151										
ZNF490	57474	broad.mit.edu	37	chr19	12691342	12691342	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tcctttcgtgcacgtgcaaaGactttgagtaactgaaggct	10	9	0	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr19:12691342G>A	uc002mtz.2	-	5	1676	c.1547C>T	c.(1546-1548)TCT>TTT	p.S516F		NM_020714	NP_065765	Q9ULM2	ZN490_HUMAN	zinc finger protein 490	516	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACGTGCAAAGACTTTGAGTA	0.388													124	54	---	---	---	---	PASS	A	12691342	A	A	12691342	3	1	38	1	0	0	0	0	1	0	0	0	17938	942	33	2	46	2	ZNF490	19	12691342	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	2723283	12691342	46437641	180	15152										
SLC1A6	6511	broad.mit.edu	37	chr19	15061013	15061013	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gagctggaggcccctcacatAgcactctcgttgcctccccg	10	17	2	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr19:15061013A>T	uc002naa.1	-	9	1697	c.1689T>A	c.(1687-1689)GCT>GCA	p.A563A	SLC1A6_uc010dzu.1_Silent_p.A485A|SLC1A6_uc010xod.1_Silent_p.A499A	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	563					synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	CCCCTCACATAGCACTCTCGT	0.647													19	9	---	---	---	---	PASS	T	15061013	T	T	15061013	2	4	38	1	0	0	0	0	0	0	0	1	14436	407	15	5		5	SLC1A6	19	15061013	Silent	SNP	A	TCGA-22-4601-01A-01D-1441-08	2369671	15061013	44067970	181	15153										
EIF3K	27335	broad.mit.edu	37	chr19	39114783	39114783	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	atcctgctgaaggccctcacCaacttgccgcacacagactt	7	16	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr19:39114783C>T	uc002oiz.1	+	3	412	c.225C>T	c.(223-225)ACC>ACT	p.T75T	EIF3K_uc010xuh.1_Silent_p.T75T|EIF3K_uc010xui.1_5'UTR	NM_013234	NP_037366	Q9UBQ5	EIF3K_HUMAN	eukaryotic translation initiation factor 3,	75					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex|nucleus	protein binding|ribosome binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			AGGCCCTCACCAACTTGCCGC	0.577													58	63	---	---	---	---	PASS	T	39114783	T	T	39114783	2	4	38	1	0	0	0	0	0	0	0	1	5021	581	21	3		3	EIF3K	19	39114783	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	24053770	39114783	20014200	182	15154										
LIG1	3978	broad.mit.edu	37	chr19	48643270	48643270	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gagaaggacaccatcacccaCgccaagctccaggccctgct	9	17	1	1	rs3730947	byFrequency	TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr19:48643270C>G	uc002pia.1	-	12	1165	c.1045G>C	c.(1045-1047)GTG>CTG	p.V349L	LIG1_uc010xze.1_Missense_Mutation_p.V42L|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.V281L|LIG1_uc010xzg.1_Missense_Mutation_p.V318L|LIG1_uc010xzh.1_RNA	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	349					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	CCATCACCCACGCCAAGCTCC	0.642								NER					57	132	---	---	---	---	PASS	G	48643270	G	G	48643270	3	3	38	1	0	0	0	0	1	0	0	0	8781	536	19	4	1782	4	LIG1	19	48643270	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	9528487	48643270	10485713	183	15155										
KLK6	5653	broad.mit.edu	37	chr19	51471320	51471320	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	atccaaatgccctttccccaCctgcagcaatcagactcagc	5	17	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr19:51471320C>A	uc002pui.2	-	3	300	c.40_splice	c.e3+1	p.A14_splice	KLK6_uc010eoj.2_Intron|KLK6_uc002puh.2_Intron|KLK6_uc002puj.2_Intron|KLK6_uc010ycn.1_Splice_Site|KLK6_uc002pul.2_Splice_Site_p.A14_splice|KLK6_uc002pum.2_Splice_Site	NM_001012964	NP_001012982	Q92876	KLK6_HUMAN	kallikrein-related peptidase 6 isoform A						amyloid precursor protein metabolic process|central nervous system development|collagen catabolic process|hormone metabolic process|myelination|positive regulation of G-protein coupled receptor protein signaling pathway|protein autoprocessing|proteolysis|regulation of cell differentiation|tissue regeneration	endoplasmic reticulum|extracellular region|microsome|mitochondrion|nucleolus	protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00372)|GBM - Glioblastoma multiforme(134;0.00871)		CCTTTCCCCACCTGCAGCAAT	0.423													37	90	---	---	---	---	PASS	A	51471320	A	A	51471320	5	1	38	1	0	0	0	0	0	0	1	0	8408	521	18	3	713	3	KLK6	19	51471320	Splice_Site	SNP	C	TCGA-22-4601-01A-01D-1441-08	2828050	51471320	7657663	184	15156										
ZNF528	84436	broad.mit.edu	37	chr19	52919741	52919741	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	atcaaataattcatactggaGagaggccttacagatgtagt	9	6	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr19:52919741G>T	uc002pzh.2	+	7	2062	c.1636G>T	c.(1636-1638)GAG>TAG	p.E546*	ZNF528_uc002pzi.2_Nonsense_Mutation_p.E313*	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	546					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		TCATACTGGAGAGAGGCCTTA	0.388													32	60	---	---	---	---	PASS	T	52919741	T	T	52919741	4	4	38	1	0	0	0	0	0	1	0	0	17966	943	33	2	1650	2	ZNF528	19	52919741	Nonsense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	1448421	52919741	6209242	185	15157										
ZNF761	388561	broad.mit.edu	37	chr19	53959562	53959562	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	aaatacatcagaaaattcatActgaagagaatccttacaag	5	7	2	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr19:53959562A>G	uc010eqp.2	+	7	2259	c.1801A>G	c.(1801-1803)ACT>GCT	p.T601A	ZNF761_uc010ydy.1_Missense_Mutation_p.T547A|ZNF761_uc002qbt.1_Missense_Mutation_p.T547A	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	601					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		GAAAATTCATACTGAAGAGAA	0.403													76	90	---	---	---	---	PASS	G	53959562	G	G	53959562	3	3	38	1	0	0	0	0	1	0	0	0	18133	391	14	5	1812	5	ZNF761	19	53959562	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	1039821	53959562	5169421	186	15158										
ZSCAN5B	342933	broad.mit.edu	37	chr19	56701255	56701255	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cttgaatgtccccagctgacGgaaggccttttgacaggtgg	13	10	0	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr19:56701255G>T	uc010ygh.1	-	4	1429	c.1429C>A	c.(1429-1431)CGT>AGT	p.R477S		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	477	C2H2-type 5.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CCCAGCTGACGGAAGGCCTTT	0.557													30	47	---	---	---	---	PASS	T	56701255	T	T	56701255	3	4	38	1	0	0	0	0	1	0	0	0	18236	1116	39	1	62	1	ZSCAN5B	19	56701255	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	2741693	56701255	2427728	187	15159										
TGM3	7053	broad.mit.edu	37	chr20	2291706	2291706	+	Frame_Shift_Del	DEL	G	-	-													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gagagagaagagtatgttcaGgaagatgccggcatcatctt							TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr20:2291706delG	uc002wfx.3	+	4	568	c.471delG	c.(469-471)CAGfs	p.Q157fs		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	157					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	AGTATGTTCAGGAAGATGCCG	0.458													70	68	---	---	---	---		-	2291706	-	-	2291706	7	5	38	1	0	1	0	1	0	0	0	0	15828	991	35	0	485	0	TGM3	20	2291706	Frame_Shift_Del	DEL	G	TCGA-22-4601-01A-01D-1441-08		2291706	60733814	188	15160										
CDC25B	994	broad.mit.edu	37	chr20	3778334	3778334	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cagccgcctgacgcacctatCcctgtctcgacgggcatccg	10	18	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr20:3778334C>A	uc002wjn.2	+	2	1044	c.266C>A	c.(265-267)TCC>TAC	p.S89Y	CDC25B_uc010zqk.1_Missense_Mutation_p.S25Y|CDC25B_uc010zql.1_Missense_Mutation_p.S11Y|CDC25B_uc010zqm.1_Missense_Mutation_p.S25Y|CDC25B_uc002wjl.2_5'UTR|CDC25B_uc002wjm.2_5'UTR|CDC25B_uc002wjo.2_Missense_Mutation_p.S75Y|CDC25B_uc002wjp.2_Missense_Mutation_p.S89Y|CDC25B_uc002wjq.2_5'Flank	NM_021873	NP_068659	P30305	MPIP2_HUMAN	cell division cycle 25B isoform 1	89					cell division|G2/M transition of mitotic cell cycle|mitosis|positive regulation of cell proliferation	cytosol|microtubule organizing center|nucleoplasm	protein binding|protein tyrosine phosphatase activity			lung(3)|ovary(2)	5						ACGCACCTATCCCTGTCTCGA	0.617													23	106	---	---	---	---	PASS	A	3778334	A	A	3778334	3	1	38	1	0	0	0	0	1	0	0	0	3063	855	30	2	272	2	CDC25B	20	3778334	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	1486628	3778334	59247186	189	15161										
PAX1	5075	broad.mit.edu	37	chr20	21689252	21689252	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ccaagatggaagactgggccGgcgtgaaccgcacggccttc	14	13	0	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr20:21689252G>A	uc002wsj.2	+	3	1027	c.973G>A	c.(973-975)GGC>AGC	p.G325S	PAX1_uc010zsl.1_Missense_Mutation_p.G325S|PAX1_uc010zsm.1_Missense_Mutation_p.G301S	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	325					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						AGACTGGGCCGGCGTGAACCG	0.597													47	65	---	---	---	---	PASS	A	21689252	A	A	21689252	3	1	38	1	0	0	0	0	1	0	0	0	11478	1116	39	1	983	1	PAX1	20	21689252	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	17910918	21689252	41336268	190	15162										
RBL1	5933	broad.mit.edu	37	chr20	35684596	35684596	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ttgattgagtatagtgttgaCagaaagtctctcctattcct	8	7	1	4			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr20:35684596C>T	uc002xgi.2	-	10	1395	c.1316G>A	c.(1315-1317)TGT>TAT	p.C439Y	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.C439Y|RBL1_uc010gfv.1_RNA	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	439	Domain A.|Pocket; binds T and E1A.				cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				ATAGTGTTGACAGAAAGTCTC	0.363													15	62	---	---	---	---	PASS	T	35684596	T	T	35684596	3	4	38	1	0	0	0	0	1	0	0	0	13109	478	17	3	1951	3	RBL1	20	35684596	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	13995344	35684596	27340924	191	15163										
DHX35	60625	broad.mit.edu	37	chr20	37620141	37620141	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	agggaaatgatggttgatccGttgttaacaaaatataggta	11	3	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr20:37620141G>T	uc002xjh.2	+	6	506	c.495G>T	c.(493-495)CCG>CCT	p.P165P	DHX35_uc010zwa.1_Silent_p.P10P|DHX35_uc010zwb.1_Silent_p.P10P|DHX35_uc010zwc.1_Silent_p.P134P	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	165	Helicase ATP-binding.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				TGGTTGATCCGTTGTTAACAA	0.353													28	67	---	---	---	---	PASS	T	37620141	T	T	37620141	2	4	38	1	0	0	0	0	0	0	0	1	4508	1132	40	1		1	DHX35	20	37620141	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	1935545	37620141	25405379	192	15164										
RIMS4	140730	broad.mit.edu	37	chr20	43386757	43386757	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggcggcccacaaactgtgccGgccccatgcttcccaggaag	12	16	0	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr20:43386757G>T	uc002xms.2	-	3	305	c.305C>A	c.(304-306)CCG>CAG	p.P102Q	RIMS4_uc010ggu.2_Missense_Mutation_p.P103Q	NM_182970	NP_892015	Q9H426	RIMS4_HUMAN	regulating synaptic membrane exocytosis 4	102					exocytosis|neurotransmitter transport	cell junction|synapse				ovary(4)|central_nervous_system(1)	5		Myeloproliferative disorder(115;0.0122)				AAACTGTGCCGGCCCCATGCT	0.582													25	67	---	---	---	---	PASS	T	43386757	T	T	43386757	3	4	38	1	0	0	0	0	1	0	0	0	13370	1116	39	1	520	1	RIMS4	20	43386757	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	5766616	43386757	19638763	193	15165										
EYA2	2139	broad.mit.edu	37	chr20	45801445	45801445	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gtgcacggcggcgtggactgGatgaggaagctggccttccg	18	10	0	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr20:45801445G>T	uc002xsm.2	+	12	1502	c.1128G>T	c.(1126-1128)TGG>TGT	p.W376C	EYA2_uc010ghp.2_Missense_Mutation_p.W376C|EYA2_uc002xsn.2_Missense_Mutation_p.W381C|EYA2_uc002xso.2_Missense_Mutation_p.W376C|EYA2_uc002xsp.2_Missense_Mutation_p.W376C|EYA2_uc002xsq.2_Missense_Mutation_p.W346C	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a	376					DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)				GCGTGGACTGGATGAGGAAGC	0.612													41	48	---	---	---	---	PASS	T	45801445	T	T	45801445	3	4	38	1	0	0	0	0	1	0	0	0	5329	1183	41	2	1170	2	EYA2	20	45801445	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	2414688	45801445	17224075	194	15166										
KRTAP13-4	284827	broad.mit.edu	37	chr21	31802908	31802908	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tctaggtgctgctactcgctGggaaatggatccagtggctt	13	9	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr21:31802908G>T	uc011acw.1	+	1	315	c.315G>T	c.(313-315)CTG>CTT	p.L105L		NM_181600	NP_853631	Q3LI77	KR134_HUMAN	keratin associated protein 13-4	105						intermediate filament					0						GCTACTCGCTGGGAAATGGAT	0.527													22	31	---	---	---	---	PASS	T	31802908	T	T	31802908	2	4	38	1	0	0	0	0	0	0	0	1	8525	1335	47	3		3	KRTAP13-4	21	31802908	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08		31802908	16326987	195	15167										
SYNJ1	8867	broad.mit.edu	37	chr21	34025600	34025600	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	caacaaatgctaccttacctCtttaccatttaggctcagaa	4	12	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr21:34025600C>G	uc002yqh.2	-	22	2989	c.2989G>C	c.(2989-2991)GAG>CAG	p.E997Q	SYNJ1_uc011ads.1_Missense_Mutation_p.E953Q|SYNJ1_uc002yqf.2_Missense_Mutation_p.E958Q|SYNJ1_uc002yqg.2_Missense_Mutation_p.E953Q|SYNJ1_uc002yqi.2_Missense_Mutation_p.E997Q	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	958	RRM.|Pro-rich.						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						TACCTTACCTCTTTACCATTT	0.323													39	81	---	---	---	---	PASS	G	34025600	G	G	34025600	3	3	38	1	0	0	0	0	1	0	0	0	15449	922	32	2	1918	2	SYNJ1	21	34025600	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	2222692	34025600	14104295	196	15168										
LSS	4047	broad.mit.edu	37	chr21	47627403	47627403	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cggtgacatggggacacttcTcctgcaggagcagcacagcc	13	13	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr21:47627403T>A	uc002zij.2	-	15	1485	c.1406A>T	c.(1405-1407)GAG>GTG	p.E469V	LSS_uc011afv.1_Missense_Mutation_p.E458V|LSS_uc002zil.2_Missense_Mutation_p.E469V|LSS_uc002zik.2_Missense_Mutation_p.E389V	NM_001001438	NP_001001438	P48449	ERG7_HUMAN	lanosterol synthase isoform 1	469					cholesterol biosynthetic process	endoplasmic reticulum membrane	lanosterol synthase activity				0	Breast(49;0.214)					GGGACACTTCTCCTGCAGGAG	0.612													12	16	---	---	---	---	PASS	A	47627403	A	A	47627403	3	1	38	1	0	0	0	0	1	0	0	0	9065	1551	54	5	824	5	LSS	21	47627403	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	13601803	47627403	502492	197	15169										
CABIN1	23523	broad.mit.edu	37	chr22	24573530	24573530	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gctcaggaggctgcgagtgaGactcagcccctgagctctcc	13	14	3	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr22:24573530G>A	uc002zzi.1	+	36	6391	c.6264G>A	c.(6262-6264)GAG>GAA	p.E2088E	CABIN1_uc002zzj.1_Silent_p.E2009E|CABIN1_uc002zzl.1_Silent_p.E2088E|CABIN1_uc010gul.1_Silent_p.E26E	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	2088					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CTGCGAGTGAGACTCAGCCCC	0.642													19	102	---	---	---	---	PASS	A	24573530	A	A	24573530	2	1	38	1	0	0	0	0	0	0	0	1	2528	933	33	2		2	CABIN1	22	24573530	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08		24573530	26731036	198	15170			4	19		4	4	7359	N	G_C	2.784369e-05
CABIN1	23523	broad.mit.edu	37	chr22	24574123	24574123	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ccagccaggagtcctcgctgGagagcgagacagacgaggac	15	12	0	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr22:24574123G>A	uc002zzi.1	+	37	6749	c.6622G>A	c.(6622-6624)GAG>AAG	p.E2208K	CABIN1_uc002zzj.1_Missense_Mutation_p.E2129K|CABIN1_uc002zzl.1_Missense_Mutation_p.E2208K|CABIN1_uc010gul.1_Missense_Mutation_p.E146K	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	2208					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GTCCTCGCTGGAGAGCGAGAC	0.632													10	105	---	---	---	---	PASS	A	24574123	A	A	24574123	3	1	38	1	0	0	0	0	1	0	0	0	2528	1175	41	2	6764	2	CABIN1	22	24574123	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	593	24574123	26730443	199	15171			4	19		4	4	7359	N	G_C	2.784369e-05
CABIN1	23523	broad.mit.edu	37	chr22	24574135	24574135	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cctcgctggagagcgagacaGacgaggacgacgactacatg	14	11	0	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr22:24574135G>C	uc002zzi.1	+	37	6761	c.6634G>C	c.(6634-6636)GAC>CAC	p.D2212H	CABIN1_uc002zzj.1_Missense_Mutation_p.D2133H|CABIN1_uc002zzl.1_Missense_Mutation_p.D2212H|CABIN1_uc010gul.1_Missense_Mutation_p.D150H	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	2212					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GAGCGAGACAGACGAGGACGA	0.602													9	85	---	---	---	---	PASS	C	24574135	C	C	24574135	3	2	38	1	0	0	0	0	1	0	0	0	2528	942	33	2	6776	2	CABIN1	22	24574135	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	12	24574135	26730431	200	15172			4	19		4	4	7359	N	G_C	2.784369e-05
SUSD2	56241	broad.mit.edu	37	chr22	24580888	24580888	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gcacttcggatcatcgacagCaaaaattacgcagggcagaa	10	10	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr22:24580888C>A	uc002zzn.1	+	5	806	c.762C>A	c.(760-762)AGC>AGA	p.S254R		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	254	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						TCATCGACAGCAAAAATTACG	0.592													15	58	---	---	---	---	PASS	A	24580888	A	A	24580888	3	1	38	1	0	0	0	0	1	0	0	0	15405	709	25	3	780	3	SUSD2	22	24580888	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	6753	24580888	26723678	201	15173			4	19		4	4	7359	N	G_C	2.784369e-05
TCF20	6942	broad.mit.edu	37	chr22	42607579	42607579	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	taaggggttttgagaagaatGatcctcctggcctggaagtc	13	7	0	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr22:42607579G>T	uc003bcj.1	-	1	3867	c.3733C>A	c.(3733-3735)CAT>AAT	p.H1245N	TCF20_uc003bck.1_Missense_Mutation_p.H1245N|TCF20_uc003bnt.2_Missense_Mutation_p.H1245N	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	1245					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						TGAGAAGAATGATCCTCCTGG	0.483													4	126	---	---	---	---	PASS	T	42607579	T	T	42607579	3	4	38	1	0	0	0	0	1	0	0	0	15687	1290	45	2	2187	2	TCF20	22	42607579	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	18026691	42607579	8696987	202	15174										
PARVG	64098	broad.mit.edu	37	chr22	44585083	44585083	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tcacagtggtgctggaggccGtgaaccggagtctgcagctg	16	10	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chr22:44585083G>A	uc011aqe.1	+	6	761	c.337G>A	c.(337-339)GTG>ATG	p.V113M	PARVG_uc003bep.2_Missense_Mutation_p.V113M|PARVG_uc011aqf.1_Missense_Mutation_p.V113M|PARVG_uc003beq.2_RNA|PARVG_uc003ber.2_RNA	NM_001137605	NP_001131077	Q9HBI0	PARVG_HUMAN	parvin, gamma	113	CH 1.				cell-matrix adhesion	cytoplasm|cytoskeleton|focal adhesion	actin binding				0		Ovarian(80;0.024)|all_neural(38;0.0299)				GCTGGAGGCCGTGAACCGGAG	0.657													22	50	---	---	---	---	PASS	A	44585083	A	A	44585083	3	1	38	1	0	0	0	0	1	0	0	0	11470	1145	40	1	351	1	PARVG	22	44585083	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	1977504	44585083	6719483	203	15175										
SHROOM2	357	broad.mit.edu	37	chrX	9864198	9864198	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cacccgccccgcatcggaggCcggagacggttcacagctga	13	16	1	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:9864198C>A	uc004csu.1	+	4	2340	c.2250C>A	c.(2248-2250)GGC>GGA	p.G750G		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	750	ASD1.				apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				GCATCGGAGGCCGGAGACGGT	0.637													11	20	---	---	---	---	PASS	A	9864198	A	A	9864198	2	1	38	1	0	0	0	0	0	0	0	1	14294	726	26	3		3	SHROOM2	23	9864198	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08		9864198	145406362	204	15176										
NHS	4810	broad.mit.edu	37	chrX	17739652	17739652	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cccttccacactggacaagcAgaccaactggagcaaagcac	8	15	0	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:17739652A>G	uc004cxx.2	+	4	1282	c.944A>G	c.(943-945)CAG>CGG	p.Q315R	NHS_uc011mix.1_Missense_Mutation_p.Q336R|NHS_uc004cxy.2_Missense_Mutation_p.Q159R|NHS_uc004cxz.2_Missense_Mutation_p.Q138R|NHS_uc004cya.2_Missense_Mutation_p.Q38R	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	315						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					CTGGACAAGCAGACCAACTGG	0.473													39	94	---	---	---	---	PASS	G	17739652	G	G	17739652	3	3	38	1	0	0	0	0	1	0	0	0	10411	188	7	5	1063	5	NHS	23	17739652	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	7875454	17739652	137530908	205	15177										
APOO	79135	broad.mit.edu	37	chrX	23886727	23886727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tacctctagccaaaaggagtCcaataaggccagcaaaacca	7	12	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:23886727C>A	uc004dax.2	-	5	602	c.371G>T	c.(370-372)GGA>GTA	p.G124V	APOO_uc004daw.2_RNA|APOO_uc004day.3_RNA	NM_024122	NP_077027	Q9BUR5	APOO_HUMAN	apolipoprotein O precursor	124	Helical; (Potential).				lipid transport	high-density lipoprotein particle|integral to membrane|low-density lipoprotein particle|very-low-density lipoprotein particle					0						CAAAAGGAGTCCAATAAGGCC	0.299													29	54	---	---	---	---	PASS	A	23886727	A	A	23886727	3	1	38	1	0	0	0	0	1	0	0	0	813	855	30	2	241	2	APOO	23	23886727	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	6147075	23886727	131383833	206	15178										
APOO	79135	broad.mit.edu	37	chrX	23886748	23886748	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	caataaggccagcaaaaccaAtaacaccaagtctcggaaaa	6	11	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:23886748A>C	uc004dax.2	-	5	581	c.350T>G	c.(349-351)ATT>AGT	p.I117S	APOO_uc004daw.2_RNA|APOO_uc004day.3_RNA	NM_024122	NP_077027	Q9BUR5	APOO_HUMAN	apolipoprotein O precursor	117	Helical; (Potential).				lipid transport	high-density lipoprotein particle|integral to membrane|low-density lipoprotein particle|very-low-density lipoprotein particle					0						AGCAAAACCAATAACACCAAG	0.333													30	56	---	---	---	---	PASS	C	23886748	C	C	23886748	3	2	38	1	0	0	0	0	1	0	0	0	813	101	4	5	262	5	APOO	23	23886748	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	21	23886748	131383812	207	15179										
KLHL15	80311	broad.mit.edu	37	chrX	24006149	24006149	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tactcatcttccttccacttGttttcatccggatcaaaagt	4	12	4	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:24006149G>T	uc004dba.3	-	4	1960	c.1704C>A	c.(1702-1704)AAC>AAA	p.N568K		NM_030624	NP_085127	Q96M94	KLH15_HUMAN	kelch-like 15	568	Kelch 5.									ovary(1)|breast(1)	2						CCTTCCACTTGTTTTCATCCG	0.458													99	127	---	---	---	---	PASS	T	24006149	T	T	24006149	3	4	38	1	0	0	0	0	1	0	0	0	8371	1368	48	3	114	3	KLHL15	23	24006149	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	119401	24006149	131264411	208	15180										
DYNLT3	6990	broad.mit.edu	37	chrX	37699873	37699873	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	acgttgacaatacagttcatGgtccggttctcccatcttac	7	12	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:37699873G>T	uc004dds.2	-	5	432	c.306C>A	c.(304-306)ACC>ACA	p.T102T		NM_006520	NP_006511	P51808	DYLT3_HUMAN	dynein, light chain, Tctex-type 3	102					cell division|mitosis|regulation of mitotic cell cycle|transport	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|nucleus|plasma membrane	motor activity				0						TACAGTTCATGGTCCGGTTCT	0.328													23	27	---	---	---	---	PASS	T	37699873	T	T	37699873	2	4	38	1	0	0	0	0	0	0	0	1	4853	1335	47	3		3	DYNLT3	23	37699873	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	13693724	37699873	117570687	209	15181										
WAS	7454	broad.mit.edu	37	chrX	48549500	48549500	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ctttctctttccctccagacGaaggggaggaccaggctggc	12	13	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:48549500G>A	uc004dkm.3	+	12	1513	c.1456G>A	c.(1456-1458)GAA>AAA	p.E486K		NM_000377	NP_000368	P42768	WASP_HUMAN	Wiskott-Aldrich syndrome protein	486	Asp/Glu-rich (acidic).				blood coagulation|defense response|epidermis development|immune response|T cell receptor signaling pathway	actin cytoskeleton|cytosol	identical protein binding|small GTPase regulator activity			ovary(1)	1		all_lung(315;1.27e-10)				CCCTCCAGACGAAGGGGAGGA	0.582			Mis|N|F|S			lymphoma			Wiskott-Aldrich_syndrome				18	61	---	---	---	---	PASS	A	48549500	A	A	48549500	3	1	38	1	0	0	0	0	1	0	0	0	17248	1059	37	2	1502	2	WAS	23	48549500	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	10849627	48549500	106721060	210	15182										
GRIPAP1	56850	broad.mit.edu	37	chrX	48837632	48837632	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gtcctagtccctcacctgagCggctcttgctgttagtgagg	12	12	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:48837632C>T	uc004dly.1	-	21	1960	c.1925G>A	c.(1924-1926)CGC>CAC	p.R642H	GRIPAP1_uc004dlz.2_Missense_Mutation_p.R532H|GRIPAP1_uc004dma.2_Missense_Mutation_p.R563H	NM_020137	NP_064522	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1 isoform 1	642						early endosome				breast(2)|kidney(1)	3						CTCACCTGAGCGGCTCTTGCT	0.612													10	23	---	---	---	---	PASS	T	48837632	T	T	48837632	3	4	38	1	0	0	0	0	1	0	0	0	6789	768	27	1	678	1	GRIPAP1	23	48837632	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	288132	48837632	106432928	211	15183										
TFE3	7030	broad.mit.edu	37	chrX	48891648	48891648	+	Splice_Site	SNP	C	A	A													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggccaagaccctatcacctaCcagagatctcccgtttgatg							TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:48891648C>A	uc004dmb.3	-	6	1241	c.1003_splice	c.e6+1	p.E335_splice	TFE3_uc004dmc.3_Splice_Site_p.E230_splice|TFE3_uc004dme.1_Splice_Site	NM_006521	NP_006512	P19532	TFE3_HUMAN	transcription factor E3						humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding		ASPSCR1/TFE3(161)|PRCC/TFE3(25)|SFPQ/TFE3(6)|NONO/TFE3(2)|CLTC/TFE3(2)	soft_tissue(120)|kidney(76)|central_nervous_system(1)	197						CTATCACCTACCAGAGATCTC	0.562			T	SFPQ|ASPSCR1|PRCC|NONO|CLTC	papillary renal|alveolar soft part sarcoma|renal								16	33	---	---	---	---	PASS	A	48891648	A	A	48891648	5	1	38	1	0	0	0	0	0	0	1	0	15797	521	18	3	743	3	TFE3	23	48891648	Splice_Site	SNP	C	TCGA-22-4601-01A-01D-1441-08	54016	48891648	106378912	212	15184	380	2								
TFE3	7030	broad.mit.edu	37	chrX	48891649	48891649	+	Missense_Mutation	SNP	C	T	T													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gccaagaccctatcacctacCagagatctcccgtttgatgt							TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:48891649C>T	uc004dmb.3	-	6	1241	c.1003G>A	c.(1003-1005)GAG>AAG	p.E335K	TFE3_uc004dmc.3_Missense_Mutation_p.E230K|TFE3_uc004dme.1_RNA	NM_006521	NP_006512	P19532	TFE3_HUMAN	transcription factor E3	335					humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding		ASPSCR1/TFE3(161)|PRCC/TFE3(25)|SFPQ/TFE3(6)|NONO/TFE3(2)|CLTC/TFE3(2)	soft_tissue(120)|kidney(76)|central_nervous_system(1)	197						TATCACCTACCAGAGATCTCC	0.562			T	SFPQ|ASPSCR1|PRCC|NONO|CLTC	papillary renal|alveolar soft part sarcoma|renal								16	35	---	---	---	---	PASS	T	48891649	T	T	48891649	3	4	38	1	0	0	0	0	1	0	0	0	15797	608	21	3	744	3	TFE3	23	48891649	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	1	48891649	106378911	213	15185	380	2								
PLP2	5355	broad.mit.edu	37	chrX	49029810	49029810	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tccttgttgagagaggaaacCactccaaaatcgtcgcaggg	11	10	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:49029810C>A	uc004dmx.2	+	3	400	c.325C>A	c.(325-327)CAC>AAC	p.H109N		NM_002668	NP_002659	Q04941	PLP2_HUMAN	proteolipid protein 2 (colonic	109	MARVEL.				chemotaxis|cytokine-mediated signaling pathway	endoplasmic reticulum membrane|integral to membrane|membrane fraction|plasma membrane	chemokine binding|ion transmembrane transporter activity				0						GAGAGGAAACCACTCCAAAAT	0.532													39	64	---	---	---	---	PASS	A	49029810	A	A	49029810	3	1	38	1	0	0	0	0	1	0	0	0	12105	594	21	3	335	3	PLP2	23	49029810	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	138161	49029810	106240750	214	15186										
KDM5C	8242	broad.mit.edu	37	chrX	53250047	53250047	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ctcattcagcctctggattcGgggggtaaacctgaagttgt	12	9	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:53250047G>T	uc004drz.2	-	2	735	c.202C>A	c.(202-204)CGA>AGA	p.R68R	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Intron|KDM5C_uc004dsa.2_Silent_p.R68R	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	68					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						CTCTGGATTCGGGGGGTAAAC	0.403			N|F|S		clear cell renal carcinoma								3	65	---	---	---	---	PASS	T	53250047	T	T	53250047	2	4	38	1	0	0	0	0	0	0	0	1	8135	1124	39	1		1	KDM5C	23	53250047	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	4220237	53250047	102020513	215	15187										
TRO	7216	broad.mit.edu	37	chrX	54956998	54956998	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gcaccagtgctggctttggtGgtggactggtcactagtgat	15	8	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:54956998G>T	uc004dtq.2	+	12	3948	c.3841G>T	c.(3841-3843)GGT>TGT	p.G1281C	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Missense_Mutation_p.G812C|TRO_uc004dtw.2_Missense_Mutation_p.G884C|TRO_uc004dtx.2_Missense_Mutation_p.G664C	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	1281	62 X 10 AA approximate tandem repeats.|48.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						TGGCTTTGGTGGTGGACTGGT	0.602													41	68	---	---	---	---	PASS	T	54956998	T	T	54956998	3	4	38	1	0	0	0	0	1	0	0	0	16571	1348	47	3	3883	3	TRO	23	54956998	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	1706951	54956998	100313562	216	15188										
FAM104B	90736	broad.mit.edu	37	chrX	55172681	55172681	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ctggtttaagttgccttctgGtccacttgctctctctggga	10	11	3	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:55172681G>T	uc004duh.1	-	3	204	c.184C>A	c.(184-186)CCA>ACA	p.P62T	FAM104B_uc004dug.1_Missense_Mutation_p.P63T|FAM104B_uc004dui.3_Missense_Mutation_p.P63T	NM_138362	NP_612371	Q5XKR9	F104B_HUMAN	hypothetical protein LOC90736	62											0						TTGCCTTCTGGTCCACTTGCT	0.443													60	105	---	---	---	---	PASS	T	55172681	T	T	55172681	3	4	38	1	0	0	0	0	1	0	0	0	5386	1261	44	3	268	3	FAM104B	23	55172681	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	215683	55172681	100097879	217	15189										
ARHGEF9	23229	broad.mit.edu	37	chrX	62917068	62917068	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tcattgttatactgtttctcCaggtctctcacaaagcccat	5	12	4	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:62917068C>A	uc004dvl.2	-	4	1337	c.498G>T	c.(496-498)CTG>CTT	p.L166L	ARHGEF9_uc004dvj.1_Silent_p.L55L|ARHGEF9_uc004dvk.1_Silent_p.L28L|ARHGEF9_uc011mos.1_Silent_p.L145L|ARHGEF9_uc004dvm.1_Silent_p.L145L|ARHGEF9_uc011mot.1_Silent_p.L113L|ARHGEF9_uc004dvn.2_Silent_p.L173L	NM_015185	NP_056000	O43307	ARHG9_HUMAN	Cdc42 guanine exchange factor 9	166	DH.				apoptosis|induction of apoptosis by extracellular signals|ion transmembrane transport|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(5)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	8						ACTGTTTCTCCAGGTCTCTCA	0.468													28	38	---	---	---	---	PASS	A	62917068	A	A	62917068	2	1	38	1	0	0	0	0	0	0	0	1	912	581	21	3		3	ARHGEF9	23	62917068	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	7744387	62917068	92353492	218	15190										
ZC3H12B	340554	broad.mit.edu	37	chrX	64723017	64723017	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	atcgtccttgcagtgatggaGaagaatccccacacagcaga	10	11	0	4			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:64723017G>A	uc010nko.2	+	5	2415	c.2406G>A	c.(2404-2406)GAG>GAA	p.E802E		NM_001010888	NP_001010888	Q5HYM0	ZC12B_HUMAN	zinc finger CCCH-type containing 12B	802							endonuclease activity|nucleic acid binding|zinc ion binding			lung(1)|kidney(1)|pancreas(1)	3						CAGTGATGGAGAAGAATCCCC	0.448													19	45	---	---	---	---	PASS	A	64723017	A	A	64723017	2	1	38	1	0	0	0	0	0	0	0	1	17559	933	33	2		2	ZC3H12B	23	64723017	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	1805949	64723017	90547543	219	15191										
HEPH	9843	broad.mit.edu	37	chrX	65417678	65417678	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	cataagagacacaaattctgGcctggtgggcccgctgctgg	13	11	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:65417678G>A	uc011moz.1	+	10	1724	c.1664G>A	c.(1663-1665)GGC>GAC	p.G555D	HEPH_uc004dwn.2_Missense_Mutation_p.G555D|HEPH_uc004dwo.2_Missense_Mutation_p.G285D|HEPH_uc010nkr.2_Intron|HEPH_uc011mpa.1_Missense_Mutation_p.G555D	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	552	Extracellular (Potential).|Plastocyanin-like 3.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						ACAAATTCTGGCCTGGTGGGC	0.577													18	29	---	---	---	---	PASS	A	65417678	A	A	65417678	3	1	38	1	0	0	0	0	1	0	0	0	7054	1203	42	3	1855	3	HEPH	23	65417678	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	694661	65417678	89852882	220	15192										
SLC7A3	84889	broad.mit.edu	37	chrX	70145715	70145715	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	caaggtctacagttttggctCtagacttgcgtgagggttgg	14	7	2	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:70145715C>G	uc004dyn.2	-	12	1966	c.1808G>C	c.(1807-1809)AGA>ACA	p.R603T	SLC7A3_uc004dyo.2_Missense_Mutation_p.R603T	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	603	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AGTTTTGGCTCTAGACTTGCG	0.498													44	83	---	---	---	---	PASS	G	70145715	G	G	70145715	3	3	38	1	0	0	0	0	1	0	0	0	14698	913	32	2	55	2	SLC7A3	23	70145715	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	4728037	70145715	85124845	221	15193										
ACRC	93953	broad.mit.edu	37	chrX	70823555	70823555	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggaagttcccgacgacaacaGtgatgattcagaagctcccg	11	11	1	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:70823555G>A	uc004eae.2	+	8	929	c.428G>A	c.(427-429)AGT>AAT	p.S143N	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	143	Asp/Ser-rich.					nucleus				ovary(3)	3	Renal(35;0.156)					GACGACAACAGTGATGATTCA	0.473													5	349	---	---	---	---	PASS	A	70823555	A	A	70823555	3	1	38	1	0	0	0	0	1	0	0	0	171	1029	36	3	454	3	ACRC	23	70823555	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	677840	70823555	84447005	222	15194										
ZDHHC15	158866	broad.mit.edu	37	chrX	74742797	74742797	+	Silent	SNP	G	T	T													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ataacgagcactggcacccaGgacagtacccggcggcagca							TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:74742797G>T	uc004ecg.2	-	1	541	c.63C>A	c.(61-63)TCC>TCA	p.S21S	ZDHHC15_uc004ech.2_Silent_p.S21S|ZDHHC15_uc011mqo.1_RNA|ZDHHC15_uc004eci.2_Silent_p.S21S	NM_144969	NP_659406	Q96MV8	ZDH15_HUMAN	zinc finger, DHHC-type containing 15 isoform 1	21	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(2)	2						CTGGCACCCAGGACAGTACCC	0.622													23	48	---	---	---	---	PASS	T	74742797	T	T	74742797	2	4	38	1	0	0	0	0	0	0	0	1	17602	987	35	3		3	ZDHHC15	23	74742797	Silent	SNP	G	TCGA-22-4601-01A-01D-1441-08	3919242	74742797	80527763	223	15195	381	2								
ZDHHC15	158866	broad.mit.edu	37	chrX	74742798	74742798	+	Missense_Mutation	SNP	G	T	T													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	taacgagcactggcacccagGacagtacccggcggcagcac							TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:74742798G>T	uc004ecg.2	-	1	540	c.62C>A	c.(61-63)TCC>TAC	p.S21Y	ZDHHC15_uc004ech.2_Missense_Mutation_p.S21Y|ZDHHC15_uc011mqo.1_RNA|ZDHHC15_uc004eci.2_Missense_Mutation_p.S21Y	NM_144969	NP_659406	Q96MV8	ZDH15_HUMAN	zinc finger, DHHC-type containing 15 isoform 1	21	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(2)	2						TGGCACCCAGGACAGTACCCG	0.622													22	48	---	---	---	---	PASS	T	74742798	T	T	74742798	3	4	38	1	0	0	0	0	1	0	0	0	17602	1174	41	2	1075	2	ZDHHC15	23	74742798	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	1	74742798	80527762	224	15196	381	2								
TGIF2LX	90316	broad.mit.edu	37	chrX	89177357	89177357	+	Missense_Mutation	SNP	T	A	A													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	atgctgtcagagaagaccaaTttgtctttgttgcagatttc							TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:89177357T>A	uc004efe.2	+	2	322	c.273T>A	c.(271-273)AAT>AAA	p.N91K		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	91	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						AGAAGACCAATTTGTCTTTGT	0.473													19	282	---	---	---	---	PASS	A	89177357	A	A	89177357	3	1	38	1	0	0	0	0	1	0	0	0	15824	1490	52	5	275	5	TGIF2LX	23	89177357	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	14434559	89177357	66093203	225	15197	382	2								
TGIF2LX	90316	broad.mit.edu	37	chrX	89177358	89177358	+	Missense_Mutation	SNP	T	A	A													0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tgctgtcagagaagaccaatTtgtctttgttgcagatttct							TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:89177358T>A	uc004efe.2	+	2	323	c.274T>A	c.(274-276)TTG>ATG	p.L92M		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	92	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GAAGACCAATTTGTCTTTGTT	0.468													18	283	---	---	---	---	PASS	A	89177358	A	A	89177358	3	1	38	1	0	0	0	0	1	0	0	0	15824	1838	64	5	276	5	TGIF2LX	23	89177358	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	1	89177358	66093202	226	15198	382	2								
TGIF2LX	90316	broad.mit.edu	37	chrX	89177376	89177376	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	atttgtctttgttgcagattTctaactggtttatcaatgct	7	6	3	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:89177376T>A	uc004efe.2	+	2	341	c.292T>A	c.(292-294)TCT>ACT	p.S98T		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	98	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GTTGCAGATTTCTAACTGGTT	0.473													111	209	---	---	---	---	PASS	A	89177376	A	A	89177376	3	1	38	1	0	0	0	0	1	0	0	0	15824	1783	62	5	294	5	TGIF2LX	23	89177376	Missense_Mutation	SNP	T	TCGA-22-4601-01A-01D-1441-08	18	89177376	66093184	227	15199										
NRK	203447	broad.mit.edu	37	chrX	105153117	105153117	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	taggcttctgcaggtacagtCccaggtatccaaaaagcagc	10	11	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:105153117C>G	uc004emd.2	+	13	1787	c.1484C>G	c.(1483-1485)TCC>TGC	p.S495C	NRK_uc010npc.1_Missense_Mutation_p.S163C	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	495	Gln-rich.						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						CAGGTACAGTCCCAGGTATCC	0.542										HNSCC(51;0.14)			32	53	---	---	---	---	PASS	G	105153117	G	G	105153117	3	3	38	1	0	0	0	0	1	0	0	0	10655	855	30	2	1534	2	NRK	23	105153117	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	15975741	105153117	50117443	228	15200										
NRK	203447	broad.mit.edu	37	chrX	105178435	105178435	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gctaactttgccagtgccatCtgtgagtgtgttcaatgtaa	10	8	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:105178435C>A	uc004emd.2	+	20	3801	c.3498C>A	c.(3496-3498)ATC>ATA	p.I1166I	NRK_uc010npc.1_Silent_p.I834I	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1166							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						CCAGTGCCATCTGTGAGTGTG	0.368										HNSCC(51;0.14)			4	138	---	---	---	---	PASS	A	105178435	A	A	105178435	2	1	38	1	0	0	0	0	0	0	0	1	10655	927	32	2		2	NRK	23	105178435	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	25318	105178435	50092125	229	15201										
COL4A6	1288	broad.mit.edu	37	chrX	107402738	107402738	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggctgcgccagcccagggggCactgcgggatggtgatgtcc	18	12	0	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:107402738C>A	uc004enw.3	-	44	4872	c.4769G>T	c.(4768-4770)TGC>TTC	p.C1590F	COL4A6_uc004env.3_Missense_Mutation_p.C1589F|COL4A6_uc011msn.1_Missense_Mutation_p.C1565F|COL4A6_uc010npk.2_Missense_Mutation_p.C1532F|COL4A6_uc011msm.1_Missense_Mutation_p.C124F|COL4A6_uc010npj.2_Missense_Mutation_p.C69F	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1590	Collagen IV NC1.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						GCCCAGGGGGCACTGCGGGAT	0.612									Alport_syndrome_with_Diffuse_Leiomyomatosis				28	65	---	---	---	---	PASS	A	107402738	A	A	107402738	3	1	38	1	0	0	0	0	1	0	0	0	3695	710	25	3	314	3	COL4A6	23	107402738	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	2224303	107402738	47867822	230	15202										
COL4A6	1288	broad.mit.edu	37	chrX	107431174	107431174	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gagccagaatcaccccgatcTcctggcattccttggattgt	9	13	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:107431174T>C	uc004enw.3	-	22	1777	c.1674A>G	c.(1672-1674)GGA>GGG	p.G558G	COL4A6_uc004env.3_Silent_p.G557G|COL4A6_uc011msn.1_Silent_p.G557G|COL4A6_uc010npk.2_Silent_p.G557G	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	558	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						CACCCCGATCTCCTGGCATTC	0.537									Alport_syndrome_with_Diffuse_Leiomyomatosis				77	182	---	---	---	---	PASS	C	107431174	C	C	107431174	2	2	38	1	0	0	0	0	0	0	0	1	3695	1538	54	5		5	COL4A6	23	107431174	Silent	SNP	T	TCGA-22-4601-01A-01D-1441-08	28436	107431174	47839386	231	15203										
ACSL4	2182	broad.mit.edu	37	chrX	108921307	108921307	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	gtcagttctagcacatgagcCaaaggcaagtagccaatata	9	9	2	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:108921307C>A	uc004eoi.2	-	9	1468	c.963G>T	c.(961-963)TTG>TTT	p.L321F	ACSL4_uc004eoj.2_Missense_Mutation_p.L280F|ACSL4_uc004eok.2_Missense_Mutation_p.L280F|ACSL4_uc010npp.1_Missense_Mutation_p.L321F	NM_022977	NP_075266	O60488	ACSL4_HUMAN	acyl-CoA synthetase long-chain family member 4	321	Cytoplasmic (Potential).				fatty acid metabolic process|learning or memory|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(1)|lung(1)|ovary(1)	3					Icosapent(DB00159)|Troglitazone(DB00197)	GCACATGAGCCAAAGGCAAGT	0.388													36	83	---	---	---	---	PASS	A	108921307	A	A	108921307	3	1	38	1	0	0	0	0	1	0	0	0	179	593	21	3	1208	3	ACSL4	23	108921307	Missense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	1490133	108921307	46349253	232	15204										
ODZ1	10178	broad.mit.edu	37	chrX	123787591	123787591	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tctgcatgacctgtgcaccaAtgtcaacttctccagtgtct	7	13	4	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:123787591A>T	uc004euj.2	-	7	1275	c.1211T>A	c.(1210-1212)ATT>AAT	p.I404N	ODZ1_uc011muj.1_Missense_Mutation_p.I403N|ODZ1_uc010nqy.2_Missense_Mutation_p.I404N	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	404	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CTGTGCACCAATGTCAACTTC	0.388													69	155	---	---	---	---	PASS	T	123787591	T	T	123787591	3	4	38	1	0	0	0	0	1	0	0	0	10834	101	4	5	7091	5	ODZ1	23	123787591	Missense_Mutation	SNP	A	TCGA-22-4601-01A-01D-1441-08	14866284	123787591	31482969	233	15205										
ODZ1	10178	broad.mit.edu	37	chrX	123839017	123839017	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	ggcctgggagggggcgagtaCacggtattggatgtcagagg	20	6	1	1			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:123839017C>A	uc004euj.2	-	5	925	c.861G>T	c.(859-861)GTG>GTT	p.V287V	ODZ1_uc011muj.1_Silent_p.V287V|ODZ1_uc010nqy.2_Silent_p.V287V	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	287	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GGGGCGAGTACACGGTATTGG	0.507													67	139	---	---	---	---	PASS	A	123839017	A	A	123839017	2	1	38	1	0	0	0	0	0	0	0	1	10834	465	17	3		3	ODZ1	23	123839017	Silent	SNP	C	TCGA-22-4601-01A-01D-1441-08	51426	123839017	31431543	234	15206										
GPC3	2719	broad.mit.edu	37	chrX	132888123	132888123	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	acccacaaactcaaaagcttGtggagtcaggcttgggtagt	11	9	2	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:132888123G>T	uc004exe.1	-	3	608	c.418C>A	c.(418-420)CAA>AAA	p.Q140K	GPC3_uc004exd.1_Missense_Mutation_p.Q12K|GPC3_uc010nrn.1_Missense_Mutation_p.Q140K|GPC3_uc011mvh.1_Missense_Mutation_p.Q124K|GPC3_uc010nro.1_Missense_Mutation_p.Q86K|GPC3_uc010nrp.1_Missense_Mutation_p.Q12K	NM_004484	NP_004475	P51654	GPC3_HUMAN	glypican 3 isoform 2 precursor	140						extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding|peptidyl-dipeptidase inhibitor activity			lung(2)|prostate(1)|breast(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					TCAAAAGCTTGTGGAGTCAGG	0.388			T|D|Mis|N|F|S			Wilms tumour			Simpson-Golabi-Behmel_syndrome				82	161	---	---	---	---	PASS	T	132888123	T	T	132888123	3	4	38	1	0	0	0	0	1	0	0	0	6599	1386	48	3	1421	3	GPC3	23	132888123	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	9049106	132888123	22382437	235	15207										
GPR112	139378	broad.mit.edu	37	chrX	135474460	135474460	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tttcagatgatatgttcattCaaaacttagctgacccagtg	7	8	3	3			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:135474460C>T	uc004ezu.1	+	17	8272	c.7981C>T	c.(7981-7983)CAA>TAA	p.Q2661*	GPR112_uc010nsb.1_Nonsense_Mutation_p.Q2456*	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	2661	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TATGTTCATTCAAAACTTAGC	0.403													49	104	---	---	---	---	PASS	T	135474460	T	T	135474460	4	4	38	1	0	0	0	0	0	1	0	0	6629	827	29	2	8035	2	GPR112	23	135474460	Nonsense_Mutation	SNP	C	TCGA-22-4601-01A-01D-1441-08	2586337	135474460	19796100	236	15208										
F9	2158	broad.mit.edu	37	chrX	138630608	138630608	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tggtttgctcctgtactgagGgatatcgacttgcagaaaac	11	8	0	2			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:138630608G>A	uc004fas.1	+	5	507	c.478G>A	c.(478-480)GGA>AGA	p.G160R	F9_uc004fat.1_Missense_Mutation_p.G122R	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	160	EGF-like 2.		G -> E (in HEMB; mild).		blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	CTGTACTGAGGGATATCGACT	0.358													17	104	---	---	---	---	PASS	A	138630608	A	A	138630608	3	1	38	1	0	0	0	0	1	0	0	0	5351	1233	43	3	496	3	F9	23	138630608	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	3156148	138630608	16639952	237	15209										
SLITRK4	139065	broad.mit.edu	37	chrX	142716937	142716937	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.123404255319149	29	0.000742413666611126	1.94597209193246	2.05254662840746	1.89420731707317	0.0671374425582784	0.321693358314871	14	tccttagctgcagctgcatgGagccacagtcaggattcccc	10	14	1	0			TCGA-22-4601-01A-01D-1441-08	TCGA-22-4601-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c05b3f5-65e9-4e7d-9f99-a694006f2ed0	9708f08b-7982-4962-a05e-f82a3b24ac20	g.chrX:142716937G>T	uc004fbx.2	-	2	2364	c.1988C>A	c.(1987-1989)TCC>TAC	p.S663Y	SLITRK4_uc004fby.2_Missense_Mutation_p.S663Y	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	663	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CAGCTGCATGGAGCCACAGTC	0.458													69	185	---	---	---	---	PASS	T	142716937	T	T	142716937	3	4	38	1	0	0	0	0	1	0	0	0	14745	1174	41	2	529	2	SLITRK4	23	142716937	Missense_Mutation	SNP	G	TCGA-22-4601-01A-01D-1441-08	4086329	142716937	12553623	238	15210										
SLC2A5	6518	broad.mit.edu	37	chr1	9099965	9099965	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tcagcacggagatgaagcccGcggccttctctgcctcatcc	10	16	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:9099965G>A	uc001apo.2	-	7	1071	c.779C>T	c.(778-780)GCG>GTG	p.A260V	SLC2A5_uc010nzy.1_Missense_Mutation_p.A201V|SLC2A5_uc010nzz.1_Missense_Mutation_p.A145V|SLC2A5_uc010oaa.1_Missense_Mutation_p.A216V|SLC2A5_uc010oab.1_Missense_Mutation_p.A260V	NM_003039	NP_003030	P22732	GTR5_HUMAN	solute carrier family 2 (facilitated	260	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	fructose transmembrane transporter activity|glucose transmembrane transporter activity			pancreas(2)|ovary(1)	3	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.78e-07)|COAD - Colon adenocarcinoma(227;8.83e-05)|Kidney(185;0.000286)|KIRC - Kidney renal clear cell carcinoma(229;0.00103)|STAD - Stomach adenocarcinoma(132;0.0019)|BRCA - Breast invasive adenocarcinoma(304;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		GATGAAGCCCGCGGCCTTCTC	0.677													28	47	---	---	---	---	PASS	A	9099965	A	A	9099965	3	1	39	1	0	0	0	0	1	0	0	0	14548	1087	38	1	750	1	SLC2A5	1	9099965	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08		9099965	240150656	1	15211										
AHDC1	27245	broad.mit.edu	37	chr1	27877769	27877769	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tccccgagcggctctagtgcCtgcgggtccaggaagcgggg	17	13	1	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:27877769C>A	uc009vsy.2	-	6	1827	c.858G>T	c.(856-858)CAG>CAT	p.Q286H	AHDC1_uc009vsz.1_Missense_Mutation_p.Q286H|AHDC1_uc001boh.1_Missense_Mutation_p.Q159H	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	286	Pro-rich.						DNA binding			central_nervous_system(1)	1		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		GCTCTAGTGCCTGCGGGTCCA	0.716													36	62	---	---	---	---	PASS	A	27877769	A	A	27877769	3	1	39	1	0	0	0	0	1	0	0	0	412	680	24	3	3957	3	AHDC1	1	27877769	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	18777804	27877769	221372852	2	15212										
SPOCD1	90853	broad.mit.edu	37	chr1	32262312	32262312	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gttgctgctcaatgatattcAggccctgaagaggtggagca	13	8	2	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:32262312A>G	uc001bts.1	-	10	2208	c.2150T>C	c.(2149-2151)CTG>CCG	p.L717P	SPOCD1_uc001btt.2_Missense_Mutation_p.L23P|SPOCD1_uc001btu.2_Missense_Mutation_p.L717P|SPOCD1_uc001btv.2_Missense_Mutation_p.L210P|SPOCD1_uc001btw.1_Missense_Mutation_p.L61P	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	717	TFIIS central.				transcription, DNA-dependent					ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)		AATGATATTCAGGCCCTGAAG	0.567													4	417	---	---	---	---	PASS	G	32262312	G	G	32262312	3	3	39	1	0	0	0	0	1	0	0	0	15077	188	7	5	1528	5	SPOCD1	1	32262312	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	4384543	32262312	216988309	3	15213										
SLC1A7	6512	broad.mit.edu	37	chr1	53555552	53555552	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agcacgatgaccatggtgacGaggccggcctgggggatgcc	17	11	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:53555552G>T	uc001cuy.2	-	9	1449	c.1281C>A	c.(1279-1281)CTC>CTA	p.L427L	SLC1A7_uc001cux.2_Silent_p.L80L	NM_006671	NP_006662	O00341	EAA5_HUMAN	solute carrier family 1 (glutamate transporter),	427	Helical; (Potential).					integral to membrane|plasma membrane	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|large_intestine(1)	3				Colorectal(1306;0.234)	L-Glutamic Acid(DB00142)	CCATGGTGACGAGGCCGGCCT	0.627													120	117	---	---	---	---	PASS	T	53555552	T	T	53555552	2	4	39	1	0	0	0	0	0	0	0	1	14437	1045	37	2		2	SLC1A7	1	53555552	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	21293240	53555552	195695069	4	15214										
SGIP1	84251	broad.mit.edu	37	chr1	67199524	67199524	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aaagtgtctgaacaaaaaccCcaggctacatattataacgt	6	9	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:67199524C>A	uc001dcr.2	+	21	2209	c.1992C>A	c.(1990-1992)CCC>CCA	p.P664P	SGIP1_uc010opd.1_Silent_p.P264P|SGIP1_uc001dcs.2_Silent_p.P264P|SGIP1_uc001dct.2_Silent_p.P266P|SGIP1_uc009wat.2_Silent_p.P458P|SGIP1_uc001dcu.2_Silent_p.P169P	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	664					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						AACAAAAACCCCAGGCTACAT	0.358													97	118	---	---	---	---	PASS	A	67199524	A	A	67199524	2	1	39	1	0	0	0	0	0	0	0	1	14206	610	22	3		3	SGIP1	1	67199524	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	13643972	67199524	182051097	5	15215										
C1orf173	127254	broad.mit.edu	37	chr1	75055689	75055689	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cagtgtgggcttccctgtccCccactgcagattcatcctca	8	16	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:75055689C>T	uc001dgg.2	-	12	2021	c.1802G>A	c.(1801-1803)GGG>GAG	p.G601E	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.G395E	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	601	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TTCCCTGTCCCCCACTGCAGA	0.433													89	67	---	---	---	---	PASS	T	75055689	T	T	75055689	3	4	39	1	0	0	0	0	1	0	0	0	2014	623	22	3	2802	3	C1orf173	1	75055689	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	7856165	75055689	174194932	6	15216										
SORT1	6272	broad.mit.edu	37	chr1	109912202	109912202	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tactgagcctctgagatcatCaaacacatgctataagggga	9	9	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:109912202C>G	uc001dxm.1	-	2	365	c.316G>C	c.(316-318)GAT>CAT	p.D106H	SORT1_uc010ovi.1_5'UTR|SORT1_uc009wfb.2_5'UTR	NM_002959	NP_002950	Q99523	SORT_HUMAN	sortilin 1 preproprotein	106	Extracellular (Potential).				endocytosis|endosome to lysosome transport|endosome transport via multivesicular body sorting pathway|glucose import|Golgi to endosome transport|induction of apoptosis by extracellular signals|myotube differentiation|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|neuropeptide signaling pathway|ossification|plasma membrane to endosome transport|regulation of gene expression|response to insulin stimulus|vesicle organization	cell surface|coated pit|early endosome|endoplasmic reticulum membrane|endosome membrane|Golgi cisterna membrane|integral to membrane|lysosomal membrane|microsome|nuclear membrane|perinuclear region of cytoplasm|plasma membrane	enzyme binding|nerve growth factor binding|nerve growth factor receptor activity|neurotensin receptor activity, non-G-protein coupled			ovary(1)	1		all_epithelial(167;4.69e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0529)|Colorectal(144;0.142)|Epithelial(280;0.145)|Kidney(133;0.169)|all cancers(265;0.184)		CTGAGATCATCAAACACATGC	0.378													7	92	---	---	---	---	PASS	G	109912202	G	G	109912202	3	3	39	1	0	0	0	0	1	0	0	0	14935	826	29	2	2255	2	SORT1	1	109912202	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	34856513	109912202	139338419	7	15217										
TCHH	7062	broad.mit.edu	37	chr1	152080892	152080892	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctggcggcgcagctgctgttCgtcctccatgaattttctct	10	13	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:152080892C>T	uc001ezp.2	-	2	4801	c.4801G>A	c.(4801-4803)GAA>AAA	p.E1601K	TCHH_uc009wne.1_Missense_Mutation_p.E1601K	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1601	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGCTGCTGTTCGTCCTCCATG	0.562													6	254	---	---	---	---	PASS	T	152080892	T	T	152080892	3	4	39	1	0	0	0	0	1	0	0	0	15697	893	31	2	1034	2	TCHH	1	152080892	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	42168690	152080892	97169729	8	15218										
ARHGEF2	9181	broad.mit.edu	37	chr1	155927613	155927613	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gctgatcagaaacatcccttTctcctggttggcaatgtctc	8	12	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:155927613T>C	uc001fmt.2	-	13	1724	c.1606A>G	c.(1606-1608)AAA>GAA	p.K536E	ARHGEF2_uc001fmr.2_Missense_Mutation_p.K508E|ARHGEF2_uc001fms.2_Missense_Mutation_p.K535E|ARHGEF2_uc001fmu.2_Missense_Mutation_p.K580E	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	536	PH.				actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					AACATCCCTTTCTCCTGGTTG	0.552													24	109	---	---	---	---	PASS	C	155927613	C	C	155927613	3	2	39	1	0	0	0	0	1	0	0	0	903	1792	62	5	1394	5	ARHGEF2	1	155927613	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	3846721	155927613	93323008	9	15219										
INSRR	3645	broad.mit.edu	37	chr1	156818779	156818779	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtggctcatagcgctcccagCgtagcaggatgcggtctgcc	14	13	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:156818779C>A	uc010pht.1	-	7	1759	c.1505G>T	c.(1504-1506)CGC>CTC	p.R502L	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	502	Fibronectin type-III 1.				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GCGCTCCCAGCGTAGCAGGAT	0.567													10	18	---	---	---	---	PASS	A	156818779	A	A	156818779	3	1	39	1	0	0	0	0	1	0	0	0	7774	768	27	1	2451	1	INSRR	1	156818779	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	891166	156818779	92431842	10	15220										
SPTA1	6708	broad.mit.edu	37	chr1	158646059	158646059	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggatgggaaagtgtcagcttCtctgctttagcacataactc	10	9	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:158646059C>T	uc001fst.1	-	8	1183	c.984G>A	c.(982-984)GAG>GAA	p.E328E		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	328	Spectrin 4.				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)					GTGTCAGCTTCTCTGCTTTAG	0.498													93	411	---	---	---	---	PASS	T	158646059	T	T	158646059	2	4	39	1	0	0	0	0	0	0	0	1	15115	912	32	2		2	SPTA1	1	158646059	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	1827280	158646059	90604562	11	15221										
DNM3	26052	broad.mit.edu	37	chr1	171958143	171958143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aaagtgcctgtgggagatcaGccaccagatatcgagtatca	11	9	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:171958143G>T	uc001gie.2	+	4	620	c.444G>T	c.(442-444)CAG>CAT	p.Q148H	DNM3_uc001gid.3_Missense_Mutation_p.Q148H|DNM3_uc009wwb.2_Missense_Mutation_p.Q148H|DNM3_uc001gif.2_Missense_Mutation_p.Q148H	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	148					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						TGGGAGATCAGCCACCAGATA	0.413													18	17	---	---	---	---	PASS	T	171958143	T	T	171958143	3	4	39	1	0	0	0	0	1	0	0	0	4673	962	34	3	458	3	DNM3	1	171958143	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	13312084	171958143	77292478	12	15222										
DNM3	26052	broad.mit.edu	37	chr1	172357850	172357850	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggctcctccagtcccattccGtccaggcccattacctcctt	6	19	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:172357850G>A	uc001gie.2	+	20	2599	c.2423G>A	c.(2422-2424)CGT>CAT	p.R808H	DNM3_uc001gif.2_Missense_Mutation_p.R804H|DNM3_uc001gih.1_Missense_Mutation_p.R164H	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	814					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						GTCCCATTCCGTCCAGGCCCA	0.647													17	29	---	---	---	---	PASS	A	172357850	A	A	172357850	3	1	39	1	0	0	0	0	1	0	0	0	4673	1145	40	1	2501	1	DNM3	1	172357850	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	399707	172357850	76892771	13	15223										
PAPPA2	60676	broad.mit.edu	37	chr1	176709266	176709266	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggctctaaggacatcctcccGcattggtctttcggctccca	9	15	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:176709266G>A	uc001gkz.2	+	14	5249	c.4085G>A	c.(4084-4086)CGC>CAC	p.R1362H	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1362					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						ACATCCTCCCGCATTGGTCTT	0.507													25	158	---	---	---	---	PASS	A	176709266	A	A	176709266	3	1	39	1	0	0	0	0	1	0	0	0	11433	1087	38	1	4188	1	PAPPA2	1	176709266	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	4351416	176709266	72541355	14	15224										
IARS2	55699	broad.mit.edu	37	chr1	220315157	220315157	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ttgttcaggctctattgtgaAaaggaaaatgaccccaaacg	9	8	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr1:220315157A>G	uc001hmc.2	+	20	2531	c.2427A>G	c.(2425-2427)GAA>GAG	p.E809E	IARS2_uc001hmd.2_Silent_p.E145E	NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase	809					isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	TCTATTGTGAAAAGGAAAATG	0.413													8	454	---	---	---	---	PASS	G	220315157	G	G	220315157	2	3	39	1	0	0	0	0	0	0	0	1	7474	11	1	5		5	IARS2	1	220315157	Silent	SNP	A	TCGA-22-4604-01A-01D-1267-08	43605891	220315157	28935464	15	15225										
APOB	338	broad.mit.edu	37	chr2	21230881	21230881	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gacagtccaaaggaagtgagGggtccttctatggtgaaact	13	7	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:21230881G>A	uc002red.2	-	26	8987	c.8859C>T	c.(8857-8859)CCC>CCT	p.P2953P		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2953					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AGGAAGTGAGGGGTCCTTCTA	0.423													67	469	---	---	---	---	PASS	A	21230881	A	A	21230881	2	1	39	1	0	0	0	0	0	0	0	1	785	1219	43	3		3	APOB	2	21230881	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08		21230881	221968492	16	15226										
APOB	338	broad.mit.edu	37	chr2	21231883	21231883	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atcctcaaatctgttaggggGactataaaatcaggtgtctg	10	7	4	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:21231883G>A	uc002red.2	-	26	7985	c.7857C>T	c.(7855-7857)GTC>GTT	p.V2619V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2619					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CTGTTAGGGGGACTATAAAAT	0.413													84	261	---	---	---	---	PASS	A	21231883	A	A	21231883	2	1	39	1	0	0	0	0	0	0	0	1	785	1161	41	2		2	APOB	2	21231883	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	1002	21231883	221967490	17	15227										
WDR43	23160	broad.mit.edu	37	chr2	29145784	29145784	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ttggttacatttttcttttaGcctgtcaagttggctgttgt	9	6	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:29145784G>A	uc002rmo.2	+	7	882	c.850_splice	c.e7-1	p.P284_splice		NM_015131	NP_055946	Q15061	WDR43_HUMAN	WD repeat domain 43							nucleolus				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TTTTCTTTTAGCCTGTCAAGT	0.363													20	59	---	---	---	---	PASS	A	29145784	A	A	29145784	5	1	39	1	0	0	0	0	0	0	1	0	17292	985	34	3	875	3	WDR43	2	29145784	Splice_Site	SNP	G	TCGA-22-4604-01A-01D-1267-08	7913901	29145784	214053589	18	15228										
WDR43	23160	broad.mit.edu	37	chr2	29152477	29152477	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gaacgtctgggagcaatggaTatagacacacacaaaaaagg	11	7	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:29152477T>C	uc002rmo.2	+	11	1370	c.1338T>C	c.(1336-1338)GAT>GAC	p.D446D		NM_015131	NP_055946	Q15061	WDR43_HUMAN	WD repeat domain 43	446						nucleolus				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					GAGCAATGGATATAGACACAC	0.378													38	32	---	---	---	---	PASS	C	29152477	C	C	29152477	2	2	39	1	0	0	0	0	0	0	0	1	17292	1403	49	5		5	WDR43	2	29152477	Silent	SNP	T	TCGA-22-4604-01A-01D-1267-08	6693	29152477	214046896	19	15229										
NRXN1	9378	broad.mit.edu	37	chr2	50463966	50463966	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tcacccaagcctgaagaactGtccactcgcaccaatacggc	7	16	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:50463966G>C	uc010fbp.2	-	2	1209	c.402C>G	c.(400-402)GAC>GAG	p.D134E	NRXN1_uc002rxb.3_Missense_Mutation_p.D841E|NRXN1_uc010fbq.2_Missense_Mutation_p.D1209E|NRXN1_uc002rxe.3_Missense_Mutation_p.D1169E|NRXN1_uc002rxc.1_RNA	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	134	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CTGAAGAACTGTCCACTCGCA	0.418													65	76	---	---	---	---	PASS	C	50463966	C	C	50463966	3	2	39	1	0	0	0	0	1	0	0	0	10665	1368	48	4	1040	4	NRXN1	2	50463966	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	21311489	50463966	192735407	20	15230										
SPTBN1	6711	broad.mit.edu	37	chr2	54856622	54856622	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ttccacacagtctctggtcaAgaaacacaaggacgtggcgg	11	11	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:54856622A>T	uc002rxu.2	+	14	2600	c.2351A>T	c.(2350-2352)AAG>ATG	p.K784M	SPTBN1_uc002rxv.1_Missense_Mutation_p.K784M|SPTBN1_uc002rxx.2_Missense_Mutation_p.K771M	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	784	Spectrin 5.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			TCTCTGGTCAAGAAACACAAG	0.567													102	313	---	---	---	---	PASS	T	54856622	T	T	54856622	3	4	39	1	0	0	0	0	1	0	0	0	15118	72	3	5	2514	5	SPTBN1	2	54856622	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	4392656	54856622	188342751	21	15231										
C2orf63	130162	broad.mit.edu	37	chr2	55436644	55436644	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cctgtgaaattatctgcagtCtttgatgactaaaaagataa	7	6	2	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:55436644C>G	uc002ryi.2	-	7	1056	c.710G>C	c.(709-711)AGA>ACA	p.R237T	C2orf63_uc002ryh.2_Intron|C2orf63_uc002ryj.2_Missense_Mutation_p.R115T	NM_152385	NP_689598	Q8NHS4	CB063_HUMAN	hypothetical protein LOC130162 isoform 1	237							binding			ovary(2)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(58;0.179)|Lung(47;0.189)			TATCTGCAGTCTTTGATGACT	0.313													6	356	---	---	---	---	PASS	G	55436644	G	G	55436644	3	3	39	1	0	0	0	0	1	0	0	0	2182	913	32	2	1078	2	C2orf63	2	55436644	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	580022	55436644	187762729	22	15232										
MTHFD2	10797	broad.mit.edu	37	chr2	74437170	74437170	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cagatggggcgcatgaacgtCccggaggtaaggaaattgct	15	8	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:74437170C>T	uc002skk.2	+	5	743	c.664C>T	c.(664-666)CCC>TCC	p.P222S	MTHFD2_uc002skj.2_Missense_Mutation_p.P120S|MTHFD2_uc010yro.1_Missense_Mutation_p.P120S|MTHFD2_uc010ffb.2_Missense_Mutation_p.P181S|MTHFD2_uc010yrp.1_Missense_Mutation_p.P58S	NM_006636	NP_006627	P13995	MTDC_HUMAN	methylenetetrahydrofolate dehydrogenase 2	222					folic acid-containing compound biosynthetic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	magnesium ion binding|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NAD+) activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|phosphate binding|protein binding				0					NADH(DB00157)|Tetrahydrofolic acid(DB00116)	GCATGAACGTCCCGGAGGTAA	0.463													25	62	---	---	---	---	PASS	T	74437170	T	T	74437170	3	4	39	1	0	0	0	0	1	0	0	0	9929	855	30	2	682	2	MTHFD2	2	74437170	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	19000526	74437170	168762203	23	15233										
CTNNA2	1496	broad.mit.edu	37	chr2	80101302	80101302	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggcctctcaagcatttctccGccacccagatgtcgccgcta	8	17	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:80101302G>A	uc010ysh.1	+	5	691	c.686G>A	c.(685-687)CGC>CAC	p.R229H	CTNNA2_uc010yse.1_Missense_Mutation_p.R229H|CTNNA2_uc010ysf.1_Missense_Mutation_p.R229H|CTNNA2_uc010ysg.1_Missense_Mutation_p.R229H	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	229					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GCATTTCTCCGCCACCCAGAT	0.572													13	116	---	---	---	---	PASS	A	80101302	A	A	80101302	3	1	39	1	0	0	0	0	1	0	0	0	4013	1087	38	1	704	1	CTNNA2	2	80101302	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	5664132	80101302	163098071	24	15234										
CD8B	926	broad.mit.edu	37	chr2	87085229	87085229	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtcagctcggggctcccgacGatcatgcagaagtagatgcc	13	12	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:87085229G>A	uc002srz.2	-	2	404	c.354C>T	c.(352-354)ATC>ATT	p.I118I	RMND5A_uc002srs.3_Intron|CD8B_uc002srw.2_Silent_p.I118I|CD8B_uc002srx.2_Silent_p.I118I|CD8B_uc002sry.2_Silent_p.I118I|CD8B_uc010fgt.2_Silent_p.I118I|CD8B_uc002ssa.2_Silent_p.I118I|CD8B_uc010yto.1_Silent_p.I118I	NM_004931	NP_004922	P10966	CD8B_HUMAN	CD8b antigen isoform 5 precursor	118	Ig-like V-type.|Extracellular (Potential).				immune response|regulation of defense response to virus by virus|regulation of immune response|T cell activation|transmembrane receptor protein tyrosine kinase signaling pathway|viral reproduction	early endosome|extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			upper_aerodigestive_tract(1)|skin(1)	2						GGCTCCCGACGATCATGCAGA	0.468													23	468	---	---	---	---	PASS	A	87085229	A	A	87085229	2	1	39	1	0	0	0	0	0	0	0	1	3045	1048	37	2		2	CD8B	2	87085229	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	6983927	87085229	156114144	25	15235										
C2orf55	343990	broad.mit.edu	37	chr2	99449396	99449396	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aggccgagtagcgtcctgtcCggactcaggaatgaaaatac	12	10	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:99449396C>T	uc002szf.1	-	4	598	c.304G>A	c.(304-306)GGA>AGA	p.G102R		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	102											0						GCGTCCTGTCCGGACTCAGGA	0.547													12	778	---	---	---	---	PASS	T	99449396	T	T	99449396	3	4	39	1	0	0	0	0	1	0	0	0	2176	661	23	1	2612	1	C2orf55	2	99449396	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	12364167	99449396	143749977	26	15236										
EIF5B	9669	broad.mit.edu	37	chr2	99977788	99977788	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctgggagtgatgatgatgatGattttaacaaacttcctaaa	9	5	0	5			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:99977788G>A	uc002tab.2	+	4	608	c.424G>A	c.(424-426)GAT>AAT	p.D142N		NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	142	Poly-Asp.				regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						TGATGATGATGATTTTAACAA	0.333													14	318	---	---	---	---	PASS	A	99977788	A	A	99977788	3	1	39	1	0	0	0	0	1	0	0	0	5044	1290	45	2	438	2	EIF5B	2	99977788	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	528392	99977788	143221585	27	15237										
AFF3	3899	broad.mit.edu	37	chr2	100170874	100170874	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tggccgccatctggtggatgCgctgtgggatgctgacgatg	17	9	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:100170874C>T	uc002tag.2	-	23	3694	c.3458G>A	c.(3457-3459)CGC>CAC	p.R1153H	AFF3_uc002taf.2_Missense_Mutation_p.R1178H	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	1153					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						CTGGTGGATGCGCTGTGGGAT	0.632													5	358	---	---	---	---	PASS	T	100170874	T	T	100170874	3	4	39	1	0	0	0	0	1	0	0	0	358	768	27	1	230	1	AFF3	2	100170874	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	193086	100170874	143028499	28	15238										
GPR17	2840	broad.mit.edu	37	chr2	128408404	128408404	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggagacgccactggagaacaTgctgttcgcctccttctacc	10	14	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:128408404T>C	uc010yzn.1	+	4	790	c.179T>C	c.(178-180)ATG>ACG	p.M60T	LIMS2_uc002tow.2_5'Flank|LIMS2_uc002tox.2_Intron|LIMS2_uc010fmb.2_Intron|LIMS2_uc002toy.2_Intron|LIMS2_uc010yzm.1_Intron|LIMS2_uc002tpa.2_Intron|LIMS2_uc002toz.2_Intron|LIMS2_uc002tpb.2_Intron|GPR17_uc002tpc.2_Missense_Mutation_p.M60T|GPR17_uc010yzo.1_Missense_Mutation_p.M32T|GPR17_uc002tpd.2_Missense_Mutation_p.M32T	NM_001161415	NP_001154887	Q13304	GPR17_HUMAN	G protein-coupled receptor 17 isoform a	60	Extracellular (Potential).					integral to plasma membrane	chemokine receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	Colorectal(110;0.1)	Ovarian(717;0.15)		BRCA - Breast invasive adenocarcinoma(221;0.0677)		ctggagaacatgctgttcgcc	0.154											OREG0014966	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	111	185	---	---	---	---	PASS	C	128408404	C	C	128408404	3	2	39	1	0	0	0	0	1	0	0	0	6667	1464	51	5	185	5	GPR17	2	128408404	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	28237530	128408404	114790969	29	15239										
LCT	3938	broad.mit.edu	37	chr2	136555660	136555660	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccgcgtcttcatcacctcatTgtaatctccattcttgaaaa	4	13	6	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:136555660T>C	uc002tuu.1	-	13	4926	c.4915A>G	c.(4915-4917)AAT>GAT	p.N1639D		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1639	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		ATCACCTCATTGTAATCTCCA	0.582											OREG0014998	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	97	145	---	---	---	---	PASS	C	136555660	C	C	136555660	3	2	39	1	0	0	0	0	1	0	0	0	8693	1812	63	5	888	5	LCT	2	136555660	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	8147256	136555660	106643713	30	15240										
LRP1B	53353	broad.mit.edu	37	chr2	141526894	141526894	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	attccttcatgaacagagtaCataagaaatgattctatacc	5	8	2	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:141526894C>A	uc002tvj.1	-	35	6618	c.5646G>T	c.(5644-5646)ATG>ATT	p.M1882I		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1882	Extracellular (Potential).				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)		GAACAGAGTACATAAGAAATG	0.383										TSP Lung(27;0.18)			35	50	---	---	---	---	PASS	A	141526894	A	A	141526894	3	1	39	1	0	0	0	0	1	0	0	0	8955	478	17	3	8381	3	LRP1B	2	141526894	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	4971234	141526894	101672479	31	15241										
LRP1B	53353	broad.mit.edu	37	chr2	141625227	141625227	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cactggttttctgaatcacaCtgacattctgccctgtccac	6	14	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:141625227C>G	uc002tvj.1	-	27	5483	c.4511G>C	c.(4510-4512)AGT>ACT	p.S1504T	LRP1B_uc010fnl.1_Missense_Mutation_p.S686T	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1504	Extracellular (Potential).|LDL-receptor class B 13.				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)		CTGAATCACACTGACATTCTG	0.478										TSP Lung(27;0.18)			29	258	---	---	---	---	PASS	G	141625227	G	G	141625227	3	3	39	1	0	0	0	0	1	0	0	0	8955	565	20	4	9548	4	LRP1B	2	141625227	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	98333	141625227	101574146	32	15242										
LRP1B	53353	broad.mit.edu	37	chr2	141751623	141751623	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	catcgtcgccatcacatttcCaccgagcttggatacagtgt	8	13	1	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:141751623C>A	uc002tvj.1	-	16	3557	c.2585G>T	c.(2584-2586)TGG>TTG	p.W862L	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	862	Extracellular (Potential).|LDL-receptor class A 3.				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)		ATCACATTTCCACCGAGCTTG	0.428										TSP Lung(27;0.18)			52	135	---	---	---	---	PASS	A	141751623	A	A	141751623	3	1	39	1	0	0	0	0	1	0	0	0	8955	595	21	3	11518	3	LRP1B	2	141751623	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	126396	141751623	101447750	33	15243										
NEB	4703	broad.mit.edu	37	chr2	152500339	152500339	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atcttagactcacatcgctcTggaggtcataggcctgccga	10	12	4	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:152500339T>A	uc010fnx.2	-	57	8140	c.7949A>T	c.(7948-7950)CAG>CTG	p.Q2650L		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2650	Nebulin 71.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CACATCGCTCTGGAGGTCATA	0.478													89	162	---	---	---	---	PASS	A	152500339	A	A	152500339	3	1	39	1	0	0	0	0	1	0	0	0	10302	1580	55	5	18241	5	NEB	2	152500339	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	10748716	152500339	90699034	34	15244										
CACNB4	785	broad.mit.edu	37	chr2	152727093	152727093	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aacaccaccggacgcattgaCggtacaacatcgtaaggagg	11	11	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:152727093C>T	uc002tya.2	-	8	719	c.651G>A	c.(649-651)CCG>CCA	p.P217P	CACNB4_uc002txy.2_Silent_p.P183P|CACNB4_uc002txz.2_Silent_p.P199P|CACNB4_uc010fnz.2_Silent_p.P217P|CACNB4_uc002tyb.2_Silent_p.P183P	NM_000726	NP_000717	O00305	CACB4_HUMAN	calcium channel, voltage-dependent, beta 4	217					axon guidance|membrane depolarization|synaptic transmission	cytosol|internal side of plasma membrane|plasma membrane|synapse|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.156)	Verapamil(DB00661)	GACGCATTGACGGTACAACAT	0.498													11	38	---	---	---	---	PASS	T	152727093	T	T	152727093	2	4	39	1	0	0	0	0	0	0	0	1	2555	523	19	1		1	CACNB4	2	152727093	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	226754	152727093	90472280	35	15245										
GALNT13	114805	broad.mit.edu	37	chr2	154996876	154996876	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tttcaagaaaccaagaagggCcaggagaaatgggaaaagct	12	6	1	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:154996876C>A	uc002tyr.3	+	4	736	c.169C>A	c.(169-171)CCA>ACA	p.P57T	GALNT13_uc002tyt.3_Missense_Mutation_p.P57T|GALNT13_uc010foc.1_5'UTR	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	57	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						CCAAGAAGGGCCAGGAGAAAT	0.358													6	108	---	---	---	---	PASS	A	154996876	A	A	154996876	3	1	39	1	0	0	0	0	1	0	0	0	6211	739	26	3	175	3	GALNT13	2	154996876	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	2269783	154996876	88202497	36	15246										
KCNJ3	3760	broad.mit.edu	37	chr2	155711609	155711609	+	Frame_Shift_Del	DEL	G	-	-													0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tcagaaaaagcctacagcttGggagacttgcccatgaaact							TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:155711609delG	uc002tyv.1	+	3	1485	c.1290delG	c.(1288-1290)TTGfs	p.L430fs	KCNJ3_uc010zce.1_3'UTR	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	430	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	CCTACAGCTTGGGAGACTTGC	0.403													102	60	---	---	---	---		-	155711609	-	-	155711609	7	5	39	1	0	1	0	1	0	0	0	0	8052	1339	47	0	1300	0	KCNJ3	2	155711609	Frame_Shift_Del	DEL	G	TCGA-22-4604-01A-01D-1267-08	714733	155711609	87487764	37	15247										
SLC4A10	57282	broad.mit.edu	37	chr2	162661006	162661006	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atgtgcccttgggaggaagaAaaagccatcgacgtcacagg	13	9	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:162661006A>G	uc002ubx.3	+	3	362	c.178A>G	c.(178-180)AAA>GAA	p.K60E	SLC4A10_uc010fpa.1_Missense_Mutation_p.K72E|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.K60E|SLC4A10_uc010zcs.1_Missense_Mutation_p.K71E	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	60	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						GGGAGGAAGAAAAAGCCATCG	0.438													10	48	---	---	---	---	PASS	G	162661006	G	G	162661006	3	3	39	1	0	0	0	0	1	0	0	0	14651	15	1	5	273	5	SLC4A10	2	162661006	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	6949397	162661006	80538367	38	15248										
LRP2	4036	broad.mit.edu	37	chr2	170062966	170062966	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	actgtcatagtctagagacaTgacagttctttccacattta	6	9	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:170062966T>G	uc002ues.2	-	39	7477	c.7264A>C	c.(7264-7266)ATG>CTG	p.M2422L		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2422	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TCTAGAGACATGACAGTTCTT	0.413													74	128	---	---	---	---	PASS	G	170062966	G	G	170062966	3	3	39	1	0	0	0	0	1	0	0	0	8956	1464	51	5	6867	5	LRP2	2	170062966	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	7401960	170062966	73136407	39	15249										
TTN	7273	broad.mit.edu	37	chr2	179474028	179474028	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtcaggtcggagagaatctcGgacgcgtagctgagattctc	14	9	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:179474028G>A	uc010zfg.1	-	222	44529	c.44305C>T	c.(44305-44307)CGA>TGA	p.R14769*	uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.R8464*|TTN_uc010zfi.1_Nonsense_Mutation_p.R8397*|TTN_uc010zfj.1_Nonsense_Mutation_p.R8272*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15696							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)			AGAGAATCTCGGACGCGTAGC	0.453													21	30	---	---	---	---	PASS	A	179474028	A	A	179474028	4	1	39	1	0	0	0	0	0	1	0	0	16732	1124	39	1	56044	1	TTN	2	179474028	Nonsense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	9411062	179474028	63725345	40	15250										
CCDC141	285025	broad.mit.edu	37	chr2	179736925	179736925	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cttgctttccgtggctttaaGctgccatgccagccgaagga	11	12	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:179736925G>T	uc002unf.1	-	3	346	c.289C>A	c.(289-291)CTT>ATT	p.L97I		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	97	Potential.						protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			GTGGCTTTAAGCTGCCATGCC	0.443													10	69	---	---	---	---	PASS	T	179736925	T	T	179736925	3	4	39	1	0	0	0	0	1	0	0	0	2775	971	34	3	2382	3	CCDC141	2	179736925	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	262897	179736925	63462448	41	15251										
DNAJC10	54431	broad.mit.edu	37	chr2	183608387	183608387	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aatctgtatgtttttcagccGtctctagcagtatttaaagg	8	7	3	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:183608387G>A	uc002uow.1	+	14	1669	c.1254G>A	c.(1252-1254)CCG>CCA	p.P418P	DNAJC10_uc002uox.1_RNA|DNAJC10_uc002uoy.1_RNA|DNAJC10_uc002uoz.1_Silent_p.P372P|DNAJC10_uc010fro.1_RNA	NM_018981	NP_061854	Q8IXB1	DJC10_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 10	418					apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|ER-associated protein catabolic process|glycerol ether metabolic process|negative regulation of protein phosphorylation|protein folding|response to endoplasmic reticulum stress	endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|extracellular region	ATPase activator activity|ATPase binding|chaperone binding|electron carrier activity|heat shock protein binding|misfolded protein binding|protein disulfide oxidoreductase activity|unfolded protein binding			ovary(1)|large_intestine(1)|breast(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			TTTTTCAGCCGTCTCTAGCAG	0.333													11	233	---	---	---	---	PASS	A	183608387	A	A	183608387	2	1	39	1	0	0	0	0	0	0	0	1	4629	1132	40	1		1	DNAJC10	2	183608387	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	3871462	183608387	59590986	42	15252										
DNAH7	56171	broad.mit.edu	37	chr2	196681528	196681528	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cccatgcgggtggtgtcaatCtttttctctgtctcttcggc	10	12	4	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:196681528C>A	uc002utj.3	-	51	9686	c.9585G>T	c.(9583-9585)AAG>AAT	p.K3195N		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3195					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TGGTGTCAATCTTTTTCTCTG	0.418													16	132	---	---	---	---	PASS	A	196681528	A	A	196681528	3	1	39	1	0	0	0	0	1	0	0	0	4606	912	32	2	2549	2	DNAH7	2	196681528	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	13073141	196681528	46517845	43	15253										
DNAH7	56171	broad.mit.edu	37	chr2	196729055	196729055	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cttggttttatcccgctggcGatctaactgacgcatcttat	8	11	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:196729055G>C	uc002utj.3	-	41	7425	c.7324C>G	c.(7324-7326)CGC>GGC	p.R2442G		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2442	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TCCCGCTGGCGATCTAACTGA	0.448													9	121	---	---	---	---	PASS	C	196729055	C	C	196729055	3	2	39	1	0	0	0	0	1	0	0	0	4606	1058	37	2	4850	2	DNAH7	2	196729055	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	47527	196729055	46470318	44	15254										
MDH1B	130752	broad.mit.edu	37	chr2	207629992	207629992	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acccgcgatgacgaatttggCcatggtcgagagagactcag	13	10	1	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:207629992C>T	uc002vbs.2	-	1	59	c.4G>A	c.(4-6)GCC>ACC	p.A2T	MDH1B_uc010ziw.1_RNA|MDH1B_uc010fui.2_Missense_Mutation_p.A2T|MDH1B_uc010fuj.2_5'UTR|MDH1B_uc002vbt.2_RNA|FASTKD2_uc002vbu.2_5'Flank|FASTKD2_uc002vbv.2_5'Flank|FASTKD2_uc002vbx.2_5'Flank|FASTKD2_uc002vbw.1_5'Flank	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)	2					carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		ACGAATTTGGCCATGGTCGAG	0.647													4	150	---	---	---	---	PASS	T	207629992	T	T	207629992	3	4	39	1	0	0	0	0	1	0	0	0	9409	739	26	3	1600	3	MDH1B	2	207629992	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	10900937	207629992	35569381	45	15255										
XRCC5	7520	broad.mit.edu	37	chr2	216981498	216981498	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acagtgcacagacatctgatGctaccagattttgatttgct	8	9	1	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:216981498G>T	uc002vfy.2	+	3	392	c.252G>T	c.(250-252)ATG>ATT	p.M84I	XRCC5_uc002vfz.2_5'Flank	NM_021141	NP_066964	P13010	XRCC5_HUMAN	ATP-dependent DNA helicase II	84					double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|provirus integration|telomere maintenance|transcription, DNA-dependent	Ku70:Ku80 complex|nonhomologous end joining complex|nuclear telomere cap complex|nucleoplasm	ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|telomeric DNA binding|transcription regulatory region DNA binding			lung(1)|kidney(1)	2		Renal(323;0.0328)		Epithelial(149;9.78e-06)|all cancers(144;0.000632)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.0117)		GACATCTGATGCTACCAGATT	0.438								Direct_reversal_of_damage|NHEJ					122	227	---	---	---	---	PASS	T	216981498	T	T	216981498	3	4	39	1	0	0	0	0	1	0	0	0	17453	1319	46	3	262	3	XRCC5	2	216981498	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	9351506	216981498	26217875	46	15256										
ANO7	50636	broad.mit.edu	37	chr2	242149889	242149889	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctgtctcccgttaggcctctCgcatcgccagcctcacgggg	11	17	3	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr2:242149889C>T	uc002wax.2	+	15	1730	c.1627C>T	c.(1627-1629)CGC>TGC	p.R543C		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	543	Extracellular (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						TTAGGCCTCTCGCATCGCCAG	0.637													50	104	---	---	---	---	PASS	T	242149889	T	T	242149889	3	4	39	1	0	0	0	0	1	0	0	0	702	884	31	2	1757	2	ANO7	2	242149889	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	25168391	242149889	1049484	47	15257										
TADA3	10474	broad.mit.edu	37	chr3	9831550	9831550	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tcccttccagtttctgcttcTtgggcttcccatgtttgggg	10	12	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:9831550T>G	uc003bsx.1	-	3	853	c.305A>C	c.(304-306)AAG>ACG	p.K102T	TADA3_uc010hcn.1_Missense_Mutation_p.K102T|TADA3_uc003bsy.2_Missense_Mutation_p.K102T|ARPC4_uc003bsz.1_5'Flank|ARPC4_uc003bta.1_5'Flank|ARPC4_uc003btb.1_5'Flank|ARPC4_uc003btc.1_5'Flank	NM_006354	NP_006345	O75528	TADA3_HUMAN	transcriptional adaptor 3 isoform a	102					estrogen receptor signaling pathway|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	ligand-dependent nuclear receptor binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity				0						TTTCTGCTTCTTGGGCTTCCC	0.552													107	141	---	---	---	---	PASS	G	9831550	G	G	9831550	3	3	39	1	0	0	0	0	1	0	0	0	15509	1609	56	5	1025	5	TADA3	3	9831550	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08		9831550	188190880	48	15258										
SCN5A	6331	broad.mit.edu	37	chr3	38592834	38592834	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cttgacataagcgaagttggCcatgccaaagatggagtaga	12	7	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:38592834C>T	uc003cio.2	-	28	5223	c.5029G>A	c.(5029-5031)GCC>ACC	p.A1677T	SCN5A_uc003cin.2_Missense_Mutation_p.A1676T|SCN5A_uc003cil.3_Missense_Mutation_p.A1677T|SCN5A_uc010hhi.2_Missense_Mutation_p.A1659T|SCN5A_uc010hhk.2_Missense_Mutation_p.A1644T|SCN5A_uc011ayr.1_Missense_Mutation_p.A1623T	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1677	Helical; Name=S5 of repeat IV; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	GCGAAGTTGGCCATGCCAAAG	0.552													7	891	---	---	---	---	PASS	T	38592834	T	T	38592834	3	4	39	1	0	0	0	0	1	0	0	0	13922	739	26	3	1025	3	SCN5A	3	38592834	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	28761284	38592834	159429596	49	15259										
SCN10A	6336	broad.mit.edu	37	chr3	38740051	38740051	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aagaattgcagaaaaaatcaGgcctttaaaagaaggaagaa	9	4	1	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:38740051G>A	uc003ciq.2	-	27	4660	c.4660C>T	c.(4660-4662)CTG>TTG	p.L1554L		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1554	IV.|Helical; Name=S3 of repeat IV; (Potential).				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GAAAAAATCAGGCCTTTAAAA	0.443													73	246	---	---	---	---	PASS	A	38740051	A	A	38740051	2	1	39	1	0	0	0	0	0	0	0	1	13912	991	35	3		3	SCN10A	3	38740051	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	147217	38740051	159282379	50	15260										
ULK4	54986	broad.mit.edu	37	chr3	41439615	41439615	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agcttctgctcctttgggtcCtccttggatgtcagtaaatg	10	10	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:41439615C>A	uc003ckv.3	-	35	3834	c.3633G>T	c.(3631-3633)GAG>GAT	p.E1211D		NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	1211							ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		CCTTTGGGTCCTCCTTGGATG	0.493													222	188	---	---	---	---	PASS	A	41439615	A	A	41439615	3	1	39	1	0	0	0	0	1	0	0	0	16975	680	24	3	206	3	ULK4	3	41439615	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	2699564	41439615	156582815	51	15261										
RTP3	83597	broad.mit.edu	37	chr3	46542119	46542119	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gttcctatgatcaaggacatCtctcttgaagggccacacaa	8	11	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:46542119C>G	uc003cps.1	+	2	497	c.429C>G	c.(427-429)ATC>ATG	p.I143M		NM_031440	NP_113628	Q9BQQ7	RTP3_HUMAN	transmembrane protein 7	143	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste|protein targeting to membrane	cytoplasm|integral to membrane	protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0173)|Kidney(197;0.0204)		TCAAGGACATCTCTCTTGAAG	0.483													117	324	---	---	---	---	PASS	G	46542119	G	G	46542119	3	3	39	1	0	0	0	0	1	0	0	0	13735	903	32	2	435	2	RTP3	3	46542119	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	5102504	46542119	151480311	52	15262										
CACNA1D	776	broad.mit.edu	37	chr3	53787697	53787697	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atggttttgaaagtcatcgcAtttaagcctaaggtgagttg	11	5	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:53787697A>T	uc003dgv.3	+	29	3937	c.3774A>T	c.(3772-3774)GCA>GCT	p.A1258A	CACNA1D_uc003dgu.3_Silent_p.A1278A|CACNA1D_uc003dgy.3_Silent_p.A1258A|CACNA1D_uc003dgw.3_Silent_p.A925A|CACNA1D_uc003dgx.1_Silent_p.A406A	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1258	IV.|Helical; Name=S2 of repeat IV; (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	AAGTCATCGCATTTAAGCCTA	0.458													45	89	---	---	---	---	PASS	T	53787697	T	T	53787697	2	4	39	1	0	0	0	0	0	0	0	1	2541	204	8	5		5	CACNA1D	3	53787697	Silent	SNP	A	TCGA-22-4604-01A-01D-1267-08	7245578	53787697	144234733	53	15263										
ZBTB11	27107	broad.mit.edu	37	chr3	101390001	101390001	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atccaccacagcctcatgacTggaaacagctcctttctcaa	5	15	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:101390001T>A	uc003dve.3	-	3	981	c.751A>T	c.(751-753)AGT>TGT	p.S251C	ZBTB11_uc003dvf.2_3'UTR	NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	251	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GCCTCATGACTGGAAACAGCT	0.368													26	143	---	---	---	---	PASS	A	101390001	A	A	101390001	3	1	39	1	0	0	0	0	1	0	0	0	17521	1580	55	5	2446	5	ZBTB11	3	101390001	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	47602304	101390001	96632429	54	15264										
MYH15	22989	broad.mit.edu	37	chr3	108124257	108124257	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctttagcttccaagagttcaAgctggaaatgaagaatcttg	9	7	2	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:108124257A>T	uc003dxa.1	-	34	4781	c.4724T>A	c.(4723-4725)CTT>CAT	p.L1575H		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1575	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CAAGAGTTCAAGCTGGAAATG	0.318													26	59	---	---	---	---	PASS	T	108124257	T	T	108124257	3	4	39	1	0	0	0	0	1	0	0	0	10034	72	3	5	1152	5	MYH15	3	108124257	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	6734256	108124257	89898173	55	15265										
KIAA2018	205717	broad.mit.edu	37	chr3	113374483	113374483	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	catactgccaccagtagagaGaggaagatggggaagacttg	14	7	0	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:113374483G>A	uc003eam.2	-	7	6457	c.6046C>T	c.(6046-6048)CTC>TTC	p.L2016F	KIAA2018_uc003eal.2_Missense_Mutation_p.L1960F	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	2016					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						CCAGTAGAGAGAGGAAGATGG	0.463													28	91	---	---	---	---	PASS	A	113374483	A	A	113374483	3	1	39	1	0	0	0	0	1	0	0	0	8268	942	33	2	695	2	KIAA2018	3	113374483	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	5250226	113374483	84647947	56	15266										
PRKCI	5584	broad.mit.edu	37	chr3	170016900	170016900	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agctcactccagatgacgagTaagtaattctgtacactgaa	8	9	2	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:170016900T>G	uc003fgs.2	+	17	1941	c.1703_splice	c.e17+2	p.D568_splice	PRKCI_uc003fgt.2_Splice_Site_p.D123_splice	NM_002740	NP_002731	P41743	KPCI_HUMAN	protein kinase C, iota						anti-apoptosis|cellular membrane organization|cellular response to insulin stimulus|establishment or maintenance of epithelial cell apical/basal polarity|intracellular signal transduction|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|protein targeting to membrane|secretion|tight junction assembly|vesicle-mediated transport	cytosol|endosome|nucleus|polarisome	ATP binding|phospholipid binding|protein binding|protein kinase C activity|zinc ion binding			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			AGATGACGAGTAAGTAATTCT	0.323													18	197	---	---	---	---	PASS	G	170016900	G	G	170016900	5	3	39	1	0	0	0	0	0	0	1	0	12514	1652	57	5	1771	5	PRKCI	3	170016900	Splice_Site	SNP	T	TCGA-22-4604-01A-01D-1267-08	56642417	170016900	28005530	57	15267										
SPATA16	83893	broad.mit.edu	37	chr3	172642018	172642018	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	attcaattgggtgcttctaaTaaaatccaatattggcaaga	7	6	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:172642018T>C	uc003fin.3	-	8	1476	c.1318A>G	c.(1318-1320)ATT>GTT	p.I440V		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	440					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			GTGCTTCTAATAAAATCCAAT	0.348													11	440	---	---	---	---	PASS	C	172642018	C	C	172642018	3	2	39	1	0	0	0	0	1	0	0	0	15000	1406	49	5	407	5	SPATA16	3	172642018	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	2625118	172642018	25380412	58	15268										
CCDC39	339829	broad.mit.edu	37	chr3	180366114	180366114	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctgagctttcttaaacagcaCaccttttatgaggttcagtt	7	9	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:180366114C>A	uc010hxe.2	-	10	1316	c.1201G>T	c.(1201-1203)GTG>TTG	p.V401L	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	401	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TTAAACAGCACACCTTTTATG	0.313													28	455	---	---	---	---	PASS	A	180366114	A	A	180366114	3	1	39	1	0	0	0	0	1	0	0	0	2811	478	17	3	1668	3	CCDC39	3	180366114	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	7724096	180366114	17656316	59	15269										
ATP11B	23200	broad.mit.edu	37	chr3	182605445	182605445	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctacctattctgatatatagTcttttggaacagcatgtaga	7	7	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:182605445T>A	uc003flb.2	+	24	3044	c.2787T>A	c.(2785-2787)AGT>AGA	p.S929R	ATP11B_uc003flc.2_Missense_Mutation_p.S513R|ATP11B_uc011bqm.1_Missense_Mutation_p.S210T|ATP11B_uc010hxf.1_Missense_Mutation_p.S91R	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	929	Helical; (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			TGATATATAGTCTTTTGGAAC	0.343													27	517	---	---	---	---	PASS	A	182605445	A	A	182605445	3	1	39	1	0	0	0	0	1	0	0	0	1120	1664	58	5	2881	5	ATP11B	3	182605445	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	2239331	182605445	15416985	60	15270										
EIF4G1	1981	broad.mit.edu	37	chr3	184039421	184039421	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tcctctccaggctcccacccCtttggcatctcacacagtgg	7	18	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:184039421C>T	uc003fnp.2	+	10	1247	c.1049C>T	c.(1048-1050)CCT>CTT	p.P350L	EIF4G1_uc003fno.1_Missense_Mutation_p.P291L|EIF4G1_uc010hxw.1_Missense_Mutation_p.P186L|EIF4G1_uc003fnt.2_Missense_Mutation_p.P61L|EIF4G1_uc003fnq.2_Missense_Mutation_p.P263L|EIF4G1_uc003fnr.2_Missense_Mutation_p.P186L|EIF4G1_uc010hxx.2_Missense_Mutation_p.P357L|EIF4G1_uc003fns.2_Missense_Mutation_p.P310L|EIF4G1_uc010hxy.2_Missense_Mutation_p.P357L|EIF4G1_uc003fnv.3_Missense_Mutation_p.P350L|EIF4G1_uc003fnu.3_Missense_Mutation_p.P350L|EIF4G1_uc003fnw.2_Missense_Mutation_p.P357L|EIF4G1_uc003fnx.2_Missense_Mutation_p.P154L|EIF4G1_uc003fny.3_Missense_Mutation_p.P154L	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	350					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCTCCCACCCCTTTGGCATCT	0.532													77	832	---	---	---	---	PASS	T	184039421	T	T	184039421	3	4	39	1	0	0	0	0	1	0	0	0	5036	681	24	3	1079	3	EIF4G1	3	184039421	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	1433976	184039421	13983009	61	15271										
ATP13A4	84239	broad.mit.edu	37	chr3	193185167	193185167	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccttggcctggataacctctGttccacagaagaggacatgc	10	12	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr3:193185167G>T	uc003ftd.2	-	10	1160	c.1052C>A	c.(1051-1053)ACA>AAA	p.T351K	ATP13A4_uc003fte.1_Missense_Mutation_p.T351K|ATP13A4_uc011bsr.1_5'UTR|ATP13A4_uc010hzi.2_RNA|ATP13A4_uc003ftf.3_Missense_Mutation_p.T57K	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	351	Extracellular (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)		GATAACCTCTGTTCCACAGAA	0.493													29	324	---	---	---	---	PASS	T	193185167	T	T	193185167	3	4	39	1	0	0	0	0	1	0	0	0	1126	1377	48	3	2622	3	ATP13A4	3	193185167	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	9145746	193185167	4837263	62	15272										
CLNK	116449	broad.mit.edu	37	chr4	10509582	10509582	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gggccacgtagaaggcattaCcttgttctccttcatgaatg	10	10	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr4:10509582C>T	uc003gmo.3	-	17	1121	c.984_splice	c.e17+1	p.K328_splice		NM_052964	NP_443196	Q7Z7G1	CLNK_HUMAN	mast cell immunoreceptor signal transducer						immune response|intracellular signal transduction	intracellular	SH3/SH2 adaptor activity			ovary(1)	1						GAAGGCATTACCTTGTTCTCC	0.433													12	24	---	---	---	---	PASS	T	10509582	T	T	10509582	5	4	39	1	0	0	0	0	0	0	1	0	3547	521	18	3	313	3	CLNK	4	10509582	Splice_Site	SNP	C	TCGA-22-4604-01A-01D-1267-08		10509582	180644694	63	15273										
BOD1L	259282	broad.mit.edu	37	chr4	13603126	13603126	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gcaacttgctggcccctctcCatcttctgttatccccgtgc	7	17	3	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr4:13603126C>A	uc003gmz.1	-	10	5515	c.5398G>T	c.(5398-5400)GGA>TGA	p.G1800*	BOD1L_uc010idr.1_Nonsense_Mutation_p.G1137*	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1800							DNA binding			ovary(5)|breast(1)	6						GGCCCCTCTCCATCTTCTGTT	0.502													207	317	---	---	---	---	PASS	A	13603126	A	A	13603126	4	1	39	1	0	0	0	0	0	1	0	0	1483	603	21	3	3825	3	BOD1L	4	13603126	Nonsense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	3093544	13603126	177551150	64	15274										
SHISA3	152573	broad.mit.edu	37	chr4	42403074	42403074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cgtcggctccatcttcattgCgttcatcatcctgggctctg	9	14	5	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr4:42403074C>A	uc003gwp.2	+	2	541	c.323C>A	c.(322-324)GCG>GAG	p.A108E		NM_001080505	NP_001073974	A0PJX4	SHSA3_HUMAN	shisa homolog 3 precursor	108	Helical; (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|skin(1)	2						ATCTTCATTGCGTTCATCATC	0.498													221	314	---	---	---	---	PASS	A	42403074	A	A	42403074	3	1	39	1	0	0	0	0	1	0	0	0	14281	768	27	1	329	1	SHISA3	4	42403074	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	28799948	42403074	148751202	65	15275										
ATP10D	57205	broad.mit.edu	37	chr4	47527587	47527587	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tttttaggactctgaagttgAtcctgagaagttttccagta	9	6	1	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr4:47527587A>C	uc003gxk.1	+	5	868	c.704A>C	c.(703-705)GAT>GCT	p.D235A	ATP10D_uc003gxj.3_Missense_Mutation_p.D235A	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	235	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						TCTGAAGTTGATCCTGAGAAG	0.338													38	49	---	---	---	---	PASS	C	47527587	C	C	47527587	3	2	39	1	0	0	0	0	1	0	0	0	1118	333	12	5	718	5	ATP10D	4	47527587	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	5124513	47527587	143626689	66	15276										
SRD5A3	79644	broad.mit.edu	37	chr4	56225538	56225538	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tttcccacttttatatcatcTcagtgctgtggaatggcttc	7	10	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr4:56225538T>C	uc003hau.2	+	2	342	c.247T>C	c.(247-249)TCA>CCA	p.S83P		NM_024592	NP_078868	Q9H8P0	PORED_HUMAN	steroid 5 alpha-reductase 3	83	Helical; (Potential).				androgen biosynthetic process|dolichol metabolic process|dolichol-linked oligosaccharide biosynthetic process|polyprenol catabolic process	endoplasmic reticulum membrane|integral to membrane	3-oxo-5-alpha-steroid 4-dehydrogenase activity|oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor				0	all_cancers(7;0.0308)|all_lung(4;0.00195)|Lung NSC(11;0.00431)|all_epithelial(27;0.0425)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.0179)			TTATATCATCTCAGTGCTGTG	0.423													14	840	---	---	---	---	PASS	C	56225538	C	C	56225538	3	2	39	1	0	0	0	0	1	0	0	0	15139	1551	54	5	253	5	SRD5A3	4	56225538	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	8697951	56225538	134928738	67	15277										
CLOCK	9575	broad.mit.edu	37	chr4	56301641	56301641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agtcctgtgccggctgagttGctgctgttgctgagactgat	14	9	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr4:56301641G>T	uc003haz.1	-	24	3408	c.2482C>A	c.(2482-2484)CAA>AAA	p.Q828K	CLOCK_uc003hba.1_Missense_Mutation_p.Q828K|CLOCK_uc010igu.1_RNA	NM_004898	NP_004889	O15516	CLOCK_HUMAN	clock	828	Poly-Gln.				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			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)			CGGCTGAGTTGCTGCTGTTGC	0.527													16	232	---	---	---	---	PASS	T	56301641	T	T	56301641	3	4	39	1	0	0	0	0	1	0	0	0	3549	1328	46	3	62	3	CLOCK	4	56301641	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	76103	56301641	134852635	68	15278										
POLR2B	5431	broad.mit.edu	37	chr4	57889495	57889495	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tccgtgtctatttcctcacaGgcatgaggcatgccatttac	8	12	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr4:57889495G>A	uc003hcl.1	+	19	2559	c.2516_splice	c.e19-1	p.G839_splice	POLR2B_uc011cae.1_Splice_Site_p.G832_splice|POLR2B_uc011caf.1_Splice_Site_p.G764_splice|POLR2B_uc003hcm.1_Splice_Site_p.G332_splice	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B						mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					TTTCCTCACAGGCATGAGGCA	0.438													44	113	---	---	---	---	PASS	A	57889495	A	A	57889495	5	1	39	1	0	0	0	0	0	0	1	0	12215	1014	35	3	2589	3	POLR2B	4	57889495	Splice_Site	SNP	G	TCGA-22-4604-01A-01D-1267-08	1587854	57889495	133264781	69	15279										
FAM175A	84142	broad.mit.edu	37	chr4	84391519	84391519	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cgtcatgatctgatctgaatGacgacggaatttgtaccaac	9	9	3	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr4:84391519G>A	uc003hou.2	-	5	378	c.313C>T	c.(313-315)CAT>TAT	p.H105Y	FAM175A_uc003hot.2_5'Flank|FAM175A_uc003hov.2_5'UTR	NM_139076	NP_620775	Q6UWZ7	F175A_HUMAN	coiled-coil domain containing 98	105	MPN-like.				chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of DNA repair|response to ionizing radiation	BRCA1-A complex	polyubiquitin binding			kidney(1)	1						TGATCTGAATGACGACGGAAT	0.333													139	360	---	---	---	---	PASS	A	84391519	A	A	84391519	3	1	39	1	0	0	0	0	1	0	0	0	5497	1290	45	2	936	2	FAM175A	4	84391519	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	26502024	84391519	106762757	70	15280										
TRAM1L1	133022	broad.mit.edu	37	chr4	118005478	118005478	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cctctttggcggacagtctaCtctatttgaagtttccactc	7	12	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr4:118005478C>A	uc003ibv.3	-	1	1259	c.1072G>T	c.(1072-1074)GTA>TTA	p.V358L		NM_152402	NP_689615	Q8N609	TR1L1_HUMAN	translocation associated membrane protein 1-like	358	Cytoplasmic (Potential).				protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane				central_nervous_system(1)	1						GGACAGTCTACTCTATTTGAA	0.383													191	334	---	---	---	---	PASS	A	118005478	A	A	118005478	3	1	39	1	0	0	0	0	1	0	0	0	16449	565	20	3	41	3	TRAM1L1	4	118005478	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	33613959	118005478	73148798	71	15281										
TRAM1L1	133022	broad.mit.edu	37	chr4	118005532	118005532	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgttctttttttagaagatcTcgaccgtttctttttcatac	5	8	4	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr4:118005532T>A	uc003ibv.3	-	1	1205	c.1018A>T	c.(1018-1020)AGA>TGA	p.R340*		NM_152402	NP_689615	Q8N609	TR1L1_HUMAN	translocation associated membrane protein 1-like	340	Cytoplasmic (Potential).				protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane				central_nervous_system(1)	1						TTAGAAGATCTCGACCGTTTC	0.398													216	320	---	---	---	---	PASS	A	118005532	A	A	118005532	4	1	39	1	0	0	0	0	0	1	0	0	16449	1559	54	5	95	5	TRAM1L1	4	118005532	Nonsense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	54	118005532	73148744	72	15282										
FBXW7	55294	broad.mit.edu	37	chr4	153247252	153247252	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ttaccataaaatcatatgctCcactaacaaccctcctgcca	2	15	1	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr4:153247252C>T	uc003ims.2	-	10	1699	c.1550G>A	c.(1549-1551)GGA>GAA	p.G517E	FBXW7_uc011cii.1_Missense_Mutation_p.G517E|FBXW7_uc003imt.2_Missense_Mutation_p.G517E|FBXW7_uc011cih.1_Missense_Mutation_p.G341E|FBXW7_uc003imq.2_Missense_Mutation_p.G437E|FBXW7_uc003imr.2_Missense_Mutation_p.G399E	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	517	WD 4.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				ATCATATGCTCCACTAACAAC	0.443			Mis|N|D|F		colorectal|endometrial|T-ALL								99	145	---	---	---	---	PASS	T	153247252	T	T	153247252	3	4	39	1	0	0	0	0	1	0	0	0	5769	855	30	2	585	2	FBXW7	4	153247252	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	35241720	153247252	37907024	73	15283										
CYP4V2	285440	broad.mit.edu	37	chr4	187120238	187120239	+	Splice_Site	INS	-	T	T													0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acatacttttaccaacagtgINStaagtccctgacttttacaa							TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr4:187120238_187120239insT	uc003iyw.3	+	6	1105	c.801_splice	c.e6+1	p.S267_splice		NM_207352	NP_997235	Q6ZWL3	CP4V2_HUMAN	cytochrome P450, family 4, subfamily v,						response to stimulus|visual perception	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.33e-10)|BRCA - Breast invasive adenocarcinoma(30;3.84e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000293)|LUSC - Lung squamous cell carcinoma(40;0.00242)|READ - Rectum adenocarcinoma(43;0.17)		TACCAACAGTGTAAGTCCCTGA	0.238													76	42	---	---	---	---		T	187120239	T	T	187120238	8	5	39	1	0	1	1	0	0	0	1	0	4192	1391	48	0	824	0	CYP4V2	4	187120238	Splice_Site	INS	-	TCGA-22-4604-01A-01D-1267-08	33872986	187120238	4034038	74	15284										
SLC6A3	6531	broad.mit.edu	37	chr5	1441537	1441537	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cctgttgaactggccgagggCcagctccatgtagaaaagtg	13	10	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:1441537C>A	uc003jck.2	-	3	476	c.355G>T	c.(355-357)GCC>TCC	p.A119S		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	119					cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	TGGCCGAGGGCCAGCTCCATG	0.582													15	115	---	---	---	---	PASS	A	1441537	A	A	1441537	3	1	39	1	0	0	0	0	1	0	0	0	14685	739	26	3	1559	3	SLC6A3	5	1441537	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08		1441537	179473723	75	15285										
CTNND2	1501	broad.mit.edu	37	chr5	11411724	11411724	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atacaggagtccaccagctcGagacctgttgtaagctcatc	9	12	1	1	rs143717087		TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:11411724G>T	uc003jfa.1	-	5	508	c.363C>A	c.(361-363)CTC>CTA	p.L121L	CTNND2_uc010itt.2_Silent_p.L30L|CTNND2_uc011cmy.1_Silent_p.L30L|CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	121					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						CCACCAGCTCGAGACCTGTTG	0.368													25	139	---	---	---	---	PASS	T	11411724	T	T	11411724	2	4	39	1	0	0	0	0	0	0	0	1	4020	1045	37	2		2	CTNND2	5	11411724	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	9970187	11411724	169503536	76	15286										
CDH12	1010	broad.mit.edu	37	chr5	21783478	21783478	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	catacttactaactttactcGcaattatggagaaattatac	4	8	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:21783478G>A	uc010iuc.2	-	8	1840	c.1382C>T	c.(1381-1383)GCG>GTG	p.A461V	CDH12_uc011cno.1_Missense_Mutation_p.A421V|CDH12_uc003jgk.2_Missense_Mutation_p.A461V	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	461	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						AACTTTACTCGCAATTATGGA	0.378										HNSCC(59;0.17)			32	295	---	---	---	---	PASS	A	21783478	A	A	21783478	3	1	39	1	0	0	0	0	1	0	0	0	3098	1087	38	1	1022	1	CDH12	5	21783478	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	10371754	21783478	159131782	77	15287										
HCN1	348980	broad.mit.edu	37	chr5	45262532	45262532	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgacagctgggaggcggtggGggaggcatagtggaaagttc	20	5	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:45262532G>A	uc003jok.2	-	8	2189	c.2164C>T	c.(2164-2166)CCC>TCC	p.P722S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	722	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GAGGCGGTGGGGGAGGCATAG	0.453													36	55	---	---	---	---	PASS	A	45262532	A	A	45262532	3	1	39	1	0	0	0	0	1	0	0	0	6996	1232	43	3	512	3	HCN1	5	45262532	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	23479054	45262532	135652728	78	15288										
IPO11	51194	broad.mit.edu	37	chr5	61802098	61802098	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccatgttcacactactttttCagttactgcagcaagttaca	5	11	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:61802098C>T	uc003jtc.2	+	19	1886	c.1696C>T	c.(1696-1698)CAG>TAG	p.Q566*	IPO11_uc011cqr.1_Nonsense_Mutation_p.Q606*|IPO11_uc003jtd.1_RNA	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	566	HEAT 7.					cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		ACTACTTTTTCAGTTACTGCA	0.333													18	67	---	---	---	---	PASS	T	61802098	T	T	61802098	4	4	39	1	0	0	0	0	0	1	0	0	7793	827	29	2	1890	2	IPO11	5	61802098	Nonsense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	16539566	61802098	119113162	79	15289										
SCAMP1	9522	broad.mit.edu	37	chr5	77771402	77771402	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ttgcaacaggtgtgatgtccAacaaaactgtccagaccgca	9	11	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:77771402A>T	uc003kfl.2	+	11	1085	c.928A>T	c.(928-930)AAC>TAC	p.N310Y	SCAMP1_uc010jaa.2_RNA|SCAMP1_uc011ctc.1_RNA|SCAMP1_uc011ctd.1_RNA|SCAMP1_uc003kfm.2_RNA|SCAMP1_uc003kfn.2_Missense_Mutation_p.N48Y	NM_004866	NP_004857	O15126	SCAM1_HUMAN	secretory carrier membrane protein 1	310	Cytoplasmic (Potential).				post-Golgi vesicle-mediated transport|protein transport	integral to membrane|recycling endosome membrane|trans-Golgi network	protein binding				0		all_lung(232;0.000397)|Lung NSC(167;0.00105)|Ovarian(174;0.0105)|Prostate(461;0.214)		OV - Ovarian serous cystadenocarcinoma(54;1.9e-46)|Epithelial(54;9.4e-43)|all cancers(79;1.12e-37)		TGTGATGTCCAACAAAACTGT	0.458													4	21	---	---	---	---	PASS	T	77771402	T	T	77771402	3	4	39	1	0	0	0	0	1	0	0	0	13870	130	5	5	961	5	SCAMP1	5	77771402	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	15969304	77771402	103143858	80	15290										
GPR98	84059	broad.mit.edu	37	chr5	89968522	89968522	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtggaactattacattccttCcttggcagagatcagaggta	10	8	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:89968522C>A	uc003kju.2	+	22	5008	c.4912C>A	c.(4912-4914)CCT>ACT	p.P1638T	GPR98_uc003kjt.2_5'UTR|GPR98_uc010jba.1_RNA	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1638	Calx-beta 11.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TACATTCCTTCCTTGGCAGAG	0.378													81	194	---	---	---	---	PASS	A	89968522	A	A	89968522	3	1	39	1	0	0	0	0	1	0	0	0	6721	855	30	2	4998	2	GPR98	5	89968522	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	12197120	89968522	90946738	81	15291										
GPR98	84059	broad.mit.edu	37	chr5	89989705	89989705	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	taattgtcactccacattttAgcggagggcactttggtcgg	11	9	1	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:89989705A>T	uc003kju.2	+	33	7230	c.7134_splice	c.e33-2	p.S2378_splice	GPR98_uc003kjt.2_Splice_Site_p.S84_splice|GPR98_uc003kjv.2_5'Flank	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor						cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TCCACATTTTAGCGGAGGGCA	0.398													10	21	---	---	---	---	PASS	T	89989705	T	T	89989705	5	4	39	1	0	0	0	0	0	0	1	0	6721	434	15	5	7262	5	GPR98	5	89989705	Splice_Site	SNP	A	TCGA-22-4604-01A-01D-1267-08	21183	89989705	90925555	82	15292										
LNPEP	4012	broad.mit.edu	37	chr5	96358154	96358154	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctactactgccatgaaactgTttgatgactggatggcatcc	9	10	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:96358154T>C	uc003kmv.1	+	14	3041	c.2527T>C	c.(2527-2529)TTT>CTT	p.F843L	LNPEP_uc003kmw.1_Missense_Mutation_p.F829L	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1	843	Extracellular (Potential).				cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		CATGAAACTGTTTGATGACTG	0.443													4	81	---	---	---	---	PASS	C	96358154	C	C	96358154	3	2	39	1	0	0	0	0	1	0	0	0	8864	1725	60	5	2581	5	LNPEP	5	96358154	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	6368449	96358154	84557106	83	15293										
PCDHGA5	56110	broad.mit.edu	37	chr5	140744389	140744389	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cgggatgcggatgtgggtgtGaactctctccggagttacca	15	9	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:140744389G>T	uc003lju.1	+	1	492	c.492G>T	c.(490-492)GTG>GTT	p.V164V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Silent_p.V164V	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	164	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGTGGGTGTGAACTCTCTCC	0.517													21	67	---	---	---	---	PASS	T	140744389	T	T	140744389	2	4	39	1	0	0	0	0	0	0	0	1	11557	1277	45	2		2	PCDHGA5	5	140744389	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	44386235	140744389	40170871	84	15294										
PCDHGB3	56102	broad.mit.edu	37	chr5	140751506	140751506	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gcgcggagcggggtggtgttCgcgcagcgagccttcgacca	18	12	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:140751506C>T	uc003ljw.1	+	1	1545	c.1545C>T	c.(1543-1545)TTC>TTT	p.F515F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Silent_p.F515F|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	515	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGTGGTGTTCGCGCAGCGAG	0.672													37	100	---	---	---	---	PASS	T	140751506	T	T	140751506	2	4	39	1	0	0	0	0	0	0	0	1	11564	883	31	2		2	PCDHGB3	5	140751506	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	7117	140751506	40163754	85	15295										
PCDHGC4	56098	broad.mit.edu	37	chr5	140865131	140865131	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tagatgtgaatgatcacgccCcccgttttccgcggcagcag	11	13	1	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:140865131C>T	uc003lky.1	+	1	391	c.391C>T	c.(391-393)CCC>TCC	p.P131S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Missense_Mutation_p.P131S	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	131	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGATCACGCCCCCCGTTTTCC	0.572													44	217	---	---	---	---	PASS	T	140865131	T	T	140865131	3	4	39	1	0	0	0	0	1	0	0	0	11570	623	22	3	393	3	PCDHGC4	5	140865131	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	113625	140865131	40050129	86	15296										
RELL2	285613	broad.mit.edu	37	chr5	141019991	141019991	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tctctcaggtgtctctaccaCagggagcagggagtatgtga	13	9	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:141019991C>A	uc003lli.2	+	7	1740	c.892C>A	c.(892-894)CAG>AAG	p.Q298K	RELL2_uc003llh.2_Missense_Mutation_p.Q298K|RELL2_uc003llg.2_Missense_Mutation_p.Q232K|RELL2_uc010jgf.2_Intron|FCHSD1_uc010jgg.2_3'UTR|FCHSD1_uc003llj.2_RNA|FCHSD1_uc003llk.2_3'UTR	NM_001130029	NP_001123501	Q8NC24	RELL2_HUMAN	RELT-like 2	298						integral to membrane|plasma membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTCTCTACCACAGGGAGCAGG	0.517													39	180	---	---	---	---	PASS	A	141019991	A	A	141019991	3	1	39	1	0	0	0	0	1	0	0	0	13219	479	17	3	914	3	RELL2	5	141019991	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	154860	141019991	39895269	87	15297										
FAM71B	153745	broad.mit.edu	37	chr5	156592781	156592781	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agctgctgtttctcatgatcGtggatggagatcttcacaaa	10	8	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:156592781G>C	uc003lwn.2	-	1	499	c.399C>G	c.(397-399)CAC>CAG	p.H133Q		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	133						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TCTCATGATCGTGGATGGAGA	0.527													26	100	---	---	---	---	PASS	C	156592781	C	C	156592781	3	2	39	1	0	0	0	0	1	0	0	0	5608	1136	40	4	1426	4	FAM71B	5	156592781	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	15572790	156592781	24322479	88	15298										
EBF1	1879	broad.mit.edu	37	chr5	158250303	158250303	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccaggacatggccatccacaTtgactgtcgtagacaccacg	9	14	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:158250303T>C	uc010jip.2	-	8	961	c.659A>G	c.(658-660)AAT>AGT	p.N220S	EBF1_uc011ddw.1_Missense_Mutation_p.N87S|EBF1_uc011ddx.1_Missense_Mutation_p.N220S|EBF1_uc003lxl.3_Missense_Mutation_p.N197S	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	220					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCCATCCACATTGACTGTCGT	0.433			T	HMGA2	lipoma								15	61	---	---	---	---	PASS	C	158250303	C	C	158250303	3	2	39	1	0	0	0	0	1	0	0	0	4880	1493	52	5	1152	5	EBF1	5	158250303	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	1657522	158250303	22664957	89	15299										
PFN3	345456	broad.mit.edu	37	chr5	176827199	176827199	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gcgcagcccgcgtatgagttCgtgcaccgtcttgttgagga	14	11	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:176827199C>A	uc003mgl.2	-	1	439	c.379G>T	c.(379-381)GAA>TAA	p.E127*		NM_001029886	NP_001025057	P60673	PROF3_HUMAN	profilin 3	127					actin cytoskeleton organization	actin cytoskeleton|cytoplasm	actin binding				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CGTATGAGTTCGTGCACCGTC	0.711													5	48	---	---	---	---	PASS	A	176827199	A	A	176827199	4	1	39	1	0	0	0	0	0	1	0	0	11769	893	31	2	38	2	PFN3	5	176827199	Nonsense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	18576896	176827199	4088061	90	15300										
TBC1D9B	23061	broad.mit.edu	37	chr5	179297373	179297373	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	caggcccagggtgtcaggctGgcaaagagttcccggaactg	15	11	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr5:179297373G>A	uc003mlh.2	-	16	2644	c.2607C>T	c.(2605-2607)GCC>GCT	p.A869A	TBC1D9B_uc003mli.2_Silent_p.A869A|TBC1D9B_uc003mlj.2_Silent_p.A869A|TBC1D9B_uc003mlg.2_Silent_p.A45A|TBC1D9B_uc011dgv.1_Silent_p.A45A|TBC1D9B_uc011dgw.1_Silent_p.A45A|TBC1D9B_uc003mlk.1_Silent_p.A27A	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	869						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTGTCAGGCTGGCAAAGAGTT	0.632													71	234	---	---	---	---	PASS	A	179297373	A	A	179297373	2	1	39	1	0	0	0	0	0	0	0	1	15625	1335	47	3		3	TBC1D9B	5	179297373	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	2470174	179297373	1617887	91	15301										
CDKAL1	54901	broad.mit.edu	37	chr6	20955785	20955785	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aatgctgaggcttggcatgaCaaatccgccctatattttag	9	9	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:20955785C>T	uc003ndc.1	+	10	1052	c.878C>T	c.(877-879)ACA>ATA	p.T293I	CDKAL1_uc003ndd.1_Missense_Mutation_p.T293I|CDKAL1_uc003nde.1_Missense_Mutation_p.T223I	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	293					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)			CTTGGCATGACAAATCCGCCC	0.498													6	280	---	---	---	---	PASS	T	20955785	T	T	20955785	3	4	39	1	0	0	0	0	1	0	0	0	3152	478	17	3	908	3	CDKAL1	6	20955785	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08		20955785	150159282	92	15302										
DCDC2	51473	broad.mit.edu	37	chr6	24357739	24357739	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acgtaattgcccccgctctgGatctggtctagcttccggat	10	13	3	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:24357739G>C	uc003ndx.2	-	1	542	c.240C>G	c.(238-240)ATC>ATG	p.I80M	DCDC2_uc003ndy.2_Missense_Mutation_p.I80M|KAAG1_uc003ndz.1_5'UTR	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	80	Doublecortin 1.				cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				CCCCGCTCTGGATCTGGTCTA	0.612													5	183	---	---	---	---	PASS	C	24357739	C	C	24357739	3	2	39	1	0	0	0	0	1	0	0	0	4285	1164	41	2	1230	2	DCDC2	6	24357739	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	3401954	24357739	146757328	93	15303										
OR2B6	26212	broad.mit.edu	37	chr6	27925954	27925954	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gcaagagtcttcttaatcaaGaaataagaaatatgcaaatg	7	5	3	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:27925954G>A	uc011dkx.1	+	1	936	c.936G>A	c.(934-936)AAG>AAA	p.K312K		NM_012367	NP_036499	P58173	OR2B6_HUMAN	olfactory receptor, family 2, subfamily B,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TCTTAATCAAGAAATAAGAAA	0.343													20	123	---	---	---	---	PASS	A	27925954	A	A	27925954	2	1	39	1	0	0	0	0	0	0	0	1	10991	933	33	2		2	OR2B6	6	27925954	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	3568215	27925954	143189113	94	15304										
UHRF1BP1	54887	broad.mit.edu	37	chr6	34789719	34789719	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtggacaaagttgaagacacAccctatttgcttggtaatga	10	7	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:34789719A>T	uc003oju.3	+	3	467	c.233A>T	c.(232-234)CAC>CTC	p.H78L	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	78										ovary(3)	3						TTGAAGACACACCCTATTTGC	0.463													50	289	---	---	---	---	PASS	T	34789719	T	T	34789719	3	4	39	1	0	0	0	0	1	0	0	0	16965	159	6	5	243	5	UHRF1BP1	6	34789719	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	6863765	34789719	136325348	95	15305										
DEF6	50619	broad.mit.edu	37	chr6	35277562	35277562	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cagccagggatacatgccctAcctcaacaagtacatcctgg	8	14	1	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:35277562A>G	uc003okk.2	+	2	251	c.212A>G	c.(211-213)TAC>TGC	p.Y71C	DEF6_uc010jvs.2_Missense_Mutation_p.Y71C|DEF6_uc010jvt.2_5'UTR	NM_022047	NP_071330	Q9H4E7	DEFI6_HUMAN	differentially expressed in FDCP 6 homolog	71						cytoplasm|nucleus|plasma membrane					0						TACATGCCCTACCTCAACAAG	0.582													44	94	---	---	---	---	PASS	G	35277562	G	G	35277562	3	3	39	1	0	0	0	0	1	0	0	0	4386	391	14	5	218	5	DEF6	6	35277562	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	487843	35277562	135837505	96	15306										
PPARD	5467	broad.mit.edu	37	chr6	35393786	35393786	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gcacgcccagatgatgcagcGgatcaagaagaccgaaaccg	12	12	1	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:35393786G>A	uc003okm.2	+	8	1565	c.1256G>A	c.(1255-1257)CGG>CAG	p.R419Q	PPARD_uc003okn.2_Missense_Mutation_p.R419Q|PPARD_uc011dtb.1_Missense_Mutation_p.R380Q|PPARD_uc011dtc.1_Missense_Mutation_p.R321Q	NM_006238	NP_006229	Q03181	PPARD_HUMAN	peroxisome proliferative activated receptor,	419	Ligand-binding.				apoptosis|axon ensheathment|cholesterol metabolic process|decidualization|embryo implantation|fatty acid beta-oxidation|fatty acid transport|generation of precursor metabolites and energy|glucose metabolic process|glucose transport|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fat cell differentiation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|linoleic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1					Icosapent(DB00159)|Sulindac(DB00605)|Treprostinil(DB00374)	ATGATGCAGCGGATCAAGAAG	0.607													13	170	---	---	---	---	PASS	A	35393786	A	A	35393786	3	1	39	1	0	0	0	0	1	0	0	0	12298	1116	39	1	1303	1	PPARD	6	35393786	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	116224	35393786	135721281	97	15307										
C6orf64	55776	broad.mit.edu	37	chr6	39073367	39073367	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtcccgacgtacatccaataGaacaaggacaggacaaaata	8	10	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:39073367G>C	uc003ook.1	-	2	393	c.393C>G	c.(391-393)TTC>TTG	p.F131L	C6orf64_uc011dty.1_RNA|C6orf64_uc003oom.1_RNA	NM_018322	NP_060792	Q9NPB0	CF064_HUMAN	hypothetical protein LOC55776	131						integral to membrane					0						ACATCCAATAGAACAAGGACA	0.502													78	525	---	---	---	---	PASS	C	39073367	C	C	39073367	3	2	39	1	0	0	0	0	1	0	0	0	2369	933	33	2	162	2	C6orf64	6	39073367	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	3679581	39073367	132041700	98	15308										
MEP1A	4224	broad.mit.edu	37	chr6	46800830	46800830	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggagatgatgaccacaattgGaaaattgcccatgtggtgct	12	7	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:46800830G>C	uc010jzh.1	+	11	1206	c.1164G>C	c.(1162-1164)TGG>TGC	p.W388C	MEP1A_uc011dwg.1_Missense_Mutation_p.W110C|MEP1A_uc011dwh.1_Missense_Mutation_p.W416C|MEP1A_uc011dwi.1_Missense_Mutation_p.W288C	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	388	Extracellular (Potential).|MAM.				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			ACCACAATTGGAAAATTGCCC	0.368													43	299	---	---	---	---	PASS	C	46800830	C	C	46800830	3	2	39	1	0	0	0	0	1	0	0	0	9475	1183	41	2	1206	2	MEP1A	6	46800830	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	7727463	46800830	124314237	99	15309										
LGSN	51557	broad.mit.edu	37	chr6	63990933	63990933	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	caaaagaggctcaccagtcaCagtgaaggtatcacatatca	8	10	4	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:63990933C>T	uc003peh.2	-	4	557	c.523G>A	c.(523-525)GTG>ATG	p.V175M	LGSN_uc003pei.2_Missense_Mutation_p.V175M	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	175					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	TCACCAGTCACAGTGAAGGTA	0.458													47	100	---	---	---	---	PASS	T	63990933	T	T	63990933	3	4	39	1	0	0	0	0	1	0	0	0	8759	478	17	3	1010	3	LGSN	6	63990933	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	17190103	63990933	107124134	100	15310										
RIMS1	22999	broad.mit.edu	37	chr6	73000538	73000538	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	caccttgtccctggagggtcGgcgccaccttctccgcttct	10	17	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:73000538G>A	uc003pga.2	+	25	3788	c.3711G>A	c.(3709-3711)TCG>TCA	p.S1237S	RIMS1_uc011dyb.1_Intron|RIMS1_uc003pgc.2_Intron|RIMS1_uc010kaq.2_Intron|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Intron|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Intron|RIMS1_uc003pge.2_Intron|RIMS1_uc011dye.1_Intron|RIMS1_uc011dyf.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1237					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)				CTGGAGGGTCGGCGCCACCTT	0.552													15	39	---	---	---	---	PASS	A	73000538	A	A	73000538	2	1	39	1	0	0	0	0	0	0	0	1	13367	1103	39	1		1	RIMS1	6	73000538	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	9009605	73000538	98114529	101	15311										
SCML4	256380	broad.mit.edu	37	chr6	108066209	108066209	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tctcagaggcactgcagcccCtggggaagggctggtggctg	17	11	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:108066209C>T	uc010kdf.2	-	5	877	c.626G>A	c.(625-627)AGG>AAG	p.R209K	SCML4_uc003prz.3_Missense_Mutation_p.R151K|SCML4_uc011eam.1_Missense_Mutation_p.R209K|SCML4_uc003psa.3_Missense_Mutation_p.R180K	NM_198081	NP_932347	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4	209					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		all_cancers(87;3.26e-06)|Acute lymphoblastic leukemia(125;3.08e-08)|all_hematologic(75;1.15e-06)|all_epithelial(87;0.00142)|Colorectal(196;0.0316)		BRCA - Breast invasive adenocarcinoma(108;0.01)|Epithelial(106;0.0509)|all cancers(137;0.0586)|OV - Ovarian serous cystadenocarcinoma(136;0.0758)		ACTGCAGCCCCTGGGGAAGGG	0.612													83	150	---	---	---	---	PASS	T	108066209	T	T	108066209	3	4	39	1	0	0	0	0	1	0	0	0	13911	681	24	3	634	3	SCML4	6	108066209	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	35065671	108066209	63048858	102	15312										
HS3ST5	222537	broad.mit.edu	37	chr6	114378471	114378471	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctggtaaaatttttgattaaAaggatgaaagaatttgcgca	9	3	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:114378471A>G	uc003pwg.3	-	2	1023	c.991T>C	c.(991-993)TTT>CTT	p.F331L	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.F331L	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	331	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		TTTTGATTAAAAGGATGAAAG	0.413													44	239	---	---	---	---	PASS	G	114378471	G	G	114378471	3	3	39	1	0	0	0	0	1	0	0	0	7368	14	1	5	53	5	HS3ST5	6	114378471	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	6312262	114378471	56736596	103	15313										
TRDN	10345	broad.mit.edu	37	chr6	123703272	123703273	+	Frame_Shift_Ins	INS	-	T	T													0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgtccagtaccttctgcaggINStttttttgttttcttggaat							TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:123703272_123703273insT	uc003pzj.1	-	15	1177_1178	c.1155_1156insA	c.(1153-1158)AAACCTfs	p.K385fs	TRDN_uc003pzk.1_Frame_Shift_Ins_p.K386fs|TRDN_uc003pzl.1_Frame_Shift_Ins_p.K386fs|TRDN_uc010kem.1_5'UTR	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	385_386	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		CCTTCTGCAGGTTTTTTTGTTT	0.297													4	2	---	---	---	---		T	123703273	T	T	123703272	7	5	39	1	0	1	1	0	0	0	0	0	16465	1261	44	0	1141	0	TRDN	6	123703272	Frame_Shift_Ins	INS	-	TCGA-22-4604-01A-01D-1267-08	9324801	123703272	47411795	104	15314										
LATS1	9113	broad.mit.edu	37	chr6	150001043	150001043	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acttagaatcgtgtgtccatCtgaagccagtgcagaggcca	11	10	1	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr6:150001043C>T	uc003qmu.1	-	5	3109	c.2561G>A	c.(2560-2562)AGA>AAA	p.R854K	LATS1_uc010kif.1_Missense_Mutation_p.R749K|LATS1_uc003qmv.1_Missense_Mutation_p.R854K	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	854	Protein kinase.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		GTGTGTCCATCTGAAGCCAGT	0.289													29	130	---	---	---	---	PASS	T	150001043	T	T	150001043	3	4	39	1	0	0	0	0	1	0	0	0	8646	913	32	2	847	2	LATS1	6	150001043	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	26297771	150001043	21114024	105	15315										
SLC29A4	222962	broad.mit.edu	37	chr7	5331402	5331402	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gctcttctctcgggaccaggCctacgccatcaacctggccg	10	17	3	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:5331402C>T	uc003sod.2	+	5	655	c.494C>T	c.(493-495)GCC>GTC	p.A165V	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Missense_Mutation_p.A165V|SLC29A4_uc003soe.2_Missense_Mutation_p.P153S	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	165	Cytoplasmic (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		CGGGACCAGGCCTACGCCATC	0.637													49	159	---	---	---	---	PASS	T	5331402	T	T	5331402	3	4	39	1	0	0	0	0	1	0	0	0	14537	739	26	3	508	3	SLC29A4	7	5331402	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08		5331402	153807261	106	15316										
DGKB	1607	broad.mit.edu	37	chr7	14661004	14661004	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ttgatttaaaaaatcataccTgcaggccttgtccatctaca	5	10	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:14661004T>C	uc003ssz.2	-	14	1473	c.1286A>G	c.(1285-1287)CAG>CGG	p.Q429R	DGKB_uc011jxt.1_Missense_Mutation_p.Q410R|DGKB_uc003sta.2_Missense_Mutation_p.Q429R|DGKB_uc011jxu.1_Missense_Mutation_p.Q428R	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	429					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	AAATCATACCTGCAGGCCTTG	0.363													17	29	---	---	---	---	PASS	C	14661004	C	C	14661004	3	2	39	1	0	0	0	0	1	0	0	0	4466	1594	55	5	1191	5	DGKB	7	14661004	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	9329602	14661004	144477659	107	15317										
FERD3L	222894	broad.mit.edu	37	chr7	19184715	19184715	+	Frame_Shift_Del	DEL	G	-	-													0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cacccttttcctcttggggcGgcctaatagggagacacctc							TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:19184715delG	uc003suo.1	-	1	330	c.271delC	c.(271-273)CGCfs	p.R91fs	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	91					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						CTCTTGGGGCGGCCTAATAGG	0.343													73	39	---	---	---	---		-	19184715	-	-	19184715	7	5	39	1	0	1	0	1	0	0	0	0	5816	1116	39	0	233	0	FERD3L	7	19184715	Frame_Shift_Del	DEL	G	TCGA-22-4604-01A-01D-1267-08	4523711	19184715	139953948	108	15318										
CPVL	54504	broad.mit.edu	37	chr7	29152388	29152388	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cacggtgaggaagccggcatAactcttcatgttcagtcctg	11	11	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:29152388A>T	uc003szv.2	-	3	339	c.220T>A	c.(220-222)TAT>AAT	p.Y74N	CPVL_uc003szw.2_Missense_Mutation_p.Y74N|CPVL_uc003szx.2_Missense_Mutation_p.Y74N	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	74					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						AAGCCGGCATAACTCTTCATG	0.453													41	125	---	---	---	---	PASS	T	29152388	T	T	29152388	3	4	39	1	0	0	0	0	1	0	0	0	3835	362	13	5	1254	5	CPVL	7	29152388	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	9967673	29152388	129986275	109	15319										
FAM188B	84182	broad.mit.edu	37	chr7	30868295	30868295	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgatattttctattttccagGaaaaatcagttgctgccgtc	7	8	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:30868295G>A	uc003tbt.2	+	6	1151	c.1074G>A	c.(1072-1074)AGG>AGA	p.R358R	FAM188B_uc010kwe.2_Silent_p.R329R	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	358											0						TATTTTCCAGGAAAAATCAGT	0.408													135	404	---	---	---	---	PASS	A	30868295	A	A	30868295	2	1	39	1	0	0	0	0	0	0	0	1	5515	1188	41	2		2	FAM188B	7	30868295	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	1715907	30868295	128270368	110	15320										
ABCA13	154664	broad.mit.edu	37	chr7	48522715	48522715	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ttaaaaatccccagtgaagcTggaggtgcaaatggaaacat	10	7	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:48522715T>A	uc003toq.2	+	47	13162	c.13137T>A	c.(13135-13137)GCT>GCA	p.A4379A	ABCA13_uc010kys.1_Silent_p.A1454A|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Silent_p.A109A	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4379					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CCAGTGAAGCTGGAGGTGCAA	0.373													15	36	---	---	---	---	PASS	A	48522715	A	A	48522715	2	1	39	1	0	0	0	0	0	0	0	1	31	1567	55	5		5	ABCA13	7	48522715	Silent	SNP	T	TCGA-22-4604-01A-01D-1267-08	17654420	48522715	110615948	111	15321										
HGF	3082	broad.mit.edu	37	chr7	81392130	81392130	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gctggatctattttgattagGgtagtctttgctgatttttt	10	4	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:81392130G>A	uc003uhl.2	-	2	312	c.147C>T	c.(145-147)ACC>ACT	p.T49T	HGF_uc003uhm.2_Silent_p.T49T|HGF_uc003uhn.1_Silent_p.T49T|HGF_uc003uho.1_Silent_p.T49T|HGF_uc003uhp.2_Silent_p.T49T	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	49	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						TTTTGATTAGGGTAGTCTTTG	0.299													33	97	---	---	---	---	PASS	A	81392130	A	A	81392130	2	1	39	1	0	0	0	0	0	0	0	1	7085	1219	43	3		3	HGF	7	81392130	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	32869415	81392130	77746533	112	15322										
SLC25A40	55972	broad.mit.edu	37	chr7	87477196	87477196	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acaattccagcaacaattggTatgcaggtttcattttctcc	6	10	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:87477196T>A	uc003uje.2	-	7	780	c.429A>T	c.(427-429)ATA>ATT	p.I143I		NM_018843	NP_061331	Q8TBP6	S2540_HUMAN	mitochondrial carrier family protein	143	Helical; Name=3; (Potential).|Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			haematopoietic_and_lymphoid_tissue(1)	1	Esophageal squamous(14;0.00202)					CAACAATTGGTATGCAGGTTT	0.348													31	80	---	---	---	---	PASS	A	87477196	A	A	87477196	2	1	39	1	0	0	0	0	0	0	0	1	14505	1628	57	5		5	SLC25A40	7	87477196	Silent	SNP	T	TCGA-22-4604-01A-01D-1267-08	6085066	87477196	71661467	113	15323										
TFPI2	7980	broad.mit.edu	37	chr7	93519463	93519463	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acttactttctatcctccagCaagcatcgtcgcaagcctcc	5	16	1	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:93519463C>T	uc003umy.1	-	2	332	c.257G>A	c.(256-258)TGC>TAC	p.C86Y	GNGT1_uc003umx.1_Intron|TFPI2_uc003umz.1_Missense_Mutation_p.C86Y|TFPI2_uc003una.1_Missense_Mutation_p.C75Y|TFPI2_uc003unb.1_Missense_Mutation_p.C86Y|TFPI2_uc010lfg.1_Intron	NM_006528	NP_006519	P48307	TFPI2_HUMAN	tissue factor pathway inhibitor 2 precursor	86	BPTI/Kunitz inhibitor 1.				blood coagulation	proteinaceous extracellular matrix	extracellular matrix structural constituent|serine-type endopeptidase inhibitor activity			pancreas(1)	1	all_cancers(62;4.45e-10)|all_epithelial(64;2.92e-09)|Lung NSC(181;0.218)		STAD - Stomach adenocarcinoma(171;0.000967)			TATCCTCCAGCAAGCATCGTC	0.612													32	99	---	---	---	---	PASS	T	93519463	T	T	93519463	3	4	39	1	0	0	0	0	1	0	0	0	15806	710	25	3	466	3	TFPI2	7	93519463	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	6042267	93519463	65619200	114	15324										
COPS6	10980	broad.mit.edu	37	chr7	99688910	99688910	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gccatcaagatgctgcacagCcgcgtcaagctcatcttgga	10	13	4	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:99688910C>T	uc003usu.2	+	8	730	c.699C>T	c.(697-699)AGC>AGT	p.S233S		NM_006833	NP_006824	Q7L5N1	CSN6_HUMAN	COP9 signalosome subunit 6	233	Interaction with Vpr.				cullin deneddylation|interspecies interaction between organisms	cytoplasm|signalosome	protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			TGCTGCACAGCCGCGTCAAGC	0.587													6	727	---	---	---	---	PASS	T	99688910	T	T	99688910	2	4	39	1	0	0	0	0	0	0	0	1	3737	738	26	3		3	COPS6	7	99688910	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	6169447	99688910	59449753	115	15325										
ACHE	43	broad.mit.edu	37	chr7	100491082	100491082	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	attgggggcaccgctctgcaGcacggccctgtggaacaggc	15	13	1	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:100491082G>T	uc003uxd.2	-	1	928	c.772C>A	c.(772-774)CTG>ATG	p.L258M	ACHE_uc003uxe.2_Missense_Mutation_p.L258M|ACHE_uc003uxf.2_Missense_Mutation_p.L258M|ACHE_uc003uxg.2_Missense_Mutation_p.L258M|ACHE_uc003uxh.2_Missense_Mutation_p.L258M|ACHE_uc003uxi.2_Missense_Mutation_p.L258M|ACHE_uc003uxj.1_Missense_Mutation_p.L377M	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	258					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	CCGCTCTGCAGCACGGCCCTG	0.721													27	100	---	---	---	---	PASS	T	100491082	T	T	100491082	3	4	39	1	0	0	0	0	1	0	0	0	141	962	34	3	1223	3	ACHE	7	100491082	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	802172	100491082	58647581	116	15326										
PRKAR2B	5577	broad.mit.edu	37	chr7	106781375	106781375	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	attgatcaaggtgacgatggTgacaacttttatgtaattga	10	4	1	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:106781375T>G	uc003vdx.2	+	5	739	c.564T>G	c.(562-564)GGT>GGG	p.G188G		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	188	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						GTGACGATGGTGACAACTTTT	0.338													66	151	---	---	---	---	PASS	G	106781375	G	G	106781375	2	3	39	1	0	0	0	0	0	0	0	1	12506	1683	59	5		5	PRKAR2B	7	106781375	Silent	SNP	T	TCGA-22-4604-01A-01D-1267-08	6290293	106781375	52357288	117	15327										
DOCK4	9732	broad.mit.edu	37	chr7	111638559	111638559	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tagctggaaggaaatataccCtggaaaagaaaacatgaagg	11	5	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:111638559C>T	uc003vfx.2	-	4	432	c.163_splice	c.e4-1	p.G55_splice	DOCK4_uc003vfy.2_Splice_Site_p.G55_splice|DOCK4_uc003vga.1_Splice_Site|DOCK4_uc010ljt.1_Splice_Site_p.G55_splice|DOCK4_uc003vgb.1_Splice_Site	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4						cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				GAAATATACCCTGGAAAAGAA	0.393													5	5	---	---	---	---	PASS	T	111638559	T	T	111638559	5	4	39	1	0	0	0	0	0	0	1	0	4689	695	24	3	5934	3	DOCK4	7	111638559	Splice_Site	SNP	C	TCGA-22-4604-01A-01D-1267-08	4857184	111638559	47500104	118	15328										
PDIA4	9601	broad.mit.edu	37	chr7	148702263	148702263	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agcagtgacaaactcgcggaGggtgtcagagtcaaactcct	12	10	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:148702263G>C	uc003wff.2	-	9	1774	c.1492C>G	c.(1492-1494)CTC>GTC	p.L498V		NM_004911	NP_004902	P13667	PDIA4_HUMAN	protein disulfide isomerase A4 precursor	498					cell redox homeostasis|glycerol ether metabolic process|protein secretion	endoplasmic reticulum lumen|melanosome	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			lung(5)|ovary(1)	6	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00385)			AACTCGCGGAGGGTGTCAGAG	0.602													194	588	---	---	---	---	PASS	C	148702263	C	C	148702263	3	2	39	1	0	0	0	0	1	0	0	0	11670	1000	35	4	453	4	PDIA4	7	148702263	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	37063704	148702263	10436400	119	15329										
AGAP3	116988	broad.mit.edu	37	chr7	150815341	150815341	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gggttatcgacgacagcagaGcccgcaagctctccacagat	11	13	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr7:150815341G>T	uc003wjg.1	+	6	754	c.751G>T	c.(751-753)GCC>TCC	p.A251S	AGAP3_uc003wje.1_Missense_Mutation_p.A23S|AGAP3_uc003wjf.1_Missense_Mutation_p.A251S|AGAP3_uc010lpy.1_Missense_Mutation_p.A251S|AGAP3_uc003wjh.1_Missense_Mutation_p.A431S	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	215	Small GTPase-like.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3						CGACAGCAGAGCCCGCAAGCT	0.597													104	287	---	---	---	---	PASS	T	150815341	T	T	150815341	3	4	39	1	0	0	0	0	1	0	0	0	369	971	34	3	773	3	AGAP3	7	150815341	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	2113078	150815341	8323322	120	15330										
DLGAP2	9228	broad.mit.edu	37	chr8	1624759	1624759	+	Frame_Shift_Del	DEL	G	-	-													0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgcgggaataccactctgtcGgggtgcaagtggaagatgag							TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:1624759delG	uc003wpl.2	+	8	2120	c.2023delG	c.(2023-2025)GGGfs	p.G675fs	DLGAP2_uc003wpm.2_Frame_Shift_Del_p.G661fs	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	754					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		CCACTCTGTCGGGGTGCAAGT	0.542													29	20	---	---	---	---		-	1624759	-	-	1624759	7	5	39	1	0	1	0	1	0	0	0	0	4560	1116	39	0	2049	0	DLGAP2	8	1624759	Frame_Shift_Del	DEL	G	TCGA-22-4604-01A-01D-1267-08		1624759	144739263	121	15331										
SH2D4A	63898	broad.mit.edu	37	chr8	19218777	19218777	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aaatagaagaagagagaacgAagcagatttgtaagagctgg	13	3	0	6			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:19218777A>C	uc003wzb.2	+	6	994	c.658A>C	c.(658-660)AAG>CAG	p.K220Q	SH2D4A_uc011kym.1_Missense_Mutation_p.K175Q|SH2D4A_uc003wzc.2_Missense_Mutation_p.K220Q	NM_022071	NP_071354	Q9H788	SH24A_HUMAN	SH2 domain containing 4A	220						cytoplasm|nucleus	protein binding				0				Colorectal(111;0.0732)		AGAGAGAACGAAGCAGATTTG	0.348													22	35	---	---	---	---	PASS	C	19218777	C	C	19218777	3	2	39	1	0	0	0	0	1	0	0	0	14235	247	9	5	726	5	SH2D4A	8	19218777	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	17594018	19218777	127145245	122	15332										
ENTPD4	9583	broad.mit.edu	37	chr8	23305380	23305380	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtgtctgtagcttcaatgtcGgtaactcgtgccaggtacct	11	10	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:23305380G>A	uc003xdl.2	-	4	389	c.225C>T	c.(223-225)ACC>ACT	p.T75T	ENTPD4_uc011kzu.1_Silent_p.T75T|ENTPD4_uc003xdm.2_Silent_p.T75T|ENTPD4_uc011kzv.1_Silent_p.T75T|ENTPD4_uc011kzw.1_Silent_p.T41T	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	75	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		CTTCAATGTCGGTAACTCGTG	0.433													6	225	---	---	---	---	PASS	A	23305380	A	A	23305380	2	1	39	1	0	0	0	0	0	0	0	1	5141	1103	39	1		1	ENTPD4	8	23305380	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	4086603	23305380	123058642	123	15333										
ESCO2	157570	broad.mit.edu	37	chr8	27657189	27657189	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agaatctgggttttcagactGaagagaagaaagcgcattgc	12	6	2	5			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:27657189G>T	uc003xgg.2	+	10	1712	c.1629G>T	c.(1627-1629)CTG>CTT	p.L543L	ESCO2_uc010luy.1_RNA	NM_001017420	NP_001017420	Q56NI9	ESCO2_HUMAN	establishment of cohesion 1 homolog 2	543					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding			central_nervous_system(1)	1		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|KIRC - Kidney renal clear cell carcinoma(542;0.0955)|Kidney(114;0.115)|Colorectal(74;0.132)		TTTTCAGACTGAAGAGAAGAA	0.448									SC_Phocomelia_syndrome				5	332	---	---	---	---	PASS	T	27657189	T	T	27657189	2	4	39	1	0	0	0	0	0	0	0	1	5249	1277	45	2		2	ESCO2	8	27657189	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	4351809	27657189	118706833	124	15334										
NRG1	3084	broad.mit.edu	37	chr8	32616829	32616829	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tctttgtttatccagcaataCgtatctaaaaacgtcatctc	4	10	4	0	rs79631951		TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:32616829C>T	uc003xiv.2	+	10	1453	c.936C>T	c.(934-936)TAC>TAT	p.Y312Y	NRG1_uc011lbf.1_Silent_p.Y309Y|NRG1_uc010lvo.2_Silent_p.Y309Y|NRG1_uc003xiu.2_Silent_p.Y317Y|NRG1_uc003xiw.2_Silent_p.Y309Y|NRG1_uc003xit.2_Silent_p.Y312Y|NRG1_uc010lvr.2_Silent_p.Y54Y|NRG1_uc010lvs.2_Silent_p.Y54Y|NRG1_uc010lvp.2_Silent_p.Y266Y|NRG1_uc010lvq.2_Silent_p.Y249Y|NRG1_uc011lbg.1_Silent_p.Y158Y|NRG1_uc011lbh.1_Silent_p.Y155Y|NRG1_uc003xja.2_Silent_p.Y123Y	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	312	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		TCCAGCAATACGTATCTAAAA	0.383													34	116	---	---	---	---	PASS	T	32616829	T	T	32616829	2	4	39	1	0	0	0	0	0	0	0	1	10647	547	19	1		1	NRG1	8	32616829	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	4959640	32616829	113747193	125	15335										
LETM2	137994	broad.mit.edu	37	chr8	38257893	38257893	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gaacagagccaagatgggcgAtgcctctacacagctctcat	10	12	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:38257893A>T	uc003xlm.1	+	5	779	c.608A>T	c.(607-609)GAT>GTT	p.D203V	LETM2_uc011lbn.1_Missense_Mutation_p.D47V|LETM2_uc003xll.1_Missense_Mutation_p.D155V|LETM2_uc003xln.1_Missense_Mutation_p.D47V|LETM2_uc003xlo.1_Missense_Mutation_p.D47V	NM_144652	NP_653253	Q2VYF4	LETM2_HUMAN	leucine zipper-EF-hand containing transmembrane	250	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)			AAGATGGGCGATGCCTCTACA	0.438													95	316	---	---	---	---	PASS	T	38257893	T	T	38257893	3	4	39	1	0	0	0	0	1	0	0	0	8735	333	12	5	470	5	LETM2	8	38257893	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	5641064	38257893	108106129	126	15336										
MCM4	4173	broad.mit.edu	37	chr8	48883428	48883428	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tggaacagcagactctgtccAttgcaaaggtgagtcgcctt	11	10	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:48883428A>T	uc003xqk.1	+	12	1887	c.1792A>T	c.(1792-1794)ATT>TTT	p.I598F	MCM4_uc003xql.1_Missense_Mutation_p.I598F|MCM4_uc011ldi.1_Missense_Mutation_p.I585F	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	598	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				GACTCTGTCCATTGCAAAGGT	0.473													64	146	---	---	---	---	PASS	T	48883428	T	T	48883428	3	4	39	1	0	0	0	0	1	0	0	0	9389	217	8	5	1834	5	MCM4	8	48883428	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	10625535	48883428	97480594	127	15337										
ST18	9705	broad.mit.edu	37	chr8	53084631	53084631	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	attgccatccaggggttctgCgagagcattctgcgggtctt	13	10	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:53084631C>G	uc003xqz.2	-	5	946	c.790G>C	c.(790-792)GCA>CCA	p.A264P	ST18_uc011ldq.1_5'UTR|ST18_uc011ldr.1_Missense_Mutation_p.A229P|ST18_uc011lds.1_Missense_Mutation_p.A169P|ST18_uc003xra.2_Missense_Mutation_p.A264P|ST18_uc003xrb.2_Missense_Mutation_p.A264P	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	264						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				AGGGGTTCTGCGAGAGCATTC	0.488													76	238	---	---	---	---	PASS	G	53084631	G	G	53084631	3	3	39	1	0	0	0	0	1	0	0	0	15211	768	27	4	2421	4	ST18	8	53084631	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	4201203	53084631	93279391	128	15338										
XKR4	114786	broad.mit.edu	37	chr8	56270299	56270299	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtggggagaatgacagatggAggttttactggaaaatggta	16	2	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:56270299A>G	uc003xsf.2	+	2	900	c.868A>G	c.(868-870)AGG>GGG	p.R290G		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	290						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			TGACAGATGGAGGTTTTACTG	0.433													60	170	---	---	---	---	PASS	G	56270299	G	G	56270299	3	3	39	1	0	0	0	0	1	0	0	0	17430	295	11	5	874	5	XKR4	8	56270299	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	3185668	56270299	90093723	129	15339										
PREX2	80243	broad.mit.edu	37	chr8	68934349	68934349	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tacttcttgaactcaacaaaAtaagaacaatccggacattt	4	9	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:68934349A>G	uc003xxv.1	+	4	442	c.415A>G	c.(415-417)ATA>GTA	p.I139V	PREX2_uc003xxu.1_Missense_Mutation_p.I139V|PREX2_uc011lez.1_Missense_Mutation_p.I74V	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	139	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ACTCAACAAAATAAGAACAAT	0.328													20	65	---	---	---	---	PASS	G	68934349	G	G	68934349	3	3	39	1	0	0	0	0	1	0	0	0	12477	101	4	5	429	5	PREX2	8	68934349	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	12664050	68934349	77429673	130	15340										
CA3	761	broad.mit.edu	37	chr8	86354334	86354334	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtcctctccctggaccctacCgacttcgccagtttcatctt	6	17	3	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:86354334C>T	uc003ydj.2	+	3	348	c.265C>T	c.(265-267)CGA>TGA	p.R89*	CA3_uc011lfv.1_RNA	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	89					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0						TGGACCCTACCGACTTCGCCA	0.507													68	152	---	---	---	---	PASS	T	86354334	T	T	86354334	4	4	39	1	0	0	0	0	0	1	0	0	2517	644	23	1	275	1	CA3	8	86354334	Nonsense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	17419985	86354334	60009688	131	15341										
TM7SF4	81501	broad.mit.edu	37	chr8	105361645	105361645	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctttctggccgactcctaaaGaaaggaaaaacctggggctg	11	10	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:105361645G>C	uc003ylx.1	+	2	914	c.865G>C	c.(865-867)GAA>CAA	p.E289Q		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	289					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GACTCCTAAAGAAAGGAAAAA	0.483													17	433	---	---	---	---	PASS	C	105361645	C	C	105361645	3	2	39	1	0	0	0	0	1	0	0	0	15973	943	33	2	867	2	TM7SF4	8	105361645	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	19007311	105361645	41002377	132	15342										
CSMD3	114788	broad.mit.edu	37	chr8	113318395	113318395	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tagtattcctccatttgttgGagctttaggaatcccacagg	9	9	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:113318395G>T	uc003ynu.2	-	51	8071	c.7912C>A	c.(7912-7914)CCA>ACA	p.P2638T	CSMD3_uc003yns.2_Missense_Mutation_p.P1840T|CSMD3_uc003ynt.2_Missense_Mutation_p.P2598T|CSMD3_uc011lhx.1_Missense_Mutation_p.P2534T	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2638	Extracellular (Potential).|Sushi 15.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCATTTGTTGGAGCTTTAGGA	0.348										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			54	111	---	---	---	---	PASS	T	113318395	T	T	113318395	3	4	39	1	0	0	0	0	1	0	0	0	3946	1174	41	2	3295	2	CSMD3	8	113318395	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	7956750	113318395	33045627	133	15343										
CSMD3	114788	broad.mit.edu	37	chr8	113649179	113649179	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccaatcccaaagttgaacccGattcgactaccatattgagg	7	12	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:113649179G>C	uc003ynu.2	-	22	3741	c.3582C>G	c.(3580-3582)ATC>ATG	p.I1194M	CSMD3_uc003yns.2_Missense_Mutation_p.I466M|CSMD3_uc003ynt.2_Missense_Mutation_p.I1154M|CSMD3_uc011lhx.1_Missense_Mutation_p.I1090M	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1194	Sushi 6.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGTTGAACCCGATTCGACTAC	0.468										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			90	210	---	---	---	---	PASS	C	113649179	C	C	113649179	3	2	39	1	0	0	0	0	1	0	0	0	3946	1048	37	2	7741	2	CSMD3	8	113649179	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	330784	113649179	32714843	134	15344										
WDR67	93594	broad.mit.edu	37	chr8	124157029	124157029	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctgctctttcagatgcgtctAgaaagtggtttttaaagcaa	9	7	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:124157029A>G	uc003ypp.1	+	20	2998	c.2908A>G	c.(2908-2910)AGA>GGA	p.R970G	WDR67_uc011lig.1_Missense_Mutation_p.R874G|WDR67_uc011lih.1_Missense_Mutation_p.R860G|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Missense_Mutation_p.R604G|WDR67_uc003ypt.1_Missense_Mutation_p.R362G|WDR67_uc003ypu.1_Missense_Mutation_p.R362G	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	970						centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			AGATGCGTCTAGAAAGTGGTT	0.388													62	129	---	---	---	---	PASS	G	124157029	G	G	124157029	3	3	39	1	0	0	0	0	1	0	0	0	17315	412	15	5	2986	5	WDR67	8	124157029	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	10507850	124157029	22206993	135	15345										
ATAD2	29028	broad.mit.edu	37	chr8	124369834	124369834	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	caatcgtagctgtctttcagAttctcctacccatttactta	4	12	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:124369834A>T	uc003yqh.3	-	12	1633	c.1525T>A	c.(1525-1527)TCT>ACT	p.S509T	ATAD2_uc011lii.1_Missense_Mutation_p.S300T|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.S509T	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	509					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TGTCTTTCAGATTCTCCTACC	0.393													69	129	---	---	---	---	PASS	T	124369834	T	T	124369834	3	4	39	1	0	0	0	0	1	0	0	0	1071	333	12	5	2715	5	ATAD2	8	124369834	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	212805	124369834	21994188	136	15346										
FAM135B	51059	broad.mit.edu	37	chr8	139263206	139263206	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccattccgggggtggaagtgCaggccaagcgttcggctgct	16	11	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:139263206C>A	uc003yuy.2	-	6	591	c.420G>T	c.(418-420)CTG>CTT	p.L140L	FAM135B_uc003yux.2_Silent_p.L41L|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	140										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)			GGTGGAAGTGCAGGCCAAGCG	0.602										HNSCC(54;0.14)			145	361	---	---	---	---	PASS	A	139263206	A	A	139263206	2	1	39	1	0	0	0	0	0	0	0	1	5449	697	25	3		3	FAM135B	8	139263206	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	14893372	139263206	7100816	137	15347										
ZNF623	9831	broad.mit.edu	37	chr8	144732305	144732305	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gacagtgacccattggaagaTccagacaggagagacagctc	12	10	0	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:144732305T>G	uc003yzd.2	+	1	352	c.263T>G	c.(262-264)ATC>AGC	p.I88S	ZNF623_uc011lkp.1_Missense_Mutation_p.I48S|ZNF623_uc003yzc.2_Missense_Mutation_p.I48S	NM_014789	NP_055604	O75123	ZN623_HUMAN	zinc finger protein 623 isoform 1	88					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	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;2.46e-41)|Epithelial(56;5.28e-40)|all cancers(56;5.23e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CATTGGAAGATCCAGACAGGA	0.522													8	383	---	---	---	---	PASS	G	144732305	G	G	144732305	3	3	39	1	0	0	0	0	1	0	0	0	18044	1435	50	5	265	5	ZNF623	8	144732305	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	5469099	144732305	1631717	138	15348										
EPPK1	83481	broad.mit.edu	37	chr8	144946303	144946303	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gcctggaaaagggggatttgGgagccactgaaggggtcgtg	19	6	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr8:144946303G>T	uc003zaa.1	-	1	1132	c.1119C>A	c.(1117-1119)TCC>TCA	p.S373S		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	373	Plectin 8.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGGGGATTTGGGAGCCACTGA	0.662													5	18	---	---	---	---	PASS	T	144946303	T	T	144946303	2	4	39	1	0	0	0	0	0	0	0	1	5190	1219	43	3		3	EPPK1	8	144946303	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	213998	144946303	1417719	139	15349										
RFX3	5991	broad.mit.edu	37	chr9	3330505	3330505	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgtgtctctgtgtaaggataCgttgttgttcggctttagaa	12	5	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr9:3330505C>A	uc003zhr.2	-	5	540	c.228G>T	c.(226-228)ACG>ACT	p.T76T	RFX3_uc010mhd.2_Silent_p.T76T|RFX3_uc003zhs.1_Silent_p.T76T|RFX3_uc003zht.1_Silent_p.T76T|RFX3_uc010mhe.1_Silent_p.T76T	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	76					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		TGTAAGGATACGTTGTTGTTC	0.353													141	93	---	---	---	---	PASS	A	3330505	A	A	3330505	2	1	39	1	0	0	0	0	0	0	0	1	13264	523	19	1		1	RFX3	9	3330505	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08		3330505	137882926	140	15350										
TESK1	7016	broad.mit.edu	37	chr9	35609289	35609289	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gagggcagcagccctgagccGgaacctccagggccagcgcc	15	16	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr9:35609289G>A	uc003zxa.2	+	10	1767	c.1431G>A	c.(1429-1431)CCG>CCA	p.P477P	TESK1_uc003zwz.1_RNA|TESK1_uc010mks.2_Silent_p.P317P	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	477					cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GCCCTGAGCCGGAACCTCCAG	0.667													25	234	---	---	---	---	PASS	A	35609289	A	A	35609289	2	1	39	1	0	0	0	0	0	0	0	1	15764	1103	39	1		1	TESK1	9	35609289	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	32278784	35609289	105604142	141	15351										
NPR2	4882	broad.mit.edu	37	chr9	35802240	35802240	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	caaacatgtgaataagaagcGcattgagctgacccggcagg	12	9	0	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr9:35802240G>A	uc003zyd.2	+	10	1670	c.1670G>A	c.(1669-1671)CGC>CAC	p.R557H	NPR2_uc010mlb.2_Missense_Mutation_p.R557H	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	557	Protein kinase.|Cytoplasmic (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	AATAAGAAGCGCATTGAGCTG	0.433													79	240	---	---	---	---	PASS	A	35802240	A	A	35802240	3	1	39	1	0	0	0	0	1	0	0	0	10595	1087	38	1	1708	1	NPR2	9	35802240	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	192951	35802240	105411191	142	15352										
FOXB2	442425	broad.mit.edu	37	chr9	79634612	79634612	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tcgtacagcgaccaaaaaccGccctactcttacatctcgct	5	16	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr9:79634612G>T	uc004ako.1	+	1	42	c.42G>T	c.(40-42)CCG>CCT	p.P14P		NM_001013735	NP_001013757	Q5VYV0	FOXB2_HUMAN	forkhead box B2	14	Fork-head.				brain development|embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0						ACCAAAAACCGCCCTACTCTT	0.632													8	33	---	---	---	---	PASS	T	79634612	T	T	79634612	2	4	39	1	0	0	0	0	0	0	0	1	5993	1074	38	1		1	FOXB2	9	79634612	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	43832372	79634612	61578819	143	15353										
ZNF462	58499	broad.mit.edu	37	chr9	109689781	109689781	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aatgagatgttcttttgccaGcactgtgattatgggaaccg	11	7	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr9:109689781G>A	uc004bcz.2	+	3	3877	c.3588G>A	c.(3586-3588)CAG>CAA	p.Q1196Q	ZNF462_uc010mto.2_Silent_p.Q1044Q|ZNF462_uc004bda.2_Silent_p.Q1044Q	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1196					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						TCTTTTGCCAGCACTGTGATT	0.547													6	901	---	---	---	---	PASS	A	109689781	A	A	109689781	2	1	39	1	0	0	0	0	0	0	0	1	17923	962	34	3		3	ZNF462	9	109689781	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	30055169	109689781	31523650	144	15354										
IKBKAP	8518	broad.mit.edu	37	chr9	111656244	111656244	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acatttgctgaggtggccaaTggctttttcatatcgtttca	9	8	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr9:111656244T>C	uc004bdm.3	-	26	3359	c.2839A>G	c.(2839-2841)ATT>GTT	p.I947V	IKBKAP_uc004bdl.2_Missense_Mutation_p.I598V|IKBKAP_uc011lwc.1_Missense_Mutation_p.I833V|IKBKAP_uc010mtq.2_Missense_Mutation_p.I598V|IKBKAP_uc004bdk.2_5'Flank|IKBKAP_uc010mtp.2_5'Flank	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	947					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						AGGTGGCCAATGGCTTTTTCA	0.269													118	75	---	---	---	---	PASS	C	111656244	C	C	111656244	3	2	39	1	0	0	0	0	1	0	0	0	7610	1464	51	5	1207	5	IKBKAP	9	111656244	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	1966463	111656244	29557187	145	15355										
TNC	3371	broad.mit.edu	37	chr9	117853217	117853217	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgtcgcttgtgccggatgacTttcttgaggaccccaccttc	10	13	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr9:117853217T>A	uc004bjj.3	-	2	443	c.81A>T	c.(79-81)AAA>AAT	p.K27N	TNC_uc010mvf.2_Missense_Mutation_p.K27N	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	27					cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GCCGGATGACTTTCTTGAGGA	0.567													80	67	---	---	---	---	PASS	A	117853217	A	A	117853217	3	1	39	1	0	0	0	0	1	0	0	0	16267	1606	56	5	6632	5	TNC	9	117853217	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	6196973	117853217	23360214	146	15356										
OLFML2A	169611	broad.mit.edu	37	chr9	127572626	127572626	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agatcgactacaaccccaagGagcgggtgctgtacgcctgg	13	12	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr9:127572626G>C	uc004bov.2	+	8	2007	c.1894G>C	c.(1894-1896)GAG>CAG	p.E632Q	OLFML2A_uc004bow.2_Missense_Mutation_p.E418Q	NM_182487	NP_872293	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A precursor	632	Olfactomedin-like.										0						CAACCCCAAGGAGCGGGTGCT	0.647													4	203	---	---	---	---	PASS	C	127572626	C	C	127572626	3	2	39	1	0	0	0	0	1	0	0	0	10857	1175	41	2	1924	2	OLFML2A	9	127572626	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	9719409	127572626	13640805	147	15357										
C10orf18	54906	broad.mit.edu	37	chr10	5799602	5799602	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cgtgcaggaggctttgtgatAtcagatgacaagatactaga	12	6	1	5			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr10:5799602A>G	uc001iij.2	+	17	7477	c.6852A>G	c.(6850-6852)ATA>ATG	p.I2284M	C10orf18_uc001iik.2_Missense_Mutation_p.I1128M	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	2284										ovary(1)|central_nervous_system(1)	2						GCTTTGTGATATCAGATGACA	0.418													11	624	---	---	---	---	PASS	G	5799602	G	G	5799602	3	3	39	1	0	0	0	0	1	0	0	0	1596	439	16	5	6906	5	C10orf18	10	5799602	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08		5799602	129735145	148	15358										
CACNB2	783	broad.mit.edu	37	chr10	18828262	18828262	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agtcaagaaatcccagcaccGctcttcctcctcagccccac	5	19	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr10:18828262G>A	uc001ipr.2	+	14	1652	c.1592G>A	c.(1591-1593)CGC>CAC	p.R531H	CACNB2_uc009xjz.1_Missense_Mutation_p.R281H|CACNB2_uc001ips.2_Missense_Mutation_p.R507H|CACNB2_uc001ipt.2_Missense_Mutation_p.R493H|CACNB2_uc001ipu.2_Missense_Mutation_p.R503H|CACNB2_uc001ipv.2_Missense_Mutation_p.R479H|CACNB2_uc009xka.1_Missense_Mutation_p.R465H|CACNB2_uc001ipw.2_Missense_Mutation_p.R438H|CACNB2_uc001ipx.2_Missense_Mutation_p.R476H|CACNB2_uc001ipz.2_Missense_Mutation_p.R453H|CACNB2_uc001ipy.2_Missense_Mutation_p.R477H|CACNB2_uc010qco.1_Missense_Mutation_p.R445H|CACNB2_uc001iqa.2_Missense_Mutation_p.R483H|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	531					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TCCCAGCACCGCTCTTCCTCC	0.557													53	135	---	---	---	---	PASS	A	18828262	A	A	18828262	3	1	39	1	0	0	0	0	1	0	0	0	2553	1087	38	1	1956	1	CACNB2	10	18828262	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	13028660	18828262	116706485	149	15359										
MLLT10	8028	broad.mit.edu	37	chr10	22021982	22021982	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ataacagcaaatcctagtccGtctcatcaaatacacacatt	3	12	2	0	rs150645153		TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr10:22021982G>C	uc001iqs.2	+	19	2769	c.2421G>C	c.(2419-2421)CCG>CCC	p.P807P	MLLT10_uc001iqt.2_Silent_p.P791P|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Silent_p.P791P|MLLT10_uc001ira.2_Silent_p.P248P|MLLT10_uc001irb.2_RNA	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	807					positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						ATCCTAGTCCGTCTCATCAAA	0.338			T	MLL|PICALM|CDK6	AL								4	161	---	---	---	---	PASS	C	22021982	C	C	22021982	2	2	39	1	0	0	0	0	0	0	0	1	9626	1132	40	4		4	MLLT10	10	22021982	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	3193720	22021982	113512765	150	15360										
GPR158	57512	broad.mit.edu	37	chr10	25886855	25886855	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gatcccagagacagtcagccGgcagtgctctaaagaggaca	12	11	2	2	rs145808794	by1000genomes	TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr10:25886855G>T	uc001isj.2	+	11	2360	c.2300G>T	c.(2299-2301)CGG>CTG	p.R767L	GPR158_uc001isk.2_Missense_Mutation_p.R142L	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	767	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						ACAGTCAGCCGGCAGTGCTCT	0.572													62	181	---	---	---	---	PASS	T	25886855	T	T	25886855	3	4	39	1	0	0	0	0	1	0	0	0	6663	1116	39	1	2342	1	GPR158	10	25886855	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	3864873	25886855	109647892	151	15361										
GAD2	2572	broad.mit.edu	37	chr10	26581459	26581459	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gcagagtatttatacaacatCataaaaaaccgagaaggata	7	6	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr10:26581459C>T	uc001isp.2	+	14	1955	c.1452C>T	c.(1450-1452)ATC>ATT	p.I484I	GAD2_uc001isq.2_Silent_p.I484I	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	484					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	TATACAACATCATAAAAAACC	0.403													95	185	---	---	---	---	PASS	T	26581459	T	T	26581459	2	4	39	1	0	0	0	0	0	0	0	1	6180	816	29	2		2	GAD2	10	26581459	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	694604	26581459	108953288	152	15362										
CTNNA3	29119	broad.mit.edu	37	chr10	67680123	67680123	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tcctctaaattcactcatgaCttgcaatggatggatttttt	6	8	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr10:67680123C>A	uc009xpn.1	-	18	2776	c.2653G>T	c.(2653-2655)GTC>TTC	p.V885F	CTNNA3_uc001jmw.2_Missense_Mutation_p.V885F	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	885					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						TCACTCATGACTTGCAATGGA	0.403													41	156	---	---	---	---	PASS	A	67680123	A	A	67680123	3	1	39	1	0	0	0	0	1	0	0	0	4014	565	20	3	38	3	CTNNA3	10	67680123	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	41098664	67680123	67854624	153	15363										
ADAMTS14	140766	broad.mit.edu	37	chr10	72518000	72518000	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gccagaggggcagtgggtgcCacaatctgaacccctacatc	12	13	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr10:72518000C>T	uc001jrh.2	+	21	3137	c.3137C>T	c.(3136-3138)CCA>CTA	p.P1046L	ADAMTS14_uc001jrg.2_Missense_Mutation_p.P1049L	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1046					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						CAGTGGGTGCCACAATCTGAA	0.517													47	183	---	---	---	---	PASS	T	72518000	T	T	72518000	3	4	39	1	0	0	0	0	1	0	0	0	259	594	21	3	3228	3	ADAMTS14	10	72518000	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	4837877	72518000	63016747	154	15364										
SORCS3	22986	broad.mit.edu	37	chr10	107022249	107022249	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agctggacacgcgggtcataGgtacatgctcctgctccact	11	13	1	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr10:107022249G>A	uc001kyi.1	+	26	3831	c.3604G>A	c.(3604-3606)GGA>AGA	p.G1202R		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	1202	Cytoplasmic (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GCGGGTCATAGGTACATGCTC	0.547													22	61	---	---	---	---	PASS	A	107022249	A	A	107022249	3	1	39	1	0	0	0	0	1	0	0	0	14932	1014	35	3	3706	3	SORCS3	10	107022249	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	34504249	107022249	28512498	155	15365										
TECTB	6975	broad.mit.edu	37	chr10	114063031	114063031	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tggtccacagatgttctccaCcacctcatcatgatgttggg	9	12	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr10:114063031C>G	uc001kzr.1	+	10	951	c.951C>G	c.(949-951)CAC>CAG	p.H317Q		NM_058222	NP_478129	Q96PL2	TECTB_HUMAN	tectorin beta precursor	317						anchored to membrane|plasma membrane|proteinaceous extracellular matrix					0		Colorectal(252;0.198)		Epithelial(162;0.0143)|all cancers(201;0.0242)		ATGTTCTCCACCACCTCATCA	0.512													11	226	---	---	---	---	PASS	G	114063031	G	G	114063031	3	3	39	1	0	0	0	0	1	0	0	0	15745	506	18	4	989	4	TECTB	10	114063031	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	7040782	114063031	21471716	156	15366										
CHST15	51363	broad.mit.edu	37	chr10	125804267	125804267	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cccgtgcgcgtgcgccaggtGgccccagaaggccttgcgca	15	16	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr10:125804267G>T	uc001lhl.2	-	2	1228	c.715C>A	c.(715-717)CAC>AAC	p.H239N	CHST15_uc001lhm.2_Missense_Mutation_p.H239N|CHST15_uc001lhn.2_Missense_Mutation_p.H239N|CHST15_uc010que.1_Missense_Mutation_p.H239N|CHST15_uc001lho.2_Missense_Mutation_p.H239N	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	239	Lumenal (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1						TGCGCCAGGTGGCCCCAGAAG	0.652													7	83	---	---	---	---	PASS	T	125804267	T	T	125804267	3	4	39	1	0	0	0	0	1	0	0	0	3403	1348	47	3	994	3	CHST15	10	125804267	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	11741236	125804267	9730480	157	15367										
OR51F2	119694	broad.mit.edu	37	chr11	4842752	4842752	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctggatctccatccctttttGtctcctatatgttgttgccg	7	12	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:4842752G>C	uc010qyn.1	+	1	137	c.137G>C	c.(136-138)TGT>TCT	p.C46S		NM_001004753	NP_001004753	Q8NH61	O51F2_HUMAN	olfactory receptor, family 51, subfamily F,	46	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATCCCTTTTTGTCTCCTATAT	0.478													178	485	---	---	---	---	PASS	C	4842752	C	C	4842752	3	2	39	1	0	0	0	0	1	0	0	0	11097	1377	48	4	139	4	OR51F2	11	4842752	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08		4842752	130163764	158	15368										
OR51M1	390059	broad.mit.edu	37	chr11	5411101	5411101	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gcaagtggtcagagcaggccTaattgtcatcttccggggac	13	10	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:5411101T>C	uc010qzc.1	+	1	473	c.473T>C	c.(472-474)CTA>CCA	p.L158P	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,	158						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)		AGAGCAGGCCTAATTGTCATC	0.537													5	631	---	---	---	---	PASS	C	5411101	C	C	5411101	3	2	39	1	0	0	0	0	1	0	0	0	11103	1522	53	5	475	5	OR51M1	11	5411101	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	568349	5411101	129595415	159	15369										
OR51I1	390063	broad.mit.edu	37	chr11	5462437	5462437	+	Missense_Mutation	SNP	A	T	T													0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agaaagtgtggatgaagaacAtctggaccaggcaagcatta							TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:5462437A>T	uc010qze.1	-	1	308	c.308T>A	c.(307-309)ATG>AAG	p.M103K	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,	103	Helical; Name=3; (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)		GATGAAGAACATCTGGACCAG	0.448													38	91	---	---	---	---	PASS	T	5462437	T	T	5462437	3	4	39	1	0	0	0	0	1	0	0	0	11100	217	8	5	640	5	OR51I1	11	5462437	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	51336	5462437	129544079	160	15370	383	2								
OR51I1	390063	broad.mit.edu	37	chr11	5462447	5462447	+	Silent	SNP	G	A	A													0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gatgaagaacatctggaccaGgcaagcattaaacgcaacat							TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:5462447G>A	uc010qze.1	-	1	298	c.298C>T	c.(298-300)CTG>TTG	p.L100L	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,	100	Extracellular (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)		ATCTGGACCAGGCAAGCATTA	0.453													48	85	---	---	---	---	PASS	A	5462447	A	A	5462447	2	1	39	1	0	0	0	0	0	0	0	1	11100	991	35	3		3	OR51I1	11	5462447	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	10	5462447	129544069	161	15371	383	2								
LDHC	3948	broad.mit.edu	37	chr11	18467792	18467792	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	caagctgaaggggtatacctCttgggctattggactgtctg	13	8	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:18467792C>T	uc001mon.3	+	7	858	c.746C>T	c.(745-747)TCT>TTT	p.S249F	LDHC_uc001mom.3_Missense_Mutation_p.S249F|LDHC_uc009yhp.2_Intron|LDHC_uc001moo.3_Missense_Mutation_p.S133F|LDHC_uc009yhq.2_RNA|LDHC_uc009yhr.2_Intron	NM_017448	NP_059144	P07864	LDHC_HUMAN	L-lactate dehydrogenase C	249					glycolysis	cytoplasm	binding|L-lactate dehydrogenase activity				0					NADH(DB00157)	GGGTATACCTCTTGGGCTATT	0.373													96	282	---	---	---	---	PASS	T	18467792	T	T	18467792	3	4	39	1	0	0	0	0	1	0	0	0	8702	913	32	2	768	2	LDHC	11	18467792	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	13005345	18467792	116538724	162	15372										
OR5D13	390142	broad.mit.edu	37	chr11	55541396	55541396	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atagtgtgctccctgatactCacatattttcttcttgactt	5	10	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:55541396C>A	uc010ril.1	+	1	483	c.483C>A	c.(481-483)CTC>CTA	p.L161L		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	161	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				CCCTGATACTCACATATTTTC	0.413													102	271	---	---	---	---	PASS	A	55541396	A	A	55541396	2	1	39	1	0	0	0	0	0	0	0	1	11154	813	29	2		2	OR5D13	11	55541396	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	37073604	55541396	79465120	163	15373										
OR5L2	26338	broad.mit.edu	37	chr11	55594807	55594807	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccttctcatctatggagtcaCgttgttagccaatctgggca	9	11	4	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:55594807C>T	uc001nhy.1	+	1	113	c.113C>T	c.(112-114)ACG>ATG	p.T38M		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				TATGGAGTCACGTTGTTAGCC	0.502										HNSCC(27;0.073)			165	431	---	---	---	---	PASS	T	55594807	T	T	55594807	3	4	39	1	0	0	0	0	1	0	0	0	11171	536	19	1	115	1	OR5L2	11	55594807	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	53411	55594807	79411709	164	15374										
OR5R1	219479	broad.mit.edu	37	chr11	56185240	56185240	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agtgataacggtgtggaagaGggcaaccaggaagctgtata	15	5	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:56185240G>A	uc010rji.1	-	1	469	c.469C>T	c.(469-471)CTC>TTC	p.L157F		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GTGTGGAAGAGGGCAACCAGG	0.458													59	179	---	---	---	---	PASS	A	56185240	A	A	56185240	3	1	39	1	0	0	0	0	1	0	0	0	11180	1000	35	3	507	3	OR5R1	11	56185240	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	590433	56185240	78821276	165	15375										
OR10W1	81341	broad.mit.edu	37	chr11	58035120	58035120	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tagggtgttggccaggatatGgggcaccaccactgcagtgt	15	9	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:58035120G>T	uc001nmq.1	-	1	613	c.211C>A	c.(211-213)CAT>AAT	p.H71N		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	71	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				GCCAGGATATGGGGCACCACC	0.512													42	123	---	---	---	---	PASS	T	58035120	T	T	58035120	3	4	39	1	0	0	0	0	1	0	0	0	10921	1348	47	3	710	3	OR10W1	11	58035120	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	1849880	58035120	76971396	166	15376										
OR5B21	219968	broad.mit.edu	37	chr11	58274929	58274929	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tctgaatggtgatgcatatgAagaagtaagaaataaggatg	12	2	1	5			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:58274929A>T	uc010rki.1	-	1	650	c.650T>A	c.(649-651)TTC>TAC	p.F217Y		NM_001005218	NP_001005218	A6NL26	OR5BL_HUMAN	olfactory receptor, family 5, subfamily B,	217	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GATGCATATGAAGAAGTAAGA	0.478													25	69	---	---	---	---	PASS	T	58274929	T	T	58274929	3	4	39	1	0	0	0	0	1	0	0	0	11151	246	9	5	281	5	OR5B21	11	58274929	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	239809	58274929	76731587	167	15377										
OR10V1	390201	broad.mit.edu	37	chr11	59480685	59480685	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggagatggagatcaatgagaGggggatgctaaggacgatga	18	3	1	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:59480685G>A	uc001nof.1	-	1	634	c.634C>T	c.(634-636)CTC>TTC	p.L212F		NM_001005324	NP_001005324	Q8NGI7	O10V1_HUMAN	olfactory receptor, family 10, subfamily V,	212	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATCAATGAGAGGGGGATGCTA	0.522													39	117	---	---	---	---	PASS	A	59480685	A	A	59480685	3	1	39	1	0	0	0	0	1	0	0	0	10920	1000	35	3	299	3	OR10V1	11	59480685	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	1205756	59480685	75525831	168	15378										
TCN1	6947	broad.mit.edu	37	chr11	59631502	59631502	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tggttcccctgttatagtttGactggatcattgtattcaac	8	8	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:59631502G>T	uc001noj.2	-	2	235	c.137C>A	c.(136-138)TCA>TAA	p.S46*		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	46					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GTTATAGTTTGACTGGATCAT	0.413													41	410	---	---	---	---	PASS	T	59631502	T	T	59631502	4	4	39	1	0	0	0	0	0	1	0	0	15703	1294	45	2	1196	2	TCN1	11	59631502	Nonsense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	150817	59631502	75375014	169	15379										
MS4A14	84689	broad.mit.edu	37	chr11	60164080	60164080	+	Missense_Mutation	SNP	C	A	A													0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aacatcccaggacagaagggCaactcacgtcatcactataa							TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:60164080C>A	uc001npj.2	+	1	594	c.29C>A	c.(28-30)GCA>GAA	p.A10E	MS4A14_uc001npi.2_Intron|MS4A14_uc001npn.2_5'UTR|MS4A14_uc001npk.2_Missense_Mutation_p.A10E|MS4A14_uc001npl.2_5'UTR|MS4A14_uc001npm.2_5'UTR	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	10						integral to membrane	receptor activity			breast(1)	1						GACAGAAGGGCAACTCACGTC	0.458													21	65	---	---	---	---	PASS	A	60164080	A	A	60164080	3	1	39	1	0	0	0	0	1	0	0	0	9858	710	25	3	31	3	MS4A14	11	60164080	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	532578	60164080	74842436	170	15380	384	2								
MS4A14	84689	broad.mit.edu	37	chr11	60164081	60164081	+	Silent	SNP	A	T	T													0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acatcccaggacagaagggcAactcacgtcatcactataaa							TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:60164081A>T	uc001npj.2	+	1	595	c.30A>T	c.(28-30)GCA>GCT	p.A10A	MS4A14_uc001npi.2_Intron|MS4A14_uc001npn.2_5'UTR|MS4A14_uc001npk.2_Silent_p.A10A|MS4A14_uc001npl.2_5'UTR|MS4A14_uc001npm.2_5'UTR	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	10						integral to membrane	receptor activity			breast(1)	1						ACAGAAGGGCAACTCACGTCA	0.458													21	66	---	---	---	---	PASS	T	60164081	T	T	60164081	2	4	39	1	0	0	0	0	0	0	0	1	9858	117	5	5		5	MS4A14	11	60164081	Silent	SNP	A	TCGA-22-4604-01A-01D-1267-08	1	60164081	74842435	171	15381	384	2								
SLC3A2	6520	broad.mit.edu	37	chr11	62656110	62656110	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctcccctcttgagctggaacGcctgaaactggagcctcacg	10	15	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:62656110G>C	uc001nwd.2	+	12	2062	c.1838G>C	c.(1837-1839)CGC>CCC	p.R613P	SLC3A2_uc001nwb.2_Missense_Mutation_p.R644P|SLC3A2_uc001nwc.2_Missense_Mutation_p.R614P|SLC3A2_uc001nwe.2_Missense_Mutation_p.R582P|SLC3A2_uc001nwf.2_Missense_Mutation_p.R551P|SLC3A2_uc001nwg.2_Missense_Mutation_p.R512P	NM_002394	NP_002385	P08195	4F2_HUMAN	solute carrier family 3, member 2 isoform c	613	Extracellular (Potential).				blood coagulation|carbohydrate metabolic process|cell growth|cellular nitrogen compound metabolic process|leucine import|leukocyte migration|tryptophan transport	apical plasma membrane|cell surface|integral to membrane|melanosome	calcium:sodium antiporter activity|catalytic activity|cation binding|neutral amino acid transmembrane transporter activity|protein binding				0						GAGCTGGAACGCCTGAAACTG	0.657													66	187	---	---	---	---	PASS	C	62656110	C	C	62656110	3	2	39	1	0	0	0	0	1	0	0	0	14627	1087	38	4	1984	4	SLC3A2	11	62656110	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	2492029	62656110	72350406	172	15382										
KAT5	10524	broad.mit.edu	37	chr11	65482308	65482308	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccagaccaagtgtgacctacGacatcctccaggcaatgaga	9	13	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:65482308G>T	uc001ofi.2	+	9	1107	c.857G>T	c.(856-858)CGA>CTA	p.R286L	KAT5_uc001ofj.2_Missense_Mutation_p.R234L|KAT5_uc001ofk.2_Missense_Mutation_p.R319L|KAT5_uc010roo.1_Missense_Mutation_p.R267L|KAT5_uc001ofl.2_Missense_Mutation_p.R75L	NM_006388	NP_006379	Q92993	KAT5_HUMAN	K(lysine) acetyltransferase 5 isoform 2	286					androgen receptor signaling pathway|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|double-strand break repair|interspecies interaction between organisms|negative regulation of interleukin-2 production|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nucleolus|perinuclear region of cytoplasm|Piccolo NuA4 histone acetyltransferase complex	androgen receptor binding|histone acetyltransferase activity|metal ion binding|repressing transcription factor binding|transcription coactivator activity				0						TGTGACCTACGACATCCTCCA	0.542													121	320	---	---	---	---	PASS	T	65482308	T	T	65482308	3	4	39	1	0	0	0	0	1	0	0	0	7983	1058	37	2	986	2	KAT5	11	65482308	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	2826198	65482308	69524208	173	15383										
CTSF	8722	broad.mit.edu	37	chr11	66333633	66333633	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	caggtagatagtgcggaactCctcctctgcgggcaaaggtg	14	10	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:66333633C>T	uc001oip.2	-	6	817	c.727G>A	c.(727-729)GAG>AAG	p.E243K		NM_003793	NP_003784	Q9UBX1	CATF_HUMAN	cathepsin F precursor	243					proteolysis	lysosome	cysteine-type endopeptidase activity				0						GTGCGGAACTCCTCCTCTGCG	0.567													20	448	---	---	---	---	PASS	T	66333633	T	T	66333633	3	4	39	1	0	0	0	0	1	0	0	0	4034	864	30	2	759	2	CTSF	11	66333633	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	851325	66333633	68672883	174	15384										
CTTN	2017	broad.mit.edu	37	chr11	70281197	70281197	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acatcgagatgattgacgacGgctggtggcgcggggtgtgc	18	8	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:70281197G>C	uc001opv.3	+	18	1788	c.1582G>C	c.(1582-1584)GGC>CGC	p.G528R	CTTN_uc001opu.2_Missense_Mutation_p.G491R|CTTN_uc001opw.3_Missense_Mutation_p.G491R|CTTN_uc010rqm.1_Missense_Mutation_p.G212R|CTTN_uc001opx.2_Missense_Mutation_p.G212R	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	528	SH3.					cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		GATTGACGACGGCTGGTGGCG	0.612													63	195	---	---	---	---	PASS	C	70281197	C	C	70281197	3	2	39	1	0	0	0	0	1	0	0	0	4044	1116	39	4	1644	4	CTTN	11	70281197	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	3947564	70281197	64725319	175	15385										
UCP3	7352	broad.mit.edu	37	chr11	73716885	73716885	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cgaggtgtatgctggcctgaAatcggaccttcaccacatct	10	12	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:73716885A>C	uc001our.2	-	4	786	c.431T>G	c.(430-432)TTT>TGT	p.F144C	UCP3_uc001ous.2_Missense_Mutation_p.F144C	NM_003356	NP_003347	P55916	UCP3_HUMAN	uncoupling protein 3 isoform UCP3L	144	Solcar 2.				mitochondrial transport|respiratory electron transport chain|respiratory gaseous exchange	integral to membrane|mitochondrial inner membrane	binding			pancreas(1)	1	Breast(11;2.08e-05)					GCTGGCCTGAAATCGGACCTT	0.612													50	174	---	---	---	---	PASS	C	73716885	C	C	73716885	3	2	39	1	0	0	0	0	1	0	0	0	16929	14	1	5	527	5	UCP3	11	73716885	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	3435688	73716885	61289631	176	15386										
PRKRIR	5612	broad.mit.edu	37	chr11	76062405	76062405	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tttaagagctttgaggtgctGttctgagaatatatctttaa	9	4	2	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:76062405G>T	uc001oxh.1	-	5	1789	c.1789C>A	c.(1789-1791)CAG>AAG	p.Q597K	PRKRIR_uc010rrz.1_Missense_Mutation_p.Q422K	NM_004705	NP_004696	O43422	P52K_HUMAN	protein-kinase, interferon-inducible double	597					negative regulation of cell proliferation|response to stress|signal transduction		DNA binding|metal ion binding|protein dimerization activity			ovary(2)|pancreas(1)	3						TTGAGGTGCTGTTCTGAGAAT	0.413													80	210	---	---	---	---	PASS	T	76062405	T	T	76062405	3	4	39	1	0	0	0	0	1	0	0	0	12526	1386	48	3	500	3	PRKRIR	11	76062405	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	2345520	76062405	58944111	177	15387										
ME3	10873	broad.mit.edu	37	chr11	86157526	86157526	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tccactggcaaaaatccctcGgccctggaggcaggaagaaa	11	12	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:86157526G>C	uc001pbz.2	-	12	1638	c.1384C>G	c.(1384-1386)CGA>GGA	p.R462G	ME3_uc001pca.2_Missense_Mutation_p.R462G|ME3_uc009yvk.2_Missense_Mutation_p.R462G	NM_001014811	NP_001014811	Q16798	MAON_HUMAN	mitochondrial malic enzyme 3 precursor	462					aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)	AAAATCCCTCGGCCCTGGAGG	0.473													10	69	---	---	---	---	PASS	C	86157526	C	C	86157526	3	2	39	1	0	0	0	0	1	0	0	0	9419	1124	39	4	442	4	ME3	11	86157526	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	10095121	86157526	48848990	178	15388										
TECTA	7007	broad.mit.edu	37	chr11	120983873	120983873	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aactggaccacggggacggcGagtggcggcgaccccctgac	16	14	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:120983873G>T	uc010rzo.1	+	4	579	c.579G>T	c.(577-579)GCG>GCT	p.A193A		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	193	NIDO.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CGGGGACGGCGAGTGGCGGCG	0.572											OREG0021430	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	86	---	---	---	---	PASS	T	120983873	T	T	120983873	2	4	39	1	0	0	0	0	0	0	0	1	15744	1045	37	2		2	TECTA	11	120983873	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	34826347	120983873	14022643	179	15389										
OR10S1	219873	broad.mit.edu	37	chr11	123847930	123847930	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccaggtgattccagccatttCtgcacacatccttctgttca	6	14	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:123847930C>A	uc001pzm.1	-	1	469	c.469G>T	c.(469-471)GAA>TAA	p.E157*		NM_001004474	NP_001004474	Q8NGN2	O10S1_HUMAN	olfactory receptor, family 10, subfamily S,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CCAGCCATTTCTGCACACATC	0.562													43	101	---	---	---	---	PASS	A	123847930	A	A	123847930	4	1	39	1	0	0	0	0	0	1	0	0	10918	922	32	2	530	2	OR10S1	11	123847930	Nonsense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	2864057	123847930	11158586	180	15390										
ADAMTS8	11095	broad.mit.edu	37	chr11	130297558	130297558	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acaaaccgcttggtcctactCgtggcccccaggggcggtgg	14	14	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr11:130297558C>T	uc001qgg.3	-	1	982	c.624G>A	c.(622-624)ACG>ACA	p.T208T		NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	208					negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		TGGTCCTACTCGTGGCCCCCA	0.662													6	16	---	---	---	---	PASS	T	130297558	T	T	130297558	2	4	39	1	0	0	0	0	0	0	0	1	272	871	31	2		2	ADAMTS8	11	130297558	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	6449628	130297558	4708958	181	15391										
DCP1B	196513	broad.mit.edu	37	chr12	2061719	2061719	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gttagaggcatgcagctgctGctcctgctgtacaatctgaa	11	10	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:2061719G>T	uc001qjx.1	-	7	1467	c.1387C>A	c.(1387-1389)CAG>AAG	p.Q463K	DCP1B_uc010sdy.1_Missense_Mutation_p.Q361K	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	463					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			TGCAGCTGCTGCTCCTGCTGT	0.537													5	252	---	---	---	---	PASS	T	2061719	T	T	2061719	3	4	39	1	0	0	0	0	1	0	0	0	4299	1328	46	3	478	3	DCP1B	12	2061719	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08		2061719	131790176	182	15392										
NCAPD2	9918	broad.mit.edu	37	chr12	6637954	6637954	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aggtcagcgagatggcggtgCtgctcatcgaccccgagcct	14	13	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:6637954C>T	uc001qoo.2	+	26	3455	c.3409C>T	c.(3409-3411)CTG>TTG	p.L1137L	NCAPD2_uc010sfd.1_Silent_p.L1092L	NM_014865	NP_055680	Q15021	CND1_HUMAN	non-SMC condensin I complex, subunit D2	1137					cell division|mitotic chromosome condensation	condensin core heterodimer|cytoplasm	histone binding			ovary(2)|lung(1)|breast(1)|kidney(1)	5						GATGGCGGTGCTGCTCATCGA	0.602													50	96	---	---	---	---	PASS	T	6637954	T	T	6637954	2	4	39	1	0	0	0	0	0	0	0	1	10205	796	28	3		3	NCAPD2	12	6637954	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	4576235	6637954	127213941	183	15393										
KLRF1	51348	broad.mit.edu	37	chr12	9984949	9984949	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cactggtataaaatcttactGggaatatctggaaccgtgaa	9	7	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:9984949G>T	uc010sgw.1	+	2	187	c.123G>T	c.(121-123)CTG>CTT	p.L41L	KLRF1_uc009zgw.2_Silent_p.L41L|KLRF1_uc009zgx.2_RNA|KLRF1_uc001qwm.2_RNA|KLRF1_uc009zgy.2_RNA|KLRF1_uc009zgz.2_Silent_p.L41L|KLRF1_uc009zha.2_RNA	NM_016523	NP_057607	Q9NZS2	KLRF1_HUMAN	killer cell lectin-like receptor subfamily F,	41	Helical; Signal-anchor for type II membrane protein; (Potential).				cell surface receptor linked signaling pathway	integral to plasma membrane	MHC class I receptor activity|sugar binding			large_intestine(1)	1						AAATCTTACTGGGAATATCTG	0.328													57	97	---	---	---	---	PASS	T	9984949	T	T	9984949	2	4	39	1	0	0	0	0	0	0	0	1	8420	1335	47	3		3	KLRF1	12	9984949	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	3346995	9984949	123866946	184	15394										
GRIN2B	2904	broad.mit.edu	37	chr12	13769390	13769390	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cattgagaggatgccatactCagtgactatgcgtttttggc	11	8	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:13769390C>T	uc001rbt.2	-	5	1506	c.1327G>A	c.(1327-1329)GAG>AAG	p.E443K		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	443	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ATGCCATACTCAGTGACTATG	0.527													34	96	---	---	---	---	PASS	T	13769390	T	T	13769390	3	4	39	1	0	0	0	0	1	0	0	0	6780	840	29	2	3163	2	GRIN2B	12	13769390	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	3784441	13769390	120082505	185	15395										
ITPR2	3709	broad.mit.edu	37	chr12	26775339	26775339	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gaactggatttttttcttttCtataaaaccaaaaacatttc	3	7	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:26775339C>T	uc001rhg.2	-	25	3540	c.3123_splice	c.e25-1	p.R1041_splice		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2						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)					TTTTTCTTTTCTATAAAACCA	0.358													17	38	---	---	---	---	PASS	T	26775339	T	T	26775339	5	4	39	1	0	0	0	0	0	0	1	0	7921	927	32	2	5115	2	ITPR2	12	26775339	Splice_Site	SNP	C	TCGA-22-4604-01A-01D-1267-08	13005949	26775339	107076556	186	15396										
PRPH	5630	broad.mit.edu	37	chr12	49690694	49690694	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gctgcgagacctgcaggtgaGtgtggagagccagcaggtgc	18	9	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:49690694G>C	uc001rtu.2	+	4	800	c.725G>C	c.(724-726)AGT>ACT	p.S242T		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	242	Linker 2.|Rod.						structural molecule activity				0						CTGCAGGTGAGTGTGGAGAGC	0.647											OREG0021790	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	47	---	---	---	---	PASS	C	49690694	C	C	49690694	3	2	39	1	0	0	0	0	1	0	0	0	12576	1029	36	4	739	4	PRPH	12	49690694	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	22915355	49690694	84161201	187	15397										
KRT84	3890	broad.mit.edu	37	chr12	52775270	52775270	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gttgtccatcttcacaatgaCcgacgtctctgagatgtgcg	10	11	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:52775270C>G	uc001sah.1	-	5	1000	c.952G>C	c.(952-954)GTC>CTC	p.V318L		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	318	Rod.|Linker 12.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		TTCACAATGACCGACGTCTCT	0.542													186	540	---	---	---	---	PASS	G	52775270	G	G	52775270	3	3	39	1	0	0	0	0	1	0	0	0	8498	507	18	4	870	4	KRT84	12	52775270	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	3084576	52775270	81076625	188	15398										
WIF1	11197	broad.mit.edu	37	chr12	65456338	65456338	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aacaggtccctccattaaagCaggtggttgagcagtttgct	11	9	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:65456338C>G	uc001ssk.2	-	7	894	c.749G>C	c.(748-750)TGC>TCC	p.C250S		NM_007191	NP_009122	Q9Y5W5	WIF1_HUMAN	WNT inhibitory factor 1 precursor	250	EGF-like 3.				multicellular organismal development|Wnt receptor signaling pathway	extracellular region	protein tyrosine kinase activity			ovary(2)|lung(1)|skin(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0231)		TCCATTAAAGCAGGTGGTTGA	0.423			T	HMGA2	pleomorphic salivary gland adenoma								7	18	---	---	---	---	PASS	G	65456338	G	G	65456338	3	3	39	1	0	0	0	0	1	0	0	0	17363	710	25	4	406	4	WIF1	12	65456338	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	12681068	65456338	68395557	189	15399										
NAV3	89795	broad.mit.edu	37	chr12	78598727	78598727	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acttttagatgtatgggaaaCgcacaccatgggaagatcct	10	8	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:78598727C>T	uc001syp.2	+	39	7020	c.6847C>T	c.(6847-6849)CGC>TGC	p.R2283C	NAV3_uc001syo.2_Missense_Mutation_p.R2261C|NAV3_uc010sub.1_Missense_Mutation_p.R1740C|NAV3_uc009zsf.2_Missense_Mutation_p.R1092C	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2283						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GTATGGGAAACGCACACCATG	0.448										HNSCC(70;0.22)			33	78	---	---	---	---	PASS	T	78598727	T	T	78598727	3	4	39	1	0	0	0	0	1	0	0	0	10185	536	19	1	6931	1	NAV3	12	78598727	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	13142389	78598727	55253168	190	15400										
ACSS3	79611	broad.mit.edu	37	chr12	81647378	81647378	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atgcagtgtttgtcaaacagCtacccaaaaccagatctggc	8	11	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:81647378C>T	uc001szl.1	+	15	2015	c.1924C>T	c.(1924-1926)CTA>TTA	p.L642L	ACSS3_uc001szm.1_Silent_p.L641L|ACSS3_uc001szn.1_Silent_p.L324L	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	642						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TGTCAAACAGCTACCCAAAAC	0.423													55	137	---	---	---	---	PASS	T	81647378	T	T	81647378	2	4	39	1	0	0	0	0	0	0	0	1	190	796	28	3		3	ACSS3	12	81647378	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	3048651	81647378	52204517	191	15401										
ALDH1L2	160428	broad.mit.edu	37	chr12	105464489	105464489	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ttagctctgcacccacggatCtgtaggcttctgccacttct	8	14	4	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:105464489C>A	uc001tlc.2	-	3	414	c.287G>T	c.(286-288)AGA>ATA	p.R96I	ALDH1L2_uc009zup.2_RNA	NM_001034173	NP_001029345	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	96	GART.				10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1						ACCCACGGATCTGTAGGCTTC	0.483													31	232	---	---	---	---	PASS	A	105464489	A	A	105464489	3	1	39	1	0	0	0	0	1	0	0	0	495	913	32	2	2568	2	ALDH1L2	12	105464489	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	23817111	105464489	28387406	192	15402										
PTPN11	5781	broad.mit.edu	37	chr12	112915507	112915507	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gatcccaatgagcctgtttcAgattacatcaatgcaaatat	6	9	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:112915507A>G	uc001ttx.2	+	8	1286	c.906A>G	c.(904-906)TCA>TCG	p.S302S	PTPN11_uc001ttw.1_Silent_p.S302S	NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	302	Tyrosine-protein phosphatase.				axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding			haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						AGCCTGTTTCAGATTACATCA	0.398			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				4	340	---	---	---	---	PASS	G	112915507	G	G	112915507	2	3	39	1	0	0	0	0	0	0	0	1	12780	175	7	5		5	PTPN11	12	112915507	Silent	SNP	A	TCGA-22-4604-01A-01D-1267-08	7451018	112915507	20936388	193	15403										
TPCN1	53373	broad.mit.edu	37	chr12	113710465	113710465	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtttccacccacttctaggtTtctacttgttctcccctaac	4	15	3	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:113710465T>G	uc001tuw.2	+	8	1048	c.751T>G	c.(751-753)TTC>GTC	p.F251V	TPCN1_uc001tux.2_Missense_Mutation_p.F323V|TPCN1_uc010syt.1_Missense_Mutation_p.F183V	NM_017901	NP_060371	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1 isoform 2	251	Helical; Name=S5 of repeat I; (Potential).					endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated ion channel activity			skin(2)|ovary(1)	3						ACTTCTAGGTTTCTACTTGTT	0.468													168	702	---	---	---	---	PASS	G	113710465	G	G	113710465	3	3	39	1	0	0	0	0	1	0	0	0	16392	1841	64	5	997	5	TPCN1	12	113710465	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	794958	113710465	20141430	194	15404										
PITPNM2	57605	broad.mit.edu	37	chr12	123481956	123481956	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggcccagggcgctggggtagTgcacgcgcatgacggtgtcg	19	11	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:123481956T>C	uc001uej.1	-	10	1527	c.1388A>G	c.(1387-1389)CAC>CGC	p.H463R	PITPNM2_uc001uek.1_Missense_Mutation_p.H463R	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	463					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)		GCTGGGGTAGTGCACGCGCAT	0.672													51	259	---	---	---	---	PASS	C	123481956	C	C	123481956	3	2	39	1	0	0	0	0	1	0	0	0	11951	1696	59	5	2725	5	PITPNM2	12	123481956	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	9771491	123481956	10369939	195	15405										
ZNF10	7556	broad.mit.edu	37	chr12	133733022	133733022	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acatctcattctgcatcagaGaacccatgtgagagtgaggc	10	10	3	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr12:133733022G>A	uc009zzb.2	+	5	1637	c.1190G>A	c.(1189-1191)AGA>AAA	p.R397K	ZNF268_uc010tbv.1_Intron|ZNF10_uc001ulq.2_Missense_Mutation_p.R397K	NM_015394	NP_056209	P21506	ZNF10_HUMAN	zinc finger protein 10	397	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;1.28e-06)|all_epithelial(31;0.0051)|Lung NSC(355;0.00948)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		CTGCATCAGAGAACCCATGTG	0.438													192	292	---	---	---	---	PASS	A	133733022	A	A	133733022	3	1	39	1	0	0	0	0	1	0	0	0	17709	942	33	2	1204	2	ZNF10	12	133733022	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	10251066	133733022	118873	196	15406										
C1QTNF9B	387911	broad.mit.edu	37	chr13	24466031	24466031	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccccttggcccctcaggaccAgtgggacccacgtcaccctt	9	19	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr13:24466031A>G	uc010tcw.1	-	3	399	c.399T>C	c.(397-399)ACT>ACC	p.T133T	MIPEP_uc001uox.3_5'Flank|PCOTH_uc001uoy.2_Silent_p.P95P|PCOTH_uc009zzx.2_Silent_p.P104P|C1QTNF9B_uc010tcv.1_Intron|C1QTNF9B_uc001uoz.1_Intron|C1QTNF9B_uc010tcx.1_Silent_p.T133T	NM_001007537	NP_001007538	B2RNN3	C1T9B_HUMAN	C1q and tumor necrosis factor related protein 9B	133	Collagen-like 2.					collagen					0						CCTCAGGACCAGTGGGACCCA	0.637													19	62	---	---	---	---	PASS	G	24466031	G	G	24466031	2	3	39	1	0	0	0	0	0	0	0	1	1971	175	7	5		5	C1QTNF9B	13	24466031	Silent	SNP	A	TCGA-22-4604-01A-01D-1267-08		24466031	90703847	197	15407										
GTF3A	2971	broad.mit.edu	37	chr13	28009633	28009633	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtggatatatccctcccaaaAggaaacaagggcaaggctta	10	9	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr13:28009633A>G	uc001ure.2	+	9	1191	c.997A>G	c.(997-999)AGG>GGG	p.R333G	GTF3A_uc001urf.2_Missense_Mutation_p.R151G|GTF3A_uc001urg.2_RNA	NM_002097	NP_002088	Q92664	TF3A_HUMAN	transcription factor IIIA	333					regulation of transcription, DNA-dependent|rRNA transcription|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding|protein binding|RNA binding|zinc ion binding				0		Lung SC(185;0.0156)	Colorectal(13;0.00042)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.11)|OV - Ovarian serous cystadenocarcinoma(117;0.158)		CCCTCCCAAAAGGAAACAAGG	0.438													24	24	---	---	---	---	PASS	G	28009633	G	G	28009633	3	3	39	1	0	0	0	0	1	0	0	0	6871	63	3	5	1031	5	GTF3A	13	28009633	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	3543602	28009633	87160245	198	15408										
PCDH17	27253	broad.mit.edu	37	chr13	58207462	58207462	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gaacgctccgctgggtacagTggtcatcgatctgaacgcca	12	12	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr13:58207462T>A	uc001vhq.1	+	1	1674	c.782T>A	c.(781-783)GTG>GAG	p.V261E	PCDH17_uc010aec.1_Missense_Mutation_p.V261E	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	261	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CTGGGTACAGTGGTCATCGAT	0.582													70	141	---	---	---	---	PASS	A	58207462	A	A	58207462	3	1	39	1	0	0	0	0	1	0	0	0	11512	1696	59	5	784	5	PCDH17	13	58207462	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	30197829	58207462	56962416	199	15409										
LTB4R2	56413	broad.mit.edu	37	chr14	24780888	24780888	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgaaagtggtggggcagggcCgcggcaatggagacccgggg	21	8	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:24780888C>T	uc001woq.1	+	1	2728	c.1111C>T	c.(1111-1113)CGC>TGC	p.R371C	CIDEB_uc001woo.2_5'Flank|CIDEB_uc001wop.2_5'Flank|LTB4R2_uc001wor.2_Missense_Mutation_p.R340C|LTB4R_uc001wos.2_5'UTR|LTB4R_uc010alp.2_5'Flank	NM_019839	NP_062813	Q9NPC1	LT4R2_HUMAN	leukotriene B4 receptor 2	371	Cytoplasmic (Potential).				chemotaxis|negative regulation of adenylate cyclase activity	integral to plasma membrane					0				GBM - Glioblastoma multiforme(265;0.018)		GGGGCAGGGCCGCGGCAATGG	0.657													166	113	---	---	---	---	PASS	T	24780888	T	T	24780888	3	4	39	1	0	0	0	0	1	0	0	0	9072	652	23	1	1020	1	LTB4R2	14	24780888	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08		24780888	82568652	200	15410										
C14orf166	51637	broad.mit.edu	37	chr14	52471216	52471216	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccaaagacagaccacagactGggaaaagttggaagatgaac	11	8	0	5			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:52471216G>A	uc010aod.2	+	8	847	c.717G>A	c.(715-717)CTG>CTA	p.L239L	C14orf166_uc001wzm.3_Silent_p.L105L|C14orf166_uc001wzn.3_Silent_p.L101L	NM_016039	NP_057123	Q9Y224	CN166_HUMAN	homeobox prox 1	239						microtubule organizing center|nucleus|perinuclear region of cytoplasm|tRNA-splicing ligase complex	identical protein binding				0	Breast(41;0.0639)|all_epithelial(31;0.101)					ACCACAGACTGGGAAAAGTTG	0.433													53	112	---	---	---	---	PASS	A	52471216	A	A	52471216	2	1	39	1	0	0	0	0	0	0	0	1	1756	1335	47	3		3	C14orf166	14	52471216	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	27690328	52471216	54878324	201	15411										
CGRRF1	10668	broad.mit.edu	37	chr14	54997721	54997721	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gatctcgctatccattggtaGcgctattgaccttagctgat	9	10	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:54997721G>T	uc001xay.2	+	4	614	c.523G>T	c.(523-525)GCG>TCG	p.A175S	CGRRF1_uc010tra.1_Missense_Mutation_p.A175S|CGRRF1_uc001xaz.2_RNA	NM_006568	NP_006559	Q99675	CGRF1_HUMAN	cell growth regulator with ring finger domain 1	175					cell cycle arrest|negative regulation of cell proliferation|response to stress		zinc ion binding			ovary(1)	1						TCCATTGGTAGCGCTATTGAC	0.343													28	43	---	---	---	---	PASS	T	54997721	T	T	54997721	3	4	39	1	0	0	0	0	1	0	0	0	3306	971	34	3	537	3	CGRRF1	14	54997721	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	2526505	54997721	52351819	202	15412										
RGS6	9628	broad.mit.edu	37	chr14	72943476	72943476	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tatggcgtgactgaagagtcCcaggcacagagcccggtgca	14	11	0	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:72943476C>T	uc001xna.3	+	11	1243	c.720C>T	c.(718-720)TCC>TCT	p.S240S	RGS6_uc010ttn.1_Silent_p.S240S|RGS6_uc001xmx.3_Silent_p.S240S|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Silent_p.S240S|RGS6_uc010ttp.1_Silent_p.S171S|RGS6_uc001xmz.1_Silent_p.S101S	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	240					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		CTGAAGAGTCCCAGGCACAGA	0.373													8	87	---	---	---	---	PASS	T	72943476	T	T	72943476	2	4	39	1	0	0	0	0	0	0	0	1	13309	610	22	3		3	RGS6	14	72943476	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	17945755	72943476	34406064	203	15413										
LTBP2	4053	broad.mit.edu	37	chr14	74972770	74972770	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cctccagccccccgtgggcgGcagtgcccctcctgggcatc	12	20	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:74972770G>A	uc001xqa.2	-	28	4545	c.4158C>T	c.(4156-4158)TGC>TGT	p.C1386C		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1386	EGF-like 16; calcium-binding (Potential).				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CCCGTGGGCGGCAGTGCCCCT	0.627													6	357	---	---	---	---	PASS	A	74972770	A	A	74972770	2	1	39	1	0	0	0	0	0	0	0	1	9074	1195	42	3		3	LTBP2	14	74972770	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	2029294	74972770	32376770	204	15414										
PROX2	283571	broad.mit.edu	37	chr14	75330330	75330330	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acacatgcctcggacaatggTctccactctggccctctttg	8	15	3	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:75330330T>C	uc001xqr.1	-	1	208	c.208A>G	c.(208-210)ACC>GCC	p.T70A	PROX2_uc001xqq.1_5'UTR	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2	70					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		CGGACAATGGTCTCCACTCTG	0.607													12	41	---	---	---	---	PASS	C	75330330	C	C	75330330	3	2	39	1	0	0	0	0	1	0	0	0	12561	1667	58	5	1586	5	PROX2	14	75330330	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	357560	75330330	32019210	205	15415										
ADCK1	57143	broad.mit.edu	37	chr14	78399617	78399617	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aggacccagatctctttcagCgaggccttcaacttatggca	9	12	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:78399617C>T	uc001xui.2	+	11	1554	c.1455C>T	c.(1453-1455)AGC>AGT	p.S485S	ADCK1_uc001xuj.2_Silent_p.S417S|ADCK1_uc001xul.2_Silent_p.S192S	NM_020421	NP_065154	Q86TW2	ADCK1_HUMAN	aarF domain containing kinase 1 isoform a	492						extracellular region	ATP binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)	3			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0376)		TCTCTTTCAGCGAGGCCTTCA	0.408													49	229	---	---	---	---	PASS	T	78399617	T	T	78399617	2	4	39	1	0	0	0	0	0	0	0	1	288	767	27	1		1	ADCK1	14	78399617	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	3069287	78399617	28949923	206	15416										
NRXN3	9369	broad.mit.edu	37	chr14	79933711	79933711	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cttggtccgcatcgacagtgCtccaggacttggtgacttcc	11	13	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:79933711C>G	uc001xun.2	+	13	2782	c.2291C>G	c.(2290-2292)GCT>GGT	p.A764G	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Missense_Mutation_p.A132G|NRXN3_uc010asw.2_Missense_Mutation_p.A132G|NRXN3_uc001xur.3_Missense_Mutation_p.A132G	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1137	Extracellular (Potential).|Laminin G-like 6.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		ATCGACAGTGCTCCAGGACTT	0.557													75	123	---	---	---	---	PASS	G	79933711	G	G	79933711	3	3	39	1	0	0	0	0	1	0	0	0	10667	797	28	4	2584	4	NRXN3	14	79933711	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	1534094	79933711	27415829	207	15417										
DIO2	1734	broad.mit.edu	37	chr14	80669493	80669493	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gttgaccactagtgggcgctCagggctggcaaagtcaagaa	14	9	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:80669493C>A	uc010tvq.1	-	3	763	c.361G>T	c.(361-363)GAG>TAG	p.E121*	DIO2_uc010tvp.1_Nonsense_Mutation_p.E157*|DIO2_uc001xut.2_RNA|DIO2_uc010asx.2_3'UTR|DIO2_uc010tvr.1_Nonsense_Mutation_p.E121*|DIO2_uc010asy.2_Nonsense_Mutation_p.E121*	NM_000793	NP_000784	Q92813	IOD2_HUMAN	deiodinase, iodothyronine, type II isoform a	121					hormone biosynthetic process|selenocysteine incorporation|thyroid hormone generation	integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|ubiquitin protein ligase binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0281)		AGTGGGCGCTCAGGGCTGGCA	0.562											OREG0022848	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	36	---	---	---	---	PASS	A	80669493	A	A	80669493	4	1	39	1	0	0	0	0	0	1	0	0	4525	835	29	2	464	2	DIO2	14	80669493	Nonsense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	735782	80669493	26680047	208	15418										
FLRT2	23768	broad.mit.edu	37	chr14	86089404	86089404	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gttcagaggccaccacccatGcctcctatctgaacaacggc	8	16	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:86089404G>A	uc001xvr.2	+	2	2313	c.1546G>A	c.(1546-1548)GCC>ACC	p.A516T	FLRT2_uc010atd.2_Missense_Mutation_p.A516T	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	516	Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		CACCACCCATGCCTCCTATCT	0.572													68	154	---	---	---	---	PASS	A	86089404	A	A	86089404	3	1	39	1	0	0	0	0	1	0	0	0	5939	1319	46	3	1548	3	FLRT2	14	86089404	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	5419911	86089404	21260136	209	15419										
KCNK10	54207	broad.mit.edu	37	chr14	88651981	88651981	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gcgtgctgctggatacagtcCgtcagcatggctgtgctgga	15	10	1	0	rs141080520	by1000genomes	TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:88651981C>T	uc001xwo.2	-	7	1972	c.1515G>A	c.(1513-1515)ACG>ACA	p.T505T	KCNK10_uc001xwm.2_Silent_p.T510T|KCNK10_uc001xwn.2_Silent_p.T510T	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	505	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						GGATACAGTCCGTCAGCATGG	0.507													54	275	---	---	---	---	PASS	T	88651981	T	T	88651981	2	4	39	1	0	0	0	0	0	0	0	1	8059	639	23	1		1	KCNK10	14	88651981	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	2562577	88651981	18697559	210	15420										
GPR68	8111	broad.mit.edu	37	chr14	91700654	91700654	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cagacgctgcgcaccagcagCaacacgtggtagggcaggaa	14	12	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:91700654C>T	uc001xzg.2	-	2	1082	c.741G>A	c.(739-741)TTG>TTA	p.L247L	GPR68_uc001xzh.2_Silent_p.L257L	NM_003485	NP_003476	Q15743	OGR1_HUMAN	G protein-coupled receptor 68	247	Helical; Name=6; (Potential).				inflammatory response	integral to plasma membrane	G-protein coupled receptor activity			kidney(1)	1		all_cancers(154;0.0555)		COAD - Colon adenocarcinoma(157;0.21)		GCACCAGCAGCAACACGTGGT	0.637													4	11	---	---	---	---	PASS	T	91700654	T	T	91700654	2	4	39	1	0	0	0	0	0	0	0	1	6707	709	25	3		3	GPR68	14	91700654	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	3048673	91700654	15648886	211	15421										
CATSPERB	79820	broad.mit.edu	37	chr14	92105440	92105440	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tcaatgcattatatactgacCtgtccaaaaagatttctaga	5	8	2	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:92105440C>T	uc001xzs.1	-	16	1727	c.1587G>A	c.(1585-1587)CAG>CAA	p.Q529Q	CATSPERB_uc010aub.1_Silent_p.Q51Q	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	529					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				ATATACTGACCTGTCCAAAAA	0.383													19	85	---	---	---	---	PASS	T	92105440	T	T	92105440	2	4	39	1	0	0	0	0	0	0	0	1	2691	695	24	3		3	CATSPERB	14	92105440	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	404786	92105440	15244100	212	15422										
TRIP11	9321	broad.mit.edu	37	chr14	92482168	92482168	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtactgacatttcatgttgaTggtcatcaatttcctgactt	7	8	3	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:92482168T>C	uc001xzy.2	-	6	1483	c.695A>G	c.(694-696)CAT>CGT	p.H232R	TRIP11_uc010auf.1_5'UTR	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	232	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		TTCATGTTGATGGTCATCAAT	0.303			T	PDGFRB	AML								11	65	---	---	---	---	PASS	C	92482168	C	C	92482168	3	2	39	1	0	0	0	0	1	0	0	0	16552	1464	51	5	5308	5	TRIP11	14	92482168	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	376728	92482168	14867372	213	15423										
SERPINA3	12	broad.mit.edu	37	chr14	95080939	95080939	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cggattagcctccgccaacgTggacttcgctttcagcctgt	10	14	1	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:95080939T>G	uc001ydp.2	+	2	240	c.161T>G	c.(160-162)GTG>GGG	p.V54G	SERPINA3_uc001ydo.3_Missense_Mutation_p.V79G|SERPINA3_uc010avf.1_RNA|SERPINA3_uc001ydr.2_RNA|SERPINA3_uc001ydq.2_Missense_Mutation_p.V54G|SERPINA3_uc001yds.2_Missense_Mutation_p.V54G|SERPINA3_uc010avg.2_Missense_Mutation_p.V54G	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3	54					acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		TCCGCCAACGTGGACTTCGCT	0.567													83	217	---	---	---	---	PASS	G	95080939	G	G	95080939	3	3	39	1	0	0	0	0	1	0	0	0	14090	1696	59	5	163	5	SERPINA3	14	95080939	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	2598771	95080939	12268601	214	15424										
PPP2R5C	5527	broad.mit.edu	37	chr14	102378761	102378761	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gaagctaaaaatgaaagaacGggaagaagcatgggttaaaa	12	3	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr14:102378761G>A	uc001yko.2	+	12	1417	c.1277G>A	c.(1276-1278)CGG>CAG	p.R426Q	PPP2R5C_uc010txr.1_Missense_Mutation_p.R457Q|PPP2R5C_uc001ykk.2_Missense_Mutation_p.R481Q|PPP2R5C_uc001ykn.2_Missense_Mutation_p.R426Q|PPP2R5C_uc001ykp.2_Missense_Mutation_p.R426Q|PPP2R5C_uc001ykq.2_3'UTR	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	426					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|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						ATGAAAGAACGGGAAGAAGCA	0.393													7	226	---	---	---	---	PASS	A	102378761	A	A	102378761	3	1	39	1	0	0	0	0	1	0	0	0	12394	1116	39	1	1692	1	PPP2R5C	14	102378761	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	7297822	102378761	4970779	215	15425										
C15orf2	23742	broad.mit.edu	37	chr15	24921807	24921807	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atgcaacagcgccccctgagCcagccgttggctgctccctg	11	17	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr15:24921807C>A	uc001ywo.2	+	1	1267	c.793C>A	c.(793-795)CCA>ACA	p.P265T		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	265					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GCCCCCTGAGCCAGCCGTTGG	0.637													15	110	---	---	---	---	PASS	A	24921807	A	A	24921807	3	1	39	1	0	0	0	0	1	0	0	0	1784	739	26	3	795	3	C15orf2	15	24921807	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08		24921807	77609585	216	15426										
C15orf41	84529	broad.mit.edu	37	chr15	36946308	36946308	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtcttgtctaggtacctgaaTggagtggtgaaaaatggagc	14	5	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr15:36946308T>C	uc001zje.3	+	4	472	c.222T>C	c.(220-222)AAT>AAC	p.N74N	C15orf41_uc001zjd.2_Silent_p.N74N|C15orf41_uc010bbb.1_5'UTR|C15orf41_uc001zjf.2_5'UTR|C15orf41_uc010uci.1_5'UTR	NM_001130010	NP_001123482	Q9Y2V0	CO041_HUMAN	hypothetical protein LOC84529 isoform 1	74							protein binding			pancreas(1)	1		all_epithelial(112;3.06e-10)|Lung NSC(122;6.48e-08)|all_lung(180;8.31e-07)|Melanoma(134;0.222)		all cancers(64;1.76e-19)|GBM - Glioblastoma multiforme(113;5.03e-07)|BRCA - Breast invasive adenocarcinoma(123;0.11)		GGTACCTGAATGGAGTGGTGA	0.453													4	24	---	---	---	---	PASS	C	36946308	C	C	36946308	2	2	39	1	0	0	0	0	0	0	0	1	1795	1461	51	5		5	C15orf41	15	36946308	Silent	SNP	T	TCGA-22-4604-01A-01D-1267-08	12024501	36946308	65585084	217	15427										
SLC28A2	9153	broad.mit.edu	37	chr15	45556870	45556870	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	taggtgtcctggaggacagtGttttcgggcctaggtcttca	14	8	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr15:45556870G>A	uc001zva.2	+	7	671	c.606G>A	c.(604-606)GTG>GTA	p.V202V		NM_004212	NP_004203	O43868	S28A2_HUMAN	solute carrier family 28 (sodium-coupled	202	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		GGAGGACAGTGTTTTCGGGCC	0.433													89	172	---	---	---	---	PASS	A	45556870	A	A	45556870	2	1	39	1	0	0	0	0	0	0	0	1	14532	1364	48	3		3	SLC28A2	15	45556870	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	8610562	45556870	56974522	218	15428										
COPS2	9318	broad.mit.edu	37	chr15	49425984	49425984	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	attcgtcattgctaaaatttCtggatcatttttgtacggct	7	7	3	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr15:49425984C>G	uc001zxf.2	-	9	998	c.919G>C	c.(919-921)GAA>CAA	p.E307Q	COPS2_uc001zxh.2_Missense_Mutation_p.E314Q|COPS2_uc010ufa.1_Missense_Mutation_p.E243Q	NM_004236	NP_004227	P61201	CSN2_HUMAN	COP9 constitutive photomorphogenic homolog	307	PCI.				cullin deneddylation|transcription from RNA polymerase II promoter	cytoplasm|signalosome	protein binding|signal transducer activity			lung(1)	1		all_lung(180;0.0428)		all cancers(107;1.34e-07)|GBM - Glioblastoma multiforme(94;3.02e-05)		GCTAAAATTTCTGGATCATTT	0.259													6	52	---	---	---	---	PASS	G	49425984	G	G	49425984	3	3	39	1	0	0	0	0	1	0	0	0	3733	922	32	2	432	2	COPS2	15	49425984	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	3869114	49425984	53105408	219	15429										
ATP8B4	79895	broad.mit.edu	37	chr15	50366359	50366359	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ttcattatattcacggtcatTggctttcactatccgttcca	5	11	4	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr15:50366359T>A	uc001zxu.2	-	3	194	c.52A>T	c.(52-54)AAT>TAT	p.N18Y	ATP8B4_uc010ber.2_5'UTR|ATP8B4_uc010ufd.1_5'UTR|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	18	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		TCACGGTCATTGGCTTTCACT	0.363													100	148	---	---	---	---	PASS	A	50366359	A	A	50366359	3	1	39	1	0	0	0	0	1	0	0	0	1197	1812	63	5	3630	5	ATP8B4	15	50366359	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	940375	50366359	52165033	220	15430										
MYO1E	4643	broad.mit.edu	37	chr15	59519708	59519708	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgggttcctcatcaccacccTagatttttccagaaggaagt	8	11	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr15:59519708T>C	uc002aga.2	-	7	964	c.592A>G	c.(592-594)AGG>GGG	p.R198G		NM_004998	NP_004989	Q12965	MYO1E_HUMAN	myosin IE	198	Myosin head-like.				actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)		ATCACCACCCTAGATTTTTCC	0.438													97	133	---	---	---	---	PASS	C	59519708	C	C	59519708	3	2	39	1	0	0	0	0	1	0	0	0	10072	1521	53	5	2822	5	MYO1E	15	59519708	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	9153349	59519708	43011684	221	15431										
CELF6	60677	broad.mit.edu	37	chr15	72582591	72582591	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	catccccacaaacagctttcGgtcctctggggacaaagcca	8	15	1	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr15:72582591G>A	uc002auh.2	-	4	710	c.400C>T	c.(400-402)CGA>TGA	p.R134*	uc002aug.2_Intron|CELF6_uc002auk.3_RNA|CELF6_uc010biv.1_RNA|CELF6_uc010biw.2_Nonsense_Mutation_p.R21*|CELF6_uc010ukl.1_Nonsense_Mutation_p.R19*|CELF6_uc010ukm.1_Nonsense_Mutation_p.R134*|CELF6_uc002aui.2_Nonsense_Mutation_p.R240*|CELF6_uc002auj.2_Nonsense_Mutation_p.R21*	NM_052840	NP_443072	Q96J87	CELF6_HUMAN	bruno-like 6, RNA binding protein	134	RRM 2.				mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	nucleotide binding|RNA binding	p.R134*(1)		large_intestine(1)|central_nervous_system(1)|skin(1)	3						AACAGCTTTCGGTCCTCTGGG	0.602													10	61	---	---	---	---	PASS	A	72582591	A	A	72582591	4	1	39	1	0	0	0	0	0	1	0	0	3220	1124	39	1	1081	1	CELF6	15	72582591	Nonsense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	13062883	72582591	29948801	222	15432										
TARSL2	123283	broad.mit.edu	37	chr15	102261359	102261359	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cagccacttggtaaggcgttGttttccagacttccccttgc	9	13	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr15:102261359G>A	uc002bxm.2	-	3	591	c.536C>T	c.(535-537)ACA>ATA	p.T179I	TARSL2_uc010usi.1_RNA	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2	179					threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GTAAGGCGTTGTTTTCCAGAC	0.413													299	409	---	---	---	---	PASS	A	102261359	A	A	102261359	3	1	39	1	0	0	0	0	1	0	0	0	15558	1377	48	3	1940	3	TARSL2	15	102261359	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	29678768	102261359	270033	223	15433										
PDZD9	255762	broad.mit.edu	37	chr16	21995838	21995838	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atccatgccagtctctggagAtggatattggtctccttgca	10	10	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr16:21995838A>G	uc002dka.1	-	5	676	c.359T>C	c.(358-360)ATC>ACC	p.I120T		NM_173806	NP_776167	Q8IXQ8	PDZD9_HUMAN	hypothetical protein LOC255762	182										pancreas(1)	1						GTCTCTGGAGATGGATATTGG	0.368													8	282	---	---	---	---	PASS	G	21995838	G	G	21995838	3	3	39	1	0	0	0	0	1	0	0	0	11706	333	12	5	253	5	PDZD9	16	21995838	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08		21995838	68358915	224	15434										
PALB2	79728	broad.mit.edu	37	chr16	23619309	23619309	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	actctctttggcacagggatGactcaggacaataaagagaa	10	8	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr16:23619309G>C	uc002dlx.1	-	12	3426	c.3226C>G	c.(3226-3228)CAT>GAT	p.H1076D		NM_024675	NP_078951	Q86YC2	PALB2_HUMAN	partner and localizer of BRCA2	1076	Interaction with RAD51 and BRCA2.|WD 5.				double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)		GCACAGGGATGACTCAGGACA	0.443			F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				20	111	---	---	---	---	PASS	C	23619309	C	C	23619309	3	2	39	1	0	0	0	0	1	0	0	0	11406	1290	45	2	342	2	PALB2	16	23619309	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	1623471	23619309	66735444	225	15435										
MAPK3	5595	broad.mit.edu	37	chr16	30128291	30128291	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctgtgatccgtttattggggTtaaaggttaacatccggtcc	11	8	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr16:30128291T>A	uc002dws.2	-	7	1041	c.941A>T	c.(940-942)AAC>ATC	p.N314I	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAPK3_uc002dwr.2_Missense_Mutation_p.N200I|MAPK3_uc002dwv.3_Missense_Mutation_p.N270I|MAPK3_uc002dwt.2_Missense_Mutation_p.N314I|MAPK3_uc002dwu.2_RNA|MAPK3_uc010bzp.2_RNA	NM_002746	NP_002737	P27361	MK03_HUMAN	mitogen-activated protein kinase 3 isoform 1	314	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle|cellular response to mechanical stimulus|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|interleukin-1-mediated signaling pathway|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|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|transcription initiation from RNA polymerase I promoter	cytosol|nucleoplasm	ATP binding|MAP kinase activity|phosphatase binding				0					Arsenic trioxide(DB01169)|Isoproterenol(DB01064)|Simvastatin(DB00641)|Sulindac(DB00605)	TTTATTGGGGTTAAAGGTTAA	0.582													102	537	---	---	---	---	PASS	A	30128291	A	A	30128291	3	1	39	1	0	0	0	0	1	0	0	0	9279	1725	60	5	263	5	MAPK3	16	30128291	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	6508982	30128291	60226462	226	15436										
ZNF668	79759	broad.mit.edu	37	chr16	31073463	31073463	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctctggtaggaactgagctgCgtgaagcccttgccgcaggc	14	12	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr16:31073463C>T	uc010caf.2	-	3	1143	c.786G>A	c.(784-786)ACG>ACA	p.T262T	ZNF668_uc002eao.2_Silent_p.T262T	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	262	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						AACTGAGCTGCGTGAAGCCCT	0.687													22	142	---	---	---	---	PASS	T	31073463	T	T	31073463	2	4	39	1	0	0	0	0	0	0	0	1	18072	755	27	1		1	ZNF668	16	31073463	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	945172	31073463	59281290	227	15437										
ZNF646	9726	broad.mit.edu	37	chr16	31092149	31092149	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggagtccttgccacgctggtGactgccagctcaatggacct	12	13	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr16:31092149G>A	uc002eap.2	+	2	4793	c.4504G>A	c.(4504-4506)GAC>AAC	p.D1502N		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	1502					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						CCACGCTGGTGACTGCCAGCT	0.572													6	148	---	---	---	---	PASS	A	31092149	A	A	31092149	3	1	39	1	0	0	0	0	1	0	0	0	18059	1290	45	2	4506	2	ZNF646	16	31092149	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	18686	31092149	59262604	228	15438										
VPS35	55737	broad.mit.edu	37	chr16	46712999	46712999	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgctgcattcgcacccagagCttgttcatttctgcaaagtt	8	11	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr16:46712999C>A	uc002eef.3	-	6	675	c.576G>T	c.(574-576)AAG>AAT	p.K192N	VPS35_uc002eed.2_Missense_Mutation_p.K13N|VPS35_uc002eee.2_Missense_Mutation_p.K153N	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	192					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				GCACCCAGAGCTTGTTCATTT	0.408													17	78	---	---	---	---	PASS	A	46712999	A	A	46712999	3	1	39	1	0	0	0	0	1	0	0	0	17200	796	28	3	1862	3	VPS35	16	46712999	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	15620850	46712999	43641754	229	15439										
ZNF423	23090	broad.mit.edu	37	chr16	49671045	49671045	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gctgcaggagggactcctggGagtcaaagtcctctttgcac	13	11	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr16:49671045G>A	uc002efs.2	-	5	2316	c.2018C>T	c.(2017-2019)TCC>TTC	p.S673F	ZNF423_uc010vgn.1_Missense_Mutation_p.S556F	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	673	C2H2-type 15.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GGACTCCTGGGAGTCAAAGTC	0.562													33	201	---	---	---	---	PASS	A	49671045	A	A	49671045	3	1	39	1	0	0	0	0	1	0	0	0	17895	1174	41	2	1856	2	ZNF423	16	49671045	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	2958046	49671045	40683708	230	15440										
CDH16	1014	broad.mit.edu	37	chr16	66947036	66947036	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tcccatcctgtagctcacctGgtggactgagctcagggatg	12	12	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr16:66947036G>A	uc002eql.2	-	9	1125	c.1052C>T	c.(1051-1053)CCA>CTA	p.P351L	CDH16_uc010cdy.2_Missense_Mutation_p.P351L|CDH16_uc002eqm.2_Missense_Mutation_p.P254L	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	351	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		TAGCTCACCTGGTGGACTGAG	0.577													29	737	---	---	---	---	PASS	A	66947036	A	A	66947036	3	1	39	1	0	0	0	0	1	0	0	0	3101	1348	47	3	1477	3	CDH16	16	66947036	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	17275991	66947036	23407717	231	15441										
TRADD	8717	broad.mit.edu	37	chr16	67188649	67188649	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cctccaccaggcgctgcagcGtggcgcggcggccctcggcc	15	19	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr16:67188649G>A	uc002eri.1	-	5	922	c.842C>T	c.(841-843)ACG>ATG	p.T281M	TRADD_uc002erh.1_Missense_Mutation_p.T221M	NM_003789	NP_003780	Q15628	TRADD_HUMAN	TNFRSF1A-associated via death domain	281	Interaction with KRT14 and KRT18.|Death.				activation of caspase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|tumor necrosis factor-mediated signaling pathway	cytoskeleton|cytosol|receptor complex	binding, bridging|death domain binding|identical protein binding|kinase binding|signal transducer activity			lung(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		GCGCTGCAGCGTGGCGCGGCG	0.697													5	39	---	---	---	---	PASS	A	67188649	A	A	67188649	3	1	39	1	0	0	0	0	1	0	0	0	16433	1145	40	1	100	1	TRADD	16	67188649	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	241613	67188649	23166104	232	15442										
FUK	197258	broad.mit.edu	37	chr16	70508827	70508827	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agcctgagctgtggctggcgGtggggcctcggcaggatgag	20	9	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr16:70508827G>T	uc002eyy.2	+	18	2348	c.2290G>T	c.(2290-2292)GTG>TTG	p.V764L	FUK_uc010cft.2_Missense_Mutation_p.V796L|FUK_uc002eyz.2_Missense_Mutation_p.V255L	NM_145059	NP_659496	Q8N0W3	FUK_HUMAN	fucokinase	764						cytoplasm	ATP binding|fucokinase activity			ovary(1)	1		Ovarian(137;0.0694)				GTGGCTGGCGGTGGGGCCTCG	0.701													9	7	---	---	---	---	PASS	T	70508827	T	T	70508827	3	4	39	1	0	0	0	0	1	0	0	0	6096	1261	44	3	2356	3	FUK	16	70508827	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	3320178	70508827	19845926	233	15443										
CNTNAP4	85445	broad.mit.edu	37	chr16	76528905	76528905	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aaaaatgtacttgtggattaGagggaaactgcattgattct	10	4	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr16:76528905G>C	uc002feu.1	+	16	2564	c.2179G>C	c.(2179-2181)GAG>CAG	p.E727Q	CNTNAP4_uc002fev.1_Missense_Mutation_p.E591Q|CNTNAP4_uc010chb.1_Missense_Mutation_p.E654Q|CNTNAP4_uc002fex.1_Missense_Mutation_p.E730Q|CNTNAP4_uc002few.2_Missense_Mutation_p.E702Q	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	727	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TTGTGGATTAGAGGGAAACTG	0.408													5	251	---	---	---	---	PASS	C	76528905	C	C	76528905	3	2	39	1	0	0	0	0	1	0	0	0	3649	943	33	2	2246	2	CNTNAP4	16	76528905	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	6020078	76528905	13825848	234	15444										
MBTPS1	8720	broad.mit.edu	37	chr16	84132744	84132744	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cttcaagtgttagcagccccGctttctgtttttcttttatc	6	11	3	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr16:84132744G>A	uc002fhi.2	-	3	837	c.335C>T	c.(334-336)GCG>GTG	p.A112V		NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	112					cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						TAGCAGCCCCGCTTTCTGTTT	0.423													24	372	---	---	---	---	PASS	A	84132744	A	A	84132744	3	1	39	1	0	0	0	0	1	0	0	0	9361	1087	38	1	2907	1	MBTPS1	16	84132744	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	7603839	84132744	6222009	235	15445										
TP53	7157	broad.mit.edu	37	chr17	7578263	7578263	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acgcaaatttccttccactcGgataagatgctgaggagggg	12	9	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr17:7578263G>A	uc002gim.2	-	6	780	c.586C>T	c.(586-588)CGA>TGA	p.R196*	TP53_uc002gig.1_Nonsense_Mutation_p.R196*|TP53_uc002gih.2_Nonsense_Mutation_p.R196*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R64*|TP53_uc010cng.1_Nonsense_Mutation_p.R64*|TP53_uc002gii.1_Nonsense_Mutation_p.R64*|TP53_uc010cnh.1_Nonsense_Mutation_p.R196*|TP53_uc010cni.1_Nonsense_Mutation_p.R196*|TP53_uc002gij.2_Nonsense_Mutation_p.R196*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.R103*|TP53_uc002gio.2_Nonsense_Mutation_p.R64*|TP53_uc010vug.1_Nonsense_Mutation_p.R157*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	196	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> S (in a sporadic cancer; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R196*(125)|p.R196P(12)|p.0?(7)|p.R196R(5)|p.R196fs*51(4)|p.A189_V197delAPPQHLIRV(4)|p.R196Q(3)|p.K164_P219del(1)|p.R196L(1)|p.I195fs*50(1)|p.P191fs*6(1)|p.I195_G199delIRVEG(1)|p.R64*(1)|p.I195fs*12(1)|p.R103*(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)		CCTTCCACTCGGATAAGATGC	0.552		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)			55	71	---	---	---	---	PASS	A	7578263	A	A	7578263	4	1	39	1	0	0	0	0	0	1	0	0	16378	1124	39	1	708	1	TP53	17	7578263	Nonsense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08		7578263	73616947	236	15446										
NCOR1	9611	broad.mit.edu	37	chr17	16068475	16068475	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tttgcctccgaatgctggatCctttagagaataaaaccaag	8	9	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr17:16068475C>A	uc002gpo.2	-	5	676	c.436G>T	c.(436-438)GAT>TAT	p.D146Y	NCOR1_uc002gpn.2_Missense_Mutation_p.D146Y|NCOR1_uc002gpp.1_Missense_Mutation_p.D37Y|NCOR1_uc002gpr.2_Missense_Mutation_p.D37Y|NCOR1_uc002gps.1_Missense_Mutation_p.D146Y|NCOR1_uc010coz.1_5'UTR|NCOR1_uc010cpb.1_Missense_Mutation_p.D146Y|NCOR1_uc010cpa.1_Missense_Mutation_p.D146Y|NCOR1_uc002gpu.2_Missense_Mutation_p.D146Y	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	146	Interaction with ZBTB33 and HEXIM1.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		AATGCTGGATCCTTTAGAGAA	0.393													45	266	---	---	---	---	PASS	A	16068475	A	A	16068475	3	1	39	1	0	0	0	0	1	0	0	0	10235	869	30	2	7054	2	NCOR1	17	16068475	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	8490212	16068475	65126735	237	15447										
ZNF624	57547	broad.mit.edu	37	chr17	16526936	16526936	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cttgttcctaaaggctttccCacaatcatcacatttgtagg	6	11	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr17:16526936C>A	uc010cpi.1	-	6	1347	c.1264G>T	c.(1264-1266)GGG>TGG	p.G422W		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	422	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		AAGGCTTTCCCACAATCATCA	0.388													63	96	---	---	---	---	PASS	A	16526936	A	A	16526936	3	1	39	1	0	0	0	0	1	0	0	0	18045	594	21	3	1337	3	ZNF624	17	16526936	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	458461	16526936	64668274	238	15448										
NF1	4763	broad.mit.edu	37	chr17	29661984	29661984	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ttcttgacaagctgataacaAtgaccatcaatgaaaaacag	6	8	2	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr17:29661984A>G	uc002hgg.2	+	40	6274	c.5941A>G	c.(5941-5943)ATG>GTG	p.M1981V	NF1_uc002hgh.2_Missense_Mutation_p.M1960V|NF1_uc010cso.2_Missense_Mutation_p.M169V|NF1_uc010wbt.1_5'Flank|NF1_uc010wbu.1_5'Flank	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	1981					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		GCTGATAACAATGACCATCAA	0.373			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			46	110	---	---	---	---	PASS	G	29661984	G	G	29661984	3	3	39	1	0	0	0	0	1	0	0	0	10356	101	4	5	6160	5	NF1	17	29661984	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	13135048	29661984	51533226	239	15449										
KRT13	3860	broad.mit.edu	37	chr17	39658985	39658985	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tctccaggccttggagcgtgCgcctgagctccgtgatctct	12	14	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr17:39658985C>T	uc002hwu.1	-	5	1040	c.977G>A	c.(976-978)CGC>CAC	p.R326H	KRT13_uc002hwv.1_Missense_Mutation_p.R326H|KRT13_uc002hww.2_Missense_Mutation_p.R219H|KRT13_uc010wfr.1_Missense_Mutation_p.R219H|KRT13_uc010cxo.2_Missense_Mutation_p.R326H|KRT13_uc002hwx.1_Missense_Mutation_p.R314H	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	326	Rod.|Coil 2.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				TTGGAGCGTGCGCCTGAGCTC	0.577													7	850	---	---	---	---	PASS	T	39658985	T	T	39658985	3	4	39	1	0	0	0	0	1	0	0	0	8450	768	27	1	415	1	KRT13	17	39658985	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	9997001	39658985	41536225	240	15450										
HOXB8	3218	broad.mit.edu	37	chr17	46690838	46690838	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccagggtctggtagcggctgTaggtctgtcggcctcgcctg	16	12	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr17:46690838T>C	uc002inw.2	-	2	693	c.458A>G	c.(457-459)TAC>TGC	p.Y153C	HOXB7_uc002inv.2_5'Flank	NM_024016	NP_076921	P17481	HXB8_HUMAN	homeobox B8	153	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GTAGCGGCTGTAGGTCTGTCG	0.532													60	118	---	---	---	---	PASS	C	46690838	C	C	46690838	3	2	39	1	0	0	0	0	1	0	0	0	7307	1638	57	5	277	5	HOXB8	17	46690838	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	7031853	46690838	34504372	241	15451										
GNA13	10672	broad.mit.edu	37	chr17	63010730	63010730	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctgtaaggcgattggtcagtCgatcttccataagcacctgg	11	10	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr17:63010730C>T	uc002jfc.2	-	4	988	c.779G>A	c.(778-780)CGA>CAA	p.R260Q	GNA13_uc010wqh.1_Missense_Mutation_p.R165Q	NM_006572	NP_006563	Q14344	GNA13_HUMAN	guanine nucleotide binding protein (G protein),	260					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase D activity|cellular component movement|platelet activation|Rho protein signal transduction	brush border membrane|heterotrimeric G-protein complex|melanosome	D5 dopamine receptor binding|G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|signal transducer activity|type 1 angiotensin receptor binding				0						ATTGGTCAGTCGATCTTCCAT	0.388													16	248	---	---	---	---	PASS	T	63010730	T	T	63010730	3	4	39	1	0	0	0	0	1	0	0	0	6501	884	31	2	358	2	GNA13	17	63010730	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	16319892	63010730	18184480	242	15452										
ABCA10	10349	broad.mit.edu	37	chr17	67145042	67145042	+	Missense_Mutation	SNP	G	T	T													0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atcaacatttcccagctcctGctctttacagagttctaaga							TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr17:67145042G>T	uc010dfa.1	-	40	5437	c.4558C>A	c.(4558-4560)CAG>AAG	p.Q1520K	ABCA10_uc002jhz.2_RNA|ABCA10_uc010wqs.1_Missense_Mutation_p.Q512K|ABCA10_uc010wqt.1_RNA	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	1520					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					CCCAGCTCCTGCTCTTTACAG	0.363													51	120	---	---	---	---	PASS	T	67145042	T	T	67145042	3	4	39	1	0	0	0	0	1	0	0	0	29	1328	46	3	77	3	ABCA10	17	67145042	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	4134312	67145042	14050168	243	15453	385	2								
ABCA10	10349	broad.mit.edu	37	chr17	67145043	67145043	+	Missense_Mutation	SNP	C	A	A													0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tcaacatttcccagctcctgCtctttacagagttctaagaa							TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr17:67145043C>A	uc010dfa.1	-	40	5436	c.4557G>T	c.(4555-4557)GAG>GAT	p.E1519D	ABCA10_uc002jhz.2_RNA|ABCA10_uc010wqs.1_Missense_Mutation_p.E511D|ABCA10_uc010wqt.1_RNA	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	1519					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					CCAGCTCCTGCTCTTTACAGA	0.368													50	120	---	---	---	---	PASS	A	67145043	A	A	67145043	3	1	39	1	0	0	0	0	1	0	0	0	29	796	28	3	78	3	ABCA10	17	67145043	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	1	67145043	14050167	244	15454	385	2								
RPTOR	57521	broad.mit.edu	37	chr17	78796099	78796099	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cgcgtggaacgtgctcccccGgggtgaggcgcgggccgggc	20	14	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr17:78796099G>A	uc002jyt.1	+	8	1794	c.989G>A	c.(988-990)CGG>CAG	p.R330Q	RPTOR_uc002jys.2_Missense_Mutation_p.R330Q|RPTOR_uc010wuf.1_Missense_Mutation_p.R145Q|RPTOR_uc010wug.1_Missense_Mutation_p.R330Q	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	330					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						GTGCTCCCCCGGGGTGAGGCG	0.647													178	312	---	---	---	---	PASS	A	78796099	A	A	78796099	3	1	39	1	0	0	0	0	1	0	0	0	13665	1116	39	1	1019	1	RPTOR	17	78796099	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	11651056	78796099	2399111	245	15455										
TBCD	6904	broad.mit.edu	37	chr17	80828207	80828207	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	acgtgtgctgggccttcgcgCgtgcctatgagcctcaggag	15	12	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr17:80828207C>T	uc002kfz.2	+	14	1556	c.1426C>T	c.(1426-1428)CGT>TGT	p.R476C	TBCD_uc002kfx.1_Missense_Mutation_p.R459C|TBCD_uc002kfy.1_Missense_Mutation_p.R476C	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	476					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			GGCCTTCGCGCGTGCCTATGA	0.652													39	73	---	---	---	---	PASS	T	80828207	T	T	80828207	3	4	39	1	0	0	0	0	1	0	0	0	15630	768	27	1	1480	1	TBCD	17	80828207	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	2032108	80828207	367003	246	15456										
TXNL1	9352	broad.mit.edu	37	chr18	54291628	54291628	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctccttgatattgatcaattCtcactttgtttcgaaaaaac	4	9	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr18:54291628C>G	uc002lgg.2	-	3	509	c.260G>C	c.(259-261)AGA>ACA	p.R87T	TXNL1_uc010xdz.1_RNA|TXNL1_uc002lgh.2_RNA|TXNL1_uc002lgi.2_Missense_Mutation_p.R87T|TXNL1_uc002lgj.1_Missense_Mutation_p.R87T	NM_004786	NP_004777	O43396	TXNL1_HUMAN	thioredoxin-like 1	87	Thioredoxin.				cell redox homeostasis|electron transport chain|glycerol ether metabolic process|transport	cytoplasm	electron carrier activity|protein disulfide oxidoreductase activity				0				READ - Rectum adenocarcinoma(59;0.193)|Colorectal(16;0.211)		TTGATCAATTCTCACTTTGTT	0.378													4	626	---	---	---	---	PASS	G	54291628	G	G	54291628	3	3	39	1	0	0	0	0	1	0	0	0	16801	913	32	2	633	2	TXNL1	18	54291628	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08		54291628	23785620	247	15457										
TMIGD2	126259	broad.mit.edu	37	chr19	4294666	4294666	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gcttcccacccccagcagcaCgaagaggaatcctgggtagg	12	14	0	1	rs143069562	byFrequency	TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:4294666C>A	uc002lzx.1	-	4	506	c.460G>T	c.(460-462)GTG>TTG	p.V154L	TMIGD2_uc010dtv.1_Missense_Mutation_p.V154L	NM_144615	NP_653216	Q96BF3	TMIG2_HUMAN	transmembrane and immunoglobulin domain	154	Helical; (Potential).					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCAGCAGCACGAAGAGGAAT	0.642													26	618	---	---	---	---	PASS	A	4294666	A	A	4294666	3	1	39	1	0	0	0	0	1	0	0	0	16228	536	19	1	396	1	TMIGD2	19	4294666	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08		4294666	54834317	248	15458										
FSD1	79187	broad.mit.edu	37	chr19	4317224	4317224	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gaacttccgtgtgaaggcctGtaacaaggcagttgcaggag	14	8	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:4317224G>A	uc002lzy.2	+	8	899	c.746G>A	c.(745-747)TGT>TAT	p.C249Y	FSD1_uc002lzz.2_Missense_Mutation_p.C249Y|FSD1_uc002maa.2_Missense_Mutation_p.C62Y	NM_024333	NP_077309	Q9BTV5	FSD1_HUMAN	fibronectin type III and SPRY domain containing	249	Fibronectin type-III.				cell division|mitosis	cleavage furrow|microtubule|microtubule organizing center|nucleus				skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.034)|STAD - Stomach adenocarcinoma(1328;0.18)		GTGAAGGCCTGTAACAAGGCA	0.502													6	367	---	---	---	---	PASS	A	4317224	A	A	4317224	3	1	39	1	0	0	0	0	1	0	0	0	6070	1377	48	3	776	3	FSD1	19	4317224	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	22558	4317224	54811759	249	15459										
DPP9	91039	broad.mit.edu	37	chr19	4694679	4694679	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	caggctctgctcaccttcccCggggctgaagggctcactcc	11	17	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:4694679C>A	uc002mba.2	-	13	1768	c.1510G>T	c.(1510-1512)GGG>TGG	p.G504W	DPP9_uc002mbb.2_Missense_Mutation_p.G504W|DPP9_uc002mbc.2_3'UTR	NM_139159	NP_631898	Q86TI2	DPP9_HUMAN	dipeptidylpeptidase 9	475					proteolysis	cytosol|membrane	aminopeptidase activity|serine-type peptidase activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00884)		TCACCTTCCCCGGGGCTGAAG	0.552													11	37	---	---	---	---	PASS	A	4694679	A	A	4694679	3	1	39	1	0	0	0	0	1	0	0	0	4733	652	23	1	1208	1	DPP9	19	4694679	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	377455	4694679	54434304	250	15460										
FEM1A	55527	broad.mit.edu	37	chr19	4792611	4792611	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agcaggtcgcagggggagagGctcagcctgggctgccccaa	17	12	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:4792611G>T	uc002mbf.2	+	1	884	c.745G>T	c.(745-747)GCT>TCT	p.A249S	uc002mbg.1_RNA	NM_018708	NP_061178	Q9BSK4	FEM1A_HUMAN	fem-1 homolog a	249					regulation of ubiquitin-protein ligase activity	cytoplasm	binding|ubiquitin-protein ligase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		AGGGGGAGAGGCTCAGCCTGG	0.687													47	103	---	---	---	---	PASS	T	4792611	T	T	4792611	3	4	39	1	0	0	0	0	1	0	0	0	5809	1203	42	3	747	3	FEM1A	19	4792611	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	97932	4792611	54336372	251	15461										
FUT6	2528	broad.mit.edu	37	chr19	5831575	5831575	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tccagcaggccttgcagaaaGcgagtgcccagctgaaggag	14	11	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:5831575G>T	uc002mdf.1	-	4	1530	c.1004C>A	c.(1003-1005)GCT>GAT	p.A335D	FUT6_uc002mdg.1_Missense_Mutation_p.A335D|FUT6_uc002mdh.1_Missense_Mutation_p.A335D|FUT6_uc010dul.1_Missense_Mutation_p.A335D	NM_001040701	NP_001035791	P51993	FUT6_HUMAN	fucosyltransferase 6	335	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity|alpha(1,3)-fucosyltransferase activity				0						CTTGCAGAAAGCGAGTGCCCA	0.647													56	206	---	---	---	---	PASS	T	5831575	T	T	5831575	3	4	39	1	0	0	0	0	1	0	0	0	6108	971	34	3	79	3	FUT6	19	5831575	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	1038964	5831575	53297408	252	15462										
FUT3	2525	broad.mit.edu	37	chr19	5843815	5843815	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cgtctggtacctggattcctGctgcagtttccagcaggcct	11	13	1	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:5843815G>C	uc002mdk.2	-	2	1133	c.1036C>G	c.(1036-1038)CAG>GAG	p.Q346E	FUT3_uc002mdm.2_Missense_Mutation_p.Q346E|FUT3_uc002mdj.2_Missense_Mutation_p.Q346E|FUT3_uc002mdl.2_Missense_Mutation_p.Q346E	NM_001097641	NP_001091110	P21217	FUT3_HUMAN	fucosyltransferase 3	346	Lumenal (Potential).				protein glycosylation	Golgi cisterna membrane|integral to membrane|membrane fraction	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity				0						CTGGATTCCTGCTGCAGTTTC	0.647													16	246	---	---	---	---	PASS	C	5843815	C	C	5843815	3	2	39	1	0	0	0	0	1	0	0	0	6105	1328	46	4	53	4	FUT3	19	5843815	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	12240	5843815	53285168	253	15463										
INSR	3643	broad.mit.edu	37	chr19	7168106	7168106	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tttaagtaactcattttcacCtggaaaagttaaaacaaaag	5	6	2	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:7168106C>A	uc002mgd.1	-	7	1593	c.1484_splice	c.e7-1	p.C495_splice	INSR_uc002mge.1_Splice_Site_p.C495_splice|INSR_uc002mgf.2_Splice_Site_p.C495_splice	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor						activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TCATTTTCACCTGGAAAAGTT	0.383													22	68	---	---	---	---	PASS	A	7168106	A	A	7168106	5	1	39	1	0	0	0	0	0	0	1	0	7773	695	24	3	2729	3	INSR	19	7168106	Splice_Site	SNP	C	TCGA-22-4604-01A-01D-1267-08	1324291	7168106	51960877	254	15464										
RFX1	5989	broad.mit.edu	37	chr19	14104451	14104451	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cacgtactgcttctggccacCcggtggctgtgcctggggct	14	14	1	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:14104451C>T	uc002mxv.2	-	2	477	c.205G>A	c.(205-207)GGT>AGT	p.G69S	RFX1_uc010dzi.2_Missense_Mutation_p.G69S	NM_002918	NP_002909	P22670	RFX1_HUMAN	regulatory factor X1	69					immune response	nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			lung(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			TTCTGGCCACCCGGTggctgt	0.353													35	49	---	---	---	---	PASS	T	14104451	T	T	14104451	3	4	39	1	0	0	0	0	1	0	0	0	13262	623	22	3	2814	3	RFX1	19	14104451	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	6936345	14104451	45024532	255	15465										
UNC13A	23025	broad.mit.edu	37	chr19	17758177	17758177	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtcttggtcaccgcgaagatCtcctggatgagctcgaagat	12	10	3	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:17758177C>A	uc002nhd.2	-	17	2205	c.2205G>T	c.(2203-2205)GAG>GAT	p.E735D		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	647					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						CCGCGAAGATCTCCTGGATGA	0.602													37	67	---	---	---	---	PASS	A	17758177	A	A	17758177	3	1	39	1	0	0	0	0	1	0	0	0	16981	912	32	2	3278	2	UNC13A	19	17758177	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	3653726	17758177	41370806	256	15466										
ARRDC2	27106	broad.mit.edu	37	chr19	18121409	18121409	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gagtactcggaggtggtagcCgacactgaggaggcagcctt	16	9	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:18121409C>T	uc002nhv.2	+	7	1184	c.1041C>T	c.(1039-1041)GCC>GCT	p.A347A	ARRDC2_uc002nhu.2_Silent_p.A342A	NM_015683	NP_056498	Q8TBH0	ARRD2_HUMAN	arrestin domain containing 2 isoform 1	347										pancreas(1)	1						AGGTGGTAGCCGACACTGAGG	0.642													6	225	---	---	---	---	PASS	T	18121409	T	T	18121409	2	4	39	1	0	0	0	0	0	0	0	1	983	639	23	1		1	ARRDC2	19	18121409	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	363232	18121409	41007574	257	15467										
PIK3R2	5296	broad.mit.edu	37	chr19	18278092	18278092	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gccggacctcatgcagctgcGcaagatccgagaccagtacc	11	15	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:18278092G>T	uc002nia.1	+	13	2224	c.1712G>T	c.(1711-1713)CGC>CTC	p.R571L	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	571					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						ATGCAGCTGCGCAAGATCCGA	0.617													44	115	---	---	---	---	PASS	T	18278092	T	T	18278092	3	4	39	1	0	0	0	0	1	0	0	0	11919	1087	38	1	1758	1	PIK3R2	19	18278092	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	156683	18278092	40850891	258	15468										
GMIP	51291	broad.mit.edu	37	chr19	19749075	19749075	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggacccctgggagcgtgcccGcaggtcctcgctgcgttgca	15	15	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:19749075G>A	uc002nnd.2	-	9	799	c.682C>T	c.(682-684)CGG>TGG	p.R228W	GMIP_uc010xrb.1_Missense_Mutation_p.R228W|GMIP_uc010xrc.1_Missense_Mutation_p.R228W	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	228					negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						GAGCGTGCCCGCAGGTCCTCG	0.716													8	60	---	---	---	---	PASS	A	19749075	A	A	19749075	3	1	39	1	0	0	0	0	1	0	0	0	6491	1086	38	1	2282	1	GMIP	19	19749075	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	1470983	19749075	39379908	259	15469										
ZNF676	163223	broad.mit.edu	37	chr19	22363001	22363001	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gctttgccacattcttcacaTttgtagcgtttctctccagt	6	12	3	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:22363001T>C	uc002nqs.1	-	3	1836	c.1518A>G	c.(1516-1518)AAA>AAG	p.K506K		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	506	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				ATTCTTCACATTTGTAGCGTT	0.388													5	232	---	---	---	---	PASS	C	22363001	C	C	22363001	2	2	39	1	0	0	0	0	0	0	0	1	18080	1490	52	5		5	ZNF676	19	22363001	Silent	SNP	T	TCGA-22-4604-01A-01D-1267-08	2613926	22363001	36765982	260	15470										
ZNF676	163223	broad.mit.edu	37	chr19	22363757	22363757	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cctttgccacattcttcacaTttgtagggtttctctccagt	6	12	3	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:22363757T>C	uc002nqs.1	-	3	1080	c.762A>G	c.(760-762)AAA>AAG	p.K254K		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	254	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				ATTCTTCACATTTGTAGGGTT	0.383													12	275	---	---	---	---	PASS	C	22363757	C	C	22363757	2	2	39	1	0	0	0	0	0	0	0	1	18080	1490	52	5		5	ZNF676	19	22363757	Silent	SNP	T	TCGA-22-4604-01A-01D-1267-08	756	22363757	36765226	261	15471										
UBA2	10054	broad.mit.edu	37	chr19	34945384	34945384	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ttattcctgctattgctactActaatgcagtaattgctggg	8	8	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:34945384A>T	uc002nvk.2	+	12	1238	c.1168A>T	c.(1168-1170)ACT>TCT	p.T390S	UBA2_uc010xrx.1_Missense_Mutation_p.T263S|UBA2_uc002nvl.2_Missense_Mutation_p.T294S	NM_005499	NP_005490	Q9UBT2	SAE2_HUMAN	SUMO-1 activating enzyme subunit 2	390					protein sumoylation	nucleus	ATP binding|enzyme activator activity|ligase activity|metal ion binding|protein heterodimerization activity|SUMO activating enzyme activity			ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			TATTGCTACTACTAATGCAGT	0.343													14	45	---	---	---	---	PASS	T	34945384	T	T	34945384	3	4	39	1	0	0	0	0	1	0	0	0	16825	391	14	5	1214	5	UBA2	19	34945384	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	12581627	34945384	24183599	262	15472										
ZNF569	148266	broad.mit.edu	37	chr19	37904971	37904971	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tctgatgaggtccaaagtctGattgaagccttttccacaat	8	9	2	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:37904971G>T	uc002ogi.2	-	6	1147	c.589C>A	c.(589-591)CAG>AAG	p.Q197K	ZNF569_uc002ogh.2_Missense_Mutation_p.Q38K|ZNF569_uc002ogj.2_Missense_Mutation_p.Q221K	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	197	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCCAAAGTCTGATTGAAGCCT	0.373													7	173	---	---	---	---	PASS	T	37904971	T	T	37904971	3	4	39	1	0	0	0	0	1	0	0	0	17997	1299	45	2	1475	2	ZNF569	19	37904971	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	2959587	37904971	21224012	263	15473										
SNRPA	6626	broad.mit.edu	37	chr19	41268920	41268920	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gccttgcacctggccagatcCcaccaggggccatgcccccg	11	19	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:41268920C>T	uc002ooz.2	+	4	1076	c.541C>T	c.(541-543)CCA>TCA	p.P181S	SNRPA_uc002opa.2_Missense_Mutation_p.P131S	NM_004596	NP_004587	P09012	SNRPA_HUMAN	small nuclear ribonucleoprotein polypeptide A	181	Pro-rich.					nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding			skin(2)|ovary(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			TGGCCAGATCCCACCAGGGGC	0.642													9	106	---	---	---	---	PASS	T	41268920	T	T	41268920	3	4	39	1	0	0	0	0	1	0	0	0	14859	623	22	3	555	3	SNRPA	19	41268920	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	3363949	41268920	17860063	264	15474										
PSG5	5673	broad.mit.edu	37	chr19	43680143	43680143	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atgaggatcctgttttcaatGggtcgctttaccctgggact	11	9	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:43680143G>A	uc002ovu.2	-	3	719	c.588C>T	c.(586-588)CCC>CCT	p.P196P	PSG6_uc010xwk.1_Intron|PSG5_uc010eir.2_Intron|PSG5_uc002ovx.2_Silent_p.P196P|PSG5_uc002ovv.2_Silent_p.P289P|PSG5_uc002ovw.2_Intron	NM_002781	NP_002772	Q15238	PSG5_HUMAN	pregnancy specific beta-1-glycoprotein 5	196	Ig-like C2-type 1.				female pregnancy	extracellular region				skin(3)	3		Prostate(69;0.00899)				TGTTTTCAATGGGTCGCTTTA	0.498													144	283	---	---	---	---	PASS	A	43680143	A	A	43680143	2	1	39	1	0	0	0	0	0	0	0	1	12658	1335	47	3		3	PSG5	19	43680143	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	2411223	43680143	15448840	265	15475										
ZNF222	7673	broad.mit.edu	37	chr19	44537128	44537128	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgaggactgtgggaagcgctAcaagaggcgcttgaatctgg	16	7	1	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:44537128A>G	uc002oyc.2	+	4	1484	c.1301A>G	c.(1300-1302)TAC>TGC	p.Y434C	ZNF284_uc010ejd.2_Intron|ZNF222_uc002oye.2_Missense_Mutation_p.Y474C|ZNF222_uc002oyd.2_Missense_Mutation_p.Y380C	NM_013360	NP_037492	Q9UK12	ZN222_HUMAN	zinc finger protein 222 isoform 2	434					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Prostate(69;0.0435)				GGGAAGCGCTACAAGAGGCGC	0.303													54	106	---	---	---	---	PASS	G	44537128	G	G	44537128	3	3	39	1	0	0	0	0	1	0	0	0	17773	391	14	5	1454	5	ZNF222	19	44537128	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	856985	44537128	14591855	266	15476										
ZNF234	10780	broad.mit.edu	37	chr19	44661176	44661176	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aaaccttcgtatccatcaaaGggtccacacaggagagaaac	8	11	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:44661176G>A	uc002oym.2	+	6	1314	c.1007G>A	c.(1006-1008)AGG>AAG	p.R336K	ZNF234_uc002oyl.3_Missense_Mutation_p.R336K	NM_006630	NP_006621	Q14588	ZN234_HUMAN	zinc finger protein 234	336	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				ATCCATCAAAGGGTCCACACA	0.438													8	157	---	---	---	---	PASS	A	44661176	A	A	44661176	3	1	39	1	0	0	0	0	1	0	0	0	17784	1000	35	3	1021	3	ZNF234	19	44661176	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	124048	44661176	14467807	267	15477										
DMPK	1760	broad.mit.edu	37	chr19	46280647	46280647	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtcgaagttgcatgtgtcggTggcaccttcgaaatccggtg	14	9	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:46280647T>A	uc002pdd.1	-	7	1658	c.1114A>T	c.(1114-1116)ACC>TCC	p.T372S	DMPK_uc010xxs.1_Missense_Mutation_p.T273S|DMPK_uc002pde.1_Missense_Mutation_p.T372S|DMPK_uc002pdf.1_Missense_Mutation_p.T362S|DMPK_uc002pdg.1_Missense_Mutation_p.T362S|DMPK_uc002pdh.1_Missense_Mutation_p.T362S|DMPK_uc002pdi.1_Missense_Mutation_p.T388S|DMPK_uc010xxt.1_Missense_Mutation_p.T362S	NM_001081563	NP_001075032	Q09013	DMPK_HUMAN	myotonic dystrophy protein kinase isoform 1	372	AGC-kinase C-terminal.				regulation of heart contraction		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)	3		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00616)|GBM - Glioblastoma multiforme(486;0.0825)|Epithelial(262;0.24)		CATGTGTCGGTGGCACCTTCG	0.637													59	110	---	---	---	---	PASS	A	46280647	A	A	46280647	3	1	39	1	0	0	0	0	1	0	0	0	4584	1696	59	5	844	5	DMPK	19	46280647	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	1619471	46280647	12848336	268	15478										
TBC1D17	79735	broad.mit.edu	37	chr19	50385600	50385600	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cagcctgagggagccgcctcCgaccttcccccgccacccga	10	21	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:50385600C>T	uc002pqo.2	+	7	893	c.741C>T	c.(739-741)TCC>TCT	p.S247S	TBC1D17_uc010enn.1_RNA|TBC1D17_uc010ybg.1_Silent_p.S214S|TBC1D17_uc002pqp.2_5'UTR|TBC1D17_uc002pqq.1_RNA|TBC1D17_uc002pqr.2_5'UTR|TBC1D17_uc002pqs.2_RNA	NM_024682	NP_078958	Q9HA65	TBC17_HUMAN	TBC1 domain family, member 17	247						intracellular	Rab GTPase activator activity				0		all_lung(116;0.000338)|Lung NSC(112;0.000446)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.017)		GAGCCGCCTCCGACCTTCCCC	0.557													58	169	---	---	---	---	PASS	T	50385600	T	T	50385600	2	4	39	1	0	0	0	0	0	0	0	1	15603	639	23	1		1	TBC1D17	19	50385600	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	4104953	50385600	8743383	269	15479										
LRRC4B	94030	broad.mit.edu	37	chr19	51020877	51020877	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tggagccgctcttgaagagcAgaggttcgtggatggagttg	17	6	1	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:51020877A>G	uc002pss.2	-	3	2230	c.2093T>C	c.(2092-2094)CTG>CCG	p.L698P	ASPDH_uc002psr.3_5'Flank	NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	698	Cytoplasmic (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		CTTGAAGAGCAGAGGTTCGTG	0.592													13	60	---	---	---	---	PASS	G	51020877	G	G	51020877	3	3	39	1	0	0	0	0	1	0	0	0	9007	188	7	5	52	5	LRRC4B	19	51020877	Missense_Mutation	SNP	A	TCGA-22-4604-01A-01D-1267-08	635277	51020877	8108106	270	15480										
ZNF613	79898	broad.mit.edu	37	chr19	52447996	52447996	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aattcatacaggagagaagtCatatatatgcagtgattgtg	10	4	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:52447996C>G	uc002pxz.1	+	6	1283	c.860C>G	c.(859-861)TCA>TGA	p.S287*	ZNF613_uc002pya.1_Nonsense_Mutation_p.S251*	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	287					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		GGAGAGAAGTCATATATATGC	0.433													20	166	---	---	---	---	PASS	G	52447996	G	G	52447996	4	3	39	1	0	0	0	0	0	1	0	0	18035	838	29	2	874	2	ZNF613	19	52447996	Nonsense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	1427119	52447996	6680987	271	15481										
VN1R2	317701	broad.mit.edu	37	chr19	53762720	53762720	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgttttccaactattagcccTtttgttctcatgtgccgtga	7	10	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:53762720T>C	uc002qbi.2	+	1	1176	c.1092T>C	c.(1090-1092)CCT>CCC	p.P364P		NM_173856	NP_776255	Q8NFZ6	VN1R2_HUMAN	vomeronasal 1 receptor 2	364	Helical; Name=7; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0				GBM - Glioblastoma multiforme(134;0.00301)		CTATTAGCCCTTTTGTTCTCA	0.433													4	648	---	---	---	---	PASS	C	53762720	C	C	53762720	2	2	39	1	0	0	0	0	0	0	0	1	17176	1596	56	5		5	VN1R2	19	53762720	Silent	SNP	T	TCGA-22-4604-01A-01D-1267-08	1314724	53762720	5366263	272	15482										
VSTM1	284415	broad.mit.edu	37	chr19	54567035	54567035	+	Translation_Start_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aggaattctgcggtcatagcGtcccttctgccagaaccaag	10	12	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:54567035G>A	uc002qcw.3	-	1	173	c.-3C>T	c.(-5--1)GACGC>GATGC		VSTM1_uc010erb.2_RNA|VSTM1_uc002qcx.3_Translation_Start_Site	NM_198481	NP_940883	Q6UX27	VSTM1_HUMAN	V-set and transmembrane domain containing 1							integral to membrane					0	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.165)		CGGTCATAGCGTCCCTTCTGC	0.627													17	605	---	---	---	---	PASS	A	54567035	A	A	54567035	1	1	39	1	0	0	0	0	0	0	0	0	17225	1160	40	1		1	VSTM1	19	54567035	Translation_Start_Site	SNP	G	TCGA-22-4604-01A-01D-1267-08	804315	54567035	4561948	273	15483										
NLRP5	126206	broad.mit.edu	37	chr19	56544122	56544122	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tgtgtgccaagctgaggcatCccacctgcaagatacagacc	10	13	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:56544122C>A	uc002qmj.2	+	8	2422	c.2422C>A	c.(2422-2424)CCC>ACC	p.P808T	NLRP5_uc002qmi.2_Missense_Mutation_p.P789T	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	808						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)		GCTGAGGCATCCCACCTGCAA	0.617													73	276	---	---	---	---	PASS	A	56544122	A	A	56544122	3	1	39	1	0	0	0	0	1	0	0	0	10480	855	30	2	2452	2	NLRP5	19	56544122	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	1977087	56544122	2584861	274	15484										
PEG3	5178	broad.mit.edu	37	chr19	57328467	57328467	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cacatacatatggcattgccCcaaaatcaattggctgtgac	7	11	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr19:57328467C>G	uc002qnu.2	-	7	1694	c.1343G>C	c.(1342-1344)GGG>GCG	p.G448A	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.G419A|PEG3_uc002qnv.2_Missense_Mutation_p.G448A|PEG3_uc002qnw.2_Missense_Mutation_p.G324A|PEG3_uc002qnx.2_Missense_Mutation_p.G322A|PEG3_uc010etr.2_Missense_Mutation_p.G448A	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	448					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TGGCATTGCCCCAAAATCAAT	0.488													114	335	---	---	---	---	PASS	G	57328467	G	G	57328467	3	3	39	1	0	0	0	0	1	0	0	0	11720	623	22	4	3427	4	PEG3	19	57328467	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	784345	57328467	1800516	275	15485										
SEC23B	10483	broad.mit.edu	37	chr20	18506561	18506561	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggtgtggctttgtccattgcTgttggcttgctggaggtaat	15	6	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr20:18506561T>C	uc002wqz.1	+	7	1262	c.819T>C	c.(817-819)GCT>GCC	p.A273A	SEC23B_uc002wra.1_Silent_p.A273A|SEC23B_uc002wrb.1_Silent_p.A273A|SEC23B_uc010zsb.1_Silent_p.A255A|SEC23B_uc002wrc.1_Silent_p.A273A	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	273					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						TGTCCATTGCTGTTGGCTTGC	0.438													4	355	---	---	---	---	PASS	C	18506561	C	C	18506561	2	2	39	1	0	0	0	0	0	0	0	1	13992	1567	55	5		5	SEC23B	20	18506561	Silent	SNP	T	TCGA-22-4604-01A-01D-1267-08		18506561	44518959	276	15486										
GZF1	64412	broad.mit.edu	37	chr20	23349405	23349405	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	attttctcatgtaggtgaaaGaccttttatgtgtgaaacat	8	5	1	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr20:23349405G>C	uc010gdb.2	+	5	1640	c.1466G>C	c.(1465-1467)AGA>ACA	p.R489T	GZF1_uc002wsy.2_Missense_Mutation_p.R489T|GZF1_uc010zsq.1_Missense_Mutation_p.R13T|GZF1_uc010zsr.1_5'UTR|GZF1_uc002wsz.2_Missense_Mutation_p.R489T	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	489					transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					GTAGGTGAAAGACCTTTTATG	0.358													5	411	---	---	---	---	PASS	C	23349405	C	C	23349405	3	2	39	1	0	0	0	0	1	0	0	0	6914	942	33	2	1476	2	GZF1	20	23349405	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	4842844	23349405	39676115	277	15487										
CHD6	84181	broad.mit.edu	37	chr20	40065951	40065951	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	catctactttgtcctcagcaTtgtcttctttatctgtgttg	6	10	5	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr20:40065951T>A	uc002xka.1	-	27	4209	c.4031A>T	c.(4030-4032)AAT>ATT	p.N1344I	CHD6_uc002xkb.1_Missense_Mutation_p.N110I	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1344					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				GTCCTCAGCATTGTCTTCTTT	0.294													59	78	---	---	---	---	PASS	A	40065951	A	A	40065951	3	1	39	1	0	0	0	0	1	0	0	0	3329	1493	52	5	4160	5	CHD6	20	40065951	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	16716546	40065951	22959569	278	15488										
GNAS	2778	broad.mit.edu	37	chr20	57429324	57429324	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cccaatcgcgcttgacggccCgcccatcaaggtctccggag	11	17	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr20:57429324C>A	uc002xzw.2	+	1	1289	c.1004C>A	c.(1003-1005)CCG>CAG	p.P335Q	GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CTTGACGGCCCGCCCATCAAG	0.647			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			3	35	---	---	---	---	PASS	A	57429324	A	A	57429324	3	1	39	1	0	0	0	0	1	0	0	0	6510	652	23	1	1748	1	GNAS	20	57429324	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	17363373	57429324	5596196	279	15489										
LAMA5	3911	broad.mit.edu	37	chr20	60903446	60903446	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	tcgggcgggatggtgcgtggCgggcagatgcactggcccgt	20	10	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr20:60903446C>T	uc002ycq.2	-	35	4570	c.4503G>A	c.(4501-4503)CCG>CCA	p.P1501P		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	1501	Laminin EGF-like 13.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGGTGCGTGGCGGGCAGATGC	0.682													6	9	---	---	---	---	PASS	T	60903446	T	T	60903446	2	4	39	1	0	0	0	0	0	0	0	1	8609	755	27	1		1	LAMA5	20	60903446	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	3474122	60903446	2122074	280	15490										
BAGE2	85319	broad.mit.edu	37	chr21	11097628	11097628	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cctggcttggagcagctgggCagacaatgccagaaaaacct	12	11	0	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr21:11097628C>A	uc002yit.1	-	2	242	c.34G>T	c.(34-36)GCC>TCC	p.A12S	BAGE_uc002yix.2_RNA	NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		agcagctgggcagacaatgcc	0.264													10	186	---	---	---	---	PASS	A	11097628	A	A	11097628	3	1	39	1	0	0	0	0	1	0	0	0	1292	710	25	3	307	3	BAGE2	21	11097628	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08		11097628	37032267	281	15491										
MOV10L1	54456	broad.mit.edu	37	chr22	50552829	50552829	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggaataaaggagacattcctCaaaacttagtcagctgtaaa	8	7	2	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr22:50552829C>T	uc003bjj.2	+	7	987	c.904C>T	c.(904-906)CAA>TAA	p.Q302*	MOV10L1_uc003bjk.3_Nonsense_Mutation_p.Q302*|MOV10L1_uc011arp.1_Nonsense_Mutation_p.Q282*|MOV10L1_uc011arq.1_Nonsense_Mutation_p.Q63*|MOV10L1_uc010hao.1_RNA	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	302					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		AGACATTCCTCAAAACTTAGT	0.358													61	145	---	---	---	---	PASS	T	50552829	T	T	50552829	4	4	39	1	0	0	0	0	0	1	0	0	9719	827	29	2	971	2	MOV10L1	22	50552829	Nonsense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08		50552829	751737	282	15492										
PANX2	56666	broad.mit.edu	37	chr22	50609369	50609369	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ctgctggtcaccctggtcttCaccaagaacttcgcaggtga	10	13	3	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chr22:50609369C>T	uc003bjn.3	+	1	210	c.210C>T	c.(208-210)TTC>TTT	p.F70F	PANX2_uc003bjp.3_5'UTR|PANX2_uc003bjo.3_Silent_p.F70F	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	70	Helical; (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		CCCTGGTCTTCACCAAGAACT	0.582													9	20	---	---	---	---	PASS	T	50609369	T	T	50609369	2	4	39	1	0	0	0	0	0	0	0	1	11421	825	29	2		2	PANX2	22	50609369	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	56540	50609369	695197	283	15493										
PLCXD1	55344	broad.mit.edu	37	chrX	215978	215978	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtcagtgacgtcatcgcgctCaatcagaagctgctgtggtg	13	10	4	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:215978C>G	uc004cpc.2	+	7	1260	c.948C>G	c.(946-948)CTC>CTG	p.L316L	PLCXD1_uc011mgx.1_RNA	NM_018390	NP_060860	Q9NUJ7	PLCX1_HUMAN	phosphatidylinositol-specific phospholipase C, X	316					intracellular signal transduction|lipid metabolic process		phospholipase C activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TCATCGCGCTCAATCAGAAGC	0.607													33	102	---	---	---	---	PASS	G	215978	G	G	215978	2	3	39	1	0	0	0	0	0	0	0	1	12041	813	29	2		2	PLCXD1	23	215978	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08		215978	155054582	284	15494										
GPR143	4935	broad.mit.edu	37	chrX	9728766	9728766	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggtggactcaccgcactcccCacgcagaaagcagcaggcca	11	16	1	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:9728766C>A	uc004cst.1	-	2	411	c.411G>T	c.(409-411)GTG>GTT	p.V137V		NM_000273	NP_000264	P51810	GP143_HUMAN	G protein-coupled receptor 143	117	Extracellular (Potential).				calcium-mediated signaling using intracellular calcium source|eye pigment biosynthetic process|melanosome organization|melanosome transport|phosphatidylinositol-mediated signaling|regulation of calcium-mediated signaling|visual perception	apical plasma membrane|Golgi apparatus|integral to membrane|lysosomal membrane|melanosome membrane|membrane fraction	dopamine binding|L-DOPA receptor activity|protein binding|tyrosine binding			ovary(1)	1		Hepatocellular(5;0.000888)				CCGCACTCCCCACGCAGAAAG	0.408													16	16	---	---	---	---	PASS	A	9728766	A	A	9728766	2	1	39	1	0	0	0	0	0	0	0	1	6651	581	21	3		3	GPR143	23	9728766	Silent	SNP	C	TCGA-22-4604-01A-01D-1267-08	9512788	9728766	145541794	285	15495										
ZNF645	158506	broad.mit.edu	37	chrX	22291349	22291349	+	Frame_Shift_Del	DEL	T	-	-													0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agcatgctttttgctatcacTgtgctaatttatatgacaaa							TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:22291349delT	uc004dai.1	+	1	290	c.241delT	c.(241-243)TGTfs	p.C81fs		NM_152577	NP_689790	Q8N7E2	ZN645_HUMAN	zinc finger protein 645	81	RING-type.					intracellular	zinc ion binding			lung(1)|pancreas(1)	2						TTGCTATCACTGTGCTAATTT	0.388													68	85	---	---	---	---		-	22291349	-	-	22291349	7	5	39	1	0	1	0	1	0	0	0	0	18058	1580	55	0	243	0	ZNF645	23	22291349	Frame_Shift_Del	DEL	T	TCGA-22-4604-01A-01D-1267-08	12562583	22291349	132979211	286	15496										
ZNF645	158506	broad.mit.edu	37	chrX	22292376	22292376	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ttcacaccagagaagacataGacggtattaaggatgataac	9	7	1	4			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:22292376G>C	uc004dai.1	+	1	1317	c.1268G>C	c.(1267-1269)AGA>ACA	p.R423T		NM_152577	NP_689790	Q8N7E2	ZN645_HUMAN	zinc finger protein 645	423						intracellular	zinc ion binding			lung(1)|pancreas(1)	2						AGAAGACATAGACGGTATTAA	0.463													58	42	---	---	---	---	PASS	C	22292376	C	C	22292376	3	2	39	1	0	0	0	0	1	0	0	0	18058	942	33	2	1270	2	ZNF645	23	22292376	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	1027	22292376	132978184	287	15497										
STARD8	9754	broad.mit.edu	37	chrX	67943851	67943851	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cccagtccctggatccggaaCaacctgtgccagagtcgggt	12	14	0	1	rs150722287		TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:67943851C>A	uc004dxa.2	+	13	3214	c.2842C>A	c.(2842-2844)CAA>AAA	p.Q948K	STARD8_uc004dxb.2_Missense_Mutation_p.Q1028K|STARD8_uc004dxc.3_Missense_Mutation_p.Q948K	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	948	START.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						GGATCCGGAACAACCTGTGCC	0.612													78	50	---	---	---	---	PASS	A	67943851	A	A	67943851	3	1	39	1	0	0	0	0	1	0	0	0	15262	479	17	3	3136	3	STARD8	23	67943851	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	45651475	67943851	87326709	288	15498										
RLIM	51132	broad.mit.edu	37	chrX	73811938	73811938	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gtcattatctgccttaacatGgtctgaattgcaacagatgt	8	8	3	2	rs61754468	by1000genomes	TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:73811938G>C	uc004ebu.2	-	5	1502	c.1212C>G	c.(1210-1212)ACC>ACG	p.T404T	RLIM_uc004ebw.2_Silent_p.T404T	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	404					random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GCCTTAACATGGTCTGAATTG	0.413													7	172	---	---	---	---	PASS	C	73811938	C	C	73811938	2	2	39	1	0	0	0	0	0	0	0	1	13390	1335	47	4		4	RLIM	23	73811938	Silent	SNP	G	TCGA-22-4604-01A-01D-1267-08	5868087	73811938	81458622	289	15499										
POU3F4	5456	broad.mit.edu	37	chrX	82763523	82763523	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ggtgaccagtctgagcgacgGgggcccatggtcctccacac	14	14	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:82763523G>C	uc004eeg.2	+	1	255	c.191G>C	c.(190-192)GGG>GCG	p.G64A		NM_000307	NP_000298	P49335	PO3F4_HUMAN	POU domain, class 3, transcription factor 4	64					sensory perception of sound	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						CTGAGCGACGGGGGCCCATGG	0.622													4	17	---	---	---	---	PASS	C	82763523	C	C	82763523	3	2	39	1	0	0	0	0	1	0	0	0	12277	1232	43	4	193	4	POU3F4	23	82763523	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	8951585	82763523	72507037	290	15500										
CXorf57	55086	broad.mit.edu	37	chrX	105855548	105855548	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	ccgtccagaggtacctgttaGaggatgagccacgcgacacg	13	12	0	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:105855548G>T	uc004emi.3	+	1	389	c.238G>T	c.(238-240)GAG>TAG	p.E80*	CXorf57_uc004emj.3_Nonsense_Mutation_p.E80*|CXorf57_uc004emh.2_Nonsense_Mutation_p.E80*	NM_018015	NP_060485	Q6NSI4	CX057_HUMAN	hypothetical protein LOC55086	80										ovary(1)|lung(1)|breast(1)	3						GTACCTGTTAGAGGATGAGCC	0.567													5	238	---	---	---	---	PASS	T	105855548	T	T	105855548	4	4	39	1	0	0	0	0	0	1	0	0	4113	943	33	2	240	2	CXorf57	23	105855548	Nonsense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	23092025	105855548	49415012	291	15501										
CAPN6	827	broad.mit.edu	37	chrX	110491097	110491097	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	cagacattcctgccattcttActttcattggcatacttctt	4	12	3	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:110491097A>G	uc004epc.1	-	11	1774	c.1606_splice	c.e11+1	p.T536_splice	CAPN6_uc011msu.1_Splice_Site_p.T281_splice	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6						microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						TGCCATTCTTACTTTCATTGG	0.368													10	207	---	---	---	---	PASS	G	110491097	G	G	110491097	5	3	39	1	0	0	0	0	0	0	1	0	2630	405	14	5	329	5	CAPN6	23	110491097	Splice_Site	SNP	A	TCGA-22-4604-01A-01D-1267-08	4635549	110491097	44779463	292	15502										
GLUD2	2747	broad.mit.edu	37	chrX	120181839	120181839	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gcgaggagcagaagcggaacCgggtgcgcggcatcctgcgg	19	11	0	1			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:120181839C>T	uc004eto.2	+	1	378	c.301C>T	c.(301-303)CGG>TGG	p.R101W		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	101					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	GAAGCGGAACCGGGTGCGCGG	0.627													13	150	---	---	---	---	PASS	T	120181839	T	T	120181839	3	4	39	1	0	0	0	0	1	0	0	0	6477	643	23	1	303	1	GLUD2	23	120181839	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	9690742	120181839	35088721	293	15503										
MAGEC3	139081	broad.mit.edu	37	chrX	140969321	140969321	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	atgcagatgaatgtcatcaaCacatacacgggctactttcc	7	11	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:140969321C>A	uc011mwp.1	+	4	648	c.648C>A	c.(646-648)AAC>AAA	p.N216K		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	216	MAGE 1.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ATGTCATCAACACATACACGG	0.448													6	277	---	---	---	---	PASS	A	140969321	A	A	140969321	3	1	39	1	0	0	0	0	1	0	0	0	9182	477	17	3	662	3	MAGEC3	23	140969321	Missense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	20787482	140969321	14301239	294	15504										
GABRQ	55879	broad.mit.edu	37	chrX	151821068	151821068	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	caccccagcgcaggccccccTggcaagcccggaaagcctcg	11	20	0	0			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:151821068T>A	uc004ffp.1	+	9	1243	c.1223T>A	c.(1222-1224)CTG>CAG	p.L408Q		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	408						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CAGGCCCCCCTGGCAAGCCCG	0.592													75	51	---	---	---	---	PASS	A	151821068	A	A	151821068	3	1	39	1	0	0	0	0	1	0	0	0	6175	1580	55	5	1257	5	GABRQ	23	151821068	Missense_Mutation	SNP	T	TCGA-22-4604-01A-01D-1267-08	10851747	151821068	3449492	295	15505										
MAGEA6	4105	broad.mit.edu	37	chrX	151870031	151870031	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	gggaagacagtatcttcgggGatcccaagaagctgctcacc	12	11	2	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:151870031G>T	uc004ffq.1	+	3	915	c.721G>T	c.(721-723)GAT>TAT	p.D241Y	MAGEA6_uc004ffr.1_Missense_Mutation_p.D241Y|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	241	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					TATCTTCGGGGATCCCAAGAA	0.542													239	192	---	---	---	---	PASS	T	151870031	T	T	151870031	3	4	39	1	0	0	0	0	1	0	0	0	9170	1174	41	2	723	2	MAGEA6	23	151870031	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	48963	151870031	3400529	296	15506										
DUSP9	1852	broad.mit.edu	37	chrX	152915069	152915069	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	aagaatggtgactttcactaCaagcagatccccatctccga	7	12	2	3			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:152915069C>A	uc004fhx.3	+	3	960	c.756C>A	c.(754-756)TAC>TAA	p.Y252*	DUSP9_uc004fhy.3_Nonsense_Mutation_p.Y252*	NM_001395	NP_001386	Q99956	DUS9_HUMAN	dual specificity phosphatase 9	252	Tyrosine-protein phosphatase.				inactivation of MAPK activity|JNK cascade	cytosol|endoplasmic reticulum|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)	2	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACTTTCACTACAAGCAGATCC	0.557													8	388	---	---	---	---	PASS	A	152915069	A	A	152915069	4	1	39	1	0	0	0	0	0	1	0	0	4832	489	17	3	762	3	DUSP9	23	152915069	Nonsense_Mutation	SNP	C	TCGA-22-4604-01A-01D-1267-08	1045038	152915069	2355491	297	15507										
F8	2157	broad.mit.edu	37	chrX	154157066	154157066	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0949152542372881	28	0.0754990738529118	1.38230647709321	2.49775842192904	0.996589449439695	0.813676710741718	1	0	agtagtacgagttatttcccGttgatggcgtttcaagactg	11	7	1	2			TCGA-22-4604-01A-01D-1267-08	TCGA-22-4604-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	db2614fb-109c-4ce1-af4c-f648a0d417fb	5e86765f-cf21-47e0-8ab4-16f6c0f6d939	g.chrX:154157066G>A	uc004fmt.2	-	14	5170	c.4999C>T	c.(4999-5001)CGG>TGG	p.R1667W		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	1667	B.	Cleavage (activation).			acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	GTTATTTCCCGTTGATGGCGT	0.413													32	128	---	---	---	---	PASS	A	154157066	A	A	154157066	3	1	39	1	0	0	0	0	1	0	0	0	5350	1144	40	1	2136	1	F8	23	154157066	Missense_Mutation	SNP	G	TCGA-22-4604-01A-01D-1267-08	1241997	154157066	1113494	298	15508										
YARS	8565	broad.mit.edu	37	chr1	33244985	33244985	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	acaattacagctttttacctGcaacttctcgaagactttct	4	11	2	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:33244985G>A	uc001bvy.1	-	12	2262	c.1474C>T	c.(1474-1476)CAG>TAG	p.Q492*	YARS_uc001bvw.1_Nonsense_Mutation_p.Q152*|YARS_uc001bvx.1_Nonsense_Mutation_p.Q143*	NM_003680	NP_003671	P54577	SYYC_HUMAN	tyrosyl-tRNA synthetase	492					apoptosis|tyrosyl-tRNA aminoacylation	cytosol|extracellular space|nucleus|soluble fraction	ATP binding|interleukin-8 receptor binding|signal transducer activity|tRNA binding|tyrosine-tRNA ligase activity			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)			L-Tyrosine(DB00135)	CTTTTTACCTGCAACTTCTCG	0.532													5	218	---	---	---	---	PASS	A	33244985	A	A	33244985	4	1	40	1	0	0	0	0	0	1	0	0	17464	1328	46	3	120	3	YARS	1	33244985	Nonsense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08		33244985	216005636	1	15509										
C1orf216	127703	broad.mit.edu	37	chr1	36181874	36181874	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	acataatccaggaggtgggtCccccaggaattggcccccct	11	14	0	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:36181874C>A	uc001bzh.1	-	2	537	c.49G>T	c.(49-51)GAC>TAC	p.D17Y		NM_152374	NP_689587	Q8TAB5	CA216_HUMAN	hypothetical protein LOC127703	17										skin(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.196)				GGAGGTGGGTCCCCCAGGAAT	0.577											OREG0013357	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	69	---	---	---	---	PASS	A	36181874	A	A	36181874	3	1	40	1	0	0	0	0	1	0	0	0	2031	855	30	2	644	2	C1orf216	1	36181874	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	2936889	36181874	213068747	2	15510										
ZC3H12A	80149	broad.mit.edu	37	chr1	37948064	37948064	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ccctgatgacccactgggccGgcacgggcccagcctggaca	13	17	0	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:37948064G>A	uc001cbb.3	+	5	998	c.848G>A	c.(847-849)CGG>CAG	p.R283Q	ZC3H12A_uc001cbc.1_Missense_Mutation_p.G13S	NM_025079	NP_079355	Q5D1E8	ZC12A_HUMAN	zinc finger CCCH-type containing 12A	283					angiogenesis|apoptosis|cell differentiation	cytoplasm|nucleus|plasma membrane	endonuclease activity|metal ion binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CCACTGGGCCGGCACGGGCCC	0.602													15	264	---	---	---	---	PASS	A	37948064	A	A	37948064	3	1	40	1	0	0	0	0	1	0	0	0	17558	1116	39	1	862	1	ZC3H12A	1	37948064	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	1766190	37948064	211302557	3	15511										
SPATA6	54558	broad.mit.edu	37	chr1	48771547	48771547	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	atctttctctaggtctctctCatcctgaaaaattttaaaga	4	9	4	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:48771547C>A	uc001crr.1	-	12	1363	c.1198G>T	c.(1198-1200)GAG>TAG	p.E400*	SPATA6_uc001crs.1_Nonsense_Mutation_p.E384*|SPATA6_uc010omv.1_Nonsense_Mutation_p.E386*	NM_019073	NP_061946	Q9NWH7	SPAT6_HUMAN	spermatogenesis associated 6 precursor	400					cell differentiation|multicellular organismal development|spermatogenesis	extracellular region				ovary(1)	1						AGGTCTCTCTCATCCTGAAAA	0.368													6	75	---	---	---	---	PASS	A	48771547	A	A	48771547	4	1	40	1	0	0	0	0	0	1	0	0	15012	835	29	2	276	2	SPATA6	1	48771547	Nonsense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	10823483	48771547	200479074	4	15512										
C1orf175	374977	broad.mit.edu	37	chr1	55175632	55175632	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gacgcagctctggataacttGagacatgacccagaagcatc	10	11	1	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:55175632G>C	uc010ooe.1	+	24	4068	c.3744G>C	c.(3742-3744)TTG>TTC	p.L1248F	C1orf175_uc001cxq.2_Intron|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Missense_Mutation_p.L766F|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA|C1orf175_uc009vzr.1_Missense_Mutation_p.L449F	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	1248						integral to membrane	binding				0						TGGATAACTTGAGACATGACC	0.512													4	172	---	---	---	---	PASS	C	55175632	C	C	55175632	3	2	40	1	0	0	0	0	1	0	0	0	2016	1281	45	2	3830	2	C1orf175	1	55175632	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	6404085	55175632	194074989	5	15513										
BSND	7809	broad.mit.edu	37	chr1	55464936	55464936	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ggccctcggtacgttcctcaTgagccatgatcggccccagg	12	15	1	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:55464936T>A	uc001cye.2	+	1	320	c.77T>A	c.(76-78)ATG>AAG	p.M26K		NM_057176	NP_476517	Q8WZ55	BSND_HUMAN	barttin	26	Helical; (Potential).					basolateral plasma membrane|cytoplasm|integral to plasma membrane|protein complex				ovary(1)|skin(1)	2						ACGTTCCTCATGAGCCATGAT	0.612													42	117	---	---	---	---	PASS	A	55464936	A	A	55464936	3	1	40	1	0	0	0	0	1	0	0	0	1531	1464	51	5	79	5	BSND	1	55464936	Missense_Mutation	SNP	T	TCGA-22-4607-01A-01D-1267-08	289304	55464936	193785685	6	15514										
HFM1	164045	broad.mit.edu	37	chr1	91818104	91818104	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	aatcatctgtagaatatctgTttcactgtactcttcaaaca	4	9	6	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:91818104T>A	uc001doa.3	-	16	2036	c.1936A>T	c.(1936-1938)ACA>TCA	p.T646S	HFM1_uc009wdb.2_RNA|HFM1_uc010osu.1_Missense_Mutation_p.T325S|HFM1_uc010osv.1_Missense_Mutation_p.T330S	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	646	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		AGAATATCTGTTTCACTGTAC	0.328													4	25	---	---	---	---	PASS	A	91818104	A	A	91818104	3	1	40	1	0	0	0	0	1	0	0	0	7083	1725	60	5	2467	5	HFM1	1	91818104	Missense_Mutation	SNP	T	TCGA-22-4607-01A-01D-1267-08	36353168	91818104	157432517	7	15515										
AGL	178	broad.mit.edu	37	chr1	100327202	100327202	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	atccaacagaaagagaagatGattctgataaatactgtaaa	7	5	1	5			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:100327202G>A	uc001dsi.1	+	3	626	c.226G>A	c.(226-228)GAT>AAT	p.D76N	AGL_uc001dsj.1_Missense_Mutation_p.D76N|AGL_uc001dsk.1_Missense_Mutation_p.D76N|AGL_uc001dsl.1_Missense_Mutation_p.D76N|AGL_uc001dsm.1_Missense_Mutation_p.D60N|AGL_uc001dsn.1_Missense_Mutation_p.D59N	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	76	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		AAGAGAAGATGATTCTGATAA	0.338													4	56	---	---	---	---	PASS	A	100327202	A	A	100327202	3	1	40	1	0	0	0	0	1	0	0	0	384	1290	45	2	301	2	AGL	1	100327202	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	8509098	100327202	148923419	8	15516										
GPSM2	29899	broad.mit.edu	37	chr1	109439595	109439595	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ctgcagttcaagttggaactGaagacctaaaaacacttagc	8	9	1	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:109439595G>A	uc010ovc.1	+	3	662	c.166G>A	c.(166-168)GAA>AAA	p.E56K	AKNAD1_uc010ovb.1_Intron|GPSM2_uc010ovd.1_Missense_Mutation_p.E56K|GPSM2_uc010ove.1_Missense_Mutation_p.E56K	NM_013296	NP_037428	P81274	GPSM2_HUMAN	LGN protein	56	TPR 1.				G-protein coupled receptor protein signaling pathway	cell cortex|nucleus	GTPase activator activity|identical protein binding			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0353)|Lung(183;0.0984)|COAD - Colon adenocarcinoma(174;0.129)|Epithelial(280;0.175)|all cancers(265;0.209)		AGTTGGAACTGAAGACCTAAA	0.433													5	105	---	---	---	---	PASS	A	109439595	A	A	109439595	3	1	40	1	0	0	0	0	1	0	0	0	6735	1291	45	2	172	2	GPSM2	1	109439595	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	9112393	109439595	139811026	9	15517										
ITGA10	8515	broad.mit.edu	37	chr1	145537822	145537822	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gcatcctgtcttccagactgGagccaaggtgggttggggtc	15	10	1	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:145537822G>C	uc001eoa.2	+	21	2736	c.2660G>C	c.(2659-2661)GGA>GCA	p.G887A	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.G756A|ITGA10_uc009wiw.2_Missense_Mutation_p.G744A|ITGA10_uc010oyw.1_Missense_Mutation_p.G832A	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	887	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TTCCAGACTGGAGCCAAGGTG	0.612													18	126	---	---	---	---	PASS	C	145537822	C	C	145537822	3	2	40	1	0	0	0	0	1	0	0	0	7873	1174	41	2	2742	2	ITGA10	1	145537822	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	36098227	145537822	103712799	10	15518										
FLG2	388698	broad.mit.edu	37	chr1	152323611	152323611	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ccatgagtagttccctgtctCccatgacctgaggatcctga	9	13	1	4			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:152323611C>T	uc001ezw.3	-	3	6724	c.6651G>A	c.(6649-6651)GGG>GGA	p.G2217G	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	2217							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCCCTGTCTCCCATGACCTG	0.522													9	861	---	---	---	---	PASS	T	152323611	T	T	152323611	2	4	40	1	0	0	0	0	0	0	0	1	5923	842	30	2		2	FLG2	1	152323611	Silent	SNP	C	TCGA-22-4607-01A-01D-1267-08	6785789	152323611	96927010	11	15519										
FLG2	388698	broad.mit.edu	37	chr1	152326558	152326558	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gaccatgagtagtttcctgtCtcccatgaactgtggatcct	9	11	1	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:152326558C>G	uc001ezw.3	-	3	3777	c.3704G>C	c.(3703-3705)AGA>ACA	p.R1235T	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1235	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGTTTCCTGTCTCCCATGAAC	0.483													7	355	---	---	---	---	PASS	G	152326558	G	G	152326558	3	3	40	1	0	0	0	0	1	0	0	0	5923	913	32	2	3475	2	FLG2	1	152326558	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	2947	152326558	96924063	12	15520										
TMEM79	84283	broad.mit.edu	37	chr1	156255757	156255757	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gcgctgcggggtctttgccaCcttccccattgtgctgggtg	14	13	1	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:156255757C>G	uc010phi.1	+	2	936	c.740C>G	c.(739-741)ACC>AGC	p.T247S	TMEM79_uc001fod.2_Missense_Mutation_p.T88S|TMEM79_uc009wrw.2_Missense_Mutation_p.T247S	NM_032323	NP_115699	Q9BSE2	TMM79_HUMAN	transmembrane protein 79	247	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1	Hepatocellular(266;0.158)					GTCTTTGCCACCTTCCCCATT	0.602													11	463	---	---	---	---	PASS	G	156255757	G	G	156255757	3	3	40	1	0	0	0	0	1	0	0	0	16200	507	18	4	742	4	TMEM79	1	156255757	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	3929199	156255757	92994864	13	15521										
FCRL2	79368	broad.mit.edu	37	chr1	157738319	157738319	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gggatctccagctctgctgaCagggaacgctgggttttctt	13	10	3	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:157738319C>G	uc001fre.2	-	5	827	c.768G>C	c.(766-768)CTG>CTC	p.L256L	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Silent_p.L256L|FCRL2_uc009wsp.2_Intron	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	256	Ig-like C2-type 3.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GCTCTGCTGACAGGGAACGCT	0.532													148	222	---	---	---	---	PASS	G	157738319	G	G	157738319	2	3	40	1	0	0	0	0	0	0	0	1	5795	465	17	4		4	FCRL2	1	157738319	Silent	SNP	C	TCGA-22-4607-01A-01D-1267-08	1482562	157738319	91512302	14	15522										
SMG7	9887	broad.mit.edu	37	chr1	183520990	183520990	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	catgatgcatcctggaccttCtgctctggagcagctgttaa	10	11	2	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:183520990C>T	uc001gqg.2	+	22	3460	c.3338C>T	c.(3337-3339)TCT>TTT	p.S1113F	SMG7_uc001gqf.2_Intron|SMG7_uc001gqh.2_Missense_Mutation_p.S1067F|SMG7_uc001gqi.2_Missense_Mutation_p.S1025F|SMG7_uc010poc.1_Missense_Mutation_p.S1121F	NM_173156	NP_775179	Q92540	SMG7_HUMAN	SMG-7 homolog isoform 1	1113					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|intermediate filament cytoskeleton|nucleus	protein phosphatase 2A binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CCTGGACCTTCTGCTCTGGAG	0.498													6	68	---	---	---	---	PASS	T	183520990	T	T	183520990	3	4	40	1	0	0	0	0	1	0	0	0	14798	913	32	2	3578	2	SMG7	1	183520990	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	25782671	183520990	65729631	15	15523										
C1orf107	27042	broad.mit.edu	37	chr1	210010489	210010489	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gcttggcaacaatagcagacGccgaagccagaagtttggag	13	9	0	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:210010489G>T	uc001hhr.1	+	6	1071	c.995G>T	c.(994-996)CGC>CTC	p.R332L	C1orf107_uc009xcu.1_Missense_Mutation_p.R47L	NM_014388	NP_055203	Q68CQ4	DIEXF_HUMAN	digestive-organ expansion factor homolog	332					multicellular organismal development	nucleus					0				OV - Ovarian serous cystadenocarcinoma(81;0.0367)		AATAGCAGACGCCGAAGCCAG	0.512													10	36	---	---	---	---	PASS	T	210010489	T	T	210010489	3	4	40	1	0	0	0	0	1	0	0	0	1981	1087	38	1	1017	1	C1orf107	1	210010489	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	26489499	210010489	39240132	16	15524										
RAB3GAP2	25782	broad.mit.edu	37	chr1	220363047	220363048	+	Frame_Shift_Ins	INS	-	T	T													0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gtattatatacacttacttgINSttttttggttgcagggtatt							TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:220363047_220363048insT	uc010puk.1	-	17	1940_1941	c.1776_1777insA	c.(1774-1779)AAACAAfs	p.K592fs	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Frame_Shift_Ins_p.K172fs	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	592_593					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		ACACTTACTTGTTTTTTGGTTG	0.257													4	2	---	---	---	---		T	220363048	T	T	220363047	7	5	40	1	0	1	1	0	0	0	0	0	12936	1386	48	0	2480	0	RAB3GAP2	1	220363047	Frame_Shift_Ins	INS	-	TCGA-22-4607-01A-01D-1267-08	10352558	220363047	28887574	17	15525										
MTR	4548	broad.mit.edu	37	chr1	237048463	237048463	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	atctaaaggatgaatactttGaggaaatcatggaagaatat	9	3	2	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:237048463G>C	uc001hyi.3	+	26	3142	c.2719G>C	c.(2719-2721)GAG>CAG	p.E907Q	MTR_uc010pxw.1_Missense_Mutation_p.E500Q|MTR_uc010pxx.1_Missense_Mutation_p.E856Q|MTR_uc010pxy.1_Missense_Mutation_p.E761Q	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	907	B12-binding.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	TGAATACTTTGAGGAAATCAT	0.348													3	71	---	---	---	---	PASS	C	237048463	C	C	237048463	3	2	40	1	0	0	0	0	1	0	0	0	9958	1291	45	2	2821	2	MTR	1	237048463	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	16685416	237048463	12202158	18	15526										
OR11L1	391189	broad.mit.edu	37	chr1	248004586	248004586	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	aaaacaaatgcacagcacggCaattgacaggatgaagatgg	11	7	0	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr1:248004586C>A	uc001idn.1	-	1	613	c.613G>T	c.(613-615)GCC>TCC	p.A205S		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	205	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CACAGCACGGCAATTGACAGG	0.478													91	127	---	---	---	---	PASS	A	248004586	A	A	248004586	3	1	40	1	0	0	0	0	1	0	0	0	10930	710	25	3	359	3	OR11L1	1	248004586	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	10956123	248004586	1246035	19	15527										
ADCY3	109	broad.mit.edu	37	chr2	25048948	25048948	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	agtagaagctgagcatcatgAggaacaccatcaccgtcata	9	10	3	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr2:25048948A>G	uc002rfs.3	-	15	2742	c.2543T>C	c.(2542-2544)CTC>CCC	p.L848P	ADCY3_uc002rfr.3_Missense_Mutation_p.L435P|ADCY3_uc010ykm.1_Missense_Mutation_p.L849P	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	848	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					GAGCATCATGAGGAACACCAT	0.617													25	40	---	---	---	---	PASS	G	25048948	G	G	25048948	3	3	40	1	0	0	0	0	1	0	0	0	295	304	11	5	919	5	ADCY3	2	25048948	Missense_Mutation	SNP	A	TCGA-22-4607-01A-01D-1267-08		25048948	218150425	20	15528										
ADCY3	109	broad.mit.edu	37	chr2	25061355	25061355	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ggtggctgttttcttcacctCtggcttggaggcaatgatga	13	8	3	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr2:25061355C>G	uc002rfs.3	-	7	1691	c.1492G>C	c.(1492-1494)GAG>CAG	p.E498Q	ADCY3_uc002rfr.3_Missense_Mutation_p.E131Q|ADCY3_uc010ykm.1_Missense_Mutation_p.E498Q	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	498	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					TTCTTCACCTCTGGCTTGGAG	0.433													4	198	---	---	---	---	PASS	G	25061355	G	G	25061355	3	3	40	1	0	0	0	0	1	0	0	0	295	922	32	2	2002	2	ADCY3	2	25061355	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	12407	25061355	218138018	21	15529										
ERLEC1	27248	broad.mit.edu	37	chr2	54024926	54024926	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tggccaagaaccttctatttGaaaaaggttggtgtctaccc	9	9	2	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr2:54024926G>C	uc002rxl.2	+	5	764	c.484G>C	c.(484-486)GAA>CAA	p.E162Q	ASB3_uc002rxi.3_Intron|ERLEC1_uc002rxm.2_Missense_Mutation_p.E162Q|ERLEC1_uc002rxn.2_Missense_Mutation_p.E162Q	NM_015701	NP_056516	Q96DZ1	ERLEC_HUMAN	erlectin isoform 1	162	PRKCSH 1.				ER-associated protein catabolic process	endoplasmic reticulum lumen	glycoprotein binding|protein binding			ovary(2)	2						CCTTCTATTTGAAAAAGGTTG	0.289													3	160	---	---	---	---	PASS	C	54024926	C	C	54024926	3	2	40	1	0	0	0	0	1	0	0	0	5231	1291	45	2	502	2	ERLEC1	2	54024926	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	28963571	54024926	189174447	22	15530										
SNRNP200	23020	broad.mit.edu	37	chr2	96969005	96969005	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	accatctcatcaatgccctcCgacagcagagtataaccctt	5	15	2	1	rs115907254	byFrequency	TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr2:96969005C>A	uc002svu.2	-	3	359	c.273G>T	c.(271-273)TCG>TCT	p.S91S		NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	91						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						CAATGCCCTCCGACAGCAGAG	0.488													5	818	---	---	---	---	PASS	A	96969005	A	A	96969005	2	1	40	1	0	0	0	0	0	0	0	1	14852	639	23	1		1	SNRNP200	2	96969005	Silent	SNP	C	TCGA-22-4607-01A-01D-1267-08	42944079	96969005	146230368	23	15531										
CNGA3	1261	broad.mit.edu	37	chr2	99013095	99013095	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gcatcttccaggactgtgagGcagggctgctggtggagctg	17	9	1	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr2:99013095G>A	uc002syt.2	+	8	1879	c.1462G>A	c.(1462-1464)GCA>ACA	p.A488T	CNGA3_uc002syu.2_Missense_Mutation_p.A470T|CNGA3_uc010fij.2_Missense_Mutation_p.A492T	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	488	cGMP.				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						GGACTGTGAGGCAGGGCTGCT	0.557													6	53	---	---	---	---	PASS	A	99013095	A	A	99013095	3	1	40	1	0	0	0	0	1	0	0	0	3598	1203	42	3	1488	3	CNGA3	2	99013095	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	2044090	99013095	144186278	24	15532										
IHH	3549	broad.mit.edu	37	chr2	219920495	219920495	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	cagcacacggtctcccggccTcacggctgacaaggccacac	10	18	2	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr2:219920495T>C	uc002vjo.1	-	3	670	c.670A>G	c.(670-672)AGG>GGG	p.R224G		NM_002181	NP_002172	Q14623	IHH_HUMAN	Indian hedgehog homolog precursor	224					cell-cell signaling|intein-mediated protein splicing|proteolysis	extracellular space|plasma membrane	cholesterol binding|patched binding|peptidase activity			breast(1)	1		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000188)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCTCCCGGCCTCACGGCTGAC	0.677													4	104	---	---	---	---	PASS	C	219920495	C	C	219920495	3	2	40	1	0	0	0	0	1	0	0	0	7607	1550	54	5	569	5	IHH	2	219920495	Missense_Mutation	SNP	T	TCGA-22-4607-01A-01D-1267-08	120907400	219920495	23278878	25	15533										
FAM134A	79137	broad.mit.edu	37	chr2	220047043	220047043	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ccgagacagtgagtggtggcCtcactgctctgcccggcacc	13	15	2	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr2:220047043C>G	uc002vjw.3	+	9	1460	c.1324C>G	c.(1324-1326)CTC>GTC	p.L442V	FAM134A_uc010fwc.2_Missense_Mutation_p.L235V|FAM134A_uc002vjx.2_Intron	NM_024293	NP_077269	Q8NC44	F134A_HUMAN	hypothetical protein LOC79137	442						endoplasmic reticulum|integral to membrane				ovary(1)|central_nervous_system(1)	2		Renal(207;0.0915)		Epithelial(149;8.92e-07)|all cancers(144;0.000151)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GAGTGGTGGCCTCACTGCTCT	0.622													94	176	---	---	---	---	PASS	G	220047043	G	G	220047043	3	3	40	1	0	0	0	0	1	0	0	0	5445	681	24	4	1358	4	FAM134A	2	220047043	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	126548	220047043	23152330	26	15534										
PTPRN	5798	broad.mit.edu	37	chr2	220164096	220164096	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gatgcggaaggtgagggctgGtcccaccacactgccagata	14	11	0	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr2:220164096G>T	uc002vkz.2	-	11	1623	c.1534C>A	c.(1534-1536)CCA>ACA	p.P512T	PTPRN_uc010zlc.1_Missense_Mutation_p.P422T|PTPRN_uc002vla.2_Missense_Mutation_p.P483T	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	512	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		GTGAGGGCTGGTCCCACCACA	0.557											OREG0015221	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	164	---	---	---	---	PASS	T	220164096	T	T	220164096	3	4	40	1	0	0	0	0	1	0	0	0	12807	1261	44	3	1457	3	PTPRN	2	220164096	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	117053	220164096	23035277	27	15535										
COL4A4	1286	broad.mit.edu	37	chr2	227985759	227985759	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tttgtcccctgctgctccagGagggccgcggtcccctctca	11	17	1	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr2:227985759G>A	uc010zlt.1	-	5	952	c.298C>T	c.(298-300)CCT>TCT	p.P100S		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	100	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		GCTGCTCCAGGAGGGCCGCGG	0.532													16	96	---	---	---	---	PASS	A	227985759	A	A	227985759	3	1	40	1	0	0	0	0	1	0	0	0	3693	1174	41	2	4950	2	COL4A4	2	227985759	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	7821663	227985759	15213614	28	15536										
MLPH	79083	broad.mit.edu	37	chr2	238443205	238443205	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tgtttctctccttctgctgcAgatctttgagctgaataagc	8	10	3	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr2:238443205A>C	uc002vwt.2	+	9	1248	c.1021_splice	c.e9-2	p.I341_splice	MLPH_uc002vws.2_Intron|MLPH_uc010fyt.1_Intron|MLPH_uc002vwu.2_Intron|MLPH_uc002vwv.2_Intron|MLPH_uc002vww.2_Intron|MLPH_uc002vwx.2_Intron|MLPH_uc010fyu.2_Splice_Site_p.I93_splice	NM_024101	NP_077006	Q9BV36	MELPH_HUMAN	melanophilin isoform 1								metal ion binding			ovary(1)	1		Breast(86;0.000381)|Renal(207;0.000966)|Ovarian(221;0.0695)|all_hematologic(139;0.095)|all_lung(227;0.17)|Melanoma(123;0.203)		Epithelial(121;1.17e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.02e-10)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.15e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000439)|Lung(119;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0316)		CTTCTGCTGCAGATCTTTGAG	0.537													41	118	---	---	---	---	PASS	C	238443205	C	C	238443205	5	2	40	1	0	0	0	0	0	0	1	0	9633	202	7	5	1049	5	MLPH	2	238443205	Splice_Site	SNP	A	TCGA-22-4607-01A-01D-1267-08	10457446	238443205	4756168	29	15537										
CEP63	80254	broad.mit.edu	37	chr3	134278014	134278014	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	caacccatggccagcacagaCatgatggaataaagactgag	10	10	0	4			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr3:134278014C>T	uc003eqo.1	+	15	2145	c.1696C>T	c.(1696-1698)CAT>TAT	p.H566Y	CEP63_uc003eql.1_Intron|CEP63_uc003eqm.2_Intron|CEP63_uc003eqn.1_Intron	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	566					cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						CCAGCACAGACATGATGGAAT	0.408													12	231	---	---	---	---	PASS	T	134278014	T	T	134278014	3	4	40	1	0	0	0	0	1	0	0	0	3257	478	17	3	1746	3	CEP63	3	134278014	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08		134278014	63744416	30	15538										
ZNF718	255403	broad.mit.edu	37	chr4	155125	155125	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gtcctcaattcttactaaacAtaagagaattcatgccagag	6	9	3	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr4:155125A>G	uc003fzt.3	+	8	783	c.650A>G	c.(649-651)CAT>CGT	p.H217R	ZNF595_uc003fzu.1_Intron|ZNF718_uc010iaz.2_RNA|ZNF718_uc003fzw.3_5'UTR	NM_001039127	NP_001034216	Q3SXZ3	ZN718_HUMAN	zinc finger protein 718	217	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0681)|Epithelial(2;0.0838)|all cancers(2;0.135)|LUSC - Lung squamous cell carcinoma(95;0.18)		CTTACTAAACATAAGAGAATT	0.383													10	4	---	---	---	---	PASS	G	155125	G	G	155125	3	3	40	1	0	0	0	0	1	0	0	0	18117	217	8	5	664	5	ZNF718	4	155125	Missense_Mutation	SNP	A	TCGA-22-4607-01A-01D-1267-08		155125	190999151	31	15539										
NCAPG	64151	broad.mit.edu	37	chr4	17829940	17829940	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	agaaatgtcttattttatgcTatgaactgttgaagcagatg	9	4	1	4			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr4:17829940T>C	uc003gpp.2	+	12	1869	c.1693T>C	c.(1693-1695)TAT>CAT	p.Y565H	NCAPG_uc011bxj.1_Missense_Mutation_p.Y74H	NM_022346	NP_071741	Q9BPX3	CND3_HUMAN	chromosome condensation protein G	565					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	protein binding			large_intestine(1)	1				STAD - Stomach adenocarcinoma(129;0.18)		TATTTTATGCTATGAACTGTT	0.348													3	52	---	---	---	---	PASS	C	17829940	C	C	17829940	3	2	40	1	0	0	0	0	1	0	0	0	10207	1522	53	5	1739	5	NCAPG	4	17829940	Missense_Mutation	SNP	T	TCGA-22-4607-01A-01D-1267-08	17674815	17829940	173324336	32	15540										
PRMT10	90826	broad.mit.edu	37	chr4	148582038	148582038	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tgtcataatttcaaagcactCtgtcaaagccaaatatcctc	4	11	4	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr4:148582038C>G	uc003ilc.2	-	7	1247	c.1105G>C	c.(1105-1107)GAG>CAG	p.E369Q	PRMT10_uc003ilb.2_Missense_Mutation_p.E13Q|PRMT10_uc003ild.2_Missense_Mutation_p.E256Q	NM_138364	NP_612373	Q6P2P2	ANM10_HUMAN	protein arginine methyltransferase 10	369						cytoplasm	binding|protein methyltransferase activity			ovary(1)|central_nervous_system(1)	2						TCAAAGCACTCTGTCAAAGCC	0.328													3	48	---	---	---	---	PASS	G	148582038	G	G	148582038	3	3	40	1	0	0	0	0	1	0	0	0	12536	922	32	2	1456	2	PRMT10	4	148582038	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	130752098	148582038	42572238	33	15541										
PIK3R1	5295	broad.mit.edu	37	chr5	67569222	67569222	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	attttgttgtttgcagctttGactctcccggatcttgcaga	9	9	2	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr5:67569222G>C	uc003jva.2	+	3	899	c.339G>C	c.(337-339)TTG>TTC	p.L113F	PIK3R1_uc003jvb.2_Missense_Mutation_p.L113F	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	113	Rho-GAP.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.?(2)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoproterenol(DB01064)	TTGCAGCTTTGACTCTCCCGG	0.423			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			12	222	---	---	---	---	PASS	C	67569222	C	C	67569222	3	2	40	1	0	0	0	0	1	0	0	0	11918	1281	45	2	345	2	PIK3R1	5	67569222	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08		67569222	113346038	34	15542										
TNPO1	3842	broad.mit.edu	37	chr5	72183038	72183038	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	aggcattttggttttaggagCaattgctgaaggtaagccta	12	5	0	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr5:72183038C>T	uc003kck.3	+	12	1439	c.1292C>T	c.(1291-1293)GCA>GTA	p.A431V	TNPO1_uc011csj.1_Missense_Mutation_p.A381V|TNPO1_uc003kch.2_Missense_Mutation_p.A423V|TNPO1_uc003kci.3_Missense_Mutation_p.A423V|TNPO1_uc003kcg.3_Missense_Mutation_p.A423V	NM_002270	NP_002261	Q92973	TNPO1_HUMAN	transportin 1 isoform 1	431	HEAT 4.				interspecies interaction between organisms|mRNA metabolic process|protein import into nucleus, translocation	cytosol|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			skin(3)|urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)	7		Lung NSC(167;0.0053)|Ovarian(174;0.0175)		OV - Ovarian serous cystadenocarcinoma(47;6.14e-54)		GTTTTAGGAGCAATTGCTGAA	0.353													26	42	---	---	---	---	PASS	T	72183038	T	T	72183038	3	4	40	1	0	0	0	0	1	0	0	0	16332	710	25	3	1338	3	TNPO1	5	72183038	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	4613816	72183038	108732222	35	15543										
MSH3	4437	broad.mit.edu	37	chr5	80074605	80074605	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tacagacatctgaatcagctCcgggagcagctagtccttga	10	11	2	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr5:80074605C>G	uc003kgz.2	+	17	2638	c.2385C>G	c.(2383-2385)CTC>CTG	p.L795L		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	795					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		TGAATCAGCTCCGGGAGCAGC	0.393								MMR					9	71	---	---	---	---	PASS	G	80074605	G	G	80074605	2	3	40	1	0	0	0	0	0	0	0	1	9871	842	30	2		2	MSH3	5	80074605	Silent	SNP	C	TCGA-22-4607-01A-01D-1267-08	7891567	80074605	100840655	36	15544										
GPR98	84059	broad.mit.edu	37	chr5	89921057	89921057	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	aacttgacagtactcgatgaCgaggttggctaatgttacat	10	7	0	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr5:89921057C>T	uc003kju.2	+	6	765	c.669C>T	c.(667-669)GAC>GAT	p.D223D	GPR98_uc003kjt.2_Translation_Start_Site	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	223	Calx-beta 2.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TACTCGATGACGAGGTTGGCT	0.453													4	14	---	---	---	---	PASS	T	89921057	T	T	89921057	2	4	40	1	0	0	0	0	0	0	0	1	6721	535	19	1		1	GPR98	5	89921057	Silent	SNP	C	TCGA-22-4607-01A-01D-1267-08	9846452	89921057	90994203	37	15545										
AFF4	27125	broad.mit.edu	37	chr5	132228778	132228778	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ttgtcctccgttttgggtttCttgctctcactggctcggtt	10	11	2	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr5:132228778C>G	uc003kyd.2	-	12	2748	c.2340G>C	c.(2338-2340)AAG>AAC	p.K780N	AFF4_uc011cxk.1_Missense_Mutation_p.K458N|AFF4_uc003kye.1_Missense_Mutation_p.K780N	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	780					transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTTTGGGTTTCTTGCTCTCAC	0.423													15	214	---	---	---	---	PASS	G	132228778	G	G	132228778	3	3	40	1	0	0	0	0	1	0	0	0	359	912	32	2	1191	2	AFF4	5	132228778	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	42307721	132228778	48686482	38	15546										
PTTG1	9232	broad.mit.edu	37	chr5	159854787	159854787	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tccccttgagtggagtgcctCtcatgatccttgacgaggag	12	11	1	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr5:159854787C>T	uc003lyj.2	+	5	481	c.436C>T	c.(436-438)CTC>TTC	p.L146F	PTTG1_uc003lyk.2_Missense_Mutation_p.L146F	NM_004219	NP_004210	O95997	PTTG1_HUMAN	pituitary tumor-transforming protein 1	146					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|chromosome organization|chromosome segregation|DNA repair|mitosis|spermatogenesis|transcription from RNA polymerase II promoter	cytosol|nucleus	cysteine-type endopeptidase inhibitor activity|sequence-specific DNA binding transcription factor activity|SH3 domain binding				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.00219)|Epithelial(171;0.00348)|all cancers(165;0.0104)		TGGAGTGCCTCTCATGATCCT	0.512													5	69	---	---	---	---	PASS	T	159854787	T	T	159854787	3	4	40	1	0	0	0	0	1	0	0	0	12819	913	32	2	450	2	PTTG1	5	159854787	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	27626009	159854787	21060473	39	15547										
BAT2	7916	broad.mit.edu	37	chr6	31600358	31600358	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	cccagcacctcgccgggcagCtgccaagtctcctgatctgt	10	17	2	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr6:31600358C>A	uc003nvb.3	+	16	4157	c.3908C>A	c.(3907-3909)GCT>GAT	p.A1303D	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.A1303D	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1303	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						CGCCGGGCAGCTGCCAAGTCT	0.612													4	128	---	---	---	---	PASS	A	31600358	A	A	31600358	3	1	40	1	0	0	0	0	1	0	0	0	1319	797	28	3	3966	3	BAT2	6	31600358	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08		31600358	139514709	40	15548										
TSPO2	222642	broad.mit.edu	37	chr6	41010825	41010825	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gtctggttggtgtgagggccCgaggatgctgtcctggtgcc	18	9	1	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr6:41010825C>T	uc003opj.2	+	2	402	c.101C>T	c.(100-102)CCG>CTG	p.P34L	UNC5CL_uc010jxe.1_Intron|TSPO2_uc003opk.2_Nonsense_Mutation_p.R44*|TSPO2_uc011dub.1_Missense_Mutation_p.P34L	NM_001010873	NP_001010873	Q5TGU0	TSPO2_HUMAN	benzodiazapine receptor (peripheral)-like 1	34					transport	endoplasmic reticulum membrane|integral to membrane	cholesterol binding|receptor activity				0						TGTGAGGGCCCGAGGATGCTG	0.552													5	297	---	---	---	---	PASS	T	41010825	T	T	41010825	3	4	40	1	0	0	0	0	1	0	0	0	16653	652	23	1	103	1	TSPO2	6	41010825	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	9410467	41010825	130104242	41	15549										
PTPRK	5796	broad.mit.edu	37	chr6	128540114	128540114	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	acacaccggaacctcgttctGactgagttacacagcgatac	8	13	1	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr6:128540114G>C	uc003qbk.2	-	6	1188	c.821C>G	c.(820-822)TCA>TGA	p.S274*	PTPRK_uc003qbj.2_Nonsense_Mutation_p.S274*|PTPRK_uc010kfc.2_Nonsense_Mutation_p.S274*|PTPRK_uc011ebu.1_Nonsense_Mutation_p.S274*|PTPRK_uc003qbl.1_Nonsense_Mutation_p.S144*|PTPRK_uc011ebv.1_Nonsense_Mutation_p.S274*	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	274	Extracellular (Potential).|Ig-like C2-type.				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		ACCTCGTTCTGACTGAGTTAC	0.408													34	46	---	---	---	---	PASS	C	128540114	C	C	128540114	4	2	40	1	0	0	0	0	0	1	0	0	12805	1294	45	2	3623	2	PTPRK	6	128540114	Nonsense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	87529289	128540114	42574953	42	15550										
NFE2L3	9603	broad.mit.edu	37	chr7	26225048	26225048	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tctgacagacctacaagtctCacttatccgtgacatcagac	6	13	3	4			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr7:26225048C>T	uc003sxq.2	+	4	2002	c.1730C>T	c.(1729-1731)TCA>TTA	p.S577L		NM_004289	NP_004280	Q9Y4A8	NF2L3_HUMAN	nuclear factor erythroid 2-like 3	577					transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			skin(3)|ovary(1)	4						CTACAAGTCTCACTTATCCGT	0.373													15	42	---	---	---	---	PASS	T	26225048	T	T	26225048	3	4	40	1	0	0	0	0	1	0	0	0	10369	838	29	2	1744	2	NFE2L3	7	26225048	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08		26225048	132913615	43	15551										
NT5C3	51251	broad.mit.edu	37	chr7	33059302	33059302	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	aagtttagcttttggtaaagCttgctgaacaagcaaaccat	8	7	0	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr7:33059302C>A	uc003tdk.2	-	6	567	c.490G>T	c.(490-492)GCT>TCT	p.A164S	AVL9_uc011kai.1_Intron|NT5C3_uc003tdi.2_Missense_Mutation_p.A125S|NT5C3_uc003tdj.2_Missense_Mutation_p.A125S	NM_001002010	NP_001002010	Q9H0P0	5NT3_HUMAN	5'-nucleotidase, cytosolic III isoform 1	164					nucleotide metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol|endoplasmic reticulum	2'-phosphotransferase activity|5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1			GBM - Glioblastoma multiforme(11;0.0894)			TTTGGTAAAGCTTGCTGAACA	0.313													4	108	---	---	---	---	PASS	A	33059302	A	A	33059302	3	1	40	1	0	0	0	0	1	0	0	0	10688	797	28	3	536	3	NT5C3	7	33059302	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	6834254	33059302	126079361	44	15552										
AGAP3	116988	broad.mit.edu	37	chr7	150840549	150840549	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ccgtggtggaagatgacctgCggctgttggtgatgctcctg	16	9	0	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr7:150840549C>A	uc003wjg.1	+	17	2398	c.2395C>A	c.(2395-2397)CGG>AGG	p.R799R	AGAP3_uc003wje.1_Silent_p.R468R|AGAP3_uc003wjj.1_Silent_p.R298R|AGAP3_uc003wjk.1_Silent_p.R217R	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	763	ANK 1.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3						AGATGACCTGCGGCTGTTGGT	0.612													4	68	---	---	---	---	PASS	A	150840549	A	A	150840549	2	1	40	1	0	0	0	0	0	0	0	1	369	759	27	1		1	AGAP3	7	150840549	Silent	SNP	C	TCGA-22-4607-01A-01D-1267-08	117781247	150840549	8298114	45	15553										
CYC1	1537	broad.mit.edu	37	chr8	145150845	145150845	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gctggccatggctctgcattCggctgtgagtgccagtgacc	14	12	1	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr8:145150845C>A	uc003zaz.3	+	2	282	c.239C>A	c.(238-240)TCG>TAG	p.S80*	CYC1_uc003zay.2_Nonsense_Mutation_p.S21*	NM_001916	NP_001907	P08574	CY1_HUMAN	cytochrome c-1	80					respiratory electron transport chain|transport	cell junction|integral to membrane|mitochondrial inner membrane|respiratory chain	electron transporter, transferring electrons from CoQH2-cytochrome c reductase complex and cytochrome c oxidase complex activity|heme binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;8.71e-40)|all cancers(56;3e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCTCTGCATTCGGCTGTGAGT	0.652											OREG0019052	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	88	---	---	---	---	PASS	A	145150845	A	A	145150845	4	1	40	1	0	0	0	0	0	1	0	0	4135	893	31	2	245	2	CYC1	8	145150845	Nonsense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08		145150845	1213177	46	15554										
RPL8	6132	broad.mit.edu	37	chr8	146017203	146017203	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gcccgtgtgaatgccctcggCggcaatgaacagctccgtcc	12	15	0	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr8:146017203C>A	uc003zeb.2	-	3	346	c.235G>T	c.(235-237)GCC>TCC	p.A79S	RPL8_uc003zdz.2_RNA|RPL8_uc003zea.2_Intron|RPL8_uc003zec.2_Missense_Mutation_p.A79S|RPL8_uc010mgc.2_Missense_Mutation_p.A79S	NM_033301	NP_150644	P62917	RL8_HUMAN	ribosomal protein L8	79					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	rRNA binding|structural constituent of ribosome				0	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;5.47e-39)|OV - Ovarian serous cystadenocarcinoma(54;6.38e-39)|all cancers(56;5.47e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.191)		ATGCCCTCGGCGGCAATGAAC	0.642													4	195	---	---	---	---	PASS	A	146017203	A	A	146017203	3	1	40	1	0	0	0	0	1	0	0	0	13602	768	27	1	554	1	RPL8	8	146017203	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	866358	146017203	346819	47	15555										
SLC34A3	142680	broad.mit.edu	37	chr9	140130450	140130450	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	cctggccggcatcctgctgtGgtacctggtgcctgcactgc	13	15	0	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr9:140130450G>T	uc004cmf.1	+	13	1568	c.1382G>T	c.(1381-1383)TGG>TTG	p.W461L	SLC34A3_uc011met.1_Missense_Mutation_p.W461L	NM_080877	NP_543153	Q8N130	NPT2C_HUMAN	solute carrier family 34 (sodium phosphate),	461	Helical; Name=M6; (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|integral to membrane	sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		ATCCTGCTGTGGTACCTGGTG	0.692											OREG0019630	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	105	---	---	---	---	PASS	T	140130450	T	T	140130450	3	4	40	1	0	0	0	0	1	0	0	0	14569	1357	47	3	1428	3	SLC34A3	9	140130450	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08		140130450	1082981	48	15556										
AKR1C4	1109	broad.mit.edu	37	chr10	5242169	5242169	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gaggaacagagctgtagaggTcaccaaattagcaatagaag	12	6	1	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr10:5242169T>A	uc001ihw.2	+	2	143	c.110T>A	c.(109-111)GTC>GAC	p.V37D		NM_001818	NP_001809	P17516	AK1C4_HUMAN	aldo-keto reductase family 1, member C4	37					androgen metabolic process|bile acid biosynthetic process	cytosol	aldo-keto reductase (NADP) activity|androsterone dehydrogenase (B-specific) activity|bile acid transmembrane transporter activity|chlordecone reductase activity|electron carrier activity			ovary(1)	1					NADH(DB00157)	GCTGTAGAGGTCACCAAATTA	0.398													5	82	---	---	---	---	PASS	A	5242169	A	A	5242169	3	1	40	1	0	0	0	0	1	0	0	0	472	1667	58	5	116	5	AKR1C4	10	5242169	Missense_Mutation	SNP	T	TCGA-22-4607-01A-01D-1267-08		5242169	130292578	49	15557										
CUBN	8029	broad.mit.edu	37	chr10	16982213	16982213	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	caaaatctctgctgcagtccTgagagtcttccaactggaaa	8	11	2	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr10:16982213T>A	uc001ioo.2	-	37	5418	c.5366A>T	c.(5365-5367)CAG>CTG	p.Q1789L		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1789	CUB 12.				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)	GCTGCAGTCCTGAGAGTCTTC	0.438													4	195	---	---	---	---	PASS	A	16982213	A	A	16982213	3	1	40	1	0	0	0	0	1	0	0	0	4051	1580	55	5	5629	5	CUBN	10	16982213	Missense_Mutation	SNP	T	TCGA-22-4607-01A-01D-1267-08	11740044	16982213	118552534	50	15558										
CACNB2	783	broad.mit.edu	37	chr10	18823121	18823121	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tcagtaaaacctccttggccCctattatagtatatgtaaag	6	9	1	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr10:18823121C>T	uc001ipr.2	+	11	1231	c.1171C>T	c.(1171-1173)CCT>TCT	p.P391S	CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Missense_Mutation_p.P367S|CACNB2_uc001ipt.2_Missense_Mutation_p.P353S|CACNB2_uc001ipu.2_Missense_Mutation_p.P363S|CACNB2_uc001ipv.2_Missense_Mutation_p.P339S|CACNB2_uc009xka.1_Missense_Mutation_p.P325S|CACNB2_uc001ipw.2_Missense_Mutation_p.P298S|CACNB2_uc001ipx.2_Missense_Mutation_p.P336S|CACNB2_uc001ipz.2_Missense_Mutation_p.P313S|CACNB2_uc001ipy.2_Missense_Mutation_p.P337S|CACNB2_uc010qco.1_Missense_Mutation_p.P305S|CACNB2_uc001iqa.2_Missense_Mutation_p.P343S|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	391					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	CTCCTTGGCCCCTATTATAGT	0.368													35	121	---	---	---	---	PASS	T	18823121	T	T	18823121	3	4	40	1	0	0	0	0	1	0	0	0	2553	623	22	3	1523	3	CACNB2	10	18823121	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	1840908	18823121	116711626	51	15559										
GPAM	57678	broad.mit.edu	37	chr10	113928283	113928283	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	cgaagtaattcaactatatgCtgggatataagaagaaagta	9	4	1	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr10:113928283C>A	uc009xxy.1	-	11	1093	c.895_splice	c.e11-1	p.H299_splice	GPAM_uc001kzp.2_Splice_Site_p.H299_splice|GPAM_uc001kzq.1_Splice_Site_p.H299_splice	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate						phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		CAACTATATGCTGGGATATAA	0.373													13	35	---	---	---	---	PASS	A	113928283	A	A	113928283	5	1	40	1	0	0	0	0	0	0	1	0	6588	811	28	3	1640	3	GPAM	10	113928283	Splice_Site	SNP	C	TCGA-22-4607-01A-01D-1267-08	95105162	113928283	21606464	52	15560										
TRUB1	142940	broad.mit.edu	37	chr10	116732013	116732013	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tatctcccttcaaaaattccAgccaccatttttcacattag	2	13	3	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr10:116732013A>G	uc001lcd.2	+	6	777	c.716A>G	c.(715-717)CAG>CGG	p.Q239R	TRUB1_uc010qsl.1_Missense_Mutation_p.Q141R	NM_139169	NP_631908	Q8WWH5	TRUB1_HUMAN	TruB pseudouridine (psi) synthase homolog 1	239					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding				0		Colorectal(252;0.09)|Breast(234;0.174)|Lung NSC(174;0.245)		Epithelial(162;0.00879)|all cancers(201;0.0243)		CAAAAATTCCAGCCACCATTT	0.353													3	48	---	---	---	---	PASS	G	116732013	G	G	116732013	3	3	40	1	0	0	0	0	1	0	0	0	16599	188	7	5	738	5	TRUB1	10	116732013	Missense_Mutation	SNP	A	TCGA-22-4607-01A-01D-1267-08	2803730	116732013	18802734	53	15561										
KCNJ11	3767	broad.mit.edu	37	chr11	17409221	17409221	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gatggccagtgggcactcctCagtcaccatgcgccccccaa	10	17	2	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr11:17409221C>T	uc001mna.2	-	1	986	c.418G>A	c.(418-420)GAG>AAG	p.E140K	KCNJ11_uc001mnb.3_Missense_Mutation_p.E53K	NM_000525	NP_000516	B4DWI4	B4DWI4_HUMAN	potassium inwardly-rectifying channel J11	140						integral to membrane	ATP-activated inward rectifier potassium channel activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0276)|Colorectal(2;0.0633)		GGGCACTCCTCAGTCACCATG	0.552											OREG0020810	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	40	---	---	---	---	PASS	T	17409221	T	T	17409221	3	4	40	1	0	0	0	0	1	0	0	0	8045	835	29	2	758	2	KCNJ11	11	17409221	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08		17409221	117597295	54	15562										
MAPK8IP1	9479	broad.mit.edu	37	chr11	45924235	45924235	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	cctgccgcccactgagagccGgatgtcagtcagctccgatc	11	16	2	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr11:45924235G>T	uc001nbr.2	+	5	1087	c.917G>T	c.(916-918)CGG>CTG	p.R306L		NM_005456	NP_005447	Q9UQF2	JIP1_HUMAN	mitogen-activated protein kinase 8 interacting	306					vesicle-mediated transport	nucleus|perinuclear region of cytoplasm	kinesin binding|MAP-kinase scaffold activity|protein kinase inhibitor activity			ovary(2)|breast(1)|skin(1)	4				GBM - Glioblastoma multiforme(35;0.231)		ACTGAGAGCCGGATGTCAGTC	0.667													13	37	---	---	---	---	PASS	T	45924235	T	T	45924235	3	4	40	1	0	0	0	0	1	0	0	0	9284	1116	39	1	935	1	MAPK8IP1	11	45924235	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	28515014	45924235	89082281	55	15563										
OR5L1	219437	broad.mit.edu	37	chr11	55579660	55579660	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gcaggcacaaagccttctccAcctgtgcttcccacctcaca	6	18	2	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr11:55579660A>T	uc001nhw.1	+	1	718	c.718A>T	c.(718-720)ACC>TCC	p.T240S		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	240	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				AGCCTTCTCCACCTGTGCTTC	0.502													29	74	---	---	---	---	PASS	T	55579660	T	T	55579660	3	4	40	1	0	0	0	0	1	0	0	0	11170	159	6	5	720	5	OR5L1	11	55579660	Missense_Mutation	SNP	A	TCGA-22-4607-01A-01D-1267-08	9655425	55579660	79426856	56	15564										
LGALS12	85329	broad.mit.edu	37	chr11	63278578	63278578	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tgctgatgagccccaggctgGtgagtgaacctccctcctgc	12	14	0	4			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr11:63278578G>C	uc001nxa.2	+	6	965	c.624_splice	c.e6+1	p.L208_splice	LGALS12_uc001nxb.2_Intron|LGALS12_uc001nxc.2_Splice_Site_p.L209_splice|LGALS12_uc001nxd.2_Splice_Site_p.L147_splice|LGALS12_uc001nxe.2_Intron|LGALS12_uc009yot.2_Splice_Site_p.L168_splice	NM_033101	NP_149092	Q96DT0	LEG12_HUMAN	lectin, galactoside-binding, soluble, 12 isoform						apoptosis|induction of apoptosis by intracellular signals	nucleus	lactose binding			ovary(2)	2						CCCCAGGCTGGTGAGTGAACC	0.557													8	78	---	---	---	---	PASS	C	63278578	C	C	63278578	5	2	40	1	0	0	0	0	0	0	1	0	8739	1275	44	4	650	4	LGALS12	11	63278578	Splice_Site	SNP	G	TCGA-22-4607-01A-01D-1267-08	7698918	63278578	71727938	57	15565										
MEN1	4221	broad.mit.edu	37	chr11	64572634	64572634	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	cagcaggtgggcgaagcactCagggtcctggagggcggaac	18	10	1	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr11:64572634C>G	uc001obj.2	-	9	1310	c.1237G>C	c.(1237-1239)GAG>CAG	p.E413Q	MAP4K2_uc001obh.2_5'Flank|MAP4K2_uc001obi.2_5'Flank|MAP4K2_uc010rnp.1_5'Flank|MEN1_uc001obk.2_Missense_Mutation_p.E413Q|MEN1_uc001obl.2_Missense_Mutation_p.E373Q|MEN1_uc001obm.2_Missense_Mutation_p.E408Q|MEN1_uc001obn.2_Missense_Mutation_p.E413Q|MEN1_uc001obo.2_Missense_Mutation_p.E413Q|MEN1_uc001obp.2_Missense_Mutation_p.E408Q|MEN1_uc001obq.2_Missense_Mutation_p.E413Q|MEN1_uc001obr.2_Missense_Mutation_p.E413Q	NM_130800	NP_570712	O00255	MEN1_HUMAN	menin isoform 1	413					DNA repair|histone lysine methylation|MAPKKK cascade|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of JNK cascade|negative regulation of osteoblast differentiation|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of telomerase activity|negative regulation of transcription from RNA polymerase II promoter|osteoblast development|positive regulation of protein binding|positive regulation of transforming growth factor beta receptor signaling pathway|response to gamma radiation|response to UV|transcription, DNA-dependent	chromatin|cleavage furrow|cytosol|histone methyltransferase complex|nuclear matrix|soluble fraction	double-stranded DNA binding|four-way junction DNA binding|protein binding, bridging|protein N-terminus binding|R-SMAD binding|transcription regulatory region DNA binding|Y-form DNA binding			parathyroid(105)|pancreas(64)|gastrointestinal_tract_(site_indeterminate)(15)|small_intestine(13)|lung(9)|pituitary(7)|NS(7)|adrenal_gland(5)|soft_tissue(4)|central_nervous_system(4)|thymus(2)|stomach(1)|retroperitoneum(1)|skin(1)	238						GCGAAGCACTCAGGGTCCTGG	0.627			D|Mis|N|F|S		parathyroid tumors|Pancreatic neuroendocrine tumors	parathyroid adenoma|pituitary adenoma|pancreatic islet cell|carcinoid			Hyperparathyroidism_Familial_Isolated|Multiple_Endocrine_Neoplasia_type_1				16	97	---	---	---	---	PASS	G	64572634	G	G	64572634	3	3	40	1	0	0	0	0	1	0	0	0	9472	835	29	2	618	2	MEN1	11	64572634	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	1294056	64572634	70433882	58	15566										
RPS6KB2	6199	broad.mit.edu	37	chr11	67201893	67201893	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ttgatacccgcttcacacggCagacgccggtggacagtcct	11	14	1	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr11:67201893C>T	uc001old.2	+	13	1175	c.1093C>T	c.(1093-1095)CAG>TAG	p.Q365*	RPS6KB2_uc001olf.2_Nonsense_Mutation_p.Q165*|RPS6KB2_uc001olg.2_Nonsense_Mutation_p.Q365*|RPS6KB2_uc009yrq.2_Nonsense_Mutation_p.Q165*|RPS6KB2_uc001ole.2_RNA|RPS6KB2_uc001olh.2_RNA|RPS6KB2_uc009yrr.2_Nonsense_Mutation_p.Q196*	NM_003952	NP_003943	Q9UBS0	KS6B2_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	365	AGC-kinase C-terminal.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of translational initiation|translation	nucleoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|stomach(1)|lung(1)|salivary_gland(1)	7			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			CTTCACACGGCAGACGCCGGT	0.647													35	72	---	---	---	---	PASS	T	67201893	T	T	67201893	4	4	40	1	0	0	0	0	0	1	0	0	13657	711	25	3	1143	3	RPS6KB2	11	67201893	Nonsense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	2629259	67201893	67804623	59	15567										
NPAT	4863	broad.mit.edu	37	chr11	108043367	108043367	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tttaactagttctgcattttTagtaggtgatttagtaggag	10	3	1	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr11:108043367T>C	uc001pjz.3	-	13	2446	c.2344A>G	c.(2344-2346)AAA>GAA	p.K782E	NPAT_uc010rvv.1_5'Flank|NPAT_uc001pka.2_Missense_Mutation_p.K577E	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	782					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		TCTGCATTTTTAGTAGGTGAT	0.378													28	56	---	---	---	---	PASS	C	108043367	C	C	108043367	3	2	40	1	0	0	0	0	1	0	0	0	10566	1763	61	5	1963	5	NPAT	11	108043367	Missense_Mutation	SNP	T	TCGA-22-4607-01A-01D-1267-08	40841474	108043367	26963149	60	15568										
ZW10	9183	broad.mit.edu	37	chr11	113608372	113608372	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	atagccttgcaatatatattCactggcaggacatcctgcca	7	11	1	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr11:113608372C>T	uc001poe.2	-	14	1975	c.1938G>A	c.(1936-1938)GTG>GTA	p.V646V	ZW10_uc009yyv.2_RNA	NM_004724	NP_004715	O43264	ZW10_HUMAN	centromere/kinetochore protein zw10	646					cell division|ER to Golgi vesicle-mediated transport|establishment of mitotic spindle orientation|meiosis|mitotic cell cycle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|protein complex assembly|protein localization to kinetochore|protein transport|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|endoplasmic reticulum membrane|kinetochore microtubule|nucleus|spindle pole	centromeric DNA binding|protein binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.84e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000237)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.94e-06)|Epithelial(105;0.000103)|all cancers(92;0.000786)		AATATATATTCACTGGCAGGA	0.418													14	98	---	---	---	---	PASS	T	113608372	T	T	113608372	2	4	40	1	0	0	0	0	0	0	0	1	18244	813	29	2		2	ZW10	11	113608372	Silent	SNP	C	TCGA-22-4607-01A-01D-1267-08	5565005	113608372	21398144	61	15569										
ERC1	23085	broad.mit.edu	37	chr12	1192740	1192740	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gaaaaagagaacagtatgttGagagaggtatgtgactactt	12	3	0	4			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr12:1192740G>A	uc001qjb.2	+	3	1321	c.1080G>A	c.(1078-1080)TTG>TTA	p.L360L	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Silent_p.L360L|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_Intron|ERC1_uc001qjf.2_Silent_p.L360L|ERC1_uc010sdv.1_Silent_p.L136L	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	360	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			ACAGTATGTTGAGAGAGGTAT	0.413													7	128	---	---	---	---	PASS	A	1192740	A	A	1192740	2	1	40	1	0	0	0	0	0	0	0	1	5210	1281	45	2		2	ERC1	12	1192740	Silent	SNP	G	TCGA-22-4607-01A-01D-1267-08		1192740	132659155	62	15570										
TMTC1	83857	broad.mit.edu	37	chr12	29669355	29669355	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	caaggcatccggtctcctctGacacaatgtgattggtcatc	9	12	3	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr12:29669355G>A	uc001rjb.2	-	15	2384	c.1910C>T	c.(1909-1911)TCA>TTA	p.S637L	TMTC1_uc001riz.2_Missense_Mutation_p.S394L|TMTC1_uc001rja.2_Missense_Mutation_p.S481L|TMTC1_uc001riy.2_Missense_Mutation_p.S90L	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	745						integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					GGTCTCCTCTGACACAATGTG	0.468													4	79	---	---	---	---	PASS	A	29669355	A	A	29669355	3	1	40	1	0	0	0	0	1	0	0	0	16257	1294	45	2	430	2	TMTC1	12	29669355	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	28476615	29669355	104182540	63	15571										
TUBA1C	84790	broad.mit.edu	37	chr12	49666490	49666490	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	cacatatgcccctgtcatctCtgctgagaaagcctaccacg	7	15	2	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr12:49666490C>G	uc001rtt.1	+	4	930	c.830C>G	c.(829-831)TCT>TGT	p.S277C	TUBA1C_uc001rts.2_Missense_Mutation_p.S242C|TUBA1C_uc010smh.1_Missense_Mutation_p.S347C|uc010smi.1_Missense_Mutation_p.R33T	NM_032704	NP_116093	Q9BQE3	TBA1C_HUMAN	tubulin alpha 6	277					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0						CCTGTCATCTCTGCTGAGAAA	0.532													5	202	---	---	---	---	PASS	G	49666490	G	G	49666490	3	3	40	1	0	0	0	0	1	0	0	0	16742	913	32	2	844	2	TUBA1C	12	49666490	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	19997135	49666490	84185405	64	15572										
TMEM132D	121256	broad.mit.edu	37	chr12	129822298	129822298	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	cgtgaccagctgtgtggctgGcaggtcaccaggctcttcca	13	13	2	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr12:129822298G>A	uc009zyl.1	-	4	1508	c.1180C>T	c.(1180-1182)CCA>TCA	p.P394S		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	394	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TGTGTGGCTGGCAGGTCACCA	0.572													5	332	---	---	---	---	PASS	A	129822298	A	A	129822298	3	1	40	1	0	0	0	0	1	0	0	0	16044	1203	42	3	2143	3	TMEM132D	12	129822298	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	80155808	129822298	4029597	65	15573										
RB1	5925	broad.mit.edu	37	chr13	48881488	48881489	+	Frame_Shift_Ins	INS	-	AG	AG													0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	taaagataccagatcatgtcINSagagagagagcttggttaac							TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr13:48881488_48881489insAG	uc001vcb.2	+	2	376_377	c.210_211insAG	c.(208-213)GTCAGAfs	p.V70fs	RB1_uc010acs.1_Intron	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	70_71					androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.0?(13)|p.?(3)|p.V70fs*39(1)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CAGATCATGTCAGAGAGAGAGC	0.302		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			65	33	---	---	---	---		AG	48881489	AG	AG	48881488	7	5	40	1	0	1	1	0	0	0	0	0	13098	813	29	0	216	0	RB1	13	48881488	Frame_Shift_Ins	INS	-	TCGA-22-4607-01A-01D-1267-08		48881488	66288390	66	15574										
SLITRK1	114798	broad.mit.edu	37	chr13	84454188	84454188	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gcgaacacgtccacaggcagGgacctcagcaggttgttgtt	13	11	1	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr13:84454188G>A	uc001vlk.2	-	1	2341	c.1455C>T	c.(1453-1455)TCC>TCT	p.S485S		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	485	Extracellular (Potential).|LRR 11.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CCACAGGCAGGGACCTCAGCA	0.542													27	50	---	---	---	---	PASS	A	84454188	A	A	84454188	2	1	40	1	0	0	0	0	0	0	0	1	14742	1219	43	3		3	SLITRK1	13	84454188	Silent	SNP	G	TCGA-22-4607-01A-01D-1267-08	35572700	84454188	30715690	67	15575										
OR4K1	79544	broad.mit.edu	37	chr14	20403949	20403949	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	atgtgacatcagtgctaggcAatgtcttaattattgtcatt	8	6	3	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr14:20403949A>T	uc001vwj.1	+	1	124	c.124A>T	c.(124-126)AAT>TAT	p.N42Y		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	42	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		AGTGCTAGGCAATGTCTTAAT	0.363													87	166	---	---	---	---	PASS	T	20403949	T	T	20403949	3	4	40	1	0	0	0	0	1	0	0	0	11067	130	5	5	126	5	OR4K1	14	20403949	Missense_Mutation	SNP	A	TCGA-22-4607-01A-01D-1267-08		20403949	86945591	68	15576										
MAP3K9	4293	broad.mit.edu	37	chr14	71197217	71197217	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gcatccaggtccaggagcgtCcgctcagtcgggggcagcgg	17	13	1	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr14:71197217C>T	uc001xmm.2	-	12	3195	c.3195G>A	c.(3193-3195)CGG>CGA	p.R1065R	MAP3K9_uc010ttk.1_Silent_p.R793R|MAP3K9_uc001xmk.2_Silent_p.R798R|MAP3K9_uc001xml.2_Silent_p.R1079R	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	1065					activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		CCAGGAGCGTCCGCTCAGTCG	0.642													4	89	---	---	---	---	PASS	T	71197217	T	T	71197217	2	4	40	1	0	0	0	0	0	0	0	1	9257	842	30	2		2	MAP3K9	14	71197217	Silent	SNP	C	TCGA-22-4607-01A-01D-1267-08	50793268	71197217	36152323	69	15577										
HEATR4	399671	broad.mit.edu	37	chr14	73974852	73974852	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	acatactgtcttctcactcaGatagctcaggaggatataag	8	9	4	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr14:73974852G>C	uc010tub.1	-	9	2189	c.1867C>G	c.(1867-1869)CTG>GTG	p.L623V	HEATR4_uc010tua.1_Missense_Mutation_p.L576V	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		TTCTCACTCAGATAGCTCAGG	0.448													3	140	---	---	---	---	PASS	C	73974852	C	C	73974852	3	2	40	1	0	0	0	0	1	0	0	0	7030	933	33	2	1253	2	HEATR4	14	73974852	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	2777635	73974852	33374688	70	15578										
SLC12A6	9990	broad.mit.edu	37	chr15	34548481	34548481	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	catggagatagcagtcaacaTtgtctgcagagaaaaggaaa	11	6	2	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr15:34548481T>C	uc001zhw.2	-	6	858	c.694A>G	c.(694-696)ATG>GTG	p.M232V	SLC12A6_uc001zhv.2_Missense_Mutation_p.M181V|SLC12A6_uc001zhx.2_Missense_Mutation_p.M217V|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.M173V|SLC12A6_uc001zib.2_Missense_Mutation_p.M223V|SLC12A6_uc001zic.2_Missense_Mutation_p.M232V|SLC12A6_uc010bau.2_Missense_Mutation_p.M232V|SLC12A6_uc001zid.2_Missense_Mutation_p.M173V|SLC12A6_uc001zhu.2_Missense_Mutation_p.M44V	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	232	Cytoplasmic (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	GCAGTCAACATTGTCTGCAGA	0.413													15	31	---	---	---	---	PASS	C	34548481	C	C	34548481	3	2	40	1	0	0	0	0	1	0	0	0	14387	1493	52	5	2838	5	SLC12A6	15	34548481	Missense_Mutation	SNP	T	TCGA-22-4607-01A-01D-1267-08		34548481	67982911	71	15579										
SEMA7A	8482	broad.mit.edu	37	chr15	74703219	74703219	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	aggttcgcagctctgctccaCgttctccttgtggcgccatg	11	14	2	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr15:74703219C>T	uc002axv.2	-	14	1787	c.1747G>A	c.(1747-1749)GTG>ATG	p.V583M	SEMA7A_uc010ulk.1_Missense_Mutation_p.V418M|SEMA7A_uc010ull.1_Missense_Mutation_p.V569M	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	583	Ig-like C2-type.				axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						CTCTGCTCCACGTTCTCCTTG	0.612													62	155	---	---	---	---	PASS	T	74703219	T	T	74703219	3	4	40	1	0	0	0	0	1	0	0	0	14043	536	19	1	257	1	SEMA7A	15	74703219	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	40154738	74703219	27828173	72	15580										
PDIA2	64714	broad.mit.edu	37	chr16	335012	335012	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gacactgtggttctcttcaaGaaggtaggtcaggcccaggt	13	9	3	1	rs45591741	by1000genomes	TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr16:335012G>A	uc002cgn.1	+	9	1783	c.675G>A	c.(673-675)AAG>AAA	p.K225K	PDIA2_uc010bqt.1_Silent_p.K70K|PDIA2_uc002cgo.1_Silent_p.K225K	NM_006849	NP_006840	Q13087	PDIA2_HUMAN	protein disulfide isomerase A2 precursor	225					apoptosis|cell redox homeostasis|glycerol ether metabolic process|protein folding|protein retention in ER lumen|response to hypoxia	endoplasmic reticulum lumen	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity|steroid binding			central_nervous_system(1)|skin(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				TTCTCTTCAAGAAGGTAGGTC	0.632													4	124	---	---	---	---	PASS	A	335012	A	A	335012	2	1	40	1	0	0	0	0	0	0	0	1	11668	933	33	2		2	PDIA2	16	335012	Silent	SNP	G	TCGA-22-4607-01A-01D-1267-08		335012	90019741	73	15581										
SMPD3	55512	broad.mit.edu	37	chr16	68398801	68398801	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	cagctgcccacaccggatggCgctgtcctctgcagggcaga	13	15	1	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr16:68398801C>A	uc002ewa.2	-	5	1830	c.1408G>T	c.(1408-1410)GCC>TCC	p.A470S	SMPD3_uc010cfe.2_Missense_Mutation_p.A470S|SMPD3_uc010vlh.1_Missense_Mutation_p.A470S	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	470	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	CACCGGATGGCGCTGTCCTCT	0.597													12	31	---	---	---	---	PASS	A	68398801	A	A	68398801	3	1	40	1	0	0	0	0	1	0	0	0	14806	768	27	1	579	1	SMPD3	16	68398801	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	68063789	68398801	21955952	74	15582										
LDHD	197257	broad.mit.edu	37	chr16	75149555	75149555	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tacgaagtccctgcagagctCtccctgcagggaagaaacac	10	13	1	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr16:75149555C>G	uc002fdm.2	-	2	123	c.76G>C	c.(76-78)GAG>CAG	p.E26Q	LDHD_uc002fdn.2_Missense_Mutation_p.E26Q	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	26							D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						CTGCAGAGCTCTCCCTGCAGG	0.687													3	25	---	---	---	---	PASS	G	75149555	G	G	75149555	3	3	40	1	0	0	0	0	1	0	0	0	8703	922	32	2	1487	2	LDHD	16	75149555	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	6750754	75149555	15205198	75	15583										
CHST5	23563	broad.mit.edu	37	chr16	75563756	75563756	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ccaggctgaatggctgccgcGtgcacagtgtcttgcatacg	13	12	1	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr16:75563756G>A	uc002fei.2	-	3	1922	c.527C>T	c.(526-528)ACG>ATG	p.T176M	CHST5_uc002fej.1_Missense_Mutation_p.T182M	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	176	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						TGGCTGCCGCGTGCACAGTGT	0.662													40	244	---	---	---	---	PASS	A	75563756	A	A	75563756	3	1	40	1	0	0	0	0	1	0	0	0	3407	1145	40	1	712	1	CHST5	16	75563756	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	414201	75563756	14790997	76	15584										
SPG7	6687	broad.mit.edu	37	chr16	89623473	89623473	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gacccagcagcctccacttgGaggcgaagagccgacttggc	13	14	0	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr16:89623473G>A	uc002fnj.2	+	17	2381	c.2360G>A	c.(2359-2361)GGA>GAA	p.G787E	SPG7_uc002fnl.2_Missense_Mutation_p.G196E	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1	787	Mitochondrial matrix (Potential).				cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		CCTCCACTTGGAGGCGAAGAG	0.607											OREG0024053	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	61	---	---	---	---	PASS	A	89623473	A	A	89623473	3	1	40	1	0	0	0	0	1	0	0	0	15043	1174	41	2	2576	2	SPG7	16	89623473	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	14059717	89623473	731280	77	15585										
SERPINF2	5345	broad.mit.edu	37	chr17	1650617	1650617	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gtgcaggatttcccatcaaaGaagatttcctggaacaatcc	8	10	1	2	rs121965061		TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr17:1650617G>C	uc002ftk.1	+	7	603	c.526G>C	c.(526-528)GAA>CAA	p.E176Q	SERPINF2_uc010vqr.1_Missense_Mutation_p.E112Q	NM_000934	NP_000925	P08697	A2AP_HUMAN	alpha-2-antiplasmin isoform a precursor	176			Missing (in APLID; variant Okinawa; probably blocks intracellular transport of alpha-2-plasmin inhibitor).		acute-phase response|fibrinolysis|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)	Streptokinase(DB00086)	TCCCATCAAAGAAGATTTCCT	0.567													16	19	---	---	---	---	PASS	C	1650617	C	C	1650617	3	2	40	1	0	0	0	0	1	0	0	0	14115	943	33	2	558	2	SERPINF2	17	1650617	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08		1650617	79544593	78	15586										
TP53	7157	broad.mit.edu	37	chr17	7578403	7578403	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	agcagcgctcatggtgggggCagcgcctcacaacctccgtc	13	15	2	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr17:7578403C>A	uc002gim.2	-	5	721	c.527G>T	c.(526-528)TGC>TTC	p.C176F	TP53_uc002gig.1_Missense_Mutation_p.C176F|TP53_uc002gih.2_Missense_Mutation_p.C176F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C44F|TP53_uc010cng.1_Missense_Mutation_p.C44F|TP53_uc002gii.1_Missense_Mutation_p.C44F|TP53_uc010cnh.1_Missense_Mutation_p.C176F|TP53_uc010cni.1_Missense_Mutation_p.C176F|TP53_uc002gij.2_Missense_Mutation_p.C176F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C83F|TP53_uc002gio.2_Missense_Mutation_p.C44F|TP53_uc010vug.1_Missense_Mutation_p.C137F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	176	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	CP -> FS (in a sporadic cancer; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in sporadic cancers; somatic mutation).|C -> F (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C176F(102)|p.C176Y(56)|p.C176S(19)|p.C176W(11)|p.C176R(8)|p.C176fs*71(7)|p.0?(7)|p.C176*(6)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.C176G(3)|p.C176fs*5(3)|p.R175_E180delRCPHHE(3)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.C176fs*65(1)|p.C176_P177delCP(1)|p.V173fs*69(1)|p.C176fs*68(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R174_H178>S(1)|p.C44Y(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R42fs*24(1)|p.C83Y(1)|p.C176fs*72(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R174fs*70(1)|p.C176del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.C176fs*6(1)|p.R174fs*3(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)		ATGGTGGGGGCAGCGCCTCAC	0.652		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)			26	30	---	---	---	---	PASS	A	7578403	A	A	7578403	3	1	40	1	0	0	0	0	1	0	0	0	16378	710	25	3	771	3	TP53	17	7578403	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	5927786	7578403	73616807	79	15587										
ITGB3	3690	broad.mit.edu	37	chr17	45367602	45367602	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ttggggttctgtccatggatTccagcaatgtcctccagctc	10	12	1	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr17:45367602T>A	uc002ilj.2	+	8	1107	c.1087T>A	c.(1087-1089)TCC>ACC	p.S363T	ITGB3_uc002ili.1_Missense_Mutation_p.S363T|ITGB3_uc010wkr.1_RNA	NM_000212	NP_000203	P05106	ITB3_HUMAN	integrin beta chain, beta 3 precursor	363	VWFA.|Extracellular (Potential).				activation of protein kinase activity|angiogenesis involved in wound healing|axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|platelet activation|platelet degranulation|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|regulation of bone resorption|smooth muscle cell migration|tube development	alphav-beta3 integrin-vitronectin complex|integrin complex|platelet alpha granule membrane	cell adhesion molecule binding|identical protein binding|platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			central_nervous_system(5)|large_intestine(1)	6					Abciximab(DB00054)|Tirofiban(DB00775)	GTCCATGGATTCCAGCAATGT	0.498													6	270	---	---	---	---	PASS	A	45367602	A	A	45367602	3	1	40	1	0	0	0	0	1	0	0	0	7895	1783	62	5	1117	5	ITGB3	17	45367602	Missense_Mutation	SNP	T	TCGA-22-4607-01A-01D-1267-08	37789199	45367602	35827608	80	15588										
CUEDC1	404093	broad.mit.edu	37	chr17	55951058	55951058	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gtctctggcttgtaggggctCcagagcccagcgcgtcgata	14	12	1	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr17:55951058C>G	uc002ivd.1	-	4	1204	c.485G>C	c.(484-486)GGA>GCA	p.G162A	CUEDC1_uc002ive.1_Missense_Mutation_p.G162A	NM_017949	NP_060419	Q9NWM3	CUED1_HUMAN	CUE domain-containing 1	162										skin(2)	2						TGTAGGGGCTCCAGAGCCCAG	0.612													3	115	---	---	---	---	PASS	G	55951058	G	G	55951058	3	3	40	1	0	0	0	0	1	0	0	0	4052	855	30	2	703	2	CUEDC1	17	55951058	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	10583456	55951058	25244152	81	15589										
BZRAP1	9256	broad.mit.edu	37	chr17	56386399	56386399	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gcggcttgggggcttctcagGggagccccctcctctcctcc	13	17	2	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr17:56386399G>C	uc002ivx.3	-	22	5105	c.4234C>G	c.(4234-4236)CCT>GCT	p.P1412A	BZRAP1_uc002ivw.2_5'Flank|BZRAP1_uc010dcs.2_Missense_Mutation_p.P1352A|BZRAP1_uc010wnt.1_Missense_Mutation_p.P1412A	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	1412						mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GGCTTCTCAGGGGAGCCCCCT	0.647													25	106	---	---	---	---	PASS	C	56386399	C	C	56386399	3	2	40	1	0	0	0	0	1	0	0	0	1577	1232	43	4	1379	4	BZRAP1	17	56386399	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	435341	56386399	24808811	82	15590										
MRC2	9902	broad.mit.edu	37	chr17	60749464	60749464	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ccactggcacccctttgagcCcaacaacttccgggacagtc	8	17	0	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr17:60749464C>G	uc002jad.2	+	8	1814	c.1412C>G	c.(1411-1413)CCC>CGC	p.P471R	MRC2_uc002jac.2_Missense_Mutation_p.P471R	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	471	Extracellular (Potential).|C-type lectin 2.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CCCTTTGAGCCCAACAACTTC	0.562													5	286	---	---	---	---	PASS	G	60749464	G	G	60749464	3	3	40	1	0	0	0	0	1	0	0	0	9758	623	22	4	1442	4	MRC2	17	60749464	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	4363065	60749464	20445746	83	15591										
KIAA0195	9772	broad.mit.edu	37	chr17	73492407	73492407	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	atcccgttgctcctgggagaCctttggctacgccaccagca	10	15	0	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr17:73492407C>T	uc002jnz.3	+	24	3373	c.3098C>T	c.(3097-3099)ACC>ATC	p.T1033I	KIAA0195_uc010wsa.1_Missense_Mutation_p.T1043I|KIAA0195_uc010wsb.1_Missense_Mutation_p.T673I|KIAA0195_uc002job.3_Missense_Mutation_p.T41I	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	1033					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			TCCTGGGAGACCTTTGGCTAC	0.627													22	148	---	---	---	---	PASS	T	73492407	T	T	73492407	3	4	40	1	0	0	0	0	1	0	0	0	8160	507	18	3	3188	3	KIAA0195	17	73492407	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	12742943	73492407	7702803	84	15592										
EMR1	2015	broad.mit.edu	37	chr19	6913673	6913673	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tttccttgcagaatacaactGagagctttgtccctgtgctt	8	10	0	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr19:6913673G>A	uc002mfw.2	+	11	1170	c.1132G>A	c.(1132-1134)GAG>AAG	p.E378K	EMR1_uc010dvc.2_Missense_Mutation_p.E378K|EMR1_uc010dvb.2_Missense_Mutation_p.E326K|EMR1_uc010xji.1_Missense_Mutation_p.E237K|EMR1_uc010xjj.1_Missense_Mutation_p.E201K	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	378	Ser/Thr-rich.|Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					GAATACAACTGAGAGCTTTGT	0.438													21	350	---	---	---	---	PASS	A	6913673	A	A	6913673	3	1	40	1	0	0	0	0	1	0	0	0	5104	1291	45	2	1174	2	EMR1	19	6913673	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08		6913673	52215310	85	15593										
EMR1	2015	broad.mit.edu	37	chr19	6919644	6919644	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	aaagaccaccaggctcccttGaccacctctgagatcaagct	7	15	2	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr19:6919644G>C	uc002mfw.2	+	13	1544	c.1506G>C	c.(1504-1506)TTG>TTC	p.L502F	EMR1_uc010dvc.2_Missense_Mutation_p.L502F|EMR1_uc010dvb.2_Missense_Mutation_p.L450F|EMR1_uc010xji.1_Missense_Mutation_p.L361F|EMR1_uc010xjj.1_Missense_Mutation_p.L325F	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	502	Ser/Thr-rich.|Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					AGGCTCCCTTGACCACCTCTG	0.493													48	846	---	---	---	---	PASS	C	6919644	C	C	6919644	3	2	40	1	0	0	0	0	1	0	0	0	5104	1281	45	2	1556	2	EMR1	19	6919644	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	5971	6919644	52209339	86	15594										
EMR1	2015	broad.mit.edu	37	chr19	6919665	6919665	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	accacctctgagatcaagctGaagatgaattctcgagtcgt	9	10	3	4			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr19:6919665G>T	uc002mfw.2	+	13	1565	c.1527G>T	c.(1525-1527)CTG>CTT	p.L509L	EMR1_uc010dvc.2_Silent_p.L509L|EMR1_uc010dvb.2_Silent_p.L457L|EMR1_uc010xji.1_Silent_p.L368L|EMR1_uc010xjj.1_Silent_p.L332L	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	509	Ser/Thr-rich.|Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					AGATCAAGCTGAAGATGAATT	0.478													46	833	---	---	---	---	PASS	T	6919665	T	T	6919665	2	4	40	1	0	0	0	0	0	0	0	1	5104	1277	45	2		2	EMR1	19	6919665	Silent	SNP	G	TCGA-22-4607-01A-01D-1267-08	21	6919665	52209318	87	15595										
MUC16	94025	broad.mit.edu	37	chr19	9019622	9019622	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ctgctggtgggcacagaggtCcgatgggtgaaacctgcata	15	9	0	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr19:9019622C>T	uc002mkp.2	-	22	37728	c.37524G>A	c.(37522-37524)CGG>CGA	p.R12508R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12510	Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCACAGAGGTCCGATGGGTGA	0.507													386	49	---	---	---	---	PASS	T	9019622	T	T	9019622	2	4	40	1	0	0	0	0	0	0	0	1	9973	842	30	2		2	MUC16	19	9019622	Silent	SNP	C	TCGA-22-4607-01A-01D-1267-08	2099957	9019622	50109361	88	15596										
MUC16	94025	broad.mit.edu	37	chr19	9057251	9057251	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	aaactggttccaggttctgtGcttgtgtctgtagtcttcac	10	9	4	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr19:9057251G>A	uc002mkp.2	-	3	30399	c.30195C>T	c.(30193-30195)AGC>AGT	p.S10065S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10067	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGGTTCTGTGCTTGTGTCTG	0.468													9	411	---	---	---	---	PASS	A	9057251	A	A	9057251	2	1	40	1	0	0	0	0	0	0	0	1	9973	1310	46	3		3	MUC16	19	9057251	Silent	SNP	G	TCGA-22-4607-01A-01D-1267-08	37629	9057251	50071732	89	15597										
ICAM3	3385	broad.mit.edu	37	chr19	10449393	10449393	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tagaggagcctgttatctgaGagccattgcagtacactgag	12	8	1	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr19:10449393G>C	uc002mob.2	-	2	363	c.308C>G	c.(307-309)TCT>TGT	p.S103C	ICAM3_uc010dxd.1_Missense_Mutation_p.S26C|ICAM3_uc010xlf.1_Missense_Mutation_p.S26C	NM_002162	NP_002153	P32942	ICAM3_HUMAN	intercellular adhesion molecule 3 precursor	103	Extracellular (Potential).|Ig-like C2-type 1.				cell-cell adhesion|regulation of immune response	integral to plasma membrane	integrin binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;6.13e-09)|Epithelial(33;9.69e-06)|all cancers(31;2.05e-05)			TGTTATCTGAGAGCCATTGCA	0.567													17	289	---	---	---	---	PASS	C	10449393	C	C	10449393	3	2	40	1	0	0	0	0	1	0	0	0	7481	942	33	2	1359	2	ICAM3	19	10449393	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	1392142	10449393	48679590	90	15598										
EMR3	84658	broad.mit.edu	37	chr19	14752416	14752416	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gtaggtgatgacagtcagcaCgggatcctcctcctgggacc	13	12	1	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr19:14752416C>A	uc002mzi.3	-	10	1211	c.1063G>T	c.(1063-1065)GTG>TTG	p.V355L	EMR3_uc010dzp.2_Missense_Mutation_p.V303L|EMR3_uc010xnv.1_Missense_Mutation_p.V229L	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	355	Extracellular (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						ACAGTCAGCACGGGATCCTCC	0.567													3	67	---	---	---	---	PASS	A	14752416	A	A	14752416	3	1	40	1	0	0	0	0	1	0	0	0	5106	536	19	1	923	1	EMR3	19	14752416	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	4303023	14752416	44376567	91	15599										
BIRC8	112401	broad.mit.edu	37	chr19	53793567	53793567	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tccagctcttgcaagctgctCtttgttaacggagtacatcc	8	12	2	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr19:53793567C>G	uc002qbk.2	-	1	1309	c.61G>C	c.(61-63)GAG>CAG	p.E21Q		NM_033341	NP_203127	Q96P09	BIRC8_HUMAN	baculoviral IAP repeat-containing 8	21	BIR.				apoptosis		zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(134;0.00304)		GCAAGCTGCTCTTTGTTAACG	0.453													41	84	---	---	---	---	PASS	G	53793567	G	G	53793567	3	3	40	1	0	0	0	0	1	0	0	0	1440	922	32	2	653	2	BIRC8	19	53793567	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	39041151	53793567	5335416	92	15600										
PEG3	5178	broad.mit.edu	37	chr19	57329195	57329195	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	ggagtggccatcgtcttcagCaagctgcactcctggtcaca	11	13	3	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr19:57329195C>T	uc002qnu.2	-	6	1132	c.781G>A	c.(781-783)GCT>ACT	p.A261T	ZIM2_uc010ygq.1_5'UTR|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Intron|PEG3_uc002qnv.2_Missense_Mutation_p.A261T|PEG3_uc002qnw.2_Missense_Mutation_p.A137T|PEG3_uc002qnx.2_Missense_Mutation_p.A135T|PEG3_uc010etr.2_Missense_Mutation_p.A261T	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	261					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TCGTCTTCAGCAAGCTGCACT	0.502													10	28	---	---	---	---	PASS	T	57329195	T	T	57329195	3	4	40	1	0	0	0	0	1	0	0	0	11720	710	25	3	3993	3	PEG3	19	57329195	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	3535628	57329195	1799788	93	15601										
PAK7	57144	broad.mit.edu	37	chr20	9546970	9546970	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gtagtttggcagggcccctgGggtaggtgtcagaccctgac	16	10	1	2			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr20:9546970G>A	uc002wnl.2	-	6	1597	c.1052C>T	c.(1051-1053)CCC>CTC	p.P351L	PAK7_uc002wnk.2_Missense_Mutation_p.P351L|PAK7_uc002wnj.2_Missense_Mutation_p.P351L|PAK7_uc010gby.1_Missense_Mutation_p.P351L	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	351	Linker.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			AGGGCCCCTGGGGTAGGTGTC	0.527													74	192	---	---	---	---	PASS	A	9546970	A	A	9546970	3	1	40	1	0	0	0	0	1	0	0	0	11405	1232	43	3	1131	3	PAK7	20	9546970	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08		9546970	53478550	94	15602										
ZNF337	26152	broad.mit.edu	37	chr20	25656577	25656577	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tctgagtgtgtgatctgatgTttcacaagggttgacttctg	12	6	4	4			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr20:25656577T>A	uc002wva.2	-	4	1869	c.1347A>T	c.(1345-1347)AAA>AAT	p.K449N	uc002wuz.2_RNA|ZNF337_uc010ztg.1_Missense_Mutation_p.K417N|ZNF337_uc002wvb.2_Missense_Mutation_p.K449N|ZNF337_uc002wvc.2_Missense_Mutation_p.K449N	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	449	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGATCTGATGTTTCACAAGGG	0.448													9	189	---	---	---	---	PASS	A	25656577	A	A	25656577	3	1	40	1	0	0	0	0	1	0	0	0	17850	1722	60	5	912	5	ZNF337	20	25656577	Missense_Mutation	SNP	T	TCGA-22-4607-01A-01D-1267-08	16109607	25656577	37368943	95	15603										
MAPRE1	22919	broad.mit.edu	37	chr20	31413746	31413746	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tttagaagatggcagtgaacGtatactcaacgtcagtgacc	10	8	2	4			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr20:31413746G>A	uc002wyh.2	+	2	152	c.13G>A	c.(13-15)GTA>ATA	p.V5I		NM_012325	NP_036457	Q15691	MARE1_HUMAN	microtubule-associated protein, RP/EB family,	5					cell division|cell proliferation|G2/M transition of mitotic cell cycle|mitotic prometaphase|negative regulation of microtubule polymerization|protein localization to microtubule	centrosome|cortical microtubule cytoskeleton|cytosol	microtubule plus-end binding|protein C-terminus binding				0						GGCAGTGAACGTATACTCAAC	0.443													4	109	---	---	---	---	PASS	A	31413746	A	A	31413746	3	1	40	1	0	0	0	0	1	0	0	0	9294	1145	40	1	15	1	MAPRE1	20	31413746	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08	5757169	31413746	31611774	96	15604										
PACSIN2	11252	broad.mit.edu	37	chr22	43280505	43280505	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tcaaacacctgctccatgttCtccatgtactggggtgtgcc	9	13	2	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chr22:43280505C>T	uc010gzg.2	-	6	894	c.672G>A	c.(670-672)GAG>GAA	p.E224E	PACSIN2_uc003bdg.3_Silent_p.E224E|PACSIN2_uc003bde.3_Silent_p.E224E|PACSIN2_uc003bdf.3_Silent_p.E224E	NM_007229	NP_009160	Q9UNF0	PACN2_HUMAN	protein kinase C and casein kinase substrate in	224					actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)				GCTCCATGTTCTCCATGTACT	0.517													13	185	---	---	---	---	PASS	T	43280505	T	T	43280505	2	4	40	1	0	0	0	0	0	0	0	1	11375	912	32	2		2	PACSIN2	22	43280505	Silent	SNP	C	TCGA-22-4607-01A-01D-1267-08		43280505	8024061	97	15605										
GPR173	54328	broad.mit.edu	37	chrX	53106311	53106311	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	gcacctacaagtttattcggGaggaggaccagtgcatcttt	11	9	1	0			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chrX:53106311G>A	uc004dru.2	+	2	766	c.508G>A	c.(508-510)GAG>AAG	p.E170K		NM_018969	NP_061842	Q9NS66	GP173_HUMAN	G protein-coupled receptor 173	170	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						GTTTATTCGGGAGGAGGACCA	0.557													3	34	---	---	---	---	PASS	A	53106311	A	A	53106311	3	1	40	1	0	0	0	0	1	0	0	0	6671	1175	41	2	510	2	GPR173	23	53106311	Missense_Mutation	SNP	G	TCGA-22-4607-01A-01D-1267-08		53106311	102164249	98	15606										
TAF1	6872	broad.mit.edu	37	chrX	70603899	70603899	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tcacaggcaaagatggtgatCttattcttgcagaatatagt	9	6	3	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chrX:70603899C>G	uc004dzu.3	+	13	2083	c.2032C>G	c.(2032-2034)CTT>GTT	p.L678V	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.L699V	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	678					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				AGATGGTGATCTTATTCTTGC	0.443													3	111	---	---	---	---	PASS	G	70603899	G	G	70603899	3	3	40	1	0	0	0	0	1	0	0	0	15510	913	32	2	2145	2	TAF1	23	70603899	Missense_Mutation	SNP	C	TCGA-22-4607-01A-01D-1267-08	17497588	70603899	84666661	99	15607										
MAGT1	84061	broad.mit.edu	37	chrX	77150833	77150833	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	tttctttgggcagaggctgaGggaacgtcgcaaacgatgag	15	7	1	3			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chrX:77150833G>C	uc004fof.2	-	1	233	c.171C>G	c.(169-171)CCC>CCG	p.P57P	MAGT1_uc004fog.3_RNA|MAGT1_uc004ect.3_Silent_p.P57P	NM_032121	NP_115497	Q9H0U3	MAGT1_HUMAN	magnesium transporter 1	25					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				upper_aerodigestive_tract(1)	1						CAGAGGCTGAGGGAACGTCGC	0.562													14	15	---	---	---	---	PASS	C	77150833	C	C	77150833	2	2	40	1	0	0	0	0	0	0	0	1	9196	987	35	4		4	MAGT1	23	77150833	Silent	SNP	G	TCGA-22-4607-01A-01D-1267-08	6546934	77150833	78119727	100	15608										
ODZ1	10178	broad.mit.edu	37	chrX	123775819	123775819	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.297029702970297	30	7.59493589763945e-09	3.20564516129032	4.3963133640553	2.27956989247312	0.210129401736766	0.581139126678244	21	acacagatgccatggttggaAcacattgggtctaggcagtc	12	9	1	1			TCGA-22-4607-01A-01D-1267-08	TCGA-22-4607-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	d8c6bb83-ebdd-4547-9077-3eba5c8bb9f0	d9a1bd0a-4bcd-4a79-8823-353a62b749fd	g.chrX:123775819A>G	uc004euj.2	-	11	1963	c.1899T>C	c.(1897-1899)TGT>TGC	p.C633C	ODZ1_uc011muj.1_Silent_p.C632C|ODZ1_uc010nqy.2_Silent_p.C633C	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	633	EGF-like 4.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CATGGTTGGAACACATTGGGT	0.468													125	90	---	---	---	---	PASS	G	123775819	G	G	123775819	2	3	40	1	0	0	0	0	0	0	0	1	10834	41	2	5		5	ODZ1	23	123775819	Silent	SNP	A	TCGA-22-4607-01A-01D-1267-08	46624986	123775819	31494741	101	15609										
PRAMEF6	440561	broad.mit.edu	37	chr1	13001287	13001287	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggacagtcctgcactggtgtTttgttcctcttggcattgag	12	9	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:13001287T>A	uc001auq.2	-	3	482	c.396A>T	c.(394-396)AAA>AAT	p.K132N	PRAMEF5_uc001aur.2_Intron	NM_001010889	NP_001010889	Q5VXH4	PRAM6_HUMAN	PRAME family member 6	132											0	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GCACTGGTGTTTTGTTCCTCT	0.493													26	849	---	---	---	---	PASS	A	13001287	A	A	13001287	3	1	41	1	0	0	0	0	1	0	0	0	12438	1838	64	5	1042	5	PRAMEF6	1	13001287	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08		13001287	236249334	1	15610										
C1QC	714	broad.mit.edu	37	chr1	22973781	22973781	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aagggagaacccggcttaccCggccatcctgggaaaaatgg	13	11	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:22973781C>A	uc001bgc.3	+	3	346	c.243C>A	c.(241-243)CCC>CCA	p.P81P	C1QC_uc001bga.3_Silent_p.P81P|C1QC_uc001bgb.2_Silent_p.P81P	NM_172369	NP_758957	P02747	C1QC_HUMAN	complement component 1, q subcomponent, C chain	81	Collagen-like.				complement activation, classical pathway|innate immune response|negative regulation of granulocyte differentiation|negative regulation of macrophage differentiation	collagen					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.21e-27)|Colorectal(126;1.5e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.61e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000538)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.196)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCGGCTTACCCGGCCATCCTG	0.532													23	60	---	---	---	---	PASS	A	22973781	A	A	22973781	2	1	41	1	0	0	0	0	0	0	0	1	1957	639	23	1		1	C1QC	1	22973781	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	9972494	22973781	226276840	2	15611										
MAN1C1	57134	broad.mit.edu	37	chr1	26104631	26104631	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttgctgaatgtctctcccggGgggctgacctacattgccga	12	12	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:26104631G>A	uc001bkm.2	+	9	1623	c.1293G>A	c.(1291-1293)GGG>GGA	p.G431G	MAN1C1_uc009vry.1_Silent_p.G251G|MAN1C1_uc001bkn.2_5'Flank	NM_020379	NP_065112	Q9NR34	MA1C1_HUMAN	mannosidase, alpha, class 1C, member 1	431	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(1)	1		Colorectal(325;3.78e-05)|Lung NSC(340;0.000181)|all_lung(284;0.000245)|Renal(390;0.000714)|Ovarian(437;0.00159)|Breast(348;0.0156)|Myeloproliferative disorder(586;0.0257)|all_neural(195;0.0515)|Esophageal squamous(538;0.232)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0574)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.15e-07)|COAD - Colon adenocarcinoma(152;4.31e-06)|STAD - Stomach adenocarcinoma(196;0.00125)|BRCA - Breast invasive adenocarcinoma(304;0.00141)|KIRC - Kidney renal clear cell carcinoma(1967;0.00146)|GBM - Glioblastoma multiforme(114;0.0149)|READ - Rectum adenocarcinoma(331;0.0803)		TCTCTCCCGGGGGGCTGACCT	0.642													33	55	---	---	---	---	PASS	A	26104631	A	A	26104631	2	1	41	1	0	0	0	0	0	0	0	1	9213	1219	43	3		3	MAN1C1	1	26104631	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	3130850	26104631	223145990	3	15612										
TMEM39B	55116	broad.mit.edu	37	chr1	32542890	32542890	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacctcttcaggacctactcCttcctgaacctcctgttcct	4	18	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:32542890C>T	uc010ogv.1	+	5	707	c.561C>T	c.(559-561)TCC>TCT	p.S187S	TMEM39B_uc010ogt.1_Intron|TMEM39B_uc010ogu.1_Silent_p.S60S|TMEM39B_uc001bue.3_Silent_p.S187S|TMEM39B_uc001buf.3_Intron|TMEM39B_uc010ogw.1_Intron	NM_018056	NP_060526	Q9GZU3	TM39B_HUMAN	transmembrane protein 39B	187	Helical; (Potential).					integral to membrane					0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GGACCTACTCCTTCCTGAACC	0.597													28	80	---	---	---	---	PASS	T	32542890	T	T	32542890	2	4	41	1	0	0	0	0	0	0	0	1	16159	668	24	3		3	TMEM39B	1	32542890	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	6438259	32542890	216707731	4	15613										
TIE1	7075	broad.mit.edu	37	chr1	43775130	43775130	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccccgcttggttcttgcggaCagtgggttctgggagtgccg	16	11	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:43775130C>G	uc001ciu.2	+	9	1339	c.1260C>G	c.(1258-1260)GAC>GAG	p.D420E	TIE1_uc010okd.1_Missense_Mutation_p.D420E|TIE1_uc010oke.1_Missense_Mutation_p.D375E|TIE1_uc009vwq.2_Missense_Mutation_p.D376E|TIE1_uc010okf.1_Missense_Mutation_p.D65E|TIE1_uc010okg.1_Missense_Mutation_p.D65E|TIE1_uc010okc.1_3'UTR	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	420	Ig-like C2-type 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TTCTTGCGGACAGTGGGTTCT	0.582													27	40	---	---	---	---	PASS	G	43775130	G	G	43775130	3	3	41	1	0	0	0	0	1	0	0	0	15890	477	17	4	1294	4	TIE1	1	43775130	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	11232240	43775130	205475491	5	15614										
DMAP1	55929	broad.mit.edu	37	chr1	44685876	44685876	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cctgccacaccagcatcaggCccaggcccggcctctgctga	10	19	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:44685876C>G	uc001clq.1	+	10	1319	c.1239C>G	c.(1237-1239)GGC>GGG	p.G413G	DMAP1_uc001clr.1_Silent_p.G413G|DMAP1_uc001cls.1_Silent_p.G413G|DMAP1_uc010oku.1_Silent_p.G403G	NM_001034024	NP_001029196	Q9NPF5	DMAP1_HUMAN	DNA methyltransferase 1 associated protein 1	413					DNA methylation|histone H2A acetylation|histone H4 acetylation|negative regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex	DNA binding|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					CAGCATCAGGCCCAGGCCCGG	0.662											OREG0013438	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	11	---	---	---	---	PASS	G	44685876	G	G	44685876	2	3	41	1	0	0	0	0	0	0	0	1	4576	726	26	4		4	DMAP1	1	44685876	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	910746	44685876	204564745	6	15615										
CCDC17	149483	broad.mit.edu	37	chr1	46088752	46088752	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aagaggcgggacatcccgccCcgcgtacaggccacaacttg	12	15	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:46088752C>A	uc010olt.1	-	4	679	c.531G>T	c.(529-531)CGG>CGT	p.R177R	CCDC17_uc009vxy.2_Silent_p.R145R|CCDC17_uc010ols.1_Silent_p.R168R|CCDC17_uc001com.3_5'UTR|CCDC17_uc001con.3_RNA|CCDC17_uc009vxz.2_Intron	NM_001114938	NP_001108410	Q96LX7	CCD17_HUMAN	coiled-coil domain containing 17	177	Potential.									ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					ACATCCCGCCCCGCGTACAGG	0.657													7	11	---	---	---	---	PASS	A	46088752	A	A	46088752	2	1	41	1	0	0	0	0	0	0	0	1	2793	610	22	3		3	CCDC17	1	46088752	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1402876	46088752	203161869	7	15616										
PIK3R3	8503	broad.mit.edu	37	chr1	46521483	46521483	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttacacaaggtgttgatctcGgatctttcgcagctggatca	10	9	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:46521483G>A	uc001cpb.3	-	7	1681	c.925C>T	c.(925-927)CGA>TGA	p.R309*	PIK3R3_uc009vyb.2_Intron|PIK3R3_uc009vyc.2_Nonsense_Mutation_p.R326*|PIK3R3_uc001cpc.3_Nonsense_Mutation_p.R309*|PIK3R3_uc010olw.1_Nonsense_Mutation_p.R355*|PIK3R3_uc010olv.1_Nonsense_Mutation_p.R99*	NM_003629	NP_003620	Q92569	P55G_HUMAN	phosphoinositide-3-kinase, regulatory subunit 3	309					insulin receptor signaling pathway|platelet activation|T cell costimulation		1-phosphatidylinositol-3-kinase activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					TGTTGATCTCGGATCTTTCGC	0.458													6	237	---	---	---	---	PASS	A	46521483	A	A	46521483	4	1	41	1	0	0	0	0	0	1	0	0	11920	1124	39	1	476	1	PIK3R3	1	46521483	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	432731	46521483	202729138	8	15617										
TCTEX1D1	200132	broad.mit.edu	37	chr1	67236120	67236120	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acccagtcagcgtgatgataTctctcgccttacagttcaga	8	12	3	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:67236120T>C	uc001dcv.2	+	3	301	c.170T>C	c.(169-171)ATC>ACC	p.I57T	TCTEX1D1_uc009wau.2_RNA|TCTEX1D1_uc009wav.2_RNA	NM_152665	NP_689878	Q8N7M0	TC1D1_HUMAN	Tctex1 domain containing 1	57											0						CGTGATGATATCTCTCGCCTT	0.338													69	257	---	---	---	---	PASS	C	67236120	C	C	67236120	3	2	41	1	0	0	0	0	1	0	0	0	15716	1435	50	5	176	5	TCTEX1D1	1	67236120	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	20714637	67236120	182014501	9	15618										
SLC44A5	204962	broad.mit.edu	37	chr1	75684328	75684328	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agagaaagacaaataagttgTatacatggaaggtagggatg	13	2	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:75684328T>C	uc001dgu.2	-	17	1520	c.1376A>G	c.(1375-1377)TAC>TGC	p.Y459C	SLC44A5_uc001dgt.2_Missense_Mutation_p.Y459C|SLC44A5_uc001dgs.2_Missense_Mutation_p.Y417C|SLC44A5_uc001dgr.2_Missense_Mutation_p.Y417C|SLC44A5_uc010oqz.1_Missense_Mutation_p.Y498C|SLC44A5_uc010ora.1_Missense_Mutation_p.Y453C|SLC44A5_uc010orb.1_Missense_Mutation_p.Y329C	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	459	Cytoplasmic (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						AAATAAGTTGTATACATGGAA	0.433													40	83	---	---	---	---	PASS	C	75684328	C	C	75684328	3	2	41	1	0	0	0	0	1	0	0	0	14639	1638	57	5	926	5	SLC44A5	1	75684328	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	8448208	75684328	173566293	10	15619										
USP33	23032	broad.mit.edu	37	chr1	78163019	78163019	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaattacaaagaccgagtttCtacttcaattttttcttctg	4	8	4	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:78163019C>T	uc001dht.2	-	25	3159	c.2812G>A	c.(2812-2814)GAA>AAA	p.E938K	USP33_uc009wca.1_RNA|USP33_uc001dhs.2_3'UTR|USP33_uc001dhu.2_Missense_Mutation_p.E907K	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	938					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						GACCGAGTTTCTACTTCAATT	0.398													39	127	---	---	---	---	PASS	T	78163019	T	T	78163019	3	4	41	1	0	0	0	0	1	0	0	0	17061	922	32	2	20	2	USP33	1	78163019	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2478691	78163019	171087602	11	15620										
COL24A1	255631	broad.mit.edu	37	chr1	86306919	86306919	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acctactggttcacctcgagGcccaggtggtcctaggactg	12	13	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:86306919G>C	uc001dlj.2	-	42	3655	c.3613C>G	c.(3613-3615)CCT>GCT	p.P1205A	COL24A1_uc001dli.2_Missense_Mutation_p.P341A|COL24A1_uc010osd.1_Missense_Mutation_p.P505A|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	1205	Collagen-like 13.				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)		TCACCTCGAGGCCCAGGTGGT	0.318													23	73	---	---	---	---	PASS	C	86306919	C	C	86306919	3	2	41	1	0	0	0	0	1	0	0	0	3683	1203	42	4	1607	4	COL24A1	1	86306919	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	8143900	86306919	162943702	12	15621										
LPPR4	9890	broad.mit.edu	37	chr1	99771562	99771562	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	catctgtagaagaccctgtcAgaagaaatgcgagcattcat	9	9	3	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:99771562A>G	uc001dse.2	+	7	1394	c.1288A>G	c.(1288-1290)AGA>GGA	p.R430G	LPPR4_uc010oue.1_Missense_Mutation_p.R372G	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	430							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		AGACCCTGTCAGAAGAAATGC	0.493													33	65	---	---	---	---	PASS	G	99771562	G	G	99771562	3	3	41	1	0	0	0	0	1	0	0	0	8927	180	7	5	1314	5	LPPR4	1	99771562	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	13464643	99771562	149479059	13	15622										
VCAM1	7412	broad.mit.edu	37	chr1	101196814	101196814	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cgtgaatgggagctctgtcaCtgtaagctgcaaggttccta	12	9	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:101196814C>A	uc001dti.2	+	6	1385	c.1265C>A	c.(1264-1266)ACT>AAT	p.T422N	VCAM1_uc001dtj.2_Missense_Mutation_p.T330N|VCAM1_uc010ouj.1_Missense_Mutation_p.T360N	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	422	Ig-like C2-type 5.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	AGCTCTGTCACTGTAAGCTGC	0.448													30	69	---	---	---	---	PASS	A	101196814	A	A	101196814	3	1	41	1	0	0	0	0	1	0	0	0	17134	565	20	3	1287	3	VCAM1	1	101196814	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1425252	101196814	148053807	14	15623										
FAM40A	85369	broad.mit.edu	37	chr1	110594511	110594511	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gactgggcatacggcaatggTgagactctgcactcagccag	13	11	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:110594511T>A	uc001dza.1	+	20	2285	c.2266_splice	c.e20+2	p.D756_splice	FAM40A_uc001dyz.1_Splice_Site_p.D661_splice|FAM40A_uc009wfp.1_Splice_Site_p.D580_splice	NM_033088	NP_149079	Q5VSL9	FA40A_HUMAN	hypothetical protein LOC85369							nucleus	protein binding			ovary(3)|large_intestine(1)	4		all_cancers(81;8.51e-05)|all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0154)|all cancers(265;0.0732)|Epithelial(280;0.0781)|Colorectal(144;0.115)|LUSC - Lung squamous cell carcinoma(189;0.137)		ACGGCAATGGTGAGACTCTGC	0.562													20	44	---	---	---	---	PASS	A	110594511	A	A	110594511	5	1	41	1	0	0	0	0	0	0	1	0	5560	1710	59	5	2346	5	FAM40A	1	110594511	Splice_Site	SNP	T	TCGA-22-4613-01A-01D-1441-08	9397697	110594511	138656110	15	15624										
SPAG17	200162	broad.mit.edu	37	chr1	118548128	118548128	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagctcgcagctgctcacgcTtttgaaaaggatagtatata	9	9	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:118548128T>C	uc001ehk.2	-	32	4753	c.4685A>G	c.(4684-4686)AAG>AGG	p.K1562R		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1562						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		CTGCTCACGCTTTTGAAAAGG	0.448													25	83	---	---	---	---	PASS	C	118548128	C	C	118548128	3	2	41	1	0	0	0	0	1	0	0	0	14979	1609	56	5	2054	5	SPAG17	1	118548128	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	7953617	118548128	130702493	16	15625										
SPAG17	200162	broad.mit.edu	37	chr1	118554860	118554860	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ataaaacatacttgtttcttGatcatctggcagaataattt	5	6	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:118554860G>A	uc001ehk.2	-	30	4491	c.4423C>T	c.(4423-4425)CAA>TAA	p.Q1475*		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1475						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		CTTGTTTCTTGATCATCTGGC	0.338													46	114	---	---	---	---	PASS	A	118554860	A	A	118554860	4	1	41	1	0	0	0	0	0	1	0	0	14979	1299	45	2	2324	2	SPAG17	1	118554860	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6732	118554860	130695761	17	15626										
PDE4DIP	9659	broad.mit.edu	37	chr1	144879133	144879133	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gatactctctggatgagactCtccaggtcctttttggcctg	10	11	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:144879133C>G	uc001elw.3	-	27	4608	c.4317G>C	c.(4315-4317)GAG>GAC	p.E1439D	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.E1395D|PDE4DIP_uc001elv.3_Missense_Mutation_p.E446D	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1439	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GGATGAGACTCTCCAGGTCCT	0.562			T	PDGFRB	MPD								45	208	---	---	---	---	PASS	G	144879133	G	G	144879133	3	3	41	1	0	0	0	0	1	0	0	0	11643	912	32	2	2795	2	PDE4DIP	1	144879133	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	26324273	144879133	104371488	18	15627										
GJA8	2703	broad.mit.edu	37	chr1	147380454	147380454	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcggggactaacggcggcccGgaccagggcagcgtcaagaa	17	12	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:147380454G>T	uc001epu.1	+	2	435	c.372G>T	c.(370-372)CCG>CCT	p.P124P		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	124	Cytoplasmic (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity	p.P124L(1)		ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					ACGGCGGCCCGGACCAGGGCA	0.642													15	25	---	---	---	---	PASS	T	147380454	T	T	147380454	2	4	41	1	0	0	0	0	0	0	0	1	6405	1103	39	1		1	GJA8	1	147380454	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	2501321	147380454	101870167	19	15628										
FLG	2312	broad.mit.edu	37	chr1	152281121	152281121	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgaacgtccagagctttcccCtgactggccacgtgcggact	11	14	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:152281121C>G	uc001ezu.1	-	3	6277	c.6241G>C	c.(6241-6243)GGG>CGG	p.G2081R		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2081	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GAGCTTTCCCCTGACTGGCCA	0.567									Ichthyosis				7	474	---	---	---	---	PASS	G	152281121	G	G	152281121	3	3	41	1	0	0	0	0	1	0	0	0	5922	681	24	4	5948	4	FLG	1	152281121	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4900667	152281121	96969500	20	15629										
NPR1	4881	broad.mit.edu	37	chr1	153659831	153659831	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caaggacacaccgtttatgcCagtgagccttgactcttgaa	9	11	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:153659831C>A	uc001fcs.3	+	13	2512	c.2091C>A	c.(2089-2091)GCC>GCA	p.A697A	NPR1_uc010pdz.1_Silent_p.A443A|NPR1_uc010pea.1_Silent_p.A175A	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	697	Cytoplasmic (Potential).|Protein kinase.				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	CCGTTTATGCCAGTGAGCCTT	0.512													21	35	---	---	---	---	PASS	A	153659831	A	A	153659831	2	1	41	1	0	0	0	0	0	0	0	1	10594	608	21	3		3	NPR1	1	153659831	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1378710	153659831	95590790	21	15630										
EFNA3	1944	broad.mit.edu	37	chr1	155058639	155058639	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agaagccggtccccactctcCcccagttcaccatgggcccc	8	20	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:155058639C>A	uc001fhf.2	+	4	614	c.544C>A	c.(544-546)CCC>ACC	p.P182T	EFNA3_uc010pew.1_Missense_Mutation_p.P177T|EFNA3_uc010pex.1_Intron|EFNA3_uc001fhg.2_Missense_Mutation_p.P159T	NM_004952	NP_004943	P52797	EFNA3_HUMAN	ephrin A3 precursor	182					cell-cell signaling	anchored to membrane|integral to plasma membrane	ephrin receptor binding|transmembrane-ephrin receptor activity				0	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		all cancers(21;5.67e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000284)|LUSC - Lung squamous cell carcinoma(543;0.193)			CCCCACTCTCCCCCAGTTCAC	0.692											OREG0013850	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	39	---	---	---	---	PASS	A	155058639	A	A	155058639	3	1	41	1	0	0	0	0	1	0	0	0	4952	623	22	3	558	3	EFNA3	1	155058639	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1398808	155058639	94191982	22	15631										
MEX3A	92312	broad.mit.edu	37	chr1	156047322	156047322	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttgttgcgggaggcacggatCatggagaagtgctccgctgc	16	9	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:156047322C>A	uc001fnd.3	-	2	606	c.606G>T	c.(604-606)ATG>ATT	p.M202I		NM_001093725	NP_001087194	A1L020	MEX3A_HUMAN	MEX3A protein	202						cytoplasmic mRNA processing body|nucleus	RNA binding|zinc ion binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					AGGCACGGATCATGGAGAAGT	0.667													5	17	---	---	---	---	PASS	A	156047322	A	A	156047322	3	1	41	1	0	0	0	0	1	0	0	0	9509	826	29	2	960	2	MEX3A	1	156047322	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	988683	156047322	93203299	23	15632										
FCRL3	115352	broad.mit.edu	37	chr1	157667699	157667699	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acaggatgtaaagcctgcagGatcagccagtctgcaaagag	12	9	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:157667699G>T	uc001frb.2	-	5	601	c.309C>A	c.(307-309)ATC>ATA	p.I103I	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Silent_p.I103I|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_5'UTR|FCRL3_uc001frc.1_Silent_p.I103I	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	103	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					AAGCCTGCAGGATCAGCCAGT	0.463													25	34	---	---	---	---	PASS	T	157667699	T	T	157667699	2	4	41	1	0	0	0	0	0	0	0	1	5796	1164	41	2		2	FCRL3	1	157667699	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	1620377	157667699	91582922	24	15633										
OR10Z1	128368	broad.mit.edu	37	chr1	158576965	158576965	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacttgtgcctcgcaccttaCagtggtcattattcattatg	7	11	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:158576965C>G	uc010pio.1	+	1	737	c.737C>G	c.(736-738)ACA>AGA	p.T246R		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					TCGCACCTTACAGTGGTCATT	0.502													79	187	---	---	---	---	PASS	G	158576965	G	G	158576965	3	3	41	1	0	0	0	0	1	0	0	0	10923	478	17	4	739	4	OR10Z1	1	158576965	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	909266	158576965	90673656	25	15634										
OR6K2	81448	broad.mit.edu	37	chr1	158670043	158670043	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acatagcttgggggtcatgaTagagggataatgaagagggc	16	4	1	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:158670043T>C	uc001fsu.1	-	1	400	c.400A>G	c.(400-402)ATC>GTC	p.I134V		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	134	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					GGGGTCATGATAGAGGGATAA	0.478													36	71	---	---	---	---	PASS	C	158670043	C	C	158670043	3	2	41	1	0	0	0	0	1	0	0	0	11202	1406	49	5	578	5	OR6K2	1	158670043	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	93078	158670043	90580578	26	15635										
OR10J3	441911	broad.mit.edu	37	chr1	159284278	159284278	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caggaagaagtacatgggggTgtgaagatgatggtccaggc	17	5	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:159284278T>A	uc010piu.1	-	1	172	c.172A>T	c.(172-174)ACC>TCC	p.T58S		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					TACATGGGGGTGTGAAGATGA	0.453													60	136	---	---	---	---	PASS	A	159284278	A	A	159284278	3	1	41	1	0	0	0	0	1	0	0	0	10911	1696	59	5	819	5	OR10J3	1	159284278	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	614235	159284278	89966343	27	15636										
FCGR2C	9103	broad.mit.edu	37	chr1	161560953	161560953	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gagtggctggtgctccagacCcctcacctggagttccagga	13	13	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:161560953C>G	uc001gav.2	+	5	510	c.411C>G	c.(409-411)ACC>ACG	p.T137T	FCGR2C_uc009wuj.2_RNA|FCGR2C_uc009wuk.2_RNA	NM_201563	NP_963857			Fc fragment of IgG, low affinity IIc, receptor												0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			TGCTCCAGACCCCTCACCTGG	0.552													5	16	---	---	---	---	PASS	G	161560953	G	G	161560953	2	3	41	1	0	0	0	0	0	0	0	1	5783	610	22	4		4	FCGR2C	1	161560953	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	2276675	161560953	87689668	28	15637										
C1orf110	339512	broad.mit.edu	37	chr1	162824606	162824606	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttttcacactcctttcctgcCctggatgatgaggattcccc	7	14	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:162824606C>A	uc001gck.2	-	4	1033	c.858G>T	c.(856-858)AGG>AGT	p.R286S	C1orf110_uc009wuw.1_Intron|C1orf110_uc009wux.1_Missense_Mutation_p.R285S	NM_178550	NP_848645	Q86UF4	CA110_HUMAN	hypothetical protein LOC339512	286											0						CCTTTCCTGCCCTGGATGATG	0.468													49	94	---	---	---	---	PASS	A	162824606	A	A	162824606	3	1	41	1	0	0	0	0	1	0	0	0	1983	622	22	3	54	3	C1orf110	1	162824606	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1263653	162824606	86426015	29	15638										
TADA1	117143	broad.mit.edu	37	chr1	166839015	166839015	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tttaccattatcctgtgtgaGaagtctatgagcttcaaggt	9	7	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:166839015G>A	uc001gdw.2	-	2	335	c.151C>T	c.(151-153)CTC>TTC	p.L51F	TADA1_uc009wve.2_Missense_Mutation_p.L51F	NM_053053	NP_444281	Q96BN2	TADA1_HUMAN	transcriptional adaptor 1-like	51					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(1)	1						TCCTGTGTGAGAAGTCTATGA	0.353													71	182	---	---	---	---	PASS	A	166839015	A	A	166839015	3	1	41	1	0	0	0	0	1	0	0	0	15506	942	33	2	884	2	TADA1	1	166839015	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	4014409	166839015	82411606	30	15639										
MAEL	84944	broad.mit.edu	37	chr1	166987183	166987183	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caaaatggttgtattggatgCagggcgttaccaggtaagga	14	5	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:166987183C>A	uc001gdy.1	+	10	1099	c.1028C>A	c.(1027-1029)GCA>GAA	p.A343E	MAEL_uc001gdz.1_Missense_Mutation_p.A312E|MAEL_uc009wvf.1_RNA	NM_032858	NP_116247	Q96JY0	MAEL_HUMAN	maelstrom homolog	343					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|multicellular organismal development|piRNA metabolic process|spermatogenesis	piP-body	DNA binding			skin(1)	1						GTATTGGATGCAGGGCGTTAC	0.458													33	96	---	---	---	---	PASS	A	166987183	A	A	166987183	3	1	41	1	0	0	0	0	1	0	0	0	9154	710	25	3	1066	3	MAEL	1	166987183	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	148168	166987183	82263438	31	15640										
F5	2153	broad.mit.edu	37	chr1	169510187	169510187	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtctggggaaaggtttgtctGactgagttctggagagaggt	17	4	3	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:169510187G>T	uc001ggg.1	-	13	4286	c.4141C>A	c.(4141-4143)CAG>AAG	p.Q1381K		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1381	B.|2-22.|35 X 9 AA approximate tandem repeats of [TNP]-L-S-P-D-L-S-Q-T.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	AGGTTTGTCTGACTGAGTTCT	0.537													85	128	---	---	---	---	PASS	T	169510187	T	T	169510187	3	4	41	1	0	0	0	0	1	0	0	0	5348	1299	45	2	2585	2	F5	1	169510187	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2523004	169510187	79740434	32	15641										
TNN	63923	broad.mit.edu	37	chr1	175092777	175092777	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggggcccaggagagcaagaaGgctgacaccaaggcccagac	15	12	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:175092777G>T	uc001gkl.1	+	12	3005	c.2892G>T	c.(2890-2892)AAG>AAT	p.K964N		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	964	Fibronectin type-III 8.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		AGAGCAAGAAGGCTGACACCA	0.617													34	80	---	---	---	---	PASS	T	175092777	T	T	175092777	3	4	41	1	0	0	0	0	1	0	0	0	16320	991	35	3	2934	3	TNN	1	175092777	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	5582590	175092777	74157844	33	15642										
TNR	7143	broad.mit.edu	37	chr1	175355202	175355202	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtggtggcagaatcgctctcGttggtccctcggacggcact	14	12	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:175355202G>T	uc001gkp.1	-	6	1824	c.1743C>A	c.(1741-1743)AAC>AAA	p.N581K	TNR_uc009wwu.1_Missense_Mutation_p.N581K	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	581	Fibronectin type-III 3.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					AATCGCTCTCGTTGGTCCCTC	0.632													40	103	---	---	---	---	PASS	T	175355202	T	T	175355202	3	4	41	1	0	0	0	0	1	0	0	0	16335	1136	40	1	2397	1	TNR	1	175355202	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	262425	175355202	73895419	34	15643										
FAM5B	57795	broad.mit.edu	37	chr1	177250056	177250056	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtctcaccaagaacagcaccCtggagcctgtcatggccatc	9	15	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:177250056C>T	uc001glf.2	+	8	2056	c.1744C>T	c.(1744-1746)CTG>TTG	p.L582L	FAM5B_uc001glg.2_Silent_p.L477L	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	582						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						GAACAGCACCCTGGAGCCTGT	0.567													13	34	---	---	---	---	PASS	T	177250056	T	T	177250056	2	4	41	1	0	0	0	0	0	0	0	1	5593	680	24	3		3	FAM5B	1	177250056	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1894854	177250056	72000565	35	15644										
SEC16B	89866	broad.mit.edu	37	chr1	177913756	177913756	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgacagtactcgaagatttcCgtcctctggattgcctcagt	9	11	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:177913756C>A	uc001gli.1	-	15	1911	c.1821G>T	c.(1819-1821)ACG>ACT	p.T607T	SEC16B_uc001glk.1_Silent_p.T284T|SEC16B_uc009wwy.1_Silent_p.T162T|SEC16B_uc001glh.1_Silent_p.T266T|SEC16B_uc009wwz.1_Silent_p.T266T|SEC16B_uc001glj.1_Silent_p.T608T	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	607					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4						CGAAGATTTCCGTCCTCTGGA	0.483													59	161	---	---	---	---	PASS	A	177913756	A	A	177913756	2	1	41	1	0	0	0	0	0	0	0	1	13987	639	23	1		1	SEC16B	1	177913756	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	663700	177913756	71336865	36	15645										
RALGPS2	55103	broad.mit.edu	37	chr1	178745918	178745918	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcatggacctaatgaacgggCaggcaagcagtgtcaatatt	12	8	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:178745918C>A	uc001glz.2	+	2	357	c.19C>A	c.(19-21)CAG>AAG	p.Q7K	RALGPS2_uc001gly.1_Missense_Mutation_p.Q7K|RALGPS2_uc010pnb.1_Missense_Mutation_p.Q7K	NM_152663	NP_689876	Q86X27	RGPS2_HUMAN	Ral GEF with PH domain and SH3 binding motif 2	7					small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0						AATGAACGGGCAGGCAAGCAG	0.423													14	40	---	---	---	---	PASS	A	178745918	A	A	178745918	3	1	41	1	0	0	0	0	1	0	0	0	13018	711	25	3	21	3	RALGPS2	1	178745918	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	832162	178745918	70504703	37	15646										
CEP350	9857	broad.mit.edu	37	chr1	179989082	179989082	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atattgtgactttcatttccAgaaaagacttgatggaatct	7	6	2	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:179989082A>G	uc001gnt.2	+	12	2558	c.2175_splice	c.e12-2	p.R725_splice	CEP350_uc009wxl.2_Splice_Site_p.R724_splice|CEP350_uc001gnu.2_Splice_Site_p.R559_splice	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350							centrosome|nucleus|spindle				ovary(4)	4						TTTCATTTCCAGAAAAGACTT	0.294													48	126	---	---	---	---	PASS	G	179989082	G	G	179989082	5	3	41	1	0	0	0	0	0	0	1	0	3254	202	7	5	2215	5	CEP350	1	179989082	Splice_Site	SNP	A	TCGA-22-4613-01A-01D-1441-08	1243164	179989082	69261539	38	15647										
TPR	7175	broad.mit.edu	37	chr1	186331476	186331476	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttgaagatgttcatttgatgTttttaagccattcatttgtt	7	4	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:186331476T>A	uc001grv.2	-	7	1030	c.733A>T	c.(733-735)ACA>TCA	p.T245S	TPR_uc010pop.1_Missense_Mutation_p.T321S	NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	245	Potential.				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)		TCATTTGATGTTTTTAAGCCA	0.318			T	NTRK1	papillary thyroid								38	68	---	---	---	---	PASS	A	186331476	A	A	186331476	3	1	41	1	0	0	0	0	1	0	0	0	16413	1725	60	5	6538	5	TPR	1	186331476	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	6342394	186331476	62919145	39	15648										
FAM5C	339479	broad.mit.edu	37	chr1	190250791	190250791	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtcccaaaagtcttatgttgCggaagaattcaggggcaaga	12	7	2	2	rs144952455		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:190250791C>T	uc001gse.1	-	3	558	c.326G>A	c.(325-327)CGC>CAC	p.R109H	FAM5C_uc010pot.1_Intron	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	109						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TCTTATGTTGCGGAAGAATTC	0.448													46	107	---	---	---	---	PASS	T	190250791	T	T	190250791	3	4	41	1	0	0	0	0	1	0	0	0	5594	768	27	1	1998	1	FAM5C	1	190250791	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3919315	190250791	58999830	40	15649										
CFHR1	3078	broad.mit.edu	37	chr1	196797367	196797367	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaaactggacagaaccacctCaatgcaaaggtagagtatta	9	8	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:196797367C>G	uc001gtn.2	+	4	712	c.598C>G	c.(598-600)CAA>GAA	p.Q200E	CFHR1_uc001gtm.2_Missense_Mutation_p.Q104E	NM_002113	NP_002104	Q03591	FHR1_HUMAN	complement factor H-related 1 precursor	200	Sushi 3.				complement activation	extracellular space					0						AGAACCACCTCAATGCAAAGG	0.338													4	237	---	---	---	---	PASS	G	196797367	G	G	196797367	3	3	41	1	0	0	0	0	1	0	0	0	3284	827	29	2	612	2	CFHR1	1	196797367	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	6546576	196797367	52453254	41	15650										
CFHR4	10877	broad.mit.edu	37	chr1	196887531	196887531	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tagtggaataccccagatgcGaataaggcagcattgttacc	10	9	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:196887531G>T	uc001gto.2	+	6	1060	c.991G>T	c.(991-993)GAA>TAA	p.E331*	CFHR4_uc009wyy.2_Nonsense_Mutation_p.E577*|CFHR4_uc001gtp.2_Nonsense_Mutation_p.E578*	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	331	Sushi 5.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						CCCCAGATGCGAATAAGGCAG	0.373													43	142	---	---	---	---	PASS	T	196887531	T	T	196887531	4	4	41	1	0	0	0	0	0	1	0	0	3287	1059	37	2	1013	2	CFHR4	1	196887531	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	90164	196887531	52363090	42	15651										
CFHR5	81494	broad.mit.edu	37	chr1	196946815	196946815	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atgttgctcttattcagtgtAatcctaatctcatgggtatc	7	8	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:196946815A>T	uc001gts.3	+	1	149	c.21A>T	c.(19-21)GTA>GTT	p.V7V		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	7					complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						TATTCAGTGTAATCCTAATCT	0.353													56	130	---	---	---	---	PASS	T	196946815	T	T	196946815	2	4	41	1	0	0	0	0	0	0	0	1	3288	349	13	5		5	CFHR5	1	196946815	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	59284	196946815	52303806	43	15652										
ASPM	259266	broad.mit.edu	37	chr1	197072093	197072093	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acagattggattttaattgcTgtcttcttcaaattaagata	6	5	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:197072093T>A	uc001gtu.2	-	18	6545	c.6288A>T	c.(6286-6288)ACA>ACT	p.T2096T	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2096	IQ 16.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TTTTAATTGCTGTCTTCTTCA	0.333													61	155	---	---	---	---	PASS	A	197072093	A	A	197072093	2	1	41	1	0	0	0	0	0	0	0	1	1056	1567	55	5		5	ASPM	1	197072093	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	125278	197072093	52178528	44	15653										
CRB1	23418	broad.mit.edu	37	chr1	197390630	197390630	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agtcaaaggtgcttctgttcAtttcccacaacaccagcgat	7	12	3	0	rs115811272	by1000genomes	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:197390630A>T	uc001gtz.2	+	6	1807	c.1672A>T	c.(1672-1674)ATT>TTT	p.I558F	CRB1_uc010poz.1_Missense_Mutation_p.I489F|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.I446F|CRB1_uc010ppb.1_Missense_Mutation_p.I558F|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_Missense_Mutation_p.I39F|CRB1_uc001gub.1_Missense_Mutation_p.I207F	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	558	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						GCTTCTGTTCATTTCCCACAA	0.453													55	144	---	---	---	---	PASS	T	197390630	T	T	197390630	3	4	41	1	0	0	0	0	1	0	0	0	3848	217	8	5	1694	5	CRB1	1	197390630	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	318537	197390630	51859991	45	15654										
NEK2	4751	broad.mit.edu	37	chr1	211836894	211836894	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttgcacttggacttagatgtGagctgactctcagaattctc	9	9	2	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:211836894G>C	uc001hir.1	-	8	1358	c.1212C>G	c.(1210-1212)CTC>CTG	p.L404L	NEK2_uc001hiq.1_Silent_p.L396L	NM_002497	NP_002488	P51955	NEK2_HUMAN	NIMA-related kinase 2	404	Necessary for interaction with MAD1L1.|Interaction with SAV1 and STK3.|Interaction with PCNT.				cell division|centrosome separation|G2/M transition of mitotic cell cycle|meiosis|protein autophosphorylation|regulation of mitosis	centrosome|condensed chromosome kinetochore|cytosol|nucleolus	ATP binding|metal ion binding|protein binding|protein phosphatase binding|protein serine/threonine kinase activity			breast(2)|stomach(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.00203)|all cancers(67;0.0339)|Epithelial(68;0.0546)		ACTTAGATGTGAGCTGACTCT	0.423													36	87	---	---	---	---	PASS	C	211836894	C	C	211836894	2	2	41	1	0	0	0	0	0	0	0	1	10324	1277	45	2		2	NEK2	1	211836894	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	14446264	211836894	37413727	46	15655										
ANGEL2	90806	broad.mit.edu	37	chr1	213173694	213173694	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gctgtcactaggacctctgtTtgcttcagctgtgtttgtgt	11	9	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:213173694T>C	uc001hjz.2	-	7	1448	c.1293A>G	c.(1291-1293)CAA>CAG	p.Q431Q	ANGEL2_uc010pto.1_Silent_p.Q305Q|ANGEL2_uc010ptp.1_Silent_p.Q305Q|ANGEL2_uc001hka.2_Silent_p.Q262Q|ANGEL2_uc010ptq.1_RNA	NM_144567	NP_653168	Q5VTE6	ANGE2_HUMAN	LOC90806 protein	431											0				OV - Ovarian serous cystadenocarcinoma(81;0.00446)|all cancers(67;0.0169)|Epithelial(68;0.0921)|GBM - Glioblastoma multiforme(131;0.185)		GGACCTCTGTTTGCTTCAGCT	0.338													33	94	---	---	---	---	PASS	C	213173694	C	C	213173694	2	2	41	1	0	0	0	0	0	0	0	1	609	1838	64	5		5	ANGEL2	1	213173694	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	1336800	213173694	36076927	47	15656										
USH2A	7399	broad.mit.edu	37	chr1	216166490	216166490	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cactggcctcactcactgtgCacccaccacctgtgcaagcc	7	19	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:216166490C>A	uc001hku.1	-	35	7064	c.6677G>T	c.(6676-6678)TGC>TTC	p.C2226F		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2226	Extracellular (Potential).|Fibronectin type-III 8.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACTCACTGTGCACCCACCACC	0.478										HNSCC(13;0.011)	OREG0014251	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	100	---	---	---	---	PASS	A	216166490	A	A	216166490	3	1	41	1	0	0	0	0	1	0	0	0	17033	710	25	3	9083	3	USH2A	1	216166490	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2992796	216166490	33084131	48	15657										
BPNT1	10380	broad.mit.edu	37	chr1	220253147	220253147	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttttgagcaatagaatatgcGgaggctaccaaccgcatcaa	9	9	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:220253147G>A	uc001hma.2	-	2	214	c.42C>T	c.(40-42)TCC>TCT	p.S14S	BPNT1_uc010pug.1_Intron|BPNT1_uc010puh.1_Silent_p.S14S|BPNT1_uc001hmb.3_Silent_p.S14S	NM_006085	NP_006076	O95861	BPNT1_HUMAN	3'(2'), 5'-bisphosphate nucleotidase 1	14					3'-phosphoadenosine 5'-phosphosulfate metabolic process|nervous system development|xenobiotic metabolic process	cytosol	3'(2'),5'-bisphosphate nucleotidase activity			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0558)		TAGAATATGCGGAGGCTACCA	0.418													42	83	---	---	---	---	PASS	A	220253147	A	A	220253147	2	1	41	1	0	0	0	0	0	0	0	1	1494	1103	39	1		1	BPNT1	1	220253147	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	4086657	220253147	28997474	49	15658										
IARS2	55699	broad.mit.edu	37	chr1	220310241	220310241	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	attcatcctgatgttgtcgtTaatggaggacaagtaggtga	12	5	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:220310241T>C	uc001hmc.2	+	16	2141	c.2037T>C	c.(2035-2037)GTT>GTC	p.V679V	IARS2_uc001hmd.2_Silent_p.V15V	NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase	679					isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	ATGTTGTCGTTAATGGAGGAC	0.368													26	60	---	---	---	---	PASS	C	220310241	C	C	220310241	2	2	41	1	0	0	0	0	0	0	0	1	7474	1741	61	5		5	IARS2	1	220310241	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	57094	220310241	28940380	50	15659										
MARK1	4139	broad.mit.edu	37	chr1	220773197	220773197	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctatttagtcatggaatacgCgagtgggggtaagaatgagg	15	4	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:220773197C>T	uc001hmn.3	+	5	1013	c.416C>T	c.(415-417)GCG>GTG	p.A139V	MARK1_uc009xdw.2_Missense_Mutation_p.A139V|MARK1_uc010pun.1_Missense_Mutation_p.A139V|MARK1_uc001hmm.3_Intron	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1	139	Protein kinase.				intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		ATGGAATACGCGAGTGGGGGT	0.338													5	200	---	---	---	---	PASS	T	220773197	T	T	220773197	3	4	41	1	0	0	0	0	1	0	0	0	9312	768	27	1	434	1	MARK1	1	220773197	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	462956	220773197	28477424	51	15660										
DISP1	84976	broad.mit.edu	37	chr1	223179195	223179195	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	attcacaaagttgtggcagaAttgtgagagtgaagtgcaat	12	4	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:223179195A>T	uc001hnu.1	+	8	4603	c.4456A>T	c.(4456-4458)ATT>TTT	p.I1486F		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1486					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TTGTGGCAGAATTGTGAGAGT	0.403													50	79	---	---	---	---	PASS	T	223179195	T	T	223179195	3	4	41	1	0	0	0	0	1	0	0	0	4539	101	4	5	4482	5	DISP1	1	223179195	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	2405998	223179195	26071426	52	15661										
LBR	3930	broad.mit.edu	37	chr1	225599054	225599054	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	catacccatccaatcaatccGgggcgcaattcacaaaagta	6	13	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:225599054G>A	uc001hoy.2	-	9	1316	c.1173C>T	c.(1171-1173)CCC>CCT	p.P391P	LBR_uc001hoz.2_Silent_p.P391P|LBR_uc001hpa.1_Silent_p.P391P	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	391	Helical; (Potential).				cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		CAATCAATCCGGGGCGCAATT	0.348													82	151	---	---	---	---	PASS	A	225599054	A	A	225599054	2	1	41	1	0	0	0	0	0	0	0	1	8652	1103	39	1		1	LBR	1	225599054	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	2419859	225599054	23651567	53	15662										
GNPAT	8443	broad.mit.edu	37	chr1	231406507	231406507	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	attgtctttgtgtgtagataAtaaacctgctgaagaagttg	10	4	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:231406507A>C	uc001hup.3	+	10	1489	c.1283A>C	c.(1282-1284)AAT>ACT	p.N428T	GNPAT_uc009xfp.2_Missense_Mutation_p.N367T	NM_014236	NP_055051	O15228	GNPAT_HUMAN	glyceronephosphate O-acyltransferase	428					ether lipid biosynthetic process|fatty acid metabolic process|organ morphogenesis	peroxisomal matrix|peroxisomal membrane	glycerone-phosphate O-acyltransferase activity			ovary(3)|breast(1)	4	Breast(184;0.0871)	all_cancers(173;0.2)|Prostate(94;0.183)				TGTGTAGATAATAAACCTGCT	0.458													55	130	---	---	---	---	PASS	C	231406507	C	C	231406507	3	2	41	1	0	0	0	0	1	0	0	0	6541	101	4	5	1321	5	GNPAT	1	231406507	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	5807453	231406507	17844114	54	15663										
PCNXL2	80003	broad.mit.edu	37	chr1	233394065	233394065	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggacttacaagacgatgggtCaaggttagtctggccttcct	12	9	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:233394065C>A	uc001hvl.2	-	5	1778	c.1543G>T	c.(1543-1545)GAC>TAC	p.D515Y	PCNXL2_uc009xfu.2_RNA|PCNXL2_uc009xfv.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	515						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GACGATGGGTCAAGGTTAGTC	0.522													25	70	---	---	---	---	PASS	A	233394065	A	A	233394065	3	1	41	1	0	0	0	0	1	0	0	0	11592	826	29	2	4990	2	PCNXL2	1	233394065	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1987558	233394065	15856556	55	15664										
GPR137B	7107	broad.mit.edu	37	chr1	236306297	236306297	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgcttccctgtgtgcctgcaGtttttcaccctcacgctgat	8	14	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:236306297G>T	uc001hxq.2	+	1	466	c.375G>T	c.(373-375)CAG>CAT	p.Q125H		NM_003272	NP_003263	O60478	G137B_HUMAN	G protein-coupled receptor 137B	125	Helical; (Potential).					integral to plasma membrane|membrane fraction					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.197)|Prostate(94;0.219)|Acute lymphoblastic leukemia(190;0.226)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			TGTGCCTGCAGTTTTTCACCC	0.602													51	123	---	---	---	---	PASS	T	236306297	T	T	236306297	3	4	41	1	0	0	0	0	1	0	0	0	6646	1020	36	3	377	3	GPR137B	1	236306297	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2912232	236306297	12944324	56	15665										
MTR	4548	broad.mit.edu	37	chr1	237016389	237016389	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agctcttacgttatgcccagGtagagagacaagtgttctaa	10	8	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:237016389G>A	uc001hyi.3	+	18	2376	c.1953_splice	c.e18+1	p.Q651_splice	MTR_uc010pxw.1_Splice_Site_p.Q244_splice|MTR_uc010pxx.1_Splice_Site_p.Q651_splice|MTR_uc010pxy.1_Intron	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine						nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	TTATGCCCAGGTAGAGAGACA	0.403													47	111	---	---	---	---	PASS	A	237016389	A	A	237016389	5	1	41	1	0	0	0	0	0	0	1	0	9958	1275	44	3	2024	3	MTR	1	237016389	Splice_Site	SNP	G	TCGA-22-4613-01A-01D-1441-08	710092	237016389	12234232	57	15666										
RYR2	6262	broad.mit.edu	37	chr1	237754047	237754047	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atcatgttttatcgcctgagCatgccgatcgagtgcgcgga	12	10	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:237754047C>A	uc001hyl.1	+	31	4035	c.3915C>A	c.(3913-3915)AGC>AGA	p.S1305R		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1305	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			ATCGCCTGAGCATGCCGATCG	0.507													98	185	---	---	---	---	PASS	A	237754047	A	A	237754047	3	1	41	1	0	0	0	0	1	0	0	0	13769	709	25	3	4037	3	RYR2	1	237754047	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	737658	237754047	11496574	58	15667										
RYR2	6262	broad.mit.edu	37	chr1	237951425	237951425	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaaaatcatagcatatcaacAgaaacttctagtaagatgtt	6	6	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:237951425A>T	uc001hyl.1	+	92	13586	c.13466A>T	c.(13465-13467)CAG>CTG	p.Q4489L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4489					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)			GCATATCAACAGAAACTTCTA	0.393													13	27	---	---	---	---	PASS	T	237951425	T	T	237951425	3	4	41	1	0	0	0	0	1	0	0	0	13769	188	7	5	13832	5	RYR2	1	237951425	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	197378	237951425	11299196	59	15668										
GREM2	64388	broad.mit.edu	37	chr1	240656540	240656540	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cctcctcgctcaccgtctgcCgcagcggctgcgtcttgcac	10	19	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:240656540C>G	uc001hys.2	-	2	516	c.236G>C	c.(235-237)CGG>CCG	p.R79P		NM_022469	NP_071914	Q9H772	GREM2_HUMAN	gremlin 2 precursor	79	CTCK.				BMP signaling pathway	extracellular space	cytokine activity				0		all_cancers(173;0.0196)	OV - Ovarian serous cystadenocarcinoma(106;0.0123)			CACCGTCTGCCGCAGCGGCTG	0.642													6	23	---	---	---	---	PASS	G	240656540	G	G	240656540	3	3	41	1	0	0	0	0	1	0	0	0	6762	652	23	4	274	4	GREM2	1	240656540	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2705115	240656540	8594081	60	15669										
PLD5	200150	broad.mit.edu	37	chr1	242383334	242383334	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	accggcactgccgatatacaCgtgctgtttgtccacgatcc	9	14	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:242383334C>A	uc001hzn.1	-	5	818	c.691G>T	c.(691-693)GTG>TTG	p.V231L	PLD5_uc001hzl.3_Missense_Mutation_p.V169L|PLD5_uc001hzm.3_Missense_Mutation_p.V21L|PLD5_uc001hzo.1_Missense_Mutation_p.V139L			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	231	PLD phosphodiesterase 1.					integral to membrane	catalytic activity	p.S231R(1)		ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			CCGATATACACGTGCTGTTTG	0.522													24	58	---	---	---	---	PASS	A	242383334	A	A	242383334	3	1	41	1	0	0	0	0	1	0	0	0	12049	536	19	1	943	1	PLD5	1	242383334	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1726794	242383334	6867287	61	15670										
OR1C1	26188	broad.mit.edu	37	chr1	247920944	247920944	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gggctgaaatagacggcgatGgctgtgccgtaaaacaacac	13	9	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:247920944G>T	uc010pza.1	-	1	765	c.765C>A	c.(763-765)GCC>GCA	p.A255A		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			AGACGGCGATGGCTGTGCCGT	0.522													20	34	---	---	---	---	PASS	T	247920944	T	T	247920944	2	4	41	1	0	0	0	0	0	0	0	1	10952	1335	47	3		3	OR1C1	1	247920944	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	5537610	247920944	1329677	62	15671										
OR2T4	127074	broad.mit.edu	37	chr1	248525483	248525483	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcaccatgaccttccccttcCgtggatcccgggagattcat	8	15	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:248525483C>A	uc001ieh.1	+	1	601	c.601C>A	c.(601-603)CGT>AGT	p.R201S		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	201	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTTCCCCTTCCGTGGATCCCG	0.493													63	186	---	---	---	---	PASS	A	248525483	A	A	248525483	3	1	41	1	0	0	0	0	1	0	0	0	11027	652	23	1	603	1	OR2T4	1	248525483	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	604539	248525483	725138	63	15672										
OR2T6	254879	broad.mit.edu	37	chr1	248551514	248551514	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgaaacagtgatgtatgtgtGctgcgttgcaatgctgctga	13	6	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr1:248551514G>A	uc001iei.1	+	1	605	c.605G>A	c.(604-606)TGC>TAC	p.C202Y		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	202	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATGTATGTGTGCTGCGTTGCA	0.517													16	50	---	---	---	---	PASS	A	248551514	A	A	248551514	3	1	41	1	0	0	0	0	1	0	0	0	11029	1319	46	3	607	3	OR2T6	1	248551514	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	26031	248551514	699107	64	15673										
KCNF1	3754	broad.mit.edu	37	chr2	11052594	11052594	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agcctcccggagccgggcagCcagagctccgctgccagcga	14	17	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:11052594C>G	uc002rax.2	+	1	532	c.42C>G	c.(40-42)AGC>AGG	p.S14R		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	14	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		AGCCGGGCAGCCAGAGCTCCG	0.537													4	4	---	---	---	---	PASS	G	11052594	G	G	11052594	3	3	41	1	0	0	0	0	1	0	0	0	8026	738	26	4	44	4	KCNF1	2	11052594	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08		11052594	232146779	65	15674										
EMILIN1	11117	broad.mit.edu	37	chr2	27305106	27305106	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cggccttcaacgggaggcagCagccagctgacgcggctgcc	15	15	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:27305106C>T	uc002rii.3	+	4	1095	c.667C>T	c.(667-669)CAG>TAG	p.Q223*	EMILIN1_uc010eyq.1_Nonsense_Mutation_p.Q223*|EMILIN1_uc002rik.3_5'Flank	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	223	Potential.				cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGGGAGGCAGCAGCCAGCTGA	0.672													15	42	---	---	---	---	PASS	T	27305106	T	T	27305106	4	4	41	1	0	0	0	0	0	1	0	0	5093	711	25	3	681	3	EMILIN1	2	27305106	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	16252512	27305106	215894267	66	15675										
C2orf53	339779	broad.mit.edu	37	chr2	27360428	27360428	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggcaggaggggctgcggggcCggaggcacaccaggcatata	19	10	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:27360428C>A	uc002rjb.2	-	3	1350	c.770G>T	c.(769-771)CGG>CTG	p.R257L	PREB_uc002rix.1_5'Flank|PREB_uc002riy.1_5'Flank|PREB_uc002riz.1_5'Flank|PREB_uc002rja.1_5'Flank	NM_178553	NP_848648	Q53SZ7	CB053_HUMAN	hypothetical protein LOC339779	257											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCTGCGGGGCCGGAGGCACAC	0.647													15	32	---	---	---	---	PASS	A	27360428	A	A	27360428	3	1	41	1	0	0	0	0	1	0	0	0	2174	652	23	1	472	1	C2orf53	2	27360428	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	55322	27360428	215838945	67	15676										
TCF23	150921	broad.mit.edu	37	chr2	27375610	27375610	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcctggggtactccgatcttGactccaccacagccagcacc	9	17	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:27375610G>A	uc010ylg.1	+	3	520	c.520G>A	c.(520-522)GAC>AAC	p.D174N		NM_175769	NP_786951	Q7RTU1	TCF23_HUMAN	transcription factor 23	174					cell differentiation|muscle organ development|regulation of transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTCCGATCTTGACTCCACCAC	0.567													31	63	---	---	---	---	PASS	A	27375610	A	A	27375610	3	1	41	1	0	0	0	0	1	0	0	0	15689	1290	45	2	530	2	TCF23	2	27375610	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	15182	27375610	215823763	68	15677										
SLC5A6	8884	broad.mit.edu	37	chr2	27429763	27429763	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	accatctgaaagatgaaggtCacagttccacacactcgcac	7	13	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:27429763C>G	uc002rjd.2	-	4	832	c.441G>C	c.(439-441)GTG>GTC	p.V147V	SLC5A6_uc010eyv.1_Silent_p.V147V	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	147	Helical; (Potential).				biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	AGATGAAGGTCACAGTTCCAC	0.473													148	356	---	---	---	---	PASS	G	27429763	G	G	27429763	2	3	41	1	0	0	0	0	0	0	0	1	14669	813	29	2		2	SLC5A6	2	27429763	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	54153	27429763	215769610	69	15678										
GCKR	2646	broad.mit.edu	37	chr2	27721620	27721620	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aatcagctgatgaaaggtctGggacagaaacctctttacac	9	9	3	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:27721620G>A	uc002rky.2	+	5	450	c.384G>A	c.(382-384)CTG>CTA	p.L128L	GCKR_uc010ezd.2_Silent_p.L128L|GCKR_uc010ylu.1_5'UTR	NM_001486	NP_001477	Q14397	GCKR_HUMAN	glucokinase regulatory protein	128	SIS 1.				carbohydrate metabolic process|glucose transport|negative regulation of glucokinase activity|positive regulation of gene expression|protein import into nucleus, translocation|regulation of glucose transport|response to fructose stimulus|transmembrane transport|triglyceride homeostasis|urate metabolic process	cytosol|nucleoplasm	fructose-6-phosphate binding|protein binding			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)					TGAAAGGTCTGGGACAGAAAC	0.393													47	72	---	---	---	---	PASS	A	27721620	A	A	27721620	2	1	41	1	0	0	0	0	0	0	0	1	6294	1335	47	3		3	GCKR	2	27721620	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	291857	27721620	215477753	70	15679										
SLC8A1	6546	broad.mit.edu	37	chr2	40366621	40366621	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tggtgcagccaaagtgggaaGccaggtctccaatgaaagct	13	9	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:40366621G>A	uc002rrx.2	-	9	2489	c.2465C>T	c.(2464-2466)GCT>GTT	p.A822V	uc002rrw.2_Intron|SLC8A1_uc002rry.2_Missense_Mutation_p.A817V|SLC8A1_uc002rrz.2_Missense_Mutation_p.A809V|SLC8A1_uc002rsa.2_Missense_Mutation_p.A786V|SLC8A1_uc002rsd.3_Missense_Mutation_p.A786V	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	822	Helical; (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	AAAGTGGGAAGCCAGGTCTCC	0.493													21	51	---	---	---	---	PASS	A	40366621	A	A	40366621	3	1	41	1	0	0	0	0	1	0	0	0	14706	971	34	3	464	3	SLC8A1	2	40366621	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	12645001	40366621	202832752	71	15680										
BCL11A	53335	broad.mit.edu	37	chr2	60687767	60687767	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcgcccgtgtggcttctcctGtggacagtgagattgctaca	12	11	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:60687767G>A	uc002sae.1	-	4	2508	c.2280C>T	c.(2278-2280)CAC>CAT	p.H760H	BCL11A_uc002sab.2_Intron|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Intron|BCL11A_uc010ypj.1_Silent_p.H726H|BCL11A_uc002sad.1_Silent_p.H608H|BCL11A_uc002saf.1_Silent_p.H726H	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	760	C2H2-type 4.				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			GGCTTCTCCTGTGGACAGTGA	0.562			T	IGH@	B-CLL								55	516	---	---	---	---	PASS	A	60687767	A	A	60687767	2	1	41	1	0	0	0	0	0	0	0	1	1363	1368	48	3		3	BCL11A	2	60687767	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	20321146	60687767	182511606	72	15681										
BCL11A	53335	broad.mit.edu	37	chr2	60688956	60688956	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gggagggaggaggggcggatTgcagaggagggagggggggc	28	3	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:60688956T>A	uc002sae.1	-	4	1319	c.1091A>T	c.(1090-1092)CAA>CTA	p.Q364L	BCL11A_uc002sab.2_Missense_Mutation_p.Q364L|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Intron|BCL11A_uc010ypj.1_Missense_Mutation_p.Q330L|BCL11A_uc002sad.1_Missense_Mutation_p.Q212L|BCL11A_uc002saf.1_Missense_Mutation_p.Q330L	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	364	Pro-rich.				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			AGGGGCGGATTGCAGAGGAGG	0.642			T	IGH@	B-CLL								23	326	---	---	---	---	PASS	A	60688956	A	A	60688956	3	1	41	1	0	0	0	0	1	0	0	0	1363	1812	63	5	1526	5	BCL11A	2	60688956	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	1189	60688956	182510417	73	15682										
ZNF638	27332	broad.mit.edu	37	chr2	71576311	71576311	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaatgttcaggtaactcaacAcagaactgatccaagattga	8	8	2	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:71576311A>T	uc002shx.2	+	2	546	c.227A>T	c.(226-228)CAC>CTC	p.H76L	ZNF638_uc010fec.2_Missense_Mutation_p.H182L|ZNF638_uc010yqw.1_Intron|ZNF638_uc002shw.2_Missense_Mutation_p.H76L|ZNF638_uc002shy.2_Missense_Mutation_p.H76L|ZNF638_uc002shz.2_Missense_Mutation_p.H76L|ZNF638_uc002sia.2_Missense_Mutation_p.H76L|ZNF638_uc002sib.1_Missense_Mutation_p.H76L	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	76					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						GTAACTCAACACAGAACTGAT	0.468													63	162	---	---	---	---	PASS	T	71576311	T	T	71576311	3	4	41	1	0	0	0	0	1	0	0	0	18052	159	6	5	229	5	ZNF638	2	71576311	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	10887355	71576311	171623062	74	15683										
STAMBP	10617	broad.mit.edu	37	chr2	74089375	74089375	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acagagcagtgaccatcacaGaccttcgatgagcgtttgag	11	10	1	5			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:74089375G>A	uc002sjs.2	+	10	1314	c.1264G>A	c.(1264-1266)GAC>AAC	p.D422N	STAMBP_uc002sjt.2_Missense_Mutation_p.D422N|STAMBP_uc002sju.2_Missense_Mutation_p.D422N|STAMBP_uc002sjv.2_Missense_Mutation_p.D422N	NM_201647	NP_964010	O95630	STABP_HUMAN	STAM binding protein	422					JAK-STAT cascade|positive regulation of cell proliferation	early endosome|membrane|nucleus	metal ion binding|metallopeptidase activity|protein binding			ovary(1)|lung(1)|breast(1)|pancreas(1)	4						GACCATCACAGACCTTCGATG	0.423													30	81	---	---	---	---	PASS	A	74089375	A	A	74089375	3	1	41	1	0	0	0	0	1	0	0	0	15249	942	33	2	1298	2	STAMBP	2	74089375	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2513064	74089375	169109998	75	15684										
SLC4A5	57835	broad.mit.edu	37	chr2	74460582	74460582	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggcagtgatctgctggtccaTgaagatcaggatggtcacca	13	9	3	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:74460582T>C	uc002sko.1	-	18	2544	c.2542A>G	c.(2542-2544)ATG>GTG	p.M848V	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Missense_Mutation_p.M848V|SLC4A5_uc010ffc.1_Missense_Mutation_p.M848V|SLC4A5_uc002skp.1_Missense_Mutation_p.M746V|SLC4A5_uc002sks.1_Missense_Mutation_p.M810V	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	848	Helical; (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						TGCTGGTCCATGAAGATCAGG	0.567													24	52	---	---	---	---	PASS	C	74460582	C	C	74460582	3	2	41	1	0	0	0	0	1	0	0	0	14657	1464	51	5	907	5	SLC4A5	2	74460582	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	371207	74460582	168738791	76	15685										
REG3G	130120	broad.mit.edu	37	chr2	79255402	79255402	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtctgcaagttcaaggactaGggcaggtgggaagtcagcag	16	7	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:79255402G>A	uc002snw.2	+	6	613	c.528G>A	c.(526-528)TAG>TAA	p.*176*	REG3G_uc002snx.2_Silent_p.*176*|REG3G_uc010ffu.2_Silent_p.*130*	NM_198448	NP_940850	Q6UW15	REG3G_HUMAN	regenerating islet-derived 3 gamma precursor	176					acute-phase response	extracellular region	sugar binding				0						TCAAGGACTAGGGCAGGTGGG	0.478													28	88	---	---	---	---	PASS	A	79255402	A	A	79255402	2	1	41	1	0	0	0	0	0	0	0	1	13213	995	35	3		3	REG3G	2	79255402	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	4794820	79255402	163943971	77	15686										
REG1A	5967	broad.mit.edu	37	chr2	79350055	79350055	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagtgttaatcctggctactGtgtgagcctgacctcaagca	10	11	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:79350055G>T	uc002snz.2	+	5	513	c.410G>T	c.(409-411)TGT>TTT	p.C137F	REG1A_uc010ysd.1_Missense_Mutation_p.C137F	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	137	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						CCTGGCTACTGTGTGAGCCTG	0.567													40	109	---	---	---	---	PASS	T	79350055	T	T	79350055	3	4	41	1	0	0	0	0	1	0	0	0	13210	1377	48	3	424	3	REG1A	2	79350055	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	94653	79350055	163849318	78	15687										
CTNNA2	1496	broad.mit.edu	37	chr2	80085257	80085257	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcggtgacacgcttactcatCctggcggacatggcagatgt	13	11	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:80085257C>G	uc010ysh.1	+	3	422	c.417C>G	c.(415-417)ATC>ATG	p.I139M	CTNNA2_uc010yse.1_Missense_Mutation_p.I139M|CTNNA2_uc010ysf.1_Missense_Mutation_p.I139M|CTNNA2_uc010ysg.1_Missense_Mutation_p.I139M	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	139					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GCTTACTCATCCTGGCGGACA	0.502													63	77	---	---	---	---	PASS	G	80085257	G	G	80085257	3	3	41	1	0	0	0	0	1	0	0	0	4013	845	30	2	427	2	CTNNA2	2	80085257	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	735202	80085257	163114116	79	15688										
RANBP2	5903	broad.mit.edu	37	chr2	109378557	109378557	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttttctttttgtttttttagTtgcaactactggcccttcag	6	8	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:109378557T>G	uc002tem.3	+	19	2729	c.2603T>G	c.(2602-2604)GTT>GGT	p.V868G		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	868					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GTTTTTTTAGTTGCAACTACT	0.338													69	127	---	---	---	---	PASS	G	109378557	G	G	109378557	3	3	41	1	0	0	0	0	1	0	0	0	13028	1739	60	5	2677	5	RANBP2	2	109378557	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	29293300	109378557	133820816	80	15689										
MERTK	10461	broad.mit.edu	37	chr2	112754908	112754908	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtatctcaccaggttgggtaGattatgccccctcttcaact	8	12	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:112754908G>T	uc002thk.1	+	10	1581	c.1459G>T	c.(1459-1461)GAT>TAT	p.D487Y	MERTK_uc002thl.1_Missense_Mutation_p.D311Y	NM_006343	NP_006334	Q12866	MERTK_HUMAN	MER receptor tyrosine kinase precursor	487	Extracellular (Potential).				cell surface receptor linked signaling pathway|cell-cell signaling|leukocyte migration	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|upper_aerodigestive_tract(1)|stomach(1)|kidney(1)	9						AGGTTGGGTAGATTATGCCCC	0.428													107	306	---	---	---	---	PASS	T	112754908	T	T	112754908	3	4	41	1	0	0	0	0	1	0	0	0	9479	942	33	2	1497	2	MERTK	2	112754908	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	3376351	112754908	130444465	81	15690										
DPP10	57628	broad.mit.edu	37	chr2	116538458	116538458	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttctttctccagtgcttctaCtgaaggattattgaatcgcc	7	10	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:116538458C>A	uc002tla.1	+	16	1827	c.1370C>A	c.(1369-1371)ACT>AAT	p.T457N	DPP10_uc002tlb.1_Missense_Mutation_p.T407N|DPP10_uc002tlc.1_Missense_Mutation_p.T453N|DPP10_uc002tle.2_Missense_Mutation_p.T461N|DPP10_uc002tlf.1_Missense_Mutation_p.T450N	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	457	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						AGTGCTTCTACTGAAGGATTA	0.308													49	150	---	---	---	---	PASS	A	116538458	A	A	116538458	3	1	41	1	0	0	0	0	1	0	0	0	4727	565	20	3	1603	3	DPP10	2	116538458	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3783550	116538458	126660915	82	15691										
CNTNAP5	129684	broad.mit.edu	37	chr2	125405389	125405389	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tacagagctgacccgagtgcGgggcgctaaccctgagaagc	14	12	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:125405389G>A	uc002tno.2	+	13	2292	c.1928G>A	c.(1927-1929)CGG>CAG	p.R643Q	CNTNAP5_uc010flu.2_Missense_Mutation_p.R644Q	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	643	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		ACCCGAGTGCGGGGCGCTAAC	0.562													3	42	---	---	---	---	PASS	A	125405389	A	A	125405389	3	1	41	1	0	0	0	0	1	0	0	0	3650	1116	39	1	1978	1	CNTNAP5	2	125405389	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	8866931	125405389	117793984	83	15692										
WDR33	55339	broad.mit.edu	37	chr2	128477651	128477651	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgtggtcccatgaatccttGtggccccccacctccctgat	8	17	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:128477651G>T	uc002tpg.1	-	16	2131	c.1948C>A	c.(1948-1950)CAA>AAA	p.Q650K		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	650	Collagen-like.				postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		ATGAATCCTTGTGGCCCCCCA	0.652													21	77	---	---	---	---	PASS	T	128477651	T	T	128477651	3	4	41	1	0	0	0	0	1	0	0	0	17284	1386	48	3	2090	3	WDR33	2	128477651	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	3072262	128477651	114721722	84	15693										
FAM128A	653784	broad.mit.edu	37	chr2	132241747	132241747	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctcgtggttgctgcgttccgCcagggccaatactcccccga	11	16	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:132241747C>A	uc002tsw.3	-	3	479	c.364G>T	c.(364-366)GCG>TCG	p.A122S	FAM128A_uc002tsv.3_RNA	NM_001085365	NP_001078834	Q6P582	MZT2A_HUMAN	hypothetical protein LOC653784	122						centrosome|gamma-tubulin ring complex|spindle					0				BRCA - Breast invasive adenocarcinoma(221;0.13)		CTGCGTTCCGCCAGGGCCAAT	0.632													76	87	---	---	---	---	PASS	A	132241747	A	A	132241747	3	1	41	1	0	0	0	0	1	0	0	0	5434	739	26	3	116	3	FAM128A	2	132241747	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3764096	132241747	110957626	85	15694										
NCKAP5	344148	broad.mit.edu	37	chr2	133489393	133489393	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggtcggatgtggaatgaacaAtggcgctatctgcagggcgc	16	8	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:133489393A>G	uc002ttp.2	-	17	5734	c.5360T>C	c.(5359-5361)ATT>ACT	p.I1787T	NCKAP5_uc002ttq.2_Missense_Mutation_p.I468T	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1787							protein binding				0						GGAATGAACAATGGCGCTATC	0.562													27	111	---	---	---	---	PASS	G	133489393	G	G	133489393	3	3	41	1	0	0	0	0	1	0	0	0	10223	101	4	5	385	5	NCKAP5	2	133489393	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	1247646	133489393	109709980	86	15695										
TMEM163	81615	broad.mit.edu	37	chr2	135470778	135470778	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cttgatactcactaaaggcaGccaccgcgagggccagggtg	13	12	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:135470778G>A	uc002ttx.2	-	2	380	c.314C>T	c.(313-315)GCT>GTT	p.A105V	TMEM163_uc002tty.2_RNA	NM_030923	NP_112185	Q8TC26	TM163_HUMAN	transmembrane protein 163	105	Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(221;0.154)		ACTAAAGGCAGCCACCGCGAG	0.522													60	111	---	---	---	---	PASS	A	135470778	A	A	135470778	3	1	41	1	0	0	0	0	1	0	0	0	16075	971	34	3	583	3	TMEM163	2	135470778	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1981385	135470778	107728595	87	15696										
R3HDM1	23518	broad.mit.edu	37	chr2	136399333	136399333	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aagcggcaggcataccacctGgcagtattctgatcaaccca	9	13	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:136399333G>T	uc002tuo.2	+	15	1817	c.1447G>T	c.(1447-1449)GGC>TGC	p.G483C	R3HDM1_uc010fni.2_Missense_Mutation_p.G481C|R3HDM1_uc002tup.2_Missense_Mutation_p.G427C|R3HDM1_uc010zbh.1_Intron	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	483							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		CATACCACCTGGCAGTATTCT	0.408													38	91	---	---	---	---	PASS	T	136399333	T	T	136399333	3	4	41	1	0	0	0	0	1	0	0	0	12887	1348	47	3	1497	3	R3HDM1	2	136399333	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	928555	136399333	106800040	88	15697										
LRP1B	53353	broad.mit.edu	37	chr2	141771157	141771157	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtggatcataaatctgaagcCcaaataggggtggtctttca	11	7	4	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:141771157C>A	uc002tvj.1	-	14	3320	c.2348G>T	c.(2347-2349)GGG>GTG	p.G783V	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	783	Extracellular (Potential).				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)		AATCTGAAGCCCAAATAGGGG	0.333										TSP Lung(27;0.18)			45	133	---	---	---	---	PASS	A	141771157	A	A	141771157	3	1	41	1	0	0	0	0	1	0	0	0	8955	623	22	3	11763	3	LRP1B	2	141771157	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	5371824	141771157	101428216	89	15698										
ZEB2	9839	broad.mit.edu	37	chr2	145156420	145156420	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggagaaggagtattactcctGgagtggtccaatttttcaac	11	7	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:145156420G>A	uc002tvu.2	-	8	2814	c.2334C>T	c.(2332-2334)TCC>TCT	p.S778S	ZEB2_uc002tvv.2_Silent_p.S772S|ZEB2_uc010zbm.1_Silent_p.S749S|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Silent_p.S807S	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	778						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TATTACTCCTGGAGTGGTCCA	0.418													107	244	---	---	---	---	PASS	A	145156420	A	A	145156420	2	1	41	1	0	0	0	0	0	0	0	1	17621	1335	47	3		3	ZEB2	2	145156420	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	3385263	145156420	98042953	90	15699										
SLC4A10	57282	broad.mit.edu	37	chr2	162661104	162661104	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggaagggagtcaccttctttTggtaagaatccttctccttg	10	9	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:162661104T>C	uc002ubx.3	+	3	460	c.276T>C	c.(274-276)TTT>TTC	p.F92F	SLC4A10_uc010fpa.1_Silent_p.F104F|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Silent_p.F92F|SLC4A10_uc010zcs.1_Silent_p.F103F	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	92	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						CACCTTCTTTTGGTAAGAATC	0.343													12	42	---	---	---	---	PASS	C	162661104	C	C	162661104	2	2	41	1	0	0	0	0	0	0	0	1	14651	1826	63	5		5	SLC4A10	2	162661104	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	17504684	162661104	80538269	91	15700										
DPP4	1803	broad.mit.edu	37	chr2	162851843	162851843	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atgaataaggaggtactcaaCttgtttaaaattttcagctc	7	6	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:162851843C>A	uc002ubz.2	-	24	2653	c.2092G>T	c.(2092-2094)GTT>TTT	p.V698F	DPP4_uc010fpb.2_Missense_Mutation_p.V374F	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	698	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	AGGTACTCAACTTGTTTAAAA	0.343													77	110	---	---	---	---	PASS	A	162851843	A	A	162851843	3	1	41	1	0	0	0	0	1	0	0	0	4729	565	20	3	220	3	DPP4	2	162851843	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	190739	162851843	80347530	92	15701										
HOXD4	3233	broad.mit.edu	37	chr2	177016524	177016524	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccccggggctctacccacggCccgacttcggtgagcagcct	12	18	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:177016524C>A	uc002uks.2	+	1	412	c.163C>A	c.(163-165)CCC>ACC	p.P55T		NM_014621	NP_055436	P09016	HXD4_HUMAN	homeobox D4	55						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00765)|Epithelial(96;0.105)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		CTACCCACGGCCCGACTTCGG	0.741													11	26	---	---	---	---	PASS	A	177016524	A	A	177016524	3	1	41	1	0	0	0	0	1	0	0	0	7324	739	26	3	165	3	HOXD4	2	177016524	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	14164681	177016524	66182849	93	15702										
TTC30A	92104	broad.mit.edu	37	chr2	178481726	178481726	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttataaggctccaagcttttGataactcgagaaataccaaa	6	8	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:178481726G>A	uc002ulo.2	-	1	1969	c.1704C>T	c.(1702-1704)ATC>ATT	p.I568I		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	568	TPR 8.				cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			CCAAGCTTTTGATAACTCGAG	0.373													9	501	---	---	---	---	PASS	A	178481726	A	A	178481726	2	1	41	1	0	0	0	0	0	0	0	1	16695	1280	45	2		2	TTC30A	2	178481726	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	1465202	178481726	64717647	94	15703										
TTN	7273	broad.mit.edu	37	chr2	179497445	179497445	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tttgggctccctggatacttCacactcaaacttagcctcat	6	13	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:179497445C>A	uc010zfg.1	-	184	35808	c.35584G>T	c.(35584-35586)GAA>TAA	p.E11862*	TTN_uc010zfh.1_Nonsense_Mutation_p.E5557*|TTN_uc010zfi.1_Nonsense_Mutation_p.E5490*|TTN_uc010zfj.1_Nonsense_Mutation_p.E5365*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12789							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)			CTGGATACTTCACACTCAAAC	0.428													5	359	---	---	---	---	PASS	A	179497445	A	A	179497445	4	1	41	1	0	0	0	0	0	1	0	0	16732	835	29	2	64917	2	TTN	2	179497445	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1015719	179497445	63701928	95	15704										
TTN	7273	broad.mit.edu	37	chr2	179550314	179550314	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttccacaacatattcctcagGctcttccatcactttaaaga	3	13	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:179550314G>A	uc010zfg.1	-	125	28815	c.28591C>T	c.(28591-28593)CCT>TCT	p.P9531S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P6192S|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10458							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)			TATTCCTCAGGCTCTTCCATC	0.333													4	47	---	---	---	---	PASS	A	179550314	A	A	179550314	3	1	41	1	0	0	0	0	1	0	0	0	16732	1203	42	3	72146	3	TTN	2	179550314	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	52869	179550314	63649059	96	15705										
TTN	7273	broad.mit.edu	37	chr2	179587057	179587057	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgagcaagagtactggccaGagtgactcaagtcagtttgc	12	9	2	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:179587057G>C	uc010zfg.1	-	74	18949	c.18725C>G	c.(18724-18726)TCT>TGT	p.S6242C	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S2903C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7169							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)			GTACTGGCCAGAGTGACTCAA	0.398													15	61	---	---	---	---	PASS	C	179587057	C	C	179587057	3	2	41	1	0	0	0	0	1	0	0	0	16732	942	33	2	82216	2	TTN	2	179587057	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	36743	179587057	63612316	97	15706										
TTN	7273	broad.mit.edu	37	chr2	179590306	179590306	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggctgggcgccttctatggaTgcttgtaattcagcaggctc	13	10	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:179590306T>C	uc010zfg.1	-	68	17117	c.16893A>G	c.(16891-16893)GCA>GCG	p.A5631A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.A2292A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6558							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)			CTTCTATGGATGCTTGTAATT	0.423													26	88	---	---	---	---	PASS	C	179590306	C	C	179590306	2	2	41	1	0	0	0	0	0	0	0	1	16732	1451	51	5		5	TTN	2	179590306	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	3249	179590306	63609067	98	15707										
TTN	7273	broad.mit.edu	37	chr2	179610664	179610664	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccaattcttccattaaactgCttaaagtcactttgcttttc	3	11	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:179610664C>T	uc002unb.2	-	46	16687	c.16463G>A	c.(16462-16464)AGC>AAC	p.S5488N	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CATTAAACTGCTTAAAGTCAC	0.408													63	210	---	---	---	---	PASS	T	179610664	T	T	179610664	3	4	41	1	0	0	0	0	1	0	0	0	16732	797	28	3	93834	3	TTN	2	179610664	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	20358	179610664	63588709	99	15708										
CCDC141	285025	broad.mit.edu	37	chr2	179734015	179734015	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gattctttcataatgtactgAacctcatcattcaattgcta	4	9	5	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:179734015A>T	uc002unf.1	-	5	555	c.498T>A	c.(496-498)GTT>GTA	p.V166V		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	166							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			TAATGTACTGAACCTCATCAT	0.323													25	93	---	---	---	---	PASS	T	179734015	T	T	179734015	2	4	41	1	0	0	0	0	0	0	0	1	2775	233	9	5		5	CCDC141	2	179734015	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	123351	179734015	63465358	100	15709										
NEUROD1	4760	broad.mit.edu	37	chr2	182543262	182543262	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cgtgcatgcggttccgctccCgggcgttagccttcatgcgt	13	14	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:182543262C>A	uc002uof.2	-	2	562	c.326G>T	c.(325-327)CGG>CTG	p.R109L	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	109	Basic motif.				amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			GTTCCGCTCCCGGGCGTTAGC	0.537													39	51	---	---	---	---	PASS	A	182543262	A	A	182543262	3	1	41	1	0	0	0	0	1	0	0	0	10348	652	23	1	748	1	NEUROD1	2	182543262	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2809247	182543262	60656111	101	15710										
FRZB	2487	broad.mit.edu	37	chr2	183731163	183731163	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagggacttgcacagggggaTgcggacgggctcacaggctg	18	10	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:183731163T>A	uc002upa.1	-	1	336	c.118A>T	c.(118-120)ATC>TTC	p.I40F		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein precursor	40	FZ.				brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)			CACAGGGGGATGCGGACGGGC	0.677													28	15	---	---	---	---	PASS	A	183731163	A	A	183731163	3	1	41	1	0	0	0	0	1	0	0	0	6065	1464	51	5	883	5	FRZB	2	183731163	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	1187901	183731163	59468210	102	15711										
COL5A2	1290	broad.mit.edu	37	chr2	189953453	189953453	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cattagtcctacttgactccCaagtccagatttttcatcca	4	13	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:189953453C>T	uc002uqk.2	-	8	888	c.613G>A	c.(613-615)GGG>AGG	p.G205R	COL5A2_uc010frx.2_5'Flank	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	205					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			ACTTGACTCCCAAGTCCAGAT	0.358													40	67	---	---	---	---	PASS	T	189953453	T	T	189953453	3	4	41	1	0	0	0	0	1	0	0	0	3697	594	21	3	4074	3	COL5A2	2	189953453	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	6222290	189953453	53245920	103	15712										
STAT1	6772	broad.mit.edu	37	chr2	191848427	191848427	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggcccaaccgctcgggagctGgctgacgttggagatcacca	14	13	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:191848427G>C	uc002usj.2	-	17	1775	c.1387C>G	c.(1387-1389)CAG>GAG	p.Q463E	STAT1_uc010fse.1_Missense_Mutation_p.Q463E|STAT1_uc002usk.2_Missense_Mutation_p.Q463E|STAT1_uc002usl.2_Missense_Mutation_p.Q465E|STAT1_uc010fsf.1_Missense_Mutation_p.Q275E	NM_007315	NP_009330	P42224	STAT1_HUMAN	signal transducer and activator of transcription	463					activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)	CTCGGGAGCTGGCTGACGTTG	0.502													5	85	---	---	---	---	PASS	C	191848427	C	C	191848427	3	2	41	1	0	0	0	0	1	0	0	0	15263	1357	47	4	905	4	STAT1	2	191848427	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1894974	191848427	51350946	104	15713										
IHH	3549	broad.mit.edu	37	chr2	219920115	219920115	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gccaggtggtggtcagccacGgccgcgaagcaggatgccac	16	13	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:219920115G>A	uc002vjo.1	-	3	1050	c.1050C>T	c.(1048-1050)GCC>GCT	p.A350A		NM_002181	NP_002172	Q14623	IHH_HUMAN	Indian hedgehog homolog precursor	350					cell-cell signaling|intein-mediated protein splicing|proteolysis	extracellular space|plasma membrane	cholesterol binding|patched binding|peptidase activity			breast(1)	1		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000188)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGTCAGCCACGGCCGCGAAGC	0.642													13	13	---	---	---	---	PASS	A	219920115	A	A	219920115	2	1	41	1	0	0	0	0	0	0	0	1	7607	1103	39	1		1	IHH	2	219920115	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	28071688	219920115	23279258	105	15714										
SPHKAP	80309	broad.mit.edu	37	chr2	228881146	228881146	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggatttgacaagcgctcacgGctgtgtctccacctctcacc	9	15	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:228881146G>A	uc002vpq.2	-	7	4471	c.4424C>T	c.(4423-4425)GCC>GTC	p.A1475V	SPHKAP_uc002vpp.2_Missense_Mutation_p.A1475V|SPHKAP_uc010zlx.1_Missense_Mutation_p.A1475V	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1475						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		AGCGCTCACGGCTGTGTCTCC	0.468													75	101	---	---	---	---	PASS	A	228881146	A	A	228881146	3	1	41	1	0	0	0	0	1	0	0	0	15047	1203	42	3	702	3	SPHKAP	2	228881146	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	8961031	228881146	14318227	106	15715										
SPHKAP	80309	broad.mit.edu	37	chr2	228881548	228881548	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacacttctctgcttgcgagGgagagccaccagaaacaggc	11	13	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:228881548G>C	uc002vpq.2	-	7	4069	c.4022C>G	c.(4021-4023)CCC>CGC	p.P1341R	SPHKAP_uc002vpp.2_Missense_Mutation_p.P1341R|SPHKAP_uc010zlx.1_Missense_Mutation_p.P1341R	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1341						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TGCTTGCGAGGGAGAGCCACC	0.522													23	28	---	---	---	---	PASS	C	228881548	C	C	228881548	3	2	41	1	0	0	0	0	1	0	0	0	15047	1232	43	4	1104	4	SPHKAP	2	228881548	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	402	228881548	14317825	107	15716										
LRRFIP1	9208	broad.mit.edu	37	chr2	238672186	238672186	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaaattaaggaagaagagcaGgtaaagtctactgacagaaa	11	4	1	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:238672186G>A	uc002vxe.2	+	11	2122	c.1830G>A	c.(1828-1830)CAG>CAA	p.Q610Q	LRRFIP1_uc002vxc.2_Intron|LRRFIP1_uc010znm.1_Intron|LRRFIP1_uc002vxd.2_Silent_p.Q586Q|LRRFIP1_uc002vxf.2_Silent_p.Q554Q	NM_001137552	NP_001131024	Q32MZ4	LRRF1_HUMAN	leucine rich repeat (in FLII) interacting	610					negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|cytoskeleton|nucleus	DNA binding|double-stranded RNA binding|protein binding			breast(3)	3		Breast(86;0.00257)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;9.75e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.01e-10)|Kidney(56;4.85e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.31e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000151)|Lung(119;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0325)|COAD - Colon adenocarcinoma(134;0.228)		AAGAAGAGCAGGTAAAGTCTA	0.363													21	9	---	---	---	---	PASS	A	238672186	A	A	238672186	2	1	41	1	0	0	0	0	0	0	0	1	9027	991	35	3		3	LRRFIP1	2	238672186	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	9790638	238672186	4527187	108	15717										
TRAF3IP1	26146	broad.mit.edu	37	chr2	239261531	239261531	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacaattctgacaatgaagaGgatgatcaatttgtggtgga	11	5	2	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:239261531G>A	uc002vye.2	+	13	1634	c.1515G>A	c.(1513-1515)GAG>GAA	p.E505E	TRAF3IP1_uc002vyf.2_Silent_p.E439E	NM_015650	NP_056465	Q8TDR0	MIPT3_HUMAN	TNF receptor-associated factor 3 interacting	505	DISC1-interaction domain.					cytoplasm|cytoskeleton	protein binding			ovary(1)	1		all_epithelial(40;3.22e-10)|Breast(86;0.000523)|Renal(207;0.00571)|Ovarian(221;0.156)|all_hematologic(139;0.182)		Epithelial(121;9.92e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.85e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.01e-07)|BRCA - Breast invasive adenocarcinoma(100;7.72e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0184)		ACAATGAAGAGGATGATCAAT	0.328													26	62	---	---	---	---	PASS	A	239261531	A	A	239261531	2	1	41	1	0	0	0	0	0	0	0	1	16437	991	35	3		3	TRAF3IP1	2	239261531	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	589345	239261531	3937842	109	15718										
MYEOV2	150678	broad.mit.edu	37	chr2	241066112	241066112	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	attgtgctgtcttcgctgacCtctcgcctgcttcttgtggt	10	12	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr2:241066112C>A	uc002vyu.1	-	5	627	c.627G>T	c.(625-627)GAG>GAT	p.E209D		NM_138336	NP_612209	Q8WXC6	MYOV2_HUMAN	hypothetical protein LOC150678 isoform 1	Error:Variant_position_missing_in_Q8WXC6_after_alignment											0		all_epithelial(40;1.56e-11)|Breast(86;0.0002)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.81e-30)|all cancers(36;1.1e-27)|OV - Ovarian serous cystadenocarcinoma(60;2.74e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;8.54e-06)|Lung(119;0.00361)|LUSC - Lung squamous cell carcinoma(224;0.0153)|Colorectal(34;0.0202)|COAD - Colon adenocarcinoma(134;0.143)		CTTCGCTGACCTCTCGCCTGC	0.468													98	58	---	---	---	---	PASS	A	241066112	A	A	241066112	3	1	41	1	0	0	0	0	1	0	0	0	10026	680	24	3	135	3	MYEOV2	2	241066112	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1804581	241066112	2133261	110	15719										
SETD5	55209	broad.mit.edu	37	chr3	9482323	9482323	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgggcaaacctactattttaGacactattaataagactgaa	6	7	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:9482323G>A	uc003brt.2	+	8	1186	c.751G>A	c.(751-753)GAC>AAC	p.D251N	SETD5_uc003brs.1_Missense_Mutation_p.D232N|SETD5_uc003bru.2_Missense_Mutation_p.D153N|SETD5_uc003brv.2_Missense_Mutation_p.D140N|SETD5_uc010hck.2_5'Flank|SETD5_uc003brw.1_5'Flank|SETD5_uc003brx.2_5'Flank	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	251										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		TACTATTTTAGACACTATTAA	0.398													24	22	---	---	---	---	PASS	A	9482323	A	A	9482323	3	1	41	1	0	0	0	0	1	0	0	0	14134	942	33	2	773	2	SETD5	3	9482323	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08		9482323	188540107	111	15720										
GRIP2	80852	broad.mit.edu	37	chr3	14581778	14581778	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agaccccccattacgtacccGcctctccaggggtctcccgg	9	19	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:14581778G>T	uc011avi.1	-	2	329	c.329C>A	c.(328-330)GCG>GAG	p.A110E	GRIP2_uc011avh.1_5'UTR|GRIP2_uc003byv.1_Missense_Mutation_p.A13E	NM_001080423	NP_001073892	Q9C0E4	GRIP2_HUMAN	glutamate receptor interacting protein 2	13					synaptic transmission	cytosol|plasma membrane	protein binding			pancreas(1)	1						TTACGTACCCGCCTCTCCAGG	0.637													10	9	---	---	---	---	PASS	T	14581778	T	T	14581778	3	4	41	1	0	0	0	0	1	0	0	0	6788	1087	38	1	3191	1	GRIP2	3	14581778	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	5099455	14581778	183440652	112	15721										
SCN11A	11280	broad.mit.edu	37	chr3	38889189	38889189	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aattctgaagagcgtcggagGgaaaggaatgtgctcctgat	14	6	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:38889189G>A	uc011ays.1	-	26	4571	c.4372C>T	c.(4372-4374)CCT>TCT	p.P1458S		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1458	IV.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	AGCGTCGGAGGGAAAGGAATG	0.493													21	25	---	---	---	---	PASS	A	38889189	A	A	38889189	3	1	41	1	0	0	0	0	1	0	0	0	13913	1232	43	3	1007	3	SCN11A	3	38889189	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	24307411	38889189	159133241	113	15722										
ZNF35	7584	broad.mit.edu	37	chr3	44700479	44700479	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaatatagccttaattctggCgctgttaaaaatccaaaaac	5	8	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:44700479C>T	uc003cnq.2	+	4	845	c.624C>T	c.(622-624)GGC>GGT	p.G208G	ZNF35_uc003cnr.2_Silent_p.G48G	NM_003420	NP_003411	P13682	ZNF35_HUMAN	zinc finger protein 35	208	Globular domain.				cellular response to retinoic acid|spermatogenesis	nucleus|perinuclear region of cytoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(412;0.0228)		OV - Ovarian serous cystadenocarcinoma(275;2.49e-27)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)		TTAATTCTGGCGCTGTTAAAA	0.413													4	117	---	---	---	---	PASS	T	44700479	T	T	44700479	2	4	41	1	0	0	0	0	0	0	0	1	17859	755	27	1		1	ZNF35	3	44700479	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	5811290	44700479	153321951	114	15723										
LTF	4057	broad.mit.edu	37	chr3	46480790	46480790	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agccctgtggtccatacctgTtggtggagcaacacctgttt	11	11	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:46480790T>C	uc003cpq.2	-	15	1943	c.1905A>G	c.(1903-1905)CAA>CAG	p.Q635Q	LTF_uc003fzr.2_Silent_p.Q591Q|LTF_uc010hjh.2_Silent_p.Q633Q|LTF_uc003cpr.2_Silent_p.Q622Q	NM_002343	NP_002334	P02788	TRFL_HUMAN	lactotransferrin precursor	635	Transferrin-like 2.				cellular iron ion homeostasis|defense response to bacterium|humoral immune response|iron ion transport	extracellular region|stored secretory granule	ferric iron binding|heparin binding|protein binding|serine-type endopeptidase activity			central_nervous_system(2)|ovary(1)|lung(1)	4				all cancers(1;7.55e-14)|GBM - Glioblastoma multiforme(1;2.1e-09)|Epithelial(1;9.25e-07)|Colorectal(1;3.81e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00129)|COAD - Colon adenocarcinoma(1;0.00308)|KIRC - Kidney renal clear cell carcinoma(197;0.0205)|Kidney(197;0.0242)|OV - Ovarian serous cystadenocarcinoma(275;0.089)	Pefloxacin(DB00487)	TCCATACCTGTTGGTGGAGCA	0.547													39	57	---	---	---	---	PASS	C	46480790	C	C	46480790	2	2	41	1	0	0	0	0	0	0	0	1	9079	1722	60	5		5	LTF	3	46480790	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	1780311	46480790	151541640	115	15724										
MAP4	4134	broad.mit.edu	37	chr3	47910733	47910733	+	Frame_Shift_Del	DEL	C	-	-													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggttgtttctgtgcacttgCaattgggccggctgttttag							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:47910733delC	uc003csb.2	-	14	3470	c.2944delG	c.(2944-2946)GCAfs	p.A982fs	MAP4_uc003csc.3_Frame_Shift_Del_p.A982fs|MAP4_uc003crw.2_Intron|MAP4_uc003crx.2_Intron|MAP4_uc011bbe.1_Intron|MAP4_uc003cry.2_Frame_Shift_Del_p.A717fs|MAP4_uc003csa.3_Intron|MAP4_uc003crz.3_RNA|MAP4_uc003csd.2_Frame_Shift_Del_p.A702fs	NM_002375	NP_002366	P27816	MAP4_HUMAN	microtubule-associated protein 4 isoform 1	982					negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000721)|KIRC - Kidney renal clear cell carcinoma(197;0.00641)|Kidney(197;0.00736)		TGTGCACTTGCAATTGGGCCG	0.468													78	58	---	---	---	---		-	47910733	-	-	47910733	7	5	41	1	0	1	0	1	0	0	0	0	9258	710	25	0	689	0	MAP4	3	47910733	Frame_Shift_Del	DEL	C	TCGA-22-4613-01A-01D-1441-08	1429943	47910733	150111697	116	15725										
DNAH1	25981	broad.mit.edu	37	chr3	52417486	52417486	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgtatactgcggacgagcagGaccagatcgtcagcaccatg	12	11	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:52417486G>T	uc011bef.1	+	51	8287	c.8026G>T	c.(8026-8028)GAC>TAC	p.D2676Y	DNAH1_uc003ddv.2_5'Flank	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2676	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GGACGAGCAGGACCAGATCGT	0.552													10	9	---	---	---	---	PASS	T	52417486	T	T	52417486	3	4	41	1	0	0	0	0	1	0	0	0	4597	1174	41	2	8224	2	DNAH1	3	52417486	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	4506753	52417486	145604944	117	15726										
FLNB	2317	broad.mit.edu	37	chr3	58156459	58156459	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tggggggaggaacacatcccTggcagcccttttcatgtcac	12	12	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:58156459T>C	uc003djj.2	+	46	7944	c.7779T>C	c.(7777-7779)CCT>CCC	p.P2593P	FLNB_uc010hne.2_Silent_p.P2624P|FLNB_uc003djk.2_Silent_p.P2582P|FLNB_uc010hnf.2_Silent_p.P2569P|FLNB_uc003djl.2_Silent_p.P2413P|FLNB_uc003djm.2_Silent_p.P2400P|uc003djn.2_5'Flank	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	2593	Interaction with INPPL1.|Filamin 24.|Self-association site, tail (By similarity).|Interaction with FLNA 2.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		AACACATCCCTGGCAGCCCTT	0.458													22	32	---	---	---	---	PASS	C	58156459	C	C	58156459	2	2	41	1	0	0	0	0	0	0	0	1	5934	1567	55	5		5	FLNB	3	58156459	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	5738973	58156459	139865971	118	15727										
ATG3	64422	broad.mit.edu	37	chr3	112267449	112267449	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aatgatagcttccaattcatCtgaatattccatctgtttgc	5	9	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:112267449C>T	uc003dzd.2	-	5	384	c.274G>A	c.(274-276)GAT>AAT	p.D92N	ATG3_uc003dzc.2_Missense_Mutation_p.D92N|ATG3_uc010hqe.2_Missense_Mutation_p.D92N	NM_022488	NP_071933	Q9NT62	ATG3_HUMAN	Apg3p	92					autophagic vacuole assembly|mitochondrial fragmentation involved in apoptosis|protein targeting to membrane|protein ubiquitination	cytoplasmic ubiquitin ligase complex|cytosol	Atg12 ligase activity|Atg8 ligase activity|enzyme binding			ovary(3)	3						TCCAATTCATCTGAATATTCC	0.358													80	137	---	---	---	---	PASS	T	112267449	T	T	112267449	3	4	41	1	0	0	0	0	1	0	0	0	1095	913	32	2	702	2	ATG3	3	112267449	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	54110990	112267449	85754981	119	15728										
IGSF11	152404	broad.mit.edu	37	chr3	118753386	118753386	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggagctactcaccgtgcagaGagaggagcagcaaaggcgcc	15	11	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:118753386G>A	uc003ebw.2	-	1	291	c.44C>T	c.(43-45)TCT>TTT	p.S15F	IGSF11_uc011biv.1_Missense_Mutation_p.S15F|IGSF11_uc003ebx.2_Missense_Mutation_p.S15F|IGSF11_uc003eby.2_Intron|IGSF11_uc003ebz.2_Intron|IGSF11_uc010hqs.2_Intron	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	15					cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						ACCGTGCAGAGAGAGGAGCAG	0.692													5	10	---	---	---	---	PASS	A	118753386	A	A	118753386	3	1	41	1	0	0	0	0	1	0	0	0	7598	942	33	2	1279	2	IGSF11	3	118753386	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6485937	118753386	79269044	120	15729										
C3orf30	152405	broad.mit.edu	37	chr3	118870083	118870083	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tttctcagcagattactgaaAacttagtctatgaaaagcca	6	8	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:118870083A>T	uc003ecb.1	+	3	1595	c.1555A>T	c.(1555-1557)AAC>TAC	p.N519Y	C3orf30_uc011biw.1_Missense_Mutation_p.N518Y	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	519										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		GATTACTGAAAACTTAGTCTA	0.348													93	571	---	---	---	---	PASS	T	118870083	T	T	118870083	3	4	41	1	0	0	0	0	1	0	0	0	2220	14	1	5	1565	5	C3orf30	3	118870083	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	116697	118870083	79152347	121	15730										
GPR156	165829	broad.mit.edu	37	chr3	119900054	119900054	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtccaaagaccaggttgggcCaggaatgcaagtatctggtg	14	8	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:119900054C>T	uc011bjf.1	-	7	851	c.851G>A	c.(850-852)TGG>TAG	p.W284*	GPR156_uc011bjg.1_Nonsense_Mutation_p.W280*	NM_153002	NP_694547	Q8NFN8	GP156_HUMAN	G protein-coupled receptor 156	284	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.19)		CAGGTTGGGCCAGGAATGCAA	0.493													48	104	---	---	---	---	PASS	T	119900054	T	T	119900054	4	4	41	1	0	0	0	0	0	1	0	0	6661	595	21	3	1605	3	GPR156	3	119900054	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1029971	119900054	78122376	122	15731										
POLQ	10721	broad.mit.edu	37	chr3	121200428	121200428	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttggtttttaccttgaaggtTttccttctgcaacaaagagt	8	7	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:121200428T>C	uc003eee.3	-	19	6331	c.6202A>G	c.(6202-6204)AAC>GAC	p.N2068D	POLQ_uc003eed.2_Missense_Mutation_p.N1240D	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	2068					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		CCTTGAAGGTTTTCCTTCTGC	0.368								DNA_polymerases_(catalytic_subunits)					53	116	---	---	---	---	PASS	C	121200428	C	C	121200428	3	2	41	1	0	0	0	0	1	0	0	0	12208	1841	64	5	1618	5	POLQ	3	121200428	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	1300374	121200428	76822002	123	15732										
CASR	846	broad.mit.edu	37	chr3	121980393	121980393	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggtcagttatgcctcctccAgcagactcctcagcaacaag	8	14	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:121980393A>G	uc003eev.3	+	4	883	c.511A>G	c.(511-513)AGC>GGC	p.S171G	CASR_uc003eew.3_Missense_Mutation_p.S171G	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	171	Extracellular (Potential).		S -> N (could be associated with FHH).		anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	TGCCTCCTCCAGCAGACTCCT	0.453													24	292	---	---	---	---	PASS	G	121980393	G	G	121980393	3	3	41	1	0	0	0	0	1	0	0	0	2682	188	7	5	521	5	CASR	3	121980393	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	779965	121980393	76042037	124	15733										
DIRC2	84925	broad.mit.edu	37	chr3	122545685	122545685	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gatgttaaatggattggcagGtccaactgtaatgaatgcag	12	5	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:122545685G>T	uc003efw.3	+	3	615	c.476G>T	c.(475-477)GGT>GTT	p.G159V	DIRC2_uc010hrl.2_RNA|DIRC2_uc010hrm.2_5'UTR	NM_032839	NP_116228	Q96SL1	DIRC2_HUMAN	disrupted in renal carcinoma 2	159	Helical; (Potential).				transport	integral to membrane					0				GBM - Glioblastoma multiforme(114;0.0614)		GGATTGGCAGGTCCAACTGTA	0.393													18	141	---	---	---	---	PASS	T	122545685	T	T	122545685	3	4	41	1	0	0	0	0	1	0	0	0	4534	1261	44	3	486	3	DIRC2	3	122545685	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	565292	122545685	75476745	125	15734										
SLC12A8	84561	broad.mit.edu	37	chr3	124802767	124802767	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atcagctgctcccggttcacGagggaggagtggtggtagcg	17	9	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:124802767G>A	uc003ehv.3	-	14	2223	c.2112C>T	c.(2110-2112)CTC>CTT	p.L704L	SLC12A8_uc003ehw.3_Silent_p.L733L|SLC12A8_uc003eht.3_Silent_p.L505L|SLC12A8_uc003ehu.3_Silent_p.L457L|SLC12A8_uc010hry.2_3'UTR	NM_024628	NP_078904	A0AV02	S12A8_HUMAN	solute carrier family 12, member 8	704					potassium ion transport	integral to membrane	symporter activity				0						CCCGGTTCACGAGGGAGGAGT	0.577													10	46	---	---	---	---	PASS	A	124802767	A	A	124802767	2	1	41	1	0	0	0	0	0	0	0	1	14389	1045	37	2		2	SLC12A8	3	124802767	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	2257082	124802767	73219663	126	15735										
ZNF148	7707	broad.mit.edu	37	chr3	124952367	124952367	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttttgctccagtggctgtttCagacttctcttactattaat	6	9	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:124952367C>A	uc003ehx.3	-	9	1689	c.1203G>T	c.(1201-1203)CTG>CTT	p.L401L	SLC12A8_uc003ehw.3_Intron|ZNF148_uc003ehz.3_Silent_p.L401L|ZNF148_uc010hsa.2_Silent_p.L401L|ZNF148_uc003eia.3_Silent_p.L401L|ZNF148_uc003ehy.2_Intron	NM_021964	NP_068799	Q9UQR1	ZN148_HUMAN	zinc finger protein 148	401					cellular defense response|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4						GTGGCTGTTTCAGACTTCTCT	0.388													25	57	---	---	---	---	PASS	A	124952367	A	A	124952367	2	1	41	1	0	0	0	0	0	0	0	1	17731	813	29	2		2	ZNF148	3	124952367	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	149600	124952367	73070063	127	15736										
ALDH1L1	10840	broad.mit.edu	37	chr3	125822661	125822661	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcgaaggtcactgtcttgacCcgcaggtactcgttcagagc	11	12	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:125822661C>A	uc003eim.1	-	23	2872	c.2682G>T	c.(2680-2682)CGG>CGT	p.R894R	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Silent_p.R793R|SLC41A3_uc011bkh.1_5'Flank	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	894	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	CTGTCTTGACCCGCAGGTACT	0.577													10	34	---	---	---	---	PASS	A	125822661	A	A	125822661	2	1	41	1	0	0	0	0	0	0	0	1	494	610	22	3		3	ALDH1L1	3	125822661	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	870294	125822661	72199769	128	15737										
COL6A6	131873	broad.mit.edu	37	chr3	130290100	130290100	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cattcttgtcctggctgtggGgattgatggtgccaatcccg	13	10	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:130290100G>T	uc010htl.2	+	6	2871	c.2840G>T	c.(2839-2841)GGG>GTG	p.G947V		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	947	VWFA 5.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CTGGCTGTGGGGATTGATGGT	0.507													45	66	---	---	---	---	PASS	T	130290100	T	T	130290100	3	4	41	1	0	0	0	0	1	0	0	0	3703	1232	43	3	2862	3	COL6A6	3	130290100	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	4467439	130290100	67732330	129	15738										
CPNE4	131034	broad.mit.edu	37	chr3	131300447	131300447	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacagattcagaatcacagtGcctgagttcttgtaattctt	7	9	4	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:131300447G>T	uc003eok.2	-	9	1278	c.843C>A	c.(841-843)GGC>GGA	p.G281G	CPNE4_uc011blq.1_Silent_p.G299G|CPNE4_uc003eol.2_Silent_p.G299G|CPNE4_uc003eom.2_Silent_p.G281G	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	281										upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						GAATCACAGTGCCTGAGTTCT	0.463													47	111	---	---	---	---	PASS	T	131300447	T	T	131300447	2	4	41	1	0	0	0	0	0	0	0	1	3814	1306	46	3		3	CPNE4	3	131300447	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	1010347	131300447	66721983	130	15739										
ATR	545	broad.mit.edu	37	chr3	142185204	142185204	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aatataggcccaatgtccagGaaatggttcatggctagcat	10	8	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:142185204G>T	uc003eux.3	-	40	6981	c.6859C>A	c.(6859-6861)CCT>ACT	p.P2287T	ATR_uc003euy.1_Missense_Mutation_p.P173T	NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	2287					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						CAATGTCCAGGAAATGGTTCA	0.348								Other_conserved_DNA_damage_response_genes					55	161	---	---	---	---	PASS	T	142185204	T	T	142185204	3	4	41	1	0	0	0	0	1	0	0	0	1204	1174	41	2	1107	2	ATR	3	142185204	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	10884757	142185204	55837226	131	15740										
PAQR9	344838	broad.mit.edu	37	chr3	142681874	142681874	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cgctcaggaagaacagacggCagaacttgctcaggaacagc	12	11	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:142681874C>T	uc003evg.2	-	1	305	c.305G>A	c.(304-306)TGC>TAC	p.C102Y	PAQR9_uc003evf.1_5'Flank	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	102	Helical; (Potential).					integral to membrane	receptor activity				0						GAACAGACGGCAGAACTTGCT	0.627													21	38	---	---	---	---	PASS	T	142681874	T	T	142681874	3	4	41	1	0	0	0	0	1	0	0	0	11442	710	25	3	832	3	PAQR9	3	142681874	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	496670	142681874	55340556	132	15741										
SLC9A9	285195	broad.mit.edu	37	chr3	143412060	143412060	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgtagcagacatcagtgaaCcaaaaaataaacagtcagtg	8	8	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:143412060C>G	uc003evn.2	-	5	805	c.623G>C	c.(622-624)GGT>GCT	p.G208A	SLC9A9_uc011bnk.1_Missense_Mutation_p.G82A	NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	208	Helical; (Potential).				regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						CATCAGTGAACCAAAAAATAA	0.338													12	122	---	---	---	---	PASS	G	143412060	G	G	143412060	3	3	41	1	0	0	0	0	1	0	0	0	14721	507	18	4	1362	4	SLC9A9	3	143412060	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	730186	143412060	54610370	133	15742										
PLSCR2	57047	broad.mit.edu	37	chr3	146173210	146173210	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tctgcccaaagctgttcttgAtttcatacatgttactactt	5	10	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:146173210A>G	uc003evv.1	-	5	470	c.137T>C	c.(136-138)ATC>ACC	p.I46T	PLSCR2_uc003evw.1_Missense_Mutation_p.I115T	NM_020359	NP_065092	Q9NRY7	PLS2_HUMAN	phospholipid scramblase 2	46	Cytoplasmic (By similarity).				phospholipid scrambling	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity				0						GCTGTTCTTGATTTCATACAT	0.328													30	278	---	---	---	---	PASS	G	146173210	G	G	146173210	3	3	41	1	0	0	0	0	1	0	0	0	12110	333	12	5	553	5	PLSCR2	3	146173210	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	2761150	146173210	51849220	134	15743										
CPA3	1359	broad.mit.edu	37	chr3	148583320	148583320	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcagacatcataaaggacttGgccaaaaccaatgaggtaag	10	8	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:148583320G>T	uc003ewm.2	+	2	181	c.129G>T	c.(127-129)TTG>TTT	p.L43F		NM_001870	NP_001861	P15088	CBPA3_HUMAN	carboxypeptidase A3 precursor	43					proteolysis	stored secretory granule|transport vesicle	metallocarboxypeptidase activity|zinc ion binding			breast(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			TAAAGGACTTGGCCAAAACCA	0.393													60	51	---	---	---	---	PASS	T	148583320	T	T	148583320	3	4	41	1	0	0	0	0	1	0	0	0	3791	1339	47	3	135	3	CPA3	3	148583320	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2410110	148583320	49439110	135	15744										
WWTR1	25937	broad.mit.edu	37	chr3	149260288	149260288	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggttctgctggctcagggtaCtgggggccatctgctgctgg	17	10	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:149260288C>A	uc003exe.2	-	3	621	c.605G>T	c.(604-606)AGT>ATT	p.S202I	WWTR1_uc003exf.2_Missense_Mutation_p.S202I|WWTR1_uc011bns.1_Missense_Mutation_p.S202I|WWTR1_uc003exh.2_Missense_Mutation_p.S202I	NM_015472	NP_056287	Q9GZV5	WWTR1_HUMAN	WW domain containing transcription regulator 1	202	Gln-rich.				hippo signaling cascade|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of protein kinase activity|negative regulation of protein phosphorylation|positive regulation of cell proliferation|positive regulation of epithelial to mesenchymal transition|regulation of SMAD protein import into nucleus|stem cell division|transcription, DNA-dependent	cytoplasm	transcription coactivator activity			breast(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			GCTCAGGGTACTGGGGGCCAT	0.537													23	192	---	---	---	---	PASS	A	149260288	A	A	149260288	3	1	41	1	0	0	0	0	1	0	0	0	17414	565	20	3	613	3	WWTR1	3	149260288	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	676968	149260288	48762142	136	15745										
MED12L	116931	broad.mit.edu	37	chr3	150883274	150883274	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccgtgcagtggaagttcggtGgtcatttgacaagtgccaag	14	8	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:150883274G>T	uc003eyp.2	+	9	1363	c.1325G>T	c.(1324-1326)TGG>TTG	p.W442L	MED12L_uc011bnz.1_Missense_Mutation_p.W302L|MED12L_uc003eyn.2_Missense_Mutation_p.W442L|MED12L_uc003eyo.2_Missense_Mutation_p.W442L	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	442					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)			GAAGTTCGGTGGTCATTTGAC	0.418													40	48	---	---	---	---	PASS	T	150883274	T	T	150883274	3	4	41	1	0	0	0	0	1	0	0	0	9429	1357	47	3	1359	3	MED12L	3	150883274	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1622986	150883274	47139156	137	15746										
IGSF10	285313	broad.mit.edu	37	chr3	151166180	151166180	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccaattttccacttttgtctAttaggatccgtccatcctca	4	13	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:151166180A>G	uc011bod.1	-	4	1589	c.1589T>C	c.(1588-1590)ATA>ACA	p.I530T		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	530	Ig-like C2-type 1.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ACTTTTGTCTATTAGGATCCG	0.468													190	238	---	---	---	---	PASS	G	151166180	G	G	151166180	3	3	41	1	0	0	0	0	1	0	0	0	7597	449	16	5	6342	5	IGSF10	3	151166180	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	282906	151166180	46856250	138	15747										
AADAC	13	broad.mit.edu	37	chr3	151538218	151538218	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gatggacagcagacagacttGatgctgtcgtcgtatcaacc	11	10	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:151538218G>A	uc003eze.2	+	3	499	c.409G>A	c.(409-411)GAT>AAT	p.D137N		NM_001086	NP_001077	P22760	AAAD_HUMAN	arylacetamide deacetylase	137	Lumenal (Potential).				positive regulation of triglyceride catabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	carboxylesterase activity|deacetylase activity|serine hydrolase activity|triglyceride lipase activity			skin(2)	2		Myeloproliferative disorder(1037;0.0255)|all_neural(597;0.112)	LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			AGACAGACTTGATGCTGTCGT	0.373													48	125	---	---	---	---	PASS	A	151538218	A	A	151538218	3	1	41	1	0	0	0	0	1	0	0	0	10	1290	45	2	419	2	AADAC	3	151538218	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	372038	151538218	46484212	139	15748										
GFM1	85476	broad.mit.edu	37	chr3	158366843	158366843	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttttcaggtctaaactaaatCataatgcagcgtttatgcag	7	7	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:158366843C>A	uc003fce.2	+	5	693	c.586C>A	c.(586-588)CAT>AAT	p.H196N	GFM1_uc003fcd.2_Missense_Mutation_p.H196N|GFM1_uc003fcf.2_RNA|GFM1_uc003fcg.2_Missense_Mutation_p.H108N	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor	196					mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			TAAACTAAATCATAATGCAGC	0.323													11	603	---	---	---	---	PASS	A	158366843	A	A	158366843	3	1	41	1	0	0	0	0	1	0	0	0	6341	826	29	2	604	2	GFM1	3	158366843	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	6828625	158366843	39655587	140	15749										
SLITRK3	22865	broad.mit.edu	37	chr3	164906771	164906771	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gattctccagctggtgcaacGtgcagcatctctgggcaaag	12	11	2	0	rs35378268		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:164906771G>T	uc003fej.3	-	2	2292	c.1848C>A	c.(1846-1848)CAC>CAA	p.H616Q	SLITRK3_uc003fek.2_Missense_Mutation_p.H616Q	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	616	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						CTGGTGCAACGTGCAGCATCT	0.557										HNSCC(40;0.11)			44	37	---	---	---	---	PASS	T	164906771	T	T	164906771	3	4	41	1	0	0	0	0	1	0	0	0	14744	1136	40	1	1089	1	SLITRK3	3	164906771	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6539928	164906771	33115659	141	15750										
ZBBX	79740	broad.mit.edu	37	chr3	167031866	167031866	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gttgatggatgccattttcaTatggaaagctattcttctga	9	6	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:167031866T>A	uc003fep.2	-	16	1636	c.1313A>T	c.(1312-1314)TAT>TTT	p.Y438F	ZBBX_uc011bpc.1_Missense_Mutation_p.Y438F|ZBBX_uc003feq.2_Missense_Mutation_p.Y409F	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	438						intracellular	zinc ion binding			ovary(2)	2						GCCATTTTCATATGGAAAGCT	0.289													194	162	---	---	---	---	PASS	A	167031866	A	A	167031866	3	1	41	1	0	0	0	0	1	0	0	0	17513	1406	49	5	1113	5	ZBBX	3	167031866	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	2125095	167031866	30990564	142	15751										
WDR49	151790	broad.mit.edu	37	chr3	167245807	167245807	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tggagttaagacagtactccTgaatgaaaagaaataccaga	9	6	0	5			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:167245807T>C	uc003fev.1	-	11	1657	c.1351_splice	c.e11-1	p.E451_splice	WDR49_uc003feu.1_Splice_Site_p.E276_splice|WDR49_uc011bpd.1_Intron|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49											large_intestine(1)|ovary(1)|skin(1)	3						ACAGTACTCCTGAATGAAAAG	0.348													61	165	---	---	---	---	PASS	C	167245807	C	C	167245807	5	2	41	1	0	0	0	0	0	0	1	0	17299	1594	55	5	764	5	WDR49	3	167245807	Splice_Site	SNP	T	TCGA-22-4613-01A-01D-1441-08	213941	167245807	30776623	143	15752										
PRKCI	5584	broad.mit.edu	37	chr3	169998110	169998110	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggaagaggaagttatgccaaAgtactgttggttcgattaaa	12	4	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:169998110A>T	uc003fgs.2	+	9	1039	c.801A>T	c.(799-801)AAA>AAT	p.K267N		NM_002740	NP_002731	P41743	KPCI_HUMAN	protein kinase C, iota	267	ATP (By similarity).|Protein kinase.				anti-apoptosis|cellular membrane organization|cellular response to insulin stimulus|establishment or maintenance of epithelial cell apical/basal polarity|intracellular signal transduction|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|protein targeting to membrane|secretion|tight junction assembly|vesicle-mediated transport	cytosol|endosome|nucleus|polarisome	ATP binding|phospholipid binding|protein binding|protein kinase C activity|zinc ion binding			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			GTTATGCCAAAGTACTGTTGG	0.378													156	112	---	---	---	---	PASS	T	169998110	T	T	169998110	3	4	41	1	0	0	0	0	1	0	0	0	12514	69	3	5	835	5	PRKCI	3	169998110	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	2752303	169998110	28024320	144	15753										
ECT2	1894	broad.mit.edu	37	chr3	172482145	172482145	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agcaatcgcaaacgacgtcgTttaaaagaaacacttgctca	7	10	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:172482145T>G	uc003fii.2	+	11	1191	c.1053T>G	c.(1051-1053)CGT>CGG	p.R351R	ECT2_uc010hwv.1_Silent_p.R382R|ECT2_uc003fih.2_Silent_p.R350R|ECT2_uc003fij.1_Silent_p.R351R|ECT2_uc003fik.1_Silent_p.R351R|ECT2_uc003fil.1_Silent_p.R382R	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	351					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			AACGACGTCGTTTAAAAGAAA	0.458													17	240	---	---	---	---	PASS	G	172482145	G	G	172482145	2	3	41	1	0	0	0	0	0	0	0	1	4901	1712	60	5		5	ECT2	3	172482145	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	2484035	172482145	25540285	145	15754										
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atcctctctctgaaatcactGagcaggagaaagattttcta	7	9	4	4	rs104886003		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			83	156	---	---	---	---	PASS	A	178936091	A	A	178936091	3	1	41	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6453946	178936091	19086339	146	15755										
SOX2	6657	broad.mit.edu	37	chr3	181430281	181430281	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cggaccgcgtcaagcggcccAtgaatgccttcatggtgtgg	14	12	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:181430281A>T	uc003fkx.2	+	1	560	c.133A>T	c.(133-135)ATG>TTG	p.M45L	SOX2OT_uc003fkv.2_Intron|SOX2OT_uc003fkw.3_Intron	NM_003106	NP_003097	P48431	SOX2_HUMAN	sex-determining region Y-box 2	45	HMG box.				cell cycle arrest|chromatin organization|eye development|glial cell fate commitment|inner ear development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell proliferation|negative regulation of neuron differentiation|osteoblast differentiation|pituitary gland development|positive regulation of MAPKKK cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of caspase activity|response to growth factor stimulus|response to wounding|somatic stem cell maintenance	cytosol|transcription factor complex	miRNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0	all_cancers(143;1.22e-16)|Ovarian(172;0.0283)		all cancers(12;1.82e-48)|Epithelial(37;9.85e-40)|OV - Ovarian serous cystadenocarcinoma(80;7.37e-23)|Lung(8;2.01e-21)|GBM - Glioblastoma multiforme(1;2.13e-08)			CAAGCGGCCCATGAATGCCTT	0.701			A		NSCLC|oesophageal squamous carcinoma		MICROPHTHALMIA AND ESOPHAGEAL ATRESIA SYNDROME						26	58	---	---	---	---	PASS	T	181430281	T	T	181430281	3	4	41	1	0	0	0	0	1	0	0	0	14949	217	8	5	135	5	SOX2	3	181430281	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	2494190	181430281	16592149	147	15756										
MCF2L2	23101	broad.mit.edu	37	chr3	182947453	182947453	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ataacatgaattattatataCctgttgtgaaattcgtaaag	6	4	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:182947453C>A	uc003fli.1	-	17	2135	c.2045_splice	c.e17+1	p.R682_splice	MCF2L2_uc003flj.1_Splice_Site_p.R682_splice	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor						regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TTATTATATACCTGTTGTGAA	0.333													190	171	---	---	---	---	PASS	A	182947453	A	A	182947453	5	1	41	1	0	0	0	0	0	0	1	0	9380	521	18	3	1354	3	MCF2L2	3	182947453	Splice_Site	SNP	C	TCGA-22-4613-01A-01D-1441-08	1517172	182947453	15074977	148	15757										
MAP3K13	9175	broad.mit.edu	37	chr3	185184731	185184731	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggaaaggagtgcctcacaaAtctgggatgcagaccaaacg	12	9	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:185184731A>G	uc010hyf.2	+	11	1889	c.1623A>G	c.(1621-1623)AAA>AAG	p.K541K	MAP3K13_uc011brt.1_Silent_p.K334K|MAP3K13_uc011bru.1_Silent_p.K397K|MAP3K13_uc003fpi.2_Silent_p.K541K|MAP3K13_uc010hyg.2_Silent_p.K231K	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	541					activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			TGCCTCACAAATCTGGGATGC	0.463													16	174	---	---	---	---	PASS	G	185184731	G	G	185184731	2	3	41	1	0	0	0	0	0	0	0	1	9247	98	4	5		5	MAP3K13	3	185184731	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	2237278	185184731	12837699	149	15758										
ATP13A4	84239	broad.mit.edu	37	chr3	193174803	193174803	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acagacctgtctcaggttggCaaaagctggccaccctctct	9	14	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr3:193174803C>A	uc003ftd.2	-	16	2009	c.1901G>T	c.(1900-1902)TGC>TTC	p.C634F	ATP13A4_uc003fte.1_Missense_Mutation_p.C634F|ATP13A4_uc011bsr.1_Missense_Mutation_p.C105F|ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	634	Extracellular (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)		CTCAGGTTGGCAAAAGCTGGC	0.363													41	22	---	---	---	---	PASS	A	193174803	A	A	193174803	3	1	41	1	0	0	0	0	1	0	0	0	1126	710	25	3	1749	3	ATP13A4	3	193174803	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	7990072	193174803	4847627	150	15759										
ZNF721	170960	broad.mit.edu	37	chr4	435662	435662	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgccacattctccacatgtgTagggtttctctccagtatga	8	11	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:435662T>C	uc003gag.2	-	3	3285	c.2594A>G	c.(2593-2595)TAC>TGC	p.Y865C	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.Y897C|ZNF721_uc010ibe.2_Missense_Mutation_p.Y853C	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	865						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						TCCACATGTGTAGGGTTTCTC	0.418													30	61	---	---	---	---	PASS	C	435662	C	C	435662	3	2	41	1	0	0	0	0	1	0	0	0	18119	1638	57	5	181	5	ZNF721	4	435662	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08		435662	190718614	151	15760										
EVC2	132884	broad.mit.edu	37	chr4	5570322	5570322	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gagccggcgaagcgtggcccCgggcaccatggccatcctcg	15	16	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:5570322C>G	uc003gij.2	-	20	3460	c.3406G>C	c.(3406-3408)GGG>CGG	p.G1136R	EVC2_uc011bwb.1_Missense_Mutation_p.G576R|EVC2_uc003gik.2_Missense_Mutation_p.G1056R	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1136						integral to membrane				large_intestine(3)|ovary(2)	5						AGCGTGGCCCCGGGCACCATG	0.622													6	24	---	---	---	---	PASS	G	5570322	G	G	5570322	3	3	41	1	0	0	0	0	1	0	0	0	5286	652	23	4	532	4	EVC2	4	5570322	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	5134660	5570322	185583954	152	15761										
SLIT2	9353	broad.mit.edu	37	chr4	20525428	20525428	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgccttcgggtagatgctttTcaggatctccacaacttgaa	9	10	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:20525428T>C	uc003gpr.1	+	13	1380	c.1176T>C	c.(1174-1176)TTT>TTC	p.F392F	SLIT2_uc003gps.1_Silent_p.F392F	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	392	LRR 10.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TAGATGCTTTTCAGGATCTCC	0.408													60	138	---	---	---	---	PASS	C	20525428	C	C	20525428	2	2	41	1	0	0	0	0	0	0	0	1	14740	1780	62	5		5	SLIT2	4	20525428	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	14955106	20525428	170628848	153	15762										
PCDH7	5099	broad.mit.edu	37	chr4	30724425	30724425	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agaacggggtggtcacctgcAccgtggtgggcgacgtgccc	17	12	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:30724425A>C	uc003gsk.1	+	1	2389	c.1381A>C	c.(1381-1383)ACC>CCC	p.T461P	PCDH7_uc011bxw.1_Missense_Mutation_p.T414P|PCDH7_uc011bxx.1_Missense_Mutation_p.T461P	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	461	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GGTCACCTGCACCGTGGTGGG	0.642													12	29	---	---	---	---	PASS	C	30724425	C	C	30724425	3	2	41	1	0	0	0	0	1	0	0	0	11516	159	6	5	1383	5	PCDH7	4	30724425	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	10198997	30724425	160429851	154	15763										
UGDH	7358	broad.mit.edu	37	chr4	39523086	39523086	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgacactacatgtgggtcctCcaacatagcctgcaccgatg	9	13	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:39523086C>A	uc003guk.1	-	2	363	c.47G>T	c.(46-48)GGA>GTA	p.G16V	UGDH_uc011byp.1_Intron|UGDH_uc003gul.1_Missense_Mutation_p.G16V	NM_003359	NP_003350	O60701	UGDH_HUMAN	UDP-glucose dehydrogenase	16	NAD.				glycosaminoglycan biosynthetic process|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	electron carrier activity|NAD binding|UDP-glucose 6-dehydrogenase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4					NADH(DB00157)	TGTGGGTCCTCCAACATAGCC	0.383													4	157	---	---	---	---	PASS	A	39523086	A	A	39523086	3	1	41	1	0	0	0	0	1	0	0	0	16937	855	30	2	1481	2	UGDH	4	39523086	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	8798661	39523086	151631190	155	15764										
BEND4	389206	broad.mit.edu	37	chr4	42119660	42119660	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caccgcccgcccctgtcgggCgtgaccgacagcgtcgctga	13	18	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:42119660C>G	uc003gwn.2	-	6	2060	c.1480G>C	c.(1480-1482)GCC>CCC	p.A494P	BEND4_uc003gwm.2_3'UTR	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	494	BEN.										0						CCCTGTCGGGCGTGACCGACA	0.527													5	11	---	---	---	---	PASS	G	42119660	G	G	42119660	3	3	41	1	0	0	0	0	1	0	0	0	1400	768	27	4	128	4	BEND4	4	42119660	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2596574	42119660	149034616	156	15765										
ATP8A1	10396	broad.mit.edu	37	chr4	42446601	42446601	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agatattttcttacccatgtCcaatatgatgtctccaatcc	4	11	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:42446601C>T	uc003gwr.2	-	32	3241	c.3009G>A	c.(3007-3009)TGG>TGA	p.W1003*	ATP8A1_uc003gwq.2_Nonsense_Mutation_p.W229*|ATP8A1_uc003gws.2_Nonsense_Mutation_p.W988*	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	1003	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	TTACCCATGTCCAATATGATG	0.363													15	50	---	---	---	---	PASS	T	42446601	T	T	42446601	4	4	41	1	0	0	0	0	0	1	0	0	1192	856	30	2	509	2	ATP8A1	4	42446601	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	326941	42446601	148707675	157	15766										
GRXCR1	389207	broad.mit.edu	37	chr4	42895516	42895516	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgagaatgagaatgaccaggAtagcttgctggtgttagcaa	13	5	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:42895516A>G	uc003gwt.2	+	1	233	c.233A>G	c.(232-234)GAT>GGT	p.D78G		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	78					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						AATGACCAGGATAGCTTGCTG	0.463													38	83	---	---	---	---	PASS	G	42895516	G	G	42895516	3	3	41	1	0	0	0	0	1	0	0	0	6812	333	12	5	235	5	GRXCR1	4	42895516	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	448915	42895516	148258760	158	15767										
KDR	3791	broad.mit.edu	37	chr4	55979624	55979624	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agactgggtttttaggtctcGgtttacaagtttcttatgct	10	6	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:55979624G>A	uc003has.2	-	7	1125	c.823C>T	c.(823-825)CGA>TGA	p.R275*	KDR_uc003hat.1_Nonsense_Mutation_p.R275*|KDR_uc011bzx.1_Nonsense_Mutation_p.R275*	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	275	Ig-like C2-type 3.|Extracellular (Potential).		R -> L (in a colorectal cancer sample; somatic mutation).		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	p.R275L(1)		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)	TTTAGGTCTCGGTTTACAAGT	0.398			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			26	77	---	---	---	---	PASS	A	55979624	A	A	55979624	4	1	41	1	0	0	0	0	0	1	0	0	8139	1124	39	1	3343	1	KDR	4	55979624	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	13084108	55979624	135174652	159	15768										
LPHN3	23284	broad.mit.edu	37	chr4	62800567	62800567	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcctcttgtaggcaatggtcGagacagttaacaacctcctt	8	11	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:62800567G>C	uc010ihh.2	+	11	2091	c.1918G>C	c.(1918-1920)GAG>CAG	p.E640Q	LPHN3_uc003hcq.3_Missense_Mutation_p.E640Q|LPHN3_uc003hct.2_Missense_Mutation_p.E33Q|LPHN3_uc003hcs.1_Missense_Mutation_p.E456Q	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	627	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GGCAATGGTCGAGACAGTTAA	0.488													10	31	---	---	---	---	PASS	C	62800567	C	C	62800567	3	2	41	1	0	0	0	0	1	0	0	0	8917	1059	37	2	1960	2	LPHN3	4	62800567	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6820943	62800567	128353709	160	15769										
EPHA5	2044	broad.mit.edu	37	chr4	66217280	66217280	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agagatacctctcagcatgcCaacaagctgaatcacagtga	8	11	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:66217280C>A	uc003hcy.2	-	14	2528	c.2335G>T	c.(2335-2337)GGC>TGC	p.G779C	EPHA5_uc003hcx.2_Missense_Mutation_p.G711C|EPHA5_uc003hcz.2_Missense_Mutation_p.G757C|EPHA5_uc011cah.1_Missense_Mutation_p.G780C|EPHA5_uc011cai.1_Missense_Mutation_p.G758C|EPHA5_uc003hda.2_Missense_Mutation_p.G780C	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	779	Cytoplasmic (Potential).|Protein kinase.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CTCAGCATGCCAACAAGCTGA	0.418										TSP Lung(17;0.13)			22	57	---	---	---	---	PASS	A	66217280	A	A	66217280	3	1	41	1	0	0	0	0	1	0	0	0	5170	594	21	3	798	3	EPHA5	4	66217280	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3416713	66217280	124936996	161	15770										
HTN3	3347	broad.mit.edu	37	chr4	70897695	70897695	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctcattttcttcttttccaaGggagctgattcacatgcaaa	6	10	4	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:70897695G>C	uc003hew.2	+	3	169	c.52_splice	c.e3-1	p.G18_splice		NM_000200	NP_000191	P15516	HIS3_HUMAN	histatin 3						biomineral tissue development|defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular region	metal ion binding|protein binding			ovary(1)|skin(1)	2						TCTTTTCCAAGGGAGCTGATT	0.234													5	153	---	---	---	---	PASS	C	70897695	C	C	70897695	5	2	41	1	0	0	0	0	0	0	1	0	7435	1014	35	4	57	4	HTN3	4	70897695	Splice_Site	SNP	G	TCGA-22-4613-01A-01D-1441-08	4680415	70897695	120256581	162	15771										
AMTN	401138	broad.mit.edu	37	chr4	71389637	71389637	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acagatgctcacactggggcCagatctgcatctggtaagtg	12	10	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:71389637C>A	uc003hfk.1	+	4	280	c.191C>A	c.(190-192)CCA>CAA	p.P64Q	AMTN_uc010ihy.1_Missense_Mutation_p.P63Q	NM_212557	NP_997722	Q6UX39	AMTN_HUMAN	amelotin precursor	64					biomineral tissue development|cell adhesion|odontogenesis of dentine-containing tooth	basal lamina|cell-cell junction				large_intestine(1)|central_nervous_system(1)	2			Lung(101;0.235)			ACACTGGGGCCAGATCTGCAT	0.398													72	203	---	---	---	---	PASS	A	71389637	A	A	71389637	3	1	41	1	0	0	0	0	1	0	0	0	590	594	21	3	201	3	AMTN	4	71389637	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	491942	71389637	119764639	163	15772										
NPFFR2	10886	broad.mit.edu	37	chr4	73012893	73012893	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtctactggtgccgggaagaCtggccaaatcaggaaatgag	14	8	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:73012893C>A	uc003hgg.2	+	4	1031	c.933C>A	c.(931-933)GAC>GAA	p.D311E	NPFFR2_uc010iig.1_Missense_Mutation_p.D93E|NPFFR2_uc003hgi.2_Missense_Mutation_p.D212E|NPFFR2_uc003hgh.2_Missense_Mutation_p.D209E|NPFFR2_uc003hgj.2_RNA	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	311	Extracellular (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			GCCGGGAAGACTGGCCAAATC	0.463													66	66	---	---	---	---	PASS	A	73012893	A	A	73012893	3	1	41	1	0	0	0	0	1	0	0	0	10578	564	20	3	953	3	NPFFR2	4	73012893	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1623256	73012893	118141383	164	15773										
CDKL2	8999	broad.mit.edu	37	chr4	76523342	76523342	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgttttgggattttttagaTaaagaaacatttctggcatc	8	5	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:76523342T>C	uc003hiq.2	-	8	1464	c.939A>G	c.(937-939)TTA>TTG	p.L313L	CDKL2_uc011cbp.1_Silent_p.L313L|CDKL2_uc010iix.1_RNA	NM_003948	NP_003939	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2	313					sex differentiation|signal transduction	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(2)|stomach(2)|breast(2)|skin(1)	7			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			ATTTTTTAGATAAAGAAACAT	0.289													81	106	---	---	---	---	PASS	C	76523342	C	C	76523342	2	2	41	1	0	0	0	0	0	0	0	1	3154	1403	49	5		5	CDKL2	4	76523342	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	3510449	76523342	114630934	165	15774										
ART3	419	broad.mit.edu	37	chr4	77003484	77003484	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	catattcagccaaacctcagGctgctaatgaccagctcact	6	14	3	1	rs142545952	byFrequency	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:77003484G>A	uc003hjo.2	+	3	696	c.577G>A	c.(577-579)GCT>ACT	p.A193T	ART3_uc003hji.2_Missense_Mutation_p.A193T|ART3_uc003hjj.2_Missense_Mutation_p.A193T|ART3_uc003hjk.2_Missense_Mutation_p.A193T|ART3_uc010ija.1_Missense_Mutation_p.A193T|ART3_uc003hjn.2_Missense_Mutation_p.A193T|ART3_uc003hjp.2_Intron|ART3_uc010ijb.2_Intron|ART3_uc003hjq.2_Intron|ART3_uc003hjr.2_Missense_Mutation_p.A163T|ART3_uc010ijc.2_Missense_Mutation_p.A163T|ART3_uc010ijd.2_Missense_Mutation_p.A163T	NM_001130016	NP_001123488	Q13508	NAR3_HUMAN	ADP-ribosyltransferase 3 isoform a	193					protein ADP-ribosylation	anchored to membrane|integral to plasma membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity			ovary(2)	2			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			CAAACCTCAGGCTGCTAATGA	0.403													22	65	---	---	---	---	PASS	A	77003484	A	A	77003484	3	1	41	1	0	0	0	0	1	0	0	0	998	1203	42	3	583	3	ART3	4	77003484	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	480142	77003484	114150792	166	15775										
FRAS1	80144	broad.mit.edu	37	chr4	79166399	79166399	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atgctcagggagaagtgcttCaaatagctgccaaccaatgc	10	10	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:79166399C>G	uc003hlb.2	+	4	669	c.229C>G	c.(229-231)CAA>GAA	p.Q77E	FRAS1_uc003hkw.2_Missense_Mutation_p.Q77E|FRAS1_uc003hky.1_5'UTR	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	77	VWFC 1.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						AGAAGTGCTTCAAATAGCTGC	0.428													5	13	---	---	---	---	PASS	G	79166399	G	G	79166399	3	3	41	1	0	0	0	0	1	0	0	0	6042	827	29	2	243	2	FRAS1	4	79166399	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2162915	79166399	111987877	167	15776										
FGF5	2250	broad.mit.edu	37	chr4	81188121	81188121	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tagaggctccagcagcagacAgagcagcagtagcgctatgt	13	10	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:81188121A>C	uc003hmd.2	+	1	380	c.143A>C	c.(142-144)CAG>CCG	p.Q48P	FGF5_uc003hme.2_Missense_Mutation_p.Q48P	NM_004464	NP_004455	P12034	FGF5_HUMAN	fibroblast growth factor 5 isoform 1 precursor	48					cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	fibroblast growth factor receptor binding|growth factor activity			ovary(1)|breast(1)	2						AGCAGCAGACAGAGCAGCAGT	0.627													21	41	---	---	---	---	PASS	C	81188121	C	C	81188121	3	2	41	1	0	0	0	0	1	0	0	0	5855	188	7	5	145	5	FGF5	4	81188121	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	2021722	81188121	109966155	168	15777										
HPSE	10855	broad.mit.edu	37	chr4	84216553	84216553	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaaaaaactatatgagaaagCtggcaagcccagtgaacttc	8	8	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:84216553C>T	uc003hoj.3	-	12	1675	c.1576G>A	c.(1576-1578)GCT>ACT	p.A526T	uc003hoi.2_5'Flank|HPSE_uc010ika.2_Missense_Mutation_p.A468T|HPSE_uc011ccq.1_RNA|HPSE_uc011ccr.1_RNA|HPSE_uc011ccs.1_Missense_Mutation_p.A269T|HPSE_uc011cct.1_Missense_Mutation_p.A452T|HPSE_uc003hok.3_Missense_Mutation_p.A526T	NM_001098540	NP_001092010	Q9Y251	HPSE_HUMAN	heparanase precursor	526					carbohydrate metabolic process|cell adhesion|proteoglycan metabolic process	extracellular region|lysosomal membrane|nucleus	beta-glucuronidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.114)		COAD - Colon adenocarcinoma(81;0.141)	Heparin(DB01109)	TATGAGAAAGCTGGCAAGCCC	0.388													54	65	---	---	---	---	PASS	T	84216553	T	T	84216553	3	4	41	1	0	0	0	0	1	0	0	0	7344	797	28	3	59	3	HPSE	4	84216553	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3028432	84216553	106937723	169	15778										
CXXC4	80319	broad.mit.edu	37	chr4	105393508	105393508	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccatcggaatgcttcagcgcTgggaacaggtgttctctata	11	10	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:105393508T>A	uc003hxg.2	-	2	583	c.568A>T	c.(568-570)AGC>TGC	p.S190C	uc003hxf.1_5'Flank|CXXC4_uc010ilo.2_RNA	NM_025212	NP_079488	Q9H2H0	CXXC4_HUMAN	CXXC finger 4	190					negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway|zygotic specification of dorsal/ventral axis		DNA binding|PDZ domain binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;3.05e-08)		GCTTCAGCGCTGGGAACAGGT	0.333													61	86	---	---	---	---	PASS	A	105393508	A	A	105393508	3	1	41	1	0	0	0	0	1	0	0	0	4098	1580	55	5	32	5	CXXC4	4	105393508	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	21176955	105393508	85760768	170	15779										
C4orf21	55345	broad.mit.edu	37	chr4	113540355	113540355	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tttaaacttccttgtggttgTttttgaggaaaatgctctgt	9	5	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:113540355T>C	uc003iau.2	-	6	1054	c.843A>G	c.(841-843)AAA>AAG	p.K281K	C4orf21_uc003iaw.2_Silent_p.K281K	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		CTTGTGGTTGTTTTTGAGGAA	0.373													87	110	---	---	---	---	PASS	C	113540355	C	C	113540355	2	2	41	1	0	0	0	0	0	0	0	1	2254	1722	60	5		5	C4orf21	4	113540355	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	8146847	113540355	77613921	171	15780										
NDST4	64579	broad.mit.edu	37	chr4	115997817	115997818	+	Frame_Shift_Ins	INS	-	T	T													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ataactaaagtatatttcccINStttgccattatctgtaagag							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:115997817_115997818insT	uc003ibu.2	-	2	1054_1055	c.375_376insA	c.(373-378)AAAGGGfs	p.K125fs	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	125_126	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		GTATATTTCCCTTTGCCATTAT	0.376													64	33	---	---	---	---		T	115997818	T	T	115997817	7	5	41	1	0	1	1	0	0	0	0	0	10258	681	24	0	2294	0	NDST4	4	115997817	Frame_Shift_Ins	INS	-	TCGA-22-4613-01A-01D-1441-08	2457462	115997817	75156459	172	15781										
BBS7	55212	broad.mit.edu	37	chr4	122749310	122749310	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggtccactaaccatagagtcTttcaagatgtgcaggttgct	10	9	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:122749310T>G	uc003ied.2	-	18	2179	c.2005A>C	c.(2005-2007)AGA>CGA	p.R669R	BBS7_uc003iee.1_Silent_p.R669R	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	669					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						CCATAGAGTCTTTCAAGATGT	0.393									Bardet-Biedl_syndrome				77	121	---	---	---	---	PASS	G	122749310	G	G	122749310	2	3	41	1	0	0	0	0	0	0	0	1	1341	1617	56	5		5	BBS7	4	122749310	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	6751493	122749310	68404966	173	15782										
SMAD1	4086	broad.mit.edu	37	chr4	146461124	146461124	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtttcctcactctcccaataGcagttacccaaactctcctg	4	16	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:146461124G>C	uc003ikc.2	+	3	985	c.569G>C	c.(568-570)AGC>ACC	p.S190T	SMAD1_uc003ikd.2_Missense_Mutation_p.S190T|SMAD1_uc010iov.2_Missense_Mutation_p.S190T|SMAD1_uc011cic.1_Missense_Mutation_p.S190T|SMAD1_uc003ikf.2_RNA	NM_005900	NP_005891	Q15797	SMAD1_HUMAN	Sma- and Mad-related protein 1	190					BMP signaling pathway|embryonic pattern specification|primary miRNA processing|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|nuclear inner membrane	co-SMAD binding|I-SMAD binding|identical protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity			ovary(1)	1	all_hematologic(180;0.151)					TCTCCCAATAGCAGTTACCCA	0.537													17	31	---	---	---	---	PASS	C	146461124	C	C	146461124	3	2	41	1	0	0	0	0	1	0	0	0	14757	971	34	4	575	4	SMAD1	4	146461124	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	23711814	146461124	44693152	174	15783										
RXFP1	59350	broad.mit.edu	37	chr4	159547986	159547986	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttccagggaccttgaaggcaAccatatccataatttaagaa	7	9	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:159547986A>G	uc003ipz.2	+	10	852	c.770A>G	c.(769-771)AAC>AGC	p.N257S	RXFP1_uc010iqj.1_Missense_Mutation_p.N86S|RXFP1_uc011cja.1_Intron|RXFP1_uc010iqo.2_Missense_Mutation_p.N257S|RXFP1_uc011cjb.1_Missense_Mutation_p.N203S|RXFP1_uc010iqk.2_Missense_Mutation_p.N125S|RXFP1_uc011cjc.1_Missense_Mutation_p.N176S|RXFP1_uc011cjd.1_Missense_Mutation_p.N176S|RXFP1_uc010iql.2_Intron|RXFP1_uc011cje.1_Missense_Mutation_p.N284S|RXFP1_uc010iqm.2_Missense_Mutation_p.N224S|RXFP1_uc011cjf.1_Missense_Mutation_p.N127S|RXFP1_uc010iqn.2_Missense_Mutation_p.N203S	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	257	Extracellular (Potential).|LRR 5.					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		CTTGAAGGCAACCATATCCAT	0.264													24	37	---	---	---	---	PASS	G	159547986	G	G	159547986	3	3	41	1	0	0	0	0	1	0	0	0	13759	43	2	5	808	5	RXFP1	4	159547986	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	13086862	159547986	31606290	175	15784										
FSTL5	56884	broad.mit.edu	37	chr4	162421275	162421275	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaaaacatagaacatgttccCaattcccagaccttaggaat	5	10	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:162421275C>A	uc003iqh.2	-	12	1787	c.1351G>T	c.(1351-1353)GGG>TGG	p.G451W	FSTL5_uc003iqi.2_Missense_Mutation_p.G450W|FSTL5_uc010iqv.2_Missense_Mutation_p.G441W	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	451						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		AACATGTTCCCAATTCCCAGA	0.333													7	13	---	---	---	---	PASS	A	162421275	A	A	162421275	3	1	41	1	0	0	0	0	1	0	0	0	6080	594	21	3	1212	3	FSTL5	4	162421275	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2873289	162421275	28733001	176	15785										
DDX60	55601	broad.mit.edu	37	chr4	169173723	169173723	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gggatttccaggttcttctcTagacacttcactagattatc	7	10	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:169173723T>C	uc003irp.2	-	27	3934	c.3642A>G	c.(3640-3642)CTA>CTG	p.L1214L		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	1214							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		GGTTCTTCTCTAGACACTTCA	0.388													117	143	---	---	---	---	PASS	C	169173723	C	C	169173723	2	2	41	1	0	0	0	0	0	0	0	1	4378	1509	53	5		5	DDX60	4	169173723	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	6752448	169173723	21980553	177	15786										
GALNTL6	442117	broad.mit.edu	37	chr4	173269755	173269755	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aatgaaggttggacttcactCctgcggaccatacacagtat	9	10	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:173269755C>A	uc003isv.2	+	5	1204	c.468C>A	c.(466-468)CTC>CTA	p.L156L		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	156	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						GGACTTCACTCCTGCGGACCA	0.428													75	87	---	---	---	---	PASS	A	173269755	A	A	173269755	2	1	41	1	0	0	0	0	0	0	0	1	6225	842	30	2		2	GALNTL6	4	173269755	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	4096032	173269755	17884521	178	15787										
ASB5	140458	broad.mit.edu	37	chr4	177138028	177138028	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acgtagctacatctataggtCgcagaagctctgtatttttg	9	8	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr4:177138028C>A	uc003iuq.1	-	6	819	c.803G>T	c.(802-804)CGA>CTA	p.R268L	ASB5_uc003iup.1_Missense_Mutation_p.R215L	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	268					intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		ATCTATAGGTCGCAGAAGCTC	0.368													44	83	---	---	---	---	PASS	A	177138028	A	A	177138028	3	1	41	1	0	0	0	0	1	0	0	0	1026	884	31	2	194	2	ASB5	4	177138028	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3868273	177138028	14016248	179	15788										
PLEKHG4B	153478	broad.mit.edu	37	chr5	162987	162987	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgctgaagcctcatgccctgGggaaaccgtgggcatcacag	13	12	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:162987G>C	uc003jak.2	+	11	1782	c.1732G>C	c.(1732-1734)GGG>CGG	p.G578R		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	578					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		TCATGCCCTGGGGAAACCGTG	0.647													6	9	---	---	---	---	PASS	C	162987	C	C	162987	3	2	41	1	0	0	0	0	1	0	0	0	12072	1232	43	4	1774	4	PLEKHG4B	5	162987	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08		162987	180752273	180	15789										
TAS2R1	50834	broad.mit.edu	37	chr5	9629767	9629767	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaccccaggatcatccatggGaccagcttggatatcctcat	9	13	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:9629767G>A	uc003jem.1	-	1	697	c.378C>T	c.(376-378)GTC>GTT	p.V126V		NM_019599	NP_062545	Q9NYW7	TA2R1_HUMAN	taste receptor T2R1	126	Helical; Name=4; (Potential).				chemosensory behavior|sensory perception of taste	integral to membrane	taste receptor activity			ovary(3)	3						TCATCCATGGGACCAGCTTGG	0.458													28	65	---	---	---	---	PASS	A	9629767	A	A	9629767	2	1	41	1	0	0	0	0	0	0	0	1	15562	1161	41	2		2	TAS2R1	5	9629767	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	9466780	9629767	171285493	181	15790										
FAM173B	134145	broad.mit.edu	37	chr5	10239306	10239306	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agacttttcgaagggctggcGttacaaacggcgtggctaca	13	9	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:10239306G>C	uc003jeo.2	-	2	208	c.179C>G	c.(178-180)ACG>AGG	p.T60R	FAM173B_uc003jep.2_RNA|FAM173B_uc010itr.2_Missense_Mutation_p.T60R	NM_199133	NP_954584	Q6P4H8	F173B_HUMAN	hypothetical protein LOC134145	60						integral to membrane				kidney(1)|central_nervous_system(1)	2						AAGGGCTGGCGTTACAAACGG	0.502													16	146	---	---	---	---	PASS	C	10239306	C	C	10239306	3	2	41	1	0	0	0	0	1	0	0	0	5494	1145	40	4	538	4	FAM173B	5	10239306	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	609539	10239306	170675954	182	15791										
PRDM9	56979	broad.mit.edu	37	chr5	23521285	23521285	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gacagcactcaagactaaaaCtgggtaagaaaaaatatttg	8	6	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:23521285C>A	uc003jgo.2	+	6	687	c.505C>A	c.(505-507)CTG>ATG	p.L169M		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	169					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AAGACTAAAACTGGGTAAGAA	0.463										HNSCC(3;0.000094)			76	64	---	---	---	---	PASS	A	23521285	A	A	23521285	3	1	41	1	0	0	0	0	1	0	0	0	12463	564	20	3	523	3	PRDM9	5	23521285	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	13281979	23521285	157393975	183	15792										
CDH9	1007	broad.mit.edu	37	chr5	26881478	26881478	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcttcgatggataaaatcttGtacatcaatattttcccaca	4	9	3	0	rs113264250		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:26881478G>A	uc003jgs.1	-	12	2306	c.2137C>T	c.(2137-2139)CAA>TAA	p.Q713*	CDH9_uc011cnv.1_Nonsense_Mutation_p.Q306*	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	713	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						ATAAAATCTTGTACATCAATA	0.418													128	123	---	---	---	---	PASS	A	26881478	A	A	26881478	4	1	41	1	0	0	0	0	0	1	0	0	3117	1386	48	3	236	3	CDH9	5	26881478	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	3360193	26881478	154033782	184	15793										
ZFR	51663	broad.mit.edu	37	chr5	32380216	32380216	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtggcgtagagcagccagagCgtcaaggcatttttgcctgt	14	9	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:32380216C>A	uc003jhr.1	-	16	2784	c.2704G>T	c.(2704-2706)GCT>TCT	p.A902S	ZFR_uc010ium.1_Missense_Mutation_p.A33S|ZFR_uc011cny.1_Intron	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	902	DZF.				multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		GCAGCCAGAGCGTCAAGGCAT	0.448													65	98	---	---	---	---	PASS	A	32380216	A	A	32380216	3	1	41	1	0	0	0	0	1	0	0	0	17656	768	27	1	540	1	ZFR	5	32380216	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	5498738	32380216	148535044	185	15794										
ADAMTS12	81792	broad.mit.edu	37	chr5	33576688	33576688	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tctccatttctggacctttgGtcaaggtattgtaaaatgga	9	7	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:33576688G>T	uc003jia.1	-	19	3606	c.3443C>A	c.(3442-3444)ACC>AAC	p.T1148N	ADAMTS12_uc010iuq.1_Missense_Mutation_p.T1063N	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1148	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TGGACCTTTGGTCAAGGTATT	0.473										HNSCC(64;0.19)			51	166	---	---	---	---	PASS	T	33576688	T	T	33576688	3	4	41	1	0	0	0	0	1	0	0	0	257	1261	44	3	1365	3	ADAMTS12	5	33576688	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1196472	33576688	147338572	186	15795										
RAI14	26064	broad.mit.edu	37	chr5	34811911	34811911	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgtgagattggcagctctaaCgctgtggaagccttaattaa	11	7	1	1	rs143309351		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:34811911C>T	uc003jir.2	+	9	793	c.597C>T	c.(595-597)AAC>AAT	p.N199N	RAI14_uc010iur.2_Silent_p.N199N|RAI14_uc011coj.1_Silent_p.N199N|RAI14_uc010ius.1_Silent_p.N128N|RAI14_uc003jis.2_Silent_p.N202N|RAI14_uc003jit.2_Silent_p.N199N|RAI14_uc011cok.1_Silent_p.N191N	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	199	ANK 6.					cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					GCAGCTCTAACGCTGTGGAAG	0.388													12	169	---	---	---	---	PASS	T	34811911	T	T	34811911	2	4	41	1	0	0	0	0	0	0	0	1	13008	535	19	1		1	RAI14	5	34811911	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1235223	34811911	146103349	187	15796										
UGT3A2	167127	broad.mit.edu	37	chr5	36049139	36049139	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gagacaaaactggcctagagCcttctgtgaaatgttccttg	10	9	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:36049139C>T	uc003jjz.1	-	4	788	c.695G>A	c.(694-696)GGC>GAC	p.G232D	UGT3A2_uc011cos.1_Missense_Mutation_p.G198D|UGT3A2_uc011cot.1_Intron	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	232	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGGCCTAGAGCCTTCTGTGAA	0.438													38	206	---	---	---	---	PASS	T	36049139	T	T	36049139	3	4	41	1	0	0	0	0	1	0	0	0	16961	739	26	3	892	3	UGT3A2	5	36049139	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1237228	36049139	144866121	188	15797										
C6	729	broad.mit.edu	37	chr5	41181661	41181661	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtcatcttctgcagtttgtaCctggagaaaaatccatgtaa	8	8	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:41181661C>A	uc003jmk.2	-	7	937	c.727G>T	c.(727-729)GTA>TTA	p.V243L	C6_uc003jml.1_Missense_Mutation_p.V243L	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	243	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				GCAGTTTGTACCTGGAGAAAA	0.313													27	62	---	---	---	---	PASS	A	41181661	A	A	41181661	3	1	41	1	0	0	0	0	1	0	0	0	2315	521	18	3	2125	3	C6	5	41181661	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	5132522	41181661	139733599	189	15798										
HTR1A	3350	broad.mit.edu	37	chr5	63256745	63256745	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agcacccccagccttgctctCcacgcccagcctccagttcc	6	22	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:63256745C>A	uc011cqt.1	-	1	802	c.802G>T	c.(802-804)GAG>TAG	p.E268*		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	268	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	GCCTTGCTCTCCACGCCCAGC	0.667													39	64	---	---	---	---	PASS	A	63256745	A	A	63256745	4	1	41	1	0	0	0	0	0	1	0	0	7436	864	30	2	469	2	HTR1A	5	63256745	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	22075084	63256745	117658515	190	15799										
CCNB1	891	broad.mit.edu	37	chr5	68470110	68470110	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtcagaccaaaatacctactGggtcgggaagtcactggaaa	11	9	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:68470110G>C	uc003jvm.2	+	5	756	c.579G>C	c.(577-579)CTG>CTC	p.L193L	CCNB1_uc011crd.1_Silent_p.L193L|CCNB1_uc010ixb.2_Silent_p.L193L	NM_031966	NP_114172	P14635	CCNB1_HUMAN	cyclin B1	193					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitotic cell cycle spindle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|mitotic spindle stabilization|positive regulation of attachment of spindle microtubules to kinetochore|positive regulation of mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	condensed nuclear chromosome outer kinetochore|cytosol|microtubule organizing center|nucleoplasm|spindle pole					0		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		AATACCTACTGGGTCGGGAAG	0.418													47	62	---	---	---	---	PASS	C	68470110	C	C	68470110	2	2	41	1	0	0	0	0	0	0	0	1	2911	1335	47	4		4	CCNB1	5	68470110	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	5213365	68470110	112445150	191	15800										
ERAP2	64167	broad.mit.edu	37	chr5	96235862	96235862	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttttacatctggtggagtttGtcattcggatcccaagatga	10	7	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:96235862G>T	uc003kmq.2	+	10	2251	c.1541G>T	c.(1540-1542)TGT>TTT	p.C514F	uc003kmo.1_Intron|ERAP2_uc003kmt.2_Missense_Mutation_p.C514F|ERAP2_uc003kmr.2_RNA|ERAP2_uc003kms.2_Missense_Mutation_p.C463F|ERAP2_uc003kmu.2_RNA	NM_022350	NP_071745	Q6P179	ERAP2_HUMAN	endoplasmic reticulum aminopeptidase 2	514	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|proteolysis|regulation of blood pressure	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding				0		all_cancers(142;0.000311)|all_epithelial(76;1.54e-06)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0596)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0703)		GGTGGAGTTTGTCATTCGGAT	0.403													54	81	---	---	---	---	PASS	T	96235862	T	T	96235862	3	4	41	1	0	0	0	0	1	0	0	0	5204	1377	48	3	1575	3	ERAP2	5	96235862	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	27765752	96235862	84679398	192	15801										
GRAMD3	65983	broad.mit.edu	37	chr5	125816199	125816199	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caacttacaaactactaaaaTctgtgtgtggacacttagaa	6	8	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:125816199T>G	uc003ktu.2	+	7	1064	c.634T>G	c.(634-636)TCT>GCT	p.S212A	GRAMD3_uc011cwt.1_Missense_Mutation_p.S227A|GRAMD3_uc011cwv.1_Missense_Mutation_p.S220A|GRAMD3_uc011cww.1_Missense_Mutation_p.S108A|GRAMD3_uc011cwx.1_RNA|GRAMD3_uc011cwy.1_Missense_Mutation_p.S103A|GRAMD3_uc011cwz.1_Missense_Mutation_p.S196A|GRAMD3_uc011cwu.1_Missense_Mutation_p.S196A	NM_023927	NP_076416	Q96HH9	GRAM3_HUMAN	GRAM domain containing 3 isoform 2	212										central_nervous_system(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0401)|OV - Ovarian serous cystadenocarcinoma(64;0.0604)|all cancers(49;0.108)		ACTACTAAAATCTGTGTGTGG	0.358													35	46	---	---	---	---	PASS	G	125816199	G	G	125816199	3	3	41	1	0	0	0	0	1	0	0	0	6751	1435	50	5	874	5	GRAMD3	5	125816199	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	29580337	125816199	55099061	193	15802										
PCDHB1	29930	broad.mit.edu	37	chr5	140432759	140432759	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atcttatacccactgcagaaCggcaccttgccctgcaatga	7	14	1	2	rs137984585	by1000genomes	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:140432759C>A	uc003lik.1	+	1	1781	c.1704C>A	c.(1702-1704)AAC>AAA	p.N568K		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	568	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACTGCAGAACGGCACCTTGC	0.522													37	51	---	---	---	---	PASS	A	140432759	A	A	140432759	3	1	41	1	0	0	0	0	1	0	0	0	11534	535	19	1	1706	1	PCDHB1	5	140432759	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	14616560	140432759	40482501	194	15803										
PCDHB15	56121	broad.mit.edu	37	chr5	140625340	140625340	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gctagccgagcggggagcccGggtagtttctgaggataacg	17	9	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:140625340G>T	uc003lje.2	+	1	194	c.194G>T	c.(193-195)CGG>CTG	p.R65L		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	65	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGGGGAGCCCGGGTAGTTTCT	0.552													34	32	---	---	---	---	PASS	T	140625340	T	T	140625340	3	4	41	1	0	0	0	0	1	0	0	0	11540	1116	39	1	196	1	PCDHB15	5	140625340	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	192581	140625340	40289920	195	15804										
PCDHGB2	56103	broad.mit.edu	37	chr5	140741405	140741405	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggtgctgtaccccgcgctggGgcctgatggctccgccctct	14	16	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:140741405G>T	uc003ljs.1	+	1	1703	c.1703G>T	c.(1702-1704)GGG>GTG	p.G568V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Missense_Mutation_p.G568V|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	568	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCGCGCTGGGGCCTGATGGC	0.682													22	28	---	---	---	---	PASS	T	140741405	T	T	140741405	3	4	41	1	0	0	0	0	1	0	0	0	11563	1232	43	3	1705	3	PCDHGB2	5	140741405	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	116065	140741405	40173855	196	15805										
PCDHGB3	56102	broad.mit.edu	37	chr5	140751962	140751963	+	Frame_Shift_Ins	INS	-	T	T													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acctaatcttcgcagatagcINSttgcaagagatacaacctga							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:140751962_140751963insT	uc003ljw.1	+	1	2001_2002	c.2001_2002insT	c.(1999-2004)AGCTTGfs	p.S667fs	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Frame_Shift_Ins_p.S667fs|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	667_668	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGCAGATAGCTTGCAAGAGAT	0.589													59	34	---	---	---	---		T	140751963	T	T	140751962	7	5	41	1	0	1	1	0	0	0	0	0	11564	796	28	0	2003	0	PCDHGB3	5	140751962	Frame_Shift_Ins	INS	-	TCGA-22-4613-01A-01D-1441-08	10557	140751962	40163298	197	15806										
SLC36A1	206358	broad.mit.edu	37	chr5	150856315	150856315	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	accctcaacctgcccaactgCtggtacgtggagggaggatg	13	12	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:150856315C>A	uc003luc.2	+	9	1204	c.987C>A	c.(985-987)TGC>TGA	p.C329*	GM2A_uc011dcs.1_Intron|SLC36A1_uc003lub.1_Nonsense_Mutation_p.C329*|SLC36A1_uc010jhw.1_Nonsense_Mutation_p.C329*	NM_078483	NP_510968	Q7Z2H8	S36A1_HUMAN	solute carrier family 36 member 1	329	Extracellular (Potential).			C->A,S: Abolishes the transport function.	cellular nitrogen compound metabolic process|ion transport	endoplasmic reticulum|integral to membrane|lysosomal membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			skin(1)	1		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)|all_neural(839;0.138)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Glycine(DB00145)|L-Alanine(DB00160)	TGCCCAACTGCTGGTACGTGG	0.483													3	42	---	---	---	---	PASS	A	150856315	A	A	150856315	4	1	41	1	0	0	0	0	0	1	0	0	14593	805	28	3	1017	3	SLC36A1	5	150856315	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	10104353	150856315	30058945	198	15807										
NMUR2	56923	broad.mit.edu	37	chr5	151772031	151772031	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agtaggttatagataatgggGttgacagctgagctcaggta	14	4	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:151772031G>T	uc003luv.2	-	4	1135	c.969C>A	c.(967-969)AAC>AAA	p.N323K		NM_020167	NP_064552	Q9GZQ4	NMUR2_HUMAN	neuromedin U receptor 2	323	Cytoplasmic (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|arachidonic acid secretion|calcium ion transport|central nervous system development|elevation of cytosolic calcium ion concentration|regulation of smooth muscle contraction	integral to membrane|plasma membrane	GTP binding|intracellular calcium activated chloride channel activity|neuromedin U receptor activity			ovary(3)|skin(2)|lung(1)|breast(1)|pancreas(1)	8		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)	Kidney(363;0.000106)|KIRC - Kidney renal clear cell carcinoma(527;0.000672)			AGATAATGGGGTTGACAGCTG	0.478													42	59	---	---	---	---	PASS	T	151772031	T	T	151772031	3	4	41	1	0	0	0	0	1	0	0	0	10507	1252	44	3	282	3	NMUR2	5	151772031	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	915716	151772031	29143229	199	15808										
GRIA1	2890	broad.mit.edu	37	chr5	153056653	153056653	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tatctcgccgggggaatgctGgggattgtctggctaaccca	14	10	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:153056653G>C	uc003lva.3	+	7	1326	c.961G>C	c.(961-963)GGG>CGG	p.G321R	GRIA1_uc003luy.3_Missense_Mutation_p.G321R|GRIA1_uc003luz.3_Missense_Mutation_p.G226R|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.G241R|GRIA1_uc011dcx.1_Missense_Mutation_p.G252R|GRIA1_uc011dcy.1_Missense_Mutation_p.G331R|GRIA1_uc011dcz.1_Missense_Mutation_p.G331R|GRIA1_uc010jia.1_Missense_Mutation_p.G301R	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	321	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	GGGGAATGCTGGGGATTGTCT	0.567													16	22	---	---	---	---	PASS	C	153056653	C	C	153056653	3	2	41	1	0	0	0	0	1	0	0	0	6767	1348	47	4	987	4	GRIA1	5	153056653	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1284622	153056653	27858607	200	15809										
KIF4B	285643	broad.mit.edu	37	chr5	154393632	154393632	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttcaataaagcagtagcgccGctcataaaaggcatatttaa	7	8	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr5:154393632G>T	uc010jih.1	+	1	373	c.213G>T	c.(211-213)CCG>CCT	p.P71P		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	71	Kinesin-motor.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CAGTAGCGCCGCTCATAAAAG	0.463													34	43	---	---	---	---	PASS	T	154393632	T	T	154393632	2	4	41	1	0	0	0	0	0	0	0	1	8304	1074	38	1		1	KIF4B	5	154393632	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	1336979	154393632	26521628	201	15810										
CAGE1	285782	broad.mit.edu	37	chr6	7355339	7355339	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcaatgatttcttcatatgaTgtaaccttgaaaaaaataag	5	5	3	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:7355339T>C	uc003mxi.2	-	8	2431	c.1710A>G	c.(1708-1710)ACA>ACG	p.T570T	CAGE1_uc003mxh.2_RNA|CAGE1_uc003mxj.2_Silent_p.T523T|CAGE1_uc003mxk.1_Silent_p.T488T	NM_205864	NP_995586	Q8TC20	CAGE1_HUMAN	cancer antigen 1	706											0	Ovarian(93;0.0418)					CTTCATATGATGTAACCTTGA	0.289													33	96	---	---	---	---	PASS	C	7355339	C	C	7355339	2	2	41	1	0	0	0	0	0	0	0	1	2572	1451	51	5		5	CAGE1	6	7355339	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08		7355339	163759728	202	15811										
CAGE1	285782	broad.mit.edu	37	chr6	7373309	7373309	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agaatgtgtatcaataccttGgtaatatctgacttcaagac	7	7	3	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:7373309G>T	uc003mxi.2	-	4	2056	c.1335C>A	c.(1333-1335)ACC>ACA	p.T445T	CAGE1_uc003mxh.2_RNA|CAGE1_uc003mxj.2_Silent_p.T336T|CAGE1_uc003mxk.1_Silent_p.T336T	NM_205864	NP_995586	Q8TC20	CAGE1_HUMAN	cancer antigen 1	581											0	Ovarian(93;0.0418)					TCAATACCTTGGTAATATCTG	0.373													7	39	---	---	---	---	PASS	T	7373309	T	T	7373309	2	4	41	1	0	0	0	0	0	0	0	1	2572	1335	47	3		3	CAGE1	6	7373309	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	17970	7373309	163741758	203	15812										
TBC1D7	51256	broad.mit.edu	37	chr6	13306671	13306671	+	Missense_Mutation	SNP	C	G	G													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cttctctgcactgttcagtgCcataacttttattttaaagg							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:13306671C>G	uc003naj.2	-	7	845	c.754G>C	c.(754-756)GCA>CCA	p.A252P	TBC1D7_uc011dis.1_Intron|TBC1D7_uc003nan.2_Missense_Mutation_p.A252P|TBC1D7_uc003nal.2_Missense_Mutation_p.A252P|TBC1D7_uc003nam.2_Missense_Mutation_p.A252P|TBC1D7_uc003nao.2_Missense_Mutation_p.A225P|TBC1D7_uc010jpd.2_Missense_Mutation_p.A206P|TBC1D7_uc003nap.2_3'UTR	NM_016495	NP_057579	Q9P0N9	TBCD7_HUMAN	TBC1 domain family, member 7 isoform a	252					positive regulation of protein ubiquitination	cytoplasmic membrane-bounded vesicle	protein binding|Rab GTPase activator activity			ovary(1)	1	Breast(50;0.0296)|Ovarian(93;0.0339)	all_hematologic(90;0.135)	Epithelial(50;0.0784)|BRCA - Breast invasive adenocarcinoma(129;0.13)|all cancers(50;0.21)			CTGTTCAGTGCCATAACTTTT	0.328													33	93	---	---	---	---	PASS	G	13306671	G	G	13306671	3	3	41	1	0	0	0	0	1	0	0	0	15621	739	26	4	135	4	TBC1D7	6	13306671	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	5933362	13306671	157808396	204	15813	386	2								
TBC1D7	51256	broad.mit.edu	37	chr6	13306672	13306672	+	Missense_Mutation	SNP	C	A	A													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttctctgcactgttcagtgcCataacttttattttaaaggt							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:13306672C>A	uc003naj.2	-	7	844	c.753G>T	c.(751-753)ATG>ATT	p.M251I	TBC1D7_uc011dis.1_Intron|TBC1D7_uc003nan.2_Missense_Mutation_p.M251I|TBC1D7_uc003nal.2_Missense_Mutation_p.M251I|TBC1D7_uc003nam.2_Missense_Mutation_p.M251I|TBC1D7_uc003nao.2_Missense_Mutation_p.M224I|TBC1D7_uc010jpd.2_Missense_Mutation_p.M205I|TBC1D7_uc003nap.2_3'UTR	NM_016495	NP_057579	Q9P0N9	TBCD7_HUMAN	TBC1 domain family, member 7 isoform a	251					positive regulation of protein ubiquitination	cytoplasmic membrane-bounded vesicle	protein binding|Rab GTPase activator activity			ovary(1)	1	Breast(50;0.0296)|Ovarian(93;0.0339)	all_hematologic(90;0.135)	Epithelial(50;0.0784)|BRCA - Breast invasive adenocarcinoma(129;0.13)|all cancers(50;0.21)			TGTTCAGTGCCATAACTTTTA	0.333													33	94	---	---	---	---	PASS	A	13306672	A	A	13306672	3	1	41	1	0	0	0	0	1	0	0	0	15621	594	21	3	136	3	TBC1D7	6	13306672	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1	13306672	157808395	205	15814	386	2								
PGBD1	84547	broad.mit.edu	37	chr6	28268912	28268912	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gagctttttgaattatttttTgatgatgaaacattcaactt	6	4	1	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:28268912T>C	uc003nky.2	+	7	1651	c.1281T>C	c.(1279-1281)TTT>TTC	p.F427F	PGBD1_uc003nkz.2_Silent_p.F427F	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	427					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						AATTATTTTTTGATGATGAAA	0.358													67	134	---	---	---	---	PASS	C	28268912	C	C	28268912	2	2	41	1	0	0	0	0	0	0	0	1	11780	1809	63	5		5	PGBD1	6	28268912	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	14962240	28268912	142846155	206	15815										
ZNF323	64288	broad.mit.edu	37	chr6	28297141	28297141	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctacagccacagcctcctccCcactctccggatggtgctcc	7	20	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:28297141C>A	uc003nla.2	-	2	720	c.320G>T	c.(319-321)GGG>GTG	p.G107V	ZNF323_uc003nld.2_Missense_Mutation_p.G107V|ZNF323_uc010jra.2_Missense_Mutation_p.G107V|ZNF323_uc003nlb.2_Intron|ZNF323_uc010jrb.2_Intron|ZNF323_uc003nlc.2_Missense_Mutation_p.G107V	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	107	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						AGCCTCCTCCCCACTCTCCGG	0.532													90	183	---	---	---	---	PASS	A	28297141	A	A	28297141	3	1	41	1	0	0	0	0	1	0	0	0	17840	623	22	3	912	3	ZNF323	6	28297141	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	28229	28297141	142817926	207	15816										
OR12D3	81797	broad.mit.edu	37	chr6	29342776	29342776	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtggaagaagtgtagctgggTgatacagcctagaaaagata	14	4	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:29342776T>C	uc003nme.2	-	1	293	c.289A>G	c.(289-291)ACC>GCC	p.T97A		NM_030959	NP_112221	Q9UGF7	O12D3_HUMAN	olfactory receptor, family 12, subfamily D,	97	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3						TGTAGCTGGGTGATACAGCCT	0.468													20	36	---	---	---	---	PASS	C	29342776	C	C	29342776	3	2	41	1	0	0	0	0	1	0	0	0	10932	1696	59	5	665	5	OR12D3	6	29342776	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	1045635	29342776	141772291	208	15817										
ABCF1	23	broad.mit.edu	37	chr6	30557481	30557481	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcagacccatggggaaatgaGaaagaaccaccggctggtaa	13	9	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:30557481G>T	uc003nql.2	+	21	2143	c.2048G>T	c.(2047-2049)AGA>ATA	p.R683I	ABCF1_uc003nqm.2_Missense_Mutation_p.R645I|ABCF1_uc010jsb.2_Intron	NM_001025091	NP_001020262	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F, member 1	683	ABC transporter 2.				inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2						GGGGAAATGAGAAAGAACCAC	0.453													23	66	---	---	---	---	PASS	T	30557481	T	T	30557481	3	4	41	1	0	0	0	0	1	0	0	0	65	942	33	2	2130	2	ABCF1	6	30557481	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1214705	30557481	140557586	209	15818										
C4A	720	broad.mit.edu	37	chr6	31997032	31997032	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cgcagctgccatcacggcctAtgccctgacactgaccaagg	10	16	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:31997032A>G	uc011dpd.1	+	28	3644	c.3593A>G	c.(3592-3594)TAT>TGT	p.Y1198C	C4A_uc011dpe.1_Missense_Mutation_p.Y1198C	NM_007293	NP_009224	P0C0L4	CO4A_HUMAN	complement component 4A preproprotein	1198					complement activation, classical pathway|inflammatory response|innate immune response	extracellular space	endopeptidase inhibitor activity				0						ATCACGGCCTATGCCCTGACA	0.607													19	74	---	---	---	---	PASS	G	31997032	G	G	31997032	3	3	41	1	0	0	0	0	1	0	0	0	2247	449	16	5		5	C4A	6	31997032	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	1439551	31997032	139118035	210	15819										
HLA-DRB1	3123	broad.mit.edu	37	chr6	32549334	32549334	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaagtcagaaagctgctcacTccattccactgtgagagggc	11	11	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:32549334T>A	uc003obp.3	-	3	695	c.652A>T	c.(652-654)AGA>TGA	p.R218*	HLA-DRB1_uc011dqa.1_Nonsense_Mutation_p.R48*|HLA-DRB5_uc003obk.3_Intron|HLA-DRB6_uc003obo.1_Intron|uc010jub.1_5'Flank|HLA-DRB1_uc011dqb.1_Missense_Mutation_p.T48S|HLA-DRB1_uc011dqc.1_Nonsense_Mutation_p.R48*	NM_002124	NP_002115	P01911	2B1F_HUMAN	major histocompatibility complex, class II, DR	218	Beta-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|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex				skin(1)	1						AGCTGCTCACTCCATTCCACT	0.512									Rheumatoid_Arthritis|Sj_gren_syndrome	Multiple Myeloma(14;0.17)			7	123	---	---	---	---	PASS	A	32549334	A	A	32549334	4	1	41	1	0	0	0	0	0	1	0	0	7208	1565	54	5	164	5	HLA-DRB1	6	32549334	Nonsense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	552302	32549334	138565733	211	15820										
TAP2	6891	broad.mit.edu	37	chr6	32803537	32803537	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaagcagcctcctcggcagcCtgcagacagtgagctgtggg	15	12	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:32803537C>T	uc003occ.2	-	3	653	c.622G>A	c.(622-624)GGC>AGC	p.G208S	TAP2_uc011dqf.1_Missense_Mutation_p.G208S|TAP2_uc003ocb.1_Missense_Mutation_p.G208S|TAP2_uc003ocd.2_Missense_Mutation_p.G208S	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	208	Helical; Name=5; (Potential).|ABC transmembrane type-1.				antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						CCTCGGCAGCCTGCAGACAGT	0.582													37	79	---	---	---	---	PASS	T	32803537	T	T	32803537	3	4	41	1	0	0	0	0	1	0	0	0	15548	681	24	3	1559	3	TAP2	6	32803537	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	254203	32803537	138311530	212	15821										
ANKS1A	23294	broad.mit.edu	37	chr6	35027962	35027962	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agagtgtcggggagtggctgGagtcgattgggctgcagcag	20	6	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:35027962G>T	uc003ojx.3	+	13	2258	c.2116G>T	c.(2116-2118)GAG>TAG	p.E706*	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Nonsense_Mutation_p.E246*|ANKS1A_uc010jvp.1_Nonsense_Mutation_p.E80*	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	706	SAM 1.					cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						GGAGTGGCTGGAGTCGATTGG	0.552													4	10	---	---	---	---	PASS	T	35027962	T	T	35027962	4	4	41	1	0	0	0	0	0	1	0	0	688	1175	41	2	2166	2	ANKS1A	6	35027962	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2224425	35027962	136087105	213	15822										
SCUBE3	222663	broad.mit.edu	37	chr6	35209601	35209601	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agagtctgagaatggcttcaCggtgagctgtgggaccccca	14	10	2	3	rs148936412		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:35209601C>A	uc003okf.1	+	12	1337	c.1331C>A	c.(1330-1332)ACG>AAG	p.T444K	SCUBE3_uc003okg.1_Missense_Mutation_p.T443K|SCUBE3_uc003okh.1_Missense_Mutation_p.T331K	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	444					protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						AATGGCTTCACGGTGAGCTGT	0.612											OREG0017372	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	40	---	---	---	---	PASS	A	35209601	A	A	35209601	3	1	41	1	0	0	0	0	1	0	0	0	13946	536	19	1	1377	1	SCUBE3	6	35209601	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	181639	35209601	135905466	214	15823										
BRPF3	27154	broad.mit.edu	37	chr6	36172574	36172574	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgcactcccatctgcagtccCaaagaaacgctgagcaggta	9	13	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:36172574C>T	uc003olv.3	+	3	1812	c.1588C>T	c.(1588-1590)CAA>TAA	p.Q530*	BRPF3_uc010jwb.2_Nonsense_Mutation_p.Q530*|BRPF3_uc011dtj.1_RNA|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Nonsense_Mutation_p.Q530*	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	530					histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						TCTGCAGTCCCAAAGAAACGC	0.547													41	133	---	---	---	---	PASS	T	36172574	T	T	36172574	4	4	41	1	0	0	0	0	0	1	0	0	1521	595	21	3	1594	3	BRPF3	6	36172574	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	962973	36172574	134942493	215	15824										
PI16	221476	broad.mit.edu	37	chr6	36929703	36929703	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gccctaccaggaggggactcCgtgctcccaatgtccctctg	11	16	1	0	rs139815357	byFrequency	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:36929703C>A	uc003ona.2	+	4	873	c.545C>A	c.(544-546)CCG>CAG	p.P182Q	PI16_uc003omz.1_Missense_Mutation_p.P182Q|PI16_uc003onb.2_Missense_Mutation_p.P182Q|PI16_uc011dts.1_5'UTR	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	182	Extracellular (Potential).					extracellular region|integral to membrane	peptidase inhibitor activity				0						GAGGGGACTCCGTGCTCCCAA	0.642													38	107	---	---	---	---	PASS	A	36929703	A	A	36929703	3	1	41	1	0	0	0	0	1	0	0	0	11869	652	23	1	559	1	PI16	6	36929703	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	757129	36929703	134185364	216	15825										
DNAH8	1769	broad.mit.edu	37	chr6	38831802	38831802	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttctgatggtgattgtgttgAtttaaatccagaatttggaa	10	3	1	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:38831802A>T	uc003ooe.1	+	43	6413	c.5813A>T	c.(5812-5814)GAT>GTT	p.D1938V		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GATTGTGTTGATTTAAATCCA	0.294													19	65	---	---	---	---	PASS	T	38831802	T	T	38831802	3	4	41	1	0	0	0	0	1	0	0	0	4607	333	12	5	5975	5	DNAH8	6	38831802	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	1902099	38831802	132283265	217	15826										
KIAA0240	23506	broad.mit.edu	37	chr6	42797882	42797882	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cttcagtaacacacctggaaCaggaacccagcaacaattct	6	13	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:42797882C>G	uc003osn.1	+	6	1962	c.1811C>G	c.(1810-1812)ACA>AGA	p.T604R	KIAA0240_uc003osm.1_Missense_Mutation_p.T604R|KIAA0240_uc011duw.1_Missense_Mutation_p.T604R|KIAA0240_uc003oso.1_Missense_Mutation_p.T604R|KIAA0240_uc003osp.1_Missense_Mutation_p.T604R	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	604										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			ACACCTGGAACAGGAACCCAG	0.428													23	89	---	---	---	---	PASS	G	42797882	G	G	42797882	3	3	41	1	0	0	0	0	1	0	0	0	8164	478	17	4	1825	4	KIAA0240	6	42797882	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3966080	42797882	128317185	218	15827										
PGK2	5232	broad.mit.edu	37	chr6	49754834	49754834	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	catgggaacattgaagtctaCtctcatgatgactcgcttcc	8	11	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:49754834C>G	uc003ozu.2	-	1	174	c.67G>C	c.(67-69)GTA>CTA	p.V23L		NM_138733	NP_620061	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	23					glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			ovary(1)	1	Lung NSC(77;0.0402)					TTGAAGTCTACTCTCATGATG	0.428													38	132	---	---	---	---	PASS	G	49754834	G	G	49754834	3	3	41	1	0	0	0	0	1	0	0	0	11791	565	20	4	1190	4	PGK2	6	49754834	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	6956952	49754834	121360233	219	15828										
TFAP2D	83741	broad.mit.edu	37	chr6	50682845	50682845	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccagatacgtcacgacggatCaaacagctaccgtttgatgc	9	12	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:50682845C>G	uc003paf.2	+	2	568	c.56C>G	c.(55-57)TCA>TGA	p.S19*	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	19							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					CACGACGGATCAAACAGCTAC	0.532													19	64	---	---	---	---	PASS	G	50682845	G	G	50682845	4	3	41	1	0	0	0	0	0	1	0	0	15787	838	29	2	62	2	TFAP2D	6	50682845	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	928011	50682845	120432222	220	15829										
TFAP2D	83741	broad.mit.edu	37	chr6	50740364	50740364	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cttctcatttccagtttgatCactcatggctttgggactcc	7	12	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:50740364C>A	uc003paf.2	+	8	1658	c.1146C>A	c.(1144-1146)ATC>ATA	p.I382I	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	382	H-S-H (helix-span-helix), dimerization.						DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					CCAGTTTGATCACTCATGGCT	0.378													22	40	---	---	---	---	PASS	A	50740364	A	A	50740364	2	1	41	1	0	0	0	0	0	0	0	1	15787	816	29	2		2	TFAP2D	6	50740364	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	57519	50740364	120374703	221	15830										
COL21A1	81578	broad.mit.edu	37	chr6	56044420	56044420	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cttcccttattttggatattGcaatatagtcttccacataa	4	9	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:56044420G>T	uc003pcs.2	-	3	828	c.596C>A	c.(595-597)GCA>GAA	p.A199E	COL21A1_uc003pct.1_RNA|COL21A1_uc011dxi.1_Missense_Mutation_p.A199E|COL21A1_uc003pcu.1_Missense_Mutation_p.A199E	NM_030820	NP_110447	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1 precursor	199	VWFA.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(2)	2	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			TTTGGATATTGCAATATAGTC	0.343													18	41	---	---	---	---	PASS	T	56044420	T	T	56044420	3	4	41	1	0	0	0	0	1	0	0	0	3680	1319	46	3	2389	3	COL21A1	6	56044420	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	5304056	56044420	115070647	222	15831										
DST	667	broad.mit.edu	37	chr6	56458768	56458768	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caaactcggtatagtcagcaTcaaacttttctaattcttcc	4	11	4	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:56458768T>A	uc003pdf.2	-	42	6090	c.6062A>T	c.(6061-6063)GAT>GTT	p.D2021V	DST_uc003pcz.3_Missense_Mutation_p.D1843V|DST_uc011dxj.1_Missense_Mutation_p.D1872V|DST_uc011dxk.1_Missense_Mutation_p.D1883V|DST_uc003pcy.3_Missense_Mutation_p.D1517V|DST_uc010kaa.1_RNA	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	3929	Spectrin 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)			ATAGTCAGCATCAAACTTTTC	0.413													17	71	---	---	---	---	PASS	A	56458768	A	A	56458768	3	1	41	1	0	0	0	0	1	0	0	0	4783	1435	50	5	11189	5	DST	6	56458768	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	414348	56458768	114656299	223	15832										
KIAA1586	57691	broad.mit.edu	37	chr6	56919312	56919312	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agttgatttgaatgattttcGggaatttgtaaataataata	8	1	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:56919312G>T	uc003pdj.2	+	4	2185	c.2015G>T	c.(2014-2016)CGG>CTG	p.R672L	KIAA1586_uc011dxm.1_Missense_Mutation_p.R645L	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	672							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			AATGATTTTCGGGAATTTGTA	0.269													18	34	---	---	---	---	PASS	T	56919312	T	T	56919312	3	4	41	1	0	0	0	0	1	0	0	0	8245	1116	39	1	2029	1	KIAA1586	6	56919312	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	460544	56919312	114195755	224	15833										
LGSN	51557	broad.mit.edu	37	chr6	63990387	63990387	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aacagaaggcgccatcaggcAgctgagcgcagcagagtgct	14	11	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:63990387A>T	uc003peh.2	-	4	1103	c.1069T>A	c.(1069-1071)TGC>AGC	p.C357S	LGSN_uc003pei.2_3'UTR	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	357					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	GCCATCAGGCAGCTGAGCGCA	0.498													43	126	---	---	---	---	PASS	T	63990387	T	T	63990387	3	4	41	1	0	0	0	0	1	0	0	0	8759	188	7	5	464	5	LGSN	6	63990387	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	7071075	63990387	107124680	225	15834										
FAM46A	55603	broad.mit.edu	37	chr6	82459917	82459917	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tggcaatgatcttgttacaaAggtgatcaaaggcttcctgg	11	7	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:82459917A>T	uc003pjg.2	-	3	1142	c.824T>A	c.(823-825)CTT>CAT	p.L275H	FAM46A_uc003pjf.2_Missense_Mutation_p.L294H	NM_017633	NP_060103	Q96IP4	FA46A_HUMAN	hypothetical protein LOC55603	275											0		all_cancers(76;6.74e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000282)|all_epithelial(107;0.0104)		BRCA - Breast invasive adenocarcinoma(397;0.0428)		CTTGTTACAAAGGTGATCAAA	0.502													31	79	---	---	---	---	PASS	T	82459917	T	T	82459917	3	4	41	1	0	0	0	0	1	0	0	0	5565	72	3	5	508	5	FAM46A	6	82459917	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	18469530	82459917	88655150	226	15835										
KIAA1009	22832	broad.mit.edu	37	chr6	84884584	84884584	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atttgctcaattagggcttgCgcacccctccatttatcctc	6	14	1	0	rs143508247		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:84884584C>G	uc010kbp.2	-	15	1984	c.1887G>C	c.(1885-1887)GCG>GCC	p.A629A	KIAA1009_uc003pkj.3_Silent_p.A553A|KIAA1009_uc003pkk.2_3'UTR|KIAA1009_uc003pki.3_Silent_p.A15A	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	629	Potential.				cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		TTAGGGCTTGCGCACCCCTCC	0.373													7	32	---	---	---	---	PASS	G	84884584	G	G	84884584	2	3	41	1	0	0	0	0	0	0	0	1	8203	755	27	4		4	KIAA1009	6	84884584	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	2424667	84884584	86230483	227	15836										
HTR1E	3354	broad.mit.edu	37	chr6	87725512	87725512	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggaccatctccattttcatcTccatgccccctctgttctgg	6	16	5	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:87725512T>G	uc003pli.2	+	2	1163	c.460T>G	c.(460-462)TCC>GCC	p.S154A		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	154	Helical; Name=4; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	CATTTTCATCTCCATGCCCCC	0.557													4	153	---	---	---	---	PASS	G	87725512	G	G	87725512	3	3	41	1	0	0	0	0	1	0	0	0	7439	1551	54	5	462	5	HTR1E	6	87725512	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	2840928	87725512	83389555	228	15837										
C6orf165	154313	broad.mit.edu	37	chr6	88136346	88136346	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	taaaatcaaagatagcggtcCcaacatcacaagtctttgta	6	9	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:88136346C>A	uc003plv.2	+	8	1035	c.943C>A	c.(943-945)CCA>ACA	p.P315T	C6orf165_uc003plw.2_Missense_Mutation_p.P127T|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.P315T	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	315										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		GATAGCGGTCCCAACATCACA	0.343													18	40	---	---	---	---	PASS	A	88136346	A	A	88136346	3	1	41	1	0	0	0	0	1	0	0	0	2341	623	22	3	969	3	C6orf165	6	88136346	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	410834	88136346	82978721	229	15838										
PRDM13	59336	broad.mit.edu	37	chr6	100061970	100061970	+	Frame_Shift_Del	DEL	G	-	-													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acccgctcaaattgcacttcGgcgggctgctgaagtatccg							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:100061970delG	uc003pqg.1	+	4	1720	c.1459delG	c.(1459-1461)GGCfs	p.G487fs		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	487					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		ATTGCACTTCGGCGGGCTGCT	0.657													41	18	---	---	---	---		-	100061970	-	-	100061970	7	5	41	1	0	1	0	1	0	0	0	0	12454	1116	39	0	1473	0	PRDM13	6	100061970	Frame_Shift_Del	DEL	G	TCGA-22-4613-01A-01D-1441-08	11925624	100061970	71053097	230	15839										
SIM1	6492	broad.mit.edu	37	chr6	100868805	100868805	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggctgagatctgatccaggGagagctgcagccctttgtat	13	9	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:100868805G>A	uc003pqj.3	-	9	1235	c.1028C>T	c.(1027-1029)TCC>TTC	p.S343F	SIM1_uc010kcu.2_Missense_Mutation_p.S343F	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	343	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		CTGATCCAGGGAGAGCTGCAG	0.537													12	28	---	---	---	---	PASS	A	100868805	A	A	100868805	3	1	41	1	0	0	0	0	1	0	0	0	14323	1174	41	2	1284	2	SIM1	6	100868805	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	806835	100868805	70246262	231	15840										
ASCC3	10973	broad.mit.edu	37	chr6	101311979	101311979	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	taatatatcttttaagtcttCatttatactttgcattttac	2	6	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:101311979C>T	uc003pqk.2	-	3	531	c.202G>A	c.(202-204)GAA>AAA	p.E68K	ASCC3_uc011eai.1_Intron|ASCC3_uc003pql.2_Missense_Mutation_p.E68K|ASCC3_uc010kcv.2_Missense_Mutation_p.E68K|ASCC3_uc003pqm.2_Missense_Mutation_p.E68K	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	68	Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		TTTAAGTCTTCATTTATACTT	0.264													37	83	---	---	---	---	PASS	T	101311979	T	T	101311979	3	4	41	1	0	0	0	0	1	0	0	0	1033	835	29	2	6665	2	ASCC3	6	101311979	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	443174	101311979	69803088	232	15841										
MICAL1	64780	broad.mit.edu	37	chr6	109766434	109766434	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaggccagctccagcttcacGccctcggcctctagctccct	8	19	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:109766434G>A	uc003ptj.2	-	21	3101	c.2847C>T	c.(2845-2847)GGC>GGT	p.G949G	MICAL1_uc003ptk.2_Silent_p.G949G|MICAL1_uc010kdr.2_Silent_p.G863G|MICAL1_uc011eaq.1_Silent_p.G968G	NM_022765	NP_073602	Q8TDZ2	MICA1_HUMAN	microtubule associated monoxygenase, calponin	949	Potential.				cytoskeleton organization|signal transduction	cytoplasm|intermediate filament	SH3 domain binding|zinc ion binding			breast(2)|ovary(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		CCAGCTTCACGCCCTCGGCCT	0.577													30	55	---	---	---	---	PASS	A	109766434	A	A	109766434	2	1	41	1	0	0	0	0	0	0	0	1	9569	1074	38	1		1	MICAL1	6	109766434	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	8454455	109766434	61348633	233	15842										
LAMA4	3910	broad.mit.edu	37	chr6	112451160	112451160	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gccaccgaagtaaaacttctTttcacttgcttgtgtctgtt	7	10	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:112451160T>A	uc003pvu.2	-	30	4360	c.4051A>T	c.(4051-4053)AAG>TAG	p.K1351*	LAMA4_uc003pvv.2_Nonsense_Mutation_p.K1344*|LAMA4_uc003pvt.2_Nonsense_Mutation_p.K1344*	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1351	Laminin G-like 3.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		TAAAACTTCTTTTCACTTGCT	0.363													34	70	---	---	---	---	PASS	A	112451160	A	A	112451160	4	1	41	1	0	0	0	0	0	1	0	0	8608	1850	64	5	1460	5	LAMA4	6	112451160	Nonsense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	2684726	112451160	58663907	234	15843										
ROS1	6098	broad.mit.edu	37	chr6	117683881	117683881	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgtttgtaatactttgattgGatatattgtagaaaatttca	7	2	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:117683881G>C	uc003pxp.1	-	21	3465	c.3266C>G	c.(3265-3267)TCC>TGC	p.S1089C	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1089	Fibronectin type-III 5.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		ACTTTGATTGGATATATTGTA	0.368			T	GOPC|ROS1	glioblastoma|NSCLC								4	163	---	---	---	---	PASS	C	117683881	C	C	117683881	3	2	41	1	0	0	0	0	1	0	0	0	13531	1174	41	2	3869	2	ROS1	6	117683881	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	5232721	117683881	53431186	235	15844										
GJA1	2697	broad.mit.edu	37	chr6	121768134	121768134	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gttgagtcagcctggggagaTgagcagtctgcctttcgttg	15	8	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:121768134T>C	uc003pyr.2	+	2	391	c.141T>C	c.(139-141)GAT>GAC	p.D47D	GJA1_uc011ebo.1_5'UTR|GJA1_uc011ebp.1_5'UTR	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	47	Extracellular (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	CCTGGGGAGATGAGCAGTCTG	0.512													39	91	---	---	---	---	PASS	C	121768134	C	C	121768134	2	2	41	1	0	0	0	0	0	0	0	1	6400	1461	51	5		5	GJA1	6	121768134	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	4084253	121768134	49346933	236	15845										
NKAIN2	154215	broad.mit.edu	37	chr6	124676411	124676411	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tttctctcttgcttctctacAgtatgctgtctggctagtcc	7	12	4	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:124676411A>T	uc003pzo.2	+	3	470	c.193_splice	c.e3-2	p.Y65_splice	NKAIN2_uc003pzn.1_Splice_Site_p.Y65_splice|NKAIN2_uc003pzp.2_Splice_Site_p.Y64_splice|NKAIN2_uc010keq.2_Splice_Site_p.Y65_splice|NKAIN2_uc010ker.2_Splice_Site	NM_001040214	NP_001035304	Q5VXU1	NKAI2_HUMAN	T-cell lymphoma breakpoint-associated target 1							integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)		GCTTCTCTACAGTATGCTGTC	0.373													81	168	---	---	---	---	PASS	T	124676411	T	T	124676411	5	4	41	1	0	0	0	0	0	0	1	0	10436	202	7	5	201	5	NKAIN2	6	124676411	Splice_Site	SNP	A	TCGA-22-4613-01A-01D-1441-08	2908277	124676411	46438656	237	15846										
NCOA7	135112	broad.mit.edu	37	chr6	126210679	126210679	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgtgagaagcaagatataatGccagaagtggacaagcagtc	12	6	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:126210679G>T	uc010kes.2	+	11	1928	c.1479G>T	c.(1477-1479)ATG>ATT	p.M493I	NCOA7_uc003qae.3_Missense_Mutation_p.M493I|NCOA7_uc003qah.2_Missense_Mutation_p.M482I|NCOA7_uc003qai.2_Missense_Mutation_p.M493I|NCOA7_uc010ket.2_Missense_Mutation_p.M378I	NM_181782	NP_861447	Q8NI08	NCOA7_HUMAN	nuclear receptor coactivator 7 isoform 1	493					cell wall macromolecule catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)		AAGATATAATGCCAGAAGTGG	0.418													4	88	---	---	---	---	PASS	T	126210679	T	T	126210679	3	4	41	1	0	0	0	0	1	0	0	0	10234	1319	46	3	1509	3	NCOA7	6	126210679	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1534268	126210679	44904388	238	15847										
C6orf174	387104	broad.mit.edu	37	chr6	127796469	127796469	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaatgggctcctcggcgccgCggtcgtccgcagacttgggc	15	14	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:127796469C>T	uc003qbd.2	-	6	3567	c.2702G>A	c.(2701-2703)CGC>CAC	p.R901H	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	901						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CTCGGCGCCGCGGTCGTCCGC	0.667													37	66	---	---	---	---	PASS	T	127796469	T	T	127796469	3	4	41	1	0	0	0	0	1	0	0	0	2345	768	27	1	149	1	C6orf174	6	127796469	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1585790	127796469	43318598	239	15848										
BCLAF1	9774	broad.mit.edu	37	chr6	136599046	136599046	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgcagtttcctgatctccacCatcaggataaaacgaggaac	8	11	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:136599046C>A	uc003qgx.1	-	4	1226	c.973G>T	c.(973-975)GGT>TGT	p.G325C	BCLAF1_uc003qgw.1_Missense_Mutation_p.G325C|BCLAF1_uc003qgy.1_Missense_Mutation_p.G323C|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.G323C	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	325					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TGATCTCCACCATCAGGATAA	0.388													24	198	---	---	---	---	PASS	A	136599046	A	A	136599046	3	1	41	1	0	0	0	0	1	0	0	0	1383	594	21	3	1829	3	BCLAF1	6	136599046	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	8802577	136599046	34516021	240	15849										
IFNGR1	3459	broad.mit.edu	37	chr6	137524818	137524818	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tctgcgtgagtattttatacTggatctagatgaaaaaagaa	9	4	2	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:137524818T>C	uc003qho.2	-	5	654	c.551A>G	c.(550-552)CAG>CGG	p.Q184R	IFNGR1_uc011edm.1_Missense_Mutation_p.Q156R|IFNGR1_uc011edn.1_3'UTR	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	184	Extracellular (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	TATTTTATACTGGATCTAGAT	0.358													16	66	---	---	---	---	PASS	C	137524818	C	C	137524818	3	2	41	1	0	0	0	0	1	0	0	0	7549	1580	55	5	930	5	IFNGR1	6	137524818	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	925772	137524818	33590249	241	15850										
GPR126	57211	broad.mit.edu	37	chr6	142736163	142736163	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acactaaagtcctcactttcAtcagctatattgggtgtgga	8	9	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:142736163A>C	uc010khc.2	+	19	3010	c.2599A>C	c.(2599-2601)ATC>CTC	p.I867L	GPR126_uc010khd.2_Missense_Mutation_p.I839L|GPR126_uc010khe.2_Missense_Mutation_p.I867L|GPR126_uc010khf.2_Missense_Mutation_p.I839L	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	867	Helical; Name=1; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		CCTCACTTTCATCAGCTATAT	0.393													4	109	---	---	---	---	PASS	C	142736163	C	C	142736163	3	2	41	1	0	0	0	0	1	0	0	0	6640	217	8	5	2673	5	GPR126	6	142736163	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	5211345	142736163	28378904	242	15851										
GRM1	2911	broad.mit.edu	37	chr6	146480689	146480689	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtgcgaggactcctgagcgcCatgcggcgccttggcgtcgt	16	13	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:146480689C>T	uc010khw.1	+	3	1376	c.906C>T	c.(904-906)GCC>GCT	p.A302A	GRM1_uc010khu.1_Silent_p.A302A|GRM1_uc010khv.1_Silent_p.A302A|GRM1_uc003qll.2_Silent_p.A302A|GRM1_uc011edz.1_Silent_p.A302A|GRM1_uc011eea.1_Silent_p.A302A	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	302	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	TCCTGAGCGCCATGCGGCGCC	0.438													17	76	---	---	---	---	PASS	T	146480689	T	T	146480689	2	4	41	1	0	0	0	0	0	0	0	1	6796	581	21	3		3	GRM1	6	146480689	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	3744526	146480689	24634378	243	15852										
GRM1	2911	broad.mit.edu	37	chr6	146755690	146755690	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agtacgtgtatgagcacgagCgggaagggaacacggaagaa	16	6	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:146755690C>G	uc010khw.1	+	9	3813	c.3343C>G	c.(3343-3345)CGG>GGG	p.R1115G	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	1115	Asp/Glu-rich (acidic).|Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	TGAGCACGAGCGGGAAGGGAA	0.632													47	119	---	---	---	---	PASS	G	146755690	G	G	146755690	3	3	41	1	0	0	0	0	1	0	0	0	6796	759	27	4	3438	4	GRM1	6	146755690	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	275001	146755690	24359377	244	15853										
LATS1	9113	broad.mit.edu	37	chr6	150023190	150023190	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	taacatttgccggctactgaCagtatagttactggcaggaa	10	8	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:150023190C>A	uc003qmu.1	-	2	621	c.73G>T	c.(73-75)GTC>TTC	p.V25F	LATS1_uc010kif.1_5'UTR|LATS1_uc003qmv.1_Missense_Mutation_p.V25F|LATS1_uc003qmw.2_Missense_Mutation_p.V25F|LATS1_uc010kig.1_5'UTR	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	25					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		CGGCTACTGACAGTATAGTTA	0.408													41	130	---	---	---	---	PASS	A	150023190	A	A	150023190	3	1	41	1	0	0	0	0	1	0	0	0	8646	478	17	3	3347	3	LATS1	6	150023190	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3267500	150023190	21091877	245	15854										
RGS17	26575	broad.mit.edu	37	chr6	153332881	153332881	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tattgatcacctctctaactCgagaatcaagactgacctaa	5	11	3	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:153332881C>A	uc003qpm.2	-	5	617	c.461G>T	c.(460-462)CGA>CTA	p.R154L		NM_012419	NP_036551	Q9UGC6	RGS17_HUMAN	regulator of G-protein signalling 17	154	RGS.				negative regulation of signal transduction	cytoplasm|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			pancreas(1)	1		Ovarian(120;0.126)		OV - Ovarian serous cystadenocarcinoma(155;1.09e-09)|BRCA - Breast invasive adenocarcinoma(81;0.0429)		CTCTCTAACTCGAGAATCAAG	0.318									Lung_Cancer_Familial_Clustering_of				3	104	---	---	---	---	PASS	A	153332881	A	A	153332881	3	1	41	1	0	0	0	0	1	0	0	0	13299	884	31	2	175	2	RGS17	6	153332881	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3309691	153332881	17782186	246	15855										
RBM16	22828	broad.mit.edu	37	chr6	155116180	155116180	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gttactccggccaatgtggtCcaaggcttacctgatccgtg	11	12	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:155116180C>G	uc003qqa.2	+	7	745	c.513C>G	c.(511-513)GTC>GTG	p.V171V	RBM16_uc011efj.1_Silent_p.V237V|RBM16_uc011efk.1_Silent_p.V216V|RBM16_uc003qpz.2_Silent_p.V171V|RBM16_uc010kji.2_Silent_p.V192V	NM_014892	NP_055707	Q9UPN6	SCAF8_HUMAN	RNA-binding motif protein 16	171					mRNA processing|RNA splicing	nuclear matrix|spliceosomal complex	nucleotide binding|RNA binding|RNA polymerase core enzyme binding				0		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;2.33e-15)|BRCA - Breast invasive adenocarcinoma(81;0.00524)		CCAATGTGGTCCAAGGCTTAC	0.443													13	187	---	---	---	---	PASS	G	155116180	G	G	155116180	2	3	41	1	0	0	0	0	0	0	0	1	13118	842	30	2		2	RBM16	6	155116180	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1783299	155116180	15998887	247	15856										
RSPH3	83861	broad.mit.edu	37	chr6	159404818	159404818	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caacttctattatgcgatcaGcaatttcttcaaggtataat	5	8	4	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:159404818G>C	uc003qrx.2	-	4	984	c.794C>G	c.(793-795)GCT>GGT	p.A265G	RSPH3_uc010kju.2_Intron|RSPH3_uc003qry.1_Missense_Mutation_p.A265G	NM_031924	NP_114130	Q86UC2	RSPH3_HUMAN	radial spoke 3 homolog	265										ovary(1)|skin(1)	2		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.36e-16)|BRCA - Breast invasive adenocarcinoma(81;5.92e-06)		TATGCGATCAGCAATTTCTTC	0.289													3	130	---	---	---	---	PASS	C	159404818	C	C	159404818	3	2	41	1	0	0	0	0	1	0	0	0	13705	971	34	4	908	4	RSPH3	6	159404818	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	4288638	159404818	11710249	248	15857										
LPA	4018	broad.mit.edu	37	chr6	160978440	160978440	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acctgcttcagaatgagcctCcatgcttggaactggaacaa	9	11	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:160978440C>T	uc003qtl.2	-	30	4915	c.4795G>A	c.(4795-4797)GAG>AAG	p.E1599K		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4107	Kringle 36.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	GAATGAGCCTCCATGCTTGGA	0.463													50	116	---	---	---	---	PASS	T	160978440	T	T	160978440	3	4	41	1	0	0	0	0	1	0	0	0	8903	864	30	2	1371	2	LPA	6	160978440	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1573622	160978440	10136627	249	15858										
BRP44L	51660	broad.mit.edu	37	chr6	166780282	166780282	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tatccaaatctgcattcttaCcaaatgtcatccgcccactg	4	14	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:166780282C>T	uc011egn.1	-	2	294	c.172_splice	c.e2+1	p.A58_splice	BRP44L_uc003qva.2_Splice_Site	NM_016098	NP_057182	Q9Y5U8	BR44L_HUMAN	brain protein 44-like							mitochondrion				central_nervous_system(1)	1		Breast(66;0.000148)|Prostate(117;0.109)|Ovarian(120;0.199)		OV - Ovarian serous cystadenocarcinoma(33;1.8e-19)|BRCA - Breast invasive adenocarcinoma(81;4.68e-06)|GBM - Glioblastoma multiforme(31;0.000122)		TGCATTCTTACCAAATGTCAT	0.433													64	156	---	---	---	---	PASS	T	166780282	T	T	166780282	5	4	41	1	0	0	0	0	0	0	1	0	1519	521	18	3	168	3	BRP44L	6	166780282	Splice_Site	SNP	C	TCGA-22-4613-01A-01D-1441-08	5801842	166780282	4334785	250	15859										
KIF25	3834	broad.mit.edu	37	chr6	168440882	168440882	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gactctaaccacagcctcctGctctgacagcactggtaagt	8	14	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:168440882G>A	uc003qwk.1	+	6	894	c.632G>A	c.(631-633)TGC>TAC	p.C211Y	KIF25_uc003qwl.1_Missense_Mutation_p.C211Y	NM_030615	NP_085118	Q9UIL4	KIF25_HUMAN	kinesin family member 25 isoform 1	211	Kinesin-motor.				microtubule-based movement|mitotic sister chromatid segregation	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(1)|pancreas(1)	2		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		ACAGCCTCCTGCTCTGACAGC	0.458													11	27	---	---	---	---	PASS	A	168440882	A	A	168440882	3	1	41	1	0	0	0	0	1	0	0	0	8293	1319	46	3	650	3	KIF25	6	168440882	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1660600	168440882	2674185	251	15860										
THBS2	7058	broad.mit.edu	37	chr6	169632797	169632797	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgcttccaggccgaccccgaCgggctggttccctctgtatc	11	16	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr6:169632797C>A	uc003qwt.2	-	13	2142	c.1894G>T	c.(1894-1896)GTC>TTC	p.V632F		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	632	EGF-like 2; calcium-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CCGACCCCGACGGGCTGGTTC	0.607													36	92	---	---	---	---	PASS	A	169632797	A	A	169632797	3	1	41	1	0	0	0	0	1	0	0	0	15851	536	19	1	1668	1	THBS2	6	169632797	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1191915	169632797	1482270	252	15861										
SUN1	23353	broad.mit.edu	37	chr7	908998	908998	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttccccagcctgacatttacCccggtaactgctgggcattt	8	14	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:908998C>T	uc011jvp.1	+	18	2072	c.1993C>T	c.(1993-1995)CCC>TCC	p.P665S	GET4_uc003sjj.1_Intron|SUN1_uc003sjf.2_Missense_Mutation_p.P582S|SUN1_uc011jvq.1_Missense_Mutation_p.P562S|SUN1_uc003sjg.2_Missense_Mutation_p.P570S|SUN1_uc011jvr.1_Missense_Mutation_p.P463S|SUN1_uc003sji.2_Missense_Mutation_p.P503S|SUN1_uc003sjk.2_Missense_Mutation_p.P304S	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	692	Perinuclear space.|SUN.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						TGACATTTACCCCGGTAACTG	0.522													82	244	---	---	---	---	PASS	T	908998	T	T	908998	3	4	41	1	0	0	0	0	1	0	0	0	15388	623	22	3	2242	3	SUN1	7	908998	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08		908998	158229665	253	15862										
GET4	51608	broad.mit.edu	37	chr7	925710	925710	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caggtacatgtcccagagcaAgcacacggaggcccgggagc	14	13	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:925710A>T	uc003sjl.1	+	2	265	c.173A>T	c.(172-174)AAG>ATG	p.K58M	GET4_uc003sjj.1_RNA	NM_015949	NP_057033	Q7L5D6	GET4_HUMAN	hypothetical protein LOC51608	58					tail-anchored membrane protein insertion into ER membrane|transport	BAT3 complex	protein binding				0						TCCCAGAGCAAGCACACGGAG	0.622													14	63	---	---	---	---	PASS	T	925710	T	T	925710	3	4	41	1	0	0	0	0	1	0	0	0	6336	72	3	5	179	5	GET4	7	925710	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	16712	925710	158212953	254	15863										
PAPOLB	56903	broad.mit.edu	37	chr7	4901270	4901270	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	taaaatcctgcgctgcagttCctcttcctcttcgaagaccc	6	15	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:4901270C>T	uc003snk.2	-	1	356	c.172G>A	c.(172-174)GAA>AAA	p.E58K	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	57					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		CGCTGCAGTTCCTCTTCCTCT	0.488													9	31	---	---	---	---	PASS	T	4901270	T	T	4901270	3	4	41	1	0	0	0	0	1	0	0	0	11430	864	30	2	1745	2	PAPOLB	7	4901270	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3975560	4901270	154237393	255	15864										
COL28A1	340267	broad.mit.edu	37	chr7	7472140	7472140	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cccactccacgtaaacccatCggcccagggggtcctggtaa	10	16	0	0	rs115295026	by1000genomes	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:7472140C>T	uc003src.1	-	25	2079	c.1962G>A	c.(1960-1962)CCG>CCA	p.P654P	COL28A1_uc011jxe.1_Silent_p.P337P|COL28A1_uc003srd.2_Silent_p.P209P|COL28A1_uc003sre.1_Silent_p.P75P	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	654					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		GTAAACCCATCGGCCCAGGGG	0.512													29	97	---	---	---	---	PASS	T	7472140	T	T	7472140	2	4	41	1	0	0	0	0	0	0	0	1	3686	871	31	2		2	COL28A1	7	7472140	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	2570870	7472140	151666523	256	15865										
MEOX2	4223	broad.mit.edu	37	chr7	15725582	15725582	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtgacagtgcctggcggccgTagtcccccggcgcgcacgcg	16	16	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:15725582T>C	uc003stc.2	-	1	727	c.446A>G	c.(445-447)TAC>TGC	p.Y149C	MEOX2_uc011jxw.1_Missense_Mutation_p.Y149C	NM_005924	NP_005915	P50222	MEOX2_HUMAN	mesenchyme homeobox 2	149					blood circulation|multicellular organismal development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.0822)		CTGGCGGCCGTAGTCCCCCGG	0.706													36	58	---	---	---	---	PASS	C	15725582	C	C	15725582	3	2	41	1	0	0	0	0	1	0	0	0	9474	1638	57	5	480	5	MEOX2	7	15725582	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	8253442	15725582	143413081	257	15866										
DNAH11	8701	broad.mit.edu	37	chr7	21778329	21778329	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tttatttcagaaattcttgaGaaacccctagagaaaaaagc	6	7	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:21778329G>C	uc003svc.2	+	48	7708	c.7677G>C	c.(7675-7677)GAG>GAC	p.E2559D		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2559	AAA 3 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AAATTCTTGAGAAACCCCTAG	0.333									Kartagener_syndrome				5	3	---	---	---	---	PASS	C	21778329	C	C	21778329	3	2	41	1	0	0	0	0	1	0	0	0	4599	933	33	2	7864	2	DNAH11	7	21778329	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6052747	21778329	137360334	258	15867										
MPP6	51678	broad.mit.edu	37	chr7	24705258	24705258	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtctcattccaagccagttcCtggaagagaagagaaaggca	11	9	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:24705258C>A	uc003swx.2	+	8	1134	c.835C>A	c.(835-837)CTG>ATG	p.L279M	MPP6_uc003swy.2_Missense_Mutation_p.L279M|MPP6_uc010kur.2_5'Flank	NM_016447	NP_057531	Q9NZW5	MPP6_HUMAN	membrane protein, palmitoylated 6	279	SH3.				protein complex assembly		protein binding				0						AAGCCAGTTCCTGGAAGAGAA	0.428													4	103	---	---	---	---	PASS	A	24705258	A	A	24705258	3	1	41	1	0	0	0	0	1	0	0	0	9738	680	24	3	857	3	MPP6	7	24705258	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2926929	24705258	134433405	259	15868										
WIPF3	644150	broad.mit.edu	37	chr7	29915547	29915547	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cgcctgcgcaaagtcacgcaGatcaacgaccgcagtgcccc	10	17	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:29915547G>T	uc003taj.1	+	2	192	c.192G>T	c.(190-192)CAG>CAT	p.Q64H		NM_001080529	NP_001073998	A6NGB9	WIPF3_HUMAN	WAS/WASL interacting protein family, member 3	64										ovary(1)	1						AAGTCACGCAGATCAACGACC	0.602													25	40	---	---	---	---	PASS	T	29915547	T	T	29915547	3	4	41	1	0	0	0	0	1	0	0	0	17366	933	33	2	198	2	WIPF3	7	29915547	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	5210289	29915547	129223116	260	15869										
ADCYAP1R1	117	broad.mit.edu	37	chr7	31123863	31123863	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atgaatctgagactggggacCaggtgagtgtctgcaccctg	14	9	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:31123863C>G	uc003tca.1	+	7	659	c.436C>G	c.(436-438)CAG>GAG	p.Q146E	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.Q125E|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.Q146E|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.Q146E|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.Q146E|ADCYAP1R1_uc003tcf.1_5'Flank	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	146	Extracellular (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						GACTGGGGACCAGGTGAGTGT	0.552													10	45	---	---	---	---	PASS	G	31123863	G	G	31123863	3	3	41	1	0	0	0	0	1	0	0	0	303	595	21	4	458	4	ADCYAP1R1	7	31123863	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1208316	31123863	128014800	261	15870										
ADCYAP1R1	117	broad.mit.edu	37	chr7	31124950	31124950	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgcactgcacacgcaacttcAtccacatgaacctgtttgtg	7	13	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:31124950A>G	uc003tca.1	+	9	785	c.562A>G	c.(562-564)ATC>GTC	p.I188V	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.I167V|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.I188V|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.I188V|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.I188V|ADCYAP1R1_uc003tcf.1_5'Flank	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	188	Helical; Name=2; (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						ACGCAACTTCATCCACATGAA	0.532													56	103	---	---	---	---	PASS	G	31124950	G	G	31124950	3	3	41	1	0	0	0	0	1	0	0	0	303	217	8	5	592	5	ADCYAP1R1	7	31124950	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	1087	31124950	128013713	262	15871										
PDE1C	5137	broad.mit.edu	37	chr7	32209413	32209413	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaacctgaaggatgtcttcaCcaagacttctgagctatcca	7	11	3	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:32209413C>A	uc003tco.1	-	3	886	c.292G>T	c.(292-294)GTG>TTG	p.V98L		NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	Error:Variant_position_missing_in_Q14123_after_alignment					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			GATGTCTTCACCAAGACTTCT	0.473													5	54	---	---	---	---	PASS	A	32209413	A	A	32209413	3	1	41	1	0	0	0	0	1	0	0	0	11635	522	18	3		3	PDE1C	7	32209413	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1084463	32209413	126929250	263	15872										
TBX20	57057	broad.mit.edu	37	chr7	35244188	35244188	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttttgaatcaggctctccacActttccctaggttagagtga	8	10	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:35244188A>G	uc011kas.1	-	7	908	c.897T>C	c.(895-897)AGT>AGC	p.S299S		NM_001077653	NP_001071121	Q9UMR3	TBX20_HUMAN	T-box transcription factor TBX20	299						nucleus	DNA binding			central_nervous_system(1)	1						GGCTCTCCACACTTTCCCTAG	0.448													13	22	---	---	---	---	PASS	G	35244188	G	G	35244188	2	3	41	1	0	0	0	0	0	0	0	1	15653	156	6	5		5	TBX20	7	35244188	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	3034775	35244188	123894475	264	15873										
PGAM2	5224	broad.mit.edu	37	chr7	44104982	44104982	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tagcagatgtcaaactccatCttggcatccttgatggcctt	8	11	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:44104982C>T	uc003tjs.2	-	1	182	c.147G>A	c.(145-147)AAG>AAA	p.K49K		NM_000290	NP_000281	P15259	PGAM2_HUMAN	phosphoglycerate mutase 2	49					gluconeogenesis|glycolysis|striated muscle contraction	cytosol	2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity				0						CAAACTCCATCTTGGCATCCT	0.607													24	68	---	---	---	---	PASS	T	44104982	T	T	44104982	2	4	41	1	0	0	0	0	0	0	0	1	11774	912	32	2		2	PGAM2	7	44104982	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	8860794	44104982	115033681	265	15874										
PHTF2	57157	broad.mit.edu	37	chr7	77579098	77579098	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cctaagatttgttacccttgGatcagaaacaagtaaaaaat	6	7	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:77579098G>T	uc003ugs.3	+	16	2189	c.2063G>T	c.(2062-2064)GGA>GTA	p.G688V	PHTF2_uc003ugq.3_Missense_Mutation_p.G650V|PHTF2_uc010ldv.2_Intron|PHTF2_uc003ugt.3_Missense_Mutation_p.G654V|PHTF2_uc003ugu.3_Missense_Mutation_p.G650V	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	688					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						GTTACCCTTGGATCAGAAACA	0.333													7	19	---	---	---	---	PASS	T	77579098	T	T	77579098	3	4	41	1	0	0	0	0	1	0	0	0	11863	1174	41	2	2073	2	PHTF2	7	77579098	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	33474116	77579098	81559565	266	15875										
PCLO	27445	broad.mit.edu	37	chr7	82595319	82595319	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cttgagatttaagtaagtcaTgtttctgttcttctggggct	10	6	4	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:82595319T>G	uc003uhx.2	-	4	4074	c.3785A>C	c.(3784-3786)CAT>CCT	p.H1262P	PCLO_uc003uhv.2_Missense_Mutation_p.H1262P	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1201					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AAGTAAGTCATGTTTCTGTTC	0.423													8	282	---	---	---	---	PASS	G	82595319	G	G	82595319	3	3	41	1	0	0	0	0	1	0	0	0	11583	1464	51	5	11748	5	PCLO	7	82595319	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	5016221	82595319	76543344	267	15876										
SEMA3D	223117	broad.mit.edu	37	chr7	84644417	84644417	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gagagcatgcatttccatccCaggcacagtaggggtctctg	12	11	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:84644417C>T	uc003uic.2	-	14	1701	c.1661G>A	c.(1660-1662)TGG>TAG	p.W554*	SEMA3D_uc010led.2_Nonsense_Mutation_p.W554*|SEMA3D_uc003uib.2_Nonsense_Mutation_p.W193*	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	554	PSI.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						ATTTCCATCCCAGGCACAGTA	0.473													42	101	---	---	---	---	PASS	T	84644417	T	T	84644417	4	4	41	1	0	0	0	0	0	1	0	0	14027	595	21	3	688	3	SEMA3D	7	84644417	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2049098	84644417	74494246	268	15877										
SEMA3D	223117	broad.mit.edu	37	chr7	84702362	84702362	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tatatgtgagttttgttataGggctgaagtactctgatgaa	11	3	1	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:84702362G>A	uc003uic.2	-	4	451	c.411C>T	c.(409-411)CCC>CCT	p.P137P	SEMA3D_uc010led.2_Silent_p.P137P|SEMA3D_uc010lee.1_Silent_p.P137P	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	137	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						TTTTGTTATAGGGCTGAAGTA	0.328													32	89	---	---	---	---	PASS	A	84702362	A	A	84702362	2	1	41	1	0	0	0	0	0	0	0	1	14027	987	35	3		3	SEMA3D	7	84702362	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	57945	84702362	74436301	269	15878										
ADAM22	53616	broad.mit.edu	37	chr7	87774742	87774742	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttccttaggaatgtgtccttGaaggagcagagtgttgtaag	13	5	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:87774742G>A	uc003ujn.2	+	17	1484	c.1405G>A	c.(1405-1407)GAA>AAA	p.E469K	ADAM22_uc003ujk.1_Missense_Mutation_p.E469K|ADAM22_uc003ujl.1_Missense_Mutation_p.E469K|ADAM22_uc003ujm.2_Missense_Mutation_p.E469K|ADAM22_uc003ujo.2_Missense_Mutation_p.E469K|ADAM22_uc003ujp.1_Missense_Mutation_p.E521K	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	469	Disintegrin.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			ATGTGTCCTTGAAGGAGCAGA	0.353													40	116	---	---	---	---	PASS	A	87774742	A	A	87774742	3	1	41	1	0	0	0	0	1	0	0	0	244	1291	45	2	1471	2	ADAM22	7	87774742	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	3072380	87774742	71363921	270	15879										
PEX1	5189	broad.mit.edu	37	chr7	92134131	92134131	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccagcaatgaggtcaaggtcAtccagcaggacaacagatgg	12	10	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:92134131A>G	uc003uly.2	-	12	2082	c.1986T>C	c.(1984-1986)GAT>GAC	p.D662D	PEX1_uc011khr.1_Silent_p.D454D|PEX1_uc010ley.2_Intron|PEX1_uc011khs.1_Silent_p.D340D|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	662			Missing (in NALD).		microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			GGTCAAGGTCATCCAGCAGGA	0.507													82	217	---	---	---	---	PASS	G	92134131	G	G	92134131	2	3	41	1	0	0	0	0	0	0	0	1	11735	214	8	5		5	PEX1	7	92134131	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	4359389	92134131	67004532	271	15880										
CALCR	799	broad.mit.edu	37	chr7	93065476	93065476	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aatgttgagcaaaaagaagaAattgacctgcaaatatacgg	9	5	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:93065476A>C	uc003umv.1	-	13	1300	c.1039T>G	c.(1039-1041)TTC>GTC	p.F347V	CALCR_uc011kia.1_Missense_Mutation_p.F127V|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.F313V|CALCR_uc003umw.2_Missense_Mutation_p.F313V	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	329	Helical; Name=5; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	AAAAAGAAGAAATTGACCTGC	0.423													17	36	---	---	---	---	PASS	C	93065476	C	C	93065476	3	2	41	1	0	0	0	0	1	0	0	0	2579	14	1	5	499	5	CALCR	7	93065476	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	931345	93065476	66073187	272	15881										
MUC17	140453	broad.mit.edu	37	chr7	100677255	100677255	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcctacacctgctgaaggtaCcagcatgccaacctcaactt	6	15	1	1	rs140905069		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:100677255C>A	uc003uxp.1	+	3	2611	c.2558C>A	c.(2557-2559)ACC>AAC	p.T853N	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	853	Extracellular (Potential).|12.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GCTGAAGGTACCAGCATGCCA	0.488													123	375	---	---	---	---	PASS	A	100677255	A	A	100677255	3	1	41	1	0	0	0	0	1	0	0	0	9974	507	18	3	2568	3	MUC17	7	100677255	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	7611779	100677255	58461408	273	15882										
MUC17	140453	broad.mit.edu	37	chr7	100684625	100684625	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caactcctgctgacaccagcAcacctgtgaccacttattct	5	16	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:100684625A>T	uc003uxp.1	+	3	9981	c.9928A>T	c.(9928-9930)ACA>TCA	p.T3310S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3310	Extracellular (Potential).|54.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TGACACCAGCACACCTGTGAC	0.488													95	260	---	---	---	---	PASS	T	100684625	T	T	100684625	3	4	41	1	0	0	0	0	1	0	0	0	9974	159	6	5	9938	5	MUC17	7	100684625	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	7370	100684625	58454038	274	15883										
MOGAT3	346606	broad.mit.edu	37	chr7	100842049	100842049	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggaagcctgtacacatgatCccatgagggtgggcgcccag	14	11	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:100842049C>T	uc003uyc.2	-	4	518	c.351G>A	c.(349-351)GGG>GGA	p.G117G	MOGAT3_uc010lhr.2_Silent_p.G117G	NM_178176	NP_835470	Q86VF5	MOGT3_HUMAN	monoacylglycerol O-acyltransferase 3	117					glycerol metabolic process|lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity|diacylglycerol O-acyltransferase activity			ovary(2)	2	Lung NSC(181;0.168)|all_lung(186;0.215)					TACACATGATCCCATGAGGGT	0.612													46	104	---	---	---	---	PASS	T	100842049	T	T	100842049	2	4	41	1	0	0	0	0	0	0	0	1	9696	842	30	2		2	MOGAT3	7	100842049	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	157424	100842049	58296614	275	15884										
PUS7	54517	broad.mit.edu	37	chr7	105099694	105099694	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggaattttgggatcatcataTgcaacgacttcccttcaaaa	7	9	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:105099694T>C	uc003vcx.2	-	15	1989	c.1770A>G	c.(1768-1770)GCA>GCG	p.A590A	PUS7_uc010lji.2_Silent_p.A596A|PUS7_uc003vcy.2_Silent_p.A590A|PUS7_uc003vcz.1_Silent_p.A590A	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog	590					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						GATCATCATATGCAACGACTT	0.363													27	70	---	---	---	---	PASS	C	105099694	C	C	105099694	2	2	41	1	0	0	0	0	0	0	0	1	12833	1451	51	5		5	PUS7	7	105099694	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	4257645	105099694	54038969	276	15885										
CBLL1	79872	broad.mit.edu	37	chr7	107398830	107398830	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aatgccaccagacaagcaccAtatgagccatattccgccaa	6	14	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:107398830A>G	uc003veq.2	+	6	1013	c.683A>G	c.(682-684)CAT>CGT	p.H228R	CBLL1_uc011kme.1_Missense_Mutation_p.H107R|CBLL1_uc011kmf.1_Missense_Mutation_p.H227R	NM_024814	NP_079090	Q75N03	HAKAI_HUMAN	Cas-Br-M (murine) ecotropic retroviral	228	Pro-rich.				cell-cell adhesion|negative regulation of cell adhesion|positive regulation of cell migration|positive regulation of endocytosis		protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|skin(2)|lung(1)	5						GACAAGCACCATATGAGCCAT	0.468													63	147	---	---	---	---	PASS	G	107398830	G	G	107398830	3	3	41	1	0	0	0	0	1	0	0	0	2703	217	8	5	705	5	CBLL1	7	107398830	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	2299136	107398830	51739833	277	15886										
IMMP2L	83943	broad.mit.edu	37	chr7	110603570	110603570	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acttacctgacaatatctccTtcaagagcaatcactctctt	3	13	4	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:110603570T>C	uc003vfq.1	-	4	734	c.291A>G	c.(289-291)GAA>GAG	p.E97E	IMMP2L_uc010ljr.1_Silent_p.E97E|IMMP2L_uc003vfr.2_Silent_p.E97E	NM_032549	NP_115938	Q96T52	IMP2L_HUMAN	IMP2 inner mitochondrial membrane protease-like	97					protein processing involved in protein targeting to mitochondrion|proteolysis	integral to membrane|mitochondrial inner membrane peptidase complex|nucleus	serine-type peptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)		CAATATCTCCTTCAAGAGCAA	0.328													29	70	---	---	---	---	PASS	C	110603570	C	C	110603570	2	2	41	1	0	0	0	0	0	0	0	1	7717	1606	56	5		5	IMMP2L	7	110603570	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	3204740	110603570	48535093	278	15887										
PTPRZ1	5803	broad.mit.edu	37	chr7	121653494	121653494	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttcagacacccacgaaaacaGtcttatggatcagaataatc	6	10	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:121653494G>A	uc003vjy.2	+	12	4789	c.4394G>A	c.(4393-4395)AGT>AAT	p.S1465N	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1465	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						CACGAAAACAGTCTTATGGAT	0.378													17	107	---	---	---	---	PASS	A	121653494	A	A	121653494	3	1	41	1	0	0	0	0	1	0	0	0	12814	1029	36	3	4440	3	PTPRZ1	7	121653494	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	11049924	121653494	37485169	279	15888										
IQUB	154865	broad.mit.edu	37	chr7	123119903	123119903	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tttgccatataagcaatgtaTctatgtctcccaatggaagc	7	9	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:123119903T>C	uc003vkn.2	-	8	1933	c.1356A>G	c.(1354-1356)AGA>AGG	p.R452R	IQUB_uc003vko.2_Silent_p.R452R|IQUB_uc010lkt.2_Intron|IQUB_uc003vkp.1_Silent_p.R452R	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	452										ovary(3)|large_intestine(1)	4						AAGCAATGTATCTATGTCTCC	0.358													40	88	---	---	---	---	PASS	C	123119903	C	C	123119903	2	2	41	1	0	0	0	0	0	0	0	1	7820	1432	50	5		5	IQUB	7	123119903	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	1466409	123119903	36018760	280	15889										
GRM8	2918	broad.mit.edu	37	chr7	126173774	126173774	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctctgatccagagggcaaagTtcacaggacagctcatccac	9	13	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:126173774T>A	uc003vlr.2	-	8	1973	c.1662A>T	c.(1660-1662)GAA>GAT	p.E554D	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.E554D|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	554	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	GAGGGCAAAGTTCACAGGACA	0.552										HNSCC(24;0.065)			40	100	---	---	---	---	PASS	A	126173774	A	A	126173774	3	1	41	1	0	0	0	0	1	0	0	0	6803	1722	60	5	1126	5	GRM8	7	126173774	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	3053871	126173774	32964889	281	15890										
MGAM	8972	broad.mit.edu	37	chr7	141740548	141740548	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caagtgagatggaggaagcaAaaagtcgagatggaacttcc	13	6	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:141740548A>G	uc003vwy.2	+	21	2454	c.2400A>G	c.(2398-2400)CAA>CAG	p.Q800Q		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	800	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GGAGGAAGCAAAAAGTCGAGA	0.478													12	33	---	---	---	---	PASS	G	141740548	G	G	141740548	2	3	41	1	0	0	0	0	0	0	0	1	9541	11	1	5		5	MGAM	7	141740548	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	15566774	141740548	17398115	282	15891										
OR6V1	346517	broad.mit.edu	37	chr7	142749667	142749667	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggtaaccatgactgcagtgcCcaggatgctctcagacctgt	11	12	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:142749667C>A	uc011ksv.1	+	1	230	c.230C>A	c.(229-231)CCC>CAC	p.P77H		NM_001001667	NP_001001667	Q8N148	OR6V1_HUMAN	olfactory receptor, family 6, subfamily V,	77	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.059)					ACTGCAGTGCCCAGGATGCTC	0.507													82	200	---	---	---	---	PASS	A	142749667	A	A	142749667	3	1	41	1	0	0	0	0	1	0	0	0	11211	623	22	3	232	3	OR6V1	7	142749667	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1009119	142749667	16388996	283	15892										
OR2F2	135948	broad.mit.edu	37	chr7	143632563	143632563	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atgccacaagcgtagtccccCagctgctggcacattttctt	8	14	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:143632563C>T	uc011ktv.1	+	1	238	c.238C>T	c.(238-240)CAG>TAG	p.Q80*		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	80	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					CGTAGTCCCCCAGCTGCTGGC	0.512													106	266	---	---	---	---	PASS	T	143632563	T	T	143632563	4	4	41	1	0	0	0	0	0	1	0	0	10997	595	21	3	240	3	OR2F2	7	143632563	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	882896	143632563	15506100	284	15893										
ZNF398	57541	broad.mit.edu	37	chr7	148851301	148851301	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	accagctggagggcaagtggGccgtgctgggaaccctgctg	17	11	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:148851301G>C	uc003wfl.2	+	2	564	c.289G>C	c.(289-291)GCC>CCC	p.A97P	ZNF398_uc011kul.1_5'UTR|ZNF398_uc011kum.1_Missense_Mutation_p.A102P	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	97					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			GGGCAAGTGGGCCGTGCTGGG	0.592													31	103	---	---	---	---	PASS	C	148851301	C	C	148851301	3	2	41	1	0	0	0	0	1	0	0	0	17882	1203	42	4	295	4	ZNF398	7	148851301	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	5218738	148851301	10287362	285	15894										
ZNF398	57541	broad.mit.edu	37	chr7	148851390	148851390	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgcgcaacaggaacttctgGatcctgcggctccctccagg	11	15	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:148851390G>T	uc003wfl.2	+	2	653	c.378G>T	c.(376-378)TGG>TGT	p.W126C	ZNF398_uc011kul.1_5'UTR|ZNF398_uc011kum.1_Missense_Mutation_p.W131C	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	126					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			GGAACTTCTGGATCCTGCGGC	0.522													40	67	---	---	---	---	PASS	T	148851390	T	T	148851390	3	4	41	1	0	0	0	0	1	0	0	0	17882	1183	41	2	384	2	ZNF398	7	148851390	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	89	148851390	10287273	286	15895										
SSPO	23145	broad.mit.edu	37	chr7	149514991	149514991	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acctggctcttcccccagctCgtgtgcacacgggaagctgt	11	15	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr7:149514991C>G	uc010lpk.2	+	81	11381	c.11381C>G	c.(11380-11382)TCG>TGG	p.S3794W		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3794					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TCCCCCAGCTCGTGTGCACAC	0.662													8	34	---	---	---	---	PASS	G	149514991	G	G	149514991	3	3	41	1	0	0	0	0	1	0	0	0	15188	893	31	2	11693	2	SSPO	7	149514991	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	663601	149514991	9623672	287	15896										
CSMD1	64478	broad.mit.edu	37	chr8	3165281	3165281	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaggttgttgtcatacggagCtggatagccaggggacaata	15	6	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:3165281C>A	uc011kwk.1	-	25	4279	c.3889G>T	c.(3889-3891)GCT>TCT	p.A1297S	CSMD1_uc011kwj.1_Missense_Mutation_p.A689S|CSMD1_uc003wqe.2_Missense_Mutation_p.A453S	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1297	Extracellular (Potential).|CUB 8.					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)		TCATACGGAGCTGGATAGCCA	0.468													68	89	---	---	---	---	PASS	A	3165281	A	A	3165281	3	1	41	1	0	0	0	0	1	0	0	0	3944	797	28	3	6992	3	CSMD1	8	3165281	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08		3165281	143198741	288	15897										
DLC1	10395	broad.mit.edu	37	chr8	12943812	12943812	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aacataccttaagtcaactcTgcacatgtaggtgagtttgg	9	8	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:12943812T>G	uc003wwm.2	-	17	4897	c.4453A>C	c.(4453-4455)AGA>CGA	p.R1485R	DLC1_uc003wwk.1_Silent_p.R1048R|DLC1_uc003wwl.1_Silent_p.R1082R|DLC1_uc011kxx.1_Silent_p.R974R	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1485	START.				actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						AAGTCAACTCTGCACATGTAG	0.423													32	47	---	---	---	---	PASS	G	12943812	G	G	12943812	2	3	41	1	0	0	0	0	0	0	0	1	4550	1588	55	5		5	DLC1	8	12943812	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	9778531	12943812	133420210	289	15898										
STC1	6781	broad.mit.edu	37	chr8	23708998	23708998	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cgaggaagaccttggaggtgAccccgttggcgatgcatttt	14	9	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:23708998A>T	uc003xdw.1	-	3	592	c.308T>A	c.(307-309)GTC>GAC	p.V103D		NM_003155	NP_003146	P52823	STC1_HUMAN	stanniocalcin 1 precursor	103					cell surface receptor linked signaling pathway|cell-cell signaling|cellular calcium ion homeostasis		hormone activity			skin(3)|upper_aerodigestive_tract(1)	4		Prostate(55;0.055)|Breast(100;0.116)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		CTTGGAGGTGACCCCGTTGGC	0.517													12	48	---	---	---	---	PASS	T	23708998	T	T	23708998	3	4	41	1	0	0	0	0	1	0	0	0	15274	275	10	5	443	5	STC1	8	23708998	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	10765186	23708998	122655024	290	15899										
UNC5D	137970	broad.mit.edu	37	chr8	35583956	35583956	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agaaataaaatgccctacatCcaaaatctgtcatcactccc	3	13	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:35583956C>A	uc003xjr.1	+	10	1918	c.1590C>A	c.(1588-1590)ATC>ATA	p.I530I	UNC5D_uc003xjs.1_Silent_p.I525I|UNC5D_uc003xju.1_Silent_p.I106I|UNC5D_uc003xjt.1_Silent_p.I288I	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	530	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		TGCCCTACATCCAAAATCTGT	0.473													58	83	---	---	---	---	PASS	A	35583956	A	A	35583956	2	1	41	1	0	0	0	0	0	0	0	1	16992	845	30	2		2	UNC5D	8	35583956	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	11874958	35583956	110780066	291	15900										
ADAM18	8749	broad.mit.edu	37	chr8	39537603	39537603	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgttcagccacataaaaatgCtaataaaagtgacgctcaat	6	8	2	1	rs140616028		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:39537603C>A	uc003xni.2	+	16	1679	c.1679C>A	c.(1678-1680)GCT>GAT	p.A560D	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.A536D	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	560	Cys-rich.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			CATAAAAATGCTAATAAAAGT	0.363													22	99	---	---	---	---	PASS	A	39537603	A	A	39537603	3	1	41	1	0	0	0	0	1	0	0	0	239	797	28	3	1741	3	ADAM18	8	39537603	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3953647	39537603	106826419	292	15901										
ADAM2	2515	broad.mit.edu	37	chr8	39624421	39624421	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	actcatacaaactccatctaTacagatccattgattcagtc	3	12	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:39624421T>A	uc003xnj.2	-	14	1528	c.1453A>T	c.(1453-1455)ATA>TTA	p.I485L	ADAM2_uc003xnk.2_Missense_Mutation_p.I466L|ADAM2_uc011lck.1_Missense_Mutation_p.I485L|ADAM2_uc003xnl.2_Missense_Mutation_p.I359L	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	485	Extracellular (Potential).|Cys-rich.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		ACTCCATCTATACAGATCCAT	0.393													71	150	---	---	---	---	PASS	A	39624421	A	A	39624421	3	1	41	1	0	0	0	0	1	0	0	0	241	1406	49	5	782	5	ADAM2	8	39624421	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	86818	39624421	106739601	293	15902										
ZMAT4	79698	broad.mit.edu	37	chr8	40438772	40438772	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gatggtacatctgtaattgcGcctcagacctgtggacaaca	10	10	2	1	rs144919411	by1000genomes	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:40438772G>T	uc003xnr.2	-	6	732	c.586C>A	c.(586-588)CGC>AGC	p.R196S	ZMAT4_uc003xns.2_Missense_Mutation_p.R120S	NM_024645	NP_078921	Q9H898	ZMAT4_HUMAN	zinc finger, matrin type 4 isoform a	196						nucleus	DNA binding|zinc ion binding			pancreas(1)|central_nervous_system(1)|skin(1)	3	Ovarian(28;0.00724)|Colorectal(14;0.0468)	all_cancers(7;0.00936)|all_epithelial(6;3.53e-06)|all_lung(54;0.0318)|Lung NSC(58;0.0919)|Esophageal squamous(32;0.15)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;0.00722)			CTGTAATTGCGCCTCAGACCT	0.463													23	90	---	---	---	---	PASS	T	40438772	T	T	40438772	3	4	41	1	0	0	0	0	1	0	0	0	17691	1087	38	1	111	1	ZMAT4	8	40438772	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	814351	40438772	105925250	294	15903										
POTEA	340441	broad.mit.edu	37	chr8	43197461	43197461	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctcattgaacaactcaaaatGgattttaacggtaggaccat	7	8	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:43197461G>C	uc003xpz.1	+	11	1393	c.1350G>C	c.(1348-1350)ATG>ATC	p.M450I	POTEA_uc003xqa.1_Missense_Mutation_p.M404I	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	450										ovary(1)	1						AACTCAAAATGGATTTTAACG	0.368													53	124	---	---	---	---	PASS	C	43197461	C	C	43197461	3	2	41	1	0	0	0	0	1	0	0	0	12261	1348	47	4	1392	4	POTEA	8	43197461	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2758689	43197461	103166561	295	15904										
RP1	6101	broad.mit.edu	37	chr8	55533890	55533890	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tagacctggacaaagcccgtCggcgcccgcggccctggctc	13	17	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:55533890C>T	uc003xsd.1	+	2	512	c.364C>T	c.(364-366)CGG>TGG	p.R122W	RP1_uc011ldy.1_Missense_Mutation_p.R122W	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	122					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CAAAGCCCGTCGGCGCCCGCG	0.711													35	41	---	---	---	---	PASS	T	55533890	T	T	55533890	3	4	41	1	0	0	0	0	1	0	0	0	13532	875	31	2	366	2	RP1	8	55533890	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	12336429	55533890	90830132	296	15905										
ASPH	444	broad.mit.edu	37	chr8	62460751	62460751	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtcctctcttgtgcccaagcTcataccacttatatgcctga	6	14	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:62460751T>A	uc003xuj.2	-	21	1912	c.1643A>T	c.(1642-1644)GAG>GTG	p.E548V	ASPH_uc011leg.1_Missense_Mutation_p.E519V	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	548	TPR 4.|Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	GTGCCCAAGCTCATACCACTT	0.388													31	102	---	---	---	---	PASS	A	62460751	A	A	62460751	3	1	41	1	0	0	0	0	1	0	0	0	1053	1551	54	5	653	5	ASPH	8	62460751	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	6926861	62460751	83903271	297	15906										
SLCO5A1	81796	broad.mit.edu	37	chr8	70585235	70585235	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tttttgcaggccagtctcttCgtggaattctccctgggtgc	11	11	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:70585235C>A	uc003xyl.2	-	10	3123	c.2416G>T	c.(2416-2418)GAA>TAA	p.E806*	SLCO5A1_uc010lzb.2_Nonsense_Mutation_p.E751*|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_3'UTR	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	806	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			CCAGTCTCTTCGTGGAATTCT	0.587													61	77	---	---	---	---	PASS	A	70585235	A	A	70585235	4	1	41	1	0	0	0	0	0	1	0	0	14731	893	31	2	134	2	SLCO5A1	8	70585235	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	8124484	70585235	75778787	298	15907										
ZFHX4	79776	broad.mit.edu	37	chr8	77616444	77616444	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aagttgcagggatggagcctGacagggaaaacagctccaca	13	9	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:77616444G>T	uc003yav.2	+	2	508	c.121G>T	c.(121-123)GAC>TAC	p.D41Y	ZFHX4_uc003yat.1_Missense_Mutation_p.D41Y|ZFHX4_uc003yau.1_Missense_Mutation_p.D41Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.D41Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	41						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GATGGAGCCTGACAGGGAAAA	0.498										HNSCC(33;0.089)			7	71	---	---	---	---	PASS	T	77616444	T	T	77616444	3	4	41	1	0	0	0	0	1	0	0	0	17632	1290	45	2	123	2	ZFHX4	8	77616444	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	7031209	77616444	68747578	299	15908										
ZFHX4	79776	broad.mit.edu	37	chr8	77766009	77766009	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cgtcagaaagcacgaaagagTtatgagaatcaagcagaaac	10	7	2	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:77766009T>A	uc003yav.2	+	10	7104	c.6717T>A	c.(6715-6717)AGT>AGA	p.S2239R	ZFHX4_uc003yau.1_Missense_Mutation_p.S2284R|ZFHX4_uc003yaw.1_Missense_Mutation_p.S2239R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2239	Homeobox 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CACGAAAGAGTTATGAGAATC	0.388										HNSCC(33;0.089)			18	21	---	---	---	---	PASS	A	77766009	A	A	77766009	3	1	41	1	0	0	0	0	1	0	0	0	17632	1722	60	5	6886	5	ZFHX4	8	77766009	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	149565	77766009	68598013	300	15909										
WWP1	11059	broad.mit.edu	37	chr8	87424104	87424104	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acagaaaccttgccatcaggGtatgttaagctttttaatgt	8	7	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:87424104G>T	uc003ydt.2	+	9	1341	c.1061_splice	c.e9+1	p.G354_splice	WWP1_uc010mai.2_Splice_Site_p.G130_splice	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase						central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						TGCCATCAGGGTATGTTAAGC	0.403													20	78	---	---	---	---	PASS	T	87424104	T	T	87424104	5	4	41	1	0	0	0	0	0	0	1	0	17412	1275	44	3	1088	3	WWP1	8	87424104	Splice_Site	SNP	G	TCGA-22-4613-01A-01D-1441-08	9658095	87424104	58939918	301	15910										
CPNE3	8895	broad.mit.edu	37	chr8	87549866	87549866	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaaactggctaatggttcatCggacagaggtgaatatttga	12	5	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:87549866C>T	uc003ydv.2	+	7	697	c.535C>T	c.(535-537)CGG>TGG	p.R179W		NM_003909	NP_003900	O75131	CPNE3_HUMAN	copine III	179	C2 2.				lipid metabolic process|vesicle-mediated transport	cytosol	calcium-dependent phospholipid binding|protein serine/threonine kinase activity|transporter activity			ovary(1)|skin(1)	2						AATGGTTCATCGGACAGAGGT	0.323													53	88	---	---	---	---	PASS	T	87549866	T	T	87549866	3	4	41	1	0	0	0	0	1	0	0	0	3813	875	31	2	553	2	CPNE3	8	87549866	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	125762	87549866	58814156	302	15911										
SPAG1	6674	broad.mit.edu	37	chr8	101252883	101252883	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cgatgtttttaagtaacaaaCttgaaggggatacattcctt	8	6	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:101252883C>G	uc003yjh.1	+	18	2619	c.2533C>G	c.(2533-2535)CTT>GTT	p.L845V	SPAG1_uc003yji.1_Missense_Mutation_p.L845V	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	845					single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		AAGTAACAAACTTGAAGGGGA	0.368													59	66	---	---	---	---	PASS	G	101252883	G	G	101252883	3	3	41	1	0	0	0	0	1	0	0	0	14975	565	20	4	2599	4	SPAG1	8	101252883	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	13703017	101252883	45111139	303	15912										
RSPO2	340419	broad.mit.edu	37	chr8	108970453	108970453	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccacatgtgcgattatttctGctacaagttccccattcgct	6	13	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:108970453G>T	uc003yms.2	-	5	1129	c.471C>A	c.(469-471)AGC>AGA	p.S157R	RSPO2_uc003ymq.2_Missense_Mutation_p.S90R|RSPO2_uc003ymr.2_Missense_Mutation_p.S93R	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	157	TSP type-1.				Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			GATTATTTCTGCTACAAGTTC	0.373													95	117	---	---	---	---	PASS	T	108970453	T	T	108970453	3	4	41	1	0	0	0	0	1	0	0	0	13710	1310	46	3	268	3	RSPO2	8	108970453	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	7717570	108970453	37393569	304	15913										
RSPO2	340419	broad.mit.edu	37	chr8	108972938	108972938	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttcttctaatggtgcaaaacCatctggacattcatcaaagc	6	10	5	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:108972938C>A	uc003yms.2	-	4	1049	c.391G>T	c.(391-393)GGT>TGT	p.G131C	RSPO2_uc003ymq.2_Missense_Mutation_p.G64C|RSPO2_uc003ymr.2_Missense_Mutation_p.G68C	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	131	FU.				Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			GGTGCAAAACCATCTGGACAT	0.348													31	129	---	---	---	---	PASS	A	108972938	A	A	108972938	3	1	41	1	0	0	0	0	1	0	0	0	13710	594	21	3	352	3	RSPO2	8	108972938	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2485	108972938	37391084	305	15914										
RSPO2	340419	broad.mit.edu	37	chr8	109001408	109001408	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aacaacttctgttgacatcgGctacacccattgtcctttga	6	12	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:109001408G>C	uc003yms.2	-	3	817	c.159C>G	c.(157-159)AGC>AGG	p.S53R	RSPO2_uc003ymq.2_5'UTR|RSPO2_uc003ymr.2_Intron	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	53					Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			GTTGACATCGGCTACACCCAT	0.428													61	60	---	---	---	---	PASS	C	109001408	C	C	109001408	3	2	41	1	0	0	0	0	1	0	0	0	13710	1194	42	4	588	4	RSPO2	8	109001408	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	28470	109001408	37362614	306	15915										
CSMD3	114788	broad.mit.edu	37	chr8	113331147	113331147	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgcattaccaactaaagtaaAtcctggaagacactgatacc	6	10	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:113331147A>T	uc003ynu.2	-	47	7438	c.7279T>A	c.(7279-7281)TTT>ATT	p.F2427I	CSMD3_uc003yns.2_Missense_Mutation_p.F1629I|CSMD3_uc003ynt.2_Missense_Mutation_p.F2387I|CSMD3_uc011lhx.1_Missense_Mutation_p.F2323I|CSMD3_uc003ynw.1_Missense_Mutation_p.F138I	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2427	Extracellular (Potential).|Sushi 13.					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						ACTAAAGTAAATCCTGGAAGA	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			34	97	---	---	---	---	PASS	T	113331147	T	T	113331147	3	4	41	1	0	0	0	0	1	0	0	0	3946	101	4	5	3944	5	CSMD3	8	113331147	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	4329739	113331147	33032875	307	15916										
SLC30A8	169026	broad.mit.edu	37	chr8	118159291	118159291	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtaccactgccacagtggctCcaagcccacagaaaaggggg	12	13	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:118159291C>A	uc003yoh.2	+	2	400	c.170C>A	c.(169-171)TCC>TAC	p.S57Y	SLC30A8_uc010mcz.2_Missense_Mutation_p.S8Y|SLC30A8_uc011lia.1_Missense_Mutation_p.S8Y|SLC30A8_uc003yog.2_Missense_Mutation_p.S8Y	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	57	Cytoplasmic (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			CACAGTGGCTCCAAGCCCACA	0.507													74	159	---	---	---	---	PASS	A	118159291	A	A	118159291	3	1	41	1	0	0	0	0	1	0	0	0	14561	855	30	2	176	2	SLC30A8	8	118159291	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4828144	118159291	28204731	308	15917										
WDR67	93594	broad.mit.edu	37	chr8	124140744	124140744	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaatgatgaattggattactTaagagagaggtaattatgga	12	1	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:124140744T>C	uc003ypp.1	+	14	2198	c.2108T>C	c.(2107-2109)TTA>TCA	p.L703S	WDR67_uc011lig.1_Missense_Mutation_p.L703S|WDR67_uc011lih.1_Missense_Mutation_p.L593S|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Intron|WDR67_uc003ypt.1_Missense_Mutation_p.L160S|WDR67_uc003ypu.1_Missense_Mutation_p.L160S	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	703						centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			TTGGATTACTTAAGAGAGAGG	0.259													13	108	---	---	---	---	PASS	C	124140744	C	C	124140744	3	2	41	1	0	0	0	0	1	0	0	0	17315	1764	61	5	2162	5	WDR67	8	124140744	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	5981453	124140744	22223278	309	15918										
ADCY8	114	broad.mit.edu	37	chr8	131797656	131797656	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcaggtgacaggcctgacacGgccatgtaggtgctgccaat	13	11	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:131797656G>C	uc003ytd.3	-	16	3382	c.3126C>G	c.(3124-3126)GCC>GCG	p.A1042A	ADCY8_uc010mds.2_Silent_p.A911A	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1042	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GGCCTGACACGGCCATGTAGG	0.498										HNSCC(32;0.087)			17	137	---	---	---	---	PASS	C	131797656	C	C	131797656	2	2	41	1	0	0	0	0	0	0	0	1	300	1103	39	4		4	ADCY8	8	131797656	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	7656912	131797656	14566366	310	15919										
KCNQ3	3786	broad.mit.edu	37	chr8	133144504	133144504	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggatggtctggctacatatgGttcattcctaagaagaagcg	12	7	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:133144504G>T	uc003ytj.2	-	14	2032	c.1807C>A	c.(1807-1809)CCA>ACA	p.P603T	KCNQ3_uc010mdt.2_Missense_Mutation_p.P591T	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	603					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			GCTACATATGGTTCATTCCTA	0.413													59	83	---	---	---	---	PASS	T	133144504	T	T	133144504	3	4	41	1	0	0	0	0	1	0	0	0	8084	1261	44	3	819	3	KCNQ3	8	133144504	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1346848	133144504	13219518	311	15920										
PTP4A3	11156	broad.mit.edu	37	chr8	142432440	142432440	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acgccacgctcagcaccttcAttgaggtgagtggagacgga	13	11	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:142432440A>C	uc003ywg.1	+	1	434	c.100A>C	c.(100-102)ATT>CTT	p.I34L	PTP4A3_uc003ywh.1_Missense_Mutation_p.I34L|PTP4A3_uc010met.1_Missense_Mutation_p.I34L	NM_032611	NP_116000	O75365	TP4A3_HUMAN	protein tyrosine phosphatase type IVA, member 3	34						early endosome|plasma membrane	identical protein binding|prenylated protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0	all_cancers(97;2.55e-15)|all_epithelial(106;1.39e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0474)			CAGCACCTTCATTGAGGTGAG	0.657													3	133	---	---	---	---	PASS	C	142432440	C	C	142432440	3	2	41	1	0	0	0	0	1	0	0	0	12772	217	8	5	102	5	PTP4A3	8	142432440	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	9287936	142432440	3931582	312	15921										
LYNX1	66004	broad.mit.edu	37	chr8	143846081	143846081	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tggatacgtaggggcccaggCccaggctggggatatcgggg	19	9	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:143846081C>A	uc003yxb.2	-	5	965	c.338G>T	c.(337-339)GGC>GTC	p.G113V	LYNX1_uc003yxa.2_Missense_Mutation_p.G79V	NM_023946	NP_076435	Q9BZG9	LYNX1_HUMAN	Ly-6 neurotoxin-like protein 1 isoform a	Error:Variant_position_missing_in_Q9BZG9_after_alignment						anchored to membrane|plasma membrane					0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					GGGGCCCAGGCCCAGGCTGGG	0.642													23	72	---	---	---	---	PASS	A	143846081	A	A	143846081	3	1	41	1	0	0	0	0	1	0	0	0	9108	739	26	3	61	3	LYNX1	8	143846081	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1413641	143846081	2517941	313	15922										
GPAA1	8733	broad.mit.edu	37	chr8	145138899	145138899	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aacagaacatgaccttctggGcactgaggcttggcttgaag	12	9	1	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr8:145138899G>T	uc003zax.2	+	5	682	c.572G>T	c.(571-573)GGC>GTC	p.G191V	GPAA1_uc003zav.1_Missense_Mutation_p.G69V|GPAA1_uc003zaw.1_Missense_Mutation_p.G131V	NM_003801	NP_003792	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment	191	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein complex assembly|protein retention in ER lumen	GPI-anchor transamidase complex	tubulin binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GACCTTCTGGGCACTGAGGCT	0.562													16	125	---	---	---	---	PASS	T	145138899	T	T	145138899	3	4	41	1	0	0	0	0	1	0	0	0	6587	1203	42	3	590	3	GPAA1	8	145138899	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1292818	145138899	1225123	314	15923										
KANK1	23189	broad.mit.edu	37	chr9	712600	712600	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acacagaggagtctgtgaacGacctcacactcctcaagaca	8	13	3	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:712600G>T	uc003zgl.1	+	7	2483	c.1834G>T	c.(1834-1836)GAC>TAC	p.D612Y	KANK1_uc003zgm.2_Missense_Mutation_p.D612Y|KANK1_uc003zgn.1_Missense_Mutation_p.D612Y|KANK1_uc003zgo.1_Missense_Mutation_p.D612Y|KANK1_uc003zgp.1_Missense_Mutation_p.D612Y|KANK1_uc003zgq.2_Missense_Mutation_p.D454Y|KANK1_uc003zgr.1_Missense_Mutation_p.D454Y|KANK1_uc003zgs.1_Missense_Mutation_p.D454Y	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	612					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		GTCTGTGAACGACCTCACACT	0.507													30	28	---	---	---	---	PASS	T	712600	T	T	712600	3	4	41	1	0	0	0	0	1	0	0	0	7976	1058	37	2	1840	2	KANK1	9	712600	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08		712600	140500831	315	15924										
KIAA1432	57589	broad.mit.edu	37	chr9	5763761	5763761	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccaggaagaccgaatatgccCtgtggaattacctttttgca	9	10	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:5763761C>T	uc003zji.2	+	18	2590	c.2497C>T	c.(2497-2499)CTG>TTG	p.L833L	KIAA1432_uc003zjh.2_Silent_p.L833L|KIAA1432_uc003zjl.3_Silent_p.L796L|KIAA1432_uc003zjj.1_Silent_p.L375L	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	912						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		CGAATATGCCCTGTGGAATTA	0.478													70	82	---	---	---	---	PASS	T	5763761	T	T	5763761	2	4	41	1	0	0	0	0	0	0	0	1	8233	680	24	3		3	KIAA1432	9	5763761	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	5051161	5763761	135449670	316	15925										
TPM2	7169	broad.mit.edu	37	chr9	35685691	35685691	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcctcctccagcttctgcagGgctgtagccaggcgctcctg	12	16	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:35685691G>C	uc003zxq.2	-	3	566	c.327C>G	c.(325-327)GCC>GCG	p.A109A	TPM2_uc003zxr.2_Silent_p.A109A|TPM2_uc003zxs.2_Silent_p.A109A|TPM2_uc010mkz.2_Silent_p.A109A|TPM2_uc011lpa.1_Silent_p.A109A	NM_213674	NP_998839	P07951	TPM2_HUMAN	tropomyosin 2 (beta) isoform 2	109	By similarity.				muscle filament sliding|regulation of ATPase activity	cytosol|muscle thin filament tropomyosin	actin binding|structural constituent of muscle			ovary(1)	1	all_epithelial(49;0.121)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GCTTCTGCAGGGCTGTAGCCA	0.672													137	67	---	---	---	---	PASS	C	35685691	C	C	35685691	2	2	41	1	0	0	0	0	0	0	0	1	16403	1219	43	4		4	TPM2	9	35685691	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	29921930	35685691	105527740	317	15926										
FRMPD1	22844	broad.mit.edu	37	chr9	37746351	37746351	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cattttagaaacttcctgggGggttggaaacaaacatcccc	9	10	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:37746351G>A	uc004aag.1	+	16	4366	c.4322G>A	c.(4321-4323)GGG>GAG	p.G1441E	FRMPD1_uc004aah.1_Missense_Mutation_p.G1441E	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1441						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		ACTTCCTGGGGGGTTGGAAAC	0.572													14	27	---	---	---	---	PASS	A	37746351	A	A	37746351	3	1	41	1	0	0	0	0	1	0	0	0	6057	1232	43	3	4380	3	FRMPD1	9	37746351	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2060660	37746351	103467080	318	15927										
TMC1	117531	broad.mit.edu	37	chr9	75407166	75407166	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgggaagccaatatgatcaaGgcctacaatgcatcattctc	8	10	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:75407166G>A	uc004aiz.1	+	17	2004	c.1464G>A	c.(1462-1464)AAG>AAA	p.K488K	TMC1_uc010moz.1_Silent_p.K446K|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Silent_p.K342K|TMC1_uc010mpa.1_Silent_p.K342K	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	488	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						ATATGATCAAGGCCTACAATG	0.428													151	304	---	---	---	---	PASS	A	75407166	A	A	75407166	2	1	41	1	0	0	0	0	0	0	0	1	15981	991	35	3		3	TMC1	9	75407166	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	37660815	75407166	65806265	319	15928										
TRPM6	140803	broad.mit.edu	37	chr9	77418743	77418743	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggctgtgcagttctaatgaaCtgggagtgcagcgtactttc	13	8	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:77418743C>A	uc004ajl.1	-	15	1936	c.1698G>T	c.(1696-1698)CAG>CAT	p.Q566H	TRPM6_uc004ajk.1_Missense_Mutation_p.Q561H|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_5'Flank	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	566	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						TTCTAATGAACTGGGAGTGCA	0.423													108	209	---	---	---	---	PASS	A	77418743	A	A	77418743	3	1	41	1	0	0	0	0	1	0	0	0	16587	564	20	3	4470	3	TRPM6	9	77418743	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2011577	77418743	63794688	320	15929										
TLE1	7088	broad.mit.edu	37	chr9	84199166	84199166	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtcccccgagccagtgactaTgtacttatcatccacagaga	8	13	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:84199166T>C	uc004aly.2	-	20	2701	c.2260A>G	c.(2260-2262)ATA>GTA	p.I754V	TLE1_uc004alz.2_Missense_Mutation_p.I764V|TLE1_uc011lsr.1_Missense_Mutation_p.I739V	NM_005077	NP_005068	Q04724	TLE1_HUMAN	transducin-like enhancer protein 1	754	WD 6.				negative regulation of Wnt receptor signaling pathway|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway		transcription factor binding			ovary(1)|skin(1)	2						CCAGTGACTATGTACTTATCA	0.413													34	95	---	---	---	---	PASS	C	84199166	C	C	84199166	3	2	41	1	0	0	0	0	1	0	0	0	15935	1464	51	5	56	5	TLE1	9	84199166	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	6780423	84199166	57014265	321	15930										
RASEF	158158	broad.mit.edu	37	chr9	85615852	85615852	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tccaaagctctcctgcacccCgtgtgacctctgaaatcccc	6	18	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:85615852C>T	uc004amo.1	-	10	1657	c.1396G>A	c.(1396-1398)GGG>AGG	p.G466R		NM_152573	NP_689786	Q8IZ41	RASEF_HUMAN	RAS and EF-hand domain containing	466					protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3						TCCTGCACCCCGTGTGACCTC	0.502													33	76	---	---	---	---	PASS	T	85615852	T	T	85615852	3	4	41	1	0	0	0	0	1	0	0	0	13068	652	23	1	858	1	RASEF	9	85615852	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1416686	85615852	55597579	322	15931										
C9orf79	286234	broad.mit.edu	37	chr9	90501370	90501370	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tctggggacctgctacagccTgatggggaattcccagggag	15	10	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:90501370T>A	uc004app.3	+	4	2003	c.1968T>A	c.(1966-1968)CCT>CCA	p.P656P	C9orf79_uc004apo.1_Silent_p.P468P	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	656						integral to membrane				ovary(3)	3						TGCTACAGCCTGATGGGGAAT	0.622													21	51	---	---	---	---	PASS	A	90501370	A	A	90501370	2	1	41	1	0	0	0	0	0	0	0	1	2497	1567	55	5		5	C9orf79	9	90501370	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	4885518	90501370	50712061	323	15932										
NXNL2	158046	broad.mit.edu	37	chr9	91150497	91150497	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acttcacgccgctgctctgcGacttctatacggcgctggtg	11	14	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:91150497G>C	uc011ltj.1	+	1	482	c.148G>C	c.(148-150)GAC>CAC	p.D50H	NXNL2_uc004aqa.2_Missense_Mutation_p.D50H	NM_001161625	NP_001155097	Q5VZ03	NXNL2_HUMAN	nucleoredoxin-like 2 isoform 1	50	Thioredoxin.										0						GCTGCTCTGCGACTTCTATAC	0.697													2	6	---	---	---	---	PASS	C	91150497	C	C	91150497	3	2	41	1	0	0	0	0	1	0	0	0	10789	1058	37	2	150	2	NXNL2	9	91150497	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	649127	91150497	50062934	324	15933										
SECISBP2	79048	broad.mit.edu	37	chr9	91940430	91940430	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agataactcttcatccatatGcctattctccttataccctt	2	13	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:91940430G>T	uc004aqj.1	+	3	351	c.271G>T	c.(271-273)GCC>TCC	p.A91S	SECISBP2_uc010mqn.1_Missense_Mutation_p.A91S|SECISBP2_uc004aqi.1_Intron|SECISBP2_uc011ltk.1_Missense_Mutation_p.A91S|SECISBP2_uc004aqk.1_Intron|SECISBP2_uc010mqo.1_5'UTR|SECISBP2_uc011ltl.1_Missense_Mutation_p.A23S	NM_024077	NP_076982	Q96T21	SEBP2_HUMAN	SECIS binding protein 2	91					translation	nucleus	mRNA 3'-UTR binding			ovary(2)|skin(1)	3						TCATCCATATGCCTATTCTCC	0.398													106	235	---	---	---	---	PASS	T	91940430	T	T	91940430	3	4	41	1	0	0	0	0	1	0	0	0	14006	1319	46	3	281	3	SECISBP2	9	91940430	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	789933	91940430	49273001	325	15934										
ZNF189	7743	broad.mit.edu	37	chr9	104170972	104170972	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cattgcttgttgagcatcaaAgaattcacactggggaaaga	10	7	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:104170972A>G	uc004bbh.1	+	3	1198	c.922A>G	c.(922-924)AGA>GGA	p.R308G	ZNF189_uc004bbg.1_Missense_Mutation_p.R266G|ZNF189_uc004bbi.1_Missense_Mutation_p.R294G|ZNF189_uc011lvk.1_Missense_Mutation_p.R293G	NM_003452	NP_003443	O75820	ZN189_HUMAN	zinc finger protein 189 isoform 1	308	C2H2-type 6.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|kidney(1)|central_nervous_system(1)	6		Acute lymphoblastic leukemia(62;0.0559)				TGAGCATCAAAGAATTCACAC	0.398													76	182	---	---	---	---	PASS	G	104170972	G	G	104170972	3	3	41	1	0	0	0	0	1	0	0	0	17751	64	3	5	932	5	ZNF189	9	104170972	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	12230542	104170972	37042459	326	15935										
SLC44A1	23446	broad.mit.edu	37	chr9	108128711	108128711	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcctaaattatttaaatcagGtaaaatattttaaaaataaa	3	3	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:108128711G>T	uc004bcn.2	+	12	1715	c.1494_splice	c.e12+1	p.Q498_splice	SLC44A1_uc010mtk.1_Splice_Site_p.Q498_splice|SLC44A1_uc004bco.1_Splice_Site_p.Q290_splice	NM_080546	NP_536856	Q8WWI5	CTL1_HUMAN	CDW92 antigen							integral to membrane|mitochondrial outer membrane|plasma membrane	choline transmembrane transporter activity			breast(3)|ovary(1)	4					Choline(DB00122)	TTTAAATCAGGtaaaatattt	0.299													19	48	---	---	---	---	PASS	T	108128711	T	T	108128711	5	4	41	1	0	0	0	0	0	0	1	0	14635	1275	44	3	1541	3	SLC44A1	9	108128711	Splice_Site	SNP	G	TCGA-22-4613-01A-01D-1441-08	3957739	108128711	33084720	327	15936										
SUSD1	64420	broad.mit.edu	37	chr9	114825260	114825260	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggctttcctcagtctgaggcGtggtagaggtcctctgtgca	14	10	3	2	rs141503818	byFrequency	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:114825260G>T	uc004bfu.2	-	13	1848	c.1807C>A	c.(1807-1809)CGC>AGC	p.R603S	SUSD1_uc010mui.2_Missense_Mutation_p.R603S|SUSD1_uc010muj.2_Missense_Mutation_p.R603S	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	603	Extracellular (Potential).					integral to membrane	calcium ion binding				0						AGTCTGAGGCGTGGTAGAGGT	0.478													62	146	---	---	---	---	PASS	T	114825260	T	T	114825260	3	4	41	1	0	0	0	0	1	0	0	0	15404	1145	40	1	456	1	SUSD1	9	114825260	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6696549	114825260	26388171	328	15937										
BSPRY	54836	broad.mit.edu	37	chr9	116116564	116116564	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggctgcagttacagagtgcTgccatcaccaagtatgtggc	12	10	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:116116564T>A	uc004bhg.3	+	2	294	c.246T>A	c.(244-246)GCT>GCA	p.A82A	BSPRY_uc010muw.2_Silent_p.A82A	NM_017688	NP_060158	Q5W0U4	BSPRY_HUMAN	B-box and SPRY domain containing	82					calcium ion transport	cytoplasm|membrane	zinc ion binding			breast(1)	1						TACAGAGTGCTGCCATCACCA	0.393													4	95	---	---	---	---	PASS	A	116116564	A	A	116116564	2	1	41	1	0	0	0	0	0	0	0	1	1532	1567	55	5		5	BSPRY	9	116116564	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	1291304	116116564	25096867	329	15938										
WDR38	401551	broad.mit.edu	37	chr9	127619793	127619793	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cttagcagggagtcctggatGtggcccacacctgtgccttc	12	13	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:127619793G>A	uc004box.2	+	9	885	c.829G>A	c.(829-831)GTG>ATG	p.V277M	WDR38_uc011lzn.1_Missense_Mutation_p.V267M|WDR38_uc011lzo.1_Missense_Mutation_p.V278M|WDR38_uc011lzp.1_Missense_Mutation_p.V229M	NM_001045476	NP_001038941	Q5JTN6	WDR38_HUMAN	WD repeat domain 38	277	WD 7.										0						AGTCCTGGATGTGGCCCACAC	0.572													36	84	---	---	---	---	PASS	A	127619793	A	A	127619793	3	1	41	1	0	0	0	0	1	0	0	0	17289	1377	48	3	863	3	WDR38	9	127619793	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	11503229	127619793	13593638	330	15939										
C9orf119	375757	broad.mit.edu	37	chr9	131038466	131038466	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gacctgtggcgtcacaacaaAagctgcgcacgcaaccgctg	11	14	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:131038466A>T	uc004bup.2	+	1	42	c.42A>T	c.(40-42)AAA>AAT	p.K14N	GOLGA2_uc011maw.1_5'Flank|GOLGA2_uc010mxw.2_5'Flank|GOLGA2_uc004bul.1_5'Flank|C9orf119_uc010mxx.1_Missense_Mutation_p.K14N	NM_001040011	NP_001035100	Q1ZZU3	SWI5_HUMAN	hypothetical protein LOC375757	14					double-strand break repair via homologous recombination	Swi5-Sfr1 complex	protein binding				0						GTCACAACAAAAGCTGCGCAC	0.632													31	72	---	---	---	---	PASS	T	131038466	T	T	131038466	3	4	41	1	0	0	0	0	1	0	0	0	2452	11	1	5	44	5	C9orf119	9	131038466	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	3418673	131038466	10174965	331	15940										
C9orf98	158067	broad.mit.edu	37	chr9	135601245	135601245	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cttgacctgctcttcagcatCctttgggttctgcaggaggc	11	12	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:135601245C>A	uc004cbu.1	-	13	1826	c.1270G>T	c.(1270-1272)GAT>TAT	p.D424Y	C9orf98_uc010mzx.1_RNA|C9orf98_uc004cbv.1_Missense_Mutation_p.D220Y	NM_152572	NP_689785	Q96MA6	KAD8_HUMAN	putative adenylate kinase-like protein C9orf98	424	Adenylate kinase.					cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;4.89e-06)|Epithelial(140;0.00016)		TCTTCAGCATCCTTTGGGTTC	0.552													6	13	---	---	---	---	PASS	A	135601245	A	A	135601245	3	1	41	1	0	0	0	0	1	0	0	0	2509	855	30	2	173	2	C9orf98	9	135601245	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4562779	135601245	5612186	332	15941										
SEC16A	9919	broad.mit.edu	37	chr9	139369100	139369100	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaagtctagggctccgtaagTgtcttcctgatgactggaat	11	8	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr9:139369100T>C	uc004chx.2	-	3	3277	c.2968A>G	c.(2968-2970)ACT>GCT	p.T990A	SEC16A_uc004chv.3_Intron|SEC16A_uc004chw.2_Missense_Mutation_p.T990A|SEC16A_uc010nbn.2_Missense_Mutation_p.T990A|SEC16A_uc010nbo.1_Missense_Mutation_p.T990A	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	812					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GCTCCGTAAGTGTCTTCCTGA	0.502													20	22	---	---	---	---	PASS	C	139369100	C	C	139369100	3	2	41	1	0	0	0	0	1	0	0	0	13986	1696	59	5	4225	5	SEC16A	9	139369100	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	3767855	139369100	1844331	333	15942										
MCM10	55388	broad.mit.edu	37	chr10	13222487	13222487	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atgaacaagaaaatgaccggCcgaaaactgatcagactgtc	9	9	1	5			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:13222487C>A	uc001ima.2	+	7	914	c.813C>A	c.(811-813)GGC>GGA	p.G271G	MCM10_uc001imb.2_Silent_p.G270G|MCM10_uc001imc.2_Silent_p.G270G	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	271					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						AAATGACCGGCCGAAAACTGA	0.413													38	45	---	---	---	---	PASS	A	13222487	A	A	13222487	2	1	41	1	0	0	0	0	0	0	0	1	9385	726	26	3		3	MCM10	10	13222487	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08		13222487	122312260	334	15943										
ITGA8	8516	broad.mit.edu	37	chr10	15686082	15686082	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctcttaaagtaaagccaaatCcggaagggacagcatgtgag	11	8	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:15686082C>A	uc001ioc.1	-	13	1346	c.1346G>T	c.(1345-1347)GGA>GTA	p.G449V	ITGA8_uc010qcb.1_Missense_Mutation_p.G434V	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	449	Extracellular (Potential).|FG-GAP 7.				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						AAAGCCAAATCCGGAAGGGAC	0.438													30	50	---	---	---	---	PASS	A	15686082	A	A	15686082	3	1	41	1	0	0	0	0	1	0	0	0	7882	855	30	2	1917	2	ITGA8	10	15686082	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2463595	15686082	119848665	335	15944										
CUBN	8029	broad.mit.edu	37	chr10	16967596	16967596	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gacctaccaccaagtaatccCcctggttgcaagaagaatct	7	13	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:16967596C>A	uc001ioo.2	-	42	6501	c.6449G>T	c.(6448-6450)GGG>GTG	p.G2150V		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2150	CUB 15.				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)	CAAGTAATCCCCCTGGTTGCA	0.423													18	39	---	---	---	---	PASS	A	16967596	A	A	16967596	3	1	41	1	0	0	0	0	1	0	0	0	4051	623	22	3	4526	3	CUBN	10	16967596	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1281514	16967596	118567151	336	15945										
VIM	7431	broad.mit.edu	37	chr10	17277176	17277176	+	Silent	SNP	C	A	A													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caccccctgcagaatgagtcCctggaacgccagatgcgtga							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:17277176C>A	uc001iou.2	+	7	1430	c.1017C>A	c.(1015-1017)TCC>TCA	p.S339S	VIM_uc001iov.1_Silent_p.S339S|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Silent_p.S339S|VIM_uc001ioy.1_Intron|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Silent_p.S297S|VIM_uc001ipc.1_Silent_p.S339S	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	339	Rod.|Coil 2.			S -> C (in Ref. 17; AAA61281).	cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						AGAATGAGTCCCTGGAACGCC	0.458													16	37	---	---	---	---	PASS	A	17277176	A	A	17277176	2	1	41	1	0	0	0	0	0	0	0	1	17163	610	22	3		3	VIM	10	17277176	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	309580	17277176	118257571	337	15946	387	2								
VIM	7431	broad.mit.edu	37	chr10	17277177	17277177	+	Missense_Mutation	SNP	C	A	A													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	accccctgcagaatgagtccCtggaacgccagatgcgtgaa							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:17277177C>A	uc001iou.2	+	7	1431	c.1018C>A	c.(1018-1020)CTG>ATG	p.L340M	VIM_uc001iov.1_Missense_Mutation_p.L340M|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.L340M|VIM_uc001ioy.1_Intron|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.L298M|VIM_uc001ipc.1_Missense_Mutation_p.L340M	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	340	Rod.|Coil 2.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						GAATGAGTCCCTGGAACGCCA	0.458													16	35	---	---	---	---	PASS	A	17277177	A	A	17277177	3	1	41	1	0	0	0	0	1	0	0	0	17163	680	24	3	1040	3	VIM	10	17277177	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1	17277177	118257570	338	15947	387	2								
PIP4K2A	5305	broad.mit.edu	37	chr10	22830743	22830743	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcaaacttactttcatggcaCttaattccatagacgtcgat	5	10	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:22830743C>A	uc001irl.3	-	8	1274	c.1026G>T	c.(1024-1026)AAG>AAT	p.K342N	PIP4K2A_uc010qcu.1_Missense_Mutation_p.K202N	NM_005028	NP_005019	P48426	PI42A_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	342	PIPK.						1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding			ovary(1)|skin(1)	2						TTTCATGGCACTTAATTCCAT	0.507													40	74	---	---	---	---	PASS	A	22830743	A	A	22830743	3	1	41	1	0	0	0	0	1	0	0	0	11936	564	20	3	206	3	PIP4K2A	10	22830743	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	5553566	22830743	112704004	339	15948										
ARMC3	219681	broad.mit.edu	37	chr10	23248058	23248058	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	attctgtcattgcccagctcGctccagaaggtaactttgca	8	12	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:23248058G>C	uc001irm.3	+	5	435	c.352G>C	c.(352-354)GCT>CCT	p.A118P	ARMC3_uc010qcv.1_Missense_Mutation_p.A118P|ARMC3_uc010qcw.1_5'UTR|ARMC3_uc001irn.1_Missense_Mutation_p.A30P	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	118	ARM 3.						binding				0						TGCCCAGCTCGCTCCAGAAGG	0.289													23	173	---	---	---	---	PASS	C	23248058	C	C	23248058	3	2	41	1	0	0	0	0	1	0	0	0	952	1087	38	4	366	4	ARMC3	10	23248058	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	417315	23248058	112286689	340	15949										
ANKRD30A	91074	broad.mit.edu	37	chr10	37421233	37421233	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caaattgtggaatttttgctGataaaaaatgcaaatgcgaa	8	4	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:37421233G>A	uc001iza.1	+	4	507	c.408G>A	c.(406-408)CTG>CTA	p.L136L		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	192	ANK 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AATTTTTGCTGATAAAAAATG	0.289													9	122	---	---	---	---	PASS	A	37421233	A	A	37421233	2	1	41	1	0	0	0	0	0	0	0	1	658	1277	45	2		2	ANKRD30A	10	37421233	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	14173175	37421233	98113514	341	15950										
TMEM72	643236	broad.mit.edu	37	chr10	45429098	45429098	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tccccaggtgtcaaccagggTccctggcagacagagtaagg	13	12	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:45429098T>A	uc001jbn.2	+	4	420	c.223T>A	c.(223-225)TCC>ACC	p.S75T	uc001jbk.1_Intron|uc001jbl.2_Intron|TMEM72_uc009xmm.1_5'UTR	NM_001123376	NP_001116848	A0PK05	TMM72_HUMAN	transmembrane protein 72	75						integral to membrane					0						TCAACCAGGGTCCCTGGCAGA	0.612													8	58	---	---	---	---	PASS	A	45429098	A	A	45429098	3	1	41	1	0	0	0	0	1	0	0	0	16198	1667	58	5	237	5	TMEM72	10	45429098	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	8007865	45429098	90105649	342	15951										
DRGX	644168	broad.mit.edu	37	chr10	50574253	50574253	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cggcttggcgacagggccggGgctgctgctggtggaaggca	20	10	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:50574253G>A	uc010qgq.1	-	6	715	c.715C>T	c.(715-717)CCC>TCC	p.P239S		NM_001080520	NP_001073989	A6NNA5	DRGX_HUMAN	dorsal root ganglia homeobox	239					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						ACAGGGCCGGGGCTGCTGCTG	0.652													12	25	---	---	---	---	PASS	A	50574253	A	A	50574253	3	1	41	1	0	0	0	0	1	0	0	0	4763	1232	43	3	94	3	DRGX	10	50574253	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	5145155	50574253	84960494	343	15952										
PCDH15	65217	broad.mit.edu	37	chr10	55582895	55582895	+	Nonsense_Mutation	SNP	C	A	A													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgatacttgacttatgttttCcttataaaggggattatggg							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:55582895C>A	uc001jju.1	-	33	4986	c.4591G>T	c.(4591-4593)GAA>TAA	p.E1531*	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Nonsense_Mutation_p.E1528*|PCDH15_uc010qhw.1_Nonsense_Mutation_p.E1491*|PCDH15_uc010qhx.1_Nonsense_Mutation_p.E1462*|PCDH15_uc010qhy.1_Nonsense_Mutation_p.E1538*|PCDH15_uc010qhz.1_Nonsense_Mutation_p.E1533*|PCDH15_uc010qia.1_Nonsense_Mutation_p.E1511*|PCDH15_uc010qib.1_Nonsense_Mutation_p.E1508*	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1531	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CTTATGTTTTCCTTATAAAGG	0.368										HNSCC(58;0.16)			44	94	---	---	---	---	PASS	A	55582895	A	A	55582895	4	1	41	1	0	0	0	0	0	1	0	0	11511	864	30	2	2886	2	PCDH15	10	55582895	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	5008642	55582895	79951852	344	15953	388	2								
PCDH15	65217	broad.mit.edu	37	chr10	55582896	55582896	+	Missense_Mutation	SNP	C	A	A													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gatacttgacttatgttttcCttataaaggggattatgggc							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:55582896C>A	uc001jju.1	-	33	4985	c.4590G>T	c.(4588-4590)AAG>AAT	p.K1530N	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.K1527N|PCDH15_uc010qhw.1_Missense_Mutation_p.K1490N|PCDH15_uc010qhx.1_Missense_Mutation_p.K1461N|PCDH15_uc010qhy.1_Missense_Mutation_p.K1537N|PCDH15_uc010qhz.1_Missense_Mutation_p.K1532N|PCDH15_uc010qia.1_Missense_Mutation_p.K1510N|PCDH15_uc010qib.1_Missense_Mutation_p.K1507N	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1530	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TTATGTTTTCCTTATAAAGGG	0.363										HNSCC(58;0.16)			42	97	---	---	---	---	PASS	A	55582896	A	A	55582896	3	1	41	1	0	0	0	0	1	0	0	0	11511	680	24	3	2887	3	PCDH15	10	55582896	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1	55582896	79951851	345	15954	388	2								
PCDH15	65217	broad.mit.edu	37	chr10	55782699	55782699	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tggcaaattctcttcaacaaGgacagtgtatgttgaattgg	10	6	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:55782699G>T	uc001jju.1	-	19	2874	c.2479C>A	c.(2479-2481)CTT>ATT	p.L827I	PCDH15_uc010qhq.1_Missense_Mutation_p.L832I|PCDH15_uc010qhr.1_Missense_Mutation_p.L827I|PCDH15_uc010qhs.1_Missense_Mutation_p.L839I|PCDH15_uc010qht.1_Missense_Mutation_p.L834I|PCDH15_uc010qhu.1_Missense_Mutation_p.L827I|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.L827I|PCDH15_uc010qhw.1_Missense_Mutation_p.L790I|PCDH15_uc010qhx.1_Missense_Mutation_p.L756I|PCDH15_uc010qhy.1_Missense_Mutation_p.L832I|PCDH15_uc010qhz.1_Missense_Mutation_p.L827I|PCDH15_uc010qia.1_Missense_Mutation_p.L805I|PCDH15_uc010qib.1_Missense_Mutation_p.L805I|PCDH15_uc001jjw.2_Missense_Mutation_p.L827I	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	827	Extracellular (Potential).|Cadherin 8.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TCTTCAACAAGGACAGTGTAT	0.413										HNSCC(58;0.16)			19	129	---	---	---	---	PASS	T	55782699	T	T	55782699	3	4	41	1	0	0	0	0	1	0	0	0	11511	1000	35	3	5067	3	PCDH15	10	55782699	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	199803	55782699	79752048	346	15955										
FAM13C	220965	broad.mit.edu	37	chr10	61022354	61022354	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gctcacacaacaggtttctaGgtggacctttgggagcactc	11	11	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:61022354G>C	uc001jkn.2	-	11	1210	c.1076C>G	c.(1075-1077)CCT>CGT	p.P359R	FAM13C_uc001jko.2_Intron|FAM13C_uc010qid.1_Missense_Mutation_p.P276R|FAM13C_uc010qie.1_Missense_Mutation_p.P276R|FAM13C_uc010qif.1_Missense_Mutation_p.P381R|FAM13C_uc001jkp.2_Missense_Mutation_p.P276R	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	359										ovary(2)	2						CAGGTTTCTAGGTGGACCTTT	0.493													36	89	---	---	---	---	PASS	C	61022354	C	C	61022354	3	2	41	1	0	0	0	0	1	0	0	0	5454	1000	35	4	701	4	FAM13C	10	61022354	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	5239655	61022354	74512393	347	15956										
ANK3	288	broad.mit.edu	37	chr10	61830138	61830138	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gccttccagtgtgaagaactGggcccctgacttctgatcag	11	12	2	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:61830138G>A	uc001jky.2	-	37	10693	c.10501C>T	c.(10501-10503)CAG>TAG	p.Q3501*	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	3501					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GTGAAGAACTGGGCCCCTGAC	0.448													46	86	---	---	---	---	PASS	A	61830138	A	A	61830138	4	1	41	1	0	0	0	0	0	1	0	0	622	1357	47	3	2973	3	ANK3	10	61830138	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	807784	61830138	73704609	348	15957										
TMEM26	219623	broad.mit.edu	37	chr10	63195965	63195965	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	attcaagaagccataatgatGgaacgatgctaatcagatat	8	6	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:63195965G>A	uc001jlo.2	-	2	602	c.233C>T	c.(232-234)CCA>CTA	p.P78L	TMEM26_uc010qij.1_RNA|TMEM26_uc001jlq.2_RNA	NM_178505	NP_848600	Q6ZUK4	TMM26_HUMAN	transmembrane protein 26	78	Helical; (Potential).					integral to membrane					0	Prostate(12;0.0112)					CCATAATGATGGAACGATGCT	0.333													11	38	---	---	---	---	PASS	A	63195965	A	A	63195965	3	1	41	1	0	0	0	0	1	0	0	0	16148	1348	47	3	893	3	TMEM26	10	63195965	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1365827	63195965	72338782	349	15958										
CTNNA3	29119	broad.mit.edu	37	chr10	67726488	67726488	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggccaacaagtcctgtttaCaagatggatctgggcactaa	10	9	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:67726488C>A	uc009xpn.1	-	17	2405	c.2282G>T	c.(2281-2283)TGT>TTT	p.C761F	CTNNA3_uc001jmw.2_Missense_Mutation_p.C761F	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	761					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						GTCCTGTTTACAAGATGGATC	0.383													33	121	---	---	---	---	PASS	A	67726488	A	A	67726488	3	1	41	1	0	0	0	0	1	0	0	0	4014	478	17	3	413	3	CTNNA3	10	67726488	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4530523	67726488	67808259	350	15959										
MYPN	84665	broad.mit.edu	37	chr10	69881321	69881321	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gagccctcctccaacccttgCcatttcggcagtccttctgg	8	17	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:69881321C>T	uc001jnm.3	+	3	311	c.126C>T	c.(124-126)TGC>TGT	p.C42C	MYPN_uc001jnl.1_Silent_p.C42C|MYPN_uc001jnn.3_Intron|MYPN_uc001jno.3_Silent_p.C42C|MYPN_uc001jnp.1_Silent_p.C42C|MYPN_uc009xps.2_Silent_p.C42C|MYPN_uc009xpt.2_Silent_p.C42C|MYPN_uc010qit.1_5'UTR|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	42	Interaction with CARP.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						CCAACCCTTGCCATTTCGGCA	0.517													93	90	---	---	---	---	PASS	T	69881321	T	T	69881321	2	4	41	1	0	0	0	0	0	0	0	1	10098	747	26	3		3	MYPN	10	69881321	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	2154833	69881321	65653426	351	15960										
MYPN	84665	broad.mit.edu	37	chr10	69961674	69961674	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cccgtgagactggagtgccgCgtgataggcatgcccccacc	13	15	0	2	rs139820597	byFrequency	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:69961674C>T	uc001jnm.3	+	19	3767	c.3582C>T	c.(3580-3582)CGC>CGT	p.R1194R	MYPN_uc001jnn.3_Silent_p.R919R|MYPN_uc001jno.3_Silent_p.R1194R|MYPN_uc009xpt.2_Silent_p.R1194R|MYPN_uc010qit.1_Silent_p.R900R|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	1194	Interaction with ACTN.|Ig-like 5.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						TGGAGTGCCGCGTGATAGGCA	0.547													68	287	---	---	---	---	PASS	T	69961674	T	T	69961674	2	4	41	1	0	0	0	0	0	0	0	1	10098	755	27	1		1	MYPN	10	69961674	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	80353	69961674	65573073	352	15961										
KIAA1279	26128	broad.mit.edu	37	chr10	70775952	70775952	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgccatgttagctaagtttcGagttgcccgtctctatggca	10	10	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:70775952G>T	uc001joy.2	+	7	1742	c.1646G>T	c.(1645-1647)CGA>CTA	p.R549L		NM_015634	NP_056449	Q96EK5	KBP_HUMAN	KIF1 binding protein	549					cell differentiation|mitochondrial transport|nervous system development	mitochondrion	kinesin binding			ovary(1)	1						GCTAAGTTTCGAGTTGCCCGT	0.413													58	213	---	---	---	---	PASS	T	70775952	T	T	70775952	3	4	41	1	0	0	0	0	1	0	0	0	8221	1058	37	2	1672	2	KIAA1279	10	70775952	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	814278	70775952	64758795	353	15962										
NEUROG3	50674	broad.mit.edu	37	chr10	71332486	71332486	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgggcaggacaccgcgcaggGcgtccagtgccgagttgagg	18	11	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:71332486G>C	uc001jpp.2	-	2	472	c.314C>G	c.(313-315)GCC>GGC	p.A105G		NM_020999	NP_066279	Q9Y4Z2	NGN3_HUMAN	neurogenin 3	105	Helix-loop-helix motif.				central nervous system development|endocrine pancreas development|peripheral nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	transcription coactivator activity				0						ACCGCGCAGGGCGTCCAGTGC	0.617													21	66	---	---	---	---	PASS	C	71332486	C	C	71332486	3	2	41	1	0	0	0	0	1	0	0	0	10354	1203	42	4	334	4	NEUROG3	10	71332486	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	556534	71332486	64202261	354	15963										
TNKS2	80351	broad.mit.edu	37	chr10	93572875	93572875	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agtagtcaatctccttttgcGacatggtgcagaccccaatg	9	11	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:93572875G>A	uc001khp.2	+	2	632	c.335G>A	c.(334-336)CGA>CAA	p.R112Q		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	112	ANK 2.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				CTCCTTTTGCGACATGGTGCA	0.428													4	95	---	---	---	---	PASS	A	93572875	A	A	93572875	3	1	41	1	0	0	0	0	1	0	0	0	16318	1058	37	2	341	2	TNKS2	10	93572875	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	22240389	93572875	41961872	355	15964										
OPALIN	93377	broad.mit.edu	37	chr10	98109555	98109555	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccaccagcaatggtatgcccGccgctaatccaagagagggc	11	14	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:98109555G>T	uc001kmj.2	-	4	540	c.101C>A	c.(100-102)GCG>GAG	p.A34E	OPALIN_uc010qor.1_Missense_Mutation_p.A24E|OPALIN_uc001kmi.2_Missense_Mutation_p.A24E|OPALIN_uc001kmk.2_Missense_Mutation_p.A11E|OPALIN_uc010qos.1_RNA	NM_033207	NP_149984	Q96PE5	OPALI_HUMAN	transmembrane protein 10 isoform a	34	Helical; (Potential).					Golgi apparatus|integral to membrane|plasma membrane					0						TGGTATGCCCGCCGCTAATCC	0.478													20	8	---	---	---	---	PASS	T	98109555	T	T	98109555	3	4	41	1	0	0	0	0	1	0	0	0	10873	1087	38	1	336	1	OPALIN	10	98109555	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	4536680	98109555	37425192	356	15965										
PAX2	5076	broad.mit.edu	37	chr10	102568959	102568959	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaccctgagctgggcagcaaCgtgtcaggcacacagacata	11	12	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:102568959C>A	uc001krk.3	+	8	1504	c.954C>A	c.(952-954)AAC>AAA	p.N318K	PAX2_uc001krl.3_Missense_Mutation_p.N295K|PAX2_uc001krm.3_Missense_Mutation_p.N318K|PAX2_uc001kro.3_Missense_Mutation_p.N295K|PAX2_uc001krn.3_Missense_Mutation_p.N295K|PAX2_uc010qps.1_Missense_Mutation_p.N294K|PAX2_uc001krp.1_Missense_Mutation_p.N291K	NM_003990	NP_003981	Q02962	PAX2_HUMAN	paired box protein 2 isoform e	318					anti-apoptosis|axonogenesis|brain morphogenesis|branching involved in ureteric bud morphogenesis|cell fate determination|cellular response to glucose stimulus|cellular response to hydrogen peroxide|cellular response to retinoic acid|cochlea development|glial cell differentiation|inner ear morphogenesis|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesodermal cell fate specification|mesonephros development|metanephric collecting duct development|metanephric distal convoluted tubule development|metanephric mesenchymal cell differentiation|metanephric nephron tubule formation|negative regulation of caspase activity|negative regulation of cytolysis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|negative regulation of reactive oxygen species metabolic process|negative regulation of transcription, DNA-dependent|nephric duct formation|neural tube closure|optic chiasma development|optic cup morphogenesis involved in camera-type eye development|optic nerve structural organization|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of metanephric glomerulus development|positive regulation of optic nerve formation|positive regulation of transcription from RNA polymerase II promoter|pronephric field specification|protein kinase B signaling cascade|reactive oxygen species metabolic process|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of metanephros size|retinal pigment epithelium development|stem cell differentiation|transcription from RNA polymerase II promoter|ureter maturation|vestibulocochlear nerve formation|visual perception	centriolar satellite|nucleus|protein complex|protein-DNA complex	core promoter proximal region sequence-specific DNA binding|superoxide-generating NADPH oxidase activity				0		Colorectal(252;0.234)		Epithelial(162;1.32e-08)|all cancers(201;7.32e-07)		TGGGCAGCAACGTGTCAGGCA	0.607													33	61	---	---	---	---	PASS	A	102568959	A	A	102568959	3	1	41	1	0	0	0	0	1	0	0	0	11479	535	19	1	984	1	PAX2	10	102568959	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4459404	102568959	32965788	357	15966										
SMC3	9126	broad.mit.edu	37	chr10	112360876	112360876	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaagagtaaaagacactatgGcacgatcagaaggtgaattt	10	5	1	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:112360876G>T	uc001kze.2	+	23	2758	c.2632G>T	c.(2632-2634)GCA>TCA	p.A878S		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	878	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)		AGACACTATGGCACGATCAGA	0.353													65	88	---	---	---	---	PASS	T	112360876	T	T	112360876	3	4	41	1	0	0	0	0	1	0	0	0	14784	1203	42	3	2722	3	SMC3	10	112360876	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	9791917	112360876	23173871	358	15967										
WDR11	55717	broad.mit.edu	37	chr10	122659586	122659586	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgttccaagggcctctcttgCcttgaaagccttcttattac	7	12	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:122659586C>A	uc010qtf.1	+	20	2799	c.2561C>A	c.(2560-2562)GCC>GAC	p.A854D	WDR11_uc010qte.1_Missense_Mutation_p.A456D|WDR11_uc001lfd.1_Missense_Mutation_p.A372D|WDR11_uc009xzn.2_Missense_Mutation_p.A145D	NM_018117	NP_060587	Q9BZH6	WDR11_HUMAN	bromodomain and WD repeat domain containing 2	854						integral to membrane					0						GCCTCTCTTGCCTTGAAAGCC	0.363													5	127	---	---	---	---	PASS	A	122659586	A	A	122659586	3	1	41	1	0	0	0	0	1	0	0	0	17270	739	26	3	2639	3	WDR11	10	122659586	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	10298710	122659586	12875161	359	15968										
C10orf90	118611	broad.mit.edu	37	chr10	128114630	128114630	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcctttgttcttcttttttcTttttaacttccggcaagtta	4	9	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr10:128114630T>A	uc001ljq.2	-	8	2112	c.1991A>T	c.(1990-1992)AAG>ATG	p.K664M	C10orf90_uc001ljp.2_Missense_Mutation_p.K520M|C10orf90_uc010qum.1_Missense_Mutation_p.K761M|C10orf90_uc001ljo.2_RNA	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	664										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		TTCTTTTTTCTTTTTAACTTC	0.448													66	55	---	---	---	---	PASS	A	128114630	A	A	128114630	3	1	41	1	0	0	0	0	1	0	0	0	1623	1609	56	5	116	5	C10orf90	10	128114630	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	5455044	128114630	7420117	360	15969										
MUC2	4583	broad.mit.edu	37	chr11	1085941	1085941	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctctcctccgggcagaggacGgagctgaagttggaagacaa	14	10	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:1085941G>A	uc001lsx.1	+	22	2808	c.2781G>A	c.(2779-2781)ACG>ACA	p.T927T		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	927	VWFD 3.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	GGCAGAGGACGGAGCTGAAGT	0.652													14	30	---	---	---	---	PASS	A	1085941	A	A	1085941	2	1	41	1	0	0	0	0	0	0	0	1	9975	1103	39	1		1	MUC2	11	1085941	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08		1085941	133920575	361	15970										
MUC5B	727897	broad.mit.edu	37	chr11	1264913	1264913	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caccgagtcacccccttctcCagggacgaccaccccgggcc	9	21	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:1264913C>A	uc009ycr.1	+	48	8843	c.8717C>A	c.(8716-8718)CCA>CAA	p.P2906Q	MUC5B_uc001ltb.2_Missense_Mutation_p.P2271Q	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2268	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCCCCTTCTCCAGGGACGACC	0.682													32	140	---	---	---	---	PASS	A	1264913	A	A	1264913	3	1	41	1	0	0	0	0	1	0	0	0	9979	594	21	3	6934	3	MUC5B	11	1264913	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	178972	1264913	133741603	362	15971										
HBE1	3046	broad.mit.edu	37	chr11	5289722	5289722	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtggtacttatgggccagggCaatggcgacagcagacacca	14	10	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:5289722C>A	uc001mal.1	-	3	674	c.421G>T	c.(421-423)GCC>TCC	p.A141S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Missense_Mutation_p.A141S	NM_005330	NP_005321	P02100	HBE_HUMAN	epsilon globin	141					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.34e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGGGCCAGGGCAATGGCGACA	0.557													66	138	---	---	---	---	PASS	A	5289722	A	A	5289722	3	1	41	1	0	0	0	0	1	0	0	0	6980	710	25	3	26	3	HBE1	11	5289722	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4024809	5289722	129716794	363	15972										
OR51I2	390064	broad.mit.edu	37	chr11	5475566	5475566	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtcaaatgtgtacctatttgTgcctcctgtgctcaaccctc	7	13	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:5475566T>A	uc010qzf.1	+	1	848	c.848T>A	c.(847-849)GTG>GAG	p.V283E	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004754	NP_001004754	Q9H344	O51I2_HUMAN	olfactory receptor, family 51, subfamily I,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.09e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TACCTATTTGTGCCTCCTGTG	0.463													67	162	---	---	---	---	PASS	A	5475566	A	A	5475566	3	1	41	1	0	0	0	0	1	0	0	0	11101	1696	59	5	850	5	OR51I2	11	5475566	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	185844	5475566	129530950	364	15973										
DCHS1	8642	broad.mit.edu	37	chr11	6648620	6648620	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacatggccattagctccagCatcagggtcatgagcctgta	10	12	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:6648620C>G	uc001mem.1	-	14	6060	c.5650G>C	c.(5650-5652)GCT>CCT	p.A1884P		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1884	Cadherin 18.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTAGCTCCAGCATCAGGGTCA	0.627													8	13	---	---	---	---	PASS	G	6648620	G	G	6648620	3	3	41	1	0	0	0	0	1	0	0	0	4287	710	25	4	4278	4	DCHS1	11	6648620	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1173054	6648620	128357896	365	15974										
OR10A2	341276	broad.mit.edu	37	chr11	6891618	6891618	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tatactcacattgctgctgcCatcctcaagatcccatcagc	5	15	3	1	rs61737577		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:6891618C>A	uc001meu.1	+	1	633	c.633C>A	c.(631-633)GCC>GCA	p.A211A		NM_001004460	NP_001004460	Q9H208	O10A2_HUMAN	olfactory receptor, family 10, subfamily A,	211	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.89e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		TTGCTGCTGCCATCCTCAAGA	0.448													70	198	---	---	---	---	PASS	A	6891618	A	A	6891618	2	1	41	1	0	0	0	0	0	0	0	1	10890	581	21	3		3	OR10A2	11	6891618	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	242998	6891618	128114898	366	15975										
NLRP14	338323	broad.mit.edu	37	chr11	7064725	7064725	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttcaggagttttttgcagctAtgttctatatgttgaaaggc	10	5	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:7064725A>G	uc001mfb.1	+	4	1791	c.1468A>G	c.(1468-1470)ATG>GTG	p.M490V		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	490	NACHT.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		TTTTGCAGCTATGTTCTATAT	0.408													38	102	---	---	---	---	PASS	G	7064725	G	G	7064725	3	3	41	1	0	0	0	0	1	0	0	0	10476	449	16	5	1478	5	NLRP14	11	7064725	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	173107	7064725	127941791	367	15976										
ABCC8	6833	broad.mit.edu	37	chr11	17427074	17427074	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttacagtcagatgaaaatctGttcaggatgctcccaagggg	11	8	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:17427074G>T	uc001mnc.2	-	27	3492	c.3366C>A	c.(3364-3366)AAC>AAA	p.N1122K		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1122	Cytoplasmic (By similarity).|ABC transmembrane type-1 2.				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)	ATGAAAATCTGTTCAGGATGC	0.512													60	131	---	---	---	---	PASS	T	17427074	T	T	17427074	3	4	41	1	0	0	0	0	1	0	0	0	58	1368	48	3	1431	3	ABCC8	11	17427074	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	10362349	17427074	117579442	368	15977										
SPTY2D1	144108	broad.mit.edu	37	chr11	18636920	18636920	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggtttgtcgtggccctcacGaagtgagggttgggagctat	16	7	1	1	rs138155181	byFrequency	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:18636920G>A	uc001moy.2	-	3	1117	c.901C>T	c.(901-903)CGT>TGT	p.R301C	SPTY2D1_uc010rdi.1_Missense_Mutation_p.R301C	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	301	Ser-rich.									breast(1)	1						TGGCCCTCACGAAGTGAGGGT	0.507													9	163	---	---	---	---	PASS	A	18636920	A	A	18636920	3	1	41	1	0	0	0	0	1	0	0	0	15125	1058	37	2	1172	2	SPTY2D1	11	18636920	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1209846	18636920	116369596	369	15978										
ANO3	63982	broad.mit.edu	37	chr11	26663521	26663521	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atacctcagtgggaaaatgaTtggaatctgcagcccatgaa	10	8	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:26663521T>C	uc001mqt.3	+	22	2365	c.2220T>C	c.(2218-2220)GAT>GAC	p.D740D	ANO3_uc010rdr.1_Silent_p.D724D|ANO3_uc010rds.1_Silent_p.D579D|ANO3_uc010rdt.1_Silent_p.D594D	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	740	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GGGAAAATGATTGGAATCTGC	0.433													43	113	---	---	---	---	PASS	C	26663521	C	C	26663521	2	2	41	1	0	0	0	0	0	0	0	1	698	1490	52	5		5	ANO3	11	26663521	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	8026601	26663521	108342995	370	15979										
KCNA4	3739	broad.mit.edu	37	chr11	30032759	30032759	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acagcactagaaaagaggatGaccccaatgaagaggaagaa	11	7	0	6			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:30032759G>T	uc001msk.2	-	2	2619	c.1467C>A	c.(1465-1467)GTC>GTA	p.V489V		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	489	Helical; Name=Segment S5; (Potential).					voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						AAAAGAGGATGACCCCAATGA	0.527													22	71	---	---	---	---	PASS	T	30032759	T	T	30032759	2	4	41	1	0	0	0	0	0	0	0	1	8005	1277	45	2		2	KCNA4	11	30032759	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	3369238	30032759	104973757	371	15980										
LRRC4C	57689	broad.mit.edu	37	chr11	40137001	40137001	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgaagaggtcatgaggcagtAatgttagattattgtgtgcc	13	4	1	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:40137001A>T	uc001mxa.1	-	2	2806	c.842T>A	c.(841-843)TTA>TAA	p.L281*	LRRC4C_uc001mxc.1_Nonsense_Mutation_p.L277*|LRRC4C_uc001mxd.1_Nonsense_Mutation_p.L277*|LRRC4C_uc001mxb.1_Nonsense_Mutation_p.L277*	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	281	LRR 9.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				ATGAGGCAGTAATGTTAGATT	0.453													58	140	---	---	---	---	PASS	T	40137001	T	T	40137001	4	4	41	1	0	0	0	0	0	1	0	0	9008	372	13	5	1084	5	LRRC4C	11	40137001	Nonsense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	10104242	40137001	94869515	372	15981										
OR4A5	81318	broad.mit.edu	37	chr11	51411688	51411688	+	Frame_Shift_Del	DEL	G	-	-													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acggtactgccggagctgcaGgtagacaaggctttacccct							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:51411688delG	uc001nhi.1	-	1	708	c.708delC	c.(706-708)ACCfs	p.T236fs		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	236	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				CGGAGCTGCAGGTAGACAAGG	0.408													84	41	---	---	---	---		-	51411688	-	-	51411688	7	5	41	1	0	1	0	1	0	0	0	0	11043	987	35	0	243	0	OR4A5	11	51411688	Frame_Shift_Del	DEL	G	TCGA-22-4613-01A-01D-1441-08	11274687	51411688	83594828	373	15982										
OR4C16	219428	broad.mit.edu	37	chr11	55340461	55340461	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctcaaccctgtgatttacacGctgaagaatacagaagtgaa	8	9	1	5			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:55340461G>T	uc010rih.1	+	1	858	c.858G>T	c.(856-858)ACG>ACT	p.T286T		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				TGATTTACACGCTGAAGAATA	0.363													14	67	---	---	---	---	PASS	T	55340461	T	T	55340461	2	4	41	1	0	0	0	0	0	0	0	1	11049	1074	38	1		1	OR4C16	11	55340461	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	3928773	55340461	79666055	374	15983										
OR8H2	390151	broad.mit.edu	37	chr11	55872536	55872536	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aacatgatgggtagaaggaaTaacacaaatgtggctgactt	11	5	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:55872536T>C	uc010riy.1	+	1	18	c.18T>C	c.(16-18)AAT>AAC	p.N6N		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					GTAGAAGGAATAACACAAATG	0.343										HNSCC(53;0.14)			6	232	---	---	---	---	PASS	C	55872536	C	C	55872536	2	2	41	1	0	0	0	0	0	0	0	1	11238	1403	49	5		5	OR8H2	11	55872536	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	532075	55872536	79133980	375	15984										
OR8J3	81168	broad.mit.edu	37	chr11	55904850	55904850	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cggtcataggccatcacagcCagcatcattacctccgatac	7	15	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:55904850C>A	uc010riz.1	-	1	345	c.345G>T	c.(343-345)CTG>CTT	p.L115L		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					CCATCACAGCCAGCATCATTA	0.483													56	119	---	---	---	---	PASS	A	55904850	A	A	55904850	2	1	41	1	0	0	0	0	0	0	0	1	11242	581	21	3		3	OR8J3	11	55904850	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	32314	55904850	79101666	376	15985										
OR8J1	219477	broad.mit.edu	37	chr11	56127763	56127763	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagagtcactgagtttattcTtacaggtgtctctagctgtc	9	9	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:56127763T>A	uc010rjh.1	+	1	41	c.41T>A	c.(40-42)CTT>CAT	p.L14H		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GAGTTTATTCTTACAGGTGTC	0.458													29	76	---	---	---	---	PASS	A	56127763	A	A	56127763	3	1	41	1	0	0	0	0	1	0	0	0	11241	1609	56	5	43	5	OR8J1	11	56127763	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	222913	56127763	78878753	377	15986										
OR5M9	390162	broad.mit.edu	37	chr11	56230176	56230176	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gacccacaggtggagaacgcCttcctcctgccatcggcaga	11	15	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:56230176C>G	uc010rjj.1	-	1	702	c.702G>C	c.(700-702)AAG>AAC	p.K234N		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					TGGAGAACGCCTTCCTCCTGC	0.522													12	16	---	---	---	---	PASS	G	56230176	G	G	56230176	3	3	41	1	0	0	0	0	1	0	0	0	11177	680	24	4	232	4	OR5M9	11	56230176	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	102413	56230176	78776340	378	15987										
OR9G4	283189	broad.mit.edu	37	chr11	56510333	56510333	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tggttgtatagtctgtgttgCtttcctgaaggcctctttga	11	7	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:56510333C>A	uc010rjo.1	-	1	955	c.955G>T	c.(955-957)GCA>TCA	p.A319S		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	319	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GTCTGTGTTGCTTTCCTGAAG	0.393													46	130	---	---	---	---	PASS	A	56510333	A	A	56510333	3	1	41	1	0	0	0	0	1	0	0	0	11251	797	28	3	31	3	OR9G4	11	56510333	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	280157	56510333	78496183	379	15988										
P2RX3	5024	broad.mit.edu	37	chr11	57106060	57106060	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gacttcttcacctatgagacCaccaagtcggtggttgtgaa	10	10	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:57106060C>A	uc001nju.2	+	1	112	c.36C>A	c.(34-36)ACC>ACA	p.T12T	SSRP1_uc001njt.2_5'Flank	NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3	12	Cytoplasmic (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						CCTATGAGACCACCAAGTCGG	0.542													96	226	---	---	---	---	PASS	A	57106060	A	A	57106060	2	1	41	1	0	0	0	0	0	0	0	1	11341	581	21	3		3	P2RX3	11	57106060	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	595727	57106060	77900456	380	15989										
OR5B17	219965	broad.mit.edu	37	chr11	58126131	58126131	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tatagccagacaagcacacaCacgtgttgtcatggtggtgg	12	9	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:58126131C>A	uc010rke.1	-	1	412	c.412G>T	c.(412-414)GTG>TTG	p.V138L		NM_001005489	NP_001005489	Q8NGF7	OR5BH_HUMAN	olfactory receptor, family 5, subfamily B,	138	Helical; Name=4; (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)				CAAGCACACACACGTGTTGTC	0.453													17	56	---	---	---	---	PASS	A	58126131	A	A	58126131	3	1	41	1	0	0	0	0	1	0	0	0	11149	478	17	3	534	3	OR5B17	11	58126131	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1020071	58126131	76880385	381	15990										
OR5B2	390190	broad.mit.edu	37	chr11	58190356	58190356	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggtggtggtgtagtgtagggGtttgcacactgctgcatagc	17	6	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:58190356G>T	uc010rkg.1	-	1	379	c.379C>A	c.(379-381)CCC>ACC	p.P127T		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	127	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TAGTGTAGGGGTTTGCACACT	0.522													14	53	---	---	---	---	PASS	T	58190356	T	T	58190356	3	4	41	1	0	0	0	0	1	0	0	0	11150	1261	44	3	554	3	OR5B2	11	58190356	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	64225	58190356	76816160	382	15991										
OR5B12	390191	broad.mit.edu	37	chr11	58206901	58206901	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gatggaaactgcagtaaggtGggaagcacaagtagaaaagg	15	4	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:58206901G>T	uc010rkh.1	-	1	724	c.724C>A	c.(724-726)CAC>AAC	p.H242N		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GCAGTAAGGTGGGAAGCACAA	0.423													26	65	---	---	---	---	PASS	T	58206901	T	T	58206901	3	4	41	1	0	0	0	0	1	0	0	0	11148	1348	47	3	224	3	OR5B12	11	58206901	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	16545	58206901	76799615	383	15992										
MS4A14	84689	broad.mit.edu	37	chr11	60183926	60183926	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaccagcaaaccaaagccttGcaatacttaaggagacattc	6	11	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:60183926G>T	uc001npj.2	+	5	2050	c.1485G>T	c.(1483-1485)TTG>TTT	p.L495F	MS4A14_uc001npi.2_Missense_Mutation_p.L383F|MS4A14_uc001npn.2_Missense_Mutation_p.L233F|MS4A14_uc001npk.2_Missense_Mutation_p.L478F|MS4A14_uc001npl.2_Missense_Mutation_p.L233F|MS4A14_uc001npm.2_Missense_Mutation_p.L233F	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	495	Gln-rich.					integral to membrane	receptor activity			breast(1)	1						CCAAAGCCTTGCAATACTTAA	0.433													43	95	---	---	---	---	PASS	T	60183926	T	T	60183926	3	4	41	1	0	0	0	0	1	0	0	0	9858	1310	46	3	1503	3	MS4A14	11	60183926	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1977025	60183926	74822590	384	15993										
DDB1	1642	broad.mit.edu	37	chr11	61071505	61071505	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gttgtccactcatagagccgCacctgggaagggcattgtct	12	11	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:61071505C>T	uc001nrc.3	-	22	2890	c.2664G>A	c.(2662-2664)GTG>GTA	p.V888V	DDB1_uc010rle.1_Silent_p.V199V|DDB1_uc010rlf.1_Silent_p.V888V	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	888	Interaction with CDT1 and CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						CATAGAGCCGCACCTGGGAAG	0.547								NER					27	72	---	---	---	---	PASS	T	61071505	T	T	61071505	2	4	41	1	0	0	0	0	0	0	0	1	4323	697	25	3		3	DDB1	11	61071505	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	887579	61071505	73935011	385	15994										
SPDYC	387778	broad.mit.edu	37	chr11	64939436	64939436	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gacagttttgtccaggaattCctctccaaagacccctgctt	7	13	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:64939436C>T	uc010rnz.1	+	3	222	c.222C>T	c.(220-222)TTC>TTT	p.F74F		NM_001008778	NP_001008778	Q5MJ68	SPDYC_HUMAN	speedy C	74	Speedy/Ringo box; Required for CDK- binding (By similarity).				cell cycle	nucleus	protein kinase binding				0						TCCAGGAATTCCTCTCCAAAG	0.527													36	74	---	---	---	---	PASS	T	64939436	T	T	64939436	2	4	41	1	0	0	0	0	0	0	0	1	15027	854	30	2		2	SPDYC	11	64939436	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	3867931	64939436	70067080	386	15995										
SPDYC	387778	broad.mit.edu	37	chr11	64940209	64940209	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctcgggaccggcgcccccacCatggtggggttcagagggtc	16	14	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:64940209C>G	uc010rnz.1	+	6	571	c.571C>G	c.(571-573)CAT>GAT	p.H191D		NM_001008778	NP_001008778	Q5MJ68	SPDYC_HUMAN	speedy C	191					cell cycle	nucleus	protein kinase binding				0						GCGCCCCCACCATGGTGGGGT	0.662													24	57	---	---	---	---	PASS	G	64940209	G	G	64940209	3	3	41	1	0	0	0	0	1	0	0	0	15027	594	21	4	593	4	SPDYC	11	64940209	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	773	64940209	70066307	387	15996										
MAP3K11	4296	broad.mit.edu	37	chr11	65375242	65375242	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcgcctccaactgctgcaggAtggaggcgaagtcgggcctg	16	12	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:65375242A>G	uc001oew.2	-	4	1608	c.1115T>C	c.(1114-1116)ATC>ACC	p.I372T	MAP3K11_uc001oev.2_5'Flank|MAP3K11_uc010rol.1_Missense_Mutation_p.I115T|MAP3K11_uc001oex.1_Intron	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	372	Protein kinase.				activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						CTGCTGCAGGATGGAGGCGAA	0.652													30	48	---	---	---	---	PASS	G	65375242	G	G	65375242	3	3	41	1	0	0	0	0	1	0	0	0	9245	333	12	5	1456	5	MAP3K11	11	65375242	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	435033	65375242	69631274	388	15997										
LRP5	4041	broad.mit.edu	37	chr11	68216404	68216404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atttgaactcggactcagacCcctatccacccccacccacg	5	19	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:68216404C>A	uc001ont.2	+	23	4789	c.4714C>A	c.(4714-4716)CCC>ACC	p.P1572T	LRP5_uc009ysg.2_Missense_Mutation_p.P982T	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1572	Pro-rich.|Cytoplasmic (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						GGACTCAGACCCCTATCCACC	0.657													22	33	---	---	---	---	PASS	A	68216404	A	A	68216404	3	1	41	1	0	0	0	0	1	0	0	0	8960	623	22	3	4804	3	LRP5	11	68216404	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2841162	68216404	66790112	389	15998										
MRGPRF	116535	broad.mit.edu	37	chr11	68773487	68773487	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtgttcaggatggagaacacCgccttgctgaagaggtagcc	14	9	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:68773487C>A	uc001ooo.3	-	3	658	c.291G>T	c.(289-291)GCG>GCT	p.A97A	MRGPRF_uc001oop.3_Silent_p.A97A	NM_001098515	NP_001091985	Q96AM1	MRGRF_HUMAN	MAS-related GPR, member F	97	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TGGAGAACACCGCCTTGCTGA	0.607													4	5	---	---	---	---	PASS	A	68773487	A	A	68773487	2	1	41	1	0	0	0	0	0	0	0	1	9765	639	23	1		1	MRGPRF	11	68773487	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	557083	68773487	66233029	390	15999										
DHCR7	1717	broad.mit.edu	37	chr11	71146795	71146795	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cttctggtggttggccacccGgaagatgtagtagcccacca	12	12	1	1	rs80338860		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:71146795G>T	uc001oqk.2	-	9	1304	c.1054C>A	c.(1054-1056)CGG>AGG	p.R352R	DHCR7_uc001oql.2_Silent_p.R352R	NM_001163817	NP_001157289	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	352			R -> W (in SLOS).|R -> Q (in SLOS).		cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|nuclear outer membrane	7-dehydrocholesterol reductase activity|protein binding			ovary(1)|liver(1)	2					NADH(DB00157)	TTGGCCACCCGGAAGATGTAG	0.667									Smith-Lemli-Opitz_syndrome				27	38	---	---	---	---	PASS	T	71146795	T	T	71146795	2	4	41	1	0	0	0	0	0	0	0	1	4477	1115	39	1		1	DHCR7	11	71146795	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	2373308	71146795	63859721	391	16000										
KRTAP5-11	440051	broad.mit.edu	37	chr11	71293713	71293713	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttggagcccccacaggagccAcagctggagcaggaacaggc	14	13	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:71293713A>T	uc001oqu.2	-	1	209	c.171T>A	c.(169-171)TGT>TGA	p.C57*		NM_001005405	NP_001005405	Q6L8G4	KR511_HUMAN	keratin associated protein 5-11	57	6 X 4 AA repeats of C-C-X-P.					keratin filament					0						CACAGGAGCCACAGCTGGAGC	0.627													61	167	---	---	---	---	PASS	T	71293713	T	T	71293713	4	4	41	1	0	0	0	0	0	1	0	0	8560	157	6	5	303	5	KRTAP5-11	11	71293713	Nonsense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	146918	71293713	63712803	392	16001										
ARHGEF17	9828	broad.mit.edu	37	chr11	73022174	73022174	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agaagaaatccctgagtgacCccagccgccgtggggagctg	14	12	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:73022174C>T	uc001otu.2	+	1	2512	c.2491C>T	c.(2491-2493)CCC>TCC	p.P831S		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	831					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						CCTGAGTGACCCCAGCCGCCG	0.642													21	72	---	---	---	---	PASS	T	73022174	T	T	73022174	3	4	41	1	0	0	0	0	1	0	0	0	900	623	22	3	2493	3	ARHGEF17	11	73022174	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1728461	73022174	61984342	393	16002										
MYO7A	4647	broad.mit.edu	37	chr11	76869394	76869394	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atccgctccgccatgaaggtGctcatgttcactgacaccga	9	14	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:76869394G>T	uc001oyb.2	+	9	1193	c.921G>T	c.(919-921)GTG>GTT	p.V307V	MYO7A_uc010rsl.1_Silent_p.V307V|MYO7A_uc010rsm.1_Silent_p.V296V|MYO7A_uc001oyc.2_Silent_p.V307V	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	307	Myosin head-like.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						CCATGAAGGTGCTCATGTTCA	0.617													16	34	---	---	---	---	PASS	T	76869394	T	T	76869394	2	4	41	1	0	0	0	0	0	0	0	1	10082	1306	46	3		3	MYO7A	11	76869394	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	3847220	76869394	58137122	394	16003										
GAB2	9846	broad.mit.edu	37	chr11	77937952	77937952	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tctgaattctgtattgtgccGgctcggcttgggaaggctat	13	8	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:77937952G>T	uc001ozh.2	-	4	766	c.766C>A	c.(766-768)CGG>AGG	p.R256R	GAB2_uc001ozg.2_Silent_p.R218R	NM_080491	NP_536739	Q9UQC2	GAB2_HUMAN	GRB2-associated binding protein 2 isoform a	256					osteoclast differentiation|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mast cell degranulation	cytosol|plasma membrane	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|transmembrane receptor protein tyrosine kinase adaptor activity			ovary(5)|lung(1)	6	all_cancers(14;3.31e-18)|all_epithelial(13;5.3e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.58e-23)			GTATTGTGCCGGCTCGGCTTG	0.562													38	59	---	---	---	---	PASS	T	77937952	T	T	77937952	2	4	41	1	0	0	0	0	0	0	0	1	6149	1115	39	1		1	GAB2	11	77937952	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	1068558	77937952	57068564	395	16004										
GRM5	2915	broad.mit.edu	37	chr11	88386499	88386499	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttgacatcgggagattggagCttgattgtgatgccaccaac	12	8	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:88386499C>T	uc001pcq.2	-	3	1184	c.984G>A	c.(982-984)AAG>AAA	p.K328K	GRM5_uc009yvm.2_Silent_p.K328K	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	328	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	GAGATTGGAGCTTGATTGTGA	0.463													17	77	---	---	---	---	PASS	T	88386499	T	T	88386499	2	4	41	1	0	0	0	0	0	0	0	1	6800	796	28	3		3	GRM5	11	88386499	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	10448547	88386499	46620017	396	16005										
TYR	7299	broad.mit.edu	37	chr11	88911881	88911881	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcacagatgagtacatgggaGgtcagcaccccacaaatcct	10	12	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:88911881G>A	uc001pcs.2	+	1	842	c.760G>A	c.(760-762)GGT>AGT	p.G254S		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	254	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	GTACATGGGAGGTCAGCACCC	0.458									Oculocutaneous_Albinism				18	120	---	---	---	---	PASS	A	88911881	A	A	88911881	3	1	41	1	0	0	0	0	1	0	0	0	16810	1000	35	3	762	3	TYR	11	88911881	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	525382	88911881	46094635	397	16006										
FAT3	120114	broad.mit.edu	37	chr11	92532543	92532543	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caaatggagaagtgacctatGtcctgcaggatgactatggc	12	8	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:92532543G>C	uc001pdj.3	+	9	6381	c.6364G>C	c.(6364-6366)GTC>CTC	p.V2122L		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2122	Cadherin 19.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGTGACCTATGTCCTGCAGGA	0.423										TCGA Ovarian(4;0.039)			3	27	---	---	---	---	PASS	C	92532543	C	C	92532543	3	2	41	1	0	0	0	0	1	0	0	0	5691	1377	48	4	6398	4	FAT3	11	92532543	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	3620662	92532543	42473973	398	16007										
ANKRD49	54851	broad.mit.edu	37	chr11	94231407	94231407	+	Silent	SNP	G	C	C													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtgactgtggatggctggacGcccctgcacagtgcttgtaa							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:94231407G>C	uc001pew.2	+	3	568	c.429G>C	c.(427-429)ACG>ACC	p.T143T	ANKRD49_uc001pex.2_3'UTR|ANKRD49_uc001pey.2_RNA	NM_017704	NP_060174	Q8WVL7	ANR49_HUMAN	fetal globin inducing factor	143	ANK 3.				positive regulation of transcription, DNA-dependent					central_nervous_system(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				ATGGCTGGACGCCCCTGCACA	0.507													8	86	---	---	---	---	PASS	C	94231407	C	C	94231407	2	2	41	1	0	0	0	0	0	0	0	1	675	1074	38	4		4	ANKRD49	11	94231407	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	1698864	94231407	40775109	399	16008	389	2								
ANKRD49	54851	broad.mit.edu	37	chr11	94231411	94231411	+	Silent	SNP	C	T	T													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgtggatggctggacgcccCtgcacagtgcttgtaagtgg							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:94231411C>T	uc001pew.2	+	3	572	c.433C>T	c.(433-435)CTG>TTG	p.L145L	ANKRD49_uc001pex.2_3'UTR|ANKRD49_uc001pey.2_RNA	NM_017704	NP_060174	Q8WVL7	ANR49_HUMAN	fetal globin inducing factor	145	ANK 3.				positive regulation of transcription, DNA-dependent					central_nervous_system(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CTGGACGCCCCTGCACAGTGC	0.498													7	86	---	---	---	---	PASS	T	94231411	T	T	94231411	2	4	41	1	0	0	0	0	0	0	0	1	675	680	24	3		3	ANKRD49	11	94231411	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	4	94231411	40775105	400	16009	389	2								
TMEM123	114908	broad.mit.edu	37	chr11	102272392	102272392	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccagtatcaaattttgatccTttctttgcttcagaatgcat	5	9	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:102272392T>C	uc001pha.2	-	4	901	c.480A>G	c.(478-480)AAA>AAG	p.K160K	TMEM123_uc009yxc.2_Silent_p.K141K	NM_052932	NP_443164	Q8N131	PORIM_HUMAN	transmembrane protein 123 precursor	160	Extracellular (Potential).				oncosis	external side of plasma membrane|integral to membrane	receptor activity			breast(2)	2	all_cancers(8;0.00027)|all_epithelial(12;0.0021)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0314)|Lung(13;0.109)|all cancers(10;0.12)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0149)		ATTTTGATCCTTTCTTTGCTT	0.308													18	105	---	---	---	---	PASS	C	102272392	C	C	102272392	2	2	41	1	0	0	0	0	0	0	0	1	16033	1606	56	5		5	TMEM123	11	102272392	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	8040981	102272392	32734124	401	16010										
DRD2	1813	broad.mit.edu	37	chr11	113283559	113283559	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcctctcgggtgggctggtgCtggagagcatctccatctcc	13	13	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:113283559C>T	uc001pnz.2	-	6	1178	c.857G>A	c.(856-858)AGC>AAC	p.S286N	DRD2_uc010rwv.1_Missense_Mutation_p.S285N|DRD2_uc001poa.3_Missense_Mutation_p.S286N|DRD2_uc001pob.3_Missense_Mutation_p.S257N	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	286	Cytoplasmic (By similarity).|Interaction with PPP1R9B (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		all_cancers(61;3.91e-16)|all_epithelial(67;2.95e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000977)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0494)		BRCA - Breast invasive adenocarcinoma(274;5.77e-06)|Epithelial(105;6.66e-05)|all cancers(92;0.000307)|OV - Ovarian serous cystadenocarcinoma(223;0.216)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	TGGGCTGGTGCTGGAGAGCAT	0.667													19	27	---	---	---	---	PASS	T	113283559	T	T	113283559	3	4	41	1	0	0	0	0	1	0	0	0	4757	797	28	3	482	3	DRD2	11	113283559	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	11011167	113283559	21722957	402	16011										
FAM55A	120400	broad.mit.edu	37	chr11	114401156	114401156	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttggttccttgccctccagaGagccgacgccccttcactgg	10	16	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:114401156G>T	uc001ppa.2	-	3	565	c.148C>A	c.(148-150)CTC>ATC	p.L50I	FAM55A_uc010rxd.1_5'UTR|FAM55A_uc001ppb.1_Missense_Mutation_p.L192I	NM_152315	NP_689528	Q8N323	FA55A_HUMAN	hypothetical protein LOC120400	192						extracellular region					0		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;3.02e-06)|Epithelial(105;0.000144)|all cancers(92;0.00106)		GCCCTCCAGAGAGCCGACGCC	0.507													40	60	---	---	---	---	PASS	T	114401156	T	T	114401156	3	4	41	1	0	0	0	0	1	0	0	0	5584	942	33	2	1085	2	FAM55A	11	114401156	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1117597	114401156	20605360	403	16012										
OR6M1	390261	broad.mit.edu	37	chr11	123676935	123676935	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	catatcagggagatgatggtGatgtttcctgttgctgttaa	12	5	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:123676935G>T	uc010rzz.1	-	1	123	c.123C>A	c.(121-123)ATC>ATA	p.I41I		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	41	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		AGATGATGGTGATGTTTCCTG	0.423													22	109	---	---	---	---	PASS	T	123676935	T	T	123676935	2	4	41	1	0	0	0	0	0	0	0	1	11205	1280	45	2		2	OR6M1	11	123676935	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	9275779	123676935	11329581	404	16013										
OR4D5	219875	broad.mit.edu	37	chr11	123810615	123810615	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccatttcctttggtggatgcCtgactcaactcttcttcttc	6	13	4	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:123810615C>A	uc001pzk.1	+	1	292	c.292C>A	c.(292-294)CTG>ATG	p.L98M		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		TGGTGGATGCCTGACTCAACT	0.493													16	97	---	---	---	---	PASS	A	123810615	A	A	123810615	3	1	41	1	0	0	0	0	1	0	0	0	11057	680	24	3	294	3	OR4D5	11	123810615	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	133680	123810615	11195901	405	16014										
OR6T1	219874	broad.mit.edu	37	chr11	123813951	123813951	+	Missense_Mutation	SNP	C	A	A													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caacgtagagagcatgaaagCcaccagtttcagcaggtggg							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:123813951C>A	uc010sab.1	-	1	595	c.595G>T	c.(595-597)GCT>TCT	p.A199S		NM_001005187	NP_001005187	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T,	199	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		AGCATGAAAGCCACCAGTTTC	0.547													32	61	---	---	---	---	PASS	A	123813951	A	A	123813951	3	1	41	1	0	0	0	0	1	0	0	0	11210	739	26	3	379	3	OR6T1	11	123813951	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3336	123813951	11192565	406	16015	390	2								
OR6T1	219874	broad.mit.edu	37	chr11	123813952	123813952	+	Silent	SNP	C	A	A													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aacgtagagagcatgaaagcCaccagtttcagcaggtgggt							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:123813952C>A	uc010sab.1	-	1	594	c.594G>T	c.(592-594)GTG>GTT	p.V198V		NM_001005187	NP_001005187	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T,	198	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		GCATGAAAGCCACCAGTTTCA	0.547													32	60	---	---	---	---	PASS	A	123813952	A	A	123813952	2	1	41	1	0	0	0	0	0	0	0	1	11210	581	21	3		3	OR6T1	11	123813952	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1	123813952	11192564	407	16016	390	2								
OR10G9	219870	broad.mit.edu	37	chr11	123894397	123894397	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atcgtctgttccatcctgcgGatccacacctcagaggggag	11	13	2	1	rs139365025	byFrequency	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:123894397G>T	uc010sad.1	+	1	678	c.678G>T	c.(676-678)CGG>CGT	p.R226R		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	226	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CCATCCTGCGGATCCACACCT	0.522													27	62	---	---	---	---	PASS	T	123894397	T	T	123894397	2	4	41	1	0	0	0	0	0	0	0	1	10904	1161	41	2		2	OR10G9	11	123894397	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	80445	123894397	11112119	408	16017										
OR8A1	390275	broad.mit.edu	37	chr11	124440904	124440904	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcctgaggaacaaggaagtaAaggctgccgtgcagaaaacg	14	8	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:124440904A>G	uc010san.1	+	1	940	c.940A>G	c.(940-942)AAG>GAG	p.K314E		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	314	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		CAAGGAAGTAAAGGCTGCCGT	0.428													23	54	---	---	---	---	PASS	G	124440904	G	G	124440904	3	3	41	1	0	0	0	0	1	0	0	0	11225	15	1	5	942	5	OR8A1	11	124440904	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	546507	124440904	10565612	409	16018										
ROBO3	64221	broad.mit.edu	37	chr11	124748011	124748011	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagtacgctcctccagagtgGagccagggggacagtggtat	15	10	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:124748011G>A	uc001qbc.2	+	21	3357	c.3165G>A	c.(3163-3165)TGG>TGA	p.W1055*	ROBO3_uc010saq.1_3'UTR|ROBO3_uc001qbd.2_5'UTR|ROBO3_uc010sar.1_Nonsense_Mutation_p.W104*|ROBO3_uc001qbe.2_5'UTR|ROBO3_uc001qbf.1_5'UTR	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	1055	Cytoplasmic (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		CTCCAGAGTGGAGCCAGGGGG	0.617													6	15	---	---	---	---	PASS	A	124748011	A	A	124748011	4	1	41	1	0	0	0	0	0	1	0	0	13515	1183	41	2	3247	2	ROBO3	11	124748011	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	307107	124748011	10258505	410	16019										
CCDC15	80071	broad.mit.edu	37	chr11	124908348	124908348	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	attaagaaaaagagagagcaAgaatgttatgctgcagagca	11	4	0	5			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:124908348A>T	uc001qbm.3	+	14	2692	c.2433A>T	c.(2431-2433)CAA>CAT	p.Q811H		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	811	Potential.					centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		AGAGAGAGCAAGAATGTTATG	0.318													3	13	---	---	---	---	PASS	T	124908348	T	T	124908348	3	4	41	1	0	0	0	0	1	0	0	0	2784	69	3	5	2483	5	CCDC15	11	124908348	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	160337	124908348	10098168	411	16020										
ACRV1	56	broad.mit.edu	37	chr11	125548074	125548074	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtgttcaggcctgaagaagtCtcatataaagcctcagcatc	9	10	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:125548074C>G	uc001qcs.2	-	2	438	c.171G>C	c.(169-171)GAG>GAC	p.E57D	ACRV1_uc001qck.2_Intron|ACRV1_uc001qcl.2_Intron|ACRV1_uc001qcm.2_Intron|ACRV1_uc001qcn.2_Intron|ACRV1_uc001qco.2_Intron|ACRV1_uc001qcp.2_Intron|ACRV1_uc001qcq.2_Intron|ACRV1_uc001qcr.2_Missense_Mutation_p.E57D	NM_001612	NP_001603	P26436	ASPX_HUMAN	acrosomal vesicle protein 1 isoform a precursor	57					multicellular organismal development	acrosomal vesicle					0	all_hematologic(175;0.177)	Breast(109;0.0021)|all_lung(97;0.0179)|Lung NSC(97;0.0185)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0713)		CTGAAGAAGTCTCATATAAAG	0.458													29	43	---	---	---	---	PASS	G	125548074	G	G	125548074	3	3	41	1	0	0	0	0	1	0	0	0	172	912	32	2	638	2	ACRV1	11	125548074	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	639726	125548074	9458442	412	16021										
PRDM10	56980	broad.mit.edu	37	chr11	129802064	129802064	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggcggataaattttggaggaCgccccggccgtcgacctgga	15	11	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr11:129802064C>A	uc001qfm.2	-	10	1452	c.1220G>T	c.(1219-1221)CGT>CTT	p.R407L	PRDM10_uc001qfj.2_Missense_Mutation_p.R321L|PRDM10_uc001qfk.2_Missense_Mutation_p.R321L|PRDM10_uc001qfl.2_Missense_Mutation_p.R321L|PRDM10_uc010sbx.1_Missense_Mutation_p.R321L|PRDM10_uc001qfn.2_Missense_Mutation_p.R407L|PRDM10_uc009zct.1_Missense_Mutation_p.R439L	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	407					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		TTTTGGAGGACGCCCCGGCCG	0.572													3	77	---	---	---	---	PASS	A	129802064	A	A	129802064	3	1	41	1	0	0	0	0	1	0	0	0	12451	536	19	1	2314	1	PRDM10	11	129802064	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4253990	129802064	5204452	413	16022										
FBXL14	144699	broad.mit.edu	37	chr12	1702723	1702723	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cggaggttaaggctcttgagGcgctgcagaccccaggcgat	15	11	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:1702723G>T	uc001qjh.2	-	1	609	c.510C>A	c.(508-510)CGC>CGA	p.R170R	WNT5B_uc009zdq.2_Intron|FBXL14_uc001qji.2_Silent_p.R82R	NM_152441	NP_689654	Q8N1E6	FXL14_HUMAN	F-box and leucine-rich repeat protein 14	170	LRR 2.					cytoplasm				ovary(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00115)			GGCTCTTGAGGCGCTGCAGAC	0.667													10	24	---	---	---	---	PASS	T	1702723	T	T	1702723	2	4	41	1	0	0	0	0	0	0	0	1	5710	1190	42	3		3	FBXL14	12	1702723	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08		1702723	132149172	414	16023										
CACNA2D4	93589	broad.mit.edu	37	chr12	1992086	1992086	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtcgtggtcgtggttgatgaCcatggggcggctgagcacgt	18	8	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:1992086C>G	uc001qjp.2	-	13	1663	c.1432G>C	c.(1432-1434)GTC>CTC	p.V478L	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Missense_Mutation_p.V366L	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	478	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		TGGTTGATGACCATGGGGCGG	0.607													14	30	---	---	---	---	PASS	G	1992086	G	G	1992086	3	3	41	1	0	0	0	0	1	0	0	0	2551	507	18	4	2085	4	CACNA2D4	12	1992086	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	289363	1992086	131859809	415	16024										
CACNA1C	775	broad.mit.edu	37	chr12	2788654	2788654	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacgtcagctactaccaaagCgacggccggagcgccttccc	10	17	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:2788654C>A	uc009zdu.1	+	44	5593	c.5280C>A	c.(5278-5280)AGC>AGA	p.S1760R	CACNA1C_uc009zdv.1_Missense_Mutation_p.S1709R|CACNA1C_uc001qkb.2_Missense_Mutation_p.S1712R|CACNA1C_uc001qkc.2_Missense_Mutation_p.S1731R|CACNA1C_uc001qke.2_Missense_Mutation_p.S1701R|CACNA1C_uc001qkf.2_Missense_Mutation_p.S1720R|CACNA1C_uc001qjz.2_Missense_Mutation_p.S1712R|CACNA1C_uc001qkd.2_Missense_Mutation_p.S1731R|CACNA1C_uc001qkg.2_Missense_Mutation_p.S1718R|CACNA1C_uc009zdw.1_Missense_Mutation_p.S1753R|CACNA1C_uc001qkh.2_Missense_Mutation_p.S1720R|CACNA1C_uc001qkl.2_Missense_Mutation_p.S1760R|CACNA1C_uc001qkn.2_Missense_Mutation_p.S1712R|CACNA1C_uc001qko.2_Missense_Mutation_p.S1732R|CACNA1C_uc001qkp.2_Missense_Mutation_p.S1712R|CACNA1C_uc001qkr.2_Missense_Mutation_p.S1729R|CACNA1C_uc001qku.2_Missense_Mutation_p.S1712R|CACNA1C_uc001qkq.2_Missense_Mutation_p.S1740R|CACNA1C_uc001qks.2_Missense_Mutation_p.S1712R|CACNA1C_uc001qkt.2_Missense_Mutation_p.S1731R|CACNA1C_uc001qki.1_Missense_Mutation_p.S1448R|CACNA1C_uc001qkj.1_Missense_Mutation_p.S1448R|CACNA1C_uc001qkk.1_Missense_Mutation_p.S1448R|CACNA1C_uc001qkm.1_Missense_Mutation_p.S1437R|CACNA1C_uc010sea.1_Missense_Mutation_p.S403R|uc001qkx.1_Intron|CACNA1C_uc001qky.1_Missense_Mutation_p.S30R	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1760	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	ACTACCAAAGCGACGGCCGGA	0.657													7	10	---	---	---	---	PASS	A	2788654	A	A	2788654	3	1	41	1	0	0	0	0	1	0	0	0	2540	767	27	1	5685	1	CACNA1C	12	2788654	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	796568	2788654	131063241	416	16025										
FGF23	8074	broad.mit.edu	37	chr12	4479738	4479738	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cctcggcgctccgggtgtgcCgccgtggtatgggggtgttg	19	11	0	0	rs104894347		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:4479738C>T	uc001qmq.1	-	3	673	c.527G>A	c.(526-528)CGG>CAG	p.R176Q		NM_020638	NP_065689	Q9GZV9	FGF23_HUMAN	fibroblast growth factor 23 precursor	176			R -> Q (in ADHR; partially resistant to cleavage by furin).		cell differentiation|insulin receptor signaling pathway|negative regulation of bone mineralization|negative regulation of hormone secretion|negative regulation of osteoblast differentiation|positive regulation of vitamin D 24-hydroxylase activity|regulation of phosphate transport|vitamin D catabolic process	extracellular space	growth factor activity			ovary(2)|breast(1)|skin(1)	4			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)|STAD - Stomach adenocarcinoma(119;0.206)			CCGGGTGTGCCGCCGTGGTAT	0.672													12	79	---	---	---	---	PASS	T	4479738	T	T	4479738	3	4	41	1	0	0	0	0	1	0	0	0	5852	652	23	1	232	1	FGF23	12	4479738	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1691084	4479738	129372157	417	16026										
PEX5	5830	broad.mit.edu	37	chr12	7355220	7355220	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgtcgcagggtacatcagatGcctgggttgaccagttcaca	12	10	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:7355220G>A	uc009zfu.1	+	10	1346	c.766G>A	c.(766-768)GCC>ACC	p.A256T	PEX5_uc001qsw.2_Missense_Mutation_p.A256T|PEX5_uc010sgc.1_Missense_Mutation_p.A271T|PEX5_uc001qsu.2_Missense_Mutation_p.A219T|PEX5_uc010sgd.1_Missense_Mutation_p.A277T|PEX5_uc001qsv.2_Missense_Mutation_p.A256T	NM_001131026	NP_001124498	P50542	PEX5_HUMAN	peroxisomal biogenesis factor 5 isoform d	256					protein import into peroxisome matrix, translocation|protein targeting to peroxisome|protein tetramerization|protein transport	cytosol|peroxisomal matrix|peroxisomal membrane	peroxisome matrix targeting signal-1 binding|protein C-terminus binding|protein N-terminus binding			ovary(1)	1						TACATCAGATGCCTGGGTTGA	0.478													26	46	---	---	---	---	PASS	A	7355220	A	A	7355220	3	1	41	1	0	0	0	0	1	0	0	0	11748	1319	46	3	841	3	PEX5	12	7355220	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2875482	7355220	126496675	418	16027										
CD163L1	283316	broad.mit.edu	37	chr12	7548873	7548873	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tagaagatgggcagtccagcTggctacacaccacagctgca	11	12	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:7548873T>C	uc001qsy.2	-	8	1894	c.1868A>G	c.(1867-1869)CAG>CGG	p.Q623R	CD163L1_uc010sge.1_Missense_Mutation_p.Q633R	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	623	SRCR 6.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						GCAGTCCAGCTGGCTACACAC	0.517													17	54	---	---	---	---	PASS	C	7548873	C	C	7548873	3	2	41	1	0	0	0	0	1	0	0	0	2968	1580	55	5	2541	5	CD163L1	12	7548873	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	193653	7548873	126303022	419	16028										
GDF3	9573	broad.mit.edu	37	chr12	7843099	7843099	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctggcttaggggtggtctggCcccacacatgaggctcctga	14	12	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:7843099C>A	uc001qte.2	-	2	506	c.470G>T	c.(469-471)GGC>GTC	p.G157V		NM_020634	NP_065685	Q9NR23	GDF3_HUMAN	growth differentiation factor 3 precursor	157					eye development|growth|skeletal system development	extracellular space	cytokine activity|growth factor activity			skin(3)|ovary(1)|lung(1)|central_nervous_system(1)	6						GGTGGTCTGGCCCCACACATG	0.552													34	84	---	---	---	---	PASS	A	7843099	A	A	7843099	3	1	41	1	0	0	0	0	1	0	0	0	6315	739	26	3	628	3	GDF3	12	7843099	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	294226	7843099	126008796	420	16029										
GRIN2B	2904	broad.mit.edu	37	chr12	13716820	13716820	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cctgaagtagcgcttgtggtCaggggagcggggcggtcggc	20	9	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:13716820C>A	uc001rbt.2	-	13	3531	c.3352G>T	c.(3352-3354)GAC>TAC	p.D1118Y		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1118	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CGCTTGTGGTCAGGGGAGCGG	0.607													30	67	---	---	---	---	PASS	A	13716820	A	A	13716820	3	1	41	1	0	0	0	0	1	0	0	0	6780	826	29	2	1106	2	GRIN2B	12	13716820	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	5873721	13716820	120135075	421	16030										
GRIN2B	2904	broad.mit.edu	37	chr12	13906657	13906657	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggacatgtccagtaggaggaCctcctctagctcccagccca	10	15	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:13906657C>G	uc001rbt.2	-	3	783	c.604G>C	c.(604-606)GTC>CTC	p.V202L		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	202	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AGTAGGAGGACCTCCTCTAGC	0.473													54	99	---	---	---	---	PASS	G	13906657	G	G	13906657	3	3	41	1	0	0	0	0	1	0	0	0	6780	507	18	4	3894	4	GRIN2B	12	13906657	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	189837	13906657	119945238	422	16031										
SLCO1B3	28234	broad.mit.edu	37	chr12	21229443	21229443	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgatacaacgtgtatgaagtGgtccaccaacagctgtggag	12	8	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:21229443G>A	uc010sil.1	+	15	2053	c.1988G>A	c.(1987-1989)TGG>TAG	p.W663*	LST-3TM12_uc010sim.1_Nonsense_Mutation_p.W602*|LST-3TM12_uc010sin.1_Nonsense_Mutation_p.W555*			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TGTATGAAGTGGTCCACCAAC	0.348													117	250	---	---	---	---	PASS	A	21229443	A	A	21229443	4	1	41	1	0	0	0	0	0	1	0	0	14724	1357	47	3		3	SLCO1B3	12	21229443	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	7322786	21229443	112622452	423	16032										
SLCO1A2	6579	broad.mit.edu	37	chr12	21450348	21450348	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acaaacatacccattagaaaGattgcatctgaagatgatat	6	7	1	5			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:21450348G>T	uc001rer.2	-	8	1316	c.1065C>A	c.(1063-1065)ATC>ATA	p.I355I	SLCO1A2_uc001res.2_Silent_p.I355I|SLCO1A2_uc010siq.1_Silent_p.I223I|SLCO1A2_uc010sio.1_Silent_p.I223I|SLCO1A2_uc010sip.1_Silent_p.I223I|SLCO1A2_uc001ret.2_Silent_p.I353I|SLCO1A2_uc001reu.2_Silent_p.I335I	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	355	Helical; Name=8; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						CCATTAGAAAGATTGCATCTG	0.403													41	86	---	---	---	---	PASS	T	21450348	T	T	21450348	2	4	41	1	0	0	0	0	0	0	0	1	14722	932	33	2		2	SLCO1A2	12	21450348	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	220905	21450348	112401547	424	16033										
SYT10	341359	broad.mit.edu	37	chr12	33538175	33538175	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgtcaatgtcatacgcccagCcgtcggtaggtaacaaaggg	12	10	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:33538175C>A	uc001rll.1	-	4	1426	c.1129G>T	c.(1129-1131)GCT>TCT	p.A377S	SYT10_uc009zju.1_Missense_Mutation_p.A187S	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	377	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					ATACGCCCAGCCGTCGGTAGG	0.448													22	72	---	---	---	---	PASS	A	33538175	A	A	33538175	3	1	41	1	0	0	0	0	1	0	0	0	15463	739	26	3	458	3	SYT10	12	33538175	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	12087827	33538175	100313720	425	16034										
PDZRN4	29951	broad.mit.edu	37	chr12	41966841	41966841	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtactccgctcactgtagacCgttcccctgacagttccctt	7	16	1	2	rs139658899	byFrequency	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:41966841C>G	uc010skn.1	+	10	1731	c.1663C>G	c.(1663-1665)CGT>GGT	p.R555G	PDZRN4_uc001rmq.3_Missense_Mutation_p.R496G|PDZRN4_uc009zjz.2_Missense_Mutation_p.R494G|PDZRN4_uc001rmr.2_Missense_Mutation_p.R381G	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	754							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				CACTGTAGACCGTTCCCCTGA	0.507													56	115	---	---	---	---	PASS	G	41966841	G	G	41966841	3	3	41	1	0	0	0	0	1	0	0	0	11710	652	23	4	2371	4	PDZRN4	12	41966841	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	8428666	41966841	91885054	426	16035										
YAF2	10138	broad.mit.edu	37	chr12	42554479	42554479	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgtgttatcagagctagagCcgctttgactgtgttgatct	11	8	2	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:42554479C>A	uc001rmv.2	-	4	523	c.455G>T	c.(454-456)GGC>GTC	p.G152V	YAF2_uc001rmw.2_Missense_Mutation_p.G176V|YAF2_uc010sko.1_Missense_Mutation_p.G143V|YAF2_uc010skp.1_Missense_Mutation_p.G110V	NM_005748	NP_005739	Q8IY57	YAF2_HUMAN	YY1 associated factor 2	152					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription coactivator activity|transcription corepressor activity|zinc ion binding				0	all_cancers(12;0.000425)	Lung NSC(34;0.0402)|all_lung(34;0.057)		GBM - Glioblastoma multiforme(48;0.0514)		AGAGCTAGAGCCGCTTTGACT	0.428													19	55	---	---	---	---	PASS	A	42554479	A	A	42554479	3	1	41	1	0	0	0	0	1	0	0	0	17462	739	26	3	91	3	YAF2	12	42554479	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	587638	42554479	91297416	427	16036										
PLEKHA9	51054	broad.mit.edu	37	chr12	45567135	45567135	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggagttgcccttaaagctaaCgcaaaaacccctcgaactac	7	13	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:45567135C>A	uc001rom.1	-	3	1551	c.1014G>T	c.(1012-1014)GCG>GCT	p.A338A	PLEKHA9_uc009zke.2_Silent_p.A338A	NM_015899	NP_056983			pleckstrin homology domain containing, family A												0	Lung SC(27;0.192)|Renal(347;0.236)			GBM - Glioblastoma multiforme(48;0.173)		TTAAAGCTAACGCAAAAACCC	0.463													41	106	---	---	---	---	PASS	A	45567135	A	A	45567135	2	1	41	1	0	0	0	0	0	0	0	1	12063	523	19	1		1	PLEKHA9	12	45567135	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	3012656	45567135	88284760	428	16037										
ANO6	196527	broad.mit.edu	37	chr12	45771835	45771835	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tatgtcatttatattttccaGaaattgtgcatcttcgacag	6	7	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:45771835G>C	uc001roo.2	+	10	1440	c.1105_splice	c.e10-1	p.K369_splice	ANO6_uc010sld.1_Splice_Site_p.K369_splice|ANO6_uc010sle.1_Splice_Site_p.K369_splice|ANO6_uc010slf.1_Splice_Site_p.K390_splice|ANO6_uc010slg.1_Splice_Site_p.K351_splice	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a						activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						ATATTTTCCAGAAATTGTGCA	0.313													59	141	---	---	---	---	PASS	C	45771835	C	C	45771835	5	2	41	1	0	0	0	0	0	0	1	0	701	956	33	2	1162	2	ANO6	12	45771835	Splice_Site	SNP	G	TCGA-22-4613-01A-01D-1441-08	204700	45771835	88080060	429	16038										
KCNH3	23416	broad.mit.edu	37	chr12	49937247	49937247	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagcacgggagcccagtgccGcccgcggcccgcccagcgtc	14	20	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:49937247G>T	uc001ruh.1	+	5	1029	c.769G>T	c.(769-771)GCC>TCC	p.A257S	KCNH3_uc010smj.1_Missense_Mutation_p.A197S	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	257	Extracellular (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						GCCCAGTGCCGCCCGCGGCCC	0.667													22	39	---	---	---	---	PASS	T	49937247	T	T	49937247	3	4	41	1	0	0	0	0	1	0	0	0	8033	1087	38	1	787	1	KCNH3	12	49937247	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	4165412	49937247	83914648	430	16039										
GALNT6	11226	broad.mit.edu	37	chr12	51748185	51748185	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agacaaagagccacaactgaTgggggtcactgggattgcag	14	8	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:51748185T>G	uc001ryk.2	-	11	2072	c.1847A>C	c.(1846-1848)CAT>CCT	p.H616P	GALNT6_uc009zma.1_RNA|GALNT6_uc001ryl.1_Missense_Mutation_p.H616P|GALNT6_uc001ryj.1_Missense_Mutation_p.H181P	NM_007210	NP_009141	Q8NCL4	GALT6_HUMAN	polypeptide N-acetylgalactosaminyltransferase 6	616	Ricin B-type lectin.|Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|perinuclear region of cytoplasm	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						CCACAACTGATGGGGGTCACT	0.542													16	43	---	---	---	---	PASS	G	51748185	G	G	51748185	3	3	41	1	0	0	0	0	1	0	0	0	6217	1464	51	5	25	5	GALNT6	12	51748185	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	1810938	51748185	82103710	431	16040										
KRT85	3891	broad.mit.edu	37	chr12	52761150	52761150	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggagctgaagttcctggtgaCcccgcatcctgagctgatcc	12	13	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:52761150C>T	uc001sag.2	-	1	160	c.40G>A	c.(40-42)GTC>ATC	p.V14I		NM_002283	NP_002274	P78386	KRT85_HUMAN	keratin 85	14	Head.				epidermis development	keratin filament	protein binding|structural molecule activity			ovary(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		TTCCTGGTGACCCCGCATCCT	0.652													11	24	---	---	---	---	PASS	T	52761150	T	T	52761150	3	4	41	1	0	0	0	0	1	0	0	0	8499	507	18	3	1519	3	KRT85	12	52761150	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1012965	52761150	81090745	432	16041										
KRT72	140807	broad.mit.edu	37	chr12	52981525	52981525	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agcatccgtgccagctcctcCttggcctggtgcagggcgcc	13	16	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:52981525C>A	uc001sar.2	-	7	1286	c.1200G>T	c.(1198-1200)AAG>AAT	p.K400N	KRT72_uc001saq.2_Missense_Mutation_p.K400N|KRT72_uc010sns.1_Missense_Mutation_p.K358N|KRT72_uc010snt.1_Missense_Mutation_p.K212N	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	400	Coil 2.|Rod.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		CCAGCTCCTCCTTGGCCTGGT	0.662													4	102	---	---	---	---	PASS	A	52981525	A	A	52981525	3	1	41	1	0	0	0	0	1	0	0	0	8485	680	24	3	347	3	KRT72	12	52981525	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	220375	52981525	80870370	433	16042										
NEUROD4	58158	broad.mit.edu	37	chr12	55420434	55420434	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gggagaaacctaagagaaggGgtcccaagaaaaagaagatg	14	5	0	5			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:55420434G>T	uc001sgp.3	+	2	589	c.211G>T	c.(211-213)GGT>TGT	p.G71C		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	71					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						TAAGAGAAGGGGTCCCAAGAA	0.433													28	47	---	---	---	---	PASS	T	55420434	T	T	55420434	3	4	41	1	0	0	0	0	1	0	0	0	10350	1232	43	3	213	3	NEUROD4	12	55420434	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2438909	55420434	78431461	434	16043										
PAN2	9924	broad.mit.edu	37	chr12	56716415	56716415	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcacctccttgcgctggtggTaggtctctccaactttgatg	10	12	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:56716415T>A	uc001skx.2	-	18	3006	c.2633A>T	c.(2632-2634)TAC>TTC	p.Y878F	PAN2_uc001skw.2_Missense_Mutation_p.Y26F|PAN2_uc001skz.2_Missense_Mutation_p.Y877F|PAN2_uc001sky.2_Missense_Mutation_p.Y874F	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	878					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						GCGCTGGTGGTAGGTCTCTCC	0.557													28	72	---	---	---	---	PASS	A	56716415	A	A	56716415	3	1	41	1	0	0	0	0	1	0	0	0	11414	1638	57	5	1011	5	PAN2	12	56716415	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	1295981	56716415	77135480	435	16044										
SRGAP1	57522	broad.mit.edu	37	chr12	64491063	64491063	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccagagtaaccatgatattaActcagttgctggcgttctga	9	9	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:64491063A>G	uc010ssp.1	+	15	1777	c.1721A>G	c.(1720-1722)AAC>AGC	p.N574S	SRGAP1_uc001srv.2_Missense_Mutation_p.N511S	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	574	Rho-GAP.				axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		CATGATATTAACTCAGTTGCT	0.368													62	88	---	---	---	---	PASS	G	64491063	G	G	64491063	3	3	41	1	0	0	0	0	1	0	0	0	15144	43	2	5	1779	5	SRGAP1	12	64491063	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	7774648	64491063	69360832	436	16045										
PTPRB	5787	broad.mit.edu	37	chr12	70925933	70925933	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccaatgcaataaaggttccaGtcctacccacaccagcacta	5	15	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:70925933G>T	uc001swb.3	-	30	5762	c.5732C>A	c.(5731-5733)ACT>AAT	p.T1911N	uc001svz.2_Intron|PTPRB_uc010sto.1_Missense_Mutation_p.T1821N|PTPRB_uc010stp.1_Missense_Mutation_p.T1821N|PTPRB_uc001swc.3_Missense_Mutation_p.T2129N|PTPRB_uc001swa.3_Missense_Mutation_p.T2041N	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1911	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			AAAGGTTCCAGTCCTACCCAC	0.443													32	57	---	---	---	---	PASS	T	70925933	T	T	70925933	3	4	41	1	0	0	0	0	1	0	0	0	12796	1029	36	3	273	3	PTPRB	12	70925933	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6434870	70925933	62925962	437	16046										
NAV3	89795	broad.mit.edu	37	chr12	78569142	78569142	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tttctagtatcaacagtgccAcaagccattccagtattggc	7	11	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:78569142A>T	uc001syp.2	+	25	5211	c.5038A>T	c.(5038-5040)ACA>TCA	p.T1680S	NAV3_uc001syo.2_Missense_Mutation_p.T1680S|NAV3_uc010sub.1_Missense_Mutation_p.T1166S|NAV3_uc009zsf.2_Missense_Mutation_p.T511S	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1680						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CAACAGTGCCACAAGCCATTC	0.423										HNSCC(70;0.22)			29	72	---	---	---	---	PASS	T	78569142	T	T	78569142	3	4	41	1	0	0	0	0	1	0	0	0	10185	159	6	5	5136	5	NAV3	12	78569142	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	7643209	78569142	55282753	438	16047										
LRRIQ1	84125	broad.mit.edu	37	chr12	85459184	85459184	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtaaaaaacttaagtacattGatgcacaggtatgctctctg	8	7	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:85459184G>A	uc001tac.2	+	9	2647	c.2536G>A	c.(2536-2538)GAT>AAT	p.D846N	LRRIQ1_uc001tab.1_Missense_Mutation_p.D846N	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	846	LRR 2.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		TAAGTACATTGATGCACAGGT	0.338													48	113	---	---	---	---	PASS	A	85459184	A	A	85459184	3	1	41	1	0	0	0	0	1	0	0	0	9029	1290	45	2	2566	2	LRRIQ1	12	85459184	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6890042	85459184	48392711	439	16048										
LRRIQ1	84125	broad.mit.edu	37	chr12	85515541	85515541	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aatatactaaactctaattcAgaaagccgcactgaagaaca	5	9	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:85515541A>T	uc001tac.2	+	16	3555	c.3444A>T	c.(3442-3444)TCA>TCT	p.S1148S	LRRIQ1_uc001tab.1_Silent_p.S1148S	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1148	LRRCT.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		ACTCTAATTCAGAAAGCCGCA	0.368													35	89	---	---	---	---	PASS	T	85515541	T	T	85515541	2	4	41	1	0	0	0	0	0	0	0	1	9029	175	7	5		5	LRRIQ1	12	85515541	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	56357	85515541	48336354	440	16049										
ALX1	8092	broad.mit.edu	37	chr12	85674243	85674243	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacgtgcgcttggagaggacCtcgccctgtcaggacagcag	14	13	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:85674243C>A	uc001tae.3	+	1	208	c.204C>A	c.(202-204)ACC>ACA	p.T68T		NM_006982	NP_008913	Q15699	ALX1_HUMAN	cartilage paired-class homeoprotein 1	68					brain development|cartilage condensation|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(134;0.134)		TGGAGAGGACCTCGCCCTGTC	0.637													24	32	---	---	---	---	PASS	A	85674243	A	A	85674243	2	1	41	1	0	0	0	0	0	0	0	1	556	668	24	3		3	ALX1	12	85674243	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	158702	85674243	48177652	441	16050										
DUSP6	1848	broad.mit.edu	37	chr12	89744393	89744393	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaaatggcctcagggaaaaaCtgggacaggttttggctcca	13	8	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:89744393C>G	uc001tay.2	-	2	1290	c.810G>C	c.(808-810)CAG>CAC	p.Q270H	DUSP6_uc001taz.2_Intron	NM_001946	NP_001937	Q16828	DUS6_HUMAN	dual specificity phosphatase 6 isoform a	270	Tyrosine-protein phosphatase.				dorsal/ventral pattern formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|nerve growth factor receptor signaling pathway|positive regulation of apoptosis|regulation of endodermal cell fate specification|regulation of fibroblast growth factor receptor signaling pathway|regulation of heart growth|response to nitrosative stress|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|nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0						CAGGGAAAAACTGGGACAGGT	0.428													3	141	---	---	---	---	PASS	G	89744393	G	G	89744393	3	3	41	1	0	0	0	0	1	0	0	0	4829	564	20	4	343	4	DUSP6	12	89744393	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4070150	89744393	44107502	442	16051										
APAF1	317	broad.mit.edu	37	chr12	99042501	99042501	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caatgctctactacatgaagGatataaagatcttgctgccc	7	10	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:99042501G>T	uc001tfz.2	+	3	813	c.236G>T	c.(235-237)GGA>GTA	p.G79V	APAF1_uc001tfy.2_Missense_Mutation_p.G79V|APAF1_uc001tga.2_Missense_Mutation_p.G79V|APAF1_uc001tgb.2_Missense_Mutation_p.G79V|APAF1_uc001tgc.2_Missense_Mutation_p.G79V	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	79	CARD.				activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	CTACATGAAGGATATAAAGAT	0.373													52	166	---	---	---	---	PASS	T	99042501	T	T	99042501	3	4	41	1	0	0	0	0	1	0	0	0	755	1174	41	2	242	2	APAF1	12	99042501	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	9298108	99042501	34809394	443	16052										
ANKS1B	56899	broad.mit.edu	37	chr12	100377981	100377981	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccagagccacatttccagtgCgagcagcttccagcagctcc	9	16	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:100377981C>A	uc001tge.1	-	1	452	c.35G>T	c.(34-36)CGC>CTC	p.R12L	ANKS1B_uc001tgf.1_5'UTR|ANKS1B_uc009ztt.1_Missense_Mutation_p.R12L	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	12	ANK 1.					Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		ATTTCCAGTGCGAGCAGCTTC	0.632													18	40	---	---	---	---	PASS	A	100377981	A	A	100377981	3	1	41	1	0	0	0	0	1	0	0	0	689	768	27	1	4103	1	ANKS1B	12	100377981	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1335480	100377981	33473914	444	16053										
SLC17A8	246213	broad.mit.edu	37	chr12	100774486	100774486	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttttcccatgtagaaaaatcGatgggacaactgaggaagaa	10	6	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:100774486G>T	uc010svi.1	+	2	422	c.109G>T	c.(109-111)GAT>TAT	p.D37Y	SLC17A8_uc009ztx.2_Missense_Mutation_p.D37Y	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	37	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						TAGAAAAATCGATGGGACAAC	0.448													56	168	---	---	---	---	PASS	T	100774486	T	T	100774486	3	4	41	1	0	0	0	0	1	0	0	0	14423	1058	37	2	115	2	SLC17A8	12	100774486	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	396505	100774486	33077409	445	16054										
SLC17A8	246213	broad.mit.edu	37	chr12	100797919	100797919	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagacaaattttaaccacaaCtgctgtcagaaaaatcatga	5	9	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:100797919C>T	uc010svi.1	+	9	1470	c.1157C>T	c.(1156-1158)ACT>ATT	p.T386I	SLC17A8_uc009ztx.2_Missense_Mutation_p.T336I	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	386	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						TTAACCACAACTGCTGTCAGA	0.403													20	66	---	---	---	---	PASS	T	100797919	T	T	100797919	3	4	41	1	0	0	0	0	1	0	0	0	14423	565	20	3	1191	3	SLC17A8	12	100797919	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	23433	100797919	33053976	446	16055										
HCFC2	29915	broad.mit.edu	37	chr12	104476606	104476606	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggcactcgattgtatttttgGagtggaagagatggctacaa	13	5	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:104476606G>T	uc001tkj.3	+	7	1093	c.990G>T	c.(988-990)TGG>TGT	p.W330C	HCFC2_uc009zul.2_RNA	NM_013320	NP_037452	Q9Y5Z7	HCFC2_HUMAN	host cell factor C2	330					regulation of transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus	transcription coactivator activity			ovary(2)|central_nervous_system(1)	3						TGTATTTTTGGAGTGGAAGAG	0.393													51	107	---	---	---	---	PASS	T	104476606	T	T	104476606	3	4	41	1	0	0	0	0	1	0	0	0	6993	1183	41	2	1016	2	HCFC2	12	104476606	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	3678687	104476606	29375289	447	16056										
ASCL4	121549	broad.mit.edu	37	chr12	108169133	108169133	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgcgtctggacgccgcgtgCtgggagtgggcgcgcagcgg	20	12	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:108169133C>A	uc001tmr.2	+	1	972	c.141C>A	c.(139-141)TGC>TGA	p.C47*		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	46					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						ACGCCGCGTGCTGGGAGTGGG	0.746													10	19	---	---	---	---	PASS	A	108169133	A	A	108169133	4	1	41	1	0	0	0	0	0	1	0	0	1036	805	28	3	143	3	ASCL4	12	108169133	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3692527	108169133	25682762	448	16057										
RASAL1	8437	broad.mit.edu	37	chr12	113546027	113546027	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gatggccaggtacttcacatCctgctgggaggagcagaagg	15	9	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:113546027C>G	uc001tum.1	-	15	1668	c.1375G>C	c.(1375-1377)GAT>CAT	p.D459H	RASAL1_uc010syp.1_Missense_Mutation_p.D459H|RASAL1_uc001tul.2_Missense_Mutation_p.D459H|RASAL1_uc001tun.1_Missense_Mutation_p.D460H|RASAL1_uc010syq.1_Missense_Mutation_p.D459H|RASAL1_uc001tuo.3_Missense_Mutation_p.D459H|RASAL1_uc010syr.1_Missense_Mutation_p.D459H	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	459	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						TACTTCACATCCTGCTGGGAG	0.532													3	20	---	---	---	---	PASS	G	113546027	G	G	113546027	3	3	41	1	0	0	0	0	1	0	0	0	13063	869	30	2	1071	2	RASAL1	12	113546027	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	5376894	113546027	20305868	449	16058										
RASAL1	8437	broad.mit.edu	37	chr12	113557020	113557020	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcacctggcatctcccgcagCtccagcacttcatcccagtg	8	18	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:113557020C>A	uc001tum.1	-	8	848	c.555G>T	c.(553-555)GAG>GAT	p.E185D	RASAL1_uc010syp.1_Missense_Mutation_p.E185D|RASAL1_uc001tul.2_Missense_Mutation_p.E185D|RASAL1_uc001tun.1_Missense_Mutation_p.E185D|RASAL1_uc010syq.1_Missense_Mutation_p.E185D|RASAL1_uc001tuo.3_Missense_Mutation_p.E185D|RASAL1_uc010syr.1_Missense_Mutation_p.E185D	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	185	C2 2.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						TCTCCCGCAGCTCCAGCACTT	0.612													24	65	---	---	---	---	PASS	A	113557020	A	A	113557020	3	1	41	1	0	0	0	0	1	0	0	0	13063	796	28	3	1919	3	RASAL1	12	113557020	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	10993	113557020	20294875	450	16059										
TMEM132D	121256	broad.mit.edu	37	chr12	129563197	129563197	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccagctgcaccccgaggtctGtgatggtcaccttctcgtcc	10	16	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:129563197G>A	uc009zyl.1	-	8	2325	c.1997C>T	c.(1996-1998)ACA>ATA	p.T666I	TMEM132D_uc001uia.2_Missense_Mutation_p.T204I	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	666	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		CCCGAGGTCTGTGATGGTCAC	0.572													33	90	---	---	---	---	PASS	A	129563197	A	A	129563197	3	1	41	1	0	0	0	0	1	0	0	0	16044	1377	48	3	1310	3	TMEM132D	12	129563197	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	16006177	129563197	4288698	451	16060										
MMP17	4326	broad.mit.edu	37	chr12	132335568	132335568	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agtccacggcccgggactggCtggtgtgtggagactcacag	16	11	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr12:132335568C>A	uc001ujc.1	+	10	1660	c.1561C>A	c.(1561-1563)CTG>ATG	p.L521M	MMP17_uc001ujd.1_Missense_Mutation_p.L437M	NM_016155	NP_057239	Q9ULZ9	MMP17_HUMAN	matrix metalloproteinase 17 preproprotein	521	Hemopexin-like 4.				proteolysis	anchored to membrane|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.82e-07)|Epithelial(86;1.51e-06)|all cancers(50;2.35e-05)		CCGGGACTGGCTGGTGTGTGG	0.672													3	15	---	---	---	---	PASS	A	132335568	A	A	132335568	3	1	41	1	0	0	0	0	1	0	0	0	9656	796	28	3	1599	3	MMP17	12	132335568	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2772371	132335568	1516327	452	16061										
TUBA3C	7278	broad.mit.edu	37	chr13	19751540	19751540	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggcacagtcagaatgttccaGggtcgtgtgggtggtcagga	17	7	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:19751540G>T	uc009zzj.2	-	4	632	c.583C>A	c.(583-585)CTG>ATG	p.L195M		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	195					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		GAATGTTCCAGGGTCGTGTGG	0.557													76	111	---	---	---	---	PASS	T	19751540	T	T	19751540	3	4	41	1	0	0	0	0	1	0	0	0	16743	991	35	3	777	3	TUBA3C	13	19751540	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08		19751540	95418338	453	16062										
SACS	26278	broad.mit.edu	37	chr13	23929996	23929996	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccttggtgcttccaaaaatgCcaacaaatggtgcaaactgg	9	10	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:23929996C>A	uc001uon.2	-	8	1344	c.755G>T	c.(754-756)GGC>GTC	p.G252V	SACS_uc001uoo.2_Missense_Mutation_p.G105V|SACS_uc001uop.1_Missense_Mutation_p.G39V|SACS_uc001uoq.1_Missense_Mutation_p.G105V	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	252					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TCCAAAAATGCCAACAAATGG	0.398													47	97	---	---	---	---	PASS	A	23929996	A	A	23929996	3	1	41	1	0	0	0	0	1	0	0	0	13804	739	26	3	12996	3	SACS	13	23929996	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4178456	23929996	91239882	454	16063										
MIPEP	4285	broad.mit.edu	37	chr13	24304513	24304513	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agaatccatgaggaaagtttCgaagtccagatccaagtcgg	11	8	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:24304513C>T	uc001uox.3	-	19	2216	c.2116G>A	c.(2116-2118)GAA>AAA	p.E706K		NM_005932	NP_005923	Q99797	MIPEP_HUMAN	mitochondrial intermediate peptidase precursor	706					protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)		AGGAAAGTTTCGAAGTCCAGA	0.413													18	37	---	---	---	---	PASS	T	24304513	T	T	24304513	3	4	41	1	0	0	0	0	1	0	0	0	9592	893	31	2	29	2	MIPEP	13	24304513	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	374517	24304513	90865365	455	16064										
ATP12A	479	broad.mit.edu	37	chr13	25264605	25264605	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gggtgctgtcttctcaggggTgtcgggtaagcggcaagggg	20	7	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:25264605T>G	uc001upp.2	+	6	863	c.676T>G	c.(676-678)TGT>GGT	p.C226G	ATP12A_uc010aaa.2_Missense_Mutation_p.C226G	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	226	Cytoplasmic (Potential).			Missing (in Ref. 7; CAA49477).	ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	TTCTCAGGGGTGTCGGGTAAG	0.572													70	85	---	---	---	---	PASS	G	25264605	G	G	25264605	3	3	41	1	0	0	0	0	1	0	0	0	1122	1696	59	5	698	5	ATP12A	13	25264605	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	960092	25264605	89905273	456	16065										
ATP12A	479	broad.mit.edu	37	chr13	25284659	25284659	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggctttctttgttggcatccTagtccagcaaatagcagatc	9	10	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:25284659T>C	uc001upp.2	+	20	3012	c.2825T>C	c.(2824-2826)CTA>CCA	p.L942P	ATP12A_uc010aaa.2_Missense_Mutation_p.L948P	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	942	Helical; (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	gttggcatcctagtccagcaa	0.423													80	121	---	---	---	---	PASS	C	25284659	C	C	25284659	3	2	41	1	0	0	0	0	1	0	0	0	1122	1522	53	5	2921	5	ATP12A	13	25284659	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	20054	25284659	89885219	457	16066										
FRY	10129	broad.mit.edu	37	chr13	32752551	32752551	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccttcactcggctccagtcgGtgatgcctctggtggaccca	11	15	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:32752551G>T	uc001utx.2	+	21	3155	c.2659G>T	c.(2659-2661)GTG>TTG	p.V887L	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	887					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		GCTCCAGTCGGTGATGCCTCT	0.507													69	215	---	---	---	---	PASS	T	32752551	T	T	32752551	3	4	41	1	0	0	0	0	1	0	0	0	6063	1261	44	3	2741	3	FRY	13	32752551	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	7467892	32752551	82417327	458	16067										
FRY	10129	broad.mit.edu	37	chr13	32798403	32798403	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tctccctacacgggctggttGctgactattacagagaccaa	9	12	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:32798403G>C	uc001utx.2	+	37	5293	c.4797G>C	c.(4795-4797)TTG>TTC	p.L1599F	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1599					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CGGGCTGGTTGCTGACTATTA	0.512													66	80	---	---	---	---	PASS	C	32798403	C	C	32798403	3	2	41	1	0	0	0	0	1	0	0	0	6063	1310	46	4	4943	4	FRY	13	32798403	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	45852	32798403	82371475	459	16068										
FRY	10129	broad.mit.edu	37	chr13	32813445	32813445	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgattcagcattttgaaaatCccaatcagttctgtaaggat	7	7	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:32813445C>A	uc001utx.2	+	45	6971	c.6475C>A	c.(6475-6477)CCC>ACC	p.P2159T	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2159					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		TTTTGAAAATCCCAATCAGTT	0.443													45	165	---	---	---	---	PASS	A	32813445	A	A	32813445	3	1	41	1	0	0	0	0	1	0	0	0	6063	855	30	2	6653	2	FRY	13	32813445	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	15042	32813445	82356433	460	16069										
BRCA2	675	broad.mit.edu	37	chr13	32912926	32912926	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aagaacaaaatggacattctAagttatgaggaaacagacat	8	5	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:32912926A>G	uc001uub.1	+	11	4661	c.4434A>G	c.(4432-4434)CTA>CTG	p.L1478L		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1478					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TGGACATTCTAAGTTATGAGG	0.338			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			95	106	---	---	---	---	PASS	G	32912926	G	G	32912926	2	3	41	1	0	0	0	0	0	0	0	1	1499	349	13	5		5	BRCA2	13	32912926	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	99481	32912926	82256952	461	16070										
NBEA	26960	broad.mit.edu	37	chr13	35770090	35770090	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tagaaagttcaattccccatAcagattcaggaattggagag	9	7	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:35770090A>G	uc001uvb.2	+	31	5223	c.5017A>G	c.(5017-5019)ACA>GCA	p.T1673A	NBEA_uc010abi.2_Missense_Mutation_p.T329A	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1673						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		AATTCCCCATACAGATTCAGG	0.428													35	68	---	---	---	---	PASS	G	35770090	G	G	35770090	3	3	41	1	0	0	0	0	1	0	0	0	10187	391	14	5	5139	5	NBEA	13	35770090	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	2857164	35770090	79399788	462	16071										
C13orf23	80209	broad.mit.edu	37	chr13	39603500	39603500	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaccacttctgttggctggaCagccaccattttctgttgat	9	11	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:39603500C>G	uc001uwy.2	-	4	1066	c.193G>C	c.(193-195)GTC>CTC	p.V65L	C13orf23_uc001uwz.2_Missense_Mutation_p.V43L	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	65										ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		GTTGGCTGGACAGCCACCATT	0.313													14	106	---	---	---	---	PASS	G	39603500	G	G	39603500	3	3	41	1	0	0	0	0	1	0	0	0	1721	478	17	4	2681	4	C13orf23	13	39603500	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3833410	39603500	75566378	463	16072										
NEK5	341676	broad.mit.edu	37	chr13	52657401	52657401	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	catagccatcattacctgcaCaggtgcttctccctcagatg	7	14	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:52657401C>A	uc001vge.2	-	17	1707	c.1567G>T	c.(1567-1569)GTG>TTG	p.V523L		NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	523							ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		ATTACCTGCACAGGTGCTTCT	0.343													11	78	---	---	---	---	PASS	A	52657401	A	A	52657401	3	1	41	1	0	0	0	0	1	0	0	0	10327	478	17	3	583	3	NEK5	13	52657401	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	13053901	52657401	62512477	464	16073										
OLFM4	10562	broad.mit.edu	37	chr13	53603017	53603017	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tagcccttctgttcttccttGgccaagctgcaggggatttg	11	11	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:53603017G>T	uc001vhl.2	+	1	46	c.46G>T	c.(46-48)GGC>TGC	p.G16C	OLFM4_uc001vhk.1_Missense_Mutation_p.G16C	NM_006418	NP_006409	Q6UX06	OLFM4_HUMAN	olfactomedin 4 precursor	16					cell adhesion	extracellular space				skin(1)	1		Breast(56;0.000776)|Lung NSC(96;0.000814)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.13e-08)		GTTCTTCCTTGGCCAAGCTGC	0.512													83	159	---	---	---	---	PASS	T	53603017	T	T	53603017	3	4	41	1	0	0	0	0	1	0	0	0	10855	1348	47	3	48	3	OLFM4	13	53603017	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	945616	53603017	61566861	465	16074										
PCDH9	5101	broad.mit.edu	37	chr13	67477735	67477735	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcacttttgctgtgtgagttAcactgaaagagattaccaaa	8	7	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:67477735A>G	uc001vik.2	-	3	3731	c.3039T>C	c.(3037-3039)TGT>TGC	p.C1013C	PCDH9_uc010aei.2_RNA|PCDH9_uc001vil.2_Intron|PCDH9_uc010thl.1_Silent_p.C1013C	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	1013	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		TGTGTGAGTTACACTGAAAGA	0.418													32	29	---	---	---	---	PASS	G	67477735	G	G	67477735	2	3	41	1	0	0	0	0	0	0	0	1	11518	389	14	5		5	PCDH9	13	67477735	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	13874718	67477735	47692143	466	16075										
ZIC2	7546	broad.mit.edu	37	chr13	100637597	100637597	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtccatgagtcctccccgcaGggctctgaatcctccccggc	10	18	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:100637597G>A	uc001von.2	+	3	1260	c.1260G>A	c.(1258-1260)CAG>CAA	p.Q420Q		NM_007129	NP_009060	O95409	ZIC2_HUMAN	zinc finger protein of the cerebellum 2	420					brain development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|visual perception	cytoplasm|nucleus	chromatin DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CCTCCCCGCAGGGCTCTGAAT	0.706													9	25	---	---	---	---	PASS	A	100637597	A	A	100637597	2	1	41	1	0	0	0	0	0	0	0	1	17676	991	35	3		3	ZIC2	13	100637597	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	33159862	100637597	14532281	467	16076										
COL4A2	1284	broad.mit.edu	37	chr13	111117775	111117775	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gatggcatcaagggccctccAggggacccaggctatccagg	14	13	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:111117775A>G	uc001vqx.2	+	25	2089	c.1800A>G	c.(1798-1800)CCA>CCG	p.P600P		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	600	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			AGGGCCCTCCAGGGGACCCAG	0.512													52	80	---	---	---	---	PASS	G	111117775	G	G	111117775	2	3	41	1	0	0	0	0	0	0	0	1	3690	175	7	5		5	COL4A2	13	111117775	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	10480178	111117775	4052103	468	16077										
TFDP1	7027	broad.mit.edu	37	chr13	114287509	114287509	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaaggtctgcgagaaggtgcAgaggaaagggaccacttcct	15	8	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr13:114287509A>C	uc001vtw.2	+	6	595	c.383A>C	c.(382-384)CAG>CCG	p.Q128P	TFDP1_uc010tkd.1_Missense_Mutation_p.Q33P|TFDP1_uc010tke.1_Missense_Mutation_p.Q33P|TFDP1_uc001vty.3_Missense_Mutation_p.Q128P|TFDP1_uc001vtx.2_Missense_Mutation_p.Q8P|TFDP1_uc010agx.2_Missense_Mutation_p.Q128P	NM_007111	NP_009042	Q14186	TFDP1_HUMAN	transcription factor Dp-1	128	Potential.				cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|regulation of transcription from RNA polymerase II promoter	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			lung(4)|ovary(2)|skin(1)	7	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.132)|all_epithelial(44;0.0731)|all_lung(25;0.149)|Breast(118;0.153)	all cancers(43;0.0576)			GAGAAGGTGCAGAGGAAAGGG	0.502										TSP Lung(29;0.18)			11	57	---	---	---	---	PASS	C	114287509	C	C	114287509	3	2	41	1	0	0	0	0	1	0	0	0	15794	188	7	5	401	5	TFDP1	13	114287509	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	3169734	114287509	882369	469	16078										
OR4K15	81127	broad.mit.edu	37	chr14	20444091	20444091	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	actggcagtgaaatggtgctCctagtttccatggcctatga	11	9	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:20444091C>T	uc010tkx.1	+	1	414	c.414C>T	c.(412-414)CTC>CTT	p.L138L		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	138	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AAATGGTGCTCCTAGTTTCCA	0.458													56	167	---	---	---	---	PASS	T	20444091	T	T	20444091	2	4	41	1	0	0	0	0	0	0	0	1	11070	842	30	2		2	OR4K15	14	20444091	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08		20444091	86905449	470	16079										
TTC5	91875	broad.mit.edu	37	chr14	20770004	20770004	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gctcatacccactacttcttCcatctgctgtagggttttct	6	13	4	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:20770004C>G	uc001vwt.2	-	2	229	c.172G>C	c.(172-174)GAA>CAA	p.E58Q	TTC5_uc001vwu.2_5'UTR	NM_138376	NP_612385	Q8N0Z6	TTC5_HUMAN	tetratricopeptide repeat domain 5	58					DNA repair	cytoplasm|nucleus	binding			ovary(1)	1	all_cancers(95;0.00092)		Epithelial(56;1.1e-06)|all cancers(55;8.07e-06)	GBM - Glioblastoma multiforme(265;0.0106)		ACTACTTCTTCCATCTGCTGT	0.468													22	88	---	---	---	---	PASS	G	20770004	G	G	20770004	3	3	41	1	0	0	0	0	1	0	0	0	16708	864	30	2	1186	2	TTC5	14	20770004	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	325913	20770004	86579536	471	16080										
OR10G3	26533	broad.mit.edu	37	chr14	22038500	22038500	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcgcaggggctgacatattgCcaggtacctgtcataggcca	13	11	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:22038500C>T	uc010tmb.1	-	1	376	c.376G>A	c.(376-378)GCA>ACA	p.A126T		NM_001005465	NP_001005465	Q8NGC4	O10G3_HUMAN	olfactory receptor, family 10, subfamily G,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|central_nervous_system(1)	2	all_cancers(95;0.000987)			GBM - Glioblastoma multiforme(265;0.0139)		TGACATATTGCCAGGTACCTG	0.552													10	45	---	---	---	---	PASS	T	22038500	T	T	22038500	3	4	41	1	0	0	0	0	1	0	0	0	10900	739	26	3	568	3	OR10G3	14	22038500	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1268496	22038500	85311040	472	16081										
DHRS2	10202	broad.mit.edu	37	chr14	24108548	24108548	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tggggaaggctgaggaccggGagcagctggtggccaaggtg	21	7	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:24108548G>A	uc001wkt.3	+	3	748	c.301G>A	c.(301-303)GAG>AAG	p.E101K	DHRS2_uc010aku.1_Missense_Mutation_p.E101K|DHRS2_uc001wku.3_Missense_Mutation_p.E101K|DHRS2_uc010akv.2_RNA|DHRS2_uc001wkv.3_Missense_Mutation_p.E101K	NM_182908	NP_878912	Q13268	DHRS2_HUMAN	dehydrogenase/reductase member 2 isoform 1	79					C21-steroid hormone metabolic process|cellular response to oxidative stress|myeloid dendritic cell differentiation|negative regulation of apoptosis|negative regulation of cell proliferation|response to toxin	mitochondrion|nuclear envelope	binding|carbonyl reductase (NADPH) activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00659)		TGAGGACCGGGAGCAGCTGGT	0.657													19	26	---	---	---	---	PASS	A	24108548	A	A	24108548	3	1	41	1	0	0	0	0	1	0	0	0	4490	1175	41	2	307	2	DHRS2	14	24108548	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2070048	24108548	83240992	473	16082										
DHRS2	10202	broad.mit.edu	37	chr14	24113371	24113371	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcagcttataatccagtagtGgtaagtgcttggtccttgtg	12	7	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:24113371G>T	uc001wkt.3	+	6	987	c.540G>T	c.(538-540)GTG>GTT	p.V180V	DHRS2_uc001wku.3_Silent_p.V180V|DHRS2_uc010akv.2_RNA|DHRS2_uc001wkv.3_Silent_p.V180V	NM_182908	NP_878912	Q13268	DHRS2_HUMAN	dehydrogenase/reductase member 2 isoform 1	158					C21-steroid hormone metabolic process|cellular response to oxidative stress|myeloid dendritic cell differentiation|negative regulation of apoptosis|negative regulation of cell proliferation|response to toxin	mitochondrion|nuclear envelope	binding|carbonyl reductase (NADPH) activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00659)		ATCCAGTAGTGGTAAGTGCTT	0.498													45	105	---	---	---	---	PASS	T	24113371	T	T	24113371	2	4	41	1	0	0	0	0	0	0	0	1	4490	1362	47	3		3	DHRS2	14	24113371	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	4823	24113371	83236169	474	16083										
NOVA1	4857	broad.mit.edu	37	chr14	26917820	26917820	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cgccagcaaggttagcatgtCctaatagccctgcagctgct	10	13	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:26917820C>A	uc001wpy.2	-	5	1187	c.869G>T	c.(868-870)GGA>GTA	p.G290V	NOVA1_uc001wpz.2_Missense_Mutation_p.G266V|NOVA1_uc001wqa.2_Missense_Mutation_p.G168V	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	293	Ala-rich.				locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		GTTAGCATGTCCTAATAGCCC	0.498													14	71	---	---	---	---	PASS	A	26917820	A	A	26917820	3	1	41	1	0	0	0	0	1	0	0	0	10554	855	30	2	658	2	NOVA1	14	26917820	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2804449	26917820	80431720	475	16084										
PRKD1	5587	broad.mit.edu	37	chr14	30194873	30194873	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acattccgtagaaaccacatTcagggaactgcaaatacaaa	6	10	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:30194873T>G	uc001wqh.2	-	2	453	c.272A>C	c.(271-273)GAA>GCA	p.E91A		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	91					cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		GAAACCACATTCAGGGAACTG	0.383													3	86	---	---	---	---	PASS	G	30194873	G	G	30194873	3	3	41	1	0	0	0	0	1	0	0	0	12518	1783	62	5	2534	5	PRKD1	14	30194873	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	3277053	30194873	77154667	476	16085										
CLEC14A	161198	broad.mit.edu	37	chr14	38724223	38724223	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gatgttactgaattgtcttgTtcagggacaagtggtgtctc	12	6	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:38724223T>G	uc001wum.1	-	1	1352	c.1005A>C	c.(1003-1005)GAA>GAC	p.E335D		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	335	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)		AATTGTCTTGTTCAGGGACAA	0.562													20	92	---	---	---	---	PASS	G	38724223	G	G	38724223	3	3	41	1	0	0	0	0	1	0	0	0	3499	1722	60	5	471	5	CLEC14A	14	38724223	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	8529350	38724223	68625317	477	16086										
PNN	5411	broad.mit.edu	37	chr14	39650827	39650827	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agaagtcggagtaggggccgGggacataatagagatagaaa	16	4	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:39650827G>T	uc001wuw.3	+	9	2011	c.1914G>T	c.(1912-1914)CGG>CGT	p.R638R		NM_002687	NP_002678	Q9H307	PININ_HUMAN	pinin, desmosome associated protein	638	Ser-rich.|Arg-rich.|Necessary for interaction with PPIG.				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)		GTAGGGGCCGGGGACATAATA	0.294													19	54	---	---	---	---	PASS	T	39650827	T	T	39650827	2	4	41	1	0	0	0	0	0	0	0	1	12160	1219	43	3		3	PNN	14	39650827	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	926604	39650827	67698713	478	16087										
KTN1	3895	broad.mit.edu	37	chr14	56146364	56146364	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agttgcttcaggcggtaaacCaacagctcacaaaggagaaa	10	9	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:56146364C>A	uc001xcb.2	+	44	4332	c.4030C>A	c.(4030-4032)CAA>AAA	p.Q1344K	KTN1_uc001xce.2_Missense_Mutation_p.Q1287K|KTN1_uc001xcc.2_Missense_Mutation_p.Q1344K|KTN1_uc001xcd.2_Missense_Mutation_p.Q1293K|KTN1_uc010trb.1_Missense_Mutation_p.Q1316K|KTN1_uc001xcf.1_Missense_Mutation_p.Q1293K|KTN1_uc010aoq.2_Missense_Mutation_p.Q582K|KTN1_uc010trc.1_Missense_Mutation_p.Q321K|KTN1_uc001xcg.2_Missense_Mutation_p.Q277K	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	1344	Lumenal (Potential).|Potential.				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						GGCGGTAAACCAACAGCTCAC	0.408			T	RET	papillary thryoid								42	82	---	---	---	---	PASS	A	56146364	A	A	56146364	3	1	41	1	0	0	0	0	1	0	0	0	8585	595	21	3	4196	3	KTN1	14	56146364	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	16495537	56146364	51203176	479	16088										
ACTR10	55860	broad.mit.edu	37	chr14	58701178	58701178	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gggccgtatacctgattggtGttctctcaataacccacctt	8	12	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:58701178G>A	uc001xdf.2	+	13	1266	c.1163G>A	c.(1162-1164)TGT>TAT	p.C388Y	C14orf37_uc010tro.1_Intron|ACTR10_uc001xdg.2_Missense_Mutation_p.C190Y|ACTR10_uc001xdh.2_Missense_Mutation_p.C190Y|ACTR10_uc010trp.1_RNA|ACTR10_uc010apc.2_Missense_Mutation_p.C178Y	NM_018477	NP_060947	Q9NZ32	ARP10_HUMAN	uncharacterized hypothalamus protein HARP11	388						cytoplasm				central_nervous_system(1)	1						CCTGATTGGTGTTCTCTCAAT	0.408													32	133	---	---	---	---	PASS	A	58701178	A	A	58701178	3	1	41	1	0	0	0	0	1	0	0	0	208	1377	48	3	1213	3	ACTR10	14	58701178	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2554814	58701178	48648362	480	16089										
SIX1	6495	broad.mit.edu	37	chr14	61113136	61113136	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaatagtttgagctcctggcGtggcccatattgccctgcag	12	11	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:61113136G>A	uc001xfb.3	-	2	968	c.720C>T	c.(718-720)CAC>CAT	p.H240H		NM_005982	NP_005973	Q15475	SIX1_HUMAN	SIX homeobox 1	240					branching involved in ureteric bud morphogenesis|embryonic cranial skeleton morphogenesis|epithelial cell differentiation|inner ear morphogenesis|mesonephric tubule formation|metanephric mesenchyme development|myoblast migration|negative regulation of neuron apoptosis|organ induction|pattern specification process|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|protein localization to nucleus|regulation of branch elongation involved in ureteric bud branching|regulation of neuron differentiation|skeletal muscle tissue development|thymus development|thyroid gland development	nucleolus|transcription factor complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.0201)		AGCTCCTGGCGTGGCCCATAT	0.597													38	81	---	---	---	---	PASS	A	61113136	A	A	61113136	2	1	41	1	0	0	0	0	0	0	0	1	14346	1136	40	1		1	SIX1	14	61113136	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	2411958	61113136	46236404	481	16090										
GPHB5	122876	broad.mit.edu	37	chr14	63779814	63779814	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gatgggcttcaatataggggGgttccagaatgggtttctgt	15	5	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:63779814G>C	uc010apu.2	-	3	220	c.220C>G	c.(220-222)CCC>GCC	p.P74A	GPHB5_uc001xgc.2_Missense_Mutation_p.P64A	NM_145171	NP_660154	Q86YW7	GPHB5_HUMAN	glycoprotein beta 5	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						extracellular region	hormone activity			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00372)|all cancers(60;0.0226)|BRCA - Breast invasive adenocarcinoma(234;0.0978)		AATATAGGGGGGTTCCAGAAT	0.388													5	7	---	---	---	---	PASS	C	63779814	C	C	63779814	3	2	41	1	0	0	0	0	1	0	0	0	6609	1232	43	4	59	4	GPHB5	14	63779814	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2666678	63779814	43569726	482	16091										
HSPA2	3306	broad.mit.edu	37	chr14	65008114	65008114	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agcccacggcggcggccatcGcctacggcctggacaagaag	14	15	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:65008114G>T	uc001xhj.2	+	2	623	c.547G>T	c.(547-549)GCC>TCC	p.A183S	HSPA2_uc001xhk.3_Missense_Mutation_p.A183S	NM_021979	NP_068814	P54652	HSP72_HUMAN	heat shock 70kDa protein 2	183					response to unfolded protein|spermatid development	cell surface	ATP binding|unfolded protein binding			skin(1)	1				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)		GGCGGCCATCGCCTACGGCCT	0.632													27	52	---	---	---	---	PASS	T	65008114	T	T	65008114	3	4	41	1	0	0	0	0	1	0	0	0	7411	1087	38	1	549	1	HSPA2	14	65008114	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1228300	65008114	42341426	483	16092										
SPTB	6710	broad.mit.edu	37	chr14	65246617	65246617	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcaaacagctcccccagctcCtcttttcgcacattcacttg	5	17	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:65246617C>T	uc001xht.2	-	20	4353	c.4299G>A	c.(4297-4299)GAG>GAA	p.E1433E	SPTB_uc001xhr.2_Silent_p.E1433E|SPTB_uc001xhs.2_Silent_p.E1433E|SPTB_uc001xhu.2_Silent_p.E1433E|SPTB_uc010aqi.2_Silent_p.E94E	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1433	Spectrin 11.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		CCCCCAGCTCCTCTTTTCGCA	0.507													44	148	---	---	---	---	PASS	T	65246617	T	T	65246617	2	4	41	1	0	0	0	0	0	0	0	1	15117	680	24	3		3	SPTB	14	65246617	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	238503	65246617	42102923	484	16093										
SPTB	6710	broad.mit.edu	37	chr14	65253222	65253222	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgcggctctcccacatcctgCccagggcattccagccagta	9	17	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:65253222C>T	uc001xht.2	-	15	3515	c.3461G>A	c.(3460-3462)GGC>GAC	p.G1154D	SPTB_uc001xhr.2_Missense_Mutation_p.G1154D|SPTB_uc001xhs.2_Missense_Mutation_p.G1154D|SPTB_uc001xhu.2_Missense_Mutation_p.G1154D	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1154	Spectrin 9.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		CCACATCCTGCCCAGGGCATT	0.607													6	25	---	---	---	---	PASS	T	65253222	T	T	65253222	3	4	41	1	0	0	0	0	1	0	0	0	15117	739	26	3	3678	3	SPTB	14	65253222	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	6605	65253222	42096318	485	16094										
RDH12	145226	broad.mit.edu	37	chr14	68191292	68191292	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	attggcaaggagacggccagAgagctcgctagccgaggtaa	15	9	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:68191292A>C	uc001xjz.3	+	4	495	c.171A>C	c.(169-171)AGA>AGC	p.R57S		NM_152443	NP_689656	Q96NR8	RDH12_HUMAN	retinol dehydrogenase 12	57					photoreceptor cell maintenance|response to stimulus|retinol metabolic process	intracellular	binding|retinol dehydrogenase activity			ovary(1)	1				all cancers(60;0.000704)|OV - Ovarian serous cystadenocarcinoma(108;0.00161)|BRCA - Breast invasive adenocarcinoma(234;0.00953)	Vitamin A(DB00162)	AGACGGCCAGAGAGCTCGCTA	0.547													12	50	---	---	---	---	PASS	C	68191292	C	C	68191292	3	2	41	1	0	0	0	0	1	0	0	0	13191	301	11	5	177	5	RDH12	14	68191292	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	2938070	68191292	39158248	486	16095										
ZFYVE26	23503	broad.mit.edu	37	chr14	68241800	68241800	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtctcgggatctgcagcctgGtggacaatttcttggaggtg	15	8	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:68241800G>C	uc001xka.2	-	27	5392	c.5253C>G	c.(5251-5253)CAC>CAG	p.H1751Q	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.H1751Q	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1751					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		CTGCAGCCTGGTGGACAATTT	0.458													4	20	---	---	---	---	PASS	C	68241800	C	C	68241800	3	2	41	1	0	0	0	0	1	0	0	0	17665	1252	44	4	2430	4	ZFYVE26	14	68241800	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	50508	68241800	39107740	487	16096										
SLC8A3	6547	broad.mit.edu	37	chr14	70522529	70522529	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttacctggagataacaggagCgctgtttgcaaatggatacc	11	8	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:70522529C>A	uc001xly.2	-	4	2644	c.1890G>T	c.(1888-1890)GCG>GCT	p.A630A	SLC8A3_uc001xlu.2_Intron|SLC8A3_uc001xlv.2_Intron|SLC8A3_uc001xlw.2_Silent_p.A630A|SLC8A3_uc001xlx.2_Silent_p.A631A|SLC8A3_uc001xlz.2_Intron|SLC8A3_uc010ara.2_Intron|SLC8A3_uc001xma.2_Intron	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	630	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding	p.A630E(1)		skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		ATAACAGGAGCGCTGTTTGCA	0.418													8	22	---	---	---	---	PASS	A	70522529	A	A	70522529	2	1	41	1	0	0	0	0	0	0	0	1	14708	782	27	1		1	SLC8A3	14	70522529	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	2280729	70522529	36827011	488	16097										
PCNX	22990	broad.mit.edu	37	chr14	71493521	71493521	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtttcccaatagtgtttttcAttggtctcctgcctcaggtg	9	10	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:71493521A>T	uc001xmo.2	+	15	3834	c.3388A>T	c.(3388-3390)ATT>TTT	p.I1130F	PCNX_uc010are.1_Missense_Mutation_p.I1019F|PCNX_uc010arf.1_5'UTR	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1130	Helical; (Potential).					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)		AGTGTTTTTCATTGGTCTCCT	0.308													37	110	---	---	---	---	PASS	T	71493521	T	T	71493521	3	4	41	1	0	0	0	0	1	0	0	0	11591	217	8	5	3446	5	PCNX	14	71493521	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	970992	71493521	35856019	489	16098										
ZFYVE1	53349	broad.mit.edu	37	chr14	73491086	73491086	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gatggagctcctcctcgcagCggagacactgcagactgcag	13	13	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:73491086C>A	uc001xnm.2	-	2	771	c.131G>T	c.(130-132)CGC>CTC	p.R44L	ZFYVE1_uc010arj.2_Missense_Mutation_p.R44L	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	44						endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		CTCCTCGCAGCGGAGACACTG	0.567													36	83	---	---	---	---	PASS	A	73491086	A	A	73491086	3	1	41	1	0	0	0	0	1	0	0	0	17660	768	27	1	2246	1	ZFYVE1	14	73491086	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1997565	73491086	33858454	490	16099										
UBR7	55148	broad.mit.edu	37	chr14	93684957	93684957	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agttatcaaacctgaaaatgGagagcatcaagatagtaccc	8	8	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:93684957G>T	uc001ybm.3	+	7	922	c.686G>T	c.(685-687)GGA>GTA	p.G229V	UBR7_uc001ybn.3_Missense_Mutation_p.G153V|UBR7_uc010auq.2_Missense_Mutation_p.G78V	NM_175748	NP_786924	Q8N806	UBR7_HUMAN	ubiquitin protein ligase E3 component n-recognin	229							ubiquitin-protein ligase activity|zinc ion binding				0						CCTGAAAATGGAGAGCATCAA	0.443													29	58	---	---	---	---	PASS	T	93684957	T	T	93684957	3	4	41	1	0	0	0	0	1	0	0	0	16903	1174	41	2	712	2	UBR7	14	93684957	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	20193871	93684957	13664583	491	16100										
SERPINA4	5267	broad.mit.edu	37	chr14	95030431	95030431	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtcagtgagctcaagaaggaCgtcttgatggtgctggtgaa	15	6	3	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:95030431C>T	uc001ydk.2	+	2	678	c.612C>T	c.(610-612)GAC>GAT	p.D204D	SERPINA4_uc010avd.2_Silent_p.D241D|SERPINA4_uc001ydl.2_Silent_p.D204D	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	204					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		TCAAGAAGGACGTCTTGATGG	0.453													59	150	---	---	---	---	PASS	T	95030431	T	T	95030431	2	4	41	1	0	0	0	0	0	0	0	1	14091	535	19	1		1	SERPINA4	14	95030431	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1345474	95030431	12319109	492	16101										
DICER1	23405	broad.mit.edu	37	chr14	95571462	95571462	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagcatcgctggcagtctggGctcttagctcctctgcagtc	11	14	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:95571462G>T	uc001ydw.2	-	21	3397	c.3215C>A	c.(3214-3216)GCC>GAC	p.A1072D	DICER1_uc010avh.1_5'UTR|DICER1_uc001ydv.2_Missense_Mutation_p.A1062D|DICER1_uc001ydx.2_Missense_Mutation_p.A1072D|DICER1_uc001ydy.1_5'Flank	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1072					negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		GGCAGTCTGGGCTCTTAGCTC	0.502			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				6	189	---	---	---	---	PASS	T	95571462	T	T	95571462	3	4	41	1	0	0	0	0	1	0	0	0	4521	1203	42	3	2585	3	DICER1	14	95571462	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	541031	95571462	11778078	493	16102										
BCL11B	64919	broad.mit.edu	37	chr14	99642498	99642498	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgttgaagggctgcttgcaTgttgtgcaaatgtagctgga	14	6	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:99642498T>C	uc001yga.2	-	4	942	c.675A>G	c.(673-675)ACA>ACG	p.T225T	BCL11B_uc001ygb.2_Silent_p.T154T	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	225	C2H2-type 1.					nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		GCTGCTTGCATGTTGTGCAAA	0.637			T	TLX3	T-ALL								12	28	---	---	---	---	PASS	C	99642498	C	C	99642498	2	2	41	1	0	0	0	0	0	0	0	1	1364	1451	51	5		5	BCL11B	14	99642498	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	4071036	99642498	7707042	494	16103										
WARS	7453	broad.mit.edu	37	chr14	100828124	100828124	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acaaaatcctcttcagcttcTgtggcatctgggccatgatt	8	11	4	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:100828124T>C	uc001yhf.1	-	2	318	c.234A>G	c.(232-234)ACA>ACG	p.T78T	WARS_uc001yhg.1_Silent_p.T78T|WARS_uc001yhh.1_Silent_p.T78T|WARS_uc001yhi.1_Silent_p.T37T|WARS_uc001yhj.1_Silent_p.T37T|WARS_uc001yhk.1_Silent_p.T37T|WARS_uc001yhl.1_Silent_p.T78T|WARS_uc010twz.1_Silent_p.T78T	NM_173701	NP_776049	P23381	SYWC_HUMAN	tryptophanyl-tRNA synthetase isoform a	78					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)	CTTCAGCTTCTGTGGCATCTG	0.502													60	187	---	---	---	---	PASS	C	100828124	C	C	100828124	2	2	41	1	0	0	0	0	0	0	0	1	17246	1567	55	5		5	WARS	14	100828124	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	1185626	100828124	6521416	495	16104										
WDR20	91833	broad.mit.edu	37	chr14	102606455	102606455	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tctggcaacggcgaccgcctCtgcttcaatgtgggccggga	14	13	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:102606455C>A	uc001ykz.2	+	1	244	c.195C>A	c.(193-195)CTC>CTA	p.L65L	WDR20_uc001yky.1_Translation_Start_Site|WDR20_uc001yla.2_Translation_Start_Site|WDR20_uc001ylb.2_Silent_p.L65L|WDR20_uc010txu.1_Silent_p.L65L|WDR20_uc001ylc.2_Silent_p.L65L|WDR20_uc001yld.2_Silent_p.L65L|WDR20_uc001yle.2_Silent_p.L65L|WDR20_uc001ylf.2_Silent_p.L65L|HSP90AA1_uc001ykv.3_5'Flank	NM_144574	NP_653175	Q8TBZ3	WDR20_HUMAN	WD repeat domain 20 isoform 2	65											0						GCGACCGCCTCTGCTTCAATG	0.637													13	26	---	---	---	---	PASS	A	102606455	A	A	102606455	2	1	41	1	0	0	0	0	0	0	0	1	17277	900	32	2		2	WDR20	14	102606455	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1778331	102606455	4743085	496	16105										
ADSSL1	122622	broad.mit.edu	37	chr14	105201411	105201411	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atgggaaagagtacgacttcCacctgctgcccagcggcatc	11	13	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr14:105201411C>T	uc001ypd.2	+	2	321	c.247C>T	c.(247-249)CAC>TAC	p.H83Y	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Missense_Mutation_p.H126Y|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	83					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	GTACGACTTCCACCTGCTGCC	0.612													10	18	---	---	---	---	PASS	T	105201411	T	T	105201411	3	4	41	1	0	0	0	0	1	0	0	0	348	594	21	3	578	3	ADSSL1	14	105201411	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2594956	105201411	2148129	497	16106										
OR4N4	283694	broad.mit.edu	37	chr15	22383085	22383085	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	taatggtcttcaacagtggcCtgatgacactcctgtgcttt	9	10	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:22383085C>A	uc001yuc.1	+	7	1594	c.613C>A	c.(613-615)CTG>ATG	p.L205M	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.L205M	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	205	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CAACAGTGGCCTGATGACACT	0.517													12	199	---	---	---	---	PASS	A	22383085	A	A	22383085	3	1	41	1	0	0	0	0	1	0	0	0	11078	680	24	3	615	3	OR4N4	15	22383085	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08		22383085	80148307	498	16107										
C15orf2	23742	broad.mit.edu	37	chr15	24921812	24921812	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acagcgccccctgagccagcCgttggctgctccctgctgca	11	18	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:24921812C>T	uc001ywo.2	+	1	1272	c.798C>T	c.(796-798)GCC>GCT	p.A266A		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	266					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CTGAGCCAGCCGTTGGCTGCT	0.637													17	45	---	---	---	---	PASS	T	24921812	T	T	24921812	2	4	41	1	0	0	0	0	0	0	0	1	1784	639	23	1		1	C15orf2	15	24921812	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	2538727	24921812	77609580	499	16108										
FMN1	342184	broad.mit.edu	37	chr15	33180426	33180426	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttatgaggtcttcaaacttgActtgggaggccagaaagaaa	11	6	2	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:33180426A>C	uc001zhf.3	-	12	3113	c.3113T>G	c.(3112-3114)GTC>GGC	p.V1038G		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	1261	FH2.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		TTCAAACTTGACTTGGGAGGC	0.373													26	40	---	---	---	---	PASS	C	33180426	C	C	33180426	3	2	41	1	0	0	0	0	1	0	0	0	5949	275	10	5	501	5	FMN1	15	33180426	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	8258614	33180426	69350966	500	16109										
RYR3	6263	broad.mit.edu	37	chr15	34047380	34047380	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caagaatttattgcccatttAggtaagtatcatcatgaaat	6	6	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:34047380A>T	uc001zhi.2	+	58	8584	c.8514A>T	c.(8512-8514)TTA>TTT	p.L2838F	RYR3_uc010bar.2_Missense_Mutation_p.L2838F	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2838	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTGCCCATTTAGGTAAGTATC	0.348													17	22	---	---	---	---	PASS	T	34047380	T	T	34047380	3	4	41	1	0	0	0	0	1	0	0	0	13770	434	15	5	8744	5	RYR3	15	34047380	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	866954	34047380	68484012	501	16110										
TMCO5A	145942	broad.mit.edu	37	chr15	38235579	38235579	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgaaccctgtggaaaaagagCataccagccaaaataatgag	9	8	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:38235579C>G	uc001zjw.2	+	9	710	c.607C>G	c.(607-609)CAT>GAT	p.H203D	TMCO5A_uc001zjv.1_Missense_Mutation_p.H203D	NM_152453	NP_689666	Q8N6Q1	TMC5A_HUMAN	transmembrane and coiled-coil domains 5A	203						integral to membrane				central_nervous_system(1)	1						GGAAAAAGAGCATACCAGCCA	0.408													23	57	---	---	---	---	PASS	G	38235579	G	G	38235579	3	3	41	1	0	0	0	0	1	0	0	0	15996	710	25	4	637	4	TMCO5A	15	38235579	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4188199	38235579	64295813	502	16111										
RPAP1	26015	broad.mit.edu	37	chr15	41821753	41821753	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gttctccctgaagactgaatCgagcctgcatcctctaatgg	9	12	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:41821753C>A	uc001zod.2	-	9	1197	c.1073G>T	c.(1072-1074)CGA>CTA	p.R358L		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	358						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		AAGACTGAATCGAGCCTGCAT	0.592													16	33	---	---	---	---	PASS	A	41821753	A	A	41821753	3	1	41	1	0	0	0	0	1	0	0	0	13541	884	31	2	3176	2	RPAP1	15	41821753	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3586174	41821753	60709639	503	16112										
PLA2G4D	283748	broad.mit.edu	37	chr15	42379558	42379558	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacacaggatgactggtgtcGgtgagcgtcttggtcttaaa	13	8	2	2	rs140617872	byFrequency	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:42379558G>A	uc001zox.2	-	3	290	c.195C>T	c.(193-195)ACC>ACT	p.T65T		NM_178034	NP_828848	Q86XP0	PA24D_HUMAN	phospholipase A2, group IVD	65	C2.				phospholipid catabolic process	cytoplasmic vesicle membrane|cytosol	metal ion binding|phospholipase A2 activity			large_intestine(1)|skin(1)	2		all_cancers(109;6.37e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.019)|Ovarian(310;0.143)|Colorectal(260;0.245)		OV - Ovarian serous cystadenocarcinoma(18;4.9e-17)|GBM - Glioblastoma multiforme(94;1.02e-06)		GACTGGTGTCGGTGAGCGTCT	0.552													81	197	---	---	---	---	PASS	A	42379558	A	A	42379558	2	1	41	1	0	0	0	0	0	0	0	1	12004	1103	39	1		1	PLA2G4D	15	42379558	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	557805	42379558	60151834	504	16113										
CEP152	22995	broad.mit.edu	37	chr15	49048574	49048574	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttttctttgttccattcactCcgagccttagctaactcagc	5	13	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:49048574C>G	uc001zwy.2	-	20	2905	c.2871G>C	c.(2869-2871)CGG>CGC	p.R957R	CEP152_uc001zwz.2_Silent_p.R957R|CEP152_uc001zxa.1_Silent_p.R864R	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	957	Potential.				centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		TCCATTCACTCCGAGCCTTAG	0.388													34	103	---	---	---	---	PASS	G	49048574	G	G	49048574	2	3	41	1	0	0	0	0	0	0	0	1	3248	842	30	2		2	CEP152	15	49048574	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	6669016	49048574	53482818	505	16114										
CYP19A1	1588	broad.mit.edu	37	chr15	51514634	51514634	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acgtccacatagcccgattcAttggtcacctcctccaacct	5	17	2	0	rs34896264		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:51514634A>T	uc001zyz.3	-	6	791	c.540T>A	c.(538-540)AAT>AAA	p.N180K	CYP19A1_uc001zza.3_Missense_Mutation_p.N180K|CYP19A1_uc001zzb.2_Missense_Mutation_p.N180K|CYP19A1_uc001zzd.2_Missense_Mutation_p.N180K|CYP19A1_uc010bey.1_Missense_Mutation_p.N180K	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	180					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	AGCCCGATTCATTGGTCACCT	0.522													23	63	---	---	---	---	PASS	T	51514634	T	T	51514634	3	4	41	1	0	0	0	0	1	0	0	0	4148	214	8	5	995	5	CYP19A1	15	51514634	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	2466060	51514634	51016758	506	16115										
DMXL2	23312	broad.mit.edu	37	chr15	51755631	51755631	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	taataaatgtctcttgaaggAcctcttgtttaacaaggaaa	7	6	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:51755631A>G	uc002abf.2	-	33	8093	c.7868T>C	c.(7867-7869)GTC>GCC	p.V2623A	DMXL2_uc002abd.2_Missense_Mutation_p.V694A|DMXL2_uc010ufy.1_Missense_Mutation_p.V2624A|DMXL2_uc010bfa.2_Missense_Mutation_p.V1987A	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	2623						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		CTCTTGAAGGACCTCTTGTTT	0.299													62	150	---	---	---	---	PASS	G	51755631	G	G	51755631	3	3	41	1	0	0	0	0	1	0	0	0	4595	275	10	5	1286	5	DMXL2	15	51755631	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	240997	51755631	50775761	507	16116										
MYO5A	4644	broad.mit.edu	37	chr15	52720734	52720734	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tttcgtaagtgaggcagctcCttggtctttggatctagatg	12	7	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:52720734C>T	uc002aby.2	-	3	415	c.171G>A	c.(169-171)AAG>AAA	p.K57K	MYO5A_uc002abx.3_Silent_p.K57K|MYO5A_uc010uge.1_Intron	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	57	Myosin head-like.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		GAGGCAGCTCCTTGGTCTTTG	0.458													51	132	---	---	---	---	PASS	T	52720734	T	T	52720734	2	4	41	1	0	0	0	0	0	0	0	1	10078	680	24	3		3	MYO5A	15	52720734	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	965103	52720734	49810658	508	16117										
WDR72	256764	broad.mit.edu	37	chr15	53907719	53907719	+	Frame_Shift_Del	DEL	A	-	-													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctatagtatctgactctcgcAaagaatcacaattattttcc							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:53907719delA	uc002acj.2	-	15	2726	c.2684delT	c.(2683-2685)TTGfs	p.L895fs	WDR72_uc010bfi.1_Frame_Shift_Del_p.L895fs	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	895										lung(1)|skin(1)	2				all cancers(107;0.0511)		TGACTCTCGCAAAGAATCACA	0.338													96	49	---	---	---	---		-	53907719	-	-	53907719	7	5	41	1	0	1	0	1	0	0	0	0	17319	131	5	0	648	0	WDR72	15	53907719	Frame_Shift_Del	DEL	A	TCGA-22-4613-01A-01D-1441-08	1186985	53907719	48623673	509	16118										
VPS13C	54832	broad.mit.edu	37	chr15	62221838	62221838	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaattccacactggcacataCatacagcttgtcaagaacag	6	11	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:62221838C>A	uc002agz.2	-	51	6222	c.6148G>T	c.(6148-6150)GTA>TTA	p.V2050L	VPS13C_uc002aha.2_Missense_Mutation_p.V2007L|VPS13C_uc002ahb.1_Missense_Mutation_p.V2050L|VPS13C_uc002ahc.1_Missense_Mutation_p.V2007L	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2050					protein localization					ovary(2)	2						CTGGCACATACATACAGCTTG	0.368													30	77	---	---	---	---	PASS	A	62221838	A	A	62221838	3	1	41	1	0	0	0	0	1	0	0	0	17188	478	17	3	5281	3	VPS13C	15	62221838	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	8314119	62221838	40309554	510	16119										
SNX1	6642	broad.mit.edu	37	chr15	64422221	64422221	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaccatcaagatgaatgaatCagacattgtgagtagccctg	10	8	2	5			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:64422221C>G	uc002amv.2	+	9	950	c.914C>G	c.(913-915)TCA>TGA	p.S305*	SNX1_uc010bgv.2_Nonsense_Mutation_p.S19*|SNX1_uc010uio.1_Nonsense_Mutation_p.S305*|SNX1_uc002amw.2_Nonsense_Mutation_p.S305*|SNX1_uc002amx.2_Nonsense_Mutation_p.S240*|SNX1_uc002amy.2_Nonsense_Mutation_p.S234*|SNX1_uc010bgw.2_Nonsense_Mutation_p.S207*	NM_003099	NP_003090	Q13596	SNX1_HUMAN	sorting nexin 1 isoform a	305	BAR.				cell communication|early endosome to Golgi transport|endocytosis|intracellular protein transport	early endosome membrane|Golgi apparatus	phosphatidylinositol binding|protein binding|protein transporter activity				0						ATGAATGAATCAGACATTGTG	0.483													3	93	---	---	---	---	PASS	G	64422221	G	G	64422221	4	3	41	1	0	0	0	0	0	1	0	0	14880	838	29	2	948	2	SNX1	15	64422221	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2200383	64422221	38109171	511	16120										
IGDCC4	57722	broad.mit.edu	37	chr15	65678235	65678235	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggctgtgcacttcagccctGtcctccacgtctgagggtgg	13	13	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:65678235G>T	uc002aou.1	-	18	3324	c.3114C>A	c.(3112-3114)GAC>GAA	p.D1038E	IGDCC4_uc002aot.1_Missense_Mutation_p.D626E	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	1038	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						CTTCAGCCCTGTCCTCCACGT	0.612											OREG0023195	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	80	---	---	---	---	PASS	T	65678235	T	T	65678235	3	4	41	1	0	0	0	0	1	0	0	0	7569	1368	48	3	650	3	IGDCC4	15	65678235	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1256014	65678235	36853157	512	16121										
LCTL	197021	broad.mit.edu	37	chr15	66844498	66844498	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacatatatgggaggatcacCgtattgagtctgaaagtgag	12	6	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:66844498C>T	uc002aqc.2	-	10	1339	c.1207G>A	c.(1207-1209)GGT>AGT	p.G403S	LCTL_uc002aqd.3_Missense_Mutation_p.G230S|LCTL_uc010bhw.2_Missense_Mutation_p.G101S	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	403	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						GGAGGATCACCGTATTGAGTC	0.363													35	101	---	---	---	---	PASS	T	66844498	T	T	66844498	3	4	41	1	0	0	0	0	1	0	0	0	8694	652	23	1	512	1	LCTL	15	66844498	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1166263	66844498	35686894	513	16122										
LBXCOR1	390598	broad.mit.edu	37	chr15	68122622	68122622	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tatctcccagccaagtcctgCaaatacagacagaggtgagc	9	12	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:68122622C>A	uc002aqy.1	+	5	2369	c.2369C>A	c.(2368-2370)GCA>GAA	p.A790E		NM_001031807	NP_001026977	P84550	SKOR1_HUMAN	transcriptional corepressor Corl1	834					negative regulation of BMP signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|dendrite|neuronal cell body|nucleus	nucleotide binding|SMAD binding|transcription repressor activity				0						CCAAGTCCTGCAAATACAGAC	0.557													27	46	---	---	---	---	PASS	A	68122622	A	A	68122622	3	1	41	1	0	0	0	0	1	0	0	0	8655	710	25	3	2387	3	LBXCOR1	15	68122622	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1278124	68122622	34408770	514	16123										
CYP1A1	1543	broad.mit.edu	37	chr15	75014673	75014673	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	catgaagctgtagaacttctCattcaggtccttgaaggcat	9	9	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:75014673C>A	uc002ayp.3	-	2	888	c.766G>T	c.(766-768)GAG>TAG	p.E256*	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_5'UTR|CYP1A1_uc010bjx.2_5'UTR|CYP1A1_uc002ayq.3_Nonsense_Mutation_p.E256*|CYP1A1_uc010bjy.2_Nonsense_Mutation_p.E256*|CYP1A1_uc010bjz.1_5'UTR	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	256					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	TAGAACTTCTCATTCAGGTCC	0.502									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				30	48	---	---	---	---	PASS	A	75014673	A	A	75014673	4	1	41	1	0	0	0	0	0	1	0	0	4149	835	29	2	796	2	CYP1A1	15	75014673	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	6892051	75014673	27516719	515	16124										
KIAA1199	57214	broad.mit.edu	37	chr15	81212548	81212548	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctccttgtcaagtctggaacCctcctcccctcggaccgtga	8	17	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:81212548C>A	uc002bfw.1	+	14	2171	c.1911C>A	c.(1909-1911)ACC>ACA	p.T637T	KIAA1199_uc010unn.1_Silent_p.T637T	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	637										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						AGTCTGGAACCCTCCTCCCCT	0.557													28	93	---	---	---	---	PASS	A	81212548	A	A	81212548	2	1	41	1	0	0	0	0	0	0	0	1	8213	610	22	3		3	KIAA1199	15	81212548	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	6197875	81212548	21318844	516	16125										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84592672	84592672	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcaggccatcaagaagccatAgcagtgtgcttacatatcca	9	11	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:84592672A>T	uc002bjz.3	+	17	2228	c.2004A>T	c.(2002-2004)ATA>ATT	p.I668I	ADAMTSL3_uc010bmt.1_Silent_p.I668I|ADAMTSL3_uc010bmu.1_Silent_p.I668I	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	668						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)			AAGAAGCCATAGCAGTGTGCT	0.443													26	57	---	---	---	---	PASS	T	84592672	T	T	84592672	2	4	41	1	0	0	0	0	0	0	0	1	276	410	15	5		5	ADAMTSL3	15	84592672	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	3380124	84592672	17938720	517	16126										
OR4F6	390648	broad.mit.edu	37	chr15	102346675	102346675	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	attgtggtggttttggtcttTgggccattaatctttttcta	10	5	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr15:102346675T>A	uc010utr.1	+	1	753	c.753T>A	c.(751-753)TTT>TTA	p.F251L		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	251	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			TTTTGGTCTTTGGGCCATTAA	0.373													84	333	---	---	---	---	PASS	A	102346675	A	A	102346675	3	1	41	1	0	0	0	0	1	0	0	0	11066	1809	63	5	755	5	OR4F6	15	102346675	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	17754003	102346675	184717	518	16127										
CACNA1H	8912	broad.mit.edu	37	chr16	1262139	1262139	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cctagagaggaggcgcaggaGtaaggcgctcccggtggcgg	19	10	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:1262139G>A	uc002cks.2	+	25	5007	c.4759_splice	c.e25+1	p.S1587_splice	CACNA1H_uc002ckt.2_Splice_Site_p.K1587_splice|CACNA1H_uc002cku.2_Splice_Site_p.S293_splice|CACNA1H_uc010brj.2_Missense_Mutation_p.S293N|CACNA1H_uc002ckv.2_Splice_Site_p.K293_splice	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,						aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	AGGCGCAGGAGTAAGGCGCTC	0.731													4	7	---	---	---	---	PASS	A	1262139	A	A	1262139	5	1	41	1	0	0	0	0	0	0	1	0	2545	1043	36	3	4854	3	CACNA1H	16	1262139	Splice_Site	SNP	G	TCGA-22-4613-01A-01D-1441-08		1262139	89092614	519	16128										
ABCA3	21	broad.mit.edu	37	chr16	2369699	2369699	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atggccacgaggaaggggtcTgcgatgaacggcgggtacgg	19	8	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:2369699T>C	uc002cpy.1	-	8	1468	c.756A>G	c.(754-756)GCA>GCG	p.A252A	ABCA3_uc010bsk.1_Silent_p.A252A|ABCA3_uc010bsl.1_Silent_p.A252A	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	252					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				GGAAGGGGTCTGCGATGAACG	0.627													9	52	---	---	---	---	PASS	C	2369699	C	C	2369699	2	2	41	1	0	0	0	0	0	0	0	1	33	1567	55	5		5	ABCA3	16	2369699	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	1107560	2369699	87985054	520	16129										
ABAT	18	broad.mit.edu	37	chr16	8870208	8870208	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttcctcattccagccctaccGgatcttcaacacctggctgg	7	16	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:8870208G>T	uc002czc.3	+	14	1296	c.1130G>T	c.(1129-1131)CGG>CTG	p.R377L	ABAT_uc002czd.3_Missense_Mutation_p.R377L|ABAT_uc010buh.2_Missense_Mutation_p.R319L|ABAT_uc010bui.2_Missense_Mutation_p.R377L	NM_020686	NP_065737	P80404	GABT_HUMAN	4-aminobutyrate aminotransferase precursor	377					behavioral response to cocaine|gamma-aminobutyric acid catabolic process|neurotransmitter catabolic process|neurotransmitter secretion	4-aminobutyrate transaminase complex|mitochondrial matrix	(S)-3-amino-2-methylpropionate transaminase activity|4-aminobutyrate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|succinate-semialdehyde dehydrogenase binding			upper_aerodigestive_tract(1)	1					Divalproex sodium(DB00510)|Isoniazid(DB00951)|L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)|Tiagabine(DB00906)|Valproic Acid(DB00313)|Vigabatrin(DB01080)	CAGCCCTACCGGATCTTCAAC	0.572													25	54	---	---	---	---	PASS	T	8870208	T	T	8870208	3	4	41	1	0	0	0	0	1	0	0	0	27	1116	39	1	1180	1	ABAT	16	8870208	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6500509	8870208	81484545	521	16130										
GRIN2A	2903	broad.mit.edu	37	chr16	9862871	9862871	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccatgttgtcaatgtccagcTggctgctcatcacctcgttc	8	14	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:9862871T>A	uc002czo.3	-	12	2980	c.2432A>T	c.(2431-2433)CAG>CTG	p.Q811L	GRIN2A_uc010uym.1_Missense_Mutation_p.Q811L|GRIN2A_uc010uyn.1_Missense_Mutation_p.Q654L|GRIN2A_uc002czr.3_Missense_Mutation_p.Q811L	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	811	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AATGTCCAGCTGGCTGCTCAT	0.557													30	53	---	---	---	---	PASS	A	9862871	A	A	9862871	3	1	41	1	0	0	0	0	1	0	0	0	6779	1580	55	5	1970	5	GRIN2A	16	9862871	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	992663	9862871	80491882	522	16131										
GP2	2813	broad.mit.edu	37	chr16	20331649	20331649	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agatacccagttcctctcctCtgtctgcaagatgctgctgc	8	14	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:20331649C>G	uc002dgv.2	-	6	885	c.802G>C	c.(802-804)GAG>CAG	p.E268Q	GP2_uc002dgw.2_Missense_Mutation_p.E265Q|GP2_uc002dgx.2_Missense_Mutation_p.E121Q|GP2_uc002dgy.2_Missense_Mutation_p.E118Q	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	268	ZP.					anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						TTCCTCTCCTCTGTCTGCAAG	0.562													14	116	---	---	---	---	PASS	G	20331649	G	G	20331649	3	3	41	1	0	0	0	0	1	0	0	0	6582	922	32	2	839	2	GP2	16	20331649	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	10468778	20331649	70023104	523	16132										
ACSM5	54988	broad.mit.edu	37	chr16	20441012	20441012	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgagaaaggtaccagtttcaGagcctgaggcactgtctgac	12	9	2	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:20441012G>C	uc002dhe.2	+	8	1161	c.1014G>C	c.(1012-1014)CAG>CAC	p.Q338H		NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	338					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2						ACCAGTTTCAGAGCCTGAGGC	0.562													23	46	---	---	---	---	PASS	C	20441012	C	C	20441012	3	2	41	1	0	0	0	0	1	0	0	0	187	933	33	2	1040	2	ACSM5	16	20441012	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	109363	20441012	69913741	524	16133										
ACSM2A	123876	broad.mit.edu	37	chr16	20494478	20494478	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	catgtgaagtcagtgacagcCccatacaagtacccaagaaa	8	11	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:20494478C>G	uc010bwe.2	+	14	1847	c.1608C>G	c.(1606-1608)GCC>GCG	p.A536A	ACSM2A_uc002dhf.3_Silent_p.A536A|ACSM2A_uc002dhg.3_Silent_p.A536A|ACSM2A_uc010vay.1_Silent_p.A457A|ACSM2A_uc002dhh.3_Silent_p.A166A	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	536					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CAGTGACAGCCCCATACAAGT	0.483													8	125	---	---	---	---	PASS	G	20494478	G	G	20494478	2	3	41	1	0	0	0	0	0	0	0	1	183	610	22	4		4	ACSM2A	16	20494478	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	53466	20494478	69860275	525	16134										
ITGAM	3684	broad.mit.edu	37	chr16	31332938	31332938	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagaagagcacacgggatcgGctaagagaaggtgaggcttg	16	7	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:31332938G>T	uc002ebq.2	+	16	2090	c.1992G>T	c.(1990-1992)CGG>CGT	p.R664R	ITGAM_uc002ebr.2_Silent_p.R665R|ITGAM_uc010cam.1_Intron|ITGAM_uc010can.2_Silent_p.R70R|ITGAM_uc002ebs.1_Silent_p.R70R	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	664	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						CACGGGATCGGCTAAGAGAAG	0.532													35	75	---	---	---	---	PASS	T	31332938	T	T	31332938	2	4	41	1	0	0	0	0	0	0	0	1	7887	1190	42	3		3	ITGAM	16	31332938	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	10838460	31332938	59021815	526	16135										
ITGAD	3681	broad.mit.edu	37	chr16	31429860	31429860	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agctggagctcccggtgaagTatgcagtctacaccatgatc	11	11	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:31429860T>C	uc002ebv.1	+	23	2804	c.2755T>C	c.(2755-2757)TAT>CAT	p.Y919H	ITGAD_uc010cap.1_Missense_Mutation_p.Y920H	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	919	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						CCCGGTGAAGTATGCAGTCTA	0.567													40	94	---	---	---	---	PASS	C	31429860	C	C	31429860	3	2	41	1	0	0	0	0	1	0	0	0	7884	1638	57	5	2845	5	ITGAD	16	31429860	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	96922	31429860	58924893	527	16136										
GPT2	84706	broad.mit.edu	37	chr16	46952628	46952628	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gagtactccagcaacgtggaGctcgcctccttccactccac	8	17	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:46952628G>C	uc002eel.2	+	8	1090	c.996G>C	c.(994-996)GAG>GAC	p.E332D	GPT2_uc002eem.2_Missense_Mutation_p.E232D	NM_133443	NP_597700	Q8TD30	ALAT2_HUMAN	glutamic pyruvate transaminase 2 isoform 1	332					2-oxoglutarate metabolic process|cellular amino acid biosynthetic process|L-alanine metabolic process	mitochondrial matrix	L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2		all_cancers(37;0.0276)|all_epithelial(9;0.0498)|all_lung(18;0.0522)			L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GCAACGTGGAGCTCGCCTCCT	0.612													23	123	---	---	---	---	PASS	C	46952628	C	C	46952628	3	2	41	1	0	0	0	0	1	0	0	0	6738	962	34	4	1022	4	GPT2	16	46952628	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	15522768	46952628	43402125	528	16137										
ZNF423	23090	broad.mit.edu	37	chr16	49671670	49671670	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacagggtaggcatggttctTgtgcagcttgcgaacgtgct	14	9	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:49671670T>C	uc002efs.2	-	5	1691	c.1393A>G	c.(1393-1395)AAG>GAG	p.K465E	ZNF423_uc010vgn.1_Missense_Mutation_p.K348E	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	465					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GCATGGTTCTTGTGCAGCTTG	0.567													37	65	---	---	---	---	PASS	C	49671670	C	C	49671670	3	2	41	1	0	0	0	0	1	0	0	0	17895	1821	63	5	2481	5	ZNF423	16	49671670	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	2719042	49671670	40683083	529	16138										
NOD2	64127	broad.mit.edu	37	chr16	50759418	50759418	+	Silent	SNP	C	A	A													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agcctggaggagaaccatctCcaggatgaaggtgtatgttc							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:50759418C>A	uc002egm.1	+	10	3006	c.2901C>A	c.(2899-2901)CTC>CTA	p.L967L	NOD2_uc010vgq.1_Silent_p.L12L	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	967	LRR 7.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				AGAACCATCTCCAGGATGAAG	0.413													30	107	---	---	---	---	PASS	A	50759418	A	A	50759418	2	1	41	1	0	0	0	0	0	0	0	1	10517	842	30	2		2	NOD2	16	50759418	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1087748	50759418	39595335	530	16139	391	2								
NOD2	64127	broad.mit.edu	37	chr16	50759419	50759419	+	Nonsense_Mutation	SNP	C	T	T													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcctggaggagaaccatctcCaggatgaaggtgtatgttct							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:50759419C>T	uc002egm.1	+	10	3007	c.2902C>T	c.(2902-2904)CAG>TAG	p.Q968*	NOD2_uc010vgq.1_Nonsense_Mutation_p.Q13*	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	968	LRR 7.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				GAACCATCTCCAGGATGAAGG	0.413													32	105	---	---	---	---	PASS	T	50759419	T	T	50759419	4	4	41	1	0	0	0	0	0	1	0	0	10517	595	21	3	2940	3	NOD2	16	50759419	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1	50759419	39595334	531	16140	391	2								
SALL1	6299	broad.mit.edu	37	chr16	51175285	51175285	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ataaatgggaacttagcgtgGacaaggggttggcagatgtt	15	4	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:51175285G>T	uc010vgs.1	-	2	879	c.848C>A	c.(847-849)TCC>TAC	p.S283Y	SALL1_uc010vgr.1_Missense_Mutation_p.S186Y|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	283					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			ACTTAGCGTGGACAAGGGGTT	0.493													57	94	---	---	---	---	PASS	T	51175285	T	T	51175285	3	4	41	1	0	0	0	0	1	0	0	0	13810	1174	41	2	3134	2	SALL1	16	51175285	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	415866	51175285	39179468	532	16141										
CES7	221223	broad.mit.edu	37	chr16	55880745	55880745	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agtaacttctcctcctccgtGgctccttctgaaggagataa	8	12	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:55880745G>A	uc002eip.2	-	12	1580	c.1431C>T	c.(1429-1431)GCC>GCT	p.A477A	CES7_uc002eio.2_Silent_p.A427A|CES7_uc002eiq.2_Silent_p.A238A|CES7_uc002eir.2_Silent_p.A371A	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	477						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		CCTCCTCCGTGGCTCCTTCTG	0.458													68	188	---	---	---	---	PASS	A	55880745	A	A	55880745	2	1	41	1	0	0	0	0	0	0	0	1	3272	1335	47	3		3	CES7	16	55880745	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	4705460	55880745	34474008	533	16142										
SLC12A3	6559	broad.mit.edu	37	chr16	56913034	56913034	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtcctgaatgacacagtgacCcctggctggggtgcctgcga	14	12	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:56913034C>T	uc010ccm.2	+	10	1259	c.1230C>T	c.(1228-1230)ACC>ACT	p.T410T	SLC12A3_uc002ekd.3_Silent_p.T410T|SLC12A3_uc010ccn.2_Silent_p.T409T	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	410					sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	ACACAGTGACCCCTGGCTGGG	0.617													15	20	---	---	---	---	PASS	T	56913034	T	T	56913034	2	4	41	1	0	0	0	0	0	0	0	1	14384	610	22	3		3	SLC12A3	16	56913034	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1032289	56913034	33441719	534	16143										
DDX19A	55308	broad.mit.edu	37	chr16	70404234	70404234	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agagggctgcggtgattgagCgcttccgagagggcaaagag	18	7	0	5			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:70404234C>T	uc002eyv.2	+	10	1200	c.1129C>T	c.(1129-1131)CGC>TGC	p.R377C	DDX19B_uc010vly.1_Missense_Mutation_p.R378C|DDX19A_uc002eys.2_Missense_Mutation_p.R378C|DDX19A_uc010cfq.1_Missense_Mutation_p.R132C|DDX19A_uc010cfr.2_Missense_Mutation_p.R227C|DDX19A_uc010cfs.2_Missense_Mutation_p.R200C|DDX19A_uc010vlz.1_Missense_Mutation_p.R346C|DDX19A_uc010vma.1_Missense_Mutation_p.R287C	NM_018332	NP_060802	Q9NUU7	DD19A_HUMAN	DDX19-like protein	377	Helicase C-terminal.				mRNA transport|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|RNA binding				0		Ovarian(137;0.221)				GGTGATTGAGCGCTTCCGAGA	0.612													21	66	---	---	---	---	PASS	T	70404234	T	T	70404234	3	4	41	1	0	0	0	0	1	0	0	0	4346	768	27	1	1167	1	DDX19A	16	70404234	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	13491200	70404234	19950519	535	16144										
CNTNAP4	85445	broad.mit.edu	37	chr16	76486590	76486590	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagctgatttcagggggtatCctcctctttctgagtgatgg	12	9	3	3	rs151315964		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:76486590C>G	uc002feu.1	+	10	1642	c.1257C>G	c.(1255-1257)ATC>ATG	p.I419M	CNTNAP4_uc002fev.1_Missense_Mutation_p.I283M|CNTNAP4_uc010chb.1_Missense_Mutation_p.I346M|CNTNAP4_uc002fex.1_Missense_Mutation_p.I422M|CNTNAP4_uc002few.2_Missense_Mutation_p.I394M	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	419	Extracellular (Potential).|Laminin G-like 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						CAGGGGGTATCCTCCTCTTTC	0.458													35	82	---	---	---	---	PASS	G	76486590	G	G	76486590	3	3	41	1	0	0	0	0	1	0	0	0	3649	845	30	2	1300	2	CNTNAP4	16	76486590	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	6082356	76486590	13868163	536	16145										
CNTNAP4	85445	broad.mit.edu	37	chr16	76587757	76587757	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttctggaacaatagatgacaGagagccccttgctaatgcaa	9	9	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:76587757G>T	uc002feu.1	+	25	4071	c.3686G>T	c.(3685-3687)AGA>ATA	p.R1229I	CNTNAP4_uc002fev.1_Missense_Mutation_p.R1093I|CNTNAP4_uc010chb.1_Missense_Mutation_p.R1156I|CNTNAP4_uc002fex.1_Missense_Mutation_p.R1232I	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	1229	Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						ATAGATGACAGAGAGCCCCTT	0.358													9	27	---	---	---	---	PASS	T	76587757	T	T	76587757	3	4	41	1	0	0	0	0	1	0	0	0	3649	942	33	2	3789	2	CNTNAP4	16	76587757	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	101167	76587757	13766996	537	16146										
KCNG4	93107	broad.mit.edu	37	chr16	84270616	84270616	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcagcttccgcaggcagcacCtctccaggtgggcctcctcg	12	17	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr16:84270616C>T	uc010voc.1	-	2	597	c.476G>A	c.(475-477)AGG>AAG	p.R159K	KCNG4_uc002fhu.1_Missense_Mutation_p.R159K	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	159						voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						CAGGCAGCACCTCTCCAGGTG	0.667													14	41	---	---	---	---	PASS	T	84270616	T	T	84270616	3	4	41	1	0	0	0	0	1	0	0	0	8030	681	24	3	1089	3	KCNG4	16	84270616	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	7682859	84270616	6084137	538	16147										
OR1A1	8383	broad.mit.edu	37	chr17	3119289	3119289	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcatatgatcgagctgtggcCatcagccgcccacttcacta	9	14	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:3119289C>A	uc010vrc.1	+	1	375	c.375C>A	c.(373-375)GCC>GCA	p.A125A		NM_014565	NP_055380	Q9P1Q5	OR1A1_HUMAN	olfactory receptor, family 1, subfamily A,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GAGCTGTGGCCATCAGCCGCC	0.488													47	61	---	---	---	---	PASS	A	3119289	A	A	3119289	2	1	41	1	0	0	0	0	0	0	0	1	10949	581	21	3		3	OR1A1	17	3119289	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08		3119289	78075921	539	16148										
ZBTB4	57659	broad.mit.edu	37	chr17	7365586	7365586	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcccctatcccctccatccgGtccccctcaccagcccccac	4	26	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:7365586G>T	uc002ghc.3	-	4	2965	c.2715C>A	c.(2713-2715)GAC>GAA	p.D905E	ZBTB4_uc002ghd.3_Missense_Mutation_p.D905E	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	905					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		CCTCCATCCGGTCCCCCTCAC	0.627													15	51	---	---	---	---	PASS	T	7365586	T	T	7365586	3	4	41	1	0	0	0	0	1	0	0	0	17538	1252	44	3	330	3	ZBTB4	17	7365586	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	4246297	7365586	73829624	540	16149										
TP53	7157	broad.mit.edu	37	chr17	7577574	7577574	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgcaggaactgttacacatgTagttgtagtggatggtggta	14	4	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:7577574T>C	uc002gim.2	-	7	901	c.707A>G	c.(706-708)TAC>TGC	p.Y236C	TP53_uc002gig.1_Missense_Mutation_p.Y236C|TP53_uc002gih.2_Missense_Mutation_p.Y236C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y104C|TP53_uc010cng.1_Missense_Mutation_p.Y104C|TP53_uc002gii.1_Missense_Mutation_p.Y104C|TP53_uc010cnh.1_Missense_Mutation_p.Y236C|TP53_uc010cni.1_Missense_Mutation_p.Y236C|TP53_uc002gij.2_Missense_Mutation_p.Y236C|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.Y143C|TP53_uc002gio.2_Missense_Mutation_p.Y104C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	236	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> S (in sporadic cancers; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Y -> F (in a sporadic cancer; somatic mutation).|Y -> N (in sporadic cancers; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Y236C(46)|p.Y236N(12)|p.Y236*(9)|p.Y236H(9)|p.0?(7)|p.Y236D(6)|p.Y236del(4)|p.Y236S(3)|p.Y236Y(2)|p.Y236fs*4(2)|p.Y236_M237delYM(1)|p.I232_Y236delIHYNY(1)|p.Y236fs*5(1)|p.H233fs*6(1)|p.Y236_M237insXX(1)|p.Y236_M243delYMCNSSCM(1)|p.V225fs*23(1)|p.Y236_M237>*L(1)|p.H233_C242del10(1)|p.N235_Y236delNY(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)		GTTACACATGTAGTTGTAGTG	0.572		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)			27	33	---	---	---	---	PASS	C	7577574	C	C	7577574	3	2	41	1	0	0	0	0	1	0	0	0	16378	1638	57	5	583	5	TP53	17	7577574	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	211988	7577574	73617636	541	16150										
GLP2R	9340	broad.mit.edu	37	chr17	9763275	9763275	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcagatgtccacctcctgccGctcagtccaggttctcttgc	9	16	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:9763275G>C	uc002gmd.1	+	7	782	c.782G>C	c.(781-783)CGC>CCC	p.R261P		NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	261	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	ACCTCCTGCCGCTCAGTCCAG	0.572													26	47	---	---	---	---	PASS	C	9763275	C	C	9763275	3	2	41	1	0	0	0	0	1	0	0	0	6453	1087	38	4	808	4	GLP2R	17	9763275	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2185701	9763275	71431935	542	16151										
MYH4	4622	broad.mit.edu	37	chr17	10356534	10356534	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gttgactttgtcctcctccaTctgcaggtcatccagggtct	9	13	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:10356534T>C	uc002gmn.2	-	24	3157	c.3046A>G	c.(3046-3048)ATG>GTG	p.M1016V	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1016	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TCCTCCTCCATCTGCAGGTCA	0.493													57	219	---	---	---	---	PASS	C	10356534	C	C	10356534	3	2	41	1	0	0	0	0	1	0	0	0	10037	1435	50	5	2841	5	MYH4	17	10356534	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	593259	10356534	70838676	543	16152										
CCDC144A	9720	broad.mit.edu	37	chr17	16593972	16593972	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gatcttggcgagctccacagAgctgcccggtcgggcgacgt	15	13	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:16593972A>G	uc002gqk.1	+	1	334	c.258A>G	c.(256-258)AGA>AGG	p.R86R		NM_014695	NP_055510	A2RUR9	C144A_HUMAN	coiled-coil domain containing 144A	86											0						AGCTCCACAGAGCTGCCCGGT	0.632													45	183	---	---	---	---	PASS	G	16593972	G	G	16593972	2	3	41	1	0	0	0	0	0	0	0	1	2777	301	11	5		5	CCDC144A	17	16593972	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	6237438	16593972	64601238	544	16153										
PIGS	94005	broad.mit.edu	37	chr17	26883210	26883210	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgtgccaggaacacctccatCactcgcaccatgtccacctc	6	18	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:26883210C>T	uc002hbo.2	-	10	1528	c.1155G>A	c.(1153-1155)GTG>GTA	p.V385V	PIGS_uc002hbn.2_Silent_p.V377V|PIGS_uc010wap.1_Silent_p.V324V	NM_033198	NP_149975	Q96S52	PIGS_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	385	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			breast(2)|urinary_tract(1)|kidney(1)	4	Lung NSC(42;0.00431)					ACACCTCCATCACTCGCACCA	0.507													89	65	---	---	---	---	PASS	T	26883210	T	T	26883210	2	4	41	1	0	0	0	0	0	0	0	1	11898	813	29	2		2	PIGS	17	26883210	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	10289238	26883210	54312000	545	16154										
CPD	1362	broad.mit.edu	37	chr17	28706695	28706695	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccggcgaaccccccgccctgGacgaggtgcccgaggtgcgc	15	18	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:28706695G>T	uc002hfb.1	+	1	712	c.697G>T	c.(697-699)GAC>TAC	p.D233Y	CPD_uc010wbo.1_5'Flank|CPD_uc010wbp.1_5'Flank	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	233	Extracellular (Potential).|Carboxypeptidase-like 1.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						CCCCGCCCTGGACGAGGTGCC	0.706													10	1	---	---	---	---	PASS	T	28706695	T	T	28706695	3	4	41	1	0	0	0	0	1	0	0	0	3798	1174	41	2	699	2	CPD	17	28706695	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1823485	28706695	52488515	546	16155										
NF1	4763	broad.mit.edu	37	chr17	29556345	29556345	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgttgtccttaatggtgtgTaaccatgagaaagtgggact	12	6	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:29556345T>A	uc002hgg.2	+	21	3045	c.2712T>A	c.(2710-2712)TGT>TGA	p.C904*	NF1_uc002hgh.2_Nonsense_Mutation_p.C904*|NF1_uc010csn.1_Nonsense_Mutation_p.C764*|NF1_uc002hgi.1_5'UTR	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	904					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TAATGGTGTGTAACCATGAGA	0.418			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			88	55	---	---	---	---	PASS	A	29556345	A	A	29556345	4	1	41	1	0	0	0	0	0	1	0	0	10356	1644	57	5	2855	5	NF1	17	29556345	Nonsense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	849650	29556345	51638865	547	16156										
TMEM132E	124842	broad.mit.edu	37	chr17	32955603	32955603	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtgaaggccaagaagggtgtGacccttttaggtaccaagtc	13	8	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:32955603G>C	uc002hif.2	+	4	1078	c.750G>C	c.(748-750)GTG>GTC	p.V250V		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	250	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		AGAAGGGTGTGACCCTTTTAG	0.597													42	60	---	---	---	---	PASS	C	32955603	C	C	32955603	2	2	41	1	0	0	0	0	0	0	0	1	16045	1277	45	2		2	TMEM132E	17	32955603	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	3399258	32955603	48239607	548	16157										
MMP28	79148	broad.mit.edu	37	chr17	34106035	34106035	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tctggcgcagggtggcgcggTccaacacgccgctgacaggt	16	13	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:34106035T>A	uc002hjy.1	-	3	495	c.236A>T	c.(235-237)GAC>GTC	p.D79V	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA|MMP28_uc002hka.2_Missense_Mutation_p.D79V	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	79					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GGTGGCGCGGTCCAACACGCC	0.607													15	51	---	---	---	---	PASS	A	34106035	A	A	34106035	3	1	41	1	0	0	0	0	1	0	0	0	9665	1667	58	5	1363	5	MMP28	17	34106035	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	1150432	34106035	47089175	549	16158										
AATF	26574	broad.mit.edu	37	chr17	35311101	35311101	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagctcttggaaggaaggatCaaactacaaaaagctctgtt	9	8	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:35311101C>T	uc002hni.2	+	4	977	c.726C>T	c.(724-726)ATC>ATT	p.I242I	AATF_uc002hnj.2_RNA	NM_012138	NP_036270	Q9NY61	AATF_HUMAN	apoptosis antagonizing transcription factor	242					anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of superoxide anion generation|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to DNA damage stimulus	centrosome|focal adhesion|nucleolus	leucine zipper domain binding|sequence-specific DNA binding transcription factor activity				0		Breast(25;0.00607)				AAGGAAGGATCAAACTACAAA	0.468													18	176	---	---	---	---	PASS	T	35311101	T	T	35311101	2	4	41	1	0	0	0	0	0	0	0	1	25	816	29	2		2	AATF	17	35311101	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1205066	35311101	45884109	550	16159										
RAPGEFL1	51195	broad.mit.edu	37	chr17	38347644	38347644	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cttggagctgctgctgcagcGctgcagcgaggtcacgcact	14	13	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:38347644G>A	uc010cwu.1	+	9	1284	c.794G>A	c.(793-795)CGC>CAC	p.R265H	RAPGEFL1_uc010wfd.1_Missense_Mutation_p.R201H	NM_016339	NP_057423	Q9UHV5	RPGFL_HUMAN	Rap guanine nucleotide exchange factor	471	Ras-GEF.				G-protein coupled receptor protein signaling pathway|nervous system development|small GTPase mediated signal transduction	intracellular|membrane fraction	guanyl-nucleotide exchange factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						CTGCTGCAGCGCTGCAGCGAG	0.692													4	15	---	---	---	---	PASS	A	38347644	A	A	38347644	3	1	41	1	0	0	0	0	1	0	0	0	13049	1087	38	1	820	1	RAPGEFL1	17	38347644	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	3036543	38347644	42847566	551	16160										
KRTAP4-4	84616	broad.mit.edu	37	chr17	39316871	39316871	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcagcaggtggtctggcagtAgctgggacggcagcagttct	17	9	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:39316871A>T	uc002hwc.2	-	1	113	c.73T>A	c.(73-75)TAC>AAC	p.Y25N		NM_032524	NP_115913	Q9BYR3	KRA44_HUMAN	keratin associated protein 4.4	25	26 X 5 AA repeats of C-C-[GRQVCH]-[SPT]- [VSTQR].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			GTCTGGCAGTAGCTGGGACGG	0.637													27	115	---	---	---	---	PASS	T	39316871	T	T	39316871	3	4	41	1	0	0	0	0	1	0	0	0	8553	420	15	5	431	5	KRTAP4-4	17	39316871	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	969227	39316871	41878339	552	16161										
STAT5A	6776	broad.mit.edu	37	chr17	40447725	40447725	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgaggagctgcgactggtcaCgcaggacacagagaatgagc	15	9	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:40447725C>T	uc002hzj.1	+	6	1106	c.464C>T	c.(463-465)ACG>ATG	p.T155M	STAT5A_uc010cya.1_Missense_Mutation_p.T155M|STAT5A_uc010cyb.1_Missense_Mutation_p.T155M|STAT5A_uc010cyc.1_Missense_Mutation_p.T125M	NM_003152	NP_003143	P42229	STA5A_HUMAN	signal transducer and activator of transcription	155					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|oxaloacetate metabolic process|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_cancers(22;1.56e-06)|all_epithelial(22;3.17e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)		CGACTGGTCACGCAGGACACA	0.557													8	38	---	---	---	---	PASS	T	40447725	T	T	40447725	3	4	41	1	0	0	0	0	1	0	0	0	15267	536	19	1	478	1	STAT5A	17	40447725	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1130854	40447725	40747485	553	16162										
AOC3	8639	broad.mit.edu	37	chr17	41004870	41004870	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cggcattcctctttggtgctActgggaagtacgggaaccaa	12	10	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:41004870A>T	uc002ibv.2	+	1	1670	c.1510A>T	c.(1510-1512)ACT>TCT	p.T504S		NM_003734	NP_003725	Q16853	AOC3_HUMAN	amine oxidase, copper containing 3 precursor	504	Extracellular (Potential).				amine metabolic process|cell adhesion|inflammatory response	cell surface|integral to membrane|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|protein homodimerization activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)	Hydralazine(DB01275)|Phenelzine(DB00780)	CTTTGGTGCTACTGGGAAGTA	0.542													92	46	---	---	---	---	PASS	T	41004870	T	T	41004870	3	4	41	1	0	0	0	0	1	0	0	0	728	391	14	5	1512	5	AOC3	17	41004870	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	557145	41004870	40190340	554	16163										
BRCA1	672	broad.mit.edu	37	chr17	41219706	41219706	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttttctggcaaacttgtacaCgagcatctgaaattaaatca	6	8	3	1	rs80357169		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:41219706C>A	uc002icq.2	-	16	5225	c.4993G>T	c.(4993-4995)GTG>TTG	p.V1665L	BRCA1_uc010whp.1_Missense_Mutation_p.V514L|BRCA1_uc010whl.1_Missense_Mutation_p.V561L|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.V1594L|BRCA1_uc002icu.2_Missense_Mutation_p.V561L|BRCA1_uc010cyx.2_Missense_Mutation_p.V1618L|BRCA1_uc002ict.2_Missense_Mutation_p.V1686L|BRCA1_uc010whn.1_Missense_Mutation_p.V156L|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Missense_Mutation_p.V394L|BRCA1_uc002idc.1_Missense_Mutation_p.V561L|BRCA1_uc010whr.1_Missense_Mutation_p.V515L	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	1665	BRCT 1.		V -> M.		androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		AACTTGTACACGAGCATCTGA	0.294			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			61	45	---	---	---	---	PASS	A	41219706	A	A	41219706	3	1	41	1	0	0	0	0	1	0	0	0	1498	536	19	1	630	1	BRCA1	17	41219706	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	214836	41219706	39975504	555	16164										
MPP3	4356	broad.mit.edu	37	chr17	41891578	41891578	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacctaccgatcagaaccacCaggcggggccgctctccggg	12	17	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:41891578C>A	uc002iei.3	-	15	1327	c.1161G>T	c.(1159-1161)CTG>CTT	p.L387L	MPP3_uc002ieh.2_Silent_p.L412L|MPP3_uc002iej.2_RNA	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	387	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		TCAGAACCACCAGGCGGGGCC	0.627													167	100	---	---	---	---	PASS	A	41891578	A	A	41891578	2	1	41	1	0	0	0	0	0	0	0	1	9735	581	21	3		3	MPP3	17	41891578	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	671872	41891578	39303632	556	16165										
ADAM11	4185	broad.mit.edu	37	chr17	42855529	42855529	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atcctccccaggtcccagcgGcaccaacatcatcattggct	7	17	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:42855529G>C	uc002ihh.2	+	25	2195	c.2195G>C	c.(2194-2196)GGC>GCC	p.G732A	ADAM11_uc010wjd.1_Missense_Mutation_p.G532A|ADAM11_uc002ihi.2_Missense_Mutation_p.A85P	NM_002390	NP_002381	O75078	ADA11_HUMAN	ADAM metallopeptidase domain 11 preproprotein	732	Extracellular (Potential).				integrin-mediated signaling pathway|proteolysis	integral to membrane|plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			pancreas(1)	1		Prostate(33;0.0959)				GGTCCCAGCGGCACCAACATC	0.607													8	29	---	---	---	---	PASS	C	42855529	C	C	42855529	3	2	41	1	0	0	0	0	1	0	0	0	235	1203	42	4	2293	4	ADAM11	17	42855529	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	963951	42855529	38339681	557	16166										
WFIKKN2	124857	broad.mit.edu	37	chr17	48917193	48917193	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gccgctatcacttcacctggCccaacaccagccccccacca	5	22	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:48917193C>A	uc002isv.3	+	2	1238	c.544C>A	c.(544-546)CCC>ACC	p.P182T	WFIKKN2_uc010dbu.2_Missense_Mutation_p.P89T	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	182						extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			CTTCACCTGGCCCAACACCAG	0.627													24	32	---	---	---	---	PASS	A	48917193	A	A	48917193	3	1	41	1	0	0	0	0	1	0	0	0	17356	739	26	3	550	3	WFIKKN2	17	48917193	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	6061664	48917193	32278017	558	16167										
CCDC45	90799	broad.mit.edu	37	chr17	62533868	62533868	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctcggcttcagctggcttccTttcagtacagtaaaagtccc	8	13	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:62533868T>G	uc002jem.2	+	20	2495	c.2437T>G	c.(2437-2439)TTT>GTT	p.F813V	CCDC45_uc002jen.2_RNA|CCDC45_uc010wqb.1_Missense_Mutation_p.F649V	NM_138363	NP_612372	Q96GE4	CEP95_HUMAN	coiled-coil domain containing 45	813						centrosome|spindle pole	protein binding				0	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			GCTGGCTTCCTTTCAGTACAG	0.478													6	24	---	---	---	---	PASS	G	62533868	G	G	62533868	3	3	41	1	0	0	0	0	1	0	0	0	2816	1609	56	5	2515	5	CCDC45	17	62533868	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	13616675	62533868	18661342	559	16168										
BPTF	2186	broad.mit.edu	37	chr17	65889725	65889725	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccagcaggagagttcaaatgGaacggttctgtccatgggtc	13	9	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:65889725G>T	uc002jgf.2	+	6	2356	c.2295G>T	c.(2293-2295)TGG>TGT	p.W765C	BPTF_uc002jge.2_Missense_Mutation_p.W891C|BPTF_uc010wqm.1_Missense_Mutation_p.W828C	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	891	Interaction with MAZ.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			AGTTCAAATGGAACGGTTCTG	0.423													37	116	---	---	---	---	PASS	T	65889725	T	T	65889725	3	4	41	1	0	0	0	0	1	0	0	0	1495	1183	41	2	2703	2	BPTF	17	65889725	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	3355857	65889725	15305485	560	16169										
BPTF	2186	broad.mit.edu	37	chr17	65925453	65925453	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggcttcatctttttttaaggCgttgttcaagtacagcagaa	9	7	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:65925453C>T	uc002jgf.2	+	17	6061	c.6000C>T	c.(5998-6000)GGC>GGT	p.G2000G	BPTF_uc002jge.2_Silent_p.G2126G	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2126					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TTTTTTAAGGCGTTGTTCAAG	0.428													70	68	---	---	---	---	PASS	T	65925453	T	T	65925453	2	4	41	1	0	0	0	0	0	0	0	1	1495	782	27	1		1	BPTF	17	65925453	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	35728	65925453	15269757	561	16170										
ABCA6	23460	broad.mit.edu	37	chr17	67081191	67081191	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgcgatggcgagcctcgcgtCcgctttcctgagccccttga	12	15	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:67081191C>G	uc002jhw.1	-	32	4337	c.4162G>C	c.(4162-4164)GAC>CAC	p.D1388H		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	1388	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					AGCCTCGCGTCCGCTTTCCTG	0.557													28	29	---	---	---	---	PASS	G	67081191	G	G	67081191	3	3	41	1	0	0	0	0	1	0	0	0	36	855	30	2	723	2	ABCA6	17	67081191	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1155738	67081191	14114019	562	16171										
CD300C	10871	broad.mit.edu	37	chr17	72539114	72539114	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agctctgggggctggaggctGtggtcgtcccggctgtgggt	20	9	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:72539114G>T	uc002jky.1	-	3	774	c.413C>A	c.(412-414)ACA>AAA	p.T138K		NM_006678	NP_006669	Q08708	CLM6_HUMAN	CD300C antigen precursor	138	Pro-rich.|Extracellular (Potential).				cellular defense response	integral to plasma membrane	transmembrane receptor activity				0						GCTGGAGGCTGTGGTCGTCCC	0.597													5	132	---	---	---	---	PASS	T	72539114	T	T	72539114	3	4	41	1	0	0	0	0	1	0	0	0	2997	1377	48	3	269	3	CD300C	17	72539114	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	5457923	72539114	8656096	563	16172										
SAP30BP	29115	broad.mit.edu	37	chr17	73702537	73702537	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgtcacggtcaccaccagcgCcagcggctccaagaccaccg	10	18	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:73702537C>T	uc002jpe.2	+	11	917	c.863C>T	c.(862-864)GCC>GTC	p.A288V	SAP30BP_uc002jpc.1_RNA|SAP30BP_uc010wsf.1_RNA|SAP30BP_uc010wsg.1_RNA|SAP30BP_uc002jpf.2_Missense_Mutation_p.A272V	NM_013260	NP_037392	Q9UHR5	S30BP_HUMAN	transcriptional regulator protein	288	Thr-rich.				apoptosis|induction of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1	all_cancers(13;6.42e-08)		all cancers(21;4.25e-07)|Epithelial(20;9.57e-07)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			ACCACCAGCGCCAGCGGCTCC	0.607													113	139	---	---	---	---	PASS	T	73702537	T	T	73702537	3	4	41	1	0	0	0	0	1	0	0	0	13834	739	26	3	905	3	SAP30BP	17	73702537	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1163423	73702537	7492673	564	16173										
ITGB4	3691	broad.mit.edu	37	chr17	73747075	73747075	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgcccagcgagccagggcgtCtggccttcaatgtcgtctcc	12	15	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:73747075C>T	uc002jpg.2	+	30	3863	c.3676C>T	c.(3676-3678)CTG>TTG	p.L1226L	ITGB4_uc002jph.2_Silent_p.L1226L|ITGB4_uc002jpi.3_Silent_p.L1226L|ITGB4_uc002jpj.2_Silent_p.L1226L	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1226	Fibronectin type-III 2.|Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCCAGGGCGTCTGGCCTTCAA	0.632													55	222	---	---	---	---	PASS	T	73747075	T	T	73747075	2	4	41	1	0	0	0	0	0	0	0	1	7897	912	32	2		2	ITGB4	17	73747075	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	44538	73747075	7448135	565	16174										
MGAT5B	146664	broad.mit.edu	37	chr17	74944914	74944914	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtggccttgtgccagggctgTctgtgaatccgcctctgccg	14	13	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr17:74944914T>C	uc002jti.2	+	16	2503	c.2400T>C	c.(2398-2400)TGT>TGC	p.C800C	MGAT5B_uc002jth.2_Silent_p.C789C|MGAT5B_uc002jtj.2_Silent_p.C196C	NM_198955	NP_945193	Q3V5L5	MGT5B_HUMAN	N-acetylglucosaminyltranferase VB isoform 2	791	Lumenal (Potential).					Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						GCCAGGGCTGTCTGTGAATCC	0.677													3	15	---	---	---	---	PASS	C	74944914	C	C	74944914	2	2	41	1	0	0	0	0	0	0	0	1	9549	1673	58	5		5	MGAT5B	17	74944914	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	1197839	74944914	6250296	566	16175										
ANKRD12	23253	broad.mit.edu	37	chr18	9208692	9208692	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aagaagaagacaaaaaaggaAgctggaaataagaaatccac	9	5	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr18:9208692A>T	uc002knv.2	+	5	599	c.342A>T	c.(340-342)GAA>GAT	p.E114D	ANKRD12_uc010wzn.1_Missense_Mutation_p.E114D|ANKRD12_uc002knw.2_Missense_Mutation_p.E91D|ANKRD12_uc002knx.2_Missense_Mutation_p.E91D	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	114						nucleus				ovary(2)|central_nervous_system(1)	3						CAAAAAAGGAAGCTGGAAATA	0.353													61	57	---	---	---	---	PASS	T	9208692	T	T	9208692	3	4	41	1	0	0	0	0	1	0	0	0	640	69	3	5	356	5	ANKRD12	18	9208692	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08		9208692	68868556	567	16176										
RNMT	8731	broad.mit.edu	37	chr18	13759960	13759960	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggtatttacttggtgtttgcCtttgagaaacagcagtgagc	12	6	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr18:13759960C>G	uc002ksk.1	+	11	1480	c.1413C>G	c.(1411-1413)GCC>GCG	p.A471A	RNMT_uc002ksl.1_Silent_p.A471A|RNMT_uc002ksm.1_Silent_p.A471A|RNMT_uc010dlk.2_Intron|RNMT_uc010xae.1_RNA	NM_003799	NP_003790	O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	471					mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	mRNA (guanine-N7-)-methyltransferase activity|RNA binding				0						TGGTGTTTGCCTTTGAGAAAC	0.353													30	39	---	---	---	---	PASS	G	13759960	G	G	13759960	2	3	41	1	0	0	0	0	0	0	0	1	13506	668	24	4		4	RNMT	18	13759960	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	4551268	13759960	64317288	568	16177										
ROCK1	6093	broad.mit.edu	37	chr18	18571141	18571141	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	taaaactgacacttaccacaCattgccacagactttgcctc	4	14	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr18:18571141C>T	uc002kte.2	-	18	3080	c.2139G>A	c.(2137-2139)ATG>ATA	p.M713I		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	713	Glu-rich.|Interaction with FHOD1.				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)					ACTTACCACACATTGCCACAG	0.318													217	164	---	---	---	---	PASS	T	18571141	T	T	18571141	3	4	41	1	0	0	0	0	1	0	0	0	13517	478	17	3	1989	3	ROCK1	18	18571141	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4811181	18571141	59506107	569	16178										
MIB1	57534	broad.mit.edu	37	chr18	19424132	19424132	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcatgaagctctaaggcatcAcactttgtctcagctacgtc	8	12	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr18:19424132A>T	uc002ktq.2	+	15	2129	c.2129A>T	c.(2128-2130)CAC>CTC	p.H710L	MIB1_uc002ktp.2_Missense_Mutation_p.H349L	NM_020774	NP_065825	Q86YT6	MIB1_HUMAN	mindbomb homolog 1	710	ANK 9.				Notch signaling pathway	centrosome|nuclear membrane|plasma membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(4)	4			STAD - Stomach adenocarcinoma(5;0.212)			CTAAGGCATCACACTTTGTCT	0.468													50	280	---	---	---	---	PASS	T	19424132	T	T	19424132	3	4	41	1	0	0	0	0	1	0	0	0	9566	159	6	5	2187	5	MIB1	18	19424132	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	852991	19424132	58653116	570	16179										
CDH2	1000	broad.mit.edu	37	chr18	25562912	25562912	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttaaagcactgctcacctggTcttcttctcctccaccttct	4	16	5	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr18:25562912T>A	uc002kwg.2	-	14	2804	c.2345A>T	c.(2344-2346)GAC>GTC	p.D782V	CDH2_uc010xbn.1_Missense_Mutation_p.D751V	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	782	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						GCTCACCTGGTCTTCTTCTCC	0.323													9	350	---	---	---	---	PASS	A	25562912	A	A	25562912	3	1	41	1	0	0	0	0	1	0	0	0	3105	1667	58	5	387	5	CDH2	18	25562912	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	6138780	25562912	52514336	571	16180										
DSC3	1825	broad.mit.edu	37	chr18	28612202	28612202	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctagtttagaaggtacattaAgtatcacctttttgcaggct	8	7	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr18:28612202A>T	uc002kwj.3	-	2	265	c.110T>A	c.(109-111)CTT>CAT	p.L37H	DSC3_uc002kwi.3_Missense_Mutation_p.L37H	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	37					homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			AGGTACATTAAGTATCACCTT	0.294													6	310	---	---	---	---	PASS	T	28612202	T	T	28612202	3	4	41	1	0	0	0	0	1	0	0	0	4767	72	3	5	2671	5	DSC3	18	28612202	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	3049290	28612202	49465046	572	16181										
DSG4	147409	broad.mit.edu	37	chr18	28966736	28966736	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtggatcaagtttgccgcagCctgtcgagaaggagaggaca	15	8	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr18:28966736C>A	uc002kwq.2	+	3	305	c.170C>A	c.(169-171)GCC>GAC	p.A57D	DSG4_uc002kwr.2_Missense_Mutation_p.A57D	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	57	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TTTGCCGCAGCCTGTCGAGAA	0.448													53	314	---	---	---	---	PASS	A	28966736	A	A	28966736	3	1	41	1	0	0	0	0	1	0	0	0	4779	739	26	3	180	3	DSG4	18	28966736	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	354534	28966736	49110512	573	16182										
C18orf34	374864	broad.mit.edu	37	chr18	30926304	30926304	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtctgcccggtcagtttctaGacttttaatgagacgaatgg	11	8	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr18:30926304G>C	uc002kxn.2	-	8	671	c.529C>G	c.(529-531)CTA>GTA	p.L177V	C18orf34_uc010xbr.1_Missense_Mutation_p.L177V|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.L177V|C18orf34_uc002kxp.2_Missense_Mutation_p.L177V	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	177	Potential.									ovary(1)	1						TCAGTTTCTAGACTTTTAATG	0.363													22	331	---	---	---	---	PASS	C	30926304	C	C	30926304	3	2	41	1	0	0	0	0	1	0	0	0	1902	933	33	2	2134	2	C18orf34	18	30926304	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1959568	30926304	47150944	574	16183										
ZNF236	7776	broad.mit.edu	37	chr18	74592249	74592249	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agcagctgagcatcacagtgGgcatcaaccaggacatttta	10	10	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr18:74592249G>T	uc002lmi.2	+	8	1357	c.1159G>T	c.(1159-1161)GGC>TGC	p.G387C	ZNF236_uc002lmj.2_RNA|ZNF236_uc002lmk.1_Missense_Mutation_p.G387C	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	387					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CATCACAGTGGGCATCAACCA	0.597													13	19	---	---	---	---	PASS	T	74592249	T	T	74592249	3	4	41	1	0	0	0	0	1	0	0	0	17786	1232	43	3	1189	3	ZNF236	18	74592249	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	43665945	74592249	3484999	575	16184										
GRIN3B	116444	broad.mit.edu	37	chr19	1004702	1004702	+	Frame_Shift_Del	DEL	C	-	-													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggacttggaaccgggaggtgCctctgcacggcccccgcccc							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:1004702delC	uc002lqo.1	+	3	1202	c.1202delC	c.(1201-1203)GCCfs	p.A401fs		NM_138690	NP_619635	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic,	401	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|protein insertion into membrane|regulation of calcium ion transport	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|ionotropic glutamate receptor activity|neurotransmitter receptor activity				0		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Glycine(DB00145)|L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	CCGGGAGGTGCCTCTGCACGG	0.687													11	7	---	---	---	---		-	1004702	-	-	1004702	7	5	41	1	0	1	0	1	0	0	0	0	6784	739	26	0	1212	0	GRIN3B	19	1004702	Frame_Shift_Del	DEL	C	TCGA-22-4613-01A-01D-1441-08		1004702	58124281	576	16185										
ZFR2	23217	broad.mit.edu	37	chr19	3823291	3823291	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgcgcatcagagcagcccgCgggagcttcctttgagcctc	12	15	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:3823291C>G	uc002lyw.2	-	8	1336	c.1324G>C	c.(1324-1326)GCG>CCG	p.A442P	ZFR2_uc010xhx.1_RNA	NM_015174	NP_055989	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2 isoform 1	442						intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		GAGCAGCCCGCGGGAGCTTCC	0.632													7	164	---	---	---	---	PASS	G	3823291	G	G	3823291	3	3	41	1	0	0	0	0	1	0	0	0	17657	768	27	4	1543	4	ZFR2	19	3823291	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2818589	3823291	55305692	577	16186										
HNRNPM	4670	broad.mit.edu	37	chr19	8550724	8550724	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	catggcctccagcattgagcGcatgggccagaccatggagc	13	13	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:8550724G>C	uc010dwe.2	+	14	1492	c.1412G>C	c.(1411-1413)CGC>CCC	p.R471P	HNRNPM_uc010xke.1_Missense_Mutation_p.R417P|HNRNPM_uc010dwd.2_Missense_Mutation_p.R432P|HNRNPM_uc002mka.2_Missense_Mutation_p.R336P|HNRNPM_uc002mkb.1_5'Flank	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	471	10.|27 X 6 AA repeats of [GEVSTPAN]-[ILMV]- [DE]-[RH]-[MLVI]-[GAV].				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						AGCATTGAGCGCATGGGCCAG	0.687													23	69	---	---	---	---	PASS	C	8550724	C	C	8550724	3	2	41	1	0	0	0	0	1	0	0	0	7271	1087	38	4	1466	4	HNRNPM	19	8550724	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	4727433	8550724	50578259	578	16187										
MUC16	94025	broad.mit.edu	37	chr19	9058345	9058345	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gctcataagattggtcatctCtgagtgtgaaagtccttgag	11	7	3	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:9058345C>A	uc002mkp.2	-	3	29305	c.29101G>T	c.(29101-29103)GAG>TAG	p.E9701*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9703	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTGGTCATCTCTGAGTGTGAA	0.478													12	56	---	---	---	---	PASS	A	9058345	A	A	9058345	4	1	41	1	0	0	0	0	0	1	0	0	9973	922	32	2	14750	2	MUC16	19	9058345	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	507621	9058345	50070638	579	16188										
OR7E24	26648	broad.mit.edu	37	chr19	9362505	9362505	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttctccacctgtggctctcaCctggcagttgtttgcttatt	8	12	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:9362505C>A	uc002mlb.1	+	1	786	c.786C>A	c.(784-786)CAC>CAA	p.H262Q		NM_001079935	NP_001073404	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E,	262	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GTGGCTCTCACCTGGCAGTTG	0.458													11	28	---	---	---	---	PASS	A	9362505	A	A	9362505	3	1	41	1	0	0	0	0	1	0	0	0	11221	506	18	3	788	3	OR7E24	19	9362505	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	304160	9362505	49766478	580	16189										
FBXW9	84261	broad.mit.edu	37	chr19	12800594	12800594	+	Missense_Mutation	SNP	C	A	A													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cccggataagctggaagcagCcgttgcggttggcgaagacg					rs62108390		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:12800594C>A	uc010dyx.2	-	7	1187	c.1187G>T	c.(1186-1188)GGC>GTC	p.G396V	FBXW9_uc010xmp.1_RNA|uc002mul.1_3'UTR|FBXW9_uc002mum.1_Missense_Mutation_p.G376V|FBXW9_uc002mun.1_Missense_Mutation_p.G213V	NM_032301	NP_115677	Q5XUX1	FBXW9_HUMAN	F-box and WD-40 domain protein 9	406	WD 5.						protein binding			ovary(1)	1						CTGGAAGCAGCCGTTGCGGTT	0.657													23	66	---	---	---	---	PASS	A	12800594	A	A	12800594	3	1	41	1	0	0	0	0	1	0	0	0	5771	739	26	3	265	3	FBXW9	19	12800594	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3438089	12800594	46328389	581	16190	392	2								
FBXW9	84261	broad.mit.edu	37	chr19	12800595	12800595	+	Missense_Mutation	SNP	C	A	A													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccggataagctggaagcagcCgttgcggttggcgaagacgt					rs147127517	byFrequency	TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:12800595C>A	uc010dyx.2	-	7	1186	c.1186G>T	c.(1186-1188)GGC>TGC	p.G396C	FBXW9_uc010xmp.1_RNA|uc002mul.1_3'UTR|FBXW9_uc002mum.1_Missense_Mutation_p.G376C|FBXW9_uc002mun.1_Missense_Mutation_p.G213C	NM_032301	NP_115677	Q5XUX1	FBXW9_HUMAN	F-box and WD-40 domain protein 9	406	WD 5.						protein binding			ovary(1)	1						TGGAAGCAGCCGTTGCGGTTG	0.657													23	64	---	---	---	---	PASS	A	12800595	A	A	12800595	3	1	41	1	0	0	0	0	1	0	0	0	5771	652	23	1	266	1	FBXW9	19	12800595	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1	12800595	46328388	582	16191	392	2								
CC2D1A	54862	broad.mit.edu	37	chr19	14023230	14023230	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gggacggatgaggacgacttGgaggctgatgatgacctgct	17	7	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:14023230G>C	uc002mxo.2	+	3	590	c.291G>C	c.(289-291)TTG>TTC	p.L97F	CC2D1A_uc002mxn.2_Intron|CC2D1A_uc002mxp.2_Missense_Mutation_p.L97F|CC2D1A_uc010dzh.2_5'Flank	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	97					positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			AGGACGACTTGGAGGCTGATG	0.627													9	23	---	---	---	---	PASS	C	14023230	C	C	14023230	3	2	41	1	0	0	0	0	1	0	0	0	2726	1339	47	4	301	4	CC2D1A	19	14023230	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1222635	14023230	45105753	583	16192										
CYP4F8	11283	broad.mit.edu	37	chr19	15726522	15726522	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cggggcctcctggctcctggCccgcatcctggcctggacct	13	18	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:15726522C>T	uc002nbi.2	+	2	159	c.95C>T	c.(94-96)GCC>GTC	p.A32V	CYP4F8_uc010xoi.1_Missense_Mutation_p.A32V|CYP4F8_uc010xoj.1_5'UTR	NM_007253	NP_009184	P98187	CP4F8_HUMAN	cytochrome P450, family 4, subfamily F,	32	Helical; (Potential).				prostaglandin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	alkane 1-monooxygenase activity|aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			large_intestine(1)	1						TGGCTCCTGGCCCGCATCCTG	0.672													24	43	---	---	---	---	PASS	T	15726522	T	T	15726522	3	4	41	1	0	0	0	0	1	0	0	0	4191	739	26	3	97	3	CYP4F8	19	15726522	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1703292	15726522	43402461	584	16193										
NR2F6	2063	broad.mit.edu	37	chr19	17355849	17355849	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atgcttgccgctcgacttgtCcccgcacaccacgcagtcca	8	18	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:17355849C>G	uc002nfq.2	-	1	303	c.181G>C	c.(181-183)GAC>CAC	p.D61H		NM_005234	NP_005225	P10588	NR2F6_HUMAN	nuclear receptor subfamily 2, group F, member 6	61	Nuclear receptor.|NR C4-type.				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding				0						CTCGACTTGTCCCCGCACACC	0.692													4	12	---	---	---	---	PASS	G	17355849	G	G	17355849	3	3	41	1	0	0	0	0	1	0	0	0	10629	855	30	2	1049	2	NR2F6	19	17355849	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1629327	17355849	41773134	585	16194										
ANKLE1	126549	broad.mit.edu	37	chr19	17396327	17396327	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cgtgccatcttctacgtgggCaaagggacgagggcccggcc	15	13	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:17396327C>A	uc002nga.2	+	7	1740	c.1464C>A	c.(1462-1464)GGC>GGA	p.G488G	ANKLE1_uc010xpm.1_RNA|ANKLE1_uc010eao.1_Silent_p.G484G|ANKLE1_uc010xpn.1_Silent_p.G516G|ANKLE1_uc002nfy.2_Silent_p.G451G|ANKLE1_uc002nfz.2_Silent_p.G194G	NM_152363	NP_689576	Q8NAG6	ANKL1_HUMAN	ankyrin repeat domain 41	488						nuclear envelope					0						TCTACGTGGGCAAAGGGACGA	0.612													40	175	---	---	---	---	PASS	A	17396327	A	A	17396327	2	1	41	1	0	0	0	0	0	0	0	1	632	697	25	3		3	ANKLE1	19	17396327	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	40478	17396327	41732656	586	16195										
UNC13A	23025	broad.mit.edu	37	chr19	17756582	17756582	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cctcttgaacctctgtttcaCgcgggatttgatgtcgtcat	9	11	4	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:17756582C>A	uc002nhd.2	-	19	2521	c.2521G>T	c.(2521-2523)GTG>TTG	p.V841L		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	753	C2 2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						CTCTGTTTCACGCGGGATTTG	0.587													10	20	---	---	---	---	PASS	A	17756582	A	A	17756582	3	1	41	1	0	0	0	0	1	0	0	0	16981	536	19	1	2954	1	UNC13A	19	17756582	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	360255	17756582	41372401	587	16196										
HAPLN4	404037	broad.mit.edu	37	chr19	19369365	19369365	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cgtgaagcagaaggcgtcgtAgcgttcctcggcgttatggc	15	10	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:19369365A>G	uc002nmb.2	-	4	839	c.784T>C	c.(784-786)TAC>CAC	p.Y262H	HAPLN4_uc002nmc.2_Missense_Mutation_p.Y262H	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	262	Link 1.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			AAGGCGTCGTAGCGTTCCTCG	0.692													20	41	---	---	---	---	PASS	G	19369365	G	G	19369365	3	3	41	1	0	0	0	0	1	0	0	0	6957	420	15	5	432	5	HAPLN4	19	19369365	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	1612783	19369365	39759618	588	16197										
ZNF536	9745	broad.mit.edu	37	chr19	30935560	30935560	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtggttcctcaagggtcacaTgcgcaagcacaaagactcct	10	12	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:30935560T>A	uc002nsu.1	+	2	1229	c.1091T>A	c.(1090-1092)ATG>AAG	p.M364K	ZNF536_uc010edd.1_Missense_Mutation_p.M364K	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	364	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					AAGGGTCACATGCGCAAGCAC	0.627													58	139	---	---	---	---	PASS	A	30935560	A	A	30935560	3	1	41	1	0	0	0	0	1	0	0	0	17971	1464	51	5	1093	5	ZNF536	19	30935560	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	11566195	30935560	28193423	589	16198										
ZNF527	84503	broad.mit.edu	37	chr19	37879573	37879573	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cccaaaattcagtcataattGaatataaaagactccatgct	4	9	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:37879573G>T	uc010efk.1	+	5	733	c.622G>T	c.(622-624)GAA>TAA	p.E208*	ZNF527_uc002ogf.3_Nonsense_Mutation_p.E176*|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	208					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGTCATAATTGAATATAAAAG	0.323													14	102	---	---	---	---	PASS	T	37879573	T	T	37879573	4	4	41	1	0	0	0	0	0	1	0	0	17965	1291	45	2	636	2	ZNF527	19	37879573	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6944013	37879573	21249410	590	16199										
ITPKC	80271	broad.mit.edu	37	chr19	41231345	41231345	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccagctttctggacatgctgGtaagtggggtggtggtggac	17	7	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:41231345G>T	uc002oot.2	+	2	1288	c.1255_splice	c.e2+1	p.G419_splice		NM_025194	NP_079470	Q96DU7	IP3KC_HUMAN	inositol 1,4,5-trisphosphate 3-kinase C							cytoplasm|nucleus	ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity				0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			GGACATGCTGGTAAGTGGGGT	0.428													55	80	---	---	---	---	PASS	T	41231345	T	T	41231345	5	4	41	1	0	0	0	0	0	0	1	0	7919	1275	44	3	1262	3	ITPKC	19	41231345	Splice_Site	SNP	G	TCGA-22-4613-01A-01D-1441-08	3351772	41231345	17897638	591	16200										
ZFP112	7771	broad.mit.edu	37	chr19	44832207	44832207	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acactctgatgactctgaagGtatgatctctgactgaaact	8	9	3	6			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:44832207G>T	uc010ejj.2	-	5	2234	c.2121C>A	c.(2119-2121)TAC>TAA	p.Y707*	ZFP112_uc002ozc.3_Nonsense_Mutation_p.Y701*|ZFP112_uc010xwy.1_Nonsense_Mutation_p.Y724*|ZFP112_uc010xwz.1_Nonsense_Mutation_p.Y706*	NM_001083335	NP_001076804	Q9UJU3	ZF112_HUMAN	zinc finger protein 228 isoform 1	707	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)	5						GACTCTGAAGGTATGATCTCT	0.458													16	112	---	---	---	---	PASS	T	44832207	T	T	44832207	4	4	41	1	0	0	0	0	0	1	0	0	17635	1256	44	3	624	3	ZFP112	19	44832207	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	3600862	44832207	14296776	592	16201										
GEMIN7	79760	broad.mit.edu	37	chr19	45593723	45593723	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ataggtgtgcaagcagaggcGctgctccgatgtagtgacat	14	8	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:45593723G>T	uc002pap.1	+	3	502	c.351G>T	c.(349-351)GCG>GCT	p.A117A	uc002pas.2_5'Flank|GEMIN7_uc002paq.1_Silent_p.A117A|GEMIN7_uc002par.1_Silent_p.A117A	NM_001007270	NP_001007271	Q9H840	GEMI7_HUMAN	gemin 7	117					ncRNA metabolic process|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0131)		AAGCAGAGGCGCTGCTCCGAT	0.527													24	55	---	---	---	---	PASS	T	45593723	T	T	45593723	2	4	41	1	0	0	0	0	0	0	0	1	6333	1074	38	1		1	GEMIN7	19	45593723	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	761516	45593723	13535260	593	16202										
RSPH6A	81492	broad.mit.edu	37	chr19	46307718	46307718	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agatgcgggctatctgggccCgcaggtagttggcctcgttg	16	10	1	1	rs139803225		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:46307718C>G	uc002pdm.2	-	3	1588	c.1445G>C	c.(1444-1446)CGG>CCG	p.R482P	RSPH6A_uc002pdl.2_Missense_Mutation_p.R218P	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	482						intracellular				ovary(1)|central_nervous_system(1)	2						TATCTGGGCCCGCAGGTAGTT	0.622													14	33	---	---	---	---	PASS	G	46307718	G	G	46307718	3	3	41	1	0	0	0	0	1	0	0	0	13707	652	23	4	724	4	RSPH6A	19	46307718	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	713995	46307718	12821265	594	16203										
SLC1A5	6510	broad.mit.edu	37	chr19	47285696	47285696	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttgaaggagttgaagaagcgGataagcagctccccttcagg	13	8	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:47285696G>T	uc002pfs.2	-	4	1388	c.768C>A	c.(766-768)ATC>ATA	p.I256I	SLC1A5_uc010xyh.1_Silent_p.I54I|SLC1A5_uc002pfq.2_Silent_p.I80I|SLC1A5_uc002pfr.2_Silent_p.I28I	NM_005628	NP_005619	Q15758	AAAT_HUMAN	solute carrier family 1 member 5 isoform 1	256					cellular nitrogen compound metabolic process	integral to plasma membrane|melanosome|membrane fraction	neutral amino acid transmembrane transporter activity|protein binding|receptor activity|sodium:dicarboxylate symporter activity				0		all_epithelial(76;0.00314)|Ovarian(192;0.0798)|all_neural(266;0.107)		OV - Ovarian serous cystadenocarcinoma(262;0.000338)|all cancers(93;0.000882)|Epithelial(262;0.0211)|GBM - Glioblastoma multiforme(486;0.0341)	L-Asparagine(DB00174)|L-Glutamine(DB00130)	TGAAGAAGCGGATAAGCAGCT	0.602													60	118	---	---	---	---	PASS	T	47285696	T	T	47285696	2	4	41	1	0	0	0	0	0	0	0	1	14435	1164	41	2		2	SLC1A5	19	47285696	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	977978	47285696	11843287	595	16204										
MYH14	79784	broad.mit.edu	37	chr19	50785099	50785099	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aagcagcgcaagtttgaccaGgtggggcacctcagttcacc	12	12	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:50785099G>T	uc002prr.1	+	31	4463	c.4416G>T	c.(4414-4416)CAG>CAT	p.Q1472H	MYH14_uc010enu.1_Missense_Mutation_p.Q1513H|MYH14_uc002prq.1_Missense_Mutation_p.Q1480H|MYH14_uc010ycb.1_Intron|MYH14_uc002prs.1_5'Flank	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1472	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		AGTTTGACCAGGTGGGGCACC	0.617													6	23	---	---	---	---	PASS	T	50785099	T	T	50785099	3	4	41	1	0	0	0	0	1	0	0	0	10033	1014	35	3	4665	3	MYH14	19	50785099	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	3499403	50785099	8343884	596	16205										
ACPT	93650	broad.mit.edu	37	chr19	51295012	51295012	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctccagggagccccgaggccCgctggaggccgatcccggtg	16	16	0	0	rs149222498		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:51295012C>A	uc002pta.1	+	4	403	c.403C>A	c.(403-405)CGC>AGC	p.R135S		NM_033068	NP_149059	Q9BZG2	PPAT_HUMAN	testicular acid phosphatase precursor	135	Extracellular (Potential).					integral to membrane	acid phosphatase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		CCCCGAGGCCCGCTGGAGGCC	0.692													8	12	---	---	---	---	PASS	A	51295012	A	A	51295012	3	1	41	1	0	0	0	0	1	0	0	0	168	652	23	1	417	1	ACPT	19	51295012	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	509913	51295012	7833971	597	16206										
ZNF808	388558	broad.mit.edu	37	chr19	53058070	53058070	+	Missense_Mutation	SNP	G	T	T													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttgtgacacagctttcacgtGgaattcacagctggcacgac							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:53058070G>T	uc010epq.1	+	5	2078	c.1901G>T	c.(1900-1902)TGG>TTG	p.W634L	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	634	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		GCTTTCACGTGGAATTCACAG	0.403													22	51	---	---	---	---	PASS	T	53058070	T	T	53058070	3	4	41	1	0	0	0	0	1	0	0	0	18170	1357	47	3	1911	3	ZNF808	19	53058070	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1763058	53058070	6070913	598	16207	393	2								
ZNF808	388558	broad.mit.edu	37	chr19	53058071	53058071	+	Missense_Mutation	SNP	G	T	T													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgtgacacagctttcacgtgGaattcacagctggcacgaca							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:53058071G>T	uc010epq.1	+	5	2079	c.1902G>T	c.(1900-1902)TGG>TGT	p.W634C	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	634	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		CTTTCACGTGGAATTCACAGC	0.398													22	50	---	---	---	---	PASS	T	53058071	T	T	53058071	3	4	41	1	0	0	0	0	1	0	0	0	18170	1183	41	2	1912	2	ZNF808	19	53058071	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1	53058071	6070912	599	16208	393	2								
ZNF415	55786	broad.mit.edu	37	chr19	53612393	53612393	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agaccttgtcacactcataaCatttgtaaggtttctctcca	5	11	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:53612393C>A	uc002qax.2	-	7	1398	c.1049G>T	c.(1048-1050)TGT>TTT	p.C350F	ZNF415_uc002qat.2_Missense_Mutation_p.C314F|ZNF415_uc002qaw.2_Missense_Mutation_p.C302F|ZNF415_uc010yds.1_Missense_Mutation_p.C302F|ZNF415_uc010ydt.1_Missense_Mutation_p.C302F|ZNF415_uc002qau.2_Missense_Mutation_p.C289F|ZNF415_uc002qav.2_Missense_Mutation_p.C314F|ZNF415_uc002qba.2_Missense_Mutation_p.C72F|ZNF415_uc002qay.2_Missense_Mutation_p.C289F|ZNF415_uc002qaz.2_Missense_Mutation_p.C350F	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	350	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		ACACTCATAACATTTGTAAGG	0.403													8	76	---	---	---	---	PASS	A	53612393	A	A	53612393	3	1	41	1	0	0	0	0	1	0	0	0	17889	478	17	3	766	3	ZNF415	19	53612393	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	554322	53612393	5516590	600	16209										
ZNF813	126017	broad.mit.edu	37	chr19	53995112	53995112	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acacaccttgcacatcatcaTagacttcatactggagataa	5	11	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:53995112T>G	uc002qbu.2	+	4	1754	c.1626T>G	c.(1624-1626)CAT>CAG	p.H542Q	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	542	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		CACATCATCATAGACTTCATA	0.383													4	44	---	---	---	---	PASS	G	53995112	G	G	53995112	3	3	41	1	0	0	0	0	1	0	0	0	18172	1403	49	5	1636	5	ZNF813	19	53995112	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	382719	53995112	5133871	601	16210										
ZNF331	55422	broad.mit.edu	37	chr19	54080374	54080374	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcatactggggagaagccctAcgaatgtaaagactgtggga	13	7	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:54080374A>G	uc002qbx.1	+	7	1994	c.560A>G	c.(559-561)TAC>TGC	p.Y187C	ZNF331_uc002qby.1_Missense_Mutation_p.Y187C|ZNF331_uc002qbz.1_Missense_Mutation_p.Y187C|ZNF331_uc002qca.1_Missense_Mutation_p.Y187C|ZNF331_uc010eqr.1_Missense_Mutation_p.Y187C|ZNF331_uc002qcb.1_Missense_Mutation_p.Y187C|ZNF331_uc002qcc.1_Missense_Mutation_p.Y187C|ZNF331_uc002qcd.1_Missense_Mutation_p.Y187C	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	187	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		GAGAAGCCCTACGAATGTAAA	0.418			T	?	follicular thyroid adenoma								41	79	---	---	---	---	PASS	G	54080374	G	G	54080374	3	3	41	1	0	0	0	0	1	0	0	0	17846	391	14	5	570	5	ZNF331	19	54080374	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	85262	54080374	5048609	602	16211										
LILRB3	11025	broad.mit.edu	37	chr19	54720984	54720984	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agtggatggccagagtggcgTagatgctgggctcagctgga	18	7	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:54720984T>C	uc002qef.1	-	13	1985	c.1874A>G	c.(1873-1875)TAC>TGC	p.Y625C	LILRB3_uc002qee.1_Missense_Mutation_p.Y626C|LILRB3_uc002qeh.1_Missense_Mutation_p.Y625C|LILRB3_uc002qeg.1_RNA|LILRB3_uc002qei.1_Missense_Mutation_p.Y625C|LILRA6_uc002qek.1_Missense_Mutation_p.Y626C|LILRB3_uc010erh.1_Missense_Mutation_p.Y642C|LILRB3_uc002qej.1_RNA|LILRA6_uc002qel.1_Missense_Mutation_p.Y625C|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Missense_Mutation_p.Y626C|LILRB3_uc002qep.1_Missense_Mutation_p.Y626C|LILRB3_uc002qeq.1_Missense_Mutation_p.Y625C|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Missense_Mutation_p.Y626C	NM_006864	NP_006855	O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor,	625	ITIM motif 3.|Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	transmembrane receptor activity			skin(2)|ovary(1)	3	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CAGAGTGGCGTAGATGCTGGG	0.627													7	59	---	---	---	---	PASS	C	54720984	C	C	54720984	3	2	41	1	0	0	0	0	1	0	0	0	8792	1638	57	5	25	5	LILRB3	19	54720984	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	640610	54720984	4407999	603	16212										
LILRB5	10990	broad.mit.edu	37	chr19	54760404	54760404	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tctgaccagcctgcaggggtCtcatagtagcagcggtatcg	13	11	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:54760404C>A	uc002qex.2	-	3	414	c.303G>T	c.(301-303)GAG>GAT	p.E101D	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.E101D|LILRB5_uc002qey.2_Missense_Mutation_p.E101D|LILRB5_uc002qez.2_Missense_Mutation_p.E101D|LILRB5_uc002qfa.1_Missense_Mutation_p.E91D|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	101	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CTGCAGGGGTCTCATAGTAGC	0.627													78	123	---	---	---	---	PASS	A	54760404	A	A	54760404	3	1	41	1	0	0	0	0	1	0	0	0	8794	912	32	2	1516	2	LILRB5	19	54760404	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	39420	54760404	4368579	604	16213										
LILRA2	11027	broad.mit.edu	37	chr19	55085768	55085768	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gacctctgatttccttccagGgcacctccccaagcccaccc	6	20	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:55085768G>T	uc002qgg.3	+	3	160	c.71G>T	c.(70-72)GGG>GTG	p.G24V	LILRA2_uc010ern.2_Missense_Mutation_p.G24V|LILRA2_uc002qgf.2_Missense_Mutation_p.G24V|LILRA2_uc010yfe.1_Missense_Mutation_p.G24V|LILRA2_uc010yff.1_Missense_Mutation_p.G12V|LILRA2_uc010ero.2_Missense_Mutation_p.G12V|LILRA2_uc010yfg.1_Missense_Mutation_p.G24V	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	24	Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		TTCCTTCCAGGGCACCTCCCC	0.597													17	137	---	---	---	---	PASS	T	55085768	T	T	55085768	3	4	41	1	0	0	0	0	1	0	0	0	8785	1246	43	3	81	3	LILRA2	19	55085768	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	325364	55085768	4043215	605	16214										
LILRA2	11027	broad.mit.edu	37	chr19	55086322	55086322	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	attctgtgtaaggaaggagaAgatgaacacccacaacgcct	10	9	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:55086322A>G	uc002qgg.3	+	4	566	c.477A>G	c.(475-477)GAA>GAG	p.E159E	LILRA2_uc010ern.2_Silent_p.E159E|LILRA2_uc002qgf.2_Silent_p.E159E|LILRA2_uc010yfe.1_Silent_p.E159E|LILRA2_uc010yff.1_Silent_p.E147E|LILRA2_uc010ero.2_Silent_p.E147E|LILRA2_uc010yfg.1_Silent_p.E159E	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	159	Extracellular (Potential).|Ig-like C2-type 2.				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		AGGAAGGAGAAGATGAACACC	0.602													43	88	---	---	---	---	PASS	G	55086322	G	G	55086322	2	3	41	1	0	0	0	0	0	0	0	1	8785	69	3	5		5	LILRA2	19	55086322	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	554	55086322	4042661	606	16215										
EPN1	29924	broad.mit.edu	37	chr19	56206164	56206164	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgacatgagtggggtcagggGatctctggctgaggctgtgg	19	6	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:56206164G>T	uc002qlw.2	+	10	1679	c.1337G>T	c.(1336-1338)GGA>GTA	p.G446V	EPN1_uc002qlv.2_Missense_Mutation_p.G420V|EPN1_uc010etd.2_Missense_Mutation_p.G445V|EPN1_uc002qlx.2_Missense_Mutation_p.G532V	NM_001130072	NP_001123544	Q9Y6I3	EPN1_HUMAN	epsin 1 isoform b	446	Ala/Gly/Pro-rich.				endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|cytoplasm|nucleus|plasma membrane	lipid binding				0		Colorectal(82;0.00244)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.112)		GGGGTCAGGGGATCTCTGGCT	0.677													4	9	---	---	---	---	PASS	T	56206164	T	T	56206164	3	4	41	1	0	0	0	0	1	0	0	0	5185	1174	41	2	1712	2	EPN1	19	56206164	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1119842	56206164	2922819	607	16216										
ZNF470	388566	broad.mit.edu	37	chr19	57089731	57089731	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcatcagagaattcatacagGagagaaaccttatgagtgta	10	6	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:57089731G>C	uc002qnl.3	+	6	2610	c.1934G>C	c.(1933-1935)GGA>GCA	p.G645A	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	645					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		ATTCATACAGGAGAGAAACCT	0.418													33	32	---	---	---	---	PASS	C	57089731	C	C	57089731	3	2	41	1	0	0	0	0	1	0	0	0	17926	1174	41	2	1948	2	ZNF470	19	57089731	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	883567	57089731	2039252	608	16217										
PEG3	5178	broad.mit.edu	37	chr19	57325205	57325205	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cactccccaaaggcatttgcAggctcaaatatgatcatgct	7	12	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:57325205A>T	uc002qnu.2	-	7	4956	c.4605T>A	c.(4603-4605)CCT>CCA	p.P1535P	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.P1506P|PEG3_uc002qnv.2_Silent_p.P1535P|PEG3_uc002qnw.2_Silent_p.P1411P|PEG3_uc002qnx.2_Silent_p.P1409P|PEG3_uc010etr.2_Silent_p.P1535P	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1535					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		AGGCATTTGCAGGCTCAAATA	0.478													4	129	---	---	---	---	PASS	T	57325205	T	T	57325205	2	4	41	1	0	0	0	0	0	0	0	1	11720	175	7	5		5	PEG3	19	57325205	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	235474	57325205	1803778	609	16218										
ZNF17	7565	broad.mit.edu	37	chr19	57931891	57931891	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atactttatgtacagttcagCactcattagacatcagaaag	6	8	3	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:57931891C>A	uc002qoo.1	+	3	1262	c.1031C>A	c.(1030-1032)GCA>GAA	p.A344E	ZNF547_uc002qpm.3_Intron|ZNF17_uc002qop.1_Missense_Mutation_p.A346E	NM_006959	NP_008890	P17021	ZNF17_HUMAN	zinc finger protein 17	344					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0234)|GBM - Glioblastoma multiforme(193;0.000426)|Lung(386;0.176)		TACAGTTCAGCACTCATTAGA	0.413													4	115	---	---	---	---	PASS	A	57931891	A	A	57931891	3	1	41	1	0	0	0	0	1	0	0	0	17740	710	25	3	1041	3	ZNF17	19	57931891	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	606686	57931891	1197092	610	16219										
ZNF324B	388569	broad.mit.edu	37	chr19	58967702	58967702	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgtggcaagggtttcgccaAgggcgccgtgctgctcagcc	15	13	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr19:58967702A>G	uc002qsv.1	+	4	1498	c.1391A>G	c.(1390-1392)AAG>AGG	p.K464R	ZNF324B_uc002qsu.1_Missense_Mutation_p.K454R|ZNF324B_uc010euq.1_Missense_Mutation_p.K464R	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	464	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		GGTTTCGCCAAGGGCGCCGTG	0.692													14	79	---	---	---	---	PASS	G	58967702	G	G	58967702	3	3	41	1	0	0	0	0	1	0	0	0	17842	72	3	5	1401	5	ZNF324B	19	58967702	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	1035811	58967702	161281	611	16220										
TRIB3	57761	broad.mit.edu	37	chr20	377279	377279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggtggtccctgatggactggGgctggacgaagccagggaag	19	8	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:377279G>T	uc002wdm.2	+	4	1528	c.1022G>T	c.(1021-1023)GGG>GTG	p.G341V	TRIB3_uc002wdn.2_Missense_Mutation_p.G368V	NM_021158	NP_066981	Q96RU7	TRIB3_HUMAN	tribbles 3	341					apoptosis|cellular lipid metabolic process|insulin receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fatty acid biosynthetic process|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein binding|positive regulation of ubiquitin-protein ligase activity|regulation of glucose transport|regulation of MAP kinase activity|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	ATP binding|protein kinase activity|protein kinase binding|protein kinase inhibitor activity|transcription corepressor activity|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			central_nervous_system(2)	2		all_epithelial(17;0.165)|Lung NSC(37;0.191)|Breast(17;0.231)		Colorectal(46;0.101)|COAD - Colon adenocarcinoma(99;0.112)		GATGGACTGGGGCTGGACGAA	0.612													34	74	---	---	---	---	PASS	T	377279	T	T	377279	3	4	41	1	0	0	0	0	1	0	0	0	16481	1232	43	3	1032	3	TRIB3	20	377279	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08		377279	62648241	612	16221										
SNRPB	6628	broad.mit.edu	37	chr20	2446372	2446372	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acatctttgggaggaggtccCtctactgtcattgagaccag	11	10	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:2446372C>G	uc002wfz.1	-	3	412	c.249G>C	c.(247-249)GAG>GAC	p.E83D	SNRPB_uc002wga.1_Missense_Mutation_p.E83D|SNRPB_uc010zpv.1_Missense_Mutation_p.E4D|SNRPB_uc002wgb.2_Missense_Mutation_p.E83D|SNORD119_uc010gam.1_5'Flank	NM_198216	NP_937859	P14678	RSMB_HUMAN	small nuclear ribonucleoprotein polypeptide B/B'	83					histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	protein binding|protein binding|RNA binding			ovary(1)	1						GAGGAGGTCCCTCTACTGTCA	0.423													40	95	---	---	---	---	PASS	G	2446372	G	G	2446372	3	3	41	1	0	0	0	0	1	0	0	0	14861	680	24	4	508	4	SNRPB	20	2446372	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2069093	2446372	60579148	613	16222										
CPXM1	56265	broad.mit.edu	37	chr20	2776343	2776343	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggctggtgtcctgcatggccAgattactgccagcatagaca	12	11	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:2776343A>T	uc002wgu.2	-	11	1686	c.1622T>A	c.(1621-1623)CTG>CAG	p.L541Q	CPXM1_uc010gas.2_Intron	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	541					cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						CTGCATGGCCAGATTACTGCC	0.632													14	60	---	---	---	---	PASS	T	2776343	T	T	2776343	3	4	41	1	0	0	0	0	1	0	0	0	3837	188	7	5	598	5	CPXM1	20	2776343	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	329971	2776343	60249177	614	16223										
SLC24A3	57419	broad.mit.edu	37	chr20	19665875	19665875	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gacaggggcgtgaatgggacAcggagggacgatgttgtggc	20	6	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:19665875A>T	uc002wrl.2	+	12	1391	c.1194A>T	c.(1192-1194)ACA>ACT	p.T398T		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	398	Cytoplasmic (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						TGAATGGGACACGGAGGGACG	0.408													18	53	---	---	---	---	PASS	T	19665875	T	T	19665875	2	4	41	1	0	0	0	0	0	0	0	1	14467	146	6	5		5	SLC24A3	20	19665875	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	16889532	19665875	43359645	615	16224										
ACSS1	84532	broad.mit.edu	37	chr20	25002053	25002053	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggataaactggggtgctctcAaaaaggacgctggtggcacc	14	9	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:25002053A>G	uc002wub.2	-	6	1958	c.1080T>C	c.(1078-1080)TTT>TTC	p.F360F	ACSS1_uc002wuc.2_Silent_p.F360F|ACSS1_uc010gdc.2_Intron|ACSS1_uc002wud.1_RNA|ACSS1_uc002wua.2_Silent_p.F277F	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	360					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GGGTGCTCTCAAAAAGGACGC	0.562													18	41	---	---	---	---	PASS	G	25002053	G	G	25002053	2	3	41	1	0	0	0	0	0	0	0	1	188	127	5	5		5	ACSS1	20	25002053	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	5336178	25002053	38023467	616	16225										
DEFB118	117285	broad.mit.edu	37	chr20	29956507	29956507	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtgctcctaccccaagtgatCccaggtaatcagaggtcagg	11	12	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:29956507C>T	uc002wvr.2	+	1	80	c.54C>T	c.(52-54)ATC>ATT	p.I18I		NM_054112	NP_473453	Q96PH6	DB118_HUMAN	beta-defensin 118 precursor	18					cell-matrix adhesion|defense response to bacterium|innate immune response|spermatogenesis	extracellular region				ovary(3)|pancreas(1)	4	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			CCCAAGTGATCCCAGGTAATC	0.498													26	78	---	---	---	---	PASS	T	29956507	T	T	29956507	2	4	41	1	0	0	0	0	0	0	0	1	4406	845	30	2		2	DEFB118	20	29956507	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	4954454	29956507	33069013	617	16226										
GSS	2937	broad.mit.edu	37	chr20	33517381	33517381	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cctgtaccatttcctccccaTataggttgttacctgcaatg	6	13	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:33517381T>C	uc002xbg.2	-	12	1204	c.1124A>G	c.(1123-1125)TAT>TGT	p.Y375C	GSS_uc010zun.1_Missense_Mutation_p.Y247C|GSS_uc010zuo.1_Missense_Mutation_p.Y264C|GSS_uc010zup.1_Missense_Mutation_p.Y306C|GSS_uc002xbh.2_RNA|GSS_uc010gez.1_Missense_Mutation_p.Y105C	NM_000178	NP_000169	P48637	GSHB_HUMAN	glutathione synthetase	375		ATP.			nervous system development|response to oxidative stress|xenobiotic metabolic process	cytosol	ATP binding|glutathione binding|glutathione synthase activity|magnesium ion binding|protein homodimerization activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(18;0.035)		Glutathione(DB00143)|Glycine(DB00145)|L-Cysteine(DB00151)	TTCCTCCCCATATAGGTTGTT	0.537													74	218	---	---	---	---	PASS	C	33517381	C	C	33517381	3	2	41	1	0	0	0	0	1	0	0	0	6829	1406	49	5	308	5	GSS	20	33517381	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	3560874	33517381	29508139	618	16227										
C20orf117	140710	broad.mit.edu	37	chr20	35467803	35467803	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tcctcctccatatagacgtcCcgcatctccagcatctcggc	6	18	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:35467803C>A	uc002xgd.1	-	2	342	c.15G>T	c.(13-15)CGG>CGT	p.R5R		NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	5											0		Myeloproliferative disorder(115;0.00874)				TATAGACGTCCCGCATCTCCA	0.632													24	40	---	---	---	---	PASS	A	35467803	A	A	35467803	2	1	41	1	0	0	0	0	0	0	0	1	2083	610	22	3		3	C20orf117	20	35467803	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1950422	35467803	27557717	619	16228										
RALGAPB	57148	broad.mit.edu	37	chr20	37169808	37169808	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccctgcatctatgagggtaaAggatgctgctgaagccaccc	11	12	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:37169808A>T	uc002xiw.2	+	18	2944	c.2687A>T	c.(2686-2688)AAG>ATG	p.K896M	RALGAPB_uc002xix.2_Missense_Mutation_p.K892M|RALGAPB_uc002xiy.1_Missense_Mutation_p.K896M|RALGAPB_uc002xiz.2_Missense_Mutation_p.K674M|RALGAPB_uc002xja.1_Missense_Mutation_p.K623M	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	896					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						ATGAGGGTAAAGGATGCTGCT	0.458													41	76	---	---	---	---	PASS	T	37169808	T	T	37169808	3	4	41	1	0	0	0	0	1	0	0	0	13015	72	3	5	2753	5	RALGAPB	20	37169808	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	1702005	37169808	25855712	620	16229										
PPP1R16B	26051	broad.mit.edu	37	chr20	37524217	37524217	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtctctcccagtgctgcatcGacaactttgaggaaattgtg	10	10	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:37524217G>T	uc002xje.2	+	4	520	c.331G>T	c.(331-333)GAC>TAC	p.D111Y	PPP1R16B_uc010ggc.2_Missense_Mutation_p.D111Y	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	111	ANK 1.				regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GTGCTGCATCGACAACTTTGA	0.607													11	30	---	---	---	---	PASS	T	37524217	T	T	37524217	3	4	41	1	0	0	0	0	1	0	0	0	12366	1058	37	2	341	2	PPP1R16B	20	37524217	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	354409	37524217	25501303	621	16230										
ZSWIM3	140831	broad.mit.edu	37	chr20	44506234	44506234	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtttgtcacttctgaagccaGcctgaaaaatctctgccaga	8	11	3	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:44506234G>T	uc002xqd.2	+	2	1240	c.1037G>T	c.(1036-1038)AGC>ATC	p.S346I	ZSWIM3_uc010zxg.1_Missense_Mutation_p.S340I	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	346							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				TCTGAAGCCAGCCTGAAAAAT	0.512													56	93	---	---	---	---	PASS	T	44506234	T	T	44506234	3	4	41	1	0	0	0	0	1	0	0	0	18239	971	34	3	1043	3	ZSWIM3	20	44506234	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6982017	44506234	18519286	622	16231										
PREX1	57580	broad.mit.edu	37	chr20	47273723	47273723	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cctccccacctgcaggccagCcacctgggtagggacggcag	13	17	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:47273723C>A	uc002xtw.1	-	18	2001	c.1978G>T	c.(1978-1980)GCT>TCT	p.A660S	PREX1_uc002xtv.1_5'Flank	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	660	PDZ.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			TGCAGGCCAGCCACCTGGGTA	0.567											OREG0026010	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	53	---	---	---	---	PASS	A	47273723	A	A	47273723	3	1	41	1	0	0	0	0	1	0	0	0	12476	739	26	3	3093	3	PREX1	20	47273723	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2767489	47273723	15751797	623	16232										
DIDO1	11083	broad.mit.edu	37	chr20	61525784	61525784	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cctgtgcaaattttacagttGagatcgaagaggtgtgcgcg	13	7	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr20:61525784G>A	uc002ydr.1	-	11	2817	c.2553C>T	c.(2551-2553)CTC>CTT	p.L851L	DIDO1_uc002yds.1_Silent_p.L851L|DIDO1_uc002ydt.1_Silent_p.L851L|DIDO1_uc002ydu.1_Silent_p.L851L	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	851					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					TTTTACAGTTGAGATCGAAGA	0.502													37	95	---	---	---	---	PASS	A	61525784	A	A	61525784	2	1	41	1	0	0	0	0	0	0	0	1	4522	1277	45	2		2	DIDO1	20	61525784	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	14252061	61525784	1499736	624	16233										
TPTE	7179	broad.mit.edu	37	chr21	10934070	10934070	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gacattatgatcatcaatcaTgattctaacgaccctattat	4	9	4	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr21:10934070T>A	uc002yip.1	-	16	1275	c.907A>T	c.(907-909)ATG>TTG	p.M303L	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.M285L|TPTE_uc002yir.1_Missense_Mutation_p.M265L|TPTE_uc010gkv.1_Missense_Mutation_p.M165L	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	303	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TCATCAATCATGATTCTAACG	0.313													17	537	---	---	---	---	PASS	A	10934070	A	A	10934070	3	1	41	1	0	0	0	0	1	0	0	0	16427	1464	51	5	784	5	TPTE	21	10934070	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08		10934070	37195825	625	16234										
TIAM1	7074	broad.mit.edu	37	chr21	32617976	32617976	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cgtagaaaaatagcgtgcatCctgaggaaacagaacagggg	13	7	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr21:32617976C>A	uc002yow.1	-	7	1884	c.1412G>T	c.(1411-1413)GGA>GTA	p.G471V	TIAM1_uc011adk.1_Missense_Mutation_p.G471V|TIAM1_uc011adl.1_Missense_Mutation_p.G471V|TIAM1_uc002yox.1_Missense_Mutation_p.G79V	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	471	PH 1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TAGCGTGCATCCTGAGGAAAC	0.517													15	18	---	---	---	---	PASS	A	32617976	A	A	32617976	3	1	41	1	0	0	0	0	1	0	0	0	15887	869	30	2	3455	2	TIAM1	21	32617976	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	21683906	32617976	15511919	626	16235										
SETD4	54093	broad.mit.edu	37	chr21	37431134	37431134	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctcctcttgattcagaacttCcgcagagttttcgtcttctg	7	12	4	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr21:37431134C>G	uc002yuw.1	-	1	1426	c.53G>C	c.(52-54)GGA>GCA	p.G18A	SETD4_uc002yux.1_5'UTR|SETD4_uc002yuu.2_RNA|SETD4_uc002yuv.2_Missense_Mutation_p.G18A|SETD4_uc002yuy.2_Missense_Mutation_p.G18A|SETD4_uc002yuz.2_5'UTR|SETD4_uc002yva.2_5'UTR	NM_017438	NP_059134	Q9NVD3	SETD4_HUMAN	SET domain containing 4 isoform a	18										large_intestine(1)|ovary(1)	2						TTCAGAACTTCCGCAGAGTTT	0.343													42	261	---	---	---	---	PASS	G	37431134	G	G	37431134	3	3	41	1	0	0	0	0	1	0	0	0	14133	855	30	2	1332	2	SETD4	21	37431134	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4813158	37431134	10698761	627	16236										
HLCS	3141	broad.mit.edu	37	chr21	38309018	38309018	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggatgaagacaggcccaacaCcttccctccctgagaaagat	9	13	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr21:38309018C>G	uc010gnb.2	-	4	1928	c.727G>C	c.(727-729)GTG>CTG	p.V243L	HLCS_uc002yvs.2_Missense_Mutation_p.V243L|HLCS_uc010gnc.1_Missense_Mutation_p.V390L	NM_000411	NP_000402	P50747	BPL1_HUMAN	holocarboxylase synthetase	243					cell proliferation|histone biotinylation|response to biotin	chromatin|cytosol|mitochondrion|nuclear lamina|nuclear matrix	ATP binding|biotin binding|biotin-[acetyl-CoA-carboxylase] ligase activity|biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity|biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity|biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity|enzyme binding			ovary(2)|breast(1)|kidney(1)|liver(1)	5		Myeloproliferative disorder(46;0.0422)			Biotin(DB00121)	AGGCCCAACACCTTCCCTCCC	0.522													5	49	---	---	---	---	PASS	G	38309018	G	G	38309018	3	3	41	1	0	0	0	0	1	0	0	0	7213	507	18	4	1485	4	HLCS	21	38309018	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	877884	38309018	9820877	628	16237										
WDR4	10785	broad.mit.edu	37	chr21	44296822	44296822	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cacatctcaccctttattttCttgtgacttcttttctgcag	4	12	4	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr21:44296822C>T	uc002zci.2	-	2	218	c.145G>A	c.(145-147)GAA>AAA	p.E49K	WDR4_uc002zck.1_Missense_Mutation_p.E49K|WDR4_uc002zcl.1_5'UTR|WDR4_uc010gpg.1_Missense_Mutation_p.E49K|WDR4_uc011aew.1_5'UTR|WDR4_uc010gph.1_5'UTR	NM_033661	NP_387510	P57081	WDR4_HUMAN	WD repeat domain 4 protein	49					tRNA modification	cytoplasm|nucleoplasm	protein binding			ovary(1)	1				Colorectal(79;0.0165)|Lung(125;0.0484)|STAD - Stomach adenocarcinoma(101;0.0624)|COAD - Colon adenocarcinoma(84;0.128)|LUSC - Lung squamous cell carcinoma(216;0.244)		CCTTTATTTTCTTGTGACTTC	0.393													20	58	---	---	---	---	PASS	T	44296822	T	T	44296822	3	4	41	1	0	0	0	0	1	0	0	0	17290	922	32	2	1133	2	WDR4	21	44296822	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	5987804	44296822	3833073	629	16238										
ITGB2	3689	broad.mit.edu	37	chr21	46320303	46320303	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtcgttgggggtcaggatggCgcccagcttcccgtcgcccg	16	14	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr21:46320303C>A	uc002zgd.2	-	6	873	c.829G>T	c.(829-831)GCC>TCC	p.A277S	ITGB2_uc002zge.2_Missense_Mutation_p.A277S|ITGB2_uc002zgf.3_Missense_Mutation_p.A277S|ITGB2_uc011afl.1_Missense_Mutation_p.A199S|ITGB2_uc010gpw.2_Missense_Mutation_p.A220S|ITGB2_uc002zgg.2_Missense_Mutation_p.A277S	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	277	Extracellular (Potential).|VWFA.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	GTCAGGATGGCGCCCAGCTTC	0.627													9	55	---	---	---	---	PASS	A	46320303	A	A	46320303	3	1	41	1	0	0	0	0	1	0	0	0	7894	768	27	1	1520	1	ITGB2	21	46320303	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2023481	46320303	1809592	630	16239										
PCBP3	54039	broad.mit.edu	37	chr21	47350716	47350716	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccaggagaaaagctgcctttAcactcctccgaagaagctca	8	13	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr21:47350716A>T	uc002zhq.1	+	11	938	c.813A>T	c.(811-813)TTA>TTT	p.L271F	PCBP3_uc010gqb.2_Missense_Mutation_p.L271F|PCBP3_uc002zhp.1_Intron|PCBP3_uc002zhs.1_Missense_Mutation_p.L245F|PCBP3_uc002zhr.1_Missense_Mutation_p.L270F|PCBP3_uc002zht.1_Missense_Mutation_p.L261F	NM_020528	NP_065389	P57721	PCBP3_HUMAN	poly(rC) binding protein 3 isoform 1	271					mRNA metabolic process	cytosol|mitochondrion|nucleus|ribonucleoprotein complex	DNA binding|RNA binding			skin(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0411)|READ - Rectum adenocarcinoma(84;0.0649)		agctgcctttacactcctccg	0.164													4	43	---	---	---	---	PASS	T	47350716	T	T	47350716	3	4	41	1	0	0	0	0	1	0	0	0	11502	388	14	5	855	5	PCBP3	21	47350716	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	1030413	47350716	779179	631	16240										
MCM3AP	8888	broad.mit.edu	37	chr21	47699911	47699911	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gagggaccgatcccacctttTattcaggaggctgctagcac	11	12	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr21:47699911T>C	uc002zir.1	-	4	1699	c.1663A>G	c.(1663-1665)AAA>GAA	p.K555E		NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	555					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					TCCCACCTTTTATTCAGGAGG	0.572													8	76	---	---	---	---	PASS	C	47699911	C	C	47699911	3	2	41	1	0	0	0	0	1	0	0	0	9388	1763	61	5	4379	5	MCM3AP	21	47699911	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	349195	47699911	429984	632	16241										
MICAL3	57553	broad.mit.edu	37	chr22	18301868	18301868	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggtgatttctcctgggtggCggcagggacaggtgggagtt	19	6	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr22:18301868C>A	uc002zng.3	-	26	3912	c.3559G>T	c.(3559-3561)GCC>TCC	p.A1187S	MICAL3_uc011agl.1_Missense_Mutation_p.A1103S	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	1187	Pro-rich.					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		TCCTGGGTGGCGGCAGGGACA	0.602													7	15	---	---	---	---	PASS	A	18301868	A	A	18301868	3	1	41	1	0	0	0	0	1	0	0	0	9571	768	27	1	2477	1	MICAL3	22	18301868	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08		18301868	33002698	633	16242										
DGCR8	54487	broad.mit.edu	37	chr22	20080404	20080404	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cggatctggaactgcaagcaGcaaaaaacttgcgaagaata	10	8	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr22:20080404G>T	uc002zri.2	+	8	2029	c.1679G>T	c.(1678-1680)AGC>ATC	p.S560I	DGCR8_uc010grz.2_Intron|DGCR8_uc002zrj.2_Missense_Mutation_p.S203I	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	560	Necessary for interaction with DROSHA.|Necessary for heme-binding and pri-miRNA processing.|DRBM 1.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)					ACTGCAAGCAGCAAAAAACTT	0.463													61	126	---	---	---	---	PASS	T	20080404	T	T	20080404	3	4	41	1	0	0	0	0	1	0	0	0	4464	971	34	3	1705	3	DGCR8	22	20080404	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1778536	20080404	31224162	634	16243										
MYO18B	84700	broad.mit.edu	37	chr22	26164471	26164471	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaaaagaaaggggagacctcTaggactccttgtggctccca	12	10	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr22:26164471T>C	uc003abz.1	+	4	838	c.588T>C	c.(586-588)TCT>TCC	p.S196S	MYO18B_uc003aca.1_Silent_p.S77S|MYO18B_uc010guy.1_Silent_p.S77S|MYO18B_uc010guz.1_Silent_p.S77S|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_5'Flank	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	196						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GGGAGACCTCTAGGACTCCTT	0.607													11	39	---	---	---	---	PASS	C	26164471	C	C	26164471	2	2	41	1	0	0	0	0	0	0	0	1	10066	1509	53	5		5	MYO18B	22	26164471	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	6084067	26164471	25140095	635	16244										
NEFH	4744	broad.mit.edu	37	chr22	29885966	29885966	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaagcaaggtcccctgcagaCaaattccctgaaaaggccaa	9	12	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr22:29885966C>A	uc003afo.2	+	4	2408	c.2337C>A	c.(2335-2337)GAC>GAA	p.D779E	NEFH_uc003afp.2_5'UTR	NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	785	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				cell death|nervous system development	neurofilament					0						CCCCTGCAGACAAATTCCCTG	0.562													100	76	---	---	---	---	PASS	A	29885966	A	A	29885966	3	1	41	1	0	0	0	0	1	0	0	0	10314	477	17	3	2351	3	NEFH	22	29885966	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3721495	29885966	21418600	636	16245										
MYH9	4627	broad.mit.edu	37	chr22	36684416	36684416	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gggcggccactgccatcgagCgctgcttcctctcgtcctcc	11	18	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr22:36684416C>A	uc003apg.2	-	34	5045	c.4814G>T	c.(4813-4815)CGC>CTC	p.R1605L		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1605	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						TGCCATCGAGCGCTGCTTCCT	0.617			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				28	115	---	---	---	---	PASS	A	36684416	A	A	36684416	3	1	41	1	0	0	0	0	1	0	0	0	10042	768	27	1	1100	1	MYH9	22	36684416	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	6798450	36684416	14620150	637	16246										
GRAP2	9402	broad.mit.edu	37	chr22	40367029	40367029	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	acccatcctggtggaccggcCgcctgcacaacaagctgggc	12	16	0	0	rs147808667		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr22:40367029C>A	uc003ayh.1	+	8	1197	c.934C>A	c.(934-936)CGC>AGC	p.R312S	GRAP2_uc003ayi.2_RNA|GRAP2_uc011aom.1_Missense_Mutation_p.R286S|GRAP2_uc011aon.1_Missense_Mutation_p.R246S|GRAP2_uc010gya.1_Missense_Mutation_p.R312S|GRAP2_uc011aoo.1_Missense_Mutation_p.R240S|GRAP2_uc011aop.1_Missense_Mutation_p.R272S|GRAP2_uc011aoq.1_Missense_Mutation_p.R199S|GRAP2_uc003ayj.1_Missense_Mutation_p.R312S	NM_004810	NP_004801	O75791	GRAP2_HUMAN	GRB2-related adaptor protein 2	312	SH3 2.				cell-cell signaling|Ras protein signal transduction|T cell costimulation|T cell receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						GTGGACCGGCCGCCTGCACAA	0.602													39	94	---	---	---	---	PASS	A	40367029	A	A	40367029	3	1	41	1	0	0	0	0	1	0	0	0	6754	652	23	1	960	1	GRAP2	22	40367029	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3682613	40367029	10937537	638	16247										
SREBF2	6721	broad.mit.edu	37	chr22	42300914	42300914	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgatggcaggagccagcccCacccgcacccaccagctgct	10	19	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr22:42300914C>T	uc003bbi.2	+	18	3310	c.3141C>T	c.(3139-3141)CCC>CCT	p.P1047P	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|SREBF2_uc003bbj.2_RNA|SREBF2_uc003bbk.2_5'Flank	NM_004599	NP_004590	Q12772	SRBP2_HUMAN	sterol regulatory element-binding transcription	1047	Cytoplasmic (Potential).				cholesterol metabolic process	ER to Golgi transport vesicle membrane|Golgi membrane|nucleus|SREBP-SCAP-Insig complex	protein C-terminus binding			breast(2)|ovary(1)|central_nervous_system(1)	4						GAGCCAGCCCCACCCGCACCC	0.677													3	12	---	---	---	---	PASS	T	42300914	T	T	42300914	2	4	41	1	0	0	0	0	0	0	0	1	15141	581	21	3		3	SREBF2	22	42300914	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1933885	42300914	9003652	639	16248										
ALG12	79087	broad.mit.edu	37	chr22	50307063	50307063	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agagtaaaacttggacatttCtaacagcgaaagcacgtaaa	8	7	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr22:50307063C>A	uc003biy.2	-	3	539	c.265G>T	c.(265-267)GAA>TAA	p.E89*		NM_024105	NP_077010	Q9BV10	ALG12_HUMAN	alpha-1,6-mannosyltransferase ALG12	89					dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	integral to membrane|intrinsic to endoplasmic reticulum membrane					0		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		BRCA - Breast invasive adenocarcinoma(115;0.199)|LUAD - Lung adenocarcinoma(64;0.247)		TTGGACATTTCTAACAGCGAA	0.567													4	121	---	---	---	---	PASS	A	50307063	A	A	50307063	4	1	41	1	0	0	0	0	0	1	0	0	514	922	32	2	1233	2	ALG12	22	50307063	Nonsense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	8006149	50307063	997503	640	16249										
LMF2	91289	broad.mit.edu	37	chr22	50943701	50943701	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccagaccagggaggccacacCcagccacacagtgggcagcg	13	16	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chr22:50943701C>T	uc003blp.2	-	8	1145	c.1114G>A	c.(1114-1116)GGT>AGT	p.G372S	LMF2_uc010hba.2_Missense_Mutation_p.G194S|LMF2_uc003blo.2_Missense_Mutation_p.G347S|NCAPH2_uc003blq.3_5'Flank|NCAPH2_uc003blv.2_5'Flank|NCAPH2_uc003blr.3_5'Flank|NCAPH2_uc010hbb.2_5'Flank|NCAPH2_uc003blu.3_5'Flank|NCAPH2_uc003bls.3_5'Flank|NCAPH2_uc003blt.3_5'Flank|NCAPH2_uc003blw.3_5'Flank|NCAPH2_uc003blx.3_5'Flank|NCAPH2_uc003bly.3_5'Flank	NM_033200	NP_149977	Q9BU23	LMF2_HUMAN	lipase maturation factor 2	372	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane				breast(1)	1		all_cancers(38;1.31e-09)|all_epithelial(38;1.81e-08)|all_lung(38;0.000817)|Breast(42;0.00387)|Lung NSC(38;0.0124)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GAGGCCACACCCAGCCACACA	0.652													5	89	---	---	---	---	PASS	T	50943701	T	T	50943701	3	4	41	1	0	0	0	0	1	0	0	0	8846	623	22	3	1037	3	LMF2	22	50943701	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	636638	50943701	360865	641	16250										
STS	412	broad.mit.edu	37	chrX	7223186	7223186	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgtagaagaagtgtcttccaAaggagaaattcatggcggaa	12	5	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:7223186A>G	uc004cry.3	+	7	1303	c.1058A>G	c.(1057-1059)AAA>AGA	p.K353R		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	353	Lumenal.				female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)	GTGTCTTCCAAAGGAGAAATT	0.473									Ichthyosis				39	104	---	---	---	---	PASS	G	7223186	G	G	7223186	3	3	41	1	0	0	0	0	1	0	0	0	15331	14	1	5	1084	5	STS	23	7223186	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08		7223186	148047374	642	16251										
TLR8	51311	broad.mit.edu	37	chrX	12938413	12938413	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaacttttccaaaatttctcCaatctggaaattatttactt	2	8	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:12938413C>T	uc004cve.2	+	2	1322	c.1254C>T	c.(1252-1254)TCC>TCT	p.S418S	TLR8_uc004cvd.2_Silent_p.S436S	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	418	Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						AAAATTTCTCCAATCTGGAAA	0.353													46	147	---	---	---	---	PASS	T	12938413	T	T	12938413	2	4	41	1	0	0	0	0	0	0	0	1	15954	581	21	3		3	TLR8	23	12938413	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	5715227	12938413	142332147	643	16252										
ASB11	140456	broad.mit.edu	37	chrX	15333585	15333585	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tctcttctgctatcctagccGcttcttttctatttcctttg	4	13	4	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:15333585G>A	uc004cwp.1	-	1	143	c.143C>T	c.(142-144)GCG>GTG	p.A48V	ASB11_uc004cwo.1_5'Flank|ASB11_uc010nes.1_RNA|ASB11_uc010net.1_Missense_Mutation_p.A48V	NM_080873	NP_543149	Q8WXH4	ASB11_HUMAN	ankyrin repeat and SOCS box-containing protein	48					intracellular signal transduction					breast(2)|skin(1)	3	Hepatocellular(33;0.183)					TATCCTAGCCGCTTCTTTTCT	0.308													11	170	---	---	---	---	PASS	A	15333585	A	A	15333585	3	1	41	1	0	0	0	0	1	0	0	0	1015	1087	38	1	978	1	ASB11	23	15333585	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2395172	15333585	139936975	644	16253										
BEND2	139105	broad.mit.edu	37	chrX	18183311	18183311	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtctcttccattttccgagaGatcacaaattgggtagtttt	8	8	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:18183311G>T	uc004cyj.3	-	14	2372	c.2218C>A	c.(2218-2220)CTC>ATC	p.L740I		NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	740	BEN 2.									ovary(3)|kidney(1)|central_nervous_system(1)	5						TTTTCCGAGAGATCACAAATT	0.443													65	223	---	---	---	---	PASS	T	18183311	T	T	18183311	3	4	41	1	0	0	0	0	1	0	0	0	1398	942	33	2	185	2	BEND2	23	18183311	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2849726	18183311	137087249	645	16254										
SCML2	10389	broad.mit.edu	37	chrX	18264872	18264872	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttcaaataatttcctgaattTagtgatgagctcttagaatc	6	6	2	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:18264872T>A	uc004cyl.2	-	13	1804	c.1647A>T	c.(1645-1647)CTA>CTT	p.L549L	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_Silent_p.L549L|SCML2_uc011miz.1_Silent_p.L483L|SCML2_uc010nfc.2_Silent_p.L285L	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	549					anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					TTCCTGAATTTAGTGATGAGC	0.418													52	182	---	---	---	---	PASS	A	18264872	A	A	18264872	2	1	41	1	0	0	0	0	0	0	0	1	13910	1741	61	5		5	SCML2	23	18264872	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	81561	18264872	137005688	646	16255										
PTCHD1	139411	broad.mit.edu	37	chrX	23398156	23398156	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tttccagaagaccagccgcgTatcagaacgttacctggtca	9	12	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:23398156T>A	uc004dal.3	+	2	808	c.800T>A	c.(799-801)GTA>GAA	p.V267E	PTCHD1_uc010nfu.1_Missense_Mutation_p.V267E	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	267					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						ACCAGCCGCGTATCAGAACGT	0.522													38	141	---	---	---	---	PASS	A	23398156	A	A	23398156	3	1	41	1	0	0	0	0	1	0	0	0	12732	1638	57	5	806	5	PTCHD1	23	23398156	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	5133284	23398156	131872404	647	16256										
PCYT1B	9468	broad.mit.edu	37	chrX	24625900	24625900	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgttgggaaacagtgtttttGcttgcataagggctcttgca	12	6	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:24625900G>A	uc004dbi.2	-	3	529	c.296C>T	c.(295-297)GCA>GTA	p.A99V	PCYT1B_uc004dbk.3_Missense_Mutation_p.A99V|PCYT1B_uc004dbj.2_Missense_Mutation_p.A81V	NM_004845	NP_004836	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	99	Catalytic (Potential).					endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)	CAGTGTTTTTGCTTGCATAAG	0.423													14	33	---	---	---	---	PASS	A	24625900	A	A	24625900	3	1	41	1	0	0	0	0	1	0	0	0	11611	1319	46	3	874	3	PCYT1B	23	24625900	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1227744	24625900	130644660	648	16257										
TAB3	257397	broad.mit.edu	37	chrX	30872797	30872797	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttgttgatatggatggggtgGagtagttgaaggactaggtg	18	1	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:30872797G>T	uc004dcj.2	-	6	1648	c.985C>A	c.(985-987)CCA>ACA	p.P329T	TAB3_uc004dck.2_Missense_Mutation_p.P329T|TAB3_uc010ngl.2_Missense_Mutation_p.P329T	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	329	Pro-rich.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|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|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						GGATGGGGTGGAGTAGTTGAA	0.478													15	85	---	---	---	---	PASS	T	30872797	T	T	30872797	3	4	41	1	0	0	0	0	1	0	0	0	15494	1174	41	2	1177	2	TAB3	23	30872797	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6246897	30872797	124397763	649	16258										
DMD	1756	broad.mit.edu	37	chrX	31525435	31525435	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tttccgaagttcactccactTgaagttcatgttatccaaac	5	11	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:31525435T>A	uc004dda.1	-	56	8597	c.8353A>T	c.(8353-8355)AAG>TAG	p.K2785*	DMD_uc004dcq.1_Nonsense_Mutation_p.K56*|DMD_uc004dcr.1_Nonsense_Mutation_p.K325*|DMD_uc004dcs.1_Nonsense_Mutation_p.K325*|DMD_uc004dct.1_Nonsense_Mutation_p.K325*|DMD_uc004dcu.1_Nonsense_Mutation_p.K325*|DMD_uc004dcv.1_Nonsense_Mutation_p.K325*|DMD_uc004dcw.2_Nonsense_Mutation_p.K1441*|DMD_uc004dcx.2_Nonsense_Mutation_p.K1444*|DMD_uc004dcz.2_Nonsense_Mutation_p.K2662*|DMD_uc004dcy.1_Nonsense_Mutation_p.K2781*|DMD_uc004ddb.1_Nonsense_Mutation_p.K2777*	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2785	Spectrin 19.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TCACTCCACTTGAAGTTCATG	0.398													44	106	---	---	---	---	PASS	A	31525435	A	A	31525435	4	1	41	1	0	0	0	0	0	1	0	0	4580	1821	63	5	2914	5	DMD	23	31525435	Nonsense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	652638	31525435	123745125	650	16259										
PRRG1	5638	broad.mit.edu	37	chrX	37312654	37312654	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgacagcagtggattgtctcCaggctttctgggatatgtag	13	7	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:37312654C>G	uc004ddn.2	+	5	690	c.437C>G	c.(436-438)CCA>CGA	p.P146R	PRRG1_uc004ddo.2_Missense_Mutation_p.P146R	NM_000950	NP_000941	O14668	TMG1_HUMAN	proline rich Gla (G-carboxyglutamic acid) 1	146	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	calcium ion binding			ovary(1)|breast(1)	2						GGATTGTCTCCAGGCTTTCTG	0.532													28	130	---	---	---	---	PASS	G	37312654	G	G	37312654	3	3	41	1	0	0	0	0	1	0	0	0	12605	594	21	4	529	4	PRRG1	23	37312654	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	5787219	37312654	117957906	651	16260										
SLC9A7	84679	broad.mit.edu	37	chrX	46510819	46510819	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atgagcttgtgtgattccacAgaaaaggacagctacaacac	9	9	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:46510819A>G	uc004dgu.1	-	9	1173	c.1165T>C	c.(1165-1167)TGT>CGT	p.C389R		NM_032591	NP_115980	Q96T83	SL9A7_HUMAN	solute carrier family 9, member 7	389	Helical; (Potential).				regulation of pH	Golgi membrane|integral to membrane|recycling endosome membrane|trans-Golgi network	potassium:hydrogen antiporter activity|protein homodimerization activity|sodium:hydrogen antiporter activity			ovary(2)	2						GTGATTCCACAGAAAAGGACA	0.423													15	171	---	---	---	---	PASS	G	46510819	G	G	46510819	3	3	41	1	0	0	0	0	1	0	0	0	14719	188	7	5	1048	5	SLC9A7	23	46510819	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	9198165	46510819	108759741	652	16261										
PHF16	9767	broad.mit.edu	37	chrX	46917713	46917713	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gcagccccactctcctgacaGcagctcatctgttcacagta	7	16	4	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:46917713G>T	uc004dgx.2	+	11	1757	c.1706G>T	c.(1705-1707)AGC>ATC	p.S569I	PHF16_uc004dgy.2_Missense_Mutation_p.S569I	NM_001077445	NP_001070913	Q92613	JADE3_HUMAN	PHD finger protein 16	569					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0						TCTCCTGACAGCAGCTCATCT	0.463													11	64	---	---	---	---	PASS	T	46917713	T	T	46917713	3	4	41	1	0	0	0	0	1	0	0	0	11827	971	34	3	1744	3	PHF16	23	46917713	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	406894	46917713	108352847	653	16262										
USP11	8237	broad.mit.edu	37	chrX	47100995	47100995	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctaccagcagcatgactctcAggagctgctgtcattcctcc	8	15	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:47100995A>T	uc004dhp.2	+	9	1205	c.1205A>T	c.(1204-1206)CAG>CTG	p.Q402L	USP11_uc004dhq.2_Missense_Mutation_p.Q129L	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	402					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CATGACTCTCAGGAGCTGCTG	0.537													7	102	---	---	---	---	PASS	T	47100995	T	T	47100995	3	4	41	1	0	0	0	0	1	0	0	0	17039	188	7	5	1239	5	USP11	23	47100995	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	183282	47100995	108169565	654	16263										
PLP2	5355	broad.mit.edu	37	chrX	49029582	49029582	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tattttctttgttgtctacaTgtgtgacctgcacaccaaga	7	9	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:49029582T>G	uc004dmx.2	+	2	278	c.203T>G	c.(202-204)ATG>AGG	p.M68R		NM_002668	NP_002659	Q04941	PLP2_HUMAN	proteolipid protein 2 (colonic	68	Helical; (Potential).|MARVEL.				chemotaxis|cytokine-mediated signaling pathway	endoplasmic reticulum membrane|integral to membrane|membrane fraction|plasma membrane	chemokine binding|ion transmembrane transporter activity				0						GTTGTCTACATGTGTGACCTG	0.522													6	60	---	---	---	---	PASS	G	49029582	G	G	49029582	3	3	41	1	0	0	0	0	1	0	0	0	12105	1464	51	5	209	5	PLP2	23	49029582	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	1928587	49029582	106240978	655	16264										
CLCN5	1184	broad.mit.edu	37	chrX	49851292	49851292	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agccatcactgccatcctggCtttccccaatgaatacactc	5	16	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:49851292C>A	uc004dos.1	+	8	1360	c.1112C>A	c.(1111-1113)GCT>GAT	p.A371D	CLCN5_uc004dor.1_Missense_Mutation_p.A441D|CLCN5_uc004doq.1_Missense_Mutation_p.A441D|CLCN5_uc004dot.1_Missense_Mutation_p.A371D	NM_000084	NP_000075	P51795	CLCN5_HUMAN	chloride channel 5 isoform b	371	Helical; (By similarity).				excretion	apical part of cell|endosome membrane|Golgi membrane|integral to plasma membrane	antiporter activity|ATP binding			ovary(2)|lung(1)|central_nervous_system(1)	4	Ovarian(276;0.236)					GCCATCCTGGCTTTCCCCAAT	0.502													4	77	---	---	---	---	PASS	A	49851292	A	A	49851292	3	1	41	1	0	0	0	0	1	0	0	0	3466	797	28	3	1356	3	CLCN5	23	49851292	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	821710	49851292	105419268	656	16265										
CCNB3	85417	broad.mit.edu	37	chrX	50089751	50089751	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aatcaacatcctgaacgtccTcaaatgtgacattaacattc	4	11	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:50089751T>A	uc004dox.3	+	10	4053	c.3755T>A	c.(3754-3756)CTC>CAC	p.L1252H	CCNB3_uc004doy.2_Missense_Mutation_p.L1252H|CCNB3_uc004doz.2_Missense_Mutation_p.L148H|CCNB3_uc010njq.2_Missense_Mutation_p.L144H|CCNB3_uc004dpa.2_Missense_Mutation_p.L91H	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1252					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					CTGAACGTCCTCAAATGTGAC	0.443													8	59	---	---	---	---	PASS	A	50089751	A	A	50089751	3	1	41	1	0	0	0	0	1	0	0	0	2914	1551	54	5	3785	5	CCNB3	23	50089751	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	238459	50089751	105180809	657	16266										
GSPT2	23708	broad.mit.edu	37	chrX	51487832	51487832	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaagaatgtaaagaaaaactGgtgccctttttgaaaaaagt	9	4	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:51487832G>T	uc004dpl.2	+	1	1336	c.1110G>T	c.(1108-1110)CTG>CTT	p.L370L		NM_018094	NP_060564	Q8IYD1	ERF3B_HUMAN	peptide chain release factor 3	370					cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|translational termination	cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1	Ovarian(276;0.236)					AAGAAAAACTGGTGCCCTTTT	0.383													20	43	---	---	---	---	PASS	T	51487832	T	T	51487832	2	4	41	1	0	0	0	0	0	0	0	1	6827	1335	47	3		3	GSPT2	23	51487832	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	1398081	51487832	103782728	658	16267										
SPANXN5	494197	broad.mit.edu	37	chrX	52825621	52825621	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaatattctgatgttttcatCtttttcaaactcggttcgag	7	7	4	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:52825621C>A	uc004drc.1	-	2	126	c.126G>T	c.(124-126)AAG>AAT	p.K42N		NM_001009616	NP_001009616	Q5MJ07	SPXN5_HUMAN	SPANX family, member N5	42											0	Ovarian(276;0.236)					ATGTTTTCATCTTTTTCAAAC	0.393													29	118	---	---	---	---	PASS	A	52825621	A	A	52825621	3	1	41	1	0	0	0	0	1	0	0	0	14993	912	32	2	96	2	SPANXN5	23	52825621	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1337789	52825621	102444939	659	16268										
XAGE3	170626	broad.mit.edu	37	chrX	52895512	52895512	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctctctcctgaccaggtgcaGgatcccgactttcagttggt	10	13	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:52895512G>A	uc004dre.2	-	3	197	c.137C>T	c.(136-138)CCT>CTT	p.P46L	XAGE3_uc004drf.2_Missense_Mutation_p.P46L	NM_130776	NP_570132	Q8WTP9	GAGD4_HUMAN	XAGE-3 protein	46											0						ACCAGGTGCAGGATCCCGACT	0.483													31	95	---	---	---	---	PASS	A	52895512	A	A	52895512	3	1	41	1	0	0	0	0	1	0	0	0	17417	1000	35	3	210	3	XAGE3	23	52895512	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	69891	52895512	102375048	660	16269										
GPR173	54328	broad.mit.edu	37	chrX	53105956	53105956	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgctggtgctcaaggagcgTgccctgcacaaggctcctta	12	13	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:53105956T>C	uc004dru.2	+	2	411	c.153T>C	c.(151-153)CGT>CGC	p.R51R		NM_018969	NP_061842	Q9NS66	GP173_HUMAN	G protein-coupled receptor 173	51	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						TCAAGGAGCGTGCCCTGCACA	0.597													8	48	---	---	---	---	PASS	C	53105956	C	C	53105956	2	2	41	1	0	0	0	0	0	0	0	1	6671	1683	59	5		5	GPR173	23	53105956	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	210444	53105956	102164604	661	16270										
APEX2	27301	broad.mit.edu	37	chrX	55028746	55028746	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctgaagaaggcctgagtggcCtgtttgccacccagaatggg	14	10	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:55028746C>A	uc004dtz.2	+	3	380	c.304C>A	c.(304-306)CTG>ATG	p.L102M	APEX2_uc011mom.1_Intron	NM_014481	NP_055296	Q9UBZ4	APEX2_HUMAN	apurinic/apyrimidinic endonuclease 2	102					cell cycle|DNA recombination|DNA repair	nucleus	DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|endonuclease activity|exonuclease activity|zinc ion binding			breast(1)	1						CCTGAGTGGCCTGTTTGCCAC	0.562								Other_BER_factors					14	50	---	---	---	---	PASS	A	55028746	A	A	55028746	3	1	41	1	0	0	0	0	1	0	0	0	770	680	24	3	314	3	APEX2	23	55028746	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1922790	55028746	100241814	662	16271										
ZC4H2	55906	broad.mit.edu	37	chrX	64137744	64137744	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agagggcatataggtgcattCcggtgaatttgctggtgaca	14	6	0	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:64137744C>A	uc004dvu.2	-	5	682	c.594G>T	c.(592-594)CGG>CGT	p.R198R	ZC4H2_uc004dvv.2_Silent_p.R175R|ZC4H2_uc011mov.1_Silent_p.R175R|ZC4H2_uc011mow.1_Missense_Mutation_p.G144V|ZC4H2_uc004dvw.1_3'UTR	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	198	C4H2-type.						metal ion binding|protein binding			ovary(1)	1						TAGGTGCATTCCGGTGAATTT	0.483													20	38	---	---	---	---	PASS	A	64137744	A	A	64137744	2	1	41	1	0	0	0	0	0	0	0	1	17575	855	30	2		2	ZC4H2	23	64137744	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	9108998	64137744	91132816	663	16272										
LAS1L	81887	broad.mit.edu	37	chrX	64738216	64738216	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tctagtgtatatggagacttCccaatgggggaggcctcaga	13	8	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:64738216C>A	uc004dwa.1	-	12	1650	c.1578G>T	c.(1576-1578)GGG>GGT	p.G526G	LAS1L_uc004dwc.1_Silent_p.G509G|LAS1L_uc004dwd.1_Silent_p.G467G|LAS1L_uc004dvy.1_Silent_p.G39G|LAS1L_uc004dvz.1_Silent_p.G39G	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	526						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						ATGGAGACTTCCCAATGGGGG	0.572													30	124	---	---	---	---	PASS	A	64738216	A	A	64738216	2	1	41	1	0	0	0	0	0	0	0	1	8636	842	30	2		2	LAS1L	23	64738216	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	600472	64738216	90532344	664	16273										
RAB41	347517	broad.mit.edu	37	chrX	69502122	69502122	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggccggaggctttggtctgGaggctgccgaaagaacggaa	17	8	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:69502122G>A	uc004dyc.2	+	1	55	c.55G>A	c.(55-57)GAG>AAG	p.E19K	RAB41_uc010nkv.2_Missense_Mutation_p.E9K	NM_001032726	NP_001027898	Q5JT25	RAB41_HUMAN	RAB41, member RAS oncogene family	19					protein transport|small GTPase mediated signal transduction		GTP binding			ovary(2)|breast(2)	4						CTTTGGTCTGGAGGCTGCCGA	0.562													35	68	---	---	---	---	PASS	A	69502122	A	A	69502122	3	1	41	1	0	0	0	0	1	0	0	0	12943	1175	41	2	57	2	RAB41	23	69502122	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	4763906	69502122	85768438	665	16274										
TEX11	56159	broad.mit.edu	37	chrX	69942543	69942543	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caagatgtagtatttccatgAcagctaacaagatgaaaaaa	7	6	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:69942543A>T	uc004dyl.2	-	14	1136	c.974T>A	c.(973-975)GTC>GAC	p.V325D	TEX11_uc004dyk.2_5'UTR|TEX11_uc004dym.2_Missense_Mutation_p.V310D	NM_001003811	NP_001003811	Q8IYF3	TEX11_HUMAN	testis expressed sequence 11 isoform 1	325							protein binding			ovary(3)|breast(1)|skin(1)	5	Renal(35;0.156)					TATTTCCATGACAGCTAACAA	0.308													11	57	---	---	---	---	PASS	T	69942543	T	T	69942543	3	4	41	1	0	0	0	0	1	0	0	0	15771	275	10	5	1920	5	TEX11	23	69942543	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	440421	69942543	85328017	666	16275										
CXorf65	158830	broad.mit.edu	37	chrX	70323874	70323874	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tggttttattgagttggcgaCctttattcttcctgaagtct	9	7	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:70323874C>A	uc011mpo.1	-	6	529	c.515G>T	c.(514-516)GGT>GTT	p.G172V	CXorf65_uc011mpp.1_Missense_Mutation_p.G124V	NM_001025265	NP_001020436	A6NEN9	CX065_HUMAN	hypothetical protein LOC158830	172										central_nervous_system(1)	1						GAGTTGGCGACCTTTATTCTT	0.398													20	98	---	---	---	---	PASS	A	70323874	A	A	70323874	3	1	41	1	0	0	0	0	1	0	0	0	4117	507	18	3	40	3	CXorf65	23	70323874	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	381331	70323874	84946686	667	16276										
NONO	4841	broad.mit.edu	37	chrX	70511814	70511814	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggataaaggatttggctttAtccgcttggtgagcaactgt	12	6	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:70511814A>C	uc004dzo.2	+	5	1050	c.340A>C	c.(340-342)ATC>CTC	p.I114L	BCYRN1_uc011mpt.1_Intron|NONO_uc004dzn.2_Missense_Mutation_p.I114L|NONO_uc004dzp.2_Missense_Mutation_p.I114L|NONO_uc011mpv.1_Missense_Mutation_p.I25L|NONO_uc004dzq.2_5'Flank	NM_001145408	NP_001138880	Q15233	NONO_HUMAN	non-POU domain containing, octamer-binding	114	DBHS.|RRM 1.				DNA recombination|DNA repair|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nuclear matrix|paraspeckles	DNA binding|identical protein binding|nucleotide binding|RNA binding		NONO/TFE3(2)	ovary(2)|kidney(2)	4	Renal(35;0.156)					ATTTGGCTTTATCCGCTTGGT	0.418			T	TFE3	papillary renal cancer								29	139	---	---	---	---	PASS	C	70511814	C	C	70511814	3	2	41	1	0	0	0	0	1	0	0	0	10534	449	16	5	346	5	NONO	23	70511814	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	187940	70511814	84758746	668	16277										
TAF1	6872	broad.mit.edu	37	chrX	70597477	70597477	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tacgttttctacgtctttttGgaccagggaagaatgtccca	9	9	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:70597477G>T	uc004dzu.3	+	6	787	c.736G>T	c.(736-738)GGA>TGA	p.G246*	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Nonsense_Mutation_p.G267*	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	246	Protein kinase 1.				G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				ACGTCTTTTTGGACCAGGGAA	0.473													12	67	---	---	---	---	PASS	T	70597477	T	T	70597477	4	4	41	1	0	0	0	0	0	1	0	0	15510	1349	47	3	821	3	TAF1	23	70597477	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	85663	70597477	84673083	669	16278										
ACRC	93953	broad.mit.edu	37	chrX	70830664	70830664	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tggcttgaaagtctgcgactCtgcaggtgatggcaggagtg	16	7	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:70830664C>A	uc004eae.2	+	11	2246	c.1745C>A	c.(1744-1746)TCT>TAT	p.S582Y	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	582						nucleus				ovary(3)	3	Renal(35;0.156)					GTCTGCGACTCTGCAGGTGAT	0.522													3	43	---	---	---	---	PASS	A	70830664	A	A	70830664	3	1	41	1	0	0	0	0	1	0	0	0	171	913	32	2	1783	2	ACRC	23	70830664	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	233187	70830664	84439896	670	16279										
ERCC6L	54821	broad.mit.edu	37	chrX	71426086	71426086	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cctcttgtaatgtctcttttTgtacagcttcatttttagtt	5	8	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:71426086T>C	uc004eaq.1	-	2	2628	c.2531A>G	c.(2530-2532)CAA>CGA	p.Q844R	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Missense_Mutation_p.Q721R	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	844					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					TGTCTCTTTTTGTACAGCTTC	0.373													47	74	---	---	---	---	PASS	C	71426086	C	C	71426086	3	2	41	1	0	0	0	0	1	0	0	0	5218	1812	63	5	1225	5	ERCC6L	23	71426086	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	595422	71426086	83844474	671	16280										
ATRX	546	broad.mit.edu	37	chrX	76919046	76919046	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaattgacttgattttttgcTtctaaatgaaggaaataaat	7	3	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:76919046T>C	uc004ecp.3	-	12	4177	c.3945A>G	c.(3943-3945)GAA>GAG	p.E1315E	ATRX_uc004ecq.3_Silent_p.E1277E|ATRX_uc004eco.3_Silent_p.E1100E|ATRX_uc004ecr.2_Silent_p.E1247E	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1315					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	GATTTTTTGCTTCTAAATGAA	0.338			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						12	38	---	---	---	---	PASS	C	76919046	C	C	76919046	2	2	41	1	0	0	0	0	0	0	0	1	1208	1623	56	5		5	ATRX	23	76919046	Silent	SNP	T	TCGA-22-4613-01A-01D-1441-08	5492960	76919046	78351514	672	16281										
BRWD3	254065	broad.mit.edu	37	chrX	79974986	79974986	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttacaagtataaaaatacttAccaccattaacagagtatgc	4	8	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:79974986A>T	uc004edt.2	-	18	2307	c.2044_splice	c.e18+1	p.A682_splice	BRWD3_uc010nmi.1_Intron|BRWD3_uc004edo.2_Splice_Site_p.A278_splice|BRWD3_uc004edp.2_Splice_Site_p.A511_splice|BRWD3_uc004edq.2_Splice_Site_p.A278_splice|BRWD3_uc010nmj.1_Splice_Site_p.A278_splice|BRWD3_uc004edr.2_Splice_Site_p.A352_splice|BRWD3_uc004eds.2_Splice_Site_p.A278_splice|BRWD3_uc004edu.2_Splice_Site_p.A352_splice|BRWD3_uc004edv.2_Splice_Site_p.A278_splice|BRWD3_uc004edw.2_Splice_Site_p.A278_splice|BRWD3_uc004edx.2_Splice_Site_p.A278_splice|BRWD3_uc004edy.2_Splice_Site_p.A278_splice|BRWD3_uc004edz.2_Splice_Site_p.A352_splice|BRWD3_uc004eea.2_Splice_Site_p.A352_splice|BRWD3_uc004eeb.2_Splice_Site_p.A278_splice	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3											ovary(4)	4						AAAAATACTTACCACCATTAA	0.294													18	76	---	---	---	---	PASS	T	79974986	T	T	79974986	5	4	41	1	0	0	0	0	0	0	1	0	1526	405	14	5	3458	5	BRWD3	23	79974986	Splice_Site	SNP	A	TCGA-22-4613-01A-01D-1441-08	3055940	79974986	75295574	673	16282										
ZNF711	7552	broad.mit.edu	37	chrX	84510642	84510642	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aagattgtgtttcaggagtcGactctcccacaatggtatca	9	9	3	1	rs3747423		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:84510642G>A	uc004eeo.2	+	4	804	c.457G>A	c.(457-459)GAC>AAC	p.D153N	ZNF711_uc004eep.2_Missense_Mutation_p.D153N|ZNF711_uc004eeq.2_Missense_Mutation_p.D153N	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	153					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						TTCAGGAGTCGACTCTCCCAC	0.448													15	100	---	---	---	---	PASS	A	84510642	A	A	84510642	3	1	41	1	0	0	0	0	1	0	0	0	18113	1058	37	2	463	2	ZNF711	23	84510642	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	4535656	84510642	70759918	674	16283										
CHM	1121	broad.mit.edu	37	chrX	85156112	85156112	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tattgcacacgtgagcacatGttctcaggaaagtaactgtc	9	9	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:85156112G>T	uc004eet.2	-	10	1356	c.1326C>A	c.(1324-1326)AAC>AAA	p.N442K	CHM_uc011mqz.1_Missense_Mutation_p.N294K	NM_000390	NP_000381	P24386	RAE1_HUMAN	choroideremia isoform a	442					intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)				GTGAGCACATGTTCTCAGGAA	0.398													11	52	---	---	---	---	PASS	T	85156112	T	T	85156112	3	4	41	1	0	0	0	0	1	0	0	0	3350	1368	48	3	659	3	CHM	23	85156112	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	645470	85156112	70114448	675	16284										
CHM	1121	broad.mit.edu	37	chrX	85302529	85302529	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	caaactccgaagggagagtaTccgccatcttgacgggaaac	11	11	1	2	rs149255670		TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:85302529T>G	uc004eet.2	-	1	38	c.8A>C	c.(7-9)GAT>GCT	p.D3A	CHM_uc011mqz.1_5'UTR|CHM_uc004eeu.3_5'Flank|CHM_uc004eev.3_Missense_Mutation_p.D3A	NM_000390	NP_000381	P24386	RAE1_HUMAN	choroideremia isoform a	3					intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)				AGGGAGAGTATCCGCCATCTT	0.458													7	23	---	---	---	---	PASS	G	85302529	G	G	85302529	3	3	41	1	0	0	0	0	1	0	0	0	3350	1435	50	5	2036	5	CHM	23	85302529	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	146417	85302529	69968031	676	16285										
DACH2	117154	broad.mit.edu	37	chrX	85906066	85906066	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	agctgcagcgatggctgaggCgatgaaacttcagaagatga	14	7	1	5			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:85906066C>A	uc004eew.2	+	4	838	c.668C>A	c.(667-669)GCG>GAG	p.A223E	DACH2_uc004eex.2_Missense_Mutation_p.A210E|DACH2_uc010nmq.2_Missense_Mutation_p.A89E|DACH2_uc011mra.1_Missense_Mutation_p.A56E|DACH2_uc010nmr.2_Missense_Mutation_p.A4E	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	223					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						ATGGCTGAGGCGATGAAACTT	0.323													14	26	---	---	---	---	PASS	A	85906066	A	A	85906066	3	1	41	1	0	0	0	0	1	0	0	0	4221	768	27	1	682	1	DACH2	23	85906066	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	603537	85906066	69364494	677	16286										
KLHL4	56062	broad.mit.edu	37	chrX	86888805	86888805	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtggtcatgatggatggagcTatctaaatactgtagaaaga	12	4	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:86888805T>A	uc004efb.2	+	8	1788	c.1606T>A	c.(1606-1608)TAT>AAT	p.Y536N	KLHL4_uc004efa.2_Missense_Mutation_p.Y536N	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	536	Kelch 3.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						TGGATGGAGCTATCTAAATAC	0.423													36	63	---	---	---	---	PASS	A	86888805	A	A	86888805	3	1	41	1	0	0	0	0	1	0	0	0	8391	1522	53	5	1636	5	KLHL4	23	86888805	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	982739	86888805	68381755	678	16287										
TGIF2LX	90316	broad.mit.edu	37	chrX	89177752	89177752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cttcctgctgctagtcgatgCagcagtacaaagggctgccg	12	12	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:89177752C>A	uc004efe.2	+	2	717	c.668C>A	c.(667-669)GCA>GAA	p.A223E		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	223						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						CTAGTCGATGCAGCAGTACAA	0.493													32	48	---	---	---	---	PASS	A	89177752	A	A	89177752	3	1	41	1	0	0	0	0	1	0	0	0	15824	710	25	3	670	3	TGIF2LX	23	89177752	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	2288947	89177752	66092808	679	16288										
PABPC5	140886	broad.mit.edu	37	chrX	90690693	90690693	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atgctctataagaagttcagGcctgctggccctctgcgatt	10	11	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:90690693G>T	uc004efg.2	+	2	557	c.117G>T	c.(115-117)AGG>AGT	p.R39S	PABPC5_uc004eff.1_Intron	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	39	RRM 1.					cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						AGAAGTTCAGGCCTGCTGGCC	0.562													6	33	---	---	---	---	PASS	T	90690693	T	T	90690693	3	4	41	1	0	0	0	0	1	0	0	0	11367	1194	42	3	119	3	PABPC5	23	90690693	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1512941	90690693	64579867	680	16289										
PCDH11X	27328	broad.mit.edu	37	chrX	91090873	91090873	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	atgaaatatttagactggttAagatacgttttctgatagaa	8	3	1	5			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:91090873A>G	uc004efk.1	+	1	1215	c.370A>G	c.(370-372)AAG>GAG	p.K124E	PCDH11X_uc004efl.1_Missense_Mutation_p.K124E|PCDH11X_uc004efo.1_Missense_Mutation_p.K124E|PCDH11X_uc010nmv.1_Missense_Mutation_p.K124E|PCDH11X_uc004efm.1_Missense_Mutation_p.K124E|PCDH11X_uc004efn.1_Missense_Mutation_p.K124E|PCDH11X_uc004efh.1_Missense_Mutation_p.K124E|PCDH11X_uc004efj.1_Missense_Mutation_p.K124E	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	124	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TAGACTGGTTAAGATACGTTT	0.373													24	81	---	---	---	---	PASS	G	91090873	G	G	91090873	3	3	41	1	0	0	0	0	1	0	0	0	11508	363	13	5	372	5	PCDH11X	23	91090873	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	400180	91090873	64179687	681	16290										
PCDH11X	27328	broad.mit.edu	37	chrX	91873434	91873434	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagcccaccactgtcacaggCctctactcagcaccacagcc	6	20	3	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:91873434C>A	uc004efk.1	+	7	4384	c.3539C>A	c.(3538-3540)GCC>GAC	p.A1180D	PCDH11X_uc004efl.1_Missense_Mutation_p.A1170D|PCDH11X_uc004efo.1_Missense_Mutation_p.A1143D|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Missense_Mutation_p.A1172D|PCDH11X_uc004efn.1_Missense_Mutation_p.A1162D	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1180	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CTGTCACAGGCCTCTACTCAG	0.597													59	107	---	---	---	---	PASS	A	91873434	A	A	91873434	3	1	41	1	0	0	0	0	1	0	0	0	11508	739	26	3	3687	3	PCDH11X	23	91873434	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	782561	91873434	63397126	682	16291										
PCDH11X	27328	broad.mit.edu	37	chrX	91873655	91873655	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctcctttagcacaggctgctGcaatcagccacagctctcct	7	16	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:91873655G>C	uc004efk.1	+	7	4605	c.3760G>C	c.(3760-3762)GCA>CCA	p.A1254P	PCDH11X_uc004efl.1_Missense_Mutation_p.A1244P|PCDH11X_uc004efo.1_Missense_Mutation_p.A1217P|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Missense_Mutation_p.A1246P|PCDH11X_uc004efn.1_Missense_Mutation_p.A1236P	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1254	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ACAGGCTGCTGCAATCAGCCA	0.572													20	149	---	---	---	---	PASS	C	91873655	C	C	91873655	3	2	41	1	0	0	0	0	1	0	0	0	11508	1319	46	4	3908	4	PCDH11X	23	91873655	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	221	91873655	63396905	683	16292										
NAP1L3	4675	broad.mit.edu	37	chrX	92926883	92926884	+	Frame_Shift_Ins	INS	-	A	A													0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgatttcaggatgacattatINScatgtaaaatctgcccaatt							TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:92926883_92926884insA	uc004efq.2	-	1	1725_1726	c.1420_1421insT	c.(1420-1422)GATfs	p.D474fs	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	474					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						GATGACATTATCATGTAAAATC	0.366													51	30	---	---	---	---		A	92926884	A	A	92926883	7	5	41	1	0	1	1	0	0	0	0	0	10158	1435	50	0	103	0	NAP1L3	23	92926883	Frame_Shift_Ins	INS	-	TCGA-22-4613-01A-01D-1441-08	1053228	92926883	62343677	684	16293										
TRMT2B	79979	broad.mit.edu	37	chrX	100273996	100273996	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tggattcaccatggagcttgCaggaaacaaaaactagcgtg	11	8	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:100273996C>T	uc004egq.2	-	12	1651	c.1352G>A	c.(1351-1353)TGC>TAC	p.C451Y	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Missense_Mutation_p.C451Y|TRMT2B_uc004egs.2_Missense_Mutation_p.C451Y|TRMT2B_uc004egt.2_Missense_Mutation_p.C451Y|TRMT2B_uc004egu.2_Missense_Mutation_p.C332Y|TRMT2B_uc004egv.2_Missense_Mutation_p.C406Y	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	451		Nucleophile (By similarity).		C -> R (in Ref. 2; CAI46112).			tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						ATGGAGCTTGCAGGAAACAAA	0.313													54	107	---	---	---	---	PASS	T	100273996	T	T	100273996	3	4	41	1	0	0	0	0	1	0	0	0	16563	710	25	3	170	3	TRMT2B	23	100273996	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	7347113	100273996	54996564	685	16294										
ZMAT1	84460	broad.mit.edu	37	chrX	101153010	101153010	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttgtccactccttcatacctAtgcacctgaaataggcacaa	5	13	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:101153010A>G	uc011mrl.1	-	5	647	c.336T>C	c.(334-336)CAT>CAC	p.H112H	ZMAT1_uc004ein.2_5'UTR|ZMAT1_uc011mrm.1_5'UTR	NM_001011657	NP_001011657	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 1	Error:Variant_position_missing_in_A7MD47_after_alignment						nucleus	zinc ion binding			ovary(1)	1						CTTCATACCTATGCACCTGAA	0.383													27	119	---	---	---	---	PASS	G	101153010	G	G	101153010	2	3	41	1	0	0	0	0	0	0	0	1	17688	446	16	5		5	ZMAT1	23	101153010	Silent	SNP	A	TCGA-22-4613-01A-01D-1441-08	879014	101153010	54117550	686	16295										
MORF4L2	9643	broad.mit.edu	37	chrX	102931462	102931462	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	catttccctgcgatttcttgCaatttgcatactcctccaga	5	13	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:102931462C>T	uc004ekw.2	-	4	1726	c.494G>A	c.(493-495)TGC>TAC	p.C165Y	MORF4L2_uc004ela.2_Missense_Mutation_p.C165Y|MORF4L2_uc004ekx.2_Missense_Mutation_p.C165Y|MORF4L2_uc004elb.2_Missense_Mutation_p.C165Y|MORF4L2_uc004eky.2_Missense_Mutation_p.C165Y|MORF4L2_uc010nos.2_Missense_Mutation_p.C165Y|MORF4L2_uc004ekz.2_Missense_Mutation_p.C165Y|MORF4L2_uc011mry.1_Missense_Mutation_p.C165Y|MORF4L2_uc011mrz.1_Missense_Mutation_p.C165Y|MORF4L2_uc004elc.2_Missense_Mutation_p.C165Y|MORF4L2_uc004elf.2_Missense_Mutation_p.C165Y|MORF4L2_uc004ele.2_Missense_Mutation_p.C165Y|MORF4L2_uc011msa.1_Missense_Mutation_p.C165Y|MORF4L2_uc011msb.1_Missense_Mutation_p.C165Y|MORF4L2_uc011msc.1_Missense_Mutation_p.C165Y|MORF4L2_uc011msd.1_Missense_Mutation_p.C165Y|MORF4L2_uc004eld.2_Missense_Mutation_p.C165Y	NM_012286	NP_036418	Q15014	MO4L2_HUMAN	mortality factor 4 like 2	165					chromatin modification|DNA repair|regulation of cell growth|transcription, DNA-dependent	nucleolus	protein binding				0						CGATTTCTTGCAATTTGCATA	0.418													103	163	---	---	---	---	PASS	T	102931462	T	T	102931462	3	4	41	1	0	0	0	0	1	0	0	0	9707	710	25	3	376	3	MORF4L2	23	102931462	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	1778452	102931462	52339098	687	16296										
GLRA4	441509	broad.mit.edu	37	chrX	102962291	102962291	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctcagtccacgtagagtttcCgcgtggtttctccttccctt	8	14	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:102962291C>G	uc011mse.1	-	9	1656	c.1235G>C	c.(1234-1236)CGG>CCG	p.R412P		NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	412	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						GTAGAGTTTCCGCGTGGTTTC	0.512													18	93	---	---	---	---	PASS	G	102962291	G	G	102962291	3	3	41	1	0	0	0	0	1	0	0	0	6457	652	23	4	21	4	GLRA4	23	102962291	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	30829	102962291	52308269	688	16297										
GLRA4	441509	broad.mit.edu	37	chrX	102962376	102962376	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cattggacctccatctcttgCctgcaggcagtggcccaagc	10	15	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:102962376C>T	uc011mse.1	-	9	1571	c.1150G>A	c.(1150-1152)GCA>ACA	p.A384T		NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	384	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						CCATCTCTTGCCTGCAGGCAG	0.498													17	67	---	---	---	---	PASS	T	102962376	T	T	102962376	3	4	41	1	0	0	0	0	1	0	0	0	6457	739	26	3	106	3	GLRA4	23	102962376	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	85	102962376	52308184	689	16298										
H2BFWT	158983	broad.mit.edu	37	chrX	103267933	103267933	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tccatgacactcacggcctcCcgggaaaggctgaggccctg	12	15	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:103267933C>A	uc004elr.2	-	1	324	c.300G>T	c.(298-300)CGG>CGT	p.R100R		NM_001002916	NP_001002916	Q7Z2G1	H2BWT_HUMAN	H2B histone family, member W, testis-specific	100					nucleosome assembly	nuclear membrane|nucleosome	DNA binding			ovary(1)	1						TCACGGCCTCCCGGGAAAGGC	0.637													6	59	---	---	---	---	PASS	A	103267933	A	A	103267933	2	1	41	1	0	0	0	0	0	0	0	1	6932	610	22	3		3	H2BFWT	23	103267933	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	305557	103267933	52002627	690	16299										
TEX13A	56157	broad.mit.edu	37	chrX	104464885	104464885	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccaggctgccccaggtgcagGcctctttgacctcactgggc	12	16	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:104464885G>T	uc004ema.2	-	2	309	c.197C>A	c.(196-198)GCC>GAC	p.A66D	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Missense_Mutation_p.A66D	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	66						intracellular	zinc ion binding			ovary(2)	2						CCAGGTGCAGGCCTCTTTGAC	0.587													22	37	---	---	---	---	PASS	T	104464885	T	T	104464885	3	4	41	1	0	0	0	0	1	0	0	0	15773	1203	42	3	1042	3	TEX13A	23	104464885	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1196952	104464885	50805675	691	16300										
NRK	203447	broad.mit.edu	37	chrX	105153578	105153578	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gactatcaagagacttgcttCgggcaccaaactcaaataac	7	11	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:105153578C>A	uc004emd.2	+	13	2248	c.1945C>A	c.(1945-1947)CGG>AGG	p.R649R	NRK_uc010npc.1_Silent_p.R317R	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	649							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						AGACTTGCTTCGGGCACCAAA	0.478										HNSCC(51;0.14)			7	27	---	---	---	---	PASS	A	105153578	A	A	105153578	2	1	41	1	0	0	0	0	0	0	0	1	10655	875	31	2		2	NRK	23	105153578	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	688693	105153578	50116982	692	16301										
NUP62CL	54830	broad.mit.edu	37	chrX	106411002	106411002	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgaaagtggcggtggtagtcGttgaagttgtaactggaaaa	15	3	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:106411002G>T	uc004ena.2	-	4	330	c.71C>A	c.(70-72)ACG>AAG	p.T24K	NUP62CL_uc004enb.2_RNA	NM_017681	NP_060151	Q9H1M0	N62CL_HUMAN	nucleoporin 62kDa C-terminal like	24	Thr-rich.				protein transport	nuclear pore	structural constituent of nuclear pore				0						ggtggtagtcgtTGAAGTTGT	0.239													26	156	---	---	---	---	PASS	T	106411002	T	T	106411002	3	4	41	1	0	0	0	0	1	0	0	0	10769	1145	40	1	503	1	NUP62CL	23	106411002	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1257424	106411002	48859558	693	16302										
TSC22D3	1831	broad.mit.edu	37	chrX	107018452	107018452	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaatcctgccgcattatgctGttgagcttgtcggtattgag	12	8	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:107018452G>T	uc004enh.2	-	1	566	c.198C>A	c.(196-198)AAC>AAA	p.N66K	TSC22D3_uc004eni.2_Missense_Mutation_p.N66K|TSC22D3_uc004enj.2_Missense_Mutation_p.N66K	NM_198057	NP_932174	Q99576	T22D3_HUMAN	TSC22 domain family, member 3 isoform 1	Error:Variant_position_missing_in_Q99576_after_alignment							sequence-specific DNA binding transcription factor activity				0						GCATTATGCTGTTGAGCTTGT	0.572													16	111	---	---	---	---	PASS	T	107018452	T	T	107018452	3	4	41	1	0	0	0	0	1	0	0	0	16606	1368	48	3	542	3	TSC22D3	23	107018452	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	607450	107018452	48252108	694	16303										
IRS4	8471	broad.mit.edu	37	chrX	107975873	107975873	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	attctcacgtgagtgtcgtcGtcgttgtcagaatcttctct	9	10	4	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:107975873G>A	uc004eoc.2	-	1	3735	c.3702C>T	c.(3700-3702)GAC>GAT	p.D1234D		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	1234						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						GAGTGTCGTCGTCGTTGTCAG	0.542													8	296	---	---	---	---	PASS	A	107975873	A	A	107975873	2	1	41	1	0	0	0	0	0	0	0	1	7842	1136	40	1		1	IRS4	23	107975873	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	957421	107975873	47294687	695	16304										
RGAG1	57529	broad.mit.edu	37	chrX	109697270	109697270	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaaggaagtgccatccttcgGaatgttgaccccagcactct	9	12	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:109697270G>T	uc004eor.1	+	3	3671	c.3425G>T	c.(3424-3426)GGA>GTA	p.G1142V	RGAG1_uc011msr.1_Missense_Mutation_p.G1142V	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	1142										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CCATCCTTCGGAATGTTGACC	0.522													32	169	---	---	---	---	PASS	T	109697270	T	T	109697270	3	4	41	1	0	0	0	0	1	0	0	0	13274	1174	41	2	3427	2	RGAG1	23	109697270	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1721397	109697270	45573290	696	16305										
TRPC5	7224	broad.mit.edu	37	chrX	111195429	111195429	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gttctcaatggcaatgagcaGggcactccggcccaaggggt	14	11	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:111195429G>C	uc004epl.1	-	2	1139	c.220C>G	c.(220-222)CTG>GTG	p.L74V	TRPC5_uc004epm.1_Missense_Mutation_p.L74V	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	74	ANK 2.|Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						GCAATGAGCAGGGCACTCCGG	0.527													22	160	---	---	---	---	PASS	C	111195429	C	C	111195429	3	2	41	1	0	0	0	0	1	0	0	0	16579	991	35	4	2741	4	TRPC5	23	111195429	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	1498159	111195429	44075131	697	16306										
ZCCHC16	340595	broad.mit.edu	37	chrX	111698772	111698772	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctcaccccagccaaacgagcCcgccagcaagaaactcagtt	7	17	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:111698772C>A	uc004epo.1	+	3	1257	c.816C>A	c.(814-816)GCC>GCA	p.A272A		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	272							nucleic acid binding|zinc ion binding			ovary(1)	1						CCAAACGAGCCCGCCAGCAAG	0.552													41	25	---	---	---	---	PASS	A	111698772	A	A	111698772	2	1	41	1	0	0	0	0	0	0	0	1	17581	610	22	3		3	ZCCHC16	23	111698772	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	503343	111698772	43571788	698	16307										
LRCH2	57631	broad.mit.edu	37	chrX	114357364	114357364	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aatactagcaacagaacgtgGccttatatgattggctaaat	8	7	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:114357364G>T	uc010nqe.2	-	19	2090	c.2059C>A	c.(2059-2061)CCA>ACA	p.P687T	LRCH2_uc004epz.2_Missense_Mutation_p.P670T	NM_020871	NP_065922	Q5VUJ6	LRCH2_HUMAN	leucine-rich repeats and calponin homology (CH)	687	CH.									ovary(1)	1						ACAGAACGTGGCCTTATATGA	0.368													7	49	---	---	---	---	PASS	T	114357364	T	T	114357364	3	4	41	1	0	0	0	0	1	0	0	0	8933	1203	42	3	250	3	LRCH2	23	114357364	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2658592	114357364	40913196	699	16308										
KIAA1210	57481	broad.mit.edu	37	chrX	118242299	118242299	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgaacaattccactttgttaCctcagtgatcttggggccag	9	10	2	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:118242299C>A	uc004era.3	-	6	912	c.912_splice	c.e6+1	p.E304_splice		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481											ovary(4)|skin(1)	5						cactTTGTTACCTCAGTGATC	0.274													76	149	---	---	---	---	PASS	A	118242299	A	A	118242299	5	1	41	1	0	0	0	0	0	0	1	0	8214	521	18	3	4252	3	KIAA1210	23	118242299	Splice_Site	SNP	C	TCGA-22-4613-01A-01D-1441-08	3884935	118242299	37028261	700	16309										
LAMP2	3920	broad.mit.edu	37	chrX	119575625	119575625	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtcacattgaaaggctgaacCcttagatcaaaggtatttat	8	7	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:119575625C>T	uc004est.3	-	8	1233	c.1053G>A	c.(1051-1053)AGG>AGA	p.R351R	LAMP2_uc004ess.3_Silent_p.R351R|LAMP2_uc011mtz.1_Silent_p.R240R|LAMP2_uc011mua.1_Silent_p.R304R|LAMP2_uc010nqp.1_Silent_p.R351R	NM_002294	NP_002285	P13473	LAMP2_HUMAN	lysosomal-associated membrane protein 2 isoform	351	Lumenal (Potential).|Second lumenal domain.				platelet activation|platelet degranulation	endosome membrane|integral to membrane|late endosome|lysosomal membrane|membrane fraction|plasma membrane|platelet dense granule membrane				ovary(1)	1						AAGGCTGAACCCTTAGATCAA	0.398													21	147	---	---	---	---	PASS	T	119575625	T	T	119575625	2	4	41	1	0	0	0	0	0	0	0	1	8618	622	22	3		3	LAMP2	23	119575625	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	1333326	119575625	35694935	701	16310										
DCAF12L1	139170	broad.mit.edu	37	chrX	125685490	125685490	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gaagagcagggagccctgacCggtgcccacagtgatgatgt	15	10	0	4			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:125685490C>A	uc004eul.2	-	1	1353	c.1102G>T	c.(1102-1104)GGT>TGT	p.G368C		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	368	WD 4.									skin(3)|ovary(1)	4						GAGCCCTGACCGGTGCCCACA	0.632													36	35	---	---	---	---	PASS	A	125685490	A	A	125685490	3	1	41	1	0	0	0	0	1	0	0	0	4264	652	23	1	293	1	DCAF12L1	23	125685490	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	6109865	125685490	29585070	702	16311										
DCAF12L1	139170	broad.mit.edu	37	chrX	125685718	125685718	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cagcctggatagtgcgctccCggctttccacaggtggaagt	13	12	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:125685718C>A	uc004eul.2	-	1	1125	c.874G>T	c.(874-876)GGG>TGG	p.G292W		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	292	WD 3.									skin(3)|ovary(1)	4						AGTGCGCTCCCGGCTTTCCAC	0.612													41	61	---	---	---	---	PASS	A	125685718	A	A	125685718	3	1	41	1	0	0	0	0	1	0	0	0	4264	652	23	1	521	1	DCAF12L1	23	125685718	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	228	125685718	29584842	703	16312										
OCRL	4952	broad.mit.edu	37	chrX	128692840	128692840	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tccacgtgaaaaagaagcttCtaacaaggagcagcccaaag	9	10	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:128692840C>A	uc004euq.2	+	8	749	c.584C>A	c.(583-585)TCT>TAT	p.S195Y	OCRL_uc004eur.2_Missense_Mutation_p.S195Y	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	195					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						AAAGAAGCTTCTAACAAGGAG	0.408													10	122	---	---	---	---	PASS	A	128692840	A	A	128692840	3	1	41	1	0	0	0	0	1	0	0	0	10823	913	32	2	614	2	OCRL	23	128692840	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3007122	128692840	26577720	704	16313										
XPNPEP2	7512	broad.mit.edu	37	chrX	128886218	128886218	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtgtgtgcaaatcgaggattAcagccaagttcgtgacagca	12	8	0	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:128886218A>G	uc004eut.1	+	10	1158	c.914A>G	c.(913-915)TAC>TGC	p.Y305C		NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound	305					cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						ATCGAGGATTACAGCCAAGTT	0.493													43	122	---	---	---	---	PASS	G	128886218	G	G	128886218	3	3	41	1	0	0	0	0	1	0	0	0	17440	391	14	5	952	5	XPNPEP2	23	128886218	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	193378	128886218	26384342	705	16314										
ELF4	2000	broad.mit.edu	37	chrX	129201404	129201404	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ctggcaggaggcccattggtCagcaccgtggtcagtgggat	16	10	2	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:129201404C>A	uc004evd.3	-	9	1669	c.1284G>T	c.(1282-1284)CTG>CTT	p.L428L	ELF4_uc004eve.3_Silent_p.L428L	NM_001421	NP_001412	Q99607	ELF4_HUMAN	E74-like factor 4	428					natural killer cell proliferation|NK T cell proliferation|positive regulation of transcription from RNA polymerase II promoter	PML body	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCCCATTGGTCAGCACCGTGG	0.607			T	ERG	AML								7	81	---	---	---	---	PASS	A	129201404	A	A	129201404	2	1	41	1	0	0	0	0	0	0	0	1	5056	813	29	2		2	ELF4	23	129201404	Silent	SNP	C	TCGA-22-4613-01A-01D-1441-08	315186	129201404	26069156	706	16315										
ELF4	2000	broad.mit.edu	37	chrX	129203533	129203533	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aggcctgaggtggggctgctGtggcttcgctgctctcatcc	15	12	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:129203533G>C	uc004evd.3	-	8	1314	c.929C>G	c.(928-930)ACA>AGA	p.T310R	ELF4_uc004eve.3_Missense_Mutation_p.T310R	NM_001421	NP_001412	Q99607	ELF4_HUMAN	E74-like factor 4	310					natural killer cell proliferation|NK T cell proliferation|positive regulation of transcription from RNA polymerase II promoter	PML body	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGGGGCTGCTGTGGCTTCGCT	0.607			T	ERG	AML								11	81	---	---	---	---	PASS	C	129203533	C	C	129203533	3	2	41	1	0	0	0	0	1	0	0	0	5056	1377	48	4	1070	4	ELF4	23	129203533	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	2129	129203533	26067027	707	16316										
IGSF1	3547	broad.mit.edu	37	chrX	130409704	130409704	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ccccatgggaaccacagaacTgggctcagcaaacaaccatg	9	14	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:130409704T>A	uc004ewd.2	-	16	3170	c.2932A>T	c.(2932-2934)AGT>TGT	p.S978C	IGSF1_uc004ewe.3_Missense_Mutation_p.S972C|IGSF1_uc004ewf.2_Missense_Mutation_p.S958C	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	978	Extracellular (Potential).|Ig-like C2-type 10.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						ACCACAGAACTGGGCTCAGCA	0.463													20	193	---	---	---	---	PASS	A	130409704	A	A	130409704	3	1	41	1	0	0	0	0	1	0	0	0	7596	1580	55	5	1098	5	IGSF1	23	130409704	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	1206171	130409704	24860856	708	16317										
ZNF449	203523	broad.mit.edu	37	chrX	134483069	134483069	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	catgctcttggaagaactggCaccagtgggaacggcacaca	12	11	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:134483069C>T	uc004eys.2	+	3	554	c.389C>T	c.(388-390)GCA>GTA	p.A130V	ZNF449_uc004eyq.1_3'UTR|ZNF449_uc004eyt.2_Missense_Mutation_p.A10V	NM_152695	NP_689908	Q6P9G9	ZN449_HUMAN	zinc finger protein 449	130					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GAAGAACTGGCACCAGTGGGA	0.478													7	269	---	---	---	---	PASS	T	134483069	T	T	134483069	3	4	41	1	0	0	0	0	1	0	0	0	17917	710	25	3	395	3	ZNF449	23	134483069	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	4073365	134483069	20787491	709	16318										
SAGE1	55511	broad.mit.edu	37	chrX	134990767	134990767	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtattccagcaatgagttccAgggatctgtgtatgtgtgtt	12	6	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:134990767A>G	uc004ezh.2	+	12	1599	c.1432A>G	c.(1432-1434)AGG>GGG	p.R478G	SAGE1_uc010nry.1_Missense_Mutation_p.R447G|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	478										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AATGAGTTCCAGGGATCTGTG	0.393													55	123	---	---	---	---	PASS	G	134990767	G	G	134990767	3	3	41	1	0	0	0	0	1	0	0	0	13809	179	7	5	1474	5	SAGE1	23	134990767	Missense_Mutation	SNP	A	TCGA-22-4613-01A-01D-1441-08	507698	134990767	20279793	710	16319										
MAP7D3	79649	broad.mit.edu	37	chrX	135302935	135302935	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gtgactcaccttgaaactacTtcctgtattgaagtgtcttt	7	9	2	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:135302935T>A	uc004ezt.2	-	16	2566	c.2475A>T	c.(2473-2475)GAA>GAT	p.E825D	MAP7D3_uc004ezs.2_Missense_Mutation_p.E789D|MAP7D3_uc011mwc.1_Missense_Mutation_p.E807D|MAP7D3_uc010nsa.1_Missense_Mutation_p.E783D	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	825						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					TTGAAACTACTTCCTGTATTG	0.328													35	275	---	---	---	---	PASS	A	135302935	A	A	135302935	3	1	41	1	0	0	0	0	1	0	0	0	9269	1606	56	5	167	5	MAP7D3	23	135302935	Missense_Mutation	SNP	T	TCGA-22-4613-01A-01D-1441-08	312168	135302935	19967625	711	16320										
MAP7D3	79649	broad.mit.edu	37	chrX	135309469	135309469	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tggtgcttcctggtcttcctGatccagccatcctttcttct	7	14	3	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:135309469G>T	uc004ezt.2	-	12	2099	c.2008C>A	c.(2008-2010)CAG>AAG	p.Q670K	MAP7D3_uc004ezs.2_Missense_Mutation_p.Q634K|MAP7D3_uc011mwc.1_Missense_Mutation_p.Q652K|MAP7D3_uc010nsa.1_Missense_Mutation_p.Q628K	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	670						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					TGGTCTTCCTGATCCAGCCAT	0.453													9	100	---	---	---	---	PASS	T	135309469	T	T	135309469	3	4	41	1	0	0	0	0	1	0	0	0	9269	1299	45	2	650	2	MAP7D3	23	135309469	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	6534	135309469	19961091	712	16321										
CXorf66	347487	broad.mit.edu	37	chrX	139038432	139038432	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	aaaatgtttgggaggcttagCcaattcctgtggaccgaatg	12	7	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:139038432C>A	uc004fbb.2	-	3	731	c.709G>T	c.(709-711)GCT>TCT	p.A237S		NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor	237	Cytoplasmic (Potential).					integral to membrane					0						GGAGGCTTAGCCAATTCCTGT	0.438													106	144	---	---	---	---	PASS	A	139038432	A	A	139038432	3	1	41	1	0	0	0	0	1	0	0	0	4118	739	26	3	380	3	CXorf66	23	139038432	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	3728963	139038432	16232128	713	16322										
GPR50	9248	broad.mit.edu	37	chrX	150348607	150348607	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgcatcttcaactatctgaaCaaccctgtcttcactgttac	4	13	5	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:150348607C>A	uc010ntg.1	+	2	687	c.552C>A	c.(550-552)AAC>AAA	p.N184K	uc004fes.1_5'Flank|GPR50_uc011myc.1_Missense_Mutation_p.N184K	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	184	Extracellular (Potential).				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					ACTATCTGAACAACCCTGTCT	0.537													19	170	---	---	---	---	PASS	A	150348607	A	A	150348607	3	1	41	1	0	0	0	0	1	0	0	0	6697	477	17	3	558	3	GPR50	23	150348607	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	11310175	150348607	4921953	714	16323										
GABRE	2564	broad.mit.edu	37	chrX	151130932	151130932	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cttgccatccttgtagatgcGgaccatctggttgggcatgg	13	10	1	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:151130932G>C	uc004ffi.2	-	4	580	c.526C>G	c.(526-528)CGC>GGC	p.R176G	GABRE_uc011myd.1_RNA|GABRE_uc011mye.1_RNA|MIR452_hsa-mir-452|MI0001733_5'Flank	NM_004961	NP_004952	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor,	176	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TTGTAGATGCGGACCATCTGG	0.478													3	58	---	---	---	---	PASS	C	151130932	C	C	151130932	3	2	41	1	0	0	0	0	1	0	0	0	6170	1116	39	4	1018	4	GABRE	23	151130932	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	782325	151130932	4139628	715	16324										
MAGEA6	4105	broad.mit.edu	37	chrX	151870148	151870148	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ggggtccaagggccctcattGaaaccagctatgtgaaagtc	12	10	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:151870148G>T	uc004ffq.1	+	3	1032	c.838G>T	c.(838-840)GAA>TAA	p.E280*	MAGEA6_uc004ffr.1_Nonsense_Mutation_p.E280*|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	280	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					GGCCCTCATTGAAACCAGCTA	0.537													17	235	---	---	---	---	PASS	T	151870148	T	T	151870148	4	4	41	1	0	0	0	0	0	1	0	0	9170	1291	45	2	840	2	MAGEA6	23	151870148	Nonsense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	739216	151870148	3400412	716	16325										
PNMA5	114824	broad.mit.edu	37	chrX	152159311	152159311	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	tgtgctgcgcactgacaaggGgctcttgtgcacggctttct	13	11	2	1			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:152159311G>T	uc010ntw.2	-	3	1171	c.832C>A	c.(832-834)CCC>ACC	p.P278T	PNMA5_uc004fha.3_Missense_Mutation_p.P278T|PNMA5_uc010ntx.2_Missense_Mutation_p.P278T|PNMA5_uc004fgy.3_Missense_Mutation_p.P278T	NM_001103151	NP_001096621	Q96PV4	PNMA5_HUMAN	paraneoplastic antigen like 5	278					apoptosis					ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					ACTGACAAGGGGCTCTTGTGC	0.557													11	122	---	---	---	---	PASS	T	152159311	T	T	152159311	3	4	41	1	0	0	0	0	1	0	0	0	12156	1232	43	3	518	3	PNMA5	23	152159311	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	289163	152159311	3111249	717	16326										
PLXNB3	5365	broad.mit.edu	37	chrX	153040421	153040421	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	accgcacctacgccgagcgcGccttcttccctggccatggc	10	19	1	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:153040421G>T	uc004fii.2	+	24	4192	c.4018G>T	c.(4018-4020)GCC>TCC	p.A1340S	PLXNB3_uc010nuk.2_Missense_Mutation_p.A1363S|PLXNB3_uc011mzd.1_Missense_Mutation_p.A979S|PLXNB3_uc004fij.1_RNA|SRPK3_uc004fik.2_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1340	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CGCCGAGCGCGCCTTCTTCCC	0.697													9	57	---	---	---	---	PASS	T	153040421	T	T	153040421	3	4	41	1	0	0	0	0	1	0	0	0	12125	1087	38	1	4226	1	PLXNB3	23	153040421	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	881110	153040421	2230139	718	16327										
IRAK1	3654	broad.mit.edu	37	chrX	153284161	153284161	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gagaagttgtgggtgccccgGgaaatctcacagaggggcca	16	9	1	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:153284161G>T	uc004fjs.1	-	5	697	c.618C>A	c.(616-618)TCC>TCA	p.S206S	IRAK1_uc004fjr.1_Silent_p.S206S|IRAK1_uc004fjt.1_Silent_p.S206S|IRAK1_uc010nur.2_Intron|IRAK1_uc004fju.2_Silent_p.S232S	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	206	ProST region.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|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|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGGTGCCCCGGGAAATCTCAC	0.617													12	83	---	---	---	---	PASS	T	153284161	T	T	153284161	2	4	41	1	0	0	0	0	0	0	0	1	7821	1219	43	3		3	IRAK1	23	153284161	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	243740	153284161	1986399	719	16328										
CTAG2	30848	broad.mit.edu	37	chrX	153880866	153880866	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	gacaggatcctgcggaccagCtccgcttccatgggcgacga	13	14	0	0			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:153880866C>A	uc004fmi.1	-	2	362	c.309G>T	c.(307-309)GAG>GAT	p.E103D	CTAG2_uc004fmh.1_Missense_Mutation_p.E103D	NM_020994	NP_066274	O75638	CTAG2_HUMAN	cancer/testis antigen 2 isoform LAGE-1b	103						centrosome				pancreas(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGCGGACCAGCTCCGCTTCCA	0.617													8	68	---	---	---	---	PASS	A	153880866	A	A	153880866	3	1	41	1	0	0	0	0	1	0	0	0	3991	796	28	3	466	3	CTAG2	23	153880866	Missense_Mutation	SNP	C	TCGA-22-4613-01A-01D-1441-08	596705	153880866	1389694	720	16329										
F8	2157	broad.mit.edu	37	chrX	154157610	154157610	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	ttgtatgtgactgaatttgtGgcacttgtccccagggagcc	12	9	0	2			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:154157610G>T	uc004fmt.2	-	14	4626	c.4455C>A	c.(4453-4455)GCC>GCA	p.A1485A		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	1485	B.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	CTGAATTTGTGGCACTTGTCC	0.418													11	111	---	---	---	---	PASS	T	154157610	T	T	154157610	2	4	41	1	0	0	0	0	0	0	0	1	5350	1335	47	3		3	F8	23	154157610	Silent	SNP	G	TCGA-22-4613-01A-01D-1441-08	276744	154157610	1112950	721	16330										
FUNDC2	65991	broad.mit.edu	37	chrX	154261828	154261828	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0504201680672269	36	0.42074476027059	1.07575346854284	1.14708479172579	1.03000303367378	0.328551664255323	0.746332413021294	0	cattggaggtgtcactggatGgtaagtgatgtgaaagatgt	15	3	1	3			TCGA-22-4613-01A-01D-1441-08	TCGA-22-4613-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1d538a-57d3-42ec-9fa3-0fad10b0f52f	25e6e3ee-3ad5-4f6e-9f65-4483d84e8dc1	g.chrX:154261828G>T	uc004fmw.2	+	2	434	c.284G>T	c.(283-285)TGG>TTG	p.W95L		NM_023934	NP_076423	Q9BWH2	FUND2_HUMAN	FUN14 domain containing 2	95						mitochondrion					0	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GTCACTGGATGGTAAGTGATG	0.458													13	116	---	---	---	---	PASS	T	154261828	T	T	154261828	3	4	41	1	0	0	0	0	1	0	0	0	6098	1362	47	3	290	3	FUNDC2	23	154261828	Missense_Mutation	SNP	G	TCGA-22-4613-01A-01D-1441-08	104218	154261828	1008732	722	16331										
ACTRT2	140625	broad.mit.edu	37	chr1	2938330	2938330	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ctgcaaagcgggcctgtctgGggagtttggaccccggcaca	15	12	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:2938330G>T	uc001ajz.2	+	1	285	c.80G>T	c.(79-81)GGG>GTG	p.G27V		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	27						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		GGCCTGTCTGGGGAGTTTGGA	0.577													4	27	---	---	---	---	PASS	T	2938330	T	T	2938330	3	4	42	1	0	0	0	0	1	0	0	0	219	1232	43	3	82	3	ACTRT2	1	2938330	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08		2938330	246312291	1	16332										
MEGF6	1953	broad.mit.edu	37	chr1	3527813	3527813	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccgcgcgccccgctgccctcGcctcttcaaggaacgacatc	9	20	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:3527813G>T	uc001akl.2	-	1	247	c.20C>A	c.(19-21)GCG>GAG	p.A7E		NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	7						extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		CGCTGCCCTCGCCTCTTCAAG	0.776													4	4	---	---	---	---	PASS	T	3527813	T	T	3527813	3	4	42	1	0	0	0	0	1	0	0	0	9462	1087	38	1	4753	1	MEGF6	1	3527813	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	589483	3527813	245722808	2	16333										
CROCC	9696	broad.mit.edu	37	chr1	17298869	17298869	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccccaggtgtccacactgaaGggccagctgcagcaggagct	13	14	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:17298869G>T	uc001azt.2	+	37	6051	c.5982G>T	c.(5980-5982)AAG>AAT	p.K1994N	CROCC_uc001azu.2_Missense_Mutation_p.K1290N|CROCC_uc001azv.2_Missense_Mutation_p.K330N	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	1994	Gln-rich.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		CCACACTGAAGGGCCAGCTGC	0.627													9	21	---	---	---	---	PASS	T	17298869	T	T	17298869	3	4	42	1	0	0	0	0	1	0	0	0	3893	991	35	3	6128	3	CROCC	1	17298869	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	13771056	17298869	231951752	3	16334										
MYOM3	127294	broad.mit.edu	37	chr1	24383919	24383919	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	actgatggtgacctggcccgTctcggagccatacttgttct	11	12	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:24383919T>C	uc001bin.3	-	37	4412	c.4249A>G	c.(4249-4251)ACG>GCG	p.T1417A	MYOM3_uc001bil.3_Missense_Mutation_p.T310A|MYOM3_uc001bim.3_Missense_Mutation_p.T1074A	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	1417	Ig-like C2-type 4.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		ACCTGGCCCGTCTCGGAGCCA	0.567													4	16	---	---	---	---	PASS	C	24383919	C	C	24383919	3	2	42	1	0	0	0	0	1	0	0	0	10093	1667	58	5	68	5	MYOM3	1	24383919	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	7085050	24383919	224866702	4	16335										
DLGAP3	58512	broad.mit.edu	37	chr1	35334339	35334339	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cagggggatgcgcggcctgaGtcggggaggctacgtgaacc	19	10	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:35334339G>T	uc001byc.2	-	7	2352	c.2352C>A	c.(2350-2352)GAC>GAA	p.D784E		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	784					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				CGCGGCCTGAGTCGGGGAGGC	0.572													3	14	---	---	---	---	PASS	T	35334339	T	T	35334339	3	4	42	1	0	0	0	0	1	0	0	0	4561	1020	36	3	603	3	DLGAP3	1	35334339	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	10950420	35334339	213916282	5	16336										
EPHA10	284656	broad.mit.edu	37	chr1	38227319	38227319	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gcttgtagtagacgcgcaccGagacaagcgccacgcatgcg	13	13	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:38227319G>T	uc009vvi.2	-	3	694	c.608C>A	c.(607-609)TCG>TAG	p.S203*	EPHA10_uc001cbw.3_Nonsense_Mutation_p.S203*	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	203	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GACGCGCACCGAGACAAGCGC	0.662													7	13	---	---	---	---	PASS	T	38227319	T	T	38227319	4	4	42	1	0	0	0	0	0	1	0	0	5166	1059	37	2	2516	2	EPHA10	1	38227319	Nonsense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	2892980	38227319	211023302	6	16337										
C8B	732	broad.mit.edu	37	chr1	57422559	57422559	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ttccccatggaactgagaggGctggagcaagtaggcatacc	13	10	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:57422559G>A	uc001cyp.2	-	3	341	c.274C>T	c.(274-276)CCC>TCC	p.P92S	C8B_uc010oon.1_Missense_Mutation_p.P30S|C8B_uc010ooo.1_Missense_Mutation_p.P40S	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	92	TSP type-1 1.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						AACTGAGAGGGCTGGAGCAAG	0.507													18	57	---	---	---	---	PASS	A	57422559	A	A	57422559	3	1	42	1	0	0	0	0	1	0	0	0	2417	1203	42	3	1541	3	C8B	1	57422559	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	19195240	57422559	191828062	7	16338										
TM2D1	83941	broad.mit.edu	37	chr1	62190775	62190775	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tccggagcagacggaccagaCggccaggcggccgccatctt	14	15	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:62190775C>A	uc001czz.1	-	1	321	c.18G>T	c.(16-18)CCG>CCT	p.P6P		NM_032027	NP_114416	Q9BX74	TM2D1_HUMAN	beta-amyloid binding protein precursor	6					apoptosis					ovary(1)	1						ACGGACCAGACGGCCAGGCGG	0.667													6	32	---	---	---	---	PASS	A	62190775	A	A	62190775	2	1	42	1	0	0	0	0	0	0	0	1	15960	523	19	1		1	TM2D1	1	62190775	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	4768216	62190775	187059846	8	16339										
INADL	10207	broad.mit.edu	37	chr1	62228831	62228831	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tactcacacttcagcagtccAtcaagcaactgaagggtcaa	7	12	4	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:62228831A>G	uc001dab.2	+	3	283	c.169A>G	c.(169-171)ATC>GTC	p.I57V	INADL_uc009waf.1_Missense_Mutation_p.I57V|INADL_uc001daa.2_Missense_Mutation_p.I57V	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	57	L27.				intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						TCAGCAGTCCATCAAGCAACT	0.373													8	26	---	---	---	---	PASS	G	62228831	G	G	62228831	3	3	42	1	0	0	0	0	1	0	0	0	7731	217	8	5	175	5	INADL	1	62228831	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	38056	62228831	187021790	9	16340										
ABCA4	24	broad.mit.edu	37	chr1	94497571	94497571	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aagcaggggtgtcgggggttGacgttttctcttttctgctg	15	7	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:94497571G>A	uc001dqh.2	-	27	3995	c.3891C>T	c.(3889-3891)GTC>GTT	p.V1297V		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1297	Cytoplasmic.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		GTCGGGGGTTGACGTTTTCTC	0.512													5	77	---	---	---	---	PASS	A	94497571	A	A	94497571	2	1	42	1	0	0	0	0	0	0	0	1	34	1277	45	2		2	ABCA4	1	94497571	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	32268740	94497571	154753050	10	16341										
COL11A1	1301	broad.mit.edu	37	chr1	103444262	103444262	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tatgtggctgtatcatacgtActctttcacctggagggcca	10	10	3	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:103444262A>G	uc001dul.2	-	35	3072	c.2754_splice	c.e35+1	p.R918_splice	COL11A1_uc001duk.2_Splice_Site_p.R114_splice|COL11A1_uc001dum.2_Splice_Site_p.R930_splice|COL11A1_uc001dun.2_Splice_Site_p.R879_splice|COL11A1_uc009weh.2_Splice_Site_p.R802_splice	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A						collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TATCATACGTACTCTTTCACC	0.383													22	89	---	---	---	---	PASS	G	103444262	G	G	103444262	5	3	42	1	0	0	0	0	0	0	1	0	3667	405	14	5	2796	5	COL11A1	1	103444262	Splice_Site	SNP	A	TCGA-22-5471-01A-01D-1632-08	8946691	103444262	145806359	11	16342										
GSTM3	2947	broad.mit.edu	37	chr1	110280086	110280086	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	caggaaacgtcacctcaaaaCggcacatgaaagccttcagg	9	12	3	1	rs1803686		TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:110280086C>A	uc001dyo.2	-	8	882	c.572G>T	c.(571-573)CGT>CTT	p.R191L	GSTM3_uc001dyp.2_Missense_Mutation_p.R188L|GSTM3_uc010ovv.1_Missense_Mutation_p.R191L	NM_000849	NP_000840	P21266	GSTM3_HUMAN	glutathione S-transferase mu 3	191	GST C-terminal.				establishment of blood-nerve barrier|glutathione metabolic process|response to estrogen stimulus	cytoplasm	glutathione transferase activity|identical protein binding				0		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Colorectal(144;0.0339)|Lung(183;0.0426)|all cancers(265;0.113)|Epithelial(280;0.125)|COAD - Colon adenocarcinoma(174;0.134)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	CACCTCAAAACGGCACATGAA	0.478													8	23	---	---	---	---	PASS	A	110280086	A	A	110280086	3	1	42	1	0	0	0	0	1	0	0	0	6839	536	19	1	113	1	GSTM3	1	110280086	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	6835824	110280086	138970535	12	16343										
OVGP1	5016	broad.mit.edu	37	chr1	111964252	111964252	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tcctgtgaacctttcccaacTtccatgtaagtcataagaca	5	12	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:111964252T>G	uc001eba.2	-	7	708	c.652A>C	c.(652-654)AGT>CGT	p.S218R	OVGP1_uc001eaz.2_Missense_Mutation_p.S180R|OVGP1_uc010owb.1_Intron	NM_002557	NP_002548	Q12889	OVGP1_HUMAN	oviductal glycoprotein 1 precursor	218					chitin catabolic process|female pregnancy|single fertilization	transport vesicle	cation binding|chitinase activity			ovary(4)|large_intestine(1)	5		all_cancers(81;8.18e-06)|all_epithelial(167;5.64e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000302)		Lung(183;0.0253)|Colorectal(144;0.033)|all cancers(265;0.0552)|Epithelial(280;0.0802)|COAD - Colon adenocarcinoma(174;0.123)|LUSC - Lung squamous cell carcinoma(189;0.14)		CTTTCCCAACTTCCATGTAAG	0.458													3	28	---	---	---	---	PASS	G	111964252	G	G	111964252	3	3	42	1	0	0	0	0	1	0	0	0	11325	1609	56	5	1404	5	OVGP1	1	111964252	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	1684166	111964252	137286369	13	16344										
C1orf161	126868	broad.mit.edu	37	chr1	116670900	116670900	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgttttcaggtcatgaggcaCctgaaggaggacatctggtg	14	7	3	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:116670900C>T	uc001egc.1	+	6	1060	c.795C>T	c.(793-795)CAC>CAT	p.H265H		NM_152367	NP_689580	Q8N8X9	MB213_HUMAN	hypothetical protein LOC126868	265											0	Lung SC(450;0.184)	all_cancers(81;0.00142)|all_lung(203;0.000139)|all_epithelial(167;0.000401)|Lung NSC(69;0.000705)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		TCATGAGGCACCTGAAGGAGG	0.582													4	5	---	---	---	---	PASS	T	116670900	T	T	116670900	2	4	42	1	0	0	0	0	0	0	0	1	2009	506	18	3		3	C1orf161	1	116670900	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	4706648	116670900	132579721	14	16345										
SPAG17	200162	broad.mit.edu	37	chr1	118640417	118640417	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ggactggttccaagtacttcCagaaagttttaagctctttt	8	8	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:118640417C>T	uc001ehk.2	-	7	955	c.887G>A	c.(886-888)TGG>TAG	p.W296*		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	296						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		CAAGTACTTCCAGAAAGTTTT	0.338													7	35	---	---	---	---	PASS	T	118640417	T	T	118640417	4	4	42	1	0	0	0	0	0	1	0	0	14979	595	21	3	5952	3	SPAG17	1	118640417	Nonsense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	1969517	118640417	130610204	15	16346										
NBPF14	25832	broad.mit.edu	37	chr1	148004707	148004707	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aatgagtcaggtagttcaaaGtacattgacggagtcgaata	11	5	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:148004707G>A	uc001eqq.2	-	22	2624	c.2607C>T	c.(2605-2607)TAC>TAT	p.Y869Y	LOC200030_uc010ozz.1_Intron|LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqf.2_Intron|LOC200030_uc001eqg.2_Intron|FLJ39739_uc001eqo.1_Intron|NBPF14_uc010pab.1_Silent_p.Y217Y|NBPF14_uc010pac.1_Silent_p.Y442Y	NM_015383	NP_056198	Q5TI25	NBPFE_HUMAN	hypothetical protein LOC25832	869	NBPF 10.					cytoplasm				ovary(1)	1	all_hematologic(923;0.032)					GTAGTTCAAAGTACATTGACG	0.433													75	129	---	---	---	---	PASS	A	148004707	A	A	148004707	2	1	42	1	0	0	0	0	0	0	0	1	10194	1024	36	3		3	NBPF14	1	148004707	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	29364290	148004707	101245914	16	16347										
KPRP	448834	broad.mit.edu	37	chr1	152732580	152732580	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agagggcgtcctgcagtgtgCcagcctcagggaagattctc	14	11	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:152732580C>T	uc001fal.1	+	2	574	c.516C>T	c.(514-516)TGC>TGT	p.C172C		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	172	Gln-rich.					cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGCAGTGTGCCAGCCTCAGG	0.522													4	84	---	---	---	---	PASS	T	152732580	T	T	152732580	2	4	42	1	0	0	0	0	0	0	0	1	8436	747	26	3		3	KPRP	1	152732580	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	4727873	152732580	96518041	17	16348										
MTX1	4580	broad.mit.edu	37	chr1	155180357	155180357	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aggaactctgcctgcccttcGgaccagtcatggagaggtca	12	12	3	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:155180357G>A	uc001fjb.2	+	3	723	c.617G>A	c.(616-618)CGG>CAG	p.R206Q	RAG1AP1_uc010pey.1_Intron|THBS3_uc001fix.2_5'Flank|THBS3_uc009wqi.2_5'Flank|THBS3_uc001fiz.2_5'Flank|THBS3_uc001fiy.2_5'Flank|THBS3_uc010pfu.1_5'Flank|THBS3_uc010pfv.1_5'Flank|THBS3_uc001fja.2_5'Flank|THBS3_uc009wqj.1_5'Flank|MTX1_uc001fjc.2_Missense_Mutation_p.R206Q	NM_002455	NP_002446	Q13505	MTX1_HUMAN	metaxin 1 isoform 1	206					protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane	protein binding			skin(1)	1	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		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)			CCTGCCCTTCGGACCAGTCAT	0.493													24	210	---	---	---	---	PASS	A	155180357	A	A	155180357	3	1	42	1	0	0	0	0	1	0	0	0	9967	1116	39	1	627	1	MTX1	1	155180357	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	2447777	155180357	94070264	18	16349										
IQGAP3	128239	broad.mit.edu	37	chr1	156513993	156513993	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ggtattgcctccgagctgccCacatccgggcccaggcctgg	13	16	0	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:156513993C>T	uc001fpf.2	-	21	2486	c.2411G>A	c.(2410-2412)TGG>TAG	p.W804*		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	804	IQ 3.				small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCGAGCTGCCCACATCCGGGC	0.572													9	108	---	---	---	---	PASS	T	156513993	T	T	156513993	4	4	42	1	0	0	0	0	0	1	0	0	7816	595	21	3	2556	3	IQGAP3	1	156513993	Nonsense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	1333636	156513993	92736628	19	16350										
SPTA1	6708	broad.mit.edu	37	chr1	158614075	158614075	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgctttgtccaaatcgtcccGtttcttcatcaaagcctcca	5	14	3	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:158614075G>T	uc001fst.1	-	30	4505	c.4306C>A	c.(4306-4308)CGG>AGG	p.R1436R		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1436	Spectrin 14.				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)					AAATCGTCCCGTTTCTTCATC	0.368													21	50	---	---	---	---	PASS	T	158614075	T	T	158614075	2	4	42	1	0	0	0	0	0	0	0	1	15115	1144	40	1		1	SPTA1	1	158614075	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	2100082	158614075	90636546	20	16351										
OR6K6	128371	broad.mit.edu	37	chr1	158725206	158725206	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgcctttctgtggctccaacCagatccaccagatattctgt	7	13	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:158725206C>A	uc001fsw.1	+	1	601	c.601C>A	c.(601-603)CAG>AAG	p.Q201K		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	201	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					TGGCTCCAACCAGATCCACCA	0.488													37	52	---	---	---	---	PASS	A	158725206	A	A	158725206	3	1	42	1	0	0	0	0	1	0	0	0	11204	595	21	3	603	3	OR6K6	1	158725206	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	111131	158725206	90525415	21	16352										
SELP	6403	broad.mit.edu	37	chr1	169580755	169580755	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	caggttggcaagggtgcagaCcagtgtccagagtcaatgca	14	9	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:169580755C>T	uc001ggi.3	-	7	1187	c.1122G>A	c.(1120-1122)TGG>TGA	p.W374*	SELP_uc001ggh.2_Nonsense_Mutation_p.W209*|SELP_uc009wvr.2_Nonsense_Mutation_p.W374*	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	374	Sushi 3.|Extracellular (Potential).				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	AGGGTGCAGACCAGTGTCCAG	0.527													5	59	---	---	---	---	PASS	T	169580755	T	T	169580755	4	4	42	1	0	0	0	0	0	1	0	0	14019	508	18	3	1410	3	SELP	1	169580755	Nonsense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	10855549	169580755	79669866	22	16353										
SERPINC1	462	broad.mit.edu	37	chr1	173883896	173883896	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cctccgggatcttctgttctGagccctcatcctcagttgcc	8	16	5	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:173883896G>C	uc001gjt.2	-	2	322	c.203C>G	c.(202-204)TCA>TGA	p.S68*		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	68					blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	CTTCTGTTCTGAGCCCTCATC	0.572											OREG0013990	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	132	---	---	---	---	PASS	C	173883896	C	C	173883896	4	2	42	1	0	0	0	0	0	1	0	0	14109	1294	45	2	1215	2	SERPINC1	1	173883896	Nonsense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	4303141	173883896	75366725	23	16354										
PTPRC	5788	broad.mit.edu	37	chr1	198668783	198668783	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cacgcagacattcagcggctCcgccgccaatgcaaaactca	8	16	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:198668783C>A	uc001gur.1	+	5	563	c.383C>A	c.(382-384)TCC>TAC	p.S128Y	PTPRC_uc001gus.1_Missense_Mutation_p.S128Y|PTPRC_uc001gut.1_Intron|PTPRC_uc009wze.1_Missense_Mutation_p.S64Y|PTPRC_uc009wzf.1_Missense_Mutation_p.S64Y|PTPRC_uc010ppg.1_Missense_Mutation_p.S64Y|PTPRC_uc001guu.1_Missense_Mutation_p.S171Y|PTPRC_uc001guv.1_RNA|PTPRC_uc001guw.1_RNA	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	128	Extracellular (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TTCAGCGGCTCCGCCGCCAAT	0.532											OREG0014061	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	108	---	---	---	---	PASS	A	198668783	A	A	198668783	3	1	42	1	0	0	0	0	1	0	0	0	12797	855	30	2	408	2	PTPRC	1	198668783	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	24784887	198668783	50581838	24	16355										
OR2M7	391196	broad.mit.edu	37	chr1	248486943	248486943	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgaggtaactcaatctccagActtgccctttcctaagattt	6	11	2	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:248486943A>G	uc010pzk.1	-	1	928	c.928T>C	c.(928-930)TCT>CCT	p.S310P		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CAATCTCCAGACTTGCCCTTT	0.373													6	40	---	---	---	---	PASS	G	248486943	G	G	248486943	3	3	42	1	0	0	0	0	1	0	0	0	11014	275	10	5	13	5	OR2M7	1	248486943	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	49818160	248486943	763678	25	16356										
OR2T1	26696	broad.mit.edu	37	chr1	248569754	248569754	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgcacagctcaacacttcctCtaccttacccttgtgggagc	7	15	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr1:248569754C>G	uc010pzm.1	+	1	459	c.459C>G	c.(457-459)CTC>CTG	p.L153L		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	153	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AACACTTCCTCTACCTTACCC	0.483													55	98	---	---	---	---	PASS	G	248569754	G	G	248569754	2	3	42	1	0	0	0	0	0	0	0	1	11016	900	32	2		2	OR2T1	1	248569754	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	82811	248569754	680867	26	16357										
MYT1L	23040	broad.mit.edu	37	chr2	1805477	1805477	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aaaactgttacctgagttctGagtttaatcatatcggcttc	7	8	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:1805477G>A	uc002qxe.2	-	23	4094	c.3267C>T	c.(3265-3267)CTC>CTT	p.L1089L	MYT1L_uc002qxd.2_Silent_p.L1087L|MYT1L_uc010ewk.2_Silent_p.L85L	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	1089	Potential.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CCTGAGTTCTGAGTTTAATCA	0.378													5	140	---	---	---	---	PASS	A	1805477	A	A	1805477	2	1	42	1	0	0	0	0	0	0	0	1	10107	1277	45	2		2	MYT1L	2	1805477	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08		1805477	241393896	27	16358										
KIDINS220	57498	broad.mit.edu	37	chr2	8940597	8940597	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	caatttcaacatgaccacctCtgacagcgccaatcaacaca	4	15	3	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:8940597C>G	uc002qzc.2	-	9	1015	c.833G>C	c.(832-834)AGA>ACA	p.R278T	KIDINS220_uc010yiv.1_Missense_Mutation_p.R44T|KIDINS220_uc002qzd.2_Missense_Mutation_p.R236T|KIDINS220_uc010yiw.1_Missense_Mutation_p.R279T	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	278	Cytoplasmic (Potential).|ANK 9.				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					ATGACCACCTCTGACAGCGCC	0.373													4	203	---	---	---	---	PASS	G	8940597	G	G	8940597	3	3	42	1	0	0	0	0	1	0	0	0	8271	913	32	2	4570	2	KIDINS220	2	8940597	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	7135120	8940597	234258776	28	16359										
NRBP1	29959	broad.mit.edu	37	chr2	27657403	27657403	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tttctgaagaagaccaaaaaGaaccacaagacgatgaatga	8	7	1	7			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:27657403G>C	uc002rko.2	+	6	1333	c.501G>C	c.(499-501)AAG>AAC	p.K167N	NRBP1_uc002rkq.2_Missense_Mutation_p.K167N|NRBP1_uc002rkp.2_Missense_Mutation_p.K167N|NRBP1_uc002rkr.2_5'Flank	NM_013392	NP_037524	Q9UHY1	NRBP_HUMAN	nuclear receptor binding protein	167	Protein kinase.				ER to Golgi vesicle-mediated transport|gene expression|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cell cortex|endomembrane system|lamellipodium|membrane|nucleoplasm	ATP binding|protein homodimerization activity|protein kinase activity			ovary(2)|lung(1)	3	Acute lymphoblastic leukemia(172;0.155)					AGACCAAAAAGAACCACAAGA	0.393													3	146	---	---	---	---	PASS	C	27657403	C	C	27657403	3	2	42	1	0	0	0	0	1	0	0	0	10642	933	33	2	515	2	NRBP1	2	27657403	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	18716806	27657403	215541970	29	16360										
C2orf71	388939	broad.mit.edu	37	chr2	29294605	29294605	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gactccagagaagcgaatgaTttgtccatcagaacttccat	8	10	1	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:29294605T>C	uc002rmt.1	-	1	2523	c.2523A>G	c.(2521-2523)AAA>AAG	p.K841K		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	841					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						AAGCGAATGATTTGTCCATCA	0.582													5	120	---	---	---	---	PASS	C	29294605	C	C	29294605	2	2	42	1	0	0	0	0	0	0	0	1	2191	1490	52	5		5	C2orf71	2	29294605	Silent	SNP	T	TCGA-22-5471-01A-01D-1632-08	1637202	29294605	213904768	30	16361										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48808585	48808585	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cacacactcttcaggagtcaGccaaaatccggatggtcttt	8	12	4	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:48808585G>T	uc010yol.1	+	1	860	c.813G>T	c.(811-813)CAG>CAT	p.Q271H	STON1_uc002rwo.3_Missense_Mutation_p.Q271H|STON1_uc010fbm.2_Missense_Mutation_p.Q271H|STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.Q271H|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Missense_Mutation_p.Q271H	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	271					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TCAGGAGTCAGCCAAAATCCG	0.453													12	52	---	---	---	---	PASS	T	48808585	T	T	48808585	3	4	42	1	0	0	0	0	1	0	0	0	15316	962	34	3	815	3	STON1-GTF2A1L	2	48808585	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	19513980	48808585	194390788	31	16362										
LHCGR	3973	broad.mit.edu	37	chr2	48915599	48915599	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aaagttcacttgcgaatacaGtgaaaaagccagcagtgctg	10	8	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:48915599G>T	uc002rwu.3	-	11	1407	c.1337C>A	c.(1336-1338)ACT>AAT	p.T446N	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	446	Helical; Name=3; (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	TGCGAATACAGTGAAAAAGCC	0.498									Familial_Male-Limited_Precocious_Puberty				4	62	---	---	---	---	PASS	T	48915599	T	T	48915599	3	4	42	1	0	0	0	0	1	0	0	0	8762	1029	36	3	766	3	LHCGR	2	48915599	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	107014	48915599	194283774	32	16363										
FSHR	2492	broad.mit.edu	37	chr2	49195948	49195948	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gcttttttaagttgtaagtcGacctggccctcagcttctta	8	10	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:49195948G>T	uc002rww.2	-	9	817	c.743C>A	c.(742-744)TCG>TAG	p.S248*	FSHR_uc002rwx.2_Intron|FSHR_uc010fbn.2_Nonsense_Mutation_p.S222*	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	248	Extracellular (Potential).|LRR 9.				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	GTTGTAAGTCGACCTGGCCCT	0.443									Gonadal_Dysgenesis_46_XX				26	30	---	---	---	---	PASS	T	49195948	T	T	49195948	4	4	42	1	0	0	0	0	0	1	0	0	6073	1059	37	2	1352	2	FSHR	2	49195948	Nonsense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	280349	49195948	194003425	33	16364										
DCTN1	1639	broad.mit.edu	37	chr2	74597857	74597857	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gactcagcccgctcttcagcCatctccttgtccaaagtggc	8	16	4	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:74597857C>T	uc002skx.2	-	10	1250	c.939G>A	c.(937-939)ATG>ATA	p.M313I	DCTN1_uc002skv.2_Missense_Mutation_p.M179I|DCTN1_uc002sku.2_Missense_Mutation_p.M179I|DCTN1_uc002skw.1_Missense_Mutation_p.M289I|DCTN1_uc010ffd.2_Missense_Mutation_p.M293I|DCTN1_uc002sky.2_Missense_Mutation_p.M276I	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	313	Potential.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						GCTCTTCAGCCATCTCCTTGT	0.562													14	127	---	---	---	---	PASS	T	74597857	T	T	74597857	3	4	42	1	0	0	0	0	1	0	0	0	4306	594	21	3	2989	3	DCTN1	2	74597857	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	25401909	74597857	168601516	34	16365										
REG3G	130120	broad.mit.edu	37	chr2	79254172	79254172	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cctcaaagctggcttgccagAagcggccctctggaaaactg	11	13	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:79254172A>T	uc002snw.2	+	4	293	c.208A>T	c.(208-210)AAG>TAG	p.K70*	REG3G_uc002snx.2_Nonsense_Mutation_p.K70*|REG3G_uc010ffu.2_Intron	NM_198448	NP_940850	Q6UW15	REG3G_HUMAN	regenerating islet-derived 3 gamma precursor	70	C-type lectin.				acute-phase response	extracellular region	sugar binding				0						GGCTTGCCAGAAGCGGCCCTC	0.552													41	49	---	---	---	---	PASS	T	79254172	T	T	79254172	4	4	42	1	0	0	0	0	0	1	0	0	13213	247	9	5	218	5	REG3G	2	79254172	Nonsense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	4656315	79254172	163945201	35	16366										
SLC9A4	389015	broad.mit.edu	37	chr2	103090333	103090333	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aatctgcaaattccactgctCagtatgcatctaacgcttgg	7	11	3	0	rs140854922		TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:103090333C>A	uc002tbz.3	+	1	572	c.115C>A	c.(115-117)CAG>AAG	p.Q39K		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	39	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						TTCCACTGCTCAGTATGCATC	0.428													74	65	---	---	---	---	PASS	A	103090333	A	A	103090333	3	1	42	1	0	0	0	0	1	0	0	0	14716	827	29	2	117	2	SLC9A4	2	103090333	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	23836161	103090333	140109040	36	16367										
TGFBRAP1	9392	broad.mit.edu	37	chr2	105896848	105896848	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ggaacactcactttttgtgcTtctctagccaggcagcactg	9	12	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:105896848T>G	uc002tcq.2	-	6	1538	c.1454A>C	c.(1453-1455)AAG>ACG	p.K485T	TGFBRAP1_uc010fjc.2_Missense_Mutation_p.K255T|TGFBRAP1_uc002tcr.3_Missense_Mutation_p.K485T	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	485					regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						CTTTTTGTGCTTCTCTAGCCA	0.537													8	16	---	---	---	---	PASS	G	105896848	G	G	105896848	3	3	42	1	0	0	0	0	1	0	0	0	15821	1609	56	5	1156	5	TGFBRAP1	2	105896848	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	2806515	105896848	137302525	37	16368										
FBLN7	129804	broad.mit.edu	37	chr2	112945056	112945056	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aaccacgtgtccaaggtcacCatctttgtatccccctatga	6	14	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:112945056C>A	uc002tho.1	+	8	1564	c.1293C>A	c.(1291-1293)ACC>ACA	p.T431T	FBLN7_uc002thn.2_Missense_Mutation_p.P347Q|FBLN7_uc010fki.1_Silent_p.T385T|FBLN7_uc010fkj.1_Silent_p.T297T	NM_153214	NP_694946	Q53RD9	FBLN7_HUMAN	fibulin 7 isoform 1	431					cell adhesion	proteinaceous extracellular matrix	calcium ion binding|heparin binding			ovary(1)|central_nervous_system(1)	2						CCAAGGTCACCATCTTTGTAT	0.592													36	55	---	---	---	---	PASS	A	112945056	A	A	112945056	2	1	42	1	0	0	0	0	0	0	0	1	5701	581	21	3		3	FBLN7	2	112945056	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	7048208	112945056	130254317	38	16369										
THSD7B	80731	broad.mit.edu	37	chr2	137852605	137852605	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agccggaacgtgaagcacatGgctattggaggtggaaagga	16	6	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:137852605G>T	uc002tva.1	+	3	1020	c.1020G>T	c.(1018-1020)ATG>ATT	p.M340I	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Missense_Mutation_p.M230I	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TGAAGCACATGGCTATTGGAG	0.527													16	24	---	---	---	---	PASS	T	137852605	T	T	137852605	3	4	42	1	0	0	0	0	1	0	0	0	15877	1348	47	3	1030	3	THSD7B	2	137852605	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	24907549	137852605	105346768	39	16370										
LRP1B	53353	broad.mit.edu	37	chr2	141260630	141260630	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gagtatttagaagacaccgcCcatcagcacaactaaattct	6	11	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:141260630C>A	uc002tvj.1	-	54	9536	c.8564G>T	c.(8563-8565)GGG>GTG	p.G2855V		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2855	Extracellular (Potential).|LDL-receptor class A 19.				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)		AAGACACCGCCCATCAGCACA	0.398										TSP Lung(27;0.18)			4	45	---	---	---	---	PASS	A	141260630	A	A	141260630	3	1	42	1	0	0	0	0	1	0	0	0	8955	623	22	3	5387	3	LRP1B	2	141260630	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	3408025	141260630	101938743	40	16371										
LRP1B	53353	broad.mit.edu	37	chr2	141819680	141819680	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tagtccactactcccacataGtccaagtaaagatctaccca	4	14	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:141819680G>T	uc002tvj.1	-	8	2148	c.1176C>A	c.(1174-1176)GAC>GAA	p.D392E	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	392	Extracellular (Potential).|LDL-receptor class B 4.				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)		CTCCCACATAGTCCAAGTAAA	0.408										TSP Lung(27;0.18)			4	71	---	---	---	---	PASS	T	141819680	T	T	141819680	3	4	42	1	0	0	0	0	1	0	0	0	8955	1020	36	3	12959	3	LRP1B	2	141819680	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	559050	141819680	101379693	41	16372										
SCN1A	6323	broad.mit.edu	37	chr2	166929997	166929997	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tttggctttgggccattttcGtcgtcatcttttttgtctgg	10	8	3	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:166929997G>A	uc010zcz.1	-	1	153	c.135C>T	c.(133-135)GAC>GAT	p.D45D		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	45						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GGCCATTTTCGTCGTCATCTT	0.448													4	188	---	---	---	---	PASS	A	166929997	A	A	166929997	2	1	42	1	0	0	0	0	0	0	0	1	13914	1136	40	1		1	SCN1A	2	166929997	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	25110317	166929997	76269376	42	16373										
PDE11A	50940	broad.mit.edu	37	chr2	178936383	178936383	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gcagcagaggtgttcctgcaTgcacatcaaagaatttggag	12	8	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:178936383T>C	uc002ulq.2	-	1	1100	c.782A>G	c.(781-783)CAT>CGT	p.H261R	PDE11A_uc002ulr.2_Intron|PDE11A_uc002ult.1_Intron	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	261	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TGTTCCTGCATGCACATCAAA	0.537									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				32	39	---	---	---	---	PASS	C	178936383	C	C	178936383	3	2	42	1	0	0	0	0	1	0	0	0	11631	1464	51	5	2099	5	PDE11A	2	178936383	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	12006386	178936383	64262990	43	16374										
TTN	7273	broad.mit.edu	37	chr2	179417523	179417523	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agtctttcattgagagatcaCgtataggagctggtacttca	10	7	4	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:179417523C>T	uc010zfg.1	-	284	82624	c.82400G>A	c.(82399-82401)CGT>CAT	p.R27467H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R21162H|TTN_uc010zfi.1_Missense_Mutation_p.R21095H|TTN_uc010zfj.1_Missense_Mutation_p.R20970H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28394							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)			TGAGAGATCACGTATAGGAGC	0.438													5	44	---	---	---	---	PASS	T	179417523	T	T	179417523	3	4	42	1	0	0	0	0	1	0	0	0	16732	536	19	1	17987	1	TTN	2	179417523	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	481140	179417523	63781850	44	16375										
TTN	7273	broad.mit.edu	37	chr2	179585310	179585310	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tacttcaaatgggggagttcCcgaaatttcacattggagaa	10	7	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:179585310C>A	uc010zfg.1	-	77	19671	c.19447G>T	c.(19447-19449)GGA>TGA	p.G6483*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.G3144*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7410							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)			GGGGGAGTTCCCGAAATTTCA	0.388													3	22	---	---	---	---	PASS	A	179585310	A	A	179585310	4	1	42	1	0	0	0	0	0	1	0	0	16732	632	22	3	81482	3	TTN	2	179585310	Nonsense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	167787	179585310	63614063	45	16376										
TTN	7273	broad.mit.edu	37	chr2	179590103	179590103	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tattgtaccaacctaagaccAtcagtgtggccatgttctcc	7	12	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:179590103A>G	uc010zfg.1	-	68	17320	c.17096T>C	c.(17095-17097)ATG>ACG	p.M5699T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.M2360T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6626							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)			ACCTAAGACCATCAGTGTGGC	0.313													4	5	---	---	---	---	PASS	G	179590103	G	G	179590103	3	3	42	1	0	0	0	0	1	0	0	0	16732	217	8	5	83869	5	TTN	2	179590103	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	4793	179590103	63609270	46	16377										
DUSP19	142679	broad.mit.edu	37	chr2	183960325	183960325	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tggcttcatggagcagcttcGtacatatcaagagggcaaag	12	8	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:183960325G>A	uc002upd.2	+	4	968	c.593G>A	c.(592-594)CGT>CAT	p.R198H	DUSP19_uc010frp.2_Missense_Mutation_p.R147H|DUSP19_uc010zfr.1_RNA|DUSP19_uc002upe.2_3'UTR	NM_080876	NP_543152	Q8WTR2	DUS19_HUMAN	dual specificity phosphatase 19 isoform 1	198					JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|positive regulation of JNK cascade|positive regulation of JUN kinase activity	cytoplasm	JUN kinase phosphatase activity|MAP-kinase scaffold activity|mitogen-activated protein kinase kinase kinase binding|protein kinase activator activity|protein kinase inhibitor activity|protein tyrosine phosphatase activity			ovary(4)|pancreas(1)	5						GAGCAGCTTCGTACATATCAA	0.398													4	58	---	---	---	---	PASS	A	183960325	A	A	183960325	3	1	42	1	0	0	0	0	1	0	0	0	4818	1145	40	1	607	1	DUSP19	2	183960325	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	4370222	183960325	59239048	47	16378										
ZNF804A	91752	broad.mit.edu	37	chr2	185802120	185802120	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gcccaaatcagaatccatatCcttaagtgacaatgaagaaa	6	9	1	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:185802120C>A	uc002uph.2	+	4	2591	c.1997C>A	c.(1996-1998)TCC>TAC	p.S666Y		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	666						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						GAATCCATATCCTTAAGTGAC	0.318													9	77	---	---	---	---	PASS	A	185802120	A	A	185802120	3	1	42	1	0	0	0	0	1	0	0	0	18167	855	30	2	2011	2	ZNF804A	2	185802120	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	1841795	185802120	57397253	48	16379										
GULP1	51454	broad.mit.edu	37	chr2	189348175	189348175	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cagacaaaacatggatgcatAcacctgaagctttatcaaaa	6	9	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:189348175A>G	uc010fru.2	+	4	507	c.46A>G	c.(46-48)ACA>GCA	p.T16A	GULP1_uc002uqc.3_Missense_Mutation_p.T16A|GULP1_uc002uqd.2_Missense_Mutation_p.T16A|GULP1_uc010zfw.1_Missense_Mutation_p.T16A|GULP1_uc002uqe.2_Missense_Mutation_p.T16A|GULP1_uc002uqf.2_Missense_Mutation_p.T16A|GULP1_uc002uqg.2_Missense_Mutation_p.T16A	NM_016315	NP_057399	Q9UBP9	GULP1_HUMAN	GULP, engulfment adaptor PTB domain containing	16					apoptosis|lipid transport|phagocytosis, engulfment	cytoplasm|intracellular membrane-bounded organelle	signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0423)|Epithelial(96;0.158)			ATGGATGCATACACCTGAAGC	0.269													15	16	---	---	---	---	PASS	G	189348175	G	G	189348175	3	3	42	1	0	0	0	0	1	0	0	0	6901	391	14	5	52	5	GULP1	2	189348175	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	3546055	189348175	53851198	49	16380										
MSTN	2660	broad.mit.edu	37	chr2	190922267	190922267	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccacagttagagggtaacgaCagcatcgtgattctgttgag	12	8	1	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:190922267C>T	uc002urp.2	-	3	978	c.845G>A	c.(844-846)TGT>TAT	p.C282Y		NM_005259	NP_005250	O14793	GDF8_HUMAN	myostatin precursor	282					muscle organ development|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000742)|Epithelial(96;0.0121)|all cancers(119;0.0395)			AGGGTAACGACAGCATCGTGA	0.418													24	32	---	---	---	---	PASS	T	190922267	T	T	190922267	3	4	42	1	0	0	0	0	1	0	0	0	9893	478	17	3	286	3	MSTN	2	190922267	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	1574092	190922267	52277106	50	16381										
SLC39A10	57181	broad.mit.edu	37	chr2	196581432	196581432	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cagatttagaaggccaacaaGaatcccctcctaaaaattac	5	11	0	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:196581432G>C	uc002utg.3	+	7	1982	c.1768G>C	c.(1768-1770)GAA>CAA	p.E590Q	SLC39A10_uc002uth.3_Missense_Mutation_p.E590Q|SLC39A10_uc010zgp.1_Missense_Mutation_p.E140Q	NM_001127257	NP_001120729	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter),	590					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.221)			AGGCCAACAAGAATCCCCTCC	0.373													7	53	---	---	---	---	PASS	C	196581432	C	C	196581432	3	2	42	1	0	0	0	0	1	0	0	0	14613	943	33	2	1790	2	SLC39A10	2	196581432	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	5659165	196581432	46617941	51	16382										
DNAH7	56171	broad.mit.edu	37	chr2	196741285	196741285	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	taccattctcttgcccaaagGaggaccaaaaactccctttc	5	14	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:196741285G>A	uc002utj.3	-	37	6201	c.6100C>T	c.(6100-6102)CCT>TCT	p.P2034S		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2034	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TTGCCCAAAGGAGGACCAAAA	0.423													3	52	---	---	---	---	PASS	A	196741285	A	A	196741285	3	1	42	1	0	0	0	0	1	0	0	0	4606	1174	41	2	6090	2	DNAH7	2	196741285	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	159853	196741285	46458088	52	16383										
SATB2	23314	broad.mit.edu	37	chr2	200137131	200137131	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cttcccgtggtgcttcacgtGgtaccgctggttctggaaga	13	11	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:200137131G>A	uc002uuy.1	-	11	2822	c.2005C>T	c.(2005-2007)CAC>TAC	p.H669Y	SATB2_uc010fsq.1_Missense_Mutation_p.H551Y|SATB2_uc002uuz.1_Missense_Mutation_p.H669Y|SATB2_uc002uva.1_Missense_Mutation_p.H669Y	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	669	Homeobox.					cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGCTTCACGTGGTACCGCTGG	0.567													6	65	---	---	---	---	PASS	A	200137131	A	A	200137131	3	1	42	1	0	0	0	0	1	0	0	0	13854	1348	47	3	200	3	SATB2	2	200137131	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	3395846	200137131	43062242	53	16384										
SATB2	23314	broad.mit.edu	37	chr2	200137256	200137256	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gaataaagctttggaggatcCccagggcttctaaggagatc	12	8	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:200137256C>G	uc002uuy.1	-	11	2697	c.1880G>C	c.(1879-1881)GGG>GCG	p.G627A	SATB2_uc010fsq.1_Missense_Mutation_p.G509A|SATB2_uc002uuz.1_Missense_Mutation_p.G627A|SATB2_uc002uva.1_Missense_Mutation_p.G627A	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	627	Homeobox.					cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						TTGGAGGATCCCCAGGGCTTC	0.552													8	40	---	---	---	---	PASS	G	200137256	G	G	200137256	3	3	42	1	0	0	0	0	1	0	0	0	13854	623	22	4	325	4	SATB2	2	200137256	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	125	200137256	43062117	54	16385										
AOX1	316	broad.mit.edu	37	chr2	201468035	201468035	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aaaatggggtttgctgtttgGatcaaggaatcaatggattg	13	3	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:201468035G>T	uc002uvx.2	+	7	645	c.544G>T	c.(544-546)GAT>TAT	p.D182Y		NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	182					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	TTGCTGTTTGGATCAAGGAAT	0.388													4	41	---	---	---	---	PASS	T	201468035	T	T	201468035	3	4	42	1	0	0	0	0	1	0	0	0	729	1174	41	2	570	2	AOX1	2	201468035	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	1330779	201468035	41731338	55	16386										
AOX1	316	broad.mit.edu	37	chr2	201499549	201499549	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gaggtcaagaacatttttatAtggaaacccaaagcatgctt	8	7	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:201499549A>G	uc002uvx.2	+	21	2358	c.2257A>G	c.(2257-2259)ATG>GTG	p.M753V	AOX1_uc010zhf.1_Missense_Mutation_p.M309V|AOX1_uc010fsu.2_Missense_Mutation_p.M119V	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	753					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	ACATTTTTATATGGAAACCCA	0.433													10	18	---	---	---	---	PASS	G	201499549	G	G	201499549	3	3	42	1	0	0	0	0	1	0	0	0	729	449	16	5	2339	5	AOX1	2	201499549	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	31514	201499549	41699824	56	16387										
CXCR2	3579	broad.mit.edu	37	chr2	219000268	219000268	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cacatggggcagaagcaccgGgccatgcgggtcatctttgc	14	12	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr2:219000268G>A	uc002vgz.1	+	4	969	c.744G>A	c.(742-744)CGG>CGA	p.R248R	CXCR2_uc002vha.1_Silent_p.R248R|CXCR2_uc002vhb.1_Silent_p.R248R	NM_001557	NP_001548	P25025	CXCR2_HUMAN	interleukin 8 receptor beta	248	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						AGAAGCACCGGGCCATGCGGG	0.587													34	96	---	---	---	---	PASS	A	219000268	A	A	219000268	2	1	42	1	0	0	0	0	0	0	0	1	4091	1219	43	3		3	CXCR2	2	219000268	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	17500719	219000268	24199105	57	16388										
ZNF385D	79750	broad.mit.edu	37	chr3	21706457	21706457	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atggtttaatatccagcgatGgttgcaaaggaggggctggt	15	5	0	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:21706457G>T	uc003cce.2	-	2	494	c.86C>A	c.(85-87)CCA>CAA	p.P29Q	ZNF385D_uc010hfb.1_Intron	NM_024697	NP_078973	Q9H6B1	Z385D_HUMAN	zinc finger protein 385D	29						nucleus	nucleic acid binding|zinc ion binding			large_intestine(2)|skin(2)|ovary(1)	5						ATCCAGCGATGGTTGCAAAGG	0.522													15	19	---	---	---	---	PASS	T	21706457	T	T	21706457	3	4	42	1	0	0	0	0	1	0	0	0	17875	1348	47	3	1129	3	ZNF385D	3	21706457	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08		21706457	176315973	58	16389										
TRANK1	9881	broad.mit.edu	37	chr3	36898726	36898726	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atctcccaggtcatgttatcGaagtcctggaggcaggcctc	11	12	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:36898726G>A	uc003cgj.2	-	3	1007	c.705C>T	c.(703-705)TTC>TTT	p.F235F		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	785					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TCATGTTATCGAAGTCCTGGA	0.502													29	134	---	---	---	---	PASS	A	36898726	A	A	36898726	2	1	42	1	0	0	0	0	0	0	0	1	16451	1049	37	2		2	TRANK1	3	36898726	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	15192269	36898726	161123704	59	16390										
XIRP1	165904	broad.mit.edu	37	chr3	39230454	39230454	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agctcgtccagtggctttgtCtcaaatagccagcgggctgc	12	12	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:39230454C>G	uc003cjk.1	-	2	704	c.483G>C	c.(481-483)GAG>GAC	p.E161D	XIRP1_uc003cji.2_Missense_Mutation_p.E161D|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	161	Xin 3.						actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		GTGGCTTTGTCTCAAATAGCC	0.607													7	34	---	---	---	---	PASS	G	39230454	G	G	39230454	3	3	42	1	0	0	0	0	1	0	0	0	17426	912	32	2	5052	2	XIRP1	3	39230454	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	2331728	39230454	158791976	60	16391										
CTNNB1	1499	broad.mit.edu	37	chr3	41278137	41278137	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gacaagccacaagattacaaGaaacggctttcagttgagct	9	9	1	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:41278137G>A	uc010hia.1	+	14	2169	c.2013G>A	c.(2011-2013)AAG>AAA	p.K671K	CTNNB1_uc003ckp.2_Silent_p.K671K|CTNNB1_uc003ckq.2_Silent_p.K671K|CTNNB1_uc003ckr.2_Silent_p.K671K|CTNNB1_uc011azf.1_Silent_p.K664K|CTNNB1_uc011azg.1_Silent_p.K599K|CTNNB1_uc003cks.2_3'UTR|CTNNB1_uc003ckt.1_3'UTR	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	671					adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.E632_S681>SV(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	AAGATTACAAGAAACGGCTTT	0.448		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				4	63	---	---	---	---	PASS	A	41278137	A	A	41278137	2	1	42	1	0	0	0	0	0	0	0	1	4016	933	33	2		2	CTNNB1	3	41278137	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	2047683	41278137	156744293	61	16392										
FAM19A1	407738	broad.mit.edu	37	chr3	68055808	68055808	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atgtcctgggtcctgtatttGtggataagtgcttgtgcaat	12	6	0	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:68055808G>C	uc003dnd.2	+	2	255	c.39G>C	c.(37-39)TTG>TTC	p.L13F	FAM19A1_uc003dne.2_Missense_Mutation_p.L13F|FAM19A1_uc003dng.2_Missense_Mutation_p.L13F|FAM19A1_uc003dnf.1_RNA	NM_213609	NP_998774	Q7Z5A9	F19A1_HUMAN	family with sequence similarity 19 (chemokine	13						endoplasmic reticulum|extracellular region				ovary(1)	1		Lung NSC(201;0.0117)		BRCA - Breast invasive adenocarcinoma(55;7.7e-05)|Epithelial(33;0.000937)|KIRC - Kidney renal clear cell carcinoma(39;0.0579)|Kidney(39;0.0743)		TCCTGTATTTGTGGATAAGTG	0.522													3	85	---	---	---	---	PASS	C	68055808	C	C	68055808	3	2	42	1	0	0	0	0	1	0	0	0	5531	1368	48	4	41	4	FAM19A1	3	68055808	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	26777671	68055808	129966622	62	16393										
OR5H6	79295	broad.mit.edu	37	chr3	97983260	97983260	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gactgtaaaataccgctcttCctggcattcttggtaatata	7	9	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:97983260C>T	uc003dsi.1	+	1	132	c.132C>T	c.(130-132)TTC>TTT	p.F44F		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	44	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						TACCGCTCTTCCTGGCATTCT	0.413													39	190	---	---	---	---	PASS	T	97983260	T	T	97983260	2	4	42	1	0	0	0	0	0	0	0	1	11163	854	30	2		2	OR5H6	3	97983260	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	29927452	97983260	100039170	63	16394										
CD96	10225	broad.mit.edu	37	chr3	111325605	111325605	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	acagaatctacccttgacacCcaaccttctccagccagcag	5	17	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:111325605C>T	uc003dxw.2	+	9	1364	c.1194C>T	c.(1192-1194)ACC>ACT	p.T398T	CD96_uc003dxv.2_Silent_p.T382T|CD96_uc003dxx.2_Silent_p.T382T|CD96_uc010hpy.1_Silent_p.T382T	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor	398	Extracellular (Potential).|Pro/Ser/Thr-rich.				cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						CCCTTGACACCCAACCTTCTC	0.373									Opitz_Trigonocephaly_syndrome				10	25	---	---	---	---	PASS	T	111325605	T	T	111325605	2	4	42	1	0	0	0	0	0	0	0	1	3048	610	22	3		3	CD96	3	111325605	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	13342345	111325605	86696825	64	16395										
GAP43	2596	broad.mit.edu	37	chr3	115395178	115395178	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aggagaagaagggggagggtGatgctgccacagagcaggca	19	6	0	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:115395178G>A	uc003ebq.2	+	2	735	c.349G>A	c.(349-351)GAT>AAT	p.D117N	GAP43_uc003ebr.2_Missense_Mutation_p.D153N	NM_002045	NP_002036	P17677	NEUM_HUMAN	growth associated protein 43 isoform 2	117					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell differentiation|nervous system development|regulation of filopodium assembly|regulation of growth|response to wounding	cell junction|filopodium membrane|growth cone membrane|synapse	calmodulin binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.164)		GGGGGAGGGTGATGCTGCCAC	0.602													6	16	---	---	---	---	PASS	A	115395178	A	A	115395178	3	1	42	1	0	0	0	0	1	0	0	0	6235	1290	45	2	497	2	GAP43	3	115395178	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	4069573	115395178	82627252	65	16396										
MYLK	4638	broad.mit.edu	37	chr3	123367818	123367818	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	caacttcccactccacttacGatcctaatctctcctcaatg	2	17	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:123367818G>T	uc003ego.2	-	26	4697	c.4415C>A	c.(4414-4416)TCT>TAT	p.S1472Y	MYLK_uc010hrr.2_5'UTR|MYLK_uc011bjv.1_Missense_Mutation_p.S272Y|MYLK_uc011bjw.1_Missense_Mutation_p.S1472Y|MYLK_uc003egp.2_Missense_Mutation_p.S1403Y|MYLK_uc003egq.2_Missense_Mutation_p.S1472Y|MYLK_uc003egr.2_Missense_Mutation_p.S1403Y|MYLK_uc003egs.2_Missense_Mutation_p.S1296Y	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1472	ATP (By similarity).|Protein kinase.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CTCCACTTACGATCCTAATCT	0.527													8	49	---	---	---	---	PASS	T	123367818	T	T	123367818	3	4	42	1	0	0	0	0	1	0	0	0	10056	1072	37	2	1365	2	MYLK	3	123367818	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	7972640	123367818	74654612	66	16397										
KCNAB1	7881	broad.mit.edu	37	chr3	155838411	155838411	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gatctccacgatgctggcagCccggacaggggcagcgggga	17	12	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:155838411C>G	uc003far.2	+	1	75	c.11C>G	c.(10-12)GCC>GGC	p.A4G	KCNAB1_uc011bon.1_Missense_Mutation_p.A4G	NM_172160	NP_751892	Q14722	KCAB1_HUMAN	potassium voltage-gated channel, shaker-related	4						cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			ATGCTGGCAGCCCGGACAGGG	0.502													23	226	---	---	---	---	PASS	G	155838411	G	G	155838411	3	3	42	1	0	0	0	0	1	0	0	0	8009	739	26	4	13	4	KCNAB1	3	155838411	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	32470593	155838411	42184019	67	16398										
VEPH1	79674	broad.mit.edu	37	chr3	157081471	157081471	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aagagagatgctggctggtaTgtctcccctgttttcatctt	10	9	3	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:157081471T>C	uc003fbj.1	-	9	1734	c.1417A>G	c.(1417-1419)ATA>GTA	p.I473V	VEPH1_uc003fbk.1_Missense_Mutation_p.I473V|VEPH1_uc010hvu.1_Missense_Mutation_p.I473V	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	473						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			CTGGCTGGTATGTCTCCCCTG	0.478													12	98	---	---	---	---	PASS	C	157081471	C	C	157081471	3	2	42	1	0	0	0	0	1	0	0	0	17151	1464	51	5	1108	5	VEPH1	3	157081471	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	1243060	157081471	40940959	68	16399										
RSRC1	51319	broad.mit.edu	37	chr3	158261214	158261214	+	Missense_Mutation	SNP	G	A	A													0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccagtactgaaaaagaaataGatcctaccagcatccctact					rs144776555		TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:158261214G>A	uc003fbt.2	+	9	961	c.850G>A	c.(850-852)GAT>AAT	p.D284N	RSRC1_uc003fbv.2_Missense_Mutation_p.D226N	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	284					nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			AAAAGAAATAGATCCTACCAG	0.418													15	143	---	---	---	---	PASS	A	158261214	A	A	158261214	3	1	42	1	0	0	0	0	1	0	0	0	13714	942	33	2	880	2	RSRC1	3	158261214	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	1179743	158261214	39761216	69	16400	394	2								
RSRC1	51319	broad.mit.edu	37	chr3	158261220	158261220	+	Missense_Mutation	SNP	A	C	C													0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ctgaaaaagaaatagatcctAccagcatccctactgctatc							TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:158261220A>C	uc003fbt.2	+	9	967	c.856A>C	c.(856-858)ACC>CCC	p.T286P	RSRC1_uc003fbv.2_Missense_Mutation_p.T228P	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	286					nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			AATAGATCCTACCAGCATCCC	0.413													16	144	---	---	---	---	PASS	C	158261220	C	C	158261220	3	2	42	1	0	0	0	0	1	0	0	0	13714	391	14	5	886	5	RSRC1	3	158261220	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	6	158261220	39761210	70	16401	394	2								
KPNA4	3840	broad.mit.edu	37	chr3	160248717	160248717	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aagcccatgcagcttcaaacTgtaaagaaggactacaaaaa	7	9	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:160248717T>A	uc003fdn.2	-	7	701	c.395A>T	c.(394-396)CAG>CTG	p.Q132L		NM_002268	NP_002259	O00629	IMA4_HUMAN	karyopherin alpha 4	132	ARM 2.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			AGCTTCAAACTGTAAAGAAGG	0.338													9	69	---	---	---	---	PASS	A	160248717	A	A	160248717	3	1	42	1	0	0	0	0	1	0	0	0	8432	1580	55	5	1214	5	KPNA4	3	160248717	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	1987497	160248717	37773713	71	16402										
SLITRK3	22865	broad.mit.edu	37	chr3	164907779	164907779	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gagtcagacaacaagggacaGagttctgtcttcctgatttc	10	9	3	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:164907779G>A	uc003fej.3	-	2	1284	c.840C>T	c.(838-840)CTC>CTT	p.L280L	SLITRK3_uc003fek.2_Silent_p.L280L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	280	LRRCT 1.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						ACAAGGGACAGAGTTCTGTCT	0.483										HNSCC(40;0.11)			28	94	---	---	---	---	PASS	A	164907779	A	A	164907779	2	1	42	1	0	0	0	0	0	0	0	1	14744	929	33	2		2	SLITRK3	3	164907779	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	4659062	164907779	33114651	72	16403										
PHC3	80012	broad.mit.edu	37	chr3	169820624	169820624	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gttctctcgctgccccatcaGggccacttggacgacggcca	11	16	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:169820624G>A	uc010hws.1	-	13	2595	c.2531C>T	c.(2530-2532)CCT>CTT	p.P844L	PHC3_uc003fgl.2_Missense_Mutation_p.P856L|PHC3_uc011bpq.1_Missense_Mutation_p.P803L	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	844					multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			TGCCCCATCAGGGCCACTTGG	0.438													15	91	---	---	---	---	PASS	A	169820624	A	A	169820624	3	1	42	1	0	0	0	0	1	0	0	0	11818	1000	35	3	432	3	PHC3	3	169820624	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	4912845	169820624	28201806	73	16404										
FNDC3B	64778	broad.mit.edu	37	chr3	172016525	172016525	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tttttctttacagtggagaaGaattagaatgtaacctgaaa	8	4	1	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:172016525G>A	uc003fhy.2	+	9	1181	c.1009G>A	c.(1009-1011)GAA>AAA	p.E337K	FNDC3B_uc003fhz.3_Missense_Mutation_p.E337K|FNDC3B_uc003fia.2_Missense_Mutation_p.E268K	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	337	Fibronectin type-III 1.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		CAGTGGAGAAGAATTAGAATG	0.368													5	231	---	---	---	---	PASS	A	172016525	A	A	172016525	3	1	42	1	0	0	0	0	1	0	0	0	5970	943	33	2	1039	2	FNDC3B	3	172016525	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	2195901	172016525	26005905	74	16405										
NAALADL2	254827	broad.mit.edu	37	chr3	175165048	175165048	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agacaaagccgatcaaacctCacctctctattagtgcagcc	6	14	3	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:175165048C>T	uc003fit.2	+	6	1209	c.1122C>T	c.(1120-1122)CTC>CTT	p.L374L	NAALADL2_uc003fiu.1_Silent_p.L367L|NAALADL2_uc010hwy.1_Intron|NAALADL2_uc010hwz.1_5'UTR	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	374	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		GATCAAACCTCACCTCTCTAT	0.388													4	41	---	---	---	---	PASS	T	175165048	T	T	175165048	2	4	42	1	0	0	0	0	0	0	0	1	10130	813	29	2		2	NAALADL2	3	175165048	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	3148523	175165048	22857382	75	16406										
AP2M1	1173	broad.mit.edu	37	chr3	183900585	183900585	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgaaggaatcgcagatcagcGcagagattgagcttctgcct	12	9	2	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:183900585G>T	uc011bqx.1	+	11	1259	c.1102G>T	c.(1102-1104)GCA>TCA	p.A368S	AP2M1_uc003fmw.2_Missense_Mutation_p.A366S|AP2M1_uc003fmx.2_Missense_Mutation_p.A296S|AP2M1_uc003fmy.2_Missense_Mutation_p.A366S|AP2M1_uc011bqy.1_Missense_Mutation_p.A238S|AP2M1_uc011bqz.1_Missense_Mutation_p.A184S	NM_004068	NP_004059	Q96CW1	AP2M1_HUMAN	adaptor-related protein complex 2, mu 1 subunit	368	MHD.				axon guidance|cellular membrane organization|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|clathrin coat of coated pit|cytosol|endocytic vesicle membrane|peroxisomal membrane	lipid binding|protein binding|transporter activity				0	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.92e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCAGATCAGCGCAGAGATTGA	0.527													3	71	---	---	---	---	PASS	T	183900585	T	T	183900585	3	4	42	1	0	0	0	0	1	0	0	0	742	1087	38	1	1137	1	AP2M1	3	183900585	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	8735537	183900585	14121845	76	16407										
LRRC33	375387	broad.mit.edu	37	chr3	196388330	196388330	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtggggtggatggctgggggGccctgcagcatgggcagacg	22	8	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr3:196388330G>T	uc003fwv.2	+	3	1920	c.1816G>T	c.(1816-1818)GCC>TCC	p.A606S		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	606	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		TGGCTGGGGGGCCCTGCAGCA	0.632													5	164	---	---	---	---	PASS	T	196388330	T	T	196388330	3	4	42	1	0	0	0	0	1	0	0	0	8988	1203	42	3	1822	3	LRRC33	3	196388330	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	12487745	196388330	1634100	77	16408										
LAP3	51056	broad.mit.edu	37	chr4	17585116	17585116	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tcttttcaagcggggtgcagGcagattcaagacctggagct	13	9	3	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:17585116G>T	uc003gph.1	+	5	552	c.390G>T	c.(388-390)AGG>AGT	p.R130S	LAP3_uc010ieg.2_Missense_Mutation_p.G95V	NM_015907	NP_056991	P28838	AMPL_HUMAN	leucine aminopeptidase 3	130					proteolysis	nucleus	aminopeptidase activity|magnesium ion binding|manganese ion binding|metalloexopeptidase activity|zinc ion binding				0						CGGGGTGCAGGCAGATTCAAG	0.532													26	74	---	---	---	---	PASS	T	17585116	T	T	17585116	3	4	42	1	0	0	0	0	1	0	0	0	8623	1194	42	3	408	3	LAP3	4	17585116	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08		17585116	173569160	78	16409										
PPARGC1A	10891	broad.mit.edu	37	chr4	23803907	23803907	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	caaaaacttcaaaacggtccCtcagttctgtccgtgttgtg	8	11	3	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:23803907C>A	uc003gqs.2	-	11	2201	c.2081G>T	c.(2080-2082)AGG>ATG	p.R694M	PPARGC1A_uc003gqt.2_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	694	RRM.				androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				AAAACGGTCCCTCAGTTCTGT	0.458													17	39	---	---	---	---	PASS	A	23803907	A	A	23803907	3	1	42	1	0	0	0	0	1	0	0	0	12300	681	24	3	327	3	PPARGC1A	4	23803907	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	6218791	23803907	167350369	79	16410										
GABRG1	2565	broad.mit.edu	37	chr4	46053442	46053442	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atttttctttttaacataccGaggctttattttttagcttt	4	6	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:46053442G>T	uc003gxb.2	-	8	1282	c.1130C>A	c.(1129-1131)TCG>TAG	p.S377*		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	377	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		TTAACATACCGAGGCTTTATT	0.318													5	12	---	---	---	---	PASS	T	46053442	T	T	46053442	4	4	42	1	0	0	0	0	0	1	0	0	6171	1072	37	2	275	2	GABRG1	4	46053442	Nonsense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	22249535	46053442	145100834	80	16411										
EXOC1	55763	broad.mit.edu	37	chr4	56734579	56734579	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atgaataccaagagttaaatGcaagagaagaacaggatatc	9	5	0	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:56734579G>T	uc003hbe.1	+	5	651	c.493G>T	c.(493-495)GCA>TCA	p.A165S	EXOC1_uc003hbf.1_Missense_Mutation_p.A165S|EXOC1_uc003hbg.1_Missense_Mutation_p.A165S	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	165	Potential.				exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					AGAGTTAAATGCAAGAGAAGA	0.393													9	18	---	---	---	---	PASS	T	56734579	T	T	56734579	3	4	42	1	0	0	0	0	1	0	0	0	5301	1319	46	3	507	3	EXOC1	4	56734579	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	10681137	56734579	134419697	81	16412										
UTP3	57050	broad.mit.edu	37	chr4	71555719	71555719	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	acacagagagaagttcagaaGagccaaaattagaagaagag	11	5	1	7			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:71555719G>A	uc003hfo.2	+	1	1524	c.1325G>A	c.(1324-1326)AGA>AAA	p.R442K		NM_020368	NP_065101	Q9NQZ2	SAS10_HUMAN	UTP3, small subunit processome component	442					brain development|chromatin modification|gene silencing	nucleolus					0			Lung(101;0.235)			AAGTTCAGAAGAGCCAAAATT	0.408													17	58	---	---	---	---	PASS	A	71555719	A	A	71555719	3	1	42	1	0	0	0	0	1	0	0	0	17098	942	33	2	1327	2	UTP3	4	71555719	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	14821140	71555719	119598557	82	16413										
SLC4A4	8671	broad.mit.edu	37	chr4	72263358	72263358	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aatgacatttctgataaaccGgagaaggaccaggtaagcaa	10	7	1	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:72263358G>C	uc003hfy.2	+	7	912	c.795G>C	c.(793-795)CCG>CCC	p.P265P	SLC4A4_uc010iic.2_Silent_p.P265P|SLC4A4_uc010iib.2_Silent_p.P265P|SLC4A4_uc003hfz.2_Silent_p.P265P|SLC4A4_uc003hgc.3_Silent_p.P221P|SLC4A4_uc003hga.2_Silent_p.P143P|SLC4A4_uc003hgb.3_Silent_p.P221P	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	265	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			CTGATAAACCGGAGAAGGACC	0.393													8	38	---	---	---	---	PASS	C	72263358	C	C	72263358	2	2	42	1	0	0	0	0	0	0	0	1	14656	1103	39	4		4	SLC4A4	4	72263358	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	707639	72263358	118890918	83	16414										
ADH1B	125	broad.mit.edu	37	chr4	100235165	100235165	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgattctggctgctccagctGctttacagcccataacagca	8	13	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:100235165G>T	uc003hus.3	-	6	725	c.641C>A	c.(640-642)GCA>GAA	p.A214E	ADH1A_uc011ceg.1_Intron|ADH1B_uc003hut.3_Missense_Mutation_p.A174E|ADH1B_uc011ceh.1_Missense_Mutation_p.A59E|ADH1B_uc011cei.1_Missense_Mutation_p.A174E	NM_000668	NP_000659	P00325	ADH1B_HUMAN	class I alcohol dehydrogenase, beta subunit	214					ethanol oxidation|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|zinc ion binding			ovary(1)|breast(1)	2				OV - Ovarian serous cystadenocarcinoma(123;1.02e-07)	Fomepizole(DB01213)|NADH(DB00157)	TGCTCCAGCTGCTTTACAGCC	0.502													38	195	---	---	---	---	PASS	T	100235165	T	T	100235165	3	4	42	1	0	0	0	0	1	0	0	0	308	1319	46	3	502	3	ADH1B	4	100235165	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	27971807	100235165	90919111	84	16415										
TBCK	93627	broad.mit.edu	37	chr4	107230062	107230062	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ttccacaaacatcatgtggcAgagccgaggcaaagaaggta	11	9	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:107230062A>C	uc010ilv.2	-	2	421	c.56T>G	c.(55-57)CTG>CGG	p.L19R	TBCK_uc003hye.2_Missense_Mutation_p.L19R|TBCK_uc003hyc.2_Missense_Mutation_p.L19R|TBCK_uc003hyd.2_5'UTR|TBCK_uc003hyf.2_Missense_Mutation_p.L19R	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like	19	Protein kinase.					intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						ATCATGTGGCAGAGCCGAGGC	0.443													5	35	---	---	---	---	PASS	C	107230062	C	C	107230062	3	2	42	1	0	0	0	0	1	0	0	0	15633	188	7	5	2725	5	TBCK	4	107230062	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	6994897	107230062	83924214	85	16416										
ADAD1	132612	broad.mit.edu	37	chr4	123305122	123305122	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	acgaattttagaaacatcagGtaaatactcttgattataaa	5	5	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:123305122G>C	uc003ieo.2	+	5	761	c.529_splice	c.e5+1	p.G177_splice	ADAD1_uc003iep.2_Splice_Site_p.G177_splice|ADAD1_uc003ieq.2_Splice_Site_p.G159_splice	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1						multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						GAAACATCAGGTAAATACTCT	0.333													8	22	---	---	---	---	PASS	C	123305122	C	C	123305122	5	2	42	1	0	0	0	0	0	0	1	0	231	1275	44	4	540	4	ADAD1	4	123305122	Splice_Site	SNP	G	TCGA-22-5471-01A-01D-1632-08	16075060	123305122	67849154	86	16417										
GUCY1A3	2982	broad.mit.edu	37	chr4	156629398	156629398	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atatttccaggaaatctttgGaaagagaagactttgaaaaa	8	4	1	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:156629398G>A	uc003iov.2	+	6	864	c.328G>A	c.(328-330)GAA>AAA	p.E110K	GUCY1A3_uc003iou.2_Missense_Mutation_p.E110K|GUCY1A3_uc010iqc.2_Missense_Mutation_p.E110K|GUCY1A3_uc003iow.2_Missense_Mutation_p.E110K|GUCY1A3_uc010iqd.2_Missense_Mutation_p.E110K|GUCY1A3_uc003iox.2_Missense_Mutation_p.E110K|GUCY1A3_uc003ioz.2_5'UTR|GUCY1A3_uc003ioy.2_Missense_Mutation_p.E110K|GUCY1A3_uc010iqe.2_5'UTR|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.E110K	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	110					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		GAAATCTTTGGAAAGAGAAGA	0.279													5	39	---	---	---	---	PASS	A	156629398	A	A	156629398	3	1	42	1	0	0	0	0	1	0	0	0	6894	1175	41	2	338	2	GUCY1A3	4	156629398	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	33324276	156629398	34524878	87	16418										
WDR17	116966	broad.mit.edu	37	chr4	177071097	177071097	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agatcttgggaagaaattatTgggaacactggtatggaaca	12	4	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:177071097T>A	uc003iuj.2	+	15	2265	c.2109T>A	c.(2107-2109)ATT>ATA	p.I703I	WDR17_uc003iuk.2_Silent_p.I679I|WDR17_uc003ium.3_Silent_p.I679I|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_5'Flank	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	703										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		AAGAAATTATTGGGAACACTG	0.353													28	69	---	---	---	---	PASS	A	177071097	A	A	177071097	2	1	42	1	0	0	0	0	0	0	0	1	17274	1800	63	5		5	WDR17	4	177071097	Silent	SNP	T	TCGA-22-5471-01A-01D-1632-08	20441699	177071097	14083179	88	16419										
WDR17	116966	broad.mit.edu	37	chr4	177098642	177098642	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atcattagaagactctccgtAtacacccccttctgattcac	4	14	4	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:177098642A>C	uc003iuj.2	+	30	3842	c.3686A>C	c.(3685-3687)TAT>TCT	p.Y1229S	WDR17_uc003iuk.2_Missense_Mutation_p.Y1205S|WDR17_uc003ium.3_Missense_Mutation_p.Y1190S|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.Y440S	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	1229										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		GACTCTCCGTATACACCCCCT	0.308													9	69	---	---	---	---	PASS	C	177098642	C	C	177098642	3	2	42	1	0	0	0	0	1	0	0	0	17274	449	16	5	3800	5	WDR17	4	177098642	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	27545	177098642	14055634	89	16420										
SORBS2	8470	broad.mit.edu	37	chr4	186544316	186544316	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ggtgcaggatgctgttgtccGgcaagctcccccttttcttt	11	12	1	0	rs144923775	byFrequency	TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:186544316G>T	uc003iyl.2	-	13	3113	c.2255C>A	c.(2254-2256)CCG>CAG	p.P752Q	SORBS2_uc003iyh.2_Intron|SORBS2_uc011ckw.1_Intron|SORBS2_uc003iyi.2_Intron|SORBS2_uc011ckx.1_Intron|SORBS2_uc003iyk.2_Intron|SORBS2_uc003iym.2_Missense_Mutation_p.P852Q|SORBS2_uc003iyn.1_Intron|SORBS2_uc011cku.1_Intron|SORBS2_uc011ckv.1_Missense_Mutation_p.P656Q|SORBS2_uc003iyd.2_Intron|SORBS2_uc003iye.2_Intron|SORBS2_uc003iya.2_Intron|SORBS2_uc003iyb.2_Intron|SORBS2_uc003iyc.2_Intron|SORBS2_uc003iyg.2_Missense_Mutation_p.P866Q|SORBS2_uc003iyf.2_Intron|SORBS2_uc003iyo.1_Intron	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	752						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		GCTGTTGTCCGGCAAGCTCCC	0.527													32	169	---	---	---	---	PASS	T	186544316	T	T	186544316	3	4	42	1	0	0	0	0	1	0	0	0	14928	1116	39	1	1083	1	SORBS2	4	186544316	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	9445674	186544316	4609960	90	16421										
F11	2160	broad.mit.edu	37	chr4	187192828	187192828	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	acattactacggtcttcacaCcaagcgccaagtactgccag	7	14	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:187192828C>T	uc003iza.1	+	3	454	c.121C>T	c.(121-123)CCA>TCA	p.P41S	F11_uc003iyz.2_Missense_Mutation_p.P41S	NM_000128	NP_000119	P03951	FA11_HUMAN	coagulation factor XI precursor	41	Apple 1.				blood coagulation, intrinsic pathway|plasminogen activation|positive regulation of fibrinolysis	extracellular space|plasma membrane	heparin binding|serine-type endopeptidase activity				0		all_cancers(14;6.2e-52)|all_epithelial(14;1.62e-38)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;2.13e-11)|BRCA - Breast invasive adenocarcinoma(30;4.59e-06)|GBM - Glioblastoma multiforme(59;0.000149)|STAD - Stomach adenocarcinoma(60;0.000314)|LUSC - Lung squamous cell carcinoma(40;0.00112)|READ - Rectum adenocarcinoma(43;0.176)	Coagulation Factor IX(DB00100)	GGTCTTCACACCAAGCGCCAA	0.488													33	46	---	---	---	---	PASS	T	187192828	T	T	187192828	3	4	42	1	0	0	0	0	1	0	0	0	5337	507	18	3	127	3	F11	4	187192828	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	648512	187192828	3961448	91	16422										
ZFP42	132625	broad.mit.edu	37	chr4	188924097	188924097	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aaatagaacctgtcagcgcgGtgtgggccttatgtgatggc	14	8	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr4:188924097G>T	uc003izg.1	+	3	381	c.136G>T	c.(136-138)GTG>TTG	p.V46L	ZFP42_uc003izh.1_Missense_Mutation_p.V46L|ZFP42_uc003izi.1_Missense_Mutation_p.V46L	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	46					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		TGTCAGCGCGGTGTGGGCCTT	0.567													17	35	---	---	---	---	PASS	T	188924097	T	T	188924097	3	4	42	1	0	0	0	0	1	0	0	0	17647	1261	44	3	138	3	ZFP42	4	188924097	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	1731269	188924097	2230179	92	16423										
ADAMTS16	170690	broad.mit.edu	37	chr5	5186183	5186183	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agacatgccccagcctcccaAggaagacctcttcatcttgc	7	16	3	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:5186183A>G	uc003jdl.2	+	5	920	c.782A>G	c.(781-783)AAG>AGG	p.K261R	ADAMTS16_uc003jdk.1_Missense_Mutation_p.K261R|ADAMTS16_uc003jdj.1_Missense_Mutation_p.K261R	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	261					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CAGCCTCCCAAGGAAGACCTC	0.488													28	133	---	---	---	---	PASS	G	5186183	G	G	5186183	3	3	42	1	0	0	0	0	1	0	0	0	261	72	3	5	800	5	ADAMTS16	5	5186183	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08		5186183	175729077	93	16424										
CTNND2	1501	broad.mit.edu	37	chr5	11117570	11117570	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agcacaaccaaccttgctatCgatctcactgctccccagcg	6	17	1	0	rs141186137		TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:11117570C>G	uc003jfa.1	-	13	2414	c.2269G>C	c.(2269-2271)GAT>CAT	p.D757H	CTNND2_uc010itt.2_Missense_Mutation_p.D666H|CTNND2_uc011cmy.1_Missense_Mutation_p.D420H|CTNND2_uc011cmz.1_Missense_Mutation_p.D324H|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.D324H	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	757	ARM 6.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						ACCTTGCTATCGATCTCACTG	0.522													33	54	---	---	---	---	PASS	G	11117570	G	G	11117570	3	3	42	1	0	0	0	0	1	0	0	0	4020	884	31	2	1448	2	CTNND2	5	11117570	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	5931387	11117570	169797690	94	16425										
TRIO	7204	broad.mit.edu	37	chr5	14389424	14389424	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ctgtgggaaatgaccagtggCgtggaagagattccacctgg	15	8	0	2	rs145624600		TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:14389424C>A	uc003jff.2	+	25	3981	c.3975C>A	c.(3973-3975)GGC>GGA	p.G1325G	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Silent_p.G1276G|TRIO_uc003jfh.1_Silent_p.G974G	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1325	DH 1.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					TGACCAGTGGCGTGGAAGAGA	0.403													4	18	---	---	---	---	PASS	A	14389424	A	A	14389424	2	1	42	1	0	0	0	0	0	0	0	1	16549	755	27	1		1	TRIO	5	14389424	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	3271854	14389424	166525836	95	16426										
PRDM9	56979	broad.mit.edu	37	chr5	23527031	23527031	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agaagccctatgtctgcaggGagtgtgggcggggctttagc	17	8	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:23527031G>A	uc003jgo.2	+	11	2016	c.1834G>A	c.(1834-1836)GAG>AAG	p.E612K		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	612	C2H2-type 5.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						TGTCTGCAGGGAGTGTGGGCG	0.622										HNSCC(3;0.000094)			15	48	---	---	---	---	PASS	A	23527031	A	A	23527031	3	1	42	1	0	0	0	0	1	0	0	0	12463	1175	41	2	1872	2	PRDM9	5	23527031	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	9137607	23527031	157388229	96	16427										
C7	730	broad.mit.edu	37	chr5	40937697	40937697	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ttaggaacagagtcatcaatAccaaaagttttggtggtcaa	9	6	3	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:40937697A>T	uc003jmh.2	+	6	586	c.472A>T	c.(472-474)ACC>TCC	p.T158S	C7_uc011cpn.1_Intron	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	158	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				AGTCATCAATACCAAAAGTTT	0.403													7	20	---	---	---	---	PASS	T	40937697	T	T	40937697	3	4	42	1	0	0	0	0	1	0	0	0	2375	391	14	5	494	5	C7	5	40937697	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	17410666	40937697	139977563	97	16428										
SERINC5	256987	broad.mit.edu	37	chr5	79442032	79442032	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	taaatgacccgtggtccctcCttccccggctgctgctcttc	8	17	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:79442032C>T	uc003kgj.2	-	11	1248	c.1119G>A	c.(1117-1119)AAG>AAA	p.K373K	SERINC5_uc003kgk.2_Silent_p.K371K|SERINC5_uc003kgl.2_RNA|SERINC5_uc003kgm.2_Silent_p.K373K|SERINC5_uc011ctj.1_Silent_p.K373K	NM_178276	NP_840060	Q86VE9	SERC5_HUMAN	developmentally regulated protein TPO1	373	Extracellular (Potential).				phosphatidylserine metabolic process|phospholipid biosynthetic process|positive regulation of transferase activity	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1		Lung NSC(167;0.00328)|all_lung(232;0.00356)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;2.93e-46)|Epithelial(54;5.59e-40)|all cancers(79;1.89e-34)		GTGGTCCCTCCTTCCCCGGCT	0.507													4	114	---	---	---	---	PASS	T	79442032	T	T	79442032	2	4	42	1	0	0	0	0	0	0	0	1	14083	680	24	3		3	SERINC5	5	79442032	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	38504335	79442032	101473228	98	16429										
VCAN	1462	broad.mit.edu	37	chr5	82816665	82816665	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	taaagacatcccaagtttcaCtgaagatggagcagatgaat	9	7	1	5			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:82816665C>A	uc003kii.3	+	7	2896	c.2540C>A	c.(2539-2541)ACT>AAT	p.T847N	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.T847N|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	847	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CCAAGTTTCACTGAAGATGGA	0.423													12	33	---	---	---	---	PASS	A	82816665	A	A	82816665	3	1	42	1	0	0	0	0	1	0	0	0	17135	565	20	3	2562	3	VCAN	5	82816665	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	3374633	82816665	98098595	99	16430										
CAST	831	broad.mit.edu	37	chr5	96075820	96075820	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	caaaatatagggaactattgGctgtaagttaaataatcatt	7	4	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:96075820G>T	uc003klz.1	+	10	790	c.628G>T	c.(628-630)GCT>TCT	p.A210S	CAST_uc003klt.2_Missense_Mutation_p.A210S|CAST_uc003klu.2_Missense_Mutation_p.A293S|CAST_uc003klv.2_Missense_Mutation_p.A271S|CAST_uc003klw.2_Missense_Mutation_p.A274S|CAST_uc003klx.2_Missense_Mutation_p.A252S|CAST_uc003kly.2_Missense_Mutation_p.A271S|CAST_uc011cuo.1_Missense_Mutation_p.A256S|CAST_uc011cup.1_Missense_Mutation_p.A161S|CAST_uc011cuq.1_Missense_Mutation_p.A58S|CAST_uc011cur.1_Missense_Mutation_p.A196S|CAST_uc011cus.1_Missense_Mutation_p.A210S|CAST_uc003kma.1_Missense_Mutation_p.A169S|CAST_uc011cut.1_Missense_Mutation_p.A138S|CAST_uc003kmb.2_Missense_Mutation_p.A169S|CAST_uc003kmc.2_Missense_Mutation_p.A210S|CAST_uc003kmd.2_Missense_Mutation_p.A188S|CAST_uc003kme.2_Missense_Mutation_p.A169S|CAST_uc003kmf.2_Missense_Mutation_p.A188S|CAST_uc003kmh.2_5'Flank|CAST_uc010jbj.2_5'Flank|CAST_uc010jbk.2_5'Flank	NM_001042443	NP_001035908	P20810	ICAL_HUMAN	calpastatin isoform i	210	Inhibitory domain 1.						calcium-dependent cysteine-type endopeptidase inhibitor activity|protein binding			central_nervous_system(3)|ovary(1)|kidney(1)	5		all_cancers(142;5.27e-07)|all_epithelial(76;8.21e-10)|all_lung(232;0.000396)|Lung NSC(167;0.000539)|Ovarian(225;0.024)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;6.85e-15)		GGAACTATTGGCTGTAAGTTA	0.294													3	9	---	---	---	---	PASS	T	96075820	T	T	96075820	3	4	42	1	0	0	0	0	1	0	0	0	2684	1203	42	3	923	3	CAST	5	96075820	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	13259155	96075820	84839440	100	16431										
KCNN2	3781	broad.mit.edu	37	chr5	113831627	113831627	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tatgatatgatttctgacttAaacgaaaggagtgaagactt	9	4	1	5			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:113831627A>G	uc003kqo.2	+	8	1945	c.1488A>G	c.(1486-1488)TTA>TTG	p.L496L	KCNN2_uc003kqp.2_Silent_p.L148L|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	496						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		TTTCTGACTTAAACGAAAGGA	0.428													18	77	---	---	---	---	PASS	G	113831627	G	G	113831627	2	3	42	1	0	0	0	0	0	0	0	1	8079	359	13	5		5	KCNN2	5	113831627	Silent	SNP	A	TCGA-22-5471-01A-01D-1632-08	17755807	113831627	67083633	101	16432										
PCDHB2	56133	broad.mit.edu	37	chr5	140475273	140475273	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtttcgattaagtgcaaaatCgggagaactgcttttaagac	10	6	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:140475273C>A	uc003lil.2	+	1	1037	c.899C>A	c.(898-900)TCG>TAG	p.S300*	PCDHB2_uc003lim.1_5'UTR	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	300	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGTGCAAAATCGGGAGAACTG	0.413													4	46	---	---	---	---	PASS	A	140475273	A	A	140475273	4	1	42	1	0	0	0	0	0	1	0	0	11542	893	31	2	901	2	PCDHB2	5	140475273	Nonsense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	26643646	140475273	40439987	102	16433										
PCDHB4	56131	broad.mit.edu	37	chr5	140502076	140502076	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tggatgtgggcagcaatggtCttcaaaaatacacaatcagc	10	8	3	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:140502076C>G	uc003lip.1	+	1	496	c.496C>G	c.(496-498)CTT>GTT	p.L166V		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	166	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGCAATGGTCTTCAAAAATA	0.433													8	24	---	---	---	---	PASS	G	140502076	G	G	140502076	3	3	42	1	0	0	0	0	1	0	0	0	11544	913	32	2	498	2	PCDHB4	5	140502076	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	26803	140502076	40413184	103	16434										
SH3RF2	153769	broad.mit.edu	37	chr5	145439472	145439472	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cagtccgggatccccactctCgtggtaggctccctcagacg	11	16	2	1	rs148067714	byFrequency	TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:145439472C>T	uc003lnt.2	+	9	1837	c.1599C>T	c.(1597-1599)CTC>CTT	p.L533L	SH3RF2_uc011dbl.1_Silent_p.L533L|SH3RF2_uc011dbm.1_Silent_p.L18L|SH3RF2_uc003lnu.2_Silent_p.L24L|SH3RF2_uc011dbn.1_Silent_p.L24L|SH3RF2_uc011dbo.1_5'UTR	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	533							ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCCCCACTCTCGTGGTAGGCT	0.627													3	36	---	---	---	---	PASS	T	145439472	T	T	145439472	2	4	42	1	0	0	0	0	0	0	0	1	14259	871	31	2		2	SH3RF2	5	145439472	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	4937396	145439472	35475788	104	16435										
SGCD	6444	broad.mit.edu	37	chr5	156021964	156021964	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccaaaagccgtagaagcttaTggtaaaaaatttgaggtaaa	9	5	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:156021964T>C	uc003lwd.3	+	5	878	c.402T>C	c.(400-402)TAT>TAC	p.Y134Y	SGCD_uc003lwa.1_Silent_p.Y135Y|SGCD_uc003lwb.2_Silent_p.Y135Y|SGCD_uc003lwc.3_Silent_p.Y135Y	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	134	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TAGAAGCTTATGGTAAAAAAT	0.274													4	17	---	---	---	---	PASS	C	156021964	C	C	156021964	2	2	42	1	0	0	0	0	0	0	0	1	14201	1471	51	5		5	SGCD	5	156021964	Silent	SNP	T	TCGA-22-5471-01A-01D-1632-08	10582492	156021964	24893296	105	16436										
GABRA1	2554	broad.mit.edu	37	chr5	161322698	161322698	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	caactgtgctcaccatgacaAcattgagcatcagtgccaga	8	12	2	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr5:161322698A>T	uc010jiw.2	+	10	1351	c.883A>T	c.(883-885)ACA>TCA	p.T295S	GABRA1_uc010jix.2_Missense_Mutation_p.T295S|GABRA1_uc010jiy.2_Missense_Mutation_p.T295S|GABRA1_uc003lyx.3_Missense_Mutation_p.T295S|GABRA1_uc010jiz.2_Missense_Mutation_p.T295S|GABRA1_uc010jja.2_Missense_Mutation_p.T295S|GABRA1_uc010jjb.2_Missense_Mutation_p.T295S	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	295	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|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			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	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;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	CACCATGACAACATTGAGCAT	0.423													6	28	---	---	---	---	PASS	T	161322698	T	T	161322698	3	4	42	1	0	0	0	0	1	0	0	0	6160	43	2	5	913	5	GABRA1	5	161322698	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	5300734	161322698	19592562	106	16437										
HIST1H2BI	8346	broad.mit.edu	37	chr6	26273498	26273498	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccagggagatccaaacggctGtgcgcctgctgctacccggg	14	14	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:26273498G>C	uc003nhk.2	+	1	295	c.295G>C	c.(295-297)GTG>CTG	p.V99L	HIST1H3G_uc003nhi.2_5'Flank	NM_003525	NP_003516	P62807	H2B1C_HUMAN	histone cluster 1, H2bi	99					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0						CCAAACGGCTGTGCGCCTGCT	0.592													15	62	---	---	---	---	PASS	C	26273498	C	C	26273498	3	2	42	1	0	0	0	0	1	0	0	0	7148	1377	48	4	297	4	HIST1H2BI	6	26273498	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08		26273498	144841569	107	16438										
HIST1H2BO	8348	broad.mit.edu	37	chr6	27861243	27861243	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ctttcactctcctccgccatGcccgacccggctaaatctgc	6	19	3	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:27861243G>T	uc003nkc.1	+	1	41	c.3G>T	c.(1-3)ATG>ATT	p.M1I	HIST1H3J_uc003nka.2_5'Flank|HIST1H2AM_uc003nkb.1_5'Flank	NM_003527	NP_003518	P23527	H2B1O_HUMAN	histone cluster 1, H2bo	1					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CCTCCGCCATGCCCGACCCGG	0.502													4	32	---	---	---	---	PASS	T	27861243	T	T	27861243	3	4	42	1	0	0	0	0	1	0	0	0	7154	1319	46	3	5	3	HIST1H2BO	6	27861243	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	1587745	27861243	143253824	108	16439										
HIST1H2BO	8348	broad.mit.edu	37	chr6	27861400	27861400	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agcaagtccaccccgacaccGgcatctcatcgaaggccatg	9	16	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:27861400G>T	uc003nkc.1	+	1	198	c.160G>T	c.(160-162)GGC>TGC	p.G54C	HIST1H3J_uc003nka.2_5'Flank|HIST1H2AM_uc003nkb.1_5'Flank	NM_003527	NP_003518	P23527	H2B1O_HUMAN	histone cluster 1, H2bo	54					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CCCCGACACCGGCATCTCATC	0.557													14	90	---	---	---	---	PASS	T	27861400	T	T	27861400	3	4	42	1	0	0	0	0	1	0	0	0	7154	1116	39	1	162	1	HIST1H2BO	6	27861400	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	157	27861400	143253667	109	16440										
ZKSCAN4	387032	broad.mit.edu	37	chr6	28214766	28214766	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccaagggagaccaggctgctAtggttctcctgcttttcatc	10	12	2	1	rs146547857		TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:28214766A>T	uc003nks.1	-	4	1003	c.759T>A	c.(757-759)CAT>CAA	p.H253Q	ZKSCAN4_uc011dlb.1_Missense_Mutation_p.H98Q	NM_019110	NP_061983	Q969J2	ZKSC4_HUMAN	zinc finger with KRAB and SCAN domains 4	253	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						CCAGGCTGCTATGGTTCTCCT	0.463													23	36	---	---	---	---	PASS	T	28214766	T	T	28214766	3	4	42	1	0	0	0	0	1	0	0	0	17686	446	16	5	886	5	ZKSCAN4	6	28214766	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	353366	28214766	142900301	110	16441										
OR2B3	442184	broad.mit.edu	37	chr6	29054686	29054686	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aaaggacataacagccagaaGgagacactctgtagcaccta	9	10	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:29054686G>A	uc003nlx.2	-	1	405	c.340C>T	c.(340-342)CTT>TTT	p.L114F		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						ACAGCCAGAAGGAGACACTCT	0.468													6	28	---	---	---	---	PASS	A	29054686	A	A	29054686	3	1	42	1	0	0	0	0	1	0	0	0	10990	1000	35	3	605	3	OR2B3	6	29054686	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	839920	29054686	142060381	111	16442										
OR12D2	26529	broad.mit.edu	37	chr6	29364805	29364805	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ctccctgggcagcacggagtCcatgttgttcgccgtgatgg	14	12	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:29364805C>G	uc003nmf.3	+	1	390	c.329C>G	c.(328-330)TCC>TGC	p.S110C		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AGCACGGAGTCCATGTTGTTC	0.498													22	33	---	---	---	---	PASS	G	29364805	G	G	29364805	3	3	42	1	0	0	0	0	1	0	0	0	10931	855	30	2	331	2	OR12D2	6	29364805	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	310119	29364805	141750262	112	16443										
ABCF1	23	broad.mit.edu	37	chr6	30553957	30553957	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tcggaagcagcagaaatgccGacggaaaaaccaagatgagg	13	8	0	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:30553957G>T	uc003nql.2	+	18	1855	c.1760G>T	c.(1759-1761)CGA>CTA	p.R587L	ABCF1_uc003nqm.2_Missense_Mutation_p.R549L|ABCF1_uc010jsb.2_Intron	NM_001025091	NP_001020262	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F, member 1	587					inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2						CAGAAATGCCGACGGAAAAAC	0.547													4	29	---	---	---	---	PASS	T	30553957	T	T	30553957	3	4	42	1	0	0	0	0	1	0	0	0	65	1058	37	2	1830	2	ABCF1	6	30553957	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	1189152	30553957	140561110	113	16444										
C6orf25	80739	broad.mit.edu	37	chr6	31691568	31691568	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gggcctcttcgagcgggaccCccaccgtgcctcccctccag	11	20	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:31691568C>T	uc011doc.1	+	2	214	c.214C>T	c.(214-216)CCC>TCC	p.P72S	LY6G6C_uc003nwh.2_5'Flank|LY6G6C_uc010jtd.2_5'Flank|C6orf25_uc003nwk.2_Missense_Mutation_p.P72S|C6orf25_uc011dod.1_Missense_Mutation_p.P72S|C6orf25_uc011doe.1_Missense_Mutation_p.P72S|C6orf25_uc003nwo.2_Missense_Mutation_p.P72S|C6orf25_uc003nwn.2_Missense_Mutation_p.P72S	NM_138272	NP_612116	O95866	G6B_HUMAN	G6B protein isoform G6b-B precursor	72	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	heparin binding|receptor activity				0						GAGCGGGACCCCCACCGTGCC	0.697													11	37	---	---	---	---	PASS	T	31691568	T	T	31691568	3	4	42	1	0	0	0	0	1	0	0	0	2360	623	22	3	220	3	C6orf25	6	31691568	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	1137611	31691568	139423499	114	16445										
KIFC1	3833	broad.mit.edu	37	chr6	33373395	33373395	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgctcgatatgtccctgtctCctgtgagaaagaagtgagga	12	8	1	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:33373395C>T	uc003oef.3	+	7	1973	c.1523C>T	c.(1522-1524)TCC>TTC	p.S508F	KIFC1_uc011drf.1_Missense_Mutation_p.S500F	NM_002263	NP_002254	Q9BW19	KIFC1_HUMAN	kinesin family member C1	508	Kinesin-motor.				blood coagulation|cell division|microtubule-based movement|mitotic sister chromatid segregation	early endosome|microtubule|microtubule associated complex|microtubule organizing center|nucleus|spindle	ATP binding|microtubule motor activity				0						GTCCCTGTCTCCTGTGAGAAA	0.587													5	10	---	---	---	---	PASS	T	33373395	T	T	33373395	3	4	42	1	0	0	0	0	1	0	0	0	8312	855	30	2	1549	2	KIFC1	6	33373395	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	1681827	33373395	137741672	115	16446										
GNMT	27232	broad.mit.edu	37	chr6	42930890	42930890	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gcctactggtcattgatcatCgcaactacgaccacatcctc	6	15	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:42930890C>T	uc003otd.2	+	4	538	c.532C>T	c.(532-534)CGC>TGC	p.R178C	uc003ote.1_5'Flank	NM_018960	NP_061833	Q14749	GNMT_HUMAN	glycine N-methyltransferase	178		Substrate (By similarity).			protein homotetramerization|protein modification process|S-adenosylmethionine metabolic process		folic acid binding|glycine binding|glycine N-methyltransferase activity				0	Colorectal(47;0.196)		all cancers(41;0.00196)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0461)		Glycine(DB00145)|S-Adenosylmethionine(DB00118)	CATTGATCATCGCAACTACGA	0.517													5	26	---	---	---	---	PASS	T	42930890	T	T	42930890	3	4	42	1	0	0	0	0	1	0	0	0	6540	884	31	2	546	2	GNMT	6	42930890	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	9557495	42930890	128184177	116	16447										
RHAG	6005	broad.mit.edu	37	chr6	49582417	49582417	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	taccatgttgagcttgcctcGgtgctccactaggctggaga	12	11	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:49582417G>A	uc003ozk.3	-	5	852	c.790C>T	c.(790-792)CGA>TGA	p.R264*	RHAG_uc010jzl.2_Nonsense_Mutation_p.R264*|RHAG_uc010jzm.2_Nonsense_Mutation_p.R264*	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein	264	Cytoplasmic (Potential).				carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					AGCTTGCCTCGGTGCTCCACT	0.498													3	67	---	---	---	---	PASS	A	49582417	A	A	49582417	4	1	42	1	0	0	0	0	0	1	0	0	13315	1124	39	1	463	1	RHAG	6	49582417	Nonsense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	6651527	49582417	121532650	117	16448										
KHDRBS2	202559	broad.mit.edu	37	chr6	62604627	62604627	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cgggctcgaggggtagggacAcctcttgctacaggtggcac	16	11	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:62604627A>G	uc003peg.2	-	6	970	c.723T>C	c.(721-723)GGT>GGC	p.G241G		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	241	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		GGGTAGGGACACCTCTTGCTA	0.592													9	44	---	---	---	---	PASS	G	62604627	G	G	62604627	2	3	42	1	0	0	0	0	0	0	0	1	8147	146	6	5		5	KHDRBS2	6	62604627	Silent	SNP	A	TCGA-22-5471-01A-01D-1632-08	13022210	62604627	108510440	118	16449										
COL12A1	1303	broad.mit.edu	37	chr6	75865550	75865550	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtcagatgttttgaggtttcTaggagacttaaaccgagaag	12	5	2	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:75865550T>C	uc003phs.2	-	16	3437	c.3271A>G	c.(3271-3273)AGA>GGA	p.R1091G	COL12A1_uc003pht.2_Intron	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1091	Fibronectin type-III 8.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTGAGGTTTCTAGGAGACTTA	0.413													37	51	---	---	---	---	PASS	C	75865550	C	C	75865550	3	2	42	1	0	0	0	0	1	0	0	0	3669	1530	53	5	6124	5	COL12A1	6	75865550	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	13260923	75865550	95249517	119	16450										
TBX18	9096	broad.mit.edu	37	chr6	85472425	85472425	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gggggagcctcccggtgacgCcagaggggaagctccctgct	17	13	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:85472425C>T	uc003pkl.1	-	2	334	c.334G>A	c.(334-336)GCG>ACG	p.A112T	TBX18_uc010kbq.1_5'UTR	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	112					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		CCCGGTGACGCCAGAGGGGAA	0.711													10	14	---	---	---	---	PASS	T	85472425	T	T	85472425	3	4	42	1	0	0	0	0	1	0	0	0	15650	739	26	3	1517	3	TBX18	6	85472425	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	9606875	85472425	85642642	120	16451										
C6orf167	253714	broad.mit.edu	37	chr6	97613216	97613216	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aacaggatgttgtccaagatCtgaaacatatggtgaagctg	11	6	1	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:97613216C>A	uc003ppb.2	-	21	3393	c.3127G>T	c.(3127-3129)GAT>TAT	p.D1043Y	C6orf167_uc011eaf.1_Missense_Mutation_p.D1003Y	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	1043					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		TGTCCAAGATCTGAAACATAT	0.383													11	50	---	---	---	---	PASS	A	97613216	A	A	97613216	3	1	42	1	0	0	0	0	1	0	0	0	2342	913	32	2	624	2	C6orf167	6	97613216	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	12140791	97613216	73501851	121	16452										
SIM1	6492	broad.mit.edu	37	chr6	100838775	100838775	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tggaagccagttggtctgagGgggctttccttagctgtaat	14	7	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:100838775G>A	uc003pqj.3	-	11	1970	c.1763C>T	c.(1762-1764)CCC>CTC	p.P588L	SIM1_uc010kcu.2_Missense_Mutation_p.P588L	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	588	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		TTGGTCTGAGGGGGCTTTCCT	0.463													9	43	---	---	---	---	PASS	A	100838775	A	A	100838775	3	1	42	1	0	0	0	0	1	0	0	0	14323	1232	43	3	541	3	SIM1	6	100838775	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	3225559	100838775	70276292	122	16453										
GRIK2	2898	broad.mit.edu	37	chr6	102124644	102124644	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agtttcatgtaatctttgatTgtagccatgaaatggcagca	9	6	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:102124644T>G	uc003pqp.3	+	4	937	c.688T>G	c.(688-690)TGT>GGT	p.C230G	GRIK2_uc003pqn.2_Missense_Mutation_p.C230G|GRIK2_uc003pqo.3_Missense_Mutation_p.C230G|GRIK2_uc010kcw.2_Missense_Mutation_p.C230G	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	230	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	AATCTTTGATTGTAGCCATGA	0.338													16	37	---	---	---	---	PASS	G	102124644	G	G	102124644	3	3	42	1	0	0	0	0	1	0	0	0	6774	1812	63	5	702	5	GRIK2	6	102124644	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	1285869	102124644	68990423	123	16454										
ROS1	6098	broad.mit.edu	37	chr6	117662333	117662333	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccaaaatctgatgaggttaaCattcaatggagccttccaat	7	9	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:117662333C>A	uc003pxp.1	-	30	5243	c.5044G>T	c.(5044-5046)GTT>TTT	p.V1682F	ROS1_uc011ebi.1_Intron|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1682	Fibronectin type-III 8.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		ATGAGGTTAACATTCAATGGA	0.358			T	GOPC|ROS1	glioblastoma|NSCLC								3	46	---	---	---	---	PASS	A	117662333	A	A	117662333	3	1	42	1	0	0	0	0	1	0	0	0	13531	478	17	3	2055	3	ROS1	6	117662333	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	15537689	117662333	53452734	124	16455										
TRDN	10345	broad.mit.edu	37	chr6	123545265	123545265	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tttctttgaagctggtacatCttcaacatcttctagagtac	6	9	5	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:123545265C>G	uc003pzj.1	-	39	2009	c.1987G>C	c.(1987-1989)GAT>CAT	p.D663H	TRDN_uc010kem.1_Missense_Mutation_p.D164H	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	663	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		GCTGGTACATCTTCAACATCT	0.328													7	19	---	---	---	---	PASS	G	123545265	G	G	123545265	3	3	42	1	0	0	0	0	1	0	0	0	16465	913	32	2	214	2	TRDN	6	123545265	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	5882932	123545265	47569802	125	16456										
ENPP3	5169	broad.mit.edu	37	chr6	132004193	132004193	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	taactccaaattatttttcaGgtaattaaagccttacaggt	5	7	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:132004193G>C	uc003qcu.3	+	13	1359	c.1012_splice	c.e13-1	p.V338_splice	ENPP3_uc010kfo.1_Splice_Site|ENPP3_uc010kfp.1_Splice_Site|ENPP3_uc010kfq.2_Splice_Site|ENPP3_uc003qcv.2_Splice_Site_p.V338_splice	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase						immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		TTATTTTTCAGGTAATTAAAG	0.363													12	36	---	---	---	---	PASS	C	132004193	C	C	132004193	5	2	42	1	0	0	0	0	0	0	1	0	5131	1014	35	4	1057	4	ENPP3	6	132004193	Splice_Site	SNP	G	TCGA-22-5471-01A-01D-1632-08	8458928	132004193	39110874	126	16457										
EYA4	2070	broad.mit.edu	37	chr6	133703559	133703559	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	acgtgcacagaatcagatgtTtcacaatctcagaattccag	7	10	3	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:133703559T>A	uc003qec.3	+	3	521	c.63T>A	c.(61-63)GTT>GTA	p.V21V	EYA4_uc011ecq.1_Silent_p.V21V|EYA4_uc011ecr.1_Silent_p.V21V|EYA4_uc003qed.3_Silent_p.V21V|EYA4_uc003qee.3_Silent_p.V21V|EYA4_uc011ecs.1_Silent_p.V21V	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	21					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		AATCAGATGTTTCACAATCTC	0.373													32	88	---	---	---	---	PASS	A	133703559	A	A	133703559	2	1	42	1	0	0	0	0	0	0	0	1	5331	1828	64	5		5	EYA4	6	133703559	Silent	SNP	T	TCGA-22-5471-01A-01D-1632-08	1699366	133703559	37411508	127	16458										
SGK1	6446	broad.mit.edu	37	chr6	134495154	134495154	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aaaacttactggaggagaagGgttggcattcataagctcag	12	6	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:134495154G>A	uc003qen.3	-	3	306	c.217C>T	c.(217-219)CCT>TCT	p.P73S	SGK1_uc003qeo.3_Missense_Mutation_p.P168S|SGK1_uc011ect.1_Missense_Mutation_p.P63S|SGK1_uc011ecu.1_Missense_Mutation_p.P73S|SGK1_uc011ecv.1_Missense_Mutation_p.P87S|SGK1_uc011ecw.1_Missense_Mutation_p.P101S	NM_005627	NP_005618	O00141	SGK1_HUMAN	serum/glucocorticoid regulated kinase 1 isoform	73					apoptosis|response to stress|sodium ion transport	endoplasmic reticulum|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(3)|stomach(1)|lung(1)|central_nervous_system(1)	6	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00317)|GBM - Glioblastoma multiforme(68;0.00847)		GGAGGAGAAGGGTTGGCATTC	0.438													16	48	---	---	---	---	PASS	A	134495154	A	A	134495154	3	1	42	1	0	0	0	0	1	0	0	0	14207	1232	43	3	1118	3	SGK1	6	134495154	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	791595	134495154	36619913	128	16459										
UTRN	7402	broad.mit.edu	37	chr6	144768371	144768371	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgttgaaagcttggttaaccGaaaaagaagaggctttaaat	10	4	0	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:144768371G>T	uc003qkt.2	+	14	1731	c.1639G>T	c.(1639-1641)GAA>TAA	p.E547*	UTRN_uc010khq.1_Nonsense_Mutation_p.E547*	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	547	Interaction with SYNM.|Spectrin 4.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TTGGTTAACCGAAAAAGAAGA	0.358													4	17	---	---	---	---	PASS	T	144768371	T	T	144768371	4	4	42	1	0	0	0	0	0	1	0	0	17100	1059	37	2	1693	2	UTRN	6	144768371	Nonsense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	10273217	144768371	26346696	129	16460										
SYNE1	23345	broad.mit.edu	37	chr6	152673328	152673328	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccagcgtcatgtgttctttcCggacagtgctggtcagttcc	11	12	3	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:152673328C>A	uc010kiw.2	-	70	12016	c.11414G>T	c.(11413-11415)CGG>CTG	p.R3805L	SYNE1_uc003qot.3_Missense_Mutation_p.R3790L|SYNE1_uc003qou.3_Missense_Mutation_p.R3805L|SYNE1_uc010kja.1_Missense_Mutation_p.R510L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3805	Cytoplasmic (Potential).|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)		GTGTTCTTTCCGGACAGTGCT	0.443										HNSCC(10;0.0054)			30	107	---	---	---	---	PASS	A	152673328	A	A	152673328	3	1	42	1	0	0	0	0	1	0	0	0	15442	652	23	1	15360	1	SYNE1	6	152673328	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	7904957	152673328	18441739	130	16461										
TIAM2	26230	broad.mit.edu	37	chr6	155485735	155485735	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tttcctctttccatgctctgGtaagttcctgaggaaggctg	10	10	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr6:155485735G>T	uc003qqb.2	+	10	3487	c.2214_splice	c.e10+1	p.L738_splice	TIAM2_uc003qqe.2_Splice_Site_p.L738_splice|TIAM2_uc010kjj.2_Splice_Site_p.L271_splice|TIAM2_uc003qqf.2_Splice_Site_p.L90_splice|TIAM2_uc011efl.1_Splice_Site_p.L50_splice|TIAM2_uc003qqg.2_Splice_Site_p.L50_splice	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2						apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CCATGCTCTGGTAAGTTCCTG	0.597													25	85	---	---	---	---	PASS	T	155485735	T	T	155485735	5	4	42	1	0	0	0	0	0	0	1	0	15888	1275	44	3	2233	3	TIAM2	6	155485735	Splice_Site	SNP	G	TCGA-22-5471-01A-01D-1632-08	2812407	155485735	15629332	131	16462										
RADIL	55698	broad.mit.edu	37	chr7	4917519	4917519	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tcacgggcgctggaggtgccGgtggccaggacgctcttgta	17	11	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:4917519G>A	uc003snj.1	-	2	425	c.252C>T	c.(250-252)ACC>ACT	p.T84T	RADIL_uc003sng.1_RNA|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	84	Ras-associating.				cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		TGGAGGTGCCGGTGGCCAGGA	0.682													3	45	---	---	---	---	PASS	A	4917519	A	A	4917519	2	1	42	1	0	0	0	0	0	0	0	1	12997	1103	39	1		1	RADIL	7	4917519	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08		4917519	154221144	132	16463										
NEUROD6	63974	broad.mit.edu	37	chr7	31378224	31378224	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tatcaagagtcccatgccctGggggagtggtgagctcaggg	16	9	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:31378224G>A	uc003tch.2	-	2	1012	c.659C>T	c.(658-660)CCA>CTA	p.P220L		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	220					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						CCCATGCCCTGGGGGAGTGGT	0.527													18	53	---	---	---	---	PASS	A	31378224	A	A	31378224	3	1	42	1	0	0	0	0	1	0	0	0	10351	1348	47	3	358	3	NEUROD6	7	31378224	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	26460705	31378224	127760439	133	16464										
GLI3	2737	broad.mit.edu	37	chr7	42007296	42007296	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tagcctttctagttttacgtGctccatccatttggtccctg	7	12	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:42007296G>C	uc011kbh.1	-	14	2420	c.2329C>G	c.(2329-2331)CAC>GAC	p.H777D	GLI3_uc011kbg.1_Missense_Mutation_p.H718D	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	777					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						AGTTTTACGTGCTCCATCCAT	0.502									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				27	75	---	---	---	---	PASS	C	42007296	C	C	42007296	3	2	42	1	0	0	0	0	1	0	0	0	6439	1319	46	4	2421	4	GLI3	7	42007296	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	10629072	42007296	117131367	134	16465										
GLI3	2737	broad.mit.edu	37	chr7	42018290	42018290	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tttctgctctcttgagcagtCcagccacctgcacacgaact	7	15	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:42018290C>A	uc011kbh.1	-	11	1646	c.1555G>T	c.(1555-1557)GAC>TAC	p.D519Y	GLI3_uc011kbg.1_Missense_Mutation_p.D460Y	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	519	C2H2-type 2.				negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CTTGAGCAGTCCAGCCACCTG	0.448									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				12	40	---	---	---	---	PASS	A	42018290	A	A	42018290	3	1	42	1	0	0	0	0	1	0	0	0	6439	855	30	2	3207	2	GLI3	7	42018290	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	10994	42018290	117120373	135	16466										
MDH2	4191	broad.mit.edu	37	chr7	75692906	75692906	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gaccatcatccccctgatctCtcaggtacacgcatatgacc	6	16	3	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:75692906C>G	uc003ueo.2	+	6	715	c.629C>G	c.(628-630)TCT>TGT	p.S210C	MDH2_uc003uep.2_Missense_Mutation_p.S103C|MDH2_uc011kgh.1_Missense_Mutation_p.S168C	NM_005918	NP_005909	P40926	MDHM_HUMAN	mitochondrial malate dehydrogenase precursor	210					gluconeogenesis|malate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus|plasma membrane	binding|L-malate dehydrogenase activity			ovary(1)|central_nervous_system(1)|skin(1)	3					NADH(DB00157)	CCCCTGATCTCTCAGGTACAC	0.562													3	62	---	---	---	---	PASS	G	75692906	G	G	75692906	3	3	42	1	0	0	0	0	1	0	0	0	9410	913	32	2	651	2	MDH2	7	75692906	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	33674616	75692906	83445757	136	16467										
PCLO	27445	broad.mit.edu	37	chr7	82538240	82538240	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agagtggaccaatctttccgGcagttttcggtccagaccat	10	11	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:82538240G>A	uc003uhx.2	-	8	13679	c.13390C>T	c.(13390-13392)CCG>TCG	p.P4464S	PCLO_uc003uhv.2_Missense_Mutation_p.P4464S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4395					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AATCTTTCCGGCAGTTTTCGG	0.423													27	37	---	---	---	---	PASS	A	82538240	A	A	82538240	3	1	42	1	0	0	0	0	1	0	0	0	11583	1203	42	3	2127	3	PCLO	7	82538240	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	6845334	82538240	76600423	137	16468										
CCDC132	55610	broad.mit.edu	37	chr7	92983068	92983068	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ttggctaatcgaactattgtAgaagggtaagtttttcatga	10	4	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:92983068A>G	uc003umo.2	+	26	2708	c.2580A>G	c.(2578-2580)GTA>GTG	p.V860V	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Silent_p.V830V|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Silent_p.V580V	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	860											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			GAACTATTGTAGAAGGGTAAG	0.328													17	101	---	---	---	---	PASS	G	92983068	G	G	92983068	2	3	42	1	0	0	0	0	0	0	0	1	2767	407	15	5		5	CCDC132	7	92983068	Silent	SNP	A	TCGA-22-5471-01A-01D-1632-08	10444828	92983068	66155595	138	16469										
COL1A2	1278	broad.mit.edu	37	chr7	94047860	94047860	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	taaccctggcagagatggtgCtcgtgtgagtagaattttgt	13	6	0	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:94047860C>A	uc003ung.1	+	33	2492	c.2021C>A	c.(2020-2022)GCT>GAT	p.A674D	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_RNA	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	674					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	AGAGATGGTGCTCGTGTGAGT	0.348										HNSCC(75;0.22)			13	49	---	---	---	---	PASS	A	94047860	A	A	94047860	3	1	42	1	0	0	0	0	1	0	0	0	3678	797	28	3	2151	3	COL1A2	7	94047860	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	1064792	94047860	65090803	139	16470										
ZNF3	7551	broad.mit.edu	37	chr7	99669489	99669489	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gaagttcgattaaagctcttGctacattcatcacacttatg	6	9	3	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:99669489G>C	uc003usq.2	-	6	925	c.618C>G	c.(616-618)AGC>AGG	p.S206R	ZNF3_uc003usp.2_Intron|ZNF3_uc003usr.2_Missense_Mutation_p.S206R|ZNF3_uc010lgj.2_Missense_Mutation_p.S170R|ZNF3_uc003uss.2_Missense_Mutation_p.S213R|ZNF3_uc003ust.3_Missense_Mutation_p.S206R	NM_032924	NP_116313	P17036	ZNF3_HUMAN	zinc finger protein 3 isoform 2	206	C2H2-type 1.				cell differentiation|leukocyte activation|multicellular organismal development	nucleus	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)	Ovarian(593;2.06e-05)|Myeloproliferative disorder(862;0.0122)|Breast(660;0.029)	STAD - Stomach adenocarcinoma(171;0.129)			TAAAGCTCTTGCTACATTCAT	0.438													10	152	---	---	---	---	PASS	C	99669489	C	C	99669489	3	2	42	1	0	0	0	0	1	0	0	0	17826	1310	46	4	855	4	ZNF3	7	99669489	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	5621629	99669489	59469174	140	16471										
ZNF3	7551	broad.mit.edu	37	chr7	99669784	99669784	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ttcccagtaggaccccatgtGatcttgtgtcttcagaaatt	8	10	3	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:99669784G>T	uc003usq.2	-	6	630	c.323C>A	c.(322-324)TCA>TAA	p.S108*	ZNF3_uc003usp.2_Intron|ZNF3_uc003usr.2_Nonsense_Mutation_p.S108*|ZNF3_uc010lgj.2_Nonsense_Mutation_p.S72*|ZNF3_uc003uss.2_Nonsense_Mutation_p.S115*|ZNF3_uc003ust.3_Nonsense_Mutation_p.S108*	NM_032924	NP_116313	P17036	ZNF3_HUMAN	zinc finger protein 3 isoform 2	108	KRAB.				cell differentiation|leukocyte activation|multicellular organismal development	nucleus	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)	Ovarian(593;2.06e-05)|Myeloproliferative disorder(862;0.0122)|Breast(660;0.029)	STAD - Stomach adenocarcinoma(171;0.129)			GACCCCATGTGATCTTGTGTC	0.413													10	192	---	---	---	---	PASS	T	99669784	T	T	99669784	4	4	42	1	0	0	0	0	0	1	0	0	17826	1294	45	2	1150	2	ZNF3	7	99669784	Nonsense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	295	99669784	59468879	141	16472										
PUS7	54517	broad.mit.edu	37	chr7	105098242	105098242	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tggacaaggtactgctcagcGaagccaggttgtattcagct	12	9	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:105098242G>A	uc003vcx.2	-	16	2200	c.1981C>T	c.(1981-1983)CGC>TGC	p.R661C	PUS7_uc010lji.2_Missense_Mutation_p.R667C|PUS7_uc003vcy.2_Missense_Mutation_p.R661C|PUS7_uc003vcz.1_Missense_Mutation_p.R661C	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog	661					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						ACTGCTCAGCGAAGCCAGGTT	0.448													9	149	---	---	---	---	PASS	A	105098242	A	A	105098242	3	1	42	1	0	0	0	0	1	0	0	0	12833	1058	37	2	8	2	PUS7	7	105098242	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	5428458	105098242	54040421	142	16473										
C7orf58	79974	broad.mit.edu	37	chr7	120737851	120737851	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	taaaaacagtgaagccacgtGtgtggaaaccaggggactgg	14	7	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:120737851G>A	uc003vjq.3	+	6	1162	c.715G>A	c.(715-717)GTG>ATG	p.V239M	C7orf58_uc003vjr.1_Missense_Mutation_p.V239M|C7orf58_uc003vjs.3_Missense_Mutation_p.V239M|C7orf58_uc003vjt.3_Missense_Mutation_p.V19M|C7orf58_uc010lkk.1_Missense_Mutation_p.V19M	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	239						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					GAAGCCACGTGTGTGGAAACC	0.443													12	93	---	---	---	---	PASS	A	120737851	A	A	120737851	3	1	42	1	0	0	0	0	1	0	0	0	2405	1377	48	3	733	3	C7orf58	7	120737851	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	15639609	120737851	38400812	143	16474										
SLC13A1	6561	broad.mit.edu	37	chr7	122769455	122769455	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	accttattggcccaagctttTggtattcttgcttaatcacc	6	11	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:122769455T>C	uc003vkm.2	-	9	1038	c.1013A>G	c.(1012-1014)CAA>CGA	p.Q338R	SLC13A1_uc010lks.2_Missense_Mutation_p.Q214R	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	338						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	CCCAAGCTTTTGGTATTCTTG	0.279													15	46	---	---	---	---	PASS	C	122769455	C	C	122769455	3	2	42	1	0	0	0	0	1	0	0	0	14391	1812	63	5	802	5	SLC13A1	7	122769455	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	2031604	122769455	36369208	144	16475										
SPAM1	6677	broad.mit.edu	37	chr7	123594320	123594320	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aaccatcactataagaaaccCggttacaatggaagttgctt	7	9	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:123594320C>G	uc003vld.2	+	4	1098	c.696C>G	c.(694-696)CCC>CCG	p.P232P	SPAM1_uc003vle.2_Silent_p.P232P|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Silent_p.P232P|SPAM1_uc010lku.2_Silent_p.P232P	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	232					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	ATAAGAAACCCGGTTACAATG	0.368													4	109	---	---	---	---	PASS	G	123594320	G	G	123594320	2	3	42	1	0	0	0	0	0	0	0	1	14986	639	23	4		4	SPAM1	7	123594320	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	824865	123594320	35544343	145	16476										
ZNF800	168850	broad.mit.edu	37	chr7	127014786	127014786	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atcagatgtaggtgcaacttCatctgtaacaatctcaacag	7	9	4	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:127014786C>A	uc003vlx.1	-	5	867	c.604G>T	c.(604-606)GAA>TAA	p.E202*	ZNF800_uc003vlw.1_Nonsense_Mutation_p.E105*|ZNF800_uc003vly.1_Nonsense_Mutation_p.E202*|ZNF800_uc010lla.2_Nonsense_Mutation_p.E202*	NM_176814	NP_789784	Q2TB10	ZN800_HUMAN	zinc finger protein 800	202					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGTGCAACTTCATCTGTAACA	0.438													17	120	---	---	---	---	PASS	A	127014786	A	A	127014786	4	1	42	1	0	0	0	0	0	1	0	0	18166	835	29	2	1398	2	ZNF800	7	127014786	Nonsense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	3420466	127014786	32123877	146	16477										
OR9A2	135924	broad.mit.edu	37	chr7	142723348	142723348	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ggagggcctctttgactttgTcattccgaagagtaaagatg	12	7	2	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr7:142723348T>A	uc003wcc.1	-	1	872	c.872A>T	c.(871-873)GAC>GTC	p.D291V		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	291	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					TTTGACTTTGTCATTCCGAAG	0.458													21	55	---	---	---	---	PASS	A	142723348	A	A	142723348	3	1	42	1	0	0	0	0	1	0	0	0	11248	1667	58	5	64	5	OR9A2	7	142723348	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	15708562	142723348	16415315	147	16478										
SGCZ	137868	broad.mit.edu	37	chr8	14095170	14095170	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgtgacattcctgtcagactGtaagaccagcggactatcct	9	11	1	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:14095170G>T	uc003wwq.2	-	4	1015	c.355C>A	c.(355-357)CAG>AAG	p.Q119K	SGCZ_uc010lss.2_Missense_Mutation_p.Q72K	NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta	106	Extracellular (Potential).				cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		CTGTCAGACTGTAAGACCAGC	0.373													42	118	---	---	---	---	PASS	T	14095170	T	T	14095170	3	4	42	1	0	0	0	0	1	0	0	0	14204	1386	48	3	603	3	SGCZ	8	14095170	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08		14095170	132268852	148	16479										
KIAA0146	23514	broad.mit.edu	37	chr8	48309125	48309125	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agaccattttgcatacacctCagaaacccacagctaagttt	5	12	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:48309125C>G	uc003xqd.2	+	6	724	c.715C>G	c.(715-717)CAG>GAG	p.Q239E	KIAA0146_uc011lcz.1_Intron|KIAA0146_uc011lda.1_Intron|KIAA0146_uc011ldb.1_Missense_Mutation_p.Q239E|KIAA0146_uc010lxs.2_5'UTR|KIAA0146_uc011ldc.1_Missense_Mutation_p.Q169E|KIAA0146_uc011ldd.1_Missense_Mutation_p.Q179E|KIAA0146_uc003xqe.2_Intron|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc011lde.1_Intron	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	239											0		Lung NSC(58;0.175)				GCATACACCTCAGAAACCCAC	0.368													5	115	---	---	---	---	PASS	G	48309125	G	G	48309125	3	3	42	1	0	0	0	0	1	0	0	0	8157	827	29	2	737	2	KIAA0146	8	48309125	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	34213955	48309125	98054897	149	16480										
PXDNL	137902	broad.mit.edu	37	chr8	52258417	52258417	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ttcttagatgacttaactccAtatccttatcaacaggatag	5	9	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:52258417A>G	uc003xqu.3	-	20	4093	c.3992T>C	c.(3991-3993)ATG>ACG	p.M1331T	PXDNL_uc003xqt.3_Intron	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1331					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				ACTTAACTCCATATCCTTATC	0.373													7	13	---	---	---	---	PASS	G	52258417	G	G	52258417	3	3	42	1	0	0	0	0	1	0	0	0	12848	217	8	5	415	5	PXDNL	8	52258417	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	3949292	52258417	94105605	150	16481										
OPRK1	4986	broad.mit.edu	37	chr8	54142277	54142277	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agggtgtagcagacgatgatGatgaggacagggatcacgaa	16	5	1	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:54142277G>A	uc003xrh.1	-	3	1098	c.723C>T	c.(721-723)ATC>ATT	p.I241I	OPRK1_uc003xri.1_Silent_p.I241I|OPRK1_uc010lyc.1_Silent_p.I152I	NM_000912	NP_000903	P41145	OPRK_HUMAN	opioid receptor, kappa 1	241	Helical; Name=5; (Potential).				behavior|immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception|synaptic transmission|viral genome replication	integral to plasma membrane	kappa-opioid receptor activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Buprenorphine(DB00921)|Butorphanol(DB00611)|Cocaine(DB00907)|Codeine(DB00318)|Dezocine(DB01209)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Meperidine(DB00454)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Tramadol(DB00193)	AGACGATGATGATGAGGACAG	0.532													8	35	---	---	---	---	PASS	A	54142277	A	A	54142277	2	1	42	1	0	0	0	0	0	0	0	1	10885	1280	45	2		2	OPRK1	8	54142277	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	1883860	54142277	92221745	151	16482										
TRPA1	8989	broad.mit.edu	37	chr8	72958748	72958748	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aatgaaaacattgaacttacGttgagggctgtaagcggttc	11	6	0	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:72958748G>A	uc003xza.2	-	17	2236	c.2061C>T	c.(2059-2061)AAC>AAT	p.N687N	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	687	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	TTGAACTTACGTTGAGGGCTG	0.219													13	56	---	---	---	---	PASS	A	72958748	A	A	72958748	2	1	42	1	0	0	0	0	0	0	0	1	16574	1159	40	1		1	TRPA1	8	72958748	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	18816471	72958748	73405274	152	16483										
TRPA1	8989	broad.mit.edu	37	chr8	72977745	72977745	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aatgatcacagctgtgtttcCattttctccttccaaattaa	4	10	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:72977745C>G	uc003xza.2	-	4	668	c.493G>C	c.(493-495)GGA>CGA	p.G165R		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	165	Cytoplasmic (Potential).|ANK 4.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GCTGTGTTTCCATTTTCTCCT	0.338													6	23	---	---	---	---	PASS	G	72977745	G	G	72977745	3	3	42	1	0	0	0	0	1	0	0	0	16574	603	21	4	2962	4	TRPA1	8	72977745	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	18997	72977745	73386277	153	16484										
MMP16	4325	broad.mit.edu	37	chr8	89053787	89053787	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtaaaccaatacaaggaggcAtaaggccaagatgcagggaa	12	7	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:89053787A>G	uc003yeb.3	-	10	2008	c.1726T>C	c.(1726-1728)TGC>CGC	p.C576R		NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	576	Helical; (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						ACAAGGAGGCATAAGGCCAAG	0.473													16	70	---	---	---	---	PASS	G	89053787	G	G	89053787	3	3	42	1	0	0	0	0	1	0	0	0	9655	217	8	5	101	5	MMP16	8	89053787	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	16076042	89053787	57310235	154	16485										
RIMS2	9699	broad.mit.edu	37	chr8	105263969	105263969	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	accttcctccctagtagatcCaaccttggcccctctgacaa	5	17	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:105263969C>T	uc003yls.2	+	28	4266	c.4025C>T	c.(4024-4026)CCA>CTA	p.P1342L	RIMS2_uc003ylp.2_Missense_Mutation_p.P1324L|RIMS2_uc003ylq.2_Missense_Mutation_p.P1138L|RIMS2_uc003ylr.2_Missense_Mutation_p.P1163L	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1386					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CTAGTAGATCCAACCTTGGCC	0.433										HNSCC(12;0.0054)			28	102	---	---	---	---	PASS	T	105263969	T	T	105263969	3	4	42	1	0	0	0	0	1	0	0	0	13368	594	21	3	4261	3	RIMS2	8	105263969	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	16210182	105263969	41100053	155	16486										
TRHR	7201	broad.mit.edu	37	chr8	110100167	110100167	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ctctgcacattttccagagcCaaaaagattatcatctttgt	5	10	3	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:110100167C>A	uc003ymz.3	+	1	442	c.426C>A	c.(424-426)GCC>GCA	p.A142A		NM_003301	NP_003292	P34981	TRFR_HUMAN	thyrotropin-releasing hormone receptor	142	Cytoplasmic (Potential).					integral to plasma membrane	thyrotropin-releasing hormone receptor activity			skin(2)|lung(1)	3			OV - Ovarian serous cystadenocarcinoma(57;2.3e-11)			TTTCCAGAGCCAAAAAGATTA	0.403													12	40	---	---	---	---	PASS	A	110100167	A	A	110100167	2	1	42	1	0	0	0	0	0	0	0	1	16477	581	21	3		3	TRHR	8	110100167	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	4836198	110100167	36263855	156	16487										
CSMD3	114788	broad.mit.edu	37	chr8	113418827	113418827	+	Missense_Mutation	SNP	C	A	A													0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cacacctaattgctatggatCcatggagaatatatcctgga							TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:113418827C>A	uc003ynu.2	-	35	5894	c.5735G>T	c.(5734-5736)GGA>GTA	p.G1912V	CSMD3_uc003yns.2_Missense_Mutation_p.G1114V|CSMD3_uc003ynt.2_Missense_Mutation_p.G1872V|CSMD3_uc011lhx.1_Missense_Mutation_p.G1808V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1912	Sushi 10.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TGCTATGGATCCATGGAGAAT	0.393										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			25	32	---	---	---	---	PASS	A	113418827	A	A	113418827	3	1	42	1	0	0	0	0	1	0	0	0	3946	855	30	2	5536	2	CSMD3	8	113418827	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	3318660	113418827	32945195	157	16488	395	2								
CSMD3	114788	broad.mit.edu	37	chr8	113418828	113418828	+	Nonsense_Mutation	SNP	C	A	A													0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	acacctaattgctatggatcCatggagaatatatcctggat							TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:113418828C>A	uc003ynu.2	-	35	5893	c.5734G>T	c.(5734-5736)GGA>TGA	p.G1912*	CSMD3_uc003yns.2_Nonsense_Mutation_p.G1114*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.G1872*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.G1808*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1912	Sushi 10.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GCTATGGATCCATGGAGAATA	0.393										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			26	34	---	---	---	---	PASS	A	113418828	A	A	113418828	4	1	42	1	0	0	0	0	0	1	0	0	3946	603	21	3	5537	3	CSMD3	8	113418828	Nonsense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	1	113418828	32945194	158	16489	395	2								
SLC30A8	169026	broad.mit.edu	37	chr8	118170057	118170057	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	actgtgatgatcatcgtttcCagctgcgcagtggcggccaa	12	11	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:118170057C>A	uc003yoh.2	+	4	776	c.546C>A	c.(544-546)TCC>TCA	p.S182S	SLC30A8_uc010mcz.2_Silent_p.S133S|SLC30A8_uc011lia.1_Silent_p.S133S|SLC30A8_uc003yog.2_Silent_p.S133S	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	182	Helical; (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			TCATCGTTTCCAGCTGCGCAG	0.537													13	52	---	---	---	---	PASS	A	118170057	A	A	118170057	2	1	42	1	0	0	0	0	0	0	0	1	14561	581	21	3		3	SLC30A8	8	118170057	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	4751229	118170057	28193965	159	16490										
EXT1	2131	broad.mit.edu	37	chr8	119122430	119122430	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aacgtcctccccgttatggaCgtgatataaggcattcctgg	10	11	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:119122430C>G	uc003yok.1	-	1	1629	c.856G>C	c.(856-858)GTC>CTC	p.V286L		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	286	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			CCGTTATGGACGTGATATAAG	0.512			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				13	56	---	---	---	---	PASS	G	119122430	G	G	119122430	3	3	42	1	0	0	0	0	1	0	0	0	5323	536	19	4	1428	4	EXT1	8	119122430	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	952373	119122430	27241592	160	16491										
COLEC10	10584	broad.mit.edu	37	chr8	120116039	120116039	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cagtttttgtcatttaaaagGtactgtctgtgattgtggaa	10	4	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:120116039G>A	uc003yoo.2	+	5	444	c.347G>A	c.(346-348)GGT>GAT	p.G116D		NM_006438	NP_006429	Q9Y6Z7	COL10_HUMAN	collectin sub-family member 10 precursor	116						collagen|cytoplasm	mannose binding			ovary(2)|skin(1)	3	all_cancers(13;4.13e-26)|Lung NSC(37;1.36e-07)|Ovarian(258;0.018)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00113)			CATTTAAAAGGTACTGTCTGT	0.378													4	74	---	---	---	---	PASS	A	120116039	A	A	120116039	3	1	42	1	0	0	0	0	1	0	0	0	3710	1275	44	3	365	3	COLEC10	8	120116039	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	993609	120116039	26247983	161	16492										
ADCY8	114	broad.mit.edu	37	chr8	131797705	131797705	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tcttttcaatgtcttgaaatCggtcttcaccaagcaactga	6	10	5	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr8:131797705C>A	uc003ytd.3	-	16	3333	c.3077G>T	c.(3076-3078)CGA>CTA	p.R1026L	ADCY8_uc010mds.2_Missense_Mutation_p.R895L	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1026	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GTCTTGAAATCGGTCTTCACC	0.507										HNSCC(32;0.087)			5	40	---	---	---	---	PASS	A	131797705	A	A	131797705	3	1	42	1	0	0	0	0	1	0	0	0	300	884	31	2	690	2	ADCY8	8	131797705	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	11681666	131797705	14566317	162	16493										
CLTA	1211	broad.mit.edu	37	chr9	36211679	36211679	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aacgggtggcccggctgtgtGactttaaccccaagtctagc	12	12	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr9:36211679G>A	uc003zzc.2	+	7	817	c.655G>A	c.(655-657)GAC>AAC	p.D219N	CLTA_uc003zzd.2_Missense_Mutation_p.D207N|CLTA_uc003zze.2_Missense_Mutation_p.D189N|CLTA_uc011lpk.1_Missense_Mutation_p.D201N|CLTA_uc003zzf.1_Intron	NM_007096	NP_009027	P09496	CLCA_HUMAN	clathrin, light polypeptide A isoform b	219					axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol	structural molecule activity			central_nervous_system(1)	1			STAD - Stomach adenocarcinoma(86;0.228)			CCGGCTGTGTGACTTTAACCC	0.557													4	49	---	---	---	---	PASS	A	36211679	A	A	36211679	3	1	42	1	0	0	0	0	1	0	0	0	3564	1290	45	2	681	2	CLTA	9	36211679	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08		36211679	105001752	163	16494										
VPS13A	23230	broad.mit.edu	37	chr9	79996916	79996916	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	acagagacttctgaagtggaGagtctgcgacctcctcggtt	12	10	2	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr9:79996916G>A	uc004akr.2	+	68	9362	c.9102G>A	c.(9100-9102)GAG>GAA	p.E3034E	VPS13A_uc004akp.3_Silent_p.E3034E|VPS13A_uc004akq.3_Silent_p.E3034E|VPS13A_uc004aks.2_Silent_p.E2995E	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	3034					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						CTGAAGTGGAGAGTCTGCGAC	0.338													7	34	---	---	---	---	PASS	A	79996916	A	A	79996916	2	1	42	1	0	0	0	0	0	0	0	1	17186	933	33	2		2	VPS13A	9	79996916	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	43785237	79996916	61216515	164	16495										
SLC46A2	57864	broad.mit.edu	37	chr9	115652604	115652604	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cttgagcagcagcccgaggcGggagagcaggaagcccagca	16	12	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr9:115652604G>T	uc004bgk.2	-	1	590	c.358C>A	c.(358-360)CGC>AGC	p.R120S		NM_033051	NP_149040	Q9BY10	TSCOT_HUMAN	solute carrier family 46, member 2	120	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	symporter activity			central_nervous_system(1)	1						AGCCCGAGGCGGGAGAGCAGG	0.672													10	34	---	---	---	---	PASS	T	115652604	T	T	115652604	3	4	42	1	0	0	0	0	1	0	0	0	14645	1116	39	1	1085	1	SLC46A2	9	115652604	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	35655688	115652604	25560827	165	16496										
LAMC3	10319	broad.mit.edu	37	chr9	133942459	133942459	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gggaacgtggaccccaatgcCgtgggcaactgtgaccccct	13	14	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr9:133942459C>T	uc004caa.1	+	14	2558	c.2460C>T	c.(2458-2460)GCC>GCT	p.A820A		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	820	Laminin EGF-like 8.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		ACCCCAATGCCGTGGGCAACT	0.637													3	35	---	---	---	---	PASS	T	133942459	T	T	133942459	2	4	42	1	0	0	0	0	0	0	0	1	8616	639	23	1		1	LAMC3	9	133942459	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	18289855	133942459	7270972	166	16497										
NUP214	8021	broad.mit.edu	37	chr9	134074366	134074366	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cctcagctgccaccacaacaGcagcaacctctgggttcagc	8	17	3	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr9:134074366G>A	uc004cag.2	+	29	5596	c.5485G>A	c.(5485-5487)GCA>ACA	p.A1829T	NUP214_uc004cah.2_Missense_Mutation_p.A1819T|NUP214_uc004cai.2_Missense_Mutation_p.A1259T|NUP214_uc010mzg.2_RNA|NUP214_uc011mcg.1_Missense_Mutation_p.A655T|NUP214_uc011mcf.1_Missense_Mutation_p.A606T|NUP214_uc010mzh.1_Missense_Mutation_p.A343T|NUP214_uc010mzi.1_Missense_Mutation_p.A343T	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	1829	Pro/Ser/Thr-rich.|11 X 3 AA approximate repeats.|11 X 5 AA approximate repeats.|18 X 4 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		CACCACAACAGCAGCAACCTC	0.502			T	DEK|SET|ABL1	AML|T-ALL								10	46	---	---	---	---	PASS	A	134074366	A	A	134074366	3	1	42	1	0	0	0	0	1	0	0	0	10762	971	34	3	5599	3	NUP214	9	134074366	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	131907	134074366	7139065	167	16498										
GATA3	2625	broad.mit.edu	37	chr10	8115917	8115917	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atgctgaccacgcccacgccGatgcacccgccatccagcct	8	20	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:8115917G>T	uc001ika.2	+	6	1820	c.1263G>T	c.(1261-1263)CCG>CCT	p.P421P	GATA3_uc001ijz.2_Silent_p.P422P	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	421					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						CGCCCACGCCGATGCACCCGC	0.647			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						11	21	---	---	---	---	PASS	T	8115917	T	T	8115917	2	4	42	1	0	0	0	0	0	0	0	1	6255	1045	37	2		2	GATA3	10	8115917	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08		8115917	127418830	168	16499										
ARMC4	55130	broad.mit.edu	37	chr10	28229604	28229604	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cagctttgcggatggcttctTtattcgtatgactcttactg	9	9	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:28229604T>A	uc009xky.2	-	13	1972	c.1874A>T	c.(1873-1875)AAA>ATA	p.K625I	ARMC4_uc010qds.1_Missense_Mutation_p.K150I|ARMC4_uc010qdt.1_Missense_Mutation_p.K317I|ARMC4_uc001itz.2_Missense_Mutation_p.K625I|ARMC4_uc010qdu.1_Missense_Mutation_p.K317I	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	625	ARM 3.						binding			ovary(4)|skin(2)	6						GATGGCTTCTTTATTCGTATG	0.532													46	48	---	---	---	---	PASS	A	28229604	A	A	28229604	3	1	42	1	0	0	0	0	1	0	0	0	953	1841	64	5	1292	5	ARMC4	10	28229604	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	20113687	28229604	107305143	169	16500										
MTPAP	55149	broad.mit.edu	37	chr10	30625753	30625753	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ttgtgagcgctgaggtttctGgtttcatctagatccaaaaa	10	7	3	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:30625753G>T	uc001iva.3	-	4	822	c.759C>A	c.(757-759)ACC>ACA	p.T253T	MTPAP_uc001ivb.3_Silent_p.T383T	NM_018109	NP_060579	Q9NVV4	PAPD1_HUMAN	PAP associated domain containing 1 precursor	253					cell death|histone mRNA catabolic process|mRNA polyadenylation|transcription, DNA-dependent	mitochondrion	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|protein homodimerization activity|RNA binding|UTP binding			ovary(1)	1						TGAGGTTTCTGGTTTCATCTA	0.353													63	399	---	---	---	---	PASS	T	30625753	T	T	30625753	2	4	42	1	0	0	0	0	0	0	0	1	9956	1335	47	3		3	MTPAP	10	30625753	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	2396149	30625753	104908994	170	16501										
ZNF248	57209	broad.mit.edu	37	chr10	38120707	38120707	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tttttcacagaaggttttccCacattcattacacttatatg	4	9	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:38120707C>A	uc001izd.1	-	6	2075	c.1576G>T	c.(1576-1578)GGG>TGG	p.G526W	ZNF248_uc009xmc.2_Intron|ZNF248_uc001izb.2_Intron|ZNF248_uc001izc.2_Intron|ZNF248_uc010qeu.1_Missense_Mutation_p.G526W	NM_021045	NP_066383	Q8NDW4	ZN248_HUMAN	zinc finger protein 248	526	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAGGTTTTCCCACATTCATTA	0.403													25	54	---	---	---	---	PASS	A	38120707	A	A	38120707	3	1	42	1	0	0	0	0	1	0	0	0	17790	594	21	3	167	3	ZNF248	10	38120707	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	7494954	38120707	97414040	171	16502										
LRRTM3	347731	broad.mit.edu	37	chr10	68687494	68687494	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ctttcagtggacccagtgttTtccagtgtgtcccgaatctg	10	11	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:68687494T>A	uc001jmz.1	+	2	1370	c.820T>A	c.(820-822)TTC>ATC	p.F274I	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.F274I	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	274	Extracellular (Potential).|LRR 9.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						ACCCAGTGTTTTCCAGTGTGT	0.458													54	68	---	---	---	---	PASS	A	68687494	A	A	68687494	3	1	42	1	0	0	0	0	1	0	0	0	9041	1841	64	5	826	5	LRRTM3	10	68687494	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	30566787	68687494	66847253	172	16503										
TYSND1	219743	broad.mit.edu	37	chr10	71899765	71899765	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cagcagcgcggtccagctcaCggaggccacctaggtcttgg	14	14	2	0	rs148744638	byFrequency	TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:71899765C>T	uc001jqr.2	-	4	1770	c.1616G>A	c.(1615-1617)CGT>CAT	p.R539H	TYSND1_uc001jqq.2_RNA|TYSND1_uc001jqs.2_3'UTR|TYSND1_uc001jqt.2_RNA	NM_173555	NP_775826	Q2T9J0	TYSD1_HUMAN	trypsin domain containing 1 isoform a	539					proteolysis	peroxisome	serine-type endopeptidase activity			large_intestine(1)	1						GTCCAGCTCACGGAGGCCACC	0.672													4	54	---	---	---	---	PASS	T	71899765	T	T	71899765	3	4	42	1	0	0	0	0	1	0	0	0	16814	536	19	1	88	1	TYSND1	10	71899765	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	3212271	71899765	63634982	173	16504										
USP54	159195	broad.mit.edu	37	chr10	75279616	75279616	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ggctgagggctgcgacggctGctgtggtgattgctgctgct	18	9	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:75279616G>A	uc001juo.2	-	17	2634	c.2617C>T	c.(2617-2619)CAG>TAG	p.Q873*	USP54_uc010qkk.1_Nonsense_Mutation_p.Q55*|USP54_uc001juk.2_Intron|USP54_uc001jul.2_Intron|USP54_uc001jum.2_Intron|USP54_uc001jun.2_Intron|USP54_uc001jup.2_Nonsense_Mutation_p.Q873*	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	873					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					TGCGACGGCTGCTGTGGTGAT	0.552													14	15	---	---	---	---	PASS	A	75279616	A	A	75279616	4	1	42	1	0	0	0	0	0	1	0	0	17082	1328	46	3	2461	3	USP54	10	75279616	Nonsense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	3379851	75279616	60255131	174	16505										
ZMIZ1	57178	broad.mit.edu	37	chr10	81058301	81058301	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aaccacccttcccgcctgacAtcaagccaaatatgagcgct	6	16	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:81058301A>G	uc001kaf.2	+	15	2202	c.1630A>G	c.(1630-1632)ATC>GTC	p.I544V	ZMIZ1_uc001kag.2_Missense_Mutation_p.I420V	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	544	Pro-rich.				transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			CCCGCCTGACATCAAGCCAAA	0.662													18	26	---	---	---	---	PASS	G	81058301	G	G	81058301	3	3	42	1	0	0	0	0	1	0	0	0	17693	217	8	5	1672	5	ZMIZ1	10	81058301	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	5778685	81058301	54476446	175	16506										
IFIT3	3437	broad.mit.edu	37	chr10	91099423	91099423	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gcatactccgatctcgctgaGttcctggagacggaatgtta	11	10	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:91099423G>A	uc001kgf.2	+	2	1240	c.1011G>A	c.(1009-1011)GAG>GAA	p.E337E	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron|IFIT3_uc001kgg.2_Silent_p.E337E	NM_001549	NP_001540	O14879	IFIT3_HUMAN	interferon-induced protein with	337					type I interferon-mediated signaling pathway		protein binding			central_nervous_system(1)	1						ATCTCGCTGAGTTCCTGGAGA	0.423													21	35	---	---	---	---	PASS	A	91099423	A	A	91099423	2	1	42	1	0	0	0	0	0	0	0	1	7524	1020	36	3		3	IFIT3	10	91099423	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	10041122	91099423	44435324	176	16507										
SLIT1	6585	broad.mit.edu	37	chr10	98819234	98819234	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cacagcgagttcagggagcgGaggccctggaaggcgtcggg	19	10	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:98819234G>A	uc001kmw.2	-	11	1320	c.1068C>T	c.(1066-1068)CTC>CTT	p.L356L	SLIT1_uc009xvh.1_Silent_p.L366L	NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	356					axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		TCAGGGAGCGGAGGCCCTGGA	0.617													6	21	---	---	---	---	PASS	A	98819234	A	A	98819234	2	1	42	1	0	0	0	0	0	0	0	1	14739	1161	41	2		2	SLIT1	10	98819234	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	7719811	98819234	36715513	177	16508										
CCDC147	159686	broad.mit.edu	37	chr10	106209899	106209899	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atatgaggtagagaaacttaCcaatgagctccagaatttaa	8	6	0	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:106209899C>A	uc001kyh.2	+	17	2581	c.2447C>A	c.(2446-2448)ACC>AAC	p.T816N		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	816	Potential.									ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		GAGAAACTTACCAATGAGCTC	0.328													16	86	---	---	---	---	PASS	A	106209899	A	A	106209899	3	1	42	1	0	0	0	0	1	0	0	0	2781	507	18	3	2513	3	CCDC147	10	106209899	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	7390665	106209899	29324848	178	16509										
SORCS3	22986	broad.mit.edu	37	chr10	106918650	106918650	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tatttctttctccattttagCccttctgttccttacatctg	3	12	4	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:106918650C>A	uc001kyi.1	+	11	1857	c.1630C>A	c.(1630-1632)CCC>ACC	p.P544T		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	544	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		TCCATTTTAGCCCTTCTGTTC	0.473													12	39	---	---	---	---	PASS	A	106918650	A	A	106918650	3	1	42	1	0	0	0	0	1	0	0	0	14932	753	26	3	1672	3	SORCS3	10	106918650	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	708751	106918650	28616097	179	16510										
C10orf46	143384	broad.mit.edu	37	chr10	120514170	120514170	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gggggcggcggaggtggcagGggctgccggaagccgtccac	22	11	0	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:120514170G>A	uc001lds.1	-	1	589	c.105C>T	c.(103-105)CCC>CCT	p.P35P	C10orf46_uc010qst.1_RNA	NM_153810	NP_722517	Q86Y37	CJ046_HUMAN	chromosome 10 open reading frame 46	35	Pro-rich.				ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding				0		Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0131)		GAGGTGGCAGGGGCTGCCGGA	0.701													11	18	---	---	---	---	PASS	A	120514170	A	A	120514170	2	1	42	1	0	0	0	0	0	0	0	1	1604	1219	43	3		3	C10orf46	10	120514170	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	13595520	120514170	15020577	180	16511										
TIAL1	7073	broad.mit.edu	37	chr10	121347733	121347733	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgaagtataaggacttctgtCacatctctggaaaggttacc	9	8	3	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:121347733C>A	uc001lei.1	-	2	624	c.60G>T	c.(58-60)GTG>GTT	p.V20V	TIAL1_uc001leh.1_5'UTR|TIAL1_uc001lej.1_Silent_p.V20V|TIAL1_uc001lek.1_5'UTR|TIAL1_uc009xzi.1_Intron|TIAL1_uc010qtb.1_5'UTR	NM_003252	NP_003243	Q01085	TIAR_HUMAN	TIA-1 related protein isoform 1	20	RRM 1.				apoptosis|defense response|induction of apoptosis|regulation of transcription from RNA polymerase II promoter	lysosome|nucleus|stress granule	nucleotide binding|RNA binding			ovary(1)	1		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00239)|BRCA - Breast invasive adenocarcinoma(275;0.0932)		GGACTTCTGTCACATCTCTGG	0.378													18	29	---	---	---	---	PASS	A	121347733	A	A	121347733	2	1	42	1	0	0	0	0	0	0	0	1	15886	813	29	2		2	TIAL1	10	121347733	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	833563	121347733	14187014	181	16512										
ATE1	11101	broad.mit.edu	37	chr10	123600614	123600614	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	taccgtagtgcagagtagacGcccaaagacaaaaacgaata	9	9	0	3	rs150860078	byFrequency	TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:123600614G>A	uc001lfp.2	-	9	1222	c.1140C>T	c.(1138-1140)GGC>GGT	p.G380G	ATE1_uc001lfq.2_Silent_p.G380G|ATE1_uc010qtr.1_Silent_p.G265G|ATE1_uc010qts.1_Silent_p.G284G|ATE1_uc010qtt.1_Silent_p.G373G|ATE1_uc001lfr.2_Silent_p.G81G|ATE1_uc009xzu.2_RNA	NM_007041	NP_008972	O95260	ATE1_HUMAN	arginyltransferase 1 isoform 2	380					protein arginylation	cytoplasm|nucleus	acyltransferase activity|arginyltransferase activity				0		all_neural(114;0.061)|Lung NSC(174;0.095)|all_lung(145;0.124)|Breast(234;0.212)				CAGAGTAGACGCCCAAAGACA	0.363													3	4	---	---	---	---	PASS	A	123600614	A	A	123600614	2	1	42	1	0	0	0	0	0	0	0	1	1078	1074	38	1		1	ATE1	10	123600614	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	2252881	123600614	11934133	182	16513										
DMBT1	1755	broad.mit.edu	37	chr10	124390692	124390692	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ctggccccatcaccctggacGatgtagagtgctcagggacg	13	13	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr10:124390692G>A	uc001lgk.1	+	46	5960	c.5854G>A	c.(5854-5856)GAT>AAT	p.D1952N	DMBT1_uc001lgl.1_Missense_Mutation_p.D1942N|DMBT1_uc001lgm.1_Missense_Mutation_p.D1324N|DMBT1_uc009xzz.1_Missense_Mutation_p.D1952N|DMBT1_uc010qtx.1_Missense_Mutation_p.D672N|DMBT1_uc009yab.1_Missense_Mutation_p.D655N|DMBT1_uc009yac.1_Missense_Mutation_p.D246N	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1952	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)				CACCCTGGACGATGTAGAGTG	0.557													22	50	---	---	---	---	PASS	A	124390692	A	A	124390692	3	1	42	1	0	0	0	0	1	0	0	0	4577	1058	37	2	6036	2	DMBT1	10	124390692	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	790078	124390692	11144055	183	16514										
NUP98	4928	broad.mit.edu	37	chr11	3794901	3794901	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tattctttcatagcagtaatAcactggtgcttggtacttat	7	7	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:3794901A>G	uc001lyh.2	-	6	855	c.564T>C	c.(562-564)TGT>TGC	p.C188C	NUP98_uc001lyi.2_Silent_p.C188C|NUP98_uc001lyj.1_Silent_p.C188C|NUP98_uc001lyk.1_Silent_p.C188C|NUP98_uc010qxv.1_Silent_p.C151C	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	188	Gly/Thr-rich.				carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		TAGCAGTAATACACTGGTGCT	0.363			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								7	25	---	---	---	---	PASS	G	3794901	G	G	3794901	2	3	42	1	0	0	0	0	0	0	0	1	10773	389	14	5		5	NUP98	11	3794901	Silent	SNP	A	TCGA-22-5471-01A-01D-1632-08		3794901	131211615	184	16515										
OR52N5	390075	broad.mit.edu	37	chr11	5799050	5799050	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gaattgtgtgtcccccaaaaCggtgggcaaagaaagtgaag	13	7	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:5799050C>T	uc010qzn.1	-	1	815	c.815G>A	c.(814-816)CGT>CAT	p.R272H	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001922	NP_001001922	Q8NH56	O52N5_HUMAN	olfactory receptor, family 52, subfamily N,	272	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		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)		TCCCCCAAAACGGTGGGCAAA	0.453													17	17	---	---	---	---	PASS	T	5799050	T	T	5799050	3	4	42	1	0	0	0	0	1	0	0	0	11130	536	19	1	163	1	OR52N5	11	5799050	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	2004149	5799050	129207466	185	16516										
OR2D3	120775	broad.mit.edu	37	chr11	6942355	6942355	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	caggacttgcagacccagatCctgctatttatccttttcct	6	13	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:6942355C>A	uc010rav.1	+	1	123	c.123C>A	c.(121-123)ATC>ATA	p.I41I		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	41	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		AGACCCAGATCCTGCTATTTA	0.433													24	43	---	---	---	---	PASS	A	6942355	A	A	6942355	2	1	42	1	0	0	0	0	0	0	0	1	10995	845	30	2		2	OR2D3	11	6942355	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	1143305	6942355	128064161	186	16517										
OR5P3	120066	broad.mit.edu	37	chr11	7847314	7847314	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atgaggagtacccaatgtctAcaaaggccaaatggcagagg	12	8	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:7847314A>G	uc010rbg.1	-	1	206	c.206T>C	c.(205-207)GTA>GCA	p.V69A		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CCCAATGTCTACAAAGGCCAA	0.443													3	49	---	---	---	---	PASS	G	7847314	G	G	7847314	3	3	42	1	0	0	0	0	1	0	0	0	11179	391	14	5	732	5	OR5P3	11	7847314	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	904959	7847314	127159202	187	16518										
ALX4	60529	broad.mit.edu	37	chr11	44286627	44286627	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgctggccccagagccagggGggtgggcatgaggggacatg	20	9	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:44286627G>A	uc001myb.2	-	4	1117	c.1013C>T	c.(1012-1014)CCC>CTC	p.P338L		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	338					hair follicle development						0						AGAGCCAGGGGGGTGGGCATG	0.687													10	10	---	---	---	---	PASS	A	44286627	A	A	44286627	3	1	42	1	0	0	0	0	1	0	0	0	558	1232	43	3	226	3	ALX4	11	44286627	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	36439313	44286627	90719889	188	16519										
OR4S1	256148	broad.mit.edu	37	chr11	48328546	48328546	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cccccatgttcatgtacattCgtccctccaccaccctggct	5	19	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:48328546C>T	uc010rhu.1	+	1	772	c.772C>T	c.(772-774)CGT>TGT	p.R258C		NM_001004725	NP_001004725	Q8NGB4	OR4S1_HUMAN	olfactory receptor, family 4, subfamily S,	258	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CATGTACATTCGTCCCTCCAC	0.488													37	47	---	---	---	---	PASS	T	48328546	T	T	48328546	3	4	42	1	0	0	0	0	1	0	0	0	11082	884	31	2	774	2	OR4S1	11	48328546	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	4041919	48328546	86677970	189	16520										
OR8I2	120586	broad.mit.edu	37	chr11	55861449	55861449	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	acttatatcatcatcatctcAgccatcctgaggatccagtc	5	13	4	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:55861449A>T	uc010rix.1	+	1	666	c.666A>T	c.(664-666)TCA>TCT	p.S222S		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					TCATCATCTCAGCCATCCTGA	0.468													36	41	---	---	---	---	PASS	T	55861449	T	T	55861449	2	4	42	1	0	0	0	0	0	0	0	1	11240	175	7	5		5	OR8I2	11	55861449	Silent	SNP	A	TCGA-22-5471-01A-01D-1632-08	7532903	55861449	79145067	190	16521										
OR8H1	219469	broad.mit.edu	37	chr11	56057959	56057959	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aatgtgtatcatgatttcaaTgtcgtatgtgtccatgcagg	10	6	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:56057959T>A	uc010rje.1	-	1	580	c.580A>T	c.(580-582)ATT>TTT	p.I194F		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	194	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					ATGATTTCAATGTCGTATGTG	0.428													11	64	---	---	---	---	PASS	A	56057959	A	A	56057959	3	1	42	1	0	0	0	0	1	0	0	0	11237	1464	51	5	357	5	OR8H1	11	56057959	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	196510	56057959	78948557	191	16522										
PLAC1L	219990	broad.mit.edu	37	chr11	59814493	59814493	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtccttttattgctgactttCagacaacagcagaagagtta	8	8	1	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:59814493C>G	uc001nol.2	+	4	609	c.424C>G	c.(424-426)CAG>GAG	p.Q142E		NM_173801	NP_776162	Q86WS3	PLACL_HUMAN	placenta-specific 1-like precursor	142						extracellular region				ovary(2)|skin(1)	3						TGCTGACTTTCAGACAACAGC	0.373													4	78	---	---	---	---	PASS	G	59814493	G	G	59814493	3	3	42	1	0	0	0	0	1	0	0	0	12013	827	29	2	438	2	PLAC1L	11	59814493	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	3756534	59814493	75192023	192	16523										
DDB1	1642	broad.mit.edu	37	chr11	61081072	61081072	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ttgctgctatagatgacagtGgggcggtcagaacaagcaaa	13	7	1	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:61081072G>T	uc001nrc.3	-	16	2194	c.1968C>A	c.(1966-1968)CCC>CCA	p.P656P	DDB1_uc010rle.1_Intron|DDB1_uc010rlf.1_Silent_p.P656P	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	656	Interaction with CDT1.|Interaction with CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						AGATGACAGTGGGGCGGTCAG	0.483								NER					5	21	---	---	---	---	PASS	T	61081072	T	T	61081072	2	4	42	1	0	0	0	0	0	0	0	1	4323	1335	47	3		3	DDB1	11	61081072	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	1266579	61081072	73925444	193	16524										
ACTN3	89	broad.mit.edu	37	chr11	66330314	66330314	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	accatggtggaccccaacgcAgctggggtggtgaccttcca	13	13	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:66330314A>T	uc001oio.1	+	21	2454	c.2436A>T	c.(2434-2436)GCA>GCT	p.A812A	ACTN3_uc010rpi.1_RNA	NM_001104	NP_001095	Q08043	ACTN3_HUMAN	actinin, alpha 3	812	EF-hand 2.|2; possibly ancestral.				focal adhesion assembly|muscle filament sliding|regulation of apoptosis	actin filament|cytosol|focal adhesion|pseudopodium	actin binding|calcium ion binding|integrin binding|protein homodimerization activity|structural constituent of muscle				0						ACCCCAACGCAGCTGGGGTGG	0.567													18	122	---	---	---	---	PASS	T	66330314	T	T	66330314	2	4	42	1	0	0	0	0	0	0	0	1	206	175	7	5		5	ACTN3	11	66330314	Silent	SNP	A	TCGA-22-5471-01A-01D-1632-08	5249242	66330314	68676202	194	16525										
IGHMBP2	3508	broad.mit.edu	37	chr11	68696686	68696686	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gccccctgaagttgctgcccGagagctacttcgacgtggtg	13	13	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:68696686G>T	uc001ook.1	+	8	1198	c.1096G>T	c.(1096-1098)GAG>TAG	p.E366*	IGHMBP2_uc001ooj.1_RNA|IGHMBP2_uc001ool.1_5'Flank	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	366	Leu-rich.				cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			GTTGCTGCCCGAGAGCTACTT	0.652													25	46	---	---	---	---	PASS	T	68696686	T	T	68696686	4	4	42	1	0	0	0	0	0	1	0	0	7591	1059	37	2	1126	2	IGHMBP2	11	68696686	Nonsense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	2366372	68696686	66309830	195	16526										
ODZ4	26011	broad.mit.edu	37	chr11	78381535	78381535	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gcatcgtcacagaagagaggCggtcattcttgtcgaactca	11	10	4	2	rs140341040	by1000genomes	TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:78381535C>A	uc001ozl.3	-	32	6318	c.5855G>T	c.(5854-5856)CGC>CTC	p.R1952L	ODZ4_uc001ozk.3_Missense_Mutation_p.R177L|ODZ4_uc009yvb.1_Missense_Mutation_p.R536L	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1952	YD 7.|Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						AGAAGAGAGGCGGTCATTCTT	0.542													12	34	---	---	---	---	PASS	A	78381535	A	A	78381535	3	1	42	1	0	0	0	0	1	0	0	0	10837	768	27	1	2466	1	ODZ4	11	78381535	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	9684849	78381535	56624981	196	16527										
PCF11	51585	broad.mit.edu	37	chr11	82879675	82879675	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtagcaagagatggcccaacGaagatgatttttgaaggacc	12	7	0	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:82879675G>A	uc001ozx.3	+	8	2643	c.2298G>A	c.(2296-2298)ACG>ACA	p.T766T	PCF11_uc010rsu.1_Silent_p.T897T	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	766	Gly-rich.				mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						ATGGCCCAACGAAGATGATTT	0.488													12	41	---	---	---	---	PASS	A	82879675	A	A	82879675	2	1	42	1	0	0	0	0	0	0	0	1	11573	1045	37	2		2	PCF11	11	82879675	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	4498140	82879675	52126841	197	16528										
MTNR1B	4544	broad.mit.edu	37	chr11	92714750	92714750	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aggccagcgcctttgtgatgGgcctgagcgtcatcggctct	14	12	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:92714750G>T	uc001pdk.1	+	2	464	c.361G>T	c.(361-363)GGC>TGC	p.G121C		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	121	Helical; Name=3; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	CTTTGTGATGGGCCTGAGCGT	0.597													22	66	---	---	---	---	PASS	T	92714750	T	T	92714750	3	4	42	1	0	0	0	0	1	0	0	0	9952	1232	43	3	367	3	MTNR1B	11	92714750	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	9835075	92714750	42291766	198	16529										
ANKK1	255239	broad.mit.edu	37	chr11	113266902	113266902	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agatggtggacctgatgaaaCgctgctgggaccaggacccc	14	11	0	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:113266902C>T	uc001pny.2	+	5	890	c.796C>T	c.(796-798)CGC>TGC	p.R266C		NM_178510	NP_848605	Q8NFD2	ANKK1_HUMAN	ankyrin repeat and kinase domain containing 1	266	Protein kinase.						ATP binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|ovary(1)|breast(1)	8		all_cancers(61;1.53e-11)|all_epithelial(67;3e-06)|Melanoma(852;4.04e-05)|all_hematologic(158;0.000315)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0461)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Prostate(24;0.194)		BRCA - Breast invasive adenocarcinoma(274;4.82e-06)|Epithelial(105;5.41e-05)|all cancers(92;0.000442)|OV - Ovarian serous cystadenocarcinoma(223;0.238)		CCTGATGAAACGCTGCTGGGA	0.622													11	61	---	---	---	---	PASS	T	113266902	T	T	113266902	3	4	42	1	0	0	0	0	1	0	0	0	631	536	19	1	814	1	ANKK1	11	113266902	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	20552152	113266902	21739614	199	16530										
BLID	414899	broad.mit.edu	37	chr11	121986551	121986551	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cagaggctcgctctatccatCctgtgtagagcacacactca	8	14	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:121986551C>T	uc001pyf.2	-	1	373	c.80G>A	c.(79-81)GGA>GAA	p.G27E	LOC399959_uc009zba.2_Intron	NM_001001786	NP_001001786	Q8IZY5	BLID_HUMAN	BRCC2 protein	27					apoptosis	mitochondrion					0		Breast(109;0.0164)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;2.08e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.101)		CTCTATCCATCCTGTGTAGAG	0.468											OREG0021435	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	35	---	---	---	---	PASS	T	121986551	T	T	121986551	3	4	42	1	0	0	0	0	1	0	0	0	1443	855	30	2	250	2	BLID	11	121986551	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	8719649	121986551	13019965	200	16531										
BSX	390259	broad.mit.edu	37	chr11	122852332	122852332	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tcgatgaagaaggatgtgggCctctgagaagacgccgggtg	17	7	1	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:122852332C>A	uc010rzs.1	-	1	48	c.48G>T	c.(46-48)AGG>AGT	p.R16S		NM_001098169	NP_001091639	Q3C1V8	BSH_HUMAN	brain specific homeobox	16											0		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0361)		AGGATGTGGGCCTCTGAGAAG	0.607													4	7	---	---	---	---	PASS	A	122852332	A	A	122852332	3	1	42	1	0	0	0	0	1	0	0	0	1535	738	26	3	664	3	BSX	11	122852332	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	865781	122852332	12154184	201	16532										
ESAM	90952	broad.mit.edu	37	chr11	124626148	124626148	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gaaggatggaagctgccgatCccactggtattggacagcgg	15	9	0	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr11:124626148C>A	uc001qav.3	-	4	735	c.562G>T	c.(562-564)GAT>TAT	p.D188Y	ESAM_uc010sao.1_Intron|ESAM_uc001qau.3_Missense_Mutation_p.D115Y|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Missense_Mutation_p.D188Y	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	188	Extracellular (Potential).|Ig-like C2-type.				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		AGCTGCCGATCCCACTGGTAT	0.572													7	12	---	---	---	---	PASS	A	124626148	A	A	124626148	3	1	42	1	0	0	0	0	1	0	0	0	5247	855	30	2	626	2	ESAM	11	124626148	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	1773816	124626148	10380368	202	16533										
CLECL1	160365	broad.mit.edu	37	chr12	9885563	9885563	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	accagatctctgaagtggaaAcgcgagttctaacggggaag	13	8	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:9885563A>C	uc001qwj.2	-	1	298	c.298T>G	c.(298-300)TTT>GTT	p.F100V		NM_172004	NP_742001	Q8IZS7	CLCL1_HUMAN	type II transmembrane protein DCAL1	100	Extracellular (Potential).					integral to membrane|plasma membrane	sugar binding				0						TGAAGTGGAAACGCGAGTTCT	0.398													14	85	---	---	---	---	PASS	C	9885563	C	C	9885563	3	2	42	1	0	0	0	0	1	0	0	0	3523	43	2	5	213	5	CLECL1	12	9885563	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08		9885563	123966332	203	16534										
TAS2R9	50835	broad.mit.edu	37	chr12	10962127	10962127	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gaaccatcacccccaggttcAgggttaactgtttgaaagta	9	10	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:10962127A>T	uc001qyx.2	-	1	641	c.548T>A	c.(547-549)CTG>CAG	p.L183Q	TAS2R8_uc010shh.1_5'Flank	NM_023917	NP_076406	Q9NYW1	TA2R9_HUMAN	taste receptor, type 2, member 9	183	Helical; Name=5; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			skin(1)	1						CCCCAGGTTCAGGGTTAACTG	0.393													90	51	---	---	---	---	PASS	T	10962127	T	T	10962127	3	4	42	1	0	0	0	0	1	0	0	0	15585	188	7	5	394	5	TAS2R9	12	10962127	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	1076564	10962127	122889768	204	16535										
APOLD1	81575	broad.mit.edu	37	chr12	12940477	12940477	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ggagtcctgcaccggggctcTggacgaactcagcgagcagc	15	13	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:12940477T>C	uc001rau.3	+	2	815	c.731T>C	c.(730-732)CTG>CCG	p.L244P	DDX47_uc001rav.2_Intron|APOLD1_uc001raw.3_Missense_Mutation_p.L213P	NM_001130415	NP_001123887	Q96LR9	APLD1_HUMAN	apolipoprotein L domain containing 1 isoform 1	244	Potential.				angiogenesis|cell differentiation|lipid transport|lipoprotein metabolic process	extracellular region|integral to membrane|plasma membrane	lipid binding			ovary(1)	1		Prostate(47;0.0632)		BRCA - Breast invasive adenocarcinoma(232;0.0338)|GBM - Glioblastoma multiforme(207;0.149)		ACCGGGGCTCTGGACGAACTC	0.637													74	37	---	---	---	---	PASS	C	12940477	C	C	12940477	3	2	42	1	0	0	0	0	1	0	0	0	811	1580	55	5	744	5	APOLD1	12	12940477	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	1978350	12940477	120911418	205	16536										
HOXC10	3226	broad.mit.edu	37	chr12	54383205	54383205	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agagaatcggatccgggaacTgacctccaattttaatttca	8	9	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:54383205T>C	uc001sen.2	+	2	1102	c.1004T>C	c.(1003-1005)CTG>CCG	p.L335P	uc001seo.2_5'Flank|MIR196A2_hsa-mir-196a-2|MI0000279_5'Flank	NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	335					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						ATCCGGGAACTGACCTCCAAT	0.318											OREG0021882	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	13	---	---	---	---	PASS	C	54383205	C	C	54383205	3	2	42	1	0	0	0	0	1	0	0	0	7309	1580	55	5	1010	5	HOXC10	12	54383205	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	41442728	54383205	79468690	206	16537										
R3HDM2	22864	broad.mit.edu	37	chr12	57663634	57663634	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gaagtggggaggggctgaccCgtggaagccatgatgaagct	18	7	0	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:57663634C>T	uc009zpm.1	-	13	1481	c.1446G>A	c.(1444-1446)ACG>ACA	p.T482T	R3HDM2_uc010srn.1_RNA|R3HDM2_uc001snu.2_Silent_p.T177T|R3HDM2_uc001snr.2_Silent_p.T209T|R3HDM2_uc001sns.2_Silent_p.T482T|R3HDM2_uc001snt.2_Silent_p.T496T|R3HDM2_uc009zpn.1_Silent_p.T105T	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	482	Gln-rich.					nucleus	nucleic acid binding			ovary(2)	2						GGGGCTGACCCGTGGAAGCCA	0.572													24	41	---	---	---	---	PASS	T	57663634	T	T	57663634	2	4	42	1	0	0	0	0	0	0	0	1	12888	639	23	1		1	R3HDM2	12	57663634	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	3280429	57663634	76188261	207	16538										
GLI1	2735	broad.mit.edu	37	chr12	57864776	57864776	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gcgaggggtccaggctctctGcctcttgggcctggtccacc	14	15	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:57864776G>T	uc001snx.2	+	12	2331	c.2253G>T	c.(2251-2253)CTG>CTT	p.L751L	GLI1_uc009zpq.2_Silent_p.L623L	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	751					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			CAGGCTCTCTGCCTCTTGGGC	0.592													37	49	---	---	---	---	PASS	T	57864776	T	T	57864776	2	4	42	1	0	0	0	0	0	0	0	1	6437	1306	46	3		3	GLI1	12	57864776	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	201142	57864776	75987119	208	16539										
WIF1	11197	broad.mit.edu	37	chr12	65461562	65461562	+	Missense_Mutation	SNP	G	T	T													0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tccatttcggcacccgcctgGgcactcagcttcagcagaga							TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:65461562G>T	uc001ssk.2	-	5	692	c.547C>A	c.(547-549)CCA>ACA	p.P183T		NM_007191	NP_009122	Q9Y5W5	WIF1_HUMAN	WNT inhibitory factor 1 precursor	183	EGF-like 1.				multicellular organismal development|Wnt receptor signaling pathway	extracellular region	protein tyrosine kinase activity			ovary(2)|lung(1)|skin(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0231)		CACCCGCCTGGGCACTCAGCT	0.488			T	HMGA2	pleomorphic salivary gland adenoma								11	17	---	---	---	---	PASS	T	65461562	T	T	65461562	3	4	42	1	0	0	0	0	1	0	0	0	17363	1232	43	3	616	3	WIF1	12	65461562	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	7596786	65461562	68390333	209	16540	396	2								
WIF1	11197	broad.mit.edu	37	chr12	65461563	65461563	+	Nonsense_Mutation	SNP	G	T	T													0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccatttcggcacccgcctggGcactcagcttcagcagagag							TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:65461563G>T	uc001ssk.2	-	5	691	c.546C>A	c.(544-546)TGC>TGA	p.C182*		NM_007191	NP_009122	Q9Y5W5	WIF1_HUMAN	WNT inhibitory factor 1 precursor	182	EGF-like 1.				multicellular organismal development|Wnt receptor signaling pathway	extracellular region	protein tyrosine kinase activity			ovary(2)|lung(1)|skin(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0231)		ACCCGCCTGGGCACTCAGCTT	0.483			T	HMGA2	pleomorphic salivary gland adenoma								12	17	---	---	---	---	PASS	T	65461563	T	T	65461563	4	4	42	1	0	0	0	0	0	1	0	0	17363	1195	42	3	617	3	WIF1	12	65461563	Nonsense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	1	65461563	68390332	210	16541	396	2								
NAV3	89795	broad.mit.edu	37	chr12	78400650	78400650	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agcagtcccaaagtgtcaccTaagttggcccctccaaaagc	8	14	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:78400650T>A	uc001syp.2	+	8	1505	c.1332T>A	c.(1330-1332)CCT>CCA	p.P444P	NAV3_uc001syo.2_Silent_p.P444P	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	444						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AAGTGTCACCTAAGTTGGCCC	0.408										HNSCC(70;0.22)			23	74	---	---	---	---	PASS	A	78400650	A	A	78400650	2	1	42	1	0	0	0	0	0	0	0	1	10185	1509	53	5		5	NAV3	12	78400650	Silent	SNP	T	TCGA-22-5471-01A-01D-1632-08	12939087	78400650	55451245	211	16542										
LRRIQ1	84125	broad.mit.edu	37	chr12	85450481	85450481	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	acaagaaaaagaaatttattCaaaatccaaagaaattgagg	6	4	1	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:85450481C>A	uc001tac.2	+	8	2021	c.1910C>A	c.(1909-1911)TCA>TAA	p.S637*	LRRIQ1_uc001tab.1_Nonsense_Mutation_p.S637*|LRRIQ1_uc001taa.1_Nonsense_Mutation_p.S612*	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	637										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		GAAATTTATTCAAAATCCAAA	0.299													13	22	---	---	---	---	PASS	A	85450481	A	A	85450481	4	1	42	1	0	0	0	0	0	1	0	0	9029	838	29	2	1936	2	LRRIQ1	12	85450481	Nonsense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	7049831	85450481	48401414	212	16543										
LUM	4060	broad.mit.edu	37	chr12	91498030	91498030	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agatgcgattgccatccaaaCgcaaatgcttgatcttggag	10	9	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:91498030C>A	uc001tbm.2	-	3	1318	c.929G>T	c.(928-930)CGT>CTT	p.R310L	LUM_uc001tbn.2_RNA	NM_002345	NP_002336	P51884	LUM_HUMAN	lumican precursor	310	LRR 11.				collagen fibril organization|visual perception	extracellular space|fibrillar collagen	collagen binding|extracellular matrix structural constituent			central_nervous_system(2)	2						GCCATCCAAACGCAAATGCTT	0.373													9	36	---	---	---	---	PASS	A	91498030	A	A	91498030	3	1	42	1	0	0	0	0	1	0	0	0	9085	536	19	1	91	1	LUM	12	91498030	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	6047549	91498030	42353865	213	16544										
PLXNC1	10154	broad.mit.edu	37	chr12	94618035	94618035	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtcaacgtgatgttctccttCggttcttggaatttatcaga	9	8	4	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:94618035C>T	uc001tdc.2	+	7	1983	c.1734C>T	c.(1732-1734)TTC>TTT	p.F578F		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	578	Extracellular (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						TGTTCTCCTTCGGTTCTTGGA	0.373													13	118	---	---	---	---	PASS	T	94618035	T	T	94618035	2	4	42	1	0	0	0	0	0	0	0	1	12126	883	31	2		2	PLXNC1	12	94618035	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	3120005	94618035	39233860	214	16545										
DNAH10	196385	broad.mit.edu	37	chr12	124335548	124335548	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtgaaggcgctgttcaggccTgtggtcgtgatcgtgcccga	16	10	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr12:124335548T>A	uc001uft.3	+	34	5887	c.5862T>A	c.(5860-5862)CCT>CCA	p.P1954P		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1954	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)		TGTTCAGGCCTGTGGTCGTGA	0.632													3	51	---	---	---	---	PASS	A	124335548	A	A	124335548	2	1	42	1	0	0	0	0	0	0	0	1	4598	1567	55	5		5	DNAH10	12	124335548	Silent	SNP	T	TCGA-22-5471-01A-01D-1632-08	29717513	124335548	9516347	215	16546										
TPTE2	93492	broad.mit.edu	37	chr13	20012252	20012252	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ctcggcagttaaaaatatttCggaggcaataaggagggcac	12	7	0	0	rs140738972		TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr13:20012252C>T	uc001umd.2	-	15	1226	c.1015G>A	c.(1015-1017)GAA>AAA	p.E339K	TPTE2_uc009zzk.2_RNA|TPTE2_uc009zzl.2_Missense_Mutation_p.E228K|TPTE2_uc001ume.2_Missense_Mutation_p.E262K|TPTE2_uc009zzm.2_Missense_Mutation_p.E10K|TPTE2_uc010tcm.1_RNA|TPTE2_uc010tcl.1_Missense_Mutation_p.E10K	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	339	Phosphatase tensin-type.					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		AAAAATATTTCGGAGGCAATA	0.284													19	20	---	---	---	---	PASS	T	20012252	T	T	20012252	3	4	42	1	0	0	0	0	1	0	0	0	16428	893	31	2	581	2	TPTE2	13	20012252	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08		20012252	95157626	216	16547										
SPG20	23111	broad.mit.edu	37	chr13	36909772	36909772	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ttcccacccaggacctgtgtGttcagactcttttgatgaaa	8	11	2	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr13:36909772G>C	uc001uvn.2	-	3	466	c.196C>G	c.(196-198)CAC>GAC	p.H66D	SPG20_uc010ten.1_Missense_Mutation_p.H66D|SPG20_uc001uvm.2_Missense_Mutation_p.H66D|SPG20_uc001uvo.2_Missense_Mutation_p.H66D|SPG20_uc001uvq.2_Missense_Mutation_p.H66D|SPG20_uc001uvp.2_Missense_Mutation_p.H66D	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	66	MIT.				cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		GGACCTGTGTGTTCAGACTCT	0.433													33	35	---	---	---	---	PASS	C	36909772	C	C	36909772	3	2	42	1	0	0	0	0	1	0	0	0	15041	1377	48	4	1836	4	SPG20	13	36909772	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	16897520	36909772	78260106	217	16548										
SLITRK5	26050	broad.mit.edu	37	chr13	88329160	88329160	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aacttttgacccggtcccaaAcctccagctgctattcttga	6	14	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr13:88329160A>T	uc001vln.2	+	2	1736	c.1517A>T	c.(1516-1518)AAC>ATC	p.N506I	SLITRK5_uc010tic.1_Missense_Mutation_p.N265I	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	506	Extracellular (Potential).|LRR 11.					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CCGGTCCCAAACCTCCAGCTG	0.532													27	47	---	---	---	---	PASS	T	88329160	T	T	88329160	3	4	42	1	0	0	0	0	1	0	0	0	14746	43	2	5	1519	5	SLITRK5	13	88329160	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	51419388	88329160	26840718	218	16549										
GPR180	160897	broad.mit.edu	37	chr13	95273375	95273375	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cagatgttatacttacttttGagtctatgcatgggttggac	10	6	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr13:95273375G>C	uc001vly.2	+	6	858	c.780G>C	c.(778-780)TTG>TTC	p.L260F	GPR180_uc001vlz.2_Missense_Mutation_p.L159F|GPR180_uc010afi.2_Missense_Mutation_p.L21F	NM_180989	NP_851320	Q86V85	GP180_HUMAN	G protein-coupled receptor 180 precursor	260	Helical; (Potential).					integral to membrane				breast(1)	1	all_neural(89;0.0684)|Medulloblastoma(90;0.163)					ACTTACTTTTGAGTCTATGCA	0.393													6	62	---	---	---	---	PASS	C	95273375	C	C	95273375	3	2	42	1	0	0	0	0	1	0	0	0	6676	1281	45	2	802	2	GPR180	13	95273375	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	6944215	95273375	19896503	219	16550										
LRP10	26020	broad.mit.edu	37	chr14	23342530	23342530	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ctctctccagcttgtgaggaCcccccagcagtgctcttaga	9	15	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr14:23342530C>T	uc001whd.2	+	3	643	c.90C>T	c.(88-90)GAC>GAT	p.D30D	LRP10_uc001whe.2_5'Flank	NM_014045	NP_054764	Q7Z4F1	LRP10_HUMAN	low density lipoprotein receptor-related protein	30	CUB 1.|Extracellular (Potential).				endocytosis	coated pit|integral to membrane				central_nervous_system(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.00549)		CTTGTGAGGACCCCCCAGCAG	0.612											OREG0022588	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	49	---	---	---	---	PASS	T	23342530	T	T	23342530	2	4	42	1	0	0	0	0	0	0	0	1	8952	506	18	3		3	LRP10	14	23342530	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08		23342530	84007010	220	16551										
NOVA1	4857	broad.mit.edu	37	chr14	26917512	26917512	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aaaatatccattggttgcagCagtagcagcagccaggctac	10	10	0	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr14:26917512C>A	uc001wpy.2	-	5	1495	c.1177G>T	c.(1177-1179)GCT>TCT	p.A393S	NOVA1_uc001wpz.2_Missense_Mutation_p.A369S|NOVA1_uc001wqa.2_Missense_Mutation_p.A271S	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	396	Ala-rich.				locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		TTGGTTGCAGCAGTAGCAGCA	0.512													3	19	---	---	---	---	PASS	A	26917512	A	A	26917512	3	1	42	1	0	0	0	0	1	0	0	0	10554	710	25	3	350	3	NOVA1	14	26917512	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	3574982	26917512	80432028	221	16552										
FSCB	84075	broad.mit.edu	37	chr14	44975233	44975233	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	taaaggggcctcttcagcagGtggaggctgaactttaacag	13	8	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr14:44975233G>A	uc001wvn.2	-	1	1267	c.958C>T	c.(958-960)CCT>TCT	p.P320S		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	320	Pro-rich.					cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		TCTTCAGCAGGTGGAGGCTGA	0.507													13	45	---	---	---	---	PASS	A	44975233	A	A	44975233	3	1	42	1	0	0	0	0	1	0	0	0	6066	1261	44	3	1523	3	FSCB	14	44975233	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	18057721	44975233	62374307	222	16553										
KTN1	3895	broad.mit.edu	37	chr14	56139935	56139935	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agaaaaaacttgatgattcaTattctgaagcagtaagacag	8	5	2	5			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr14:56139935T>C	uc001xcb.2	+	41	4035	c.3733T>C	c.(3733-3735)TAT>CAT	p.Y1245H	KTN1_uc001xce.2_Intron|KTN1_uc001xcc.2_Missense_Mutation_p.Y1245H|KTN1_uc001xcd.2_Intron|KTN1_uc010trb.1_Intron|KTN1_uc001xcf.1_Intron|KTN1_uc010aoq.2_Intron|KTN1_uc010trc.1_Intron|KTN1_uc001xcg.2_Intron	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	1245	Lumenal (Potential).|Potential.				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						TGATGATTCATATTCTGAAGC	0.368			T	RET	papillary thryoid								4	18	---	---	---	---	PASS	C	56139935	C	C	56139935	3	2	42	1	0	0	0	0	1	0	0	0	8585	1406	49	5	3887	5	KTN1	14	56139935	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	11164702	56139935	51209605	223	16554										
SERPINA3	12	broad.mit.edu	37	chr14	95081224	95081224	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgtcaaagagcaactcagtcTgctggacaggttcacggagg	13	9	4	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr14:95081224T>A	uc001ydp.2	+	2	525	c.446T>A	c.(445-447)CTG>CAG	p.L149Q	SERPINA3_uc001ydo.3_Missense_Mutation_p.L174Q|SERPINA3_uc010avf.1_RNA|SERPINA3_uc001ydr.2_RNA|SERPINA3_uc001ydq.2_Missense_Mutation_p.L149Q|SERPINA3_uc001yds.2_Missense_Mutation_p.L149Q|SERPINA3_uc010avg.2_Missense_Mutation_p.L149Q	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3	149					acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		CAACTCAGTCTGCTGGACAGG	0.547													9	29	---	---	---	---	PASS	A	95081224	A	A	95081224	3	1	42	1	0	0	0	0	1	0	0	0	14090	1580	55	5	448	5	SERPINA3	14	95081224	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	38941289	95081224	12268316	224	16555										
SNRPN	6638	broad.mit.edu	37	chr15	25223391	25223391	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	acccatgggcccaccaattgGgcttccccctgctcgaggga	11	16	0	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr15:25223391G>T	uc001ywp.1	+	12	1501	c.611G>T	c.(610-612)GGG>GTG	p.G204V	SNRPN_uc001ywq.1_Missense_Mutation_p.G204V|SNRPN_uc001ywr.1_Missense_Mutation_p.G204V|SNRPN_uc001yws.1_Missense_Mutation_p.G204V|SNRPN_uc001ywt.1_Missense_Mutation_p.G204V|SNRPN_uc001ywv.1_Missense_Mutation_p.G207V|SNRPN_uc001yww.1_Missense_Mutation_p.G204V|SNRPN_uc001ywx.1_Missense_Mutation_p.G204V|SNRPN_uc001ywz.1_RNA|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	204	Repeat-rich region.				RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		CCACCAATTGGGCTTCCCCCT	0.537									Prader-Willi_syndrome				17	75	---	---	---	---	PASS	T	25223391	T	T	25223391	3	4	42	1	0	0	0	0	1	0	0	0	14870	1232	43	3	633	3	SNRPN	15	25223391	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08		25223391	77308001	225	16556										
GANC	2595	broad.mit.edu	37	chr15	42644329	42644329	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccactgactgggaggtccgcAtcatatgacaaagaactgcc	10	12	1	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr15:42644329A>T	uc001zpi.2	+	24	3051	c.2737A>T	c.(2737-2739)ATC>TTC	p.I913F	CAPN3_uc001zpk.1_Intron|CAPN3_uc001zpl.1_Intron|CAPN3_uc010udf.1_5'Flank|CAPN3_uc010udg.1_5'Flank	NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	913					carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		GGAGGTCCGCATCATATGACA	0.493													4	19	---	---	---	---	PASS	T	42644329	T	T	42644329	3	4	42	1	0	0	0	0	1	0	0	0	6234	217	8	5	2831	5	GANC	15	42644329	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	17420938	42644329	59887063	226	16557										
DMXL2	23312	broad.mit.edu	37	chr15	51839432	51839432	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	attcattcatctaacctgggCatatacttgctagttttgcg	7	9	3	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr15:51839432C>A	uc002abf.2	-	7	966	c.741G>T	c.(739-741)ATG>ATT	p.M247I	DMXL2_uc010ufy.1_Missense_Mutation_p.M247I|DMXL2_uc010bfa.2_Missense_Mutation_p.M247I	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	247	WD 3.					cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		CTAACCTGGGCATATACTTGC	0.318													5	33	---	---	---	---	PASS	A	51839432	A	A	51839432	3	1	42	1	0	0	0	0	1	0	0	0	4595	710	25	3	8520	3	DMXL2	15	51839432	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	9195103	51839432	50691960	227	16558										
WDR72	256764	broad.mit.edu	37	chr15	54025310	54025310	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gctgtggggaggggccttctGtccccagagtgccactgcct	15	13	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr15:54025310G>C	uc002acj.2	-	2	79	c.37C>G	c.(37-39)CAG>GAG	p.Q13E	WDR72_uc010bfi.1_Missense_Mutation_p.Q13E	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	13										lung(1)|skin(1)	2				all cancers(107;0.0511)		GGGGCCTTCTGTCCCCAGAGT	0.498													11	44	---	---	---	---	PASS	C	54025310	C	C	54025310	3	2	42	1	0	0	0	0	1	0	0	0	17319	1386	48	4	3347	4	WDR72	15	54025310	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	2185878	54025310	48506082	228	16559										
CCPG1	9236	broad.mit.edu	37	chr15	55669237	55669237	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgcttcttcaacaatgacaaCttcttgatttccaatttctt	3	10	4	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr15:55669237C>T	uc002acv.1	-	5	529	c.364G>A	c.(364-366)GTT>ATT	p.V122I	CCPG1_uc002acy.2_Missense_Mutation_p.V122I|DYX1C1_uc010ugh.1_RNA|CCPG1_uc002acw.1_5'UTR|CCPG1_uc002acx.2_Missense_Mutation_p.V122I|CCPG1_uc010bfk.1_Missense_Mutation_p.V122I|CCPG1_uc002acz.1_Missense_Mutation_p.V122I	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2	122	Cytoplasmic (Potential).|Interaction with MCF2L and SRC (By similarity).				cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		ACAATGACAACTTCTTGATTT	0.398													12	53	---	---	---	---	PASS	T	55669237	T	T	55669237	3	4	42	1	0	0	0	0	1	0	0	0	2938	565	20	3	1925	3	CCPG1	15	55669237	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	1643927	55669237	46862155	229	16560										
AKAP13	11214	broad.mit.edu	37	chr15	86123578	86123578	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aaatatgcttgaggtggtttCacatccacatccagttgtcc	8	10	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr15:86123578C>T	uc002blv.1	+	7	2449	c.2279C>T	c.(2278-2280)TCA>TTA	p.S760L	AKAP13_uc002blt.1_Missense_Mutation_p.S760L|AKAP13_uc002blu.1_Missense_Mutation_p.S760L|AKAP13_uc010bne.1_5'Flank	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	760					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						GAGGTGGTTTCACATCCACAT	0.428													5	40	---	---	---	---	PASS	T	86123578	T	T	86123578	3	4	42	1	0	0	0	0	1	0	0	0	449	838	29	2	2301	2	AKAP13	15	86123578	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	30454341	86123578	16407814	230	16561										
DECR2	26063	broad.mit.edu	37	chr16	457540	457540	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ggctctgaaggagtttggcaGaatcgacattctcattaact	10	8	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr16:457540G>A	uc002chb.2	+	4	423	c.317G>A	c.(316-318)AGA>AAA	p.R106K	DECR2_uc002chc.2_Missense_Mutation_p.R22K|DECR2_uc010bqv.2_Missense_Mutation_p.R22K|DECR2_uc002chd.2_Missense_Mutation_p.R22K|DECR2_uc002che.1_RNA	NM_020664	NP_065715	Q9NUI1	DECR2_HUMAN	2,4-dienoyl CoA reductase 2	106						peroxisome	2,4-dienoyl-CoA reductase (NADPH) activity|binding				0		Hepatocellular(16;0.00015)				GAGTTTGGCAGAATCGACATT	0.607													13	60	---	---	---	---	PASS	A	457540	A	A	457540	3	1	42	1	0	0	0	0	1	0	0	0	4383	942	33	2	331	2	DECR2	16	457540	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08		457540	89897213	231	16562										
TSC2	7249	broad.mit.edu	37	chr16	2129556	2129556	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtgcgtgggattctcttctcAgctccagccccggggtgcat	13	13	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr16:2129556A>T	uc002con.2	+	29	3391	c.3285_splice	c.e29-2	p.S1095_splice	TSC2_uc010bsd.2_Splice_Site_p.S1095_splice|TSC2_uc002coo.2_Splice_Site_p.S1051_splice|TSC2_uc010uvv.1_Splice_Site_p.S1015_splice|TSC2_uc010uvw.1_Splice_Site_p.S1003_splice|TSC2_uc002cop.2_Splice_Site_p.S851_splice	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1						cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				TTCTCTTCTCAGCTCCAGCCC	0.692			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				6	5	---	---	---	---	PASS	T	2129556	T	T	2129556	5	4	42	1	0	0	0	0	0	0	1	0	16603	202	7	5	3393	5	TSC2	16	2129556	Splice_Site	SNP	A	TCGA-22-5471-01A-01D-1632-08	1672016	2129556	88225197	232	16563										
TMC5	79838	broad.mit.edu	37	chr16	19501870	19501870	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ggaagtgtgcacttctttttCatcctcaccctcattgtgct	7	12	4	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr16:19501870C>T	uc002dgc.3	+	18	3476	c.2727C>T	c.(2725-2727)TTC>TTT	p.F909F	TMC5_uc010vaq.1_Silent_p.F857F|TMC5_uc002dgb.3_Intron|TMC5_uc010var.1_Silent_p.F909F|TMC5_uc002dgd.1_Silent_p.F663F|TMC5_uc002dge.3_Silent_p.F663F|TMC5_uc002dgf.3_Silent_p.F592F|TMC5_uc002dgg.3_Silent_p.F550F	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	909	Helical; (Potential).					integral to membrane				skin(1)	1						ACTTCTTTTTCATCCTCACCC	0.517													5	111	---	---	---	---	PASS	T	19501870	T	T	19501870	2	4	42	1	0	0	0	0	0	0	0	1	15985	825	29	2		2	TMC5	16	19501870	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	17372314	19501870	70852883	233	16564										
ACSM1	116285	broad.mit.edu	37	chr16	20693760	20693760	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atgtctttggccttcaacagGatggtcgcaggaatgaagat	12	7	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr16:20693760G>A	uc002dhm.1	-	3	497	c.429C>T	c.(427-429)ATC>ATT	p.I143I	ACSM1_uc002dhn.1_RNA|ACSM1_uc010bwg.1_Silent_p.I143I	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	143					benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						CCTTCAACAGGATGGTCGCAG	0.463													8	19	---	---	---	---	PASS	A	20693760	A	A	20693760	2	1	42	1	0	0	0	0	0	0	0	1	182	1164	41	2		2	ACSM1	16	20693760	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	1191890	20693760	69660993	234	16565										
DNAH3	55567	broad.mit.edu	37	chr16	21011702	21011702	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cgtatttttgggaaggtggaGaaggaagttgttggtgatgg	18	1	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr16:21011702G>T	uc010vbe.1	-	43	6265	c.6265C>A	c.(6265-6267)CTC>ATC	p.L2089I		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2089	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GGAAGGTGGAGAAGGAAGTTG	0.483													16	37	---	---	---	---	PASS	T	21011702	T	T	21011702	3	4	42	1	0	0	0	0	1	0	0	0	4603	942	33	2	6164	2	DNAH3	16	21011702	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	317942	21011702	69343051	235	16566										
ABCC12	94160	broad.mit.edu	37	chr16	48149466	48149466	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gagctgacggtcggagtagaCagcgcgggccaggctaatcc	16	11	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr16:48149466C>T	uc002efc.1	-	13	2195	c.1849G>A	c.(1849-1851)GTC>ATC	p.V617I	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	617	ABC transporter 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TCGGAGTAGACAGCGCGGGCC	0.627													7	40	---	---	---	---	PASS	T	48149466	T	T	48149466	3	4	42	1	0	0	0	0	1	0	0	0	52	478	17	3	2298	3	ABCC12	16	48149466	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	27137764	48149466	42205287	236	16567										
CDH8	1006	broad.mit.edu	37	chr16	61823381	61823381	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ggtcagtgtgccggtcgatgGaaaacctacaaaacagacac	11	10	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr16:61823381G>T	uc002eog.1	-	8	1535	c.1283C>A	c.(1282-1284)TCC>TAC	p.S428Y	CDH8_uc002eoh.2_Missense_Mutation_p.S197Y	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	428	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		CCGGTCGATGGAAAACCTACA	0.423													14	35	---	---	---	---	PASS	T	61823381	T	T	61823381	3	4	42	1	0	0	0	0	1	0	0	0	3116	1174	41	2	1136	2	CDH8	16	61823381	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	13673915	61823381	28531372	237	16568										
SMPD3	55512	broad.mit.edu	37	chr16	68404963	68404963	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tagccgtgcagctgctctttCaatttggtggctgctcgctt	11	11	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr16:68404963C>T	uc002ewa.2	-	3	1544	c.1122G>A	c.(1120-1122)TTG>TTA	p.L374L	SMPD3_uc010cfe.2_Silent_p.L374L|SMPD3_uc010vlh.1_Silent_p.L374L	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	374	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	GCTGCTCTTTCAATTTGGTGG	0.602													7	25	---	---	---	---	PASS	T	68404963	T	T	68404963	2	4	42	1	0	0	0	0	0	0	0	1	14806	825	29	2		2	SMPD3	16	68404963	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	6581582	68404963	21949790	238	16569										
HYDIN	54768	broad.mit.edu	37	chr16	71220757	71220757	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aacatattgaccaatcccatCtgaacagcccccatggactc	5	15	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr16:71220757C>G	uc002ezr.2	-	2	170	c.42G>C	c.(40-42)CAG>CAC	p.Q14H	HYDIN_uc010cfz.1_5'UTR|HYDIN_uc002ezv.2_Missense_Mutation_p.Q14H|HYDIN_uc010vmc.1_Missense_Mutation_p.Q31H|HYDIN_uc010vmd.1_Missense_Mutation_p.Q41H|HYDIN_uc002ezw.3_Missense_Mutation_p.Q31H	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	14										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CCAATCCCATCTGAACAGCCC	0.378													11	80	---	---	---	---	PASS	G	71220757	G	G	71220757	3	3	42	1	0	0	0	0	1	0	0	0	7467	912	32	2	15672	2	HYDIN	16	71220757	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	2815794	71220757	19133996	239	16570										
PHLPP2	23035	broad.mit.edu	37	chr16	71713410	71713410	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	caacccaagtttattatgggAcaagttcaggcccttcagtt	8	10	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr16:71713410A>T	uc002fax.2	-	6	925	c.919T>A	c.(919-921)TCC>ACC	p.S307T	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Missense_Mutation_p.S307T|PHLPP2_uc002fay.1_Missense_Mutation_p.S307T	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	307	LRR 3.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						TTATTATGGGACAAGTTCAGG	0.383													6	55	---	---	---	---	PASS	T	71713410	T	T	71713410	3	4	42	1	0	0	0	0	1	0	0	0	11855	275	10	5	3104	5	PHLPP2	16	71713410	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	492653	71713410	18641343	240	16571										
OR3A1	4994	broad.mit.edu	37	chr17	3195412	3195412	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgggtcagtgcgttggtgaaAgcacaagcccaggacgcagc	15	10	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:3195412A>G	uc002fvh.1	-	1	465	c.465T>C	c.(463-465)GCT>GCC	p.A155A		NM_002550	NP_002541	P47881	OR3A1_HUMAN	olfactory receptor, family 3, subfamily A,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(2)|central_nervous_system(1)	3						CGTTGGTGAAAGCACAAGCCC	0.577													16	70	---	---	---	---	PASS	G	3195412	G	G	3195412	2	3	42	1	0	0	0	0	0	0	0	1	11037	59	3	5		5	OR3A1	17	3195412	Silent	SNP	A	TCGA-22-5471-01A-01D-1632-08		3195412	77999798	241	16572										
USP6	9098	broad.mit.edu	37	chr17	5035697	5035697	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gggttgccttacagtgagacGgagctgcctcctgtgactgc	14	11	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:5035697G>A	uc002gau.1	+	12	2392	c.162G>A	c.(160-162)ACG>ACA	p.T54T	USP6_uc002gav.1_Silent_p.T54T|USP6_uc010ckz.1_5'UTR|USP6_uc002gaw.2_Silent_p.T115T|uc002gay.1_5'Flank	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	54					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						ACAGTGAGACGGAGCTGCCTC	0.662			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								17	75	---	---	---	---	PASS	A	5035697	A	A	5035697	2	1	42	1	0	0	0	0	0	0	0	1	17083	1103	39	1		1	USP6	17	5035697	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	1840285	5035697	76159513	242	16573										
TP53	7157	broad.mit.edu	37	chr17	7577539	7577539	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gatggtgaggatgggcctccGgttcatgccgcccatgcagg	16	11	1	1	rs121912651		TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:7577539G>A	uc002gim.2	-	7	936	c.742C>T	c.(742-744)CGG>TGG	p.R248W	TP53_uc002gig.1_Missense_Mutation_p.R248W|TP53_uc002gih.2_Missense_Mutation_p.R248W|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R116W|TP53_uc010cng.1_Missense_Mutation_p.R116W|TP53_uc002gii.1_Missense_Mutation_p.R116W|TP53_uc010cnh.1_Missense_Mutation_p.R248W|TP53_uc010cni.1_Missense_Mutation_p.R248W|TP53_uc002gij.2_Missense_Mutation_p.R248W|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R155W|TP53_uc002gio.2_Missense_Mutation_p.R116W	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	248	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		R -> W (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|NR -> KW (in sporadic cancers; somatic mutation).|R -> C (in a sporadic cancer; somatic mutation).|NR -> IP (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R248Q(516)|p.R248W(443)|p.R248L(63)|p.R248P(12)|p.R248G(11)|p.R248R(10)|p.0?(7)|p.N247_R248delNR(2)|p.N247_R248>KW(2)|p.M246_P250delMNRRP(2)|p.R248fs*97(2)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.N247_P250delNRRP(1)|p.R248C(1)|p.G245fs*14(1)|p.N247_R248>IP(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)		ATGGGCCTCCGGTTCATGCCG	0.577	R248W(CAS1_CENTRAL_NERVOUS_SYSTEM)|R248W(COLO680N_OESOPHAGUS)|R248W(SW837_LARGE_INTESTINE)|R248W(KO52_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248W(RD_SOFT_TISSUE)|R248W(VCAP_PROSTATE)|R248W(JIMT1_BREAST)|R248W(GCT_SOFT_TISSUE)|R248W(DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248W(786O_KIDNEY)|R248W(COLO320_LARGE_INTESTINE)|R248W(LXF289_LUNG)|R248W(LUDLU1_LUNG)|R248W(MIAPACA2_PANCREAS)|R248W(HCC2157_BREAST)	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)			14	8	---	---	---	---	PASS	A	7577539	A	A	7577539	3	1	42	1	0	0	0	0	1	0	0	0	16378	1115	39	1	548	1	TP53	17	7577539	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	2541842	7577539	73617671	243	16574										
DNAH2	146754	broad.mit.edu	37	chr17	7696114	7696114	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agacctccatcgcccagagcGttctgcagtccctgccctcc	8	19	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:7696114G>C	uc002giu.1	+	46	7299	c.7285G>C	c.(7285-7287)GTT>CTT	p.V2429L		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2429	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CGCCCAGAGCGTTCTGCAGTC	0.632													9	26	---	---	---	---	PASS	C	7696114	C	C	7696114	3	2	42	1	0	0	0	0	1	0	0	0	4602	1145	40	4	7467	4	DNAH2	17	7696114	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	118575	7696114	73499096	244	16575										
TRIM16	10626	broad.mit.edu	37	chr17	15516031	15516031	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccaccttcgttctcaacttcCacttcggatgtttcacacgc	5	16	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:15516031C>T	uc002gor.1	-	11	2373	c.2036G>A	c.(2035-2037)TGG>TAG	p.W679*	CDRT1_uc002gov.3_Nonsense_Mutation_p.W369*			O95361	TRI16_HUMAN	SubName: Full=Putative uncharacterized protein; Flags: Fragment;	Error:Variant_position_missing_in_O95361_after_alignment					histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		TCTCAACTTCCACTTCGGATG	0.463													26	161	---	---	---	---	PASS	T	15516031	T	T	15516031	4	4	42	1	0	0	0	0	0	1	0	0	16488	595	21	3		3	TRIM16	17	15516031	Nonsense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	7819917	15516031	65679179	245	16576										
NF1	4763	broad.mit.edu	37	chr17	29486068	29486068	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgaaaaaaatttatatctctCtcagttgattatattggata	5	4	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:29486068C>G	uc002hgg.2	+	3	578	c.245C>G	c.(244-246)TCT>TGT	p.S82C	NF1_uc002hge.1_Missense_Mutation_p.S82C|NF1_uc002hgf.1_Missense_Mutation_p.S82C|NF1_uc002hgh.2_Missense_Mutation_p.S82C|NF1_uc010csn.1_5'UTR	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	82			S -> F (in NF1).		actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.0?(5)|p.?(4)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TTATATCTCTCTCAGTTGATT	0.328			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			3	53	---	---	---	---	PASS	G	29486068	G	G	29486068	3	3	42	1	0	0	0	0	1	0	0	0	10356	913	32	2	255	2	NF1	17	29486068	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	13970037	29486068	51709142	246	16577										
RHOT1	55288	broad.mit.edu	37	chr17	30519306	30519306	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	actctcaatgatgctgaactCaacttctttcaggtaatggt	7	9	4	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:30519306C>A	uc002hgz.2	+	9	866	c.627C>A	c.(625-627)CTC>CTA	p.L209L	RHOT1_uc002hgw.2_Silent_p.L209L|RHOT1_uc002hgy.2_Silent_p.L209L|RHOT1_uc002hha.2_Silent_p.L82L|RHOT1_uc010csv.2_RNA|RHOT1_uc002hgx.2_Silent_p.L82L|RHOT1_uc010wby.1_Silent_p.L209L|RHOT1_uc002hhb.2_Silent_p.L188L|RHOT1_uc002hgv.2_Silent_p.L209L	NM_018307	NP_060777	Q8IXI2	MIRO1_HUMAN	ras homolog gene family, member T1 isoform 3	209	EF-hand 1.|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(56;0.0255)|Breast(31;0.116)|Ovarian(249;0.182)				ATGCTGAACTCAACTTCTTTC	0.299													8	56	---	---	---	---	PASS	A	30519306	A	A	30519306	2	1	42	1	0	0	0	0	0	0	0	1	13343	813	29	2		2	RHOT1	17	30519306	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	1033238	30519306	50675904	247	16578										
IKZF3	22806	broad.mit.edu	37	chr17	37947744	37947744	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gcagaggtgacacttaaaagGtttttcccctgtgtgcagtt	11	8	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:37947744G>A	uc002hsu.2	-	5	579	c.517C>T	c.(517-519)CCT>TCT	p.P173S	IKZF3_uc002htd.2_Missense_Mutation_p.P139S|IKZF3_uc010cwd.2_Intron|IKZF3_uc002hsv.2_Missense_Mutation_p.P139S|IKZF3_uc010cwe.2_Intron|IKZF3_uc010cwf.2_Intron|IKZF3_uc010cwg.2_Intron|IKZF3_uc002hsw.2_Missense_Mutation_p.P173S|IKZF3_uc002hsx.2_Intron|IKZF3_uc002hsy.2_Missense_Mutation_p.P173S|IKZF3_uc002hsz.2_Intron|IKZF3_uc002hta.2_Missense_Mutation_p.P173S|IKZF3_uc002htb.2_RNA|IKZF3_uc010cwh.2_Missense_Mutation_p.P86S|IKZF3_uc002htc.2_Intron	NM_012481	NP_036613	Q9UKT9	IKZF3_HUMAN	aiolos isoform 1	173					B cell activation|mesoderm development|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)|kidney(2)|skin(2)	6	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CACTTAAAAGGTTTTTCCCCT	0.458													23	135	---	---	---	---	PASS	A	37947744	A	A	37947744	3	1	42	1	0	0	0	0	1	0	0	0	7616	1261	44	3	1028	3	IKZF3	17	37947744	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	7428438	37947744	43247466	248	16579										
KRTAP1-3	81850	broad.mit.edu	37	chr17	39190888	39190888	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ctggtctcacagcagcttggCtggcagcaactggagctgca	13	12	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:39190888C>A	uc002hvv.2	-	1	220	c.186G>T	c.(184-186)CAG>CAT	p.Q62H		NM_030966	NP_112228	Q8IUG1	KRA13_HUMAN	keratin associated protein 1-3	72			Missing (in allele KAP1.9).			extracellular region|keratin filament	structural constituent of epidermis				0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			AGCAGCTTGGCTGGCAGCAAC	0.612													17	54	---	---	---	---	PASS	A	39190888	A	A	39190888	3	1	42	1	0	0	0	0	1	0	0	0	8503	796	28	3	321	3	KRTAP1-3	17	39190888	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	1243144	39190888	42004322	249	16580										
KCNH4	23415	broad.mit.edu	37	chr17	40318470	40318470	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atagggcccgcaggcagcccCtgctcgctgccccgaacaac	11	18	0	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:40318470C>A	uc002hzb.2	-	10	2018	c.1685G>T	c.(1684-1686)AGG>ATG	p.R562M		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	562	Cytoplasmic (Potential).|cNMP.				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)		CAGGCAGCCCCTGCTCGCTGC	0.607													7	28	---	---	---	---	PASS	A	40318470	A	A	40318470	3	1	42	1	0	0	0	0	1	0	0	0	8034	681	24	3	1396	3	KCNH4	17	40318470	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	1127582	40318470	40876740	250	16581										
SPATA20	64847	broad.mit.edu	37	chr17	48631635	48631635	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aggatggagcagagcccagcGccaattccgtgtcagcccac	12	14	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:48631635G>A	uc002irf.2	+	14	2074	c.1933G>A	c.(1933-1935)GCC>ACC	p.A645T	SPATA20_uc002irc.2_Missense_Mutation_p.A312T|SPATA20_uc002ire.2_Missense_Mutation_p.A601T|SPATA20_uc002ird.2_Missense_Mutation_p.A661T|SPATA20_uc002irg.2_RNA	NM_022827	NP_073738	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	645					cell differentiation|mannose metabolic process|multicellular organismal development|spermatogenesis	extracellular region	mannose-6-phosphate isomerase activity|protein binding				0	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			AGAGCCCAGCGCCAATTCCGT	0.612													3	30	---	---	---	---	PASS	A	48631635	A	A	48631635	3	1	42	1	0	0	0	0	1	0	0	0	15005	1087	38	1	2039	1	SPATA20	17	48631635	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	8313165	48631635	32563575	251	16582										
RNF43	54894	broad.mit.edu	37	chr17	56435050	56435050	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtccacagatcaaggggtgtGcctctggggaccaaggatat	14	9	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:56435050G>A	uc002iwf.2	-	8	4043	c.2087C>T	c.(2086-2088)GCA>GTA	p.A696V	RNF43_uc010wnv.1_Missense_Mutation_p.A655V|RNF43_uc002iwh.3_Missense_Mutation_p.A696V|RNF43_uc002iwg.3_Missense_Mutation_p.A696V|RNF43_uc010dcw.2_Missense_Mutation_p.A569V	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	696	Pro-rich.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CAAGGGGTGTGCCTCTGGGGA	0.592													33	89	---	---	---	---	PASS	A	56435050	A	A	56435050	3	1	42	1	0	0	0	0	1	0	0	0	13495	1319	46	3	272	3	RNF43	17	56435050	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	7803415	56435050	24760160	252	16583										
BCAS3	54828	broad.mit.edu	37	chr17	59112076	59112076	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccagcaaatcgatgggcggaGaattttgtgtggctgctatc	13	8	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:59112076G>T	uc002iyv.3	+	18	1841	c.1732G>T	c.(1732-1734)GAA>TAA	p.E578*	BCAS3_uc010wow.1_Nonsense_Mutation_p.E350*|BCAS3_uc002iyu.3_Nonsense_Mutation_p.E563*|BCAS3_uc002iyw.3_Nonsense_Mutation_p.E559*|BCAS3_uc002iyy.3_Nonsense_Mutation_p.E334*|BCAS3_uc002iyz.3_Nonsense_Mutation_p.E132*|BCAS3_uc002iza.3_Nonsense_Mutation_p.E117*	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	578						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)			GATGGGCGGAGAATTTTGTGT	0.338													25	53	---	---	---	---	PASS	T	59112076	T	T	59112076	4	4	42	1	0	0	0	0	0	1	0	0	1352	943	33	2	1798	2	BCAS3	17	59112076	Nonsense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	2677026	59112076	22083134	253	16584										
KCNH6	81033	broad.mit.edu	37	chr17	61607532	61607532	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tcatgttcattctcaacttcGaggacctggcccagctcctg	8	14	3	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:61607532G>A	uc002jay.2	+	3	468	c.388G>A	c.(388-390)GAG>AAG	p.E130K	KCNH6_uc002jax.1_Missense_Mutation_p.E130K|KCNH6_uc010wpl.1_Missense_Mutation_p.E7K|KCNH6_uc010wpm.1_Missense_Mutation_p.E130K|KCNH6_uc002jaz.1_Missense_Mutation_p.E130K	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	130	PAC.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	TCTCAACTTCGAGGACCTGGC	0.622													24	37	---	---	---	---	PASS	A	61607532	A	A	61607532	3	1	42	1	0	0	0	0	1	0	0	0	8036	1059	37	2	398	2	KCNH6	17	61607532	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	2495456	61607532	19587678	254	16585										
CCDC47	57003	broad.mit.edu	37	chr17	61838333	61838333	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	attcagtaagtcttgtctctTgaggaactgaaaaaaatgag	9	5	3	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:61838333T>A	uc002jbs.3	-	6	1012	c.676A>T	c.(676-678)AAG>TAG	p.K226*	CCDC47_uc010ddx.2_Nonsense_Mutation_p.K226*|CCDC47_uc002jbt.2_Nonsense_Mutation_p.K226*	NM_020198	NP_064583	Q96A33	CCD47_HUMAN	coiled-coil domain containing 47 precursor	226						integral to membrane	protein binding				0						TCTTGTCTCTTGAGGAACTGA	0.398													4	17	---	---	---	---	PASS	A	61838333	A	A	61838333	4	1	42	1	0	0	0	0	0	1	0	0	2818	1821	63	5	807	5	CCDC47	17	61838333	Nonsense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	230801	61838333	19356877	255	16586										
FASN	2194	broad.mit.edu	37	chr17	80044224	80044224	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccaggaggccgctgagcagaGggtcctctggcagcttgggc	17	12	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr17:80044224G>A	uc002kdu.2	-	22	3755	c.3638C>T	c.(3637-3639)CCT>CTT	p.P1213L	FASN_uc002kdw.1_Missense_Mutation_p.P429L	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	1213					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)	GCTGAGCAGAGGGTCCTCTGG	0.662													4	7	---	---	---	---	PASS	A	80044224	A	A	80044224	3	1	42	1	0	0	0	0	1	0	0	0	5683	1000	35	3	3985	3	FASN	17	80044224	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	18205891	80044224	1150986	256	16587										
KCTD1	284252	broad.mit.edu	37	chr18	24035721	24035721	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtccatttagtccagaggctCttgctttatccggatgacgg	11	10	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr18:24035721C>T	uc002kvw.2	-	5	1320	c.760G>A	c.(760-762)GAG>AAG	p.E254K	KCTD1_uc010xbj.1_Missense_Mutation_p.E862K|KCTD1_uc010xbk.1_Missense_Mutation_p.E254K|KCTD1_uc002kvy.2_3'UTR	NM_001136205	NP_001129677	Q719H9	KCTD1_HUMAN	potassium channel tetramerisation domain	254					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)			TCCAGAGGCTCTTGCTTTATC	0.498													167	107	---	---	---	---	PASS	T	24035721	T	T	24035721	3	4	42	1	0	0	0	0	1	0	0	0	8096	922	32	2	17	2	KCTD1	18	24035721	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08		24035721	54041527	257	16588										
MYO5B	4645	broad.mit.edu	37	chr18	47431074	47431074	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tctccgcacaaacatggcccGggtgaaggcctggataacaa	11	12	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr18:47431074G>A	uc002leb.2	-	20	2827	c.2539C>T	c.(2539-2541)CGG>TGG	p.R847W	MYO5B_uc002lea.2_5'Flank	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	847	IQ 3.|Arg-rich.|IQ 4.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		AACATGGCCCGGGTGAAGGCC	0.587													4	44	---	---	---	---	PASS	A	47431074	A	A	47431074	3	1	42	1	0	0	0	0	1	0	0	0	10079	1115	39	1	3091	1	MYO5B	18	47431074	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	23395353	47431074	30646174	258	16589										
ST8SIA3	51046	broad.mit.edu	37	chr18	55020255	55020255	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	acatgttccacgcgggattcCggtgagtgcgggcctctgtg	15	11	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr18:55020255C>A	uc002lgn.2	+	1	535	c.178C>A	c.(178-180)CGG>AGG	p.R60R		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	60	Lumenal (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		CGCGGGATTCCGGTGAGTGCG	0.597													3	16	---	---	---	---	PASS	A	55020255	A	A	55020255	2	1	42	1	0	0	0	0	0	0	0	1	15232	666	23	1		1	ST8SIA3	18	55020255	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	7589181	55020255	23056993	259	16590										
NETO1	81832	broad.mit.edu	37	chr18	70417720	70417720	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	caaagtctgatttcctttggAcatactttttacgaggctgt	8	8	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr18:70417720A>T	uc002lkw.2	-	9	1402	c.1118T>A	c.(1117-1119)GTC>GAC	p.V373D	NETO1_uc002lkx.1_Missense_Mutation_p.V372D|NETO1_uc002lky.1_Missense_Mutation_p.V373D	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	373	Cytoplasmic (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		TTTCCTTTGGACATACTTTTT	0.453													8	43	---	---	---	---	PASS	T	70417720	T	T	70417720	3	4	42	1	0	0	0	0	1	0	0	0	10339	275	10	5	491	5	NETO1	18	70417720	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	15397465	70417720	7659528	260	16591										
LPPR3	79948	broad.mit.edu	37	chr19	814740	814740	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agcgtggcgtgctgggacggGaaggtcttcctgtaagaggc	18	8	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:814740G>T	uc002lpx.1	-	6	673	c.609C>A	c.(607-609)TTC>TTA	p.F203L	LPPR3_uc010dru.1_Missense_Mutation_p.F115L|LPPR3_uc002lpw.1_Missense_Mutation_p.F203L|LPPR3_uc002lpy.1_5'UTR	NM_024888	NP_079164	Q6T4P5	LPPR3_HUMAN	plasticity-related protein 2	203						integral to membrane	phosphatidate phosphatase activity				0						GCTGGGACGGGAAGGTCTTCC	0.672													10	7	---	---	---	---	PASS	T	814740	T	T	814740	3	4	42	1	0	0	0	0	1	0	0	0	8926	1165	41	2	1639	2	LPPR3	19	814740	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08		814740	58314243	261	16592										
TYK2	7297	broad.mit.edu	37	chr19	10476261	10476261	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agtgcctgtcaccagcacctCgtgggttgggggcccagcag	15	13	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:10476261C>T	uc002moc.3	-	7	1321	c.943G>A	c.(943-945)GAG>AAG	p.E315K	TYK2_uc010dxe.2_Missense_Mutation_p.E130K|TYK2_uc002mod.2_Missense_Mutation_p.E315K	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	315	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			ACCAGCACCTCGTGGGTTGGG	0.682													4	51	---	---	---	---	PASS	T	10476261	T	T	10476261	3	4	42	1	0	0	0	0	1	0	0	0	16807	893	31	2	2696	2	TYK2	19	10476261	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	9661521	10476261	48652722	262	16593										
QTRT1	81890	broad.mit.edu	37	chr19	10822892	10822892	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gggggcctgagcgggggtgaGagcaagtcgcagttctggcg	21	8	1	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:10822892G>A	uc002mpr.2	+	6	727	c.702G>A	c.(700-702)GAG>GAA	p.E234E	DNM2_uc010dxk.2_5'Flank	NM_031209	NP_112486	Q9BXR0	TGT_HUMAN	queuine tRNA-ribosyltransferase 1	234					queuosine biosynthetic process	mitochondrion|nucleus|ribosome	metal ion binding|queuine tRNA-ribosyltransferase activity			skin(1)	1			Epithelial(33;1.55e-05)|all cancers(31;3.42e-05)			GCGGGGGTGAGAGCAAGTCGC	0.617													14	41	---	---	---	---	PASS	A	10822892	A	A	10822892	2	1	42	1	0	0	0	0	0	0	0	1	12885	933	33	2		2	QTRT1	19	10822892	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	346631	10822892	48306091	263	16594										
TNPO2	30000	broad.mit.edu	37	chr19	12813658	12813658	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tgtgttttccagcagtgtctTgggtgtgttgggtcggttaa	15	5	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:12813658T>C	uc002muo.2	-	20	2469	c.2284A>G	c.(2284-2286)AAG>GAG	p.K762E	TNPO2_uc002mup.2_Missense_Mutation_p.K854E|TNPO2_uc002muq.2_Missense_Mutation_p.K762E|TNPO2_uc002mur.2_Missense_Mutation_p.K762E	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	762	HEAT 13.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						AGCAGTGTCTTGGGTGTGTTG	0.607													35	108	---	---	---	---	PASS	C	12813658	C	C	12813658	3	2	42	1	0	0	0	0	1	0	0	0	16333	1821	63	5	429	5	TNPO2	19	12813658	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	1990766	12813658	46315325	264	16595										
NFIX	4784	broad.mit.edu	37	chr19	13136140	13136140	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ctctccaaccccgaccagaaGggcaagatccggcggattga	11	14	1	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:13136140G>A	uc010xmx.1	+	2	410	c.357G>A	c.(355-357)AAG>AAA	p.K119K	NFIX_uc002mwd.2_Silent_p.K111K|NFIX_uc002mwe.2_Silent_p.K103K|NFIX_uc002mwf.2_Silent_p.K114K|NFIX_uc002mwg.1_Silent_p.K110K			Q14938	NFIX_HUMAN	RecName: Full=Nuclear factor 1;	111	CTF/NF-I.				DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			breast(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(19;8.2e-22)			CCGACCAGAAGGGCAAGATCC	0.617													17	20	---	---	---	---	PASS	A	13136140	A	A	13136140	2	1	42	1	0	0	0	0	0	0	0	1	10374	991	35	3		3	NFIX	19	13136140	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	322482	13136140	45992843	265	16596										
LPHN1	22859	broad.mit.edu	37	chr19	14263176	14263176	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	aagcccactgactcggcgatGagggtgttgtagggactggt	16	8	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:14263176G>A	uc010xnn.1	-	22	3905	c.3609C>T	c.(3607-3609)CTC>CTT	p.L1203L	LPHN1_uc010xno.1_Silent_p.L1198L|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	1203	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						ACTCGGCGATGAGGGTGTTGT	0.612													8	60	---	---	---	---	PASS	A	14263176	A	A	14263176	2	1	42	1	0	0	0	0	0	0	0	1	8915	1277	45	2		2	LPHN1	19	14263176	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	1127036	14263176	44865807	266	16597										
NOTCH3	4854	broad.mit.edu	37	chr19	15303038	15303038	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gcagaggaagcgtccatcggGccccactgagcagcgggcac	15	14	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:15303038G>T	uc002nan.2	-	4	488	c.412C>A	c.(412-414)CCC>ACC	p.P138T	NOTCH3_uc002nao.1_Missense_Mutation_p.P138T	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	138	Extracellular (Potential).|EGF-like 3.				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CGTCCATCGGGCCCCACTGAG	0.687													3	7	---	---	---	---	PASS	T	15303038	T	T	15303038	3	4	42	1	0	0	0	0	1	0	0	0	10550	1203	42	3	6673	3	NOTCH3	19	15303038	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	1039862	15303038	43825945	267	16598										
GLT25D1	79709	broad.mit.edu	37	chr19	17691562	17691562	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cccgagaaggctgtgcctcgCgtgaggaacctggtggaggc	17	11	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:17691562C>T	uc002nhc.1	+	11	1461	c.1449C>T	c.(1447-1449)CGC>CGT	p.R483R	GLT25D1_uc010eax.1_Silent_p.R211R|GLT25D1_uc010eay.1_Silent_p.R12R	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	483					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0						CTGTGCCTCGCGTGAGGAACC	0.657													15	20	---	---	---	---	PASS	T	17691562	T	T	17691562	2	4	42	1	0	0	0	0	0	0	0	1	6466	755	27	1		1	GLT25D1	19	17691562	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	2388524	17691562	41437421	268	16599										
GLT25D1	79709	broad.mit.edu	37	chr19	17692173	17692173	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agtcccagaagatgcgggagCagcaggcactgagccgtgag	16	10	0	4			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:17692173C>T	uc002nhc.1	+	12	1801	c.1789C>T	c.(1789-1791)CAG>TAG	p.Q597*	GLT25D1_uc010eay.1_Nonsense_Mutation_p.Q126*	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	597					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0						GATGCGGGAGCAGCAGGCACT	0.602													17	40	---	---	---	---	PASS	T	17692173	T	T	17692173	4	4	42	1	0	0	0	0	0	1	0	0	6466	711	25	3	1835	3	GLT25D1	19	17692173	Nonsense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	611	17692173	41436810	269	16600										
GPATCH1	55094	broad.mit.edu	37	chr19	33592443	33592443	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cgttggcaaaattttggatgGattttccttggcttctaaac	9	7	1	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:33592443G>A	uc002nug.1	+	9	1357	c.1043G>A	c.(1042-1044)GGA>GAA	p.G348E		NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	348						catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					ATTTTGGATGGATTTTCCTTG	0.303													7	63	---	---	---	---	PASS	A	33592443	A	A	33592443	3	1	42	1	0	0	0	0	1	0	0	0	6590	1174	41	2	1077	2	GPATCH1	19	33592443	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	15900270	33592443	25536540	270	16601										
NPHS1	4868	broad.mit.edu	37	chr19	36333109	36333109	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cctcgggcacggcagtggagGgtggcagaactggtgctgtc	18	10	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:36333109G>A	uc002oby.2	-	19	2580	c.2580C>T	c.(2578-2580)ACC>ACT	p.T860T	NPHS1_uc010eem.1_5'Flank	NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	860	Ig-like C2-type 8.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGCAGTGGAGGGTGGCAGAAC	0.607													6	7	---	---	---	---	PASS	A	36333109	A	A	36333109	2	1	42	1	0	0	0	0	0	0	0	1	10582	1219	43	3		3	NPHS1	19	36333109	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	2740666	36333109	22795874	271	16602										
ZNF585A	199704	broad.mit.edu	37	chr19	37644505	37644505	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gattatggtcccataatttcTctcctgttggaatacactca	6	10	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:37644505T>A	uc002ofo.1	-	5	527	c.296A>T	c.(295-297)GAG>GTG	p.E99V	ZNF585A_uc002ofm.1_Missense_Mutation_p.E44V|ZNF585A_uc002ofn.1_Missense_Mutation_p.E44V	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	99					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CCATAATTTCTCTCCTGTTGG	0.313													15	137	---	---	---	---	PASS	A	37644505	A	A	37644505	3	1	42	1	0	0	0	0	1	0	0	0	18014	1551	54	5	2017	5	ZNF585A	19	37644505	Missense_Mutation	SNP	T	TCGA-22-5471-01A-01D-1632-08	1311396	37644505	21484478	272	16603										
CYP2A13	1553	broad.mit.edu	37	chr19	41597756	41597756	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtggagcacaaccagcgcacGctggatcccaattccccacg	10	16	0	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:41597756G>T	uc002opt.2	+	5	783	c.774G>T	c.(772-774)ACG>ACT	p.T258T		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	258					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	ACCAGCGCACGCTGGATCCCA	0.587													28	20	---	---	---	---	PASS	T	41597756	T	T	41597756	2	4	42	1	0	0	0	0	0	0	0	1	4161	1074	38	1		1	CYP2A13	19	41597756	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08	3953251	41597756	17531227	273	16604										
ZNF180	7733	broad.mit.edu	37	chr19	44981071	44981071	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	atacggtttctctccagtgtGagttctttgatgtgcaacaa	9	8	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:44981071G>C	uc002ozf.3	-	5	1909	c.1627C>G	c.(1627-1629)CAC>GAC	p.H543D	ZNF180_uc002ozh.3_Missense_Mutation_p.H200D|ZNF180_uc002ozi.3_Missense_Mutation_p.H516D|ZNF180_uc002ozg.3_Missense_Mutation_p.H542D|ZNF180_uc010ejm.2_Missense_Mutation_p.H518D	NM_013256	NP_037388	Q9UJW8	ZN180_HUMAN	zinc finger protein 180	543	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				TCTCCAGTGTGAGTTCTTTGA	0.428													6	83	---	---	---	---	PASS	C	44981071	C	C	44981071	3	2	42	1	0	0	0	0	1	0	0	0	17745	1290	45	2	455	2	ZNF180	19	44981071	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	3383315	44981071	14147912	274	16605										
ZSCAN4	201516	broad.mit.edu	37	chr19	58189579	58189579	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gaacagttcttcgaaaactaCtcgagtaaatgaaaatatta	6	6	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr19:58189579C>A	uc002qpu.2	+	5	1305	c.608C>A	c.(607-609)ACT>AAT	p.T203N		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	203					telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TCGAAAACTACTCGAGTAAAT	0.393													3	32	---	---	---	---	PASS	A	58189579	A	A	58189579	3	1	42	1	0	0	0	0	1	0	0	0	18234	565	20	3	618	3	ZSCAN4	19	58189579	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	13208508	58189579	939404	275	16606										
MYL9	10398	broad.mit.edu	37	chr20	35177629	35177629	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tcacccgcatcctcaaacatGgcgccaaggataaagacgac	8	14	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr20:35177629G>T	uc002xfl.1	+	4	590	c.496G>T	c.(496-498)GGC>TGC	p.G166C	uc002xfk.3_Intron|MYL9_uc002xfm.1_Missense_Mutation_p.G112C	NM_006097	NP_006088	P24844	MYL9_HUMAN	myosin regulatory light chain 9 isoform a	166	EF-hand 3.				axon guidance|muscle contraction|regulation of muscle contraction	cytosol|muscle myosin complex	calcium ion binding|structural constituent of muscle				0	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				CCTCAAACATGGCGCCAAGGA	0.602													5	35	---	---	---	---	PASS	T	35177629	T	T	35177629	3	4	42	1	0	0	0	0	1	0	0	0	10054	1348	47	3	506	3	MYL9	20	35177629	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08		35177629	27847891	276	16607										
GTSF1L	149699	broad.mit.edu	37	chr20	42355044	42355044	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cagatatcggggctgggaagGcagggtgagacctgctgggt	19	7	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr20:42355044G>T	uc002xld.2	-	1	599	c.291C>A	c.(289-291)TGC>TGA	p.C97*	GTSF1L_uc002xlc.2_Intron	NM_176791	NP_789761	Q9H1H1	GTSFL_HUMAN	gametocyte specific factor 1-like isoform 1	97							metal ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			GGCTGGGAAGGCAGGGTGAGA	0.493													14	36	---	---	---	---	PASS	T	42355044	T	T	42355044	4	4	42	1	0	0	0	0	0	1	0	0	6887	1195	42	3	159	3	GTSF1L	20	42355044	Nonsense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	7177415	42355044	20670476	277	16608										
FAM65C	140876	broad.mit.edu	37	chr20	49218870	49218870	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cagccaggctgctctgcaaaCgggcctccagagaggtgggc	15	13	1	1	rs78064464	byFrequency	TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr20:49218870C>A	uc002xvm.2	-	13	1704	c.1386G>T	c.(1384-1386)CCG>CCT	p.P462P	FAM65C_uc010zyt.1_Silent_p.P466P|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Silent_p.P462P	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	462										ovary(2)	2						GCTCTGCAAACGGGCCTCCAG	0.662													6	16	---	---	---	---	PASS	A	49218870	A	A	49218870	2	1	42	1	0	0	0	0	0	0	0	1	5601	523	19	1		1	FAM65C	20	49218870	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	6863826	49218870	13806650	278	16609										
PHACTR3	116154	broad.mit.edu	37	chr20	58381249	58381249	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gatcgagatgaagctttccaAgtaagtggcagcttgcgggc	14	8	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr20:58381249A>C	uc002yau.2	+	8	1795	c.1328A>C	c.(1327-1329)AAA>ACA	p.K443T	PHACTR3_uc002yat.2_Missense_Mutation_p.K440T|PHACTR3_uc010zzw.1_Missense_Mutation_p.K402T|PHACTR3_uc002yav.2_Missense_Mutation_p.K402T|PHACTR3_uc002yaw.2_Missense_Mutation_p.K402T|PHACTR3_uc002yax.2_Missense_Mutation_p.K332T	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	443	RPEL 3.|Required for PP1CA binding and inhibition of PP1 activity.					nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			AAGCTTTCCAAGTAAGTGGCA	0.592													16	32	---	---	---	---	PASS	C	58381249	C	C	58381249	3	2	42	1	0	0	0	0	1	0	0	0	11811	86	3	5	1358	5	PHACTR3	20	58381249	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	9162379	58381249	4644271	279	16610										
KRTAP6-1	337966	broad.mit.edu	37	chr21	31986059	31986059	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccatagccatagccacagagGgagcgggagccatagccata	12	12	0	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr21:31986059G>A	uc002yop.2	-	1	165	c.165C>T	c.(163-165)TCC>TCT	p.S55S	KRTAP20-1_uc011ade.1_5'Flank	NM_181602	NP_853633	Q3LI64	KRA61_HUMAN	keratin associated protein 6-1	55						cytosol|intermediate filament					0						AGCCACAGAGGGAGCGGGAGC	0.582													25	31	---	---	---	---	PASS	A	31986059	A	A	31986059	2	1	42	1	0	0	0	0	0	0	0	1	8569	1219	43	3		3	KRTAP6-1	21	31986059	Silent	SNP	G	TCGA-22-5471-01A-01D-1632-08		31986059	16143836	280	16611										
KRTAP10-3	386682	broad.mit.edu	37	chr21	45978072	45978072	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tggaggcaggggcacagcagGaggggatgggcacacagcag	20	8	0	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr21:45978072G>C	uc002zfj.1	-	1	572	c.527C>G	c.(526-528)TCC>TGC	p.S176C	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198696	NP_941969	P60369	KR103_HUMAN	keratin associated protein 10-3	176	18 X 5 AA repeats of C-C-X(3).			Missing (in Ref. 3; AAI33678).		keratin filament				skin(1)	1						GGCACAGCAGGAGGGGATGGG	0.721													3	40	---	---	---	---	PASS	C	45978072	C	C	45978072	3	2	42	1	0	0	0	0	1	0	0	0	8510	1174	41	2	142	2	KRTAP10-3	21	45978072	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	13992013	45978072	2151823	281	16612										
OSBP2	23762	broad.mit.edu	37	chr22	31289716	31289716	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cttctccaaagaggcagcccGgaaggtaagcaggaccagcc	12	13	1	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chr22:31289716G>A	uc003aiy.1	+	11	2290	c.2186G>A	c.(2185-2187)CGG>CAG	p.R729Q	OSBP2_uc011ala.1_Missense_Mutation_p.R563Q|OSBP2_uc010gwc.1_Missense_Mutation_p.R556Q|OSBP2_uc011alb.1_Missense_Mutation_p.R680Q|OSBP2_uc003aiz.1_Missense_Mutation_p.R728Q|OSBP2_uc003aja.1_Missense_Mutation_p.R362Q|OSBP2_uc011alc.1_Missense_Mutation_p.R471Q|OSBP2_uc003ajb.2_Missense_Mutation_p.R274Q|OSBP2_uc011ald.1_Missense_Mutation_p.R273Q|OSBP2_uc010gwd.1_Missense_Mutation_p.R274Q	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	729					lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						GAGGCAGCCCGGAAGGTAAGC	0.592													11	12	---	---	---	---	PASS	A	31289716	A	A	31289716	3	1	42	1	0	0	0	0	1	0	0	0	11274	1116	39	1	2228	1	OSBP2	22	31289716	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08		31289716	20014850	282	16613										
FAM48B1	100130302	broad.mit.edu	37	chrX	24382663	24382663	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	ccaccaaattcataaaaataGcgccagccattcagttgagg	7	11	2	1			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chrX:24382663G>A	uc011mjx.1	+	1	1786	c.1786G>A	c.(1786-1788)GCG>ACG	p.A596T		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						CATAAAAATAGCGCCAGCCAT	0.557													14	4	---	---	---	---	PASS	A	24382663	A	A	24382663	3	1	42	1	0	0	0	0	1	0	0	0	5573	971	34	3	1788	3	FAM48B1	23	24382663	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08		24382663	130887897	283	16614										
KIF4A	24137	broad.mit.edu	37	chrX	69595965	69595965	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	tatagatgatgaaaaaccagCgggtacagttaatgcgtcaa	10	6	1	3			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chrX:69595965C>A	uc004dyg.2	+	18	2066	c.1939C>A	c.(1939-1941)CGG>AGG	p.R647R	KIF4A_uc010nkw.2_Silent_p.R647R|KIF4A_uc004dyf.1_Silent_p.R647R	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	647	Potential.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						GAAAAACCAGCGGGTACAGTT	0.363													20	6	---	---	---	---	PASS	A	69595965	A	A	69595965	2	1	42	1	0	0	0	0	0	0	0	1	8303	759	27	1		1	KIF4A	23	69595965	Silent	SNP	C	TCGA-22-5471-01A-01D-1632-08	45213302	69595965	85674595	284	16615										
POU3F4	5456	broad.mit.edu	37	chrX	82763715	82763715	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	cccgtctatcacgtcaagcgGccaacccctcaacgtgtact	7	17	4	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chrX:82763715G>T	uc004eeg.2	+	1	447	c.383G>T	c.(382-384)GGC>GTC	p.G128V		NM_000307	NP_000298	P49335	PO3F4_HUMAN	POU domain, class 3, transcription factor 4	128					sensory perception of sound	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						ACGTCAAGCGGCCAACCCCTC	0.667													3	13	---	---	---	---	PASS	T	82763715	T	T	82763715	3	4	42	1	0	0	0	0	1	0	0	0	12277	1203	42	3	385	3	POU3F4	23	82763715	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	13167750	82763715	72506845	285	16616										
KLHL4	56062	broad.mit.edu	37	chrX	86773098	86773098	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gactgaagaaaagcaacagtCctgtccaccacaatatactg	7	11	0	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chrX:86773098C>A	uc004efb.2	+	1	384	c.202C>A	c.(202-204)CCT>ACT	p.P68T	KLHL4_uc004efa.2_Missense_Mutation_p.P68T	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	68						cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						AAGCAACAGTCCTGTCCACCA	0.517													15	12	---	---	---	---	PASS	A	86773098	A	A	86773098	3	1	42	1	0	0	0	0	1	0	0	0	8391	855	30	2	204	2	KLHL4	23	86773098	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	4009383	86773098	68497462	286	16617										
TGIF2LX	90316	broad.mit.edu	37	chrX	89177805	89177805	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agaagaagcaagagcctaatCcatgattgatgatgttccaa	9	7	0	6			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chrX:89177805C>A	uc004efe.2	+	2	770	c.721C>A	c.(721-723)CCA>ACA	p.P241T		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	241						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						AGAGCCTAATCCATGATTGAT	0.463													22	12	---	---	---	---	PASS	A	89177805	A	A	89177805	3	1	42	1	0	0	0	0	1	0	0	0	15824	855	30	2	723	2	TGIF2LX	23	89177805	Missense_Mutation	SNP	C	TCGA-22-5471-01A-01D-1632-08	2404707	89177805	66092755	287	16618										
SERPINA7	6906	broad.mit.edu	37	chrX	105279133	105279133	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	gtaagcggttccacttcttcAgtgttttagatgacatggca	10	8	2	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chrX:105279133A>T	uc004eme.1	-	2	882	c.866T>A	c.(865-867)CTG>CAG	p.L289Q	SERPINA7_uc010npd.2_Missense_Mutation_p.L289Q|SERPINA7_uc010npe.1_Missense_Mutation_p.L289Q	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	289					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	CCACTTCTTCAGTGTTTTAGA	0.483													7	118	---	---	---	---	PASS	T	105279133	T	T	105279133	3	4	42	1	0	0	0	0	1	0	0	0	14094	188	7	5	393	5	SERPINA7	23	105279133	Missense_Mutation	SNP	A	TCGA-22-5471-01A-01D-1632-08	16101328	105279133	49991427	288	16619										
HTR2C	3358	broad.mit.edu	37	chrX	114082653	114082653	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agcgtccatcatgcacctctGcgctatatcgctggatcggt	10	13	2	0			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chrX:114082653G>C	uc004epu.1	+	5	1165	c.437G>C	c.(436-438)TGC>TCC	p.C146S	HTR2C_uc010nqc.1_Missense_Mutation_p.C146S|HTR2C_uc004epv.1_Missense_Mutation_p.C146S	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	146	Helical; Name=3; (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	ATGCACCTCTGCGCTATATCG	0.428													42	27	---	---	---	---	PASS	C	114082653	C	C	114082653	3	2	42	1	0	0	0	0	1	0	0	0	7443	1319	46	4	447	4	HTR2C	23	114082653	Missense_Mutation	SNP	G	TCGA-22-5471-01A-01D-1632-08	8803520	114082653	41187907	289	16620										
CDR1	1038	broad.mit.edu	37	chrX	139866289	139866289	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114982578397213	33	0.00279014866413126	1.71979557190352	3.08091720100362	1.25701421800948	0.655348339710437	0.925645401874291	14	agactatccatgtcttccagAaaatccttgtcttccctcaa	4	13	3	2			TCGA-22-5471-01A-01D-1632-08	TCGA-22-5471-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	665e98bf-6163-4d18-9665-ba93df9ecf6d	990eb8d9-536a-4d31-a8fa-5346b6076477	g.chrX:139866289A>G	uc004fbg.1	-	1	435	c.243T>C	c.(241-243)TTT>TTC	p.F81F	uc004fbf.1_RNA	NM_004065	NP_004056	P51861	CDR1_HUMAN	cerebellar degeneration-related protein 1,	81	23 X 6 AA approximate repeats.|14.										0	Acute lymphoblastic leukemia(192;7.65e-05)	Lung SC(4;0.051)				TGTCTTCCAGAAAATCCTTGT	0.463													4	68	---	---	---	---	PASS	G	139866289	G	G	139866289	2	3	42	1	0	0	0	0	0	0	0	1	3171	243	9	5		5	CDR1	23	139866289	Silent	SNP	A	TCGA-22-5471-01A-01D-1632-08	25783636	139866289	15404271	290	16621										
CHD5	26038	broad.mit.edu	37	chr1	6196587	6196587	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggtgactcacttgaacctctCtggagtcaggaagttgagga	13	8	3	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:6196587C>A	uc001amb.1	-	17	2786	c.2686G>T	c.(2686-2688)GAG>TAG	p.E896*	CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA|CHD5_uc009vlx.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	896	Helicase ATP-binding.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		TTGAACCTCTCTGGAGTCAGG	0.552													22	69	---	---	---	---	PASS	A	6196587	A	A	6196587	4	1	43	1	0	0	0	0	0	1	0	0	3328	922	32	2	3278	2	CHD5	1	6196587	Nonsense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08		6196587	243054034	1	16622										
NOL9	79707	broad.mit.edu	37	chr1	6592774	6592774	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cggaactgaaccacgtggctGggagacagcaatcggatcag	14	10	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:6592774G>T	uc001ans.2	-	8	1303	c.1284C>A	c.(1282-1284)CCC>CCA	p.P428P	NOL9_uc010nzs.1_RNA	NM_024654	NP_078930	Q5SY16	NOL9_HUMAN	nucleolar protein 9	428					maturation of 5.8S rRNA	nucleolus	ATP binding|polynucleotide 5'-hydroxyl-kinase activity|RNA binding			skin(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;2.46e-35)|all_epithelial(116;1.41e-22)|all_lung(118;7.59e-07)|Lung NSC(185;4.28e-06)|Colorectal(325;4.52e-05)|Breast(487;0.000353)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.47e-07)|COAD - Colon adenocarcinoma(227;1.47e-05)|Kidney(185;5.27e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|BRCA - Breast invasive adenocarcinoma(365;0.00113)|STAD - Stomach adenocarcinoma(132;0.0017)|READ - Rectum adenocarcinoma(331;0.0649)		CCACGTGGCTGGGAGACAGCA	0.502													17	32	---	---	---	---	PASS	T	6592774	T	T	6592774	2	4	43	1	0	0	0	0	0	0	0	1	10528	1335	47	3		3	NOL9	1	6592774	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	396187	6592774	242657847	2	16623										
ZBTB48	3104	broad.mit.edu	37	chr1	6648820	6648820	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gttctccctcttgcagccgtGgagcaactgcgtgtgcacgt	12	13	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:6648820G>T	uc009vmc.1	+	10	1809	c.1686G>T	c.(1684-1686)GTG>GTT	p.V562V	ZBTB48_uc001anx.2_Silent_p.V562V|ZBTB48_uc009vmd.1_Silent_p.V562V|ZBTB48_uc001any.1_Silent_p.V200V	NM_005341	NP_005332	P10074	ZBT48_HUMAN	zinc finger and BTB domain containing 48	562	C2H2-type 10.					cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.35e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00109)|STAD - Stomach adenocarcinoma(132;0.017)|READ - Rectum adenocarcinoma(331;0.0642)		TTGCAGCCGTGGAGCAACTGC	0.632													12	21	---	---	---	---	PASS	T	6648820	T	T	6648820	2	4	43	1	0	0	0	0	0	0	0	1	17546	1335	47	3		3	ZBTB48	1	6648820	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	56046	6648820	242601801	3	16624										
SLC45A1	50651	broad.mit.edu	37	chr1	8390781	8390781	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcttcccccgggcccccgacGgcttctaccgccaggaccgt	11	20	1	0	rs139151699	byFrequency	TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:8390781G>A	uc001apb.2	+	4	1228	c.1228G>A	c.(1228-1230)GGC>AGC	p.G410S	SLC45A1_uc001apc.2_Missense_Mutation_p.G108S	NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	410					carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		GGCCCCCGACGGCTTCTACCG	0.682													11	26	---	---	---	---	PASS	A	8390781	A	A	8390781	3	1	43	1	0	0	0	0	1	0	0	0	14640	1116	39	1	1242	1	SLC45A1	1	8390781	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1741961	8390781	240859840	4	16625										
CLSTN1	22883	broad.mit.edu	37	chr1	9791886	9791886	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aaggagcggtgttccgggtgCacgaactgtggctgggcagc	18	9	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:9791886C>A	uc001aqh.2	-	17	3255	c.2496G>T	c.(2494-2496)GTG>GTT	p.V832V	CLSTN1_uc001aqi.2_Silent_p.V822V|CLSTN1_uc010oag.1_Silent_p.V813V|CLSTN1_uc001aqf.2_Silent_p.V68V	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	832	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		GTTCCGGGTGCACGAACTGTG	0.592													4	20	---	---	---	---	PASS	A	9791886	A	A	9791886	2	1	43	1	0	0	0	0	0	0	0	1	3561	697	25	3		3	CLSTN1	1	9791886	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	1401105	9791886	239458735	5	16626										
C1orf187	374946	broad.mit.edu	37	chr1	11766571	11766571	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctgtggtcaccgccaccaggCaggcctccaggctgccagag	13	16	1	1	rs41275444		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:11766571C>A	uc001asr.1	+	2	396	c.256C>A	c.(256-258)CAG>AAG	p.Q86K		NM_198545	NP_940947	Q8NBI3	DRAXI_HUMAN	chromosome 1 open reading frame 187 precursor	86					axon guidance|commissural neuron differentiation in spinal cord|dorsal spinal cord development|forebrain development|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region					0	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.48e-06)|COAD - Colon adenocarcinoma(227;0.000283)|BRCA - Breast invasive adenocarcinoma(304;0.000316)|Kidney(185;0.000841)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|STAD - Stomach adenocarcinoma(313;0.00754)|READ - Rectum adenocarcinoma(331;0.0651)		CGCCACCAGGCAGGCCTCCAG	0.711													7	11	---	---	---	---	PASS	A	11766571	A	A	11766571	3	1	43	1	0	0	0	0	1	0	0	0	2021	711	25	3	258	3	C1orf187	1	11766571	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1974685	11766571	237484050	6	16627										
VPS13D	55187	broad.mit.edu	37	chr1	12405431	12405432	+	Frame_Shift_Del	DEL	AC	-	-													0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttctttgttctgcctgacagAcacacccatgacctccggat							TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:12405431_12405432delAC	uc001atv.2	+	43	9027_9028	c.8886_8887delAC	c.(8884-8889)AGACACfs	p.R2962fs	VPS13D_uc001atw.2_Frame_Shift_Del_p.R2937fs|VPS13D_uc001atx.2_Frame_Shift_Del_p.R2149fs	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2961_2962					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TGCCTGACAGACACACCCATGA	0.426													61	35	---	---	---	---		-	12405432	-	-	12405431	7	5	43	1	0	1	0	1	0	0	0	0	17189	289	10	0	9052	0	VPS13D	1	12405431	Frame_Shift_Del	DEL	AC	TCGA-22-5472-01A-01D-1632-08	638860	12405431	236845190	7	16628										
EPHA2	1969	broad.mit.edu	37	chr1	16456843	16456843	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgctgccagcactgcatcatGagctggtagatggcggaggg	16	9	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:16456843G>T	uc001aya.1	-	15	2684	c.2547C>A	c.(2545-2547)CTC>CTA	p.L849L		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	849	Mediates interaction with ARHGEF16 and ELMO2.|Protein kinase.|Cytoplasmic (Potential).				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	ACTGCATCATGAGCTGGTAGA	0.627													8	22	---	---	---	---	PASS	T	16456843	T	T	16456843	2	4	43	1	0	0	0	0	0	0	0	1	5167	1277	45	2		2	EPHA2	1	16456843	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	4051412	16456843	232793778	8	16629										
CROCC	9696	broad.mit.edu	37	chr1	17281810	17281810	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	acctgctgtgctcacaggcaGaagagcttcggacccagctg	12	13	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:17281810G>T	uc001azt.2	+	24	3538	c.3469G>T	c.(3469-3471)GAA>TAA	p.E1157*	CROCC_uc001azu.2_Nonsense_Mutation_p.E460*	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	1157	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		CTCACAGGCAGAAGAGCTTCG	0.697													8	24	---	---	---	---	PASS	T	17281810	T	T	17281810	4	4	43	1	0	0	0	0	0	1	0	0	3893	943	33	2	3563	2	CROCC	1	17281810	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	824967	17281810	231968811	9	16630										
ARHGEF10L	55160	broad.mit.edu	37	chr1	17961049	17961049	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtcttttttcccaggcctgcCaaccacaggtacgtggttca	9	13	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:17961049C>A	uc001ban.2	+	17	1896	c.1737C>A	c.(1735-1737)GCC>GCA	p.A579A	ARHGEF10L_uc009vpe.1_Silent_p.A540A|ARHGEF10L_uc001bao.2_Silent_p.A540A|ARHGEF10L_uc001bap.2_Intron|ARHGEF10L_uc010ocr.1_Silent_p.A337A|ARHGEF10L_uc001baq.2_Intron|ARHGEF10L_uc010ocs.1_Intron|ARHGEF10L_uc001bar.2_Intron|ARHGEF10L_uc009vpf.2_Intron	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	579					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		CCAGGCCTGCCAACCACAGGT	0.453													33	72	---	---	---	---	PASS	A	17961049	A	A	17961049	2	1	43	1	0	0	0	0	0	0	0	1	895	581	21	3		3	ARHGEF10L	1	17961049	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	679239	17961049	231289572	10	16631										
IL22RA1	58985	broad.mit.edu	37	chr1	24448198	24448198	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgctcctggatgaagcgcagCggctggaaagtcaggactcg	15	10	1	1	rs143248338		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:24448198C>A	uc001biq.1	-	7	861	c.822G>T	c.(820-822)CCG>CCT	p.P274P	IL22RA1_uc010oeg.1_Silent_p.P206P|IL22RA1_uc009vrb.1_Silent_p.P138P|IL22RA1_uc010oeh.1_Silent_p.P274P	NM_021258	NP_067081	Q8N6P7	I22R1_HUMAN	interleukin 22 receptor, alpha 1 precursor	274	Cytoplasmic (Potential).					integral to membrane	interferon receptor activity			skin(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000992)|all_lung(284;0.00138)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;3.84e-24)|Colorectal(126;6.43e-08)|COAD - Colon adenocarcinoma(152;3.51e-06)|GBM - Glioblastoma multiforme(114;5.06e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00911)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.148)		TGAAGCGCAGCGGCTGGAAAG	0.607													4	6	---	---	---	---	PASS	A	24448198	A	A	24448198	2	1	43	1	0	0	0	0	0	0	0	1	7673	755	27	1		1	IL22RA1	1	24448198	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	6487149	24448198	224802423	11	16632										
PTPRU	10076	broad.mit.edu	37	chr1	29609253	29609253	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcgggagccaggtggacaggActgcttcccagtgccattga	15	11	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:29609253A>T	uc001bru.2	+	12	2044	c.1934A>T	c.(1933-1935)GAC>GTC	p.D645V	PTPRU_uc001brv.2_Missense_Mutation_p.D645V|PTPRU_uc001brw.2_Missense_Mutation_p.D645V|PTPRU_uc009vtq.2_Missense_Mutation_p.D645V|PTPRU_uc009vtr.2_Missense_Mutation_p.D645V	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	645	Extracellular (Potential).|Fibronectin type-III 4.				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GGTGGACAGGACTGCTTCCCA	0.667													5	30	---	---	---	---	PASS	T	29609253	T	T	29609253	3	4	43	1	0	0	0	0	1	0	0	0	12813	275	10	5	1980	5	PTPRU	1	29609253	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	5161055	29609253	219641368	12	16633										
SNIP1	79753	broad.mit.edu	37	chr1	38006033	38006033	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggtttttctttagcgggcacCtctttttctttgttgttgcc	9	9	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:38006033C>A	uc001cbi.2	-	3	724	c.651G>T	c.(649-651)GAG>GAT	p.E217D	SNIP1_uc010oid.1_RNA	NM_024700	NP_078976	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein	217					production of miRNAs involved in gene silencing by miRNA	nucleus	protein binding	p.E217Q(1)		upper_aerodigestive_tract(1)|lung(1)	2		Myeloproliferative disorder(586;0.0393)				TAGCGGGCACCTCTTTTTCTT	0.532													20	36	---	---	---	---	PASS	A	38006033	A	A	38006033	3	1	43	1	0	0	0	0	1	0	0	0	14848	680	24	3	547	3	SNIP1	1	38006033	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	8396780	38006033	211244588	13	16634										
LEPRE1	64175	broad.mit.edu	37	chr1	43232245	43232245	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	actccagctccatctcttcgCtgagcgagtgggcggccggc	13	15	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:43232245C>A	uc001chv.2	-	1	511	c.398G>T	c.(397-399)AGC>ATC	p.S133I	LEPRE1_uc001chw.2_Missense_Mutation_p.S133I|LEPRE1_uc001chx.3_Missense_Mutation_p.S133I|LEPRE1_uc001chy.3_Missense_Mutation_p.S133I|LEPRE1_uc001chz.2_Missense_Mutation_p.S133I|C1orf50_uc001cia.3_5'Flank	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	133					negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	CATCTCTTCGCTGAGCGAGTG	0.711													4	10	---	---	---	---	PASS	A	43232245	A	A	43232245	3	1	43	1	0	0	0	0	1	0	0	0	8729	797	28	3	1891	3	LEPRE1	1	43232245	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	5226212	43232245	206018376	14	16635										
ZCCHC11	23318	broad.mit.edu	37	chr1	52954643	52954643	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggttctattttgccaagggCagtaagtaaatcagtagtga	11	5	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:52954643C>A	uc001ctx.2	-	9	1687	c.1453G>T	c.(1453-1455)GCC>TCC	p.A485S	ZCCHC11_uc001cty.2_Missense_Mutation_p.A485S|ZCCHC11_uc001ctz.2_Missense_Mutation_p.A485S|ZCCHC11_uc009vze.1_Missense_Mutation_p.A485S|ZCCHC11_uc009vzf.1_Missense_Mutation_p.A244S|ZCCHC11_uc001cub.2_Missense_Mutation_p.A485S|ZCCHC11_uc001cuc.2_RNA	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	485					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						TTGCCAAGGGCAGTAAGTAAA	0.363													18	43	---	---	---	---	PASS	A	52954643	A	A	52954643	3	1	43	1	0	0	0	0	1	0	0	0	17577	710	25	3	3572	3	ZCCHC11	1	52954643	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	9722398	52954643	196295978	15	16636										
TMED5	50999	broad.mit.edu	37	chr1	93621951	93621951	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctgttctcccatattatccAggattaattcaaagaaaatc	4	10	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:93621951A>T	uc001dpn.2	-	3	824	c.377T>A	c.(376-378)CTG>CAG	p.L126Q	TMED5_uc001dpo.2_Missense_Mutation_p.L126Q|TMED5_uc001dpp.2_RNA	NM_016040	NP_057124	Q9Y3A6	TMED5_HUMAN	transmembrane emp24 protein transport domain	126	GOLD.|Lumenal (Potential).				transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|integral to membrane				ovary(1)	1		all_lung(203;0.0223)|Lung NSC(277;0.071)|Melanoma(281;0.147)|Glioma(108;0.188)		all cancers(265;0.00108)|GBM - Glioblastoma multiforme(16;0.00407)|Epithelial(280;0.0797)		CATATTATCCAGGATTAATTC	0.358													29	46	---	---	---	---	PASS	T	93621951	T	T	93621951	3	4	43	1	0	0	0	0	1	0	0	0	16004	188	7	5	373	5	TMED5	1	93621951	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	40667308	93621951	155628670	16	16637										
FNDC7	163479	broad.mit.edu	37	chr1	109265066	109265066	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aattatactgtgatggctttGagcgactcttcagagctgac	10	8	2	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:109265066G>C	uc001dvx.2	+	5	708	c.708G>C	c.(706-708)TTG>TTC	p.L236F	FNDC7_uc010ova.1_Missense_Mutation_p.L3F	NM_001144937	NP_001138409	Q5VTL7	FNDC7_HUMAN	fibronectin type III domain containing 7	237	Fibronectin type-III 3.					extracellular region				ovary(1)|skin(1)	2		all_lung(203;0.00439)|Lung NSC(277;0.00683)|all_epithelial(167;0.00728)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.173)|all cancers(265;0.244)		TGATGGCTTTGAGCGACTCTT	0.468													7	29	---	---	---	---	PASS	C	109265066	C	C	109265066	3	2	43	1	0	0	0	0	1	0	0	0	5973	1281	45	2	726	2	FNDC7	1	109265066	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	15643115	109265066	139985555	17	16638										
RBM15	64783	broad.mit.edu	37	chr1	110884310	110884310	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agcaccagcactgcttcctcCaagctgaagtccccgtccca	7	18	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:110884310C>A	uc001dzl.1	+	1	2366	c.2283C>A	c.(2281-2283)TCC>TCA	p.S761S	RBM15_uc001dzm.1_Silent_p.S761S|uc001dzj.2_5'Flank	NM_022768	NP_073605	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	761					interspecies interaction between organisms	nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		CTGCTTCCTCCAAGCTGAAGT	0.567			T	MKL1	acute megakaryocytic leukemia								11	58	---	---	---	---	PASS	A	110884310	A	A	110884310	2	1	43	1	0	0	0	0	0	0	0	1	13116	581	21	3		3	RBM15	1	110884310	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	1619244	110884310	138366311	18	16639										
LRIG2	9860	broad.mit.edu	37	chr1	113666601	113666601	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caccacaacttcatcaaaatGagggcctggcagggagagag	12	10	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:113666601G>T	uc001edf.1	+	18	3274	c.3076G>T	c.(3076-3078)GAG>TAG	p.E1026*	LRIG2_uc009wgn.1_Nonsense_Mutation_p.E923*	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	1026	Cytoplasmic (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		TCATCAAAATGAGGGCCTGGC	0.502													20	29	---	---	---	---	PASS	T	113666601	T	T	113666601	4	4	43	1	0	0	0	0	0	1	0	0	8945	1291	45	2	3146	2	LRIG2	1	113666601	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	2782291	113666601	135584020	19	16640										
SPAG17	200162	broad.mit.edu	37	chr1	118628604	118628604	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gacgtttagtgttgttccatGgtgggggtagagggaattga	17	3	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:118628604G>T	uc001ehk.2	-	13	1771	c.1703C>A	c.(1702-1704)CCA>CAA	p.P568Q		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	568						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GTTGTTCCATGGTGGGGGTAG	0.403													14	56	---	---	---	---	PASS	T	118628604	T	T	118628604	3	4	43	1	0	0	0	0	1	0	0	0	14979	1348	47	3	5112	3	SPAG17	1	118628604	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	4962003	118628604	130622017	20	16641										
ANKRD35	148741	broad.mit.edu	37	chr1	145558874	145558874	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgatcgcatcgctgggtgggCacgcagctatctgctcacag	13	12	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:145558874C>A	uc001eob.1	+	7	601	c.493C>A	c.(493-495)CAC>AAC	p.H165N	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Missense_Mutation_p.H8N	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	165	ANK 4.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GCTGGGTGGGCACGCAGCTAT	0.562													20	64	---	---	---	---	PASS	A	145558874	A	A	145558874	3	1	43	1	0	0	0	0	1	0	0	0	664	710	25	3	519	3	ANKRD35	1	145558874	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	26930270	145558874	103691747	21	16642										
ADAMTSL4	54507	broad.mit.edu	37	chr1	150530973	150530973	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccgtgcggtgcggccggggcCagagaagccggcaggttcgc	19	13	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:150530973C>A	uc001eux.2	+	15	2643	c.2407C>A	c.(2407-2409)CAG>AAG	p.Q803K	ADAMTSL4_uc001euw.2_Missense_Mutation_p.Q803K|ADAMTSL4_uc009wlw.2_Missense_Mutation_p.Q826K|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.Q764K|ADAMTSL4_uc009wlx.2_5'UTR	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	803	TSP type-1 3.				apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CGGCCGGGGCCAGAGAAGCCG	0.657													14	23	---	---	---	---	PASS	A	150530973	A	A	150530973	3	1	43	1	0	0	0	0	1	0	0	0	277	595	21	3	2457	3	ADAMTSL4	1	150530973	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	4972099	150530973	98719648	22	16643										
LASS2	29956	broad.mit.edu	37	chr1	150939874	150939874	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	accccttcacccacctttcgCttgacatcagaggcaatgct	6	16	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:150939874C>A	uc001evy.2	-	7	993	c.606G>T	c.(604-606)AAG>AAT	p.K202N	LASS2_uc001evz.2_Missense_Mutation_p.K202N|LASS2_uc009wmh.2_Missense_Mutation_p.K52N	NM_181746	NP_859530	Q96G23	CERS2_HUMAN	LAG1 longevity assurance 2	202	TLC.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity				0	all_lung(15;8.07e-35)|Lung NSC(24;7.93e-31)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CCACCTTTCGCTTGACATCAG	0.502													13	27	---	---	---	---	PASS	A	150939874	A	A	150939874	3	1	43	1	0	0	0	0	1	0	0	0	8639	796	28	3	556	3	LASS2	1	150939874	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	408901	150939874	98310747	23	16644										
RPTN	126638	broad.mit.edu	37	chr1	152127910	152127910	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtctgaccgtagtgggaactCtggccttgtctgtctgtctg	13	10	5	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:152127910C>A	uc001ezs.1	-	3	1730	c.1665G>T	c.(1663-1665)CAG>CAT	p.Q555H		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	555	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						AGTGGGAACTCTGGCCTTGTC	0.507													205	417	---	---	---	---	PASS	A	152127910	A	A	152127910	3	1	43	1	0	0	0	0	1	0	0	0	13664	912	32	2	693	2	RPTN	1	152127910	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1188036	152127910	97122711	24	16645										
HRNR	388697	broad.mit.edu	37	chr1	152187517	152187517	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gacccatgttggccgtggctGgaggagtgccccgaaccgga	16	12	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:152187517G>T	uc001ezt.1	-	3	6664	c.6588C>A	c.(6586-6588)TCC>TCA	p.S2196S		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2196	24.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGCCGTGGCTGGAGGAGTGCC	0.632													16	271	---	---	---	---	PASS	T	152187517	T	T	152187517	2	4	43	1	0	0	0	0	0	0	0	1	7359	1335	47	3		3	HRNR	1	152187517	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	59607	152187517	97063104	25	16646										
FLG2	388698	broad.mit.edu	37	chr1	152326015	152326015	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cagatccccttcttccagttGtcctggaccctctctgtgtg	8	15	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:152326015G>T	uc001ezw.3	-	3	4320	c.4247C>A	c.(4246-4248)ACA>AAA	p.T1416K	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1416							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTTCCAGTTGTCCTGGACCC	0.517													5	230	---	---	---	---	PASS	T	152326015	T	T	152326015	3	4	43	1	0	0	0	0	1	0	0	0	5923	1377	48	3	2932	3	FLG2	1	152326015	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	138498	152326015	96924606	26	16647										
NPR1	4881	broad.mit.edu	37	chr1	153658631	153658631	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gctgtgaaacgtgtgaaccgTaaacgcattgagctgacacg	12	9	0	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:153658631T>C	uc001fcs.3	+	10	2134	c.1713T>C	c.(1711-1713)CGT>CGC	p.R571R	NPR1_uc010pdz.1_Silent_p.R317R|NPR1_uc010pea.1_Intron	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	571	Cytoplasmic (Potential).|Protein kinase.				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	GTGTGAACCGTAAACGCATTG	0.557													5	14	---	---	---	---	PASS	C	153658631	C	C	153658631	2	2	43	1	0	0	0	0	0	0	0	1	10594	1625	57	5		5	NPR1	1	153658631	Silent	SNP	T	TCGA-22-5472-01A-01D-1632-08	1332616	153658631	95591990	27	16648										
PBXIP1	57326	broad.mit.edu	37	chr1	154923709	154923709	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggcaaggaagactctcaccTgctttgggggttgaaggcag	15	8	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:154923709T>C	uc001ffr.2	-	5	467	c.408A>G	c.(406-408)GCA>GCG	p.A136A	PBXIP1_uc001ffs.2_Silent_p.A107A|PBXIP1_uc010pep.1_5'UTR|PBXIP1_uc009woy.1_RNA	NM_020524	NP_065385	Q96AQ6	PBIP1_HUMAN	pre-B-cell leukemia homeobox interacting protein	136					cell differentiation|multicellular organismal development|negative regulation of transcription, DNA-dependent	cytosol|microtubule|nucleus	protein binding|transcription corepressor activity			large_intestine(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			GACTCTCACCTGCTTTGGGGG	0.592													7	15	---	---	---	---	PASS	C	154923709	C	C	154923709	2	2	43	1	0	0	0	0	0	0	0	1	11496	1594	55	5		5	PBXIP1	1	154923709	Silent	SNP	T	TCGA-22-5472-01A-01D-1632-08	1265078	154923709	94326912	28	16649										
ARHGEF2	9181	broad.mit.edu	37	chr1	155931687	155931687	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gctgtggtcaggtcctggcgCtcctcctcgatccctggcac	12	16	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:155931687C>A	uc001fmt.2	-	11	1351	c.1233G>T	c.(1231-1233)GAG>GAT	p.E411D	ARHGEF2_uc001fmr.2_Missense_Mutation_p.E383D|ARHGEF2_uc001fms.2_Missense_Mutation_p.E410D|ARHGEF2_uc001fmu.2_Missense_Mutation_p.E455D|ARHGEF2_uc010pgt.1_Missense_Mutation_p.E384D|ARHGEF2_uc010pgu.1_Missense_Mutation_p.E456D	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	411	DH.				actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					GGTCCTGGCGCTCCTCCTCGA	0.587													37	56	---	---	---	---	PASS	A	155931687	A	A	155931687	3	1	43	1	0	0	0	0	1	0	0	0	903	796	28	3	1775	3	ARHGEF2	1	155931687	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1007978	155931687	93318934	29	16650										
FCRL5	83416	broad.mit.edu	37	chr1	157509155	157509155	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gacaggatgagacacgggaaCtgagagagagaaaaaattag	14	4	0	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:157509155C>A	uc001fqu.2	-	7	1282	c.1124_splice	c.e7-1	p.V375_splice	FCRL5_uc009wsm.2_Splice_Site_p.V375_splice|FCRL5_uc010phv.1_Splice_Site_p.V375_splice|FCRL5_uc010phw.1_Splice_Site_p.V290_splice|FCRL5_uc001fqv.1_Splice_Site_p.V375_splice|FCRL5_uc010phx.1_Splice_Site_p.V126_splice	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5							integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				GACACGGGAACTGAGAGAGAG	0.368													12	25	---	---	---	---	PASS	A	157509155	A	A	157509155	5	1	43	1	0	0	0	0	0	0	1	0	5798	579	20	3	1854	3	FCRL5	1	157509155	Splice_Site	SNP	C	TCGA-22-5472-01A-01D-1632-08	1577468	157509155	91741466	30	16651										
CD5L	922	broad.mit.edu	37	chr1	157804231	157804231	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cacgtgtcttcatcatggttGcaggtgttcttcccccaagg	10	12	4	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:157804231G>C	uc001frk.3	-	4	827	c.684C>G	c.(682-684)TGC>TGG	p.C228W		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	228	SRCR 2.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CATCATGGTTGCAGGTGTTCT	0.488													12	29	---	---	---	---	PASS	C	157804231	C	C	157804231	3	2	43	1	0	0	0	0	1	0	0	0	3027	1311	46	4	371	4	CD5L	1	157804231	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	295076	157804231	91446390	31	16652										
FCRLB	127943	broad.mit.edu	37	chr1	161697326	161697326	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cagctgctcaaaggccttctGagccgggtggtcctggaatt	13	11	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:161697326G>T	uc001gbh.2	+	8	1389	c.1155G>T	c.(1153-1155)CTG>CTT	p.L385L	FCRLB_uc009wus.2_Silent_p.L385L|FCRLB_uc001gbj.2_3'UTR|FCRLB_uc001gbk.2_3'UTR|FCRLB_uc001gbl.2_3'UTR|FCRLB_uc001gbm.2_3'UTR|FCRLB_uc001gbi.2_Silent_p.L385L|FCRLB_uc001gbn.3_3'UTR	NM_001002901	NP_001002901	Q6BAA4	FCRLB_HUMAN	Fc receptor-like B	385						endoplasmic reticulum					0	all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00634)			AAGGCCTTCTGAGCCGGGTGG	0.647													17	40	---	---	---	---	PASS	T	161697326	T	T	161697326	2	4	43	1	0	0	0	0	0	0	0	1	5801	1277	45	2		2	FCRLB	1	161697326	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	3893095	161697326	87553295	32	16653										
RASAL2	9462	broad.mit.edu	37	chr1	178427449	178427449	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cacgacaaaatagtactgggCaggcccagatccgaaaagtg	11	10	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:178427449C>T	uc001glr.2	+	12	2724	c.2599C>T	c.(2599-2601)CAG>TAG	p.Q867*	RASAL2_uc001glq.2_Nonsense_Mutation_p.Q1008*|RASAL2_uc009wxc.2_Nonsense_Mutation_p.Q381*	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	867					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						TAGTACTGGGCAGGCCCAGAT	0.552													11	25	---	---	---	---	PASS	T	178427449	T	T	178427449	4	4	43	1	0	0	0	0	0	1	0	0	13064	711	25	3	3114	3	RASAL2	1	178427449	Nonsense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	16730123	178427449	70823172	33	16654										
CEP350	9857	broad.mit.edu	37	chr1	179989506	179989506	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgagtatgatgtgcagcaggCacctcaagaagatggacctt	12	8	1	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:179989506C>A	uc001gnt.2	+	12	2980	c.2597C>A	c.(2596-2598)GCA>GAA	p.A866E	CEP350_uc009wxl.2_Missense_Mutation_p.A865E|CEP350_uc001gnu.2_Missense_Mutation_p.A700E	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	866						centrosome|nucleus|spindle				ovary(4)	4						GTGCAGCAGGCACCTCAAGAA	0.463													40	87	---	---	---	---	PASS	A	179989506	A	A	179989506	3	1	43	1	0	0	0	0	1	0	0	0	3254	710	25	3	2639	3	CEP350	1	179989506	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1562057	179989506	69261115	34	16655										
TEDDM1	127670	broad.mit.edu	37	chr1	182369170	182369170	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctggagatgacacatgttggGagcccacagctctgcagtca	12	11	2	2	rs112817733		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:182369170G>T	uc001gpe.2	-	1	582	c.451C>A	c.(451-453)CCC>ACC	p.P151T		NM_172000	NP_741997	Q5T9Z0	TEDM1_HUMAN	putative membrane protein HE9	151						integral to membrane				ovary(2)	2						CACATGTTGGGAGCCCACAGC	0.507													12	47	---	---	---	---	PASS	T	182369170	T	T	182369170	3	4	43	1	0	0	0	0	1	0	0	0	15746	1174	41	2	374	2	TEDDM1	1	182369170	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	2379664	182369170	66881451	35	16656										
LAMC2	3918	broad.mit.edu	37	chr1	183191274	183191274	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atgggtctcctgcaaagctcCaatggtcacagcgccatcaa	9	13	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:183191274C>A	uc001gqa.2	+	6	1005	c.691C>A	c.(691-693)CAA>AAA	p.Q231K	LAMC2_uc001gpz.3_Missense_Mutation_p.Q231K|LAMC2_uc010poa.1_5'UTR	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	231	Laminin IV type A.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						TGCAAAGCTCCAATGGTCACA	0.468													26	84	---	---	---	---	PASS	A	183191274	A	A	183191274	3	1	43	1	0	0	0	0	1	0	0	0	8615	595	21	3	713	3	LAMC2	1	183191274	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	822104	183191274	66059347	36	16657										
NMNAT2	23057	broad.mit.edu	37	chr1	183255900	183255900	+	Silent	SNP	G	T	T													0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atggaaggtgtgttgacattGgagaggatgcagccagtcac							TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:183255900G>T	uc001gqc.1	-	5	680	c.345C>A	c.(343-345)TCC>TCA	p.S115S	NMNAT2_uc001gqb.1_Silent_p.S110S|NMNAT2_uc001gqd.2_Silent_p.S10S	NM_015039	NP_055854	Q9BZQ4	NMNA2_HUMAN	nicotinamide mononucleotide adenylyltransferase	115					water-soluble vitamin metabolic process	Golgi membrane|nucleus	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity			skin(1)	1						TGTTGACATTGGAGAGGATGC	0.502													13	38	---	---	---	---	PASS	T	183255900	T	T	183255900	2	4	43	1	0	0	0	0	0	0	0	1	10499	1335	47	3		3	NMNAT2	1	183255900	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	64626	183255900	65994721	37	16658	397	2								
NMNAT2	23057	broad.mit.edu	37	chr1	183255901	183255901	+	Missense_Mutation	SNP	G	T	T													0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tggaaggtgtgttgacattgGagaggatgcagccagtcacc							TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:183255901G>T	uc001gqc.1	-	5	679	c.344C>A	c.(343-345)TCC>TAC	p.S115Y	NMNAT2_uc001gqb.1_Missense_Mutation_p.S110Y|NMNAT2_uc001gqd.2_Missense_Mutation_p.S10Y	NM_015039	NP_055854	Q9BZQ4	NMNA2_HUMAN	nicotinamide mononucleotide adenylyltransferase	115					water-soluble vitamin metabolic process	Golgi membrane|nucleus	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity			skin(1)	1						GTTGACATTGGAGAGGATGCA	0.502													13	39	---	---	---	---	PASS	T	183255901	T	T	183255901	3	4	43	1	0	0	0	0	1	0	0	0	10499	1174	41	2	607	2	NMNAT2	1	183255901	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1	183255901	65994720	38	16659	397	2								
C1orf26	54823	broad.mit.edu	37	chr1	185151152	185151152	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctggagagttaatgagtatGgaaattgacttagaagatga	12	3	0	6			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:185151152G>T	uc001grg.3	+	7	1215	c.1101G>T	c.(1099-1101)ATG>ATT	p.M367I	C1orf26_uc001grh.3_Missense_Mutation_p.M367I	NM_001105518	NP_001098988	Q5T5J6	SWT1_HUMAN	hypothetical protein LOC54823	367											0						TAATGAGTATGGAAATTGACT	0.388													10	38	---	---	---	---	PASS	T	185151152	T	T	185151152	3	4	43	1	0	0	0	0	1	0	0	0	2035	1348	47	3	1123	3	C1orf26	1	185151152	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1895251	185151152	64099469	39	16660										
IGFN1	91156	broad.mit.edu	37	chr1	201195181	201195181	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gaataccacttcagggtggtGgccaagaatgagctgggggc	16	8	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:201195181G>T	uc001gwc.2	+	11	2968	c.2196G>T	c.(2194-2196)GTG>GTT	p.V732V	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						TCAGGGTGGTGGCCAAGAATG	0.682													14	27	---	---	---	---	PASS	T	201195181	T	T	201195181	2	4	43	1	0	0	0	0	0	0	0	1	7590	1335	47	3		3	IGFN1	1	201195181	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	16044029	201195181	48055440	40	16661										
DYRK3	8444	broad.mit.edu	37	chr1	206821606	206821606	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcagttcaaccaaggtcattGactttgggtccagctgtttc	10	10	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:206821606G>T	uc001hej.2	+	3	1231	c.1063G>T	c.(1063-1065)GAC>TAC	p.D355Y	DYRK3_uc001hek.2_Intron|DYRK3_uc001hei.2_Missense_Mutation_p.D335Y	NM_003582	NP_003573	O43781	DYRK3_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	355	Protein kinase.				erythrocyte differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|central_nervous_system(1)	3	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			CAAGGTCATTGACTTTGGGTC	0.463													35	68	---	---	---	---	PASS	T	206821606	T	T	206821606	3	4	43	1	0	0	0	0	1	0	0	0	4857	1290	45	2	1094	2	DYRK3	1	206821606	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	5626425	206821606	42429015	41	16662										
YOD1	55432	broad.mit.edu	37	chr1	207222725	207222725	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atttcacattggtaaaacttGgacaaaatcgatatctctat	5	7	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:207222725G>T	uc001hfe.1	-	2	734	c.687C>A	c.(685-687)TCC>TCA	p.S229S	PFKFB2_uc010psc.1_Intron|YOD1_uc001hff.1_Silent_p.S185S	NM_018566	NP_061036	Q5VVQ6	OTU1_HUMAN	YOD1 OTU deubiquinating enzyme 1 homolog	229	OTU.				cellular amino acid metabolic process|endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|protein K48-linked deubiquitination|protein K63-linked deubiquitination	intracellular	protein binding|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1	Prostate(682;0.19)					GGTAAAACTTGGACAAAATCG	0.388													63	124	---	---	---	---	PASS	T	207222725	T	T	207222725	2	4	43	1	0	0	0	0	0	0	0	1	17485	1335	47	3		3	YOD1	1	207222725	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	401119	207222725	42027896	42	16663										
C1orf74	148304	broad.mit.edu	37	chr1	209956842	209956842	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gctggcttcagtccccgggcCacagccagcacctctccagc	10	19	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:209956842C>A	uc001hhp.1	-	2	381	c.138G>T	c.(136-138)GTG>GTT	p.V46V		NM_152485	NP_689698	Q96LT6	CA074_HUMAN	hypothetical protein LOC148304	46										skin(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0328)		GTCCCCGGGCCACAGCCAGCA	0.597													7	85	---	---	---	---	PASS	A	209956842	A	A	209956842	2	1	43	1	0	0	0	0	0	0	0	1	2058	581	21	3		3	C1orf74	1	209956842	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	2734117	209956842	39293779	43	16664										
TRAF5	7188	broad.mit.edu	37	chr1	211527758	211527758	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atttttttctccagagaattAaacacagtgccaatctgccc	5	11	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:211527758A>T	uc001hih.2	+	3	285	c.225A>T	c.(223-225)TTA>TTT	p.L75F	TRAF5_uc001hii.2_Missense_Mutation_p.L75F|TRAF5_uc010psx.1_Missense_Mutation_p.L75F|TRAF5_uc010psy.1_Missense_Mutation_p.L75F|TRAF5_uc001hij.2_Missense_Mutation_p.L75F	NM_004619	NP_004610	O00463	TRAF5_HUMAN	TNF receptor-associated factor 5	75	RING-type.				apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis	CD40 receptor complex|centrosome|internal side of plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|breast(2)|ovary(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00946)|all cancers(67;0.0808)|Epithelial(68;0.144)		CCAGAGAATTAAACACAGTGC	0.458													9	24	---	---	---	---	PASS	T	211527758	T	T	211527758	3	4	43	1	0	0	0	0	1	0	0	0	16441	359	13	5	231	5	TRAF5	1	211527758	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	1570916	211527758	37722863	44	16665										
DTL	51514	broad.mit.edu	37	chr1	212220693	212220693	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gggacgtaaaagctggtgagCtgattggaacatgcaaaggt	15	5	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:212220693C>A	uc009xdc.2	+	5	708	c.394C>A	c.(394-396)CTG>ATG	p.L132M	DTL_uc010ptb.1_Missense_Mutation_p.L90M|DTL_uc001hiz.3_Translation_Start_Site	NM_016448	NP_057532	Q9NZJ0	DTL_HUMAN	denticleless homolog	132	WD 2.				DNA replication|G2/M transition DNA damage checkpoint|protein monoubiquitination|protein polyubiquitination|response to UV|translesion synthesis|ubiquitin-dependent protein catabolic process	centrosome|Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|nuclear membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00796)|all cancers(67;0.0385)|Epithelial(68;0.102)		AGCTGGTGAGCTGATTGGAAC	0.388													50	97	---	---	---	---	PASS	A	212220693	A	A	212220693	3	1	43	1	0	0	0	0	1	0	0	0	4787	796	28	3	412	3	DTL	1	212220693	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	692935	212220693	37029928	45	16666										
USH2A	7399	broad.mit.edu	37	chr1	216251535	216251535	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gctggtctccggactccgatGcatgcttcatcagtccattc	9	14	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:216251535G>C	uc001hku.1	-	27	5855	c.5468C>G	c.(5467-5469)GCA>GGA	p.A1823G		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1823	Laminin G-like 2.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GGACTCCGATGCATGCTTCAT	0.433										HNSCC(13;0.011)			61	114	---	---	---	---	PASS	C	216251535	C	C	216251535	3	2	43	1	0	0	0	0	1	0	0	0	17033	1319	46	4	10324	4	USH2A	1	216251535	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	4030842	216251535	32999086	46	16667										
IARS2	55699	broad.mit.edu	37	chr1	220275535	220275535	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tttattcgttggggaataatGgcagattggaataattgcta	11	3	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:220275535G>T	uc001hmc.2	+	4	719	c.615G>T	c.(613-615)ATG>ATT	p.M205I		NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase	205					isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	GGGGAATAATGGCAGATTGGA	0.308													13	102	---	---	---	---	PASS	T	220275535	T	T	220275535	3	4	43	1	0	0	0	0	1	0	0	0	7474	1348	47	3	629	3	IARS2	1	220275535	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	4024000	220275535	28975086	47	16668										
TRIM67	440730	broad.mit.edu	37	chr1	231337116	231337116	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctttaagatctcagatgctCtgatcaagcgcgtccaggtg	10	11	3	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:231337116C>T	uc009xfn.1	+	5	1429	c.1387C>T	c.(1387-1389)CTG>TTG	p.L463L		NM_001004342	NP_001004342	Q6ZTA4	TRI67_HUMAN	tripartite motif-containing 67	463	COS.					cytoplasm|cytoskeleton	zinc ion binding			ovary(2)|breast(1)|kidney(1)	4	Breast(184;0.0871)	all_cancers(173;0.189)|Prostate(94;0.167)				CTCAGATGCTCTGATCAAGCG	0.522													4	8	---	---	---	---	PASS	T	231337116	T	T	231337116	2	4	43	1	0	0	0	0	0	0	0	1	16537	912	32	2		2	TRIM67	1	231337116	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	11061581	231337116	17913505	48	16669										
RYR2	6262	broad.mit.edu	37	chr1	237948048	237948048	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggatgaggttagaggagatGgggaggagggagagaggaaa	22	0	0	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:237948048G>T	uc001hyl.1	+	90	13156	c.13036G>T	c.(13036-13038)GGG>TGG	p.G4346W	RYR2_uc010pya.1_Missense_Mutation_p.G761W	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4346					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)			TAGAGGAGATGGGGAGGAGGG	0.547													16	44	---	---	---	---	PASS	T	237948048	T	T	237948048	3	4	43	1	0	0	0	0	1	0	0	0	13769	1348	47	3	13394	3	RYR2	1	237948048	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	6610932	237948048	11302573	49	16670										
OR2T1	26696	broad.mit.edu	37	chr1	248569619	248569619	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gatttgcgccttcatacaccCatgtacttcctcctcagcca	5	16	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr1:248569619C>A	uc010pzm.1	+	1	324	c.324C>A	c.(322-324)CCC>CCA	p.P108P		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	108	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTCATACACCCATGTACTTCC	0.428													45	109	---	---	---	---	PASS	A	248569619	A	A	248569619	2	1	43	1	0	0	0	0	0	0	0	1	11016	581	21	3		3	OR2T1	1	248569619	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	10621571	248569619	681002	50	16671										
HADHA	3030	broad.mit.edu	37	chr2	26462001	26462001	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gaagaccctgtaaaattgcgGcatatataacctgtaagaaa	8	7	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:26462001G>T	uc002rgy.2	-	2	208	c.78C>A	c.(76-78)TGC>TGA	p.C26*	HADHA_uc010yks.1_5'UTR|HADHA_uc010ykt.1_5'UTR	NM_000182	NP_000173	P40939	ECHA_HUMAN	mitochondrial trifunctional protein, alpha	26					fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)	TAAAATTGCGGCATATATAAC	0.269													21	64	---	---	---	---	PASS	T	26462001	T	T	26462001	4	4	43	1	0	0	0	0	0	1	0	0	6943	1195	42	3	2289	3	HADHA	2	26462001	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08		26462001	216737372	51	16672										
LTBP1	4052	broad.mit.edu	37	chr2	33413798	33413798	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtctcgtaccaagggcttccTgtccagaagacccagaccat	9	14	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:33413798T>A	uc002ros.2	+	7	1581	c.1581T>A	c.(1579-1581)CCT>CCA	p.P527P	LTBP1_uc002rot.2_Silent_p.P201P|LTBP1_uc002rou.2_Silent_p.P201P|LTBP1_uc002rov.2_Silent_p.P201P|LTBP1_uc010ymz.1_Silent_p.P201P|LTBP1_uc010yna.1_Silent_p.P201P	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	527					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				AAGGGCTTCCTGTCCAGAAGA	0.537													23	57	---	---	---	---	PASS	A	33413798	A	A	33413798	2	1	43	1	0	0	0	0	0	0	0	1	9073	1567	55	5		5	LTBP1	2	33413798	Silent	SNP	T	TCGA-22-5472-01A-01D-1632-08	6951797	33413798	209785575	52	16673										
SPTBN1	6711	broad.mit.edu	37	chr2	54876329	54876329	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggactatgagcatgtcacggCaagtacttgaggcagtgcat	13	8	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:54876329C>T	uc002rxu.2	+	25	5451	c.5202_splice	c.e25+2	p.T1734_splice	SPTBN1_uc002rxx.2_Splice_Site_p.T1721_splice	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1						actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			CATGTCACGGCAAGTACTTGA	0.557													4	17	---	---	---	---	PASS	T	54876329	T	T	54876329	5	4	43	1	0	0	0	0	0	0	1	0	15118	724	25	3	5411	3	SPTBN1	2	54876329	Splice_Site	SNP	C	TCGA-22-5472-01A-01D-1632-08	21462531	54876329	188323044	53	16674										
PNPT1	87178	broad.mit.edu	37	chr2	55920888	55920888	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgagtgcccgatcccgccgtGgcagaaggaaaggaccatcg	14	12	0	2	rs140022349	by1000genomes	TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:55920888G>T	uc002rzf.2	-	1	124	c.71C>A	c.(70-72)CCA>CAA	p.P24Q	PNPT1_uc002rzg.2_RNA	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1	24					mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			ATCCCGCCGTGGCAGAAGGAA	0.647													13	38	---	---	---	---	PASS	T	55920888	T	T	55920888	3	4	43	1	0	0	0	0	1	0	0	0	12173	1348	47	3	2392	3	PNPT1	2	55920888	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1044559	55920888	187278485	54	16675										
PCYOX1	51449	broad.mit.edu	37	chr2	70502272	70502272	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctgttatgagggtcaattatGgccaaagcacggacatcaat	10	8	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:70502272G>T	uc002sgn.3	+	4	742	c.676G>T	c.(676-678)GGC>TGC	p.G226C	PCYOX1_uc010fdo.2_Missense_Mutation_p.G149C|PCYOX1_uc010yqu.1_Missense_Mutation_p.G208C	NM_016297	NP_057381	Q9UHG3	PCYOX_HUMAN	prenylcysteine oxidase 1 precursor	226					prenylated protein catabolic process	lysosome|very-low-density lipoprotein particle	prenylcysteine oxidase activity			central_nervous_system(1)	1						GGTCAATTATGGCCAAAGCAC	0.463													30	81	---	---	---	---	PASS	T	70502272	T	T	70502272	3	4	43	1	0	0	0	0	1	0	0	0	11608	1348	47	3	690	3	PCYOX1	2	70502272	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	14581384	70502272	172697101	55	16676										
ELMOD3	84173	broad.mit.edu	37	chr2	85598601	85598601	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	acccagtgcatggccgagtcCtccagaccatctataagaag	9	13	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:85598601C>T	uc002spf.3	+	11	1188	c.523C>T	c.(523-525)CTC>TTC	p.L175F	ELMOD3_uc010fgg.2_Intron|ELMOD3_uc002spg.3_Missense_Mutation_p.L175F|ELMOD3_uc002sph.3_Missense_Mutation_p.L175F|ELMOD3_uc010ysn.1_Missense_Mutation_p.L175F|ELMOD3_uc010yso.1_RNA|ELMOD3_uc010ysp.1_Intron	NM_001135021	NP_001128493	Q96FG2	ELMD3_HUMAN	ELMO/CED-12 domain containing 3 isoform b	175	ELMO.				phagocytosis	cytoskeleton				ovary(2)	2						TGGCCGAGTCCTCCAGACCAT	0.572													11	24	---	---	---	---	PASS	T	85598601	T	T	85598601	3	4	43	1	0	0	0	0	1	0	0	0	5070	681	24	3	549	3	ELMOD3	2	85598601	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	15096329	85598601	157600772	56	16677										
CAPG	822	broad.mit.edu	37	chr2	85628387	85628387	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttcttccccttcacctggtaGagtttcttgatggcagctgg	10	11	3	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:85628387G>C	uc002spl.1	-	5	667	c.417C>G	c.(415-417)CTC>CTG	p.L139L	CAPG_uc002spm.1_Silent_p.L139L|CAPG_uc010ysq.1_Silent_p.L139L|CAPG_uc010fgi.1_Silent_p.L139L|CAPG_uc010fgj.1_Silent_p.L33L	NM_001747	NP_001738	P40121	CAPG_HUMAN	gelsolin-like capping protein	139	Nuclear localization signal (Potential).				barbed-end actin filament capping|protein complex assembly	F-actin capping protein complex|melanosome|nuclear membrane|nucleolus	actin binding				0						TCACCTGGTAGAGTTTCTTGA	0.587													21	54	---	---	---	---	PASS	C	85628387	C	C	85628387	2	2	43	1	0	0	0	0	0	0	0	1	2621	929	33	2		2	CAPG	2	85628387	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	29786	85628387	157570986	57	16678										
PROM2	150696	broad.mit.edu	37	chr2	95944749	95944749	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcagagctgaagaaggcagtGgcccagcagccggaaggggt	18	9	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:95944749G>T	uc002suh.1	+	10	1264	c.1131G>T	c.(1129-1131)GTG>GTT	p.V377V	PROM2_uc002sui.2_Silent_p.V377V|PROM2_uc002suj.2_Silent_p.V31V|PROM2_uc002suk.2_Silent_p.V377V|PROM2_uc002sul.2_5'UTR|PROM2_uc002sum.2_5'Flank	NM_144707	NP_653308	Q8N271	PROM2_HUMAN	prominin 2 precursor	377	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|cilium membrane|integral to membrane|microvillus membrane				ovary(1)	1						AGAAGGCAGTGGCCCAGCAGC	0.642													14	21	---	---	---	---	PASS	T	95944749	T	T	95944749	2	4	43	1	0	0	0	0	0	0	0	1	12556	1335	47	3		3	PROM2	2	95944749	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	10316362	95944749	147254624	58	16679										
SNRNP200	23020	broad.mit.edu	37	chr2	96950236	96950236	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aatgttccctttgcccagcaGcttcaggtctgtgctggtct	10	12	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:96950236G>A	uc002svu.2	-	31	4338	c.4252C>T	c.(4252-4254)CTG>TTG	p.L1418L	SNRNP200_uc002svt.2_Silent_p.L28L|SNRNP200_uc010yuj.1_RNA|SNRNP200_uc002svv.1_5'UTR	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1418	Helicase ATP-binding 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						TTGCCCAGCAGCTTCAGGTCT	0.542													37	63	---	---	---	---	PASS	A	96950236	A	A	96950236	2	1	43	1	0	0	0	0	0	0	0	1	14852	962	34	3		3	SNRNP200	2	96950236	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	1005487	96950236	146249137	59	16680										
C2orf15	150590	broad.mit.edu	37	chr2	99767229	99767229	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctggcacaggatctctttctGggaaagccttgggttcagtg	13	9	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:99767229G>T	uc002szk.2	+	4	709	c.310G>T	c.(310-312)GGG>TGG	p.G104W	TSGA10_uc002szi.3_Intron|MRPL30_uc002szl.1_Intron	NM_144706	NP_653307	Q8WU43	CB015_HUMAN	hypothetical protein LOC150590	104											0						ATCTCTTTCTGGGAAAGCCTT	0.373													16	44	---	---	---	---	PASS	T	99767229	T	T	99767229	3	4	43	1	0	0	0	0	1	0	0	0	2156	1348	47	3	316	3	C2orf15	2	99767229	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	2816993	99767229	143432144	60	16681										
FOXD4L1	200350	broad.mit.edu	37	chr2	114256968	114256968	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtggaagacgaggaggaggaGgcgagccagaagttcctaga	18	6	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:114256968G>T	uc002tjw.3	+	1	308	c.135G>T	c.(133-135)GAG>GAT	p.E45D		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	45					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0						aggaggaggaggCGAGCCAGA	0.542													22	37	---	---	---	---	PASS	T	114256968	T	T	114256968	3	4	43	1	0	0	0	0	1	0	0	0	6000	991	35	3	137	3	FOXD4L1	2	114256968	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	14489739	114256968	128942405	61	16682										
EN1	2019	broad.mit.edu	37	chr2	119604348	119604348	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctcctcctgcgcctcctctGgccgccgcagccaccagaag	9	21	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:119604348G>T	uc002tlm.2	-	1	1412	c.396C>A	c.(394-396)GCC>GCA	p.A132A		NM_001426	NP_001417	Q05925	HME1_HUMAN	engrailed homeobox 1	132					skeletal system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|lung(1)	2						CGCCTCCTCTGGCCGCCGCAG	0.672													8	10	---	---	---	---	PASS	T	119604348	T	T	119604348	2	4	43	1	0	0	0	0	0	0	0	1	5109	1335	47	3		3	EN1	2	119604348	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	5347380	119604348	123595025	62	16683										
CLASP1	23332	broad.mit.edu	37	chr2	122125228	122125228	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agggcggtcttgtcgtaggtGttgatggcatctgagtaggg	18	5	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:122125228G>T	uc002tnc.2	-	34	4212	c.3822C>A	c.(3820-3822)AAC>AAA	p.N1274K	CLASP1_uc010yyv.1_Missense_Mutation_p.N320K|CLASP1_uc002tmz.2_Missense_Mutation_p.N359K|CLASP1_uc002tna.2_Missense_Mutation_p.N320K|CLASP1_uc010yyw.1_RNA|CLASP1_uc002tnb.2_RNA|CLASP1_uc010yyx.1_RNA|CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Missense_Mutation_p.N1215K|CLASP1_uc010yza.1_Missense_Mutation_p.N1207K|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_RNA|CLASP1_uc002tmy.2_Missense_Mutation_p.N110K|CLASP1_uc002tnf.2_Missense_Mutation_p.N176K	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	1274	Localization to kinetochores.|Interaction with PHLDB2 and RSN.|Interaction with CLIP2 (By similarity).				axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					TGTCGTAGGTGTTGATGGCAT	0.577													5	67	---	---	---	---	PASS	T	122125228	T	T	122125228	3	4	43	1	0	0	0	0	1	0	0	0	3454	1368	48	3	818	3	CLASP1	2	122125228	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	2520880	122125228	121074145	63	16684										
MYO7B	4648	broad.mit.edu	37	chr2	128378018	128378018	+	Missense_Mutation	SNP	C	A	A													0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcctctgcctcggctgcttcCcaccctcagagaggttcatg							TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:128378018C>A	uc002top.2	+	26	3477	c.3424C>A	c.(3424-3426)CCA>ACA	p.P1142T	MYO7B_uc002toq.1_5'UTR|MYO7B_uc002tor.1_5'UTR	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	1142	MyTH4 1.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		CGGCTGCTTCCCACCCTCAGA	0.617													10	20	---	---	---	---	PASS	A	128378018	A	A	128378018	3	1	43	1	0	0	0	0	1	0	0	0	10083	623	22	3	3522	3	MYO7B	2	128378018	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	6252790	128378018	114821355	64	16685	398	2								
MYO7B	4648	broad.mit.edu	37	chr2	128378019	128378019	+	Missense_Mutation	SNP	C	A	A													0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctctgcctcggctgcttccCaccctcagagaggttcatga							TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:128378019C>A	uc002top.2	+	26	3478	c.3425C>A	c.(3424-3426)CCA>CAA	p.P1142Q	MYO7B_uc002toq.1_5'UTR|MYO7B_uc002tor.1_5'UTR	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	1142	MyTH4 1.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GGCTGCTTCCCACCCTCAGAG	0.622													10	20	---	---	---	---	PASS	A	128378019	A	A	128378019	3	1	43	1	0	0	0	0	1	0	0	0	10083	594	21	3	3523	3	MYO7B	2	128378019	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1	128378019	114821354	65	16686	398	2								
THSD7B	80731	broad.mit.edu	37	chr2	138169226	138169226	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggattctgacctttaccctCtagtggagacagaactatgt	9	9	2	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:138169226C>A	uc002tva.1	+	13	2650	c.2650C>A	c.(2650-2652)CTA>ATA	p.L884I	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.L774I	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CCTTTACCCTCTAGTGGAGAC	0.413													14	46	---	---	---	---	PASS	A	138169226	A	A	138169226	3	1	43	1	0	0	0	0	1	0	0	0	15877	912	32	2	2700	2	THSD7B	2	138169226	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	9791207	138169226	105030147	66	16687										
NEB	4703	broad.mit.edu	37	chr2	152470912	152470912	+	Missense_Mutation	SNP	C	A	A													0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aaggatctgacacttcttggCcagcaccacccccagcatgt							TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:152470912C>A	uc010fnx.2	-	73	10941	c.10750G>T	c.(10750-10752)GCC>TCC	p.A3584S		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3584	Nebulin 98.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CACTTCTTGGCCAGCACCACC	0.527													39	117	---	---	---	---	PASS	A	152470912	A	A	152470912	3	1	43	1	0	0	0	0	1	0	0	0	10302	739	26	3	14631	3	NEB	2	152470912	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	14301686	152470912	90728461	67	16688	399	2								
NEB	4703	broad.mit.edu	37	chr2	152470913	152470913	+	Silent	SNP	C	A	A													0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggatctgacacttcttggcCagcaccacccccagcatgtc							TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:152470913C>A	uc010fnx.2	-	73	10940	c.10749G>T	c.(10747-10749)CTG>CTT	p.L3583L		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3583	Nebulin 98.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		ACTTCTTGGCCAGCACCACCC	0.527													41	123	---	---	---	---	PASS	A	152470913	A	A	152470913	2	1	43	1	0	0	0	0	0	0	0	1	10302	581	21	3		3	NEB	2	152470913	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	1	152470913	90728460	68	16689	399	2								
PKP4	8502	broad.mit.edu	37	chr2	159481410	159481410	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccatcagtagccaatcgggcCatgagaagagttagttcagt	11	9	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:159481410C>A	uc002tzv.2	+	7	884	c.624C>A	c.(622-624)GCC>GCA	p.A208A	PKP4_uc002tzt.1_Silent_p.A60A|PKP4_uc002tzu.2_Silent_p.A208A|PKP4_uc002tzw.2_Silent_p.A208A|PKP4_uc002tzx.2_Intron|PKP4_uc002tzy.1_Intron|PKP4_uc002tzz.1_Silent_p.A206A|PKP4_uc002uaa.2_Silent_p.A60A	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	208					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						CCAATCGGGCCATGAGAAGAG	0.453										HNSCC(62;0.18)			21	105	---	---	---	---	PASS	A	159481410	A	A	159481410	2	1	43	1	0	0	0	0	0	0	0	1	11987	581	21	3		3	PKP4	2	159481410	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	7010497	159481410	83717963	69	16690										
DPP4	1803	broad.mit.edu	37	chr2	162890069	162890069	+	Missense_Mutation	SNP	G	A	A													0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	accctatcaacatagaagcaGgagcagtgatttgtatggaa							TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:162890069G>A	uc002ubz.2	-	10	1430	c.869C>T	c.(868-870)CCT>CTT	p.P290L	DPP4_uc010fpb.2_5'UTR	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	290	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	CATAGAAGCAGGAGCAGTGAT	0.408													17	40	---	---	---	---	PASS	A	162890069	A	A	162890069	3	1	43	1	0	0	0	0	1	0	0	0	4729	1000	35	3	1499	3	DPP4	2	162890069	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	3408659	162890069	80309304	70	16691	400	2								
DPP4	1803	broad.mit.edu	37	chr2	162890071	162890071	+	Silent	SNP	A	G	G													0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctatcaacatagaagcaggAgcagtgatttgtatggaagt					rs113302553	byFrequency	TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:162890071A>G	uc002ubz.2	-	10	1428	c.867T>C	c.(865-867)GCT>GCC	p.A289A	DPP4_uc010fpb.2_5'UTR	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	289	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	TAGAAGCAGGAGCAGTGATTT	0.403													17	43	---	---	---	---	PASS	G	162890071	G	G	162890071	2	3	43	1	0	0	0	0	0	0	0	1	4729	291	11	5		5	DPP4	2	162890071	Silent	SNP	A	TCGA-22-5472-01A-01D-1632-08	2	162890071	80309302	71	16692	400	2								
CSRNP3	80034	broad.mit.edu	37	chr2	166535295	166535295	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttgaatttaatcctatccgtGttcggactcactttttgcac	6	10	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:166535295G>T	uc002udf.2	+	7	1166	c.790G>T	c.(790-792)GTT>TTT	p.V264F	CSRNP3_uc002udg.2_Missense_Mutation_p.V264F	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	264					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						TCCTATCCGTGTTCGGACTCA	0.448													18	45	---	---	---	---	PASS	T	166535295	T	T	166535295	3	4	43	1	0	0	0	0	1	0	0	0	3965	1377	48	3	804	3	CSRNP3	2	166535295	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	3645224	166535295	76664078	72	16693										
LRP2	4036	broad.mit.edu	37	chr2	170012824	170012824	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccagggcggtcactcatagaCgtgaagccatcagcacagac	11	13	3	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:170012824C>T	uc002ues.2	-	65	12324	c.12111G>A	c.(12109-12111)ACG>ACA	p.T4037T		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4037	EGF-like 15; calcium-binding (Potential).|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CACTCATAGACGTGAAGCCAT	0.438													7	106	---	---	---	---	PASS	T	170012824	T	T	170012824	2	4	43	1	0	0	0	0	0	0	0	1	8956	523	19	1		1	LRP2	2	170012824	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	3477529	170012824	73186549	73	16694										
TTC30A	92104	broad.mit.edu	37	chr2	178481602	178481602	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	taaaaactggacacattcttGaataacactgtcatgaatga	6	7	2	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:178481602G>T	uc002ulo.2	-	1	2093	c.1828C>A	c.(1828-1830)CAA>AAA	p.Q610K		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	610					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			ACACATTCTTGAATAACACTG	0.388													11	177	---	---	---	---	PASS	T	178481602	T	T	178481602	3	4	43	1	0	0	0	0	1	0	0	0	16695	1299	45	2	173	2	TTC30A	2	178481602	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	8468778	178481602	64717771	74	16695										
TTN	7273	broad.mit.edu	37	chr2	179451273	179451273	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	acactccttcagcttctcttGgcaaactgactccaacagca	5	15	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:179451273G>T	uc010zfg.1	-	257	56875	c.56651C>A	c.(56650-56652)CCA>CAA	p.P18884Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P12579Q|TTN_uc010zfi.1_Missense_Mutation_p.P12512Q|TTN_uc010zfj.1_Missense_Mutation_p.P12387Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19811							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)			AGCTTCTCTTGGCAAACTGAC	0.383													22	59	---	---	---	---	PASS	T	179451273	T	T	179451273	3	4	43	1	0	0	0	0	1	0	0	0	16732	1348	47	3	43844	3	TTN	2	179451273	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	969671	179451273	63748100	75	16696										
TTN	7273	broad.mit.edu	37	chr2	179530162	179530162	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tcaaatattttcatttcaggGacaacttctttcatagcttc	4	9	5	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:179530162G>A	uc010zfk.1	-	10	971	c.423C>T	c.(421-423)GTC>GTT	p.V141V	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TCATTTCAGGGACAACTTCTT	0.358													11	172	---	---	---	---	PASS	A	179530162	A	A	179530162	2	1	43	1	0	0	0	0	0	0	0	1	16732	1189	41	2		2	TTN	2	179530162	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	78889	179530162	63669211	76	16697										
TTN	7273	broad.mit.edu	37	chr2	179604342	179604342	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atatttaaccctactttgcaCgttaaaataactgacctctt	3	10	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:179604342C>A	uc010zfh.1	-	46	13329	c.13105G>T	c.(13105-13107)GTG>TTG	p.V4369L	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.V4302L|TTN_uc010zfj.1_Missense_Mutation_p.V4177L|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CTACTTTGCACGTTAAAATAA	0.393													26	44	---	---	---	---	PASS	A	179604342	A	A	179604342	3	1	43	1	0	0	0	0	1	0	0	0	16732	536	19	1	91171	1	TTN	2	179604342	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	74180	179604342	63595031	77	16698										
PDE1A	5136	broad.mit.edu	37	chr2	183066250	183066250	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gggtggctgatgtctgctgcGtggagaatcagggacatggt	18	6	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:183066250G>A	uc002uos.2	-	11	1173	c.1089C>T	c.(1087-1089)CAC>CAT	p.H363H	PDE1A_uc010zfp.1_Silent_p.H259H|PDE1A_uc002uoq.1_Silent_p.H363H|PDE1A_uc010zfq.1_Silent_p.H363H|PDE1A_uc002uor.2_Silent_p.H347H|PDE1A_uc002uou.2_Silent_p.H329H	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	363	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			TGTCTGCTGCGTGGAGAATCA	0.463													29	58	---	---	---	---	PASS	A	183066250	A	A	183066250	2	1	43	1	0	0	0	0	0	0	0	1	11633	1136	40	1		1	PDE1A	2	183066250	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	3461908	183066250	60133123	78	16699										
ZNF804A	91752	broad.mit.edu	37	chr2	185800724	185800724	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cagcaaaaaataaccaagttGgggatcaagcccaggggatt	11	8	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:185800724G>T	uc002uph.2	+	4	1195	c.601G>T	c.(601-603)GGG>TGG	p.G201W		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	201						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TAACCAAGTTGGGGATCAAGC	0.408													21	34	---	---	---	---	PASS	T	185800724	T	T	185800724	3	4	43	1	0	0	0	0	1	0	0	0	18167	1348	47	3	615	3	ZNF804A	2	185800724	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	2734474	185800724	57398649	79	16700										
ZNF804A	91752	broad.mit.edu	37	chr2	185802367	185802367	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caaaatgatatgaaacacatGagtcagaatcaggctgttaa	8	6	2	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:185802367G>T	uc002uph.2	+	4	2838	c.2244G>T	c.(2242-2244)ATG>ATT	p.M748I		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	748						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TGAAACACATGAGTCAGAATC	0.333													13	30	---	---	---	---	PASS	T	185802367	T	T	185802367	3	4	43	1	0	0	0	0	1	0	0	0	18167	1290	45	2	2258	2	ZNF804A	2	185802367	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1643	185802367	57397006	80	16701										
COL5A2	1290	broad.mit.edu	37	chr2	189901518	189901518	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agatccttggttaggatcaaTccagtattcacctatttttc	6	9	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:189901518T>C	uc002uqk.2	-	52	4212	c.3937A>G	c.(3937-3939)ATT>GTT	p.I1313V	COL5A2_uc010frx.2_Missense_Mutation_p.I889V	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	1313	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			TTAGGATCAATCCAGTATTCA	0.338													10	10	---	---	---	---	PASS	C	189901518	C	C	189901518	3	2	43	1	0	0	0	0	1	0	0	0	3697	1435	50	5	574	5	COL5A2	2	189901518	Missense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08	4099151	189901518	53297855	81	16702										
PMS1	5378	broad.mit.edu	37	chr2	190728610	190728610	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tggaatttggcccagaagcaCaagttaaaaacctcattatc	7	9	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:190728610C>A	uc002urh.3	+	10	2527	c.1998C>A	c.(1996-1998)CAC>CAA	p.H666Q	PMS1_uc010zga.1_3'UTR|PMS1_uc010zgb.1_Missense_Mutation_p.H605Q|PMS1_uc002urk.3_Missense_Mutation_p.H627Q|PMS1_uc002uri.3_Intron|PMS1_uc010zgc.1_Missense_Mutation_p.H490Q|PMS1_uc010zgd.1_Missense_Mutation_p.H490Q|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Missense_Mutation_p.H627Q|PMS1_uc010frz.2_Intron|PMS1_uc002url.2_Intron|PMS1_uc002urm.2_RNA|PMS1_uc002urn.1_Missense_Mutation_p.H334Q	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	666					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			CCCAGAAGCACAAGTTAAAAA	0.373			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					20	45	---	---	---	---	PASS	A	190728610	A	A	190728610	3	1	43	1	0	0	0	0	1	0	0	0	12142	477	17	3	2032	3	PMS1	2	190728610	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	827092	190728610	52470763	82	16703										
FZD7	8324	broad.mit.edu	37	chr2	202900498	202900498	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggccacgaggccatcgaggcCaactcgcagtacttccacct	10	16	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:202900498C>A	uc002uyw.1	+	1	1189	c.1128C>A	c.(1126-1128)GCC>GCA	p.A376A		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	376	Cytoplasmic (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(2)|ovary(1)|breast(1)	4						CCATCGAGGCCAACTCGCAGT	0.642											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	53	---	---	---	---	PASS	A	202900498	A	A	202900498	2	1	43	1	0	0	0	0	0	0	0	1	6135	581	21	3		3	FZD7	2	202900498	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	12171888	202900498	40298875	83	16704										
CTLA4	1493	broad.mit.edu	37	chr2	204732710	204732710	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cacaaggctcagctgaacctGgctaccaggacctggccctg	11	15	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:204732710G>T	uc002vak.1	+	1	202	c.45G>T	c.(43-45)CTG>CTT	p.L15L	CTLA4_uc002val.1_Silent_p.L15L|CTLA4_uc010fty.1_Silent_p.L15L|CTLA4_uc010ftz.1_RNA	NM_005214	NP_005205	P16410	CTLA4_HUMAN	cytotoxic T-lymphocyte-associated protein 4	15					B cell receptor signaling pathway|immune response|negative regulation of B cell proliferation|negative regulation of regulatory T cell differentiation|positive regulation of apoptosis|response to DNA damage stimulus|T cell costimulation	clathrin-coated endocytic vesicle|external side of plasma membrane|Golgi apparatus|integral to plasma membrane|perinuclear region of cytoplasm					0					Abatacept(DB01281)	AGCTGAACCTGGCTACCAGGA	0.512													11	26	---	---	---	---	PASS	T	204732710	T	T	204732710	2	4	43	1	0	0	0	0	0	0	0	1	4011	1335	47	3		3	CTLA4	2	204732710	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	1832212	204732710	38466663	84	16705										
MDH1B	130752	broad.mit.edu	37	chr2	207615680	207615680	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtcaaaaatcaagtttaaaaCagggcgtgaataatgaagag	10	4	2	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:207615680C>G	uc002vbs.2	-	6	1085	c.1030G>C	c.(1030-1032)GTT>CTT	p.V344L	MDH1B_uc010ziw.1_Intron|MDH1B_uc010fui.2_Missense_Mutation_p.V344L|MDH1B_uc010fuj.2_Missense_Mutation_p.V246L|MDH1B_uc002vbt.2_Intron	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)	344					carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		AAGTTTAAAACAGGGCGTGAA	0.333													13	43	---	---	---	---	PASS	G	207615680	G	G	207615680	3	3	43	1	0	0	0	0	1	0	0	0	9409	478	17	4	554	4	MDH1B	2	207615680	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2882970	207615680	35583693	85	16706										
USP37	57695	broad.mit.edu	37	chr2	219360482	219360482	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	catttcttagacactacttaCgctttacaaatgatggagtg	7	8	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:219360482C>T	uc002vie.2	-	14	1925	c.1472_splice	c.e14+1	p.A491_splice	USP37_uc010fvs.1_Splice_Site_p.A491_splice|USP37_uc010zkf.1_Splice_Site_p.A491_splice|USP37_uc002vif.2_Splice_Site_p.A491_splice|USP37_uc002vig.2_Splice_Site_p.A419_splice	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37						ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		ACACTACTTACGCTTTACAAA	0.328													12	27	---	---	---	---	PASS	T	219360482	T	T	219360482	5	4	43	1	0	0	0	0	0	0	1	0	17065	550	19	1	1518	1	USP37	2	219360482	Splice_Site	SNP	C	TCGA-22-5472-01A-01D-1632-08	11744802	219360482	23838891	86	16707										
DES	1674	broad.mit.edu	37	chr2	220285264	220285264	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caggaacagcaggtccaggtGgagatggacatgtctaagcc	14	9	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr2:220285264G>A	uc002vll.2	+	4	869	c.783G>A	c.(781-783)GTG>GTA	p.V261V		NM_001927	NP_001918	P17661	DESM_HUMAN	desmin	261	Rod.|Linker 12.				cytoskeleton organization|muscle filament sliding|regulation of heart contraction	cytosol|Z disc	protein binding|structural constituent of cytoskeleton			central_nervous_system(2)	2		Renal(207;0.0183)		Epithelial(149;5.25e-07)|all cancers(144;0.000103)|Lung(261;0.00533)|LUSC - Lung squamous cell carcinoma(224;0.008)		AGGTCCAGGTGGAGATGGACA	0.582													7	18	---	---	---	---	PASS	A	220285264	A	A	220285264	2	1	43	1	0	0	0	0	0	0	0	1	4449	1335	47	3		3	DES	2	220285264	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	924782	220285264	22914109	87	16708										
ITPR1	3708	broad.mit.edu	37	chr3	4715954	4715954	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tcagaccatggagtttgtggAggagtatttaagagatgtgg	15	3	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:4715954A>C	uc003bqa.2	+	22	2873	c.2525A>C	c.(2524-2526)GAG>GCG	p.E842A	ITPR1_uc010hca.1_Missense_Mutation_p.E827A|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Missense_Mutation_p.E827A	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	842	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GAGTTTGTGGAGGAGTATTTA	0.373													4	1	---	---	---	---	PASS	C	4715954	C	C	4715954	3	2	43	1	0	0	0	0	1	0	0	0	7920	304	11	5	2603	5	ITPR1	3	4715954	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08		4715954	193306476	88	16709										
ARPP21	10777	broad.mit.edu	37	chr3	35763327	35763327	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cgggaagctgtccaaagcagGtagttagtactgaatgtgtt	13	6	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:35763327G>T	uc003cgb.2	+	14	1489	c.1225_splice	c.e14+1	p.G409_splice	ARPP21_uc003cga.2_Splice_Site_p.G355_splice|ARPP21_uc011axy.1_Splice_Site_p.G375_splice|ARPP21_uc003cgf.2_Splice_Site_p.G210_splice|ARPP21_uc003cgg.2_Splice_Site	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD							cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						TCCAAAGCAGGTAGTTAGTAC	0.493													4	5	---	---	---	---	PASS	T	35763327	T	T	35763327	5	4	43	1	0	0	0	0	0	0	1	0	978	1275	44	3	1285	3	ARPP21	3	35763327	Splice_Site	SNP	G	TCGA-22-5472-01A-01D-1632-08	31047373	35763327	162259103	89	16710										
SCN5A	6331	broad.mit.edu	37	chr3	38620970	38620970	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gggcctctgggccaccggacAcaggctgggattcctgctga	15	13	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:38620970A>C	uc003cio.2	-	18	3439	c.3245T>G	c.(3244-3246)GTG>GGG	p.V1082G	SCN5A_uc003cin.2_Missense_Mutation_p.V1081G|SCN5A_uc003cil.3_Missense_Mutation_p.V1082G|SCN5A_uc010hhi.2_Missense_Mutation_p.V1082G|SCN5A_uc010hhk.2_Missense_Mutation_p.V1081G|SCN5A_uc011ayr.1_Intron|SCN5A_uc010hhj.1_Missense_Mutation_p.V692G	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1082					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	GCCACCGGACACAGGCTGGGA	0.652													9	2	---	---	---	---	PASS	C	38620970	C	C	38620970	3	2	43	1	0	0	0	0	1	0	0	0	13922	159	6	5	2849	5	SCN5A	3	38620970	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	2857643	38620970	159401460	90	16711										
TCTA	6988	broad.mit.edu	37	chr3	49449953	49449953	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tcttgcgggagtgggaggcgCaggacatgcgcgtgaccctc	17	11	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:49449953C>A	uc003cwv.3	+	1	315	c.94C>A	c.(94-96)CAG>AAG	p.Q32K	RHOA_uc010hku.2_5'Flank|RHOA_uc003cwu.2_5'Flank	NM_022171	NP_071503	P57738	TCTA_HUMAN	T-cell leukemia translocation altered	32	Cytoplasmic (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GTGGGAGGCGCAGGACATGCG	0.652													18	36	---	---	---	---	PASS	A	49449953	A	A	49449953	3	1	43	1	0	0	0	0	1	0	0	0	15713	711	25	3	96	3	TCTA	3	49449953	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	10828983	49449953	148572477	91	16712										
MYH15	22989	broad.mit.edu	37	chr3	108133140	108133140	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttcatacttcattctccattGcaccatttcagcattgactt	3	12	4	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:108133140G>T	uc003dxa.1	-	31	4201	c.4144C>A	c.(4144-4146)CAA>AAA	p.Q1382K		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1382	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						ATTCTCCATTGCACCATTTCA	0.468													9	55	---	---	---	---	PASS	T	108133140	T	T	108133140	3	4	43	1	0	0	0	0	1	0	0	0	10034	1328	46	3	1744	3	MYH15	3	108133140	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	58683187	108133140	89889290	92	16713										
DPPA2	151871	broad.mit.edu	37	chr3	109026974	109026974	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttgcagcaattcttgcccatGatgccaacatggctcccggt	9	13	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:109026974G>T	uc003dxo.2	-	6	810	c.563C>A	c.(562-564)TCA>TAA	p.S188*		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	188						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						TCTTGCCCATGATGCCAACAT	0.453													26	84	---	---	---	---	PASS	T	109026974	T	T	109026974	4	4	43	1	0	0	0	0	0	1	0	0	4734	1294	45	2	345	2	DPPA2	3	109026974	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	893834	109026974	88995456	93	16714										
DPPA4	55211	broad.mit.edu	37	chr3	109052821	109052821	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctgctgatcctcttccctcGacttctctgtggaggtccac	8	16	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:109052821G>T	uc003dxq.3	-	2	129	c.74C>A	c.(73-75)TCG>TAG	p.S25*	DPPA4_uc011bho.1_Nonsense_Mutation_p.S25*|DPPA4_uc011bhp.1_Nonsense_Mutation_p.S25*	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	25						nucleus	protein binding			upper_aerodigestive_tract(1)	1						CTCTTCCCTCGACTTCTCTGT	0.458													11	49	---	---	---	---	PASS	T	109052821	T	T	109052821	4	4	43	1	0	0	0	0	0	1	0	0	4736	1059	37	2	864	2	DPPA4	3	109052821	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	25847	109052821	88969609	94	16715										
PVRL3	25945	broad.mit.edu	37	chr3	110852644	110852644	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gatcattgctagtgtagtggGtggggctctcttcatagtac	13	7	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:110852644G>T	uc003dxt.1	+	6	1232	c.1232G>T	c.(1231-1233)GGT>GTT	p.G411V	PVRL3_uc003dxu.1_Intron	NM_015480	NP_056295	Q9NQS3	PVRL3_HUMAN	poliovirus receptor-related 3 precursor	411	Helical; (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane	cell adhesion molecule binding|protein homodimerization activity			upper_aerodigestive_tract(2)	2						AGTGTAGTGGGTGGGGCTCTC	0.428													32	98	---	---	---	---	PASS	T	110852644	T	T	110852644	3	4	43	1	0	0	0	0	1	0	0	0	12841	1261	44	3	1254	3	PVRL3	3	110852644	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1799823	110852644	87169786	95	16716										
RABL3	285282	broad.mit.edu	37	chr3	120461343	120461343	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	accagtaccttcacccgatcCagggacgccatcttgccact	7	17	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:120461343C>A	uc003edx.2	-	1	42	c.12G>T	c.(10-12)CTG>CTT	p.L4L	GTF2E1_uc003edy.2_5'Flank|GTF2E1_uc003edz.3_5'Flank	NM_173825	NP_776186	Q5HYI8	RABL3_HUMAN	RAB, member of RAS oncogene family-like 3	4	Small GTPase-like.				small GTPase mediated signal transduction		GTP binding				0				GBM - Glioblastoma multiforme(114;0.151)		TCACCCGATCCAGGGACGCCA	0.547													12	38	---	---	---	---	PASS	A	120461343	A	A	120461343	2	1	43	1	0	0	0	0	0	0	0	1	12972	581	21	3		3	RABL3	3	120461343	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	9608699	120461343	77561087	96	16717										
ADCY5	111	broad.mit.edu	37	chr3	123166580	123166580	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	acggcggccgccagcacggcCaggtagggcagctggagcgg	19	13	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:123166580C>A	uc003egh.1	-	1	813	c.813G>T	c.(811-813)CTG>CTT	p.L271L		NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	271	Helical; (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		CCAGCACGGCCAGGTAGGGCA	0.687													8	26	---	---	---	---	PASS	A	123166580	A	A	123166580	2	1	43	1	0	0	0	0	0	0	0	1	297	581	21	3		3	ADCY5	3	123166580	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	2705237	123166580	74855850	97	16718										
KALRN	8997	broad.mit.edu	37	chr3	124397053	124397053	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	acaggaagtcatgttcatggCatactctacgcatgagaaag	10	8	3	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:124397053C>A	uc003ehg.2	+	50	7337	c.7210C>A	c.(7210-7212)CAT>AAT	p.H2404N	KALRN_uc003ehk.2_Missense_Mutation_p.H707N	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2403					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						ATGTTCATGGCATACTCTACG	0.517													28	88	---	---	---	---	PASS	A	124397053	A	A	124397053	3	1	43	1	0	0	0	0	1	0	0	0	7975	710	25	3	7564	3	KALRN	3	124397053	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1230473	124397053	73625377	98	16719										
GP9	2815	broad.mit.edu	37	chr3	128780703	128780703	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgtgggtggactgcaggggcCacggactcacggccctgcct	16	13	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:128780703C>A	uc003elm.2	+	3	308	c.121C>A	c.(121-123)CAC>AAC	p.H41N		NM_000174	NP_000165	P14770	GPIX_HUMAN	glycoprotein IX (platelet) precursor	41	Extracellular (Potential).|LRRNT.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane	protein binding				0					Quinine(DB00468)	CTGCAGGGGCCACGGACTCAC	0.692													3	15	---	---	---	---	PASS	A	128780703	A	A	128780703	3	1	43	1	0	0	0	0	1	0	0	0	6585	594	21	3	123	3	GP9	3	128780703	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	4383650	128780703	69241727	99	16720										
CEP63	80254	broad.mit.edu	37	chr3	134277097	134277097	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atgaataccaaatctcagctGgagatttctactcagatgtg	8	8	3	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:134277097G>T	uc003eqo.1	+	14	2030	c.1581G>T	c.(1579-1581)CTG>CTT	p.L527L	CEP63_uc003eql.1_Intron|CEP63_uc003eqm.2_Intron|CEP63_uc003eqn.1_Intron	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	527	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						AATCTCAGCTGGAGATTTCTA	0.343													17	75	---	---	---	---	PASS	T	134277097	T	T	134277097	2	4	43	1	0	0	0	0	0	0	0	1	3257	1335	47	3		3	CEP63	3	134277097	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	5496394	134277097	63745333	100	16721										
NCK1	4690	broad.mit.edu	37	chr3	136664723	136664723	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggtgaccatgtgggttctctGtcagagaaattagcagcagt	13	7	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:136664723G>T	uc003erh.2	+	3	632	c.525G>T	c.(523-525)CTG>CTT	p.L175L	NCK1_uc011bme.1_Silent_p.L111L	NM_006153	NP_006144	P16333	NCK1_HUMAN	NCK adaptor protein 1	175					axon guidance|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of translation|signal complex assembly|T cell activation|T cell receptor signaling pathway	cytosol|endoplasmic reticulum|nucleus	cytoskeletal adaptor activity|receptor binding|receptor signaling complex scaffold activity			pancreas(1)	1						TGGGTTCTCTGTCAGAGAAAT	0.458													39	151	---	---	---	---	PASS	T	136664723	T	T	136664723	2	4	43	1	0	0	0	0	0	0	0	1	10219	1364	48	3		3	NCK1	3	136664723	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	2387626	136664723	61357707	101	16722										
A4GNT	51146	broad.mit.edu	37	chr3	137843495	137843495	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggctgaattatagtgttcaaCaaagttttccatgcattccc	7	9	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:137843495C>A	uc003ers.2	-	3	836	c.634G>T	c.(634-636)GTT>TTT	p.V212F		NM_016161	NP_057245	Q9UNA3	A4GCT_HUMAN	alpha-1,4-N-acetylglucosaminyltransferase	212	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	acetylglucosaminyltransferase activity|galactosyltransferase activity			central_nervous_system(1)	1						TAGTGTTCAACAAAGTTTTCC	0.473													31	93	---	---	---	---	PASS	A	137843495	A	A	137843495	3	1	43	1	0	0	0	0	1	0	0	0	7	478	17	3	392	3	A4GNT	3	137843495	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1178772	137843495	60178935	102	16723										
TM4SF1	4071	broad.mit.edu	37	chr3	149095211	149095211	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccacacgaagcggctgaggtGgttttcggaggcatactttg	14	9	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:149095211G>T	uc003exb.1	-	1	358	c.124C>A	c.(124-126)CAC>AAC	p.H42N	TM4SF1_uc003exc.1_5'Flank	NM_014220	NP_055035	P30408	T4S1_HUMAN	transmembrane 4 superfamily member 1	42	Extracellular (Probable).					integral to plasma membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			CGGCTGAGGTGGTTTTCGGAG	0.493													18	25	---	---	---	---	PASS	T	149095211	T	T	149095211	3	4	43	1	0	0	0	0	1	0	0	0	15963	1348	47	3	504	3	TM4SF1	3	149095211	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	11251716	149095211	48927219	103	16724										
VEPH1	79674	broad.mit.edu	37	chr3	157188205	157188205	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tccaagcaggagtcccagagCcccacaagggcctttgcatg	11	14	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:157188205C>A	uc003fbj.1	-	3	569	c.252G>T	c.(250-252)GGG>GGT	p.G84G	VEPH1_uc003fbk.1_Silent_p.G84G|VEPH1_uc010hvu.1_Silent_p.G84G|VEPH1_uc003fbm.2_Silent_p.G84G|VEPH1_uc003fbn.2_Silent_p.G84G	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	84						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			AGTCCCAGAGCCCCACAAGGG	0.453													7	139	---	---	---	---	PASS	A	157188205	A	A	157188205	2	1	43	1	0	0	0	0	0	0	0	1	17151	726	26	3		3	VEPH1	3	157188205	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	8092994	157188205	40834225	104	16725										
PEX5L	51555	broad.mit.edu	37	chr3	179592165	179592165	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agccgactcagagttgagggCgctttttccaccactcagtt	10	12	2	2	rs146906651		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:179592165C>T	uc003fki.1	-	7	806	c.676G>A	c.(676-678)GCC>ACC	p.A226T	PEX5L_uc011bqd.1_Missense_Mutation_p.A183T|PEX5L_uc011bqe.1_Missense_Mutation_p.A34T|PEX5L_uc011bqf.1_Missense_Mutation_p.A118T|PEX5L_uc003fkj.1_Missense_Mutation_p.A191T|PEX5L_uc010hxd.1_Missense_Mutation_p.A224T|PEX5L_uc011bqg.1_Missense_Mutation_p.A202T|PEX5L_uc011bqh.1_Missense_Mutation_p.A167T	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	226			A -> T (in a colorectal cancer sample; somatic mutation).		protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding	p.A226T(1)		ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			GAGTTGAGGGCGCTTTTTCCA	0.393													11	60	---	---	---	---	PASS	T	179592165	T	T	179592165	3	4	43	1	0	0	0	0	1	0	0	0	11749	768	27	1	1240	1	PEX5L	3	179592165	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	22403960	179592165	18430265	105	16726										
APOD	347	broad.mit.edu	37	chr3	195295819	195295819	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tctgtgaccgtcattttcttGacatcaatgttattagaagt	7	7	4	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr3:195295819G>T	uc003fur.2	-	5	884	c.522C>A	c.(520-522)GTC>GTA	p.V174V		NM_001647	NP_001638	P05090	APOD_HUMAN	apolipoprotein D precursor	174					lipid metabolic process	extracellular space	lipid binding|lipid transporter activity|protein binding			ovary(2)	2	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.191)	Epithelial(36;1e-21)|all cancers(36;9.02e-20)|OV - Ovarian serous cystadenocarcinoma(49;1.6e-18)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;1.66e-05)		TCATTTTCTTGACATCAATGT	0.458													7	144	---	---	---	---	PASS	T	195295819	T	T	195295819	2	4	43	1	0	0	0	0	0	0	0	1	801	1277	45	2		2	APOD	3	195295819	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	15703654	195295819	2726611	106	16727										
GABRB1	2560	broad.mit.edu	37	chr4	47163480	47163480	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgatggaacagttctctatgGactccggtaaatggctttat	10	7	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr4:47163480G>T	uc003gxh.2	+	4	829	c.455G>T	c.(454-456)GGA>GTA	p.G152V	GABRB1_uc011bze.1_Missense_Mutation_p.G82V	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	152	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	GTTCTCTATGGACTCCGGTAA	0.388													34	26	---	---	---	---	PASS	T	47163480	T	T	47163480	3	4	43	1	0	0	0	0	1	0	0	0	6166	1174	41	2	469	2	GABRB1	4	47163480	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08		47163480	143990796	107	16728										
ATP10D	57205	broad.mit.edu	37	chr4	47584003	47584003	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cagggctcagatactgacatCtttgcatttggaaaccccct	8	12	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr4:47584003C>G	uc003gxk.1	+	21	3839	c.3675C>G	c.(3673-3675)ATC>ATG	p.I1225M	ATP10D_uc003gxl.1_Missense_Mutation_p.I473M	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	1225	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						ATACTGACATCTTTGCATTTG	0.463													9	117	---	---	---	---	PASS	G	47584003	G	G	47584003	3	3	43	1	0	0	0	0	1	0	0	0	1118	903	32	2	3753	2	ATP10D	4	47584003	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	420523	47584003	143570273	108	16729										
AASDH	132949	broad.mit.edu	37	chr4	57204811	57204811	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aacggtgttgcatagaccctTgaagtagtttcaaatttcca	8	8	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr4:57204811T>G	uc003hbn.2	-	15	3207	c.3054A>C	c.(3052-3054)TCA>TCC	p.S1018S	AASDH_uc010ihb.2_Silent_p.S533S|AASDH_uc011caa.1_3'UTR|AASDH_uc003hbo.2_Silent_p.S918S|AASDH_uc011cab.1_Silent_p.S533S|AASDH_uc010ihc.2_3'UTR	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	1018					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				CATAGACCCTTGAAGTAGTTT	0.408													18	43	---	---	---	---	PASS	G	57204811	G	G	57204811	2	3	43	1	0	0	0	0	0	0	0	1	22	1799	63	5		5	AASDH	4	57204811	Silent	SNP	T	TCGA-22-5472-01A-01D-1632-08	9620808	57204811	133949465	109	16730										
SYNPO2	171024	broad.mit.edu	37	chr4	119948592	119948592	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aagcaccgagcgcggcatgcAcgtaagttctgcctgggctt	13	12	1	0	rs137938917	by1000genomes	TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr4:119948592A>G	uc003icm.3	+	3	1264	c.1068A>G	c.(1066-1068)GCA>GCG	p.A356A	SYNPO2_uc010ina.2_Silent_p.A356A|SYNPO2_uc010inb.2_Silent_p.A356A|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Silent_p.A284A	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	356						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						CGCGGCATGCACGTAAGTTCT	0.502													10	8	---	---	---	---	PASS	G	119948592	G	G	119948592	2	3	43	1	0	0	0	0	0	0	0	1	15454	173	6	5		5	SYNPO2	4	119948592	Silent	SNP	A	TCGA-22-5472-01A-01D-1632-08	62743781	119948592	71205684	110	16731										
FGF2	2247	broad.mit.edu	37	chr4	123797552	123797552	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gctaaccgttacctggctatGaaggaagatggaagattact	11	7	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr4:123797552G>C	uc003iev.1	+	2	722	c.654G>C	c.(652-654)ATG>ATC	p.M218I		NM_002006	NP_001997	P09038	FGF2_HUMAN	fibroblast growth factor 2	218					activation of MAPK activity|branching involved in ureteric bud morphogenesis|cell migration involved in sprouting angiogenesis|chemotaxis|chondroblast differentiation|embryonic morphogenesis|fibroblast growth factor receptor signaling pathway|inositol phosphate biosynthetic process|insulin receptor signaling pathway|negative regulation of blood vessel endothelial cell migration|negative regulation of cell death|organ morphogenesis|phosphatidylinositol biosynthetic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of cardiac muscle cell proliferation|positive regulation of cell division|positive regulation of cell fate specification|positive regulation of ERK1 and ERK2 cascade|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phospholipase C activity|Ras protein signal transduction|release of sequestered calcium ion into cytosol|wound healing	extracellular space	fibroblast growth factor receptor binding|growth factor activity|heparin binding|ligand-dependent nuclear receptor transcription coactivator activity			ovary(1)|lung(1)|central_nervous_system(1)	3					Pentosan Polysulfate(DB00686)	ACCTGGCTATGAAGGAAGATG	0.363													9	10	---	---	---	---	PASS	C	123797552	C	C	123797552	3	2	43	1	0	0	0	0	1	0	0	0	5848	1290	45	2	660	2	FGF2	4	123797552	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	3848960	123797552	67356724	111	16732										
NUDT6	11162	broad.mit.edu	37	chr4	123838817	123838817	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggaggatgggaatgtgcagcCatacagctgttctaccttct	12	9	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr4:123838817C>A	uc003iew.2	-	2	313	c.281G>T	c.(280-282)TGG>TTG	p.W94L	NUDT6_uc003iex.2_5'UTR	NM_007083	NP_009014	P53370	NUDT6_HUMAN	nudix-type motif 6 isoform a	94						mitochondrion|nucleus	growth factor activity|hydrolase activity				0						AATGTGCAGCCATACAGCTGT	0.448													9	15	---	---	---	---	PASS	A	123838817	A	A	123838817	3	1	43	1	0	0	0	0	1	0	0	0	10743	595	21	3	685	3	NUDT6	4	123838817	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	41265	123838817	67315459	112	16733										
FGA	2243	broad.mit.edu	37	chr4	155508748	155508748	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	actttttctatgactttgcgCttcaggacttcaattctgct	6	10	4	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr4:155508748C>T	uc003iod.1	-	4	484	c.426G>A	c.(424-426)AAG>AAA	p.K142K	FGA_uc003ioe.1_Silent_p.K142K|FGA_uc003iof.1_Silent_p.K142K	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	142	By similarity.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	TGACTTTGCGCTTCAGGACTT	0.413													26	37	---	---	---	---	PASS	T	155508748	T	T	155508748	2	4	43	1	0	0	0	0	0	0	0	1	5830	796	28	3		3	FGA	4	155508748	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	31669931	155508748	35645528	113	16734										
NAF1	92345	broad.mit.edu	37	chr4	164087748	164087748	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggggacccctcaaacgactgTagcggcggctgtgtccctgg	15	13	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr4:164087748T>C	uc003iqj.2	-	1	326	c.132A>G	c.(130-132)CTA>CTG	p.L44L	NAF1_uc010iqw.1_Silent_p.L44L|NAF1_uc003iqk.2_RNA	NM_138386	NP_612395	Q96HR8	NAF1_HUMAN	nuclear assembly factor 1 homolog isoform a	44					rRNA processing|snRNA pseudouridine synthesis	cytoplasm|nucleus|small nucleolar ribonucleoprotein complex	protein binding|snoRNA binding			ovary(2)	2	all_hematologic(180;0.166)	Prostate(90;0.109)				CAAACGACTGTAGCGGCGGCT	0.662													6	3	---	---	---	---	PASS	C	164087748	C	C	164087748	2	2	43	1	0	0	0	0	0	0	0	1	10140	1625	57	5		5	NAF1	4	164087748	Silent	SNP	T	TCGA-22-5472-01A-01D-1632-08	8579000	164087748	27066528	114	16735										
GPM6A	2823	broad.mit.edu	37	chr4	176594915	176594915	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccagttgtgaagaaaccttcCaccatcagcaaaatgccata	6	12	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr4:176594915C>A	uc003iuf.2	-	3	1107	c.303G>T	c.(301-303)GTG>GTT	p.V101V	GPM6A_uc011ckj.1_Silent_p.V94V|GPM6A_uc003iug.2_Silent_p.V101V|GPM6A_uc003iuh.2_Silent_p.V90V	NM_201591	NP_963885	P51674	GPM6A_HUMAN	glycoprotein M6A isoform 2	101	Helical; (Potential).					cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)		AGAAACCTTCCACCATCAGCA	0.423													18	13	---	---	---	---	PASS	A	176594915	A	A	176594915	2	1	43	1	0	0	0	0	0	0	0	1	6615	581	21	3		3	GPM6A	4	176594915	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	12507167	176594915	14559361	115	16736										
FAT1	2195	broad.mit.edu	37	chr4	187517903	187517903	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttcggtccagattgtttcttGagtcacttggaatactcggg	11	8	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr4:187517903G>T	uc003izf.2	-	25	12979	c.12791C>A	c.(12790-12792)TCA>TAA	p.S4264*	FAT1_uc010isn.2_5'Flank|FAT1_uc003ize.2_Nonsense_Mutation_p.S155*	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4264	Cytoplasmic (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						ATTGTTTCTTGAGTCACTTGG	0.478										HNSCC(5;0.00058)			10	11	---	---	---	---	PASS	T	187517903	T	T	187517903	4	4	43	1	0	0	0	0	0	1	0	0	5689	1294	45	2	987	2	FAT1	4	187517903	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	10922988	187517903	3636373	116	16737										
FAT1	2195	broad.mit.edu	37	chr4	187538166	187538166	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aagagctgcttaccttttcaCaaactggactgttgtcattt	7	9	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr4:187538166C>A	uc003izf.2	-	11	9256	c.9068G>T	c.(9067-9069)TGT>TTT	p.C3023F		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3023	Extracellular (Potential).|Cadherin 27.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TACCTTTTCACAAACTGGACT	0.393										HNSCC(5;0.00058)			23	18	---	---	---	---	PASS	A	187538166	A	A	187538166	3	1	43	1	0	0	0	0	1	0	0	0	5689	478	17	3	4766	3	FAT1	4	187538166	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	20263	187538166	3616110	117	16738										
FAT1	2195	broad.mit.edu	37	chr4	187584459	187584459	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtattaacacatacctgtttTaggatgtattgaaaagaatc	7	5	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr4:187584459T>A	uc003izf.2	-	3	3762	c.3574A>T	c.(3574-3576)AAA>TAA	p.K1192*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1192	Extracellular (Potential).|Cadherin 10.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						ATACCTGTTTTAGGATGTATT	0.224										HNSCC(5;0.00058)			9	8	---	---	---	---	PASS	A	187584459	A	A	187584459	4	1	43	1	0	0	0	0	0	1	0	0	5689	1763	61	5	10292	5	FAT1	4	187584459	Nonsense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08	46293	187584459	3569817	118	16739										
KIAA0947	23379	broad.mit.edu	37	chr5	5464632	5464632	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agcacgcacttcctgtgcctGgccgactcccaccctgtgca	9	18	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:5464632G>T	uc003jdm.3	+	13	5407	c.5185G>T	c.(5185-5187)GGC>TGC	p.G1729C		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1729	Pro-rich.									ovary(1)|central_nervous_system(1)	2						TCCTGTGCCTGGCCGACTCCC	0.582													9	27	---	---	---	---	PASS	T	5464632	T	T	5464632	3	4	43	1	0	0	0	0	1	0	0	0	8202	1348	47	3	5235	3	KIAA0947	5	5464632	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08		5464632	175450628	119	16740										
CTNND2	1501	broad.mit.edu	37	chr5	11082905	11082905	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tctattcggagcagctccacGaggatgggcaggcctttctc	12	12	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:11082905G>T	uc003jfa.1	-	16	2836	c.2691C>A	c.(2689-2691)CTC>CTA	p.L897L	CTNND2_uc010itt.2_Silent_p.L806L|CTNND2_uc011cmy.1_Silent_p.L560L|CTNND2_uc011cmz.1_Silent_p.L464L|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Silent_p.L489L	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	897	ARM 8.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GCAGCTCCACGAGGATGGGCA	0.552													22	40	---	---	---	---	PASS	T	11082905	T	T	11082905	2	4	43	1	0	0	0	0	0	0	0	1	4020	1045	37	2		2	CTNND2	5	11082905	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	5618273	11082905	169832355	120	16741										
TRIO	7204	broad.mit.edu	37	chr5	14331006	14331006	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gaagattttgaagaagtggcAcaggtaaaacaatggcttct	11	5	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:14331006A>G	uc003jff.2	+	10	1857	c.1851A>G	c.(1849-1851)GCA>GCG	p.A617A	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Silent_p.A568A|TRIO_uc003jfh.1_Silent_p.A266A	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	617	Spectrin 2.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					AAGAAGTGGCACAGGTAAAAC	0.398													32	79	---	---	---	---	PASS	G	14331006	G	G	14331006	2	3	43	1	0	0	0	0	0	0	0	1	16549	146	6	5		5	TRIO	5	14331006	Silent	SNP	A	TCGA-22-5472-01A-01D-1632-08	3248101	14331006	166584254	121	16742										
CDH18	1016	broad.mit.edu	37	chr5	19483489	19483489	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gaggacaggaaggcttctgcAtggcaggtccgcacacgccc	14	13	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:19483489A>G	uc003jgc.2	-	11	2180	c.1803T>C	c.(1801-1803)CAT>CAC	p.H601H	CDH18_uc003jgd.2_Silent_p.H601H|CDH18_uc011cnm.1_Missense_Mutation_p.M565T	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	601	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					AGGCTTCTGCATGGCAGGTCC	0.517													9	14	---	---	---	---	PASS	G	19483489	G	G	19483489	2	3	43	1	0	0	0	0	0	0	0	1	3103	217	8	5		5	CDH18	5	19483489	Silent	SNP	A	TCGA-22-5472-01A-01D-1632-08	5152483	19483489	161431771	122	16743										
WDR70	55100	broad.mit.edu	37	chr5	37443371	37443371	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgggtctggatccctcaggtGcccgtttggtgacaggagga	16	9	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:37443371G>T	uc003jkv.2	+	7	641	c.583G>T	c.(583-585)GCC>TCC	p.A195S	WDR70_uc010iva.1_Missense_Mutation_p.A195S	NM_018034	NP_060504	Q9NW82	WDR70_HUMAN	WD repeat domain 70	195	WD 1.									ovary(1)|central_nervous_system(1)	2	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TCCCTCAGGTGCCCGTTTGGT	0.413													11	33	---	---	---	---	PASS	T	37443371	T	T	37443371	3	4	43	1	0	0	0	0	1	0	0	0	17318	1319	46	3	609	3	WDR70	5	37443371	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	17959882	37443371	143471889	123	16744										
OSMR	9180	broad.mit.edu	37	chr5	38919142	38919142	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tctcctgcttctgtaatagtCatctctgcagaccccgaaaa	6	13	4	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:38919142C>A	uc003jln.1	+	11	1930	c.1563C>A	c.(1561-1563)GTC>GTA	p.V521V	OSMR_uc011cpj.1_5'UTR	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	521	Fibronectin type-III 2.|Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					CTGTAATAGTCATCTCTGCAG	0.398													10	44	---	---	---	---	PASS	A	38919142	A	A	38919142	2	1	43	1	0	0	0	0	0	0	0	1	11292	813	29	2		2	OSMR	5	38919142	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	1475771	38919142	141996118	124	16745										
ITGA2	3673	broad.mit.edu	37	chr5	52355737	52355737	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgggtgcagtgggagcttttGgctggagtgggaccattgtc	18	6	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:52355737G>T	uc003joy.2	+	11	1350	c.1207G>T	c.(1207-1209)GGC>TGC	p.G403C	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Missense_Mutation_p.G327C|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	403	Extracellular (Potential).|FG-GAP 3.				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				GGGAGCTTTTGGCTGGAGTGG	0.398													6	22	---	---	---	---	PASS	T	52355737	T	T	52355737	3	4	43	1	0	0	0	0	1	0	0	0	7875	1348	47	3	1249	3	ITGA2	5	52355737	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	13436595	52355737	128559523	125	16746										
SV2C	22987	broad.mit.edu	37	chr5	75427817	75427817	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctcaagtgaagccactgaggGgcatgatgaagatgatgaga	14	6	1	7			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:75427817G>T	uc003kei.1	+	2	376	c.242G>T	c.(241-243)GGG>GTG	p.G81V		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	81	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		GCCACTGAGGGGCATGATGAA	0.527													9	12	---	---	---	---	PASS	T	75427817	T	T	75427817	3	4	43	1	0	0	0	0	1	0	0	0	15416	1232	43	3	244	3	SV2C	5	75427817	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	23072080	75427817	105487443	126	16747										
RASA1	5921	broad.mit.edu	37	chr5	86672323	86672323	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aaccagggtccctgcgtgttCgagcacgatactctatggaa	11	11	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:86672323C>T	uc003kiw.2	+	16	2243	c.2125C>T	c.(2125-2127)CGA>TGA	p.R709*	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Nonsense_Mutation_p.R532*|RASA1_uc011ctv.1_Nonsense_Mutation_p.R542*|RASA1_uc011ctw.1_Nonsense_Mutation_p.R543*|RASA1_uc010jaw.2_Nonsense_Mutation_p.R531*	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	709					cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		CCTGCGTGTTCGAGCACGATA	0.398													29	20	---	---	---	---	PASS	T	86672323	T	T	86672323	4	4	43	1	0	0	0	0	0	1	0	0	13060	876	31	2	2199	2	RASA1	5	86672323	Nonsense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	11244506	86672323	94242937	127	16748										
HARS	3035	broad.mit.edu	37	chr5	140056393	140056393	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cacccaggggctcttcccctGcctgggctggggtctgtagc	14	15	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:140056393G>T	uc003lgv.2	-	10	1122	c.1040C>A	c.(1039-1041)GCA>GAA	p.A347E	HARS_uc003lgu.2_Missense_Mutation_p.A278E|HARS_uc011czm.1_Missense_Mutation_p.A307E|HARS_uc003lgw.2_Missense_Mutation_p.A327E|HARS_uc011czn.1_Missense_Mutation_p.A287E|HARS_uc010jfu.2_Missense_Mutation_p.A347E|HARS_uc011czo.1_Missense_Mutation_p.A273E|HARS_uc011czp.1_Missense_Mutation_p.A233E|HARS_uc011czq.1_Missense_Mutation_p.A237E	NM_002109	NP_002100	P12081	SYHC_HUMAN	histidyl-tRNA synthetase	347				A -> E (in Ref. 2; CAA28956).	histidyl-tRNA aminoacylation	cytosol	ATP binding|histidine-tRNA ligase activity			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		L-Histidine(DB00117)	CTCTTCCCCTGCCTGGGCTGG	0.592													33	31	---	---	---	---	PASS	T	140056393	T	T	140056393	3	4	43	1	0	0	0	0	1	0	0	0	6959	1319	46	3	505	3	HARS	5	140056393	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	53384070	140056393	40858867	128	16749										
PCDHB11	56125	broad.mit.edu	37	chr5	140580574	140580574	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttggaaacagagagaccactGgacagagagagcacagccga	13	9	0	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:140580574G>T	uc003liy.2	+	1	1227	c.1227G>T	c.(1225-1227)CTG>CTT	p.L409L	PCDHB11_uc011daj.1_Silent_p.L44L	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	409	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGAGACCACTGGACAGAGAGA	0.488													13	43	---	---	---	---	PASS	T	140580574	T	T	140580574	2	4	43	1	0	0	0	0	0	0	0	1	11536	1335	47	3		3	PCDHB11	5	140580574	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	524181	140580574	40334686	129	16750										
PCDHGB5	56101	broad.mit.edu	37	chr5	140778631	140778631	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aagagaccaaggaatattcaAtggttgtagaagggagggat	14	3	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:140778631A>G	uc003lkf.1	+	1	937	c.937A>G	c.(937-939)ATG>GTG	p.M313V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.M313V	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	313	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAATATTCAATGGTTGTAGA	0.388													50	53	---	---	---	---	PASS	G	140778631	G	G	140778631	3	3	43	1	0	0	0	0	1	0	0	0	11566	101	4	5	939	5	PCDHGB5	5	140778631	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	198057	140778631	40136629	130	16751										
SPINK5	11005	broad.mit.edu	37	chr5	147498010	147498010	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctgttttcaggacgaatgtgCtgagtatcgggaacaaatga	12	6	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:147498010C>T	uc003lox.2	+	23	2196	c.2123C>T	c.(2122-2124)GCT>GTT	p.A708V	SPINK5_uc010jgs.1_Missense_Mutation_p.A680V|SPINK5_uc010jgr.2_Missense_Mutation_p.A689V|SPINK5_uc003low.2_Missense_Mutation_p.A708V|SPINK5_uc003loy.2_Missense_Mutation_p.A708V	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	708	Kazal-like 11.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGAATGTGCTGAGTATCGG	0.418													3	46	---	---	---	---	PASS	T	147498010	T	T	147498010	3	4	43	1	0	0	0	0	1	0	0	0	15061	797	28	3	2213	3	SPINK5	5	147498010	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	6719379	147498010	33417250	131	16752										
FAT2	2196	broad.mit.edu	37	chr5	150946862	150946862	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aaatggacacttccttctccCggcgaaaaggggatccccag	10	13	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:150946862C>T	uc003lue.3	-	1	1644	c.1631G>A	c.(1630-1632)CGG>CAG	p.R544Q	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.R544Q	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	544	Cadherin 4.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTCCTTCTCCCGGCGAAAAGG	0.478													28	20	---	---	---	---	PASS	T	150946862	T	T	150946862	3	4	43	1	0	0	0	0	1	0	0	0	5690	652	23	1	11510	1	FAT2	5	150946862	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	3448852	150946862	29968398	132	16753										
OR2Y1	134083	broad.mit.edu	37	chr5	180166564	180166564	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cgatggccacagagaggcatGgccattgcgagacctgtctg	14	11	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:180166564G>T	uc003mmf.1	-	1	495	c.495C>A	c.(493-495)GCC>GCA	p.A165A		NM_001001657	NP_001001657	Q8NGV0	OR2Y1_HUMAN	olfactory receptor, family 2, subfamily Y,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(89;1.25e-05)|all_epithelial(37;4.36e-06)|Renal(175;0.000159)|Lung NSC(126;0.00317)|all_lung(126;0.0041)|Breast(19;0.114)	all_cancers(40;0.0834)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGAGAGGCATGGCCATTGCGA	0.547													4	19	---	---	---	---	PASS	T	180166564	T	T	180166564	2	4	43	1	0	0	0	0	0	0	0	1	11035	1335	47	3		3	OR2Y1	5	180166564	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	29219702	180166564	748696	133	16754										
BTNL3	10917	broad.mit.edu	37	chr5	180419856	180419856	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggcaagtttgtccaggccttGgtgggggaggacgccgtgtt	18	8	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr5:180419856G>T	uc003mmr.2	+	2	221	c.93G>T	c.(91-93)TTG>TTT	p.L31F		NM_197975	NP_932079	Q6UXE8	BTNL3_HUMAN	butyrophilin-like 3 precursor	31	Extracellular (Potential).				lipid metabolic process	integral to membrane					0	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.00336)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)|all_lung(500;0.248)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000272)			TCCAGGCCTTGGTGGGGGAGG	0.542													5	47	---	---	---	---	PASS	T	180419856	T	T	180419856	3	4	43	1	0	0	0	0	1	0	0	0	1566	1339	47	3	99	3	BTNL3	5	180419856	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	253292	180419856	495404	134	16755										
MYLK4	340156	broad.mit.edu	37	chr6	2679591	2679591	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tagttcacaacttcaggggcGagaaattctggggttccaaa	11	8	3	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:2679591G>T	uc003mty.3	-	9	1107	c.810C>A	c.(808-810)CTC>CTA	p.L270L	MYLK4_uc003mtx.3_5'UTR	NM_001012418	NP_001012418	Q86YV6	MYLK4_HUMAN	myosin light chain kinase family, member 4	270	Protein kinase.						ATP binding|protein serine/threonine kinase activity			breast(3)|ovary(1)	4	Ovarian(93;0.0412)	all_hematologic(90;0.0897)				CTTCAGGGGCGAGAAATTCTG	0.453													51	131	---	---	---	---	PASS	T	2679591	T	T	2679591	2	4	43	1	0	0	0	0	0	0	0	1	10059	1045	37	2		2	MYLK4	6	2679591	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08		2679591	168435476	135	16756										
ZFP57	346171	broad.mit.edu	37	chr6	29640440	29640440	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggacatcatgagagaagccaAgccactggcccaggatcacc	11	13	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:29640440A>T	uc011dlw.1	-	4	1599	c.1448T>A	c.(1447-1449)CTT>CAT	p.L483H	ZFP57_uc003nnl.3_Missense_Mutation_p.L463H	NM_001109809	NP_001103279	Q9NU63	ZFP57_HUMAN	zinc finger protein 57 homolog	399					DNA methylation involved in embryo development|regulation of gene expression by genetic imprinting|transcription, DNA-dependent		DNA binding|zinc ion binding			ovary(3)|skin(2)	5						AGAGAAGCCAAGCCACTGGCC	0.572													22	31	---	---	---	---	PASS	T	29640440	T	T	29640440	3	4	43	1	0	0	0	0	1	0	0	0	17648	72	3	5	166	5	ZFP57	6	29640440	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	26960849	29640440	141474627	136	16757										
C6orf15	29113	broad.mit.edu	37	chr6	31079659	31079659	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gccttgggtgagaggcctgtGgcatcgggagaagactcccc	16	11	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:31079659G>T	uc003nsk.1	-	2	477	c.477C>A	c.(475-477)GCC>GCA	p.A159A	PSORS1C1_uc003nsl.1_5'Flank|PSORS1C1_uc010jsj.1_5'Flank	NM_014070	NP_054789	Q6UXA7	CF015_HUMAN	STG protein precursor	159											0						AGAGGCCTGTGGCATCGGGAG	0.627													18	23	---	---	---	---	PASS	T	31079659	T	T	31079659	2	4	43	1	0	0	0	0	0	0	0	1	2336	1335	47	3		3	C6orf15	6	31079659	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	1439219	31079659	140035408	137	16758										
TAP2	6891	broad.mit.edu	37	chr6	32805735	32805735	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caaggggctgaagcgactctGgctgggggagcacgtgaggc	19	9	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:32805735G>T	uc003occ.2	-	1	307	c.276C>A	c.(274-276)GCC>GCA	p.A92A	TAP2_uc011dqf.1_Silent_p.A92A|TAP2_uc003ocb.1_Silent_p.A92A|TAP2_uc003ocd.2_Silent_p.A92A	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	92	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						AAGCGACTCTGGCTGGGGGAG	0.687													12	34	---	---	---	---	PASS	T	32805735	T	T	32805735	2	4	43	1	0	0	0	0	0	0	0	1	15548	1335	47	3		3	TAP2	6	32805735	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	1726076	32805735	138309332	138	16759										
COL11A2	1302	broad.mit.edu	37	chr6	33146095	33146095	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggacactcaccgactctccaGgcagccctcgaggcccaatc	9	18	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:33146095G>C	uc003ocx.1	-	20	2036	c.1808C>G	c.(1807-1809)CCT>CGT	p.P603R	COL11A2_uc010jul.1_5'Flank|COL11A2_uc003ocy.1_Missense_Mutation_p.P517R|COL11A2_uc003ocz.1_Missense_Mutation_p.P496R	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	603	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						CGACTCTCCAGGCAGCCCTCG	0.612													16	37	---	---	---	---	PASS	C	33146095	C	C	33146095	3	2	43	1	0	0	0	0	1	0	0	0	3668	1000	35	4	3590	4	COL11A2	6	33146095	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	340360	33146095	137968972	139	16760										
TAPBP	6892	broad.mit.edu	37	chr6	33281789	33281789	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggggttcgctcacccaaagcCacagcgaggagcagagacag	14	12	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:33281789C>A	uc003odx.1	-	1	201	c.30G>T	c.(28-30)GTG>GTT	p.V10V	TAPBP_uc010jus.1_Silent_p.V10V|TAPBP_uc003ody.2_Silent_p.V10V|TAPBP_uc003odz.2_Silent_p.V10V|TAPBP_uc010jut.1_Silent_p.V10V|TAPBP_uc011drc.1_Silent_p.V10V	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	10					antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1						CACCCAAAGCCACAGCGAGGA	0.627													18	36	---	---	---	---	PASS	A	33281789	A	A	33281789	2	1	43	1	0	0	0	0	0	0	0	1	15549	581	21	3		3	TAPBP	6	33281789	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	135694	33281789	137833278	140	16761										
PIM1	5292	broad.mit.edu	37	chr6	37138631	37138631	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttcggctcggtctactcaggCatccgcgtctccgacaactt	9	15	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:37138631C>A	uc003onk.2	+	2	595	c.165C>A	c.(163-165)GGC>GGA	p.G55G	PIM1_uc011dtw.1_5'Flank	NM_002648	NP_002639	P11309	PIM1_HUMAN	non-specific serine/threonine protein kinase	146	Protein kinase.				cell cycle|cell proliferation|multicellular organismal development|negative regulation of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|protein autophosphorylation	cytoplasm|nucleus|plasma membrane	ATP binding|manganese ion binding|protein binding|protein binding|protein serine/threonine kinase activity|transcription factor binding			large_intestine(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(102;0.241)		Adenosine monophosphate(DB00131)	TCTACTCAGGCATCCGCGTCT	0.517			T	BCL6	NHL								4	17	---	---	---	---	PASS	A	37138631	A	A	37138631	2	1	43	1	0	0	0	0	0	0	0	1	11927	697	25	3		3	PIM1	6	37138631	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	3856842	37138631	133976436	141	16762										
MDGA1	266727	broad.mit.edu	37	chr6	37611679	37611679	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	actaaccttgcacggtccccCagctcccgaggcctcgatgt	9	17	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:37611679C>A	uc003onu.1	-	14	3621	c.2442G>T	c.(2440-2442)CTG>CTT	p.L814L	MDGA1_uc003onv.1_Silent_p.L83L	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	814	MAM.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						CACGGTCCCCCAGCTCCCGAG	0.572													11	15	---	---	---	---	PASS	A	37611679	A	A	37611679	2	1	43	1	0	0	0	0	0	0	0	1	9406	581	21	3		3	MDGA1	6	37611679	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	473048	37611679	133503388	142	16763										
KCNK16	83795	broad.mit.edu	37	chr6	39285661	39285661	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aagatcacgttaagcgggatGcccaacagggcatagaagac	12	9	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:39285661G>T	uc003ooq.2	-	3	410	c.396C>A	c.(394-396)GGC>GGA	p.G132G	KCNK16_uc003oor.3_Silent_p.G132G|KCNK16_uc010jwy.2_Silent_p.G132G|KCNK16_uc011dtz.1_Silent_p.G132G	NM_032115	NP_115491	Q96T55	KCNKG_HUMAN	potassium channel, subfamily K, member 16	132	Helical; (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(1)	3						TAAGCGGGATGCCCAACAGGG	0.602													6	11	---	---	---	---	PASS	T	39285661	T	T	39285661	2	4	43	1	0	0	0	0	0	0	0	1	8063	1306	46	3		3	KCNK16	6	39285661	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	1673982	39285661	131829406	143	16764										
PTK7	5754	broad.mit.edu	37	chr6	43126659	43126659	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgcctggtcagtgcccagagAcaagtgaaggtgtctgccct	13	11	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:43126659A>G	uc003oub.1	+	18	3024	c.2826A>G	c.(2824-2826)AGA>AGG	p.R942R	PTK7_uc003ouc.1_Silent_p.R886R|PTK7_uc003oud.1_Silent_p.R902R|PTK7_uc003oue.1_Silent_p.R812R|PTK7_uc003ouf.1_RNA|PTK7_uc003oug.1_RNA|PTK7_uc011dve.1_Silent_p.R950R|PTK7_uc010jyj.1_Silent_p.R268R|PTK7_uc003ouh.1_5'Flank	NM_002821	NP_002812	Q13308	PTK7_HUMAN	PTK7 protein tyrosine kinase 7 isoform a	942	Cytoplasmic (Potential).|Protein kinase; inactive.|Interaction with CTNNB1.				actin cytoskeleton reorganization|canonical Wnt receptor signaling pathway|cell adhesion|cell migration	cell-cell junction|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			ovary(2)|large_intestine(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00784)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			GTGCCCAGAGACAAGTGAAGG	0.592													10	29	---	---	---	---	PASS	G	43126659	G	G	43126659	2	3	43	1	0	0	0	0	0	0	0	1	12765	272	10	5		5	PTK7	6	43126659	Silent	SNP	A	TCGA-22-5472-01A-01D-1632-08	3840998	43126659	127988408	144	16765										
AARS2	57505	broad.mit.edu	37	chr6	44272023	44272023	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcccagttcagcaggtgggtGgccgtatgcttcgccatgca	14	12	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:44272023G>T	uc010jza.1	-	14	1905	c.1902C>A	c.(1900-1902)GCC>GCA	p.A634A	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	634					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	GCAGGTGGGTGGCCGTATGCT	0.627											OREG0017473	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	53	---	---	---	---	PASS	T	44272023	T	T	44272023	2	4	43	1	0	0	0	0	0	0	0	1	20	1335	47	3		3	AARS2	6	44272023	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	1145364	44272023	126843044	145	16766										
COL21A1	81578	broad.mit.edu	37	chr6	55924040	55924040	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccccatttcttcctggtaggCctgcagggtgtcaaacatct	9	13	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:55924040C>A	uc003pcs.2	-	29	2841	c.2609G>T	c.(2608-2610)GGC>GTC	p.G870V	COL21A1_uc010jzz.2_Missense_Mutation_p.G255V|COL21A1_uc011dxg.1_Missense_Mutation_p.G243V|COL21A1_uc011dxh.1_Missense_Mutation_p.G221V|COL21A1_uc003pcr.2_Missense_Mutation_p.G227V	NM_030820	NP_110447	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1 precursor	870	Collagen-like 6.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(2)	2	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			TCCTGGTAGGCCTGCAGGGTG	0.433													4	22	---	---	---	---	PASS	A	55924040	A	A	55924040	3	1	43	1	0	0	0	0	1	0	0	0	3680	753	26	3	272	3	COL21A1	6	55924040	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	11652017	55924040	115191027	146	16767										
ZNF451	26036	broad.mit.edu	37	chr6	57012772	57012772	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcactgcatgtctttggcaaGccacaagtttcatagataca	8	10	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:57012772G>C	uc003pdm.1	+	10	2113	c.1889G>C	c.(1888-1890)AGC>ACC	p.S630T	ZNF451_uc003pdl.2_Missense_Mutation_p.S630T|ZNF451_uc003pdn.1_Missense_Mutation_p.S630T|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Missense_Mutation_p.S630T	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	630	C2H2-type 7; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TCTTTGGCAAGCCACAAGTTT	0.423													32	61	---	---	---	---	PASS	C	57012772	C	C	57012772	3	2	43	1	0	0	0	0	1	0	0	0	17919	971	34	4	1927	4	ZNF451	6	57012772	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1088732	57012772	114102295	147	16768										
MDN1	23195	broad.mit.edu	37	chr6	90435040	90435040	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttgaaagctcattcctaactCaggcacatagatttctcctc	5	12	3	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:90435040C>A	uc003pnn.1	-	38	5664	c.5548G>T	c.(5548-5550)GAG>TAG	p.E1850*		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1850					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)		ATTCCTAACTCAGGCACATAG	0.433													16	47	---	---	---	---	PASS	A	90435040	A	A	90435040	4	1	43	1	0	0	0	0	0	1	0	0	9415	835	29	2	11502	2	MDN1	6	90435040	Nonsense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	33422268	90435040	80680027	148	16769										
MDN1	23195	broad.mit.edu	37	chr6	90504480	90504480	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	actctctaggaaaagtctttGaaagactggggatgtgtcct	11	7	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:90504480G>C	uc003pnn.1	-	3	486	c.370C>G	c.(370-372)CAA>GAA	p.Q124E	MDN1_uc003pnp.1_Missense_Mutation_p.Q124E	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	124					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)		AAAAGTCTTTGAAAGACTGGG	0.353													8	64	---	---	---	---	PASS	C	90504480	C	C	90504480	3	2	43	1	0	0	0	0	1	0	0	0	9415	1299	45	2	16820	2	MDN1	6	90504480	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	69440	90504480	80610587	149	16770										
BACH2	60468	broad.mit.edu	37	chr6	90660400	90660400	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgggagtaggcctgcgagctGgggagggactggccggctcc	20	10	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:90660400G>T	uc011eab.1	-	7	2234	c.1425C>A	c.(1423-1425)CCC>CCA	p.P475P	BACH2_uc003pnw.2_Silent_p.P475P|BACH2_uc010kch.2_Silent_p.P475P	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	475						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		CCTGCGAGCTGGGGAGGGACT	0.627													11	26	---	---	---	---	PASS	T	90660400	T	T	90660400	2	4	43	1	0	0	0	0	0	0	0	1	1284	1335	47	3		3	BACH2	6	90660400	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	155920	90660400	80454667	150	16771										
C6orf167	253714	broad.mit.edu	37	chr6	97681743	97681743	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttctattcactcaccaggttCttactataatattcccataa	2	11	4	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:97681743C>T	uc003ppb.2	-	12	1562	c.1296G>A	c.(1294-1296)AAG>AAA	p.K432K	C6orf167_uc011eaf.1_Intron|C6orf167_uc010kcn.1_Silent_p.K206K|C6orf167_uc010kco.1_Silent_p.K168K	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	432					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		TCACCAGGTTCTTACTATAAT	0.308													21	51	---	---	---	---	PASS	T	97681743	T	T	97681743	2	4	43	1	0	0	0	0	0	0	0	1	2342	912	32	2		2	C6orf167	6	97681743	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	7021343	97681743	73433324	151	16772										
FYN	2534	broad.mit.edu	37	chr6	111995730	111995730	+	Silent	SNP	C	A	A													0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggcactcttcctttggtgacCagctctgtgagtaagattcc					rs142448026		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:111995730C>A	uc003pvj.2	-	12	1717	c.1377G>T	c.(1375-1377)CTG>CTT	p.L459L	FYN_uc003pvi.2_Silent_p.L404L|FYN_uc003pvk.2_Silent_p.L459L|FYN_uc003pvh.2_Silent_p.L456L	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	459	Protein kinase.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	CTTTGGTGACCAGCTCTGTGA	0.522													40	113	---	---	---	---	PASS	A	111995730	A	A	111995730	2	1	43	1	0	0	0	0	0	0	0	1	6126	581	21	3		3	FYN	6	111995730	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	14313987	111995730	59119337	152	16773	401	2								
FYN	2534	broad.mit.edu	37	chr6	111995731	111995731	+	Missense_Mutation	SNP	A	G	G													0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcactcttcctttggtgaccAgctctgtgagtaagattcca							TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:111995731A>G	uc003pvj.2	-	12	1716	c.1376T>C	c.(1375-1377)CTG>CCG	p.L459P	FYN_uc003pvi.2_Missense_Mutation_p.L404P|FYN_uc003pvk.2_Missense_Mutation_p.L459P|FYN_uc003pvh.2_Missense_Mutation_p.L456P	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	459	Protein kinase.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	TTTGGTGACCAGCTCTGTGAG	0.522													39	113	---	---	---	---	PASS	G	111995731	G	G	111995731	3	3	43	1	0	0	0	0	1	0	0	0	6126	188	7	5	245	5	FYN	6	111995731	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	1	111995731	59119336	153	16774	401	2								
ROS1	6098	broad.mit.edu	37	chr6	117622242	117622242	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctgaagttggtcctgaattcTatgaaaagtaggtctttggt	11	5	2	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:117622242T>A	uc003pxp.1	-	42	6827	c.6628A>T	c.(6628-6630)AGA>TGA	p.R2210*	ROS1_uc011ebi.1_RNA	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	2210	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TCCTGAATTCTATGAAAAGTA	0.363			T	GOPC|ROS1	glioblastoma|NSCLC								29	82	---	---	---	---	PASS	A	117622242	A	A	117622242	4	1	43	1	0	0	0	0	0	1	0	0	13531	1530	53	5	423	5	ROS1	6	117622242	Nonsense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08	5626511	117622242	53492825	154	16775										
TAAR1	134864	broad.mit.edu	37	chr6	132967003	132967003	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gttgtttgaagtgtgatataGaaacaataactatcagattg	9	3	1	4	rs149785438		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:132967003G>C	uc003qdm.1	-	1	140	c.140C>G	c.(139-141)TCT>TGT	p.S47C		NM_138327	NP_612200	Q96RJ0	TAAR1_HUMAN	trace amine associated receptor 1	47	Cytoplasmic (Potential).					plasma membrane					0	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00616)|GBM - Glioblastoma multiforme(226;0.0154)	Amphetamine(DB00182)	GTGTGATATAGAAACAATAAC	0.423													32	101	---	---	---	---	PASS	C	132967003	C	C	132967003	3	2	43	1	0	0	0	0	1	0	0	0	15486	942	33	2	883	2	TAAR1	6	132967003	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	15344761	132967003	38148064	155	16776										
UTRN	7402	broad.mit.edu	37	chr6	145119013	145119013	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tttatagattggatgcatttGgaaccacagtccatggtttg	10	6	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:145119013G>T	uc003qkt.2	+	63	9224	c.9132G>T	c.(9130-9132)TTG>TTT	p.L3044F		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	3044	Interaction with SYNM.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GGATGCATTTGGAACCACAGT	0.373													18	41	---	---	---	---	PASS	T	145119013	T	T	145119013	3	4	43	1	0	0	0	0	1	0	0	0	17100	1339	47	3	9382	3	UTRN	6	145119013	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	12152010	145119013	25996054	156	16777										
FNDC1	84624	broad.mit.edu	37	chr6	159653965	159653965	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcggaggccacggcccagacGctgcgggcccggcctgcctc	16	18	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr6:159653965G>T	uc010kjv.2	+	11	2621	c.2421G>T	c.(2419-2421)ACG>ACT	p.T807T	FNDC1_uc010kjw.1_Silent_p.T692T	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	807						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		CGGCCCAGACGCTGCGGGCCC	0.647													3	9	---	---	---	---	PASS	T	159653965	T	T	159653965	2	4	43	1	0	0	0	0	0	0	0	1	5968	1074	38	1		1	FNDC1	6	159653965	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	14534952	159653965	11461102	157	16778										
TNRC18	84629	broad.mit.edu	37	chr7	5352366	5352366	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gctggggcgcgggcgtcttcTtgcctggggagtgggccgag	21	10	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:5352366T>A	uc003soi.3	-	27	8505	c.8156A>T	c.(8155-8157)AAG>ATG	p.K2719M		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2719							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GGGCGTCTTCTTGCCTGGGGA	0.756													8	7	---	---	---	---	PASS	A	5352366	A	A	5352366	3	1	43	1	0	0	0	0	1	0	0	0	16336	1609	56	5	766	5	TNRC18	7	5352366	Missense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08		5352366	153786297	158	16779										
HDAC9	9734	broad.mit.edu	37	chr7	18788634	18788634	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cccttgtcttaaaggaattgCctatgaccccttgatgctga	8	11	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:18788634C>T	uc003suh.2	+	13	1948	c.1907C>T	c.(1906-1908)GCC>GTC	p.A636V	HDAC9_uc003sue.2_Missense_Mutation_p.A636V|HDAC9_uc011jyd.1_Missense_Mutation_p.A636V|HDAC9_uc003sui.2_Missense_Mutation_p.A639V|HDAC9_uc003suj.2_Missense_Mutation_p.A595V|HDAC9_uc003sua.1_Missense_Mutation_p.A614V|HDAC9_uc010kue.1_Missense_Mutation_p.A291V	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	636	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	AAAGGAATTGCCTATGACCCC	0.423													12	15	---	---	---	---	PASS	T	18788634	T	T	18788634	3	4	43	1	0	0	0	0	1	0	0	0	7014	739	26	3	2017	3	HDAC9	7	18788634	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	13436268	18788634	140350029	159	16780										
FKBP14	55033	broad.mit.edu	37	chr7	30066010	30066010	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccctcctttggtcttgcgatGgcagatgaatggcttctgga	12	10	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:30066010G>T	uc003tal.1	-	1	259	c.115C>A	c.(115-117)CAT>AAT	p.H39N	PLEKHA8_uc003tao.2_5'Flank|PLEKHA8_uc003tap.1_5'Flank|FKBP14_uc010kvq.1_RNA|PLEKHA8_uc003tam.1_5'Flank|PLEKHA8_uc003tan.2_5'Flank	NM_017946	NP_060416	Q9NWM8	FKB14_HUMAN	FK506 binding protein 14 precursor	39					protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0						GTCTTGCGATGGCAGATGAAT	0.468													21	57	---	---	---	---	PASS	T	30066010	T	T	30066010	3	4	43	1	0	0	0	0	1	0	0	0	5904	1348	47	3	536	3	FKBP14	7	30066010	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	11277376	30066010	129072653	160	16781										
NPC1L1	29881	broad.mit.edu	37	chr7	44560416	44560416	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gaggtgctgtatgctgccagGccgctgcaagaaggtcaggg	17	9	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:44560416G>T	uc003tlb.2	-	14	3140	c.3084C>A	c.(3082-3084)GGC>GGA	p.G1028G	NPC1L1_uc003tlc.2_Silent_p.G1028G|NPC1L1_uc011kbw.1_Silent_p.G982G|NPC1L1_uc003tla.2_Silent_p.G31G	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	1028	Cytoplasmic (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	ATGCTGCCAGGCCGCTGCAAG	0.577													30	45	---	---	---	---	PASS	T	44560416	T	T	44560416	2	4	43	1	0	0	0	0	0	0	0	1	10571	1190	42	3		3	NPC1L1	7	44560416	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	14494406	44560416	114578247	161	16782										
ABCA13	154664	broad.mit.edu	37	chr7	48319311	48319311	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aactctgaatggataacttcCacaagaactttgtttcagcc	6	10	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:48319311C>A	uc003toq.2	+	18	8545	c.8520C>A	c.(8518-8520)TCC>TCA	p.S2840S	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2840					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GGATAACTTCCACAAGAACTT	0.353													39	58	---	---	---	---	PASS	A	48319311	A	A	48319311	2	1	43	1	0	0	0	0	0	0	0	1	31	581	21	3		3	ABCA13	7	48319311	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	3758895	48319311	110819352	162	16783										
ABCA13	154664	broad.mit.edu	37	chr7	48338050	48338050	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aatctcgaatgagactatccAtagcattctagaagcaaata	6	8	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:48338050A>G	uc003toq.2	+	23	9312	c.9287A>G	c.(9286-9288)CAT>CGT	p.H3096R	ABCA13_uc010kys.1_Missense_Mutation_p.H170R	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3096					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GAGACTATCCATAGCATTCTA	0.418													15	32	---	---	---	---	PASS	G	48338050	G	G	48338050	3	3	43	1	0	0	0	0	1	0	0	0	31	217	8	5	9206	5	ABCA13	7	48338050	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	18739	48338050	110800613	163	16784										
TPST1	8460	broad.mit.edu	37	chr7	65705968	65705968	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttctcctgatggtccgagatGgccgggcatcagtacattca	11	11	3	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:65705968G>T	uc003tuw.2	+	2	908	c.556G>T	c.(556-558)GGC>TGC	p.G186C	TPST1_uc010kzy.2_Intron|TPST1_uc010kzz.2_Missense_Mutation_p.G186C|TPST1_uc010laa.2_Missense_Mutation_p.G186C	NM_003596	NP_003587	O60507	TPST1_HUMAN	tyrosylprotein sulfotransferase 1	186	Lumenal (Potential).				inflammatory response|peptidyl-tyrosine sulfation	Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity				0						GGTCCGAGATGGCCGGGCATC	0.398													25	52	---	---	---	---	PASS	T	65705968	T	T	65705968	3	4	43	1	0	0	0	0	1	0	0	0	16424	1348	47	3	558	3	TPST1	7	65705968	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	17367918	65705968	93432695	164	16785										
POM121C	100101267	broad.mit.edu	37	chr7	75051285	75051285	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcaggcacgatcttgatcgtGgacgcaggtgcaggtgtggg	18	8	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:75051285G>T	uc003udk.3	-	13	3135	c.2250C>A	c.(2248-2250)TCC>TCA	p.S750S		NM_001099415	NP_001092885	A8CG34	P121C_HUMAN	POM121 membrane glycoprotein (rat)-like	992	Pore side (Potential).				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						TCTTGATCGTGGACGCAGGTG	0.632													7	21	---	---	---	---	PASS	T	75051285	T	T	75051285	2	4	43	1	0	0	0	0	0	0	0	1	12240	1335	47	3		3	POM121C	7	75051285	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	9345317	75051285	84087378	165	16786										
HIP1	3092	broad.mit.edu	37	chr7	75171269	75171269	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tctcttggcgtttgatctgtGtcagcgtcatgcttgagaag	12	8	4	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:75171269G>T	uc003uds.1	-	29	2962	c.2921C>A	c.(2920-2922)ACA>AAA	p.T974K	HIP1_uc011kfz.1_Missense_Mutation_p.T800K	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	974	I/LWEQ.				activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						TTTGATCTGTGTCAGCGTCAT	0.468			T	PDGFRB	CMML								7	98	---	---	---	---	PASS	T	75171269	T	T	75171269	3	4	43	1	0	0	0	0	1	0	0	0	7114	1377	48	3	204	3	HIP1	7	75171269	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	119984	75171269	83967394	166	16787										
PCLO	27445	broad.mit.edu	37	chr7	82764257	82764257	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttggtgacccttttggcattGgcttggcatctggtttagga	13	7	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:82764257G>T	uc003uhx.2	-	3	2898	c.2609C>A	c.(2608-2610)CCA>CAA	p.P870Q	PCLO_uc003uhv.2_Missense_Mutation_p.P870Q	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	816	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTTTGGCATTGGCTTGGCATC	0.517													67	143	---	---	---	---	PASS	T	82764257	T	T	82764257	3	4	43	1	0	0	0	0	1	0	0	0	11583	1348	47	3	12928	3	PCLO	7	82764257	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	7592988	82764257	76374406	167	16788										
GRM3	2913	broad.mit.edu	37	chr7	86468253	86468253	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgttcaatttccaaaatgtaGgtggaaagtattcctacttg	8	6	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:86468253G>A	uc003uid.2	+	4	2522	c.1423G>A	c.(1423-1425)GGT>AGT	p.G475S	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Missense_Mutation_p.G347S|GRM3_uc010leh.2_Missense_Mutation_p.G67S	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	475	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	CCAAAATGTAGGTGGAAAGTA	0.443													14	13	---	---	---	---	PASS	A	86468253	A	A	86468253	3	1	43	1	0	0	0	0	1	0	0	0	6798	1000	35	3	1433	3	GRM3	7	86468253	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	3703996	86468253	72670410	168	16789										
STAG3	10734	broad.mit.edu	37	chr7	99786584	99786584	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gacgacctcatctccctgctCactggcctctcagactcaca	6	18	5	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:99786584C>A	uc003utx.1	+	7	815	c.660C>A	c.(658-660)CTC>CTA	p.L220L	STAG3_uc010lgs.1_Silent_p.L8L|STAG3_uc011kjk.1_Silent_p.L162L	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	220					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TCTCCCTGCTCACTGGCCTCT	0.527													18	62	---	---	---	---	PASS	A	99786584	A	A	99786584	2	1	43	1	0	0	0	0	0	0	0	1	15243	813	29	2		2	STAG3	7	99786584	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	13318331	99786584	59352079	169	16790										
C7orf52	375607	broad.mit.edu	37	chr7	100817922	100817922	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	actcccgttccgtggccaccAcgaagtccaatggctcggcc	10	17	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:100817922A>G	uc003uxy.1	-	2	406	c.167T>C	c.(166-168)GTG>GCG	p.V56A	C7orf52_uc003uxz.1_Missense_Mutation_p.V56A|C7orf52_uc003uya.1_Missense_Mutation_p.V56A|C7orf52_uc003uyb.1_Missense_Mutation_p.V56A	NM_198571	NP_940973	Q8N8M0	CG052_HUMAN	hypothetical protein LOC375607	56	N-acetyltransferase.						N-acetyltransferase activity			ovary(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					CGTGGCCACCACGAAGTCCAA	0.662													9	51	---	---	---	---	PASS	G	100817922	G	G	100817922	3	3	43	1	0	0	0	0	1	0	0	0	2401	159	6	5	954	5	C7orf52	7	100817922	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	1031338	100817922	58320741	170	16791										
RINT1	60561	broad.mit.edu	37	chr7	105177043	105177043	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gttacagttcttattggaagTaaacaagtcagtgaaggtac	10	5	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:105177043T>C	uc003vda.1	+	3	351	c.120T>C	c.(118-120)AGT>AGC	p.S40S	RINT1_uc010ljj.1_5'UTR	NM_021930	NP_068749	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1	40					cell cycle|G2/M transition DNA damage checkpoint|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane	protein binding			ovary(3)|central_nervous_system(1)	4						TTATTGGAAGTAAACAAGTCA	0.318													5	138	---	---	---	---	PASS	C	105177043	C	C	105177043	2	2	43	1	0	0	0	0	0	0	0	1	13376	1635	57	5		5	RINT1	7	105177043	Silent	SNP	T	TCGA-22-5472-01A-01D-1632-08	4359121	105177043	53961620	171	16792										
COG5	10466	broad.mit.edu	37	chr7	107002556	107002556	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	actttttgtagatgttgtacCttaaatgaaacaaatgtaaa	6	4	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:107002556C>A	uc003ved.2	-	10	1567	c.1042_splice	c.e10-1	p.V348_splice	COG5_uc003vec.2_Splice_Site_p.V348_splice|COG5_uc003vee.2_Splice_Site_p.V348_splice	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform						intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						GATGTTGTACCTTAAATGAAA	0.318													6	16	---	---	---	---	PASS	A	107002556	A	A	107002556	5	1	43	1	0	0	0	0	0	0	1	0	3661	695	24	3	1597	3	COG5	7	107002556	Splice_Site	SNP	C	TCGA-22-5472-01A-01D-1632-08	1825513	107002556	52136107	172	16793										
LAMB4	22798	broad.mit.edu	37	chr7	107746981	107746981	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtaggggctataagggttttCaatttcaaaactgggatcca	11	6	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:107746981C>T	uc010ljo.1	-	7	712	c.628G>A	c.(628-630)GAA>AAA	p.E210K	LAMB4_uc003vey.2_Missense_Mutation_p.E210K	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	210	Laminin N-terminal.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						TAAGGGTTTTCAATTTCAAAA	0.289													11	24	---	---	---	---	PASS	T	107746981	T	T	107746981	3	4	43	1	0	0	0	0	1	0	0	0	8613	835	29	2	4769	2	LAMB4	7	107746981	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	744425	107746981	51391682	173	16794										
C7orf58	79974	broad.mit.edu	37	chr7	120780971	120780971	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tccaaagatcaaagattattActgtgaagtcccatttgatg	7	7	1	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:120780971A>T	uc003vjq.3	+	15	2237	c.1790A>T	c.(1789-1791)TAC>TTC	p.Y597F	C7orf58_uc003vjs.3_Missense_Mutation_p.Y597F|C7orf58_uc003vjt.3_Missense_Mutation_p.Y377F	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	597						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					AAAGATTATTACTGTGAAGTC	0.413													15	32	---	---	---	---	PASS	T	120780971	T	T	120780971	3	4	43	1	0	0	0	0	1	0	0	0	2405	391	14	5	1844	5	C7orf58	7	120780971	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	13033990	120780971	38357692	174	16795										
CPA1	1357	broad.mit.edu	37	chr7	130021492	130021492	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tggacttctggcgggggcctGcccaccctggctcccccatc	12	18	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:130021492G>T	uc003vpx.2	+	3	241	c.169G>T	c.(169-171)GCC>TCC	p.A57S	CPA1_uc011kpf.1_Intron|CPA1_uc003vpw.2_Missense_Mutation_p.A57S	NM_001868	NP_001859	P15085	CBPA1_HUMAN	carboxypeptidase A1 precursor	57					proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					GCGGGGGCCTGCCCACCCTGG	0.667													4	31	---	---	---	---	PASS	T	130021492	T	T	130021492	3	4	43	1	0	0	0	0	1	0	0	0	3789	1319	46	3	179	3	CPA1	7	130021492	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	9240521	130021492	29117171	175	16796										
PLXNA4	91584	broad.mit.edu	37	chr7	131853253	131853253	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aagcgtgcggatgaaggacaGcaggaacaccttgttgttga	14	7	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:131853253G>T	uc003vra.3	-	22	4325	c.4096C>A	c.(4096-4098)CTG>ATG	p.L1366M		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1366	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						ATGAAGGACAGCAGGAACACC	0.602													20	21	---	---	---	---	PASS	T	131853253	T	T	131853253	3	4	43	1	0	0	0	0	1	0	0	0	12122	962	34	3	1632	3	PLXNA4	7	131853253	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1831761	131853253	27285410	176	16797										
DGKI	9162	broad.mit.edu	37	chr7	137270076	137270076	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gacacaggatcttagaaacaGgttcatcagtgtagccctga	10	9	3	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:137270076G>T	uc003vtt.2	-	14	1443	c.1442C>A	c.(1441-1443)CCT>CAT	p.P481H	DGKI_uc003vtu.2_Missense_Mutation_p.P181H	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	481	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						CTTAGAAACAGGTTCATCAGT	0.478													21	43	---	---	---	---	PASS	T	137270076	T	T	137270076	3	4	43	1	0	0	0	0	1	0	0	0	4471	1000	35	3	1839	3	DGKI	7	137270076	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	5416823	137270076	21868587	177	16798										
DGKI	9162	broad.mit.edu	37	chr7	137304674	137304674	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atgcagcatgaagcaggtcaCcttattgtgaaactgaagag	11	7	1	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:137304674C>A	uc003vtt.2	-	8	890	c.889G>T	c.(889-891)GTG>TTG	p.V297L	DGKI_uc003vtu.2_5'UTR	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	297	Phorbol-ester/DAG-type 2.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						AAGCAGGTCACCTTATTGTGA	0.408													29	52	---	---	---	---	PASS	A	137304674	A	A	137304674	3	1	43	1	0	0	0	0	1	0	0	0	4471	507	18	3	2416	3	DGKI	7	137304674	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	34598	137304674	21833989	178	16799										
CNTNAP2	26047	broad.mit.edu	37	chr7	146829579	146829579	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aacatcacacagaccaagatGagccaaatcgatatttcctc	5	12	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:146829579G>T	uc003weu.1	+	8	1842	c.1326G>T	c.(1324-1326)ATG>ATT	p.M442I		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	442	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			AGACCAAGATGAGCCAAATCG	0.403										HNSCC(39;0.1)			20	45	---	---	---	---	PASS	T	146829579	T	T	146829579	3	4	43	1	0	0	0	0	1	0	0	0	3647	1290	45	2	1356	2	CNTNAP2	7	146829579	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	9524905	146829579	12309084	179	16800										
REPIN1	29803	broad.mit.edu	37	chr7	150069192	150069192	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cgcaccggcgcatccacaccGgcgagaagccctacccgtgc	11	19	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr7:150069192G>T	uc010lpq.1	+	4	1351	c.862G>T	c.(862-864)GGC>TGC	p.G288C	REPIN1_uc003whd.2_Missense_Mutation_p.G277C|REPIN1_uc010lpr.1_Missense_Mutation_p.G345C|REPIN1_uc003whc.2_Missense_Mutation_p.G288C|REPIN1_uc003whe.2_Missense_Mutation_p.G288C	NM_013400	NP_037532	Q9BWE0	REPI1_HUMAN	replication initiator 1 isoform 1	288					DNA replication	nuclear origin of replication recognition complex	DNA binding|zinc ion binding			pancreas(1)	1	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)			CATCCACACCGGCGAGAAGCC	0.657													6	8	---	---	---	---	PASS	T	150069192	T	T	150069192	3	4	43	1	0	0	0	0	1	0	0	0	13227	1116	39	1	1039	1	REPIN1	7	150069192	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	3239613	150069192	9069471	180	16801										
C8orf58	541565	broad.mit.edu	37	chr8	22458472	22458472	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	acagacggatccccgacgctGcccacgggtgctcatcctgg	12	16	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:22458472G>T	uc003xce.2	+	2	230	c.118G>T	c.(118-120)GCC>TCC	p.A40S	C8orf58_uc011kzl.1_Missense_Mutation_p.A40S|C8orf58_uc003xcf.2_Missense_Mutation_p.A40S	NM_001013842	NP_001013864	Q8NAV2	CH058_HUMAN	hypothetical protein LOC541565	40										skin(1)	1		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00563)|Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		CCCCGACGCTGCCCACGGGTG	0.632													16	8	---	---	---	---	PASS	T	22458472	T	T	22458472	3	4	43	1	0	0	0	0	1	0	0	0	2433	1319	46	3	124	3	C8orf58	8	22458472	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08		22458472	123905550	181	16802										
EPHX2	2053	broad.mit.edu	37	chr8	27358525	27358525	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aaggagagatcacactttccCaggtgaggggacatcaccac	11	11	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:27358525C>A	uc003xfu.2	+	2	265	c.184C>A	c.(184-186)CAG>AAG	p.Q62K	EPHX2_uc010lut.1_Missense_Mutation_p.Q62K|EPHX2_uc010luu.2_Missense_Mutation_p.Q62K|EPHX2_uc010luv.2_5'UTR|EPHX2_uc003xfv.2_Missense_Mutation_p.Q9K|EPHX2_uc010luw.2_Intron	NM_001979	NP_001970	P34913	HYES_HUMAN	epoxide hydrolase 2, cytoplasmic	62	Phosphatase.				aromatic compound catabolic process|cellular calcium ion homeostasis|drug metabolic process|inflammatory response|positive regulation of vasodilation|reactive oxygen species metabolic process|regulation of blood pressure|response to toxin|xenobiotic metabolic process	cytosol|focal adhesion|Golgi apparatus|nucleolus|peroxisome|soluble fraction	epoxide hydrolase activity|metal ion binding|protein homodimerization activity			ovary(1)	1		Ovarian(32;2.61e-05)|all_epithelial(46;0.207)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0226)|Epithelial(17;1.12e-09)|Colorectal(74;0.157)	Tamoxifen(DB00675)	CACACTTTCCCAGGTGAGGGG	0.522													21	40	---	---	---	---	PASS	A	27358525	A	A	27358525	3	1	43	1	0	0	0	0	1	0	0	0	5180	595	21	3	190	3	EPHX2	8	27358525	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	4900053	27358525	119005497	182	16803										
FZD3	7976	broad.mit.edu	37	chr8	28385175	28385175	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tctatttttttactatggctGgcagtgtatggtgggtaatt	11	4	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:28385175G>T	uc003xgx.2	+	5	1376	c.898G>T	c.(898-900)GGC>TGC	p.G300C	FZD3_uc010lvb.2_Missense_Mutation_p.G300C	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	300	Helical; Name=3; (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		TACTATGGCTGGCAGTGTATG	0.413													14	79	---	---	---	---	PASS	T	28385175	T	T	28385175	3	4	43	1	0	0	0	0	1	0	0	0	6131	1348	47	3	908	3	FZD3	8	28385175	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1026650	28385175	117978847	183	16804										
UBXN8	7993	broad.mit.edu	37	chr8	30623785	30623785	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gaattgggtaccacatatctCtatacagcctttctacttcc	5	12	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:30623785C>A	uc003xii.2	+	10	705	c.688C>A	c.(688-690)CTA>ATA	p.L230I	UBXN8_uc010lvi.2_3'UTR|UBXN8_uc011lbb.1_RNA|UBXN8_uc003xij.2_RNA	NM_005671	NP_005662	O00124	UBXN8_HUMAN	reproduction 8	230	UBX.				single fertilization						0						CCACATATCTCTATACAGCCT	0.458													12	29	---	---	---	---	PASS	A	30623785	A	A	30623785	3	1	43	1	0	0	0	0	1	0	0	0	16916	912	32	2	717	2	UBXN8	8	30623785	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2238610	30623785	115740237	184	16805										
PURG	29942	broad.mit.edu	37	chr8	30889972	30889972	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttcagctccgctgccacagaCagggagagggtcagtttact	12	11	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:30889972C>A	uc003xin.2	-	1	346	c.327G>T	c.(325-327)CTG>CTT	p.L109L	WRN_uc003xio.3_5'Flank|PURG_uc003xim.1_Silent_p.L109L	NM_013357	NP_037489	Q9UJV8	PURG_HUMAN	purine-rich element binding protein G isoform A	109	By similarity.					nucleus	DNA binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.0895)|Kidney(114;0.108)		CTGCCACAGACAGGGAGAGGG	0.577													15	63	---	---	---	---	PASS	A	30889972	A	A	30889972	2	1	43	1	0	0	0	0	0	0	0	1	12829	465	17	3		3	PURG	8	30889972	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	266187	30889972	115474050	185	16806										
STAR	6770	broad.mit.edu	37	chr8	38005748	38005748	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tccttcttccagccctcttgGttgctaaggatgcccaaggc	9	14	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:38005748G>C	uc003xkv.1	-	3	540	c.276C>G	c.(274-276)AAC>AAG	p.N92K	STAR_uc010lwc.1_Missense_Mutation_p.N54K	NM_001007243	NP_001007244	P49675	STAR_HUMAN	steroidogenic acute regulatory protein isoform	92	START.				C21-steroid hormone biosynthetic process	mitochondrial intermembrane space	cholesterol transporter activity			ovary(1)	1	Colorectal(12;0.000442)	all_lung(54;0.0151)|Lung NSC(58;0.0295)		READ - Rectum adenocarcinoma(644;0.188)		AGCCCTCTTGGTTGCTAAGGA	0.582													10	21	---	---	---	---	PASS	C	38005748	C	C	38005748	3	2	43	1	0	0	0	0	1	0	0	0	15253	1252	44	4	601	4	STAR	8	38005748	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	7115776	38005748	108358274	186	16807										
ADAM2	2515	broad.mit.edu	37	chr8	39613342	39613342	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agcaatgcagagatgtccacTtatgttggcataaataatag	9	6	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:39613342T>A	uc003xnj.2	-	16	1777	c.1702A>T	c.(1702-1704)AGT>TGT	p.S568C	ADAM2_uc003xnk.2_Missense_Mutation_p.S549C|ADAM2_uc011lck.1_Intron|ADAM2_uc003xnl.2_Splice_Site_p.D412_splice	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	568	Extracellular (Potential).|Cys-rich.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		AGATGTCCACTTATGTTGGCA	0.348													41	47	---	---	---	---	PASS	A	39613342	A	A	39613342	3	1	43	1	0	0	0	0	1	0	0	0	241	1609	56	5	525	5	ADAM2	8	39613342	Missense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08	1607594	39613342	106750680	187	16808										
SFRP1	6422	broad.mit.edu	37	chr8	41166484	41166484	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cccacgttgtggcacagccgCaggtccgcggggatgtccac	14	15	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:41166484C>A	uc003xnt.2	-	1	497	c.195G>T	c.(193-195)CTG>CTT	p.L65L		NM_003012	NP_003003	Q8N474	SFRP1_HUMAN	secreted frizzled-related protein 1 precursor	65	FZ.				brain development|canonical Wnt receptor signaling pathway|cellular response to BMP stimulus|cellular response to estradiol stimulus|cellular response to fibroblast growth factor stimulus|cellular response to heparin|cellular response to hypoxia|cellular response to interleukin-1|cellular response to prostaglandin E stimulus|cellular response to starvation|cellular response to transforming growth factor beta stimulus|cellular response to tumor necrosis factor|cellular response to vitamin D|DNA fragmentation involved in apoptotic nuclear change|dorsal/ventral axis specification|hemopoietic progenitor cell differentiation|hemopoietic stem cell differentiation|menstrual cycle phase|negative regulation of androgen receptor signaling pathway|negative regulation of B cell differentiation|negative regulation of bone remodeling|negative regulation of canonical Wnt receptor signaling pathway involved in controlling type B pancreatic cell proliferation|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cysteine-type endopeptidase activity|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast apoptosis|negative regulation of fibroblast proliferation|negative regulation of insulin secretion|negative regulation of ossification|negative regulation of osteoblast proliferation|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|osteoblast differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell growth|positive regulation of epithelial cell proliferation|positive regulation of fat cell differentiation|positive regulation of fibroblast apoptosis|positive regulation of focal adhesion assembly|positive regulation of non-canonical Wnt receptor signaling pathway|positive regulation of Rac GTPase activity|positive regulation of smoothened signaling pathway|positive regulation of stress fiber assembly|positive regulation of transcription, DNA-dependent|regulation of angiogenesis|regulation of cell cycle process|response to drug|response to organic cyclic compound|vasculature development	cell surface|cytosol|extracellular space|plasma membrane|proteinaceous extracellular matrix	cysteine-type endopeptidase activity|drug binding|frizzled binding|heparin binding|identical protein binding|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1	Breast(1;9.19e-13)|Ovarian(28;0.00769)|Colorectal(14;0.0305)|Lung SC(25;0.211)	all_lung(54;0.0034)|Lung NSC(58;0.0134)|Hepatocellular(245;0.023)|Esophageal squamous(32;0.0559)	BRCA - Breast invasive adenocarcinoma(1;1.11e-10)|LUSC - Lung squamous cell carcinoma(45;0.00894)|COAD - Colon adenocarcinoma(11;0.0174)			GGCACAGCCGCAGGTCCGCGG	0.642													11	11	---	---	---	---	PASS	A	41166484	A	A	41166484	2	1	43	1	0	0	0	0	0	0	0	1	14161	697	25	3		3	SFRP1	8	41166484	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	1553142	41166484	105197538	188	16809										
ANK1	286	broad.mit.edu	37	chr8	41519387	41519387	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atcctccaggggcccctctaCagtcacctcctcgtgctcct	7	19	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:41519387C>A	uc003xok.2	-	41	5635	c.5551G>T	c.(5551-5553)GTA>TTA	p.V1851L	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Intron|ANK1_uc003xoi.2_Intron|ANK1_uc003xoj.2_Intron|ANK1_uc003xol.2_Missense_Mutation_p.V1689L|ANK1_uc003xom.2_Intron|ANK1_uc011lcl.1_Intron|ANK1_uc003xod.2_Intron|ANK1_uc003xoc.2_Missense_Mutation_p.V126L|ANK1_uc003xof.2_Intron|MIR486_hsa-mir-486|MI0002470_5'Flank	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1851	55 kDa regulatory domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			GGCCCCTCTACAGTCACCTCC	0.582													16	42	---	---	---	---	PASS	A	41519387	A	A	41519387	3	1	43	1	0	0	0	0	1	0	0	0	620	478	17	3	205	3	ANK1	8	41519387	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	352903	41519387	104844635	189	16810										
PXDNL	137902	broad.mit.edu	37	chr8	52321195	52321195	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cttcctggcttcctggtaaaCcgtgtttccctcccagtggg	10	14	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:52321195C>A	uc003xqu.3	-	17	3090	c.2989G>T	c.(2989-2991)GTT>TTT	p.V997F	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	997					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TCCTGGTAAACCGTGTTTCCC	0.632													6	6	---	---	---	---	PASS	A	52321195	A	A	52321195	3	1	43	1	0	0	0	0	1	0	0	0	12848	507	18	3	1430	3	PXDNL	8	52321195	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	10801808	52321195	94042827	190	16811										
CYP7B1	9420	broad.mit.edu	37	chr8	65527693	65527693	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caatttcgtcacgcactgctGccatagcttctgggtgccgc	10	14	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:65527693G>T	uc003xvj.2	-	4	1151	c.947C>A	c.(946-948)GCA>GAA	p.A316E		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	316					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				ACGCACTGCTGCCATAGCTTC	0.488													18	34	---	---	---	---	PASS	T	65527693	T	T	65527693	3	4	43	1	0	0	0	0	1	0	0	0	4197	1319	46	3	585	3	CYP7B1	8	65527693	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	13206498	65527693	80836329	191	16812										
TRPA1	8989	broad.mit.edu	37	chr8	72984099	72984099	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atatgcacttccttcaaaaaCcacctagaggtatttaaaca	4	10	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:72984099C>A	uc003xza.2	-	2	290	c.115G>T	c.(115-117)GTT>TTT	p.V39F		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	39	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	CCTTCAAAAACCACCTAGAGG	0.318													10	39	---	---	---	---	PASS	A	72984099	A	A	72984099	3	1	43	1	0	0	0	0	1	0	0	0	16574	507	18	3	3348	3	TRPA1	8	72984099	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	7456406	72984099	73379923	192	16813										
STAU2	27067	broad.mit.edu	37	chr8	74464340	74464340	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gaacttccttttaaacctatGgcttcagctgtagaagatgt	8	8	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:74464340G>T	uc003xzm.2	-	13	1673	c.1437C>A	c.(1435-1437)GCC>GCA	p.A479A	STAU2_uc011lfg.1_Silent_p.A307A|STAU2_uc003xzn.2_Silent_p.A447A|STAU2_uc011lfh.1_Silent_p.A375A|STAU2_uc003xzo.2_Silent_p.A479A|STAU2_uc003xzp.2_Silent_p.A447A|STAU2_uc011lfi.1_Silent_p.A441A|STAU2_uc003xzq.2_Silent_p.A259A|STAU2_uc010lzk.2_Silent_p.A447A|STAU2_uc010lzl.1_Silent_p.A307A	NM_014393	NP_055208	Q9NUL3	STAU2_HUMAN	staufen homolog 2 isoform e	479	Required for dendritic transport (By similarity).				transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)			TTAAACCTATGGCTTCAGCTG	0.408													31	85	---	---	---	---	PASS	T	74464340	T	T	74464340	2	4	43	1	0	0	0	0	0	0	0	1	15272	1335	47	3		3	STAU2	8	74464340	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	1480241	74464340	71899682	193	16814										
CSMD3	114788	broad.mit.edu	37	chr8	113988090	113988090	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atgagtaacaactgcaagctCtttagttctttctatctgtt	6	8	4	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:113988090C>A	uc003ynu.2	-	7	1477	c.1318G>T	c.(1318-1320)GAG>TAG	p.E440*	CSMD3_uc003ynt.2_Nonsense_Mutation_p.E400*|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	440	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ACTGCAAGCTCTTTAGTTCTT	0.413										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			38	103	---	---	---	---	PASS	A	113988090	A	A	113988090	4	1	43	1	0	0	0	0	0	1	0	0	3946	922	32	2	10065	2	CSMD3	8	113988090	Nonsense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	39523750	113988090	32375932	194	16815										
ENPP2	5168	broad.mit.edu	37	chr8	120628554	120628554	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atttctctcgccctcgcagaTgaaaagtggcatcaaataca	7	11	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:120628554T>C	uc003yot.1	-	8	814	c.728A>G	c.(727-729)CAT>CGT	p.H243R	ENPP2_uc003yos.1_Missense_Mutation_p.H243R|ENPP2_uc010mdd.1_Missense_Mutation_p.H243R	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	243					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CCCTCGCAGATGAAAAGTGGC	0.363													14	39	---	---	---	---	PASS	C	120628554	C	C	120628554	3	2	43	1	0	0	0	0	1	0	0	0	5130	1464	51	5	2174	5	ENPP2	8	120628554	Missense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08	6640464	120628554	25735468	195	16816										
COL22A1	169044	broad.mit.edu	37	chr8	139674273	139674273	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cgccatttctctgtacttacGtcccggccggctgggccctg	11	16	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:139674273G>T	uc003yvd.2	-	43	3687	c.3240C>A	c.(3238-3240)GAC>GAA	p.D1080E	COL22A1_uc011ljo.1_Missense_Mutation_p.D360E	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1080	Pro-rich.|Gly-rich.|Collagen-like 9.				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)			CTGTACTTACGTCCCGGCCGG	0.552										HNSCC(7;0.00092)			21	56	---	---	---	---	PASS	T	139674273	T	T	139674273	3	4	43	1	0	0	0	0	1	0	0	0	3681	1159	40	1	1732	1	COL22A1	8	139674273	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	19045719	139674273	6689749	196	16817										
PTK2	5747	broad.mit.edu	37	chr8	141675018	141675018	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gggaagattgtgccctacctCtcggtgggtgctggctggta	16	9	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:141675018C>T	uc003yvu.2	-	31	3174	c.2944G>A	c.(2944-2946)GAG>AAG	p.E982K	PTK2_uc011ljp.1_Missense_Mutation_p.E290K|PTK2_uc003yvo.2_Missense_Mutation_p.E610K|PTK2_uc011ljq.1_Missense_Mutation_p.E680K|PTK2_uc003yvp.2_Missense_Mutation_p.E650K|PTK2_uc003yvq.2_Missense_Mutation_p.E487K|PTK2_uc003yvr.2_Missense_Mutation_p.E925K|PTK2_uc003yvs.2_Missense_Mutation_p.E936K|PTK2_uc003yvt.2_Missense_Mutation_p.E1004K|PTK2_uc003yvv.2_Missense_Mutation_p.E885K|PTK2_uc011ljr.1_Missense_Mutation_p.E995K	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	982	Interaction with TGFB1I1.|Interaction with RGNEF (By similarity).				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			TGCCCTACCTCTCGGTGGGTG	0.577													9	11	---	---	---	---	PASS	T	141675018	T	T	141675018	3	4	43	1	0	0	0	0	1	0	0	0	12762	922	32	2	222	2	PTK2	8	141675018	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2000745	141675018	4689004	197	16818										
RHPN1	114822	broad.mit.edu	37	chr8	144457734	144457745	+	In_Frame_Del	DEL	CCTGACGCAGAT	-	-													0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tccctgcagggctgtgactcCctgacgcagatccagtgcgg							TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:144457734_144457745delCCTGACGCAGAT	uc003yyb.2	+	2	205_216	c.72_83delCCTGACGCAGAT	c.(70-84)TCCCTGACGCAGATC>TCC	p.LTQI25del		NM_052924	NP_443156	Q8TCX5	RHPN1_HUMAN	rhophilin 1	25_28					signal transduction	intracellular				large_intestine(1)	1	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.156)			GCTGTGACTCCCTGACGCAGATCCAGTGCGGC	0.665													6	3	---	---	---	---		-	144457745	-	-	144457734	7	5	43	1	0	1	0	1	0	0	0	0	13350	610	22	0	78	0	RHPN1	8	144457734	In_Frame_Del	DEL	CCTGACGCAGAT	TCGA-22-5472-01A-01D-1632-08	2782716	144457734	1906288	198	16819										
RECQL4	9401	broad.mit.edu	37	chr8	145739739	145739739	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tcagcacgtgtacctgggctGcccgaatctgaaggcagcaa	12	12	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr8:145739739G>A	uc003zdj.2	-	11	1744	c.1712C>T	c.(1711-1713)GCA>GTA	p.A571V		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	571	Helicase ATP-binding.				DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			TACCTGGGCTGCCCGAATCTG	0.657			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				4	12	---	---	---	---	PASS	A	145739739	A	A	145739739	3	1	43	1	0	0	0	0	1	0	0	0	13202	1319	46	3	1959	3	RECQL4	8	145739739	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1282005	145739739	624283	199	16820										
RFX3	5991	broad.mit.edu	37	chr9	3263017	3263017	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tctgaagcactgcacgagctGcctgggccaggtgattaagc	13	11	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr9:3263017G>T	uc003zhr.2	-	14	1835	c.1523C>A	c.(1522-1524)GCA>GAA	p.A508E	RFX3_uc010mhd.2_Missense_Mutation_p.A508E|RFX3_uc003zhs.1_Missense_Mutation_p.A508E	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	508					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		TGCACGAGCTGCCTGGGCCAG	0.493													17	34	---	---	---	---	PASS	T	3263017	T	T	3263017	3	4	43	1	0	0	0	0	1	0	0	0	13264	1319	46	3	902	3	RFX3	9	3263017	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08		3263017	137950414	200	16821										
CDC37L1	55664	broad.mit.edu	37	chr9	4685026	4685026	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tccttggatcaggagcatgcCaaagcacaaacagcagtatc	9	11	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr9:4685026C>A	uc003zio.2	+	2	492	c.282C>A	c.(280-282)GCC>GCA	p.A94A		NM_017913	NP_060383	Q7L3B6	CD37L_HUMAN	cell division cycle 37 homolog (S.	94	Potential.|Self-association.					cytoplasm					0	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0318)		AGGAGCATGCCAAAGCACAAA	0.468													25	31	---	---	---	---	PASS	A	4685026	A	A	4685026	2	1	43	1	0	0	0	0	0	0	0	1	3069	581	21	3		3	CDC37L1	9	4685026	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	1422009	4685026	136528405	201	16822										
ALDH1A1	216	broad.mit.edu	37	chr9	75526976	75526976	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctcctccacattccagtttGgccccttctttcttcccact	3	19	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr9:75526976G>T	uc004ajd.2	-	10	1151	c.1098C>A	c.(1096-1098)GCC>GCA	p.A366A	ALDH1A1_uc011lsh.1_Silent_p.A287A|ALDH1A1_uc011lsg.1_Silent_p.A192A	NM_000689	NP_000680	P00352	AL1A1_HUMAN	aldehyde dehydrogenase 1A1	366					cellular aldehyde metabolic process|ethanol oxidation|xenobiotic metabolic process	cytosol	aldehyde dehydrogenase (NAD) activity|androgen binding|Ras GTPase activator activity|retinal dehydrogenase activity			ovary(3)|lung(1)	4					NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	ATTCCAGTTTGGCCCCTTCTT	0.413													5	76	---	---	---	---	PASS	T	75526976	T	T	75526976	2	4	43	1	0	0	0	0	0	0	0	1	490	1335	47	3		3	ALDH1A1	9	75526976	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	70841950	75526976	65686455	202	16823										
GNA14	9630	broad.mit.edu	37	chr9	80049351	80049351	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctcctggatgcctggatcttGccagagctgcttgatggcct	12	12	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr9:80049351G>T	uc004aku.2	-	3	920	c.397C>A	c.(397-399)CAA>AAA	p.Q133K		NM_004297	NP_004288	O95837	GNA14_HUMAN	G alpha 14	133					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(2)	2						CCTGGATCTTGCCAGAGCTGC	0.562											OREG0019263	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	24	---	---	---	---	PASS	T	80049351	T	T	80049351	3	4	43	1	0	0	0	0	1	0	0	0	6502	1328	46	3	690	3	GNA14	9	80049351	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	4522375	80049351	61164080	203	16824										
PTPDC1	138639	broad.mit.edu	37	chr9	96859732	96859732	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctctgtgtaagggaatttaCtcagtttctaactcctctcc	6	12	4	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr9:96859732C>A	uc004auf.1	+	7	1062	c.722C>A	c.(721-723)ACT>AAT	p.T241N	PTPDC1_uc004aug.1_Missense_Mutation_p.T241N|PTPDC1_uc004auh.1_Missense_Mutation_p.T293N|PTPDC1_uc010mrj.1_Missense_Mutation_p.T295N|PTPDC1_uc010mri.1_Missense_Mutation_p.T293N	NM_177995	NP_818931	A2A3K4	PTPC1_HUMAN	protein tyrosine phosphatase domain containing 1	241							protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1						AGGGAATTTACTCAGTTTCTA	0.453													9	86	---	---	---	---	PASS	A	96859732	A	A	96859732	3	1	43	1	0	0	0	0	1	0	0	0	12773	565	20	3	986	3	PTPDC1	9	96859732	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	16810381	96859732	44353699	204	16825										
RAB14	51552	broad.mit.edu	37	chr9	123945598	123945598	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aagaaactcaccattttcttCagcaaactgtttggcttctt	5	10	4	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr9:123945598C>A	uc004blc.2	-	6	886	c.430G>T	c.(430-432)GAA>TAA	p.E144*		NM_016322	NP_057406	P61106	RAB14_HUMAN	GTPase Rab14	144					embryo development|fibroblast growth factor receptor signaling pathway|Golgi to endosome transport|neurotransmitter secretion|protein transport|small GTPase mediated signal transduction	cytosol|early endosome membrane|Golgi membrane|Golgi stack|late endosome|lysosome|membrane fraction|nuclear outer membrane-endoplasmic reticulum membrane network|perinuclear region of cytoplasm|rough endoplasmic reticulum|trans-Golgi network transport vesicle	GDP binding|GTP binding|GTPase activity				0						CCATTTTCTTCAGCAAACTGT	0.333													27	61	---	---	---	---	PASS	A	123945598	A	A	123945598	4	1	43	1	0	0	0	0	0	1	0	0	12900	835	29	2	229	2	RAB14	9	123945598	Nonsense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	27085866	123945598	17267833	205	16826										
OR1J4	26219	broad.mit.edu	37	chr9	125281491	125281491	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cccatctggccagagcagcaGgctgtgttcttcaccctgtt	10	14	3	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr9:125281491G>T	uc011lyw.1	+	1	72	c.72G>T	c.(70-72)CAG>CAT	p.Q24H		NM_001004452	NP_001004452	Q8NGS1	OR1J4_HUMAN	olfactory receptor, family 1, subfamily J,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CAGAGCAGCAGGCTGTGTTCT	0.557													28	66	---	---	---	---	PASS	T	125281491	T	T	125281491	3	4	43	1	0	0	0	0	1	0	0	0	10961	991	35	3	74	3	OR1J4	9	125281491	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1335893	125281491	15931940	206	16827										
PTGES2	80142	broad.mit.edu	37	chr9	130885221	130885221	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	acacacacttgcctgctcttGagtcgcttgctgatgaggta	10	11	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr9:130885221G>C	uc004bti.2	-	5	1357	c.879C>G	c.(877-879)CTC>CTG	p.L293L	PTGES2_uc004btj.2_RNA|PTGES2_uc004btk.2_Silent_p.L102L|PTGES2_uc004btl.2_Silent_p.L102L|PTGES2_uc004btm.2_RNA	NM_025072	NP_079348	Q9H7Z7	PGES2_HUMAN	prostaglandin E synthase 2	293	GST C-terminal.|Cytoplasmic (Potential).				cell redox homeostasis|prostaglandin biosynthetic process	Golgi membrane|integral to membrane|mitochondrion|perinuclear region of cytoplasm	electron carrier activity|prostaglandin-E synthase activity|protein binding|protein disulfide oxidoreductase activity				0						GCCTGCTCTTGAGTCGCTTGC	0.627													5	28	---	---	---	---	PASS	C	130885221	C	C	130885221	2	2	43	1	0	0	0	0	0	0	0	1	12747	1277	45	2		2	PTGES2	9	130885221	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	5603730	130885221	10328210	207	16828										
NTNG2	84628	broad.mit.edu	37	chr9	135073791	135073791	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgcgcttcgaggtgcgggacCgcttcgccatctttgccggc	14	14	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr9:135073791C>A	uc004cbh.2	+	3	1428	c.652C>A	c.(652-654)CGC>AGC	p.R218S		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	218	Laminin N-terminal.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		GGTGCGGGACCGCTTCGCCAT	0.647													22	32	---	---	---	---	PASS	A	135073791	A	A	135073791	3	1	43	1	0	0	0	0	1	0	0	0	10705	652	23	1	658	1	NTNG2	9	135073791	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	4188570	135073791	6139640	208	16829										
FCN2	2220	broad.mit.edu	37	chr9	137772699	137772699	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cagagctgtgggggtcctggGcgctgccaccctgctgctct	15	14	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr9:137772699G>T	uc004cfg.1	+	1	42	c.32G>T	c.(31-33)GGC>GTC	p.G11V	FCN2_uc004cfh.1_Missense_Mutation_p.G11V	NM_004108	NP_004099	Q15485	FCN2_HUMAN	ficolin 2 isoform a precursor	11					complement activation, lectin pathway|opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|calcium-dependent protein binding|receptor binding|sugar binding			large_intestine(1)	1		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.58e-08)|Epithelial(140;6.41e-08)|all cancers(34;3.96e-07)		GGGGTCCTGGGCGCTGCCACC	0.617													4	15	---	---	---	---	PASS	T	137772699	T	T	137772699	3	4	43	1	0	0	0	0	1	0	0	0	5792	1203	42	3	34	3	FCN2	9	137772699	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	2698908	137772699	3440732	209	16830										
UPF2	26019	broad.mit.edu	37	chr10	12070784	12070784	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctggagctccctgtggtcccTtttcaggtgtttggtcaaag	12	10	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:12070784T>C	uc001ila.2	-	2	1579	c.1105A>G	c.(1105-1107)AGG>GGG	p.R369G	UPF2_uc001ilb.2_Missense_Mutation_p.R369G|UPF2_uc001ilc.2_Missense_Mutation_p.R369G|UPF2_uc009xiz.1_Missense_Mutation_p.R369G	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	369	MIF4G 1.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				CTGTGGTCCCTTTTCAGGTGT	0.373													3	77	---	---	---	---	PASS	C	12070784	C	C	12070784	3	2	43	1	0	0	0	0	1	0	0	0	17001	1608	56	5	2793	5	UPF2	10	12070784	Missense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08		12070784	123463963	210	16831										
ITGA8	8516	broad.mit.edu	37	chr10	15647751	15647751	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cgacagcttcaagtcaggaaCacacagattgtcttctccac	7	13	4	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:15647751C>A	uc001ioc.1	-	19	1942	c.1942G>T	c.(1942-1944)GTT>TTT	p.V648F	ITGA8_uc010qcb.1_Missense_Mutation_p.V633F	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	648	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						AAGTCAGGAACACACAGATTG	0.388													12	39	---	---	---	---	PASS	A	15647751	A	A	15647751	3	1	43	1	0	0	0	0	1	0	0	0	7882	478	17	3	1297	3	ITGA8	10	15647751	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	3576967	15647751	119886996	211	16832										
KIAA1217	56243	broad.mit.edu	37	chr10	24790396	24790396	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccacctgtgggcacctcagcCatccacatgagcctgcttga	9	16	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:24790396C>A	uc001iru.3	+	9	2326	c.1923C>A	c.(1921-1923)GCC>GCA	p.A641A	KIAA1217_uc001irs.2_Silent_p.A561A|KIAA1217_uc001irt.3_Silent_p.A606A|KIAA1217_uc010qcy.1_Silent_p.A606A|KIAA1217_uc010qcz.1_Silent_p.A606A|KIAA1217_uc001irv.1_Silent_p.A456A|KIAA1217_uc010qda.1_RNA|KIAA1217_uc001irw.2_Silent_p.A324A|KIAA1217_uc001irz.2_Silent_p.A324A|KIAA1217_uc001irx.2_Silent_p.A324A|KIAA1217_uc001iry.2_Silent_p.A324A	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	641					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						GCACCTCAGCCATCCACATGA	0.622													8	34	---	---	---	---	PASS	A	24790396	A	A	24790396	2	1	43	1	0	0	0	0	0	0	0	1	8216	581	21	3		3	KIAA1217	10	24790396	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	9142645	24790396	110744351	212	16833										
GAD2	2572	broad.mit.edu	37	chr10	26558081	26558081	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccatctgatcttgaaagaagGattcttgaagccaaacagaa	8	8	3	5			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:26558081G>T	uc001isp.2	+	9	1457	c.954G>T	c.(952-954)AGG>AGT	p.R318S	GAD2_uc001isq.2_Missense_Mutation_p.R318S	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	318					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	TTGAAAGAAGGATTCTTGAAG	0.368													19	36	---	---	---	---	PASS	T	26558081	T	T	26558081	3	4	43	1	0	0	0	0	1	0	0	0	6180	1165	41	2	988	2	GAD2	10	26558081	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1767685	26558081	108976666	213	16834										
ZNF248	57209	broad.mit.edu	37	chr10	38121037	38121037	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtgtggtttctggcaaaaggCtttcccacattcagtacatt	9	9	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:38121037C>A	uc001izd.1	-	6	1745	c.1246G>T	c.(1246-1248)GCC>TCC	p.A416S	ZNF248_uc009xmc.2_Intron|ZNF248_uc001izb.2_Intron|ZNF248_uc001izc.2_Intron|ZNF248_uc010qeu.1_Missense_Mutation_p.A416S	NM_021045	NP_066383	Q8NDW4	ZN248_HUMAN	zinc finger protein 248	416	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGGCAAAAGGCTTTCCCACAT	0.443													38	87	---	---	---	---	PASS	A	38121037	A	A	38121037	3	1	43	1	0	0	0	0	1	0	0	0	17790	797	28	3	497	3	ZNF248	10	38121037	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	11562956	38121037	97413710	214	16835										
FRMPD2	143162	broad.mit.edu	37	chr10	49395304	49395304	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tggcttctggatcacacaggCactcttcagctgctcccggc	10	15	4	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:49395304C>A	uc001jgi.2	-	17	2304	c.2197G>T	c.(2197-2199)GCC>TCC	p.A733S	FRMPD2_uc001jgh.2_Missense_Mutation_p.A701S|FRMPD2_uc001jgj.2_Missense_Mutation_p.A711S	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	733					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		ATCACACAGGCACTCTTCAGC	0.572													5	9	---	---	---	---	PASS	A	49395304	A	A	49395304	3	1	43	1	0	0	0	0	1	0	0	0	6058	710	25	3	1784	3	FRMPD2	10	49395304	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	11274267	49395304	86139443	215	16836										
C10orf71	118461	broad.mit.edu	37	chr10	50531636	50531636	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tctgtccacatctataccctGggggtgcagggatccaggag	13	11	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:50531636G>T	uc010qgp.1	+	3	1385	c.1046G>T	c.(1045-1047)TGG>TTG	p.W349L		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	349											0						TCTATACCCTGGGGGTGCAGG	0.592													9	15	---	---	---	---	PASS	T	50531636	T	T	50531636	3	4	43	1	0	0	0	0	1	0	0	0	1614	1357	47	3	1048	3	C10orf71	10	50531636	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1136332	50531636	85003111	216	16837										
COL13A1	1305	broad.mit.edu	37	chr10	71697401	71697401	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tttcctccagggggaagcagGactagatggagcaaaaggag	15	7	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:71697401G>T	uc001jpr.1	+	32	2311	c.1775G>T	c.(1774-1776)GGA>GTA	p.G592V	COL13A1_uc001jqj.1_Missense_Mutation_p.G577V|COL13A1_uc001jps.1_Missense_Mutation_p.G563V|COL13A1_uc001jpt.1_Missense_Mutation_p.G551V|COL13A1_uc001jpu.1_Missense_Mutation_p.G573V|COL13A1_uc001jpv.1_Missense_Mutation_p.G578V|COL13A1_uc001jpx.1_Missense_Mutation_p.G555V|COL13A1_uc001jpw.1_Missense_Mutation_p.G539V|COL13A1_uc001jpy.1_Missense_Mutation_p.G530V|COL13A1_uc001jpz.1_Missense_Mutation_p.G535V|COL13A1_uc001jqa.1_Missense_Mutation_p.G532V|COL13A1_uc001jqc.1_Missense_Mutation_p.G577V|COL13A1_uc001jqb.1_Missense_Mutation_p.G526V|COL13A1_uc001jql.2_Missense_Mutation_p.G592V|COL13A1_uc001jqd.1_Missense_Mutation_p.G580V|COL13A1_uc001jqe.1_Missense_Mutation_p.G575V|COL13A1_uc001jqf.1_Missense_Mutation_p.G573V|COL13A1_uc001jqg.1_Missense_Mutation_p.G570V|COL13A1_uc001jqh.1_Missense_Mutation_p.G592V|COL13A1_uc001jqi.1_Missense_Mutation_p.G578V|COL13A1_uc010qjf.1_Missense_Mutation_p.G367V	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	592	Extracellular (Potential).|Triple-helical region 3 (COL3).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	GGGGAAGCAGGACTAGATGGA	0.562													6	16	---	---	---	---	PASS	T	71697401	T	T	71697401	3	4	43	1	0	0	0	0	1	0	0	0	3670	1174	41	2	1905	2	COL13A1	10	71697401	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	21165765	71697401	63837346	217	16838										
ADAMTS14	140766	broad.mit.edu	37	chr10	72434586	72434586	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttcgggaaggaactgcacttGcgcctgcggcccaatcggag	14	12	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:72434586G>T	uc001jrh.2	+	2	357	c.357G>T	c.(355-357)TTG>TTT	p.L119F	ADAMTS14_uc001jrg.2_Missense_Mutation_p.L119F	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	119					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						AACTGCACTTGCGCCTGCGGC	0.627													10	22	---	---	---	---	PASS	T	72434586	T	T	72434586	3	4	43	1	0	0	0	0	1	0	0	0	259	1310	46	3	363	3	ADAMTS14	10	72434586	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	737185	72434586	63100161	218	16839										
CDH23	64072	broad.mit.edu	37	chr10	73560461	73560461	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tatatcctgactgccttggcCaaagacaaccctggggatgt	10	11	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:73560461C>A	uc001jrx.3	+	51	7808	c.7431C>A	c.(7429-7431)GCC>GCA	p.A2477A	CDH23_uc001jsg.3_Silent_p.A237A|CDH23_uc001jsh.3_Silent_p.A237A|CDH23_uc001jsi.3_Silent_p.A237A	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	2477	Cadherin 23.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CTGCCTTGGCCAAAGACAACC	0.562													3	10	---	---	---	---	PASS	A	73560461	A	A	73560461	2	1	43	1	0	0	0	0	0	0	0	1	3108	581	21	3		3	CDH23	10	73560461	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	1125875	73560461	61974286	219	16840										
ASCC1	51008	broad.mit.edu	37	chr10	73970533	73970533	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caaagtagaccggaatccttGtggggtctgctccacctcgt	11	12	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:73970533G>T	uc001jst.1	-	3	277	c.169C>A	c.(169-171)CAA>AAA	p.Q57K	ASCC1_uc001jss.1_Missense_Mutation_p.Q57K|ASCC1_uc001jsu.1_Missense_Mutation_p.Q57K|ASCC1_uc010qju.1_Missense_Mutation_p.Q78K			Q8N9N2	ASCC1_HUMAN	RecName: Full=Activating signal cointegrator 1 complex subunit 1; AltName: Full=ASC-1 complex subunit p50; AltName: Full=Trip4 complex subunit p50;	57					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	RNA binding				0						CGGAATCCTTGTGGGGTCTGC	0.522													12	21	---	---	---	---	PASS	T	73970533	T	T	73970533	3	4	43	1	0	0	0	0	1	0	0	0	1031	1386	48	3	936	3	ASCC1	10	73970533	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	410072	73970533	61564214	220	16841										
VCL	7414	broad.mit.edu	37	chr10	75855548	75855548	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cccagctggctgacctggctGccagaggggaaggggagagt	18	10	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:75855548G>T	uc001jwd.2	+	12	1772	c.1678G>T	c.(1678-1680)GCC>TCC	p.A560S	VCL_uc009xrr.2_Missense_Mutation_p.A309S|VCL_uc010qky.1_Missense_Mutation_p.A467S|VCL_uc001jwe.2_Missense_Mutation_p.A560S|VCL_uc010qkz.1_Intron	NM_014000	NP_054706	P18206	VINC_HUMAN	vinculin isoform meta-VCL	560	N-terminal globular head.|3.|3 X 112 AA tandem repeats.				adherens junction assembly|apical junction assembly|cell-matrix adhesion|cellular component movement|epithelial cell-cell adhesion|lamellipodium assembly|morphogenesis of an epithelium|muscle contraction|negative regulation of cell migration|platelet activation|platelet degranulation|protein localization at cell surface	costamere|cytosol|extracellular region|focal adhesion	actin binding|alpha-catenin binding|beta-catenin binding|beta-dystroglycan binding|cadherin binding|structural molecule activity		VCL/ALK(4)	kidney(4)|ovary(1)|central_nervous_system(1)	6	Prostate(51;0.0112)					TGACCTGGCTGCCAGAGGGGA	0.527													24	56	---	---	---	---	PASS	T	75855548	T	T	75855548	3	4	43	1	0	0	0	0	1	0	0	0	17136	1319	46	3	1724	3	VCL	10	75855548	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1885015	75855548	59679199	221	16842										
SH2D4B	387694	broad.mit.edu	37	chr10	82363454	82363454	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cggtcgctggcctcagctccAtgttccgggagcttggccag	14	14	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:82363454A>T	uc001kck.1	+	5	1193	c.763A>T	c.(763-765)ATG>TTG	p.M255L	SH2D4B_uc001kcl.1_Missense_Mutation_p.M206L|SH2D4B_uc001kcm.1_Missense_Mutation_p.M1L	NM_207372	NP_997255	Q5SQS7	SH24B_HUMAN	SH2 domain containing 4B isoform 1	254											0			Colorectal(32;0.229)			CCTCAGCTCCATGTTCCGGGA	0.682													3	4	---	---	---	---	PASS	T	82363454	T	T	82363454	3	4	43	1	0	0	0	0	1	0	0	0	14236	217	8	5	822	5	SH2D4B	10	82363454	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	6507906	82363454	53171293	222	16843										
FAS	355	broad.mit.edu	37	chr10	90770326	90770326	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggaatcatcaaggaatgcacActcaccagcaacaccaagtg	8	12	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:90770326A>T	uc001kfr.2	+	5	820	c.474A>T	c.(472-474)ACA>ACT	p.T158T	FAS_uc010qna.1_RNA|FAS_uc001kfs.2_Silent_p.T158T|FAS_uc001kft.2_Silent_p.T158T|FAS_uc010qnb.1_RNA|FAS_uc010qnc.1_RNA|FAS_uc001kfw.2_Missense_Mutation_p.H122L|FAS_uc010qnd.1_RNA|FAS_uc010qne.1_RNA|FAS_uc009xtp.2_RNA	NM_000043	NP_000034	P25445	TNR6_HUMAN	tumor necrosis factor receptor superfamily,	158	TNFR-Cys 3.|Extracellular (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|anti-apoptosis|cellular response to mechanical stimulus|positive regulation of necrotic cell death	cytosol|extracellular region|integral to membrane|soluble fraction	identical protein binding|kinase binding			upper_aerodigestive_tract(1)|breast(1)	2		Colorectal(252;0.0161)		Colorectal(12;0.000136)|COAD - Colon adenocarcinoma(12;0.000193)		AGGAATGCACACTCACCAGCA	0.363									Autoimmune_Lymphoproliferative_syndrome_type_I				19	30	---	---	---	---	PASS	T	90770326	T	T	90770326	2	4	43	1	0	0	0	0	0	0	0	1	5681	146	6	5		5	FAS	10	90770326	Silent	SNP	A	TCGA-22-5472-01A-01D-1632-08	8406872	90770326	44764421	223	16844										
PSD	5662	broad.mit.edu	37	chr10	104170857	104170857	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agcagcatgagcgcacaggtCagcgtgtgggcgccgtctag	16	11	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:104170857C>A	uc001kvg.1	-	9	2486	c.1959G>T	c.(1957-1959)CTG>CTT	p.L653L	PSD_uc001kvf.1_5'Flank|PSD_uc001kvh.1_Silent_p.L274L|PSD_uc009xxd.1_Silent_p.L653L	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	653	SEC7.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		GCGCACAGGTCAGCGTGTGGG	0.632													8	30	---	---	---	---	PASS	A	104170857	A	A	104170857	2	1	43	1	0	0	0	0	0	0	0	1	12646	813	29	2		2	PSD	10	104170857	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	13400531	104170857	31363890	224	16845										
SORCS3	22986	broad.mit.edu	37	chr10	106927081	106927081	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gccctcgtggccatgaaacaCacacctctgccagtcaggca	9	16	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:106927081C>A	uc001kyi.1	+	13	2102	c.1875C>A	c.(1873-1875)CAC>CAA	p.H625Q		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	625	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		CCATGAAACACACACCTCTGC	0.403													8	23	---	---	---	---	PASS	A	106927081	A	A	106927081	3	1	43	1	0	0	0	0	1	0	0	0	14932	477	17	3	1925	3	SORCS3	10	106927081	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2756224	106927081	28607666	225	16846										
BAG3	9531	broad.mit.edu	37	chr10	121436371	121436371	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctggagaaggtacaggggctGgagcaggctgtagacaactt	16	7	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:121436371G>T	uc001lem.2	+	4	1611	c.1305G>T	c.(1303-1305)CTG>CTT	p.L435L	BAG3_uc001lel.2_Silent_p.L434L	NM_004281	NP_004272	O95817	BAG3_HUMAN	BCL2-associated athanogene 3	435	BAG.				anti-apoptosis|apoptosis|protein folding	cytosol				ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)		TACAGGGGCTGGAGCAGGCTG	0.517													4	24	---	---	---	---	PASS	T	121436371	T	T	121436371	2	4	43	1	0	0	0	0	0	0	0	1	1288	1335	47	3		3	BAG3	10	121436371	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	14509290	121436371	14098376	226	16847										
DMBT1	1755	broad.mit.edu	37	chr10	124358338	124358338	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggtgaatggaggtgacaggtGtcagggccgagtggaggtcc	20	6	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:124358338G>T	uc001lgk.1	+	26	3111	c.3005G>T	c.(3004-3006)TGT>TTT	p.C1002F	DMBT1_uc001lgl.1_Missense_Mutation_p.C992F|DMBT1_uc001lgm.1_Missense_Mutation_p.C503F|DMBT1_uc009xzz.1_Missense_Mutation_p.C1002F|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yab.1_5'UTR	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1002	SRCR 8.				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)				GGTGACAGGTGTCAGGGCCGA	0.557													15	294	---	---	---	---	PASS	T	124358338	T	T	124358338	3	4	43	1	0	0	0	0	1	0	0	0	4577	1377	48	3	3107	3	DMBT1	10	124358338	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	2921967	124358338	11176409	227	16848										
KNDC1	85442	broad.mit.edu	37	chr10	135020657	135020657	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcaggtcatgtacgcggaacGctggggcctggagccctgca	16	12	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:135020657G>C	uc001llz.1	+	20	3597	c.3596G>C	c.(3595-3597)CGC>CCC	p.R1199P	KNDC1_uc001lma.1_3'UTR	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1199					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		TACGCGGAACGCTGGGGCCTG	0.682													5	9	---	---	---	---	PASS	C	135020657	C	C	135020657	3	2	43	1	0	0	0	0	1	0	0	0	8426	1087	38	4	3674	4	KNDC1	10	135020657	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	10662319	135020657	514090	228	16849										
MTG1	92170	broad.mit.edu	37	chr10	135209741	135209741	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cacttgctggtcctcaacaaGatggacttggcggatcttac	10	11	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr10:135209741G>C	uc001lnd.2	+	3	356	c.252G>C	c.(250-252)AAG>AAC	p.K84N	MTG1_uc010qve.1_5'UTR	NM_138384	NP_612393	Q9BT17	MTG1_HUMAN	GTP_binding protein precursor	84	GTP (By similarity).					mitochondrion	GTP binding|protein binding			skin(1)	1		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|all cancers(32;1.69e-06)|Epithelial(32;1.94e-06)		TCCTCAACAAGATGGACTTGG	0.502													4	129	---	---	---	---	PASS	C	135209741	C	C	135209741	3	2	43	1	0	0	0	0	1	0	0	0	9926	933	33	2	262	2	MTG1	10	135209741	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	189084	135209741	325006	229	16850										
IFITM2	10581	broad.mit.edu	37	chr11	308295	308295	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tggctatgctgggggtgcccCacaaccctgctcccccgatg	12	16	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:308295C>A	uc001lox.3	+	1	189	c.103C>A	c.(103-105)CAC>AAC	p.H35N		NM_006435	NP_006426	Q01629	IFM2_HUMAN	interferon induced transmembrane protein 2	35	Extracellular (Potential).				response to virus|type I interferon-mediated signaling pathway	integral to membrane|plasma membrane	protein binding				0		all_cancers(49;2e-09)|all_epithelial(84;3.36e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;5.73e-28)|Epithelial(43;3.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.14e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0328)|LUSC - Lung squamous cell carcinoma(625;0.122)		GGGGGTGCCCCACAACCCTGC	0.587													30	77	---	---	---	---	PASS	A	308295	A	A	308295	3	1	43	1	0	0	0	0	1	0	0	0	7527	594	21	3	105	3	IFITM2	11	308295	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08		308295	134698221	230	16851										
MUC6	4588	broad.mit.edu	37	chr11	1017439	1017439	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gggtagcctgctgctggtggCcgacgtggtgtgggccacag	19	10	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:1017439C>A	uc001lsw.2	-	31	5413	c.5362G>T	c.(5362-5364)GCC>TCC	p.A1788S		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1788	Thr-rich.|2.|Approximate repeats.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CTGCTGGTGGCCGACGTGGTG	0.592													39	346	---	---	---	---	PASS	A	1017439	A	A	1017439	3	1	43	1	0	0	0	0	1	0	0	0	9980	739	26	3	1969	3	MUC6	11	1017439	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	709144	1017439	133989077	231	16852										
KRTAP5-3	387266	broad.mit.edu	37	chr11	1629521	1629521	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caggtacacagcagccggagCcacagcccccatagccggag	12	16	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:1629521C>A	uc001ltw.1	-	1	173	c.95G>T	c.(94-96)GGC>GTC	p.G32V		NM_001012708	NP_001012726	Q6L8H2	KRA53_HUMAN	keratin associated protein 5-3	32						keratin filament				ovary(2)	2		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000618)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)		GCAGCCGGAGCCACAGCCCCC	0.672													5	104	---	---	---	---	PASS	A	1629521	A	A	1629521	3	1	43	1	0	0	0	0	1	0	0	0	8562	739	26	3	625	3	KRTAP5-3	11	1629521	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	612082	1629521	133376995	232	16853										
IGF2	3481	broad.mit.edu	37	chr11	2154297	2154297	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tagagcaatcaggggacggtGacgtttggcctccctgaacg	14	10	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:2154297G>C	uc009yde.2	-	4	566	c.463C>G	c.(463-465)CAC>GAC	p.H155D	IGF2_uc001lvf.2_RNA|IGF2_uc001lvg.2_Missense_Mutation_p.H155D|IGF2_uc009ydf.2_Missense_Mutation_p.H211D|IGF2_uc001lvh.2_Missense_Mutation_p.H155D|INS-IGF2_uc001lvi.2_RNA	NM_001007139	NP_001007140	P01344	IGF2_HUMAN	insulin-like growth factor 2 isoform 1	155					glucose metabolic process|ossification|phosphatidylinositol 3-kinase cascade involved in insulin receptor signaling|positive regulation of activated T cell proliferation|positive regulation of cell division|positive regulation of glycogen (starch) synthase activity|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|skeletal system development	extracellular space	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|protein serine/threonine kinase activator activity|receptor activator activity			central_nervous_system(1)	1		all_epithelial(84;5.04e-06)|Breast(177;0.000777)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)|all_lung(207;0.24)	Colorectal(5;0.0179)|COAD - Colon adenocarcinoma(6;0.029)	BRCA - Breast invasive adenocarcinoma(625;1.09e-05)|LUSC - Lung squamous cell carcinoma(625;0.082)|Lung(200;0.153)		AGGGGACGGTGACGTTTGGCC	0.692													24	43	---	---	---	---	PASS	C	2154297	C	C	2154297	3	2	43	1	0	0	0	0	1	0	0	0	7572	1290	45	2	83	2	IGF2	11	2154297	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	524776	2154297	132852219	233	16854										
TSSC4	10078	broad.mit.edu	37	chr11	2424345	2424345	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctacgtggcacaccccgagcGctggaccaagtacagcctgg	12	15	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:2424345G>A	uc001lwj.2	+	4	843	c.482G>A	c.(481-483)CGC>CAC	p.R161H	TSSC4_uc001lwi.2_Missense_Mutation_p.R97H|TSSC4_uc001lwk.2_Missense_Mutation_p.R161H|TSSC4_uc001lwl.2_Missense_Mutation_p.R161H	NM_005706	NP_005697	Q9Y5U2	TSSC4_HUMAN	tumor suppressing subtransferable candidate 4	161											0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.00145)|LUSC - Lung squamous cell carcinoma(625;0.19)		CACCCCGAGCGCTGGACCAAG	0.692													10	14	---	---	---	---	PASS	A	2424345	A	A	2424345	3	1	43	1	0	0	0	0	1	0	0	0	16664	1087	38	1	484	1	TSSC4	11	2424345	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	270048	2424345	132582171	234	16855										
STIM1	6786	broad.mit.edu	37	chr11	4104115	4104115	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gggcctcatctttgcaggctGagaagataaaaaagaagaga	12	6	2	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:4104115G>T	uc001lyv.2	+	9	1709	c.1141G>T	c.(1141-1143)GAG>TAG	p.E381*	STIM1_uc009yef.2_Nonsense_Mutation_p.E381*|STIM1_uc009yeg.2_Nonsense_Mutation_p.E208*	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	381	Cytoplasmic (Potential).|Potential.				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		TTTGCAGGCTGAGAAGATAAA	0.478													13	28	---	---	---	---	PASS	T	4104115	T	T	4104115	4	4	43	1	0	0	0	0	0	1	0	0	15282	1291	45	2	1175	2	STIM1	11	4104115	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1679770	4104115	130902401	235	16856										
OR52K1	390036	broad.mit.edu	37	chr11	4510283	4510283	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgtacccttctcttcattatCcaggctgatgcagccctcca	6	15	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:4510283C>A	uc001lza.1	+	1	153	c.153C>A	c.(151-153)ATC>ATA	p.I51I		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	51	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		TCTTCATTATCCAGGCTGATG	0.498													34	63	---	---	---	---	PASS	A	4510283	A	A	4510283	2	1	43	1	0	0	0	0	0	0	0	1	11123	845	30	2		2	OR52K1	11	4510283	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	406168	4510283	130496233	236	16857										
OR52K1	390036	broad.mit.edu	37	chr11	4510851	4510851	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggcccgctacaaggcatttGggacatgtgtgtctcacata	11	10	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:4510851G>T	uc001lza.1	+	1	721	c.721G>T	c.(721-723)GGG>TGG	p.G241W		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		CAAGGCATTTGGGACATGTGT	0.527													54	117	---	---	---	---	PASS	T	4510851	T	T	4510851	3	4	43	1	0	0	0	0	1	0	0	0	11123	1348	47	3	723	3	OR52K1	11	4510851	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	568	4510851	130495665	237	16858										
OR51B5	282763	broad.mit.edu	37	chr11	5364168	5364168	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agactacaagcacagctgggTacagtcggttgaaggtggta	14	7	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:5364168T>A	uc001map.1	-	1	587	c.587A>T	c.(586-588)TAC>TTC	p.Y196F	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_001005567	NP_001005567	Q9H339	O51B5_HUMAN	olfactory receptor, family 51, subfamily B,	196	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.05e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CACAGCTGGGTACAGTCGGTT	0.428													28	56	---	---	---	---	PASS	A	5364168	A	A	5364168	3	1	43	1	0	0	0	0	1	0	0	0	11091	1638	57	5	355	5	OR51B5	11	5364168	Missense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08	853317	5364168	129642348	238	16859										
OR56A3	390083	broad.mit.edu	37	chr11	5969290	5969290	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctcaaggcagagggtgccgtGgcaaaggccctaagcacatg	14	11	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:5969290G>T	uc010qzt.1	+	1	714	c.714G>T	c.(712-714)GTG>GTT	p.V238V		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	238	Cytoplasmic (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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGGGTGCCGTGGCAAAGGCCC	0.522													38	101	---	---	---	---	PASS	T	5969290	T	T	5969290	2	4	43	1	0	0	0	0	0	0	0	1	11134	1335	47	3		3	OR56A3	11	5969290	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	605122	5969290	129037226	239	16860										
OR52B2	255725	broad.mit.edu	37	chr11	6191304	6191304	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgcttgaagccaaaagatggCtagggccttgggcacagtgg	15	8	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:6191304C>A	uc010qzy.1	-	1	253	c.253G>T	c.(253-255)GCC>TCC	p.A85S		NM_001004052	NP_001004052	Q96RD2	O52B2_HUMAN	olfactory receptor, family 52, subfamily B,	85	Extracellular (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;3.69e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAAAAGATGGCTAGGGCCTTG	0.488													19	56	---	---	---	---	PASS	A	6191304	A	A	6191304	3	1	43	1	0	0	0	0	1	0	0	0	11111	797	28	3	721	3	OR52B2	11	6191304	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	222014	6191304	128815212	240	16861										
OR10A5	144124	broad.mit.edu	37	chr11	6867383	6867383	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gttcccaggctttcctgtagCtactgtgcagaccacatggc	10	13	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:6867383C>A	uc001met.1	+	1	470	c.470C>A	c.(469-471)GCT>GAT	p.A157D		NM_178168	NP_835462	Q9H207	O10A5_HUMAN	olfactory receptor, family 10, subfamily A,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TTTCCTGTAGCTACTGTGCAG	0.537													30	102	---	---	---	---	PASS	A	6867383	A	A	6867383	3	1	43	1	0	0	0	0	1	0	0	0	10893	797	28	3	472	3	OR10A5	11	6867383	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	676079	6867383	128139133	241	16862										
ST5	6764	broad.mit.edu	37	chr11	8751621	8751621	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggaggtagaccattactggGcttactcttggggttcttgt	13	7	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:8751621G>T	uc001mgt.2	-	3	1402	c.1216C>A	c.(1216-1218)CCC>ACC	p.P406T	ST5_uc009yfr.2_Intron|ST5_uc001mgu.2_Intron|ST5_uc001mgv.2_Missense_Mutation_p.P406T|ST5_uc010rbq.1_Intron|ST5_uc001mgw.1_Missense_Mutation_p.P406T	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	406	Pro-rich.|Interaction with ABL1.				positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		CCATTACTGGGCTTACTCTTG	0.607													51	118	---	---	---	---	PASS	T	8751621	T	T	8751621	3	4	43	1	0	0	0	0	1	0	0	0	15219	1203	42	3	2269	3	ST5	11	8751621	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1884238	8751621	126254895	242	16863										
SLC6A5	9152	broad.mit.edu	37	chr11	20668449	20668449	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	taacatcttctggaaagtctGctgggcatttgtaaccccaa	8	10	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:20668449G>T	uc001mqd.2	+	14	2312	c.2039G>T	c.(2038-2040)TGC>TTC	p.C680F	SLC6A5_uc009yic.2_Missense_Mutation_p.C445F	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	680	Helical; Name=11; (Potential).				synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	TGGAAAGTCTGCTGGGCATTT	0.403													27	49	---	---	---	---	PASS	T	20668449	T	T	20668449	3	4	43	1	0	0	0	0	1	0	0	0	14687	1319	46	3	2093	3	SLC6A5	11	20668449	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	11916828	20668449	114338067	243	16864										
SLC17A6	57084	broad.mit.edu	37	chr11	22399257	22399257	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gagaagtacaagactcacatAgctataaggaccgagttgat	10	7	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:22399257A>T	uc001mqk.2	+	12	2133	c.1720A>T	c.(1720-1722)AGC>TGC	p.S574C		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	574	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						AGACTCACATAGCTATAAGGA	0.353													16	16	---	---	---	---	PASS	T	22399257	T	T	22399257	3	4	43	1	0	0	0	0	1	0	0	0	14421	420	15	5	1766	5	SLC17A6	11	22399257	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	1730808	22399257	112607259	244	16865										
NAT10	55226	broad.mit.edu	37	chr11	34145879	34145879	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	attatgagattatccagtctCtaaatcctgaatttaacaaa	4	7	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:34145879C>A	uc001mvk.2	+	11	1283	c.1039C>A	c.(1039-1041)CTA>ATA	p.L347I	NAT10_uc010ren.1_Missense_Mutation_p.L275I	NM_024662	NP_078938	Q9H0A0	NAT10_HUMAN	N-acetyltransferase 10 isoform a	347						nucleolus	ATP binding|N-acetyltransferase activity|protein binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0119)|all_hematologic(20;0.0231)				TATCCAGTCTCTAAATCCTGA	0.393													11	38	---	---	---	---	PASS	A	34145879	A	A	34145879	3	1	43	1	0	0	0	0	1	0	0	0	10174	912	32	2	1077	2	NAT10	11	34145879	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	11746622	34145879	100860637	245	16866										
KBTBD4	55709	broad.mit.edu	37	chr11	47594781	47594781	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agctgcgtgcatgcggcctgCaaagggcagcacatagggct	15	11	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:47594781C>A	uc001nfx.2	-	4	1429	c.1258G>T	c.(1258-1260)GCA>TCA	p.A420S	PTPMT1_uc001nfs.3_3'UTR|PTPMT1_uc001nfv.3_3'UTR|PTPMT1_uc009ylt.2_3'UTR|PTPMT1_uc001nfu.3_3'UTR|NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_Missense_Mutation_p.A445S|KBTBD4_uc001nfz.2_Missense_Mutation_p.A436S|KBTBD4_uc001nfy.2_Missense_Mutation_p.A420S	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4	420	Kelch 4.									ovary(1)|central_nervous_system(1)	2						ATGCGGCCTGCAAAGGGCAGC	0.527													20	53	---	---	---	---	PASS	A	47594781	A	A	47594781	3	1	43	1	0	0	0	0	1	0	0	0	7995	710	25	3	302	3	KBTBD4	11	47594781	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	13448902	47594781	87411735	246	16867										
BSCL2	26580	broad.mit.edu	37	chr11	62469965	62469965	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cacgtccacccttagtcagcGagacattggcaacagggaag	11	12	1	1	rs137852973		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:62469965G>A	uc001nuo.1	-	3	693	c.269C>T	c.(268-270)TCG>TTG	p.S90L	BSCL2_uc009yoc.1_Missense_Mutation_p.S90L|BSCL2_uc001nup.2_Missense_Mutation_p.S90L|BSCL2_uc001nuq.1_Missense_Mutation_p.S90L|BSCL2_uc001nur.3_Missense_Mutation_p.S154L|BSCL2_uc009yod.2_Missense_Mutation_p.S154L|BSCL2_uc001nut.3_Missense_Mutation_p.S154L|HNRNPUL2_uc001nuu.1_RNA	NM_032667	NP_116056	Q96G97	BSCL2_HUMAN	seipin isoform 2	90	Lumenal (Potential).		S -> L (in SPG17 and DSMAV).		cell death	integral to endoplasmic reticulum membrane					0						CTTAGTCAGCGAGACATTGGC	0.473													3	14	---	---	---	---	PASS	A	62469965	A	A	62469965	3	1	43	1	0	0	0	0	1	0	0	0	1527	1059	37	2	963	2	BSCL2	11	62469965	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	14875184	62469965	72536551	247	16868										
STX5	6811	broad.mit.edu	37	chr11	62591738	62591738	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aatgttctgcatggtgtctgCccgactctggatgtaggaat	12	8	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:62591738C>G	uc001nvh.2	-	10	962	c.808G>C	c.(808-810)GCA>CCA	p.A270P	STX5_uc010rmi.1_Missense_Mutation_p.A174P|STX5_uc009yoh.2_RNA|STX5_uc001nvi.2_Missense_Mutation_p.A216P|STX5_uc010rmj.1_Missense_Mutation_p.A270P|STX5_uc001nvj.2_Missense_Mutation_p.A85P	NM_003164	NP_003155	Q13190	STX5_HUMAN	syntaxin 5	270	t-SNARE coiled-coil homology.|Cytoplasmic (Potential).				intracellular protein transport|retrograde transport, endosome to Golgi|vesicle targeting	ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|nucleus|SNARE complex	protein N-terminus binding|SNAP receptor activity			ovary(1)|breast(1)	2						ATGGTGTCTGCCCGACTCTGG	0.498													15	62	---	---	---	---	PASS	G	62591738	G	G	62591738	3	3	43	1	0	0	0	0	1	0	0	0	15347	739	26	4	267	4	STX5	11	62591738	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	121773	62591738	72414778	248	16869										
RTN3	10313	broad.mit.edu	37	chr11	63517542	63517542	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctgatcatgctgctttccctGgcagctttcagtgtcatcag	9	12	4	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:63517542G>T	uc001nxq.2	+	4	2797	c.2610G>T	c.(2608-2610)CTG>CTT	p.L870L	RTN3_uc001nxo.2_Silent_p.L74L|RTN3_uc001nxm.2_Silent_p.L93L|RTN3_uc001nxn.2_Silent_p.L851L|RTN3_uc001nxp.2_Silent_p.L74L|RTN3_uc009yov.2_Silent_p.L758L|RTN3_uc010rmt.1_RNA|RTN3_uc010rmu.1_Silent_p.L74L	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	870	Helical; (Potential).|Reticulon.				apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						TGCTTTCCCTGGCAGCTTTCA	0.473													9	10	---	---	---	---	PASS	T	63517542	T	T	63517542	2	4	43	1	0	0	0	0	0	0	0	1	13727	1335	47	3		3	RTN3	11	63517542	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	925804	63517542	71488974	249	16870										
PPP2R5B	5526	broad.mit.edu	37	chr11	64695367	64695367	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atcttgagccttcgtggccaCacctgcaggtctgaagggtt	12	11	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:64695367C>A	uc001oby.2	+	4	1075	c.490C>A	c.(490-492)CAC>AAC	p.H164N	PPP2R5B_uc001obz.2_Missense_Mutation_p.H164N	NM_006244	NP_006235	Q15173	2A5B_HUMAN	beta isoform of regulatory subunit B56, protein	164					signal transduction	cytoplasm|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(2)	2						TTCGTGGCCACACCTGCAGGT	0.537													16	29	---	---	---	---	PASS	A	64695367	A	A	64695367	3	1	43	1	0	0	0	0	1	0	0	0	12393	478	17	3	500	3	PPP2R5B	11	64695367	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1177825	64695367	70311149	250	16871										
NAALADL1	10004	broad.mit.edu	37	chr11	64813812	64813812	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	acactccccgctgtccgggcCacagcctgatggctgctgaa	11	16	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:64813812C>A	uc001ocn.2	-	15	1720	c.1704G>T	c.(1702-1704)GTG>GTT	p.V568V	NAALADL1_uc010rnw.1_Silent_p.V44V|NAALADL1_uc009ypz.2_RNA	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	568	NAALADase.|Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						CTGTCCGGGCCACAGCCTGAT	0.612													10	18	---	---	---	---	PASS	A	64813812	A	A	64813812	2	1	43	1	0	0	0	0	0	0	0	1	10129	581	21	3		3	NAALADL1	11	64813812	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	118445	64813812	70192704	251	16872										
MUS81	80198	broad.mit.edu	37	chr11	65633352	65633352	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgctgagcaccattaagtgtGggcgtctacagaggtgaggg	16	7	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:65633352G>T	uc001ofv.3	+	15	1929	c.1576G>T	c.(1576-1578)GGG>TGG	p.G526W	MUS81_uc001ofw.3_RNA|MUS81_uc001ofx.3_Missense_Mutation_p.G83W	NM_025128	NP_079404	Q96NY9	MUS81_HUMAN	MUS81 endonuclease homolog	526					DNA recombination|DNA repair	nucleolus	3'-flap endonuclease activity|DNA binding|metal ion binding|protein binding				0				READ - Rectum adenocarcinoma(159;0.166)		CATTAAGTGTGGGCGTCTACA	0.632								Homologous_recombination					17	43	---	---	---	---	PASS	T	65633352	T	T	65633352	3	4	43	1	0	0	0	0	1	0	0	0	9988	1348	47	3	1634	3	MUS81	11	65633352	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	819540	65633352	69373164	252	16873										
CHKA	1119	broad.mit.edu	37	chr11	67864490	67864490	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tagcctaccaactcaccatcTgcaaaatcgctccatacagc	4	16	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:67864490T>A	uc001onj.2	-	2	672	c.458A>T	c.(457-459)CAG>CTG	p.Q153L	CHKA_uc001onk.2_Missense_Mutation_p.Q153L	NM_001277	NP_001268	P35790	CHKA_HUMAN	choline kinase alpha isoform a	153					lipid transport|phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|choline kinase activity|drug binding|ethanolamine kinase activity|signal transducer activity			ovary(1)|central_nervous_system(1)	2					Choline(DB00122)	ACTCACCATCTGCAAAATCGC	0.473													8	20	---	---	---	---	PASS	A	67864490	A	A	67864490	3	1	43	1	0	0	0	0	1	0	0	0	3347	1580	55	5	959	5	CHKA	11	67864490	Missense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08	2231138	67864490	67142026	253	16874										
SUV420H1	51111	broad.mit.edu	37	chr11	67925195	67925195	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	actgatcttctcttctccttGaagaaatgtcaatatctata	4	9	5	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:67925195G>T	uc001onm.1	-	11	2874	c.2618C>A	c.(2617-2619)TCA>TAA	p.S873*	SUV420H1_uc009yse.1_Nonsense_Mutation_p.S459*|SUV420H1_uc001onn.1_Nonsense_Mutation_p.S701*|SUV420H1_uc009ysf.2_Nonsense_Mutation_p.S633*	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	873					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						TCTTCTCCTTGAAGAAATGTC	0.358													13	44	---	---	---	---	PASS	T	67925195	T	T	67925195	4	4	43	1	0	0	0	0	0	1	0	0	15411	1294	45	2	43	2	SUV420H1	11	67925195	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	60705	67925195	67081321	254	16875										
UCP2	7351	broad.mit.edu	37	chr11	73688003	73688003	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cacatccgtgggctgggccaCagccacagccagggcacctg	13	16	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:73688003C>A	uc001oup.1	-	5	777	c.397G>T	c.(397-399)GTG>TTG	p.V133L	UCP2_uc001ouq.1_Missense_Mutation_p.V133L	NM_003355	NP_003346	P55851	UCP2_HUMAN	uncoupling protein 2	133	Solcar 2.|Helical; Name=3; (Potential).				proton transport|respiratory electron transport chain	integral to membrane|mitochondrial inner membrane	binding				0	Breast(11;0.000112)					GGCTGGGCCACAGCCACAGCC	0.637													25	61	---	---	---	---	PASS	A	73688003	A	A	73688003	3	1	43	1	0	0	0	0	1	0	0	0	16928	478	17	3	548	3	UCP2	11	73688003	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	5762808	73688003	61318513	255	16876										
C11orf30	56946	broad.mit.edu	37	chr11	76234316	76234316	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cccgggcaaaaatgttgtcaCaacgttgctaaatgctggag	11	9	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:76234316C>A	uc001oxl.2	+	12	1945	c.1802C>A	c.(1801-1803)ACA>AAA	p.T601K	C11orf30_uc001oxm.2_Missense_Mutation_p.T517K|C11orf30_uc010rsb.1_Missense_Mutation_p.T616K|C11orf30_uc010rsc.1_Missense_Mutation_p.T616K|C11orf30_uc001oxn.2_Missense_Mutation_p.T602K|C11orf30_uc010rsd.1_Missense_Mutation_p.T615K	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	601	Thr-rich.				chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						AATGTTGTCACAACGTTGCTA	0.418													6	59	---	---	---	---	PASS	A	76234316	A	A	76234316	3	1	43	1	0	0	0	0	1	0	0	0	1636	478	17	3	1844	3	C11orf30	11	76234316	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2546313	76234316	58772200	256	16877										
RAB38	23682	broad.mit.edu	37	chr11	87908499	87908499	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atactggtcttccccacgccCaggtcgccaatcaccagcaa	7	17	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:87908499C>A	uc001pcj.1	-	1	101	c.54G>T	c.(52-54)CTG>CTT	p.L18L	hsa-mir-3166|MI0014196_5'Flank	NM_022337	NP_071732	P57729	RAB38_HUMAN	RAB38	18	GTP (By similarity).				protein transport|small GTPase mediated signal transduction	melanosome|plasma membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				TCCCCACGCCCAGGTCGCCAA	0.637													13	31	---	---	---	---	PASS	A	87908499	A	A	87908499	2	1	43	1	0	0	0	0	0	0	0	1	12928	581	21	3		3	RAB38	11	87908499	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	11674183	87908499	47098017	257	16878										
ZW10	9183	broad.mit.edu	37	chr11	113630951	113630951	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cttttgatggtgggaacttcCatacaatcagcttctgccac	8	11	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:113630951C>A	uc001poe.2	-	5	597	c.560G>T	c.(559-561)TGG>TTG	p.W187L	ZW10_uc009yyv.2_RNA	NM_004724	NP_004715	O43264	ZW10_HUMAN	centromere/kinetochore protein zw10	187	Interaction with RINT1.				cell division|ER to Golgi vesicle-mediated transport|establishment of mitotic spindle orientation|meiosis|mitotic cell cycle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|protein complex assembly|protein localization to kinetochore|protein transport|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|endoplasmic reticulum membrane|kinetochore microtubule|nucleus|spindle pole	centromeric DNA binding|protein binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.84e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000237)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.94e-06)|Epithelial(105;0.000103)|all cancers(92;0.000786)		TGGGAACTTCCATACAATCAG	0.398													20	46	---	---	---	---	PASS	A	113630951	A	A	113630951	3	1	43	1	0	0	0	0	1	0	0	0	18244	595	21	3	1827	3	ZW10	11	113630951	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	25722452	113630951	21375565	258	16879										
VWA5A	4013	broad.mit.edu	37	chr11	124006897	124006897	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggatgtctctctgagctggcAtttgcctcctggtctgtctg	12	11	4	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:124006897A>T	uc001pzu.2	+	13	1630	c.1421A>T	c.(1420-1422)CAT>CTT	p.H474L	VWA5A_uc001pzt.2_Missense_Mutation_p.H474L	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	474										upper_aerodigestive_tract(1)|ovary(1)	2						CTGAGCTGGCATTTGCCTCCT	0.493													56	98	---	---	---	---	PASS	T	124006897	T	T	124006897	3	4	43	1	0	0	0	0	1	0	0	0	17239	217	8	5	1467	5	VWA5A	11	124006897	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	10375946	124006897	10999619	259	16880										
SLC37A2	219855	broad.mit.edu	37	chr11	124950581	124950581	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctgggctccctgatcgccgGcatctgggtgaacgggcagt	15	13	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:124950581G>A	uc001qbn.2	+	7	850	c.599G>A	c.(598-600)GGC>GAC	p.G200D	SLC37A2_uc010sau.1_Missense_Mutation_p.G200D|SLC37A2_uc010sav.1_5'Flank|SLC37A2_uc001qbp.2_5'Flank	NM_001145290	NP_001138762	Q8TED4	SPX2_HUMAN	solute carrier family 37 (glycerol-3-phosphate	200	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane				ovary(2)	2	all_hematologic(175;0.215)	Breast(109;0.012)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.152)|all_lung(97;0.159)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0384)		CTGATCGCCGGCATCTGGGTG	0.592													3	45	---	---	---	---	PASS	A	124950581	A	A	124950581	3	1	43	1	0	0	0	0	1	0	0	0	14598	1203	42	3	625	3	SLC37A2	11	124950581	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	943684	124950581	10055935	260	16881										
KCNJ1	3758	broad.mit.edu	37	chr11	128710080	128710080	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctttggagactagccttgctCtttgccgagaatgcccaaaa	9	11	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:128710080C>T	uc001qeo.1	-	2	167	c.116G>A	c.(115-117)AGA>AAA	p.R39K	KCNJ1_uc001qep.1_Missense_Mutation_p.R20K|KCNJ1_uc001qeq.1_Missense_Mutation_p.R20K|KCNJ1_uc001qer.1_Missense_Mutation_p.R20K|KCNJ1_uc001qes.1_Missense_Mutation_p.R20K	NM_000220	NP_000211	P48048	IRK1_HUMAN	potassium inwardly-rectifying channel J1 isoform	39	Cytoplasmic (By similarity).				excretion	voltage-gated potassium channel complex	ATP binding|inward rectifier potassium channel activity			ovary(3)|breast(1)	4	all_hematologic(175;0.0641)	all_lung(97;4.89e-06)|Lung NSC(97;9.34e-06)|Breast(109;0.00123)|all_hematologic(192;0.00793)|Renal(330;0.0112)|all_neural(223;0.0189)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;4.05e-06)|LUSC - Lung squamous cell carcinoma(976;0.008)|Lung(977;0.00942)	Acetohexamide(DB00414)|Chlorpropamide(DB00672)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Glimepiride(DB00222)|Glipizide(DB01067)|Glycodiazine(DB01382)|Minoxidil(DB00350)|Nateglinide(DB00731)|Repaglinide(DB00912)|Tolazamide(DB00839)|Tolbutamide(DB01124)	TAGCCTTGCTCTTTGCCGAGA	0.428													30	93	---	---	---	---	PASS	T	128710080	T	T	128710080	3	4	43	1	0	0	0	0	1	0	0	0	8043	913	32	2	1063	2	KCNJ1	11	128710080	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	3759499	128710080	6296436	261	16882										
GLB1L2	89944	broad.mit.edu	37	chr11	134212652	134212652	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtctttgtctttccaggctgGactggagcaccctggtccct	11	13	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr11:134212652G>T	uc001qhp.2	+	2	279	c.91G>T	c.(91-93)GAC>TAC	p.D31Y		NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	31					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		TTCCAGGCTGGACTGGAGCAC	0.617													13	36	---	---	---	---	PASS	T	134212652	T	T	134212652	3	4	43	1	0	0	0	0	1	0	0	0	6429	1174	41	2	97	2	GLB1L2	11	134212652	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	5502572	134212652	793864	262	16883										
IQSEC3	440073	broad.mit.edu	37	chr12	247966	247966	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctgcccccggcccacagcggGaccctcatgatggctttccg	11	18	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:247966G>C	uc001qhw.1	+	1	534	c.528G>C	c.(526-528)GGG>GGC	p.G176G	IQSEC3_uc001qhu.1_Silent_p.G176G|IQSEC3_uc001qht.1_Silent_p.G261G|uc001qhv.1_Intron	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	479					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		CCCACAGCGGGACCCTCATGA	0.488													5	15	---	---	---	---	PASS	C	247966	C	C	247966	2	2	43	1	0	0	0	0	0	0	0	1	7819	1161	41	2		2	IQSEC3	12	247966	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08		247966	133603929	263	16884										
A2ML1	144568	broad.mit.edu	37	chr12	9009811	9009811	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggatggtctggtgcagatgcCcagtggctgtggcgagcaga	18	8	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:9009811C>G	uc001quz.3	+	24	2998	c.2900C>G	c.(2899-2901)CCC>CGC	p.P967R	A2ML1_uc001qva.1_Missense_Mutation_p.P547R|A2ML1_uc010sgm.1_Missense_Mutation_p.P467R	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	811						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						GTGCAGATGCCCAGTGGCTGT	0.547													27	50	---	---	---	---	PASS	G	9009811	G	G	9009811	3	3	43	1	0	0	0	0	1	0	0	0	5	623	22	4	2994	4	A2ML1	12	9009811	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	8761845	9009811	124842084	264	16885										
PRB1	5542	broad.mit.edu	37	chr12	11506888	11506888	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gctttcctggaggaggtgggGggccctggggcttgttgcct	19	9	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:11506888G>T	uc001qzw.1	-	3	186	c.149C>A	c.(148-150)CCC>CAC	p.P50H	PRB1_uc001qzu.1_Missense_Mutation_p.P50H|PRB1_uc001qzv.1_Missense_Mutation_p.P50H	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	50						extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			AGGAGGTGGGGGGCCCTGGGG	0.567													51	114	---	---	---	---	PASS	T	11506888	T	T	11506888	3	4	43	1	0	0	0	0	1	0	0	0	12442	1232	43	3	850	3	PRB1	12	11506888	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	2497077	11506888	122345007	265	16886										
LRP6	4040	broad.mit.edu	37	chr12	12315200	12315200	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caaaacttgtcggtgctgccCatccaactttgacacctcaa	6	14	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:12315200C>A	uc001rah.3	-	10	2348	c.2206G>T	c.(2206-2208)GGG>TGG	p.G736W	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.G736W	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	736	Extracellular (Potential).|Beta-propeller 3.|LDL-receptor class B 12.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				CGGTGCTGCCCATCCAACTTT	0.498													31	71	---	---	---	---	PASS	A	12315200	A	A	12315200	3	1	43	1	0	0	0	0	1	0	0	0	8962	594	21	3	2691	3	LRP6	12	12315200	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	808312	12315200	121536695	266	16887										
GRIN2B	2904	broad.mit.edu	37	chr12	13715977	13715977	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gaagtaggatttgctgccatGgagcaagcactggtcgtccc	13	10	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:13715977G>T	uc001rbt.2	-	13	4374	c.4195C>A	c.(4195-4197)CAT>AAT	p.H1399N		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1399	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TTGCTGCCATGGAGCAAGCAC	0.627													12	36	---	---	---	---	PASS	T	13715977	T	T	13715977	3	4	43	1	0	0	0	0	1	0	0	0	6780	1348	47	3	263	3	GRIN2B	12	13715977	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1400777	13715977	120135918	267	16888										
CCDC91	55297	broad.mit.edu	37	chr12	28458699	28458699	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atcaccagagaatacacatgCagcaaatagcattgtgagtc	8	9	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:28458699C>G	uc001riq.2	+	3	243	c.227C>G	c.(226-228)GCA>GGA	p.A76G	CCDC91_uc001rio.2_Missense_Mutation_p.A46G|CCDC91_uc009zjk.2_RNA|CCDC91_uc001rip.1_Missense_Mutation_p.A76G|CCDC91_uc001rir.2_5'UTR|CCDC91_uc009zjl.2_5'Flank	NM_018318	NP_060788	Q7Z6B0	CCD91_HUMAN	GGA binding partner	76					protein transport	Golgi apparatus|membrane				central_nervous_system(1)	1	Acute lymphoblastic leukemia(23;0.00718)|all_hematologic(23;0.0113)|Lung SC(9;0.184)					AATACACATGCAGCAAATAGC	0.383													46	96	---	---	---	---	PASS	G	28458699	G	G	28458699	3	3	43	1	0	0	0	0	1	0	0	0	2870	710	25	4	237	4	CCDC91	12	28458699	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	14742722	28458699	105393196	268	16889										
LRRK2	120892	broad.mit.edu	37	chr12	40761490	40761490	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gggacatcaatcttccacatGaagtgcaaaatttagaaaaa	7	7	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:40761490G>T	uc001rmg.3	+	51	7628	c.7507G>T	c.(7507-7509)GAA>TAA	p.E2503*	LRRK2_uc009zjw.2_Nonsense_Mutation_p.E1341*|LRRK2_uc001rmi.2_3'UTR	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2503					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)				TCTTCCACATGAAGTGCAAAA	0.313													13	37	---	---	---	---	PASS	T	40761490	T	T	40761490	4	4	43	1	0	0	0	0	0	1	0	0	9033	1291	45	2	7709	2	LRRK2	12	40761490	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	12302791	40761490	93090405	269	16890										
ARID2	196528	broad.mit.edu	37	chr12	46244156	46244156	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gttcagaatcatagtacaggGccacaacctgttacagttgt	9	9	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:46244156G>T	uc001ros.1	+	15	2250	c.2250G>T	c.(2248-2250)GGG>GGT	p.G750G	ARID2_uc001ror.2_Silent_p.G750G|ARID2_uc009zkg.1_Silent_p.G206G|ARID2_uc009zkh.1_Silent_p.G377G|ARID2_uc001rou.1_Silent_p.G84G	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	750					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		ATAGTACAGGGCCACAACCTG	0.463													3	57	---	---	---	---	PASS	T	46244156	T	T	46244156	2	4	43	1	0	0	0	0	0	0	0	1	915	1190	42	3		3	ARID2	12	46244156	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	5482666	46244156	87607739	270	16891										
COL2A1	1280	broad.mit.edu	37	chr12	48393728	48393728	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cagtggcgaggtcagttgggCagatggggcagcactctccg	17	10	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:48393728C>A	uc001rqu.2	-	2	447	c.266G>T	c.(265-267)TGC>TTC	p.C89F	COL2A1_uc001rqv.2_Intron	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	89	VWFC.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	GTCAGTTGGGCAGATGGGGCA	0.493													11	36	---	---	---	---	PASS	A	48393728	A	A	48393728	3	1	43	1	0	0	0	0	1	0	0	0	3687	710	25	3	4409	3	COL2A1	12	48393728	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2149572	48393728	85458167	271	16892										
PRPH	5630	broad.mit.edu	37	chr12	49691238	49691238	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcgcggctcgaggaggagctGcgacagctaaaagaggagat	17	8	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:49691238G>T	uc001rtu.2	+	6	1170	c.1095G>T	c.(1093-1095)CTG>CTT	p.L365L		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	365	Coil 2.|Rod.						structural molecule activity				0						AGGAGGAGCTGCGACAGCTAA	0.652											OREG0021790	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	7	---	---	---	---	PASS	T	49691238	T	T	49691238	2	4	43	1	0	0	0	0	0	0	0	1	12576	1306	46	3		3	PRPH	12	49691238	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	1297510	49691238	84160657	272	16893										
DNAJC22	79962	broad.mit.edu	37	chr12	49743486	49743486	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caggatgagaagcgtcagctGgcttaccaggtaaggctttc	13	9	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:49743486G>T	uc001rua.2	+	2	1232	c.831G>T	c.(829-831)CTG>CTT	p.L277L	DNAJC22_uc001rub.2_Silent_p.L277L	NM_024902	NP_079178	Q8N4W6	DJC22_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 22	277	J.				protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			ovary(1)	1						AGCGTCAGCTGGCTTACCAGG	0.537													8	76	---	---	---	---	PASS	T	49743486	T	T	49743486	2	4	43	1	0	0	0	0	0	0	0	1	4641	1335	47	3		3	DNAJC22	12	49743486	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	52248	49743486	84108409	273	16894										
TMPRSS12	283471	broad.mit.edu	37	chr12	51281183	51281183	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggccatccttctaccaaaagTggctgacagagcatttcttc	8	12	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:51281183T>G	uc001rwx.3	+	5	981	c.934T>G	c.(934-936)TGG>GGG	p.W312G	TMPRSS12_uc001rwy.2_3'UTR	NM_182559	NP_872365	Q86WS5	TMPSC_HUMAN	transmembrane protease, serine 12 precursor	312	Peptidase S1.|Extracellular (Potential).				proteolysis	integral to membrane	serine-type endopeptidase activity				0						CTACCAAAAGTGGCTGACAGA	0.393													34	50	---	---	---	---	PASS	G	51281183	G	G	51281183	3	3	43	1	0	0	0	0	1	0	0	0	16241	1696	59	5	952	5	TMPRSS12	12	51281183	Missense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08	1537697	51281183	82570712	274	16895										
KRT82	3888	broad.mit.edu	37	chr12	52788838	52788838	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cgctcccacagctcagtagcCcctggggctcgcaggggaca	13	16	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:52788838C>A	uc001sai.1	-	9	1578	c.1463G>T	c.(1462-1464)GGG>GTG	p.G488V		NM_033033	NP_149022	Q9NSB4	KRT82_HUMAN	keratin 82	488	Tail.					keratin filament	protein binding|structural constituent of epidermis			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.193)		GCTCAGTAGCCCCTGGGGCTC	0.637													17	23	---	---	---	---	PASS	A	52788838	A	A	52788838	3	1	43	1	0	0	0	0	1	0	0	0	8496	623	22	3	82	3	KRT82	12	52788838	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1507655	52788838	81063057	275	16896										
KRT74	121391	broad.mit.edu	37	chr12	52967271	52967271	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aaacatgcaggccccagggcCacactgccaaacatactgcc	8	16	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:52967271C>A	uc001sap.1	-	1	339	c.291G>T	c.(289-291)GTG>GTT	p.V97V		NM_175053	NP_778223	Q7RTS7	K2C74_HUMAN	keratin 6 irs4	97	Head.|Gly-rich.					keratin filament	structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.191)		GCCCCAGGGCCACACTGCCAA	0.647													12	47	---	---	---	---	PASS	A	52967271	A	A	52967271	2	1	43	1	0	0	0	0	0	0	0	1	8487	581	21	3		3	KRT74	12	52967271	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	178433	52967271	80884624	276	16897										
KRT2	3849	broad.mit.edu	37	chr12	53045530	53045530	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	accaggaccccctaaacctcCaacaccaccagggcccccaa	5	21	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:53045530C>A	uc001sat.2	-	1	430	c.397G>T	c.(397-399)GGA>TGA	p.G133*		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	133	Head.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		CCTAAacctccaacaccacca	0.279													5	19	---	---	---	---	PASS	A	53045530	A	A	53045530	4	1	43	1	0	0	0	0	0	1	0	0	8457	603	21	3	1558	3	KRT2	12	53045530	Nonsense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	78259	53045530	80806365	277	16898										
ITGB7	3695	broad.mit.edu	37	chr12	53585733	53585733	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gagagccggtaagccaggacCagccccagccccactgccac	11	18	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:53585733C>A	uc009zmv.2	-	14	2297	c.2226G>T	c.(2224-2226)CTG>CTT	p.L742L	ITGB7_uc001scc.2_Silent_p.L742L|ITGB7_uc010snz.1_RNA	NM_000889	NP_000880	P26010	ITB7_HUMAN	integrin, beta 7 precursor	742	Helical; (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|regulation of immune response	integrin complex	identical protein binding|metal ion binding|receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|breast(1)	8						AAGCCAGGACCAGCCCCAGCC	0.587													4	24	---	---	---	---	PASS	A	53585733	A	A	53585733	2	1	43	1	0	0	0	0	0	0	0	1	7900	581	21	3		3	ITGB7	12	53585733	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	540203	53585733	80266162	278	16899										
MIP	4284	broad.mit.edu	37	chr12	56848109	56848109	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cacagcggccccagccacagCtcccaggagctgggctgcca	12	18	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:56848109C>A	uc001slh.2	-	1	321	c.289G>T	c.(289-291)GCT>TCT	p.A97S		NM_012064	NP_036196	P30301	MIP_HUMAN	major intrinsic protein of lens fiber	97	Helical; (By similarity).				response to stimulus|visual perception	gap junction|integral to plasma membrane	structural constituent of eye lens			skin(1)	1						CCAGCCACAGCTCCCAGGAGC	0.587													4	53	---	---	---	---	PASS	A	56848109	A	A	56848109	3	1	43	1	0	0	0	0	1	0	0	0	9591	797	28	3	518	3	MIP	12	56848109	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	3262376	56848109	77003786	279	16900										
LRP1	4035	broad.mit.edu	37	chr12	57562984	57562984	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cactcctgttctagcacccaGttcaagtgcaacagcgggcg	10	14	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:57562984G>T	uc001snd.2	+	20	3523	c.3057G>T	c.(3055-3057)CAG>CAT	p.Q1019H	LRP1_uc009zpi.1_RNA	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1019	LDL-receptor class A 7.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CTAGCACCCAGTTCAAGTGCA	0.597													8	49	---	---	---	---	PASS	T	57562984	T	T	57562984	3	4	43	1	0	0	0	0	1	0	0	0	8951	1020	36	3	3135	3	LRP1	12	57562984	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	714875	57562984	76288911	280	16901										
AGAP2	116986	broad.mit.edu	37	chr12	58122159	58122159	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agtttccacattttgcgcttGgctggtttcccgaagcgaag	11	10	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:58122159G>T	uc001spq.2	-	14	2559	c.2559C>A	c.(2557-2559)GCC>GCA	p.A853A	AGAP2_uc001spo.1_5'Flank|AGAP2_uc001spp.2_Silent_p.A852A|AGAP2_uc001spr.2_Intron	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	853	PH.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						TTTTGCGCTTGGCTGGTTTCC	0.274													3	14	---	---	---	---	PASS	T	58122159	T	T	58122159	2	4	43	1	0	0	0	0	0	0	0	1	368	1362	47	3		3	AGAP2	12	58122159	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	559175	58122159	75729736	281	16902										
TMCC3	57458	broad.mit.edu	37	chr12	94975615	94975615	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtcggccgagcctgacgtgcCactcgaacattcatcatcac	9	15	3	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:94975615C>A	uc001tdj.2	-	2	896	c.778G>T	c.(778-780)GGC>TGC	p.G260C	TMCC3_uc001tdi.2_Missense_Mutation_p.G229C	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	260						integral to membrane				ovary(1)|skin(1)	2						CCTGACGTGCCACTCGAACAT	0.597													14	40	---	---	---	---	PASS	A	94975615	A	A	94975615	3	1	43	1	0	0	0	0	1	0	0	0	15991	594	21	3	667	3	TMCC3	12	94975615	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	36853456	94975615	38876280	282	16903										
GOLGA2B	55592	broad.mit.edu	37	chr12	100551470	100551470	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttcagctgcccacatagccgTgcctgctcctcctcggcact	8	18	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:100551470T>A	uc001tgs.2	-	4	570	c.126A>T	c.(124-126)GCA>GCT	p.A42A	GOLGA2B_uc001tgt.2_RNA|GOLGA2B_uc001tgu.2_Silent_p.A42A|uc001tgx.2_5'Flank	NM_017600	NP_060070			golgi autoantigen, golgin subfamily a, 2-like 1												0						CACATAGCCGTGCCTGCTCCT	0.597													8	23	---	---	---	---	PASS	A	100551470	A	A	100551470	2	1	43	1	0	0	0	0	0	0	0	1	6553	1683	59	5		5	GOLGA2B	12	100551470	Silent	SNP	T	TCGA-22-5472-01A-01D-1632-08	5575855	100551470	33300425	283	16904										
CHST11	50515	broad.mit.edu	37	chr12	105150891	105150891	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gagctcatctactgctacgtGcccaaggtggcctgcaccaa	10	14	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:105150891G>T	uc001tkx.1	+	4	660	c.369G>T	c.(367-369)GTG>GTT	p.V123V	CHST11_uc001tky.2_Silent_p.V118V|uc001tkz.2_5'Flank	NM_018413	NP_060883	Q9NPF2	CHSTB_HUMAN	carbohydrate sulfotransferase 11	123	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 4-sulfotransferase activity|N-acetylgalactosamine 4-O-sulfotransferase activity				0						ACTGCTACGTGCCCAAGGTGG	0.632													11	20	---	---	---	---	PASS	T	105150891	T	T	105150891	2	4	43	1	0	0	0	0	0	0	0	1	3399	1306	46	3		3	CHST11	12	105150891	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	4599421	105150891	28701004	284	16905										
CCDC63	160762	broad.mit.edu	37	chr12	111336788	111336788	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atatgtatgagagcaagtacGgggaggtcagcaagaccttg	14	6	1	2	rs116589141	by1000genomes	TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:111336788G>C	uc001trv.1	+	10	1396	c.1201G>C	c.(1201-1203)GGG>CGG	p.G401R	CCDC63_uc010sye.1_Missense_Mutation_p.G361R|CCDC63_uc001trw.1_Missense_Mutation_p.G316R	NM_152591	NP_689804	Q8NA47	CCD63_HUMAN	coiled-coil domain containing 63	401	Potential.									skin(6)|ovary(1)|pancreas(1)	8						GAGCAAGTACGGGGAGGTCAG	0.512													8	29	---	---	---	---	PASS	C	111336788	C	C	111336788	3	2	43	1	0	0	0	0	1	0	0	0	2834	1116	39	4	1235	4	CCDC63	12	111336788	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	6185897	111336788	22515107	285	16906										
CCDC63	160762	broad.mit.edu	37	chr12	111342571	111342571	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccccagtgctgggggctgacCccttcagcgacaggttggat	14	13	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:111342571C>A	uc001trv.1	+	11	1717	c.1522C>A	c.(1522-1524)CCC>ACC	p.P508T	CCDC63_uc010sye.1_Missense_Mutation_p.P468T|CCDC63_uc001trw.1_Missense_Mutation_p.P423T	NM_152591	NP_689804	Q8NA47	CCD63_HUMAN	coiled-coil domain containing 63	508										skin(6)|ovary(1)|pancreas(1)	8						GGGGGCTGACCCCTTCAGCGA	0.592													21	45	---	---	---	---	PASS	A	111342571	A	A	111342571	3	1	43	1	0	0	0	0	1	0	0	0	2834	623	22	3	1560	3	CCDC63	12	111342571	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	5783	111342571	22509324	286	16907										
TBX3	6926	broad.mit.edu	37	chr12	115114251	115114251	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgtctttcatcaaacaccctCatggactgcagggtgagctg	10	11	4	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:115114251C>A	uc001tvt.1	-	6	1930	c.966G>T	c.(964-966)ATG>ATT	p.M322I	TBX3_uc001tvu.1_Missense_Mutation_p.M302I	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	322					anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		CAAACACCCTCATGGACTGCA	0.483													23	58	---	---	---	---	PASS	A	115114251	A	A	115114251	3	1	43	1	0	0	0	0	1	0	0	0	15656	826	29	2	1277	2	TBX3	12	115114251	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	3771680	115114251	18737644	287	16908										
KSR2	283455	broad.mit.edu	37	chr12	118199236	118199236	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agagatgggtgcggatccacGgggtgggctccggggggcac	21	9	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:118199236G>A	uc001two.2	-	4	534	c.479C>T	c.(478-480)CCG>CTG	p.P160L		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	189	Pro-rich.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity	p.C160C(1)		lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GCGGATCCACGGGGTGGGCTC	0.637													12	33	---	---	---	---	PASS	A	118199236	A	A	118199236	3	1	43	1	0	0	0	0	1	0	0	0	8582	1116	39	1	2354	1	KSR2	12	118199236	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	3084985	118199236	15652659	288	16909										
SIRT4	23409	broad.mit.edu	37	chr12	120741815	120741815	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atgtggatgctttgcacaccAaggcggggagtcggcgcctg	16	10	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:120741815A>G	uc001tyc.2	+	2	471	c.451A>G	c.(451-453)AAG>GAG	p.K151E		NM_012240	NP_036372	Q9Y6E7	SIRT4_HUMAN	sirtuin 4	151	Deacetylase sirtuin-type.				chromatin silencing|negative regulation of insulin secretion|protein ADP-ribosylation|protein deacetylation	mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|protein binding|zinc ion binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TTTGCACACCAAGGCGGGGAG	0.567													9	27	---	---	---	---	PASS	G	120741815	G	G	120741815	3	3	43	1	0	0	0	0	1	0	0	0	14340	131	5	5	453	5	SIRT4	12	120741815	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	2542579	120741815	13110080	289	16910										
TMEM132B	114795	broad.mit.edu	37	chr12	126138253	126138253	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggcaaaccttgagtccaaatGgccaattgtggttgcagagg	13	8	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:126138253G>T	uc001uhe.1	+	9	2242	c.2234G>T	c.(2233-2235)TGG>TTG	p.W745L	TMEM132B_uc001uhf.1_Missense_Mutation_p.W257L	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	745	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		GAGTCCAAATGGCCAATTGTG	0.423													19	53	---	---	---	---	PASS	T	126138253	T	T	126138253	3	4	43	1	0	0	0	0	1	0	0	0	16043	1357	47	3	2268	3	TMEM132B	12	126138253	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	5396438	126138253	7713642	290	16911										
DDX51	317781	broad.mit.edu	37	chr12	132625014	132625014	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cttcaggatcatcctcctctGgccaggcccgtagcgcgagg	12	15	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr12:132625014G>T	uc001ujy.3	-	11	1666	c.1627C>A	c.(1627-1629)CAG>AAG	p.Q543K		NM_175066	NP_778236	Q8N8A6	DDX51_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 51	543	Helicase C-terminal.				rRNA processing	nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			lung(1)|pancreas(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.241)		OV - Ovarian serous cystadenocarcinoma(86;7.59e-08)|Epithelial(86;3.62e-07)|all cancers(50;2.13e-05)		ATCCTCCTCTGGCCAGGCCCG	0.622													16	39	---	---	---	---	PASS	T	132625014	T	T	132625014	3	4	43	1	0	0	0	0	1	0	0	0	4369	1357	47	3	393	3	DDX51	12	132625014	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	6486761	132625014	1226881	291	16912										
BRCA2	675	broad.mit.edu	37	chr13	32930590	32930590	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	attacaagtcttcagaatgcCagagatatacaggatatgcg	9	7	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr13:32930590C>A	uc001uub.1	+	15	7688	c.7461C>A	c.(7459-7461)GCC>GCA	p.A2487A		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2487	Interaction with FANCD2.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TTCAGAATGCCAGAGATATAC	0.328			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			26	68	---	---	---	---	PASS	A	32930590	A	A	32930590	2	1	43	1	0	0	0	0	0	0	0	1	1499	581	21	3		3	BRCA2	13	32930590	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08		32930590	82239288	292	16913										
RCBTB2	1102	broad.mit.edu	37	chr13	49085987	49085987	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttgccgagtccaagctgcccGtttccgttgtaaccccagac	9	15	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr13:49085987G>A	uc001vch.2	-	9	1073	c.702C>T	c.(700-702)AAC>AAT	p.N234N	RCBTB2_uc010tgg.1_Silent_p.N239N|RCBTB2_uc001vci.2_Silent_p.N210N|RCBTB2_uc010tgh.1_Missense_Mutation_p.T8M|RCBTB2_uc001vcj.2_Silent_p.N238N|RCBTB2_uc010acv.1_RNA|RCBTB2_uc010tgi.1_Silent_p.N210N	NM_001268	NP_001259	O95199	RCBT2_HUMAN	regulator of chromosome condensation and BTB	234	RCC1 4.						Ran guanyl-nucleotide exchange factor activity			ovary(2)|lung(2)|skin(1)	5		all_cancers(8;4.86e-71)|all_epithelial(8;2.11e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;2.3e-10)|Lung NSC(96;1.07e-07)|Breast(56;1.53e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.00826)|Myeloproliferative disorder(33;0.0179)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(99;1.8e-09)|LUSC - Lung squamous cell carcinoma(3;0.116)		CAAGCTGCCCGTTTCCGTTGT	0.532													3	28	---	---	---	---	PASS	A	49085987	A	A	49085987	2	1	43	1	0	0	0	0	0	0	0	1	13172	1136	40	1		1	RCBTB2	13	49085987	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	16155397	49085987	66083891	293	16914										
PCDH8	5100	broad.mit.edu	37	chr13	53422390	53422390	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcttcatcaggcggaagcttGtgtcacccgatactttcata	9	11	4	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr13:53422390G>T	uc001vhi.2	-	1	385	c.182C>A	c.(181-183)ACA>AAA	p.T61K	PCDH8_uc001vhj.2_Missense_Mutation_p.T61K	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	61	Extracellular (Potential).|Cadherin 1.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GCGGAAGCTTGTGTCACCCGA	0.637													33	38	---	---	---	---	PASS	T	53422390	T	T	53422390	3	4	43	1	0	0	0	0	1	0	0	0	11517	1377	48	3	3042	3	PCDH8	13	53422390	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	4336403	53422390	61747488	294	16915										
KLHDC2	23588	broad.mit.edu	37	chr14	50246968	50246968	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcccagttggtcgatcttggCactcactaacaccagtttct	8	13	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr14:50246968C>A	uc001wwx.2	+	9	1211	c.811C>A	c.(811-813)CAC>AAC	p.H271N	SDCCAG1_uc010anj.1_Intron|KLHDC2_uc001wwy.2_Missense_Mutation_p.H271N|KLHDC2_uc010anp.2_Missense_Mutation_p.H271N	NM_014315	NP_055130	Q9Y2U9	KLDC2_HUMAN	kelch domain containing 2	271	Kelch 4.					nucleus	protein binding			ovary(1)	1	all_epithelial(31;0.000959)|Breast(41;0.0117)					TCGATCTTGGCACTCACTAAC	0.348													23	96	---	---	---	---	PASS	A	50246968	A	A	50246968	3	1	43	1	0	0	0	0	1	0	0	0	8356	710	25	3	845	3	KLHDC2	14	50246968	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08		50246968	57102572	295	16916										
ATP5S	27109	broad.mit.edu	37	chr14	50789330	50789330	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctaccatggccaggagaggtGgcagaaggactacaaccacc	12	12	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr14:50789330G>T	uc001wxw.1	+	3	946	c.254G>T	c.(253-255)TGG>TTG	p.W85L	ATP5S_uc001wxv.2_Missense_Mutation_p.W85L|ATP5S_uc001wxx.1_Missense_Mutation_p.W85L|ATP5S_uc010ant.1_Missense_Mutation_p.W57L	NM_001003803	NP_001003803	Q99766	ATP5S_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	85					ATP biosynthetic process	mitochondrial inner membrane|proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity			ovary(1)|skin(1)	2	all_epithelial(31;0.000636)|Breast(41;0.0102)			OV - Ovarian serous cystadenocarcinoma(311;0.0685)		CAGGAGAGGTGGCAGAAGGAC	0.557													24	45	---	---	---	---	PASS	T	50789330	T	T	50789330	3	4	43	1	0	0	0	0	1	0	0	0	1163	1357	47	3	264	3	ATP5S	14	50789330	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	542362	50789330	56560210	296	16917										
SIX4	51804	broad.mit.edu	37	chr14	61190688	61190688	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctaccgccgcgccccccgcCacttctcggtgcgcctcctg	9	23	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr14:61190688C>A	uc001xfc.2	-	1	105	c.105G>T	c.(103-105)GTG>GTT	p.V35V	SIX4_uc010app.1_Silent_p.V27V	NM_017420	NP_059116	Q9UIU6	SIX4_HUMAN	sine oculis homeobox homolog 4	35						nucleus				breast(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0275)		CGCCCCCCGCCACTTCTCGGT	0.716													9	35	---	---	---	---	PASS	A	61190688	A	A	61190688	2	1	43	1	0	0	0	0	0	0	0	1	14349	581	21	3		3	SIX4	14	61190688	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	10401358	61190688	46158852	297	16918										
TMEM30B	161291	broad.mit.edu	37	chr14	61747089	61747089	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tacagtttgcggaacgtgggCagcgccgccgtgcgcatcca	14	13	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr14:61747089C>A	uc001xfl.2	-	1	1442	c.777G>T	c.(775-777)CTG>CTT	p.L259L	PRKCH_uc010tsa.1_Intron|TMEM30B_uc010apr.1_RNA	NM_001017970	NP_001017970	Q3MIR4	CC50B_HUMAN	transmembrane protein 30B	259						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(108;0.107)|BRCA - Breast invasive adenocarcinoma(234;0.181)		GGAACGTGGGCAGCGCCGCCG	0.672													6	25	---	---	---	---	PASS	A	61747089	A	A	61747089	2	1	43	1	0	0	0	0	0	0	0	1	16151	697	25	3		3	TMEM30B	14	61747089	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	556401	61747089	45602451	298	16919										
MAP3K9	4293	broad.mit.edu	37	chr14	71199923	71199923	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtggccgagttgactggggtGggctcctcatggattccatc	15	10	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr14:71199923G>T	uc001xmm.2	-	11	2163	c.2163C>A	c.(2161-2163)CCC>CCA	p.P721P	MAP3K9_uc010ttk.1_Silent_p.P449P|MAP3K9_uc001xmk.2_Silent_p.P454P|MAP3K9_uc001xml.2_Silent_p.P735P	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	721					activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		TGACTGGGGTGGGCTCCTCAT	0.562													16	44	---	---	---	---	PASS	T	71199923	T	T	71199923	2	4	43	1	0	0	0	0	0	0	0	1	9257	1335	47	3		3	MAP3K9	14	71199923	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	9452834	71199923	36149617	299	16920										
PAPLN	89932	broad.mit.edu	37	chr14	73718255	73718255	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atcctcatcgacgaggctgcTgccagcaggaacttcctggg	12	13	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr14:73718255T>C	uc010ttx.1	+	7	814	c.651T>C	c.(649-651)GCT>GCC	p.A217A	PAPLN_uc001xnw.3_Intron|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_Intron|PAPLN_uc010tty.1_Silent_p.A217A	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	217						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		ACGAGGCTGCTGCCAGCAGGA	0.632													21	32	---	---	---	---	PASS	C	73718255	C	C	73718255	2	2	43	1	0	0	0	0	0	0	0	1	11428	1595	55	5		5	PAPLN	14	73718255	Silent	SNP	T	TCGA-22-5472-01A-01D-1632-08	2518332	73718255	33631285	300	16921										
PAPLN	89932	broad.mit.edu	37	chr14	73727902	73727902	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccccaggcccagcagaatgaGcccagtgagtgccggggctc	14	15	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr14:73727902G>T	uc010ttx.1	+	17	2308	c.2145G>T	c.(2143-2145)GAG>GAT	p.E715D	PAPLN_uc001xnw.3_Missense_Mutation_p.E688D|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.E715D|PAPLN_uc010arm.2_5'UTR|PAPLN_uc010arn.2_5'Flank	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	715						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		AGCAGAATGAGCCCAGTGAGT	0.627													13	40	---	---	---	---	PASS	T	73727902	T	T	73727902	3	4	43	1	0	0	0	0	1	0	0	0	11428	962	34	3	2126	3	PAPLN	14	73727902	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	9647	73727902	33621638	301	16922										
UBR7	55148	broad.mit.edu	37	chr14	93686640	93686640	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tattcctgacagatgaatacGacacagttctggcttatgaa	8	8	1	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr14:93686640G>T	uc001ybm.3	+	9	1242	c.1006G>T	c.(1006-1008)GAC>TAC	p.D336Y	UBR7_uc001ybn.3_Missense_Mutation_p.D260Y|UBR7_uc010auq.2_Missense_Mutation_p.D185Y	NM_175748	NP_786924	Q8N806	UBR7_HUMAN	ubiquitin protein ligase E3 component n-recognin	336							ubiquitin-protein ligase activity|zinc ion binding				0						AGATGAATACGACACAGTTCT	0.403													32	58	---	---	---	---	PASS	T	93686640	T	T	93686640	3	4	43	1	0	0	0	0	1	0	0	0	16903	1058	37	2	1040	2	UBR7	14	93686640	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	19958738	93686640	13662900	302	16923										
DYNC1H1	1778	broad.mit.edu	37	chr14	102484926	102484926	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcagagccgctcactgctgcCatggtggagttctacaccat	11	13	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr14:102484926C>A	uc001yks.2	+	41	8480	c.8316C>A	c.(8314-8316)GCC>GCA	p.A2772A	DYNC1H1_uc001ykt.1_Silent_p.A263A	NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2772	AAA 3 (By similarity).				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						TCACTGCTGCCATGGTGGAGT	0.512													4	27	---	---	---	---	PASS	A	102484926	A	A	102484926	2	1	43	1	0	0	0	0	0	0	0	1	4841	581	21	3		3	DYNC1H1	14	102484926	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	8798286	102484926	4864614	303	16924										
WDR20	91833	broad.mit.edu	37	chr14	102606387	102606387	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	accgggtgcccttcaactcgCagggatccaaccctgtccgc	10	17	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr14:102606387C>A	uc001ykz.2	+	1	176	c.127C>A	c.(127-129)CAG>AAG	p.Q43K	WDR20_uc001yky.1_5'UTR|WDR20_uc001yla.2_5'UTR|WDR20_uc001ylb.2_Missense_Mutation_p.Q43K|WDR20_uc010txu.1_Missense_Mutation_p.Q43K|WDR20_uc001ylc.2_Missense_Mutation_p.Q43K|WDR20_uc001yld.2_Missense_Mutation_p.Q43K|WDR20_uc001yle.2_Missense_Mutation_p.Q43K|WDR20_uc001ylf.2_Missense_Mutation_p.Q43K|HSP90AA1_uc001ykv.3_5'Flank	NM_144574	NP_653175	Q8TBZ3	WDR20_HUMAN	WD repeat domain 20 isoform 2	43											0						CTTCAACTCGCAGGGATCCAA	0.592													18	44	---	---	---	---	PASS	A	102606387	A	A	102606387	3	1	43	1	0	0	0	0	1	0	0	0	17277	711	25	3	129	3	WDR20	14	102606387	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	121461	102606387	4743153	304	16925										
WDR20	91833	broad.mit.edu	37	chr14	102675626	102675626	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tatcggtttggttccgtgggCcaggacacacagctctgttt	12	10	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr14:102675626C>A	uc001ykz.2	+	3	1168	c.1119C>A	c.(1117-1119)GGC>GGA	p.G373G	WDR20_uc001yky.1_Silent_p.G116G|WDR20_uc001yla.2_Silent_p.G249G|WDR20_uc001ylb.2_Silent_p.G312G|WDR20_uc010txu.1_Silent_p.G404G|WDR20_uc001ylc.2_Intron|WDR20_uc001yld.2_Silent_p.G373G|WDR20_uc001yle.2_Silent_p.G312G|WDR20_uc001ylf.2_Silent_p.G385G	NM_144574	NP_653175	Q8TBZ3	WDR20_HUMAN	WD repeat domain 20 isoform 2	373	WD 4.										0						GTTCCGTGGGCCAGGACACAC	0.507											OREG0022939	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	34	---	---	---	---	PASS	A	102675626	A	A	102675626	2	1	43	1	0	0	0	0	0	0	0	1	17277	726	26	3		3	WDR20	14	102675626	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	69239	102675626	4673914	305	16926										
EIF5	1983	broad.mit.edu	37	chr14	103805111	103805111	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	actggggagaagatacaactGaggaagctcaaaggcgtcga	14	7	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr14:103805111G>T	uc001ymq.2	+	8	1147	c.625G>T	c.(625-627)GAG>TAG	p.E209*	EIF5_uc001ymr.2_Nonsense_Mutation_p.E209*|EIF5_uc001yms.2_Nonsense_Mutation_p.E209*|EIF5_uc001ymt.2_Nonsense_Mutation_p.E209*|EIF5_uc001ymu.2_Nonsense_Mutation_p.E209*	NM_001969	NP_001960	P55010	IF5_HUMAN	eukaryotic translation initiation factor 5	209					regulation of translational initiation|RNA metabolic process	cytosol	GTP binding|GTPase activity|translation initiation factor activity			pancreas(1)|breast(1)|skin(1)	3		Melanoma(154;0.155)	Epithelial(46;0.182)			AGATACAACTGAGGAAGCTCA	0.408													22	40	---	---	---	---	PASS	T	103805111	T	T	103805111	4	4	43	1	0	0	0	0	0	1	0	0	5040	1291	45	2	647	2	EIF5	14	103805111	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1129485	103805111	3544429	306	16927										
GPR176	11245	broad.mit.edu	37	chr15	40094103	40094103	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggcgtgcagctcggcctcccGctgggaggcatagggaatag	17	11	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:40094103G>T	uc001zkj.1	-	3	1644	c.778C>A	c.(778-780)CGG>AGG	p.R260R	GPR176_uc010uck.1_Silent_p.R200R	NM_007223	NP_009154	Q14439	GP176_HUMAN	G protein-coupled receptor 176	260	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		all_cancers(109;4.05e-15)|all_epithelial(112;2.96e-13)|Lung NSC(122;8.53e-11)|all_lung(180;2.71e-09)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;4.4e-06)|BRCA - Breast invasive adenocarcinoma(123;0.123)		TCGGCCTCCCGCTGGGAGGCA	0.592											OREG0023053	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	36	---	---	---	---	PASS	T	40094103	T	T	40094103	2	4	43	1	0	0	0	0	0	0	0	1	6673	1086	38	1		1	GPR176	15	40094103	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08		40094103	62437289	307	16928										
BUB1B	701	broad.mit.edu	37	chr15	40509756	40509756	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tttgaagatagtggacttttCctacagtgttgaccttaggg	11	6	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:40509756C>A	uc001zkx.3	+	21	2950	c.2738C>A	c.(2737-2739)TCC>TAC	p.S913Y	PAK6_uc010bbl.2_5'UTR|PAK6_uc010bbm.2_5'UTR	NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	913	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		GTGGACTTTTCCTACAGTGTT	0.433			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				5	258	---	---	---	---	PASS	A	40509756	A	A	40509756	3	1	43	1	0	0	0	0	1	0	0	0	1571	855	30	2	2820	2	BUB1B	15	40509756	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	415653	40509756	62021636	308	16929										
GANC	2595	broad.mit.edu	37	chr15	42621565	42621565	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gccttctgtctttagagggcCagagcaaaccatgcagaaga	11	10	2	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:42621565C>A	uc001zpi.2	+	14	1876	c.1562C>A	c.(1561-1563)CCA>CAA	p.P521Q		NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	521					carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		TTTAGAGGGCCAGAGCAAACC	0.438													43	71	---	---	---	---	PASS	A	42621565	A	A	42621565	3	1	43	1	0	0	0	0	1	0	0	0	6234	594	21	3	1616	3	GANC	15	42621565	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2111809	42621565	59909827	309	16930										
TGM5	9333	broad.mit.edu	37	chr15	43527059	43527059	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttcacccagggcactgatgcGgatcagcttgtctgttgaca	11	11	3	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:43527059G>A	uc001zrd.1	-	11	1791	c.1783C>T	c.(1783-1785)CGC>TGC	p.R595C	TGM5_uc001zrc.1_Missense_Mutation_p.R252C|TGM5_uc001zre.1_Missense_Mutation_p.R513C	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	595					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	GCACTGATGCGGATCAGCTTG	0.463													17	59	---	---	---	---	PASS	A	43527059	A	A	43527059	3	1	43	1	0	0	0	0	1	0	0	0	15830	1116	39	1	391	1	TGM5	15	43527059	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	905494	43527059	59004333	310	16931										
TUBGCP4	27229	broad.mit.edu	37	chr15	43690301	43690301	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cccgggaagcccctgcatctGgctgggcagccctaggtctt	13	15	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:43690301G>T	uc001zro.2	+	13	1585	c.1345G>T	c.(1345-1347)GGC>TGC	p.G449C	TUBGCP4_uc001zrn.2_Missense_Mutation_p.G448C|TUBGCP4_uc010bdh.2_RNA	NM_014444	NP_055259	Q9UGJ1	GCP4_HUMAN	tubulin, gamma complex associated protein 4	449					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	structural constituent of cytoskeleton			ovary(3)	3		all_cancers(109;1.27e-10)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.72e-06)|all_lung(180;1.59e-05)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;3.53e-07)		CCCTGCATCTGGCTGGGCAGC	0.473													5	154	---	---	---	---	PASS	T	43690301	T	T	43690301	3	4	43	1	0	0	0	0	1	0	0	0	16765	1348	47	3	1392	3	TUBGCP4	15	43690301	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	163242	43690301	58841091	311	16932										
MYO5A	4644	broad.mit.edu	37	chr15	52622577	52622577	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caggttcttaacaagtttttGctcatcctccttcttgtatt	5	10	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:52622577G>A	uc002aby.2	-	34	4697	c.4453C>T	c.(4453-4455)CAA>TAA	p.Q1485*	MYO5A_uc002abx.3_Nonsense_Mutation_p.Q1458*|MYO5A_uc010ugd.1_Nonsense_Mutation_p.Q207*|MYO5A_uc002abz.1_RNA	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	1485					actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		ACAAGTTTTTGCTCATCCTCC	0.423													7	218	---	---	---	---	PASS	A	52622577	A	A	52622577	4	1	43	1	0	0	0	0	0	1	0	0	10078	1328	46	3	1146	3	MYO5A	15	52622577	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	8932276	52622577	49908815	312	16933										
PRTG	283659	broad.mit.edu	37	chr15	55912220	55912220	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agtgaaagaatcagaggttgGggggtgtggtacttataact	15	3	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:55912220G>T	uc002adg.2	-	20	3491	c.3443C>A	c.(3442-3444)CCC>CAC	p.P1148H		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	1148					multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		TCAGAGGTTGGGGGGTGTGGT	0.493													16	28	---	---	---	---	PASS	T	55912220	T	T	55912220	3	4	43	1	0	0	0	0	1	0	0	0	12638	1232	43	3	13	3	PRTG	15	55912220	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	3289643	55912220	46619172	313	16934										
LIPC	3990	broad.mit.edu	37	chr15	58855731	58855731	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggaattgctagtaataaaacGtattcctttcttatcacgct	6	8	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:58855731G>T	uc010bga.1	+	10	1805	c.1197G>T	c.(1195-1197)ACG>ACT	p.T399T	LIPC_uc010bfz.1_Silent_p.T399T|LIPC_uc002afa.1_Silent_p.T399T|LIPC_uc010bgb.1_Silent_p.T297T|LIPC_uc010ugy.1_Silent_p.T338T	NM_000236	NP_000227	P11150	LIPC_HUMAN	lipase C precursor	399	PLAT.				cholesterol homeostasis|chylomicron remnant clearance|fatty acid biosynthetic process|high-density lipoprotein particle remodeling|intermediate-density lipoprotein particle remodeling|low-density lipoprotein particle remodeling|phosphatidylcholine catabolic process|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein binding|heparin binding|low-density lipoprotein particle binding|phospholipase activity|triglyceride lipase activity			ovary(1)	1		Colorectal(260;0.215)		GBM - Glioblastoma multiforme(80;0.00213)|all cancers(107;0.00548)		GTAATAAAACGTATTCCTTTC	0.443													17	31	---	---	---	---	PASS	T	58855731	T	T	58855731	2	4	43	1	0	0	0	0	0	0	0	1	8820	1132	40	1		1	LIPC	15	58855731	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	2943511	58855731	43675661	314	16935										
FOXB1	27023	broad.mit.edu	37	chr15	60298080	60298080	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	accagccaaagcagccccgcCacccccagcgaaacgctcac	7	21	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:60298080C>A	uc002agj.1	+	2	1397	c.918C>A	c.(916-918)GCC>GCA	p.A306A	FOXB1_uc010bgh.1_Intron	NM_012182	NP_036314	Q99853	FOXB1_HUMAN	forkhead box B1	306					axon target recognition|cell migration in diencephalon|epithelial cell differentiation involved in mammary gland alveolus development|floor plate development|hypothalamus cell migration|inferior colliculus development|lactation|mammillothalamic axonal tract development|negative regulation of neuron apoptosis|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|telencephalon cell migration|visual learning	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(1)|central_nervous_system(1)	2						GCAGCCCCGCCACCCCCAGCG	0.711													4	7	---	---	---	---	PASS	A	60298080	A	A	60298080	2	1	43	1	0	0	0	0	0	0	0	1	5992	581	21	3		3	FOXB1	15	60298080	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	1442349	60298080	42233312	315	16936										
DENND4A	10260	broad.mit.edu	37	chr15	66048743	66048743	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgaaacatcagttaatcctgCtacaacaaagtagtcagcaa	6	9	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:66048743C>A	uc002aph.2	-	3	424	c.46G>T	c.(46-48)GCA>TCA	p.A16S	DENND4A_uc002api.2_Missense_Mutation_p.A16S|DENND4A_uc002apj.3_Missense_Mutation_p.A16S|DENND4A_uc010ujj.1_Missense_Mutation_p.A16S	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	16					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						GTTAATCCTGCTACAACAAAG	0.373													10	38	---	---	---	---	PASS	A	66048743	A	A	66048743	3	1	43	1	0	0	0	0	1	0	0	0	4433	797	28	3	5798	3	DENND4A	15	66048743	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	5750663	66048743	36482649	316	16937										
DIS3L	115752	broad.mit.edu	37	chr15	66615210	66615210	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aacctggaacttggggtccaCatcgcagatgtaacacactt	9	11	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:66615210C>A	uc010ujm.1	+	10	1527	c.1512C>A	c.(1510-1512)CAC>CAA	p.H504Q	DIS3L_uc010ujl.1_Missense_Mutation_p.H134Q|DIS3L_uc002app.2_Missense_Mutation_p.H421Q|DIS3L_uc002apq.2_Missense_Mutation_p.H504Q|DIS3L_uc010bho.2_Missense_Mutation_p.H370Q	NM_001143688	NP_001137160	Q8TF46	DI3L1_HUMAN	DIS3 mitotic control homolog (S.	504					rRNA catabolic process	cytoplasm|exosome (RNase complex)	exonuclease activity|protein binding|ribonuclease activity|RNA binding			ovary(2)	2						TTGGGGTCCACATCGCAGATG	0.418													18	34	---	---	---	---	PASS	A	66615210	A	A	66615210	3	1	43	1	0	0	0	0	1	0	0	0	4536	477	17	3	1550	3	DIS3L	15	66615210	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	566467	66615210	35916182	317	16938										
BBS4	585	broad.mit.edu	37	chr15	73023961	73023961	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tggaagattctgtataatttGggccttgtccatttgaccat	9	7	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:73023961G>T	uc002avb.2	+	12	973	c.930G>T	c.(928-930)TTG>TTT	p.L310F	BBS4_uc010ukv.1_Missense_Mutation_p.L298F|BBS4_uc002avc.2_Missense_Mutation_p.L138F|BBS4_uc002avd.2_Missense_Mutation_p.L318F|BBS4_uc010bja.2_Missense_Mutation_p.L66F	NM_033028	NP_149017	Q96RK4	BBS4_HUMAN	Bardet-Biedl syndrome 4	310	Interaction with PCM1.|TPR 8.				adult behavior|brain morphogenesis|cell cycle cytokinesis|centrosome organization|cerebral cortex development|convergent extension involved in gastrulation|dendrite development|fat cell differentiation|heart looping|hippocampus development|intracellular transport|maintenance of protein location in nucleus|melanosome transport|microtubule anchoring at centrosome|neural tube closure|nonmotile primary cilium assembly|photoreceptor cell maintenance|pigment granule aggregation in cell center|positive regulation of flagellum assembly|regulation of cilium beat frequency involved in ciliary motility|regulation of cytokinesis|regulation of lipid metabolic process|retina homeostasis|retinal rod cell development|sensory perception of smell|sensory processing|spermatid development|striatum development	BBSome|centriolar satellite|centriole|cilium membrane|microtubule basal body|motile cilium|nonmotile primary cilium|nucleus|pericentriolar material	alpha-tubulin binding|beta-tubulin binding|dynactin binding|microtubule motor activity				0						TGTATAATTTGGGCCTTGTCC	0.488									Bardet-Biedl_syndrome				38	58	---	---	---	---	PASS	T	73023961	T	T	73023961	3	4	43	1	0	0	0	0	1	0	0	0	1339	1339	47	3	976	3	BBS4	15	73023961	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	6408751	73023961	29507431	318	16939										
SIN3A	25942	broad.mit.edu	37	chr15	75702220	75702220	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	taggatgtctgcggatctggCagccattctggctgggcctc	14	11	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:75702220C>A	uc002bai.2	-	8	1533	c.1274G>T	c.(1273-1275)TGC>TTC	p.C425F	SIN3A_uc002baj.2_Missense_Mutation_p.C425F|SIN3A_uc010uml.1_Missense_Mutation_p.C425F	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	425	Interaction with REST (By similarity).				blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						GCGGATCTGGCAGCCATTCTG	0.507													6	103	---	---	---	---	PASS	A	75702220	A	A	75702220	3	1	43	1	0	0	0	0	1	0	0	0	14325	710	25	3	2603	3	SIN3A	15	75702220	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2678259	75702220	26829172	319	16940										
CSPG4	1464	broad.mit.edu	37	chr15	75982089	75982089	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caggctgtgcccccctcggcCaccaccagtgggctgatagt	12	16	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:75982089C>A	uc002baw.2	-	3	1410	c.1317G>T	c.(1315-1317)GTG>GTT	p.V439V		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	439	Extracellular (Potential).|CSPG 1.|Globular or compact configuration stabilized by disulfide bonds.|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						CCCCCTCGGCCACCACCAGTG	0.637													10	36	---	---	---	---	PASS	A	75982089	A	A	75982089	2	1	43	1	0	0	0	0	0	0	0	1	3960	581	21	3		3	CSPG4	15	75982089	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	279869	75982089	26549303	320	16941										
SLC28A1	9154	broad.mit.edu	37	chr15	85486718	85486718	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cgtttgccctctgtggatttGccaatttcagctccattggg	10	11	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:85486718G>T	uc002blg.2	+	16	1826	c.1624G>T	c.(1624-1626)GCC>TCC	p.A542S	SLC28A1_uc010bnb.2_Missense_Mutation_p.A542S|SLC28A1_uc010upe.1_Missense_Mutation_p.A376S|SLC28A1_uc010upf.1_Missense_Mutation_p.A542S|SLC28A1_uc010upg.1_Intron	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	542	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CTGTGGATTTGCCAATTTCAG	0.552													6	37	---	---	---	---	PASS	T	85486718	T	T	85486718	3	4	43	1	0	0	0	0	1	0	0	0	14531	1319	46	3	1749	3	SLC28A1	15	85486718	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	9504629	85486718	17044674	321	16942										
NTRK3	4916	broad.mit.edu	37	chr15	88678528	88678528	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cgcagaggctgcccattgtgCagccagtgcagcgttggtgg	16	11	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:88678528C>T	uc002bme.1	-	9	1170	c.1008G>A	c.(1006-1008)CTG>CTA	p.L336L	NTRK3_uc002bmh.2_Silent_p.L336L|NTRK3_uc002bmf.1_Silent_p.L336L|NTRK3_uc010upl.1_Silent_p.L238L|NTRK3_uc010bnh.1_Silent_p.L336L|NTRK3_uc002bmg.2_Silent_p.L336L	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	336	Ig-like C2-type 2.|Extracellular (Potential).		L -> Q (in a lung adenocarcinoma sample; somatic mutation).		transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity	p.L336Q(2)	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)			GCCCATTGTGCAGCCAGTGCA	0.607			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			13	45	---	---	---	---	PASS	T	88678528	T	T	88678528	2	4	43	1	0	0	0	0	0	0	0	1	10708	697	25	3		3	NTRK3	15	88678528	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	3191810	88678528	13852864	322	16943										
DET1	55070	broad.mit.edu	37	chr15	89074248	89074248	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gttgttgcacagacaagatgGccaggatgtttttgtacaag	12	6	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:89074248G>A	uc002bmr.2	-	2	841	c.689C>T	c.(688-690)GCC>GTC	p.A230V	DET1_uc002bmp.3_RNA|DET1_uc010bnk.2_RNA|DET1_uc002bmq.2_Missense_Mutation_p.A241V	NM_001144074	NP_001137546	Q7L5Y6	DET1_HUMAN	de-etiolated 1 isoform 2	230						nucleus				lung(1)|pancreas(1)	2	Lung NSC(78;0.105)|all_lung(78;0.182)		BRCA - Breast invasive adenocarcinoma(143;0.188)			AGACAAGATGGCCAGGATGTT	0.498													12	24	---	---	---	---	PASS	A	89074248	A	A	89074248	3	1	43	1	0	0	0	0	1	0	0	0	4450	1203	42	3	979	3	DET1	15	89074248	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	395720	89074248	13457144	323	16944										
ACAN	176	broad.mit.edu	37	chr15	89401694	89401694	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggcaggagaagggccttctGgcattttagaactcagtggt	14	7	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:89401694G>T	uc010upo.1	+	12	6252	c.5878G>T	c.(5878-5880)GGC>TGC	p.G1960C	ACAN_uc010upp.1_Missense_Mutation_p.G1960C|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	1960					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			AGGGCCTTCTGGCATTTTAGA	0.517													5	49	---	---	---	---	PASS	T	89401694	T	T	89401694	3	4	43	1	0	0	0	0	1	0	0	0	117	1348	47	3	5920	3	ACAN	15	89401694	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	327446	89401694	13129698	324	16945										
PRC1	9055	broad.mit.edu	37	chr15	91524153	91524153	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tttgacccagacataatggtGgccacagcttctctttcttc	7	12	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:91524153G>T	uc002bqm.2	-	6	940	c.783C>A	c.(781-783)GCC>GCA	p.A261A	PRC1_uc002bqn.2_Silent_p.A261A|PRC1_uc002bqo.2_Silent_p.A261A|PRC1_uc010uqs.1_Silent_p.A220A	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	261	Potential.|Dimerization.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					ACATAATGGTGGCCACAGCTT	0.488													18	54	---	---	---	---	PASS	T	91524153	T	T	91524153	2	4	43	1	0	0	0	0	0	0	0	1	12446	1335	47	3		3	PRC1	15	91524153	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	2122459	91524153	11007239	325	16946										
LRRK1	79705	broad.mit.edu	37	chr15	101597159	101597159	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cagattgccaagaagctgtcCaagggcatccgcccggttct	11	13	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:101597159C>A	uc002bwr.2	+	28	4750	c.4431C>A	c.(4429-4431)TCC>TCA	p.S1477S	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bws.2_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	1477	Protein kinase.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			AGAAGCTGTCCAAGGGCATCC	0.592													27	57	---	---	---	---	PASS	A	101597159	A	A	101597159	2	1	43	1	0	0	0	0	0	0	0	1	9032	581	21	3		3	LRRK1	15	101597159	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	10073006	101597159	934233	326	16947										
TARSL2	123283	broad.mit.edu	37	chr15	102255120	102255120	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgggcggtccaggtcccacaGttcaccattgactttggcta	11	12	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr15:102255120G>A	uc002bxm.2	-	4	668	c.613C>T	c.(613-615)CTG>TTG	p.L205L	TARSL2_uc010usi.1_RNA	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2	205					threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			AGGTCCCACAGTTCACCATTG	0.443													29	62	---	---	---	---	PASS	A	102255120	A	A	102255120	2	1	43	1	0	0	0	0	0	0	0	1	15558	1020	36	3		3	TARSL2	15	102255120	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	657961	102255120	276272	327	16948										
WDR90	197335	broad.mit.edu	37	chr16	703577	703577	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	actattggcctcggcccaggCaagggcccctagtgtgatgc	13	13	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:703577C>A	uc002cii.1	+	12	1340	c.1286C>A	c.(1285-1287)GCA>GAA	p.A429E	WDR90_uc002cig.1_Missense_Mutation_p.A429E|WDR90_uc002cih.1_Missense_Mutation_p.A430E|WDR90_uc002cij.1_RNA|WDR90_uc002cik.1_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	429	WD 1.									ovary(1)	1		Hepatocellular(780;0.0218)				TCGGCCCAGGCAAGGGCCCCT	0.647													25	51	---	---	---	---	PASS	A	703577	A	A	703577	3	1	43	1	0	0	0	0	1	0	0	0	17334	710	25	3	1332	3	WDR90	16	703577	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08		703577	89651176	328	16949										
FBXL16	146330	broad.mit.edu	37	chr16	745747	745747	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcctgcaggctcagctccgcCaggttgggcagcagctgcga	15	14	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:745747C>A	uc002cjc.2	-	4	1013	c.810G>T	c.(808-810)CTG>CTT	p.L270L	FBXL16_uc002cja.2_5'Flank|FBXL16_uc002cjb.2_Silent_p.L58L	NM_153350	NP_699181	Q8N461	FXL16_HUMAN	F-box and leucine-rich repeat protein 16	270	LRR 2.										0		Hepatocellular(780;0.0218)				TCAGCTCCGCCAGGTTGGGCA	0.692													8	17	---	---	---	---	PASS	A	745747	A	A	745747	2	1	43	1	0	0	0	0	0	0	0	1	5712	581	21	3		3	FBXL16	16	745747	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	42170	745747	89609006	329	16950										
FBXL16	146330	broad.mit.edu	37	chr16	747007	747007	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	accggcgtgaggcctgcccaGaacttgggctggtacagcac	14	13	0	2	rs11555893		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:747007G>T	uc002cjc.2	-	3	602	c.399C>A	c.(397-399)TTC>TTA	p.F133L	FBXL16_uc002cja.2_5'Flank|FBXL16_uc002cjb.2_5'Flank	NM_153350	NP_699181	Q8N461	FXL16_HUMAN	F-box and leucine-rich repeat protein 16	133	F-box.										0		Hepatocellular(780;0.0218)				GGCCTGCCCAGAACTTGGGCT	0.617													11	20	---	---	---	---	PASS	T	747007	T	T	747007	3	4	43	1	0	0	0	0	1	0	0	0	5712	933	33	2	1060	2	FBXL16	16	747007	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1260	747007	89607746	330	16951										
CCDC78	124093	broad.mit.edu	37	chr16	775523	775523	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cactgggactgcacagccctGgctggtgccatctcctcgca	11	16	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:775523G>T	uc002cjg.2	-	4	431	c.325C>A	c.(325-327)CAG>AAG	p.Q109K	CCDC78_uc002cjf.2_5'Flank|CCDC78_uc002cji.3_Missense_Mutation_p.Q183K|CCDC78_uc002cjj.3_Intron|CCDC78_uc002cjh.2_5'UTR|CCDC78_uc010uuo.1_Missense_Mutation_p.Q109K|CCDC78_uc002cjk.2_Missense_Mutation_p.Q109K|HAGHL_uc002cjl.1_5'Flank|HAGHL_uc002cjm.1_5'Flank|HAGHL_uc002cjn.1_5'Flank|HAGHL_uc002cjo.1_5'Flank|HAGHL_uc010uup.1_5'Flank	NM_001031737	NP_001026907	A2IDD5	CCD78_HUMAN	coiled-coil domain containing 78	109										central_nervous_system(1)	1		Hepatocellular(780;0.0218)				GCACAGCCCTGGCTGGTGCCA	0.652													14	27	---	---	---	---	PASS	T	775523	T	T	775523	3	4	43	1	0	0	0	0	1	0	0	0	2852	1357	47	3	1035	3	CCDC78	16	775523	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	28516	775523	89579230	331	16952										
SOX8	30812	broad.mit.edu	37	chr16	1034912	1034912	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cacgagttcgaccagtacctGcccctgggcggccccgcccc	11	20	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:1034912G>T	uc002ckn.2	+	3	982	c.867G>T	c.(865-867)CTG>CTT	p.L289L		NM_014587	NP_055402	P57073	SOX8_HUMAN	SRY (sex determining region Y)-box 8	289					adipose tissue development|enteric nervous system development|fat cell differentiation|in utero embryonic development|metanephric nephron tubule formation|morphogenesis of a branching epithelium|negative regulation of apoptosis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|neural crest cell migration|oligodendrocyte differentiation|osteoblast differentiation|peripheral nervous system development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of gliogenesis|positive regulation of osteoblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone levels|renal vesicle induction|retinal rod cell differentiation|Sertoli cell development|signal transduction|spermatogenesis|ureter morphogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2		Hepatocellular(780;0.00308)				ACCAGTACCTGCCCCTGGGCG	0.687													4	11	---	---	---	---	PASS	T	1034912	T	T	1034912	2	4	43	1	0	0	0	0	0	0	0	1	14957	1306	46	3		3	SOX8	16	1034912	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	259389	1034912	89319841	332	16953										
CACNA1H	8912	broad.mit.edu	37	chr16	1250467	1250467	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctgcacgcaacgcctgcatcAactggaaccagtactacaac	7	15	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:1250467A>C	uc002cks.2	+	7	1263	c.1015A>C	c.(1015-1017)AAC>CAC	p.N339H	CACNA1H_uc002ckt.2_Missense_Mutation_p.N339H	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	339	Extracellular (Potential).|I.				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	CGCCTGCATCAACTGGAACCA	0.662													5	20	---	---	---	---	PASS	C	1250467	C	C	1250467	3	2	43	1	0	0	0	0	1	0	0	0	2545	130	5	5	1037	5	CACNA1H	16	1250467	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	215555	1250467	89104286	333	16954										
TELO2	9894	broad.mit.edu	37	chr16	1545603	1545603	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggtcgtccgggtgctgcagGcggttgtggactctctccaa	15	11	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:1545603G>A	uc002cly.2	+	3	883	c.592G>A	c.(592-594)GCG>ACG	p.A198T	TELO2_uc010uvg.1_Missense_Mutation_p.A198T	NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	198						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				GGTGCTGCAGGCGGTTGTGGA	0.662													20	36	---	---	---	---	PASS	A	1545603	A	A	1545603	3	1	43	1	0	0	0	0	1	0	0	0	15754	1203	42	3	598	3	TELO2	16	1545603	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	295136	1545603	88809150	334	16955										
ABCA3	21	broad.mit.edu	37	chr16	2331439	2331439	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agggagtccggactgggggcCaggatgcgggtcctctcgtc	18	11	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:2331439C>A	uc002cpy.1	-	27	4819	c.4107G>T	c.(4105-4107)CTG>CTT	p.L1369L	ABCA3_uc010bsk.1_Silent_p.L1311L	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1369					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				GACTGGGGGCCAGGATGCGGG	0.567													5	45	---	---	---	---	PASS	A	2331439	A	A	2331439	2	1	43	1	0	0	0	0	0	0	0	1	33	581	21	3		3	ABCA3	16	2331439	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	785836	2331439	88023314	335	16956										
AMDHD2	51005	broad.mit.edu	37	chr16	2580743	2580743	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cagggaagaaccacctgcctGggcagggcctcgcctgaggg	16	13	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:2580743G>T	uc010uwc.1	+	11	1865	c.1768G>T	c.(1768-1770)GGG>TGG	p.G590W	AMDHD2_uc010uwd.1_Missense_Mutation_p.G354W|CEMP1_uc002cqr.2_Missense_Mutation_p.P111Q	NM_001145815	NP_001139287	Q9Y303	NAGA_HUMAN	amidohydrolase domain containing 2 isoform 2	Error:Variant_position_missing_in_Q9Y303_after_alignment					N-acetylglucosamine metabolic process		N-acetylglucosamine-6-phosphate deacetylase activity			skin(2)|large_intestine(1)|breast(1)	4						CCACCTGCCTGGGCAGGGCCT	0.627													12	16	---	---	---	---	PASS	T	2580743	T	T	2580743	3	4	43	1	0	0	0	0	1	0	0	0	568	1348	47	3	1848	3	AMDHD2	16	2580743	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	249304	2580743	87774010	336	16957										
PRSS22	64063	broad.mit.edu	37	chr16	2905791	2905791	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caccttctgggaccgagagcCagggttccccagctgccagg	13	15	1	1	rs146582104		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:2905791C>A	uc002cry.1	-	4	409	c.343G>T	c.(343-345)GGC>TGC	p.G115C	PRSS22_uc002crz.1_Intron	NM_022119	NP_071402	Q9GZN4	BSSP4_HUMAN	protease, serine, 22 precursor	115	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			central_nervous_system(1)	1						GACCGAGAGCCAGGGTTCCCC	0.612													4	17	---	---	---	---	PASS	A	2905791	A	A	2905791	3	1	43	1	0	0	0	0	1	0	0	0	12619	594	21	3	622	3	PRSS22	16	2905791	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	325048	2905791	87448962	337	16958										
BTBD12	84464	broad.mit.edu	37	chr16	3640826	3640826	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caggggcctctgctccccgtGcccctgagtgctggccctgg	14	17	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:3640826G>T	uc002cvp.2	-	12	3440	c.2813C>A	c.(2812-2814)GCA>GAA	p.A938E		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	938	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TGCTCCCCGTGCCCCTGAGTG	0.662								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				22	69	---	---	---	---	PASS	T	3640826	T	T	3640826	3	4	43	1	0	0	0	0	1	0	0	0	1540	1319	46	3	2707	3	BTBD12	16	3640826	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	735035	3640826	86713927	338	16959										
CLEC16A	23274	broad.mit.edu	37	chr16	11066808	11066808	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttctcagtggataaccaggcCatgctgcactacatccgaga	9	12	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:11066808C>A	uc002dao.2	+	7	848	c.618C>A	c.(616-618)GCC>GCA	p.A206A	CLEC16A_uc002dan.3_Silent_p.A204A	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	206										ovary(1)|central_nervous_system(1)	2						ATAACCAGGCCATGCTGCACT	0.393													6	15	---	---	---	---	PASS	A	11066808	A	A	11066808	2	1	43	1	0	0	0	0	0	0	0	1	3500	581	21	3		3	CLEC16A	16	11066808	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	7425982	11066808	79287945	339	16960										
RUNDC2A	84127	broad.mit.edu	37	chr16	12146003	12146003	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aaagcatcgatgatgaagatGtggatgaaaacgaagatgac	12	4	0	6			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:12146003G>T	uc002dbw.1	+	8	1110	c.1048G>T	c.(1048-1050)GTG>TTG	p.V350L	SNX29_uc002dby.3_5'Flank	NM_032167	NP_115543	Q9HA26	RUN2A_HUMAN	RUN domain containing 2A	350										ovary(1)	1						TGATGAAGATGTGGATGAAAA	0.448			T	CIITA	PMBL|Hodgkin Lymphona|								15	59	---	---	---	---	PASS	T	12146003	T	T	12146003	3	4	43	1	0	0	0	0	1	0	0	0	13743	1377	48	3	1078	3	RUNDC2A	16	12146003	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1079195	12146003	78208750	340	16961										
OTOA	146183	broad.mit.edu	37	chr16	21728314	21728314	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tctctctttgatttaaggagGcaacctggattcaactctac	7	10	4	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:21728314G>T	uc002djh.2	+	14	1576	c.1575G>T	c.(1573-1575)AGG>AGT	p.R525S	uc002diq.3_Intron|OTOA_uc010vbj.1_Missense_Mutation_p.R446S|OTOA_uc002dji.2_Missense_Mutation_p.R201S|OTOA_uc010vbk.1_Missense_Mutation_p.R173S	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	539					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		ATTTAAGGAGGCAACCTGGAT	0.473													30	72	---	---	---	---	PASS	T	21728314	T	T	21728314	3	4	43	1	0	0	0	0	1	0	0	0	11302	1194	42	3	1675	3	OTOA	16	21728314	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	9582311	21728314	68626439	341	16962										
ERN2	10595	broad.mit.edu	37	chr16	23716314	23716314	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aaatgcagagtgtctcgagcCagcgtgagatgcggcagctg	15	9	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:23716314C>A	uc002dma.3	-	8	1057	c.888G>T	c.(886-888)CTG>CTT	p.L296L	ERN2_uc010bxp.2_Silent_p.L296L|ERN2_uc010bxq.1_Silent_p.L104L	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	248	Lumenal (Potential).				apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		TGTCTCGAGCCAGCGTGAGAT	0.667													19	34	---	---	---	---	PASS	A	23716314	A	A	23716314	2	1	43	1	0	0	0	0	0	0	0	1	5238	581	21	3		3	ERN2	16	23716314	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	1988000	23716314	66638439	342	16963										
SULT1A2	6799	broad.mit.edu	37	chr16	28604827	28604827	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gggtgagggtacactttggcCatgtggtagaagtggtagta	17	4	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:28604827C>A	uc002dqg.1	-	5	786	c.435G>T	c.(433-435)ATG>ATT	p.M145I	uc010vct.1_Intron|SULT1A2_uc002dqh.1_Missense_Mutation_p.M145I	NM_177528	NP_803564	P50226	ST1A2_HUMAN	sulfotransferase family, cytosolic, 1A,	145					3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine biosynthetic process|catecholamine metabolic process|steroid metabolic process|sulfation|xenobiotic metabolic process	cytosol	aryl sulfotransferase activity|flavonol 3-sulfotransferase activity				0						ACACTTTGGCCATGTGGTAGA	0.557													15	20	---	---	---	---	PASS	A	28604827	A	A	28604827	3	1	43	1	0	0	0	0	1	0	0	0	15372	594	21	3	468	3	SULT1A2	16	28604827	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	4888513	28604827	61749926	343	16964										
NFATC2IP	84901	broad.mit.edu	37	chr16	28965898	28965898	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcccccagaggcagagctggCagattcgagtggtctctacc	13	13	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:28965898C>A	uc002dru.2	+	3	488	c.473C>A	c.(472-474)GCA>GAA	p.A158E	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Intron	NM_032815	NP_116204	Q8NCF5	NF2IP_HUMAN	nuclear factor of activated T-cells,	158						cytoplasm|nucleus				ovary(1)	1						GCAGAGCTGGCAGATTCGAGT	0.527													44	115	---	---	---	---	PASS	A	28965898	A	A	28965898	3	1	43	1	0	0	0	0	1	0	0	0	10363	710	25	3	483	3	NFATC2IP	16	28965898	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	361071	28965898	61388855	344	16965										
FAM57B	83723	broad.mit.edu	37	chr16	30038080	30038080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgccctttgacctggtgcttGtgccagtgacagaggaacat	12	10	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:30038080G>T	uc002dvt.2	-	3	632	c.294C>A	c.(292-294)CAC>CAA	p.H98Q	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|FAM57B_uc002dvu.2_Missense_Mutation_p.H48Q	NM_031478	NP_113666	Q71RH2	FA57B_HUMAN	hypothetical protein LOC83723	98	TLC.					endoplasmic reticulum|integral to membrane					0						CCTGGTGCTTGTGCCAGTGAC	0.597													6	26	---	---	---	---	PASS	T	30038080	T	T	30038080	3	4	43	1	0	0	0	0	1	0	0	0	5589	1368	48	3	542	3	FAM57B	16	30038080	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1072182	30038080	60316673	345	16966										
GDPD3	79153	broad.mit.edu	37	chr16	30123997	30123997	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	acctcgaagtccaggctgccCacatccctgtttaggcccga	9	16	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:30123997C>A	uc002dwp.2	-	3	379	c.300G>T	c.(298-300)GTG>GTT	p.V100V	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|GDPD3_uc002dwq.2_Silent_p.V38V|LOC100271831_uc010vei.1_5'Flank	NM_024307	NP_077283	Q7L5L3	GDPD3_HUMAN	glycerophosphodiester phosphodiesterase domain	100	Extracellular (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0						CCAGGCTGCCCACATCCCTGT	0.627											OREG0023731	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	32	---	---	---	---	PASS	A	30123997	A	A	30123997	2	1	43	1	0	0	0	0	0	0	0	1	6325	581	21	3		3	GDPD3	16	30123997	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	85917	30123997	60230756	346	16967										
CD2BP2	10421	broad.mit.edu	37	chr16	30364605	30364605	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gaccatctccccgcgactctGcttctaaaataacaggcaaa	6	14	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:30364605G>T	uc002dxr.2	-	5	1065	c.812C>A	c.(811-813)GCA>GAA	p.A271E	CD2BP2_uc002dxs.2_Missense_Mutation_p.A271E	NM_006110	NP_006101	O95400	CD2B2_HUMAN	CD2 antigen (cytoplasmic tail) binding protein	271					assembly of spliceosomal tri-snRNP	cytoplasm|nucleoplasm|U5 snRNP	protein binding|ribonucleoprotein binding			ovary(1)	1						CCGCGACTCTGCTTCTAAAAT	0.572													11	45	---	---	---	---	PASS	T	30364605	T	T	30364605	3	4	43	1	0	0	0	0	1	0	0	0	2995	1319	46	3	221	3	CD2BP2	16	30364605	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	240608	30364605	59990148	347	16968										
SEPT1	1731	broad.mit.edu	37	chr16	30389812	30389812	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgctgcatttgggcctgcatCttctccagcatctcttgcat	8	13	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:30389812C>T	uc002dxy.2	-	12	1234	c.1047G>A	c.(1045-1047)AAG>AAA	p.K349K	SEPT1_uc002dxw.2_RNA|SEPT1_uc002dxx.2_Silent_p.K174K	NM_052838	NP_443070	Q8WYJ6	SEPT1_HUMAN	septin 1	349					cell cycle|cell division	microtubule organizing center|septin complex	GTP binding|protein binding			ovary(1)	1			Colorectal(24;0.193)			GGGCCTGCATCTTCTCCAGCA	0.687													3	11	---	---	---	---	PASS	T	30389812	T	T	30389812	2	4	43	1	0	0	0	0	0	0	0	1	14059	912	32	2		2	SEPT1	16	30389812	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	25207	30389812	59964941	348	16969										
PDP2	57546	broad.mit.edu	37	chr16	66918303	66918303	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aaataggaataaattaaaatGgaggctcttttcccgggtgc	10	6	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:66918303G>T	uc002eqk.1	+	2	278	c.116G>T	c.(115-117)TGG>TTG	p.W39L		NM_020786	NP_065837	Q9P2J9	PDP2_HUMAN	pyruvate dehydrogenase phosphatase isoenzyme 2	39					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity|metal ion binding			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		AAATTAAAATGGAGGCTCTTT	0.453													34	77	---	---	---	---	PASS	T	66918303	T	T	66918303	3	4	43	1	0	0	0	0	1	0	0	0	11686	1357	47	3	118	3	PDP2	16	66918303	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	36528491	66918303	23436450	349	16970										
LRRC29	26231	broad.mit.edu	37	chr16	67241850	67241850	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gagctggctgcctgggcccaGcccttgtcactgagtcggct	14	14	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:67241850G>T	uc002esd.2	-	3	1326	c.429C>A	c.(427-429)GGC>GGA	p.G143G	LRRC29_uc002ese.2_Silent_p.G143G|LRRC29_uc002esf.2_Silent_p.G143G|LRRC29_uc002esg.2_Silent_p.G143G	NM_012163	NP_036295	Q8WV35	LRC29_HUMAN	F-box and leucine-rich repeat protein 9	143	F-box.|LRR 5.										0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		CCTGGGCCCAGCCCTTGTCAC	0.607													20	21	---	---	---	---	PASS	T	67241850	T	T	67241850	2	4	43	1	0	0	0	0	0	0	0	1	8983	958	34	3		3	LRRC29	16	67241850	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	323547	67241850	23112903	350	16971										
GFOD2	81577	broad.mit.edu	37	chr16	67709359	67709359	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caggcagtcctgcgcccactGccagcgagtccctcaagagc	11	17	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:67709359G>T	uc002eub.2	-	3	1152	c.857C>A	c.(856-858)GCA>GAA	p.A286E	GFOD2_uc002eua.1_RNA|GFOD2_uc002euc.2_Missense_Mutation_p.A181E	NM_030819	NP_110446	Q3B7J2	GFOD2_HUMAN	glucose-fructose oxidoreductase domain	286						proteinaceous extracellular matrix	binding|oxidoreductase activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0151)|Epithelial(162;0.0505)|all cancers(182;0.242)		TGCGCCCACTGCCAGCGAGTC	0.652													8	30	---	---	---	---	PASS	T	67709359	T	T	67709359	3	4	43	1	0	0	0	0	1	0	0	0	6344	1319	46	3	304	3	GFOD2	16	67709359	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	467509	67709359	22645394	351	16972										
RANBP10	57610	broad.mit.edu	37	chr16	67760357	67760357	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caagtagtcatcaactctggCaaaggagcaagaacccaggc	10	11	3	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:67760357C>A	uc002eud.2	-	14	1953	c.1837G>T	c.(1837-1839)GCC>TCC	p.A613S	RANBP10_uc010ceo.2_Missense_Mutation_p.A384S|RANBP10_uc010vju.1_Missense_Mutation_p.A587S|RANBP10_uc010vjv.1_Missense_Mutation_p.A526S	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	613										ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		TCAACTCTGGCAAAGGAGCAA	0.637													4	10	---	---	---	---	PASS	A	67760357	A	A	67760357	3	1	43	1	0	0	0	0	1	0	0	0	13026	710	25	3	29	3	RANBP10	16	67760357	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	50998	67760357	22594396	352	16973										
EDC4	23644	broad.mit.edu	37	chr16	67917564	67917564	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agccaccctgcccgctctccCagcctgtgctcctttccctc	6	22	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:67917564C>T	uc002eur.2	+	28	4109	c.3943C>T	c.(3943-3945)CAG>TAG	p.Q1315*	EDC4_uc010cer.2_Nonsense_Mutation_p.Q934*|EDC4_uc002eus.2_Nonsense_Mutation_p.Q1045*|EDC4_uc002eut.1_3'UTR|NRN1L_uc002euu.2_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	1315					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		CCCGCTCTCCCAGCCTGTGCT	0.602											OREG0023890	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	58	120	---	---	---	---	PASS	T	67917564	T	T	67917564	4	4	43	1	0	0	0	0	0	1	0	0	4908	595	21	3	4053	3	EDC4	16	67917564	Nonsense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	157207	67917564	22437189	353	16974										
ZNF821	55565	broad.mit.edu	37	chr16	71898838	71898838	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cacttcgttcccaccaacagGctgttctgtattttctaact	5	13	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:71898838G>C	uc010vmj.1	-	4	656	c.280C>G	c.(280-282)CCT>GCT	p.P94A	ATXN1L_uc010vmi.1_Intron|ZNF821_uc002fbe.2_5'UTR|ZNF821_uc002fbf.2_Missense_Mutation_p.P52A|ZNF821_uc002fbg.3_Intron|ZNF821_uc002fbh.3_Missense_Mutation_p.P52A|ZNF821_uc002fbi.3_5'UTR	NM_017530	NP_060000	O75541	ZN821_HUMAN	zinc finger protein 821	94					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCACCAACAGGCTGTTCTGTA	0.532													5	100	---	---	---	---	PASS	C	71898838	C	C	71898838	3	2	43	1	0	0	0	0	1	0	0	0	18175	1203	42	4	974	4	ZNF821	16	71898838	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	3981274	71898838	18455915	354	16975										
ZFHX3	463	broad.mit.edu	37	chr16	72832356	72832356	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cttttcaatggtcttgaaggCcaggctacactgattacagc	9	10	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:72832356C>A	uc002fck.2	-	9	4898	c.4225G>T	c.(4225-4227)GCC>TCC	p.A1409S	ZFHX3_uc002fcl.2_Missense_Mutation_p.A495S	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1409	C2H2-type 13.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GTCTTGAAGGCCAGGCTACAC	0.502													15	49	---	---	---	---	PASS	A	72832356	A	A	72832356	3	1	43	1	0	0	0	0	1	0	0	0	17631	739	26	3	6894	3	ZFHX3	16	72832356	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	933518	72832356	17522397	355	16976										
WDR59	79726	broad.mit.edu	37	chr16	74937894	74937894	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agacctgctctttctcgctgCgagtggggctcccactgtat	11	13	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:74937894C>A	uc002fdh.1	-	18	1919	c.1817G>T	c.(1816-1818)CGC>CTC	p.R606L	WDR59_uc002fdf.1_Missense_Mutation_p.R51L|WDR59_uc002fdg.1_Missense_Mutation_p.R198L	NM_030581	NP_085058	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	606										ovary(1)|breast(1)	2						TTTCTCGCTGCGAGTGGGGCT	0.547													4	13	---	---	---	---	PASS	A	74937894	A	A	74937894	3	1	43	1	0	0	0	0	1	0	0	0	17305	768	27	1	1143	1	WDR59	16	74937894	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2105538	74937894	15416859	356	16977										
CENPN	55839	broad.mit.edu	37	chr16	81045548	81045548	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtaaaagtgccaaagagatgGatgagactgttgctgagttc	13	5	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:81045548G>A	uc002ffx.2	+	2	794	c.4G>A	c.(4-6)GAT>AAT	p.D2N	CENPN_uc002ffw.3_Missense_Mutation_p.D2N|CENPN_uc010vnl.1_Missense_Mutation_p.D2N|CENPN_uc010vnm.1_Missense_Mutation_p.D2N|CENPN_uc002ffy.3_Missense_Mutation_p.D2N	NM_001100624	NP_001094094	Q96H22	CENPN_HUMAN	centromere protein N isoform 2	2					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm					0						CAAAGAGATGGATGAGACTGT	0.358													18	29	---	---	---	---	PASS	A	81045548	A	A	81045548	3	1	43	1	0	0	0	0	1	0	0	0	3238	1174	41	2	6	2	CENPN	16	81045548	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	6107654	81045548	9309205	357	16978										
SDR42E1	93517	broad.mit.edu	37	chr16	82033639	82033639	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtttcgattgagttgctcccGccctgacataccataagagg	10	11	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr16:82033639G>T	uc002fgu.2	-	3	387	c.259C>A	c.(259-261)CGG>AGG	p.R87R		NM_145168	NP_660151	Q8WUS8	D42E1_HUMAN	short chain dehydrogenase/reductase family 42E,	87					steroid biosynthetic process	integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding				0						AGTTGCTCCCGCCCTGACATA	0.498													24	49	---	---	---	---	PASS	T	82033639	T	T	82033639	2	4	43	1	0	0	0	0	0	0	0	1	13973	1086	38	1		1	SDR42E1	16	82033639	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	988091	82033639	8321114	358	16979										
YWHAE	7531	broad.mit.edu	37	chr17	1303366	1303366	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tatcgctcagcctgctcggcCagcttcgcctggtacaccag	10	16	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:1303366C>A	uc002fsj.2	-	1	191	c.39G>T	c.(37-39)CTG>CTT	p.L13L	YWHAE_uc002fsk.2_5'UTR|YWHAE_uc010vqh.1_RNA|YWHAE_uc010vqi.1_RNA	NM_006761	NP_006752	P62258	1433E_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	13					apoptosis|G2/M transition of mitotic cell cycle|induction of apoptosis by extracellular signals|interspecies interaction between organisms|intracellular signal transduction|nerve growth factor receptor signaling pathway	cytosol|melanosome	histone deacetylase binding|phosphoserine binding			lung(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(18;0.203)	UCEC - Uterine corpus endometrioid carcinoma (25;0.0887)		CCTGCTCGGCCAGCTTCGCCT	0.657													19	18	---	---	---	---	PASS	A	1303366	A	A	1303366	2	1	43	1	0	0	0	0	0	0	0	1	17499	581	21	3		3	YWHAE	17	1303366	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08		1303366	79891844	359	16980										
PRPF8	10594	broad.mit.edu	37	chr17	1577070	1577070	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	catgtttcatgaggcgcatgCgggcatctcggggccagcac	14	12	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:1577070C>A	uc002fte.2	-	22	3530	c.3416G>T	c.(3415-3417)CGC>CTC	p.R1139L		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	1139						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		GAGGCGCATGCGGGCATCTCG	0.517													12	56	---	---	---	---	PASS	A	1577070	A	A	1577070	3	1	43	1	0	0	0	0	1	0	0	0	12575	768	27	1	3679	1	PRPF8	17	1577070	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	273704	1577070	79618140	360	16981										
DNAH2	146754	broad.mit.edu	37	chr17	7727540	7727540	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctggcagagcacatgggcatGgcccagcgcttccacgccct	12	16	0	1	rs147571735	byFrequency	TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:7727540G>T	uc002giu.1	+	75	11594	c.11580G>T	c.(11578-11580)ATG>ATT	p.M3860I	DNAH2_uc010cnm.1_Missense_Mutation_p.M798I	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3860	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				ACATGGGCATGGCCCAGCGCT	0.657													23	12	---	---	---	---	PASS	T	7727540	T	T	7727540	3	4	43	1	0	0	0	0	1	0	0	0	4602	1348	47	3	11878	3	DNAH2	17	7727540	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	6150470	7727540	73467670	361	16982										
MFSD6L	162387	broad.mit.edu	37	chr17	8701217	8701217	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttcccccagcaagctgagggCgaccgagaaacccatgacca	10	15	0	3	rs143056359	byFrequency	TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:8701217C>T	uc002glp.1	-	1	1370	c.1222G>A	c.(1222-1224)GCC>ACC	p.A408T		NM_152599	NP_689812	Q8IWD5	MFS6L_HUMAN	major facilitator superfamily domain containing	408	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						AAGCTGAGGGCGACCGAGAAA	0.562													23	68	---	---	---	---	PASS	T	8701217	T	T	8701217	3	4	43	1	0	0	0	0	1	0	0	0	9536	768	27	1	542	1	MFSD6L	17	8701217	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	973677	8701217	72493993	362	16983										
FLII	2314	broad.mit.edu	37	chr17	18148710	18148710	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttgatctccacctggctagtCtgggtccccacccacatgta	8	15	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:18148710C>G	uc002gsr.1	-	29	3684	c.3633G>C	c.(3631-3633)CAG>CAC	p.Q1211H	FLII_uc002gsq.1_Missense_Mutation_p.Q1082H|FLII_uc010cpy.1_Missense_Mutation_p.Q1200H|FLII_uc010vxn.1_Missense_Mutation_p.Q1180H|FLII_uc010vxo.1_Missense_Mutation_p.Q1156H	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	1211	Gelsolin-like 5.				multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					CCTGGCTAGTCTGGGTCCCCA	0.642													6	56	---	---	---	---	PASS	G	18148710	G	G	18148710	3	3	43	1	0	0	0	0	1	0	0	0	5925	912	32	2	184	2	FLII	17	18148710	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	9447493	18148710	63046500	363	16984										
MAPK7	5598	broad.mit.edu	37	chr17	19286527	19286527	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgctgctggctgacctgcctGacctccaggacccctgaggc	12	16	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:19286527G>T	uc002gvn.2	+	7	2820	c.2434G>T	c.(2434-2436)GAC>TAC	p.D812Y	MAPK7_uc002gvo.2_Missense_Mutation_p.D673Y|MAPK7_uc002gvq.2_Missense_Mutation_p.D812Y|MAPK7_uc002gvp.2_Missense_Mutation_p.D812Y|uc010vyt.1_5'Flank	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	812					cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					TGACCTGCCTGACCTCCAGGA	0.597													7	24	---	---	---	---	PASS	T	19286527	T	T	19286527	3	4	43	1	0	0	0	0	1	0	0	0	9282	1290	45	2	2456	2	MAPK7	17	19286527	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1137817	19286527	61908683	364	16985										
ALDH3A1	218	broad.mit.edu	37	chr17	19648346	19648346	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctcctggatcaggcgctgcaGcgcctccagctgctggatcc	12	16	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:19648346G>T	uc010cqu.2	-	1	427	c.97C>A	c.(97-99)CTG>ATG	p.L33M	ALDH3A1_uc010vzd.1_Missense_Mutation_p.L33M|ALDH3A1_uc002gwj.2_Missense_Mutation_p.L33M|ALDH3A1_uc010cqv.2_Missense_Mutation_p.L33M|ALDH3A1_uc002gwk.2_Intron|ALDH3A1_uc002gwl.1_5'Flank	NM_001135168	NP_001128640	P30838	AL3A1_HUMAN	aldehyde dehydrogenase 3A1	33					cellular aldehyde metabolic process	cytosol|endoplasmic reticulum	alcohol dehydrogenase (NADP+) activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(1)|pancreas(1)	2	all_cancers(12;4.01e-05)|all_epithelial(12;0.00301)|Breast(13;0.186)			Colorectal(15;0.0829)	NADH(DB00157)	AGGCGCTGCAGCGCCTCCAGC	0.706													4	3	---	---	---	---	PASS	T	19648346	T	T	19648346	3	4	43	1	0	0	0	0	1	0	0	0	497	962	34	3	1304	3	ALDH3A1	17	19648346	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	361819	19648346	61546864	365	16986										
CPD	1362	broad.mit.edu	37	chr17	28758837	28758837	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atgatgatgaacaaggacttGccacatatagtaaatcacca	7	8	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:28758837G>T	uc002hfb.1	+	8	2080	c.2065G>T	c.(2065-2067)GCC>TCC	p.A689S	CPD_uc010wbo.1_Missense_Mutation_p.A442S|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	689	Extracellular (Potential).|Carboxypeptidase-like 2.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						ACAAGGACTTGCCACATATAG	0.328													25	22	---	---	---	---	PASS	T	28758837	T	T	28758837	3	4	43	1	0	0	0	0	1	0	0	0	3798	1319	46	3	2095	3	CPD	17	28758837	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	9110491	28758837	52436373	366	16987										
NF1	4763	broad.mit.edu	37	chr17	29670025	29670025	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atctcatgattatctttaatAgagtccagaggaagtattta	7	5	2	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:29670025A>G	uc002hgg.2	+	48	7396	c.7063_splice	c.e48-2	p.S2355_splice	NF1_uc002hgh.2_Splice_Site_p.S2334_splice|NF1_uc010cso.2_Splice_Site_p.S543_splice|NF1_uc010wbt.1_Splice_Site|NF1_uc010wbu.1_Splice_Site	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1						actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TATCTTTAATAGAGTCCAGAG	0.368			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			21	16	---	---	---	---	PASS	G	29670025	G	G	29670025	5	3	43	1	0	0	0	0	0	0	1	0	10356	434	15	5	7312	5	NF1	17	29670025	Splice_Site	SNP	A	TCGA-22-5472-01A-01D-1632-08	911188	29670025	51525185	367	16988										
C17orf66	256957	broad.mit.edu	37	chr17	34190043	34190043	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggagttaagagccattcgtaGccccgtcaaagtctccatcc	9	13	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:34190043G>T	uc002hke.1	-	8	861	c.712C>A	c.(712-714)CTA>ATA	p.L238I	C17orf66_uc010wck.1_RNA|C17orf66_uc010wcl.1_Missense_Mutation_p.L198I|C17orf66_uc010wcm.1_Missense_Mutation_p.L204I	NM_152781	NP_689994	A2RTY3	CQ066_HUMAN	hypothetical protein LOC256957	238							binding			breast(2)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		GCCATTCGTAGCCCCGTCAAA	0.498													3	62	---	---	---	---	PASS	T	34190043	T	T	34190043	3	4	43	1	0	0	0	0	1	0	0	0	1874	962	34	3	1032	3	C17orf66	17	34190043	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	4520018	34190043	47005167	368	16989										
GGNBP2	79893	broad.mit.edu	37	chr17	34935839	34935839	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tggtgttgatgctttacgcaAgagttttgaggtaagaacag	13	4	0	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:34935839A>T	uc002hnb.2	+	8	1259	c.1010A>T	c.(1009-1011)AAG>ATG	p.K337M	GGNBP2_uc002hna.2_Missense_Mutation_p.K337M|GGNBP2_uc002hnc.1_Missense_Mutation_p.K166M	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	337					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		GCTTTACGCAAGAGTTTTGAG	0.433													31	34	---	---	---	---	PASS	T	34935839	T	T	34935839	3	4	43	1	0	0	0	0	1	0	0	0	6359	72	3	5	1036	5	GGNBP2	17	34935839	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	745796	34935839	46259371	369	16990										
MED1	5469	broad.mit.edu	37	chr17	37563746	37563746	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tcctaattcccaatcagggcCacatccataagatcatcatc	4	14	3	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:37563746C>A	uc002hrv.3	-	17	4940	c.4728G>T	c.(4726-4728)GTG>GTT	p.V1576V	MED1_uc010wee.1_Silent_p.V1404V|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1576					androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		CAATCAGGGCCACATCCATAA	0.423										HNSCC(31;0.082)			23	22	---	---	---	---	PASS	A	37563746	A	A	37563746	2	1	43	1	0	0	0	0	0	0	0	1	9425	581	21	3		3	MED1	17	37563746	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	2627907	37563746	43631464	370	16991										
KRT16	3868	broad.mit.edu	37	chr17	39768836	39768836	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcacggcaggaccctccggcCaggacggaggagatgcggct	17	13	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:39768836C>A	uc002hxg.3	-	1	244	c.105G>T	c.(103-105)CTG>CTT	p.L35L	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	35	Head.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				ACCCTCCGGCCAGGACGGAGG	0.721													5	3	---	---	---	---	PASS	A	39768836	A	A	39768836	2	1	43	1	0	0	0	0	0	0	0	1	8453	581	21	3		3	KRT16	17	39768836	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	2205090	39768836	41426374	371	16992										
G6PC	2538	broad.mit.edu	37	chr17	41063047	41063047	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gccatcggattttatctgctGctcaagggactgggtgtaga	13	8	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:41063047G>T	uc002icb.1	+	5	757	c.678G>T	c.(676-678)CTG>CTT	p.L226L	G6PC_uc010whf.1_3'UTR	NM_000151	NP_000142	P35575	G6PC_HUMAN	glucose-6-phosphatase, catalytic subunit	226	Helical; (Potential).				gluconeogenesis|glucose homeostasis|transmembrane transport	integral to endoplasmic reticulum membrane	glucose-6-phosphatase activity|phosphate binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.113)		TTTATCTGCTGCTCAAGGGAC	0.498									Glycogen_Storage_Disease_type_Ia				18	19	---	---	---	---	PASS	T	41063047	T	T	41063047	2	4	43	1	0	0	0	0	0	0	0	1	6143	1306	46	3		3	G6PC	17	41063047	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	1294211	41063047	40132163	372	16993										
SLC4A1	6521	broad.mit.edu	37	chr17	42330535	42330535	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atccgctgctctttgacctcCtggatctgggctgcagcccc	10	16	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:42330535C>A	uc002igf.3	-	17	2411	c.2262G>T	c.(2260-2262)CAG>CAT	p.Q754H		NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	754	Membrane (anion exchange).				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		CTTTGACCTCCTGGATCTGGG	0.642													18	17	---	---	---	---	PASS	A	42330535	A	A	42330535	3	1	43	1	0	0	0	0	1	0	0	0	14650	680	24	3	489	3	SLC4A1	17	42330535	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1267488	42330535	38864675	373	16994										
GPATCH8	23131	broad.mit.edu	37	chr17	42475217	42475217	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aatgggggtcagatggggctGgggaatatgatgcacctggg	19	5	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:42475217G>T	uc002igw.1	-	8	4292	c.4228C>A	c.(4228-4230)CAG>AAG	p.Q1410K	GPATCH8_uc002igv.1_Missense_Mutation_p.Q1332K|GPATCH8_uc010wiz.1_Missense_Mutation_p.Q1332K	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	1410						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)		AGATGGGGCTGGGGAATATGA	0.582													7	8	---	---	---	---	PASS	T	42475217	T	T	42475217	3	4	43	1	0	0	0	0	1	0	0	0	6594	1357	47	3	284	3	GPATCH8	17	42475217	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	144682	42475217	38719993	374	16995										
FTSJ3	117246	broad.mit.edu	37	chr17	61902031	61902031	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccccaacactctgatgtcctGacagcacacccgtatgtcct	6	17	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:61902031G>C	uc002jbz.2	-	9	961	c.883C>G	c.(883-885)CAG>GAG	p.Q295E	FTSJ3_uc002jca.2_Missense_Mutation_p.Q295E|PSMC5_uc002jcb.2_5'Flank|PSMC5_uc010ddy.2_5'Flank|PSMC5_uc010ddz.2_5'Flank|PSMC5_uc002jcc.2_5'Flank|PSMC5_uc002jcd.2_5'Flank	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	295					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						CTGATGTCCTGACAGCACACC	0.572													49	44	---	---	---	---	PASS	C	61902031	C	C	61902031	3	2	43	1	0	0	0	0	1	0	0	0	6089	1299	45	2	1708	2	FTSJ3	17	61902031	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	19426814	61902031	19293179	375	16996										
TEX2	55852	broad.mit.edu	37	chr17	62272361	62272361	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttttattgggctttgaaagtCttaaggttccaccctcaagt	8	8	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:62272361C>A	uc002jec.2	-	3	1912	c.1739G>T	c.(1738-1740)AGA>ATA	p.R580I	TEX2_uc002jed.2_Missense_Mutation_p.R580I|TEX2_uc002jee.2_Missense_Mutation_p.R580I	NM_018469	NP_060939	Q8IWB9	TEX2_HUMAN	testis expressed sequence 2	580					signal transduction|sphingolipid metabolic process	integral to membrane				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		CTTTGAAAGTCTTAAGGTTCC	0.438													22	27	---	---	---	---	PASS	A	62272361	A	A	62272361	3	1	43	1	0	0	0	0	1	0	0	0	15778	913	32	2	1705	2	TEX2	17	62272361	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	370330	62272361	18922849	376	16997										
SLC16A6	9120	broad.mit.edu	37	chr17	66267059	66267059	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcagaagacatcttctcaatGcccacgacatcatcctcagc	6	15	4	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:66267059G>T	uc002jgz.1	-	5	1430	c.1242C>A	c.(1240-1242)GGC>GGA	p.G414G	ARSG_uc002jhc.2_Intron|SLC16A6_uc002jha.1_Silent_p.G414G	NM_004694	NP_004685	O15403	MOT7_HUMAN	solute carrier family 16, member 6	414	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity				0	all_cancers(12;1.24e-09)		BRCA - Breast invasive adenocarcinoma(8;3.17e-08)|LUSC - Lung squamous cell carcinoma(166;0.24)		Pyruvic acid(DB00119)	TCTTCTCAATGCCCACGACAT	0.453													6	49	---	---	---	---	PASS	T	66267059	T	T	66267059	2	4	43	1	0	0	0	0	0	0	0	1	14412	1306	46	3		3	SLC16A6	17	66267059	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	3994698	66267059	14928151	377	16998										
GPR142	350383	broad.mit.edu	37	chr17	72368028	72368028	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcagtgctggcccgccaggtGccccaggctgtggtgcgcac	16	15	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:72368028G>T	uc010wqy.1	+	4	678	c.678G>T	c.(676-678)GTG>GTT	p.V226V	GPR142_uc010wqx.1_Silent_p.V138V	NM_181790	NP_861455	Q7Z601	GP142_HUMAN	G protein-coupled receptor 142	226	Extracellular (Potential).					cell junction|cytoplasm|integral to membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						CCCGCCAGGTGCCCCAGGCTG	0.627													13	7	---	---	---	---	PASS	T	72368028	T	T	72368028	2	4	43	1	0	0	0	0	0	0	0	1	6650	1306	46	3		3	GPR142	17	72368028	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	6100969	72368028	8827182	378	16999										
RPTOR	57521	broad.mit.edu	37	chr17	78681766	78681766	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggccacggggtgccccggccCacagtcaacggggaggtctg	17	14	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:78681766C>A	uc002jyt.1	+	4	1279	c.474C>A	c.(472-474)CCC>CCA	p.P158P	RPTOR_uc002jys.2_Silent_p.P158P|RPTOR_uc010wuf.1_5'UTR|RPTOR_uc010wug.1_Silent_p.P158P	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	158					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						TGCCCCGGCCCACAGTCAACG	0.582													4	5	---	---	---	---	PASS	A	78681766	A	A	78681766	2	1	43	1	0	0	0	0	0	0	0	1	13665	581	21	3		3	RPTOR	17	78681766	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	6313738	78681766	2513444	379	17000										
THOC4	10189	broad.mit.edu	37	chr17	79846200	79846200	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctgccggcacctctgcctcTtccacgggcgcctccgcggg	12	20	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:79846200T>C	uc002kbu.2	-	5	703	c.697A>G	c.(697-699)AGA>GGA	p.R233G		NM_005782	NP_005773	Q86V81	THOC4_HUMAN	THO complex 4	226	Ala/Arg/Gly-rich.				intronless viral mRNA export from host nucleus|mRNA 3'-end processing|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear speck|transcription export complex	nucleotide binding|protein binding|RNA binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CCTCTGCCTCTTCCACGGGCG	0.627													7	10	---	---	---	---	PASS	C	79846200	C	C	79846200	3	2	43	1	0	0	0	0	1	0	0	0	15864	1617	56	5	105	5	THOC4	17	79846200	Missense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08	1164434	79846200	1349010	380	17001										
NARF	26502	broad.mit.edu	37	chr17	80445995	80445995	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgcataccacgtaccagagcCaggagcgtggcacacacagc	11	14	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr17:80445995C>A	uc002kfg.3	+	11	1473	c.1333C>A	c.(1333-1335)CAG>AAG	p.Q445K	NARF_uc002kff.3_Missense_Mutation_p.Q386K|NARF_uc010dit.2_Missense_Mutation_p.Q491K|NARF_uc002kfj.3_Missense_Mutation_p.Q397K|NARF_uc002kfi.3_RNA|NARF_uc002kfh.3_Missense_Mutation_p.Q491K|NARF_uc002kfk.2_RNA	NM_012336	NP_036468	Q9UHQ1	NARF_HUMAN	nuclear prelamin A recognition factor isoform a	445						lamin filament	lamin binding			skin(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			GTACCAGAGCCAGGAGCGTGG	0.622													4	50	---	---	---	---	PASS	A	80445995	A	A	80445995	3	1	43	1	0	0	0	0	1	0	0	0	10167	595	21	3	1517	3	NARF	17	80445995	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	599795	80445995	749215	381	17002										
ZFP161	7541	broad.mit.edu	37	chr18	5291962	5291962	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cctcttcaaatatatcagaaCgaagaaaatctatttctatg	4	8	5	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:5291962C>T	uc002kmq.2	-	4	406	c.245G>A	c.(244-246)CGT>CAT	p.R82H	ZFP161_uc002kmr.2_Missense_Mutation_p.R82H|ZFP161_uc010dkp.2_Missense_Mutation_p.R82H	NM_003409	NP_003400	O43829	ZF161_HUMAN	zinc finger protein 161 homolog	82	BTB.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TATATCAGAACGAAGAAAATC	0.373													5	66	---	---	---	---	PASS	T	5291962	T	T	5291962	3	4	43	1	0	0	0	0	1	0	0	0	17637	536	19	1	1108	1	ZFP161	18	5291962	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08		5291962	72785286	382	17003										
LAMA1	284217	broad.mit.edu	37	chr18	6961946	6961946	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aataacaatgtttcctacctCcagtaaacagccttttctca	3	12	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:6961946C>T	uc002knm.2	-	52	7544	c.7450G>A	c.(7450-7452)GAG>AAG	p.E2484K	LAMA1_uc002knl.2_5'UTR|LAMA1_uc010wzj.1_Missense_Mutation_p.E1960K	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2484					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)	TTTCCTACCTCCAGTAAACAG	0.378													28	76	---	---	---	---	PASS	T	6961946	T	T	6961946	3	4	43	1	0	0	0	0	1	0	0	0	8605	864	30	2	1825	2	LAMA1	18	6961946	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1669984	6961946	71115302	383	17004										
CHMP1B	57132	broad.mit.edu	37	chr18	11851718	11851718	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgaatttcttgagaatgagtGcgcgagtcgatgcagtggct	14	6	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:11851718G>T	uc002kqe.2	+	1	330	c.208G>T	c.(208-210)GCG>TCG	p.A70S	GNAL_uc002kqc.2_Intron|GNAL_uc010dkz.2_Intron|GNAL_uc002kqd.2_Intron	NM_020412	NP_065145	Q7LBR1	CHM1B_HUMAN	chromatin modifying protein 1B	70					cell cycle|cell division|protein transport	cytosol|late endosome membrane	protein domain specific binding				0						GAGAATGAGTGCGCGAGTCGA	0.542													9	44	---	---	---	---	PASS	T	11851718	T	T	11851718	3	4	43	1	0	0	0	0	1	0	0	0	3353	1319	46	3	210	3	CHMP1B	18	11851718	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	4889772	11851718	66225530	384	17005										
LAMA3	3909	broad.mit.edu	37	chr18	21534555	21534555	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aatcacatccctgtccctgtCactgaagccttggaagtcca	7	14	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:21534555C>A	uc002kuq.2	+	75	10031	c.9945C>A	c.(9943-9945)GTC>GTA	p.V3315V	LAMA3_uc002kur.2_Silent_p.V3259V|LAMA3_uc002kus.3_Silent_p.V1706V|LAMA3_uc002kut.3_Silent_p.V1650V	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	3315	Laminin G-like 5.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTGTCCCTGTCACTGAAGCCT	0.468													15	46	---	---	---	---	PASS	A	21534555	A	A	21534555	2	1	43	1	0	0	0	0	0	0	0	1	8607	813	29	2		2	LAMA3	18	21534555	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	9682837	21534555	56542693	385	17006										
TAF4B	6875	broad.mit.edu	37	chr18	23866021	23866021	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgaaaagtcaattattgtttCtggagcaacagcacccagaa	8	8	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:23866021C>A	uc002kvu.3	+	7	1637	c.1148C>A	c.(1147-1149)TCT>TAT	p.S383Y	TAF4B_uc002kvs.3_RNA|TAF4B_uc002kvt.3_Missense_Mutation_p.S383Y	NM_005640	NP_005631	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding	383					transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			ATTATTGTTTCTGGAGCAACA	0.468													20	71	---	---	---	---	PASS	A	23866021	A	A	23866021	3	1	43	1	0	0	0	0	1	0	0	0	15524	913	32	2	1174	2	TAF4B	18	23866021	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2331466	23866021	54211227	386	17007										
CDH2	1000	broad.mit.edu	37	chr18	25570062	25570062	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tacaaacagcatttcataccTaatattttgctgcatatatc	3	9	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:25570062T>C	uc002kwg.2	-	10	2056	c.1597A>G	c.(1597-1599)AGA>GGA	p.R533G	CDH2_uc010xbn.1_Missense_Mutation_p.R502G	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	533	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						ATTTCATACCTAATATTTTGC	0.363													22	63	---	---	---	---	PASS	C	25570062	C	C	25570062	3	2	43	1	0	0	0	0	1	0	0	0	3105	1536	53	5	1151	5	CDH2	18	25570062	Missense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08	1704041	25570062	52507186	387	17008										
DSG1	1828	broad.mit.edu	37	chr18	28918392	28918392	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aatatgctcggaggaaaataCcaaggaacgattctctctat	8	8	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:28918392C>A	uc002kwp.2	+	10	1592	c.1380C>A	c.(1378-1380)TAC>TAA	p.Y460*		NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	460	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			GAGGAAAATACCAAGGAACGA	0.318													15	60	---	---	---	---	PASS	A	28918392	A	A	28918392	4	1	43	1	0	0	0	0	0	1	0	0	4776	518	18	3	1418	3	DSG1	18	28918392	Nonsense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	3348330	28918392	49158856	388	17009										
DSG4	147409	broad.mit.edu	37	chr18	28972210	28972210	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gaaggcactgataactggttGgctcaatatttaattctctc	8	8	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:28972210G>T	uc002kwq.2	+	8	1047	c.912G>T	c.(910-912)TTG>TTT	p.L304F	DSG4_uc002kwr.2_Missense_Mutation_p.L304F	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	304	Cadherin 3.|Extracellular (Potential).		Missing (in LAH1).		homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			ATAACTGGTTGGCTCAATATT	0.363													17	46	---	---	---	---	PASS	T	28972210	T	T	28972210	3	4	43	1	0	0	0	0	1	0	0	0	4779	1339	47	3	942	3	DSG4	18	28972210	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	53818	28972210	49105038	389	17010										
DSG3	1830	broad.mit.edu	37	chr18	29055916	29055916	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcagacaggatttgttaagtGccagactttgtcaggaagtc	12	7	1	2	rs147711163	byFrequency	TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:29055916G>T	uc002kws.2	+	16	2802	c.2693G>T	c.(2692-2694)TGC>TTC	p.C898F	DSG3_uc002kwt.2_Missense_Mutation_p.C180F	NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	898	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding	p.C898G(1)		skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TTTGTTAAGTGCCAGACTTTG	0.507													10	51	---	---	---	---	PASS	T	29055916	T	T	29055916	3	4	43	1	0	0	0	0	1	0	0	0	4778	1319	46	3	2755	3	DSG3	18	29055916	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	83706	29055916	49021332	390	17011										
DSG3	1830	broad.mit.edu	37	chr18	29056145	29056145	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cccatttccagtgttcctggCaacctagctggcccaacgca	8	16	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:29056145C>A	uc002kws.2	+	16	3031	c.2922C>A	c.(2920-2922)GGC>GGA	p.G974G	DSG3_uc002kwt.2_Silent_p.G256G	NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	974	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GTGTTCCTGGCAACCTAGCTG	0.502													21	76	---	---	---	---	PASS	A	29056145	A	A	29056145	2	1	43	1	0	0	0	0	0	0	0	1	4778	697	25	3		3	DSG3	18	29056145	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	229	29056145	49021103	391	17012										
GALNT1	2589	broad.mit.edu	37	chr18	33263508	33263508	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caccttcctggatgcccattGtgagtgtacagtgggatggc	13	10	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:33263508G>T	uc010dmu.2	+	5	688	c.635G>T	c.(634-636)TGT>TTT	p.C212F	GALNT1_uc002kyz.3_Missense_Mutation_p.C152F|GALNT1_uc002kzb.2_Missense_Mutation_p.C212F	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	212	Lumenal (Potential).|Catalytic subdomain A.				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						GATGCCCATTGTGAGTGTACA	0.443													5	27	---	---	---	---	PASS	T	33263508	T	T	33263508	3	4	43	1	0	0	0	0	1	0	0	0	6207	1377	48	3	649	3	GALNT1	18	33263508	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	4207363	33263508	44813740	392	17013										
CELF4	56853	broad.mit.edu	37	chr18	34839189	34839189	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctcagcgtccccaaactcctGgggcagatggtagatgaaca	11	12	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:34839189G>A	uc002lae.2	-	11	1684	c.1288C>T	c.(1288-1290)CAG>TAG	p.Q430*	CELF4_uc010dnd.1_Nonsense_Mutation_p.Q428*|CELF4_uc002lag.2_Intron|CELF4_uc002laf.2_Nonsense_Mutation_p.Q424*|CELF4_uc002lai.2_Nonsense_Mutation_p.Q414*	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	430	RRM 3.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						CCAAACTCCTGGGGCAGATGG	0.398													5	14	---	---	---	---	PASS	A	34839189	A	A	34839189	4	1	43	1	0	0	0	0	0	1	0	0	3218	1357	47	3	180	3	CELF4	18	34839189	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1575681	34839189	43238059	393	17014										
DCC	1630	broad.mit.edu	37	chr18	50741921	50741921	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgtttgattccttttagtgcCaagtgccccgcctcagaacg	9	12	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:50741921C>A	uc002lfe.1	+	12	2452	c.1865C>A	c.(1864-1866)CCA>CAA	p.P622Q	DCC_uc010xdr.1_Missense_Mutation_p.P470Q|DCC_uc010dpf.1_Missense_Mutation_p.P277Q	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	622	Extracellular (Potential).|Fibronectin type-III 3.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		CTTTTAGTGCCAAGTGCCCCG	0.383													15	45	---	---	---	---	PASS	A	50741921	A	A	50741921	3	1	43	1	0	0	0	0	1	0	0	0	4282	594	21	3	1911	3	DCC	18	50741921	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	15902732	50741921	27335327	394	17015										
NFATC1	4772	broad.mit.edu	37	chr18	77171011	77171011	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccacctcgccccgcgccagcGtcactgaggagagctggctg	13	17	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr18:77171011G>A	uc010xfg.1	+	2	1189	c.736G>A	c.(736-738)GTC>ATC	p.V246I	NFATC1_uc002lnc.1_Missense_Mutation_p.V246I|NFATC1_uc010xff.1_Missense_Mutation_p.V246I|NFATC1_uc002lnd.2_Missense_Mutation_p.V246I|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Missense_Mutation_p.V246I|NFATC1_uc010xfi.1_Missense_Mutation_p.V233I|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Missense_Mutation_p.V233I|NFATC1_uc002lng.2_Missense_Mutation_p.V233I|NFATC1_uc010xfk.1_Missense_Mutation_p.V233I	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	246	3 X SP repeats.|2.				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CCGCGCCAGCGTCACTGAGGA	0.711													12	19	---	---	---	---	PASS	A	77171011	A	A	77171011	3	1	43	1	0	0	0	0	1	0	0	0	10361	1145	40	1	834	1	NFATC1	18	77171011	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	26429090	77171011	906237	395	17016										
AZU1	566	broad.mit.edu	37	chr19	828280	828280	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gccggaaggcgaggccccgcCagttcccgttcctggcctcc	13	18	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:828280C>A	uc002lpz.1	+	2	125	c.109C>A	c.(109-111)CAG>AAG	p.Q37K		NM_001700	NP_001691	P20160	CAP7_HUMAN	azurocidin 1 preproprotein	37	Peptidase S1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|cellular extravasation|defense response to Gram-negative bacterium|glial cell migration|induction of positive chemotaxis|inflammatory response|macrophage chemotaxis|microglial cell activation|monocyte activation|positive regulation of cell adhesion|positive regulation of fractalkine biosynthetic process|positive regulation of interleukin-1 beta biosynthetic process|positive regulation of MHC class II biosynthetic process|positive regulation of phagocytosis|positive regulation of tumor necrosis factor biosynthetic process|proteolysis|regulation of vascular permeability	azurophil granule|extracellular region	heparin binding|serine-type endopeptidase activity|toxin binding			pancreas(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAGGCCCCGCCAGTTCCCGTT	0.647													24	52	---	---	---	---	PASS	A	828280	A	A	828280	3	1	43	1	0	0	0	0	1	0	0	0	1243	595	21	3	115	3	AZU1	19	828280	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08		828280	58300703	396	17017										
ABCA7	10347	broad.mit.edu	37	chr19	1055129	1055129	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gaagttcctgctgaagtggcCaaggtcttggccagtggcaa	14	9	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:1055129C>A	uc002lqw.3	+	30	4215	c.3984C>A	c.(3982-3984)GCC>GCA	p.A1328A	ABCA7_uc010dsb.1_Silent_p.A1190A|ABCA7_uc002lqy.2_5'Flank	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	1328	Extracellular (By similarity).				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGAAGTGGCCAAGGTCTTGG	0.657													9	20	---	---	---	---	PASS	A	1055129	A	A	1055129	2	1	43	1	0	0	0	0	0	0	0	1	37	581	21	3		3	ABCA7	19	1055129	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	226849	1055129	58073854	397	17018										
CELF5	60680	broad.mit.edu	37	chr19	3282474	3282474	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gccctggaaaccgtctatgcCaatggccttgtgccctaccc	9	16	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:3282474C>A	uc002lxm.2	+	8	1054	c.1017C>A	c.(1015-1017)GCC>GCA	p.A339A	CELF5_uc002lxl.1_Silent_p.A339A|CELF5_uc010dtj.1_Silent_p.A314A|CELF5_uc010xhg.1_Silent_p.A225A|CELF5_uc002lxn.2_RNA	NM_021938	NP_068757	Q8N6W0	CELF5_HUMAN	bruno-like 5, RNA binding protein	339					mRNA processing	cytoplasm|nucleus	nucleotide binding|RNA binding			ovary(2)	2						CCGTCTATGCCAATGGCCTTG	0.587													10	37	---	---	---	---	PASS	A	3282474	A	A	3282474	2	1	43	1	0	0	0	0	0	0	0	1	3219	581	21	3		3	CELF5	19	3282474	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	2227345	3282474	55846509	398	17019										
TMIGD2	126259	broad.mit.edu	37	chr19	4298276	4298276	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggcagaccagggtcgcctgaCtgccctgcctcacctgcagc	12	17	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:4298276C>G	uc002lzx.1	-	2	159	c.113G>C	c.(112-114)AGT>ACT	p.S38T	TMIGD2_uc010dtv.1_Missense_Mutation_p.S38T	NM_144615	NP_653216	Q96BF3	TMIG2_HUMAN	transmembrane and immunoglobulin domain	38	Extracellular (Potential).|Ig-like.					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		GGTCGCCTGACTGCCCTGCCT	0.617													3	15	---	---	---	---	PASS	G	4298276	G	G	4298276	3	3	43	1	0	0	0	0	1	0	0	0	16228	565	20	4	751	4	TMIGD2	19	4298276	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1015802	4298276	54830707	399	17020										
UBXN6	80700	broad.mit.edu	37	chr19	4446553	4446553	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggttgaagaagtccccaggCagttcgaactgcgaggccag	14	10	0	2	rs111828265		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:4446553C>A	uc002man.1	-	8	960	c.864G>T	c.(862-864)CTG>CTT	p.L288L	UBXN6_uc010dty.1_Silent_p.L192L|UBXN6_uc002mam.1_Silent_p.L235L	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	288						microtubule organizing center|nucleus	protein binding				0						AGTCCCCAGGCAGTTCGAACT	0.692													6	27	---	---	---	---	PASS	A	4446553	A	A	4446553	2	1	43	1	0	0	0	0	0	0	0	1	16914	697	25	3		3	UBXN6	19	4446553	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	148277	4446553	54682430	400	17021										
PLIN4	729359	broad.mit.edu	37	chr19	4512634	4512634	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtctggatggttcctctggcCaaattcatggcaccagtcac	10	12	4	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:4512634C>A	uc002mar.1	-	3	1296	c.1296G>T	c.(1294-1296)TTG>TTT	p.L432F	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	432	11.|27 X 33 AA approximate tandem repeat.					lipid particle|plasma membrane					0						TTCCTCTGGCCAAATTCATGG	0.557													5	119	---	---	---	---	PASS	A	4512634	A	A	4512634	3	1	43	1	0	0	0	0	1	0	0	0	12092	593	21	3	2793	3	PLIN4	19	4512634	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	66081	4512634	54616349	401	17022										
VAV1	7409	broad.mit.edu	37	chr19	6829837	6829837	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aagctctactcatctgtaagCgcaggggagactcctatgac	10	11	3	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:6829837C>A	uc002mfu.1	+	14	1403	c.1306C>A	c.(1306-1308)CGC>AGC	p.R436S	VAV1_uc010xjh.1_Missense_Mutation_p.R404S|VAV1_uc010dva.1_Missense_Mutation_p.R436S|VAV1_uc002mfv.1_Missense_Mutation_p.R381S	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	436	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						CATCTGTAAGCGCAGGGGAGA	0.532													5	68	---	---	---	---	PASS	A	6829837	A	A	6829837	3	1	43	1	0	0	0	0	1	0	0	0	17128	768	27	1	1360	1	VAV1	19	6829837	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2317203	6829837	52299146	402	17023										
FBN3	84467	broad.mit.edu	37	chr19	8183899	8183899	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agcgggtcccttgcacactcGtccacgtctgaaggtttgtg	12	12	1	1	rs142033402		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:8183899G>T	uc002mjf.2	-	25	3240	c.3219C>A	c.(3217-3219)GAC>GAA	p.D1073E		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1073	EGF-like 14; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						TTGCACACTCGTCCACGTCTG	0.617													6	19	---	---	---	---	PASS	T	8183899	T	T	8183899	3	4	43	1	0	0	0	0	1	0	0	0	5704	1136	40	1	5366	1	FBN3	19	8183899	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1354062	8183899	50945084	403	17024										
ZNF266	10781	broad.mit.edu	37	chr19	9525231	9525231	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tacagaacgttgctctccagTagaggttttcttgtgcagag	11	8	2	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:9525231T>A	uc002mll.2	-	4	636	c.370A>T	c.(370-372)ACT>TCT	p.T124S	ZNF266_uc002mlm.2_Missense_Mutation_p.T124S|ZNF266_uc002mln.2_Missense_Mutation_p.T124S|ZNF266_uc002mlo.2_Missense_Mutation_p.T124S|ZNF266_uc010dwp.2_Missense_Mutation_p.T124S|ZNF266_uc010dwq.2_Missense_Mutation_p.T124S	NM_198058	NP_932175	Q14584	ZN266_HUMAN	zinc finger protein 266	124					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGCTCTCCAGTAGAGGTTTTC	0.428													52	66	---	---	---	---	PASS	A	9525231	A	A	9525231	3	1	43	1	0	0	0	0	1	0	0	0	17802	1638	57	5	1283	5	ZNF266	19	9525231	Missense_Mutation	SNP	T	TCGA-22-5472-01A-01D-1632-08	1341332	9525231	49603752	404	17025										
ILF3	3609	broad.mit.edu	37	chr19	10792704	10792704	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccccccaggctatgaatgccCtgatgcggttgaaccagctg	11	14	0	3	rs141175607		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:10792704C>T	uc002mpn.2	+	12	1533	c.1216C>T	c.(1216-1218)CTG>TTG	p.L406L	ILF3_uc002mpm.2_Silent_p.L406L|ILF3_uc002mpl.2_Silent_p.L406L|ILF3_uc002mpk.2_Silent_p.L406L|ILF3_uc010xli.1_Silent_p.L4L|ILF3_uc002mpo.2_Silent_p.L406L|ILF3_uc002mpp.2_Silent_p.L227L	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	406	DRBM 1.				M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			TATGAATGCCCTGATGCGGTT	0.587													10	27	---	---	---	---	PASS	T	10792704	T	T	10792704	2	4	43	1	0	0	0	0	0	0	0	1	7712	680	24	3		3	ILF3	19	10792704	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	1267473	10792704	48336279	405	17026										
NOTCH3	4854	broad.mit.edu	37	chr19	15271574	15271574	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agacaagggaagtggctgggCaggcagtgccccagtggtgg	19	8	0	1	rs79447691		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:15271574C>A	uc002nan.2	-	33	6941	c.6865G>T	c.(6865-6867)GCC>TCC	p.A2289S		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	2289	Cytoplasmic (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			AGTGGCTGGGCAGGCAGTGCC	0.672													6	40	---	---	---	---	PASS	A	15271574	A	A	15271574	3	1	43	1	0	0	0	0	1	0	0	0	10550	710	25	3	104	3	NOTCH3	19	15271574	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	4478870	15271574	43857409	406	17027										
MYO9B	4650	broad.mit.edu	37	chr19	17212975	17212975	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggcagcaggcggactttgatGacctgtgtaacctccccgag	13	12	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:17212975G>T	uc010eak.2	+	2	600	c.448G>T	c.(448-450)GAC>TAC	p.D150Y	MYO9B_uc002nfi.2_Missense_Mutation_p.D150Y|MYO9B_uc002nfj.1_Missense_Mutation_p.D150Y	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	150	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						GGACTTTGATGACCTGTGTAA	0.602													18	37	---	---	---	---	PASS	T	17212975	T	T	17212975	3	4	43	1	0	0	0	0	1	0	0	0	10085	1290	45	2	450	2	MYO9B	19	17212975	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1941401	17212975	41916008	407	17028										
FAM98C	147965	broad.mit.edu	37	chr19	38895709	38895709	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tggggctgcccagacctgcaCcagggacccccgccagccag	13	18	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:38895709C>A	uc002oin.1	+	4	530	c.511C>A	c.(511-513)CCA>ACA	p.P171T	FAM98C_uc002oio.1_Missense_Mutation_p.P171T|FAM98C_uc010xtz.1_Intron	NM_174905	NP_777565	Q17RN3	FA98C_HUMAN	hypothetical protein LOC147965	171										skin(1)	1	all_cancers(60;3.95e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CAGACCTGCACCAGGGACCCC	0.642													6	77	---	---	---	---	PASS	A	38895709	A	A	38895709	3	1	43	1	0	0	0	0	1	0	0	0	5658	507	18	3	525	3	FAM98C	19	38895709	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	21682734	38895709	20233274	408	17029										
RASGRP4	115727	broad.mit.edu	37	chr19	38911820	38911820	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gttgagcatgtggtcctcgtGgcacaggctgccagctgaat	14	10	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:38911820G>T	uc002oir.2	-	3	443	c.229C>A	c.(229-231)CAC>AAC	p.H77N	RASGRP4_uc010efz.1_5'Flank|RASGRP4_uc010ega.1_5'Flank|RASGRP4_uc010xua.1_Missense_Mutation_p.H77N|RASGRP4_uc010xub.1_Missense_Mutation_p.H77N|RASGRP4_uc010xuc.1_Missense_Mutation_p.H77N|RASGRP4_uc010xud.1_Missense_Mutation_p.H77N|RASGRP4_uc010xue.1_Missense_Mutation_p.H77N|RASGRP4_uc010egb.2_Missense_Mutation_p.H77N	NM_170604	NP_733749	Q8TDF6	GRP4_HUMAN	RAS guanyl releasing protein 4 isoform a	77	N-terminal Ras-GEF.				activation of phospholipase C activity|cell growth|cell proliferation|myeloid cell differentiation|positive regulation of Ras protein signal transduction|regulation of G-protein coupled receptor protein signaling pathway|response to extracellular stimulus|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|membrane fraction|plasma membrane|soluble fraction	diacylglycerol binding|GTP-dependent protein binding|metal ion binding|Ras guanyl-nucleotide exchange factor activity			pancreas(1)|lung(1)|skin(1)	3	all_cancers(60;4.21e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TGGTCCTCGTGGCACAGGCTG	0.463													9	21	---	---	---	---	PASS	T	38911820	T	T	38911820	3	4	43	1	0	0	0	0	1	0	0	0	13077	1348	47	3	1852	3	RASGRP4	19	38911820	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	16111	38911820	20217163	409	17030										
LRFN1	57622	broad.mit.edu	37	chr19	39798893	39798893	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcccttgacgcggcggctgtCcccgtcgccatacaccttat	10	17	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:39798893C>T	uc002okw.2	-	2	1696	c.1696G>A	c.(1696-1698)GAC>AAC	p.D566N		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	566	Cytoplasmic (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane				ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			CGGCGGCTGTCCCCGTCGCCA	0.682													10	10	---	---	---	---	PASS	T	39798893	T	T	39798893	3	4	43	1	0	0	0	0	1	0	0	0	8937	855	30	2	623	2	LRFN1	19	39798893	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	887073	39798893	19330090	410	17031										
SPTBN4	57731	broad.mit.edu	37	chr19	41040149	41040149	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	accagctggtgcagagctttGctgagctggacaagaagctc	13	10	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:41040149G>T	uc002ony.2	+	20	4344	c.4258G>T	c.(4258-4260)GCT>TCT	p.A1420S	SPTBN4_uc002onx.2_Missense_Mutation_p.A1420S|SPTBN4_uc002onz.2_Missense_Mutation_p.A1420S|SPTBN4_uc010egx.2_Missense_Mutation_p.A163S|SPTBN4_uc010egy.1_Missense_Mutation_p.A96S|SPTBN4_uc002ooa.2_Missense_Mutation_p.A96S|SPTBN4_uc010egz.1_Missense_Mutation_p.A96S	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1420	Spectrin 12.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GCAGAGCTTTGCTGAGCTGGA	0.607													12	18	---	---	---	---	PASS	T	41040149	T	T	41040149	3	4	43	1	0	0	0	0	1	0	0	0	15120	1319	46	3	4332	3	SPTBN4	19	41040149	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1241256	41040149	18088834	411	17032										
LTBP4	8425	broad.mit.edu	37	chr19	41115449	41115449	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cccccaggtccctcctccggCatgtgtcagcgcaaccccca	8	21	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:41115449C>A	uc002ooh.1	+	13	1641	c.1641C>A	c.(1639-1641)GGC>GGA	p.G547G	LTBP4_uc002oog.1_Silent_p.G510G|LTBP4_uc002ooi.1_Silent_p.G480G|LTBP4_uc002ooj.1_5'Flank|LTBP4_uc010xvo.1_5'Flank|LTBP4_uc010ehb.1_5'Flank|LTBP4_uc002ook.1_5'Flank	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	547	Pro-rich.|EGF-like 3.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCTCCTCCGGCATGTGTCAGC	0.662													7	47	---	---	---	---	PASS	A	41115449	A	A	41115449	2	1	43	1	0	0	0	0	0	0	0	1	9076	697	25	3		3	LTBP4	19	41115449	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	75300	41115449	18013534	412	17033										
ZNF575	284346	broad.mit.edu	37	chr19	44039768	44039768	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccagctgcggccaggcctttGgccagagacgcttactgctc	12	15	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:44039768G>T	uc002ows.2	+	4	1195	c.667G>T	c.(667-669)GGC>TGC	p.G223C	ZNF575_uc002owq.2_Missense_Mutation_p.G322C	NM_174945	NP_777605	Q86XF7	ZN575_HUMAN	zinc finger protein 575	223	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0199)				CCAGGCCTTTGGCCAGAGACG	0.662													11	13	---	---	---	---	PASS	T	44039768	T	T	44039768	3	4	43	1	0	0	0	0	1	0	0	0	18004	1348	47	3	673	3	ZNF575	19	44039768	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	2924319	44039768	15089215	413	17034										
ZNF296	162979	broad.mit.edu	37	chr19	45575836	45575836	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caaggccttcagctcctctcGttctggtaagaaaaagaggc	10	11	3	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:45575836G>C	uc002pao.2	-	3	508	c.451C>G	c.(451-453)CGA>GGA	p.R151G		NM_145288	NP_660331	Q8WUU4	ZN296_HUMAN	zinc finger protein 296	151					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGCTCCTCTCGTTCTGGTAAG	0.582													10	36	---	---	---	---	PASS	C	45575836	C	C	45575836	3	2	43	1	0	0	0	0	1	0	0	0	17825	1153	40	4	980	4	ZNF296	19	45575836	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1536068	45575836	13553147	414	17035										
GLTSCR2	29997	broad.mit.edu	37	chr19	48248819	48248819	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agttcttcctttgacaagatGgcggcaggaggcagtggcgt	15	8	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:48248819G>T	uc002phm.2	+	1	27	c.3G>T	c.(1-3)ATG>ATT	p.M1I	GLTSCR2_uc002phk.2_Missense_Mutation_p.M1I|GLTSCR2_uc002phl.2_Missense_Mutation_p.M1I|GLTSCR2_uc010elj.2_Missense_Mutation_p.M1I	NM_015710	NP_056525	Q9NZM5	GSCR2_HUMAN	glioma tumor suppressor candidate region gene 2	1						nucleolus				central_nervous_system(1)	1		all_cancers(25;1.47e-06)|all_lung(116;6.89e-05)|all_epithelial(76;0.000108)|Lung NSC(112;0.000117)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000301)|OV - Ovarian serous cystadenocarcinoma(262;0.00031)|Epithelial(262;0.0149)|GBM - Glioblastoma multiforme(486;0.0278)		TTGACAAGATGGCGGCAGGAG	0.612													5	114	---	---	---	---	PASS	T	48248819	T	T	48248819	3	4	43	1	0	0	0	0	1	0	0	0	6475	1348	47	3	5	3	GLTSCR2	19	48248819	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	2672983	48248819	10880164	415	17036										
CCDC114	93233	broad.mit.edu	37	chr19	48806033	48806033	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tccgagtgcaccttgtccatGcgctgctgcaacaccttctg	9	15	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:48806033G>T	uc002pir.2	-	10	1730	c.1047C>A	c.(1045-1047)CGC>CGA	p.R349R	CCDC114_uc002piq.2_Silent_p.R158R|CCDC114_uc002pio.2_Silent_p.R386R|CCDC114_uc002pis.1_Silent_p.R29R|CCDC114_uc002pit.1_Silent_p.R386R	NM_144577	NP_653178	Q96M63	CC114_HUMAN	coiled-coil domain containing 114 isoform 2	349	Potential.									ovary(1)	1		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000162)|Epithelial(262;0.0134)|GBM - Glioblastoma multiforme(486;0.0143)		CCTTGTCCATGCGCTGCTGCA	0.632													30	64	---	---	---	---	PASS	T	48806033	T	T	48806033	2	4	43	1	0	0	0	0	0	0	0	1	2751	1306	46	3		3	CCDC114	19	48806033	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	557214	48806033	10322950	416	17037										
TMEM143	55260	broad.mit.edu	37	chr19	48836478	48836478	+	Nonstop_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cagggaggtaggttctactcAggagatgttactgctgggcg	16	7	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:48836478A>G	uc002pix.1	-	8	1387	c.1378T>C	c.(1378-1380)TGA>CGA	p.*460R	TMEM143_uc002piw.1_RNA|TMEM143_uc002piy.1_Nonstop_Mutation_p.*425R|TMEM143_uc010xzn.1_Nonstop_Mutation_p.*395R|TMEM143_uc010elw.1_Nonstop_Mutation_p.*360R|TMEM143_uc010xzo.1_Nonstop_Mutation_p.*250R	NM_018273	NP_060743	Q96AN5	TM143_HUMAN	transmembrane protein 143	460						integral to membrane|mitochondrion					0		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000149)|all cancers(93;0.000198)|Epithelial(262;0.0151)|GBM - Glioblastoma multiforme(486;0.0157)		GGTTCTACTCAGGAGATGTTA	0.562													7	22	---	---	---	---	PASS	G	48836478	G	G	48836478	4	3	43	1	0	0	0	0	0	0	0	0	16054	201	7	5	5	5	TMEM143	19	48836478	Nonstop_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	30445	48836478	10292505	417	17038										
GRIN2D	2906	broad.mit.edu	37	chr19	48908114	48908114	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgaccactcgtgcccctggcCaccgggccttcctgtcctac	9	19	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:48908114C>A	uc002pjc.3	+	3	677	c.589C>A	c.(589-591)CAC>AAC	p.H197N		NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	197	Extracellular (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		all_epithelial(76;1.11e-06)|all_lung(116;5.79e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		all cancers(93;0.00014)|OV - Ovarian serous cystadenocarcinoma(262;0.000233)|Epithelial(262;0.0112)|GBM - Glioblastoma multiforme(486;0.0161)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	TGCCCCTGGCCACCGGGCCTT	0.642													47	121	---	---	---	---	PASS	A	48908114	A	A	48908114	3	1	43	1	0	0	0	0	1	0	0	0	6782	594	21	3	595	3	GRIN2D	19	48908114	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	71636	48908114	10220869	418	17039										
SLC6A16	28968	broad.mit.edu	37	chr19	49797732	49797732	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttgtagatggaggttgggttGtaaagcaggttgacaggggg	19	2	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:49797732G>T	uc002pmz.2	-	8	1542	c.1308C>A	c.(1306-1308)TAC>TAA	p.Y436*	SLC6A16_uc002pna.2_Nonsense_Mutation_p.Y436*	NM_014037	NP_054756	Q9GZN6	S6A16_HUMAN	solute carrier family 6, member 16	436	Extracellular (Potential).					integral to membrane|intracellular	neurotransmitter:sodium symporter activity			skin(2)|ovary(1)|kidney(1)	4		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00099)|GBM - Glioblastoma multiforme(486;0.0336)		AGGTTGGGTTGTAAAGCAGGT	0.498													15	41	---	---	---	---	PASS	T	49797732	T	T	49797732	4	4	43	1	0	0	0	0	0	1	0	0	14679	1372	48	3	922	3	SLC6A16	19	49797732	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	889618	49797732	9331251	419	17040										
LILRB5	10990	broad.mit.edu	37	chr19	54754789	54754789	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	catcctggggggcttcagatGcagcagcctgcagcggggga	17	11	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:54754789G>C	uc002qex.2	-	13	1745	c.1634C>G	c.(1633-1635)GCA>GGA	p.A545G	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.H616D|LILRB5_uc002qey.2_Missense_Mutation_p.A546G|LILRB5_uc002qez.2_Missense_Mutation_p.A446G|LILRB5_uc002qfa.1_3'UTR	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	545	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GGCTTCAGATGCAGCAGCCTG	0.622													10	26	---	---	---	---	PASS	C	54754789	C	C	54754789	3	2	43	1	0	0	0	0	1	0	0	0	8794	1319	46	4	142	4	LILRB5	19	54754789	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	4957057	54754789	4374194	420	17041										
LILRB2	10288	broad.mit.edu	37	chr19	54780734	54780734	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggaggaggaggagcagtagGacgacggccaccaagatgcc	17	9	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:54780734G>T	uc002qfb.2	-	10	1676	c.1410C>A	c.(1408-1410)GTC>GTA	p.V470V	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Silent_p.V470V|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Silent_p.V469V|LILRB2_uc010yet.1_Silent_p.V354V	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	470	Helical; (Potential).				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		ggagcagtaggaCGACGGCCA	0.428													11	54	---	---	---	---	PASS	T	54780734	T	T	54780734	2	4	43	1	0	0	0	0	0	0	0	1	8791	1161	41	2		2	LILRB2	19	54780734	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	25945	54780734	4348249	421	17042										
LILRB4	11006	broad.mit.edu	37	chr19	55175367	55175367	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gggacagacagaacccactgGagcccaagaacaaggccaga	12	12	0	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:55175367G>T	uc002qgp.2	+	3	588	c.226G>T	c.(226-228)GAG>TAG	p.E76*	LILRB4_uc002qgo.1_Nonsense_Mutation_p.E117*|LILRB4_uc002qgq.2_Nonsense_Mutation_p.E76*|LILRB4_uc010ers.1_5'UTR|LILRB4_uc002qgr.2_Nonsense_Mutation_p.E117*|LILRB4_uc010ert.2_Nonsense_Mutation_p.E117*|LILRB4_uc010eru.2_Nonsense_Mutation_p.E105*	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	76	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane|plasma membrane	antigen binding|receptor activity			ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)		GAACCCACTGGAGCCCAAGAA	0.572													45	127	---	---	---	---	PASS	T	55175367	T	T	55175367	4	4	43	1	0	0	0	0	0	1	0	0	8793	1175	41	2	236	2	LILRB4	19	55175367	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	394633	55175367	3953616	422	17043										
KIR3DL1	3811	broad.mit.edu	37	chr19	55329906	55329906	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gaagacagaatccacattccCatcttccatggcagaatatt	6	11	1	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:55329906C>A	uc002qhk.3	+	3	270	c.207C>A	c.(205-207)CCC>CCA	p.P69P	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_Silent_p.P11P|KIR3DL1_uc010esf.2_Intron|KIR3DL1_uc010yfo.1_Silent_p.P11P|KIR3DL1_uc002qhl.3_Silent_p.P69P	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	69	Extracellular (Potential).|Ig-like C2-type 1.				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity	p.P69S(1)		ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		TCCACATTCCCATCTTCCATG	0.502													6	3	---	---	---	---	PASS	A	55329906	A	A	55329906	2	1	43	1	0	0	0	0	0	0	0	1	8320	581	21	3		3	KIR3DL1	19	55329906	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	154539	55329906	3799077	423	17044										
ZNF667	63934	broad.mit.edu	37	chr19	56952734	56952734	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agtatgacttctttcatgtaGaataagagatgtgcgctgac	10	6	2	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:56952734G>A	uc002qnd.2	-	5	1792	c.1630C>T	c.(1630-1632)CTA>TTA	p.L544L	ZNF667_uc010etl.2_Silent_p.L326L|ZNF667_uc002qne.2_Silent_p.L544L|ZNF667_uc010etm.2_Silent_p.L487L	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	544	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		CTTTCATGTAGAATAAGAGAT	0.433													34	51	---	---	---	---	PASS	A	56952734	A	A	56952734	2	1	43	1	0	0	0	0	0	0	0	1	18071	933	33	2		2	ZNF667	19	56952734	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	1622828	56952734	2176249	424	17045										
PEG3	5178	broad.mit.edu	37	chr19	57328879	57328879	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tttttccattatcactccgtGggaagattcatcttcacaaa	5	10	4	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:57328879G>T	uc002qnu.2	-	7	1282	c.931C>A	c.(931-933)CAC>AAC	p.H311N	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.H282N|PEG3_uc002qnv.2_Missense_Mutation_p.H311N|PEG3_uc002qnw.2_Missense_Mutation_p.H187N|PEG3_uc002qnx.2_Missense_Mutation_p.H185N|PEG3_uc010etr.2_Missense_Mutation_p.H311N	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	311				SH -> PP (in Ref. 2; BAB85588).	apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		ATCACTCCGTGGGAAGATTCA	0.463													25	42	---	---	---	---	PASS	T	57328879	T	T	57328879	3	4	43	1	0	0	0	0	1	0	0	0	11720	1348	47	3	3839	3	PEG3	19	57328879	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	376145	57328879	1800104	425	17046										
ZNF548	147694	broad.mit.edu	37	chr19	57910055	57910055	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gagaaaatctttccagagggGatgattggataccttcattt	10	6	2	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr19:57910055G>C	uc002qom.2	+	3	650	c.400G>C	c.(400-402)GAT>CAT	p.D134H	ZNF547_uc002qpm.3_Intron|ZNF548_uc002qon.2_Missense_Mutation_p.D137H	NM_152909	NP_690873	Q8NEK5	ZN548_HUMAN	zinc finger protein 548	134					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TTCCAGAGGGGATGATTGGAT	0.458													19	50	---	---	---	---	PASS	C	57910055	C	C	57910055	3	2	43	1	0	0	0	0	1	0	0	0	17977	1174	41	2	450	2	ZNF548	19	57910055	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	581176	57910055	1218928	426	17047										
ZCCHC3	85364	broad.mit.edu	37	chr20	279139	279139	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tacaaatgcgagatcgagctGcgccagggggagggcggggt	19	8	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:279139G>T	uc002wdf.2	+	2	933	c.909G>T	c.(907-909)CTG>CTT	p.L303L	ZCCHC3_uc002wdg.2_RNA	NM_033089	NP_149080	Q9NUD5	ZCHC3_HUMAN	zinc finger, CCHC domain containing 3	304							nucleic acid binding|zinc ion binding				0		all_cancers(10;0.000209)|Lung NSC(37;0.0417)|all_lung(30;0.0713)|all_epithelial(17;0.0748)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.149)			AGATCGAGCTGCGCCAGGGGG	0.637													16	39	---	---	---	---	PASS	T	279139	T	T	279139	2	4	43	1	0	0	0	0	0	0	0	1	17586	1306	46	3		3	ZCCHC3	20	279139	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08		279139	62746381	427	17048										
PLCB1	23236	broad.mit.edu	37	chr20	8609072	8609072	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtggctttccaagaagaagtGgccaaggtatggtggatgga	16	5	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:8609072G>T	uc002wnb.2	+	4	381	c.378G>T	c.(376-378)GTG>GTT	p.V126V	PLCB1_uc010zrb.1_Silent_p.V25V|PLCB1_uc010gbv.1_Silent_p.V126V|PLCB1_uc002wmz.1_Silent_p.V126V|PLCB1_uc002wna.2_Silent_p.V126V|PLCB1_uc002wnc.1_Silent_p.V25V	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	126					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						AAGAAGAAGTGGCCAAGGTAT	0.458													9	47	---	---	---	---	PASS	T	8609072	T	T	8609072	2	4	43	1	0	0	0	0	0	0	0	1	12027	1335	47	3		3	PLCB1	20	8609072	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	8329933	8609072	54416448	428	17049										
BFSP1	631	broad.mit.edu	37	chr20	17489584	17489584	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caggtgggagagcacctcccGgccctcctccagctgactcc	11	18	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:17489584G>A	uc002wpo.2	-	5	724	c.685C>T	c.(685-687)CGG>TGG	p.R229W	BFSP1_uc002wpp.2_Missense_Mutation_p.R104W|BFSP1_uc010zrn.1_Missense_Mutation_p.R90W|BFSP1_uc010zro.1_Missense_Mutation_p.R90W	NM_001195	NP_001186	Q12934	BFSP1_HUMAN	filensin isoform 1	229	Rod.|Coil 2.					cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens			central_nervous_system(1)	1						AGCACCTCCCGGCCCTCCTCC	0.642													3	11	---	---	---	---	PASS	A	17489584	A	A	17489584	3	1	43	1	0	0	0	0	1	0	0	0	1415	1115	39	1	1328	1	BFSP1	20	17489584	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	8880512	17489584	45535936	429	17050										
ENTPD6	955	broad.mit.edu	37	chr20	25194014	25194014	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tggcttacgcctgttacctgGagaaaaggcccagaagttac	11	10	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:25194014G>T	uc002wuj.2	+	5	749	c.569G>T	c.(568-570)GGA>GTA	p.G190V	ENTPD6_uc010zsy.1_Missense_Mutation_p.G190V|ENTPD6_uc010gdj.1_Missense_Mutation_p.G162V|ENTPD6_uc010zsz.1_Intron|ENTPD6_uc002wum.2_Missense_Mutation_p.G173V|ENTPD6_uc010zta.1_Missense_Mutation_p.G190V|ENTPD6_uc002wun.2_Missense_Mutation_p.G190V|ENTPD6_uc002wuk.2_Missense_Mutation_p.G189V|ENTPD6_uc002wul.2_Missense_Mutation_p.G189V|ENTPD6_uc010ztb.1_Missense_Mutation_p.G162V|ENTPD6_uc010ztc.1_Missense_Mutation_p.G162V|ENTPD6_uc002wuo.2_5'UTR|ENTPD6_uc010ztd.1_5'UTR	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	190	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						CTGTTACCTGGAGAAAAGGCC	0.552													19	44	---	---	---	---	PASS	T	25194014	T	T	25194014	3	4	43	1	0	0	0	0	1	0	0	0	5143	1174	41	2	590	2	ENTPD6	20	25194014	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	7704430	25194014	37831506	430	17051										
C20orf186	149954	broad.mit.edu	37	chr20	31671639	31671639	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gggggtgtcctgggcgtgctCggcgagggtggcatcctcag	20	10	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:31671639C>A	uc010zue.1	+	3	651	c.636C>A	c.(634-636)CTC>CTA	p.L212L		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	212	Gly-rich.					cytoplasm|extracellular region	lipid binding				0						TGGGCGTGCTCGGCGAGGGTG	0.637													3	31	---	---	---	---	PASS	A	31671639	A	A	31671639	2	1	43	1	0	0	0	0	0	0	0	1	2098	871	31	2		2	C20orf186	20	31671639	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	6477625	31671639	31353881	431	17052										
RALY	22913	broad.mit.edu	37	chr20	32660040	32660040	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gtgtggccggctgttctgtgCacaagggctatgcctttgtt	14	9	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:32660040C>A	uc002xab.2	+	3	458	c.160C>A	c.(160-162)CAC>AAC	p.H54N	RALY_uc010zui.1_Missense_Mutation_p.H54N|RALY_uc002xac.2_Missense_Mutation_p.H54N|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Missense_Mutation_p.H54N	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	54	RRM.					catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1						CTGTTCTGTGCACAAGGGCTA	0.562													21	46	---	---	---	---	PASS	A	32660040	A	A	32660040	3	1	43	1	0	0	0	0	1	0	0	0	13019	710	25	3	162	3	RALY	20	32660040	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	988401	32660040	30365480	432	17053										
NCOA6	23054	broad.mit.edu	37	chr20	33338098	33338098	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tccttgttgctggaccatctGgccctgggagggcacgattt	13	11	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:33338098G>T	uc002xav.2	-	10	4471	c.1900C>A	c.(1900-1902)CAG>AAG	p.Q634K	NCOA6_uc002xaw.2_Missense_Mutation_p.Q634K	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	634	TBP/GTF2A-binding region.|NCOA1-binding region.|Gln-rich.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						TGGACCATCTGGCCCTGGGAG	0.587													18	53	---	---	---	---	PASS	T	33338098	T	T	33338098	3	4	43	1	0	0	0	0	1	0	0	0	10233	1357	47	3	4319	3	NCOA6	20	33338098	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	678058	33338098	29687422	433	17054										
CEP250	11190	broad.mit.edu	37	chr20	34053864	34053864	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tttacccctccccagtgcagGtgtgagagtctagcagaggt	12	11	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:34053864G>T	uc002xcm.2	+	8	998	c.327G>T	c.(325-327)AGG>AGT	p.R109S	CEP250_uc010zve.1_5'UTR|CEP250_uc010gfe.1_RNA|CEP250_uc010zvd.1_RNA|CEP250_uc002xco.2_5'Flank	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	109	Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			CCCAGTGCAGGTGTGAGAGTC	0.488													14	60	---	---	---	---	PASS	T	34053864	T	T	34053864	3	4	43	1	0	0	0	0	1	0	0	0	3252	1275	44	3	341	3	CEP250	20	34053864	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	715766	34053864	28971656	434	17055										
EMILIN3	90187	broad.mit.edu	37	chr20	39991632	39991632	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggtaccatatgtttgagccaGgcgctggacatcaccctcca	10	13	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:39991632G>T	uc002xjy.1	-	4	801	c.577C>A	c.(577-579)CTG>ATG	p.L193M		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	193						proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				GTTTGAGCCAGGCGCTGGACA	0.627													6	20	---	---	---	---	PASS	T	39991632	T	T	39991632	3	4	43	1	0	0	0	0	1	0	0	0	5095	991	35	3	1727	3	EMILIN3	20	39991632	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	5937768	39991632	23033888	435	17056										
PTPRT	11122	broad.mit.edu	37	chr20	40944489	40944489	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggctgggtgacaggcaggttGgcaggcttcaactcagcagc	16	10	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:40944489G>T	uc002xkg.2	-	12	2197	c.2013C>A	c.(2011-2013)GCC>GCA	p.A671A	PTPRT_uc010ggj.2_Silent_p.A671A	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	671	Extracellular (Potential).|Fibronectin type-III 4.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CAGGCAGGTTGGCAGGCTTCA	0.512													22	56	---	---	---	---	PASS	T	40944489	T	T	40944489	2	4	43	1	0	0	0	0	0	0	0	1	12812	1335	47	3		3	PTPRT	20	40944489	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	952857	40944489	22081031	436	17057										
HNF4A	3172	broad.mit.edu	37	chr20	43030116	43030116	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgagaatgtgcaggtgttgaCgatgggcaatggtaggtggg	19	3	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:43030116C>A	uc002xma.2	+	1	193	c.104C>A	c.(103-105)ACG>AAG	p.T35K	HNF4A_uc010zwo.1_Intron|HNF4A_uc002xlt.2_Intron|HNF4A_uc002xlu.2_Intron|HNF4A_uc002xlv.2_Intron|uc002xlw.1_Intron|HNF4A_uc002xly.2_Missense_Mutation_p.T35K|HNF4A_uc002xlz.2_Missense_Mutation_p.T35K|HNF4A_uc010ggq.2_5'UTR	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	35					blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			CAGGTGTTGACGATGGGCAAT	0.587													15	28	---	---	---	---	PASS	A	43030116	A	A	43030116	3	1	43	1	0	0	0	0	1	0	0	0	7253	536	19	1	159	1	HNF4A	20	43030116	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2085627	43030116	19995404	437	17058										
ZNF335	63925	broad.mit.edu	37	chr20	44594330	44594330	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccggccaggtctccttcgggGccttggggtactgggggtgg	19	11	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:44594330G>A	uc002xqw.2	-	7	1162	c.1039C>T	c.(1039-1041)CCC>TCC	p.P347S	ZNF335_uc010zxk.1_Missense_Mutation_p.P192S|ZNF335_uc002xqx.1_Missense_Mutation_p.P315S	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	347					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				CTCCTTCGGGGCCTTGGGGTA	0.662													12	24	---	---	---	---	PASS	A	44594330	A	A	44594330	3	1	43	1	0	0	0	0	1	0	0	0	17849	1203	42	3	3077	3	ZNF335	20	44594330	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	1564214	44594330	18431190	438	17059										
PREX1	57580	broad.mit.edu	37	chr20	47248919	47248919	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggagaaggcagcccctccacGttctccagcactgggagggg	15	13	1	1	rs41283546		TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:47248919G>A	uc002xtw.1	-	35	4445	c.4422C>T	c.(4420-4422)AAC>AAT	p.N1474N	PREX1_uc002xtv.1_Silent_p.N771N	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1474					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GCCCCTCCACGTTCTCCAGCA	0.667													13	87	---	---	---	---	PASS	A	47248919	A	A	47248919	2	1	43	1	0	0	0	0	0	0	0	1	12476	1136	40	1		1	PREX1	20	47248919	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	2654589	47248919	15776601	439	17060										
ZNFX1	57169	broad.mit.edu	37	chr20	47863852	47863852	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttcatcaggttgttggccgtGtcagaccaggcagcatgctg	13	10	3	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:47863852G>T	uc002xui.2	-	14	5956	c.5709C>A	c.(5707-5709)GAC>GAA	p.D1903E		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	1903							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TGTTGGCCGTGTCAGACCAGG	0.517													26	39	---	---	---	---	PASS	T	47863852	T	T	47863852	3	4	43	1	0	0	0	0	1	0	0	0	18202	1368	48	3	51	3	ZNFX1	20	47863852	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	614933	47863852	15161668	440	17061										
LAMA5	3911	broad.mit.edu	37	chr20	60885757	60885757	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tggctgctggccgggaggccGcccacaaagagggtgtgggg	20	10	0	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:60885757G>T	uc002ycq.2	-	75	10477	c.10410C>A	c.(10408-10410)GGC>GGA	p.G3470G		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3470	Laminin G-like 4.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCGGGAGGCCGCCCACAAAGA	0.711													3	14	---	---	---	---	PASS	T	60885757	T	T	60885757	2	4	43	1	0	0	0	0	0	0	0	1	8609	1074	38	1		1	LAMA5	20	60885757	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	13021905	60885757	2139763	441	17062										
COL9A3	1299	broad.mit.edu	37	chr20	61461872	61461872	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggacctccttccccagggcCagaagggcagcatgggagac	14	13	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:61461872C>A	uc002ydm.2	+	24	1222	c.1219C>A	c.(1219-1221)CAG>AAG	p.Q407K		NM_001853	NP_001844	Q14050	CO9A3_HUMAN	alpha 3 type IX collagen precursor	407	Triple-helical region 3 (COL3).				axon guidance	collagen type IX					0	Breast(26;5.68e-08)					TCCCCAGGGCCAGAAGGGCAG	0.706													4	8	---	---	---	---	PASS	A	61461872	A	A	61461872	3	1	43	1	0	0	0	0	1	0	0	0	3709	595	21	3	1313	3	COL9A3	20	61461872	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	576115	61461872	1563648	442	17063										
EEF1A2	1917	broad.mit.edu	37	chr20	62120333	62120333	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttcccggcaccatctccacgAtggccgcgtctccagacttc	8	18	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:62120333A>G	uc002yfd.1	-	6	1303	c.1202T>C	c.(1201-1203)ATC>ACC	p.I401T	EEF1A2_uc002yfe.1_Missense_Mutation_p.I401T|EEF1A2_uc010gkg.1_Intron	NM_001958	NP_001949	Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha	401						nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			CATCTCCACGATGGCCGCGTC	0.637													13	30	---	---	---	---	PASS	G	62120333	G	G	62120333	3	3	43	1	0	0	0	0	1	0	0	0	4924	333	12	5	197	5	EEF1A2	20	62120333	Missense_Mutation	SNP	A	TCGA-22-5472-01A-01D-1632-08	658461	62120333	905187	443	17064										
STMN3	50861	broad.mit.edu	37	chr20	62273640	62273640	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cgccagctgcttcagcacctGcgcctcctgcgtctgtgcgg	12	17	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr20:62273640G>T	uc002yfr.1	-	4	386	c.304C>A	c.(304-306)CAG>AAG	p.Q102K	STMN3_uc011abb.1_Missense_Mutation_p.Q102K	NM_015894	NP_056978	Q9NZ72	STMN3_HUMAN	SCG10-like-protein	102	Potential.				cytoplasmic microtubule organization|intracellular signal transduction|negative regulation of Rac protein signal transduction|neuron projection development|regulation of cytoskeleton organization|regulation of Rac GTPase activity	cytoplasm	protein domain specific binding				0	all_cancers(38;2.31e-11)|all_epithelial(29;7.76e-13)		Epithelial(9;1.9e-09)|all cancers(9;1.22e-08)|BRCA - Breast invasive adenocarcinoma(10;8.86e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.00559)			TTCAGCACCTGCGCCTCCTGC	0.736													4	6	---	---	---	---	PASS	T	62273640	T	T	62273640	3	4	43	1	0	0	0	0	1	0	0	0	15309	1328	46	3	246	3	STMN3	20	62273640	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	153307	62273640	751880	444	17065										
KRTAP13-2	337959	broad.mit.edu	37	chr21	31744167	31744167	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atctgacaccactggacccaCagcccactgagtagcagctc	8	16	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr21:31744167C>A	uc002ynz.3	-	1	391	c.365G>T	c.(364-366)TGT>TTT	p.C122F		NM_181621	NP_853652	Q52LG2	KR132_HUMAN	keratin associated protein 13-2	122						intermediate filament					0						ACTGGACCCACAGCCCACTGA	0.577													11	32	---	---	---	---	PASS	A	31744167	A	A	31744167	3	1	43	1	0	0	0	0	1	0	0	0	8523	478	17	3	166	3	KRTAP13-2	21	31744167	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08		31744167	16385728	445	17066										
KRTAP19-3	337970	broad.mit.edu	37	chr21	31864270	31864270	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccatagtagctgccgtagtaGctcatggtgtcaggggtagt	14	8	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr21:31864270G>T	uc002yog.1	-	1	6	c.6C>A	c.(4-6)AGC>AGA	p.S2R		NM_181609	NP_853640	Q7Z4W3	KR193_HUMAN	keratin associated protein 19-3	2						intermediate filament					0						TGCCGTAGTAGCTCATGGTGT	0.547													42	87	---	---	---	---	PASS	T	31864270	T	T	31864270	3	4	43	1	0	0	0	0	1	0	0	0	8530	962	34	3	243	3	KRTAP19-3	21	31864270	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	120103	31864270	16265625	446	17067										
MICAL3	57553	broad.mit.edu	37	chr22	18301125	18301125	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cccagtgtcttcatgttggaGgagctcccgtgcaggcccag	13	13	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr22:18301125G>A	uc002zng.3	-	26	4655	c.4302C>T	c.(4300-4302)TCC>TCT	p.S1434S	MICAL3_uc011agl.1_Silent_p.S1350S|MICAL3_uc010gre.1_5'Flank	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	1434	Pro-rich.					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		TCATGTTGGAGGAGCTCCCGT	0.711													11	33	---	---	---	---	PASS	A	18301125	A	A	18301125	2	1	43	1	0	0	0	0	0	0	0	1	9571	987	35	3		3	MICAL3	22	18301125	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08		18301125	33003441	447	17068										
PI4KA	5297	broad.mit.edu	37	chr22	21107265	21107265	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atgtggttgaagttcaccaaCaggaactgagcgtgccgctc	12	10	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr22:21107265C>A	uc002zsz.3	-	25	2970	c.2739G>T	c.(2737-2739)CTG>CTT	p.L913L		NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	913					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			AGTTCACCAACAGGAACTGAG	0.507													19	111	---	---	---	---	PASS	A	21107265	A	A	21107265	2	1	43	1	0	0	0	0	0	0	0	1	11873	465	17	3		3	PI4KA	22	21107265	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	2806140	21107265	30197301	448	17069										
MYO18B	84700	broad.mit.edu	37	chr22	26164321	26164321	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aagactgtccccttcaagagGggcgtgaggaggggtgatgt	17	7	1	4			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr22:26164321G>C	uc003abz.1	+	4	688	c.438G>C	c.(436-438)AGG>AGC	p.R146S	MYO18B_uc003aca.1_Missense_Mutation_p.R27S|MYO18B_uc010guy.1_Missense_Mutation_p.R27S|MYO18B_uc010guz.1_Missense_Mutation_p.R27S|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_5'Flank	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	146						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CCTTCAAGAGGGGCGTGAGGA	0.597													6	12	---	---	---	---	PASS	C	26164321	C	C	26164321	3	2	43	1	0	0	0	0	1	0	0	0	10066	1223	43	4	448	4	MYO18B	22	26164321	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	5057056	26164321	25140245	449	17070										
THOC5	8563	broad.mit.edu	37	chr22	29938946	29938946	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcatctactttctgcttagcCtgaaaggaaaatacgatcag	8	9	3	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr22:29938946C>A	uc003afr.2	-	6	690	c.355_splice	c.e6-1	p.A119_splice	THOC5_uc003afs.2_Splice_Site_p.A119_splice|THOC5_uc003aft.2_Splice_Site_p.A119_splice|THOC5_uc003afu.2_Splice_Site_p.A119_splice|THOC5_uc010gvo.2_Splice_Site|THOC5_uc003afv.1_Splice_Site_p.A119_splice|THOC5_uc003afw.1_Intron	NM_001002878	NP_001002878	Q13769	THOC5_HUMAN	THO complex 5						intronless viral mRNA export from host nucleus|monocyte differentiation|mRNA processing|primitive hemopoiesis|RNA splicing	cytoplasm|intermediate filament cytoskeleton|THO complex part of transcription export complex	protein binding|RNA binding			breast(3)	3						TCTGCTTAGCCTGAAAGGAAA	0.458													5	13	---	---	---	---	PASS	A	29938946	A	A	29938946	5	1	43	1	0	0	0	0	0	0	1	0	15865	695	24	3	1761	3	THOC5	22	29938946	Splice_Site	SNP	C	TCGA-22-5472-01A-01D-1632-08	3774625	29938946	21365620	450	17071										
CCDC157	550631	broad.mit.edu	37	chr22	30772728	30772728	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	caccagccccaggagcggccCatgtagcctgtggcccaggg	14	16	0	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr22:30772728C>A	uc011aku.1	+	12	2913	c.2253C>A	c.(2251-2253)CCC>CCA	p.P751P	CCDC157_uc011akv.1_Silent_p.P751P|uc003aho.1_5'Flank	NM_001017437	NP_001017437	Q569K6	CC157_HUMAN	coiled-coil domain containing 157	751										central_nervous_system(1)	1						AGGAGCGGCCCATGTAGCCTG	0.632													6	13	---	---	---	---	PASS	A	30772728	A	A	30772728	2	1	43	1	0	0	0	0	0	0	0	1	2789	581	21	3		3	CCDC157	22	30772728	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	833782	30772728	20531838	451	17072										
TCN2	6948	broad.mit.edu	37	chr22	31008891	31008891	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	gcgaggatgacggtgactgcCagggcaagccttccatgggc	16	11	0	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr22:31008891C>A	uc003aip.1	+	3	447	c.289C>A	c.(289-291)CAG>AAG	p.Q97K	TCN2_uc003aiq.1_Missense_Mutation_p.Q93K|TCN2_uc003air.1_Missense_Mutation_p.Q97K	NM_000355	NP_000346	P20062	TCO2_HUMAN	transcobalamin II precursor	97					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular space	cobalamin binding			central_nervous_system(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CGGTGACTGCCAGGGCAAGCC	0.597													7	25	---	---	---	---	PASS	A	31008891	A	A	31008891	3	1	43	1	0	0	0	0	1	0	0	0	15704	595	21	3	299	3	TCN2	22	31008891	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	236163	31008891	20295675	452	17073										
RFPL2	10739	broad.mit.edu	37	chr22	32587046	32587046	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ggtggcagagaggcggcctcCatccctcaaactcacagtcc	11	15	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr22:32587046C>A	uc003amg.3	-	5	1786	c.850G>T	c.(850-852)GGA>TGA	p.G284*	RFPL2_uc003ame.3_Nonsense_Mutation_p.G223*|RFPL2_uc003amf.3_Nonsense_Mutation_p.G194*|RFPL2_uc003amh.3_Nonsense_Mutation_p.G194*	NM_001098527	NP_001091997	O75678	RFPL2_HUMAN	ret finger protein-like 2 isoform 2	284	B30.2/SPRY.						zinc ion binding			skin(1)	1						AGGCGGCCTCCATCCCTCAAA	0.552													17	44	---	---	---	---	PASS	A	32587046	A	A	32587046	4	1	43	1	0	0	0	0	0	1	0	0	13254	603	21	3	290	3	RFPL2	22	32587046	Nonsense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	1578155	32587046	18717520	453	17074										
TXN2	25828	broad.mit.edu	37	chr22	36876629	36876629	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ccccaatactcactgtgcgtGgaaatccacaaccactggtg	8	14	1	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr22:36876629G>T	uc003apk.1	-	2	333	c.256C>A	c.(256-258)CAC>AAC	p.H86N	TXN2_uc003apl.1_RNA	NM_012473	NP_036605	Q99757	THIOM_HUMAN	thioredoxin 2 precursor	86	Thioredoxin.				cell redox homeostasis|electron transport chain|glycerol ether metabolic process|transport	mitochondrion|nucleolus	electron carrier activity				0						CACTGTGCGTGGAAATCCACA	0.363													15	55	---	---	---	---	PASS	T	36876629	T	T	36876629	3	4	43	1	0	0	0	0	1	0	0	0	16788	1348	47	3	256	3	TXN2	22	36876629	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	4289583	36876629	14427937	454	17075										
TAB1	10454	broad.mit.edu	37	chr22	39824059	39824059	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	agtgtaccctgtgtctgtgcCatactccagcgcccagagca	10	14	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr22:39824059C>A	uc003axt.2	+	10	1227	c.1178C>A	c.(1177-1179)CCA>CAA	p.P393Q	TAB1_uc003axr.2_Missense_Mutation_p.P469Q|TAB1_uc011aok.1_Missense_Mutation_p.P227Q|TAB1_uc003axu.1_Missense_Mutation_p.P393Q	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	393					activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|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|endosome membrane	catalytic activity|protein binding			breast(1)	1						GTGTCTGTGCCATACTCCAGC	0.622													12	26	---	---	---	---	PASS	A	39824059	A	A	39824059	3	1	43	1	0	0	0	0	1	0	0	0	15492	594	21	3	1216	3	TAB1	22	39824059	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	2947430	39824059	11480507	455	17076										
RRP7A	27341	broad.mit.edu	37	chr22	42912112	42912112	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctctacagactggacgaggcCacaggtggacaggaggcggg	17	10	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr22:42912112C>A	uc003bcq.2	-	3	263	c.247G>T	c.(247-249)GGC>TGC	p.G83C	SERHL_uc011apm.1_Intron|RRP7A_uc003bcp.2_Missense_Mutation_p.G106C	NM_015703	NP_056518	Q9Y3A4	RRP7A_HUMAN	ribosomal RNA processing 7 homolog A	83	RRM.						nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2						TGGACGAGGCCACAGGTGGAC	0.612													7	12	---	---	---	---	PASS	A	42912112	A	A	42912112	3	1	43	1	0	0	0	0	1	0	0	0	13689	594	21	3	615	3	RRP7A	22	42912112	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	3088053	42912112	8392454	456	17077										
PLXNB2	23654	broad.mit.edu	37	chr22	50720445	50720445	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttgtaggcctctggctcctcAggcacagccggggacaggaa	14	12	2	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chr22:50720445A>C	uc003bkv.3	-	20	3289	c.3183T>G	c.(3181-3183)CCT>CCG	p.P1061P	PLXNB2_uc003bkt.1_5'UTR|PLXNB2_uc003bku.1_Silent_p.P46P	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1061	IPT/TIG 3.|Extracellular (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CTGGCTCCTCAGGCACAGCCG	0.642													7	24	---	---	---	---	PASS	C	50720445	C	C	50720445	2	2	43	1	0	0	0	0	0	0	0	1	12124	175	7	5		5	PLXNB2	22	50720445	Silent	SNP	A	TCGA-22-5472-01A-01D-1632-08	7808333	50720445	584121	457	17078										
STS	412	broad.mit.edu	37	chrX	7177396	7177396	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atttgtcttctcagggaaatGgcaccttgggatgagctgtc	12	8	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chrX:7177396G>T	uc004cry.3	+	5	649	c.404G>T	c.(403-405)TGG>TTG	p.W135L		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	135	Lumenal.				female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)	TCAGGGAAATGGCACCTTGGG	0.453									Ichthyosis				19	10	---	---	---	---	PASS	T	7177396	T	T	7177396	3	4	43	1	0	0	0	0	1	0	0	0	15331	1357	47	3	422	3	STS	23	7177396	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08		7177396	148093164	458	17079										
FANCB	2187	broad.mit.edu	37	chrX	14861742	14861742	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tgatttcaactgaacctcagCtactttcaaagttatttctc	4	10	4	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chrX:14861742C>A	uc004cwg.1	-	10	2795	c.2527G>T	c.(2527-2529)GCT>TCT	p.A843S	FANCB_uc004cwh.1_Missense_Mutation_p.A843S	NM_001018113	NP_001018123	Q8NB91	FANCB_HUMAN	Fanconi anemia complementation group B	843					DNA repair	nucleoplasm				lung(1)	1	Hepatocellular(33;0.183)					TGAACCTCAGCTACTTTCAAA	0.313								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				49	22	---	---	---	---	PASS	A	14861742	A	A	14861742	3	1	43	1	0	0	0	0	1	0	0	0	5663	797	28	3	56	3	FANCB	23	14861742	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	7684346	14861742	140408818	459	17080										
IL1RAPL1	11141	broad.mit.edu	37	chrX	28807481	28807481	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	atgaaagctccgattccacaCttgattctcttatacgctac	5	12	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chrX:28807481C>A	uc004dby.2	+	2	529	c.21C>A	c.(19-21)CAC>CAA	p.H7Q		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	7					innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						CGATTCCACACTTGATTCTCT	0.353													24	14	---	---	---	---	PASS	A	28807481	A	A	28807481	3	1	43	1	0	0	0	0	1	0	0	0	7661	564	20	3	23	3	IL1RAPL1	23	28807481	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	13945739	28807481	126463079	460	17081										
VSIG4	11326	broad.mit.edu	37	chrX	65247899	65247899	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tagcaaaactcacctttcaaGgggtatgtcatggttgtagg	11	7	3	0			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chrX:65247899G>T	uc004dwh.2	-	4	877	c.750C>A	c.(748-750)CCC>CCA	p.P250P	VSIG4_uc004dwi.2_Silent_p.P156P|VSIG4_uc010nkq.1_Silent_p.P250P|VSIG4_uc004dwj.2_Silent_p.P250P|VSIG4_uc011moy.1_Silent_p.P156P|VSIG4_uc004dwk.2_Silent_p.P250P|VSIG4_uc004dwl.2_Silent_p.P146P	NM_007268	NP_009199	Q9Y279	VSIG4_HUMAN	V-set and immunoglobulin domain containing 4	250	Extracellular (Potential).				complement activation, alternative pathway	integral to membrane	protein binding				0						CACCTTTCAAGGGGTATGTCA	0.463													15	12	---	---	---	---	PASS	T	65247899	T	T	65247899	2	4	43	1	0	0	0	0	0	0	0	1	17222	987	35	3		3	VSIG4	23	65247899	Silent	SNP	G	TCGA-22-5472-01A-01D-1632-08	36440418	65247899	90022661	461	17082										
ODZ1	10178	broad.mit.edu	37	chrX	123654528	123654528	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	tcatgcctacaggaatcgttGaatgtgtcagaaggatccgt	11	8	2	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chrX:123654528G>T	uc004euj.2	-	18	3204	c.3140C>A	c.(3139-3141)TCA>TAA	p.S1047*	ODZ1_uc011muj.1_Nonsense_Mutation_p.S1046*|ODZ1_uc010nqy.2_Nonsense_Mutation_p.S1047*	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1047	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						AGGAATCGTTGAATGTGTCAG	0.502													42	12	---	---	---	---	PASS	T	123654528	T	T	123654528	4	4	43	1	0	0	0	0	0	1	0	0	10834	1294	45	2	5118	2	ODZ1	23	123654528	Nonsense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	58406629	123654528	31616032	462	17083										
BCORL1	63035	broad.mit.edu	37	chrX	129139248	129139248	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ctacagcggcgtgcacaactGgaccagttctgaccggattc	11	13	1	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chrX:129139248G>T	uc004evb.1	+	2	155	c.41G>T	c.(40-42)TGG>TTG	p.W14L		NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	14					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GTGCACAACTGGACCAGTTCT	0.592													43	32	---	---	---	---	PASS	T	129139248	T	T	129139248	3	4	43	1	0	0	0	0	1	0	0	0	1387	1357	47	3	43	3	BCORL1	23	129139248	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	5484720	129139248	26131312	463	17084										
MAGEC2	51438	broad.mit.edu	37	chrX	141291533	141291533	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	aggactactgggaatgctctCggtaagatttggtatcacac	11	8	2	1			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chrX:141291533C>T	uc004fbu.1	-	3	589	c.241G>A	c.(241-243)GAG>AAG	p.E81K		NM_016249	NP_057333	Q9UBF1	MAGC2_HUMAN	melanoma antigen family C, 2	81						cytoplasm|nucleus				breast(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GGAATGCTCTCGGTAAGATTT	0.388										HNSCC(46;0.14)			6	24	---	---	---	---	PASS	T	141291533	T	T	141291533	3	4	43	1	0	0	0	0	1	0	0	0	9181	893	31	2	884	2	MAGEC2	23	141291533	Missense_Mutation	SNP	C	TCGA-22-5472-01A-01D-1632-08	12152285	141291533	13979027	464	17085										
RPL10	6134	broad.mit.edu	37	chrX	153627841	153627841	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	cttttagatgccaagattcgCatttttgacctggggcggaa	11	8	0	3			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chrX:153627841C>A	uc004fkm.2	+	4	284	c.96C>A	c.(94-96)CGC>CGA	p.R32R	uc010nuv.1_5'Flank|RPL10_uc004fko.2_Silent_p.R32R|RPL10_uc004fkn.1_Silent_p.R32R|RPL10_uc004fkp.1_Silent_p.R32R|RPL10_uc004fkq.1_RNA|RPL10_uc004fkr.1_5'Flank|SNORA70_uc010nux.1_5'Flank	NM_006013	NP_006004	P27635	RL10_HUMAN	ribosomal protein L10	32					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|endoplasmic reticulum	structural constituent of ribosome				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCAAGATTCGCATTTTTGACC	0.527											OREG0019957	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	71	---	---	---	---	PASS	A	153627841	A	A	153627841	2	1	43	1	0	0	0	0	0	0	0	1	13554	697	25	3		3	RPL10	23	153627841	Silent	SNP	C	TCGA-22-5472-01A-01D-1632-08	12336308	153627841	1642719	465	17086										
GAB3	139716	broad.mit.edu	37	chrX	153940624	153940624	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0390455531453362	18	0.00839007199747942	1.9460750998216	3.23973038648461	1.19575503355705	0.437542137144354	0.801770950033723	9	ttggcgccgttcagacagatGgcttggcttaggggggcggg	19	8	1	2			TCGA-22-5472-01A-01D-1632-08	TCGA-22-5472-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	be780766-483f-42f5-b0d0-11d23a940156	fccb5ef4-79d7-46c5-9c4e-b060fe9dee96	g.chrX:153940624G>T	uc004fmj.1	-	4	994	c.946C>A	c.(946-948)CAT>AAT	p.H316N	GAB3_uc004fmk.1_Missense_Mutation_p.H317N|GAB3_uc010nve.1_Missense_Mutation_p.H317N|GAB3_uc004fml.1_Intron	NM_080612	NP_542179	Q8WWW8	GAB3_HUMAN	Gab3 protein isoform 2	316										ovary(1)	1	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TCAGACAGATGGCTTGGCTTA	0.498													36	26	---	---	---	---	PASS	T	153940624	T	T	153940624	3	4	43	1	0	0	0	0	1	0	0	0	6150	1348	47	3	842	3	GAB3	23	153940624	Missense_Mutation	SNP	G	TCGA-22-5472-01A-01D-1632-08	312783	153940624	1329936	466	17087										
CPSF3L	54973	broad.mit.edu	37	chr1	1250995	1250995	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttgatctccagctcatcatCtacctgtggaggacagggct	10	12	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:1250995C>G	uc001aee.1	-	5	491	c.433G>C	c.(433-435)GAT>CAT	p.D145H	CPSF3L_uc009vjy.1_RNA|CPSF3L_uc001aef.1_Missense_Mutation_p.D151H|CPSF3L_uc009vjz.1_Intron|CPSF3L_uc010nyj.1_Missense_Mutation_p.D116H|CPSF3L_uc001aeg.1_Missense_Mutation_p.D21H|CPSF3L_uc001aeh.1_Missense_Mutation_p.D44H|CPSF3L_uc001aei.1_Splice_Site_p.N47_splice|CPSF3L_uc001aej.1_Intron|CPSF3L_uc001aek.1_5'UTR	NM_017871	NP_060341	Q5TA45	INT11_HUMAN	cleavage and polyadenylation specific factor	145						Golgi apparatus|nucleus	hydrolase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(86;4.35e-21)|Colorectal(212;0.000166)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.00235)|BRCA - Breast invasive adenocarcinoma(365;0.00255)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0349)|Lung(427;0.201)		AGCTCATCATCTACCTGTGGA	0.642													23	52	---	---	---	---	PASS	G	1250995	G	G	1250995	3	3	44	1	0	0	0	0	1	0	0	0	3827	913	32	2	1421	2	CPSF3L	1	1250995	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08		1250995	247999626	1	17088										
TAS1R3	83756	broad.mit.edu	37	chr1	1267268	1267268	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcatcgggccccactcgtcaGagctcgccatggtcaccggc	11	17	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:1267268G>C	uc010nyk.1	+	2	442	c.442G>C	c.(442-444)GAG>CAG	p.E148Q		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	148	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)	Aspartame(DB00168)	CCACTCGTCAGAGCTCGCCAT	0.667													19	45	---	---	---	---	PASS	C	1267268	C	C	1267268	3	2	44	1	0	0	0	0	1	0	0	0	15561	943	33	2	448	2	TAS1R3	1	1267268	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	16273	1267268	247983353	2	17089										
TAS1R3	83756	broad.mit.edu	37	chr1	1267812	1267812	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccaaggtgtgggtggccagcGaggcctggctgacctctgac	16	12	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:1267812G>A	uc010nyk.1	+	3	901	c.901G>A	c.(901-903)GAG>AAG	p.E301K		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	301	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)	Aspartame(DB00168)	GGTGGCCAGCGAGGCCTGGCT	0.672													12	14	---	---	---	---	PASS	A	1267812	A	A	1267812	3	1	44	1	0	0	0	0	1	0	0	0	15561	1059	37	2	911	2	TAS1R3	1	1267812	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	544	1267812	247982809	3	17090										
MEGF6	1953	broad.mit.edu	37	chr1	3410404	3410404	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggtgacagggtcacagggtgCccccccgtcacagtcacagc	13	15	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:3410404C>G	uc001akl.2	-	34	4545	c.4318G>C	c.(4318-4320)GCA>CCA	p.A1440P	MEGF6_uc001akk.2_Intron	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	1440						extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		TCACAGGGTGCCCCCCCGTCA	0.667													3	15	---	---	---	---	PASS	G	3410404	G	G	3410404	3	3	44	1	0	0	0	0	1	0	0	0	9462	739	26	4	323	4	MEGF6	1	3410404	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2142592	3410404	245840217	4	17091										
KIF1B	23095	broad.mit.edu	37	chr1	10425165	10425165	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctcttgtcttaggtatgcaGagaaggagaagaaaaatctt	10	6	3	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:10425165G>A	uc001aqx.3	+	42	4576	c.4374G>A	c.(4372-4374)CAG>CAA	p.Q1458Q	KIF1B_uc001aqw.3_Silent_p.Q1412Q|KIF1B_uc001aqy.2_Silent_p.Q1432Q|KIF1B_uc001aqz.2_Silent_p.Q1458Q|KIF1B_uc001ara.2_Silent_p.Q1418Q|KIF1B_uc001arb.2_Silent_p.Q1444Q	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1458					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		TAGGTATGCAGAGAAGGAGAA	0.383													19	47	---	---	---	---	PASS	A	10425165	A	A	10425165	2	1	44	1	0	0	0	0	0	0	0	1	8284	933	33	2		2	KIF1B	1	10425165	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	7014761	10425165	238825456	5	17092										
C1orf127	148345	broad.mit.edu	37	chr1	11008317	11008317	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaccaggccctgtctggcgTggcctctccacctccgttcc	10	18	2	1	rs150211489		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:11008317T>C	uc010oao.1	-	8	1433	c.1428A>G	c.(1426-1428)CCA>CCG	p.P476P	C1orf127_uc001arr.1_Silent_p.P458P|C1orf127_uc001ars.1_Silent_p.P450P	NM_173507	NP_775778	B7ZLG7	B7ZLG7_HUMAN	hypothetical protein LOC148345	476										ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;0.000226)|all_lung(284;0.000302)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.71e-07)|COAD - Colon adenocarcinoma(227;7.79e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000305)|Kidney(185;0.000785)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|READ - Rectum adenocarcinoma(331;0.0509)		CTGTCTGGCGTGGCCTCTCCA	0.662													38	87	---	---	---	---	PASS	C	11008317	C	C	11008317	2	2	44	1	0	0	0	0	0	0	0	1	1994	1683	59	5		5	C1orf127	1	11008317	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	583152	11008317	238242304	6	17093										
MTOR	2475	broad.mit.edu	37	chr1	11298641	11298641	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cactgttcaggaaatgatccGcacagtggcgaacaaattgg	11	9	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:11298641G>A	uc001asd.2	-	12	1941	c.1820C>T	c.(1819-1821)GCG>GTG	p.A607V		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	607					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GAAATGATCCGCACAGTGGCG	0.547													15	31	---	---	---	---	PASS	A	11298641	A	A	11298641	3	1	44	1	0	0	0	0	1	0	0	0	9954	1087	38	1	6017	1	MTOR	1	11298641	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	290324	11298641	237951980	7	17094										
VPS13D	55187	broad.mit.edu	37	chr1	12317132	12317132	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaggtggaaacccaaggtggCgatatctaagaagtaagggc	14	6	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:12317132C>T	uc001atv.2	+	9	1070	c.929C>T	c.(928-930)GCG>GTG	p.A310V	VPS13D_uc001atw.2_Missense_Mutation_p.A310V	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	310					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		CCCAAGGTGGCGATATCTAAG	0.443													18	58	---	---	---	---	PASS	T	12317132	T	T	12317132	3	4	44	1	0	0	0	0	1	0	0	0	17189	768	27	1	959	1	VPS13D	1	12317132	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1018491	12317132	236933489	8	17095										
ACTL8	81569	broad.mit.edu	37	chr1	18152640	18152640	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acacctatcagctcccagacGgctcccgcgtggagctgacc	10	17	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:18152640G>A	uc001bat.2	+	3	943	c.727G>A	c.(727-729)GGC>AGC	p.G243S		NM_030812	NP_110439	Q9H568	ACTL8_HUMAN	actin-like 8	243						cytoplasm|cytoskeleton				ovary(4)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00186)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;6.43e-06)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.00652)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)		GCTCCCAGACGGCTCCCGCGT	0.632											OREG0013157	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	61	---	---	---	---	PASS	A	18152640	A	A	18152640	3	1	44	1	0	0	0	0	1	0	0	0	202	1116	39	1	733	1	ACTL8	1	18152640	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5835508	18152640	231097981	9	17096										
TMCO4	255104	broad.mit.edu	37	chr1	20097876	20097876	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acaaacacatctgctccttcAcctcccaggccgctcgcaaa	5	18	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:20097876A>C	uc001bcn.2	-	5	521	c.279T>G	c.(277-279)GGT>GGG	p.G93G	TMCO4_uc001bcm.2_Silent_p.G93G|TMCO4_uc001bco.1_Silent_p.G93G|TMCO4_uc001bcp.1_Silent_p.G93G|TMCO4_uc009vpn.1_Silent_p.G93G|TMCO4_uc001bcq.1_Silent_p.G93G	NM_181719	NP_859070	Q5TGY1	TMCO4_HUMAN	transmembrane and coiled-coil domains 4	93						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00708)|COAD - Colon adenocarcinoma(152;2.28e-05)|BRCA - Breast invasive adenocarcinoma(304;5.8e-05)|Kidney(64;0.000367)|GBM - Glioblastoma multiforme(114;0.000377)|KIRC - Kidney renal clear cell carcinoma(64;0.00459)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0862)|Lung(427;0.223)		CTGCTCCTTCACCTCCCAGGC	0.547													7	103	---	---	---	---	PASS	C	20097876	C	C	20097876	2	2	44	1	0	0	0	0	0	0	0	1	15995	146	6	5		5	TMCO4	1	20097876	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	1945236	20097876	229152745	10	17097										
EPHA8	2046	broad.mit.edu	37	chr1	22924692	22924692	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	catggagaacggctctctggAcaccttcctgagggtgcgtg	14	11	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:22924692A>G	uc001bfx.1	+	12	2290	c.2165A>G	c.(2164-2166)GAC>GGC	p.D722G		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	722	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GGCTCTCTGGACACCTTCCTG	0.622													23	57	---	---	---	---	PASS	G	22924692	G	G	22924692	3	3	44	1	0	0	0	0	1	0	0	0	5173	275	10	5	2384	5	EPHA8	1	22924692	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	2826816	22924692	226325929	11	17098										
EPHB2	2048	broad.mit.edu	37	chr1	23240345	23240345	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctcataaggaaagcaatgaCtgttcttgcgggggataaaa	11	6	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:23240345C>T	uc009vqj.1	+	17	3295	c.3150C>T	c.(3148-3150)GAC>GAT	p.D1050D	EPHB2_uc001bge.2_3'UTR|EPHB2_uc001bgf.2_3'UTR|EPHB2_uc010odu.1_3'UTR	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	1050	Cytoplasmic (Potential).				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		AAAGCAATGACTGTTCTTGCG	0.438									Hereditary_Prostate_Cancer				4	14	---	---	---	---	PASS	T	23240345	T	T	23240345	2	4	44	1	0	0	0	0	0	0	0	1	5175	580	20	3		3	EPHB2	1	23240345	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	315653	23240345	226010276	12	17099										
IL28RA	163702	broad.mit.edu	37	chr1	24484323	24484323	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gacagaggaacaagtcattcAcggactctggtctgctgggc	13	10	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:24484323A>T	uc001bis.2	-	7	873	c.860T>A	c.(859-861)GTG>GAG	p.V287E	IL28RA_uc001bir.2_Intron|IL28RA_uc001bit.2_Silent_p.R243R|IL28RA_uc001biu.2_Missense_Mutation_p.V203E	NM_170743	NP_734464	Q8IU57	I28RA_HUMAN	interleukin 28 receptor, alpha isoform 1	287	Cytoplasmic (Potential).				cytokine-mediated signaling pathway|negative regulation of cell proliferation|regulation of defense response to virus by host	interleukin-28 receptor complex	protein binding|receptor activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00117)|all_lung(284;0.00151)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;3.21e-24)|Colorectal(126;6.61e-08)|COAD - Colon adenocarcinoma(152;3.56e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00918)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.185)		CAAGTCATTCACGGACTCTGG	0.537													48	127	---	---	---	---	PASS	T	24484323	T	T	24484323	3	4	44	1	0	0	0	0	1	0	0	0	7684	159	6	5	706	5	IL28RA	1	24484323	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1243978	24484323	224766298	13	17100										
TMEM57	55219	broad.mit.edu	37	chr1	25824875	25824875	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccccctgagccctgtttcccCccactactcttccaaatttg	4	19	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:25824875C>T	uc001bkk.2	+	11	2115	c.1913C>T	c.(1912-1914)CCC>CTC	p.P638L	TMEM57_uc009vru.2_Missense_Mutation_p.P411L|TMEM57_uc009vrv.2_Missense_Mutation_p.P280L	NM_018202	NP_060672	Q8N5G2	MACOI_HUMAN	transmembrane protein 57	638						axon|integral to membrane|neuron projection terminus|nuclear membrane|synapse part					0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00715)|all_lung(284;0.00989)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.201)		UCEC - Uterine corpus endometrioid carcinoma (279;0.042)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-26)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|GBM - Glioblastoma multiforme(114;0.0191)|READ - Rectum adenocarcinoma(331;0.0649)		CCTGTTTCCCCCCACTACTCT	0.537													38	108	---	---	---	---	PASS	T	25824875	T	T	25824875	3	4	44	1	0	0	0	0	1	0	0	0	16181	623	22	3	1955	3	TMEM57	1	25824875	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1340552	25824875	223425746	14	17101										
CCDC21	64793	broad.mit.edu	37	chr1	26603162	26603162	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcaccaggagttggccagttGccttcaagatctgcaggctg	13	11	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:26603162G>C	uc001bls.1	+	13	2170	c.2039G>C	c.(2038-2040)TGC>TCC	p.C680S	CCDC21_uc001blr.2_Missense_Mutation_p.C680S|CCDC21_uc010ofa.1_Missense_Mutation_p.C629S|CCDC21_uc001blt.1_Missense_Mutation_p.C112S	NM_022778	NP_073615	Q6P2H3	CEP85_HUMAN	coiled-coil domain containing 21	680						centrosome|nucleolus|spindle pole					0		all_cancers(24;7e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.6e-26)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;9.48e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00155)|GBM - Glioblastoma multiforme(114;0.00917)|READ - Rectum adenocarcinoma(331;0.0649)		TTGGCCAGTTGCCTTCAAGAT	0.607													16	30	---	---	---	---	PASS	C	26603162	C	C	26603162	3	2	44	1	0	0	0	0	1	0	0	0	2796	1319	46	4	2085	4	CCDC21	1	26603162	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	778287	26603162	222647459	15	17102										
MARCKSL1	65108	broad.mit.edu	37	chr1	32800483	32800483	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttctcttgaaggacaggccGctcaatttgaaaggcttctt	9	9	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:32800483G>T	uc001bvd.2	-	2	503	c.303C>A	c.(301-303)AGC>AGA	p.S101R		NM_023009	NP_075385	P49006	MRP_HUMAN	MARCKS-like 1	101						plasma membrane	calmodulin binding			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				AGGACAGGCCGCTCAATTTGA	0.577													26	63	---	---	---	---	PASS	T	32800483	T	T	32800483	3	4	44	1	0	0	0	0	1	0	0	0	9310	1078	38	1	288	1	MARCKSL1	1	32800483	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	6197321	32800483	216450138	16	17103										
CSMD2	114784	broad.mit.edu	37	chr1	34003178	34003178	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cggtcctctctcctcccacgGgacgggacaccaggatcccc	10	19	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:34003178G>T	uc001bxn.1	-	60	9260	c.9231C>A	c.(9229-9231)TCC>TCA	p.S3077S	CSMD2_uc001bxm.1_Silent_p.S3221S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3077	Extracellular (Potential).|Sushi 24.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TCCTCCCACGGGACGGGACAC	0.597													11	29	---	---	---	---	PASS	T	34003178	T	T	34003178	2	4	44	1	0	0	0	0	0	0	0	1	3945	1219	43	3		3	CSMD2	1	34003178	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1202695	34003178	215247443	17	17104										
EIF2C3	192669	broad.mit.edu	37	chr1	36474339	36474339	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacaatgagacggaaataccGtgtttgtaatgtaacaagga	10	5	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:36474339G>T	uc001bzp.2	+	7	1098	c.842G>T	c.(841-843)CGT>CTT	p.R281L	EIF2C3_uc001bzq.2_Missense_Mutation_p.R47L	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	281	PAZ.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CGGAAATACCGTGTTTGTAAT	0.428													34	63	---	---	---	---	PASS	T	36474339	T	T	36474339	3	4	44	1	0	0	0	0	1	0	0	0	5007	1145	40	1	868	1	EIF2C3	1	36474339	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2471161	36474339	212776282	18	17105										
ADPRHL2	54936	broad.mit.edu	37	chr1	36558756	36558756	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atctactgcttcctacgctgCatggagccagaccctgagat	9	13	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:36558756C>T	uc001bzt.2	+	6	914	c.861C>T	c.(859-861)TGC>TGT	p.C287C	ADPRHL2_uc001bzu.2_Silent_p.C133C	NM_017825	NP_060295	Q9NX46	ARHL2_HUMAN	ADP-ribosylhydrolase like 2	287						cytoplasm|nucleus	metal ion binding|poly(ADP-ribose) glycohydrolase activity			pancreas(1)	1		Myeloproliferative disorder(586;0.0393)				TCCTACGCTGCATGGAGCCAG	0.557													18	68	---	---	---	---	PASS	T	36558756	T	T	36558756	2	4	44	1	0	0	0	0	0	0	0	1	333	718	25	3		3	ADPRHL2	1	36558756	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	84417	36558756	212691865	19	17106										
INPP5B	3633	broad.mit.edu	37	chr1	38411480	38411480	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcgcacgagtcccaggaggcGgctctgccggctgtccccct	14	17	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:38411480G>A	uc001ccg.1	-	3	194	c.100C>T	c.(100-102)CGC>TGC	p.R34C	INPP5B_uc009vvk.1_5'UTR|INPP5B_uc001cch.2_5'UTR	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	34					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CCCAGGAGGCGGCTCTGCCGG	0.677													29	95	---	---	---	---	PASS	A	38411480	A	A	38411480	3	1	44	1	0	0	0	0	1	0	0	0	7755	1116	39	1	2729	1	INPP5B	1	38411480	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1852724	38411480	210839141	20	17107										
ZNF684	127396	broad.mit.edu	37	chr1	41007298	41007298	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caccaacaggatgtccaattAccaaaacaaaagtgatcctc	5	12	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:41007298A>G	uc001cft.1	+	4	405	c.154A>G	c.(154-156)ACC>GCC	p.T52A		NM_152373	NP_689586	Q5T5D7	ZN684_HUMAN	zinc finger protein 684	52	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	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;5.42e-18)			ATGTCCAATTACCAAAACAAA	0.493													7	17	---	---	---	---	PASS	G	41007298	G	G	41007298	3	3	44	1	0	0	0	0	1	0	0	0	18088	391	14	5	164	5	ZNF684	1	41007298	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	2595818	41007298	208243323	21	17108										
IPO13	9670	broad.mit.edu	37	chr1	44424465	44424465	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gttcacatcttggggcttctCtccaacctcttcaccacact	5	16	5	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:44424465C>T	uc001ckx.2	+	11	2727	c.1932C>T	c.(1930-1932)CTC>CTT	p.L644L		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	644	HEAT 11.				protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				TGGGGCTTCTCTCCAACCTCT	0.572													29	81	---	---	---	---	PASS	T	44424465	T	T	44424465	2	4	44	1	0	0	0	0	0	0	0	1	7794	900	32	2		2	IPO13	1	44424465	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	3417167	44424465	204826156	22	17109										
ZCCHC11	23318	broad.mit.edu	37	chr1	52926837	52926837	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctttcatagtatatcccaaaTactgcactctaggatcaata	4	10	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:52926837T>C	uc001ctx.2	-	19	3524	c.3290A>G	c.(3289-3291)TAT>TGT	p.Y1097C	ZCCHC11_uc001cty.2_Missense_Mutation_p.Y1097C|ZCCHC11_uc001ctz.2_Missense_Mutation_p.Y1097C|ZCCHC11_uc009vze.1_Missense_Mutation_p.Y1097C|ZCCHC11_uc009vzf.1_Missense_Mutation_p.Y856C|ZCCHC11_uc001cua.1_Missense_Mutation_p.Y14C	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	1097					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						ATATCCCAAATACTGCACTCT	0.289													37	96	---	---	---	---	PASS	C	52926837	C	C	52926837	3	2	44	1	0	0	0	0	1	0	0	0	17577	1406	49	5	1695	5	ZCCHC11	1	52926837	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	8502372	52926837	196323784	23	17110										
PARS2	25973	broad.mit.edu	37	chr1	55224731	55224731	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcagcaggcgccgccctcttCttggggcacagtggtgaaac	14	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:55224731C>T	uc001cxy.2	-	2	187	c.104G>A	c.(103-105)AGA>AAA	p.R35K		NM_152268	NP_689481	Q7L3T8	SYPM_HUMAN	prolyl-tRNA synthetase (mitochondrial)(putative)	35					prolyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|proline-tRNA ligase activity			ovary(2)	2					L-Proline(DB00172)	CCGCCCTCTTCTTGGGGCACA	0.562													12	28	---	---	---	---	PASS	T	55224731	T	T	55224731	3	4	44	1	0	0	0	0	1	0	0	0	11467	913	32	2	1327	2	PARS2	1	55224731	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2297894	55224731	194025890	24	17111										
LRRC7	57554	broad.mit.edu	37	chr1	70504217	70504217	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttccaaattagagacaaccCccactaccagcccattgcct	4	17	0	1	rs141934258		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:70504217C>A	uc001dep.2	+	19	2626	c.2596C>A	c.(2596-2598)CCC>ACC	p.P866T	LRRC7_uc009wbg.2_Missense_Mutation_p.P150T|LRRC7_uc001deq.2_Missense_Mutation_p.P107T	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	866						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						AGAGACAACCCCCACTACCAG	0.458													36	121	---	---	---	---	PASS	A	70504217	A	A	70504217	3	1	44	1	0	0	0	0	1	0	0	0	9020	623	22	3	2670	3	LRRC7	1	70504217	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	15279486	70504217	178746404	25	17112										
LRRC7	57554	broad.mit.edu	37	chr1	70504751	70504751	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaggatcagtggaagtgaaaGccgaaaagaggataccaccc	12	8	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:70504751G>C	uc001dep.2	+	19	3160	c.3130G>C	c.(3130-3132)GCC>CCC	p.A1044P	LRRC7_uc009wbg.2_Missense_Mutation_p.A328P|LRRC7_uc001deq.2_Missense_Mutation_p.A285P	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1044						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GGAAGTGAAAGCCGAAAAGAG	0.443													8	27	---	---	---	---	PASS	C	70504751	C	C	70504751	3	2	44	1	0	0	0	0	1	0	0	0	9020	971	34	4	3204	4	LRRC7	1	70504751	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	534	70504751	178745870	26	17113										
LRRIQ3	127255	broad.mit.edu	37	chr1	74507041	74507041	+	Missense_Mutation	SNP	C	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtcctctggtcaaaagagtgCgctcattatttaagttttga							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:74507041C>A	uc001dfy.3	-	7	1766	c.1574G>T	c.(1573-1575)CGC>CTC	p.R525L	LRRIQ3_uc001dfz.3_Intron	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	525										ovary(2)	2						CAAAAGAGTGCGCTCATTATT	0.358													35	138	---	---	---	---	PASS	A	74507041	A	A	74507041	3	1	44	1	0	0	0	0	1	0	0	0	9030	768	27	1	308	1	LRRIQ3	1	74507041	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4002290	74507041	174743580	27	17114	402	2								
LRRIQ3	127255	broad.mit.edu	37	chr1	74507042	74507042	+	Missense_Mutation	SNP	G	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcctctggtcaaaagagtgcGctcattatttaagttttgaa					rs78197692	byFrequency	TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:74507042G>A	uc001dfy.3	-	7	1765	c.1573C>T	c.(1573-1575)CGC>TGC	p.R525C	LRRIQ3_uc001dfz.3_Intron	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	525										ovary(2)	2						AAAAGAGTGCGCTCATTATTT	0.363													35	142	---	---	---	---	PASS	A	74507042	A	A	74507042	3	1	44	1	0	0	0	0	1	0	0	0	9030	1087	38	1	309	1	LRRIQ3	1	74507042	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1	74507042	174743579	28	17115	402	2								
FPGT	8790	broad.mit.edu	37	chr1	74670223	74670223	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgaatcctggaattctggtTacctgtgcagatgatattga	10	6	1	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:74670223T>A	uc001dgb.1	+	4	529	c.492T>A	c.(490-492)GTT>GTA	p.V164V	TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron|FPGT_uc010oqt.1_Intron|FPGT_uc010oqu.1_Intron|FPGT_uc010oqv.1_Intron	NM_003838	NP_003829	O14772	FPGT_HUMAN	fucose-1-phosphate guanyltransferase	164					fucose metabolic process	cytoplasm	fucose-1-phosphate guanylyltransferase activity|GTP binding			skin(1)	1						GAATTCTGGTTACCTGTGCAG	0.358													39	98	---	---	---	---	PASS	A	74670223	A	A	74670223	2	1	44	1	0	0	0	0	0	0	0	1	6037	1741	61	5		5	FPGT	1	74670223	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	163181	74670223	174580398	29	17116										
ELTD1	64123	broad.mit.edu	37	chr1	79385867	79385867	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gagattaggatgcctacataCcttattagtatttgtattga	8	5	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:79385867C>A	uc001diq.3	-	10	1617	c.1461_splice	c.e10+1	p.K487_splice		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain						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)		TGCCTACATACCTTATTAGTA	0.318													15	42	---	---	---	---	PASS	A	79385867	A	A	79385867	5	1	44	1	0	0	0	0	0	0	1	0	5084	521	18	3	634	3	ELTD1	1	79385867	Splice_Site	SNP	C	TCGA-22-5473-01A-01D-1632-08	4715644	79385867	169864754	30	17117										
LPHN2	23266	broad.mit.edu	37	chr1	82434990	82434990	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcctacagagtgaccgaaaTactattcacaagaacctttg	8	10	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:82434990T>A	uc001dit.3	+	14	2782	c.2601T>A	c.(2599-2601)AAT>AAA	p.N867K	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.N867K|LPHN2_uc001div.2_Missense_Mutation_p.N867K|LPHN2_uc009wcd.2_Missense_Mutation_p.N867K|LPHN2_uc001diw.2_Missense_Mutation_p.N451K|LPHN2_uc009wce.1_5'Flank	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	880	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		GTGACCGAAATACTATTCACA	0.408													46	145	---	---	---	---	PASS	A	82434990	A	A	82434990	3	1	44	1	0	0	0	0	1	0	0	0	8916	1403	49	5	2647	5	LPHN2	1	82434990	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	3049123	82434990	166815631	31	17118										
MCOLN2	255231	broad.mit.edu	37	chr1	85412764	85412764	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttcttcaattttggcatcacTgtcaaaatagattttgattt	5	6	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:85412764T>A	uc001dkm.2	-	7	1040	c.799A>T	c.(799-801)AGT>TGT	p.S267C	MCOLN2_uc001dkn.2_Splice_Site	NM_153259	NP_694991	Q8IZK6	MCLN2_HUMAN	mucolipin 2	267						integral to membrane	ion channel activity			ovary(3)|upper_aerodigestive_tract(1)	4				all cancers(265;0.0111)|Epithelial(280;0.0263)|OV - Ovarian serous cystadenocarcinoma(397;0.217)		TTGGCATCACTGTCAAAATAG	0.318													28	113	---	---	---	---	PASS	A	85412764	A	A	85412764	3	1	44	1	0	0	0	0	1	0	0	0	9396	1580	55	5	933	5	MCOLN2	1	85412764	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	2977774	85412764	163837857	32	17119										
PKN2	5586	broad.mit.edu	37	chr1	89299084	89299084	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caaggatactttcggaagagGagcaggaaatgttcagagat	13	5	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:89299084G>A	uc001dmn.2	+	22	3250	c.2908G>A	c.(2908-2910)GAG>AAG	p.E970K	PKN2_uc010osp.1_Missense_Mutation_p.E954K|PKN2_uc010osq.1_Missense_Mutation_p.E813K|PKN2_uc009wcv.2_Missense_Mutation_p.E922K|PKN2_uc010osr.1_Missense_Mutation_p.E635K	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	970	AGC-kinase C-terminal.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		TTCGGAAGAGGAGCAGGAAAT	0.403													24	58	---	---	---	---	PASS	A	89299084	A	A	89299084	3	1	44	1	0	0	0	0	1	0	0	0	11980	1175	41	2	2994	2	PKN2	1	89299084	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3886320	89299084	159951537	33	17120										
HFM1	164045	broad.mit.edu	37	chr1	91816355	91816355	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agttgatcgtatccattccaCagcaatattcacatccgtga	6	11	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:91816355C>G	uc001doa.3	-	18	2246	c.2146G>C	c.(2146-2148)GTG>CTG	p.V716L	HFM1_uc009wdb.2_Intron|HFM1_uc010osu.1_Missense_Mutation_p.V395L|HFM1_uc010osv.1_Missense_Mutation_p.V400L	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	716	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		ATCCATTCCACAGCAATATTC	0.328													34	92	---	---	---	---	PASS	G	91816355	G	G	91816355	3	3	44	1	0	0	0	0	1	0	0	0	7083	478	17	4	2249	4	HFM1	1	91816355	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2517271	91816355	157434266	34	17121										
TGFBR3	7049	broad.mit.edu	37	chr1	92185495	92185495	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acgatcatcttctcattgtcAcatttgacagacagggcaat	7	10	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:92185495A>T	uc001doh.2	-	9	1834	c.1368T>A	c.(1366-1368)TGT>TGA	p.C456*	TGFBR3_uc009wde.2_Nonsense_Mutation_p.C233*|TGFBR3_uc010osy.1_Nonsense_Mutation_p.C414*|TGFBR3_uc001doi.2_Nonsense_Mutation_p.C455*|TGFBR3_uc001doj.2_Nonsense_Mutation_p.C455*	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	456	ZP.|Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		TCTCATTGTCACATTTGACAG	0.507													37	114	---	---	---	---	PASS	T	92185495	T	T	92185495	4	4	44	1	0	0	0	0	0	1	0	0	15820	157	6	5	1223	5	TGFBR3	1	92185495	Nonsense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	369140	92185495	157065126	35	17122										
GLMN	11146	broad.mit.edu	37	chr1	92728459	92728459	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctttgataaccaaatacctCaataaatttaatgaagccat	3	8	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:92728459C>G	uc001dor.2	-	16	1549	c.1434G>C	c.(1432-1434)TTG>TTC	p.L478F	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Missense_Mutation_p.L464F	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	478					muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		CCAAATACCTCAATAAATTTA	0.269									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				3	30	---	---	---	---	PASS	G	92728459	G	G	92728459	3	3	44	1	0	0	0	0	1	0	0	0	6448	825	29	2	366	2	GLMN	1	92728459	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	542964	92728459	156522162	36	17123										
ABCA4	24	broad.mit.edu	37	chr1	94568695	94568695	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tatcccttattcgtattcctCttcctacatatgaataagag	4	10	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:94568695C>T	uc001dqh.2	-	5	550	c.446G>A	c.(445-447)AGA>AAA	p.R149K	ABCA4_uc010otn.1_Missense_Mutation_p.R149K	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	149	Extracellular.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		TCGTATTCCTCTTCCTACATA	0.393													51	169	---	---	---	---	PASS	T	94568695	T	T	94568695	3	4	44	1	0	0	0	0	1	0	0	0	34	913	32	2	6559	2	ABCA4	1	94568695	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1840236	94568695	154681926	37	17124										
DPYD	1806	broad.mit.edu	37	chr1	97771800	97771800	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtcagcttggcaaaaaaaggAatctgaacagcttgcctaac	9	9	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:97771800A>C	uc001drv.2	-	17	2249	c.2112T>G	c.(2110-2112)ATT>ATG	p.I704M		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	704					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	CAAAAAAAGGAATCTGAACAG	0.438													85	163	---	---	---	---	PASS	C	97771800	C	C	97771800	3	2	44	1	0	0	0	0	1	0	0	0	4745	242	9	5	993	5	DPYD	1	97771800	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	3203105	97771800	151478821	38	17125										
DPYD	1806	broad.mit.edu	37	chr1	98039315	98039315	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttcagctcccagcactgtaCctttaggatcactcagaact	6	13	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:98039315C>G	uc001drv.2	-	11	1476	c.1339_splice	c.e11+1	p.V447_splice		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1						'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	CAGCACTGTACCTTTAGGATC	0.383													42	113	---	---	---	---	PASS	G	98039315	G	G	98039315	5	3	44	1	0	0	0	0	0	0	1	0	4745	521	18	4	1789	4	DPYD	1	98039315	Splice_Site	SNP	C	TCGA-22-5473-01A-01D-1632-08	267515	98039315	151211306	39	17126										
DPYD	1806	broad.mit.edu	37	chr1	98058935	98058935	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggcaatggagagtgacaggCgcacattcctgaatgatgaa	13	7	0	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:98058935C>G	uc001drv.2	-	10	1104	c.967G>C	c.(967-969)GCC>CCC	p.A323P		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	323					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	GAGTGACAGGCGCACATTCCT	0.453													14	45	---	---	---	---	PASS	G	98058935	G	G	98058935	3	3	44	1	0	0	0	0	1	0	0	0	4745	768	27	4	2166	4	DPYD	1	98058935	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	19620	98058935	151191686	40	17127										
CELSR2	1952	broad.mit.edu	37	chr1	109812421	109812421	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgacgagcttcgctgtgctCatggacgtttctcggcggga	14	10	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:109812421C>G	uc001dxa.3	+	22	7147	c.7086C>G	c.(7084-7086)CTC>CTG	p.L2362L		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2362	Extracellular (Potential).|GPS.				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		TCGCTGTGCTCATGGACGTTT	0.667													4	201	---	---	---	---	PASS	G	109812421	G	G	109812421	2	3	44	1	0	0	0	0	0	0	0	1	3222	813	29	2		2	CELSR2	1	109812421	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	11753486	109812421	139438200	41	17128										
C1orf103	55791	broad.mit.edu	37	chr1	111495334	111495334	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	catgactgaagattgaactaGtggtataagatttccagaag	10	5	0	6			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:111495334G>C	uc001eaa.2	-	2	428	c.172C>G	c.(172-174)CTA>GTA	p.L58V	C1orf103_uc001dzz.2_5'UTR|C1orf103_uc001eab.2_Intron|C1orf103_uc001eac.1_Intron	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	58					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		GATTGAACTAGTGGTATAAGA	0.403													21	61	---	---	---	---	PASS	C	111495334	C	C	111495334	3	2	44	1	0	0	0	0	1	0	0	0	1977	1020	36	4	2149	4	C1orf103	1	111495334	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1682913	111495334	137755287	42	17129										
ADORA3	140	broad.mit.edu	37	chr1	112042946	112042946	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaagatgtcaagatagatggCgcacatgacaaccaggggga	13	7	1	4	rs143962803	byFrequency	TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:112042946C>T	uc001ebh.3	-	2	1350	c.583G>A	c.(583-585)GCC>ACC	p.A195T	ADORA3_uc001ebg.3_Intron|ADORA3_uc001ebf.2_Intron	NM_000677	NP_000668	P33765	AA3R_HUMAN	adenosine A3 receptor isoform 2	195	Helical; Name=5; (By similarity).				activation of adenylate cyclase activity|inflammatory response|regulation of heart contraction	integral to plasma membrane	adenosine receptor activity, G-protein coupled			ovary(2)|large_intestine(1)|skin(1)	4		all_cancers(81;1.63e-06)|all_epithelial(167;5.01e-06)|all_lung(203;8.02e-05)|Lung NSC(277;0.000156)		all cancers(265;0.0185)|Colorectal(144;0.0186)|Lung(183;0.0238)|COAD - Colon adenocarcinoma(174;0.0644)|Epithelial(280;0.0872)|LUSC - Lung squamous cell carcinoma(189;0.134)	Adenosine(DB00640)|Aminophylline(DB01223)	AGATAGATGGCGCACATGACA	0.433													23	67	---	---	---	---	PASS	T	112042946	T	T	112042946	3	4	44	1	0	0	0	0	1	0	0	0	329	768	27	1	1091	1	ADORA3	1	112042946	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	547612	112042946	137207675	43	17130										
TRIM33	51592	broad.mit.edu	37	chr1	114970454	114970454	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ataacatgcttcacctgccgGgaaaggcctgtgatgtcatt	10	10	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:114970454G>A	uc001eew.2	-	7	1302	c.1218C>T	c.(1216-1218)TCC>TCT	p.S406S	TRIM33_uc010owr.1_Silent_p.S14S|TRIM33_uc010ows.1_Silent_p.S14S|TRIM33_uc001eex.2_Silent_p.S406S	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	406					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCACCTGCCGGGAAAGGCCTG	0.443			T	RET	papillary thyroid								30	74	---	---	---	---	PASS	A	114970454	A	A	114970454	2	1	44	1	0	0	0	0	0	0	0	1	16504	1219	43	3		3	TRIM33	1	114970454	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	2927508	114970454	134280167	44	17131										
SPAG17	200162	broad.mit.edu	37	chr1	118506562	118506562	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attgctgcttgttaaaacagGtaaaatacttgttaagggct	9	5	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:118506562G>A	uc001ehk.2	-	48	6601	c.6533_splice	c.e48-1	p.T2178_splice		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17							cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GTTAAAACAGGTAAAATACTT	0.328													41	124	---	---	---	---	PASS	A	118506562	A	A	118506562	5	1	44	1	0	0	0	0	0	0	1	0	14979	1275	44	3	143	3	SPAG17	1	118506562	Splice_Site	SNP	G	TCGA-22-5473-01A-01D-1632-08	3536108	118506562	130744059	45	17132										
SEC22B	9554	broad.mit.edu	37	chr1	145109637	145109637	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaatttgatgaacagcatgGaaagaaggtgcccactgtgt	12	6	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:145109637G>A	uc001eml.1	+	5	439	c.299G>A	c.(298-300)GGA>GAA	p.G100E	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron	NM_004892	NP_004883	O75396	SC22B_HUMAN	SEC22 vesicle trafficking protein homolog B	100	Longin.|Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|melanosome	protein binding				0						GAACAGCATGGAAAGAAGGTG	0.443													36	829	---	---	---	---	PASS	A	145109637	A	A	145109637	3	1	44	1	0	0	0	0	1	0	0	0	13989	1174	41	2	309	2	SEC22B	1	145109637	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	26603075	145109637	104140984	46	17133										
PDZK1	5174	broad.mit.edu	37	chr1	145748527	145748527	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgcaaacttggacccagcccCggctctgctatctcgtgaag	10	14	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:145748527C>A	uc001eon.1	+	4	497	c.400C>A	c.(400-402)CGG>AGG	p.R134R	NBPF10_uc001emp.3_Intron|PDZK1_uc001eoo.1_Silent_p.R134R|PDZK1_uc010oza.1_Silent_p.R134R	NM_002614	NP_002605	Q5T2W1	NHRF3_HUMAN	PDZ domain containing 1	134	PDZ 2.				carnitine transport|cell proliferation|drug transport|positive regulation of ion transmembrane transport	brush border membrane|cytoplasm	PDZ domain binding|transporter activity				0	all_hematologic(18;0.00473)|Acute lymphoblastic leukemia(18;0.0786)		KIRC - Kidney renal clear cell carcinoma(6;0.0764)|Kidney(552;0.118)|Colorectal(543;0.229)			GACCCAGCCCCGGCTCTGCTA	0.517													24	64	---	---	---	---	PASS	A	145748527	A	A	145748527	2	1	44	1	0	0	0	0	0	0	0	1	11707	643	23	1		1	PDZK1	1	145748527	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	638890	145748527	103502094	47	17134										
NBPF14	25832	broad.mit.edu	37	chr1	148004660	148004660	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgatatgctcttcctcaaatGagtaaaacacacttctgtag	6	9	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:148004660G>A	uc001eqq.2	-	22	2671	c.2654C>T	c.(2653-2655)TCA>TTA	p.S885L	LOC200030_uc010ozz.1_Intron|LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqf.2_Intron|LOC200030_uc001eqg.2_Intron|FLJ39739_uc001eqo.1_Intron|NBPF14_uc010pab.1_Missense_Mutation_p.S233L|NBPF14_uc010pac.1_Missense_Mutation_p.S458L	NM_015383	NP_056198	Q5TI25	NBPFE_HUMAN	hypothetical protein LOC25832	885	NBPF 10.					cytoplasm				ovary(1)	1	all_hematologic(923;0.032)					TTCCTCAAATGAGTAAAACAC	0.438													119	218	---	---	---	---	PASS	A	148004660	A	A	148004660	3	1	44	1	0	0	0	0	1	0	0	0	10194	1294	45	2	115	2	NBPF14	1	148004660	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2256133	148004660	101245961	48	17135										
SEMA6C	10500	broad.mit.edu	37	chr1	151108492	151108492	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttttcagccccatacctgctAgtgagagtgagtagaggctg	12	9	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:151108492A>T	uc001ewu.2	-	13	1554	c.1254T>A	c.(1252-1254)ACT>ACA	p.T418T	SEMA6C_uc001ewv.2_Silent_p.T418T|SEMA6C_uc001eww.2_Silent_p.T378T|SEMA6C_uc010pcq.1_Silent_p.T418T	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	418	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CATACCTGCTAGTGAGAGTGA	0.562													42	27	---	---	---	---	PASS	T	151108492	T	T	151108492	2	4	44	1	0	0	0	0	0	0	0	1	14041	407	15	5		5	SEMA6C	1	151108492	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	3103832	151108492	98142129	49	17136										
PIP5K1A	8394	broad.mit.edu	37	chr1	151204164	151204164	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagacaacctcatcagccttGaaaggtgccatccagttagg	9	12	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:151204164G>C	uc001exj.2	+	5	707	c.255G>C	c.(253-255)TTG>TTC	p.L85F	PIP5K1A_uc001exi.2_Missense_Mutation_p.L72F|PIP5K1A_uc010pcu.1_Missense_Mutation_p.L73F|PIP5K1A_uc001exk.2_Missense_Mutation_p.L72F|PIP5K1A_uc010pcv.1_5'Flank	NM_001135638	NP_001129110	Q99755	PI51A_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	85	PIPK.				phospholipid biosynthetic process|signal transduction	endomembrane system|Golgi stack|lamellipodium|nuclear speck	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|kinase binding			ovary(1)|central_nervous_system(1)|skin(1)	3	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.181)			CATCAGCCTTGAAAGGTGCCA	0.428													23	92	---	---	---	---	PASS	C	151204164	C	C	151204164	3	2	44	1	0	0	0	0	1	0	0	0	11939	1281	45	2	273	2	PIP5K1A	1	151204164	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	95672	151204164	98046457	50	17137										
HRNR	388697	broad.mit.edu	37	chr1	152193338	152193338	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tagagccgtgttgtccgtagCcagaggagtgacctgagcca	14	10	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:152193338C>T	uc001ezt.1	-	3	843	c.767G>A	c.(766-768)GGC>GAC	p.G256D		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	256	2.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTGTCCGTAGCCAGAGGAGTG	0.542													116	388	---	---	---	---	PASS	T	152193338	T	T	152193338	3	4	44	1	0	0	0	0	1	0	0	0	7359	739	26	3	7789	3	HRNR	1	152193338	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	989174	152193338	97057283	51	17138										
NUP210L	91181	broad.mit.edu	37	chr1	154091182	154091182	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atataacattcccataggatGatgaggaaatgccagaaatt	8	6	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:154091182G>A	uc001fdw.2	-	11	1501	c.1429C>T	c.(1429-1431)CAT>TAT	p.H477Y	NUP210L_uc009woq.2_5'UTR|NUP210L_uc010peh.1_Missense_Mutation_p.H477Y	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	477						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			CCCATAGGATGATGAGGAAAT	0.338													39	184	---	---	---	---	PASS	A	154091182	A	A	154091182	3	1	44	1	0	0	0	0	1	0	0	0	10761	1290	45	2	4357	2	NUP210L	1	154091182	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1897844	154091182	95159439	52	17139										
GBA	2629	broad.mit.edu	37	chr1	155207244	155207244	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggtcacgggcaatgaagtctCgctgatgttcaggggtgaag	16	7	3	3	rs78973108		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:155207244C>T	uc001fjh.2	-	7	1037	c.887G>A	c.(886-888)CGA>CAA	p.R296Q	RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Missense_Mutation_p.R183Q|GBA_uc010pfx.1_Missense_Mutation_p.R247Q|GBA_uc001fji.2_Missense_Mutation_p.R296Q|GBA_uc001fjj.2_Missense_Mutation_p.R296Q|GBA_uc001fjk.2_Missense_Mutation_p.R296Q|GBA_uc001fjl.2_Missense_Mutation_p.R296Q|GBA_uc010pfy.1_Missense_Mutation_p.R209Q|GBA_uc009wqk.1_Missense_Mutation_p.R209Q	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor	296			R -> Q (in GD; type 2; also found in a patient with Parkinson disease).		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)	AATGAAGTCTCGCTGATGTTC	0.557									Gaucher_disease_type_I				24	64	---	---	---	---	PASS	T	155207244	T	T	155207244	3	4	44	1	0	0	0	0	1	0	0	0	6266	884	31	2	743	2	GBA	1	155207244	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1116062	155207244	94043377	53	17140										
C1orf92	149499	broad.mit.edu	37	chr1	156902656	156902656	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcttttcagaaaaattgcttCgccccacaatgtcctgcgta	6	12	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:156902656C>T	uc001fqm.2	+	15	1747	c.1575C>T	c.(1573-1575)TTC>TTT	p.F525F	C1orf92_uc001fql.2_Missense_Mutation_p.S346L	NM_144702	NP_653303	Q8N4P6	LRC71_HUMAN	hypothetical protein LOC149499	525											0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					AAAATTGCTTCGCCCCACAAT	0.493													6	19	---	---	---	---	PASS	T	156902656	T	T	156902656	2	4	44	1	0	0	0	0	0	0	0	1	2069	883	31	2		2	C1orf92	1	156902656	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1695412	156902656	92347965	54	17141										
CD5L	922	broad.mit.edu	37	chr1	157804447	157804447	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cacacggtataccactggttCtggtgcttcacttccacgcg	9	14	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:157804447C>A	uc001frk.3	-	4	611	c.468G>T	c.(466-468)CAG>CAT	p.Q156H		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	156	SRCR 2.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			ACCACTGGTTCTGGTGCTTCA	0.622													32	148	---	---	---	---	PASS	A	157804447	A	A	157804447	3	1	44	1	0	0	0	0	1	0	0	0	3027	912	32	2	587	2	CD5L	1	157804447	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	901791	157804447	91446174	55	17142										
SPTA1	6708	broad.mit.edu	37	chr1	158605732	158605732	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gccaactctttgagcttctcCcagtgttcaacaaactgagc	7	13	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:158605732C>A	uc001fst.1	-	38	5602	c.5403G>T	c.(5401-5403)TGG>TGT	p.W1801C		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1801	Spectrin 17.				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)					TGAGCTTCTCCCAGTGTTCAA	0.522													113	59	---	---	---	---	PASS	A	158605732	A	A	158605732	3	1	44	1	0	0	0	0	1	0	0	0	15115	624	22	3	1916	3	SPTA1	1	158605732	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	801285	158605732	90644889	56	17143										
SPTA1	6708	broad.mit.edu	37	chr1	158655035	158655035	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagcttctgacccctctcagCgacccgctccttgaaacttt	6	16	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:158655035C>T	uc001fst.1	-	2	326	c.127G>A	c.(127-129)GCT>ACT	p.A43T		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	43	Spectrin 1.				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)					ccccTCTCAGCGACCCGCTCC	0.328													25	96	---	---	---	---	PASS	T	158655035	T	T	158655035	3	4	44	1	0	0	0	0	1	0	0	0	15115	768	27	1	7336	1	SPTA1	1	158655035	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	49303	158655035	90595586	57	17144										
ITLN1	55600	broad.mit.edu	37	chr1	160851012	160851012	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtccgtgcggtacctcagcaGggagctgtttctccagtgct	13	12	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:160851012G>T	uc001fxc.2	-	5	612	c.496C>A	c.(496-498)CTG>ATG	p.L166M		NM_017625	NP_060095	Q8WWA0	ITLN1_HUMAN	intelectin precursor	166	Fibrinogen C-terminal.				positive regulation of glucose import|positive regulation of protein phosphorylation|response to nematode|signal transduction	anchored to membrane|brush border membrane|extracellular region|membrane raft	receptor binding|sugar binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)	7	all_cancers(52;2.99e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			TACCTCAGCAGGGAGCTGTTT	0.567													102	39	---	---	---	---	PASS	T	160851012	T	T	160851012	3	4	44	1	0	0	0	0	1	0	0	0	7910	991	35	3	461	3	ITLN1	1	160851012	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2195977	160851012	88399609	58	17145										
C1orf114	57821	broad.mit.edu	37	chr1	169390622	169390622	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctcttttcagtttttctctCttttcttctagttgtttttg	4	8	6	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:169390622C>T	uc001gga.1	-	3	1215	c.1047G>A	c.(1045-1047)AAG>AAA	p.K349K	C1orf114_uc001gfz.1_Silent_p.K349K|C1orf114_uc009wvq.1_Silent_p.K349K|C1orf114_uc001ggb.2_Silent_p.K349K|C1orf114_uc001ggc.1_Silent_p.K349K	NM_021179	NP_067002	Q5TID7	CA114_HUMAN	hypothetical protein LOC57821	349	Potential.										0	all_hematologic(923;0.208)					GTTTTTCTCTCTTTTCTTCTA	0.348													18	92	---	---	---	---	PASS	T	169390622	T	T	169390622	2	4	44	1	0	0	0	0	0	0	0	1	1987	912	32	2		2	C1orf114	1	169390622	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	8539610	169390622	79859999	59	17146										
C1orf129	80133	broad.mit.edu	37	chr1	170931074	170931074	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tatatatgagaacattcttaCgagcttggtgtctaaagacc	8	7	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:170931074C>T	uc001ghg.2	+	6	462	c.332C>T	c.(331-333)ACG>ATG	p.T111M	C1orf129_uc009wvy.2_Translation_Start_Site|C1orf129_uc010plz.1_Missense_Mutation_p.T111M	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	111							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AACATTCTTACGAGCTTGGTG	0.303													14	14	---	---	---	---	PASS	T	170931074	T	T	170931074	3	4	44	1	0	0	0	0	1	0	0	0	1996	536	19	1	350	1	C1orf129	1	170931074	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1540452	170931074	78319547	60	17147										
TNR	7143	broad.mit.edu	37	chr1	175331872	175331872	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgaggctgatttcgtattcGgtagctgggttcagtctggt	14	6	2	2	rs138173384		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:175331872G>T	uc001gkp.1	-	12	2862	c.2781C>A	c.(2779-2781)ACC>ACA	p.T927T	TNR_uc009wwu.1_Silent_p.T927T	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	927	Fibronectin type-III 7.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix		p.T927I(1)		pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TTTCGTATTCGGTAGCTGGGT	0.527													33	92	---	---	---	---	PASS	T	175331872	T	T	175331872	2	4	44	1	0	0	0	0	0	0	0	1	16335	1103	39	1		1	TNR	1	175331872	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	4400798	175331872	73918749	61	17148										
PAPPA2	60676	broad.mit.edu	37	chr1	176564279	176564279	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtggaattgatctcccagtaCaatggatactggccccttcg	10	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:176564279C>A	uc001gkz.2	+	3	2703	c.1539C>A	c.(1537-1539)TAC>TAA	p.Y513*	PAPPA2_uc001gky.1_Nonsense_Mutation_p.Y513*|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	513	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TCTCCCAGTACAATGGATACT	0.532													18	63	---	---	---	---	PASS	A	176564279	A	A	176564279	4	1	44	1	0	0	0	0	0	1	0	0	11433	489	17	3	1545	3	PAPPA2	1	176564279	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1232407	176564279	72686342	62	17149										
CEP350	9857	broad.mit.edu	37	chr1	180053187	180053187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagagtgatattgaaggtagGatcagagctctgaaggatga	14	4	2	6			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:180053187G>T	uc001gnt.2	+	31	6542	c.6159G>T	c.(6157-6159)AGG>AGT	p.R2053S	CEP350_uc009wxl.2_Missense_Mutation_p.R2052S|CEP350_uc001gnv.2_Missense_Mutation_p.R188S|CEP350_uc001gnw.1_5'Flank	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	2053	Potential.					centrosome|nucleus|spindle				ovary(4)	4						TTGAAGGTAGGATCAGAGCTC	0.353													5	16	---	---	---	---	PASS	T	180053187	T	T	180053187	3	4	44	1	0	0	0	0	1	0	0	0	3254	1165	41	2	6277	2	CEP350	1	180053187	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3488908	180053187	69197434	63	17150										
LAMC2	3918	broad.mit.edu	37	chr1	183200120	183200120	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caactgtaaccccatgggctCagagcctgtaggatgtcgaa	11	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:183200120C>G	uc001gqa.2	+	12	2053	c.1739C>G	c.(1738-1740)TCA>TGA	p.S580*	LAMC2_uc001gpz.3_Nonsense_Mutation_p.S580*|LAMC2_uc010poa.1_Nonsense_Mutation_p.S280*	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	580	Laminin EGF-like 8; truncated.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						CCCATGGGCTCAGAGCCTGTA	0.483													82	44	---	---	---	---	PASS	G	183200120	G	G	183200120	4	3	44	1	0	0	0	0	0	1	0	0	8615	838	29	2	1785	2	LAMC2	1	183200120	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3146933	183200120	66050501	64	17151										
HMCN1	83872	broad.mit.edu	37	chr1	186031077	186031077	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctggtgaagaaagaaaaatCtttgggctttcagtattagg	12	4	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:186031077C>T	uc001grq.1	+	47	7636	c.7407C>T	c.(7405-7407)ATC>ATT	p.I2469I		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2469	Ig-like C2-type 22.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AAAGAAAAATCTTTGGGCTTT	0.393													12	47	---	---	---	---	PASS	T	186031077	T	T	186031077	2	4	44	1	0	0	0	0	0	0	0	1	7220	903	32	2		2	HMCN1	1	186031077	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	2830957	186031077	63219544	65	17152										
HMCN1	83872	broad.mit.edu	37	chr1	186106956	186106956	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gatggtagctggtcggaatgGagtctttgggaagaatgcac	16	5	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:186106956G>C	uc001grq.1	+	89	14005	c.13776G>C	c.(13774-13776)TGG>TGC	p.W4592C	HMCN1_uc001grs.1_Missense_Mutation_p.W161C	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4592	TSP type-1 2.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GGTCGGAATGGAGTCTTTGGG	0.483													17	109	---	---	---	---	PASS	C	186106956	C	C	186106956	3	2	44	1	0	0	0	0	1	0	0	0	7220	1183	41	2	14130	2	HMCN1	1	186106956	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	75879	186106956	63143665	66	17153										
FAM5C	339479	broad.mit.edu	37	chr1	190067721	190067721	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctctcagagtggctgcctccGaagggattgacataaacagc	11	11	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:190067721G>A	uc001gse.1	-	8	1960	c.1728C>T	c.(1726-1728)TTC>TTT	p.F576F	FAM5C_uc010pot.1_Silent_p.F474F	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	576						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					GGCTGCCTCCGAAGGGATTGA	0.463													144	52	---	---	---	---	PASS	A	190067721	A	A	190067721	2	1	44	1	0	0	0	0	0	0	0	1	5594	1049	37	2		2	FAM5C	1	190067721	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	3960765	190067721	59182900	67	17154										
RGS1	5996	broad.mit.edu	37	chr1	192547471	192547471	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atcttttgccctgtaaagcaGaagagatatataaagcattt	7	6	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:192547471G>C	uc001gsi.1	+	4	466	c.400G>C	c.(400-402)GAA>CAA	p.E134Q	RGS1_uc010pou.1_Missense_Mutation_p.E134Q	NM_002922	NP_002913	Q08116	RGS1_HUMAN	regulator of G-protein signalling 1	134	RGS.				immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|negative regulation of signal transduction	cytoplasm|plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity				0		Breast(1374;0.188)				CTGTAAAGCAGAAGAGATATA	0.363													54	215	---	---	---	---	PASS	C	192547471	C	C	192547471	3	2	44	1	0	0	0	0	1	0	0	0	13292	943	33	2	414	2	RGS1	1	192547471	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2479750	192547471	56703150	68	17155										
KCNT2	343450	broad.mit.edu	37	chr1	196227412	196227412	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctgacctcctgtagaggttCagtcgctgctgggttatttt	11	9	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:196227412C>T	uc001gtd.1	-	26	3183	c.3123G>A	c.(3121-3123)CTG>CTA	p.L1041L	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Silent_p.L974L|KCNT2_uc001gtf.1_Silent_p.L1017L|KCNT2_uc001gtg.1_RNA|KCNT2_uc001gth.1_Silent_p.L545L	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	1041	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TGTAGAGGTTCAGTCGCTGCT	0.453													105	41	---	---	---	---	PASS	T	196227412	T	T	196227412	2	4	44	1	0	0	0	0	0	0	0	1	8092	813	29	2		2	KCNT2	1	196227412	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	3679941	196227412	53023209	69	17156										
ASPM	259266	broad.mit.edu	37	chr1	197060090	197060090	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atttcgctggctcagacattCttgaccttcatgctcaatct	6	12	5	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:197060090C>G	uc001gtu.2	-	23	9783	c.9526G>C	c.(9526-9528)GAA>CAA	p.E3176Q	ASPM_uc001gtv.2_Missense_Mutation_p.E1591Q|ASPM_uc001gtw.3_Missense_Mutation_p.E1024Q	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	3176					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						CTCAGACATTCTTGACCTTCA	0.368													37	92	---	---	---	---	PASS	G	197060090	G	G	197060090	3	3	44	1	0	0	0	0	1	0	0	0	1056	922	32	2	931	2	ASPM	1	197060090	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	832678	197060090	52190531	70	17157										
NAV1	89796	broad.mit.edu	37	chr1	201751848	201751848	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctgtcaatcagacagatcgGgaaaaggagaaggccaaagc	12	9	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:201751848G>T	uc001gwu.2	+	6	2555	c.2208G>T	c.(2206-2208)CGG>CGT	p.R736R	NAV1_uc001gwv.1_Silent_p.R244R|NAV1_uc001gww.1_Silent_p.R345R|NAV1_uc001gwx.2_Silent_p.R345R|NAV1_uc001gwy.1_Silent_p.R117R	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	736	Potential.				cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						AGACAGATCGGGAAAAGGAGA	0.552													28	50	---	---	---	---	PASS	T	201751848	T	T	201751848	2	4	44	1	0	0	0	0	0	0	0	1	10183	1219	43	3		3	NAV1	1	201751848	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	4691758	201751848	47498773	71	17158										
C4BPA	722	broad.mit.edu	37	chr1	207297617	207297617	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctgtcacctacagctgtgaCccccgcttctcactcttggg	8	16	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:207297617C>T	uc001hfo.2	+	6	806	c.612C>T	c.(610-612)GAC>GAT	p.D204D		NM_000715	NP_000706	P04003	C4BPA_HUMAN	complement component 4 binding protein, alpha	204	Sushi 3.				complement activation, classical pathway|innate immune response	extracellular region	protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						ACAGCTGTGACCCCCGCTTCT	0.493													28	99	---	---	---	---	PASS	T	207297617	T	T	207297617	2	4	44	1	0	0	0	0	0	0	0	1	2249	506	18	3		3	C4BPA	1	207297617	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	5545769	207297617	41953004	72	17159										
C1orf107	27042	broad.mit.edu	37	chr1	210001471	210001471	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	accctaactaaaaagcagaaGaaacatcttcgagatttcgg	7	9	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:210001471G>A	uc001hhr.1	+	1	139	c.63G>A	c.(61-63)AAG>AAA	p.K21K	C1orf107_uc009xcu.1_5'UTR	NM_014388	NP_055203	Q68CQ4	DIEXF_HUMAN	digestive-organ expansion factor homolog	21					multicellular organismal development	nucleus					0				OV - Ovarian serous cystadenocarcinoma(81;0.0367)		AAAAGCAGAAGAAACATCTTC	0.552											OREG0014221	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	98	---	---	---	---	PASS	A	210001471	A	A	210001471	2	1	44	1	0	0	0	0	0	0	0	1	1981	933	33	2		2	C1orf107	1	210001471	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	2703854	210001471	39249150	73	17160										
USH2A	7399	broad.mit.edu	37	chr1	216246460	216246460	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgtaaaaggctggagaccacCctcgtaaacactctgctctt	8	12	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:216246460C>T	uc001hku.1	-	28	6142	c.5755G>A	c.(5755-5757)GGT>AGT	p.G1919S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1919	Fibronectin type-III 5.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGGAGACCACCCTCGTAAACA	0.468										HNSCC(13;0.011)			37	21	---	---	---	---	PASS	T	216246460	T	T	216246460	3	4	44	1	0	0	0	0	1	0	0	0	17033	623	22	3	10033	3	USH2A	1	216246460	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	6244989	216246460	33004161	74	17161										
ESRRG	2104	broad.mit.edu	37	chr1	216850616	216850616	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctgacaggcccactacctcCcaggataggagcagaagggt	12	13	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:216850616C>T	uc001hkw.1	-	2	440	c.274G>A	c.(274-276)GGA>AGA	p.G92R	ESRRG_uc001hky.1_Missense_Mutation_p.G69R|ESRRG_uc009xdp.1_Missense_Mutation_p.G69R|ESRRG_uc001hkz.1_Missense_Mutation_p.G69R|ESRRG_uc010puc.1_Missense_Mutation_p.G69R|ESRRG_uc001hla.1_Missense_Mutation_p.G69R|ESRRG_uc001hlb.1_Missense_Mutation_p.G69R|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Missense_Mutation_p.G69R|ESRRG_uc001hld.1_Missense_Mutation_p.G69R|ESRRG_uc001hkx.1_Missense_Mutation_p.G97R|ESRRG_uc009xdo.1_Missense_Mutation_p.G69R|ESRRG_uc001hle.1_Missense_Mutation_p.G69R	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	92					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	CCACTACCTCCCAGGATAGGA	0.527													47	111	---	---	---	---	PASS	T	216850616	T	T	216850616	3	4	44	1	0	0	0	0	1	0	0	0	5262	632	22	3	1126	3	ESRRG	1	216850616	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	604156	216850616	32400005	75	17162										
TGFB2	7042	broad.mit.edu	37	chr1	218520187	218520187	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gggcagatcctgagcaagctGaagctcaccagtcccccaga	11	14	1	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:218520187G>A	uc001hlm.2	+	1	797	c.144G>A	c.(142-144)CTG>CTA	p.L48L	TGFB2_uc001hll.2_Silent_p.L48L|TGFB2_uc001hln.2_Silent_p.L48L|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	48					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		TGAGCAAGCTGAAGCTCACCA	0.592													44	94	---	---	---	---	PASS	A	218520187	A	A	218520187	2	1	44	1	0	0	0	0	0	0	0	1	15815	1277	45	2		2	TGFB2	1	218520187	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1669571	218520187	30730434	76	17163										
CDC42BPA	8476	broad.mit.edu	37	chr1	227400839	227400839	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aatacataagactcttacctCagctcttttcagcatttccc	3	13	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:227400839C>T	uc001hqr.2	-	3	1295	c.352G>A	c.(352-354)GAG>AAG	p.E118K	CDC42BPA_uc001hqs.2_Missense_Mutation_p.E118K|CDC42BPA_uc009xes.2_Missense_Mutation_p.E118K|CDC42BPA_uc010pvs.1_Missense_Mutation_p.E118K	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	118	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				ACTCTTACCTCAGCTCTTTTC	0.259													5	75	---	---	---	---	PASS	T	227400839	T	T	227400839	3	4	44	1	0	0	0	0	1	0	0	0	3072	835	29	2	4943	2	CDC42BPA	1	227400839	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	8880652	227400839	21849782	77	17164										
GJC2	57165	broad.mit.edu	37	chr1	228345504	228345504	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgacgcggctgctggaggaGatccacaaccactccacctt	10	15	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:228345504G>C	uc001hsk.2	+	2	220	c.45G>C	c.(43-45)GAG>GAC	p.E15D		NM_020435	NP_065168	Q5T442	CXG2_HUMAN	gap junction protein, gamma 2, 47kDa	15	Cytoplasmic (Potential).				cell death	connexon complex|integral to membrane					0		Prostate(94;0.0405)				TGCTGGAGGAGATCCACAACC	0.677													5	10	---	---	---	---	PASS	C	228345504	C	C	228345504	3	2	44	1	0	0	0	0	1	0	0	0	6415	933	33	2	47	2	GJC2	1	228345504	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	944665	228345504	20905117	78	17165										
HEATR1	55127	broad.mit.edu	37	chr1	236746418	236746418	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctctgagtgctgttgagctCttctacataatgtgcccaca	8	12	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:236746418C>G	uc001hyd.1	-	18	2445	c.2320G>C	c.(2320-2322)GAG>CAG	p.E774Q	HEATR1_uc009xgh.1_Missense_Mutation_p.E17Q	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	774					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CTGTTGAGCTCTTCTACATAA	0.423													60	325	---	---	---	---	PASS	G	236746418	G	G	236746418	3	3	44	1	0	0	0	0	1	0	0	0	7027	922	32	2	4226	2	HEATR1	1	236746418	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	8400914	236746418	12504203	79	17166										
RYR2	6262	broad.mit.edu	37	chr1	237693748	237693748	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	actttgttggcattaggatgTcatgtgggtatatcagatga	12	4	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:237693748T>C	uc001hyl.1	+	25	2964	c.2844T>C	c.(2842-2844)TGT>TGC	p.C948C		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	948	Cytoplasmic (By similarity).|1.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CATTAGGATGTCATGTGGGTA	0.373													4	18	---	---	---	---	PASS	C	237693748	C	C	237693748	2	2	44	1	0	0	0	0	0	0	0	1	13769	1673	58	5		5	RYR2	1	237693748	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	947330	237693748	11556873	80	17167										
RYR2	6262	broad.mit.edu	37	chr1	237758839	237758839	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tatggtatgtgcgggtgagaGcatgagccccgggcaaggac	17	8	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:237758839G>A	uc001hyl.1	+	34	4598	c.4478G>A	c.(4477-4479)AGC>AAC	p.S1493N		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1493	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GCGGGTGAGAGCATGAGCCCC	0.473													38	21	---	---	---	---	PASS	A	237758839	A	A	237758839	3	1	44	1	0	0	0	0	1	0	0	0	13769	971	34	3	4612	3	RYR2	1	237758839	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	65091	237758839	11491782	81	17168										
EXO1	9156	broad.mit.edu	37	chr1	242024771	242024771	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaagatataaatacttttgaAcagatcgatgactacaatcc	5	7	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:242024771A>G	uc001hzh.2	+	10	1548	c.1008A>G	c.(1006-1008)GAA>GAG	p.E336E	EXO1_uc001hzi.2_Silent_p.E336E|EXO1_uc001hzj.2_Silent_p.E336E|EXO1_uc009xgq.2_Silent_p.E336E	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	336	Interaction with MSH3.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			ATACTTTTGAACAGATCGATG	0.333								Direct_reversal_of_damage|Editing_and_processing_nucleases					67	35	---	---	---	---	PASS	G	242024771	G	G	242024771	2	3	44	1	0	0	0	0	0	0	0	1	5300	40	2	5		5	EXO1	1	242024771	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	4265932	242024771	7225850	82	17169										
PLD5	200150	broad.mit.edu	37	chr1	242383356	242383356	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgctgtttgtccacgatccaGaaggaggactgcagccggcc	13	12	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:242383356G>T	uc001hzn.1	-	5	796	c.669C>A	c.(667-669)TTC>TTA	p.F223L	PLD5_uc001hzl.3_Missense_Mutation_p.F161L|PLD5_uc001hzm.3_Missense_Mutation_p.F13L|PLD5_uc001hzo.1_Missense_Mutation_p.F131L			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	223	PLD phosphodiesterase 1.					integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			CCACGATCCAGAAGGAGGACT	0.522													56	29	---	---	---	---	PASS	T	242383356	T	T	242383356	3	4	44	1	0	0	0	0	1	0	0	0	12049	933	33	2	965	2	PLD5	1	242383356	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	358585	242383356	6867265	83	17170										
SDCCAG8	10806	broad.mit.edu	37	chr1	243480085	243480085	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgacttgatgtctgcactaGtttccgtaaggagcagcttg	11	8	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:243480085G>C	uc001hzw.2	+	9	1114	c.958G>C	c.(958-960)GTT>CTT	p.V320L	SDCCAG8_uc010pyk.1_Missense_Mutation_p.V175L|SDCCAG8_uc010pyl.1_Missense_Mutation_p.V132L|SDCCAG8_uc001hzx.2_Missense_Mutation_p.V132L	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	320	Sufficient for homodimerization (By similarity).				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		GTCTGCACTAGTTTCCGTAAG	0.408													67	39	---	---	---	---	PASS	C	243480085	C	C	243480085	3	2	44	1	0	0	0	0	1	0	0	0	13959	1029	36	4	992	4	SDCCAG8	1	243480085	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1096729	243480085	5770536	84	17171										
HNRNPU	3192	broad.mit.edu	37	chr1	245027496	245027496	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcgtcgtccagcgcagcctgGagtcgctccatgagctcggc	13	15	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:245027496G>C	uc001iaz.1	-	1	332	c.114C>G	c.(112-114)CTC>CTG	p.L38L	HNRNPU_uc001iba.1_Silent_p.L38L|HNRNPU_uc001ibb.1_Intron	NM_031844	NP_114032	Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U	38	SAP.|Asp/Glu-rich (acidic).				CRD-mediated mRNA stabilization	catalytic step 2 spliceosome|cell surface|CRD-mediated mRNA stability complex|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	ATP binding|DNA binding|protein binding|RNA binding				0	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			GCGCAGCCTGGAGTCGCTCCA	0.642													7	14	---	---	---	---	PASS	C	245027496	C	C	245027496	2	2	44	1	0	0	0	0	0	0	0	1	7273	1161	41	2		2	HNRNPU	1	245027496	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1547411	245027496	4223125	85	17172										
AHCTF1	25909	broad.mit.edu	37	chr1	247013588	247013588	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagcatctaaattagtacttCtcaattttctgatcattctg	4	8	5	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:247013588C>G	uc001ibu.1	-	32	5727	c.5720G>C	c.(5719-5721)AGA>ACA	p.R1907T	AHCTF1_uc001ibv.1_Missense_Mutation_p.R1916T|AHCTF1_uc009xgs.1_Missense_Mutation_p.R768T|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	1907	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			ATTAGTACTTCTCAATTTTCT	0.333													68	174	---	---	---	---	PASS	G	247013588	G	G	247013588	3	3	44	1	0	0	0	0	1	0	0	0	408	913	32	2	1096	2	AHCTF1	1	247013588	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1986092	247013588	2237033	86	17173										
OR11L1	391189	broad.mit.edu	37	chr1	248004562	248004562	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacatagggccccagtgtcaGaaaaaaacaaatgcacagca	8	10	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:248004562G>A	uc001idn.1	-	1	637	c.637C>T	c.(637-639)CTG>TTG	p.L213L		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	213	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CCCAGTGTCAGAAAAAAACAA	0.512													16	85	---	---	---	---	PASS	A	248004562	A	A	248004562	2	1	44	1	0	0	0	0	0	0	0	1	10930	933	33	2		2	OR11L1	1	248004562	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	990974	248004562	1246059	87	17174										
OR2L13	284521	broad.mit.edu	37	chr1	248262725	248262725	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gatttcattttgttgggtctGcttcccccaaatcaaactgg	8	10	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:248262725G>T	uc001ids.2	+	3	385	c.48G>T	c.(46-48)CTG>CTT	p.L16L		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			TGTTGGGTCTGCTTCCCCCAA	0.363													119	81	---	---	---	---	PASS	T	248262725	T	T	248262725	2	4	44	1	0	0	0	0	0	0	0	1	11006	1306	46	3		3	OR2L13	1	248262725	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	258163	248262725	987896	88	17175										
OR2T12	127064	broad.mit.edu	37	chr1	248458198	248458198	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccttcttgcgggcttctgtaGagcgcatgagcagaacagca	12	11	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:248458198G>A	uc010pzj.1	-	1	683	c.683C>T	c.(682-684)TCT>TTT	p.S228F		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	228	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			GGCTTCTGTAGAGCGCATGAG	0.512													26	83	---	---	---	---	PASS	A	248458198	A	A	248458198	3	1	44	1	0	0	0	0	1	0	0	0	11019	942	33	2	282	2	OR2T12	1	248458198	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	195473	248458198	792423	89	17176										
OR2M7	391196	broad.mit.edu	37	chr1	248487683	248487683	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccatgagggacagttggctgAggaggaagtacatgggggtg	19	5	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:248487683A>T	uc010pzk.1	-	1	188	c.188T>A	c.(187-189)CTC>CAC	p.L63H		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	63	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CAGTTGGCTGAGGAGGAAGTA	0.532													298	122	---	---	---	---	PASS	T	248487683	T	T	248487683	3	4	44	1	0	0	0	0	1	0	0	0	11014	304	11	5	753	5	OR2M7	1	248487683	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	29485	248487683	762938	90	17177										
OR2G6	391211	broad.mit.edu	37	chr1	248685325	248685325	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tatgaccgctatgctgctgtCtgccggccactgcgctacat	10	14	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:248685325C>T	uc001ien.1	+	1	378	c.378C>T	c.(376-378)GTC>GTT	p.V126V		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATGCTGCTGTCTGCCGGCCAC	0.592													25	62	---	---	---	---	PASS	T	248685325	T	T	248685325	2	4	44	1	0	0	0	0	0	0	0	1	11000	900	32	2		2	OR2G6	1	248685325	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	197642	248685325	565296	91	17178										
SH3BP5L	80851	broad.mit.edu	37	chr1	249106516	249106516	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgaagggccacggagtagcgCgtcttggcctgagctacctg	15	12	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr1:249106516C>A	uc001iew.1	-	7	1317	c.765G>T	c.(763-765)ACG>ACT	p.T255T	SH3BP5L_uc010pzp.1_Silent_p.T148T|SH3BP5L_uc010pzq.1_Silent_p.T223T|SH3BP5L_uc001iev.1_Silent_p.T136T	NM_030645	NP_085148	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	255	Potential.										0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			CGGAGTAGCGCGTCTTGGCCT	0.667													23	18	---	---	---	---	PASS	A	249106516	A	A	249106516	2	1	44	1	0	0	0	0	0	0	0	1	14248	755	27	1		1	SH3BP5L	1	249106516	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	421191	249106516	144105	92	17179										
SNTG2	54221	broad.mit.edu	37	chr2	1161261	1161261	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgctgagaaatgctggcgatGaagttaccatcaccgttgag	12	8	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:1161261G>A	uc002qwq.2	+	7	567	c.439G>A	c.(439-441)GAA>AAA	p.E147K	SNTG2_uc010ewi.2_Intron	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	147	PDZ.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		TGCTGGCGATGAAGTTACCAT	0.438													14	89	---	---	---	---	PASS	A	1161261	A	A	1161261	3	1	44	1	0	0	0	0	1	0	0	0	14875	1291	45	2	465	2	SNTG2	2	1161261	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08		1161261	242038112	93	17180										
PXDN	7837	broad.mit.edu	37	chr2	1652885	1652885	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gagttcatgagcagcgaagtCatgccgctgccgcacacagg	13	12	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:1652885C>T	uc002qxa.2	-	17	2731	c.2667G>A	c.(2665-2667)ATG>ATA	p.M889I		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	889					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GCAGCGAAGTCATGCCGCTGC	0.627													7	40	---	---	---	---	PASS	T	1652885	T	T	1652885	3	4	44	1	0	0	0	0	1	0	0	0	12847	826	29	2	1800	2	PXDN	2	1652885	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	491624	1652885	241546488	94	17181										
MYT1L	23040	broad.mit.edu	37	chr2	1893045	1893045	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggactcgtcctcgtctatccTccggggtttcattttggtgt	11	11	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:1893045T>C	uc002qxe.2	-	16	3315	c.2488A>G	c.(2488-2490)AGG>GGG	p.R830G	MYT1L_uc002qxd.2_Missense_Mutation_p.R828G|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	830					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		TCGTCTATCCTCCGGGGTTTC	0.532													26	122	---	---	---	---	PASS	C	1893045	C	C	1893045	3	2	44	1	0	0	0	0	1	0	0	0	10107	1550	54	5	1112	5	MYT1L	2	1893045	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	240160	1893045	241306328	95	17182										
NBAS	51594	broad.mit.edu	37	chr2	15415804	15415804	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agatggtgtacagagagcttGgggaaagcatctgtccatcc	13	8	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:15415804G>A	uc002rcc.1	-	44	5554	c.5528C>T	c.(5527-5529)CCA>CTA	p.P1843L	NBAS_uc010exl.1_Missense_Mutation_p.P915L|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1843										ovary(2)|liver(1)|skin(1)	4						CAGAGAGCTTGGGGAAAGCAT	0.458													29	113	---	---	---	---	PASS	A	15415804	A	A	15415804	3	1	44	1	0	0	0	0	1	0	0	0	10186	1348	47	3	1623	3	NBAS	2	15415804	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	13522759	15415804	227783569	96	17183										
MATN3	4148	broad.mit.edu	37	chr2	20205673	20205673	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	accagatgcttgggcccgagCcgccacctcattcacctggt	10	16	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:20205673C>A	uc002rdl.2	-	2	685	c.622G>T	c.(622-624)GCT>TCT	p.A208S	MATN3_uc010exu.1_Missense_Mutation_p.A208S	NM_002381	NP_002372	O15232	MATN3_HUMAN	matrilin 3 precursor	208	VWFA.				skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGGGCCCGAGCCGCCACCTCA	0.602													13	20	---	---	---	---	PASS	A	20205673	A	A	20205673	3	1	44	1	0	0	0	0	1	0	0	0	9335	739	26	3	866	3	MATN3	2	20205673	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4789869	20205673	222993700	97	17184										
APOB	338	broad.mit.edu	37	chr2	21242603	21242603	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agcatctctaacctggtgtcCccggtcagcggatagtagga	12	11	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:21242603C>T	uc002red.2	-	19	3119	c.2991G>A	c.(2989-2991)GGG>GGA	p.G997G		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	997					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ACCTGGTGTCCCCGGTCAGCG	0.527													7	46	---	---	---	---	PASS	T	21242603	T	T	21242603	2	4	44	1	0	0	0	0	0	0	0	1	785	610	22	3		3	APOB	2	21242603	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1036930	21242603	221956770	98	17185										
APOB	338	broad.mit.edu	37	chr2	21250864	21250864	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttgtagagttgatagttccGagagaattttctgaagtcca	10	5	1	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:21250864G>A	uc002red.2	-	14	2031	c.1903C>T	c.(1903-1905)CGG>TGG	p.R635W		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	635	Vitellogenin.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TGATAGTTCCGAGAGAATTTT	0.368													62	240	---	---	---	---	PASS	A	21250864	A	A	21250864	3	1	44	1	0	0	0	0	1	0	0	0	785	1057	37	2	11852	2	APOB	2	21250864	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	8261	21250864	221948509	99	17186										
HADHB	3032	broad.mit.edu	37	chr2	26496613	26496613	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgaaaacaagcaatgtggctAgagaggtgagtaaaacaaac	11	5	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:26496613A>G	uc002rgz.2	+	6	600	c.349A>G	c.(349-351)AGA>GGA	p.R117G	HADHB_uc010ykv.1_Missense_Mutation_p.R95G|HADHB_uc010ykw.1_Missense_Mutation_p.R102G|HADHB_uc002rha.2_Missense_Mutation_p.R117G|HADHB_uc010ykx.1_Missense_Mutation_p.R43G	NM_000183	NP_000174	P55084	ECHB_HUMAN	mitochondrial trifunctional protein, beta	117			R -> G (in TFP deficiency).		fatty acid beta-oxidation	mitochondrial nucleoid	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acyltransferase activity|enoyl-CoA hydratase activity|protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAATGTGGCTAGAGAGGTGAG	0.348													29	52	---	---	---	---	PASS	G	26496613	G	G	26496613	3	3	44	1	0	0	0	0	1	0	0	0	6944	412	15	5	367	5	HADHB	2	26496613	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	5245749	26496613	216702760	100	17187										
TCF23	150921	broad.mit.edu	37	chr2	27372107	27372107	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcgctgacaggaagaggagcCgcctcagcaggacaaggcag	16	11	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:27372107C>T	uc010ylg.1	+	1	106	c.106C>T	c.(106-108)CGC>TGC	p.R36C		NM_175769	NP_786951	Q7RTU1	TCF23_HUMAN	transcription factor 23	36					cell differentiation|muscle organ development|regulation of transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAAGAGGAGCCGCCTCAGCAG	0.652													3	14	---	---	---	---	PASS	T	27372107	T	T	27372107	3	4	44	1	0	0	0	0	1	0	0	0	15689	652	23	1	108	1	TCF23	2	27372107	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	875494	27372107	215827266	101	17188										
CAD	790	broad.mit.edu	37	chr2	27446828	27446828	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagctggcccttcagatatgGaactgcttttcgatatcttt	8	9	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:27446828G>C	uc002rji.2	+	8	1201	c.1039G>C	c.(1039-1041)GAA>CAA	p.E347Q	CAD_uc010eyw.2_Missense_Mutation_p.E347Q	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	347	Glutamine amidotransferase type-1.|GATase (Glutamine amidotransferase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	TTCAGATATGGAACTGCTTTT	0.507													84	405	---	---	---	---	PASS	C	27446828	C	C	27446828	3	2	44	1	0	0	0	0	1	0	0	0	2565	1175	41	2	1069	2	CAD	2	27446828	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	74721	27446828	215752545	102	17189										
YIPF4	84272	broad.mit.edu	37	chr2	32517379	32517379	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggggtcctctggctgttgttCttttcttttccatgatatca	9	9	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:32517379C>G	uc002rok.2	+	3	634	c.367C>G	c.(367-369)CTT>GTT	p.L123V		NM_032312	NP_115688	Q9BSR8	YIPF4_HUMAN	Yip1 domain family, member 4	123	Helical; (Potential).					endoplasmic reticulum|integral to membrane	protein binding				0	Acute lymphoblastic leukemia(172;0.155)					GGCTGTTGTTCTTTTCTTTTC	0.318													21	127	---	---	---	---	PASS	G	32517379	G	G	32517379	3	3	44	1	0	0	0	0	1	0	0	0	17477	913	32	2	377	2	YIPF4	2	32517379	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	5070551	32517379	210681994	103	17190										
LTBP1	4052	broad.mit.edu	37	chr2	33411937	33411937	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttttagtaatttgccatcttCcatgtatgaatggtggccag	9	7	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:33411937C>G	uc002ros.2	+	6	1216	c.1216C>G	c.(1216-1218)CCA>GCA	p.P406A	LTBP1_uc002rot.2_Missense_Mutation_p.P80A|LTBP1_uc002rou.2_Missense_Mutation_p.P80A|LTBP1_uc002rov.2_Missense_Mutation_p.P80A|LTBP1_uc010ymz.1_Missense_Mutation_p.P80A|LTBP1_uc010yna.1_Missense_Mutation_p.P80A	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	406	EGF-like 2.				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				TTGCCATCTTCCATGTATGAA	0.433													9	62	---	---	---	---	PASS	G	33411937	G	G	33411937	3	3	44	1	0	0	0	0	1	0	0	0	9073	855	30	2	1293	2	LTBP1	2	33411937	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	894558	33411937	209787436	104	17191										
RASGRP3	25780	broad.mit.edu	37	chr2	33783912	33783912	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggtcagaggctggctgggggGactcggggtcccacaccttc	17	12	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:33783912G>T	uc002rox.2	+	18	2506	c.1879G>T	c.(1879-1881)GAC>TAC	p.D627Y	RASGRP3_uc010ync.1_Missense_Mutation_p.D627Y|RASGRP3_uc002roy.2_Missense_Mutation_p.D626Y	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	627					MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					TGGCTGGGGGGACTCGGGGTC	0.552													13	97	---	---	---	---	PASS	T	33783912	T	T	33783912	3	4	44	1	0	0	0	0	1	0	0	0	13076	1174	41	2	1937	2	RASGRP3	2	33783912	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	371975	33783912	209415461	105	17192										
HEATR5B	54497	broad.mit.edu	37	chr2	37227735	37227735	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aactgataggttacctggttGagaatattccaggatgcaag	11	6	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:37227735G>T	uc002rpp.1	-	33	5635	c.5539C>A	c.(5539-5541)CAA>AAA	p.Q1847K	HEATR5B_uc002rpo.1_Missense_Mutation_p.Q160K|HEATR5B_uc010ezy.1_Missense_Mutation_p.Q342K	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1847							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				TTACCTGGTTGAGAATATTCC	0.383													5	161	---	---	---	---	PASS	T	37227735	T	T	37227735	3	4	44	1	0	0	0	0	1	0	0	0	7032	1299	45	2	692	2	HEATR5B	2	37227735	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3443823	37227735	205971638	106	17193										
C2orf56	55471	broad.mit.edu	37	chr2	37475350	37475350	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gatatgatatgttaatgaatCcaaagaagatgggagagaga	12	2	0	6			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:37475350C>A	uc002rqa.3	+	10	1258	c.1183C>A	c.(1183-1185)CCA>ACA	p.P395T	C2orf56_uc002rqc.3_Missense_Mutation_p.P297T|C2orf56_uc010ynk.1_Missense_Mutation_p.P324T|C2orf56_uc010ynl.1_Missense_Mutation_p.P368T|C2orf56_uc010fah.2_RNA	NM_144736	NP_653337	Q7L592	MIDA_HUMAN	hypothetical protein LOC55471 isoform 1	395					mitochondrial respiratory chain complex I assembly	mitochondrion	enzyme binding|methyltransferase activity			central_nervous_system(1)	1		all_hematologic(82;0.21)				GTTAATGAATCCAAAGAAGAT	0.363													28	148	---	---	---	---	PASS	A	37475350	A	A	37475350	3	1	44	1	0	0	0	0	1	0	0	0	2177	855	30	2	1221	2	C2orf56	2	37475350	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	247615	37475350	205724023	107	17194										
PLEKHH2	130271	broad.mit.edu	37	chr2	43937375	43937375	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttaggaaccactggaaaaatCtggttatttattaaaaatga	7	4	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:43937375C>T	uc010yny.1	+	13	2203	c.2120C>T	c.(2119-2121)TCT>TTT	p.S707F	PLEKHH2_uc002rte.3_Missense_Mutation_p.S707F|PLEKHH2_uc002rtf.3_Missense_Mutation_p.S706F	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	707	PH 1.					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CTGGAAAAATCTGGTTATTTA	0.348													38	146	---	---	---	---	PASS	T	43937375	T	T	43937375	3	4	44	1	0	0	0	0	1	0	0	0	12077	913	32	2	2166	2	PLEKHH2	2	43937375	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	6462025	43937375	199261998	108	17195										
ABCG5	64240	broad.mit.edu	37	chr2	44065709	44065709	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggcatggaggatgcccaggCtgtgaggctccggggcggtg	20	9	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:44065709C>A	uc002rtn.2	-	1	250	c.110G>T	c.(109-111)AGC>ATC	p.S37I	ABCG5_uc002rto.2_5'UTR|ABCG5_uc002rtp.2_5'UTR|ABCG8_uc002rtq.2_5'Flank|ABCG8_uc010yoa.1_5'Flank	NM_022436	NP_071881	Q9H222	ABCG5_HUMAN	ATP-binding cassette sub-family G member 5	37	Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			ovary(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GATGCCCAGGCTGTGAGGCTC	0.672													8	26	---	---	---	---	PASS	A	44065709	A	A	44065709	3	1	44	1	0	0	0	0	1	0	0	0	71	797	28	3	1897	3	ABCG5	2	44065709	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	128334	44065709	199133664	109	17196										
LHCGR	3973	broad.mit.edu	37	chr2	48925888	48925888	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtggcaattagcctctgaatGgactctaggccatagctcgg	12	10	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:48925888G>T	uc002rwu.3	-	9	802	c.732C>A	c.(730-732)TCC>TCA	p.S244S	GTF2A1L_uc002rwt.2_Intron|LHCGR_uc002rwv.2_RNA	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	244	Extracellular (Potential).|LRR 6.				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	GCCTCTGAATGGACTCTAGGC	0.413									Familial_Male-Limited_Precocious_Puberty				31	58	---	---	---	---	PASS	T	48925888	T	T	48925888	2	4	44	1	0	0	0	0	0	0	0	1	8762	1335	47	3		3	LHCGR	2	48925888	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	4860179	48925888	194273485	110	17197										
NRXN1	9378	broad.mit.edu	37	chr2	51254958	51254958	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagccccccgacgaaaaggcCgctgaacaccgtcatgtccc	9	18	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:51254958C>T	uc010fbq.2	-	2	1931	c.454G>A	c.(454-456)GGC>AGC	p.G152S	NRXN1_uc002rxe.3_Missense_Mutation_p.G152S|NRXN1_uc002rxd.1_Missense_Mutation_p.G152S	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			ACGAAAAGGCCGCTGAACACC	0.672													10	31	---	---	---	---	PASS	T	51254958	T	T	51254958	3	4	44	1	0	0	0	0	1	0	0	0	10665	652	23	1	4544	1	NRXN1	2	51254958	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2329070	51254958	191944415	111	17198										
PSME4	23198	broad.mit.edu	37	chr2	54127089	54127089	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttttctgggctaagcaatatCtggttgatagaggggttttt	12	4	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:54127089C>G	uc002rxp.2	-	29	3407	c.3351G>C	c.(3349-3351)CAG>CAC	p.Q1117H	PSME4_uc010yop.1_Missense_Mutation_p.Q1003H|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Missense_Mutation_p.Q492H|PSME4_uc010fbv.1_Missense_Mutation_p.Q261H	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	1117					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|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|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TAAGCAATATCTGGTTGATAG	0.343													39	222	---	---	---	---	PASS	G	54127089	G	G	54127089	3	3	44	1	0	0	0	0	1	0	0	0	12709	912	32	2	2252	2	PSME4	2	54127089	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2872131	54127089	189072284	112	17199										
SMEK2	57223	broad.mit.edu	37	chr2	55804451	55804451	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagtatgaattcatacttacCgggacaaattgtgttgtttt	8	5	1	1	rs143373895		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:55804451C>A	uc002rzc.2	-	11	1981	c.1606G>T	c.(1606-1608)GAT>TAT	p.D536Y	SMEK2_uc002rzb.2_Missense_Mutation_p.G504C|SMEK2_uc002rzd.2_Missense_Mutation_p.D504Y|SMEK2_uc002rza.2_Missense_Mutation_p.G380C	NM_001122964	NP_001116436	Q5MIZ7	P4R3B_HUMAN	SMEK homolog 2, suppressor of mek1 isoform 1	536						microtubule organizing center|nucleus	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TCATACTTACCGGGACAAATT	0.204													13	60	---	---	---	---	PASS	A	55804451	A	A	55804451	3	1	44	1	0	0	0	0	1	0	0	0	14794	666	23	1	971	1	SMEK2	2	55804451	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1677362	55804451	187394922	113	17200										
XPO1	7514	broad.mit.edu	37	chr2	61753653	61753653	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagtacttcttgagccattcTttgctaaaatattattaaaa	4	7	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:61753653T>C	uc002sbj.2	-	3	858	c.130A>G	c.(130-132)AGA>GGA	p.R44G	XPO1_uc010fcl.2_Missense_Mutation_p.R40G|XPO1_uc010ypn.1_Missense_Mutation_p.R40G|XPO1_uc002sbk.2_5'UTR	NM_003400	NP_003391	O14980	XPO1_HUMAN	exportin 1	44	Necessary for HTLV-1 Rex-mediated mRNA export.				intracellular protein transport|mitotic prometaphase|mRNA metabolic process|mRNA transport|viral genome transport in host cell|viral infectious cycle	annulate lamellae|Cajal body|cytosol|kinetochore|nuclear envelope|nucleolus|ribonucleoprotein complex	protein binding|protein transporter activity|RNA binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(7;5.71e-05)|Epithelial(17;0.0662)|all cancers(80;0.226)			TGAGCCATTCTTTGCTAAAAT	0.303													16	80	---	---	---	---	PASS	C	61753653	C	C	61753653	3	2	44	1	0	0	0	0	1	0	0	0	17442	1617	56	5	3177	5	XPO1	2	61753653	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	5949202	61753653	181445720	114	17201										
CD207	50489	broad.mit.edu	37	chr2	71060876	71060876	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctccaaatcactttttaactCtgggatttgggcatttaagg	8	8	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:71060876C>A	uc002shg.2	-	3	513	c.466G>T	c.(466-468)GAG>TAG	p.E156*		NM_015717	NP_056532	Q9UJ71	CLC4K_HUMAN	CD207 antigen, langerin	156	Potential.|Extracellular (Potential).				defense response to virus	endocytic vesicle|integral to membrane	mannose binding			ovary(1)|lung(1)	2						CTTTTTAACTCTGGGATTTGG	0.438													21	104	---	---	---	---	PASS	A	71060876	A	A	71060876	4	1	44	1	0	0	0	0	0	1	0	0	2983	922	32	2	536	2	CD207	2	71060876	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	9307223	71060876	172138497	115	17202										
DYSF	8291	broad.mit.edu	37	chr2	71753408	71753408	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgaaagcaacctgctccggcCcacaggcgtagccctgcgag	12	15	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:71753408C>A	uc002sie.2	+	12	1488	c.1112C>A	c.(1111-1113)CCC>CAC	p.P371H	DYSF_uc010feg.2_Missense_Mutation_p.P402H|DYSF_uc010feh.2_Missense_Mutation_p.P371H|DYSF_uc002sig.3_Missense_Mutation_p.P371H|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.P371H|DYSF_uc010fef.2_Missense_Mutation_p.P402H|DYSF_uc010fei.2_Missense_Mutation_p.P402H|DYSF_uc010fek.2_Missense_Mutation_p.P403H|DYSF_uc010fej.2_Missense_Mutation_p.P372H|DYSF_uc010fel.2_Missense_Mutation_p.P372H|DYSF_uc010feo.2_Missense_Mutation_p.P403H|DYSF_uc010fem.2_Missense_Mutation_p.P372H|DYSF_uc010fen.2_Missense_Mutation_p.P403H|DYSF_uc002sif.2_Missense_Mutation_p.P372H	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	371	Cytoplasmic (Potential).|C2 3.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CTGCTCCGGCCCACAGGCGTA	0.592													37	341	---	---	---	---	PASS	A	71753408	A	A	71753408	3	1	44	1	0	0	0	0	1	0	0	0	4859	623	22	3	1350	3	DYSF	2	71753408	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	692532	71753408	171445965	116	17203										
ALMS1	7840	broad.mit.edu	37	chr2	73635786	73635786	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtcatgtatggcaacagataGtatatcaaggcaatagtaga	10	5	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:73635786G>A	uc002sje.1	+	3	475	c.364G>A	c.(364-366)GTA>ATA	p.V122I	ALMS1_uc002sjf.1_Intron	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	121					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GCAACAGATAGTATATCAAGG	0.358													45	68	---	---	---	---	PASS	A	73635786	A	A	73635786	3	1	44	1	0	0	0	0	1	0	0	0	535	1029	36	3	367	3	ALMS1	2	73635786	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1882378	73635786	169563587	117	17204										
ALMS1	7840	broad.mit.edu	37	chr2	73716778	73716778	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tagggtttacagagtccacgGggaatgggatgcaagccaga	15	7	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:73716778G>T	uc002sje.1	+	12	7806	c.7695G>T	c.(7693-7695)CGG>CGT	p.R2565R	ALMS1_uc002sjf.1_Silent_p.R2521R|ALMS1_uc002sjg.2_Silent_p.R1951R|ALMS1_uc002sjh.1_Silent_p.R1951R	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2563					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AGAGTCCACGGGGAATGGGAT	0.373													7	229	---	---	---	---	PASS	T	73716778	T	T	73716778	2	4	44	1	0	0	0	0	0	0	0	1	535	1219	43	3		3	ALMS1	2	73716778	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	80992	73716778	169482595	118	17205										
NAT8B	51471	broad.mit.edu	37	chr2	73927788	73927788	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcagaagggaggtgatagatGaaatgaactgtatgaagatc	14	3	0	7			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:73927788G>A	uc002sjk.1	-	3	680	c.645C>T	c.(643-645)TTC>TTT	p.F215F		NM_016347	NP_057431	Q9UHF3	NAT8B_HUMAN	N-acetyltransferase 8B	215					gastrulation with mouth forming second	integral to membrane	N-acetyltransferase activity				0						GGTGATAGATGAAATGAACTG	0.403													13	63	---	---	---	---	PASS	A	73927788	A	A	73927788	2	1	44	1	0	0	0	0	0	0	0	1	10180	1281	45	2		2	NAT8B	2	73927788	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	211010	73927788	169271585	119	17206										
STAMBP	10617	broad.mit.edu	37	chr2	74087236	74087236	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gagatttcttcctgtcgccaGaaaggatttcatccacacag	8	11	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:74087236G>A	uc002sjs.2	+	9	1226	c.1176G>A	c.(1174-1176)CAG>CAA	p.Q392Q	STAMBP_uc002sjt.2_Silent_p.Q392Q|STAMBP_uc002sju.2_Silent_p.Q392Q|STAMBP_uc002sjv.2_Silent_p.Q392Q	NM_201647	NP_964010	O95630	STABP_HUMAN	STAM binding protein	392					JAK-STAT cascade|positive regulation of cell proliferation	early endosome|membrane|nucleus	metal ion binding|metallopeptidase activity|protein binding			ovary(1)|lung(1)|breast(1)|pancreas(1)	4						CCTGTCGCCAGAAAGGATTTC	0.433													28	109	---	---	---	---	PASS	A	74087236	A	A	74087236	2	1	44	1	0	0	0	0	0	0	0	1	15249	933	33	2		2	STAMBP	2	74087236	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	159448	74087236	169112137	120	17207										
ACTG2	72	broad.mit.edu	37	chr2	74128523	74128523	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcgcaggagatgatgcccccCgggctgtcttcccctccatt	10	16	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:74128523C>T	uc002sjw.2	+	2	207	c.85C>T	c.(85-87)CGG>TGG	p.R29W	ACTG2_uc010fex.1_Missense_Mutation_p.R29W|ACTG2_uc010fey.2_Missense_Mutation_p.R29W|ACTG2_uc010yrn.1_Missense_Mutation_p.R29W	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	29					muscle contraction	cytoskeleton|cytosol	ATP binding				0						TGATGCCCCCCGGGCTGTCTT	0.617													23	94	---	---	---	---	PASS	T	74128523	T	T	74128523	3	4	44	1	0	0	0	0	1	0	0	0	197	643	23	1	87	1	ACTG2	2	74128523	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	41287	74128523	169070850	121	17208										
MTHFD2	10797	broad.mit.edu	37	chr2	74425790	74425790	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggctgcgacttctctaatgTctgctttggctgcccggctg	12	12	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:74425790T>C	uc002skk.2	+	1	101	c.22T>C	c.(22-24)TCT>CCT	p.S8P	MTHFD2_uc002skj.2_5'UTR|MTHFD2_uc010yro.1_5'UTR|MTHFD2_uc010ffb.2_Missense_Mutation_p.S8P|MTHFD2_uc010yrp.1_5'UTR	NM_006636	NP_006627	P13995	MTDC_HUMAN	methylenetetrahydrofolate dehydrogenase 2	8					folic acid-containing compound biosynthetic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	magnesium ion binding|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NAD+) activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|phosphate binding|protein binding				0					NADH(DB00157)|Tetrahydrofolic acid(DB00116)	TTCTCTAATGTCTGCTTTGGC	0.687													14	32	---	---	---	---	PASS	C	74425790	C	C	74425790	3	2	44	1	0	0	0	0	1	0	0	0	9929	1667	58	5	24	5	MTHFD2	2	74425790	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	297267	74425790	168773583	122	17209										
INO80B	83444	broad.mit.edu	37	chr2	74682983	74682983	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gatcccagaggggcctcgctCaccctctccccttatggttg	10	16	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:74682983C>T	uc002slg.2	+	3	335	c.290C>T	c.(289-291)TCA>TTA	p.S97L	INO80B_uc002slf.1_Missense_Mutation_p.S84L|INO80B_uc010yrr.1_Missense_Mutation_p.S84L|WBP1_uc002slh.1_RNA|INO80B_uc002sli.1_RNA|INO80B_uc010yrs.1_Missense_Mutation_p.S115L|WBP1_uc002slj.1_5'Flank|WBP1_uc002slk.1_5'Flank|WBP1_uc002sll.1_5'Flank	NM_031288	NP_112578	Q9C086	IN80B_HUMAN	high mobility group AT-hook 1-like 4	97					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex|nucleolus	metal ion binding|protein binding			pancreas(1)	1						GGGCCTCGCTCACCCTCTCCC	0.547													35	166	---	---	---	---	PASS	T	74682983	T	T	74682983	3	4	44	1	0	0	0	0	1	0	0	0	7747	838	29	2	300	2	INO80B	2	74682983	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	257193	74682983	168516390	123	17210										
LRRTM4	80059	broad.mit.edu	37	chr2	77746506	77746506	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttagtgagttagatctcaaGtgcaaaatgatgagtttccg	10	5	1	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:77746506G>C	uc002snr.2	-	3	904	c.489C>G	c.(487-489)CAC>CAG	p.H163Q	LRRTM4_uc002snq.2_Missense_Mutation_p.H163Q|LRRTM4_uc002sns.2_Missense_Mutation_p.H163Q|LRRTM4_uc002snt.2_Missense_Mutation_p.H164Q	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	163	LRR 5.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TAGATCTCAAGTGCAAAATGA	0.408													36	86	---	---	---	---	PASS	C	77746506	C	C	77746506	3	2	44	1	0	0	0	0	1	0	0	0	9042	1020	36	4	1297	4	LRRTM4	2	77746506	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3063523	77746506	165452867	124	17211										
REG1B	5968	broad.mit.edu	37	chr2	79314036	79314036	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctgattcggggattaggcaGctctgtctgggactcctggc	15	10	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:79314036G>T	uc002sny.2	-	3	197	c.85C>A	c.(85-87)CTG>ATG	p.L29M	REG1B_uc010ffv.1_Missense_Mutation_p.L29M|REG1B_uc010ffw.2_Missense_Mutation_p.L29M	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	29					cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						GGATTAGGCAGCTCTGTCTGG	0.493													69	140	---	---	---	---	PASS	T	79314036	T	T	79314036	3	4	44	1	0	0	0	0	1	0	0	0	13211	962	34	3	431	3	REG1B	2	79314036	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1567530	79314036	163885337	125	17212										
REG1A	5967	broad.mit.edu	37	chr2	79350321	79350321	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtgaagacaagttctcctttGtctgcaagttcaaaaactag	8	8	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:79350321G>C	uc002snz.2	+	6	584	c.481G>C	c.(481-483)GTC>CTC	p.V161L	REG1A_uc010ysd.1_Missense_Mutation_p.V161L	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	161	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						GTTCTCCTTTGTCTGCAAGTT	0.418													17	77	---	---	---	---	PASS	C	79350321	C	C	79350321	3	2	44	1	0	0	0	0	1	0	0	0	13210	1377	48	4	499	4	REG1A	2	79350321	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	36285	79350321	163849052	126	17213										
REG3A	5068	broad.mit.edu	37	chr2	79385884	79385884	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgcagagggcagttccctctGgggttcttcacctgaggtgg	15	10	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:79385884G>C	uc002sod.1	-	2	343	c.88C>G	c.(88-90)CAG>GAG	p.Q30E	REG3A_uc002soe.1_Missense_Mutation_p.Q30E|REG3A_uc002sof.1_Missense_Mutation_p.Q30E	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	30					acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						AGTTCCCTCTGGGGTTCTTCA	0.552													11	25	---	---	---	---	PASS	C	79385884	C	C	79385884	3	2	44	1	0	0	0	0	1	0	0	0	13212	1357	47	4	455	4	REG3A	2	79385884	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	35563	79385884	163813489	127	17214										
C2orf89	129293	broad.mit.edu	37	chr2	85051322	85051322	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgtgtggaggtctttttactCttccctctgtacgcaagtgg	11	10	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:85051322C>T	uc010ysl.1	-	6	1178	c.1089G>A	c.(1087-1089)AAG>AAA	p.K363K	C2orf89_uc002sou.3_Silent_p.K314K	NM_001080824	NP_001074293	Q86V40	CB089_HUMAN	hypothetical protein LOC129293 precursor	363	Extracellular (Potential).					integral to membrane				ovary(1)	1						TCTTTTTACTCTTCCCTCTGT	0.547													8	33	---	---	---	---	PASS	T	85051322	T	T	85051322	2	4	44	1	0	0	0	0	0	0	0	1	2203	912	32	2		2	C2orf89	2	85051322	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	5665438	85051322	158148051	128	17215										
THNSL2	55258	broad.mit.edu	37	chr2	88484972	88484972	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtggccgtgaactaccattaCcagcagatagacaggcagca	11	11	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:88484972C>A	uc002ssz.3	+	8	1356	c.1203C>A	c.(1201-1203)TAC>TAA	p.Y401*	THNSL2_uc002ssv.2_Intron|THNSL2_uc002ssw.3_Intron|THNSL2_uc002ssx.3_Intron|THNSL2_uc002sta.3_Intron|THNSL2_uc002ssy.3_Nonsense_Mutation_p.Y401*|THNSL2_uc010fhe.2_Intron	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	401					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						ACTACCATTACCAGCAGATAG	0.592													8	26	---	---	---	---	PASS	A	88484972	A	A	88484972	4	1	44	1	0	0	0	0	0	1	0	0	15860	518	18	3	1229	3	THNSL2	2	88484972	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3433650	88484972	154714401	129	17216										
EIF2AK3	9451	broad.mit.edu	37	chr2	88874576	88874576	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attatcacagccagaatcttCaaatactattgaagaggagg	8	7	3	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:88874576C>T	uc002stc.3	-	13	2627	c.2425G>A	c.(2425-2427)GAA>AAA	p.E809K		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	809	Cytoplasmic (Potential).|Protein kinase.				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						CCAGAATCTTCAAATACTATT	0.413													49	269	---	---	---	---	PASS	T	88874576	T	T	88874576	3	4	44	1	0	0	0	0	1	0	0	0	4998	835	29	2	945	2	EIF2AK3	2	88874576	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	389604	88874576	154324797	130	17217										
EIF2AK3	9451	broad.mit.edu	37	chr2	88890072	88890072	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atcatcaaaaagactgatggGaatgactttcccatccttaa	6	9	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:88890072G>C	uc002stc.3	-	6	1256	c.1054C>G	c.(1054-1056)CCC>GCC	p.P352A		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	352	Lumenal (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						AGACTGATGGGAATGACTTTC	0.348													25	102	---	---	---	---	PASS	C	88890072	C	C	88890072	3	2	44	1	0	0	0	0	1	0	0	0	4998	1174	41	2	2344	2	EIF2AK3	2	88890072	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	15496	88890072	154309301	131	17218										
NCAPH	23397	broad.mit.edu	37	chr2	97019078	97019078	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgtgcagaagatcgccagatCtgcccttccctggccgggtt	12	13	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:97019078C>G	uc002svz.1	+	8	1029	c.945C>G	c.(943-945)ATC>ATG	p.I315M	NCAPH_uc010fhu.1_Missense_Mutation_p.I291M|NCAPH_uc010fhv.1_Missense_Mutation_p.I304M|NCAPH_uc010yum.1_Missense_Mutation_p.I291M|NCAPH_uc010fhw.1_Missense_Mutation_p.I304M|NCAPH_uc010yun.1_Missense_Mutation_p.I179M|NCAPH_uc002swa.1_Translation_Start_Site	NM_015341	NP_056156	Q15003	CND2_HUMAN	non-SMC condensin I complex, subunit H	315					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|microtubule cytoskeleton|nucleus				urinary_tract(1)|skin(1)	2		Ovarian(717;0.0221)				ATCGCCAGATCTGCCCTTCCC	0.502													17	79	---	---	---	---	PASS	G	97019078	G	G	97019078	3	3	44	1	0	0	0	0	1	0	0	0	10209	903	32	2	975	2	NCAPH	2	97019078	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	8129006	97019078	146180295	132	17219										
VWA3B	200403	broad.mit.edu	37	chr2	98744705	98744705	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcaccactgttttgcagattGaatccatttactactttgtg	7	9	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:98744705G>A	uc002syo.2	+	6	970	c.706G>A	c.(706-708)GAA>AAA	p.E236K	VWA3B_uc010yvh.1_Missense_Mutation_p.E86K|VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Intron|VWA3B_uc002sym.2_Missense_Mutation_p.E236K|VWA3B_uc002syn.1_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	236										ovary(3)|large_intestine(2)|skin(1)	6						TTTGCAGATTGAATCCATTTA	0.473													90	171	---	---	---	---	PASS	A	98744705	A	A	98744705	3	1	44	1	0	0	0	0	1	0	0	0	17238	1291	45	2	724	2	VWA3B	2	98744705	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1725627	98744705	144454668	133	17220										
VWA3B	200403	broad.mit.edu	37	chr2	98744741	98744741	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgtggtgggggatgttcctGaagaatccaaggagcttctc	14	7	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:98744741G>T	uc002syo.2	+	6	1006	c.742G>T	c.(742-744)GAA>TAA	p.E248*	VWA3B_uc010yvh.1_Nonsense_Mutation_p.E98*|VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Intron|VWA3B_uc002sym.2_Nonsense_Mutation_p.E248*|VWA3B_uc002syn.1_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	248										ovary(3)|large_intestine(2)|skin(1)	6						GGATGTTCCTGAAGAATCCAA	0.498													39	181	---	---	---	---	PASS	T	98744741	T	T	98744741	4	4	44	1	0	0	0	0	0	1	0	0	17238	1291	45	2	760	2	VWA3B	2	98744741	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	36	98744741	144454632	134	17221										
VWA3B	200403	broad.mit.edu	37	chr2	98797605	98797605	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgatgtgcttgccgactgctCtttccgccacgctgatgggg	13	12	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:98797605C>T	uc002syo.2	+	9	1505	c.1241C>T	c.(1240-1242)TCT>TTT	p.S414F	VWA3B_uc010yvh.1_Missense_Mutation_p.S264F|VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_5'UTR|VWA3B_uc002sym.2_Missense_Mutation_p.S414F|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.S71F	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	414										ovary(3)|large_intestine(2)|skin(1)	6						GCCGACTGCTCTTTCCGCCAC	0.537													29	118	---	---	---	---	PASS	T	98797605	T	T	98797605	3	4	44	1	0	0	0	0	1	0	0	0	17238	913	32	2	1271	2	VWA3B	2	98797605	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	52864	98797605	144401768	135	17222										
C2orf55	343990	broad.mit.edu	37	chr2	99443447	99443447	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacccaattaccgatgagagCcgcctcatcttactcgaccg	7	15	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:99443447C>T	uc002szf.1	-	6	1020	c.726G>A	c.(724-726)CGG>CGA	p.R242R		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	242											0						CCGATGAGAGCCGCCTCATCT	0.602													92	157	---	---	---	---	PASS	T	99443447	T	T	99443447	2	4	44	1	0	0	0	0	0	0	0	1	2176	726	26	3		3	C2orf55	2	99443447	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	645842	99443447	143755926	136	17223										
MAP4K4	9448	broad.mit.edu	37	chr2	102456381	102456381	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacatccttttataagggatCagccaaatgaaaggcaagtt	8	7	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:102456381C>T	uc002tbg.2	+	10	929	c.874C>T	c.(874-876)CAG>TAG	p.Q292*	MAP4K4_uc002tbc.2_Nonsense_Mutation_p.Q292*|MAP4K4_uc002tbd.2_Nonsense_Mutation_p.Q292*|MAP4K4_uc002tbe.2_Nonsense_Mutation_p.Q292*|MAP4K4_uc002tbf.2_Nonsense_Mutation_p.Q292*|MAP4K4_uc010yvy.1_Nonsense_Mutation_p.Q292*|MAP4K4_uc002tbh.2_Nonsense_Mutation_p.Q292*|MAP4K4_uc002tbi.2_Intron|MAP4K4_uc010yvz.1_Nonsense_Mutation_p.Q272*|MAP4K4_uc010fiw.1_Nonsense_Mutation_p.Q134*|MAP4K4_uc002tbj.1_Nonsense_Mutation_p.Q188*	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	292					intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TATAAGGGATCAGCCAAATGA	0.408													19	99	---	---	---	---	PASS	T	102456381	T	T	102456381	4	4	44	1	0	0	0	0	0	1	0	0	9262	827	29	2	912	2	MAP4K4	2	102456381	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3012934	102456381	140742992	137	17224										
GCC2	9648	broad.mit.edu	37	chr2	109100635	109100635	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaaccacattgatgaatatgGaaatagctgattatgaacgt	8	5	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:109100635G>T	uc002tec.2	+	13	3635	c.3481G>T	c.(3481-3483)GAA>TAA	p.E1161*	GCC2_uc002ted.2_Nonsense_Mutation_p.E1060*	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	1161	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						GATGAATATGGAAATAGCTGA	0.259													20	109	---	---	---	---	PASS	T	109100635	T	T	109100635	4	4	44	1	0	0	0	0	0	1	0	0	6286	1175	41	2	3531	2	GCC2	2	109100635	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	6644254	109100635	134098738	138	17225										
LIMS1	3987	broad.mit.edu	37	chr2	109276161	109276161	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtaatggggagctgtaccatGagcagtgtttcgtgtgcgct	15	7	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:109276161G>C	uc002teg.2	+	2	216	c.97G>C	c.(97-99)GAG>CAG	p.E33Q	LIMS1_uc002tef.2_Missense_Mutation_p.E45Q|LIMS1_uc002teh.2_Missense_Mutation_p.E33Q|LIMS1_uc002tei.2_Missense_Mutation_p.E33Q|LIMS1_uc002tej.2_Missense_Mutation_p.E70Q|LIMS1_uc002tek.3_Missense_Mutation_p.E95Q	NM_004987	NP_004978	P48059	LIMS1_HUMAN	LIM and senescent cell antigen-like domains 1	33	LIM zinc-binding 1.				cell aging|cell junction assembly|cellular response to transforming growth factor beta stimulus|negative regulation of transcription, DNA-dependent	cytosol|focal adhesion|perinuclear region of cytoplasm	protein binding|zinc ion binding				0						GCTGTACCATGAGCAGTGTTT	0.587													3	146	---	---	---	---	PASS	C	109276161	C	C	109276161	3	2	44	1	0	0	0	0	1	0	0	0	8803	1291	45	2	99	2	LIMS1	2	109276161	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	175526	109276161	133923212	139	17226										
CNTNAP5	129684	broad.mit.edu	37	chr2	125530508	125530508	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaacctcaaggagacctcccTgcaggtggacaaccttccaa	9	14	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:125530508T>A	uc002tno.2	+	17	3027	c.2663T>A	c.(2662-2664)CTG>CAG	p.L888Q	CNTNAP5_uc010flu.2_Missense_Mutation_p.L889Q	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	888	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GAGACCTCCCTGCAGGTGGAC	0.547													37	136	---	---	---	---	PASS	A	125530508	A	A	125530508	3	1	44	1	0	0	0	0	1	0	0	0	3650	1580	55	5	2729	5	CNTNAP5	2	125530508	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	16254347	125530508	117668865	140	17227										
GPR148	344561	broad.mit.edu	37	chr2	131486964	131486964	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atcctgcggaaccaacggctGcgacaggagccccactacct	10	16	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:131486964G>A	uc002trv.1	+	1	242	c.240G>A	c.(238-240)CTG>CTA	p.L80L		NM_207364	NP_997247	Q8TDV2	GP148_HUMAN	G protein-coupled receptor 148	80	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1	Colorectal(110;0.1)					ACCAACGGCTGCGACAGGAGC	0.617													35	54	---	---	---	---	PASS	A	131486964	A	A	131486964	2	1	44	1	0	0	0	0	0	0	0	1	6653	1306	46	3		3	GPR148	2	131486964	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	5956456	131486964	111712409	141	17228										
FAM123C	205147	broad.mit.edu	37	chr2	131521481	131521481	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgaggtcactctgaaggcttGttctcctctatggagtctgc	11	11	5	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:131521481G>T	uc002trw.2	+	2	2026	c.1836G>T	c.(1834-1836)TTG>TTT	p.L612F	FAM123C_uc010fmv.2_Missense_Mutation_p.L612F|FAM123C_uc010fms.1_Missense_Mutation_p.L612F|FAM123C_uc010fmt.1_Missense_Mutation_p.L612F|FAM123C_uc010fmu.1_Missense_Mutation_p.L612F	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	612										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		CTGAAGGCTTGTTCTCCTCTA	0.577													27	105	---	---	---	---	PASS	T	131521481	T	T	131521481	3	4	44	1	0	0	0	0	1	0	0	0	5424	1368	48	3	1838	3	FAM123C	2	131521481	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	34517	131521481	111677892	142	17229										
POTEE	445582	broad.mit.edu	37	chr2	132021447	132021447	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agcaccccatcctgctgaccGaggcccccctgaaccccaag	8	20	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:132021447G>T	uc002tsn.2	+	15	2471	c.2419G>T	c.(2419-2421)GAG>TAG	p.E807*	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Nonsense_Mutation_p.E407*|POTEE_uc002tsl.2_Nonsense_Mutation_p.E389*|POTEE_uc010fmy.1_Nonsense_Mutation_p.E271*	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	807	Actin-like.						ATP binding				0						CCTGCTGACCGAGGCCCCCCT	0.602													91	89	---	---	---	---	PASS	T	132021447	T	T	132021447	4	4	44	1	0	0	0	0	0	1	0	0	12264	1059	37	2	2477	2	POTEE	2	132021447	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	499966	132021447	111177926	143	17230										
CCDC74A	90557	broad.mit.edu	37	chr2	132290239	132290239	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccagggcaggcagatgggggCgggggcacaccccccaatga	17	13	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:132290239C>T	uc002tta.2	+	5	813	c.761C>T	c.(760-762)GCG>GTG	p.A254V	CCDC74A_uc002ttb.2_Missense_Mutation_p.A188V	NM_138770	NP_620125	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	254										skin(1)	1						CAGATGGGGGCGGGGGCACAC	0.602													39	152	---	---	---	---	PASS	T	132290239	T	T	132290239	3	4	44	1	0	0	0	0	1	0	0	0	2847	768	27	1	779	1	CCDC74A	2	132290239	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	268792	132290239	110909134	144	17231										
YSK4	80122	broad.mit.edu	37	chr2	135744573	135744573	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaggaacacatgacttctgTgttcctggatttttacagat	9	7	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:135744573T>C	uc002tue.1	-	7	1900	c.1869A>G	c.(1867-1869)ACA>ACG	p.T623T	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Silent_p.T510T|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Silent_p.T351T|YSK4_uc002tui.3_Silent_p.T640T	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	623							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		ATGACTTCTGTGTTCCTGGAT	0.373													124	307	---	---	---	---	PASS	C	135744573	C	C	135744573	2	2	44	1	0	0	0	0	0	0	0	1	17492	1683	59	5		5	YSK4	2	135744573	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	3454334	135744573	107454800	145	17232										
YSK4	80122	broad.mit.edu	37	chr2	135744883	135744883	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cattttcttggtgtacaggtAtgttgacactatggttgtta	10	5	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:135744883A>G	uc002tue.1	-	7	1590	c.1559T>C	c.(1558-1560)ATA>ACA	p.I520T	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Missense_Mutation_p.I407T|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Missense_Mutation_p.I248T|YSK4_uc002tui.3_Missense_Mutation_p.I537T	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	520							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		GTGTACAGGTATGTTGACACT	0.423													41	124	---	---	---	---	PASS	G	135744883	G	G	135744883	3	3	44	1	0	0	0	0	1	0	0	0	17492	449	16	5	2443	5	YSK4	2	135744883	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	310	135744883	107454490	146	17233										
ZRANB3	84083	broad.mit.edu	37	chr2	135965199	135965199	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caaaactcttcctgacatttCagagagcaaaaccgtgaatc	6	11	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:135965199C>A	uc002tum.2	-	19	2931	c.2814G>T	c.(2812-2814)CTG>CTT	p.L938L	ZRANB3_uc002tuk.2_Silent_p.L481L|ZRANB3_uc002tul.2_Silent_p.L936L	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	938						intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		CCTGACATTTCAGAGAGCAAA	0.428													72	246	---	---	---	---	PASS	A	135965199	A	A	135965199	2	1	44	1	0	0	0	0	0	0	0	1	18221	813	29	2		2	ZRANB3	2	135965199	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	220316	135965199	107234174	147	17234										
LCT	3938	broad.mit.edu	37	chr2	136566025	136566025	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcacacacctttcaaagcctCattgatgtaggttttgtggt	8	9	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:136566025C>G	uc002tuu.1	-	8	3903	c.3892G>C	c.(3892-3894)GAG>CAG	p.E1298Q		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1298	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TTCAAAGCCTCATTGATGTAG	0.443													80	305	---	---	---	---	PASS	G	136566025	G	G	136566025	3	3	44	1	0	0	0	0	1	0	0	0	8693	835	29	2	1931	2	LCT	2	136566025	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	600826	136566025	106633348	148	17235										
LRP1B	53353	broad.mit.edu	37	chr2	141130580	141130580	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tacttcaatccttttacctgGctcacagcttttctcatctt	3	13	4	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:141130580G>T	uc002tvj.1	-	69	11737	c.10765C>A	c.(10765-10767)CCA>ACA	p.P3589T		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3589	Extracellular (Potential).				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)		CTTTTACCTGGCTCACAGCTT	0.363										TSP Lung(27;0.18)			81	151	---	---	---	---	PASS	T	141130580	T	T	141130580	3	4	44	1	0	0	0	0	1	0	0	0	8955	1203	42	3	3126	3	LRP1B	2	141130580	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4564555	141130580	102068793	149	17236										
ZEB2	9839	broad.mit.edu	37	chr2	145157151	145157151	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctggaggcaagctttggcttCattgactttttccaacgtat	9	9	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:145157151C>T	uc002tvu.2	-	8	2083	c.1603G>A	c.(1603-1605)GAA>AAA	p.E535K	ZEB2_uc002tvv.2_Missense_Mutation_p.E529K|ZEB2_uc010zbm.1_Missense_Mutation_p.E506K|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.E564K	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	535						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		GCTTTGGCTTCATTGACTTTT	0.403													33	119	---	---	---	---	PASS	T	145157151	T	T	145157151	3	4	44	1	0	0	0	0	1	0	0	0	17621	835	29	2	2053	2	ZEB2	2	145157151	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4026571	145157151	98042222	150	17237										
RND3	390	broad.mit.edu	37	chr2	151343232	151343232	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtgtcccacaggctcaactCtattctttgtgtgtcgattt	8	10	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:151343232C>A	uc002txe.2	-	2	458	c.214G>T	c.(214-216)GAG>TAG	p.E72*	RND3_uc002txf.2_Nonsense_Mutation_p.E72*|RND3_uc002txg.2_Nonsense_Mutation_p.E72*|RND3_uc010zbv.1_Nonsense_Mutation_p.E72*|RND3_uc010zbw.1_5'UTR	NM_005168	NP_005159	P61587	RND3_HUMAN	ras homolog gene family, member E precursor	72					actin cytoskeleton organization|cell adhesion|small GTPase mediated signal transduction	Golgi membrane	GTP binding|GTPase activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.106)		AGGCTCAACTCTATTCTTTGT	0.532													48	253	---	---	---	---	PASS	A	151343232	A	A	151343232	4	1	44	1	0	0	0	0	0	1	0	0	13421	922	32	2	536	2	RND3	2	151343232	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	6186081	151343232	91856141	151	17238										
PRPF40A	55660	broad.mit.edu	37	chr2	153528972	153528972	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgtaacactaaacatcttaCttgtatctggttgtagaagt	7	6	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:153528972C>G	uc002tyh.3	-	13	1392	c.1370_splice	c.e13+1	p.K457_splice	PRPF40A_uc002tyg.3_5'Flank|PRPF40A_uc010zcd.1_Splice_Site_p.K404_splice	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3						mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						AAACATCTTACTTGTATCTGG	0.348													34	80	---	---	---	---	PASS	G	153528972	G	G	153528972	5	3	44	1	0	0	0	0	0	0	1	0	12571	579	20	4	1477	4	PRPF40A	2	153528972	Splice_Site	SNP	C	TCGA-22-5473-01A-01D-1632-08	2185740	153528972	89670401	152	17239										
GALNT13	114805	broad.mit.edu	37	chr2	155265537	155265537	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagtgtttagacaacatgggCcgcaaggaaaatgaaaaagt	11	6	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:155265537C>T	uc002tyr.3	+	11	1905	c.1338C>T	c.(1336-1338)GGC>GGT	p.G446G	GALNT13_uc002tyt.3_Silent_p.G446G|GALNT13_uc010foc.1_Silent_p.G265G|GALNT13_uc010fod.2_Silent_p.G199G	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	446	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						ACAACATGGGCCGCAAGGAAA	0.368													22	84	---	---	---	---	PASS	T	155265537	T	T	155265537	2	4	44	1	0	0	0	0	0	0	0	1	6211	726	26	3		3	GALNT13	2	155265537	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1736565	155265537	87933836	153	17240										
GALNT5	11227	broad.mit.edu	37	chr2	158152278	158152278	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaaagaaagtggcctgtccAgtaatcgaagtcatcaatga	10	7	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:158152278A>G	uc002tzg.2	+	4	2100	c.1845A>G	c.(1843-1845)CCA>CCG	p.P615P	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	615	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						TGGCCTGTCCAGTAATCGAAG	0.363													85	131	---	---	---	---	PASS	G	158152278	G	G	158152278	2	3	44	1	0	0	0	0	0	0	0	1	6216	175	7	5		5	GALNT5	2	158152278	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	2886741	158152278	85047095	154	17241										
FAP	2191	broad.mit.edu	37	chr2	163076375	163076375	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acacttactaatttactcccAacaggcgaccagcataaata	4	12	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:163076375A>C	uc002ucd.2	-	7	682	c.474T>G	c.(472-474)GTT>GTG	p.V158V	FAP_uc010zct.1_Silent_p.V133V|FAP_uc010fpd.2_Intron|FAP_uc010fpe.1_Silent_p.V125V	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	158	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						ATTTACTCCCAACAGGCGACC	0.348													19	98	---	---	---	---	PASS	C	163076375	C	C	163076375	2	2	44	1	0	0	0	0	0	0	0	1	5673	117	5	5		5	FAP	2	163076375	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	4924097	163076375	80122998	155	17242										
KCNH7	90134	broad.mit.edu	37	chr2	163228560	163228560	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caccccacttgaaagggattCtttggatttaagtttagatt	8	7	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:163228560C>T	uc002uch.1	-	16	3582	c.3370G>A	c.(3370-3372)GAA>AAA	p.E1124K		NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	1124	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	GAAAGGGATTCTTTGGATTTA	0.353													18	54	---	---	---	---	PASS	T	163228560	T	T	163228560	3	4	44	1	0	0	0	0	1	0	0	0	8037	922	32	2	224	2	KCNH7	2	163228560	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	152185	163228560	79970813	156	17243										
FIGN	55137	broad.mit.edu	37	chr2	164467083	164467083	+	Missense_Mutation	SNP	C	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttactggcgatgtgtacttcCcaaaggattcactggatctt							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:164467083C>A	uc002uck.1	-	3	1570	c.1259G>T	c.(1258-1260)GGG>GTG	p.G420V		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	420						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						TGTGTACTTCCCAAAGGATTC	0.527													41	79	---	---	---	---	PASS	A	164467083	A	A	164467083	3	1	44	1	0	0	0	0	1	0	0	0	5891	623	22	3	1024	3	FIGN	2	164467083	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1238523	164467083	78732290	157	17244	403	2								
FIGN	55137	broad.mit.edu	37	chr2	164467084	164467084	+	Missense_Mutation	SNP	C	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tactggcgatgtgtacttccCaaaggattcactggatcttg							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:164467084C>A	uc002uck.1	-	3	1569	c.1258G>T	c.(1258-1260)GGG>TGG	p.G420W		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	420						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						GTGTACTTCCCAAAGGATTCA	0.522													41	80	---	---	---	---	PASS	A	164467084	A	A	164467084	3	1	44	1	0	0	0	0	1	0	0	0	5891	594	21	3	1025	3	FIGN	2	164467084	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1	164467084	78732289	158	17245	403	2								
SCN1A	6323	broad.mit.edu	37	chr2	166900541	166900541	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccttggtgaaaatagggagcCacggatgctcaacaaagact	11	9	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:166900541C>A	uc010zcz.1	-	11	1699	c.1681G>T	c.(1681-1683)GGC>TGC	p.G561C	SCN1A_uc002udo.3_Missense_Mutation_p.G430C|SCN1A_uc010fpk.2_Missense_Mutation_p.G430C	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	561						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AATAGGGAGCCACGGATGCTC	0.393													18	65	---	---	---	---	PASS	A	166900541	A	A	166900541	3	1	44	1	0	0	0	0	1	0	0	0	13914	594	21	3	4412	3	SCN1A	2	166900541	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2433457	166900541	76298832	159	17246										
XIRP2	129446	broad.mit.edu	37	chr2	168103509	168103509	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attataaaaggtaacatgctAgccacactcaagtcacttaa	5	9	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:168103509A>T	uc002udx.2	+	8	5625	c.5607A>T	c.(5605-5607)CTA>CTT	p.L1869L	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.L1694L|XIRP2_uc010fpq.2_Silent_p.L1647L|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1694					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GTAACATGCTAGCCACACTCA	0.383													17	92	---	---	---	---	PASS	T	168103509	T	T	168103509	2	4	44	1	0	0	0	0	0	0	0	1	17427	407	15	5		5	XIRP2	2	168103509	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	1202968	168103509	75095864	160	17247										
ABCB11	8647	broad.mit.edu	37	chr2	169836446	169836446	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggcttccaaacaaggagagGcattgccaagatttaaagct	10	8	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:169836446G>C	uc002ueo.1	-	11	1253	c.1127C>G	c.(1126-1128)GCC>GGC	p.A376G		NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	376	Cytoplasmic (Potential).|ABC transmembrane type-1 1.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	ACAAGGAGAGGCATTGCCAAG	0.378													9	49	---	---	---	---	PASS	C	169836446	C	C	169836446	3	2	44	1	0	0	0	0	1	0	0	0	42	1203	42	4	2910	4	ABCB11	2	169836446	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1732937	169836446	73362927	161	17248										
LRP2	4036	broad.mit.edu	37	chr2	170062105	170062105	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttcctcccaatgtggctctCtcgattttggcatgtgtatc	8	11	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:170062105C>G	uc002ues.2	-	41	7812	c.7599G>C	c.(7597-7599)GAG>GAC	p.E2533D		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2533	LDL-receptor class B 27.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ATGTGGCTCTCTCGATTTTGG	0.468													20	89	---	---	---	---	PASS	G	170062105	G	G	170062105	3	3	44	1	0	0	0	0	1	0	0	0	8956	912	32	2	6524	2	LRP2	2	170062105	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	225659	170062105	73137268	162	17249										
UBR3	130507	broad.mit.edu	37	chr2	170806565	170806565	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagagaagaaaacattggacAaagaagaaaggtaattttta	9	3	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:170806565A>G	uc010zdi.1	+	23	3535	c.3535A>G	c.(3535-3537)AAA>GAA	p.K1179E	UBR3_uc002ufr.3_RNA|UBR3_uc010fqa.2_5'UTR|UBR3_uc002uft.3_Missense_Mutation_p.K32E	NM_172070	NP_742067	Q6ZT12	UBR3_HUMAN	E3 ubiquitin-protein ligase UBR3	1179	Potential.				sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0						AACATTGGACAAAGAAGAAAG	0.328													23	79	---	---	---	---	PASS	G	170806565	G	G	170806565	3	3	44	1	0	0	0	0	1	0	0	0	16900	131	5	5	3625	5	UBR3	2	170806565	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	744460	170806565	72392808	163	17250										
ITGA6	3655	broad.mit.edu	37	chr2	173349611	173349611	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgagcccaaatatactcaaGaactaactctgaagaggcag	8	10	2	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:173349611G>C	uc002uhp.1	+	12	1854	c.1651G>C	c.(1651-1653)GAA>CAA	p.E551Q	ITGA6_uc010zdy.1_Missense_Mutation_p.E432Q|ITGA6_uc002uho.1_Missense_Mutation_p.E551Q|ITGA6_uc010fqm.1_Missense_Mutation_p.E197Q	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a	590	Extracellular (Potential).				blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			ATATACTCAAGAACTAACTCT	0.443													29	81	---	---	---	---	PASS	C	173349611	C	C	173349611	3	2	44	1	0	0	0	0	1	0	0	0	7880	943	33	2	1697	2	ITGA6	2	173349611	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2543046	173349611	69849762	164	17251										
NFE2L2	4780	broad.mit.edu	37	chr2	178098968	178098968	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttactccaagatctatatctTgcctccaaagtatgtcaatc	4	11	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:178098968T>G	uc002ulh.3	-	2	632	c.77A>C	c.(76-78)CAA>CCA	p.Q26P	NFE2L2_uc002ulg.3_Missense_Mutation_p.Q10P|NFE2L2_uc010zfa.1_Missense_Mutation_p.Q10P|NFE2L2_uc002uli.3_Missense_Mutation_p.Q10P|NFE2L2_uc010fra.2_Missense_Mutation_p.Q10P|NFE2L2_uc010frb.2_Missense_Mutation_p.Q10P	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	26					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			ATCTATATCTTGCCTCCAAAG	0.348			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			16	73	---	---	---	---	PASS	G	178098968	G	G	178098968	3	3	44	1	0	0	0	0	1	0	0	0	10368	1812	63	5	1756	5	NFE2L2	2	178098968	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	4749357	178098968	65100405	165	17252										
OSBPL6	114880	broad.mit.edu	37	chr2	179238668	179238668	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tatcacagcaagtagccaatGagagccgcctctccatgtca	8	13	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:179238668G>A	uc002ulx.2	+	15	1825	c.1447G>A	c.(1447-1449)GAG>AAG	p.E483K	OSBPL6_uc002ulw.2_Missense_Mutation_p.E416K|OSBPL6_uc002uly.2_Missense_Mutation_p.E508K|OSBPL6_uc010zfe.1_Missense_Mutation_p.E452K|OSBPL6_uc002ulz.2_Missense_Mutation_p.E447K|OSBPL6_uc002uma.2_Missense_Mutation_p.E487K	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	483					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			AGTAGCCAATGAGAGCCGCCT	0.483													27	98	---	---	---	---	PASS	A	179238668	A	A	179238668	3	1	44	1	0	0	0	0	1	0	0	0	11281	1291	45	2	1619	2	OSBPL6	2	179238668	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1139700	179238668	63960705	166	17253										
TTN	7273	broad.mit.edu	37	chr2	179400936	179400936	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcactttgcagaccaaggtaGcattgctctgatatctgaca	8	10	3	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:179400936G>A	uc010zfg.1	-	306	93058	c.92834C>T	c.(92833-92835)GCT>GTT	p.A30945V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A24640V|TTN_uc010zfi.1_Missense_Mutation_p.A24573V|TTN_uc010zfj.1_Missense_Mutation_p.A24448V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31872							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)			GACCAAGGTAGCATTGCTCTG	0.393													9	37	---	---	---	---	PASS	A	179400936	A	A	179400936	3	1	44	1	0	0	0	0	1	0	0	0	16732	971	34	3	7465	3	TTN	2	179400936	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	162268	179400936	63798437	167	17254										
TTN	7273	broad.mit.edu	37	chr2	179402377	179402377	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgcttgcaggagaagcttaCtactggtttctacttctcca	8	10	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:179402377C>T	uc010zfg.1	-	304	92077	c.91853G>A	c.(91852-91854)AGT>AAT	p.S30618N	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S24313N|TTN_uc010zfi.1_Missense_Mutation_p.S24246N|TTN_uc010zfj.1_Missense_Mutation_p.S24121N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31545							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)			GAGAAGCTTACTACTGGTTTC	0.463													16	69	---	---	---	---	PASS	T	179402377	T	T	179402377	3	4	44	1	0	0	0	0	1	0	0	0	16732	565	20	3	8454	3	TTN	2	179402377	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1441	179402377	63796996	168	17255										
TTN	7273	broad.mit.edu	37	chr2	179431323	179431323	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atctcactgccgccatcataGatgggtttaccccaggcaag	9	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:179431323G>A	uc010zfg.1	-	275	72056	c.71832C>T	c.(71830-71832)ATC>ATT	p.I23944I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.I17639I|TTN_uc010zfi.1_Silent_p.I17572I|TTN_uc010zfj.1_Silent_p.I17447I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24871							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)			CGCCATCATAGATGGGTTTAC	0.443													81	269	---	---	---	---	PASS	A	179431323	A	A	179431323	2	1	44	1	0	0	0	0	0	0	0	1	16732	932	33	2		2	TTN	2	179431323	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	28946	179431323	63768050	169	17256										
TTN	7273	broad.mit.edu	37	chr2	179443940	179443940	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aatcgtacactataagagttGtgttaaccgcagatgactca	8	8	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:179443940G>T	uc010zfg.1	-	269	60337	c.60113C>A	c.(60112-60114)ACA>AAA	p.T20038K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T13733K|TTN_uc010zfi.1_Missense_Mutation_p.T13666K|TTN_uc010zfj.1_Missense_Mutation_p.T13541K|uc002umv.1_Missense_Mutation_p.V56L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20965							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)			TATAAGAGTTGTGTTAACCGC	0.438													77	110	---	---	---	---	PASS	T	179443940	T	T	179443940	3	4	44	1	0	0	0	0	1	0	0	0	16732	1377	48	3	40334	3	TTN	2	179443940	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	12617	179443940	63755433	170	17257										
TTN	7273	broad.mit.edu	37	chr2	179444806	179444806	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggagcactcagttgtcactGtagaccaggatttcctctct	9	11	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:179444806G>T	uc010zfg.1	-	267	59728	c.59504C>A	c.(59503-59505)ACA>AAA	p.T19835K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T13530K|TTN_uc010zfi.1_Missense_Mutation_p.T13463K|TTN_uc010zfj.1_Missense_Mutation_p.T13338K|uc002umv.1_3'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20762							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)			AGTTGTCACTGTAGACCAGGA	0.443													60	169	---	---	---	---	PASS	T	179444806	T	T	179444806	3	4	44	1	0	0	0	0	1	0	0	0	16732	1377	48	3	40951	3	TTN	2	179444806	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	866	179444806	63754567	171	17258										
TTN	7273	broad.mit.edu	37	chr2	179479049	179479049	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attggttacatctgtgatgtCaaaggcagctggtggtccgg	14	7	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:179479049C>G	uc010zfg.1	-	211	41595	c.41371G>C	c.(41371-41373)GAC>CAC	p.D13791H	uc002ump.1_RNA|TTN_uc010zfh.1_Missense_Mutation_p.D7486H|TTN_uc010zfi.1_Missense_Mutation_p.D7419H|TTN_uc010zfj.1_Missense_Mutation_p.D7294H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14718							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)			TCTGTGATGTCAAAGGCAGCT	0.393													20	72	---	---	---	---	PASS	G	179479049	G	G	179479049	3	3	44	1	0	0	0	0	1	0	0	0	16732	826	29	2	59022	2	TTN	2	179479049	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	34243	179479049	63720324	172	17259										
TTN	7273	broad.mit.edu	37	chr2	179532008	179532008	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttcaggaatagcctcaggtgGctccacctctggaaaaatgc	10	11	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:179532008G>C	uc010zfk.1	-	8	822	c.274C>G	c.(274-276)CCA>GCA	p.P92A	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			GCCTCAGGTGGCTCCACCTCT	0.338													3	18	---	---	---	---	PASS	C	179532008	C	C	179532008	3	2	44	1	0	0	0	0	1	0	0	0	16732	1218	42	4		4	TTN	2	179532008	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	52959	179532008	63667365	173	17260										
TTN	7273	broad.mit.edu	37	chr2	179605624	179605624	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tccaaaatggattgcaattcCtgagctcccaaaggaagctg	9	10	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:179605624C>T	uc010zfh.1	-	46	12047	c.11823G>A	c.(11821-11823)CAG>CAA	p.Q3941Q	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Silent_p.Q3874Q|TTN_uc010zfj.1_Silent_p.Q3749Q|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			ATTGCAATTCCTGAGCTCCCA	0.413													40	136	---	---	---	---	PASS	T	179605624	T	T	179605624	2	4	44	1	0	0	0	0	0	0	0	1	16732	680	24	3		3	TTN	2	179605624	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	73616	179605624	63593749	174	17261										
ZNF385B	151126	broad.mit.edu	37	chr2	180310440	180310440	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cattacgagcttcaaccatgGtcttgtgtttagatcctaag	8	9	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:180310440G>T	uc002unn.3	-	8	1536	c.932C>A	c.(931-933)ACC>AAC	p.T311N	ZNF385B_uc002unj.2_Missense_Mutation_p.T209N|ZNF385B_uc002unk.2_RNA|ZNF385B_uc002unl.2_Missense_Mutation_p.T208N|ZNF385B_uc002unm.2_Missense_Mutation_p.T235N	NM_152520	NP_689733	Q569K4	Z385B_HUMAN	zinc finger protein 385B isoform 1	311	Matrin-type 3.					nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			TTCAACCATGGTCTTGTGTTT	0.388													31	97	---	---	---	---	PASS	T	180310440	T	T	180310440	3	4	44	1	0	0	0	0	1	0	0	0	17874	1261	44	3	495	3	ZNF385B	2	180310440	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	704816	180310440	62888933	175	17262										
CWC22	57703	broad.mit.edu	37	chr2	180810308	180810308	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttctgaccttctttctctctCagtccttgtttcctggtgcc	6	14	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:180810308C>T	uc010frh.1	-	20	2575	c.2275G>A	c.(2275-2277)GAG>AAG	p.E759K	CWC22_uc002uno.2_Missense_Mutation_p.E281K|CWC22_uc002unp.2_Missense_Mutation_p.E759K	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	759						catalytic step 2 spliceosome	protein binding|RNA binding				0						CTTTCTCTCTCAGTCCTTGTT	0.373													27	148	---	---	---	---	PASS	T	180810308	T	T	180810308	3	4	44	1	0	0	0	0	1	0	0	0	4068	835	29	2	455	2	CWC22	2	180810308	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	499868	180810308	62389065	176	17263										
ITGA4	3676	broad.mit.edu	37	chr2	182363449	182363449	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttctgacgtgattacaggaaGcatacaggtgtccagcagag	12	8	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:182363449G>A	uc002unu.2	+	15	2403	c.1640G>A	c.(1639-1641)AGC>AAC	p.S547N	ITGA4_uc010frj.1_Missense_Mutation_p.S29N	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	547	Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	ATTACAGGAAGCATACAGGTG	0.368													55	80	---	---	---	---	PASS	A	182363449	A	A	182363449	3	1	44	1	0	0	0	0	1	0	0	0	7878	971	34	3	1698	3	ITGA4	2	182363449	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1553141	182363449	60835924	177	17264										
NEUROD1	4760	broad.mit.edu	37	chr2	182543437	182543437	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcccccgttcctcagtgagtCctcctctgcgttcatggttt	8	15	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:182543437C>A	uc002uof.2	-	2	387	c.151G>T	c.(151-153)GAC>TAC	p.D51Y	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	51					amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			CTCAGTGAGTCCTCCTCTGCG	0.408													6	20	---	---	---	---	PASS	A	182543437	A	A	182543437	3	1	44	1	0	0	0	0	1	0	0	0	10348	855	30	2	923	2	NEUROD1	2	182543437	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	179988	182543437	60655936	178	17265										
NCKAP1	10787	broad.mit.edu	37	chr2	183902800	183902800	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttctccgccagcttctgctGactgggctgcagcactgagc	11	15	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:183902800G>A	uc002upc.2	-	1	430	c.28C>T	c.(28-30)CAG>TAG	p.Q10*	NCKAP1_uc002upb.2_Nonsense_Mutation_p.Q10*	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	10					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			AGCTTCTGCTGACTGGGCTGC	0.507													5	23	---	---	---	---	PASS	A	183902800	A	A	183902800	4	1	44	1	0	0	0	0	0	1	0	0	10221	1299	45	2	3504	2	NCKAP1	2	183902800	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1359363	183902800	59296573	179	17266										
ZNF804A	91752	broad.mit.edu	37	chr2	185802654	185802654	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agacaattcttccttaaatcCtctggataggttaataagtg	7	7	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:185802654C>T	uc002uph.2	+	4	3125	c.2531C>T	c.(2530-2532)CCT>CTT	p.P844L		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	844						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TCCTTAAATCCTCTGGATAGG	0.358													31	46	---	---	---	---	PASS	T	185802654	T	T	185802654	3	4	44	1	0	0	0	0	1	0	0	0	18167	681	24	3	2545	3	ZNF804A	2	185802654	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1899854	185802654	57396719	180	17267										
COL5A2	1290	broad.mit.edu	37	chr2	189899670	189899670	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgtcttgaagaacgatatacCggaatctaatatttccctct	6	9	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:189899670C>G	uc002uqk.2	-	53	4600	c.4325G>C	c.(4324-4326)CGG>CCG	p.R1442P	COL5A2_uc010frx.2_Missense_Mutation_p.R1018P	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	1442	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			AACGATATACCGGAATCTAAT	0.348													20	123	---	---	---	---	PASS	G	189899670	G	G	189899670	3	3	44	1	0	0	0	0	1	0	0	0	3697	652	23	4	182	4	COL5A2	2	189899670	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4097016	189899670	53299703	181	17268										
ASNSD1	54529	broad.mit.edu	37	chr2	190532308	190532308	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggaaggagtgaaatcctatCagagcaatgcaaaggtatga	12	5	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:190532308C>T	uc002uqt.2	+	4	1884	c.1450C>T	c.(1450-1452)CAG>TAG	p.Q484*		NM_019048	NP_061921	Q9NWL6	ASND1_HUMAN	asparagine synthetase domain containing 1	484	Asparagine synthetase.				asparagine biosynthetic process|glutamine metabolic process		asparagine synthase (glutamine-hydrolyzing) activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0449)|all cancers(119;0.118)			GAAATCCTATCAGAGCAATGC	0.408													58	213	---	---	---	---	PASS	T	190532308	T	T	190532308	4	4	44	1	0	0	0	0	0	1	0	0	1049	827	29	2	1452	2	ASNSD1	2	190532308	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	632638	190532308	52667065	182	17269										
STAT1	6772	broad.mit.edu	37	chr2	191862686	191862686	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcattaatcagggcattctgGgtaagttcagtgacattcag	10	7	5	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:191862686G>T	uc002usj.2	-	9	1069	c.681C>A	c.(679-681)ACC>ACA	p.T227T	STAT1_uc010fse.1_Silent_p.T227T|STAT1_uc002usk.2_Silent_p.T227T|STAT1_uc002usl.2_Silent_p.T229T|STAT1_uc010fsf.1_Silent_p.T39T	NM_007315	NP_009330	P42224	STAT1_HUMAN	signal transducer and activator of transcription	227					activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)	GGGCATTCTGGGTAAGTTCAG	0.423													20	81	---	---	---	---	PASS	T	191862686	T	T	191862686	2	4	44	1	0	0	0	0	0	0	0	1	15263	1219	43	3		3	STAT1	2	191862686	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1330378	191862686	51336687	183	17270										
DNAH7	56171	broad.mit.edu	37	chr2	196664154	196664154	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gggtggttcaatgaatgcacGtcccaatctgttgattataa	10	7	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:196664154G>T	uc002utj.3	-	55	10320	c.10219C>A	c.(10219-10221)CGT>AGT	p.R3407S		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3407	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						ATGAATGCACGTCCCAATCTG	0.413													59	91	---	---	---	---	PASS	T	196664154	T	T	196664154	3	4	44	1	0	0	0	0	1	0	0	0	4606	1145	40	1	1899	1	DNAH7	2	196664154	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4801468	196664154	46535219	184	17271										
HECW2	57520	broad.mit.edu	37	chr2	197092865	197092865	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caaaagcagacataggacttAtttgtactgtgtatgtgtca	9	6	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:197092865A>G	uc002utm.1	-	22	4061	c.3878T>C	c.(3877-3879)ATA>ACA	p.I1293T	HECW2_uc002utl.1_Missense_Mutation_p.I937T	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	1293	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						CATAGGACTTATTTGTACTGT	0.353													69	79	---	---	---	---	PASS	G	197092865	G	G	197092865	3	3	44	1	0	0	0	0	1	0	0	0	7043	449	16	5	872	5	HECW2	2	197092865	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	428711	197092865	46106508	185	17272										
SF3B1	23451	broad.mit.edu	37	chr2	198288681	198288681	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttcttgccttgaatttctcGaatctgtgcttcaatatcta	5	10	5	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:198288681G>A	uc002uue.2	-	2	94	c.46C>T	c.(46-48)CGA>TGA	p.R16*	SF3B1_uc010fsk.1_RNA|SF3B1_uc002uuf.2_Nonsense_Mutation_p.R16*|SF3B1_uc002uug.2_Nonsense_Mutation_p.R16*	NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	16					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			TGAATTTCTCGAATCTGTGCT	0.373													20	73	---	---	---	---	PASS	A	198288681	A	A	198288681	4	1	44	1	0	0	0	0	0	1	0	0	14149	1066	37	2	3988	2	SF3B1	2	198288681	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1195816	198288681	44910692	186	17273										
AOX1	316	broad.mit.edu	37	chr2	201477417	201477417	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggaatgagagtcttttttgGagaaggggatggcattatta	14	2	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:201477417G>A	uc002uvx.2	+	14	1450	c.1349G>A	c.(1348-1350)GGA>GAA	p.G450E	AOX1_uc010zhf.1_Missense_Mutation_p.G6E|AOX1_uc010fsu.2_5'UTR	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	450					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	GTCTTTTTTGGAGAAGGGGAT	0.473													51	70	---	---	---	---	PASS	A	201477417	A	A	201477417	3	1	44	1	0	0	0	0	1	0	0	0	729	1174	41	2	1403	2	AOX1	2	201477417	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3188736	201477417	41721956	187	17274										
ALS2	57679	broad.mit.edu	37	chr2	202569893	202569893	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagacattctactgctgaggCaaaacaagcatctttcgtgg	9	10	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:202569893C>T	uc002uyo.2	-	31	5013	c.4657G>A	c.(4657-4659)GCC>ACC	p.A1553T	ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	1553	VPS9.				cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						ACTGCTGAGGCAAAACAAGCA	0.358													14	43	---	---	---	---	PASS	T	202569893	T	T	202569893	3	4	44	1	0	0	0	0	1	0	0	0	550	710	25	3	332	3	ALS2	2	202569893	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1092476	202569893	40629480	188	17275										
NDUFS1	4719	broad.mit.edu	37	chr2	207017163	207017163	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttggaggacggtcgttcccgGttccaccatgacagactgac	12	12	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:207017163G>C	uc002vbe.2	-	3	260	c.133C>G	c.(133-135)CCG>GCG	p.P45A	NDUFS1_uc010ziq.1_Missense_Mutation_p.P59A|NDUFS1_uc010zir.1_Missense_Mutation_p.P45A|NDUFS1_uc010zis.1_Intron|NDUFS1_uc010zit.1_Intron|NDUFS1_uc010ziu.1_Intron	NM_005006	NP_004997	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1,	45	2Fe-2S ferredoxin-type.				apoptosis|ATP metabolic process|mitochondrial electron transport, NADH to ubiquinone|reactive oxygen species metabolic process|regulation of mitochondrial membrane potential|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	GTCGTTCCCGGTTCCACCATG	0.368													27	116	---	---	---	---	PASS	C	207017163	C	C	207017163	3	2	44	1	0	0	0	0	1	0	0	0	10291	1261	44	4	2118	4	NDUFS1	2	207017163	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4447270	207017163	36182210	189	17276										
PLEKHM3	389072	broad.mit.edu	37	chr2	208866341	208866341	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttctaaggctgggctgataTcatccacttccaaagcttcc	7	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:208866341T>A	uc002vcl.2	-	2	513	c.23A>T	c.(22-24)GAT>GTT	p.D8V	PLEKHM3_uc002vcm.2_Missense_Mutation_p.D8V	NM_001080475	NP_001073944	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M,	8					intracellular signal transduction		metal ion binding			ovary(1)	1						TGGGCTGATATCATCCACTTC	0.478													90	110	---	---	---	---	PASS	A	208866341	A	A	208866341	3	1	44	1	0	0	0	0	1	0	0	0	12082	1435	50	5	2290	5	PLEKHM3	2	208866341	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	1849178	208866341	34333032	190	17277										
C2orf67	151050	broad.mit.edu	37	chr2	210888807	210888807	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	taagccatatgcacacagatCctggttctctgaaggaagcc	9	11	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:210888807C>A	uc002vds.2	-	14	2891	c.2683G>T	c.(2683-2685)GAT>TAT	p.D895Y	C2orf67_uc002vdt.2_Missense_Mutation_p.D853Y	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	895										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		GCACACAGATCCTGGTTCTCT	0.403													28	90	---	---	---	---	PASS	A	210888807	A	A	210888807	3	1	44	1	0	0	0	0	1	0	0	0	2186	855	30	2	288	2	C2orf67	2	210888807	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2022466	210888807	32310566	191	17278										
ERBB4	2066	broad.mit.edu	37	chr2	212566848	212566848	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttcagggactggaactgtaGagaggtgatgccctgttgct	14	8	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:212566848G>A	uc002veg.1	-	12	1431	c.1333C>T	c.(1333-1335)CTA>TTA	p.L445L	ERBB4_uc002veh.1_Silent_p.L445L|ERBB4_uc010zji.1_Silent_p.L445L|ERBB4_uc010zjj.1_Silent_p.L445L|ERBB4_uc010fut.1_Silent_p.L445L	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	445	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TGGAACTGTAGAGAGGTGATG	0.448										TSP Lung(8;0.080)			39	120	---	---	---	---	PASS	A	212566848	A	A	212566848	2	1	44	1	0	0	0	0	0	0	0	1	5209	933	33	2		2	ERBB4	2	212566848	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1678041	212566848	30632525	192	17279										
FN1	2335	broad.mit.edu	37	chr2	216247016	216247016	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaccacatactccactgtggGctgcaagccttcaatagtca	7	13	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:216247016G>T	uc002vfa.2	-	32	5349	c.5083C>A	c.(5083-5085)CCC>ACC	p.P1695T	FN1_uc002vfb.2_Missense_Mutation_p.P1604T|FN1_uc002vfc.2_Missense_Mutation_p.P1604T|FN1_uc002vfd.2_Missense_Mutation_p.P1695T|FN1_uc002vfe.2_Missense_Mutation_p.P1604T|FN1_uc002vff.2_Missense_Mutation_p.P1604T|FN1_uc002vfg.2_Missense_Mutation_p.P1604T|FN1_uc002vfh.2_Missense_Mutation_p.P1604T|FN1_uc002vfi.2_Missense_Mutation_p.P1695T|FN1_uc002vfj.2_Missense_Mutation_p.P1695T|FN1_uc002vez.2_5'UTR|FN1_uc010zjp.1_Missense_Mutation_p.P322T|FN1_uc010fvc.1_Missense_Mutation_p.P57T|FN1_uc010fvd.1_Missense_Mutation_p.P57T	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1694	Fibronectin type-III 12; extra domain.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCCACTGTGGGCTGCAAGCCT	0.473													33	41	---	---	---	---	PASS	T	216247016	T	T	216247016	3	4	44	1	0	0	0	0	1	0	0	0	5962	1203	42	3	2410	3	FN1	2	216247016	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3680168	216247016	26952357	193	17280										
FN1	2335	broad.mit.edu	37	chr2	216285475	216285475	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgcccctcttcatgacgcttGtggaatgtgtcgttcacatt	9	11	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:216285475G>C	uc002vfa.2	-	11	1862	c.1596C>G	c.(1594-1596)CAC>CAG	p.H532Q	FN1_uc002vfb.2_Missense_Mutation_p.H532Q|FN1_uc002vfc.2_Missense_Mutation_p.H532Q|FN1_uc002vfd.2_Missense_Mutation_p.H532Q|FN1_uc002vfe.2_Missense_Mutation_p.H532Q|FN1_uc002vff.2_Missense_Mutation_p.H532Q|FN1_uc002vfg.2_Missense_Mutation_p.H532Q|FN1_uc002vfh.2_Missense_Mutation_p.H532Q|FN1_uc002vfi.2_Missense_Mutation_p.H532Q|FN1_uc002vfj.2_Missense_Mutation_p.H532Q|FN1_uc002vfl.2_Missense_Mutation_p.H532Q	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	532	Collagen-binding.|Fibronectin type-I 8.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CATGACGCTTGTGGAATGTGT	0.473													21	80	---	---	---	---	PASS	C	216285475	C	C	216285475	3	2	44	1	0	0	0	0	1	0	0	0	5962	1368	48	4	6014	4	FN1	2	216285475	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	38459	216285475	26913898	194	17281										
STK36	27148	broad.mit.edu	37	chr2	219544402	219544402	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cccccaagggtaatcagtctCgcatcttgactcaggcctat	8	14	4	1	rs138126812		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:219544402C>T	uc002viu.2	+	8	1164	c.898C>T	c.(898-900)CGC>TGC	p.R300C	STK36_uc002viv.2_Missense_Mutation_p.R300C	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	300					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		TAATCAGTCTCGCATCTTGAC	0.562													14	45	---	---	---	---	PASS	T	219544402	T	T	219544402	3	4	44	1	0	0	0	0	1	0	0	0	15301	884	31	2	924	2	STK36	2	219544402	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3258927	219544402	23654971	195	17282										
PTPRN	5798	broad.mit.edu	37	chr2	220162770	220162770	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccagagtgagcagcactgagCgcatgggtgaggtgctgtgc	17	9	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:220162770C>A	uc002vkz.2	-	13	1813	c.1724G>T	c.(1723-1725)CGC>CTC	p.R575L	PTPRN_uc010zlc.1_Missense_Mutation_p.R485L|PTPRN_uc002vla.2_Missense_Mutation_p.R546L	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	575	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		CAGCACTGAGCGCATGGGTGA	0.637													3	88	---	---	---	---	PASS	A	220162770	A	A	220162770	3	1	44	1	0	0	0	0	1	0	0	0	12807	768	27	1	1259	1	PTPRN	2	220162770	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	618368	220162770	23036603	196	17283										
AP1S3	130340	broad.mit.edu	37	chr2	224642556	224642556	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttctgtagccgtaatttccCttgtcgactgaagagcaata	8	9	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:224642556C>T	uc010fwx.1	-	2	186	c.34G>A	c.(34-36)GGG>AGG	p.G12R	AP1S3_uc002vnn.2_Missense_Mutation_p.G12R|AP1S3_uc010fww.2_RNA|AP1S3_uc002vno.2_RNA	NM_001039569	NP_001034658	Q96PC3	AP1S3_HUMAN	adaptor-related protein complex 1, sigma 3	12					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	coated pit|cytoplasmic vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|membrane coat	protein transporter activity				0		Renal(207;0.0112)|Lung NSC(271;0.0186)|all_lung(227;0.0272)		Epithelial(121;7.6e-10)|all cancers(144;3.62e-07)|Lung(261;0.0086)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CGTAATTTCCCTTGTCGACTG	0.428													22	90	---	---	---	---	PASS	T	224642556	T	T	224642556	3	4	44	1	0	0	0	0	1	0	0	0	738	681	24	3	446	3	AP1S3	2	224642556	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4479786	224642556	18556817	197	17284										
DOCK10	55619	broad.mit.edu	37	chr2	225710006	225710006	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtactcttgagaagctatctGatcgtgtttcatcagaggaa	10	7	4	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:225710006G>C	uc010fwz.1	-	21	2634	c.2395C>G	c.(2395-2397)CAG>GAG	p.Q799E	DOCK10_uc002vob.2_Missense_Mutation_p.Q793E	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	799	DHR-1.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		GAAGCTATCTGATCGTGTTTC	0.368													4	18	---	---	---	---	PASS	C	225710006	C	C	225710006	3	2	44	1	0	0	0	0	1	0	0	0	4685	1299	45	2	4309	2	DOCK10	2	225710006	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1067450	225710006	17489367	198	17285										
KIAA1486	57624	broad.mit.edu	37	chr2	226516161	226516161	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttccagagcctaaagtaagCtgcaaattaggccggtctgc	10	10	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:226516161C>A	uc002voe.2	+	6	2017	c.1842C>A	c.(1840-1842)AGC>AGA	p.S614R	KIAA1486_uc010fxa.1_3'UTR|KIAA1486_uc002vof.1_Missense_Mutation_p.S384R	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	614										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		CTAAAGTAAGCTGCAAATTAG	0.483													106	142	---	---	---	---	PASS	A	226516161	A	A	226516161	3	1	44	1	0	0	0	0	1	0	0	0	8237	796	28	3	1860	3	KIAA1486	2	226516161	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	806155	226516161	16683212	199	17286										
SPHKAP	80309	broad.mit.edu	37	chr2	228882159	228882159	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aatcctctcccttcattttcCatctggttcaccatgaacct	3	15	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:228882159C>T	uc002vpq.2	-	7	3458	c.3411G>A	c.(3409-3411)ATG>ATA	p.M1137I	SPHKAP_uc002vpp.2_Missense_Mutation_p.M1137I|SPHKAP_uc010zlx.1_Missense_Mutation_p.M1137I	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1137						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CTTCATTTTCCATCTGGTTCA	0.537													40	37	---	---	---	---	PASS	T	228882159	T	T	228882159	3	4	44	1	0	0	0	0	1	0	0	0	15047	594	21	3	1715	3	SPHKAP	2	228882159	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2365998	228882159	14317214	200	17287										
SPHKAP	80309	broad.mit.edu	37	chr2	228884681	228884681	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggctgagggatctagactctGcaaggctgtgttctttgtta	13	7	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:228884681G>T	uc002vpq.2	-	7	936	c.889C>A	c.(889-891)CAG>AAG	p.Q297K	SPHKAP_uc002vpp.2_Missense_Mutation_p.Q297K|SPHKAP_uc010zlx.1_Missense_Mutation_p.Q297K	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	297						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TCTAGACTCTGCAAGGCTGTG	0.418													87	348	---	---	---	---	PASS	T	228884681	T	T	228884681	3	4	44	1	0	0	0	0	1	0	0	0	15047	1328	46	3	4237	3	SPHKAP	2	228884681	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2522	228884681	14314692	201	17288										
DNER	92737	broad.mit.edu	37	chr2	230312225	230312225	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggagacgaggcgcaggggtcCaccttttcttcacaagcaga	13	11	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:230312225C>A	uc002vpv.2	-	8	1440	c.1293G>T	c.(1291-1293)GTG>GTT	p.V431V	DNER_uc010zly.1_Silent_p.V159V	NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	431	Extracellular (Potential).|EGF-like 6.				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		CGCAGGGGTCCACCTTTTCTT	0.488													19	43	---	---	---	---	PASS	A	230312225	A	A	230312225	2	1	44	1	0	0	0	0	0	0	0	1	4667	581	21	3		3	DNER	2	230312225	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1427544	230312225	12887148	202	17289										
COPS7B	64708	broad.mit.edu	37	chr2	232653351	232653351	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	actagccaaaggtaccagtgGctcagccctcactgctctca	8	15	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:232653351G>C	uc002vsg.1	+	2	174	c.71G>C	c.(70-72)GGC>GCC	p.G24A	COPS7B_uc010fxy.1_Intron|COPS7B_uc002vsh.1_Missense_Mutation_p.G24A|COPS7B_uc002vsi.1_5'UTR|COPS7B_uc002vsj.1_5'Flank	NM_022730	NP_073567	Q9H9Q2	CSN7B_HUMAN	COP9 constitutive photomorphogenic homolog	24					cullin deneddylation	cytoplasm|signalosome				ovary(1)|liver(1)|skin(1)	3		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Renal(207;0.025)		Epithelial(121;1.36e-12)|BRCA - Breast invasive adenocarcinoma(100;0.00136)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)		GGTACCAGTGGCTCAGCCCTC	0.498													26	71	---	---	---	---	PASS	C	232653351	C	C	232653351	3	2	44	1	0	0	0	0	1	0	0	0	3739	1203	42	4	73	4	COPS7B	2	232653351	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2341126	232653351	10546022	203	17290										
ECEL1	9427	broad.mit.edu	37	chr2	233349770	233349770	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cacccaggaggctgagcactCgctccatgaacaccctgtat	9	15	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:233349770C>T	uc002vsv.2	-	4	1092	c.887G>A	c.(886-888)CGA>CAA	p.R296Q	ECEL1_uc010fya.1_Missense_Mutation_p.R296Q|ECEL1_uc010fyb.1_Missense_Mutation_p.R3Q	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	296	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		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;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GCTGAGCACTCGCTCCATGAA	0.642													16	64	---	---	---	---	PASS	T	233349770	T	T	233349770	3	4	44	1	0	0	0	0	1	0	0	0	4891	884	31	2	1500	2	ECEL1	2	233349770	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	696419	233349770	9849603	204	17291										
UGT1A10	54575	broad.mit.edu	37	chr2	234545255	234545255	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gccgaggcagggaagctgctGgtagtgcccatggatgggag	19	8	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:234545255G>C	uc002vur.2	+	1	133	c.87G>C	c.(85-87)CTG>CTC	p.L29L	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Silent_p.L29L	NM_019075	NP_061948	Q9HAW8	UD110_HUMAN	UDP glycosyltransferase 1 family, polypeptide	29					flavone metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding			ovary(2)|skin(1)	3		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;1.96e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000468)|Lung(119;0.00381)|LUSC - Lung squamous cell carcinoma(224;0.008)		GGAAGCTGCTGGTAGTGCCCA	0.577													35	122	---	---	---	---	PASS	C	234545255	C	C	234545255	2	2	44	1	0	0	0	0	0	0	0	1	16942	1335	47	4		4	UGT1A10	2	234545255	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1195485	234545255	8654118	205	17292										
SH3BP4	23677	broad.mit.edu	37	chr2	235951264	235951264	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccaccccctaaaagtgccatCaagccttccgggcaaaggag	9	15	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:235951264C>G	uc002vvp.2	+	4	2244	c.1851C>G	c.(1849-1851)ATC>ATG	p.I617M	SH3BP4_uc010fym.2_Missense_Mutation_p.I617M|SH3BP4_uc002vvq.2_Missense_Mutation_p.I617M	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	617					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		AAAGTGCCATCAAGCCTTCCG	0.547													24	73	---	---	---	---	PASS	G	235951264	G	G	235951264	3	3	44	1	0	0	0	0	1	0	0	0	14246	816	29	2	1857	2	SH3BP4	2	235951264	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1406009	235951264	7248109	206	17293										
CXCR7	57007	broad.mit.edu	37	chr2	237489155	237489155	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agagccagggaacttctcggAcatcagctggccatgcaaca	11	12	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:237489155A>T	uc010fyq.2	+	3	277	c.47A>T	c.(46-48)GAC>GTC	p.D16V	CXCR7_uc002vwd.2_Missense_Mutation_p.D16V	NM_020311	NP_064707	P25106	CXCR7_HUMAN	chemokine orphan receptor 1	16	Extracellular (Potential).				interspecies interaction between organisms	integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3		Breast(86;0.000182)|Renal(207;0.00339)|all_hematologic(139;0.0048)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|all_lung(227;0.147)|all_neural(83;0.223)		Epithelial(121;8.35e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.09e-11)|Kidney(56;1.11e-07)|KIRC - Kidney renal clear cell carcinoma(57;3.03e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000176)|Lung(119;0.00468)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.118)		AACTTCTCGGACATCAGCTGG	0.517													8	67	---	---	---	---	PASS	T	237489155	T	T	237489155	3	4	44	1	0	0	0	0	1	0	0	0	4096	275	10	5	49	5	CXCR7	2	237489155	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1537891	237489155	5710218	207	17294										
HDAC4	9759	broad.mit.edu	37	chr2	239988490	239988490	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtcaggtcgtggcctccctcGagggccaggacaatccggcc	14	15	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:239988490G>A	uc002vyk.3	-	24	3708	c.2916C>T	c.(2914-2916)CTC>CTT	p.L972L	HDAC4_uc010fyy.2_Silent_p.L929L	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	972	Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		GGCCTCCCTCGAGGGCCAGGA	0.632													22	57	---	---	---	---	PASS	A	239988490	A	A	239988490	2	1	44	1	0	0	0	0	0	0	0	1	7009	1045	37	2		2	HDAC4	2	239988490	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	2499335	239988490	3210883	208	17295										
KIF1A	547	broad.mit.edu	37	chr2	241685277	241685277	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcagcatccaggggcccatcCagggcggctttctcagagct	13	14	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:241685277C>A	uc002vzy.2	-	29	3095	c.2949G>T	c.(2947-2949)CTG>CTT	p.L983L	KIF1A_uc010fzk.2_Silent_p.L1084L|KIF1A_uc002vzz.1_Silent_p.L1084L	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	983					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		GGGGCCCATCCAGGGCGGCTT	0.612													7	19	---	---	---	---	PASS	A	241685277	A	A	241685277	2	1	44	1	0	0	0	0	0	0	0	1	8283	581	21	3		3	KIF1A	2	241685277	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1696787	241685277	1514096	209	17296										
PASK	23178	broad.mit.edu	37	chr2	242078087	242078087	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acatcgctctggaaagcgacCcaggtcgagaccctctccac	9	16	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:242078087C>A	uc002wao.1	-	5	815	c.723G>T	c.(721-723)TGG>TGT	p.W241C	PASK_uc010zol.1_Missense_Mutation_p.W55C|PASK_uc010zom.1_Missense_Mutation_p.W241C|PASK_uc010fzl.1_Missense_Mutation_p.W241C|PASK_uc010zon.1_Missense_Mutation_p.W22C|PASK_uc002waq.2_Missense_Mutation_p.W241C	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	241					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		GGAAAGCGACCCAGGTCGAGA	0.602													19	85	---	---	---	---	PASS	A	242078087	A	A	242078087	3	1	44	1	0	0	0	0	1	0	0	0	11472	624	22	3	3304	3	PASK	2	242078087	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	392810	242078087	1121286	210	17297										
FARP2	9855	broad.mit.edu	37	chr2	242402762	242402762	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcccacagtggttccgcagcGcagtggtgaaggaggacgcc	15	12	0	1	rs139762137	byFrequency	TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:242402762G>T	uc002wbi.1	+	16	1807	c.1690G>T	c.(1690-1692)GCA>TCA	p.A564S	FARP2_uc010zoq.1_Missense_Mutation_p.A564S|FARP2_uc010zor.1_Missense_Mutation_p.A564S	NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	564	DH.				axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		GTTCCGCAGCGCAGTGGTGAA	0.582													15	60	---	---	---	---	PASS	T	242402762	T	T	242402762	3	4	44	1	0	0	0	0	1	0	0	0	5677	1087	38	1	1748	1	FARP2	2	242402762	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	324675	242402762	796611	211	17298										
FARP2	9855	broad.mit.edu	37	chr2	242407695	242407695	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgcctctcaacacgttcctGctgaagcccatccagcggct	8	16	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:242407695G>T	uc002wbi.1	+	18	2151	c.2034G>T	c.(2032-2034)CTG>CTT	p.L678L		NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	678	DH.				axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		ACACGTTCCTGCTGAAGCCCA	0.572													47	46	---	---	---	---	PASS	T	242407695	T	T	242407695	2	4	44	1	0	0	0	0	0	0	0	1	5677	1306	46	3		3	FARP2	2	242407695	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	4933	242407695	791678	212	17299										
NEU4	129807	broad.mit.edu	37	chr2	242758331	242758331	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcccgccagccccaagccgcCcaaccttggggacaagcctc	10	20	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr2:242758331C>A	uc010fzr.2	+	4	1498	c.1412C>A	c.(1411-1413)CCC>CAC	p.P471H	NEU4_uc002wcl.2_RNA|NEU4_uc002wcm.2_Missense_Mutation_p.P471H|NEU4_uc002wcn.1_Missense_Mutation_p.P483H|NEU4_uc002wco.1_Missense_Mutation_p.P471H|NEU4_uc002wcp.1_Missense_Mutation_p.P483H	NM_080741	NP_542779	Q8WWR8	NEUR4_HUMAN	sialidase 4	471						lysosomal lumen|organelle inner membrane	exo-alpha-sialidase activity|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;3.84e-33)|all cancers(36;8.08e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.41e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0825)		CCCAAGCCGCCCAACCTTGGG	0.642													9	19	---	---	---	---	PASS	A	242758331	A	A	242758331	3	1	44	1	0	0	0	0	1	0	0	0	10344	623	22	3	1465	3	NEU4	2	242758331	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	350636	242758331	441042	213	17300										
CNTN6	27255	broad.mit.edu	37	chr3	1424694	1424694	+	Frame_Shift_Del	DEL	G	-	-													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgttccggccagtgggctcGacaacctggtccaaggagaa							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:1424694delG	uc003boz.2	+	18	2502	c.2235delG	c.(2233-2235)TCGfs	p.S745fs	CNTN6_uc011asj.1_Frame_Shift_Del_p.S673fs|CNTN6_uc003bpa.2_Frame_Shift_Del_p.S745fs	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	745	Fibronectin type-III 2.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		CAGTGGGCTCGACAACCTGGT	0.453													43	49	---	---	---	---		-	1424694	-	-	1424694	7	5	44	1	0	1	0	1	0	0	0	0	3645	1045	37	0	2301	0	CNTN6	3	1424694	Frame_Shift_Del	DEL	G	TCGA-22-5473-01A-01D-1632-08		1424694	196597736	214	17301										
ITPR1	3708	broad.mit.edu	37	chr3	4808361	4808361	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaaataaaaagaaagacgatGaggtagacagggatgcccca	12	6	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:4808361G>C	uc003bqa.2	+	42	5896	c.5548G>C	c.(5548-5550)GAG>CAG	p.E1850Q	ITPR1_uc010hca.1_Missense_Mutation_p.E1835Q|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.E820Q	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1898	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GAAAGACGATGAGGTAGACAG	0.438													24	35	---	---	---	---	PASS	C	4808361	C	C	4808361	3	2	44	1	0	0	0	0	1	0	0	0	7920	1291	45	2	5862	2	ITPR1	3	4808361	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3383667	4808361	193214069	215	17302										
IRAK2	3656	broad.mit.edu	37	chr3	10283900	10283900	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaagtggacagcattgagctCtttggcccctgatgaccgga	12	10	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:10283900C>G	uc003bve.1	+	13	1942	c.1866C>G	c.(1864-1866)CTC>CTG	p.L622L		NM_001570	NP_001561	O43187	IRAK2_HUMAN	interleukin-1 receptor-associated kinase 2	622					activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|endosome membrane|plasma membrane	ATP binding|NF-kappaB-inducing kinase activity|protein heterodimerization activity|protein homodimerization activity			lung(5)|breast(3)	8						GCATTGAGCTCTTTGGCCCCT	0.448													20	64	---	---	---	---	PASS	G	10283900	G	G	10283900	2	3	44	1	0	0	0	0	0	0	0	1	7823	900	32	2		2	IRAK2	3	10283900	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	5475539	10283900	187738530	216	17303										
SLC6A1	6529	broad.mit.edu	37	chr3	11072947	11072947	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcgtgttctttgaatgtgtcTctatttcctggttttacggt	9	7	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:11072947T>A	uc010hdq.2	+	13	1819	c.1408T>A	c.(1408-1410)TCT>ACT	p.S470T		NM_003042	NP_003033	P30531	SC6A1_HUMAN	solute carrier family 6 (neurotransmitter	470	Helical; Name=10; (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)|skin(1)	2		Ovarian(110;0.0392)		OV - Ovarian serous cystadenocarcinoma(96;0.00099)	Cocaine(DB00907)|Tiagabine(DB00906)	TGAATGTGTCTCTATTTCCTG	0.378													107	82	---	---	---	---	PASS	A	11072947	A	A	11072947	3	1	44	1	0	0	0	0	1	0	0	0	14673	1551	54	5	1450	5	SLC6A1	3	11072947	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	789047	11072947	186949483	217	17304										
BTD	686	broad.mit.edu	37	chr3	15686066	15686066	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atctcatcacctttgataccCcctttgctggcaggtttggc	8	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:15686066C>T	uc003cah.2	+	4	806	c.703C>T	c.(703-705)CCC>TCC	p.P235S	BTD_uc011avv.1_Missense_Mutation_p.P237S|BTD_uc011avw.1_Missense_Mutation_p.P237S|BTD_uc011avx.1_Missense_Mutation_p.P215S	NM_000060	NP_000051	P43251	BTD_HUMAN	biotinidase precursor	235	CN hydrolase.				central nervous system development|epidermis development|nitrogen compound metabolic process	extracellular space	biotin carboxylase activity|biotinidase activity				0						CTTTGATACCCCCTTTGCTGG	0.448													39	61	---	---	---	---	PASS	T	15686066	T	T	15686066	3	4	44	1	0	0	0	0	1	0	0	0	1550	623	22	3	717	3	BTD	3	15686066	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4613119	15686066	182336364	218	17305										
THRB	7068	broad.mit.edu	37	chr3	24188169	24188169	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtgaagatctacttacaatCtgttgccatgccaacataga	7	9	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:24188169C>T	uc003ccx.3	-	7	878	c.529G>A	c.(529-531)GAT>AAT	p.D177N	THRB_uc010hfe.2_Missense_Mutation_p.D177N|THRB_uc003ccy.3_Missense_Mutation_p.D177N|THRB_uc003ccz.3_Missense_Mutation_p.D172N	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	177	Nuclear receptor.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)	TACTTACAATCTGTTGCCATG	0.408													32	73	---	---	---	---	PASS	T	24188169	T	T	24188169	3	4	44	1	0	0	0	0	1	0	0	0	15872	913	32	2	876	2	THRB	3	24188169	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	8502103	24188169	173834261	219	17306										
NEK10	152110	broad.mit.edu	37	chr3	27329226	27329226	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	taataacgtacaatgttgggAtgataaagctataagaaaat	8	3	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:27329226A>C	uc003cdt.1	-	21	2026	c.1752T>G	c.(1750-1752)CAT>CAG	p.H584Q	NEK10_uc003cds.1_5'UTR	NM_199347	NP_955379	Q6ZWH5	NEK10_HUMAN	NIMA-related kinase 10 isoform 3	584	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						CAATGTTGGGATGATAAAGCT	0.264													9	33	---	---	---	---	PASS	C	27329226	C	C	27329226	3	2	44	1	0	0	0	0	1	0	0	0	10322	330	12	5	406	5	NEK10	3	27329226	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	3141057	27329226	170693204	220	17307										
SCN10A	6336	broad.mit.edu	37	chr3	38770276	38770276	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgccaaccagagcaaagacAaagacaatgatggccaggat	10	9	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:38770276A>T	uc003ciq.2	-	15	2397	c.2397T>A	c.(2395-2397)TTT>TTA	p.F799L		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	799	Helical; Name=S5 of repeat II; (Potential).|II.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GAGCAAAGACAAAGACAATGA	0.532													54	28	---	---	---	---	PASS	T	38770276	T	T	38770276	3	4	44	1	0	0	0	0	1	0	0	0	13912	127	5	5	3525	5	SCN10A	3	38770276	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	11441050	38770276	159252154	221	17308										
ZNF501	115560	broad.mit.edu	37	chr3	44776538	44776538	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	actcttcccttgttgaacatGaaaggactcacactggagag	9	10	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:44776538G>A	uc003cnu.1	+	3	1026	c.625G>A	c.(625-627)GAA>AAA	p.E209K	ZNF501_uc003cnv.1_Missense_Mutation_p.M152I	NM_145044	NP_659481	Q96CX3	ZN501_HUMAN	zinc finger protein 501	209	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00843)|KIRC - Kidney renal clear cell carcinoma(197;0.0463)|Kidney(197;0.0579)		TGTTGAACATGAAAGGACTCA	0.418													19	57	---	---	---	---	PASS	A	44776538	A	A	44776538	3	1	44	1	0	0	0	0	1	0	0	0	17946	1291	45	2	627	2	ZNF501	3	44776538	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	6006262	44776538	153245892	222	17309										
CCR1	1230	broad.mit.edu	37	chr3	46245770	46245770	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	catagtcaaactctgtggtcGtgtcatagtcctctgtggtg	11	9	4	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:46245770G>T	uc003cph.1	-	2	106	c.35C>A	c.(34-36)ACG>AAG	p.T12K	CCR3_uc003cpg.1_Intron	NM_001295	NP_001286	P32246	CCR1_HUMAN	chemokine (C-C motif) receptor 1	12	Extracellular (Potential).				cell adhesion|cell-cell signaling|cytokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	integral to plasma membrane	C-C chemokine receptor activity			skin(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		CTCTGTGGTCGTGTCATAGTC	0.483													25	11	---	---	---	---	PASS	T	46245770	T	T	46245770	3	4	44	1	0	0	0	0	1	0	0	0	2939	1145	40	1	1036	1	CCR1	3	46245770	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1469232	46245770	151776660	223	17310										
COL7A1	1294	broad.mit.edu	37	chr3	48607181	48607181	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtcaccctttagtcctgcacTcccaacatcaccctattggg	6	16	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:48607181T>C	uc003ctz.2	-	100	7535	c.7534A>G	c.(7534-7536)AGT>GGT	p.S2512G		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2512	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		AGTCCTGCACTCCCAACATCA	0.602													16	51	---	---	---	---	PASS	C	48607181	C	C	48607181	3	2	44	1	0	0	0	0	1	0	0	0	3704	1551	54	5	1376	5	COL7A1	3	48607181	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	2361411	48607181	149415249	224	17311										
DALRD3	55152	broad.mit.edu	37	chr3	49055175	49055175	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attagcagaggtaagttcttCaagggcgtggctcctcaggg	14	8	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:49055175C>G	uc003cvk.1	-	3	609	c.589G>C	c.(589-591)GAA>CAA	p.E197Q	DALRD3_uc003cvl.1_Missense_Mutation_p.E197Q|DALRD3_uc003cvm.1_Missense_Mutation_p.E30Q|DALRD3_uc010hko.1_Missense_Mutation_p.E30Q|DALRD3_uc011bca.1_Missense_Mutation_p.E197Q|NDUFAF3_uc003cvn.2_5'Flank	NM_001009996	NP_001009996	Q5D0E6	DALD3_HUMAN	DALR anticodon binding domain containing 3	197					arginyl-tRNA aminoacylation	cytoplasm	arginine-tRNA ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GTAAGTTCTTCAAGGGCGTGG	0.622													22	38	---	---	---	---	PASS	G	49055175	G	G	49055175	3	3	44	1	0	0	0	0	1	0	0	0	4229	835	29	2	1082	2	DALRD3	3	49055175	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	447994	49055175	148967255	225	17312										
HYAL3	8372	broad.mit.edu	37	chr3	50330709	50330709	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttaggcccaggcctgggctCctggcaggtggggccagccc	16	14	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:50330709C>G	uc003czd.1	-	4	1495	c.1222G>C	c.(1222-1224)GAG>CAG	p.E408Q	HYAL3_uc003czc.1_Missense_Mutation_p.E378Q|HYAL3_uc003cze.1_Missense_Mutation_p.E159Q|HYAL3_uc003czf.1_Missense_Mutation_p.E129Q|HYAL3_uc003czg.1_Missense_Mutation_p.E378Q|IFRD2_uc011bdp.1_5'Flank|IFRD2_uc003czb.2_5'Flank	NM_003549	NP_003540	O43820	HYAL3_HUMAN	hyaluronoglucosaminidase 3 precursor	408					carbohydrate metabolic process	extracellular region|lysosome	hyalurononglucosaminidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GGCCTGGGCTCCTGGCAGGTG	0.587													25	78	---	---	---	---	PASS	G	50330709	G	G	50330709	3	3	44	1	0	0	0	0	1	0	0	0	7465	864	30	2	35	2	HYAL3	3	50330709	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1275534	50330709	147691721	226	17313										
DNAH1	25981	broad.mit.edu	37	chr3	52356682	52356682	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acccacactctcagacttggGgcagccacggaagtcacccc	9	17	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:52356682G>T	uc011bef.1	+	2	485	c.224G>T	c.(223-225)GGG>GTG	p.G75V	DNAH1_uc003ddt.1_Missense_Mutation_p.G75V	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	75	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TCAGACTTGGGGCAGCCACGG	0.582													17	12	---	---	---	---	PASS	T	52356682	T	T	52356682	3	4	44	1	0	0	0	0	1	0	0	0	4597	1232	43	3	226	3	DNAH1	3	52356682	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2025973	52356682	145665748	227	17314										
DNAH12	201625	broad.mit.edu	37	chr3	57488140	57488140	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccagtgtaacacgtgttcagGaagttctgtgtcaagattta	10	7	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:57488140G>A	uc003dit.2	-	10	1334	c.1153C>T	c.(1153-1155)CCT>TCT	p.P385S	DNAH12_uc003diu.2_Missense_Mutation_p.P385S	NM_178504	NP_848599	Q6ZR08	DYH12_HUMAN	dynein heavy chain domain 2 isoform 1	385	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			pancreas(1)|skin(1)	2						ACGTGTTCAGGAAGTTCTGTG	0.388													72	50	---	---	---	---	PASS	A	57488140	A	A	57488140	3	1	44	1	0	0	0	0	1	0	0	0	4600	1174	41	2	8368	2	DNAH12	3	57488140	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5131458	57488140	140534290	228	17315										
PXK	54899	broad.mit.edu	37	chr3	58377548	58377548	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagataaagattttcagtgtCtaatcaaacttctgccttct	5	9	5	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:58377548C>G	uc003djz.1	+	7	688	c.589C>G	c.(589-591)CTA>GTA	p.L197V	PXK_uc003djx.1_Missense_Mutation_p.L197V|PXK_uc003djy.1_Missense_Mutation_p.L180V|PXK_uc003dka.1_Missense_Mutation_p.L197V|PXK_uc003dkb.1_Missense_Mutation_p.L114V|PXK_uc003dkc.1_Missense_Mutation_p.L180V|PXK_uc011bfe.1_Missense_Mutation_p.L164V|PXK_uc010hnj.1_Missense_Mutation_p.L164V|PXK_uc003dkd.1_Missense_Mutation_p.L60V|PXK_uc010hnk.1_Intron	NM_017771	NP_060241	Q7Z7A4	PXK_HUMAN	PX domain containing serine/threonine kinase	197	Protein kinase.				cell communication|inflammatory response|negative regulation of ATPase activity|negative regulation of ion transport|regulation of synaptic transmission	centrosome|cytoplasm|nucleus|plasma membrane	actin binding|ATP binding|phosphatidylinositol binding|phosphatidylinositol binding|protein C-terminus binding|protein kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000249)|KIRC - Kidney renal clear cell carcinoma(10;0.00346)|Kidney(10;0.00368)|OV - Ovarian serous cystadenocarcinoma(275;0.22)		TTTTCAGTGTCTAATCAAACT	0.388													25	132	---	---	---	---	PASS	G	58377548	G	G	58377548	3	3	44	1	0	0	0	0	1	0	0	0	12849	912	32	2	615	2	PXK	3	58377548	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	889408	58377548	139644882	229	17316										
C3orf67	200844	broad.mit.edu	37	chr3	58849464	58849464	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaaatgtcctttggaacactCtgggattcctctgcctgctg	9	11	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:58849464C>T	uc003dkt.1	-	12	1447	c.1038G>A	c.(1036-1038)CAG>CAA	p.Q346Q	C3orf67_uc003dks.1_Silent_p.Q161Q|uc003dku.1_Intron|C3orf67_uc003dkv.1_Silent_p.Q161Q|C3orf67_uc003dkw.2_Silent_p.Q241Q	NM_198463	NP_940865	Q6ZVT6	CC067_HUMAN	hypothetical protein LOC200844	346											0		all_cancers(2;0.000156)|all_epithelial(2;0.000493)|Breast(2;0.00446)|all_lung(2;0.074)|Lung NSC(2;0.248)		BRCA - Breast invasive adenocarcinoma(55;5.93e-06)|Kidney(10;0.00155)|KIRC - Kidney renal clear cell carcinoma(10;0.00172)|OV - Ovarian serous cystadenocarcinoma(275;0.23)		TTGGAACACTCTGGGATTCCT	0.493													21	107	---	---	---	---	PASS	T	58849464	T	T	58849464	2	4	44	1	0	0	0	0	0	0	0	1	2241	912	32	2		2	C3orf67	3	58849464	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	471916	58849464	139172966	230	17317										
PDZRN3	23024	broad.mit.edu	37	chr3	73453457	73453457	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttggtccttggtgttcttctCaacacctgcaccactatggg	9	12	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:73453457C>G	uc003dpl.1	-	4	1104	c.1008G>C	c.(1006-1008)TTG>TTC	p.L336F	PDZRN3_uc011bgh.1_5'UTR|PDZRN3_uc010hoe.1_Missense_Mutation_p.L34F|PDZRN3_uc011bgf.1_Missense_Mutation_p.L53F|PDZRN3_uc011bgg.1_Missense_Mutation_p.L56F	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	336	PDZ 1.						ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GTGTTCTTCTCAACACCTGCA	0.512													34	78	---	---	---	---	PASS	G	73453457	G	G	73453457	3	3	44	1	0	0	0	0	1	0	0	0	11709	825	29	2	2220	2	PDZRN3	3	73453457	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	14603993	73453457	124568973	231	17318										
EPHA3	2042	broad.mit.edu	37	chr3	89390085	89390085	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcttgtcgaccaggtttctaCaaggcattggatggtaatat	11	7	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:89390085C>T	uc003dqy.2	+	4	1059	c.834C>T	c.(832-834)TAC>TAT	p.Y278Y	EPHA3_uc003dqx.1_Silent_p.Y278Y|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	278	Extracellular (Potential).|Cys-rich.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		CAGGTTTCTACAAGGCATTGG	0.363										TSP Lung(6;0.00050)			53	80	---	---	---	---	PASS	T	89390085	T	T	89390085	2	4	44	1	0	0	0	0	0	0	0	1	5168	489	17	3		3	EPHA3	3	89390085	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	15936628	89390085	108632345	232	17319										
PROS1	5627	broad.mit.edu	37	chr3	93615477	93615477	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caacccctgcaaactgctccGccaagtaaagtaattcatac	5	14	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:93615477G>A	uc003drb.3	-	9	1249	c.908C>T	c.(907-909)GCG>GTG	p.A303V	PROS1_uc010hoo.2_Missense_Mutation_p.A172V|PROS1_uc003dqz.3_Missense_Mutation_p.A172V	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	303	Laminin G-like 1.				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	AAACTGCTCCGCCAAGTAAAG	0.358													47	202	---	---	---	---	PASS	A	93615477	A	A	93615477	3	1	44	1	0	0	0	0	1	0	0	0	12558	1087	38	1	1150	1	PROS1	3	93615477	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4225392	93615477	104406953	233	17320										
EPHA6	285220	broad.mit.edu	37	chr3	97194254	97194254	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atagccaccgccgctgttggCggattcactctcctcgtcat	9	15	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:97194254C>A	uc010how.1	+	8	1996	c.1953C>A	c.(1951-1953)GGC>GGA	p.G651G	EPHA6_uc011bgo.1_RNA|EPHA6_uc011bgp.1_Silent_p.G17G|EPHA6_uc003drs.3_Silent_p.G43G|EPHA6_uc003drr.3_Silent_p.G43G|EPHA6_uc003drt.2_Silent_p.G43G|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	556	Helical; (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CCGCTGTTGGCGGATTCACTC	0.428													7	21	---	---	---	---	PASS	A	97194254	A	A	97194254	2	1	44	1	0	0	0	0	0	0	0	1	5171	755	27	1		1	EPHA6	3	97194254	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	3578777	97194254	100828176	234	17321										
NIT2	56954	broad.mit.edu	37	chr3	100065092	100065092	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gagcttgcacaaatctacgcAcagagaggtgaggcagtgta	13	8	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:100065092A>C	uc003dtv.2	+	6	572	c.498A>C	c.(496-498)GCA>GCC	p.A166A	NIT2_uc011bha.1_Missense_Mutation_p.H135P	NM_020202	NP_064587	Q9NQR4	NIT2_HUMAN	nitrilase family, member 2	166	CN hydrolase.				nitrogen compound metabolic process		omega-amidase activity			ovary(1)	1						AAATCTACGCACAGAGAGGTG	0.483													19	26	---	---	---	---	PASS	C	100065092	C	C	100065092	2	2	44	1	0	0	0	0	0	0	0	1	10434	146	6	5		5	NIT2	3	100065092	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	2870838	100065092	97957338	235	17322										
ALCAM	214	broad.mit.edu	37	chr3	105264115	105264115	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaagtgactagacagattgGtgatgccctacccgtgtcat	11	9	1	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:105264115G>T	uc003dvx.2	+	9	1580	c.1040G>T	c.(1039-1041)GGT>GTT	p.G347V	ALCAM_uc003dvw.1_Missense_Mutation_p.G347V|ALCAM_uc003dvy.2_Missense_Mutation_p.G347V|ALCAM_uc011bhh.1_3'UTR|ALCAM_uc010hpp.2_Missense_Mutation_p.G69V|ALCAM_uc003dvz.2_5'UTR	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	347	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						AGACAGATTGGTGATGCCCTA	0.408													36	69	---	---	---	---	PASS	T	105264115	T	T	105264115	3	4	44	1	0	0	0	0	1	0	0	0	487	1261	44	3	1074	3	ALCAM	3	105264115	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5199023	105264115	92758315	236	17323										
DZIP3	9666	broad.mit.edu	37	chr3	108406926	108406926	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcaagatttcccagtttattGaccccaaaaagtctcaggta	7	10	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:108406926G>A	uc003dxd.2	+	29	3675	c.3253G>A	c.(3253-3255)GAC>AAC	p.D1085N	DZIP3_uc003dxf.1_Missense_Mutation_p.D1085N|DZIP3_uc011bhm.1_Missense_Mutation_p.D536N	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	1085					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCAGTTTATTGACCCCAAAAA	0.348													20	81	---	---	---	---	PASS	A	108406926	A	A	108406926	3	1	44	1	0	0	0	0	1	0	0	0	4865	1290	45	2	3363	2	DZIP3	3	108406926	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3142811	108406926	89615504	237	17324										
MORC1	27136	broad.mit.edu	37	chr3	108788596	108788596	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggctctgaatgaccacctcGctgggaaactgaaatagaaa	10	9	1	4	rs148630097	by1000genomes	TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:108788596G>T	uc003dxl.2	-	9	785	c.698C>A	c.(697-699)GCG>GAG	p.A233E	MORC1_uc011bhn.1_Missense_Mutation_p.A233E	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	233					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding	p.A233V(2)		ovary(3)|skin(3)|breast(2)	8						TGACCACCTCGCTGGGAAACT	0.348													23	61	---	---	---	---	PASS	T	108788596	T	T	108788596	3	4	44	1	0	0	0	0	1	0	0	0	9701	1087	38	1	2336	1	MORC1	3	108788596	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	381670	108788596	89233834	238	17325										
DPPA2	151871	broad.mit.edu	37	chr3	109023453	109023453	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcctgacctgcatgaaactgCaggcgtacccaaccctttgt	9	14	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:109023453C>A	uc003dxo.2	-	7	970	c.723G>T	c.(721-723)CTG>CTT	p.L241L		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	241						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						CATGAAACTGCAGGCGTACCC	0.507													33	58	---	---	---	---	PASS	A	109023453	A	A	109023453	2	1	44	1	0	0	0	0	0	0	0	1	4734	697	25	3		3	DPPA2	3	109023453	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	234857	109023453	88998977	239	17326										
ARHGAP31	57514	broad.mit.edu	37	chr3	119133799	119133799	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaaagccctgaggtccttcaGagagttctctggcctgaaag	12	10	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:119133799G>C	uc003ecj.3	+	12	3555	c.3023G>C	c.(3022-3024)AGA>ACA	p.R1008T		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	1008					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						AGGTCCTTCAGAGAGTTCTCT	0.552													18	48	---	---	---	---	PASS	C	119133799	C	C	119133799	3	2	44	1	0	0	0	0	1	0	0	0	880	942	33	2	3069	2	ARHGAP31	3	119133799	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	10110346	119133799	78888631	240	17327										
KTELC1	56983	broad.mit.edu	37	chr3	119211167	119211167	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaaccatttgcagatggatgAcatcacctgttactgggaga	11	8	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:119211167A>T	uc003ecm.2	+	11	1145	c.1061A>T	c.(1060-1062)GAC>GTC	p.D354V	KTELC1_uc011bja.1_Missense_Mutation_p.D195V	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	354						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		CAGATGGATGACATCACCTGT	0.328													61	80	---	---	---	---	PASS	T	119211167	T	T	119211167	3	4	44	1	0	0	0	0	1	0	0	0	8583	275	10	5	1103	5	KTELC1	3	119211167	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	77368	119211167	78811263	241	17328										
C3orf15	89876	broad.mit.edu	37	chr3	119466000	119466000	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtactataagctcctacctAgaagacataatactgaatac	5	9	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:119466000A>G	uc003ede.3	+	15	2018	c.1941A>G	c.(1939-1941)CTA>CTG	p.L647L	C3orf15_uc010hqz.2_Silent_p.L585L|C3orf15_uc011bjd.1_Silent_p.L521L|C3orf15_uc011bje.1_Silent_p.L627L|C3orf15_uc003edg.3_5'Flank	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	483						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		GCTCCTACCTAGAAGACATAA	0.368													27	91	---	---	---	---	PASS	G	119466000	G	G	119466000	2	3	44	1	0	0	0	0	0	0	0	1	2209	407	15	5		5	C3orf15	3	119466000	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	254833	119466000	78556430	242	17329										
ADCY5	111	broad.mit.edu	37	chr3	123046520	123046520	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgatactgtgctccttgaggTaggcgttgcgctcgccccca	12	14	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:123046520T>A	uc003egh.1	-	7	1892	c.1892A>T	c.(1891-1893)TAC>TTC	p.Y631F	ADCY5_uc003egg.1_Missense_Mutation_p.Y264F|ADCY5_uc003egi.1_Missense_Mutation_p.Y190F	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	631	Cytoplasmic (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		CTCCTTGAGGTAGGCGTTGCG	0.642													12	50	---	---	---	---	PASS	A	123046520	A	A	123046520	3	1	44	1	0	0	0	0	1	0	0	0	297	1638	57	5	1953	5	ADCY5	3	123046520	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	3580520	123046520	74975910	243	17330										
PODXL2	50512	broad.mit.edu	37	chr3	127379811	127379811	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttcattccctcaaaccacaGctcccagtggggccgagcac	8	17	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:127379811G>T	uc003ejq.2	+	3	964	c.940G>T	c.(940-942)GCT>TCT	p.A314S		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	314	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						TCAAACCACAGCTCCCAGTGG	0.612													28	87	---	---	---	---	PASS	T	127379811	T	T	127379811	3	4	44	1	0	0	0	0	1	0	0	0	12181	971	34	3	950	3	PODXL2	3	127379811	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4333291	127379811	70642619	244	17331										
TF	7018	broad.mit.edu	37	chr3	133494302	133494302	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaccctgatccatgggctaaGaatctgaatgaaaaagacta	8	8	1	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:133494302G>A	uc003epu.1	+	20	3441	c.1713G>A	c.(1711-1713)AAG>AAA	p.K571K	TF_uc011blt.1_Silent_p.K444K|TF_uc003epw.1_Intron|TF_uc003epv.1_Silent_p.K571K	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	571	Transferrin-like 2.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	CATGGGCTAAGAATCTGAATG	0.527													35	115	---	---	---	---	PASS	A	133494302	A	A	133494302	2	1	44	1	0	0	0	0	0	0	0	1	15782	933	33	2		2	TF	3	133494302	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	6114491	133494302	64528128	245	17332										
ANAPC13	25847	broad.mit.edu	37	chr3	134197492	134197492	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaggctaagtctgtccacttCatttcttgttctttgacaga	7	9	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:134197492C>T	uc003eqi.2	-	3	262	c.165G>A	c.(163-165)ATG>ATA	p.M55I	ANAPC13_uc003eqj.2_RNA|ANAPC13_uc003eqk.3_RNA	NM_015391	NP_056206	Q9BS18	APC13_HUMAN	anaphase promoting complex subunit 13	55					cell division|mitosis|protein K11-linked ubiquitination	anaphase-promoting complex				skin(1)	1						CTGTCCACTTCATTTCTTGTT	0.418													31	105	---	---	---	---	PASS	T	134197492	T	T	134197492	3	4	44	1	0	0	0	0	1	0	0	0	601	826	29	2	63	2	ANAPC13	3	134197492	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	703190	134197492	63824938	246	17333										
EPHB1	2047	broad.mit.edu	37	chr3	134873025	134873025	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gttcccatcatgcaccaagtCagtgccactatgaggagcat	9	12	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:134873025C>G	uc003eqt.2	+	6	1549	c.1329C>G	c.(1327-1329)GTC>GTG	p.V443V	EPHB1_uc003equ.2_Silent_p.V4V	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	443	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						TGCACCAAGTCAGTGCCACTA	0.537													39	240	---	---	---	---	PASS	G	134873025	G	G	134873025	2	3	44	1	0	0	0	0	0	0	0	1	5174	813	29	2		2	EPHB1	3	134873025	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	675533	134873025	63149405	247	17334										
SOX14	8403	broad.mit.edu	37	chr3	137483679	137483679	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	catgaacgccttcatggtatGgtcccggggccagcggcgca	14	13	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:137483679G>T	uc003erm.1	+	1	101	c.53G>T	c.(52-54)TGG>TTG	p.W18L		NM_004189	NP_004180	O95416	SOX14_HUMAN	SRY-box 14	18	HMG box.				negative regulation of transcription from RNA polymerase II promoter|nervous system development|transcription, DNA-dependent	nucleus	sequence-specific DNA binding				0						TTCATGGTATGGTCCCGGGGC	0.602													19	45	---	---	---	---	PASS	T	137483679	T	T	137483679	3	4	44	1	0	0	0	0	1	0	0	0	14945	1357	47	3	55	3	SOX14	3	137483679	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2610654	137483679	60538751	248	17335										
CLSTN2	64084	broad.mit.edu	37	chr3	140277540	140277540	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tagatgcctatgtgatggtcCtccaggccatcgagccccgg	12	13	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:140277540C>A	uc003etn.2	+	12	2072	c.1882C>A	c.(1882-1884)CTC>ATC	p.L628I		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	628	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						TGTGATGGTCCTCCAGGCCAT	0.557										HNSCC(16;0.037)			26	86	---	---	---	---	PASS	A	140277540	A	A	140277540	3	1	44	1	0	0	0	0	1	0	0	0	3562	681	24	3	1928	3	CLSTN2	3	140277540	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2793861	140277540	57744890	249	17336										
ZBTB38	253461	broad.mit.edu	37	chr3	141164623	141164623	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tatgcctgcttccagtgcccCaaaatttgcaaaacagctgc	7	13	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:141164623C>A	uc003etw.2	+	8	4375	c.3393C>A	c.(3391-3393)CCC>CCA	p.P1131P	ZBTB38_uc010hun.2_Silent_p.P1128P|ZBTB38_uc010huo.2_Silent_p.P1131P|ZBTB38_uc003ety.2_Silent_p.P1131P|ZBTB38_uc010hup.2_Silent_p.P1132P	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	1131	C2H2-type 10.				positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						TCCAGTGCCCCAAAATTTGCA	0.463													4	147	---	---	---	---	PASS	A	141164623	A	A	141164623	2	1	44	1	0	0	0	0	0	0	0	1	17536	581	21	3		3	ZBTB38	3	141164623	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	887083	141164623	56857807	250	17337										
PAQR9	344838	broad.mit.edu	37	chr3	142681231	142681231	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tagatgctgaggaaggtgaaGatgtggaagagctggtggct	18	3	0	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:142681231G>C	uc003evg.2	-	1	948	c.948C>G	c.(946-948)ATC>ATG	p.I316M	PAQR9_uc003evf.1_RNA	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	316	Helical; (Potential).					integral to membrane	receptor activity				0						GGAAGGTGAAGATGTGGAAGA	0.607													25	93	---	---	---	---	PASS	C	142681231	C	C	142681231	3	2	44	1	0	0	0	0	1	0	0	0	11442	932	33	2	189	2	PAQR9	3	142681231	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1516608	142681231	55341199	251	17338										
PLSCR2	57047	broad.mit.edu	37	chr3	146173175	146173175	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acagaaattagtatcttctgCtgcaaaataaatcctctgcc	5	10	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:146173175C>A	uc003evv.1	-	5	505	c.172G>T	c.(172-174)GCA>TCA	p.A58S	PLSCR2_uc003evw.1_Missense_Mutation_p.A127S	NM_020359	NP_065092	Q9NRY7	PLS2_HUMAN	phospholipid scramblase 2	58	Cytoplasmic (By similarity).				phospholipid scrambling	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity				0						GTATCTTCTGCTGCAAAATAA	0.363													41	143	---	---	---	---	PASS	A	146173175	A	A	146173175	3	1	44	1	0	0	0	0	1	0	0	0	12110	797	28	3	518	3	PLSCR2	3	146173175	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3491944	146173175	51849255	252	17339										
ZIC1	7545	broad.mit.edu	37	chr3	147127995	147127995	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcgacgtggccgaacgagaCgtgggcctgggcatcaaccc	16	13	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:147127995C>A	uc003ewe.2	+	1	815	c.96C>A	c.(94-96)GAC>GAA	p.D32E		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	32					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCGAACGAGACGTGGGCCTGG	0.701													17	51	---	---	---	---	PASS	A	147127995	A	A	147127995	3	1	44	1	0	0	0	0	1	0	0	0	17675	535	19	1	98	1	ZIC1	3	147127995	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	954820	147127995	50894435	253	17340										
CLRN1	7401	broad.mit.edu	37	chr3	150690483	150690483	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcaaaaaatgattttcttctGttggcttggcatgatgagaa	10	5	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:150690483G>C	uc003eyk.1	-	1	304	c.13C>G	c.(13-15)CAG>GAG	p.Q5E	CLRN1OS_uc011bny.1_Intron|CLRN1OS_uc003eyl.2_RNA	NM_174878	NP_777367	P58418	CLRN1_HUMAN	clarin 1 isoform a	5					equilibrioception|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			ATTTTCTTCTGTTGGCTTGGC	0.483													9	57	---	---	---	---	PASS	C	150690483	C	C	150690483	3	2	44	1	0	0	0	0	1	0	0	0	3557	1386	48	4	751	4	CLRN1	3	150690483	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3562488	150690483	47331947	254	17341										
MBNL1	4154	broad.mit.edu	37	chr3	152132854	152132854	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggccatgttggcccagcaaaTgcaactagccaatgccatga	10	12	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:152132854T>C	uc003ezm.2	+	2	1088	c.299T>C	c.(298-300)ATG>ACG	p.M100T	MBNL1_uc003ezh.2_Missense_Mutation_p.M100T|MBNL1_uc003ezi.2_Missense_Mutation_p.M100T|MBNL1_uc003ezj.2_Missense_Mutation_p.M43T|MBNL1_uc003ezl.2_Missense_Mutation_p.M100T|MBNL1_uc003ezp.2_Missense_Mutation_p.M100T|MBNL1_uc003ezn.2_Missense_Mutation_p.M100T|MBNL1_uc003ezo.2_Missense_Mutation_p.M100T|MBNL1_uc010hvp.2_Missense_Mutation_p.M8T	NM_207293	NP_997176	Q9NR56	MBNL1_HUMAN	muscleblind-like 1 isoform c	100					embryonic limb morphogenesis|in utero embryonic development|myoblast differentiation|nervous system development	nucleus|stress granule	double-stranded RNA binding|protein binding|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			GCCCAGCAAATGCAACTAGCC	0.428													50	66	---	---	---	---	PASS	C	152132854	C	C	152132854	3	2	44	1	0	0	0	0	1	0	0	0	9353	1464	51	5	305	5	MBNL1	3	152132854	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	1442371	152132854	45889576	255	17342										
SHOX2	6474	broad.mit.edu	37	chr3	157820615	157820615	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttcgcctctgcttgattttgGtctggccttcgtcctccatc	8	14	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:157820615G>A	uc003fbr.2	-	2	546	c.407C>T	c.(406-408)ACC>ATC	p.T136I	SHOX2_uc003fbs.2_Missense_Mutation_p.T160I|SHOX2_uc010hvw.2_Missense_Mutation_p.T136I	NM_006884	NP_006875	O60902	SHOX2_HUMAN	short stature homeobox 2 isoform a	136					nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			Lung(72;0.00318)|LUSC - Lung squamous cell carcinoma(72;0.0043)			CTTGATTTTGGTCTGGCCTTC	0.562													52	71	---	---	---	---	PASS	A	157820615	A	A	157820615	3	1	44	1	0	0	0	0	1	0	0	0	14289	1261	44	3	604	3	SHOX2	3	157820615	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5687761	157820615	40201815	256	17343										
SI	6476	broad.mit.edu	37	chr3	164714433	164714433	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaaaaaaccacagatgtctgCtccagtctaaaatatattgt	6	8	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:164714433C>A	uc003fei.2	-	40	4644	c.4582G>T	c.(4582-4584)GCA>TCA	p.A1528S		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1528	Sucrase.|Lumenal.				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)	CAGATGTCTGCTCCAGTCTAA	0.303										HNSCC(35;0.089)			120	103	---	---	---	---	PASS	A	164714433	A	A	164714433	3	1	44	1	0	0	0	0	1	0	0	0	14297	797	28	3	937	3	SI	3	164714433	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	6893818	164714433	33307997	257	17344										
SI	6476	broad.mit.edu	37	chr3	164764675	164764675	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccagcattccagttatagacCattccatttgttcccatgaa	5	12	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:164764675C>G	uc003fei.2	-	16	1903	c.1841G>C	c.(1840-1842)TGG>TCG	p.W614S		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	614	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)	AGTTATAGACCATTCCATTTG	0.383										HNSCC(35;0.089)			30	328	---	---	---	---	PASS	G	164764675	G	G	164764675	3	3	44	1	0	0	0	0	1	0	0	0	14297	595	21	4	3774	4	SI	3	164764675	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	50242	164764675	33257755	258	17345										
SI	6476	broad.mit.edu	37	chr3	164786965	164786965	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccacggcctccagcagcagcCtctctgtgcacaaattccct	7	18	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:164786965C>A	uc003fei.2	-	4	336	c.274G>T	c.(274-276)GGC>TGC	p.G92C		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	92	Lumenal.|P-type 1.				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)	CAGCAGCAGCCTCTCTGTGCA	0.368										HNSCC(35;0.089)			12	142	---	---	---	---	PASS	A	164786965	A	A	164786965	3	1	44	1	0	0	0	0	1	0	0	0	14297	681	24	3	5389	3	SI	3	164786965	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	22290	164786965	33235465	259	17346										
SLITRK3	22865	broad.mit.edu	37	chr3	164905964	164905964	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggctgtggcctctctcgatcTagtagcatactgccactacc	9	14	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:164905964T>C	uc003fej.3	-	2	3099	c.2655A>G	c.(2653-2655)CTA>CTG	p.L885L	SLITRK3_uc003fek.2_Silent_p.L885L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	885	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						TCTCTCGATCTAGTAGCATAC	0.567										HNSCC(40;0.11)			16	192	---	---	---	---	PASS	C	164905964	C	C	164905964	2	2	44	1	0	0	0	0	0	0	0	1	14744	1509	53	5		5	SLITRK3	3	164905964	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	118999	164905964	33116466	260	17347										
SLITRK3	22865	broad.mit.edu	37	chr3	164906343	164906343	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagccacctcctcctcctcaCgaggcttgtagatggggttg	11	14	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:164906343C>A	uc003fej.3	-	2	2720	c.2276G>T	c.(2275-2277)CGT>CTT	p.R759L	SLITRK3_uc003fek.2_Missense_Mutation_p.R759L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	759	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						CTCCTCCTCACGAGGCTTGTA	0.577										HNSCC(40;0.11)			32	266	---	---	---	---	PASS	A	164906343	A	A	164906343	3	1	44	1	0	0	0	0	1	0	0	0	14744	536	19	1	661	1	SLITRK3	3	164906343	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	379	164906343	33116087	261	17348										
ZBBX	79740	broad.mit.edu	37	chr3	167045853	167045853	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaatgacccttcacacaacaGactctttcttggttttgtac	6	11	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:167045853G>C	uc003fep.2	-	11	1062	c.739C>G	c.(739-741)CTG>GTG	p.L247V	ZBBX_uc011bpc.1_Missense_Mutation_p.L247V|ZBBX_uc003feq.2_Missense_Mutation_p.L218V	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	247						intracellular	zinc ion binding			ovary(2)	2						TCACACAACAGACTCTTTCTT	0.363													53	449	---	---	---	---	PASS	C	167045853	C	C	167045853	3	2	44	1	0	0	0	0	1	0	0	0	17513	933	33	2	1707	2	ZBBX	3	167045853	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2139510	167045853	30976577	262	17349										
SKIL	6498	broad.mit.edu	37	chr3	170079108	170079108	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	taaatggcattgctatcttcAtgtgaaccaaaaatacttag	6	7	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:170079108A>T	uc003fgu.2	+	2	1701	c.989A>T	c.(988-990)CAT>CTT	p.H330L	SKIL_uc011bps.1_Missense_Mutation_p.H310L|SKIL_uc003fgv.2_Missense_Mutation_p.H330L|SKIL_uc003fgw.2_Missense_Mutation_p.H330L	NM_005414	NP_005405	P12757	SKIL_HUMAN	SKI-like isoform 1	330					cell cycle arrest|negative regulation of cell differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of axonogenesis|protein heterotrimerization|protein homotrimerization|regulation of apoptosis|regulation of apoptosis|response to antibiotic|response to growth factor stimulus|skeletal muscle tissue development	cytoplasm|PML body	chromatin binding|nucleotide binding|protein complex binding|protein domain specific binding|SMAD binding|transcription corepressor activity|transcription repressor activity			ovary(2)|skin(1)	3	all_cancers(22;7.13e-23)|all_epithelial(15;9.95e-28)|all_lung(20;1.23e-16)|Lung NSC(18;5.15e-16)|Ovarian(172;0.000337)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			TGCTATCTTCATGTGAACCAA	0.383													50	306	---	---	---	---	PASS	T	170079108	T	T	170079108	3	4	44	1	0	0	0	0	1	0	0	0	14358	217	8	5	991	5	SKIL	3	170079108	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	3033255	170079108	27943322	263	17350										
PIK3CA	5290	broad.mit.edu	37	chr3	178936082	178936082	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctacacgagatcctctctctGaaatcactgagcaggagaaa	8	11	3	4	rs121913273		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:178936082G>A	uc003fjk.2	+	10	1781	c.1624G>A	c.(1624-1626)GAA>AAA	p.E542K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	542	PI3K helical.		E -> V (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation).|E -> Q (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E542K(481)|p.E542V(8)|p.E542Q(6)|p.E542G(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCCTCTCTCTGAAATCACTGA	0.333	E542K(SW948_LARGE_INTESTINE)|E542K(T84_LARGE_INTESTINE)|E542K(CAL51_BREAST)|E542K(JHUEM1_ENDOMETRIUM)|E542K(NCIH1341_LUNG)|E542K(VMCUB1_URINARY_TRACT)|E542K(BT483_BREAST)|E542K(HGC27_STOMACH)|E542K(IM95_STOMACH)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			77	122	---	---	---	---	PASS	A	178936082	A	A	178936082	3	1	44	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1658	2	PIK3CA	3	178936082	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	8856974	178936082	19086348	264	17351										
C3orf70	285382	broad.mit.edu	37	chr3	184870595	184870595	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaccccgctccgacgccggcGaggccgccgcactcatttcc	10	20	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:184870595G>A	uc003fpd.2	-	1	208	c.17C>T	c.(16-18)TCG>TTG	p.S6L		NM_001025266	NP_001020437	A6NLC5	CC070_HUMAN	hypothetical protein LOC285382	6											0						CGACGCCGGCGAGGCCGCCGC	0.716													8	101	---	---	---	---	PASS	A	184870595	A	A	184870595	3	1	44	1	0	0	0	0	1	0	0	0	2242	1059	37	2	743	2	C3orf70	3	184870595	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5934513	184870595	13151835	265	17352										
MAP3K13	9175	broad.mit.edu	37	chr3	185169181	185169181	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagaaacttacttcaagtctCaggtaagttgggaaacttcc	8	8	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:185169181C>G	uc010hyf.2	+	8	1542	c.1276C>G	c.(1276-1278)CAG>GAG	p.Q426E	MAP3K13_uc011brt.1_Missense_Mutation_p.Q219E|MAP3K13_uc003fph.3_Missense_Mutation_p.Q194E|MAP3K13_uc011bru.1_Missense_Mutation_p.Q282E|MAP3K13_uc003fpi.2_Missense_Mutation_p.Q426E|MAP3K13_uc010hyg.2_Missense_Mutation_p.Q116E	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	426					activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			CTTCAAGTCTCAGGTAAGTTG	0.423													84	112	---	---	---	---	PASS	G	185169181	G	G	185169181	3	3	44	1	0	0	0	0	1	0	0	0	9247	827	29	2	1298	2	MAP3K13	3	185169181	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	298586	185169181	12853249	266	17353										
SENP2	59343	broad.mit.edu	37	chr3	185347593	185347593	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagatgcctctcttccggaaGaagatggtgtgggaaatcct	12	9	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:185347593G>C	uc003fpn.2	+	17	1902	c.1731G>C	c.(1729-1731)AAG>AAC	p.K577N	SENP2_uc011brv.1_Missense_Mutation_p.K567N|SENP2_uc011brw.1_Missense_Mutation_p.K390N	NM_021627	NP_067640	Q9HC62	SENP2_HUMAN	SUMO1/sentrin/SMT3 specific protease 2	577					mRNA transport|protein desumoylation|protein transport|proteolysis|regulation of Wnt receptor signaling pathway|transmembrane transport|Wnt receptor signaling pathway	cytoplasm|nuclear membrane|nuclear pore	protein binding|SUMO-specific protease activity				0	all_cancers(143;1.28e-10)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			TCTTCCGGAAGAAGATGGTGT	0.468													26	171	---	---	---	---	PASS	C	185347593	C	C	185347593	3	2	44	1	0	0	0	0	1	0	0	0	14047	933	33	2	1797	2	SENP2	3	185347593	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	178412	185347593	12674837	267	17354										
AHSG	197	broad.mit.edu	37	chr3	186333536	186333536	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaaaccacctgccatgtgctGgaccccacccctgtggcaag	10	16	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:186333536G>T	uc003fqk.3	+	2	357	c.276G>T	c.(274-276)CTG>CTT	p.L92L	AHSG_uc003fqj.2_Silent_p.L92L|AHSG_uc003fql.3_Silent_p.L92L|AHSG_uc003fqm.3_Silent_p.L91L|AHSG_uc010hyp.2_Intron	NM_001622	NP_001613	P02765	FETUA_HUMAN	alpha-2-HS-glycoprotein	92	Cystatin fetuin-A-type 1.				acute-phase response|negative regulation of bone mineralization|negative regulation of insulin receptor signaling pathway|pinocytosis|positive regulation of phagocytosis|regulation of inflammatory response|skeletal system development	extracellular space	cysteine-type endopeptidase inhibitor activity|protein binding				0	all_cancers(143;3.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.27e-20)	GBM - Glioblastoma multiforme(93;0.0463)		GCCATGTGCTGGACCCCACCC	0.567													113	49	---	---	---	---	PASS	T	186333536	T	T	186333536	2	4	44	1	0	0	0	0	0	0	0	1	420	1335	47	3		3	AHSG	3	186333536	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	985943	186333536	11688894	268	17355										
CCDC50	152137	broad.mit.edu	37	chr3	191075833	191075833	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagcggaaccgtttggtccaGcatgatctccaggtggctaa	12	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:191075833G>A	uc003fsw.2	+	3	749	c.159G>A	c.(157-159)CAG>CAA	p.Q53Q	CCDC50_uc003fsv.2_Silent_p.Q53Q	NM_174908	NP_777568	Q8IVM0	CCD50_HUMAN	Ymer protein short isoform	53						cytoplasm	protein binding				0	all_cancers(143;8.88e-09)|Ovarian(172;0.103)|Breast(254;0.221)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000136)		GTTTGGTCCAGCATGATCTCC	0.488													54	509	---	---	---	---	PASS	A	191075833	A	A	191075833	2	1	44	1	0	0	0	0	0	0	0	1	2820	962	34	3		3	CCDC50	3	191075833	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	4742297	191075833	6946597	269	17356										
ATP13A3	79572	broad.mit.edu	37	chr3	194147892	194147892	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tccaatgcagatgataatctGagacaaaacggagaagagaa	10	6	1	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:194147892G>C	uc003fty.3	-	28	3439	c.3037C>G	c.(3037-3039)CAG>GAG	p.Q1013E	ATP13A3_uc003ftx.3_5'Flank	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	1013	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(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		ATGATAATCTGAGACAAAACG	0.413													14	175	---	---	---	---	PASS	C	194147892	C	C	194147892	3	2	44	1	0	0	0	0	1	0	0	0	1125	1299	45	2	663	2	ATP13A3	3	194147892	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3072059	194147892	3874538	270	17357										
TNK2	10188	broad.mit.edu	37	chr3	195611843	195611843	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caggggcgggcgaggtcttcCggaaggtgctctgagagtga	19	8	2	2	rs113498671		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:195611843C>A	uc003fvu.1	-	4	839	c.296G>T	c.(295-297)CGG>CTG	p.R99L	TNK2_uc003fvs.1_Missense_Mutation_p.R131L|TNK2_uc003fvt.1_Missense_Mutation_p.R162L|TNK2_uc010hzw.1_RNA|TNK2_uc003fvv.1_5'UTR|TNK2_uc010hzx.1_Missense_Mutation_p.R113L	NM_005781	NP_005772	Q07912	ACK1_HUMAN	tyrosine kinase, non-receptor, 2 isoform 1	99	SAM-like domain.		R -> Q (in an ovarian mucinous carcinoma sample; somatic mutation; undergoes autoactivation and causes phosphorylation on Tyr-284 leading to activation of AKT1).		positive regulation of peptidyl-tyrosine phosphorylation|protein ubiquitination|small GTPase mediated signal transduction	adherens junction|cytoplasmic vesicle membrane|endosome|nucleus	ATP binding|GTPase inhibitor activity|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding	p.R99Q(1)|p.R99R(1)		ovary(3)|central_nervous_system(3)|lung(2)|stomach(1)|skin(1)	10	all_cancers(143;6.48e-09)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;1.46e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.3e-19)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;0.000757)	Adenosine triphosphate(DB00171)	CGAGGTCTTCCGGAAGGTGCT	0.642													21	164	---	---	---	---	PASS	A	195611843	A	A	195611843	3	1	44	1	0	0	0	0	1	0	0	0	16315	652	23	1	2917	1	TNK2	3	195611843	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1463951	195611843	2410587	271	17358										
LRCH3	84859	broad.mit.edu	37	chr3	197566206	197566206	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcctagggttcaccagtaaaGccagtagccattagggagtt	12	9	1	0	rs149928703		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr3:197566206G>A	uc011bul.1	+	10	1271	c.1266G>A	c.(1264-1266)AAG>AAA	p.K422K	LRCH3_uc003fyj.1_Silent_p.K422K|LRCH3_uc011bum.1_Silent_p.K394K|LRCH3_uc011bun.1_Silent_p.K268K|LRCH3_uc003fyk.2_Silent_p.K17K	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	422						extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		CACCAGTAAAGCCAGTAGCCA	0.328													99	89	---	---	---	---	PASS	A	197566206	A	A	197566206	2	1	44	1	0	0	0	0	0	0	0	1	8934	962	34	3		3	LRCH3	3	197566206	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1954363	197566206	456224	272	17359										
ZNF141	7700	broad.mit.edu	37	chr4	366586	366586	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaaaaggctgtaaaagtttGaatgagtgtaagttgcagaa	12	2	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:366586G>A	uc003gaa.2	+	5	538	c.360G>A	c.(358-360)TTG>TTA	p.L120L	ZNF141_uc003gab.2_Silent_p.L120L	NM_003441	NP_003432	Q15928	ZN141_HUMAN	zinc finger protein 141	120					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0						GTAAAAGTTTGAATGAGTGTA	0.343													29	66	---	---	---	---	PASS	A	366586	A	A	366586	2	1	44	1	0	0	0	0	0	0	0	1	17727	1281	45	2		2	ZNF141	4	366586	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08		366586	190787690	273	17360										
SORCS2	57537	broad.mit.edu	37	chr4	7726979	7726979	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttcccttgaaccctaacctcAccgtcttctactggtggatc	6	15	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:7726979A>G	uc003gkb.3	+	20	2710	c.2710A>G	c.(2710-2712)ACC>GCC	p.T904A	SORCS2_uc011bwi.1_Missense_Mutation_p.T732A	NM_020777	NP_065828	Q96PQ0	SORC2_HUMAN	VPS10 domain receptor protein SORCS 2 precursor	904	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2						CCCTAACCTCACCGTCTTCTA	0.622													19	22	---	---	---	---	PASS	G	7726979	G	G	7726979	3	3	44	1	0	0	0	0	1	0	0	0	14931	159	6	5	2788	5	SORCS2	4	7726979	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	7360393	7726979	183427297	274	17361										
LAP3	51056	broad.mit.edu	37	chr4	17581491	17581491	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaagaaaaagaagatgatgtGccacagttcacaagtgcagg	11	6	1	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:17581491G>T	uc003gph.1	+	2	309	c.147G>T	c.(145-147)GTG>GTT	p.V49V	LAP3_uc010ieg.2_Silent_p.V49V	NM_015907	NP_056991	P28838	AMPL_HUMAN	leucine aminopeptidase 3	49					proteolysis	nucleus	aminopeptidase activity|magnesium ion binding|manganese ion binding|metalloexopeptidase activity|zinc ion binding				0						AAGATGATGTGCCACAGTTCA	0.373													39	34	---	---	---	---	PASS	T	17581491	T	T	17581491	2	4	44	1	0	0	0	0	0	0	0	1	8623	1306	46	3		3	LAP3	4	17581491	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	9854512	17581491	173572785	275	17362										
TBC1D19	55296	broad.mit.edu	37	chr4	26641807	26641807	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgcacctaaggattttcttGaggtaggttctattggataa	10	5	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:26641807G>C	uc003gsf.3	+	7	748	c.478G>C	c.(478-480)GAG>CAG	p.E160Q	TBC1D19_uc010iew.2_Missense_Mutation_p.E160Q|TBC1D19_uc011bxu.1_Missense_Mutation_p.E95Q	NM_018317	NP_060787	Q8N5T2	TBC19_HUMAN	TBC1 domain family, member 19	160						intracellular	Rab GTPase activator activity			breast(1)	1		Breast(46;0.0503)				GGATTTTCTTGAGGTAGGTTC	0.204													26	69	---	---	---	---	PASS	C	26641807	C	C	26641807	3	2	44	1	0	0	0	0	1	0	0	0	15604	1291	45	2	504	2	TBC1D19	4	26641807	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	9060316	26641807	164512469	276	17363										
GABRG1	2565	broad.mit.edu	37	chr4	46043100	46043100	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agagtcaattttggcaatgcGtatgtgtatccttccttccc	8	10	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:46043100G>A	uc003gxb.2	-	9	1455	c.1303C>T	c.(1303-1305)CGC>TGC	p.R435C		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	435	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		TTGGCAATGCGTATGTGTATC	0.403													52	37	---	---	---	---	PASS	A	46043100	A	A	46043100	3	1	44	1	0	0	0	0	1	0	0	0	6171	1145	40	1	98	1	GABRG1	4	46043100	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	19401293	46043100	145111176	277	17364										
SGCB	6443	broad.mit.edu	37	chr4	52894207	52894207	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgaatacaccttcatttccaCgcacaatagcacgcccatca	4	15	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:52894207C>A	uc003gzj.2	-	5	740	c.680G>T	c.(679-681)CGT>CTT	p.R227L	SGCB_uc011bzp.1_Missense_Mutation_p.R157L	NM_000232	NP_000223	Q16585	SGCB_HUMAN	sarcoglycan, beta	227	Extracellular (Potential).|Cys-rich.				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma					0			GBM - Glioblastoma multiforme(4;7.63e-12)|LUSC - Lung squamous cell carcinoma(32;0.00204)			TTCATTTCCACGCACAATAGC	0.338													77	51	---	---	---	---	PASS	A	52894207	A	A	52894207	3	1	44	1	0	0	0	0	1	0	0	0	14200	536	19	1	284	1	SGCB	4	52894207	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	6851107	52894207	138260069	278	17365										
KIT	3815	broad.mit.edu	37	chr4	55593588	55593588	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctttctccccacagaaacccAtgtatgaagtacagtggaag	8	11	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:55593588A>T	uc010igr.2	+	11	1741	c.1654A>T	c.(1654-1656)ATG>TTG	p.M552L	KIT_uc010igs.2_Missense_Mutation_p.M548L|KIT_uc010igt.1_Missense_Mutation_p.M1L	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	552	Cytoplasmic (Potential).		Missing (in GIST; somatic mutation).|Missing (in GIST; somatic mutation).		male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity	p.K550_K558del(33)|p.M552_W557del(19)|p.M552_Y553del(15)|p.P551_E554del(14)|p.P551_V555del(12)|p.M552_V555del(11)|p.K550_E554del(10)|p.P551_M552>L(9)|p.P551_Q556del(9)|p.M552_E554>K(7)|p.K550_V555del(6)|p.K550_V555>I(6)|p.M552_V559>I(5)|p.K550_Q556del(5)|p.M552_E554del(4)|p.K550_W557del(4)|p.M552_K558del(4)|p.M552_Q556del(4)|p.M552_D572del(4)|p.M552_Q556>K(4)|p.P551_V559del(3)|p.K550_V559del(3)|p.P551_Y553del(3)|p.P551_E554>H(3)|p.M552_E561>K(2)|p.P551_K558del(2)|p.L548_K558>Q(2)|p.M552_E554>I(2)|p.M552_K558>T(2)|p.M552V(2)|p.K550_K558>Q(2)|p.K550_E554>I(2)|p.P551_V569del(2)|p.M552L(2)|p.P551_M552del(2)|p.K550fs*6(2)|p.K550_W557>IL(2)|p.M552T(2)|p.M552_Q556>T(2)|p.P551_Q556>T(2)|p.K550_W557>QR(2)|p.Y547_K558>Q(2)|p.M552_V559>IT(1)|p.Q549_V555>I(1)|p.K550_V555>KTL(1)|p.M552_W557>Z(1)|p.K550_W557>IR(1)|p.P551_V559>I(1)|p.P551_W557>R(1)|p.K550_V560>L(1)|p.P551_V555>L(1)|p.M552_Y553>T(1)|p.M552_T574>TESA(1)|p.M552_I563del(1)|p.K550_W557>HR(1)|p.M552_V555>I(1)|p.M552_Q556>(1)|p.K550_Q556>L(1)|p.P551_Q556>HV(1)|p.P551_Y553>Q(1)|p.M552I(1)|p.P551_E561>Q(1)|p.K550_V555>QRI(1)|p.L548_E554>QK(1)|p.M552_V560del(1)|p.?(1)|p.P551_W557del(1)|p.M552_Y553>N(1)|p.K550_Y553del(1)|p.M552_K558>NE(1)|p.K550_Y568del(1)|p.K550_K558>G(1)|p.K550_W557>FL(1)|p.Q549_E554del(1)|p.M552K(1)|p.K550_V555>F(1)|p.P551_V569>L(1)|p.P551_V559del>L(1)|p.K550_Q556>II(1)|p.P551_V555>?(1)|p.M552_Y570del(1)		soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	ACAGAAACCCATGTATGAAGT	0.373		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				50	45	---	---	---	---	PASS	T	55593588	T	T	55593588	3	4	44	1	0	0	0	0	1	0	0	0	8329	217	8	5	1696	5	KIT	4	55593588	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	2699381	55593588	135560688	279	17366										
KDR	3791	broad.mit.edu	37	chr4	55961110	55961110	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtctttcccttgacggaatcGtgcccctttggtctataaaa	8	11	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:55961110G>T	uc003has.2	-	21	3132	c.2830C>A	c.(2830-2832)CGA>AGA	p.R944R	KDR_uc003hat.1_Silent_p.R944R	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	944	Protein kinase.|Cytoplasmic (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)	TGACGGAATCGTGCCCCTTTG	0.433			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			55	27	---	---	---	---	PASS	T	55961110	T	T	55961110	2	4	44	1	0	0	0	0	0	0	0	1	8139	1153	40	1		1	KDR	4	55961110	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	367522	55961110	135193166	280	17367										
LPHN3	23284	broad.mit.edu	37	chr4	62758438	62758438	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtaccacccttcggaccacAactttgagcccaggaaggag	10	13	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:62758438A>G	uc010ihh.2	+	7	1514	c.1341A>G	c.(1339-1341)ACA>ACG	p.T447T	LPHN3_uc003hcq.3_Silent_p.T447T|LPHN3_uc003hcs.1_Silent_p.T276T	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	447	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						TTCGGACCACAACTTTGAGCC	0.483													59	47	---	---	---	---	PASS	G	62758438	G	G	62758438	2	3	44	1	0	0	0	0	0	0	0	1	8917	117	5	5		5	LPHN3	4	62758438	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	6797328	62758438	128395838	281	17368										
UGT2B28	54490	broad.mit.edu	37	chr4	70160366	70160366	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acaaaggagccaaacaccttCgagttgcagcccgtgacctc	9	14	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:70160366C>T	uc003hej.2	+	6	1431	c.1429C>T	c.(1429-1431)CGA>TGA	p.R477*	UGT2B28_uc010ihr.2_3'UTR	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	477					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	CAAACACCTTCGAGTTGCAGC	0.463													65	50	---	---	---	---	PASS	T	70160366	T	T	70160366	4	4	44	1	0	0	0	0	0	1	0	0	16957	876	31	2	1451	2	UGT2B28	4	70160366	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	7401928	70160366	120993910	282	17369										
NAP1L5	266812	broad.mit.edu	37	chr4	89618712	89618712	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctcgataaagtcatttttcGgctttggggcattctctgca	9	9	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:89618712G>T	uc003hrx.2	-	1	312	c.194C>A	c.(193-195)CCG>CAG	p.P65Q	HERC3_uc003hrw.1_Intron|HERC3_uc011cdn.1_Intron|HERC3_uc011cdo.1_Intron	NM_153757	NP_715638	Q96NT1	NP1L5_HUMAN	nucleosome assembly protein 1-like 5	65					nucleosome assembly	nucleus	protein binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000181)		GTCATTTTTCGGCTTTGGGGC	0.458													90	88	---	---	---	---	PASS	T	89618712	T	T	89618712	3	4	44	1	0	0	0	0	1	0	0	0	10160	1116	39	1	358	1	NAP1L5	4	89618712	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	19458346	89618712	101535564	283	17370										
UNC5C	8633	broad.mit.edu	37	chr4	96140340	96140340	+	Frame_Shift_Del	DEL	G	-	-													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tacactttgattttcaggttGggcagtggatccagaattgg							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:96140340delG	uc003htp.1	-	9	1579	c.1425delC	c.(1423-1425)CCCfs	p.P475fs	UNC5C_uc010ilc.1_Frame_Shift_Del_p.P494fs|UNC5C_uc003htq.2_Frame_Shift_Del_p.P494fs	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	475	Cytoplasmic (Potential).				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		TTTTCAGGTTGGGCAGTGGAT	0.517													179	196	---	---	---	---		-	96140340	-	-	96140340	7	5	44	1	0	1	0	1	0	0	0	0	16990	1335	47	0	1402	0	UNC5C	4	96140340	Frame_Shift_Del	DEL	G	TCGA-22-5473-01A-01D-1632-08	6521628	96140340	95013936	284	17371										
PPP3CA	5530	broad.mit.edu	37	chr4	101950344	101950344	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttcatcagcctcaatagcctCaacagtagctgaagagaaga	8	10	4	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:101950344C>G	uc011cen.1	-	13	2023	c.1348G>C	c.(1348-1350)GAG>CAG	p.E450Q	PPP3CA_uc003hvu.2_Intron|PPP3CA_uc010ilj.2_Intron|PPP3CA_uc003hvt.2_Intron|PPP3CA_uc003hvs.2_Missense_Mutation_p.E383Q|PPP3CA_uc010ilk.2_Missense_Mutation_p.E218Q	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha	450					protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)		TCAATAGCCTCAACAGTAGCT	0.423													23	108	---	---	---	---	PASS	G	101950344	G	G	101950344	3	3	44	1	0	0	0	0	1	0	0	0	12397	835	29	2	225	2	PPP3CA	4	101950344	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	5810004	101950344	89203932	285	17372										
TET2	54790	broad.mit.edu	37	chr4	106155127	106155127	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggatagaaccaaccatgttGagggcaacagactaagtcca	10	9	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:106155127G>C	uc003hxk.2	+	3	414	c.28G>C	c.(28-30)GAG>CAG	p.E10Q	TET2_uc011cez.1_Missense_Mutation_p.E31Q|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Missense_Mutation_p.E10Q|TET2_uc003hxi.1_Missense_Mutation_p.E10Q	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	10					cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		CAACCATGTTGAGGGCAACAG	0.483			Mis N|F		MDS								29	28	---	---	---	---	PASS	C	106155127	C	C	106155127	3	2	44	1	0	0	0	0	1	0	0	0	15767	1291	45	2	30	2	TET2	4	106155127	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4204783	106155127	84999149	286	17373										
NDST3	9348	broad.mit.edu	37	chr4	118975437	118975437	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccagtgcttatagacaaaatGaaaggcaaatacattctcat	6	8	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:118975437G>A	uc003ibx.2	+	2	775	c.372G>A	c.(370-372)ATG>ATA	p.M124I	NDST3_uc011cgf.1_Missense_Mutation_p.M124I|NDST3_uc003ibw.2_Missense_Mutation_p.M124I	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	124	Lumenal (Potential).|Heparan sulfate N-deacetylase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						TAGACAAAATGAAAGGCAAAT	0.328													4	49	---	---	---	---	PASS	A	118975437	A	A	118975437	3	1	44	1	0	0	0	0	1	0	0	0	10257	1290	45	2	374	2	NDST3	4	118975437	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	12820310	118975437	72178839	287	17374										
PRSS12	8492	broad.mit.edu	37	chr4	119252905	119252905	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctgcagatcacttctgcatCggcatcatcccattggtcat	7	14	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:119252905C>G	uc003ica.1	-	4	984	c.937G>C	c.(937-939)GAT>CAT	p.D313H		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	313	SRCR 2.					membrane	scavenger receptor activity			skin(1)	1						ACTTCTGCATCGGCATCATCC	0.498													4	63	---	---	---	---	PASS	G	119252905	G	G	119252905	3	3	44	1	0	0	0	0	1	0	0	0	12615	884	31	2	1730	2	PRSS12	4	119252905	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	277468	119252905	71901371	288	17375										
SEC24D	9871	broad.mit.edu	37	chr4	119653922	119653922	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtgggtagaagaaaagctgaGagtcagccacacccatggtc	13	9	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:119653922G>C	uc003ici.3	-	20	2914	c.2642C>G	c.(2641-2643)TCT>TGT	p.S881C	SEC24D_uc003ich.3_RNA|SEC24D_uc003icj.3_Missense_Mutation_p.S882C|SEC24D_uc003ick.2_Missense_Mutation_p.S43C	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D	881					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0						GAAAAGCTGAGAGTCAGCCAC	0.488													5	80	---	---	---	---	PASS	C	119653922	C	C	119653922	3	2	44	1	0	0	0	0	1	0	0	0	13997	942	33	2	472	2	SEC24D	4	119653922	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	401017	119653922	71500354	289	17376										
TRPC3	7222	broad.mit.edu	37	chr4	122846259	122846259	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagaggctctgctgattccaGatctccattcagaatggctt	9	11	3	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:122846259G>C	uc003ieg.2	-	3	1164	c.1090C>G	c.(1090-1092)CTG>GTG	p.L364V	TRPC3_uc010inr.2_Missense_Mutation_p.L291V|TRPC3_uc003ief.2_Missense_Mutation_p.L291V|TRPC3_uc011cgl.1_Missense_Mutation_p.L28V	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	279	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						GCTGATTCCAGATCTCCATTC	0.473													76	58	---	---	---	---	PASS	C	122846259	C	C	122846259	3	2	44	1	0	0	0	0	1	0	0	0	16576	933	33	2	1715	2	TRPC3	4	122846259	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3192337	122846259	68308017	290	17377										
FAT4	79633	broad.mit.edu	37	chr4	126371354	126371354	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttttttatcacagtcactgcAaaggataagggaaaccctcc	7	10	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:126371354A>G	uc003ifj.3	+	9	9183	c.9183A>G	c.(9181-9183)GCA>GCG	p.A3061A	FAT4_uc011cgp.1_Silent_p.A1359A|FAT4_uc003ifi.1_Silent_p.A539A	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3061	Extracellular (Potential).|Cadherin 29.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAGTCACTGCAAAGGATAAGG	0.403													30	29	---	---	---	---	PASS	G	126371354	G	G	126371354	2	3	44	1	0	0	0	0	0	0	0	1	5692	117	5	5		5	FAT4	4	126371354	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	3525095	126371354	64782922	291	17378										
GYPA	2993	broad.mit.edu	37	chr4	145038082	145038082	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gccatcaccccaaaaataatGagtgttatctctacaggaga	7	10	2	2	rs140973108		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:145038082G>C	uc003ijo.3	-	5	398	c.282C>G	c.(280-282)CTC>CTG	p.L94L	GYPA_uc003ijn.2_Intron|GYPA_uc011cia.1_RNA|GYPA_uc011cib.1_Silent_p.L61L|GYPA_uc003ijp.3_Silent_p.L62L|GYPA_uc010ioq.2_Silent_p.L81L|GYPA_uc010ior.2_Silent_p.L29L|GYPA_uc010ios.1_RNA	NM_002099	NP_002090	P02724	GLPA_HUMAN	glycophorin A precursor	94	Helical.			L->I: Diminishes dimerization.	interspecies interaction between organisms	membrane fraction	receptor activity			central_nervous_system(2)	2	all_hematologic(180;0.15)					CAAAAATAATGAGTGTTATCT	0.348													37	115	---	---	---	---	PASS	C	145038082	C	C	145038082	2	2	44	1	0	0	0	0	0	0	0	1	6908	1277	45	2		2	GYPA	4	145038082	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	18666728	145038082	46116194	292	17379										
SLC10A7	84068	broad.mit.edu	37	chr4	147431098	147431098	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attcgttgatgggtgtgattGataaaagctgaagaaaaagc	12	3	0	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:147431098G>A	uc010ioz.2	-	3	541	c.287C>T	c.(286-288)TCA>TTA	p.S96L	SLC10A7_uc003ikr.2_Missense_Mutation_p.S96L|SLC10A7_uc010ipa.2_Missense_Mutation_p.S96L|SLC10A7_uc003iks.2_RNA|SLC10A7_uc003ikt.2_Missense_Mutation_p.S96L	NM_001029998	NP_001025169	Q0GE19	NTCP7_HUMAN	solute carrier family 10 (sodium/bile acid	96						integral to membrane	bile acid:sodium symporter activity				0	all_hematologic(180;0.151)					GGGTGTGATTGATAAAAGCTG	0.363													5	87	---	---	---	---	PASS	A	147431098	A	A	147431098	3	1	44	1	0	0	0	0	1	0	0	0	14379	1294	45	2	820	2	SLC10A7	4	147431098	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2393016	147431098	43723178	293	17380										
GRIA2	2891	broad.mit.edu	37	chr4	158257696	158257696	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctttagcctatgagatctgGatgtgcattgtttttgccta	9	8	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:158257696G>A	uc003ipm.3	+	11	2100	c.1641G>A	c.(1639-1641)TGG>TGA	p.W547*	GRIA2_uc011cit.1_Nonsense_Mutation_p.W500*|GRIA2_uc003ipl.3_Nonsense_Mutation_p.W547*|GRIA2_uc003ipk.3_Nonsense_Mutation_p.W500*|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	547	Helical; (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	ATGAGATCTGGATGTGCATTG	0.453													128	111	---	---	---	---	PASS	A	158257696	A	A	158257696	4	1	44	1	0	0	0	0	0	1	0	0	6768	1183	41	2	1683	2	GRIA2	4	158257696	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	10826598	158257696	32896580	294	17381										
MARCH1	55016	broad.mit.edu	37	chr4	164450146	164450146	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgaagacaagacctcctgtGaagccaatggctaccacaac	8	12	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:164450146G>C	uc003iqs.1	-	8	1601	c.624C>G	c.(622-624)TTC>TTG	p.F208L	MARCH1_uc003iqr.1_Missense_Mutation_p.F191L	NM_017923	NP_060393	Q8TCQ1	MARH1_HUMAN	membrane-associated RING-CH protein I	208	Helical; (Potential).				antigen processing and presentation of peptide antigen via MHC class II|immune response	cytoplasmic vesicle membrane|early endosome membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|plasma membrane	MHC protein binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				GACCTCCTGTGAAGCCAATGG	0.438													15	44	---	---	---	---	PASS	C	164450146	C	C	164450146	3	2	44	1	0	0	0	0	1	0	0	0	9298	1281	45	2	249	2	MARCH1	4	164450146	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	6192450	164450146	26704130	295	17382										
DDX60L	91351	broad.mit.edu	37	chr4	169342981	169342981	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctttctccatgcagtagtagGaagcataggttttgcctgag	11	8	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:169342981G>T	uc003irq.3	-	17	2545	c.2324C>A	c.(2323-2325)TCC>TAC	p.S775Y	DDX60L_uc003irr.1_Missense_Mutation_p.S775Y|DDX60L_uc003irs.1_Missense_Mutation_p.S502Y	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	775	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		GCAGTAGTAGGAAGCATAGGT	0.488													14	162	---	---	---	---	PASS	T	169342981	T	T	169342981	3	4	44	1	0	0	0	0	1	0	0	0	4379	1174	41	2	2884	2	DDX60L	4	169342981	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4892835	169342981	21811295	296	17383										
AADAT	51166	broad.mit.edu	37	chr4	170989782	170989782	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcaatgttgaaacttgtatgTgtaaaataactctctctatt	6	6	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:170989782T>A	uc003isr.2	-	8	1202	c.860A>T	c.(859-861)CAC>CTC	p.H287L	AADAT_uc003iss.2_Missense_Mutation_p.H287L|AADAT_uc003ist.2_Missense_Mutation_p.H291L	NM_016228	NP_057312	Q8N5Z0	AADAT_HUMAN	kynurenine aminotransferase II	287					2-oxoglutarate metabolic process|biosynthetic process|glutamate metabolic process|lysine catabolic process	mitochondrial matrix	2-aminoadipate transaminase activity|kynurenine-oxoglutarate transaminase activity|protein homodimerization activity				0		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0355)|LUSC - Lung squamous cell carcinoma(193;0.118)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AACTTGTATGTGTAAAATAAC	0.318													66	70	---	---	---	---	PASS	A	170989782	A	A	170989782	3	1	44	1	0	0	0	0	1	0	0	0	14	1696	59	5	441	5	AADAT	4	170989782	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	1646801	170989782	20164494	297	17384										
NEIL3	55247	broad.mit.edu	37	chr4	178260984	178260984	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	catcacctcatgaaaatgatAcgtgatttcagcattctctt	5	10	4	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr4:178260984A>T	uc003iut.2	+	5	792	c.675A>T	c.(673-675)ATA>ATT	p.I225I	NEIL3_uc010irs.2_Intron	NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	225					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		TGAAAATGATACGTGATTTCA	0.358								BER_DNA_glycosylases					24	36	---	---	---	---	PASS	T	178260984	T	T	178260984	2	4	44	1	0	0	0	0	0	0	0	1	10320	381	14	5		5	NEIL3	4	178260984	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	7271202	178260984	12893292	298	17385										
IRX2	153572	broad.mit.edu	37	chr5	2748758	2748758	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggccggcgcggcggccgcgGgcagccccggtggcccgcag	20	17	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:2748758G>A	uc003jda.2	-	3	1306	c.1064C>T	c.(1063-1065)CCC>CTC	p.P355L	IRX2_uc003jdb.2_Missense_Mutation_p.P355L	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	355						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		ggcggccgcgggcagccccgg	0.498													10	5	---	---	---	---	PASS	A	2748758	A	A	2748758	3	1	44	1	0	0	0	0	1	0	0	0	7844	1232	43	3	359	3	IRX2	5	2748758	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08		2748758	178166502	299	17386										
ADCY2	108	broad.mit.edu	37	chr5	7717318	7717318	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaagaattgaatgaaaggatGattcaagcaattgatgggat	12	2	1	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:7717318G>C	uc003jdz.1	+	12	1738	c.1671G>C	c.(1669-1671)ATG>ATC	p.M557I	ADCY2_uc011cmo.1_Missense_Mutation_p.M377I	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	557	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						ATGAAAGGATGATTCAAGCAA	0.284													19	234	---	---	---	---	PASS	C	7717318	C	C	7717318	3	2	44	1	0	0	0	0	1	0	0	0	294	1290	45	2	1717	2	ADCY2	5	7717318	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4968560	7717318	173197942	300	17387										
SEMA5A	9037	broad.mit.edu	37	chr5	9227044	9227044	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtgaataaccggtcgccaccCaccagaagcacccggatgta	10	14	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:9227044C>A	uc003jek.2	-	7	1081	c.369G>T	c.(367-369)GTG>GTT	p.V123V		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	123	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						GGTCGCCACCCACCAGAAGCA	0.393													33	126	---	---	---	---	PASS	A	9227044	A	A	9227044	2	1	44	1	0	0	0	0	0	0	0	1	14037	581	21	3		3	SEMA5A	5	9227044	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1509726	9227044	171688216	301	17388										
TAS2R1	50834	broad.mit.edu	37	chr5	9629785	9629785	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gggaccagcttggatatcctCatcttcaaccagatgaagag	10	10	3	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:9629785C>A	uc003jem.1	-	1	679	c.360G>T	c.(358-360)ATG>ATT	p.M120I		NM_019599	NP_062545	Q9NYW7	TA2R1_HUMAN	taste receptor T2R1	120	Cytoplasmic (Potential).				chemosensory behavior|sensory perception of taste	integral to membrane	taste receptor activity			ovary(3)	3						TGGATATCCTCATCTTCAACC	0.453													27	64	---	---	---	---	PASS	A	9629785	A	A	9629785	3	1	44	1	0	0	0	0	1	0	0	0	15562	826	29	2	543	2	TAS2R1	5	9629785	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	402741	9629785	171285475	302	17389										
CTNND2	1501	broad.mit.edu	37	chr5	11384826	11384826	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gccgtggcatacagctcctgCgagtgcttgctgtactgctc	12	13	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:11384826C>A	uc003jfa.1	-	7	1273	c.1128G>T	c.(1126-1128)TCG>TCT	p.S376S	CTNND2_uc010itt.2_Silent_p.S285S|CTNND2_uc011cmy.1_Intron|CTNND2_uc011cmz.1_Intron|CTNND2_uc010itu.1_Intron|CTNND2_uc011cmx.1_5'UTR	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	376					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						ACAGCTCCTGCGAGTGCTTGC	0.697													14	42	---	---	---	---	PASS	A	11384826	A	A	11384826	2	1	44	1	0	0	0	0	0	0	0	1	4020	755	27	1		1	CTNND2	5	11384826	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1755041	11384826	169530434	303	17390										
DNAH5	1767	broad.mit.edu	37	chr5	13735261	13735261	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttaataagagtgagaaactCttcatgcttgactcggttcc	8	8	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:13735261C>T	uc003jfd.2	-	68	11782	c.11740G>A	c.(11740-11742)GAG>AAG	p.E3914K	DNAH5_uc003jfc.2_Missense_Mutation_p.E82K	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3914					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GTGAGAAACTCTTCATGCTTG	0.428									Kartagener_syndrome				45	163	---	---	---	---	PASS	T	13735261	T	T	13735261	3	4	44	1	0	0	0	0	1	0	0	0	4604	922	32	2	2182	2	DNAH5	5	13735261	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2350435	13735261	167179999	304	17391										
CDH18	1016	broad.mit.edu	37	chr5	19544068	19544068	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aatggtcccagtattggcatCaatgttgaaaaatctgtcgt	9	7	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:19544068C>T	uc003jgc.2	-	8	1677	c.1300G>A	c.(1300-1302)GAT>AAT	p.D434N	CDH18_uc003jgd.2_Missense_Mutation_p.D434N|CDH18_uc011cnm.1_Missense_Mutation_p.D434N	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	434	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					GTATTGGCATCAATGTTGAAA	0.348													84	58	---	---	---	---	PASS	T	19544068	T	T	19544068	3	4	44	1	0	0	0	0	1	0	0	0	3103	826	29	2	1092	2	CDH18	5	19544068	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	5808807	19544068	161371192	305	17392										
CDH12	1010	broad.mit.edu	37	chr5	21975440	21975440	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaaaacggtgccagcgccatCtcctgagagggtgtatttca	11	10	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:21975440C>G	uc010iuc.2	-	3	744	c.286G>C	c.(286-288)GAT>CAT	p.D96H	CDH12_uc011cno.1_Missense_Mutation_p.D96H|CDH12_uc003jgk.2_Missense_Mutation_p.D96H	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	96	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CCAGCGCCATCTCCTGAGAGG	0.393										HNSCC(59;0.17)			6	326	---	---	---	---	PASS	G	21975440	G	G	21975440	3	3	44	1	0	0	0	0	1	0	0	0	3098	913	32	2	2138	2	CDH12	5	21975440	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2431372	21975440	158939820	306	17393										
CDH9	1007	broad.mit.edu	37	chr5	26915837	26915837	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttaatgataaattccgattCcggttccacctgccgcccag	7	13	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:26915837C>A	uc003jgs.1	-	3	593	c.424G>T	c.(424-426)GAA>TAA	p.E142*	CDH9_uc010iug.2_Nonsense_Mutation_p.E142*	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	142	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						AATTCCGATTCCGGTTCCACC	0.398													279	247	---	---	---	---	PASS	A	26915837	A	A	26915837	4	1	44	1	0	0	0	0	0	1	0	0	3117	864	30	2	1985	2	CDH9	5	26915837	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4940397	26915837	153999423	307	17394										
ADAMTS12	81792	broad.mit.edu	37	chr5	33624408	33624408	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atctcccaggcacacaccgcAgcgatcctcggtggcattgg	11	15	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:33624408A>T	uc003jia.1	-	14	2234	c.2071T>A	c.(2071-2073)TGC>AGC	p.C691S	ADAMTS12_uc010iuq.1_Intron	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	691	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CACACACCGCAGCGATCCTCG	0.502										HNSCC(64;0.19)			61	58	---	---	---	---	PASS	T	33624408	T	T	33624408	3	4	44	1	0	0	0	0	1	0	0	0	257	188	7	5	2757	5	ADAMTS12	5	33624408	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	6708571	33624408	147290852	308	17395										
RXFP3	51289	broad.mit.edu	37	chr5	33938175	33938175	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cccacgcggccgcggagccgGacctgctctactacccacct	10	20	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:33938175G>T	uc003jic.1	+	1	1687	c.1330G>T	c.(1330-1332)GAC>TAC	p.D444Y		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	444	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						cgcggAGCCGGACCTGCTCTA	0.572													34	37	---	---	---	---	PASS	T	33938175	T	T	33938175	3	4	44	1	0	0	0	0	1	0	0	0	13761	1174	41	2	1332	2	RXFP3	5	33938175	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	313767	33938175	146977085	309	17396										
UGT3A1	133688	broad.mit.edu	37	chr5	35966004	35966004	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atttccattagctttacaagGgcttcagattcttttctgta	6	8	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:35966004G>A	uc003jjv.1	-	4	484	c.327C>T	c.(325-327)GCC>GCT	p.A109A	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Silent_p.A109A|UGT3A1_uc011cor.1_Silent_p.A75A|UGT3A1_uc003jjy.1_Silent_p.A55A	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	109	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GCTTTACAAGGGCTTCAGATT	0.274													47	56	---	---	---	---	PASS	A	35966004	A	A	35966004	2	1	44	1	0	0	0	0	0	0	0	1	16960	1219	43	3		3	UGT3A1	5	35966004	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	2027829	35966004	144949256	310	17397										
EGFLAM	133584	broad.mit.edu	37	chr5	38407204	38407204	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctacacctgggggggctcgcGatgccagtgcaccctgggca	15	14	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:38407204G>A	uc003jlc.1	+	8	1427	c.1103G>A	c.(1102-1104)CGA>CAA	p.R368Q	EGFLAM_uc003jlb.1_Missense_Mutation_p.R368Q|EGFLAM_uc003jle.1_Missense_Mutation_p.R134Q|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	368	EGF-like 1.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					GGGGGCTCGCGATGCCAGTGC	0.552													15	104	---	---	---	---	PASS	A	38407204	A	A	38407204	3	1	44	1	0	0	0	0	1	0	0	0	4966	1058	37	2	1147	2	EGFLAM	5	38407204	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2441200	38407204	142508056	311	17398										
EGFLAM	133584	broad.mit.edu	37	chr5	38458495	38458495	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcaccgagttaaggccgttAggtgagtccctcccgcagca	13	13	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:38458495A>C	uc003jlc.1	+	21	3118	c.2794A>C	c.(2794-2796)AGG>CGG	p.R932R	EGFLAM_uc003jlb.1_Silent_p.R924R|EGFLAM_uc003jle.1_Silent_p.R690R|EGFLAM_uc003jlf.1_Silent_p.R290R|EGFLAM_uc003jlg.1_Silent_p.R67R	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	932	Laminin G-like 3.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					TAAGGCCGTTAGGTGAGTCCC	0.557													35	64	---	---	---	---	PASS	C	38458495	C	C	38458495	2	2	44	1	0	0	0	0	0	0	0	1	4966	434	15	5		5	EGFLAM	5	38458495	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	51291	38458495	142456765	312	17399										
FYB	2533	broad.mit.edu	37	chr5	39110483	39110483	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgctaggtaactccgaaggaCataaccatctacgaaggaaa	9	10	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:39110483C>A	uc003jls.2	-	15	2339	c.2272G>T	c.(2272-2274)GTC>TTC	p.V758F	FYB_uc003jlt.2_Missense_Mutation_p.V804F|FYB_uc003jlu.2_Missense_Mutation_p.V758F|FYB_uc011cpl.1_Missense_Mutation_p.V814F	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	758					cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			CTCCGAAGGACATAACCATCT	0.299													25	43	---	---	---	---	PASS	A	39110483	A	A	39110483	3	1	44	1	0	0	0	0	1	0	0	0	6124	478	17	3	91	3	FYB	5	39110483	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	651988	39110483	141804777	313	17400										
PTGER4	5734	broad.mit.edu	37	chr5	40681542	40681542	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtctatgcgtccaacgtgctCttttgcgcgctgcccaacat	9	14	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:40681542C>T	uc003jlz.2	+	2	1039	c.447C>T	c.(445-447)CTC>CTT	p.L149L		NM_000958	NP_000949	P35408	PE2R4_HUMAN	prostaglandin E receptor 4, subtype EP4	149	Helical; Name=4; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|immune response	integral to membrane|plasma membrane	prostaglandin E receptor activity			lung(2)	2						CCAACGTGCTCTTTTGCGCGC	0.602											OREG0016588	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	77	165	---	---	---	---	PASS	T	40681542	T	T	40681542	2	4	44	1	0	0	0	0	0	0	0	1	12745	900	32	2		2	PTGER4	5	40681542	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1571059	40681542	140233718	314	17401										
C7	730	broad.mit.edu	37	chr5	40947703	40947703	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tactctttcttctttccacaGagttaccaactgctggttgt	6	11	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:40947703G>T	uc003jmh.2	+	8	853	c.739_splice	c.e8-1	p.S247_splice	C7_uc011cpn.1_Intron	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor						complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				TCTTTCCACAGAGTTACCAAC	0.398													23	35	---	---	---	---	PASS	T	40947703	T	T	40947703	5	4	44	1	0	0	0	0	0	0	1	0	2375	956	33	2	768	2	C7	5	40947703	Splice_Site	SNP	G	TCGA-22-5473-01A-01D-1632-08	266161	40947703	139967557	315	17402										
C6	729	broad.mit.edu	37	chr5	41181509	41181509	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgaaggcagaattatggttGatattttcacttctctttga	8	5	2	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:41181509G>T	uc003jmk.2	-	7	1089	c.879C>A	c.(877-879)ATC>ATA	p.I293I	C6_uc003jml.1_Silent_p.I293I	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	293	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				AATTATGGTTGATATTTTCAC	0.358													59	130	---	---	---	---	PASS	T	41181509	T	T	41181509	2	4	44	1	0	0	0	0	0	0	0	1	2315	1280	45	2		2	C6	5	41181509	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	233806	41181509	139733751	316	17403										
FGF10	2255	broad.mit.edu	37	chr5	44388623	44388623	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaaggagaggagaaggaggaGgaagaagagttggtggcctc	20	3	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:44388623G>T	uc003jog.1	-	1	162	c.162C>A	c.(160-162)TCC>TCA	p.S54S		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	54	Poly-Ser.				actin cytoskeleton reorganization|activation of MAPK activity|bud outgrowth involved in lung branching|ERK1 and ERK2 cascade|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|insulin receptor signaling pathway|lacrimal gland development|lung saccule development|mesonephros development|negative regulation of cell cycle arrest|positive regulation of ATPase activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of DNA repair|positive regulation of DNA replication|positive regulation of epithelial cell migration|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of ERK1 and ERK2 cascade|positive regulation of hair follicle cell proliferation|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of lymphocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of urothelial cell proliferation|protein localization at cell surface|radial glial cell differentiation|regulation of saliva secretion|response to protein stimulus|secretion by lung epithelial cell involved in lung growth|tear secretion|thymus development|urothelial cell proliferation	cell surface|extracellular space|nucleus|plasma membrane	chemoattractant activity|growth factor activity|heparin binding|type 2 fibroblast growth factor receptor binding			lung(3)	3	Lung NSC(6;1.12e-06)					AGAAGGAGGAGGAAGAAGAGT	0.542													43	45	---	---	---	---	PASS	T	44388623	T	T	44388623	2	4	44	1	0	0	0	0	0	0	0	1	5839	987	35	3		3	FGF10	5	44388623	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	3207114	44388623	136526637	317	17404										
CCNO	10309	broad.mit.edu	37	chr5	54528254	54528254	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcagtctgcagccaccggcgTggtggtgaggaagcggtcca	17	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:54528254T>A	uc003jpw.2	-	2	659	c.502A>T	c.(502-504)ACG>TCG	p.T168S	CCNO_uc003jpv.2_RNA	NM_021147	NP_066970	P22674	CCNO_HUMAN	cyclin domain containing	168					cell cycle|cell division|depyrimidination|regulation of cyclin-dependent protein kinase activity	nucleoplasm	protein kinase binding|uracil DNA N-glycosylase activity				0		Lung NSC(810;4.08e-05)|Breast(144;0.0735)|Prostate(74;0.183)	LUSC - Lung squamous cell carcinoma(15;0.142)|Lung(15;0.161)			GCCACCGGCGTGGTGGTGAGG	0.602													37	29	---	---	---	---	PASS	A	54528254	A	A	54528254	3	1	44	1	0	0	0	0	1	0	0	0	2933	1696	59	5	558	5	CCNO	5	54528254	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	10139631	54528254	126387006	318	17405										
ERCC8	1161	broad.mit.edu	37	chr5	60195503	60195503	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttatgttgatcaagagtaatCaaacatcctgatgctcttct	6	8	4	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:60195503C>G	uc003jsm.3	-	8	739	c.669G>C	c.(667-669)TTG>TTC	p.L223F	ERCC8_uc003jsk.2_RNA|ERCC8_uc003jsl.3_Missense_Mutation_p.L165F|ERCC8_uc011cqp.1_Missense_Mutation_p.L70F	NM_000082	NP_000073	Q13216	ERCC8_HUMAN	excision repair cross-complementing rodent	223					positive regulation of DNA repair|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein polyubiquitination|response to oxidative stress|response to UV|response to UV|transcription-coupled nucleotide-excision repair	Cul4A-RING ubiquitin ligase complex|nuclear matrix|nucleoplasm|nucleotide-excision repair complex|soluble fraction	protein binding|protein complex binding				0		Lung NSC(810;1.51e-06)|Prostate(74;0.0322)|Ovarian(174;0.0481)|Breast(144;0.077)				CAAGAGTAATCAAACATCCTG	0.328								Direct_reversal_of_damage|NER					29	126	---	---	---	---	PASS	G	60195503	G	G	60195503	3	3	44	1	0	0	0	0	1	0	0	0	5219	825	29	2	541	2	ERCC8	5	60195503	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	5667249	60195503	120719757	319	17406										
HTR1A	3350	broad.mit.edu	37	chr5	63257310	63257310	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gacaccatgaggtcggtgacCgccaaagagccaataagata	11	10	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:63257310C>T	uc011cqt.1	-	1	237	c.237G>A	c.(235-237)GCG>GCA	p.A79A		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	79	Helical; Name=2; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	GGTCGGTGACCGCCAAAGAGC	0.597													3	25	---	---	---	---	PASS	T	63257310	T	T	63257310	2	4	44	1	0	0	0	0	0	0	0	1	7436	639	23	1		1	HTR1A	5	63257310	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	3061807	63257310	117657950	320	17407										
ANKRA2	57763	broad.mit.edu	37	chr5	72850214	72850214	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agcagaggtgttcctccattCtgcaaaatgaaaaggtgatt	10	7	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:72850214C>T	uc003kcu.1	-	7	1385	c.739_splice	c.e7-1	p.N247_splice		NM_023039	NP_075526	Q9H9E1	ANRA2_HUMAN	ankyrin repeat, family A (RFXANK-like), 2							cytoskeleton|cytosol|membrane	low-density lipoprotein particle binding				0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)		OV - Ovarian serous cystadenocarcinoma(47;3.71e-54)		TTCCTCCATTCTGCAAAATGA	0.343													6	60	---	---	---	---	PASS	T	72850214	T	T	72850214	5	4	44	1	0	0	0	0	0	0	1	0	636	927	32	2	215	2	ANKRA2	5	72850214	Splice_Site	SNP	C	TCGA-22-5473-01A-01D-1632-08	9592904	72850214	108065046	321	17408										
AP3B1	8546	broad.mit.edu	37	chr5	77334916	77334916	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctataggaagttttttttcCcctatgtggatattttctat	6	7	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:77334916C>T	uc003kfj.2	-	23	2885	c.2760G>A	c.(2758-2760)GGG>GGA	p.G920G		NM_003664	NP_003655	O00203	AP3B1_HUMAN	adaptor-related protein complex 3, beta 1	920					endocytosis|melanosome organization	clathrin coated vesicle membrane|Golgi apparatus|membrane coat	protein phosphatase binding|protein transporter activity			central_nervous_system(1)	1		all_lung(232;0.000397)|Lung NSC(167;0.00106)|Ovarian(174;0.0105)|Prostate(461;0.215)		OV - Ovarian serous cystadenocarcinoma(54;8.23e-47)|Epithelial(54;2.74e-41)|all cancers(79;4.8e-36)		GTTTTTTTTCCCCTATGTGGA	0.294									Hermansky-Pudlak_syndrome				35	32	---	---	---	---	PASS	T	77334916	T	T	77334916	2	4	44	1	0	0	0	0	0	0	0	1	744	610	22	3		3	AP3B1	5	77334916	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	4484702	77334916	103580344	322	17409										
GPR98	84059	broad.mit.edu	37	chr5	90459686	90459686	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctcccagatcgtggagctcaGgaggatacccatcgccgaca	11	14	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:90459686G>T	uc003kju.2	+	90	18986	c.18890G>T	c.(18889-18891)AGG>ATG	p.R6297M	GPR98_uc003kjt.2_Missense_Mutation_p.R4003M|GPR98_uc003kjw.2_Missense_Mutation_p.R1958M|GPR98_uc003kjx.2_Missense_Mutation_p.R325M	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	6297	Cytoplasmic (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GTGGAGCTCAGGAGGATACCC	0.502													9	10	---	---	---	---	PASS	T	90459686	T	T	90459686	3	4	44	1	0	0	0	0	1	0	0	0	6721	1000	35	3	19248	3	GPR98	5	90459686	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	13124770	90459686	90455574	323	17410										
SLCO4C1	353189	broad.mit.edu	37	chr5	101597671	101597671	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attaaagaccaagcaaagatCcatgatagaagaaacccaat	6	8	0	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:101597671C>G	uc003knm.2	-	5	1253	c.966G>C	c.(964-966)TGG>TGC	p.W322C		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	322	Helical; Name=6; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		AAGCAAAGATCCATGATAGAA	0.363													15	53	---	---	---	---	PASS	G	101597671	G	G	101597671	3	3	44	1	0	0	0	0	1	0	0	0	14730	856	30	2	1244	2	SLCO4C1	5	101597671	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	11137985	101597671	79317589	324	17411										
PDLIM4	8572	broad.mit.edu	37	chr5	131607158	131607158	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgctagaggccggcgagggCggtaagacgcctgccacctg	16	12	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:131607158C>T	uc003kwn.2	+	5	746	c.669C>T	c.(667-669)GGC>GGT	p.G223G	uc003kwm.3_Intron|PDLIM4_uc003kwp.2_Silent_p.G223G|PDLIM4_uc003kwo.2_Silent_p.G223G	NM_003687	NP_003678	P50479	PDLI4_HUMAN	PDZ and LIM domain 4 isoform 1	223							protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CCGGCGAGGGCGGTAAGACGC	0.692													24	18	---	---	---	---	PASS	T	131607158	T	T	131607158	2	4	44	1	0	0	0	0	0	0	0	1	11682	782	27	1		1	PDLIM4	5	131607158	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	30009487	131607158	49308102	325	17412										
SLC23A1	9963	broad.mit.edu	37	chr5	138717664	138717664	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agctgactaaccatgtgctgGtcgtggcccacacacagcgc	11	14	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:138717664G>T	uc003leh.2	-	3	322	c.225C>A	c.(223-225)GAC>GAA	p.D75E	SLC23A1_uc003leg.2_Missense_Mutation_p.D75E	NM_005847	NP_005838	Q9UHI7	S23A1_HUMAN	solute carrier family 23 (nucleobase	75				DQHMVS -> SQTLHC (in Ref. 1; AAC78804).	brain development|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|response to toxin|transepithelial L-ascorbic acid transport|water-soluble vitamin metabolic process	apical plasma membrane|cytoplasm|integral to plasma membrane|intracellular organelle|membrane fraction	dehydroascorbic acid transporter activity|L-ascorbate:sodium symporter activity|nucleobase transmembrane transporter activity|protein binding|sodium-dependent L-ascorbate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)		Vitamin C(DB00126)	CCATGTGCTGGTCGTGGCCCA	0.632													8	4	---	---	---	---	PASS	T	138717664	T	T	138717664	3	4	44	1	0	0	0	0	1	0	0	0	14462	1252	44	3	1631	3	SLC23A1	5	138717664	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	7110506	138717664	42197596	326	17413										
HBEGF	1839	broad.mit.edu	37	chr5	139722236	139722236	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttacatgcaggagggagcccGgagctccttcacatatttgc	11	11	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:139722236G>A	uc003lfi.2	-	3	657	c.382C>T	c.(382-384)CGG>TGG	p.R128W	HBEGF_uc010jfj.2_RNA	NM_001945	NP_001936	Q99075	HBEGF_HUMAN	heparin-binding EGF-like growth factor	128	Extracellular (Potential).|EGF-like.				epidermal growth factor receptor signaling pathway|muscle organ development|positive regulation of protein kinase B signaling cascade|positive regulation of wound healing	cell surface|extracellular space|integral to plasma membrane	epidermal growth factor receptor binding|eukaryotic cell surface binding|growth factor activity|heparin binding|receptor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGGGAGCCCGGAGCTCCTTC	0.517													153	113	---	---	---	---	PASS	A	139722236	A	A	139722236	3	1	44	1	0	0	0	0	1	0	0	0	6981	1115	39	1	256	1	HBEGF	5	139722236	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1004572	139722236	41193024	327	17414										
HARS	3035	broad.mit.edu	37	chr5	140056274	140056274	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cacgatggagaaaatccgctCcaccccaatgctgagcccca	8	16	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:140056274C>G	uc003lgv.2	-	10	1241	c.1159G>C	c.(1159-1161)GAG>CAG	p.E387Q	HARS_uc003lgu.2_Missense_Mutation_p.E318Q|HARS_uc011czm.1_Missense_Mutation_p.E347Q|HARS_uc003lgw.2_Missense_Mutation_p.E367Q|HARS_uc011czn.1_Missense_Mutation_p.E327Q|HARS_uc010jfu.2_Missense_Mutation_p.E387Q|HARS_uc011czo.1_Missense_Mutation_p.E313Q|HARS_uc011czp.1_Missense_Mutation_p.E273Q|HARS_uc011czq.1_Missense_Mutation_p.E277Q	NM_002109	NP_002100	P12081	SYHC_HUMAN	histidyl-tRNA synthetase	387					histidyl-tRNA aminoacylation	cytosol	ATP binding|histidine-tRNA ligase activity			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		L-Histidine(DB00117)	AAAATCCGCTCCACCCCAATG	0.562													11	221	---	---	---	---	PASS	G	140056274	G	G	140056274	3	3	44	1	0	0	0	0	1	0	0	0	6959	864	30	2	386	2	HARS	5	140056274	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	334038	140056274	40858986	328	17415										
PCDHB5	26167	broad.mit.edu	37	chr5	140516142	140516142	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttctgatccagactccgggGacaacggtaggatgatttgc	12	9	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:140516142G>A	uc003liq.2	+	1	1343	c.1126G>A	c.(1126-1128)GAC>AAC	p.D376N		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	376	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGACTCCGGGGACAACGGTAG	0.493													57	36	---	---	---	---	PASS	A	140516142	A	A	140516142	3	1	44	1	0	0	0	0	1	0	0	0	11545	1174	41	2	1128	2	PCDHB5	5	140516142	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	459868	140516142	40399118	329	17416										
PCDHB12	56124	broad.mit.edu	37	chr5	140590553	140590553	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgctcactgtctacctggtgGtggcgttggcctcagtgtcg	14	12	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:140590553G>C	uc003liz.2	+	1	2263	c.2074G>C	c.(2074-2076)GTG>CTG	p.V692L	PCDHB12_uc011dak.1_Missense_Mutation_p.V355L|PCDHB13_uc003lja.1_5'Flank	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	692	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTACCTGGTGGTGGCGTTGGC	0.706													135	103	---	---	---	---	PASS	C	140590553	C	C	140590553	3	2	44	1	0	0	0	0	1	0	0	0	11537	1261	44	4	2076	4	PCDHB12	5	140590553	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	74411	140590553	40324707	330	17417										
PCDHGA2	56113	broad.mit.edu	37	chr5	140720617	140720617	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcggacctcactctgtacctGgtggtggcggtggccgcggt	16	12	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:140720617G>T	uc003ljk.1	+	1	2264	c.2079G>T	c.(2077-2079)CTG>CTT	p.L693L	PCDHGA1_uc003lji.1_Intron|PCDHGA3_uc003ljm.1_5'Flank|PCDHGA3_uc010jfx.1_5'Flank|PCDHGA2_uc011dao.1_Silent_p.L693L|PCDHGA3_uc011dap.1_5'Flank	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	693	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCTGTACCTGGTGGTGGCGG	0.677													83	85	---	---	---	---	PASS	T	140720617	T	T	140720617	2	4	44	1	0	0	0	0	0	0	0	1	11554	1335	47	3		3	PCDHGA2	5	140720617	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	130064	140720617	40194643	331	17418										
PCDHGA3	56112	broad.mit.edu	37	chr5	140724255	140724255	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggttgcctctgatggtggcGaccctgtccactctggcaac	12	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:140724255G>C	uc003ljm.1	+	1	655	c.655G>C	c.(655-657)GAC>CAC	p.D219H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Missense_Mutation_p.D219H	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	219	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGATGGTGGCGACCCTGTCCA	0.537													41	26	---	---	---	---	PASS	C	140724255	C	C	140724255	3	2	44	1	0	0	0	0	1	0	0	0	11555	1058	37	2	657	2	PCDHGA3	5	140724255	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3638	140724255	40191005	332	17419										
PCDHGA4	56111	broad.mit.edu	37	chr5	140735547	140735547	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacgttcctgtaggcactcgGctactcaccgtaaaagccac	8	14	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:140735547G>T	uc003ljq.1	+	1	780	c.780G>T	c.(778-780)CGG>CGT	p.R260R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Silent_p.R260R	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	260	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGGCACTCGGCTACTCACCG	0.463													19	14	---	---	---	---	PASS	T	140735547	T	T	140735547	2	4	44	1	0	0	0	0	0	0	0	1	11556	1190	42	3		3	PCDHGA4	5	140735547	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	11292	140735547	40179713	333	17420										
FAT2	2196	broad.mit.edu	37	chr5	150928976	150928976	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acttgcctcataatggagctGagtgaagcggggtgggtgga	17	6	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:150928976G>C	uc003lue.3	-	8	4682	c.4669C>G	c.(4669-4671)CAG>GAG	p.Q1557E	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1557	Extracellular (Potential).|Cadherin 14.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TAATGGAGCTGAGTGAAGCGG	0.572													31	23	---	---	---	---	PASS	C	150928976	C	C	150928976	3	2	44	1	0	0	0	0	1	0	0	0	5690	1299	45	2	8444	2	FAT2	5	150928976	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	10193429	150928976	29986284	334	17421										
GEMIN5	25929	broad.mit.edu	37	chr5	154311721	154311721	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcaggggacaccaggctatgGagtggatttcatcatcatgg	14	8	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:154311721G>C	uc003lvx.3	-	4	682	c.599C>G	c.(598-600)TCC>TGC	p.S200C	GEMIN5_uc011ddk.1_Missense_Mutation_p.S200C	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	200	WD 4.				ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CCAGGCTATGGAGTGGATTTC	0.408													48	136	---	---	---	---	PASS	C	154311721	C	C	154311721	3	2	44	1	0	0	0	0	1	0	0	0	6331	1174	41	2	4027	2	GEMIN5	5	154311721	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3382745	154311721	26603539	335	17422										
SGCD	6444	broad.mit.edu	37	chr5	156021941	156021941	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctatctctctatatctctcaGgtccaaaagccgtagaagct	6	12	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:156021941G>T	uc003lwd.3	+	5	856	c.380_splice	c.e5-1	p.G127_splice	SGCD_uc003lwa.1_Splice_Site_p.G128_splice|SGCD_uc003lwb.2_Splice_Site_p.G128_splice|SGCD_uc003lwc.3_Splice_Site_p.G128_splice	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3						cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			atatctctcAGGTCCAAAAGC	0.269													14	6	---	---	---	---	PASS	T	156021941	T	T	156021941	5	4	44	1	0	0	0	0	0	0	1	0	14201	1014	35	3	400	3	SGCD	5	156021941	Splice_Site	SNP	G	TCGA-22-5473-01A-01D-1632-08	1710220	156021941	24893319	336	17423										
PANK3	79646	broad.mit.edu	37	chr5	167991022	167991022	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agagcctcttcaaaactttcAcagccagtcaataaactgca	5	12	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:167991022A>G	uc003lzz.1	-	4	984	c.684T>C	c.(682-684)TGT>TGC	p.C228C		NM_024594	NP_078870	Q9H999	PANK3_HUMAN	pantothenate kinase 3	228					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)		CAAAACTTTCACAGCCAGTCA	0.383													78	190	---	---	---	---	PASS	G	167991022	G	G	167991022	2	3	44	1	0	0	0	0	0	0	0	1	11418	157	6	5		5	PANK3	5	167991022	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	11969081	167991022	12924238	337	17424										
PDLIM7	9260	broad.mit.edu	37	chr5	176911113	176911113	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctcctccatgtagaaggcccTgttccggatgggcgtcttgc	12	13	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:176911113T>G	uc003mhc.1	-	11	1214	c.1129A>C	c.(1129-1131)AGG>CGG	p.R377R	PDLIM7_uc003mha.1_Silent_p.R271R|PDLIM7_uc003mhb.1_Silent_p.R343R|PDLIM7_uc003mhd.1_Silent_p.R229R|PDLIM7_uc003mhe.1_RNA	NM_005451	NP_005442	Q9NR12	PDLI7_HUMAN	PDZ and LIM domain 7 isoform 1	377	LIM zinc-binding 2.				cell differentiation|multicellular organismal development|ossification|receptor-mediated endocytosis	cytoplasm|focal adhesion	protein binding|zinc ion binding			breast(1)	1	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TAGAAGGCCCTGTTCCGGATG	0.607													71	47	---	---	---	---	PASS	G	176911113	G	G	176911113	2	3	44	1	0	0	0	0	0	0	0	1	11684	1579	55	5		5	PDLIM7	5	176911113	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	8920091	176911113	4004147	338	17425										
DOK3	79930	broad.mit.edu	37	chr5	176931332	176931332	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcacgcttgcacactgaagcGtagagcccggacgccagatc	12	14	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr5:176931332G>A	uc003mhk.2	-	6	1148	c.1143C>T	c.(1141-1143)TAC>TAT	p.Y381Y	DOK3_uc003mhh.3_Intron|DOK3_uc003mhi.3_Intron|DOK3_uc003mhj.3_Intron|DOK3_uc003mhl.2_Silent_p.Y325Y	NM_024872	NP_079148	Q7L591	DOK3_HUMAN	docking protein 3 isoform 1	381						cytoplasm|plasma membrane	insulin receptor binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	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)|Epithelial(233;0.191)			ACACTGAAGCGTAGAGCCCGG	0.662													12	8	---	---	---	---	PASS	A	176931332	A	A	176931332	2	1	44	1	0	0	0	0	0	0	0	1	4698	1140	40	1		1	DOK3	5	176931332	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	20219	176931332	3983928	339	17426										
GCM2	9247	broad.mit.edu	37	chr6	10874708	10874708	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atggcctgaaactgcccatgGttagtcctttccacaaggct	9	12	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:10874708G>A	uc003mzn.3	-	5	1113	c.1041C>T	c.(1039-1041)AAC>AAT	p.N347N	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	347					cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				ACTGCCCATGGTTAGTCCTTT	0.512													111	59	---	---	---	---	PASS	A	10874708	A	A	10874708	2	1	44	1	0	0	0	0	0	0	0	1	6298	1252	44	3		3	GCM2	6	10874708	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08		10874708	160240359	340	17427										
SYCP2L	221711	broad.mit.edu	37	chr6	10924825	10924825	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaaatccattttgatttgcAgttcaacatatcacaagttt	5	7	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:10924825A>T	uc003mzo.2	+	15	1465	c.1169A>T	c.(1168-1170)CAG>CTG	p.Q390L	SYCP2L_uc011din.1_Missense_Mutation_p.Q231L|SYCP2L_uc010jow.2_Missense_Mutation_p.Q10L	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	390						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			TTTGATTTGCAGTTCAACATA	0.214													24	16	---	---	---	---	PASS	T	10924825	T	T	10924825	3	4	44	1	0	0	0	0	1	0	0	0	15430	188	7	5	1227	5	SYCP2L	6	10924825	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	50117	10924825	160190242	341	17428										
NRSN1	140767	broad.mit.edu	37	chr6	24145857	24145857	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttcttgtgccccccaaaatcGaagcatttggcgaagccgat	9	12	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:24145857G>A	uc010jpq.1	+	4	508	c.271G>A	c.(271-273)GAA>AAA	p.E91K		NM_080723	NP_542454	Q8IZ57	NRSN1_HUMAN	neurensin 1	91					nervous system development	growth cone|integral to membrane|neuronal cell body|transport vesicle					0						CCCCAAAATCGAAGCATTTGG	0.488													25	92	---	---	---	---	PASS	A	24145857	A	A	24145857	3	1	44	1	0	0	0	0	1	0	0	0	10662	1059	37	2	277	2	NRSN1	6	24145857	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	13221032	24145857	146969210	342	17429										
ZNF391	346157	broad.mit.edu	37	chr6	27368701	27368701	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acacatcttagtctacatcaGagaatccatactggagaaaa	6	9	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:27368701G>C	uc003njf.1	+	3	1070	c.552G>C	c.(550-552)CAG>CAC	p.Q184H		NM_001076781	NP_001070249	Q9UJN7	ZN391_HUMAN	zinc finger protein 391	184	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(2)|skin(1)	3						GTCTACATCAGAGAATCCATA	0.403													23	61	---	---	---	---	PASS	C	27368701	C	C	27368701	3	2	44	1	0	0	0	0	1	0	0	0	17876	933	33	2	554	2	ZNF391	6	27368701	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3222844	27368701	143746366	343	17430										
TRIM15	89870	broad.mit.edu	37	chr6	30131694	30131694	+	Missense_Mutation	SNP	T	C	C													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccctgtgcccctgggcccgcTgggagaaacttactgcgagg							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:30131694T>C	uc010jrx.2	+	1	712	c.233T>C	c.(232-234)CTG>CCG	p.L78P	TRIM10_uc003npn.2_5'Flank|TRIM10_uc003npo.3_5'Flank	NM_033229	NP_150232	Q9C019	TRI15_HUMAN	tripartite motif protein 15	78	B box-type.				mesodermal cell fate determination	intracellular	zinc ion binding				0						CTGGGCCCGCTGGGAGAAACT	0.627													26	26	---	---	---	---	PASS	C	30131694	C	C	30131694	3	2	44	1	0	0	0	0	1	0	0	0	16487	1580	55	5	235	5	TRIM15	6	30131694	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	2762993	30131694	140983373	344	17431	404	2								
TRIM15	89870	broad.mit.edu	37	chr6	30131695	30131695	+	Silent	SNP	G	T	T													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctgtgcccctgggcccgctGggagaaacttactgcgagga							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:30131695G>T	uc010jrx.2	+	1	713	c.234G>T	c.(232-234)CTG>CTT	p.L78L	TRIM10_uc003npn.2_5'Flank|TRIM10_uc003npo.3_5'Flank	NM_033229	NP_150232	Q9C019	TRI15_HUMAN	tripartite motif protein 15	78	B box-type.				mesodermal cell fate determination	intracellular	zinc ion binding				0						TGGGCCCGCTGGGAGAAACTT	0.627													26	26	---	---	---	---	PASS	T	30131695	T	T	30131695	2	4	44	1	0	0	0	0	0	0	0	1	16487	1335	47	3		3	TRIM15	6	30131695	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1	30131695	140983372	345	17432	404	2								
MDC1	9656	broad.mit.edu	37	chr6	30671759	30671759	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcttatggtcaatgggagctGcgagggagccagggttccca	16	9	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:30671759G>A	uc003nrg.3	-	10	5641	c.5201C>T	c.(5200-5202)GCA>GTA	p.A1734V	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Missense_Mutation_p.A1341V	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1734	Required for nuclear localization (NLS2).			A -> T (in Ref. 4; BAE78617).	cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						AATGGGAGCTGCGAGGGAGCC	0.552								Other_conserved_DNA_damage_response_genes					18	73	---	---	---	---	PASS	A	30671759	A	A	30671759	3	1	44	1	0	0	0	0	1	0	0	0	9403	1319	46	3	1092	3	MDC1	6	30671759	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	540064	30671759	140443308	346	17433										
LHFPL5	222662	broad.mit.edu	37	chr6	35782501	35782501	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atcctctccttcctggccttCgtgttgggctaccggcagga	11	14	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:35782501C>T	uc003olg.1	+	2	968	c.591C>T	c.(589-591)TTC>TTT	p.F197F		NM_182548	NP_872354	Q8TAF8	TMHS_HUMAN	lipoma HMGIC fusion partner-like 5	197	Helical; (Potential).					integral to membrane				skin(1)	1						TCCTGGCCTTCGTGTTGGGCT	0.612													32	14	---	---	---	---	PASS	T	35782501	T	T	35782501	2	4	44	1	0	0	0	0	0	0	0	1	8768	883	31	2		2	LHFPL5	6	35782501	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	5110742	35782501	135332566	347	17434										
TBC1D22B	55633	broad.mit.edu	37	chr6	37259053	37259053	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctatttatttgggccatccGccaccctgccagtgggtatg	10	12	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:37259053G>T	uc003onn.2	+	8	1048	c.902G>T	c.(901-903)CGC>CTC	p.R301L	TBC1D22B_uc010jwt.2_RNA	NM_017772	NP_060242	Q9NU19	TB22B_HUMAN	TBC1 domain family, member 22B	301	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0			OV - Ovarian serous cystadenocarcinoma(102;0.241)			TGGGCCATCCGCCACCCTGCC	0.443													48	31	---	---	---	---	PASS	T	37259053	T	T	37259053	3	4	44	1	0	0	0	0	1	0	0	0	15609	1087	38	1	932	1	TBC1D22B	6	37259053	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1476552	37259053	133856014	348	17435										
CUL9	23113	broad.mit.edu	37	chr6	43155792	43155792	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcacagagtgattctcagctGtttaaccagcttctggtgac	10	10	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:43155792G>T	uc003ouk.2	+	7	1998	c.1923G>T	c.(1921-1923)CTG>CTT	p.L641L	CUL9_uc003ouj.1_Silent_p.L531L|CUL9_uc003oul.2_Silent_p.L641L|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_Silent_p.L99L	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	641					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						ATTCTCAGCTGTTTAACCAGC	0.567													35	18	---	---	---	---	PASS	T	43155792	T	T	43155792	2	4	44	1	0	0	0	0	0	0	0	1	4061	1364	48	3		3	CUL9	6	43155792	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	5896739	43155792	127959275	349	17436										
SPATS1	221409	broad.mit.edu	37	chr6	44337825	44337825	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aatttgatacatttattccaCttgagcctcttccacaaatt	3	10	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:44337825C>G	uc003oxk.2	+	6	1080	c.733C>G	c.(733-735)CTT>GTT	p.L245V	SPATS1_uc003oxg.2_RNA|SPATS1_uc010jzb.2_Missense_Mutation_p.L130V	NM_145026	NP_659463	Q496A3	SPAS1_HUMAN	spermatogenesis associated, serine-rich 1	245										skin(1)	1	all_lung(25;0.00469)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			ATTTATTCCACTTGAGCCTCT	0.328													79	56	---	---	---	---	PASS	G	44337825	G	G	44337825	3	3	44	1	0	0	0	0	1	0	0	0	15017	565	20	4	755	4	SPATS1	6	44337825	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1182033	44337825	126777242	350	17437										
RHAG	6005	broad.mit.edu	37	chr6	49582403	49582403	+	Silent	SNP	G	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctaaggcggcacttaccatGttgagcttgcctcggtgctc							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:49582403G>A	uc003ozk.3	-	5	866	c.804C>T	c.(802-804)AAC>AAT	p.N268N	RHAG_uc010jzl.2_Silent_p.N268N|RHAG_uc010jzm.2_Silent_p.N268N	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein	268	Cytoplasmic (Potential).				carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					CACTTACCATGTTGAGCTTGC	0.498													61	57	---	---	---	---	PASS	A	49582403	A	A	49582403	2	1	44	1	0	0	0	0	0	0	0	1	13315	1368	48	3		3	RHAG	6	49582403	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	5244578	49582403	121532664	351	17438	405	2								
RHAG	6005	broad.mit.edu	37	chr6	49582408	49582408	+	Missense_Mutation	SNP	G	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcggcacttaccatgttgaGcttgcctcggtgctccacta							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:49582408G>A	uc003ozk.3	-	5	861	c.799C>T	c.(799-801)CTC>TTC	p.L267F	RHAG_uc010jzl.2_Missense_Mutation_p.L267F|RHAG_uc010jzm.2_Missense_Mutation_p.L267F	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein	267	Cytoplasmic (Potential).				carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					ACCATGTTGAGCTTGCCTCGG	0.493													62	57	---	---	---	---	PASS	A	49582408	A	A	49582408	3	1	44	1	0	0	0	0	1	0	0	0	13315	971	34	3	454	3	RHAG	6	49582408	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5	49582408	121532659	352	17439	405	2								
PKHD1	5314	broad.mit.edu	37	chr6	51484067	51484067	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagcagcagctgattttggcCtgccagctggtatctgagca	12	11	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:51484067C>G	uc003pah.1	-	67	12313	c.12037G>C	c.(12037-12039)GGC>CGC	p.G4013R		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	4013	Cytoplasmic (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TGATTTTGGCCTGCCAGCTGG	0.572													41	30	---	---	---	---	PASS	G	51484067	G	G	51484067	3	3	44	1	0	0	0	0	1	0	0	0	11971	681	24	4	191	4	PKHD1	6	51484067	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1901659	51484067	119631000	353	17440										
PRIM2	5558	broad.mit.edu	37	chr6	57398140	57398140	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttttcttgtagctttctacCaaatccttcccactttacat	2	12	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:57398140C>A	uc003pdx.2	+	10	930	c.843C>A	c.(841-843)ACC>ACA	p.T281T		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	281					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		AGCTTTCTACCAAATCCTTCC	0.373													51	119	---	---	---	---	PASS	A	57398140	A	A	57398140	2	1	44	1	0	0	0	0	0	0	0	1	12491	581	21	3		3	PRIM2	6	57398140	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	5914073	57398140	113716927	354	17441										
EYS	346007	broad.mit.edu	37	chr6	66044902	66044902	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttaatttcatctttacaaacAgcttcatgttgacactcatt	3	9	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:66044902A>T	uc011dxu.1	-	11	2275	c.1737T>A	c.(1735-1737)GCT>GCA	p.A579A	EYS_uc003peq.2_Silent_p.A579A|EYS_uc003per.1_Silent_p.A579A	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	579	EGF-like 6.				response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						CTTTACAAACAGCTTCATGTT	0.323													20	99	---	---	---	---	PASS	T	66044902	T	T	66044902	2	4	44	1	0	0	0	0	0	0	0	1	5332	175	7	5		5	EYS	6	66044902	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	8646762	66044902	105070165	355	17442										
EYS	346007	broad.mit.edu	37	chr6	66204874	66204874	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgtgataaaataatgtgtccCaacactcagccacttagaat	6	9	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:66204874C>A	uc011dxu.1	-	4	968	c.430G>T	c.(430-432)GGG>TGG	p.G144W	EYS_uc003peq.2_Missense_Mutation_p.G144W|EYS_uc003per.1_Missense_Mutation_p.G144W|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	144					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						TAATGTGTCCCAACACTCAGC	0.433													43	49	---	---	---	---	PASS	A	66204874	A	A	66204874	3	1	44	1	0	0	0	0	1	0	0	0	5332	594	21	3	9126	3	EYS	6	66204874	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	159972	66204874	104910193	356	17443										
COL19A1	1310	broad.mit.edu	37	chr6	70610181	70610181	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gacgtgcattttgtgaaagtGataaaacctgtttcaaattg	9	5	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:70610181G>A	uc003pfc.1	+	4	334	c.217G>A	c.(217-219)GAT>AAT	p.D73N		NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	73	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TTGTGAAAGTGATAAAACCTG	0.259													39	37	---	---	---	---	PASS	A	70610181	A	A	70610181	3	1	44	1	0	0	0	0	1	0	0	0	3676	1290	45	2	227	2	COL19A1	6	70610181	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4405307	70610181	100504886	357	17444										
COL9A1	1297	broad.mit.edu	37	chr6	70983776	70983776	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tccacgcgatccaggcacacCaggttctccctaaaaataaa	6	14	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:70983776C>T	uc003pfg.3	-	12	1198	c.1039G>A	c.(1039-1041)GGT>AGT	p.G347S	COL9A1_uc003pfe.3_5'UTR|COL9A1_uc003pff.3_Missense_Mutation_p.G104S	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	347	Triple-helical region (COL3).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						CCAGGCACACCAGGTTCTCCC	0.313													22	35	---	---	---	---	PASS	T	70983776	T	T	70983776	3	4	44	1	0	0	0	0	1	0	0	0	3707	594	21	3	1834	3	COL9A1	6	70983776	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	373595	70983776	100131291	358	17445										
RIMS1	22999	broad.mit.edu	37	chr6	72806703	72806703	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaacaagtgagaaaaataggGgaagaagcgcggcgttacca	14	6	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:72806703G>A	uc003pga.2	+	3	374	c.297G>A	c.(295-297)GGG>GGA	p.G99G		NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	99	RabBD.				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)				GAAAAATAGGGGAAGAAGCGC	0.438													6	26	---	---	---	---	PASS	A	72806703	A	A	72806703	2	1	44	1	0	0	0	0	0	0	0	1	13367	1219	43	3		3	RIMS1	6	72806703	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1822927	72806703	98308364	359	17446										
RIMS1	22999	broad.mit.edu	37	chr6	73102502	73102502	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggccgccaaacccttgccacCcctgcaatgggtaagaatca	9	15	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:73102502C>A	uc003pga.2	+	31	4685	c.4608C>A	c.(4606-4608)ACC>ACA	p.T1536T	RIMS1_uc011dyb.1_Silent_p.T933T|RIMS1_uc003pgc.2_Silent_p.T985T|RIMS1_uc010kaq.2_Silent_p.T856T|RIMS1_uc011dyc.1_Silent_p.T661T|RIMS1_uc010kar.2_Silent_p.T604T|RIMS1_uc011dyd.1_Silent_p.T670T|RIMS1_uc003pgf.2_Silent_p.T536T|RIMS1_uc003pgg.2_Silent_p.T432T|RIMS1_uc003pgi.2_Silent_p.T352T|RIMS1_uc003pgh.2_Silent_p.T403T|RIMS1_uc003pgd.2_Silent_p.T602T|RIMS1_uc003pge.2_Silent_p.T576T|RIMS1_uc011dye.1_Silent_p.T342T|RIMS1_uc011dyf.1_Silent_p.T160T|RIMS1_uc011dyg.1_Silent_p.T63T	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1536					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)				CCCTTGCCACCCCTGCAATGG	0.383													47	67	---	---	---	---	PASS	A	73102502	A	A	73102502	2	1	44	1	0	0	0	0	0	0	0	1	13367	610	22	3		3	RIMS1	6	73102502	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	295799	73102502	98012565	360	17447										
OOEP	441161	broad.mit.edu	37	chr6	74079480	74079480	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgggccggagtctgtttgccCcgctgggactcagcggcacc	15	14	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:74079480C>A	uc003pgu.3	-	1	36	c.36G>T	c.(34-36)CGG>CGT	p.R12R	OOEP_uc003pgv.3_Intron	NM_001080507	NP_001073976	A6NGQ2	OOEP_HUMAN	oocyte expressed protein homolog	12						cytoplasm					0						TCTGTTTGCCCCGCTGGGACT	0.657													24	118	---	---	---	---	PASS	A	74079480	A	A	74079480	2	1	44	1	0	0	0	0	0	0	0	1	10870	610	22	3		3	OOEP	6	74079480	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	976978	74079480	97035587	361	17448										
FILIP1	27145	broad.mit.edu	37	chr6	76022205	76022205	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	accaggccgtgaggagaggtGattcctgggagagcgaagga	18	7	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:76022205G>A	uc003pia.2	-	5	3716	c.3343C>T	c.(3343-3345)CAC>TAC	p.H1115Y	FILIP1_uc003phy.1_Missense_Mutation_p.H1115Y|FILIP1_uc003phz.2_Missense_Mutation_p.H1016Y|FILIP1_uc010kbe.2_Missense_Mutation_p.H1118Y|FILIP1_uc003pib.1_Missense_Mutation_p.H867Y	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	1115										skin(3)|ovary(1)	4						GAGGAGAGGTGATTCCTGGGA	0.537													44	168	---	---	---	---	PASS	A	76022205	A	A	76022205	3	1	44	1	0	0	0	0	1	0	0	0	5894	1290	45	2	306	2	FILIP1	6	76022205	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1942725	76022205	95092862	362	17449										
SNAP91	9892	broad.mit.edu	37	chr6	84366499	84366499	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agttaataacaccatcattgTagcaagcaaaaagtttgata	6	6	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:84366499T>A	uc011dze.1	-	7	949	c.632A>T	c.(631-633)TAC>TTC	p.Y211F	SNAP91_uc003pkb.2_Missense_Mutation_p.Y176F|SNAP91_uc003pkc.2_Missense_Mutation_p.Y211F|SNAP91_uc003pkd.2_Missense_Mutation_p.Y211F|SNAP91_uc003pka.2_Missense_Mutation_p.Y211F|SNAP91_uc011dzf.1_Missense_Mutation_p.Y92F	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	211					clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		ACCATCATTGTAGCAAGCAAA	0.378													10	36	---	---	---	---	PASS	A	84366499	A	A	84366499	3	1	44	1	0	0	0	0	1	0	0	0	14833	1638	57	5	2179	5	SNAP91	6	84366499	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	8344294	84366499	86748568	363	17450										
MDN1	23195	broad.mit.edu	37	chr6	90362722	90362722	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttttactacctggaagatcgTgtccatgaggaattgatgag	11	6	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:90362722T>C	uc003pnn.1	-	94	15930	c.15814A>G	c.(15814-15816)ACG>GCG	p.T5272A		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5272					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)		TGGAAGATCGTGTCCATGAGG	0.338													50	241	---	---	---	---	PASS	C	90362722	C	C	90362722	3	2	44	1	0	0	0	0	1	0	0	0	9415	1696	59	5	1012	5	MDN1	6	90362722	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	5996223	90362722	80752345	364	17451										
KIAA0776	23376	broad.mit.edu	37	chr6	96973248	96973248	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagaaaagcatgttcagttaGtgttgggacaactgatagat	11	5	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:96973248G>A	uc003por.2	+	4	376	c.328G>A	c.(328-330)GTG>ATG	p.V110M	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	110	Required for E3 UFM1-protein ligase activity.				negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		TGTTCAGTTAGTGTTGGGACA	0.274													87	120	---	---	---	---	PASS	A	96973248	A	A	96973248	3	1	44	1	0	0	0	0	1	0	0	0	8193	1029	36	3	342	3	KIAA0776	6	96973248	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	6610526	96973248	74141819	365	17452										
PRDM1	639	broad.mit.edu	37	chr6	106536322	106536322	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtatgccaccaacagtgaaGaggtaagcctctggtttatt	10	8	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:106536322G>A	uc003prd.2	+	2	523	c.289G>A	c.(289-291)GAG>AAG	p.E97K		NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	97	SET.				negative regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.?(1)		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)		CAACAGTGAAGAGGTAAGCCT	0.502			D|N|Mis|F|S		DLBCL								25	101	---	---	---	---	PASS	A	106536322	A	A	106536322	3	1	44	1	0	0	0	0	1	0	0	0	12450	943	33	2	295	2	PRDM1	6	106536322	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	9563074	106536322	64578745	366	17453										
HS3ST5	222537	broad.mit.edu	37	chr6	114378987	114378987	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacctcctctgtgataaaatAtgctgggctcttttcaattg	7	9	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:114378987A>G	uc003pwg.3	-	2	507	c.475T>C	c.(475-477)TAT>CAT	p.Y159H	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.Y159H	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	159	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		GTGATAAAATATGCTGGGCTC	0.383													160	193	---	---	---	---	PASS	G	114378987	G	G	114378987	3	3	44	1	0	0	0	0	1	0	0	0	7368	449	16	5	569	5	HS3ST5	6	114378987	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	7842665	114378987	56736080	367	17454										
ROS1	6098	broad.mit.edu	37	chr6	117700271	117700271	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtgaatacattgactgtcttGaaccaaccaatacaggagcc	8	10	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:117700271G>C	uc003pxp.1	-	17	2747	c.2548C>G	c.(2548-2550)CAA>GAA	p.Q850E	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	850	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TGACTGTCTTGAACCAACCAA	0.398			T	GOPC|ROS1	glioblastoma|NSCLC								36	54	---	---	---	---	PASS	C	117700271	C	C	117700271	3	2	44	1	0	0	0	0	1	0	0	0	13531	1299	45	2	4603	2	ROS1	6	117700271	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3321284	117700271	53414796	368	17455										
FAM184A	79632	broad.mit.edu	37	chr6	119281342	119281342	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cactggagaagcttcactctGagcaggactgaattcataaa	9	9	3	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:119281342G>C	uc003pyj.2	-	18	3697	c.3349C>G	c.(3349-3351)CAG>GAG	p.Q1117E	FAM184A_uc003pyk.3_Missense_Mutation_p.Q948E|FAM184A_uc003pyl.3_Missense_Mutation_p.Q913E|FAM184A_uc003pyi.2_RNA	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	1117										ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						GCTTCACTCTGAGCAGGACTG	0.443													12	98	---	---	---	---	PASS	C	119281342	C	C	119281342	3	2	44	1	0	0	0	0	1	0	0	0	5511	1299	45	2	77	2	FAM184A	6	119281342	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1581071	119281342	51833725	369	17456										
CLVS2	134829	broad.mit.edu	37	chr6	123318974	123318974	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaccctggagaaagctcgcCtggagctcaatgaaaaccca	10	12	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:123318974C>A	uc003pzi.1	+	2	921	c.52C>A	c.(52-54)CTG>ATG	p.L18M		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	18					lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GAAAGCTCGCCTGGAGCTCAA	0.547													33	47	---	---	---	---	PASS	A	123318974	A	A	123318974	3	1	44	1	0	0	0	0	1	0	0	0	3572	680	24	3	54	3	CLVS2	6	123318974	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4037632	123318974	47796093	370	17457			1	20		3	3	327	N	G_C	4.699386e-05
CLVS2	134829	broad.mit.edu	37	chr6	123319225	123319225	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcatcaagcaggcactgaaGgatggcttccctgggggcct	15	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:123319225G>T	uc003pzi.1	+	2	1172	c.303G>T	c.(301-303)AAG>AAT	p.K101N		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	101	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						AGGCACTGAAGGATGGCTTCC	0.537													60	73	---	---	---	---	PASS	T	123319225	T	T	123319225	3	4	44	1	0	0	0	0	1	0	0	0	3572	991	35	3	305	3	CLVS2	6	123319225	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	251	123319225	47795842	371	17458			1	20		3	3	327	N	G_C	4.699386e-05
CLVS2	134829	broad.mit.edu	37	chr6	123319300	123319300	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtcctttttgctgccaattgGgatcagagcaggtaaatcct	10	9	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:123319300G>T	uc003pzi.1	+	2	1247	c.378G>T	c.(376-378)TGG>TGT	p.W126C		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	126	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CTGCCAATTGGGATCAGAGCA	0.468													52	55	---	---	---	---	PASS	T	123319300	T	T	123319300	3	4	44	1	0	0	0	0	1	0	0	0	3572	1241	43	3	380	3	CLVS2	6	123319300	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	75	123319300	47795767	372	17459			1	20		3	3	327	N	G_C	4.699386e-05
TRDN	10345	broad.mit.edu	37	chr6	123600200	123600200	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgagcatgcatataacataCgtggaggtttaggcttgact	11	6	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:123600200C>G	uc003pzj.1	-	25	1559	c.1537_splice	c.e25+1	p.Q513_splice	TRDN_uc010kem.1_Splice_Site_p.Q14_splice	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin						muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		ATATAACATACGTGGAGGTTT	0.259													22	43	---	---	---	---	PASS	G	123600200	G	G	123600200	5	3	44	1	0	0	0	0	0	0	1	0	16465	550	19	4	719	4	TRDN	6	123600200	Splice_Site	SNP	C	TCGA-22-5473-01A-01D-1632-08	280900	123600200	47514867	373	17460										
LAMA2	3908	broad.mit.edu	37	chr6	129588326	129588326	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agccatgtcagtgctttggtCatgcggagtcctgtgatgac	13	9	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:129588326C>A	uc003qbn.2	+	16	2389	c.2284C>A	c.(2284-2286)CAT>AAT	p.H762N	LAMA2_uc003qbo.2_Missense_Mutation_p.H762N	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	762	Laminin EGF-like 6.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GTGCTTTGGTCATGCGGAGTC	0.493													165	205	---	---	---	---	PASS	A	129588326	A	A	129588326	3	1	44	1	0	0	0	0	1	0	0	0	8606	826	29	2	2346	2	LAMA2	6	129588326	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	5988126	129588326	41526741	374	17461										
ENPP1	5167	broad.mit.edu	37	chr6	132171234	132171234	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtttagattaccaggagacgTgcatagaaccaggtaaggat	12	6	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:132171234T>A	uc011ecf.1	+	3	438	c.418T>A	c.(418-420)TGC>AGC	p.C140S		NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	140	SMB 1.|Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	CCAGGAGACGTGCATAGAACC	0.438													30	99	---	---	---	---	PASS	A	132171234	A	A	132171234	3	1	44	1	0	0	0	0	1	0	0	0	5129	1696	59	5	428	5	ENPP1	6	132171234	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	2582908	132171234	38943833	375	17462										
TAAR1	134864	broad.mit.edu	37	chr6	132966703	132966703	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaacagcagggacactccaaCtaatgaagatcatcacacaa	6	11	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:132966703C>A	uc003qdm.1	-	1	440	c.440G>T	c.(439-441)AGT>ATT	p.S147I		NM_138327	NP_612200	Q96RJ0	TAAR1_HUMAN	trace amine associated receptor 1	147	Helical; Name=4; (Potential).					plasma membrane					0	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00616)|GBM - Glioblastoma multiforme(226;0.0154)	Amphetamine(DB00182)	GACACTCCAACTAATGAAGAT	0.393													36	58	---	---	---	---	PASS	A	132966703	A	A	132966703	3	1	44	1	0	0	0	0	1	0	0	0	15486	565	20	3	583	3	TAAR1	6	132966703	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	795469	132966703	38148364	376	17463										
TAAR1	134864	broad.mit.edu	37	chr6	132966855	132966855	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcggtgcttgtgtgaattttAcagaagacttctccaaaata	8	7	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:132966855A>G	uc003qdm.1	-	1	288	c.288T>C	c.(286-288)TGT>TGC	p.C96C		NM_138327	NP_612200	Q96RJ0	TAAR1_HUMAN	trace amine associated receptor 1	96	Extracellular (Potential).					plasma membrane					0	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00616)|GBM - Glioblastoma multiforme(226;0.0154)	Amphetamine(DB00182)	TGTGAATTTTACAGAAGACTT	0.458													12	62	---	---	---	---	PASS	G	132966855	G	G	132966855	2	3	44	1	0	0	0	0	0	0	0	1	15486	389	14	5		5	TAAR1	6	132966855	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	152	132966855	38148212	377	17464										
ALDH8A1	64577	broad.mit.edu	37	chr6	135239933	135239933	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctggttcctggcagggaggcTcaacttatccactccctcac	9	15	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:135239933T>A	uc003qew.2	-	7	1137	c.1084A>T	c.(1084-1086)AGC>TGC	p.S362C	ALDH8A1_uc003qex.2_Missense_Mutation_p.S308C|ALDH8A1_uc010kgh.2_Missense_Mutation_p.S140C|ALDH8A1_uc011ecx.1_Missense_Mutation_p.S312C	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	362					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		GCAGGGAGGCTCAACTTATCC	0.483													34	112	---	---	---	---	PASS	A	135239933	A	A	135239933	3	1	44	1	0	0	0	0	1	0	0	0	505	1551	54	5	383	5	ALDH8A1	6	135239933	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	2273078	135239933	35875134	378	17465										
IFNGR1	3459	broad.mit.edu	37	chr6	137525569	137525569	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgtctccatttacaaaaactGaagggtgaaatatgtcaatc	7	8	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:137525569G>A	uc003qho.2	-	4	549	c.446C>T	c.(445-447)TCA>TTA	p.S149L	IFNGR1_uc011edm.1_Missense_Mutation_p.S121L|IFNGR1_uc011edn.1_Missense_Mutation_p.S139L	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	149	Extracellular (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	TACAAAAACTGAAGGGTGAAA	0.413													11	137	---	---	---	---	PASS	A	137525569	A	A	137525569	3	1	44	1	0	0	0	0	1	0	0	0	7549	1294	45	2	1039	2	IFNGR1	6	137525569	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2285636	137525569	33589498	379	17466										
ECT2L	345930	broad.mit.edu	37	chr6	139206647	139206647	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aatcctcaccttttagtgcaGagaaatgataccagcattcc	6	11	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:139206647G>C	uc003qif.1	+	15	2136	c.2033G>C	c.(2032-2034)AGA>ACA	p.R678T	ECT2L_uc011edq.1_Intron	NM_001077706	NP_001071174	Q008S8	ECT2L_HUMAN	epithelial cell transforming sequence 2	678	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0						TTTTAGTGCAGAGAAATGATA	0.428													3	99	---	---	---	---	PASS	C	139206647	C	C	139206647	3	2	44	1	0	0	0	0	1	0	0	0	4902	942	33	2	2091	2	ECT2L	6	139206647	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1681078	139206647	31908420	380	17467										
HIVEP2	3097	broad.mit.edu	37	chr6	143091585	143091585	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acctcccagggtggccacgcTgtcagaggtggaaggtaaac	14	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:143091585T>A	uc003qjd.2	-	5	5034	c.4291A>T	c.(4291-4293)AGC>TGC	p.S1431C		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1431					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GTGGCCACGCTGTCAGAGGTG	0.527													25	71	---	---	---	---	PASS	A	143091585	A	A	143091585	3	1	44	1	0	0	0	0	1	0	0	0	7187	1580	55	5	3073	5	HIVEP2	6	143091585	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	3884938	143091585	28023482	381	17468										
SHPRH	257218	broad.mit.edu	37	chr6	146243814	146243814	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctaccagttgagaggaagtCtggctggtcggaggtgacag	16	8	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:146243814C>T	uc003qlf.2	-	19	4103	c.3704G>A	c.(3703-3705)AGA>AAA	p.R1235K	SHPRH_uc003qld.2_Missense_Mutation_p.R1239K|SHPRH_uc003qle.2_Missense_Mutation_p.R1239K|SHPRH_uc003qlg.1_Missense_Mutation_p.R791K|SHPRH_uc003qlh.2_Missense_Mutation_p.R160K|SHPRH_uc003qli.1_Missense_Mutation_p.R160K	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	1235					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		GAGAGGAAGTCTGGCTGGTCG	0.403													43	58	---	---	---	---	PASS	T	146243814	T	T	146243814	3	4	44	1	0	0	0	0	1	0	0	0	14291	913	32	2	1412	2	SHPRH	6	146243814	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3152229	146243814	24871253	382	17469										
RAET1G	353091	broad.mit.edu	37	chr6	150240831	150240831	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggactgacgggtgtgactgtCttgctgccacagtcatagtg	14	9	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:150240831C>G	uc010kii.1	-	2	275	c.207G>C	c.(205-207)AAG>AAC	p.K69N	RAET1G_uc003qnm.2_RNA	NM_001001788	NP_001001788	Q6H3X3	RET1G_HUMAN	retinoic acid early transcript 1G precursor	69	MHC class I alpha-1 like.|Extracellular (Potential).				antigen processing and presentation|immune response	integral to membrane|MHC class I protein complex	protein binding				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.73e-12)		GTGTGACTGTCTTGCTGCCAC	0.517													5	364	---	---	---	---	PASS	G	150240831	G	G	150240831	3	3	44	1	0	0	0	0	1	0	0	0	13000	912	32	2	813	2	RAET1G	6	150240831	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3997017	150240831	20874236	383	17470										
RAET1L	154064	broad.mit.edu	37	chr6	150343258	150343258	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggactgacgggtgtgactgtCttgttgccacagtcatagtg	14	8	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:150343258C>G	uc011eei.1	-	2	268	c.207G>C	c.(205-207)AAG>AAC	p.K69N		NM_130900	NP_570970	Q5VY80	RET1L_HUMAN	retinoic acid early transcript 1L precursor	69	MHC class I alpha-1 like (By similarity).				antigen processing and presentation|immune response	anchored to membrane|MHC class I protein complex					0		Ovarian(120;0.028)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.4e-12)		GTGTGACTGTCTTGTTGCCAC	0.507													45	145	---	---	---	---	PASS	G	150343258	G	G	150343258	3	3	44	1	0	0	0	0	1	0	0	0	13001	912	32	2	544	2	RAET1L	6	150343258	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	102427	150343258	20771809	384	17471										
ESR1	2099	broad.mit.edu	37	chr6	152265522	152265522	+	Frame_Shift_Del	DEL	G	-	-													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgttggatgctgagcccccGatactctattccgagtatga					rs1801132	byFrequency	TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:152265522delG	uc003qom.3	+	6	1345	c.975delG	c.(973-975)CCCfs	p.P325fs	ESR1_uc010kin.2_Frame_Shift_Del_p.P325fs|ESR1_uc010kio.2_Frame_Shift_Del_p.P327fs|ESR1_uc010kip.2_Frame_Shift_Del_p.P324fs|ESR1_uc003qon.3_Frame_Shift_Del_p.P325fs|ESR1_uc003qoo.3_Frame_Shift_Del_p.P325fs|ESR1_uc010kiq.2_Intron|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Intron|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Intron|ESR1_uc011eex.1_Frame_Shift_Del_p.P106fs|ESR1_uc010kit.1_Frame_Shift_Del_p.P62fs|ESR1_uc011eey.1_Frame_Shift_Del_p.P62fs	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	325	Steroid-binding.|Interaction with AKAP13.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	CTGAGCCCCCGATACTCTATT	0.547													87	72	---	---	---	---		-	152265522	-	-	152265522	7	5	44	1	0	1	0	1	0	0	0	0	5256	1045	37	0	989	0	ESR1	6	152265522	Frame_Shift_Del	DEL	G	TCGA-22-5473-01A-01D-1632-08	1922264	152265522	18849545	385	17472										
SYNE1	23345	broad.mit.edu	37	chr6	152565699	152565699	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttggagagttcttgcatggaCggctgctcgacctgtagctt	13	9	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:152565699C>A	uc010kiw.2	-	106	20267	c.19665G>T	c.(19663-19665)CCG>CCT	p.P6555P	SYNE1_uc010kiv.2_Silent_p.P1079P|SYNE1_uc003qos.3_Silent_p.P1079P|SYNE1_uc003qot.3_Silent_p.P6484P|SYNE1_uc003qou.3_Silent_p.P6555P	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6555	Potential.|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)		CTTGCATGGACGGCTGCTCGA	0.443										HNSCC(10;0.0054)			31	126	---	---	---	---	PASS	A	152565699	A	A	152565699	2	1	44	1	0	0	0	0	0	0	0	1	15442	523	19	1		1	SYNE1	6	152565699	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	300177	152565699	18549368	386	17473										
SYNE1	23345	broad.mit.edu	37	chr6	152615100	152615100	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	accttgaagacttaccacatTctttaaggtttcccaagaac	5	11	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:152615100T>G	uc010kiw.2	-	94	18447	c.17845A>C	c.(17845-17847)AAT>CAT	p.N5949H	SYNE1_uc010kiv.2_Missense_Mutation_p.N473H|SYNE1_uc003qos.3_Missense_Mutation_p.N473H|SYNE1_uc003qot.3_Missense_Mutation_p.N5878H|SYNE1_uc003qou.3_Missense_Mutation_p.N5949H|SYNE1_uc010kiy.1_Missense_Mutation_p.N124H	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5949	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)		CTTACCACATTCTTTAAGGTT	0.473										HNSCC(10;0.0054)			28	112	---	---	---	---	PASS	G	152615100	G	G	152615100	3	3	44	1	0	0	0	0	1	0	0	0	15442	1783	62	5	8833	5	SYNE1	6	152615100	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	49401	152615100	18499967	387	17474										
SYNE1	23345	broad.mit.edu	37	chr6	152779985	152779985	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccaagtgagtcataaaaggaCgtcatctgcttttctaattc	7	9	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:152779985C>T	uc010kiw.2	-	22	3077	c.2475G>A	c.(2473-2475)ACG>ACA	p.T825T	SYNE1_uc003qot.3_Silent_p.T832T|SYNE1_uc003qou.3_Silent_p.T825T|SYNE1_uc010kjb.1_Silent_p.T808T|SYNE1_uc003qow.2_Silent_p.T120T|SYNE1_uc003qox.1_Silent_p.T341T|SYNE1_uc003qoz.2_Silent_p.T257T|SYNE1_uc003qoy.2_Silent_p.T392T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	825	Cytoplasmic (Potential).|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)		CATAAAAGGACGTCATCTGCT	0.388										HNSCC(10;0.0054)			25	102	---	---	---	---	PASS	T	152779985	T	T	152779985	2	4	44	1	0	0	0	0	0	0	0	1	15442	523	19	1		1	SYNE1	6	152779985	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	164885	152779985	18335082	388	17475										
AGPAT4	56895	broad.mit.edu	37	chr6	161574442	161574442	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgtggcaacaggtgatgcttGaggcgaggcagccccttggc	16	11	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:161574442G>C	uc003qtr.1	-	5	827	c.600C>G	c.(598-600)CTC>CTG	p.L200L	AGPAT4_uc003qts.1_Silent_p.L60L|AGPAT4_uc011egb.1_Intron|AGPAT4_uc003qtt.1_RNA|AGPAT4_uc011egc.1_3'UTR|AGPAT4_uc011egd.1_3'UTR|AGPAT4_uc011ege.1_3'UTR	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	200					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		GGTGATGCTTGAGGCGAGGCA	0.597											OREG0017775	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	26	---	---	---	---	PASS	C	161574442	C	C	161574442	2	2	44	1	0	0	0	0	0	0	0	1	389	1277	45	2		2	AGPAT4	6	161574442	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	8794457	161574442	9540625	389	17476										
THBS2	7058	broad.mit.edu	37	chr6	169632819	169632819	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggctggttccctctgtatcgGggcgggcagggcaggcagtg	19	10	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr6:169632819G>T	uc003qwt.2	-	13	2120	c.1872C>A	c.(1870-1872)CCC>CCA	p.P624P		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	624	EGF-like 2; calcium-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CTCTGTATCGGGGCGGGCAGG	0.647													56	44	---	---	---	---	PASS	T	169632819	T	T	169632819	2	4	44	1	0	0	0	0	0	0	0	1	15851	1219	43	3		3	THBS2	6	169632819	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	8058377	169632819	1482248	390	17477										
FTSJ2	29960	broad.mit.edu	37	chr7	2281800	2281800	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agcagcgcccagctcaccccGccattggtgttccccgcgcc	10	20	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:2281800G>A	uc003slm.2	-	1	34	c.5C>T	c.(4-6)GCG>GTG	p.A2V	FTSJ2_uc003slk.2_5'UTR|FTSJ2_uc003sll.2_5'UTR|FTSJ2_uc003sln.2_RNA|FTSJ2_uc003slo.2_5'UTR|NUDT1_uc003slp.1_5'Flank|NUDT1_uc003slq.1_5'Flank|NUDT1_uc003slr.1_5'Flank|NUDT1_uc003sls.1_5'Flank|NUDT1_uc003slt.1_5'Flank|NUDT1_uc003slu.1_5'Flank|NUDT1_uc003slv.1_5'Flank	NM_013393	NP_037525	Q9UI43	RRMJ2_HUMAN	FtsJ homolog 2	2					cell proliferation	mitochondrion|nucleolus	nucleic acid binding|rRNA (uridine-2'-O-)-methyltransferase activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0822)|OV - Ovarian serous cystadenocarcinoma(56;2.7e-14)		AGCTCACCCCGCCATTGGTGT	0.726													23	4	---	---	---	---	PASS	A	2281800	A	A	2281800	3	1	44	1	0	0	0	0	1	0	0	0	6088	1087	38	1	747	1	FTSJ2	7	2281800	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08		2281800	156856863	391	17478										
RBAK	57786	broad.mit.edu	37	chr7	5105001	5105001	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttctctcggatgtcaaacctCactgtccactacagaagcca	6	14	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:5105001C>T	uc010kss.1	+	6	2238	c.1914C>T	c.(1912-1914)CTC>CTT	p.L638L	LOC389458_uc003snr.2_Intron|RBAK_uc003sns.1_Silent_p.L638L	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	638	C2H2-type 14.|Interaction with AR.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		TGTCAAACCTCACTGTCCACT	0.388													31	197	---	---	---	---	PASS	T	5105001	T	T	5105001	2	4	44	1	0	0	0	0	0	0	0	1	13100	813	29	2		2	RBAK	7	5105001	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	2823201	5105001	154033662	392	17479										
ABCB5	340273	broad.mit.edu	37	chr7	20698188	20698188	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtggagggcagaaacagagGatcgcaattgctcgtgcctt	14	8	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:20698188G>A	uc003suw.3	+	5	807	c.261G>A	c.(259-261)AGG>AGA	p.R87R	ABCB5_uc010kuh.2_Silent_p.R532R|ABCB5_uc003suv.3_Silent_p.R87R|ABCB5_uc011jyi.1_Silent_p.R87R	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	87	ABC transporter 1.|Extracellular (Potential).				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						AGAAACAGAGGATCGCAATTG	0.438													15	98	---	---	---	---	PASS	A	20698188	A	A	20698188	2	1	44	1	0	0	0	0	0	0	0	1	44	1165	41	2		2	ABCB5	7	20698188	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	15593187	20698188	138440475	393	17480										
DNAH11	8701	broad.mit.edu	37	chr7	21882171	21882171	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctccgtttaggtatatcagGattggagataaagaatgtga	12	4	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:21882171G>C	uc003svc.2	+	67	10753	c.10722G>C	c.(10720-10722)AGG>AGC	p.R3574S		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3574	AAA 5 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GGTATATCAGGATTGGAGATA	0.383									Kartagener_syndrome				6	90	---	---	---	---	PASS	C	21882171	C	C	21882171	3	2	44	1	0	0	0	0	1	0	0	0	4599	1165	41	2	10985	2	DNAH11	7	21882171	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1183983	21882171	137256492	394	17481										
HNRNPA2B1	3181	broad.mit.edu	37	chr7	26236961	26236961	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgctacagcacgttttggctCaactactctcccatcaattg	6	13	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:26236961C>G	uc003sxr.3	-	4	490	c.274G>C	c.(274-276)GAG>CAG	p.E92Q	HNRNPA2B1_uc003sxs.3_Missense_Mutation_p.E80Q	NM_031243	NP_112533	P22626	ROA2_HUMAN	heterogeneous nuclear ribonucleoprotein A2/B1	92	RRM 1.				RNA transport	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	nucleotide binding|protein binding|protein binding|RNA binding|single-stranded telomeric DNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CGTTTTGGCTCAACTACTCTC	0.423			T	ETV1	prostate								55	411	---	---	---	---	PASS	G	26236961	G	G	26236961	3	3	44	1	0	0	0	0	1	0	0	0	7259	835	29	2	819	2	HNRNPA2B1	7	26236961	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4354790	26236961	132901702	395	17482										
RP9	6100	broad.mit.edu	37	chr7	33135041	33135041	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtaactgttttaactgctgTatcctaaacattcaaaattg	5	7	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:33135041T>C	uc003tdm.2	-	6	489	c.471A>G	c.(469-471)ATA>ATG	p.I157M		NM_203288	NP_976033	Q8TA86	RP9_HUMAN	retinitis pigmentosa 9	157					RNA splicing	nucleus	nucleic acid binding|protein binding|zinc ion binding				0			GBM - Glioblastoma multiforme(11;0.0403)			TTAACTGCTGTATCCTAAACA	0.328													90	23	---	---	---	---	PASS	C	33135041	C	C	33135041	3	2	44	1	0	0	0	0	1	0	0	0	13535	1628	57	5	198	5	RP9	7	33135041	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	6898080	33135041	126003622	396	17483										
AOAH	313	broad.mit.edu	37	chr7	36580015	36580015	+	Frame_Shift_Del	DEL	G	-	-													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atggctgccattgggcaggtGggaatttagatgcttcagag							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:36580015delG	uc003tfh.3	-	16	1617	c.1216delC	c.(1216-1218)CACfs	p.H406fs	AOAH_uc010kxf.2_Frame_Shift_Del_p.H406fs|AOAH_uc011kba.1_Frame_Shift_Del_p.H374fs	NM_001637	NP_001628	P28039	AOAH_HUMAN	acyloxyacyl hydrolase precursor	406					inflammatory response|lipid metabolic process	extracellular region	acyloxyacyl hydrolase activity|lipoprotein lipase activity			skin(1)	1						TTGGGCAGGTGGGAATTTAGA	0.458													34	62	---	---	---	---		-	36580015	-	-	36580015	7	5	44	1	0	1	0	1	0	0	0	0	726	1348	47	0	876	0	AOAH	7	36580015	Frame_Shift_Del	DEL	G	TCGA-22-5473-01A-01D-1632-08	3444974	36580015	122558648	397	17484										
PKD1L1	168507	broad.mit.edu	37	chr7	47873943	47873943	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aatgattgatttaccttgcgTggctcctgtgcgtctggtat	11	8	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:47873943T>C	uc003tny.1	-	40	6168	c.6168A>G	c.(6166-6168)CCA>CCG	p.P2056P		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2056	Cytoplasmic (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						TTACCTTGCGTGGCTCCTGTG	0.433													39	34	---	---	---	---	PASS	C	47873943	C	C	47873943	2	2	44	1	0	0	0	0	0	0	0	1	11964	1683	59	5		5	PKD1L1	7	47873943	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	11293928	47873943	111264720	398	17485										
ABCA13	154664	broad.mit.edu	37	chr7	48312039	48312039	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagtctacgctatcaggaatGcatctgatcttttctcagcc	7	12	5	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:48312039G>A	uc003toq.2	+	17	2801	c.2776G>A	c.(2776-2778)GCA>ACA	p.A926T	ABCA13_uc010kyr.2_Missense_Mutation_p.A429T	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	926					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TATCAGGAATGCATCTGATCT	0.393													88	28	---	---	---	---	PASS	A	48312039	A	A	48312039	3	1	44	1	0	0	0	0	1	0	0	0	31	1319	46	3	2671	3	ABCA13	7	48312039	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	438096	48312039	110826624	399	17486										
SEPT14	346288	broad.mit.edu	37	chr7	55910746	55910746	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaatcatggtactcaaacaaGgaacgtttaatcttcagttc	7	8	4	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:55910746G>T	uc003tqz.2	-	5	564	c.447C>A	c.(445-447)TCC>TCA	p.S149S		NM_207366	NP_997249	Q6ZU15	SEP14_HUMAN	septin 14	149					cell cycle|cell division	septin complex	GTP binding|protein binding				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			ACTCAAACAAGGAACGTTTAA	0.373													24	36	---	---	---	---	PASS	T	55910746	T	T	55910746	2	4	44	1	0	0	0	0	0	0	0	1	14063	987	35	3		3	SEPT14	7	55910746	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	7598707	55910746	103227917	400	17487										
ZNF107	51427	broad.mit.edu	37	chr7	64167545	64167545	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	taacatatcctcaaaccttaAtaaacaggagaaaattcata	3	8	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:64167545A>T	uc003ttd.2	+	7	1649	c.863A>T	c.(862-864)AAT>ATT	p.N288I	ZNF107_uc003tte.2_Missense_Mutation_p.N288I	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	288	C2H2-type 8; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				TCAAACCTTAATAAACAGGAG	0.343													17	89	---	---	---	---	PASS	T	64167545	T	T	64167545	3	4	44	1	0	0	0	0	1	0	0	0	17712	101	4	5	869	5	ZNF107	7	64167545	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	8256799	64167545	94971118	401	17488										
TPST1	8460	broad.mit.edu	37	chr7	65751683	65751683	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acctgatcccaaaattattgAaaacactcgaagggtaagtg	8	8	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:65751683A>C	uc003tuw.2	+	3	1383	c.1031A>C	c.(1030-1032)GAA>GCA	p.E344A	TPST1_uc010kzy.2_RNA|TPST1_uc010kzz.2_Missense_Mutation_p.E344A|TPST1_uc010laa.2_Missense_Mutation_p.E344A	NM_003596	NP_003587	O60507	TPST1_HUMAN	tyrosylprotein sulfotransferase 1	344	Lumenal (Potential).				inflammatory response|peptidyl-tyrosine sulfation	Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity				0						AAAATTATTGAAAACACTCGA	0.343													46	50	---	---	---	---	PASS	C	65751683	C	C	65751683	3	2	44	1	0	0	0	0	1	0	0	0	16424	246	9	5	1037	5	TPST1	7	65751683	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1584138	65751683	93386980	402	17489										
AUTS2	26053	broad.mit.edu	37	chr7	69364300	69364300	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agcacttaagcctcaggaacGtgtggagaaacgccagacgc	12	11	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:69364300G>T	uc003tvw.3	+	2	1081	c.338G>T	c.(337-339)CGT>CTT	p.R113L	AUTS2_uc003tvv.3_Missense_Mutation_p.R113L|AUTS2_uc003tvx.3_Missense_Mutation_p.R113L	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	113										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CCTCAGGAACGTGTGGAGAAA	0.473													21	95	---	---	---	---	PASS	T	69364300	T	T	69364300	3	4	44	1	0	0	0	0	1	0	0	0	1225	1145	40	1	344	1	AUTS2	7	69364300	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3612617	69364300	89774363	403	17490										
TRIM50	135892	broad.mit.edu	37	chr7	72732870	72732870	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgaactgttccagcacacacTcggcttgggccagccgctcc	10	17	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:72732870T>A	uc010lbd.1	-	4	802	c.677A>T	c.(676-678)GAG>GTG	p.E226V	FKBP6_uc003twz.2_Intron|TRIM50_uc003txy.1_Missense_Mutation_p.E226V|TRIM50_uc003txz.1_Missense_Mutation_p.E226V	NM_178125	NP_835226	Q86XT4	TRI50_HUMAN	tripartite motif protein 50A	226	Potential.					cytoplasm|intracellular membrane-bounded organelle	ligase activity|zinc ion binding			skin(1)	1						CAGCACACACTCGGCTTGGGC	0.667													33	142	---	---	---	---	PASS	A	72732870	A	A	72732870	3	1	44	1	0	0	0	0	1	0	0	0	16523	1551	54	5	802	5	TRIM50	7	72732870	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	3368570	72732870	86405793	404	17491										
CACNA2D1	781	broad.mit.edu	37	chr7	81594957	81594957	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	catcagaagaaacccaccatCatccagaatcacacaatcca	3	15	3	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:81594957C>T	uc003uhr.1	-	32	2783	c.2527G>A	c.(2527-2529)GAT>AAT	p.D843N	CACNA2D1_uc011kgy.1_Missense_Mutation_p.D55N	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	855	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	AACCCACCATCATCCAGAATC	0.368													35	304	---	---	---	---	PASS	T	81594957	T	T	81594957	3	4	44	1	0	0	0	0	1	0	0	0	2548	826	29	2	780	2	CACNA2D1	7	81594957	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	8862087	81594957	77543706	405	17492										
PCLO	27445	broad.mit.edu	37	chr7	82430892	82430892	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttacaggctcttgtccattCtgtcccatcttccctctgtt	5	14	4	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:82430892C>T	uc003uhx.2	-	22	15238	c.14949G>A	c.(14947-14949)CAG>CAA	p.Q4983Q		NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4906					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CTTGTCCATTCTGTCCCATCT	0.338													42	126	---	---	---	---	PASS	T	82430892	T	T	82430892	2	4	44	1	0	0	0	0	0	0	0	1	11583	912	32	2		2	PCLO	7	82430892	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	835935	82430892	76707771	406	17493										
PCLO	27445	broad.mit.edu	37	chr7	82585951	82585951	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggctgttcaggagaaacttCatggggttgtgttttctttt	12	5	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:82585951C>T	uc003uhx.2	-	5	4607	c.4318G>A	c.(4318-4320)GAA>AAA	p.E1440K	PCLO_uc003uhv.2_Missense_Mutation_p.E1440K	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1371					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GGAGAAACTTCATGGGGTTGT	0.378													53	150	---	---	---	---	PASS	T	82585951	T	T	82585951	3	4	44	1	0	0	0	0	1	0	0	0	11583	835	29	2	11211	2	PCLO	7	82585951	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	155059	82585951	76552712	407	17494										
CROT	54677	broad.mit.edu	37	chr7	87027960	87027960	+	Nonstop_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgaactctactcatctttaGagatgaatcatctattaagc	5	8	5	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:87027960G>C	uc003uit.2	+	18	2084	c.1839G>C	c.(1837-1839)TAG>TAC	p.*613Y	CROT_uc003uiu.2_Nonstop_Mutation_p.*641Y	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	613					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity	p.*613W(1)		ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	CTCATCTTTAGAGATGAATCA	0.398													18	98	---	---	---	---	PASS	C	87027960	C	C	87027960	4	2	44	1	0	0	0	0	0	0	0	0	3894	937	33	2	1989	2	CROT	7	87027960	Nonstop_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4442009	87027960	72110703	408	17495										
ABCB1	5243	broad.mit.edu	37	chr7	87196188	87196188	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tagcatgaaaaaactgttttCtaattttgtgtatttgtctt	6	4	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:87196188C>G	uc003uiz.1	-	7	861	c.443G>C	c.(442-444)AGA>ACA	p.R148T	ABCB1_uc011khc.1_Intron	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	148	ABC transmembrane type-1 1.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	AAACTGTTTTCTAATTTTGTG	0.428													3	192	---	---	---	---	PASS	G	87196188	G	G	87196188	3	3	44	1	0	0	0	0	1	0	0	0	40	913	32	2	3491	2	ABCB1	7	87196188	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	168228	87196188	71942475	409	17496										
SLC25A40	55972	broad.mit.edu	37	chr7	87465676	87465676	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	taattaagcgaggaattaggCctgagaaaagaataggaata	11	3	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:87465676C>G	uc003uje.2	-	12	1256	c.905G>C	c.(904-906)GGC>GCC	p.G302A		NM_018843	NP_061331	Q8TBP6	S2540_HUMAN	mitochondrial carrier family protein	302	Solcar 3.|Helical; Name=6; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			haematopoietic_and_lymphoid_tissue(1)	1	Esophageal squamous(14;0.00202)					AGGAATTAGGCCTGAGAAAAG	0.269													17	94	---	---	---	---	PASS	G	87465676	G	G	87465676	3	3	44	1	0	0	0	0	1	0	0	0	14505	753	26	4	115	4	SLC25A40	7	87465676	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	269488	87465676	71672987	410	17497										
ANKIB1	54467	broad.mit.edu	37	chr7	92027143	92027143	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgcgtgactacacccctgcCagtcgctctgaaaaccagga	9	15	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:92027143C>T	uc003ulw.2	+	19	2878	c.2502C>T	c.(2500-2502)GCC>GCT	p.A834A	ANKIB1_uc010lew.1_Silent_p.A103A	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	834							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			ACACCCCTGCCAGTCGCTCTG	0.542													147	248	---	---	---	---	PASS	T	92027143	T	T	92027143	2	4	44	1	0	0	0	0	0	0	0	1	630	581	21	3		3	ANKIB1	7	92027143	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	4561467	92027143	67111520	411	17498										
COL1A2	1278	broad.mit.edu	37	chr7	94038908	94038908	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcaaacggccttactggtgcCaagggtgctgctgtgagtat	14	9	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:94038908C>T	uc003ung.1	+	18	1395	c.924C>T	c.(922-924)GCC>GCT	p.A308A	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	308					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TTACTGGTGCCAAGGGTGCTG	0.448										HNSCC(75;0.22)			19	164	---	---	---	---	PASS	T	94038908	T	T	94038908	2	4	44	1	0	0	0	0	0	0	0	1	3678	581	21	3		3	COL1A2	7	94038908	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	2011765	94038908	65099755	412	17499										
CASD1	64921	broad.mit.edu	37	chr7	94173843	94173843	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaatctatagagtatgtcagGtaggaatgcactgttatttc	10	5	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:94173843G>T	uc003uni.3	+	11	1703	c.1476_splice	c.e11+1	p.Q492_splice	CASD1_uc003unj.3_Splice_Site_p.Q492_splice	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor							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)			AGTATGTCAGGTAGGAATGCA	0.328													96	147	---	---	---	---	PASS	T	94173843	T	T	94173843	5	4	44	1	0	0	0	0	0	0	1	0	2664	1275	44	3	1519	3	CASD1	7	94173843	Splice_Site	SNP	G	TCGA-22-5473-01A-01D-1632-08	134935	94173843	64964820	413	17500										
BAIAP2L1	55971	broad.mit.edu	37	chr7	97991745	97991745	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgaactgttccataacattCtgccaaacaaacaaaacaca	3	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:97991745C>G	uc003upj.2	-	2	315	c.52_splice	c.e2-1	p.N18_splice		NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1						filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			CCATAACATTCTGCCAAACAA	0.348													5	202	---	---	---	---	PASS	G	97991745	G	G	97991745	5	3	44	1	0	0	0	0	0	0	1	0	1302	927	32	2	1536	2	BAIAP2L1	7	97991745	Splice_Site	SNP	C	TCGA-22-5473-01A-01D-1632-08	3817902	97991745	61146918	414	17501										
TRRAP	8295	broad.mit.edu	37	chr7	98519471	98519471	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcagtaacaggaagatgctGaaggagtcgcagaagctgca	15	7	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:98519471G>A	uc003upp.2	+	21	2927	c.2718G>A	c.(2716-2718)CTG>CTA	p.L906L	TRRAP_uc011kis.1_Silent_p.L906L|TRRAP_uc003upr.2_Silent_p.L598L	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	906					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GGAAGATGCTGAAGGAGTCGC	0.577													73	199	---	---	---	---	PASS	A	98519471	A	A	98519471	2	1	44	1	0	0	0	0	0	0	0	1	16598	1277	45	2		2	TRRAP	7	98519471	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	527726	98519471	60619192	415	17502										
ZNF498	221785	broad.mit.edu	37	chr7	99221705	99221705	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggggccatttaaagatatggCcctggccttccctgaggagg	14	10	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:99221705C>A	uc003url.1	+	7	1034	c.707C>A	c.(706-708)GCC>GAC	p.A236D	ZNF498_uc003urm.1_Missense_Mutation_p.A72D|ZNF498_uc010lge.1_Missense_Mutation_p.A72D|ZNF498_uc003urn.2_RNA|ZNF498_uc010lgf.1_Intron|ZNF498_uc003uro.1_Missense_Mutation_p.A20D	NM_145115	NP_660090	Q6NSZ9	ZN498_HUMAN	zinc finger and SCAN domain containing 25	236					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_epithelial(64;1.95e-08)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					AAAGATATGGCCCTGGCCTTC	0.522													152	219	---	---	---	---	PASS	A	99221705	A	A	99221705	3	1	44	1	0	0	0	0	1	0	0	0	17944	739	26	3	721	3	ZNF498	7	99221705	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	702234	99221705	59916958	416	17503										
STAG3	10734	broad.mit.edu	37	chr7	99802726	99802726	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctcctttcagagttttcccCccgactcttccatcaggaca	6	16	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:99802726C>A	uc003utx.1	+	28	3205	c.3050C>A	c.(3049-3051)CCC>CAC	p.P1017H	STAG3_uc011kjk.1_Missense_Mutation_p.P959H|GATS_uc003uty.3_Intron|GATS_uc003utz.3_Intron|GATS_uc003uua.3_Intron|GATS_uc010lgt.2_Intron|STAG3_uc003uub.1_Missense_Mutation_p.P241H	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	1017					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GAGTTTTCCCCCCGACTCTTC	0.552													181	399	---	---	---	---	PASS	A	99802726	A	A	99802726	3	1	44	1	0	0	0	0	1	0	0	0	15243	623	22	3	3156	3	STAG3	7	99802726	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	581021	99802726	59335937	417	17504										
SPDYE3	441272	broad.mit.edu	37	chr7	99914722	99914722	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctatggtcatagcgtatttCagccgggccggcctcccctc	11	15	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:99914722C>T	uc003uug.1	+	3	399	c.159C>T	c.(157-159)TTC>TTT	p.F53F		NM_001004351	NP_001004351	A6NKU9	SPDE3_HUMAN	speedy homolog E3	430											0						TAGCGTATTTCAGCCGGGCCG	0.522													43	369	---	---	---	---	PASS	T	99914722	T	T	99914722	2	4	44	1	0	0	0	0	0	0	0	1	15029	825	29	2		2	SPDYE3	7	99914722	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	111996	99914722	59223941	418	17505										
PILRB	29990	broad.mit.edu	37	chr7	99964979	99964979	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcccctcctgcaggtagcagGgcgccaagcagtgacttctg	12	14	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:99964979G>T	uc003uuk.2	+	18	3159	c.663G>T	c.(661-663)AGG>AGT	p.R221S	PILRB_uc003uul.2_3'UTR|PILRB_uc003uun.2_Missense_Mutation_p.R221S	NM_013440	NP_038468	Q9UKJ0	PILRB_HUMAN	paired immunoglobulin-like type 2 receptor beta	221	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity	integral to plasma membrane	protein binding|receptor activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					caggtagcagggcgccaagca	0.02													28	152	---	---	---	---	PASS	T	99964979	T	T	99964979	3	4	44	1	0	0	0	0	1	0	0	0	11926	1223	43	3	677	3	PILRB	7	99964979	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	50257	99964979	59173684	419	17506										
MEPCE	56257	broad.mit.edu	37	chr7	100029210	100029210	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gttcgaaagaggagctgcttCccagcctcgctgactgccag	12	13	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:100029210C>T	uc003uuw.2	+	1	1682	c.1569C>T	c.(1567-1569)TTC>TTT	p.F523F	ZCWPW1_uc003uut.2_5'Flank|ZCWPW1_uc011kjr.1_5'Flank|ZCWPW1_uc011kjt.1_5'Flank|ZCWPW1_uc011kju.1_5'Flank|MEPCE_uc003uuv.2_Silent_p.F54F	NM_019606	NP_062552	Q7L2J0	MEPCE_HUMAN	bin3, bicoid-interacting 3	523	Bin3-type SAM.						methyltransferase activity			upper_aerodigestive_tract(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GGAGCTGCTTCCCAGCCTCGC	0.627													26	83	---	---	---	---	PASS	T	100029210	T	T	100029210	2	4	44	1	0	0	0	0	0	0	0	1	9477	854	30	2		2	MEPCE	7	100029210	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	64231	100029210	59109453	420	17507										
SRRT	51593	broad.mit.edu	37	chr7	100473227	100473227	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtgccatgggtgacagtgatGacgagtacgatcgaaggcgc	16	8	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:100473227G>A	uc003uwy.2	+	3	284	c.16G>A	c.(16-18)GAC>AAC	p.D6N	SRRT_uc010lhl.1_Missense_Mutation_p.D6N|SRRT_uc003uxa.2_Missense_Mutation_p.D6N|SRRT_uc003uwz.2_Missense_Mutation_p.D6N	NM_015908	NP_056992	Q9BXP5	SRRT_HUMAN	arsenate resistance protein 2 isoform a	6					cell proliferation|primary miRNA processing|response to arsenic-containing substance	cytoplasm|nucleoplasm	protein binding			ovary(2)	2						TGACAGTGATGACGAGTACGA	0.622													36	235	---	---	---	---	PASS	A	100473227	A	A	100473227	3	1	44	1	0	0	0	0	1	0	0	0	15171	1290	45	2	18	2	SRRT	7	100473227	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	444017	100473227	58665436	421	17508										
PLOD3	8985	broad.mit.edu	37	chr7	100853379	100853379	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctgcgtgggctcacctgctCcacgattccttccccttcca	8	18	1	0	rs140879834	byFrequency	TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:100853379C>G	uc003uyd.2	-	15	2134	c.1678G>C	c.(1678-1680)GAG>CAG	p.E560Q	PLOD3_uc010lhs.2_Missense_Mutation_p.E125Q	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	560					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	CTCACCTGCTCCACGATTCCT	0.632													3	16	---	---	---	---	PASS	G	100853379	G	G	100853379	3	3	44	1	0	0	0	0	1	0	0	0	12103	864	30	2	558	2	PLOD3	7	100853379	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	380152	100853379	58285284	422	17509										
LRRC17	10234	broad.mit.edu	37	chr7	102584869	102584869	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atggcctggaatgcaaaacgCctgaagaatacaaaggatgg	12	7	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:102584869C>G	uc003vau.2	+	4	1530	c.1141C>G	c.(1141-1143)CCT>GCT	p.P381A	FBXL13_uc010liq.1_Intron|FBXL13_uc003vaq.2_Intron|FBXL13_uc010lir.1_Intron|FBXL13_uc003var.2_Intron|FBXL13_uc003vas.2_Intron|LRRC17_uc003vat.2_3'UTR	NM_001031692	NP_001026862	Q8N6Y2	LRC17_HUMAN	leucine rich repeat containing 17 isoform 1	381	LRRCT 2.				bone marrow development|negative regulation of osteoclast differentiation|ossification	extracellular space				ovary(1)	1						ATGCAAAACGCCTGAAGAATA	0.403													33	272	---	---	---	---	PASS	G	102584869	G	G	102584869	3	3	44	1	0	0	0	0	1	0	0	0	8973	739	26	4	1169	4	LRRC17	7	102584869	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1731490	102584869	56553794	423	17510										
FBXL13	222235	broad.mit.edu	37	chr7	102665558	102665558	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaaatgtcacattttagagtCtcatctacaagaaagacttc	6	8	3	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:102665558C>T	uc003vaq.2	-	6	874	c.447G>A	c.(445-447)GAG>GAA	p.E149E	FBXL13_uc010liq.1_5'UTR|FBXL13_uc010lir.1_Silent_p.E149E|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Silent_p.E149E|FBXL13_uc003vav.2_RNA	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	149											0						ATTTTAGAGTCTCATCTACAA	0.289													39	34	---	---	---	---	PASS	T	102665558	T	T	102665558	2	4	44	1	0	0	0	0	0	0	0	1	5709	912	32	2		2	FBXL13	7	102665558	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	80689	102665558	56473105	424	17511										
PIK3CG	5294	broad.mit.edu	37	chr7	106513008	106513008	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaatttgaaccataccatgaTagcgcccttgccagatttct	6	11	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:106513008T>G	uc003vdv.3	+	3	2107	c.2022T>G	c.(2020-2022)GAT>GAG	p.D674E	PIK3CG_uc003vdu.2_Missense_Mutation_p.D674E|PIK3CG_uc003vdw.2_Missense_Mutation_p.D674E	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	674					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						CATACCATGATAGCGCCCTTG	0.393													31	237	---	---	---	---	PASS	G	106513008	G	G	106513008	3	3	44	1	0	0	0	0	1	0	0	0	11916	1403	49	5	2028	5	PIK3CG	7	106513008	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	3847450	106513008	52625655	425	17512										
C7orf66	154907	broad.mit.edu	37	chr7	108524212	108524212	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcatgtgacgatattgagctGagaattcctctgacatcact	8	9	3	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:108524212G>T	uc003vfo.2	-	2	248	c.200C>A	c.(199-201)TCA>TAA	p.S67*		NM_001024607	NP_001019778	A4D0T2	CG066_HUMAN	hypothetical protein LOC154907	67						integral to membrane				ovary(2)	2						ATATTGAGCTGAGAATTCCTC	0.423													117	194	---	---	---	---	PASS	T	108524212	T	T	108524212	4	4	44	1	0	0	0	0	0	1	0	0	2412	1294	45	2	151	2	C7orf66	7	108524212	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2011204	108524212	50614451	426	17513										
CFTR	1080	broad.mit.edu	37	chr7	117149087	117149087	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccactttttattcttttgcaGagaatgggatagagagctgg	11	6	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:117149087G>T	uc003vjd.2	+	3	297	c.165_splice	c.e3-1	p.R55_splice	CFTR_uc011knq.1_Splice_Site	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance						respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	TTCTTTTGCAGAGAATGGGAT	0.348									Cystic_Fibrosis				69	118	---	---	---	---	PASS	T	117149087	T	T	117149087	5	4	44	1	0	0	0	0	0	0	1	0	3294	956	33	2	174	2	CFTR	7	117149087	Splice_Site	SNP	G	TCGA-22-5473-01A-01D-1632-08	8624875	117149087	41989576	427	17514										
GCC1	79571	broad.mit.edu	37	chr7	127223192	127223192	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagtgtcttgttctccaggtCcagctgcagaatgcgctcct	10	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:127223192C>T	uc003vma.2	-	2	1622	c.1204G>A	c.(1204-1206)GAC>AAC	p.D402N		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	402	Potential.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						TTCTCCAGGTCCAGCTGCAGA	0.532													20	127	---	---	---	---	PASS	T	127223192	T	T	127223192	3	4	44	1	0	0	0	0	1	0	0	0	6285	855	30	2	1127	2	GCC1	7	127223192	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	10074105	127223192	31915471	428	17515										
FAM40B	57464	broad.mit.edu	37	chr7	129125498	129125498	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgaggcttttaacagccgtcGctatgacagaccccaggact	10	12	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:129125498G>A	uc011koy.1	+	21	2373	c.2333G>A	c.(2332-2334)CGC>CAC	p.R778H	FAM40B_uc011koz.1_Missense_Mutation_p.R270H	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	778											0						AACAGCCGTCGCTATGACAGA	0.498													39	72	---	---	---	---	PASS	A	129125498	A	A	129125498	3	1	44	1	0	0	0	0	1	0	0	0	5561	1087	38	1	2438	1	FAM40B	7	129125498	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1902306	129125498	30013165	429	17516										
EXOC4	60412	broad.mit.edu	37	chr7	133580390	133580390	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagacagttcaagacctcctGaacctgatgcatgacttgag	9	10	1	6			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:133580390G>A	uc003vrk.2	+	12	1808	c.1773G>A	c.(1771-1773)CTG>CTA	p.L591L	EXOC4_uc011kpo.1_Silent_p.L490L|EXOC4_uc003vrl.2_Silent_p.L201L|EXOC4_uc011kpp.1_Silent_p.L123L	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	591					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				AAGACCTCCTGAACCTGATGC	0.448													10	248	---	---	---	---	PASS	A	133580390	A	A	133580390	2	1	44	1	0	0	0	0	0	0	0	1	5306	1277	45	2		2	EXOC4	7	133580390	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	4454892	133580390	25558273	430	17517										
WDR91	29062	broad.mit.edu	37	chr7	134873261	134873261	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtagacctccccgtagtggGccctccagctcatcgcgcac	10	17	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:134873261G>C	uc003vsp.2	-	13	1867	c.1805C>G	c.(1804-1806)GCC>GGC	p.A602G	WDR91_uc010lmq.2_Missense_Mutation_p.A191G|WDR91_uc010lmr.2_Intron	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91	602	WD 5.									breast(2)|ovary(1)|skin(1)	4						CCCGTAGTGGGCCCTCCAGCT	0.537													64	261	---	---	---	---	PASS	C	134873261	C	C	134873261	3	2	44	1	0	0	0	0	1	0	0	0	17335	1203	42	4	450	4	WDR91	7	134873261	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1292871	134873261	24265402	431	17518										
FAM180A	389558	broad.mit.edu	37	chr7	135418972	135418972	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gggatgacgttgttgcagacGgtgcggaagtctgaggcctt	17	7	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:135418972G>A	uc003vtd.2	-	3	539	c.273C>T	c.(271-273)ACC>ACT	p.T91T	FAM180A_uc010lmt.2_RNA|FAM180A_uc010lmu.2_Silent_p.T91T	NM_205855	NP_995327	Q6UWF9	F180A_HUMAN	hypothetical protein LOC389558 precursor	91						extracellular region				ovary(2)	2						TGTTGCAGACGGTGCGGAAGT	0.587													8	314	---	---	---	---	PASS	A	135418972	A	A	135418972	2	1	44	1	0	0	0	0	0	0	0	1	5507	1103	39	1		1	FAM180A	7	135418972	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	545711	135418972	23719691	432	17519										
KIAA1549	57670	broad.mit.edu	37	chr7	138591781	138591781	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atccctgtgtgcttttaaccGcaaagatgatattcaccggg	9	10	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:138591781G>A	uc011kql.1	-	6	3393	c.3344C>T	c.(3343-3345)GCG>GTG	p.A1115V	KIAA1549_uc003vuk.3_Missense_Mutation_p.A1065V|KIAA1549_uc011kqj.1_Missense_Mutation_p.A1115V	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1115						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GCTTTTAACCGCAAAGATGAT	0.458			O	BRAF	pilocytic astrocytoma								3	37	---	---	---	---	PASS	A	138591781	A	A	138591781	3	1	44	1	0	0	0	0	1	0	0	0	8244	1087	38	1	2568	1	KIAA1549	7	138591781	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3172809	138591781	20546882	433	17520										
TRYX3	136541	broad.mit.edu	37	chr7	141952369	141952369	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gttgtaggttttataggcatCgcgacactgaggcttggaga	14	6	0	2	rs149180097		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:141952369C>G	uc003vxb.2	-	4	819	c.499G>C	c.(499-501)GAT>CAT	p.D167H	TRYX3_uc003vxc.3_Missense_Mutation_p.D167H	NM_001001317	NP_001001317	Q8IYP2	PRS58_HUMAN	trypsin X3 precursor	167	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0	Melanoma(164;0.0272)					TTATAGGCATCGCGACACTGA	0.428													29	226	---	---	---	---	PASS	G	141952369	G	G	141952369	3	3	44	1	0	0	0	0	1	0	0	0	16601	884	31	2	234	2	TRYX3	7	141952369	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3360588	141952369	17186294	434	17521										
TRYX3	136541	broad.mit.edu	37	chr7	141955036	141955036	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caatagaagtgactgagaagTgtggatgatgaatcatcttc	11	5	2	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:141955036T>A	uc003vxb.2	-	3	595	c.275A>T	c.(274-276)CAC>CTC	p.H92L	TRYX3_uc003vxc.3_Missense_Mutation_p.H92L	NM_001001317	NP_001001317	Q8IYP2	PRS58_HUMAN	trypsin X3 precursor	92	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0	Melanoma(164;0.0272)					GACTGAGAAGTGTGGATGATG	0.423													45	162	---	---	---	---	PASS	A	141955036	A	A	141955036	3	1	44	1	0	0	0	0	1	0	0	0	16601	1696	59	5	462	5	TRYX3	7	141955036	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	2667	141955036	17183627	435	17522										
PRSS1	5644	broad.mit.edu	37	chr7	142457345	142457345	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	actctaccaccatgaatccaCtcctgatccttacctttgtg	4	15	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:142457345C>T	uc003wak.2	+	1	27	c.10C>T	c.(10-12)CTC>TTC	p.L4F	uc011krr.1_Intron|uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|TRY6_uc011ksn.1_RNA|PRSS1_uc011ksm.1_Missense_Mutation_p.L4F|PRSS1_uc003wam.2_5'Flank	NM_002769	NP_002760	P07477	TRY1_HUMAN	protease, serine, 1 preproprotein	4				L -> F (in Ref. 7; AAI28227).	digestion|proteolysis	extracellular space	metal ion binding|protein binding|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)			CATGAATCCACTCCTGATCCT	0.572									Hereditary_Pancreatitis				24	129	---	---	---	---	PASS	T	142457345	T	T	142457345	3	4	44	1	0	0	0	0	1	0	0	0	12614	565	20	3	12	3	PRSS1	7	142457345	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	502309	142457345	16681318	436	17523										
EPHA1	2041	broad.mit.edu	37	chr7	143096484	143096484	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggggtgtgtccatgtccatCcggtaggagccgctagggca	16	10	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:143096484C>T	uc003wcz.2	-	5	945	c.858G>A	c.(856-858)CGG>CGA	p.R286R		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	286	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				CCATGTCCATCCGGTAGGAGC	0.587													19	56	---	---	---	---	PASS	T	143096484	T	T	143096484	2	4	44	1	0	0	0	0	0	0	0	1	5165	842	30	2		2	EPHA1	7	143096484	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	639139	143096484	16042179	437	17524										
CNTNAP2	26047	broad.mit.edu	37	chr7	146829458	146829458	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctcagtcagtttccagtttaGgacatggaaccccaatggtc	9	11	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:146829458G>T	uc003weu.1	+	8	1721	c.1205G>T	c.(1204-1206)AGG>ATG	p.R402M		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	402	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TTCCAGTTTAGGACATGGAAC	0.498										HNSCC(39;0.1)			40	139	---	---	---	---	PASS	T	146829458	T	T	146829458	3	4	44	1	0	0	0	0	1	0	0	0	3647	1000	35	3	1235	3	CNTNAP2	7	146829458	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3732974	146829458	12309205	438	17525										
WDR86	349136	broad.mit.edu	37	chr7	151093209	151093209	+	Missense_Mutation	SNP	C	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaactcccgggacatctgccCcttgtccacactccagaccc							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:151093209C>A	uc003wkb.2	-	3	828	c.379G>T	c.(379-381)GGG>TGG	p.G127W	WDR86_uc003wka.2_Missense_Mutation_p.G85W|WDR86_uc011kvk.1_Missense_Mutation_p.G127W|WDR86_uc003wkc.2_5'UTR	NM_198285	NP_938026	Q86TI4	WDR86_HUMAN	WD repeat domain 86	127	WD 3.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00419)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GACATCTGCCCCTTGTCCACA	0.662													19	50	---	---	---	---	PASS	A	151093209	A	A	151093209	3	1	44	1	0	0	0	0	1	0	0	0	17331	623	22	3	767	3	WDR86	7	151093209	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4263751	151093209	8045454	439	17526	406	2								
WDR86	349136	broad.mit.edu	37	chr7	151093210	151093210	+	Missense_Mutation	SNP	C	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aactcccgggacatctgcccCttgtccacactccagacccg							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:151093210C>A	uc003wkb.2	-	3	827	c.378G>T	c.(376-378)AAG>AAT	p.K126N	WDR86_uc003wka.2_Missense_Mutation_p.K84N|WDR86_uc011kvk.1_Missense_Mutation_p.K126N|WDR86_uc003wkc.2_Translation_Start_Site	NM_198285	NP_938026	Q86TI4	WDR86_HUMAN	WD repeat domain 86	126	WD 3.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00419)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ACATCTGCCCCTTGTCCACAC	0.657													19	50	---	---	---	---	PASS	A	151093210	A	A	151093210	3	1	44	1	0	0	0	0	1	0	0	0	17331	680	24	3	768	3	WDR86	7	151093210	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1	151093210	8045453	440	17527	406	2								
MLL3	58508	broad.mit.edu	37	chr7	151880070	151880070	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attccatacctgtctaaattTccattcctgttcatgttctg	4	11	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:151880070T>A	uc003wla.2	-	35	5473	c.5254A>T	c.(5254-5256)AAA>TAA	p.K1752*	MLL3_uc003wkz.2_Nonsense_Mutation_p.K813*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1752	Gln-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TGTCTAAATTTCCATTCCTGT	0.343			N		medulloblastoma								118	64	---	---	---	---	PASS	A	151880070	A	A	151880070	4	1	44	1	0	0	0	0	0	1	0	0	9622	1792	62	5	9581	5	MLL3	7	151880070	Nonsense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	786860	151880070	7258593	441	17528										
NCAPG2	54892	broad.mit.edu	37	chr7	158464254	158464254	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacagcatgtccacaaaagcTaccctcactttctccgaatt	4	14	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:158464254T>G	uc003wnv.1	-	13	1576	c.1431A>C	c.(1429-1431)GTA>GTC	p.V477V	NCAPG2_uc010lqu.1_Silent_p.V269V|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Silent_p.V477V|NCAPG2_uc011kwe.1_Silent_p.V477V	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	477	HEAT.				cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		CCACAAAAGCTACCCTCACTT	0.448													48	163	---	---	---	---	PASS	G	158464254	G	G	158464254	2	3	44	1	0	0	0	0	0	0	0	1	10208	1509	53	5		5	NCAPG2	7	158464254	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	6584184	158464254	674409	442	17529										
WDR60	55112	broad.mit.edu	37	chr7	158672642	158672642	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcaacgtggatagaaaagagAaatcggcaaaagatgagccc	12	7	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr7:158672642A>G	uc003woe.3	+	5	999	c.841A>G	c.(841-843)AAA>GAA	p.K281E	WDR60_uc010lqv.2_RNA	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	281										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		TAGAAAAGAGAAATCGGCAAA	0.488													29	57	---	---	---	---	PASS	G	158672642	G	G	158672642	3	3	44	1	0	0	0	0	1	0	0	0	17308	247	9	5	859	5	WDR60	7	158672642	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	208388	158672642	466021	443	17530										
CSMD1	64478	broad.mit.edu	37	chr8	3000184	3000184	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cggtagaaaaattcagaaacTgaatatgtgcacctatggaa	9	6	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:3000184T>A	uc011kwk.1	-	41	6437	c.6047A>T	c.(6046-6048)CAG>CTG	p.Q2016L	CSMD1_uc011kwj.1_Missense_Mutation_p.Q1408L|CSMD1_uc010lrg.2_Missense_Mutation_p.Q84L	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2016	Extracellular (Potential).|CUB 12.					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)		ATTCAGAAACTGAATATGTGC	0.368													66	55	---	---	---	---	PASS	A	3000184	A	A	3000184	3	1	44	1	0	0	0	0	1	0	0	0	3944	1580	55	5	4770	5	CSMD1	8	3000184	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08		3000184	143363838	444	17531										
SGK223	157285	broad.mit.edu	37	chr8	8239031	8239031	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgggcttggagtaaggtgagCtgttcacaccttcatcttcc	11	10	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:8239031C>T	uc003wsh.3	-	1	227	c.227G>A	c.(226-228)AGC>AAC	p.S76N		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	76							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GTAAGGTGAGCTGTTCACACC	0.647													26	45	---	---	---	---	PASS	T	8239031	T	T	8239031	3	4	44	1	0	0	0	0	1	0	0	0	14210	797	28	3	4001	3	SGK223	8	8239031	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	5238847	8239031	138124991	445	17532										
AMAC1L2	83650	broad.mit.edu	37	chr8	11189354	11189354	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgctgcagacccccgtgttgCccagtgacctcctgagttgg	12	14	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:11189354C>T	uc003wtp.1	+	1	860	c.739C>T	c.(739-741)CCC>TCC	p.P247S		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	247						integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		CCCCGTGTTGCCCAGTGACCT	0.627													60	62	---	---	---	---	PASS	T	11189354	T	T	11189354	3	4	44	1	0	0	0	0	1	0	0	0	560	739	26	3	741	3	AMAC1L2	8	11189354	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2950323	11189354	135174668	446	17533										
TNFRSF10A	8797	broad.mit.edu	37	chr8	23049437	23049437	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agctctgaccacatcgatctCatttttcgtgaggtccagct	8	12	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:23049437C>T	uc003xda.2	-	10	1242	c.1177G>A	c.(1177-1179)GAG>AAG	p.E393K		NM_003844	NP_003835	O00220	TR10A_HUMAN	tumor necrosis factor receptor superfamily,	393	Cytoplasmic (Potential).|Death.				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors		caspase activator activity|death receptor activity|TRAIL binding|transcription factor binding			central_nervous_system(3)|ovary(2)|skin(1)	6		Prostate(55;0.0421)|Breast(100;0.14)		Colorectal(74;0.016)|COAD - Colon adenocarcinoma(73;0.0646)		ACATCGATCTCATTTTTCGTG	0.522													51	25	---	---	---	---	PASS	T	23049437	T	T	23049437	3	4	44	1	0	0	0	0	1	0	0	0	16277	835	29	2	233	2	TNFRSF10A	8	23049437	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	11860083	23049437	123314585	447	17534										
KCNU1	157855	broad.mit.edu	37	chr8	36703341	36703341	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gccttgttttactgttcagtCtgtcatgatgatgtgttcat	9	7	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:36703341C>T	uc010lvw.2	+	18	1902	c.1815C>T	c.(1813-1815)GTC>GTT	p.V605V	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	605	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		ACTGTTCAGTCTGTCATGATG	0.438													7	16	---	---	---	---	PASS	T	36703341	T	T	36703341	2	4	44	1	0	0	0	0	0	0	0	1	8093	900	32	2		2	KCNU1	8	36703341	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	13653904	36703341	109660681	448	17535										
BRF2	55290	broad.mit.edu	37	chr8	37702059	37702059	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgtctagcagcctgggctctCtgaaagtccctaacttcctg	9	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:37702059C>A	uc003xkk.2	-	4	1319	c.1209G>T	c.(1207-1209)CAG>CAT	p.Q403H		NM_018310	NP_060780	Q9HAW0	BRF2_HUMAN	RNA polymerase III transcription initiation	403					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter|transcription initiation, DNA-dependent	nucleoplasm	protein binding|zinc ion binding				0		Lung NSC(58;0.118)|all_lung(54;0.195)	BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;1.81e-10)			CCTGGGCTCTCTGAAAGTCCC	0.507													4	157	---	---	---	---	PASS	A	37702059	A	A	37702059	3	1	44	1	0	0	0	0	1	0	0	0	1511	912	32	2	54	2	BRF2	8	37702059	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	998718	37702059	108661963	449	17536										
WHSC1L1	54904	broad.mit.edu	37	chr8	38173512	38173512	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttctacatcagttgaggcgCgactccttttctttagaggt	9	9	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:38173512C>T	uc003xli.2	-	10	2422	c.1904G>A	c.(1903-1905)CGC>CAC	p.R635H	WHSC1L1_uc011lbm.1_Missense_Mutation_p.R635H|WHSC1L1_uc010lwe.2_Missense_Mutation_p.R635H	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	635					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			AGTTGAGGCGCGACTCCTTTT	0.403			T	NUP98	AML								61	162	---	---	---	---	PASS	T	38173512	T	T	38173512	3	4	44	1	0	0	0	0	1	0	0	0	17360	768	27	1	2469	1	WHSC1L1	8	38173512	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	471453	38173512	108190510	450	17537										
ADAM2	2515	broad.mit.edu	37	chr8	39646253	39646253	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agttgtatcagaccccatatGattatactgtaaaatattat	5	6	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:39646253G>A	uc003xnj.2	-	8	652	c.577C>T	c.(577-579)CAT>TAT	p.H193Y	ADAM2_uc003xnk.2_Missense_Mutation_p.H174Y|ADAM2_uc011lck.1_Missense_Mutation_p.H193Y|ADAM2_uc003xnl.2_Intron	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	193	Extracellular (Potential).|Peptidase M12B.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		GACCCCATATGATTATACTGt	0.264													8	106	---	---	---	---	PASS	A	39646253	A	A	39646253	3	1	44	1	0	0	0	0	1	0	0	0	241	1290	45	2	1682	2	ADAM2	8	39646253	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1472741	39646253	106717769	451	17538										
ANK1	286	broad.mit.edu	37	chr8	41542170	41542171	+	Frame_Shift_Ins	INS	-	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agcatgttcacgatctcgccINSacggtcaatgctctgcaggg							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:41542170_41542171insA	uc003xok.2	-	37	4512_4513	c.4428_4429insT	c.(4426-4431)CGTGGCfs	p.R1476fs	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Frame_Shift_Ins_p.R792fs|ANK1_uc003xoi.2_Frame_Shift_Ins_p.R1476fs|ANK1_uc003xoj.2_Frame_Shift_Ins_p.R1476fs|ANK1_uc003xol.2_Frame_Shift_Ins_p.R1476fs|ANK1_uc003xom.2_Frame_Shift_Ins_p.R1517fs	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1476_1477	55 kDa regulatory domain.|Death.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			ACGATCTCGCCACGGTCAATGC	0.609													143	103	---	---	---	---		A	41542171	A	A	41542170	7	5	44	1	0	1	1	0	0	0	0	0	620	594	21	0	1566	0	ANK1	8	41542170	Frame_Shift_Ins	INS	-	TCGA-22-5473-01A-01D-1632-08	1895917	41542170	104821852	452	17539										
MCM4	4173	broad.mit.edu	37	chr8	48885504	48885504	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctggtcgcactgtactaccaGagcgaggagcaggcagagga	15	10	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:48885504G>C	uc003xqk.1	+	14	2111	c.2016G>C	c.(2014-2016)CAG>CAC	p.Q672H	MCM4_uc003xql.1_Missense_Mutation_p.Q672H|MCM4_uc011ldi.1_Missense_Mutation_p.Q659H	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	672					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				TGTACTACCAGAGCGAGGAGC	0.552													13	80	---	---	---	---	PASS	C	48885504	C	C	48885504	3	2	44	1	0	0	0	0	1	0	0	0	9389	933	33	2	2066	2	MCM4	8	48885504	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	7343334	48885504	97478518	453	17540										
ATP6V1H	51606	broad.mit.edu	37	chr8	54669176	54669176	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtgagcagcaacagctaagaCttggggatcatctgacactt	11	9	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:54669176C>G	uc003xrl.2	-	12	1368	c.1216G>C	c.(1216-1218)GTC>CTC	p.V406L	ATP6V1H_uc003xrk.2_Missense_Mutation_p.V366L|ATP6V1H_uc003xrm.2_Missense_Mutation_p.V406L|ATP6V1H_uc003xrn.2_Missense_Mutation_p.V388L|ATP6V1H_uc011ldv.1_Missense_Mutation_p.V326L|ATP6V1H_uc010lyd.2_Missense_Mutation_p.V342L	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	406					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)			ACAGCTAAGACTTGGGGATCA	0.373													46	55	---	---	---	---	PASS	G	54669176	G	G	54669176	3	3	44	1	0	0	0	0	1	0	0	0	1189	565	20	4	247	4	ATP6V1H	8	54669176	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	5783672	54669176	91694846	454	17541										
NSMAF	8439	broad.mit.edu	37	chr8	59510037	59510037	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgaggatgtggtgtcacaaaTagttgttttggtgtctgccc	13	7	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:59510037T>C	uc003xtt.2	-	21	1915	c.1701A>G	c.(1699-1701)CTA>CTG	p.L567L	NSMAF_uc011lee.1_Silent_p.L598L	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	567	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)				GTGTCACAAATAGTTGTTTTG	0.428													173	158	---	---	---	---	PASS	C	59510037	C	C	59510037	2	2	44	1	0	0	0	0	0	0	0	1	10674	1393	49	5		5	NSMAF	8	59510037	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	4840861	59510037	86853985	455	17542										
PREX2	80243	broad.mit.edu	37	chr8	69030878	69030878	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cacagtgatgaaatggactcAggtgtgttcgttggtgaagg	15	5	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:69030878A>T	uc003xxv.1	+	27	3447	c.3420A>T	c.(3418-3420)TCA>TCT	p.S1140S		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1140					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						AAATGGACTCAGGTGTGTTCG	0.413													15	116	---	---	---	---	PASS	T	69030878	T	T	69030878	2	4	44	1	0	0	0	0	0	0	0	1	12477	202	7	5		5	PREX2	8	69030878	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	9520841	69030878	77333144	456	17543										
NCOA2	10499	broad.mit.edu	37	chr8	71071771	71071771	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgtaaagatattacaagttGaggttcattagtagtctgag	10	3	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:71071771G>A	uc003xyn.1	-	10	1255	c.1093C>T	c.(1093-1095)CAA>TAA	p.Q365*		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	365					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			ATTACAAGTTGAGGTTCATTA	0.373			T	RUNXBP2	AML								8	439	---	---	---	---	PASS	A	71071771	A	A	71071771	4	1	44	1	0	0	0	0	0	1	0	0	10229	1299	45	2	3357	2	NCOA2	8	71071771	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2040893	71071771	75292251	457	17544										
TRPA1	8989	broad.mit.edu	37	chr8	72970052	72970052	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atcttattaatatctgctccCtaaaaatcaaacaaaccatt	1	10	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:72970052C>A	uc003xza.2	-	9	1169	c.994_splice	c.e9-1	p.G332_splice		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1							integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	TATCTGCTCCCTAAAAATCAA	0.318													42	85	---	---	---	---	PASS	A	72970052	A	A	72970052	5	1	44	1	0	0	0	0	0	0	1	0	16574	695	24	3	2442	3	TRPA1	8	72970052	Splice_Site	SNP	C	TCGA-22-5473-01A-01D-1632-08	1898281	72970052	73393970	458	17545										
C8orf84	157869	broad.mit.edu	37	chr8	73993433	73993433	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tccaggggctccattcccccAcgaagcacgggcgagctgaa	12	15	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:73993433A>T	uc003xzf.2	-	2	435	c.230T>A	c.(229-231)GTG>GAG	p.V77E		NM_153225	NP_694957	Q8IVN8	RPESP_HUMAN	RPE-spondin precursor	77	TSP type-1.				immune response	extracellular region	polysaccharide binding|scavenger receptor activity				0						CCATTCCCCCACGAAGCACGG	0.617													55	133	---	---	---	---	PASS	T	73993433	T	T	73993433	3	4	44	1	0	0	0	0	1	0	0	0	2440	159	6	5	580	5	C8orf84	8	73993433	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1023381	73993433	72370589	459	17546										
JPH1	56704	broad.mit.edu	37	chr8	75227697	75227697	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgggctgtcggcggcggctgCggcgtcgtggagcacgctgc	20	13	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:75227697C>A	uc003yae.2	-	2	578	c.538G>T	c.(538-540)GCA>TCA	p.A180S	JPH1_uc003yaf.2_Missense_Mutation_p.A180S|JPH1_uc003yag.1_Missense_Mutation_p.A44S	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	180	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			GCGGCGGCTGCGGCGTCGTGG	0.706													39	32	---	---	---	---	PASS	A	75227697	A	A	75227697	3	1	44	1	0	0	0	0	1	0	0	0	7960	768	27	1	1463	1	JPH1	8	75227697	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1234264	75227697	71136325	460	17547										
ZFHX4	79776	broad.mit.edu	37	chr8	77616803	77616803	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	actggggcaaatagcaaactCttttctacagcgatgttcct	8	10	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:77616803C>A	uc003yav.2	+	2	867	c.480C>A	c.(478-480)CTC>CTA	p.L160L	ZFHX4_uc003yat.1_Silent_p.L160L|ZFHX4_uc003yau.1_Silent_p.L160L|ZFHX4_uc003yaw.1_Silent_p.L160L	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	160						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATAGCAAACTCTTTTCTACAG	0.478										HNSCC(33;0.089)			8	33	---	---	---	---	PASS	A	77616803	A	A	77616803	2	1	44	1	0	0	0	0	0	0	0	1	17632	900	32	2		2	ZFHX4	8	77616803	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	2389106	77616803	68747219	461	17548										
ZFHX4	79776	broad.mit.edu	37	chr8	77768487	77768487	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttcctccagtccttctcccCggaatgaacggtccatcctc	6	18	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:77768487C>A	uc003yav.2	+	10	9582	c.9195C>A	c.(9193-9195)CCC>CCA	p.P3065P	ZFHX4_uc003yau.1_Silent_p.P3110P|ZFHX4_uc003yaw.1_Silent_p.P3065P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3065	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCCTTCTCCCCGGAATGAACG	0.527										HNSCC(33;0.089)			12	56	---	---	---	---	PASS	A	77768487	A	A	77768487	2	1	44	1	0	0	0	0	0	0	0	1	17632	639	23	1		1	ZFHX4	8	77768487	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	151684	77768487	68595535	462	17549										
ZFHX4	79776	broad.mit.edu	37	chr8	77775711	77775711	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaatgcaattgctggtgaccCagcttcctttataggcggac	11	10	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:77775711C>A	uc003yav.2	+	11	10013	c.9626C>A	c.(9625-9627)CCA>CAA	p.P3209Q		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3205						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GCTGGTGACCCAGCTTCCTTT	0.458										HNSCC(33;0.089)			103	103	---	---	---	---	PASS	A	77775711	A	A	77775711	3	1	44	1	0	0	0	0	1	0	0	0	17632	594	21	3	9799	3	ZFHX4	8	77775711	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	7224	77775711	68588311	463	17550										
CA3	761	broad.mit.edu	37	chr8	86354385	86354385	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttcggatgatcatggctctGagcacaccgtggatggagtc	13	10	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:86354385G>C	uc003ydj.2	+	3	399	c.316G>C	c.(316-318)GAG>CAG	p.E106Q	CA3_uc011lfv.1_Intron	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	106					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0						TCATGGCTCTGAGCACACCGT	0.493													20	118	---	---	---	---	PASS	C	86354385	C	C	86354385	3	2	44	1	0	0	0	0	1	0	0	0	2517	1291	45	2	326	2	CA3	8	86354385	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	8578674	86354385	60009637	464	17551										
MMP16	4325	broad.mit.edu	37	chr8	89180131	89180131	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcagaggagttacattctgcCacacatcaaaggcacggcga	10	11	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:89180131C>G	uc003yeb.3	-	4	758	c.476G>C	c.(475-477)TGG>TCG	p.W159S	MMP16_uc003yec.2_Missense_Mutation_p.W159S	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	159	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						TACATTCTGCCACACATCAAA	0.378													13	69	---	---	---	---	PASS	G	89180131	G	G	89180131	3	3	44	1	0	0	0	0	1	0	0	0	9655	595	21	4	1531	4	MMP16	8	89180131	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2825746	89180131	57183891	465	17552										
OTUD6B	51633	broad.mit.edu	37	chr8	92092907	92092907	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atctctacagaagaatttcaGaagtactgtgaagatattgt	8	5	2	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:92092907G>T	uc003yeu.3	+	5	828	c.729G>T	c.(727-729)CAG>CAT	p.Q243H	OTUD6B_uc011lgh.1_Missense_Mutation_p.Q112H	NM_016023	NP_057107	Q8N6M0	OTU6B_HUMAN	OTU domain containing 6B	213	OTU.									ovary(2)|lung(1)	3			BRCA - Breast invasive adenocarcinoma(11;0.0187)			AAGAATTTCAGAAGTACTGTG	0.338													6	23	---	---	---	---	PASS	T	92092907	T	T	92092907	3	4	44	1	0	0	0	0	1	0	0	0	11317	933	33	2	747	2	OTUD6B	8	92092907	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2912776	92092907	54271115	466	17553										
DPYS	1807	broad.mit.edu	37	chr8	105456623	105456623	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgggcggcacagctcgtggcCctcagggcctgttatcccca	13	15	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:105456623C>A	uc003yly.3	-	4	775	c.646G>T	c.(646-648)GGC>TGC	p.G216C		NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	216					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			AGCTCGTGGCCCTCAGGGCCT	0.527													37	62	---	---	---	---	PASS	A	105456623	A	A	105456623	3	1	44	1	0	0	0	0	1	0	0	0	4746	623	22	3	937	3	DPYS	8	105456623	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	13363716	105456623	40907399	467	17554										
ZFPM2	23414	broad.mit.edu	37	chr8	106815657	106815657	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggttccagccaggctccaaCcagtgggaaatattgccggc	12	12	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:106815657C>A	uc003ymd.2	+	8	3370	c.3347C>A	c.(3346-3348)ACC>AAC	p.T1116N	ZFPM2_uc011lhs.1_Missense_Mutation_p.T847N	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	1116					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			CAGGCTCCAACCAGTGGGAAA	0.433													9	33	---	---	---	---	PASS	A	106815657	A	A	106815657	3	1	44	1	0	0	0	0	1	0	0	0	17655	507	18	3	3377	3	ZFPM2	8	106815657	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1359034	106815657	39548365	468	17555										
PKHD1L1	93035	broad.mit.edu	37	chr8	110457611	110457611	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cccagtagcatctctatcacCaacttctggaagcattggtg	8	12	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:110457611C>A	uc003yne.2	+	38	5617	c.5513C>A	c.(5512-5514)CCA>CAA	p.P1838Q		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1838	Extracellular (Potential).|IPT/TIG 11.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TCTCTATCACCAACTTCTGGA	0.493										HNSCC(38;0.096)			12	39	---	---	---	---	PASS	A	110457611	A	A	110457611	3	1	44	1	0	0	0	0	1	0	0	0	11972	594	21	3	5663	3	PKHD1L1	8	110457611	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3641954	110457611	35906411	469	17556										
CSMD3	114788	broad.mit.edu	37	chr8	113363403	113363403	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctttatagtcttttaacttaCctaaacaaattgggattgga	6	6	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:113363403C>A	uc003ynu.2	-	40	6484	c.6325_splice	c.e40+1	p.A2109_splice	CSMD3_uc003yns.2_Splice_Site_p.A1311_splice|CSMD3_uc003ynt.2_Splice_Site_p.A2069_splice|CSMD3_uc011lhx.1_Splice_Site_p.A2005_splice	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1							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						TTTTAACTTACCTAAACAAAT	0.308										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			21	102	---	---	---	---	PASS	A	113363403	A	A	113363403	5	1	44	1	0	0	0	0	0	0	1	0	3946	521	18	3	4925	3	CSMD3	8	113363403	Splice_Site	SNP	C	TCGA-22-5473-01A-01D-1632-08	2905792	113363403	33000619	470	17557										
CSMD3	114788	broad.mit.edu	37	chr8	113519002	113519002	+	Missense_Mutation	SNP	G	C	C													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctatgcggatatggatgagGgaagtttggtgaaagaataa							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:113519002G>C	uc003ynu.2	-	29	4972	c.4813C>G	c.(4813-4815)CCT>GCT	p.P1605A	CSMD3_uc003yns.2_Missense_Mutation_p.P877A|CSMD3_uc003ynt.2_Missense_Mutation_p.P1565A|CSMD3_uc011lhx.1_Missense_Mutation_p.P1501A	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1605	Extracellular (Potential).|CUB 9.					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						TATGGATGAGGGAAGTTTGGT	0.373										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			18	82	---	---	---	---	PASS	C	113519002	C	C	113519002	3	2	44	1	0	0	0	0	1	0	0	0	3946	1232	43	4	6482	4	CSMD3	8	113519002	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	155599	113519002	32845020	471	17558	407	2								
CSMD3	114788	broad.mit.edu	37	chr8	113519003	113519003	+	Missense_Mutation	SNP	G	T	T													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctatgcggatatggatgaggGaagtttggtgaaagaataaa							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:113519003G>T	uc003ynu.2	-	29	4971	c.4812C>A	c.(4810-4812)TTC>TTA	p.F1604L	CSMD3_uc003yns.2_Missense_Mutation_p.F876L|CSMD3_uc003ynt.2_Missense_Mutation_p.F1564L|CSMD3_uc011lhx.1_Missense_Mutation_p.F1500L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1604	Extracellular (Potential).|CUB 9.					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						ATGGATGAGGGAAGTTTGGTG	0.373										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			18	83	---	---	---	---	PASS	T	113519003	T	T	113519003	3	4	44	1	0	0	0	0	1	0	0	0	3946	1165	41	2	6483	2	CSMD3	8	113519003	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1	113519003	32845019	472	17559	407	2								
CSMD3	114788	broad.mit.edu	37	chr8	113564938	113564938	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgattctcctttaaaacgacCtccacattcagctgataaaa	4	11	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:113564938C>A	uc003ynu.2	-	26	4405	c.4246G>T	c.(4246-4248)GGT>TGT	p.G1416C	CSMD3_uc003yns.2_Missense_Mutation_p.G688C|CSMD3_uc003ynt.2_Missense_Mutation_p.G1376C|CSMD3_uc011lhx.1_Missense_Mutation_p.G1312C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1416	Extracellular (Potential).|CUB 8.					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						TTAAAACGACCTCCACATTCA	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			33	49	---	---	---	---	PASS	A	113564938	A	A	113564938	3	1	44	1	0	0	0	0	1	0	0	0	3946	681	24	3	7061	3	CSMD3	8	113564938	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	45935	113564938	32799084	473	17560										
CSMD3	114788	broad.mit.edu	37	chr8	113871398	113871398	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttgtattcactgctgtgatGacccagacacattgtgcatt	8	9	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:113871398G>A	uc003ynu.2	-	11	1890	c.1731C>T	c.(1729-1731)GTC>GTT	p.V577V	CSMD3_uc003ynt.2_Silent_p.V537V|CSMD3_uc011lhx.1_Silent_p.V473V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	577	Extracellular (Potential).|CUB 3.					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						CTGCTGTGATGACCCAGACAC	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			36	142	---	---	---	---	PASS	A	113871398	A	A	113871398	2	1	44	1	0	0	0	0	0	0	0	1	3946	1277	45	2		2	CSMD3	8	113871398	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	306460	113871398	32492624	474	17561										
SLC30A8	169026	broad.mit.edu	37	chr8	118159212	118159212	+	Missense_Mutation	SNP	C	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtgtggaactccaacagaaaCcggtgaataaagatcagtgt							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:118159212C>A	uc003yoh.2	+	2	321	c.91C>A	c.(91-93)CCG>ACG	p.P31T	SLC30A8_uc010mcz.2_5'UTR|SLC30A8_uc011lia.1_5'UTR|SLC30A8_uc003yog.2_5'UTR	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	31	Cytoplasmic (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			CCAACAGAAACCGGTGAATAA	0.517													33	55	---	---	---	---	PASS	A	118159212	A	A	118159212	3	1	44	1	0	0	0	0	1	0	0	0	14561	507	18	3	97	3	SLC30A8	8	118159212	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4287814	118159212	28204810	475	17562	408	2								
SLC30A8	169026	broad.mit.edu	37	chr8	118159213	118159213	+	Missense_Mutation	SNP	C	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgtggaactccaacagaaacCggtgaataaagatcagtgtc							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:118159213C>A	uc003yoh.2	+	2	322	c.92C>A	c.(91-93)CCG>CAG	p.P31Q	SLC30A8_uc010mcz.2_5'UTR|SLC30A8_uc011lia.1_5'UTR|SLC30A8_uc003yog.2_5'UTR	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	31	Cytoplasmic (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			CAACAGAAACCGGTGAATAAA	0.522													35	55	---	---	---	---	PASS	A	118159213	A	A	118159213	3	1	44	1	0	0	0	0	1	0	0	0	14561	652	23	1	98	1	SLC30A8	8	118159213	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1	118159213	28204809	476	17563	408	2								
C8orf76	84933	broad.mit.edu	37	chr8	124232363	124232363	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctaagccaagatttgtatctCtgtatggaactgattttcaa	7	7	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:124232363C>A	uc003yqc.1	-	6	1154	c.1123G>T	c.(1123-1125)GAG>TAG	p.E375*		NM_032847	NP_116236	Q96K31	CH076_HUMAN	hypothetical protein LOC84933	375							binding			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			ATTTGTATCTCTGTATGGAAC	0.363													31	116	---	---	---	---	PASS	A	124232363	A	A	124232363	4	1	44	1	0	0	0	0	0	1	0	0	2437	922	32	2	23	2	C8orf76	8	124232363	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	6073150	124232363	22131659	477	17564										
FBXO32	114907	broad.mit.edu	37	chr8	124547001	124547001	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcttcttggctgcaacatcaTagttcaggctgttgaaaaga	9	8	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:124547001T>C	uc003yqr.2	-	2	362	c.170A>G	c.(169-171)TAT>TGT	p.Y57C	FBXO32_uc003yqq.2_5'Flank|FBXO32_uc010mdk.2_Missense_Mutation_p.Y57C	NM_058229	NP_478136	Q969P5	FBX32_HUMAN	F-box only protein 32 isoform 1	57										skin(3)|breast(2)|lung(1)	6	Lung NSC(37;1.13e-13)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TGCAACATCATAGTTCAGGCT	0.368													108	97	---	---	---	---	PASS	C	124547001	C	C	124547001	3	2	44	1	0	0	0	0	1	0	0	0	5742	1406	49	5	929	5	FBXO32	8	124547001	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	314638	124547001	21817021	478	17565										
FAM135B	51059	broad.mit.edu	37	chr8	139190802	139190802	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agggtgtggtgttcctgggtGagataagtggtcacttggga	18	4	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:139190802G>A	uc003yuy.2	-	10	1176	c.1005C>T	c.(1003-1005)CTC>CTT	p.L335L	FAM135B_uc003yux.2_Silent_p.L236L|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	335										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)			GTTCCTGGGTGAGATAAGTGG	0.498										HNSCC(54;0.14)			11	61	---	---	---	---	PASS	A	139190802	A	A	139190802	2	1	44	1	0	0	0	0	0	0	0	1	5449	1277	45	2		2	FAM135B	8	139190802	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	14643801	139190802	7173220	479	17566										
KCNK9	51305	broad.mit.edu	37	chr8	140630639	140630639	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcctcgatcttgtaagagatGgagtggaagtagtggggggc	17	5	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:140630639G>T	uc003yvf.1	-	2	1051	c.987C>A	c.(985-987)TCC>TCA	p.S329S	KCNK9_uc003yvg.1_Silent_p.S329S|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	329	Cytoplasmic (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			TGTAAGAGATGGAGTGGAAGT	0.557													37	108	---	---	---	---	PASS	T	140630639	T	T	140630639	2	4	44	1	0	0	0	0	0	0	0	1	8072	1335	47	3		3	KCNK9	8	140630639	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1439837	140630639	5733383	480	17567										
TRAPPC9	83696	broad.mit.edu	37	chr8	141415750	141415750	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaggcagttcttagcacgtcCgatctcagtactggtgtcag	11	10	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:141415750C>T	uc003yvj.2	-	6	1068	c.934G>A	c.(934-936)GGA>AGA	p.G312R	TRAPPC9_uc003yvh.2_Missense_Mutation_p.G410R|TRAPPC9_uc003yvi.1_Missense_Mutation_p.G303R	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	312					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						TTAGCACGTCCGATCTCAGTA	0.398													20	79	---	---	---	---	PASS	T	141415750	T	T	141415750	3	4	44	1	0	0	0	0	1	0	0	0	16462	661	23	1	2584	1	TRAPPC9	8	141415750	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	785111	141415750	4948272	481	17568										
EIF2C2	27161	broad.mit.edu	37	chr8	141559241	141559241	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcgtcttgccgggcaggatGaccaccaccagctgcaggcc	14	15	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:141559241G>C	uc003yvn.2	-	12	1600	c.1560C>G	c.(1558-1560)GTC>GTG	p.V520V	EIF2C2_uc010men.2_Silent_p.V443V|EIF2C2_uc010meo.2_Silent_p.V520V	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	520	Piwi.				mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			CGGGCAGGATGACCACCACCA	0.662													9	43	---	---	---	---	PASS	C	141559241	C	C	141559241	2	2	44	1	0	0	0	0	0	0	0	1	5006	1277	45	2		2	EIF2C2	8	141559241	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	143491	141559241	4804781	482	17569										
BAI1	575	broad.mit.edu	37	chr8	143559588	143559588	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggaatgagtggtcgagctgGagcgcctgctccgccagctg	16	11	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:143559588G>T	uc003ywm.2	+	6	1611	c.1428G>T	c.(1426-1428)TGG>TGT	p.W476C		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	476	Extracellular (Potential).|TSP type-1 4.				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GGTCGAGCTGGAGCGCCTGCT	0.677													4	11	---	---	---	---	PASS	T	143559588	T	T	143559588	3	4	44	1	0	0	0	0	1	0	0	0	1298	1183	41	2	1450	2	BAI1	8	143559588	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2000347	143559588	2804434	483	17570										
ZFP41	286128	broad.mit.edu	37	chr8	144332175	144332175	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acagagccctgcctgagtccTgaagacgaagagcacgtctt	11	12	1	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:144332175T>G	uc003yxw.2	+	2	520	c.162T>G	c.(160-162)CCT>CCG	p.P54P	ZFP41_uc003yxv.2_RNA	NM_173832	NP_776193	Q8N8Y5	ZFP41_HUMAN	zinc finger protein 41 homolog	54					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.6e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			GCCTGAGTCCTGAAGACGAAG	0.547													18	73	---	---	---	---	PASS	G	144332175	G	G	144332175	2	3	44	1	0	0	0	0	0	0	0	1	17646	1567	55	5		5	ZFP41	8	144332175	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	772587	144332175	2031847	484	17571										
TOP1MT	116447	broad.mit.edu	37	chr8	144413411	144413411	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	taccttcatagaagaaacgcActccgtcgggaaggggctcg	12	11	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:144413411A>G	uc003yxz.2	-	2	240	c.221T>C	c.(220-222)GTG>GCG	p.V74A	TOP1MT_uc011lkd.1_5'UTR|TOP1MT_uc011lke.1_5'UTR|TOP1MT_uc010mfb.2_5'UTR|TOP1MT_uc010mfd.1_5'UTR	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	74					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	GAAGAAACGCACTCCGTCGGG	0.637													23	110	---	---	---	---	PASS	G	144413411	G	G	144413411	3	3	44	1	0	0	0	0	1	0	0	0	16361	159	6	5	1636	5	TOP1MT	8	144413411	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	81236	144413411	1950611	485	17572										
GSDMD	79792	broad.mit.edu	37	chr8	144641548	144641548	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tagtccggagagtggtccagGagctggaccatggtggggag	19	7	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:144641548G>A	uc010mfe.2	+	5	746	c.43G>A	c.(43-45)GAG>AAG	p.E15K	uc003yye.2_5'Flank|GSDMD_uc003yyf.2_Missense_Mutation_p.E63K|GSDMD_uc003yyi.2_Missense_Mutation_p.E15K|GSDMD_uc003yyg.2_Missense_Mutation_p.E15K|GSDMD_uc003yyh.2_Missense_Mutation_p.E15K	NM_024736	NP_079012	P57764	GSDMD_HUMAN	gasdermin D	15											0						AGTGGTCCAGGAGCTGGACCA	0.632													36	51	---	---	---	---	PASS	A	144641548	A	A	144641548	3	1	44	1	0	0	0	0	1	0	0	0	6819	1175	41	2	45	2	GSDMD	8	144641548	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	228137	144641548	1722474	486	17573										
ZNF250	58500	broad.mit.edu	37	chr8	146106968	146106968	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gttgaaggcacgcccacactCcccgcactcatagggcttct	9	16	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr8:146106968C>A	uc003zeq.3	-	6	1732	c.1615G>T	c.(1615-1617)GAG>TAG	p.E539*	COMMD5_uc010mgf.2_Intron|ZNF250_uc003zer.3_Nonsense_Mutation_p.E534*|ZNF250_uc010mgg.2_Nonsense_Mutation_p.E534*	NM_021061	NP_066405	P15622	ZN250_HUMAN	zinc finger protein 250 isoform a	539	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;2.53e-38)|OV - Ovarian serous cystadenocarcinoma(54;4.07e-38)|all cancers(56;2.27e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.0654)		CGCCCACACTCCCCGCACTCA	0.557													5	28	---	---	---	---	PASS	A	146106968	A	A	146106968	4	1	44	1	0	0	0	0	0	1	0	0	17792	864	30	2	71	2	ZNF250	8	146106968	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1465420	146106968	257054	487	17574										
KIAA1432	57589	broad.mit.edu	37	chr9	5720617	5720617	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttatttttttcatcagtagGttcattcctgggcttcacag	7	9	4	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:5720617G>A	uc003zji.2	+	5	443	c.350G>A	c.(349-351)GGT>GAT	p.G117D	KIAA1432_uc003zjh.2_Missense_Mutation_p.G117D|KIAA1432_uc003zjl.3_Missense_Mutation_p.G117D|KIAA1432_uc003zjj.1_5'UTR	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	196						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		TCATCAGTAGGTTCATTCCTG	0.343													335	65	---	---	---	---	PASS	A	5720617	A	A	5720617	3	1	44	1	0	0	0	0	1	0	0	0	8233	1261	44	3	368	3	KIAA1432	9	5720617	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08		5720617	135492814	488	17575										
FREM1	158326	broad.mit.edu	37	chr9	14801851	14801851	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gatgatggaagagtccagctCtttcatctgaccctcacaca	8	12	4	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:14801851C>G	uc003zlm.2	-	20	4083	c.3493G>C	c.(3493-3495)GAG>CAG	p.E1165Q	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1165	CSPG 8.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GAGTCCAGCTCTTTCATCTGA	0.473													27	188	---	---	---	---	PASS	G	14801851	G	G	14801851	3	3	44	1	0	0	0	0	1	0	0	0	6044	922	32	2	3168	2	FREM1	9	14801851	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	9081234	14801851	126411580	489	17576										
TTC39B	158219	broad.mit.edu	37	chr9	15177792	15177792	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttcactaagcactcatcatCcacagagaagctgttaaaat	5	11	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:15177792C>A	uc003zlr.1	-	18	1667	c.1546G>T	c.(1546-1548)GAT>TAT	p.D516Y	TTC39B_uc003zlq.1_Missense_Mutation_p.D485Y|TTC39B_uc011lmp.1_Missense_Mutation_p.D417Y|TTC39B_uc010mie.1_Missense_Mutation_p.D514Y|TTC39B_uc011lmq.1_Missense_Mutation_p.D503Y|TTC39B_uc011lmr.1_Missense_Mutation_p.D447Y|TTC39B_uc003zlp.1_Missense_Mutation_p.D99Y	NM_152574	NP_689787	Q5VTQ0	TT39B_HUMAN	tetratricopeptide repeat domain 39B	516							binding			ovary(1)	1						CACTCATCATCCACAGAGAAG	0.303													86	14	---	---	---	---	PASS	A	15177792	A	A	15177792	3	1	44	1	0	0	0	0	1	0	0	0	16705	855	30	2	316	2	TTC39B	9	15177792	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	375941	15177792	126035639	490	17577										
TAF1L	138474	broad.mit.edu	37	chr9	32632175	32632175	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctcccattcacgtgacagctGagagctggttttcttgttct	9	11	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:32632175G>C	uc003zrg.1	-	1	3493	c.3403C>G	c.(3403-3405)CAG>GAG	p.Q1135E	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1135					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding	p.Q1135*(1)		lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CGTGACAGCTGAGAGCTGGTT	0.468													25	99	---	---	---	---	PASS	C	32632175	C	C	32632175	3	2	44	1	0	0	0	0	1	0	0	0	15520	1299	45	2	2081	2	TAF1L	9	32632175	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	17454383	32632175	108581256	491	17578										
TRPM3	80036	broad.mit.edu	37	chr9	73478022	73478022	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggcctatcagacgcccacaGcaacacctataacagaagag	8	13	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:73478022G>A	uc004aid.2	-	3	508	c.264C>T	c.(262-264)TGC>TGT	p.C88C	TRPM3_uc004ahw.2_5'UTR|TRPM3_uc004ahx.2_5'UTR|TRPM3_uc004ahy.2_5'UTR|TRPM3_uc004ahz.2_5'UTR|TRPM3_uc004aia.2_5'UTR|TRPM3_uc004aib.2_5'UTR|TRPM3_uc004aic.2_Silent_p.C88C|TRPM3_uc010mor.2_Silent_p.C88C|TRPM3_uc004aie.2_5'UTR|TRPM3_uc004aif.2_5'UTR|TRPM3_uc004aig.2_5'UTR|TRPM3_uc004aii.2_Silent_p.C90C	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	88	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GACGCCCACAGCAACACCTAT	0.478													21	63	---	---	---	---	PASS	A	73478022	A	A	73478022	2	1	44	1	0	0	0	0	0	0	0	1	16584	963	34	3		3	TRPM3	9	73478022	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	40845847	73478022	67735409	492	17579										
GDA	9615	broad.mit.edu	37	chr9	74810478	74810478	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaagaatggtgcttcaagccGtgtgaaataagagaactgag	12	5	1	4	rs146363148	byFrequency	TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:74810478G>C	uc004aiq.2	+	2	369	c.186G>C	c.(184-186)CCG>CCC	p.P62P	GDA_uc011lse.1_5'UTR|GDA_uc011lsf.1_5'UTR|GDA_uc004air.2_Silent_p.P62P|GDA_uc010mow.1_RNA|GDA_uc004ais.2_Silent_p.P20P|GDA_uc004ait.1_5'UTR	NM_004293	NP_004284	Q9Y2T3	GUAD_HUMAN	guanine deaminase	62					nervous system development|purine base metabolic process|purine nucleotide catabolic process	cytosol	guanine deaminase activity|zinc ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		GCTTCAAGCCGTGTGAAATAA	0.363													14	43	---	---	---	---	PASS	C	74810478	C	C	74810478	2	2	44	1	0	0	0	0	0	0	0	1	6306	1132	40	4		4	GDA	9	74810478	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1332456	74810478	66402953	493	17580										
C9orf40	55071	broad.mit.edu	37	chr9	77567353	77567353	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctctgccatggtccctgcgtCgattttgcgctttcggtgct	11	13	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:77567353C>T	uc004ajo.3	-	1	450	c.175G>A	c.(175-177)GAC>AAC	p.D59N	uc004ajp.2_5'Flank	NM_017998	NP_060468	Q8IXQ3	CI040_HUMAN	hypothetical protein LOC55071	59											0						GTCCCTGCGTCGATTTTGCGC	0.711													6	26	---	---	---	---	PASS	T	77567353	T	T	77567353	3	4	44	1	0	0	0	0	1	0	0	0	2481	884	31	2	417	2	C9orf40	9	77567353	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2756875	77567353	63646078	494	17581										
PRUNE2	158471	broad.mit.edu	37	chr9	79319808	79319808	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaacggactcagggtcttcaCgaatatgcagcacagccagc	10	12	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:79319808C>G	uc010mpk.2	-	8	7506	c.7382G>C	c.(7381-7383)CGT>CCT	p.R2461P	PRUNE2_uc004akj.3_5'Flank|PRUNE2_uc010mpl.1_5'Flank	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	2461					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						AGGGTCTTCACGAATATGCAG	0.473											OREG0019258	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	15	---	---	---	---	PASS	G	79319808	G	G	79319808	3	3	44	1	0	0	0	0	1	0	0	0	12641	536	19	4	1932	4	PRUNE2	9	79319808	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1752455	79319808	61893623	495	17582										
PRUNE2	158471	broad.mit.edu	37	chr9	79465456	79465456	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgatgcaggttaatttcatcCcggaatatgtggaatgattc	10	6	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:79465456C>A	uc010mpk.2	-	3	391	c.267G>T	c.(265-267)CGG>CGT	p.R89R	PRUNE2_uc004akn.2_Silent_p.R89R	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	89					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TAATTTCATCCCGGAATATGT	0.418													44	169	---	---	---	---	PASS	A	79465456	A	A	79465456	2	1	44	1	0	0	0	0	0	0	0	1	12641	610	22	3		3	PRUNE2	9	79465456	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	145648	79465456	61747975	496	17583										
FLJ46321	389763	broad.mit.edu	37	chr9	84606478	84606478	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggtggcagcctcatgccaagGactctttttcctctaatttt	8	11	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:84606478G>T	uc004amn.2	+	4	1140	c.1093G>T	c.(1093-1095)GAC>TAC	p.D365Y		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	365						integral to membrane					0						TCATGCCAAGGACTCTTTTTC	0.498													28	82	---	---	---	---	PASS	T	84606478	T	T	84606478	3	4	44	1	0	0	0	0	1	0	0	0	5932	1174	41	2	1107	2	FLJ46321	9	84606478	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5141022	84606478	56606953	497	17584										
FLJ46321	389763	broad.mit.edu	37	chr9	84607348	84607348	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagacttttgtcctccagctCccaatcctgaattggtcaga	7	12	1	3	rs142037367		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:84607348C>T	uc004amn.2	+	4	2010	c.1963C>T	c.(1963-1965)CCC>TCC	p.P655S		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	655						integral to membrane					0						TCCTCCAGCTCCCAATCCTGA	0.468													61	66	---	---	---	---	PASS	T	84607348	T	T	84607348	3	4	44	1	0	0	0	0	1	0	0	0	5932	855	30	2	1977	2	FLJ46321	9	84607348	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	870	84607348	56606083	498	17585										
FLJ46321	389763	broad.mit.edu	37	chr9	84607883	84607883	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgaaaatgccctgacagtacGtttgagcaagaaatttgagg	11	6	0	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:84607883G>C	uc004amn.2	+	4	2545	c.2498G>C	c.(2497-2499)CGT>CCT	p.R833P		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	833						integral to membrane					0						CTGACAGTACGTTTGAGCAAG	0.448													16	77	---	---	---	---	PASS	C	84607883	C	C	84607883	3	2	44	1	0	0	0	0	1	0	0	0	5932	1145	40	4	2512	4	FLJ46321	9	84607883	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	535	84607883	56605548	499	17586										
C9orf79	286234	broad.mit.edu	37	chr9	90499964	90499964	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgcaagatccgtctcctgccAgcttgtccccaccagctccc	7	19	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:90499964A>T	uc004app.3	+	4	597	c.562A>T	c.(562-564)AGC>TGC	p.S188C	C9orf79_uc004apo.1_Intron	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	188	Pro-rich.					integral to membrane				ovary(3)	3						GTCTCCTGCCAGCTTGTCCCC	0.622													29	122	---	---	---	---	PASS	T	90499964	T	T	90499964	3	4	44	1	0	0	0	0	1	0	0	0	2497	188	7	5	576	5	C9orf79	9	90499964	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	5892081	90499964	50713467	500	17587										
LOC286238	286238	broad.mit.edu	37	chr9	91262462	91262462	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tacataatgagttatcatctCtcctgttttgtagctgatga	7	7	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:91262462C>G	uc010mql.1	-	2	314	c.181G>C	c.(181-183)GAG>CAG	p.E61Q		NM_001100111	NP_001093581			hypothetical protein LOC286238												0						GTTATCATCTCTCCTGTTTTG	0.433													27	135	---	---	---	---	PASS	G	91262462	G	G	91262462	3	3	44	1	0	0	0	0	1	0	0	0	8874	922	32	2	161	2	LOC286238	9	91262462	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	762498	91262462	49950969	501	17588										
TDRD7	23424	broad.mit.edu	37	chr9	100232920	100232920	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacccgaagttttgttcactCtcatttcaagctacaaaatg	5	10	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:100232920C>G	uc004axj.2	+	9	1935	c.1710C>G	c.(1708-1710)CTC>CTG	p.L570L	TDRD7_uc011lux.1_Silent_p.L496L|TDRD7_uc010msp.1_Intron|TDRD7_uc011luy.1_5'UTR	NM_014290	NP_055105	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	570	Tudor 1.				lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)				TTTGTTCACTCTCATTTCAAG	0.323													3	91	---	---	---	---	PASS	G	100232920	G	G	100232920	2	3	44	1	0	0	0	0	0	0	0	1	15732	900	32	2		2	TDRD7	9	100232920	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	8970458	100232920	40980511	502	17589										
OR13D1	286365	broad.mit.edu	37	chr9	107457019	107457019	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attcttggacatctgttacaCatcctcatccattcctccaa	3	14	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:107457019C>G	uc011lvs.1	+	1	317	c.317C>G	c.(316-318)ACA>AGA	p.T106R		NM_001004484	NP_001004484	Q8NGV5	O13D1_HUMAN	olfactory receptor, family 13, subfamily D,	106	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						ATCTGTTACACATCCTCATCC	0.428													205	279	---	---	---	---	PASS	G	107457019	G	G	107457019	3	3	44	1	0	0	0	0	1	0	0	0	10940	478	17	4	319	4	OR13D1	9	107457019	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	7224099	107457019	33756412	503	17590										
ZNF462	58499	broad.mit.edu	37	chr9	109689124	109689124	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aatacagaatcccagaccctGagggagattctgaattcggc	10	10	1	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:109689124G>T	uc004bcz.2	+	3	3220	c.2931G>T	c.(2929-2931)CTG>CTT	p.L977L	ZNF462_uc010mto.2_Silent_p.L825L|ZNF462_uc004bda.2_Silent_p.L825L	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	977					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						CCCAGACCCTGAGGGAGATTC	0.498													9	103	---	---	---	---	PASS	T	109689124	T	T	109689124	2	4	44	1	0	0	0	0	0	0	0	1	17923	1277	45	2		2	ZNF462	9	109689124	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	2232105	109689124	31524307	504	17591										
KIAA0368	23392	broad.mit.edu	37	chr9	114182345	114182345	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atctggaagggatatgatctGagggaaacaccgtactggca	13	7	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:114182345G>C	uc004bfe.1	-	17	2045	c.2045C>G	c.(2044-2046)TCA>TGA	p.S682*	KIAA0368_uc010muc.1_Nonsense_Mutation_p.S504*	NM_001080398	NP_001073867			KIAA0368 protein												0						GATATGATCTGAGGGAAACAC	0.398													25	93	---	---	---	---	PASS	C	114182345	C	C	114182345	4	2	44	1	0	0	0	0	0	1	0	0	8171	1294	45	2	4148	2	KIAA0368	9	114182345	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4493221	114182345	27031086	505	17592										
RGS3	5998	broad.mit.edu	37	chr9	116345834	116345834	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaggagccctctcctggccaGgagcttcctccaggacaaga	11	14	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:116345834G>C	uc004bhq.2	+	21	2351	c.2142G>C	c.(2140-2142)CAG>CAC	p.Q714H	RGS3_uc004bhs.2_Missense_Mutation_p.Q604H|RGS3_uc004bht.2_Missense_Mutation_p.Q433H|RGS3_uc010muy.2_Intron|RGS3_uc004bhv.2_Missense_Mutation_p.Q35H|RGS3_uc010muz.1_Missense_Mutation_p.Q53H|RGS3_uc004bhw.2_Intron|RGS3_uc011lxh.1_Missense_Mutation_p.Q24H|RGS3_uc004bhx.2_Missense_Mutation_p.Q35H|RGS3_uc004bhy.1_Missense_Mutation_p.Q24H|RGS3_uc004bhz.2_Missense_Mutation_p.Q56H	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	714	Pro-rich.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						CTCCTGGCCAGGAGCTTCCTC	0.607													46	66	---	---	---	---	PASS	C	116345834	C	C	116345834	3	2	44	1	0	0	0	0	1	0	0	0	13306	991	35	4	2473	4	RGS3	9	116345834	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2163489	116345834	24867597	506	17593										
PAPPA	5069	broad.mit.edu	37	chr9	119028236	119028236	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcacatacatccatggaagtGggtactgtggcgatggcatt	12	8	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:119028236G>T	uc004bjn.2	+	8	3214	c.2833G>T	c.(2833-2835)GGG>TGG	p.G945W	PAPPA_uc011lxp.1_Missense_Mutation_p.G640W|PAPPA_uc011lxq.1_Missense_Mutation_p.G320W	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	945					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CCATGGAAGTGGGTACTGTGG	0.433													21	52	---	---	---	---	PASS	T	119028236	T	T	119028236	3	4	44	1	0	0	0	0	1	0	0	0	11432	1348	47	3	2863	3	PAPPA	9	119028236	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2682402	119028236	22185195	507	17594										
DBC1	1620	broad.mit.edu	37	chr9	122075479	122075479	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccacaaaggataggtagctcCtggagtggtggaaaggcccc	14	10	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:122075479C>A	uc004bkc.2	-	2	611	c.155G>T	c.(154-156)AGG>ATG	p.R52M	DBC1_uc004bkd.2_Missense_Mutation_p.R52M	NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	52					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						TAGGTAGCTCCTGGAGTGGTG	0.483													21	121	---	---	---	---	PASS	A	122075479	A	A	122075479	3	1	44	1	0	0	0	0	1	0	0	0	4247	681	24	3	2158	3	DBC1	9	122075479	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3047243	122075479	19137952	508	17595										
OR1L3	26735	broad.mit.edu	37	chr9	125437982	125437982	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgaaactgtcctgctcctccAcctttgtcaatgaaattgtg	7	11	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:125437982A>T	uc011lzb.1	+	1	574	c.574A>T	c.(574-576)ACC>TCC	p.T192S		NM_001005234	NP_001005234	Q8NH93	OR1L3_HUMAN	olfactory receptor, family 1, subfamily L,	192	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CTGCTCCTCCACCTTTGTCAA	0.438													156	168	---	---	---	---	PASS	T	125437982	T	T	125437982	3	4	44	1	0	0	0	0	1	0	0	0	10964	159	6	5	576	5	OR1L3	9	125437982	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	3362503	125437982	15775449	509	17596										
PDCL	5082	broad.mit.edu	37	chr9	125589053	125589053	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctcccccagcaacttatcaTcaagggtggtcatggtgtct	9	12	5	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:125589053T>C	uc004bmz.1	-	2	110	c.14A>G	c.(13-15)GAT>GGT	p.D5G	PDCL_uc004bna.2_Missense_Mutation_p.D5G	NM_005388	NP_005379	Q13371	PHLP_HUMAN	phosducin-like	5					signal transduction|visual perception						0						CAACTTATCATCAAGGGTGGT	0.517													41	149	---	---	---	---	PASS	C	125589053	C	C	125589053	3	2	44	1	0	0	0	0	1	0	0	0	11626	1435	50	5	903	5	PDCL	9	125589053	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	151071	125589053	15624378	510	17597										
RC3H2	54542	broad.mit.edu	37	chr9	125655289	125655289	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctagattacttaacttaattGactgatgatctggtacctta	6	7	1	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:125655289G>A	uc010mwc.1	-	3	489	c.248C>T	c.(247-249)TCA>TTA	p.S83L	RC3H2_uc004bnc.2_RNA|RC3H2_uc004bnd.1_Missense_Mutation_p.S83L|RC3H2_uc004bne.3_Missense_Mutation_p.S83L|RC3H2_uc011lzg.1_Missense_Mutation_p.S83L|RC3H2_uc004bng.1_Missense_Mutation_p.S83L	NM_001100588	NP_001094058	Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type zinc finger domains 2	83						cell surface|endomembrane system|membrane|membrane fraction|perinuclear region of cytoplasm	DNA binding|zinc ion binding			ovary(2)|lung(2)	4						TAACTTAATTGACTGATGATC	0.313													16	54	---	---	---	---	PASS	A	125655289	A	A	125655289	3	1	44	1	0	0	0	0	1	0	0	0	13167	1294	45	2	3481	2	RC3H2	9	125655289	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	66236	125655289	15558142	511	17598										
LHX2	9355	broad.mit.edu	37	chr9	126794808	126794808	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcagacagggacgccatcggGcccggcctcggagctctcca	14	16	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:126794808G>T	uc004boe.1	+	5	1782	c.1043G>T	c.(1042-1044)GGC>GTC	p.G348V	LHX2_uc010mwi.1_Missense_Mutation_p.G356V	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	348						nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ACGCCATCGGGCCCGGCCTCG	0.662													19	74	---	---	---	---	PASS	T	126794808	T	T	126794808	3	4	44	1	0	0	0	0	1	0	0	0	8771	1203	42	3	1061	3	LHX2	9	126794808	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1139519	126794808	14418623	512	17599										
PPP6C	5537	broad.mit.edu	37	chr9	127912174	127912174	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agttgatgtgctctgcagatGagttttaagttgttgatatg	12	3	1	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:127912174G>A	uc004bpg.3	-	7	917	c.696C>T	c.(694-696)CTC>CTT	p.L232L	PPP6C_uc010mwv.2_Silent_p.L269L|PPP6C_uc010mww.2_Silent_p.L210L|PPP6C_uc011lzr.1_Silent_p.L85L	NM_002721	NP_002712	O00743	PPP6_HUMAN	protein phosphatase 6, catalytic subunit isoform	232					G1/S transition of mitotic cell cycle|protein dephosphorylation	cytosol	metal ion binding|protein binding|protein serine/threonine phosphatase activity			ovary(1)|skin(1)	2						CTCTGCAGATGAGTTTTAAGT	0.353													17	46	---	---	---	---	PASS	A	127912174	A	A	127912174	2	1	44	1	0	0	0	0	0	0	0	1	12407	1277	45	2		2	PPP6C	9	127912174	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1117366	127912174	13301257	513	17600										
GAPVD1	26130	broad.mit.edu	37	chr9	128117939	128117939	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggagactttcagaaactcacCgcagctgacgataaaactgc	9	11	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:128117939C>T	uc010mwx.2	+	25	4154	c.3828C>T	c.(3826-3828)ACC>ACT	p.T1276T	GAPVD1_uc004bpp.2_Silent_p.T1285T|GAPVD1_uc004bpq.2_Silent_p.T1258T|GAPVD1_uc004bpr.2_Silent_p.T1237T|GAPVD1_uc004bps.2_Silent_p.T1231T|GAPVD1_uc004bpt.2_Silent_p.T291T	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	1276					endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						AGAAACTCACCGCAGCTGACG	0.308													12	49	---	---	---	---	PASS	T	128117939	T	T	128117939	2	4	44	1	0	0	0	0	0	0	0	1	6239	639	23	1		1	GAPVD1	9	128117939	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	205765	128117939	13095492	514	17601										
CCBL1	883	broad.mit.edu	37	chr9	131597858	131597858	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtatcatgtggtcacggcagCgctgcatggcctgcgggaac	15	11	2	0	rs139758426	by1000genomes	TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:131597858C>T	uc004bwh.2	-	10	1129	c.944G>A	c.(943-945)CGC>CAC	p.R315H	CCBL1_uc004bwf.2_Missense_Mutation_p.R349H|CCBL1_uc004bwg.2_RNA|CCBL1_uc010myn.2_Missense_Mutation_p.R315H|CCBL1_uc004bwj.2_Missense_Mutation_p.R265H|CCBL1_uc011mbl.1_Missense_Mutation_p.R409H|CCBL1_uc004bwi.2_RNA|CCBL1_uc010myo.2_Missense_Mutation_p.R272H	NM_004059	NP_004050	Q16773	KAT1_HUMAN	kynurenine aminotransferase I isoform a	315					kynurenine metabolic process|L-phenylalanine catabolic process|tryptophan catabolic process	cytosol|nucleus	1-aminocyclopropane-1-carboxylate synthase activity|cysteine-S-conjugate beta-lyase activity|glutamine-phenylpyruvate transaminase activity|kynurenine-oxoglutarate transaminase activity|L-glutamine:pyruvate aminotransferase activity|L-phenylalanine:pyruvate aminotransferase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)	1					L-Glutamine(DB00130)|Pyridoxal Phosphate(DB00114)	GTCACGGCAGCGCTGCATGGC	0.587													31	89	---	---	---	---	PASS	T	131597858	T	T	131597858	3	4	44	1	0	0	0	0	1	0	0	0	2732	768	27	1	340	1	CCBL1	9	131597858	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3479919	131597858	9615573	515	17602										
SETX	23064	broad.mit.edu	37	chr9	135161823	135161823	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tacttacctctttaattttaGaagcaagttcctgcctttcc	4	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:135161823G>C	uc004cbk.2	-	18	6566	c.6383C>G	c.(6382-6384)TCT>TGT	p.S2128C	SETX_uc004cbj.2_Missense_Mutation_p.S1747C|SETX_uc010mzt.2_Missense_Mutation_p.S1747C	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	2128	Potential.				cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		TTTAATTTTAGAAGCAAGTTC	0.294													13	112	---	---	---	---	PASS	C	135161823	C	C	135161823	3	2	44	1	0	0	0	0	1	0	0	0	14141	942	33	2	1686	2	SETX	9	135161823	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3563965	135161823	6051608	516	17603										
SETX	23064	broad.mit.edu	37	chr9	135202559	135202559	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttctttcaaagctgccatctCtatatgacgtgctgttggat	8	9	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:135202559C>T	uc004cbk.2	-	10	4609	c.4426G>A	c.(4426-4428)GAG>AAG	p.E1476K	SETX_uc004cbj.2_Missense_Mutation_p.E1095K|SETX_uc010mzt.2_Missense_Mutation_p.E1095K	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1476					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		GCTGCCATCTCTATATGACGT	0.413													43	151	---	---	---	---	PASS	T	135202559	T	T	135202559	3	4	44	1	0	0	0	0	1	0	0	0	14141	922	32	2	3675	2	SETX	9	135202559	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	40736	135202559	6010872	517	17604										
GTF3C4	9329	broad.mit.edu	37	chr9	135554533	135554533	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctgttaacaaaaactaccaGgtccaatttgttactctcaa	4	11	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:135554533G>C	uc010mzv.2	+	2	1785	c.1527G>C	c.(1525-1527)CAG>CAC	p.Q509H	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	509					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		AAAACTACCAGGTCCAATTTG	0.483													36	160	---	---	---	---	PASS	C	135554533	C	C	135554533	3	2	44	1	0	0	0	0	1	0	0	0	6875	991	35	4	1533	4	GTF3C4	9	135554533	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	351974	135554533	5658898	518	17605										
SARDH	1757	broad.mit.edu	37	chr9	136577802	136577802	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gatgatccagtgggccagctCctgcccacagccaccaccca	9	18	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:136577802C>G	uc004cep.3	-	10	1401	c.1267G>C	c.(1267-1269)GAG>CAG	p.E423Q	SARDH_uc004ceo.2_Missense_Mutation_p.E423Q|SARDH_uc011mdn.1_Missense_Mutation_p.E423Q|SARDH_uc011mdo.1_Missense_Mutation_p.E255Q	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	423					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		TGGGCCAGCTCCTGCCCACAG	0.637													15	71	---	---	---	---	PASS	G	136577802	G	G	136577802	3	3	44	1	0	0	0	0	1	0	0	0	13841	864	30	2	1537	2	SARDH	9	136577802	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1023269	136577802	4635629	519	17606										
QSOX2	169714	broad.mit.edu	37	chr9	139100962	139100962	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccccctggtctgcggaatacGtgtctaagaggttgtcgcgg	14	11	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:139100962G>A	uc010nbi.2	-	12	1747	c.1709C>T	c.(1708-1710)ACG>ATG	p.T570M		NM_181701	NP_859052	Q6ZRP7	QSOX2_HUMAN	quiescin Q6 sulfhydryl oxidase 2 precursor	570					cell redox homeostasis	extracellular region|integral to membrane|nuclear membrane|plasma membrane	thiol oxidase activity			ovary(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;7.78e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.55e-07)		TGCGGAATACGTGTCTAAGAG	0.577													25	141	---	---	---	---	PASS	A	139100962	A	A	139100962	3	1	44	1	0	0	0	0	1	0	0	0	12884	1145	40	1	391	1	QSOX2	9	139100962	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2523160	139100962	2112469	520	17607										
FAM69B	138311	broad.mit.edu	37	chr9	139616741	139616741	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaattccgggagatgaccctCagcttcctcaaggtcaggca	11	12	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:139616741C>T	uc004cik.2	+	4	565	c.471C>T	c.(469-471)CTC>CTT	p.L157L	FAM69B_uc004cil.2_Silent_p.L70L|SNHG7_uc004cim.2_RNA	NM_152421	NP_689634	Q5VUD6	FA69B_HUMAN	hypothetical protein LOC138311	157	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.03e-05)|Epithelial(140;0.00013)		AGATGACCCTCAGCTTCCTCA	0.662													3	31	---	---	---	---	PASS	T	139616741	T	T	139616741	2	4	44	1	0	0	0	0	0	0	0	1	5603	813	29	2		2	FAM69B	9	139616741	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	515779	139616741	1596690	521	17608										
C9orf86	55684	broad.mit.edu	37	chr9	139717980	139717980	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctcttcccgtccccagtgaAgatagtgatccggggagaca	11	12	1	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:139717980A>T	uc004cji.1	+	2	402	c.134A>T	c.(133-135)AAG>ATG	p.K45M	C9orf86_uc004cjm.2_Missense_Mutation_p.K45M|C9orf86_uc004cjh.2_Missense_Mutation_p.K45M|C9orf86_uc004cjj.1_Missense_Mutation_p.K45M|C9orf86_uc004cjk.1_RNA|C9orf86_uc010nbr.1_Missense_Mutation_p.K45M|C9orf86_uc004cjl.1_RNA|C9orf86_uc010nbs.1_5'Flank	NM_024718	NP_078994	Q3YEC7	PARF_HUMAN	Rab-like GTP-binding protein 1 isoform 1	45	Small GTPase-like.				small GTPase mediated signal transduction	cytoplasm|nucleus	GTP binding|protein binding				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.61e-05)|Epithelial(140;0.000183)		TCCCCAGTGAAGATAGTGATC	0.562													8	44	---	---	---	---	PASS	T	139717980	T	T	139717980	3	4	44	1	0	0	0	0	1	0	0	0	2502	72	3	5	140	5	C9orf86	9	139717980	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	101239	139717980	1495451	522	17609										
C9orf86	55684	broad.mit.edu	37	chr9	139733427	139733427	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gacgatgtggacctcgaagaCcagccacgtgggagtccccc	13	14	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:139733427C>T	uc004cji.1	+	11	1615	c.1347C>T	c.(1345-1347)GAC>GAT	p.D449D	C9orf86_uc004cjj.1_Silent_p.D450D|C9orf86_uc004cjk.1_Intron|C9orf86_uc010nbr.1_Intron|C9orf86_uc004cjl.1_RNA|C9orf86_uc010nbs.1_Silent_p.D334D|C9orf86_uc004cjn.1_Silent_p.D243D	NM_024718	NP_078994	Q3YEC7	PARF_HUMAN	Rab-like GTP-binding protein 1 isoform 1	449					small GTPase mediated signal transduction	cytoplasm|nucleus	GTP binding|protein binding				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.61e-05)|Epithelial(140;0.000183)		ACCTCGAAGACCAGCCACGTG	0.637													4	18	---	---	---	---	PASS	T	139733427	T	T	139733427	2	4	44	1	0	0	0	0	0	0	0	1	2502	506	18	3		3	C9orf86	9	139733427	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	15447	139733427	1480004	523	17610										
MAMDC4	158056	broad.mit.edu	37	chr9	139748318	139748318	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctggggccctggctggcagGagttggcagtgaccacaggc	17	12	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:139748318G>C	uc004cjs.2	+	5	594	c.544G>C	c.(544-546)GAG>CAG	p.E182Q	MAMDC4_uc011mej.1_5'UTR	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	182	Extracellular (Potential).|MAM 1.				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		TGGCTGGCAGGAGTTGGCAGT	0.657													3	58	---	---	---	---	PASS	C	139748318	C	C	139748318	3	2	44	1	0	0	0	0	1	0	0	0	9204	1175	41	2	562	2	MAMDC4	9	139748318	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	14891	139748318	1465113	524	17611										
PNPLA7	375775	broad.mit.edu	37	chr9	140361888	140361888	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtccacagggatgccgcactCcgccaaggccttgagaacgc	12	15	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr9:140361888C>T	uc004cnf.2	-	25	3182	c.2845G>A	c.(2845-2847)GAG>AAG	p.E949K	C9orf167_uc011mew.1_Intron|PNPLA7_uc004cnd.1_Missense_Mutation_p.E215K|PNPLA7_uc004cne.1_Missense_Mutation_p.E215K|PNPLA7_uc011mfa.1_Missense_Mutation_p.E357K|PNPLA7_uc010ncj.1_Missense_Mutation_p.E974K	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	949	Patatin.				lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		ATGCCGCACTCCGCCAAGGCC	0.652													15	66	---	---	---	---	PASS	T	140361888	T	T	140361888	3	4	44	1	0	0	0	0	1	0	0	0	12170	864	30	2	1148	2	PNPLA7	9	140361888	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	613570	140361888	851543	525	17612										
LARP4B	23185	broad.mit.edu	37	chr10	930416	930416	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggtgggatggaacttgtctGagaagtggtttgagatatag	16	2	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:930416G>A	uc001ifs.1	-	2	153	c.112C>T	c.(112-114)CAG>TAG	p.Q38*		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	38							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						GAACTTGTCTGAGAAGTGGTT	0.328													14	102	---	---	---	---	PASS	A	930416	A	A	930416	4	1	44	1	0	0	0	0	0	1	0	0	8631	1299	45	2	2168	2	LARP4B	10	930416	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08		930416	134604331	526	17613										
GATA3	2625	broad.mit.edu	37	chr10	8100519	8100519	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgaaggacgtctccccggacCcatcgctgtccaccccaggc	10	19	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:8100519C>A	uc001ika.2	+	3	1050	c.493C>A	c.(493-495)CCA>ACA	p.P165T	GATA3_uc001ijz.2_Missense_Mutation_p.P165T	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	165					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						CTCCCCGGACCCATCGCTGTC	0.706			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						83	27	---	---	---	---	PASS	A	8100519	A	A	8100519	3	1	44	1	0	0	0	0	1	0	0	0	6255	623	22	3	499	3	GATA3	10	8100519	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	7170103	8100519	127434228	527	17614										
DHTKD1	55526	broad.mit.edu	37	chr10	12148367	12148367	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gatttcttcaatggtgcccaGatcatctttgacacattcat	6	10	5	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:12148367G>T	uc001ild.3	+	11	2118	c.2019G>T	c.(2017-2019)CAG>CAT	p.Q673H		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	673					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			ATGGTGCCCAGATCATCTTTG	0.542													8	325	---	---	---	---	PASS	T	12148367	T	T	12148367	3	4	44	1	0	0	0	0	1	0	0	0	4500	933	33	2	2061	2	DHTKD1	10	12148367	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4047848	12148367	123386380	528	17615										
KIAA1217	56243	broad.mit.edu	37	chr10	24813693	24813693	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacagggcagtgtctatcgaGgtagagtcctatttctgttt	11	7	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:24813693G>A	uc001iru.3	+	13	3301	c.2898G>A	c.(2896-2898)GAG>GAA	p.E966E	KIAA1217_uc001irs.2_Silent_p.E886E|KIAA1217_uc001irt.3_Silent_p.E931E|KIAA1217_uc010qcy.1_Silent_p.E931E|KIAA1217_uc010qcz.1_Silent_p.E931E|KIAA1217_uc001irv.1_Silent_p.E781E|KIAA1217_uc010qda.1_Intron|KIAA1217_uc001irw.2_Silent_p.E649E|KIAA1217_uc001irz.2_Silent_p.E649E|KIAA1217_uc001irx.2_Silent_p.E649E|KIAA1217_uc001iry.2_Silent_p.E649E	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	966	Potential.				embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						TGTCTATCGAGGTAGAGTCCT	0.448													40	18	---	---	---	---	PASS	A	24813693	A	A	24813693	2	1	44	1	0	0	0	0	0	0	0	1	8216	1014	35	3		3	KIAA1217	10	24813693	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	12665326	24813693	110721054	529	17616										
MTPAP	55149	broad.mit.edu	37	chr10	30602839	30602839	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	catttttgcttatgttgagaGaagtttcaaatggattctga	9	4	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:30602839G>A	uc001iva.3	-	9	1511	c.1448C>T	c.(1447-1449)TCT>TTT	p.S483F	MTPAP_uc001ivb.3_Missense_Mutation_p.S613F	NM_018109	NP_060579	Q9NVV4	PAPD1_HUMAN	PAP associated domain containing 1 precursor	483	PAP-associated.				cell death|histone mRNA catabolic process|mRNA polyadenylation|transcription, DNA-dependent	mitochondrion	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|protein homodimerization activity|RNA binding|UTP binding			ovary(1)	1						TATGTTGAGAGAAGTTTCAAA	0.368													5	239	---	---	---	---	PASS	A	30602839	A	A	30602839	3	1	44	1	0	0	0	0	1	0	0	0	9956	942	33	2	304	2	MTPAP	10	30602839	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5789146	30602839	104931908	530	17617										
MTPAP	55149	broad.mit.edu	37	chr10	30615386	30615386	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcaaatcacactgaaatccgGaggcctggtgtgagaacctc	10	11	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:30615386G>A	uc001iva.3	-	5	1022	c.959C>T	c.(958-960)TCC>TTC	p.S320F	MTPAP_uc001ivb.3_Missense_Mutation_p.S450F	NM_018109	NP_060579	Q9NVV4	PAPD1_HUMAN	PAP associated domain containing 1 precursor	320					cell death|histone mRNA catabolic process|mRNA polyadenylation|transcription, DNA-dependent	mitochondrion	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|protein homodimerization activity|RNA binding|UTP binding			ovary(1)	1						CTGAAATCCGGAGGCCTGGTG	0.423													37	225	---	---	---	---	PASS	A	30615386	A	A	30615386	3	1	44	1	0	0	0	0	1	0	0	0	9956	1174	41	2	809	2	MTPAP	10	30615386	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	12547	30615386	104919361	531	17618										
LYZL2	119180	broad.mit.edu	37	chr10	30918578	30918578	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gacttctcagttgagtctgcGgaagaaacactgctccactt	9	11	2	2	rs140215273	byFrequency	TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:30918578G>A	uc001ivk.2	-	1	70	c.57C>T	c.(55-57)TCC>TCT	p.S19S		NM_183058	NP_898881	Q7Z4W2	LYZL2_HUMAN	lysozyme-like 2	Error:Variant_position_missing_in_Q7Z4W2_after_alignment					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Prostate(175;0.151)				TTGAGTCTGCGGAAGAAACAC	0.517													70	30	---	---	---	---	PASS	A	30918578	A	A	30918578	2	1	44	1	0	0	0	0	0	0	0	1	9132	1103	39	1		1	LYZL2	10	30918578	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	303192	30918578	104616169	532	17619										
C10orf68	79741	broad.mit.edu	37	chr10	33103371	33103371	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaattcaagacacgatcaaaGagtctccctggtaagaacaa	8	9	3	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:33103371G>C	uc001iwn.3	+	12	1457	c.984G>C	c.(982-984)AAG>AAC	p.K328N	C10orf68_uc001iwl.1_Intron|C10orf68_uc001iwm.1_Missense_Mutation_p.K304N|C10orf68_uc010qei.1_Missense_Mutation_p.K276N|C10orf68_uc001iwo.3_RNA	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	328										skin(2)|ovary(1)	3						CACGATCAAAGAGTCTCCCTG	0.343													33	233	---	---	---	---	PASS	C	33103371	C	C	33103371	3	2	44	1	0	0	0	0	1	0	0	0	1613	933	33	2	1022	2	C10orf68	10	33103371	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2184793	33103371	102431376	533	17620										
CSGALNACT2	55454	broad.mit.edu	37	chr10	43650712	43650712	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggaatgtgccccccagactGatggaaatgcatctcttcct	9	12	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:43650712G>C	uc001jan.2	+	2	450	c.115G>C	c.(115-117)GAT>CAT	p.D39H	CSGALNACT2_uc001jam.1_Missense_Mutation_p.D39H	NM_018590	NP_061060	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate	39	Lumenal (Potential).				chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process	Golgi cisterna membrane|integral to Golgi membrane	glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding			ovary(1)	1						CCCCCAGACTGATGGAAATGC	0.468													21	160	---	---	---	---	PASS	C	43650712	C	C	43650712	3	2	44	1	0	0	0	0	1	0	0	0	3939	1290	45	2	117	2	CSGALNACT2	10	43650712	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	10547341	43650712	91884035	534	17621										
RASGEF1A	221002	broad.mit.edu	37	chr10	43694588	43694588	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cccgatgttgaagcactcccGggccacatcaatgaagaact	9	13	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:43694588G>A	uc001jap.1	-	8	985	c.904C>T	c.(904-906)CGG>TGG	p.R302W	RASGEF1A_uc001jao.1_Missense_Mutation_p.R310W	NM_145313	NP_660356	Q8N9B8	RGF1A_HUMAN	RasGEF domain family, member 1A	302	Ras-GEF.				cell migration|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						AAGCACTCCCGGGCCACATCA	0.617													42	10	---	---	---	---	PASS	A	43694588	A	A	43694588	3	1	44	1	0	0	0	0	1	0	0	0	13069	1115	39	1	565	1	RASGEF1A	10	43694588	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	43876	43694588	91840159	535	17622										
FAM13C	220965	broad.mit.edu	37	chr10	61112201	61112201	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgctcttctaccagagccccTgcgtcggggtagttctcttt	10	13	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:61112201T>A	uc001jkn.2	-	4	287	c.153A>T	c.(151-153)GCA>GCT	p.A51A	FAM13C_uc001jko.2_Silent_p.A51A|FAM13C_uc010qid.1_5'UTR|FAM13C_uc010qie.1_5'UTR|FAM13C_uc010qif.1_Silent_p.A73A|FAM13C_uc001jkp.2_5'UTR	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	51										ovary(2)	2						CCAGAGCCCCTGCGTCGGGGT	0.502													4	26	---	---	---	---	PASS	A	61112201	A	A	61112201	2	1	44	1	0	0	0	0	0	0	0	1	5454	1567	55	5		5	FAM13C	10	61112201	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	17417613	61112201	74422546	536	17623										
ANK3	288	broad.mit.edu	37	chr10	62023652	62023652	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagggcggcggctttcgtgtCgtcttttcgggccgcgatat	15	11	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:62023652C>T	uc001jky.2	-	6	832	c.640G>A	c.(640-642)GAC>AAC	p.D214N	ANK3_uc010qih.1_Missense_Mutation_p.D197N|ANK3_uc001jkz.3_Missense_Mutation_p.D208N|ANK3_uc001jlb.1_5'UTR	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	214	ANK 5.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GCTTTCGTGTCGTCTTTTCGG	0.547													17	47	---	---	---	---	PASS	T	62023652	T	T	62023652	3	4	44	1	0	0	0	0	1	0	0	0	622	884	31	2	12978	2	ANK3	10	62023652	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	911451	62023652	73511095	537	17624										
ARID5B	84159	broad.mit.edu	37	chr10	63759929	63759929	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgctcgatgctgaaacgcatCcaggataagccatcttccat	8	13	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:63759929C>G	uc001jlt.1	+	4	608	c.582C>G	c.(580-582)ATC>ATG	p.I194M	ARID5B_uc010qil.1_Missense_Mutation_p.I194M	NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	194					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					TGAAACGCATCCAGGATAAGC	0.537													21	50	---	---	---	---	PASS	G	63759929	G	G	63759929	3	3	44	1	0	0	0	0	1	0	0	0	922	845	30	2	596	2	ARID5B	10	63759929	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1736277	63759929	71774818	538	17625										
CTNNA3	29119	broad.mit.edu	37	chr10	68040264	68040264	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaacatctgatatcatgaatTgtatcatagatcttctttga	6	6	5	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:68040264T>C	uc009xpn.1	-	13	1971	c.1848A>G	c.(1846-1848)ACA>ACG	p.T616T	CTNNA3_uc001jmw.2_Silent_p.T616T	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	616					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity	p.T616P(1)		skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						TATCATGAATTGTATCATAGA	0.368													30	76	---	---	---	---	PASS	C	68040264	C	C	68040264	2	2	44	1	0	0	0	0	0	0	0	1	4014	1799	63	5		5	CTNNA3	10	68040264	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	4280335	68040264	67494483	539	17626										
LRRTM3	347731	broad.mit.edu	37	chr10	68686899	68686899	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgctataacagccttcaaaaActtaagtataatcaatttaa	3	8	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:68686899A>C	uc001jmz.1	+	2	775	c.225A>C	c.(223-225)AAA>AAC	p.K75N	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.K75N	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	75	Extracellular (Potential).|LRR 1.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GCCTTCAAAAACTTAAGTATA	0.373													38	110	---	---	---	---	PASS	C	68686899	C	C	68686899	3	2	44	1	0	0	0	0	1	0	0	0	9041	40	2	5	231	5	LRRTM3	10	68686899	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	646635	68686899	66847848	540	17627										
SGPL1	8879	broad.mit.edu	37	chr10	72614558	72614558	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgtgaaagctttaccctccCagggtctgagctcatctgct	9	12	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:72614558C>T	uc001jrm.2	+	5	577	c.355C>T	c.(355-357)CAG>TAG	p.Q119*		NM_003901	NP_003892	O95470	SGPL1_HUMAN	sphingosine-1-phosphate lyase 1	119	Cytoplasmic (Potential).				apoptosis|carboxylic acid metabolic process|ceramide metabolic process|sphingolipid catabolic process	integral to endoplasmic reticulum membrane	carboxy-lyase activity|pyridoxal phosphate binding|sphinganine-1-phosphate aldolase activity				0					Pyridoxal Phosphate(DB00114)	TTTACCCTCCCAGGGTCTGAG	0.413													70	172	---	---	---	---	PASS	T	72614558	T	T	72614558	4	4	44	1	0	0	0	0	0	1	0	0	14218	595	21	3	369	3	SGPL1	10	72614558	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3927659	72614558	62920189	541	17628										
UNC5B	219699	broad.mit.edu	37	chr10	73053268	73053268	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcaccatgccccactgtgccGaagtcagtgcccgtgactgg	11	15	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:73053268G>A	uc001jro.2	+	12	2324	c.1879G>A	c.(1879-1881)GAA>AAA	p.E627K	UNC5B_uc001jrp.2_Missense_Mutation_p.E616K	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	627	Cytoplasmic (Potential).|ZU5.				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						CCACTGTGCCGAAGTCAGTGC	0.637													41	98	---	---	---	---	PASS	A	73053268	A	A	73053268	3	1	44	1	0	0	0	0	1	0	0	0	16989	1059	37	2	1925	2	UNC5B	10	73053268	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	438710	73053268	62481479	542	17629										
CDH23	64072	broad.mit.edu	37	chr10	73544071	73544071	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgtgatctctcctgtggaggGggtgctaagggtccggaagg	18	7	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:73544071G>A	uc001jrx.3	+	40	5773	c.5396G>A	c.(5395-5397)GGG>GAG	p.G1799E		NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1799	Cadherin 17.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CCTGTGGAGGGGGTGCTAAGG	0.622													22	43	---	---	---	---	PASS	A	73544071	A	A	73544071	3	1	44	1	0	0	0	0	1	0	0	0	3108	1232	43	3	5903	3	CDH23	10	73544071	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	490803	73544071	61990676	543	17630										
KCNMA1	3778	broad.mit.edu	37	chr10	78880778	78880778	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaaatttctgaaaactgtatCagtctcagagctcttaaaaa	5	7	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:78880778C>T	uc001jxn.2	-	6	1014	c.837G>A	c.(835-837)CTG>CTA	p.L279L	KCNMA1_uc001jxj.2_Silent_p.L279L|KCNMA1_uc001jxk.1_5'UTR|KCNMA1_uc009xrt.1_Silent_p.L99L|KCNMA1_uc001jxo.2_Silent_p.L279L|KCNMA1_uc001jxm.2_Silent_p.L279L|KCNMA1_uc001jxq.2_Silent_p.L279L	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	279	Helical; Name=Segment S4; (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	AAAACTGTATCAGTCTCAGAG	0.328													11	46	---	---	---	---	PASS	T	78880778	T	T	78880778	2	4	44	1	0	0	0	0	0	0	0	1	8073	813	29	2		2	KCNMA1	10	78880778	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	5336707	78880778	56653969	544	17631										
HECTD2	143279	broad.mit.edu	37	chr10	93252127	93252127	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agctaacccggaaaagagccGatttgaaaaagaagttaaaa	9	6	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:93252127G>T	uc001khl.2	+	13	1418	c.1318G>T	c.(1318-1320)GAT>TAT	p.D440Y	LOC100188947_uc010qnl.1_Intron|HECTD2_uc010qnm.1_Missense_Mutation_p.D444Y|HECTD2_uc001khm.2_RNA|HECTD2_uc009xty.1_Missense_Mutation_p.D29Y|HECTD2_uc001khn.1_Missense_Mutation_p.D90Y	NM_182765	NP_877497	Q5U5R9	HECD2_HUMAN	HECT domain containing 2 isoform a	440	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			skin(1)	1						GAAAAGAGCCGATTTGAAAAA	0.343													41	78	---	---	---	---	PASS	T	93252127	T	T	93252127	3	4	44	1	0	0	0	0	1	0	0	0	7040	1058	37	2	1392	2	HECTD2	10	93252127	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	14371349	93252127	42282620	545	17632										
C10orf12	26148	broad.mit.edu	37	chr10	98744488	98744488	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaaagccagcaaagaaaagcAtgctgatggagccaccaaaa	10	9	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:98744488A>T	uc001kmv.2	+	1	3448	c.3341A>T	c.(3340-3342)CAT>CTT	p.H1114L		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	1114										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		AAAGAAAAGCATGCTGATGGA	0.507													16	44	---	---	---	---	PASS	T	98744488	T	T	98744488	3	4	44	1	0	0	0	0	1	0	0	0	1589	217	8	5	3343	5	C10orf12	10	98744488	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	5492361	98744488	36790259	546	17633										
HPSE2	60495	broad.mit.edu	37	chr10	100503730	100503730	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	actgttccaggagttattggGattacgacgcagtgcattta	11	7	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:100503730G>A	uc001kpn.1	-	4	754	c.694C>T	c.(694-696)CCC>TCC	p.P232S	HPSE2_uc009xwc.1_Missense_Mutation_p.P222S|HPSE2_uc001kpo.1_Intron|HPSE2_uc009xwd.1_Intron	NM_021828	NP_068600	Q8WWQ2	HPSE2_HUMAN	heparanase 2	232					carbohydrate metabolic process	intracellular|membrane	cation binding|heparanase activity			ovary(1)	1				Epithelial(162;1.8e-09)|all cancers(201;4.72e-07)		GAGTTATTGGGATTACGACGC	0.448													29	98	---	---	---	---	PASS	A	100503730	A	A	100503730	3	1	44	1	0	0	0	0	1	0	0	0	7345	1174	41	2	1158	2	HPSE2	10	100503730	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1759242	100503730	35031017	547	17634										
ABCC2	1244	broad.mit.edu	37	chr10	101578643	101578643	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttctagatgaccccctgtctGcagtggatgctcatgtagga	11	10	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:101578643G>T	uc001kqf.2	+	18	2507	c.2368G>T	c.(2368-2370)GCA>TCA	p.A790S		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	790	Cytoplasmic (By similarity).|ABC transporter 1.					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	CCCCCTGTCTGCAGTGGATGC	0.443													25	41	---	---	---	---	PASS	T	101578643	T	T	101578643	3	4	44	1	0	0	0	0	1	0	0	0	53	1319	46	3	2438	3	ABCC2	10	101578643	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1074913	101578643	33956104	548	17635										
CPN1	1369	broad.mit.edu	37	chr10	101835789	101835789	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	actcctcgcacagaaactccGacagctgcagcatcagctcg	8	16	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:101835789G>A	uc001kql.2	-	2	559	c.299C>T	c.(298-300)TCG>TTG	p.S100L		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	100	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		CAGAAACTCCGACAGCTGCAG	0.587													24	68	---	---	---	---	PASS	A	101835789	A	A	101835789	3	1	44	1	0	0	0	0	1	0	0	0	3809	1059	37	2	1109	2	CPN1	10	101835789	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	257146	101835789	33698958	549	17636										
CHUK	1147	broad.mit.edu	37	chr10	101964284	101964284	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tatcccatacgtcatctgctCgctgtatctctccaagtcaa	5	14	4	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:101964284C>A	uc001kqp.2	-	13	1541	c.1486G>T	c.(1486-1488)GAG>TAG	p.E496*		NM_001278	NP_001269	O15111	IKKA_HUMAN	conserved helix-loop-helix ubiquitous kinase	496					I-kappaB phosphorylation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|nucleus	ATP binding|identical protein binding|IkappaB kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|breast(1)	7		Colorectal(252;0.117)		Epithelial(162;2.05e-10)|all cancers(201;1.91e-08)		GTCATCTGCTCGCTGTATCTC	0.383													39	101	---	---	---	---	PASS	A	101964284	A	A	101964284	4	1	44	1	0	0	0	0	0	1	0	0	3416	893	31	2	787	2	CHUK	10	101964284	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	128495	101964284	33570463	550	17637										
FGF8	2253	broad.mit.edu	37	chr10	103531278	103531278	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaggcccgtctcggctcctCggactcgaactctgcttcca	10	16	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:103531278C>T	uc001ktp.1	-	5	523	c.353G>A	c.(352-354)CGA>CAA	p.R118Q	FGF8_uc001ktq.1_Missense_Mutation_p.R129Q|FGF8_uc001ktr.1_Missense_Mutation_p.R100Q|FGF8_uc001kts.1_Missense_Mutation_p.R89Q|FGF8_uc009xwr.1_Missense_Mutation_p.R25Q	NM_033164	NP_149354	P55075	FGF8_HUMAN	fibroblast growth factor 8 isoform E precursor	118					bone development|dopaminergic neuron differentiation|fibroblast growth factor receptor signaling pathway|gastrulation|gonad development|insulin receptor signaling pathway|mesonephros development|metanephros development|negative regulation of cardiac muscle tissue development|neuroepithelial cell differentiation|odontogenesis|positive regulation of cell division|positive regulation of cell proliferation	extracellular region|extracellular space	growth factor activity|growth factor activity|type 1 fibroblast growth factor receptor binding|type 2 fibroblast growth factor receptor binding				0		Colorectal(252;0.122)		Epithelial(162;3.94e-09)|all cancers(201;2.13e-07)		CTCGGCTCCTCGGACTCGAAC	0.602													20	48	---	---	---	---	PASS	T	103531278	T	T	103531278	3	4	44	1	0	0	0	0	1	0	0	0	5858	884	31	2	356	2	FGF8	10	103531278	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1566994	103531278	32003469	551	17638										
MGEA5	10724	broad.mit.edu	37	chr10	103550821	103550821	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acaaagcagtaatccaggctGagggaaagcagccctcctac	10	12	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:103550821G>A	uc001ktv.2	-	14	2729	c.2286C>T	c.(2284-2286)CTC>CTT	p.L762L	MGEA5_uc001ktu.2_RNA|MGEA5_uc010qqe.1_Silent_p.L709L|MGEA5_uc009xws.2_Silent_p.L695L	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	762	Histone acetyltransferase activity (By similarity).|Required for histone H4 binding (By similarity).				glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		AATCCAGGCTGAGGGAAAGCA	0.418													27	61	---	---	---	---	PASS	A	103550821	A	A	103550821	2	1	44	1	0	0	0	0	0	0	0	1	9555	1277	45	2		2	MGEA5	10	103550821	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	19543	103550821	31983926	552	17639										
GBF1	8729	broad.mit.edu	37	chr10	104140380	104140380	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccctctgggagatcacctggGaacgcattgactgttttctc	10	12	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:104140380G>A	uc001kux.1	+	38	5347	c.5107G>A	c.(5107-5109)GAA>AAA	p.E1703K	GBF1_uc001kuy.1_Missense_Mutation_p.E1699K|GBF1_uc001kuz.1_Missense_Mutation_p.E1700K	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1703					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		GATCACCTGGGAACGCATTGA	0.552													11	542	---	---	---	---	PASS	A	104140380	A	A	104140380	3	1	44	1	0	0	0	0	1	0	0	0	6271	1175	41	2	5253	2	GBF1	10	104140380	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	589559	104140380	31394367	553	17640										
SORCS3	22986	broad.mit.edu	37	chr10	107005329	107005329	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	actttggacagcagcatttcCttcacattccttgcagaagg	8	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:107005329C>A	uc001kyi.1	+	21	3125	c.2898C>A	c.(2896-2898)TCC>TCA	p.S966S	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	966	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GCAGCATTTCCTTCACATTCC	0.453													44	117	---	---	---	---	PASS	A	107005329	A	A	107005329	2	1	44	1	0	0	0	0	0	0	0	1	14932	668	24	3		3	SORCS3	10	107005329	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	2864949	107005329	28529418	554	17641										
SORCS3	22986	broad.mit.edu	37	chr10	107006977	107006977	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacattctctctccctgcagAatatttccagtcccagcttt	4	14	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:107006977A>G	uc001kyi.1	+	22	3220	c.2993A>G	c.(2992-2994)GAA>GGA	p.E998G	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	998	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		CTCCCTGCAGAATATTTCCAG	0.453													10	36	---	---	---	---	PASS	G	107006977	G	G	107006977	3	3	44	1	0	0	0	0	1	0	0	0	14932	260	9	5	3079	5	SORCS3	10	107006977	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1648	107006977	28527770	555	17642										
NRAP	4892	broad.mit.edu	37	chr10	115374675	115374675	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagtttatagccaccatctcGaagtttgctccaggattcct	7	12	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:115374675G>A	uc001laj.2	-	28	3273	c.3109C>T	c.(3109-3111)CGA>TGA	p.R1037*	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Nonsense_Mutation_p.R1002*|NRAP_uc001lal.3_Nonsense_Mutation_p.R1037*	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	1037	Nebulin 26.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		CCACCATCTCGAAGTTTGCTC	0.468													24	72	---	---	---	---	PASS	A	115374675	A	A	115374675	4	1	44	1	0	0	0	0	0	1	0	0	10638	1066	37	2	2143	2	NRAP	10	115374675	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	8367698	115374675	20160072	556	17643										
ATRNL1	26033	broad.mit.edu	37	chr10	117075194	117075194	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtgagatggttcttgacacCaatctttgccccaaagaaaa	8	9	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:117075194C>A	uc001lcg.2	+	18	3371	c.2985C>A	c.(2983-2985)ACC>ACA	p.T995T	ATRNL1_uc010qsm.1_Silent_p.T170T|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	995	PSI 5.|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)		TTCTTGACACCAATCTTTGCC	0.408													31	83	---	---	---	---	PASS	A	117075194	A	A	117075194	2	1	44	1	0	0	0	0	0	0	0	1	1207	581	21	3		3	ATRNL1	10	117075194	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1700519	117075194	18459553	557	17644										
PNLIPRP3	119548	broad.mit.edu	37	chr10	118202596	118202596	+	Frame_Shift_Del	DEL	C	-	-													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcggttaattcttcaactatCcaagcctcatattttggaac							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:118202596delC	uc001lcl.3	+	3	335	c.234delC	c.(232-234)ATCfs	p.I78fs		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	78					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		CTTCAACTATCCAAGCCTCAT	0.353													28	17	---	---	---	---		-	118202596	-	-	118202596	7	5	44	1	0	1	0	1	0	0	0	0	12152	845	30	0	244	0	PNLIPRP3	10	118202596	Frame_Shift_Del	DEL	C	TCGA-22-5473-01A-01D-1632-08	1127402	118202596	17332151	558	17645										
PNLIP	5406	broad.mit.edu	37	chr10	118318783	118318783	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atctagacactggtgatgccAgtaattttgcacgtaagttt	9	7	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:118318783A>T	uc001lcm.2	+	10	1091	c.1048A>T	c.(1048-1050)AGT>TGT	p.S350C		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	350					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	TGGTGATGCCAGTAATTTTGC	0.363													22	55	---	---	---	---	PASS	T	118318783	T	T	118318783	3	4	44	1	0	0	0	0	1	0	0	0	12149	188	7	5	1082	5	PNLIP	10	118318783	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	116187	118318783	17215964	559	17646										
PRLHR	2834	broad.mit.edu	37	chr10	120353838	120353838	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaaggcgtaagggtcgatggCgtgggggtcgaggtcccgca	19	8	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:120353838C>G	uc001ldp.1	-	2	1058	c.919G>C	c.(919-921)GCC>CCC	p.A307P		NM_004248	NP_004239	P49683	PRLHR_HUMAN	G protein-coupled receptor 10	307	Extracellular (Potential).				female pregnancy	integral to plasma membrane	neuropeptide Y receptor activity				0		Colorectal(252;0.0429)|Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0166)		GGGTCGATGGCGTGGGGGTCG	0.647													16	46	---	---	---	---	PASS	G	120353838	G	G	120353838	3	3	44	1	0	0	0	0	1	0	0	0	12530	768	27	4	197	4	PRLHR	10	120353838	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2035055	120353838	15180909	560	17647										
WDR11	55717	broad.mit.edu	37	chr10	122618251	122618251	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgggaagatcatcgtctggGatgtagcagcaggagtagct	15	6	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:122618251G>C	uc010qtf.1	+	3	533	c.295G>C	c.(295-297)GAT>CAT	p.D99H	WDR11_uc010qte.1_Intron|WDR11_uc001lfd.1_5'UTR	NM_018117	NP_060587	Q9BZH6	WDR11_HUMAN	bromodomain and WD repeat domain containing 2	99	WD 1.					integral to membrane					0						CATCGTCTGGGATGTAGCAGC	0.463													11	42	---	---	---	---	PASS	C	122618251	C	C	122618251	3	2	44	1	0	0	0	0	1	0	0	0	17270	1174	41	2	305	2	WDR11	10	122618251	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2264413	122618251	12916496	561	17648										
WDR11	55717	broad.mit.edu	37	chr10	122664830	122664830	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggatgcgcttttgtctttcaGagggcgttcagttgctctgc	13	9	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:122664830G>A	uc010qtf.1	+	26	3432	c.3194_splice	c.e26-1	p.E1065_splice	WDR11_uc010qte.1_Splice_Site_p.E667_splice|WDR11_uc001lfd.1_Splice_Site_p.E583_splice|WDR11_uc009xzn.2_Splice_Site_p.E356_splice|uc001lfe.1_5'Flank	NM_018117	NP_060587	Q9BZH6	WDR11_HUMAN	bromodomain and WD repeat domain containing 2							integral to membrane					0						TTGTCTTTCAGAGGGCGTTCA	0.502													36	75	---	---	---	---	PASS	A	122664830	A	A	122664830	5	1	44	1	0	0	0	0	0	0	1	0	17270	956	33	2	3295	2	WDR11	10	122664830	Splice_Site	SNP	G	TCGA-22-5473-01A-01D-1632-08	46579	122664830	12869917	562	17649										
ZRANB1	54764	broad.mit.edu	37	chr10	126660603	126660603	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgacagaacaaatccggagaGagatagctgcctctcttcat	9	10	2	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:126660603G>A	uc001lic.2	+	3	1443	c.1072G>A	c.(1072-1074)GAG>AAG	p.E358K	ZRANB1_uc010qug.1_Missense_Mutation_p.E384K	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	358					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)		AATCCGGAGAGAGATAGCTGC	0.418													44	109	---	---	---	---	PASS	A	126660603	A	A	126660603	3	1	44	1	0	0	0	0	1	0	0	0	18219	943	33	2	1082	2	ZRANB1	10	126660603	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3995773	126660603	8874144	563	17650										
MKI67	4288	broad.mit.edu	37	chr10	129911827	129911827	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtcttaggtgcccaccaaagGacacacgccttcttttcaaa	7	13	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:129911827G>A	uc001lke.2	-	8	1715	c.1520C>T	c.(1519-1521)TCC>TTC	p.S507F	MKI67_uc001lkf.2_Missense_Mutation_p.S147F|MKI67_uc009yav.1_Missense_Mutation_p.S82F|MKI67_uc009yaw.1_Intron	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	507					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				CCCACCAAAGGACACACGCCT	0.418													37	91	---	---	---	---	PASS	A	129911827	A	A	129911827	3	1	44	1	0	0	0	0	1	0	0	0	9598	1174	41	2	8282	2	MKI67	10	129911827	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3251224	129911827	5622920	564	17651										
DPYSL4	10570	broad.mit.edu	37	chr10	134006222	134006222	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	accattgacgcccacggcctGatggtccttcctggtggcgt	12	14	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:134006222G>T	uc009ybb.2	+	3	343	c.189G>T	c.(187-189)CTG>CTT	p.L63L		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	63					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-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;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		CCCACGGCCTGATGGTCCTTC	0.587													37	49	---	---	---	---	PASS	T	134006222	T	T	134006222	2	4	44	1	0	0	0	0	0	0	0	1	4749	1277	45	2		2	DPYSL4	10	134006222	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	4094395	134006222	1528525	565	17652										
KNDC1	85442	broad.mit.edu	37	chr10	134996995	134996995	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gggaccggccggaccttgagGtaagcgaggctgccctgggc	18	12	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr10:134996995G>A	uc001llz.1	+	4	508	c.507_splice	c.e4+1	p.E169_splice	KNDC1_uc001lma.1_Splice_Site_p.E104_splice	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		GGACCTTGAGGTAAGCGAGGC	0.701													8	10	---	---	---	---	PASS	A	134996995	A	A	134996995	5	1	44	1	0	0	0	0	0	0	1	0	8426	1275	44	3	522	3	KNDC1	10	134996995	Splice_Site	SNP	G	TCGA-22-5473-01A-01D-1632-08	990773	134996995	537752	566	17653										
ANO9	338440	broad.mit.edu	37	chr11	428392	428392	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttcagggccacgcacctgttGatctgcggaggagggcaccg	15	12	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:428392G>A	uc001lpi.2	-	14	1273	c.1188C>T	c.(1186-1188)ATC>ATT	p.I396I	ANO9_uc001lph.2_Silent_p.I89I|ANO9_uc010qvv.1_Silent_p.I252I	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	396	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						CGCACCTGTTGATCTGCGGAG	0.672													15	37	---	---	---	---	PASS	A	428392	A	A	428392	2	1	44	1	0	0	0	0	0	0	0	1	704	1280	45	2		2	ANO9	11	428392	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08		428392	134578124	567	17654										
OR52N2	390077	broad.mit.edu	37	chr11	5842405	5842405	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cacatacacatcatcgtggcCaacctttatctgctactgcc	5	15	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:5842405C>A	uc010qzp.1	+	1	840	c.840C>A	c.(838-840)GCC>GCA	p.A280A	TRIM5_uc001mbq.1_Intron	NM_001005174	NP_001005174	Q8NGI0	O52N2_HUMAN	olfactory receptor, family 52, subfamily N,	280	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.49e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCATCGTGGCCAACCTTTATC	0.398													82	42	---	---	---	---	PASS	A	5842405	A	A	5842405	2	1	44	1	0	0	0	0	0	0	0	1	11128	581	21	3		3	OR52N2	11	5842405	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	5414013	5842405	129164111	568	17655										
OR52E6	390078	broad.mit.edu	37	chr11	5862858	5862858	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccaaaagatatttccttgatAttgaaccagaagatgcccag	7	9	0	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:5862858A>G	uc010qzq.1	-	1	270	c.270T>C	c.(268-270)AAT>AAC	p.N90N	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTTCCTTGATATTGAACCAGA	0.473													81	74	---	---	---	---	PASS	G	5862858	G	G	5862858	2	3	44	1	0	0	0	0	0	0	0	1	11117	446	16	5		5	OR52E6	11	5862858	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	20453	5862858	129143658	569	17656										
OR2D3	120775	broad.mit.edu	37	chr11	6942481	6942482	+	Frame_Shift_Ins	INS	-	T	T													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttttcttagaaatctctccINStttgcagatctctgtttctc							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:6942481_6942482insT	uc010rav.1	+	1	249_250	c.249_250insT	c.(247-252)TCCTTTfs	p.S83fs		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	83_84	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GAAATCTCTCCTTTGCAGATCT	0.406													129	59	---	---	---	---		T	6942482	T	T	6942481	7	5	44	1	0	1	1	0	0	0	0	0	10995	668	24	0	251	0	OR2D3	11	6942481	Frame_Shift_Ins	INS	-	TCGA-22-5473-01A-01D-1632-08	1079623	6942481	128064035	570	17657										
NLRP14	338323	broad.mit.edu	37	chr11	7067933	7067933	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttactcactgttggcaagatCtctgttctgtgcttcataca	7	10	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:7067933C>A	uc001mfb.1	+	5	2316	c.1993C>A	c.(1993-1995)CTC>ATC	p.L665I		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	665					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		TTGGCAAGATCTCTGTTCTGT	0.378													55	153	---	---	---	---	PASS	A	7067933	A	A	7067933	3	1	44	1	0	0	0	0	1	0	0	0	10476	913	32	2	2007	2	NLRP14	11	7067933	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	125452	7067933	127938583	571	17658										
RBMXL2	27288	broad.mit.edu	37	chr11	7111393	7111393	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	accgggtgggcagaccagatCgtgggctctctctgtccatg	14	12	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:7111393C>A	uc001mfc.2	+	1	1229	c.1042C>A	c.(1042-1044)CGT>AGT	p.R348S		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	348	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CAGACCAGATCGTGGGCTCTC	0.672													12	20	---	---	---	---	PASS	A	7111393	A	A	7111393	3	1	44	1	0	0	0	0	1	0	0	0	13154	884	31	2	1044	2	RBMXL2	11	7111393	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	43460	7111393	127895123	572	17659										
DENND5A	23258	broad.mit.edu	37	chr11	9167307	9167307	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagatccatgggttggcagtGaacatggagccccccagctt	12	12	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:9167307G>A	uc001mhl.2	-	17	3168	c.2913C>T	c.(2911-2913)TTC>TTT	p.F971F	DENND5A_uc001mhk.2_Silent_p.F314F|DENND5A_uc010rbw.1_Silent_p.F971F|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	971	PLAT.									liver(1)	1						GGTTGGCAGTGAACATGGAGC	0.468													38	370	---	---	---	---	PASS	A	9167307	A	A	9167307	2	1	44	1	0	0	0	0	0	0	0	1	4436	1281	45	2		2	DENND5A	11	9167307	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	2055914	9167307	125839209	573	17660										
SBF2	81846	broad.mit.edu	37	chr11	10052684	10052684	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgaattaaaccagacacttTtgcttcaccttcaatctctt	3	12	3	2	rs139730490		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:10052684T>C	uc001mib.2	-	4	451	c.313A>G	c.(313-315)AAA>GAA	p.K105E	SBF2_uc001mif.3_5'UTR|SBF2_uc001mij.2_RNA	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	105					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		CCAGACACTTTTGCTTCACCT	0.378													126	74	---	---	---	---	PASS	C	10052684	C	C	10052684	3	2	44	1	0	0	0	0	1	0	0	0	13859	1850	64	5	5384	5	SBF2	11	10052684	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	885377	10052684	124953832	574	17661										
SLC6A5	9152	broad.mit.edu	37	chr11	20676280	20676280	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggctgaagttggtgtgctcgCcacagccggactggggccca	16	12	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:20676280C>T	uc001mqd.2	+	16	2533	c.2260C>T	c.(2260-2262)CCA>TCA	p.P754S	SLC6A5_uc009yic.2_Missense_Mutation_p.P519S	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	754	Cytoplasmic (Potential).				synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	GGTGTGCTCGCCACAGCCGGA	0.562													67	57	---	---	---	---	PASS	T	20676280	T	T	20676280	3	4	44	1	0	0	0	0	1	0	0	0	14687	739	26	3	2322	3	SLC6A5	11	20676280	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	10623596	20676280	114330236	575	17662										
NELL1	4745	broad.mit.edu	37	chr11	21556041	21556041	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gacgatgggacctattcactGtccggggagtcctgtattgg	14	9	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:21556041G>C	uc001mqe.2	+	16	1920	c.1767G>C	c.(1765-1767)CTG>CTC	p.L589L	NELL1_uc001mqf.2_Intron|NELL1_uc009yid.2_Silent_p.L617L|NELL1_uc010rdo.1_Silent_p.L532L|NELL1_uc010rdp.1_Intron|NELL1_uc001mqh.2_Missense_Mutation_p.C199S	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	589	EGF-like 5; calcium-binding (Potential).				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						CCTATTCACTGTCCGGGGAGT	0.542													35	37	---	---	---	---	PASS	C	21556041	C	C	21556041	2	2	44	1	0	0	0	0	0	0	0	1	10333	1364	48	4		4	NELL1	11	21556041	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	879761	21556041	113450475	576	17663										
ANO3	63982	broad.mit.edu	37	chr11	26663549	26663549	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgcagcccatgaaccttcatGgactgatggatgagtactta	10	9	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:26663549G>T	uc001mqt.3	+	22	2393	c.2248G>T	c.(2248-2250)GGA>TGA	p.G750*	ANO3_uc010rdr.1_Nonsense_Mutation_p.G734*|ANO3_uc010rds.1_Nonsense_Mutation_p.G589*|ANO3_uc010rdt.1_Nonsense_Mutation_p.G604*	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	750	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GAACCTTCATGGACTGATGGA	0.418													71	32	---	---	---	---	PASS	T	26663549	T	T	26663549	4	4	44	1	0	0	0	0	0	1	0	0	698	1349	47	3	2334	3	ANO3	11	26663549	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5107508	26663549	108342967	577	17664										
SLC5A12	159963	broad.mit.edu	37	chr11	26743234	26743234	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggctgcaaatacaacataatCccaaactgcaaagttcttca	5	11	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:26743234C>T	uc001mra.2	-	1	341	c.28G>A	c.(28-30)GAT>AAT	p.D10N	SLC5A12_uc001mrb.2_Intron|SLC5A12_uc001mrc.3_Missense_Mutation_p.D10N	NM_178498	NP_848593	Q1EHB4	SC5AC_HUMAN	solute carrier family 5 (sodium/glucose	10	Helical; (Potential).				sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(1)|skin(1)	2						ACAACATAATCCCAAACTGCA	0.418													27	104	---	---	---	---	PASS	T	26743234	T	T	26743234	3	4	44	1	0	0	0	0	1	0	0	0	14664	855	30	2	1888	2	SLC5A12	11	26743234	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	79685	26743234	108263282	578	17665										
CCDC73	493860	broad.mit.edu	37	chr11	32674691	32674691	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gattattttcttttagcaccTtcaattctgcctccatttca	3	11	4	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:32674691T>A	uc001mtv.2	-	12	961	c.917A>T	c.(916-918)AAG>ATG	p.K306M	CCDC73_uc001mtw.1_Missense_Mutation_p.K296M	NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	306	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					TTTTAGCACCTTCAATTCTGC	0.264													50	39	---	---	---	---	PASS	A	32674691	A	A	32674691	3	1	44	1	0	0	0	0	1	0	0	0	2846	1609	56	5	2350	5	CCDC73	11	32674691	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	5931457	32674691	102331825	579	17666										
C11orf41	25758	broad.mit.edu	37	chr11	33566887	33566887	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcaaaatggcatccaacctGgagtgtcagatgtccagtaa	11	9	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:33566887G>T	uc001mup.3	+	2	2599	c.2475G>T	c.(2473-2475)CTG>CTT	p.L825L	C11orf41_uc001mun.1_Silent_p.L825L	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	819						integral to membrane				ovary(2)	2						CATCCAACCTGGAGTGTCAGA	0.527													12	9	---	---	---	---	PASS	T	33566887	T	T	33566887	2	4	44	1	0	0	0	0	0	0	0	1	1640	1335	47	3		3	C11orf41	11	33566887	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	892196	33566887	101439629	580	17667										
TRIM44	54765	broad.mit.edu	37	chr11	35747495	35747495	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	actcgggaccaaatgaagatGtttatacagcaggaatttaa	9	6	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:35747495G>A	uc001mwi.2	+	3	1078	c.771G>A	c.(769-771)ATG>ATA	p.M257I		NM_017583	NP_060053	Q96DX7	TRI44_HUMAN	DIPB protein	257						intracellular	protein binding|zinc ion binding			skin(1)	1	all_lung(20;0.0317)|Lung NSC(22;0.0661)|all_epithelial(35;0.115)	all_hematologic(20;0.107)				AAATGAAGATGTTTATACAGC	0.403													37	31	---	---	---	---	PASS	A	35747495	A	A	35747495	3	1	44	1	0	0	0	0	1	0	0	0	16516	1377	48	3	781	3	TRIM44	11	35747495	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2180608	35747495	99259021	581	17668										
LRRC4C	57689	broad.mit.edu	37	chr11	40136617	40136617	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	catttgtgaaatttaacgtaCcatcactgagcacagctatc	6	10	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:40136617C>T	uc001mxa.1	-	2	3190	c.1226G>A	c.(1225-1227)GGT>GAT	p.G409D	LRRC4C_uc001mxc.1_Missense_Mutation_p.G405D|LRRC4C_uc001mxd.1_Missense_Mutation_p.G405D|LRRC4C_uc001mxb.1_Missense_Mutation_p.G405D	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	409	Ig-like C2-type.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				ATTTAACGTACCATCACTGAG	0.458													53	157	---	---	---	---	PASS	T	40136617	T	T	40136617	3	4	44	1	0	0	0	0	1	0	0	0	9008	507	18	3	700	3	LRRC4C	11	40136617	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4389122	40136617	94869899	582	17669										
LRRC4C	57689	broad.mit.edu	37	chr11	40136954	40136954	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccaagggttgtgatgtaaatGtatccgctctagatgatgca	11	7	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:40136954G>T	uc001mxa.1	-	2	2853	c.889C>A	c.(889-891)CAT>AAT	p.H297N	LRRC4C_uc001mxc.1_Missense_Mutation_p.H293N|LRRC4C_uc001mxd.1_Missense_Mutation_p.H293N|LRRC4C_uc001mxb.1_Missense_Mutation_p.H293N	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	297					regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				TGATGTAAATGTATCCGCTCT	0.478													70	70	---	---	---	---	PASS	T	40136954	T	T	40136954	3	4	44	1	0	0	0	0	1	0	0	0	9008	1377	48	3	1037	3	LRRC4C	11	40136954	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	337	40136954	94869562	583	17670										
OR4C6	219432	broad.mit.edu	37	chr11	55432923	55432923	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cactaccatctctctcaaagGctgcctcacccagctgtttg	6	16	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:55432923G>T	uc001nht.3	+	3	546	c.281G>T	c.(280-282)GGC>GTC	p.G94V	OR4C6_uc010rik.1_Missense_Mutation_p.G94V	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TCTCTCAAAGGCTGCCTCACC	0.522													60	53	---	---	---	---	PASS	T	55432923	T	T	55432923	3	4	44	1	0	0	0	0	1	0	0	0	11052	1203	42	3	283	3	OR4C6	11	55432923	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	15295969	55432923	79573593	584	17671										
OR4C6	219432	broad.mit.edu	37	chr11	55433293	55433293	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atcttaattgcgtcctacacGgtcatcctatgctccctgaa	6	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:55433293G>T	uc001nht.3	+	3	916	c.651G>T	c.(649-651)ACG>ACT	p.T217T	OR4C6_uc010rik.1_Silent_p.T217T	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	217	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CGTCCTACACGGTCATCCTAT	0.522													34	88	---	---	---	---	PASS	T	55433293	T	T	55433293	2	4	44	1	0	0	0	0	0	0	0	1	11052	1103	39	1		1	OR4C6	11	55433293	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	370	55433293	79573223	585	17672										
OR5D16	390144	broad.mit.edu	37	chr11	55606570	55606570	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctttgtagtgactgaattaAttctatttgcggtgatggcc	10	7	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:55606570A>T	uc010rio.1	+	1	343	c.343A>T	c.(343-345)ATT>TTT	p.I115F		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				GACTGAATTAATTCTATTTGC	0.438													62	144	---	---	---	---	PASS	T	55606570	T	T	55606570	3	4	44	1	0	0	0	0	1	0	0	0	11156	101	4	5	345	5	OR5D16	11	55606570	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	173277	55606570	79399946	586	17673										
OR10AG1	282770	broad.mit.edu	37	chr11	55735665	55735665	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caagcataagaaaaaaacacAtttgtgtagcacaagcaaac	6	8	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:55735665A>G	uc010rit.1	-	1	275	c.275T>C	c.(274-276)ATG>ACG	p.M92T		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	92	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					AAAAAAACACATTTGTGTAGC	0.403													85	71	---	---	---	---	PASS	G	55735665	G	G	55735665	3	3	44	1	0	0	0	0	1	0	0	0	10897	217	8	5	633	5	OR10AG1	11	55735665	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	129095	55735665	79270851	587	17674										
OR5T2	219464	broad.mit.edu	37	chr11	55999618	55999618	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaatatactttattgataacCtgatttttcccaaacatttt	2	7	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:55999618C>A	uc010rjc.1	-	1	1044	c.1044G>T	c.(1042-1044)CAG>CAT	p.Q348H		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	348	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TATTGATAACCTGATTTTTCC	0.299													48	27	---	---	---	---	PASS	A	55999618	A	A	55999618	3	1	44	1	0	0	0	0	1	0	0	0	11182	680	24	3	34	3	OR5T2	11	55999618	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	263953	55999618	79006898	588	17675										
P2RX3	5024	broad.mit.edu	37	chr11	57117248	57117248	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caggggaaacctccttcccaAcctgacagccagggacatga	10	14	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:57117248A>T	uc001nju.2	+	7	657	c.581A>T	c.(580-582)AAC>ATC	p.N194I		NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3	194	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						CTCCTTCCCAACCTGACAGCC	0.617											OREG0020966	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	18	---	---	---	---	PASS	T	57117248	T	T	57117248	3	4	44	1	0	0	0	0	1	0	0	0	11341	43	2	5	607	5	P2RX3	11	57117248	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1117630	57117248	77889268	589	17676										
MPEG1	219972	broad.mit.edu	37	chr11	58979633	58979633	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagtccagcagaggcggtcaCggcactacgactgctctggc	13	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:58979633C>T	uc001nnu.3	-	1	862	c.706G>A	c.(706-708)GTG>ATG	p.V236M		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	236	MACPF.|Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				GAGGCGGTCACGGCACTACGA	0.542													13	55	---	---	---	---	PASS	T	58979633	T	T	58979633	3	4	44	1	0	0	0	0	1	0	0	0	9723	536	19	1	1448	1	MPEG1	11	58979633	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1862385	58979633	76026883	590	17677										
MPEG1	219972	broad.mit.edu	37	chr11	58980144	58980144	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtcctgcagttggagtaagtCaattccataactcgtcccat	8	11	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:58980144C>G	uc001nnu.3	-	1	351	c.195G>C	c.(193-195)TTG>TTC	p.L65F		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	65	MACPF.|Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				TGGAGTAAGTCAATTCCATAA	0.478													125	76	---	---	---	---	PASS	G	58980144	G	G	58980144	3	3	44	1	0	0	0	0	1	0	0	0	9723	825	29	2	1959	2	MPEG1	11	58980144	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	511	58980144	76026372	591	17678										
AHNAK	79026	broad.mit.edu	37	chr11	62286541	62286541	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tccagatcaggtgcctggagTtcaccctccagtttggggct	12	12	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:62286541T>C	uc001ntl.2	-	5	15648	c.15348A>G	c.(15346-15348)GAA>GAG	p.E5116E	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	5116					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GTGCCTGGAGTTCACCCTCCA	0.483													3	85	---	---	---	---	PASS	C	62286541	C	C	62286541	2	2	44	1	0	0	0	0	0	0	0	1	414	1722	60	5		5	AHNAK	11	62286541	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	3306397	62286541	72719975	592	17679										
NRXN2	9379	broad.mit.edu	37	chr11	64434752	64434752	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atccctctggaagtccacgtGacaccactcgccatcattga	7	15	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:64434752G>A	uc001oar.2	-	10	2207	c.1768C>T	c.(1768-1770)CAC>TAC	p.H590Y	NRXN2_uc001oas.2_Missense_Mutation_p.H559Y|NRXN2_uc001oaq.2_Missense_Mutation_p.H257Y	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						AAGTCCACGTGACACCACTCG	0.602													26	71	---	---	---	---	PASS	A	64434752	A	A	64434752	3	1	44	1	0	0	0	0	1	0	0	0	10666	1290	45	2	3699	2	NRXN2	11	64434752	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2148211	64434752	70571764	593	17680										
ATG2A	23130	broad.mit.edu	37	chr11	64677516	64677516	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcaggggcctctcaccagcAggccggctggaggctcagca	16	14	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:64677516A>C	uc001obx.2	-	13	1974	c.1859T>G	c.(1858-1860)CTG>CGG	p.L620R		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	620							protein binding			ovary(1)|central_nervous_system(1)	2						TCTCACCAGCAGGCCGGCTGG	0.731													23	15	---	---	---	---	PASS	C	64677516	C	C	64677516	3	2	44	1	0	0	0	0	1	0	0	0	1093	188	7	5	4073	5	ATG2A	11	64677516	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	242764	64677516	70329000	594	17681										
DPF2	5977	broad.mit.edu	37	chr11	65107889	65107889	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tactacaaagatgccatggaGcagtgccacaattacaatgc	8	10	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:65107889G>A	uc001odm.2	+	2	78	c.66G>A	c.(64-66)GAG>GAA	p.E22E	DPF2_uc001odn.2_Silent_p.E22E|DPF2_uc010roe.1_Silent_p.E22E	NM_006268	NP_006259	Q92785	REQU_HUMAN	D4, zinc and double PHD fingers family 2	22					apoptosis|induction of apoptosis by extracellular signals|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						ATGCCATGGAGCAGTGCCACA	0.547													65	167	---	---	---	---	PASS	A	65107889	A	A	65107889	2	1	44	1	0	0	0	0	0	0	0	1	4717	962	34	3		3	DPF2	11	65107889	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	430373	65107889	69898627	595	17682										
SLC25A45	283130	broad.mit.edu	37	chr11	65147353	65147353	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctcacggactcatggcggtaAatcttgaccatgcaatcaac	8	12	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:65147353A>G	uc001odp.1	-	3	560	c.138T>C	c.(136-138)ATT>ATC	p.I46I	SLC25A45_uc009yqi.1_Silent_p.I46I|SLC25A45_uc001odq.1_Intron|SLC25A45_uc001odr.1_Silent_p.I46I|SLC25A45_uc001ods.1_Silent_p.I4I|SLC25A45_uc001odt.1_Silent_p.I4I	NM_001077241	NP_001070709	Q8N413	S2545_HUMAN	solute carrier family 25, member 45 isoform b	46	Solcar 1.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0						CATGGCGGTAAATCTTGACCA	0.617													15	46	---	---	---	---	PASS	G	65147353	G	G	65147353	2	3	44	1	0	0	0	0	0	0	0	1	14510	10	1	5		5	SLC25A45	11	65147353	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	39464	65147353	69859163	596	17683										
SPTBN2	6712	broad.mit.edu	37	chr11	66457282	66457282	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caggcctcacccacctcctcGgccgcatagtggctcctggc	10	19	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:66457282G>A	uc001ojd.2	-	28	6015	c.5943C>T	c.(5941-5943)GCC>GCT	p.A1981A	SPTBN2_uc001ojc.1_5'Flank	NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1981	Spectrin 16.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCACCTCCTCGGCCGCATAGT	0.607													36	145	---	---	---	---	PASS	A	66457282	A	A	66457282	2	1	44	1	0	0	0	0	0	0	0	1	15119	1103	39	1		1	SPTBN2	11	66457282	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1309929	66457282	68549234	597	17684										
TBC1D10C	374403	broad.mit.edu	37	chr11	67177104	67177104	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggagcccagaccaccgcggcGgaaaccccagacccgcggca	13	18	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:67177104G>A	uc001ola.2	+	10	1249	c.1220G>A	c.(1219-1221)CGG>CAG	p.R407Q	PPP1CA_uc001okx.1_Intron|TBC1D10C_uc001okz.2_3'UTR|TBC1D10C_uc001olb.2_RNA	NM_198517	NP_940919	Q8IV04	TB10C_HUMAN	TBC1 domain family, member 10C	407	Interaction with calcineurin.					intracellular	Rab GTPase activator activity				0			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			CCACCGCGGCGGAAACCCCAG	0.711													3	7	---	---	---	---	PASS	A	67177104	A	A	67177104	3	1	44	1	0	0	0	0	1	0	0	0	15597	1116	39	1	1254	1	TBC1D10C	11	67177104	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	719822	67177104	67829412	598	17685										
RPS6KB2	6199	broad.mit.edu	37	chr11	67202553	67202553	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctccactcctgccaccgccGccgccctcgaccaccgcccc	6	27	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:67202553G>T	uc001old.2	+	15	1444	c.1362G>T	c.(1360-1362)CCG>CCT	p.P454P	RPS6KB2_uc001olf.2_Silent_p.P254P|RPS6KB2_uc001olg.2_3'UTR|RPS6KB2_uc009yrq.2_3'UTR|RPS6KB2_uc001ole.2_RNA|RPS6KB2_uc001olh.2_RNA|RPS6KB2_uc009yrr.2_Silent_p.P285P	NM_003952	NP_003943	Q9UBS0	KS6B2_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	454	Pro-rich.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of translational initiation|translation	nucleoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|stomach(1)|lung(1)|salivary_gland(1)	7			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			tgccaccgccgccgccctcga	0.458													22	25	---	---	---	---	PASS	T	67202553	T	T	67202553	2	4	44	1	0	0	0	0	0	0	0	1	13657	1074	38	1		1	RPS6KB2	11	67202553	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	25449	67202553	67803963	599	17686										
MRGPRD	116512	broad.mit.edu	37	chr11	68747787	68747787	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacaccaggacagaggccagGaccaccacgaacagccgtgt	11	14	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:68747787G>A	uc010rqf.1	-	1	669	c.669C>T	c.(667-669)GTC>GTT	p.V223V		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	223	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CAGAGGCCAGGACCACCACGA	0.612													9	46	---	---	---	---	PASS	A	68747787	A	A	68747787	2	1	44	1	0	0	0	0	0	0	0	1	9763	1161	41	2		2	MRGPRD	11	68747787	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1545234	68747787	66258729	600	17687										
FAM181B	220382	broad.mit.edu	37	chr11	82443575	82443575	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctggaataggcggtgcggctGtagcccgcgctgtaatcgta	15	10	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:82443575G>T	uc001ozp.2	-	1	1332	c.1197C>A	c.(1195-1197)TAC>TAA	p.Y399*		NM_175885	NP_787081	A6NEQ2	F181B_HUMAN	hypothetical protein LOC220382	399										large_intestine(1)	1						CGGTGCGGCTGTAGCCCGCGC	0.692													12	4	---	---	---	---	PASS	T	82443575	T	T	82443575	4	4	44	1	0	0	0	0	0	1	0	0	5509	1372	48	3	87	3	FAM181B	11	82443575	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	13695788	82443575	52562941	601	17688										
FOLH1B	219595	broad.mit.edu	37	chr11	89424640	89424640	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttttttctgcagtaaaaaaTtttacagaaattgcttccaa	4	7	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:89424640T>A	uc001pda.2	+	12	1516	c.990T>A	c.(988-990)AAT>AAA	p.N330K		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	330					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						CAGTAAAAAATTTTACAGAAA	0.269													27	33	---	---	---	---	PASS	A	89424640	A	A	89424640	3	1	44	1	0	0	0	0	1	0	0	0	5980	1490	52	5	1028	5	FOLH1B	11	89424640	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	6981065	89424640	45581876	602	17689										
MRE11A	4361	broad.mit.edu	37	chr11	94180480	94180480	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttcctttgttggttgctgctGagatgctatcatcagagtca	10	8	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:94180480G>A	uc001peu.2	-	15	1877	c.1688C>T	c.(1687-1689)TCA>TTA	p.S563L	MRE11A_uc001pev.2_Missense_Mutation_p.S563L|MRE11A_uc009ywj.2_Missense_Mutation_p.S566L	NM_005591	NP_005582	P49959	MRE11_HUMAN	meiotic recombination 11 homolog A isoform 1	563					DNA duplex unwinding|double-strand break repair via homologous recombination|double-strand break repair via nonhomologous end joining|negative regulation of DNA endoreduplication|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|sister chromatid cohesion|telomere maintenance via telomerase	Mre11 complex|nucleoplasm	3'-5' exonuclease activity|double-stranded DNA binding|manganese ion binding|protein C-terminus binding|single-stranded DNA specific endodeoxyribonuclease activity			breast(4)|lung(1)	5		Acute lymphoblastic leukemia(157;2.37e-05)|all_hematologic(158;0.00824)				GGTTGCTGCTGAGATGCTATC	0.483								Homologous_recombination	Ataxia-Telangiectasia-Like_Disorder				15	201	---	---	---	---	PASS	A	94180480	A	A	94180480	3	1	44	1	0	0	0	0	1	0	0	0	9759	1294	45	2	462	2	MRE11A	11	94180480	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4755840	94180480	40826036	603	17690										
MAML2	84441	broad.mit.edu	37	chr11	95826149	95826149	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agggcctaggtgtgctcctcTggctttgctgacccaagtca	12	12	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:95826149T>G	uc001pfw.1	-	2	2331	c.1046A>C	c.(1045-1047)CAG>CCG	p.Q349P		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	349					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				TGTGCTCCTCTGGCTTTGCTG	0.502			T	MECT1|CRTC3	salivary gland mucoepidermoid								40	34	---	---	---	---	PASS	G	95826149	G	G	95826149	3	3	44	1	0	0	0	0	1	0	0	0	9206	1580	55	5	2440	5	MAML2	11	95826149	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	1645669	95826149	39180367	604	17691										
KIAA1377	57562	broad.mit.edu	37	chr11	101833366	101833366	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tacctcacaatcctgattcaAaagatgaaaaacaaaaatta	3	8	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:101833366A>G	uc001pgm.2	+	6	1870	c.1600A>G	c.(1600-1602)AAA>GAA	p.K534E	KIAA1377_uc001pgn.2_Missense_Mutation_p.K490E|KIAA1377_uc010run.1_Missense_Mutation_p.K335E|KIAA1377_uc009yxa.1_Missense_Mutation_p.K335E	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	534							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		TCCTGATTCAAAAGATGAAAA	0.299													37	23	---	---	---	---	PASS	G	101833366	G	G	101833366	3	3	44	1	0	0	0	0	1	0	0	0	8227	15	1	5	1622	5	KIAA1377	11	101833366	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	6007217	101833366	33173150	605	17692										
MMP20	9313	broad.mit.edu	37	chr11	102464193	102464193	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tagtattcatctcccacaaaGaaaagggtcttctgtggctc	8	10	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:102464193G>C	uc001phc.2	-	8	1237	c.1224C>G	c.(1222-1224)TTC>TTG	p.F408L		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein	408	Hemopexin-like 3.				proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		CTCCCACAAAGAAAAGGGTCT	0.393													25	67	---	---	---	---	PASS	C	102464193	C	C	102464193	3	2	44	1	0	0	0	0	1	0	0	0	9659	933	33	2	239	2	MMP20	11	102464193	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	630827	102464193	32542323	606	17693										
DYNC2H1	79659	broad.mit.edu	37	chr11	102991224	102991224	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtttctctattttctacctGccagtgaagagaaaatcata	6	8	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:102991224G>T	uc001pho.2	+	7	1192	c.1048G>T	c.(1048-1050)GCC>TCC	p.A350S	DYNC2H1_uc001phn.1_Missense_Mutation_p.A350S|DYNC2H1_uc009yxe.1_Missense_Mutation_p.A350S	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	350	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TTTTCTACCTGCCAGTGAAGA	0.323													151	97	---	---	---	---	PASS	T	102991224	T	T	102991224	3	4	44	1	0	0	0	0	1	0	0	0	4846	1319	46	3	1074	3	DYNC2H1	11	102991224	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	527031	102991224	32015292	607	17694										
DYNC2H1	79659	broad.mit.edu	37	chr11	103025457	103025457	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgtttgaggaatttttgatGaactggcatgacagattaag	11	4	0	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:103025457G>A	uc001pho.2	+	24	3636	c.3492G>A	c.(3490-3492)ATG>ATA	p.M1164I	DYNC2H1_uc001phn.1_Missense_Mutation_p.M1164I|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	1164	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AATTTTTGATGAACTGGCATG	0.294													3	5	---	---	---	---	PASS	A	103025457	A	A	103025457	3	1	44	1	0	0	0	0	1	0	0	0	4846	1290	45	2	3586	2	DYNC2H1	11	103025457	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	34233	103025457	31981059	608	17695										
CASP5	838	broad.mit.edu	37	chr11	104874003	104874003	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atacagagagcacagcacctCatcatgattttttttacaca	5	10	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:104874003C>T	uc010rva.1	-	4	573	c.541G>A	c.(541-543)GAG>AAG	p.E181K	CASP5_uc010ruz.1_Missense_Mutation_p.E194K|CASP5_uc010rvb.1_Missense_Mutation_p.E123K|CASP5_uc010rvc.1_Missense_Mutation_p.E39K|CASP5_uc009yxh.2_Intron|CASP5_uc010rvd.1_Intron	NM_004347	NP_004338	P51878	CASP5_HUMAN	caspase 5 isoform a precursor	181					apoptosis|cellular response to mechanical stimulus|proteolysis|regulation of apoptosis	intracellular	cysteine-type endopeptidase activity|protein binding			ovary(2)|lung(1)	3		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000943)|Epithelial(105;0.0104)|all cancers(92;0.042)		CACAGCACCTCATCATGATTT	0.343													39	102	---	---	---	---	PASS	T	104874003	T	T	104874003	3	4	44	1	0	0	0	0	1	0	0	0	2674	835	29	2	787	2	CASP5	11	104874003	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1848546	104874003	30132513	609	17696										
CARD16	114769	broad.mit.edu	37	chr11	104912298	104912298	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgcctgaagtatatctttcActccactttattattgtatt	4	9	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:104912298A>G	uc001pip.1	-	3	450	c.423T>C	c.(421-423)AGT>AGC	p.S141S	CASP1_uc010rve.1_Intron|CASP1_uc010rvf.1_Intron|CASP1_uc010rvg.1_Intron|CASP1_uc010rvh.1_Intron|CASP1_uc010rvi.1_Intron|CARD16_uc001pio.1_3'UTR	NM_001017534	NP_001017534	Q5EG05	CAR16_HUMAN	caspase-1 dominant-negative inhibitor pseudo-ICE	141					regulation of apoptosis	intracellular	cysteine-type endopeptidase inhibitor activity			skin(1)	1						TATATCTTTCACTCCACTTTA	0.398													38	94	---	---	---	---	PASS	G	104912298	G	G	104912298	2	3	44	1	0	0	0	0	0	0	0	1	2647	156	6	5		5	CARD16	11	104912298	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	38295	104912298	30094218	610	17697										
ATM	472	broad.mit.edu	37	chr11	108098502	108098502	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttatttcctttttattttcaGaaagaagttgagaaatttaa	5	3	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:108098502G>A	uc001pkb.1	+	3	458	c.73_splice	c.e3-1	p.K25_splice	ATM_uc009yxr.1_Splice_Site_p.K25_splice|ATM_uc001pkc.1_Splice_Site_p.K25_splice	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1						cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TTTATTTTCAGAAAGAAGTTG	0.308			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			26	122	---	---	---	---	PASS	A	108098502	A	A	108098502	5	1	44	1	0	0	0	0	0	0	1	0	1109	956	33	2	78	2	ATM	11	108098502	Splice_Site	SNP	G	TCGA-22-5473-01A-01D-1632-08	3186204	108098502	26908014	611	17698										
DDX10	1662	broad.mit.edu	37	chr11	108549060	108549060	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggatctaaaacacgaagctGagaggatcaacaacataaat	8	7	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:108549060G>C	uc001pkm.2	+	5	621	c.556G>C	c.(556-558)GAG>CAG	p.E186Q	DDX10_uc001pkl.1_Missense_Mutation_p.E186Q	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	186	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		ACACGAAGCTGAGAGGATCAA	0.403			T	NUP98	AML*								4	104	---	---	---	---	PASS	C	108549060	C	C	108549060	3	2	44	1	0	0	0	0	1	0	0	0	4342	1291	45	2	574	2	DDX10	11	108549060	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	450558	108549060	26457456	612	17699										
ZW10	9183	broad.mit.edu	37	chr11	113608312	113608312	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acctctagggcagtaattttGccaatgacctcagaaattgc	8	10	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:113608312G>C	uc001poe.2	-	14	2035	c.1998C>G	c.(1996-1998)GGC>GGG	p.G666G	ZW10_uc009yyv.2_RNA	NM_004724	NP_004715	O43264	ZW10_HUMAN	centromere/kinetochore protein zw10	666					cell division|ER to Golgi vesicle-mediated transport|establishment of mitotic spindle orientation|meiosis|mitotic cell cycle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|protein complex assembly|protein localization to kinetochore|protein transport|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|endoplasmic reticulum membrane|kinetochore microtubule|nucleus|spindle pole	centromeric DNA binding|protein binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.84e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000237)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.94e-06)|Epithelial(105;0.000103)|all cancers(92;0.000786)		CAGTAATTTTGCCAATGACCT	0.418													51	141	---	---	---	---	PASS	C	113608312	C	C	113608312	2	2	44	1	0	0	0	0	0	0	0	1	18244	1306	46	4		4	ZW10	11	113608312	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	5059252	113608312	21398204	613	17700										
HTR3A	3359	broad.mit.edu	37	chr11	113857404	113857404	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tactcggtcttcctgatcatCgtttctgacacgctgccggc	9	14	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:113857404C>T	uc010rxb.1	+	7	1121	c.888C>T	c.(886-888)ATC>ATT	p.I296I	HTR3A_uc010rxa.1_Silent_p.I296I|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Silent_p.I275I	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	290	Helical; Name=2; (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	TCCTGATCATCGTTTCTGACA	0.597													32	71	---	---	---	---	PASS	T	113857404	T	T	113857404	2	4	44	1	0	0	0	0	0	0	0	1	7444	874	31	2		2	HTR3A	11	113857404	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	249092	113857404	21149112	614	17701										
FAM55D	54827	broad.mit.edu	37	chr11	114453663	114453663	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gttagtggctttaatgatatCagtggtgttttagggaataa	12	2	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:114453663C>G	uc001ppc.2	-	3	358	c.177G>C	c.(175-177)CTG>CTC	p.L59L	FAM55D_uc001ppd.2_5'UTR	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	59						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		TTAATGATATCAGTGGTGTTT	0.418													8	264	---	---	---	---	PASS	G	114453663	G	G	114453663	2	3	44	1	0	0	0	0	0	0	0	1	5587	813	29	2		2	FAM55D	11	114453663	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	596259	114453663	20552853	615	17702										
SIK3	23387	broad.mit.edu	37	chr11	116729308	116729308	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttggagagaaccccactcctGttgaagggctgtagctgctg	13	10	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:116729308G>A	uc001ppy.2	-	20	2591	c.2555C>T	c.(2554-2556)ACA>ATA	p.T852I	SIK3_uc001ppz.2_Intron|SIK3_uc001pqa.2_Intron|SIK3_uc001ppw.2_Intron|SIK3_uc001ppx.2_Intron|SIK3_uc001pqb.2_Missense_Mutation_p.T155I	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	852	Gln-rich.					cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						CCCCACTCCTGTTGAAGGGCT	0.582													53	102	---	---	---	---	PASS	A	116729308	A	A	116729308	3	1	44	1	0	0	0	0	1	0	0	0	14319	1377	48	3	1252	3	SIK3	11	116729308	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2275645	116729308	18277208	616	17703										
MLL	4297	broad.mit.edu	37	chr11	118376003	118376003	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggacccatgggaggtggtctCacccttaccacaggactaaa	11	12	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:118376003C>G	uc001pta.2	+	27	9410	c.9387C>G	c.(9385-9387)CTC>CTG	p.L3129L	MLL_uc001ptb.2_Silent_p.L3132L	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3129					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GAGGTGGTCTCACCCTTACCA	0.458			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								7	225	---	---	---	---	PASS	G	118376003	G	G	118376003	2	3	44	1	0	0	0	0	0	0	0	1	9620	813	29	2		2	MLL	11	118376003	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1646695	118376003	16630513	617	17704										
NLRX1	79671	broad.mit.edu	37	chr11	119045386	119045386	+	Silent	SNP	G	T	T													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagatgctctcccggaacctGgaggggcaccaccagatagc							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:119045386G>T	uc001pvu.2	+	6	1289	c.1074G>T	c.(1072-1074)CTG>CTT	p.L358L	NLRX1_uc010rzc.1_Silent_p.L180L|NLRX1_uc001pvv.2_Silent_p.L358L|NLRX1_uc001pvw.2_Silent_p.L358L|NLRX1_uc001pvx.2_Silent_p.L358L	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	358	Required for interaction with MAVS.|NACHT.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		CCCGGAACCTGGAGGGGCACC	0.642													78	56	---	---	---	---	PASS	T	119045386	T	T	119045386	2	4	44	1	0	0	0	0	0	0	0	1	10485	1335	47	3		3	NLRX1	11	119045386	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	669383	119045386	15961130	618	17705	409	2								
NLRX1	79671	broad.mit.edu	37	chr11	119045387	119045387	+	Nonsense_Mutation	SNP	G	T	T													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agatgctctcccggaacctgGaggggcaccaccagatagcc							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:119045387G>T	uc001pvu.2	+	6	1290	c.1075G>T	c.(1075-1077)GAG>TAG	p.E359*	NLRX1_uc010rzc.1_Nonsense_Mutation_p.E181*|NLRX1_uc001pvv.2_Nonsense_Mutation_p.E359*|NLRX1_uc001pvw.2_Nonsense_Mutation_p.E359*|NLRX1_uc001pvx.2_Nonsense_Mutation_p.E359*	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	359	Required for interaction with MAVS.|NACHT.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		CCGGAACCTGGAGGGGCACCA	0.637													75	56	---	---	---	---	PASS	T	119045387	T	T	119045387	4	4	44	1	0	0	0	0	0	1	0	0	10485	1175	41	2	1093	2	NLRX1	11	119045387	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1	119045387	15961129	619	17706	409	2								
OAF	220323	broad.mit.edu	37	chr11	120096498	120096498	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtgaggccatggccaagctCcggcaggtaagtgccccacc	13	14	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:120096498C>T	uc001pxb.2	+	2	601	c.360C>T	c.(358-360)CTC>CTT	p.L120L		NM_178507	NP_848602	Q86UD1	OAF_HUMAN	OAF homolog precursor	120											0		Breast(109;0.00663)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)		TGGCCAAGCTCCGGCAGGTAA	0.657													42	107	---	---	---	---	PASS	T	120096498	T	T	120096498	2	4	44	1	0	0	0	0	0	0	0	1	10798	842	30	2		2	OAF	11	120096498	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1051111	120096498	14910018	620	17707										
TECTA	7007	broad.mit.edu	37	chr11	121028649	121028649	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gccaatgcaagtcagacgagGagtgtgcgctgcgcaacggg	16	10	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:121028649G>C	uc010rzo.1	+	13	4405	c.4405G>C	c.(4405-4407)GAG>CAG	p.E1469Q		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1469					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GTCAGACGAGGAGTGTGCGCT	0.662													4	80	---	---	---	---	PASS	C	121028649	C	C	121028649	3	2	44	1	0	0	0	0	1	0	0	0	15744	1175	41	2	4455	2	TECTA	11	121028649	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	932151	121028649	13977867	621	17708										
OR10G8	219869	broad.mit.edu	37	chr11	123900989	123900989	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtgctgtcctatgtgtccatCgtctgttccatcctgcggat	10	12	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:123900989C>G	uc001pzp.1	+	1	660	c.660C>G	c.(658-660)ATC>ATG	p.I220M		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		ATGTGTCCATCGTCTGTTCCA	0.542													33	91	---	---	---	---	PASS	G	123900989	G	G	123900989	3	3	44	1	0	0	0	0	1	0	0	0	10903	874	31	2	662	2	OR10G8	11	123900989	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2872340	123900989	11105527	622	17709										
OR8B4	283162	broad.mit.edu	37	chr11	124294594	124294594	+	Silent	SNP	G	T	T													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgaagaggaaaaagtacatGggggtgtgaaggctaggatt							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:124294594G>T	uc010sak.1	-	1	174	c.174C>A	c.(172-174)CCC>CCA	p.P58P		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		AAAAGTACATGGGGGTGTGAA	0.408													20	45	---	---	---	---	PASS	T	124294594	T	T	124294594	2	4	44	1	0	0	0	0	0	0	0	1	11229	1335	47	3		3	OR8B4	11	124294594	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	393605	124294594	10711922	623	17710	410	2								
OR8B4	283162	broad.mit.edu	37	chr11	124294596	124294596	+	Missense_Mutation	SNP	G	C	C													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaagaggaaaaagtacatggGggtgtgaaggctaggattta							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:124294596G>C	uc010sak.1	-	1	172	c.172C>G	c.(172-174)CCC>GCC	p.P58A		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		AAGTACATGGGGGTGTGAAGG	0.413													20	45	---	---	---	---	PASS	C	124294596	C	C	124294596	3	2	44	1	0	0	0	0	1	0	0	0	11229	1232	43	4	759	4	OR8B4	11	124294596	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2	124294596	10711920	624	17711	410	2								
BARX2	8538	broad.mit.edu	37	chr11	129321282	129321282	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccaataccctcttcggaaccCccaccattaagctaaagtaa	4	15	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:129321282C>A	uc001qfc.3	+	4	875	c.825C>A	c.(823-825)CCC>CCA	p.P275P		NM_003658	NP_003649	Q9UMQ3	BARX2_HUMAN	BarH-like homeobox 2	275											0	all_hematologic(175;0.0749)	Lung NSC(97;0.000383)|all_lung(97;0.000824)|Breast(109;0.000962)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.00929)|Lung(977;0.0245)|LUSC - Lung squamous cell carcinoma(976;0.0253)		CTTCGGAACCCCCACCATTAA	0.537													34	23	---	---	---	---	PASS	A	129321282	A	A	129321282	2	1	44	1	0	0	0	0	0	0	0	1	1316	610	22	3		3	BARX2	11	129321282	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	5026686	129321282	5685234	625	17712										
ST14	6768	broad.mit.edu	37	chr11	130064581	130064581	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caggggacattcaacagcccCtactacccaggccactaccc	7	18	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr11:130064581C>T	uc001qfw.2	+	9	1255	c.1062C>T	c.(1060-1062)CCC>CCT	p.P354P	ST14_uc010sca.1_Silent_p.P164P	NM_021978	NP_068813	Q9Y5Y6	ST14_HUMAN	matriptase	354	CUB 2.|Extracellular (Potential).				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(2)|skin(2)|central_nervous_system(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000602)|Breast(109;0.000962)|all_lung(97;0.00126)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0183)|Lung(977;0.228)	Urokinase(DB00013)	TCAACAGCCCCTACTACCCAG	0.507													40	28	---	---	---	---	PASS	T	130064581	T	T	130064581	2	4	44	1	0	0	0	0	0	0	0	1	15210	668	24	3		3	ST14	11	130064581	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	743299	130064581	4941935	626	17713										
SLC6A13	6540	broad.mit.edu	37	chr12	332341	332341	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gactcgaagatggccacgaaCaggaggcacatgccactggc	13	12	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:332341C>A	uc001qic.1	-	12	1424	c.1371G>T	c.(1369-1371)CTG>CTT	p.L457L	SLC6A13_uc009zdj.1_Silent_p.L447L|SLC6A13_uc010sdl.1_Silent_p.L365L	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	457	Helical; Name=10; (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			TGGCCACGAACAGGAGGCACA	0.522													27	25	---	---	---	---	PASS	A	332341	A	A	332341	2	1	44	1	0	0	0	0	0	0	0	1	14676	465	17	3		3	SLC6A13	12	332341	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08		332341	133519554	627	17714										
CACNA2D4	93589	broad.mit.edu	37	chr12	1949924	1949924	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctgcagcaatggctgtcctCttgtccacggtcaccgccac	9	17	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:1949924C>G	uc001qjp.2	-	26	2763	c.2532G>C	c.(2530-2532)AAG>AAC	p.K844N	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Missense_Mutation_p.K708N|CACNA2D4_uc009zdr.1_RNA	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	844	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		TGGCTGTCCTCTTGTCCACGG	0.582													18	150	---	---	---	---	PASS	G	1949924	G	G	1949924	3	3	44	1	0	0	0	0	1	0	0	0	2551	912	32	2	933	2	CACNA2D4	12	1949924	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1617583	1949924	131901971	628	17715										
CD163	9332	broad.mit.edu	37	chr12	7640016	7640016	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaagcacctagagcagttacAggacaatctcccatgtgctg	10	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:7640016A>G	uc001qsz.3	-	8	2117	c.1989T>C	c.(1987-1989)CCT>CCC	p.P663P	CD163_uc001qta.3_Silent_p.P663P|CD163_uc009zfw.2_Silent_p.P696P	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	663	SRCR 6.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						GAGCAGTTACAGGACAATCTC	0.498													62	48	---	---	---	---	PASS	G	7640016	G	G	7640016	2	3	44	1	0	0	0	0	0	0	0	1	2967	175	7	5		5	CD163	12	7640016	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	5690092	7640016	126211879	629	17716										
CLEC4C	170482	broad.mit.edu	37	chr12	7882195	7882195	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagggagaatatttcatttaTatgtagatcttcttcatctt	6	6	5	2	rs147980423		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:7882195T>C	uc001qtg.1	-	6	813	c.639A>G	c.(637-639)ATA>ATG	p.I213M	CLEC4C_uc001qth.1_Missense_Mutation_p.I213M|CLEC4C_uc001qti.1_Missense_Mutation_p.I182M	NM_130441	NP_569708	Q8WTT0	CLC4C_HUMAN	C-type lectin domain family 4, member C isoform	213	Extracellular (Potential).				innate immune response	integral to membrane	sugar binding			ovary(2)|skin(1)	3				Kidney(36;0.0915)		ATTTCATTTATATGTAGATCT	0.353													127	64	---	---	---	---	PASS	C	7882195	C	C	7882195	3	2	44	1	0	0	0	0	1	0	0	0	3513	1396	49	5	6	5	CLEC4C	12	7882195	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	242179	7882195	125969700	630	17717										
ATF7IP	55729	broad.mit.edu	37	chr12	14650888	14650888	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccatggcatgtactctcaccCagtttgtatctggtagcaaa	8	11	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:14650888C>G	uc001rbw.2	+	15	3852	c.3694C>G	c.(3694-3696)CAG>GAG	p.Q1232E	ATF7IP_uc001rbx.2_Missense_Mutation_p.Q1231E|ATF7IP_uc001rby.3_Missense_Mutation_p.Q1232E|ATF7IP_uc001rca.2_Missense_Mutation_p.Q1232E	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1232	Interaction with MBD1.|Fibronectin type-III.				DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						TACTCTCACCCAGTTTGTATC	0.473													6	293	---	---	---	---	PASS	G	14650888	G	G	14650888	3	3	44	1	0	0	0	0	1	0	0	0	1087	595	21	4	3748	4	ATF7IP	12	14650888	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	6768693	14650888	119201007	631	17718										
ATF7IP	55729	broad.mit.edu	37	chr12	14650988	14650988	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcagtcaacagatgtgatctCttctacccagagcagttaaa	7	10	4	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:14650988C>G	uc001rbw.2	+	15	3952	c.3794C>G	c.(3793-3795)TCT>TGT	p.S1265C	ATF7IP_uc001rbx.2_Missense_Mutation_p.S1264C|ATF7IP_uc001rby.3_Missense_Mutation_p.S1265C|ATF7IP_uc001rca.2_Missense_Mutation_p.S1265C	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1265	Interaction with MBD1.				DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						GATGTGATCTCTTCTACCCAG	0.393													11	671	---	---	---	---	PASS	G	14650988	G	G	14650988	3	3	44	1	0	0	0	0	1	0	0	0	1087	913	32	2	3848	2	ATF7IP	12	14650988	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	100	14650988	119200907	632	17719										
PTPRO	5800	broad.mit.edu	37	chr12	15654883	15654883	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acagtacactcagtgagacaGagaagtcaacatcaggctct	9	10	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:15654883G>C	uc001rcv.1	+	5	1165	c.991G>C	c.(991-993)GAG>CAG	p.E331Q	PTPRO_uc001rcw.1_Missense_Mutation_p.E331Q|PTPRO_uc001rcu.1_Missense_Mutation_p.E331Q	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	331	Fibronectin type-III 4.|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)				CAGTGAGACAGAGAAGTCAAC	0.443													14	161	---	---	---	---	PASS	C	15654883	C	C	15654883	3	2	44	1	0	0	0	0	1	0	0	0	12809	943	33	2	1009	2	PTPRO	12	15654883	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1003895	15654883	118197012	633	17720										
PDE3A	5139	broad.mit.edu	37	chr12	20801636	20801636	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcctaggcggtgctatataaCgatcgttcagttttggagaa	12	7	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:20801636C>T	uc001reh.1	+	13	2602	c.2580C>T	c.(2578-2580)AAC>AAT	p.N860N		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	860	Catalytic (By similarity).				lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	TGCTATATAACGATCGTTCAG	0.368													121	146	---	---	---	---	PASS	T	20801636	T	T	20801636	2	4	44	1	0	0	0	0	0	0	0	1	11637	535	19	1		1	PDE3A	12	20801636	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	5146753	20801636	113050259	634	17721										
SLCO1C1	53919	broad.mit.edu	37	chr12	20854340	20854340	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	catcactcagatagagagaaGgtttgatatcccttcttcac	7	10	4	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:20854340G>T	uc001rej.3	+	4	573	c.218G>T	c.(217-219)AGG>ATG	p.R73M	SLCO1C1_uc010sii.1_Missense_Mutation_p.R73M|SLCO1C1_uc010sij.1_Missense_Mutation_p.R73M|SLCO1C1_uc009zip.2_Intron|SLCO1C1_uc001rei.2_Missense_Mutation_p.R73M|SLCO1C1_uc010sik.1_Intron	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	73	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					ATAGAGAGAAGGTTTGATATC	0.398													136	150	---	---	---	---	PASS	T	20854340	T	T	20854340	3	4	44	1	0	0	0	0	1	0	0	0	14725	1000	35	3	224	3	SLCO1C1	12	20854340	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	52704	20854340	112997555	635	17722										
SLCO1C1	53919	broad.mit.edu	37	chr12	20890111	20890111	+	Missense_Mutation	SNP	A	C	C													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caagatgcaaatgttcagagAcaaaatgggaacccatgtgc							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:20890111A>C	uc001rej.3	+	12	1808	c.1453A>C	c.(1453-1455)ACA>CCA	p.T485P	SLCO1C1_uc010sii.1_Missense_Mutation_p.T485P|SLCO1C1_uc010sij.1_Missense_Mutation_p.T436P|SLCO1C1_uc009zip.2_Missense_Mutation_p.T319P|SLCO1C1_uc001rei.2_Missense_Mutation_p.T485P|SLCO1C1_uc010sik.1_Missense_Mutation_p.T367P	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	485	Extracellular (Potential).|Kazal-like.				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					ATGTTCAGAGACAAAATGGGA	0.363													115	54	---	---	---	---	PASS	C	20890111	C	C	20890111	3	2	44	1	0	0	0	0	1	0	0	0	14725	275	10	5	1491	5	SLCO1C1	12	20890111	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	35771	20890111	112961784	636	17723	411	2								
SLCO1C1	53919	broad.mit.edu	37	chr12	20890118	20890118	+	Frame_Shift_Del	DEL	G	-	-													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caaatgttcagagacaaaatGggaacccatgtgcggtgaaa							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:20890118delG	uc001rej.3	+	12	1815	c.1460delG	c.(1459-1461)TGGfs	p.W487fs	SLCO1C1_uc010sii.1_Frame_Shift_Del_p.W487fs|SLCO1C1_uc010sij.1_Frame_Shift_Del_p.W438fs|SLCO1C1_uc009zip.2_Frame_Shift_Del_p.W321fs|SLCO1C1_uc001rei.2_Frame_Shift_Del_p.W487fs|SLCO1C1_uc010sik.1_Frame_Shift_Del_p.W369fs	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	487	Extracellular (Potential).|Kazal-like.				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					GAGACAAAATGGGAACCCATG	0.373													73	134	---	---	---	---		-	20890118	-	-	20890118	7	5	44	1	0	1	0	1	0	0	0	0	14725	1357	47	0	1498	0	SLCO1C1	12	20890118	Frame_Shift_Del	DEL	G	TCGA-22-5473-01A-01D-1632-08	7	20890118	112961777	637	17724	411	2								
ETNK1	55500	broad.mit.edu	37	chr12	22826547	22826547	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctttgggactgaagttactGaaaaggaggtagaaatactc	12	5	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:22826547G>A	uc001rft.2	+	6	1187	c.1165G>A	c.(1165-1167)GAA>AAA	p.E389K	ETNK1_uc009ziz.2_Missense_Mutation_p.E389K	NM_018638	NP_061108	Q9HBU6	EKI1_HUMAN	ethanolamine kinase 1 isoform A	389					phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|ethanolamine kinase activity				0						TGAAGTTACTGAAAAGGAGGT	0.368													32	220	---	---	---	---	PASS	A	22826547	A	A	22826547	3	1	44	1	0	0	0	0	1	0	0	0	5273	1291	45	2	1285	2	ETNK1	12	22826547	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1936429	22826547	111025348	638	17725										
CAPRIN2	65981	broad.mit.edu	37	chr12	30884403	30884403	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgggatactttcaaaatagcCtgagttcagcaatttagaca	8	7	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:30884403C>A	uc001rji.1	-	6	1685	c.934G>T	c.(934-936)GGC>TGC	p.G312C	CAPRIN2_uc001rjf.1_Missense_Mutation_p.G109C|CAPRIN2_uc001rjg.1_Translation_Start_Site|CAPRIN2_uc001rjh.1_Missense_Mutation_p.G312C|CAPRIN2_uc001rjj.1_Translation_Start_Site|CAPRIN2_uc001rjk.3_Missense_Mutation_p.G312C|CAPRIN2_uc001rjl.3_Missense_Mutation_p.G312C|CAPRIN2_uc001rjm.1_Translation_Start_Site|CAPRIN2_uc001rjn.1_Translation_Start_Site	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	312					negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					TCAAAATAGCCTGAGTTCAGC	0.348													46	162	---	---	---	---	PASS	A	30884403	A	A	30884403	3	1	44	1	0	0	0	0	1	0	0	0	2636	681	24	3	2501	3	CAPRIN2	12	30884403	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	8057856	30884403	102967492	639	17726										
PDZRN4	29951	broad.mit.edu	37	chr12	41967593	41967593	+	Frame_Shift_Del	DEL	G	-	-													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagagaaacaagaaaattttGgacaactggatgacaatcca							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:41967593delG	uc010skn.1	+	10	2483	c.2415delG	c.(2413-2415)TTGfs	p.L805fs	PDZRN4_uc001rmq.3_Frame_Shift_Del_p.L746fs|PDZRN4_uc009zjz.2_Frame_Shift_Del_p.L744fs|PDZRN4_uc001rmr.2_Frame_Shift_Del_p.L631fs	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	1004							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				AGAAAATTTTGGACAACTGGA	0.458													46	30	---	---	---	---		-	41967593	-	-	41967593	7	5	44	1	0	1	0	1	0	0	0	0	11710	1339	47	0	3123	0	PDZRN4	12	41967593	Frame_Shift_Del	DEL	G	TCGA-22-5473-01A-01D-1632-08	11083190	41967593	91884302	640	17727										
NELL2	4753	broad.mit.edu	37	chr12	45173518	45173518	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaggcaagtctgtggagggCttttctactaccctttcata	10	9	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:45173518C>A	uc001rog.2	-	5	1129	c.534G>T	c.(532-534)AAG>AAT	p.K178N	NELL2_uc001rof.3_Missense_Mutation_p.K177N|NELL2_uc001roh.2_Missense_Mutation_p.K178N|NELL2_uc009zkd.2_Missense_Mutation_p.K177N|NELL2_uc010skz.1_Missense_Mutation_p.K228N|NELL2_uc010sla.1_Missense_Mutation_p.K201N|NELL2_uc001roi.1_Missense_Mutation_p.K178N|NELL2_uc010slb.1_Missense_Mutation_p.K177N|NELL2_uc001roj.2_Missense_Mutation_p.K178N	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	178	TSP N-terminal.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		CTGTGGAGGGCTTTTCTACTA	0.378													53	104	---	---	---	---	PASS	A	45173518	A	A	45173518	3	1	44	1	0	0	0	0	1	0	0	0	10334	796	28	3	1980	3	NELL2	12	45173518	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3205925	45173518	88678377	641	17728										
PLEKHA9	51054	broad.mit.edu	37	chr12	45567332	45567332	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggctacatccgcctccacttCgtgcagcactatcttctgga	8	15	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:45567332C>T	uc001rom.1	-	3	1354	c.817G>A	c.(817-819)GAA>AAA	p.E273K	PLEKHA9_uc009zke.2_Missense_Mutation_p.E273K	NM_015899	NP_056983			pleckstrin homology domain containing, family A												0	Lung SC(27;0.192)|Renal(347;0.236)			GBM - Glioblastoma multiforme(48;0.173)		GCCTCCACTTCGTGCAGCACT	0.413													31	145	---	---	---	---	PASS	T	45567332	T	T	45567332	3	4	44	1	0	0	0	0	1	0	0	0	12063	893	31	2	362	2	PLEKHA9	12	45567332	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	393814	45567332	88284563	642	17729										
ARID2	196528	broad.mit.edu	37	chr12	46123697	46123697	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctggacgagctgcggcagttCcaccacagcagagggtgaga	15	11	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:46123697C>G	uc001ros.1	+	1	78	c.78C>G	c.(76-78)TTC>TTG	p.F26L	ARID2_uc001ror.2_Missense_Mutation_p.F26L|LOC400027_uc001roq.2_5'Flank	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	26	ARID.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TGCGGCAGTTCCACCACAGCA	0.672													7	34	---	---	---	---	PASS	G	46123697	G	G	46123697	3	3	44	1	0	0	0	0	1	0	0	0	915	854	30	2	80	2	ARID2	12	46123697	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	556365	46123697	87728198	643	17730										
ARID2	196528	broad.mit.edu	37	chr12	46244950	46244950	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgtgaaaaggcagcaacagcAgcaacattcaccagcacccc	8	14	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:46244950A>C	uc001ros.1	+	15	3044	c.3044A>C	c.(3043-3045)CAG>CCG	p.Q1015P	ARID2_uc001ror.2_Missense_Mutation_p.Q1015P|ARID2_uc009zkg.1_Missense_Mutation_p.Q471P|ARID2_uc009zkh.1_Missense_Mutation_p.Q642P|ARID2_uc001rou.1_Missense_Mutation_p.Q349P	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1015	Gln-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		CAGCAACAGCAGCAACATTCA	0.507													22	93	---	---	---	---	PASS	C	46244950	C	C	46244950	3	2	44	1	0	0	0	0	1	0	0	0	915	188	7	5	3102	5	ARID2	12	46244950	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	121253	46244950	87606945	644	17731										
VDR	7421	broad.mit.edu	37	chr12	48251014	48251014	+	Missense_Mutation	SNP	C	T	T													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggatggctccctccaccatCattcacacgaactggaggct							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:48251014C>T	uc001rqm.2	-	7	763	c.481G>A	c.(481-483)GAT>AAT	p.D161N	VDR_uc001rql.2_Missense_Mutation_p.D211N|VDR_uc001rqn.2_Missense_Mutation_p.D161N|VDR_uc010slq.1_Missense_Mutation_p.D129N	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	161	Hinge.				decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	CCTCCACCATCATTCACACGA	0.552													8	56	---	---	---	---	PASS	T	48251014	T	T	48251014	3	4	44	1	0	0	0	0	1	0	0	0	17146	826	29	2	822	2	VDR	12	48251014	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2006064	48251014	85600881	645	17732	412	2								
VDR	7421	broad.mit.edu	37	chr12	48251018	48251018	+	Silent	SNP	C	G	G													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggctccctccaccatcattCacacgaactggaggctggaa							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:48251018C>G	uc001rqm.2	-	7	759	c.477G>C	c.(475-477)GTG>GTC	p.V159V	VDR_uc001rql.2_Silent_p.V209V|VDR_uc001rqn.2_Silent_p.V159V|VDR_uc010slq.1_Silent_p.V127V	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	159	Hinge.				decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	CACCATCATTCACACGAACTG	0.552													8	53	---	---	---	---	PASS	G	48251018	G	G	48251018	2	3	44	1	0	0	0	0	0	0	0	1	17146	813	29	2		2	VDR	12	48251018	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	4	48251018	85600877	646	17733	412	2								
MLL2	8085	broad.mit.edu	37	chr12	49439860	49439860	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtactcacccacaggctttaCcacgtagggctggcaggaga	12	12	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:49439860C>G	uc001rta.3	-	17	4681	c.4681G>C	c.(4681-4683)GTA>CTA	p.V1561L		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1561					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						ACAGGCTTTACCACGTAGGGC	0.592			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			3	16	---	---	---	---	PASS	G	49439860	G	G	49439860	3	3	44	1	0	0	0	0	1	0	0	0	9621	507	18	4	12084	4	MLL2	12	49439860	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1188842	49439860	84412035	647	17734										
MLL2	8085	broad.mit.edu	37	chr12	49441824	49441824	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggtggccctctgccccccggCcaaagctgccacataccaca	9	19	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:49441824C>A	uc001rta.3	-	14	4160	c.4160G>T	c.(4159-4161)GGC>GTC	p.G1387V		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1387	PHD-type 3.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TGCCCCCCGGCCAAAGCTGCC	0.547			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			18	71	---	---	---	---	PASS	A	49441824	A	A	49441824	3	1	44	1	0	0	0	0	1	0	0	0	9621	739	26	3	12617	3	MLL2	12	49441824	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1964	49441824	84410071	648	17735										
SCN8A	6334	broad.mit.edu	37	chr12	52115631	52115631	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caacagcacggtggactgcaAcggcgtggtgtccctcatcg	13	13	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:52115631A>C	uc001ryw.2	+	12	2115	c.1937A>C	c.(1936-1938)AAC>ACC	p.N646T	SCN8A_uc010snl.1_Missense_Mutation_p.N511T|SCN8A_uc001ryx.1_Missense_Mutation_p.N511T|SCN8A_uc001ryz.1_Missense_Mutation_p.N511T|SCN8A_uc001ryy.2_Missense_Mutation_p.N511T	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	646					axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	GTGGACTGCAACGGCGTGGTG	0.567													4	93	---	---	---	---	PASS	C	52115631	C	C	52115631	3	2	44	1	0	0	0	0	1	0	0	0	13924	43	2	5	1979	5	SCN8A	12	52115631	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	2673807	52115631	81736264	649	17736										
ACVRL1	94	broad.mit.edu	37	chr12	52306283	52306283	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccttgggctcccccaggaaaGgccttctgatgctgctgatg	12	13	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:52306283G>C	uc001rzj.2	+	2	308	c.25G>C	c.(25-27)GGC>CGC	p.G9R	ACVRL1_uc001rzk.2_Missense_Mutation_p.G9R|ACVRL1_uc010snm.1_Missense_Mutation_p.G23R	NM_000020	NP_000011	P37023	ACVL1_HUMAN	activin A receptor type II-like 1 precursor	9					blood vessel endothelial cell proliferation involved in sprouting angiogenesis|blood vessel maturation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of endothelial cell migration|negative regulation of focal adhesion assembly|positive regulation of BMP signaling pathway|positive regulation of transcription, DNA-dependent|regulation of blood pressure|regulation of blood vessel endothelial cell migration|regulation of DNA replication|regulation of endothelial cell proliferation|transforming growth factor beta receptor signaling pathway|wound healing, spreading of epidermal cells	cell surface|integral to plasma membrane	activin binding|activin receptor activity, type I|ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0991)	Adenosine triphosphate(DB00171)	CCCCAGGAAAGGCCTTCTGAT	0.592									Hereditary_Hemorrhagic_Telangiectasia				9	69	---	---	---	---	PASS	C	52306283	C	C	52306283	3	2	44	1	0	0	0	0	1	0	0	0	225	1000	35	4	27	4	ACVRL1	12	52306283	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	190652	52306283	81545612	650	17737										
KRT85	3891	broad.mit.edu	37	chr12	52761001	52761001	+	Frame_Shift_Del	DEL	C	-	-													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccacctacagctatccggggCccgcaggagcccaggttgca							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:52761001delC	uc001sag.2	-	1	309	c.189delG	c.(187-189)GGGfs	p.G63fs		NM_002283	NP_002274	P78386	KRT85_HUMAN	keratin 85	63	Head.				epidermis development	keratin filament	protein binding|structural molecule activity			ovary(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		CTATCCGGGGCCCGCAGGAGC	0.711													54	30	---	---	---	---		-	52761001	-	-	52761001	7	5	44	1	0	1	0	1	0	0	0	0	8499	726	26	0	1370	0	KRT85	12	52761001	Frame_Shift_Del	DEL	C	TCGA-22-5473-01A-01D-1632-08	454718	52761001	81090894	651	17738										
AMHR2	269	broad.mit.edu	37	chr12	53823264	53823264	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	taaaccaggtattgcccaccGagatctgagcagccagaatg	10	11	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:53823264G>A	uc001scx.1	+	8	1073	c.995G>A	c.(994-996)CGA>CAA	p.R332Q	AMHR2_uc009zmy.1_Missense_Mutation_p.R332Q	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	332	Cytoplasmic (Potential).|Protein kinase.				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	ATTGCCCACCGAGATCTGAGC	0.448									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				4	117	---	---	---	---	PASS	A	53823264	A	A	53823264	3	1	44	1	0	0	0	0	1	0	0	0	573	1058	37	2	1025	2	AMHR2	12	53823264	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1062263	53823264	80028631	652	17739										
NCKAP1L	3071	broad.mit.edu	37	chr12	54905629	54905629	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggaagtaatggagcgctggAttatcagtaagtttagtggg	15	3	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:54905629A>G	uc001sgc.3	+	8	857	c.778A>G	c.(778-780)ATT>GTT	p.I260V	NCKAP1L_uc010sox.1_5'UTR|NCKAP1L_uc010soy.1_Missense_Mutation_p.I210V	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	260					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						GGAGCGCTGGATTATCAGTAA	0.413													42	157	---	---	---	---	PASS	G	54905629	G	G	54905629	3	3	44	1	0	0	0	0	1	0	0	0	10222	333	12	5	808	5	NCKAP1L	12	54905629	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1082365	54905629	78946266	653	17740										
OR6C4	341418	broad.mit.edu	37	chr12	55945428	55945428	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttatgagcagcagagtctgcAtacaactagtgttctgctcc	9	10	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:55945428A>T	uc010spp.1	+	1	418	c.418A>T	c.(418-420)ATA>TTA	p.I140L		NM_001005494	NP_001005494	Q8NGE1	OR6C4_HUMAN	olfactory receptor, family 6, subfamily C,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CAGAGTCTGCATACAACTAGT	0.468													38	174	---	---	---	---	PASS	T	55945428	T	T	55945428	3	4	44	1	0	0	0	0	1	0	0	0	11193	217	8	5	420	5	OR6C4	12	55945428	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1039799	55945428	77906467	654	17741										
GLI1	2735	broad.mit.edu	37	chr12	57863408	57863408	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttcgccgccttgagaacctCaggctggaccagctacatca	9	15	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:57863408C>T	uc001snx.2	+	11	1581	c.1503C>T	c.(1501-1503)CTC>CTT	p.L501L	GLI1_uc009zpq.2_Silent_p.L373L	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	501					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			TTGAGAACCTCAGGCTGGACC	0.617													31	118	---	---	---	---	PASS	T	57863408	T	T	57863408	2	4	44	1	0	0	0	0	0	0	0	1	6437	813	29	2		2	GLI1	12	57863408	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1917980	57863408	75988487	655	17742										
CPSF6	11052	broad.mit.edu	37	chr12	69652507	69652507	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atcgccctccaccaccagttCtttttcctggacaacctttt	4	16	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:69652507C>T	uc001sut.3	+	6	942	c.832C>T	c.(832-834)CTT>TTT	p.L278F	CPSF6_uc001suu.3_Missense_Mutation_p.L315F|CPSF6_uc010stk.1_5'UTR	NM_007007	NP_008938	Q16630	CPSF6_HUMAN	cleavage and polyadenylation specific factor 6,	278	Pro-rich.				mRNA polyadenylation|protein tetramerization	mRNA cleavage factor complex|paraspeckles|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding				0	all_epithelial(5;2.47e-36)|Lung NSC(4;1.1e-32)|all_lung(4;6.26e-31)|Breast(13;1.59e-06)|Esophageal squamous(21;0.187)		Epithelial(6;4.89e-17)|BRCA - Breast invasive adenocarcinoma(5;8.5e-10)|Lung(24;6.04e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|LUSC - Lung squamous cell carcinoma(43;0.171)|Kidney(9;0.241)			ACCACCAGTTCTTTTTCCTGG	0.632													5	249	---	---	---	---	PASS	T	69652507	T	T	69652507	3	4	44	1	0	0	0	0	1	0	0	0	3829	913	32	2	854	2	CPSF6	12	69652507	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	11789099	69652507	64199388	656	17743										
PTPRB	5787	broad.mit.edu	37	chr12	70918263	70918263	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtgcccacctctgtgatactCtggattcacattttcataga	7	11	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:70918263C>G	uc001swb.3	-	31	5989	c.5959G>C	c.(5959-5961)GAG>CAG	p.E1987Q	uc001svz.2_Intron|PTPRB_uc010sto.1_Missense_Mutation_p.E1897Q|PTPRB_uc010stp.1_Missense_Mutation_p.E1897Q|PTPRB_uc001swc.3_Missense_Mutation_p.E2205Q|PTPRB_uc001swa.3_Missense_Mutation_p.E2117Q	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1987	Cytoplasmic (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CTGTGATACTCTGGATTCACA	0.348													8	32	---	---	---	---	PASS	G	70918263	G	G	70918263	3	3	44	1	0	0	0	0	1	0	0	0	12796	922	32	2	42	2	PTPRB	12	70918263	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1265756	70918263	62933632	657	17744										
PTPRB	5787	broad.mit.edu	37	chr12	70931979	70931979	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtcagagcaaggatcatcatCtacattggagagcttcactc	9	10	5	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:70931979C>A	uc001swb.3	-	26	5278	c.5248G>T	c.(5248-5250)GAT>TAT	p.D1750Y	uc001svz.2_RNA|PTPRB_uc010sto.1_Missense_Mutation_p.D1660Y|PTPRB_uc010stp.1_Missense_Mutation_p.D1660Y|PTPRB_uc001swc.3_Missense_Mutation_p.D1968Y|PTPRB_uc001swa.3_Missense_Mutation_p.D1880Y	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1750	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			GGATCATCATCTACATTGGAG	0.428													24	127	---	---	---	---	PASS	A	70931979	A	A	70931979	3	1	44	1	0	0	0	0	1	0	0	0	12796	913	32	2	773	2	PTPRB	12	70931979	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	13716	70931979	62919916	658	17745										
PTPRB	5787	broad.mit.edu	37	chr12	70953211	70953211	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgaattgataggatctcccTggacgaagaccatacacaat	8	9	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:70953211T>C	uc001swb.3	-	16	4002	c.3972A>G	c.(3970-3972)CCA>CCG	p.P1324P	PTPRB_uc010sto.1_Silent_p.P1234P|PTPRB_uc010stp.1_Silent_p.P1234P|PTPRB_uc001swc.3_Silent_p.P1542P|PTPRB_uc001swa.3_Silent_p.P1454P|PTPRB_uc001swd.3_Silent_p.P1541P|PTPRB_uc009zrr.1_Silent_p.P1421P	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1324	Fibronectin type-III 15.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			AGGATCTCCCTGGACGAAGAC	0.443													72	416	---	---	---	---	PASS	C	70953211	C	C	70953211	2	2	44	1	0	0	0	0	0	0	0	1	12796	1567	55	5		5	PTPRB	12	70953211	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	21232	70953211	62898684	659	17746										
PTPRB	5787	broad.mit.edu	37	chr12	70956660	70956660	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaaagactcattagacagctCcccactgtgagttacaatca	7	11	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:70956660C>G	uc001swb.3	-	14	3508	c.3478G>C	c.(3478-3480)GAG>CAG	p.E1160Q	PTPRB_uc010sto.1_Missense_Mutation_p.E1070Q|PTPRB_uc010stp.1_Missense_Mutation_p.E1070Q|PTPRB_uc001swc.3_Missense_Mutation_p.E1378Q|PTPRB_uc001swa.3_Missense_Mutation_p.E1290Q|PTPRB_uc001swd.3_Missense_Mutation_p.E1377Q|PTPRB_uc009zrr.1_Missense_Mutation_p.E1257Q	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1160	Fibronectin type-III 13.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			TTAGACAGCTCCCCACTGTGA	0.463													5	180	---	---	---	---	PASS	G	70956660	G	G	70956660	3	3	44	1	0	0	0	0	1	0	0	0	12796	864	30	2	2591	2	PTPRB	12	70956660	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3449	70956660	62895235	660	17747										
TRHDE	29953	broad.mit.edu	37	chr12	72680712	72680712	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caacttcacatacagagaaaCtaccaccaagagtggggttg	9	10	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:72680712C>A	uc001sxa.2	+	2	1061	c.1031C>A	c.(1030-1032)ACT>AAT	p.T344N		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	344	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TACAGAGAAACTACCACCAAG	0.393													26	61	---	---	---	---	PASS	A	72680712	A	A	72680712	3	1	44	1	0	0	0	0	1	0	0	0	16476	565	20	3	1037	3	TRHDE	12	72680712	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1724052	72680712	61171183	661	17748										
NAV3	89795	broad.mit.edu	37	chr12	78388627	78388627	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtctaatcacagtggaattgCaaccagtcaaaaaaagccta	7	9	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:78388627C>A	uc001syp.2	+	6	889	c.716C>A	c.(715-717)GCA>GAA	p.A239E	NAV3_uc001syo.2_Missense_Mutation_p.A239E	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	239						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AGTGGAATTGCAACCAGTCAA	0.343										HNSCC(70;0.22)			25	63	---	---	---	---	PASS	A	78388627	A	A	78388627	3	1	44	1	0	0	0	0	1	0	0	0	10185	710	25	3	738	3	NAV3	12	78388627	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	5707915	78388627	55463268	662	17749										
NUDT4	11163	broad.mit.edu	37	chr12	93793026	93793026	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cataaacctgtacatgcagaGtatctggaaaagctaaagct	8	8	1	1	rs77656411		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:93793026G>C	uc001tcm.2	+	5	812	c.414G>C	c.(412-414)GAG>GAC	p.E138D	NUDT4_uc010sup.1_Missense_Mutation_p.E138D|NUDT4_uc001tcn.2_Missense_Mutation_p.E86D|NUDT4_uc010suq.1_Missense_Mutation_p.E87D|NUDT4_uc001tco.2_Missense_Mutation_p.E86D	NM_019094	NP_061967	Q9NZJ9	NUDT4_HUMAN	nudix-type motif 4 isoform alpha	138	Nudix hydrolase.				calcium-mediated signaling|cyclic nucleotide metabolic process|cyclic-nucleotide-mediated signaling|intracellular transport|regulation of RNA export from nucleus	cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|metal ion binding				0						TACATGCAGAGTATCTGGAAA	0.428													6	119	---	---	---	---	PASS	C	93793026	C	C	93793026	3	2	44	1	0	0	0	0	1	0	0	0	10741	1020	36	4	435	4	NUDT4	12	93793026	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	15404399	93793026	40058869	663	17750										
SLC17A8	246213	broad.mit.edu	37	chr12	100796216	100796216	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgaggagaagacctatataGagacaagcataggagagggg	15	4	0	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:100796216G>T	uc010svi.1	+	7	1175	c.862G>T	c.(862-864)GAG>TAG	p.E288*	SLC17A8_uc009ztx.2_Nonsense_Mutation_p.E288*	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	288	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						GACCTATATAGAGACAAGCAT	0.423													19	37	---	---	---	---	PASS	T	100796216	T	T	100796216	4	4	44	1	0	0	0	0	0	1	0	0	14423	943	33	2	888	2	SLC17A8	12	100796216	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	7003190	100796216	33055679	664	17751										
ANO4	121601	broad.mit.edu	37	chr12	101493391	101493391	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtggactagaagaaaagtacGacaagaacatggacctgaaa	11	6	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:101493391G>A	uc010svm.1	+	22	2614	c.2042G>A	c.(2041-2043)CGA>CAA	p.R681Q	ANO4_uc001thw.2_Missense_Mutation_p.R646Q|ANO4_uc001thx.2_Missense_Mutation_p.R681Q|ANO4_uc001thy.2_Missense_Mutation_p.R201Q	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	681	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						AGAAAAGTACGACAAGAACAT	0.353										HNSCC(74;0.22)			28	81	---	---	---	---	PASS	A	101493391	A	A	101493391	3	1	44	1	0	0	0	0	1	0	0	0	699	1058	37	2	2015	2	ANO4	12	101493391	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	697175	101493391	32358504	665	17752										
TMEM116	89894	broad.mit.edu	37	chr12	112374620	112374620	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccatggctgatggtggtgagTgcatcaagatacacctagga	13	8	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:112374620T>G	uc001ttc.1	-	10	844	c.188A>C	c.(187-189)CAC>CCC	p.H63P	TMEM116_uc001ttd.1_Missense_Mutation_p.H155P|TMEM116_uc001tte.1_Missense_Mutation_p.H120P|TMEM116_uc001ttf.1_Missense_Mutation_p.H63P|TMEM116_uc001ttg.1_RNA|TMEM116_uc001tth.1_Intron|TMEM116_uc001tti.1_Missense_Mutation_p.H155P	NM_138341	NP_612350	Q8NCL8	TM116_HUMAN	transmembrane protein 116	63						integral to membrane				ovary(1)	1						TGGTGGTGAGTGCATCAAGAT	0.403													23	59	---	---	---	---	PASS	G	112374620	G	G	112374620	3	3	44	1	0	0	0	0	1	0	0	0	16027	1696	59	5	565	5	TMEM116	12	112374620	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	10881229	112374620	21477275	666	17753										
C12orf51	283450	broad.mit.edu	37	chr12	112666057	112666057	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atggacagtttatgaagaggCaatgcctgatggcggtgggg	17	5	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:112666057C>T	uc009zwc.2	-	36	5442	c.5424G>A	c.(5422-5424)TTG>TTA	p.L1808L	C12orf51_uc001ttr.1_5'UTR	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TATGAAGAGGCAATGCCTGAT	0.423													8	23	---	---	---	---	PASS	T	112666057	T	T	112666057	2	4	44	1	0	0	0	0	0	0	0	1	1696	709	25	3		3	C12orf51	12	112666057	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	291437	112666057	21185838	667	17754										
C12orf51	283450	broad.mit.edu	37	chr12	112670832	112670832	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtcatgtctcgatccatcttCacaactttctccatgttggc	6	13	5	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:112670832C>T	uc009zwc.2	-	31	4725	c.4707G>A	c.(4705-4707)GTG>GTA	p.V1569V		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						GATCCATCTTCACAACTTTCT	0.443													13	11	---	---	---	---	PASS	T	112670832	T	T	112670832	2	4	44	1	0	0	0	0	0	0	0	1	1696	813	29	2		2	C12orf51	12	112670832	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	4775	112670832	21181063	668	17755										
TBX3	6926	broad.mit.edu	37	chr12	115117424	115117424	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctcttacaatgtggaaccgGggctggtatttgtgcatgga	14	7	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:115117424G>C	uc001tvt.1	-	4	1714	c.750C>G	c.(748-750)CCC>CCG	p.P250P	TBX3_uc001tvu.1_Silent_p.P230P	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	250	T-box; second part.				anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		TGTGGAACCGGGGCTGGTATT	0.443													38	137	---	---	---	---	PASS	C	115117424	C	C	115117424	2	2	44	1	0	0	0	0	0	0	0	1	15656	1219	43	4		4	TBX3	12	115117424	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	2446592	115117424	18734471	669	17756										
NOS1	4842	broad.mit.edu	37	chr12	117724063	117724063	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcctttccatgtgggctttgGagccaaatctgagtgaagag	13	8	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:117724063G>C	uc001twm.1	-	6	1822	c.1136C>G	c.(1135-1137)TCC>TGC	p.S379C		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	379					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GTGGGCTTTGGAGCCAAATCT	0.507													4	54	---	---	---	---	PASS	C	117724063	C	C	117724063	3	2	44	1	0	0	0	0	1	0	0	0	10541	1174	41	2	3264	2	NOS1	12	117724063	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2606639	117724063	16127832	670	17757										
KSR2	283455	broad.mit.edu	37	chr12	118298109	118298109	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggtcacctccaggacctccTtgcgcacatcgacgattcgg	10	15	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:118298109T>C	uc001two.2	-	2	276	c.221A>G	c.(220-222)AAG>AGG	p.K74R		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	103					intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CAGGACCTCCTTGCGCACATC	0.622													13	30	---	---	---	---	PASS	C	118298109	C	C	118298109	3	2	44	1	0	0	0	0	1	0	0	0	8582	1609	56	5	2620	5	KSR2	12	118298109	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	574046	118298109	15553786	671	17758										
TCTN2	79867	broad.mit.edu	37	chr12	124156113	124156113	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcagcgcgtccctggtcggaGacaccgagggtgtgaccgtg	16	12	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:124156113G>C	uc001ufp.2	+	2	270	c.142G>C	c.(142-144)GAC>CAC	p.D48H	TCTN2_uc009zya.2_Missense_Mutation_p.D48H	NM_024809	NP_079085	Q96GX1	TECT2_HUMAN	tectonic family member 2 isoform 1	48	Extracellular (Potential).				cilium assembly|smoothened signaling pathway	integral to membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000163)|Epithelial(86;0.000502)|all cancers(50;0.00451)		CCTGGTCGGAGACACCGAGGG	0.632													22	56	---	---	---	---	PASS	C	124156113	C	C	124156113	3	2	44	1	0	0	0	0	1	0	0	0	15720	942	33	2	148	2	TCTN2	12	124156113	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5858004	124156113	9695782	672	17759										
DNAH10	196385	broad.mit.edu	37	chr12	124303765	124303765	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaagcgtttttacagtgaagGccctggttctgttggtgatg	13	6	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:124303765G>T	uc001uft.3	+	22	3639	c.3614G>T	c.(3613-3615)GGC>GTC	p.G1205V		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1205	Stem (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)		TACAGTGAAGGCCCTGGTTCT	0.393													3	27	---	---	---	---	PASS	T	124303765	T	T	124303765	3	4	44	1	0	0	0	0	1	0	0	0	4598	1203	42	3	3700	3	DNAH10	12	124303765	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	147652	124303765	9548130	673	17760										
NCOR2	9612	broad.mit.edu	37	chr12	124846713	124846713	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccgggctcctgctcttgcccCgggggctgctgccaggctgc	15	17	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr12:124846713C>T	uc010tba.1	-	22	3176	c.3059G>A	c.(3058-3060)CGG>CAG	p.R1020Q	NCOR2_uc010tay.1_Missense_Mutation_p.R1019Q|NCOR2_uc010taz.1_Missense_Mutation_p.R1003Q|NCOR2_uc010tbb.1_Missense_Mutation_p.R1020Q|NCOR2_uc010tbc.1_Missense_Mutation_p.R1002Q|NCOR2_uc001ugj.1_Missense_Mutation_p.R1020Q	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1020					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GCTCTTGCCCCGGGGGCTGCT	0.721													14	9	---	---	---	---	PASS	T	124846713	T	T	124846713	3	4	44	1	0	0	0	0	1	0	0	0	10236	652	23	1	4613	1	NCOR2	12	124846713	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	542948	124846713	9005182	674	17761										
XPO4	64328	broad.mit.edu	37	chr13	21396422	21396422	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgaatcttctctgatttttcGatgtacctgttagaaagaat	7	6	2	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:21396422G>A	uc001unq.3	-	8	883	c.847C>T	c.(847-849)CGA>TGA	p.R283*		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	283					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		CTGATTTTTCGATGTACCTGT	0.398													24	50	---	---	---	---	PASS	A	21396422	A	A	21396422	4	1	44	1	0	0	0	0	0	1	0	0	17443	1066	37	2	2672	2	XPO4	13	21396422	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08		21396422	93773456	675	17762										
RNF17	56163	broad.mit.edu	37	chr13	25367445	25367445	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctcagatgggatctagccctGatgtgataattgaagaaatt	10	6	2	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:25367445G>A	uc001upr.2	+	10	1242	c.1201G>A	c.(1201-1203)GAT>AAT	p.D401N	RNF17_uc010tdd.1_Missense_Mutation_p.D260N|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.D401N|RNF17_uc001ups.2_Missense_Mutation_p.D340N|RNF17_uc001upq.1_Missense_Mutation_p.D401N	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	401					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		ATCTAGCCCTGATGTGATAAT	0.383													6	170	---	---	---	---	PASS	A	25367445	A	A	25367445	3	1	44	1	0	0	0	0	1	0	0	0	13461	1290	45	2	1239	2	RNF17	13	25367445	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3971023	25367445	89802433	676	17763										
ATP8A2	51761	broad.mit.edu	37	chr13	26145831	26145831	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctcagtcatcatagaagcgGtgagtaacatgcgtgtgcac	11	9	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:26145831G>A	uc001uqk.2	+	18	1804	c.1662_splice	c.e18+1	p.A554_splice	ATP8A2_uc010tdi.1_Splice_Site_p.A514_splice|ATP8A2_uc010tdj.1_Splice_Site|ATP8A2_uc010aaj.1_Splice_Site_p.A64_splice|ATP8A2_uc001uql.1_Missense_Mutation_p.V515M	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,						ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		CATAGAAGCGGTGAGTAACAT	0.418													49	75	---	---	---	---	PASS	A	26145831	A	A	26145831	5	1	44	1	0	0	0	0	0	0	1	0	1193	1275	44	3	1733	3	ATP8A2	13	26145831	Splice_Site	SNP	G	TCGA-22-5473-01A-01D-1632-08	778386	26145831	89024047	677	17764										
CDK8	1024	broad.mit.edu	37	chr13	26974588	26974588	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttgtatgatttgtgatttcAgcttcagaagctgcttacca	8	7	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:26974588A>C	uc001uqr.1	+	10	960	c.934_splice	c.e10-2	p.L312_splice	CDK8_uc001uqs.1_Splice_Site_p.L312_splice|CDK8_uc001uqt.1_Splice_Site_p.L139_splice	NM_001260	NP_001251	P49336	CDK8_HUMAN	cyclin-dependent kinase 8						regulation of transcription, DNA-dependent|transcription, DNA-dependent	mediator complex	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|large_intestine(1)|ovary(1)|skin(1)	5	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0384)|Epithelial(112;0.142)|OV - Ovarian serous cystadenocarcinoma(117;0.188)		TTGTGATTTCAGCTTCAGAAG	0.393													44	114	---	---	---	---	PASS	C	26974588	C	C	26974588	5	2	44	1	0	0	0	0	0	0	1	0	3150	202	7	5	970	5	CDK8	13	26974588	Splice_Site	SNP	A	TCGA-22-5473-01A-01D-1632-08	828757	26974588	88195290	678	17765										
THSD1	55901	broad.mit.edu	37	chr13	52951735	52951735	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttctacactgagaagggctCagagaactgaccctctggta	10	10	3	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:52951735C>G	uc001vgo.2	-	5	2915	c.2370G>C	c.(2368-2370)CTG>CTC	p.L790L	THSD1_uc001vgp.2_Silent_p.L737L|THSD1_uc010tgz.1_Silent_p.L411L|THSD1_uc010aea.2_Silent_p.L251L	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	790	Cytoplasmic (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		GAGAAGGGCTCAGAGAACTGA	0.522													7	125	---	---	---	---	PASS	G	52951735	G	G	52951735	2	3	44	1	0	0	0	0	0	0	0	1	15874	813	29	2		2	THSD1	13	52951735	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	25977147	52951735	62218143	679	17766										
SUGT1	10910	broad.mit.edu	37	chr13	53254242	53254242	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacagattatttcagcagatCtattcagatggttctgatga	8	6	4	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:53254242C>G	uc001vhc.2	+	13	1173	c.948C>G	c.(946-948)ATC>ATG	p.I316M	SUGT1_uc001vha.2_RNA|SUGT1_uc001vhb.2_Missense_Mutation_p.I284M|SUGT1_uc010thb.1_Missense_Mutation_p.I228M|SUGT1_uc001vhd.2_Missense_Mutation_p.I173M	NM_001130912	NP_001124384	Q9Y2Z0	SUGT1_HUMAN	suppressor of G2 allele of SKP1 isoform a	316	SGS.				mitosis	kinetochore|ubiquitin ligase complex	binding				0		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.25e-08)		TTCAGCAGATCTATTCAGATG	0.313													33	105	---	---	---	---	PASS	G	53254242	G	G	53254242	3	3	44	1	0	0	0	0	1	0	0	0	15368	903	32	2	998	2	SUGT1	13	53254242	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	302507	53254242	61915636	680	17767										
PCDH17	27253	broad.mit.edu	37	chr13	58207128	58207128	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaacgctgctccgggcaccCgcttccccctcaccagcgca	9	20	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:58207128C>T	uc001vhq.1	+	1	1340	c.448C>T	c.(448-450)CGC>TGC	p.R150C	PCDH17_uc010aec.1_Missense_Mutation_p.R150C	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	150	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TCCGGGCACCCGCTTCCCCCT	0.622													10	20	---	---	---	---	PASS	T	58207128	T	T	58207128	3	4	44	1	0	0	0	0	1	0	0	0	11512	652	23	1	450	1	PCDH17	13	58207128	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4952886	58207128	56962750	681	17768										
PCDH9	5101	broad.mit.edu	37	chr13	67799867	67799867	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcagccggcaggcttattgtCccattgataggttcatgaac	10	10	2	2	rs144564425		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:67799867C>T	uc001vik.2	-	2	3398	c.2706G>A	c.(2704-2706)GGG>GGA	p.G902G	PCDH9_uc001vil.2_Silent_p.G902G|PCDH9_uc010thl.1_Silent_p.G902G|PCDH9_uc001vin.3_Silent_p.G902G	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	902	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GGCTTATTGTCCCATTGATAG	0.463													50	138	---	---	---	---	PASS	T	67799867	T	T	67799867	2	4	44	1	0	0	0	0	0	0	0	1	11518	842	30	2		2	PCDH9	13	67799867	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	9592739	67799867	47370011	682	17769										
PIBF1	10464	broad.mit.edu	37	chr13	73428246	73428246	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctgaaaaggaacgagcagtGatggctgaaaaggatgcttt	14	5	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:73428246G>C	uc001vjc.2	+	10	1580	c.1275G>C	c.(1273-1275)GTG>GTC	p.V425V	PIBF1_uc001vja.1_Silent_p.V425V|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Silent_p.V425V|PIBF1_uc010aep.2_Intron	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	425						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		AACGAGCAGTGATGGCTGAAA	0.343													16	63	---	---	---	---	PASS	C	73428246	C	C	73428246	2	2	44	1	0	0	0	0	0	0	0	1	11879	1277	45	2		2	PIBF1	13	73428246	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	5628379	73428246	41741632	683	17770										
KLF12	11278	broad.mit.edu	37	chr13	74289590	74289590	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaatcacatctgtggatacgCcgttttctggagtctgggga	12	8	4	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:74289590C>G	uc001vjf.2	-	7	1164	c.942G>C	c.(940-942)CGG>CGC	p.R314R	KLF12_uc010aeq.2_Silent_p.R314R	NM_007249	NP_009180	Q9Y4X4	KLF12_HUMAN	Kruppel-like factor 12	314					negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Prostate(6;0.00217)|Breast(118;0.0838)		GBM - Glioblastoma multiforme(99;0.00677)		TGTGGATACGCCGTTTTCTGG	0.468													61	36	---	---	---	---	PASS	G	74289590	G	G	74289590	2	3	44	1	0	0	0	0	0	0	0	1	8340	726	26	4		4	KLF12	13	74289590	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	861344	74289590	40880288	684	17771										
LMO7	4008	broad.mit.edu	37	chr13	76415914	76415914	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaggagacagccacaagagGaagttgttcatgaggaccaa	13	7	1	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:76415914G>T	uc001vjv.2	+	21	3887	c.3127G>T	c.(3127-3129)GAA>TAA	p.E1043*	LMO7_uc010thv.1_Nonsense_Mutation_p.E994*|LMO7_uc001vjt.1_Nonsense_Mutation_p.E942*|LMO7_uc010thw.1_Nonsense_Mutation_p.E920*|LMO7_uc001vjw.1_Nonsense_Mutation_p.E949*	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	1328						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		GCCACAAGAGGAAGTTGTTCA	0.512													30	60	---	---	---	---	PASS	T	76415914	T	T	76415914	4	4	44	1	0	0	0	0	0	1	0	0	8855	1175	41	2	4080	2	LMO7	13	76415914	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2126324	76415914	38753964	685	17772										
MYCBP2	23077	broad.mit.edu	37	chr13	77641898	77641898	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctttctctgttgagtgaatGatatcactgatatctgctgg	9	8	3	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:77641898G>A	uc001vkf.2	-	72	12250	c.12159C>T	c.(12157-12159)ATC>ATT	p.I4053I	MYCBP2_uc010aev.2_Silent_p.I3457I|MYCBP2_uc001vke.2_Silent_p.I670I	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	4053					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TTGAGTGAATGATATCACTGA	0.448													7	224	---	---	---	---	PASS	A	77641898	A	A	77641898	2	1	44	1	0	0	0	0	0	0	0	1	10018	1280	45	2		2	MYCBP2	13	77641898	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1225984	77641898	37527980	686	17773										
SCEL	8796	broad.mit.edu	37	chr13	78137971	78137971	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttatgtttgctacaggaaagTaaatgagagagatgtgccaa	11	4	0	2	rs78419173		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:78137971T>C	uc001vki.2	+	5	397	c.227T>C	c.(226-228)GTA>GCA	p.V76A	SCEL_uc001vkj.2_Missense_Mutation_p.V76A|SCEL_uc010thx.1_Missense_Mutation_p.V76A	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	76					embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		TACAGGAAAGTAAATGAGAGA	0.308													68	40	---	---	---	---	PASS	C	78137971	C	C	78137971	3	2	44	1	0	0	0	0	1	0	0	0	13888	1638	57	5	241	5	SCEL	13	78137971	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	496073	78137971	37031907	687	17774										
SLITRK1	114798	broad.mit.edu	37	chr13	84454902	84454902	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcattgaggtctttaccctgCagtctggtgggggcttcgca	13	10	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:84454902C>A	uc001vlk.2	-	1	1627	c.741G>T	c.(739-741)CTG>CTT	p.L247L		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	247	Extracellular (Potential).|LRRCT 1.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CTTTACCCTGCAGTCTGGTGG	0.552													15	69	---	---	---	---	PASS	A	84454902	A	A	84454902	2	1	44	1	0	0	0	0	0	0	0	1	14742	697	25	3		3	SLITRK1	13	84454902	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	6316931	84454902	30714976	688	17775										
SLITRK5	26050	broad.mit.edu	37	chr13	88330197	88330197	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgtcgccggtgcaggacgccGaccgcttttacaggggcatt	14	12	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:88330197G>T	uc001vln.2	+	2	2773	c.2554G>T	c.(2554-2556)GAC>TAC	p.D852Y	SLITRK5_uc010tic.1_Missense_Mutation_p.D611Y	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	852	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GCAGGACGCCGACCGCTTTTA	0.647													10	9	---	---	---	---	PASS	T	88330197	T	T	88330197	3	4	44	1	0	0	0	0	1	0	0	0	14746	1058	37	2	2556	2	SLITRK5	13	88330197	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3875295	88330197	26839681	689	17776										
ITGBL1	9358	broad.mit.edu	37	chr13	102231757	102231757	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaagatgcacgtctccagatGgcaaaatctgcagtaacaga	10	9	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr13:102231757G>T	uc001vpb.2	+	5	925	c.706G>T	c.(706-708)GGC>TGC	p.G236C	ITGBL1_uc010agb.2_Missense_Mutation_p.G187C|ITGBL1_uc001vpc.3_Missense_Mutation_p.G95C	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	236	V.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GTCTCCAGATGGCAAAATCTG	0.423													27	33	---	---	---	---	PASS	T	102231757	T	T	102231757	3	4	44	1	0	0	0	0	1	0	0	0	7902	1348	47	3	724	3	ITGBL1	13	102231757	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	13901560	102231757	12938121	690	17777										
OR4K5	79317	broad.mit.edu	37	chr14	20389723	20389723	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaatgtcactagtagtgagaActtcctttcattaagacaaa	6	7	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:20389723A>T	uc010tkw.1	+	1	958	c.958A>T	c.(958-960)ACT>TCT	p.T320S		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	320	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AGTAGTGAGAACTTCCTTTCA	0.358													22	126	---	---	---	---	PASS	T	20389723	T	T	20389723	3	4	44	1	0	0	0	0	1	0	0	0	11073	43	2	5	960	5	OR4K5	14	20389723	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08		20389723	86959817	691	17778										
RNASE13	440163	broad.mit.edu	37	chr14	21502089	21502089	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tattgtagtagcagctagtgGgtggctgttggtggctcagg	17	5	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:21502089G>C	uc001vzj.2	-	2	497	c.359C>G	c.(358-360)CCC>CGC	p.P120R	NDRG2_uc010tll.1_Intron	NM_001012264	NP_001012264	Q5GAN3	RNS13_HUMAN	ribonuclease, RNase A family, 13 precursor	120						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			upper_aerodigestive_tract(1)	1	all_cancers(95;0.000759)		OV - Ovarian serous cystadenocarcinoma(11;6.85e-11)|Epithelial(56;9.49e-09)|all cancers(55;3.84e-08)	GBM - Glioblastoma multiforme(265;0.019)		GCAGCTAGTGGGTGGCTGTTG	0.498													56	137	---	---	---	---	PASS	C	21502089	C	C	21502089	3	2	44	1	0	0	0	0	1	0	0	0	13403	1232	43	4	115	4	RNASE13	14	21502089	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1112366	21502089	85847451	692	17779										
SUPT16H	11198	broad.mit.edu	37	chr14	21831420	21831420	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttctgtaagtaatgctgccCgagaacctcttcccaaaagg	8	11	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:21831420C>A	uc001wao.2	-	12	1706	c.1367G>T	c.(1366-1368)CGG>CTG	p.R456L		NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	456	Potential.				DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		TAATGCTGCCCGAGAACCTCT	0.254													8	21	---	---	---	---	PASS	A	21831420	A	A	21831420	3	1	44	1	0	0	0	0	1	0	0	0	15393	652	23	1	1836	1	SUPT16H	14	21831420	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	329331	21831420	85518120	693	17780										
NFATC4	4776	broad.mit.edu	37	chr14	24838738	24838738	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggatgccccgccatgctgccGtctggccttgggagagcccc	14	16	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:24838738G>A	uc001wpc.2	+	2	455	c.134G>A	c.(133-135)CGT>CAT	p.R45H	NFATC4_uc010tok.1_Missense_Mutation_p.R108H|NFATC4_uc010tol.1_Missense_Mutation_p.R108H|NFATC4_uc010alr.2_Missense_Mutation_p.R108H|NFATC4_uc010als.2_Missense_Mutation_p.R58H|NFATC4_uc010tom.1_Missense_Mutation_p.R58H|NFATC4_uc010ton.1_Missense_Mutation_p.R58H|NFATC4_uc010too.1_Missense_Mutation_p.R58H|NFATC4_uc010alt.2_Missense_Mutation_p.R77H|NFATC4_uc010top.1_Missense_Mutation_p.R77H|NFATC4_uc010toq.1_Missense_Mutation_p.R77H|NFATC4_uc010alu.2_Missense_Mutation_p.R45H|NFATC4_uc010tor.1_Missense_Mutation_p.R45H|NFATC4_uc010tos.1_5'UTR|NFATC4_uc010tot.1_Missense_Mutation_p.R33H|NFATC4_uc010tou.1_5'UTR|NFATC4_uc010tov.1_Missense_Mutation_p.R33H|NFATC4_uc010tow.1_5'UTR|NFATC4_uc010alv.2_Missense_Mutation_p.R33H|NFATC4_uc010tox.1_5'UTR	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	45	Pro-rich.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		CCATGCTGCCGTCTGGCCTTG	0.622													88	242	---	---	---	---	PASS	A	24838738	A	A	24838738	3	1	44	1	0	0	0	0	1	0	0	0	10365	1145	40	1	333	1	NFATC4	14	24838738	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3007318	24838738	82510802	694	17781										
AKAP6	9472	broad.mit.edu	37	chr14	33292897	33292897	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttcccaagatgttagacatCttccaaagaaatgtccaaat	5	9	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:33292897C>T	uc001wrq.2	+	13	6048	c.5878C>T	c.(5878-5880)CTT>TTT	p.L1960F		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1960					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TGTTAGACATCTTCCAAAGAA	0.388													8	117	---	---	---	---	PASS	T	33292897	T	T	33292897	3	4	44	1	0	0	0	0	1	0	0	0	455	913	32	2	5924	2	AKAP6	14	33292897	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	8454159	33292897	74056643	695	17782										
LRFN5	145581	broad.mit.edu	37	chr14	42360792	42360792	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtttattcccaaactaacggGgctcaaatacaaggctgtag	9	9	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:42360792G>T	uc001wvm.2	+	4	2923	c.1725G>T	c.(1723-1725)GGG>GGT	p.G575G	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	575	Cytoplasmic (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AAACTAACGGGGCTCAAATAC	0.453										HNSCC(30;0.082)			21	46	---	---	---	---	PASS	T	42360792	T	T	42360792	2	4	44	1	0	0	0	0	0	0	0	1	8941	1219	43	3		3	LRFN5	14	42360792	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	9067895	42360792	64988748	696	17783										
SAMD4A	23034	broad.mit.edu	37	chr14	55168860	55168860	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atctgcctttgctgaagccaGgaaacctcgacgcgaaagta	10	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:55168860G>A	uc001xbb.2	+	2	275	c.274G>A	c.(274-276)GGA>AGA	p.G92R	SAMD4A_uc001xba.2_Missense_Mutation_p.G92R|SAMD4A_uc001xbc.2_Missense_Mutation_p.G92R|SAMD4A_uc001xbf.1_RNA|SAMD4A_uc001xbe.2_5'UTR	NM_015589	NP_056404	Q9UPU9	SMAG1_HUMAN	sterile alpha motif domain containing 4 isoform	93					positive regulation of translation	cell junction|cytoplasm|dendrite|synapse|synaptosome	translation repressor activity				0						GCTGAAGCCAGGAAACCTCGA	0.448													25	50	---	---	---	---	PASS	A	55168860	A	A	55168860	3	1	44	1	0	0	0	0	1	0	0	0	13821	1001	35	3	280	3	SAMD4A	14	55168860	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	12808068	55168860	52180680	697	17784										
SLC35F4	341880	broad.mit.edu	37	chr14	58056099	58056099	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctgtgtagttccaacccaaGatgatgatactgacaagatg	9	8	1	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:58056099G>A	uc001xdb.1	-	3	530	c.530C>T	c.(529-531)TCT>TTT	p.S177F	SLC35F4_uc010aoz.1_RNA|SLC35F4_uc010apa.1_Missense_Mutation_p.S18F	NM_001080455	NP_001073924			solute carrier family 35, member F4											ovary(2)	2						TCCAACCCAAGATGATGATAC	0.408													5	35	---	---	---	---	PASS	A	58056099	A	A	58056099	3	1	44	1	0	0	0	0	1	0	0	0	14591	942	33	2	1059	2	SLC35F4	14	58056099	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2887239	58056099	49293441	698	17785										
SYNE2	23224	broad.mit.edu	37	chr14	64467388	64467388	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttttgtaattaaggaaagaGacacactaaaggaaagagaa	9	4	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:64467388G>T	uc001xgm.2	+	28	3819	c.3589G>T	c.(3589-3591)GAC>TAC	p.D1197Y	SYNE2_uc001xgl.2_Missense_Mutation_p.D1197Y	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	1197	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)		TAAGGAAAGAGACACACTAAA	0.308													41	96	---	---	---	---	PASS	T	64467388	T	T	64467388	3	4	44	1	0	0	0	0	1	0	0	0	15443	942	33	2	3695	2	SYNE2	14	64467388	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	6411289	64467388	42882152	699	17786										
SYNE2	23224	broad.mit.edu	37	chr14	64519522	64519522	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggaggctgacagtatacagcGcaatgaactattacttaatc	9	8	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:64519522G>A	uc001xgm.2	+	48	9121	c.8891G>A	c.(8890-8892)CGC>CAC	p.R2964H	SYNE2_uc001xgl.2_Missense_Mutation_p.R2964H	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2964	Potential.|Cytoplasmic (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)		AGTATACAGCGCAATGAACTA	0.358													16	44	---	---	---	---	PASS	A	64519522	A	A	64519522	3	1	44	1	0	0	0	0	1	0	0	0	15443	1087	38	1	9077	1	SYNE2	14	64519522	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	52134	64519522	42830018	700	17787										
HEATR4	399671	broad.mit.edu	37	chr14	73987628	73987628	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agctcggggagtcacctggcGaaagtagctctgggtttggg	17	8	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:73987628G>T	uc010tub.1	-	4	1319	c.997C>A	c.(997-999)CGC>AGC	p.R333S	HEATR4_uc010tua.1_Missense_Mutation_p.R286S	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		GTCACCTGGCGAAAGTAGCTC	0.522													46	81	---	---	---	---	PASS	T	73987628	T	T	73987628	3	4	44	1	0	0	0	0	1	0	0	0	7030	1058	37	2	2143	2	HEATR4	14	73987628	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	9468106	73987628	33361912	701	17788										
SPATA7	55812	broad.mit.edu	37	chr14	88895791	88895791	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agattaaggatgatgctcttCagcattcctcaccaaggtaa	8	9	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:88895791C>T	uc001xwq.2	+	8	1163	c.1012C>T	c.(1012-1014)CAG>TAG	p.Q338*	SPATA7_uc001xwr.2_Nonsense_Mutation_p.Q306*|SPATA7_uc001xws.2_Nonsense_Mutation_p.Q274*|SPATA7_uc001xwt.2_Nonsense_Mutation_p.Q232*|SPATA7_uc001xwu.2_5'UTR	NM_018418	NP_060888	Q9P0W8	SPAT7_HUMAN	spermatogenesis-associated protein 7 isoform a	338					response to stimulus|visual perception					ovary(1)	1						TGATGCTCTTCAGCATTCCTC	0.373													4	82	---	---	---	---	PASS	T	88895791	T	T	88895791	4	4	44	1	0	0	0	0	0	1	0	0	15013	827	29	2	1042	2	SPATA7	14	88895791	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	14908163	88895791	18453749	702	17789										
ZC3H14	79882	broad.mit.edu	37	chr14	89039028	89039028	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atattaagccagaaccagatGatctcattgacgaagacctc	7	10	1	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:89039028G>A	uc001xww.2	+	6	763	c.538G>A	c.(538-540)GAT>AAT	p.D180N	ZC3H14_uc010twd.1_Missense_Mutation_p.D180N|ZC3H14_uc010twe.1_Missense_Mutation_p.D180N|ZC3H14_uc001xwx.2_Missense_Mutation_p.D180N|ZC3H14_uc010twf.1_Missense_Mutation_p.D25N|ZC3H14_uc001xwy.2_Missense_Mutation_p.D146N|ZC3H14_uc010twg.1_Missense_Mutation_p.D25N	NM_024824	NP_079100	Q6PJT7	ZC3HE_HUMAN	zinc finger CCCH-type containing 14 isoform 1	180						cytoplasm|cytoplasm|nuclear speck	protein binding|RNA binding|zinc ion binding			ovary(2)|skin(1)	3						AGAACCAGATGATCTCATTGA	0.438													63	118	---	---	---	---	PASS	A	89039028	A	A	89039028	3	1	44	1	0	0	0	0	1	0	0	0	17563	1290	45	2	560	2	ZC3H14	14	89039028	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	143237	89039028	18310512	703	17790										
RIN3	79890	broad.mit.edu	37	chr14	93118174	93118174	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttggaaattgccctgcacgCcctttgccgcccacctctga	8	17	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:93118174C>T	uc001yap.2	+	6	932	c.780C>T	c.(778-780)CGC>CGT	p.R260R	RIN3_uc010auk.2_5'UTR|RIN3_uc001yaq.2_Silent_p.R185R|RIN3_uc001yar.1_5'UTR|RIN3_uc001yas.1_5'UTR	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	260	Pro-rich.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				GCCCTGCACGCCCTTTGCCGC	0.468													13	131	---	---	---	---	PASS	T	93118174	T	T	93118174	2	4	44	1	0	0	0	0	0	0	0	1	13373	726	26	3		3	RIN3	14	93118174	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	4079146	93118174	14231366	704	17791										
RIN3	79890	broad.mit.edu	37	chr14	93142918	93142918	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcaatgtggagtacatgatgGagctcatggaccccgccctg	12	11	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:93142918G>A	uc001yap.2	+	8	2586	c.2434G>A	c.(2434-2436)GAG>AAG	p.E812K	RIN3_uc010auk.2_Missense_Mutation_p.E474K|RIN3_uc001yaq.2_Missense_Mutation_p.E737K|RIN3_uc001yas.1_Missense_Mutation_p.E474K	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	812	VPS9.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				GTACATGATGGAGCTCATGGA	0.622													14	62	---	---	---	---	PASS	A	93142918	A	A	93142918	3	1	44	1	0	0	0	0	1	0	0	0	13373	1175	41	2	2464	2	RIN3	14	93142918	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	24744	93142918	14206622	705	17792										
PRIMA1	145270	broad.mit.edu	37	chr14	94245620	94245620	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgtgtcggcagctgtcagtcActttggagcaggacttctgg	14	10	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:94245620A>G	uc001ybw.1	-	3	173	c.131T>C	c.(130-132)GTG>GCG	p.V44A	PRIMA1_uc001ybx.1_RNA	NM_178013	NP_821092	Q86XR5	PRIMA_HUMAN	proline rich membrane anchor 1 precursor	44	Extracellular (Potential).				neurotransmitter catabolic process	cell junction|integral to membrane|synapse				large_intestine(1)|skin(1)	2		all_cancers(154;0.127)		Epithelial(152;0.138)|COAD - Colon adenocarcinoma(157;0.229)		GCTGTCAGTCACTTTGGAGCA	0.363													12	28	---	---	---	---	PASS	G	94245620	G	G	94245620	3	3	44	1	0	0	0	0	1	0	0	0	12492	159	6	5	342	5	PRIMA1	14	94245620	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1102702	94245620	13103920	706	17793										
TCL1A	8115	broad.mit.edu	37	chr14	96178694	96178694	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctccccaggacgacgtcttCccgacgcaagagcacccgta	9	18	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:96178694C>G	uc001yfc.3	-	2	290	c.160G>C	c.(160-162)GAA>CAA	p.E54Q	TCL1A_uc001yfb.3_Missense_Mutation_p.E54Q	NM_001098725	NP_001092195	P56279	TCL1A_HUMAN	T-cell leukemia/lymphoma 1A	54					multicellular organismal development	endoplasmic reticulum|microsome				lung(1)	1		all_cancers(154;0.103)		COAD - Colon adenocarcinoma(157;0.205)|Epithelial(152;0.248)		ACGACGTCTTCCCGACGCAAG	0.567			T	TRA@	T-CLL								37	105	---	---	---	---	PASS	G	96178694	G	G	96178694	3	3	44	1	0	0	0	0	1	0	0	0	15701	864	30	2	192	2	TCL1A	14	96178694	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1933074	96178694	11170846	707	17794										
DEGS2	123099	broad.mit.edu	37	chr14	100615443	100615443	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacatgtagtgctcggccacGaagtggcccgagatggggtg	16	9	0	1	rs145891510		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr14:100615443G>A	uc001ygx.2	-	2	775	c.687C>T	c.(685-687)TTC>TTT	p.F229F		NM_206918	NP_996801	Q6QHC5	DEGS2_HUMAN	degenerative spermatocyte homolog 2, lipid	229	Helical; (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	sphingosine hydroxylase activity				0		Melanoma(154;0.212)				GCTCGGCCACGAAGTGGCCCG	0.622													37	135	---	---	---	---	PASS	A	100615443	A	A	100615443	2	1	44	1	0	0	0	0	0	0	0	1	4423	1049	37	2		2	DEGS2	14	100615443	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	4436749	100615443	6734097	708	17795										
MKRN3	7681	broad.mit.edu	37	chr15	23811259	23811259	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tatatacatgggcagtgcaaGgagggggagaactgtcgcta	15	6	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:23811259G>A	uc001ywh.3	+	1	806	c.330G>A	c.(328-330)AAG>AAA	p.K110K	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Silent_p.K110K	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	110	C3H1-type 1.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		GGCAGTGCAAGGAGGGGGAGA	0.597													30	100	---	---	---	---	PASS	A	23811259	A	A	23811259	2	1	44	1	0	0	0	0	0	0	0	1	9608	991	35	3		3	MKRN3	15	23811259	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08		23811259	78720133	709	17796										
MAGEL2	54551	broad.mit.edu	37	chr15	23890784	23890784	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cccaggggaaaatttgccgcTgctaccgggggtccgggctg	16	12	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:23890784T>A	uc001ywj.3	-	1	392	c.297A>T	c.(295-297)GCA>GCT	p.A99A		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		AATTTGCCGCTGCTACCGGGG	0.627													8	15	---	---	---	---	PASS	A	23890784	A	A	23890784	2	1	44	1	0	0	0	0	0	0	0	1	9189	1567	55	5		5	MAGEL2	15	23890784	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	79525	23890784	78640608	710	17797										
ATP10A	57194	broad.mit.edu	37	chr15	25932875	25932875	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttttgtagaagaagtacagcAccatgttggcaagtcgggag	13	6	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:25932875A>G	uc010ayu.2	-	16	3372	c.3266T>C	c.(3265-3267)GTG>GCG	p.V1089A		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1089	Helical; (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GAAGTACAGCACCATGTTGGC	0.498													47	136	---	---	---	---	PASS	G	25932875	G	G	25932875	3	3	44	1	0	0	0	0	1	0	0	0	1116	159	6	5	1257	5	ATP10A	15	25932875	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	2042091	25932875	76598517	711	17798										
ATP10A	57194	broad.mit.edu	37	chr15	25958918	25958918	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gggtgccggatcaccactgaCatcctcttgcggacggaatc	12	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:25958918C>T	uc010ayu.2	-	10	2353	c.2247G>A	c.(2245-2247)ATG>ATA	p.M749I		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	749	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TCACCACTGACATCCTCTTGC	0.602													26	81	---	---	---	---	PASS	T	25958918	T	T	25958918	3	4	44	1	0	0	0	0	1	0	0	0	1116	478	17	3	2300	3	ATP10A	15	25958918	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	26043	25958918	76572474	712	17799										
OCA2	4948	broad.mit.edu	37	chr15	28235790	28235790	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggccgccagagttctgtgcaCgatctggaaagaagcacagg	14	10	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:28235790C>A	uc001zbh.3	-	10	1158	c.1048G>T	c.(1048-1050)GTG>TTG	p.V350L	OCA2_uc010ayv.2_Intron	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	350	Cytoplasmic (Potential).		V -> M (in unclassified OCA).		eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		GTTCTGTGCACGATCTGGAAA	0.547									Oculocutaneous_Albinism				59	85	---	---	---	---	PASS	A	28235790	A	A	28235790	3	1	44	1	0	0	0	0	1	0	0	0	10815	536	19	1	1528	1	OCA2	15	28235790	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2276872	28235790	74295602	713	17800										
APBA2	321	broad.mit.edu	37	chr15	29393881	29393881	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgtagtgctgatggccagacGccgcatgccccggtcagcct	13	14	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:29393881G>C	uc001zck.2	+	9	1625	c.1418G>C	c.(1417-1419)CGC>CCC	p.R473P	APBA2_uc010azj.2_Missense_Mutation_p.R461P|APBA2_uc010uat.1_Missense_Mutation_p.R461P|APBA2_uc001zcl.2_Missense_Mutation_p.R461P|APBA2_uc001zcm.1_Missense_Mutation_p.R165P	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	473	PID.				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)		ATGGCCAGACGCCGCATGCCC	0.587													8	24	---	---	---	---	PASS	C	29393881	C	C	29393881	3	2	44	1	0	0	0	0	1	0	0	0	757	1087	38	4	1444	4	APBA2	15	29393881	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1158091	29393881	73137511	714	17801										
ARHGAP11A	9824	broad.mit.edu	37	chr15	32926224	32926224	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgtttgaaattcaatctaggGaaaaatggcagagaagtagt	11	4	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:32926224G>T	uc001zgy.1	+	10	2048	c.1326G>T	c.(1324-1326)GGG>GGT	p.G442G	ARHGAP11A_uc010ubw.1_Silent_p.G253G|ARHGAP11A_uc001zgw.2_Silent_p.G442G|ARHGAP11A_uc001zgx.2_Silent_p.G414G|ARHGAP11A_uc010ubx.1_Silent_p.G253G	NM_014783	NP_055598	Q6P4F7	RHGBA_HUMAN	Rho GTPase activating protein 11A isoform 1	442					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			skin(3)|breast(2)|urinary_tract(1)	6		all_lung(180;1.3e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)		TCAATCTAGGGAAAAATGGCA	0.353													9	23	---	---	---	---	PASS	T	32926224	T	T	32926224	2	4	44	1	0	0	0	0	0	0	0	1	863	1161	41	2		2	ARHGAP11A	15	32926224	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	3532343	32926224	69605168	715	17802										
ATPBD4	89978	broad.mit.edu	37	chr15	35834710	35834710	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcagctgtccttcccaccacTaaacaataaatcaagagagg	7	12	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:35834710T>A	uc001zja.2	-	2	86	c.24_splice	c.e2-1	p.S8_splice	ATPBD4_uc001ziz.2_5'UTR|ATPBD4_uc001zjb.2_Splice_Site_p.S8_splice	NM_080650	NP_542381	Q7L8W6	ATBD4_HUMAN	ATP binding domain 4 isoform 1												0		all_epithelial(112;2.11e-09)|Lung NSC(122;2.38e-08)|all_lung(180;3.65e-07)		all cancers(64;9.9e-19)|GBM - Glioblastoma multiforme(113;2.01e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)		TTCCCACCACTAAACAATAAA	0.373													56	176	---	---	---	---	PASS	A	35834710	A	A	35834710	5	1	44	1	0	0	0	0	0	0	1	0	1202	1536	53	5	1003	5	ATPBD4	15	35834710	Splice_Site	SNP	T	TCGA-22-5473-01A-01D-1632-08	2908486	35834710	66696682	716	17803										
C15orf52	388115	broad.mit.edu	37	chr15	40628788	40628788	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgttaccttcgggccctgcCagtcagcctctccttgcccc	8	19	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:40628788C>A	uc001zlh.3	-	9	1022	c.1006G>T	c.(1006-1008)GGC>TGC	p.G336C	C15orf52_uc001zli.1_3'UTR|C15orf52_uc010ucn.1_Missense_Mutation_p.G126C	NM_207380	NP_997263	Q6ZUT6	CO052_HUMAN	hypothetical protein LOC388115	336										large_intestine(1)	1		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.06e-06)|Colorectal(105;0.0107)|BRCA - Breast invasive adenocarcinoma(123;0.0505)|READ - Rectum adenocarcinoma(2;0.0649)|Lung(196;0.0781)|LUAD - Lung adenocarcinoma(183;0.0841)		CGGGCCCTGCCAGTCAGCCTC	0.642													49	143	---	---	---	---	PASS	A	40628788	A	A	40628788	3	1	44	1	0	0	0	0	1	0	0	0	1800	594	21	3	610	3	C15orf52	15	40628788	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4794078	40628788	61902604	717	17804										
DISP2	85455	broad.mit.edu	37	chr15	40660227	40660227	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctcacgctggtctggctgccCgcctccgccgtgctccacga	11	19	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:40660227C>A	uc001zlk.1	+	8	2003	c.1914C>A	c.(1912-1914)CCC>CCA	p.P638P		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	638	SSD.				smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		TCTGGCTGCCCGCCTCCGCCG	0.552													3	4	---	---	---	---	PASS	A	40660227	A	A	40660227	2	1	44	1	0	0	0	0	0	0	0	1	4540	639	23	1		1	DISP2	15	40660227	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	31439	40660227	61871165	718	17805										
RTF1	23168	broad.mit.edu	37	chr15	41770814	41770814	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cggcagtgcaagcctaccatCgtttctaatgtgagtgctga	11	10	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:41770814C>A	uc001zny.2	+	15	1821	c.1809C>A	c.(1807-1809)ATC>ATA	p.I603I		NM_015138	NP_055953	Q92541	RTF1_HUMAN	Paf1/RNA polymerase II complex component	603					histone modification|regulation of transcription, DNA-dependent|transcription initiation, DNA-dependent	nucleoplasm	protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(109;1.79e-19)|all_epithelial(112;8.18e-17)|Lung NSC(122;3.16e-11)|all_lung(180;8.14e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;1.15e-16)|GBM - Glioblastoma multiforme(113;1.81e-06)|BRCA - Breast invasive adenocarcinoma(123;0.119)		AGCCTACCATCGTTTCTAATG	0.398													5	208	---	---	---	---	PASS	A	41770814	A	A	41770814	2	1	44	1	0	0	0	0	0	0	0	1	13721	874	31	2		2	RTF1	15	41770814	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1110587	41770814	60760578	719	17806										
CAPN3	825	broad.mit.edu	37	chr15	42695083	42695083	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctacatcaacatgcgggaggTgtcccagcgcttccgcctgc	11	15	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:42695083T>G	uc001zpn.1	+	13	1934	c.1628T>G	c.(1627-1629)GTG>GGG	p.V543G	CAPN3_uc001zpk.1_Missense_Mutation_p.V316G|CAPN3_uc001zpl.1_Missense_Mutation_p.V456G|CAPN3_uc010udf.1_Missense_Mutation_p.V456G|CAPN3_uc010udg.1_Missense_Mutation_p.V408G|CAPN3_uc001zpo.1_Missense_Mutation_p.V543G|CAPN3_uc001zpp.1_Missense_Mutation_p.V495G|CAPN3_uc001zpq.1_Missense_Mutation_p.V31G|CAPN3_uc010bcv.1_5'Flank|CAPN3_uc001zpr.1_5'Flank|CAPN3_uc001zps.1_5'Flank|CAPN3_uc001zpt.1_5'Flank	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	543	Domain III.				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)		ATGCGGGAGGTGTCCCAGCGC	0.587													49	109	---	---	---	---	PASS	G	42695083	G	G	42695083	3	3	44	1	0	0	0	0	1	0	0	0	2628	1696	59	5	1730	5	CAPN3	15	42695083	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	924269	42695083	59836309	720	17807										
MAP1A	4130	broad.mit.edu	37	chr15	43819299	43819299	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcccatactcctgcacccttCtcttggggcacagccgagta	8	16	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:43819299C>G	uc001zrt.2	+	4	6095	c.5628C>G	c.(5626-5628)TTC>TTG	p.F1876L		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1876						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	CTGCACCCTTCTCTTGGGGCA	0.662													20	32	---	---	---	---	PASS	G	43819299	G	G	43819299	3	3	44	1	0	0	0	0	1	0	0	0	9227	912	32	2	5630	2	MAP1A	15	43819299	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1124216	43819299	58712093	721	17808										
FBN1	2200	broad.mit.edu	37	chr15	48719794	48719794	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggtcatgaatcctcggccatGgggacagagtttcttgaaag	13	8	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:48719794G>A	uc001zwx.1	-	58	7502	c.7174C>T	c.(7174-7176)CAT>TAT	p.H2392Y	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2392					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CCTCGGCCATGGGGACAGAGT	0.478													47	89	---	---	---	---	PASS	A	48719794	A	A	48719794	3	1	44	1	0	0	0	0	1	0	0	0	5702	1348	47	3	1477	3	FBN1	15	48719794	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4900495	48719794	53811598	722	17809										
FBN1	2200	broad.mit.edu	37	chr15	48788313	48788313	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttaccttcacatgtttttagAtcaggtttgtagataaatcc	6	7	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:48788313A>G	uc001zwx.1	-	20	2731	c.2403T>C	c.(2401-2403)GAT>GAC	p.D801D		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	801	EGF-like 12; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		ATGTTTTTAGATCAGGTTTGT	0.358													27	84	---	---	---	---	PASS	G	48788313	G	G	48788313	2	3	44	1	0	0	0	0	0	0	0	1	5702	330	12	5		5	FBN1	15	48788313	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	68519	48788313	53743079	723	17810										
CEP152	22995	broad.mit.edu	37	chr15	49048734	49048734	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tccatttctctttagcttcaGaaacagcaaatgatatctaa	4	9	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:49048734G>A	uc001zwy.2	-	20	2745	c.2711C>T	c.(2710-2712)TCT>TTT	p.S904F	CEP152_uc001zwz.2_Missense_Mutation_p.S904F|CEP152_uc001zxa.1_Missense_Mutation_p.S811F	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	904	Potential.				centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		TTTAGCTTCAGAAACAGCAAA	0.323													24	39	---	---	---	---	PASS	A	49048734	A	A	49048734	3	1	44	1	0	0	0	0	1	0	0	0	3248	942	33	2	2281	2	CEP152	15	49048734	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	260421	49048734	53482658	724	17811										
GLDN	342035	broad.mit.edu	37	chr15	51696579	51696579	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaaacttacttcaatctagcTgtagatgaaaagggcctttg	8	7	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:51696579T>C	uc002aba.2	+	10	1453	c.1284T>C	c.(1282-1284)GCT>GCC	p.A428A	GLDN_uc002abb.2_Silent_p.A304A	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	428	Extracellular (Potential).|Olfactomedin-like.				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		TCAATCTAGCTGTAGATGAAA	0.413													100	161	---	---	---	---	PASS	C	51696579	C	C	51696579	2	2	44	1	0	0	0	0	0	0	0	1	6434	1567	55	5		5	GLDN	15	51696579	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	2647845	51696579	50834813	725	17812										
DMXL2	23312	broad.mit.edu	37	chr15	51792045	51792045	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cccaaccttaaccaaatcatCaagatgaattgtttgttcta	4	10	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:51792045C>T	uc002abf.2	-	18	3601	c.3376G>A	c.(3376-3378)GAT>AAT	p.D1126N	DMXL2_uc010ufy.1_Missense_Mutation_p.D1126N|DMXL2_uc010bfa.2_Intron	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	1126						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		ACCAAATCATCAAGATGAATT	0.373													27	50	---	---	---	---	PASS	T	51792045	T	T	51792045	3	4	44	1	0	0	0	0	1	0	0	0	4595	826	29	2	5841	2	DMXL2	15	51792045	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	95466	51792045	50739347	726	17813										
WDR72	256764	broad.mit.edu	37	chr15	53908224	53908224	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcagttttactttttctcaGtgtcagtgtcttcttctcca	7	10	5	0	rs28470860		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:53908224G>T	uc002acj.2	-	15	2221	c.2179C>A	c.(2179-2181)CTG>ATG	p.L727M	WDR72_uc010bfi.1_Missense_Mutation_p.L727M	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	727										lung(1)|skin(1)	2				all cancers(107;0.0511)		CTTTTTCTCAGTGTCAGTGTC	0.473													26	71	---	---	---	---	PASS	T	53908224	T	T	53908224	3	4	44	1	0	0	0	0	1	0	0	0	17319	1020	36	3	1153	3	WDR72	15	53908224	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2116179	53908224	48623168	727	17814										
RNF111	54778	broad.mit.edu	37	chr15	59323142	59323142	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagggatccttttgcatccaGagcccattggggcagccaaa	11	11	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:59323142G>C	uc002afv.2	+	2	400	c.121G>C	c.(121-123)GAG>CAG	p.E41Q	RNF111_uc002afs.2_Missense_Mutation_p.E41Q|RNF111_uc002aft.2_Missense_Mutation_p.E41Q|RNF111_uc002afu.2_Missense_Mutation_p.E41Q|RNF111_uc002afw.2_Missense_Mutation_p.E41Q	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	41					multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		TTTGCATCCAGAGCCCATTGG	0.428													17	41	---	---	---	---	PASS	C	59323142	C	C	59323142	3	2	44	1	0	0	0	0	1	0	0	0	13425	943	33	2	123	2	RNF111	15	59323142	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5414918	59323142	43208250	728	17815										
PLEKHO2	80301	broad.mit.edu	37	chr15	65153733	65153733	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cacgggaccgggtgcgagggGgccagcgacgccggccacca	18	15	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:65153733G>A	uc002anv.2	+	5	576	c.442G>A	c.(442-444)GGC>AGC	p.G148S	PLEKHO2_uc010bgz.2_Intron|PLEKHO2_uc002anw.2_Missense_Mutation_p.G98S	NM_025201	NP_079477	Q8TD55	PKHO2_HUMAN	pleckstrin homology domain containing, family O	148										ovary(1)|lung(1)	2						GGTGCGAGGGGGCCAGCGACG	0.637													8	18	---	---	---	---	PASS	A	65153733	A	A	65153733	3	1	44	1	0	0	0	0	1	0	0	0	12085	1232	43	3	460	3	PLEKHO2	15	65153733	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5830591	65153733	37377659	729	17816										
DENND4A	10260	broad.mit.edu	37	chr15	66044854	66044854	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agaggctcttcggtaagtgaTataaattctttgtgatgagg	12	4	2	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:66044854T>G	uc002aph.2	-	4	802	c.424A>C	c.(424-426)ATC>CTC	p.I142L	DENND4A_uc002api.2_Missense_Mutation_p.I142L|DENND4A_uc002apj.3_Missense_Mutation_p.I142L|DENND4A_uc010ujj.1_Missense_Mutation_p.I142L	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	142	MABP.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CGGTAAGTGATATAAATTCTT	0.418													15	47	---	---	---	---	PASS	G	66044854	G	G	66044854	3	3	44	1	0	0	0	0	1	0	0	0	4433	1406	49	5	5416	5	DENND4A	15	66044854	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	891121	66044854	36486538	730	17817										
LBXCOR1	390598	broad.mit.edu	37	chr15	68119422	68119422	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggttttaggcgcgggcgagcCaaagggcggtcctggcactg	18	10	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:68119422C>T	uc002aqy.1	+	3	1124	c.1124C>T	c.(1123-1125)CCA>CTA	p.P375L		NM_001031807	NP_001026977	P84550	SKOR1_HUMAN	transcriptional corepressor Corl1	419					negative regulation of BMP signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|dendrite|neuronal cell body|nucleus	nucleotide binding|SMAD binding|transcription repressor activity				0						GCGGGCGAGCCAAAGGGCGGT	0.388													8	40	---	---	---	---	PASS	T	68119422	T	T	68119422	3	4	44	1	0	0	0	0	1	0	0	0	8655	594	21	3	1134	3	LBXCOR1	15	68119422	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2074568	68119422	34411970	731	17818										
FEM1B	10116	broad.mit.edu	37	chr15	68582929	68582929	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccagacatagaatgtgttttGagatgcagtgttttggaaat	11	4	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:68582929G>C	uc002arg.2	+	2	1848	c.1233G>C	c.(1231-1233)TTG>TTC	p.L411F	FEM1B_uc002arh.2_Missense_Mutation_p.L331F	NM_015322	NP_056137	Q9UK73	FEM1B_HUMAN	fem-1 homolog b	411					apoptosis|induction of apoptosis|regulation of DNA damage checkpoint|regulation of ubiquitin-protein ligase activity	cytoplasm|nucleus	death receptor binding|ubiquitin-protein ligase activity				0						AATGTGTTTTGAGATGCAGTG	0.363													4	162	---	---	---	---	PASS	C	68582929	C	C	68582929	3	2	44	1	0	0	0	0	1	0	0	0	5810	1281	45	2	1239	2	FEM1B	15	68582929	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	463507	68582929	33948463	732	17819										
UBL7	84993	broad.mit.edu	37	chr15	74738472	74738472	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gatgagctccagggctgcttGgatgtccccaccggtggcct	14	13	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:74738472G>A	uc002axw.1	-	11	1264	c.1102C>T	c.(1102-1104)CAA>TAA	p.Q368*	UBL7_uc002axx.1_Nonsense_Mutation_p.Q408*|UBL7_uc010bjr.1_Nonsense_Mutation_p.Q259*|UBL7_uc002axy.1_Nonsense_Mutation_p.Q368*|UBL7_uc002axz.1_Nonsense_Mutation_p.Q368*	NM_032907	NP_116296	Q96S82	UBL7_HUMAN	ubiquitin-like 7	368	UBA.						protein binding			ovary(1)	1						AGGGCTGCTTGGATGTCCCCA	0.642													53	89	---	---	---	---	PASS	A	74738472	A	A	74738472	4	1	44	1	0	0	0	0	0	1	0	0	16887	1357	47	3	44	3	UBL7	15	74738472	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	6155543	74738472	27792920	733	17820										
MAN2C1	4123	broad.mit.edu	37	chr15	75650580	75650580	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccaagaggtattgtagtgggTaggtcgctgcaggtgcccaa	15	8	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:75650580T>A	uc002baf.2	-	21	2526	c.2509A>T	c.(2509-2511)ACC>TCC	p.T837S	MAN2C1_uc002bag.2_Missense_Mutation_p.T837S|MAN2C1_uc002bah.2_Missense_Mutation_p.T854S|MAN2C1_uc010bkk.2_Missense_Mutation_p.T738S	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	837					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						TTGTAGTGGGTAGGTCGCTGC	0.597													17	77	---	---	---	---	PASS	A	75650580	A	A	75650580	3	1	44	1	0	0	0	0	1	0	0	0	9218	1638	57	5	637	5	MAN2C1	15	75650580	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	912108	75650580	26880812	734	17821										
SH2D7	646892	broad.mit.edu	37	chr15	78393758	78393758	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gggtggcccagccagggcccCacatcctggggccagtccca	14	17	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:78393758C>T	uc010blb.1	+	5	1163	c.1163C>T	c.(1162-1164)CCA>CTA	p.P388L		NM_001101404	NP_001094874	A6NKC9	SH2D7_HUMAN	SH2 domain containing 7	388											0						GCCAGGGCCCCACATCCTGGG	0.612													11	28	---	---	---	---	PASS	T	78393758	T	T	78393758	3	4	44	1	0	0	0	0	1	0	0	0	14239	594	21	3	1181	3	SH2D7	15	78393758	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2743178	78393758	24137634	735	17822										
IREB2	3658	broad.mit.edu	37	chr15	78757687	78757687	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tccatcctgcttgtccgacaGatcttacagttgaccattct	6	13	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:78757687G>C	uc002bdr.2	+	4	529	c.367G>C	c.(367-369)GAT>CAT	p.D123H	IREB2_uc010unb.1_5'UTR|IREB2_uc002bdq.2_Missense_Mutation_p.D123H	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	123							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		TTGTCCGACAGATCTTACAGT	0.408													16	82	---	---	---	---	PASS	C	78757687	C	C	78757687	3	2	44	1	0	0	0	0	1	0	0	0	7826	942	33	2	381	2	IREB2	15	78757687	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	363929	78757687	23773705	736	17823										
RASGRF1	5923	broad.mit.edu	37	chr15	79341890	79341890	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgttgggggcgacagtctggGtggactggatgcgctcattg	18	8	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:79341890G>A	uc002beq.2	-	4	947	c.572C>T	c.(571-573)ACC>ATC	p.T191I	RASGRF1_uc002bep.2_Missense_Mutation_p.T191I|RASGRF1_uc010blm.1_Missense_Mutation_p.T113I|RASGRF1_uc002ber.3_Missense_Mutation_p.T191I	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	191					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						GACAGTCTGGGTGGACTGGAT	0.547													23	45	---	---	---	---	PASS	A	79341890	A	A	79341890	3	1	44	1	0	0	0	0	1	0	0	0	13072	1261	44	3	3349	3	RASGRF1	15	79341890	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	584203	79341890	23189502	737	17824										
IQGAP1	8826	broad.mit.edu	37	chr15	91037999	91037999	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaaagcaaaaagatttctctGaaatatacagcagcaagact	6	7	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr15:91037999G>T	uc002bpl.1	+	36	4784	c.4683G>T	c.(4681-4683)CTG>CTT	p.L1561L	IQGAP1_uc010uqg.1_Silent_p.L182L	NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1561	C2.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			AGATTTCTCTGAAATATACAG	0.333													60	111	---	---	---	---	PASS	T	91037999	T	T	91037999	2	4	44	1	0	0	0	0	0	0	0	1	7814	1277	45	2		2	IQGAP1	15	91037999	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	11696109	91037999	11493393	738	17825										
NTHL1	4913	broad.mit.edu	37	chr16	2090045	2090045	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccattgatctcgtgccacagCtccctgtgggggtgggggct	15	12	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:2090045C>G	uc002col.1	-	6	838	c.819G>C	c.(817-819)GAG>GAC	p.E273D	NTHL1_uc002com.1_Missense_Mutation_p.E274D	NM_002528	NP_002519	P78549	NTHL1_HUMAN	nth endonuclease III-like 1	273					depyrimidination|nucleotide-excision repair, DNA incision, 5'-to lesion	nucleoplasm	4 iron, 4 sulfur cluster binding|double-stranded DNA binding|endonuclease activity|metal ion binding|oxidized pyrimidine base lesion DNA N-glycosylase activity|protein binding			lung(1)	1						CGTGCCACAGCTCCCTGTGGG	0.652								BER_DNA_glycosylases					4	136	---	---	---	---	PASS	G	2090045	G	G	2090045	3	3	44	1	0	0	0	0	1	0	0	0	10698	796	28	4	123	4	NTHL1	16	2090045	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08		2090045	88264708	739	17826										
ABCA3	21	broad.mit.edu	37	chr16	2326794	2326794	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cttttccttggctttctccaGaataccgaaaacctttgggg	8	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:2326794G>A	uc002cpy.1	-	33	5708	c.4996C>T	c.(4996-4998)CTG>TTG	p.L1666L	ABCA3_uc010bsk.1_Silent_p.L1608L	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1666					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				GCTTTCTCCAGAATACCGAAA	0.587													12	65	---	---	---	---	PASS	A	2326794	A	A	2326794	2	1	44	1	0	0	0	0	0	0	0	1	33	933	33	2		2	ABCA3	16	2326794	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	236749	2326794	88027959	740	17827										
ABCA3	21	broad.mit.edu	37	chr16	2349432	2349432	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atggagagggtggtggtcttCccggcaccgttgtggcccag	17	10	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:2349432C>T	uc002cpy.1	-	14	2425	c.1713G>A	c.(1711-1713)GGG>GGA	p.G571G	ABCA3_uc010bsk.1_Silent_p.G513G|ABCA3_uc010bsl.1_Silent_p.G571G	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	571	ABC transporter 1.|ATP 1 (Potential).				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				TGGTGGTCTTCCCGGCACCGT	0.647													29	139	---	---	---	---	PASS	T	2349432	T	T	2349432	2	4	44	1	0	0	0	0	0	0	0	1	33	842	30	2		2	ABCA3	16	2349432	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	22638	2349432	88005321	741	17828										
SRRM2	23524	broad.mit.edu	37	chr16	2815055	2815055	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cccagagctcaacaacaagtGtcttaccccccagagagaaa	7	14	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:2815055G>A	uc002crk.2	+	11	5075	c.4526G>A	c.(4525-4527)TGT>TAT	p.C1509Y	SRRM2_uc002crj.1_Missense_Mutation_p.C1413Y|SRRM2_uc002crl.1_Missense_Mutation_p.C1509Y|SRRM2_uc010bsu.1_Missense_Mutation_p.C1413Y	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1509	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						AACAACAAGTGTCTTACCCCC	0.537													51	196	---	---	---	---	PASS	A	2815055	A	A	2815055	3	1	44	1	0	0	0	0	1	0	0	0	15168	1377	48	3	4564	3	SRRM2	16	2815055	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	465623	2815055	87539698	742	17829										
ZSCAN10	84891	broad.mit.edu	37	chr16	3140292	3140292	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgcggccgaagctcttcccGcagcaaaggcacaggaagga	13	13	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:3140292G>A	uc002ctv.1	-	5	1066	c.978C>T	c.(976-978)TGC>TGT	p.C326C	ZSCAN10_uc002cty.1_5'UTR|ZSCAN10_uc002ctw.1_Silent_p.C244C|ZSCAN10_uc002ctx.1_Silent_p.C254C	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	326	C2H2-type 2.				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						AGCTCTTCCCGCAGCAAAGGC	0.697													19	70	---	---	---	---	PASS	A	3140292	A	A	3140292	2	1	44	1	0	0	0	0	0	0	0	1	18224	1079	38	1		1	ZSCAN10	16	3140292	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	325237	3140292	87214461	743	17830										
BTBD12	84464	broad.mit.edu	37	chr16	3641118	3641118	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attcacgttttcttgatcttCttcgtggtccttggatttca	7	9	5	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:3641118C>G	uc002cvp.2	-	12	3148	c.2521G>C	c.(2521-2523)GAA>CAA	p.E841Q		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	841	Potential.|Interaction with PLK1 and TERF2-TERF2IP.|Glu-rich.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TCTTGATCTTCTTCGTGGTCC	0.478								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				9	179	---	---	---	---	PASS	G	3641118	G	G	3641118	3	3	44	1	0	0	0	0	1	0	0	0	1540	922	32	2	2999	2	BTBD12	16	3641118	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	500826	3641118	86713635	744	17831										
ZNF500	26048	broad.mit.edu	37	chr16	4810574	4810574	+	Nonsense_Mutation	SNP	C	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaggtatacagccacgtcctCcaagttcacgggcacctgcc							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:4810574C>A	uc002cxp.1	-	5	926	c.679G>T	c.(679-681)GAG>TAG	p.E227*	ZNF500_uc002cxo.1_Nonsense_Mutation_p.E19*|ZNF500_uc010uxt.1_Nonsense_Mutation_p.E227*	NM_021646	NP_067678	O60304	ZN500_HUMAN	zinc finger protein 500	227	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						GCCACGTCCTCCAAGTTCACG	0.612													21	99	---	---	---	---	PASS	A	4810574	A	A	4810574	4	1	44	1	0	0	0	0	0	1	0	0	17945	864	30	2	771	2	ZNF500	16	4810574	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1169456	4810574	85544179	745	17832	413	2								
ZNF500	26048	broad.mit.edu	37	chr16	4810575	4810575	+	Missense_Mutation	SNP	C	A	A													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggtatacagccacgtcctcCaagttcacgggcacctgcca							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:4810575C>A	uc002cxp.1	-	5	925	c.678G>T	c.(676-678)TTG>TTT	p.L226F	ZNF500_uc002cxo.1_Missense_Mutation_p.L18F|ZNF500_uc010uxt.1_Missense_Mutation_p.L226F	NM_021646	NP_067678	O60304	ZN500_HUMAN	zinc finger protein 500	226	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						CCACGTCCTCCAAGTTCACGG	0.617													20	98	---	---	---	---	PASS	A	4810575	A	A	4810575	3	1	44	1	0	0	0	0	1	0	0	0	17945	593	21	3	772	3	ZNF500	16	4810575	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1	4810575	85544178	746	17833	413	2								
GRIN2A	2903	broad.mit.edu	37	chr16	9934639	9934639	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gagcgagccaactgccatgaCtgcccgttgatagaccacct	10	14	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:9934639C>A	uc002czo.3	-	7	2064	c.1516G>T	c.(1516-1518)GTC>TTC	p.V506F	GRIN2A_uc010uym.1_Missense_Mutation_p.V506F|GRIN2A_uc010uyn.1_Missense_Mutation_p.V349F|GRIN2A_uc002czr.3_Missense_Mutation_p.V506F	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	506	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ACTGCCATGACTGCCCGTTGA	0.443													42	33	---	---	---	---	PASS	A	9934639	A	A	9934639	3	1	44	1	0	0	0	0	1	0	0	0	6779	565	20	3	2906	3	GRIN2A	16	9934639	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	5124064	9934639	80420114	747	17834										
GRIN2A	2903	broad.mit.edu	37	chr16	10032171	10032171	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agagtggatcttcttcagctGgacttgtgtctttgcatcct	10	9	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:10032171G>T	uc002czo.3	-	3	1200	c.652C>A	c.(652-654)CAG>AAG	p.Q218K	GRIN2A_uc010uym.1_Missense_Mutation_p.Q218K|GRIN2A_uc010uyn.1_Missense_Mutation_p.Q61K|GRIN2A_uc002czr.3_Missense_Mutation_p.Q218K	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	218	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TTCTTCAGCTGGACTTGTGTC	0.517													20	103	---	---	---	---	PASS	T	10032171	T	T	10032171	3	4	44	1	0	0	0	0	1	0	0	0	6779	1357	47	3	3786	3	GRIN2A	16	10032171	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	97532	10032171	80322582	748	17835										
XYLT1	64131	broad.mit.edu	37	chr16	17211612	17211612	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	actgtccagaccccaggcctCaggggcaagttcaaaggggg	14	12	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:17211612C>G	uc002dfa.2	-	11	2533	c.2448G>C	c.(2446-2448)CTG>CTC	p.L816L		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	816	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						CCCCAGGCCTCAGGGGCAAGT	0.552													15	50	---	---	---	---	PASS	G	17211612	G	G	17211612	2	3	44	1	0	0	0	0	0	0	0	1	17460	813	29	2		2	XYLT1	16	17211612	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	7179441	17211612	73143141	749	17836										
TMC7	79905	broad.mit.edu	37	chr16	19033093	19033093	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagatcaccaacagcagcttCgtgctcattcctttcaaaga	6	12	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:19033093C>T	uc002dfq.2	+	4	733	c.603C>T	c.(601-603)TTC>TTT	p.F201F	TMC7_uc010vao.1_Silent_p.F201F|TMC7_uc002dfp.2_Silent_p.F201F|TMC7_uc010vap.1_Silent_p.F91F	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	201	Cytoplasmic (Potential).					integral to membrane				skin(2)|ovary(1)	3						ACAGCAGCTTCGTGCTCATTC	0.423													4	108	---	---	---	---	PASS	T	19033093	T	T	19033093	2	4	44	1	0	0	0	0	0	0	0	1	15987	883	31	2		2	TMC7	16	19033093	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1821481	19033093	71321660	750	17837										
ACSM2A	123876	broad.mit.edu	37	chr16	20482472	20482472	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctacttcactagtgggaccaGtggtcttcccaagatggcag	11	11	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:20482472G>T	uc010bwe.2	+	6	913	c.674G>T	c.(673-675)AGT>ATT	p.S225I	ACSM2A_uc010bwd.1_Intron|ACSM2A_uc010vax.1_Missense_Mutation_p.S146I|ACSM2A_uc002dhf.3_Missense_Mutation_p.S225I|ACSM2A_uc002dhg.3_Missense_Mutation_p.S225I|ACSM2A_uc010vay.1_Missense_Mutation_p.S146I	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	225	ATP.				fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						AGTGGGACCAGTGGTCTTCCC	0.512													45	72	---	---	---	---	PASS	T	20482472	T	T	20482472	3	4	44	1	0	0	0	0	1	0	0	0	183	1029	36	3	688	3	ACSM2A	16	20482472	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1449379	20482472	69872281	751	17838										
THUMPD1	55623	broad.mit.edu	37	chr16	20749105	20749105	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtacacaatctgaaatgtccCtttgtttggagctttaaacc	7	9	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:20749105C>T	uc002dho.2	-	3	718	c.580G>A	c.(580-582)GGG>AGG	p.G194R	THUMPD1_uc010vaz.1_Missense_Mutation_p.G47R|THUMPD1_uc002dhp.2_Missense_Mutation_p.G194R	NM_017736	NP_060206	Q9NXG2	THUM1_HUMAN	THUMP domain containing 1	194	THUMP.										0						TGAAATGTCCCTTTGTTTGGA	0.363													27	97	---	---	---	---	PASS	T	20749105	T	T	20749105	3	4	44	1	0	0	0	0	1	0	0	0	15879	681	24	3	489	3	THUMPD1	16	20749105	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	266633	20749105	69605648	752	17839										
DNAH3	55567	broad.mit.edu	37	chr16	20976398	20976398	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagtcgtcattcagggcctgGagccgatctaccaccagctt	10	13	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:20976398G>C	uc010vbe.1	-	53	8808	c.8808C>G	c.(8806-8808)CTC>CTG	p.L2936L	DNAH3_uc010vbd.1_Silent_p.L371L	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2936	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TCAGGGCCTGGAGCCGATCTA	0.522													100	312	---	---	---	---	PASS	C	20976398	C	C	20976398	2	2	44	1	0	0	0	0	0	0	0	1	4603	1161	41	2		2	DNAH3	16	20976398	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	227293	20976398	69378355	753	17840										
EEF2K	29904	broad.mit.edu	37	chr16	22269837	22269837	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atcagccaagaccatcttgaGaggaacagaggaaaaatgtg	11	7	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:22269837G>A	uc002dki.2	+	10	1537	c.1052G>A	c.(1051-1053)AGA>AAA	p.R351K	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	351					insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		ACCATCTTGAGAGGAACAGAG	0.532													40	65	---	---	---	---	PASS	A	22269837	A	A	22269837	3	1	44	1	0	0	0	0	1	0	0	0	4930	942	33	2	1086	2	EEF2K	16	22269837	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1293439	22269837	68084916	754	17841										
LCMT1	51451	broad.mit.edu	37	chr16	25123230	25123230	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cactaggcagagggaatcctCtatcacctcctgctgttcca	8	14	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:25123230C>G	uc002dnx.1	+	1	184	c.26C>G	c.(25-27)TCT>TGT	p.S9C	LCMT1_uc002dny.1_Missense_Mutation_p.S9C|LCMT1_uc002dnz.1_5'UTR|LCMT1_uc002doa.1_5'UTR|LCMT1_uc002dnw.1_RNA	NM_016309	NP_057393	Q9UIC8	LCMT1_HUMAN	leucine carboxyl methyltransferase 1 isoform a	9							protein binding|protein C-terminal carboxyl O-methyltransferase activity|S-adenosylmethionine-dependent methyltransferase activity				0				GBM - Glioblastoma multiforme(48;0.0336)	L-Leucine(DB00149)	AGGGAATCCTCTATCACCTCC	0.682													6	36	---	---	---	---	PASS	G	25123230	G	G	25123230	3	3	44	1	0	0	0	0	1	0	0	0	8678	913	32	2	28	2	LCMT1	16	25123230	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2853393	25123230	65231523	755	17842										
KIAA0556	23247	broad.mit.edu	37	chr16	27786317	27786317	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctggagggtgtgggcggggAcgtccgcaccccagacaagc	17	13	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:27786317A>C	uc002dow.2	+	24	4385	c.4361A>C	c.(4360-4362)GAC>GCC	p.D1454A		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	1454										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						GTGGGCGGGGACGTCCGCACC	0.627													28	95	---	---	---	---	PASS	C	27786317	C	C	27786317	3	2	44	1	0	0	0	0	1	0	0	0	8183	275	10	5	4455	5	KIAA0556	16	27786317	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	2663087	27786317	62568436	756	17843										
ATP2A1	487	broad.mit.edu	37	chr16	28913589	28913589	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacttggtgaccgacgggctCccagccacagccctgggctt	12	15	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:28913589C>G	uc002dro.1	+	17	2590	c.2406C>G	c.(2404-2406)CTC>CTG	p.L802L	uc010vct.1_Intron|ATP2A1_uc002drn.1_Silent_p.L802L|ATP2A1_uc002drp.1_Silent_p.L677L	NM_173201	NP_775293	O14983	AT2A1_HUMAN	ATPase, Ca++ transporting, fast twitch 1 isoform	802	Interacts with phospholamban 2 (By similarity).|Helical; Name=6; (By similarity).				apoptosis in response to endoplasmic reticulum stress|apoptotic mitochondrial changes|ATP biosynthetic process|calcium ion import|elevation of endoplasmic reticulum calcium ion concentration|elevation of mitochondrial calcium ion concentration|maintenance of mitochondrion location|negative regulation of striated muscle contraction|platelet activation|positive regulation of fast-twitch skeletal muscle fiber contraction|reduction of endoplasmic reticulum calcium ion concentration|relaxation of skeletal muscle|response to endoplasmic reticulum stress	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|H zone|I band|microsome|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum|sarcoplasmic reticulum membrane	ATP binding|ATP binding|calcium ion binding|calcium ion binding|calcium-transporting ATPase activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CCGACGGGCTCCCAGCCACAG	0.657													49	141	---	---	---	---	PASS	G	28913589	G	G	28913589	2	3	44	1	0	0	0	0	0	0	0	1	1136	842	30	2		2	ATP2A1	16	28913589	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1127272	28913589	61441164	757	17844										
ATP2A1	487	broad.mit.edu	37	chr16	28914425	28914425	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctgggctccatctgcctctCcatgtccctgcacttcctca	7	18	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:28914425C>T	uc002dro.1	+	20	3003	c.2819C>T	c.(2818-2820)TCC>TTC	p.S940F	uc010vct.1_Intron|ATP2A1_uc002drn.1_Missense_Mutation_p.S940F|ATP2A1_uc002drp.1_Missense_Mutation_p.S815F	NM_173201	NP_775293	O14983	AT2A1_HUMAN	ATPase, Ca++ transporting, fast twitch 1 isoform	940	Helical; Name=9; (By similarity).				apoptosis in response to endoplasmic reticulum stress|apoptotic mitochondrial changes|ATP biosynthetic process|calcium ion import|elevation of endoplasmic reticulum calcium ion concentration|elevation of mitochondrial calcium ion concentration|maintenance of mitochondrion location|negative regulation of striated muscle contraction|platelet activation|positive regulation of fast-twitch skeletal muscle fiber contraction|reduction of endoplasmic reticulum calcium ion concentration|relaxation of skeletal muscle|response to endoplasmic reticulum stress	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|H zone|I band|microsome|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum|sarcoplasmic reticulum membrane	ATP binding|ATP binding|calcium ion binding|calcium ion binding|calcium-transporting ATPase activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						ATCTGCCTCTCCATGTCCCTG	0.662													44	122	---	---	---	---	PASS	T	28914425	T	T	28914425	3	4	44	1	0	0	0	0	1	0	0	0	1136	855	30	2	2897	2	ATP2A1	16	28914425	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	836	28914425	61440328	758	17845										
SLC5A2	6524	broad.mit.edu	37	chr16	31500570	31500570	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctttcctctgcggcgtgcacTacctctacttcgccattgtg	8	15	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:31500570T>G	uc002ecf.3	+	12	1595	c.1576T>G	c.(1576-1578)TAC>GAC	p.Y526D	SLC5A2_uc010car.2_RNA|C16orf58_uc002ecg.2_RNA	NM_003041	NP_003032	P31639	SC5A2_HUMAN	solute carrier family 5 (sodium/glucose	526	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	low-affinity glucose:sodium symporter activity			ovary(1)	1						CGGCGTGCACTACCTCTACTT	0.642													4	77	---	---	---	---	PASS	G	31500570	G	G	31500570	3	3	44	1	0	0	0	0	1	0	0	0	14665	1522	53	5	1622	5	SLC5A2	16	31500570	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	2586145	31500570	58854183	759	17846										
PHKB	5257	broad.mit.edu	37	chr16	47675523	47675523	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctttagacttcaagtttttCtgaacacatatggtattcaa	5	7	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:47675523C>G	uc002eev.3	+	16	1580	c.1528C>G	c.(1528-1530)CTG>GTG	p.L510V	PHKB_uc002eeu.3_Missense_Mutation_p.L503V	NM_000293	NP_000284	Q93100	KPBB_HUMAN	phosphorylase kinase, beta isoform a	510					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				TCAAGTTTTTCTGAACACATA	0.378													22	41	---	---	---	---	PASS	G	47675523	G	G	47675523	3	3	44	1	0	0	0	0	1	0	0	0	11845	912	32	2	1649	2	PHKB	16	47675523	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	16174953	47675523	42679230	760	17847										
CYLD	1540	broad.mit.edu	37	chr16	50783821	50783821	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggcaagaaaaatcagattgGattaaaaattctagagcaac	8	5	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:50783821G>T	uc002egp.1	+	4	627	c.212G>T	c.(211-213)GGA>GTA	p.G71V	CYLD_uc002egn.1_Missense_Mutation_p.G71V|CYLD_uc002ego.2_Missense_Mutation_p.G71V|CYLD_uc010cbs.1_Missense_Mutation_p.G71V|CYLD_uc002egq.1_Missense_Mutation_p.G71V|CYLD_uc002egr.1_Missense_Mutation_p.G71V|CYLD_uc002egs.1_Missense_Mutation_p.G71V	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	71					cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				AATCAGATTGGATTAAAAATT	0.373			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				81	58	---	---	---	---	PASS	T	50783821	T	T	50783821	3	4	44	1	0	0	0	0	1	0	0	0	4143	1174	41	2	214	2	CYLD	16	50783821	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3108298	50783821	39570932	761	17848										
CHD9	80205	broad.mit.edu	37	chr16	53358337	53358337	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cggaatctgggacagaagacAaaaagggaagtgactctaag	13	6	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:53358337A>T	uc002ehb.2	+	38	8388	c.8224A>T	c.(8224-8226)AAA>TAA	p.K2742*	CHD9_uc002egy.2_Nonsense_Mutation_p.K2726*|CHD9_uc002ehc.2_Nonsense_Mutation_p.K2727*|CHD9_uc002ehf.2_Nonsense_Mutation_p.K1840*|CHD9_uc010cbw.2_Nonsense_Mutation_p.K808*	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	2742					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)				GACAGAAGACAAAAAGGGAAG	0.473													24	38	---	---	---	---	PASS	T	53358337	T	T	53358337	4	4	44	1	0	0	0	0	0	1	0	0	3332	131	5	5	8326	5	CHD9	16	53358337	Nonsense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	2574516	53358337	36996416	762	17849										
ELMO3	79767	broad.mit.edu	37	chr16	67233628	67233628	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcgttacgccctgcagtttgCggatgggcaccggagataca	14	11	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:67233628C>A	uc002esa.2	+	3	363	c.320C>A	c.(319-321)GCG>GAG	p.A107E	ELMO3_uc002esb.2_Missense_Mutation_p.A107E|ELMO3_uc002esc.2_5'UTR	NM_024712	NP_078988	Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3	54					apoptosis|phagocytosis	cytoplasm|cytoskeleton	SH3 domain binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		CTGCAGTTTGCGGATGGGCAC	0.682													16	10	---	---	---	---	PASS	A	67233628	A	A	67233628	3	1	44	1	0	0	0	0	1	0	0	0	5067	768	27	1	330	1	ELMO3	16	67233628	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	13875291	67233628	23121125	763	17850										
PLEKHG4	25894	broad.mit.edu	37	chr16	67316211	67316211	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggccgggagctgacatggctGaagcaagaggtcccagaggt	17	9	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:67316211G>A	uc002eso.3	+	8	3747	c.1212G>A	c.(1210-1212)CTG>CTA	p.L404L	PLEKHG4_uc002esp.3_Silent_p.L211L|PLEKHG4_uc002esq.3_Silent_p.L404L|PLEKHG4_uc010cef.2_Silent_p.L404L|PLEKHG4_uc002ess.3_Silent_p.L404L|PLEKHG4_uc010ceg.2_Silent_p.L323L	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	404					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		TGACATGGCTGAAGCAAGAGG	0.612													13	23	---	---	---	---	PASS	A	67316211	A	A	67316211	2	1	44	1	0	0	0	0	0	0	0	1	12071	1277	45	2		2	PLEKHG4	16	67316211	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	82583	67316211	23038542	764	17851										
CHTF8	54921	broad.mit.edu	37	chr16	69154502	69154502	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcaaaaggtttctccaggtgGatgattttcccatacaggat	10	8	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:69154502G>A	uc002ewn.1	-	4	293	c.192C>T	c.(190-192)ATC>ATT	p.I64I	CHTF8_uc002ewm.1_5'UTR|CHTF8_uc002ewo.1_Silent_p.I45I|CHTF8_uc002ewp.1_Silent_p.I64I	NM_001040146	NP_001035236	P0CG13	CTF8_HUMAN	chromosome transmission fidelity factor 8	64					cell cycle|DNA replication	nucleus	DNA binding				0						TCTCCAGGTGGATGATTTTCC	0.537													18	62	---	---	---	---	PASS	A	69154502	A	A	69154502	2	1	44	1	0	0	0	0	0	0	0	1	3415	1164	41	2		2	CHTF8	16	69154502	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1838291	69154502	21200251	765	17852										
PDPR	55066	broad.mit.edu	37	chr16	70177543	70177543	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgaaaatgactgcagcatagCacgactgaacaagcgcaggt	11	9	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:70177543C>G	uc002eyf.1	+	14	2693	c.1736C>G	c.(1735-1737)GCA>GGA	p.A579G	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.A479G|PDPR_uc002eyg.1_Missense_Mutation_p.A307G|PDPR_uc002eyh.2_5'Flank|PDPR_uc010vls.1_5'Flank	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	579					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)		TGCAGCATAGCACGACTGAAC	0.552													3	37	---	---	---	---	PASS	G	70177543	G	G	70177543	3	3	44	1	0	0	0	0	1	0	0	0	11689	710	25	4	1782	4	PDPR	16	70177543	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1023041	70177543	20177210	766	17853										
PHLPP2	23035	broad.mit.edu	37	chr16	71682897	71682897	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttcatttgttccttcacttCttcttccaggtcatgaggca	6	11	5	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:71682897C>G	uc002fax.2	-	18	3874	c.3868G>C	c.(3868-3870)GAA>CAA	p.E1290Q	PHLPP2_uc002fav.2_Intron|PHLPP2_uc010cgf.2_Missense_Mutation_p.E1223Q	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	1290						cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						TCCTTCACTTCTTCTTCCAGG	0.557													3	100	---	---	---	---	PASS	G	71682897	G	G	71682897	3	3	44	1	0	0	0	0	1	0	0	0	11855	922	32	2	107	2	PHLPP2	16	71682897	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1505354	71682897	18671856	767	17854										
PSMD7	5713	broad.mit.edu	37	chr16	74339345	74339345	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccaccagatcatctaccagcTgcaggacgtcttcaacctgc	7	16	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:74339345T>A	uc002fcq.2	+	7	821	c.689T>A	c.(688-690)CTG>CAG	p.L230Q	PSMD7_uc010vmr.1_Missense_Mutation_p.L153Q	NM_002811	NP_002802	P51665	PSD7_HUMAN	proteasome 26S non-ATPase subunit 7	230					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding				0						ATCTACCAGCTGCAGGACGTC	0.527													27	12	---	---	---	---	PASS	A	74339345	A	A	74339345	3	1	44	1	0	0	0	0	1	0	0	0	12703	1580	55	5	715	5	PSMD7	16	74339345	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	2656448	74339345	16015408	768	17855										
WDR59	79726	broad.mit.edu	37	chr16	74949878	74949878	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttccaggagatttctaggggGatcttcttttagggctagca	12	7	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:74949878G>A	uc002fdh.1	-	13	1216	c.1114C>T	c.(1114-1116)CCC>TCC	p.P372S	WDR59_uc002fdi.2_Missense_Mutation_p.P372S|WDR59_uc002fdj.2_Missense_Mutation_p.P372S|WDR59_uc002fdg.1_5'UTR	NM_030581	NP_085058	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	372										ovary(1)|breast(1)	2						TTTCTAGGGGGATCTTCTTTT	0.463													24	84	---	---	---	---	PASS	A	74949878	A	A	74949878	3	1	44	1	0	0	0	0	1	0	0	0	17305	1174	41	2	1866	2	WDR59	16	74949878	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	610533	74949878	15404875	769	17856										
MAF	4094	broad.mit.edu	37	chr16	79632723	79632723	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gggttgtcgctgctcgagccGttttctcggaagccgctgct	14	12	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:79632723G>C	uc002ffn.2	-	1	1900	c.1077C>G	c.(1075-1077)AAC>AAG	p.N359K	MAF_uc002ffm.2_Missense_Mutation_p.N359K	NM_001031804	NP_001026974	O75444	MAF_HUMAN	v-maf musculoaponeurotic fibrosarcoma oncogene	359	Represses ARE-mediated transcription.				transcription from RNA polymerase II promoter	chromatin|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_epithelial(2;0.139)|Lung NSC(2;0.186)|Melanoma(2;0.211)		UCEC - Uterine corpus endometrioid carcinoma (2;0.0178)		TGCTCGAGCCGTTTTCTCGGA	0.592			T	IGH@	MM								15	21	---	---	---	---	PASS	C	79632723	C	C	79632723	3	2	44	1	0	0	0	0	1	0	0	0	9155	1136	40	4	146	4	MAF	16	79632723	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4682845	79632723	10722030	770	17857										
TAF1C	9013	broad.mit.edu	37	chr16	84212912	84212912	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgggtccggcgcttgggccGcctggtctgtctcccgggct	16	15	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr16:84212912G>A	uc002fhn.2	-	14	2473	c.2245C>T	c.(2245-2247)CGG>TGG	p.R749W	TAF1C_uc002fhm.2_Missense_Mutation_p.R655W|TAF1C_uc010vnx.1_Missense_Mutation_p.R723W|TAF1C_uc010vny.1_Missense_Mutation_p.R340W|TAF1C_uc010vnz.1_Missense_Mutation_p.R417W|TAF1C_uc002fho.2_Missense_Mutation_p.R272W|TAF1C_uc010voa.1_Missense_Mutation_p.R417W|TAF1C_uc002fhp.1_Intron	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	749					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						CGCTTGGGCCGCCTGGTCTGT	0.687													11	11	---	---	---	---	PASS	A	84212912	A	A	84212912	3	1	44	1	0	0	0	0	1	0	0	0	15518	1086	38	1	368	1	TAF1C	16	84212912	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4580189	84212912	6141841	771	17858										
NXN	64359	broad.mit.edu	37	chr17	729316	729316	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cggtatttgttccaaagtttGagctgtatgaagaaaagcaa	10	5	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:729316G>C	uc002fsa.2	-	2	455	c.363C>G	c.(361-363)CTC>CTG	p.L121L	NXN_uc002fsb.1_Silent_p.L8L|NXN_uc002frz.2_5'UTR|NXN_uc010vqe.1_Silent_p.L13L	NM_022463	NP_071908	Q6DKJ4	NXN_HUMAN	nucleoredoxin	121					cell differentiation|cell redox homeostasis|multicellular organismal development|Wnt receptor signaling pathway	cytosol|nucleus	protein-disulfide reductase activity			ovary(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (25;0.0237)		TCCAAAGTTTGAGCTGTATGA	0.468													13	39	---	---	---	---	PASS	C	729316	C	C	729316	2	2	44	1	0	0	0	0	0	0	0	1	10787	1277	45	2		2	NXN	17	729316	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08		729316	80465894	772	17859										
SGSM2	9905	broad.mit.edu	37	chr17	2279103	2279103	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccccaggatcccagccaggaGaagcctcaggccggagaact	12	15	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:2279103G>A	uc002fun.3	+	17	2458	c.2283G>A	c.(2281-2283)GAG>GAA	p.E761E	SGSM2_uc002fum.3_Silent_p.E806E|SGSM2_uc010vqw.1_Silent_p.E761E|SGSM2_uc002fup.1_5'UTR|SGSM2_uc002fuq.2_5'Flank	NM_001098509	NP_001091979	O43147	SGSM2_HUMAN	RUN and TBC1 domain containing 1 isoform 2	761	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0				Colorectal(2;5.15e-05)|READ - Rectum adenocarcinoma(2;0.000115)		CCAGCCAGGAGAAGCCTCAGG	0.677													66	37	---	---	---	---	PASS	A	2279103	A	A	2279103	2	1	44	1	0	0	0	0	0	0	0	1	14223	933	33	2		2	SGSM2	17	2279103	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1549787	2279103	78916107	773	17860										
NLRP1	22861	broad.mit.edu	37	chr17	5418228	5418228	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acagcttccgcatctggctgGgcctcgtgttctcagccagc	11	15	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:5418228G>T	uc002gci.2	-	17	4823	c.4268C>A	c.(4267-4269)CCC>CAC	p.P1423H	NLRP1_uc002gcg.1_Intron|NLRP1_uc002gck.2_Missense_Mutation_p.P1379H|NLRP1_uc002gcj.2_Missense_Mutation_p.P1393H|NLRP1_uc002gcl.2_Missense_Mutation_p.P1349H|NLRP1_uc002gch.3_Missense_Mutation_p.P1379H	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1423	CARD.				defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				CATCTGGCTGGGCCTCGTGTT	0.572													32	24	---	---	---	---	PASS	T	5418228	T	T	5418228	3	4	44	1	0	0	0	0	1	0	0	0	10471	1232	43	3	220	3	NLRP1	17	5418228	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3139125	5418228	75776982	774	17861										
ACADVL	37	broad.mit.edu	37	chr17	7124370	7124370	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gggtggtgtgggcctttgcaAcacccaggtgagggcgccct	17	11	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:7124370A>T	uc002gev.2	+	6	621	c.470A>T	c.(469-471)AAC>ATC	p.N157I	DLG4_uc002get.3_5'Flank|DLG4_uc010vto.1_5'Flank|ACADVL_uc010vtp.1_Missense_Mutation_p.N167I|ACADVL_uc010vtq.1_Missense_Mutation_p.N203I|ACADVL_uc002gew.2_Missense_Mutation_p.N135I|ACADVL_uc002gex.2_Missense_Mutation_p.N81I	NM_000018	NP_000009	P49748	ACADV_HUMAN	acyl-Coenzyme A dehydrogenase, very long chain	157	Catalytic.				energy derivation by oxidation of organic compounds|fatty acid beta-oxidation using acyl-CoA dehydrogenase|negative regulation of fatty acid biosynthetic process|negative regulation of fatty acid oxidation|regulation of cholesterol metabolic process|temperature homeostasis	mitochondrial inner membrane|mitochondrial nucleoid	long-chain-acyl-CoA dehydrogenase activity			ovary(3)	3						GGCCTTTGCAACACCCAGGTG	0.597													44	31	---	---	---	---	PASS	T	7124370	T	T	7124370	3	4	44	1	0	0	0	0	1	0	0	0	116	43	2	5	492	5	ACADVL	17	7124370	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1706142	7124370	74070840	775	17862										
TP53	7157	broad.mit.edu	37	chr17	7577046	7577046	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtgctccctgggggcagctCgtggtgaggctcccctttct	14	13	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:7577046C>A	uc002gim.2	-	8	1086	c.892G>T	c.(892-894)GAG>TAG	p.E298*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.E298*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.E166*|TP53_uc010cng.1_Nonsense_Mutation_p.E166*|TP53_uc002gii.1_Nonsense_Mutation_p.E166*|TP53_uc010cnh.1_Nonsense_Mutation_p.E298*|TP53_uc010cni.1_Nonsense_Mutation_p.E298*|TP53_uc002gij.2_Nonsense_Mutation_p.E298*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	298	Interaction with HIPK1 (By similarity).		E -> V (in sporadic cancers; somatic mutation).|E -> Q (in sporadic cancers; somatic mutation).|E -> A (in a sporadic cancer; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).|E -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.E298*(35)|p.0?(7)|p.E298K(2)|p.?(2)|p.E298V(2)|p.L299fs*2(1)|p.L265_K305del41(1)|p.E298A(1)|p.E298fs*53(1)|p.G293fs*1(1)|p.E298fs*47(1)|p.E298E(1)|p.E298Q(1)|p.E298_P301delELPP(1)|p.H296_S303delHHELPPGS(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)		GGGGGCAGCTCGTGGTGAGGC	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			47	45	---	---	---	---	PASS	A	7577046	A	A	7577046	4	1	44	1	0	0	0	0	0	1	0	0	16378	893	31	2	394	2	TP53	17	7577046	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	452676	7577046	73618164	776	17863										
PFAS	5198	broad.mit.edu	37	chr17	8166571	8166571	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcagccttcatgatcagggcGctggtggcaatggtgaggaa	16	8	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:8166571G>C	uc002gkr.2	+	13	1696	c.1555G>C	c.(1555-1557)GCT>CCT	p.A519P	PFAS_uc010vuv.1_Missense_Mutation_p.A95P|PFAS_uc010cnw.1_Missense_Mutation_p.A73P|PFAS_uc002gks.2_5'Flank	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	519					'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TGATCAGGGCGCTGGTGGCAA	0.562													56	58	---	---	---	---	PASS	C	8166571	C	C	8166571	3	2	44	1	0	0	0	0	1	0	0	0	11754	1087	38	4	1601	4	PFAS	17	8166571	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	589525	8166571	73028639	777	17864										
PIK3R6	146850	broad.mit.edu	37	chr17	8753098	8753098	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctttccccccaccacactgaCctgagctctccatgggagcc	7	19	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:8753098C>T	uc002glq.1	-	2	253	c.13_splice	c.e2+1	p.D5_splice	PIK3R6_uc002glr.1_Splice_Site|PIK3R6_uc002gls.1_Splice_Site	NM_001010855	NP_001010855	Q5UE93	PI3R6_HUMAN	phosphoinositide-3-kinase, regulatory subunit 6						platelet activation	cytosol					0						ACCACACTGACCTGAGCTCTC	0.597													12	7	---	---	---	---	PASS	T	8753098	T	T	8753098	5	4	44	1	0	0	0	0	0	0	1	0	11923	521	18	3	2325	3	PIK3R6	17	8753098	Splice_Site	SNP	C	TCGA-22-5473-01A-01D-1632-08	586527	8753098	72442112	778	17865										
MYH4	4622	broad.mit.edu	37	chr17	10355635	10355635	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctcgatttcctcctccagctCctcaatgcgggcctggttgt	9	15	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:10355635C>A	uc002gmn.2	-	27	3472	c.3361G>T	c.(3361-3363)GAG>TAG	p.E1121*	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1121	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TCCTCCAGCTCCTCAATGCGG	0.522													62	35	---	---	---	---	PASS	A	10355635	A	A	10355635	4	1	44	1	0	0	0	0	0	1	0	0	10037	864	30	2	2514	2	MYH4	17	10355635	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1602537	10355635	70839575	779	17866										
MYH1	4619	broad.mit.edu	37	chr17	10411242	10411242	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtctggaaagaagaacccttCttcttaccacctttctttcc	5	13	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:10411242C>A	uc002gmo.2	-	17	2023	c.1929G>T	c.(1927-1929)AAG>AAT	p.K643N	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	643	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						AAGAACCCTTCTTCTTACCAC	0.378													50	35	---	---	---	---	PASS	A	10411242	A	A	10411242	3	1	44	1	0	0	0	0	1	0	0	0	10029	912	32	2	3986	2	MYH1	17	10411242	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	55607	10411242	70783968	780	17867										
MPRIP	23164	broad.mit.edu	37	chr17	17046940	17046940	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccccctgtctccacaccgaaGagccaagtcactggacagga	9	16	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:17046940G>C	uc002gqu.1	+	9	1162	c.1106G>C	c.(1105-1107)AGA>ACA	p.R369T	MPRIP_uc002gqv.1_Missense_Mutation_p.R369T|MPRIP_uc002gqw.1_Intron	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	369	Interaction with F-actin (By similarity).					cytoplasm|cytoskeleton	actin binding				0						CCACACCGAAGAGCCAAGTCA	0.667													10	45	---	---	---	---	PASS	C	17046940	C	C	17046940	3	2	44	1	0	0	0	0	1	0	0	0	9743	942	33	2	1140	2	MPRIP	17	17046940	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	6635698	17046940	64148270	781	17868										
FBXW10	10517	broad.mit.edu	37	chr17	18647983	18647983	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tatactctcttactgctgcaGatgtgcaaccccaaattact	5	12	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:18647983G>C	uc002guk.2	+	1	658	c.426G>C	c.(424-426)CAG>CAC	p.Q142H	FBXW10_uc002guj.2_Missense_Mutation_p.Q142H|FBXW10_uc002gul.2_Missense_Mutation_p.Q142H|FBXW10_uc010cqh.1_Missense_Mutation_p.Q142H	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	142										ovary(1)	1						TACTGCTGCAGATGTGCAACC	0.453													57	87	---	---	---	---	PASS	C	18647983	C	C	18647983	3	2	44	1	0	0	0	0	1	0	0	0	5763	933	33	2	428	2	FBXW10	17	18647983	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1601043	18647983	62547227	782	17869										
SARM1	23098	broad.mit.edu	37	chr17	26708607	26708607	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctaacaaggaggtggagcgcGaggtggagcgctcgggcacg	19	9	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:26708607G>A	uc010crl.1	+	5	923	c.856G>A	c.(856-858)GAG>AAG	p.E286K	SARM1_uc010wah.1_3'UTR|SARM1_uc010waj.1_RNA	NM_015077	NP_055892	Q6SZW1	SARM1_HUMAN	sterile alpha and TIR motif containing 1	286					innate immune response	cytoplasm|intrinsic to membrane	binding|transmembrane receptor activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		GGTGGAGCGCGAGGTGGAGCG	0.682													4	4	---	---	---	---	PASS	A	26708607	A	A	26708607	3	1	44	1	0	0	0	0	1	0	0	0	13842	1059	37	2	860	2	SARM1	17	26708607	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	8060624	26708607	54486603	783	17870										
TAOK1	57551	broad.mit.edu	37	chr17	27778620	27778620	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaccctgaaattgcagagctCttcttcaaagaagatccaga	8	10	3	5			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:27778620C>G	uc002hdz.1	+	2	248	c.54C>G	c.(52-54)CTC>CTG	p.L18L	TAOK1_uc010wbe.1_Silent_p.L18L|TAOK1_uc010wbf.1_Silent_p.L18L	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	18					mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			TTGCAGAGCTCTTCTTCAAAG	0.443													36	90	---	---	---	---	PASS	G	27778620	G	G	27778620	2	3	44	1	0	0	0	0	0	0	0	1	15544	900	32	2		2	TAOK1	17	27778620	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1070013	27778620	53416590	784	17871										
EVI2A	2123	broad.mit.edu	37	chr17	29645355	29645355	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgttagtaagtttttcagttCcttcttcatcttttctttcc	4	9	5	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:29645355C>T	uc002hgm.2	-	2	892	c.677G>A	c.(676-678)GGA>GAA	p.G226E	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2A_uc002hgl.2_Missense_Mutation_p.G249E	NM_014210	NP_055025	P22794	EVI2A_HUMAN	ecotropic viral integration site 2A isoform 2	226	Cytoplasmic (Potential).					integral to membrane	transmembrane receptor activity			ovary(1)|breast(1)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;5.94e-13)|Epithelial(4;7.98e-12)|OV - Ovarian serous cystadenocarcinoma(4;9.4e-12)|GBM - Glioblastoma multiforme(4;0.18)		TTTTTCAGTTCCTTCTTCATC	0.378													18	155	---	---	---	---	PASS	T	29645355	T	T	29645355	3	4	44	1	0	0	0	0	1	0	0	0	5287	855	30	2	37	2	EVI2A	17	29645355	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1866735	29645355	51549855	785	17872										
TMEM132E	124842	broad.mit.edu	37	chr17	32956200	32956200	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cggtcattcagcgggatgtgCaagccatcctgcccctggcc	12	15	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:32956200C>T	uc002hif.2	+	5	1373	c.1045C>T	c.(1045-1047)CAA>TAA	p.Q349*		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	349	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		GCGGGATGTGCAAGCCATCCT	0.592													12	67	---	---	---	---	PASS	T	32956200	T	T	32956200	4	4	44	1	0	0	0	0	0	1	0	0	16045	711	25	3	1063	3	TMEM132E	17	32956200	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3310845	32956200	48239010	786	17873										
PSMB3	5691	broad.mit.edu	37	chr17	36918668	36918668	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tccactctgttggcaggatcCggatcacctgtttgaaacca	9	12	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:36918668C>T	uc002hqr.2	+	5	557	c.479C>T	c.(478-480)CCG>CTG	p.P160L		NM_002795	NP_002786	P49720	PSB3_HUMAN	proteasome beta 3 subunit	160					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|viral reproduction	cytoplasm|nucleus|proteasome core complex	protein binding|threonine-type endopeptidase activity				0						TGGCAGGATCCGGATCACCTG	0.512													58	119	---	---	---	---	PASS	T	36918668	T	T	36918668	3	4	44	1	0	0	0	0	1	0	0	0	12678	652	23	1	497	1	PSMB3	17	36918668	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3962468	36918668	44276542	787	17874										
KRT10	3858	broad.mit.edu	37	chr17	38974732	38974732	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gattactctggttttgttagTatctgtgtgaatgatggaaa	11	3	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:38974732T>C	uc002hvi.2	-	8	1777	c.1751A>G	c.(1750-1752)TAC>TGC	p.Y584C	KRT10_uc010cxd.2_RNA|TMEM99_uc002hvj.1_5'Flank	NM_000421	NP_000412	P13645	K1C10_HUMAN	keratin 10	584	Tail.				epidermis development		protein binding|structural constituent of epidermis				0		Breast(137;0.000301)				GTTTTGTTAGTATCTGTGTGA	0.333													38	30	---	---	---	---	PASS	C	38974732	C	C	38974732	3	2	44	1	0	0	0	0	1	0	0	0	8448	1638	57	5	7	5	KRT10	17	38974732	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	2056064	38974732	42220478	788	17875										
KRT12	3859	broad.mit.edu	37	chr17	39020084	39020084	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tccatttctacgctgacctcGcctgggccgcccacccggaa	9	18	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:39020084G>C	uc002hvk.2	-	4	864	c.840C>G	c.(838-840)GGC>GGG	p.G280G		NM_000223	NP_000214	Q99456	K1C12_HUMAN	keratin 12	280	Rod.|Linker 12.				visual perception	intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				CGCTGACCTCGCCTGGGCCGC	0.498													45	30	---	---	---	---	PASS	C	39020084	C	C	39020084	2	2	44	1	0	0	0	0	0	0	0	1	8449	1074	38	4		4	KRT12	17	39020084	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	45352	39020084	42175126	789	17876										
KRT13	3860	broad.mit.edu	37	chr17	39661684	39661684	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctccatagcccccagctgatCccccggacacaaaccgagtt	7	18	0	1	rs144144601		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:39661684C>A	uc002hwu.1	-	1	182	c.119G>T	c.(118-120)GGA>GTA	p.G40V	KRT13_uc002hwv.1_Missense_Mutation_p.G40V|KRT13_uc002hww.2_Intron|KRT13_uc010wfr.1_Intron|KRT13_uc010cxo.2_Missense_Mutation_p.G40V|KRT13_uc002hwx.1_Missense_Mutation_p.G40V	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	40	Gly-rich.|Head.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				CCCAGCTGATCCCCCGGACAC	0.418													43	53	---	---	---	---	PASS	A	39661684	A	A	39661684	3	1	44	1	0	0	0	0	1	0	0	0	8450	855	30	2	1289	2	KRT13	17	39661684	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	641600	39661684	41533526	790	17877										
MPP3	4356	broad.mit.edu	37	chr17	41895442	41895442	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttcctgaggctctgggggctCggcagggtgcccgcggctct	17	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:41895442C>T	uc002iei.3	-	12	1084	c.918G>A	c.(916-918)CCG>CCA	p.P306P	MPP3_uc002ieh.2_Silent_p.P331P|MPP3_uc002iej.2_RNA|MPP3_uc010czi.1_Silent_p.P306P|MPP3_uc010wik.1_Silent_p.P331P	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	306					signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		TCTGGGGGCTCGGCAGGGTGC	0.652													5	17	---	---	---	---	PASS	T	41895442	T	T	41895442	2	4	44	1	0	0	0	0	0	0	0	1	9735	871	31	2		2	MPP3	17	41895442	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	2233758	41895442	39299768	791	17878										
MAPT	4137	broad.mit.edu	37	chr17	44060961	44060961	+	Frame_Shift_Del	DEL	C	-	-													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggcttcccagcggagggtgCcatccccctccctgtggatt							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:44060961delC	uc002ijr.3	+	6	1111	c.791delC	c.(790-792)GCCfs	p.A264fs	MAPT_uc010dau.2_Frame_Shift_Del_p.A264fs|MAPT_uc002ijs.3_Intron|MAPT_uc002ijx.3_Intron|MAPT_uc002ijt.3_Intron|MAPT_uc002iju.3_Intron|MAPT_uc002ijv.3_Intron	NM_016835	NP_058519	P10636	TAU_HUMAN	microtubule-associated protein tau isoform 1	264					cellular component disassembly involved in apoptosis|microtubule cytoskeleton organization|negative regulation of microtubule depolymerization|positive regulation of axon extension|positive regulation of microtubule polymerization|regulation of autophagy	axon|cytosol|growth cone|microtubule|microtubule associated complex|nuclear periphery|plasma membrane|tubulin complex	apolipoprotein E binding|enzyme binding|identical protein binding|lipoprotein particle binding|microtubule binding|protein binding|SH3 domain binding|structural constituent of cytoskeleton			pancreas(1)	1		Melanoma(429;0.216)				GCGGAGGGTGCCATCCCCCTC	0.667													45	39	---	---	---	---		-	44060961	-	-	44060961	7	5	44	1	0	1	0	1	0	0	0	0	9297	739	26	0	809	0	MAPT	17	44060961	Frame_Shift_Del	DEL	C	TCGA-22-5473-01A-01D-1632-08	2165519	44060961	37134249	792	17879										
KPNB1	3837	broad.mit.edu	37	chr17	45730120	45730120	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caggaaacagtcaggttgccAgagttgcagctggtctacaa	12	9	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:45730120A>G	uc002ilt.1	+	3	496	c.160A>G	c.(160-162)AGA>GGA	p.R54G	KPNB1_uc010wkw.1_5'UTR	NM_002265	NP_002256	Q14974	IMB1_HUMAN	karyopherin beta 1	54	Importin N-terminal.				DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|protein import into nucleus, translocation|ribosomal protein import into nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein domain specific binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TCAGGTTGCCAGAGTTGCAGC	0.413													23	87	---	---	---	---	PASS	G	45730120	G	G	45730120	3	3	44	1	0	0	0	0	1	0	0	0	8435	180	7	5	170	5	KPNB1	17	45730120	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1669159	45730120	35465090	793	17880										
HOXB8	3218	broad.mit.edu	37	chr17	46691796	46691796	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaataggctctggcgttgcaGcgggtcgtagccgtagaaat	15	8	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:46691796G>T	uc002inw.2	-	1	506	c.271C>A	c.(271-273)CTG>ATG	p.L91M		NM_024016	NP_076921	P17481	HXB8_HUMAN	homeobox B8	91						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TGGCGTTGCAGCGGGTCGTAG	0.692													39	61	---	---	---	---	PASS	T	46691796	T	T	46691796	3	4	44	1	0	0	0	0	1	0	0	0	7307	962	34	3	468	3	HOXB8	17	46691796	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	961676	46691796	34503414	794	17881										
ZNF652	22834	broad.mit.edu	37	chr17	47394301	47394301	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctatgagtaacgttcatgtGcttctccaggtaccagcgag	10	11	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:47394301G>T	uc002iov.3	-	2	1251	c.787C>A	c.(787-789)CAC>AAC	p.H263N	ZNF652_uc002iow.2_Missense_Mutation_p.H263N|ZNF652_uc002iou.3_Intron	NM_001145365	NP_001138837	Q9Y2D9	ZN652_HUMAN	zinc finger protein 652	263	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_cancers(4;6.81e-14)|Breast(4;4.97e-29)|all_epithelial(4;1.53e-17)		BRCA - Breast invasive adenocarcinoma(1;3.1e-14)|Epithelial(5;2.92e-06)|all cancers(6;3.15e-05)			ACGTTCATGTGCTTCTCCAGG	0.483													4	130	---	---	---	---	PASS	T	47394301	T	T	47394301	3	4	44	1	0	0	0	0	1	0	0	0	18062	1319	46	3	1053	3	ZNF652	17	47394301	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	702505	47394301	33800909	795	17882										
PDK2	5164	broad.mit.edu	37	chr17	48172882	48172882	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcacttcagcaagttctcccCgtccccgctgtccatgaagc	8	17	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:48172882C>A	uc002iqc.2	+	1	187	c.83C>A	c.(82-84)CCG>CAG	p.P28Q	PDK2_uc002iqb.2_Intron	NM_002611	NP_002602	Q15119	PDK2_HUMAN	pyruvate dehydrogenase kinase 2 precursor	28					glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|nucleus	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			central_nervous_system(3)	3						AAGTTCTCCCCGTCCCCGCTG	0.701									Autosomal_Dominant_Polycystic_Kidney_Disease				8	16	---	---	---	---	PASS	A	48172882	A	A	48172882	3	1	44	1	0	0	0	0	1	0	0	0	11676	652	23	1	85	1	PDK2	17	48172882	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	778581	48172882	33022328	796	17883										
MYCBPAP	84073	broad.mit.edu	37	chr17	48594754	48594754	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggatcctaggaggaaggtctGccaccttgtagcacgtcctg	13	11	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:48594754G>T	uc010wmr.1	+	3	596	c.434G>T	c.(433-435)TGC>TTC	p.C145F	MYCBPAP_uc002iqx.2_Missense_Mutation_p.C145F|MYCBPAP_uc002iqz.2_RNA	NM_032133	NP_115509	Q8TBZ2	MYBPP_HUMAN	Myc-binding protein-associated protein	108					cell differentiation|multicellular organismal development|spermatogenesis|synaptic transmission	cytoplasm|membrane	protein binding			urinary_tract(2)|skin(2)|ovary(1)|pancreas(1)	6	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;1.23e-09)			AGGAAGGTCTGCCACCTTGTA	0.493													39	125	---	---	---	---	PASS	T	48594754	T	T	48594754	3	4	44	1	0	0	0	0	1	0	0	0	10019	1319	46	3	444	3	MYCBPAP	17	48594754	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	421872	48594754	32600456	797	17884										
HLF	3131	broad.mit.edu	37	chr17	53345449	53345449	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagagccccatcagaccaggTaagtgccctgaagattctcc	9	14	2	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:53345449T>A	uc002iug.1	+	2	976	c.451_splice	c.e2+2	p.G151_splice	HLF_uc010dce.1_Splice_Site_p.G66_splice|HLF_uc002iuh.2_Splice_Site_p.G66_splice|HLF_uc010wni.1_Splice_Site_p.Q99_splice	NM_002126	NP_002117	Q16534	HLF_HUMAN	hepatic leukemia factor						multicellular organismal development|rhythmic process|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						TCAGACCAGGTAAGTGCCCTG	0.557			T	TCF3	ALL								19	86	---	---	---	---	PASS	A	53345449	A	A	53345449	5	1	44	1	0	0	0	0	0	0	1	0	7214	1652	57	5	459	5	HLF	17	53345449	Splice_Site	SNP	T	TCGA-22-5473-01A-01D-1632-08	4750695	53345449	27849761	798	17885										
HSF5	124535	broad.mit.edu	37	chr17	56565108	56565108	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgcggctcgggccggggcccCgcgggcggcggcggctgctg	22	15	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:56565108C>G	uc002iwi.1	-	1	652	c.528G>C	c.(526-528)GCG>GCC	p.A176A		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	176	By similarity.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					gccggggccccgcgggcggcg	0.632													4	9	---	---	---	---	PASS	G	56565108	G	G	56565108	2	3	44	1	0	0	0	0	0	0	0	1	7399	639	23	4		4	HSF5	17	56565108	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	3219659	56565108	24630102	799	17886										
MTMR4	9110	broad.mit.edu	37	chr17	56581118	56581118	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttcttacctgtccagagagcGgccagagaactcctggctct	10	13	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:56581118G>T	uc002iwj.2	-	15	1908	c.1798C>A	c.(1798-1800)CGC>AGC	p.R600S		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	600						cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TCCAGAGAGCGGCCAGAGAAC	0.463													40	143	---	---	---	---	PASS	T	56581118	T	T	56581118	3	4	44	1	0	0	0	0	1	0	0	0	9946	1116	39	1	1809	1	MTMR4	17	56581118	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	16010	56581118	24614092	800	17887										
TUBD1	51174	broad.mit.edu	37	chr17	57937725	57937725	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acaacctgctctaatgacgtGaaactgtctaaaaagtcctc	6	11	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:57937725G>A	uc002ixw.1	-	9	1598	c.1320C>T	c.(1318-1320)TTC>TTT	p.F440F	TUBD1_uc010ddf.1_Silent_p.F338F|TUBD1_uc010ddg.1_Silent_p.F405F|TUBD1_uc010ddh.1_Silent_p.F266F|TUBD1_uc010wok.1_Silent_p.F383F|TUBD1_uc002ixx.1_Silent_p.F385F|TUBD1_uc010wol.1_Silent_p.F224F|TUBD1_uc010ddi.1_Silent_p.F186F	NM_016261	NP_057345	Q9UJT1	TBD_HUMAN	delta-tubulin	440					cell differentiation|microtubule-based movement|multicellular organismal development|protein polymerization|spermatogenesis	centriole|microtubule|nucleus	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1	all_cancers(5;3.18e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;9.34e-13)|all cancers(12;1.91e-11)			CTAATGACGTGAAACTGTCTA	0.318													11	87	---	---	---	---	PASS	A	57937725	A	A	57937725	2	1	44	1	0	0	0	0	0	0	0	1	16759	1281	45	2		2	TUBD1	17	57937725	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1356607	57937725	23257485	801	17888										
EFCAB3	146779	broad.mit.edu	37	chr17	60464772	60464772	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaagctaagtgcttcacaaaTggcaggtaatgagaatcatc	10	7	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:60464772T>A	uc002izu.1	+	3	224	c.146T>A	c.(145-147)ATG>AAG	p.M49K	EFCAB3_uc010wpc.1_Missense_Mutation_p.M101K	NM_173503	NP_775774	Q8N7B9	EFCB3_HUMAN	EF-hand calcium binding domain 3 isoform b	49	EF-hand 1.						calcium ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(2;2.27e-11)			GCTTCACAAATGGCAGGTAAT	0.363													51	77	---	---	---	---	PASS	A	60464772	A	A	60464772	3	1	44	1	0	0	0	0	1	0	0	0	4935	1464	51	5	320	5	EFCAB3	17	60464772	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	2527047	60464772	20730438	802	17889										
MARCH10	162333	broad.mit.edu	37	chr17	60813357	60813357	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctggtttccttttcatctgtGaaaccagaggctgccatcct	8	12	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:60813357G>A	uc010ddr.2	-	6	2110	c.1872C>T	c.(1870-1872)TTC>TTT	p.F624F	MARCH10_uc002jag.3_Silent_p.F624F|MARCH10_uc010dds.2_Silent_p.F662F|MARCH10_uc002jah.2_Silent_p.F623F|uc002jaj.1_RNA|uc002jak.2_Intron	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	624							ligase activity|zinc ion binding				0						TTTCATCTGTGAAACCAGAGG	0.383													48	202	---	---	---	---	PASS	A	60813357	A	A	60813357	2	1	44	1	0	0	0	0	0	0	0	1	9299	1281	45	2		2	MARCH10	17	60813357	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	348585	60813357	20381853	803	17890										
RGS9	8787	broad.mit.edu	37	chr17	63193283	63193283	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgcgagtggaacgatgggcCttcaacttcagcgaattgat	12	8	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:63193283C>A	uc002jfe.2	+	13	1010	c.900C>A	c.(898-900)GCC>GCA	p.A300A	RGS9_uc010dem.2_Silent_p.A297A|RGS9_uc002jfd.2_Silent_p.A297A|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Silent_p.A71A	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	300	RGS.				intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						AACGATGGGCCTTCAACTTCA	0.488													14	28	---	---	---	---	PASS	A	63193283	A	A	63193283	2	1	44	1	0	0	0	0	0	0	0	1	13313	668	24	3		3	RGS9	17	63193283	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	2379926	63193283	18001927	804	17891										
PRKCA	5578	broad.mit.edu	37	chr17	64299066	64299066	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgaggcagaagaacgtgcacGaggtgaaggaccacaaattc	13	8	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:64299066G>A	uc002jfp.1	+	1	141	c.97G>A	c.(97-99)GAG>AAG	p.E33K	PRKCA_uc002jfo.1_5'UTR	NM_002737	NP_002728	P17252	KPCA_HUMAN	protein kinase C, alpha	33					activation of phospholipase C activity|energy reserve metabolic process|induction of apoptosis by extracellular signals|intracellular signal transduction|mRNA metabolic process|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of blood vessel endothelial cell migration|regulation of insulin secretion|response to interleukin-1|synaptic transmission	cytosol|endoplasmic reticulum|membrane fraction|nucleoplasm|plasma membrane	ATP binding|enzyme binding|histone kinase activity (H3-T6 specific)|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(1)|stomach(1)|lung(1)|breast(1)|ovary(1)	9			BRCA - Breast invasive adenocarcinoma(6;4.68e-09)		Phosphatidylserine(DB00144)|Vitamin E(DB00163)	GAACGTGCACGAGGTGAAGGA	0.627													5	137	---	---	---	---	PASS	A	64299066	A	A	64299066	3	1	44	1	0	0	0	0	1	0	0	0	12507	1059	37	2	99	2	PRKCA	17	64299066	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1105783	64299066	16896144	805	17892										
BPTF	2186	broad.mit.edu	37	chr17	65918992	65918992	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaggaaaggccttcgatcaaGtgcactgcggccaaagagac	13	10	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:65918992G>T	uc002jgf.2	+	14	5655	c.5594G>T	c.(5593-5595)AGT>ATT	p.S1865I	BPTF_uc002jge.2_Missense_Mutation_p.S1991I	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1991					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			CTTCGATCAAGTGCACTGCGG	0.433													41	69	---	---	---	---	PASS	T	65918992	T	T	65918992	3	4	44	1	0	0	0	0	1	0	0	0	1495	1029	36	3	6034	3	BPTF	17	65918992	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1619926	65918992	15276218	806	17893										
ABCA10	10349	broad.mit.edu	37	chr17	67181617	67181617	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aatttcagccccatttctcaCctgtattattaacgattaac	3	11	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:67181617C>T	uc010dfa.1	-	21	3376	c.2497_splice	c.e21+1	p.G833_splice	ABCA10_uc010wqt.1_Splice_Site|ABCA10_uc010dfb.1_Splice_Site_p.G434_splice	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10						transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					CCATTTCTCACCTGTATTATT	0.373													30	57	---	---	---	---	PASS	T	67181617	T	T	67181617	5	4	44	1	0	0	0	0	0	0	1	0	29	521	18	3	2213	3	ABCA10	17	67181617	Splice_Site	SNP	C	TCGA-22-5473-01A-01D-1632-08	1262625	67181617	14013593	807	17894										
ABCA5	23461	broad.mit.edu	37	chr17	67300870	67300870	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgctgctactttgaggaaaTaacaaagaagctgtcgcaat	9	7	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:67300870T>A	uc002jif.2	-	6	2088	c.870A>T	c.(868-870)TTA>TTT	p.L290F	ABCA5_uc002jie.2_5'Flank|ABCA5_uc002jig.2_Missense_Mutation_p.L290F|ABCA5_uc002jih.2_Missense_Mutation_p.L290F|ABCA5_uc010dfe.2_Missense_Mutation_p.L290F	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	290					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					TTTGAGGAAATAACAAAGAAG	0.323													41	60	---	---	---	---	PASS	A	67300870	A	A	67300870	3	1	44	1	0	0	0	0	1	0	0	0	35	1403	49	5	4190	5	ABCA5	17	67300870	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	119253	67300870	13894340	808	17895										
KIAA0195	9772	broad.mit.edu	37	chr17	73492462	73492462	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcctcggatggcctttctccCctgcagctgtcagggcagct	12	15	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:73492462C>T	uc002jnz.3	+	24	3428	c.3153C>T	c.(3151-3153)CCC>CCT	p.P1051P	KIAA0195_uc010wsa.1_Silent_p.P1061P|KIAA0195_uc010wsb.1_Silent_p.P691P|KIAA0195_uc002job.3_Silent_p.P59P	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	1051					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCCTTTCTCCCCTGCAGCTGT	0.612													41	59	---	---	---	---	PASS	T	73492462	T	T	73492462	2	4	44	1	0	0	0	0	0	0	0	1	8160	610	22	3		3	KIAA0195	17	73492462	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	6191592	73492462	7702748	809	17896										
SLC38A10	124565	broad.mit.edu	37	chr17	79220444	79220444	+	Frame_Shift_Del	DEL	C	-	-													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcctcctggcctctgggcaCcgctgccccgggctcttgat							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:79220444delC	uc002jzz.1	-	16	2647	c.2272delG	c.(2272-2274)GTGfs	p.V758fs	SLC38A10_uc002jzy.1_Frame_Shift_Del_p.V676fs	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	758					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CCTCTGGGCACCGCTGCCCCG	0.627													163	100	---	---	---	---		-	79220444	-	-	79220444	7	5	44	1	0	1	0	1	0	0	0	0	14602	507	18	0	1091	0	SLC38A10	17	79220444	Frame_Shift_Del	DEL	C	TCGA-22-5473-01A-01D-1632-08	5727982	79220444	1974766	810	17897										
FSCN2	25794	broad.mit.edu	37	chr17	79503906	79503906	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgtcccgtcccccaggccgcGacggagggttctggtacacg	14	16	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr17:79503906G>T	uc010wup.1	+	5	1420	c.1279G>T	c.(1279-1281)GAC>TAC	p.D427Y	FSCN2_uc010wuo.1_Missense_Mutation_p.D451Y	NM_012418	NP_036550	O14926	FSCN2_HUMAN	fascin 2 isoform 1	427					actin filament bundle assembly|anatomical structure morphogenesis|visual perception	actin cytoskeleton|cytoplasm|stereocilium	actin filament binding|protein binding, bridging				0	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			CCCAGGCCGCGACGGAGGGTT	0.766													12	14	---	---	---	---	PASS	T	79503906	T	T	79503906	3	4	44	1	0	0	0	0	1	0	0	0	6068	1058	37	2	1208	2	FSCN2	17	79503906	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	283462	79503906	1691304	811	17898										
EPB41L3	23136	broad.mit.edu	37	chr18	5438111	5438111	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaaaagtgccaagcaccaccTgcaaggatggaaaaaaatta	9	8	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr18:5438111T>A	uc002kmt.1	-	6	616	c.530_splice	c.e6-1	p.S177_splice	EPB41L3_uc010wzh.1_Splice_Site_p.S177_splice|EPB41L3_uc002kmu.1_Splice_Site_p.S177_splice|EPB41L3_uc010dkq.1_Splice_Site_p.S68_splice|EPB41L3_uc010dks.1_Splice_Site_p.S199_splice|EPB41L3_uc002kmv.1_Splice_Site_p.S68_splice	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3						cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						AAGCACCACCTGCAAGGATGG	0.403													28	28	---	---	---	---	PASS	A	5438111	A	A	5438111	5	1	44	1	0	0	0	0	0	0	1	0	5154	1594	55	5	2803	5	EPB41L3	18	5438111	Splice_Site	SNP	T	TCGA-22-5473-01A-01D-1632-08		5438111	72639137	812	17899										
LRRC30	339291	broad.mit.edu	37	chr18	7231415	7231415	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctcccgaggtggggaaactGacccggatcgtggtcctgaa	14	12	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr18:7231415G>C	uc010wzk.1	+	1	279	c.279G>C	c.(277-279)CTG>CTC	p.L93L		NM_001105581	NP_001099051	A6NM36	LRC30_HUMAN	leucine rich repeat containing 30	93	LRR 1.									ovary(1)|liver(1)	2						TGGGGAAACTGACCCGGATCG	0.572													11	74	---	---	---	---	PASS	C	7231415	C	C	7231415	2	2	44	1	0	0	0	0	0	0	0	1	8985	1277	45	2		2	LRRC30	18	7231415	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1793304	7231415	70845833	813	17900										
RAB12	201475	broad.mit.edu	37	chr18	8609899	8609899	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcgtgggcaagaccagcctGatggagcgcttcaccgacga	15	12	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr18:8609899G>C	uc002knp.2	+	1	457	c.174G>C	c.(172-174)CTG>CTC	p.L58L	RAB12_uc002kno.1_Silent_p.L154L	NM_001025300	NP_001020471	Q6IQ22	RAB12_HUMAN	RAB12, member RAS oncogene family	58					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding				0						AGACCAGCCTGATGGAGCGCT	0.716													11	31	---	---	---	---	PASS	C	8609899	C	C	8609899	2	2	44	1	0	0	0	0	0	0	0	1	12898	1277	45	2		2	RAB12	18	8609899	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1378484	8609899	69467349	814	17901										
ANKRD12	23253	broad.mit.edu	37	chr18	9255357	9255357	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgatagagaattttggaaaGagaatttttttaaaagtgat	9	0	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr18:9255357G>C	uc002knv.2	+	9	2349	c.2092G>C	c.(2092-2094)GAG>CAG	p.E698Q	ANKRD12_uc002knw.2_Missense_Mutation_p.E675Q|ANKRD12_uc002knx.2_Missense_Mutation_p.E675Q|ANKRD12_uc010dkx.1_Missense_Mutation_p.E405Q	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	698						nucleus				ovary(2)|central_nervous_system(1)	3						attttggaaagagaatttttt	0.09													19	52	---	---	---	---	PASS	C	9255357	C	C	9255357	3	2	44	1	0	0	0	0	1	0	0	0	640	943	33	2	2122	2	ANKRD12	18	9255357	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	645458	9255357	68821891	815	17902										
TUBB6	84617	broad.mit.edu	37	chr18	12325637	12325637	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcagccagcagtaccgggcCctgaccgtgcccgagctcac	13	17	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr18:12325637C>A	uc002kqw.2	+	4	894	c.849C>A	c.(847-849)GCC>GCA	p.A283A	TUBB6_uc002kqv.2_Silent_p.A211A|TUBB6_uc010dld.2_RNA|TUBB6_uc002kqx.2_Silent_p.A246A|TUBB6_uc002kqy.2_Intron	NM_032525	NP_115914	Q9BUF5	TBB6_HUMAN	tubulin, beta 6	283					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0				READ - Rectum adenocarcinoma(1;0.0649)		AGTACCGGGCCCTGACCGTGC	0.682													23	76	---	---	---	---	PASS	A	12325637	A	A	12325637	2	1	44	1	0	0	0	0	0	0	0	1	16757	610	22	3		3	TUBB6	18	12325637	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	3070280	12325637	65751611	816	17903										
RBBP8	5932	broad.mit.edu	37	chr18	20564878	20564878	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagtttccaagtcttcaactCatccacaacataatcctaat	2	12	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr18:20564878C>T	uc002ktw.2	+	8	965	c.634C>T	c.(634-636)CAT>TAT	p.H212Y	RBBP8_uc002kty.2_Missense_Mutation_p.H212Y|RBBP8_uc002ktz.2_Missense_Mutation_p.H212Y|RBBP8_uc002kua.2_Missense_Mutation_p.H212Y|RBBP8_uc002ktx.1_Missense_Mutation_p.H212Y	NM_002894	NP_002885	Q99708	COM1_HUMAN	retinoblastoma binding protein 8 isoform a	212					cell cycle checkpoint|DNA double-strand break processing involved in repair via single-strand annealing|meiosis|regulation of transcription from RNA polymerase II promoter	nucleus	damaged DNA binding|protein binding|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)|lung(1)|skin(1)	3	all_cancers(21;4.34e-05)|all_epithelial(16;8.3e-07)|Lung NSC(20;0.0107)|Colorectal(14;0.0202)|all_lung(20;0.0291)|Ovarian(20;0.19)		OV - Ovarian serous cystadenocarcinoma(1;0.00196)			GTCTTCAACTCATCCACAACA	0.308								Direct_reversal_of_damage|Homologous_recombination					16	85	---	---	---	---	PASS	T	20564878	T	T	20564878	3	4	44	1	0	0	0	0	1	0	0	0	13105	826	29	2	660	2	RBBP8	18	20564878	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	8239241	20564878	57512370	817	17904										
CELF4	56853	broad.mit.edu	37	chr18	34854387	34854387	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcgctccttgtcggtgtcggCgaacttgaccaccagactgg	13	13	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr18:34854387C>G	uc002lae.2	-	6	1084	c.688G>C	c.(688-690)GCC>CCC	p.A230P	CELF4_uc010dnd.1_Missense_Mutation_p.A229P|CELF4_uc002lag.2_Missense_Mutation_p.A220P|CELF4_uc002laf.2_Missense_Mutation_p.A225P|CELF4_uc002lai.2_Missense_Mutation_p.A215P|CELF4_uc002lah.1_5'Flank|CELF4_uc002laj.1_Missense_Mutation_p.R65P	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	230	Sufficient for RNA-binding and MSE- dependent splicing activity.|RRM 2.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						TCGGTGTCGGCGAACTTGACC	0.687													39	96	---	---	---	---	PASS	G	34854387	G	G	34854387	3	3	44	1	0	0	0	0	1	0	0	0	3218	768	27	4	800	4	CELF4	18	34854387	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	14289509	34854387	43222861	818	17905										
SYT4	6860	broad.mit.edu	37	chr18	40853715	40853715	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gatttgggtgtagggtatccCatagaatgtaaaggtctcat	12	5	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr18:40853715C>A	uc002law.2	-	2	1048	c.679G>T	c.(679-681)GGG>TGG	p.G227W	SYT4_uc010dng.2_Intron|SYT4_uc010xcm.1_Missense_Mutation_p.G209W|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	227	Phospholipid binding (Probable).|C2 1.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						TAGGGTATCCCATAGAATGTA	0.393													37	74	---	---	---	---	PASS	A	40853715	A	A	40853715	3	1	44	1	0	0	0	0	1	0	0	0	15473	594	21	3	610	3	SYT4	18	40853715	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	5999328	40853715	37223533	819	17906										
SERPINB12	89777	broad.mit.edu	37	chr18	61228335	61228335	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caggaatacttagatggtgtGattcaattttaccacacgac	8	8	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr18:61228335G>C	uc010xen.1	+	4	402	c.402G>C	c.(400-402)GTG>GTC	p.V134V	SERPINB12_uc010xeo.1_Silent_p.V154V	NM_080474	NP_536722	Q96P63	SPB12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	134					negative regulation of protein catabolic process|regulation of proteolysis	cytoplasm	enzyme binding|serine-type endopeptidase inhibitor activity				0						TAGATGGTGTGATTCAATTTT	0.388													3	179	---	---	---	---	PASS	C	61228335	C	C	61228335	2	2	44	1	0	0	0	0	0	0	0	1	14099	1277	45	2		2	SERPINB12	18	61228335	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	20374620	61228335	16848913	820	17907										
TSHZ1	10194	broad.mit.edu	37	chr18	72999460	72999460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agggccctgaggccgagactGggaaggccaaaaaggaggga	18	8	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr18:72999460G>T	uc002lly.2	+	2	2526	c.1963G>T	c.(1963-1965)GGG>TGG	p.G655W		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	700				GK -> WE (in Ref. 4; AAC18047).		nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GGCCGAGACTGGGAAGGCCAA	0.552													15	35	---	---	---	---	PASS	T	72999460	T	T	72999460	3	4	44	1	0	0	0	0	1	0	0	0	16620	1348	47	3	1965	3	TSHZ1	18	72999460	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	11771125	72999460	5077788	821	17908										
SALL3	27164	broad.mit.edu	37	chr18	76756976	76756976	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaaccccatggctctcctagGgggtgatgccctgaagttct	12	12	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr18:76756976G>T	uc002lmt.2	+	3	3557	c.3557G>T	c.(3556-3558)GGG>GTG	p.G1186V	SALL3_uc010dra.2_Missense_Mutation_p.G721V	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1186					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		GCTCTCCTAGGGGGTGATGCC	0.602													44	31	---	---	---	---	PASS	T	76756976	T	T	76756976	3	4	44	1	0	0	0	0	1	0	0	0	13812	1232	43	3	3567	3	SALL3	18	76756976	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3757516	76756976	1320272	822	17909										
APC2	10297	broad.mit.edu	37	chr19	1468499	1468499	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggatccaccctacagcccccCaagcacaggaagggacgaca	10	16	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:1468499C>G	uc002lsr.1	+	15	5407	c.5199C>G	c.(5197-5199)CCC>CCG	p.P1733P	APC2_uc002lss.1_Silent_p.P1315P|APC2_uc002lst.1_Silent_p.P1733P|APC2_uc002lsu.1_Silent_p.P1732P|C19orf25_uc010xgn.1_Intron	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	1733					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TACAGCCCCCCAAGCACAGGA	0.667													8	25	---	---	---	---	PASS	G	1468499	G	G	1468499	2	3	44	1	0	0	0	0	0	0	0	1	764	581	21	4		4	APC2	19	1468499	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08		1468499	57660484	823	17910										
MUC16	94025	broad.mit.edu	37	chr19	9056897	9056897	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggagaagaaggtgtatttgtTggtgtgactgagctggtgtc	17	3	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:9056897T>A	uc002mkp.2	-	3	30753	c.30549A>T	c.(30547-30549)CCA>CCT	p.P10183P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10185	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGTATTTGTTGGTGTGACTG	0.458													35	38	---	---	---	---	PASS	A	9056897	A	A	9056897	2	1	44	1	0	0	0	0	0	0	0	1	9973	1799	63	5		5	MUC16	19	9056897	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	7588398	9056897	50072086	824	17911										
MUC16	94025	broad.mit.edu	37	chr19	9088876	9088876	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttgaaacagtggttgttgctGaaggtaaccctgtcttgaat	11	6	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:9088876G>A	uc002mkp.2	-	1	3143	c.2939C>T	c.(2938-2940)TCA>TTA	p.S980L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	980	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTTGTTGCTGAAGGTAACCC	0.458													8	328	---	---	---	---	PASS	A	9088876	A	A	9088876	3	1	44	1	0	0	0	0	1	0	0	0	9973	1294	45	2	40920	2	MUC16	19	9088876	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	31979	9088876	50040107	825	17912										
PDE4A	5141	broad.mit.edu	37	chr19	10578192	10578192	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtggaggcccaacgagagcaCcaggctgccaagagggcttg	16	11	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:10578192C>T	uc002moj.2	+	15	2664	c.2556C>T	c.(2554-2556)CAC>CAT	p.H852H	PDE4A_uc002mok.2_Silent_p.H826H|PDE4A_uc002mol.2_Silent_p.H791H|PDE4A_uc002mom.2_Silent_p.H613H|PDE4A_uc002mon.2_Silent_p.H307H|PDE4A_uc002moo.2_3'UTR	NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1	852					signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding	p.H613H(1)		ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)	AACGAGAGCACCAGGCTGCCA	0.682													48	145	---	---	---	---	PASS	T	10578192	T	T	10578192	2	4	44	1	0	0	0	0	0	0	0	1	11639	506	18	3		3	PDE4A	19	10578192	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1489316	10578192	48550791	826	17913										
DNM2	1785	broad.mit.edu	37	chr19	10908188	10908188	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acggtcataaaaaagtgtgcCgagaaggtaacaggttttgt	12	5	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:10908188C>T	uc002mps.1	+	10	1493	c.1329C>T	c.(1327-1329)GCC>GCT	p.A443A	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Intron|DNM2_uc002mpv.1_Silent_p.A443A|DNM2_uc002mpu.1_Intron|DNM2_uc010dxl.1_Intron|DNM2_uc002mpw.2_Silent_p.A176A	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	443					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			AAAAGTGTGCCGAGAAGGTAA	0.478													25	126	---	---	---	---	PASS	T	10908188	T	T	10908188	2	4	44	1	0	0	0	0	0	0	0	1	4672	639	23	1		1	DNM2	19	10908188	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	329996	10908188	48220795	827	17914										
RAB3D	9545	broad.mit.edu	37	chr19	11447869	11447869	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagatctgcagcttgatcctCttgtcatggcggtagacggt	12	10	3	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:11447869C>T	uc002mqy.2	-	2	445	c.207G>A	c.(205-207)AAG>AAA	p.K69K		NM_004283	NP_004274	O95716	RAB3D_HUMAN	RAB3D, member RAS oncogene family	69					exocytosis|protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(2)	2						GCTTGATCCTCTTGTCATGGC	0.532													15	329	---	---	---	---	PASS	T	11447869	T	T	11447869	2	4	44	1	0	0	0	0	0	0	0	1	12934	912	32	2		2	RAB3D	19	11447869	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	539681	11447869	47681114	828	17915										
ZNF823	55552	broad.mit.edu	37	chr19	11833647	11833647	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attctttcatgtcttagataGgaactgtaaaaaggaaaggc	9	5	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:11833647G>C	uc002msm.2	-	4	828	c.702C>G	c.(700-702)TCC>TCG	p.S234S	ZNF823_uc010xmd.1_Silent_p.S52S|ZNF823_uc010dyi.1_Silent_p.S190S	NM_001080493	NP_001073962	P16415	ZN823_HUMAN	ZFP-36 for a zinc finger protein	234	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GTCTTAGATAGGAACTGTAAA	0.398										HNSCC(68;0.2)			43	175	---	---	---	---	PASS	C	11833647	C	C	11833647	2	2	44	1	0	0	0	0	0	0	0	1	18176	987	35	4		4	ZNF823	19	11833647	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	385778	11833647	47295336	829	17916										
ZNF440	126070	broad.mit.edu	37	chr19	11943034	11943034	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgtaagatatgtggaaaagActtttgttctgtgaattcat	9	3	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:11943034A>G	uc002msp.1	+	4	1199	c.1043A>G	c.(1042-1044)GAC>GGC	p.D348G		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	348	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGTGGAAAAGACTTTTGTTCT	0.373													21	58	---	---	---	---	PASS	G	11943034	G	G	11943034	3	3	44	1	0	0	0	0	1	0	0	0	17910	275	10	5	1057	5	ZNF440	19	11943034	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	109387	11943034	47185949	830	17917										
ZNF136	7695	broad.mit.edu	37	chr19	12298172	12298172	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcccctcccttcgactacatGaaagaattcacactggtgag	7	13	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:12298172G>A	uc002mti.2	+	4	1079	c.979G>A	c.(979-981)GAA>AAA	p.E327K	ZNF136_uc010xmh.1_Missense_Mutation_p.E261K	NM_003437	NP_003428	P52737	ZN136_HUMAN	zinc finger protein 136	327	C2H2-type 7.				negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|transcription corepressor activity|zinc ion binding			ovary(1)|pancreas(1)	2						TCGACTACATGAAAGAATTCA	0.428													4	138	---	---	---	---	PASS	A	12298172	A	A	12298172	3	1	44	1	0	0	0	0	1	0	0	0	17723	1291	45	2	993	2	ZNF136	19	12298172	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	355138	12298172	46830811	831	17918										
RAD23A	5886	broad.mit.edu	37	chr19	13060094	13060094	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccttcctactaccagcaggaGagaaccccctggagttcctg	9	15	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:13060094G>A	uc002mvw.1	+	7	794	c.685G>A	c.(685-687)GAG>AAG	p.E229K	RAD23A_uc002mvx.1_Missense_Mutation_p.E228K|RAD23A_uc002mvz.1_Missense_Mutation_p.E228K|RAD23A_uc002mwa.1_Missense_Mutation_p.E229K|RAD23A_uc002mvy.1_Missense_Mutation_p.E63K|RAD23A_uc010xmw.1_Missense_Mutation_p.E64K	NM_005053	NP_005044	P54725	RD23A_HUMAN	UV excision repair protein RAD23 homolog A	229					interspecies interaction between organisms|nucleotide-excision repair|positive regulation of viral genome replication|proteasomal ubiquitin-dependent protein catabolic process|regulation of proteasomal ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	damaged DNA binding|polyubiquitin binding|single-stranded DNA binding			central_nervous_system(1)	1						ACCAGCAGGAGAGAACCCCCT	0.632								NER					9	92	---	---	---	---	PASS	A	13060094	A	A	13060094	3	1	44	1	0	0	0	0	1	0	0	0	12982	943	33	2	711	2	RAD23A	19	13060094	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	761922	13060094	46068889	832	17919										
TRMT1	55621	broad.mit.edu	37	chr19	13215822	13215822	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggtctctggacagtcagggGcagcatcagcagaaaccctg	13	11	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:13215822G>A	uc002mwj.2	-	16	2157	c.1907C>T	c.(1906-1908)GCC>GTC	p.A636V	LYL1_uc002mwi.2_5'Flank|TRMT1_uc010xmy.1_Missense_Mutation_p.A240V|TRMT1_uc002mwk.2_Missense_Mutation_p.A607V|TRMT1_uc002mwl.3_Missense_Mutation_p.A636V	NM_017722	NP_060192	Q9NXH9	TRM1_HUMAN	tRNA methyltransferase 1 isoform 1	636							RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.08e-22)	GBM - Glioblastoma multiforme(1328;0.0356)		ACAGTCAGGGGCAGCATCAGC	0.622											OREG0025289	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	280	---	---	---	---	PASS	A	13215822	A	A	13215822	3	1	44	1	0	0	0	0	1	0	0	0	16558	1203	42	3	76	3	TRMT1	19	13215822	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	155728	13215822	45913161	833	17920										
CC2D1A	54862	broad.mit.edu	37	chr19	14029608	14029608	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccgtcgcagcctccgaccccCgctacggcgccctccacaac	8	23	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:14029608C>A	uc002mxo.2	+	9	1295	c.996C>A	c.(994-996)CCC>CCA	p.P332P	CC2D1A_uc002mxn.2_Silent_p.P231P|CC2D1A_uc002mxp.2_Silent_p.P332P|CC2D1A_uc010dzh.2_5'UTR|CC2D1A_uc002mxq.1_5'UTR	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	332	Pro-rich.				positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			CTCCGACCCCCGCTACGGCGC	0.652													33	91	---	---	---	---	PASS	A	14029608	A	A	14029608	2	1	44	1	0	0	0	0	0	0	0	1	2726	639	23	1		1	CC2D1A	19	14029608	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	813786	14029608	45099375	834	17921										
WIZ	58525	broad.mit.edu	37	chr19	15535160	15535160	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tccccgggctgcggaggcatCtggagggcgggcttgtcggc	19	12	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:15535160C>A	uc002nbc.2	-	7	2604	c.2581G>T	c.(2581-2583)GAT>TAT	p.D861Y	WIZ_uc002nba.3_Missense_Mutation_p.D728Y|WIZ_uc002nbb.3_Missense_Mutation_p.D687Y	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	1544						nucleus	zinc ion binding				0						GCGGAGGCATCTGGAGGGCGG	0.637													37	88	---	---	---	---	PASS	A	15535160	A	A	15535160	3	1	44	1	0	0	0	0	1	0	0	0	17372	913	32	2	333	2	WIZ	19	15535160	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1505552	15535160	43593823	835	17922										
F2RL3	9002	broad.mit.edu	37	chr19	17001363	17001363	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caacggtcgccgggggacacCgtggcctccaaggcctctgc	14	16	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:17001363C>G	uc002nfa.2	+	2	1264	c.1089C>G	c.(1087-1089)ACC>ACG	p.T363T		NM_003950	NP_003941	Q96RI0	PAR4_HUMAN	coagulation factor II (thrombin) receptor-like 3	363	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation|positive regulation of release of sequestered calcium ion into cytosol	extracellular region|integral to plasma membrane	thrombin receptor activity				0						CGGGGGACACCGTGGCCTCCA	0.612													4	15	---	---	---	---	PASS	G	17001363	G	G	17001363	2	3	44	1	0	0	0	0	0	0	0	1	5346	639	23	4		4	F2RL3	19	17001363	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1466203	17001363	42127620	836	17923										
CPAMD8	27151	broad.mit.edu	37	chr19	17012067	17012067	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gaagcctgacagcaggggcaCctccaggacagccatattgg	13	12	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:17012067C>A	uc002nfb.2	-	36	4899	c.4867G>T	c.(4867-4869)GTG>TTG	p.V1623L	CPAMD8_uc002nfd.1_Missense_Mutation_p.V88L	NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1576						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						AGCAGGGGCACCTCCAGGACA	0.602													4	21	---	---	---	---	PASS	A	17012067	A	A	17012067	3	1	44	1	0	0	0	0	1	0	0	0	3795	507	18	3	959	3	CPAMD8	19	17012067	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	10704	17012067	42116916	837	17924										
GLT25D1	79709	broad.mit.edu	37	chr19	17678315	17678315	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	catgctggattcccgggctgCgtactccaacttctggtgtg	12	12	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:17678315C>T	uc002nhc.1	+	4	602	c.590C>T	c.(589-591)GCG>GTG	p.A197V	GLT25D1_uc010eax.1_5'Flank	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	197					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0						TCCCGGGCTGCGTACTCCAAC	0.592													8	28	---	---	---	---	PASS	T	17678315	T	T	17678315	3	4	44	1	0	0	0	0	1	0	0	0	6466	768	27	1	604	1	GLT25D1	19	17678315	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	666248	17678315	41450668	838	17925										
COMP	1311	broad.mit.edu	37	chr19	18897348	18897348	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggcctgccctcacctgatcCgggttgctcttctggggaca	12	14	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:18897348C>T	uc002nke.2	-	11	1284	c.1248G>A	c.(1246-1248)CCG>CCA	p.P416P	COMP_uc002nkd.2_Silent_p.P383P|COMP_uc010xqj.1_Silent_p.P363P	NM_000095	NP_000086	P49747	COMP_HUMAN	cartilage oligomeric matrix protein precursor	416	TSP type-3 5.				anti-apoptosis|apoptosis|cell adhesion|limb development	extracellular space|proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent|heparan sulfate proteoglycan binding|heparin binding				0						TCACCTGATCCGGGTTGCTCT	0.567													8	55	---	---	---	---	PASS	T	18897348	T	T	18897348	2	4	44	1	0	0	0	0	0	0	0	1	3724	639	23	1		1	COMP	19	18897348	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1219033	18897348	40231635	839	17926										
ZNF93	81931	broad.mit.edu	37	chr19	20044144	20044144	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agatgagtgtaaggtgcacaCaggaggttataatggactta	13	4	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:20044144C>A	uc002non.2	+	4	491	c.380C>A	c.(379-381)ACA>AAA	p.T127K		NM_031218	NP_112495	P35789	ZNF93_HUMAN	zinc finger protein 93	127						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1						AAGGTGCACACAGGAGGTTAT	0.333													26	67	---	---	---	---	PASS	A	20044144	A	A	20044144	3	1	44	1	0	0	0	0	1	0	0	0	18199	478	17	3	394	3	ZNF93	19	20044144	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1146796	20044144	39084839	840	17927										
ZNF431	170959	broad.mit.edu	37	chr19	21365741	21365741	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atgtaaaaaatgtggcaaatCattttgcatgcttttacacc	6	7	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:21365741C>T	uc002npp.2	+	5	782	c.635C>T	c.(634-636)TCA>TTA	p.S212L	ZNF431_uc010ecq.2_Missense_Mutation_p.S121L|ZNF431_uc010ecr.2_Missense_Mutation_p.S213L	NM_133473	NP_597730	Q8TF32	ZN431_HUMAN	zinc finger protein 431	212	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2						TGTGGCAAATCATTTTGCATG	0.289													17	76	---	---	---	---	PASS	T	21365741	T	T	21365741	3	4	44	1	0	0	0	0	1	0	0	0	17902	838	29	2	653	2	ZNF431	19	21365741	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1321597	21365741	37763242	841	17928										
ZNF429	353088	broad.mit.edu	37	chr19	21720081	21720081	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggcagagtttttacctgttCctcaacacttactcaagaca	6	11	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:21720081C>T	uc002nqd.1	+	4	1363	c.1226C>T	c.(1225-1227)TCC>TTC	p.S409F	ZNF429_uc010ecu.1_Intron	NM_001001415	NP_001001415	Q86V71	ZN429_HUMAN	zinc finger protein 429	409	C2H2-type 10; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TTTACCTGTTCCTCAACACTT	0.353													15	45	---	---	---	---	PASS	T	21720081	T	T	21720081	3	4	44	1	0	0	0	0	1	0	0	0	17899	855	30	2	1240	2	ZNF429	19	21720081	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	354340	21720081	37408902	842	17929										
ZNF257	113835	broad.mit.edu	37	chr19	22255656	22255656	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgtagaattctctctggagGagtggcattgcctggacact	12	9	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:22255656G>T	uc010ecx.2	+	2	218	c.49G>T	c.(49-51)GAG>TAG	p.E17*	ZNF257_uc010ecy.2_5'UTR	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	17	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				CTCTCTGGAGGAGTGGCATTG	0.443													62	97	---	---	---	---	PASS	T	22255656	T	T	22255656	4	4	44	1	0	0	0	0	0	1	0	0	17797	1175	41	2	55	2	ZNF257	19	22255656	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	535575	22255656	36873327	843	17930										
ZNF257	113835	broad.mit.edu	37	chr19	22271355	22271355	+	Missense_Mutation	SNP	G	T	T													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtgtggcaaagcctttaaccGgtcttcacacattactcaac							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:22271355G>T	uc010ecx.2	+	4	972	c.803G>T	c.(802-804)CGG>CTG	p.R268L	ZNF257_uc010ecy.2_Missense_Mutation_p.R236L	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	268	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				GCCTTTAACCGGTCTTCACAC	0.388													7	45	---	---	---	---	PASS	T	22271355	T	T	22271355	3	4	44	1	0	0	0	0	1	0	0	0	17797	1116	39	1	817	1	ZNF257	19	22271355	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	15699	22271355	36857628	844	17931	414	2								
ZNF257	113835	broad.mit.edu	37	chr19	22271356	22271356	+	Silent	SNP	G	T	T													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgtggcaaagcctttaaccgGtcttcacacattactcaaca							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:22271356G>T	uc010ecx.2	+	4	973	c.804G>T	c.(802-804)CGG>CGT	p.R268R	ZNF257_uc010ecy.2_Silent_p.R236R	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	268	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				CCTTTAACCGGTCTTCACACA	0.383													8	43	---	---	---	---	PASS	T	22271356	T	T	22271356	2	4	44	1	0	0	0	0	0	0	0	1	17797	1248	44	3		3	ZNF257	19	22271356	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1	22271356	36857627	845	17932	414	2								
ZNF676	163223	broad.mit.edu	37	chr19	22363597	22363597	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acattcttcacacttgtaggGtttctctccagtatgaattc	6	10	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:22363597G>T	uc002nqs.1	-	3	1240	c.922C>A	c.(922-924)CCC>ACC	p.P308T		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	308					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CACTTGTAGGGTTTCTCTCCA	0.438													32	138	---	---	---	---	PASS	T	22363597	T	T	22363597	3	4	44	1	0	0	0	0	1	0	0	0	18080	1261	44	3	848	3	ZNF676	19	22363597	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	92241	22363597	36765386	846	17933										
UQCRFS1	7386	broad.mit.edu	37	chr19	29698958	29698958	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggagaaacctttcctagcctCgctgctttctcttgaagact	8	12	1	3	rs141991079	byFrequency	TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:29698958C>T	uc002nsd.2	-	2	433	c.322G>A	c.(322-324)GAG>AAG	p.E108K		NM_006003	NP_005994	P47985	UCRI_HUMAN	ubiquinol-cytochrome c reductase, Rieske	108					respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex III	2 iron, 2 sulfur cluster binding|metal ion binding|ubiquinol-cytochrome-c reductase activity				0	Breast(6;0.0545)|Esophageal squamous(110;0.239)		Lung(7;0.092)			TTCCTAGCCTCGCTGCTTTCT	0.468													17	229	---	---	---	---	PASS	T	29698958	T	T	29698958	3	4	44	1	0	0	0	0	1	0	0	0	17018	893	31	2	506	2	UQCRFS1	19	29698958	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	7335361	29698958	29430025	847	17934										
ZNF536	9745	broad.mit.edu	37	chr19	31039710	31039710	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cctcgttacaatcaaacaaaGacctgggcctctccaatatg	6	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:31039710G>T	uc002nsu.1	+	4	3322	c.3184G>T	c.(3184-3186)GAC>TAC	p.D1062Y	ZNF536_uc010edd.1_Missense_Mutation_p.D1062Y	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1062					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					ATCAAACAAAGACCTGGGCCT	0.537													7	104	---	---	---	---	PASS	T	31039710	T	T	31039710	3	4	44	1	0	0	0	0	1	0	0	0	17971	942	33	2	3194	2	ZNF536	19	31039710	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1340752	31039710	28089273	848	17935										
DPY19L3	147991	broad.mit.edu	37	chr19	32968458	32968458	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccaagaaaggctgtgtttgcGggaagcatgcagttgctggc	15	8	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:32968458G>C	uc002ntg.2	+	17	1904	c.1728G>C	c.(1726-1728)GCG>GCC	p.A576A	DPY19L3_uc002nth.1_Silent_p.A576A|DPY19L3_uc002nti.1_RNA|DPY19L3_uc002ntj.1_5'UTR	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	576						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					CTGTGTTTGCGGGAAGCATGC	0.488													83	29	---	---	---	---	PASS	C	32968458	C	C	32968458	2	2	44	1	0	0	0	0	0	0	0	1	4742	1103	39	4		4	DPY19L3	19	32968458	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1928748	32968458	26160525	849	17936										
ANKRD27	84079	broad.mit.edu	37	chr19	33119701	33119701	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttggacggtatctttatcatGgtcctcttggctcagaagtc	10	9	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:33119701G>A	uc002ntn.1	-	14	1420	c.1264C>T	c.(1264-1266)CAT>TAT	p.H422Y		NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	422	ANK 1.				early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity	p.H422H(1)		ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					TCTTTATCATGGTCCTCTTGG	0.453													28	161	---	---	---	---	PASS	A	33119701	A	A	33119701	3	1	44	1	0	0	0	0	1	0	0	0	655	1348	47	3	1952	3	ANKRD27	19	33119701	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	151243	33119701	26009282	850	17937										
NUDT19	390916	broad.mit.edu	37	chr19	33183180	33183180	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	caccgctttcccgtcgctgcCcgacaccgatgaccacaaga	8	18	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:33183180C>A	uc010edf.2	+	1	314	c.314C>A	c.(313-315)CCC>CAC	p.P105H		NM_001105570	NP_001099040	A8MXV4	NUD19_HUMAN	nudix (nucleoside diphosphate linked moiety	105	Nudix hydrolase.					mitochondrion|peroxisome	hydrolase activity|metal ion binding				0	Esophageal squamous(110;0.137)					CCGTCGCTGCCCGACACCGAT	0.721													50	20	---	---	---	---	PASS	A	33183180	A	A	33183180	3	1	44	1	0	0	0	0	1	0	0	0	10736	623	22	3	316	3	NUDT19	19	33183180	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	63479	33183180	25945803	851	17938										
ZNF599	148103	broad.mit.edu	37	chr19	35250052	35250052	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agtgtgagttctcatgtgctGagttaaagcaaagttgtcac	11	6	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:35250052G>A	uc010edn.1	-	4	2042	c.1654C>T	c.(1654-1656)CAG>TAG	p.Q552*	ZNF599_uc010edm.1_Nonsense_Mutation_p.Q515*	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	552	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			CTCATGTGCTGAGTTAAAGCA	0.413													99	179	---	---	---	---	PASS	A	35250052	A	A	35250052	4	1	44	1	0	0	0	0	0	1	0	0	18026	1299	45	2	116	2	ZNF599	19	35250052	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2066872	35250052	23878931	852	17939										
FFAR3	2865	broad.mit.edu	37	chr19	35849879	35849879	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctcactttcctggtggggctCcccctcaacctgctggccct	9	18	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:35849879C>A	uc002nzd.2	+	2	162	c.87C>A	c.(85-87)CTC>CTA	p.L29L	FFAR3_uc010xsu.1_RNA	NM_005304	NP_005295	O14843	FFAR3_HUMAN	free fatty acid receptor 3	29	Helical; Name=1; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding				0	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;1.29e-19)|OV - Ovarian serous cystadenocarcinoma(14;4.63e-18)|all cancers(14;5.19e-17)|LUSC - Lung squamous cell carcinoma(66;0.0221)			TGGTGGGGCTCCCCCTCAACC	0.647													27	122	---	---	---	---	PASS	A	35849879	A	A	35849879	2	1	44	1	0	0	0	0	0	0	0	1	5829	842	30	2		2	FFAR3	19	35849879	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	599827	35849879	23279104	853	17940										
ARHGAP33	115703	broad.mit.edu	37	chr19	36273344	36273344	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgcaggacatccacagcgtGtcctccctctgcaagctcta	8	16	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:36273344G>T	uc002obr.1	+	13	1240	c.1155G>T	c.(1153-1155)GTG>GTT	p.V385V	ARHGAP33_uc002obs.1_Silent_p.V385V|ARHGAP33_uc002obt.1_Silent_p.V249V|ARHGAP33_uc010eel.2_5'UTR|ARHGAP33_uc002obv.1_5'Flank	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	385	Rho-GAP.				cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						TCCACAGCGTGTCCTCCCTCT	0.582													85	26	---	---	---	---	PASS	T	36273344	T	T	36273344	2	4	44	1	0	0	0	0	0	0	0	1	882	1364	48	3		3	ARHGAP33	19	36273344	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	423465	36273344	22855639	854	17941										
ARHGAP33	115703	broad.mit.edu	37	chr19	36279116	36279116	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aacgggcaccctggggacccCgtacccctcatagggtgccg	13	16	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:36279116C>T	uc002obs.1	+	21	3251	c.3166C>T	c.(3166-3168)CGT>TGT	p.R1056C	ARHGAP33_uc002obt.1_Missense_Mutation_p.R1053C|ARHGAP33_uc010eel.2_Intron|ARHGAP33_uc002obv.1_Missense_Mutation_p.R805C	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	1217					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						CTGGGGACCCCGTACCCCTCA	0.706													14	64	---	---	---	---	PASS	T	36279116	T	T	36279116	3	4	44	1	0	0	0	0	1	0	0	0	882	652	23	1	3731	1	ARHGAP33	19	36279116	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	5772	36279116	22849867	855	17942										
ZNF345	25850	broad.mit.edu	37	chr19	37368786	37368786	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggaatgtgggaagacctttAgtagtggttcagaccttact	12	6	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:37368786A>C	uc002oex.2	+	3	1432	c.1054A>C	c.(1054-1056)AGT>CGT	p.S352R	ZNF345_uc002oey.3_Missense_Mutation_p.S352R|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	352	C2H2-type 11.				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAAGACCTTTAGTAGTGGTTC	0.403													22	103	---	---	---	---	PASS	C	37368786	C	C	37368786	3	2	44	1	0	0	0	0	1	0	0	0	17856	420	15	5	1056	5	ZNF345	19	37368786	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1089670	37368786	21760197	856	17943										
ZNF585A	199704	broad.mit.edu	37	chr19	37643697	37643697	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attctctgatgaataatcaaCtctgacctgtaggtaaaggc	8	8	3	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:37643697C>A	uc002ofo.1	-	5	1335	c.1104G>T	c.(1102-1104)GAG>GAT	p.E368D	ZNF585A_uc002ofm.1_Missense_Mutation_p.E313D|ZNF585A_uc002ofn.1_Missense_Mutation_p.E313D	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	368	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAATAATCAACTCTGACCTGT	0.418													7	204	---	---	---	---	PASS	A	37643697	A	A	37643697	3	1	44	1	0	0	0	0	1	0	0	0	18014	564	20	3	1209	3	ZNF585A	19	37643697	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	274911	37643697	21485286	857	17944										
RASGRP4	115727	broad.mit.edu	37	chr19	38912755	38912755	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcacttggcggggccggcctCgccctcctatttttccggtg	13	15	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:38912755C>T	uc002oir.2	-	2	276	c.62G>A	c.(61-63)CGA>CAA	p.R21Q	RASGRP4_uc010efz.1_5'Flank|RASGRP4_uc010ega.1_5'Flank|RASGRP4_uc010xua.1_Missense_Mutation_p.R21Q|RASGRP4_uc010xub.1_Missense_Mutation_p.R21Q|RASGRP4_uc010xuc.1_Missense_Mutation_p.R21Q|RASGRP4_uc010xud.1_Missense_Mutation_p.R21Q|RASGRP4_uc010xue.1_Missense_Mutation_p.R21Q|RASGRP4_uc010egb.2_Missense_Mutation_p.R21Q	NM_170604	NP_733749	Q8TDF6	GRP4_HUMAN	RAS guanyl releasing protein 4 isoform a	21					activation of phospholipase C activity|cell growth|cell proliferation|myeloid cell differentiation|positive regulation of Ras protein signal transduction|regulation of G-protein coupled receptor protein signaling pathway|response to extracellular stimulus|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|membrane fraction|plasma membrane|soluble fraction	diacylglycerol binding|GTP-dependent protein binding|metal ion binding|Ras guanyl-nucleotide exchange factor activity			pancreas(1)|lung(1)|skin(1)	3	all_cancers(60;4.21e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GGGCCGGCCTCGCCCTCCTAT	0.617													31	32	---	---	---	---	PASS	T	38912755	T	T	38912755	3	4	44	1	0	0	0	0	1	0	0	0	13077	884	31	2	2023	2	RASGRP4	19	38912755	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1269058	38912755	20216228	858	17945										
SARS2	54938	broad.mit.edu	37	chr19	39412889	39412889	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcacagtacctgctgcacttCaccactgtcctggtttgcct	7	15	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:39412889C>A	uc002oka.2	-	3	542	c.382G>T	c.(382-384)GAA>TAA	p.E128*	SARS2_uc002ojz.2_5'UTR|SARS2_uc010xup.1_Nonsense_Mutation_p.E128*|SARS2_uc002okb.2_Nonsense_Mutation_p.E128*|SARS2_uc010xuq.1_Nonsense_Mutation_p.E128*|SARS2_uc010xur.1_RNA|SARS2_uc010xus.1_Nonsense_Mutation_p.E128*	NM_017827	NP_060297	Q9NP81	SYSM_HUMAN	seryl-tRNA synthetase 2 isoform b precursor	128					seryl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|serine-tRNA ligase activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(60;2.74e-06)|all_epithelial(25;4.36e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			TGCTGCACTTCACCACTGTCC	0.473													32	144	---	---	---	---	PASS	A	39412889	A	A	39412889	4	1	44	1	0	0	0	0	0	1	0	0	13845	835	29	2	1311	2	SARS2	19	39412889	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	500134	39412889	19716094	859	17946										
FCGBP	8857	broad.mit.edu	37	chr19	40395822	40395822	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	accgtgaccttccactgtctCtgctccagccgcagggtgaa	10	15	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:40395822C>G	uc002omp.3	-	15	7583	c.7575G>C	c.(7573-7575)CAG>CAC	p.Q2525H		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	2525	VWFD 6.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			TCCACTGTCTCTGCTCCAGCC	0.652													20	282	---	---	---	---	PASS	G	40395822	G	G	40395822	3	3	44	1	0	0	0	0	1	0	0	0	5778	912	32	2	8730	2	FCGBP	19	40395822	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	982933	40395822	18733161	860	17947										
CYP2F1	1572	broad.mit.edu	37	chr19	41626291	41626291	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggatcgatggaaggtcctgaGacagttctctatccagattc	11	9	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:41626291G>C	uc002opu.1	+	4	430	c.374G>C	c.(373-375)AGA>ACA	p.R125T	CYP2F1_uc010xvw.1_Intron|CYP2F1_uc010xvv.1_Missense_Mutation_p.R125T|CYP2F1_uc002opv.1_RNA	NM_000774	NP_000765	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F,	125					naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0						AAGGTCCTGAGACAGTTCTCT	0.582													45	129	---	---	---	---	PASS	C	41626291	C	C	41626291	3	2	44	1	0	0	0	0	1	0	0	0	4171	942	33	2	384	2	CYP2F1	19	41626291	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1230469	41626291	17502692	861	17948										
ZNF223	7766	broad.mit.edu	37	chr19	44571244	44571244	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	attttgaatcataagagactCcattgccgaaaaaaaccatt	5	8	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:44571244C>G	uc002oyf.1	+	5	1516	c.1263C>G	c.(1261-1263)CTC>CTG	p.L421L	ZNF284_uc010ejd.2_RNA	NM_013361	NP_037493	Q9UK11	ZN223_HUMAN	zinc finger protein 223	421	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0352)				ATAAGAGACTCCATTGCCGAA	0.418													32	141	---	---	---	---	PASS	G	44571244	G	G	44571244	2	3	44	1	0	0	0	0	0	0	0	1	17774	842	30	2		2	ZNF223	19	44571244	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	2944953	44571244	14557739	862	17949										
DHX34	9704	broad.mit.edu	37	chr19	47879256	47879256	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cagcccaggacctgagccgcGagcagctggctctgctgaag	14	14	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:47879256G>A	uc010xyn.1	+	11	2724	c.2383G>A	c.(2383-2385)GAG>AAG	p.E795K	DHX34_uc010xyo.1_5'Flank	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	795						intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		CCTGAGCCGCGAGCAGCTGGC	0.672													52	80	---	---	---	---	PASS	A	47879256	A	A	47879256	3	1	44	1	0	0	0	0	1	0	0	0	4507	1059	37	2	2421	2	DHX34	19	47879256	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3308012	47879256	11249727	863	17950										
SULT2A1	6822	broad.mit.edu	37	chr19	48387013	48387013	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atcccccttggagtgcatcaGgcagagaatctcagccaacc	9	14	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:48387013G>A	uc002phr.2	-	2	306	c.166C>T	c.(166-168)CTG>TTG	p.L56L		NM_003167	NP_003158	Q06520	ST2A1_HUMAN	bile-salt sulfotransferase 2A1	56					3'-phosphoadenosine 5'-phosphosulfate metabolic process|bile acid catabolic process|cellular lipid metabolic process|digestion|sulfation|xenobiotic metabolic process	cytosol	bile-salt sulfotransferase activity			ovary(1)|pancreas(1)	2		all_cancers(25;3.02e-09)|all_lung(116;6.48e-07)|all_epithelial(76;7.35e-07)|Lung NSC(112;1.56e-06)|all_neural(266;0.0146)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000254)|all cancers(93;0.000545)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.0552)		GAGTGCATCAGGCAGAGAATC	0.398													23	23	---	---	---	---	PASS	A	48387013	A	A	48387013	2	1	44	1	0	0	0	0	0	0	0	1	15378	991	35	3		3	SULT2A1	19	48387013	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	507757	48387013	10741970	864	17951										
RASIP1	54922	broad.mit.edu	37	chr19	49242460	49242460	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtccacgcagctgctctcgcCggggccaccgccggggctgc	15	18	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:49242460C>A	uc002pki.2	-	3	777	c.580G>T	c.(580-582)GGC>TGC	p.G194C		NM_017805	NP_060275	Q5U651	RAIN_HUMAN	Ras-interacting protein 1	194	Ras-associating.				signal transduction	Golgi stack|perinuclear region of cytoplasm				pancreas(1)	1		all_lung(116;4.89e-06)|all_epithelial(76;7.04e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;9.98e-05)|all cancers(93;0.000272)|Epithelial(262;0.0155)|GBM - Glioblastoma multiforme(486;0.0222)		CTGCTCTCGCCGGGGCCACCG	0.652													4	0	---	---	---	---	PASS	A	49242460	A	A	49242460	3	1	44	1	0	0	0	0	1	0	0	0	13078	652	23	1	2351	1	RASIP1	19	49242460	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	855447	49242460	9886523	865	17952										
SLC17A7	57030	broad.mit.edu	37	chr19	49939884	49939884	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gccacgcccaggttgcagcgGatgccaaagctgatgcagaa	13	12	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:49939884G>C	uc002pnp.2	-	2	409	c.237C>G	c.(235-237)ATC>ATG	p.I79M	SLC17A7_uc002pnq.1_Missense_Mutation_p.I12M	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	79	Helical; (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		GGTTGCAGCGGATGCCAAAGC	0.642													3	142	---	---	---	---	PASS	C	49939884	C	C	49939884	3	2	44	1	0	0	0	0	1	0	0	0	14422	1164	41	2	1489	2	SLC17A7	19	49939884	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	697424	49939884	9189099	866	17953										
NR1H2	7376	broad.mit.edu	37	chr19	50885782	50885782	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgctgagctctgtgcactcgGagcaggtcttcgccttgcgg	14	13	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:50885782G>T	uc010enw.2	+	11	1585	c.1309G>T	c.(1309-1311)GAG>TAG	p.E437*	NR1H2_uc002prv.3_RNA|NR1H2_uc002prz.3_Nonsense_Mutation_p.E392*|NR1H2_uc002psa.3_Nonsense_Mutation_p.E339*|POLD1_uc002psb.3_5'Flank|POLD1_uc002psc.3_5'Flank|POLD1_uc010enx.2_5'Flank	NM_007121	NP_009052	P55055	NR1H2_HUMAN	nuclear receptor subfamily 1, group H, member 2	436	Ligand-binding (Potential).				negative regulation of cholesterol storage|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of pinocytosis|negative regulation of transcription, DNA-dependent|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		TGTGCACTCGGAGCAGGTCTT	0.667													39	8	---	---	---	---	PASS	T	50885782	T	T	50885782	4	4	44	1	0	0	0	0	0	1	0	0	10617	1175	41	2	1336	2	NR1H2	19	50885782	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	945898	50885782	8243201	867	17954										
ASPDH	554235	broad.mit.edu	37	chr19	51015807	51015807	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tccctcaagccggaagccatCggggtgtgtggccatggtga	15	11	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:51015807C>T	uc010enz.2	-	5	525	c.463G>A	c.(463-465)GAT>AAT	p.D155N	JOSD2_uc002psn.1_5'Flank|JOSD2_uc002pso.1_5'Flank|JOSD2_uc002psp.1_5'Flank|JOSD2_uc002psq.1_5'Flank|ASPDH_uc002psr.3_Missense_Mutation_p.D50N	NM_001114598	NP_001108070	A6ND91	ASPD_HUMAN	aspartate dehydrogenase isoform 1	155					NAD biosynthetic process|NADP catabolic process		aspartate dehydrogenase activity|NADP binding				0						CGGAAGCCATCGGGGTGTGTG	0.672													4	12	---	---	---	---	PASS	T	51015807	T	T	51015807	3	4	44	1	0	0	0	0	1	0	0	0	1051	884	31	2	400	2	ASPDH	19	51015807	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	130025	51015807	8113176	868	17955										
ZNF415	55786	broad.mit.edu	37	chr19	53611991	53611991	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tacacttgtaaggtttctctCcagtatgaactctccgatga	7	10	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:53611991C>A	uc002qax.2	-	7	1800	c.1451G>T	c.(1450-1452)GGA>GTA	p.G484V	ZNF415_uc002qat.2_Missense_Mutation_p.G448V|ZNF415_uc002qaw.2_Missense_Mutation_p.G436V|ZNF415_uc010yds.1_Missense_Mutation_p.G436V|ZNF415_uc010ydt.1_Missense_Mutation_p.G436V|ZNF415_uc002qau.2_Missense_Mutation_p.G423V|ZNF415_uc002qav.2_Missense_Mutation_p.G448V|ZNF415_uc002qba.2_Missense_Mutation_p.G206V|ZNF415_uc002qay.2_Missense_Mutation_p.G423V|ZNF415_uc002qaz.2_Missense_Mutation_p.G484V	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	484					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		AGGTTTCTCTCCAGTATGAAC	0.413													50	171	---	---	---	---	PASS	A	53611991	A	A	53611991	3	1	44	1	0	0	0	0	1	0	0	0	17889	855	30	2	364	2	ZNF415	19	53611991	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2596184	53611991	5516992	869	17956										
SAPS1	22870	broad.mit.edu	37	chr19	55752352	55752352	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggatgggcgtctcagggctGctgtcaggaggtggccccaa	17	10	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:55752352G>A	uc002qjw.3	-	10	1499	c.1257C>T	c.(1255-1257)AGC>AGT	p.S419S	SAPS1_uc002qjv.2_Silent_p.S481S	NM_014931	NP_055746	Q9UPN7	PP6R1_HUMAN	SAPS domain family, member 1	419					regulation of phosphoprotein phosphatase activity	cytoplasm	protein phosphatase binding				0		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		TCTCAGGGCTGCTGTCAGGAG	0.577													4	8	---	---	---	---	PASS	A	55752352	A	A	55752352	2	1	44	1	0	0	0	0	0	0	0	1	13836	1310	46	3		3	SAPS1	19	55752352	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	2140361	55752352	3376631	870	17957										
NLRP9	338321	broad.mit.edu	37	chr19	56243511	56243511	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaaacttcttcaaagaaattCatcactttggttacaaattc	3	8	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:56243511C>T	uc002qly.2	-	2	1714	c.1686G>A	c.(1684-1686)ATG>ATA	p.M562I		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	562						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		CAAAGAAATTCATCACTTTGG	0.343													24	70	---	---	---	---	PASS	T	56243511	T	T	56243511	3	4	44	1	0	0	0	0	1	0	0	0	10484	826	29	2	1321	2	NLRP9	19	56243511	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	491159	56243511	2885472	871	17958										
ZFP28	140612	broad.mit.edu	37	chr19	57059206	57059206	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttctaagcccgatgtgatctCctcgttggaacaaggaaaag	10	9	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:57059206C>T	uc002qnj.2	+	4	529	c.458C>T	c.(457-459)TCC>TTC	p.S153F	ZFP28_uc002qni.2_Missense_Mutation_p.S153F|uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	153	KRAB 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		GATGTGATCTCCTCGTTGGAA	0.512													61	90	---	---	---	---	PASS	T	57059206	T	T	57059206	3	4	44	1	0	0	0	0	1	0	0	0	17639	855	30	2	472	2	ZFP28	19	57059206	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	815695	57059206	2069777	872	17959										
ZNF417	147687	broad.mit.edu	37	chr19	58420562	58420562	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aataaagcagaacttctgacGaaaagatttcccacattccc	5	11	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr19:58420562G>A	uc002qqq.2	-	3	1283	c.1084C>T	c.(1084-1086)CGT>TGT	p.R362C	ZNF417_uc010yhm.1_Missense_Mutation_p.R319C|ZNF417_uc002qqr.2_Missense_Mutation_p.R361C	NM_152475	NP_689688	Q8TAU3	ZN417_HUMAN	zinc finger protein 417	362	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0151)		AACTTCTGACGAAAAGATTTC	0.428													36	175	---	---	---	---	PASS	A	58420562	A	A	58420562	3	1	44	1	0	0	0	0	1	0	0	0	17891	1058	37	2	647	2	ZNF417	19	58420562	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1361356	58420562	708421	873	17960										
DEFB128	245939	broad.mit.edu	37	chr20	168638	168638	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gacacatgttttttctcttcTtcatcattagcacaacataa	3	10	4	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:168638T>C	uc002wcz.1	-	2	171	c.171A>G	c.(169-171)GAA>GAG	p.E57E		NM_001037732	NP_001032821	Q7Z7B8	DB128_HUMAN	beta-defensin 128 precursor	57					defense response to bacterium	extracellular region				breast(1)	1		all_cancers(10;0.00499)|Lung NSC(37;0.227)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			TTTTCTCTTCTTCATCATTAG	0.383													73	288	---	---	---	---	PASS	C	168638	C	C	168638	2	2	44	1	0	0	0	0	0	0	0	1	4414	1606	56	5		5	DEFB128	20	168638	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08		168638	62856882	874	17961										
SIRPA	140885	broad.mit.edu	37	chr20	1918206	1918206	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acgccagcgtccaggtcccgAggaagtgaatgggaccgtgg	16	11	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:1918206A>T	uc002wfq.2	+	9	1867	c.1507A>T	c.(1507-1509)AGG>TGG	p.R503W	SIRPA_uc010zps.1_Missense_Mutation_p.R483W|SIRPA_uc002wfr.2_Missense_Mutation_p.R503W|SIRPA_uc002wfs.2_Missense_Mutation_p.R503W|SIRPA_uc002wft.2_Missense_Mutation_p.R507W	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	503	Cytoplasmic (Potential).			R -> K (in Ref. 7; CAA71944).	blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		CCAGGTCCCGAGGAAGTGAAT	0.627													92	53	---	---	---	---	PASS	T	1918206	T	T	1918206	3	4	44	1	0	0	0	0	1	0	0	0	14332	295	11	5	1537	5	SIRPA	20	1918206	Missense_Mutation	SNP	A	TCGA-22-5473-01A-01D-1632-08	1749568	1918206	61107314	875	17962										
LRRN4	164312	broad.mit.edu	37	chr20	6031567	6031567	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cccctccagggtcgtcagccGaggcatcttcctcaggtaga	11	15	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:6031567G>A	uc002wmo.2	-	3	942	c.718C>T	c.(718-720)CGG>TGG	p.R240W	LRRN4_uc002wmp.2_Missense_Mutation_p.R240W	NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	240	Extracellular (Potential).|LRR 8.					integral to membrane				skin(3)	3						GTCGTCAGCCGAGGCATCTTC	0.557													19	77	---	---	---	---	PASS	A	6031567	A	A	6031567	3	1	44	1	0	0	0	0	1	0	0	0	9037	1057	37	2	1516	2	LRRN4	20	6031567	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4113361	6031567	56993953	876	17963										
SEL1L2	80343	broad.mit.edu	37	chr20	13839949	13839949	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttcatacatataagccagatTgaacatggcttgcgcgttgt	9	8	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:13839949T>A	uc010gcf.2	-	18	1859	c.1777A>T	c.(1777-1779)AAT>TAT	p.N593Y	SEL1L2_uc002woq.3_Missense_Mutation_p.N454Y|SEL1L2_uc010zrl.1_Intron|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	593	Extracellular (Potential).|Sel1-like 11.					integral to membrane	binding			ovary(2)	2						TAAGCCAGATTGAACATGGCT	0.413													44	49	---	---	---	---	PASS	A	13839949	A	A	13839949	3	1	44	1	0	0	0	0	1	0	0	0	14011	1812	63	5	301	5	SEL1L2	20	13839949	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	7808382	13839949	49185571	877	17964										
FLRT3	23767	broad.mit.edu	37	chr20	14307545	14307545	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggtttccatctagaaccaggCgttttagactagtgagacct	10	9	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:14307545C>T	uc002wov.1	-	3	1075	c.608G>A	c.(607-609)CGC>CAC	p.R203H	MACROD2_uc002wot.2_Intron|MACROD2_uc002wou.2_Intron|FLRT3_uc002wow.1_Missense_Mutation_p.R203H	NM_198391	NP_938205	Q9NZU0	FLRT3_HUMAN	fibronectin leucine rich transmembrane protein 3	203	Extracellular (Potential).|LRR 7.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			kidney(1)	1		Colorectal(1;0.0464)	COAD - Colon adenocarcinoma(2;0.129)	Colorectal(1;0.0393)		TAGAACCAGGCGTTTTAGACT	0.438													22	128	---	---	---	---	PASS	T	14307545	T	T	14307545	3	4	44	1	0	0	0	0	1	0	0	0	5940	768	27	1	1345	1	FLRT3	20	14307545	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	467596	14307545	48717975	878	17965										
DSTN	11034	broad.mit.edu	37	chr20	17581499	17581499	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aaggctgtcattttttgtctCagtgcagacaaaaagtgcat	9	7	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:17581499C>T	uc002wpr.2	+	2	375	c.120C>T	c.(118-120)CTC>CTT	p.L40L	DSTN_uc002wpq.2_Silent_p.L23L|DSTN_uc010gck.2_Silent_p.L23L	NM_006870	NP_006861	P60981	DEST_HUMAN	destrin isoform a	40	ADF-H.				actin filament severing|actin polymerization or depolymerization		actin binding			large_intestine(1)|skin(1)	2						TTTTTTGTCTCAGTGCAGACA	0.378													25	120	---	---	---	---	PASS	T	17581499	T	T	17581499	2	4	44	1	0	0	0	0	0	0	0	1	4784	813	29	2		2	DSTN	20	17581499	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	3273954	17581499	45444021	879	17966										
OVOL2	58495	broad.mit.edu	37	chr20	18022309	18022309	+	Frame_Shift_Del	DEL	C	-	-													0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcatgcgctgcagacggaagCccttgccacacaggtcacag							TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:18022309delC	uc002wqi.1	-	3	623	c.380delG	c.(379-381)GGCfs	p.G127fs		NM_021220	NP_067043	Q9BRP0	OVOL2_HUMAN	zinc finger protein 339	127	C2H2-type 1.				negative regulation of keratinocyte differentiation|negative regulation of Notch signaling pathway|negative regulation of transcription by competitive promoter binding|regulation of cell cycle|regulation of keratinocyte proliferation|transcription, DNA-dependent	nucleus	DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1						CAGACGGAAGCCCTTGCCACA	0.617													30	34	---	---	---	---		-	18022309	-	-	18022309	7	5	44	1	0	1	0	1	0	0	0	0	11327	739	26	0	455	0	OVOL2	20	18022309	Frame_Shift_Del	DEL	C	TCGA-22-5473-01A-01D-1632-08	440810	18022309	45003211	880	17967										
GZF1	64412	broad.mit.edu	37	chr20	23345385	23345385	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gctgaaatgtttggatttatCagaaacttgttttcaattaa	7	4	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:23345385C>G	uc010gdb.2	+	3	539	c.365C>G	c.(364-366)TCA>TGA	p.S122*	GZF1_uc002wsy.2_Nonsense_Mutation_p.S122*|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Nonsense_Mutation_p.S122*	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	122					transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					TTGGATTTATCAGAAACTTGT	0.423													16	92	---	---	---	---	PASS	G	23345385	G	G	23345385	4	3	44	1	0	0	0	0	0	1	0	0	6914	838	29	2	367	2	GZF1	20	23345385	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	5323076	23345385	39680135	881	17968										
BPIL1	80341	broad.mit.edu	37	chr20	31606524	31606524	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgccaaggcatgtgggtaccGagggctccatggccaccgtg	15	12	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:31606524G>A	uc002wyj.2	+	9	945	c.751G>A	c.(751-753)GAG>AAG	p.E251K		NM_025227	NP_079503	Q8N4F0	BPIL1_HUMAN	bactericidal/permeability-increasing	251						extracellular region	lipid binding			skin(2)|large_intestine(1)|ovary(1)	4						TGTGGGTACCGAGGGCTCCAT	0.637													9	182	---	---	---	---	PASS	A	31606524	A	A	31606524	3	1	44	1	0	0	0	0	1	0	0	0	1491	1059	37	2	781	2	BPIL1	20	31606524	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	8261139	31606524	31418996	882	17969										
C20orf144	128864	broad.mit.edu	37	chr20	32251450	32251450	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctccccggcggcacccagatTgcgcggagcgggcgaaggta	16	14	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:32251450T>G	uc002wzs.1	+	2	271	c.239T>G	c.(238-240)TTG>TGG	p.L80W	NECAB3_uc002wzl.2_5'Flank|NECAB3_uc002wzm.3_Intron|NECAB3_uc002wzn.3_Intron|NECAB3_uc002wzo.3_Intron|NECAB3_uc002wzp.3_Intron|NECAB3_uc002wzq.3_Intron|NECAB3_uc002wzr.3_Intron|NECAB3_uc010geo.2_Intron|C20orf134_uc002wzt.2_5'Flank	NM_080825	NP_543015	Q9BQM9	CT144_HUMAN	hypothetical protein LOC128864	80											0						GCACCCAGATTGCGCGGAGCG	0.731													3	29	---	---	---	---	PASS	G	32251450	G	G	32251450	3	3	44	1	0	0	0	0	1	0	0	0	2090	1821	63	5	245	5	C20orf144	20	32251450	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	644926	32251450	30774070	883	17970										
E2F1	1869	broad.mit.edu	37	chr20	32267691	32267691	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gttcaggtcgacgacaccgtCagccgagtggctcagcagct	13	13	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:32267691C>T	uc002wzu.3	-	3	582	c.442G>A	c.(442-444)GAC>AAC	p.D148N		NM_005225	NP_005216	Q01094	E2F1_HUMAN	E2F transcription factor 1	148	Potential.				apoptosis|cell proliferation|G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|mRNA stabilization|negative regulation of transcription involved in G1/S phase of mitotic cell cycle|positive regulation of fibroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle	mitochondrion|Rb-E2F complex	sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription factor binding				0						ACGACACCGTCAGCCGAGTGG	0.597													15	74	---	---	---	---	PASS	T	32267691	T	T	32267691	3	4	44	1	0	0	0	0	1	0	0	0	4866	826	29	2	891	2	E2F1	20	32267691	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	16241	32267691	30757829	884	17971										
KIAA1755	85449	broad.mit.edu	37	chr20	36869797	36869797	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctccaccttgatgagtcctgGatacttgctcccatatgtcc	7	14	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:36869797G>C	uc002xhy.1	-	3	1008	c.736C>G	c.(736-738)CCA>GCA	p.P246A	KIAA1755_uc002xhz.1_Missense_Mutation_p.P246A	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	246										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				ATGAGTCCTGGATACTTGCTC	0.592													8	112	---	---	---	---	PASS	C	36869797	C	C	36869797	3	2	44	1	0	0	0	0	1	0	0	0	8257	1174	41	2	2914	2	KIAA1755	20	36869797	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4602106	36869797	26155723	885	17972										
PPP1R16B	26051	broad.mit.edu	37	chr20	37536802	37536802	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cacctacaacggggacatcaGggagaccaggacagaccaag	12	12	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:37536802G>T	uc002xje.2	+	10	1349	c.1160G>T	c.(1159-1161)AGG>ATG	p.R387M	PPP1R16B_uc010ggc.2_Missense_Mutation_p.R345M	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	387					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GGGGACATCAGGGAGACCAGG	0.597													3	66	---	---	---	---	PASS	T	37536802	T	T	37536802	3	4	44	1	0	0	0	0	1	0	0	0	12366	1000	35	3	1194	3	PPP1R16B	20	37536802	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	667005	37536802	25488718	886	17973										
FAM83D	81610	broad.mit.edu	37	chr20	37555035	37555035	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttcaaaggttgcctataaagCgggactgcacgccggttttt	11	9	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:37555035C>A	uc002xjg.2	+	1	81	c.40C>A	c.(40-42)CGG>AGG	p.R14R	FAM83D_uc002xjf.2_Silent_p.R14R	NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	Error:Variant_position_missing_in_Q9H4H8_after_alignment					cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				GCCTATAAAGCGGGACTGCAC	0.652													41	26	---	---	---	---	PASS	A	37555035	A	A	37555035	2	1	44	1	0	0	0	0	0	0	0	1	5636	759	27	1		1	FAM83D	20	37555035	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	18233	37555035	25470485	887	17974										
TOX2	84969	broad.mit.edu	37	chr20	42694504	42694504	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgcagtggggcctcccctgcCagcctcgcccggacgctggg	15	18	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:42694504C>T	uc002xlf.3	+	6	1076	c.1059C>T	c.(1057-1059)GCC>GCT	p.A353A	TOX2_uc010ggo.2_Silent_p.A371A|TOX2_uc002xle.3_Silent_p.A329A|TOX2_uc010ggp.2_Silent_p.A329A|TOX2_uc002xlg.2_Intron|TOX2_uc010zwk.1_Silent_p.A249A	NM_001098798	NP_001092268	Q96NM4	TOX2_HUMAN	TOX high mobility group box family member 2	353					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)			CCTCCCCTGCCAGCCTCGCCC	0.701													82	47	---	---	---	---	PASS	T	42694504	T	T	42694504	2	4	44	1	0	0	0	0	0	0	0	1	16375	581	21	3		3	TOX2	20	42694504	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	5139469	42694504	20331016	888	17975										
PI3	5266	broad.mit.edu	37	chr20	43804653	43804653	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	actaagcctggctcctgcccCattatcttgatccggtgcgc	9	15	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:43804653C>T	uc002xng.2	+	2	255	c.231C>T	c.(229-231)CCC>CCT	p.P77P		NM_002638	NP_002629	P19957	ELAF_HUMAN	elafin preproprotein	77	WAP.				copulation	proteinaceous extracellular matrix	serine-type endopeptidase inhibitor activity				0		Myeloproliferative disorder(115;0.0122)				GCTCCTGCCCCATTATCTTGA	0.498													66	39	---	---	---	---	PASS	T	43804653	T	T	43804653	2	4	44	1	0	0	0	0	0	0	0	1	11870	581	21	3		3	PI3	20	43804653	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1110149	43804653	19220867	889	17976										
SLC12A5	57468	broad.mit.edu	37	chr20	44664529	44664529	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcattgcaggcatcatggaGtccttctgcatggtgttcat	12	9	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:44664529G>A	uc010zxl.1	+	4	538	c.462G>A	c.(460-462)GAG>GAA	p.E154E	SLC12A5_uc002xra.2_Silent_p.E131E|SLC12A5_uc010zxm.1_RNA|SLC12A5_uc002xrb.2_Silent_p.E131E	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	154	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	GCATCATGGAGTCCTTCTGCA	0.622													16	73	---	---	---	---	PASS	A	44664529	A	A	44664529	2	1	44	1	0	0	0	0	0	0	0	1	14386	1020	36	3		3	SLC12A5	20	44664529	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	859876	44664529	18360991	890	17977										
ZBTB46	140685	broad.mit.edu	37	chr20	62421182	62421182	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgaaaggcttacttgagtctCggctgctgaacggccacccc	11	13	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr20:62421182C>T	uc002ygv.1	-	2	1130	c.929G>A	c.(928-930)CGA>CAA	p.R310Q	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	310					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					ACTTGAGTCTCGGCTGCTGAA	0.662													5	224	---	---	---	---	PASS	T	62421182	T	T	62421182	3	4	44	1	0	0	0	0	1	0	0	0	17544	884	31	2	856	2	ZBTB46	20	62421182	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	17756653	62421182	604338	891	17978										
TPTE	7179	broad.mit.edu	37	chr21	10934063	10934063	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gagtggggacattatgatcaTcaatcatgattctaacgacc	9	8	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr21:10934063T>A	uc002yip.1	-	16	1282	c.914A>T	c.(913-915)GAT>GTT	p.D305V	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.D287V|TPTE_uc002yir.1_Missense_Mutation_p.D267V|TPTE_uc010gkv.1_Missense_Mutation_p.D167V	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	305	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ATTATGATCATCAATCATGAT	0.313													29	229	---	---	---	---	PASS	A	10934063	A	A	10934063	3	1	44	1	0	0	0	0	1	0	0	0	16427	1435	50	5	777	5	TPTE	21	10934063	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08		10934063	37195832	892	17979										
TPTE	7179	broad.mit.edu	37	chr21	10970025	10970025	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcacctttctttcgcaggtgCctcctcggttgctcctttaa	7	14	2	0	rs143765390		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr21:10970025C>G	uc002yip.1	-	6	471	c.103G>C	c.(103-105)GCA>CCA	p.A35P	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.A35P|TPTE_uc002yir.1_Missense_Mutation_p.A35P|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	35					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTCGCAGGTGCCTCCTCGGTT	0.398													9	119	---	---	---	---	PASS	G	10970025	G	G	10970025	3	3	44	1	0	0	0	0	1	0	0	0	16427	739	26	4	1628	4	TPTE	21	10970025	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	35962	10970025	37159870	893	17980										
TMPRSS15	5651	broad.mit.edu	37	chr21	19725358	19725358	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atcctcaaagttacaattaaTtttctcataatctgtgaatg	4	7	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr21:19725358T>C	uc002ykw.2	-	10	1064	c.1033A>G	c.(1033-1035)ATT>GTT	p.I345V		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	345	Extracellular (Potential).|MAM.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TTACAATTAATTTTCTCATAA	0.299													37	87	---	---	---	---	PASS	C	19725358	C	C	19725358	3	2	44	1	0	0	0	0	1	0	0	0	16243	1493	52	5	2090	5	TMPRSS15	21	19725358	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	8755333	19725358	28404537	894	17981										
TIAM1	7074	broad.mit.edu	37	chr21	32582453	32582453	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gggcagacagaaccaggatgGagtgaaatactcgtggaccc	14	9	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr21:32582453G>C	uc002yow.1	-	12	2768	c.2296C>G	c.(2296-2298)CCA>GCA	p.P766A	TIAM1_uc011adk.1_Missense_Mutation_p.P766A|TIAM1_uc011adl.1_Missense_Mutation_p.P741A	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	766	RBD.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						AACCAGGATGGAGTGAAATAC	0.517													16	50	---	---	---	---	PASS	C	32582453	C	C	32582453	3	2	44	1	0	0	0	0	1	0	0	0	15887	1174	41	2	2551	2	TIAM1	21	32582453	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	12857095	32582453	15547442	895	17982										
SIK1	150094	broad.mit.edu	37	chr21	44845334	44845334	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gttcagaagcttcatcagctGaacctcacgatagattttct	7	10	5	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr21:44845334G>C	uc002zdf.2	-	3	353	c.226C>G	c.(226-228)CAG>GAG	p.Q76E		NM_173354	NP_775490	P57059	SIK1_HUMAN	salt-inducible kinase 1	76	Protein kinase.				anoikis|cell cycle|cell differentiation|intracellular protein kinase cascade|multicellular organismal development|regulation of cell differentiation|regulation of mitotic cell cycle	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(2)|testis(2)|ovary(1)|central_nervous_system(1)|skin(1)	7						TTCATCAGCTGAACCTCACGA	0.348													15	30	---	---	---	---	PASS	C	44845334	C	C	44845334	3	2	44	1	0	0	0	0	1	0	0	0	14317	1299	45	2	2173	2	SIK1	21	44845334	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	12262881	44845334	3284561	896	17983										
ITGB2	3689	broad.mit.edu	37	chr21	46326964	46326964	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccctcatgagcagctgtggcCgggtgtcgcagcgaatggag	16	11	1	1	rs144806686		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr21:46326964C>T	uc002zgd.2	-	3	238	c.194G>A	c.(193-195)CGG>CAG	p.R65Q	ITGB2_uc002zge.2_Missense_Mutation_p.R65Q|ITGB2_uc002zgf.3_Missense_Mutation_p.R65Q|ITGB2_uc011afl.1_5'UTR|ITGB2_uc010gpw.2_Missense_Mutation_p.R65Q|ITGB2_uc002zgg.2_Missense_Mutation_p.R65Q	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	65	Extracellular (Potential).				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	CAGCTGTGGCCGGGTGTCGCA	0.652													25	58	---	---	---	---	PASS	T	46326964	T	T	46326964	3	4	44	1	0	0	0	0	1	0	0	0	7894	652	23	1	2167	1	ITGB2	21	46326964	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	1481630	46326964	1802931	897	17984										
COL6A2	1292	broad.mit.edu	37	chr21	47532249	47532249	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agggcaccgtccacttcgccGtggtcatcaccgacggccac	11	17	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr21:47532249G>C	uc002zia.1	+	3	554	c.472G>C	c.(472-474)GTG>CTG	p.V158L	COL6A2_uc002zhy.1_Missense_Mutation_p.V158L|COL6A2_uc002zhz.1_Missense_Mutation_p.V158L|COL6A2_uc002zib.1_Intron	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	158	VWFA 1.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		CCACTTCGCCGTGGTCATCAC	0.711													6	26	---	---	---	---	PASS	C	47532249	C	C	47532249	3	2	44	1	0	0	0	0	1	0	0	0	3700	1145	40	4	478	4	COL6A2	21	47532249	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1205285	47532249	597646	898	17985										
PCNT	5116	broad.mit.edu	37	chr21	47832813	47832813	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctctgcaagcaagaaggcgtGatgtcagtgctcaccgtctg	12	11	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr21:47832813G>A	uc002zji.3	+	29	6164	c.6057G>A	c.(6055-6057)GTG>GTA	p.V2019V	PCNT_uc002zjj.2_Silent_p.V1901V	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2019					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					AAGAAGGCGTGATGTCAGTGC	0.572													4	120	---	---	---	---	PASS	A	47832813	A	A	47832813	2	1	44	1	0	0	0	0	0	0	0	1	11590	1277	45	2		2	PCNT	21	47832813	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	300564	47832813	297082	899	17986										
VPREB3	29802	broad.mit.edu	37	chr22	24095215	24095215	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggccggtggtgatcctcctCcgagcggtagtagaggagat	16	9	0	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr22:24095215C>T	uc002zxt.2	-	2	300	c.220G>A	c.(220-222)GAG>AAG	p.E74K	ZNF70_uc002zxs.2_5'Flank	NM_013378	NP_037510	Q9UKI3	VPRE3_HUMAN	pre-B lymphocyte 3 precursor	74	Ig-like.					endoplasmic reticulum					0		Medulloblastoma(6;7.87e-06)|all_neural(6;0.00334)				TGATCCTCCTCCGAGCGGTAG	0.627													14	42	---	---	---	---	PASS	T	24095215	T	T	24095215	3	4	44	1	0	0	0	0	1	0	0	0	17184	864	30	2	155	2	VPREB3	22	24095215	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08		24095215	27209351	900	17987										
GAS2L1	10634	broad.mit.edu	37	chr22	29706515	29706515	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aagtaccgtgtgggggactcGagcctgctcatctttgtgcg	14	10	2	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr22:29706515G>C	uc003afa.1	+	3	919	c.720G>C	c.(718-720)TCG>TCC	p.S240S	GAS2L1_uc010gvm.1_Silent_p.S240S|GAS2L1_uc003afb.1_Silent_p.S240S|GAS2L1_uc003afc.1_Silent_p.S240S|GAS2L1_uc003afd.1_Silent_p.S240S|GAS2L1_uc003afe.1_Silent_p.S240S	NM_152236	NP_689422	Q99501	GA2L1_HUMAN	growth arrest-specific 2 like 1 isoform a	240	GAR.				cell cycle arrest	cytoplasm|cytoskeleton					0						TGGGGGACTCGAGCCTGCTCA	0.677													14	77	---	---	---	---	PASS	C	29706515	C	C	29706515	2	2	44	1	0	0	0	0	0	0	0	1	6246	1045	37	2		2	GAS2L1	22	29706515	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	5611300	29706515	21598051	901	17988										
AP1B1	162	broad.mit.edu	37	chr22	29745309	29745309	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acaatccagatcatggcagcCcgggcctcaggctcatccag	10	15	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr22:29745309C>A	uc003afj.2	-	11	1519	c.1335G>T	c.(1333-1335)CGG>CGT	p.R445R	AP1B1_uc003afi.2_Silent_p.R445R|AP1B1_uc003afk.2_Silent_p.R445R|AP1B1_uc003afl.2_Silent_p.R445R|AP1B1_uc011ako.1_5'UTR	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	445					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						TCATGGCAGCCCGGGCCTCAG	0.587													32	121	---	---	---	---	PASS	A	29745309	A	A	29745309	2	1	44	1	0	0	0	0	0	0	0	1	731	610	22	3		3	AP1B1	22	29745309	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	38794	29745309	21559257	902	17989										
ASCC2	84164	broad.mit.edu	37	chr22	30189459	30189459	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	acactgtggtagggcaggctCtcgcctggctgcagtggcac	15	12	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr22:30189459C>G	uc003agr.2	-	17	1914	c.1809G>C	c.(1807-1809)GAG>GAC	p.E603D	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Missense_Mutation_p.E603D|ASCC2_uc011akr.1_Missense_Mutation_p.E527D	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	603					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			AGGGCAGGCTCTCGCCTGGCT	0.602													24	77	---	---	---	---	PASS	G	30189459	G	G	30189459	3	3	44	1	0	0	0	0	1	0	0	0	1032	912	32	2	480	2	ASCC2	22	30189459	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	444150	30189459	21115107	903	17990										
RFPL3	10738	broad.mit.edu	37	chr22	32756259	32756259	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggatatgaccttggatgccGacacagccaacaacttcctc	8	13	0	1	rs146565766	byFrequency	TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr22:32756259G>T	uc003amj.2	+	2	599	c.394G>T	c.(394-396)GAC>TAC	p.D132Y	RFPL3_uc010gwn.2_Missense_Mutation_p.D103Y|RFPL3S_uc003amk.2_RNA|RFPL3S_uc003aml.2_RNA	NM_001098535	NP_001092005	O75679	RFPL3_HUMAN	ret finger protein-like 3 isoform 1	132	B30.2/SPRY.						zinc ion binding			ovary(1)	1						CTTGGATGCCGACACAGCCAA	0.502													24	118	---	---	---	---	PASS	T	32756259	T	T	32756259	3	4	44	1	0	0	0	0	1	0	0	0	13255	1058	37	2	400	2	RFPL3	22	32756259	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	2566800	32756259	18548307	904	17991										
CYTH4	27128	broad.mit.edu	37	chr22	37696994	37696994	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgggcgaggcccagaagataGaccggatgatggaggccttt	16	9	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr22:37696994G>C	uc003arf.2	+	7	597	c.481G>C	c.(481-483)GAC>CAC	p.D161H	CYTH4_uc003are.2_Missense_Mutation_p.D161H|CYTH4_uc011amw.1_Missense_Mutation_p.D104H|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	161	SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						CCAGAAGATAGACCGGATGAT	0.687													9	30	---	---	---	---	PASS	C	37696994	C	C	37696994	3	2	44	1	0	0	0	0	1	0	0	0	4206	942	33	2	507	2	CYTH4	22	37696994	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4940735	37696994	13607572	905	17992										
DDX17	10521	broad.mit.edu	37	chr22	38894559	38894559	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tctgtaaagtgctgatccatCaacacatccattacatattc	4	11	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr22:38894559C>T	uc003avy.3	-	4	661	c.558G>A	c.(556-558)TTG>TTA	p.L186L	DDX17_uc003avx.3_Silent_p.L186L|DDX17_uc011anu.1_Silent_p.L99L	NM_001098504	NP_001091974	Q92841	DDX17_HUMAN	DEAD box polypeptide 17 isoform 3	107	Q motif.				RNA processing	nucleus	ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity|RNA-dependent ATPase activity			skin(3)|upper_aerodigestive_tract(1)	4	Melanoma(58;0.0286)					GCTGATCCATCAACACATCCA	0.393													18	164	---	---	---	---	PASS	T	38894559	T	T	38894559	2	4	44	1	0	0	0	0	0	0	0	1	4344	825	29	2		2	DDX17	22	38894559	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	1197565	38894559	12410007	906	17993										
PRR5-ARHGAP8	553158	broad.mit.edu	37	chr22	45127638	45127638	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgctggactcactggcagaGacctgggacttcttcttcag	11	12	4	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr22:45127638G>T	uc003bfd.2	+	5	623	c.351G>T	c.(349-351)GAG>GAT	p.E117D	PRR5_uc003bew.1_Missense_Mutation_p.E108D|PRR5_uc003bex.1_Missense_Mutation_p.E22D|PRR5_uc010gzt.1_Missense_Mutation_p.E140D|PRR5_uc010gzu.1_Missense_Mutation_p.E81D|PRR5_uc003bey.1_Missense_Mutation_p.E108D|PRR5_uc003bez.1_Missense_Mutation_p.E22D|PRR5-ARHGAP8_uc003bfc.2_Intron|PRR5-ARHGAP8_uc011aqi.1_Intron|PRR5-ARHGAP8_uc011aqj.1_Intron|PRR5_uc003bfa.1_Missense_Mutation_p.E10D|PRR5_uc003bfb.1_Missense_Mutation_p.E117D|PRR5_uc003bfe.1_RNA|PRR5-ARHGAP8_uc003bfg.1_Intron|PRR5_uc003bfh.1_Missense_Mutation_p.E16D	NM_181335	NP_851852			Rho GTPase activating protein 8 isoform 2											skin(2)	2						CACTGGCAGAGACCTGGGACT	0.652													42	24	---	---	---	---	PASS	T	45127638	T	T	45127638	3	4	44	1	0	0	0	0	1	0	0	0	12601	933	33	2		2	PRR5-ARHGAP8	22	45127638	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	6233079	45127638	6176928	907	17994										
SMC1B	27127	broad.mit.edu	37	chr22	45779481	45779481	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttttaaaaataatgttccatCaagagctactgtctgtaaaa	5	6	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr22:45779481C>T	uc003bgc.2	-	12	1976	c.1924G>A	c.(1924-1926)GAT>AAT	p.D642N	SMC1B_uc003bgd.2_Missense_Mutation_p.D642N|SMC1B_uc003bge.1_Missense_Mutation_p.D425N	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	642	Flexible hinge.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		AATGTTCCATCAAGAGCTACT	0.323													49	78	---	---	---	---	PASS	T	45779481	T	T	45779481	3	4	44	1	0	0	0	0	1	0	0	0	14782	826	29	2	1839	2	SMC1B	22	45779481	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	651843	45779481	5525085	908	17995										
PKDREJ	10343	broad.mit.edu	37	chr22	46653841	46653841	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tttgctctcacttgcctcatCaatggaaggccaaggatttt	8	10	3	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr22:46653841C>G	uc003bhh.2	-	1	5379	c.5379G>C	c.(5377-5379)TTG>TTC	p.L1793F		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1793	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		CTTGCCTCATCAATGGAAGGC	0.408													6	398	---	---	---	---	PASS	G	46653841	G	G	46653841	3	3	44	1	0	0	0	0	1	0	0	0	11970	825	29	2	1386	2	PKDREJ	22	46653841	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	874360	46653841	4650725	909	17996										
SBF1	6305	broad.mit.edu	37	chr22	50900000	50900000	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gatgacccggtacgtggtgaGgaagacggcgccctcagctg	16	11	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chr22:50900000G>A	uc003blh.2	-	22	2986	c.2791C>T	c.(2791-2793)CTC>TTC	p.L931F	SBF1_uc011arx.1_Missense_Mutation_p.L595F|SBF1_uc003bli.2_Missense_Mutation_p.L932F	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	931	GRAM.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		TACGTGGTGAGGAAGACGGCG	0.701													10	27	---	---	---	---	PASS	A	50900000	A	A	50900000	3	1	44	1	0	0	0	0	1	0	0	0	13858	1000	35	3	2970	3	SBF1	22	50900000	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4246159	50900000	404566	910	17997										
WWC3	55841	broad.mit.edu	37	chrX	10047794	10047794	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttaaaacgagagctgacccaGatgaagcaggaactgcagta	11	8	0	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:10047794G>T	uc004csx.3	+	5	525	c.327G>T	c.(325-327)CAG>CAT	p.Q109H	WWC3_uc010nds.2_5'UTR|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	109	Potential.									ovary(4)	4						AGCTGACCCAGATGAAGCAGG	0.433													13	13	---	---	---	---	PASS	T	10047794	T	T	10047794	3	4	44	1	0	0	0	0	1	0	0	0	17410	933	33	2	341	2	WWC3	23	10047794	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08		10047794	145222766	911	17998										
BEND2	139105	broad.mit.edu	37	chrX	18213564	18213564	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gtaagtataattttctcagcTattgggaaaaaaaaagaatg	8	3	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:18213564T>A	uc004cyj.3	-	7	1188	c.1034_splice	c.e7-1	p.A345_splice	BEND2_uc010nfb.2_Intron	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2											ovary(3)|kidney(1)|central_nervous_system(1)	5						TTTTCTCAGCTATTGGGAaaa	0.209													19	19	---	---	---	---	PASS	A	18213564	A	A	18213564	5	1	44	1	0	0	0	0	0	0	1	0	1398	1536	53	5	1425	5	BEND2	23	18213564	Splice_Site	SNP	T	TCGA-22-5473-01A-01D-1632-08	8165770	18213564	137056996	912	17999										
BEND2	139105	broad.mit.edu	37	chrX	18230740	18230740	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccacttcctctgagttgtaaCtgtatcttcttaaatgtact	5	10	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:18230740C>G	uc004cyj.3	-	4	591	c.437G>C	c.(436-438)AGT>ACT	p.S146T	BEND2_uc010nfb.2_Missense_Mutation_p.S146T	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	146										ovary(3)|kidney(1)|central_nervous_system(1)	5						TGAGTTGTAACTGTATCTTCT	0.338													35	46	---	---	---	---	PASS	G	18230740	G	G	18230740	3	3	44	1	0	0	0	0	1	0	0	0	1398	565	20	4	2032	4	BEND2	23	18230740	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	17176	18230740	137039820	913	18000										
PHEX	5251	broad.mit.edu	37	chrX	22186486	22186486	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ttataatgaatgatactcatGttaatgaagacctcaaagct	6	6	2	4			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:22186486G>A	uc004dah.2	+	13	1665	c.1462G>A	c.(1462-1464)GTT>ATT	p.V488I	PHEX_uc011mjr.1_Missense_Mutation_p.V488I|PHEX_uc011mjs.1_Missense_Mutation_p.V391I	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	488	Extracellular (Potential).				biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						TGATACTCATGTTAATGAAGA	0.363													27	35	---	---	---	---	PASS	A	22186486	A	A	22186486	3	1	44	1	0	0	0	0	1	0	0	0	11819	1377	48	3	1512	3	PHEX	23	22186486	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3955746	22186486	133084074	914	18001										
ACOT9	23597	broad.mit.edu	37	chrX	23723173	23723173	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tgaaacatgatgtcatctacTgctaccacaaacggtcgaga	8	10	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:23723173T>C	uc004dap.2	-	13	1163	c.1017A>G	c.(1015-1017)GCA>GCG	p.A339A	ACOT9_uc004dan.2_Silent_p.A89A|ACOT9_uc004dao.2_Silent_p.A348A|ACOT9_uc004daq.2_Silent_p.A297A|ACOT9_uc004dar.2_Silent_p.A279A|ACOT9_uc011mjt.1_RNA|ACOT9_uc004das.2_Silent_p.A279A	NM_001033583	NP_001028755	Q9Y305	ACOT9_HUMAN	acyl-Coenzyme A thioesterase 2, mitochondrial	339					acyl-CoA metabolic process	mitochondrion	acetyl-CoA hydrolase activity|carboxylesterase activity			ovary(2)|pancreas(1)	3						TGTCATCTACTGCTACCACAA	0.408													44	31	---	---	---	---	PASS	C	23723173	C	C	23723173	2	2	44	1	0	0	0	0	0	0	0	1	157	1567	55	5		5	ACOT9	23	23723173	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	1536687	23723173	131547387	915	18002										
POLA1	5422	broad.mit.edu	37	chrX	24721417	24721417	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agttgatgaagaacagtattCgaagctggttcaggcacgcc	12	8	1	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:24721417C>T	uc004dbl.2	+	3	223	c.200C>T	c.(199-201)TCG>TTG	p.S67L	POLA1_uc004dbm.2_Missense_Mutation_p.S73L|POLA1_uc004dbn.2_5'UTR	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	67					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	GAACAGTATTCGAAGCTGGTT	0.478													6	6	---	---	---	---	PASS	T	24721417	T	T	24721417	3	4	44	1	0	0	0	0	1	0	0	0	12187	893	31	2	210	2	POLA1	23	24721417	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	998244	24721417	130549143	916	18003										
MAGEB18	286514	broad.mit.edu	37	chrX	26157751	26157751	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atggcaaccgtgccccagaaGaggcagtctgggaaattatg	13	9	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:26157751G>T	uc004dbq.1	+	2	836	c.649G>T	c.(649-651)GAG>TAG	p.E217*		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	217	MAGE.						protein binding			central_nervous_system(1)	1						TGCCCCAGAAGAGGCAGTCTG	0.463													5	3	---	---	---	---	PASS	T	26157751	T	T	26157751	4	4	44	1	0	0	0	0	0	1	0	0	9175	943	33	2	651	2	MAGEB18	23	26157751	Nonsense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	1436334	26157751	129112809	917	18004										
NR0B1	190	broad.mit.edu	37	chrX	30326502	30326502	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tggctcgttgcccccggtctCccgccgcctggtggtgagga	15	15	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:30326502C>A	uc004dcf.3	-	1	994	c.979G>T	c.(979-981)GAG>TAG	p.E327*		NM_000475	NP_000466	P51843	NR0B1_HUMAN	nuclear receptor subfamily 0, group B, member 1	327	Ligand-binding (By similarity).				adrenal gland development|hypothalamus development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of steroid hormone receptor signaling pathway|pituitary gland development|protein localization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid biosynthetic process	cytoplasm|membrane fraction|nucleoplasm|nucleus|polysomal ribosome	AF-2 domain binding|DNA hairpin binding|ligand-regulated transcription factor activity|protein domain specific binding|protein homodimerization activity|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|steroid hormone receptor binding|transcription corepressor activity|transcription factor binding			ovary(1)|lung(1)	2					Dexamethasone(DB01234)|Tretinoin(DB00755)	CCCCCGGTCTCCCGCCGCCTG	0.677											OREG0019719	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	11	---	---	---	---	PASS	A	30326502	A	A	30326502	4	1	44	1	0	0	0	0	0	1	0	0	10613	864	30	2	441	2	NR0B1	23	30326502	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	4168751	30326502	124944058	918	18005										
FTHL17	53940	broad.mit.edu	37	chrX	31089771	31089771	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aggtggaaggcggactccatGgccacgagcccgctctccca	13	15	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:31089771G>T	uc004dcl.1	-	1	403	c.300C>A	c.(298-300)GCC>GCA	p.A100A		NM_031894	NP_114100	Q9BXU8	FHL17_HUMAN	ferritin, heavy polypeptide-like 17	100	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport		ferric iron binding|oxidoreductase activity				0						CGGACTCCATGGCCACGAGCC	0.627													23	37	---	---	---	---	PASS	T	31089771	T	T	31089771	2	4	44	1	0	0	0	0	0	0	0	1	6083	1335	47	3		3	FTHL17	23	31089771	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	763269	31089771	124180789	919	18006										
FAM47A	158724	broad.mit.edu	37	chrX	34148342	34148342	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tcacacgctgtgcggtataaGaattcgatggcgtgtggaat	13	7	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:34148342G>C	uc004ddg.2	-	1	2087	c.2054C>G	c.(2053-2055)TCT>TGT	p.S685C		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	685										ovary(4)|central_nervous_system(1)	5						TGCGGTATAAGAATTCGATGG	0.443													38	50	---	---	---	---	PASS	C	34148342	C	C	34148342	3	2	44	1	0	0	0	0	1	0	0	0	5569	942	33	2	325	2	FAM47A	23	34148342	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	3058571	34148342	121122218	920	18007										
TSPYL2	64061	broad.mit.edu	37	chrX	53117071	53117071	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctgacctagaggatgtgcttCaggtcccaaacggttgggcc	13	11	1	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:53117071C>T	uc004drw.2	+	7	2164	c.2032C>T	c.(2032-2034)CAG>TAG	p.Q678*	TSPYL2_uc004drv.2_3'UTR	NM_022117	NP_071400	Q9H2G4	TSYL2_HUMAN	TSPY-like 2	678					cell cycle|chromatin modification|negative regulation of cell cycle|negative regulation of cell growth|negative regulation of DNA replication|nucleosome assembly|regulation of protein kinase activity|regulation of signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|rDNA binding				0						GGATGTGCTTCAGGTCCCAAA	0.527											OREG0019795	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	19	---	---	---	---	PASS	T	53117071	T	T	53117071	4	4	44	1	0	0	0	0	0	1	0	0	16657	827	29	2	2058	2	TSPYL2	23	53117071	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	18968729	53117071	102153489	921	18008										
STARD8	9754	broad.mit.edu	37	chrX	67940891	67940891	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gacgtggctgacctgctaaaGcagtatttccgggacctgcc	12	12	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:67940891G>A	uc004dxa.2	+	8	2307	c.1935G>A	c.(1933-1935)AAG>AAA	p.K645K	STARD8_uc004dxb.2_Silent_p.K725K|STARD8_uc004dxc.3_Silent_p.K645K	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	645	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						ACCTGCTAAAGCAGTATTTCC	0.557													30	17	---	---	---	---	PASS	A	67940891	A	A	67940891	2	1	44	1	0	0	0	0	0	0	0	1	15262	962	34	3		3	STARD8	23	67940891	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	14823820	67940891	87329669	922	18009										
ARR3	407	broad.mit.edu	37	chrX	69495998	69495998	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggaagtgattggtctgacgtTccgaaaagatctgtatgtgc	13	6	2	3			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:69495998T>A	uc004dyb.2	+	6	280	c.212T>A	c.(211-213)TTC>TAC	p.F71Y	ARR3_uc004dya.2_Missense_Mutation_p.F71Y	NM_004312	NP_004303	P36575	ARRC_HUMAN	arrestin 3, retinal (X-arrestin)	71					signal transduction|visual perception	cytoplasm|soluble fraction				large_intestine(2)|ovary(2)	4						GGTCTGACGTTCCGAAAAGAT	0.537													11	10	---	---	---	---	PASS	A	69495998	A	A	69495998	3	1	44	1	0	0	0	0	1	0	0	0	979	1783	62	5	230	5	ARR3	23	69495998	Missense_Mutation	SNP	T	TCGA-22-5473-01A-01D-1632-08	1555107	69495998	85774562	923	18010										
MAGEE2	139599	broad.mit.edu	37	chrX	75004088	75004088	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcatctgacacaaacttcaGggcttccatctttgtgattt	8	10	3	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:75004088G>C	uc004ecj.1	-	1	984	c.799C>G	c.(799-801)CTG>GTG	p.L267V		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	267	MAGE 1.									ovary(1)|skin(1)	2						ACAAACTTCAGGGCTTCCATC	0.493													32	25	---	---	---	---	PASS	C	75004088	C	C	75004088	3	2	44	1	0	0	0	0	1	0	0	0	9186	991	35	4	776	4	MAGEE2	23	75004088	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5508090	75004088	80266472	924	18011										
BRWD3	254065	broad.mit.edu	37	chrX	79975093	79975093	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ctccctgattattccatcaaGaatgctctcatcttggtcat	5	12	4	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:79975093G>C	uc004edt.2	-	18	2202	c.1939C>G	c.(1939-1941)CTT>GTT	p.L647V	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.L243V|BRWD3_uc004edp.2_Missense_Mutation_p.L476V|BRWD3_uc004edq.2_Missense_Mutation_p.L243V|BRWD3_uc010nmj.1_Missense_Mutation_p.L243V|BRWD3_uc004edr.2_Missense_Mutation_p.L317V|BRWD3_uc004eds.2_Missense_Mutation_p.L243V|BRWD3_uc004edu.2_Missense_Mutation_p.L317V|BRWD3_uc004edv.2_Missense_Mutation_p.L243V|BRWD3_uc004edw.2_Missense_Mutation_p.L243V|BRWD3_uc004edx.2_Missense_Mutation_p.L243V|BRWD3_uc004edy.2_Missense_Mutation_p.L243V|BRWD3_uc004edz.2_Missense_Mutation_p.L317V|BRWD3_uc004eea.2_Missense_Mutation_p.L317V|BRWD3_uc004eeb.2_Missense_Mutation_p.L243V	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	647										ovary(4)	4						ATTCCATCAAGAATGCTCTCA	0.393													9	64	---	---	---	---	PASS	C	79975093	C	C	79975093	3	2	44	1	0	0	0	0	1	0	0	0	1526	942	33	2	3565	2	BRWD3	23	79975093	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	4971005	79975093	75295467	925	18012										
BEX4	56271	broad.mit.edu	37	chrX	102471255	102471255	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cgggggcgagttaggcgactTgtccctaattttcgatgggc	15	9	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:102471255T>C	uc004ejv.3	+	3	409	c.174T>C	c.(172-174)CTT>CTC	p.L58L	BEX4_uc004ejw.3_Silent_p.L58L	NM_001080425	NP_001073894	Q9NWD9	BEX4_HUMAN	BEX family member 4	58						cytoplasm|nucleus				skin(1)	1						TTAGGCGACTTGTCCCTAATT	0.507													24	12	---	---	---	---	PASS	C	102471255	C	C	102471255	2	2	44	1	0	0	0	0	0	0	0	1	1412	1799	63	5		5	BEX4	23	102471255	Silent	SNP	T	TCGA-22-5473-01A-01D-1632-08	22496162	102471255	52799305	926	18013										
NRK	203447	broad.mit.edu	37	chrX	105189947	105189947	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atactggcaaaaatacaggcAgctgatccagtgaaccggtt	10	9	0	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:105189947A>T	uc004emd.2	+	25	4446	c.4143A>T	c.(4141-4143)GCA>GCT	p.A1381A	NRK_uc011msi.1_5'Flank	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1381	CNH.						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						AAATACAGGCAGCTGATCCAG	0.433										HNSCC(51;0.14)			9	10	---	---	---	---	PASS	T	105189947	T	T	105189947	2	4	44	1	0	0	0	0	0	0	0	1	10655	175	7	5		5	NRK	23	105189947	Silent	SNP	A	TCGA-22-5473-01A-01D-1632-08	2718692	105189947	50080613	927	18014										
CAPN6	827	broad.mit.edu	37	chrX	110490677	110490677	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	gcatgaactgtattcttctgGacaggagaacggacttcctc	10	10	2	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:110490677G>T	uc004epc.1	-	12	1830	c.1662C>A	c.(1660-1662)GTC>GTA	p.V554V	CAPN6_uc011msu.1_Silent_p.V299V	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	554	C2.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						TATTCTTCTGGACAGGAGAAC	0.413													54	45	---	---	---	---	PASS	T	110490677	T	T	110490677	2	4	44	1	0	0	0	0	0	0	0	1	2630	1161	41	2		2	CAPN6	23	110490677	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	5300730	110490677	44779883	928	18015										
DOCK11	139818	broad.mit.edu	37	chrX	117731471	117731471	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agctgccagtttccgccaatCttcccccaggctacttgaat	7	15	1	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:117731471C>A	uc004eqp.2	+	21	2404	c.2341C>A	c.(2341-2343)CTT>ATT	p.L781I	DOCK11_uc004eqq.2_Missense_Mutation_p.L547I	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	781	DHR-1.				blood coagulation	cytosol	GTP binding			ovary(3)	3						TTCCGCCAATCTTCCCCCAGG	0.403													4	143	---	---	---	---	PASS	A	117731471	A	A	117731471	3	1	44	1	0	0	0	0	1	0	0	0	4686	913	32	2	2423	2	DOCK11	23	117731471	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	7240794	117731471	37539089	929	18016										
UPF3B	65109	broad.mit.edu	37	chrX	118986805	118986805	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cccttggagctgtcccccgaGgtcccaccaccgctgcctgt	10	19	0	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:118986805G>C	uc004erz.1	-	1	164	c.87C>G	c.(85-87)ACC>ACG	p.T29T	UPF3B_uc004esa.1_Silent_p.T29T	NM_080632	NP_542199	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B	29					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|termination of RNA polymerase II transcription	cytosol|exon-exon junction complex|nucleoplasm	mRNA binding|nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(2)|kidney(1)	3						TGTCCCCCGAGGTCCCACCAC	0.642													67	139	---	---	---	---	PASS	C	118986805	C	C	118986805	2	2	44	1	0	0	0	0	0	0	0	1	17003	987	35	4		4	UPF3B	23	118986805	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	1255334	118986805	36283755	930	18017										
FAM70A	55026	broad.mit.edu	37	chrX	119394785	119394785	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	tagggtggagagtaacggggCggtgcacttgaggaccacat	17	7	0	2	rs138279635		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:119394785C>A	uc004eso.3	-	10	1217	c.990G>T	c.(988-990)CCG>CCT	p.P330P	FAM70A_uc004esp.3_Silent_p.P306P|FAM70A_uc010nqo.2_Silent_p.P222P	NM_017938	NP_060408	Q5JRV8	FA70A_HUMAN	hypothetical protein LOC55026 isoform 1	330	Pro-rich.					integral to membrane				lung(1)|breast(1)	2						AGTAACGGGGCGGTGCACTTG	0.527													24	42	---	---	---	---	PASS	A	119394785	A	A	119394785	2	1	44	1	0	0	0	0	0	0	0	1	5605	755	27	1		1	FAM70A	23	119394785	Silent	SNP	C	TCGA-22-5473-01A-01D-1632-08	407980	119394785	35875775	931	18018										
STAG2	10735	broad.mit.edu	37	chrX	123196827	123196827	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	agctttttgccgtggcccttCctcagttattagcaaaagta	8	10	1	0			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:123196827C>T	uc004etz.3	+	17	2053	c.1714C>T	c.(1714-1716)CCT>TCT	p.P572S	STAG2_uc004eua.2_Missense_Mutation_p.P572S|STAG2_uc004eub.2_Missense_Mutation_p.P572S|STAG2_uc004euc.2_Missense_Mutation_p.P572S|STAG2_uc004eud.2_Missense_Mutation_p.P572S|STAG2_uc004eue.2_Missense_Mutation_p.P572S	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	572					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						CGTGGCCCTTCCTCAGTTATT	0.363													59	18	---	---	---	---	PASS	T	123196827	T	T	123196827	3	4	44	1	0	0	0	0	1	0	0	0	15242	855	30	2	1776	2	STAG2	23	123196827	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	3802042	123196827	32073733	932	18019										
SMARCA1	6594	broad.mit.edu	37	chrX	128657245	128657245	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcggccgctccctcctcctGagaggtggacggcccgggct	16	16	0	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:128657245G>C	uc004eun.3	-	1	216	c.103C>G	c.(103-105)CAG>GAG	p.Q35E	SMARCA1_uc004eup.3_Missense_Mutation_p.Q35E|SMARCA1_uc011muk.1_Missense_Mutation_p.Q35E|SMARCA1_uc011mul.1_Missense_Mutation_p.Q35E	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	35					ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						CCCTCCTCCTGAGAGGTGGAC	0.677													53	108	---	---	---	---	PASS	C	128657245	C	C	128657245	3	2	44	1	0	0	0	0	1	0	0	0	14768	1299	45	2	3157	2	SMARCA1	23	128657245	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	5460418	128657245	26613315	933	18020										
PNMA5	114824	broad.mit.edu	37	chrX	152159171	152159171	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	cactcttcttcatctcgaatGagcttcattaactccagaaa	4	12	5	2			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:152159171G>C	uc010ntw.2	-	3	1311	c.972C>G	c.(970-972)CTC>CTG	p.L324L	PNMA5_uc004fha.3_Silent_p.L324L|PNMA5_uc010ntx.2_Silent_p.L324L|PNMA5_uc004fgy.3_Silent_p.L324L	NM_001103151	NP_001096621	Q96PV4	PNMA5_HUMAN	paraneoplastic antigen like 5	324					apoptosis					ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CATCTCGAATGAGCTTCATTA	0.562													53	19	---	---	---	---	PASS	C	152159171	C	C	152159171	2	2	44	1	0	0	0	0	0	0	0	1	12156	1277	45	2		2	PNMA5	23	152159171	Silent	SNP	G	TCGA-22-5473-01A-01D-1632-08	23501926	152159171	3111389	934	18021										
PDZD4	57595	broad.mit.edu	37	chrX	153072813	153072813	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ccgggtcataatactcatggCtgattggggggctgcccagg	15	10	2	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:153072813C>A	uc004fiz.1	-	3	558	c.308G>T	c.(307-309)AGC>ATC	p.S103I	PDZD4_uc004fiy.1_Missense_Mutation_p.S28I|PDZD4_uc004fix.2_Missense_Mutation_p.S7I|PDZD4_uc004fja.1_Missense_Mutation_p.S109I|PDZD4_uc011mze.1_Intron	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	103						cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ATACTCATGGCTGATTGGGGG	0.657													6	2	---	---	---	---	PASS	A	153072813	A	A	153072813	3	1	44	1	0	0	0	0	1	0	0	0	11703	797	28	3	2025	3	PDZD4	23	153072813	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	913642	153072813	2197747	935	18022										
MECP2	4204	broad.mit.edu	37	chrX	153295970	153295970	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	ggcggtggcaaccgcgggctGagtcttagctggctccttgg	17	11	1	1	rs61753972		TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrX:153295970G>C	uc004fjv.2	-	4	1535	c.1309C>G	c.(1309-1311)CAG>GAG	p.Q437E	MECP2_uc004fjw.2_Missense_Mutation_p.Q449E	NM_004992	NP_004983	P51608	MECP2_HUMAN	methyl CpG binding protein 2 isoform 1	437					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	heterochromatin|nucleus	double-stranded methylated DNA binding|protein domain specific binding|protein N-terminus binding|transcription corepressor activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACCGCGGGCTGAGTCTTAGCT	0.607													6	375	---	---	---	---	PASS	C	153295970	C	C	153295970	3	2	44	1	0	0	0	0	1	0	0	0	9423	1299	45	2	155	2	MECP2	23	153295970	Missense_Mutation	SNP	G	TCGA-22-5473-01A-01D-1632-08	223157	153295970	1974590	936	18023										
ZFY	7544	broad.mit.edu	37	chrY	2843674	2843674	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	atatgactgtcaatgactctCaacaagaagatgaagattta	7	6	2	6			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrY:2843674C>T	uc004fqj.2	+	5	1228	c.907C>T	c.(907-909)CAA>TAA	p.Q303*	ZFY_uc010nwd.1_Nonsense_Mutation_p.Q303*|ZFY_uc011nan.1_Nonsense_Mutation_p.Q112*|ZFY_uc010nwe.2_Nonsense_Mutation_p.Q277*	NM_003411	NP_003402	P08048	ZFY_HUMAN	zinc finger protein, Y-linked isoform 1	303					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CAATGACTCTCAACAAGAAGA	0.254													28	57	---	---	---	---	PASS	T	2843674	T	T	2843674	4	4	44	1	0	0	0	0	0	1	0	0	17659	827	29	2	921	2	ZFY	24	2843674	Nonsense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08		2843674	56529892	937	18024										
PCDH11Y	83259	broad.mit.edu	37	chrY	4967431	4967431	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.244324324324324	226	4.49777669266856e-50	2.85660031179781	3.52087939946199	2.43595963559666	0.425264260679198	0.801770950033723	147	aatagcccagttttcactcaCaatgaatacaaattctatgt	4	9	3	1			TCGA-22-5473-01A-01D-1632-08	TCGA-22-5473-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c107ca1d-5e35-470a-8c39-80dc7624e306	6dc5dbe8-5126-428e-b5e4-9514747bd33a	g.chrY:4967431C>A	uc004fqo.2	+	2	2546	c.1812C>A	c.(1810-1812)CAC>CAA	p.H604Q	PCDH11Y_uc010nwg.1_Missense_Mutation_p.H593Q|PCDH11Y_uc004fql.1_Missense_Mutation_p.H593Q|PCDH11Y_uc004fqm.1_Missense_Mutation_p.H593Q|PCDH11Y_uc004fqn.1_Missense_Mutation_p.H604Q|PCDH11Y_uc004fqp.1_Missense_Mutation_p.H375Q	NM_032973	NP_116755	Q9BZA8	PC11Y_HUMAN	protocadherin 11 Y-linked isoform c	604	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						TTTTCACTCACAATGAATACA	0.393													79	26	---	---	---	---	PASS	A	4967431	A	A	4967431	3	1	44	1	0	0	0	0	1	0	0	0	11509	477	17	3	1854	3	PCDH11Y	24	4967431	Missense_Mutation	SNP	C	TCGA-22-5473-01A-01D-1632-08	2123757	4967431	54406135	938	18025										
PUSL1	126789	broad.mit.edu	37	chr1	1246036	1246036	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	agctgcggttctggaacctgGagtttgagagccagtctttc	13	9	2	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr1:1246036G>C	uc001aed.2	+	6	697	c.667G>C	c.(667-669)GAG>CAG	p.E223Q	ACAP3_uc001aeb.2_5'Flank|ACAP3_uc001aec.1_5'Flank|PUSL1_uc010nyi.1_Missense_Mutation_p.E62Q|PUSL1_uc009vjx.2_Missense_Mutation_p.E24Q	NM_153339	NP_699170	Q8N0Z8	PUSL1_HUMAN	pseudouridylate synthase-like 1	223					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			skin(1)	1	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;4.95e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CTGGAACCTGGAGTTTGAGAG	0.587													5	155	---	---	---	---	PASS	C	1246036	C	C	1246036	3	2	45	1	0	0	0	0	1	0	0	0	12835	1175	41	2	689	2	PUSL1	1	1246036	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08		1246036	248004585	1	18026										
AHDC1	27245	broad.mit.edu	37	chr1	27878009	27878009	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ccttggccaggctggggactGtccctaggctcaggctcagg	15	13	2	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr1:27878009G>A	uc009vsy.2	-	6	1587	c.618C>T	c.(616-618)GAC>GAT	p.D206D	AHDC1_uc009vsz.1_Silent_p.D206D|AHDC1_uc001boh.1_Silent_p.D79D	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	206	Pro-rich.						DNA binding			central_nervous_system(1)	1		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		GCTGGGGACTGTCCCTAGGCT	0.667													8	29	---	---	---	---	PASS	A	27878009	A	A	27878009	2	1	45	1	0	0	0	0	0	0	0	1	412	1368	48	3		3	AHDC1	1	27878009	Silent	SNP	G	TCGA-22-5474-01A-01D-1632-08	26631973	27878009	221372612	2	18027										
KIF2C	11004	broad.mit.edu	37	chr1	45232580	45232580	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ctttgtgaacaaagcggaatCtgctctggcccagcaagcca	10	12	2	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr1:45232580C>G	uc001cmg.3	+	20	2169	c.2054C>G	c.(2053-2055)TCT>TGT	p.S685C	KIF2C_uc010olb.1_Missense_Mutation_p.S644C|KIF2C_uc010olc.1_Missense_Mutation_p.S572C|KIF2C_uc001cmh.3_Missense_Mutation_p.S631C	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	685					blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					AAAGCGGAATCTGCTCTGGCC	0.587													18	34	---	---	---	---	PASS	G	45232580	G	G	45232580	3	3	45	1	0	0	0	0	1	0	0	0	8299	913	32	2	2132	2	KIF2C	1	45232580	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	17354571	45232580	204018041	3	18028										
KIF2C	11004	broad.mit.edu	37	chr1	45232776	45232776	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ccctttcttccagatgtcatCaaggccttgcgcctggccat	8	15	3	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr1:45232776C>G	uc001cmg.3	+	21	2218	c.2103C>G	c.(2101-2103)ATC>ATG	p.I701M	KIF2C_uc010olb.1_Missense_Mutation_p.I660M|KIF2C_uc010olc.1_Missense_Mutation_p.I588M|KIF2C_uc001cmh.3_Missense_Mutation_p.I647M	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	701					blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CAGATGTCATCAAGGCCTTGC	0.542													23	44	---	---	---	---	PASS	G	45232776	G	G	45232776	3	3	45	1	0	0	0	0	1	0	0	0	8299	816	29	2	2185	2	KIF2C	1	45232776	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	196	45232776	204017845	4	18029										
NOTCH2NL	388677	broad.mit.edu	37	chr1	145282031	145282031	+	Nonstop_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	aaagaacacgatgagaattaGacactggaaaatatgtatgt	9	4	0	3			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr1:145282031G>C	uc001emn.3	+	5	1081	c.711G>C	c.(709-711)TAG>TAC	p.*237Y	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_Intron|NOTCH2NL_uc001emm.3_Nonstop_Mutation_p.*237Y|NOTCH2NL_uc001emo.2_Intron|NOTCH2NL_uc010oyh.1_Intron	NM_203458	NP_982283	Q7Z3S9	NT2NL_HUMAN	Notch homolog 2 N-terminal like protein	237					cell differentiation|multicellular organismal development|Notch signaling pathway	cytoplasm|extracellular region	calcium ion binding			ovary(1)	1						ATGAGAATTAGACACTGGAAA	0.368													6	71	---	---	---	---	PASS	C	145282031	C	C	145282031	4	2	45	1	0	0	0	0	0	0	0	0	10549	937	33	2	725	2	NOTCH2NL	1	145282031	Nonstop_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	100049255	145282031	103968590	5	18030										
INTS3	65123	broad.mit.edu	37	chr1	153735786	153735786	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ttgatatcaccccttaccttGaccagttggatgagtccctg	8	12	1	3			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr1:153735786G>C	uc009wom.2	+	17	1935	c.1714G>C	c.(1714-1716)GAC>CAC	p.D572H	INTS3_uc001fct.2_Missense_Mutation_p.D572H|INTS3_uc001fcu.2_Missense_Mutation_p.D264H|INTS3_uc001fcv.2_Missense_Mutation_p.D366H|INTS3_uc010peb.1_Missense_Mutation_p.D366H|INTS3_uc001fcw.2_Missense_Mutation_p.D85H|INTS3_uc010pec.1_Missense_Mutation_p.D85H	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	573					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			CCCTTACCTTGACCAGTTGGA	0.517													58	71	---	---	---	---	PASS	C	153735786	C	C	153735786	3	2	45	1	0	0	0	0	1	0	0	0	7779	1290	45	2	1776	2	INTS3	1	153735786	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	8453755	153735786	95514835	6	18031										
ATP1A4	480	broad.mit.edu	37	chr1	160136391	160136391	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gaacctggaggcggtggagaCgctgggctccacgtccacca	15	13	0	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr1:160136391C>T	uc001fve.3	+	8	1600	c.1121C>T	c.(1120-1122)ACG>ATG	p.T374M	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Translation_Start_Site	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	374	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GCGGTGGAGACGCTGGGCTCC	0.582													15	45	---	---	---	---	PASS	T	160136391	T	T	160136391	3	4	45	1	0	0	0	0	1	0	0	0	1131	536	19	1	1151	1	ATP1A4	1	160136391	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	6400605	160136391	89114230	7	18032										
PBX1	5087	broad.mit.edu	37	chr1	164781371	164781371	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gccaagctaactcgccctcaActcccaactcggctggttag	8	16	1	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr1:164781371A>G	uc001gct.2	+	6	1240	c.982A>G	c.(982-984)ACT>GCT	p.T328A	PBX1_uc010pku.1_Missense_Mutation_p.T328A|PBX1_uc010pkv.1_Missense_Mutation_p.T245A|PBX1_uc001gcs.2_Missense_Mutation_p.T328A|PBX1_uc010pkw.1_Missense_Mutation_p.T218A	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	328					negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						CTCGCCCTCAACTCCCAACTC	0.438			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								6	49	---	---	---	---	PASS	G	164781371	G	G	164781371	3	3	45	1	0	0	0	0	1	0	0	0	11492	43	2	5	1004	5	PBX1	1	164781371	Missense_Mutation	SNP	A	TCGA-22-5474-01A-01D-1632-08	4644980	164781371	84469250	8	18033										
SLC9A11	284525	broad.mit.edu	37	chr1	173486811	173486811	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ctatcacacctttgattactCtctattccaaaggtaggaga	6	10	2	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr1:173486811C>A	uc001giz.2	-	23	3195	c.2772G>T	c.(2770-2772)GAG>GAT	p.E924D	SLC9A11_uc009wwe.2_Missense_Mutation_p.E482D	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	924	cNMP.				sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						TTTGATTACTCTCTATTCCAA	0.393													4	115	---	---	---	---	PASS	A	173486811	A	A	173486811	3	1	45	1	0	0	0	0	1	0	0	0	14711	912	32	2	626	2	SLC9A11	1	173486811	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	8705440	173486811	75763810	9	18034										
ZNF238	10472	broad.mit.edu	37	chr1	244218145	244218145	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	agagcgagcgtgtccaggtgGagggaggcatggagagcagt	20	6	0	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr1:244218145G>T	uc001iae.2	+	1	1564	c.1042G>T	c.(1042-1044)GAG>TAG	p.E348*	ZNF238_uc001iad.3_Nonsense_Mutation_p.E357*|ZNF238_uc001iaf.1_3'UTR	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	348	Interaction with DNMT3A.				negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			TGTCCAGGTGGAGGGAGGCAT	0.622													23	23	---	---	---	---	PASS	T	244218145	T	T	244218145	4	4	45	1	0	0	0	0	0	1	0	0	17787	1175	41	2	1075	2	ZNF238	1	244218145	Nonsense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	70731334	244218145	5032476	10	18035										
TTC15	51112	broad.mit.edu	37	chr2	3392130	3392130	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gcgcgggctccccggcccccGccagcccgcctcccctcgct	11	25	0	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:3392130G>A	uc002qxm.1	+	2	942	c.736G>A	c.(736-738)GCC>ACC	p.A246T	TTC15_uc002qxn.1_Missense_Mutation_p.A246T|TTC15_uc010ewm.1_Missense_Mutation_p.A246T|TTC15_uc002qxl.1_Missense_Mutation_p.A246T	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15	246							binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		cccggcccccgccagcccgcc	0.577													6	2	---	---	---	---	PASS	A	3392130	A	A	3392130	3	1	45	1	0	0	0	0	1	0	0	0	16679	1087	38	1	738	1	TTC15	2	3392130	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08		3392130	239807243	11	18036										
EMILIN1	11117	broad.mit.edu	37	chr2	27303628	27303628	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gcttcctccgccctcgctacCgtgtggcctacaagacagtg	10	16	0	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:27303628C>T	uc002rii.3	+	3	747	c.319C>T	c.(319-321)CGT>TGT	p.R107C	EMILIN1_uc010eyq.1_Missense_Mutation_p.R107C|EMILIN1_uc002rik.3_5'Flank	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	107	EMI.				cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCTCGCTACCGTGTGGCCTA	0.637											OREG0014513	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	19	---	---	---	---	PASS	T	27303628	T	T	27303628	3	4	45	1	0	0	0	0	1	0	0	0	5093	652	23	1	329	1	EMILIN1	2	27303628	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	23911498	27303628	215895745	12	18037										
ALK	238	broad.mit.edu	37	chr2	29917801	29917801	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tcggaggggatgcggcgccaGgaccagctctggttcctgag	17	11	1	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:29917801G>A	uc002rmy.2	-	3	1774	c.867C>T	c.(865-867)TCC>TCT	p.S289S		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	289	MAM 1.|Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	TGCGGCGCCAGGACCAGCTCT	0.602			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				4	88	---	---	---	---	PASS	A	29917801	A	A	29917801	2	1	45	1	0	0	0	0	0	0	0	1	525	987	35	3		3	ALK	2	29917801	Silent	SNP	G	TCGA-22-5474-01A-01D-1632-08	2614173	29917801	213281572	13	18038										
FSHR	2492	broad.mit.edu	37	chr2	49381444	49381444	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ggaggtcagaaggaatctctGtcaccttgctctcttggcag	12	10	4	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:49381444G>C	uc002rww.2	-	1	187	c.113C>G	c.(112-114)ACA>AGA	p.T38R	FSHR_uc002rwx.2_Missense_Mutation_p.T38R|FSHR_uc010fbn.2_Missense_Mutation_p.T38R|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	38	LRRNT.|Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	AGGAATCTCTGTCACCTTGCT	0.502									Gonadal_Dysgenesis_46_XX				14	28	---	---	---	---	PASS	C	49381444	C	C	49381444	3	2	45	1	0	0	0	0	1	0	0	0	6073	1377	48	4	2014	4	FSHR	2	49381444	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	19463643	49381444	193817929	14	18039										
ERLEC1	27248	broad.mit.edu	37	chr2	54014505	54014505	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ctggcccggcaccgagttctCtctggtcagtgccctcacta	10	16	4	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:54014505C>G	uc002rxl.2	+	1	438	c.158C>G	c.(157-159)TCT>TGT	p.S53C	ASB3_uc002rxg.1_5'Flank|ASB3_uc002rxh.1_5'Flank|ASB3_uc002rxi.3_Intron|ASB3_uc010yoo.1_5'Flank|ERLEC1_uc002rxm.2_Missense_Mutation_p.S53C|ERLEC1_uc002rxn.2_Missense_Mutation_p.S53C	NM_015701	NP_056516	Q96DZ1	ERLEC_HUMAN	erlectin isoform 1	53					ER-associated protein catabolic process	endoplasmic reticulum lumen	glycoprotein binding|protein binding			ovary(2)	2						ACCGAGTTCTCTCTGGTCAGT	0.622													18	44	---	---	---	---	PASS	G	54014505	G	G	54014505	3	3	45	1	0	0	0	0	1	0	0	0	5231	913	32	2	160	2	ERLEC1	2	54014505	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	4633061	54014505	189184868	15	18040										
HTRA2	27429	broad.mit.edu	37	chr2	74757203	74757203	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ggcgggctttggggggcattCgctgggggaggagaccccgt	21	9	0	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:74757203C>T	uc002smi.1	+	1	672	c.70C>T	c.(70-72)CGC>TGC	p.R24C	AUP1_uc002sme.2_5'Flank|AUP1_uc002smf.2_5'Flank|AUP1_uc002smg.2_5'Flank|AUP1_uc002smh.2_5'Flank|AUP1_uc010yrx.1_5'Flank|AUP1_uc010yry.1_5'Flank|HTRA2_uc002smj.1_Missense_Mutation_p.R24C|HTRA2_uc002smk.1_Missense_Mutation_p.R24C|HTRA2_uc002sml.1_Missense_Mutation_p.R24C|HTRA2_uc002smm.1_Intron|HTRA2_uc002smn.1_Intron|HTRA2_uc010ffl.2_5'Flank	NM_013247	NP_037379	O43464	HTRA2_HUMAN	HtrA serine peptidase 2 isoform 1 preproprotein	24					apoptosis|proteolysis|response to stress	CD40 receptor complex|endoplasmic reticulum membrane|internal side of plasma membrane|mitochondrial intermembrane space|mitochondrial membrane|nucleus	serine-type endopeptidase activity|unfolded protein binding			ovary(1)	1						GGGGGGCATTCGCTGGGGGAG	0.711													13	28	---	---	---	---	PASS	T	74757203	T	T	74757203	3	4	45	1	0	0	0	0	1	0	0	0	7454	884	31	2	72	2	HTRA2	2	74757203	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	20742698	74757203	168442170	16	18041										
FABP1	2168	broad.mit.edu	37	chr2	88427470	88427470	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	cctttcagtccagcactcacCgattgccttcatgaaggctt	7	14	3	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:88427470C>T	uc002sst.1	-	1	109	c.67G>A	c.(67-69)GGT>AGT	p.G23S	FABP1_uc002ssu.2_Missense_Mutation_p.G23S	NM_001443	NP_001434	P07148	FABPL_HUMAN	fatty acid binding protein 1, liver	23					organ morphogenesis						0						CAGCACTCACCGATTGCCTTC	0.517													38	90	---	---	---	---	PASS	T	88427470	T	T	88427470	3	4	45	1	0	0	0	0	1	0	0	0	5355	666	23	1	332	1	FABP1	2	88427470	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	13670267	88427470	154771903	17	18042										
FHL2	2274	broad.mit.edu	37	chr2	105990063	105990063	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ggcacttggatgagtactcgTtggaatagcagtctgtacag	13	7	1	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:105990063T>C	uc002tcu.2	-	3	621	c.284A>G	c.(283-285)AAC>AGC	p.N95S	FHL2_uc002tdc.2_Intron|FHL2_uc002tdd.2_Missense_Mutation_p.N95S|FHL2_uc002tcv.2_Missense_Mutation_p.N95S|FHL2_uc002tcw.2_Missense_Mutation_p.N95S|FHL2_uc002tcx.2_Missense_Mutation_p.N95S|FHL2_uc010fje.2_Intron|FHL2_uc002tcy.2_Missense_Mutation_p.N95S|FHL2_uc002tcz.2_Missense_Mutation_p.N205S|FHL2_uc002tda.2_Intron|FHL2_uc002tdb.2_Missense_Mutation_p.N211S|FHL2_uc002tde.1_Missense_Mutation_p.N188S	NM_201557	NP_963851	Q14192	FHL2_HUMAN	four and a half LIM domains 2	95					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription, DNA-dependent|response to hormone stimulus|transcription, DNA-dependent	actin cytoskeleton|focal adhesion|nucleus	androgen receptor binding|identical protein binding|transcription coactivator activity|zinc ion binding			ovary(1)	1						TGAGTACTCGTTGGAATAGCA	0.532													6	28	---	---	---	---	PASS	C	105990063	C	C	105990063	3	2	45	1	0	0	0	0	1	0	0	0	5879	1725	60	5	571	5	FHL2	2	105990063	Missense_Mutation	SNP	T	TCGA-22-5474-01A-01D-1632-08	17562593	105990063	137209310	18	18043										
FAM123C	205147	broad.mit.edu	37	chr2	131520797	131520797	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gaatccgtgtccacaagtgaCgagggctactatgattcctt	10	10	0	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:131520797C>T	uc002trw.2	+	2	1342	c.1152C>T	c.(1150-1152)GAC>GAT	p.D384D	FAM123C_uc010fmv.2_Silent_p.D384D|FAM123C_uc010fms.1_Silent_p.D384D|FAM123C_uc010fmt.1_Silent_p.D384D|FAM123C_uc010fmu.1_Silent_p.D384D	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	384										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		CCACAAGTGACGAGGGCTACT	0.627													11	28	---	---	---	---	PASS	T	131520797	T	T	131520797	2	4	45	1	0	0	0	0	0	0	0	1	5424	535	19	1		1	FAM123C	2	131520797	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08	25530734	131520797	111678576	19	18044										
NFE2L2	4780	broad.mit.edu	37	chr2	178098810	178098810	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tgggagaaattcacctgtctCttcatctagttgtaactgag	9	8	4	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:178098810C>G	uc002ulh.3	-	2	790	c.235G>C	c.(235-237)GAG>CAG	p.E79Q	NFE2L2_uc002ulg.3_Missense_Mutation_p.E63Q|NFE2L2_uc010zfa.1_Missense_Mutation_p.E63Q|NFE2L2_uc002uli.3_Missense_Mutation_p.E63Q|NFE2L2_uc010fra.2_Missense_Mutation_p.E63Q|NFE2L2_uc010frb.2_Missense_Mutation_p.E63Q	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	79					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			TCACCTGTCTCTTCATCTAGT	0.443			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			19	55	---	---	---	---	PASS	G	178098810	G	G	178098810	3	3	45	1	0	0	0	0	1	0	0	0	10368	922	32	2	1598	2	NFE2L2	2	178098810	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	46578013	178098810	65100563	20	18045										
AGPS	8540	broad.mit.edu	37	chr2	178402887	178402887	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tctgtcaaggaatatgtggaCcccaataacatctttggaaa	8	8	3	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:178402887C>T	uc002ull.2	+	20	1988	c.1941C>T	c.(1939-1941)GAC>GAT	p.D647D	AGPS_uc010zfb.1_Silent_p.D557D	NM_003659	NP_003650	O00116	ADAS_HUMAN	alkyldihydroxyacetone phosphate synthase	647					ether lipid biosynthetic process	peroxisomal matrix|peroxisomal membrane|plasma membrane	alkylglycerone-phosphate synthase activity|flavin adenine dinucleotide binding|oxidoreductase activity			ovary(2)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0018)|Epithelial(96;0.00919)|all cancers(119;0.0358)			AATATGTGGACCCCAATAACA	0.348													6	133	---	---	---	---	PASS	T	178402887	T	T	178402887	2	4	45	1	0	0	0	0	0	0	0	1	394	506	18	3		3	AGPS	2	178402887	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08	304077	178402887	64796486	21	18046										
TTN	7273	broad.mit.edu	37	chr2	179579026	179579026	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tctttttactaaccgagaacGgatagcgtggcgaagcactc	10	10	1	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:179579026G>A	uc010zfg.1	-	88	22967	c.22743C>T	c.(22741-22743)TCC>TCT	p.S7581S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.S4242S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8508							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)			AACCGAGAACGGATAGCGTGG	0.398													4	173	---	---	---	---	PASS	A	179579026	A	A	179579026	2	1	45	1	0	0	0	0	0	0	0	1	16732	1103	39	1		1	TTN	2	179579026	Silent	SNP	G	TCGA-22-5474-01A-01D-1632-08	1176139	179579026	63620347	22	18047										
CCNYL1	151195	broad.mit.edu	37	chr2	208611876	208611876	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ttgcctccaaggtttgggacGatcaggctgtatggaatgtg	14	7	1	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:208611876G>A	uc002vci.2	+	6	949	c.592G>A	c.(592-594)GAT>AAT	p.D198N	CCNYL1_uc002vch.2_Missense_Mutation_p.D179N	NM_001142300	NP_001135772	Q8N7R7	CCYL1_HUMAN	cyclin Y-like 1 isoform 1	249	Cyclin N-terminal.				regulation of cyclin-dependent protein kinase activity		protein kinase binding				0				LUSC - Lung squamous cell carcinoma(261;0.0731)|Epithelial(149;0.139)|Lung(261;0.14)		GGTTTGGGACGATCAGGCTGT	0.428													15	45	---	---	---	---	PASS	A	208611876	A	A	208611876	3	1	45	1	0	0	0	0	1	0	0	0	2937	1058	37	2	775	2	CCNYL1	2	208611876	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	29032850	208611876	34587497	23	18048										
GLB1L	79411	broad.mit.edu	37	chr2	220103867	220103867	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	aggtgtggggtcccctgcttCagatataggtgcatcatagt	13	8	2	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr2:220103867C>G	uc002vkm.2	-	11	1248	c.1009G>C	c.(1009-1011)GAA>CAA	p.E337Q	GLB1L_uc002vkk.2_Missense_Mutation_p.E94Q|GLB1L_uc010zkx.1_Missense_Mutation_p.E247Q|GLB1L_uc002vkn.2_Missense_Mutation_p.E337Q	NM_024506	NP_078782	Q6UWU2	GLB1L_HUMAN	galactosidase, beta 1-like precursor	337					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds				0		all_lung(227;1.19e-05)|Lung NSC(271;2.76e-05)|Medulloblastoma(418;0.0208)|Esophageal squamous(248;0.0559)		Epithelial(149;1.3e-11)|all cancers(144;2.07e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCCCCTGCTTCAGATATAGGT	0.423													14	42	---	---	---	---	PASS	G	220103867	G	G	220103867	3	3	45	1	0	0	0	0	1	0	0	0	6428	835	29	2	983	2	GLB1L	2	220103867	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	11491991	220103867	23095506	24	18049										
NUP210	23225	broad.mit.edu	37	chr3	13417073	13417073	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	aagatgctgggatacagggtGatcgggatgtgaatttccac	14	6	0	3			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr3:13417073G>A	uc003bxv.1	-	11	1445	c.1362C>T	c.(1360-1362)ATC>ATT	p.I454I	NUP210_uc003bxx.2_Silent_p.I126I	NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	454	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)					GATACAGGGTGATCGGGATGT	0.542													20	99	---	---	---	---	PASS	A	13417073	A	A	13417073	2	1	45	1	0	0	0	0	0	0	0	1	10760	1280	45	2		2	NUP210	3	13417073	Silent	SNP	G	TCGA-22-5474-01A-01D-1632-08		13417073	184605357	25	18050										
CLASP2	23122	broad.mit.edu	37	chr3	33617711	33617711	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	agaacctgtgttcaggactcGcatggcactaacagaagacg	11	10	1	3			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr3:33617711G>A	uc003cfu.2	-	24	2758	c.2404C>T	c.(2404-2406)CGA>TGA	p.R802*	CLASP2_uc003cfs.2_Nonsense_Mutation_p.R2*|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Nonsense_Mutation_p.R395*	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	803										ovary(3)|central_nervous_system(1)	4						TTCAGGACTCGCATGGCACTA	0.423													3	28	---	---	---	---	PASS	A	33617711	A	A	33617711	4	1	45	1	0	0	0	0	0	1	0	0	3455	1095	38	1	2176	1	CLASP2	3	33617711	Nonsense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	20200638	33617711	164404719	26	18051										
SCN11A	11280	broad.mit.edu	37	chr3	38888776	38888776	+	Frame_Shift_Del	DEL	A	-	-													0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	acagcaatgtacatgttgacAacaatgagaaaggagatgat							TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr3:38888776delA	uc011ays.1	-	26	4984	c.4785delT	c.(4783-4785)GTTfs	p.V1595fs		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1595	IV.|Helical; Name=S6 of repeat IV; (By similarity).				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	ACATGTTGACAACAATGAGAA	0.393													68	36	---	---	---	---		-	38888776	-	-	38888776	7	5	45	1	0	1	0	1	0	0	0	0	13913	117	5	0	594	0	SCN11A	3	38888776	Frame_Shift_Del	DEL	A	TCGA-22-5474-01A-01D-1632-08	5271065	38888776	159133654	27	18052										
NPFFR2	10886	broad.mit.edu	37	chr4	73013431	73013431	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	aatctacatttcaaaaccctCatggggaaaccttgctttat	5	10	3	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr4:73013431C>G	uc003hgg.2	+	4	1569	c.1471C>G	c.(1471-1473)CAT>GAT	p.H491D	NPFFR2_uc010iig.1_Missense_Mutation_p.H273D|NPFFR2_uc003hgi.2_Missense_Mutation_p.H392D|NPFFR2_uc003hgh.2_Missense_Mutation_p.H389D|NPFFR2_uc003hgj.2_RNA	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	491	Cytoplasmic (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			TCAAAACCCTCATGGGGAAAC	0.378													17	34	---	---	---	---	PASS	G	73013431	G	G	73013431	3	3	45	1	0	0	0	0	1	0	0	0	10578	826	29	2	1491	2	NPFFR2	4	73013431	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08		73013431	118140845	28	18053										
ANKRD17	26057	broad.mit.edu	37	chr4	73943167	73943167	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	actatctcgctccattgcttGatgttgtgaaaatactcctg	7	10	1	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr4:73943167G>C	uc003hgp.2	-	32	7609	c.7492C>G	c.(7492-7494)CAA>GAA	p.Q2498E	ANKRD17_uc003hgo.2_Missense_Mutation_p.Q2385E|ANKRD17_uc003hgq.2_Missense_Mutation_p.Q2247E|ANKRD17_uc003hgr.2_Missense_Mutation_p.Q2497E	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	2498					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCCATTGCTTGATGTTGTGAA	0.453													30	57	---	---	---	---	PASS	C	73943167	C	C	73943167	3	2	45	1	0	0	0	0	1	0	0	0	646	1299	45	2	331	2	ANKRD17	4	73943167	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	929736	73943167	117211109	29	18054										
GRID2	2895	broad.mit.edu	37	chr4	94145893	94145893	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	aagaactcaaagccctggcaGggtgggcgctccatgttgga	14	10	1	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr4:94145893G>T	uc011cdt.1	+	7	1350	c.1092G>T	c.(1090-1092)CAG>CAT	p.Q364H	GRID2_uc011cdu.1_Missense_Mutation_p.Q269H|GRID2_uc010ikz.1_Missense_Mutation_p.Q45H	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	364	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	AGCCCTGGCAGGGTGGGCGCT	0.408													9	18	---	---	---	---	PASS	T	94145893	T	T	94145893	3	4	45	1	0	0	0	0	1	0	0	0	6772	991	35	3	1118	3	GRID2	4	94145893	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	20202726	94145893	97008383	30	18055										
KIAA1109	84162	broad.mit.edu	37	chr4	123178555	123178555	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tctgaaacctcaaatagctaTggaccatgaacatgaagatg	8	8	2	4			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr4:123178555T>A	uc003ieh.2	+	39	6569	c.6524T>A	c.(6523-6525)ATG>AAG	p.M2175K	KIAA1109_uc003iel.1_Missense_Mutation_p.M110K|KIAA1109_uc003iek.2_Missense_Mutation_p.M794K	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2175					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CAAATAGCTATGGACCATGAA	0.463													28	92	---	---	---	---	PASS	A	123178555	A	A	123178555	3	1	45	1	0	0	0	0	1	0	0	0	8208	1464	51	5	6678	5	KIAA1109	4	123178555	Missense_Mutation	SNP	T	TCGA-22-5474-01A-01D-1632-08	29032662	123178555	67975721	31	18056										
DNAH5	1767	broad.mit.edu	37	chr5	13841159	13841159	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gcctgattagttttctgcatGatttttttatcaaacttggc	7	7	2	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr5:13841159G>C	uc003jfd.2	-	34	5607	c.5565C>G	c.(5563-5565)ATC>ATG	p.I1855M		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1855	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTTTCTGCATGATTTTTTTAT	0.403									Kartagener_syndrome				18	94	---	---	---	---	PASS	C	13841159	C	C	13841159	3	2	45	1	0	0	0	0	1	0	0	0	4604	1280	45	2	8493	2	DNAH5	5	13841159	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08		13841159	167074101	32	18057										
DNAH5	1767	broad.mit.edu	37	chr5	13920702	13920702	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ctttagggttttcagttcaaGtatgtcacactttcgaaggt	9	7	3	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr5:13920702G>A	uc003jfd.2	-	6	727	c.685C>T	c.(685-687)CTT>TTT	p.L229F	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	229	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTCAGTTCAAGTATGTCACAC	0.378									Kartagener_syndrome				13	79	---	---	---	---	PASS	A	13920702	A	A	13920702	3	1	45	1	0	0	0	0	1	0	0	0	4604	1029	36	3	13485	3	DNAH5	5	13920702	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	79543	13920702	166994558	33	18058										
SPEF2	79925	broad.mit.edu	37	chr5	35740042	35740042	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	aaatgcctttgtttttagtaCcttactgggaactaatagaa	7	6	0	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr5:35740042C>T	uc003jjo.2	+	22	3196	c.3085C>T	c.(3085-3087)CCT>TCT	p.P1029S	SPEF2_uc003jjp.1_Missense_Mutation_p.P515S	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1029					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GTTTTTAGTACCTTACTGGGA	0.348													12	65	---	---	---	---	PASS	T	35740042	T	T	35740042	3	4	45	1	0	0	0	0	1	0	0	0	15034	507	18	3	3192	3	SPEF2	5	35740042	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	21819340	35740042	145175218	34	18059										
DDR1	780	broad.mit.edu	37	chr6	30856735	30856735	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	accggaccatcccagacagtGacatctctgcttccagctcc	7	17	1	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr6:30856735G>A	uc003nrr.2	+	4	395	c.136G>A	c.(136-138)GAC>AAC	p.D46N	DDR1_uc010jse.2_Missense_Mutation_p.D46N|DDR1_uc003nrq.2_Missense_Mutation_p.D46N|DDR1_uc003nrs.2_Missense_Mutation_p.D46N|DDR1_uc003nrt.2_Missense_Mutation_p.D46N|DDR1_uc011dms.1_Missense_Mutation_p.D64N|DDR1_uc011dmt.1_Missense_Mutation_p.D72N|DDR1_uc003nru.2_Missense_Mutation_p.D46N|DDR1_uc011dmu.1_Missense_Mutation_p.D46N|DDR1_uc003nrv.2_Missense_Mutation_p.D46N|DDR1_uc003nrw.1_5'Flank	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	46	Extracellular (Potential).|F5/8 type C.				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	CCCAGACAGTGACATCTCTGC	0.592													9	18	---	---	---	---	PASS	A	30856735	A	A	30856735	3	1	45	1	0	0	0	0	1	0	0	0	4336	1290	45	2	142	2	DDR1	6	30856735	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08		30856735	140258332	35	18060										
LPA	4018	broad.mit.edu	37	chr6	161026228	161026228	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	cctgcaccccaggcctttgcTcagttggtgctgaaatgaaa	10	12	1	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr6:161026228T>C	uc003qtl.2	-	19	2915	c.2795A>G	c.(2794-2796)GAG>GGG	p.E932G		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3440	Kringle 31.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	AGGCCTTTGCTCAGTTGGTGC	0.443													4	229	---	---	---	---	PASS	C	161026228	C	C	161026228	3	2	45	1	0	0	0	0	1	0	0	0	8903	1551	54	5	3415	5	LPA	6	161026228	Missense_Mutation	SNP	T	TCGA-22-5474-01A-01D-1632-08	130169493	161026228	10088839	36	18061										
INHBA	3624	broad.mit.edu	37	chr7	41739883	41739883	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gacggacagtcgggggccgcGctgtgcccctcggatcctgg	17	14	0	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr7:41739883G>T	uc003thq.2	-	1	325	c.90C>A	c.(88-90)AGC>AGA	p.S30R	LOC285954_uc003tht.3_Intron|INHBA_uc003thr.2_Missense_Mutation_p.S30R|LOC285954_uc003ths.2_Intron	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	30					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						CGGGGGCCGCGCTGTGCCCCT	0.587										TSP Lung(11;0.080)			50	175	---	---	---	---	PASS	T	41739883	T	T	41739883	3	4	45	1	0	0	0	0	1	0	0	0	7741	1078	38	1	1198	1	INHBA	7	41739883	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08		41739883	117398780	37	18062										
OGDH	4967	broad.mit.edu	37	chr7	44714139	44714139	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	aatggcgtggactacgtgatCatgggcatgccacacaggta	13	9	1	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr7:44714139C>A	uc003tln.2	+	7	1027	c.918C>A	c.(916-918)ATC>ATA	p.I306I	OGDH_uc003tlm.2_Silent_p.I306I|OGDH_uc011kbx.1_Silent_p.I302I|OGDH_uc011kby.1_Silent_p.I156I|OGDH_uc003tlp.2_Silent_p.I317I|OGDH_uc011kbz.1_Silent_p.I101I|OGDH_uc003tlo.1_Silent_p.I139I	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	306					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	ACTACGTGATCATGGGCATGC	0.562													8	41	---	---	---	---	PASS	A	44714139	A	A	44714139	2	1	45	1	0	0	0	0	0	0	0	1	10839	816	29	2		2	OGDH	7	44714139	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08	2974256	44714139	114424524	38	18063										
TNS3	64759	broad.mit.edu	37	chr7	47319763	47319763	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	agaaatctcagcaacttactTtgaggaagggccatctttga	9	8	2	3			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr7:47319763T>C	uc003tnv.2	-	30	4559	c.4192A>G	c.(4192-4194)AAA>GAA	p.K1398E	TNS3_uc003tnw.2_Missense_Mutation_p.K1398E	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	1398						focal adhesion	protein binding			ovary(4)	4						GCAACTTACTTTGAGGAAGGG	0.368													34	60	---	---	---	---	PASS	C	47319763	C	C	47319763	3	2	45	1	0	0	0	0	1	0	0	0	16341	1855	64	5	153	5	TNS3	7	47319763	Missense_Mutation	SNP	T	TCGA-22-5474-01A-01D-1632-08	2605624	47319763	111818900	39	18064										
CALN1	83698	broad.mit.edu	37	chr7	71571274	71571274	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	cagaacccgaaaggcctctcGgatttctacaatggaaaagc	9	11	2	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr7:71571274G>A	uc003twa.3	-	3	651	c.124C>T	c.(124-126)CGA>TGA	p.R42*	CALN1_uc003twb.3_Nonsense_Mutation_p.R84*|CALN1_uc003twc.3_Nonsense_Mutation_p.R42*	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2	42	EF-hand 1.|Cytoplasmic (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				AAGGCCTCTCGGATTTCTACA	0.522													11	21	---	---	---	---	PASS	A	71571274	A	A	71571274	4	1	45	1	0	0	0	0	0	1	0	0	2591	1124	39	1	551	1	CALN1	7	71571274	Nonsense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	24251511	71571274	87567389	40	18065										
PCLO	27445	broad.mit.edu	37	chr7	82764926	82764926	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gaactggagccagatccccgCctagagctcttttcatttga	9	12	2	3			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr7:82764926C>A	uc003uhx.2	-	3	2229	c.1940G>T	c.(1939-1941)GGC>GTC	p.G647V	PCLO_uc003uhv.2_Missense_Mutation_p.G647V	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	593	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CAGATCCCCGCCTAGAGCTCT	0.448													4	9	---	---	---	---	PASS	A	82764926	A	A	82764926	3	1	45	1	0	0	0	0	1	0	0	0	11583	739	26	3	13597	3	PCLO	7	82764926	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	11193652	82764926	76373737	41	18066										
CFTR	1080	broad.mit.edu	37	chr7	117254679	117254679	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	atctataggagaaggagaagGaagagttggtattatcctga	13	3	1	4			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr7:117254679G>C	uc003vjd.2	+	21	3512	c.3380G>C	c.(3379-3381)GGA>GCA	p.G1127A	CFTR_uc011knq.1_Missense_Mutation_p.G533A	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	1127	Extracellular (Potential).|ABC transmembrane type-1 2.				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	GAAGGAGAAGGAAGAGTTGGT	0.398									Cystic_Fibrosis				14	50	---	---	---	---	PASS	C	117254679	C	C	117254679	3	2	45	1	0	0	0	0	1	0	0	0	3294	1174	41	2	3462	2	CFTR	7	117254679	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	34489753	117254679	41883984	42	18067										
CFTR	1080	broad.mit.edu	37	chr7	117307086	117307086	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ctttccccaccggaactcaaGcaagtgcaagtctaagcccc	7	16	2	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr7:117307086G>T	uc003vjd.2	+	27	4499	c.4367G>T	c.(4366-4368)AGC>ATC	p.S1456I	CFTR_uc011knq.1_Missense_Mutation_p.S862I	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	1456	Cytoplasmic (Potential).				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	CGGAACTCAAGCAAGTGCAAG	0.517									Cystic_Fibrosis				6	20	---	---	---	---	PASS	T	117307086	T	T	117307086	3	4	45	1	0	0	0	0	1	0	0	0	3294	971	34	3	4473	3	CFTR	7	117307086	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	52407	117307086	41831577	43	18068										
EPHA1	2041	broad.mit.edu	37	chr7	143091367	143091367	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	aatcccaaagctccacacatCgctggctgtggtgaagatcc	9	13	0	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr7:143091367C>T	uc003wcz.2	-	15	2509	c.2422G>A	c.(2422-2424)GAT>AAT	p.D808N		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	808	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				CTCCACACATCGCTGGCTGTG	0.542													14	48	---	---	---	---	PASS	T	143091367	T	T	143091367	3	4	45	1	0	0	0	0	1	0	0	0	5165	884	31	2	524	2	EPHA1	7	143091367	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	25784281	143091367	16047296	44	18069										
NCAPG2	54892	broad.mit.edu	37	chr7	158449118	158449118	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gcaccctacctttagaagctGtgttgctctgaaagaagaga	10	9	1	4			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr7:158449118G>A	uc003wnv.1	-	19	2367	c.2222C>T	c.(2221-2223)ACA>ATA	p.T741I	NCAPG2_uc010lqu.1_Missense_Mutation_p.T533I|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.T741I|NCAPG2_uc011kwe.1_Missense_Mutation_p.T741I|NCAPG2_uc011kwc.1_Missense_Mutation_p.T242I|NCAPG2_uc011kwd.1_Missense_Mutation_p.T184I	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	741					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		TTTAGAAGCTGTGTTGCTCTG	0.423													3	63	---	---	---	---	PASS	A	158449118	A	A	158449118	3	1	45	1	0	0	0	0	1	0	0	0	10208	1377	48	3	1249	3	NCAPG2	7	158449118	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	15357751	158449118	689545	45	18070										
IKBKB	3551	broad.mit.edu	37	chr8	42176881	42176881	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	aaggccaagttggatttcttCaaaaccagcatccagattga	8	9	2	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr8:42176881C>G	uc003xow.1	+	14	1635	c.1458C>G	c.(1456-1458)TTC>TTG	p.F486L	IKBKB_uc010lxh.1_Missense_Mutation_p.F381L|IKBKB_uc011lco.1_RNA|IKBKB_uc010lxj.1_Missense_Mutation_p.F263L|IKBKB_uc003xox.1_Missense_Mutation_p.F207L|IKBKB_uc011lcp.1_RNA|IKBKB_uc011lcq.1_Missense_Mutation_p.F484L|IKBKB_uc010lxi.1_RNA|IKBKB_uc011lcr.1_Missense_Mutation_p.F427L	NM_001556	NP_001547	O14920	IKKB_HUMAN	inhibitor of nuclear factor kappa B kinase beta	486					anti-apoptosis|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|membrane raft	ATP binding|identical protein binding|IkappaB kinase activity			breast(3)|ovary(2)|lung(1)|skin(1)	7	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;6.21e-12)|Lung NSC(13;1.04e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;1.37e-10)|Colorectal(10;0.00102)|OV - Ovarian serous cystadenocarcinoma(14;0.00168)|Lung(22;0.00467)|LUSC - Lung squamous cell carcinoma(45;0.024)|COAD - Colon adenocarcinoma(11;0.0264)		Arsenic trioxide(DB01169)|Auranofin(DB00995)	TGGATTTCTTCAAAACCAGCA	0.458											OREG0018747	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	54	---	---	---	---	PASS	G	42176881	G	G	42176881	3	3	45	1	0	0	0	0	1	0	0	0	7611	825	29	2	1508	2	IKBKB	8	42176881	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08		42176881	104187141	46	18071										
NCOA2	10499	broad.mit.edu	37	chr8	71075035	71075035	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	accttcttaccaggtcctccCagcctggtttcatggctgct	8	15	2	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr8:71075035C>T	uc003xyn.1	-	9	1049	c.887G>A	c.(886-888)TGG>TAG	p.W296*		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	296					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			CAGGTCCTCCCAGCCTGGTTT	0.458			T	RUNXBP2	AML								43	101	---	---	---	---	PASS	T	71075035	T	T	71075035	4	4	45	1	0	0	0	0	0	1	0	0	10229	595	21	3	3567	3	NCOA2	8	71075035	Nonsense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	28898154	71075035	75288987	47	18072										
MRPS28	28957	broad.mit.edu	37	chr8	80942390	80942390	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	accactttcggatccactctCagtgcctacaccccgaaagg	7	16	1	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr8:80942390C>A	uc003ybp.2	-	1	117	c.94G>T	c.(94-96)GAG>TAG	p.E32*	MRPS28_uc003ybo.2_5'UTR|TPD52_uc010lzr.2_Intron	NM_014018	NP_054737	Q9Y2Q9	RT28_HUMAN	mitochondrial ribosomal protein S28	32						mitochondrial small ribosomal subunit					0	Lung NSC(7;1.86e-06)|all_lung(9;6.91e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00769)|Epithelial(68;0.0208)|all cancers(69;0.0805)			GATCCACTCTCAGTGCCTACA	0.592													14	27	---	---	---	---	PASS	A	80942390	A	A	80942390	4	1	45	1	0	0	0	0	0	1	0	0	9839	835	29	2	481	2	MRPS28	8	80942390	Nonsense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	9867355	80942390	65421632	48	18073										
ADCY8	114	broad.mit.edu	37	chr8	131916111	131916111	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tttctccggtctgaggagctCactgactccttgacgatatc	9	12	3	3			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr8:131916111C>T	uc003ytd.3	-	7	2074	c.1818G>A	c.(1816-1818)GTG>GTA	p.V606V	ADCY8_uc010mds.2_Silent_p.V606V	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	606	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CTGAGGAGCTCACTGACTCCT	0.473										HNSCC(32;0.087)			21	61	---	---	---	---	PASS	T	131916111	T	T	131916111	2	4	45	1	0	0	0	0	0	0	0	1	300	813	29	2		2	ADCY8	8	131916111	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08	50973721	131916111	14447911	49	18074										
IFNA17	3451	broad.mit.edu	37	chr9	21227905	21227905	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tgagtcctctgtgctgaagaGattgaaggtctgctggatca	13	7	3	4			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr9:21227905G>C	uc003zos.1	-	1	317	c.268C>G	c.(268-270)CTC>GTC	p.L90V	IFNA14_uc003zoo.1_Intron	NM_021268	NP_067091	P01571	IFN17_HUMAN	interferon, alpha 17 precursor	90					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				Lung(24;2.13e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		GTGCTGAAGAGATTGAAGGTC	0.473													31	74	---	---	---	---	PASS	C	21227905	C	C	21227905	3	2	45	1	0	0	0	0	1	0	0	0	7536	942	33	2	305	2	IFNA17	9	21227905	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08		21227905	119985526	50	18075										
C9orf11	54586	broad.mit.edu	37	chr9	27296647	27296647	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ataataattgccatttttctCattagcaggagcataattgg	7	6	1	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr9:27296647C>G	uc003zql.2	-	2	250	c.166G>C	c.(166-168)GAG>CAG	p.E56Q	C9orf11_uc011lnq.1_Missense_Mutation_p.E56Q|C9orf11_uc003zqm.2_Missense_Mutation_p.E56Q	NM_020641	NP_065692	Q9NQ60	AFAF_HUMAN	Acr formation associated factor isoform 1	56	Vesicular (Potential).					acrosomal membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(39;7.39e-08)|Lung(218;1.26e-05)|LUSC - Lung squamous cell carcinoma(38;0.000106)		CCATTTTTCTCATTAGCAGGA	0.294													8	66	---	---	---	---	PASS	G	27296647	G	G	27296647	3	3	45	1	0	0	0	0	1	0	0	0	2448	835	29	2	746	2	C9orf11	9	27296647	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	6068742	27296647	113916784	51	18076										
KIF24	347240	broad.mit.edu	37	chr9	34290194	34290194	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ttttcttctatttaggaggtCataaagctgtccacagtaaa	7	7	3	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr9:34290194C>A	uc003zua.3	-	5	1225	c.1105G>T	c.(1105-1107)GAC>TAC	p.D369Y	KIF24_uc010mkb.2_Missense_Mutation_p.D400Y	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	369	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			TTTAGGAGGTCATAAAGCTGT	0.413													16	73	---	---	---	---	PASS	A	34290194	A	A	34290194	3	1	45	1	0	0	0	0	1	0	0	0	8292	826	29	2	3037	2	KIF24	9	34290194	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	6993547	34290194	106923237	52	18077										
CA9	768	broad.mit.edu	37	chr9	35675547	35675547	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ttatacaggggatgaccagaGtcattggcgctatggaggtg	15	6	1	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr9:35675547G>A	uc003zxo.3	+	2	458	c.416G>A	c.(415-417)AGT>AAT	p.S139N	C9orf100_uc003zxl.2_RNA|CA9_uc003zxp.3_Missense_Mutation_p.S139N	NM_001216	NP_001207	Q16790	CAH9_HUMAN	carbonic anhydrase IX precursor	139	Extracellular.|Catalytic.				one-carbon metabolic process	integral to membrane|microvillus membrane|nucleolus	carbonate dehydratase activity|zinc ion binding			ovary(4)|skin(1)	5	all_epithelial(49;0.217)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GATGACCAGAGTCATTGGCGC	0.498													30	16	---	---	---	---	PASS	A	35675547	A	A	35675547	3	1	45	1	0	0	0	0	1	0	0	0	2524	1029	36	3	422	3	CA9	9	35675547	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	1385353	35675547	105537884	53	18078										
TLR4	7099	broad.mit.edu	37	chr9	120475644	120475644	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gagcttcaatggtgttattaCcatgagttcaaacttcttgg	9	7	3	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr9:120475644C>G	uc004bjz.2	+	3	1529	c.1238C>G	c.(1237-1239)ACC>AGC	p.T413S	TLR4_uc004bka.2_Missense_Mutation_p.T373S|TLR4_uc004bkb.2_Missense_Mutation_p.T213S	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	413	LRR 12.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						GGTGTTATTACCATGAGTTCA	0.378													7	77	---	---	---	---	PASS	G	120475644	G	G	120475644	3	3	45	1	0	0	0	0	1	0	0	0	15950	507	18	4	1248	4	TLR4	9	120475644	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	84800097	120475644	20737787	54	18079										
SETX	23064	broad.mit.edu	37	chr9	135211885	135211885	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	cccaagtttcttgcagtcaaGatagcccaacgccgaaccta	7	14	2	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr9:135211885G>C	uc004cbk.2	-	6	699	c.516C>G	c.(514-516)ATC>ATG	p.I172M		NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	172					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		TTGCAGTCAAGATAGCCCAAC	0.348													7	47	---	---	---	---	PASS	C	135211885	C	C	135211885	3	2	45	1	0	0	0	0	1	0	0	0	14141	932	33	2	7601	2	SETX	9	135211885	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	14736241	135211885	6001546	55	18080										
SLC16A9	220963	broad.mit.edu	37	chr10	61432635	61432635	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tgaagattgtgacaggtcttGctccaaaagatgagacacag	11	7	1	5			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr10:61432635G>T	uc010qig.1	-	3	682	c.233C>A	c.(232-234)GCA>GAA	p.A78E		NM_194298	NP_919274	Q7RTY1	MOT9_HUMAN	solute carrier family 16 (monocarboxylic acid	78	Extracellular (Potential).				urate metabolic process	integral to membrane|plasma membrane	symporter activity			skin(2)|ovary(1)	3						GACAGGTCTTGCTCCAAAAGA	0.398													11	19	---	---	---	---	PASS	T	61432635	T	T	61432635	3	4	45	1	0	0	0	0	1	0	0	0	14415	1319	46	3	1312	3	SLC16A9	10	61432635	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08		61432635	74102112	56	18081										
MMRN2	79812	broad.mit.edu	37	chr10	88703038	88703038	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tggccctcccggatgacgtcCaggtctaaatagagcttctg	11	12	2	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr10:88703038C>A	uc001kea.2	-	6	1630	c.1503G>T	c.(1501-1503)CTG>CTT	p.L501L	MMRN2_uc010qmn.1_Silent_p.L144L|MMRN2_uc009xtb.2_Silent_p.L458L	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	501						extracellular space				large_intestine(1)	1						GGATGACGTCCAGGTCTAAAT	0.642													9	33	---	---	---	---	PASS	A	88703038	A	A	88703038	2	1	45	1	0	0	0	0	0	0	0	1	9671	581	21	3		3	MMRN2	10	88703038	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08	27270403	88703038	46831709	57	18082										
OR56A3	390083	broad.mit.edu	37	chr11	5969026	5969026	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tttgtagtcaaggctgccatGtttattttgaccagaaatgt	9	6	1	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr11:5969026G>A	uc010qzt.1	+	1	450	c.450G>A	c.(448-450)ATG>ATA	p.M150I		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	150	Helical; Name=4; (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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGGCTGCCATGTTTATTTTGA	0.443													9	101	---	---	---	---	PASS	A	5969026	A	A	5969026	3	1	45	1	0	0	0	0	1	0	0	0	11134	1377	48	3	452	3	OR56A3	11	5969026	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08		5969026	129037490	58	18083										
CTR9	9646	broad.mit.edu	37	chr11	10794075	10794075	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gaaatgttctaggcagtgttCtgacttactgagccaggccc	11	10	2	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr11:10794075C>T	uc001mja.2	+	20	2602	c.2453C>T	c.(2452-2454)TCT>TTT	p.S818F		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	818					histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		AGGCAGTGTTCTGACTTACTG	0.433													9	19	---	---	---	---	PASS	T	10794075	T	T	10794075	3	4	45	1	0	0	0	0	1	0	0	0	4024	913	32	2	2531	2	CTR9	11	10794075	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	4825049	10794075	124212441	59	18084										
OR4C11	219429	broad.mit.edu	37	chr11	55371600	55371600	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tataattttcttttcagagaGagcatccacaattaatctag	5	7	3	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr11:55371600G>A	uc010rii.1	-	1	250	c.250C>T	c.(250-252)CTC>TTC	p.L84F		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	84	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTTTCAGAGAGAGCATCCACA	0.403													32	29	---	---	---	---	PASS	A	55371600	A	A	55371600	3	1	45	1	0	0	0	0	1	0	0	0	11045	942	33	2	684	2	OR4C11	11	55371600	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	44577525	55371600	79634916	60	18085										
OR5F1	338674	broad.mit.edu	37	chr11	55761723	55761723	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ggagtaaagcagcgggcgacAtatggccgcatacctgtcat	13	10	1	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr11:55761723A>G	uc010riv.1	-	1	379	c.379T>C	c.(379-381)TGT>CGT	p.C127R		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	127	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					AGCGGGCGACATATGGCCGCA	0.507													11	54	---	---	---	---	PASS	G	55761723	G	G	55761723	3	3	45	1	0	0	0	0	1	0	0	0	11158	217	8	5	568	5	OR5F1	11	55761723	Missense_Mutation	SNP	A	TCGA-22-5474-01A-01D-1632-08	390123	55761723	79244793	61	18086										
CTNND1	1500	broad.mit.edu	37	chr11	57576856	57576856	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ttttgaacactatcaacgagGttatcgctgagaacttggag	10	7	1	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr11:57576856G>C	uc001nmc.3	+	15	2924	c.2353G>C	c.(2353-2355)GTT>CTT	p.V785L	CTNND1_uc001nlh.1_Missense_Mutation_p.V785L|CTNND1_uc001nlu.3_Missense_Mutation_p.V678L|CTNND1_uc001nlt.3_Missense_Mutation_p.V678L|CTNND1_uc001nls.3_Missense_Mutation_p.V678L|CTNND1_uc001nlw.3_Missense_Mutation_p.V678L|CTNND1_uc001nmf.3_Missense_Mutation_p.V785L|CTNND1_uc001nmd.3_Missense_Mutation_p.V731L|CTNND1_uc001nlk.3_Missense_Mutation_p.V731L|CTNND1_uc001nme.3_Missense_Mutation_p.V779L|CTNND1_uc001nll.3_Missense_Mutation_p.V725L|CTNND1_uc001nmg.3_Missense_Mutation_p.V725L|CTNND1_uc001nlj.3_Missense_Mutation_p.V725L|CTNND1_uc001nlr.3_Missense_Mutation_p.V725L|CTNND1_uc001nlp.3_Missense_Mutation_p.V725L|CTNND1_uc001nlx.3_Missense_Mutation_p.V462L|CTNND1_uc001nlz.3_Missense_Mutation_p.V462L|CTNND1_uc009ymn.2_Missense_Mutation_p.V456L|CTNND1_uc001nlm.3_Missense_Mutation_p.V779L|CTNND1_uc001nly.3_Missense_Mutation_p.V456L|CTNND1_uc001nmb.3_Missense_Mutation_p.V456L|CTNND1_uc001nma.3_Missense_Mutation_p.V456L|CTNND1_uc001nmi.3_Missense_Mutation_p.V684L|CTNND1_uc001nmh.3_Missense_Mutation_p.V779L|CTNND1_uc001nlq.3_Missense_Mutation_p.V684L|CTNND1_uc001nln.3_Missense_Mutation_p.V779L|CTNND1_uc001nli.3_Missense_Mutation_p.V779L|CTNND1_uc001nlo.3_Missense_Mutation_p.V678L|CTNND1_uc001nlv.3_Missense_Mutation_p.V678L	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	785	ARM 10.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				TATCAACGAGGTTATCGCTGA	0.443													15	31	---	---	---	---	PASS	C	57576856	C	C	57576856	3	2	45	1	0	0	0	0	1	0	0	0	4019	1261	44	4	2403	4	CTNND1	11	57576856	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	1815133	57576856	77429660	62	18087										
UVRAG	7405	broad.mit.edu	37	chr11	75727967	75727967	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	atatcctataattcataaggGgtctagatcaacaatcaaag	6	7	4	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr11:75727967G>T	uc001oxc.2	+	12	1410	c.1169G>T	c.(1168-1170)GGG>GTG	p.G390V	UVRAG_uc010rrw.1_Missense_Mutation_p.G289V|UVRAG_uc001oxd.2_Missense_Mutation_p.G18V|UVRAG_uc010rrx.1_Missense_Mutation_p.G18V|UVRAG_uc009yuh.1_RNA	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	390					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						ATTCATAAGGGGTCTAGATCA	0.373													15	60	---	---	---	---	PASS	T	75727967	T	T	75727967	3	4	45	1	0	0	0	0	1	0	0	0	17105	1232	43	3	1215	3	UVRAG	11	75727967	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	18151111	75727967	59278549	63	18088										
KIAA1826	84437	broad.mit.edu	37	chr11	105880459	105880459	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	catggatttttctccttgacCaagttcattttccaaggacg	7	10	2	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr11:105880459C>T	uc001piy.2	-	3	1014	c.841G>A	c.(841-843)GGT>AGT	p.G281S	KIAA1826_uc001piz.2_Missense_Mutation_p.G281S	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	281	Potential.					nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		TCTCCTTGACCAAGTTCATTT	0.438													39	128	---	---	---	---	PASS	T	105880459	T	T	105880459	3	4	45	1	0	0	0	0	1	0	0	0	8260	594	21	3	200	3	KIAA1826	11	105880459	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	30152492	105880459	29126057	64	18089										
EXPH5	23086	broad.mit.edu	37	chr11	108382977	108382977	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gtgcttccagggctgagtctGaaaggactttggaacattca	12	8	2	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr11:108382977G>A	uc001pkk.2	-	6	3368	c.3257C>T	c.(3256-3258)TCA>TTA	p.S1086L	EXPH5_uc010rvy.1_Missense_Mutation_p.S898L|EXPH5_uc010rvz.1_Missense_Mutation_p.S930L|EXPH5_uc010rwa.1_Missense_Mutation_p.S1010L	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1086					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		GGCTGAGTCTGAAAGGACTTT	0.413													20	61	---	---	---	---	PASS	A	108382977	A	A	108382977	3	1	45	1	0	0	0	0	1	0	0	0	5322	1294	45	2	2716	2	EXPH5	11	108382977	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	2502518	108382977	26623539	65	18090										
DRD2	1813	broad.mit.edu	37	chr11	113283341	113283341	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ctgggagagcttcctacggcTcatggtcttgagggaggtcc	15	10	2	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr11:113283341T>C	uc001pnz.2	-	6	1396	c.1075A>G	c.(1075-1077)AGC>GGC	p.S359G	DRD2_uc010rwv.1_Missense_Mutation_p.S358G|DRD2_uc001poa.3_Missense_Mutation_p.S359G|DRD2_uc001pob.3_Missense_Mutation_p.S330G	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	359	Cytoplasmic (By similarity).|Interaction with PPP1R9B (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		all_cancers(61;3.91e-16)|all_epithelial(67;2.95e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000977)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0494)		BRCA - Breast invasive adenocarcinoma(274;5.77e-06)|Epithelial(105;6.66e-05)|all cancers(92;0.000307)|OV - Ovarian serous cystadenocarcinoma(223;0.216)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	TTCCTACGGCTCATGGTCTTG	0.567													3	60	---	---	---	---	PASS	C	113283341	C	C	113283341	3	2	45	1	0	0	0	0	1	0	0	0	4757	1551	54	5	264	5	DRD2	11	113283341	Missense_Mutation	SNP	T	TCGA-22-5474-01A-01D-1632-08	4900364	113283341	21723175	66	18091										
HSPA8	3312	broad.mit.edu	37	chr11	122930469	122930469	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gatctcaatactggcctgggTgctggaagagagggtacgct	15	8	1	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr11:122930469T>G	uc001pyo.2	-	5	910	c.832A>C	c.(832-834)ACC>CCC	p.T278P	HSPA8_uc009zbc.2_Missense_Mutation_p.T42P|HSPA8_uc001pyp.2_Missense_Mutation_p.T278P|HSPA8_uc010rzu.1_Missense_Mutation_p.T201P|HSPA8_uc009zbd.1_Missense_Mutation_p.T278P	NM_006597	NP_006588	P11142	HSP7C_HUMAN	heat shock 70kDa protein 8 isoform 1	278	Interaction with BAG1.				cellular membrane organization|interspecies interaction between organisms|mRNA metabolic process|negative regulation of transcription, DNA-dependent|neurotransmitter secretion|post-Golgi vesicle-mediated transport|protein folding|response to unfolded protein|transcription, DNA-dependent	cell surface|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|melanosome|plasma membrane|ribonucleoprotein complex	ATP binding|ATPase activity, coupled|protein binding			central_nervous_system(7)|lung(1)	8		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		CTGGCCTGGGTGCTGGAAGAG	0.488													3	36	---	---	---	---	PASS	G	122930469	G	G	122930469	3	3	45	1	0	0	0	0	1	0	0	0	7416	1696	59	5	1128	5	HSPA8	11	122930469	Missense_Mutation	SNP	T	TCGA-22-5474-01A-01D-1632-08	9647128	122930469	12076047	67	18092										
CDON	50937	broad.mit.edu	37	chr11	125864259	125864259	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tataaaatccttgaatgggaGtgttattgttacttgatgga	10	3	0	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr11:125864259G>A	uc009zbw.2	-	14	2698	c.2570C>T	c.(2569-2571)ACT>ATT	p.T857I	CDON_uc001qdb.3_Missense_Mutation_p.T234I|CDON_uc001qdc.3_Missense_Mutation_p.T857I	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	857	Extracellular (Potential).|Fibronectin type-III 3.				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		TTGAATGGGAGTGTTATTGTT	0.353													6	27	---	---	---	---	PASS	A	125864259	A	A	125864259	3	1	45	1	0	0	0	0	1	0	0	0	3170	1029	36	3	1252	3	CDON	11	125864259	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	2933790	125864259	9142257	68	18093										
ANO2	57101	broad.mit.edu	37	chr12	5722118	5722118	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	acgtagcttccaggcctgccCacaaacctgaaatcaaacag	7	14	1	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr12:5722118C>A	uc001qnm.2	-	19	2007	c.1935G>T	c.(1933-1935)GTG>GTT	p.V645V		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	650	Extracellular (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						CAGGCCTGCCCACAAACCTGA	0.532													10	38	---	---	---	---	PASS	A	5722118	A	A	5722118	2	1	45	1	0	0	0	0	0	0	0	1	697	581	21	3		3	ANO2	12	5722118	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08		5722118	128129777	69	18094										
ATF7IP	55729	broad.mit.edu	37	chr12	14578137	14578137	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tcttagaaaatacagactctAtggagacagatgaaatcatt	7	6	3	5			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr12:14578137A>G	uc001rbw.2	+	2	1446	c.1288A>G	c.(1288-1290)ATG>GTG	p.M430V	ATF7IP_uc010shs.1_Missense_Mutation_p.M430V|ATF7IP_uc001rbu.2_Missense_Mutation_p.M430V|ATF7IP_uc001rbv.1_Missense_Mutation_p.M430V|ATF7IP_uc001rbx.2_Missense_Mutation_p.M430V|ATF7IP_uc010sht.1_Missense_Mutation_p.M430V|ATF7IP_uc001rby.3_Missense_Mutation_p.M430V|ATF7IP_uc001rbz.1_Missense_Mutation_p.M430V|ATF7IP_uc001rca.2_Missense_Mutation_p.M430V|ATF7IP_uc001rcb.2_Missense_Mutation_p.M41V	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	430	Glu-rich.				DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						TACAGACTCTATGGAGACAGA	0.333													16	44	---	---	---	---	PASS	G	14578137	G	G	14578137	3	3	45	1	0	0	0	0	1	0	0	0	1087	449	16	5	1290	5	ATF7IP	12	14578137	Missense_Mutation	SNP	A	TCGA-22-5474-01A-01D-1632-08	8856019	14578137	119273758	70	18095										
SOX5	6660	broad.mit.edu	37	chr12	23696276	23696276	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gttcattgctaccacgccctCgggattccctataaattctt	6	13	2	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr12:23696276C>T	uc001rfw.2	-	13	1742	c.1640G>A	c.(1639-1641)CGA>CAA	p.R547Q	SOX5_uc001rfx.2_Missense_Mutation_p.R534Q|SOX5_uc001rfy.2_Missense_Mutation_p.R426Q|SOX5_uc001rfv.2_Missense_Mutation_p.R161Q|SOX5_uc010siv.1_Missense_Mutation_p.R534Q|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.R499Q	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	547					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						ACCACGCCCTCGGGATTCCCT	0.453													34	82	---	---	---	---	PASS	T	23696276	T	T	23696276	3	4	45	1	0	0	0	0	1	0	0	0	14954	884	31	2	663	2	SOX5	12	23696276	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	9118139	23696276	110155619	71	18096										
LIMA1	51474	broad.mit.edu	37	chr12	50571710	50571710	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ggctggtctctccaaaatctCttcgttttcatttttgcttg	7	10	3	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr12:50571710C>G	uc001rwj.3	-	11	1591	c.1417G>C	c.(1417-1419)GAG>CAG	p.E473Q	LIMA1_uc001rwg.3_Missense_Mutation_p.E171Q|LIMA1_uc001rwh.3_Missense_Mutation_p.E312Q|LIMA1_uc001rwi.3_Missense_Mutation_p.E314Q|LIMA1_uc001rwk.3_Missense_Mutation_p.E474Q|LIMA1_uc010smr.1_RNA|LIMA1_uc010sms.1_RNA	NM_016357	NP_057441	Q9UHB6	LIMA1_HUMAN	LIM domain and actin binding 1 isoform b	473					actin filament bundle assembly|negative regulation of actin filament depolymerization|ruffle organization	cytoplasm|focal adhesion|stress fiber	actin filament binding|actin monomer binding|zinc ion binding			ovary(1)	1						TCCAAAATCTCTTCGTTTTCA	0.498													7	119	---	---	---	---	PASS	G	50571710	G	G	50571710	3	3	45	1	0	0	0	0	1	0	0	0	8796	922	32	2	866	2	LIMA1	12	50571710	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	26875434	50571710	83280185	72	18097										
KRT6A	3853	broad.mit.edu	37	chr12	52885385	52885385	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ccgttccccgacaatgctgtCcagctgcctcctgaggttgt	10	15	0	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr12:52885385C>T	uc001sam.2	-	2	885	c.676G>A	c.(676-678)GAC>AAC	p.D226N		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	226	Coil 1B.|Rod.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		ACAATGCTGTCCAGCTGCCTC	0.562													23	75	---	---	---	---	PASS	T	52885385	T	T	52885385	3	4	45	1	0	0	0	0	1	0	0	0	8480	855	30	2	1050	2	KRT6A	12	52885385	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	2313675	52885385	80966510	73	18098										
KRT4	3851	broad.mit.edu	37	chr12	53201458	53201458	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	cgccctccagcagtttgcggTaggtggcgatctcgatgtcc	13	13	1	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr12:53201458T>C	uc001saz.2	-	7	1809	c.1538A>G	c.(1537-1539)TAC>TGC	p.Y513C		NM_002272	NP_002263	B4DRS2	B4DRS2_HUMAN	keratin 4	439						keratin filament	structural molecule activity			ovary(4)|skin(2)	6						CAGTTTGCGGTAGGTGGCGAT	0.592													14	72	---	---	---	---	PASS	C	53201458	C	C	53201458	3	2	45	1	0	0	0	0	1	0	0	0	8477	1638	57	5	258	5	KRT4	12	53201458	Missense_Mutation	SNP	T	TCGA-22-5474-01A-01D-1632-08	316073	53201458	80650437	74	18099										
LRP1	4035	broad.mit.edu	37	chr12	57588840	57588840	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	caagcagtggctgtgtgacgGcagcgatgactgtggggatg	18	7	0	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr12:57588840G>A	uc001snd.2	+	51	8730	c.8264G>A	c.(8263-8265)GGC>GAC	p.G2755D		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	2755	Extracellular (Potential).|LDL-receptor class A 16.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CTGTGTGACGGCAGCGATGAC	0.607													28	56	---	---	---	---	PASS	A	57588840	A	A	57588840	3	1	45	1	0	0	0	0	1	0	0	0	8951	1203	42	3	8466	3	LRP1	12	57588840	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	4387382	57588840	76263055	75	18100										
ZDHHC17	23390	broad.mit.edu	37	chr12	77239571	77239571	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tcatcattgcccatgggtggGtaactgtgtaggtaagttgt	13	6	2	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr12:77239571G>C	uc001syk.1	+	13	1575	c.1412G>C	c.(1411-1413)GGT>GCT	p.G471A		NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	471	Cytoplasmic (Potential).|DHHC-type.				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						CCATGGGTGGGTAACTGTGTA	0.343													3	83	---	---	---	---	PASS	C	77239571	C	C	77239571	3	2	45	1	0	0	0	0	1	0	0	0	17604	1261	44	4	1462	4	ZDHHC17	12	77239571	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	19650731	77239571	56612324	76	18101										
NOS1	4842	broad.mit.edu	37	chr12	117768176	117768176	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	acctggattcccatatctttCatctctgccttggcaggtgc	8	13	3	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr12:117768176C>T	uc001twm.1	-	2	1385	c.699G>A	c.(697-699)ATG>ATA	p.M233I		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	233	PIN (nNOS-inhibiting protein) binding.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CCATATCTTTCATCTCTGCCT	0.408													13	71	---	---	---	---	PASS	T	117768176	T	T	117768176	3	4	45	1	0	0	0	0	1	0	0	0	10541	826	29	2	3717	2	NOS1	12	117768176	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	40528605	117768176	16083719	77	18102										
CCDC60	160777	broad.mit.edu	37	chr12	119916931	119916931	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tgagaagttgaagacactggGagctagagtcacacgtcgcc	13	9	1	4			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr12:119916931G>A	uc001txe.2	+	4	839	c.374G>A	c.(373-375)GGA>GAA	p.G125E	uc001txf.2_Intron	NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60	125										ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		AAGACACTGGGAGCTAGAGTC	0.483													11	31	---	---	---	---	PASS	A	119916931	A	A	119916931	3	1	45	1	0	0	0	0	1	0	0	0	2831	1174	41	2	388	2	CCDC60	12	119916931	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	2148755	119916931	13934964	78	18103										
ZDHHC20	253832	broad.mit.edu	37	chr13	21965981	21965981	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gtggaattttgcacgtgtatCtgtcagttcattctgaggaa	11	6	4	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr13:21965981C>T	uc001uob.2	-	8	720	c.607G>A	c.(607-609)GAT>AAT	p.D203N	ZDHHC20_uc001uod.2_RNA|ZDHHC20_uc001uoc.2_RNA|ZDHHC20_uc001uoe.2_RNA|ZDHHC20_uc010tcs.1_Missense_Mutation_p.D140N	NM_153251	NP_694983	Q5W0Z9	ZDH20_HUMAN	zinc finger, DHHC-type containing 20	203						integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1		all_cancers(29;8.1e-16)|all_epithelial(30;3.63e-14)|all_lung(29;2.04e-13)|Lung SC(185;0.0367)		all cancers(112;0.000268)|Epithelial(112;0.000735)|OV - Ovarian serous cystadenocarcinoma(117;0.00517)|Lung(94;0.171)		GCACGTGTATCTGTCAGTTCA	0.358													4	17	---	---	---	---	PASS	T	21965981	T	T	21965981	3	4	45	1	0	0	0	0	1	0	0	0	17608	913	32	2	477	2	ZDHHC20	13	21965981	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08		21965981	93203897	79	18104										
OR4M2	390538	broad.mit.edu	37	chr15	22369131	22369131	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gtgacatcacacaggttgtcCggattgcctgtgccaacacc	10	13	1	1	rs141142184		TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr15:22369131C>A	uc010tzu.1	+	1	556	c.556C>A	c.(556-558)CGG>AGG	p.R186R	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		ACAGGTTGTCCGGATTGCCTG	0.458													32	116	---	---	---	---	PASS	A	22369131	A	A	22369131	2	1	45	1	0	0	0	0	0	0	0	1	11076	643	23	1		1	OR4M2	15	22369131	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08		22369131	80162261	80	18105										
EIF2AK4	440275	broad.mit.edu	37	chr15	40265206	40265206	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	aaatgcctctagtggaacaaAgtcctgaaggtgagtctgtt	11	7	2	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr15:40265206A>T	uc001zkm.1	+	10	1701	c.1651A>T	c.(1651-1653)AGT>TGT	p.S551C	EIF2AK4_uc001zkl.2_Missense_Mutation_p.S551C|EIF2AK4_uc010bbj.1_Missense_Mutation_p.S280C	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	551					translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		AGTGGAACAAAGTCCTGAAGG	0.398													3	64	---	---	---	---	PASS	T	40265206	T	T	40265206	3	4	45	1	0	0	0	0	1	0	0	0	4999	72	3	5	1689	5	EIF2AK4	15	40265206	Missense_Mutation	SNP	A	TCGA-22-5474-01A-01D-1632-08	17896075	40265206	62266186	81	18106										
TYRO3	7301	broad.mit.edu	37	chr15	41862508	41862508	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gggcagcccggtccttcaatCgagaaaggcccgagcgcatc	13	14	1	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr15:41862508C>A	uc001zof.1	+	11	1677	c.1453C>A	c.(1453-1455)CGA>AGA	p.R485R		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	485	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GTCCTTCAATCGAGAAAGGCC	0.567													20	93	---	---	---	---	PASS	A	41862508	A	A	41862508	2	1	45	1	0	0	0	0	0	0	0	1	16811	876	31	2		2	TYRO3	15	41862508	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08	1597302	41862508	60668884	82	18107										
MGA	23269	broad.mit.edu	37	chr15	42032210	42032210	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	cacaggcaggttgcgaccctCagtcctggacctctcaaccc	9	17	2	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr15:42032210C>T	uc010uda.1	+	3	368	c.242C>T	c.(241-243)TCA>TTA	p.S81L	MGA_uc010ucy.1_Intron|MGA_uc010ucz.1_Intron	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1470						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		TTGCGACCCTCAGTCCTGGAC	0.532													22	98	---	---	---	---	PASS	T	42032210	T	T	42032210	3	4	45	1	0	0	0	0	1	0	0	0	9540	841	29	2		2	MGA	15	42032210	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	169702	42032210	60499182	83	18108										
SLC30A4	7782	broad.mit.edu	37	chr15	45814460	45814460	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tcgtcccccgcctcatccgaGaagtcaaaggcgctggtgtc	11	15	2	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr15:45814460G>A	uc001zvj.2	-	2	405	c.93C>T	c.(91-93)TTC>TTT	p.F31F	C15orf21_uc010beg.1_Intron|C15orf21_uc010beh.1_Intron|C15orf21_uc010bei.1_Intron|C15orf21_uc010bej.1_Intron|C15orf21_uc001zvm.1_Intron|C15orf21_uc001zvn.1_Intron	NM_013309	NP_037441	O14863	ZNT4_HUMAN	solute carrier family 30 (zinc transporter),	31	Cytoplasmic (Potential).|Asp-rich (acidic).				regulation of sequestering of zinc ion|response to toxin	endosome membrane|integral to membrane|late endosome	zinc ion transmembrane transporter activity				0		Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.58e-16)|GBM - Glioblastoma multiforme(94;2.15e-06)		CCTCATCCGAGAAGTCAAAGG	0.582													3	45	---	---	---	---	PASS	A	45814460	A	A	45814460	2	1	45	1	0	0	0	0	0	0	0	1	14557	933	33	2		2	SLC30A4	15	45814460	Silent	SNP	G	TCGA-22-5474-01A-01D-1632-08	3782250	45814460	56716932	84	18109										
COPS2	9318	broad.mit.edu	37	chr15	49429425	49429425	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tctaaatataattttccaagCtgcaagaaagcaaatttatt	4	6	1	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr15:49429425C>T	uc001zxf.2	-	6	542	c.463_splice	c.e6-1	p.L155_splice	COPS2_uc001zxh.2_Splice_Site_p.L162_splice|COPS2_uc010ufa.1_Splice_Site_p.L91_splice	NM_004236	NP_004227	P61201	CSN2_HUMAN	COP9 constitutive photomorphogenic homolog						cullin deneddylation|transcription from RNA polymerase II promoter	cytoplasm|signalosome	protein binding|signal transducer activity			lung(1)	1		all_lung(180;0.0428)		all cancers(107;1.34e-07)|GBM - Glioblastoma multiforme(94;3.02e-05)		ATTTTCCAAGCTGCAAGAAAG	0.333													9	33	---	---	---	---	PASS	T	49429425	T	T	49429425	5	4	45	1	0	0	0	0	0	0	1	0	3733	811	28	3	901	3	COPS2	15	49429425	Splice_Site	SNP	C	TCGA-22-5474-01A-01D-1632-08	3614965	49429425	53101967	85	18110										
ITGA11	22801	broad.mit.edu	37	chr15	68661578	68661578	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gacacttgtacacgtctcccGtcttctggtagccattggtt	9	12	3	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr15:68661578G>A	uc002ari.2	-	3	296	c.209C>T	c.(208-210)ACG>ATG	p.T70M	ITGA11_uc010bib.2_Missense_Mutation_p.T70M	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	70	FG-GAP 1.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	CACGTCTCCCGTCTTCTGGTA	0.557													18	37	---	---	---	---	PASS	A	68661578	A	A	68661578	3	1	45	1	0	0	0	0	1	0	0	0	7874	1145	40	1	3469	1	ITGA11	15	68661578	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	19232153	68661578	33869814	86	18111										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84652054	84652054	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tacccccagtgaggccacatAtacatggaccaaggatggaa	10	11	0	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr15:84652054A>G	uc002bjz.3	+	21	3898	c.3674A>G	c.(3673-3675)TAT>TGT	p.Y1225C	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.Y1225C|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.Y1225C	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	1225	Ig-like C2-type 2.					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)			GAGGCCACATATACATGGACC	0.363													40	111	---	---	---	---	PASS	G	84652054	G	G	84652054	3	3	45	1	0	0	0	0	1	0	0	0	276	449	16	5	3752	5	ADAMTSL3	15	84652054	Missense_Mutation	SNP	A	TCGA-22-5474-01A-01D-1632-08	15990476	84652054	17879338	87	18112										
RPL3L	6123	broad.mit.edu	37	chr16	2000847	2000847	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ggagggccgggggctgacctGagtgtggacaatgacccgaa	18	9	0	3			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr16:2000847G>A	uc002cnh.2	-	4	546	c.499C>T	c.(499-501)CAG>TAG	p.Q167*		NM_005061	NP_005052	Q92901	RL3L_HUMAN	ribosomal protein L3-like	167					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	RNA binding|structural constituent of ribosome				0						GGGCTGACCTGAGTGTGGACA	0.587													31	34	---	---	---	---	PASS	A	2000847	A	A	2000847	4	1	45	1	0	0	0	0	0	1	0	0	13594	1299	45	2	752	2	RPL3L	16	2000847	Nonsense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08		2000847	88353906	88	18113										
ANKRD11	29123	broad.mit.edu	37	chr16	89351186	89351186	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ctcttcctcactggcttcagCgattccacactggagccctc	7	17	3	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr16:89351186C>T	uc002fmx.1	-	9	2225	c.1764G>A	c.(1762-1764)TCG>TCA	p.S588S	ANKRD11_uc002fmy.1_Silent_p.S588S|ANKRD11_uc002fnc.1_Silent_p.S588S|ANKRD11_uc002fnb.1_Silent_p.S545S	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	588	Ser-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CTGGCTTCAGCGATTCCACAC	0.592													5	24	---	---	---	---	PASS	T	89351186	T	T	89351186	2	4	45	1	0	0	0	0	0	0	0	1	639	755	27	1		1	ANKRD11	16	89351186	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08	87350339	89351186	1003567	89	18114										
TP53	7157	broad.mit.edu	37	chr17	7577580	7577580	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	aactgttacacatgtagttgTagtggatggtggtacagtca	12	5	1	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr17:7577580T>G	uc002gim.2	-	7	895	c.701A>C	c.(700-702)TAC>TCC	p.Y234S	TP53_uc002gig.1_Missense_Mutation_p.Y234S|TP53_uc002gih.2_Missense_Mutation_p.Y234S|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y102S|TP53_uc010cng.1_Missense_Mutation_p.Y102S|TP53_uc002gii.1_Missense_Mutation_p.Y102S|TP53_uc010cnh.1_Missense_Mutation_p.Y234S|TP53_uc010cni.1_Missense_Mutation_p.Y234S|TP53_uc002gij.2_Missense_Mutation_p.Y234S|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.Y141S|TP53_uc002gio.2_Missense_Mutation_p.Y102S	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	234	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> F (in a sporadic cancer; somatic mutation).|Y -> K (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|Y -> N (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Y -> S (in sporadic cancers; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).|Y -> Q (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.Y234C(70)|p.Y234H(13)|p.Y234N(11)|p.0?(7)|p.Y234S(6)|p.Y234*(4)|p.Y234D(3)|p.Y234del(3)|p.Y234fs*2(1)|p.V225fs*23(1)|p.Y234fs*6(1)|p.Y234fs*5(1)|p.Y234fs*4(1)|p.Y234R(1)|p.Y234Y(1)|p.H233_C242del10(1)|p.D228fs*12(1)|p.Y234F(1)|p.I232_Y236delIHYNY(1)|p.Y141S(1)|p.T230_Y234delTTIHY(1)|p.H233fs*6(1)|p.Y234_N235insX(1)|p.I232fs*5(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)		CATGTAGTTGTAGTGGATGGT	0.572		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)			24	15	---	---	---	---	PASS	G	7577580	G	G	7577580	3	3	45	1	0	0	0	0	1	0	0	0	16378	1638	57	5	589	5	TP53	17	7577580	Missense_Mutation	SNP	T	TCGA-22-5474-01A-01D-1632-08		7577580	73617630	90	18115										
MYH4	4622	broad.mit.edu	37	chr17	10359842	10359842	+	Frame_Shift_Del	DEL	T	-	-													0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tctggaaagaagaacccttcTttttgccacctttctttcca					rs137989230		TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr17:10359842delT	uc002gmn.2	-	17	2039	c.1928delA	c.(1927-1929)AAGfs	p.K643fs	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	643	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						AGAACCCTTCTTTTTGCCACC	0.338													40	33	---	---	---	---		-	10359842	-	-	10359842	7	5	45	1	0	1	0	1	0	0	0	0	10037	1609	56	0	3987	0	MYH4	17	10359842	Frame_Shift_Del	DEL	T	TCGA-22-5474-01A-01D-1632-08	2782262	10359842	70835368	91	18116										
MED1	5469	broad.mit.edu	37	chr17	37564166	37564166	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tgctttggagtggaaccactGatgagtggagagccatagtt	14	6	0	3			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr17:37564166G>C	uc002hrv.3	-	17	4520	c.4308C>G	c.(4306-4308)ATC>ATG	p.I1436M	MED1_uc010wee.1_Missense_Mutation_p.I1264M|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1436	Ser-rich.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		TGGAACCACTGATGAGTGGAG	0.493										HNSCC(31;0.082)			14	49	---	---	---	---	PASS	C	37564166	C	C	37564166	3	2	45	1	0	0	0	0	1	0	0	0	9425	1280	45	2	441	2	MED1	17	37564166	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	27204324	37564166	43631044	92	18117			1	21		3	3	726	G		3.308086e-06
MED1	5469	broad.mit.edu	37	chr17	37564269	37564269	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tcactttggctttaatgctaGgggagcctccatcatgctta	9	10	2	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr17:37564269G>C	uc002hrv.3	-	17	4417	c.4205C>G	c.(4204-4206)CCT>CGT	p.P1402R	MED1_uc010wee.1_Missense_Mutation_p.P1230R|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1402	Ser-rich.|Interaction with TP53.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		TTTAATGCTAGGGGAGCCTCC	0.458										HNSCC(31;0.082)			29	59	---	---	---	---	PASS	C	37564269	C	C	37564269	3	2	45	1	0	0	0	0	1	0	0	0	9425	1000	35	4	544	4	MED1	17	37564269	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	103	37564269	43630941	93	18118			1	21		3	3	726	G		3.308086e-06
MED1	5469	broad.mit.edu	37	chr17	37564891	37564891	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gcctccaggtggccttgaatGagaaggggatatgtttggtt	15	6	0	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr17:37564891G>A	uc002hrv.3	-	17	3795	c.3583C>T	c.(3583-3585)CAT>TAT	p.H1195Y	MED1_uc010wee.1_Missense_Mutation_p.H1023Y|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1195	Ser-rich.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		GGCCTTGAATGAGAAGGGGAT	0.483										HNSCC(31;0.082)			10	47	---	---	---	---	PASS	A	37564891	A	A	37564891	3	1	45	1	0	0	0	0	1	0	0	0	9425	1290	45	2	1166	2	MED1	17	37564891	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	622	37564891	43630319	94	18119			1	21		3	3	726	G		3.308086e-06
TRIM25	7706	broad.mit.edu	37	chr17	54969227	54969227	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	agttgagaagcacgcccaccCgcgtggccttggtggagggc	16	12	0	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr17:54969227C>G	uc002iut.2	-	9	1787	c.1727G>C	c.(1726-1728)CGG>CCG	p.R576P	TRIM25_uc010dcj.2_Missense_Mutation_p.R368P	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25	576	B30.2/SPRY.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)					CACGCCCACCCGCGTGGCCTT	0.567													20	21	---	---	---	---	PASS	G	54969227	G	G	54969227	3	3	45	1	0	0	0	0	1	0	0	0	16496	652	23	4	169	4	TRIM25	17	54969227	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08	17404336	54969227	26225983	95	18120										
OR4D2	124538	broad.mit.edu	37	chr17	56247784	56247784	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	atcttcgttccaagcatttaCctctatgcccggcccttcac	5	16	3	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr17:56247784C>T	uc010wnp.1	+	1	768	c.768C>T	c.(766-768)TAC>TAT	p.Y256Y		NM_001004707	NP_001004707	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D,	256	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						CAAGCATTTACCTCTATGCCC	0.537													48	50	---	---	---	---	PASS	T	56247784	T	T	56247784	2	4	45	1	0	0	0	0	0	0	0	1	11056	518	18	3		3	OR4D2	17	56247784	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08	1278557	56247784	24947426	96	18121										
ABCA9	10350	broad.mit.edu	37	chr17	67039850	67039850	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ttccatcactgaatgatttgTtgcgatctgaagaaagatat	8	6	2	5			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr17:67039850T>C	uc002jhu.2	-	6	723	c.580A>G	c.(580-582)ACA>GCA	p.T194A	ABCA9_uc010dez.2_Missense_Mutation_p.T194A|ABCA9_uc002jhv.2_Missense_Mutation_p.T194A	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	194					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					GAATGATTTGTTGCGATCTGA	0.343													28	24	---	---	---	---	PASS	C	67039850	C	C	67039850	3	2	45	1	0	0	0	0	1	0	0	0	39	1725	60	5	4430	5	ABCA9	17	67039850	Missense_Mutation	SNP	T	TCGA-22-5474-01A-01D-1632-08	10792066	67039850	14155360	97	18122										
CYGB	114757	broad.mit.edu	37	chr17	74527629	74527629	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gacaccttgtcggggtcatgCaggttctccacgacagtgtt	12	11	2	0			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr17:74527629C>A	uc002jru.1	-	2	446	c.288G>T	c.(286-288)CTG>CTT	p.L96L	CYGB_uc002jrv.1_Silent_p.L31L|PRCD_uc002jrw.1_Intron	NM_134268	NP_599030	Q8WWM9	CYGB_HUMAN	cytoglobin	96	Globin.				response to oxidative stress	cytoplasm	heme binding|oxygen binding|oxygen transporter activity|peroxidase activity				0						CGGGGTCATGCAGGTTCTCCA	0.627													13	36	---	---	---	---	PASS	A	74527629	A	A	74527629	2	1	45	1	0	0	0	0	0	0	0	1	4139	697	25	3		3	CYGB	17	74527629	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08	7487779	74527629	6667581	98	18123										
ZBTB7A	51341	broad.mit.edu	37	chr19	4054254	4054254	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	cggcccccgcccggcccaccGatgacatcatctgctgcagc	10	20	2	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr19:4054254G>A	uc002lzh.2	-	2	1052	c.977C>T	c.(976-978)TCG>TTG	p.S326L	ZBTB7A_uc002lzi.2_Missense_Mutation_p.S326L	NM_015898	NP_056982	O95365	ZBT7A_HUMAN	zinc finger and BTB domain containing 7A	326					cell differentiation|multicellular organismal development|transcription, DNA-dependent	nucleus	DNA binding|histone acetyltransferase binding|zinc ion binding			pancreas(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.014)|STAD - Stomach adenocarcinoma(1328;0.18)		ccggcccACCGATGACATCAT	0.597													3	4	---	---	---	---	PASS	A	4054254	A	A	4054254	3	1	45	1	0	0	0	0	1	0	0	0	17550	1059	37	2	785	2	ZBTB7A	19	4054254	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08		4054254	55074729	99	18124										
UPF1	5976	broad.mit.edu	37	chr19	18960909	18960909	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ttgtaaatcaccttgtgaggGcaaaatgcaaagaggtgacc	11	7	1	3			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr19:18960909G>A	uc002nkg.2	+	4	762	c.487G>A	c.(487-489)GCA>ACA	p.A163T	UPF1_uc002nkf.2_Missense_Mutation_p.A163T	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	163	Sufficient for interaction with RENT2.				cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCTTGTGAGGGCAAAATGCAA	0.517													4	109	---	---	---	---	PASS	A	18960909	A	A	18960909	3	1	45	1	0	0	0	0	1	0	0	0	17000	1203	42	3	501	3	UPF1	19	18960909	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	14906655	18960909	40168074	100	18125										
ZNF93	81931	broad.mit.edu	37	chr19	20027425	20027425	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tggagcaaggaaaaaaacctTtgactatgaagagacatgag	11	5	0	4			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr19:20027425T>G	uc002non.2	+	3	298	c.187T>G	c.(187-189)TTG>GTG	p.L63V	ZNF93_uc002nom.2_Missense_Mutation_p.L63V	NM_031218	NP_112495	P35789	ZNF93_HUMAN	zinc finger protein 93	63	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1						AAAAAAACCTTTGACTATGAA	0.418													4	81	---	---	---	---	PASS	G	20027425	G	G	20027425	3	3	45	1	0	0	0	0	1	0	0	0	18199	1838	64	5	197	5	ZNF93	19	20027425	Missense_Mutation	SNP	T	TCGA-22-5474-01A-01D-1632-08	1066516	20027425	39101558	101	18126										
ZNF569	148266	broad.mit.edu	37	chr19	37904954	37904954	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gtatgaattctcagatgtctGatgaggtccaaagtctgatt	10	6	3	5			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr19:37904954G>A	uc002ogi.2	-	6	1164	c.606C>T	c.(604-606)ATC>ATT	p.I202I	ZNF569_uc002ogh.2_Silent_p.I43I|ZNF569_uc002ogj.2_Silent_p.I226I	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	202	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCAGATGTCTGATGAGGTCCA	0.358													31	71	---	---	---	---	PASS	A	37904954	A	A	37904954	2	1	45	1	0	0	0	0	0	0	0	1	17997	1280	45	2		2	ZNF569	19	37904954	Silent	SNP	G	TCGA-22-5474-01A-01D-1632-08	17877529	37904954	21224029	102	18127										
ZFP30	22835	broad.mit.edu	37	chr19	38126846	38126846	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tctgatgtcgactgaggtggGcacactgtctaaaggctttt	12	8	2	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr19:38126846G>A	uc002ogv.1	-	6	1112	c.596C>T	c.(595-597)GCC>GTC	p.A199V	ZFP30_uc002ogw.1_Missense_Mutation_p.A199V|ZFP30_uc002ogx.1_Missense_Mutation_p.A199V|ZFP30_uc010xtt.1_Missense_Mutation_p.A198V	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog	199	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ACTGAGGTGGGCACACTGTCT	0.388													4	171	---	---	---	---	PASS	A	38126846	A	A	38126846	3	1	45	1	0	0	0	0	1	0	0	0	17641	1203	42	3	967	3	ZFP30	19	38126846	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	221892	38126846	21002137	103	18128										
RYR1	6261	broad.mit.edu	37	chr19	38948934	38948934	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ggactgcatctctggacaggTacctgaccccttccagggga	12	13	1	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr19:38948934T>C	uc002oit.2	+	18	2297	c.2167_splice	c.e18+2	p.G723_splice	RYR1_uc002oiu.2_Splice_Site_p.G723_splice	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1						muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TCTGGACAGGTACCTGACCCC	0.612													55	79	---	---	---	---	PASS	C	38948934	C	C	38948934	5	2	45	1	0	0	0	0	0	0	1	0	13768	1652	57	5	2239	5	RYR1	19	38948934	Splice_Site	SNP	T	TCGA-22-5474-01A-01D-1632-08	822088	38948934	20180049	104	18129										
ZNF222	7673	broad.mit.edu	37	chr19	44536873	44536873	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	atgtgaggagtgtgggaaggGctacattagtaagtcaggtc	16	4	1	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr19:44536873G>T	uc002oyc.2	+	4	1229	c.1046G>T	c.(1045-1047)GGC>GTC	p.G349V	ZNF284_uc010ejd.2_Intron|ZNF222_uc002oye.2_Missense_Mutation_p.G389V|ZNF222_uc002oyd.2_Missense_Mutation_p.G295V	NM_013360	NP_037492	Q9UK12	ZN222_HUMAN	zinc finger protein 222 isoform 2	349	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Prostate(69;0.0435)				TGTGGGAAGGGCTACATTAGT	0.448													15	78	---	---	---	---	PASS	T	44536873	T	T	44536873	3	4	45	1	0	0	0	0	1	0	0	0	17773	1203	42	3	1199	3	ZNF222	19	44536873	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	5587939	44536873	14592110	105	18130										
PPP2R1A	5518	broad.mit.edu	37	chr19	52705205	52705205	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	ttctctcattagcttcgcctCaacagcatcaagaagctgtc	6	13	4	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr19:52705205C>T	uc002pyp.2	+	2	246	c.87C>T	c.(85-87)CTC>CTT	p.L29L	PPP2R1A_uc010ydk.1_Missense_Mutation_p.S8L|PPP2R1A_uc010epm.1_Silent_p.L69L|PPP2R1A_uc002pyq.2_5'UTR	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	29	PP2A subunit B binding.|HEAT 1.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		AGCTTCGCCTCAACAGCATCA	0.532			Mis		clear cell ovarian carcinoma								6	26	---	---	---	---	PASS	T	52705205	T	T	52705205	2	4	45	1	0	0	0	0	0	0	0	1	12382	813	29	2		2	PPP2R1A	19	52705205	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08	8168332	52705205	6423778	106	18131										
PLCB4	5332	broad.mit.edu	37	chr20	9317805	9317805	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	tttgaacccaactgcctcttCaaagtggatgagtttggctt	9	9	2	2			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr20:9317805C>T	uc002wnf.2	+	4	253	c.117C>T	c.(115-117)TTC>TTT	p.F39F	PLCB4_uc010gbw.1_Silent_p.F39F|PLCB4_uc010gbx.2_Silent_p.F39F|PLCB4_uc002wne.2_Silent_p.F39F	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	39					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						ACTGCCTCTTCAAAGTGGATG	0.378													15	49	---	---	---	---	PASS	T	9317805	T	T	9317805	2	4	45	1	0	0	0	0	0	0	0	1	12030	825	29	2		2	PLCB4	20	9317805	Silent	SNP	C	TCGA-22-5474-01A-01D-1632-08		9317805	53707715	107	18132										
C22orf30	253143	broad.mit.edu	37	chr22	32097716	32097716	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gttttccggatgcgaatctgTgagactttctttggcctctt	10	9	3	1			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chr22:32097716T>C	uc003alp.3	-	7	6226	c.6033A>G	c.(6031-6033)TCA>TCG	p.S2011S	C22orf30_uc003alo.1_Silent_p.S1810S|C22orf30_uc010gwj.1_Intron	NM_173566	NP_775837	Q5THK1	PR14L_HUMAN	hypothetical protein LOC253143	2011											0						TGCGAATCTGTGAGACTTTCT	0.408													17	54	---	---	---	---	PASS	C	32097716	C	C	32097716	2	2	45	1	0	0	0	0	0	0	0	1	2142	1683	59	5		5	C22orf30	22	32097716	Silent	SNP	T	TCGA-22-5474-01A-01D-1632-08		32097716	19206850	108	18133										
CCNB3	85417	broad.mit.edu	37	chrX	50037927	50037927	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	agagtttgtaaaagttgtttCcaagaagataaacaggaaca	9	4	0	3			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chrX:50037927C>A	uc004dox.3	+	5	567	c.269C>A	c.(268-270)TCC>TAC	p.S90Y	CCNB3_uc004doy.2_Missense_Mutation_p.S90Y|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_5'UTR	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	90					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					AAAGTTGTTTCCAAGAAGATA	0.428													21	11	---	---	---	---	PASS	A	50037927	A	A	50037927	3	1	45	1	0	0	0	0	1	0	0	0	2914	855	30	2	279	2	CCNB3	23	50037927	Missense_Mutation	SNP	C	TCGA-22-5474-01A-01D-1632-08		50037927	105232633	109	18134										
ZIC3	7547	broad.mit.edu	37	chrX	136649888	136649888	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.290909090909091	32	3.54970545358482e-08	2.89969331425066	4.49814925373134	2.06716417910448	0.812758198329393	1	21	gcccgttctgagaacctcaaGatccacaagaggacccacac	8	15	2	3			TCGA-22-5474-01A-01D-1632-08	TCGA-22-5474-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1eda33fc-80e5-4c5f-8c61-43976ca0106f	510ca59c-cb32-4cbd-9c02-fb0cbc243a29	g.chrX:136649888G>C	uc004fak.2	+	1	1543	c.1038G>C	c.(1036-1038)AAG>AAC	p.K346N		NM_003413	NP_003404	O60481	ZIC3_HUMAN	zinc finger protein of the cerebellum 3	346	C2H2-type 3.|Nuclear localization signal.			K->A: Increases its cytoplasmic localization. Does not interact with KPNA1 and KPNA6 and increases strongly its cytoplasmic localization; when associated with A-320; A-337; A-341; A- 349 and A-350.	cell differentiation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AGAACCTCAAGATCCACAAGA	0.602													3	64	---	---	---	---	PASS	C	136649888	C	C	136649888	3	2	45	1	0	0	0	0	1	0	0	0	17677	933	33	2	1040	2	ZIC3	23	136649888	Missense_Mutation	SNP	G	TCGA-22-5474-01A-01D-1632-08	86611961	136649888	18620672	110	18135										
NOL9	79707	broad.mit.edu	37	chr1	6592578	6592578	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ataaacacctatcagtttatGtccagtgaactcaactggac	6	10	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:6592578G>A	uc001ans.2	-	8	1499	c.1480C>T	c.(1480-1482)CAT>TAT	p.H494Y	NOL9_uc010nzs.1_RNA	NM_024654	NP_078930	Q5SY16	NOL9_HUMAN	nucleolar protein 9	494					maturation of 5.8S rRNA	nucleolus	ATP binding|polynucleotide 5'-hydroxyl-kinase activity|RNA binding			skin(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;2.46e-35)|all_epithelial(116;1.41e-22)|all_lung(118;7.59e-07)|Lung NSC(185;4.28e-06)|Colorectal(325;4.52e-05)|Breast(487;0.000353)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.47e-07)|COAD - Colon adenocarcinoma(227;1.47e-05)|Kidney(185;5.27e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|BRCA - Breast invasive adenocarcinoma(365;0.00113)|STAD - Stomach adenocarcinoma(132;0.0017)|READ - Rectum adenocarcinoma(331;0.0649)		ATCAGTTTATGTCCAGTGAAC	0.393													37	20	---	---	---	---	PASS	A	6592578	A	A	6592578	3	1	46	1	0	0	0	0	1	0	0	0	10528	1377	48	3	648	3	NOL9	1	6592578	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08		6592578	242658043	1	18136										
C1orf187	374946	broad.mit.edu	37	chr1	11766340	11766340	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctgggcctgccatccacaccGctcccatgctgttcctcgtc	8	19	0	0	rs141904724		TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:11766340G>A	uc001asr.1	+	2	165	c.25G>A	c.(25-27)GCT>ACT	p.A9T		NM_198545	NP_940947	Q8NBI3	DRAXI_HUMAN	chromosome 1 open reading frame 187 precursor	9					axon guidance|commissural neuron differentiation in spinal cord|dorsal spinal cord development|forebrain development|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region					0	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.48e-06)|COAD - Colon adenocarcinoma(227;0.000283)|BRCA - Breast invasive adenocarcinoma(304;0.000316)|Kidney(185;0.000841)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|STAD - Stomach adenocarcinoma(313;0.00754)|READ - Rectum adenocarcinoma(331;0.0651)		CATCCACACCGCTCCCATGCT	0.637													10	2	---	---	---	---	PASS	A	11766340	A	A	11766340	3	1	46	1	0	0	0	0	1	0	0	0	2021	1087	38	1	27	1	C1orf187	1	11766340	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	5173762	11766340	237484281	2	18137										
NBPF1	55672	broad.mit.edu	37	chr1	16893800	16893800	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ataacatctatccagtgagtCctgcaagacttcaggccctt	7	12	2	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:16893800C>A	uc009vos.1	-	26	3826	c.2938G>T	c.(2938-2940)GAC>TAC	p.D980Y	NBPF1_uc009vot.1_Missense_Mutation_p.D363Y|NBPF1_uc001ayz.1_Missense_Mutation_p.D363Y|NBPF1_uc010oce.1_Missense_Mutation_p.D634Y	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	980	NBPF 6.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TCCAGTGAGTCCTGCAAGACT	0.478													8	758	---	---	---	---	PASS	A	16893800	A	A	16893800	3	1	46	1	0	0	0	0	1	0	0	0	10192	855	30	2	731	2	NBPF1	1	16893800	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	5127460	16893800	232356821	3	18138										
PLA2G5	5322	broad.mit.edu	37	chr1	20412680	20412680	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcttctacggctgttactgcGgctggggcggccgaggaacc	16	12	1	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:20412680G>A	uc001bcy.2	+	3	413	c.145G>A	c.(145-147)GGC>AGC	p.G49S	PLA2G5_uc001bcw.2_RNA|PLA2G5_uc001bcx.2_Missense_Mutation_p.G80S	NM_000929	NP_000920	P39877	PA2G5_HUMAN	phospholipase A2, group V precursor	49		Calcium; via carbonyl oxygen (By similarity).			lipid catabolic process	extracellular region	calcium ion binding|calcium-dependent phospholipase A2 activity			skin(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000249)|Lung NSC(340;0.000287)|Breast(348;0.000812)|Ovarian(437;0.00328)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.22e-05)|BRCA - Breast invasive adenocarcinoma(304;8.15e-05)|Kidney(64;0.000184)|GBM - Glioblastoma multiforme(114;0.00089)|KIRC - Kidney renal clear cell carcinoma(64;0.0027)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0652)		CTGTTACTGCGGCTGGGGCGG	0.502													15	8	---	---	---	---	PASS	A	20412680	A	A	20412680	3	1	46	1	0	0	0	0	1	0	0	0	12007	1116	39	1	151	1	PLA2G5	1	20412680	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	3518880	20412680	228837941	4	18139										
OPRD1	4985	broad.mit.edu	37	chr1	29189553	29189553	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tggtggacatcgaccggcgcGacccgctggtggtggctgcg	18	12	0	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:29189553G>C	uc001brf.1	+	3	1119	c.877G>C	c.(877-879)GAC>CAC	p.D293H		NM_000911	NP_000902	P41143	OPRD_HUMAN	opioid receptor, delta 1	293	Extracellular (Potential).				immune response|protein import into nucleus, translocation	integral to plasma membrane	delta-opioid receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000947)|all_lung(284;0.00131)|Renal(390;0.00758)|Breast(348;0.00765)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-07)|COAD - Colon adenocarcinoma(152;7.51e-06)|STAD - Stomach adenocarcinoma(196;0.00306)|BRCA - Breast invasive adenocarcinoma(304;0.0241)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)	Butorphanol(DB00611)|Codeine(DB00318)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Loperamide(DB00836)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pimozide(DB01100)|Propoxyphene(DB00647)	CGACCGGCGCGACCCGCTGGT	0.637													5	2	---	---	---	---	PASS	C	29189553	C	C	29189553	3	2	46	1	0	0	0	0	1	0	0	0	10884	1058	37	2	887	2	OPRD1	1	29189553	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	8776873	29189553	220061068	5	18140										
YBX1	4904	broad.mit.edu	37	chr1	43161906	43161906	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ataaccccaggaagtaccttCgcagtgtaggagatggagag	13	8	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:43161906C>T	uc001chs.2	+	4	472	c.301C>T	c.(301-303)CGC>TGC	p.R101C		NM_004559	NP_004550	P67809	YBOX1_HUMAN	nuclease sensitive element binding protein 1	101	CSD.				CRD-mediated mRNA stabilization|negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|positive regulation of cell division|transcription from RNA polymerase II promoter	CRD-mediated mRNA stability complex|extracellular region|histone pre-mRNA 3'end processing complex|nucleoplasm|stress granule|U12-type spliceosomal complex	double-stranded DNA binding|protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			ovary(4)|upper_aerodigestive_tract(1)	5	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GAAGTACCTTCGCAGTGTAGG	0.363													36	17	---	---	---	---	PASS	T	43161906	T	T	43161906	3	4	46	1	0	0	0	0	1	0	0	0	17466	884	31	2	315	2	YBX1	1	43161906	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	13972353	43161906	206088715	6	18141										
KIF2C	11004	broad.mit.edu	37	chr1	45232773	45232773	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctaccctttcttccagatgtCatcaaggccttgcgcctggc	8	15	3	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:45232773C>T	uc001cmg.3	+	21	2215	c.2100C>T	c.(2098-2100)GTC>GTT	p.V700V	KIF2C_uc010olb.1_Silent_p.V659V|KIF2C_uc010olc.1_Silent_p.V587V|KIF2C_uc001cmh.3_Silent_p.V646V	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	700					blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TTCCAGATGTCATCAAGGCCT	0.537													34	6	---	---	---	---	PASS	T	45232773	T	T	45232773	2	4	46	1	0	0	0	0	0	0	0	1	8299	813	29	2		2	KIF2C	1	45232773	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	2070867	45232773	204017848	7	18142										
PRDX1	5052	broad.mit.edu	37	chr1	45981401	45981401	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gtttcttaaattcttctgccCtatcactgaaagcaatgatc	5	10	4	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:45981401C>G	uc001cnz.2	-	2	217	c.185G>C	c.(184-186)AGG>ACG	p.R62T	PRDX1_uc001coa.2_Missense_Mutation_p.R62T|PRDX1_uc001cob.2_Missense_Mutation_p.R62T|PRDX1_uc001coc.2_Missense_Mutation_p.R62T	NM_181697	NP_859048	Q06830	PRDX1_HUMAN	peroxiredoxin 1	62	Thioredoxin.				cell proliferation|cell redox homeostasis|hydrogen peroxide catabolic process|skeletal system development	melanosome|mitochondrion|nucleus	protein binding|thioredoxin peroxidase activity				0	Acute lymphoblastic leukemia(166;0.155)					TTCTTCTGCCCTATCACTGAA	0.428													17	32	---	---	---	---	PASS	G	45981401	G	G	45981401	3	3	46	1	0	0	0	0	1	0	0	0	12464	681	24	4	430	4	PRDX1	1	45981401	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	748628	45981401	203269220	8	18143										
TGFBR3	7049	broad.mit.edu	37	chr1	92200510	92200510	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	aaactggaccacagaaccctCagacacctagaggaaagaga	9	11	1	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:92200510C>G	uc001doh.2	-	5	857	c.391G>C	c.(391-393)GAG>CAG	p.E131Q	TGFBR3_uc009wde.2_Intron|TGFBR3_uc010osy.1_Missense_Mutation_p.E89Q|TGFBR3_uc001doi.2_Missense_Mutation_p.E131Q|TGFBR3_uc001doj.2_Missense_Mutation_p.E131Q	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	131	Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		ACAGAACCCTCAGACACCTAG	0.418													48	19	---	---	---	---	PASS	G	92200510	G	G	92200510	3	3	46	1	0	0	0	0	1	0	0	0	15820	835	29	2	2216	2	TGFBR3	1	92200510	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	46219109	92200510	157050111	9	18144										
EXTL2	2135	broad.mit.edu	37	chr1	101339555	101339555	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	aactgggaaatcataatgttGgagtatcttaagggcatgct	11	5	2	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:101339555G>A	uc001dtk.1	-	5	1273	c.936C>T	c.(934-936)TCC>TCT	p.S312S	EXTL2_uc001dtl.1_Silent_p.S312S|EXTL2_uc010ouk.1_Silent_p.S299S|EXTL2_uc001dtm.1_Silent_p.S311S	NM_001439	NP_001430	Q9UBQ6	EXTL2_HUMAN	exostoses-like 2	312	Lumenal (Potential).				N-acetylglucosamine metabolic process|UDP-N-acetylgalactosamine metabolic process	extracellular region|integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,4-N-acetylgalactosaminyltransferase activity|glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding			skin(1)	1		all_epithelial(167;2.48e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0425)|all cancers(265;0.0628)|COAD - Colon adenocarcinoma(174;0.148)|Colorectal(144;0.167)|Lung(183;0.195)		TCATAATGTTGGAGTATCTTA	0.353													32	14	---	---	---	---	PASS	A	101339555	A	A	101339555	2	1	46	1	0	0	0	0	0	0	0	1	5326	1335	47	3		3	EXTL2	1	101339555	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	9139045	101339555	147911066	10	18145										
TRIM45	80263	broad.mit.edu	37	chr1	117663389	117663389	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gctttgcaggtctgacacctCttctctacttccctgtcgtt	7	14	3	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:117663389C>G	uc001egz.2	-	1	1023	c.435G>C	c.(433-435)AAG>AAC	p.K145N	TRIM45_uc009whe.2_Missense_Mutation_p.K145N|TRIM45_uc001eha.2_Missense_Mutation_p.K41N	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	145	B box-type 1.					cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		TCTGACACCTCTTCTCTACTT	0.542													21	9	---	---	---	---	PASS	G	117663389	G	G	117663389	3	3	46	1	0	0	0	0	1	0	0	0	16517	912	32	2	1331	2	TRIM45	1	117663389	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	16323834	117663389	131587232	11	18146										
WARS2	10352	broad.mit.edu	37	chr1	119584928	119584928	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcctggagtactgggtatgtGagcaggcccaccgtgccatc	14	12	0	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:119584928G>A	uc001ehn.2	-	4	502	c.474C>T	c.(472-474)CTC>CTT	p.L158L	WARS2_uc010oxf.1_Silent_p.L64L|WARS2_uc001ehm.2_Silent_p.L158L|WARS2_uc010oxg.1_Silent_p.L101L|WARS2_uc010oxh.1_Intron|WARS2_uc010oxi.1_Intron	NM_015836	NP_056651	Q9UGM6	SYWM_HUMAN	mitochondrial tryptophanyl tRNA synthetase 2	158					tryptophanyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|tryptophan-tRNA ligase activity				0	all_neural(166;0.187)	all_lung(203;2.48e-06)|Lung NSC(69;1.74e-05)|all_epithelial(167;0.000564)		Lung(183;0.0629)	L-Tryptophan(DB00150)	CTGGGTATGTGAGCAGGCCCA	0.468													34	21	---	---	---	---	PASS	A	119584928	A	A	119584928	2	1	46	1	0	0	0	0	0	0	0	1	17247	1277	45	2		2	WARS2	1	119584928	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	1921539	119584928	129665693	12	18147										
NPR1	4881	broad.mit.edu	37	chr1	153658607	153658607	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttccatgcccagggcaacctCgtggctgtgaaacgtgtgaa	12	11	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:153658607C>T	uc001fcs.3	+	10	2110	c.1689C>T	c.(1687-1689)CTC>CTT	p.L563L	NPR1_uc010pdz.1_Silent_p.L309L|NPR1_uc010pea.1_Intron	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	563	Cytoplasmic (Potential).|Protein kinase.				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	AGGGCAACCTCGTGGCTGTGA	0.552													6	10	---	---	---	---	PASS	T	153658607	T	T	153658607	2	4	46	1	0	0	0	0	0	0	0	1	10594	871	31	2		2	NPR1	1	153658607	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	34073679	153658607	95592014	13	18148										
C1orf104	284618	broad.mit.edu	37	chr1	155290668	155290668	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcgcgaaggggtgcagctgcGcagcgcagggtaggttgtgc	20	9	0	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:155290668G>A	uc001fki.2	-	2	889	c.612C>T	c.(610-612)TGC>TGT	p.C204C	RAG1AP1_uc010pey.1_Intron|C1orf104_uc001fkh.1_Intron|RUSC1_uc001fkj.2_5'UTR|RUSC1_uc001fkk.2_5'UTR|RUSC1_uc009wqn.1_5'Flank|RUSC1_uc009wqo.1_5'Flank	NM_001039517	NP_001034606	Q66K80	RUAS1_HUMAN	hypothetical protein LOC284618	204											0	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.32e-10)|all cancers(21;3.51e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			GTGCAGCTGCGCAGCGCAGGG	0.667													4	5	---	---	---	---	PASS	A	155290668	A	A	155290668	2	1	46	1	0	0	0	0	0	0	0	1	1978	1079	38	1		1	C1orf104	1	155290668	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	1632061	155290668	93959953	14	18149										
OR6N1	128372	broad.mit.edu	37	chr1	158735720	158735720	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	atggaaaggatgctcccataGaagatgagaaccacagtgaa	11	7	0	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:158735720G>A	uc010piq.1	-	1	753	c.753C>T	c.(751-753)TTC>TTT	p.F251F		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	251	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TGCTCCCATAGAAGATGAGAA	0.537													43	44	---	---	---	---	PASS	A	158735720	A	A	158735720	2	1	46	1	0	0	0	0	0	0	0	1	11206	933	33	2		2	OR6N1	1	158735720	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	3445052	158735720	90514901	15	18150										
AIM2	9447	broad.mit.edu	37	chr1	159043196	159043196	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcctgtggcaatattaaactCgtctgaaagaaagaacttaa	8	7	1	3	rs2276405	byFrequency	TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:159043196C>A	uc001ftj.1	-	2	339	c.94G>T	c.(94-96)GAG>TAG	p.E32*		NM_004833	NP_004824	O14862	AIM2_HUMAN	absent in melanoma 2	32	DAPIN.				cellular response to drug|immune response|interleukin-1 beta secretion	mitochondrion|nucleus				ovary(2)|pancreas(1)	3	all_hematologic(112;0.0429)					ATATTAAACTCGTCTGAAAGA	0.413													3	60	---	---	---	---	PASS	A	159043196	A	A	159043196	4	1	46	1	0	0	0	0	0	1	0	0	432	893	31	2	957	2	AIM2	1	159043196	Nonsense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	307476	159043196	90207425	16	18151										
CACNA1E	777	broad.mit.edu	37	chr1	181701980	181701980	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ggcacaggcagagccaacggCgcagccggcatcgccgcgtc	15	16	0	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:181701980C>A	uc001gow.2	+	20	2923	c.2758C>A	c.(2758-2760)CGC>AGC	p.R920S	CACNA1E_uc009wxs.2_Missense_Mutation_p.R808S|CACNA1E_uc001gox.1_Missense_Mutation_p.R146S|CACNA1E_uc009wxt.2_Missense_Mutation_p.R146S	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	920	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GAGCCAACGGCGCAGCCGGCA	0.652													35	38	---	---	---	---	PASS	A	181701980	A	A	181701980	3	1	46	1	0	0	0	0	1	0	0	0	2542	768	27	1	2836	1	CACNA1E	1	181701980	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	22658784	181701980	67548641	17	18152										
CACNA1E	777	broad.mit.edu	37	chr1	181765941	181765941	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctgactgggagtccccagagCgccgtcaatccaggtcaccc	11	16	2	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:181765941C>T	uc001gow.2	+	46	6382	c.6217C>T	c.(6217-6219)CGC>TGC	p.R2073C	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1961C|CACNA1E_uc009wxt.2_Missense_Mutation_p.R1342C	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	2116	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GTCCCCAGAGCGCCGTCAATC	0.602													3	17	---	---	---	---	PASS	T	181765941	T	T	181765941	3	4	46	1	0	0	0	0	1	0	0	0	2542	768	27	1	6399	1	CACNA1E	1	181765941	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	63961	181765941	67484680	18	18153										
ZNF648	127665	broad.mit.edu	37	chr1	182026213	182026213	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	caggtgtaggccttgtcgcaGaaggagcactggtagggccg	17	9	0	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:182026213G>C	uc001goz.2	-	2	1141	c.933C>G	c.(931-933)TTC>TTG	p.F311L		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	311	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCTTGTCGCAGAAGGAGCACT	0.667													13	11	---	---	---	---	PASS	C	182026213	C	C	182026213	3	2	46	1	0	0	0	0	1	0	0	0	18060	933	33	2	777	2	ZNF648	1	182026213	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	260272	182026213	67224408	19	18154										
ARL8A	127829	broad.mit.edu	37	chr1	202107154	202107154	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcggaaacgcggctgtccccCaatgtcccagagctgagcaa	12	14	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:202107154C>A	uc001gxk.1	-	3	383	c.217G>T	c.(217-219)GGG>TGG	p.G73W		NM_138795	NP_620150	Q96BM9	ARL8A_HUMAN	ADP-ribosylation factor-like 8A	73	GTP (By similarity).				cell division|chromosome segregation|mitosis|small GTPase mediated signal transduction	late endosome membrane|lysosomal membrane|midbody|spindle midzone	alpha-tubulin binding|beta-tubulin binding|GTP binding|GTPase activity			ovary(2)	2						GGCTGTCCCCCAATGTCCCAG	0.607													4	42	---	---	---	---	PASS	A	202107154	A	A	202107154	3	1	46	1	0	0	0	0	1	0	0	0	946	594	21	3	363	3	ARL8A	1	202107154	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	20080941	202107154	47143467	20	18155										
ABCB10	23456	broad.mit.edu	37	chr1	229667455	229667455	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgcacccagtcctttcatcaGctccgagtagaaagagctca	8	13	3	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:229667455G>T	uc001htp.3	-	7	1406	c.1363C>A	c.(1363-1365)CTG>ATG	p.L455M		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	455	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)				CCTTTCATCAGCTCCGAGTAG	0.552													7	72	---	---	---	---	PASS	T	229667455	T	T	229667455	3	4	46	1	0	0	0	0	1	0	0	0	41	962	34	3	881	3	ABCB10	1	229667455	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	27560301	229667455	19583166	21	18156										
GALNT2	2590	broad.mit.edu	37	chr1	230401027	230401027	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tagcttttggggccttgcagCagggaactaactgcctcgac	12	11	0	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:230401027C>T	uc010pwa.1	+	14	1426	c.1354C>T	c.(1354-1356)CAG>TAG	p.Q452*	GALNT2_uc010pvy.1_Nonsense_Mutation_p.Q414*|GALNT2_uc010pvz.1_RNA|GALNT2_uc001htu.2_Nonsense_Mutation_p.Q64*	NM_004481	NP_004472	Q10471	GALT2_HUMAN	polypeptide N-acetylgalactosaminyltransferase 2	452	Lumenal (Potential).|Ricin B-type lectin.				immunoglobulin biosynthetic process|protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2	Breast(184;0.193)|Ovarian(103;0.249)	all_cancers(173;0.156)|Prostate(94;0.179)				GGCCTTGCAGCAGGGAACTAA	0.517													71	96	---	---	---	---	PASS	T	230401027	T	T	230401027	4	4	46	1	0	0	0	0	0	1	0	0	6213	711	25	3	1408	3	GALNT2	1	230401027	Nonsense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	733572	230401027	18849594	22	18157										
COG2	22796	broad.mit.edu	37	chr1	230810750	230810750	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cccttattttacagtgaaaaAggcaatactgttcctggata	7	8	0	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:230810750A>T	uc001htw.2	+	9	1057	c.906A>T	c.(904-906)AAA>AAT	p.K302N	COG2_uc001htx.2_Missense_Mutation_p.K302N|COG2_uc010pwc.1_Missense_Mutation_p.K175N	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	302					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				ACAGTGAAAAAGGCAATACTG	0.368													46	57	---	---	---	---	PASS	T	230810750	T	T	230810750	3	4	46	1	0	0	0	0	1	0	0	0	3658	69	3	5	940	5	COG2	1	230810750	Missense_Mutation	SNP	A	TCGA-22-5477-01A-01D-1632-08	409723	230810750	18439871	23	18158										
FMN2	56776	broad.mit.edu	37	chr1	240255883	240255883	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gctagggtcgggggccggccGatcgccgaggatgtggaaac	19	10	0	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:240255883G>A	uc010pyd.1	+	1	699	c.474G>A	c.(472-474)CCG>CCA	p.P158P	FMN2_uc010pye.1_Silent_p.P158P	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	158					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GGGGCCGGCCGATCGCCGAGG	0.667													6	10	---	---	---	---	PASS	A	240255883	A	A	240255883	2	1	46	1	0	0	0	0	0	0	0	1	5950	1045	37	2		2	FMN2	1	240255883	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	9445133	240255883	8994738	24	18159										
OR2M2	391194	broad.mit.edu	37	chr1	248343731	248343731	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ggacttatggctaccttctcCtggatcctgggctctacaga	10	12	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr1:248343731C>T	uc010pzf.1	+	1	444	c.444C>T	c.(442-444)TCC>TCT	p.S148S		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CTACCTTCTCCTGGATCCTGG	0.438													9	232	---	---	---	---	PASS	T	248343731	T	T	248343731	2	4	46	1	0	0	0	0	0	0	0	1	11010	668	24	3		3	OR2M2	1	248343731	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	8087848	248343731	906890	25	18160										
MYT1L	23040	broad.mit.edu	37	chr2	1926282	1926282	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tcatgtcgaacacctcttcaGacctgtccgagttcacagag	8	13	4	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr2:1926282G>C	uc002qxe.2	-	10	2086	c.1259C>G	c.(1258-1260)TCT>TGT	p.S420C	MYT1L_uc002qxd.2_Missense_Mutation_p.S420C|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	420					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CACCTCTTCAGACCTGTCCGA	0.572													19	34	---	---	---	---	PASS	C	1926282	C	C	1926282	3	2	46	1	0	0	0	0	1	0	0	0	10107	942	33	2	2359	2	MYT1L	2	1926282	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08		1926282	241273091	26	18161										
PUM2	23369	broad.mit.edu	37	chr2	20511297	20511297	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ccattccatttggcaaacctCtgccatttattttagaatca	4	11	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr2:20511297C>G	uc002rds.1	-	4	499	c.476G>C	c.(475-477)AGA>ACA	p.R159T	PUM2_uc002rdt.1_Missense_Mutation_p.R159T|PUM2_uc002rdr.2_Missense_Mutation_p.R98T|PUM2_uc010yjy.1_Missense_Mutation_p.R159T|PUM2_uc002rdu.1_Missense_Mutation_p.R159T|PUM2_uc010yjz.1_Missense_Mutation_p.R98T	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2	159	Interaction with SNAPIN.				regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGGCAAACCTCTGCCATTTAT	0.353													27	48	---	---	---	---	PASS	G	20511297	G	G	20511297	3	3	46	1	0	0	0	0	1	0	0	0	12826	913	32	2	2786	2	PUM2	2	20511297	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	18585015	20511297	222688076	27	18162										
CAD	790	broad.mit.edu	37	chr2	27456574	27456574	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctgagcggtgctgctatgaaTgtggcctacacggatggaga	15	8	0	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr2:27456574T>C	uc002rji.2	+	21	3459	c.3297T>C	c.(3295-3297)AAT>AAC	p.N1099N	CAD_uc010eyw.2_Silent_p.N1036N	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1099	CPSase B.|ATP-grasp 2.|CPSase (Carbamoyl-phosphate synthase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	CTGCTATGAATGTGGCCTACA	0.602													24	31	---	---	---	---	PASS	C	27456574	C	C	27456574	2	2	46	1	0	0	0	0	0	0	0	1	2565	1461	51	5		5	CAD	2	27456574	Silent	SNP	T	TCGA-22-5477-01A-01D-1632-08	6945277	27456574	215742799	28	18163										
C2orf71	388939	broad.mit.edu	37	chr2	29295660	29295660	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tttgtcttcctcctcctcctCtgggctgctgtcctcgctgt	8	16	2	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr2:29295660C>T	uc002rmt.1	-	1	1468	c.1468G>A	c.(1468-1470)GAG>AAG	p.E490K		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	490					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						TCCTCCTCCTCTGGGCTGCTG	0.527													52	70	---	---	---	---	PASS	T	29295660	T	T	29295660	3	4	46	1	0	0	0	0	1	0	0	0	2191	922	32	2	2406	2	C2orf71	2	29295660	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	1839086	29295660	213903713	29	18164										
NLRC4	58484	broad.mit.edu	37	chr2	32475940	32475940	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ggggtcttcatgagattcctCaagcacctggatttctgaat	10	9	4	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr2:32475940C>G	uc002roi.2	-	4	1239	c.993G>C	c.(991-993)TTG>TTC	p.L331F	NLRC4_uc002roj.1_Missense_Mutation_p.L331F|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	331	NACHT.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TGAGATTCCTCAAGCACCTGG	0.488													22	24	---	---	---	---	PASS	G	32475940	G	G	32475940	3	3	46	1	0	0	0	0	1	0	0	0	10469	825	29	2	2105	2	NLRC4	2	32475940	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	3180280	32475940	210723433	30	18165										
GCC2	9648	broad.mit.edu	37	chr2	109086935	109086935	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttcatgaacgggaagacttaGagtttaaaattaatgaatta	8	3	1	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr2:109086935G>C	uc002tec.2	+	6	1304	c.1150G>C	c.(1150-1152)GAG>CAG	p.E384Q	GCC2_uc002ted.2_Missense_Mutation_p.E283Q	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	384	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						GGAAGACTTAGAGTTTAAAAT	0.284													23	57	---	---	---	---	PASS	C	109086935	C	C	109086935	3	2	46	1	0	0	0	0	1	0	0	0	6286	943	33	2	1172	2	GCC2	2	109086935	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	76610995	109086935	134112438	31	18166										
DPP4	1803	broad.mit.edu	37	chr2	162865769	162865769	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	acccagccccaaattgcaatTcgtttgttgtccacaaatcc	5	14	0	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr2:162865769T>C	uc002ubz.2	-	21	2430	c.1869A>G	c.(1867-1869)CGA>CGG	p.R623R	DPP4_uc010fpb.2_Silent_p.R299R	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	623	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	AAATTGCAATTCGTTTGTTGT	0.363													35	4	---	---	---	---	PASS	C	162865769	C	C	162865769	2	2	46	1	0	0	0	0	0	0	0	1	4729	1770	62	5		5	DPP4	2	162865769	Silent	SNP	T	TCGA-22-5477-01A-01D-1632-08	53778834	162865769	80333604	32	18167										
NFE2L2	4780	broad.mit.edu	37	chr2	178098944	178098944	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gactgaagtcaaatacttctCgacttactccaagatctata	5	10	3	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr2:178098944C>T	uc002ulh.3	-	2	656	c.101G>A	c.(100-102)CGA>CAA	p.R34Q	NFE2L2_uc002ulg.3_Missense_Mutation_p.R18Q|NFE2L2_uc010zfa.1_Missense_Mutation_p.R18Q|NFE2L2_uc002uli.3_Missense_Mutation_p.R18Q|NFE2L2_uc010fra.2_Missense_Mutation_p.R18Q|NFE2L2_uc010frb.2_Missense_Mutation_p.R18Q	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	34					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			AAATACTTCTCGACTTACTCC	0.373			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			27	4	---	---	---	---	PASS	T	178098944	T	T	178098944	3	4	46	1	0	0	0	0	1	0	0	0	10368	884	31	2	1732	2	NFE2L2	2	178098944	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	15233175	178098944	65100429	33	18168										
TTC30B	150737	broad.mit.edu	37	chr2	178417117	178417117	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gaccctggcagatcgccctcGctgtacttgatagcagcttg	11	13	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr2:178417117G>T	uc002uln.2	-	1	408	c.375C>A	c.(373-375)AGC>AGA	p.S125R	TTC30B_uc010zfc.1_5'UTR	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	125					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			GATCGCCCTCGCTGTACTTGA	0.632													104	28	---	---	---	---	PASS	T	178417117	T	T	178417117	3	4	46	1	0	0	0	0	1	0	0	0	16696	1078	38	1	1626	1	TTC30B	2	178417117	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	318173	178417117	64782256	34	18169										
TTN	7273	broad.mit.edu	37	chr2	179395596	179395596	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gagatttcactcgttttggaGacttaactgcttctggggat	11	7	2	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr2:179395596G>C	uc010zfg.1	-	307	98266	c.98042C>G	c.(98041-98043)TCT>TGT	p.S32681C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S26376C|TTN_uc010zfi.1_Missense_Mutation_p.S26309C|TTN_uc010zfj.1_Missense_Mutation_p.S26184C|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33608							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)			TCGTTTTGGAGACTTAACTGC	0.493													7	65	---	---	---	---	PASS	C	179395596	C	C	179395596	3	2	46	1	0	0	0	0	1	0	0	0	16732	942	33	2	2253	2	TTN	2	179395596	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	978479	179395596	63803777	35	18170										
TTN	7273	broad.mit.edu	37	chr2	179605171	179605171	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ccctcagctaagctctgactCaagatgagcgcactttgtgc	9	13	3	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr2:179605171C>T	uc010zfh.1	-	46	12500	c.12276G>A	c.(12274-12276)TTG>TTA	p.L4092L	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Silent_p.L4025L|TTN_uc010zfj.1_Silent_p.L3900L|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	4017							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)			AGCTCTGACTCAAGATGAGCG	0.468													19	7	---	---	---	---	PASS	T	179605171	T	T	179605171	2	4	46	1	0	0	0	0	0	0	0	1	16732	825	29	2		2	TTN	2	179605171	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	209575	179605171	63594202	36	18171										
GRM7	2917	broad.mit.edu	37	chr3	6903173	6903173	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cgcgctggcggcggcggcgcGcggccaggagatgtacgccc	19	15	0	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr3:6903173G>A	uc003bqm.2	+	1	372	c.98G>A	c.(97-99)CGC>CAC	p.R33H	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.R33H|GRM7_uc003bql.2_Missense_Mutation_p.R33H	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	33					negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	GCGGCGGCGCGCGGCCAGGAG	0.692													4	0	---	---	---	---	PASS	A	6903173	A	A	6903173	3	1	46	1	0	0	0	0	1	0	0	0	6802	1087	38	1	100	1	GRM7	3	6903173	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08		6903173	191119257	37	18172										
SRGAP3	9901	broad.mit.edu	37	chr3	9101963	9101963	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tagtatttgcttatagctgcGttggtggctgccagattgag	13	6	0	2	rs143061036	byFrequency	TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr3:9101963G>C	uc003brf.1	-	6	1429	c.753C>G	c.(751-753)AAC>AAG	p.N251K	SRGAP3_uc003brg.1_Missense_Mutation_p.N251K|SRGAP3_uc003bri.1_RNA|SRGAP3_uc003brk.2_Missense_Mutation_p.N251K|SRGAP3_uc003brj.1_Missense_Mutation_p.N111K	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	251					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		TTATAGCTGCGTTGGTGGCTG	0.522			T	RAF1	pilocytic astrocytoma								35	14	---	---	---	---	PASS	C	9101963	C	C	9101963	3	2	46	1	0	0	0	0	1	0	0	0	15146	1136	40	4	2649	4	SRGAP3	3	9101963	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	2198790	9101963	188920467	38	18173										
COL7A1	1294	broad.mit.edu	37	chr3	48627135	48627135	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgagtcacatggaccgtcctCactgggcccagtgggtctag	13	12	3	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr3:48627135C>T	uc003ctz.2	-	16	2068	c.2067G>A	c.(2065-2067)GTG>GTA	p.V689V		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	689	Nonhelical region (NC1).|Fibronectin type-III 6.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GGACCGTCCTCACTGGGCCCA	0.592													26	5	---	---	---	---	PASS	T	48627135	T	T	48627135	2	4	46	1	0	0	0	0	0	0	0	1	3704	813	29	2		2	COL7A1	3	48627135	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	39525172	48627135	149395295	39	18174										
PCCB	5096	broad.mit.edu	37	chr3	136019916	136019916	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cacaattgtccctttggaatCaaccaaagcctacaacatgg	6	12	1	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr3:136019916C>T	uc003eqy.1	+	9	980	c.929C>T	c.(928-930)TCA>TTA	p.S310L	PCCB_uc003eqz.1_Missense_Mutation_p.S310L|PCCB_uc011bmc.1_Missense_Mutation_p.S330L|PCCB_uc011bmd.1_Missense_Mutation_p.S227L	NM_000532	NP_000523	P05166	PCCB_HUMAN	propionyl Coenzyme A carboxylase, beta	310	Carboxyltransferase.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|propionyl-CoA carboxylase activity				0					Biotin(DB00121)|L-Valine(DB00161)	CCTTTGGAATCAACCAAAGCC	0.458													16	54	---	---	---	---	PASS	T	136019916	T	T	136019916	3	4	46	1	0	0	0	0	1	0	0	0	11505	838	29	2	1027	2	PCCB	3	136019916	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	87392781	136019916	62002514	40	18175										
RSRC1	51319	broad.mit.edu	37	chr3	157839907	157839907	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tatagaaatgggacgtcggtCatcagatactgaagaagaaa	11	5	2	5			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr3:157839907C>A	uc003fbt.2	+	2	125	c.14C>A	c.(13-15)TCA>TAA	p.S5*	RSRC1_uc011bou.1_Nonsense_Mutation_p.S5*|RSRC1_uc003fbu.1_Nonsense_Mutation_p.S5*|RSRC1_uc003fbv.2_Nonsense_Mutation_p.S5*	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	5	Arg/Ser-rich.				nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			GGACGTCGGTCATCAGATACT	0.353													20	18	---	---	---	---	PASS	A	157839907	A	A	157839907	4	1	46	1	0	0	0	0	0	1	0	0	13714	838	29	2	16	2	RSRC1	3	157839907	Nonsense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	21819991	157839907	40182523	41	18176										
TBL1XR1	79718	broad.mit.edu	37	chr3	176769461	176769461	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgtactacatcaggcattacGgcatctatcagggacagaga	10	9	3	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr3:176769461G>A	uc003fiw.3	-	5	518	c.258C>T	c.(256-258)GCC>GCT	p.A86A	TBL1XR1_uc003fix.3_Silent_p.A86A|TBL1XR1_uc011bpz.1_5'UTR|TBL1XR1_uc003fiy.2_Silent_p.A86A	NM_024665	NP_078941	Q9BZK7	TBL1R_HUMAN	transducin (beta)-like 1 X-linked receptor 1	86	F-box-like.				canonical Wnt receptor signaling pathway|cellular lipid metabolic process|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein N-terminus binding|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(143;1.44e-17)|Ovarian(172;0.00163)|Breast(254;0.214)	Acute lymphoblastic leukemia(1;0.00599)|all_hematologic(1;0.0632)|Prostate(884;0.215)	OV - Ovarian serous cystadenocarcinoma(80;9.83e-31)			CAGGCATTACGGCATCTATCA	0.458													28	24	---	---	---	---	PASS	A	176769461	A	A	176769461	2	1	46	1	0	0	0	0	0	0	0	1	15637	1103	39	1		1	TBL1XR1	3	176769461	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	18929554	176769461	21252969	42	18177										
PEX5L	51555	broad.mit.edu	37	chr3	179537757	179537757	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcatcttatcccaaaactctGtatctgactgggagacagga	9	10	3	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr3:179537757G>A	uc003fki.1	-	9	960	c.830C>T	c.(829-831)ACA>ATA	p.T277I	PEX5L_uc011bqd.1_Missense_Mutation_p.T234I|PEX5L_uc011bqe.1_Missense_Mutation_p.T85I|PEX5L_uc011bqf.1_Missense_Mutation_p.T169I|PEX5L_uc003fkj.1_Missense_Mutation_p.T242I|PEX5L_uc010hxd.1_Missense_Mutation_p.T275I|PEX5L_uc011bqg.1_Missense_Mutation_p.T253I|PEX5L_uc011bqh.1_Missense_Mutation_p.T218I	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	277					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			CCAAAACTCTGTATCTGACTG	0.438													80	300	---	---	---	---	PASS	A	179537757	A	A	179537757	3	1	46	1	0	0	0	0	1	0	0	0	11749	1377	48	3	1078	3	PEX5L	3	179537757	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	2768296	179537757	18484673	43	18178										
GABRG1	2565	broad.mit.edu	37	chr4	46043256	46043256	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	aatcagagtggatccaggatGgagaccaggagtcatctgag	14	7	3	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr4:46043256G>T	uc003gxb.2	-	9	1299	c.1147C>A	c.(1147-1149)CAT>AAT	p.H383N		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	383	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		GATCCAGGATGGAGACCAGGA	0.388													18	19	---	---	---	---	PASS	T	46043256	T	T	46043256	3	4	46	1	0	0	0	0	1	0	0	0	6171	1348	47	3	254	3	GABRG1	4	46043256	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08		46043256	145111020	44	18179										
SGCB	6443	broad.mit.edu	37	chr4	52890291	52890291	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctgggtaggcgggtggtgctGaccatcacagatccatttag	14	9	1	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr4:52890291G>C	uc003gzj.2	-	6	849	c.789C>G	c.(787-789)GTC>GTG	p.V263V	SGCB_uc011bzp.1_Silent_p.V193V	NM_000232	NP_000223	Q16585	SGCB_HUMAN	sarcoglycan, beta	263	Extracellular (Potential).|Cys-rich.				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma					0			GBM - Glioblastoma multiforme(4;7.63e-12)|LUSC - Lung squamous cell carcinoma(32;0.00204)			GGGTGGTGCTGACCATCACAG	0.468													18	23	---	---	---	---	PASS	C	52890291	C	C	52890291	2	2	46	1	0	0	0	0	0	0	0	1	14200	1277	45	2		2	SGCB	4	52890291	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	6847035	52890291	138263985	45	18180										
KDR	3791	broad.mit.edu	37	chr4	55974034	55974034	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ggaatccacaggagagattaGagatttctcaccaatctggg	11	8	2	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr4:55974034G>C	uc003has.2	-	10	1584	c.1282C>G	c.(1282-1284)CTA>GTA	p.L428V	KDR_uc003hat.1_Missense_Mutation_p.L428V|KDR_uc011bzx.1_Missense_Mutation_p.L428V	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	428	Ig-like C2-type 5.|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)	GGAGAGATTAGAGATTTCTCA	0.458			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			21	40	---	---	---	---	PASS	C	55974034	C	C	55974034	3	2	46	1	0	0	0	0	1	0	0	0	8139	933	33	2	2872	2	KDR	4	55974034	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	3083743	55974034	135180242	46	18181										
SRP72	6731	broad.mit.edu	37	chr4	57335839	57335839	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tactacagatcaacaaagatGacgtaactgccctgcattgt	7	10	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr4:57335839G>C	uc003hbv.2	+	2	170	c.130G>C	c.(130-132)GAC>CAC	p.D44H	SRP72_uc010ihe.2_Missense_Mutation_p.D44H	NM_006947	NP_008878	O76094	SRP72_HUMAN	signal recognition particle 72kDa	44	TPR 1.				response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|nucleolus|plasma membrane|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding			ovary(1)	1	Glioma(25;0.08)|all_neural(26;0.101)					CAACAAAGATGACGTAACTGC	0.358													8	86	---	---	---	---	PASS	C	57335839	C	C	57335839	3	2	46	1	0	0	0	0	1	0	0	0	15156	1290	45	2	136	2	SRP72	4	57335839	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	1361805	57335839	133818437	47	18182										
GC	2638	broad.mit.edu	37	chr4	72620739	72620739	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gtcttcaacatcacagcattCaccaaggctttttagggttg	8	10	4	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr4:72620739C>T	uc003hge.2	-	9	1273	c.1120G>A	c.(1120-1122)GAA>AAA	p.E374K	GC_uc003hgd.2_Missense_Mutation_p.E252K|GC_uc010iie.2_Missense_Mutation_p.E374K|GC_uc010iif.2_Missense_Mutation_p.E393K	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	374	Albumin 2.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	TCACAGCATTCACCAAGGCTT	0.353													27	33	---	---	---	---	PASS	T	72620739	T	T	72620739	3	4	46	1	0	0	0	0	1	0	0	0	6282	835	29	2	320	2	GC	4	72620739	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	15284900	72620739	118533537	48	18183										
GK2	2712	broad.mit.edu	37	chr4	80328221	80328221	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgagtgaggccacagagtatCcctcttgcactgggctccca	11	13	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr4:80328221C>G	uc003hlu.2	-	1	1152	c.1134G>C	c.(1132-1134)GGG>GGC	p.G378G		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	378					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						CACAGAGTATCCCTCTTGCAC	0.423													26	66	---	---	---	---	PASS	G	80328221	G	G	80328221	2	3	46	1	0	0	0	0	0	0	0	1	6421	842	30	2		2	GK2	4	80328221	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	7707482	80328221	110826055	49	18184										
FAT4	79633	broad.mit.edu	37	chr4	126355451	126355451	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	caacgtcatagtagatgatgTcaatgacaatgtccccacat	7	10	2	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr4:126355451T>A	uc003ifj.3	+	7	7070	c.7070T>A	c.(7069-7071)GTC>GAC	p.V2357D	FAT4_uc011cgp.1_Missense_Mutation_p.V655D	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2357	Extracellular (Potential).|Cadherin 22.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GTAGATGATGTCAATGACAAT	0.373													27	59	---	---	---	---	PASS	A	126355451	A	A	126355451	3	1	46	1	0	0	0	0	1	0	0	0	5692	1667	58	5	7096	5	FAT4	4	126355451	Missense_Mutation	SNP	T	TCGA-22-5477-01A-01D-1632-08	46027230	126355451	64798825	50	18185										
LRBA	987	broad.mit.edu	37	chr4	151765298	151765298	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gccgattaatatccatgtccTgtagaagcctgtcaagatct	8	10	2	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr4:151765298T>C	uc010ipj.2	-	28	4997	c.4523A>G	c.(4522-4524)CAG>CGG	p.Q1508R	LRBA_uc003ilt.3_Missense_Mutation_p.Q167R|LRBA_uc003ilu.3_Missense_Mutation_p.Q1508R	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1508						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					ATCCATGTCCTGTAGAAGCCT	0.333													47	55	---	---	---	---	PASS	C	151765298	C	C	151765298	3	2	46	1	0	0	0	0	1	0	0	0	8931	1580	55	5	4192	5	LRBA	4	151765298	Missense_Mutation	SNP	T	TCGA-22-5477-01A-01D-1632-08	25409847	151765298	39388978	51	18186										
VEGFC	7424	broad.mit.edu	37	chr4	177650746	177650746	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttatagtctcttctgtccttGagttgaggttggcctgttct	10	8	3	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr4:177650746G>C	uc003ius.1	-	2	732	c.302C>G	c.(301-303)TCA>TGA	p.S101*		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	101					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		TTCTGTCCTTGAGTTGAGGTT	0.373													15	43	---	---	---	---	PASS	C	177650746	C	C	177650746	4	2	46	1	0	0	0	0	0	1	0	0	17149	1294	45	2	984	2	VEGFC	4	177650746	Nonsense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	25885448	177650746	13503530	52	18187										
DAP	1611	broad.mit.edu	37	chr5	10748327	10748327	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gtcatccttgtctttctcttCtttggtgtctcctgtatgtg	8	10	5	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr5:10748327C>G	uc003jez.3	-	2	319	c.112G>C	c.(112-114)GAA>CAA	p.E38Q	DAP_uc011cmw.1_Missense_Mutation_p.E38Q	NM_004394	NP_004385	P51397	DAP1_HUMAN	death-associated protein	38					activation of caspase activity|cellular response to amino acid starvation|induction of apoptosis by extracellular signals|negative regulation of autophagy|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent		death domain binding				0		Ovarian(839;1.34e-05)|Breast(839;0.0634)|Lung NSC(810;0.0804)				TCTTTCTCTTCTTTGGTGTCT	0.458													25	62	---	---	---	---	PASS	G	10748327	G	G	10748327	3	3	46	1	0	0	0	0	1	0	0	0	4233	922	32	2	208	2	DAP	5	10748327	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08		10748327	170166933	53	18188										
RICTOR	253260	broad.mit.edu	37	chr5	38950055	38950055	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgctttaagggactgtgctcTtctaggaagcgtatgagaag	13	6	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr5:38950055T>C	uc003jlp.2	-	31	3919	c.3895A>G	c.(3895-3897)AGA>GGA	p.R1299G	RICTOR_uc003jlo.2_Missense_Mutation_p.R1299G|RICTOR_uc010ivf.2_Missense_Mutation_p.R1014G	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	1299					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					GACTGTGCTCTTCTAGGAAGC	0.438													17	164	---	---	---	---	PASS	C	38950055	C	C	38950055	3	2	46	1	0	0	0	0	1	0	0	0	13358	1617	56	5	1263	5	RICTOR	5	38950055	Missense_Mutation	SNP	T	TCGA-22-5477-01A-01D-1632-08	28201728	38950055	141965205	54	18189										
PCDHB11	56125	broad.mit.edu	37	chr5	140580260	140580260	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctggagaaattactttaagaGcacctctggattttgaaacg	9	7	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr5:140580260G>A	uc003liy.2	+	1	913	c.913G>A	c.(913-915)GCA>ACA	p.A305T	PCDHB11_uc011daj.1_5'UTR	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	305	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TACTTTAAGAGCACCTCTGGA	0.363													32	19	---	---	---	---	PASS	A	140580260	A	A	140580260	3	1	46	1	0	0	0	0	1	0	0	0	11536	971	34	3	915	3	PCDHB11	5	140580260	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	101630205	140580260	40335000	55	18190										
FAF2	23197	broad.mit.edu	37	chr5	175933902	175933902	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ccctacgctacaggaggccgGactcagccacacagaagttc	10	15	1	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr5:175933902G>C	uc003mej.3	+	11	1342	c.1289G>C	c.(1288-1290)GGA>GCA	p.G430A		NM_014613	NP_055428	Q96CS3	FAF2_HUMAN	UBX domain containing 8	430	UBX.				response to unfolded protein	endoplasmic reticulum|lipid particle	protein binding			ovary(1)	1						CAGGAGGCCGGACTCAGCCAC	0.512													3	46	---	---	---	---	PASS	C	175933902	C	C	175933902	3	2	46	1	0	0	0	0	1	0	0	0	5370	1174	41	2	1331	2	FAF2	5	175933902	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	35353642	175933902	4981358	56	18191										
SQSTM1	8878	broad.mit.edu	37	chr5	179249985	179249985	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cggggacttggttgccttttCcagtgacgaggaattgacaa	13	8	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr5:179249985C>T	uc003mkw.3	+	2	328	c.233C>T	c.(232-234)TCC>TTC	p.S78F	SQSTM1_uc011dgr.1_5'UTR|SQSTM1_uc011dgs.1_5'UTR|SQSTM1_uc003mkv.3_Missense_Mutation_p.S78F|SQSTM1_uc003mkx.2_5'UTR	NM_003900	NP_003891	Q13501	SQSTM_HUMAN	sequestosome 1 isoform 1	78	OPR.|Interaction with PRKCZ and dimerization (By similarity).|Interaction with PAWR.				anti-apoptosis|apoptosis|cell differentiation|endosome transport|induction of apoptosis by extracellular signals|intracellular signal transduction|macroautophagy|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein localization|regulation of I-kappaB kinase/NF-kappaB cascade|ubiquitin-dependent protein catabolic process	cytosol|late endosome|nucleoplasm	protein kinase C binding|receptor tyrosine kinase binding|SH2 domain binding|ubiquitin binding|zinc ion binding		SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(89;0.000205)|all_epithelial(37;7.15e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0395)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTTGCCTTTTCCAGTGACGAG	0.517									Paget_Disease_of_Bone				13	2	---	---	---	---	PASS	T	179249985	T	T	179249985	3	4	46	1	0	0	0	0	1	0	0	0	15129	855	30	2	239	2	SQSTM1	5	179249985	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	3316083	179249985	1665275	57	18192										
DST	667	broad.mit.edu	37	chr6	56341132	56341132	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	atgttgctttgcccaggccaGcacctgtcagagaaacagaa	10	11	1	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr6:56341132G>C	uc003pdf.2	-	86	15350	c.15322C>G	c.(15322-15324)CTG>GTG	p.L5108V	DST_uc003pcz.3_Missense_Mutation_p.L4930V|DST_uc011dxj.1_Missense_Mutation_p.L4959V|DST_uc011dxk.1_Missense_Mutation_p.L4970V|DST_uc003pcy.3_Missense_Mutation_p.L4604V	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	7016	Spectrin 20.				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)			GCCCAGGCCAGCACCTGTCAG	0.383													5	6	---	---	---	---	PASS	C	56341132	C	C	56341132	3	2	46	1	0	0	0	0	1	0	0	0	4783	962	34	4	1753	4	DST	6	56341132	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08		56341132	114773935	58	18193										
COL12A1	1303	broad.mit.edu	37	chr6	75892986	75892986	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	agttttatcgcaggatctctGaaagcatctgatgatttccc	8	9	2	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr6:75892986G>A	uc003phs.2	-	10	1837	c.1671C>T	c.(1669-1671)TTC>TTT	p.F557F	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_Silent_p.F215F	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	557	VWFA 2.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CAGGATCTCTGAAAGCATCTG	0.428													71	97	---	---	---	---	PASS	A	75892986	A	A	75892986	2	1	46	1	0	0	0	0	0	0	0	1	3669	1281	45	2		2	COL12A1	6	75892986	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	19551854	75892986	95222081	59	18194										
EPHA7	2045	broad.mit.edu	37	chr6	94120288	94120288	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tccaatgggcactaaccattCtccttctgcactgcagtgca	7	14	2	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr6:94120288C>T	uc003poe.2	-	3	1004	c.763G>A	c.(763-765)GAA>AAA	p.E255K	EPHA7_uc003pof.2_Missense_Mutation_p.E255K|EPHA7_uc011eac.1_Missense_Mutation_p.E255K|EPHA7_uc003pog.3_Missense_Mutation_p.E255K	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	255	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		ACTAACCATTCTCCTTCTGCA	0.463													24	38	---	---	---	---	PASS	T	94120288	T	T	94120288	3	4	46	1	0	0	0	0	1	0	0	0	5172	922	32	2	2293	2	EPHA7	6	94120288	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	18227302	94120288	76994779	60	18195										
LAMA2	3908	broad.mit.edu	37	chr6	129714246	129714246	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gtttggagagtcccggggggAaaatgaagaaatggagaagg	18	3	0	4	rs141950826		TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr6:129714246A>G	uc003qbn.2	+	37	5396	c.5291A>G	c.(5290-5292)GAA>GGA	p.E1764G	LAMA2_uc003qbo.2_Missense_Mutation_p.E1764G	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1764	Domain II and I.|Potential.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TCCCGGGGGGAAAATGAAGAA	0.453													25	28	---	---	---	---	PASS	G	129714246	G	G	129714246	3	3	46	1	0	0	0	0	1	0	0	0	8606	246	9	5	5437	5	LAMA2	6	129714246	Missense_Mutation	SNP	A	TCGA-22-5477-01A-01D-1632-08	35593958	129714246	41400821	61	18196										
BCLAF1	9774	broad.mit.edu	37	chr6	136589359	136589359	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gtattctttcatttcatggtGagttttaaattcttcttctc	5	7	6	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr6:136589359G>A	uc003qgx.1	-	10	2591	c.2338C>T	c.(2338-2340)CAC>TAC	p.H780Y	BCLAF1_uc011edb.1_Missense_Mutation_p.H108Y|BCLAF1_uc003qgw.1_Missense_Mutation_p.H607Y|BCLAF1_uc003qgy.1_Missense_Mutation_p.H778Y|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.H778Y	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	780					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		ATTTCATGGTGAGTTTTAAAT	0.388													34	108	---	---	---	---	PASS	A	136589359	A	A	136589359	3	1	46	1	0	0	0	0	1	0	0	0	1383	1290	45	2	440	2	BCLAF1	6	136589359	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	6875113	136589359	34525708	62	18197										
AKAP12	9590	broad.mit.edu	37	chr6	151670166	151670166	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	agggagcagcaggggctggcGaccacaaggaccccagcctt	15	13	0	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr6:151670166G>A	uc011eep.1	+	4	880	c.640G>A	c.(640-642)GAC>AAC	p.D214N	AKAP12_uc003qoe.2_Missense_Mutation_p.D214N|AKAP12_uc003qof.2_Missense_Mutation_p.D116N|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.D109N	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	214					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		AGGGGCTGGCGACCACAAGGA	0.517													33	37	---	---	---	---	PASS	A	151670166	A	A	151670166	3	1	46	1	0	0	0	0	1	0	0	0	448	1058	37	2	679	2	AKAP12	6	151670166	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	15080807	151670166	19444901	63	18198										
CDK13	8621	broad.mit.edu	37	chr7	40134111	40134111	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	agcaatgatggtctaggaagCagttctgctccaccactaga	10	10	2	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr7:40134111C>T	uc003thh.3	+	14	4353	c.4071C>T	c.(4069-4071)AGC>AGT	p.S1357S	CDK13_uc003thi.3_Silent_p.S1297S|CDK13_uc003thj.2_Silent_p.S408S|CDK13_uc003thk.2_Silent_p.S290S	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	1357					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						GTCTAGGAAGCAGTTCTGCTC	0.433													47	88	---	---	---	---	PASS	T	40134111	T	T	40134111	2	4	46	1	0	0	0	0	0	0	0	1	3129	709	25	3		3	CDK13	7	40134111	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08		40134111	119004552	64	18199										
ZAN	7455	broad.mit.edu	37	chr7	100348836	100348836	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gggcatccagggaagcaacaCggcctctgtggttgctatgg	15	10	1	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr7:100348836C>T	uc003uwj.2	+	13	1718	c.1553C>T	c.(1552-1554)ACG>ATG	p.T518M	ZAN_uc003uwk.2_Missense_Mutation_p.T518M|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	518	MAM 3.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GGAAGCAACACGGCCTCTGTG	0.517													11	21	---	---	---	---	PASS	T	100348836	T	T	100348836	3	4	46	1	0	0	0	0	1	0	0	0	17510	536	19	1	1599	1	ZAN	7	100348836	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	60214725	100348836	58789827	65	18200										
COG5	10466	broad.mit.edu	37	chr7	107204283	107204283	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cccggactgtagctgcagccGctccagagcctcgagctccg	12	17	0	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr7:107204283G>T	uc003ved.2	-	1	677	c.152C>A	c.(151-153)GCG>GAG	p.A51E	COG5_uc003vec.2_Missense_Mutation_p.A51E|COG5_uc003vee.2_Missense_Mutation_p.A51E|DUS4L_uc003veg.2_5'Flank|DUS4L_uc003veh.2_5'Flank|DUS4L_uc011klw.1_5'Flank|DUS4L_uc011klx.1_5'Flank	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	51					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						AGCTGCAGCCGCTCCAGAGCC	0.662													17	26	---	---	---	---	PASS	T	107204283	T	T	107204283	3	4	46	1	0	0	0	0	1	0	0	0	3661	1087	38	1	2522	1	COG5	7	107204283	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	6855447	107204283	51934380	66	18201										
TAS2R16	50833	broad.mit.edu	37	chr7	122635238	122635238	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	catggtgagtaactgaatttGaatgtaattcccaatagctg	9	6	0	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr7:122635238G>C	uc003vkl.1	-	1	517	c.451C>G	c.(451-453)CAA>GAA	p.Q151E		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	151	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						AACTGAATTTGAATGTAATTC	0.398													17	54	---	---	---	---	PASS	C	122635238	C	C	122635238	3	2	46	1	0	0	0	0	1	0	0	0	15566	1299	45	2	428	2	TAS2R16	7	122635238	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	15430955	122635238	36503425	67	18202										
C7orf45	136263	broad.mit.edu	37	chr7	129856090	129856090	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgaaagtgaacaccacccatCaccagacagtattaagagga	8	10	1	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr7:129856090C>T	uc003vpp.2	+	3	562	c.515C>T	c.(514-516)TCA>TTA	p.S172L		NM_145268	NP_660311	Q8WWF3	CG045_HUMAN	hypothetical protein LOC136263	172						integral to membrane					0	Melanoma(18;0.0435)					CACCACCCATCACCAGACAGT	0.478													27	36	---	---	---	---	PASS	T	129856090	T	T	129856090	3	4	46	1	0	0	0	0	1	0	0	0	2395	838	29	2	525	2	C7orf45	7	129856090	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	7220852	129856090	29282573	68	18203										
TRIM24	8805	broad.mit.edu	37	chr7	138265404	138265404	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	actcagaaaaaaagaaaactGaaggccttgttaagttaaca	7	6	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr7:138265404G>A	uc003vuc.2	+	16	2898	c.2683G>A	c.(2683-2685)GAA>AAA	p.E895K	TRIM24_uc003vub.2_Missense_Mutation_p.E861K	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	895	Nuclear localization signal (Potential).				cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						AAAGAAAACTGAAGGCCTTGT	0.373													45	65	---	---	---	---	PASS	A	138265404	A	A	138265404	3	1	46	1	0	0	0	0	1	0	0	0	16495	1291	45	2	2745	2	TRIM24	7	138265404	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	8409314	138265404	20873259	69	18204										
DENND2A	27147	broad.mit.edu	37	chr7	140301990	140301990	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cggcagataatcctcctgtcCgtctgctctcctgctgggtg	11	14	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr7:140301990C>T	uc010lnj.2	-	1	353	c.208G>A	c.(208-210)GGA>AGA	p.G70R	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.G70R|DENND2A_uc003vvw.2_Missense_Mutation_p.G70R|DENND2A_uc003vvx.2_Missense_Mutation_p.G70R	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	70										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					TCCTCCTGTCCGTCTGCTCTC	0.547													69	63	---	---	---	---	PASS	T	140301990	T	T	140301990	3	4	46	1	0	0	0	0	1	0	0	0	4429	661	23	1	2893	1	DENND2A	7	140301990	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	2036586	140301990	18836673	70	18205										
TAS2R41	259287	broad.mit.edu	37	chr7	143175246	143175246	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	acactggcacttcctgaactCagccaccttctggttttgca	7	14	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr7:143175246C>T	uc003wdc.1	+	1	281	c.281C>T	c.(280-282)TCA>TTA	p.S94L	uc003wda.2_Intron	NM_176883	NP_795364	P59536	T2R41_HUMAN	taste receptor, type 2, member 41	94	Helical; Name=3; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			pancreas(1)|skin(1)	2	Melanoma(164;0.15)					TTCCTGAACTCAGCCACCTTC	0.537													28	38	---	---	---	---	PASS	T	143175246	T	T	143175246	3	4	46	1	0	0	0	0	1	0	0	0	15576	838	29	2	283	2	TAS2R41	7	143175246	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	2873256	143175246	15963417	71	18206										
MYST3	7994	broad.mit.edu	37	chr8	41834781	41834781	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgatgctgattggctggaaaGagtgatttttcgtttcctac	11	6	0	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr8:41834781G>A	uc010lxb.2	-	8	1652	c.1108C>T	c.(1108-1110)CTT>TTT	p.L370F	MYST3_uc010lxc.2_Missense_Mutation_p.L370F|MYST3_uc003xon.3_Missense_Mutation_p.L370F|MYST3_uc010lxd.2_Missense_Mutation_p.L370F	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	370	Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			TGGCTGGAAAGAGTGATTTTT	0.418													36	44	---	---	---	---	PASS	A	41834781	A	A	41834781	3	1	46	1	0	0	0	0	1	0	0	0	10104	942	33	2	4950	2	MYST3	8	41834781	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08		41834781	104529241	72	18207										
PRKDC	5591	broad.mit.edu	37	chr8	48711773	48711773	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttttaattttcaattcacctGatgcattctcttcctccttg	3	11	3	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr8:48711773G>C	uc003xqi.2	-	73	10352	c.10295C>G	c.(10294-10296)TCA>TGA	p.S3432*	PRKDC_uc003xqj.2_Nonsense_Mutation_p.S3432*|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3432	FAT.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CAATTCACCTGATGCATTCTC	0.433								NHEJ					18	30	---	---	---	---	PASS	C	48711773	C	C	48711773	4	2	46	1	0	0	0	0	0	1	0	0	12521	1294	45	2	2151	2	PRKDC	8	48711773	Nonsense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	6876992	48711773	97652249	73	18208										
PXDNL	137902	broad.mit.edu	37	chr8	52233370	52233370	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	aatgcagtgagtgcagtcttCtttcatccagcgctcctcgg	10	12	3	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr8:52233370C>T	uc003xqu.3	-	22	4335	c.4234G>A	c.(4234-4236)GAA>AAA	p.E1412K	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1412	VWFC.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GTGCAGTCTTCTTTCATCCAG	0.512													43	50	---	---	---	---	PASS	T	52233370	T	T	52233370	3	4	46	1	0	0	0	0	1	0	0	0	12848	922	32	2	165	2	PXDNL	8	52233370	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	3521597	52233370	94130652	74	18209										
NPBWR1	2831	broad.mit.edu	37	chr8	53852511	53852511	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gccctggcccgccaacgcatCgggcccggacccggcgctga	14	19	0	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr8:53852511C>T	uc011ldu.1	+	1	44	c.44C>T	c.(43-45)TCG>TTG	p.S15L		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	15	Extracellular (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				GCCAACGCATCGGGCCCGGAC	0.711													3	8	---	---	---	---	PASS	T	53852511	T	T	53852511	3	4	46	1	0	0	0	0	1	0	0	0	10568	893	31	2	46	2	NPBWR1	8	53852511	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	1619141	53852511	92511511	75	18210										
RP1	6101	broad.mit.edu	37	chr8	55538285	55538285	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tttcagcagatgcaacccatTtttcaagtaataactctgga	6	9	3	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr8:55538285T>A	uc003xsd.1	+	4	1991	c.1843T>A	c.(1843-1845)TTT>ATT	p.F615I	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	615					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TGCAACCCATTTTTCAAGTAA	0.373													6	71	---	---	---	---	PASS	A	55538285	A	A	55538285	3	1	46	1	0	0	0	0	1	0	0	0	13532	1841	64	5	1853	5	RP1	8	55538285	Missense_Mutation	SNP	T	TCGA-22-5477-01A-01D-1632-08	1685774	55538285	90825737	76	18211										
CHD7	55636	broad.mit.edu	37	chr8	61655054	61655054	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ccaatgctgtaggattcccaTcaaacagtggtcaaggacta	9	10	2	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr8:61655054T>C	uc003xue.2	+	2	1540	c.1063T>C	c.(1063-1065)TCA>CCA	p.S355P		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	355					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)			AGGATTCCCATCAAACAGTGG	0.438													19	47	---	---	---	---	PASS	C	61655054	C	C	61655054	3	2	46	1	0	0	0	0	1	0	0	0	3330	1435	50	5	1065	5	CHD7	8	61655054	Missense_Mutation	SNP	T	TCGA-22-5477-01A-01D-1632-08	6116769	61655054	84708968	77	18212										
ZFHX4	79776	broad.mit.edu	37	chr8	77745601	77745601	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctcattgggagccaggacttGtgatgatgatcttacagagc	12	8	2	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr8:77745601G>C	uc003yav.2	+	5	3662	c.3275G>C	c.(3274-3276)TGT>TCT	p.C1092S	ZFHX4_uc003yau.1_Missense_Mutation_p.C1118S|ZFHX4_uc003yaw.1_Missense_Mutation_p.C1092S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1092						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GCCAGGACTTGTGATGATGAT	0.423										HNSCC(33;0.089)			13	6	---	---	---	---	PASS	C	77745601	C	C	77745601	3	2	46	1	0	0	0	0	1	0	0	0	17632	1377	48	4	3367	4	ZFHX4	8	77745601	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	16090547	77745601	68618421	78	18213										
PTK2	5747	broad.mit.edu	37	chr8	141716272	141716272	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctgggataaaatccttcgctGgacctcggactgggataacc	11	11	0	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr8:141716272G>A	uc003yvu.2	-	24	2405	c.2175C>T	c.(2173-2175)TCC>TCT	p.S725S	PTK2_uc011ljp.1_Silent_p.S33S|PTK2_uc003yvo.2_Silent_p.S353S|PTK2_uc011ljq.1_Silent_p.S420S|PTK2_uc003yvp.2_Silent_p.S393S|PTK2_uc003yvq.2_Silent_p.S251S|PTK2_uc003yvr.2_Silent_p.S665S|PTK2_uc003yvs.2_Silent_p.S725S|PTK2_uc003yvt.2_Silent_p.S747S|PTK2_uc003yvv.2_Silent_p.S625S|PTK2_uc011ljr.1_Silent_p.S725S	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	725	Pro-rich.|Interaction with TGFB1I1.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			ATCCTTCGCTGGACCTCGGAC	0.403													27	27	---	---	---	---	PASS	A	141716272	A	A	141716272	2	1	46	1	0	0	0	0	0	0	0	1	12762	1335	47	3		3	PTK2	8	141716272	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	63970671	141716272	4647750	79	18214										
BAI1	575	broad.mit.edu	37	chr8	143623493	143623493	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gctatcccggcgggcccctgCccgacttccccaaccactca	8	21	1	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr8:143623493C>T	uc003ywm.2	+	27	4081	c.3898C>T	c.(3898-3900)CCC>TCC	p.P1300S		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1300	Cytoplasmic (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CGGGCCCCTGCCCGACTTCCC	0.652													8	18	---	---	---	---	PASS	T	143623493	T	T	143623493	3	4	46	1	0	0	0	0	1	0	0	0	1298	739	26	3	4004	3	BAI1	8	143623493	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	1907221	143623493	2740529	80	18215										
PLEC	5339	broad.mit.edu	37	chr8	145009237	145009237	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcatggcgtcatacagcgacGagacgtaggtgatgatggac	15	8	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr8:145009237G>A	uc003zaf.1	-	8	1348	c.1178C>T	c.(1177-1179)TCG>TTG	p.S393L	PLEC_uc003zab.1_Missense_Mutation_p.S256L|PLEC_uc003zac.1_Missense_Mutation_p.S260L|PLEC_uc003zad.2_Missense_Mutation_p.S256L|PLEC_uc003zae.1_Missense_Mutation_p.S224L|PLEC_uc003zag.1_Missense_Mutation_p.S234L|PLEC_uc003zah.2_Missense_Mutation_p.S242L|PLEC_uc003zaj.2_Missense_Mutation_p.S283L	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	393	CH 2.|Globular 1.|Actin-binding.				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						ATACAGCGACGAGACGTAGGT	0.687													34	57	---	---	---	---	PASS	A	145009237	A	A	145009237	3	1	46	1	0	0	0	0	1	0	0	0	12052	1059	37	2	12976	2	PLEC	8	145009237	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	1385744	145009237	1354785	81	18216										
CDKN2A	1029	broad.mit.edu	37	chr9	21971036	21971036	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gggcagacggccccaggcatCgcgcacgtccagccgcgccc	14	19	0	1	rs121913381		TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr9:21971036C>A	uc003zpk.2	-	2	534	c.322G>T	c.(322-324)GAT>TAT	p.D108Y	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.R163L	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	108			D -> Y (in a head and neck tumor).|D -> H (in a bladder tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.D108Y(14)|p.?(13)|p.D108H(9)|p.D108N(5)|p.H83fs*2(2)|p.D105fs*8(1)|p.A68fs*3(1)|p.R107fs*33(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCCCAGGCATCGCGCACGTCC	0.741		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			19	2	---	---	---	---	PASS	A	21971036	A	A	21971036	3	1	46	1	0	0	0	0	1	0	0	0	3161	884	31	2	156	2	CDKN2A	9	21971036	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08		21971036	119242395	82	18217										
HIATL1	84641	broad.mit.edu	37	chr9	97207434	97207434	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ccggtttcctggggagctcaGatttcttggaaacaagcaga	12	9	2	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr9:97207434G>A	uc004aur.2	+	6	968	c.699G>A	c.(697-699)CAG>CAA	p.Q233Q	HIATL1_uc011luh.1_Silent_p.Q168Q	NM_032558	NP_115947	Q5SR56	HIAL1_HUMAN	hippocampus abundant transcript-like 1	233	Extracellular (Potential).				transmembrane transport	integral to membrane|plasma membrane	protein binding|transporter activity			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				GGGGAGCTCAGATTTCTTGGA	0.423													10	18	---	---	---	---	PASS	A	97207434	A	A	97207434	2	1	46	1	0	0	0	0	0	0	0	1	7098	933	33	2		2	HIATL1	9	97207434	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	75236398	97207434	44005997	83	18218										
OR13C9	286362	broad.mit.edu	37	chr9	107379799	107379799	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttgcttctcccctcagaggaGtgaatcttgaggatgctgga	12	9	3	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr9:107379799G>C	uc011lvr.1	-	1	687	c.687C>G	c.(685-687)CAC>CAG	p.H229Q		NM_001001956	NP_001001956	Q8NGT0	O13C9_HUMAN	olfactory receptor, family 13, subfamily C,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCTCAGAGGAGTGAATCTTGA	0.433													30	41	---	---	---	---	PASS	C	107379799	C	C	107379799	3	2	46	1	0	0	0	0	1	0	0	0	10939	1020	36	4	272	4	OR13C9	9	107379799	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	10172365	107379799	33833632	84	18219										
ZNF462	58499	broad.mit.edu	37	chr9	109688263	109688263	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cctctagatttgtcacccgtGaagaagagaaccaggattga	10	9	2	5	rs147884090		TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr9:109688263G>A	uc004bcz.2	+	3	2359	c.2070G>A	c.(2068-2070)GTG>GTA	p.V690V	ZNF462_uc010mto.2_Silent_p.V538V|ZNF462_uc004bda.2_Silent_p.V538V	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	690					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						TGTCACCCGTGAAGAAGAGAA	0.433													61	93	---	---	---	---	PASS	A	109688263	A	A	109688263	2	1	46	1	0	0	0	0	0	0	0	1	17923	1277	45	2		2	ZNF462	9	109688263	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	2308464	109688263	31525168	85	18220										
C9orf91	203197	broad.mit.edu	37	chr9	117400911	117400911	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cggaggggcctgagaacttgGaggatgctcctctcctgccc	14	13	1	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr9:117400911G>A	uc004bjd.3	+	8	971	c.754G>A	c.(754-756)GAG>AAG	p.E252K	C9orf91_uc004bje.3_Missense_Mutation_p.E231K|C9orf91_uc004bjf.3_Missense_Mutation_p.E151K	NM_153045	NP_694590	Q5VZI3	CI091_HUMAN	hypothetical protein LOC203197	252						integral to membrane				pancreas(1)	1						TGAGAACTTGGAGGATGCTCC	0.557													23	28	---	---	---	---	PASS	A	117400911	A	A	117400911	3	1	46	1	0	0	0	0	1	0	0	0	2505	1175	41	2	780	2	C9orf91	9	117400911	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	7712648	117400911	23812520	86	18221										
TNC	3371	broad.mit.edu	37	chr9	117827085	117827085	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgcctccaccttgttggcctCctgcacctgaatgataaagt	8	13	0	2	rs141417605		TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr9:117827085C>T	uc004bjj.3	-	11	3690	c.3328G>A	c.(3328-3330)GAG>AAG	p.E1110K	TNC_uc010mvf.2_Missense_Mutation_p.E1110K	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1110	Fibronectin type-III 6.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TTGTTGGCCTCCTGCACCTGA	0.592													17	70	---	---	---	---	PASS	T	117827085	T	T	117827085	3	4	46	1	0	0	0	0	1	0	0	0	16267	864	30	2	3349	2	TNC	9	117827085	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	426174	117827085	23386346	87	18222										
RABEPK	10244	broad.mit.edu	37	chr9	127995969	127995969	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tttccctccccaacatagaaGagcagcattggaccttgctt	7	13	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr9:127995969G>C	uc004bpi.2	+	9	1002	c.829G>C	c.(829-831)GAG>CAG	p.E277Q	RABEPK_uc004bpj.2_Missense_Mutation_p.E226Q|RABEPK_uc004bpk.2_Missense_Mutation_p.E277Q|RABEPK_uc004bpl.1_3'UTR|RABEPK_uc004bpm.2_Missense_Mutation_p.E277Q	NM_005833	NP_005824	Q7Z6M1	RABEK_HUMAN	Rab9 effector protein with kelch motifs	277	Kelch 5.				receptor-mediated endocytosis|vesicle docking involved in exocytosis	endosome membrane|plasma membrane				ovary(1)	1						CAACATAGAAGAGCAGCATTG	0.328													73	118	---	---	---	---	PASS	C	127995969	C	C	127995969	3	2	46	1	0	0	0	0	1	0	0	0	12963	943	33	2	855	2	RABEPK	9	127995969	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	10168884	127995969	13217462	88	18223										
LAMC3	10319	broad.mit.edu	37	chr9	133927932	133927932	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcagcccctcatactgacctTccgggtgccccccggggact	11	18	1	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr9:133927932T>C	uc004caa.1	+	10	1783	c.1685T>C	c.(1684-1686)TTC>TCC	p.F562S		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	562	Laminin IV type A.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		ATACTGACCTTCCGGGTGCCC	0.597											OREG0019556	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	65	---	---	---	---	PASS	C	133927932	C	C	133927932	3	2	46	1	0	0	0	0	1	0	0	0	8616	1783	62	5	1723	5	LAMC3	9	133927932	Missense_Mutation	SNP	T	TCGA-22-5477-01A-01D-1632-08	5931963	133927932	7285499	89	18224										
PMPCA	23203	broad.mit.edu	37	chr9	139311436	139311436	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	agaacacagttggcctccacCgtttctgccccacagaaaac	7	15	1	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr9:139311436C>T	uc004chl.2	+	7	672	c.667C>T	c.(667-669)CGT>TGT	p.R223C	PMPCA_uc010nbl.2_Missense_Mutation_p.R123C|PMPCA_uc011mdz.1_Missense_Mutation_p.R92C|PMPCA_uc004chm.1_5'UTR|PMPCA_uc004chn.1_5'Flank	NM_015160	NP_055975	Q10713	MPPA_HUMAN	peptidase (mitochondrial processing) alpha	223					proteolysis	mitochondrial inner membrane|mitochondrial matrix	metalloendopeptidase activity|zinc ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;9.3e-06)|Epithelial(140;1.15e-05)		TGGCCTCCACCGTTTCTGCCC	0.562													10	11	---	---	---	---	PASS	T	139311436	T	T	139311436	3	4	46	1	0	0	0	0	1	0	0	0	12140	652	23	1	693	1	PMPCA	9	139311436	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	5383504	139311436	1901995	90	18225										
ENTPD2	954	broad.mit.edu	37	chr9	139946697	139946697	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cctcacctggaacatcacagGagctgtgctggcccacaatg	10	14	2	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr9:139946697G>C	uc004ckw.1	-	2	277	c.221C>G	c.(220-222)TCC>TGC	p.S74C	ENTPD2_uc004ckv.1_5'Flank|ENTPD2_uc004ckx.1_Missense_Mutation_p.S74C	NM_203468	NP_982293	Q9Y5L3	ENTP2_HUMAN	ectonucleoside triphosphate diphosphohydrolase 2	74	Extracellular (Potential).					integral to membrane	ATP binding				0	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		AACATCACAGGAGCTGTGCTG	0.607													37	32	---	---	---	---	PASS	C	139946697	C	C	139946697	3	2	46	1	0	0	0	0	1	0	0	0	5139	1174	41	2	1298	2	ENTPD2	9	139946697	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	635261	139946697	1266734	91	18226										
PNPLA7	375775	broad.mit.edu	37	chr9	140437924	140437924	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cagaacttccgatggcaggtGagaattcttcacgtcaaact	9	10	3	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr9:140437924G>A	uc004cnf.2	-	5	728	c.391C>T	c.(391-393)CAC>TAC	p.H131Y	PNPLA7_uc010ncj.1_Missense_Mutation_p.H156Y	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	131					lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		GATGGCAGGTGAGAATTCTTC	0.612													34	42	---	---	---	---	PASS	A	140437924	A	A	140437924	3	1	46	1	0	0	0	0	1	0	0	0	12170	1290	45	2	3682	2	PNPLA7	9	140437924	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	491227	140437924	775507	92	18227										
EHMT1	79813	broad.mit.edu	37	chr9	140611570	140611570	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	agaggacaggaagctcccggCccctggcgccgacgtcaagg	15	14	1	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr9:140611570C>A	uc011mfc.1	+	3	615	c.578C>A	c.(577-579)GCC>GAC	p.A193D	EHMT1_uc004coa.2_Missense_Mutation_p.A193D|EHMT1_uc004cob.1_Missense_Mutation_p.A162D	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	193					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		AAGCTCCCGGCCCCTGGCGCC	0.622													13	39	---	---	---	---	PASS	A	140611570	A	A	140611570	3	1	46	1	0	0	0	0	1	0	0	0	4983	739	26	3	588	3	EHMT1	9	140611570	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	173646	140611570	601861	93	18228										
ADARB2	105	broad.mit.edu	37	chr10	1405757	1405757	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gacctgagtgccagctccgcCgcgcgcatcttggccttctt	11	16	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr10:1405757C>A	uc009xhq.2	-	3	917	c.543G>T	c.(541-543)GCG>GCT	p.A181A		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	181	DRBM 1.				mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		CCAGCTCCGCCGCGCGCATCT	0.607													12	2	---	---	---	---	PASS	A	1405757	A	A	1405757	2	1	46	1	0	0	0	0	0	0	0	1	283	639	23	1		1	ADARB2	10	1405757	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08		1405757	134128990	94	18229										
USP6NL	9712	broad.mit.edu	37	chr10	11504812	11504812	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cccgaatatcccccagcaccAgtgtcaacagggaggacttc	9	15	1	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr10:11504812A>T	uc001ikt.3	-	15	2436	c.2115T>A	c.(2113-2115)ACT>ACA	p.T705T	USP6NL_uc001iks.1_Silent_p.T722T	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	705						intracellular	Rab GTPase activator activity				0						CCCCAGCACCAGTGTCAACAG	0.493													8	7	---	---	---	---	PASS	T	11504812	T	T	11504812	2	4	46	1	0	0	0	0	0	0	0	1	17084	175	7	5		5	USP6NL	10	11504812	Silent	SNP	A	TCGA-22-5477-01A-01D-1632-08	10099055	11504812	124029935	95	18230										
ABI1	10006	broad.mit.edu	37	chr10	27040691	27040691	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	catctggtggaggtggtggcGgtggagttggactatcagca	18	6	2	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr10:27040691G>A	uc001isx.2	-	11	1354	c.1187C>T	c.(1186-1188)CCG>CTG	p.P396L	ABI1_uc001ite.2_Missense_Mutation_p.P334L|ABI1_uc010qdh.1_Missense_Mutation_p.P276L|ABI1_uc010qdi.1_Missense_Mutation_p.P217L|ABI1_uc001isy.2_Missense_Mutation_p.P369L|ABI1_uc001ita.2_Missense_Mutation_p.P340L|ABI1_uc001isz.2_Missense_Mutation_p.P364L|ABI1_uc001itb.2_Missense_Mutation_p.P384L|ABI1_uc001itc.2_Missense_Mutation_p.P368L|ABI1_uc010qdj.1_Missense_Mutation_p.P310L|ABI1_uc001itd.2_Missense_Mutation_p.P339L|ABI1_uc010qdk.1_Missense_Mutation_p.P281L|ABI1_uc010qdg.1_Missense_Mutation_p.P206L	NM_005470	NP_005461	Q8IZP0	ABI1_HUMAN	abl-interactor 1 isoform a	396	Pro-rich.				actin polymerization or depolymerization|cellular component movement|negative regulation of cell proliferation|peptidyl-tyrosine phosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	cell junction|cytoskeleton|cytosol|endoplasmic reticulum|filopodium|growth cone|lamellipodium|nucleus|soluble fraction|synapse|synaptosome	cytoskeletal protein binding			central_nervous_system(1)	1						AGGTGGTGGCGGTGGAGTTGG	0.418													4	5	---	---	---	---	PASS	A	27040691	A	A	27040691	3	1	46	1	0	0	0	0	1	0	0	0	88	1116	39	1	347	1	ABI1	10	27040691	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	15535879	27040691	108494056	96	18231										
ZNF37A	7587	broad.mit.edu	37	chr10	38403713	38403713	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cgtttagggatgtgactgtgGgcttcactcaagaggagtgg	16	6	2	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr10:38403713G>T	uc001izk.2	+	6	865	c.46G>T	c.(46-48)GGC>TGC	p.G16C	ZNF37A_uc001izl.2_Missense_Mutation_p.G16C|ZNF37A_uc001izm.2_Missense_Mutation_p.G16C	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	16	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						TGTGACTGTGGGCTTCACTCA	0.478													37	37	---	---	---	---	PASS	T	38403713	T	T	38403713	3	4	46	1	0	0	0	0	1	0	0	0	17869	1232	43	3	52	3	ZNF37A	10	38403713	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	11363022	38403713	97131034	97	18232										
ZNF33B	7582	broad.mit.edu	37	chr10	43088334	43088334	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cattcatagggtttctccccCgtgtgctttctctcatgtaa	7	12	4	0	rs149979023		TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr10:43088334C>G	uc001jaf.1	-	5	2179	c.2064G>C	c.(2062-2064)ACG>ACC	p.T688T	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Silent_p.T576T|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	688						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GTTTCTCCCCCGTGTGCTTTC	0.408													20	80	---	---	---	---	PASS	G	43088334	G	G	43088334	2	3	46	1	0	0	0	0	0	0	0	1	17852	639	23	4		4	ZNF33B	10	43088334	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	4684621	43088334	92446413	98	18233										
SLIT1	6585	broad.mit.edu	37	chr10	98823308	98823308	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gaagagcccgatggttggccGctgcctcagccactgcgaga	14	13	1	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr10:98823308G>C	uc001kmw.2	-	8	949	c.697C>G	c.(697-699)CGG>GGG	p.R233G	SLIT1_uc009xvh.1_Missense_Mutation_p.R233G	NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	233	LRRCT 1.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		ATGGTTGGCCGCTGCCTCAGC	0.632													12	1	---	---	---	---	PASS	C	98823308	C	C	98823308	3	2	46	1	0	0	0	0	1	0	0	0	14739	1086	38	4	4027	4	SLIT1	10	98823308	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	55734974	98823308	36711439	99	18234										
SORCS1	114815	broad.mit.edu	37	chr10	108448054	108448054	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gaaagtcttcacttggttgtCaatcttcttgttagccaaga	8	8	5	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr10:108448054C>A	uc001kym.2	-	10	1464	c.1456G>T	c.(1456-1458)GAC>TAC	p.D486Y	SORCS1_uc001kyl.2_Missense_Mutation_p.D486Y|SORCS1_uc009xxs.2_Missense_Mutation_p.D486Y|SORCS1_uc001kyn.1_Missense_Mutation_p.D486Y|SORCS1_uc001kyo.2_Missense_Mutation_p.D486Y	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	486	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		ACTTGGTTGTCAATCTTCTTG	0.448													24	6	---	---	---	---	PASS	A	108448054	A	A	108448054	3	1	46	1	0	0	0	0	1	0	0	0	14930	826	29	2	2352	2	SORCS1	10	108448054	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	9624746	108448054	27086693	100	18235										
KNDC1	85442	broad.mit.edu	37	chr10	135012363	135012363	+	Frame_Shift_Del	DEL	C	-	-													0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tcccggctctccagtccccgCcccgcccacgaaggcatctg							TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr10:135012363delC	uc001llz.1	+	14	2352	c.2351delC	c.(2350-2352)GCCfs	p.A784fs	KNDC1_uc001lma.1_Frame_Shift_Del_p.A719fs|KNDC1_uc001lmb.1_Frame_Shift_Del_p.A196fs	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	784	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		CCAGTCCCCGCCCCGCCCACG	0.726													4	2	---	---	---	---		-	135012363	-	-	135012363	7	5	46	1	0	1	0	1	0	0	0	0	8426	739	26	0	2405	0	KNDC1	10	135012363	Frame_Shift_Del	DEL	C	TCGA-22-5477-01A-01D-1632-08	26564309	135012363	522384	101	18236										
CHID1	66005	broad.mit.edu	37	chr11	904721	904721	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cttaccttctccagcagcgtCtttgaggcggcttttttggc	10	12	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr11:904721C>A	uc001lsl.2	-	2	257	c.96G>T	c.(94-96)AAG>AAT	p.K32N	CHID1_uc010qwu.1_Missense_Mutation_p.K62N|CHID1_uc010qwv.1_Missense_Mutation_p.K93N|CHID1_uc001lsn.2_Missense_Mutation_p.K32N|CHID1_uc001lsm.2_Missense_Mutation_p.K32N|CHID1_uc001lso.2_Missense_Mutation_p.K32N|CHID1_uc001lsp.2_Missense_Mutation_p.K32N|CHID1_uc010qww.1_Missense_Mutation_p.K32N	NM_023947	NP_076436	Q9BWS9	CHID1_HUMAN	chitinase domain containing 1 isoform a	32					chitin catabolic process|innate immune response	extracellular region|lysosome	cation binding|chitinase activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.48e-25)|Epithelial(43;3.75e-24)|BRCA - Breast invasive adenocarcinoma(625;4.65e-05)|Lung(200;0.0624)|LUSC - Lung squamous cell carcinoma(625;0.0735)		CCAGCAGCGTCTTTGAGGCGG	0.567													26	7	---	---	---	---	PASS	A	904721	A	A	904721	3	1	46	1	0	0	0	0	1	0	0	0	3345	912	32	2	1212	2	CHID1	11	904721	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08		904721	134101795	102	18237										
RNF141	50862	broad.mit.edu	37	chr11	10546918	10546918	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	acaatgccactgcttttgttAatctaaaaatacaaagaaca	4	8	1	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr11:10546918A>C	uc001mis.1	-	4	408	c.255T>G	c.(253-255)ATT>ATG	p.I85M	RNF141_uc009yga.1_RNA|RNF141_uc001mit.1_Missense_Mutation_p.I85M	NM_016422	NP_057506	Q8WVD5	RN141_HUMAN	ring finger protein 141	85							zinc ion binding				0				all cancers(16;4.63e-08)|Epithelial(150;1.38e-07)|BRCA - Breast invasive adenocarcinoma(625;0.064)		TGCTTTTGTTAATCTAAAAAT	0.338													4	19	---	---	---	---	PASS	C	10546918	C	C	10546918	3	2	46	1	0	0	0	0	1	0	0	0	13444	358	13	5	449	5	RNF141	11	10546918	Missense_Mutation	SNP	A	TCGA-22-5477-01A-01D-1632-08	9642197	10546918	124459598	103	18238										
DBX1	120237	broad.mit.edu	37	chr11	20181580	20181580	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tcgctggcaggggagaaggcAgtcggcggagagccgccccg	19	12	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr11:20181580A>C	uc001mpw.1	-	1	291	c.291T>G	c.(289-291)ACT>ACG	p.T97T		NM_001029865	NP_001025036	A6NMT0	DBX1_HUMAN	developing brain homeobox 1	97					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGGAGAAGGCAGTCGGCGGAG	0.706													3	1	---	---	---	---	PASS	C	20181580	C	C	20181580	2	2	46	1	0	0	0	0	0	0	0	1	4259	175	7	5		5	DBX1	11	20181580	Silent	SNP	A	TCGA-22-5477-01A-01D-1632-08	9634662	20181580	114824936	104	18239										
CRY2	1408	broad.mit.edu	37	chr11	45891638	45891638	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gctcctggatgcagatttcaGcgtgaacgcaggcagctgga	14	10	1	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr11:45891638G>T	uc010rgn.1	+	8	1314	c.1292G>T	c.(1291-1293)AGC>ATC	p.S431I	CRY2_uc009ykw.2_Missense_Mutation_p.S349I|CRY2_uc010rgo.1_Missense_Mutation_p.S153I	NM_021117	NP_066940	Q49AN0	CRY2_HUMAN	cryptochrome 2 (photolyase-like) isoform 1	410	FAD-binding.|Required for inhibition of CLOCK-ARNTL- mediated transcription (By similarity).				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	blue light photoreceptor activity|damaged DNA binding|DNA photolyase activity|nucleotide binding|protein binding|single-stranded DNA binding			central_nervous_system(1)	1						GCAGATTTCAGCGTGAACGCA	0.562													3	51	---	---	---	---	PASS	T	45891638	T	T	45891638	3	4	46	1	0	0	0	0	1	0	0	0	3904	971	34	3	1358	3	CRY2	11	45891638	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	25710058	45891638	89114878	105	18240										
OR4S2	219431	broad.mit.edu	37	chr11	55418397	55418397	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tccatggaaaaaataaacaaCgtaactgaattcattttctg	5	7	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr11:55418397C>A	uc001nhs.1	+	1	18	c.18C>A	c.(16-18)AAC>AAA	p.N6K		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				AAATAAACAACGTAACTGAAT	0.313													14	62	---	---	---	---	PASS	A	55418397	A	A	55418397	3	1	46	1	0	0	0	0	1	0	0	0	11083	535	19	1	20	1	OR4S2	11	55418397	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	9526759	55418397	79588119	106	18241										
OR5F1	338674	broad.mit.edu	37	chr11	55761490	55761490	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	agagtccccacaatattcacAccagccaaaatagaacttat	4	12	1	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr11:55761490A>T	uc010riv.1	-	1	612	c.612T>A	c.(610-612)GGT>GGA	p.G204G		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					CAATATTCACACCAGCCAAAA	0.463													12	17	---	---	---	---	PASS	T	55761490	T	T	55761490	2	4	46	1	0	0	0	0	0	0	0	1	11158	146	6	5		5	OR5F1	11	55761490	Silent	SNP	A	TCGA-22-5477-01A-01D-1632-08	343093	55761490	79245026	107	18242										
AHNAK	79026	broad.mit.edu	37	chr11	62294836	62294836	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ggcatgtcagcatctaatttGggacctttgacatccaattc	8	10	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr11:62294836G>T	uc001ntl.2	-	5	7353	c.7053C>A	c.(7051-7053)CCC>CCA	p.P2351P	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2351					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CATCTAATTTGGGACCTTTGA	0.433													42	102	---	---	---	---	PASS	T	62294836	T	T	62294836	2	4	46	1	0	0	0	0	0	0	0	1	414	1335	47	3		3	AHNAK	11	62294836	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	6533346	62294836	72711680	108	18243										
HRASLS5	117245	broad.mit.edu	37	chr11	63233629	63233629	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gaggccattgacaaagtgctCacagttcccttcaatcaggc	9	12	3	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr11:63233629C>T	uc001nwy.2	-	5	874	c.700G>A	c.(700-702)GAG>AAG	p.E234K	HRASLS5_uc001nwz.2_Missense_Mutation_p.E224K|HRASLS5_uc010rmq.1_Intron|HRASLS5_uc009yos.2_RNA	NM_054108	NP_473449	Q96KN8	HRSL5_HUMAN	HRAS-like suppressor family, member 5 isoform 1	234										ovary(1)	1						ACAAAGTGCTCACAGTTCCCT	0.517													27	25	---	---	---	---	PASS	T	63233629	T	T	63233629	3	4	46	1	0	0	0	0	1	0	0	0	7351	835	29	2	147	2	HRASLS5	11	63233629	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	938793	63233629	71772887	109	18244										
FRMD8	83786	broad.mit.edu	37	chr11	65167257	65167257	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gccggcccaaggctttttgcAccggggtgggcgcaagccag	16	13	0	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr11:65167257A>G	uc001odu.3	+	8	1046	c.854A>G	c.(853-855)CAC>CGC	p.H285R	FRMD8_uc009yqj.2_Missense_Mutation_p.H229R|FRMD8_uc010rof.1_Missense_Mutation_p.H251R	NM_031904	NP_114110	Q9BZ67	FRMD8_HUMAN	FERM domain containing 8	285	FERM.					cytoskeleton	binding			lung(1)|pancreas(1)	2						GGCTTTTTGCACCGGGGTGGG	0.627													12	27	---	---	---	---	PASS	G	65167257	G	G	65167257	3	3	46	1	0	0	0	0	1	0	0	0	6056	159	6	5	880	5	FRMD8	11	65167257	Missense_Mutation	SNP	A	TCGA-22-5477-01A-01D-1632-08	1933628	65167257	69839259	110	18245										
PCNXL3	399909	broad.mit.edu	37	chr11	65392009	65392009	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	caggtcaacacctgcctcatGtacctgctggagcaaataga	9	12	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr11:65392009G>C	uc001oey.2	+	15	2784	c.2784G>C	c.(2782-2784)ATG>ATC	p.M928I	PCNXL3_uc009yqn.2_5'Flank|PCNXL3_uc001oez.2_5'Flank	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	928						integral to membrane					0						CCTGCCTCATGTACCTGCTGG	0.642													2	1	---	---	---	---	PASS	C	65392009	C	C	65392009	3	2	46	1	0	0	0	0	1	0	0	0	11593	1377	48	4	2842	4	PCNXL3	11	65392009	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	224752	65392009	69614507	111	18246										
SLC6A12	6539	broad.mit.edu	37	chr12	302493	302493	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ggagatcttcaccaggggccAtggccggtagccaatcatgt	13	11	3	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:302493A>G	uc001qhz.2	-	15	2023	c.1480T>C	c.(1480-1482)TGG>CGG	p.W494R	SLC6A12_uc001qhx.2_Missense_Mutation_p.W151R|SLC6A12_uc001qhy.2_Missense_Mutation_p.W50R|SLC6A12_uc001qia.2_Missense_Mutation_p.W494R|SLC6A12_uc001qib.2_Missense_Mutation_p.W494R|SLC6A12_uc009zdh.1_Missense_Mutation_p.W494R	NM_003044	NP_003035	P48065	S6A12_HUMAN	solute carrier family 6 (neurotransmitter	494					cellular nitrogen compound metabolic process|neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(10;0.0172)|all_epithelial(11;0.0283)|all_lung(10;0.0392)|Lung NSC(10;0.0567)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00227)			ACCAGGGGCCATGGCCGGTAG	0.592													85	47	---	---	---	---	PASS	G	302493	G	G	302493	3	3	46	1	0	0	0	0	1	0	0	0	14675	217	8	5	376	5	SLC6A12	12	302493	Missense_Mutation	SNP	A	TCGA-22-5477-01A-01D-1632-08		302493	133549402	112	18247										
SLC6A13	6540	broad.mit.edu	37	chr12	344277	344277	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tggggatcccacagacgcgtGaggtttgggtacaggtaaaa	15	7	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:344277G>C	uc001qic.1	-	7	863	c.810C>G	c.(808-810)CTC>CTG	p.L270L	SLC6A13_uc009zdj.1_Silent_p.L270L|SLC6A13_uc010sdl.1_Silent_p.L178L|SLC6A13_uc010sdm.1_Silent_p.L151L	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	270					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			ACAGACGCGTGAGGTTTGGGT	0.572													11	102	---	---	---	---	PASS	C	344277	C	C	344277	2	2	46	1	0	0	0	0	0	0	0	1	14676	1277	45	2		2	SLC6A13	12	344277	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	41784	344277	133507618	113	18248										
FAM90A1	55138	broad.mit.edu	37	chr12	8374448	8374448	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tcagaatcgctgtcctctgaGgaggagggaacctgaaggtc	14	9	2	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:8374448G>C	uc001qui.2	-	7	1924	c.1365C>G	c.(1363-1365)TCC>TCG	p.S455S	FAM90A1_uc001quh.2_Silent_p.S455S	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	455							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		TGTCCTCTGAGGAGGAGGGAA	0.607													6	117	---	---	---	---	PASS	C	8374448	C	C	8374448	2	2	46	1	0	0	0	0	0	0	0	1	5650	987	35	4		4	FAM90A1	12	8374448	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	8030171	8374448	125477447	114	18249										
A2ML1	144568	broad.mit.edu	37	chr12	8994045	8994045	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tatggcacaaatggaaccttCaaccagaccctggttactga	8	11	1	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:8994045C>T	uc001quz.3	+	11	1259	c.1161C>T	c.(1159-1161)TTC>TTT	p.F387F	A2ML1_uc001qva.1_5'Flank	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	231						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						ATGGAACCTTCAACCAGACCC	0.463													97	63	---	---	---	---	PASS	T	8994045	T	T	8994045	2	4	46	1	0	0	0	0	0	0	0	1	5	825	29	2		2	A2ML1	12	8994045	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	619597	8994045	124857850	115	18250										
KLRC3	3823	broad.mit.edu	37	chr12	10569292	10569292	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttgaaagccaaaccatttatTgtcacccatggatgatgact	7	9	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:10569292T>A	uc001qyf.2	-	5	606	c.561A>T	c.(559-561)ACA>ACT	p.T187T	KLRC3_uc001qyh.2_Silent_p.T187T|KLRC3_uc001qyi.1_Silent_p.T187T	NM_002261	NP_002252	Q07444	NKG2E_HUMAN	killer cell lectin-like receptor subfamily C,	187	C-type lectin.|Extracellular (Potential).				cellular defense response	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|skin(1)	3						AACCATTTATTGTCACCCATG	0.303													26	75	---	---	---	---	PASS	A	10569292	A	A	10569292	2	1	46	1	0	0	0	0	0	0	0	1	8417	1799	63	5		5	KLRC3	12	10569292	Silent	SNP	T	TCGA-22-5477-01A-01D-1632-08	1575247	10569292	123282603	116	18251										
ETV6	2120	broad.mit.edu	37	chr12	11992157	11992157	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	agttttctttaaggccaattGacagcaacacgtttgaaatg	8	7	1	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:11992157G>A	uc001qzz.2	+	3	521	c.247G>A	c.(247-249)GAC>AAC	p.D83N		NM_001987	NP_001978	P41212	ETV6_HUMAN	ets variant 6	83	PNT.					cytoplasm|nucleolus	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		ETV6/NTRK3(234)|ETV6/JAK2(11)	soft_tissue(85)|kidney(66)|breast(55)|salivary_gland(26)|haematopoietic_and_lymphoid_tissue(13)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)|pancreas(1)	250		all_cancers(2;1.88e-12)|Acute lymphoblastic leukemia(2;6.91e-39)|all_hematologic(2;2.7e-36)				AAGGCCAATTGACAGCAACAC	0.488			T	NTRK3|RUNX1|PDGFRB|ABL1|MN1|ABL2|FACL6|CHIC2|ARNT|JAK2|EVI1|CDX2|STL|HLXB9|MDS2|PER1|SYK|TTL|FGFR3|PAX5	congenital fibrosarcoma|multiple leukemia and lymphoma| secretory breast|MDS|ALL								60	42	---	---	---	---	PASS	A	11992157	A	A	11992157	3	1	46	1	0	0	0	0	1	0	0	0	5283	1290	45	2	257	2	ETV6	12	11992157	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	1422865	11992157	121859738	117	18252										
PDE3A	5139	broad.mit.edu	37	chr12	20807117	20807117	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcaccaaatgaagaggaaacCtgtgaaaataatgaatctcc	8	8	1	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:20807117C>A	uc001reh.1	+	15	3184	c.3162C>A	c.(3160-3162)ACC>ACA	p.T1054T		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	1054	Catalytic (By similarity).				lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	AAGAGGAAACCTGTGAAAATA	0.398													4	75	---	---	---	---	PASS	A	20807117	A	A	20807117	2	1	46	1	0	0	0	0	0	0	0	1	11637	668	24	3		3	PDE3A	12	20807117	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	8814960	20807117	113044778	118	18253										
LRRK2	120892	broad.mit.edu	37	chr12	40728879	40728879	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcctccaagggttccttggaTcgcctgcttcagcaggacaa	11	13	1	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:40728879T>C	uc001rmg.3	+	40	5989	c.5868T>C	c.(5866-5868)GAT>GAC	p.D1956D	LRRK2_uc009zjw.2_Silent_p.D794D|LRRK2_uc001rmi.2_Silent_p.D789D	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1956	Protein kinase.				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)				GTTCCTTGGATCGCCTGCTTC	0.527													13	102	---	---	---	---	PASS	C	40728879	C	C	40728879	2	2	46	1	0	0	0	0	0	0	0	1	9033	1432	50	5		5	LRRK2	12	40728879	Silent	SNP	T	TCGA-22-5477-01A-01D-1632-08	19921762	40728879	93123016	119	18254										
PRICKLE1	144165	broad.mit.edu	37	chr12	42858569	42858569	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctgaaagaggcttttatcacCaaacttgaggaggagctgcg	12	8	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:42858569C>G	uc010skv.1	-	7	1554	c.1267G>C	c.(1267-1269)GGT>CGT	p.G423R	PRICKLE1_uc001rnl.2_Missense_Mutation_p.G423R|PRICKLE1_uc010skw.1_Missense_Mutation_p.G423R|PRICKLE1_uc001rnm.2_Missense_Mutation_p.G423R	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	423					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		CTTTTATCACCAAACTTGAGG	0.433													13	57	---	---	---	---	PASS	G	42858569	G	G	42858569	3	3	46	1	0	0	0	0	1	0	0	0	12486	594	21	4	1236	4	PRICKLE1	12	42858569	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	2129690	42858569	90993326	120	18255										
MLL2	8085	broad.mit.edu	37	chr12	49434376	49434376	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gggcagagcacagcagctctCagggggcggaggttggggcc	20	10	1	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:49434376C>A	uc001rta.3	-	31	7177	c.7177G>T	c.(7177-7179)GAG>TAG	p.E2393*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2393	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CAGCAGCTCTCAGGGGGCGGA	0.632			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			18	6	---	---	---	---	PASS	A	49434376	A	A	49434376	4	1	46	1	0	0	0	0	0	1	0	0	9621	835	29	2	9532	2	MLL2	12	49434376	Nonsense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	6575807	49434376	84417519	121	18256										
LRP1	4035	broad.mit.edu	37	chr12	57600359	57600359	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	caggcattccagggtgacgaGagtgtccgcattgatgctat	13	9	0	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:57600359G>C	uc001snd.2	+	76	12160	c.11694G>C	c.(11692-11694)GAG>GAC	p.E3898D		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3898	Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	AGGGTGACGAGAGTGTCCGCA	0.587													7	42	---	---	---	---	PASS	C	57600359	C	C	57600359	3	2	46	1	0	0	0	0	1	0	0	0	8951	933	33	2	11996	2	LRP1	12	57600359	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	8165983	57600359	76251536	122	18257										
ALX1	8092	broad.mit.edu	37	chr12	85695041	85695041	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	caccttattctcactcgcctCggacagattccagttacacg	6	15	1	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:85695041C>G	uc001tae.3	+	4	773	c.769C>G	c.(769-771)CGG>GGG	p.R257G		NM_006982	NP_008913	Q15699	ALX1_HUMAN	cartilage paired-class homeoprotein 1	257					brain development|cartilage condensation|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(134;0.134)		TCACTCGCCTCGGACAGATTC	0.483													31	33	---	---	---	---	PASS	G	85695041	G	G	85695041	3	3	46	1	0	0	0	0	1	0	0	0	556	875	31	2	783	2	ALX1	12	85695041	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	28094682	85695041	48156854	123	18258										
STAB2	55576	broad.mit.edu	37	chr12	104156178	104156178	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	caatcggcttccagcattttGaggtaagagagaaaaatggg	12	6	0	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:104156178G>A	uc001tjw.2	+	67	7672	c.7486G>A	c.(7486-7488)GAG>AAG	p.E2496K	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2496	Cytoplasmic (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CCAGCATTTTGAGGTAAGAGA	0.527													10	28	---	---	---	---	PASS	A	104156178	A	A	104156178	3	1	46	1	0	0	0	0	1	0	0	0	15237	1291	45	2	7752	2	STAB2	12	104156178	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	18461137	104156178	29695717	124	18259										
NUAK1	9891	broad.mit.edu	37	chr12	106461045	106461045	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gaggttaccctggctgggtcCggggggctgggggaggggat	23	7	0	0	rs138538652	byFrequency	TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:106461045C>A	uc001tlj.1	-	7	2901	c.1521G>T	c.(1519-1521)CCG>CCT	p.P507P		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	507							ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						TGGCTGGGTCCGGGGGGCTGG	0.602													34	18	---	---	---	---	PASS	A	106461045	A	A	106461045	2	1	46	1	0	0	0	0	0	0	0	1	10712	639	23	1		1	NUAK1	12	106461045	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	2304867	106461045	27390850	125	18260										
UBE3B	89910	broad.mit.edu	37	chr12	109949053	109949053	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ccaagaactcgacagggacaGaaaacgggcacagttgatcc	11	11	0	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:109949053G>A	uc001top.2	+	18	2504	c.1901G>A	c.(1900-1902)AGA>AAA	p.R634K	UBE3B_uc001toq.2_Missense_Mutation_p.R634K|UBE3B_uc001tos.2_Missense_Mutation_p.R61K|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.R634K	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	634					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						GACAGGGACAGAAAACGGGCA	0.483													10	23	---	---	---	---	PASS	A	109949053	A	A	109949053	3	1	46	1	0	0	0	0	1	0	0	0	16877	942	33	2	1963	2	UBE3B	12	109949053	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	3488008	109949053	23902842	126	18261										
C12orf65	91574	broad.mit.edu	37	chr12	123741366	123741366	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	attatctcttacagtgccatCagacaagatcagttgatcag	7	9	4	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:123741366C>G	uc001uen.2	+	3	555	c.289C>G	c.(289-291)CAG>GAG	p.Q97E	C12orf65_uc001ueo.2_RNA|C12orf65_uc010tan.1_Missense_Mutation_p.Q97E	NM_152269	NP_689482	Q9H3J6	CL065_HUMAN	hypothetical protein LOC91574	97						mitochondrion	translation release factor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000595)|Epithelial(86;0.00199)		ACAGTGCCATCAGACAAGATC	0.234													24	25	---	---	---	---	PASS	G	123741366	G	G	123741366	3	3	46	1	0	0	0	0	1	0	0	0	1708	827	29	2	295	2	C12orf65	12	123741366	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	13792313	123741366	10110529	127	18262										
TMEM132B	114795	broad.mit.edu	37	chr12	126128684	126128684	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	atgaagagcaaagtggacacGattgtgaacttcacccacca	9	10	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr12:126128684G>C	uc001uhe.1	+	6	1493	c.1485G>C	c.(1483-1485)ACG>ACC	p.T495T	TMEM132B_uc001uhf.1_Silent_p.T7T	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	495	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		AAGTGGACACGATTGTGAACT	0.502													21	42	---	---	---	---	PASS	C	126128684	C	C	126128684	2	2	46	1	0	0	0	0	0	0	0	1	16043	1045	37	2		2	TMEM132B	12	126128684	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	2387318	126128684	7723211	128	18263										
CENPJ	55835	broad.mit.edu	37	chr13	25466857	25466857	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tccaggcatccagtcggaatCtttccatcacttttatttct	5	12	3	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr13:25466857C>G	uc001upt.3	-	10	3393	c.3140G>C	c.(3139-3141)AGA>ACA	p.R1047T	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA|CENPJ_uc001upu.2_Missense_Mutation_p.R81T	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	1047					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		CAGTCGGAATCTTTCCATCAC	0.512													29	50	---	---	---	---	PASS	G	25466857	G	G	25466857	3	3	46	1	0	0	0	0	1	0	0	0	3234	913	32	2	908	2	CENPJ	13	25466857	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08		25466857	89703021	129	18264										
CENPJ	55835	broad.mit.edu	37	chr13	25466876	25466876	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tctttccatcacttttatttCttcccggaggtctgtgttct	6	11	5	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr13:25466876C>G	uc001upt.3	-	10	3374	c.3121G>C	c.(3121-3123)GAA>CAA	p.E1041Q	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA|CENPJ_uc001upu.2_Missense_Mutation_p.E75Q	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	1041					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		ACTTTTATTTCTTCCCGGAGG	0.473													33	48	---	---	---	---	PASS	G	25466876	G	G	25466876	3	3	46	1	0	0	0	0	1	0	0	0	3234	922	32	2	927	2	CENPJ	13	25466876	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	19	25466876	89703002	130	18265										
KL	9365	broad.mit.edu	37	chr13	33591349	33591349	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gggcgcctggcccccggcatCcggggcagcccgcggctcgg	18	18	0	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr13:33591349C>G	uc001uus.2	+	1	779	c.771C>G	c.(769-771)ATC>ATG	p.I257M	KL_uc001uur.1_Intron	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	257	Glycosyl hydrolase-1 1.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		CCCCCGGCATCCGGGGCAGCC	0.716													4	4	---	---	---	---	PASS	G	33591349	G	G	33591349	3	3	46	1	0	0	0	0	1	0	0	0	8331	845	30	2	773	2	KL	13	33591349	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	8124473	33591349	81578529	131	18266										
KBTBD6	89890	broad.mit.edu	37	chr13	41704624	41704624	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cctgttgatcctgtgcatttCactgaggcgctacacgcacc	9	14	1	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr13:41704624C>T	uc001uxu.1	-	1	2313	c.2024G>A	c.(2023-2025)TGA>TAA	p.*675*	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Silent_p.*609*|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	675							protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		CTGTGCATTTCACTGAGGCGC	0.388													6	14	---	---	---	---	PASS	T	41704624	T	T	41704624	2	4	46	1	0	0	0	0	0	0	0	1	7997	837	29	2		2	KBTBD6	13	41704624	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	8113275	41704624	73465254	132	18267										
PCDH8	5100	broad.mit.edu	37	chr13	53422512	53422512	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gccactgagagcacccagcaGaggctgaagagctgcaaggg	15	11	0	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr13:53422512G>T	uc001vhi.2	-	1	263	c.60C>A	c.(58-60)CTC>CTA	p.L20L	PCDH8_uc001vhj.2_Silent_p.L20L	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	20					cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GCACCCAGCAGAGGCTGAAGA	0.622													17	26	---	---	---	---	PASS	T	53422512	T	T	53422512	2	4	46	1	0	0	0	0	0	0	0	1	11517	929	33	2		2	PCDH8	13	53422512	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	11717888	53422512	61747366	133	18268										
TDRD3	81550	broad.mit.edu	37	chr13	61084796	61084796	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcagggggcgaataagatctGaagatgaagaggacctggga	17	5	1	5			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr13:61084796G>C	uc001via.2	+	10	1557	c.769G>C	c.(769-771)GAA>CAA	p.E257Q	TDRD3_uc010aef.2_Missense_Mutation_p.E82Q|TDRD3_uc001vhz.3_Missense_Mutation_p.E257Q|TDRD3_uc010aeg.2_Missense_Mutation_p.E350Q|TDRD3_uc001vib.3_Missense_Mutation_p.E256Q	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	257					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		AATAAGATCTGAAGATGAAGA	0.368													13	17	---	---	---	---	PASS	C	61084796	C	C	61084796	3	2	46	1	0	0	0	0	1	0	0	0	15729	1291	45	2	1086	2	TDRD3	13	61084796	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	7662284	61084796	54085082	134	18269										
KTN1	3895	broad.mit.edu	37	chr14	56096779	56096779	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gtatttcaaaacaaaatacaTgtcagttatcaagagactca	5	7	4	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr14:56096779T>C	uc001xcb.2	+	8	1487	c.1185T>C	c.(1183-1185)CAT>CAC	p.H395H	KTN1_uc001xce.2_Silent_p.H395H|KTN1_uc001xcc.2_Silent_p.H395H|KTN1_uc001xcd.2_Silent_p.H395H|KTN1_uc010trb.1_Silent_p.H395H|KTN1_uc001xcf.1_Silent_p.H395H	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	395	Lumenal (Potential).|Potential.				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						ACAAAATACATGTCAGTTATC	0.284			T	RET	papillary thryoid								24	38	---	---	---	---	PASS	C	56096779	C	C	56096779	2	2	46	1	0	0	0	0	0	0	0	1	8585	1461	51	5		5	KTN1	14	56096779	Silent	SNP	T	TCGA-22-5477-01A-01D-1632-08		56096779	51252761	135	18270										
OTUD7A	161725	broad.mit.edu	37	chr15	31862290	31862290	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cccgggctgtggctctcgctCtggctgcttgggaccccgcc	14	17	2	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr15:31862290C>G	uc001zfq.2	-	2	355	c.262G>C	c.(262-264)GAG>CAG	p.E88Q	OTUD7A_uc001zfr.2_Missense_Mutation_p.E88Q|OTUD7A_uc001zfs.1_RNA|OTUD7A_uc010baa.1_Missense_Mutation_p.E88Q	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	88						cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		GGCTCTCGCTCTGGCTGCTTG	0.637													15	9	---	---	---	---	PASS	G	31862290	G	G	31862290	3	3	46	1	0	0	0	0	1	0	0	0	11318	922	32	2	2558	2	OTUD7A	15	31862290	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08		31862290	70669102	136	18271										
SLTM	79811	broad.mit.edu	37	chr15	59224582	59224582	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tttagttggtttcttgtttgGagtatcagttgaaacagtta	10	3	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr15:59224582G>C	uc002afp.2	-	2	311	c.223C>G	c.(223-225)CCA>GCA	p.P75A	SLTM_uc002afo.2_Missense_Mutation_p.P75A|SLTM_uc002afq.2_5'UTR|SLTM_uc010bgd.2_Intron|SLTM_uc002afr.1_Missense_Mutation_p.P75A	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	75					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						TTCTTGTTTGGAGTATCAGTT	0.343													50	70	---	---	---	---	PASS	C	59224582	C	C	59224582	3	2	46	1	0	0	0	0	1	0	0	0	14754	1174	41	2	2961	2	SLTM	15	59224582	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	27362292	59224582	43306810	137	18272										
VPS13C	54832	broad.mit.edu	37	chr15	62261510	62261510	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ggtattaccttcaatttcatGataatccaagctgattttct	5	8	3	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr15:62261510G>A	uc002agz.2	-	28	2973	c.2899C>T	c.(2899-2901)CAT>TAT	p.H967Y	VPS13C_uc002aha.2_Missense_Mutation_p.H924Y|VPS13C_uc002ahb.1_Missense_Mutation_p.H967Y|VPS13C_uc002ahc.1_Missense_Mutation_p.H924Y	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	967					protein localization					ovary(2)	2						TCAATTTCATGATAATCCAAG	0.269													17	18	---	---	---	---	PASS	A	62261510	A	A	62261510	3	1	46	1	0	0	0	0	1	0	0	0	17188	1290	45	2	8622	2	VPS13C	15	62261510	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	3036928	62261510	40269882	138	18273										
UBL7	84993	broad.mit.edu	37	chr15	74751086	74751086	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcaataagctgcttcagaaaTgaaatactatagccccctag	7	10	1	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr15:74751086T>A	uc002axw.1	-	2	285	c.123A>T	c.(121-123)TCA>TCT	p.S41S	UBL7_uc002axx.1_Silent_p.S81S|UBL7_uc010bjr.1_Intron|UBL7_uc002axy.1_Silent_p.S41S|UBL7_uc002axz.1_Silent_p.S41S|uc002aya.2_5'Flank|uc002ayb.2_5'Flank	NM_032907	NP_116296	Q96S82	UBL7_HUMAN	ubiquitin-like 7	41	Ubiquitin-like.						protein binding			ovary(1)	1						GCTTCAGAAATGAAATACTAT	0.517													44	90	---	---	---	---	PASS	A	74751086	A	A	74751086	2	1	46	1	0	0	0	0	0	0	0	1	16887	1451	51	5		5	UBL7	15	74751086	Silent	SNP	T	TCGA-22-5477-01A-01D-1632-08	12489576	74751086	27780306	139	18274										
ITFG3	83986	broad.mit.edu	37	chr16	312511	312511	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	aagagtgacccgcactgggaGagcatgctcaatgccaccac	11	13	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:312511G>A	uc002cgf.2	+	8	1125	c.930G>A	c.(928-930)GAG>GAA	p.E310E	ITFG3_uc010bqr.2_RNA|ITFG3_uc002cgg.2_Silent_p.E310E|ITFG3_uc010uud.1_RNA|ITFG3_uc002cgh.2_Silent_p.E310E	NM_032039	NP_114428	Q9H0X4	ITFG3_HUMAN	integrin alpha FG-GAP repeat containing 3	310	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1		all_cancers(16;0.000129)|all_epithelial(16;0.000206)|Hepatocellular(16;0.00264)|Lung NSC(18;0.0626)|all_lung(18;0.13)				CGCACTGGGAGAGCATGCTCA	0.632													11	30	---	---	---	---	PASS	A	312511	A	A	312511	2	1	46	1	0	0	0	0	0	0	0	1	7871	933	33	2		2	ITFG3	16	312511	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08		312511	90042242	140	18275										
E4F1	1877	broad.mit.edu	37	chr16	2282359	2282359	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcgctgtgccacaagaccttCaagacggtgagccggcgtgc	14	13	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:2282359C>G	uc002cpm.2	+	4	651	c.603C>G	c.(601-603)TTC>TTG	p.F201L	E4F1_uc010bsi.2_Missense_Mutation_p.F201L|E4F1_uc010bsj.2_Missense_Mutation_p.F201L	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	201	Mediates dimerization, DNA-binding, transcription repression of CCNA2 and interaction with HMGA2.|C2H2-type 1.				cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						ACAAGACCTTCAAGACGGTGA	0.687													2	8	---	---	---	---	PASS	G	2282359	G	G	2282359	3	3	46	1	0	0	0	0	1	0	0	0	4874	825	29	2	617	2	E4F1	16	2282359	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	1969848	2282359	88072394	141	18276										
AMDHD2	51005	broad.mit.edu	37	chr16	2577777	2577777	+	Missense_Mutation	SNP	T	C	C													0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttgctccctcctcccagggcTgcacctggagggccccttca							TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:2577777T>C	uc002cqq.2	+	5	516	c.419T>C	c.(418-420)CTG>CCG	p.L140P	AMDHD2_uc002cqp.2_Missense_Mutation_p.L140P|AMDHD2_uc010uwc.1_Missense_Mutation_p.L140P|AMDHD2_uc010uwd.1_5'UTR	NM_015944	NP_057028	Q9Y303	NAGA_HUMAN	amidohydrolase domain containing 2 isoform 1	140					N-acetylglucosamine metabolic process		N-acetylglucosamine-6-phosphate deacetylase activity			skin(2)|large_intestine(1)|breast(1)	4						CTCCCAGGGCTGCACCTGGAG	0.711													3	5	---	---	---	---	PASS	C	2577777	C	C	2577777	3	2	46	1	0	0	0	0	1	0	0	0	568	1580	55	5	437	5	AMDHD2	16	2577777	Missense_Mutation	SNP	T	TCGA-22-5477-01A-01D-1632-08	295418	2577777	87776976	142	18277	415	2								
AMDHD2	51005	broad.mit.edu	37	chr16	2577778	2577778	+	Silent	SNP	G	T	T													0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgctccctcctcccagggctGcacctggagggccccttcat							TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:2577778G>T	uc002cqq.2	+	5	517	c.420G>T	c.(418-420)CTG>CTT	p.L140L	AMDHD2_uc002cqp.2_Silent_p.L140L|AMDHD2_uc010uwc.1_Silent_p.L140L|AMDHD2_uc010uwd.1_5'UTR	NM_015944	NP_057028	Q9Y303	NAGA_HUMAN	amidohydrolase domain containing 2 isoform 1	140					N-acetylglucosamine metabolic process		N-acetylglucosamine-6-phosphate deacetylase activity			skin(2)|large_intestine(1)|breast(1)	4						TCCCAGGGCTGCACCTGGAGG	0.706													4	5	---	---	---	---	PASS	T	2577778	T	T	2577778	2	4	46	1	0	0	0	0	0	0	0	1	568	1306	46	3		3	AMDHD2	16	2577778	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	1	2577778	87776975	143	18278	415	2								
FAM86A	196483	broad.mit.edu	37	chr16	5143501	5143501	+	Missense_Mutation	SNP	G	A	A													0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgacctttttgatgagttctGagagaaagcaccgggcatat							TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:5143501G>A	uc002cyo.2	-	3	273	c.224C>T	c.(223-225)TCA>TTA	p.S75L	FAM86A_uc002cyp.2_Missense_Mutation_p.S75L	NM_201400	NP_958802	Q96G04	FA86A_HUMAN	hypothetical protein LOC196483 isoform 1	75											0						GATGAGTTCTGAGAGAAAGCA	0.493													5	18	---	---	---	---	PASS	A	5143501	A	A	5143501	3	1	46	1	0	0	0	0	1	0	0	0	5643	1294	45	2	792	2	FAM86A	16	5143501	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	2565723	5143501	85211252	144	18279	416	2								
FAM86A	196483	broad.mit.edu	37	chr16	5143509	5143509	+	Nonsense_Mutation	SNP	G	T	T													0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttgatgagttctgagagaaaGcaccgggcatatttgacgga							TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:5143509G>T	uc002cyo.2	-	3	265	c.216C>A	c.(214-216)TGC>TGA	p.C72*	FAM86A_uc002cyp.2_Nonsense_Mutation_p.C72*	NM_201400	NP_958802	Q96G04	FA86A_HUMAN	hypothetical protein LOC196483 isoform 1	72											0						CTGAGAGAAAGCACCGGGCAT	0.512													5	17	---	---	---	---	PASS	T	5143509	T	T	5143509	4	4	46	1	0	0	0	0	0	1	0	0	5643	963	34	3	800	3	FAM86A	16	5143509	Nonsense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	8	5143509	85211244	145	18280	416	2								
NOMO2	283820	broad.mit.edu	37	chr16	18549903	18549903	+	Missense_Mutation	SNP	C	A	A													0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cggtgcaattttgatggtgaCcgtttcaaagtagaggtgct							TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:18549903C>A	uc002dfe.2	-	11	1237	c.1165G>T	c.(1165-1167)GTC>TTC	p.V389F	NOMO2_uc002dff.2_Missense_Mutation_p.V389F|NOMO2_uc010bvx.2_Missense_Mutation_p.V222F	NM_001004060	NP_001004060	Q5JPE7	NOMO2_HUMAN	nodal modulator 2 isoform 1	389	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			skin(1)	1						TTGATGGTGACCGTTTCAAAG	0.458													34	52	---	---	---	---	PASS	A	18549903	A	A	18549903	3	1	46	1	0	0	0	0	1	0	0	0	10532	507	18	3	2730	3	NOMO2	16	18549903	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	13406394	18549903	71804850	146	18281	417	2								
NOMO2	283820	broad.mit.edu	37	chr16	18549904	18549904	+	Silent	SNP	C	A	A													0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ggtgcaattttgatggtgacCgtttcaaagtagaggtgctc							TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:18549904C>A	uc002dfe.2	-	11	1236	c.1164G>T	c.(1162-1164)ACG>ACT	p.T388T	NOMO2_uc002dff.2_Silent_p.T388T|NOMO2_uc010bvx.2_Silent_p.T221T	NM_001004060	NP_001004060	Q5JPE7	NOMO2_HUMAN	nodal modulator 2 isoform 1	388	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			skin(1)	1						TGATGGTGACCGTTTCAAAGT	0.453													33	52	---	---	---	---	PASS	A	18549904	A	A	18549904	2	1	46	1	0	0	0	0	0	0	0	1	10532	639	23	1		1	NOMO2	16	18549904	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	1	18549904	71804849	147	18282	417	2								
ACSM3	6296	broad.mit.edu	37	chr16	20807807	20807807	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	agcaccttacaaatatcccaGaaaggtaggcatcctaatta	6	10	0	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:20807807G>A	uc002dhr.2	+	13	1857	c.1670G>A	c.(1669-1671)AGA>AAA	p.R557K	ERI2_uc002dht.3_3'UTR|ACSM3_uc010vba.1_Missense_Mutation_p.R586K|ERI2_uc002dhs.2_Intron|ERI2_uc010vbb.1_3'UTR|ERI2_uc010bwh.2_3'UTR|ERI2_uc010vbc.1_3'UTR|ERI2_uc002dhu.1_3'UTR	NM_005622	NP_005613	Q53FZ2	ACSM3_HUMAN	SA hypertension-associated homolog isoform 1	557					regulation of blood pressure	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			ovary(1)	1						AAATATCCCAGAAAGGTAGGC	0.323													21	40	---	---	---	---	PASS	A	20807807	A	A	20807807	3	1	46	1	0	0	0	0	1	0	0	0	185	942	33	2	1809	2	ACSM3	16	20807807	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	2257903	20807807	69546946	148	18283										
RNF40	9810	broad.mit.edu	37	chr16	30777492	30777492	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cccactccttagtttgagatGctgaatgcagagttagagga	11	8	0	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:30777492G>A	uc002dzq.2	+	9	1125	c.1002G>A	c.(1000-1002)ATG>ATA	p.M334I	RNF40_uc010caa.2_Missense_Mutation_p.M334I|RNF40_uc010cab.2_Intron|RNF40_uc010vfa.1_Intron|RNF40_uc002dzr.2_Missense_Mutation_p.M334I|RNF40_uc010vfb.1_Intron|RNF40_uc010vfc.1_5'Flank	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	334	Potential.				histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			AGTTTGAGATGCTGAATGCAG	0.592													25	44	---	---	---	---	PASS	A	30777492	A	A	30777492	3	1	46	1	0	0	0	0	1	0	0	0	13493	1319	46	3	1032	3	RNF40	16	30777492	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	9969685	30777492	59577261	149	18284										
BBS2	583	broad.mit.edu	37	chr16	56548503	56548503	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctgactgcctggttaatgctGagaagagaaacatcagattc	10	8	1	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:56548503G>C	uc002ejd.2	-	2	441	c.207C>G	c.(205-207)CTC>CTG	p.L69L	BBS2_uc010ccg.2_Silent_p.L69L	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein	69					adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						GGTTAATGCTGAGAAGAGAAA	0.468									Bardet-Biedl_syndrome				13	37	---	---	---	---	PASS	C	56548503	C	C	56548503	2	2	46	1	0	0	0	0	0	0	0	1	1338	1277	45	2		2	BBS2	16	56548503	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	25771011	56548503	33806250	150	18285										
ATMIN	23300	broad.mit.edu	37	chr16	81078461	81078461	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttcaccagcaacgaaactcaGacagcaatggatgactttct	7	11	3	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:81078461G>A	uc002ffz.1	+	4	2376	c.2358G>A	c.(2356-2358)CAG>CAA	p.Q786Q	ATMIN_uc002fga.2_Silent_p.Q628Q|ATMIN_uc010vnn.1_Silent_p.Q557Q|ATMIN_uc002fgb.1_Silent_p.Q628Q	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	786					response to DNA damage stimulus	nucleus	zinc ion binding				0						ACGAAACTCAGACAGCAATGG	0.483													16	31	---	---	---	---	PASS	A	81078461	A	A	81078461	2	1	46	1	0	0	0	0	0	0	0	1	1110	933	33	2		2	ATMIN	16	81078461	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	24529958	81078461	9276292	151	18286										
KIAA0182	23199	broad.mit.edu	37	chr16	85699825	85699825	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cgctgcacccaaggacattcCtgtgccgctgtcccacagca	9	17	0	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:85699825C>T	uc002fix.2	+	13	3076	c.3002C>T	c.(3001-3003)CCT>CTT	p.P1001L	KIAA0182_uc002fiw.2_Missense_Mutation_p.P897L|KIAA0182_uc002fiy.2_Missense_Mutation_p.P928L|KIAA0182_uc002fiz.2_Missense_Mutation_p.P143L|KIAA0182_uc010cho.2_Missense_Mutation_p.P181L	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	1001							protein binding			large_intestine(3)|ovary(1)|skin(1)	5						AAGGACATTCCTGTGCCGCTG	0.602													6	10	---	---	---	---	PASS	T	85699825	T	T	85699825	3	4	46	1	0	0	0	0	1	0	0	0	8159	681	24	3	3052	3	KIAA0182	16	85699825	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	4621364	85699825	4654928	152	18287										
ANKRD11	29123	broad.mit.edu	37	chr16	89348930	89348930	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttctctttcagcttctcaggGaggcaggcgctctccctcgg	11	14	4	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:89348930G>C	uc002fmx.1	-	9	4481	c.4020C>G	c.(4018-4020)CTC>CTG	p.L1340L	ANKRD11_uc002fmy.1_Silent_p.L1340L|ANKRD11_uc002fnc.1_Silent_p.L1340L|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Silent_p.L1297L	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1340	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		GCTTCTCAGGGAGGCAGGCGC	0.602													7	44	---	---	---	---	PASS	C	89348930	C	C	89348930	2	2	46	1	0	0	0	0	0	0	0	1	639	1161	41	2		2	ANKRD11	16	89348930	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	3649105	89348930	1005823	153	18288										
FANCA	2175	broad.mit.edu	37	chr16	89813023	89813023	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tcaaaattaaggggcatttcGtctggcacttggccagtatg	11	8	2	0	rs142833057	by1000genomes	TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr16:89813023G>A	uc002fou.1	-	35	3524	c.3482C>T	c.(3481-3483)ACG>ATG	p.T1161M	FANCA_uc010vpn.1_Missense_Mutation_p.T1161M|FANCA_uc010vpo.1_Missense_Mutation_p.T247M	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	1161					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		GGGGCATTTCGTCTGGCACTT	0.567			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				21	19	---	---	---	---	PASS	A	89813023	A	A	89813023	3	1	46	1	0	0	0	0	1	0	0	0	5662	1145	40	1	921	1	FANCA	16	89813023	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	464093	89813023	541730	154	18289										
VPS53	55275	broad.mit.edu	37	chr17	526854	526854	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gttgttctttgaatagcaaaAagaagcaatttcacttcaat	6	6	3	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:526854A>C	uc002frn.2	-	11	1182	c.1035T>G	c.(1033-1035)CTT>CTG	p.L345L	VPS53_uc002frk.2_5'UTR|VPS53_uc010cjo.1_Silent_p.L345L|VPS53_uc002frl.2_RNA|VPS53_uc002frm.2_Silent_p.L316L|VPS53_uc002fro.2_Silent_p.L147L|VPS53_uc010cjp.1_Intron	NM_018289	NP_060759	Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 isoform 2	345					protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)		GAATAGCAAAAAGAAGCAATT	0.438													6	59	---	---	---	---	PASS	C	526854	C	C	526854	2	2	46	1	0	0	0	0	0	0	0	1	17212	1	1	5		5	VPS53	17	526854	Silent	SNP	A	TCGA-22-5477-01A-01D-1632-08		526854	80668356	155	18290										
PRPF8	10594	broad.mit.edu	37	chr17	1582619	1582619	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cttagggggccgatgcttcaGggcattcagcacatagtact	12	10	2	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:1582619G>C	uc002fte.2	-	10	1489	c.1375C>G	c.(1375-1377)CTG>GTG	p.L459V		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	459						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		CGATGCTTCAGGGCATTCAGC	0.537													32	42	---	---	---	---	PASS	C	1582619	C	C	1582619	3	2	46	1	0	0	0	0	1	0	0	0	12575	991	35	4	5768	4	PRPF8	17	1582619	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	1055765	1582619	79612591	156	18291										
TP53	7157	broad.mit.edu	37	chr17	7578461	7578461	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gtagatggccatggcgcggaCgcgggtgccgggcgggggtg	23	9	0	1	rs121912654		TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:7578461C>A	uc002gim.2	-	5	663	c.469G>T	c.(469-471)GTC>TTC	p.V157F	TP53_uc002gig.1_Missense_Mutation_p.V157F|TP53_uc002gih.2_Missense_Mutation_p.V157F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.V25F|TP53_uc010cng.1_Missense_Mutation_p.V25F|TP53_uc002gii.1_Missense_Mutation_p.V25F|TP53_uc010cnh.1_Missense_Mutation_p.V157F|TP53_uc010cni.1_Missense_Mutation_p.V157F|TP53_uc002gij.2_Missense_Mutation_p.V157F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.V64F|TP53_uc002gio.2_Missense_Mutation_p.V25F|TP53_uc010vug.1_Missense_Mutation_p.V118F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	157	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> I (in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).|V -> A (in sporadic cancers; somatic mutation).|V -> L (in sporadic cancers; somatic mutation).|V -> F (in sporadic cancers; somatic mutation).|V -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.V157F(139)|p.V157I(10)|p.V157D(8)|p.V157G(7)|p.0?(7)|p.V157L(6)|p.V157V(5)|p.V157fs*13(3)|p.R156_I162delRVRAMAI(2)|p.T155fs*23(2)|p.V157del(2)|p.V157fs*9(2)|p.P153fs*22(2)|p.V157fs*22(2)|p.V157fs*24(2)|p.V157_C176del20(1)|p.R156_A161delRVRAMA(1)|p.P151_V173del23(1)|p.V157A(1)|p.R156_R158delRVR(1)|p.R156fs*12(1)|p.R156fs*18(1)|p.R156_A161del(1)|p.V157_M160delVRAM(1)|p.D148fs*23(1)|p.V157_R158delVR(1)|p.S149fs*72(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.R156fs*20(1)|p.V157_I162delVRAMAI(1)|p.V157fs*23(1)|p.V157fs*21(1)|p.V157fs*25(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)		ATGGCGCGGACGCGGGTGCCG	0.617		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)			22	8	---	---	---	---	PASS	A	7578461	A	A	7578461	3	1	46	1	0	0	0	0	1	0	0	0	16378	536	19	1	829	1	TP53	17	7578461	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	5995842	7578461	73616749	157	18292										
MYH4	4622	broad.mit.edu	37	chr17	10357999	10357999	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tctcaaattcttccttcatgTtggccatctccttctctgtc	4	14	5	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:10357999T>A	uc002gmn.2	-	22	2675	c.2564A>T	c.(2563-2565)AAC>ATC	p.N855I	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	855	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TTCCTTCATGTTGGCCATCTC	0.443													7	80	---	---	---	---	PASS	A	10357999	A	A	10357999	3	1	46	1	0	0	0	0	1	0	0	0	10037	1725	60	5	3331	5	MYH4	17	10357999	Missense_Mutation	SNP	T	TCGA-22-5477-01A-01D-1632-08	2779538	10357999	70837211	158	18293										
FOXN1	8456	broad.mit.edu	37	chr17	26861727	26861727	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctctcttgggcctttcagaaGagctggacagcctcattgga	11	11	3	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:26861727G>A	uc010crm.2	+	8	1336	c.1138G>A	c.(1138-1140)GAG>AAG	p.E380K	FOXN1_uc002hbj.2_Missense_Mutation_p.E380K	NM_003593	NP_003584	O15353	FOXN1_HUMAN	forkhead box N1	380					defense response|embryo development|epithelial cell proliferation|keratinocyte differentiation|organ morphogenesis|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|thymus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			skin(1)	1	Lung NSC(42;0.00431)					CCTTTCAGAAGAGCTGGACAG	0.607													3	12	---	---	---	---	PASS	A	26861727	A	A	26861727	3	1	46	1	0	0	0	0	1	0	0	0	6019	943	33	2	1164	2	FOXN1	17	26861727	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	16503728	26861727	54333483	159	18294										
SLFN12	55106	broad.mit.edu	37	chr17	33749256	33749256	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	atcttcctaatggacttttcGatttctctttctaagtcatc	4	10	4	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:33749256G>A	uc002hji.3	-	2	1169	c.792C>T	c.(790-792)ATC>ATT	p.I264I	SLFN12_uc002hjj.3_Silent_p.I264I|SLFN12_uc010cts.2_Silent_p.I264I	NM_018042	NP_060512	Q8IYM2	SLN12_HUMAN	schlafen family member 12	264							ATP binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TGGACTTTTCGATTTCTCTTT	0.343													24	83	---	---	---	---	PASS	A	33749256	A	A	33749256	2	1	46	1	0	0	0	0	0	0	0	1	14734	1048	37	2		2	SLFN12	17	33749256	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	6887529	33749256	47445954	160	18295										
CDK12	51755	broad.mit.edu	37	chr17	37627431	37627431	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ggagtctaaaaagttacccaGaagtgtaaaattggaaaaat	9	4	1	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:37627431G>C	uc010cvv.2	+	2	1932	c.1346G>C	c.(1345-1347)AGA>ACA	p.R449T	CDK12_uc010wef.1_Missense_Mutation_p.R448T|CDK12_uc002hrw.3_Missense_Mutation_p.R449T	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	449					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						AAGTTACCCAGAAGTGTAAAA	0.388										TCGA Ovarian(9;0.13)			20	54	---	---	---	---	PASS	C	37627431	C	C	37627431	3	2	46	1	0	0	0	0	1	0	0	0	3128	942	33	2	1352	2	CDK12	17	37627431	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	3878175	37627431	43567779	161	18296										
CDK12	51755	broad.mit.edu	37	chr17	37627496	37627496	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	atgtaacacatctaaacacaGaggtaaaaaattcttcagat	5	7	3	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:37627496G>C	uc010cvv.2	+	2	1997	c.1411G>C	c.(1411-1413)GAG>CAG	p.E471Q	CDK12_uc010wef.1_Missense_Mutation_p.E470Q|CDK12_uc002hrw.3_Missense_Mutation_p.E471Q	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	471					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						TCTAAACACAGAGGTAAAAAA	0.373										TCGA Ovarian(9;0.13)			27	75	---	---	---	---	PASS	C	37627496	C	C	37627496	3	2	46	1	0	0	0	0	1	0	0	0	3128	943	33	2	1417	2	CDK12	17	37627496	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	65	37627496	43567714	162	18297										
EME1	146956	broad.mit.edu	37	chr17	48456522	48456522	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gcaaataaacagaccaagaaGcagcagcagagacaaccaga	9	10	0	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:48456522G>A	uc002iqs.1	+	6	1240	c.1167G>A	c.(1165-1167)AAG>AAA	p.K389K	EME1_uc010dbp.1_Silent_p.K402K|EME1_uc010dbq.1_5'Flank	NM_152463	NP_689676	Q96AY2	EME1_HUMAN	essential meiotic endonuclease 1 homolog 1	389					DNA recombination|DNA repair	nucleolus	DNA binding|endonuclease activity|metal ion binding|protein binding				0	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			AGACCAAGAAGCAGCAGCAGA	0.527								Direct_reversal_of_damage|Homologous_recombination					21	30	---	---	---	---	PASS	A	48456522	A	A	48456522	2	1	46	1	0	0	0	0	0	0	0	1	5088	962	34	3		3	EME1	17	48456522	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	10829026	48456522	32738688	163	18298										
CACNA1G	8913	broad.mit.edu	37	chr17	48674006	48674006	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gacaggaagaagtgcttggcCtgtgagtacctatcctgggg	15	8	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:48674006C>T	uc002irk.1	+	15	3435	c.3063C>T	c.(3061-3063)GCC>GCT	p.A1021A	CACNA1G_uc002iri.1_Silent_p.A1021A|CACNA1G_uc002irj.1_Silent_p.A998A|CACNA1G_uc002irl.1_Silent_p.A998A|CACNA1G_uc002irm.1_Silent_p.A998A|CACNA1G_uc002irn.1_Silent_p.A998A|CACNA1G_uc002iro.1_Silent_p.A998A|CACNA1G_uc002irp.1_Silent_p.A1021A|CACNA1G_uc002irq.1_Silent_p.A998A|CACNA1G_uc002irr.1_Silent_p.A1021A|CACNA1G_uc002irs.1_Silent_p.A1021A|CACNA1G_uc002irt.1_Silent_p.A1021A|CACNA1G_uc002irv.1_Silent_p.A1021A|CACNA1G_uc002irw.1_Silent_p.A998A|CACNA1G_uc002iru.1_Silent_p.A998A|CACNA1G_uc002irx.1_Silent_p.A934A|CACNA1G_uc002iry.1_Silent_p.A934A|CACNA1G_uc002irz.1_Silent_p.A934A|CACNA1G_uc002isa.1_Silent_p.A934A|CACNA1G_uc002isb.1_Silent_p.A934A|CACNA1G_uc002isc.1_Silent_p.A934A|CACNA1G_uc002isd.1_Silent_p.A934A|CACNA1G_uc002ise.1_Silent_p.A934A|CACNA1G_uc002isf.1_Silent_p.A934A|CACNA1G_uc002isg.1_Silent_p.A934A|CACNA1G_uc002ish.1_Silent_p.A934A|CACNA1G_uc002isi.1_Silent_p.A911A|CACNA1G_uc002isj.2_5'Flank	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1021	Cytoplasmic (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	AGTGCTTGGCCTGTGAGTACC	0.607													11	15	---	---	---	---	PASS	T	48674006	T	T	48674006	2	4	46	1	0	0	0	0	0	0	0	1	2544	695	24	3		3	CACNA1G	17	48674006	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	217484	48674006	32521204	164	18299										
NACA2	342538	broad.mit.edu	37	chr17	59668329	59668329	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttccgtgccctcttttcactCcgactctgttttgctttacc	5	15	3	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:59668329C>G	uc002izj.2	-	1	239	c.213G>C	c.(211-213)CGG>CGC	p.R71R		NM_199290	NP_954984	Q9H009	NACA2_HUMAN	nascent-polypeptide-associated complex alpha	71	NAC-A/B.				protein transport	cytoplasm|nucleus				ovary(1)	1	all_epithelial(1;3.12e-14)					TCTTTTCACTCCGACTCTGTT	0.463													75	128	---	---	---	---	PASS	G	59668329	G	G	59668329	2	3	46	1	0	0	0	0	0	0	0	1	10134	842	30	2		2	NACA2	17	59668329	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	10994323	59668329	21526881	165	18300										
CACNG5	27091	broad.mit.edu	37	chr17	64876810	64876810	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tctggcatcttctttatcctCtcaggtaagttgtgttgttt	8	8	4	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:64876810C>A	uc010wqi.1	+	4	657	c.420C>A	c.(418-420)CTC>CTA	p.L140L	CACNG5_uc002jfr.2_Silent_p.L140L|CACNG5_uc010wqj.1_Silent_p.L140L	NM_145811	NP_665810	Q9UF02	CCG5_HUMAN	voltage-dependent calcium channel gamma-5	140	Helical; (Potential).				regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|postsynaptic density|postsynaptic membrane	voltage-gated calcium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(6;1.61e-08)			TCTTTATCCTCTCAGGTAAGT	0.328													45	83	---	---	---	---	PASS	A	64876810	A	A	64876810	2	1	46	1	0	0	0	0	0	0	0	1	2560	900	32	2		2	CACNG5	17	64876810	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	5208481	64876810	16318400	166	18301										
ABCA10	10349	broad.mit.edu	37	chr17	67160274	67160274	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tattctattgtccagactgtCcaagtttctcataaagtcga	6	9	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr17:67160274C>A	uc010dfa.1	-	28	4183	c.3304G>T	c.(3304-3306)GAC>TAC	p.D1102Y	ABCA10_uc010wqs.1_Missense_Mutation_p.D94Y|ABCA10_uc010wqt.1_RNA	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	1102					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TCCAGACTGTCCAAGTTTCTC	0.279													4	33	---	---	---	---	PASS	A	67160274	A	A	67160274	3	1	46	1	0	0	0	0	1	0	0	0	29	855	30	2	1379	2	ABCA10	17	67160274	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	2283464	67160274	14034936	167	18302										
MYOM1	8736	broad.mit.edu	37	chr18	3116506	3116506	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tcactacacttgagactgtgCggtggtcctgagagagagag	14	8	1	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr18:3116506C>T	uc002klp.2	-	21	3460	c.3126G>A	c.(3124-3126)CCG>CCA	p.P1042P	MYOM1_uc002klq.2_Silent_p.P946P	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	1042	Fibronectin type-III 5.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						TGAGACTGTGCGGTGGTCCTG	0.498													6	16	---	---	---	---	PASS	T	3116506	T	T	3116506	2	4	46	1	0	0	0	0	0	0	0	1	10091	755	27	1		1	MYOM1	18	3116506	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08		3116506	74960742	168	18303										
PSMA8	143471	broad.mit.edu	37	chr18	23759082	23759082	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cttgctataataagaagaaaTcaacctttgaaggtaagtca	7	6	2	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr18:23759082T>C	uc002kvq.2	+	6	780	c.666T>C	c.(664-666)AAT>AAC	p.N222N	PSMA8_uc002kvo.2_Silent_p.N178N|PSMA8_uc002kvp.2_Silent_p.N216N|PSMA8_uc002kvr.2_Silent_p.N190N	NM_144662	NP_653263	Q8TAA3	PSA7L_HUMAN	proteasome alpha 8 subunit isoform 1	222					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|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	threonine-type endopeptidase activity			skin(1)	1	all_cancers(21;0.000585)|Lung NSC(5;0.00148)|all_lung(6;0.0038)|Ovarian(20;0.124)		OV - Ovarian serous cystadenocarcinoma(3;0.000324)|all cancers(3;0.000954)|LUSC - Lung squamous cell carcinoma(2;0.181)			TAAGAAGAAATCAACCTTTGA	0.318													60	12	---	---	---	---	PASS	C	23759082	C	C	23759082	2	2	46	1	0	0	0	0	0	0	0	1	12673	1432	50	5		5	PSMA8	18	23759082	Silent	SNP	T	TCGA-22-5477-01A-01D-1632-08	20642576	23759082	54318166	169	18304										
DSG1	1828	broad.mit.edu	37	chr18	28914040	28914040	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgctcgagattagagtaattGatttggatgaagagttctca	11	4	1	5			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr18:28914040G>C	uc002kwp.2	+	8	1092	c.880G>C	c.(880-882)GAT>CAT	p.D294H		NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	294	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			TAGAGTAATTGATTTGGATGA	0.318													11	93	---	---	---	---	PASS	C	28914040	C	C	28914040	3	2	46	1	0	0	0	0	1	0	0	0	4776	1290	45	2	910	2	DSG1	18	28914040	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	5154958	28914040	49163208	170	18305										
RTTN	25914	broad.mit.edu	37	chr18	67684885	67684885	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctccttttggcaatgctagaGagaggaagttctgtaagaag	12	6	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr18:67684885G>C	uc002lkp.2	-	46	6247	c.6179C>G	c.(6178-6180)TCT>TGT	p.S2060C	RTTN_uc002lko.2_Intron|RTTN_uc010xfb.1_Missense_Mutation_p.S1148C|RTTN_uc002lkn.2_Missense_Mutation_p.S50C|RTTN_uc010dqp.2_Missense_Mutation_p.S312C	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	2060							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				CAATGCTAGAGAGAGGAAGTT	0.343													46	11	---	---	---	---	PASS	C	67684885	C	C	67684885	3	2	46	1	0	0	0	0	1	0	0	0	13737	942	33	2	517	2	RTTN	18	67684885	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	38770845	67684885	10392363	171	18306										
ATP9B	374868	broad.mit.edu	37	chr18	76936877	76936877	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tggaagctgaaggtggcagtGagctgcacgcaacagctgcc	15	10	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr18:76936877G>C	uc002lmx.2	+	8	857	c.843G>C	c.(841-843)GTG>GTC	p.V281V	ATP9B_uc002lmv.1_Intron|ATP9B_uc002lmw.1_Silent_p.V281V|ATP9B_uc002lmy.1_Intron|ATP9B_uc002lmz.1_5'UTR	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	281	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		AGGTGGCAGTGAGCTGCACGC	0.448													40	8	---	---	---	---	PASS	C	76936877	C	C	76936877	2	2	46	1	0	0	0	0	0	0	0	1	1199	1277	45	2		2	ATP9B	18	76936877	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	9251992	76936877	1140371	172	18307										
NFATC1	4772	broad.mit.edu	37	chr18	77170998	77170998	+	Silent	SNP	G	T	T													0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cggcactccccctccacctcGccccgcgccagcgtcactga					rs61731548	byFrequency	TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr18:77170998G>T	uc010xfg.1	+	2	1176	c.723G>T	c.(721-723)TCG>TCT	p.S241S	NFATC1_uc002lnc.1_Silent_p.S241S|NFATC1_uc010xff.1_Silent_p.S241S|NFATC1_uc002lnd.2_Silent_p.S241S|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Silent_p.S241S|NFATC1_uc010xfi.1_Silent_p.S228S|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Silent_p.S228S|NFATC1_uc002lng.2_Silent_p.S228S|NFATC1_uc010xfk.1_Silent_p.S228S	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	241	3 X SP repeats.|2.				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CCTCCACCTCGCCCCGCGCCA	0.711													6	21	---	---	---	---	PASS	T	77170998	T	T	77170998	2	4	46	1	0	0	0	0	0	0	0	1	10361	1074	38	1		1	NFATC1	18	77170998	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	234121	77170998	906250	173	18308	418	2								
NFATC1	4772	broad.mit.edu	37	chr18	77170999	77170999	+	Missense_Mutation	SNP	C	T	T													0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ggcactccccctccacctcgCcccgcgccagcgtcactgag							TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr18:77170999C>T	uc010xfg.1	+	2	1177	c.724C>T	c.(724-726)CCC>TCC	p.P242S	NFATC1_uc002lnc.1_Missense_Mutation_p.P242S|NFATC1_uc010xff.1_Missense_Mutation_p.P242S|NFATC1_uc002lnd.2_Missense_Mutation_p.P242S|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Missense_Mutation_p.P242S|NFATC1_uc010xfi.1_Missense_Mutation_p.P229S|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Missense_Mutation_p.P229S|NFATC1_uc002lng.2_Missense_Mutation_p.P229S|NFATC1_uc010xfk.1_Missense_Mutation_p.P229S	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	242	3 X SP repeats.|2.				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CTCCACCTCGCCCCGCGCCAG	0.711													6	20	---	---	---	---	PASS	T	77170999	T	T	77170999	3	4	46	1	0	0	0	0	1	0	0	0	10361	739	26	3	822	3	NFATC1	18	77170999	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	1	77170999	906249	174	18309	418	2								
CIRBP	1153	broad.mit.edu	37	chr19	1271175	1271175	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cagggagacccagagatctcGgggatttgggtttgtcacct	14	9	2	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:1271175G>T	uc002lrr.3	+	3	289	c.140G>T	c.(139-141)CGG>CTG	p.R47L	C19orf23_uc010xgk.1_5'Flank|CIRBP_uc010dsg.1_Missense_Mutation_p.R36L|CIRBP_uc002lrt.2_Missense_Mutation_p.R47L|CIRBP_uc010xgl.1_Missense_Mutation_p.R47L|CIRBP_uc002lrv.3_Missense_Mutation_p.R47L|CIRBP_uc002lru.2_RNA	NM_001280	NP_001271	Q14011	CIRBP_HUMAN	cold inducible RNA binding protein	47	RRM.				mRNA stabilization|positive regulation of translation|response to cold|response to UV|stress granule assembly	nucleoplasm|stress granule	mRNA 3'-UTR binding|nucleotide binding|protein binding|SSU rRNA binding|translation repressor activity				0		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000332)|all_lung(49;0.000498)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGAGATCTCGGGGATTTGGG	0.552													16	24	---	---	---	---	PASS	T	1271175	T	T	1271175	3	4	46	1	0	0	0	0	1	0	0	0	3433	1116	39	1	146	1	CIRBP	19	1271175	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08		1271175	57857808	175	18310										
ZNF57	126295	broad.mit.edu	37	chr19	2917970	2917970	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	aagagcagctccataaatgtGaacactgtgggaaggccttt	11	8	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:2917970G>C	uc002lwr.2	+	4	1499	c.1351G>C	c.(1351-1353)GAA>CAA	p.E451Q	ZNF57_uc010xha.1_Missense_Mutation_p.E419Q	NM_173480	NP_775751	Q68EA5	ZNF57_HUMAN	zinc finger protein 57	451	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.00161)|STAD - Stomach adenocarcinoma(1328;0.18)		CCATAAATGTGAACACTGTGG	0.433													34	64	---	---	---	---	PASS	C	2917970	C	C	2917970	3	2	46	1	0	0	0	0	1	0	0	0	17998	1291	45	2	1365	2	ZNF57	19	2917970	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	1646795	2917970	56211013	176	18311										
HDGFRP2	84717	broad.mit.edu	37	chr19	4499548	4499548	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cagcagaagtctatacccggCtcaagtcgcgggtcctcggc	12	14	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:4499548C>T	uc002mao.2	+	14	1729	c.1636C>T	c.(1636-1638)CTC>TTC	p.L546F	HDGFRP2_uc002map.2_Missense_Mutation_p.L546F|HDGFRP2_uc010dtz.1_RNA|HDGFRP2_uc010dua.2_Missense_Mutation_p.L11F|HDGFRP2_uc002maq.1_Missense_Mutation_p.L11F	NM_001001520	NP_001001520	Q7Z4V5	HDGR2_HUMAN	hepatoma-derived growth factor-related protein 2	546	Potential.				transcription, DNA-dependent	nucleus	DNA binding|protein binding				0						CTATACCCGGCTCAAGTCGCG	0.368													7	7	---	---	---	---	PASS	T	4499548	T	T	4499548	3	4	46	1	0	0	0	0	1	0	0	0	7020	797	28	3	1690	3	HDGFRP2	19	4499548	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	1581578	4499548	54629435	177	18312										
MUC16	94025	broad.mit.edu	37	chr19	9067241	9067241	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ggaggacctgttcgagtgatGatggtcatatttgaagattc	13	5	1	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:9067241G>A	uc002mkp.2	-	3	20409	c.20205C>T	c.(20203-20205)ATC>ATT	p.I6735I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6737	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTCGAGTGATGATGGTCATAT	0.512													73	88	---	---	---	---	PASS	A	9067241	A	A	9067241	2	1	46	1	0	0	0	0	0	0	0	1	9973	1280	45	2		2	MUC16	19	9067241	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	4567693	9067241	50061742	178	18313										
LDLR	3949	broad.mit.edu	37	chr19	11238705	11238705	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tctgggcgacgttgctggcaGaggaaatgagaagaagccca	15	8	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:11238705G>A	uc002mqk.3	+	16	2501	c.2333G>A	c.(2332-2334)AGA>AAA	p.R778K	LDLR_uc010xlk.1_Missense_Mutation_p.R778K|LDLR_uc010xll.1_Missense_Mutation_p.R737K|LDLR_uc010xlm.1_Missense_Mutation_p.R631K|LDLR_uc010xln.1_Missense_Mutation_p.R600K|LDLR_uc010xlo.1_Missense_Mutation_p.R610K|LDLR_uc010dxu.2_5'UTR	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	778	Extracellular (Potential).				cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		Lung NSC(9;0.000245)|Renal(1328;0.0007)|Hepatocellular(1079;0.0524)		GBM - Glioblastoma multiforme(1328;1.36e-05)|STAD - Stomach adenocarcinoma(1328;0.000766)|Lung(535;0.197)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	GTTGCTGGCAGAGGAAATGAG	0.617													32	46	---	---	---	---	PASS	A	11238705	A	A	11238705	3	1	46	1	0	0	0	0	1	0	0	0	8704	942	33	2	2395	2	LDLR	19	11238705	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	2171464	11238705	47890278	179	18314										
OR10H3	26532	broad.mit.edu	37	chr19	15852340	15852340	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttgcttggcaaccttcttatCatggccacagtttggattga	9	9	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:15852340C>T	uc010xoq.1	+	1	138	c.138C>T	c.(136-138)ATC>ATT	p.I46I		NM_013938	NP_039226	O60404	O10H3_HUMAN	olfactory receptor, family 10, subfamily H,	46	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACCTTCTTATCATGGCCACAG	0.522													103	150	---	---	---	---	PASS	T	15852340	T	T	15852340	2	4	46	1	0	0	0	0	0	0	0	1	10907	816	29	2		2	OR10H3	19	15852340	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	4613635	15852340	43276643	180	18315										
UPF1	5976	broad.mit.edu	37	chr19	18965427	18965427	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cagattatggcgatgagatcGccattgagctgcggagcagc	14	9	0	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:18965427G>A	uc002nkg.2	+	9	1482	c.1207G>A	c.(1207-1209)GCC>ACC	p.A403T	UPF1_uc002nkf.2_Missense_Mutation_p.A392T	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	403	Sufficient for interaction with RENT2.				cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CGATGAGATCGCCATTGAGCT	0.522													98	141	---	---	---	---	PASS	A	18965427	A	A	18965427	3	1	46	1	0	0	0	0	1	0	0	0	17000	1087	38	1	1208	1	UPF1	19	18965427	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	3113087	18965427	40163556	181	18316										
NUDT19	390916	broad.mit.edu	37	chr19	33200258	33200258	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctggaaaggtggctgccgatCatcttgttaactgctgatgg	13	8	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:33200258C>G	uc010edf.2	+	2	882	c.882C>G	c.(880-882)ATC>ATG	p.I294M		NM_001105570	NP_001099040	A8MXV4	NUD19_HUMAN	nudix (nucleoside diphosphate linked moiety	294						mitochondrion|peroxisome	hydrolase activity|metal ion binding				0	Esophageal squamous(110;0.137)					GGCTGCCGATCATCTTGTTAA	0.458													29	94	---	---	---	---	PASS	G	33200258	G	G	33200258	3	3	46	1	0	0	0	0	1	0	0	0	10736	816	29	2	888	2	NUDT19	19	33200258	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	14234831	33200258	25928725	182	18317										
CHST8	64377	broad.mit.edu	37	chr19	34263812	34263812	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	aacctgaccttcccccggttCaaggaccggcactcgcagga	10	16	1	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:34263812C>G	uc002nus.3	+	5	1624	c.1119C>G	c.(1117-1119)TTC>TTG	p.F373L	CHST8_uc002nut.3_Missense_Mutation_p.F373L|CHST8_uc002nuu.2_Missense_Mutation_p.F373L	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	373	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)					TCCCCCGGTTCAAGGACCGGC	0.622													24	15	---	---	---	---	PASS	G	34263812	G	G	34263812	3	3	46	1	0	0	0	0	1	0	0	0	3410	825	29	2	1129	2	CHST8	19	34263812	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	1063554	34263812	24865171	183	18318										
PRKD2	25865	broad.mit.edu	37	chr19	47219577	47219577	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ccggggggcggaggagacccCggcccgggagagccagggag	22	12	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:47219577C>A	uc002pfh.2	-	2	393	c.51G>T	c.(49-51)CCG>CCT	p.P17P	PRKD2_uc002pfg.2_5'Flank|PRKD2_uc002pfi.2_Silent_p.P17P|PRKD2_uc002pfj.2_Silent_p.P17P|PRKD2_uc010xye.1_Silent_p.P17P|PRKD2_uc002pfk.2_Intron	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	17					cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		GAGGAGACCCCGGCCCGGGAG	0.726													8	14	---	---	---	---	PASS	A	47219577	A	A	47219577	2	1	46	1	0	0	0	0	0	0	0	1	12519	639	23	1		1	PRKD2	19	47219577	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	12955765	47219577	11909406	184	18319										
JOSD2	126119	broad.mit.edu	37	chr19	51013560	51013560	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cacctcttgcagatctcatcGgcagcctcctggctaaagag	9	14	2	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:51013560G>A	uc002psn.1	-	2	160	c.129C>T	c.(127-129)GCC>GCT	p.A43A	JOSD2_uc002pso.1_Silent_p.A43A|JOSD2_uc002psp.1_Silent_p.A43A|JOSD2_uc002psq.1_Silent_p.A43A	NM_138334	NP_612207	Q8TAC2	JOS2_HUMAN	Josephin domain containing 2	43	Josephin.				protein deubiquitination		ubiquitin-specific protease activity				0		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0364)		AGATCTCATCGGCAGCCTCCT	0.662													27	29	---	---	---	---	PASS	A	51013560	A	A	51013560	2	1	46	1	0	0	0	0	0	0	0	1	7959	1103	39	1		1	JOSD2	19	51013560	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	3793983	51013560	8115423	185	18320										
SIGLEC6	946	broad.mit.edu	37	chr19	52034597	52034597	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctcctcctgcacttcttcgtCtgggtcgtttgtggccactg	10	14	2	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:52034597C>G	uc002pwy.2	-	2	406	c.244G>C	c.(244-246)GAC>CAC	p.D82H	SIGLEC6_uc002pwz.2_Missense_Mutation_p.D82H|SIGLEC6_uc002pxa.2_Missense_Mutation_p.D82H|SIGLEC6_uc010ydb.1_Missense_Mutation_p.D35H|SIGLEC6_uc010ydc.1_Missense_Mutation_p.D71H|SIGLEC6_uc010eoz.1_Missense_Mutation_p.D71H|SIGLEC6_uc010epb.1_Missense_Mutation_p.D35H|SIGLEC6_uc010epa.1_Missense_Mutation_p.D71H	NM_001245	NP_001236	O43699	SIGL6_HUMAN	sialic acid binding Ig-like lectin 6 isoform 1	82	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell-cell signaling	cytoplasm|extracellular region|integral to plasma membrane|membrane fraction|nucleus				ovary(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00115)|OV - Ovarian serous cystadenocarcinoma(262;0.0165)		ACTTCTTCGTCTGGGTCGTTT	0.587													24	44	---	---	---	---	PASS	G	52034597	G	G	52034597	3	3	46	1	0	0	0	0	1	0	0	0	14312	913	32	2	1178	2	SIGLEC6	19	52034597	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	1021037	52034597	7094386	186	18321										
ZNF613	79898	broad.mit.edu	37	chr19	52448967	52448967	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ccagaagttcagtctcagcaGatagtagaatttgcacagaa	9	8	2	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:52448967G>A	uc002pxz.1	+	6	2254	c.1831G>A	c.(1831-1833)GAT>AAT	p.D611N	ZNF613_uc002pya.1_Missense_Mutation_p.D575N	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	611					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		AGTCTCAGCAGATAGTAGAAT	0.418													12	19	---	---	---	---	PASS	A	52448967	A	A	52448967	3	1	46	1	0	0	0	0	1	0	0	0	18035	942	33	2	1845	2	ZNF613	19	52448967	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	414370	52448967	6680016	187	18322										
MYADM	91663	broad.mit.edu	37	chr19	54377415	54377415	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gtggtgcgtggcggtgtacgCcatctgcttcatcctagcgg	15	11	2	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:54377415C>T	uc002qcl.2	+	3	780	c.632C>T	c.(631-633)GCC>GTC	p.A211V	MYADM_uc002qcm.2_Missense_Mutation_p.A211V|MYADM_uc002qcn.2_Missense_Mutation_p.A211V|MYADM_uc002qco.2_Missense_Mutation_p.A211V|MYADM_uc002qcp.2_Missense_Mutation_p.A211V	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	211	MARVEL 2.|Helical; (Potential).					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		GCGGTGTACGCCATCTGCTTC	0.637													25	84	---	---	---	---	PASS	T	54377415	T	T	54377415	3	4	46	1	0	0	0	0	1	0	0	0	10006	739	26	3	634	3	MYADM	19	54377415	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	1928448	54377415	4751568	188	18323										
ZNF606	80095	broad.mit.edu	37	chr19	58489707	58489707	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	actgtgatttctctggtgttGaagtagggctgagtgaccac	13	7	1	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr19:58489707G>A	uc002qqw.2	-	7	2959	c.2341C>T	c.(2341-2343)CAA>TAA	p.Q781*	ZNF606_uc010yhp.1_Nonsense_Mutation_p.Q691*	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	781	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		CTCTGGTGTTGAAGTAGGGCT	0.373													49	68	---	---	---	---	PASS	A	58489707	A	A	58489707	4	1	46	1	0	0	0	0	0	1	0	0	18029	1299	45	2	41	2	ZNF606	19	58489707	Nonsense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	4112292	58489707	639276	189	18324										
PDYN	5173	broad.mit.edu	37	chr20	1961091	1961091	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gtcccacttgagcttgggacGaatgcgccgcaagaagcccc	12	14	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr20:1961091G>A	uc010gaj.2	-	3	885	c.643C>T	c.(643-645)CGT>TGT	p.R215C	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.R215C|PDYN_uc010zpt.1_Missense_Mutation_p.R60C	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	215			R -> C (in SCA23; the mutant PDYN protein is produced, but processing to opioid peptides is dramatically affected, resulting in an approximately 2-fold decreased level of dynorphin B compared to dynorphin A; mutant dynorphin A is neurotoxic to cultured striatal neurons, suggesting a dominant-negative effect).		cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						AGCTTGGGACGAATGCGCCGC	0.587													66	52	---	---	---	---	PASS	A	1961091	A	A	1961091	3	1	46	1	0	0	0	0	1	0	0	0	11699	1058	37	2	125	2	PDYN	20	1961091	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08		1961091	61064429	190	18325										
ATP9A	10079	broad.mit.edu	37	chr20	50342415	50342415	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	atttcgggaacaaactgagaGcaggcaagaagtaagaaata	11	5	0	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr20:50342415G>A	uc002xwg.1	-	3	270	c.270C>T	c.(268-270)TGC>TGT	p.C90C	ATP9A_uc010gih.1_Silent_p.C75C	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	90	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						CAAACTGAGAGCAGGCAAGAA	0.438													8	19	---	---	---	---	PASS	A	50342415	A	A	50342415	2	1	46	1	0	0	0	0	0	0	0	1	1198	963	34	3		3	ATP9A	20	50342415	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	48381324	50342415	12683105	191	18326										
PCK1	5105	broad.mit.edu	37	chr20	56140109	56140109	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gctaaaggtgtccctctagtCtatgaagctctcagctggca	10	11	3	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr20:56140109C>A	uc002xyn.3	+	9	1495	c.1332C>A	c.(1330-1332)GTC>GTA	p.V444V	PCK1_uc010zzm.1_Silent_p.V127V	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	444					gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			TCCCTCTAGTCTATGAAGCTC	0.458													17	34	---	---	---	---	PASS	A	56140109	A	A	56140109	2	1	46	1	0	0	0	0	0	0	0	1	11581	900	32	2		2	PCK1	20	56140109	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	5797694	56140109	6885411	192	18327										
RPS21	6227	broad.mit.edu	37	chr20	60963410	60963410	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	gattggccaaggccgatggcAtcgtctcaaagtaaggttgg	14	8	1	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr20:60963410A>T	uc002ycr.2	+	5	322	c.232A>T	c.(232-234)ATC>TTC	p.I78F	RPS21_uc002ycs.2_Missense_Mutation_p.I78F|RPS21_uc002yct.2_3'UTR|RPS21_uc002ycu.2_Missense_Mutation_p.I78F	NM_001024	NP_001015	P63220	RS21_HUMAN	ribosomal protein S21	78					endocrine pancreas development|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein N-terminus binding|structural constituent of ribosome				0	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			GGCCGATGGCATCGTCTCAAA	0.488													7	9	---	---	---	---	PASS	T	60963410	T	T	60963410	3	4	46	1	0	0	0	0	1	0	0	0	13633	217	8	5	246	5	RPS21	20	60963410	Missense_Mutation	SNP	A	TCGA-22-5477-01A-01D-1632-08	4823301	60963410	2062110	193	18328										
CABLES2	81928	broad.mit.edu	37	chr20	60969315	60969315	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgcttctggctgtccaccctCaggtcactgcaaacatggga	10	13	3	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr20:60969315C>T	uc002ycv.2	-	5	619	c.612G>A	c.(610-612)CTG>CTA	p.L204L		NM_031215	NP_112492	Q9BTV7	CABL2_HUMAN	Cdk5 and Abl enzyme substrate 2	204					cell cycle|cell division|regulation of cell cycle|regulation of cell division		cyclin-dependent protein kinase regulator activity			pancreas(1)	1	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			TGTCCACCCTCAGGTCACTGC	0.637													7	14	---	---	---	---	PASS	T	60969315	T	T	60969315	2	4	46	1	0	0	0	0	0	0	0	1	2530	813	29	2		2	CABLES2	20	60969315	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	5905	60969315	2056205	194	18329										
DSCAM	1826	broad.mit.edu	37	chr21	41648044	41648044	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttttaaccgtgaggtacatgGacttgctgacgtctgcgccc	11	11	1	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr21:41648044G>A	uc002yyq.1	-	11	2788	c.2336C>T	c.(2335-2337)TCC>TTC	p.S779F	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	779	Extracellular (Potential).|Ig-like C2-type 8.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				GAGGTACATGGACTTGCTGAC	0.468													59	12	---	---	---	---	PASS	A	41648044	A	A	41648044	3	1	46	1	0	0	0	0	1	0	0	0	4768	1174	41	2	3794	2	DSCAM	21	41648044	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08		41648044	6481851	195	18330										
ADRBK2	157	broad.mit.edu	37	chr22	26083535	26083535	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cactaccacctttcacaacaCggtgtgttctctgagaagga	8	12	2	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr22:26083535C>T	uc003abx.3	+	11	1005	c.858C>T	c.(856-858)CAC>CAT	p.H286H	ADRBK2_uc010gux.2_Silent_p.H286H|ADRBK2_uc003abw.2_Silent_p.H173H|ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	286	Protein kinase.						ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	TTTCACAACACGGTGTGTTCT	0.403													27	60	---	---	---	---	PASS	T	26083535	T	T	26083535	2	4	46	1	0	0	0	0	0	0	0	1	344	535	19	1		1	ADRBK2	22	26083535	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08		26083535	25221031	196	18331										
TFIP11	24144	broad.mit.edu	37	chr22	26902880	26902880	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgatgaagttgactggcgcaGagtagtcacgggccctgtag	15	8	1	4	rs151208617		TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr22:26902880G>A	uc003acr.2	-	4	598	c.224C>T	c.(223-225)TCT>TTT	p.S75F	TFIP11_uc003acs.2_Missense_Mutation_p.S75F|TFIP11_uc003act.2_Missense_Mutation_p.S75F	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	75					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						GACTGGCGCAGAGTAGTCACG	0.522													18	58	---	---	---	---	PASS	A	26902880	A	A	26902880	3	1	46	1	0	0	0	0	1	0	0	0	15804	942	33	2	2333	2	TFIP11	22	26902880	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	819345	26902880	24401686	197	18332										
XBP1	7494	broad.mit.edu	37	chr22	29192074	29192074	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ataccgccagaatccatgggGagatgttctggaggggtgac	15	8	1	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr22:29192074G>C	uc011akl.1	-	5	582	c.534C>G	c.(532-534)CTC>CTG	p.L178L	XBP1_uc003aec.2_5'UTR|XBP1_uc003aed.2_Missense_Mutation_p.S137C|XBP1_uc003aef.2_5'UTR	NM_001079539	NP_001073007	P17861	XBP1_HUMAN	X-box binding protein 1 isoform XBP1(S)	Error:Variant_position_missing_in_P17861_after_alignment					immune response	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						AATCCATGGGGAGATGTTCTG	0.512													5	175	---	---	---	---	PASS	C	29192074	C	C	29192074	2	2	46	1	0	0	0	0	0	0	0	1	17419	1174	41	2		2	XBP1	22	29192074	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	2289194	29192074	22112492	198	18333										
RAC2	5880	broad.mit.edu	37	chr22	37628865	37628865	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgtggataggagagcggccgGagacggtcgtagtcctcctg	17	9	0	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr22:37628865G>C	uc003arc.2	-	3	318	c.201C>G	c.(199-201)CTC>CTG	p.L67L		NM_002872	NP_002863	P15153	RAC2_HUMAN	ras-related C3 botulinum toxin substrate 2	67					axon guidance|platelet activation|regulation of hydrogen peroxide metabolic process|regulation of respiratory burst|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|protein binding			breast(2)|central_nervous_system(1)|skin(1)	4						AGAGCGGCCGGAGACGGTCGT	0.388													7	38	---	---	---	---	PASS	C	37628865	C	C	37628865	2	2	46	1	0	0	0	0	0	0	0	1	12975	1161	41	2		2	RAC2	22	37628865	Silent	SNP	G	TCGA-22-5477-01A-01D-1632-08	8436791	37628865	13675701	199	18334										
EFCAB6	64800	broad.mit.edu	37	chr22	44028021	44028021	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	agcctcctagggaaaagcttCaggcattcttctgcggtgat	11	10	3	1			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr22:44028021C>T	uc003bdy.1	-	19	2411	c.2196G>A	c.(2194-2196)CTG>CTA	p.L732L	EFCAB6_uc003bdz.1_Silent_p.L580L|EFCAB6_uc010gzi.1_Silent_p.L580L|EFCAB6_uc010gzj.1_Silent_p.L30L|EFCAB6_uc010gzk.1_RNA	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	732					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				GGAAAAGCTTCAGGCATTCTT	0.567													53	124	---	---	---	---	PASS	T	44028021	T	T	44028021	2	4	46	1	0	0	0	0	0	0	0	1	4939	813	29	2		2	EFCAB6	22	44028021	Silent	SNP	C	TCGA-22-5477-01A-01D-1632-08	6399156	44028021	7276545	200	18335										
SHANK3	85358	broad.mit.edu	37	chr22	51160628	51160628	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	cgcctctgccgggctggcctCtgccgccgggcctgcccgcc	14	21	2	0			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chr22:51160628C>G	uc003bne.1	+	22	4415	c.4415C>G	c.(4414-4416)TCT>TGT	p.S1472C	SHANK3_uc003bnf.1_Missense_Mutation_p.S919C|SHANK3_uc010hbg.1_Missense_Mutation_p.S654C	NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	1472										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		GGGCTGGCCTCTGCCGCCGGG	0.711													6	12	---	---	---	---	PASS	G	51160628	G	G	51160628	3	3	46	1	0	0	0	0	1	0	0	0	14266	913	32	2	4501	2	SHANK3	22	51160628	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	7132607	51160628	143938	201	18336										
CNKSR2	22866	broad.mit.edu	37	chrX	21670577	21670577	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	acccactgagtatttcttctGaagtagatgtaatcacttcc	6	10	3	3			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chrX:21670577G>A	uc004czx.1	+	22	3079	c.3043G>A	c.(3043-3045)GAA>AAA	p.E1015K	CNKSR2_uc011mjo.1_Missense_Mutation_p.E985K	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	1015					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						TATTTCTTCTGAAGTAGATGT	0.398													37	8	---	---	---	---	PASS	A	21670577	A	A	21670577	3	1	46	1	0	0	0	0	1	0	0	0	3607	1291	45	2	3138	2	CNKSR2	23	21670577	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08		21670577	133599983	202	18337										
HDX	139324	broad.mit.edu	37	chrX	83723533	83723533	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ttggtttgatgatgcaaaatGaggagaaaaattactccgta	10	4	0	4			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chrX:83723533G>C	uc004eek.1	-	3	1307	c.1198C>G	c.(1198-1200)CAT>GAT	p.H400D	HDX_uc011mqv.1_Missense_Mutation_p.H400D|HDX_uc004eel.1_Missense_Mutation_p.H342D	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	400						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						GATGCAAAATGAGGAGAAAAA	0.318													33	3	---	---	---	---	PASS	C	83723533	C	C	83723533	3	2	46	1	0	0	0	0	1	0	0	0	7026	1290	45	2	906	2	HDX	23	83723533	Missense_Mutation	SNP	G	TCGA-22-5477-01A-01D-1632-08	62052956	83723533	71547027	203	18338										
PCDH11X	27328	broad.mit.edu	37	chrX	91132573	91132573	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	tgcagatgctggcaaacctcCtttgaatcagtcagcaatgc	9	11	2	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chrX:91132573C>A	uc004efk.1	+	2	2179	c.1334C>A	c.(1333-1335)CCT>CAT	p.P445H	PCDH11X_uc004efl.1_Missense_Mutation_p.P445H|PCDH11X_uc004efo.1_Missense_Mutation_p.P445H|PCDH11X_uc010nmv.1_Missense_Mutation_p.P445H|PCDH11X_uc004efm.1_Missense_Mutation_p.P445H|PCDH11X_uc004efn.1_Missense_Mutation_p.P445H|PCDH11X_uc004efh.1_Missense_Mutation_p.P445H|PCDH11X_uc004efj.1_Missense_Mutation_p.P445H	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	445	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						GGCAAACCTCCTTTGAATCAG	0.403													81	5	---	---	---	---	PASS	A	91132573	A	A	91132573	3	1	46	1	0	0	0	0	1	0	0	0	11508	681	24	3	1340	3	PCDH11X	23	91132573	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	7409040	91132573	64137987	204	18339										
CNGA2	1260	broad.mit.edu	37	chrX	150911982	150911982	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.373134328358209	75	9.10845859922225e-23	3.42850063322504	3.98868277058588	3.03503937007874	0.754024952740554	1	53	ctggtccacactgactctcaCtaccattggggagacaccac	8	15	1	2			TCGA-22-5477-01A-01D-1632-08	TCGA-22-5477-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	e7ebc6fb-0926-4c8a-a67b-0c6b9c1ffaba	186fabc6-490c-4d90-ad23-ce9ad326fc1b	g.chrX:150911982C>T	uc004fey.1	+	7	1231	c.1007C>T	c.(1006-1008)ACT>ATT	p.T336I		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	336	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CTGACTCTCACTACCATTGGG	0.507													102	8	---	---	---	---	PASS	T	150911982	T	T	150911982	3	4	46	1	0	0	0	0	1	0	0	0	3597	565	20	3	1029	3	CNGA2	23	150911982	Missense_Mutation	SNP	C	TCGA-22-5477-01A-01D-1632-08	59779409	150911982	4358578	205	18340										
TAS1R3	83756	broad.mit.edu	37	chr1	1267896	1267896	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ttggcttcctccagaggggtGcccagctgcacgagttcccc	12	15	0	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:1267896G>A	uc010nyk.1	+	3	985	c.985G>A	c.(985-987)GCC>ACC	p.A329T		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	329	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)	Aspartame(DB00168)	CCAGAGGGGTGCCCAGCTGCA	0.692													7	26	---	---	---	---	PASS	A	1267896	A	A	1267896	3	1	47	1	0	0	0	0	1	0	0	0	15561	1319	46	3	995	3	TAS1R3	1	1267896	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08		1267896	247982725	1	18341										
PADI4	23569	broad.mit.edu	37	chr1	17674483	17674483	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gccccacacaaaacgctgccCgtggtcttcgactctccaag	8	17	2	0	rs144009145	byFrequency	TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:17674483C>A	uc001baj.2	+	10	1123	c.1095C>A	c.(1093-1095)CCC>CCA	p.P365P	PADI4_uc009vpc.2_Silent_p.P365P	NM_012387	NP_036519	Q9UM07	PADI4_HUMAN	peptidyl arginine deiminase, type IV	365					chromatin modification|peptidyl-citrulline biosynthetic process from peptidyl-arginine|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000338)|Lung NSC(340;0.00042)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00537)|BRCA - Breast invasive adenocarcinoma(304;8.54e-06)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(64;0.000223)|KIRC - Kidney renal clear cell carcinoma(64;0.00313)|STAD - Stomach adenocarcinoma(196;0.00707)|READ - Rectum adenocarcinoma(331;0.0689)|Lung(427;0.199)	L-Citrulline(DB00155)	AAACGCTGCCCGTGGTCTTCG	0.592													7	25	---	---	---	---	PASS	A	17674483	A	A	17674483	2	1	47	1	0	0	0	0	0	0	0	1	11380	639	23	1		1	PADI4	1	17674483	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	16406587	17674483	231576138	2	18342										
PLA2G2F	64600	broad.mit.edu	37	chr1	20474719	20474719	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agagtgtgacaagcagacatGcatgtgtgacaagaacatgg	13	6	0	5			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:20474719G>A	uc009vpp.1	+	5	559	c.461G>A	c.(460-462)TGC>TAC	p.C154Y		NM_022819	NP_073730	Q9BZM2	PA2GF_HUMAN	phospholipase A2, group IIF	111					lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|phospholipase A2 activity			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000247)|Lung NSC(340;0.000285)|Breast(348;0.000812)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;8.01e-05)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.000524)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)		AAGCAGACATGCATGTGTGAC	0.567													25	56	---	---	---	---	PASS	A	20474719	A	A	20474719	3	1	47	1	0	0	0	0	1	0	0	0	11999	1319	46	3	479	3	PLA2G2F	1	20474719	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	2800236	20474719	228775902	3	18343										
SRRM1	10250	broad.mit.edu	37	chr1	24995804	24995804	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	attctccacctcccaaacaaAgaagctccccagtcaccaag	4	17	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:24995804A>G	uc001bjm.2	+	14	2154	c.1930A>G	c.(1930-1932)AGA>GGA	p.R644G	SRRM1_uc010oel.1_Missense_Mutation_p.R656G|SRRM1_uc009vrh.1_Missense_Mutation_p.R617G|SRRM1_uc009vri.1_Missense_Mutation_p.R573G	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	644	Pro-rich.|Necessary for speckles and matrix localization.|Arg-rich.|Ser-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		TCCCAAACAAAGAAGCTCCCC	0.552													14	37	---	---	---	---	PASS	G	24995804	G	G	24995804	3	3	47	1	0	0	0	0	1	0	0	0	15167	64	3	5	1984	5	SRRM1	1	24995804	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	4521085	24995804	224254817	4	18344										
TCTEX1D1	200132	broad.mit.edu	37	chr1	67243030	67243030	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	acaggcagagcatacttattGgaagcagatgcctctgggat	12	8	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:67243030G>T	uc001dcv.2	+	5	564	c.433G>T	c.(433-435)GGA>TGA	p.G145*	TCTEX1D1_uc009wau.2_RNA|TCTEX1D1_uc009wav.2_RNA	NM_152665	NP_689878	Q8N7M0	TC1D1_HUMAN	Tctex1 domain containing 1	145											0						CATACTTATTGGAAGCAGATG	0.393													42	88	---	---	---	---	PASS	T	67243030	T	T	67243030	4	4	47	1	0	0	0	0	0	1	0	0	15716	1349	47	3	447	3	TCTEX1D1	1	67243030	Nonsense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	42247226	67243030	182007591	5	18345										
AK5	26289	broad.mit.edu	37	chr1	77752625	77752625	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	acatattttgttatatttcaGagccttttgaatggactgat	7	5	1	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:77752625G>T	uc001dhn.2	+	2	318	c.61_splice	c.e2-1	p.S21_splice	AK5_uc001dho.2_Intron|AK5_uc001dhm.1_Splice_Site_p.S21_splice	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1						ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						TTATATTTCAGAGCCTTTTGA	0.274													11	43	---	---	---	---	PASS	T	77752625	T	T	77752625	5	4	47	1	0	0	0	0	0	0	1	0	443	956	33	2	66	2	AK5	1	77752625	Splice_Site	SNP	G	TCGA-22-5478-01A-01D-1632-08	10509595	77752625	171497996	6	18346										
GSTM5	2949	broad.mit.edu	37	chr1	110255794	110255794	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aaaaattcaagctgggcctgGactttcccaatgtaggtgca	10	9	1	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:110255794G>T	uc001dyn.2	+	3	237	c.166G>T	c.(166-168)GAC>TAC	p.D56Y	GSTM5_uc010ovu.1_5'UTR	NM_000851	NP_000842	P46439	GSTM5_HUMAN	glutathione S-transferase mu 5	56	GST N-terminal.				xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity			central_nervous_system(6)	6		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Colorectal(144;0.0131)|all cancers(265;0.0252)|Epithelial(280;0.0265)|Lung(183;0.0425)|COAD - Colon adenocarcinoma(174;0.0474)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	GCTGGGCCTGGACTTTCCCAA	0.537													16	53	---	---	---	---	PASS	T	110255794	T	T	110255794	3	4	47	1	0	0	0	0	1	0	0	0	6841	1174	41	2	176	2	GSTM5	1	110255794	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	32503169	110255794	138994827	7	18347										
HORMAD1	84072	broad.mit.edu	37	chr1	150680853	150680853	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gctttcttggtgtcagtagaCaacatgctagattcgttgct	10	8	2	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:150680853C>G	uc001evk.1	-	9	532	c.426G>C	c.(424-426)TTG>TTC	p.L142F	HORMAD1_uc001evl.1_Missense_Mutation_p.L135F|HORMAD1_uc001evm.1_Missense_Mutation_p.L62F	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	142	HORMA.				blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			TGTCAGTAGACAACATGCTAG	0.328													15	38	---	---	---	---	PASS	G	150680853	G	G	150680853	3	3	47	1	0	0	0	0	1	0	0	0	7286	477	17	4	786	4	HORMAD1	1	150680853	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	40425059	150680853	98569768	8	18348										
OR6Y1	391112	broad.mit.edu	37	chr1	158516935	158516935	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tttttaactactgaaagcccCatttccctggggcccacttc	6	14	0	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:158516935C>G	uc010pil.1	-	1	961	c.961G>C	c.(961-963)GGG>CGG	p.G321R		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	321	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					CTGAAAGCCCCATTTCCCTGG	0.463													18	45	---	---	---	---	PASS	G	158516935	G	G	158516935	3	3	47	1	0	0	0	0	1	0	0	0	11213	594	21	4	18	4	OR6Y1	1	158516935	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	7836082	158516935	90733686	9	18349										
OR6Y1	391112	broad.mit.edu	37	chr1	158517161	158517161	+	Silent	SNP	G	T	T													0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	acggtcaggtgggaggcacaGgtggagaatgccttttggcg							TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:158517161G>T	uc010pil.1	-	1	735	c.735C>A	c.(733-735)ACC>ACA	p.T245T		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GGGAGGCACAGGTGGAGAATG	0.507													5	49	---	---	---	---	PASS	T	158517161	T	T	158517161	2	4	47	1	0	0	0	0	0	0	0	1	11213	987	35	3		3	OR6Y1	1	158517161	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	226	158517161	90733460	10	18350	419	2								
OR6Y1	391112	broad.mit.edu	37	chr1	158517162	158517162	+	Missense_Mutation	SNP	G	T	T													0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cggtcaggtgggaggcacagGtggagaatgccttttggcgg							TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:158517162G>T	uc010pil.1	-	1	734	c.734C>A	c.(733-735)ACC>AAC	p.T245N		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GGAGGCACAGGTGGAGAATGC	0.502													5	49	---	---	---	---	PASS	T	158517162	T	T	158517162	3	4	47	1	0	0	0	0	1	0	0	0	11213	1261	44	3	245	3	OR6Y1	1	158517162	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	1	158517162	90733459	11	18351	419	2								
SPTA1	6708	broad.mit.edu	37	chr1	158615049	158615049	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctccaaatcatctctctctaGcttgacagcttgaagctttt	5	12	3	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:158615049G>A	uc001fst.1	-	29	4322	c.4123C>T	c.(4123-4125)CTA>TTA	p.L1375L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1375	Spectrin 13.				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)					TCTCTCTCTAGCTTGACAGCT	0.478													29	97	---	---	---	---	PASS	A	158615049	A	A	158615049	2	1	47	1	0	0	0	0	0	0	0	1	15115	962	34	3		3	SPTA1	1	158615049	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	97887	158615049	90635572	12	18352										
OR10J3	441911	broad.mit.edu	37	chr1	159283536	159283536	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agacagagttttttgccccaCggctctgtgcagagcatctt	10	11	2	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:159283536C>T	uc010piu.1	-	1	914	c.914G>A	c.(913-915)CGT>CAT	p.R305H		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					TTTTGCCCCACGGCTCTGTGC	0.428													24	66	---	---	---	---	PASS	T	159283536	T	T	159283536	3	4	47	1	0	0	0	0	1	0	0	0	10911	536	19	1	77	1	OR10J3	1	159283536	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	668487	159283536	89967085	13	18353										
RABGAP1L	9910	broad.mit.edu	37	chr1	174188304	174188304	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgcagaactgaaatggaggtCagagcttcattacagaaggt	12	6	2	4			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:174188304C>T	uc001gjx.2	+	2	204	c.9C>T	c.(7-9)GTC>GTT	p.V3V	RABGAP1L_uc009wwq.1_Silent_p.V3V|RABGAP1L_uc001gjw.2_Silent_p.V3V	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	3					regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						AAATGGAGGTCAGAGCTTCAT	0.353													5	31	---	---	---	---	PASS	T	174188304	T	T	174188304	2	4	47	1	0	0	0	0	0	0	0	1	12965	813	29	2		2	RABGAP1L	1	174188304	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	14904768	174188304	75062317	14	18354										
TDRD5	163589	broad.mit.edu	37	chr1	179631350	179631350	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgggaaaaggaggtgatgctGcctcccatctatttactgca	11	9	1	1	rs145054790		TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:179631350G>A	uc001gnf.1	+	14	2522	c.2272G>A	c.(2272-2274)GCC>ACC	p.A758T	TDRD5_uc010pnp.1_Missense_Mutation_p.A812T|TDRD5_uc001gnh.1_Missense_Mutation_p.A313T	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	758					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						AGGTGATGCTGCCTCCCATCT	0.433													13	48	---	---	---	---	PASS	A	179631350	A	A	179631350	3	1	47	1	0	0	0	0	1	0	0	0	15730	1319	46	3	2322	3	TDRD5	1	179631350	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	5443046	179631350	69619271	15	18355										
PLA2G4A	5321	broad.mit.edu	37	chr1	186934540	186934540	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tttttcttttatgtttttaaGatcctgatgaatttgagcga	7	4	1	4			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:186934540G>T	uc001gsc.2	+	15	1785	c.1580_splice	c.e15-1	p.D527_splice	PLA2G4A_uc010pos.1_Splice_Site_p.D467_splice	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA						phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	ATGTTTTTAAGATCCTGATGA	0.308													12	33	---	---	---	---	PASS	T	186934540	T	T	186934540	5	4	47	1	0	0	0	0	0	0	1	0	12001	956	33	2	1633	2	PLA2G4A	1	186934540	Splice_Site	SNP	G	TCGA-22-5478-01A-01D-1632-08	7303190	186934540	62316081	16	18356										
F13B	2165	broad.mit.edu	37	chr1	197021801	197021801	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ggatatttcacttctcctctGttgcactgcacagataattc	6	11	3	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:197021801G>T	uc001gtt.1	-	9	1562	c.1518C>A	c.(1516-1518)AAC>AAA	p.N506K		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	506	Sushi 8.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CTTCTCCTCTGTTGCACTGCA	0.343													16	36	---	---	---	---	PASS	T	197021801	T	T	197021801	3	4	47	1	0	0	0	0	1	0	0	0	5341	1368	48	3	483	3	F13B	1	197021801	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	10087261	197021801	52228820	17	18357										
KDM5B	10765	broad.mit.edu	37	chr1	202724408	202724408	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gaacttctcaccagtgcaagTagttaattgaatagctccag	8	9	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:202724408T>C	uc001gyf.2	-	11	1645	c.1529A>G	c.(1528-1530)TAC>TGC	p.Y510C	KDM5B_uc009xag.2_Missense_Mutation_p.Y546C|KDM5B_uc001gyg.1_Missense_Mutation_p.Y352C	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	510	JmjC.				negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						CCAGTGCAAGTAGTTAATTGA	0.408													24	58	---	---	---	---	PASS	C	202724408	C	C	202724408	3	2	47	1	0	0	0	0	1	0	0	0	8134	1638	57	5	3173	5	KDM5B	1	202724408	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	5702607	202724408	46526213	18	18358										
KCNH1	3756	broad.mit.edu	37	chr1	211093036	211093036	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctcaatgtctgtggatggggCgatgttcccaaagcccacac	11	12	2	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:211093036C>A	uc001hib.2	-	7	1578	c.1408G>T	c.(1408-1410)GCC>TCC	p.A470S	KCNH1_uc001hic.2_Missense_Mutation_p.A443S	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	470					myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		GTGGATGGGGCGATGTTCCCA	0.507													4	107	---	---	---	---	PASS	A	211093036	A	A	211093036	3	1	47	1	0	0	0	0	1	0	0	0	8031	768	27	1	1581	1	KCNH1	1	211093036	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	8368628	211093036	38157585	19	18359										
LEFTY1	10637	broad.mit.edu	37	chr1	226075599	226075599	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cgcccgtgcctgtgcagcgcGgccttggggaccggctcctg	16	16	0	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:226075599G>T	uc001hpo.2	-	2	454	c.384C>A	c.(382-384)GCC>GCA	p.A128A	LEFTY1_uc010pvj.1_Missense_Mutation_p.R237S|LEFTY1_uc009xej.1_Silent_p.A128A	NM_020997	NP_066277	O75610	LFTY1_HUMAN	left-right determination, factor B	128					cell growth|multicellular organismal development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)					TGTGCAGCGCGGCCTTGGGGA	0.746													3	2	---	---	---	---	PASS	T	226075599	T	T	226075599	2	4	47	1	0	0	0	0	0	0	0	1	8715	1103	39	1		1	LEFTY1	1	226075599	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	14982563	226075599	23175022	20	18360										
FMN2	56776	broad.mit.edu	37	chr1	240255953	240255953	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ccagctcgggctcggacacgGacatctatagcttccattcg	10	14	1	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:240255953G>T	uc010pyd.1	+	1	769	c.544G>T	c.(544-546)GAC>TAC	p.D182Y	FMN2_uc010pye.1_Missense_Mutation_p.D182Y	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	182					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CTCGGACACGGACATCTATAG	0.532													13	25	---	---	---	---	PASS	T	240255953	T	T	240255953	3	4	47	1	0	0	0	0	1	0	0	0	5950	1174	41	2	546	2	FMN2	1	240255953	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	14180354	240255953	8994668	21	18361										
OR2W3	343171	broad.mit.edu	37	chr1	248059542	248059542	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gtgtttatcctgctctcttaCagctacattgtgagggctgt	10	9	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr1:248059542C>G	uc001idp.1	+	3	923	c.654C>G	c.(652-654)TAC>TAG	p.Y218*	OR2W3_uc010pzb.1_Nonsense_Mutation_p.Y218*	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	218	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TGCTCTCTTACAGCTACATTG	0.567													40	127	---	---	---	---	PASS	G	248059542	G	G	248059542	4	3	47	1	0	0	0	0	0	1	0	0	11033	489	17	4	656	4	OR2W3	1	248059542	Nonsense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	7803589	248059542	1191079	22	18362										
WDR35	57539	broad.mit.edu	37	chr2	20113879	20113879	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tttctaaagcaaggtcttcaTactgctgtttctgttctgaa	7	8	5	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:20113879T>C	uc002rdi.2	-	27	3422	c.3314A>G	c.(3313-3315)TAT>TGT	p.Y1105C	WDR35_uc002rdj.2_Missense_Mutation_p.Y1094C|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Intron	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	1105										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAGGTCTTCATACTGCTGTTT	0.398													42	68	---	---	---	---	PASS	C	20113879	C	C	20113879	3	2	47	1	0	0	0	0	1	0	0	0	17286	1406	49	5	239	5	WDR35	2	20113879	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08		20113879	223085494	23	18363										
C2orf84	653140	broad.mit.edu	37	chr2	24413499	24413499	+	Nonstop_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gcacatactggttccagaatGagccaccgccacagccctcc	8	17	0	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:24413499G>T	uc002rfc.2	+	6	706	c.620G>T	c.(619-621)TGA>TTA	p.*207L	C2orf84_uc010eyc.2_RNA	NM_001040710	NP_001035800	Q86W67	CB084_HUMAN	hypothetical protein LOC653140	207											0						GTTCCAGAATGAGCCACCGCC	0.617													6	27	---	---	---	---	PASS	T	24413499	T	T	24413499	4	4	47	1	0	0	0	0	0	0	0	0	2199	1285	45	2	638	2	C2orf84	2	24413499	Nonstop_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	4299620	24413499	218785874	24	18364										
GALNT14	79623	broad.mit.edu	37	chr2	31133804	31133804	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cccagtgctggctcatgagtGaggactcacatgggttgacg	14	10	2	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:31133804G>A	uc002rnr.2	-	15	2241	c.1622C>T	c.(1621-1623)TCA>TTA	p.S541L	GALNT14_uc002rnq.2_Missense_Mutation_p.S521L|GALNT14_uc002rns.2_Missense_Mutation_p.S546L|GALNT14_uc010ymr.1_Missense_Mutation_p.S506L	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	541	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					GCTCATGAGTGAGGACTCACA	0.567													22	56	---	---	---	---	PASS	A	31133804	A	A	31133804	3	1	47	1	0	0	0	0	1	0	0	0	6212	1294	45	2	40	2	GALNT14	2	31133804	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	6720305	31133804	212065569	25	18365										
MEMO1	51072	broad.mit.edu	37	chr2	32117201	32117201	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	taatggtaaactcatccttaTggcttaaagaaaacagaaaa	6	6	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:32117201T>C	uc002rnx.2	-	6	822	c.440A>G	c.(439-441)CAT>CGT	p.H147R	MEMO1_uc010ymu.1_Missense_Mutation_p.H124R|MEMO1_uc010ezq.2_Missense_Mutation_p.H147R|MEMO1_uc002rny.2_Intron|MEMO1_uc002rnz.2_RNA	NM_015955	NP_057039	Q9Y316	MEMO1_HUMAN	mediator of cell motility 1 isoform 1	147					regulation of microtubule-based process	cytosol|nucleus				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)					CTCATCCTTATGGCTTAAAGA	0.328													39	70	---	---	---	---	PASS	C	32117201	C	C	32117201	3	2	47	1	0	0	0	0	1	0	0	0	9471	1464	51	5	469	5	MEMO1	2	32117201	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	983397	32117201	211082172	26	18366										
C2orf63	130162	broad.mit.edu	37	chr2	55435829	55435829	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	atcatcttccattagttcttCaacaatgccttggtcacctg	5	12	5	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:55435829C>A	uc002ryi.2	-	8	1178	c.832G>T	c.(832-834)GAA>TAA	p.E278*	C2orf63_uc002ryh.2_Intron|C2orf63_uc002ryj.2_Nonsense_Mutation_p.E156*	NM_152385	NP_689598	Q8NHS4	CB063_HUMAN	hypothetical protein LOC130162 isoform 1	278							binding			ovary(2)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(58;0.179)|Lung(47;0.189)			ATTAGTTCTTCAACAATGCCT	0.313													47	63	---	---	---	---	PASS	A	55435829	A	A	55435829	4	1	47	1	0	0	0	0	0	1	0	0	2182	835	29	2	952	2	C2orf63	2	55435829	Nonsense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	23318628	55435829	187763544	27	18367										
MPHOSPH10	10199	broad.mit.edu	37	chr2	71376518	71376518	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tagatcaagcagggaaatacAgcaaaacagtagcttcggag	11	7	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:71376518A>T	uc002sht.1	+	10	2183	c.1831A>T	c.(1831-1833)AGC>TGC	p.S611C		NM_005791	NP_005782	O00566	MPP10_HUMAN	M-phase phosphoprotein 10	611					RNA splicing, via transesterification reactions|rRNA processing	chromosome|nucleolus|small nucleolar ribonucleoprotein complex	protein binding			skin(2)|ovary(1)	3						AGGGAAATACAGCAAAACAGT	0.408													19	17	---	---	---	---	PASS	T	71376518	T	T	71376518	3	4	47	1	0	0	0	0	1	0	0	0	9725	188	7	5	1869	5	MPHOSPH10	2	71376518	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	15940689	71376518	171822855	28	18368										
DYSF	8291	broad.mit.edu	37	chr2	71743340	71743340	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tcaacttgtttgactctcctGgggagctgtttgatgagccc	11	10	2	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:71743340G>T	uc002sie.2	+	8	1199	c.823G>T	c.(823-825)GGG>TGG	p.G275W	DYSF_uc010feg.2_Missense_Mutation_p.G306W|DYSF_uc010feh.2_Missense_Mutation_p.G275W|DYSF_uc002sig.3_Missense_Mutation_p.G275W|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.G275W|DYSF_uc010fef.2_Missense_Mutation_p.G306W|DYSF_uc010fei.2_Missense_Mutation_p.G306W|DYSF_uc010fek.2_Missense_Mutation_p.G307W|DYSF_uc010fej.2_Missense_Mutation_p.G276W|DYSF_uc010fel.2_Missense_Mutation_p.G276W|DYSF_uc010feo.2_Missense_Mutation_p.G307W|DYSF_uc010fem.2_Missense_Mutation_p.G276W|DYSF_uc010fen.2_Missense_Mutation_p.G307W|DYSF_uc002sif.2_Missense_Mutation_p.G276W	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	275	Cytoplasmic (Potential).|C2 2.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						TGACTCTCCTGGGGAGCTGTT	0.502													21	25	---	---	---	---	PASS	T	71743340	T	T	71743340	3	4	47	1	0	0	0	0	1	0	0	0	4859	1348	47	3	1045	3	DYSF	2	71743340	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	366822	71743340	171456033	29	18369										
HK2	3099	broad.mit.edu	37	chr2	75113668	75113668	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gatgcgcaacgtggaactggTggaaggagaagaggggcgga	20	5	0	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:75113668T>A	uc002snd.2	+	15	4013	c.2087T>A	c.(2086-2088)GTG>GAG	p.V696E		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	696	Catalytic.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						GTGGAACTGGTGGAAGGAGAA	0.572													10	67	---	---	---	---	PASS	A	75113668	A	A	75113668	3	1	47	1	0	0	0	0	1	0	0	0	7191	1696	59	5	2145	5	HK2	2	75113668	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	3370328	75113668	168085705	30	18370										
REG1A	5967	broad.mit.edu	37	chr2	79349183	79349183	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aggccgagggtgcctttgtgGcctcactgattaaggagagt	15	8	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:79349183G>C	uc002snz.2	+	4	356	c.253G>C	c.(253-255)GCC>CCC	p.A85P	REG1A_uc010ffx.1_3'UTR|REG1A_uc010ysd.1_Missense_Mutation_p.A85P	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	85	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						TGCCTTTGTGGCCTCACTGAT	0.507													43	76	---	---	---	---	PASS	C	79349183	C	C	79349183	3	2	47	1	0	0	0	0	1	0	0	0	13210	1203	42	4	263	4	REG1A	2	79349183	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	4235515	79349183	163850190	31	18371										
LRRTM1	347730	broad.mit.edu	37	chr2	80530771	80530771	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gacaggttgtggggcgcctcGgtgaggttgagcgcctcgca	18	10	0	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:80530771G>C	uc002sok.1	-	2	444	c.174C>G	c.(172-174)ACC>ACG	p.T58T	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	58	LRRNT.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GGGGCGCCTCGGTGAGGTTGA	0.701										HNSCC(69;0.2)			11	49	---	---	---	---	PASS	C	80530771	C	C	80530771	2	2	47	1	0	0	0	0	0	0	0	1	9039	1103	39	4		4	LRRTM1	2	80530771	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	1181588	80530771	162668602	32	18372										
DBI	1622	broad.mit.edu	37	chr2	120129848	120129848	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	caaggaagatgccatgaaagCttacatcaacaaagtagaag	9	7	1	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:120129848C>G	uc002tlv.2	+	4	342	c.218C>G	c.(217-219)GCT>GGT	p.A73G	DBI_uc010yyh.1_Missense_Mutation_p.A90G|DBI_uc010yyi.1_Missense_Mutation_p.A90G|DBI_uc010yyj.1_RNA|DBI_uc010yyk.1_Missense_Mutation_p.A115G|DBI_uc010yyl.1_Missense_Mutation_p.A90G|DBI_uc010yym.1_Missense_Mutation_p.A83G|DBI_uc010yyn.1_Missense_Mutation_p.A90G|DBI_uc002tlw.2_Missense_Mutation_p.A90G|DBI_uc010yyo.1_RNA|DBI_uc002tlx.2_Missense_Mutation_p.A74G	NM_001079862	NP_001073331	P07108	ACBP_HUMAN	diazepam binding inhibitor isoform 3	73	ACB.				transport		benzodiazepine receptor binding|fatty-acyl-CoA binding				0						GCCATGAAAGCTTACATCAAC	0.448													18	58	---	---	---	---	PASS	G	120129848	G	G	120129848	3	3	47	1	0	0	0	0	1	0	0	0	4251	797	28	4	538	4	DBI	2	120129848	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	39599077	120129848	123069525	33	18373										
MYO7B	4648	broad.mit.edu	37	chr2	128394440	128394440	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agcacctacttccacatggcGctggggagcctgggccgtgg	15	13	0	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:128394440G>A	uc002top.2	+	46	6254	c.6201G>A	c.(6199-6201)GCG>GCA	p.A2067A	MYO7B_uc002tos.1_Silent_p.A177A|MYO7B_uc002tot.2_Silent_p.A177A	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	2067	FERM 2.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		TCCACATGGCGCTGGGGAGCC	0.637													9	50	---	---	---	---	PASS	A	128394440	A	A	128394440	2	1	47	1	0	0	0	0	0	0	0	1	10083	1074	38	1		1	MYO7B	2	128394440	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	8264592	128394440	114804933	34	18374										
NCKAP5	344148	broad.mit.edu	37	chr2	133531428	133531428	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tacagaatctgcaactgcatCgtcttcatcctcttgcaagt	6	12	4	1	rs150198489	by1000genomes	TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:133531428C>A	uc002ttp.2	-	16	5463	c.5089G>T	c.(5089-5091)GAT>TAT	p.D1697Y	NCKAP5_uc002ttq.2_Missense_Mutation_p.D378Y	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1697							protein binding				0						GCAACTGCATCGTCTTCATCC	0.333													22	90	---	---	---	---	PASS	A	133531428	A	A	133531428	3	1	47	1	0	0	0	0	1	0	0	0	10223	884	31	2	660	2	NCKAP5	2	133531428	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	5136988	133531428	109667945	35	18375										
TBR1	10716	broad.mit.edu	37	chr2	162276709	162276709	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	attttttttctttgccagatTacacaactgaaaatagatca	4	7	2	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:162276709T>G	uc002ubw.1	+	5	1433	c.1131T>G	c.(1129-1131)ATT>ATG	p.I377M	TBR1_uc010foy.2_Missense_Mutation_p.I90M	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	377	T-box.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						TTTGCCAGATTACACAACTGA	0.358													3	56	---	---	---	---	PASS	G	162276709	G	G	162276709	3	3	47	1	0	0	0	0	1	0	0	0	15644	1742	61	5	1149	5	TBR1	2	162276709	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	28745281	162276709	80922664	36	18376										
SLC38A11	151258	broad.mit.edu	37	chr2	165802148	165802148	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aacagagaggagcagataccCtggaaagccgaaagttttat	11	7	0	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:165802148C>A	uc002ucv.1	-	5	688	c.151G>T	c.(151-153)GGG>TGG	p.G51W	SLC38A11_uc002ucu.1_Missense_Mutation_p.G51W|SLC38A11_uc002ucw.1_Missense_Mutation_p.G51W	NM_173512	NP_775783	Q08AI6	S38AB_HUMAN	solute carrier family 38, member 11	51	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane				ovary(1)	1						AGCAGATACCCTGGAAAGCCG	0.388													12	60	---	---	---	---	PASS	A	165802148	A	A	165802148	3	1	47	1	0	0	0	0	1	0	0	0	14603	681	24	3	1035	3	SLC38A11	2	165802148	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	3525439	165802148	77397225	37	18377										
SCN7A	6332	broad.mit.edu	37	chr2	167328866	167328866	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aatcgagccagttccatggaTcaccgaggaaggaaaatgat	11	8	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:167328866T>A	uc002udu.1	-	5	660	c.533A>T	c.(532-534)GAT>GTT	p.D178V	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	178					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						GTTCCATGGATCACCGAGGAA	0.353													3	7	---	---	---	---	PASS	A	167328866	A	A	167328866	3	1	47	1	0	0	0	0	1	0	0	0	13923	1435	50	5	4599	5	SCN7A	2	167328866	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	1526718	167328866	75870507	38	18378										
TTN	7273	broad.mit.edu	37	chr2	179422805	179422805	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ttctcagcagtaatttcggtAttaaatctcatggttgcctt	7	8	2	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:179422805A>G	uc010zfg.1	-	277	79796	c.79572T>C	c.(79570-79572)AAT>AAC	p.N26524N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.N20219N|TTN_uc010zfi.1_Silent_p.N20152N|TTN_uc010zfj.1_Silent_p.N20027N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27451							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)			TAATTTCGGTATTAAATCTCA	0.428													29	66	---	---	---	---	PASS	G	179422805	G	G	179422805	2	3	47	1	0	0	0	0	0	0	0	1	16732	446	16	5		5	TTN	2	179422805	Silent	SNP	A	TCGA-22-5478-01A-01D-1632-08	12093939	179422805	63776568	39	18379										
TTN	7273	broad.mit.edu	37	chr2	179455978	179455978	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgtacggctactgttttgctAccggctgcattggaaactgt	11	9	0	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:179455978A>T	uc010zfg.1	-	253	52994	c.52770T>A	c.(52768-52770)GGT>GGA	p.G17590G	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G11285G|TTN_uc010zfi.1_Silent_p.G11218G|TTN_uc010zfj.1_Silent_p.G11093G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	18517							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)			CTGTTTTGCTACCGGCTGCAT	0.418													11	245	---	---	---	---	PASS	T	179455978	T	T	179455978	2	4	47	1	0	0	0	0	0	0	0	1	16732	378	14	5		5	TTN	2	179455978	Silent	SNP	A	TCGA-22-5478-01A-01D-1632-08	33173	179455978	63743395	40	18380										
TTN	7273	broad.mit.edu	37	chr2	179611166	179611166	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctgcttctcaaattctttaaCgtctttttcacttaattcaa	2	10	5	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:179611166C>A	uc002unb.2	-	46	16185	c.15961G>T	c.(15961-15963)GTT>TTT	p.V5321F	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			AATTCTTTAACGTCTTTTTCA	0.363													11	39	---	---	---	---	PASS	A	179611166	A	A	179611166	3	1	47	1	0	0	0	0	1	0	0	0	16732	536	19	1	94336	1	TTN	2	179611166	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	155188	179611166	63588207	41	18381										
NRP2	8828	broad.mit.edu	37	chr2	206631516	206631516	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gtttttttcagaacccatctCggcttttgcaggtgagaatt	9	8	2	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:206631516C>A	uc002vaw.2	+	15	3205	c.2414C>A	c.(2413-2415)TCG>TAG	p.S805*	NRP2_uc002vau.2_Nonsense_Mutation_p.S805*|NRP2_uc002vav.2_Nonsense_Mutation_p.S805*|NRP2_uc002vax.2_Nonsense_Mutation_p.S805*|NRP2_uc002vay.2_Nonsense_Mutation_p.S805*	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	805	Extracellular (Potential).				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						GAACCCATCTCGGCTTTTGCA	0.333											OREG0015156	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	76	---	---	---	---	PASS	A	206631516	A	A	206631516	4	1	47	1	0	0	0	0	0	1	0	0	10661	893	31	2	2499	2	NRP2	2	206631516	Nonsense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	27020350	206631516	36567857	42	18382										
TTLL4	9654	broad.mit.edu	37	chr2	219614020	219614020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gctcaagatgtatgtgcgacGgccctatagctgccatgaac	11	11	1	2	rs138019885	byFrequency	TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:219614020G>T	uc002viy.2	+	14	3015	c.2645G>T	c.(2644-2646)CGG>CTG	p.R882L	TTLL4_uc010zkl.1_Missense_Mutation_p.R717L|TTLL4_uc010fvx.2_Missense_Mutation_p.R818L|TTLL4_uc010zkm.1_Missense_Mutation_p.R85L	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	882	TTL.				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)		TATGTGCGACGGCCCTATAGC	0.522													12	42	---	---	---	---	PASS	T	219614020	T	T	219614020	3	4	47	1	0	0	0	0	1	0	0	0	16726	1116	39	1	2691	1	TTLL4	2	219614020	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	12982504	219614020	23585353	43	18383										
ATG9A	79065	broad.mit.edu	37	chr2	220089411	220089411	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	caggcggaagcgcagaggcaGgagggatttgttaaccagtg	17	7	0	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr2:220089411G>A	uc002vke.1	-	8	868	c.682C>T	c.(682-684)CTG>TTG	p.L228L	ATG9A_uc002vkd.1_RNA|ATG9A_uc002vkf.1_Silent_p.L228L	NM_001077198	NP_001070666	Q7Z3C6	ATG9A_HUMAN	APG9 autophagy 9-like 1	228	Cytoplasmic (By similarity).				autophagic vacuole assembly|protein transport	autophagic vacuole membrane|cytoplasmic vesicle|Golgi apparatus|integral to membrane|late endosome membrane				skin(1)	1		Renal(207;0.0474)		Epithelial(149;1.37e-06)|all cancers(144;0.000222)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CGCAGAGGCAGGAGGGATTTG	0.557													15	57	---	---	---	---	PASS	A	220089411	A	A	220089411	2	1	47	1	0	0	0	0	0	0	0	1	1102	991	35	3		3	ATG9A	2	220089411	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	475391	220089411	23109962	44	18384										
CCR4	1233	broad.mit.edu	37	chr3	32994962	32994962	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	accctcgatgaaagcatataCagcaattactatctgtatga	6	9	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:32994962C>A	uc003cfg.1	+	2	216	c.48C>A	c.(46-48)TAC>TAA	p.Y16*		NM_005508	NP_005499	P51679	CCR4_HUMAN	chemokine (C-C motif) receptor 4	16	Extracellular (Potential).				chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response	integral to plasma membrane				lung(1)	1						AAAGCATATACAGCAATTACT	0.488													15	24	---	---	---	---	PASS	A	32994962	A	A	32994962	4	1	47	1	0	0	0	0	0	1	0	0	2943	489	17	3	50	3	CCR4	3	32994962	Nonsense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08		32994962	165027468	45	18385										
SCN10A	6336	broad.mit.edu	37	chr3	38791575	38791575	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agcacttaccctcaaggacgGaggttatgatactgacaaca	9	10	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:38791575G>T	uc003ciq.2	-	12	1856	c.1856C>A	c.(1855-1857)TCC>TAC	p.S619Y		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	619					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CTCAAGGACGGAGGTTATGAT	0.458													9	16	---	---	---	---	PASS	T	38791575	T	T	38791575	3	4	47	1	0	0	0	0	1	0	0	0	13912	1174	41	2	4078	2	SCN10A	3	38791575	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	5796613	38791575	159230855	46	18386										
XIRP1	165904	broad.mit.edu	37	chr3	39228203	39228203	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gctagttagccggggctgcaGagagtaggcagtcagtgcga	17	8	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:39228203G>T	uc003cjk.1	-	2	2955	c.2734C>A	c.(2734-2736)CTG>ATG	p.L912M	XIRP1_uc003cji.2_Missense_Mutation_p.L912M|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	912							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CGGGGCTGCAGAGAGTAGGCA	0.622													12	22	---	---	---	---	PASS	T	39228203	T	T	39228203	3	4	47	1	0	0	0	0	1	0	0	0	17426	933	33	2	2801	2	XIRP1	3	39228203	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	436628	39228203	158794227	47	18387										
LZTFL1	54585	broad.mit.edu	37	chr3	45879503	45879503	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gagcaaaacgcatataattaAtaacttcattttgatggtgc	7	6	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:45879503A>T	uc003cox.1	-	2	182	c.44T>A	c.(43-45)ATT>AAT	p.I15N	LZTFL1_uc003coy.1_5'UTR|LZTFL1_uc011bak.1_Intron	NM_020347	NP_065080	Q9NQ48	LZTL1_HUMAN	leucine zipper transcription factor-like 1	15											0				BRCA - Breast invasive adenocarcinoma(193;0.00867)|KIRC - Kidney renal clear cell carcinoma(197;0.0177)|Kidney(197;0.0208)		CATATAATTAATAACTTCATT	0.393													7	35	---	---	---	---	PASS	T	45879503	T	T	45879503	3	4	47	1	0	0	0	0	1	0	0	0	9136	101	4	5	891	5	LZTFL1	3	45879503	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	6651300	45879503	152142927	48	18388										
VPRBP	9730	broad.mit.edu	37	chr3	51475638	51475638	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gctgacttgtttttctttaaTcctccatcctcaggtttggt	7	10	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:51475638T>C	uc003dbe.1	-	8	957	c.789A>G	c.(787-789)GGA>GGG	p.G263G	VPRBP_uc003dbg.1_Silent_p.G263G	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	263					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		TTTTCTTTAATCCTCCATCCT	0.433													63	85	---	---	---	---	PASS	C	51475638	C	C	51475638	2	2	47	1	0	0	0	0	0	0	0	1	17182	1422	50	5		5	VPRBP	3	51475638	Silent	SNP	T	TCGA-22-5478-01A-01D-1632-08	5596135	51475638	146546792	49	18389										
DPPA4	55211	broad.mit.edu	37	chr3	109049395	109049395	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ggcctcttgtggagattccaCtgcctctggtgtcctcgccc	11	15	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:109049395C>A	uc003dxq.3	-	5	710	c.655G>T	c.(655-657)GTG>TTG	p.V219L	DPPA4_uc011bho.1_Intron|DPPA4_uc011bhp.1_Missense_Mutation_p.V219L	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	219						nucleus	protein binding			upper_aerodigestive_tract(1)	1						GGAGATTCCACTGCCTCTGGT	0.493													19	43	---	---	---	---	PASS	A	109049395	A	A	109049395	3	1	47	1	0	0	0	0	1	0	0	0	4736	565	20	3	271	3	DPPA4	3	109049395	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	57573757	109049395	88973035	50	18390										
CCDC14	64770	broad.mit.edu	37	chr3	123663744	123663744	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	atggttgcatggccagtgctAtctcaacttgaatatctgtg	10	8	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:123663744A>T	uc011bjx.1	-	9	1530	c.1439T>A	c.(1438-1440)ATA>AAA	p.I480K	CCDC14_uc003egv.3_Missense_Mutation_p.I121K|CCDC14_uc003egx.3_Missense_Mutation_p.I280K|CCDC14_uc010hrt.2_Missense_Mutation_p.I439K|CCDC14_uc003egy.3_Missense_Mutation_p.I280K|CCDC14_uc003egz.2_Missense_Mutation_p.I280K	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	480						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		GGCCAGTGCTATCTCAACTTG	0.383													9	17	---	---	---	---	PASS	T	123663744	T	T	123663744	3	4	47	1	0	0	0	0	1	0	0	0	2773	449	16	5	1442	5	CCDC14	3	123663744	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	14614349	123663744	74358686	51	18391										
KALRN	8997	broad.mit.edu	37	chr3	124438217	124438217	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gatccccctggacacctcccGcctagcatgcttcatagaac	7	17	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:124438217G>A	uc003ehg.2	+	60	8988	c.8861G>A	c.(8860-8862)CGC>CAC	p.R2954H	KALRN_uc003ehk.2_Missense_Mutation_p.R1257H	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2953					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						GACACCTCCCGCCTAGCATGC	0.552													14	33	---	---	---	---	PASS	A	124438217	A	A	124438217	3	1	47	1	0	0	0	0	1	0	0	0	7975	1087	38	1	9255	1	KALRN	3	124438217	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	774473	124438217	73584213	52	18392										
HEG1	57493	broad.mit.edu	37	chr3	124746240	124746240	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cagtccattcttctgacagcCccatcgccctctctgttccc	5	19	3	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:124746240C>T	uc003ehs.3	-	3	790	c.722G>A	c.(721-723)GGG>GAG	p.G241E	HEG1_uc011bke.1_Missense_Mutation_p.G241E	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	241	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						TTCTGACAGCCCCATCGCCCT	0.547													6	19	---	---	---	---	PASS	T	124746240	T	T	124746240	3	4	47	1	0	0	0	0	1	0	0	0	7044	623	22	3	3483	3	HEG1	3	124746240	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	308023	124746240	73276190	53	18393										
ZXDC	79364	broad.mit.edu	37	chr3	126180940	126180940	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	acccacctgcagaaccactaGcattggcaggtgtgtcagag	11	12	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:126180940G>C	uc003eiv.2	-	6	1619	c.1565C>G	c.(1564-1566)GCT>GGT	p.A522G	ZXDC_uc010hsh.2_RNA|ZXDC_uc003eix.2_Missense_Mutation_p.A522G	NM_025112	NP_079388	Q2QGD7	ZXDC_HUMAN	ZXD family zinc finger C isoform 1	522					positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|LRR domain binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.155)		AGAACCACTAGCATTGGCAGG	0.547													32	54	---	---	---	---	PASS	C	126180940	C	C	126180940	3	2	47	1	0	0	0	0	1	0	0	0	18249	971	34	4	1037	4	ZXDC	3	126180940	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	1434700	126180940	71841490	54	18394										
ACPP	55	broad.mit.edu	37	chr3	132075647	132075647	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tttgctgagctggttggcccTgtgatccctcaagactggtc	12	11	1	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:132075647T>C	uc010htp.2	+	10	1176	c.1086T>C	c.(1084-1086)CCT>CCC	p.P362P	ACPP_uc003eon.3_Silent_p.P329P|ACPP_uc003eop.3_Silent_p.P362P	NM_001099	NP_001090	P15309	PPAP_HUMAN	acid phosphatase, prostate short isoform	362						extracellular region|lysosomal membrane	5'-nucleotidase activity|acid phosphatase activity			ovary(1)	1						TGGTTGGCCCTGTGATCCCTC	0.537													4	102	---	---	---	---	PASS	C	132075647	C	C	132075647	2	2	47	1	0	0	0	0	0	0	0	1	167	1567	55	5		5	ACPP	3	132075647	Silent	SNP	T	TCGA-22-5478-01A-01D-1632-08	5894707	132075647	65946783	55	18395										
LRRIQ4	344657	broad.mit.edu	37	chr3	169540634	169540634	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tggtcaacttgcgcttcctgGacctaagccagaaccatctg	9	13	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:169540634G>T	uc003fgb.2	+	1	925	c.925G>T	c.(925-927)GAC>TAC	p.D309Y		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	309	LRR 13.										0						GCGCTTCCTGGACCTAAGCCA	0.572													7	21	---	---	---	---	PASS	T	169540634	T	T	169540634	3	4	47	1	0	0	0	0	1	0	0	0	9031	1174	41	2	927	2	LRRIQ4	3	169540634	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	37464987	169540634	28481796	56	18396										
GNB4	59345	broad.mit.edu	37	chr3	179123052	179123052	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cagccaacaagagacgcccaCtttttgagaaggctacagaa	9	11	0	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:179123052C>A	uc003fjv.3	-	9	1122	c.842G>T	c.(841-843)AGT>ATT	p.S281I	GNB4_uc003fju.3_Intron	NM_021629	NP_067642	Q9HAV0	GBB4_HUMAN	guanine nucleotide-binding protein, beta-4	281	WD 6.				cellular response to glucagon stimulus|energy reserve metabolic process	plasma membrane	signal transducer activity			skin(2)	2	all_cancers(143;2.01e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.237)			GAGACGCCCACTTTTTGAGAA	0.418													3	64	---	---	---	---	PASS	A	179123052	A	A	179123052	3	1	47	1	0	0	0	0	1	0	0	0	6520	565	20	3	188	3	GNB4	3	179123052	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	9582418	179123052	18899378	57	18397										
TTC14	151613	broad.mit.edu	37	chr3	180328311	180328311	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgaatttgaaaaagaaaaagGaaataagtcaaaaaattaat	6	1	1	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr3:180328311G>T	uc003fkk.2	+	12	2426	c.2294G>T	c.(2293-2295)GGA>GTA	p.G765V	TTC14_uc003fkl.2_3'UTR|TTC14_uc003fkm.2_Intron	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	765							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AAAGAAAAAGGAAATAAGTCA	0.303													17	36	---	---	---	---	PASS	T	180328311	T	T	180328311	3	4	47	1	0	0	0	0	1	0	0	0	16678	1174	41	2	2370	2	TTC14	3	180328311	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	1205259	180328311	17694119	58	18398										
POLN	353497	broad.mit.edu	37	chr4	2200252	2200252	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	atgtgtgaagatttcttaccGggcaaattgttgatgtgcct	11	6	1	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:2200252G>A	uc003ger.2	-	4	907	c.907C>T	c.(907-909)CGG>TGG	p.R303W	POLN_uc010ich.1_5'UTR|POLN_uc011bvi.1_Missense_Mutation_p.R303W	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	303					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			ATTTCTTACCGGGCAAATTGT	0.418								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					14	88	---	---	---	---	PASS	A	2200252	A	A	2200252	3	1	47	1	0	0	0	0	1	0	0	0	12207	1130	39	1	1879	1	POLN	4	2200252	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08		2200252	188954024	59	18399										
SEPSECS	51091	broad.mit.edu	37	chr4	25146715	25146715	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gaaccataaaatttttgtccAagctctgaacaaaagcatct	5	9	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:25146715A>T	uc003grg.2	-	7	1058	c.845T>A	c.(844-846)TTG>TAG	p.L282*	SEPSECS_uc003gri.2_Nonsense_Mutation_p.L281*|SEPSECS_uc003grh.2_Nonsense_Mutation_p.L203*	NM_153825	NP_722547	Q9HD40	SPCS_HUMAN	Sep (O-phosphoserine) tRNA:Sec (selenocysteine)	282					selenocysteine incorporation	cytoplasm|nucleus	pyridoxal phosphate binding|transferase activity, transferring selenium-containing groups|tRNA binding				0		Breast(46;0.173)			Pyridoxal Phosphate(DB00114)	ATTTTTGTCCAAGCTCTGAAC	0.353													36	43	---	---	---	---	PASS	T	25146715	T	T	25146715	4	4	47	1	0	0	0	0	0	1	0	0	14058	131	5	5	680	5	SEPSECS	4	25146715	Nonsense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	22946463	25146715	166007561	60	18400										
TBC1D1	23216	broad.mit.edu	37	chr4	38047524	38047524	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	acattaagtaacaccagcaaAgtaagcacatttctctttat	4	9	1	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:38047524A>G	uc003gtb.2	+	10	1972	c.1629A>G	c.(1627-1629)AAA>AAG	p.K543K	TBC1D1_uc011byd.1_Silent_p.K543K|TBC1D1_uc010ifd.2_Silent_p.K290K|TBC1D1_uc011byf.1_Silent_p.K414K	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	543						nucleus	Rab GTPase activator activity			ovary(1)	1						ACACCAGCAAAGTAAGCACAT	0.418													7	82	---	---	---	---	PASS	G	38047524	G	G	38047524	2	3	47	1	0	0	0	0	0	0	0	1	15594	86	3	5		5	TBC1D1	4	38047524	Silent	SNP	A	TCGA-22-5478-01A-01D-1632-08	12900809	38047524	153106752	61	18401										
POLR2B	5431	broad.mit.edu	37	chr4	57873010	57873010	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agaatttgcttaaagaagtgCggatctatgcacagaaattt	9	5	1	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:57873010C>T	uc003hcl.1	+	10	1289	c.1246C>T	c.(1246-1248)CGG>TGG	p.R416W	POLR2B_uc011cae.1_Missense_Mutation_p.R409W|POLR2B_uc011caf.1_Missense_Mutation_p.R341W|POLR2B_uc003hcm.1_5'Flank	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	416					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					TAAAGAAGTGCGGATCTATGC	0.333													11	87	---	---	---	---	PASS	T	57873010	T	T	57873010	3	4	47	1	0	0	0	0	1	0	0	0	12215	759	27	1	1284	1	POLR2B	4	57873010	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	19825486	57873010	133281266	62	18402										
AFP	174	broad.mit.edu	37	chr4	74306466	74306466	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cagcatcgatcccacttttcCaagttccagaacctgtcaca	5	15	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:74306466C>G	uc003hgz.1	+	4	465	c.418C>G	c.(418-420)CAA>GAA	p.Q140E	AFP_uc003hha.1_Missense_Mutation_p.Q140E|AFP_uc011cbg.1_5'Flank	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	140	Albumin 1.				transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CCCACTTTTCCAAGTTCCAGA	0.448									Alpha-Fetoprotein_Hereditary_Persistence_of				9	19	---	---	---	---	PASS	G	74306466	G	G	74306466	3	3	47	1	0	0	0	0	1	0	0	0	363	595	21	4	432	4	AFP	4	74306466	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	16433456	74306466	116847810	63	18403										
SHROOM3	57619	broad.mit.edu	37	chr4	77661990	77661990	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gacgctcggctcctccgtagCcagagcaccttccagctctc	9	18	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:77661990C>G	uc011cbx.1	+	5	3617	c.2664C>G	c.(2662-2664)AGC>AGG	p.S888R	SHROOM3_uc011cbz.1_Missense_Mutation_p.S712R|SHROOM3_uc003hkf.1_Missense_Mutation_p.S763R|SHROOM3_uc003hkg.2_Missense_Mutation_p.S666R	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	888					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			TCCTCCGTAGCCAGAGCACCT	0.721													5	12	---	---	---	---	PASS	G	77661990	G	G	77661990	3	3	47	1	0	0	0	0	1	0	0	0	14295	738	26	4	2682	4	SHROOM3	4	77661990	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	3355524	77661990	113492286	64	18404										
PLAC8	51316	broad.mit.edu	37	chr4	84028998	84028998	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agtcacacatgcctgtctgcCagttggagttctggggggcc	14	11	3	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:84028998C>A	uc003hoe.2	-	2	238	c.77G>T	c.(76-78)TGG>TTG	p.W26L	PLAC8_uc011cco.1_Missense_Mutation_p.W26L|PLAC8_uc010ijy.2_Intron|PLAC8_uc010ijz.2_Intron|PLAC8_uc003hod.2_Missense_Mutation_p.W26L	NM_001130716	NP_001124188	Q9NZF1	PLAC8_HUMAN	placenta-specific 8	26										ovary(1)	1		Hepatocellular(203;0.114)				GCCTGTCTGCCAGTTGGAGTT	0.552													15	48	---	---	---	---	PASS	A	84028998	A	A	84028998	3	1	47	1	0	0	0	0	1	0	0	0	12015	595	21	3	282	3	PLAC8	4	84028998	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	6367008	84028998	107125278	65	18405										
PDHA2	5161	broad.mit.edu	37	chr4	96761853	96761853	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gcctgtaaatataaaggaaaCgatgagatctgtttgacttt	9	5	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:96761853C>T	uc003htr.3	+	1	615	c.552C>T	c.(550-552)AAC>AAT	p.N184N		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	184					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	ATAAAGGAAACGATGAGATCT	0.483													6	55	---	---	---	---	PASS	T	96761853	T	T	96761853	2	4	47	1	0	0	0	0	0	0	0	1	11665	535	19	1		1	PDHA2	4	96761853	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	12732855	96761853	94392423	66	18406										
BANK1	55024	broad.mit.edu	37	chr4	102992450	102992450	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agataaactcaccattgtgcAccatccaggtggtaagtgct	9	10	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:102992450A>G	uc003hvy.3	+	14	2505	c.2231A>G	c.(2230-2232)CAC>CGC	p.H744R	BANK1_uc003hvx.3_Missense_Mutation_p.H729R|BANK1_uc010ill.2_Missense_Mutation_p.H611R|BANK1_uc003hvz.3_Missense_Mutation_p.H714R	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	744					B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		ACCATTGTGCACCATCCAGGT	0.294													48	95	---	---	---	---	PASS	G	102992450	G	G	102992450	3	3	47	1	0	0	0	0	1	0	0	0	1309	159	6	5	2285	5	BANK1	4	102992450	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	6230597	102992450	88161826	67	18407										
COL25A1	84570	broad.mit.edu	37	chr4	109895698	109895698	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cattttcttaccttatcgccTtttggaccaggagggccctg	9	12	1	0	rs142155024	by1000genomes	TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:109895698T>C	uc003hze.1	-	6	987	c.456A>G	c.(454-456)AAA>AAG	p.K152K	COL25A1_uc003hzg.2_Silent_p.K152K|COL25A1_uc003hzd.2_RNA|COL25A1_uc003hzf.2_5'UTR	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	152	Extracellular (Potential).|Collagen-like 1.					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		CCTTATCGCCTTTTGGACCAG	0.318													3	84	---	---	---	---	PASS	C	109895698	C	C	109895698	2	2	47	1	0	0	0	0	0	0	0	1	3684	1606	56	5		5	COL25A1	4	109895698	Silent	SNP	T	TCGA-22-5478-01A-01D-1632-08	6903248	109895698	81258578	68	18408										
ANK2	287	broad.mit.edu	37	chr4	114274838	114274838	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	atacccccagatgagacacaGagtacacagaaacagcacaa	7	12	0	4			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:114274838G>C	uc003ibe.3	+	38	5164	c.5064G>C	c.(5062-5064)CAG>CAC	p.Q1688H	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_5'Flank|ANK2_uc011cgb.1_Missense_Mutation_p.Q1703H	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1655					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		ATGAGACACAGAGTACACAGA	0.433													9	31	---	---	---	---	PASS	C	114274838	C	C	114274838	3	2	47	1	0	0	0	0	1	0	0	0	621	933	33	2	5279	2	ANK2	4	114274838	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	4379140	114274838	76879438	69	18409										
MFSD8	256471	broad.mit.edu	37	chr4	128851838	128851838	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	accaaaaacacttaacttacTttttggaaagcaacttaact	3	9	0	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:128851838T>A	uc003ifp.2	-	10	1161	c.998A>T	c.(997-999)AAG>ATG	p.K333M	MFSD8_uc011cgu.1_Missense_Mutation_p.K288M|MFSD8_uc011cgv.1_Missense_Mutation_p.K295I|MFSD8_uc011cgw.1_RNA|MFSD8_uc011cgx.1_3'UTR	NM_152778	NP_689991	Q8NHS3	MFSD8_HUMAN	major facilitator superfamily domain containing	333	Cytoplasmic (Potential).				cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2						CTTAACTTACTTTTTGGAAAG	0.313													15	93	---	---	---	---	PASS	A	128851838	A	A	128851838	3	1	47	1	0	0	0	0	1	0	0	0	9538	1623	56	5	574	5	MFSD8	4	128851838	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	14577000	128851838	62302438	70	18410										
F11	2160	broad.mit.edu	37	chr4	187201392	187201392	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tctagtgttctgccattcttCattttaccatgacactgatt	5	10	4	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr4:187201392C>A	uc003iza.1	+	9	1214	c.881C>A	c.(880-882)TCA>TAA	p.S294*		NM_000128	NP_000119	P03951	FA11_HUMAN	coagulation factor XI precursor	294	Apple 4.				blood coagulation, intrinsic pathway|plasminogen activation|positive regulation of fibrinolysis	extracellular space|plasma membrane	heparin binding|serine-type endopeptidase activity				0		all_cancers(14;6.2e-52)|all_epithelial(14;1.62e-38)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;2.13e-11)|BRCA - Breast invasive adenocarcinoma(30;4.59e-06)|GBM - Glioblastoma multiforme(59;0.000149)|STAD - Stomach adenocarcinoma(60;0.000314)|LUSC - Lung squamous cell carcinoma(40;0.00112)|READ - Rectum adenocarcinoma(43;0.176)	Coagulation Factor IX(DB00100)	TGCCATTCTTCATTTTACCAT	0.517													34	88	---	---	---	---	PASS	A	187201392	A	A	187201392	4	1	47	1	0	0	0	0	0	1	0	0	5337	838	29	2	911	2	F11	4	187201392	Nonsense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	58349554	187201392	3952884	71	18411										
AHRR	57491	broad.mit.edu	37	chr5	376726	376726	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gtcttttcttctctgacagtCgtgcaggagcagagctcacg	11	11	4	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr5:376726C>A	uc003jav.2	+	4	302	c.258C>A	c.(256-258)GTC>GTA	p.V86V	AHRR_uc003jaw.2_Silent_p.V82V|AHRR_uc010isy.2_Intron|AHRR_uc010isz.2_Silent_p.V82V	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	86					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			CTCTGACAGTCGTGCAGGAGC	0.622													8	8	---	---	---	---	PASS	A	376726	A	A	376726	2	1	47	1	0	0	0	0	0	0	0	1	417	898	31	2		2	AHRR	5	376726	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08		376726	180538534	72	18412										
MARCH6	10299	broad.mit.edu	37	chr5	10410360	10410360	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ggctgaaggggctggtgcgaGcgtggactgtgaccgccgga	20	9	0	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr5:10410360G>T	uc003jet.1	+	18	1846	c.1663G>T	c.(1663-1665)GCG>TCG	p.A555S	MARCH6_uc011cmu.1_Missense_Mutation_p.A507S|MARCH6_uc003jeu.1_Missense_Mutation_p.A253S|MARCH6_uc011cmv.1_Missense_Mutation_p.A450S	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	555	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						GCTGGTGCGAGCGTGGACTGT	0.527													29	55	---	---	---	---	PASS	T	10410360	T	T	10410360	3	4	47	1	0	0	0	0	1	0	0	0	9305	971	34	3	1733	3	MARCH6	5	10410360	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	10033634	10410360	170504900	73	18413										
VCAN	1462	broad.mit.edu	37	chr5	82849313	82849313	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gcccatctcacaagcatcctGtctcacgaagaacaaatgtt	6	13	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr5:82849313G>A	uc003kii.3	+	11	9980	c.9624G>A	c.(9622-9624)CTG>CTA	p.L3208L	VCAN_uc003kij.3_Silent_p.L2221L|VCAN_uc010jau.2_Silent_p.L1454L|VCAN_uc003kik.3_Silent_p.L467L|VCAN_uc003kil.3_Silent_p.L1872L	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3208	C-type lectin.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CAAGCATCCTGTCTCACGAAG	0.458													24	38	---	---	---	---	PASS	A	82849313	A	A	82849313	2	1	47	1	0	0	0	0	0	0	0	1	17135	1364	48	3		3	VCAN	5	82849313	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	72438953	82849313	98065947	74	18414										
STARD4	134429	broad.mit.edu	37	chr5	110835780	110835780	+	Frame_Shift_Del	DEL	T	-	-													0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctcgaacaaattctggtctcTtttcatcccagtcaagactt							TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr5:110835780delT	uc003kph.1	-	6	506	c.422delA	c.(421-423)AAGfs	p.K141fs	STARD4_uc010jbw.1_Frame_Shift_Del_p.K43fs|STARD4_uc010jbx.1_Frame_Shift_Del_p.K43fs|STARD4_uc003kpi.1_RNA	NM_139164	NP_631903	Q96DR4	STAR4_HUMAN	StAR-related lipid transfer (START) domain	141	START.				lipid transport		lipid binding			ovary(1)	1		all_cancers(142;0.00259)|all_epithelial(76;8.32e-05)|Prostate(80;0.0115)|Colorectal(10;0.0959)|Ovarian(225;0.156)|all_lung(232;0.18)|Lung NSC(167;0.248)		OV - Ovarian serous cystadenocarcinoma(64;4.91e-09)|Epithelial(69;1.39e-08)|all cancers(49;2.34e-06)|COAD - Colon adenocarcinoma(37;0.049)|Colorectal(14;0.138)		TTCTGGTCTCTTTTCATCCCA	0.338													40	20	---	---	---	---		-	110835780	-	-	110835780	7	5	47	1	0	1	0	1	0	0	0	0	15258	1609	56	0	199	0	STARD4	5	110835780	Frame_Shift_Del	DEL	T	TCGA-22-5478-01A-01D-1632-08	27986467	110835780	70079480	75	18415										
PCDHB6	56130	broad.mit.edu	37	chr5	140531822	140531822	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cgctgcacgtgctcctggtgGacggcttctcccagccctac	11	17	1	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr5:140531822G>T	uc003lir.2	+	1	1984	c.1984G>T	c.(1984-1986)GAC>TAC	p.D662Y	PCDHB6_uc011dah.1_Missense_Mutation_p.D526Y	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	662	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTCCTGGTGGACGGCTTCTC	0.692													28	35	---	---	---	---	PASS	T	140531822	T	T	140531822	3	4	47	1	0	0	0	0	1	0	0	0	11546	1174	41	2	1986	2	PCDHB6	5	140531822	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	29696042	140531822	40383438	76	18416										
DOCK2	1794	broad.mit.edu	37	chr5	169483700	169483700	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tctttcagcttctacaaatcCaactacgtgcaaaggttcca	5	12	3	0	rs141164963		TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr5:169483700C>A	uc003maf.2	+	43	4388	c.4308C>A	c.(4306-4308)TCC>TCA	p.S1436S	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.S928S|DOCK2_uc003mah.2_5'UTR	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1436	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCTACAAATCCAACTACGTGC	0.557													10	9	---	---	---	---	PASS	A	169483700	A	A	169483700	2	1	47	1	0	0	0	0	0	0	0	1	4687	581	21	3		3	DOCK2	5	169483700	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	28951878	169483700	11431560	77	18417										
OR10C1	442194	broad.mit.edu	37	chr6	29407984	29407984	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	atgtacttcttcctgcgcacCctctcggccttggagattgg	10	13	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr6:29407984C>A	uc011dlp.1	+	1	192	c.192C>A	c.(190-192)ACC>ACA	p.T64T	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCCTGCGCACCCTCTCGGCCT	0.577													16	42	---	---	---	---	PASS	A	29407984	A	A	29407984	2	1	47	1	0	0	0	0	0	0	0	1	10898	610	22	3		3	OR10C1	6	29407984	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08		29407984	141707083	78	18418										
ZNF292	23036	broad.mit.edu	37	chr6	87969574	87969574	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aaatgcactcacaaacacacAaaccaaaggacggaagatta	6	10	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr6:87969574A>T	uc003plm.3	+	8	6268	c.6227A>T	c.(6226-6228)CAA>CTA	p.Q2076L		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	2076					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		ACAAACACACAAACCAAAGGA	0.358													7	13	---	---	---	---	PASS	T	87969574	T	T	87969574	3	4	47	1	0	0	0	0	1	0	0	0	17823	130	5	5	6257	5	ZNF292	6	87969574	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	58561590	87969574	83145493	79	18419										
MDN1	23195	broad.mit.edu	37	chr6	90354761	90354761	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctgggattgtccaatacaacAaagatgacaaagatatttgc	8	7	0	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr6:90354761A>G	uc003pnn.1	-	101	16691	c.16575T>C	c.(16573-16575)TTT>TTC	p.F5525F		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5525	VWFA.				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)		CCAATACAACAAAGATGACAA	0.473													18	32	---	---	---	---	PASS	G	90354761	G	G	90354761	2	3	47	1	0	0	0	0	0	0	0	1	9415	127	5	5		5	MDN1	6	90354761	Silent	SNP	A	TCGA-22-5478-01A-01D-1632-08	2385187	90354761	80760306	80	18420										
FUT9	10690	broad.mit.edu	37	chr6	96651407	96651407	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	atttacctcagcaagctaggCcacccttccagaaatggatt	7	12	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr6:96651407C>A	uc003pop.3	+	3	717	c.376C>A	c.(376-378)CCA>ACA	p.P126T		NM_006581	NP_006572	Q9Y231	FUT9_HUMAN	fucosyltransferase 9 (alpha (1,3)	126	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			skin(4)|ovary(1)	5		all_cancers(76;4.77e-07)|Acute lymphoblastic leukemia(125;4.01e-09)|all_hematologic(75;1.25e-06)|all_epithelial(107;0.00279)|Colorectal(196;0.0356)		BRCA - Breast invasive adenocarcinoma(108;0.08)		GCAAGCTAGGCCACCCTTCCA	0.463													7	19	---	---	---	---	PASS	A	96651407	A	A	96651407	3	1	47	1	0	0	0	0	1	0	0	0	6111	739	26	3	378	3	FUT9	6	96651407	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	6296646	96651407	74463660	81	18421										
RFX6	222546	broad.mit.edu	37	chr6	117246809	117246809	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cctgctgggaacacagacaaCatgccgctcacaggtacgct	10	14	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr6:117246809C>A	uc003pxm.2	+	16	1935	c.1872C>A	c.(1870-1872)AAC>AAA	p.N624K		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	624					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						ACACAGACAACATGCCGCTCA	0.512													18	20	---	---	---	---	PASS	A	117246809	A	A	117246809	3	1	47	1	0	0	0	0	1	0	0	0	13267	477	17	3	1934	3	RFX6	6	117246809	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	20595402	117246809	53868258	82	18422										
HDAC9	9734	broad.mit.edu	37	chr7	18788681	18788681	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agtgcgtttgtggcaattccAccacccaccctgagcatgct	9	14	0	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr7:18788681A>T	uc003suh.2	+	13	1995	c.1954A>T	c.(1954-1956)ACC>TCC	p.T652S	HDAC9_uc003sue.2_Missense_Mutation_p.T652S|HDAC9_uc011jyd.1_Missense_Mutation_p.T652S|HDAC9_uc003sui.2_Missense_Mutation_p.T655S|HDAC9_uc003suj.2_Missense_Mutation_p.T611S|HDAC9_uc003sua.1_Missense_Mutation_p.T630S|HDAC9_uc010kue.1_Missense_Mutation_p.T307S	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	652	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	TGGCAATTCCACCACCCACCC	0.453													7	14	---	---	---	---	PASS	T	18788681	T	T	18788681	3	4	47	1	0	0	0	0	1	0	0	0	7014	159	6	5	2064	5	HDAC9	7	18788681	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08		18788681	140349982	83	18423										
PCLO	27445	broad.mit.edu	37	chr7	82763820	82763820	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ttctgttctttttactgttgGagcttgttcagctttgggct	10	7	3	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr7:82763820G>A	uc003uhx.2	-	3	3335	c.3046C>T	c.(3046-3048)CCA>TCA	p.P1016S	PCLO_uc003uhv.2_Missense_Mutation_p.P1016S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	962	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTTACTGTTGGAGCTTGTTCA	0.428													7	43	---	---	---	---	PASS	A	82763820	A	A	82763820	3	1	47	1	0	0	0	0	1	0	0	0	11583	1174	41	2	12491	2	PCLO	7	82763820	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	63975139	82763820	76374843	84	18424										
TFPI2	7980	broad.mit.edu	37	chr7	93516731	93516731	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cctcatcttttggactgtagCaaaatgatggaactttataa	7	7	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr7:93516731C>T	uc003umy.1	-	4	548	c.473G>A	c.(472-474)TGC>TAC	p.C158Y	GNGT1_uc003umx.1_Intron|TFPI2_uc003umz.1_Intron|TFPI2_uc003una.1_Missense_Mutation_p.C147Y|TFPI2_uc003unb.1_Missense_Mutation_p.C164Y|TFPI2_uc010lfg.1_Missense_Mutation_p.C34Y	NM_006528	NP_006519	P48307	TFPI2_HUMAN	tissue factor pathway inhibitor 2 precursor	158	BPTI/Kunitz inhibitor 3.				blood coagulation	proteinaceous extracellular matrix	extracellular matrix structural constituent|serine-type endopeptidase inhibitor activity			pancreas(1)	1	all_cancers(62;4.45e-10)|all_epithelial(64;2.92e-09)|Lung NSC(181;0.218)		STAD - Stomach adenocarcinoma(171;0.000967)			TGGACTGTAGCAAAATGATGG	0.328													16	61	---	---	---	---	PASS	T	93516731	T	T	93516731	3	4	47	1	0	0	0	0	1	0	0	0	15806	710	25	3	242	3	TFPI2	7	93516731	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	10752911	93516731	65621932	85	18425										
ZAN	7455	broad.mit.edu	37	chr7	100389747	100389747	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tttgctgcctgtcaccagacGgtggccccagagcccttcca	10	16	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr7:100389747G>T	uc003uwj.2	+	42	7854	c.7689G>T	c.(7687-7689)ACG>ACT	p.T2563T	ZAN_uc003uwk.2_Silent_p.T2563T|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.R556L	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2563	Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GTCACCAGACGGTGGCCCCAG	0.652													8	29	---	---	---	---	PASS	T	100389747	T	T	100389747	2	4	47	1	0	0	0	0	0	0	0	1	17510	1103	39	1		1	ZAN	7	100389747	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	6873016	100389747	58748916	86	18426										
MOGAT3	346606	broad.mit.edu	37	chr7	100841914	100841914	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ccattcggctcaccaaaggaCatgatgtagtcgcgatagac	10	11	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr7:100841914C>G	uc003uyc.2	-	4	653	c.486G>C	c.(484-486)ATG>ATC	p.M162I	MOGAT3_uc010lhr.2_Missense_Mutation_p.M162I	NM_178176	NP_835470	Q86VF5	MOGT3_HUMAN	monoacylglycerol O-acyltransferase 3	162					glycerol metabolic process|lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity|diacylglycerol O-acyltransferase activity			ovary(2)	2	Lung NSC(181;0.168)|all_lung(186;0.215)					CACCAAAGGACATGATGTAGT	0.627													5	53	---	---	---	---	PASS	G	100841914	G	G	100841914	3	3	47	1	0	0	0	0	1	0	0	0	9696	478	17	4	555	4	MOGAT3	7	100841914	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	452167	100841914	58296749	87	18427										
MLL5	55904	broad.mit.edu	37	chr7	104702725	104702725	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tacattggtttgccctatgcGgtaagtgttaaacacttctt	8	8	1	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr7:104702725G>T	uc003vcm.2	+	4	720	c.186G>T	c.(184-186)GCG>GCT	p.A62A	MLL5_uc010lja.1_5'UTR|MLL5_uc010ljb.1_Silent_p.A62A|MLL5_uc003vcl.2_Silent_p.A62A|MLL5_uc010ljc.2_Silent_p.A62A	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	62					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						TGCCCTATGCGGTAAGTGTTA	0.383													30	180	---	---	---	---	PASS	T	104702725	T	T	104702725	2	4	47	1	0	0	0	0	0	0	0	1	9624	1130	39	1		1	MLL5	7	104702725	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	3860811	104702725	54435938	88	18428										
PPP1R3A	5506	broad.mit.edu	37	chr7	113519831	113519831	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gggctggattagcattatcaTccaggacttctttgctgcca	10	10	2	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr7:113519831T>C	uc010ljy.1	-	4	1347	c.1316A>G	c.(1315-1317)GAT>GGT	p.D439G		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	439					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						AGCATTATCATCCAGGACTTC	0.413													31	143	---	---	---	---	PASS	C	113519831	C	C	113519831	3	2	47	1	0	0	0	0	1	0	0	0	12371	1435	50	5	2056	5	PPP1R3A	7	113519831	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	8817106	113519831	45618832	89	18429										
KCND2	3751	broad.mit.edu	37	chr7	119915140	119915140	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ccgagcgcctgcaggacgacGcggataccgacaccgctggg	15	15	0	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr7:119915140G>T	uc003vjj.1	+	1	1419	c.454G>T	c.(454-456)GCG>TCG	p.A152S		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	152	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					GCAGGACGACGCGGATACCGA	0.627													32	60	---	---	---	---	PASS	T	119915140	T	T	119915140	3	4	47	1	0	0	0	0	1	0	0	0	8019	1087	38	1	456	1	KCND2	7	119915140	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	6395309	119915140	39223523	90	18430										
OR2F1	26211	broad.mit.edu	37	chr7	143657604	143657604	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ttgatcacatatcctgtgaaCtcctagctgtggtcaggctg	10	10	2	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr7:143657604C>A	uc003wds.1	+	1	585	c.541C>A	c.(541-543)CTC>ATC	p.L181I		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					ATCCTGTGAACTCCTAGCTGT	0.502													24	33	---	---	---	---	PASS	A	143657604	A	A	143657604	3	1	47	1	0	0	0	0	1	0	0	0	10996	565	20	3	543	3	OR2F1	7	143657604	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	23742464	143657604	15481059	91	18431										
BLK	640	broad.mit.edu	37	chr8	11420487	11420487	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cttgcatggcttttcccacaGgggccaagttccccatcaag	9	14	1	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr8:11420487G>A	uc003wty.2	+	12	1762	c.1181_splice	c.e12-1	p.G394_splice	BLK_uc003wtz.2_Splice_Site_p.G323_splice|BLK_uc003wua.2_Splice_Site_p.G230_splice	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase						intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		TTTTCCCACAGGGGCCAAGTT	0.612													7	19	---	---	---	---	PASS	A	11420487	A	A	11420487	5	1	47	1	0	0	0	0	0	0	1	0	1444	1014	35	3	1222	3	BLK	8	11420487	Splice_Site	SNP	G	TCGA-22-5478-01A-01D-1632-08		11420487	134943535	92	18432										
C8orf79	57604	broad.mit.edu	37	chr8	12878990	12878990	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgaggaagcaaattgaaagaGtaagacccttgaaaaacaca	9	6	0	5			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr8:12878990G>A	uc010lsq.2	+	5	1294	c.802G>A	c.(802-804)GTA>ATA	p.V268I	C8orf79_uc011kxw.1_Intron|C8orf79_uc003wwj.3_Missense_Mutation_p.V181I|C8orf79_uc010lsr.2_Missense_Mutation_p.V142I	NM_020844	NP_065895	Q9P272	K1456_HUMAN	hypothetical protein LOC57604 isoform 1	268							methyltransferase activity				0						AATTGAAAGAGTAAGACCCTT	0.413													8	24	---	---	---	---	PASS	A	12878990	A	A	12878990	3	1	47	1	0	0	0	0	1	0	0	0	2438	1029	36	3	812	3	C8orf79	8	12878990	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	1458503	12878990	133485032	93	18433										
ADAM32	203102	broad.mit.edu	37	chr8	39111935	39111935	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ttttcaaaatgatcctaggtGtgtgattccagaaacaagtg	9	6	1	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr8:39111935G>T	uc003xmt.3	+	18	2150	c.1905G>T	c.(1903-1905)GTG>GTT	p.V635V	ADAM32_uc011lch.1_Silent_p.V536V|ADAM32_uc003xmu.3_Silent_p.V529V|ADAM32_uc003xmv.2_Silent_p.V59V	NM_145004	NP_659441	Q8TC27	ADA32_HUMAN	a disintegrin and metalloprotease domain 32	635	EGF-like.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)			GATCCTAGGTGTGTGATTCCA	0.353													3	11	---	---	---	---	PASS	T	39111935	T	T	39111935	2	4	47	1	0	0	0	0	0	0	0	1	249	1364	48	3		3	ADAM32	8	39111935	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	26232945	39111935	107252087	94	18434										
ANK1	286	broad.mit.edu	37	chr8	41530104	41530104	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgaatccactgtgtcgtcctCcacaagttccagagagccca	8	14	0	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr8:41530104C>T	uc003xok.2	-	38	4948	c.4864G>A	c.(4864-4866)GAG>AAG	p.E1622K	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Intron|ANK1_uc003xoi.2_Missense_Mutation_p.E1622K|ANK1_uc003xoj.2_Missense_Mutation_p.E1622K|ANK1_uc003xol.2_Intron|ANK1_uc003xom.2_Missense_Mutation_p.E1663K	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1622	55 kDa regulatory domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			GTGTCGTCCTCCACAAGTTCC	0.557													23	152	---	---	---	---	PASS	T	41530104	T	T	41530104	3	4	47	1	0	0	0	0	1	0	0	0	620	864	30	2	1127	2	ANK1	8	41530104	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	2418169	41530104	104833918	95	18435										
POTEA	340441	broad.mit.edu	37	chr8	43157126	43157126	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	attattttagaactgccctcAtacttgctgtacgttgtgga	8	8	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr8:43157126A>G	uc003xpz.1	+	5	749	c.706A>G	c.(706-708)ATA>GTA	p.I236V	POTEA_uc003xqa.1_Intron	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	236	ANK 5.									ovary(1)	1						AACTGCCCTCATACTTGCTGT	0.323													41	66	---	---	---	---	PASS	G	43157126	G	G	43157126	3	3	47	1	0	0	0	0	1	0	0	0	12261	217	8	5	724	5	POTEA	8	43157126	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	1627022	43157126	103206896	96	18436										
TGS1	96764	broad.mit.edu	37	chr8	56699527	56699527	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agttagtagcaaaagagagtGccctgcttccggccaaagtg	12	9	0	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr8:56699527G>T	uc003xsj.3	+	4	1457	c.1070G>T	c.(1069-1071)TGC>TTC	p.C357F	TGS1_uc010lyh.2_Missense_Mutation_p.C261F	NM_024831	NP_079107	Q96RS0	TGS1_HUMAN	trimethylguanosine synthase homolog	357					cellular lipid metabolic process|ncRNA metabolic process|regulation of transcription, DNA-dependent|RNA capping|spliceosomal snRNP assembly|transcription, DNA-dependent	Cajal body|cytosol	RNA trimethylguanosine synthase activity			ovary(1)|lung(1)|breast(1)	3		all_lung(136;0.119)|all_epithelial(80;0.125)|Lung NSC(129;0.147)	Epithelial(17;0.00027)|all cancers(17;0.00251)			AAAAGAGAGTGCCCTGCTTCC	0.443													21	30	---	---	---	---	PASS	T	56699527	T	T	56699527	3	4	47	1	0	0	0	0	1	0	0	0	15834	1319	46	3	1084	3	TGS1	8	56699527	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	13542401	56699527	89664495	97	18437										
LACTB2	51110	broad.mit.edu	37	chr8	71553256	71553256	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aatgtattgttgaattttagCttcagcattatgaattactg	7	4	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr8:71553256C>G	uc011lfd.1	-	5	714	c.622G>C	c.(622-624)GCT>CCT	p.A208P	LACTB2_uc003xyp.2_Missense_Mutation_p.A208P	NM_016027	NP_057111	Q53H82	LACB2_HUMAN	lactamase, beta 2	208							hydrolase activity|metal ion binding			ovary(1)	1	Breast(64;0.0716)		Epithelial(68;0.00319)|all cancers(69;0.0175)|OV - Ovarian serous cystadenocarcinoma(28;0.0628)|BRCA - Breast invasive adenocarcinoma(89;0.166)			TGAATTTTAGCTTCAGCATTA	0.308													15	41	---	---	---	---	PASS	G	71553256	G	G	71553256	3	3	47	1	0	0	0	0	1	0	0	0	8598	797	28	4	256	4	LACTB2	8	71553256	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	14853729	71553256	74810766	98	18438										
ZFHX4	79776	broad.mit.edu	37	chr8	77766728	77766728	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgctgctcaaaaccaattccTtcactctccgttcttggaaa	5	13	4	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr8:77766728T>G	uc003yav.2	+	10	7823	c.7436T>G	c.(7435-7437)CTT>CGT	p.L2479R	ZFHX4_uc003yau.1_Missense_Mutation_p.L2524R|ZFHX4_uc003yaw.1_Missense_Mutation_p.L2479R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2479						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AACCAATTCCTTCACTCTCCG	0.498										HNSCC(33;0.089)			13	123	---	---	---	---	PASS	G	77766728	G	G	77766728	3	3	47	1	0	0	0	0	1	0	0	0	17632	1609	56	5	7605	5	ZFHX4	8	77766728	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	6213472	77766728	68597294	99	18439										
FAM135B	51059	broad.mit.edu	37	chr8	139165236	139165236	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tacacctgagattcagagcaCatgtccatatgattttgtgt	8	8	1	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr8:139165236C>T	uc003yuy.2	-	13	1653	c.1482G>A	c.(1480-1482)ATG>ATA	p.M494I	FAM135B_uc003yux.2_Missense_Mutation_p.M395I|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.M56I|FAM135B_uc003yvb.2_Missense_Mutation_p.M56I	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	494										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)			ATTCAGAGCACATGTCCATAT	0.418										HNSCC(54;0.14)			40	62	---	---	---	---	PASS	T	139165236	T	T	139165236	3	4	47	1	0	0	0	0	1	0	0	0	5449	478	17	3	2770	3	FAM135B	8	139165236	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	61398508	139165236	7198786	100	18440										
RHPN1	114822	broad.mit.edu	37	chr8	144463805	144463805	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tggggcccgtccacctgaccCgaggagagggcggctttggc	17	13	0	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr8:144463805C>A	uc003yyb.2	+	13	1685	c.1552C>A	c.(1552-1554)CGA>AGA	p.R518R		NM_052924	NP_443156	Q8TCX5	RHPN1_HUMAN	rhophilin 1	543	PDZ.				signal transduction	intracellular				large_intestine(1)	1	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.156)			CCACCTGACCCGAGGAGAGGG	0.711													3	25	---	---	---	---	PASS	A	144463805	A	A	144463805	2	1	47	1	0	0	0	0	0	0	0	1	13350	644	23	1		1	RHPN1	8	144463805	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	5298569	144463805	1900217	101	18441										
TMEM2	23670	broad.mit.edu	37	chr9	74305159	74305159	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gaaggtaaagtcagtgccatTgacctgagaatgcaaaaaca	10	7	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr9:74305159T>C	uc011lsa.1	-	22	4240	c.3700A>G	c.(3700-3702)AAT>GAT	p.N1234D	TMEM2_uc011lrz.1_Missense_Mutation_p.N227D|TMEM2_uc010mos.2_Missense_Mutation_p.N1171D|TMEM2_uc011lsb.1_RNA|TMEM2_uc004aik.2_Missense_Mutation_p.N68D	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	1234						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		TCAGTGCCATTGACCTGAGAA	0.478													14	17	---	---	---	---	PASS	C	74305159	C	C	74305159	3	2	47	1	0	0	0	0	1	0	0	0	16118	1812	63	5	463	5	TMEM2	9	74305159	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08		74305159	66908272	102	18442										
TSC1	7248	broad.mit.edu	37	chr9	135785964	135785964	+	Frame_Shift_Del	DEL	G	-	-													0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gagctggatcgcaccttcctGgggggtgtgactgtggcctg					rs118203506		TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr9:135785964delG	uc004cca.2	-	12	1491	c.1257delC	c.(1255-1257)CCCfs	p.P419fs	TSC1_uc004ccb.3_Frame_Shift_Del_p.P418fs|TSC1_uc011mcq.1_Frame_Shift_Del_p.P368fs|TSC1_uc011mcr.1_Intron|TSC1_uc011mcs.1_Frame_Shift_Del_p.P298fs|TSC1_uc004ccc.1_Frame_Shift_Del_p.P419fs	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	419					activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding	p.?(1)		lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		GCACCTTCCTGGGGGGTGTGA	0.562			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				70	32	---	---	---	---		-	135785964	-	-	135785964	7	5	47	1	0	1	0	1	0	0	0	0	16602	1335	47	0	2285	0	TSC1	9	135785964	Frame_Shift_Del	DEL	G	TCGA-22-5478-01A-01D-1632-08	61480805	135785964	5427467	103	18443										
SLC2A6	11182	broad.mit.edu	37	chr9	136338230	136338230	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tggggctgaacactcaccacCactggcaggaaggacttggt	13	11	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr9:136338230C>A	uc004cee.2	-	9	1460	c.1365G>T	c.(1363-1365)GTG>GTT	p.V455V	SLC2A6_uc004cef.2_Silent_p.V393V|SLC2A6_uc004ceg.2_Silent_p.V432V	NM_017585	NP_060055	Q9UGQ3	GTR6_HUMAN	solute carrier family 2 (facilitated glucose	455	Helical; Name=11; (Potential).					integral to membrane|plasma membrane	D-glucose transmembrane transporter activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.47e-08)|Epithelial(140;9.37e-07)|all cancers(34;1.03e-05)		CACTCACCACCACTGGCAGGA	0.682													3	16	---	---	---	---	PASS	A	136338230	A	A	136338230	2	1	47	1	0	0	0	0	0	0	0	1	14549	581	21	3		3	SLC2A6	9	136338230	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	552266	136338230	4875201	104	18444										
FCN1	2219	broad.mit.edu	37	chr9	137808229	137808229	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cacctgcctctccctttggcCctggggccccgggcagcccc	11	21	1	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr9:137808229C>T	uc004cfi.2	-	2	274	c.182G>A	c.(181-183)GGG>GAG	p.G61E		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	61	Collagen-like.				opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		TCCCTTTGGCCCTGGGGCCCC	0.652													57	100	---	---	---	---	PASS	T	137808229	T	T	137808229	3	4	47	1	0	0	0	0	1	0	0	0	5791	623	22	3	830	3	FCN1	9	137808229	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	1469999	137808229	3405202	105	18445										
SFMBT2	57713	broad.mit.edu	37	chr10	7205784	7205784	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgactctctcgatctggtggCataacttgatggcaggcccc	11	12	2	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr10:7205784C>G	uc009xio.1	-	21	2724	c.2633G>C	c.(2632-2634)TGC>TCC	p.C878S	SFMBT2_uc001ijn.1_Missense_Mutation_p.C878S|SFMBT2_uc010qay.1_Missense_Mutation_p.C713S	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	878	SAM.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GATCTGGTGGCATAACTTGAT	0.567													5	26	---	---	---	---	PASS	G	7205784	G	G	7205784	3	3	47	1	0	0	0	0	1	0	0	0	14158	710	25	4	55	4	SFMBT2	10	7205784	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08		7205784	128328963	106	18446										
ITGB1	3688	broad.mit.edu	37	chr10	33197297	33197297	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tggatgttttgtaacttaccGtgtcccatttggcattcatt	8	8	1	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr10:33197297G>A	uc001iws.3	-	15	2466	c.2330C>T	c.(2329-2331)ACG>ATG	p.T777M	ITGB1_uc001iwp.3_Missense_Mutation_p.T777M|ITGB1_uc001iwq.3_Missense_Mutation_p.T777M|ITGB1_uc001iwr.3_Missense_Mutation_p.T777M|ITGB1_uc001iwt.3_Missense_Mutation_p.T777M|ITGB1_uc001iwu.1_Missense_Mutation_p.T777M	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	777	Cytoplasmic (Potential).				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				GTAACTTACCGTGTCCCATTT	0.348													26	62	---	---	---	---	PASS	A	33197297	A	A	33197297	3	1	47	1	0	0	0	0	1	0	0	0	7890	1159	40	1	312	1	ITGB1	10	33197297	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	25991513	33197297	102337450	107	18447										
PCDH15	65217	broad.mit.edu	37	chr10	55566720	55566720	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tccgtgaggcaggcacggcgGgttctcaccacagaaccatt	12	13	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr10:55566720G>T	uc010qhq.1	-	36	5063	c.4668C>A	c.(4666-4668)ACC>ACA	p.T1556T	PCDH15_uc010qhr.1_Silent_p.T1551T	NM_001142771	NP_001136243	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD3-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AGGCACGGCGGGTTCTCACCA	0.478										HNSCC(58;0.16)			12	58	---	---	---	---	PASS	T	55566720	T	T	55566720	2	4	47	1	0	0	0	0	0	0	0	1	11511	1219	43	3		3	PCDH15	10	55566720	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	22369423	55566720	79968027	108	18448										
IFIT1	3434	broad.mit.edu	37	chr10	91162119	91162119	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgggagttatccattgatgaCgatgaaatgcctgatttaga	11	5	0	5			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr10:91162119C>T	uc001kgi.2	+	2	235	c.87C>T	c.(85-87)GAC>GAT	p.D29D	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|IFIT1_uc009xtt.2_Silent_p.D29D|IFIT1_uc001kgj.2_Translation_Start_Site	NM_001548	NP_001539	P09914	IFIT1_HUMAN	interferon-induced protein with	29					cellular response to exogenous dsRNA|intracellular transport of viral proteins in host cell|negative regulation of defense response to virus by host|negative regulation of helicase activity|negative regulation of protein binding|negative regulation of viral genome replication|positive regulation of viral genome replication|response to virus|type I interferon-mediated signaling pathway	cytoplasm	protein binding				0						CCATTGATGACGATGAAATGC	0.383													14	59	---	---	---	---	PASS	T	91162119	T	T	91162119	2	4	47	1	0	0	0	0	0	0	0	1	7521	535	19	1		1	IFIT1	10	91162119	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	35595399	91162119	44372628	109	18449										
CYP2C19	1557	broad.mit.edu	37	chr10	96493185	96493185	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aaaagtgactacttcatgccTttctcagcaggtaatagata	7	8	2	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr10:96493185T>A	uc010qny.1	+	6	950	c.92T>A	c.(91-93)CTT>CAT	p.L31H	CYP2C18_uc001kjv.3_Silent_p.P427P|CYP2C18_uc001kjw.3_Silent_p.P368P|CYP2C19_uc009xus.1_Intron	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	Error:Variant_position_missing_in_P33261_after_alignment					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	ACTTCATGCCTTTCTCAGCAG	0.433													27	44	---	---	---	---	PASS	A	96493185	A	A	96493185	3	1	47	1	0	0	0	0	1	0	0	0	4166	1596	56	5		5	CYP2C19	10	96493185	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	5331066	96493185	39041562	110	18450										
LZTS2	84445	broad.mit.edu	37	chr10	102763912	102763912	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gtctggacgagaatgaggctAccatgtgccaggtgtggtca	15	8	2	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr10:102763912A>T	uc001ksj.2	+	3	1126	c.1057A>T	c.(1057-1059)ACC>TCC	p.T353S	LZTS2_uc010qpw.1_Missense_Mutation_p.T353S|LZTS2_uc001ksk.2_Missense_Mutation_p.T353S|LZTS2_uc001ksl.2_Missense_Mutation_p.T353S|LZTS2_uc001ksm.2_RNA	NM_032429	NP_115805	Q9BRK4	LZTS2_HUMAN	leucine zipper, putative tumor suppressor 2	353	Potential.				cell division|mitosis|Wnt receptor signaling pathway	membrane|microtubule|microtubule organizing center				ovary(2)|large_intestine(1)|breast(1)	4				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		GAATGAGGCTACCATGTGCCA	0.597													5	18	---	---	---	---	PASS	T	102763912	T	T	102763912	3	4	47	1	0	0	0	0	1	0	0	0	9139	391	14	5	1063	5	LZTS2	10	102763912	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	6270727	102763912	32770835	111	18451										
DMBT1	1755	broad.mit.edu	37	chr10	124335935	124335935	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gatctgattctggtttggccCtgaggctggtgaatggagat	15	6	2	4			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr10:124335935C>T	uc001lgk.1	+	7	410	c.304C>T	c.(304-306)CTG>TTG	p.L102L	DMBT1_uc001lgl.1_Silent_p.L102L|DMBT1_uc001lgm.1_Silent_p.L102L|DMBT1_uc009xzz.1_Silent_p.L102L|DMBT1_uc010qtx.1_Silent_p.L102L|DMBT1_uc009yaa.1_5'UTR	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	102	SRCR 1.				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)				TGGTTTGGCCCTGAGGCTGGT	0.557													35	66	---	---	---	---	PASS	T	124335935	T	T	124335935	2	4	47	1	0	0	0	0	0	0	0	1	4577	680	24	3		3	DMBT1	10	124335935	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	21572023	124335935	11198812	112	18452										
OR52J3	119679	broad.mit.edu	37	chr11	5068517	5068517	+	Silent	SNP	C	A	A													0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gtcatctgtgttttctatatCccttcagtcttctctttcct							TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:5068517C>A	uc010qyv.1	+	1	762	c.762C>A	c.(760-762)ATC>ATA	p.I254I		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTTTCTATATCCCTTCAGTCT	0.453													35	95	---	---	---	---	PASS	A	5068517	A	A	5068517	2	1	47	1	0	0	0	0	0	0	0	1	11122	845	30	2		2	OR52J3	11	5068517	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08		5068517	129937999	113	18453	420	2								
OR52J3	119679	broad.mit.edu	37	chr11	5068518	5068518	+	Missense_Mutation	SNP	C	A	A													0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tcatctgtgttttctatatcCcttcagtcttctctttcctt							TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:5068518C>A	uc010qyv.1	+	1	763	c.763C>A	c.(763-765)CCT>ACT	p.P255T		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTTCTATATCCCTTCAGTCTT	0.453													35	92	---	---	---	---	PASS	A	5068518	A	A	5068518	3	1	47	1	0	0	0	0	1	0	0	0	11122	623	22	3	765	3	OR52J3	11	5068518	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	1	5068518	129937998	114	18454	420	2								
OR52B6	340980	broad.mit.edu	37	chr11	5602557	5602557	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ccatctgctcccccctgcgaTatgtcacaatcctcacaagc	5	18	3	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:5602557T>A	uc010qzi.1	+	1	451	c.451T>A	c.(451-453)TAT>AAT	p.Y151N	HBG2_uc001mak.1_Intron	NM_001005162	NP_001005162	Q8NGF0	O52B6_HUMAN	olfactory receptor, family 52, subfamily B,	151	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;3.56e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCCCCTGCGATATGTCACAAT	0.512													20	82	---	---	---	---	PASS	A	5602557	A	A	5602557	3	1	47	1	0	0	0	0	1	0	0	0	11113	1406	49	5	453	5	OR52B6	11	5602557	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	534039	5602557	129403959	115	18455										
TRIM22	10346	broad.mit.edu	37	chr11	5719584	5719584	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gacagaagattctgaaagggTtcaatgaaatgagagtcatc	11	5	3	5			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:5719584T>A	uc001mbr.2	+	4	836	c.559T>A	c.(559-561)TTC>ATC	p.F187I	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Missense_Mutation_p.F155I|TRIM22_uc009yes.2_Missense_Mutation_p.F183I|TRIM22_uc010qzm.1_Intron|TRIM22_uc009yeu.2_5'UTR	NM_006074	NP_006065	Q8IYM9	TRI22_HUMAN	tripartite motif-containing 22	187	Potential.				immune response|interspecies interaction between organisms|protein trimerization|response to virus	Cajal body|Golgi apparatus|nuclear speck	ligase activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)		TCTGAAAGGGTTCAATGAAAT	0.463													3	26	---	---	---	---	PASS	A	5719584	A	A	5719584	3	1	47	1	0	0	0	0	1	0	0	0	16493	1725	60	5	569	5	TRIM22	11	5719584	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	117027	5719584	129286932	116	18456										
OR56A3	390083	broad.mit.edu	37	chr11	5968711	5968711	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ttcctcttggccgtaggggcCaacaccaccctcctgatgac	9	16	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:5968711C>G	uc010qzt.1	+	1	135	c.135C>G	c.(133-135)GCC>GCG	p.A45A		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	45	Helical; Name=1; (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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCGTAGGGGCCAACACCACCC	0.597													25	64	---	---	---	---	PASS	G	5968711	G	G	5968711	2	3	47	1	0	0	0	0	0	0	0	1	11134	581	21	4		4	OR56A3	11	5968711	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	249127	5968711	129037805	117	18457										
FOLH1	2346	broad.mit.edu	37	chr11	49175797	49175797	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	taccaaatgatacactgtatGtcttcatttcctgtggatgt	7	8	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:49175797G>T	uc001ngy.2	-	16	2132	c.1871C>A	c.(1870-1872)ACA>AAA	p.T624K	FOLH1_uc001ngx.2_Missense_Mutation_p.T56K|FOLH1_uc001ngz.2_Missense_Mutation_p.T624K|FOLH1_uc009yly.2_Missense_Mutation_p.T609K|FOLH1_uc009ylz.2_Missense_Mutation_p.T609K|FOLH1_uc009yma.2_Missense_Mutation_p.T316K	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	624	Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	TACACTGTATGTCTTCATTTC	0.333													9	68	---	---	---	---	PASS	T	49175797	T	T	49175797	3	4	47	1	0	0	0	0	1	0	0	0	5979	1377	48	3	397	3	FOLH1	11	49175797	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	43207086	49175797	85830719	118	18458										
OR4S2	219431	broad.mit.edu	37	chr11	55419293	55419293	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	actgtggggcagaaatgtttTcttggaggctaaagggaaat	14	4	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:55419293T>A	uc001nhs.1	+	1	914	c.914T>A	c.(913-915)TTC>TAC	p.F305Y		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				AGAAATGTTTTCTTGGAGGCT	0.264													29	103	---	---	---	---	PASS	A	55419293	A	A	55419293	3	1	47	1	0	0	0	0	1	0	0	0	11083	1783	62	5	916	5	OR4S2	11	55419293	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	6243496	55419293	79587223	119	18459										
OR4C6	219432	broad.mit.edu	37	chr11	55432917	55432917	+	Missense_Mutation	SNP	T	C	C													0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	caagagcactaccatctctcTcaaaggctgcctcacccagc							TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:55432917T>C	uc001nht.3	+	3	540	c.275T>C	c.(274-276)CTC>CCC	p.L92P	OR4C6_uc010rik.1_Missense_Mutation_p.L92P	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						ACCATCTCTCTCAAAGGCTGC	0.502													13	38	---	---	---	---	PASS	C	55432917	C	C	55432917	3	2	47	1	0	0	0	0	1	0	0	0	11052	1551	54	5	277	5	OR4C6	11	55432917	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	13624	55432917	79573599	120	18460	421	2								
OR4C6	219432	broad.mit.edu	37	chr11	55432918	55432918	+	Silent	SNP	C	A	A													0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aagagcactaccatctctctCaaaggctgcctcacccagct							TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:55432918C>A	uc001nht.3	+	3	541	c.276C>A	c.(274-276)CTC>CTA	p.L92L	OR4C6_uc010rik.1_Silent_p.L92L	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CCATCTCTCTCAAAGGCTGCC	0.502													13	37	---	---	---	---	PASS	A	55432918	A	A	55432918	2	1	47	1	0	0	0	0	0	0	0	1	11052	813	29	2		2	OR4C6	11	55432918	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	1	55432918	79573598	121	18461	421	2								
OR4C6	219432	broad.mit.edu	37	chr11	55432933	55432933	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tctctcaaaggctgcctcacCcagctgtttgtggagcattt	9	12	3	0	rs77687368	byFrequency	TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:55432933C>A	uc001nht.3	+	3	556	c.291C>A	c.(289-291)ACC>ACA	p.T97T	OR4C6_uc010rik.1_Silent_p.T97T	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	97	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GCTGCCTCACCCAGCTGTTTG	0.527													15	36	---	---	---	---	PASS	A	55432933	A	A	55432933	2	1	47	1	0	0	0	0	0	0	0	1	11052	610	22	3		3	OR4C6	11	55432933	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	15	55432933	79573583	122	18462										
OR5W2	390148	broad.mit.edu	37	chr11	55681789	55681789	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cagccatagaagggtattgaCttgttcttggcaagtagatc	11	7	1	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:55681789C>G	uc010rir.1	-	1	270	c.270G>C	c.(268-270)AAG>AAC	p.K90N		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AGGGTATTGACTTGTTCTTGG	0.448													16	35	---	---	---	---	PASS	G	55681789	G	G	55681789	3	3	47	1	0	0	0	0	1	0	0	0	11185	564	20	4	664	4	OR5W2	11	55681789	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	248856	55681789	79324727	123	18463										
OR8K3	219473	broad.mit.edu	37	chr11	56086487	56086487	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aattctgctggcagacaaaaGgctttttctacctgtggagc	10	9	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:56086487G>T	uc010rjf.1	+	1	705	c.705G>T	c.(703-705)AAG>AAT	p.K235N		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					GCAGACAAAAGGCTTTTTCTA	0.433													16	38	---	---	---	---	PASS	T	56086487	T	T	56086487	3	4	47	1	0	0	0	0	1	0	0	0	11244	991	35	3	707	3	OR8K3	11	56086487	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	404698	56086487	78920029	124	18464										
OR8K1	390157	broad.mit.edu	37	chr11	56113662	56113662	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tcacagtgataggcaatctgGgcatggttatcttgacctac	10	9	3	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:56113662G>T	uc010rjg.1	+	1	148	c.148G>T	c.(148-150)GGC>TGC	p.G50C		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	50	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					AGGCAATCTGGGCATGGTTAT	0.448										HNSCC(65;0.19)			10	68	---	---	---	---	PASS	T	56113662	T	T	56113662	3	4	47	1	0	0	0	0	1	0	0	0	11243	1232	43	3	150	3	OR8K1	11	56113662	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	27175	56113662	78892854	125	18465										
TMEM132A	54972	broad.mit.edu	37	chr11	60696322	60696322	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cagtaccaggaggtacctctGgacgaggctgtgactctgcg	14	11	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:60696322G>T	uc001nqj.2	+	4	949	c.756G>T	c.(754-756)CTG>CTT	p.L252L	TMEM132A_uc001nqi.2_Silent_p.L252L|TMEM132A_uc001nqk.2_Silent_p.L265L|TMEM132A_uc001nql.1_Silent_p.L265L	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	252	Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						AGGTACCTCTGGACGAGGCTG	0.677													9	24	---	---	---	---	PASS	T	60696322	T	T	60696322	2	4	47	1	0	0	0	0	0	0	0	1	16042	1335	47	3		3	TMEM132A	11	60696322	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	4582660	60696322	74310194	126	18466										
AHNAK	79026	broad.mit.edu	37	chr11	62298384	62298384	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ttctggaccttcgaggctcaCatctggggcttcgatgtcca	11	12	3	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:62298384C>A	uc001ntl.2	-	5	3805	c.3505G>T	c.(3505-3507)GTG>TTG	p.V1169L	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1169					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TCGAGGCTCACATCTGGGGCT	0.542													30	143	---	---	---	---	PASS	A	62298384	A	A	62298384	3	1	47	1	0	0	0	0	1	0	0	0	414	478	17	3	14287	3	AHNAK	11	62298384	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	1602062	62298384	72708132	127	18467										
CFL1	1072	broad.mit.edu	37	chr11	65623490	65623490	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	catagcggcagtccttatctGgcagcatcttgacaaaggtg	11	10	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:65623490G>A	uc001ofs.2	-	2	461	c.227C>T	c.(226-228)CCA>CTA	p.P76L	CFL1_uc001oft.2_Missense_Mutation_p.P76L|CFL1_uc001ofu.2_3'UTR	NM_005507	NP_005498	P23528	COF1_HUMAN	cofilin 1 (non-muscle)	76	ADF-H.				actin cytoskeleton organization|anti-apoptosis|axon guidance|platelet activation|platelet degranulation|response to virus|Rho protein signal transduction	cytoplasm|cytoskeleton|nuclear matrix	actin binding				0				READ - Rectum adenocarcinoma(159;0.169)		GTCCTTATCTGGCAGCATCTT	0.537													12	92	---	---	---	---	PASS	A	65623490	A	A	65623490	3	1	47	1	0	0	0	0	1	0	0	0	3290	1348	47	3	285	3	CFL1	11	65623490	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	3325106	65623490	69383026	128	18468										
RSF1	51773	broad.mit.edu	37	chr11	77412453	77412453	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gtactctttggaacttcttcTggtattggactcaatctttg	8	8	5	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:77412453T>C	uc001oyn.2	-	6	1941	c.1821A>G	c.(1819-1821)CCA>CCG	p.P607P	RSF1_uc001oym.2_Silent_p.P355P	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	607					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			GAACTTCTTCTGGTATTGGAC	0.423													49	76	---	---	---	---	PASS	C	77412453	C	C	77412453	2	2	47	1	0	0	0	0	0	0	0	1	13699	1567	55	5		5	RSF1	11	77412453	Silent	SNP	T	TCGA-22-5478-01A-01D-1632-08	11788963	77412453	57594063	129	18469										
FAM55D	54827	broad.mit.edu	37	chr11	114441738	114441738	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgtacattatttgtgccataTgcaattgttatatcccaggc	7	8	0	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:114441738T>C	uc001ppc.2	-	6	1738	c.1557A>G	c.(1555-1557)GCA>GCG	p.A519A	FAM55D_uc001ppd.2_Silent_p.A235A	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	519						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		TTGTGCCATATGCAATTGTTA	0.313													28	47	---	---	---	---	PASS	C	114441738	C	C	114441738	2	2	47	1	0	0	0	0	0	0	0	1	5587	1451	51	5		5	FAM55D	11	114441738	Silent	SNP	T	TCGA-22-5478-01A-01D-1632-08	37029285	114441738	20564778	130	18470										
ZNF202	7753	broad.mit.edu	37	chr11	123599838	123599838	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ggtaactagggcacacctgtGacagagcagtaagaagagca	13	8	0	4			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:123599838G>C	uc001pzd.1	-	6	1098	c.698C>G	c.(697-699)TCA>TGA	p.S233*	ZNF202_uc001pzc.1_Nonsense_Mutation_p.S9*|ZNF202_uc001pze.1_Nonsense_Mutation_p.S233*|ZNF202_uc001pzf.1_Nonsense_Mutation_p.S233*	NM_003455	NP_003446	O95125	ZN202_HUMAN	zinc finger protein 202	233					lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.03)		GCACACCTGTGACAGAGCAGT	0.493													7	9	---	---	---	---	PASS	C	123599838	C	C	123599838	4	2	47	1	0	0	0	0	0	1	0	0	17760	1294	45	2	1264	2	ZNF202	11	123599838	Nonsense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	9158100	123599838	11406678	131	18471										
OR8A1	390275	broad.mit.edu	37	chr11	124440091	124440091	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agagagcagacctccagctcCccctctttctcctcttcctc	5	19	3	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr11:124440091C>A	uc010san.1	+	1	127	c.127C>A	c.(127-129)CCC>ACC	p.P43T		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	43	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		CCTCCAGCTCCCCCTCTTTCT	0.532													16	30	---	---	---	---	PASS	A	124440091	A	A	124440091	3	1	47	1	0	0	0	0	1	0	0	0	11225	623	22	3	129	3	OR8A1	11	124440091	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	840253	124440091	10566425	132	18472										
WNK1	65125	broad.mit.edu	37	chr12	990939	990939	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctacccagccgaccactttgGcttcctctgtagacaggtac	8	15	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr12:990939G>A	uc001qio.3	+	13	3700	c.3193G>A	c.(3193-3195)GCT>ACT	p.A1065T	WNK1_uc001qip.3_Missense_Mutation_p.A818T|WNK1_uc001qir.3_Missense_Mutation_p.A238T	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1065					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GACCACTTTGGCTTCCTCTGT	0.458													16	54	---	---	---	---	PASS	A	990939	A	A	990939	3	1	47	1	0	0	0	0	1	0	0	0	17374	1203	42	3	4745	3	WNK1	12	990939	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08		990939	132860956	133	18473										
GDF3	9573	broad.mit.edu	37	chr12	7848323	7848323	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aatctggcaagaaacgaagcAtggcctctggagtggctgtc	13	9	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr12:7848323A>G	uc001qte.2	-	1	38	c.2T>C	c.(1-3)ATG>ACG	p.M1T		NM_020634	NP_065685	Q9NR23	GDF3_HUMAN	growth differentiation factor 3 precursor	1					eye development|growth|skeletal system development	extracellular space	cytokine activity|growth factor activity			skin(3)|ovary(1)|lung(1)|central_nervous_system(1)	6						GAAACGAAGCATGGCCTCTGG	0.478													3	15	---	---	---	---	PASS	G	7848323	G	G	7848323	3	3	47	1	0	0	0	0	1	0	0	0	6315	217	8	5	1100	5	GDF3	12	7848323	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	6857384	7848323	126003572	134	18474										
ANO6	196527	broad.mit.edu	37	chr12	45823018	45823018	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgagaatcacctcaaagataTgacgaaaaatatgggggtga	11	5	2	4			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr12:45823018T>C	uc001roo.2	+	20	2992	c.2657T>C	c.(2656-2658)ATG>ACG	p.M886T	ANO6_uc010sld.1_Intron|ANO6_uc010sle.1_Intron|ANO6_uc010slf.1_Missense_Mutation_p.M907T|ANO6_uc010slg.1_Missense_Mutation_p.M868T	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	886	Cytoplasmic (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						CTCAAAGATATGACGAAAAAT	0.388													12	21	---	---	---	---	PASS	C	45823018	C	C	45823018	3	2	47	1	0	0	0	0	1	0	0	0	701	1464	51	5	2755	5	ANO6	12	45823018	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	37974695	45823018	88028877	135	18475										
SFRS2IP	9169	broad.mit.edu	37	chr12	46320550	46320550	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctgtaccgatcatttcctcgTggacatctccaaccatcatt	5	14	3	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr12:46320550T>C	uc001rox.2	-	11	3221	c.2934A>G	c.(2932-2934)CCA>CCG	p.P978P	SFRS2IP_uc001row.2_Silent_p.P663P|SFRS2IP_uc001roy.1_Silent_p.P1052P	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	978	Arg-rich.				spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		CATTTCCTCGTGGACATCTCC	0.388													49	127	---	---	---	---	PASS	C	46320550	C	C	46320550	2	2	47	1	0	0	0	0	0	0	0	1	14177	1683	59	5		5	SFRS2IP	12	46320550	Silent	SNP	T	TCGA-22-5478-01A-01D-1632-08	497532	46320550	87531345	136	18476										
VDR	7421	broad.mit.edu	37	chr12	48249545	48249545	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ggtcatctgaatcttcttcaCtcagatccagattggagaag	9	9	6	4			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr12:48249545C>A	uc001rqm.2	-	8	905	c.623G>T	c.(622-624)AGT>ATT	p.S208I	VDR_uc001rql.2_Missense_Mutation_p.S258I|VDR_uc001rqn.2_Missense_Mutation_p.S208I|VDR_uc010slq.1_Missense_Mutation_p.S176I	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	208	Ligand-binding.				decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	ATCTTCTTCACTCAGATCCAG	0.532													10	29	---	---	---	---	PASS	A	48249545	A	A	48249545	3	1	47	1	0	0	0	0	1	0	0	0	17146	565	20	3	676	3	VDR	12	48249545	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	1928995	48249545	85602350	137	18477										
TFCP2	7024	broad.mit.edu	37	chr12	51504759	51504759	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tcgattatacccacagacatCgggatatctgagaaacaaaa	7	9	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr12:51504759C>A	uc001rxw.2	-	5	924	c.465G>T	c.(463-465)CCG>CCT	p.P155P	TFCP2_uc001rxv.1_Silent_p.P155P|TFCP2_uc009zlx.1_Silent_p.P155P|TFCP2_uc001rxx.2_Silent_p.P155P|TFCP2_uc009zly.1_Silent_p.P57P	NM_005653	NP_005644	Q12800	TFCP2_HUMAN	transcription factor CP2	155	DNA-binding.				regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCACAGACATCGGGATATCTG	0.388													22	83	---	---	---	---	PASS	A	51504759	A	A	51504759	2	1	47	1	0	0	0	0	0	0	0	1	15792	871	31	2		2	TFCP2	12	51504759	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	3255214	51504759	82347136	138	18478										
EIF4B	1975	broad.mit.edu	37	chr12	53428431	53428431	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aagtgaagaaactcaggaacGggaacggtcgaggacaggaa	15	6	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr12:53428431G>T	uc001sbh.3	+	10	1450	c.1244G>T	c.(1243-1245)CGG>CTG	p.R415L	EIF4B_uc010snu.1_Missense_Mutation_p.R415L|EIF4B_uc010snv.1_Missense_Mutation_p.R376L|EIF4B_uc001sbi.2_Missense_Mutation_p.R167L	NM_001417	NP_001408	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	415					insulin receptor signaling pathway|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	nucleotide binding|translation initiation factor activity			breast(1)|kidney(1)	2						ACTCAGGAACGGGAACGGTCG	0.507													8	49	---	---	---	---	PASS	T	53428431	T	T	53428431	3	4	47	1	0	0	0	0	1	0	0	0	5027	1116	39	1	1282	1	EIF4B	12	53428431	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	1923672	53428431	80423464	139	18479										
C12orf63	374467	broad.mit.edu	37	chr12	97137324	97137324	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gcatttaaaggcagacatcaTgacaaaccttcaggtagaaa	8	8	2	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr12:97137324T>C	uc001tet.1	+	20	2717	c.2639T>C	c.(2638-2640)ATG>ACG	p.M880T		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	880										skin(6)|ovary(1)	7						GCAGACATCATGACAAACCTT	0.423													6	30	---	---	---	---	PASS	C	97137324	C	C	97137324	3	2	47	1	0	0	0	0	1	0	0	0	1706	1464	51	5	2713	5	C12orf63	12	97137324	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	43708893	97137324	36714571	140	18480										
OAS3	4940	broad.mit.edu	37	chr12	113388514	113388514	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	acaggggggctcatttggccGgggcacagacctaagggatg	17	9	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr12:113388514G>A	uc001tug.2	+	7	1478	c.1391G>A	c.(1390-1392)CGG>CAG	p.R464Q		NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	464	OAS domain 2.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						TCATTTGGCCGGGGCACAGAC	0.592													9	113	---	---	---	---	PASS	A	113388514	A	A	113388514	3	1	47	1	0	0	0	0	1	0	0	0	10801	1116	39	1	1417	1	OAS3	12	113388514	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	16251190	113388514	20463381	141	18481										
ABCB9	23457	broad.mit.edu	37	chr12	123419863	123419863	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ccatgatgaagccgtgggcaTtggccttctgtgcggcctcc	13	13	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr12:123419863T>C	uc001udm.3	-	10	2169	c.1859A>G	c.(1858-1860)AAT>AGT	p.N620S	ABCB9_uc010tai.1_Missense_Mutation_p.N227S|ABCB9_uc009zxr.2_Intron|ABCB9_uc001udo.3_Missense_Mutation_p.N577S|ABCB9_uc010taj.1_Missense_Mutation_p.N557S|ABCB9_uc001udp.2_Missense_Mutation_p.N620S|ABCB9_uc001udq.2_Missense_Mutation_p.N339S	NM_019625	NP_062571	Q9NP78	ABCB9_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	620	ABC transporter.				positive regulation of T cell mediated cytotoxicity|protein transport	lysosomal membrane|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.84e-05)|Epithelial(86;0.000152)|BRCA - Breast invasive adenocarcinoma(302;0.111)		GCCGTGGGCATTGGCCTTCTG	0.637													5	21	---	---	---	---	PASS	C	123419863	C	C	123419863	3	2	47	1	0	0	0	0	1	0	0	0	48	1493	52	5	453	5	ABCB9	12	123419863	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	10031349	123419863	10432032	142	18482										
TMEM132B	114795	broad.mit.edu	37	chr12	126004126	126004126	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gagctggtcgtctccgagatCttcgtcagccagacaacctt	10	13	3	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr12:126004126C>A	uc001uhe.1	+	4	1241	c.1233C>A	c.(1231-1233)ATC>ATA	p.I411I		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	411	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		TCTCCGAGATCTTCGTCAGCC	0.517													4	52	---	---	---	---	PASS	A	126004126	A	A	126004126	2	1	47	1	0	0	0	0	0	0	0	1	16043	903	32	2		2	TMEM132B	12	126004126	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	2584263	126004126	7847769	143	18483										
RIMBP2	23504	broad.mit.edu	37	chr12	130922965	130922965	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cgtttgcgccattggacagcCcggtgggcgtcagcacaggt	15	12	1	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr12:130922965C>A	uc001uil.2	-	9	1714	c.1550G>T	c.(1549-1551)GGG>GTG	p.G517V	RIMBP2_uc001uim.2_Missense_Mutation_p.G425V|RIMBP2_uc001uin.1_Missense_Mutation_p.G176V	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	517	Fibronectin type-III 3.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		ATTGGACAGCCCGGTGGGCGT	0.637													6	17	---	---	---	---	PASS	A	130922965	A	A	130922965	3	1	47	1	0	0	0	0	1	0	0	0	13363	623	22	3	1652	3	RIMBP2	12	130922965	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	4918839	130922965	2928930	144	18484										
MTMR6	9107	broad.mit.edu	37	chr13	25841966	25841966	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	taaatatcatggcaatctctTtctctgggaacaatgaaatg	7	7	3	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr13:25841966T>A	uc001uqf.3	-	3	574	c.255A>T	c.(253-255)GAA>GAT	p.E85D	MTMR6_uc001uqe.1_Missense_Mutation_p.E85D	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	85						cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		GGCAATCTCTTTCTCTGGGAA	0.393													9	44	---	---	---	---	PASS	A	25841966	A	A	25841966	3	1	47	1	0	0	0	0	1	0	0	0	9947	1838	64	5	1658	5	MTMR6	13	25841966	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08		25841966	89327912	145	18485										
SLITRK1	114798	broad.mit.edu	37	chr13	84453702	84453702	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gcatctcgtctcttggaccgCtttcggttcctcaggataaa	9	12	3	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr13:84453702C>A	uc001vlk.2	-	1	2827	c.1941G>T	c.(1939-1941)AAG>AAT	p.K647N		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	647	Cytoplasmic (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		TCTTGGACCGCTTTCGGTTCC	0.567													9	16	---	---	---	---	PASS	A	84453702	A	A	84453702	3	1	47	1	0	0	0	0	1	0	0	0	14742	796	28	3	153	3	SLITRK1	13	84453702	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	58611736	84453702	30716176	146	18486										
MYO16	23026	broad.mit.edu	37	chr13	109707450	109707450	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agattggaacgaggagatccAgtcaccatagcatcacaact	9	10	2	2	rs143387670		TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr13:109707450A>G	uc001vqt.1	+	26	3165	c.3039A>G	c.(3037-3039)CCA>CCG	p.P1013P	MYO16_uc010agk.1_Silent_p.P1035P|MYO16_uc001vqu.1_Silent_p.P813P|MYO16_uc010tjh.1_Silent_p.P525P	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1013	Myosin head-like 2.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			GAGGAGATCCAGTCACCATAG	0.328													15	20	---	---	---	---	PASS	G	109707450	G	G	109707450	2	3	47	1	0	0	0	0	0	0	0	1	10064	175	7	5		5	MYO16	13	109707450	Silent	SNP	A	TCGA-22-5478-01A-01D-1632-08	25253748	109707450	5462428	147	18487										
C14orf93	60686	broad.mit.edu	37	chr14	23465159	23465159	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gaaactgagctcactcacagAgagtacaagatcccgcttgc	9	12	2	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr14:23465159A>G	uc001wib.1	-	3	1226	c.916T>C	c.(916-918)TCT>CCT	p.S306P	C14orf93_uc001wic.1_Missense_Mutation_p.S126P|C14orf93_uc001wid.1_Missense_Mutation_p.S306P|C14orf93_uc001wig.2_Missense_Mutation_p.S306P|C14orf93_uc001wih.2_Missense_Mutation_p.S306P|C14orf93_uc001wie.2_Missense_Mutation_p.S306P|C14orf93_uc001wia.3_Missense_Mutation_p.S306P|C14orf93_uc001wif.2_Missense_Mutation_p.S126P	NM_021944	NP_068763	Q9H972	CN093_HUMAN	hypothetical protein LOC60686 precursor	306						extracellular region				ovary(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.0127)		TCACTCACAGAGAGTACAAGA	0.493													5	80	---	---	---	---	PASS	G	23465159	G	G	23465159	3	3	47	1	0	0	0	0	1	0	0	0	1782	304	11	5	720	5	C14orf93	14	23465159	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08		23465159	83884381	148	18488										
CEBPE	1053	broad.mit.edu	37	chr14	23588252	23588252	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gccccctgagaactcgagtgGctgctggccaccccggggct	14	16	0	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr14:23588252G>A	uc001wiv.1	-	1	223	c.49C>T	c.(49-51)CCA>TCA	p.P17S		NM_001805	NP_001796	Q15744	CEBPE_HUMAN	CCAAT/enhancer binding protein epsilon	17						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	all_cancers(95;4.6e-05)			GBM - Glioblastoma multiforme(265;0.0064)		AACTCGAGTGGCTGCTGGCCA	0.692													3	29	---	---	---	---	PASS	A	23588252	A	A	23588252	3	1	47	1	0	0	0	0	1	0	0	0	3202	1203	42	3	804	3	CEBPE	14	23588252	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	123093	23588252	83761288	149	18489										
LRFN5	145581	broad.mit.edu	37	chr14	42356142	42356142	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	acgaaatttgagggctttgcAtttgaatagcaacagattga	10	5	0	4			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr14:42356142A>G	uc001wvm.2	+	3	1512	c.314A>G	c.(313-315)CAT>CGT	p.H105R	LRFN5_uc010ana.2_Missense_Mutation_p.H105R	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	105	Extracellular (Potential).|LRR 3.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AGGGCTTTGCATTTGAATAGC	0.368										HNSCC(30;0.082)			18	59	---	---	---	---	PASS	G	42356142	G	G	42356142	3	3	47	1	0	0	0	0	1	0	0	0	8941	217	8	5	316	5	LRFN5	14	42356142	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	18767890	42356142	64993398	150	18490										
C14orf135	64430	broad.mit.edu	37	chr14	60582115	60582115	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gatgtgcaaactgtgactgtAttctttgagaagcaaactag	10	6	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr14:60582115A>G	uc001xer.3	+	3	1113	c.591A>G	c.(589-591)GTA>GTG	p.V197V	C14orf135_uc001xeq.2_Silent_p.V197V|C14orf135_uc010apm.2_5'Flank	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	431						integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		CTGTGACTGTATTCTTTGAGA	0.343													39	118	---	---	---	---	PASS	G	60582115	G	G	60582115	2	3	47	1	0	0	0	0	0	0	0	1	1745	436	16	5		5	C14orf135	14	60582115	Silent	SNP	A	TCGA-22-5478-01A-01D-1632-08	18225973	60582115	46767425	151	18491										
ALDH6A1	4329	broad.mit.edu	37	chr14	74538983	74538983	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgaagtgtctgcccatgcagGaaaagcacgtttgcaggaag	13	8	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr14:74538983G>T	uc001xpo.2	-	4	370	c.271C>A	c.(271-273)CCT>ACT	p.P91T	C14orf45_uc001xpm.1_Intron|ALDH6A1_uc010asa.2_5'UTR|ALDH6A1_uc010tuq.1_Missense_Mutation_p.P91T	NM_005589	NP_005580	Q02252	MMSA_HUMAN	aldehyde dehydrogenase 6A1 precursor	91						mitochondrial matrix|nucleus	fatty-acyl-CoA binding|malonate-semialdehyde dehydrogenase (acetylating) activity|methylmalonate-semialdehyde dehydrogenase (acylating) activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00354)	NADH(DB00157)	GCCCATGCAGGAAAAGCACGT	0.463													14	28	---	---	---	---	PASS	T	74538983	T	T	74538983	3	4	47	1	0	0	0	0	1	0	0	0	503	1174	41	2	1372	2	ALDH6A1	14	74538983	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	13956868	74538983	32810557	152	18492										
SERPINA3	12	broad.mit.edu	37	chr14	95081268	95081268	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ccaagaggctgtatggctccGaggcctttgccactgacttt	11	12	0	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr14:95081268G>C	uc001ydp.2	+	2	569	c.490G>C	c.(490-492)GAG>CAG	p.E164Q	SERPINA3_uc001ydo.3_Missense_Mutation_p.E189Q|SERPINA3_uc010avf.1_RNA|SERPINA3_uc001ydr.2_RNA|SERPINA3_uc001ydq.2_Missense_Mutation_p.E164Q|SERPINA3_uc001yds.2_Missense_Mutation_p.E164Q|SERPINA3_uc010avg.2_Missense_Mutation_p.E164Q	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3	164					acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		GTATGGCTCCGAGGCCTTTGC	0.502													9	42	---	---	---	---	PASS	C	95081268	C	C	95081268	3	2	47	1	0	0	0	0	1	0	0	0	14090	1059	37	2	492	2	SERPINA3	14	95081268	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	20542285	95081268	12268272	153	18493										
DICER1	23405	broad.mit.edu	37	chr14	95562709	95562709	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aagtcatcttcttcaacagcTttgctaggatccagatagca	7	10	4	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr14:95562709T>A	uc001ydw.2	-	24	4730	c.4548A>T	c.(4546-4548)AAA>AAT	p.K1516N	DICER1_uc010avh.1_Missense_Mutation_p.K414N|DICER1_uc001ydv.2_Missense_Mutation_p.K1506N|DICER1_uc001ydx.2_Missense_Mutation_p.K1516N|DICER1_uc001ydy.1_Missense_Mutation_p.K368N	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1516					negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		CTTCAACAGCTTTGCTAGGAT	0.433			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				32	64	---	---	---	---	PASS	A	95562709	A	A	95562709	3	1	47	1	0	0	0	0	1	0	0	0	4521	1606	56	5	1240	5	DICER1	14	95562709	Missense_Mutation	SNP	T	TCGA-22-5478-01A-01D-1632-08	481441	95562709	11786831	154	18494										
AHNAK2	113146	broad.mit.edu	37	chr14	105415577	105415577	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gggcatctccaccttgggcaGgtgccctttgaggccagctc	13	14	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr14:105415577G>C	uc010axc.1	-	7	6331	c.6211C>G	c.(6211-6213)CTG>GTG	p.L2071V	AHNAK2_uc001ypx.2_Missense_Mutation_p.L1971V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2071						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)			ACCTTGGGCAGGTGCCCTTTG	0.617													77	42	---	---	---	---	PASS	C	105415577	C	C	105415577	3	2	47	1	0	0	0	0	1	0	0	0	415	991	35	4	11180	4	AHNAK2	14	105415577	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	9852868	105415577	1933963	155	18495										
TRPM1	4308	broad.mit.edu	37	chr15	31330029	31330029	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	catccccctttcttgagccaGcatctgcatttgcatcctgg	7	15	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr15:31330029G>T	uc001zfm.2	-	19	2518	c.2390C>A	c.(2389-2391)GCT>GAT	p.A797D	TRPM1_uc010azy.2_Missense_Mutation_p.A704D|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	797	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		TCTTGAGCCAGCATCTGCATT	0.478													8	20	---	---	---	---	PASS	T	31330029	T	T	31330029	3	4	47	1	0	0	0	0	1	0	0	0	16582	971	34	3	2457	3	TRPM1	15	31330029	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08		31330029	71201363	156	18496										
UACA	55075	broad.mit.edu	37	chr15	70960257	70960257	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tcgtgctctgccaggctgatGtactcagcttttatttggtt	10	9	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr15:70960257G>A	uc002asr.2	-	16	2870	c.2766C>T	c.(2764-2766)TAC>TAT	p.Y922Y	UACA_uc010uke.1_Silent_p.Y813Y|UACA_uc002asq.2_Silent_p.Y909Y|UACA_uc010bin.1_Silent_p.Y897Y	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	922	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						CCAGGCTGATGTACTCAGCTT	0.363													13	41	---	---	---	---	PASS	A	70960257	A	A	70960257	2	1	47	1	0	0	0	0	0	0	0	1	16821	1372	48	3		3	UACA	15	70960257	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	39630228	70960257	31571135	157	18497										
RASGRF1	5923	broad.mit.edu	37	chr15	79356805	79356805	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ccattcgtcacaatcttttgCgtcctctgtcctcagctcca	5	16	4	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr15:79356805C>A	uc002beq.2	-	2	715	c.340G>T	c.(340-342)GCA>TCA	p.A114S	RASGRF1_uc002bep.2_Missense_Mutation_p.A114S|RASGRF1_uc010blm.1_Missense_Mutation_p.A36S|RASGRF1_uc002ber.3_Missense_Mutation_p.A114S	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	114	PH 1.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						CAATCTTTTGCGTCCTCTGTC	0.512													27	123	---	---	---	---	PASS	A	79356805	A	A	79356805	3	1	47	1	0	0	0	0	1	0	0	0	13072	768	27	1	3589	1	RASGRF1	15	79356805	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	8396548	79356805	23174587	158	18498										
PRC1	9055	broad.mit.edu	37	chr15	91513658	91513658	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctgccagaaggaggaagtcgAgacacgggggagtggtagac	18	7	0	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr15:91513658A>T	uc002bqm.2	-	12	1705	c.1548T>A	c.(1546-1548)TCT>TCA	p.S516S	PRC1_uc002bqn.2_Silent_p.S516S|PRC1_uc002bqo.2_Silent_p.S516S|PRC1_uc010uqs.1_Silent_p.S475S	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	516	Unstructured, Arg/Lys rich.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					GAGGAAGTCGAGACACGGGGG	0.542													28	106	---	---	---	---	PASS	T	91513658	T	T	91513658	2	4	47	1	0	0	0	0	0	0	0	1	12446	291	11	5		5	PRC1	15	91513658	Silent	SNP	A	TCGA-22-5478-01A-01D-1632-08	12156853	91513658	11017734	159	18499										
ABAT	18	broad.mit.edu	37	chr16	8829667	8829667	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctaccgcctgctggtgcctgGtaagccccgggggtcttgat	14	13	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr16:8829667G>T	uc002czc.3	+	2	236	c.70_splice	c.e2+1	p.G24_splice	ABAT_uc002czd.3_Splice_Site_p.G24_splice|ABAT_uc010buh.2_Splice_Site|ABAT_uc010bui.2_Splice_Site_p.G24_splice	NM_020686	NP_065737	P80404	GABT_HUMAN	4-aminobutyrate aminotransferase precursor						behavioral response to cocaine|gamma-aminobutyric acid catabolic process|neurotransmitter catabolic process|neurotransmitter secretion	4-aminobutyrate transaminase complex|mitochondrial matrix	(S)-3-amino-2-methylpropionate transaminase activity|4-aminobutyrate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|succinate-semialdehyde dehydrogenase binding			upper_aerodigestive_tract(1)	1					Divalproex sodium(DB00510)|Isoniazid(DB00951)|L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)|Tiagabine(DB00906)|Valproic Acid(DB00313)|Vigabatrin(DB01080)	CTGGTGCCTGGTAAGCCCCGG	0.597													4	11	---	---	---	---	PASS	T	8829667	T	T	8829667	5	4	47	1	0	0	0	0	0	0	1	0	27	1275	44	3	73	3	ABAT	16	8829667	Splice_Site	SNP	G	TCGA-22-5478-01A-01D-1632-08		8829667	81525086	160	18500										
CPPED1	55313	broad.mit.edu	37	chr16	12758835	12758835	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tcggtgaacaattttctcggCggtgaccaccacgactcgga	11	12	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr16:12758835C>T	uc002dca.3	-	4	964	c.853G>A	c.(853-855)GCC>ACC	p.A285T	CPPED1_uc002dcb.3_Missense_Mutation_p.A143T|CPPED1_uc002dbz.3_RNA	NM_018340	NP_060810	Q9BRF8	CPPED_HUMAN	calcineurin-like phosphoesterase domain	285							hydrolase activity|metal ion binding				0						ATTTTCTCGGCGGTGACCACC	0.522													9	57	---	---	---	---	PASS	T	12758835	T	T	12758835	3	4	47	1	0	0	0	0	1	0	0	0	3822	768	27	1	95	1	CPPED1	16	12758835	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	3929168	12758835	77595918	161	18501										
UMOD	7369	broad.mit.edu	37	chr16	20348632	20348633	+	Frame_Shift_Ins	INS	-	T	T													0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aggcttgcacttttcattcaINStggtgtcacagagatagact							TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr16:20348632_20348633insT	uc002dgz.2	-	8	1849_1850	c.1720_1721insA	c.(1720-1722)ATGfs	p.M574fs	UMOD_uc002dha.2_Frame_Shift_Ins_p.M574fs|UMOD_uc002dhb.2_Frame_Shift_Ins_p.M607fs	NM_003361	NP_003352	P07911	UROM_HUMAN	uromodulin precursor	574	ZP.				cellular defense response|negative regulation of cell proliferation	anchored to membrane|apical plasma membrane|basolateral plasma membrane|cilium membrane|extrinsic to membrane|primary cilium|spindle pole	calcium ion binding			ovary(1)|skin(1)	2						CTTTTCATTCATGGTGTCACAG	0.48													14	8	---	---	---	---		T	20348633	T	T	20348632	7	5	47	1	0	1	1	0	0	0	0	0	16976	217	8	0	217	0	UMOD	16	20348632	Frame_Shift_Ins	INS	-	TCGA-22-5478-01A-01D-1632-08	7589797	20348632	70006121	162	18502										
DNAH3	55567	broad.mit.edu	37	chr16	21082070	21082070	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ggtttgatgaatggggagccAcacatggtctgggtctttat	14	6	2	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr16:21082070A>G	uc010vbe.1	-	22	3162	c.3162T>C	c.(3160-3162)TGT>TGC	p.C1054C		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1054	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ATGGGGAGCCACACATGGTCT	0.433													14	72	---	---	---	---	PASS	G	21082070	G	G	21082070	2	3	47	1	0	0	0	0	0	0	0	1	4603	157	6	5		5	DNAH3	16	21082070	Silent	SNP	A	TCGA-22-5478-01A-01D-1632-08	733438	21082070	69272683	163	18503										
TNRC6A	27327	broad.mit.edu	37	chr16	24788444	24788444	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cagccacagccgcagccgcaGcagcagcagccacagcagca	11	18	0	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr16:24788444G>T	uc002dmm.2	+	5	468	c.354G>T	c.(352-354)CAG>CAT	p.Q118H	TNRC6A_uc010bxs.2_5'UTR	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	118	Gln-rich.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		cgcagccgcagcagcagcagc	0.254													9	24	---	---	---	---	PASS	T	24788444	T	T	24788444	3	4	47	1	0	0	0	0	1	0	0	0	16337	962	34	3	372	3	TNRC6A	16	24788444	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	3706374	24788444	65566309	164	18504										
NOB1	28987	broad.mit.edu	37	chr16	69782934	69782934	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gggggttatccagccaccccCgtcgtcatcgctgtcatctt	10	15	3	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr16:69782934C>A	uc002exs.2	-	6	629	c.613G>T	c.(613-615)GGG>TGG	p.G205W		NM_014062	NP_054781	Q9ULX3	NOB1_HUMAN	nin one binding protein	205						nucleus	metal ion binding|protein binding				0						CAGCCACCCCCGTCGTCATCG	0.552													10	18	---	---	---	---	PASS	A	69782934	A	A	69782934	3	1	47	1	0	0	0	0	1	0	0	0	10511	652	23	1	641	1	NOB1	16	69782934	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	44994490	69782934	20571819	165	18505										
BCAR1	9564	broad.mit.edu	37	chr16	75263738	75263738	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ggcggtaaagaaggcgtccaCggcgttggtcagtgtggtca	17	8	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr16:75263738C>A	uc002fdv.2	-	7	2407	c.2284G>T	c.(2284-2286)GTG>TTG	p.V762L	BCAR1_uc002fdt.2_Missense_Mutation_p.V215L|BCAR1_uc002fdu.2_Missense_Mutation_p.V552L|BCAR1_uc010cgu.2_Missense_Mutation_p.V751L|BCAR1_uc010vna.1_Missense_Mutation_p.V760L|BCAR1_uc010vnb.1_Missense_Mutation_p.V808L|BCAR1_uc002fdw.2_Missense_Mutation_p.V762L|BCAR1_uc010vnc.1_Missense_Mutation_p.V614L|BCAR1_uc010vnd.1_Missense_Mutation_p.V780L|BCAR1_uc002fdx.2_Missense_Mutation_p.V780L	NM_014567	NP_055382	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	762	Divergent helix-loop-helix motif.				actin filament organization|B cell receptor signaling pathway|blood coagulation|cell adhesion|cell division|cell migration|cell proliferation|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|integrin-mediated signaling pathway|nerve growth factor receptor signaling pathway|platelet-derived growth factor receptor signaling pathway|positive regulation of cell migration|regulation of apoptosis|regulation of cell growth|T cell receptor signaling pathway	cytosol|focal adhesion|membrane fraction|ruffle	protein kinase binding|protein phosphatase binding|SH3 domain binding|signal transducer activity			central_nervous_system(5)|breast(2)|prostate(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.169)		AAGGCGTCCACGGCGTTGGTC	0.647													16	46	---	---	---	---	PASS	A	75263738	A	A	75263738	3	1	47	1	0	0	0	0	1	0	0	0	1348	536	19	1	332	1	BCAR1	16	75263738	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	5480804	75263738	15091015	166	18506										
CLEC3A	10143	broad.mit.edu	37	chr16	78064380	78064380	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	taaagttcacaagaaatgctAccttgcttcagaaggtttga	8	7	2	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr16:78064380A>T	uc002ffh.3	+	3	317	c.236A>T	c.(235-237)TAC>TTC	p.Y79F		NM_005752	NP_005743	O75596	CLC3A_HUMAN	C-type lectin domain family 3 member A	79	C-type lectin.				skeletal system development	extracellular region	sugar binding				0						AAGAAATGCTACCTTGCTTCA	0.433													9	68	---	---	---	---	PASS	T	78064380	T	T	78064380	3	4	47	1	0	0	0	0	1	0	0	0	3510	391	14	5	246	5	CLEC3A	16	78064380	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	2800642	78064380	12290373	167	18507										
TCF25	22980	broad.mit.edu	37	chr16	89950999	89950999	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tctatcattagtctcatgcaAgtggcaaactccggaagaag	9	9	3	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr16:89950999A>G	uc002fpb.2	+	3	446	c.364A>G	c.(364-366)AGT>GGT	p.S122G	TCF25_uc002fpc.2_5'UTR	NM_014972	NP_055787	Q9BQ70	TCF25_HUMAN	NULP1	122					heart development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(9;4.71e-08)|Lung NSC(15;0.000192)|all_lung(18;0.000319)|all_neural(9;0.0122)|all_hematologic(23;0.027)		BRCA - Breast invasive adenocarcinoma(80;0.0288)		GTCTCATGCAAGTGGCAAACT	0.438													5	9	---	---	---	---	PASS	G	89950999	G	G	89950999	3	3	47	1	0	0	0	0	1	0	0	0	15690	72	3	5	374	5	TCF25	16	89950999	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	11886619	89950999	403754	168	18508										
ZNF594	84622	broad.mit.edu	37	chr17	5086085	5086085	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gctttcccacattcagtgcaCtgatagggcttctctccagt	8	13	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr17:5086085C>A	uc010cla.1	-	2	1623	c.1467G>T	c.(1465-1467)CAG>CAT	p.Q489H		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	489	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						ATTCAGTGCACTGATAGGGCT	0.458													21	29	---	---	---	---	PASS	A	5086085	A	A	5086085	3	1	47	1	0	0	0	0	1	0	0	0	18021	564	20	3	960	3	ZNF594	17	5086085	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08		5086085	76109125	169	18509										
ACAP1	9744	broad.mit.edu	37	chr17	7253320	7253320	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ggggcgaacgtgaaccaagcGgacagtgcgggccggggccc	19	12	0	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr17:7253320G>C	uc002ggd.2	+	19	2114	c.1908G>C	c.(1906-1908)GCG>GCC	p.A636A	KCTD11_uc002gge.3_5'Flank	NM_014716	NP_055531	Q15027	ACAP1_HUMAN	centaurin beta1	636	Required for interaction with GULP1.				intracellular signal transduction|lipid metabolic process|protein transport|regulation of ARF GTPase activity		ARF GTPase activator activity|phospholipase C activity|protein binding|zinc ion binding			breast(2)|large_intestine(1)	3						TGAACCAAGCGGACAGTGCGG	0.622													11	99	---	---	---	---	PASS	C	7253320	C	C	7253320	2	2	47	1	0	0	0	0	0	0	0	1	118	1103	39	4		4	ACAP1	17	7253320	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	2167235	7253320	73941890	170	18510										
TP53	7157	broad.mit.edu	37	chr17	7577099	7577099	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cttcctctgtgcgccggtctCtcccaggacaggcacaaaca	9	16	2	0	rs121912660		TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr17:7577099C>A	uc002gim.2	-	8	1033	c.839G>T	c.(838-840)AGA>ATA	p.R280I	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R280I|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R148I|TP53_uc010cng.1_Missense_Mutation_p.R148I|TP53_uc002gii.1_Missense_Mutation_p.R148I|TP53_uc010cnh.1_Missense_Mutation_p.R280I|TP53_uc010cni.1_Missense_Mutation_p.R280I|TP53_uc002gij.2_Missense_Mutation_p.R280I	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	280	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> T (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> K (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in a sporadic cancer; somatic mutation).|R -> I (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R280T(53)|p.R280K(41)|p.R280G(18)|p.R280S(13)|p.R280I(12)|p.R280*(8)|p.R280fs*65(7)|p.0?(7)|p.R280R(3)|p.?(2)|p.R280_D281delRD(2)|p.A276_R283delACPGRDRR(1)|p.A276fs*64(1)|p.G279_R280delGR(1)|p.R280fs*62(1)|p.S269fs*21(1)|p.G279fs*59(1)|p.F270_D281del12(1)|p.C275_R283delCACPGRDRR(1)|p.L265_K305del41(1)|p.D281fs*24(1)|p.V272_K292del21(1)|p.C275fs*20(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)		GCGCCGGTCTCTCCCAGGACA	0.542		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)			16	20	---	---	---	---	PASS	A	7577099	A	A	7577099	3	1	47	1	0	0	0	0	1	0	0	0	16378	913	32	2	447	2	TP53	17	7577099	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	323779	7577099	73618111	171	18511										
LIMD2	80774	broad.mit.edu	37	chr17	61776255	61776255	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tggggtacacggtcttctggCaggcggcgcaggtctccttc	15	12	3	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr17:61776255C>T	uc002jbj.3	-	4	306	c.128G>A	c.(127-129)TGC>TAC	p.C43Y	LIMD2_uc002jbk.3_Silent_p.L44L|LIMD2_uc002jbl.3_Missense_Mutation_p.C43Y	NM_030576	NP_085053	Q9BT23	LIMD2_HUMAN	LIM domain containing 2	43	LIM zinc-binding.						zinc ion binding				0						GGTCTTCTGGCAGGCGGCGCA	0.632													19	64	---	---	---	---	PASS	T	61776255	T	T	61776255	3	4	47	1	0	0	0	0	1	0	0	0	8799	710	25	3	263	3	LIMD2	17	61776255	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	54199156	61776255	19418955	172	18512										
SCN4A	6329	broad.mit.edu	37	chr17	62018275	62018275	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cccttctcctccgggcttggCgagctgctgttcccattctc	9	17	2	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr17:62018275C>A	uc002jds.1	-	24	5444	c.5367G>T	c.(5365-5367)TCG>TCT	p.S1789S		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1789					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	CCGGGCTTGGCGAGCTGCTGT	0.667													19	41	---	---	---	---	PASS	A	62018275	A	A	62018275	2	1	47	1	0	0	0	0	0	0	0	1	13920	755	27	1		1	SCN4A	17	62018275	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	242020	62018275	19176935	173	18513										
LRRC37A3	374819	broad.mit.edu	37	chr17	62856410	62856410	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tatttgtaactctagcctttGcactttctaaaatggaaata	5	7	2	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr17:62856410G>A	uc002jey.2	-	11	4385	c.3854C>T	c.(3853-3855)GCA>GTA	p.A1285V	LRRC37A3_uc010wqg.1_Missense_Mutation_p.A403V|LRRC37A3_uc002jex.1_Missense_Mutation_p.A262V|LRRC37A3_uc010wqf.1_Missense_Mutation_p.A323V|LRRC37A3_uc010dek.1_Missense_Mutation_p.A291V	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1285	Extracellular (Potential).					integral to membrane					0						TCTAGCCTTTGCACTTTCTAA	0.463													12	184	---	---	---	---	PASS	A	62856410	A	A	62856410	3	1	47	1	0	0	0	0	1	0	0	0	8993	1319	46	3	1066	3	LRRC37A3	17	62856410	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	838135	62856410	18338800	174	18514										
SLC16A6	9120	broad.mit.edu	37	chr17	66267094	66267094	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctcagcaagcagtggaatgtGagtccctcctattgttccaa	9	11	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr17:66267094G>T	uc002jgz.1	-	5	1395	c.1207C>A	c.(1207-1209)CAC>AAC	p.H403N	ARSG_uc002jhc.2_Intron|SLC16A6_uc002jha.1_Missense_Mutation_p.H403N	NM_004694	NP_004685	O15403	MOT7_HUMAN	solute carrier family 16, member 6	403	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity				0	all_cancers(12;1.24e-09)		BRCA - Breast invasive adenocarcinoma(8;3.17e-08)|LUSC - Lung squamous cell carcinoma(166;0.24)		Pyruvic acid(DB00119)	AGTGGAATGTGAGTCCCTCCT	0.463													32	50	---	---	---	---	PASS	T	66267094	T	T	66267094	3	4	47	1	0	0	0	0	1	0	0	0	14412	1290	45	2	372	2	SLC16A6	17	66267094	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	3410684	66267094	14928116	175	18515										
DNAI2	64446	broad.mit.edu	37	chr17	72305467	72305467	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ttctttaccaccaggatggaCggaaccctggatatctggga	11	10	2	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr17:72305467C>T	uc002jkf.2	+	10	1386	c.1287C>T	c.(1285-1287)GAC>GAT	p.D429D	DNAI2_uc002jkg.2_RNA|DNAI2_uc010dfp.2_RNA|uc002jkh.1_Missense_Mutation_p.V90I|DNAI2_uc002jki.2_RNA	NM_023036	NP_075462	Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate polypeptide 2	429	WD 5.				cilium assembly	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	microtubule motor activity			ovary(2)|central_nervous_system(1)	3						CCAGGATGGACGGAACCCTGG	0.577									Kartagener_syndrome				4	34	---	---	---	---	PASS	T	72305467	T	T	72305467	2	4	47	1	0	0	0	0	0	0	0	1	4610	535	19	1		1	DNAI2	17	72305467	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	6038373	72305467	8889743	176	18516										
LLGL2	3993	broad.mit.edu	37	chr17	73569291	73569291	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cctgctcaagccccaggtgcGctacagctgcatccgccggg	12	17	1	0	rs139000321		TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr17:73569291G>A	uc002joh.2	+	20	2811	c.2657G>A	c.(2656-2658)CGC>CAC	p.R886H	LLGL2_uc002joi.2_Missense_Mutation_p.R886H|LLGL2_uc010dgg.1_Missense_Mutation_p.R886H|LLGL2_uc002joj.2_Missense_Mutation_p.R875H|LLGL2_uc010wsd.1_Missense_Mutation_p.R513H	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	886	WD 13.				cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			CCCCAGGTGCGCTACAGCTGC	0.652													32	81	---	---	---	---	PASS	A	73569291	A	A	73569291	3	1	47	1	0	0	0	0	1	0	0	0	8834	1087	38	1	2766	1	LLGL2	17	73569291	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	1263824	73569291	7625919	177	18517										
CBX4	8535	broad.mit.edu	37	chr17	77808067	77808067	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agcaggatgacctcgggctgCgggagggcggcggctggtgg	22	9	0	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr17:77808067C>G	uc002jxe.2	-	5	1537	c.1374G>C	c.(1372-1374)CCG>CCC	p.P458P		NM_003655	NP_003646	O00257	CBX4_HUMAN	chromobox homolog 4	458	Interaction with BMI1.			P -> R (in Ref. 1; AAB80718 and 4; AAB62734).	anti-apoptosis|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|PcG protein complex	enzyme binding|transcription corepressor activity			skin(2)	2			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CCTCGGGCTGCGGGAGGGCGG	0.716													4	18	---	---	---	---	PASS	G	77808067	G	G	77808067	2	3	47	1	0	0	0	0	0	0	0	1	2720	755	27	4		4	CBX4	17	77808067	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	4238776	77808067	3387143	178	18518										
FAM59A	64762	broad.mit.edu	37	chr18	29848010	29848010	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	caaaccaatgaaccgtagtgActtggacacttcctctatag	7	11	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr18:29848010A>C	uc002kxl.2	-	6	2511	c.2455T>G	c.(2455-2457)TCA>GCA	p.S819A	FAM59A_uc002kxk.1_Missense_Mutation_p.S818A	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	819	SAM.									ovary(1)|skin(1)	2						AACCGTAGTGACTTGGACACT	0.502													42	34	---	---	---	---	PASS	C	29848010	C	C	29848010	3	2	47	1	0	0	0	0	1	0	0	0	5592	275	10	5	179	5	FAM59A	18	29848010	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08		29848010	48229238	179	18519										
TCEB3B	51224	broad.mit.edu	37	chr18	44560338	44560338	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tctctgactggctttcctggAcaggaggcaatttcttagcc	10	11	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr18:44560338A>T	uc002lcr.1	-	1	1651	c.1298T>A	c.(1297-1299)GTC>GAC	p.V433D	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	433					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GCTTTCCTGGACAGGAGGCAA	0.567													171	76	---	---	---	---	PASS	T	44560338	T	T	44560338	3	4	47	1	0	0	0	0	1	0	0	0	15679	275	10	5	967	5	TCEB3B	18	44560338	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	14712328	44560338	33516910	180	18520										
MBD1	4152	broad.mit.edu	37	chr18	47801500	47801500	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ccacccactggggcctcaccGgctctgtgggctctggggac	14	16	3	0	rs115426299	by1000genomes	TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr18:47801500G>A	uc010dow.1	-	9	1345	c.908C>T	c.(907-909)CCG>CTG	p.P303L	MBD1_uc002lef.2_Missense_Mutation_p.P110L|MBD1_uc002leg.2_Missense_Mutation_p.P254L|MBD1_uc010xdi.1_Missense_Mutation_p.P354L|MBD1_uc002leh.3_Missense_Mutation_p.P303L|MBD1_uc002len.2_Missense_Mutation_p.P303L|MBD1_uc002lei.3_Missense_Mutation_p.P303L|MBD1_uc002lej.3_Missense_Mutation_p.P303L|MBD1_uc002lek.3_Missense_Mutation_p.P254L|MBD1_uc002lel.3_Missense_Mutation_p.P303L|MBD1_uc002lem.3_Missense_Mutation_p.P303L|MBD1_uc010xdj.1_Missense_Mutation_p.P303L|MBD1_uc010xdk.1_Missense_Mutation_p.P328L|MBD1_uc010dox.1_Missense_Mutation_p.P303L|MBD1_uc002leo.2_Missense_Mutation_p.P303L	NM_015846	NP_056671	Q9UIS9	MBD1_HUMAN	methyl-CpG binding domain protein 1 isoform 1	303	Pro-rich.				negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|nuclear speck	methyl-CpG binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GGGCCTCACCGGCTCTGTGGG	0.677													13	42	---	---	---	---	PASS	A	47801500	A	A	47801500	3	1	47	1	0	0	0	0	1	0	0	0	9342	1130	39	1	1135	1	MBD1	18	47801500	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	3241162	47801500	30275748	181	18521										
ST8SIA3	51046	broad.mit.edu	37	chr18	55027340	55027340	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tatggattttggccgtttggAtttgaccccaacacaaggga	11	8	0	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr18:55027340A>G	uc002lgn.2	+	4	1332	c.975A>G	c.(973-975)GGA>GGG	p.G325G		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	325	Lumenal (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		GGCCGTTTGGATTTGACCCCA	0.448													15	45	---	---	---	---	PASS	G	55027340	G	G	55027340	2	3	47	1	0	0	0	0	0	0	0	1	15232	320	12	5		5	ST8SIA3	18	55027340	Silent	SNP	A	TCGA-22-5478-01A-01D-1632-08	7225840	55027340	23049908	182	18522										
MUC16	94025	broad.mit.edu	37	chr19	9073731	9073731	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	caagagcgtcccccatgctgGaggcaggaaccattggagat	13	11	0	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:9073731G>T	uc002mkp.2	-	3	13919	c.13715C>A	c.(13714-13716)TCC>TAC	p.S4572Y		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4574	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCCCATGCTGGAGGCAGGAAC	0.522													12	20	---	---	---	---	PASS	T	9073731	T	T	9073731	3	4	47	1	0	0	0	0	1	0	0	0	9973	1174	41	2	30136	2	MUC16	19	9073731	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08		9073731	50055252	183	18523										
MUC16	94025	broad.mit.edu	37	chr19	9083825	9083825	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cagtggggtggaatcaaaggAtgtagctaatgaacttgttg	14	4	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:9083825A>C	uc002mkp.2	-	1	8194	c.7990T>G	c.(7990-7992)TCC>GCC	p.S2664A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2664	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAATCAAAGGATGTAGCTAAT	0.517													11	14	---	---	---	---	PASS	C	9083825	C	C	9083825	3	2	47	1	0	0	0	0	1	0	0	0	9973	333	12	5	35869	5	MUC16	19	9083825	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	10094	9083825	50045158	184	18524										
MAP1S	55201	broad.mit.edu	37	chr19	17835910	17835910	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	caagctactggtgttggctgGgccctgcctggaggagacgg	17	10	0	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:17835910G>T	uc002nhe.1	+	4	365	c.356G>T	c.(355-357)GGG>GTG	p.G119V	MAP1S_uc010eaz.1_RNA|MAP1S_uc010eba.1_Missense_Mutation_p.G119V|MAP1S_uc002nhf.1_Intron|MAP1S_uc010xpv.1_Missense_Mutation_p.G93V	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	119	Necessary for the microtubule-organizing center localization.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						GTGTTGGCTGGGCCCTGCCTG	0.612													25	48	---	---	---	---	PASS	T	17835910	T	T	17835910	3	4	47	1	0	0	0	0	1	0	0	0	9234	1232	43	3	370	3	MAP1S	19	17835910	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	8752085	17835910	41293073	185	18525										
CRTC1	23373	broad.mit.edu	37	chr19	18876308	18876308	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aggcgtcagcaggcatcgccCaccctgtccccgctgtcacc	10	19	2	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:18876308C>G	uc002nkb.3	+	9	1069	c.981C>G	c.(979-981)CCC>CCG	p.P327P	CRTC1_uc010ebv.2_Silent_p.P343P|CRTC1_uc010ebw.2_Silent_p.P192P|CRTC1_uc002nkc.3_Silent_p.P192P	NM_015321	NP_056136	Q6UUV9	CRTC1_HUMAN	mucoepidermoid carcinoma translocated 1 isoform	327	Ser-rich.				interspecies interaction between organisms|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	cAMP response element binding protein binding|protein binding		CRTC1/MAML2(516)	salivary_gland(474)|lung(35)|thyroid(4)|breast(3)|skin(2)|ovary(1)	519						AGGCATCGCCCACCCTGTCCC	0.657													9	130	---	---	---	---	PASS	G	18876308	G	G	18876308	2	3	47	1	0	0	0	0	0	0	0	1	3899	581	21	4		4	CRTC1	19	18876308	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	1040398	18876308	40252675	186	18526										
ZNF208	7757	broad.mit.edu	37	chr19	22155467	22155467	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tcttatgtttaataaggattGcagatcggttaaaagctttg	9	4	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:22155467G>T	uc002nqp.2	-	5	2218	c.2069C>A	c.(2068-2070)GCA>GAA	p.A690E	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				AATAAGGATTGCAGATCGGTT	0.363													20	51	---	---	---	---	PASS	T	22155467	T	T	22155467	3	4	47	1	0	0	0	0	1	0	0	0	17763	1319	46	3	1477	3	ZNF208	19	22155467	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	3279159	22155467	36973516	187	18527										
ZNF257	113835	broad.mit.edu	37	chr19	22271749	22271749	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	attcatactagagagaaggcCtacaaatgtgatgaatattg	9	5	1	4			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:22271749C>T	uc010ecx.2	+	4	1366	c.1197C>T	c.(1195-1197)GCC>GCT	p.A399A	ZNF257_uc010ecy.2_Silent_p.A367A	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	399					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				GAGAGAAGGCCTACAAATGTG	0.373													6	31	---	---	---	---	PASS	T	22271749	T	T	22271749	2	4	47	1	0	0	0	0	0	0	0	1	17797	668	24	3		3	ZNF257	19	22271749	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	116282	22271749	36857234	188	18528										
ZNF254	9534	broad.mit.edu	37	chr19	24309770	24309770	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tactagaaagaaaccctacaAgtgtgaagaatgtggcaaag	10	6	0	4			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:24309770A>T	uc002nru.2	+	4	1102	c.968A>T	c.(967-969)AAG>ATG	p.K323M	ZNF254_uc010xrk.1_Missense_Mutation_p.K238M	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	323	C2H2-type 5.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				AAACCCTACAAGTGTGAAGAA	0.403													29	44	---	---	---	---	PASS	T	24309770	T	T	24309770	3	4	47	1	0	0	0	0	1	0	0	0	17795	72	3	5	982	5	ZNF254	19	24309770	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	2038021	24309770	34819213	189	18529										
FFAR2	2867	broad.mit.edu	37	chr19	35941175	35941175	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ggctggagctgtgcctggtgCtcttcttcatccccatggca	12	13	3	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:35941175C>A	uc002nzg.2	+	2	639	c.559C>A	c.(559-561)CTC>ATC	p.L187I	FFAR2_uc010eea.2_Missense_Mutation_p.L187I	NM_005306	NP_005297	O15552	FFAR2_HUMAN	free fatty acid receptor 2	187	Helical; Name=5; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GTGCCTGGTGCTCTTCTTCAT	0.587													6	113	---	---	---	---	PASS	A	35941175	A	A	35941175	3	1	47	1	0	0	0	0	1	0	0	0	5828	797	28	3	561	3	FFAR2	19	35941175	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	11631405	35941175	23187808	190	18530										
MLL4	9757	broad.mit.edu	37	chr19	36213498	36213498	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gtcccctgtgcaaggtccccGcatcaaacatgtctgccgtc	9	16	2	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:36213498G>A	uc010eei.2	+	5	2600	c.2600G>A	c.(2599-2601)CGC>CAC	p.R867H		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	867					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CAAGGTCCCCGCATCAAACAT	0.657													3	9	---	---	---	---	PASS	A	36213498	A	A	36213498	3	1	47	1	0	0	0	0	1	0	0	0	9623	1087	38	1	2618	1	MLL4	19	36213498	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	272323	36213498	22915485	191	18531										
ZNF568	374900	broad.mit.edu	37	chr19	37427735	37427735	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctcaaagaaacttgtatcgaGatgtgatgctggagaactac	10	7	1	4			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:37427735G>A	uc002ofc.2	+	5	738	c.223G>A	c.(223-225)GAT>AAT	p.D75N	ZNF568_uc010efg.2_Missense_Mutation_p.D61N|ZNF568_uc010xtn.1_5'UTR|ZNF568_uc002ofd.2_5'UTR|ZNF568_uc010efe.2_5'UTR|ZNF568_uc010eff.1_Missense_Mutation_p.D61N	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	75	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTTGTATCGAGATGTGATGCT	0.423													4	57	---	---	---	---	PASS	A	37427735	A	A	37427735	3	1	47	1	0	0	0	0	1	0	0	0	17996	942	33	2	233	2	ZNF568	19	37427735	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	1214237	37427735	21701248	192	18532										
RYR1	6261	broad.mit.edu	37	chr19	39063910	39063910	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agcagcctgaggacgatgacGtgaaggggcagtgggaccga	18	8	0	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:39063910G>T	uc002oit.2	+	96	14222	c.14092G>T	c.(14092-14094)GTG>TTG	p.V4698L	RYR1_uc002oiu.2_Missense_Mutation_p.V4693L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4698					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GGACGATGACGTGAAGGGGCA	0.617													7	17	---	---	---	---	PASS	T	39063910	T	T	39063910	3	4	47	1	0	0	0	0	1	0	0	0	13768	1145	40	1	14474	1	RYR1	19	39063910	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	1636175	39063910	20065073	193	18533										
ZNF235	9310	broad.mit.edu	37	chr19	44791606	44791606	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cactccaactgaattctttcCcacattcctcacatttaaat	1	14	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:44791606C>A	uc002oza.3	-	5	2085	c.1982G>T	c.(1981-1983)GGG>GTG	p.G661V	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF235_uc002ozb.3_Missense_Mutation_p.G657V|ZNF235_uc010xwx.1_Missense_Mutation_p.G575V	NM_004234	NP_004225	Q14590	ZN235_HUMAN	zinc finger protein 93 homolog	661	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)	3		Prostate(69;0.0352)|all_neural(266;0.116)				GAATTCTTTCCCACATTCCTC	0.473													24	72	---	---	---	---	PASS	A	44791606	A	A	44791606	3	1	47	1	0	0	0	0	1	0	0	0	17785	623	22	3	238	3	ZNF235	19	44791606	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	5727696	44791606	14337377	194	18534										
PPP1R13L	10848	broad.mit.edu	37	chr19	45895260	45895260	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctcagtgatgggggacagctCtggctccggccccccgggcc	15	16	2	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:45895260C>G	uc002pbn.2	-	8	1770	c.1693G>C	c.(1693-1695)GAG>CAG	p.E565Q	PPP1R13L_uc002pbm.2_Missense_Mutation_p.E144Q|PPP1R13L_uc002pbo.2_Missense_Mutation_p.E565Q	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	565	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		GGGGACAGCTCTGGCTCCGGC	0.697													21	41	---	---	---	---	PASS	G	45895260	G	G	45895260	3	3	47	1	0	0	0	0	1	0	0	0	12358	922	32	2	817	2	PPP1R13L	19	45895260	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	1103654	45895260	13233723	195	18535										
SNRPD2	6633	broad.mit.edu	37	chr19	46190942	46190942	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cttgccactcttgggtacctCagtccacatctccttcacgt	6	16	4	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:46190942C>T	uc002pcw.2	-	3	523	c.226G>A	c.(226-228)GAG>AAG	p.E76K	SNRPD2_uc002pcv.2_Missense_Mutation_p.E66K	NM_004597	NP_004588	P62316	SMD2_HUMAN	small nuclear ribonucleoprotein D2 isoform 1	76					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00546)|GBM - Glioblastoma multiforme(486;0.0807)|Epithelial(262;0.194)		TTGGGTACCTCAGTCCACATC	0.587													7	80	---	---	---	---	PASS	T	46190942	T	T	46190942	3	4	47	1	0	0	0	0	1	0	0	0	14865	835	29	2	134	2	SNRPD2	19	46190942	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	295682	46190942	12938041	196	18536										
MEIS3	56917	broad.mit.edu	37	chr19	47912500	47912500	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gccacgctggtgtccagcccGtctcctgagggaaggcaggc	15	14	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:47912500G>A	uc002pgu.2	-	8	1161	c.714C>T	c.(712-714)GAC>GAT	p.D238D	MEIS3_uc010xyp.1_5'Flank|MEIS3_uc002pgo.2_Silent_p.D37D|MEIS3_uc002pgp.2_Silent_p.D70D|MEIS3_uc002pgq.2_Silent_p.D319D|MEIS3_uc002pgr.2_Silent_p.D106D|MEIS3_uc002pgt.2_Silent_p.D221D|MEIS3_uc002pgv.2_Silent_p.D221D|MEIS3_uc002pgs.2_Silent_p.D238D|MEIS3_uc010eld.2_Silent_p.D238D	NM_001009813	NP_001009813	Q99687	MEIS3_HUMAN	Meis1, myeloid ecotropic viral integration site	238	Ser/Thr-rich.			D -> V (in Ref. 5).		nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000198)|OV - Ovarian serous cystadenocarcinoma(262;0.000439)|Epithelial(262;0.0113)|GBM - Glioblastoma multiforme(486;0.0223)		TGTCCAGCCCGTCTCCTGAGG	0.607													5	8	---	---	---	---	PASS	A	47912500	A	A	47912500	2	1	47	1	0	0	0	0	0	0	0	1	9469	1136	40	1		1	MEIS3	19	47912500	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	1721558	47912500	11216483	197	18537										
GLTSCR2	29997	broad.mit.edu	37	chr19	48254807	48254807	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	caggccgttggttggccaggAtgagtttttcctggagcaga	15	8	0	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:48254807A>C	uc002phm.2	+	5	653	c.629A>C	c.(628-630)GAT>GCT	p.D210A	GLTSCR2_uc002phk.2_Missense_Mutation_p.D210A|GLTSCR2_uc002phl.2_Missense_Mutation_p.D210A|GLTSCR2_uc010elj.2_Missense_Mutation_p.D210A|GLTSCR2_uc010elk.1_RNA	NM_015710	NP_056525	Q9NZM5	GSCR2_HUMAN	glioma tumor suppressor candidate region gene 2	210				SDNPLDRPLVGQDEFFLE -> LNNPDKPVVWPGCLFPG (in Ref. 3; AAG30413).		nucleolus				central_nervous_system(1)	1		all_cancers(25;1.47e-06)|all_lung(116;6.89e-05)|all_epithelial(76;0.000108)|Lung NSC(112;0.000117)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000301)|OV - Ovarian serous cystadenocarcinoma(262;0.00031)|Epithelial(262;0.0149)|GBM - Glioblastoma multiforme(486;0.0278)		GTTGGCCAGGATGAGTTTTTC	0.607													7	16	---	---	---	---	PASS	C	48254807	C	C	48254807	3	2	47	1	0	0	0	0	1	0	0	0	6475	333	12	5	647	5	GLTSCR2	19	48254807	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	342307	48254807	10874176	198	18538										
NLRP7	199713	broad.mit.edu	37	chr19	55451047	55451047	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	caggtggggaccgggtcctcCcccttctccatctgcagctt	11	16	2	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr19:55451047C>T	uc002qih.3	-	4	1216	c.1140G>A	c.(1138-1140)GGG>GGA	p.G380G	NLRP7_uc002qig.3_Silent_p.G380G|NLRP7_uc002qii.3_Silent_p.G380G|NLRP7_uc010esk.2_Silent_p.G380G|NLRP7_uc010esl.2_Silent_p.G408G	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	380	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CCGGGTCCTCCCCCTTCTCCA	0.682													20	21	---	---	---	---	PASS	T	55451047	T	T	55451047	2	4	47	1	0	0	0	0	0	0	0	1	10482	610	22	3		3	NLRP7	19	55451047	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	7196240	55451047	3677936	199	18539										
C20orf26	26074	broad.mit.edu	37	chr20	20278858	20278858	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	taaccggcagtgcgaaaaatGggacttacttccgaattcat	9	9	1	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr20:20278858G>A	uc002wru.2	+	25	3326	c.3250G>A	c.(3250-3252)GGG>AGG	p.G1084R	C20orf26_uc002wrw.2_RNA	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	1084										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TGCGAAAAATGGGACTTACTT	0.433													8	70	---	---	---	---	PASS	A	20278858	A	A	20278858	3	1	47	1	0	0	0	0	1	0	0	0	2106	1348	47	3	3376	3	C20orf26	20	20278858	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08		20278858	42746662	200	18540										
GZF1	64412	broad.mit.edu	37	chr20	23346140	23346140	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	agcgccacgtgcacagcagcGagcgccatttcccatgcgag	12	15	0	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr20:23346140G>A	uc010gdb.2	+	3	1294	c.1120G>A	c.(1120-1122)GAG>AAG	p.E374K	GZF1_uc002wsy.2_Missense_Mutation_p.E374K|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Missense_Mutation_p.E374K	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	374					transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					GCACAGCAGCGAGCGCCATTT	0.667													7	143	---	---	---	---	PASS	A	23346140	A	A	23346140	3	1	47	1	0	0	0	0	1	0	0	0	6914	1059	37	2	1122	2	GZF1	20	23346140	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	3067282	23346140	39679380	201	18541										
HCK	3055	broad.mit.edu	37	chr20	30661123	30661123	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tctcatttcttccccacaggGgcctaatagccacaacagca	6	15	2	0	rs149121640		TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr20:30661123G>A	uc002wxh.2	+	3	356	c.185G>A	c.(184-186)GGG>GAG	p.G62E	HCK_uc010gdy.2_Missense_Mutation_p.G41E|HCK_uc002wxi.2_Missense_Mutation_p.G41E	NM_002110	NP_002101	P08631	HCK_HUMAN	hemopoietic cell kinase isoform p61HCK	62					interspecies interaction between organisms|mesoderm development|regulation of defense response to virus by virus|viral reproduction	caveola|cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|ovary(2)|central_nervous_system(2)|pancreas(1)	9			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			TCCCCACAGGGGCCTAATAGC	0.398													47	14	---	---	---	---	PASS	A	30661123	A	A	30661123	3	1	47	1	0	0	0	0	1	0	0	0	6994	1246	43	3	201	3	HCK	20	30661123	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	7314983	30661123	32364397	202	18542										
DNMT3B	1789	broad.mit.edu	37	chr20	31393144	31393144	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgggttttggctgttcccagGcccgtgatagcatcaaagaa	12	9	1	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr20:31393144G>T	uc002wyc.2	+	21	2553	c.2232G>T	c.(2230-2232)AGG>AGT	p.R744S	DNMT3B_uc002wyd.2_Missense_Mutation_p.R724S|DNMT3B_uc002wye.2_Intron|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_Intron|DNMT3B_uc010ztz.1_Intron|DNMT3B_uc010zua.1_Intron|DNMT3B_uc002wyf.2_Missense_Mutation_p.R736S|DNMT3B_uc002wyg.2_Intron|DNMT3B_uc010geg.2_Missense_Mutation_p.R43S|DNMT3B_uc010geh.2_Intron	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	744					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						CTGTTCCCAGGCCCGTGATAG	0.498													24	34	---	---	---	---	PASS	T	31393144	T	T	31393144	3	4	47	1	0	0	0	0	1	0	0	0	4677	1217	42	3	2350	3	DNMT3B	20	31393144	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	732021	31393144	31632376	203	18543										
SLCO4A1	28231	broad.mit.edu	37	chr20	61300296	61300296	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ccgcagggggcatcccggggCccatcgccttcggctgggtg	17	15	0	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr20:61300296C>A	uc002ydb.1	+	11	2096	c.1891C>A	c.(1891-1893)CCC>ACC	p.P631T	SLCO4A1_uc002ydc.1_RNA|LOC100127888_uc002ydd.2_5'Flank|SLCO4A1_uc002yde.1_Missense_Mutation_p.P33T	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	631	Helical; Name=11; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)			CATCCCGGGGCCCATCGCCTT	0.652											OREG0026115	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	25	---	---	---	---	PASS	A	61300296	A	A	61300296	3	1	47	1	0	0	0	0	1	0	0	0	14729	739	26	3	1929	3	SLCO4A1	20	61300296	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	29907152	61300296	1725224	204	18544										
KRTAP12-2	353323	broad.mit.edu	37	chr21	46086662	46086662	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cacggctggcttgaagctcaCgggcacacacacggaggact	13	13	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr21:46086662C>T	uc002zfu.2	-	1	183	c.142G>A	c.(142-144)GTG>ATG	p.V48M	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_181684	NP_859012	P59991	KR122_HUMAN	keratin associated protein 12-2	48	23 X 5 AA approximate repeats.|7.					keratin filament					0						TTGAAGCTCACGGGCACACAC	0.657													11	19	---	---	---	---	PASS	T	46086662	T	T	46086662	3	4	47	1	0	0	0	0	1	0	0	0	8519	536	19	1	302	1	KRTAP12-2	21	46086662	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08		46086662	2043233	205	18545										
DDX17	10521	broad.mit.edu	37	chr22	38882080	38882080	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ctgtggctgctgcccagaccGgcctatcccactaaactgct	9	16	0	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chr22:38882080G>C	uc003avy.3	-	13	2159	c.2056C>G	c.(2056-2058)CGG>GGG	p.R686G	DDX17_uc003avw.3_Missense_Mutation_p.R138G|DDX17_uc010gxp.2_Missense_Mutation_p.R136G|DDX17_uc003avx.3_Missense_Mutation_p.R684G	NM_001098504	NP_001091974	Q92841	DDX17_HUMAN	DEAD box polypeptide 17 isoform 3	605					RNA processing	nucleus	ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity|RNA-dependent ATPase activity			skin(3)|upper_aerodigestive_tract(1)	4	Melanoma(58;0.0286)					TGCCCAGACCGGCCTATCCCA	0.522													16	69	---	---	---	---	PASS	C	38882080	C	C	38882080	3	2	47	1	0	0	0	0	1	0	0	0	4344	1115	39	4	143	4	DDX17	22	38882080	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08		38882080	12422486	206	18546										
MAP3K15	389840	broad.mit.edu	37	chrX	19387265	19387265	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gtccggtggctgggggatagCcctcttccgcttcatccatg	13	13	2	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chrX:19387265C>T	uc004czk.1	-	26	3535	c.1898G>A	c.(1897-1899)GGC>GAC	p.G633D	MAP3K15_uc004czj.1_Missense_Mutation_p.G593D|MAP3K15_uc004czi.1_Missense_Mutation_p.G92D	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	1158							ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					TGGGGGATAGCCCTCTTCCGC	0.592													24	14	---	---	---	---	PASS	T	19387265	T	T	19387265	3	4	47	1	0	0	0	0	1	0	0	0	9249	739	26	3	488	3	MAP3K15	23	19387265	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08		19387265	135883295	207	18547										
MAGEB4	4115	broad.mit.edu	37	chrX	30260617	30260617	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gttagtgcagttcctgctgtAcaagtataaaatgaaagagc	10	6	0	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chrX:30260617A>G	uc004dcb.2	+	1	449	c.365A>G	c.(364-366)TAC>TGC	p.Y122C	MAGEB1_uc004dcc.2_5'Flank|MAGEB1_uc004dcd.2_5'Flank	NM_002367	NP_002358	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	122	MAGE.									ovary(1)	1						TTCCTGCTGTACAAGTATAAA	0.438													4	2	---	---	---	---	PASS	G	30260617	G	G	30260617	3	3	47	1	0	0	0	0	1	0	0	0	9178	391	14	5	367	5	MAGEB4	23	30260617	Missense_Mutation	SNP	A	TCGA-22-5478-01A-01D-1632-08	10873352	30260617	125009943	208	18548										
FTHL17	53940	broad.mit.edu	37	chrX	31089535	31089535	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gggctcaagtctctttgacgCggccgcccagggtgagcttg	15	12	2	2			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chrX:31089535C>G	uc004dcl.1	-	1	639	c.536G>C	c.(535-537)CGC>CCC	p.R179P		NM_031894	NP_114100	Q9BXU8	FHL17_HUMAN	ferritin, heavy polypeptide-like 17	179					cellular iron ion homeostasis|iron ion transport		ferric iron binding|oxidoreductase activity				0						CTCTTTGACGCGGCCGCCCAG	0.622													14	8	---	---	---	---	PASS	G	31089535	G	G	31089535	3	3	47	1	0	0	0	0	1	0	0	0	6083	768	27	4	19	4	FTHL17	23	31089535	Missense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	828918	31089535	124181025	209	18549										
FAM47A	158724	broad.mit.edu	37	chrX	34148741	34148779	+	In_Frame_Del	DEL	CGACGACTCTTGGGAAGCTCCGGGCGGAGACTGGACACT	-	-													0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	ccgggtggagactggacaccCgacgactcttgggaagctcc					rs45527437		TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chrX:34148741_34148779delCGACGACTCTTGGGAAGCTCCGGGCGGAGACTGGACACT	uc004ddg.2	-	1	1650_1688	c.1617_1655delAGTGTCCAGTCTCCGCCCGGAGCTTCCCAAGAGTCGTCG	c.(1615-1656)CGAGTGTCCAGTCTCCGCCCGGAGCTTCCCAAGAGTCGTCGG>CGG	p.539_552RVSSLRPELPKSRR>R		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	539_552										ovary(4)|central_nervous_system(1)	5						ACTGGACACCCGACGACTCTTGGGAAGCTCCGGGCGGAGACTGGACACTCGACGAGTCT	0.611													28	16	---	---	---	---		-	34148779	-	-	34148741	7	5	47	1	0	1	0	1	0	0	0	0	5569	652	23	0	724	0	FAM47A	23	34148741	In_Frame_Del	DEL	CGACGACTCTTGGGAAGCTCCGGGCGGAGACTGGACACT	TCGA-22-5478-01A-01D-1632-08	3059206	34148741	121121819	210	18550										
FAM47B	170062	broad.mit.edu	37	chrX	34961384	34961384	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	aagatatgcctccagatctcCtactacaggtgctgaaacag	8	11	1	3			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chrX:34961384C>T	uc004ddi.1	+	1	454	c.436C>T	c.(436-438)CTA>TTA	p.L146L		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	146										ovary(3)|breast(1)	4						TCCAGATCTCCTACTACAGGT	0.572													12	10	---	---	---	---	PASS	T	34961384	T	T	34961384	2	4	47	1	0	0	0	0	0	0	0	1	5570	680	24	3		3	FAM47B	23	34961384	Silent	SNP	C	TCGA-22-5478-01A-01D-1632-08	812643	34961384	120309176	211	18551										
RPGR	6103	broad.mit.edu	37	chrX	38145143	38145143	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tccttcctcctctccttcctCttcctctccttccccctctc	0	24	4	0			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chrX:38145143C>A	uc004ded.1	-	15	3277	c.3109G>T	c.(3109-3111)GAG>TAG	p.E1037*	RPGR_uc004deb.2_Intron|RPGR_uc004dea.2_Intron|RPGR_uc004dec.2_Intron	NM_001034853	NP_001030025	Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator isoform C	826	Glu-rich.				intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						tctccttcctcttcctctcct	0.03													3	8	---	---	---	---	PASS	A	38145143	A	A	38145143	4	1	47	1	0	0	0	0	0	1	0	0	13548	922	32	2	912	2	RPGR	23	38145143	Nonsense_Mutation	SNP	C	TCGA-22-5478-01A-01D-1632-08	3183759	38145143	117125417	212	18552										
CSTF2	1478	broad.mit.edu	37	chrX	100077360	100077360	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	cgcgaattcagtgggagagcActtcgagtggacaatgctgc	14	9	1	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chrX:100077360A>T	uc004egh.2	+	3	316	c.258A>T	c.(256-258)GCA>GCT	p.A86A	CSTF2_uc010nnd.2_Silent_p.A86A|CSTF2_uc004egi.2_Silent_p.A86A	NM_001325	NP_001316	P33240	CSTF2_HUMAN	cleavage stimulation factor subunit 2	86	RRM.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cleavage body|mRNA cleavage and polyadenylation specificity factor complex	nucleotide binding|protein binding|protein binding|RNA binding			skin(1)	1						GTGGGAGAGCACTTCGAGTGG	0.458													16	7	---	---	---	---	PASS	T	100077360	T	T	100077360	2	4	47	1	0	0	0	0	0	0	0	1	3984	146	6	5		5	CSTF2	23	100077360	Silent	SNP	A	TCGA-22-5478-01A-01D-1632-08	61932217	100077360	55193200	213	18553										
CAPN6	827	broad.mit.edu	37	chrX	110491961	110491961	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	gtcccagcacgctcctggatGtagaggtggtggaggcggaa	17	9	0	1			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chrX:110491961G>A	uc004epc.1	-	10	1488	c.1320C>T	c.(1318-1320)TAC>TAT	p.Y440Y	CAPN6_uc011msu.1_Silent_p.Y185Y	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	440	Domain III.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						GCTCCTGGATGTAGAGGTGGT	0.463													17	14	---	---	---	---	PASS	A	110491961	A	A	110491961	2	1	47	1	0	0	0	0	0	0	0	1	2630	1372	48	3		3	CAPN6	23	110491961	Silent	SNP	G	TCGA-22-5478-01A-01D-1632-08	10414601	110491961	44778599	214	18554										
AGTR2	186	broad.mit.edu	37	chrX	115304285	115304285	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0330188679245283	7	0.929787189874148	0.678564928564929	0.896675084175084	0.573872053872054	1	1	0	tgggaagaacaggataacccGtgaccaagtcctgaagatgg	13	8	0	4			TCGA-22-5478-01A-01D-1632-08	TCGA-22-5478-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	0ac704eb-d722-4c27-bfb4-fea6ca7af240	b903e396-c3d3-43e6-8742-3f99bb216ea2	g.chrX:115304285G>A	uc004eqh.3	+	3	959	c.752G>A	c.(751-753)CGT>CAT	p.R251H		NM_000686	NP_000677	P50052	AGTR2_HUMAN	angiotensin II receptor, type 2	251	Cytoplasmic (Potential).				behavior|blood vessel remodeling|brain development|G-protein signaling, coupled to cGMP nucleotide second messenger|intracellular protein kinase cascade|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of heart rate|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of nitric-oxide synthase activity|positive regulation of phosphoprotein phosphatase activity|positive regulation of vasodilation|regulation of systemic arterial blood pressure by circulatory renin-angiotensin		angiotensin type II receptor activity|receptor antagonist activity			ovary(2)|lung(1)	3						AGGATAACCCGTGACCAAGTC	0.438													25	35	---	---	---	---	PASS	A	115304285	A	A	115304285	3	1	47	1	0	0	0	0	1	0	0	0	402	1145	40	1	754	1	AGTR2	23	115304285	Missense_Mutation	SNP	G	TCGA-22-5478-01A-01D-1632-08	4812324	115304285	39966275	215	18555										
PRAMEF2	65122	broad.mit.edu	37	chr1	12921409	12921409	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ctgaaggacctgctgcgccaCaccagtgggctgagcaagtt	13	12	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:12921409C>T	uc001aum.1	+	4	1287	c.1200C>T	c.(1198-1200)CAC>CAT	p.H400H		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	400											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TGCTGCGCCACACCAGTGGGC	0.557													22	58	---	---	---	---	PASS	T	12921409	T	T	12921409	2	4	48	1	0	0	0	0	0	0	0	1	12435	477	17	3		3	PRAMEF2	1	12921409	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08		12921409	236329212	1	18556										
SFRS11	9295	broad.mit.edu	37	chr1	70703197	70703197	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggaagctatgaaaagagtacGagaagcacagtccctaattt	10	7	0	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:70703197G>C	uc001des.2	+	7	804	c.680G>C	c.(679-681)CGA>CCA	p.R227P	SFRS11_uc001det.2_Missense_Mutation_p.R227P|SFRS11_uc001deu.2_Missense_Mutation_p.R227P|SFRS11_uc001dev.2_Missense_Mutation_p.R37P|SFRS11_uc001dew.2_Missense_Mutation_p.R167P	NM_004768	NP_004759	Q05519	SRS11_HUMAN	splicing factor, arginine/serine-rich 11	227					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0						AAAAGAGTACGAGAAGCACAG	0.368													12	34	---	---	---	---	PASS	C	70703197	C	C	70703197	3	2	48	1	0	0	0	0	1	0	0	0	14166	1058	37	2	702	2	SFRS11	1	70703197	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	57781788	70703197	178547424	2	18557										
CLCA1	1179	broad.mit.edu	37	chr1	86961341	86961341	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gagtggagcactgtacatacCtggctggattgagaatggta	14	6	0	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:86961341C>A	uc001dlt.2	+	12	2225	c.2096C>A	c.(2095-2097)CCT>CAT	p.P699H		NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	699					calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		CTGTACATACCTGGCTGGATT	0.433													8	15	---	---	---	---	PASS	A	86961341	A	A	86961341	3	1	48	1	0	0	0	0	1	0	0	0	3457	681	24	3	2142	3	CLCA1	1	86961341	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	16258144	86961341	162289280	3	18558										
S1PR1	1901	broad.mit.edu	37	chr1	101705192	101705192	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ctctgcttctgctctccatcGtcattctgtactgcagaatc	6	14	5	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:101705192G>T	uc001dud.2	+	2	1166	c.652G>T	c.(652-654)GTC>TTC	p.V218F	S1PR1_uc009weg.2_Missense_Mutation_p.V218F	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	218	Helical; Name=5; (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						GCTCTCCATCGTCATTCTGTA	0.567													27	60	---	---	---	---	PASS	T	101705192	T	T	101705192	3	4	48	1	0	0	0	0	1	0	0	0	13793	1145	40	1	654	1	S1PR1	1	101705192	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	14743851	101705192	147545429	4	18559										
RPTN	126638	broad.mit.edu	37	chr1	152127903	152127903	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tctgtctgtctgaccgtagtGggaactctggccttgtctgt	12	10	5	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:152127903G>C	uc001ezs.1	-	3	1737	c.1672C>G	c.(1672-1674)CAC>GAC	p.H558D		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	558	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						TGACCGTAGTGGGAACTCTGG	0.507													166	694	---	---	---	---	PASS	C	152127903	C	C	152127903	3	2	48	1	0	0	0	0	1	0	0	0	13664	1348	47	4	686	4	RPTN	1	152127903	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	50422711	152127903	97122718	5	18560										
SPTA1	6708	broad.mit.edu	37	chr1	158632635	158632635	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gctctttcagagcttcaaatCggcataccaaggactcttgc	8	12	4	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:158632635C>A	uc001fst.1	-	17	2520	c.2321G>T	c.(2320-2322)CGA>CTA	p.R774L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	774	Spectrin 8.				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)					AGCTTCAAATCGGCATACCAA	0.478													9	63	---	---	---	---	PASS	A	158632635	A	A	158632635	3	1	48	1	0	0	0	0	1	0	0	0	15115	884	31	2	5082	2	SPTA1	1	158632635	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	6504732	158632635	90617986	6	18561										
FCER1A	2205	broad.mit.edu	37	chr1	159275988	159275988	+	Missense_Mutation	SNP	G	T	T													0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ctactgtacgggcaaagtgtGgcagctggactatgagtctg							TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:159275988G>T	uc001ftq.2	+	5	641	c.542G>T	c.(541-543)TGG>TTG	p.W181L		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	181	Ig-like 2.|Extracellular (Potential).					integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	GGCAAAGTGTGGCAGCTGGAC	0.453													39	33	---	---	---	---	PASS	T	159275988	T	T	159275988	3	4	48	1	0	0	0	0	1	0	0	0	5774	1357	47	3	556	3	FCER1A	1	159275988	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	643353	159275988	89974633	7	18562	422	2								
FCER1A	2205	broad.mit.edu	37	chr1	159275989	159275989	+	Missense_Mutation	SNP	G	T	T													0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tactgtacgggcaaagtgtgGcagctggactatgagtctga							TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:159275989G>T	uc001ftq.2	+	5	642	c.543G>T	c.(541-543)TGG>TGT	p.W181C		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	181	Ig-like 2.|Extracellular (Potential).					integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	GCAAAGTGTGGCAGCTGGACT	0.453													41	32	---	---	---	---	PASS	T	159275989	T	T	159275989	3	4	48	1	0	0	0	0	1	0	0	0	5774	1212	42	3	557	3	FCER1A	1	159275989	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	1	159275989	89974632	8	18563	422	2								
FCER1A	2205	broad.mit.edu	37	chr1	159277608	159277608	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	attctgtttgctgtggacacAggattatttatctcaactca	7	8	3	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:159277608A>G	uc001ftq.2	+	6	759	c.660A>G	c.(658-660)ACA>ACG	p.T220T		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	220	Helical; (Potential).					integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	CTGTGGACACAGGATTATTTA	0.438													24	100	---	---	---	---	PASS	G	159277608	G	G	159277608	2	3	48	1	0	0	0	0	0	0	0	1	5774	175	7	5		5	FCER1A	1	159277608	Silent	SNP	A	TCGA-22-5480-01A-01D-1632-08	1619	159277608	89973013	9	18564										
IGSF8	93185	broad.mit.edu	37	chr1	160064847	160064847	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tgaagacagcataggagaacTgggtatccttggtactgaca	12	7	0	4			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:160064847T>A	uc001fva.2	-	2	299	c.254A>T	c.(253-255)CAG>CTG	p.Q85L	IGSF8_uc001fuz.2_Missense_Mutation_p.Q85L|IGSF8_uc009wtf.2_Missense_Mutation_p.Q85L	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	85	Ig-like C2-type 1.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			ATAGGAGAACTGGGTATCCTT	0.597													43	29	---	---	---	---	PASS	A	160064847	A	A	160064847	3	1	48	1	0	0	0	0	1	0	0	0	7604	1580	55	5	1607	5	IGSF8	1	160064847	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	787239	160064847	89185774	10	18565										
CRB1	23418	broad.mit.edu	37	chr1	197411333	197411333	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atgagtgtgcctctgatccgTgtgtcaatggaggtctgtgc	14	8	3	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:197411333T>C	uc001gtz.2	+	11	4051	c.3916T>C	c.(3916-3918)TGT>CGT	p.C1306R	CRB1_uc010poz.1_Missense_Mutation_p.C1282R|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.C1194R|CRB1_uc010ppb.1_Missense_Mutation_p.C770R|CRB1_uc010ppd.1_Missense_Mutation_p.C787R|CRB1_uc001gub.1_3'UTR	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1306	Extracellular (Potential).|EGF-like 19; calcium-binding (Potential).				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						CTCTGATCCGTGTGTCAATGG	0.493													95	97	---	---	---	---	PASS	C	197411333	C	C	197411333	3	2	48	1	0	0	0	0	1	0	0	0	3848	1696	59	5	3958	5	CRB1	1	197411333	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	37346486	197411333	51839288	11	18566										
PTPN7	5778	broad.mit.edu	37	chr1	202128422	202128422	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atctcacctctcctgcagtcGcacatgcttcttggctggcg	9	15	3	0	rs149516769		TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:202128422G>A	uc001gxm.1	-	2	240	c.109C>T	c.(109-111)CGA>TGA	p.R37*	PTPN7_uc001gxl.1_Nonsense_Mutation_p.R76*|PTPN7_uc001gxn.1_Nonsense_Mutation_p.R37*|PTPN7_uc010ppv.1_5'UTR|PTPN7_uc010ppw.1_Silent_p.C2C|PTPN7_uc010ppx.1_Nonsense_Mutation_p.R111*|PTPN7_uc010ppy.1_RNA|PTPN7_uc001gxo.1_5'Flank	NM_002832	NP_002823	P35236	PTN7_HUMAN	protein tyrosine phosphatase, non-receptor type	37						cytosol|internal side of plasma membrane	protein binding|protein tyrosine phosphatase activity			skin(1)	1						TCCTGCAGTCGCACATGCTTC	0.632													6	30	---	---	---	---	PASS	A	202128422	A	A	202128422	4	1	48	1	0	0	0	0	0	1	0	0	12793	1095	38	1	1009	1	PTPN7	1	202128422	Nonsense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	4717089	202128422	47122199	12	18567										
ARID4B	51742	broad.mit.edu	37	chr1	235345290	235345290	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	aggtggtttttctagttctaCactgggtgaacaactctcct	9	9	3	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr1:235345290C>A	uc001hwq.2	-	20	3442	c.2944G>T	c.(2944-2946)GTA>TTA	p.V982L	ARID4B_uc001hwr.2_Missense_Mutation_p.V896L|ARID4B_uc001hws.3_Missense_Mutation_p.V896L|ARID4B_uc001hwp.2_RNA|ARID4B_uc001hwt.3_Missense_Mutation_p.V663L	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	982					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			TCTAGTTCTACACTGGGTGAA	0.498													33	149	---	---	---	---	PASS	A	235345290	A	A	235345290	3	1	48	1	0	0	0	0	1	0	0	0	920	478	17	3	1014	3	ARID4B	1	235345290	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	33216868	235345290	13905331	13	18568										
RSAD2	91543	broad.mit.edu	37	chr2	7027158	7027158	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gccaaggaaagaagaaccatGtggaaaaccttcaaaagctg	10	8	1	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:7027158G>A	uc002qyp.1	+	3	737	c.601G>A	c.(601-603)GTG>ATG	p.V201M		NM_080657	NP_542388	Q8WXG1	RSAD2_HUMAN	radical S-adenosyl methionine domain containing	201					defense response to virus	endoplasmic reticulum membrane|Golgi apparatus	catalytic activity|iron-sulfur cluster binding|metal ion binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			OV - Ovarian serous cystadenocarcinoma(76;0.191)		GAAGAACCATGTGGAAAACCT	0.448													14	38	---	---	---	---	PASS	A	7027158	A	A	7027158	3	1	48	1	0	0	0	0	1	0	0	0	13695	1377	48	3	611	3	RSAD2	2	7027158	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08		7027158	236172215	14	18569										
TMEM178	130733	broad.mit.edu	37	chr2	39944267	39944267	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggaacatggttacagctggtCcatcttttgcgcctggtgca	12	10	1	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:39944267C>T	uc002rrt.2	+	4	795	c.770C>T	c.(769-771)TCC>TTC	p.S257F	TMEM178_uc010fam.1_Missense_Mutation_p.S211F	NM_152390	NP_689603	Q8NBL3	TM178_HUMAN	transmembrane protein 178 precursor	257	Extracellular (Potential).					integral to membrane					0		all_hematologic(82;0.248)				TACAGCTGGTCCATCTTTTGC	0.488													62	62	---	---	---	---	PASS	T	39944267	T	T	39944267	3	4	48	1	0	0	0	0	1	0	0	0	16092	855	30	2	784	2	TMEM178	2	39944267	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	32917109	39944267	203255106	15	18570										
SLC8A1	6546	broad.mit.edu	37	chr2	40656327	40656327	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tgaggcgagtagcttgaatgCgataaaatgctctacttttt	10	6	1	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:40656327C>A	uc002rrx.2	-	1	1118	c.1094G>T	c.(1093-1095)CGC>CTC	p.R365L	SLC8A1_uc002rry.2_Missense_Mutation_p.R365L|SLC8A1_uc002rrz.2_Missense_Mutation_p.R365L|SLC8A1_uc002rsa.2_Missense_Mutation_p.R365L|SLC8A1_uc002rsd.3_Missense_Mutation_p.R365L|SLC8A1_uc002rsb.1_Missense_Mutation_p.R365L|SLC8A1_uc010fan.1_Missense_Mutation_p.R365L|SLC8A1_uc002rsc.1_Missense_Mutation_p.R365L	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	365	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	AGCTTGAATGCGATAAAATGC	0.428													23	133	---	---	---	---	PASS	A	40656327	A	A	40656327	3	1	48	1	0	0	0	0	1	0	0	0	14706	768	27	1	1975	1	SLC8A1	2	40656327	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	712060	40656327	202543046	16	18571										
SPRED2	200734	broad.mit.edu	37	chr2	65541258	65541258	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gttgatgcgcacgatctcctCgtcgtcgtccgggaagctca	12	13	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:65541258C>G	uc002sdr.3	-	6	1169	c.634G>C	c.(634-636)GAG>CAG	p.E212Q	SPRED2_uc010fcw.2_Missense_Mutation_p.E209Q	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	212	KBD.				inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						ACGATCTCCTCGTCGTCGTCC	0.597													16	26	---	---	---	---	PASS	G	65541258	G	G	65541258	3	3	48	1	0	0	0	0	1	0	0	0	15092	893	31	2	626	2	SPRED2	2	65541258	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	24884931	65541258	177658115	17	18572										
TGOLN2	10618	broad.mit.edu	37	chr2	85553695	85553695	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tggctgcagtcaccagatatGcaaagaagtggctgctctcc	11	11	2	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:85553695G>A	uc010fgd.1	-	2	1449	c.1160C>T	c.(1159-1161)GCA>GTA	p.A387V	TGOLN2_uc002soz.2_Missense_Mutation_p.A387V|TGOLN2_uc002spa.2_RNA|TGOLN2_uc002spb.2_Missense_Mutation_p.A329V|TGOLN2_uc002spc.1_Missense_Mutation_p.A387V	NM_006464	NP_006455	O43493	TGON2_HUMAN	trans-golgi network protein 2	387	Helical; (Potential).					integral to membrane|nucleus|plasma membrane|trans-Golgi network|transport vesicle	protein binding				0						CACCAGATATGCAAAGAAGTG	0.547													58	46	---	---	---	---	PASS	A	85553695	A	A	85553695	3	1	48	1	0	0	0	0	1	0	0	0	15833	1319	46	3	165	3	TGOLN2	2	85553695	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	20012437	85553695	157645678	18	18573										
PKP4	8502	broad.mit.edu	37	chr2	159481743	159481743	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gggtccccactgaccctgacGgatgcacagactcgagtagc	12	14	0	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:159481743G>C	uc002tzv.2	+	7	1217	c.957G>C	c.(955-957)ACG>ACC	p.T319T	PKP4_uc002tzt.1_Silent_p.T171T|PKP4_uc002tzu.2_Silent_p.T319T|PKP4_uc002tzw.2_Silent_p.T319T|PKP4_uc002tzx.2_5'UTR|PKP4_uc002tzy.1_5'UTR|PKP4_uc002tzz.1_Silent_p.T317T|PKP4_uc002uaa.2_Silent_p.T171T	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	319					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						TGACCCTGACGGATGCACAGA	0.627										HNSCC(62;0.18)			15	39	---	---	---	---	PASS	C	159481743	C	C	159481743	2	2	48	1	0	0	0	0	0	0	0	1	11987	1103	39	4		4	PKP4	2	159481743	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	73928048	159481743	83717630	19	18574										
TTN	7273	broad.mit.edu	37	chr2	179446758	179446758	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gacctgttgcttttaatgttCtttctataataggttttctg	7	6	3	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:179446758C>G	uc010zfg.1	-	264	58858	c.58634G>C	c.(58633-58635)AGA>ACA	p.R19545T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R13240T|TTN_uc010zfi.1_Missense_Mutation_p.R13173T|TTN_uc010zfj.1_Missense_Mutation_p.R13048T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20472							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)			TTTTAATGTTCTTTCTATAAT	0.448													43	108	---	---	---	---	PASS	G	179446758	G	G	179446758	3	3	48	1	0	0	0	0	1	0	0	0	16732	913	32	2	41833	2	TTN	2	179446758	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	19965015	179446758	63752615	20	18575										
TTN	7273	broad.mit.edu	37	chr2	179569457	179569457	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atttcaaagacagcatcattAtctttcaaaactgtctgatt	4	8	5	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:179569457A>G	uc010zfg.1	-	102	26234	c.26010T>C	c.(26008-26010)GAT>GAC	p.D8670D	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.D5331D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9597							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)			CAGCATCATTATCTTTCAAAA	0.318													14	21	---	---	---	---	PASS	G	179569457	G	G	179569457	2	3	48	1	0	0	0	0	0	0	0	1	16732	446	16	5		5	TTN	2	179569457	Silent	SNP	A	TCGA-22-5480-01A-01D-1632-08	122699	179569457	63629916	21	18576										
CCDC141	285025	broad.mit.edu	37	chr2	179718286	179718286	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ttcacagcttcctttgtcttGcactctgtggaatattttcc	6	11	3	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:179718286G>T	uc002unf.1	-	10	1458	c.1401C>A	c.(1399-1401)TGC>TGA	p.C467*		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	467							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			CCTTTGTCTTGCACTCTGTGG	0.413													17	48	---	---	---	---	PASS	T	179718286	T	T	179718286	4	4	48	1	0	0	0	0	0	1	0	0	2775	1311	46	3	1242	3	CCDC141	2	179718286	Nonsense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	148829	179718286	63481087	22	18577										
ZSWIM2	151112	broad.mit.edu	37	chr2	187693346	187693346	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agtaccaggaataaaaagatCtggttctttctgctttgata	8	6	3	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:187693346C>A	uc002upu.1	-	9	1307	c.1267G>T	c.(1267-1269)GAT>TAT	p.D423Y		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	423					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			ATAAAAAGATCTGGTTCTTTC	0.338													25	32	---	---	---	---	PASS	A	187693346	A	A	187693346	3	1	48	1	0	0	0	0	1	0	0	0	18238	913	32	2	638	2	ZSWIM2	2	187693346	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	7975060	187693346	55506027	23	18578										
SF3B1	23451	broad.mit.edu	37	chr2	198262836	198262836	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tcttgcagatacatattcagCtcccctaatttaaaaaatac	3	10	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:198262836C>A	uc002uue.2	-	22	3187	c.3139G>T	c.(3139-3141)GCT>TCT	p.A1047S		NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	1047	HEAT 8.				nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			ACATATTCAGCTCCCCTAATT	0.323													27	71	---	---	---	---	PASS	A	198262836	A	A	198262836	3	1	48	1	0	0	0	0	1	0	0	0	14149	797	28	3	791	3	SF3B1	2	198262836	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	10569490	198262836	44936537	24	18579										
HSPD1	3329	broad.mit.edu	37	chr2	198361921	198361921	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cttctcgaagccttccttggCtatagagcgtgccagtacag	10	12	1	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:198361921C>G	uc002uui.2	-	3	507	c.370G>C	c.(370-372)GCC>CCC	p.A124P	HSPD1_uc002uuj.2_Missense_Mutation_p.A124P|HSPD1_uc010zgx.1_Missense_Mutation_p.A124P|HSPD1_uc010fsm.2_Intron|HSPD1_uc002uuk.2_Missense_Mutation_p.A124P|HSPD1_uc010zgy.1_Missense_Mutation_p.A124P|HSPE1_uc002uul.2_5'Flank	NM_002156	NP_002147	P10809	CH60_HUMAN	chaperonin	124					'de novo' protein folding|activation of caspase activity|B cell cytokine production|B cell proliferation|chaperone-mediated protein complex assembly|interspecies interaction between organisms|isotype switching to IgG isotypes|MyD88-dependent toll-like receptor signaling pathway|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of interferon-alpha production|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of macrophage activation|positive regulation of T cell activation|positive regulation of T cell mediated immune response to tumor cell|protein maturation|protein refolding|protein stabilization|response to unfolded protein|T cell activation	cell surface|coated pit|coated vesicle|cytosol|early endosome|extracellular space|lipopolysaccharide receptor complex|mitochondrial inner membrane|mitochondrial matrix|stored secretory granule	ATP binding|ATPase activity|cell surface binding|chaperone binding|DNA replication origin binding|lipopolysaccharide binding|p53 binding|single-stranded DNA binding				0			Epithelial(96;0.225)			CCTTCCTTGGCTATAGAGCGT	0.443													24	49	---	---	---	---	PASS	G	198361921	G	G	198361921	3	3	48	1	0	0	0	0	1	0	0	0	7428	797	28	4	1391	4	HSPD1	2	198361921	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	99085	198361921	44837452	25	18580										
PARD3B	117583	broad.mit.edu	37	chr2	206023531	206023531	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cctgaatgattcaggttctgCtggcctcggggtgagcttaa	13	9	2	3	rs149158367		TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:206023531C>T	uc002var.1	+	11	1727	c.1520C>T	c.(1519-1521)GCT>GTT	p.A507V	PARD3B_uc010fub.1_Missense_Mutation_p.A507V|PARD3B_uc002vao.1_Missense_Mutation_p.A507V|PARD3B_uc002vap.1_Intron|PARD3B_uc002vaq.1_Missense_Mutation_p.A507V	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	507	PDZ 3.				cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		TCAGGTTCTGCTGGCCTCGGG	0.483													34	65	---	---	---	---	PASS	T	206023531	T	T	206023531	3	4	48	1	0	0	0	0	1	0	0	0	11444	797	28	3	1562	3	PARD3B	2	206023531	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	7661610	206023531	37175842	26	18581										
DNER	92737	broad.mit.edu	37	chr2	230272008	230272008	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gtcgctgtcacaggtggctcCgttcagacagctgacgttag	13	11	2	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr2:230272008C>G	uc002vpv.2	-	10	1810	c.1663G>C	c.(1663-1665)GGA>CGA	p.G555R		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	555	Extracellular (Potential).|Follistatin-like.|EGF-like 9.				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		CAGGTGGCTCCGTTCAGACAG	0.512													13	70	---	---	---	---	PASS	G	230272008	G	G	230272008	3	3	48	1	0	0	0	0	1	0	0	0	4667	661	23	4	566	4	DNER	2	230272008	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	24248477	230272008	12927365	27	18582										
ABHD6	57406	broad.mit.edu	37	chr3	58279428	58279428	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggaaagacccaggaagacagCcaagctcataatcgactttt	9	10	1	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:58279428C>T	uc003djs.3	+	9	1360	c.950C>T	c.(949-951)GCC>GTC	p.A317V	ABHD6_uc003djr.2_Missense_Mutation_p.A318V|ABHD6_uc003djt.3_Missense_Mutation_p.A317V	NM_020676	NP_065727	Q9BV23	ABHD6_HUMAN	abhydrolase domain containing 6	317	Cytoplasmic (Potential).					integral to membrane	acylglycerol lipase activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(55;0.000225)|KIRC - Kidney renal clear cell carcinoma(284;0.0471)|Kidney(284;0.0589)|OV - Ovarian serous cystadenocarcinoma(275;0.209)		AGGAAGACAGCCAAGCTCATA	0.517													16	8	---	---	---	---	PASS	T	58279428	T	T	58279428	3	4	48	1	0	0	0	0	1	0	0	0	86	739	26	3	980	3	ABHD6	3	58279428	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08		58279428	139743002	28	18583										
EPHA6	285220	broad.mit.edu	37	chr3	96533582	96533582	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gaccctcgtgccctgttcccGggacctcgcgcagggggcgc	15	17	0	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:96533582G>A	uc010how.1	+	1	158	c.115G>A	c.(115-117)GGG>AGG	p.G39R	EPHA6_uc003drp.1_Missense_Mutation_p.G39R	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	Error:Variant_position_missing_in_Q9UF33_after_alignment						integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CCCTGTTCCCGGGACCTCGCG	0.637													5	15	---	---	---	---	PASS	A	96533582	A	A	96533582	3	1	48	1	0	0	0	0	1	0	0	0	5171	1116	39	1	117	1	EPHA6	3	96533582	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	38254154	96533582	101488848	29	18584										
GPR128	84873	broad.mit.edu	37	chr3	100373989	100373989	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggaccatgaagcctcttcctCggcatttcattcttttcatc	6	13	4	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:100373989C>T	uc003duc.2	+	12	1958	c.1690C>T	c.(1690-1692)CGG>TGG	p.R564W	GPR128_uc011bhc.1_Missense_Mutation_p.R265W|GPR128_uc003dud.2_Missense_Mutation_p.R87W	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	564	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						GCCTCTTCCTCGGCATTTCAT	0.383													18	84	---	---	---	---	PASS	T	100373989	T	T	100373989	3	4	48	1	0	0	0	0	1	0	0	0	6641	875	31	2	1736	2	GPR128	3	100373989	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	3840407	100373989	97648441	30	18585										
KIAA1524	57650	broad.mit.edu	37	chr3	108300348	108300348	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	aggcatttttaactcatcttCagaagattgactgttgtttt	7	6	3	3	rs138065901	byFrequency	TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:108300348C>G	uc003dxb.3	-	5	732	c.463G>C	c.(463-465)GAA>CAA	p.E155Q	KIAA1524_uc003dxc.1_5'UTR|KIAA1524_uc010hpw.1_5'UTR	NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	155						cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						AACTCATCTTCAGAAGATTGA	0.284													5	34	---	---	---	---	PASS	G	108300348	G	G	108300348	3	3	48	1	0	0	0	0	1	0	0	0	8239	835	29	2	2322	2	KIAA1524	3	108300348	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	7926359	108300348	89722082	31	18586										
CCDC80	151887	broad.mit.edu	37	chr3	112357186	112357186	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	aacattccccacctgcagctCgtcctccagctgagaggcag	9	16	0	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:112357186C>A	uc003dzf.2	-	2	1785	c.1567G>T	c.(1567-1569)GAG>TAG	p.E523*	CCDC80_uc011bhv.1_Nonsense_Mutation_p.E523*|CCDC80_uc003dzg.2_Nonsense_Mutation_p.E523*|CCDC80_uc003dzh.1_Nonsense_Mutation_p.E523*	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	523	Lys-rich.									ovary(2)	2						ACCTGCAGCTCGTCCTCCAGC	0.408													25	57	---	---	---	---	PASS	A	112357186	A	A	112357186	4	1	48	1	0	0	0	0	0	1	0	0	2854	893	31	2	1313	2	CCDC80	3	112357186	Nonsense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	4056838	112357186	85665244	32	18587										
SLC12A8	84561	broad.mit.edu	37	chr3	124807181	124807181	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	aggggagcaagagagacctcAtccaccggaaaaagctgaag	13	9	1	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:124807181A>T	uc003ehv.3	-	13	2066	c.1955T>A	c.(1954-1956)ATG>AAG	p.M652K	SLC12A8_uc003ehw.3_Missense_Mutation_p.M681K|SLC12A8_uc003eht.3_Missense_Mutation_p.M453K|SLC12A8_uc003ehu.3_Missense_Mutation_p.M405K|SLC12A8_uc010hry.2_Intron	NM_024628	NP_078904	A0AV02	S12A8_HUMAN	solute carrier family 12, member 8	652					potassium ion transport	integral to membrane	symporter activity				0						GAGAGACCTCATCCACCGGAA	0.498													16	32	---	---	---	---	PASS	T	124807181	T	T	124807181	3	4	48	1	0	0	0	0	1	0	0	0	14389	217	8	5	197	5	SLC12A8	3	124807181	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	12449995	124807181	73215249	33	18588										
PODXL2	50512	broad.mit.edu	37	chr3	127379397	127379397	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	aagaggaggagagggagaagGaagaggtagagaaacaagag	19	1	0	6			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:127379397G>C	uc003ejq.2	+	3	550	c.526G>C	c.(526-528)GAA>CAA	p.E176Q		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	176	Extracellular (Potential).|Glu-rich.				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						gagggagaaggaagaggtaga	0.333													10	33	---	---	---	---	PASS	C	127379397	C	C	127379397	3	2	48	1	0	0	0	0	1	0	0	0	12181	1175	41	2	536	2	PODXL2	3	127379397	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	2572216	127379397	70643033	34	18589										
TXNDC6	347736	broad.mit.edu	37	chr3	138025270	138025270	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atctcatcagtctttccatgGgccactgcatctggtttaat	7	11	4	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:138025270G>T	uc003esg.2	-	7	541	c.513C>A	c.(511-513)GCC>GCA	p.A171A	TXNDC6_uc003esd.1_RNA|TXNDC6_uc010huf.1_Silent_p.A86A|TXNDC6_uc003ese.1_Silent_p.A110A	NM_178130	NP_835231	Q86XW9	TXND6_HUMAN	thioredoxin domain containing 6	171	NDK.				cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|UTP biosynthetic process	cytoplasm|cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			breast(3)|ovary(1)|pancreas(1)	5						TCTTTCCATGGGCCACTGCAT	0.463													20	41	---	---	---	---	PASS	T	138025270	T	T	138025270	2	4	48	1	0	0	0	0	0	0	0	1	16797	1219	43	3		3	TXNDC6	3	138025270	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	10645873	138025270	59997160	35	18590										
NMD3	51068	broad.mit.edu	37	chr3	160952598	160952598	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tgtggagattgccatagagtAgaagctaaggatttctggaa	13	4	1	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:160952598A>G	uc003feb.1	+	6	560	c.441A>G	c.(439-441)GTA>GTG	p.V147V	NMD3_uc003fec.2_Silent_p.V147V|NMD3_uc003fed.1_Silent_p.V147V|NMD3_uc010hwh.2_5'Flank	NM_015938	NP_057022	Q96D46	NMD3_HUMAN	NMD3 homolog	147					protein transport	cytoplasm|nucleolus|nucleoplasm				ovary(1)	1			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			GCCATAGAGTAGAAGCTAAGG	0.383													18	67	---	---	---	---	PASS	G	160952598	G	G	160952598	2	3	48	1	0	0	0	0	0	0	0	1	10488	407	15	5		5	NMD3	3	160952598	Silent	SNP	A	TCGA-22-5480-01A-01D-1632-08	22927328	160952598	37069832	36	18591										
BCHE	590	broad.mit.edu	37	chr3	165547449	165547449	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tcactcccatccattctggcCacggaagtttggaggatcgg	11	12	2	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:165547449C>A	uc003fem.3	-	2	1533	c.1373G>T	c.(1372-1374)TGG>TTG	p.W458L	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	458					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	CCATTCTGGCCACGGAAGTTT	0.403													16	88	---	---	---	---	PASS	A	165547449	A	A	165547449	3	1	48	1	0	0	0	0	1	0	0	0	1358	595	21	3	447	3	BCHE	3	165547449	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	4594851	165547449	32474981	37	18592										
TNIK	23043	broad.mit.edu	37	chr3	170797378	170797378	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gtttcttttctacttctgggTcattatgtagtattctgttt	7	6	5	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:170797378T>G	uc003fhh.2	-	28	3722	c.3377A>C	c.(3376-3378)GAC>GCC	p.D1126A	TNIK_uc003fhi.2_Missense_Mutation_p.D1071A|TNIK_uc003fhj.2_Missense_Mutation_p.D1097A|TNIK_uc003fhk.2_Missense_Mutation_p.D1118A|TNIK_uc003fhl.2_Missense_Mutation_p.D1042A|TNIK_uc003fhm.2_Missense_Mutation_p.D1063A|TNIK_uc003fhn.2_Missense_Mutation_p.D1089A|TNIK_uc003fho.2_Missense_Mutation_p.D1034A|TNIK_uc003fhg.2_Missense_Mutation_p.D304A|TNIK_uc003fhp.2_Missense_Mutation_p.D58A	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	1126	CNH.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			TACTTCTGGGTCATTATGTAG	0.338													8	31	---	---	---	---	PASS	G	170797378	G	G	170797378	3	3	48	1	0	0	0	0	1	0	0	0	16310	1667	58	5	729	5	TNIK	3	170797378	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	5249929	170797378	27225052	38	18593										
ABCF3	55324	broad.mit.edu	37	chr3	183910653	183910653	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cagctggacctaaacgtcagTgctgtggaactgctggcacg	13	11	1	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:183910653T>A	uc003fmz.2	+	18	1852	c.1719T>A	c.(1717-1719)AGT>AGA	p.S573R	ABCF3_uc003fna.2_Missense_Mutation_p.S567R|ABCF3_uc003fnb.2_Missense_Mutation_p.S254R	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	573	ABC transporter 2.						ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TAAACGTCAGTGCTGTGGAAC	0.542													18	44	---	---	---	---	PASS	A	183910653	A	A	183910653	3	1	48	1	0	0	0	0	1	0	0	0	67	1693	59	5	1789	5	ABCF3	3	183910653	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	13113275	183910653	14111777	39	18594										
C3orf70	285382	broad.mit.edu	37	chr3	184870445	184870445	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atcctaggtgacagcaccagTgcagcttgaagcacttgcca	10	12	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:184870445T>A	uc003fpd.2	-	1	358	c.167A>T	c.(166-168)CAC>CTC	p.H56L		NM_001025266	NP_001020437	A6NLC5	CC070_HUMAN	hypothetical protein LOC285382	56											0						ACAGCACCAGTGCAGCTTGAA	0.697													8	8	---	---	---	---	PASS	A	184870445	A	A	184870445	3	1	48	1	0	0	0	0	1	0	0	0	2242	1696	59	5	593	5	C3orf70	3	184870445	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	959792	184870445	13151985	40	18595										
MASP1	5648	broad.mit.edu	37	chr3	186971078	186971078	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ctttctctccacagaaaggcCccaaaacttttggaccaact	5	14	1	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:186971078C>T	uc003frh.1	-	6	1102	c.770G>A	c.(769-771)GGG>GAG	p.G257E	MASP1_uc003fri.2_Missense_Mutation_p.G257E|MASP1_uc003frj.2_Missense_Mutation_p.G226E|MASP1_uc003frk.1_Missense_Mutation_p.G257E|MASP1_uc011bse.1_Missense_Mutation_p.G231E	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	257	Interaction with FCN2.|CUB 2.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		ACAGAAAGGCCCCAAAACTTT	0.507													61	151	---	---	---	---	PASS	T	186971078	T	T	186971078	3	4	48	1	0	0	0	0	1	0	0	0	9322	623	22	3	2318	3	MASP1	3	186971078	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	2100633	186971078	11051352	41	18596										
PIGZ	80235	broad.mit.edu	37	chr3	196674943	196674943	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ctggagaaataccagctgtcCgtggccacaaacaccgctgc	10	14	0	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr3:196674943C>T	uc003fxh.2	-	3	972	c.825G>A	c.(823-825)ACG>ACA	p.T275T		NM_025163	NP_079439	Q86VD9	PIGZ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	275	Helical; (Potential).				GPI anchor biosynthetic process	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			ovary(3)	3	all_cancers(143;1.05e-08)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.29e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00603)		ACCAGCTGTCCGTGGCCACAA	0.592													12	41	---	---	---	---	PASS	T	196674943	T	T	196674943	2	4	48	1	0	0	0	0	0	0	0	1	11905	639	23	1		1	PIGZ	3	196674943	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08	9703865	196674943	1347487	42	18597										
KCTD8	386617	broad.mit.edu	37	chr4	44177020	44177020	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ctgtttctgcgtttgtctggTgggggtatccattgtacagg	14	7	2	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr4:44177020T>G	uc003gwu.2	-	2	1493	c.1209A>C	c.(1207-1209)CCA>CCC	p.P403P		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	403						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						GTTTGTCTGGTGGGGGTATCC	0.483										HNSCC(17;0.042)			52	135	---	---	---	---	PASS	G	44177020	G	G	44177020	2	3	48	1	0	0	0	0	0	0	0	1	8115	1683	59	5		5	KCTD8	4	44177020	Silent	SNP	T	TCGA-22-5480-01A-01D-1632-08		44177020	146977256	43	18598										
GABRB1	2560	broad.mit.edu	37	chr4	47428023	47428023	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	aatgtcgtctattggctttaCtatgtacactgaggtctgtt	9	7	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr4:47428023C>T	uc003gxh.2	+	9	1787	c.1413C>T	c.(1411-1413)TAC>TAT	p.Y471Y	GABRB1_uc011bze.1_Silent_p.Y401Y	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	471	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			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	ATTGGCTTTACTATGTACACT	0.403													36	65	---	---	---	---	PASS	T	47428023	T	T	47428023	2	4	48	1	0	0	0	0	0	0	0	1	6166	576	20	3		3	GABRB1	4	47428023	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08	3251003	47428023	143726253	44	18599										
FRAS1	80144	broad.mit.edu	37	chr4	79387483	79387483	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gaaagatatctaccagaaccGggtcagctacagccatgacg	10	11	2	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr4:79387483G>T	uc003hlb.2	+	50	7591	c.7151G>T	c.(7150-7152)CGG>CTG	p.R2384L		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2383	CSPG 11.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TACCAGAACCGGGTCAGCTAC	0.537													16	19	---	---	---	---	PASS	T	79387483	T	T	79387483	3	4	48	1	0	0	0	0	1	0	0	0	6042	1116	39	1	7424	1	FRAS1	4	79387483	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	31959460	79387483	111766793	45	18600										
AFF1	4299	broad.mit.edu	37	chr4	87968236	87968236	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggctctagtcatcacaagaaAggtgaccgaagagctgacgg	13	9	3	4			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr4:87968236A>T	uc003hqj.3	+	3	935	c.528A>T	c.(526-528)AAA>AAT	p.K176N	AFF1_uc011ccx.1_Missense_Mutation_p.K117N|AFF1_uc003hqh.1_Missense_Mutation_p.K183N|AFF1_uc011ccy.1_Missense_Mutation_p.K183N|AFF1_uc011ccz.1_Missense_Mutation_p.K183N|AFF1_uc003hqk.3_Missense_Mutation_p.K176N|AFF1_uc011cda.1_Intron	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	176						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		ATCACAAGAAAGGTGACCGAA	0.582													22	44	---	---	---	---	PASS	T	87968236	T	T	87968236	3	4	48	1	0	0	0	0	1	0	0	0	356	69	3	5	580	5	AFF1	4	87968236	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	8580753	87968236	103186040	46	18601										
BANK1	55024	broad.mit.edu	37	chr4	102751013	102751013	+	Missense_Mutation	SNP	G	T	T													0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tgaagaagatgctgaggaatGggctctgtacttgacagaag							TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr4:102751013G>T	uc003hvy.3	+	2	393	c.119G>T	c.(118-120)TGG>TTG	p.W40L	BANK1_uc003hvx.3_Missense_Mutation_p.W25L|BANK1_uc010ill.2_Intron|BANK1_uc003hvz.3_Missense_Mutation_p.W10L	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	40	Interaction with ITPR2.				B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		GCTGAGGAATGGGCTCTGTAC	0.338													11	30	---	---	---	---	PASS	T	102751013	T	T	102751013	3	4	48	1	0	0	0	0	1	0	0	0	1309	1357	47	3	125	3	BANK1	4	102751013	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	14782777	102751013	88403263	47	18602	423	2								
BANK1	55024	broad.mit.edu	37	chr4	102751014	102751014	+	Missense_Mutation	SNP	G	T	T													0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gaagaagatgctgaggaatgGgctctgtacttgacagaagt					rs35978636	byFrequency	TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr4:102751014G>T	uc003hvy.3	+	2	394	c.120G>T	c.(118-120)TGG>TGT	p.W40C	BANK1_uc003hvx.3_Missense_Mutation_p.W25C|BANK1_uc010ill.2_Intron|BANK1_uc003hvz.3_Missense_Mutation_p.W10C	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	40	Interaction with ITPR2.				B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		CTGAGGAATGGGCTCTGTACT	0.338													11	31	---	---	---	---	PASS	T	102751014	T	T	102751014	3	4	48	1	0	0	0	0	1	0	0	0	1309	1241	43	3	126	3	BANK1	4	102751014	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	1	102751014	88403262	48	18603	423	2								
KIAA1109	84162	broad.mit.edu	37	chr4	123107280	123107280	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atctttatggacgccttcaaGagttgtttggtttggagcca	11	7	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr4:123107280G>T	uc003ieh.2	+	5	493	c.448G>T	c.(448-450)GAG>TAG	p.E150*	KIAA1109_uc003iei.1_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	150					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ACGCCTTCAAGAGTTGTTTGG	0.383													19	32	---	---	---	---	PASS	T	123107280	T	T	123107280	4	4	48	1	0	0	0	0	0	1	0	0	8208	943	33	2	466	2	KIAA1109	4	123107280	Nonsense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	20356266	123107280	68046996	49	18604										
ANKRD50	57182	broad.mit.edu	37	chr4	125591992	125591992	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tatactgaggactgtcctacCttcactatcaatactatcca	4	12	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr4:125591992C>T	uc003ifg.3	-	3	2706	c.2440G>A	c.(2440-2442)GGT>AGT	p.G814S	ANKRD50_uc011cgo.1_Missense_Mutation_p.G635S|ANKRD50_uc010inw.2_Missense_Mutation_p.G814S	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	814	ANK 11.									central_nervous_system(1)	1						ACTGTCCTACCTTCACTATCA	0.458													34	52	---	---	---	---	PASS	T	125591992	T	T	125591992	3	4	48	1	0	0	0	0	1	0	0	0	677	681	24	3	1853	3	ANKRD50	4	125591992	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	2484712	125591992	65562284	50	18605										
FSTL5	56884	broad.mit.edu	37	chr4	162307058	162307058	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tcctggatttgcctgtttttCcggttccaaggccattcttc	8	12	1	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr4:162307058C>G	uc003iqh.2	-	16	2821	c.2385G>C	c.(2383-2385)CGG>CGC	p.R795R	FSTL5_uc003iqi.2_Silent_p.R794R|FSTL5_uc010iqv.2_Silent_p.R785R|uc010iqu.1_RNA	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	795						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		GCCTGTTTTTCCGGTTCCAAG	0.453													27	82	---	---	---	---	PASS	G	162307058	G	G	162307058	2	3	48	1	0	0	0	0	0	0	0	1	6080	842	30	2		2	FSTL5	4	162307058	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08	36715066	162307058	28847218	51	18606										
CLCN3	1182	broad.mit.edu	37	chr4	170618424	170618424	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ttgttttgaggtccatcaatCcatttggtaacagccgtctg	9	9	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr4:170618424C>G	uc003isi.2	+	9	1611	c.1102C>G	c.(1102-1104)CCA>GCA	p.P368A	CLCN3_uc003ish.2_Missense_Mutation_p.P368A|CLCN3_uc011cjz.1_Missense_Mutation_p.P351A|CLCN3_uc011cka.1_Missense_Mutation_p.P341A|CLCN3_uc003isj.1_Missense_Mutation_p.P341A	NM_001829	NP_001820	P51790	CLCN3_HUMAN	chloride channel 3 isoform b	368					endosomal lumen acidification	cell surface|early endosome membrane|Golgi membrane|integral to membrane|late endosome membrane|transport vesicle membrane	antiporter activity|ATP binding|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|voltage-gated chloride channel activity			breast(2)|ovary(1)	3		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0233)|LUSC - Lung squamous cell carcinoma(193;0.131)		GTCCATCAATCCATTTGGTAA	0.363													48	71	---	---	---	---	PASS	G	170618424	G	G	170618424	3	3	48	1	0	0	0	0	1	0	0	0	3464	855	30	2	1132	2	CLCN3	4	170618424	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	8311366	170618424	20535852	52	18607										
HAPLN1	1404	broad.mit.edu	37	chr5	82948380	82948380	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gtctgtgatgaccagagaagCatcactatcactgcctccct	8	13	3	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr5:82948380C>T	uc003kim.2	-	2	435	c.364G>A	c.(364-366)GCT>ACT	p.A122T	HAPLN1_uc003kin.2_Missense_Mutation_p.A122T	NM_001884	NP_001875	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	122	Ig-like V-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)		ACCAGAGAAGCATCACTATCA	0.443													16	94	---	---	---	---	PASS	T	82948380	T	T	82948380	3	4	48	1	0	0	0	0	1	0	0	0	6954	710	25	3	712	3	HAPLN1	5	82948380	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08		82948380	97966880	53	18608										
GPR98	84059	broad.mit.edu	37	chr5	89989783	89989783	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tggctctggcaatggaggaaGgtcaagatttactgtcctac	12	8	2	1	rs78203228	by1000genomes	TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr5:89989783G>A	uc003kju.2	+	33	7306	c.7210G>A	c.(7210-7212)GGT>AGT	p.G2404S	GPR98_uc003kjt.2_Missense_Mutation_p.G110S|GPR98_uc003kjv.2_Missense_Mutation_p.G4S	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2404	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AATGGAGGAAGGTCAAGATTT	0.483													5	21	---	---	---	---	PASS	A	89989783	A	A	89989783	3	1	48	1	0	0	0	0	1	0	0	0	6721	1000	35	3	7340	3	GPR98	5	89989783	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	7041403	89989783	90925477	54	18609										
ST8SIA4	7903	broad.mit.edu	37	chr5	100222203	100222203	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	catgagaaatgtttagtgtcCggcgcctgtcaagcacatag	11	9	1	1	rs150785295		TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr5:100222203C>T	uc003knk.2	-	3	675	c.347G>A	c.(346-348)CGG>CAG	p.R116Q	ST8SIA4_uc003knl.2_Missense_Mutation_p.R116Q	NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	116	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		GTTTAGTGTCCGGCGCCTGTC	0.438													34	23	---	---	---	---	PASS	T	100222203	T	T	100222203	3	4	48	1	0	0	0	0	1	0	0	0	15233	652	23	1	748	1	ST8SIA4	5	100222203	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	10232420	100222203	80693057	55	18610										
ISOC1	51015	broad.mit.edu	37	chr5	128448670	128448670	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	attaaggcgagtgctccagaGtcgggtctgctttccaaagt	12	9	1	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr5:128448670G>T	uc003kva.2	+	5	891	c.873G>T	c.(871-873)GAG>GAT	p.E291D		NM_016048	NP_057132	Q96CN7	ISOC1_HUMAN	isochorismatase domain containing 1	291						peroxisome	catalytic activity				0		all_cancers(142;0.0813)|Prostate(80;0.0865)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.138)|OV - Ovarian serous cystadenocarcinoma(64;0.164)		GTGCTCCAGAGTCGGGTCTGC	0.463													53	26	---	---	---	---	PASS	T	128448670	T	T	128448670	3	4	48	1	0	0	0	0	1	0	0	0	7862	1020	36	3	891	3	ISOC1	5	128448670	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	28226467	128448670	52466590	56	18611										
TGFBI	7045	broad.mit.edu	37	chr5	135383035	135383035	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	acggggtggtgcacctcatcGataaggtcatctccaccatc	10	13	3	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr5:135383035G>A	uc003lbf.3	+	6	858	c.697G>A	c.(697-699)GAT>AAT	p.D233N	TGFBI_uc003lbg.3_5'UTR|TGFBI_uc003lbh.3_Missense_Mutation_p.D59N|TGFBI_uc011cyb.1_Missense_Mutation_p.D59N|TGFBI_uc010jed.2_5'Flank	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	233	FAS1 1.				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)			GCACCTCATCGATAAGGTCAT	0.557													52	102	---	---	---	---	PASS	A	135383035	A	A	135383035	3	1	48	1	0	0	0	0	1	0	0	0	15817	1058	37	2	719	2	TGFBI	5	135383035	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	6934365	135383035	45532225	57	18612										
PCDHA2	56146	broad.mit.edu	37	chr5	140175375	140175375	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cagatgaaggaccgaacagcGagattgtgtattcactcggt	12	8	1	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr5:140175375G>T	uc003lhd.2	+	1	932	c.826G>T	c.(826-828)GAG>TAG	p.E276*	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Nonsense_Mutation_p.E276*|PCDHA2_uc011czy.1_Nonsense_Mutation_p.E276*	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	276	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCGAACAGCGAGATTGTGTA	0.408													51	19	---	---	---	---	PASS	T	140175375	T	T	140175375	4	4	48	1	0	0	0	0	0	1	0	0	11524	1059	37	2	828	2	PCDHA2	5	140175375	Nonsense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	4792340	140175375	40739885	58	18613										
PCDHB8	56128	broad.mit.edu	37	chr5	140559232	140559232	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggcgcttcagaccgcggctcCccggctttgagcagcgaggc	15	15	1	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr5:140559232C>G	uc011dai.1	+	1	1803	c.1617C>G	c.(1615-1617)TCC>TCG	p.S539S	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	539	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACCGCGGCTCCCCGGCTTTGA	0.672													27	56	---	---	---	---	PASS	G	140559232	G	G	140559232	2	3	48	1	0	0	0	0	0	0	0	1	11548	610	22	4		4	PCDHB8	5	140559232	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08	383857	140559232	40356028	59	18614										
PCDHGB2	56103	broad.mit.edu	37	chr5	140740790	140740790	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	accggaggattcgccaccagGaacagtgatcgccttgataa	11	11	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr5:140740790G>A	uc003ljs.1	+	1	1088	c.1088G>A	c.(1087-1089)GGA>GAA	p.G363E	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Missense_Mutation_p.G363E	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	363	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGCCACCAGGAACAGTGATC	0.428													36	18	---	---	---	---	PASS	A	140740790	A	A	140740790	3	1	48	1	0	0	0	0	1	0	0	0	11563	1174	41	2	1090	2	PCDHGB2	5	140740790	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	181558	140740790	40174470	60	18615										
PCDHGA10	56106	broad.mit.edu	37	chr5	140793345	140793345	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tacccggagctggtactggaGcactccctagatcgcgagga	13	12	0	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr5:140793345G>A	uc003lkl.1	+	1	603	c.603G>A	c.(601-603)GAG>GAA	p.E201E	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Silent_p.E201E	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	201	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTACTGGAGCACTCCCTAG	0.587													13	14	---	---	---	---	PASS	A	140793345	A	A	140793345	2	1	48	1	0	0	0	0	0	0	0	1	11551	962	34	3		3	PCDHGA10	5	140793345	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	52555	140793345	40121915	61	18616										
ZKSCAN3	80317	broad.mit.edu	37	chr6	28327755	28327755	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggagaggcagctggatgagcCggcgccgcaggtagaaagaa	18	8	0	4			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:28327755C>T	uc003nle.3	+	2	608	c.392C>T	c.(391-393)CCG>CTG	p.P131L	ZKSCAN3_uc010jrc.2_Missense_Mutation_p.P131L|ZKSCAN3_uc003nlf.3_Intron	NM_024493	NP_077819	Q9BRR0	ZKSC3_HUMAN	zinc finger with KRAB and SCAN domains 3	131					positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	chromatin binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						CTGGATGAGCCGGCGCCGCAG	0.562													4	10	---	---	---	---	PASS	T	28327755	T	T	28327755	3	4	48	1	0	0	0	0	1	0	0	0	17685	652	23	1	394	1	ZKSCAN3	6	28327755	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08		28327755	142787312	62	18617										
OR12D2	26529	broad.mit.edu	37	chr6	29364842	29364842	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atggcatttgacctctctgtGgctatctgcaagccacttcg	9	12	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:29364842G>T	uc003nmf.3	+	1	427	c.366G>T	c.(364-366)GTG>GTT	p.V122V		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACCTCTCTGTGGCTATCTGCA	0.507													8	30	---	---	---	---	PASS	T	29364842	T	T	29364842	2	4	48	1	0	0	0	0	0	0	0	1	10931	1335	47	3		3	OR12D2	6	29364842	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	1037087	29364842	141750225	63	18618										
EHMT2	10919	broad.mit.edu	37	chr6	31854777	31854777	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cgggcccgtgctgacctgcaGcagcacatggcagatctcca	12	15	1	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:31854777G>A	uc003nxz.1	-	16	2123	c.2113C>T	c.(2113-2115)CTG>TTG	p.L705L	EHMT2_uc003nxv.1_5'Flank|EHMT2_uc003nxw.1_5'Flank|EHMT2_uc003nxx.1_5'Flank|EHMT2_uc003nxy.1_Silent_p.L496L|EHMT2_uc011don.1_Silent_p.L728L|EHMT2_uc003nya.1_Silent_p.L671L	NM_006709	NP_006700	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	705	ANK 2.				DNA methylation|peptidyl-lysine dimethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			ovary(1)	1						CTGACCTGCAGCAGCACATGG	0.687													4	62	---	---	---	---	PASS	A	31854777	A	A	31854777	2	1	48	1	0	0	0	0	0	0	0	1	4984	962	34	3		3	EHMT2	6	31854777	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	2489935	31854777	139260290	64	18619										
TNXB	7148	broad.mit.edu	37	chr6	32037465	32037465	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gccctccacgggcaccacctGgggctgcccgtccctgtctt	11	19	1	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:32037465G>T	uc003nzl.2	-	15	5654	c.5452C>A	c.(5452-5454)CAG>AAG	p.Q1818K		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1900	Fibronectin type-III 11.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GGCACCACCTGGGGCTGCCCG	0.657													9	8	---	---	---	---	PASS	T	32037465	T	T	32037465	3	4	48	1	0	0	0	0	1	0	0	0	16343	1357	47	3	9381	3	TNXB	6	32037465	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	182688	32037465	139077602	65	18620										
TFAP2D	83741	broad.mit.edu	37	chr6	50683050	50683050	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agccacccggccgtcaccccCgacgcctactctctgaactc	7	21	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:50683050C>G	uc003paf.2	+	2	773	c.261C>G	c.(259-261)CCC>CCG	p.P87P	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	87							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					CCGTCACCCCCGACGCCTACT	0.587													16	36	---	---	---	---	PASS	G	50683050	G	G	50683050	2	3	48	1	0	0	0	0	0	0	0	1	15787	639	23	4		4	TFAP2D	6	50683050	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08	18645585	50683050	120432017	66	18621										
PRIM2	5558	broad.mit.edu	37	chr6	57472357	57472357	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ctggcttattttttgttgtcAgggtgcccattccgtcacag	10	10	2	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:57472357A>T	uc003pdx.2	+	13	1235	c.1148_splice	c.e13-2	p.G383_splice		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2						DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		TTTTGTTGTCAGGGTGCCCAT	0.438													5	25	---	---	---	---	PASS	T	57472357	T	T	57472357	5	4	48	1	0	0	0	0	0	0	1	0	12491	202	7	5	1188	5	PRIM2	6	57472357	Splice_Site	SNP	A	TCGA-22-5480-01A-01D-1632-08	6789307	57472357	113642710	67	18622										
KCNQ5	56479	broad.mit.edu	37	chr6	73904327	73904327	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tatcaaagccctgtggatagCaaagatctttcgggttccgc	10	10	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:73904327C>A	uc003pgk.2	+	14	2336	c.1989C>A	c.(1987-1989)AGC>AGA	p.S663R	KCNQ5_uc011dyh.1_Missense_Mutation_p.S682R|KCNQ5_uc011dyi.1_Missense_Mutation_p.S673R|KCNQ5_uc010kat.2_Missense_Mutation_p.S654R|KCNQ5_uc011dyj.1_Missense_Mutation_p.S553R|KCNQ5_uc011dyk.1_Missense_Mutation_p.S413R	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	663					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CTGTGGATAGCAAAGATCTTT	0.493													18	43	---	---	---	---	PASS	A	73904327	A	A	73904327	3	1	48	1	0	0	0	0	1	0	0	0	8086	709	25	3	2104	3	KCNQ5	6	73904327	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	16431970	73904327	97210740	68	18623										
GPR63	81491	broad.mit.edu	37	chr6	97247581	97247581	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ttggatgtcccggtatggaaCgcagtcaacactgccgagaa	12	10	1	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:97247581C>A	uc010kcl.2	-	3	505	c.27G>T	c.(25-27)GCG>GCT	p.A9A	GPR63_uc003pou.2_Silent_p.A9A	NM_001143957	NP_001137429	Q9BZJ6	GPR63_HUMAN	G protein-coupled receptor 63	9	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;6.89e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0618)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0912)		CGGTATGGAACGCAGTCAACA	0.463													18	31	---	---	---	---	PASS	A	97247581	A	A	97247581	2	1	48	1	0	0	0	0	0	0	0	1	6704	523	19	1		1	GPR63	6	97247581	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08	23343254	97247581	73867486	69	18624										
HACE1	57531	broad.mit.edu	37	chr6	105233141	105233141	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cttttgtttttcatcaattcTgtggctattaaaactagcca	5	8	3	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:105233141T>A	uc003pqu.1	-	12	1405	c.1128A>T	c.(1126-1128)ACA>ACT	p.T376T	HACE1_uc010kcy.1_5'UTR|HACE1_uc010kcz.1_Silent_p.T376T|HACE1_uc010kcx.1_5'UTR|HACE1_uc003pqt.1_Silent_p.T29T	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	376					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		TCATCAATTCTGTGGCTATTA	0.363													17	31	---	---	---	---	PASS	A	105233141	A	A	105233141	2	1	48	1	0	0	0	0	0	0	0	1	6940	1567	55	5		5	HACE1	6	105233141	Silent	SNP	T	TCGA-22-5480-01A-01D-1632-08	7985560	105233141	65881926	70	18625										
POPDC3	64208	broad.mit.edu	37	chr6	105609387	105609387	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tttccaaagtaaccacttcaGagctcaaagcaatcgttctg	6	11	3	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:105609387G>A	uc003prb.2	-	2	800	c.398C>T	c.(397-399)TCT>TTT	p.S133F	uc003pqz.2_Intron|POPDC3_uc003pra.2_Intron	NM_022361	NP_071756	Q9HBV1	POPD3_HUMAN	popeye protein 3	133						integral to membrane				skin(3)|ovary(2)	5		all_cancers(87;4.87e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0157)|Colorectal(196;0.202)|Lung NSC(302;0.238)				AACCACTTCAGAGCTCAAAGC	0.463													21	46	---	---	---	---	PASS	A	105609387	A	A	105609387	3	1	48	1	0	0	0	0	1	0	0	0	12256	942	33	2	489	2	POPDC3	6	105609387	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	376246	105609387	65505680	71	18626										
ZBTB24	9841	broad.mit.edu	37	chr6	109802864	109802864	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tggaagtctgtgtaagccttTaccaggtcatagacttttaa	9	7	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:109802864T>A	uc003ptl.1	-	2	534	c.366A>T	c.(364-366)GTA>GTT	p.V122V	ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Silent_p.V122V|ZBTB24_uc010kdt.1_RNA|ZBTB24_uc003ptm.2_Silent_p.V122V	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	122	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		TGTAAGCCTTTACCAGGTCAT	0.418													26	105	---	---	---	---	PASS	A	109802864	A	A	109802864	2	1	48	1	0	0	0	0	0	0	0	1	17528	1741	61	5		5	ZBTB24	6	109802864	Silent	SNP	T	TCGA-22-5480-01A-01D-1632-08	4193477	109802864	61312203	72	18627										
AKD1	221264	broad.mit.edu	37	chr6	109996906	109996906	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agtttcatcttcatcaaataTatctgcaaaaggatactctt	4	8	6	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:109996906T>C	uc003ptn.2	-	2	120	c.43A>G	c.(43-45)ATA>GTA	p.I15V	AKD1_uc003ptr.3_Missense_Mutation_p.I15V|AKD1_uc003pts.1_RNA	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	15					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TCATCAAATATATCTGCAAAA	0.313													11	33	---	---	---	---	PASS	C	109996906	C	C	109996906	3	2	48	1	0	0	0	0	1	0	0	0	460	1406	49	5	5864	5	AKD1	6	109996906	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	194042	109996906	61118161	73	18628										
LPA	4018	broad.mit.edu	37	chr6	161015040	161015040	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tgccagtgtggtgtcatagaGgaccaagactgacatgtcct	12	9	1	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr6:161015040G>C	uc003qtl.2	-	23	3699	c.3579C>G	c.(3577-3579)TCC>TCG	p.S1193S		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3701	Kringle 33.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	GTGTCATAGAGGACCAAGACT	0.483													24	37	---	---	---	---	PASS	C	161015040	C	C	161015040	2	2	48	1	0	0	0	0	0	0	0	1	8903	987	35	4		4	LPA	6	161015040	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	51018134	161015040	10100027	74	18629										
EIF3B	8662	broad.mit.edu	37	chr7	2415136	2415136	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ctactgggcgctacgtcgtcAcctctgtgtcctggtggagc	13	13	2	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr7:2415136A>C	uc003slx.2	+	14	2085	c.2002A>C	c.(2002-2004)ACC>CCC	p.T668P	EIF3B_uc003sly.2_Missense_Mutation_p.T668P|EIF3B_uc003sma.2_Missense_Mutation_p.T396P|EIF3B_uc003smb.2_5'Flank	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,	668	WD 5.				regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		CTACGTCGTCACCTCTGTGTC	0.562													4	47	---	---	---	---	PASS	C	2415136	C	C	2415136	3	2	48	1	0	0	0	0	1	0	0	0	5013	159	6	5	2056	5	EIF3B	7	2415136	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08		2415136	156723527	75	18630										
PAPOLB	56903	broad.mit.edu	37	chr7	4901276	4901276	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cctgcgctgcagttcctcttCctcttcgaagaccccgaagg	9	16	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr7:4901276C>T	uc003snk.2	-	1	350	c.166G>A	c.(166-168)GAA>AAA	p.E56K	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	55					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		AGTTCCTCTTCCTCTTCGAAG	0.502													8	15	---	---	---	---	PASS	T	4901276	T	T	4901276	3	4	48	1	0	0	0	0	1	0	0	0	11430	864	30	2	1751	2	PAPOLB	7	4901276	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	2486140	4901276	154237387	76	18631										
ZNF804B	219578	broad.mit.edu	37	chr7	88963179	88963179	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tggaaagtgttttacacaatAccatctccataaactctaaa	4	9	2	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr7:88963179A>G	uc011khi.1	+	4	1421	c.883A>G	c.(883-885)ACC>GCC	p.T295A		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	295						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TTTACACAATACCATCTCCAT	0.358										HNSCC(36;0.09)			13	27	---	---	---	---	PASS	G	88963179	G	G	88963179	3	3	48	1	0	0	0	0	1	0	0	0	18168	391	14	5	897	5	ZNF804B	7	88963179	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	84061903	88963179	70175484	77	18632										
NAA38	51691	broad.mit.edu	37	chr7	117828443	117828443	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tggtactaggattatacattGtaagaggtgacaacgtgtaa	11	4	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr7:117828443G>T	uc003vjg.2	+	3	376	c.184G>T	c.(184-186)GTA>TTA	p.V62L		NM_016200	NP_057284	O95777	NAA38_HUMAN	U6 snRNA-associated Sm-like protein LSm8	62					nuclear mRNA splicing, via spliceosome	nucleus|ribonucleoprotein complex	protein binding|U6 snRNA binding				0						ATTATACATTGTAAGAGGTGA	0.363													8	35	---	---	---	---	PASS	T	117828443	T	T	117828443	3	4	48	1	0	0	0	0	1	0	0	0	10124	1377	48	3	194	3	NAA38	7	117828443	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	28865264	117828443	41310220	78	18633										
FAM3C	10447	broad.mit.edu	37	chr7	121011442	121011442	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atgcttctcagggcaagcttTtgagatcccacacttatatc	7	11	1	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr7:121011442T>C	uc003vjx.2	-	5	432	c.184A>G	c.(184-186)AAA>GAA	p.K62E	FAM3C_uc010lkm.2_Missense_Mutation_p.K62E	NM_014888	NP_055703	Q92520	FAM3C_HUMAN	family with sequence similarity 3, member C	62					multicellular organismal development	cytoplasmic membrane-bounded vesicle|extracellular region	cytokine activity				0	all_neural(327;0.117)					GGGCAAGCTTTTGAGATCCCA	0.413													37	41	---	---	---	---	PASS	C	121011442	C	C	121011442	3	2	48	1	0	0	0	0	1	0	0	0	5558	1850	64	5	523	5	FAM3C	7	121011442	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	3182999	121011442	38127221	79	18634										
AKR1B1	231	broad.mit.edu	37	chr7	134130009	134130009	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cctcaacaaggcacagacccTccagttcctgttgtagctga	8	14	1	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr7:134130009T>C	uc003vrp.1	-	9	963	c.889A>G	c.(889-891)AGG>GGG	p.R297G	AKR1B1_uc003vrq.1_RNA	NM_001628	NP_001619	P15121	ALDR_HUMAN	aldo-keto reductase family 1, member B1	297					C21-steroid hormone biosynthetic process|carbohydrate metabolic process|response to stress	cytosol|extracellular space|nucleus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding			ovary(3)	3					NADH(DB00157)|Sulindac(DB00605)	GCACAGACCCTCCAGTTCCTG	0.488													2	7	---	---	---	---	PASS	C	134130009	C	C	134130009	3	2	48	1	0	0	0	0	1	0	0	0	466	1550	54	5	69	5	AKR1B1	7	134130009	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	13118567	134130009	25008654	80	18635										
BPGM	669	broad.mit.edu	37	chr7	134346768	134346768	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gagactccttccctattggaAtgaaaggattgctcccgaag	10	10	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr7:134346768A>G	uc003vrv.2	+	3	1050	c.509A>G	c.(508-510)AAT>AGT	p.N170S	BPGM_uc003vrw.2_Missense_Mutation_p.N170S|BPGM_uc003vrx.2_Missense_Mutation_p.N170S	NM_199186	NP_954655	P07738	PMGE_HUMAN	bisphosphoglycerate mutase	170					glycolysis|respiratory gaseous exchange		2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity|phosphoglycerate mutase activity				0						CCCTATTGGAATGAAAGGATT	0.473													22	35	---	---	---	---	PASS	G	134346768	G	G	134346768	3	3	48	1	0	0	0	0	1	0	0	0	1488	101	4	5	511	5	BPGM	7	134346768	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	216759	134346768	24791895	81	18636										
KIAA1549	57670	broad.mit.edu	37	chr7	138604053	138604053	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cggcggggctgtgacatggaGaggactgctgtgctgggagc	20	8	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr7:138604053G>A	uc011kql.1	-	2	368	c.319C>T	c.(319-321)CTC>TTC	p.L107F	KIAA1549_uc003vuk.3_Missense_Mutation_p.L57F|KIAA1549_uc011kqj.1_Missense_Mutation_p.L107F	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	107						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GTGACATGGAGAGGACTGCTG	0.517			O	BRAF	pilocytic astrocytoma								19	46	---	---	---	---	PASS	A	138604053	A	A	138604053	3	1	48	1	0	0	0	0	1	0	0	0	8244	942	33	2	5609	2	KIAA1549	7	138604053	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	4257285	138604053	20534610	82	18637										
OR6B1	135946	broad.mit.edu	37	chr7	143701563	143701563	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggctttggcatctccctggcGaagatctacttcatctcctg	9	13	4	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr7:143701563G>A	uc003wdt.1	+	1	474	c.474G>A	c.(472-474)GCG>GCA	p.A158A		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					TCTCCCTGGCGAAGATCTACT	0.532													11	17	---	---	---	---	PASS	A	143701563	A	A	143701563	2	1	48	1	0	0	0	0	0	0	0	1	11187	1045	37	2		2	OR6B1	7	143701563	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	5097510	143701563	15437100	83	18638										
BIN3	55909	broad.mit.edu	37	chr8	22488075	22488075	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	aagtccaaggatatcttcacGgcagattttgacatggctgt	10	8	2	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr8:22488075G>A	uc003xcl.2	-	5	274	c.177C>T	c.(175-177)GCC>GCT	p.A59A	BIN3_uc003xck.2_Silent_p.A11A|BIN3_uc010ltw.2_Silent_p.A5A	NM_018688	NP_061158	Q9NQY0	BIN3_HUMAN	bridging integrator 3	59	BAR.				actin filament organization|barrier septum formation|cell cycle|protein localization|unidimensional cell growth	cytoplasm|cytoskeleton	cytoskeletal adaptor activity				0		Prostate(55;0.0424)|Breast(100;0.102)|all_epithelial(46;0.143)		BRCA - Breast invasive adenocarcinoma(99;0.00664)|Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)		ATATCTTCACGGCAGATTTTG	0.557													5	11	---	---	---	---	PASS	A	22488075	A	A	22488075	2	1	48	1	0	0	0	0	0	0	0	1	1434	1103	39	1		1	BIN3	8	22488075	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08		22488075	123875947	84	18639										
EBF2	64641	broad.mit.edu	37	chr8	25715978	25715978	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gttgaggcgtggagctggaaGagtatccccgcggagagatg	18	7	0	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr8:25715978G>C	uc003xes.1	-	14	1402	c.1385C>G	c.(1384-1386)TCT>TGT	p.S462C	PPP2R2A_uc003xek.2_Intron|EBF2_uc010lug.1_RNA	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	462	Pro/Ser/Thr-rich.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		GGAGCTGGAAGAGTATCCCCG	0.517													3	29	---	---	---	---	PASS	C	25715978	C	C	25715978	3	2	48	1	0	0	0	0	1	0	0	0	4881	942	33	2	354	2	EBF2	8	25715978	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	3227903	25715978	120648044	85	18640										
WHSC1L1	54904	broad.mit.edu	37	chr8	38162894	38162894	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	aggcttcatgataaaatttcCcacaagcaccaacagaacaa	5	11	1	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr8:38162894C>A	uc003xli.2	-	13	2830	c.2312G>T	c.(2311-2313)GGG>GTG	p.G771V	WHSC1L1_uc011lbm.1_Missense_Mutation_p.G771V|WHSC1L1_uc010lwe.2_Missense_Mutation_p.G771V	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	771	PHD-type 2.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			ATAAAATTTCCCACAAGCACC	0.448			T	NUP98	AML								12	171	---	---	---	---	PASS	A	38162894	A	A	38162894	3	1	48	1	0	0	0	0	1	0	0	0	17360	623	22	3	2049	3	WHSC1L1	8	38162894	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	12446916	38162894	108201128	86	18641										
MMP16	4325	broad.mit.edu	37	chr8	89128831	89128831	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gggataggagggtctgccggTtggaggccgaggaggttttg	21	5	1	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr8:89128831T>C	uc003yeb.3	-	6	1270	c.988A>G	c.(988-990)ACC>GCC	p.T330A	MMP16_uc003yec.2_Missense_Mutation_p.T330A	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	330	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						GGTCTGCCGGTTGGAGGCCGA	0.532													18	39	---	---	---	---	PASS	C	89128831	C	C	89128831	3	2	48	1	0	0	0	0	1	0	0	0	9655	1725	60	5	1011	5	MMP16	8	89128831	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	50965937	89128831	57235191	87	18642										
DAPK1	1612	broad.mit.edu	37	chr9	90321440	90321440	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ttcacaaggtccaggtgaacCtgtgccggtggatccaccag	12	12	1	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr9:90321440C>T	uc004apc.2	+	26	3592	c.3454C>T	c.(3454-3456)CTG>TTG	p.L1152L	DAPK1_uc004apd.2_Silent_p.L1152L|DAPK1_uc011ltg.1_Silent_p.L1086L|DAPK1_uc011lth.1_Silent_p.L889L|DAPK1_uc004apg.2_Silent_p.L129L	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	1152					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						CCAGGTGAACCTGTGCCGGTG	0.627									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				15	8	---	---	---	---	PASS	T	90321440	T	T	90321440	2	4	48	1	0	0	0	0	0	0	0	1	4235	680	24	3		3	DAPK1	9	90321440	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08		90321440	50891991	88	18643										
GRIN3A	116443	broad.mit.edu	37	chr9	104432474	104432474	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ttcattagaaaccttccagtCcaacattttggaggtttgat	7	8	1	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr9:104432474C>A	uc004bbp.1	-	3	2821	c.2220G>T	c.(2218-2220)TGG>TGT	p.W740C	GRIN3A_uc004bbq.1_Missense_Mutation_p.W740C	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	740	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	ACCTTCCAGTCCAACATTTTG	0.438													14	34	---	---	---	---	PASS	A	104432474	A	A	104432474	3	1	48	1	0	0	0	0	1	0	0	0	6783	856	30	2	1155	2	GRIN3A	9	104432474	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	14111034	104432474	36780957	89	18644										
TMEM38B	55151	broad.mit.edu	37	chr9	108483984	108483984	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atggctggatagtcatgataGctattggatgggcccgaggt	15	6	1	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr9:108483984G>A	uc004bcu.1	+	3	553	c.436G>A	c.(436-438)GCT>ACT	p.A146T	TMEM38B_uc010mtn.1_Intron	NM_018112	NP_060582	Q9NVV0	TM38B_HUMAN	transmembrane protein 38B	146	Helical; (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			ovary(1)|skin(1)	2						AGTCATGATAGCTATTGGATG	0.368													19	7	---	---	---	---	PASS	A	108483984	A	A	108483984	3	1	48	1	0	0	0	0	1	0	0	0	16157	971	34	3	446	3	TMEM38B	9	108483984	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	4051510	108483984	32729447	90	18645										
GOLGA2	2801	broad.mit.edu	37	chr9	131019402	131019402	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agcccggtaaaaaaaaggaaTgcaggggttgctgcccaagc	13	9	0	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr9:131019402T>C	uc011maw.1	-	26	2966	c.2953A>G	c.(2953-2955)ATT>GTT	p.I985V	GOLGA2_uc010mxw.2_Missense_Mutation_p.I308V|GOLGA2_uc004buh.2_Missense_Mutation_p.I335V	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	985						Golgi cisterna membrane	protein binding			ovary(1)	1						AAAAAAGGAATGCAGGGGTTG	0.557													68	36	---	---	---	---	PASS	C	131019402	C	C	131019402	3	2	48	1	0	0	0	0	1	0	0	0	6552	1464	51	5	59	5	GOLGA2	9	131019402	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	22535418	131019402	10194029	91	18646										
NOTCH1	4851	broad.mit.edu	37	chr9	139412675	139412675	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tggccttgccattgacagggTtggtgtcgcagttggagccc	15	10	0	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr9:139412675T>C	uc004chz.2	-	7	1169	c.1169A>G	c.(1168-1170)AAC>AGC	p.N390S		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	390	Extracellular (Potential).|EGF-like 10.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		ATTGACAGGGTTGGTGTCGCA	0.662			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			3	8	---	---	---	---	PASS	C	139412675	C	C	139412675	3	2	48	1	0	0	0	0	1	0	0	0	10547	1725	60	5	6610	5	NOTCH1	9	139412675	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	8393273	139412675	1800756	92	18647										
EHMT1	79813	broad.mit.edu	37	chr9	140605444	140605444	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tccggcgaggggggagcctcAgcaggattgctgtgtgaaaa	17	8	1	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr9:140605444A>T	uc011mfc.1	+	2	84	c.47A>T	c.(46-48)CAG>CTG	p.Q16L	EHMT1_uc004coa.2_Missense_Mutation_p.Q16L|EHMT1_uc004cob.1_Intron	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	16					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		GGGGAGCCTCAGCAGGATTGC	0.582													3	0	---	---	---	---	PASS	T	140605444	T	T	140605444	3	4	48	1	0	0	0	0	1	0	0	0	4983	188	7	5	53	5	EHMT1	9	140605444	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	1192769	140605444	607987	93	18648										
DIP2C	22982	broad.mit.edu	37	chr10	323266	323266	+	Nonstop_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tggaagccaagagacgagacTacatgttgtaggccacatag	12	8	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr10:323266T>A	uc001ifp.2	-	37	4760	c.4670A>T	c.(4669-4671)TAG>TTG	p.*1557L		NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	1557						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GAGACGAGACTACATGTTGTA	0.527													6	30	---	---	---	---	PASS	A	323266	A	A	323266	4	1	48	1	0	0	0	0	0	0	0	0	4529	1535	53	5	4	5	DIP2C	10	323266	Nonstop_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08		323266	135211481	94	18649										
GTPBP4	23560	broad.mit.edu	37	chr10	1058523	1058523	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	acagctggcaaagcaaattcGagagaaaaagaagttgaaaa	10	5	0	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr10:1058523G>A	uc001ift.2	+	14	1534	c.1463G>A	c.(1462-1464)CGA>CAA	p.R488Q	GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Missense_Mutation_p.R372Q|GTPBP4_uc010qae.1_Missense_Mutation_p.R441Q	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	488					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		AAGCAAATTCGAGAGAAAAAG	0.443													9	23	---	---	---	---	PASS	A	1058523	A	A	1058523	3	1	48	1	0	0	0	0	1	0	0	0	6882	1058	37	2	1517	2	GTPBP4	10	1058523	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	735257	1058523	134476224	95	18650										
ST8SIA6	338596	broad.mit.edu	37	chr10	17365142	17365142	+	Frame_Shift_Del	DEL	G	-	-													0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tactaacatctcctgtggttGggggtaggttacacctgaaa							TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr10:17365142delG	uc001ipd.2	-	7	650	c.650delC	c.(649-651)CCAfs	p.P217fs	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	217	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						TCCTGTGGTTGGGGGTAGGTT	0.279													56	30	---	---	---	---		-	17365142	-	-	17365142	7	5	48	1	0	1	0	1	0	0	0	0	15235	1348	47	0	554	0	ST8SIA6	10	17365142	Frame_Shift_Del	DEL	G	TCGA-22-5480-01A-01D-1632-08	16306619	17365142	118169605	96	18651										
MPP7	143098	broad.mit.edu	37	chr10	28348580	28348580	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ctcaaaaatgtccacatactTgttattttgtacatctgtct	4	9	3	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr10:28348580T>C	uc001iua.1	-	16	1701	c.1297A>G	c.(1297-1299)AAG>GAG	p.K433E	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Missense_Mutation_p.K433E|MPP7_uc009xla.2_Missense_Mutation_p.K433E|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	433	Guanylate kinase-like.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						TCCACATACTTGTTATTTTGT	0.358													14	30	---	---	---	---	PASS	C	28348580	C	C	28348580	3	2	48	1	0	0	0	0	1	0	0	0	9739	1826	63	5	449	5	MPP7	10	28348580	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	10983438	28348580	107186167	97	18652										
SVIL	6840	broad.mit.edu	37	chr10	29759370	29759370	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ccacttccagcaaattccctTccacgggcacctctccacgc	5	20	1	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr10:29759370T>C	uc001iut.1	-	32	6431	c.5678A>G	c.(5677-5679)GAA>GGA	p.E1893G	LOC387647_uc001iup.2_Intron|LOC387647_uc001iuq.1_Intron|SVIL_uc010qdw.1_Missense_Mutation_p.E807G|SVIL_uc001iuu.1_Missense_Mutation_p.E1467G	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1893	Gelsolin-like 4.				cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				CAAATTCCCTTCCACGGGCAC	0.617													11	30	---	---	---	---	PASS	C	29759370	C	C	29759370	3	2	48	1	0	0	0	0	1	0	0	0	15418	1783	62	5	994	5	SVIL	10	29759370	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	1410790	29759370	105775377	98	18653										
SORBS1	10580	broad.mit.edu	37	chr10	97131754	97131754	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gaattacctttctatcctctCtaggaaggatagagcagtct	8	9	3	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr10:97131754C>G	uc001kkp.2	-	18	1835	c.1790G>C	c.(1789-1791)AGA>ACA	p.R597T	SORBS1_uc001kkk.2_Intron|SORBS1_uc001kkl.2_Missense_Mutation_p.R199T|SORBS1_uc001kkn.2_Intron|SORBS1_uc001kkm.2_Intron|SORBS1_uc001kko.2_Missense_Mutation_p.R619T|SORBS1_uc001kkq.2_Missense_Mutation_p.R482T|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_Intron|SORBS1_uc001kku.2_Intron|SORBS1_uc001kkv.2_Intron|SORBS1_uc001kkw.2_Missense_Mutation_p.R551T|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Intron	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	597					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)		TCTATCCTCTCTAGGAAGGAT	0.433													4	7	---	---	---	---	PASS	G	97131754	G	G	97131754	3	3	48	1	0	0	0	0	1	0	0	0	14927	913	32	2	2208	2	SORBS1	10	97131754	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	67372384	97131754	38402993	99	18654										
PNLIPRP2	5408	broad.mit.edu	37	chr10	118385516	118385516	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	aacttccaactggaccgcaaGacacgcttcatcatccatgg	7	14	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr10:118385516G>A	uc001lcq.2	+	6	290	c.267G>A	c.(265-267)AAG>AAA	p.K89K	PNLIPRP2_uc009xyu.1_RNA|PNLIPRP2_uc009xyv.1_RNA	NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2	88					galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		TGGACCGCAAGACACGCTTCA	0.498													7	13	---	---	---	---	PASS	A	118385516	A	A	118385516	2	1	48	1	0	0	0	0	0	0	0	1	12151	933	33	2		2	PNLIPRP2	10	118385516	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	21253762	118385516	17149231	100	18655										
MTG1	92170	broad.mit.edu	37	chr10	135233567	135233567	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cagcctaactatcctgcggcAgcccgtgacttcctgcagac	9	16	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr10:135233567A>T	uc001lnd.2	+	11	1007	c.903A>T	c.(901-903)GCA>GCT	p.A301A	MTG1_uc010qve.1_Silent_p.A166A	NM_138384	NP_612393	Q9BT17	MTG1_HUMAN	GTP_binding protein precursor	301						mitochondrion	GTP binding|protein binding			skin(1)	1		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|all cancers(32;1.69e-06)|Epithelial(32;1.94e-06)		ATCCTGCGGCAGCCCGTGACT	0.627													23	46	---	---	---	---	PASS	T	135233567	T	T	135233567	2	4	48	1	0	0	0	0	0	0	0	1	9926	175	7	5		5	MTG1	10	135233567	Silent	SNP	A	TCGA-22-5480-01A-01D-1632-08	16848051	135233567	301180	101	18656										
MUC5B	727897	broad.mit.edu	37	chr11	1157826	1157826	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	caggcaagacctctgcttctGtgaagacaccgacctgctca	9	14	3	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:1157826G>T	uc009ycr.1	+	9	1019	c.893G>T	c.(892-894)TGT>TTT	p.C298F		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	294					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTCTGCTTCTGTGAAGACACC	0.657													15	31	---	---	---	---	PASS	T	1157826	T	T	1157826	3	4	48	1	0	0	0	0	1	0	0	0	9979	1392	48	3		3	MUC5B	11	1157826	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08		1157826	133848690	102	18657										
OR51T1	401665	broad.mit.edu	37	chr11	4903507	4903507	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atggcctttgaccgcttcgtGgctatctgtaacccactgaa	9	12	1	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:4903507G>A	uc010qyp.1	+	1	459	c.459G>A	c.(457-459)GTG>GTA	p.V153V		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACCGCTTCGTGGCTATCTGTA	0.478													39	76	---	---	---	---	PASS	A	4903507	A	A	4903507	2	1	48	1	0	0	0	0	0	0	0	1	11106	1335	47	3		3	OR51T1	11	4903507	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	3745681	4903507	130103009	103	18658										
MRGPRX1	259249	broad.mit.edu	37	chr11	18955514	18955514	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gcctaaaggagcccacgaagAagtaaatgatggggttggca	14	7	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:18955514A>G	uc001mpg.2	-	1	1036	c.818T>C	c.(817-819)TTC>TCC	p.F273S		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	273	Helical; Name=7; (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						GCCCACGAAGAAGTAAATGAT	0.498													12	30	---	---	---	---	PASS	G	18955514	G	G	18955514	3	3	48	1	0	0	0	0	1	0	0	0	9766	246	9	5	154	5	MRGPRX1	11	18955514	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	14052007	18955514	116051002	104	18659										
OR4C16	219428	broad.mit.edu	37	chr11	55339938	55339938	+	Missense_Mutation	SNP	T	A	A													0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tggctgcctggagatcttcaTcctcatcctcacggctgttg					rs143747626		TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:55339938T>A	uc010rih.1	+	1	335	c.335T>A	c.(334-336)ATC>AAC	p.I112N		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				GAGATCTTCATCCTCATCCTC	0.488													36	98	---	---	---	---	PASS	A	55339938	A	A	55339938	3	1	48	1	0	0	0	0	1	0	0	0	11049	1435	50	5	337	5	OR4C16	11	55339938	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	36384424	55339938	79666578	105	18660	424	2								
OR4C16	219428	broad.mit.edu	37	chr11	55339939	55339939	+	Silent	SNP	C	A	A													0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggctgcctggagatcttcatCctcatcctcacggctgttga							TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:55339939C>A	uc010rih.1	+	1	336	c.336C>A	c.(334-336)ATC>ATA	p.I112I		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				AGATCTTCATCCTCATCCTCA	0.493													35	99	---	---	---	---	PASS	A	55339939	A	A	55339939	2	1	48	1	0	0	0	0	0	0	0	1	11049	845	30	2		2	OR4C16	11	55339939	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08	1	55339939	79666577	106	18661	424	2								
OR4P4	81300	broad.mit.edu	37	chr11	55406540	55406540	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gagacgcagcaaagctcttgCcacttgtagttctcatgtaa	9	10	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:55406540C>G	uc010rij.1	+	1	707	c.707C>G	c.(706-708)GCC>GGC	p.A236G		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	236	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						AAAGCTCTTGCCACTTGTAGT	0.373													37	16	---	---	---	---	PASS	G	55406540	G	G	55406540	3	3	48	1	0	0	0	0	1	0	0	0	11080	739	26	4	709	4	OR4P4	11	55406540	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	66601	55406540	79599976	107	18662										
OR5D18	219438	broad.mit.edu	37	chr11	55587418	55587418	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gcgtagtacaattctttttcTtctgtacctttgtggtcact	7	9	4	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:55587418T>A	uc010rin.1	+	1	313	c.313T>A	c.(313-315)TTC>ATC	p.F105I		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				ATTCTTTTTCTTCTGTACCTT	0.418													54	127	---	---	---	---	PASS	A	55587418	A	A	55587418	3	1	48	1	0	0	0	0	1	0	0	0	11157	1609	56	5	315	5	OR5D18	11	55587418	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	180878	55587418	79419098	108	18663										
OR5AR1	219493	broad.mit.edu	37	chr11	56431579	56431579	+	Missense_Mutation	SNP	G	C	C													0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gcaccttcatgtccaagcagGtctgcttggctctcatgctg							TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:56431579G>C	uc010rjm.1	+	1	418	c.418G>C	c.(418-420)GTC>CTC	p.V140L		NM_001004730	NP_001004730	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTCCAAGCAGGTCTGCTTGGC	0.517													51	97	---	---	---	---	PASS	C	56431579	C	C	56431579	3	2	48	1	0	0	0	0	1	0	0	0	11145	1261	44	4	420	4	OR5AR1	11	56431579	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	844161	56431579	78574937	109	18664	425	2								
OR5AR1	219493	broad.mit.edu	37	chr11	56431588	56431588	+	Missense_Mutation	SNP	G	C	C													0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tgtccaagcaggtctgcttgGctctcatgctgggctcttac							TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:56431588G>C	uc010rjm.1	+	1	427	c.427G>C	c.(427-429)GCT>CCT	p.A143P		NM_001004730	NP_001004730	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGTCTGCTTGGCTCTCATGCT	0.517													50	93	---	---	---	---	PASS	C	56431588	C	C	56431588	3	2	48	1	0	0	0	0	1	0	0	0	11145	1203	42	4	429	4	OR5AR1	11	56431588	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	9	56431588	78574928	110	18665	425	2								
OR9G4	283189	broad.mit.edu	37	chr11	56511195	56511195	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cactgggaatctgctgagaaAcccaacaagatgaattcagt	9	9	2	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:56511195A>T	uc010rjo.1	-	1	93	c.93T>A	c.(91-93)GGT>GGA	p.G31G		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	31	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						CTGCTGAGAAACCCAACAAGA	0.433													12	49	---	---	---	---	PASS	T	56511195	T	T	56511195	2	4	48	1	0	0	0	0	0	0	0	1	11251	30	2	5		5	OR9G4	11	56511195	Silent	SNP	A	TCGA-22-5480-01A-01D-1632-08	79607	56511195	78495321	111	18666										
OR4D10	390197	broad.mit.edu	37	chr11	59245829	59245829	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agaagacttgtgccttctgaTagaaaatagaaaaaaaaatc	7	5	1	5			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:59245829T>G	uc001nnz.1	+	1	927	c.927T>G	c.(925-927)GAT>GAG	p.D309E		NM_001004705	NP_001004705	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D,	309	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TGCCTTCTGATAGAAAATAGA	0.259													8	7	---	---	---	---	PASS	G	59245829	G	G	59245829	3	3	48	1	0	0	0	0	1	0	0	0	11054	1403	49	5	929	5	OR4D10	11	59245829	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	2734634	59245829	75760687	112	18667										
AHNAK	79026	broad.mit.edu	37	chr11	62286513	62286513	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ttcgacgtgaatcgctggcaAagaaagttccagatcaggtg	12	8	1	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:62286513A>C	uc001ntl.2	-	5	15676	c.15376T>G	c.(15376-15378)TTG>GTG	p.L5126V	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	5126					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				ATCGCTGGCAAAGAAAGTTCC	0.493													22	37	---	---	---	---	PASS	C	62286513	C	C	62286513	3	2	48	1	0	0	0	0	1	0	0	0	414	11	1	5	2416	5	AHNAK	11	62286513	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	3040684	62286513	72720003	113	18668										
SYT12	91683	broad.mit.edu	37	chr11	66807557	66807557	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tacgacactgcctcccacacGctgaacgtggcggtgatgca	11	14	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:66807557G>T	uc009yrl.2	+	4	734	c.504G>T	c.(502-504)ACG>ACT	p.T168T	SYT12_uc001oju.2_Silent_p.T168T	NM_177963	NP_808878	Q8IV01	SYT12_HUMAN	synaptotagmin XII	168	C2 1.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane				ovary(1)	1						CCTCCCACACGCTGAACGTGG	0.627													3	30	---	---	---	---	PASS	T	66807557	T	T	66807557	2	4	48	1	0	0	0	0	0	0	0	1	15465	1074	38	1		1	SYT12	11	66807557	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	4521044	66807557	68198959	114	18669										
RNF26	79102	broad.mit.edu	37	chr11	119206134	119206134	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agagagcctaaagctcctggGgcacctggcctctcatgggg	14	12	1	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:119206134G>A	uc001pwh.2	+	1	898	c.302G>A	c.(301-303)GGG>GAG	p.G101E		NM_032015	NP_114404	Q9BY78	RNF26_HUMAN	ring finger protein 26	101	Leu-rich.						zinc ion binding			ovary(1)	1		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.8e-05)		AAGCTCCTGGGGCACCTGGCC	0.612													23	66	---	---	---	---	PASS	A	119206134	A	A	119206134	3	1	48	1	0	0	0	0	1	0	0	0	13486	1232	43	3	304	3	RNF26	11	119206134	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	52398577	119206134	15800382	115	18670										
ROBO3	64221	broad.mit.edu	37	chr11	124740172	124740172	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	acctcgtctacgctggcgcaAggaggatggggaactgccca	14	12	1	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:124740172A>T	uc001qbc.2	+	5	1070	c.878A>T	c.(877-879)AAG>ATG	p.K293M		NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	293	Ig-like C2-type 3.|Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		CGCTGGCGCAAGGAGGATGGG	0.577													9	17	---	---	---	---	PASS	T	124740172	T	T	124740172	3	4	48	1	0	0	0	0	1	0	0	0	13515	72	3	5	896	5	ROBO3	11	124740172	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	5534038	124740172	10266344	116	18671										
CHEK1	1111	broad.mit.edu	37	chr11	125499319	125499319	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gtattggaataactcacaggGatattaaaccagaaaatctt	7	6	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr11:125499319G>T	uc009zbo.2	+	5	1280	c.388G>T	c.(388-390)GAT>TAT	p.D130Y	CHEK1_uc010sbh.1_Missense_Mutation_p.D146Y|CHEK1_uc010sbi.1_Missense_Mutation_p.D130Y|CHEK1_uc001qcf.3_Missense_Mutation_p.D130Y|CHEK1_uc009zbp.2_Missense_Mutation_p.D130Y|CHEK1_uc001qcg.3_Missense_Mutation_p.D130Y|CHEK1_uc009zbq.2_Missense_Mutation_p.D130Y|CHEK1_uc001qci.1_RNA	NM_001114122	NP_001107594	O14757	CHK1_HUMAN	checkpoint kinase 1	130	Protein kinase.	Proton acceptor.		D->A: Abolishes kinase activity.	cellular response to mechanical stimulus|DNA repair|DNA replication|gamete generation|negative regulation of cell proliferation|reciprocal meiotic recombination|regulation of cyclin-dependent protein kinase activity|replicative senescence	condensed nuclear chromosome|microtubule organizing center|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|skin(1)	6	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0748)		AACTCACAGGGATATTAAACC	0.279								Other_conserved_DNA_damage_response_genes					19	22	---	---	---	---	PASS	T	125499319	T	T	125499319	3	4	48	1	0	0	0	0	1	0	0	0	3334	1174	41	2	402	2	CHEK1	11	125499319	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	759147	125499319	9507197	117	18672										
B4GALNT3	283358	broad.mit.edu	37	chr12	659049	659049	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gccgcccgctgacatgcttcGgcctgacccccgggacaccc	11	20	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:659049G>A	uc001qii.1	+	10	968	c.968G>A	c.(967-969)CGG>CAG	p.R323Q	B4GALNT3_uc001qij.1_Missense_Mutation_p.R225Q|B4GALNT3_uc001qik.1_5'Flank	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	323	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			GACATGCTTCGGCCTGACCCC	0.642													7	16	---	---	---	---	PASS	A	659049	A	A	659049	3	1	48	1	0	0	0	0	1	0	0	0	1268	1116	39	1	1006	1	B4GALNT3	12	659049	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08		659049	133192846	118	18673										
EFCAB4B	84766	broad.mit.edu	37	chr12	3788200	3788200	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agatacaccttctcttcatgGcgctgggccacctgttcacc	8	15	3	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:3788200G>C	uc001qmj.2	-	6	977	c.405C>G	c.(403-405)CGC>CGG	p.R135R	EFCAB4B_uc010sen.1_Silent_p.R135R|EFCAB4B_uc010seo.1_Silent_p.R135R	NM_032680	NP_116069	Q9BSW2	EFC4B_HUMAN	EF-hand calcium binding domain 4B isoform c	135					activation of store-operated calcium channel activity|store-operated calcium entry	cytoplasm	calcium ion binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.00287)|COAD - Colon adenocarcinoma(12;0.0264)			TCTCTTCATGGCGCTGGGCCA	0.557													23	89	---	---	---	---	PASS	C	3788200	C	C	3788200	2	2	48	1	0	0	0	0	0	0	0	1	4937	1190	42	4		4	EFCAB4B	12	3788200	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	3129151	3788200	130063695	119	18674										
CD163L1	283316	broad.mit.edu	37	chr12	7527189	7527189	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tccccaaagtgagcagagacCgtggcattgaaggccactcc	11	13	0	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:7527189C>T	uc001qsy.2	-	13	3284	c.3258G>A	c.(3256-3258)ACG>ACA	p.T1086T	CD163L1_uc010sge.1_Silent_p.T1096T	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	1086	SRCR 10.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						GAGCAGAGACCGTGGCATTGA	0.617											OREG0021653	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	47	---	---	---	---	PASS	T	7527189	T	T	7527189	2	4	48	1	0	0	0	0	0	0	0	1	2968	639	23	1		1	CD163L1	12	7527189	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08	3738989	7527189	126324706	120	18675										
C12orf40	283461	broad.mit.edu	37	chr12	40076850	40076850	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agaaaaatgtcagccaaacaAgaagtatcagagagagtata	9	5	2	4			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:40076850A>G	uc001rmc.2	+	8	1291	c.1124A>G	c.(1123-1125)AAG>AGG	p.K375R	C12orf40_uc009zjv.1_RNA	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	375										ovary(6)	6						CAGCCAAACAAGAAGTATCAG	0.328													3	24	---	---	---	---	PASS	G	40076850	G	G	40076850	3	3	48	1	0	0	0	0	1	0	0	0	1686	72	3	5	1154	5	C12orf40	12	40076850	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	32549661	40076850	93775045	121	18676										
ADAMTS20	80070	broad.mit.edu	37	chr12	43822570	43822570	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tcacgacagcttacatagcgGgcttgagtacctcttccaca	8	13	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:43822570G>T	uc010skx.1	-	25	3522	c.3522C>A	c.(3520-3522)GCC>GCA	p.A1174A	ADAMTS20_uc001rno.1_Silent_p.A292A|ADAMTS20_uc001rnp.1_Silent_p.A328A	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1174	TSP type-1 7.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TTACATAGCGGGCTTGAGTAC	0.433													25	33	---	---	---	---	PASS	T	43822570	T	T	43822570	2	4	48	1	0	0	0	0	0	0	0	1	266	1219	43	3		3	ADAMTS20	12	43822570	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	3745720	43822570	90029325	122	18677										
KRT72	140807	broad.mit.edu	37	chr12	52992868	52992868	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggttccacttggtctctagcAcctgattctgctgctccagg	10	13	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:52992868A>G	uc001sar.2	-	2	541	c.455T>C	c.(454-456)GTG>GCG	p.V152A	KRT72_uc001saq.2_Missense_Mutation_p.V152A|KRT72_uc010sns.1_Missense_Mutation_p.V152A|KRT72_uc010snt.1_5'UTR	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	152	Coil 1A.|Rod.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		GGTCTCTAGCACCTGATTCTG	0.552													21	39	---	---	---	---	PASS	G	52992868	G	G	52992868	3	3	48	1	0	0	0	0	1	0	0	0	8485	159	6	5	1112	5	KRT72	12	52992868	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	9170298	52992868	80859027	123	18678										
CALCOCO1	57658	broad.mit.edu	37	chr12	54115397	54115397	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tccccatgggaccgggaaatCccctgaaattaagtttcccc	8	14	0	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:54115397C>G	uc001sef.2	-	6	756	c.612G>C	c.(610-612)GGG>GGC	p.G204G	CALCOCO1_uc010som.1_Silent_p.G171G|CALCOCO1_uc010son.1_Silent_p.G81G|CALCOCO1_uc001seh.2_Silent_p.G204G|CALCOCO1_uc009znd.2_Silent_p.G204G|CALCOCO1_uc001seg.2_Silent_p.G81G|CALCOCO1_uc010soo.1_Silent_p.G197G	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	204	Potential.				steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						ACCGGGAAATCCCCTGAAATT	0.542													88	178	---	---	---	---	PASS	G	54115397	G	G	54115397	2	3	48	1	0	0	0	0	0	0	0	1	2577	842	30	2		2	CALCOCO1	12	54115397	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08	1122529	54115397	79736498	124	18679										
TMTC2	160335	broad.mit.edu	37	chr12	83526007	83526007	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agtatccggctgctttgatgAacctgggagccattctgcac	11	11	1	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:83526007A>T	uc001szt.2	+	12	2782	c.2350A>T	c.(2350-2352)AAC>TAC	p.N784Y	TMTC2_uc010suk.1_Missense_Mutation_p.N539Y	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	784	TPR 10.					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						TGCTTTGATGAACCTGGGAGC	0.493													14	19	---	---	---	---	PASS	T	83526007	T	T	83526007	3	4	48	1	0	0	0	0	1	0	0	0	16258	246	9	5	2396	5	TMTC2	12	83526007	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	29410610	83526007	50325888	125	18680										
HCFC2	29915	broad.mit.edu	37	chr12	104496843	104496843	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cacagcacagatacaagataAtccaagtcaacttgtgttca	6	10	2	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:104496843A>T	uc001tkj.3	+	15	2274	c.2171A>T	c.(2170-2172)AAT>ATT	p.N724I	HCFC2_uc009zul.2_RNA	NM_013320	NP_037452	Q9Y5Z7	HCFC2_HUMAN	host cell factor C2	724	Fibronectin type-III 3.				regulation of transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus	transcription coactivator activity			ovary(2)|central_nervous_system(1)	3						ATACAAGATAATCCAAGTCAA	0.408													33	63	---	---	---	---	PASS	T	104496843	T	T	104496843	3	4	48	1	0	0	0	0	1	0	0	0	6993	101	4	5	2229	5	HCFC2	12	104496843	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	20970836	104496843	29355052	126	18681										
WDR66	144406	broad.mit.edu	37	chr12	122395069	122395069	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gtacagtcacttgaaactggGcgccataagaactctgtcct	9	11	2	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:122395069G>C	uc009zxk.2	+	11	1767	c.1625G>C	c.(1624-1626)GGC>GCC	p.G542A		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	542							calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		TTGAAACTGGGCGCCATAAGA	0.423													29	62	---	---	---	---	PASS	C	122395069	C	C	122395069	3	2	48	1	0	0	0	0	1	0	0	0	17314	1203	42	4	1663	4	WDR66	12	122395069	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	17898226	122395069	11456826	127	18682										
ZCCHC8	55596	broad.mit.edu	37	chr12	122966142	122966142	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	caccctggtgggtaccctagCtggcgcatccgatagataaa	11	12	0	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:122966142C>G	uc001ucn.2	-	10	1076	c.945G>C	c.(943-945)CAG>CAC	p.Q315H	ZCCHC8_uc001ucm.2_Missense_Mutation_p.Q77H|ZCCHC8_uc009zxp.2_Missense_Mutation_p.Q77H|ZCCHC8_uc009zxq.2_Missense_Mutation_p.Q77H	NM_017612	NP_060082	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	315						catalytic step 2 spliceosome	nucleic acid binding|protein binding|zinc ion binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.25e-05)|Epithelial(86;0.000113)|BRCA - Breast invasive adenocarcinoma(302;0.202)		GGTACCCTAGCTGGCGCATCC	0.433													43	72	---	---	---	---	PASS	G	122966142	G	G	122966142	3	3	48	1	0	0	0	0	1	0	0	0	17591	796	28	4	1198	4	ZCCHC8	12	122966142	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	571073	122966142	10885753	128	18683										
EIF2B1	1967	broad.mit.edu	37	chr12	124110982	124110982	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gggcactcacccgacagcagCatctagcaccacagtgacag	10	15	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:124110982C>T	uc001ufm.2	-	6	684	c.541G>A	c.(541-543)GCT>ACT	p.A181T	EIF2B1_uc001ufn.2_Missense_Mutation_p.A179T	NM_001414	NP_001405	Q14232	EI2BA_HUMAN	eukaryotic translation initiation factor 2B,	181					cellular response to stimulus|oligodendrocyte development|regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex|membrane fraction|plasma membrane	protein binding|translation initiation factor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.67e-05)|Epithelial(86;0.000353)|all cancers(50;0.00489)		CCGACAGCAGCATCTAGCACC	0.498													10	18	---	---	---	---	PASS	T	124110982	T	T	124110982	3	4	48	1	0	0	0	0	1	0	0	0	5000	710	25	3	392	3	EIF2B1	12	124110982	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	1144840	124110982	9740913	129	18684										
TMEM132D	121256	broad.mit.edu	37	chr12	129559299	129559299	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gcccctgtgtgtctgctgtcActggtgttggggttagcatc	14	10	2	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:129559299A>C	uc009zyl.1	-	9	2749	c.2421T>G	c.(2419-2421)AGT>AGG	p.S807R	TMEM132D_uc001uia.2_Missense_Mutation_p.S345R	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	807	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GTCTGCTGTCACTGGTGTTGG	0.498													27	69	---	---	---	---	PASS	C	129559299	C	C	129559299	3	2	48	1	0	0	0	0	1	0	0	0	16044	156	6	5	882	5	TMEM132D	12	129559299	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	5448317	129559299	4292596	130	18685										
ZNF10	7556	broad.mit.edu	37	chr12	133732712	133732712	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atactggagaaaaaccctatGagtgtaaagaatgtggaaag	11	4	0	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr12:133732712G>A	uc009zzb.2	+	5	1327	c.880G>A	c.(880-882)GAG>AAG	p.E294K	ZNF268_uc010tbv.1_Intron|ZNF10_uc001ulq.2_Missense_Mutation_p.E294K	NM_015394	NP_056209	P21506	ZNF10_HUMAN	zinc finger protein 10	294	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;1.28e-06)|all_epithelial(31;0.0051)|Lung NSC(355;0.00948)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		AAAACCCTATGAGTGTAAAGA	0.413													22	52	---	---	---	---	PASS	A	133732712	A	A	133732712	3	1	48	1	0	0	0	0	1	0	0	0	17709	1291	45	2	894	2	ZNF10	12	133732712	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	4173413	133732712	119183	131	18686										
FRY	10129	broad.mit.edu	37	chr13	32813884	32813884	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agaaccccaaactttcaaatCttgcacatgtcatgactctt	4	12	4	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr13:32813884C>G	uc001utx.2	+	46	7049	c.6553C>G	c.(6553-6555)CTT>GTT	p.L2185V	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2185					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		ACTTTCAAATCTTGCACATGT	0.373													12	15	---	---	---	---	PASS	G	32813884	G	G	32813884	3	3	48	1	0	0	0	0	1	0	0	0	6063	913	32	2	6735	2	FRY	13	32813884	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08		32813884	82355994	132	18687										
N4BP2L2	10443	broad.mit.edu	37	chr13	33110057	33110057	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atgatctttccagcatctttCtctgacttcacagaaaccat	4	12	4	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr13:33110057C>A	uc001uuk.3	-	2	1286	c.1108G>T	c.(1108-1110)GAA>TAA	p.E370*	N4BP2L2_uc010abe.1_Intron|N4BP2L2_uc010tdz.1_Intron|N4BP2L2_uc001uul.1_Nonsense_Mutation_p.E370*|N4BP2L2_uc001uum.2_5'Flank	NM_014887	NP_055702	Q92802	N42L2_HUMAN	phosphonoformate immuno-associated protein 5	370											0		Lung SC(185;0.0262)		all cancers(112;9.5e-07)|Epithelial(112;5.07e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00196)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.243)		CAGCATCTTTCTCTGACTTCA	0.388													24	62	---	---	---	---	PASS	A	33110057	A	A	33110057	4	1	48	1	0	0	0	0	0	1	0	0	10112	922	32	2	2524	2	N4BP2L2	13	33110057	Nonsense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	296173	33110057	82059821	133	18688										
C13orf18	80183	broad.mit.edu	37	chr13	46946524	46946524	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tcagtgttcaggagtctgggCgaaccatcaataatgccaga	11	9	4	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr13:46946524C>A	uc010acl.2	-	3	692	c.87G>T	c.(85-87)TCG>TCT	p.S29S	C13orf18_uc001vbf.3_Intron|C13orf18_uc001vbg.3_5'UTR|C13orf18_uc010tfz.1_Intron|C13orf18_uc010acm.2_Intron|C13orf18_uc010acn.2_Intron|C13orf18_uc001vbe.3_Silent_p.S29S|C13orf18_uc001vbh.3_Silent_p.S29S|C13orf18_uc001vbi.3_Intron|C13orf18_uc010aco.1_Silent_p.S29S|C13orf18_uc010tga.1_Intron	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	29											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		GGAGTCTGGGCGAACCATCAA	0.522													3	8	---	---	---	---	PASS	A	46946524	A	A	46946524	2	1	48	1	0	0	0	0	0	0	0	1	1720	755	27	1		1	C13orf18	13	46946524	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08	13836467	46946524	68223354	134	18689										
INTS6	26512	broad.mit.edu	37	chr13	52026179	52026179	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gtctcctctgctggcagggtCccgggcacggagctgcggga	17	13	2	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr13:52026179C>T	uc001vfk.2	-	2	738	c.124G>A	c.(124-126)GAC>AAC	p.D42N	INTS6_uc001vfj.2_Missense_Mutation_p.D29N|INTS6_uc001vfl.2_5'UTR|INTS6_uc001vfm.2_Missense_Mutation_p.D42N|uc001vfn.2_5'Flank	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	42	VWFA.				snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)		CTGGCAGGGTCCCGGGCACGG	0.572													4	14	---	---	---	---	PASS	T	52026179	T	T	52026179	3	4	48	1	0	0	0	0	1	0	0	0	7782	855	30	2	2616	2	INTS6	13	52026179	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	5079655	52026179	63143699	135	18690										
DACH1	1602	broad.mit.edu	37	chr13	72053374	72053374	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ctttcccttaaaaaatccatCttcagctcagttttttccag	3	12	3	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr13:72053374C>G	uc010thn.1	-	9	2220	c.1797G>C	c.(1795-1797)AAG>AAC	p.K599N	DACH1_uc010tho.1_Missense_Mutation_p.K451N|DACH1_uc010thp.1_Missense_Mutation_p.K397N	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	651	DACHbox-C.|Potential.|Interaction with SIN3A (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)		AAAAATCCATCTTCAGCTCAG	0.388													37	44	---	---	---	---	PASS	G	72053374	G	G	72053374	3	3	48	1	0	0	0	0	1	0	0	0	4220	912	32	2	339	2	DACH1	13	72053374	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	20027195	72053374	43116504	136	18691										
POTEG	404785	broad.mit.edu	37	chr14	19553590	19553590	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tctgctatgaagacactcagGagcaagatgggcaagtggtg	14	7	2	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr14:19553590G>T	uc001vuz.1	+	1	226	c.174G>T	c.(172-174)AGG>AGT	p.R58S	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	58										ovary(1)	1						AGACACTCAGGAGCAAGATGG	0.612													33	232	---	---	---	---	PASS	T	19553590	T	T	19553590	3	4	48	1	0	0	0	0	1	0	0	0	12266	1165	41	2	176	2	POTEG	14	19553590	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08		19553590	87795950	137	18692										
RNASE10	338879	broad.mit.edu	37	chr14	20979274	20979274	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gaagcgccagttaccaactgGacaatgaagcaactcatcat	8	11	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr14:20979274G>T	uc010tlj.1	+	1	644	c.644G>T	c.(643-645)GGA>GTA	p.G215V	RNASE10_uc001vxp.2_Missense_Mutation_p.G243V	NM_001012975	NP_001012993	Q5GAN6	RNS10_HUMAN	ribonuclease, RNase A family, 10 (non-active)	215						extracellular region	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00123)		Epithelial(56;1.81e-07)|all cancers(55;1.86e-06)	GBM - Glioblastoma multiforme(265;0.022)|READ - Rectum adenocarcinoma(17;0.191)		TTACCAACTGGACAATGAAGC	0.249													8	6	---	---	---	---	PASS	T	20979274	T	T	20979274	3	4	48	1	0	0	0	0	1	0	0	0	13400	1174	41	2	646	2	RNASE10	14	20979274	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	1425684	20979274	86370266	138	18693										
MIA2	117153	broad.mit.edu	37	chr14	39722083	39722083	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggcctgctctggtggagataGacagatctgtggaaaatacc	13	8	2	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr14:39722083G>A	uc001wux.2	+	5	1893	c.1699G>A	c.(1699-1701)GAC>AAC	p.D567N		NM_054024	NP_473365	Q96PC5	MIA2_HUMAN	melanoma inhibitory activity 2	Error:Variant_position_missing_in_Q96PC5_after_alignment						extracellular region				ovary(1)|breast(1)	2	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0216)		GGTGGAGATAGACAGATCTGT	0.373													17	17	---	---	---	---	PASS	A	39722083	A	A	39722083	3	1	48	1	0	0	0	0	1	0	0	0	9564	942	33	2	1717	2	MIA2	14	39722083	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	18742809	39722083	67627457	139	18694										
NIN	51199	broad.mit.edu	37	chr14	51190336	51190336	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cagagctttcaacaactgggCattttcaacatacaagtcct	6	11	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr14:51190336C>T	uc001wyi.2	-	31	6438	c.6247G>A	c.(6247-6249)GCC>ACC	p.A2083T	NIN_uc001wyj.2_RNA	NM_020921	NP_065972	Q8N4C6	NIN_HUMAN	ninein isoform 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					AACAACTGGGCATTTTCAACA	0.428			T	PDGFRB	MPD								23	16	---	---	---	---	PASS	T	51190336	T	T	51190336	3	4	48	1	0	0	0	0	1	0	0	0	10417	710	25	3	158	3	NIN	14	51190336	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	11468253	51190336	56159204	140	18695										
NIPA2	81614	broad.mit.edu	37	chr15	23006622	23006622	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	attaatctgtgtgctcacacAgacgatgaggctcagcagca	10	10	3	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr15:23006622A>G	uc001yux.2	-	8	1295	c.682T>C	c.(682-684)TGT>CGT	p.C228R	NIPA2_uc001yuy.2_Missense_Mutation_p.C228R|NIPA2_uc001yuz.2_Missense_Mutation_p.C228R|NIPA2_uc001yva.2_Missense_Mutation_p.C209R|NIPA2_uc001yvb.2_Missense_Mutation_p.C228R|NIPA2_uc010ayb.2_Missense_Mutation_p.C209R	NM_030922	NP_112184	Q8N8Q9	NIPA2_HUMAN	non imprinted in Prader-Willi/Angelman syndrome	228	Helical; (Potential).					early endosome|integral to membrane|plasma membrane				haematopoietic_and_lymphoid_tissue(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;1.48e-06)|Epithelial(43;1.44e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000353)		GTGCTCACACAGACGATGAGG	0.463													44	32	---	---	---	---	PASS	G	23006622	G	G	23006622	3	3	48	1	0	0	0	0	1	0	0	0	10423	188	7	5	404	5	NIPA2	15	23006622	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08		23006622	79524770	141	18696										
RYR3	6263	broad.mit.edu	37	chr15	33835852	33835852	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ttggtgggcatgtagtacgtCttttccatggtcatgatgaa	12	6	2	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr15:33835852C>G	uc001zhi.2	+	8	746	c.676C>G	c.(676-678)CTT>GTT	p.L226V	RYR3_uc010bar.2_Missense_Mutation_p.L226V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	226	MIR 3.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGTAGTACGTCTTTTCCATGG	0.398													55	34	---	---	---	---	PASS	G	33835852	G	G	33835852	3	3	48	1	0	0	0	0	1	0	0	0	13770	913	32	2	706	2	RYR3	15	33835852	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	10829230	33835852	68695540	142	18697										
PGBD4	161779	broad.mit.edu	37	chr15	34396179	34396179	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ctgagcacacgatgagccatAtaaacttcagactggcattg	9	10	1	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr15:34396179A>G	uc001zho.2	+	1	1906	c.1447A>G	c.(1447-1449)ATA>GTA	p.I483V	C15orf24_uc001zhm.2_5'Flank|C15orf24_uc001zhn.2_5'Flank	NM_152595	NP_689808	Q96DM1	PGBD4_HUMAN	piggyBac transposable element derived 4	483											0		all_lung(180;1.76e-08)		all cancers(64;1.22e-17)|GBM - Glioblastoma multiforme(113;1.78e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0242)		GATGAGCCATATAAACTTCAG	0.443													15	4	---	---	---	---	PASS	G	34396179	G	G	34396179	3	3	48	1	0	0	0	0	1	0	0	0	11783	449	16	5	1449	5	PGBD4	15	34396179	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	560327	34396179	68135213	143	18698										
ATPBD4	89978	broad.mit.edu	37	chr15	35703036	35703036	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gatctagtataaattcttacCtctatgagataaggctccat	6	8	3	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr15:35703036C>G	uc001zja.2	-	6	629	c.567G>C	c.(565-567)GAG>GAC	p.E189D	ATPBD4_uc001ziz.2_Missense_Mutation_p.E173D	NM_080650	NP_542381	Q7L8W6	ATBD4_HUMAN	ATP binding domain 4 isoform 1	189											0		all_epithelial(112;2.11e-09)|Lung NSC(122;2.38e-08)|all_lung(180;3.65e-07)		all cancers(64;9.9e-19)|GBM - Glioblastoma multiforme(113;2.01e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)		AAATTCTTACCTCTATGAGAT	0.294													43	43	---	---	---	---	PASS	G	35703036	G	G	35703036	3	3	48	1	0	0	0	0	1	0	0	0	1202	695	24	4	252	4	ATPBD4	15	35703036	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	1306857	35703036	66828356	144	18699										
AKAP13	11214	broad.mit.edu	37	chr15	86213042	86213042	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tccatctcattaatgacaatCagccatcctggattggacag	7	11	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr15:86213042C>G	uc002blv.1	+	14	5252	c.5082C>G	c.(5080-5082)ATC>ATG	p.I1694M	AKAP13_uc002blt.1_Missense_Mutation_p.I1676M|AKAP13_uc002blu.1_Missense_Mutation_p.I1698M|AKAP13_uc010bnf.1_Missense_Mutation_p.I316M|AKAP13_uc002blw.1_Missense_Mutation_p.I161M|AKAP13_uc010bne.1_Missense_Mutation_p.I347M	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1694					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TAATGACAATCAGCCATCCTG	0.338													18	15	---	---	---	---	PASS	G	86213042	G	G	86213042	3	3	48	1	0	0	0	0	1	0	0	0	449	816	29	2	5202	2	AKAP13	15	86213042	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	50510006	86213042	16318350	145	18700										
CYLD	1540	broad.mit.edu	37	chr16	50826618	50826618	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	acagatttacttgaagacagTaagtatgagatttttttagt	8	3	0	4			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr16:50826618T>A	uc002egp.1	+	16	2765	c.2350_splice	c.e16+2	p.T784_splice	CYLD_uc010cbs.1_Splice_Site_p.T781_splice|CYLD_uc002egq.1_Splice_Site_p.T781_splice|CYLD_uc002egr.1_Splice_Site_p.T781_splice	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD						cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				TTGAAGACAGTAAGTATGAGA	0.209			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				4	9	---	---	---	---	PASS	A	50826618	A	A	50826618	5	1	48	1	0	0	0	0	0	0	1	0	4143	1652	57	5	2406	5	CYLD	16	50826618	Splice_Site	SNP	T	TCGA-22-5480-01A-01D-1632-08		50826618	39528135	146	18701										
COQ9	57017	broad.mit.edu	37	chr16	57486804	57486804	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cggcagcccttgagtttgtgCccgcccacgggtggacagca	14	14	0	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr16:57486804C>T	uc002elq.2	+	3	350	c.334C>T	c.(334-336)CCC>TCC	p.P112S	COQ9_uc002elp.1_Missense_Mutation_p.P112S|COQ9_uc010vhn.1_Missense_Mutation_p.P112S|COQ9_uc010vho.1_Missense_Mutation_p.P112S|COQ9_uc010vhp.1_Missense_Mutation_p.P112S|COQ9_uc002elr.2_Missense_Mutation_p.P112S	NM_020312	NP_064708	O75208	COQ9_HUMAN	coenzyme Q9 homolog precursor	112					ubiquinone biosynthetic process	mitochondrion				breast(1)	1						TGAGTTTGTGCCCGCCCACGG	0.592													3	40	---	---	---	---	PASS	T	57486804	T	T	57486804	3	4	48	1	0	0	0	0	1	0	0	0	3751	739	26	3	344	3	COQ9	16	57486804	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	6660186	57486804	32867949	147	18702										
TP53	7157	broad.mit.edu	37	chr17	7579358	7579358	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cagaatgcaagaagcccagaCggaaaccgtagctgccctgg	12	12	0	3	rs11540654		TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr17:7579358C>A	uc002gim.2	-	4	523	c.329G>T	c.(328-330)CGT>CTT	p.R110L	TP53_uc002gig.1_Missense_Mutation_p.R110L|TP53_uc002gih.2_Missense_Mutation_p.R110L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Missense_Mutation_p.R110L|TP53_uc010cni.1_Missense_Mutation_p.R110L|TP53_uc002gij.2_Missense_Mutation_p.R110L|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Missense_Mutation_p.R71L|TP53_uc010cnk.1_Missense_Mutation_p.R125L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	110	Interaction with HIPK1 (By similarity).||Interaction with WWOX.		R -> G (in a sporadic cancer; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> S (in a sporadic cancer; somatic mutation).|R -> H (in sporadic cancers; somatic mutation).|R -> L (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R110L(24)|p.R110P(8)|p.0?(7)|p.R110fs*13(5)|p.R110C(4)|p.G59fs*23(3)|p.F109_R110delFR(2)|p.R110H(2)|p.V73fs*9(1)|p.F109_R110insXX(1)|p.G105_T125del21(1)|p.R110fs*18(1)|p.Y107fs*44(1)|p.R110fs*39(1)|p.Y103_G112>C(1)|p.R110S(1)|p.P13fs*18(1)|p.S33fs*23(1)|p.Y107fs*38(1)|p.Y103_L111>L(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)		GAAGCCCAGACGGAAACCGTA	0.612		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)			13	16	---	---	---	---	PASS	A	7579358	A	A	7579358	3	1	48	1	0	0	0	0	1	0	0	0	16378	536	19	1	973	1	TP53	17	7579358	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08		7579358	73615852	148	18703										
CCDC42	146849	broad.mit.edu	37	chr17	8638528	8638528	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ttaatggtgccaagcaggagGgtcttcttggctgcggtgtt	15	7	2	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr17:8638528G>T	uc002gln.2	-	6	986	c.759C>A	c.(757-759)ACC>ACA	p.T253T	CCDC42_uc002glo.2_Silent_p.T179T	NM_144681	NP_653282	Q96M95	CCD42_HUMAN	coiled-coil domain containing 42 isoform 1	253										ovary(1)	1						CAAGCAGGAGGGTCTTCTTGG	0.522													11	10	---	---	---	---	PASS	T	8638528	T	T	8638528	2	4	48	1	0	0	0	0	0	0	0	1	2814	1219	43	3		3	CCDC42	17	8638528	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	1059170	8638528	72556682	149	18704										
SLC6A4	6532	broad.mit.edu	37	chr17	28545947	28545947	+	Frame_Shift_Del	DEL	C	-	-													0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggtgtaggggaggaggaatgCccctgaggcagatgaaagac							TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr17:28545947delC	uc002hey.3	-	4	890	c.346delG	c.(346-348)GCAfs	p.A116fs		NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	116	Helical; Name=2; (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	AGGAGGAATGCCCCTGAGGCA	0.527													43	19	---	---	---	---		-	28545947	-	-	28545947	7	5	48	1	0	1	0	1	0	0	0	0	14686	739	26	0	1594	0	SLC6A4	17	28545947	Frame_Shift_Del	DEL	C	TCGA-22-5480-01A-01D-1632-08	19907419	28545947	52649263	150	18705										
FZD2	2535	broad.mit.edu	37	chr17	42635359	42635359	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atgtacgcacccgtgtgcacCgtgctggaacaggccatccc	11	15	0	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr17:42635359C>A	uc002igx.1	+	1	435	c.303C>A	c.(301-303)ACC>ACA	p.T101T		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	101	FZ.|Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		CCGTGTGCACCGTGCTGGAAC	0.632													25	52	---	---	---	---	PASS	A	42635359	A	A	42635359	2	1	48	1	0	0	0	0	0	0	0	1	6130	639	23	1		1	FZD2	17	42635359	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08	14089412	42635359	38559851	151	18706										
DBF4B	80174	broad.mit.edu	37	chr17	42809611	42809611	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	accaatgcccgctcttggggAgtgaggattctgcacgtgga	14	10	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr17:42809611A>G	uc002ihf.2	+	6	747	c.534A>G	c.(532-534)GGA>GGG	p.G178G	DBF4B_uc002ihd.1_3'UTR|DBF4B_uc010wjb.1_Intron|DBF4B_uc002ihe.2_Intron|DBF4B_uc010wjc.1_Silent_p.G162G|DBF4B_uc002ihg.2_3'UTR	NM_145663	NP_663696	Q8NFT6	DBF4B_HUMAN	DBF4 homolog B isoform 1	178					cell cycle	nucleus	nucleic acid binding|zinc ion binding				0		Prostate(33;0.0322)				GCTCTTGGGGAGTGAGGATTC	0.552													10	18	---	---	---	---	PASS	G	42809611	G	G	42809611	2	3	48	1	0	0	0	0	0	0	0	1	4249	291	11	5		5	DBF4B	17	42809611	Silent	SNP	A	TCGA-22-5480-01A-01D-1632-08	174252	42809611	38385599	152	18707										
MPO	4353	broad.mit.edu	37	chr17	56349033	56349033	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	caccgatcaccatcccggagCttcctgaactgggtaccgat	9	15	1	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr17:56349033C>A	uc002ivu.1	-	11	2190	c.2013G>T	c.(2011-2013)AAG>AAT	p.K671N		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	671					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	CATCCCGGAGCTTCCTGAACT	0.632													13	13	---	---	---	---	PASS	A	56349033	A	A	56349033	3	1	48	1	0	0	0	0	1	0	0	0	9732	796	28	3	232	3	MPO	17	56349033	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	13539422	56349033	24846177	153	18708										
BPTF	2186	broad.mit.edu	37	chr17	65924580	65924580	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gaaggttatggtggcccccaTaagtggctcagttacaactg	12	9	1	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr17:65924580T>G	uc002jgf.2	+	16	5922	c.5861T>G	c.(5860-5862)ATA>AGA	p.I1954R	BPTF_uc002jge.2_Missense_Mutation_p.I2080R	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2080					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			GTGGCCCCCATAAGTGGCTCA	0.458													5	32	---	---	---	---	PASS	G	65924580	G	G	65924580	3	3	48	1	0	0	0	0	1	0	0	0	1495	1406	49	5	6309	5	BPTF	17	65924580	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	9575547	65924580	15270630	154	18709										
ITGB4	3691	broad.mit.edu	37	chr17	73727361	73727361	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cctggacatccgggccctagAcagcccccgaggccttcgga	12	17	0	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr17:73727361A>G	uc002jpg.2	+	10	1314	c.1127A>G	c.(1126-1128)GAC>GGC	p.D376G	ITGB4_uc002jph.2_Missense_Mutation_p.D376G|ITGB4_uc010dgo.2_Missense_Mutation_p.D376G|ITGB4_uc002jpi.3_Missense_Mutation_p.D376G|ITGB4_uc010dgp.1_Missense_Mutation_p.D376G|ITGB4_uc002jpj.2_Missense_Mutation_p.D376G|ITGB4_uc010wsh.1_5'Flank	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	376	Extracellular (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			CGGGCCCTAGACAGCCCCCGA	0.617													14	24	---	---	---	---	PASS	G	73727361	G	G	73727361	3	3	48	1	0	0	0	0	1	0	0	0	7897	275	10	5	1161	5	ITGB4	17	73727361	Missense_Mutation	SNP	A	TCGA-22-5480-01A-01D-1632-08	7802781	73727361	7467849	155	18710										
WDR45L	56270	broad.mit.edu	37	chr17	80588802	80588802	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	acacaattacagtacctttgTtgggagggtatttcggcttt	10	7	0	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr17:80588802T>A	uc002kfq.2	-	3	434	c.239A>T	c.(238-240)AAC>ATC	p.N80I	WDR45L_uc002kfr.2_RNA	NM_019613	NP_062559	Q5MNZ6	WIPI3_HUMAN	WDR45-like	80					autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1	Breast(20;0.00106)|all_neural(118;0.0952)	all_cancers(8;0.101)|all_epithelial(8;0.198)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.0835)			AGTACCTTTGTTGGGAGGGTA	0.408													66	116	---	---	---	---	PASS	A	80588802	A	A	80588802	3	1	48	1	0	0	0	0	1	0	0	0	17295	1725	60	5	827	5	WDR45L	17	80588802	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	6861441	80588802	606408	156	18711										
LAMA1	284217	broad.mit.edu	37	chr18	6971894	6971894	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cacttgccttccctttcaatAtagttccataggcctatgga	6	12	1	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr18:6971894A>G	uc002knm.2	-	48	6955	c.6861T>C	c.(6859-6861)TAT>TAC	p.Y2287Y	LAMA1_uc010wzj.1_Silent_p.Y1763Y	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2287	Laminin G-like 1.				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)	CCCTTTCAATATAGTTCCATA	0.443													37	42	---	---	---	---	PASS	G	6971894	G	G	6971894	2	3	48	1	0	0	0	0	0	0	0	1	8605	456	16	5		5	LAMA1	18	6971894	Silent	SNP	A	TCGA-22-5480-01A-01D-1632-08		6971894	71105354	157	18712										
LAMA1	284217	broad.mit.edu	37	chr18	6971974	6971974	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	atgagtaaccttcacagcagGagatttctaatgcaaacaag	8	8	2	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr18:6971974G>C	uc002knm.2	-	48	6875	c.6781C>G	c.(6781-6783)CCT>GCT	p.P2261A	LAMA1_uc010wzj.1_Missense_Mutation_p.P1737A	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2261	Laminin G-like 1.				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)	TTCACAGCAGGAGATTTCTAA	0.413													10	44	---	---	---	---	PASS	C	6971974	C	C	6971974	3	2	48	1	0	0	0	0	1	0	0	0	8605	1174	41	2	2510	2	LAMA1	18	6971974	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	80	6971974	71105274	158	18713										
LAMA1	284217	broad.mit.edu	37	chr18	6997882	6997882	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cctacacactcatcatcacaGgctacaagacaaatttttaa	3	12	3	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr18:6997882G>T	uc002knm.2	-	33	4759	c.4665C>A	c.(4663-4665)TCC>TCA	p.S1555S	LAMA1_uc010wzj.1_Silent_p.S1031S	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1555	Laminin EGF-like 17.				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)	CATCATCACAGGCTACAAGAC	0.418													21	49	---	---	---	---	PASS	T	6997882	T	T	6997882	2	4	48	1	0	0	0	0	0	0	0	1	8605	1014	35	3		3	LAMA1	18	6997882	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	25908	6997882	71079366	159	18714										
LAMA3	3909	broad.mit.edu	37	chr18	21399941	21399941	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agtttagctggagaggatatGcccaaatgacctcagtacag	11	8	1	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr18:21399941G>A	uc002kuq.2	+	19	2370	c.2284G>A	c.(2284-2286)GCC>ACC	p.A762T	LAMA3_uc002kur.2_Missense_Mutation_p.A762T	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	762					cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GAGAGGATATGCCCAAATGAC	0.502													6	18	---	---	---	---	PASS	A	21399941	A	A	21399941	3	1	48	1	0	0	0	0	1	0	0	0	8607	1319	46	3	2358	3	LAMA3	18	21399941	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	14402059	21399941	56677307	160	18715										
RIT2	6014	broad.mit.edu	37	chr18	40323598	40323598	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cactaagccatgaaaagcatCatcaatacagaatctgaggg	8	9	3	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr18:40323598C>A	uc002lav.2	-	5	687	c.514G>T	c.(514-516)GAT>TAT	p.D172Y	RIT2_uc010dnf.2_3'UTR	NM_002930	NP_002921	Q99578	RIT2_HUMAN	Ras-like without CAAX 2	172					nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1						TGAAAAGCATCATCAATACAG	0.418													18	63	---	---	---	---	PASS	A	40323598	A	A	40323598	3	1	48	1	0	0	0	0	1	0	0	0	13387	826	29	2	143	2	RIT2	18	40323598	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	18923657	40323598	37753650	161	18716										
CDH19	28513	broad.mit.edu	37	chr18	64172254	64172254	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cacacggatcagtattagctTcttcgagcttttccagaatg	8	10	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr18:64172254T>C	uc002lkc.1	-	12	2252	c.2114A>G	c.(2113-2115)GAA>GGA	p.E705G	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_3'UTR	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	705	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				AGTATTAGCTTCTTCGAGCTT	0.488													41	57	---	---	---	---	PASS	C	64172254	C	C	64172254	3	2	48	1	0	0	0	0	1	0	0	0	3104	1783	62	5	208	5	CDH19	18	64172254	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	23848656	64172254	13904994	162	18717										
SOCS6	9306	broad.mit.edu	37	chr18	67992174	67992174	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	aaacagaagtcaaaaggcaaGgcgggcacaccctctgggag	13	10	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr18:67992174G>T	uc002lkr.1	+	2	586	c.270G>T	c.(268-270)AAG>AAT	p.K90N	SOCS6_uc010dqq.2_Missense_Mutation_p.K90N	NM_004232	NP_004223	O14544	SOCS6_HUMAN	suppressor of cytokine signaling 6	90					defense response|JAK-STAT cascade|negative regulation of signal transduction|regulation of growth	cytoplasm				large_intestine(1)|lung(1)	2		Esophageal squamous(42;0.129)|Colorectal(73;0.152)				CAAAAGGCAAGGCGGGCACAC	0.517													14	27	---	---	---	---	PASS	T	67992174	T	T	67992174	3	4	48	1	0	0	0	0	1	0	0	0	14918	991	35	3	272	3	SOCS6	18	67992174	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	3819920	67992174	10085074	163	18718										
ATP9B	374868	broad.mit.edu	37	chr18	77119463	77119463	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tgtacaaggacctcaccaagGtacgggcctcaggcaagctg	12	12	2	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr18:77119463G>T	uc002lmx.2	+	26	3026	c.3012_splice	c.e26+1	p.K1004_splice	ATP9B_uc002lmw.1_Splice_Site_p.K1004_splice|ATP9B_uc002lmz.1_Missense_Mutation_p.V699L|ATP9B_uc002lna.2_Splice_Site_p.K30_splice|ATP9B_uc002lnb.1_Splice_Site_p.G103_splice|ATP9B_uc010drb.2_Splice_Site	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B						ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		CCTCACCAAGGTACGGGCCTC	0.537													5	13	---	---	---	---	PASS	T	77119463	T	T	77119463	5	4	48	1	0	0	0	0	0	0	1	0	1199	1275	44	3	3115	3	ATP9B	18	77119463	Splice_Site	SNP	G	TCGA-22-5480-01A-01D-1632-08	9127289	77119463	957785	164	18719										
FEM1A	55527	broad.mit.edu	37	chr19	4792420	4792420	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gcgcagcgccaagggcaacaCggccctgcatgactgcgccg	14	16	0	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr19:4792420C>A	uc002mbf.2	+	1	693	c.554C>A	c.(553-555)ACG>AAG	p.T185K	uc002mbg.1_RNA	NM_018708	NP_061178	Q9BSK4	FEM1A_HUMAN	fem-1 homolog a	185	ANK 6.				regulation of ubiquitin-protein ligase activity	cytoplasm	binding|ubiquitin-protein ligase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		AAGGGCAACACGGCCCTGCAT	0.677													4	18	---	---	---	---	PASS	A	4792420	A	A	4792420	3	1	48	1	0	0	0	0	1	0	0	0	5809	536	19	1	556	1	FEM1A	19	4792420	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08		4792420	54336563	165	18720										
TNFSF14	8740	broad.mit.edu	37	chr19	6665114	6665114	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	cgtccgcagggtgactgctgGctgaccaacagctccagctc	12	15	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr19:6665114G>T	uc002mfk.1	-	5	928	c.546C>A	c.(544-546)AGC>AGA	p.S182R	TNFSF14_uc002mfj.1_Missense_Mutation_p.S146R	NM_003807	NP_003798	O43557	TNF14_HUMAN	tumor necrosis factor ligand superfamily, member	182	Extracellular (Potential).				cellular response to mechanical stimulus|immune response|induction of apoptosis|release of cytoplasmic sequestered NF-kappaB|T cell homeostasis|T cell proliferation	cytoplasm|extracellular space|integral to membrane|plasma membrane	caspase inhibitor activity|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1						GTGACTGCTGGCTGACCAACA	0.692													18	31	---	---	---	---	PASS	T	6665114	T	T	6665114	3	4	48	1	0	0	0	0	1	0	0	0	16304	1194	42	3	180	3	TNFSF14	19	6665114	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	1872694	6665114	52463869	166	18721										
MUC16	94025	broad.mit.edu	37	chr19	9074571	9074571	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tctctgtggtctcggaggagCcaaatactgatgtggaagaa	13	7	2	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr19:9074571C>T	uc002mkp.2	-	3	13079	c.12875G>A	c.(12874-12876)GGC>GAC	p.G4292D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4294	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTCGGAGGAGCCAAATACTGA	0.517													10	23	---	---	---	---	PASS	T	9074571	T	T	9074571	3	4	48	1	0	0	0	0	1	0	0	0	9973	739	26	3	30976	3	MUC16	19	9074571	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	2409457	9074571	50054412	167	18722										
PRKCSH	5589	broad.mit.edu	37	chr19	11559430	11559430	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ctgtacagccagtgctacgaGctcaccaccaacgagtgcgt	10	14	1	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr19:11559430G>A	uc002mrt.2	+	14	1587	c.1251G>A	c.(1249-1251)GAG>GAA	p.E417E	PRKCSH_uc002mru.2_Silent_p.E414E|PRKCSH_uc010xlz.1_Silent_p.E424E|PRKCSH_uc010dya.2_Silent_p.E199E|PRKCSH_uc010dyb.2_Silent_p.E414E	NM_002743	NP_002734	P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H isoform 1	417	PRKCSH.				innate immune response|intracellular protein kinase cascade|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen	calcium ion binding|protein kinase C binding				0						AGTGCTACGAGCTCACCACCA	0.612													19	37	---	---	---	---	PASS	A	11559430	A	A	11559430	2	1	48	1	0	0	0	0	0	0	0	1	12516	962	34	3		3	PRKCSH	19	11559430	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	2484859	11559430	47569553	168	18723										
ZNF91	7644	broad.mit.edu	37	chr19	23578143	23578143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tcaccatttctaggcttccaGgggttcctggcatcttagct	9	12	3	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr19:23578143G>T	uc002nre.2	-	1	127	c.14C>A	c.(13-15)CCT>CAT	p.P5H	ZNF91_uc010xrj.1_Missense_Mutation_p.P5H	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	5						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				TAGGCTTCCAGGGGTTCCTGG	0.622													12	45	---	---	---	---	PASS	T	23578143	T	T	23578143	3	4	48	1	0	0	0	0	1	0	0	0	18197	1000	35	3	3577	3	ZNF91	19	23578143	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	12018713	23578143	35550840	169	18724										
ZNF146	7705	broad.mit.edu	37	chr19	36727458	36727458	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tgagcatgagcattttcacaCgagagagaaaccttttgaat	9	7	1	5			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr19:36727458C>G	uc002odq.3	+	4	1639	c.116C>G	c.(115-117)ACG>AGG	p.T39R	ZNF146_uc010eet.2_Missense_Mutation_p.T39R|ZNF146_uc010eeu.2_Missense_Mutation_p.T39R	NM_007145	NP_009076	Q15072	OZF_HUMAN	zinc finger protein 146	39					regulation of transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|heparin binding|zinc ion binding				0	Esophageal squamous(110;0.162)					CATTTTCACACGAGAGAGAAA	0.428													15	54	---	---	---	---	PASS	G	36727458	G	G	36727458	3	3	48	1	0	0	0	0	1	0	0	0	17730	536	19	4	118	4	ZNF146	19	36727458	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	13149315	36727458	22401525	170	18725										
PSG1	5669	broad.mit.edu	37	chr19	43382112	43382112	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ttactcctctagtcccatcaTctccctttatgatgtgtaag	5	12	3	1	rs1058668	byFrequency	TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr19:43382112T>A	uc002ovb.2	-	2	521	c.383A>T	c.(382-384)GAT>GTT	p.D128V	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Missense_Mutation_p.D128V|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_RNA|PSG1_uc002our.1_Missense_Mutation_p.D128V|PSG1_uc010eio.1_Missense_Mutation_p.D128V|PSG1_uc002oux.1_Missense_Mutation_p.D57V|PSG1_uc002ouy.1_Missense_Mutation_p.D128V|PSG1_uc002ouz.1_Missense_Mutation_p.D128V|PSG1_uc002ova.1_Missense_Mutation_p.D128V|PSG1_uc002ovc.2_Missense_Mutation_p.D128V|PSG1_uc002ovd.1_Missense_Mutation_p.D128V	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	128	Ig-like V-type.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				AGTCCCATCATCTCCCTTTAT	0.498													61	161	---	---	---	---	PASS	A	43382112	A	A	43382112	3	1	48	1	0	0	0	0	1	0	0	0	12653	1435	50	5	949	5	PSG1	19	43382112	Missense_Mutation	SNP	T	TCGA-22-5480-01A-01D-1632-08	6654654	43382112	15746871	171	18726										
ZNF221	7638	broad.mit.edu	37	chr19	44469153	44469153	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tcttcactgaggaggagctgGggctgctggaccctgcccag	15	12	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr19:44469153G>T	uc002oxx.2	+	4	461	c.133G>T	c.(133-135)GGG>TGG	p.G45W	ZNF221_uc010ejb.1_Missense_Mutation_p.G45W|ZNF221_uc010xws.1_Missense_Mutation_p.G45W	NM_013359	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	45	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Prostate(69;0.0352)				GGAGGAGCTGGGGCTGCTGGA	0.488													47	91	---	---	---	---	PASS	T	44469153	T	T	44469153	3	4	48	1	0	0	0	0	1	0	0	0	17772	1232	43	3	139	3	ZNF221	19	44469153	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	1087041	44469153	14659830	172	18727										
NLRP4	147945	broad.mit.edu	37	chr19	56369053	56369053	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gactcaggatacacaaagacCtatcaagctcacgcaaagca	7	12	3	1	rs149802462		TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr19:56369053C>A	uc002qmd.3	+	3	716	c.294C>A	c.(292-294)ACC>ACA	p.T98T	NLRP4_uc002qmf.2_Silent_p.T23T|NLRP4_uc010etf.2_5'UTR	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	98							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)		ACACAAAGACCTATCAAGCTC	0.418													13	34	---	---	---	---	PASS	A	56369053	A	A	56369053	2	1	48	1	0	0	0	0	0	0	0	1	10479	668	24	3		3	NLRP4	19	56369053	Silent	SNP	C	TCGA-22-5480-01A-01D-1632-08	11899900	56369053	2759930	173	18728										
CD93	22918	broad.mit.edu	37	chr20	23065078	23065078	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	accacggtgcctaggatgtaGaataaaagcagcttttgccc	10	10	0	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr20:23065078G>T	uc002wsv.2	-	1	1900	c.1752C>A	c.(1750-1752)TTC>TTA	p.F584L		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	584	Helical; (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					CTAGGATGTAGAATAAAAGCA	0.607													32	96	---	---	---	---	PASS	T	23065078	T	T	23065078	3	4	48	1	0	0	0	0	1	0	0	0	3047	933	33	2	214	2	CD93	20	23065078	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08		23065078	39960442	174	18729										
ACSS2	55902	broad.mit.edu	37	chr20	33508829	33508829	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	tttgaggggattcccacataTccggacgtgaaccgcctgtg	12	11	0	2			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr20:33508829T>C	uc002xbd.2	+	10	1285	c.1164T>C	c.(1162-1164)TAT>TAC	p.Y388Y	ACSS2_uc002xbc.2_Silent_p.Y293Y|ACSS2_uc010zum.1_Intron|ACSS2_uc010gey.2_Silent_p.Y401Y|ACSS2_uc002xbe.2_Silent_p.Y96Y|ACSS2_uc002xbf.2_Intron	NM_018677	NP_061147	Q9NR19	ACSA_HUMAN	acyl-CoA synthetase short-chain family member 2	388					ethanol oxidation|lipid biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	acetate-CoA ligase activity|ATP binding|protein binding				0					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TTCCCACATATCCGGACGTGA	0.502													55	103	---	---	---	---	PASS	C	33508829	C	C	33508829	2	2	48	1	0	0	0	0	0	0	0	1	189	1442	50	5		5	ACSS2	20	33508829	Silent	SNP	T	TCGA-22-5480-01A-01D-1632-08	10443751	33508829	29516691	175	18730										
TRPC4AP	26133	broad.mit.edu	37	chr20	33657206	33657206	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agcctccatggagagaagagGagaaatttcctagttttttt	10	6	0	3			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr20:33657206G>A	uc002xbk.2	-	3	341	c.307C>T	c.(307-309)CCT>TCT	p.P103S	TRPC4AP_uc002xbl.2_Missense_Mutation_p.P103S|TRPC4AP_uc010zur.1_Intron|TRPC4AP_uc002xbm.1_Missense_Mutation_p.P103S	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	103	Interaction with TNFRSF1A (By similarity).				protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			GAGAGAAGAGGAGAAATTTCC	0.368													12	28	---	---	---	---	PASS	A	33657206	A	A	33657206	3	1	48	1	0	0	0	0	1	0	0	0	16578	1174	41	2	2154	2	TRPC4AP	20	33657206	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	148377	33657206	29368314	176	18731										
TOX2	84969	broad.mit.edu	37	chr20	42694617	42694617	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	gcaccagcagctgtcactgcCccctcacgcccagggcgccc	10	21	2	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr20:42694617C>A	uc002xlf.3	+	6	1189	c.1172C>A	c.(1171-1173)CCC>CAC	p.P391H	TOX2_uc010ggo.2_Missense_Mutation_p.P409H|TOX2_uc002xle.3_Missense_Mutation_p.P367H|TOX2_uc010ggp.2_Missense_Mutation_p.P367H|TOX2_uc002xlg.2_Intron|TOX2_uc010zwk.1_Missense_Mutation_p.P287H	NM_001098798	NP_001092268	Q96NM4	TOX2_HUMAN	TOX high mobility group box family member 2	391	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)			CTGTCACTGCCCCCTCACGCC	0.706													8	15	---	---	---	---	PASS	A	42694617	A	A	42694617	3	1	48	1	0	0	0	0	1	0	0	0	16375	623	22	3	1382	3	TOX2	20	42694617	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	9037411	42694617	20330903	177	18732										
PPP1R3D	5509	broad.mit.edu	37	chr20	58514346	58514346	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ccaccgcctcgtgggtactgCgccagcccgagaaagtgtag	13	14	0	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chr20:58514346C>T	uc002ybb.2	-	1	1007	c.641G>A	c.(640-642)CGC>CAC	p.R214H	C20orf177_uc002yba.2_Intron|C20orf177_uc010zzx.1_5'Flank|C20orf177_uc002ybc.2_5'Flank	NM_006242	NP_006233	O95685	PPR3D_HUMAN	protein phosphatase 1, regulatory subunit 3D	214	CBM21.				glycogen metabolic process		protein binding|protein serine/threonine phosphatase activity				0	all_lung(29;0.00391)		BRCA - Breast invasive adenocarcinoma(7;5.12e-09)			GTGGGTACTGCGCCAGCCCGA	0.672													3	34	---	---	---	---	PASS	T	58514346	T	T	58514346	3	4	48	1	0	0	0	0	1	0	0	0	12374	768	27	1	262	1	PPP1R3D	20	58514346	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08	15819729	58514346	4511174	178	18733										
TAB3	257397	broad.mit.edu	37	chrX	30873661	30873661	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggaaagggctcggcaacaggCttcaagattgttgttattct	12	7	2	1			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chrX:30873661C>T	uc004dcj.2	-	6	784	c.121G>A	c.(121-123)GCC>ACC	p.A41T	TAB3_uc004dck.2_Missense_Mutation_p.A41T|TAB3_uc010ngl.2_Missense_Mutation_p.A41T	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	41	CUE.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|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|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						CGGCAACAGGCTTCAAGATTG	0.373													8	21	---	---	---	---	PASS	T	30873661	T	T	30873661	3	4	48	1	0	0	0	0	1	0	0	0	15494	797	28	3	2041	3	TAB3	23	30873661	Missense_Mutation	SNP	C	TCGA-22-5480-01A-01D-1632-08		30873661	124396899	179	18734										
ZMYM3	9203	broad.mit.edu	37	chrX	70466473	70466473	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	aattcccattttcctctgggGtcctcactgtgttgctgttc	8	12	2	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chrX:70466473G>C	uc004dzh.1	-	14	2471	c.2384C>G	c.(2383-2385)ACC>AGC	p.T795S	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Missense_Mutation_p.T795S|ZMYM3_uc004dzj.1_Intron	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	795					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					TTCCTCTGGGGTCCTCACTGT	0.507													10	6	---	---	---	---	PASS	C	70466473	C	C	70466473	3	2	48	1	0	0	0	0	1	0	0	0	17698	1261	44	4	1776	4	ZMYM3	23	70466473	Missense_Mutation	SNP	G	TCGA-22-5480-01A-01D-1632-08	39592812	70466473	84804087	180	18735										
TGIF2LX	90316	broad.mit.edu	37	chrX	89177283	89177283	+	Frame_Shift_Del	DEL	G	-	-													0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	agtccgttaagatcctccgcGactggatgtataagcatcgg							TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chrX:89177283delG	uc004efe.2	+	2	248	c.199delG	c.(199-201)GACfs	p.D67fs		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	67	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GATCCTCCGCGACTGGATGTA	0.468													37	34	---	---	---	---		-	89177283	-	-	89177283	7	5	48	1	0	1	0	1	0	0	0	0	15824	1058	37	0	201	0	TGIF2LX	23	89177283	Frame_Shift_Del	DEL	G	TCGA-22-5480-01A-01D-1632-08	18710810	89177283	66093277	181	18736										
TEX13A	56157	broad.mit.edu	37	chrX	104464700	104464700	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0730337078651685	13	0.389417630612868	1.17348659003831	1.86761791518034	0.735882058970515	0.488676307007786	0.81842946137857	0	ggtctgggccattcttagccGggaggccgcctccttgcgtt	14	13	2	0			TCGA-22-5480-01A-01D-1632-08	TCGA-22-5480-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	24e426fb-219a-4a4d-a45c-c9b0896d0e88	77dda1a1-3c2e-488d-9cd0-da78dba549ec	g.chrX:104464700G>T	uc004ema.2	-	2	494	c.382C>A	c.(382-384)CGG>AGG	p.R128R	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Silent_p.R128R	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	128						intracellular	zinc ion binding			ovary(2)	2						ATTCTTAGCCGGGAGGCCGCC	0.592													21	14	---	---	---	---	PASS	T	104464700	T	T	104464700	2	4	48	1	0	0	0	0	0	0	0	1	15773	1115	39	1		1	TEX13A	23	104464700	Silent	SNP	G	TCGA-22-5480-01A-01D-1632-08	15287417	104464700	50805860	182	18737										
DDI2	84301	broad.mit.edu	37	chr1	15956822	15956822	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	attgattttccccaacagacTtaccccgaatagatttcagt	5	11	1	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:15956822T>G	uc001awx.1	+	3	367	c.271T>G	c.(271-273)TTA>GTA	p.L91V	DDI2_uc001aww.2_Missense_Mutation_p.L91V|DDI2_uc009voj.1_5'UTR	NM_032341	NP_115717	Q5TDH0	DDI2_HUMAN	DNA-damage inducible protein 2	91					proteolysis		aspartic-type endopeptidase activity				0		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00327)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.03e-07)|COAD - Colon adenocarcinoma(227;4.48e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		CCCAACAGACTTACCCCGAAT	0.463													19	82	---	---	---	---	PASS	G	15956822	G	G	15956822	3	3	49	1	0	0	0	0	1	0	0	0	4329	1606	56	5	281	5	DDI2	1	15956822	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08		15956822	233293799	1	18738										
MACF1	23499	broad.mit.edu	37	chr1	39797858	39797858	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ctcccaattacagatgccctAgaacaaggtattgtgtctac	7	11	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:39797858A>G	uc010oiu.1	+	1	1049	c.918A>G	c.(916-918)CTA>CTG	p.L306L	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1871	Plectin 5.				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	p.L306V(1)		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)			CAGATGCCCTAGAACAAGGTA	0.458													42	30	---	---	---	---	PASS	G	39797858	G	G	39797858	2	3	49	1	0	0	0	0	0	0	0	1	9144	407	15	5		5	MACF1	1	39797858	Silent	SNP	A	TCGA-22-5482-01A-01D-1632-08	23841036	39797858	209452763	2	18739										
MFSD2A	84879	broad.mit.edu	37	chr1	40420981	40420981	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ggtcatggccaaaggagaagGcgccgagagcggctccgcgg	18	11	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:40420981G>T	uc001cev.2	+	1	198	c.17G>T	c.(16-18)GGC>GTC	p.G6V	MFSD2A_uc010ojb.1_Missense_Mutation_p.G6V|MFSD2A_uc001ceu.2_Missense_Mutation_p.G6V|MFSD2A_uc010ojc.1_5'UTR|MFSD2A_uc009vvy.2_RNA|MFSD2A_uc001cew.1_Missense_Mutation_p.G6V	NM_001136493	NP_001129965	Q8NA29	MFS2A_HUMAN	major facilitator superfamily domain containing	6					transmembrane transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)|pancreas(1)	2						AAAGGAGAAGGCGCCGAGAGC	0.716													6	4	---	---	---	---	PASS	T	40420981	T	T	40420981	3	4	49	1	0	0	0	0	1	0	0	0	9530	1203	42	3	19	3	MFSD2A	1	40420981	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	623123	40420981	208829640	3	18740										
TIE1	7075	broad.mit.edu	37	chr1	43774787	43774787	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	atagagctacgcaagccagaCggcactgtgctcctggtcag	12	12	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:43774787C>T	uc001ciu.2	+	8	1252	c.1173C>T	c.(1171-1173)GAC>GAT	p.D391D	TIE1_uc010okd.1_Silent_p.D391D|TIE1_uc010oke.1_Silent_p.D346D|TIE1_uc009vwq.2_Silent_p.D347D|TIE1_uc010okf.1_Silent_p.D36D|TIE1_uc010okg.1_Silent_p.D36D|TIE1_uc010okc.1_Intron	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	391	Ig-like C2-type 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GCAAGCCAGACGGCACTGTGC	0.617													16	9	---	---	---	---	PASS	T	43774787	T	T	43774787	2	4	49	1	0	0	0	0	0	0	0	1	15890	535	19	1		1	TIE1	1	43774787	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	3353806	43774787	205475834	4	18741										
EVI5	7813	broad.mit.edu	37	chr1	93091411	93091411	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tctttcaaacccataatggcTtctgcttctctaagtttcac	4	12	5	0	rs137964507		TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:93091411T>G	uc001dox.2	-	13	1570	c.1560A>C	c.(1558-1560)GAA>GAC	p.E520D	EVI5_uc010otf.1_Missense_Mutation_p.E531D|EVI5_uc001doy.1_RNA	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	520	Targeting to the centrosomes.|Potential.|Dimerization.|Interaction with AURKB and INCENP.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		CCATAATGGCTTCTGCTTCTC	0.348													23	77	---	---	---	---	PASS	G	93091411	G	G	93091411	3	3	49	1	0	0	0	0	1	0	0	0	5289	1606	56	5	896	5	EVI5	1	93091411	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	49316624	93091411	156159210	5	18742										
NOS1AP	9722	broad.mit.edu	37	chr1	162335234	162335234	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gttggctgctgaggctgcggCgcggctggaggcccaggctc	19	12	0	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:162335234C>G	uc001gbv.2	+	9	1367	c.980C>G	c.(979-981)GCG>GGG	p.A327G	NOS1AP_uc010pks.1_RNA|NOS1AP_uc001gbw.2_Missense_Mutation_p.A322G|NOS1AP_uc009wut.1_Missense_Mutation_p.A32G	NM_014697	NP_055512	O75052	CAPON_HUMAN	nitric oxide synthase 1 (neuronal) adaptor	327	Potential.				regulation of apoptosis|regulation of nitric oxide biosynthetic process|regulation of nitric-oxide synthase activity		nitric-oxide synthase binding|PDZ domain binding			lung(2)|upper_aerodigestive_tract(1)	3	all_hematologic(112;0.203)		BRCA - Breast invasive adenocarcinoma(70;0.0537)			GAGGCTGCGGCGCGGCTGGAG	0.587													17	60	---	---	---	---	PASS	G	162335234	G	G	162335234	3	3	49	1	0	0	0	0	1	0	0	0	10542	768	27	4	1068	4	NOS1AP	1	162335234	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	69243823	162335234	86915387	6	18743										
GLUL	2752	broad.mit.edu	37	chr1	182353685	182353685	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tctcctggccaacagtccggGgaatgcgtatgctggcgcta	13	12	1	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:182353685G>C	uc001gpa.1	-	7	1189	c.977C>G	c.(976-978)CCC>CGC	p.P326R	GLUL_uc010pnt.1_Missense_Mutation_p.P113R|GLUL_uc001gpb.1_Missense_Mutation_p.P326R|GLUL_uc001gpc.1_Missense_Mutation_p.P326R|GLUL_uc001gpd.1_Missense_Mutation_p.P326R	NM_001033056	NP_001028228	P15104	GLNA_HUMAN	glutamine synthetase	326					cell proliferation|glutamine biosynthetic process|neurotransmitter uptake	cytosol|Golgi apparatus|mitochondrion	ATP binding|glutamate decarboxylase activity|glutamate-ammonia ligase activity|identical protein binding				0					Asparaginase(DB00023)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)|L-Methionine(DB00134)	AACAGTCCGGGGAATGCGTAT	0.552													8	34	---	---	---	---	PASS	C	182353685	C	C	182353685	3	2	49	1	0	0	0	0	1	0	0	0	6478	1232	43	4	148	4	GLUL	1	182353685	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	20018451	182353685	66896936	7	18744										
C1orf14	81626	broad.mit.edu	37	chr1	182909662	182909662	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aacgagatgatgagtcttggTatggttcacaagttacctaa	10	6	2	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:182909662T>C	uc001gpu.2	-	3	857	c.572A>G	c.(571-573)TAC>TGC	p.Y191C	C1orf14_uc001gpv.2_Missense_Mutation_p.Y72C|C1orf14_uc010pnz.1_Missense_Mutation_p.Y49C|C1orf14_uc001gpw.2_Translation_Start_Site	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	263											0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		TGAGTCTTGGTATGGTTCACA	0.333													26	24	---	---	---	---	PASS	C	182909662	C	C	182909662	3	2	49	1	0	0	0	0	1	0	0	0	2000	1638	57	5	1421	5	C1orf14	1	182909662	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	555977	182909662	66340959	8	18745										
C1orf25	81627	broad.mit.edu	37	chr1	185114649	185114649	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	catatcagttcttctggtgaTtgttgctgaacaaatgatac	8	7	3	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:185114649T>C	uc001grf.3	-	5	849	c.577A>G	c.(577-579)ATC>GTC	p.I193V	C1orf25_uc010pon.1_Missense_Mutation_p.I37V	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	193	C2H2-type.					intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						CTTCTGGTGATTGTTGCTGAA	0.338													48	111	---	---	---	---	PASS	C	185114649	C	C	185114649	3	2	49	1	0	0	0	0	1	0	0	0	2034	1493	52	5	1668	5	C1orf25	1	185114649	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	2204987	185114649	64135972	9	18746										
F13B	2165	broad.mit.edu	37	chr1	197030140	197030140	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttcgtattgtactttgtcctTcactttgaatgttttctgtg	7	7	2	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:197030140T>G	uc001gtt.1	-	4	561	c.517A>C	c.(517-519)AAG>CAG	p.K173Q		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	173	Sushi 3.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						ACTTTGTCCTTCACTTTGAAT	0.338													14	64	---	---	---	---	PASS	G	197030140	G	G	197030140	3	3	49	1	0	0	0	0	1	0	0	0	5341	1792	62	5	1504	5	F13B	1	197030140	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	11915491	197030140	52220481	10	18747										
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200784772	200784772	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gaagctccaggaggtcaaaaGgtatttatttcaaaaacaaa	8	6	2	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:200784772G>A	uc001gvl.2	+	4	915	c.645G>A	c.(643-645)AAG>AAA	p.K215K	CAMSAP1L1_uc001gvk.2_Silent_p.K215K|CAMSAP1L1_uc001gvm.2_Silent_p.K215K	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	215	CH.					cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GAGGTCAAAAGGTATTTATTT	0.264													6	9	---	---	---	---	PASS	A	200784772	A	A	200784772	2	1	49	1	0	0	0	0	0	0	0	1	2612	1014	35	3		3	CAMSAP1L1	1	200784772	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08	3754632	200784772	48465849	11	18748										
CD46	4179	broad.mit.edu	37	chr1	207930442	207930442	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	atgagattggtgaacgagtaGattataagtgtaaaaaagga	12	1	0	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:207930442G>C	uc001hgc.2	+	2	337	c.181G>C	c.(181-183)GAT>CAT	p.D61H	CD46_uc001hgd.2_Missense_Mutation_p.D61H|CD46_uc001hge.2_Missense_Mutation_p.D61H|CD46_uc001hgf.2_Missense_Mutation_p.D61H|CD46_uc001hgg.2_Missense_Mutation_p.D61H|CD46_uc001hgh.2_Missense_Mutation_p.D61H|CD46_uc001hgi.2_Missense_Mutation_p.D61H|CD46_uc001hgj.2_Missense_Mutation_p.D61H|CD46_uc001hgk.2_Missense_Mutation_p.D61H|CD46_uc001hgl.2_Missense_Mutation_p.D61H|CD46_uc001hgm.2_Missense_Mutation_p.D61H|CD46_uc001hgn.2_Missense_Mutation_p.D61H|CD46_uc001hgo.2_Missense_Mutation_p.D61H|CD46_uc001hgp.2_Missense_Mutation_p.D61H	NM_002389	NP_002380	P15529	MCP_HUMAN	CD46 antigen, complement regulatory protein	61	Extracellular (Potential).|Sushi 1.				complement activation, classical pathway|innate immune response|interspecies interaction between organisms|single fertilization	inner acrosomal membrane|integral to plasma membrane	protein binding|receptor activity			large_intestine(2)|lung(1)|central_nervous_system(1)	4						TGAACGAGTAGATTATAAGTG	0.418													73	45	---	---	---	---	PASS	C	207930442	C	C	207930442	3	2	49	1	0	0	0	0	1	0	0	0	3018	942	33	2	187	2	CD46	1	207930442	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	7145670	207930442	41320179	12	18749										
KCTD3	51133	broad.mit.edu	37	chr1	215759994	215759994	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gagagtagcatcatcttgtgGagtgttcaggatgggggaag	17	4	3	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:215759994G>T	uc001hks.2	+	9	1077	c.783G>T	c.(781-783)TGG>TGT	p.W261C	KCTD3_uc001hkt.2_Missense_Mutation_p.W261C|KCTD3_uc010pub.1_Missense_Mutation_p.W159C|KCTD3_uc009xdn.2_Missense_Mutation_p.W13C	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	261	WD 1.					voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		TCATCTTGTGGAGTGTTCAGG	0.388													73	59	---	---	---	---	PASS	T	215759994	T	T	215759994	3	4	49	1	0	0	0	0	1	0	0	0	8110	1183	41	2	817	2	KCTD3	1	215759994	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	7829552	215759994	33490627	13	18750										
LYST	1130	broad.mit.edu	37	chr1	235896901	235896901	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgctggatcaccttttttctCtcatttccttgggagagaga	9	9	3	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:235896901C>A	uc001hxj.2	-	34	8878	c.8703G>T	c.(8701-8703)GAG>GAT	p.E2901D	LYST_uc001hxi.2_Missense_Mutation_p.E125D	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2901					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			CCTTTTTTCTCTCATTTCCTT	0.398									Chediak-Higashi_syndrome				11	59	---	---	---	---	PASS	A	235896901	A	A	235896901	3	1	49	1	0	0	0	0	1	0	0	0	9128	912	32	2	2782	2	LYST	1	235896901	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	20136907	235896901	13353720	14	18751										
C1orf150	148823	broad.mit.edu	37	chr1	247719715	247719715	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gtgtttccatatagttgcctGggagagaatcaaaagaagcc	11	7	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:247719715G>T	uc001idf.2	+	2	81	c.36G>T	c.(34-36)CTG>CTT	p.L12L	C1orf150_uc009xgw.2_RNA|C1orf150_uc001ida.3_Intron|C1orf150_uc001idb.3_Intron|C1orf150_uc009xgx.2_Intron	NM_145278	NP_660321	Q5JQS6	CA150_HUMAN	hypothetical protein LOC148823	12											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)			ATAGTTGCCTGGGAGAGAATC	0.343													4	14	---	---	---	---	PASS	T	247719715	T	T	247719715	2	4	49	1	0	0	0	0	0	0	0	1	2004	1335	47	3		3	C1orf150	1	247719715	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08	11822814	247719715	1530906	15	18752										
OR1C1	26188	broad.mit.edu	37	chr1	247921596	247921596	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgagcatgttccccaaggtgGtggctaaatacatacagaga	11	8	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr1:247921596G>T	uc010pza.1	-	1	113	c.113C>A	c.(112-114)ACC>AAC	p.T38N		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			CCCCAAGGTGGTGGCTAAATA	0.478													6	18	---	---	---	---	PASS	T	247921596	T	T	247921596	3	4	49	1	0	0	0	0	1	0	0	0	10952	1261	44	3	833	3	OR1C1	1	247921596	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	201881	247921596	1329025	16	18753										
EHBP1	23301	broad.mit.edu	37	chr2	63176080	63176080	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cggtagtaacttggagaaagAaaaattagagaattccagat	10	4	0	4			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:63176080A>T	uc002sby.2	+	14	2686	c.2204A>T	c.(2203-2205)GAA>GTA	p.E735V	EHBP1_uc010fcp.2_Missense_Mutation_p.E700V|EHBP1_uc002sbz.2_Missense_Mutation_p.E700V|EHBP1_uc002scb.2_Missense_Mutation_p.E700V	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	735						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			TTGGAGAAAGAAAAATTAGAG	0.353									Hereditary_Prostate_Cancer				16	32	---	---	---	---	PASS	T	63176080	T	T	63176080	3	4	49	1	0	0	0	0	1	0	0	0	4975	246	9	5	2254	5	EHBP1	2	63176080	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08		63176080	180023293	17	18754										
CTNNA2	1496	broad.mit.edu	37	chr2	80816562	80816562	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cggcaatgatatcattgtacTggccaagcagatgtgtatga	11	7	1	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:80816562T>C	uc010ysh.1	+	14	2146	c.2141T>C	c.(2140-2142)CTG>CCG	p.L714P	CTNNA2_uc010yse.1_Missense_Mutation_p.L714P|CTNNA2_uc010ysf.1_Missense_Mutation_p.L714P|CTNNA2_uc010ysg.1_Missense_Mutation_p.L714P|CTNNA2_uc010ysi.1_Missense_Mutation_p.L346P|CTNNA2_uc010ysj.1_Missense_Mutation_p.L43P	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	714					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						ATCATTGTACTGGCCAAGCAG	0.458													17	28	---	---	---	---	PASS	C	80816562	C	C	80816562	3	2	49	1	0	0	0	0	1	0	0	0	4013	1580	55	5	1987	5	CTNNA2	2	80816562	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	17640482	80816562	162382811	18	18755										
CD8B	926	broad.mit.edu	37	chr2	87085418	87085418	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ctcggtgcctggcgctgtctCagccagtagatgcgcatgtt	13	12	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:87085418C>T	uc002srz.2	-	2	215	c.165G>A	c.(163-165)CTG>CTA	p.L55L	RMND5A_uc002srs.3_Intron|CD8B_uc002srw.2_Silent_p.L55L|CD8B_uc002srx.2_Silent_p.L55L|CD8B_uc002sry.2_Silent_p.L55L|CD8B_uc010fgt.2_Silent_p.L55L|CD8B_uc002ssa.2_Silent_p.L55L|CD8B_uc010yto.1_Silent_p.L55L	NM_004931	NP_004922	P10966	CD8B_HUMAN	CD8b antigen isoform 5 precursor	55	Ig-like V-type.|Extracellular (Potential).				immune response|regulation of defense response to virus by virus|regulation of immune response|T cell activation|transmembrane receptor protein tyrosine kinase signaling pathway|viral reproduction	early endosome|extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			upper_aerodigestive_tract(1)|skin(1)	2						GGCGCTGTCTCAGCCAGTAGA	0.547													16	36	---	---	---	---	PASS	T	87085418	T	T	87085418	2	4	49	1	0	0	0	0	0	0	0	1	3045	813	29	2		2	CD8B	2	87085418	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	6268856	87085418	156113955	19	18756										
POTEF	728378	broad.mit.edu	37	chr2	130832484	130832484	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gggtgaccccgtcaccagagTccatcacgatgccagtagta	11	13	2	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:130832484T>A	uc010fmh.2	-	17	2961	c.2561A>T	c.(2560-2562)GAC>GTC	p.D854V		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	854	Actin-like.					cell cortex	ATP binding			skin(3)|ovary(2)	5						GTCACCAGAGTCCATCACGAT	0.607													46	50	---	---	---	---	PASS	A	130832484	A	A	130832484	3	1	49	1	0	0	0	0	1	0	0	0	12265	1667	58	5	670	5	POTEF	2	130832484	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	43747066	130832484	112366889	20	18757										
FAM123C	205147	broad.mit.edu	37	chr2	131520751	131520751	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	caaagccagctccatcgacaCaggcacccccaagagcgagc	9	17	0	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:131520751C>A	uc002trw.2	+	2	1296	c.1106C>A	c.(1105-1107)ACA>AAA	p.T369K	FAM123C_uc010fmv.2_Missense_Mutation_p.T369K|FAM123C_uc010fms.1_Missense_Mutation_p.T369K|FAM123C_uc010fmt.1_Missense_Mutation_p.T369K|FAM123C_uc010fmu.1_Missense_Mutation_p.T369K	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	369										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		TCCATCGACACAGGCACCCCC	0.627													10	32	---	---	---	---	PASS	A	131520751	A	A	131520751	3	1	49	1	0	0	0	0	1	0	0	0	5424	478	17	3	1108	3	FAM123C	2	131520751	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	688267	131520751	111678622	21	18758										
LCT	3938	broad.mit.edu	37	chr2	136566581	136566581	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	acccccttctgctcctgcctGtatttctcatcgtacgtgtg	7	15	2	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:136566581G>T	uc002tuu.1	-	8	3347	c.3336C>A	c.(3334-3336)TAC>TAA	p.Y1112*		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1112	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		GCTCCTGCCTGTATTTCTCAT	0.587													34	54	---	---	---	---	PASS	T	136566581	T	T	136566581	4	4	49	1	0	0	0	0	0	1	0	0	8693	1372	48	3	2487	3	LCT	2	136566581	Nonsense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	5045830	136566581	106632792	22	18759										
LRP1B	53353	broad.mit.edu	37	chr2	141598565	141598565	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttttcaaagagccatctagcCttgccacattaatttgcgtt	6	10	2	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:141598565C>A	uc002tvj.1	-	30	6008	c.5036G>T	c.(5035-5037)AGG>ATG	p.R1679M		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1679	Extracellular (Potential).|LDL-receptor class B 15.				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)		GCCATCTAGCCTTGCCACATT	0.398										TSP Lung(27;0.18)			4	57	---	---	---	---	PASS	A	141598565	A	A	141598565	3	1	49	1	0	0	0	0	1	0	0	0	8955	681	24	3	9011	3	LRP1B	2	141598565	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	5031984	141598565	101600808	23	18760										
NEB	4703	broad.mit.edu	37	chr2	152525607	152525607	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aattcagggtcaatagtataCttgtgcttcagtttctctcc	7	9	4	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:152525607C>T	uc010fnx.2	-	39	4736	c.4545G>A	c.(4543-4545)AAG>AAA	p.K1515K		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1515					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CAATAGTATACTTGTGCTTCA	0.393													3	8	---	---	---	---	PASS	T	152525607	T	T	152525607	2	4	49	1	0	0	0	0	0	0	0	1	10302	564	20	3		3	NEB	2	152525607	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	10927042	152525607	90673766	24	18761										
SCN9A	6335	broad.mit.edu	37	chr2	167108342	167108342	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tctgcttcttctccttctccAggcaaagggttatcaactgt	7	12	5	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:167108342A>T	uc010fpl.2	-	18	3713	c.3372T>A	c.(3370-3372)CCT>CCA	p.P1124P	uc002udp.2_RNA	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1135						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	CTCCTTCTCCAGGCAAAGGGT	0.458													20	22	---	---	---	---	PASS	T	167108342	T	T	167108342	2	4	49	1	0	0	0	0	0	0	0	1	13925	175	7	5		5	SCN9A	2	167108342	Silent	SNP	A	TCGA-22-5482-01A-01D-1632-08	14582735	167108342	76091031	25	18762										
GAD1	2571	broad.mit.edu	37	chr2	171709291	171709291	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgcagtgctctgccattctcGtcaaggaaaaggtctgtact	10	10	4	0	rs143058194	byFrequency	TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:171709291G>A	uc002ugi.2	+	13	1674	c.1252G>A	c.(1252-1254)GTC>ATC	p.V418I	GAD1_uc010fqc.2_Missense_Mutation_p.V37I	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	418					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	TGCCATTCTCGTCAAGGAAAA	0.512													7	25	---	---	---	---	PASS	A	171709291	A	A	171709291	3	1	49	1	0	0	0	0	1	0	0	0	6179	1145	40	1	1339	1	GAD1	2	171709291	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	4600949	171709291	71490082	26	18763										
NFE2L2	4780	broad.mit.edu	37	chr2	178098935	178098937	+	In_Frame_Del	DEL	AAT	-	-													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tccgtcgctgactgaagtcaAatacttctcgacttactcca							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:178098935_178098937delAAT	uc002ulh.3	-	2	663_665	c.108_110delATT	c.(106-111)GTATTT>GTT	p.F37del	NFE2L2_uc002ulg.3_In_Frame_Del_p.F21del|NFE2L2_uc010zfa.1_In_Frame_Del_p.F21del|NFE2L2_uc002uli.3_In_Frame_Del_p.F21del|NFE2L2_uc010fra.2_In_Frame_Del_p.F21del|NFE2L2_uc010frb.2_In_Frame_Del_p.F21del	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	37					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			ACTGAAGTCAAATACTTCTCGAC	0.384			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			32	24	---	---	---	---		-	178098937	-	-	178098935	7	5	49	1	0	1	0	1	0	0	0	0	10368	14	1	0	1723	0	NFE2L2	2	178098935	In_Frame_Del	DEL	AAT	TCGA-22-5482-01A-01D-1632-08	6389644	178098935	65100438	27	18764										
COL5A2	1290	broad.mit.edu	37	chr2	189916169	189916169	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	agacctggaggtccctccttCccgggttcccctaggggtcc	12	16	0	1	rs141089340		TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:189916169C>A	uc002uqk.2	-	42	3083	c.2808G>T	c.(2806-2808)GGG>GGT	p.G936G	COL5A2_uc010frx.2_Silent_p.G512G	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	936					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			GTCCCTCCTTCCCGGGTTCCC	0.597													11	19	---	---	---	---	PASS	A	189916169	A	A	189916169	2	1	49	1	0	0	0	0	0	0	0	1	3697	842	30	2		2	COL5A2	2	189916169	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	11817234	189916169	53283204	28	18765										
CASP8	841	broad.mit.edu	37	chr2	202149561	202149561	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gctttgaccacgacctttgaAgagcttcattttgagatcaa	8	9	2	4			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:202149561A>G	uc002uxr.1	+	9	1034	c.825A>G	c.(823-825)GAA>GAG	p.E275E	CASP8_uc002uxp.1_Silent_p.E292E|CASP8_uc002uxq.1_Silent_p.E260E|CASP8_uc002uxt.1_Silent_p.E334E|CASP8_uc002uxu.1_RNA|CASP8_uc002uxw.1_Silent_p.E260E|CASP8_uc002uxy.1_Intron|CASP8_uc002uxx.1_Intron|CASP8_uc010ftf.2_Silent_p.E191E	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	275					activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						CGACCTTTGAAGAGCTTCATT	0.438										HNSCC(4;0.00038)			20	45	---	---	---	---	PASS	G	202149561	G	G	202149561	2	3	49	1	0	0	0	0	0	0	0	1	2677	69	3	5		5	CASP8	2	202149561	Silent	SNP	A	TCGA-22-5482-01A-01D-1632-08	12233392	202149561	41049812	29	18766										
CPS1	1373	broad.mit.edu	37	chr2	211481167	211481167	+	Silent	SNP	C	A	A													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gccattgatgacaacatgtcCcttgatgagattgagaagct					rs139626513		TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:211481167C>A	uc002vee.3	+	21	2721	c.2589C>A	c.(2587-2589)TCC>TCA	p.S863S	CPS1_uc010fur.2_Silent_p.S869S|CPS1_uc010fus.2_Silent_p.S412S|LOC29034_uc002vef.2_5'Flank	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	863					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)		ACAACATGTCCCTTGATGAGA	0.363													23	42	---	---	---	---	PASS	A	211481167	A	A	211481167	2	1	49	1	0	0	0	0	0	0	0	1	3823	610	22	3		3	CPS1	2	211481167	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	9331606	211481167	31718206	30	18767	426	2								
CPS1	1373	broad.mit.edu	37	chr2	211481168	211481168	+	Missense_Mutation	SNP	C	A	A													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ccattgatgacaacatgtccCttgatgagattgagaagctc							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:211481168C>A	uc002vee.3	+	21	2722	c.2590C>A	c.(2590-2592)CTT>ATT	p.L864I	CPS1_uc010fur.2_Missense_Mutation_p.L870I|CPS1_uc010fus.2_Missense_Mutation_p.L413I|LOC29034_uc002vef.2_5'Flank	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	864					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)		CAACATGTCCCTTGATGAGAT	0.363													23	43	---	---	---	---	PASS	A	211481168	A	A	211481168	3	1	49	1	0	0	0	0	1	0	0	0	3823	681	24	3	2694	3	CPS1	2	211481168	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	1	211481168	31718205	31	18768	426	2								
COL4A4	1286	broad.mit.edu	37	chr2	227895291	227895291	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cagaaggtcaacactcccagGgaggcctggaggcccaggtg	15	12	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:227895291G>T	uc010zlt.1	-	41	4495	c.3841C>A	c.(3841-3843)CCT>ACT	p.P1281T		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1281	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		ACACTCCCAGGGAGGCCTGGA	0.557													16	51	---	---	---	---	PASS	T	227895291	T	T	227895291	3	4	49	1	0	0	0	0	1	0	0	0	3693	1232	43	3	1263	3	COL4A4	2	227895291	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	16414123	227895291	15304082	32	18769										
C2orf57	165100	broad.mit.edu	37	chr2	232458019	232458019	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	caagacgcaaggacaagtcaGagtctagtggttttcccaag	11	9	2	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:232458019G>A	uc002vrz.2	+	1	408	c.357G>A	c.(355-357)CAG>CAA	p.Q119Q		NM_152614	NP_689827	Q53QW1	CB057_HUMAN	hypothetical protein LOC165100	119										ovary(1)	1		Renal(207;0.025)|all_hematologic(139;0.0735)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;1.33e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)		GGACAAGTCAGAGTCTAGTGG	0.547													15	36	---	---	---	---	PASS	A	232458019	A	A	232458019	2	1	49	1	0	0	0	0	0	0	0	1	2178	933	33	2		2	C2orf57	2	232458019	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08	4562728	232458019	10741354	33	18770										
UGT1A5	54579	broad.mit.edu	37	chr2	234681017	234681017	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgatgaggcacaagggcgcgCcacacctgcgccccgcagcc	13	17	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr2:234681017C>T	uc002vuw.2	+	5	1417	c.1417C>T	c.(1417-1419)CCA>TCA	p.P473S	UGT1A8_uc002vup.2_Missense_Mutation_p.P469S|UGT1A10_uc002vur.2_Missense_Mutation_p.P469S|UGT1A9_uc002vus.2_Missense_Mutation_p.P469S|UGT1A7_uc002vut.2_Missense_Mutation_p.P469S|UGT1A6_uc002vuu.2_Missense_Mutation_p.P204S|UGT1A6_uc002vuv.3_Missense_Mutation_p.P471S|UGT1A4_uc002vux.2_Missense_Mutation_p.P473S|UGT1A3_uc002vuy.2_Missense_Mutation_p.P473S|UGT1A9_uc002vva.2_RNA|UGT1A1_uc002vvb.2_Missense_Mutation_p.P472S	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	473					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		CAAGGGCGCGCCACACCTGCG	0.622													24	74	---	---	---	---	PASS	T	234681017	T	T	234681017	3	4	49	1	0	0	0	0	1	0	0	0	16945	739	26	3	1435	3	UGT1A5	2	234681017	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	2222998	234681017	8518356	34	18771										
EPM2AIP1	9852	broad.mit.edu	37	chr3	37034359	37034359	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	agggccgcgcgctcgccgtcCgccacataccgctcgtagta	12	17	0	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr3:37034359C>A	uc003cgk.2	-	1	437	c.210G>T	c.(208-210)GCG>GCT	p.A70A	MLH1_uc011aye.1_5'Flank|MLH1_uc003cgl.2_5'Flank|MLH1_uc011ayb.1_5'Flank|MLH1_uc010hge.2_5'Flank|MLH1_uc003cgn.3_5'Flank|MLH1_uc011ayc.1_5'Flank|MLH1_uc011ayd.1_5'Flank|MLH1_uc003cgo.2_5'Flank	NM_014805	NP_055620	Q7L775	EPMIP_HUMAN	EPM2A interacting protein 1	70						endoplasmic reticulum					0						GCTCGCCGTCCGCCACATACC	0.677													8	19	---	---	---	---	PASS	A	37034359	A	A	37034359	2	1	49	1	0	0	0	0	0	0	0	1	5184	639	23	1		1	EPM2AIP1	3	37034359	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08		37034359	160988071	35	18772										
OR5H15	403274	broad.mit.edu	37	chr3	97887798	97887798	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ccaaagatgctgaataacttCttagctaagagtaagatgat	8	6	1	5			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr3:97887798C>A	uc011bgu.1	+	1	255	c.255C>A	c.(253-255)TTC>TTA	p.F85L		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGAATAACTTCTTAGCTAAGA	0.393													12	121	---	---	---	---	PASS	A	97887798	A	A	97887798	3	1	49	1	0	0	0	0	1	0	0	0	11161	912	32	2	257	2	OR5H15	3	97887798	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	60853439	97887798	100134632	36	18773										
ST3GAL6	10402	broad.mit.edu	37	chr3	98487337	98487337	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgctgtcttcctctattatgTactgcattgcatattatggg	8	8	2	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr3:98487337T>A	uc003dsz.2	+	2	289	c.53T>A	c.(52-54)GTA>GAA	p.V18E	ST3GAL6_uc003dsy.2_5'UTR|ST3GAL6_uc003dta.2_5'UTR|ST3GAL6_uc003dtb.2_Intron|ST3GAL6_uc003dtc.2_Missense_Mutation_p.V18E|ST3GAL6_uc010hpd.2_Missense_Mutation_p.V71E	NM_006100	NP_006091	Q9Y274	SIA10_HUMAN	alpha2,3-sialyltransferase VI	18	Helical; Signal-anchor for type II membrane protein; (Potential).				amino sugar metabolic process|glycolipid metabolic process|protein glycosylation|protein lipoylation	integral to Golgi membrane	sialyltransferase activity			ovary(1)	1						CTCTATTATGTACTGCATTGC	0.393													16	93	---	---	---	---	PASS	A	98487337	A	A	98487337	3	1	49	1	0	0	0	0	1	0	0	0	15218	1638	57	5	55	5	ST3GAL6	3	98487337	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	599539	98487337	99535093	37	18774										
PLXND1	23129	broad.mit.edu	37	chr3	129281766	129281766	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	agcgagtccatgccacagccCtggaaggacacgttcaggtt	12	12	1	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr3:129281766C>A	uc003emx.2	-	27	4789	c.4689G>T	c.(4687-4689)CAG>CAT	p.Q1563H	PLXND1_uc011blb.1_Missense_Mutation_p.Q231H	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1563	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						TGCCACAGCCCTGGAAGGACA	0.597													3	23	---	---	---	---	PASS	A	129281766	A	A	129281766	3	1	49	1	0	0	0	0	1	0	0	0	12127	680	24	3	1128	3	PLXND1	3	129281766	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	30794429	129281766	68740664	38	18775										
PLXND1	23129	broad.mit.edu	37	chr3	129284822	129284822	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	agtagtgaggagaacaagctAattccctcttccatgttggg	11	8	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr3:129284822A>T	uc003emx.2	-	24	4330	c.4230T>A	c.(4228-4230)ATT>ATA	p.I1410I	PLXND1_uc011blb.1_Silent_p.I78I	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1410	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						AGAACAAGCTAATTCCCTCTT	0.547													5	25	---	---	---	---	PASS	T	129284822	T	T	129284822	2	4	49	1	0	0	0	0	0	0	0	1	12127	358	13	5		5	PLXND1	3	129284822	Silent	SNP	A	TCGA-22-5482-01A-01D-1632-08	3056	129284822	68737608	39	18776										
PLXND1	23129	broad.mit.edu	37	chr3	129290106	129290106	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cgttgctcagggccccggggGacgggcaggtgatgagggtg	21	9	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr3:129290106G>A	uc003emx.2	-	18	3477	c.3377C>T	c.(3376-3378)TCC>TTC	p.S1126F		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1126	Extracellular (Potential).|IPT/TIG 3.				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						GGCCCCGGGGGACGGGCAGGT	0.647													13	21	---	---	---	---	PASS	A	129290106	A	A	129290106	3	1	49	1	0	0	0	0	1	0	0	0	12127	1174	41	2	2476	2	PLXND1	3	129290106	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	5284	129290106	68732324	40	18777										
SAMD7	344658	broad.mit.edu	37	chr3	169644912	169644912	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aggcttcggagcagatttttGcaacctgtgatgaaaagaat	11	6	0	4			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr3:169644912G>T	uc003fgd.2	+	6	1129	c.862G>T	c.(862-864)GCA>TCA	p.A288S	SAMD7_uc003fge.2_Missense_Mutation_p.A288S|SAMD7_uc011bpo.1_Missense_Mutation_p.A189S	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	288										skin(1)	1	all_cancers(22;1.55e-22)|all_epithelial(15;2.41e-27)|all_lung(20;3.52e-17)|Lung NSC(18;1.44e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0106)			GCAGATTTTTGCAACCTGTGA	0.557													10	106	---	---	---	---	PASS	T	169644912	T	T	169644912	3	4	49	1	0	0	0	0	1	0	0	0	13824	1319	46	3	876	3	SAMD7	3	169644912	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	40354806	169644912	28377518	41	18778										
SPATA16	83893	broad.mit.edu	37	chr3	172634157	172634157	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	taggtagggaatggttgctaGctctgccattgcttgattaa	12	6	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr3:172634157G>T	uc003fin.3	-	9	1611	c.1453C>A	c.(1453-1455)CTA>ATA	p.L485I		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	485					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			ATGGTTGCTAGCTCTGCCATT	0.473													60	371	---	---	---	---	PASS	T	172634157	T	T	172634157	3	4	49	1	0	0	0	0	1	0	0	0	15000	962	34	3	268	3	SPATA16	3	172634157	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	2989245	172634157	25388273	42	18779										
YEATS2	55689	broad.mit.edu	37	chr3	183490318	183490318	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ccaaggcccaggttactgccGctggtcctcagaagagtgga	13	12	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr3:183490318G>T	uc003fly.2	+	16	2368	c.2173G>T	c.(2173-2175)GCT>TCT	p.A725S		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	725					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)			GGTTACTGCCGCTGGTCCTCA	0.507													42	25	---	---	---	---	PASS	T	183490318	T	T	183490318	3	4	49	1	0	0	0	0	1	0	0	0	17469	1087	38	1	2231	1	YEATS2	3	183490318	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	10856161	183490318	14532112	43	18780										
ACAP2	23527	broad.mit.edu	37	chr3	195027282	195027282	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ctataagcagtagcaatactGgtctgaacagccttaatcca	7	10	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr3:195027282G>T	uc003fun.3	-	13	1315	c.1074C>A	c.(1072-1074)ACC>ACA	p.T358T		NM_012287	NP_036419	Q15057	ACAP2_HUMAN	centaurin, beta 2	358	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)	2						TAGCAATACTGGTCTGAACAG	0.383													25	298	---	---	---	---	PASS	T	195027282	T	T	195027282	2	4	49	1	0	0	0	0	0	0	0	1	119	1335	47	3		3	ACAP2	3	195027282	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08	11536964	195027282	2995148	44	18781										
RGS12	6002	broad.mit.edu	37	chr4	3432376	3432376	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cagtccaggagagcagcgacAgcccgtccaccagcccgggc	13	17	0	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr4:3432376A>C	uc003ggw.2	+	17	4712	c.3808A>C	c.(3808-3810)AGC>CGC	p.S1270R	RGS12_uc003ggv.2_Missense_Mutation_p.S1270R|RGS12_uc003ggy.1_3'UTR|RGS12_uc003ggz.2_Missense_Mutation_p.S622R|RGS12_uc011bvs.1_3'UTR|RGS12_uc003gha.2_Missense_Mutation_p.S612R|RGS12_uc010icv.2_Missense_Mutation_p.S469R	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	1270						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GAGCAGCGACAGCCCGTCCAC	0.706													10	3	---	---	---	---	PASS	C	3432376	C	C	3432376	3	2	49	1	0	0	0	0	1	0	0	0	13295	188	7	5	3928	5	RGS12	4	3432376	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08		3432376	187721900	45	18782										
SORCS2	57537	broad.mit.edu	37	chr4	7727000	7727000	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ccgtcttctactggtggatcGgccacagcctgcaggtgcgc	13	14	2	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr4:7727000G>A	uc003gkb.3	+	20	2731	c.2731G>A	c.(2731-2733)GGC>AGC	p.G911S	SORCS2_uc011bwi.1_Missense_Mutation_p.G739S	NM_020777	NP_065828	Q96PQ0	SORC2_HUMAN	VPS10 domain receptor protein SORCS 2 precursor	911	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2						CTGGTGGATCGGCCACAGCCT	0.607													18	8	---	---	---	---	PASS	A	7727000	A	A	7727000	3	1	49	1	0	0	0	0	1	0	0	0	14931	1116	39	1	2809	1	SORCS2	4	7727000	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	4294624	7727000	183427276	46	18783										
SEPSECS	51091	broad.mit.edu	37	chr4	25160666	25160666	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gaaattgttgctgtccatgaTtgcaagttcatgtaaaaaga	9	5	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr4:25160666T>A	uc003grg.2	-	2	391	c.178A>T	c.(178-180)ATC>TTC	p.I60F	uc003grj.2_5'Flank|PI4K2B_uc011bxs.1_5'Flank|SEPSECS_uc003gri.2_Missense_Mutation_p.I59F|SEPSECS_uc003grh.2_Intron	NM_153825	NP_722547	Q9HD40	SPCS_HUMAN	Sep (O-phosphoserine) tRNA:Sec (selenocysteine)	60					selenocysteine incorporation	cytoplasm|nucleus	pyridoxal phosphate binding|transferase activity, transferring selenium-containing groups|tRNA binding				0		Breast(46;0.173)			Pyridoxal Phosphate(DB00114)	CTGTCCATGATTGCAAGTTCA	0.378													42	20	---	---	---	---	PASS	A	25160666	A	A	25160666	3	1	49	1	0	0	0	0	1	0	0	0	14058	1493	52	5	1367	5	SEPSECS	4	25160666	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	17433666	25160666	165993610	47	18784										
UNC5C	8633	broad.mit.edu	37	chr4	96222807	96222807	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttgtggtacccgcggagctcCaggccacacactggcaccag	12	15	0	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr4:96222807C>T	uc003htp.1	-	3	594	c.440G>A	c.(439-441)TGG>TAG	p.W147*	UNC5C_uc010ilc.1_Nonsense_Mutation_p.W147*|UNC5C_uc003htq.2_Nonsense_Mutation_p.W147*	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	147	Extracellular (Potential).|Ig-like.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		CGCGGAGCTCCAGGCCACACA	0.507													34	21	---	---	---	---	PASS	T	96222807	T	T	96222807	4	4	49	1	0	0	0	0	0	1	0	0	16990	595	21	3	2411	3	UNC5C	4	96222807	Nonsense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	71062141	96222807	94931469	48	18785										
EGF	1950	broad.mit.edu	37	chr4	110915996	110915996	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ggtactgcctccatgatggtGtgtgcatgtatattgaagca	12	7	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr4:110915996G>T	uc003hzy.3	+	20	3417	c.2965G>T	c.(2965-2967)GTG>TTG	p.V989L	EGF_uc011cfu.1_Missense_Mutation_p.V947L|EGF_uc011cfv.1_Missense_Mutation_p.V948L|EGF_uc010imk.2_Missense_Mutation_p.V137L	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	989	EGF-like 9.|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	CCATGATGGTGTGTGCATGTA	0.468													17	26	---	---	---	---	PASS	T	110915996	T	T	110915996	3	4	49	1	0	0	0	0	1	0	0	0	4962	1377	48	3	3043	3	EGF	4	110915996	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	14693189	110915996	80238280	49	18786										
CAPSL	133690	broad.mit.edu	37	chr5	35910625	35910625	+	Missense_Mutation	SNP	T	C	C													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	caagggttcgattattatcgTcatccataattctaaacact							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr5:35910625T>C	uc003jjt.1	-	3	253	c.158A>G	c.(157-159)GAC>GGC	p.D53G	CAPSL_uc003jju.1_Missense_Mutation_p.D53G	NM_001042625	NP_001036090	Q8WWF8	CAPSL_HUMAN	calcyphosine-like	53	EF-hand 1.|1 (Potential).					cytoplasm	calcium ion binding			skin(1)	1	all_lung(31;0.000268)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.167)|Colorectal(62;0.202)			ATTATTATCGTCATCCATAAT	0.318													14	58	---	---	---	---	PASS	C	35910625	C	C	35910625	3	2	49	1	0	0	0	0	1	0	0	0	2639	1667	58	5	480	5	CAPSL	5	35910625	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08		35910625	145004635	50	18787	427	2								
CAPSL	133690	broad.mit.edu	37	chr5	35910626	35910626	+	Missense_Mutation	SNP	C	A	A													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aagggttcgattattatcgtCatccataattctaaacactc							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr5:35910626C>A	uc003jjt.1	-	3	252	c.157G>T	c.(157-159)GAC>TAC	p.D53Y	CAPSL_uc003jju.1_Missense_Mutation_p.D53Y	NM_001042625	NP_001036090	Q8WWF8	CAPSL_HUMAN	calcyphosine-like	53	EF-hand 1.|1 (Potential).					cytoplasm	calcium ion binding			skin(1)	1	all_lung(31;0.000268)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.167)|Colorectal(62;0.202)			TTATTATCGTCATCCATAATT	0.313													13	56	---	---	---	---	PASS	A	35910626	A	A	35910626	3	1	49	1	0	0	0	0	1	0	0	0	2639	826	29	2	481	2	CAPSL	5	35910626	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	1	35910626	145004634	51	18788	427	2								
CENPK	64105	broad.mit.edu	37	chr5	64850711	64850711	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cccacatctgtagtactatcCggatctagatcctcctgatt	6	13	2	2	rs75497175	byFrequency	TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr5:64850711C>A	uc003jts.2	-	3	236	c.24G>T	c.(22-24)CCG>CCT	p.P8P	CENPK_uc003jtt.2_5'UTR|CENPK_uc003jtu.2_Silent_p.P8P	NM_022145	NP_071428	Q9BS16	CENPK_HUMAN	SoxLZ/Sox6 leucine zipper binding protein	8					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm					0		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00466)		TAGTACTATCCGGATCTAGAT	0.274													40	63	---	---	---	---	PASS	A	64850711	A	A	64850711	2	1	49	1	0	0	0	0	0	0	0	1	3235	639	23	1		1	CENPK	5	64850711	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	28940085	64850711	116064549	52	18789										
SV2C	22987	broad.mit.edu	37	chr5	75427860	75427860	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tatgagggggagtatcagggCatccccagtatgaaccaagc	13	9	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr5:75427860C>T	uc003kei.1	+	2	419	c.285C>T	c.(283-285)GGC>GGT	p.G95G		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	95	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		AGTATCAGGGCATCCCCAGTA	0.542													4	6	---	---	---	---	PASS	T	75427860	T	T	75427860	2	4	49	1	0	0	0	0	0	0	0	1	15416	697	25	3		3	SV2C	5	75427860	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	10577149	75427860	105487400	53	18790										
RASGRF2	5924	broad.mit.edu	37	chr5	80363979	80363979	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgaagatcaagacacagaaaTcgaaaggcttaaatcagagg	10	6	2	5			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr5:80363979T>C	uc003kha.1	+	3	524	c.524T>C	c.(523-525)ATC>ACC	p.I175T	RASGRF2_uc011ctn.1_RNA|RASGRF2_uc003khb.1_5'Flank	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	175	Potential.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		GACACAGAAATCGAAAGGCTT	0.383													24	22	---	---	---	---	PASS	C	80363979	C	C	80363979	3	2	49	1	0	0	0	0	1	0	0	0	13073	1435	50	5	534	5	RASGRF2	5	80363979	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	4936119	80363979	100551281	54	18791										
RASA1	5921	broad.mit.edu	37	chr5	86679553	86679553	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttttgtttttcttcgactcaTctgtcctgccatcctgaatc	5	12	3	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr5:86679553T>A	uc003kiw.2	+	21	2832	c.2714T>A	c.(2713-2715)ATC>AAC	p.I905N	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Missense_Mutation_p.I728N|RASA1_uc011ctv.1_Missense_Mutation_p.I738N|RASA1_uc011ctw.1_Missense_Mutation_p.I739N|RASA1_uc010jaw.2_Missense_Mutation_p.I727N	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	905	Ras-GAP.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		CTTCGACTCATCTGTCCTGCC	0.284													16	13	---	---	---	---	PASS	A	86679553	A	A	86679553	3	1	49	1	0	0	0	0	1	0	0	0	13060	1435	50	5	2808	5	RASA1	5	86679553	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	6315574	86679553	94235707	55	18792										
KCNN2	3781	broad.mit.edu	37	chr5	113831669	113831669	+	Silent	SNP	G	T	T													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gagaagaggattgttaccctGgaaacaaaactagagacttt							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr5:113831669G>T	uc003kqo.2	+	8	1987	c.1530G>T	c.(1528-1530)CTG>CTT	p.L510L	KCNN2_uc003kqp.2_Silent_p.L162L|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	510						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		TTGTTACCCTGGAAACAAAAC	0.443													27	54	---	---	---	---	PASS	T	113831669	T	T	113831669	2	4	49	1	0	0	0	0	0	0	0	1	8079	1335	47	3		3	KCNN2	5	113831669	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08	27152116	113831669	67083591	56	18793	428	2								
KCNN2	3781	broad.mit.edu	37	chr5	113831670	113831670	+	Nonsense_Mutation	SNP	G	T	T													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	agaagaggattgttaccctgGaaacaaaactagagactttg							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr5:113831670G>T	uc003kqo.2	+	8	1988	c.1531G>T	c.(1531-1533)GAA>TAA	p.E511*	KCNN2_uc003kqp.2_Nonsense_Mutation_p.E163*|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	511						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		TGTTACCCTGGAAACAAAACT	0.443													28	51	---	---	---	---	PASS	T	113831670	T	T	113831670	4	4	49	1	0	0	0	0	0	1	0	0	8079	1175	41	2	1561	2	KCNN2	5	113831670	Nonsense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	1	113831670	67083590	57	18794	428	2								
PCDHB10	56126	broad.mit.edu	37	chr5	140572876	140572876	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aggctctgtatgagacccagGctccagaaaacagccccatt	9	13	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr5:140572876G>A	uc003lix.2	+	1	925	c.751G>A	c.(751-753)GCT>ACT	p.A251T		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	251	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGAGACCCAGGCTCCAGAAAA	0.498													22	21	---	---	---	---	PASS	A	140572876	A	A	140572876	3	1	49	1	0	0	0	0	1	0	0	0	11535	1203	42	3	753	3	PCDHB10	5	140572876	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	26741206	140572876	40342384	58	18795										
HIST1H2BH	8345	broad.mit.edu	37	chr6	26252236	26252236	+	Frame_Shift_Del	DEL	A	-	-													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ccgagggcactaaggccgtcAccaagtacaccagctccaaa							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr6:26252236delA	uc003nhh.2	+	1	358	c.358delA	c.(358-360)ACCfs	p.T120fs	HIST1H3F_uc003nhg.1_5'Flank	NM_003524	NP_003515	Q93079	H2B1H_HUMAN	histone cluster 1, H2bh	120					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)	3						TAAGGCCGTCACCAAGTACAC	0.537													33	37	---	---	---	---		-	26252236	-	-	26252236	7	5	49	1	0	1	0	1	0	0	0	0	7147	159	6	0	360	0	HIST1H2BH	6	26252236	Frame_Shift_Del	DEL	A	TCGA-22-5482-01A-01D-1632-08		26252236	144862831	59	18796										
ATF6B	1388	broad.mit.edu	37	chr6	32085724	32085724	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttcaactccctgaactggctCttgctctgagaaccccagca	7	15	3	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr6:32085724C>A	uc003nzn.2	-	12	1369	c.1336G>T	c.(1336-1338)GAG>TAG	p.E446*	TNXB_uc010jts.1_5'Flank|ATF6B_uc003nzm.1_Nonsense_Mutation_p.E19*|ATF6B_uc003nzo.2_Nonsense_Mutation_p.E443*|ATF6B_uc003nzp.1_Nonsense_Mutation_p.E135*	NM_004381	NP_004372	Q99941	ATF6B_HUMAN	activating transcription factor 6 beta isoform	446	Lumenal (Potential).				response to unfolded protein|signal transduction	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TGAACTGGCTCTTGCTCTGAG	0.607													17	15	---	---	---	---	PASS	A	32085724	A	A	32085724	4	1	49	1	0	0	0	0	0	1	0	0	1085	922	32	2	803	2	ATF6B	6	32085724	Nonsense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	5833488	32085724	139029343	60	18797										
DNAH8	1769	broad.mit.edu	37	chr6	38830132	38830132	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gacctgctggcactggcaaaAcagaaaccacaaaagacatg	9	11	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr6:38830132A>G	uc003ooe.1	+	42	6157	c.5557A>G	c.(5557-5559)ACA>GCA	p.T1853A		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CACTGGCAAAACAGAAACCAC	0.463													41	42	---	---	---	---	PASS	G	38830132	G	G	38830132	3	3	49	1	0	0	0	0	1	0	0	0	4607	43	2	5	5715	5	DNAH8	6	38830132	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08	6744408	38830132	132284935	61	18798										
LRFN2	57497	broad.mit.edu	37	chr6	40360526	40360526	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tggtgaagaactgggcgcagCccacgatgttggtggccgtg	17	9	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr6:40360526C>A	uc003oph.1	-	3	1991	c.1526G>T	c.(1525-1527)GGC>GTC	p.G509V		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	509	Fibronectin type-III.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					CTGGGCGCAGCCCACGATGTT	0.597													9	12	---	---	---	---	PASS	A	40360526	A	A	40360526	3	1	49	1	0	0	0	0	1	0	0	0	8938	739	26	3	847	3	LRFN2	6	40360526	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	1530394	40360526	130754541	62	18799										
ASCC3	10973	broad.mit.edu	37	chr6	101095150	101095150	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cttatccacagtaagcttttTttcttctaatcttgttagga	5	8	3	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr6:101095150T>A	uc003pqk.2	-	21	3759	c.3430A>T	c.(3430-3432)AAA>TAA	p.K1144*	ASCC3_uc011eai.1_Nonsense_Mutation_p.K1046*	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1144	SEC63 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		GTAAGCTTTTTTTCTTCTAAT	0.353													23	53	---	---	---	---	PASS	A	101095150	A	A	101095150	4	1	49	1	0	0	0	0	0	1	0	0	1033	1850	64	5	3266	5	ASCC3	6	101095150	Nonsense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	60734624	101095150	70019917	63	18800										
AIM1	202	broad.mit.edu	37	chr6	106992566	106992566	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cttcagtctttacgacctatAttaggtgtaagtaaaggaca	8	7	2	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr6:106992566A>G	uc003prh.2	+	10	4423	c.3936A>G	c.(3934-3936)ATA>ATG	p.I1312M	AIM1_uc003pri.2_Missense_Mutation_p.I116M	NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	1312	Beta/gamma crystallin 'Greek key' 6.						sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		TACGACCTATATTAGGTGTAA	0.383													24	55	---	---	---	---	PASS	G	106992566	G	G	106992566	3	3	49	1	0	0	0	0	1	0	0	0	430	439	16	5	3974	5	AIM1	6	106992566	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08	5897416	106992566	64122501	64	18801										
ROS1	6098	broad.mit.edu	37	chr6	117704610	117704610	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aatccaccaccatgtcattcAccaatagcttcacgtgggta	6	13	3	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr6:117704610A>G	uc003pxp.1	-	16	2565	c.2366T>C	c.(2365-2367)GTG>GCG	p.V789A	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	789	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		CATGTCATTCACCAATAGCTT	0.428			T	GOPC|ROS1	glioblastoma|NSCLC								46	107	---	---	---	---	PASS	G	117704610	G	G	117704610	3	3	49	1	0	0	0	0	1	0	0	0	13531	159	6	5	4789	5	ROS1	6	117704610	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08	10712044	117704610	53410457	65	18802										
TMEM200A	114801	broad.mit.edu	37	chr6	130762050	130762050	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	accaaaatcatacacatgagGgatatctattccacagtcat	5	10	3	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr6:130762050G>C	uc003qca.2	+	3	1354	c.483G>C	c.(481-483)AGG>AGC	p.R161S	TMEM200A_uc010kfh.2_Missense_Mutation_p.R161S|TMEM200A_uc010kfi.2_Missense_Mutation_p.R161S|TMEM200A_uc003qcb.2_Missense_Mutation_p.R161S	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	161	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		TACACATGAGGGATATCTATT	0.408													16	51	---	---	---	---	PASS	C	130762050	C	C	130762050	3	2	49	1	0	0	0	0	1	0	0	0	16120	1223	43	4	485	4	TMEM200A	6	130762050	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	13057440	130762050	40353017	66	18803										
VIP	7432	broad.mit.edu	37	chr6	153073419	153073419	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cagggcaccttctgctctcaGgtaagttccctttcaattca	7	13	4	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr6:153073419G>T	uc003qpe.2	+	2	279	c.107G>T	c.(106-108)AGG>ATG	p.R36M	VIP_uc003qpf.2_Missense_Mutation_p.R36M|VIP_uc010kjd.2_Missense_Mutation_p.R36M	NM_003381	NP_003372	P01282	VIP_HUMAN	vasoactive intestinal peptide isoform 1	36					body fluid secretion|G-protein coupled receptor protein signaling pathway|positive regulation of cell proliferation	extracellular region	neuropeptide hormone activity				0		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;4.5e-11)|BRCA - Breast invasive adenocarcinoma(81;0.144)		TCTGCTCTCAGGTAAGTTCCC	0.418													13	33	---	---	---	---	PASS	T	153073419	T	T	153073419	3	4	49	1	0	0	0	0	1	0	0	0	17164	1014	35	3	109	3	VIP	6	153073419	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	22311369	153073419	18041648	67	18804										
THBS2	7058	broad.mit.edu	37	chr6	169623439	169623439	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aatttgggtggtccctttggGatccaaggggaccatctgga	14	8	1	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr6:169623439G>A	uc003qwt.2	-	19	3153	c.2905C>T	c.(2905-2907)CCC>TCC	p.P969S		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	969	TSP C-terminal.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		GTCCCTTTGGGATCCAAGGGG	0.502													18	53	---	---	---	---	PASS	A	169623439	A	A	169623439	3	1	49	1	0	0	0	0	1	0	0	0	15851	1174	41	2	633	2	THBS2	6	169623439	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	16550020	169623439	1491628	68	18805										
AOAH	313	broad.mit.edu	37	chr7	36656025	36656025	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gtgatccattcaggagagatGtgaaaatgagccccagctga	12	8	1	5			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr7:36656025G>T	uc003tfh.3	-	11	1208	c.807C>A	c.(805-807)CAC>CAA	p.H269Q	AOAH_uc010kxf.2_Missense_Mutation_p.H269Q|AOAH_uc011kba.1_Missense_Mutation_p.H237Q	NM_001637	NP_001628	P28039	AOAH_HUMAN	acyloxyacyl hydrolase precursor	269					inflammatory response|lipid metabolic process	extracellular region	acyloxyacyl hydrolase activity|lipoprotein lipase activity			skin(1)	1						CAGGAGAGATGTGAAAATGAG	0.438													10	14	---	---	---	---	PASS	T	36656025	T	T	36656025	3	4	49	1	0	0	0	0	1	0	0	0	726	1368	48	3	1305	3	AOAH	7	36656025	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08		36656025	122482638	69	18806										
MAGI2	9863	broad.mit.edu	37	chr7	77975258	77975258	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cctcggaaacctggggcctgCaggggctttgttccaagttc	13	12	0	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr7:77975258C>T	uc003ugx.2	-	8	1460	c.1206G>A	c.(1204-1206)CTG>CTA	p.L402L	MAGI2_uc003ugy.2_Silent_p.L402L|MAGI2_uc010ldx.1_Silent_p.L11L|MAGI2_uc010ldy.1_Silent_p.L11L|MAGI2_uc011kgr.1_Silent_p.L234L|MAGI2_uc011kgs.1_Silent_p.L239L|RPL13AP17_uc010ldz.2_5'Flank	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	402						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				CTGGGGCCTGCAGGGGCTTTG	0.443													29	70	---	---	---	---	PASS	T	77975258	T	T	77975258	2	4	49	1	0	0	0	0	0	0	0	1	9191	697	25	3		3	MAGI2	7	77975258	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	41319233	77975258	81163405	70	18807										
MGC26647	219557	broad.mit.edu	37	chr7	88423638	88423638	+	Silent	SNP	G	A	A													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gatttgttctgggaggagtaGgtcaggtgcaacttggtgta							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr7:88423638G>A	uc003ujv.2	-	2	801	c.619C>T	c.(619-621)CTA>TTA	p.L207L	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	207											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			GGGAGGAGTAGGTCAGGTGCA	0.408													45	45	---	---	---	---	PASS	A	88423638	A	A	88423638	2	1	49	1	0	0	0	0	0	0	0	1	9550	991	35	3		3	MGC26647	7	88423638	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08	10448380	88423638	70715025	71	18808	429	2								
MGC26647	219557	broad.mit.edu	37	chr7	88423646	88423646	+	Missense_Mutation	SNP	G	A	A													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ctgggaggagtaggtcaggtGcaacttggtgtaagttatcg							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr7:88423646G>A	uc003ujv.2	-	2	793	c.611C>T	c.(610-612)GCA>GTA	p.A204V	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	204											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			TAGGTCAGGTGCAACTTGGTG	0.403													45	49	---	---	---	---	PASS	A	88423646	A	A	88423646	3	1	49	1	0	0	0	0	1	0	0	0	9550	1319	46	3	154	3	MGC26647	7	88423646	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	8	88423646	70715017	72	18809	429	2								
PPP1R9A	55607	broad.mit.edu	37	chr7	94827677	94827677	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	acagatttgttattgggcggGaaaaaccaggacaagtgagc	13	6	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr7:94827677G>T	uc003unp.2	+	6	2053	c.1771G>T	c.(1771-1773)GAA>TAA	p.E591*	PPP1R9A_uc010lfj.2_Nonsense_Mutation_p.E591*|PPP1R9A_uc011kif.1_Nonsense_Mutation_p.E591*|PPP1R9A_uc003unq.2_Nonsense_Mutation_p.E591*|PPP1R9A_uc011kig.1_Nonsense_Mutation_p.E591*	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	591	PDZ.					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			TATTGGGCGGGAAAAACCAGG	0.318										HNSCC(28;0.073)			20	30	---	---	---	---	PASS	T	94827677	T	T	94827677	4	4	49	1	0	0	0	0	0	1	0	0	12378	1175	41	2	1789	2	PPP1R9A	7	94827677	Nonsense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	6404031	94827677	64310986	73	18810										
PNPLA8	50640	broad.mit.edu	37	chr7	108119674	108119674	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	acattagaaagtttagttttCaagcttgtgtatgttaccgt	8	5	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr7:108119674C>T	uc003vff.1	-	11	2435	c.2028G>A	c.(2026-2028)TTG>TTA	p.L676L	PNPLA8_uc003vfg.1_RNA|PNPLA8_uc003vfh.1_Silent_p.L676L|PNPLA8_uc003vfi.1_Silent_p.L576L|PNPLA8_uc003vfj.1_Silent_p.L676L|PNPLA8_uc003vfk.1_Silent_p.L576L	NM_015723	NP_056538	Q9NP80	PLPL8_HUMAN	patatin-like phospholipase domain containing 8	676					fatty acid metabolic process|lipid catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|membrane fraction|perinuclear region of cytoplasm|peroxisomal membrane	ATP binding|calcium-independent phospholipase A2 activity|lysophospholipase activity			breast(2)	2						GTTTAGTTTTCAAGCTTGTGT	0.393													29	40	---	---	---	---	PASS	T	108119674	T	T	108119674	2	4	49	1	0	0	0	0	0	0	0	1	12171	825	29	2		2	PNPLA8	7	108119674	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	13291997	108119674	51018989	74	18811										
WNT2	7472	broad.mit.edu	37	chr7	116955272	116955272	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	caatcaaaaatgcctttgctGtccttggcgcttcccatctt	6	13	2	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr7:116955272G>A	uc003viz.2	-	3	741	c.441C>T	c.(439-441)GAC>GAT	p.D147D	WNT2_uc003vja.2_Silent_p.D51D	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	147					atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		TGCCTTTGCTGTCCTTGGCGC	0.438													31	47	---	---	---	---	PASS	A	116955272	A	A	116955272	2	1	49	1	0	0	0	0	0	0	0	1	17383	1368	48	3		3	WNT2	7	116955272	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08	8835598	116955272	42183391	75	18812										
DPP6	1804	broad.mit.edu	37	chr7	154585838	154585838	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ccaccagcaccaaggtcgccGtgacctggctgaaccgggcg	13	16	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr7:154585838G>T	uc003wlk.2	+	11	1315	c.1186G>T	c.(1186-1188)GTG>TTG	p.V396L	DPP6_uc003wli.2_Missense_Mutation_p.V332L|DPP6_uc003wlm.2_Missense_Mutation_p.V334L|DPP6_uc011kvq.1_Missense_Mutation_p.V289L	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	396	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CAAGGTCGCCGTGACCTGGCT	0.647													6	10	---	---	---	---	PASS	T	154585838	T	T	154585838	3	4	49	1	0	0	0	0	1	0	0	0	4730	1145	40	1	1344	1	DPP6	7	154585838	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	37630566	154585838	4552825	76	18813										
MNX1	3110	broad.mit.edu	37	chr7	156798434	156798434	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gccccagcagctcctcggctCccggctcctccgcgccgccc	10	24	0	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr7:156798434C>T	uc003wnd.1	-	3	1289	c.986G>A	c.(985-987)GGA>GAA	p.G329E	MNX1_uc003wmz.2_Intron|MNX1_uc003wna.2_Intron|MNX1_uc010lqq.1_Missense_Mutation_p.G122E|MNX1_uc003wnc.1_Missense_Mutation_p.G117E|MNX1_uc010lqr.1_RNA	NM_005515	NP_005506	P50219	MNX1_HUMAN	motor neuron and pancreas homeobox 1 isoform 1	329					humoral immune response|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTCCTCGGCTCCCGGCTCCTC	0.612									Currarino_syndrome				7	13	---	---	---	---	PASS	T	156798434	T	T	156798434	3	4	49	1	0	0	0	0	1	0	0	0	9679	855	30	2	223	2	MNX1	7	156798434	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	2212596	156798434	2340229	77	18814										
XKR6	286046	broad.mit.edu	37	chr8	10756095	10756095	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gtccgcccttccttgacgttAaaccagcagaaaatgtacac	7	13	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:10756095A>G	uc003wtk.1	-	3	1320	c.1293T>C	c.(1291-1293)TTT>TTC	p.F431F		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	431	Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		CCTTGACGTTAAACCAGCAGA	0.463													15	13	---	---	---	---	PASS	G	10756095	G	G	10756095	2	3	49	1	0	0	0	0	0	0	0	1	17432	359	13	5		5	XKR6	8	10756095	Silent	SNP	A	TCGA-22-5482-01A-01D-1632-08		10756095	135607927	78	18815										
UNC5D	137970	broad.mit.edu	37	chr8	35541202	35541202	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	acctgcatggcagccaacatCgtggctaagaggagaagcct	12	11	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:35541202C>T	uc003xjr.1	+	5	1036	c.708C>T	c.(706-708)ATC>ATT	p.I236I	UNC5D_uc003xjs.1_Silent_p.I231I|UNC5D_uc003xjt.1_Silent_p.I5I	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	236	Extracellular (Potential).|Ig-like C2-type.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CAGCCAACATCGTGGCTAAGA	0.532													13	19	---	---	---	---	PASS	T	35541202	T	T	35541202	2	4	49	1	0	0	0	0	0	0	0	1	16992	874	31	2		2	UNC5D	8	35541202	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	24785107	35541202	110822820	79	18816										
NKAIN3	286183	broad.mit.edu	37	chr8	63659621	63659621	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cgattacacgtacgtctctgTcacaggctgcatcgttgact	9	12	2	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:63659621T>A	uc010lyq.1	+	4	536	c.404T>A	c.(403-405)GTC>GAC	p.V135D		NM_173688	NP_775959	Q8N8D7	NKAI3_HUMAN	Na+/K+ transporting ATPase interacting 3	135						integral to membrane|plasma membrane					0	Breast(64;0.127)	Lung NSC(129;0.187)				TACGTCTCTGTCACAGGCTGC	0.498													11	23	---	---	---	---	PASS	A	63659621	A	A	63659621	3	1	49	1	0	0	0	0	1	0	0	0	10437	1667	58	5	418	5	NKAIN3	8	63659621	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	28118419	63659621	82704401	80	18817										
NCOA2	10499	broad.mit.edu	37	chr8	71060681	71060681	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	attgactattctgcaaatcaTccaaaatctcctccaagttg	4	11	3	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:71060681T>A	uc003xyn.1	-	12	2594	c.2432A>T	c.(2431-2433)GAT>GTT	p.D811V	NCOA2_uc011lfb.1_5'UTR	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	811					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			CTGCAAATCATCCAAAATCTC	0.478			T	RUNXBP2	AML						OREG0018819	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	38	---	---	---	---	PASS	A	71060681	A	A	71060681	3	1	49	1	0	0	0	0	1	0	0	0	10229	1435	50	5	2010	5	NCOA2	8	71060681	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	7401060	71060681	75303341	81	18818										
ZFHX4	79776	broad.mit.edu	37	chr8	77618090	77618090	+	Missense_Mutation	SNP	C	A	A													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gacagttcagccactcctcaCcagcatggctttaccccgag							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:77618090C>A	uc003yav.2	+	2	2154	c.1767C>A	c.(1765-1767)CAC>CAA	p.H589Q	ZFHX4_uc003yat.1_Missense_Mutation_p.H589Q|ZFHX4_uc003yau.1_Missense_Mutation_p.H589Q|ZFHX4_uc003yaw.1_Missense_Mutation_p.H589Q	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	589						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCACTCCTCACCAGCATGGCT	0.582										HNSCC(33;0.089)			10	46	---	---	---	---	PASS	A	77618090	A	A	77618090	3	1	49	1	0	0	0	0	1	0	0	0	17632	506	18	3	1769	3	ZFHX4	8	77618090	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	6557409	77618090	68745932	82	18819	430	2								
ZFHX4	79776	broad.mit.edu	37	chr8	77618091	77618091	+	Missense_Mutation	SNP	C	A	A													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	acagttcagccactcctcacCagcatggctttaccccgagt							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:77618091C>A	uc003yav.2	+	2	2155	c.1768C>A	c.(1768-1770)CAG>AAG	p.Q590K	ZFHX4_uc003yat.1_Missense_Mutation_p.Q590K|ZFHX4_uc003yau.1_Missense_Mutation_p.Q590K|ZFHX4_uc003yaw.1_Missense_Mutation_p.Q590K	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	590						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CACTCCTCACCAGCATGGCTT	0.582										HNSCC(33;0.089)			11	47	---	---	---	---	PASS	A	77618091	A	A	77618091	3	1	49	1	0	0	0	0	1	0	0	0	17632	595	21	3	1770	3	ZFHX4	8	77618091	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	1	77618091	68745931	83	18820	430	2								
DCAF4L2	138009	broad.mit.edu	37	chr8	88886097	88886097	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gttggcgaatctgaggaaacCtagctggttctttcgtagca	12	8	2	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:88886097C>A	uc003ydz.2	-	1	200	c.103G>T	c.(103-105)GGT>TGT	p.G35C		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	35										ovary(1)	1						CTGAGGAAACCTAGCTGGTTC	0.517													22	69	---	---	---	---	PASS	A	88886097	A	A	88886097	3	1	49	1	0	0	0	0	1	0	0	0	4272	681	24	3	1088	3	DCAF4L2	8	88886097	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	11268006	88886097	57477925	84	18821										
TM7SF4	81501	broad.mit.edu	37	chr8	105367395	105367395	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ggagaagtcaaaagacggctGagtctctatcttacaaaggt	11	7	3	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:105367395G>C	uc003ylx.1	+	3	1369	c.1320G>C	c.(1318-1320)CTG>CTC	p.L440L		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	440	Cytoplasmic.				osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			AAAGACGGCTGAGTCTCTATC	0.473													10	39	---	---	---	---	PASS	C	105367395	C	C	105367395	2	2	49	1	0	0	0	0	0	0	0	1	15973	1277	45	2		2	TM7SF4	8	105367395	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08	16481298	105367395	40996627	85	18822										
PKHD1L1	93035	broad.mit.edu	37	chr8	110455259	110455259	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ggctcactccatttttctccAaggagtcattaatgttttac	6	10	3	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:110455259A>C	uc003yne.2	+	36	4582	c.4478A>C	c.(4477-4479)CAA>CCA	p.Q1493P		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1493	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ATTTTTCTCCAAGGAGTCATT	0.408										HNSCC(38;0.096)			10	193	---	---	---	---	PASS	C	110455259	C	C	110455259	3	2	49	1	0	0	0	0	1	0	0	0	11972	130	5	5	4620	5	PKHD1L1	8	110455259	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08	5087864	110455259	35908763	86	18823										
CSMD3	114788	broad.mit.edu	37	chr8	113308094	113308094	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ggagctgaccagaccaattgTgatcctgttgacatatcctc	9	11	0	4			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:113308094T>C	uc003ynu.2	-	54	8741	c.8582A>G	c.(8581-8583)CAC>CGC	p.H2861R	CSMD3_uc003yns.2_Missense_Mutation_p.H2063R|CSMD3_uc003ynt.2_Missense_Mutation_p.H2821R|CSMD3_uc011lhx.1_Missense_Mutation_p.H2692R	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2861	Extracellular (Potential).|Sushi 18.					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						AGACCAATTGTGATCCTGTTG	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			18	25	---	---	---	---	PASS	C	113308094	C	C	113308094	3	2	49	1	0	0	0	0	1	0	0	0	3946	1696	59	5	2613	5	CSMD3	8	113308094	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	2852835	113308094	33055928	87	18824										
CSMD3	114788	broad.mit.edu	37	chr8	113326230	113326230	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgcttgttatattaaaagcaGatgaataatccccactgagg	8	7	0	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:113326230G>A	uc003ynu.2	-	49	7760	c.7601C>T	c.(7600-7602)TCT>TTT	p.S2534F	CSMD3_uc003yns.2_Missense_Mutation_p.S1736F|CSMD3_uc003ynt.2_Missense_Mutation_p.S2494F|CSMD3_uc011lhx.1_Missense_Mutation_p.S2430F|CSMD3_uc003ynw.1_Missense_Mutation_p.S245F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2534	CUB 14.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ATTAAAAGCAGATGAATAATC	0.333										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	56	---	---	---	---	PASS	A	113326230	A	A	113326230	3	1	49	1	0	0	0	0	1	0	0	0	3946	942	33	2	3614	2	CSMD3	8	113326230	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	18136	113326230	33037792	88	18825										
SLC45A4	57210	broad.mit.edu	37	chr8	142228546	142228546	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gcttcgtgtccaccctggtgTagccgccgagggcgtctttt	13	13	1	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:142228546T>A	uc003ywd.1	-	4	1348	c.1040A>T	c.(1039-1041)TAC>TTC	p.Y347F	SLC45A4_uc003ywc.1_Missense_Mutation_p.Y347F|SLC45A4_uc010meq.1_Missense_Mutation_p.Y345F	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	398					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|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;0.0493)			CACCCTGGTGTAGCCGCCGAG	0.632													17	42	---	---	---	---	PASS	A	142228546	A	A	142228546	3	1	49	1	0	0	0	0	1	0	0	0	14643	1638	57	5	1376	5	SLC45A4	8	142228546	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	28902316	142228546	4135476	89	18826										
CYC1	1537	broad.mit.edu	37	chr8	145151539	145151539	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tcacgggctactgcgagccaCccaccggggtgtcactgcgg	14	15	2	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr8:145151539C>G	uc003zaz.3	+	5	707	c.664C>G	c.(664-666)CCC>GCC	p.P222A	CYC1_uc003zay.2_Missense_Mutation_p.P163A	NM_001916	NP_001907	P08574	CY1_HUMAN	cytochrome c-1	222					respiratory electron transport chain|transport	cell junction|integral to membrane|mitochondrial inner membrane|respiratory chain	electron transporter, transferring electrons from CoQH2-cytochrome c reductase complex and cytochrome c oxidase complex activity|heme binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;8.71e-40)|all cancers(56;3e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CTGCGAGCCACCCACCGGGGT	0.572													28	46	---	---	---	---	PASS	G	145151539	G	G	145151539	3	3	49	1	0	0	0	0	1	0	0	0	4135	507	18	4	682	4	CYC1	8	145151539	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	2922993	145151539	1212483	90	18827										
TAF1L	138474	broad.mit.edu	37	chr9	32630711	32630711	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	atgctcatcatactcagtaaTtgtctggtaacagatgttca	7	8	5	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr9:32630711T>C	uc003zrg.1	-	1	4957	c.4867A>G	c.(4867-4869)ATT>GTT	p.I1623V	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1623					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TACTCAGTAATTGTCTGGTAA	0.398													35	29	---	---	---	---	PASS	C	32630711	C	C	32630711	3	2	49	1	0	0	0	0	1	0	0	0	15520	1493	52	5	617	5	TAF1L	9	32630711	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08		32630711	108582720	91	18828										
VPS13A	23230	broad.mit.edu	37	chr9	79971682	79971682	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	agaaggcaagatggaagccaAtgagtgtaaagcacactgag	13	6	0	4			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr9:79971682A>G	uc004akr.2	+	55	7965	c.7705A>G	c.(7705-7707)ATG>GTG	p.M2569V	VPS13A_uc004akp.3_Missense_Mutation_p.M2569V|VPS13A_uc004akq.3_Missense_Mutation_p.M2569V|VPS13A_uc004aks.2_Missense_Mutation_p.M2530V	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2569	TPR 7.				Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ATGGAAGCCAATGAGTGTAAA	0.343													21	22	---	---	---	---	PASS	G	79971682	G	G	79971682	3	3	49	1	0	0	0	0	1	0	0	0	17186	101	4	5	7923	5	VPS13A	9	79971682	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08	47340971	79971682	61241749	92	18829										
ISCA1	81689	broad.mit.edu	37	chr9	88880991	88880991	+	Silent	SNP	C	A	A													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ctttctccacagccacaagtCcctttgatgtttgggttatt							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr9:88880991C>A	uc004aop.2	-	4	474	c.357G>T	c.(355-357)GGG>GGT	p.G119G	GOLM1_uc010mqd.1_Intron	NM_030940	NP_112202	Q9BUE6	ISCA1_HUMAN	HESB like domain containing 2 precursor	119					iron-sulfur cluster assembly	mitochondrion	iron-sulfur cluster binding|metal ion binding|structural molecule activity				0				OV - Ovarian serous cystadenocarcinoma(323;5.4e-34)|Lung(182;0.0375)		AGCCACAAGTCCCTTTGATGT	0.423													35	126	---	---	---	---	PASS	A	88880991	A	A	88880991	2	1	49	1	0	0	0	0	0	0	0	1	7849	842	30	2		2	ISCA1	9	88880991	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	8909309	88880991	52332440	93	18830	431	2								
ISCA1	81689	broad.mit.edu	37	chr9	88880992	88880992	+	Missense_Mutation	SNP	C	T	T													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tttctccacagccacaagtcCctttgatgtttgggttattg							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr9:88880992C>T	uc004aop.2	-	4	473	c.356G>A	c.(355-357)GGG>GAG	p.G119E	GOLM1_uc010mqd.1_Intron	NM_030940	NP_112202	Q9BUE6	ISCA1_HUMAN	HESB like domain containing 2 precursor	119					iron-sulfur cluster assembly	mitochondrion	iron-sulfur cluster binding|metal ion binding|structural molecule activity				0				OV - Ovarian serous cystadenocarcinoma(323;5.4e-34)|Lung(182;0.0375)		GCCACAAGTCCCTTTGATGTT	0.423													35	127	---	---	---	---	PASS	T	88880992	T	T	88880992	3	4	49	1	0	0	0	0	1	0	0	0	7849	623	22	3	37	3	ISCA1	9	88880992	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	1	88880992	52332439	94	18831	431	2								
NR4A3	8013	broad.mit.edu	37	chr9	102591156	102591156	+	Frame_Shift_Del	DEL	C	-	-													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgggcgagagtcccagcctgCcgtcgccgcccagcaggagc							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr9:102591156delC	uc004baf.1	+	3	1561	c.832delC	c.(832-834)CCGfs	p.P278fs	NR4A3_uc004bae.2_Frame_Shift_Del_p.P278fs|NR4A3_uc004bag.1_Frame_Shift_Del_p.P278fs|NR4A3_uc004bai.2_Frame_Shift_Del_p.P289fs	NM_006981	NP_008912	Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	278					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		EWSR1/NR4A3(140)|TAF15/NR4A3(33)	bone(173)	173		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				TCCCAGCCTGCCGTCGCCGCC	0.746			T	EWSR1	extraskeletal myxoid chondrosarcoma								4	3	---	---	---	---		-	102591156	-	-	102591156	7	5	49	1	0	1	0	1	0	0	0	0	10634	739	26	0	871	0	NR4A3	9	102591156	Frame_Shift_Del	DEL	C	TCGA-22-5482-01A-01D-1632-08	13710164	102591156	38622275	95	18832										
PPP3R2	5535	broad.mit.edu	37	chr9	104356945	104356945	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cctcaacttctgctcctcgtCgcccttgacgctgaactggg	9	16	2	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr9:104356945C>T	uc004bbr.2	-	1	339	c.268G>A	c.(268-270)GAC>AAC	p.D90N	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_Intron	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	87	EF-hand 3.						calcium ion binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	TGCTCCTCGTCGCCCTTGACG	0.532													64	61	---	---	---	---	PASS	T	104356945	T	T	104356945	3	4	49	1	0	0	0	0	1	0	0	0	12401	884	31	2	257	2	PPP3R2	9	104356945	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	1765789	104356945	36856486	96	18833										
ZFP37	7539	broad.mit.edu	37	chr9	115805839	115805839	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgaccatgggctttgccacaCtgaatacattcatatggttt	8	9	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr9:115805839C>A	uc004bgm.1	-	4	1087	c.1059G>T	c.(1057-1059)CAG>CAT	p.Q353H	ZFP37_uc011lwz.1_Missense_Mutation_p.Q368H|ZFP37_uc011lxa.1_Missense_Mutation_p.Q354H	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	353	C2H2-type 3; atypical.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CTTTGCCACACTGAATACATT	0.408													86	82	---	---	---	---	PASS	A	115805839	A	A	115805839	3	1	49	1	0	0	0	0	1	0	0	0	17645	564	20	3	837	3	ZFP37	9	115805839	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	11448894	115805839	25407592	97	18834										
DBC1	1620	broad.mit.edu	37	chr9	122004337	122004337	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	agctgtaccttgattgctccAgttgatatctggatctcatg	9	9	2	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr9:122004337A>T	uc004bkc.2	-	4	1023	c.567T>A	c.(565-567)ACT>ACA	p.T189T	DBC1_uc004bkd.2_Silent_p.T189T	NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	189	MACPF.				cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						TGATTGCTCCAGTTGATATCT	0.488													44	41	---	---	---	---	PASS	T	122004337	T	T	122004337	2	4	49	1	0	0	0	0	0	0	0	1	4247	175	7	5		5	DBC1	9	122004337	Silent	SNP	A	TCGA-22-5482-01A-01D-1632-08	6198498	122004337	19209094	98	18835										
RABGAP1	23637	broad.mit.edu	37	chr9	125760918	125760918	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	agctgtagatttggtaataaCagaagtacaggagcctgttc	11	6	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr9:125760918C>T	uc011lzh.1	+	10	1381	c.1247C>T	c.(1246-1248)ACA>ATA	p.T416I	RABGAP1_uc004bnl.3_RNA	NM_012197	NP_036329	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	416					cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5						TTGGTAATAACAGAAGTACAG	0.398													44	139	---	---	---	---	PASS	T	125760918	T	T	125760918	3	4	49	1	0	0	0	0	1	0	0	0	12964	478	17	3	1281	3	RABGAP1	9	125760918	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	3756581	125760918	15452513	99	18836										
LRIT2	340745	broad.mit.edu	37	chr10	85982265	85982265	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cctccgaggggatggaaagaGaatcaggtgcatgtagggcc	16	8	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr10:85982265G>T	uc001kcy.2	-	3	1072	c.1064C>A	c.(1063-1065)TCT>TAT	p.S355Y	LRIT2_uc010qmc.1_Missense_Mutation_p.S365Y	NM_001017924	NP_001017924	A6NDA9	LRIT2_HUMAN	leucine rich repeat containing 22 precursor	355						integral to membrane				ovary(2)	2						GATGGAAAGAGAATCAGGTGC	0.542													10	18	---	---	---	---	PASS	T	85982265	T	T	85982265	3	4	49	1	0	0	0	0	1	0	0	0	8948	942	33	2	592	2	LRIT2	10	85982265	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08		85982265	49552482	100	18837										
FAM190B	54462	broad.mit.edu	37	chr10	86133468	86133468	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttcgtttgaactctctccatCtgatagctctgatggaacat	7	10	3	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr10:86133468C>T	uc001kdh.1	+	3	1705	c.1511C>T	c.(1510-1512)TCT>TTT	p.S504F	FAM190B_uc001kdg.1_Missense_Mutation_p.S504F|FAM190B_uc010qmd.1_Missense_Mutation_p.S504F	NM_018999	NP_061872	Q9H7U1	F190B_HUMAN	granule cell antiserum positive 14	504										ovary(3)|skin(1)	4						CTCTCTCCATCTGATAGCTCT	0.433													3	35	---	---	---	---	PASS	T	86133468	T	T	86133468	3	4	49	1	0	0	0	0	1	0	0	0	5522	913	32	2	1517	2	FAM190B	10	86133468	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	151203	86133468	49401279	101	18838										
C10orf12	26148	broad.mit.edu	37	chr10	98744528	98744528	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	acccctgctgccaagaggccAgctgcaagggacagaagcag	13	13	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr10:98744528A>G	uc001kmv.2	+	1	3488	c.3381A>G	c.(3379-3381)CCA>CCG	p.P1127P		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	1127										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		CCAAGAGGCCAGCTGCAAGGG	0.532													5	22	---	---	---	---	PASS	G	98744528	G	G	98744528	2	3	49	1	0	0	0	0	0	0	0	1	1589	175	7	5		5	C10orf12	10	98744528	Silent	SNP	A	TCGA-22-5482-01A-01D-1632-08	12611060	98744528	36790219	102	18839										
TAF5	6877	broad.mit.edu	37	chr10	105138194	105138194	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	atcagatatggaacatagttCaggagcacctctacattgac	8	9	3	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr10:105138194C>G	uc001kwv.2	+	3	1023	c.1000C>G	c.(1000-1002)CAG>GAG	p.Q334E	TAF5_uc010qqq.1_Missense_Mutation_p.Q334E	NM_006951	NP_008882	Q15542	TAF5_HUMAN	TBP-associated factor 5	334					histone acetylation|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	actin cytoskeleton|transcription factor TFIID complex|transcription factor TFTC complex	protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;1.83e-09)|all cancers(201;1.4e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		GAACATAGTTCAGGAGCACCT	0.458													18	19	---	---	---	---	PASS	G	105138194	G	G	105138194	3	3	49	1	0	0	0	0	1	0	0	0	15525	827	29	2	1010	2	TAF5	10	105138194	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	6393666	105138194	30396553	103	18840										
NRAP	4892	broad.mit.edu	37	chr10	115380405	115380405	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttcttcgcctgctccacattTaatgacccggtggcgaccca	8	15	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr10:115380405T>G	uc001laj.2	-	25	2996	c.2832A>C	c.(2830-2832)TTA>TTC	p.L944F	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Missense_Mutation_p.L909F|NRAP_uc001lal.3_Missense_Mutation_p.L944F	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	944						fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		GCTCCACATTTAATGACCCGG	0.512													48	98	---	---	---	---	PASS	G	115380405	G	G	115380405	3	3	49	1	0	0	0	0	1	0	0	0	10638	1751	61	5	2432	5	NRAP	10	115380405	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	10242211	115380405	20154342	104	18841										
FGFR2	2263	broad.mit.edu	37	chr10	123263335	123263335	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aaactcccattttgggtcctCtggaagttcatactcggaga	9	10	2	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr10:123263335C>G	uc010qtk.1	-	11	2055	c.1408G>C	c.(1408-1410)GAG>CAG	p.E470Q	FGFR2_uc010qtg.1_Missense_Mutation_p.E358Q|FGFR2_uc010qth.1_Missense_Mutation_p.E355Q|FGFR2_uc010qti.1_Missense_Mutation_p.E381Q|FGFR2_uc010qtj.1_Missense_Mutation_p.E471Q|FGFR2_uc010qtl.1_Missense_Mutation_p.E354Q|FGFR2_uc010qtm.1_Missense_Mutation_p.E353Q|FGFR2_uc001lfl.3_Missense_Mutation_p.E471Q|FGFR2_uc001lfm.2_Missense_Mutation_p.E382Q|FGFR2_uc001lfg.3_Missense_Mutation_p.E78Q	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	470	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)	TTTGGGTCCTCTGGAAGTTCA	0.502		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				3	35	---	---	---	---	PASS	G	123263335	G	G	123263335	3	3	49	1	0	0	0	0	1	0	0	0	5866	922	32	2	1197	2	FGFR2	10	123263335	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	7882930	123263335	12271412	105	18842										
EBF3	253738	broad.mit.edu	37	chr10	131665464	131665464	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gcttggatttgtaggagaggGtcacttcgacgacgccagga	15	8	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr10:131665464G>C	uc001lki.1	-	10	1012	c.953C>G	c.(952-954)ACC>AGC	p.T318S		NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	327	IPT/TIG.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		GTAGGAGAGGGTCACTTCGAC	0.577													3	30	---	---	---	---	PASS	C	131665464	C	C	131665464	3	2	49	1	0	0	0	0	1	0	0	0	4882	1261	44	4	730	4	EBF3	10	131665464	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	8402129	131665464	3869283	106	18843										
OR51B2	79345	broad.mit.edu	37	chr11	5344882	5344882	+	Frame_Shift_Del	DEL	A	-	-													0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	agtattaagaattagaatatAggagaagaggatgatcagac							TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr11:5344882delA	uc001mao.1	-	1	701	c.646delT	c.(646-648)TATfs	p.Y216fs	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	216	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATTAGAATATAGGAGAAGAGG	0.383													15	22	---	---	---	---		-	5344882	-	-	5344882	7	5	49	1	0	1	0	1	0	0	0	0	11089	420	15	0	296	0	OR51B2	11	5344882	Frame_Shift_Del	DEL	A	TCGA-22-5482-01A-01D-1632-08		5344882	129661634	107	18844										
ZNF143	7702	broad.mit.edu	37	chr11	9516304	9516304	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aattatatacaacagctcatCatctcaaggtatatataaaa	3	7	3	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr11:9516304C>T	uc001mhr.2	+	8	875	c.757C>T	c.(757-759)CAT>TAT	p.H253Y	ZNF143_uc009yfu.2_Missense_Mutation_p.H252Y|ZNF143_uc010rby.1_Missense_Mutation_p.H222Y	NM_003442	NP_003433	P52747	ZN143_HUMAN	zinc finger protein 143	253	C2H2-type 1.				regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding|zinc ion binding				0				all cancers(16;4.12e-09)|Epithelial(150;2.29e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0212)		AACAGCTCATCATCTCAAGGT	0.323													9	45	---	---	---	---	PASS	T	9516304	T	T	9516304	3	4	49	1	0	0	0	0	1	0	0	0	17729	826	29	2	783	2	ZNF143	11	9516304	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	4171422	9516304	125490212	108	18845										
OR10AG1	282770	broad.mit.edu	37	chr11	55735795	55735795	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gctaagaaaaaaatacatggGagtctggagagcggggtgaa	15	4	1	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr11:55735795G>T	uc010rit.1	-	1	145	c.145C>A	c.(145-147)CCC>ACC	p.P49T		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	49	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					AAATACATGGGAGTCTGGAGA	0.338													18	22	---	---	---	---	PASS	T	55735795	T	T	55735795	3	4	49	1	0	0	0	0	1	0	0	0	10897	1174	41	2	763	2	OR10AG1	11	55735795	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	46219491	55735795	79270721	109	18846										
OR5AK2	390181	broad.mit.edu	37	chr11	56757107	56757107	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aaggaaaaaatccttctcaaCatgtgcttcccacctgaccg	6	13	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr11:56757107C>T	uc010rjp.1	+	1	719	c.719C>T	c.(718-720)ACA>ATA	p.T240I		NM_001005323	NP_001005323	Q8NH90	O5AK2_HUMAN	olfactory receptor, family 5, subfamily AK,	240	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3						TCCTTCTCAACATGTGCTTCC	0.413													62	34	---	---	---	---	PASS	T	56757107	T	T	56757107	3	4	49	1	0	0	0	0	1	0	0	0	11142	478	17	3	721	3	OR5AK2	11	56757107	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	1021312	56757107	78249409	110	18847										
ATG2A	23130	broad.mit.edu	37	chr11	64678310	64678310	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	caggctcagaggtgccccggGgccacagacactccagcacc	12	17	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr11:64678310G>C	uc001obx.2	-	11	1698	c.1583C>G	c.(1582-1584)CCC>CGC	p.P528R		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	528							protein binding			ovary(1)|central_nervous_system(1)	2						GGTGCCCCGGGGCCACAGACA	0.672													8	3	---	---	---	---	PASS	C	64678310	C	C	64678310	3	2	49	1	0	0	0	0	1	0	0	0	1093	1232	43	4	4357	4	ATG2A	11	64678310	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	7921203	64678310	70328206	111	18848										
PPP2R5B	5526	broad.mit.edu	37	chr11	64693371	64693371	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cagttccgctatcagagcaaCcagcaagagctcacaccgct	8	15	2	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr11:64693371C>G	uc001oby.2	+	2	750	c.165C>G	c.(163-165)AAC>AAG	p.N55K	PPP2R5B_uc001obz.2_Missense_Mutation_p.N55K	NM_006244	NP_006235	Q15173	2A5B_HUMAN	beta isoform of regulatory subunit B56, protein	55					signal transduction	cytoplasm|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(2)	2						ATCAGAGCAACCAGCAAGAGC	0.692													9	7	---	---	---	---	PASS	G	64693371	G	G	64693371	3	3	49	1	0	0	0	0	1	0	0	0	12393	506	18	4	167	4	PPP2R5B	11	64693371	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	15061	64693371	70313145	112	18849										
KDM2A	22992	broad.mit.edu	37	chr11	67017759	67017759	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cgaccaccacagtgccagccGcgatgagcgcttcaaacggc	11	16	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr11:67017759G>A	uc001ojw.2	+	17	3122	c.2258G>A	c.(2257-2259)CGC>CAC	p.R753H	KDM2A_uc001ojx.2_RNA|KDM2A_uc001ojy.2_Missense_Mutation_p.R447H|KDM2A_uc010rpn.1_Missense_Mutation_p.R314H|KDM2A_uc001ojz.1_Missense_Mutation_p.R211H|KDM2A_uc001oka.2_5'Flank	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	753					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	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|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						AGTGCCAGCCGCGATGAGCGC	0.632													13	13	---	---	---	---	PASS	A	67017759	A	A	67017759	3	1	49	1	0	0	0	0	1	0	0	0	8124	1087	38	1	2320	1	KDM2A	11	67017759	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	2324388	67017759	67988757	113	18850										
PANX3	116337	broad.mit.edu	37	chr11	124481559	124481559	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tctggaactgcccctggaccGgatagtcaagttcgtagctg	12	11	2	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr11:124481559G>A	uc001qah.2	+	1	107	c.107G>A	c.(106-108)CGG>CAG	p.R36Q		NM_052959	NP_443191	Q96QZ0	PANX3_HUMAN	pannexin 3	36	Cytoplasmic (Potential).				protein hexamerization	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0219)		CCCCTGGACCGGATAGTCAAG	0.597													33	13	---	---	---	---	PASS	A	124481559	A	A	124481559	3	1	49	1	0	0	0	0	1	0	0	0	11422	1116	39	1	109	1	PANX3	11	124481559	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	57463800	124481559	10524957	114	18851										
MLF2	8079	broad.mit.edu	37	chr12	6859057	6859057	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgccgctcctcctggtccccCgtgcgatggtttcgggagcg	14	15	0	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr12:6859057C>A	uc010sfi.1	-	7	579	c.516G>T	c.(514-516)ACG>ACT	p.T172T	MLF2_uc001qqp.2_Silent_p.T172T|MLF2_uc009zey.1_Silent_p.T172T	NM_005439	NP_005430	Q15773	MLF2_HUMAN	myeloid leukemia factor 2	172					defense response	cytoplasm|nucleus	protein binding			large_intestine(1)	1						CCTGGTCCCCCGTGCGATGGT	0.612													3	68	---	---	---	---	PASS	A	6859057	A	A	6859057	2	1	49	1	0	0	0	0	0	0	0	1	9616	639	23	1		1	MLF2	12	6859057	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08		6859057	126992838	115	18852										
TPI1	7167	broad.mit.edu	37	chr12	6979288	6979288	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cggtggctcagagcacccgtAtcatttatggaggtgagtgg	15	8	2	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr12:6979288A>G	uc001qrk.2	+	6	657	c.619A>G	c.(619-621)ATC>GTC	p.I207V	TPI1_uc010sfo.1_Missense_Mutation_p.I125V	NM_000365	NP_000356	P60174	TPIS_HUMAN	triosephosphate isomerase 1 isoform 1	207					fatty acid biosynthetic process|gluconeogenesis|glycolysis|pentose-phosphate shunt	cytosol	triose-phosphate isomerase activity				0						GAGCACCCGTATCATTTATGG	0.572											OREG0021638	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	50	---	---	---	---	PASS	G	6979288	G	G	6979288	3	3	49	1	0	0	0	0	1	0	0	0	16400	449	16	5	752	5	TPI1	12	6979288	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08	120231	6979288	126872607	116	18853										
CD69	969	broad.mit.edu	37	chr12	9913369	9913369	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttactttcttgtccactctcCggatgcaaagagctgttctc	7	12	3	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr12:9913369C>A	uc001qwk.2	-	1	129	c.48G>T	c.(46-48)CCG>CCT	p.P16P	CD69_uc010sgu.1_Silent_p.P16P|CD69_uc010sgv.1_Silent_p.P16P	NM_001781	NP_001772	Q07108	CD69_HUMAN	CD69 molecule	16	Cytoplasmic (Potential).					integral to plasma membrane	sugar binding|transmembrane receptor activity				0						GTCCACTCTCCGGATGCAAAG	0.368													4	108	---	---	---	---	PASS	A	9913369	A	A	9913369	2	1	49	1	0	0	0	0	0	0	0	1	3031	639	23	1		1	CD69	12	9913369	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	2934081	9913369	123938526	117	18854										
ATF7IP	55729	broad.mit.edu	37	chr12	14610203	14610203	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgtaagcgagagtgcaccacCatcctttcaaactcctgtga	8	12	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr12:14610203C>A	uc001rbw.2	+	8	2290	c.2132C>A	c.(2131-2133)CCA>CAA	p.P711Q	ATF7IP_uc010shs.1_Intron|ATF7IP_uc001rbu.2_Missense_Mutation_p.P711Q|ATF7IP_uc001rbv.1_Missense_Mutation_p.P710Q|ATF7IP_uc001rbx.2_Missense_Mutation_p.P710Q|ATF7IP_uc010sht.1_Intron|ATF7IP_uc001rby.3_Missense_Mutation_p.P711Q|ATF7IP_uc001rca.2_Missense_Mutation_p.P711Q	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	711	Interaction with SETDB1.				DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						AGTGCACCACCATCCTTTCAA	0.343													13	27	---	---	---	---	PASS	A	14610203	A	A	14610203	3	1	49	1	0	0	0	0	1	0	0	0	1087	594	21	3	2158	3	ATF7IP	12	14610203	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	4696834	14610203	119241692	118	18855										
MLL2	8085	broad.mit.edu	37	chr12	49434608	49434608	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tttaactccaggccacccagGtgggtgcctgaggagggtga	15	10	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr12:49434608G>C	uc001rta.3	-	31	6945	c.6945C>G	c.(6943-6945)CAC>CAG	p.H2315Q		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2315	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GGCCACCCAGGTGGGTGCCTG	0.612			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			4	16	---	---	---	---	PASS	C	49434608	C	C	49434608	3	2	49	1	0	0	0	0	1	0	0	0	9621	1252	44	4	9764	4	MLL2	12	49434608	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	34824405	49434608	84417287	119	18856										
OSBPL8	114882	broad.mit.edu	37	chr12	76791654	76791654	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aacacacaccataacttggtCcagctctttagagtaccacg	6	13	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr12:76791654C>A	uc001sye.1	-	8	972	c.492G>T	c.(490-492)TGG>TGT	p.W164C	OSBPL8_uc001syf.1_Missense_Mutation_p.W122C|OSBPL8_uc001syg.1_Missense_Mutation_p.W122C|OSBPL8_uc001syh.1_Missense_Mutation_p.W139C	NM_020841	NP_065892	Q9BZF1	OSBL8_HUMAN	oxysterol-binding protein-like protein 8 isoform	164	PH.				lipid transport		lipid binding			ovary(1)	1						ATAACTTGGTCCAGCTCTTTA	0.378													16	26	---	---	---	---	PASS	A	76791654	A	A	76791654	3	1	49	1	0	0	0	0	1	0	0	0	11283	856	30	2	2245	2	OSBPL8	12	76791654	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	27357046	76791654	57060241	120	18857										
NAV3	89795	broad.mit.edu	37	chr12	78513708	78513708	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tccaagtatccagatattgcCtcacccacatttcgaaggta	6	12	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr12:78513708C>T	uc001syp.2	+	15	3905	c.3732C>T	c.(3730-3732)GCC>GCT	p.A1244A	NAV3_uc001syo.2_Silent_p.A1244A|NAV3_uc010sub.1_Silent_p.A744A|NAV3_uc009zsf.2_Silent_p.A252A	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1244	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CAGATATTGCCTCACCCACAT	0.378										HNSCC(70;0.22)			10	23	---	---	---	---	PASS	T	78513708	T	T	78513708	2	4	49	1	0	0	0	0	0	0	0	1	10185	668	24	3		3	NAV3	12	78513708	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	1722054	78513708	55338187	121	18858										
ACSS3	79611	broad.mit.edu	37	chr12	81545666	81545666	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	atacgctgtcatgctacactGgtcaatgtcttccatatacg	7	11	3	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr12:81545666G>T	uc001szl.1	+	6	1056	c.965G>T	c.(964-966)TGG>TTG	p.W322L	ACSS3_uc001szm.1_Missense_Mutation_p.W321L|ACSS3_uc001szn.1_Missense_Mutation_p.W4L	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	322						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						ATGCTACACTGGTCAATGTCT	0.348													13	35	---	---	---	---	PASS	T	81545666	T	T	81545666	3	4	49	1	0	0	0	0	1	0	0	0	190	1357	47	3	987	3	ACSS3	12	81545666	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	3031958	81545666	52306229	122	18859										
STAB2	55576	broad.mit.edu	37	chr12	104097022	104097022	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttctggaaattcagaagaacAgatgtgataataatgacact	8	5	2	5			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr12:104097022A>C	uc001tjw.2	+	35	3997	c.3811A>C	c.(3811-3813)AGA>CGA	p.R1271R		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1271	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						TCAGAAGAACAGATGTGATAA	0.373													18	40	---	---	---	---	PASS	C	104097022	C	C	104097022	2	2	49	1	0	0	0	0	0	0	0	1	15237	180	7	5		5	STAB2	12	104097022	Silent	SNP	A	TCGA-22-5482-01A-01D-1632-08	22551356	104097022	29754873	123	18860										
GJB2	2706	broad.mit.edu	37	chr13	20763463	20763463	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	atggccactaggagcgctggCgtggacacgaagatcagctg	15	10	1	1	rs139362103		TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr13:20763463C>A	uc001umy.2	-	2	473	c.258G>T	c.(256-258)ACG>ACT	p.T86T		NM_004004	NP_003995	P29033	CXB2_HUMAN	gap junction protein beta 2	86	Helical; (Potential).		T -> R (in DFNB1A; does not form gap junctions since the mutated protein is confined in the cytoplasm and not transported to the cell membrane; when the mutation is co-expressed with the wild-type protein ionic and biochemical coupling is normal consistent with the recessive nature of the mutation).	T -> S (in Ref. 1; AAD21314).	cell-cell signaling|cellular membrane organization|gap junction assembly|sensory perception of sound|transport	connexon complex|ER-Golgi intermediate compartment|integral to membrane					0		all_cancers(29;3.95e-22)|all_epithelial(30;2.36e-19)|all_lung(29;2.27e-18)|Lung SC(185;0.0257)|Ovarian(182;0.0822)		all cancers(112;0.000435)|Epithelial(112;0.000722)|OV - Ovarian serous cystadenocarcinoma(117;0.0096)|Lung(94;0.0236)|LUSC - Lung squamous cell carcinoma(192;0.0738)		GGAGCGCTGGCGTGGACACGA	0.557									Keratitis_Ichthyosis_and_Deafness_syndrome		OREG0022282	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	32	---	---	---	---	PASS	A	20763463	A	A	20763463	2	1	49	1	0	0	0	0	0	0	0	1	6408	755	27	1		1	GJB2	13	20763463	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08		20763463	94406415	124	18861										
KLF12	11278	broad.mit.edu	37	chr13	74269769	74269769	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	catctgaacgagcgaacttcCaggtgcagccttcccaggta	10	13	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr13:74269769C>T	uc001vjf.2	-	8	1289	c.1067G>A	c.(1066-1068)TGG>TAG	p.W356*	KLF12_uc010aeq.2_Nonsense_Mutation_p.W356*	NM_007249	NP_009180	Q9Y4X4	KLF12_HUMAN	Kruppel-like factor 12	356	C2H2-type 2.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Prostate(6;0.00217)|Breast(118;0.0838)		GBM - Glioblastoma multiforme(99;0.00677)		AGCGAACTTCCAGGTGCAGCC	0.512													11	41	---	---	---	---	PASS	T	74269769	T	T	74269769	4	4	49	1	0	0	0	0	0	1	0	0	8340	595	21	3	145	3	KLF12	13	74269769	Nonsense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	53506306	74269769	40900109	125	18862										
F10	2159	broad.mit.edu	37	chr13	113803804	113803804	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gccaagagccatgccccggaGgtcataacgtcctctccatt	9	15	2	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr13:113803804G>A	uc001vsx.2	+	8	1497	c.1440G>A	c.(1438-1440)GAG>GAA	p.E480E	F10_uc001vsy.2_3'UTR|F10_uc001vsz.2_3'UTR	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	480					blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATGCCCCGGAGGTCATAACGT	0.577													13	53	---	---	---	---	PASS	A	113803804	A	A	113803804	2	1	49	1	0	0	0	0	0	0	0	1	5336	991	35	3		3	F10	13	113803804	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08	39534035	113803804	1366074	126	18863										
ACTR10	55860	broad.mit.edu	37	chr14	58681996	58681996	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aagaacagagccttccctcaGtgatgggtaaattcatttta	8	8	2	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr14:58681996G>A	uc001xdf.2	+	7	695	c.592G>A	c.(592-594)GTG>ATG	p.V198M	C14orf37_uc010tro.1_Intron|ACTR10_uc001xdg.2_Translation_Start_Site|ACTR10_uc001xdh.2_Translation_Start_Site|ACTR10_uc010trp.1_RNA|ACTR10_uc010apc.2_Translation_Start_Site	NM_018477	NP_060947	Q9NZ32	ARP10_HUMAN	uncharacterized hypothalamus protein HARP11	198						cytoplasm				central_nervous_system(1)	1						CCTTCCCTCAGTGATGGGTAA	0.224													3	35	---	---	---	---	PASS	A	58681996	A	A	58681996	3	1	49	1	0	0	0	0	1	0	0	0	208	1029	36	3	618	3	ACTR10	14	58681996	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08		58681996	48667544	127	18864										
RTN1	6252	broad.mit.edu	37	chr14	60072158	60072158	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	agtgtgctgttcacgtagaaCtgcaggcagtccgtgtactt	12	9	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr14:60072158C>A	uc001xen.1	-	5	2249	c.2040G>T	c.(2038-2040)CAG>CAT	p.Q680H	RTN1_uc001xem.1_Missense_Mutation_p.Q260H|RTN1_uc001xek.1_Missense_Mutation_p.Q112H|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Missense_Mutation_p.Q97H	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	680	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		TCACGTAGAACTGCAGGCAGT	0.478													34	20	---	---	---	---	PASS	A	60072158	A	A	60072158	3	1	49	1	0	0	0	0	1	0	0	0	13725	564	20	3	310	3	RTN1	14	60072158	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	1390162	60072158	47277382	128	18865										
EML5	161436	broad.mit.edu	37	chr14	89202760	89202760	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	caaaggtttagtaggatggaCagcaagtgcccaaagttcac	11	8	1	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr14:89202760C>A	uc001xxg.2	-	8	1183	c.997G>T	c.(997-999)GTC>TTC	p.V333F		NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	333	WD 7.					cytoplasm|microtubule				ovary(3)	3						GTAGGATGGACAGCAAGTGCC	0.388													16	110	---	---	---	---	PASS	A	89202760	A	A	89202760	3	1	49	1	0	0	0	0	1	0	0	0	5100	478	17	3	5084	3	EML5	14	89202760	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	29130602	89202760	18146780	129	18866										
DYNC1H1	1778	broad.mit.edu	37	chr14	102507987	102507987	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cgcctgttggccatggcccaCatgtttgtttcaacaaacct	8	13	1	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr14:102507987C>T	uc001yks.2	+	65	12182	c.12018C>T	c.(12016-12018)CAC>CAT	p.H4006H		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	4006	AAA 6 (By similarity).				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						CCATGGCCCACATGTTTGTTT	0.577													29	129	---	---	---	---	PASS	T	102507987	T	T	102507987	2	4	49	1	0	0	0	0	0	0	0	1	4841	477	17	3		3	DYNC1H1	14	102507987	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	13305227	102507987	4841553	130	18867										
GABRB3	2562	broad.mit.edu	37	chr15	26793167	26793167	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ctgtttcctgtactggattcCtgagttgtcaaaggatattg	10	7	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr15:26793167C>A	uc001zaz.2	-	9	1337	c.1195G>T	c.(1195-1197)GGA>TGA	p.G399*	GABRB3_uc010uae.1_Nonsense_Mutation_p.G314*|GABRB3_uc001zba.2_Nonsense_Mutation_p.G399*|GABRB3_uc001zbb.2_Nonsense_Mutation_p.G455*	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	399	Cytoplasmic (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)	TACTGGATTCCTGAGTTGTCA	0.502													7	90	---	---	---	---	PASS	A	26793167	A	A	26793167	4	1	49	1	0	0	0	0	0	1	0	0	6168	690	24	3	230	3	GABRB3	15	26793167	Nonsense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08		26793167	75738225	131	18868										
GABRB3	2562	broad.mit.edu	37	chr15	26866572	26866572	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	agaaatatgtgtcgggcaccCatagctggtcagccactcga	11	11	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr15:26866572C>A	uc001zaz.2	-	4	492	c.350G>T	c.(349-351)TGG>TTG	p.W117L	GABRB3_uc010uae.1_Missense_Mutation_p.W32L|GABRB3_uc001zba.2_Missense_Mutation_p.W117L|GABRB3_uc001zbb.2_Missense_Mutation_p.W173L|GABRB3_uc001zbc.2_RNA	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	117	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	GTCGGGCACCCATAGCTGGTC	0.453													39	41	---	---	---	---	PASS	A	26866572	A	A	26866572	3	1	49	1	0	0	0	0	1	0	0	0	6168	595	21	3	1095	3	GABRB3	15	26866572	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	73405	26866572	75664820	132	18869										
USP50	373509	broad.mit.edu	37	chr15	50833434	50833434	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tctctgagtagatcctttctCatatgatcttctccgggagt	8	10	4	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr15:50833434C>T	uc001zyq.3	-	4	667	c.487G>A	c.(487-489)GAG>AAG	p.E163K		NM_203494	NP_987090	E9PP86	E9PP86_HUMAN	ubiquitin specific protease 50	158					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			lung(1)|breast(1)	2				all cancers(107;0.000519)|GBM - Glioblastoma multiforme(94;0.00288)		GATCCTTTCTCATATGATCTT	0.368													33	18	---	---	---	---	PASS	T	50833434	T	T	50833434	3	4	49	1	0	0	0	0	1	0	0	0	17079	835	29	2	548	2	USP50	15	50833434	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	23966862	50833434	51697958	133	18870										
FAM81A	145773	broad.mit.edu	37	chr15	59752218	59752218	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cgtggagcagctggaagacaGgatcctctgccatgagaaaa	13	9	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr15:59752218G>A	uc002agc.2	+	3	294	c.107G>A	c.(106-108)AGG>AAG	p.R36K	FAM81A_uc010uha.1_Missense_Mutation_p.R36K	NM_152450	NP_689663	Q8TBF8	FA81A_HUMAN	hypothetical protein LOC145773	36										ovary(1)	1						CTGGAAGACAGGATCCTCTGC	0.532													5	23	---	---	---	---	PASS	A	59752218	A	A	59752218	3	1	49	1	0	0	0	0	1	0	0	0	5628	1000	35	3	113	3	FAM81A	15	59752218	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	8918784	59752218	42779174	134	18871										
KIAA1199	57214	broad.mit.edu	37	chr15	81181912	81181912	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gctcacccaggaaaaatatgCaatcgtcccattgatataca	6	11	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr15:81181912C>T	uc002bfw.1	+	9	1325	c.1065C>T	c.(1063-1065)TGC>TGT	p.C355C	KIAA1199_uc010unn.1_Silent_p.C355C	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	355										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GAAAAATATGCAATCGTCCCA	0.363													30	23	---	---	---	---	PASS	T	81181912	T	T	81181912	2	4	49	1	0	0	0	0	0	0	0	1	8213	718	25	3		3	KIAA1199	15	81181912	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	21429694	81181912	21349480	135	18872										
C15orf42	90381	broad.mit.edu	37	chr15	90144552	90144552	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ccagcttcaggtatttcttcGtttggagatgtgtctgcaat	10	8	3	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr15:90144552G>T	uc002boe.2	+	10	2177	c.2177G>T	c.(2176-2178)CGT>CTT	p.R726L		NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	726					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GTATTTCTTCGTTTGGAGATG	0.383													15	58	---	---	---	---	PASS	T	90144552	T	T	90144552	3	4	49	1	0	0	0	0	1	0	0	0	1796	1145	40	1	2215	1	C15orf42	15	90144552	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	8962640	90144552	12386840	136	18873										
PKD1	5310	broad.mit.edu	37	chr16	2168068	2168068	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	atccacctcggcggagccgtCtccgaagtcccagcgtgtgg	13	15	1	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr16:2168068C>T	uc002cos.1	-	5	1134	c.925G>A	c.(925-927)GAC>AAC	p.D309N	PKD1_uc002cot.1_Missense_Mutation_p.D309N	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	309	Extracellular (Potential).|PKD 1.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GCGGAGCCGTCTCCGAAGTCC	0.716													11	13	---	---	---	---	PASS	T	2168068	T	T	2168068	3	4	49	1	0	0	0	0	1	0	0	0	11963	913	32	2	12154	2	PKD1	16	2168068	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08		2168068	88186685	137	18874										
BTBD12	84464	broad.mit.edu	37	chr16	3658448	3658448	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tacctctggttttctctctgGaaaggtttggcgatggttct	11	8	4	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr16:3658448G>C	uc002cvp.2	-	2	1145	c.518C>G	c.(517-519)TCC>TGC	p.S173C	BTBD12_uc002cvq.1_Missense_Mutation_p.S173C	NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	173	Interaction with C20orf94, ERCC4 and MSH2.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TTTCTCTCTGGAAAGGTTTGG	0.353								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				25	23	---	---	---	---	PASS	C	3658448	C	C	3658448	3	2	49	1	0	0	0	0	1	0	0	0	1540	1174	41	2	5042	2	BTBD12	16	3658448	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	1490380	3658448	86696305	138	18875										
DNAH3	55567	broad.mit.edu	37	chr16	21061293	21061293	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cttgccagtcccagctggacCctctggagcacccccaaggt	10	17	1	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr16:21061293C>T	uc010vbe.1	-	30	4285	c.4285G>A	c.(4285-4287)GGT>AGT	p.G1429S		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1429	ATP (Potential).|AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CCAGCTGGACCCTCTGGAGCA	0.507													33	24	---	---	---	---	PASS	T	21061293	T	T	21061293	3	4	49	1	0	0	0	0	1	0	0	0	4603	623	22	3	8196	3	DNAH3	16	21061293	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	17402845	21061293	69293460	139	18876										
COG7	91949	broad.mit.edu	37	chr16	23417525	23417525	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	caagatgctctcctgaaaacCagccaggctccgggggctgc	12	14	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr16:23417525C>A	uc002dlo.2	-	12	1722	c.1534G>T	c.(1534-1536)GGT>TGT	p.G512C		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	512					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		TCCTGAAAACCAGCCAGGCTC	0.463													9	80	---	---	---	---	PASS	A	23417525	A	A	23417525	3	1	49	1	0	0	0	0	1	0	0	0	3663	594	21	3	802	3	COG7	16	23417525	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	2356232	23417525	66937228	140	18877										
ABCC11	85320	broad.mit.edu	37	chr16	48239387	48239387	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgttcccgctgacgatccagGcctgctgggggacataggcc	14	13	0	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr16:48239387G>A	uc002eff.1	-	12	2092	c.1742C>T	c.(1741-1743)GCC>GTC	p.A581V	ABCC11_uc002efg.1_Missense_Mutation_p.A581V|ABCC11_uc002efh.1_Missense_Mutation_p.A581V|ABCC11_uc010vgk.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	581	ABC transporter 1.|Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				GACGATCCAGGCCTGCTGGGG	0.622									Cerumen_Type				75	64	---	---	---	---	PASS	A	48239387	A	A	48239387	3	1	49	1	0	0	0	0	1	0	0	0	51	1203	42	3	2478	3	ABCC11	16	48239387	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	24821862	48239387	42115366	141	18878										
CCDC102A	92922	broad.mit.edu	37	chr16	57546761	57546761	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	atcttcccgaagaggggagcGttctgctgctgcctgcggag	15	11	2	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr16:57546761G>A	uc002elw.2	-	9	1758	c.1545C>T	c.(1543-1545)AAC>AAT	p.N515N		NM_033212	NP_149989	Q96A19	C102A_HUMAN	coiled-coil domain containing 102A	515	Potential.									ovary(1)	1						AGAGGGGAGCGTTCTGCTGCT	0.642													37	44	---	---	---	---	PASS	A	57546761	A	A	57546761	2	1	49	1	0	0	0	0	0	0	0	1	2736	1136	40	1		1	CCDC102A	16	57546761	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08	9307374	57546761	32807992	142	18879										
IRF8	3394	broad.mit.edu	37	chr16	85952247	85952247	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	agctgttcgggcacctggagCgcggggtgctgctgcacagc	17	12	0	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr16:85952247C>A	uc002fjh.2	+	7	883	c.826C>A	c.(826-828)CGC>AGC	p.R276S	IRF8_uc010chp.2_Intron	NM_002163	NP_002154	Q02556	IRF8_HUMAN	interferon regulatory factor 8	276					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			breast(2)|ovary(1)	3		Prostate(104;0.0771)				GCACCTGGAGCGCGGGGTGCT	0.716													9	9	---	---	---	---	PASS	A	85952247	A	A	85952247	3	1	49	1	0	0	0	0	1	0	0	0	7836	768	27	1	848	1	IRF8	16	85952247	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	28405486	85952247	4402506	143	18880										
TP53	7157	broad.mit.edu	37	chr17	7578556	7578556	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgttgagggcaggggagtacTgtaggaagaggaaggagaca	19	3	0	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr17:7578556T>C	uc002gim.2	-	5	570	c.376_splice	c.e5-1	p.Y126_splice	TP53_uc002gig.1_Splice_Site_p.Y126_splice|TP53_uc002gih.2_Splice_Site_p.Y126_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'UTR|TP53_uc010cng.1_5'UTR|TP53_uc002gii.1_5'UTR|TP53_uc010cnh.1_Splice_Site_p.Y126_splice|TP53_uc010cni.1_Splice_Site_p.Y126_splice|TP53_uc002gij.2_Splice_Site_p.Y126_splice|TP53_uc010cnj.1_Splice_Site|TP53_uc002gin.2_Splice_Site_p.Y33_splice|TP53_uc002gio.2_Splice_Site|TP53_uc010vug.1_Splice_Site_p.Y87_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						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.?(14)|p.0?(7)|p.V73fs*9(1)|p.Y126fs*11(1)|p.P13fs*18(1)|p.T125_Y126insX(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)		AGGGGAGTACTGTAGGAAGAG	0.552		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	6	---	---	---	---	PASS	C	7578556	C	C	7578556	5	2	49	1	0	0	0	0	0	0	1	0	16378	1594	55	5	924	5	TP53	17	7578556	Splice_Site	SNP	T	TCGA-22-5482-01A-01D-1632-08		7578556	73616654	144	18881										
ITGA2B	3674	broad.mit.edu	37	chr17	42466708	42466708	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	atccaaactggctgccattgGggcctgcatagaaggtgagc	13	10	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr17:42466708G>T	uc002igt.1	-	1	166	c.134C>A	c.(133-135)CCC>CAC	p.P45H		NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	45	Extracellular (Potential).|FG-GAP 1.				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	GCTGCCATTGGGGCCTGCATA	0.592													50	30	---	---	---	---	PASS	T	42466708	T	T	42466708	3	4	49	1	0	0	0	0	1	0	0	0	7876	1232	43	3	3105	3	ITGA2B	17	42466708	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	34888152	42466708	38728502	145	18882										
TBX2	6909	broad.mit.edu	37	chr17	59482917	59482917	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cggacacctgcccggcctggCcttttccagccacttgcacg	10	18	0	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr17:59482917C>T	uc010wox.1	+	6	1687	c.1406C>T	c.(1405-1407)GCC>GTC	p.A469V	TBX2_uc002ize.2_3'UTR|TBX2_uc002izg.2_Missense_Mutation_p.A315V	NM_005994	NP_005985	Q13207	TBX2_HUMAN	T-box 2	469	Gly-rich.				cell aging|positive regulation of cell proliferation		sequence-specific DNA binding				0						CCCGGCCTGGCCTTTTCCAGC	0.716													4	3	---	---	---	---	PASS	T	59482917	T	T	59482917	3	4	49	1	0	0	0	0	1	0	0	0	15652	739	26	3	1428	3	TBX2	17	59482917	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	17016209	59482917	21712293	146	18883										
BPTF	2186	broad.mit.edu	37	chr17	65907828	65907828	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tcaagagcaatggactttgaAggaaaactgggatgtgactc	12	6	1	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr17:65907828A>T	uc002jgf.2	+	11	3889	c.3828A>T	c.(3826-3828)GAA>GAT	p.E1276D	BPTF_uc002jge.2_Missense_Mutation_p.E1402D	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1402					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TGGACTTTGAAGGAAAACTGG	0.398													52	24	---	---	---	---	PASS	T	65907828	T	T	65907828	3	4	49	1	0	0	0	0	1	0	0	0	1495	69	3	5	4256	5	BPTF	17	65907828	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08	6424911	65907828	15287382	147	18884										
RNF213	57674	broad.mit.edu	37	chr17	78341763	78341763	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gcccttcttggattctaggtTtgggattcagccgtgctcca	11	11	3	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr17:78341763T>G	uc002jyh.1	+	19	6417	c.6194T>G	c.(6193-6195)TTT>TGT	p.F2065C	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.F447C	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)			GATTCTAGGTTTGGGATTCAG	0.547													58	34	---	---	---	---	PASS	G	78341763	G	G	78341763	3	3	49	1	0	0	0	0	1	0	0	0	13477	1841	64	5	12464	5	RNF213	17	78341763	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	12433935	78341763	2853447	148	18885										
DSC3	1825	broad.mit.edu	37	chr18	28586895	28586895	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttaactttggtgaggctccaCagtctactgatttctggaga	10	8	2	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr18:28586895C>A	uc002kwj.3	-	12	2021	c.1866G>T	c.(1864-1866)CTG>CTT	p.L622L	DSC3_uc002kwi.3_Silent_p.L622L	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	622	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			TGAGGCTCCACAGTCTACTGA	0.353													11	19	---	---	---	---	PASS	A	28586895	A	A	28586895	2	1	49	1	0	0	0	0	0	0	0	1	4767	465	17	3		3	DSC3	18	28586895	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08		28586895	49490353	149	18886										
CDH20	28316	broad.mit.edu	37	chr18	59221671	59221671	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gctacgtgcctcagacgtgcGcagtgaacagcactgtccac	11	14	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr18:59221671G>C	uc010dps.1	+	11	2161	c.2149G>C	c.(2149-2151)GCA>CCA	p.A717P	CDH20_uc002lif.2_Missense_Mutation_p.A711P	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	717	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				TCAGACGTGCGCAGTGAACAG	0.662													8	22	---	---	---	---	PASS	C	59221671	C	C	59221671	3	2	49	1	0	0	0	0	1	0	0	0	3106	1087	38	4	2191	4	CDH20	18	59221671	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	30634776	59221671	18855577	150	18887										
DSEL	92126	broad.mit.edu	37	chr18	65179576	65179576	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tcctatcatgtcttacaggcTttactattgcttgagtgccc	7	11	2	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr18:65179576T>G	uc002lke.1	-	2	3524	c.2300A>C	c.(2299-2301)AAG>ACG	p.K767T		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	757						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				TCTTACAGGCTTTACTATTGC	0.378													15	52	---	---	---	---	PASS	G	65179576	G	G	65179576	3	3	49	1	0	0	0	0	1	0	0	0	4775	1609	56	5	1372	5	DSEL	18	65179576	Missense_Mutation	SNP	T	TCGA-22-5482-01A-01D-1632-08	5957905	65179576	12897672	151	18888										
ZNF236	7776	broad.mit.edu	37	chr18	74637290	74637290	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cgtacctcgggtagaagaaaGacacacatgcagtttcatta	9	9	1	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr18:74637290G>C	uc002lmi.2	+	22	3999	c.3801G>C	c.(3799-3801)AAG>AAC	p.K1267N	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1267	C2H2-type 25.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GTAGAAGAAAGACACACATGC	0.527													20	40	---	---	---	---	PASS	C	74637290	C	C	74637290	3	2	49	1	0	0	0	0	1	0	0	0	17786	933	33	2	3887	2	ZNF236	18	74637290	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	9457714	74637290	3439958	152	18889										
PALM	5064	broad.mit.edu	37	chr19	746310	746310	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	catgctgtggacggcaccgcCgagaacgggatccaccccct	12	16	0	1	rs150589646	by1000genomes	TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:746310C>T	uc002lpm.1	+	9	854	c.660C>T	c.(658-660)GCC>GCT	p.A220A	PALM_uc002lpn.1_Silent_p.A176A|PALM_uc010xfu.1_Silent_p.A85A	NM_002579	NP_002570	O75781	PALM_HUMAN	paralemmin isoform 1	220					cellular component movement|negative regulation of adenylate cyclase activity|negative regulation of dopamine receptor signaling pathway|positive regulation of filopodium assembly|regulation of cell shape	cytoplasmic membrane-bounded vesicle|filopodium membrane|integral to plasma membrane					0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)|Lung(535;0.201)		ACGGCACCGCCGAGAACGGGA	0.647													6	36	---	---	---	---	PASS	T	746310	T	T	746310	2	4	49	1	0	0	0	0	0	0	0	1	11408	639	23	1		1	PALM	19	746310	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08		746310	58382673	153	18890										
MUC16	94025	broad.mit.edu	37	chr19	9060155	9060155	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gacataaaagttgttgaagtGtccaaggtaagggtacccct	11	7	0	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:9060155G>T	uc002mkp.2	-	3	27495	c.27291C>A	c.(27289-27291)GAC>GAA	p.D9097E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9099	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTGTTGAAGTGTCCAAGGTAA	0.483													27	40	---	---	---	---	PASS	T	9060155	T	T	9060155	3	4	49	1	0	0	0	0	1	0	0	0	9973	1368	48	3	16560	3	MUC16	19	9060155	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	8313845	9060155	50068828	154	18891										
MUC16	94025	broad.mit.edu	37	chr19	9076678	9076678	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gtctgtgacagtccaggaatCtgatgcagctgtggaagacc	13	9	2	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:9076678C>A	uc002mkp.2	-	3	10972	c.10768G>T	c.(10768-10770)GAT>TAT	p.D3590Y		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3591	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTCCAGGAATCTGATGCAGCT	0.493													17	55	---	---	---	---	PASS	A	9076678	A	A	9076678	3	1	49	1	0	0	0	0	1	0	0	0	9973	913	32	2	33083	2	MUC16	19	9076678	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	16523	9076678	50052305	155	18892										
S1PR2	9294	broad.mit.edu	37	chr19	10335434	10335434	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aatgagcaccagaaggttttCcaccacaatggcgcaacaga	9	11	0	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:10335434C>T	uc002mnl.2	-	2	259	c.148G>A	c.(148-150)GAA>AAA	p.E50K		NM_004230	NP_004221	O95136	S1PR2_HUMAN	endothelial differentiation, sphingolipid	50	Helical; Name=1; (By similarity).				activation of MAPK activity|positive regulation of cell proliferation	integral to membrane|plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			lung(1)|central_nervous_system(1)	2						AGAAGGTTTTCCACCACAATG	0.567													38	89	---	---	---	---	PASS	T	10335434	T	T	10335434	3	4	49	1	0	0	0	0	1	0	0	0	13794	864	30	2	917	2	S1PR2	19	10335434	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	1258756	10335434	48793549	156	18893										
TYK2	7297	broad.mit.edu	37	chr19	10478977	10478977	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aggtctccacccaccttatgCggaaatatagcatcaggctt	8	12	2	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:10478977C>A	uc002moc.3	-	4	689	c.311G>T	c.(310-312)CGC>CTC	p.R104L	TYK2_uc010dxe.2_Intron|TYK2_uc002mod.2_Missense_Mutation_p.R104L	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	104	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			CCACCTTATGCGGAAATATAG	0.552													34	68	---	---	---	---	PASS	A	10478977	A	A	10478977	3	1	49	1	0	0	0	0	1	0	0	0	16807	768	27	1	3340	1	TYK2	19	10478977	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	143543	10478977	48650006	157	18894										
GIPC1	10755	broad.mit.edu	37	chr19	14589276	14589276	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	atggcgccccagacgtcaaaGacgaactcgtcagggaaggc	13	12	2	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:14589276G>A	uc002myt.2	-	9	1224	c.954C>T	c.(952-954)GTC>GTT	p.V318V	GIPC1_uc002myu.2_Silent_p.V318V|GIPC1_uc002myv.2_Silent_p.V221V|GIPC1_uc002myw.2_Silent_p.V221V|GIPC1_uc002myx.2_Silent_p.V318V|GIPC1_uc002myy.2_Silent_p.V221V	NM_005716	NP_005707	O14908	GIPC1_HUMAN	regulator of G-protein signalling 19 interacting	318					endothelial cell migration|G-protein coupled receptor protein signaling pathway|glutamate secretion|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|protein targeting|regulation of protein stability|regulation of synaptic plasticity|synaptic transmission	cell cortex|dendritic shaft|dendritic spine|membrane fraction|soluble fraction|synaptic vesicle|vesicle membrane	actin binding|myosin binding|protein homodimerization activity|receptor binding				0						AGACGTCAAAGACGAACTCGT	0.657													5	6	---	---	---	---	PASS	A	14589276	A	A	14589276	2	1	49	1	0	0	0	0	0	0	0	1	6392	929	33	2		2	GIPC1	19	14589276	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08	4110299	14589276	44539707	158	18895										
CYP4F11	57834	broad.mit.edu	37	chr19	16024572	16024572	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttcgcacccaggggctccacCcgcagccaaagtccaccctc	8	20	0	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:16024572C>A	uc002nbu.2	-	13	1581	c.1545G>T	c.(1543-1545)CGG>CGT	p.R515R	CYP4F11_uc010eab.1_3'UTR|CYP4F11_uc002nbt.2_Silent_p.R515R	NM_001128932	NP_001122404	Q9HBI6	CP4FB_HUMAN	cytochrome P450 family 4 subfamily F polypeptide	515					inflammatory response|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)	1						GGGGCTCCACCCGCAGCCAAA	0.607													8	9	---	---	---	---	PASS	A	16024572	A	A	16024572	2	1	49	1	0	0	0	0	0	0	0	1	4186	610	22	3		3	CYP4F11	19	16024572	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	1435296	16024572	43104411	159	18896										
FAM129C	199786	broad.mit.edu	37	chr19	17660297	17660297	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	atgatgtatcctgcactctgGacggctgcttggaggtccca	12	11	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:17660297G>A	uc010xpr.1	+	15	1942	c.1804G>A	c.(1804-1806)GAC>AAC	p.D602N	FAM129C_uc010xpq.1_Missense_Mutation_p.D602N|FAM129C_uc002ngy.3_Missense_Mutation_p.D328N|FAM129C_uc010xpu.1_Intron|FAM129C_uc002ngz.3_RNA|FAM129C_uc010eaw.2_Missense_Mutation_p.D292N	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	602											0						CTGCACTCTGGACGGCTGCTT	0.552													27	69	---	---	---	---	PASS	A	17660297	A	A	17660297	3	1	49	1	0	0	0	0	1	0	0	0	5438	1174	41	2	1862	2	FAM129C	19	17660297	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	1635725	17660297	41468686	160	18897										
ARRDC2	27106	broad.mit.edu	37	chr19	18120427	18120427	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	caagcgggggctcgggaaaaGgttgcccgatcctggtactg	16	10	0	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:18120427G>C	uc002nhv.2	+	4	659	c.516G>C	c.(514-516)AAG>AAC	p.K172N	ARRDC2_uc002nhu.2_Missense_Mutation_p.K167N	NM_015683	NP_056498	Q8TBH0	ARRD2_HUMAN	arrestin domain containing 2 isoform 1	172										pancreas(1)	1						CTCGGGAAAAGGTTGCCCGAT	0.582													14	40	---	---	---	---	PASS	C	18120427	C	C	18120427	3	2	49	1	0	0	0	0	1	0	0	0	983	991	35	4	793	4	ARRDC2	19	18120427	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	460130	18120427	41008556	161	18898										
TMEM161A	54929	broad.mit.edu	37	chr19	19243311	19243311	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	actggtactccaggaagaagCgcaggactgtggggggcact	16	9	0	1	rs140905727	byFrequency	TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:19243311C>A	uc002nlg.2	-	5	323	c.293G>T	c.(292-294)CGC>CTC	p.R98L	TMEM161A_uc010eca.2_RNA|TMEM161A_uc002nlh.2_Intron|TMEM161A_uc002nli.2_Intron|TMEM161A_uc002nlj.2_5'UTR	NM_017814	NP_060284	Q9NX61	T161A_HUMAN	transmembrane protein 161A precursor	98	Extracellular (Potential).				cellular response to oxidative stress|cellular response to UV|negative regulation of apoptosis|positive regulation of DNA repair|response to retinoic acid	integral to membrane				breast(2)	2			OV - Ovarian serous cystadenocarcinoma(5;1.19e-05)|Epithelial(12;0.0011)			CAGGAAGAAGCGCAGGACTGT	0.587													12	41	---	---	---	---	PASS	A	19243311	A	A	19243311	3	1	49	1	0	0	0	0	1	0	0	0	16073	768	27	1	1178	1	TMEM161A	19	19243311	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	1122884	19243311	39885672	162	18899										
ZNF536	9745	broad.mit.edu	37	chr19	30936105	30936105	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ctaaagagcatccgctgcagCgcaaccacgaagacactttg	9	13	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:30936105C>G	uc002nsu.1	+	2	1774	c.1636C>G	c.(1636-1638)CGC>GGC	p.R546G	ZNF536_uc010edd.1_Missense_Mutation_p.R546G	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	546					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TCCGCTGCAGCGCAACCACGA	0.562													17	54	---	---	---	---	PASS	G	30936105	G	G	30936105	3	3	49	1	0	0	0	0	1	0	0	0	17971	768	27	4	1638	4	ZNF536	19	30936105	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	11692794	30936105	28192878	163	18900										
MAG	4099	broad.mit.edu	37	chr19	35791178	35791178	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgcgggacgggacagtcctcCgggaggcggtggccgagagc	20	11	0	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:35791178C>T	uc002nyy.1	+	6	990	c.841C>T	c.(841-843)CGG>TGG	p.R281W	MAG_uc002nyx.1_Missense_Mutation_p.R281W|MAG_uc010eds.1_Missense_Mutation_p.R256W|MAG_uc002nyz.1_Missense_Mutation_p.R281W	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	281	Ig-like C2-type 2.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GACAGTCCTCCGGGAGGCGGT	0.697													6	12	---	---	---	---	PASS	T	35791178	T	T	35791178	3	4	49	1	0	0	0	0	1	0	0	0	9162	643	23	1	855	1	MAG	19	35791178	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	4855073	35791178	23337805	164	18901										
SIPA1L3	23094	broad.mit.edu	37	chr19	38682891	38682891	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	acaaatccaccatcgaggatGacctgaagaaactcatcatc	6	12	2	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:38682891G>T	uc002ohk.2	+	17	5046	c.4537G>T	c.(4537-4539)GAC>TAC	p.D1513Y		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1513					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CATCGAGGATGACCTGAAGAA	0.587													9	19	---	---	---	---	PASS	T	38682891	T	T	38682891	3	4	49	1	0	0	0	0	1	0	0	0	14331	1290	45	2	4595	2	SIPA1L3	19	38682891	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	2891713	38682891	20446092	165	18902										
SPTBN4	57731	broad.mit.edu	37	chr19	41007885	41007885	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cacctacgtggtctctttctAccactatttctccaagatga	5	13	3	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:41007885A>G	uc002ony.2	+	8	928	c.842A>G	c.(841-843)TAC>TGC	p.Y281C	SPTBN4_uc002onx.2_Missense_Mutation_p.Y281C|SPTBN4_uc002onz.2_Missense_Mutation_p.Y281C	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	281	Actin-binding.|CH 2.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GTCTCTTTCTACCACTATTTC	0.522													48	94	---	---	---	---	PASS	G	41007885	G	G	41007885	3	3	49	1	0	0	0	0	1	0	0	0	15120	391	14	5	868	5	SPTBN4	19	41007885	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08	2324994	41007885	18121098	166	18903										
ZNF235	9310	broad.mit.edu	37	chr19	44793161	44793161	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aatagattctcctgctcccaCttgacagggggaatcatggt	10	10	2	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:44793161C>T	uc002oza.3	-	5	530	c.427G>A	c.(427-429)GTG>ATG	p.V143M	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF235_uc002ozb.3_Missense_Mutation_p.V139M|ZNF235_uc010xwx.1_Missense_Mutation_p.V57M	NM_004234	NP_004225	Q14590	ZN235_HUMAN	zinc finger protein 93 homolog	143					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)	3		Prostate(69;0.0352)|all_neural(266;0.116)				CCTGCTCCCACTTGACAGGGG	0.428													26	64	---	---	---	---	PASS	T	44793161	T	T	44793161	3	4	49	1	0	0	0	0	1	0	0	0	17785	565	20	3	1793	3	ZNF235	19	44793161	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	3785276	44793161	14335822	167	18904										
PVRL2	5819	broad.mit.edu	37	chr19	45368682	45368682	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gcacctgcgaaccaccagaaTgtggccgccttccaccctaa	8	17	0	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:45368682T>C	uc002ozw.1	+	2	633	c.243T>C	c.(241-243)AAT>AAC	p.N81N	PVRL2_uc002ozv.2_Silent_p.N81N	NM_001042724	NP_001036189	Q92692	PVRL2_HUMAN	poliovirus receptor related 2 isoform delta	81	Ig-like V-type.|Extracellular (Potential).				adherens junction organization|adhesion to symbiont|cell junction assembly|homophilic cell adhesion|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|susceptibility to natural killer cell mediated cytotoxicity|susceptibility to T cell mediated cytotoxicity|viral envelope fusion with host membrane|virion attachment, binding of host cell surface coreceptor	cell surface|integral to membrane|zonula adherens	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0	Lung NSC(12;0.00195)|all_lung(12;0.00522)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0143)		ACCACCAGAATGTGGCCGCCT	0.647													9	22	---	---	---	---	PASS	C	45368682	C	C	45368682	2	2	49	1	0	0	0	0	0	0	0	1	12840	1461	51	5		5	PVRL2	19	45368682	Silent	SNP	T	TCGA-22-5482-01A-01D-1632-08	575521	45368682	13760301	168	18905										
CLPTM1	1209	broad.mit.edu	37	chr19	45477734	45477734	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tcagagcacgagcactttacAgacttcaacgccacgtcggc	9	14	2	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:45477734A>G	uc002pai.2	+	4	363	c.348A>G	c.(346-348)ACA>ACG	p.T116T	CLPTM1_uc010ejv.1_Silent_p.T14T|CLPTM1_uc010xxf.1_Silent_p.T14T|CLPTM1_uc010xxg.1_Silent_p.T102T	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane	116	Extracellular (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)		AGCACTTTACAGACTTCAACG	0.557													11	36	---	---	---	---	PASS	G	45477734	G	G	45477734	2	3	49	1	0	0	0	0	0	0	0	1	3554	175	7	5		5	CLPTM1	19	45477734	Silent	SNP	A	TCGA-22-5482-01A-01D-1632-08	109052	45477734	13651249	169	18906										
ZNF808	388558	broad.mit.edu	37	chr19	53057901	53057901	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aatgtgggaaagcttttaatCaacaatcacatctttcacgt	6	8	4	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:53057901C>G	uc010epq.1	+	5	1909	c.1732C>G	c.(1732-1734)CAA>GAA	p.Q578E	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	578	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		AGCTTTTAATCAACAATCACA	0.373													30	65	---	---	---	---	PASS	G	53057901	G	G	53057901	3	3	49	1	0	0	0	0	1	0	0	0	18170	827	29	2	1742	2	ZNF808	19	53057901	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	7580167	53057901	6071082	170	18907										
FCAR	2204	broad.mit.edu	37	chr19	55401172	55401172	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gtggctgaaccgagctggagCcaacagatgtgtcagccagg	15	10	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:55401172C>A	uc002qhr.1	+	5	1004	c.807C>A	c.(805-807)AGC>AGA	p.S269R	FCAR_uc002qhs.1_RNA|FCAR_uc002qht.1_Missense_Mutation_p.S220R|FCAR_uc010esi.1_Missense_Mutation_p.S146R|FCAR_uc002qhu.1_Missense_Mutation_p.S173R|FCAR_uc002qhv.1_Missense_Mutation_p.S247R|FCAR_uc002qhw.1_Missense_Mutation_p.S257R|FCAR_uc002qhx.1_Missense_Mutation_p.S161R|FCAR_uc002qhy.1_Missense_Mutation_p.S235R|FCAR_uc002qhz.1_3'UTR|FCAR_uc002qia.1_Missense_Mutation_p.S160R	NM_002000	NP_001991	P24071	FCAR_HUMAN	Fc alpha receptor isoform a precursor	269	Cytoplasmic (Potential).				immune response	extracellular region|integral to plasma membrane	IgA binding|receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0443)		CGAGCTGGAGCCAACAGATGT	0.547													30	75	---	---	---	---	PASS	A	55401172	A	A	55401172	3	1	49	1	0	0	0	0	1	0	0	0	5773	738	26	3	896	3	FCAR	19	55401172	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	2343271	55401172	3727811	171	18908										
DUXA	503835	broad.mit.edu	37	chr19	57678802	57678802	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cttactgtgtgaataggtgtCttcggccatgctggaagaga	13	7	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr19:57678802C>A	uc002qoa.1	-	1	55	c.10G>T	c.(10-12)GAC>TAC	p.D4Y		NM_001012729	NP_001012747	A6NLW8	DUXA_HUMAN	double homeobox A	4						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0123)		GAATAGGTGTCTTCGGCCATG	0.502													27	66	---	---	---	---	PASS	A	57678802	A	A	57678802	3	1	49	1	0	0	0	0	1	0	0	0	4834	913	32	2	628	2	DUXA	19	57678802	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	2277630	57678802	1450181	172	18909										
NKX2-2	4821	broad.mit.edu	37	chr20	21492936	21492936	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ggcgccgacaggtaccgctgCtgccgaaagcgccgctccag	14	16	0	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr20:21492936C>A	uc002wsi.2	-	2	804	c.447G>T	c.(445-447)CAG>CAT	p.Q149H		NM_002509	NP_002500	O95096	NKX22_HUMAN	NK2 transcription factor related, locus 2	149	Homeobox.				brain development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	chromatin binding|core promoter proximal region DNA binding|transcription coactivator activity			pancreas(1)|skin(1)	2						GGTACCGCTGCTGCCGAAAGC	0.672													8	27	---	---	---	---	PASS	A	21492936	A	A	21492936	3	1	49	1	0	0	0	0	1	0	0	0	10450	796	28	3	378	3	NKX2-2	20	21492936	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08		21492936	41532584	173	18910										
PLAGL2	5326	broad.mit.edu	37	chr20	30784376	30784376	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cagctcctggggaatcttgaGgctgagcttgcaaagtggta	14	8	1	2	rs142086831		TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr20:30784376G>T	uc002wxn.2	-	3	1587	c.1370C>A	c.(1369-1371)CCT>CAT	p.P457H		NM_002657	NP_002648	Q9UPG8	PLAL2_HUMAN	pleiomorphic adenoma gene-like 2	457						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			GGAATCTTGAGGCTGAGCTTG	0.622													6	19	---	---	---	---	PASS	T	30784376	T	T	30784376	3	4	49	1	0	0	0	0	1	0	0	0	12020	1000	35	3	124	3	PLAGL2	20	30784376	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	9291440	30784376	32241144	174	18911										
EMILIN3	90187	broad.mit.edu	37	chr20	39991677	39991677	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttccagccgctcaccaaacaGccctgggcctttccttcctg	7	18	1	0			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr20:39991677G>A	uc002xjy.1	-	4	756	c.532C>T	c.(532-534)CTG>TTG	p.L178L		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	178						proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				TCACCAAACAGCCCTGGGCCT	0.597													5	5	---	---	---	---	PASS	A	39991677	A	A	39991677	2	1	49	1	0	0	0	0	0	0	0	1	5095	962	34	3		3	EMILIN3	20	39991677	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08	9207301	39991677	23033843	175	18912										
NPEPL1	79716	broad.mit.edu	37	chr20	57273764	57273764	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tagcgaatgccacagacggcGtgcggctagcagcccgcatc	13	14	0	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr20:57273764G>A	uc010zzs.1	+	4	627	c.532G>A	c.(532-534)GTG>ATG	p.V178M	NPEPL1_uc010zzr.1_Missense_Mutation_p.V130M|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Missense_Mutation_p.V150M|NPEPL1_uc002xzp.2_Missense_Mutation_p.V66M	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	178					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			CACAGACGGCGTGCGGCTAGC	0.602													7	30	---	---	---	---	PASS	A	57273764	A	A	57273764	3	1	49	1	0	0	0	0	1	0	0	0	10574	1145	40	1	392	1	NPEPL1	20	57273764	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	17282087	57273764	5751756	176	18913										
TPTE	7179	broad.mit.edu	37	chr21	10942991	10942991	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aaattcttaacagaataataAgtcgtagaagtcgaagtaaa	7	4	1	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr21:10942991A>T	uc002yip.1	-	12	964	c.596T>A	c.(595-597)CTT>CAT	p.L199H	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.L181H|TPTE_uc002yir.1_Missense_Mutation_p.L161H|TPTE_uc010gkv.1_Missense_Mutation_p.L61H	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	199					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CAGAATAATAAGTCGTAGAAG	0.308													8	53	---	---	---	---	PASS	T	10942991	T	T	10942991	3	4	49	1	0	0	0	0	1	0	0	0	16427	72	3	5	1111	5	TPTE	21	10942991	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08		10942991	37186904	177	18914										
NCAM2	4685	broad.mit.edu	37	chr21	22849615	22849615	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ttttattgctttcacagaaaGataaggaagaccaatggcta	8	6	1	3			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr21:22849615G>A	uc002yld.1	+	15	2149	c.1900G>A	c.(1900-1902)GAT>AAT	p.D634N	NCAM2_uc011acb.1_Missense_Mutation_p.D492N	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	634	Fibronectin type-III 2.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TTCACAGAAAGATAAGGAAGA	0.328													9	17	---	---	---	---	PASS	A	22849615	A	A	22849615	3	1	49	1	0	0	0	0	1	0	0	0	10203	942	33	2	1958	2	NCAM2	21	22849615	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	11906624	22849615	25280280	178	18915										
RNF160	26046	broad.mit.edu	37	chr21	30302818	30302818	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	caagtggatttgttgctagaTgtaaaccatttgtactgaaa	9	5	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr21:30302818T>C	uc002ymr.2	-	30	5404	c.5391A>G	c.(5389-5391)ACA>ACG	p.T1797T		NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	1751	RING-type.						ligase activity|zinc ion binding				0						TGTTGCTAGATGTAAACCATT	0.338													17	59	---	---	---	---	PASS	C	30302818	C	C	30302818	2	2	49	1	0	0	0	0	0	0	0	1	13455	1451	51	5		5	RNF160	21	30302818	Silent	SNP	T	TCGA-22-5482-01A-01D-1632-08	7453203	30302818	17827077	179	18916										
ZNF74	7625	broad.mit.edu	37	chr22	20760468	20760468	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cacacgccaccaccgcatccAcacgggcgagaagccctacc	8	20	0	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr22:20760468A>G	uc010gsm.2	+	6	1357	c.1145A>G	c.(1144-1146)CAC>CGC	p.H382R	ZNF74_uc002zsg.2_Missense_Mutation_p.H311R|ZNF74_uc002zsh.2_Missense_Mutation_p.H382R|ZNF74_uc002zsi.2_Missense_Mutation_p.H311R|ZNF74_uc010gsn.2_Missense_Mutation_p.H311R	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	382	C2H2-type 5.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CACCGCATCCACACGGGCGAG	0.657													10	34	---	---	---	---	PASS	G	20760468	G	G	20760468	3	3	49	1	0	0	0	0	1	0	0	0	18124	159	6	5	1163	5	ZNF74	22	20760468	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08		20760468	30544098	180	18917										
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31835938	31835938	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ggcaggggttgctgtagcacAtctgagccaaaccatttggc	13	10	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chr22:31835938A>G	uc003akz.1	-	19	3050	c.2886T>C	c.(2884-2886)GAT>GAC	p.D962D	EIF4ENIF1_uc003akx.1_Silent_p.D617D|EIF4ENIF1_uc003aky.1_Silent_p.D642D|EIF4ENIF1_uc003ala.1_Silent_p.D962D|EIF4ENIF1_uc003alb.1_Silent_p.D788D|EIF4ENIF1_uc003akw.1_Silent_p.D452D	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	962						nucleus	protein binding|protein transporter activity			ovary(1)	1						GCTGTAGCACATCTGAGCCAA	0.602													9	51	---	---	---	---	PASS	G	31835938	G	G	31835938	2	3	49	1	0	0	0	0	0	0	0	1	5035	214	8	5		5	EIF4ENIF1	22	31835938	Silent	SNP	A	TCGA-22-5482-01A-01D-1632-08	11075470	31835938	19468628	181	18918										
ARSF	416	broad.mit.edu	37	chrX	3030249	3030249	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	aaggctcactatgtgaccccGgtattccagccaccagcttc	8	15	1	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chrX:3030249G>C	uc004cre.1	+	11	1646	c.1425G>C	c.(1423-1425)CCG>CCC	p.P475P	ARSF_uc004crf.1_Silent_p.P475P	NM_004042	NP_004033	P54793	ARSF_HUMAN	arylsulfatase F precursor	475						extracellular region	arylsulfatase activity|metal ion binding			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ATGTGACCCCGGTATTCCAGC	0.363													20	10	---	---	---	---	PASS	C	3030249	C	C	3030249	2	2	49	1	0	0	0	0	0	0	0	1	991	1103	39	4		4	ARSF	23	3030249	Silent	SNP	G	TCGA-22-5482-01A-01D-1632-08		3030249	152240311	182	18919										
TLR8	51311	broad.mit.edu	37	chrX	12937337	12937337	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gactacaggaagttccccaaAcggtgggcaaatatgtgaca	11	9	0	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chrX:12937337A>G	uc004cve.2	+	2	246	c.178A>G	c.(178-180)ACG>GCG	p.T60A	TLR8_uc004cvd.2_Missense_Mutation_p.T78A	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	60	Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						AGTTCCCCAAACGGTGGGCAA	0.383													3	41	---	---	---	---	PASS	G	12937337	G	G	12937337	3	3	49	1	0	0	0	0	1	0	0	0	15954	43	2	5	184	5	TLR8	23	12937337	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08	9907088	12937337	142333223	183	18920										
DMD	1756	broad.mit.edu	37	chrX	31462724	31462724	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ctcacgttctctttcagaggCgcaatttctcctcgaagtgc	8	13	4	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chrX:31462724C>T	uc004dda.1	-	60	9202	c.8958G>A	c.(8956-8958)GCG>GCA	p.A2986A	DMD_uc004dcq.1_Silent_p.A257A|DMD_uc004dcr.1_Silent_p.A526A|DMD_uc004dcs.1_Silent_p.A526A|DMD_uc004dct.1_Silent_p.A526A|DMD_uc004dcu.1_Silent_p.A526A|DMD_uc004dcv.1_Silent_p.A526A|DMD_uc004dcw.2_Silent_p.A1642A|DMD_uc004dcx.2_Silent_p.A1645A|DMD_uc004dcz.2_Silent_p.A2863A|DMD_uc004dcy.1_Silent_p.A2982A|DMD_uc004ddb.1_Silent_p.A2978A	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2986	Spectrin 22.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTTTCAGAGGCGCAATTTCTC	0.453													11	6	---	---	---	---	PASS	T	31462724	T	T	31462724	2	4	49	1	0	0	0	0	0	0	0	1	4580	755	27	1		1	DMD	23	31462724	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	18525387	31462724	123807836	184	18921										
MAOB	4129	broad.mit.edu	37	chrX	43702931	43702931	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	cttaccctaagagtgtaagtCctgcctcccacacggtcccg	8	16	0	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chrX:43702931C>T	uc004dfz.3	-	2	302	c.126G>A	c.(124-126)AGG>AGA	p.R42R	MAOB_uc011mkx.1_Silent_p.R26R|MAOB_uc011mky.1_Silent_p.R26R|MAOB_uc010nhj.2_Silent_p.R42R	NM_000898	NP_000889	P27338	AOFB_HUMAN	monoamine oxidase B	42	Arg/Lys-rich (basic).|Cytoplasmic.				xenobiotic metabolic process	integral to membrane|mitochondrial outer membrane	electron carrier activity|primary amine oxidase activity			ovary(1)|central_nervous_system(1)	2					Amantadine(DB00915)|Bupropion(DB01156)|Carbidopa(DB00190)|Citalopram(DB00215)|Dopamine(DB00988)|Entacapone(DB00494)|Furazolidone(DB00614)|Ginkgo biloba(DB01381)|Ibuprofen(DB01050)|Imipramine(DB00458)|Iproniazid(DB04818)|Isocarboxazid(DB01247)|Levodopa(DB01235)|Maprotiline(DB00934)|Meclizine(DB00737)|Moclobemide(DB01171)|Nicotine(DB00184)|Pargyline(DB01626)|Phenelzine(DB00780)|Phentermine(DB00191)|Rasagiline(DB01367)|Selegiline(DB01037)|Tranylcypromine(DB00752)	GAGTGTAAGTCCTGCCTCCCA	0.483													16	8	---	---	---	---	PASS	T	43702931	T	T	43702931	2	4	49	1	0	0	0	0	0	0	0	1	9226	854	30	2		2	MAOB	23	43702931	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	12240207	43702931	111567629	185	18922										
PGAM4	441531	broad.mit.edu	37	chrX	77224608	77224608	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	atcagtacacgtttcccctcCttgatctggggaactatttc	7	12	2	1			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chrX:77224608C>T	uc004ecy.1	-	1	528	c.528G>A	c.(526-528)AAG>AAA	p.K176K	ATP7A_uc004ecw.2_Intron|ATP7A_uc004ecx.3_Intron	NM_001029891	NP_001025062	Q8N0Y7	PGAM4_HUMAN	bisphosphoglycerate mutase 4	176					glycolysis		2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity|phosphoglycerate mutase activity				0						GTTTCCCCTCCTTGATCTGGG	0.522													33	12	---	---	---	---	PASS	T	77224608	T	T	77224608	2	4	49	1	0	0	0	0	0	0	0	1	11775	680	24	3		3	PGAM4	23	77224608	Silent	SNP	C	TCGA-22-5482-01A-01D-1632-08	33521677	77224608	78045952	186	18923										
ATP7A	538	broad.mit.edu	37	chrX	77301842	77301842	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	ctgcctgcccggagccagatAggacagaagagtccttcaga	12	12	1	4			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chrX:77301842A>G	uc004ecx.3	+	23	4438	c.4278A>G	c.(4276-4278)ATA>ATG	p.I1426M		NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	1426	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						GGAGCCAGATAGGACAGAAGA	0.403													57	27	---	---	---	---	PASS	G	77301842	G	G	77301842	3	3	49	1	0	0	0	0	1	0	0	0	1190	410	15	5	4364	5	ATP7A	23	77301842	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08	77234	77301842	77968718	187	18924										
PABPC5	140886	broad.mit.edu	37	chrX	90691561	90691561	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tttcttcctttgggtcaattAgtcgggccaaagtgatgatg	11	7	2	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chrX:90691561A>T	uc004efg.2	+	2	1425	c.985A>T	c.(985-987)AGT>TGT	p.S329C	PABPC5_uc004eff.1_Missense_Mutation_p.S165C	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	329	RRM 4.					cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						TGGGTCAATTAGTCGGGCCAA	0.443													20	10	---	---	---	---	PASS	T	90691561	T	T	90691561	3	4	49	1	0	0	0	0	1	0	0	0	11367	420	15	5	987	5	PABPC5	23	90691561	Missense_Mutation	SNP	A	TCGA-22-5482-01A-01D-1632-08	13389719	90691561	64578999	188	18925										
ZDHHC9	51114	broad.mit.edu	37	chrX	128957694	128957694	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	gctgcaatgggaggcccgggGaggccggaagatcttgcatg	18	9	1	1	rs137852215		TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chrX:128957694G>A	uc004euv.2	-	4	817	c.448C>T	c.(448-450)CCC>TCC	p.P150S	ZDHHC9_uc004euw.2_Missense_Mutation_p.P150S|ZDHHC9_uc004eux.1_Missense_Mutation_p.P150S|ZDHHC9_uc004euy.1_Missense_Mutation_p.P77S	NM_001008222	NP_001008223	Q9Y397	ZDHC9_HUMAN	zinc finger, DHHC domain containing 9	150	Cytoplasmic (Potential).|DHHC-type.		P -> S (in MRXSZ).			endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1						GAGGCCCGGGGAGGCCGGAAG	0.507													33	27	---	---	---	---	PASS	A	128957694	A	A	128957694	3	1	49	1	0	0	0	0	1	0	0	0	17619	1174	41	2	674	2	ZDHHC9	23	128957694	Missense_Mutation	SNP	G	TCGA-22-5482-01A-01D-1632-08	38266133	128957694	26312866	189	18926										
GABRA3	2556	broad.mit.edu	37	chrX	151336921	151336921	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	16	0.0450642815811372	1.66984126984127	2.37293233082707	1.4177897574124	0.353412512653542	0.753662828188879	6	tgaggaggcactgggagcagCgcccttggagatggtggaaa	18	7	0	2			TCGA-22-5482-01A-01D-1632-08	TCGA-22-5482-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	b57c316e-1cae-4286-bdbb-8b65c020b3fa	8de8fa4e-9c5a-405b-8ea9-f47a4e5f05ec	g.chrX:151336921C>T	uc010ntk.1	-	10	1498	c.1258G>A	c.(1258-1260)GCT>ACT	p.A420T		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	420	Cytoplasmic (Probable).				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	p.A420T(1)		ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CTGGGAGCAGCGCCCTTGGAG	0.552													64	31	---	---	---	---	PASS	T	151336921	T	T	151336921	3	4	49	1	0	0	0	0	1	0	0	0	6162	768	27	1	224	1	GABRA3	23	151336921	Missense_Mutation	SNP	C	TCGA-22-5482-01A-01D-1632-08	22379227	151336921	3933639	190	18927										
CAMTA1	23261	broad.mit.edu	37	chr1	7724962	7724962	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gacttcatctccgtggagggGggcagcagcaccatctatgg	14	11	3	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:7724962G>A	uc001aoi.2	+	9	2562	c.2355G>A	c.(2353-2355)GGG>GGA	p.G785G		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	785					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		CCGTGGAGGGGGGCAGCAGCA	0.627													84	173	---	---	---	---	PASS	A	7724962	A	A	7724962	2	1	50	1	0	0	0	0	0	0	0	1	2613	1219	43	3		3	CAMTA1	1	7724962	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08		7724962	241525659	1	18928										
H6PD	9563	broad.mit.edu	37	chr1	9323588	9323588	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ccgtcctagtgcacattgacAaccttcgctgggagggcgtg	13	12	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:9323588A>G	uc001apt.2	+	5	1309	c.1036A>G	c.(1036-1038)AAC>GAC	p.N346D		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	346	Glucose 1-dehydrogenase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	GCACATTGACAACCTTCGCTG	0.607													27	42	---	---	---	---	PASS	G	9323588	G	G	9323588	3	3	50	1	0	0	0	0	1	0	0	0	6936	130	5	5	1050	5	H6PD	1	9323588	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	1598626	9323588	239927033	2	18929										
KIF17	57576	broad.mit.edu	37	chr1	21031280	21031280	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gagagcgacaggttgatcttGgtggcctccttgagccgctc	14	11	1	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:21031280G>C	uc001bdr.3	-	5	901	c.783C>G	c.(781-783)ACC>ACG	p.T261T	KIF17_uc001bds.3_Silent_p.T261T	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	261	Kinesin-motor.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		GGTTGATCTTGGTGGCCTCCT	0.682													34	49	---	---	---	---	PASS	C	21031280	C	C	21031280	2	2	50	1	0	0	0	0	0	0	0	1	8279	1335	47	4		4	KIF17	1	21031280	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	11707692	21031280	228219341	3	18930										
EIF4G3	8672	broad.mit.edu	37	chr1	21139701	21139701	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttaaagctctaaggaatgtaGgtgaactcatctggatttcg	10	6	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:21139701G>C	uc001bec.2	-	30	4635	c.4379C>G	c.(4378-4380)CCT>CGT	p.P1460R	EIF4G3_uc010odi.1_Missense_Mutation_p.P1064R|EIF4G3_uc010odj.1_Missense_Mutation_p.P1459R|EIF4G3_uc009vpz.2_Missense_Mutation_p.P1180R|EIF4G3_uc001bed.2_Missense_Mutation_p.P1460R|EIF4G3_uc001bef.2_Missense_Mutation_p.P1496R|EIF4G3_uc001bee.2_Missense_Mutation_p.P1466R	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	1460	EIF4A-binding (By similarity).|W2.				interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		AAGGAATGTAGGTGAACTCAT	0.308													14	30	---	---	---	---	PASS	C	21139701	C	C	21139701	3	2	50	1	0	0	0	0	1	0	0	0	5038	1000	35	4	390	4	EIF4G3	1	21139701	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	108421	21139701	228110920	4	18931										
EPHB2	2048	broad.mit.edu	37	chr1	23189667	23189667	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	acagagcagacctggaccccCtggacatgccctgcacaagt	10	15	0	2	rs150415344		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:23189667C>A	uc009vqj.1	+	4	1094	c.949C>A	c.(949-951)CTG>ATG	p.L317M	EPHB2_uc001bge.2_Missense_Mutation_p.L317M|EPHB2_uc001bgf.2_Missense_Mutation_p.L317M|EPHB2_uc010odu.1_Missense_Mutation_p.L317M|hsa-mir-4253|MI0015860_RNA	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	317	Extracellular (Potential).|Cys-rich.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		CCTGGACCCCCTGGACATGCC	0.597									Hereditary_Prostate_Cancer				20	32	---	---	---	---	PASS	A	23189667	A	A	23189667	3	1	50	1	0	0	0	0	1	0	0	0	5175	680	24	3	963	3	EPHB2	1	23189667	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	2049966	23189667	226060954	5	18932										
RHD	6007	broad.mit.edu	37	chr1	25599144	25599144	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atttttttacccactatgacGcttccttagaggatcaaaag	6	9	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:25599144G>A	uc001bjz.2	+	1	164	c.106G>A	c.(106-108)GCT>ACT	p.A36T	RHD_uc010oep.1_Missense_Mutation_p.A36T|RHD_uc001bkc.2_Missense_Mutation_p.A36T|RHD_uc009vrm.2_5'UTR|RHD_uc001bka.2_Missense_Mutation_p.A36T|RHD_uc001bkb.2_Missense_Mutation_p.A36T|RHD_uc009vrn.2_Missense_Mutation_p.A36T|RHD_uc009vro.2_Missense_Mutation_p.A36T|RHD_uc009vrp.2_Missense_Mutation_p.A36T	NM_016124	NP_057208	Q02161	RHD_HUMAN	Rh blood group D antigen isoform 1	36						integral to plasma membrane				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.39e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000332)|BRCA - Breast invasive adenocarcinoma(304;0.000438)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000908)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CCACTATGACGCTTCCTTAGA	0.547													10	62	---	---	---	---	PASS	A	25599144	A	A	25599144	3	1	50	1	0	0	0	0	1	0	0	0	13327	1087	38	1	108	1	RHD	1	25599144	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	2409477	25599144	223651477	6	18933										
RSPO1	284654	broad.mit.edu	37	chr1	38082241	38082241	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	acgcccacctggcggatgtcGttcctctccagcaggatgaa	11	14	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:38082241G>T	uc001cbl.1	-	5	989	c.201C>A	c.(199-201)AAC>AAA	p.N67K	RSPO1_uc001cbm.1_Missense_Mutation_p.N67K|RSPO1_uc009vvf.1_Missense_Mutation_p.N40K|RSPO1_uc009vvg.1_Missense_Mutation_p.N67K	NM_001038633	NP_001033722	Q2MKA7	RSPO1_HUMAN	R-spondin1 precursor	67	FU 1.				positive regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization		heparin binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GGCGGATGTCGTTCCTCTCCA	0.617													15	53	---	---	---	---	PASS	T	38082241	T	T	38082241	3	4	50	1	0	0	0	0	1	0	0	0	13709	1136	40	1	606	1	RSPO1	1	38082241	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	12483097	38082241	211168380	7	18934										
TIE1	7075	broad.mit.edu	37	chr1	43775104	43775104	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	agaagaccacagctgagttcGaggtgccccgcttggttctt	12	11	1	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:43775104G>C	uc001ciu.2	+	9	1313	c.1234G>C	c.(1234-1236)GAG>CAG	p.E412Q	TIE1_uc010okd.1_Missense_Mutation_p.E412Q|TIE1_uc010oke.1_Missense_Mutation_p.E367Q|TIE1_uc009vwq.2_Missense_Mutation_p.E368Q|TIE1_uc010okf.1_Missense_Mutation_p.E57Q|TIE1_uc010okg.1_Missense_Mutation_p.E57Q|TIE1_uc010okc.1_3'UTR	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	412	Ig-like C2-type 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AGCTGAGTTCGAGGTGCCCCG	0.597													10	27	---	---	---	---	PASS	C	43775104	C	C	43775104	3	2	50	1	0	0	0	0	1	0	0	0	15890	1059	37	2	1268	2	TIE1	1	43775104	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	5692863	43775104	205475517	8	18935										
ZSWIM5	57643	broad.mit.edu	37	chr1	45501360	45501360	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	actgggaaagggctacccacCtcatggcacgtaaggctaat	11	11	1	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:45501360C>T	uc001cnd.2	-	10	2519	c.2291G>A	c.(2290-2292)AGG>AAG	p.R764K		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	764							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					GGCTACCCACCTCATGGCACG	0.463													15	17	---	---	---	---	PASS	T	45501360	T	T	45501360	3	4	50	1	0	0	0	0	1	0	0	0	18241	695	24	3	1286	3	ZSWIM5	1	45501360	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	1726256	45501360	203749261	9	18936										
PRDX1	5052	broad.mit.edu	37	chr1	45980646	45980646	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttcatgggtcccagtcctccTtgtttcttaggtgtattgac	9	10	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:45980646T>C	uc001cnz.2	-	3	314	c.282A>G	c.(280-282)CAA>CAG	p.Q94Q	PRDX1_uc001coa.2_Silent_p.Q94Q|PRDX1_uc001cob.2_Silent_p.Q94Q|PRDX1_uc001coc.2_Silent_p.Q94Q	NM_181697	NP_859048	Q06830	PRDX1_HUMAN	peroxiredoxin 1	94	Thioredoxin.				cell proliferation|cell redox homeostasis|hydrogen peroxide catabolic process|skeletal system development	melanosome|mitochondrion|nucleus	protein binding|thioredoxin peroxidase activity				0	Acute lymphoblastic leukemia(166;0.155)					CCAGTCCTCCTTGTTTCTTAG	0.453													55	105	---	---	---	---	PASS	C	45980646	C	C	45980646	2	2	50	1	0	0	0	0	0	0	0	1	12464	1606	56	5		5	PRDX1	1	45980646	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	479286	45980646	203269975	10	18937										
LPPR5	163404	broad.mit.edu	37	chr1	99422237	99422237	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	agttaaaatagttttttcctGgttttcaaaatcccttgtgg	7	6	1	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:99422237G>T	uc001dsb.2	-	2	520	c.298C>A	c.(298-300)CAG>AAG	p.Q100K	LPPR5_uc001dsc.2_Missense_Mutation_p.Q100K	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	100						integral to membrane	hydrolase activity				0						GTTTTTTCCTGGTTTTCAAAA	0.328													16	38	---	---	---	---	PASS	T	99422237	T	T	99422237	3	4	50	1	0	0	0	0	1	0	0	0	8928	1357	47	3	687	3	LPPR5	1	99422237	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	53441591	99422237	149828384	11	18938										
KCNC4	3749	broad.mit.edu	37	chr1	110754721	110754721	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ggaggcgcgggccatggcgcCgggtctgggggctgccgcgg	23	12	1	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:110754721C>A	uc001dzh.2	+	1	657	c.600C>A	c.(598-600)GCC>GCA	p.A200A	KCNC4_uc001dzf.2_Silent_p.A200A|KCNC4_uc009wfr.2_Silent_p.A200A|KCNC4_uc001dzg.2_Silent_p.A200A|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	200	Cytoplasmic (Potential).				synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		all_cancers(81;9.88e-06)|all_epithelial(167;3.23e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0238)|all cancers(265;0.0693)|Epithelial(280;0.0748)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.135)		GCCATGGCGCCGGGTCTGGGG	0.771													4	4	---	---	---	---	PASS	A	110754721	A	A	110754721	2	1	50	1	0	0	0	0	0	0	0	1	8017	639	23	1		1	KCNC4	1	110754721	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	11332484	110754721	138495900	12	18939										
TARS2	80222	broad.mit.edu	37	chr1	150477408	150477408	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gtggctgtccccgttccaggTggtggtcatccctgtgggga	16	11	1	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:150477408T>C	uc001euq.2	+	16	1854	c.1847T>C	c.(1846-1848)GTG>GCG	p.V616A	TARS2_uc001eur.2_Missense_Mutation_p.V534A|TARS2_uc009wlt.2_Missense_Mutation_p.V242A|TARS2_uc009wls.2_Missense_Mutation_p.V486A	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	616					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	CCGTTCCAGGTGGTGGTCATC	0.552													13	39	---	---	---	---	PASS	C	150477408	C	C	150477408	3	2	50	1	0	0	0	0	1	0	0	0	15557	1696	59	5	1909	5	TARS2	1	150477408	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	39722687	150477408	98773213	13	18940										
RPTN	126638	broad.mit.edu	37	chr1	152129048	152129048	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgtggtgagaatctctgtctTgtctctcaggctgactgtgg	13	8	4	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:152129048T>A	uc001ezs.1	-	3	592	c.527A>T	c.(526-528)CAA>CTA	p.Q176L		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	176	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						ATCTCTGTCTTGTCTCTCAGG	0.468													205	195	---	---	---	---	PASS	A	152129048	A	A	152129048	3	1	50	1	0	0	0	0	1	0	0	0	13664	1812	63	5	1831	5	RPTN	1	152129048	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	1651640	152129048	97121573	14	18941										
HCN3	57657	broad.mit.edu	37	chr1	155252407	155252407	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctgagatcctgctggcaccgCgggccatccgcacgcgctac	12	17	0	1	rs34277242		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:155252407C>T	uc001fjz.1	+	2	492	c.484C>T	c.(484-486)CGG>TGG	p.R162W	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_5'UTR	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	162	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(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)			GCTGGCACCGCGGGCCATCCG	0.567													37	53	---	---	---	---	PASS	T	155252407	T	T	155252407	3	4	50	1	0	0	0	0	1	0	0	0	6998	759	27	1	490	1	HCN3	1	155252407	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	3123359	155252407	93998214	15	18942										
KLHL20	27252	broad.mit.edu	37	chr1	173703000	173703000	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctcgacaaaccttggaagtgAttaaccttctgagaaagcac	8	10	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:173703000A>T	uc001gjc.2	+	3	351	c.172A>T	c.(172-174)ATT>TTT	p.I58F	KLHL20_uc010pmr.1_Intron|KLHL20_uc009wwf.2_Missense_Mutation_p.I40F|KLHL20_uc001gjd.2_Missense_Mutation_p.I58F	NM_014458	NP_055273	Q9Y2M5	KLH20_HUMAN	kelch-like 20	58					cytoskeleton organization|negative regulation of apoptosis|proteasomal ubiquitin-dependent protein catabolic process|response to interferon-alpha	actin cytoskeleton|cell surface|Cul3-RING ubiquitin ligase complex|Golgi apparatus|perinuclear region of cytoplasm|PML body	actin binding|interferon-gamma binding|ubiquitin-protein ligase activity			ovary(1)	1						CTTGGAAGTGATTAACCTTCT	0.527													19	77	---	---	---	---	PASS	T	173703000	T	T	173703000	3	4	50	1	0	0	0	0	1	0	0	0	8375	333	12	5	178	5	KLHL20	1	173703000	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	18450593	173703000	75547621	16	18943										
RC3H1	149041	broad.mit.edu	37	chr1	173907969	173907969	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ggtcttgtttgataggaggcTgatattctcttgtgtcaagg	13	5	3	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:173907969T>A	uc001gju.3	-	19	3379	c.3292A>T	c.(3292-3294)AGC>TGC	p.S1098C	RC3H1_uc010pms.1_Missense_Mutation_p.S1089C|RC3H1_uc001gjv.2_Missense_Mutation_p.S1090C|RC3H1_uc010pmt.1_Missense_Mutation_p.S1099C	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	1098					cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GATAGGAGGCTGATATTCTCT	0.413													52	46	---	---	---	---	PASS	A	173907969	A	A	173907969	3	1	50	1	0	0	0	0	1	0	0	0	13166	1580	55	5	113	5	RC3H1	1	173907969	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	204969	173907969	75342652	17	18944										
HMCN1	83872	broad.mit.edu	37	chr1	186072723	186072723	+	Missense_Mutation	SNP	G	T	T													0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctaaaatgacctggatgaaaGatggccggccccttccacag							TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:186072723G>T	uc001grq.1	+	69	10922	c.10693G>T	c.(10693-10695)GAT>TAT	p.D3565Y		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3565	Ig-like C2-type 34.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CTGGATGAAAGATGGCCGGCC	0.438													27	24	---	---	---	---	PASS	T	186072723	T	T	186072723	3	4	50	1	0	0	0	0	1	0	0	0	7220	942	33	2	10967	2	HMCN1	1	186072723	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	12164754	186072723	63177898	18	18945	432	2								
HMCN1	83872	broad.mit.edu	37	chr1	186072724	186072724	+	Missense_Mutation	SNP	A	T	T													0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	taaaatgacctggatgaaagAtggccggccccttccacaga							TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:186072724A>T	uc001grq.1	+	69	10923	c.10694A>T	c.(10693-10695)GAT>GTT	p.D3565V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3565	Ig-like C2-type 34.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TGGATGAAAGATGGCCGGCCC	0.438													27	22	---	---	---	---	PASS	T	186072724	T	T	186072724	3	4	50	1	0	0	0	0	1	0	0	0	7220	333	12	5	10968	5	HMCN1	1	186072724	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	1	186072724	63177897	19	18946	432	2								
KCNT2	343450	broad.mit.edu	37	chr1	196461394	196461394	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atgaaatgaataacttacttGatctctggttttttatgaaa	6	4	1	4			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:196461394G>C	uc001gtd.1	-	2	233	c.173C>G	c.(172-174)TCA>TGA	p.S58*	KCNT2_uc001gte.1_Nonsense_Mutation_p.S58*|KCNT2_uc001gtf.1_Nonsense_Mutation_p.S58*|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Nonsense_Mutation_p.S58*|KCNT2_uc009wyv.1_Nonsense_Mutation_p.S58*	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	58	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TAACTTACTTGATCTCTGGTT	0.259													5	6	---	---	---	---	PASS	C	196461394	C	C	196461394	4	2	50	1	0	0	0	0	0	1	0	0	8092	1294	45	2	3342	2	KCNT2	1	196461394	Nonsense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	10388670	196461394	52789227	20	18947										
CRB1	23418	broad.mit.edu	37	chr1	197404496	197404496	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tcattgctcctgtcccttggGatggtcagggaaacactgtg	12	10	2	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:197404496G>A	uc001gtz.2	+	9	3638	c.3503G>A	c.(3502-3504)GGA>GAA	p.G1168E	CRB1_uc010poz.1_Missense_Mutation_p.G1144E|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.G1056E|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.G649E|CRB1_uc001gub.1_Missense_Mutation_p.G817E	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1168	Extracellular (Potential).|EGF-like 15.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TGTCCCTTGGGATGGTCAGGG	0.473													10	40	---	---	---	---	PASS	A	197404496	A	A	197404496	3	1	50	1	0	0	0	0	1	0	0	0	3848	1174	41	2	3537	2	CRB1	1	197404496	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	943102	197404496	51846125	21	18948										
NAV1	89796	broad.mit.edu	37	chr1	201687855	201687855	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gtgacctcatgggcaagaccAtgacggaggatgatgacatc	13	9	1	5			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:201687855A>T	uc001gwu.2	+	3	1545	c.1198A>T	c.(1198-1200)ATG>TTG	p.M400L		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	400					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						GGGCAAGACCATGACGGAGGA	0.582													47	39	---	---	---	---	PASS	T	201687855	T	T	201687855	3	4	50	1	0	0	0	0	1	0	0	0	10183	217	8	5	1208	5	NAV1	1	201687855	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	4283359	201687855	47562766	22	18949										
CR1L	1379	broad.mit.edu	37	chr1	207871122	207871122	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttctttttttccagtgaaatCctgtgatgacttcctgggcc	8	10	1	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:207871122C>A	uc001hga.3	+	7	1167	c.1046C>A	c.(1045-1047)TCC>TAC	p.S349Y	CR1L_uc001hfz.2_RNA|CR1L_uc001hgb.1_RNA	NM_175710	NP_783641	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	349	Sushi 6.					cytoplasm|extracellular region|membrane					0						CCAGTGAAATCCTGTGATGAC	0.408													46	202	---	---	---	---	PASS	A	207871122	A	A	207871122	3	1	50	1	0	0	0	0	1	0	0	0	3841	855	30	2	1072	2	CR1L	1	207871122	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	6183267	207871122	41379499	23	18950										
KCNH1	3756	broad.mit.edu	37	chr1	210948775	210948775	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	attccagcactttctgcaggGcatcccgcttgatcacatgc	8	14	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:210948775G>A	uc001hib.2	-	10	2197	c.2027C>T	c.(2026-2028)GCC>GTC	p.A676V	KCNH1_uc001hic.2_Missense_Mutation_p.A649V	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	676	Cytoplasmic (Potential).|cNMP.|Calmodulin-binding.				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		TTTCTGCAGGGCATCCCGCTT	0.512													3	40	---	---	---	---	PASS	A	210948775	A	A	210948775	3	1	50	1	0	0	0	0	1	0	0	0	8031	1203	42	3	950	3	KCNH1	1	210948775	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	3077653	210948775	38301846	24	18951										
USH2A	7399	broad.mit.edu	37	chr1	216256872	216256872	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttggtcagttctgaacttaaAggaaatctcaaagttcattc	7	7	4	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:216256872A>G	uc001hku.1	-	26	5611	c.5224T>C	c.(5224-5226)TTT>CTT	p.F1742L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1742	Laminin G-like 2.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTGAACTTAAAGGAAATCTCA	0.299										HNSCC(13;0.011)			49	119	---	---	---	---	PASS	G	216256872	G	G	216256872	3	3	50	1	0	0	0	0	1	0	0	0	17033	72	3	5	10572	5	USH2A	1	216256872	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	5308097	216256872	32993749	25	18952										
USH2A	7399	broad.mit.edu	37	chr1	216595381	216595381	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	actgaggcctgctgagaaaaGggcagtgtaggtagggtgtg	18	5	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:216595381G>A	uc001hku.1	-	2	685	c.298C>T	c.(298-300)CTT>TTT	p.L100F	USH2A_uc001hkv.2_Missense_Mutation_p.L100F	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	100	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GCTGAGAAAAGGGCAGTGTAG	0.453										HNSCC(13;0.011)			17	49	---	---	---	---	PASS	A	216595381	A	A	216595381	3	1	50	1	0	0	0	0	1	0	0	0	17033	1000	35	3	15608	3	USH2A	1	216595381	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	338509	216595381	32655240	26	18953										
RHOU	58480	broad.mit.edu	37	chr1	228873446	228873446	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgtctgtggatgggcggcccGtgagactccaactctgtgac	14	11	2	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:228873446G>A	uc001htf.2	+	2	910	c.289G>A	c.(289-291)GTG>ATG	p.V97M		NM_021205	NP_067028	Q7L0Q8	RHOU_HUMAN	ras homolog gene family, member U	97					regulation of small GTPase mediated signal transduction	cell projection|cytosol|focal adhesion|Golgi membrane|podosome	GTP binding|metal ion binding|protein binding				0	Breast(184;0.162)	Prostate(94;0.183)				TGGGCGGCCCGTGAGACTCCA	0.443													25	37	---	---	---	---	PASS	A	228873446	A	A	228873446	3	1	50	1	0	0	0	0	1	0	0	0	13345	1145	40	1	295	1	RHOU	1	228873446	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	12278065	228873446	20377175	27	18954										
TAF5L	27097	broad.mit.edu	37	chr1	229738436	229738436	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	acggaccacgtacttgttatCtaggaatgctcgaagcttga	10	9	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:229738436C>A	uc001htq.2	-	4	644	c.478G>T	c.(478-480)GAT>TAT	p.D160Y	TAF5L_uc001htr.2_Missense_Mutation_p.D160Y	NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	160					histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				TACTTGTTATCTAGGAATGCT	0.468													63	66	---	---	---	---	PASS	A	229738436	A	A	229738436	3	1	50	1	0	0	0	0	1	0	0	0	15526	913	32	2	1305	2	TAF5L	1	229738436	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	864990	229738436	19512185	28	18955										
RYR2	6262	broad.mit.edu	37	chr1	237778080	237778080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gctggtgaggaagaagccaaGgggggcaagcggcccaagga	19	8	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:237778080G>T	uc001hyl.1	+	37	5772	c.5652G>T	c.(5650-5652)AAG>AAT	p.K1884N		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1884	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AAGAAGCCAAGGGGGGCAAGC	0.512													17	21	---	---	---	---	PASS	T	237778080	T	T	237778080	3	4	50	1	0	0	0	0	1	0	0	0	13769	991	35	3	5798	3	RYR2	1	237778080	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	8039644	237778080	11472541	29	18956										
FMN2	56776	broad.mit.edu	37	chr1	240256012	240256012	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttgctttcagacatccagcaGgcgatccgcctgcagcagca	10	14	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:240256012G>A	uc010pyd.1	+	1	828	c.603G>A	c.(601-603)CAG>CAA	p.Q201Q	FMN2_uc010pye.1_Silent_p.Q201Q	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	201	Potential.|Gln-rich.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			ACATCCAGCAGGCGATCCGCC	0.428													8	32	---	---	---	---	PASS	A	240256012	A	A	240256012	2	1	50	1	0	0	0	0	0	0	0	1	5950	991	35	3		3	FMN2	1	240256012	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	2477932	240256012	8994609	30	18957										
FMN2	56776	broad.mit.edu	37	chr1	240519117	240519117	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atgttctgtctaatttcagcCtgtgaagttgaagcagggaa	11	6	3	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:240519117C>A	uc010pyd.1	+	14	4992	c.4767C>A	c.(4765-4767)GCC>GCA	p.A1589A	FMN2_uc010pye.1_Silent_p.A1593A|FMN2_uc010pyf.1_Intron|FMN2_uc010pyg.1_Silent_p.A185A	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1589	FH2.|Potential.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TAATTTCAGCCTGTGAAGTTG	0.353													12	18	---	---	---	---	PASS	A	240519117	A	A	240519117	2	1	50	1	0	0	0	0	0	0	0	1	5950	695	24	3		3	FMN2	1	240519117	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	263105	240519117	8731504	31	18958										
RGS7	6000	broad.mit.edu	37	chr1	241146395	241146395	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttacctggatcttctatagtTaagttctttatcaaccattg	5	8	4	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:241146395T>C	uc001hyv.2	-	4	540	c.210A>G	c.(208-210)TTA>TTG	p.L70L	RGS7_uc010pyh.1_Silent_p.L44L|RGS7_uc010pyj.1_5'UTR|RGS7_uc001hyu.2_Silent_p.L70L|RGS7_uc009xgn.1_Silent_p.L70L|RGS7_uc001hyw.2_Silent_p.L70L	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	70	DEP.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			CTTCTATAGTTAAGTTCTTTA	0.274													9	16	---	---	---	---	PASS	C	241146395	C	C	241146395	2	2	50	1	0	0	0	0	0	0	0	1	13310	1751	61	5		5	RGS7	1	241146395	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	627278	241146395	8104226	32	18959										
SDCCAG8	10806	broad.mit.edu	37	chr1	243581361	243581361	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttagccaagaaactggaacaAatctctcaaaaaaccaggta	6	9	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:243581361A>G	uc001hzw.2	+	15	1992	c.1836A>G	c.(1834-1836)CAA>CAG	p.Q612Q	SDCCAG8_uc010pyk.1_Silent_p.Q467Q|SDCCAG8_uc010pyl.1_Silent_p.Q424Q|SDCCAG8_uc001hzx.2_Intron	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	612	Mediates interaction with OFD1.|Gln-rich.|Potential.|Sufficient for homodimerization (By similarity).				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		AACTGGAACAAATCTCTCAAA	0.328													17	54	---	---	---	---	PASS	G	243581361	G	G	243581361	2	3	50	1	0	0	0	0	0	0	0	1	13959	11	1	5		5	SDCCAG8	1	243581361	Silent	SNP	A	TCGA-22-5485-01A-01D-1632-08	2434966	243581361	5669260	33	18960										
OR2M2	391194	broad.mit.edu	37	chr1	248343811	248343811	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttgtgggtctcgggaaatagCccacttcttctgtgaattcc	10	10	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr1:248343811C>A	uc010pzf.1	+	1	524	c.524C>A	c.(523-525)GCC>GAC	p.A175D		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CGGGAAATAGCCCACTTCTTC	0.428													145	150	---	---	---	---	PASS	A	248343811	A	A	248343811	3	1	50	1	0	0	0	0	1	0	0	0	11010	739	26	3	526	3	OR2M2	1	248343811	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	4762450	248343811	906810	34	18961										
XDH	7498	broad.mit.edu	37	chr2	31572970	31572970	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gcaatgagcatcccctggggCcccccaaagccccggaaggc	12	17	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr2:31572970C>A	uc002rnv.1	-	25	2830	c.2751G>T	c.(2749-2751)GGG>GGT	p.G917G		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	917					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	TCCCCTGGGGCCCCCCAAAGC	0.572													43	98	---	---	---	---	PASS	A	31572970	A	A	31572970	2	1	50	1	0	0	0	0	0	0	0	1	17423	726	26	3		3	XDH	2	31572970	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08		31572970	211626403	35	18962										
LTBP1	4052	broad.mit.edu	37	chr2	33590512	33590512	+	Frame_Shift_Del	DEL	C	-	-													0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	acaacgtacactgagtgctgCtgtctgtatggagaggcctg							TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr2:33590512delC	uc002ros.2	+	31	4656	c.4656delC	c.(4654-4656)TGCfs	p.C1552fs	LTBP1_uc002rot.2_Frame_Shift_Del_p.C1226fs|LTBP1_uc002rou.2_Frame_Shift_Del_p.C1225fs|LTBP1_uc002rov.2_Frame_Shift_Del_p.C1172fs|LTBP1_uc010ymz.1_Frame_Shift_Del_p.C1183fs|LTBP1_uc010yna.1_Frame_Shift_Del_p.C1130fs|LTBP1_uc010ynb.1_Frame_Shift_Del_p.C449fs	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1551	TB 4.				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CTGAGTGCTGCTGTCTGTATG	0.537													53	30	---	---	---	---		-	33590512	-	-	33590512	7	5	50	1	0	1	0	1	0	0	0	0	9073	805	28	0	4830	0	LTBP1	2	33590512	Frame_Shift_Del	DEL	C	TCGA-22-5485-01A-01D-1632-08	2017542	33590512	209608861	36	18963										
FSHR	2492	broad.mit.edu	37	chr2	49190309	49190309	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ccgcactgtgaggtagatgtGgatatagcagccacagatga	13	8	0	4			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr2:49190309G>A	uc002rww.2	-	10	1725	c.1651C>T	c.(1651-1653)CAC>TAC	p.H551Y	FSHR_uc002rwx.2_Missense_Mutation_p.H489Y|FSHR_uc010fbn.2_Missense_Mutation_p.H525Y	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	551	Cytoplasmic (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	AGGTAGATGTGGATATAGCAG	0.532									Gonadal_Dysgenesis_46_XX				5	13	---	---	---	---	PASS	A	49190309	A	A	49190309	3	1	50	1	0	0	0	0	1	0	0	0	6073	1348	47	3	440	3	FSHR	2	49190309	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	15599797	49190309	194009064	37	18964										
CYP26B1	56603	broad.mit.edu	37	chr2	72360206	72360206	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ccgccggaaatgggcgtgaaCaggcgcatgacctccttgat	13	12	0	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr2:72360206C>A	uc002sih.1	-	5	1092	c.1092G>T	c.(1090-1092)CTG>CTT	p.L364L	CYP26B1_uc010yra.1_Silent_p.L347L|CYP26B1_uc010yrb.1_Silent_p.L289L	NM_019885	NP_063938	Q9NR63	CP26B_HUMAN	cytochrome P450, family 26, subfamily b,	364					cell fate determination|embryonic limb morphogenesis|male meiosis|negative regulation of retinoic acid receptor signaling pathway|proximal/distal pattern formation|retinoic acid catabolic process|spermatogenesis|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			skin(2)	2						TGGGCGTGAACAGGCGCATGA	0.677													10	36	---	---	---	---	PASS	A	72360206	A	A	72360206	2	1	50	1	0	0	0	0	0	0	0	1	4156	465	17	3		3	CYP26B1	2	72360206	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	23169897	72360206	170839167	38	18965										
GCC2	9648	broad.mit.edu	37	chr2	109087168	109087168	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttaatgtttgaaatacagggTcttaaggaacagtgtgaaaa	10	3	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr2:109087168T>C	uc002tec.2	+	6	1537	c.1383T>C	c.(1381-1383)GGT>GGC	p.G461G	GCC2_uc002ted.2_Silent_p.G360G	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	461	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						AAATACAGGGTCTTAAGGAAC	0.299													17	25	---	---	---	---	PASS	C	109087168	C	C	109087168	2	2	50	1	0	0	0	0	0	0	0	1	6286	1654	58	5		5	GCC2	2	109087168	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	36726962	109087168	134112205	39	18966										
LRP1B	53353	broad.mit.edu	37	chr2	141232773	141232773	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttcatcggcccagtagagtcTacgattaacataatctattg	7	9	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr2:141232773T>C	uc002tvj.1	-	60	10531	c.9559A>G	c.(9559-9561)AGA>GGA	p.R3187G		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3187	Extracellular (Potential).|LDL-receptor class B 31.				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)		CAGTAGAGTCTACGATTAACA	0.368										TSP Lung(27;0.18)			35	37	---	---	---	---	PASS	C	141232773	C	C	141232773	3	2	50	1	0	0	0	0	1	0	0	0	8955	1530	53	5	4368	5	LRP1B	2	141232773	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	32145605	141232773	101966600	40	18967										
LRP1B	53353	broad.mit.edu	37	chr2	141473550	141473550	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tcttaaaattaccctttctcTgggtgcacagctatagatct	6	10	3	1	rs148114444		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr2:141473550T>A	uc002tvj.1	-	37	6987	c.6015A>T	c.(6013-6015)CCA>CCT	p.P2005P		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2005	Extracellular (Potential).|LDL-receptor class B 20.				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)		ACCCTTTCTCTGGGTGCACAG	0.328										TSP Lung(27;0.18)			26	45	---	---	---	---	PASS	A	141473550	A	A	141473550	2	1	50	1	0	0	0	0	0	0	0	1	8955	1567	55	5		5	LRP1B	2	141473550	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	240777	141473550	101725823	41	18968										
LRP2	4036	broad.mit.edu	37	chr2	170013975	170013975	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aattgggtacaattttgctcGcatatattttcagcacatgt	7	7	1	0	rs143815721		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr2:170013975G>A	uc002ues.2	-	64	12138	c.11925C>T	c.(11923-11925)TGC>TGT	p.C3975C		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3975	EGF-like 14.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AATTTTGCTCGCATATATTTT	0.383													9	15	---	---	---	---	PASS	A	170013975	A	A	170013975	2	1	50	1	0	0	0	0	0	0	0	1	8956	1079	38	1		1	LRP2	2	170013975	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	28540425	170013975	73185398	42	18969										
PGAP1	80055	broad.mit.edu	37	chr2	197777635	197777635	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aacgatctaatggcatcacaGgagcaacatgaggtgtggct	12	8	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr2:197777635G>A	uc002utw.2	-	4	734	c.620C>T	c.(619-621)CCT>CTT	p.P207L	PGAP1_uc002utx.2_Missense_Mutation_p.P33L|PGAP1_uc002uty.1_Missense_Mutation_p.P207L|PGAP1_uc010zgv.1_RNA|PGAP1_uc010fsj.2_Missense_Mutation_p.P33L	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	207	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						TGGCATCACAGGAGCAACATG	0.333													15	32	---	---	---	---	PASS	A	197777635	A	A	197777635	3	1	50	1	0	0	0	0	1	0	0	0	11777	1000	35	3	2244	3	PGAP1	2	197777635	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	27763660	197777635	45421738	43	18970										
PTPRN	5798	broad.mit.edu	37	chr2	220167078	220167078	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tggaaggtccccgtaggagtGgccagggtggtccccaaata	15	10	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr2:220167078G>A	uc002vkz.2	-	6	864	c.775C>T	c.(775-777)CAC>TAC	p.H259Y	PTPRN_uc010zlc.1_Missense_Mutation_p.H169Y|PTPRN_uc002vla.2_Missense_Mutation_p.H259Y	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	259	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity	p.H259Y(1)		ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		CCGTAGGAGTGGCCAGGGTGG	0.637													8	14	---	---	---	---	PASS	A	220167078	A	A	220167078	3	1	50	1	0	0	0	0	1	0	0	0	12807	1348	47	3	2236	3	PTPRN	2	220167078	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	22389443	220167078	23032295	44	18971										
GPR55	9290	broad.mit.edu	37	chr2	231775189	231775189	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tggaagcacatgtatttttcCactttcccatggaaactgta	7	9	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr2:231775189C>A	uc002vrg.2	-	2	682	c.489G>T	c.(487-489)GTG>GTT	p.V163V	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Silent_p.V163V	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	163	Extracellular (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		TGTATTTTTCCACTTTCCCAT	0.542													24	55	---	---	---	---	PASS	A	231775189	A	A	231775189	2	1	50	1	0	0	0	0	0	0	0	1	6699	581	21	3		3	GPR55	2	231775189	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	11608111	231775189	11424184	45	18972										
AQP12A	375318	broad.mit.edu	37	chr2	241631698	241631698	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cggcacaggggctgggcatgCaggccgcctgcaccctgatg	16	14	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr2:241631698C>A	uc002vzu.2	+	2	400	c.331C>A	c.(331-333)CAG>AAG	p.Q111K	AQP12A_uc002vzv.2_RNA	NM_198998	NP_945349	Q8IXF9	AQ12A_HUMAN	aquaporin 12A	111	Helical; Name=3; (Potential).					integral to membrane	transporter activity				0		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;2.2e-31)|all cancers(36;1.08e-28)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.52e-06)|Lung(119;0.00163)|LUSC - Lung squamous cell carcinoma(224;0.008)|Colorectal(34;0.0124)|COAD - Colon adenocarcinoma(134;0.0757)		GCTGGGCATGCAGGCCGCCTG	0.687													16	28	---	---	---	---	PASS	A	241631698	A	A	241631698	3	1	50	1	0	0	0	0	1	0	0	0	824	711	25	3	337	3	AQP12A	2	241631698	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	9856509	241631698	1567675	46	18973										
CCR5	1234	broad.mit.edu	37	chr3	46414528	46414528	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctggtgttcatctttggtttTgtgggcaacatgctggtcat	12	7	3	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr3:46414528T>C	uc003cpo.3	+	3	257	c.135T>C	c.(133-135)TTT>TTC	p.F45F	CCR5_uc010hjd.2_Silent_p.F45F	NM_001100168	NP_001093638	P51681	CCR5_HUMAN	chemokine (C-C motif) receptor 5	45	Helical; Name=1; (Potential).				cell-cell signaling|cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|immune response|inflammatory response|initiation of viral infection	endosome|external side of plasma membrane|integral to plasma membrane	actin binding|C-C chemokine receptor activity|coreceptor activity|phosphatidylinositol phospholipase C activity			lung(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.00112)|KIRC - Kidney renal clear cell carcinoma(197;0.017)|Kidney(197;0.02)	Maraviroc(DB04835)	TCTTTGGTTTTGTGGGCAACA	0.478													52	39	---	---	---	---	PASS	C	46414528	C	C	46414528	2	2	50	1	0	0	0	0	0	0	0	1	2944	1809	63	5		5	CCR5	3	46414528	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08		46414528	151607902	47	18974										
OR5H14	403273	broad.mit.edu	37	chr3	97868652	97868652	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	attatgaccaatggactgtgCatccggctattaatcttgtc	8	9	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr3:97868652C>T	uc003dsg.1	+	1	423	c.423C>T	c.(421-423)TGC>TGT	p.C141C		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	141	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ATGGACTGTGCATCCGGCTAT	0.388													47	152	---	---	---	---	PASS	T	97868652	T	T	97868652	2	4	50	1	0	0	0	0	0	0	0	1	11160	718	25	3		3	OR5H14	3	97868652	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	51454124	97868652	100153778	48	18975										
DIRC2	84925	broad.mit.edu	37	chr3	122525799	122525799	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	acttaatccttaaaagaaggTaaatcctgtaaataacattt	4	6	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr3:122525799T>C	uc003efw.3	+	2	576	c.437_splice	c.e2+2	p.R146_splice	DIRC2_uc010hrl.2_Splice_Site|DIRC2_uc010hrm.2_Intron	NM_032839	NP_116228	Q96SL1	DIRC2_HUMAN	disrupted in renal carcinoma 2						transport	integral to membrane					0				GBM - Glioblastoma multiforme(114;0.0614)		TAAAAGAAGGTAAATCCTGTA	0.328													25	24	---	---	---	---	PASS	C	122525799	C	C	122525799	5	2	50	1	0	0	0	0	0	0	1	0	4534	1652	57	5	445	5	DIRC2	3	122525799	Splice_Site	SNP	T	TCGA-22-5485-01A-01D-1632-08	24657147	122525799	75496631	49	18976										
CEP63	80254	broad.mit.edu	37	chr3	134251738	134251738	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgagaggttaactgcaaaaaTagaggtatgttcatagtaat	10	3	1	2	rs145156085	byFrequency	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr3:134251738T>C	uc003eqo.1	+	6	886	c.437T>C	c.(436-438)ATA>ACA	p.I146T	CEP63_uc003eql.1_Missense_Mutation_p.I146T|CEP63_uc003eqm.2_Missense_Mutation_p.I146T|CEP63_uc003eqn.1_Missense_Mutation_p.I146T	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	146	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						ACTGCAAAAATAGAGGTATGT	0.358													14	21	---	---	---	---	PASS	C	134251738	C	C	134251738	3	2	50	1	0	0	0	0	1	0	0	0	3257	1406	49	5	451	5	CEP63	3	134251738	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	11725939	134251738	63770692	50	18977										
BCHE	590	broad.mit.edu	37	chr3	165504057	165504057	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttttgttcagtgcttttgaaGacaggccagcttgtgctatt	10	7	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr3:165504057G>A	uc003fem.3	-	3	1720	c.1560C>T	c.(1558-1560)GTC>GTT	p.V520V	BCHE_uc003fen.3_RNA	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	520					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	TGCTTTTGAAGACAGGCCAGC	0.318													14	58	---	---	---	---	PASS	A	165504057	A	A	165504057	2	1	50	1	0	0	0	0	0	0	0	1	1358	929	33	2		2	BCHE	3	165504057	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	31252319	165504057	32518373	51	18978										
ECT2	1894	broad.mit.edu	37	chr3	172534584	172534584	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aagaagtccttccagcaatgAtaagcatgtaatgagtcgtc	9	8	0	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr3:172534584A>C	uc003fii.2	+	23	2657	c.2519A>C	c.(2518-2520)GAT>GCT	p.D840A	ECT2_uc003fih.2_Missense_Mutation_p.D839A|ECT2_uc003fij.1_Missense_Mutation_p.D840A|ECT2_uc003fik.1_Missense_Mutation_p.D840A|ECT2_uc003fil.1_Missense_Mutation_p.D871A|ECT2_uc003fim.1_Missense_Mutation_p.D139A	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	840					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			TCCAGCAATGATAAGCATGTA	0.388													33	113	---	---	---	---	PASS	C	172534584	C	C	172534584	3	2	50	1	0	0	0	0	1	0	0	0	4901	333	12	5	2605	5	ECT2	3	172534584	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	7030527	172534584	25487846	52	18979										
PEX5L	51555	broad.mit.edu	37	chr3	179754368	179754368	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ccctatagaaatgtcttaccTgcatgtgtccctggtacatt	7	11	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr3:179754368T>A	uc003fki.1	-	1	150	c.20A>T	c.(19-21)CAG>CTG	p.Q7L	PEX5L_uc003fkj.1_Missense_Mutation_p.Q7L|PEX5L_uc010hxd.1_Missense_Mutation_p.Q7L|PEX5L_uc011bqg.1_Missense_Mutation_p.Q7L|PEX5L_uc011bqh.1_Missense_Mutation_p.Q7L	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	7					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			ATGTCTTACCTGCATGTGTCC	0.522													38	173	---	---	---	---	PASS	A	179754368	A	A	179754368	3	1	50	1	0	0	0	0	1	0	0	0	11749	1594	55	5	1920	5	PEX5L	3	179754368	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	7219784	179754368	18268062	53	18980										
ECE2	9718	broad.mit.edu	37	chr3	183975455	183975455	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttgatgtggtgctcgagaagGgcacgctggatgccctgctg	16	9	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr3:183975455G>T	uc003fni.3	+	2	429	c.391G>T	c.(391-393)GGC>TGC	p.G131C	ECE2_uc003fnh.3_Missense_Mutation_p.G131C	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	131	Cytoplasmic (Potential).|Methyltransferase-like region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCTCGAGAAGGGCACGCTGGA	0.617													11	61	---	---	---	---	PASS	T	183975455	T	T	183975455	3	4	50	1	0	0	0	0	1	0	0	0	4890	1232	43	3	397	3	ECE2	3	183975455	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	4221087	183975455	14046975	54	18981										
ZFYVE28	57732	broad.mit.edu	37	chr4	2306729	2306729	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tccgaggcgggcaagctgatCcccgccgctccgcctggccc	13	19	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr4:2306729C>A	uc003gex.1	-	8	1657	c.1338G>T	c.(1336-1338)GGG>GGT	p.G446G	ZFYVE28_uc011bvk.1_Silent_p.G376G|ZFYVE28_uc011bvl.1_Silent_p.G416G|ZFYVE28_uc003gew.1_Silent_p.G332G	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	446					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						GCAAGCTGATCCCCGCCGCTC	0.687													14	28	---	---	---	---	PASS	A	2306729	A	A	2306729	2	1	50	1	0	0	0	0	0	0	0	1	17667	842	30	2		2	ZFYVE28	4	2306729	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08		2306729	188847547	55	18982										
KIAA1211	57482	broad.mit.edu	37	chr4	57181591	57181591	+	Frame_Shift_Del	DEL	C	-	-													0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ggggagaaccctccccgaggCcccggcgacgcgagggcggg							TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr4:57181591delC	uc003hbk.2	+	8	2314	c.1923delC	c.(1921-1923)GGCfs	p.G641fs	KIAA1211_uc010iha.2_Frame_Shift_Del_p.G634fs|KIAA1211_uc011bzz.1_Frame_Shift_Del_p.G551fs|KIAA1211_uc003hbm.1_Frame_Shift_Del_p.G527fs	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	641										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					CTCCCCGAGGCCCCGGCGACG	0.672													10	17	---	---	---	---		-	57181591	-	-	57181591	7	5	50	1	0	1	0	1	0	0	0	0	8215	726	26	0	1941	0	KIAA1211	4	57181591	Frame_Shift_Del	DEL	C	TCGA-22-5485-01A-01D-1632-08	54874862	57181591	133972685	56	18983										
HADH	3033	broad.mit.edu	37	chr4	108940716	108940716	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	acatacaatctttgccagcaAcacttcctccttgcagatta	4	13	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr4:108940716A>G	uc003hyq.2	+	4	589	c.440A>G	c.(439-441)AAC>AGC	p.N147S	HADH_uc010ilx.2_Missense_Mutation_p.N147S|HADH_uc010ily.2_5'UTR|HADH_uc003hyr.2_Missense_Mutation_p.N151S	NM_005327	NP_005318	Q16836	HCDH_HUMAN	L-3-hydroxyacyl-Coenzyme A dehydrogenase	147					fatty acid beta-oxidation	mitochondrial matrix	3-hydroxyacyl-CoA dehydrogenase activity|NAD+ binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000168)	NADH(DB00157)	TTTGCCAGCAACACTTCCTCC	0.438													4	87	---	---	---	---	PASS	G	108940716	G	G	108940716	3	3	50	1	0	0	0	0	1	0	0	0	6942	43	2	5	454	5	HADH	4	108940716	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	51759125	108940716	82213560	57	18984										
PCDH10	57575	broad.mit.edu	37	chr4	134073843	134073843	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cgcggagtacggacactgagCacaacccctgcggggccatc	13	15	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr4:134073843C>T	uc003iha.2	+	1	3374	c.2548C>T	c.(2548-2550)CAC>TAC	p.H850Y	PCDH10_uc003igz.2_Missense_Mutation_p.H850Y	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	850	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GGACACTGAGCACAACCCCTG	0.557													9	5	---	---	---	---	PASS	T	134073843	T	T	134073843	3	4	50	1	0	0	0	0	1	0	0	0	11507	710	25	3	2550	3	PCDH10	4	134073843	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	25133127	134073843	57080433	58	18985										
FGB	2244	broad.mit.edu	37	chr4	155487721	155487721	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atcagaaatagtgttgatgaGttaaataacaatgtggaagc	10	3	1	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr4:155487721G>C	uc003ioa.3	+	3	426	c.387G>C	c.(385-387)GAG>GAC	p.E129D	FGB_uc010ipu.1_RNA|FGB_uc003iob.3_Missense_Mutation_p.E126D|FGB_uc010ipv.2_Missense_Mutation_p.E67D|FGB_uc010ipw.2_Missense_Mutation_p.E126D|FGB_uc003ioc.3_Intron	NM_005141	NP_005132	P02675	FIBB_HUMAN	fibrinogen, beta chain preproprotein	129					platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen|soluble fraction	chaperone binding|eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	GTGTTGATGAGTTAAATAACA	0.418													28	15	---	---	---	---	PASS	C	155487721	C	C	155487721	3	2	50	1	0	0	0	0	1	0	0	0	5831	1020	36	4	397	4	FGB	4	155487721	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	21413878	155487721	35666555	59	18986										
TKTL2	84076	broad.mit.edu	37	chr4	164393493	164393493	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	acattcccttggtattggcgGctagataaatagcatgctct	9	9	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr4:164393493G>C	uc003iqp.3	-	1	1555	c.1394C>G	c.(1393-1395)GCC>GGC	p.A465G		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	465						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				GGTATTGGCGGCTAGATAAAT	0.463													21	21	---	---	---	---	PASS	C	164393493	C	C	164393493	3	2	50	1	0	0	0	0	1	0	0	0	15933	1203	42	4	490	4	TKTL2	4	164393493	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	8905772	164393493	26760783	60	18987										
NEIL3	55247	broad.mit.edu	37	chr4	178274865	178274865	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ccagagcttaaaagctgcaaCcctggatattctaacaggta	8	10	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr4:178274865C>G	uc003iut.2	+	8	1560	c.1443C>G	c.(1441-1443)AAC>AAG	p.N481K	NEIL3_uc010irs.2_3'UTR	NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	481					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		AAAGCTGCAACCCTGGATATT	0.279								BER_DNA_glycosylases					8	17	---	---	---	---	PASS	G	178274865	G	G	178274865	3	3	50	1	0	0	0	0	1	0	0	0	10320	506	18	4	1473	4	NEIL3	4	178274865	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	13881372	178274865	12879411	61	18988										
ODZ3	55714	broad.mit.edu	37	chr4	183714330	183714330	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgaacccaagtaacagtgcgCgtctgacaccccttcgctat	8	14	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr4:183714330C>T	uc003ivd.1	+	25	6542	c.6505C>T	c.(6505-6507)CGT>TGT	p.R2169C		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2169	Extracellular (Potential).|YD 19.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TAACAGTGCGCGTCTGACACC	0.473													24	30	---	---	---	---	PASS	T	183714330	T	T	183714330	3	4	50	1	0	0	0	0	1	0	0	0	10836	768	27	1	6603	1	ODZ3	4	183714330	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	5439465	183714330	7439946	62	18989										
MTNR1A	4543	broad.mit.edu	37	chr4	187455106	187455106	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aggcaccatgctggcggggtCagaggccacggccaggccaa	16	13	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr4:187455106C>A	uc003izd.1	-	2	808	c.790G>T	c.(790-792)GAC>TAC	p.D264Y		NM_005958	NP_005949	P48039	MTR1A_HUMAN	melatonin receptor 1A	264	Extracellular (Potential).				circadian rhythm|G-protein signaling, coupled to cyclic nucleotide second messenger|mating behavior	integral to plasma membrane	melatonin receptor activity			ovary(1)|skin(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5		all_cancers(14;6.39e-56)|all_epithelial(14;1.48e-41)|all_lung(41;2.45e-15)|Lung NSC(41;7.26e-15)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00335)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|Renal(120;0.0183)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;7.63e-12)|BRCA - Breast invasive adenocarcinoma(30;6.68e-07)|GBM - Glioblastoma multiforme(59;3.44e-05)|LUSC - Lung squamous cell carcinoma(40;0.000106)|STAD - Stomach adenocarcinoma(60;0.000279)|READ - Rectum adenocarcinoma(43;0.159)	Melatonin(DB01065)|Ramelteon(DB00980)	CTGGCGGGGTCAGAGGCCACG	0.512													22	35	---	---	---	---	PASS	A	187455106	A	A	187455106	3	1	50	1	0	0	0	0	1	0	0	0	9951	826	29	2	266	2	MTNR1A	4	187455106	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	3740776	187455106	3699170	63	18990										
ADAMTS16	170690	broad.mit.edu	37	chr5	5146247	5146247	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	actcttttgatttcagaataTgacctggtctctgcctacga	7	10	3	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr5:5146247T>C	uc003jdl.2	+	3	318	c.180T>C	c.(178-180)TAT>TAC	p.Y60Y	ADAMTS16_uc003jdk.1_Silent_p.Y60Y|ADAMTS16_uc003jdj.1_Silent_p.Y60Y	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	60					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TTTCAGAATATGACCTGGTCT	0.473													16	38	---	---	---	---	PASS	C	5146247	C	C	5146247	2	2	50	1	0	0	0	0	0	0	0	1	261	1471	51	5		5	ADAMTS16	5	5146247	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08		5146247	175769013	64	18991										
CTNND2	1501	broad.mit.edu	37	chr5	11346508	11346508	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gatctttctgaatgctatcaAtggacggggacctggccaag	12	9	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr5:11346508A>G	uc003jfa.1	-	9	1749	c.1604T>C	c.(1603-1605)ATT>ACT	p.I535T	CTNND2_uc010itt.2_Missense_Mutation_p.I444T|CTNND2_uc011cmy.1_Missense_Mutation_p.I198T|CTNND2_uc011cmz.1_Missense_Mutation_p.I102T|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.I102T	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	535					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						AATGCTATCAATGGACGGGGA	0.488													22	64	---	---	---	---	PASS	G	11346508	G	G	11346508	3	3	50	1	0	0	0	0	1	0	0	0	4020	101	4	5	2129	5	CTNND2	5	11346508	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	6200261	11346508	169568752	65	18992										
CDH10	1008	broad.mit.edu	37	chr5	24492942	24492942	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttaccttcattatcctgtacTgtgaagtttggattgacagc	8	8	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr5:24492942T>A	uc003jgr.1	-	10	1940	c.1608A>T	c.(1606-1608)ACA>ACT	p.T536T	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	536	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TATCCTGTACTGTGAAGTTTG	0.348										HNSCC(23;0.051)			89	97	---	---	---	---	PASS	A	24492942	A	A	24492942	2	1	50	1	0	0	0	0	0	0	0	1	3096	1567	55	5		5	CDH10	5	24492942	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	13146434	24492942	156422318	66	18993										
CARD6	84674	broad.mit.edu	37	chr5	40852400	40852400	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aagtggacccctgagagtccAggagacttagcctggaattt	12	9	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr5:40852400A>T	uc003jmg.2	+	3	1041	c.966A>T	c.(964-966)CCA>CCT	p.P322P		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	322					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						CTGAGAGTCCAGGAGACTTAG	0.443													25	30	---	---	---	---	PASS	T	40852400	T	T	40852400	2	4	50	1	0	0	0	0	0	0	0	1	2650	175	7	5		5	CARD6	5	40852400	Silent	SNP	A	TCGA-22-5485-01A-01D-1632-08	16359458	40852400	140062860	67	18994										
GIN1	54826	broad.mit.edu	37	chr5	102433118	102433118	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tattatcaccatccacttcaTgaagactatctgaagtctca	4	11	4	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr5:102433118T>C	uc003koa.1	-	6	990	c.908A>G	c.(907-909)CAT>CGT	p.H303R	GIN1_uc003kob.1_Missense_Mutation_p.H156R|GIN1_uc003koc.1_Intron	NM_017676	NP_060146	Q9NXP7	GIN1_HUMAN	zinc finger, H2C2 domain containing	303					DNA integration		DNA binding			ovary(1)|skin(1)	2		all_cancers(142;3.23e-07)|all_epithelial(76;3.64e-10)|Prostate(80;0.00914)|Ovarian(225;0.0139)|Lung NSC(167;0.0212)|Colorectal(57;0.0249)|all_lung(232;0.0283)		Epithelial(69;3.57e-14)|COAD - Colon adenocarcinoma(37;0.00794)		ATCCACTTCATGAAGACTATC	0.323													48	33	---	---	---	---	PASS	C	102433118	C	C	102433118	3	2	50	1	0	0	0	0	1	0	0	0	6386	1464	51	5	672	5	GIN1	5	102433118	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	61580718	102433118	78482142	68	18995										
TRPC7	57113	broad.mit.edu	37	chr5	135692755	135692755	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atggccagcagcagcgcgtcCcccacccgtgccaggttctc	11	18	1	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr5:135692755C>A	uc003lbn.1	-	1	321	c.318G>T	c.(316-318)GGG>GGT	p.G106G	TRPC7_uc010jef.1_Silent_p.G98G|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Silent_p.G98G|TRPC7_uc010jei.1_Silent_p.G98G|TRPC7_uc010jej.1_5'UTR	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	107	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GCAGCGCGTCCCCCACCCGTG	0.662													18	13	---	---	---	---	PASS	A	135692755	A	A	135692755	2	1	50	1	0	0	0	0	0	0	0	1	16581	610	22	3		3	TRPC7	5	135692755	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	33259637	135692755	45222505	69	18996										
PCDHB6	56130	broad.mit.edu	37	chr5	140530850	140530850	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tagtcgtcagggtcctggacGtgaatgacaatgcccctgaa	12	10	1	3	rs17844433		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr5:140530850G>T	uc003lir.2	+	1	1012	c.1012G>T	c.(1012-1014)GTG>TTG	p.V338L	PCDHB6_uc011dah.1_Missense_Mutation_p.V202L	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	338	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGTCCTGGACGTGAATGACAA	0.463													18	19	---	---	---	---	PASS	T	140530850	T	T	140530850	3	4	50	1	0	0	0	0	1	0	0	0	11546	1145	40	1	1014	1	PCDHB6	5	140530850	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	4838095	140530850	40384410	70	18997										
PDGFRB	5159	broad.mit.edu	37	chr5	149502632	149502632	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gggggagcccaacgggcagaGcattgctgtagagctccgcg	17	11	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr5:149502632G>A	uc003lro.2	-	15	2625	c.2156C>T	c.(2155-2157)GCT>GTT	p.A719V	PDGFRB_uc010jhd.2_Missense_Mutation_p.A558V	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	719	Cytoplasmic (Potential).|Protein kinase.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	AACGGGCAGAGCATTGCTGTA	0.632			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								31	26	---	---	---	---	PASS	A	149502632	A	A	149502632	3	1	50	1	0	0	0	0	1	0	0	0	11662	971	34	3	1200	3	PDGFRB	5	149502632	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	8971782	149502632	31412628	71	18998										
HAVCR2	84868	broad.mit.edu	37	chr5	156533809	156533809	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tctggatgtccaataattcaCatccctttcatcagtcctga	5	12	4	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr5:156533809C>A	uc003lwk.1	-	2	367	c.223G>T	c.(223-225)GTG>TTG	p.V75L	HAVCR2_uc003lwl.2_Missense_Mutation_p.V75L	NM_032782	NP_116171	Q8TDQ0	HAVR2_HUMAN	T cell immunoglobulin mucin 3 precursor	75	Ig-like V-type.|Extracellular (Potential).					integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CAATAATTCACATCCCTTTCA	0.532													31	27	---	---	---	---	PASS	A	156533809	A	A	156533809	3	1	50	1	0	0	0	0	1	0	0	0	6974	478	17	3	706	3	HAVCR2	5	156533809	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	7031177	156533809	24381451	72	18999										
GRM6	2916	broad.mit.edu	37	chr5	178410074	178410074	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	acgtgaccatgagcaggaggCtgtagcccaggcagccgatg	15	11	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr5:178410074C>T	uc003mjr.2	-	9	2452	c.2273G>A	c.(2272-2274)AGC>AAC	p.S758N	GRM6_uc003mjq.2_Missense_Mutation_p.S161N	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	758	Helical; Name=5; (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		GAGCAGGAGGCTGTAGCCCAG	0.612													7	25	---	---	---	---	PASS	T	178410074	T	T	178410074	3	4	50	1	0	0	0	0	1	0	0	0	6801	797	28	3	368	3	GRM6	5	178410074	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	21876265	178410074	2505186	73	19000										
GRM6	2916	broad.mit.edu	37	chr5	178410091	178410091	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aggctgtagcccaggcagccGatgagagacagatccgacat	13	11	0	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr5:178410091G>A	uc003mjr.2	-	9	2435	c.2256C>T	c.(2254-2256)ATC>ATT	p.I752I	GRM6_uc003mjq.2_Silent_p.I155I	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	752	Helical; Name=5; (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		CCAGGCAGCCGATGAGAGACA	0.632													15	21	---	---	---	---	PASS	A	178410091	A	A	178410091	2	1	50	1	0	0	0	0	0	0	0	1	6801	1048	37	2		2	GRM6	5	178410091	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	17	178410091	2505169	74	19001										
KIF13A	63971	broad.mit.edu	37	chr6	17764629	17764629	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cagaatcccctggctggctgGctaattttgctggggcaggc	14	11	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:17764629G>A	uc003ncg.3	-	39	5235	c.5130C>T	c.(5128-5130)AGC>AGT	p.S1710S	KIF13A_uc003ncf.2_Silent_p.S1662S|KIF13A_uc003nch.3_Silent_p.S1675S|KIF13A_uc003nci.3_Silent_p.S1662S|KIF13A_uc003nce.1_Silent_p.S261S	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	1710					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			TGGCTGGCTGGCTAATTTTGC	0.517													18	28	---	---	---	---	PASS	A	17764629	A	A	17764629	2	1	50	1	0	0	0	0	0	0	0	1	8274	1194	42	3		3	KIF13A	6	17764629	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08		17764629	153350438	75	19002										
ZNF311	282890	broad.mit.edu	37	chr6	28962782	28962782	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	accagaatcgttatactcagGcactggtcaaaatactgact	7	10	2	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:28962782G>A	uc003nlu.2	-	7	2510	c.1997C>T	c.(1996-1998)GCC>GTC	p.A666V	ZNF311_uc011dlk.1_Missense_Mutation_p.A574V|ZNF311_uc003nlv.2_Missense_Mutation_p.A574V	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	666					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						TTATACTCAGGCACTGGTCAA	0.269													7	30	---	---	---	---	PASS	A	28962782	A	A	28962782	3	1	50	1	0	0	0	0	1	0	0	0	17831	1203	42	3	7	3	ZNF311	6	28962782	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	11198153	28962782	142152285	76	19003										
ATF6B	1388	broad.mit.edu	37	chr6	32084310	32084310	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tcttgggccgggaggtcttgTtgtggctgatggctgggagc	19	7	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:32084310T>C	uc003nzn.2	-	17	1862	c.1829A>G	c.(1828-1830)AAC>AGC	p.N610S	TNXB_uc010jts.1_Intron|ATF6B_uc003nzm.1_Missense_Mutation_p.N183S|ATF6B_uc003nzo.2_Missense_Mutation_p.N607S	NM_004381	NP_004372	Q99941	ATF6B_HUMAN	activating transcription factor 6 beta isoform	610	Lumenal (Potential).				response to unfolded protein|signal transduction	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGAGGTCTTGTTGTGGCTGAT	0.607													11	12	---	---	---	---	PASS	C	32084310	C	C	32084310	3	2	50	1	0	0	0	0	1	0	0	0	1085	1725	60	5	290	5	ATF6B	6	32084310	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	3121528	32084310	139030757	77	19004										
PI16	221476	broad.mit.edu	37	chr6	36922606	36922606	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgctggtggccaccacaggcCccgttggagccctcacagat	12	15	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:36922606C>A	uc003ona.2	+	1	398	c.70C>A	c.(70-72)CCC>ACC	p.P24T	PI16_uc003omz.1_Missense_Mutation_p.P24T|PI16_uc003onb.2_Missense_Mutation_p.P24T	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	24						extracellular region|integral to membrane	peptidase inhibitor activity				0						CACCACAGGCCCCGTTGGAGC	0.507													16	32	---	---	---	---	PASS	A	36922606	A	A	36922606	3	1	50	1	0	0	0	0	1	0	0	0	11869	623	22	3	72	3	PI16	6	36922606	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	4838296	36922606	134192461	78	19005										
DNAH8	1769	broad.mit.edu	37	chr6	38754673	38754673	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gttggatgtaccagaacaggCaaagagattgctaaaattgg	12	5	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:38754673C>T	uc003ooe.1	+	16	2477	c.1877C>T	c.(1876-1878)GCA>GTA	p.A626V		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CCAGAACAGGCAAAGAGATTG	0.328													10	39	---	---	---	---	PASS	T	38754673	T	T	38754673	3	4	50	1	0	0	0	0	1	0	0	0	4607	710	25	3	1931	3	DNAH8	6	38754673	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	1832067	38754673	132360394	79	19006										
TTBK1	84630	broad.mit.edu	37	chr6	43230656	43230656	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atggacgtgtcagcctctgtGgagcaggaggccctgagcaa	15	10	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:43230656G>A	uc003ouq.1	+	13	1833	c.1554G>A	c.(1552-1554)GTG>GTA	p.V518V	TTBK1_uc011dvg.1_Silent_p.V41V	NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	518						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			CAGCCTCTGTGGAGCAGGAGG	0.647													7	12	---	---	---	---	PASS	A	43230656	A	A	43230656	2	1	50	1	0	0	0	0	0	0	0	1	16673	1335	47	3		3	TTBK1	6	43230656	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	4475983	43230656	127884411	80	19007										
ZNF318	24149	broad.mit.edu	37	chr6	43304927	43304927	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cactggattctgtgtggtccTggatggcaccaactgtagtt	12	9	1	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:43304927T>C	uc003oux.2	-	10	6887	c.6809A>G	c.(6808-6810)CAG>CGG	p.Q2270R	ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	2270					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			TGTGTGGTCCTGGATGGCACC	0.458													13	37	---	---	---	---	PASS	C	43304927	C	C	43304927	3	2	50	1	0	0	0	0	1	0	0	0	17833	1580	55	5	34	5	ZNF318	6	43304927	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	74271	43304927	127810140	81	19008										
CRISP2	7180	broad.mit.edu	37	chr6	49676880	49676880	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aaagatggaagcagcacagtAaccagaaacaacaccggtag	10	9	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:49676880A>T	uc003ozq.2	-	4	286	c.30T>A	c.(28-30)GTT>GTA	p.V10V	CRISP2_uc003ozl.2_Silent_p.V10V|CRISP2_uc003ozn.2_Silent_p.V10V|CRISP2_uc003ozr.2_Silent_p.V10V|CRISP2_uc003ozo.2_Silent_p.V10V|CRISP2_uc003ozm.2_Silent_p.V10V|CRISP2_uc003ozp.2_Silent_p.V10V	NM_001142408	NP_001135880	P16562	CRIS2_HUMAN	cysteine-rich secretory protein 2 precursor	10						extracellular space				skin(1)	1	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			GCAGCACAGTAACCAGAAACA	0.393													13	41	---	---	---	---	PASS	T	49676880	T	T	49676880	2	4	50	1	0	0	0	0	0	0	0	1	3880	349	13	5		5	CRISP2	6	49676880	Silent	SNP	A	TCGA-22-5485-01A-01D-1632-08	6371953	49676880	121438187	82	19009										
KLHL31	401265	broad.mit.edu	37	chr6	53519311	53519311	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aaagcgaatattgctcaaaaGatctgcagcgtattttactc	7	8	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:53519311G>T	uc003pcb.3	-	2	901	c.760C>A	c.(760-762)CTT>ATT	p.L254I		NM_001003760	NP_001003760	Q9H511	KLH31_HUMAN	kelch repeat and BTB (POZ) domain containing 1	254	BACK.				regulation of transcription, DNA-dependent|transcription, DNA-dependent					ovary(1)	1	Lung NSC(77;0.0158)					TTGCTCAAAAGATCTGCAGCG	0.388													33	69	---	---	---	---	PASS	T	53519311	T	T	53519311	3	4	50	1	0	0	0	0	1	0	0	0	8385	942	33	2	1152	2	KLHL31	6	53519311	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	3842431	53519311	117595756	83	19010										
KHDRBS2	202559	broad.mit.edu	37	chr6	62407151	62407151	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atgaccgtagtcatagtattCaggcacactgcaacaaattt	7	9	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:62407151C>A	uc003peg.2	-	8	1148	c.901G>T	c.(901-903)GAA>TAA	p.E301*		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	301					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		TCATAGTATTCAGGCACACTG	0.393													8	18	---	---	---	---	PASS	A	62407151	A	A	62407151	4	1	50	1	0	0	0	0	0	1	0	0	8147	835	29	2	156	2	KHDRBS2	6	62407151	Nonsense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	8887840	62407151	108707916	84	19011										
BAI3	577	broad.mit.edu	37	chr6	70064159	70064159	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tagatgccgattgagaaactGtcaggatcccatcaatgcag	10	9	2	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:70064159G>T	uc003pev.3	+	27	3942	c.3494G>T	c.(3493-3495)TGT>TTT	p.C1165F	BAI3_uc010kak.2_Missense_Mutation_p.C1165F|BAI3_uc011dxx.1_Missense_Mutation_p.C371F	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1165	Cytoplasmic (Potential).				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)				TTGAGAAACTGTCAGGATCCC	0.398													30	63	---	---	---	---	PASS	T	70064159	T	T	70064159	3	4	50	1	0	0	0	0	1	0	0	0	1300	1377	48	3	3592	3	BAI3	6	70064159	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	7657008	70064159	101050908	85	19012										
GABRR2	2570	broad.mit.edu	37	chr6	89974321	89974321	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tggtcatggtcagcaccgtcGtgatacctgcaacacccggc	11	14	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:89974321G>T	uc003pnb.2	-	8	979	c.971C>A	c.(970-972)ACG>AAG	p.T324K	GABRR2_uc011dzx.1_Missense_Mutation_p.T200K	NM_002043	NP_002034	P28476	GBRR2_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 2	324	Helical; (Potential).				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				0		all_cancers(76;1.67e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.77e-07)|all_epithelial(107;2.51e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0158)		CAGCACCGTCGTGATACCTGC	0.537													19	25	---	---	---	---	PASS	T	89974321	T	T	89974321	3	4	50	1	0	0	0	0	1	0	0	0	6177	1145	40	1	509	1	GABRR2	6	89974321	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	19910162	89974321	81140746	86	19013										
MDN1	23195	broad.mit.edu	37	chr6	90472061	90472061	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tttcactgtcttttccatccTtgttaacagcagacttgtgt	6	10	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:90472061T>A	uc003pnn.1	-	16	2449	c.2333A>T	c.(2332-2334)AAG>ATG	p.K778M	MDN1_uc003pno.1_Missense_Mutation_p.K196M	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	778					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)		TTTTCCATCCTTGTTAACAGC	0.478													41	51	---	---	---	---	PASS	A	90472061	A	A	90472061	3	1	50	1	0	0	0	0	1	0	0	0	9415	1609	56	5	14805	5	MDN1	6	90472061	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	497740	90472061	80643006	87	19014										
BACH2	60468	broad.mit.edu	37	chr6	90660143	90660143	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ccatcaggcctggttcctgaTgttctgtggcaaggaatctg	12	10	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:90660143T>C	uc011eab.1	-	7	2491	c.1682A>G	c.(1681-1683)CAT>CGT	p.H561R	BACH2_uc003pnw.2_Missense_Mutation_p.H561R|BACH2_uc010kch.2_Missense_Mutation_p.H561R	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	561						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		TGGTTCCTGATGTTCTGTGGC	0.572													33	31	---	---	---	---	PASS	C	90660143	C	C	90660143	3	2	50	1	0	0	0	0	1	0	0	0	1284	1464	51	5	855	5	BACH2	6	90660143	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	188082	90660143	80454924	88	19015										
RFX6	222546	broad.mit.edu	37	chr6	117240437	117240437	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atcttctctgaaacgacaaaCatctttcttacatcttgccc	3	13	5	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:117240437C>A	uc003pxm.2	+	11	1223	c.1160C>A	c.(1159-1161)ACA>AAA	p.T387K		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	387					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						AAACGACAAACATCTTTCTTA	0.353													20	35	---	---	---	---	PASS	A	117240437	A	A	117240437	3	1	50	1	0	0	0	0	1	0	0	0	13267	478	17	3	1202	3	RFX6	6	117240437	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	26580294	117240437	53874630	89	19016										
IL20RA	53832	broad.mit.edu	37	chr6	137325764	137325764	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	caccaagtactcaccaaattTgctgggtgtttctctttgcc	7	12	2	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:137325764T>C	uc003qhj.2	-	6	1291	c.858A>G	c.(856-858)GCA>GCG	p.A286A	IL20RA_uc011edl.1_Silent_p.A237A|IL20RA_uc003qhk.2_Silent_p.A175A|IL20RA_uc003qhi.2_Silent_p.A18A	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	286	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)		TCACCAAATTTGCTGGGTGTT	0.423													45	95	---	---	---	---	PASS	C	137325764	C	C	137325764	2	2	50	1	0	0	0	0	0	0	0	1	7668	1799	63	5		5	IL20RA	6	137325764	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	20085327	137325764	33789303	90	19017										
TIAM2	26230	broad.mit.edu	37	chr6	155451258	155451258	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cttccctctcctccctccggGaactgtacaaagatgccaac	6	17	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:155451258G>C	uc003qqb.2	+	6	2174	c.901G>C	c.(901-903)GAA>CAA	p.E301Q	TIAM2_uc003qqe.2_Missense_Mutation_p.E301Q	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	301					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CTCCCTCCGGGAACTGTACAA	0.597													15	19	---	---	---	---	PASS	C	155451258	C	C	155451258	3	2	50	1	0	0	0	0	1	0	0	0	15888	1175	41	2	903	2	TIAM2	6	155451258	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	18125494	155451258	15663809	91	19018										
FNDC1	84624	broad.mit.edu	37	chr6	159677649	159677649	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cacttgcccattgagaacctAaagcccaacacgaggtacga	8	13	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:159677649A>G	uc010kjv.2	+	18	5360	c.5160A>G	c.(5158-5160)CTA>CTG	p.L1720L		NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	1720	Fibronectin type-III 5.					extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		TTGAGAACCTAAAGCCCAACA	0.428													47	66	---	---	---	---	PASS	G	159677649	G	G	159677649	2	3	50	1	0	0	0	0	0	0	0	1	5968	349	13	5		5	FNDC1	6	159677649	Silent	SNP	A	TCGA-22-5485-01A-01D-1632-08	4226391	159677649	11437418	92	19019										
CCR6	1235	broad.mit.edu	37	chr6	167550795	167550795	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tcagaaaacatttctcggcaGaccagtgagaccgcagataa	9	10	2	4			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:167550795G>A	uc003qvl.2	+	13	3553	c.1077G>A	c.(1075-1077)CAG>CAA	p.Q359Q	CCR6_uc010kkm.2_Silent_p.Q359Q|CCR6_uc003qvn.3_Silent_p.Q359Q|CCR6_uc003qvm.3_Silent_p.Q359Q	NM_031409	NP_113597	P51684	CCR6_HUMAN	chemokine (C-C motif) receptor 6	359	Cytoplasmic (Potential).				cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|humoral immune response	integral to plasma membrane	C-C chemokine receptor activity			ovary(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;8.21e-20)|BRCA - Breast invasive adenocarcinoma(81;4.55e-06)|GBM - Glioblastoma multiforme(31;0.00507)		TTTCTCGGCAGACCAGTGAGA	0.448													16	38	---	---	---	---	PASS	A	167550795	A	A	167550795	2	1	50	1	0	0	0	0	0	0	0	1	2945	933	33	2		2	CCR6	6	167550795	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	7873146	167550795	3564272	93	19020										
FAM120B	84498	broad.mit.edu	37	chr6	170626966	170626966	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gcaggaagcagattatgaggTagcttcctatggcctccagc	12	10	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr6:170626966T>A	uc003qxp.2	+	2	596	c.488T>A	c.(487-489)GTA>GAA	p.V163E	FAM120B_uc003qxo.1_Missense_Mutation_p.V163E|FAM120B_uc011ehd.1_Intron	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	163					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		GATTATGAGGTAGCTTCCTAT	0.458													38	42	---	---	---	---	PASS	A	170626966	A	A	170626966	3	1	50	1	0	0	0	0	1	0	0	0	5417	1638	57	5	490	5	FAM120B	6	170626966	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	3076171	170626966	488101	94	19021										
THSD7A	221981	broad.mit.edu	37	chr7	11514078	11514078	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttgtgttgaaggacgatactGaggtgtcctcaatgcactgg	13	7	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr7:11514078G>A	uc003ssf.3	-	8	2387	c.2135C>T	c.(2134-2136)TCA>TTA	p.S712L		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	712	TSP type-1 7.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		GGACGATACTGAGGTGTCCTC	0.517										HNSCC(18;0.044)			14	34	---	---	---	---	PASS	A	11514078	A	A	11514078	3	1	50	1	0	0	0	0	1	0	0	0	15876	1294	45	2	2918	2	THSD7A	7	11514078	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08		11514078	147624585	95	19022										
THSD7A	221981	broad.mit.edu	37	chr7	11632885	11632885	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttctttatttactcacgtggCacaggggacaactccatctc	7	12	3	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr7:11632885C>T	uc003ssf.3	-	3	1519	c.1267G>A	c.(1267-1269)GCC>ACC	p.A423T		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	423	Extracellular (Potential).|TSP type-1 4.					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		ACTCACGTGGCACAGGGGACA	0.418										HNSCC(18;0.044)			11	26	---	---	---	---	PASS	T	11632885	T	T	11632885	3	4	50	1	0	0	0	0	1	0	0	0	15876	710	25	3	3806	3	THSD7A	7	11632885	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	118807	11632885	147505778	96	19023										
EEPD1	80820	broad.mit.edu	37	chr7	36194244	36194244	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gatctgtgtgagcagcaaggGcagctcagcgcagcactctc	13	12	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr7:36194244G>T	uc003tfa.2	+	2	951	c.311G>T	c.(310-312)GGC>GTC	p.G104V		NM_030636	NP_085139	Q7L9B9	EEPD1_HUMAN	endonuclease/exonuclease/phosphatase family	104					DNA repair		DNA binding				0						AGCAGCAAGGGCAGCTCAGCG	0.622													12	23	---	---	---	---	PASS	T	36194244	T	T	36194244	3	4	50	1	0	0	0	0	1	0	0	0	4932	1203	42	3	313	3	EEPD1	7	36194244	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	24561359	36194244	122944419	97	19024										
CCL26	10344	broad.mit.edu	37	chr7	75401237	75401237	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gctgggagcagctgttactgGtgaattcatagcttcgcacc	12	10	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr7:75401237G>C	uc003udt.1	-	3	266	c.158C>G	c.(157-159)ACC>AGC	p.T53S		NM_006072	NP_006063	Q9Y258	CCL26_HUMAN	chemokine (C-C motif) ligand 26 precursor	53					cell-cell signaling|chemotaxis|immune response|inflammatory response|positive regulation of actin filament polymerization|positive regulation of cell migration|positive regulation of endothelial cell proliferation|positive regulation of Rac GTPase activity|signal transduction	extracellular space	chemokine activity				0						GCTGTTACTGGTGAATTCATA	0.547													17	39	---	---	---	---	PASS	C	75401237	C	C	75401237	3	2	50	1	0	0	0	0	1	0	0	0	2898	1261	44	4	134	4	CCL26	7	75401237	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	39206993	75401237	83737426	98	19025										
ADAM22	53616	broad.mit.edu	37	chr7	87564408	87564408	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gtggagcgccagagcatcgtGccactgcgcctcatctaccg	12	15	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr7:87564408G>T	uc003ujn.2	+	2	232	c.153G>T	c.(151-153)GTG>GTT	p.V51V	ADAM22_uc003uji.1_Silent_p.V50V|ADAM22_uc003ujj.1_Silent_p.V51V|ADAM22_uc003ujk.1_Silent_p.V51V|ADAM22_uc003ujl.1_Silent_p.V51V|ADAM22_uc003ujm.2_Silent_p.V51V|ADAM22_uc003ujo.2_Silent_p.V51V|ADAM22_uc003ujp.1_Silent_p.V103V	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	51					cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			AGAGCATCGTGCCACTGCGCC	0.652													12	20	---	---	---	---	PASS	T	87564408	T	T	87564408	2	4	50	1	0	0	0	0	0	0	0	1	244	1306	46	3		3	ADAM22	7	87564408	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	12163171	87564408	71574255	99	19026										
ZNF804B	219578	broad.mit.edu	37	chr7	88847538	88847538	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	caaacttttactgtgaattaTgtgacaagcagtatcacaaa	6	7	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr7:88847538T>G	uc011khi.1	+	2	716	c.178T>G	c.(178-180)TGT>GGT	p.C60G		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	60	C2H2-type.					intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CTGTGAATTATGTGACAAGCA	0.363										HNSCC(36;0.09)			15	47	---	---	---	---	PASS	G	88847538	G	G	88847538	3	3	50	1	0	0	0	0	1	0	0	0	18168	1464	51	5	184	5	ZNF804B	7	88847538	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	1283130	88847538	70291125	100	19027										
TMEM168	64418	broad.mit.edu	37	chr7	112424133	112424133	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	caaaaagggtttccatctttCagttactgaaagtccactaa	6	9	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr7:112424133C>T	uc003vgn.2	-	2	1140	c.748G>A	c.(748-750)GAA>AAA	p.E250K	TMEM168_uc010lju.2_Missense_Mutation_p.E250K|TMEM168_uc011kmr.1_Intron	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	250						integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						TTCCATCTTTCAGTTACTGAA	0.353													46	108	---	---	---	---	PASS	T	112424133	T	T	112424133	3	4	50	1	0	0	0	0	1	0	0	0	16080	835	29	2	1361	2	TMEM168	7	112424133	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	23576595	112424133	46714530	101	19028										
GRM8	2918	broad.mit.edu	37	chr7	126173740	126173740	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gataagctggcagcctgtgcGgttcatgttgggtctctgat	14	8	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr7:126173740G>T	uc003vlr.2	-	8	2007	c.1696C>A	c.(1696-1698)CGC>AGC	p.R566S	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.R566S|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	566	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	CAGCCTGTGCGGTTCATGTTG	0.532										HNSCC(24;0.065)			17	38	---	---	---	---	PASS	T	126173740	T	T	126173740	3	4	50	1	0	0	0	0	1	0	0	0	6803	1116	39	1	1092	1	GRM8	7	126173740	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	13749607	126173740	32964923	102	19029										
CHRM2	1129	broad.mit.edu	37	chr7	136700521	136700521	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	agagatgatgaaataacccaGgatgaaaacacagtttccac	8	8	0	4			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr7:136700521G>A	uc003vtf.1	+	4	1532	c.909G>A	c.(907-909)CAG>CAA	p.Q303Q	CHRM2_uc003vtg.1_Silent_p.Q303Q|CHRM2_uc003vtj.1_Silent_p.Q303Q|CHRM2_uc003vtk.1_Silent_p.Q303Q|CHRM2_uc003vtl.1_Silent_p.Q303Q|CHRM2_uc003vtm.1_Silent_p.Q303Q|CHRM2_uc003vti.1_Silent_p.Q303Q|CHRM2_uc003vto.1_Silent_p.Q303Q|CHRM2_uc003vtn.1_Silent_p.Q303Q|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	303	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	AAATAACCCAGGATGAAAACA	0.453													21	37	---	---	---	---	PASS	A	136700521	A	A	136700521	2	1	50	1	0	0	0	0	0	0	0	1	3377	991	35	3		3	CHRM2	7	136700521	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	10526781	136700521	22438142	103	19030										
SLC25A37	51312	broad.mit.edu	37	chr8	23423622	23423622	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tcttcttgcccgctcccagaCacgaatgcagagtttgagtc	9	13	2	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr8:23423622C>T	uc003xdo.2	+	2	365	c.212C>T	c.(211-213)ACA>ATA	p.T71I	SLC25A37_uc003xdn.1_Missense_Mutation_p.T71I|SLC25A37_uc003xdp.2_RNA|SLC25A37_uc010ltz.2_RNA|SLC25A37_uc003xdq.2_5'Flank	NM_016612	NP_057696	Q9NYZ2	MFRN1_HUMAN	solute carrier family 25, member 37	71	Solcar 1.				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Prostate(55;0.114)		Colorectal(74;0.0198)|COAD - Colon adenocarcinoma(73;0.0751)		CGCTCCCAGACACGAATGCAG	0.458													8	7	---	---	---	---	PASS	T	23423622	T	T	23423622	3	4	50	1	0	0	0	0	1	0	0	0	14501	492	17	3	218	3	SLC25A37	8	23423622	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08		23423622	122940400	104	19031										
FAM110B	90362	broad.mit.edu	37	chr8	59058840	59058840	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atggtgaagccggtcagcccCgcgggcaccttcacctctgc	12	16	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr8:59058840C>A	uc003xtj.1	+	5	931	c.51C>A	c.(49-51)CCC>CCA	p.P17P		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	17						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				CGGTCAGCCCCGCGGGCACCT	0.667													12	16	---	---	---	---	PASS	A	59058840	A	A	59058840	2	1	50	1	0	0	0	0	0	0	0	1	5397	639	23	1		1	FAM110B	8	59058840	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	35635218	59058840	87305182	105	19032										
FAM83H	286077	broad.mit.edu	37	chr8	144808385	144808385	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttgtccttgtcggacatatcTggggccaggacgccagcagc	13	12	1	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr8:144808385T>C	uc003yzk.2	-	5	3315	c.3246A>G	c.(3244-3246)CCA>CCG	p.P1082P	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	1082					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	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)			CGGACATATCTGGGGCCAGGA	0.711													15	11	---	---	---	---	PASS	C	144808385	C	C	144808385	2	2	50	1	0	0	0	0	0	0	0	1	5640	1567	55	5		5	FAM83H	8	144808385	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	85749545	144808385	1555637	106	19033										
CDK20	23552	broad.mit.edu	37	chr9	90584108	90584108	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gactacagcctctccccctaCcttggaagctgcgatgcgct	9	16	1	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr9:90584108C>A	uc004apr.2	-	7	1149	c.843_splice	c.e7+1	p.K281_splice	CDK20_uc004aps.2_Splice_Site_p.K260_splice|CDK20_uc004apt.2_Splice_Site_p.K273_splice|CDK20_uc004apu.2_Splice_Site_p.R219_splice	NM_001039803	NP_001034892	Q8IZL9	CDK20_HUMAN	cell cycle related kinase isoform 3						cell division|multicellular organismal development	cilium|mitochondrion|nucleus	ATP binding|cyclin-dependent protein kinase activity			skin(1)	1						TCTCCCCCTACCTTGGAAGCT	0.597													47	23	---	---	---	---	PASS	A	90584108	A	A	90584108	5	1	50	1	0	0	0	0	0	0	1	0	3137	521	18	3	204	3	CDK20	9	90584108	Splice_Site	SNP	C	TCGA-22-5485-01A-01D-1632-08		90584108	50629323	107	19034										
PTPN3	5774	broad.mit.edu	37	chr9	112199224	112199224	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gcgctatgttgatatagcagGattctgcttctgattgtttt	10	6	2	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr9:112199224G>T	uc004bed.2	-	9	726	c.614C>A	c.(613-615)TCC>TAC	p.S205Y	PTPN3_uc004beb.2_Missense_Mutation_p.S74Y|PTPN3_uc004bec.2_Missense_Mutation_p.S74Y|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Missense_Mutation_p.S205Y|PTPN3_uc011lwh.1_Missense_Mutation_p.S96Y	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	205	FERM.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						GATATAGCAGGATTCTGCTTC	0.393													34	14	---	---	---	---	PASS	T	112199224	T	T	112199224	3	4	50	1	0	0	0	0	1	0	0	0	12789	1174	41	2	2199	2	PTPN3	9	112199224	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	21615116	112199224	29014207	108	19035										
NOTCH1	4851	broad.mit.edu	37	chr9	139410454	139410454	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttccgtgcacacacaggtgtAagtgttgggtccgtccaggc	13	11	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr9:139410454A>T	uc004chz.2	-	10	1648	c.1648T>A	c.(1648-1650)TAC>AAC	p.Y550N	NOTCH1_uc004cia.1_5'Flank	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	550	Extracellular (Potential).|EGF-like 14; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		ACACAGGTGTAAGTGTTGGGT	0.637			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			16	7	---	---	---	---	PASS	T	139410454	T	T	139410454	3	4	50	1	0	0	0	0	1	0	0	0	10547	362	13	5	6119	5	NOTCH1	9	139410454	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	27211230	139410454	1802977	109	19036										
FRMD4A	55691	broad.mit.edu	37	chr10	13736020	13736020	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tggcgatctcactcaggctgCgtgctgcatggattttggac	13	10	2	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr10:13736020C>T	uc001ims.2	-	15	1347	c.995G>A	c.(994-996)CGC>CAC	p.R332H	FRMD4A_uc009xjf.1_Missense_Mutation_p.R332H|FRMD4A_uc001imt.1_Missense_Mutation_p.R365H|FRMD4A_uc001imu.1_Missense_Mutation_p.R348H	NM_018027	NP_060497	Q9P2Q2	FRM4A_HUMAN	FERM domain containing 4A	332						cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3						ACTCAGGCTGCGTGCTGCATG	0.587													3	50	---	---	---	---	PASS	T	13736020	T	T	13736020	3	4	50	1	0	0	0	0	1	0	0	0	6051	768	27	1	2164	1	FRMD4A	10	13736020	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08		13736020	121798727	110	19037										
CCDC7	221016	broad.mit.edu	37	chr10	32856664	32856664	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	agaagttacttaaaagtgagGggaaaactgagacaacaatg	11	4	0	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr10:32856664G>A	uc001iwj.2	+	16	1834	c.1264G>A	c.(1264-1266)GGG>AGG	p.G422R	CCDC7_uc001iwk.2_Missense_Mutation_p.G422R|CCDC7_uc009xlv.2_RNA|C10orf68_uc001iwl.1_5'UTR|C10orf68_uc001iwm.1_5'UTR|C10orf68_uc001iwn.3_5'UTR	NM_145023	NP_659460	Q96M83	CCDC7_HUMAN	coiled-coil domain containing 7	422											0		Breast(68;0.000207)|Prostate(175;0.0107)				TAAAAGTGAGGGGAAAACTGA	0.308													13	19	---	---	---	---	PASS	A	32856664	A	A	32856664	3	1	50	1	0	0	0	0	1	0	0	0	2842	1232	43	3	1322	3	CCDC7	10	32856664	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	19120644	32856664	102678083	111	19038										
ZNF25	219749	broad.mit.edu	37	chr10	38241972	38241972	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atttttagagaaagatttccCacatttatcacagtcatagg	6	7	2	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr10:38241972C>A	uc001ize.1	-	6	559	c.454G>T	c.(454-456)GGG>TGG	p.G152W	ZNF25_uc001izf.1_Missense_Mutation_p.G116W	NM_145011	NP_659448	P17030	ZNF25_HUMAN	zinc finger protein 25	152	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|central_nervous_system(1)	4		all_neural(218;0.0218)|Breast(68;0.0389)|Ovarian(717;0.0443)|Renal(717;0.157)				AAAGATTTCCCACATTTATCA	0.363													41	98	---	---	---	---	PASS	A	38241972	A	A	38241972	3	1	50	1	0	0	0	0	1	0	0	0	17791	594	21	3	920	3	ZNF25	10	38241972	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	5385308	38241972	97292775	112	19039										
PGBD3	267004	broad.mit.edu	37	chr10	50724411	50724411	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	catctctcattaagtttgctTatgagaggtcgcaatttgga	9	7	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr10:50724411T>A	uc001jht.2	-	2	1005	c.750A>T	c.(748-750)ATA>ATT	p.I250I	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Silent_p.I718I|PGBD3_uc001jhu.2_Silent_p.I718I	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	250										pancreas(1)|breast(1)|skin(1)	3						TAAGTTTGCTTATGAGAGGTC	0.368													17	33	---	---	---	---	PASS	A	50724411	A	A	50724411	2	1	50	1	0	0	0	0	0	0	0	1	11782	1744	61	5		5	PGBD3	10	50724411	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	12482439	50724411	84810336	113	19040										
ANK3	288	broad.mit.edu	37	chr10	61836114	61836114	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cccaggcactgtaatcggagCtgttgtccaggactggtatg	13	10	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr10:61836114C>A	uc001jky.2	-	37	4717	c.4525G>T	c.(4525-4527)GCT>TCT	p.A1509S	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron|ANK3_uc009xpc.1_RNA	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1509					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GTAATCGGAGCTGTTGTCCAG	0.468													8	31	---	---	---	---	PASS	A	61836114	A	A	61836114	3	1	50	1	0	0	0	0	1	0	0	0	622	797	28	3	8949	3	ANK3	10	61836114	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	11111703	61836114	73698633	114	19041										
CTNNA3	29119	broad.mit.edu	37	chr10	67680245	67680245	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tcattctccacatcacaactGggtgccggggcccagcagga	11	14	3	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr10:67680245G>T	uc009xpn.1	-	18	2654	c.2531C>A	c.(2530-2532)CCA>CAA	p.P844Q	CTNNA3_uc001jmw.2_Missense_Mutation_p.P844Q	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	844					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						CATCACAACTGGGTGCCGGGG	0.473													33	51	---	---	---	---	PASS	T	67680245	T	T	67680245	3	4	50	1	0	0	0	0	1	0	0	0	4014	1348	47	3	160	3	CTNNA3	10	67680245	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	5844131	67680245	67854502	115	19042										
PPA1	5464	broad.mit.edu	37	chr10	71974268	71974268	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttcattaccttgcttccaatTtcacacacatcaattgggtc	4	12	3	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr10:71974268T>C	uc001jqv.1	-	5	479	c.372A>G	c.(370-372)GAA>GAG	p.E124E		NM_021129	NP_066952	Q15181	IPYR_HUMAN	pyrophosphatase 1	124					diphosphate metabolic process|tRNA aminoacylation for protein translation	cytosol	inorganic diphosphatase activity|magnesium ion binding			breast(1)	1						TGCTTCCAATTTCACACACAT	0.318													13	29	---	---	---	---	PASS	C	71974268	C	C	71974268	2	2	50	1	0	0	0	0	0	0	0	1	12286	1838	64	5		5	PPA1	10	71974268	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	4294023	71974268	63560479	116	19043										
SFTPA2	729238	broad.mit.edu	37	chr10	81319118	81319118	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctctcccgtccctgcctggcAggccgtgggatccaggagtg	14	15	1	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr10:81319118A>T	uc001kal.3	-	3	219	c.122T>A	c.(121-123)CTG>CAG	p.L41Q	SFTPA2_uc001kan.3_Missense_Mutation_p.L41Q|SFTPA2_uc001kam.2_RNA	NM_006926	NP_008857	Q8IWL1	SFPA2_HUMAN	RecName: Full=Pulmonary surfactant-associated protein A2;          Short=SP-A2;          Short=SP-A;          Short=PSP-A;          Short=PSPA; AltName: Full=Alveolar proteinosis protein; AltName: Full=35 kDa pulmonary surfactant-associated protein; Flags: Precursor;	41	Collagen-like.				cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			CCTGCCTGGCAGGCCGTGGGA	0.617									Pulmonary_Fibrosis_Idiopathic				17	19	---	---	---	---	PASS	T	81319118	T	T	81319118	3	4	50	1	0	0	0	0	1	0	0	0	14190	188	7	5	640	5	SFTPA2	10	81319118	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	9344850	81319118	54215629	117	19044										
GRID1	2894	broad.mit.edu	37	chr10	87362103	87362103	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gcacgggctggaaggacatgGggatgggggtcttcaccggg	20	8	2	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr10:87362103G>T	uc001kdl.1	-	16	3058	c.2957C>A	c.(2956-2958)CCC>CAC	p.P986H	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.P557H|uc001kdk.1_Intron	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	986	Cytoplasmic (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	GAAGGACATGGGGATGGGGGT	0.682										Multiple Myeloma(13;0.14)			13	12	---	---	---	---	PASS	T	87362103	T	T	87362103	3	4	50	1	0	0	0	0	1	0	0	0	6771	1232	43	3	76	3	GRID1	10	87362103	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	6042985	87362103	48172644	118	19045										
NOLC1	9221	broad.mit.edu	37	chr10	103919769	103919769	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tggaaagcagtgaagacagcAgtgatgagtctggtgagtca	15	5	2	5			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr10:103919769A>T	uc001kuo.2	+	8	1211	c.976A>T	c.(976-978)AGT>TGT	p.S326C	NOLC1_uc001kup.2_Missense_Mutation_p.S336C|NOLC1_uc001kuq.2_Missense_Mutation_p.S327C|NOLC1_uc009xxb.1_Missense_Mutation_p.S45C|NOLC1_uc001kur.2_Missense_Mutation_p.S45C	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	326	11 X 12 AA approximate repeats of an acidic serine cluster.|Interacts with RPA194.|Acidic serine cluster 6.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		TGAAGACAGCAGTGATGAGTC	0.592													5	0	---	---	---	---	PASS	T	103919769	T	T	103919769	3	4	50	1	0	0	0	0	1	0	0	0	10529	188	7	5	1006	5	NOLC1	10	103919769	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	16557666	103919769	31614978	119	19046										
ACTR1A	10121	broad.mit.edu	37	chr10	104242820	104242820	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gagctttctctgtctctagcGtctcatccttttgggggttt	10	10	3	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr10:104242820G>T	uc001kvv.2	-	7	806	c.698C>A	c.(697-699)ACG>AAG	p.T233K	ACTR1A_uc010qqn.1_Missense_Mutation_p.T159K|ACTR1A_uc010qqo.1_Missense_Mutation_p.T186K	NM_005736	NP_005727	P61163	ACTZ_HUMAN	ARP1 actin-related protein 1 homolog A,	233					G2/M transition of mitotic cell cycle|vesicle-mediated transport	centrosome|cytosol|dynactin complex	ATP binding			central_nervous_system(1)	1		Colorectal(252;0.122)		Epithelial(162;5.34e-09)|all cancers(201;1.43e-07)|BRCA - Breast invasive adenocarcinoma(275;0.222)		TGTCTCTAGCGTCTCATCCTT	0.517													37	46	---	---	---	---	PASS	T	104242820	T	T	104242820	3	4	50	1	0	0	0	0	1	0	0	0	209	1145	40	1	452	1	ACTR1A	10	104242820	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	323051	104242820	31291927	120	19047										
MUC5B	727897	broad.mit.edu	37	chr11	1254275	1254275	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	agaactgccccaagtcccagCgctacgcctacgtggtggat	11	14	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:1254275C>G	uc009ycr.1	+	34	4201	c.4075C>G	c.(4075-4077)CGC>GGC	p.R1359G	MUC5B_uc009yct.1_Missense_Mutation_p.R700G|MUC5B_uc001ltb.2_Missense_Mutation_p.R703G|MUC5B_uc001lta.2_Missense_Mutation_p.R368G	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	700	TIL 2.			R -> P (in Ref. 3; CAA06167).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CAAGTCCCAGCGCTACGCCTA	0.667													5	7	---	---	---	---	PASS	G	1254275	G	G	1254275	3	3	50	1	0	0	0	0	1	0	0	0	9979	768	27	4	2177	4	MUC5B	11	1254275	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08		1254275	133752241	121	19048										
OR56A4	120793	broad.mit.edu	37	chr11	6023346	6023346	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ggttctcacaccataaacaaTggggttcagagctgggggaa	13	8	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:6023346T>C	uc010qzv.1	-	1	1033	c.1033A>G	c.(1033-1035)ATT>GTT	p.I345V		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	293	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCATAAACAATGGGGTTCAGA	0.473													13	37	---	---	---	---	PASS	C	6023346	C	C	6023346	3	2	50	1	0	0	0	0	1	0	0	0	11135	1464	51	5	66	5	OR56A4	11	6023346	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	4769071	6023346	128983170	122	19049										
CCKBR	887	broad.mit.edu	37	chr11	6281297	6281297	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	agccccctcgcattcgcggaGccgggacacgaggtgggtgc	16	14	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:6281297G>T	uc001mcp.2	+	1	332	c.139G>T	c.(139-141)GCC>TCC	p.A47S	CCKBR_uc001mcq.2_5'UTR|CCKBR_uc001mcr.2_Missense_Mutation_p.A47S|CCKBR_uc001mcs.2_Missense_Mutation_p.A47S	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	47	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	CATTCGCGGAGCCGGGACACG	0.672													4	15	---	---	---	---	PASS	T	6281297	T	T	6281297	3	4	50	1	0	0	0	0	1	0	0	0	2881	971	34	3	141	3	CCKBR	11	6281297	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	257951	6281297	128725219	123	19050										
DCHS1	8642	broad.mit.edu	37	chr11	6661831	6661831	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gagcccagctcagggtgagcCccaccatctcgtgcttgcac	11	16	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:6661831C>A	uc001mem.1	-	2	1424	c.1014G>T	c.(1012-1014)GGG>GGT	p.G338G		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	338	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAGGGTGAGCCCCACCATCTC	0.587													16	56	---	---	---	---	PASS	A	6661831	A	A	6661831	2	1	50	1	0	0	0	0	0	0	0	1	4287	610	22	3		3	DCHS1	11	6661831	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	380534	6661831	128344685	124	19051										
PDE3B	5140	broad.mit.edu	37	chr11	14889073	14889073	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gagatgaagaagcaaatcttGgtctgcccatcagtccattc	9	10	3	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:14889073G>A	uc001mln.2	+	15	3261	c.2908G>A	c.(2908-2910)GGT>AGT	p.G970S	PDE3B_uc010rcr.1_Missense_Mutation_p.G919S	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	970	Catalytic (By similarity).				cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						AGCAAATCTTGGTCTGCCCAT	0.393													23	36	---	---	---	---	PASS	A	14889073	A	A	14889073	3	1	50	1	0	0	0	0	1	0	0	0	11638	1348	47	3	2966	3	PDE3B	11	14889073	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	8227242	14889073	120117443	125	19052										
HPS5	11234	broad.mit.edu	37	chr11	18313248	18313248	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cgaagaccacttgcaatggcGcatggagaacatatttgaaa	10	8	0	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:18313248G>A	uc001mod.1	-	16	2459	c.2181C>T	c.(2179-2181)TGC>TGT	p.C727C	HPS5_uc001moe.1_Silent_p.C613C|HPS5_uc001mof.1_Silent_p.C613C	NM_181507	NP_852608	Q9UPZ3	HPS5_HUMAN	Hermansky-Pudlak syndrome 5 isoform a	727						cytosol				ovary(1)|pancreas(1)|skin(1)	3						TTGCAATGGCGCATGGAGAAC	0.408									Hermansky-Pudlak_syndrome				4	91	---	---	---	---	PASS	A	18313248	A	A	18313248	2	1	50	1	0	0	0	0	0	0	0	1	7342	1079	38	1		1	HPS5	11	18313248	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	3424175	18313248	116693268	126	19053										
C11orf46	120534	broad.mit.edu	37	chr11	30358242	30358242	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgcttgtcctgcctgtggttCtaccaagtgtggagctgaat	12	9	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:30358242C>A	uc001mso.1	+	4	847	c.683C>A	c.(682-684)TCT>TAT	p.S228Y	C11orf46_uc001msp.2_5'Flank	NM_152316	NP_689529	Q8N8R7	CK046_HUMAN	hypothetical protein LOC120534	228	Cys-rich.										0						GCCTGTGGTTCTACCAAGTGT	0.448													45	103	---	---	---	---	PASS	A	30358242	A	A	30358242	3	1	50	1	0	0	0	0	1	0	0	0	1643	913	32	2	693	2	C11orf46	11	30358242	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	12044994	30358242	104648274	127	19054										
PRR5L	79899	broad.mit.edu	37	chr11	36440842	36440842	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aacttggatcattcattacaGactattttcaggtaagctgt	7	7	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:36440842G>A	uc001mwo.3	+	4	672	c.283G>A	c.(283-285)GAC>AAC	p.D95N	PRR5L_uc001mwp.2_Missense_Mutation_p.D95N|PRR5L_uc009ykk.2_Missense_Mutation_p.D14N|PRR5L_uc010rfc.1_Missense_Mutation_p.D95N	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	95										ovary(1)	1						ATTCATTACAGACTATTTTCA	0.483													31	46	---	---	---	---	PASS	A	36440842	A	A	36440842	3	1	50	1	0	0	0	0	1	0	0	0	12602	942	33	2	299	2	PRR5L	11	36440842	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	6082600	36440842	98565674	128	19055										
OR5T3	390154	broad.mit.edu	37	chr11	56019884	56019884	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aatctatctctttaccttgaTaggcaatttagggctggttg	9	7	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:56019884T>A	uc010rjd.1	+	1	209	c.209T>A	c.(208-210)ATA>AAA	p.I70K		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	70	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					TTTACCTTGATAGGCAATTTA	0.373													21	51	---	---	---	---	PASS	A	56019884	A	A	56019884	3	1	50	1	0	0	0	0	1	0	0	0	11183	1406	49	5	211	5	OR5T3	11	56019884	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	19579042	56019884	78986632	129	19056										
OR5T3	390154	broad.mit.edu	37	chr11	56020603	56020603	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tagtgtcaatattttacacaAttgtgattcccaagttgaat	6	6	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:56020603A>G	uc010rjd.1	+	1	928	c.928A>G	c.(928-930)ATT>GTT	p.I310V		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	310	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					ATTTTACACAATTGTGATTCC	0.343													21	55	---	---	---	---	PASS	G	56020603	G	G	56020603	3	3	50	1	0	0	0	0	1	0	0	0	11183	101	4	5	930	5	OR5T3	11	56020603	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	719	56020603	78985913	130	19057										
LRRC55	219527	broad.mit.edu	37	chr11	56954920	56954920	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cactgccaactgctgccaccGctggagcaaggccagtgaag	12	14	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:56954920G>T	uc001njl.1	+	2	1139	c.992G>T	c.(991-993)CGC>CTC	p.R331L	LRRC55_uc001njm.1_5'Flank	NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	301						integral to membrane					0						TGCTGCCACCGCTGGAGCAAG	0.587													6	15	---	---	---	---	PASS	T	56954920	T	T	56954920	3	4	50	1	0	0	0	0	1	0	0	0	9011	1087	38	1	998	1	LRRC55	11	56954920	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	934317	56954920	78051596	131	19058										
GAL3ST3	89792	broad.mit.edu	37	chr11	65810520	65810520	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gtcccaggccagtaggcgccGcagcagcactagcgactcgt	13	15	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:65810520G>A	uc001ogv.2	-	2	914	c.754C>T	c.(754-756)CGG>TGG	p.R252W	GAL3ST3_uc001ogw.2_Missense_Mutation_p.R252W	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	252	Lumenal (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						AGTAGGCGCCGCAGCAGCACT	0.622													17	16	---	---	---	---	PASS	A	65810520	A	A	65810520	3	1	50	1	0	0	0	0	1	0	0	0	6199	1086	38	1	545	1	GAL3ST3	11	65810520	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	8855600	65810520	69195996	132	19059										
SF3B2	10992	broad.mit.edu	37	chr11	65820501	65820501	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tcctttctcttttgcagactGgcatcgtgctgaatcggccg	10	12	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:65820501G>T	uc001ogy.1	+	3	224	c.184G>T	c.(184-186)GGC>TGC	p.G62C	SF3B2_uc001ogx.1_Missense_Mutation_p.G62C	NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	62					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						TTTGCAGACTGGCATCGTGCT	0.433													36	97	---	---	---	---	PASS	T	65820501	T	T	65820501	3	4	50	1	0	0	0	0	1	0	0	0	14151	1348	47	3	194	3	SF3B2	11	65820501	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	9981	65820501	69186015	133	19060										
MYO7A	4647	broad.mit.edu	37	chr11	76893183	76893183	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	agccactgctctaccatgacGacgagggtgaccagctggta	12	12	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:76893183G>A	uc001oyb.2	+	24	3363	c.3091G>A	c.(3091-3093)GAC>AAC	p.D1031N	MYO7A_uc010rsl.1_Missense_Mutation_p.D1031N|MYO7A_uc010rsm.1_Missense_Mutation_p.D1020N|MYO7A_uc001oyc.2_Missense_Mutation_p.D1031N|MYO7A_uc001oyd.2_Missense_Mutation_p.D371N|MYO7A_uc009yus.1_RNA|MYO7A_uc009yut.1_Missense_Mutation_p.D242N	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	1031	MyTH4 1.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						CTACCATGACGACGAGGGTGA	0.607													11	16	---	---	---	---	PASS	A	76893183	A	A	76893183	3	1	50	1	0	0	0	0	1	0	0	0	10082	1058	37	2	3181	2	MYO7A	11	76893183	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	11072682	76893183	58113333	134	19061										
GUCY1A2	2977	broad.mit.edu	37	chr11	106681023	106681023	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ccatccttttcttcaacccaTcttgggcctttgcctgctca	5	16	4	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:106681023T>A	uc001pjg.1	-	5	1778	c.1388A>T	c.(1387-1389)GAT>GTT	p.D463V	GUCY1A2_uc010rvo.1_Missense_Mutation_p.D484V|GUCY1A2_uc009yxn.1_Missense_Mutation_p.D463V	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	463					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CTTCAACCCATCTTGGGCCTT	0.453													24	46	---	---	---	---	PASS	A	106681023	A	A	106681023	3	1	50	1	0	0	0	0	1	0	0	0	6893	1435	50	5	826	5	GUCY1A2	11	106681023	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	29787840	106681023	28325493	135	19062										
DSCAML1	57453	broad.mit.edu	37	chr11	117301686	117301686	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gcttggcatgctcataggccCgggccagctcctcgtaggtg	14	13	1	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:117301686C>A	uc001prh.1	-	32	5620	c.5618G>T	c.(5617-5619)CGG>CTG	p.R1873L		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1813	Cytoplasmic (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CTCATAGGCCCGGGCCAGCTC	0.567													41	60	---	---	---	---	PASS	A	117301686	A	A	117301686	3	1	50	1	0	0	0	0	1	0	0	0	4769	652	23	1	731	1	DSCAML1	11	117301686	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	10620663	117301686	17704830	136	19063										
ARHGEF12	23365	broad.mit.edu	37	chr11	120317760	120317760	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tggagaaggagcggacatgtGcagaacagattgttgccaaa	14	6	0	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:120317760G>A	uc001pxl.1	+	18	1562	c.1555G>A	c.(1555-1557)GCA>ACA	p.A519T	ARHGEF12_uc009zat.2_Missense_Mutation_p.A500T|ARHGEF12_uc010rzn.1_Missense_Mutation_p.A416T|ARHGEF12_uc009zau.1_Missense_Mutation_p.A416T	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	519	RGSL.				apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		GCGGACATGTGCAGAACAGAT	0.438			T	MLL	AML								19	55	---	---	---	---	PASS	A	120317760	A	A	120317760	3	1	50	1	0	0	0	0	1	0	0	0	897	1319	46	3	1625	3	ARHGEF12	11	120317760	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	3016074	120317760	14688756	137	19064										
SORL1	6653	broad.mit.edu	37	chr11	121485765	121485765	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ggaccggcccccggaatgtgGtgagtcagccagaatgacca	14	12	1	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:121485765G>T	uc001pxx.2	+	41	5684	c.5604_splice	c.e41+1	p.V1868_splice	SORL1_uc010rzp.1_Splice_Site_p.V714_splice|SORL1_uc010rzq.1_Splice_Site_p.V483_splice	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class						cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		CCGGAATGTGGTGAGTCAGCC	0.542													3	23	---	---	---	---	PASS	T	121485765	T	T	121485765	5	4	50	1	0	0	0	0	0	0	1	0	14934	1275	44	3	5767	3	SORL1	11	121485765	Splice_Site	SNP	G	TCGA-22-5485-01A-01D-1632-08	1168005	121485765	13520751	138	19065										
ASAM	79827	broad.mit.edu	37	chr11	122945410	122945410	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tagggatgtgggaggtttacCgaatttcattaggtctctct	12	6	3	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:122945410C>T	uc001pyt.2	-	6	1180	c.821G>A	c.(820-822)CGA>CAA	p.R274Q		NM_024769	NP_079045	Q9H6B4	CLMP_HUMAN	adipocyte-specific adhesion molecule precursor	274	Cytoplasmic (Potential).					integral to membrane|tight junction					0		Breast(109;0.0025)|Lung NSC(97;0.0179)|all_lung(97;0.0182)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.73e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)		GGAGGTTTACCGAATTTCATT	0.448													59	163	---	---	---	---	PASS	T	122945410	T	T	122945410	3	4	50	1	0	0	0	0	1	0	0	0	1009	666	23	1	308	1	ASAM	11	122945410	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	1459645	122945410	12061106	139	19066										
OR10G8	219869	broad.mit.edu	37	chr11	123901029	123901029	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tccgcacctcagaggggaagCacagagcctttcagacctgt	11	13	2	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr11:123901029C>A	uc001pzp.1	+	1	700	c.700C>A	c.(700-702)CAC>AAC	p.H234N		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		AGAGGGGAAGCACAGAGCCTT	0.547													18	53	---	---	---	---	PASS	A	123901029	A	A	123901029	3	1	50	1	0	0	0	0	1	0	0	0	10903	710	25	3	702	3	OR10G8	11	123901029	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	955619	123901029	11105487	140	19067										
ITFG2	55846	broad.mit.edu	37	chr12	2927299	2927299	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tggtggcagtgagtgctgaaGgctggtttcatttgtttgac	15	5	1	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr12:2927299G>T	uc001qlb.1	+	4	326	c.262G>T	c.(262-264)GGC>TGC	p.G88C	ITFG2_uc001qla.1_Missense_Mutation_p.G88C|ITFG2_uc010seb.1_Intron|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	88											0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GAGTGCTGAAGGCTGGTTTCA	0.507													29	49	---	---	---	---	PASS	T	2927299	T	T	2927299	3	4	50	1	0	0	0	0	1	0	0	0	7870	1000	35	3	276	3	ITFG2	12	2927299	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08		2927299	130924596	141	19068										
CLSTN3	9746	broad.mit.edu	37	chr12	7295832	7295832	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gaccttcaaccatgccctgcAgcatgtggcttacatgaaca	8	13	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr12:7295832A>G	uc001qsr.2	+	12	2050	c.1772A>G	c.(1771-1773)CAG>CGG	p.Q591R	CLSTN3_uc001qss.2_Missense_Mutation_p.Q603R	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	591	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						CATGCCCTGCAGCATGTGGCT	0.617													39	72	---	---	---	---	PASS	G	7295832	G	G	7295832	3	3	50	1	0	0	0	0	1	0	0	0	3563	188	7	5	1818	5	CLSTN3	12	7295832	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	4368533	7295832	126556063	142	19069										
ABCC9	10060	broad.mit.edu	37	chr12	22065959	22065959	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aaagctctgtacattgcaagCcatatagatggagtccgatt	9	8	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr12:22065959C>A	uc001rfi.1	-	6	878	c.858G>T	c.(856-858)TGG>TGT	p.W286C	ABCC9_uc001rfh.2_Missense_Mutation_p.W286C|ABCC9_uc001rfj.1_Missense_Mutation_p.W286C	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	286	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ACATTGCAAGCCATATAGATG	0.373													17	40	---	---	---	---	PASS	A	22065959	A	A	22065959	3	1	50	1	0	0	0	0	1	0	0	0	59	740	26	3	4065	3	ABCC9	12	22065959	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	14770127	22065959	111785936	143	19070										
MON2	23041	broad.mit.edu	37	chr12	62954653	62954653	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cctattacttttgataaactAacttttattcctagccagcc	3	11	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr12:62954653A>T	uc001sre.2	+	26	4183	c.3792A>T	c.(3790-3792)CTA>CTT	p.L1264L	MON2_uc009zqj.2_Silent_p.L1264L|MON2_uc010ssl.1_Silent_p.L1192L|MON2_uc010ssm.1_Silent_p.L1241L|MON2_uc010ssn.1_Silent_p.L1264L|MON2_uc001srf.2_Silent_p.L1027L|MON2_uc001srg.2_Silent_p.L139L	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	1265					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		TTGATAAACTAACTTTTATTC	0.368													31	46	---	---	---	---	PASS	T	62954653	T	T	62954653	2	4	50	1	0	0	0	0	0	0	0	1	9700	349	13	5		5	MON2	12	62954653	Silent	SNP	A	TCGA-22-5485-01A-01D-1632-08	40888694	62954653	70897242	144	19071										
TSPAN8	7103	broad.mit.edu	37	chr12	71519129	71519129	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cagattcatttgttcccgatCtggcaatacaggaccataga	8	10	2	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr12:71519129C>A	uc009zrt.1	-	8	861	c.699G>T	c.(697-699)CAG>CAT	p.Q233H	TSPAN8_uc001swk.1_Missense_Mutation_p.Q233H|TSPAN8_uc001swj.1_Missense_Mutation_p.Q233H	NM_004616	NP_004607	P19075	TSN8_HUMAN	transmembrane 4 superfamily member 3	233	Cytoplasmic (Potential).				protein glycosylation	integral to membrane|lysosome	signal transducer activity			skin(2)|lung(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(43;0.24)|OV - Ovarian serous cystadenocarcinoma(12;0.244)			TGTTCCCGATCTGGCAATACA	0.353													24	36	---	---	---	---	PASS	A	71519129	A	A	71519129	3	1	50	1	0	0	0	0	1	0	0	0	16650	912	32	2	18	2	TSPAN8	12	71519129	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	8564476	71519129	62332766	145	19072										
NAV3	89795	broad.mit.edu	37	chr12	78400211	78400211	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atgtccagattcctccaaagGacctcaatcgtcttcaggtg	8	12	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr12:78400211G>T	uc001syp.2	+	8	1066	c.893G>T	c.(892-894)GGA>GTA	p.G298V	NAV3_uc001syo.2_Missense_Mutation_p.G298V	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	298						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TCCTCCAAAGGACCTCAATCG	0.438										HNSCC(70;0.22)			14	33	---	---	---	---	PASS	T	78400211	T	T	78400211	3	4	50	1	0	0	0	0	1	0	0	0	10185	1174	41	2	923	2	NAV3	12	78400211	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	6881082	78400211	55451684	146	19073										
MYF5	4617	broad.mit.edu	37	chr12	81110943	81110943	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atttggggacgagtttgtgcCgcgagtggctgccttcggag	17	8	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr12:81110943C>A	uc001szg.2	+	1	236	c.101C>A	c.(100-102)CCG>CAG	p.P34Q		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	34					muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GAGTTTGTGCCGCGAGTGGCT	0.617													12	15	---	---	---	---	PASS	A	81110943	A	A	81110943	3	1	50	1	0	0	0	0	1	0	0	0	10027	652	23	1	103	1	MYF5	12	81110943	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	2710732	81110943	52740952	147	19074										
C12orf48	55010	broad.mit.edu	37	chr12	102569288	102569288	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gggggtcaaatactgtcagtGataaagatgcaactgattaa	11	5	2	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr12:102569288G>T	uc001tjf.2	+	7	961	c.849G>T	c.(847-849)GTG>GTT	p.V283V	C12orf48_uc001tjg.2_Silent_p.V202V|C12orf48_uc010swa.1_Silent_p.V360V|C12orf48_uc001tjh.2_Silent_p.V202V|C12orf48_uc010swb.1_Intron|C12orf48_uc009zuc.2_Intron|C12orf48_uc001tjj.2_5'UTR|C12orf48_uc001tjk.2_Intron|C12orf48_uc009zud.2_Intron	NM_017915	NP_060385	Q9NWS1	PR1BP_HUMAN	hypothetical protein LOC55010	283					response to DNA damage stimulus	cytoplasm|nucleus	DNA binding				0						TACTGTCAGTGATAAAGATGC	0.333													27	41	---	---	---	---	PASS	T	102569288	T	T	102569288	2	4	50	1	0	0	0	0	0	0	0	1	1692	1277	45	2		2	C12orf48	12	102569288	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	21458345	102569288	31282607	148	19075										
SKA3	221150	broad.mit.edu	37	chr13	21742230	21742230	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	taatttaggagttacacactCaaaatcatccatttttagtg	5	7	2	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr13:21742230C>T	uc001unt.2	-	4	734	c.640G>A	c.(640-642)GAG>AAG	p.E214K	SKA3_uc001unv.2_Missense_Mutation_p.E132K|SKA3_uc001unu.2_Missense_Mutation_p.E214K	NM_145061	NP_659498	Q8IX90	SKA3_HUMAN	SKA3	214					cell division|chromosome segregation|mitosis|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytoplasm|spindle microtubule	protein binding				0						GTTACACACTCAAAATCATCC	0.328													43	41	---	---	---	---	PASS	T	21742230	T	T	21742230	3	4	50	1	0	0	0	0	1	0	0	0	14354	835	29	2	669	2	SKA3	13	21742230	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08		21742230	93427648	149	19076										
PDS5B	23047	broad.mit.edu	37	chr13	33233343	33233343	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tggtagaccttatgagctctAttatttgtgaaggtgataca	10	5	1	4			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr13:33233343A>G	uc010abf.2	+	6	708	c.550A>G	c.(550-552)ATT>GTT	p.I184V	PDS5B_uc001uuo.2_Missense_Mutation_p.I184V|PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	184					cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		TATGAGCTCTATTATTTGTGA	0.378													40	36	---	---	---	---	PASS	G	33233343	G	G	33233343	3	3	50	1	0	0	0	0	1	0	0	0	11692	449	16	5	568	5	PDS5B	13	33233343	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	11491113	33233343	81936535	150	19077										
MAB21L1	4081	broad.mit.edu	37	chr13	36049443	36049443	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gcttttcacactcgtaggaaAccagagtcttcatatggtaa	8	9	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr13:36049443A>G	uc001uvc.2	-	1	1390	c.833T>C	c.(832-834)GTT>GCT	p.V278A	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	278					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		CTCGTAGGAAACCAGAGTCTT	0.527													22	17	---	---	---	---	PASS	G	36049443	G	G	36049443	3	3	50	1	0	0	0	0	1	0	0	0	9141	43	2	5	250	5	MAB21L1	13	36049443	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	2816100	36049443	79120435	151	19078										
MYH6	4624	broad.mit.edu	37	chr14	23862179	23862179	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	caggtccatgatgctctcctGggtcagcttcaggtcgccct	11	14	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr14:23862179G>C	uc001wjv.2	-	24	3260	c.3193C>G	c.(3193-3195)CAG>GAG	p.Q1065E		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1065	Potential.		Q -> H (in CMH14).		adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		ATGCTCTCCTGGGTCAGCTTC	0.542													17	60	---	---	---	---	PASS	C	23862179	C	C	23862179	3	2	50	1	0	0	0	0	1	0	0	0	10038	1357	47	4	2690	4	MYH6	14	23862179	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08		23862179	83487361	152	19079										
CBLN3	643866	broad.mit.edu	37	chr14	24897140	24897140	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctgcctcccgggtcacgtcaGgatcattggcaaaggctgag	13	12	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr14:24897140G>C	uc001wpg.3	-	3	944	c.473C>G	c.(472-474)CCT>CGT	p.P158R	KHNYN_uc010tpc.1_5'Flank|KHNYN_uc001wph.3_5'Flank|KHNYN_uc010alw.2_5'Flank	NM_001039771	NP_001034860	Q6UW01	CBLN3_HUMAN	cerebellin 3 precursor	158	Necessary for interaction with CBLN3, and homotrimerization (By similarity).|C1q.					cell junction|extracellular region|synapse				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(265;0.00159)		GGTCACGTCAGGATCATTGGC	0.632													15	21	---	---	---	---	PASS	C	24897140	C	C	24897140	3	2	50	1	0	0	0	0	1	0	0	0	2706	1000	35	4	148	4	CBLN3	14	24897140	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	1034961	24897140	82452400	153	19080										
AKAP6	9472	broad.mit.edu	37	chr14	33015113	33015113	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aggcaaatggttgatctaaaGcctgagatgagcagaagcac	12	7	1	4			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr14:33015113G>T	uc001wrq.2	+	4	1424	c.1254G>T	c.(1252-1254)AAG>AAT	p.K418N	AKAP6_uc010aml.2_Missense_Mutation_p.K415N	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	418					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TTGATCTAAAGCCTGAGATGA	0.453													64	103	---	---	---	---	PASS	T	33015113	T	T	33015113	3	4	50	1	0	0	0	0	1	0	0	0	455	962	34	3	1264	3	AKAP6	14	33015113	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	8117973	33015113	74334427	154	19081										
LRFN5	145581	broad.mit.edu	37	chr14	42357212	42357212	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atgatgacacccttgtttacAggtaagaaaaattgagcaaa	8	6	0	4			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr14:42357212A>G	uc001wvm.2	+	3	2582	c.1384A>G	c.(1384-1386)AGA>GGA	p.R462G	LRFN5_uc010ana.2_Missense_Mutation_p.R462G	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	462	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		CCTTGTTTACAGGTAAGAAAA	0.318										HNSCC(30;0.082)			6	25	---	---	---	---	PASS	G	42357212	G	G	42357212	3	3	50	1	0	0	0	0	1	0	0	0	8941	202	7	5	1386	5	LRFN5	14	42357212	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	9342099	42357212	64992328	155	19082										
FSCB	84075	broad.mit.edu	37	chr14	44975317	44975317	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttcagttgatggctgtacttGgacatgggtctcttcagcag	12	8	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr14:44975317G>T	uc001wvn.2	-	1	1183	c.874C>A	c.(874-876)CAA>AAA	p.Q292K		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	292						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		GGCTGTACTTGGACATGGGTC	0.517													19	46	---	---	---	---	PASS	T	44975317	T	T	44975317	3	4	50	1	0	0	0	0	1	0	0	0	6066	1357	47	3	1607	3	FSCB	14	44975317	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	2618105	44975317	62374223	156	19083										
NID2	22795	broad.mit.edu	37	chr14	52493960	52493960	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cggcataaccaggcaggcagGcacagctgaacgtgctgcct	13	13	0	1	rs147631741		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr14:52493960G>T	uc001wzo.2	-	12	2867	c.2633C>A	c.(2632-2634)GCC>GAC	p.A878D	NID2_uc010tqs.1_Intron|NID2_uc010tqt.1_Missense_Mutation_p.A878D|NID2_uc001wzp.2_Missense_Mutation_p.A878D	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	878	EGF-like 4.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					AGGCAGGCAGGCACAGCTGAA	0.597													5	14	---	---	---	---	PASS	T	52493960	T	T	52493960	3	4	50	1	0	0	0	0	1	0	0	0	10415	1203	42	3	1538	3	NID2	14	52493960	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	7518643	52493960	54855580	157	19084										
NID2	22795	broad.mit.edu	37	chr14	52534714	52534714	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tagcgggcggccaggcccagCactgcgggggaggtgtcctc	18	13	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr14:52534714C>T	uc001wzo.2	-	2	630	c.396G>A	c.(394-396)GTG>GTA	p.V132V	NID2_uc010tqs.1_Silent_p.V132V|NID2_uc010tqt.1_Silent_p.V132V|NID2_uc001wzp.2_Silent_p.V132V	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	132	NIDO.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CCAGGCCCAGCACTGCGGGGG	0.697													24	34	---	---	---	---	PASS	T	52534714	T	T	52534714	2	4	50	1	0	0	0	0	0	0	0	1	10415	697	25	3		3	NID2	14	52534714	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	40754	52534714	54814826	158	19085										
GPHN	10243	broad.mit.edu	37	chr14	67588971	67588971	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tggtggttttttggctttgtAgctgctaaatcctgaagatg	12	5	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr14:67588971A>G	uc001xiy.2	+	16	2649	c.1528_splice	c.e16-2	p.L510_splice	GPHN_uc001xix.2_Splice_Site_p.L543_splice|GPHN_uc010tss.1_Splice_Site_p.L556_splice|GPHN_uc010tst.1_Splice_Site_p.L479_splice|GPHN_uc010tsu.1_Splice_Site_p.L433_splice	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2						Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		TTGGCTTTGTAGCTGCTAAAT	0.373			T	MLL	AL								3	55	---	---	---	---	PASS	G	67588971	G	G	67588971	5	3	50	1	0	0	0	0	0	0	1	0	6610	434	15	5	1691	5	GPHN	14	67588971	Splice_Site	SNP	A	TCGA-22-5485-01A-01D-1632-08	15054257	67588971	39760569	159	19086										
C14orf179	112752	broad.mit.edu	37	chr14	76549569	76549569	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tttttttgtttgcattcacaGgatggggagatcgacctgaa	11	6	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr14:76549569G>A	uc010asm.1	+	8	479	c.445_splice	c.e8-1	p.D149_splice	C14orf179_uc001xsg.2_Splice_Site_p.D154_splice|C14orf179_uc010tve.1_Splice_Site	NM_001102564	NP_001096034	Q96FT9	IFT43_HUMAN	hypothetical protein LOC112752 isoform 2						cilium morphogenesis|intraflagellar retrograde transport						0				BRCA - Breast invasive adenocarcinoma(234;0.0199)		TGCATTCACAGGATGGGGAGA	0.532													11	16	---	---	---	---	PASS	A	76549569	A	A	76549569	5	1	50	1	0	0	0	0	0	0	1	0	1762	1014	35	3	573	3	C14orf179	14	76549569	Splice_Site	SNP	G	TCGA-22-5485-01A-01D-1632-08	8960598	76549569	30799971	160	19087										
TRIP11	9321	broad.mit.edu	37	chr14	92471524	92471524	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tccttcttttgctcttgtaaAgactgaagtagttgcatctt	7	8	3	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr14:92471524A>T	uc001xzy.2	-	11	3584	c.2796T>A	c.(2794-2796)TCT>TCA	p.S932S	TRIP11_uc010auf.1_Silent_p.S668S	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	932	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		GCTCTTGTAAAGACTGAAGTA	0.373			T	PDGFRB	AML								40	81	---	---	---	---	PASS	T	92471524	T	T	92471524	2	4	50	1	0	0	0	0	0	0	0	1	16552	59	3	5		5	TRIP11	14	92471524	Silent	SNP	A	TCGA-22-5485-01A-01D-1632-08	15921955	92471524	14878016	161	19088										
OTUD7A	161725	broad.mit.edu	37	chr15	31776570	31776570	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	accagactcctccttgctgcCcttgcgcgacttggccttct	8	17	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr15:31776570C>A	uc001zfq.2	-	11	1801	c.1708G>T	c.(1708-1710)GGC>TGC	p.G570C	OTUD7A_uc001zfr.2_Missense_Mutation_p.G577C	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	570						cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		TCCTTGCTGCCCTTGCGCGAC	0.692													6	18	---	---	---	---	PASS	A	31776570	A	A	31776570	3	1	50	1	0	0	0	0	1	0	0	0	11318	623	22	3	1076	3	OTUD7A	15	31776570	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08		31776570	70754822	162	19089										
RYR3	6263	broad.mit.edu	37	chr15	33941357	33941357	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgactccagactatcacttgTacagtgaaaagtttgacctg	8	9	1	4			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr15:33941357T>A	uc001zhi.2	+	31	4133	c.4063T>A	c.(4063-4065)TAC>AAC	p.Y1355N	RYR3_uc010bar.2_Missense_Mutation_p.Y1355N	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1355	4 X approximate repeats.|B30.2/SPRY 3.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CTATCACTTGTACAGTGAAAA	0.532													27	49	---	---	---	---	PASS	A	33941357	A	A	33941357	3	1	50	1	0	0	0	0	1	0	0	0	13770	1638	57	5	4185	5	RYR3	15	33941357	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	2164787	33941357	68590035	163	19090										
COPS2	9318	broad.mit.edu	37	chr15	49425958	49425958	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgaaatacaaaatcttacctTactaaattcgtcattgctaa	3	8	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr15:49425958T>A	uc001zxf.2	-	9	1024	c.945A>T	c.(943-945)GTA>GTT	p.V315V	COPS2_uc001zxh.2_Silent_p.V322V|COPS2_uc010ufa.1_Silent_p.V251V	NM_004236	NP_004227	P61201	CSN2_HUMAN	COP9 constitutive photomorphogenic homolog	315	PCI.				cullin deneddylation|transcription from RNA polymerase II promoter	cytoplasm|signalosome	protein binding|signal transducer activity			lung(1)	1		all_lung(180;0.0428)		all cancers(107;1.34e-07)|GBM - Glioblastoma multiforme(94;3.02e-05)		AATCTTACCTTACTAAATTCG	0.279													8	17	---	---	---	---	PASS	A	49425958	A	A	49425958	2	1	50	1	0	0	0	0	0	0	0	1	3733	1741	61	5		5	COPS2	15	49425958	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	15484601	49425958	53105434	164	19091										
UNC13C	440279	broad.mit.edu	37	chr15	54586235	54586235	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tagaagtgaggaccttgagtGgagaaatggatgtctggtac	15	4	1	4			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr15:54586235G>T	uc002ack.2	+	9	3961	c.3961G>T	c.(3961-3963)GGA>TGA	p.G1321*	UNC13C_uc002acl.2_Nonsense_Mutation_p.G151*	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1321					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GACCTTGAGTGGAGAAATGGA	0.353													31	60	---	---	---	---	PASS	T	54586235	T	T	54586235	4	4	50	1	0	0	0	0	0	1	0	0	16983	1349	47	3	3995	3	UNC13C	15	54586235	Nonsense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	5160277	54586235	47945157	165	19092										
CCNB2	9133	broad.mit.edu	37	chr15	59408904	59408904	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	attaggttcagccagtttccCggaagaagcttcaattagtt	9	8	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr15:59408904C>T	uc002afz.2	+	6	761	c.613C>T	c.(613-615)CGG>TGG	p.R205W	CCNB2_uc010bge.2_Missense_Mutation_p.R124W	NM_004701	NP_004692	O95067	CCNB2_HUMAN	cyclin B2	205					cell cycle checkpoint|cell division|G2/M transition of mitotic cell cycle|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	centrosome|cytosol|nucleus	protein kinase binding				0						GCCAGTTTCCCGGAAGAAGCT	0.408													9	59	---	---	---	---	PASS	T	59408904	T	T	59408904	3	4	50	1	0	0	0	0	1	0	0	0	2913	643	23	1	635	1	CCNB2	15	59408904	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	4822669	59408904	43122488	166	19093										
MVP	9961	broad.mit.edu	37	chr16	29845346	29845346	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ggctctgcggctcagggcccGcaaggagtgctgggaccggg	19	12	2	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr16:29845346G>A	uc002dui.2	+	5	620	c.536G>A	c.(535-537)CGC>CAC	p.R179H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010bzh.1_RNA|MVP_uc010vdz.1_Intron|MVP_uc002duj.2_Missense_Mutation_p.R179H|MVP_uc010vea.1_5'UTR	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	179	MVP 4.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						CTCAGGGCCCGCAAGGAGTGC	0.662													12	13	---	---	---	---	PASS	A	29845346	A	A	29845346	3	1	50	1	0	0	0	0	1	0	0	0	9996	1087	38	1	550	1	MVP	16	29845346	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08		29845346	60509407	167	19094										
FBXL19	54620	broad.mit.edu	37	chr16	30939884	30939884	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gcccgggcctgctgccccccAgggttctgaatccgagccag	13	17	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr16:30939884A>T	uc002eab.2	+	6	942	c.784A>T	c.(784-786)AGG>TGG	p.R262W	FBXL19_uc002dzz.1_5'UTR|FBXL19_uc002eaa.1_Intron	NM_001099784	NP_001093254	Q6PCT2	FXL19_HUMAN	F-box and leucine-rich repeat protein 19	262	Pro-rich.						DNA binding|zinc ion binding			ovary(2)|lung(1)|breast(1)	4						GCTGCCCCCCAGGGTTCTGAA	0.677													4	8	---	---	---	---	PASS	T	30939884	T	T	30939884	3	4	50	1	0	0	0	0	1	0	0	0	5715	179	7	5	806	5	FBXL19	16	30939884	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	1094538	30939884	59414869	168	19095										
PYDC1	260434	broad.mit.edu	37	chr16	31228292	31228292	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cttcatcttgaacttcttgaGctcctccggtgtcaggttct	8	12	5	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr16:31228292G>A	uc002ebo.2	-	1	107	c.58C>T	c.(58-60)CTC>TTC	p.L20F	TRIM72_uc002ebn.1_Intron	NM_152901	NP_690865	Q8WXC3	PYDC1_HUMAN	pyrin domain containing 1	20	DAPIN.				innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|positive regulation of interleukin-1 beta secretion|proteolysis|tumor necrosis factor-mediated signaling pathway	IkappaB kinase complex|nucleus	cysteine-type endopeptidase activity|protein binding				0						AACTTCTTGAGCTCCTCCGGT	0.652													14	19	---	---	---	---	PASS	A	31228292	A	A	31228292	3	1	50	1	0	0	0	0	1	0	0	0	12858	971	34	3	215	3	PYDC1	16	31228292	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	288408	31228292	59126461	169	19096										
FTO	79068	broad.mit.edu	37	chr16	53907755	53907755	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cggttcacaacctcggtttaGttccacccaccgagtggcag	10	14	1	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr16:53907755G>T	uc002ehr.2	+	5	1175	c.953G>T	c.(952-954)AGT>ATT	p.S318I	FTO_uc010vha.1_Missense_Mutation_p.S22I	NM_001080432	NP_001073901	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	318	Alpha-ketoglutarate binding.|Fe2OG dioxygenase domain.				DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CCTCGGTTTAGTTCCACCCAC	0.403													17	46	---	---	---	---	PASS	T	53907755	T	T	53907755	3	4	50	1	0	0	0	0	1	0	0	0	6086	1029	36	3	971	3	FTO	16	53907755	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	22679463	53907755	36446998	170	19097										
GPR97	222487	broad.mit.edu	37	chr16	57713122	57713122	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gcctgggagatggcagcggcGtgttgaacaatcgcctggtg	17	9	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr16:57713122G>T	uc002emh.2	+	5	629	c.526G>T	c.(526-528)GTG>TTG	p.V176L	GPR97_uc010vhv.1_Missense_Mutation_p.V56L|GPR97_uc010cdd.2_RNA|GPR97_uc010cde.2_5'Flank	NM_170776	NP_740746	Q86Y34	GPR97_HUMAN	G protein-coupled receptor 97 precursor	176	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1						TGGCAGCGGCGTGTTGAACAA	0.642													27	60	---	---	---	---	PASS	T	57713122	T	T	57713122	3	4	50	1	0	0	0	0	1	0	0	0	6720	1145	40	1	544	1	GPR97	16	57713122	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	3805367	57713122	32641631	171	19098										
CCDC113	29070	broad.mit.edu	37	chr16	58287931	58287931	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aggcgtagatccaaatcccgGacaggtatggaccgtggggt	15	9	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr16:58287931G>T	uc002ene.2	+	3	337	c.258G>T	c.(256-258)CGG>CGT	p.R86R	CCDC113_uc010vid.1_Intron	NM_014157	NP_054876	Q9H0I3	CC113_HUMAN	coiled-coil domain containing 113 isoform 1	86						protein complex					0						CCAAATCCCGGACAGGTATGG	0.502													14	43	---	---	---	---	PASS	T	58287931	T	T	58287931	2	4	50	1	0	0	0	0	0	0	0	1	2750	1161	41	2		2	CCDC113	16	58287931	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	574809	58287931	32066822	172	19099										
PKD1L2	114780	broad.mit.edu	37	chr16	81214831	81214831	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tcccccatggtgaccctgagCagaatgtctttgctggcatt	10	12	1	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr16:81214831C>A	uc002fgh.1	-	12	2043	c.2043G>T	c.(2041-2043)CTG>CTT	p.L681L	PKD1L2_uc002fgg.1_RNA|PKD1L2_uc002fgi.2_5'UTR|PKD1L2_uc002fgj.2_Silent_p.L681L|PKD1L2_uc002fgl.1_5'UTR	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	681	REJ.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TGACCCTGAGCAGAATGTCTT	0.517													13	40	---	---	---	---	PASS	A	81214831	A	A	81214831	2	1	50	1	0	0	0	0	0	0	0	1	11965	697	25	3		3	PKD1L2	16	81214831	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	22926900	81214831	9139922	173	19100										
PELP1	27043	broad.mit.edu	37	chr17	4575276	4575276	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctccacttccaaaagcagccCgggttcaggttcgggttctg	11	13	2	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr17:4575276C>A	uc002fyi.3	-	16	3236	c.3010G>T	c.(3010-3012)GGG>TGG	p.G1004W	PELP1_uc010vsf.1_Intron	NM_014389	NP_055204	Q8IZL8	PELP1_HUMAN	proline, glutamic acid and leucine rich protein	1004	Glu-rich.|Pro-rich.				transcription, DNA-dependent	cytoplasm|MLL1 complex	protein binding			ovary(1)|central_nervous_system(1)	2						AAAAGCAGCCCGGGTTCAGGT	0.662													7	2	---	---	---	---	PASS	A	4575276	A	A	4575276	3	1	50	1	0	0	0	0	1	0	0	0	11725	652	23	1	390	1	PELP1	17	4575276	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08		4575276	76619934	174	19101										
TP53	7157	broad.mit.edu	37	chr17	7578443	7578444	+	In_Frame_Ins	INS	-	GAT	GAT													0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atgtgctgtgactgcttgtaINSgatggccatggcgcggacgc							TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr17:7578443_7578444insGAT	uc002gim.2	-	5	680_681	c.486_487insATC	c.(484-489)insATC	p.162_163insI	TP53_uc002gig.1_In_Frame_Ins_p.162_163insI|TP53_uc002gih.2_In_Frame_Ins_p.162_163insI|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_In_Frame_Ins_p.30_31insI|TP53_uc010cng.1_In_Frame_Ins_p.30_31insI|TP53_uc002gii.1_In_Frame_Ins_p.30_31insI|TP53_uc010cnh.1_In_Frame_Ins_p.162_163insI|TP53_uc010cni.1_In_Frame_Ins_p.162_163insI|TP53_uc002gij.2_In_Frame_Ins_p.162_163insI|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_In_Frame_Ins_p.69_70insI|TP53_uc002gio.2_In_Frame_Ins_p.30_31insI|TP53_uc010vug.1_In_Frame_Ins_p.123_124insI	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	162_163	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> F (in a sporadic cancer; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Y -> S (in sporadic cancers; somatic mutation).|Y -> N (in sporadic cancers; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Y163N(17)|p.Y163H(17)|p.I162F(8)|p.0?(7)|p.I162V(5)|p.I162I(4)|p.I162S(4)|p.I162N(3)|p.I162M(3)|p.Y163fs*7(2)|p.R156_I162delRVRAMAI(2)|p.Y163D(2)|p.I162fs*19(2)|p.V157_C176del20(1)|p.Y163fs*1(1)|p.Y163_Q165delYKQ(1)|p.P151_V173del23(1)|p.S149fs*72(1)|p.I162_Y163delIY(1)|p.I162fs*8(1)|p.A161fs*7(1)|p.V157_I162delVRAMAI(1)|p.Y163fs*14(1)|p.A159_Q167delAMAIYKQSQ(1)|p.Y163fs*18(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)		GACTGCTTGTAGATGGCCATGG	0.624		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)			26	29	---	---	---	---		GAT	7578444	GAT	GAT	7578443	7	5	50	1	0	1	1	0	0	0	0	0	16378	420	15	0	811	0	TP53	17	7578443	In_Frame_Ins	INS	-	TCGA-22-5485-01A-01D-1632-08	3003167	7578443	73616767	175	19102										
MYH1	4619	broad.mit.edu	37	chr17	10415213	10415213	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atgaagtactgcctgggctgCttggtgtccagctgctggtt	14	9	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr17:10415213C>A	uc002gmo.2	-	14	1453	c.1359G>T	c.(1357-1359)AAG>AAT	p.K453N	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	453	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						GCCTGGGCTGCTTGGTGTCCA	0.478													131	44	---	---	---	---	PASS	A	10415213	A	A	10415213	3	1	50	1	0	0	0	0	1	0	0	0	10029	796	28	3	4568	3	MYH1	17	10415213	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	2836770	10415213	70779997	176	19103										
FLCN	201163	broad.mit.edu	37	chr17	17131272	17131272	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gccccctctgcggggctgtgCgcacgcatccgactgttcat	12	16	2	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr17:17131272C>A	uc002gra.3	-	4	684	c.180G>T	c.(178-180)GCG>GCT	p.A60A	PLD6_uc010cpn.2_Intron|FLCN_uc002grb.3_Silent_p.A60A|FLCN_uc002grc.2_Silent_p.A60A	NM_144997	NP_659434	Q8NFG4	FLCN_HUMAN	folliculin isoform 1	60					regulation of protein phosphorylation	cytoplasm|nucleus|plasma membrane	protein binding			thyroid(1)|haematopoietic_and_lymphoid_tissue(1)|lung(1)	3						CGGGGCTGTGCGCACGCATCC	0.607									Birt-Hogg-Dub__syndrome|Familial_Non-VHL_Clear_Cell_Renal_Cancer				27	14	---	---	---	---	PASS	A	17131272	A	A	17131272	2	1	50	1	0	0	0	0	0	0	0	1	5921	755	27	1		1	FLCN	17	17131272	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	6716059	17131272	64063938	177	19104										
COPS3	8533	broad.mit.edu	37	chr17	17179477	17179477	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tcacaaagctgtgtcatttgCcctggaaaacaggaacaaca	8	10	2	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr17:17179477C>T	uc002grd.2	-	2	148	c.57G>A	c.(55-57)GGG>GGA	p.G19G	COPS3_uc010vwv.1_5'UTR|COPS3_uc010vww.1_5'UTR	NM_003653	NP_003644	Q9UNS2	CSN3_HUMAN	COP9 constitutive photomorphogenic homolog	19					cullin deneddylation|response to light stimulus|signal transduction	cytoplasm|signalosome	protein binding			skin(1)	1						GTGTCATTTGCCCTGGAAAAC	0.463													3	62	---	---	---	---	PASS	T	17179477	T	T	17179477	2	4	50	1	0	0	0	0	0	0	0	1	3734	753	26	3		3	COPS3	17	17179477	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	48205	17179477	64015733	178	19105										
PRR11	55771	broad.mit.edu	37	chr17	57272786	57272786	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctccaaagtgttatcgactcGagttacaaacgtcttaatgt	7	9	1	0	rs563868	byFrequency	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr17:57272786G>T	uc002ixf.1	+	7	918	c.839G>T	c.(838-840)CGA>CTA	p.R280L	PRR11_uc002ixg.1_RNA	NM_018304	NP_060774	Q96HE9	PRR11_HUMAN	proline rich 11	280										ovary(2)	2	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TTATCGACTCGAGTTACAAAC	0.388													32	19	---	---	---	---	PASS	T	57272786	T	T	57272786	3	4	50	1	0	0	0	0	1	0	0	0	12583	1058	37	2	861	2	PRR11	17	57272786	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	40093309	57272786	23922424	179	19106										
HEATR6	63897	broad.mit.edu	37	chr17	58126990	58126990	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctcccagggcccgtgaagttGcagctttcactaagcgattc	10	13	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr17:58126990G>T	uc002iyk.1	-	16	2515	c.2498C>A	c.(2497-2499)GCA>GAA	p.A833E	HEATR6_uc010ddk.1_Missense_Mutation_p.A372E|HEATR6_uc010wos.1_Missense_Mutation_p.A553E	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	833							binding			ovary(1)|skin(1)	2	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			CCGTGAAGTTGCAGCTTTCAC	0.498													3	47	---	---	---	---	PASS	T	58126990	T	T	58126990	3	4	50	1	0	0	0	0	1	0	0	0	7033	1319	46	3	1067	3	HEATR6	17	58126990	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	854204	58126990	23068220	180	19107										
APOH	350	broad.mit.edu	37	chr17	64210612	64210612	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cgatagtgccatctatacacTgagcatcctctgtatagcta	7	11	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr17:64210612T>A	uc002jfn.3	-	7	1000	c.941A>T	c.(940-942)CAG>CTG	p.Q314L		NM_000042	NP_000033	P02749	APOH_HUMAN	apolipoprotein H precursor	314	Sushi-like.				blood coagulation, intrinsic pathway|negative regulation of angiogenesis|negative regulation of blood coagulation|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of myeloid cell apoptosis|negative regulation of smooth muscle cell apoptosis|plasminogen activation|positive regulation of lipoprotein lipase activity|triglyceride metabolic process|triglyceride transport	cell surface|chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	eukaryotic cell surface binding|glycoprotein binding|heparin binding|lipoprotein lipase activator activity|phospholipid binding				0			BRCA - Breast invasive adenocarcinoma(6;9.74e-08)			ATCTATACACTGAGCATCCTC	0.398													54	24	---	---	---	---	PASS	A	64210612	A	A	64210612	3	1	50	1	0	0	0	0	1	0	0	0	804	1580	55	5	104	5	APOH	17	64210612	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	6083622	64210612	16984598	181	19108										
COLEC12	81035	broad.mit.edu	37	chr18	335123	335123	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gcctctctcacccgcagggcCaggtggtccaggctccccct	11	19	2	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr18:335123C>T	uc002kkm.2	-	6	1650	c.1435G>A	c.(1435-1437)GGC>AGC	p.G479S		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	479	Collagen-like 2.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				CCCGCAGGGCCAGGTGGTCCA	0.667													33	45	---	---	---	---	PASS	T	335123	T	T	335123	3	4	50	1	0	0	0	0	1	0	0	0	3712	594	21	3	813	3	COLEC12	18	335123	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08		335123	77742125	182	19109										
LAMA1	284217	broad.mit.edu	37	chr18	7049209	7049209	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gtgaattccaacaacttgggTgaaagatcgtcagcgcttgg	12	8	1	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr18:7049209T>A	uc002knm.2	-	5	730	c.636A>T	c.(634-636)TCA>TCT	p.S212S	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	212	Laminin N-terminal.				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)	ACAACTTGGGTGAAAGATCGT	0.413													23	45	---	---	---	---	PASS	A	7049209	A	A	7049209	2	1	50	1	0	0	0	0	0	0	0	1	8605	1683	59	5		5	LAMA1	18	7049209	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	6714086	7049209	71028039	183	19110										
PPP4R1	9989	broad.mit.edu	37	chr18	9570624	9570624	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gaattactaacactgagatcTgaaggagtatcctctggcct	9	9	2	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr18:9570624T>C	uc002koe.1	-	11	1222	c.1104A>G	c.(1102-1104)TCA>TCG	p.S368S	PPP4R1_uc002kof.2_5'UTR|PPP4R1_uc010wzo.1_Silent_p.S214S|PPP4R1_uc002kod.1_Silent_p.S351S|PPP4R1_uc010wzp.1_RNA	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	368					protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						CACTGAGATCTGAAGGAGTAT	0.438													36	45	---	---	---	---	PASS	C	9570624	C	C	9570624	2	2	50	1	0	0	0	0	0	0	0	1	12403	1567	55	5		5	PPP4R1	18	9570624	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	2521415	9570624	68506624	184	19111										
CABYR	26256	broad.mit.edu	37	chr18	21736470	21736470	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gaaaatgagcagtcaaaagaAaatgagcagtcaccacgagt	10	7	2	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr18:21736470A>T	uc002kux.2	+	4	1157	c.1005A>T	c.(1003-1005)GAA>GAT	p.E335D	CABYR_uc010xbb.1_Missense_Mutation_p.E237D|CABYR_uc002kuy.2_Intron|CABYR_uc002kuz.2_Intron|CABYR_uc002kva.2_Missense_Mutation_p.E317D|CABYR_uc002kvb.2_Intron|CABYR_uc002kvc.2_Intron|CABYR_uc010dlw.2_RNA	NM_012189	NP_036321	O75952	CABYR_HUMAN	calcium-binding tyrosine	335					ciliary or flagellar motility|signal transduction|sperm capacitation	cytoplasm|cytoskeleton|flagellum|motile cilium|nucleus	calcium ion binding|cAMP-dependent protein kinase regulator activity|enzyme binding|protein heterodimerization activity|SH3 domain binding				0	all_cancers(21;9.13e-05)|all_epithelial(16;5.49e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0305)|Ovarian(20;0.17)					AGTCAAAAGAAAATGAGCAGT	0.388													21	42	---	---	---	---	PASS	T	21736470	T	T	21736470	3	4	50	1	0	0	0	0	1	0	0	0	2536	11	1	5	1015	5	CABYR	18	21736470	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	12165846	21736470	56340778	185	19112										
ATP8B3	148229	broad.mit.edu	37	chr19	1800301	1800301	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ggtgacgctgagcaggatgaGgaagctccagaagacgaaga	16	7	0	6			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:1800301G>C	uc002ltw.2	-	13	1534	c.1300C>G	c.(1300-1302)CTC>GTC	p.L434V	ATP8B3_uc002ltv.2_Missense_Mutation_p.L387V|ATP8B3_uc002ltx.2_RNA|ATP8B3_uc002lty.1_Missense_Mutation_p.L182V|ATP8B3_uc002ltz.1_Missense_Mutation_p.L381V	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	434	Helical; (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCAGGATGAGGAAGCTCCAG	0.592													9	32	---	---	---	---	PASS	C	1800301	C	C	1800301	3	2	50	1	0	0	0	0	1	0	0	0	1196	1000	35	4	2700	4	ATP8B3	19	1800301	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08		1800301	57328682	186	19113										
CD209	30835	broad.mit.edu	37	chr19	7810680	7810680	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	agatttctctggaagctcacCcactgcagccttcagccagg	9	14	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:7810680C>G	uc002mht.2	-	4	539	c.472G>C	c.(472-474)GGT>CGT	p.G158R	CD209_uc010xju.1_Intron|CD209_uc010dvp.2_Missense_Mutation_p.G134R|CD209_uc002mhr.2_Missense_Mutation_p.G134R|CD209_uc002mhs.2_Missense_Mutation_p.G134R|CD209_uc002mhu.2_Missense_Mutation_p.E158Q|CD209_uc010dvq.2_Missense_Mutation_p.G158R|CD209_uc002mhq.2_Missense_Mutation_p.G158R|CD209_uc002mhv.2_Missense_Mutation_p.G134R|CD209_uc002mhx.2_Missense_Mutation_p.G114R|CD209_uc002mhw.2_Missense_Mutation_p.E114Q|CD209_uc010dvr.2_Intron	NM_021155	NP_066978	Q9NNX6	CD209_HUMAN	CD209 molecule isoform 1	158	Extracellular (Probable).|7 X approximate tandem repeats.|3.				cell-cell recognition|endocytosis|heterophilic cell-cell adhesion|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to membrane|plasma membrane	mannose binding|metal ion binding|peptide antigen binding|receptor activity|virion binding			skin(1)	1						GGAAGCTCACCCACTGCAGCC	0.557													101	116	---	---	---	---	PASS	G	7810680	G	G	7810680	3	3	50	1	0	0	0	0	1	0	0	0	2984	637	22	4	758	4	CD209	19	7810680	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	6010379	7810680	51318303	187	19114										
LASS4	79603	broad.mit.edu	37	chr19	8319436	8319436	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgtgagggatcagaccaggaGgcaagtgaagcccaacgcca	14	10	1	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:8319436G>T	uc002mjg.2	+	4	547	c.227G>T	c.(226-228)AGG>ATG	p.R76M	LASS4_uc002mjh.2_Missense_Mutation_p.R25M|LASS4_uc002mji.2_Translation_Start_Site|LASS4_uc010dvz.2_Missense_Mutation_p.R76M	NM_024552	NP_078828	Q9HA82	CERS4_HUMAN	LAG1 homolog, ceramide synthase 4	76	Homeobox.					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(1)	1						CAGACCAGGAGGCAAGTGAAG	0.622													9	20	---	---	---	---	PASS	T	8319436	T	T	8319436	3	4	50	1	0	0	0	0	1	0	0	0	8641	1000	35	3	233	3	LASS4	19	8319436	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	508756	8319436	50809547	188	19115										
ZNF560	147741	broad.mit.edu	37	chr19	9578620	9578620	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgtttcaacatttacagcatGgcttgtggagtgagtaaatg	11	5	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:9578620G>A	uc002mlp.1	-	10	1213	c.1003C>T	c.(1003-1005)CAT>TAT	p.H335Y	ZNF560_uc010dwr.1_Missense_Mutation_p.H229Y	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	335					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						TTTACAGCATGGCTTGTGGAG	0.378													66	23	---	---	---	---	PASS	A	9578620	A	A	9578620	3	1	50	1	0	0	0	0	1	0	0	0	17988	1348	47	3	1373	3	ZNF560	19	9578620	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	1259184	9578620	49550363	189	19116										
OR7A10	390892	broad.mit.edu	37	chr19	14951778	14951778	+	Frame_Shift_Del	DEL	G	-	-													0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttctattgctttcctctgaaGaatgttttcatagcaccctt							TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:14951778delG	uc002mzx.1	-	1	912	c.912delC	c.(910-912)TTCfs	p.F304fs		NM_001005190	NP_001005190	O76100	OR7AA_HUMAN	olfactory receptor, family 7, subfamily A,	304	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					TTCCTCTGAAGAATGTTTTCA	0.443													18	34	---	---	---	---		-	14951778	-	-	14951778	7	5	50	1	0	1	0	1	0	0	0	0	11214	933	33	0	21	0	OR7A10	19	14951778	Frame_Shift_Del	DEL	G	TCGA-22-5485-01A-01D-1632-08	5373158	14951778	44177205	190	19117										
MED26	9441	broad.mit.edu	37	chr19	16687644	16687644	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cactgggctttccgcactggGcagcagctcgagccgccgta	13	15	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:16687644G>A	uc002nen.1	-	3	1258	c.997C>T	c.(997-999)CCC>TCC	p.P333S	MED26_uc002nee.2_RNA	NM_004831	NP_004822	O95402	MED26_HUMAN	mediator complex subunit 26	333					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|RNA polymerase II transcription cofactor activity|transcription coactivator activity			ovary(2)	2						TCCGCACTGGGCAGCAGCTCG	0.721													15	1	---	---	---	---	PASS	A	16687644	A	A	16687644	3	1	50	1	0	0	0	0	1	0	0	0	9444	1203	42	3	809	3	MED26	19	16687644	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	1735866	16687644	42441339	191	19118										
NCAN	1463	broad.mit.edu	37	chr19	19335983	19335983	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	agacgccgcgccggcgctgcGggggcccagccccgggcgtg	19	17	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:19335983G>T	uc002nlz.2	+	6	1075	c.976G>T	c.(976-978)GGG>TGG	p.G326W	NCAN_uc010ecc.1_5'Flank	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	326	Link 2.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			ccggcgctgcgggggcccagc	0.577													3	2	---	---	---	---	PASS	T	19335983	T	T	19335983	3	4	50	1	0	0	0	0	1	0	0	0	10204	1116	39	1	994	1	NCAN	19	19335983	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	2648339	19335983	39793000	192	19119										
ZNF676	163223	broad.mit.edu	37	chr19	22363549	22363549	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aattctcttgtgttcagtaaGgcttgaggaccagctgaagg	12	7	2	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:22363549G>A	uc002nqs.1	-	3	1288	c.970C>T	c.(970-972)CTT>TTT	p.L324F		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	324	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				TGTTCAGTAAGGCTTGAGGAC	0.418													11	75	---	---	---	---	PASS	A	22363549	A	A	22363549	3	1	50	1	0	0	0	0	1	0	0	0	18080	1000	35	3	800	3	ZNF676	19	22363549	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	3027566	22363549	36765434	193	19120										
ZNF91	7644	broad.mit.edu	37	chr19	23542727	23542727	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tcacatttgtatggtttctcTccagtgtgcatcctcgtatg	8	10	2	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:23542727T>C	uc002nre.2	-	4	3167	c.3054A>G	c.(3052-3054)GGA>GGG	p.G1018G	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Silent_p.G986G	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	1018						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				ATGGTTTCTCTCCAGTGTGCA	0.383													29	21	---	---	---	---	PASS	C	23542727	C	C	23542727	2	2	50	1	0	0	0	0	0	0	0	1	18197	1538	54	5		5	ZNF91	19	23542727	Silent	SNP	T	TCGA-22-5485-01A-01D-1632-08	1179178	23542727	35586256	194	19121										
LSM14A	26065	broad.mit.edu	37	chr19	34699941	34699941	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aggatacaagatctctaaaaAcacagttatctcaaggtaag	7	7	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:34699941A>G	uc002nvb.3	+	4	719	c.523A>G	c.(523-525)ACA>GCA	p.T175A	LSM14A_uc002nva.3_Missense_Mutation_p.T175A|LSM14A_uc010xru.1_Intron|LSM14A_uc002nvc.3_5'UTR	NM_001114093	NP_001107565	Q8ND56	LS14A_HUMAN	LSM14 homolog A isoform a	175					cytoplasmic mRNA processing body assembly|multicellular organismal development|regulation of translation	cytoplasmic mRNA processing body|intracellular membrane-bounded organelle|stress granule				skin(1)	1	Esophageal squamous(110;0.162)					ATCTCTAAAAACACAGTTATC	0.373													18	68	---	---	---	---	PASS	G	34699941	G	G	34699941	3	3	50	1	0	0	0	0	1	0	0	0	9054	43	2	5	537	5	LSM14A	19	34699941	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	11157214	34699941	24429042	195	19122										
C19orf55	148137	broad.mit.edu	37	chr19	36259086	36259086	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gcagcgagttccaggacgatCccgtgctgcaggtgctaaga	14	11	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:36259086C>T	uc002obq.1	+	10	1323	c.1250C>T	c.(1249-1251)TCC>TTC	p.S417F		NM_001039887	NP_001034976	Q2NL68	CS055_HUMAN	hypothetical protein LOC148137	Error:Variant_position_missing_in_Q2NL68_after_alignment										ovary(1)	1	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCAGGACGATCCCGTGCTGCA	0.632													4	23	---	---	---	---	PASS	T	36259086	T	T	36259086	3	4	50	1	0	0	0	0	1	0	0	0	1937	855	30	2	1288	2	C19orf55	19	36259086	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	1559145	36259086	22869897	196	19123										
ZNF382	84911	broad.mit.edu	37	chr19	37117851	37117851	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aacacatatagaggggaaacCctttatttgtatcgattgtg	9	6	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:37117851C>A	uc002oek.2	+	5	1165	c.1052C>A	c.(1051-1053)CCC>CAC	p.P351H	ZNF382_uc010efa.2_Missense_Mutation_p.P302H|ZNF382_uc010efb.2_Missense_Mutation_p.P350H|ZNF382_uc002oel.2_Missense_Mutation_p.P350H	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	351	Required for transcriptional repression activity; probably mediates sequence- specific DNA-binding (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GAGGGGAAACCCTTTATTTGT	0.468													19	97	---	---	---	---	PASS	A	37117851	A	A	37117851	3	1	50	1	0	0	0	0	1	0	0	0	17870	623	22	3	1062	3	ZNF382	19	37117851	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	858765	37117851	22011132	197	19124										
RYR1	6261	broad.mit.edu	37	chr19	38959614	38959614	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctgtcctcacagggccagcgCtggcacttgggcagtgaacc	13	14	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:38959614C>A	uc002oit.2	+	26	3520	c.3390C>A	c.(3388-3390)CGC>CGA	p.R1130R	RYR1_uc002oiu.2_Silent_p.R1130R	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1130	6 X approximate repeats.|Cytoplasmic.|B30.2/SPRY 2.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AGGGCCAGCGCTGGCACTTGG	0.552													37	23	---	---	---	---	PASS	A	38959614	A	A	38959614	2	1	50	1	0	0	0	0	0	0	0	1	13768	784	28	3		3	RYR1	19	38959614	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	1841763	38959614	20169369	198	19125										
ACTN4	81	broad.mit.edu	37	chr19	39207810	39207810	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aggagatgcagcagaagctgGaggacttccgcgactaccgg	15	10	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:39207810G>T	uc002oja.1	+	10	1056	c.997G>T	c.(997-999)GAG>TAG	p.E333*	ACTN4_uc010egc.1_Nonsense_Mutation_p.E333*	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	333	Spectrin 1.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GCAGAAGCTGGAGGACTTCCG	0.617													11	15	---	---	---	---	PASS	T	39207810	T	T	39207810	4	4	50	1	0	0	0	0	0	1	0	0	207	1175	41	2	1035	2	ACTN4	19	39207810	Nonsense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	248196	39207810	19921173	199	19126										
ARHGEF1	9138	broad.mit.edu	37	chr19	42399546	42399546	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cctctgtccctggacagcccAgaccgggaaccaggtgagag	13	14	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:42399546A>T	uc002orx.2	+	12	1111	c.1002A>T	c.(1000-1002)CCA>CCT	p.P334P	ARHGEF1_uc002orw.1_Silent_p.P334P|ARHGEF1_uc002ory.2_Silent_p.P301P|ARHGEF1_uc002orz.2_Silent_p.P172P|ARHGEF1_uc002osa.2_Silent_p.P349P|ARHGEF1_uc002osb.2_Silent_p.P316P|ARHGEF1_uc002osc.2_Silent_p.P28P|ARHGEF1_uc002osd.2_5'Flank	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	334					cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		TGGACAGCCCAGACCGGGAAC	0.677													18	81	---	---	---	---	PASS	T	42399546	T	T	42399546	2	4	50	1	0	0	0	0	0	0	0	1	893	175	7	5		5	ARHGEF1	19	42399546	Silent	SNP	A	TCGA-22-5485-01A-01D-1632-08	3191736	42399546	16729437	200	19127										
BCAM	4059	broad.mit.edu	37	chr19	45322052	45322052	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cgctcagttctatcaccttcGattccaatggcacctacgta	6	14	3	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:45322052G>T	uc002ozu.2	+	10	1293	c.1249G>T	c.(1249-1251)GAT>TAT	p.D417Y	BCAM_uc002ozt.1_Missense_Mutation_p.D417Y	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	417	Extracellular (Potential).|Ig-like C2-type 2.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				TATCACCTTCGATTCCAATGG	0.632													10	123	---	---	---	---	PASS	T	45322052	T	T	45322052	3	4	50	1	0	0	0	0	1	0	0	0	1344	1058	37	2	1287	2	BCAM	19	45322052	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	2922506	45322052	13806931	201	19128										
GPR77	27202	broad.mit.edu	37	chr19	47844851	47844851	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gcggccccgaactccgcactCctggccagggccctgcgggc	14	19	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:47844851C>A	uc010ela.1	+	2	1013	c.795C>A	c.(793-795)CTC>CTA	p.L265L	GPR77_uc002pgk.1_Silent_p.L265L	NM_018485	NP_060955	Q9P296	C5ARL_HUMAN	G protein-coupled receptor 77	265	Extracellular (Potential).				chemotaxis	integral to membrane|plasma membrane	C5a anaphylatoxin receptor activity			ovary(1)	1		all_cancers(25;1.72e-06)|all_lung(116;2.15e-05)|all_epithelial(76;3.44e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.0652)|Ovarian(192;0.086)		all cancers(93;0.000129)|OV - Ovarian serous cystadenocarcinoma(262;0.000415)|Epithelial(262;0.0109)|GBM - Glioblastoma multiforme(486;0.0138)		ACTCCGCACTCCTGGCCAGGG	0.647													23	108	---	---	---	---	PASS	A	47844851	A	A	47844851	2	1	50	1	0	0	0	0	0	0	0	1	6709	842	30	2		2	GPR77	19	47844851	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	2522799	47844851	11284132	202	19129										
CD37	951	broad.mit.edu	37	chr19	49840422	49840422	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	agtattttgggatgctgctgCtcctgtttgccacacagatc	10	10	0	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:49840422C>T	uc002pnd.2	+	4	407	c.286C>T	c.(286-288)CTC>TTC	p.L96F	uc002pnb.1_Intron|CD37_uc002pnc.2_RNA|CD37_uc010yam.1_Missense_Mutation_p.L96F|CD37_uc010yan.1_Missense_Mutation_p.L28F|CD37_uc002pnf.3_Missense_Mutation_p.L68F|CD37_uc002pne.2_Missense_Mutation_p.L28F	NM_001774	NP_001765	P11049	CD37_HUMAN	CD37 antigen isoform A	96	Helical; (Potential).					integral to membrane					0		all_lung(116;2.81e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00088)|GBM - Glioblastoma multiforme(486;0.0443)		GATGCTGCTGCTCCTGTTTGC	0.612													60	42	---	---	---	---	PASS	T	49840422	T	T	49840422	3	4	50	1	0	0	0	0	1	0	0	0	3008	797	28	3	300	3	CD37	19	49840422	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	1995571	49840422	9288561	203	19130										
ZNF610	162963	broad.mit.edu	37	chr19	52857617	52857617	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cagatggaagggaatgtgtcAgaagcgtgaacacaggtaag	15	5	1	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr19:52857617A>G	uc002pyx.3	+	5	710	c.304A>G	c.(304-306)AGA>GGA	p.R102G	ZNF610_uc002pyy.3_Missense_Mutation_p.R102G|ZNF610_uc002pyz.3_Intron|ZNF610_uc002pza.2_Missense_Mutation_p.R102G	NM_001161426	NP_001154898	Q8N9Z0	ZN610_HUMAN	zinc finger protein 610 isoform a	102					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3				OV - Ovarian serous cystadenocarcinoma(262;0.00396)|GBM - Glioblastoma multiforme(134;0.00434)		GGAATGTGTCAGAAGCGTGAA	0.313													20	57	---	---	---	---	PASS	G	52857617	G	G	52857617	3	3	50	1	0	0	0	0	1	0	0	0	18033	180	7	5	314	5	ZNF610	19	52857617	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	3017195	52857617	6271366	204	19131										
C20orf141	128653	broad.mit.edu	37	chr20	2796209	2796209	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	caggtcacactctgccacagCgcaaacttctcaccaggggc	9	16	3	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr20:2796209C>A	uc010gat.2	+	3	369	c.286C>A	c.(286-288)CGC>AGC	p.R96S	C20orf141_uc002wgv.1_Intron|C20orf141_uc002wgw.2_Missense_Mutation_p.R96S|uc002wgx.1_5'Flank|uc002wgy.1_5'Flank	NM_080739	NP_542777	Q9NUB4	CT141_HUMAN	hypothetical protein LOC128653	96	Leu-rich.					integral to membrane					0						TCTGCCACAGCGCAAACTTCT	0.617													16	35	---	---	---	---	PASS	A	2796209	A	A	2796209	3	1	50	1	0	0	0	0	1	0	0	0	2089	768	27	1	292	1	C20orf141	20	2796209	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08		2796209	60229311	205	19132										
FAM113A	64773	broad.mit.edu	37	chr20	2819336	2819336	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctggcaatacttggtccatgCgcacaaacacccgctccagg	9	15	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr20:2819336C>T	uc002wgz.1	-	5	997	c.500G>A	c.(499-501)CGC>CAC	p.R167H	FAM113A_uc002whb.1_Missense_Mutation_p.A19T|FAM113A_uc002wha.1_Missense_Mutation_p.A19T|FAM113A_uc010zqa.1_Missense_Mutation_p.R14H|FAM113A_uc002whc.1_Missense_Mutation_p.R116H|VPS16_uc002whe.2_5'Flank|VPS16_uc002whf.2_5'Flank|VPS16_uc002whd.2_5'Flank	NM_022760	NP_073597	Q9H1Q7	F113A_HUMAN	hypothetical protein LOC64773	167							hydrolase activity|protein binding			ovary(2)	2						TTGGTCCATGCGCACAAACAC	0.577													4	156	---	---	---	---	PASS	T	2819336	T	T	2819336	3	4	50	1	0	0	0	0	1	0	0	0	5401	768	27	1	880	1	FAM113A	20	2819336	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	23127	2819336	60206184	206	19133										
BFSP1	631	broad.mit.edu	37	chr20	17489538	17489538	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gcagactcgagcgtacctgtGcctgcagctccactctctgc	10	16	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr20:17489538G>T	uc002wpo.2	-	5	770	c.731C>A	c.(730-732)GCA>GAA	p.A244E	BFSP1_uc002wpp.2_Missense_Mutation_p.A119E|BFSP1_uc010zrn.1_Missense_Mutation_p.A105E|BFSP1_uc010zro.1_Missense_Mutation_p.A105E	NM_001195	NP_001186	Q12934	BFSP1_HUMAN	filensin isoform 1	244	Rod.|Coil 2.					cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens			central_nervous_system(1)	1						GCGTACCTGTGCCTGCAGCTC	0.652													3	4	---	---	---	---	PASS	T	17489538	T	T	17489538	3	4	50	1	0	0	0	0	1	0	0	0	1415	1319	46	3	1282	3	BFSP1	20	17489538	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	14670202	17489538	45535982	207	19134										
ZMYND8	23613	broad.mit.edu	37	chr20	45865220	45865220	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctggtcaccagggtgatggtGgacgtggatgggctctgtgt	18	7	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr20:45865220G>T	uc002xta.1	-	16	2900	c.2646C>A	c.(2644-2646)TCC>TCA	p.S882S	ZMYND8_uc010ghq.1_Silent_p.S513S|ZMYND8_uc010ghr.1_Silent_p.S811S|ZMYND8_uc002xst.1_Silent_p.S764S|ZMYND8_uc002xsu.1_Silent_p.S755S|ZMYND8_uc002xsv.1_Silent_p.S810S|ZMYND8_uc002xsw.1_Silent_p.S588S|ZMYND8_uc002xsx.1_Silent_p.S588S|ZMYND8_uc002xsy.1_Silent_p.S811S|ZMYND8_uc002xsz.1_Silent_p.S773S|ZMYND8_uc010zxy.1_Silent_p.S909S|ZMYND8_uc002xtb.1_Silent_p.S856S|ZMYND8_uc002xss.2_Silent_p.S882S|ZMYND8_uc010zxz.1_Silent_p.S750S|ZMYND8_uc002xtc.1_Silent_p.S856S|ZMYND8_uc002xtd.1_Silent_p.S831S|ZMYND8_uc002xte.1_Silent_p.S836S|ZMYND8_uc010zya.1_Silent_p.S882S|ZMYND8_uc002xtf.1_Silent_p.S902S|ZMYND8_uc002xsr.1_5'UTR	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	882							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			GGGTGATGGTGGACGTGGATG	0.592													20	43	---	---	---	---	PASS	T	45865220	T	T	45865220	2	4	50	1	0	0	0	0	0	0	0	1	17708	1335	47	3		3	ZMYND8	20	45865220	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	28375682	45865220	17160300	208	19135										
ZMYND8	23613	broad.mit.edu	37	chr20	45905064	45905064	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cgcacggagctgacctgtgcTcttatccaggaagtccatgg	12	12	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr20:45905064T>C	uc002xta.1	-	11	1668	c.1414A>G	c.(1414-1416)AGC>GGC	p.S472G	ZMYND8_uc010ghq.1_Missense_Mutation_p.S149G|ZMYND8_uc010ghr.1_Missense_Mutation_p.S447G|ZMYND8_uc002xst.1_Missense_Mutation_p.S447G|ZMYND8_uc002xsu.1_Missense_Mutation_p.S472G|ZMYND8_uc002xsv.1_Missense_Mutation_p.S447G|ZMYND8_uc002xsw.1_Missense_Mutation_p.S224G|ZMYND8_uc002xsx.1_Missense_Mutation_p.S224G|ZMYND8_uc002xsy.1_Missense_Mutation_p.S447G|ZMYND8_uc002xsz.1_Missense_Mutation_p.S409G|ZMYND8_uc010zxy.1_Missense_Mutation_p.S499G|ZMYND8_uc002xtb.1_Missense_Mutation_p.S492G|ZMYND8_uc002xss.2_Missense_Mutation_p.S472G|ZMYND8_uc010zxz.1_Missense_Mutation_p.S467G|ZMYND8_uc002xtc.1_Missense_Mutation_p.S492G|ZMYND8_uc002xtd.1_Missense_Mutation_p.S467G|ZMYND8_uc002xte.1_Missense_Mutation_p.S472G|ZMYND8_uc010zya.1_Missense_Mutation_p.S472G|ZMYND8_uc002xtf.1_Missense_Mutation_p.S492G|ZMYND8_uc002xtg.2_Missense_Mutation_p.S466G|ZMYND8_uc010ghs.1_Missense_Mutation_p.S466G	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	472							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			TGACCTGTGCTCTTATCCAGG	0.627													18	12	---	---	---	---	PASS	C	45905064	C	C	45905064	3	2	50	1	0	0	0	0	1	0	0	0	17708	1551	54	5	2144	5	ZMYND8	20	45905064	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	39844	45905064	17120456	209	19136										
NFATC2	4773	broad.mit.edu	37	chr20	50049292	50049292	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ggctccgtcttgatggctggGactgggaggagaaaagagca	17	7	1	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr20:50049292G>A	uc002xwd.2	-	9	2254	c.2034C>T	c.(2032-2034)GTC>GTT	p.V678V	NFATC2_uc002xwc.2_Silent_p.V678V|NFATC2_uc010zyv.1_Silent_p.V459V|NFATC2_uc010zyw.1_Silent_p.V459V|NFATC2_uc010zyx.1_Silent_p.V658V|NFATC2_uc010zyy.1_Silent_p.V459V|NFATC2_uc010zyz.1_Silent_p.V459V|NFATC2_uc002xwe.2_Silent_p.V658V	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	678					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					TGATGGCTGGGACTGGGAGGA	0.607													8	41	---	---	---	---	PASS	A	50049292	A	A	50049292	2	1	50	1	0	0	0	0	0	0	0	1	10362	1188	41	2		2	NFATC2	20	50049292	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	4144228	50049292	12976228	210	19137										
SLCO4A1	28231	broad.mit.edu	37	chr20	61288044	61288044	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atgaggtgcggtacgtctcgGccgggcagagcgtggcgtgc	19	10	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr20:61288044G>A	uc002ydb.1	+	2	443	c.238G>A	c.(238-240)GCC>ACC	p.A80T	SLCO4A1_uc002ydc.1_RNA	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	80	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)			GTACGTCTCGGCCGGGCAGAG	0.706													5	7	---	---	---	---	PASS	A	61288044	A	A	61288044	3	1	50	1	0	0	0	0	1	0	0	0	14729	1203	42	3	240	3	SLCO4A1	20	61288044	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	11238752	61288044	1737476	211	19138										
PRIC285	85441	broad.mit.edu	37	chr20	62200693	62200693	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ccacgccaggcaccacgtggCggttgccagtgtgccagcgc	14	16	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr20:62200693C>A	uc002yfm.2	-	5	1788	c.896G>T	c.(895-897)CGC>CTC	p.R299L	PRIC285_uc002yfl.1_5'Flank	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	299					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CACCACGTGGCGGTTGCCAGT	0.701													7	12	---	---	---	---	PASS	A	62200693	A	A	62200693	3	1	50	1	0	0	0	0	1	0	0	0	12485	768	27	1	7140	1	PRIC285	20	62200693	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	912649	62200693	824827	212	19139										
TIAM1	7074	broad.mit.edu	37	chr21	32496948	32496948	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctcggttttgaggagctgtcTtctgtgcttatcacgcagga	12	9	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr21:32496948T>C	uc002yow.1	-	28	4670	c.4198A>G	c.(4198-4200)AGA>GGA	p.R1400G	TIAM1_uc011adk.1_Missense_Mutation_p.R1400G|TIAM1_uc011adl.1_Missense_Mutation_p.R1340G	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1400					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						AGGAGCTGTCTTCTGTGCTTA	0.498													10	32	---	---	---	---	PASS	C	32496948	C	C	32496948	3	2	50	1	0	0	0	0	1	0	0	0	15887	1617	56	5	585	5	TIAM1	21	32496948	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08		32496948	15632947	213	19140										
ADORA2A	135	broad.mit.edu	37	chr22	24837043	24837043	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctcatgtacctggccatcgtCctctcccacaccaattcggt	6	17	2	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr22:24837043C>A	uc002zzx.2	+	5	1588	c.825C>A	c.(823-825)GTC>GTA	p.V275V	ADORA2A_uc002zzy.3_Silent_p.V275V|ADORA2A_uc011ajs.1_Silent_p.V136V|ADORA2A_uc010gup.2_Silent_p.V275V|ADORA2A_uc010guq.2_Silent_p.V275V|ADORA2A_uc003aab.2_Silent_p.V275V|ADORA2A_uc003aac.2_Silent_p.V136V|C22orf45_uc003aad.1_Intron	NM_000675	NP_000666	P29274	AA2AR_HUMAN	adenosine A2a receptor	275	Helical; Name=7.				apoptosis|blood coagulation|cAMP biosynthetic process|cellular defense response|inflammatory response|nerve growth factor receptor signaling pathway|phagocytosis|sensory perception	integral to plasma membrane|membrane fraction	enzyme binding				0	Colorectal(2;0.196)				Caffeine(DB00201)|Defibrotide(DB04932)|Pegademase bovine(DB00061)|Theophylline(DB00277)	TGGCCATCGTCCTCTCCCACA	0.577													18	39	---	---	---	---	PASS	A	24837043	A	A	24837043	2	1	50	1	0	0	0	0	0	0	0	1	327	842	30	2		2	ADORA2A	22	24837043	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08		24837043	26467523	214	19141										
CDC42EP1	11135	broad.mit.edu	37	chr22	37964498	37964498	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctgccgcaagctccacacccCatggacactgtcccaatggg	9	17	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr22:37964498C>A	uc003asz.3	+	3	1250	c.847C>A	c.(847-849)CAT>AAT	p.H283N		NM_152243	NP_689449	Q00587	BORG5_HUMAN	CDC42 effector protein 1	283					positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|endomembrane system|Golgi apparatus|plasma membrane	protein binding				0	Melanoma(58;0.0574)					CTCCACACCCCATGGACACTG	0.677													3	4	---	---	---	---	PASS	A	37964498	A	A	37964498	3	1	50	1	0	0	0	0	1	0	0	0	3075	594	21	3	853	3	CDC42EP1	22	37964498	Missense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	13127455	37964498	13340068	215	19142										
EFCAB6	64800	broad.mit.edu	37	chr22	43926757	43926757	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atcatagcttttgaacgtgcGccgcattggcctccagcagt	10	12	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr22:43926757G>T	uc003bdy.1	-	31	4536	c.4321C>A	c.(4321-4323)CGC>AGC	p.R1441S	EFCAB6_uc003bdz.1_Missense_Mutation_p.R1289S|EFCAB6_uc010gzi.1_Missense_Mutation_p.R1289S	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1441	Interaction with AR.|EF-hand 16.|Interaction with PARK7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				TTGAACGTGCGCCGCATTGGC	0.567													20	31	---	---	---	---	PASS	T	43926757	T	T	43926757	3	4	50	1	0	0	0	0	1	0	0	0	4939	1087	38	1	192	1	EFCAB6	22	43926757	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	5962259	43926757	7377809	216	19143										
CELSR1	9620	broad.mit.edu	37	chr22	46932037	46932037	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ggctgtggtcgttggtgtctTtgaccaagacagtgatgtag	15	6	1	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chr22:46932037T>G	uc003bhw.1	-	1	1031	c.1031A>C	c.(1030-1032)AAA>ACA	p.K344T		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	344	Extracellular (Potential).|Cadherin 1.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GTTGGTGTCTTTGACCAAGAC	0.647													11	37	---	---	---	---	PASS	G	46932037	G	G	46932037	3	3	50	1	0	0	0	0	1	0	0	0	3221	1841	64	5	8153	5	CELSR1	22	46932037	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	3005280	46932037	4372529	217	19144										
NLGN4X	57502	broad.mit.edu	37	chrX	5811526	5811526	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gttcaagttgtgcaaatgagGaacgagttccaaccagaaag	11	7	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:5811526G>A	uc010ndh.2	-	6	2284	c.1783C>T	c.(1783-1785)CCT>TCT	p.P595S	NLGN4X_uc004crp.2_Missense_Mutation_p.P615S|NLGN4X_uc004crq.2_Missense_Mutation_p.P595S|NLGN4X_uc010ndi.2_Missense_Mutation_p.P632S|NLGN4X_uc004crr.2_Missense_Mutation_p.P595S|NLGN4X_uc010ndj.2_Missense_Mutation_p.P595S	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	595	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TGCAAATGAGGAACGAGTTCC	0.468													44	72	---	---	---	---	PASS	A	5811526	A	A	5811526	3	1	50	1	0	0	0	0	1	0	0	0	10464	1174	41	2	671	2	NLGN4X	23	5811526	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08		5811526	149459034	218	19145										
NHS	4810	broad.mit.edu	37	chrX	17750482	17750482	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	agcagccgctacagtgtccgCtgccggctgtacaatacgcc	11	15	0	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:17750482C>G	uc004cxx.2	+	8	5129	c.4791C>G	c.(4789-4791)CGC>CGG	p.R1597R	NHS_uc011mix.1_Silent_p.R1618R|NHS_uc004cxy.2_Silent_p.R1441R|NHS_uc004cxz.2_Silent_p.R1420R|NHS_uc004cya.2_Silent_p.R1320R	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1597						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					ACAGTGTCCGCTGCCGGCTGT	0.587													29	54	---	---	---	---	PASS	G	17750482	G	G	17750482	2	3	50	1	0	0	0	0	0	0	0	1	10411	784	28	4		4	NHS	23	17750482	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	11938956	17750482	137520078	219	19146										
SYTL5	94122	broad.mit.edu	37	chrX	37961665	37961665	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gttatctacaaacactcaccGtctggcaagtggcctatcaa	7	12	4	0	rs148783666		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:37961665G>A	uc004ddu.2	+	11	1667	c.1133G>A	c.(1132-1134)CGT>CAT	p.R378H	SYTL5_uc004ddv.2_Missense_Mutation_p.R378H|SYTL5_uc004ddx.2_Missense_Mutation_p.R378H	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	378					intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						AACACTCACCGTCTGGCAAGT	0.413													24	47	---	---	---	---	PASS	A	37961665	A	A	37961665	3	1	50	1	0	0	0	0	1	0	0	0	15483	1145	40	1	1167	1	SYTL5	23	37961665	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	20211183	37961665	117308895	220	19147										
OTC	5009	broad.mit.edu	37	chrX	38226644	38226644	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttaaatatatgctatggctaTcagcagatctgaaatttagg	8	5	2	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:38226644T>A	uc004def.3	+	2	392	c.178T>A	c.(178-180)TCA>ACA	p.S60T		NM_000531	NP_000522	P00480	OTC_HUMAN	ornithine carbamoyltransferase precursor	60			S -> L (in OTCD).		arginine biosynthetic process|urea cycle	mitochondrial matrix|ornithine carbamoyltransferase complex	ornithine carbamoyltransferase activity			ovary(1)|breast(1)	2					L-Citrulline(DB00155)|L-Ornithine(DB00129)	GCTATGGCTATCAGCAGATCT	0.378													33	66	---	---	---	---	PASS	A	38226644	A	A	38226644	3	1	50	1	0	0	0	0	1	0	0	0	11301	1435	50	5	184	5	OTC	23	38226644	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	264979	38226644	117043916	221	19148										
OTC	5009	broad.mit.edu	37	chrX	38268031	38268031	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctagtgtaaccaagttggcaGagcagtatgccaaagaggta	12	7	0	2	rs72558430		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:38268031G>A	uc004def.3	+	7	914	c.700G>A	c.(700-702)GAG>AAG	p.E234K		NM_000531	NP_000522	P00480	OTC_HUMAN	ornithine carbamoyltransferase precursor	234					arginine biosynthetic process|urea cycle	mitochondrial matrix|ornithine carbamoyltransferase complex	ornithine carbamoyltransferase activity			ovary(1)|breast(1)	2					L-Citrulline(DB00155)|L-Ornithine(DB00129)	CAAGTTGGCAGAGCAGTATGC	0.333													17	33	---	---	---	---	PASS	A	38268031	A	A	38268031	3	1	50	1	0	0	0	0	1	0	0	0	11301	943	33	2	726	2	OTC	23	38268031	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	41387	38268031	117002529	222	19149										
USP11	8237	broad.mit.edu	37	chrX	47104082	47104082	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgacatcctcctgtcctagaAgatgacgaggaggataaaga	11	8	0	5			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:47104082A>G	uc004dhp.2	+	15	1974	c.1974A>G	c.(1972-1974)GAA>GAG	p.E658E	USP11_uc004dhq.2_Splice_Site_p.D385_splice	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	658					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CTGTCCTAGAAGATGACGAGG	0.587													6	11	---	---	---	---	PASS	G	47104082	G	G	47104082	2	3	50	1	0	0	0	0	0	0	0	1	17039	86	3	5		5	USP11	23	47104082	Silent	SNP	A	TCGA-22-5485-01A-01D-1632-08	8836051	47104082	108166478	223	19150										
KDM5C	8242	broad.mit.edu	37	chrX	53228048	53228048	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cttatgcagcatggcaggaaGctcatccaaggtataccgat	10	10	1	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:53228048G>T	uc004drz.2	-	16	2799	c.2266C>A	c.(2266-2268)CTT>ATT	p.L756I	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.L689I|KDM5C_uc004dsa.2_Missense_Mutation_p.L755I	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	756					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						ATGGCAGGAAGCTCATCCAAG	0.587			N|F|S		clear cell renal carcinoma								6	52	---	---	---	---	PASS	T	53228048	T	T	53228048	3	4	50	1	0	0	0	0	1	0	0	0	8135	971	34	3	2558	3	KDM5C	23	53228048	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	6123966	53228048	102042512	224	19151										
TRO	7216	broad.mit.edu	37	chrX	54952922	54952922	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	atggcaacaaggccagtgagGgtgagtggctgggcatgcag	18	7	0	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:54952922G>C	uc004dtq.2	+	8	1764	c.1657G>C	c.(1657-1659)GCT>CCT	p.A553P	TRO_uc004dts.2_Missense_Mutation_p.A553P|TRO_uc004dtr.2_Missense_Mutation_p.A553P|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_RNA|TRO_uc004dtv.2_Missense_Mutation_p.A156P|TRO_uc011mok.1_Missense_Mutation_p.A84P|TRO_uc004dtw.2_Missense_Mutation_p.A156P|TRO_uc004dtx.2_5'UTR	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	553	MAGE.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GGCCAGTGAGGGTGAGTGGCT	0.522													20	38	---	---	---	---	PASS	C	54952922	C	C	54952922	3	2	50	1	0	0	0	0	1	0	0	0	16571	1246	43	4	1683	4	TRO	23	54952922	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	1724874	54952922	100317638	225	19152										
LAS1L	81887	broad.mit.edu	37	chrX	64749617	64749617	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tctgttctgtgatgtcatcaAcaacaatgttcttatcttcc	5	10	6	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:64749617A>C	uc004dwa.1	-	5	728	c.656T>G	c.(655-657)GTT>GGT	p.V219G	LAS1L_uc004dwc.1_Missense_Mutation_p.V219G|LAS1L_uc004dwd.1_Missense_Mutation_p.V177G	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	219						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						GATGTCATCAACAACAATGTT	0.502													48	129	---	---	---	---	PASS	C	64749617	C	C	64749617	3	2	50	1	0	0	0	0	1	0	0	0	8636	43	2	5	1588	5	LAS1L	23	64749617	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	9796695	64749617	90520943	226	19153										
MED12	9968	broad.mit.edu	37	chrX	70347886	70347886	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ctacacggggctaggcaagaGtcttagtgagaaccctgcta	12	10	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:70347886G>T	uc004dyy.2	+	22	3324	c.3125G>T	c.(3124-3126)AGT>ATT	p.S1042I	MED12_uc011mpq.1_Missense_Mutation_p.S1042I|MED12_uc004dyz.2_Missense_Mutation_p.S1042I|MED12_uc004dza.2_Missense_Mutation_p.S889I|MED12_uc010nla.2_5'Flank	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1042					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					CTAGGCAAGAGTCTTAGTGAG	0.532													15	39	---	---	---	---	PASS	T	70347886	T	T	70347886	3	4	50	1	0	0	0	0	1	0	0	0	9428	1029	36	3	3211	3	MED12	23	70347886	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	5598269	70347886	84922674	227	19154										
CYLC1	1538	broad.mit.edu	37	chrX	83128311	83128311	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	caaaaaattgttcacaaaaaGataagaaagattcaaagaat	5	4	2	4			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:83128311G>C	uc004eei.1	+	4	616	c.595G>C	c.(595-597)GAT>CAT	p.D199H	CYLC1_uc004eeh.1_Missense_Mutation_p.D198H	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	199					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						TTCACAAAAAGATAAGAAAGA	0.313													17	21	---	---	---	---	PASS	C	83128311	C	C	83128311	3	2	50	1	0	0	0	0	1	0	0	0	4141	942	33	2	609	2	CYLC1	23	83128311	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	12780425	83128311	72142249	228	19155										
DIAPH2	1730	broad.mit.edu	37	chrX	96203955	96203955	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tcgatgaagaattcacagctCgacaggaagctcaagcagag	11	9	2	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:96203955C>A	uc004efu.3	+	15	1927	c.1531C>A	c.(1531-1533)CGA>AGA	p.R511R	DIAPH2_uc004eft.3_Silent_p.R511R	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	511	Potential.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						ATTCACAGCTCGACAGGAAGC	0.348													7	25	---	---	---	---	PASS	A	96203955	A	A	96203955	2	1	50	1	0	0	0	0	0	0	0	1	4519	876	31	2		2	DIAPH2	23	96203955	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	13075644	96203955	59066605	229	19156										
TNMD	64102	broad.mit.edu	37	chrX	99854654	99854654	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgctaccaaggaggacgagtCatctgtcgtgtcatcatgcc	11	11	4	0			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:99854654C>G	uc004efy.3	+	7	1120	c.894C>G	c.(892-894)GTC>GTG	p.V298V	TNMD_uc004efz.2_3'UTR	NM_022144	NP_071427	Q9H2S6	TNMD_HUMAN	tenomodulin	298	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						GAGGACGAGTCATCTGTCGTG	0.517													14	17	---	---	---	---	PASS	G	99854654	G	G	99854654	2	3	50	1	0	0	0	0	0	0	0	1	16319	813	29	2		2	TNMD	23	99854654	Silent	SNP	C	TCGA-22-5485-01A-01D-1632-08	3650699	99854654	55415906	230	19157										
CXorf57	55086	broad.mit.edu	37	chrX	105865895	105865895	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ttctagataccaaaataattTccctttctcatcttgaaatg	3	9	3	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:105865895T>A	uc004emi.3	+	2	809	c.658T>A	c.(658-660)TCC>ACC	p.S220T	CXorf57_uc004emj.3_Missense_Mutation_p.S220T|CXorf57_uc004emh.2_Missense_Mutation_p.S220T	NM_018015	NP_060485	Q6NSI4	CX057_HUMAN	hypothetical protein LOC55086	220										ovary(1)|lung(1)|breast(1)	3						CAAAATAATTTCCCTTTCTCA	0.308													13	31	---	---	---	---	PASS	A	105865895	A	A	105865895	3	1	50	1	0	0	0	0	1	0	0	0	4113	1783	62	5	664	5	CXorf57	23	105865895	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	6011241	105865895	49404665	231	19158										
MORC4	79710	broad.mit.edu	37	chrX	106205335	106205335	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tctgggcaagggcatttattGttagcctgaaagaaaatgca	11	6	1	2			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:106205335G>T	uc004emu.3	-	10	1406	c.1163C>A	c.(1162-1164)ACA>AAA	p.T388K	MORC4_uc004emp.3_Intron|MORC4_uc004emv.3_Missense_Mutation_p.T388K|MORC4_uc004emw.3_Missense_Mutation_p.T136K	NM_024657	NP_078933	Q8TE76	MORC4_HUMAN	zinc finger, CW type with coiled-coil domain 2	388							ATP binding|zinc ion binding			ovary(1)	1						GGCATTTATTGTTAGCCTGAA	0.373													49	109	---	---	---	---	PASS	T	106205335	T	T	106205335	3	4	50	1	0	0	0	0	1	0	0	0	9704	1377	48	3	1682	3	MORC4	23	106205335	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	339440	106205335	49065225	232	19159										
TMEM164	84187	broad.mit.edu	37	chrX	109414655	109414655	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cctcttcctccaggtgcttaCactccagagcccctcagcag	7	18	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:109414655C>A	uc004eom.2	+	6	913	c.594C>A	c.(592-594)TAC>TAA	p.Y198*	TMEM164_uc004eol.2_Nonsense_Mutation_p.Y49*|TMEM164_uc010npq.2_Nonsense_Mutation_p.Y159*	NM_032227	NP_115603	Q5U3C3	TM164_HUMAN	transmembrane protein 164 isoform b	198						integral to membrane				large_intestine(1)|lung(1)|skin(1)	3						CAGGTGCTTACACTCCAGAGC	0.537													97	260	---	---	---	---	PASS	A	109414655	A	A	109414655	4	1	50	1	0	0	0	0	0	1	0	0	16076	489	17	3	612	3	TMEM164	23	109414655	Nonsense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	3209320	109414655	45855905	233	19160										
RGAG1	57529	broad.mit.edu	37	chrX	109696915	109696915	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cgccaattagagcctctgctTctggagcaaggtccacatca	9	13	3	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:109696915T>A	uc004eor.1	+	3	3316	c.3070T>A	c.(3070-3072)TCT>ACT	p.S1024T	RGAG1_uc011msr.1_Missense_Mutation_p.S1024T	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	1024										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						AGCCTCTGCTTCTGGAGCAAG	0.498													68	131	---	---	---	---	PASS	A	109696915	A	A	109696915	3	1	50	1	0	0	0	0	1	0	0	0	13274	1783	62	5	3072	5	RGAG1	23	109696915	Missense_Mutation	SNP	T	TCGA-22-5485-01A-01D-1632-08	282260	109696915	45573645	234	19161										
THOC2	57187	broad.mit.edu	37	chrX	122759797	122759797	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	gaagtgtggaaaaatttggaGttttctgttgatgtaccaat	11	3	1	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:122759797G>A	uc004etu.2	-	25	3055	c.3023C>T	c.(3022-3024)ACT>ATT	p.T1008I	THOC2_uc004etw.1_5'Flank	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1008					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						AAAATTTGGAGTTTTCTGTTG	0.313													27	39	---	---	---	---	PASS	A	122759797	A	A	122759797	3	1	50	1	0	0	0	0	1	0	0	0	15862	1029	36	3	1814	3	THOC2	23	122759797	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	13062882	122759797	32510763	235	19162										
ARHGAP36	158763	broad.mit.edu	37	chrX	130218915	130218915	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	aagaatttgatcaaggtctgGatgtagtgctggatgacaat	12	4	2	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:130218915G>T	uc004evz.2	+	7	1177	c.832G>T	c.(832-834)GAT>TAT	p.D278Y	ARHGAP36_uc004ewa.2_Missense_Mutation_p.D266Y|ARHGAP36_uc004ewb.2_Missense_Mutation_p.D247Y|ARHGAP36_uc004ewc.2_Missense_Mutation_p.D142Y	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	278	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						TCAAGGTCTGGATGTAGTGCT	0.488													37	76	---	---	---	---	PASS	T	130218915	T	T	130218915	3	4	50	1	0	0	0	0	1	0	0	0	883	1174	41	2	854	2	ARHGAP36	23	130218915	Missense_Mutation	SNP	G	TCGA-22-5485-01A-01D-1632-08	7459118	130218915	25051645	236	19163										
MAP7D3	79649	broad.mit.edu	37	chrX	135309466	135309466	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	cagtggtgcttcctggtcttCctgatccagccatcctttct	8	14	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:135309466C>A	uc004ezt.2	-	12	2102	c.2011G>T	c.(2011-2013)GAA>TAA	p.E671*	MAP7D3_uc004ezs.2_Nonsense_Mutation_p.E635*|MAP7D3_uc011mwc.1_Nonsense_Mutation_p.E653*|MAP7D3_uc010nsa.1_Nonsense_Mutation_p.E629*	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	671						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					TCCTGGTCTTCCTGATCCAGC	0.453													28	58	---	---	---	---	PASS	A	135309466	A	A	135309466	4	1	50	1	0	0	0	0	0	1	0	0	9269	864	30	2	647	2	MAP7D3	23	135309466	Nonsense_Mutation	SNP	C	TCGA-22-5485-01A-01D-1632-08	5090551	135309466	19961094	237	19164										
RBMX	27316	broad.mit.edu	37	chrX	135958790	135958790	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	ccctggaagaactcatgttaAaattcatggaatatccaccg	7	10	2	1			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:135958790A>G	uc004fae.1	-	5	623	c.413T>C	c.(412-414)TTT>TCT	p.F138S	RBMX_uc004fac.1_5'Flank|RBMX_uc011mwf.1_Intron|RBMX_uc004fad.1_Missense_Mutation_p.F138S|RBMX_uc011mwg.1_Missense_Mutation_p.F99S|RBMX_uc004faf.1_5'UTR|RBMX_uc010nsf.1_Missense_Mutation_p.F99S|RBMX_uc004fag.1_Missense_Mutation_p.F10S	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	138						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					ACTCATGTTAAAATTCATGGA	0.378													36	74	---	---	---	---	PASS	G	135958790	G	G	135958790	3	3	50	1	0	0	0	0	1	0	0	0	13151	14	1	5	837	5	RBMX	23	135958790	Missense_Mutation	SNP	A	TCGA-22-5485-01A-01D-1632-08	649324	135958790	19311770	238	19165										
L1CAM	3897	broad.mit.edu	37	chrX	153137710	153137710	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0420168067226891	10	0.665937854907983	0.960097304508181	1.23212487411883	0.877105842593067	0.258731924360401	0.648523684278032	0	tgagcaaagttgctgttgttGcccgtgatggtgaaggagcc	15	7	0	3			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	448af8b4-e071-48b0-a65b-b4ad17afdc0c	95779034-450c-4511-91a7-40bacf8e2f78	g.chrX:153137710G>T	uc004fjb.2	-	4	405	c.297C>A	c.(295-297)GGC>GGA	p.G99G	L1CAM_uc004fjc.2_Silent_p.G99G|L1CAM_uc010nuo.2_Silent_p.G94G|L1CAM_uc004fjd.1_5'Flank|L1CAM_uc004fje.1_Silent_p.G94G	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	99	Extracellular (Potential).|Ig-like C2-type 1.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TGCTGTTGTTGCCCGTGATGG	0.592													25	36	---	---	---	---	PASS	T	153137710	T	T	153137710	2	4	50	1	0	0	0	0	0	0	0	1	8588	1306	46	3		3	L1CAM	23	153137710	Silent	SNP	G	TCGA-22-5485-01A-01D-1632-08	17178920	153137710	2132850	239	19166										
PRAMEF10	343071	broad.mit.edu	37	chr1	12955444	12955444	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aagtcccctcaggacagcttGcaaggtctccagatgaagtg	11	11	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:12955444G>T	uc001auo.2	-	2	308	c.235C>A	c.(235-237)CAA>AAA	p.Q79K		NM_001039361	NP_001034450	O60809	PRA10_HUMAN	PRAME family member 10	79											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AGGACAGCTTGCAAGGTCTCC	0.592													16	29	---	---	---	---	PASS	T	12955444	T	T	12955444	3	4	51	1	0	0	0	0	1	0	0	0	12426	1328	46	3	1201	3	PRAMEF10	1	12955444	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08		12955444	236295177	1	19167										
ALDH4A1	8659	broad.mit.edu	37	chr1	19203974	19203974	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgatctgcggccacagcgagTgcggcacgtagagacgcgag	16	11	1	2	rs145243354	byFrequency	TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:19203974T>C	uc001bbb.2	-	10	1349	c.1073A>G	c.(1072-1074)CAC>CGC	p.H358R	ALDH4A1_uc010ocu.1_Missense_Mutation_p.H298R|ALDH4A1_uc001bbc.2_Missense_Mutation_p.H358R	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	358					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	CCACAGCGAGTGCGGCACGTA	0.692													8	9	---	---	---	---	PASS	C	19203974	C	C	19203974	3	2	51	1	0	0	0	0	1	0	0	0	501	1696	59	5	642	5	ALDH4A1	1	19203974	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	6248530	19203974	230046647	2	19168										
HSPG2	3339	broad.mit.edu	37	chr1	22206613	22206613	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tactcaccaggcagtggccaTacacagggtcacaggagctg	12	12	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:22206613T>C	uc001bfj.2	-	17	2370	c.2330A>G	c.(2329-2331)TAT>TGT	p.Y777C	HSPG2_uc009vqd.2_Missense_Mutation_p.Y778C	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	777	Laminin EGF-like 2.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GCAGTGGCCATACACAGGGTC	0.498													14	20	---	---	---	---	PASS	C	22206613	C	C	22206613	3	2	51	1	0	0	0	0	1	0	0	0	7430	1406	49	5	11169	5	HSPG2	1	22206613	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	3002639	22206613	227044008	3	19169										
C1orf38	9473	broad.mit.edu	37	chr1	28209122	28209122	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cccttccacttccctggcagTttcgtggaggagatgagtga	12	11	0	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:28209122T>C	uc001bpc.3	+	4	1315	c.1287T>C	c.(1285-1287)AGT>AGC	p.S429S	C1orf38_uc001boz.2_Intron|C1orf38_uc001bpa.2_Intron|C1orf38_uc010ofn.1_Silent_p.S233S|C1orf38_uc010ofo.1_Silent_p.S300S	NM_001105556	NP_001099026	Q5TEJ8	THMS2_HUMAN	basement membrane-induced gene isoform 3	429	CABIT 2.				cell adhesion|inflammatory response					ovary(1)	1		Colorectal(325;3.46e-05)|all_lung(284;0.000129)|Lung NSC(340;0.000259)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;2.52e-24)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00244)|KIRC - Kidney renal clear cell carcinoma(1967;0.0027)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0649)		TCCCTGGCAGTTTCGTGGAGG	0.607													22	22	---	---	---	---	PASS	C	28209122	C	C	28209122	2	2	51	1	0	0	0	0	0	0	0	1	2039	1722	60	5		5	C1orf38	1	28209122	Silent	SNP	T	TCGA-22-5489-01A-01D-1632-08	6002509	28209122	221041499	4	19170										
CSMD2	114784	broad.mit.edu	37	chr1	34191058	34191058	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctggggaacctgggtcccgtGgtaaaccccgatcaagggcg	15	12	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:34191058G>T	uc001bxn.1	-	17	2496	c.2467C>A	c.(2467-2469)CAC>AAC	p.H823N	CSMD2_uc001bxm.1_Missense_Mutation_p.H863N	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	823	CUB 5.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TGGGTCCCGTGGTAAACCCCG	0.542													15	21	---	---	---	---	PASS	T	34191058	T	T	34191058	3	4	51	1	0	0	0	0	1	0	0	0	3945	1348	47	3	8208	3	CSMD2	1	34191058	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	5981936	34191058	215059563	5	19171										
MACF1	23499	broad.mit.edu	37	chr1	39783071	39783071	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caccgagtcattgcccagctCgagattcggtgagtggtggc	14	11	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:39783071C>T	uc010ois.1	+	30	3994	c.3789C>T	c.(3787-3789)CTC>CTT	p.L1263L	MACF1_uc001cda.1_Silent_p.L1171L|MACF1_uc001cdc.1_Silent_p.L350L|MACF1_uc009vvq.1_Silent_p.L320L|MACF1_uc001cdb.1_Silent_p.L350L	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1263	LRR 8.				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)			TTGCCCAGCTCGAGATTCGGT	0.468													6	36	---	---	---	---	PASS	T	39783071	T	T	39783071	2	4	51	1	0	0	0	0	0	0	0	1	9144	871	31	2		2	MACF1	1	39783071	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	5592013	39783071	209467550	6	19172										
DPH2	1802	broad.mit.edu	37	chr1	44437888	44437888	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gagctgtgggaaaccccagaCgtgtcactcattactggaga	12	10	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:44437888C>T	uc001ckz.2	+	5	1422	c.1227C>T	c.(1225-1227)GAC>GAT	p.D409D	DPH2_uc001cla.2_Silent_p.D181D|DPH2_uc010okk.1_Silent_p.D274D|DPH2_uc001clb.2_Silent_p.D333D|ATP6V0B_uc001clc.2_5'Flank|ATP6V0B_uc001cld.2_5'Flank|ATP6V0B_uc001cle.2_5'Flank|ATP6V0B_uc001clf.2_5'Flank	NM_001384	NP_001375	Q9BQC3	DPH2_HUMAN	diphthamide biosynthesis protein 2 isoform a	409					peptidyl-diphthamide biosynthetic process from peptidyl-histidine	cytoplasm				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				AAACCCCAGACGTGTCACTCA	0.577													10	63	---	---	---	---	PASS	T	44437888	T	T	44437888	2	4	51	1	0	0	0	0	0	0	0	1	4720	535	19	1		1	DPH2	1	44437888	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	4654817	44437888	204812733	7	19173										
ZFYVE9	9372	broad.mit.edu	37	chr1	52705178	52705178	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtgaggtggctccagtatggGtaccggattctcaggctcca	14	10	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:52705178G>A	uc001cto.2	+	4	2261	c.2089G>A	c.(2089-2091)GTA>ATA	p.V697I	ZFYVE9_uc001ctn.2_Missense_Mutation_p.V697I|ZFYVE9_uc001ctp.2_Missense_Mutation_p.V697I	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	697					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						TCCAGTATGGGTACCGGATTC	0.478													29	27	---	---	---	---	PASS	A	52705178	A	A	52705178	3	1	51	1	0	0	0	0	1	0	0	0	17668	1261	44	3	2095	3	ZFYVE9	1	52705178	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	8267290	52705178	196545443	8	19174										
DIRAS3	9077	broad.mit.edu	37	chr1	68512774	68512774	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tggcagtaggtattttcaatGgtcggcaggtactcatgacg	13	7	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:68512774G>A	uc001ded.2	-	2	502	c.207C>T	c.(205-207)ACC>ACT	p.T69T	uc001deb.1_Intron|uc001dec.1_Intron	NM_004675	NP_004666	O95661	DIRA3_HUMAN	DIRAS family, GTP-binding RAS-like 3	69	Effector region (Potential).				regulation of cyclin-dependent protein kinase activity|regulation of gene expression by genetic imprinting|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						TATTTTCAATGGTCGGCAGGT	0.602													16	99	---	---	---	---	PASS	A	68512774	A	A	68512774	2	1	51	1	0	0	0	0	0	0	0	1	4532	1335	47	3		3	DIRAS3	1	68512774	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	15807596	68512774	180737847	9	19175										
LRRC7	57554	broad.mit.edu	37	chr1	70587560	70587560	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cctagttattcaacgtgagcTtactgtctaaatatttttta	5	7	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:70587560T>C	uc001dep.2	+	25	4634	c.4604T>C	c.(4603-4605)CTT>CCT	p.L1535P	LRRC7_uc009wbg.2_Missense_Mutation_p.L819P|LRRC7_uc001deq.2_Missense_Mutation_p.L729P	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1535	PDZ.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CAACGTGAGCTTACTGTCTAA	0.328													24	38	---	---	---	---	PASS	C	70587560	C	C	70587560	3	2	51	1	0	0	0	0	1	0	0	0	9020	1609	56	5	4702	5	LRRC7	1	70587560	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	2074786	70587560	178663061	10	19176										
C1orf173	127254	broad.mit.edu	37	chr1	75038743	75038743	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctttgtctgtctcaagcactGtgagcatcaaggcttgcttt	9	10	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:75038743G>A	uc001dgg.2	-	14	2870	c.2651C>T	c.(2650-2652)ACA>ATA	p.T884I		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	884	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTCAAGCACTGTGAGCATCAA	0.512													92	154	---	---	---	---	PASS	A	75038743	A	A	75038743	3	1	51	1	0	0	0	0	1	0	0	0	2014	1377	48	3	1945	3	C1orf173	1	75038743	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	4451183	75038743	174211878	11	19177										
GBP2	2634	broad.mit.edu	37	chr1	89578310	89578310	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aagtaaagccatgcaacaatCtgatgatgctttggaattct	8	7	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:89578310C>G	uc001dmz.1	-	8	1478	c.1207G>C	c.(1207-1209)GAT>CAT	p.D403H	GBP2_uc001dmy.1_RNA	NM_004120	NP_004111	P32456	GBP2_HUMAN	guanylate binding protein 2,	403					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)	1		Lung NSC(277;0.0908)		all cancers(265;0.0151)|Epithelial(280;0.0284)		ATGCAACAATCTGATGATGCT	0.423													45	74	---	---	---	---	PASS	G	89578310	G	G	89578310	3	3	51	1	0	0	0	0	1	0	0	0	6274	913	32	2	584	2	GBP2	1	89578310	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	14539567	89578310	159672311	12	19178										
COL11A1	1301	broad.mit.edu	37	chr1	103548491	103548491	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gatattccctctggagaattGtgaaaatctagtgcttttag	9	6	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:103548491G>T	uc001dul.2	-	2	462	c.144C>A	c.(142-144)CAC>CAA	p.H48Q	COL11A1_uc001dum.2_Missense_Mutation_p.H48Q|COL11A1_uc001dun.2_Missense_Mutation_p.H48Q|COL11A1_uc009weh.2_Missense_Mutation_p.H48Q	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	48	TSP N-terminal.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CTGGAGAATTGTGAAAATCTA	0.348													22	49	---	---	---	---	PASS	T	103548491	T	T	103548491	3	4	51	1	0	0	0	0	1	0	0	0	3667	1368	48	3	5697	3	COL11A1	1	103548491	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	13970181	103548491	145702130	13	19179										
NBPF7	343505	broad.mit.edu	37	chr1	120384085	120384085	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tctcggaagtcctgcccctgGgagttgtcatgcttatccgg	12	12	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:120384085G>C	uc010oxk.1	-	3	1098	c.477C>G	c.(475-477)TCC>TCG	p.S159S		NM_001047980	NP_001041445	P0C2Y1	NBPF7_HUMAN	hypothetical protein LOC343505	159						cytoplasm				ovary(1)|skin(1)	2	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;3.66e-05)|Lung NSC(69;0.000192)|all_epithelial(167;0.0347)		Lung(183;0.0103)|LUSC - Lung squamous cell carcinoma(189;0.0544)		CCTGCCCCTGGGAGTTGTCAT	0.577													36	79	---	---	---	---	PASS	C	120384085	C	C	120384085	2	2	51	1	0	0	0	0	0	0	0	1	10198	1219	43	4		4	NBPF7	1	120384085	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	16835594	120384085	128866536	14	19180										
FDPS	2224	broad.mit.edu	37	chr1	155288667	155288667	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtacaaatctattgtcaagtAcaagacagctttctactcct	5	10	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:155288667A>T	uc001fkc.2	+	8	1013	c.794A>T	c.(793-795)TAC>TTC	p.Y265F	RAG1AP1_uc010pey.1_Intron|FDPS_uc001fkd.2_Missense_Mutation_p.Y199F|FDPS_uc001fke.2_Missense_Mutation_p.Y265F|FDPS_uc001fkf.2_Missense_Mutation_p.Y199F|C1orf104_uc001fkh.1_Intron|RUSC1_uc001fkj.2_5'Flank|RUSC1_uc001fkk.2_5'Flank|RUSC1_uc009wqn.1_5'Flank	NM_002004	NP_001995	P14324	FPPS_HUMAN	farnesyl diphosphate synthase isoform a	265					cholesterol biosynthetic process|interspecies interaction between organisms|isoprenoid biosynthetic process	cytosol|nucleus	dimethylallyltranstransferase activity|geranyltranstransferase activity|metal ion binding				0	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;2.03e-10)|all cancers(21;5.23e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)		Alendronate(DB00630)|Ibandronate(DB00710)|Pamidronate(DB00282)|Risedronate(DB00884)|Zoledronate(DB00399)	ATTGTCAAGTACAAGACAGCT	0.522													48	122	---	---	---	---	PASS	T	155288667	T	T	155288667	3	4	51	1	0	0	0	0	1	0	0	0	5803	391	14	5	820	5	FDPS	1	155288667	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	34904582	155288667	93961954	15	19181										
ARHGEF11	9826	broad.mit.edu	37	chr1	156917607	156917607	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcccgctgggttagcccagcCaccacatccttgcccactgt	8	18	0	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:156917607C>A	uc001fqo.2	-	24	3215	c.2175G>T	c.(2173-2175)GTG>GTT	p.V725V	ARHGEF11_uc010phu.1_Silent_p.V141V|ARHGEF11_uc001fqn.2_Silent_p.V765V	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	725					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)					TTAGCCCAGCCACCACATCCT	0.592													3	36	---	---	---	---	PASS	A	156917607	A	A	156917607	2	1	51	1	0	0	0	0	0	0	0	1	896	581	21	3		3	ARHGEF11	1	156917607	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	1628940	156917607	92333014	16	19182										
FCRL5	83416	broad.mit.edu	37	chr1	157514128	157514128	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gctgccttacaccagtagaaCcctgaatctttactccacat	5	14	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:157514128C>A	uc001fqu.2	-	5	926	c.768G>T	c.(766-768)GGG>GGT	p.G256G	FCRL5_uc009wsm.2_Silent_p.G256G|FCRL5_uc010phv.1_Silent_p.G256G|FCRL5_uc010phw.1_Silent_p.G171G|FCRL5_uc001fqv.1_Silent_p.G256G|FCRL5_uc010phx.1_Silent_p.G7G	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	256	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				ACCAGTAGAACCCTGAATCTT	0.512													71	157	---	---	---	---	PASS	A	157514128	A	A	157514128	2	1	51	1	0	0	0	0	0	0	0	1	5798	494	18	3		3	FCRL5	1	157514128	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	596521	157514128	91736493	17	19183										
CD1E	913	broad.mit.edu	37	chr1	158325720	158325720	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ccaaagcccgtgtgggtgatGtggatgcggggtgagcagga	19	7	0	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:158325720G>A	uc001fse.2	+	4	968	c.729G>A	c.(727-729)ATG>ATA	p.M243I	CD1E_uc010pid.1_Missense_Mutation_p.M241I|CD1E_uc010pie.1_Missense_Mutation_p.M144I|CD1E_uc010pif.1_Missense_Mutation_p.M54I|CD1E_uc001fsd.2_Missense_Mutation_p.M243I|CD1E_uc001fsk.2_Missense_Mutation_p.M153I|CD1E_uc001fsj.2_Missense_Mutation_p.M153I|CD1E_uc001fsc.2_Missense_Mutation_p.M54I|CD1E_uc010pig.1_RNA|CD1E_uc001fsa.2_Missense_Mutation_p.M54I|CD1E_uc001fsf.2_Missense_Mutation_p.M243I|CD1E_uc001fry.2_Missense_Mutation_p.M243I|CD1E_uc001fsg.2_Missense_Mutation_p.M54I|CD1E_uc001fsh.2_Missense_Mutation_p.M54I|CD1E_uc001fsi.2_Missense_Mutation_p.M243I|CD1E_uc009wsv.2_Missense_Mutation_p.M144I|CD1E_uc001frz.2_Missense_Mutation_p.M153I|CD1E_uc009wsw.2_Missense_Mutation_p.M1I	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	243	Ig-like.				antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					TGTGGGTGATGTGGATGCGGG	0.637													40	49	---	---	---	---	PASS	A	158325720	A	A	158325720	3	1	51	1	0	0	0	0	1	0	0	0	2978	1377	48	3	743	3	CD1E	1	158325720	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	811592	158325720	90924901	18	19184										
IGSF9	57549	broad.mit.edu	37	chr1	159902338	159902338	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtcacaggagagggcccggcGgtaccaagactgttgtaggg	17	9	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:159902338G>A	uc001fur.2	-	10	1407	c.1209C>T	c.(1207-1209)ACC>ACT	p.T403T	IGSF9_uc001fuq.2_Silent_p.T387T|IGSF9_uc001fup.2_5'Flank	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	403	Ig-like 4.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			AGGGCCCGGCGGTACCAAGAC	0.642													22	49	---	---	---	---	PASS	A	159902338	A	A	159902338	2	1	51	1	0	0	0	0	0	0	0	1	7605	1103	39	1		1	IGSF9	1	159902338	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	1576618	159902338	89348283	19	19185										
LY9	4063	broad.mit.edu	37	chr1	160786504	160786504	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgtcatgtacacatggacccCgctgcagaaggaagctgttg	12	10	1	1	rs150208343		TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:160786504C>A	uc001fwu.2	+	5	1243	c.1193C>A	c.(1192-1194)CCG>CAG	p.P398Q	LY9_uc001fwv.2_Missense_Mutation_p.P398Q|LY9_uc001fww.2_Intron|LY9_uc001fwx.2_Intron|LY9_uc001fwy.1_Intron|LY9_uc001fwz.2_Missense_Mutation_p.P50Q	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	398	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			ACATGGACCCCGCTGCAGAAG	0.557													21	35	---	---	---	---	PASS	A	160786504	A	A	160786504	3	1	51	1	0	0	0	0	1	0	0	0	9101	652	23	1	1343	1	LY9	1	160786504	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	884166	160786504	88464117	20	19186										
BAT2L2	23215	broad.mit.edu	37	chr1	171509443	171509443	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cagagaagtgaaccatctgcAggcattcctaaagtaaccag	9	10	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:171509443A>G	uc010pmg.1	+	16	3098	c.2832A>G	c.(2830-2832)GCA>GCG	p.A944A	BAT2L2_uc010pmh.1_5'UTR	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	944							protein C-terminus binding				0						AACCATCTGCAGGCATTCCTA	0.433													5	23	---	---	---	---	PASS	G	171509443	G	G	171509443	2	3	51	1	0	0	0	0	0	0	0	1	1321	175	7	5		5	BAT2L2	1	171509443	Silent	SNP	A	TCGA-22-5489-01A-01D-1632-08	10722939	171509443	77741178	21	19187										
RABGAP1L	9910	broad.mit.edu	37	chr1	174340115	174340115	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggtttttgcgtttcttctgcAgagagtgataatgaactctc	10	7	3	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:174340115A>G	uc001gjx.2	+	12	1661	c.1466_splice	c.e12-2	p.E489_splice	RABGAP1L_uc009wwq.1_Splice_Site_p.E501_splice|RABGAP1L_uc001gjw.2_Splice_Site_p.E452_splice|RABGAP1L_uc001gjy.2_Splice_Site_p.E157_splice|RABGAP1L_uc001gjz.2_Splice_Site_p.E136_splice	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A						regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						TTTCTTCTGCAGAGAGTGATA	0.348													21	54	---	---	---	---	PASS	G	174340115	G	G	174340115	5	3	51	1	0	0	0	0	0	0	1	0	12965	202	7	5	1506	5	RABGAP1L	1	174340115	Splice_Site	SNP	A	TCGA-22-5489-01A-01D-1632-08	2830672	174340115	74910506	22	19188										
PAPPA2	60676	broad.mit.edu	37	chr1	176769233	176769233	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gccggcgtcaatggcacccaGaccccgtcttagtccactgc	10	17	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:176769233G>T	uc001gkz.2	+	21	6331	c.5167G>T	c.(5167-5169)GAC>TAC	p.D1723Y	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1723	Sushi 5.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						ATGGCACCCAGACCCCGTCTT	0.483													29	104	---	---	---	---	PASS	T	176769233	T	T	176769233	3	4	51	1	0	0	0	0	1	0	0	0	11433	942	33	2	5298	2	PAPPA2	1	176769233	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	2429118	176769233	72481388	23	19189										
ASTN1	460	broad.mit.edu	37	chr1	176915118	176915118	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tccttggaatggttgttgtaAccaaagaacatctccccaaa	7	10	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:176915118A>T	uc001glc.2	-	13	2405	c.2193T>A	c.(2191-2193)GGT>GGA	p.G731G	ASTN1_uc001glb.1_Silent_p.G731G|ASTN1_uc001gld.1_Silent_p.G731G|ASTN1_uc009wwx.1_Silent_p.G731G	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	739					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GGTTGTTGTAACCAAAGAACA	0.493													34	138	---	---	---	---	PASS	T	176915118	T	T	176915118	2	4	51	1	0	0	0	0	0	0	0	1	1064	30	2	5		5	ASTN1	1	176915118	Silent	SNP	A	TCGA-22-5489-01A-01D-1632-08	145885	176915118	72335503	24	19190										
LAMC1	3915	broad.mit.edu	37	chr1	183101650	183101650	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gagaaaatcaaacagcatttGagattgaagagcttaatagg	10	4	1	4			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:183101650G>A	uc001gpy.3	+	21	3939	c.3682G>A	c.(3682-3684)GAG>AAG	p.E1228K		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	1228	Potential.|Domain II and I.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AACAGCATTTGAGATTGAAGA	0.398													39	62	---	---	---	---	PASS	A	183101650	A	A	183101650	3	1	51	1	0	0	0	0	1	0	0	0	8614	1291	45	2	3764	2	LAMC1	1	183101650	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	6186532	183101650	66148971	25	19191										
HMCN1	83872	broad.mit.edu	37	chr1	185970840	185970840	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aagcaattaatattgcaggcActtctcagaagtactttaac	6	8	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:185970840A>T	uc001grq.1	+	28	4544	c.4315A>T	c.(4315-4317)ACT>TCT	p.T1439S		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1439	Ig-like C2-type 11.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TATTGCAGGCACTTCTCAGAA	0.373													37	62	---	---	---	---	PASS	T	185970840	T	T	185970840	3	4	51	1	0	0	0	0	1	0	0	0	7220	159	6	5	4425	5	HMCN1	1	185970840	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	2869190	185970840	63279781	26	19192										
IGFN1	91156	broad.mit.edu	37	chr1	201193908	201193908	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctcacccagcttctgatcccTgtggctggactctcagacag	9	15	3	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:201193908T>A	uc001gwc.2	+	10	2644	c.1872T>A	c.(1870-1872)CCT>CCA	p.P624P	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						TTCTGATCCCTGTGGCTGGAC	0.587													3	44	---	---	---	---	PASS	A	201193908	A	A	201193908	2	1	51	1	0	0	0	0	0	0	0	1	7590	1567	55	5		5	IGFN1	1	201193908	Silent	SNP	T	TCGA-22-5489-01A-01D-1632-08	15223068	201193908	48056713	27	19193										
MYOG	4656	broad.mit.edu	37	chr1	203054889	203054889	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttacacaccttacacgcccaCggcaggcactggcctggaca	9	16	0	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:203054889C>T	uc001gzd.2	-	1	489	c.201G>A	c.(199-201)CCG>CCA	p.P67P		NM_002479	NP_002470	P15173	MYOG_HUMAN	myogenin	67					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			skin(2)	2						TACACGCCCACGGCAGGCACT	0.682													53	66	---	---	---	---	PASS	T	203054889	T	T	203054889	2	4	51	1	0	0	0	0	0	0	0	1	10090	523	19	1		1	MYOG	1	203054889	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	1860981	203054889	46195732	28	19194										
ADORA1	134	broad.mit.edu	37	chr1	203134990	203134990	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gctgccagcctgcacctcccAttgacgaggatctcccagaa	9	16	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:203134990A>G	uc001gze.1	+	4	1376	c.943A>G	c.(943-945)ATT>GTT	p.I315V	FMOD_uc010pqi.1_Intron|ADORA1_uc001gzf.1_Missense_Mutation_p.I315V|ADORA1_uc010pqg.1_Missense_Mutation_p.I247V|ADORA1_uc009xak.1_3'UTR|ADORA1_uc010pqh.1_Missense_Mutation_p.I348V	NM_000674	NP_000665	P30542	AA1R_HUMAN	adenosine A1 receptor	315	Cytoplasmic (Potential).				induction of apoptosis by extracellular signals|inflammatory response|nervous system development|phagocytosis	integral to plasma membrane				large_intestine(1)	1					Aminophylline(DB01223)|Caffeine(DB00201)|Defibrotide(DB04932)|Gabapentin(DB00996)|Imipramine(DB00458)|Pegademase bovine(DB00061)|Theophylline(DB00277)	TGCACCTCCCATTGACGAGGA	0.577													25	56	---	---	---	---	PASS	G	203134990	G	G	203134990	3	3	51	1	0	0	0	0	1	0	0	0	326	217	8	5	949	5	ADORA1	1	203134990	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	80101	203134990	46115631	29	19195										
PRELP	5549	broad.mit.edu	37	chr1	203452423	203452423	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gggcccgggcgcagacccagGcccaggcccaggcccacacc	14	20	0	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:203452423G>T	uc001gzs.2	+	2	311	c.111G>T	c.(109-111)AGG>AGT	p.R37S	PRELP_uc001gzt.2_Missense_Mutation_p.R37S	NM_002725	NP_002716	P51888	PRELP_HUMAN	proline arginine-rich end leucine-rich repeat	37					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent			ovary(1)|central_nervous_system(1)|pancreas(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.109)			GCAGACCCAGGCCCAGGCCCA	0.657													32	48	---	---	---	---	PASS	T	203452423	T	T	203452423	3	4	51	1	0	0	0	0	1	0	0	0	12473	1194	42	3	113	3	PRELP	1	203452423	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	317433	203452423	45798198	30	19196										
LYST	1130	broad.mit.edu	37	chr1	235972254	235972254	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tatctctgctcctcctaactGatccaaaataagtttgttaa	4	10	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:235972254G>A	uc001hxj.2	-	5	2039	c.1864C>T	c.(1864-1866)CAG>TAG	p.Q622*	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Nonsense_Mutation_p.Q622*	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	622					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			CCTCCTAACTGATCCAAAATA	0.348									Chediak-Higashi_syndrome				33	98	---	---	---	---	PASS	A	235972254	A	A	235972254	4	1	51	1	0	0	0	0	0	1	0	0	9128	1299	45	2	9737	2	LYST	1	235972254	Nonsense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	32519831	235972254	13278367	31	19197										
LYST	1130	broad.mit.edu	37	chr1	235972330	235972330	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gctggcaatttaaaagcatgGagcaaaggaatgattacaga	11	5	0	2	rs148614675	by1000genomes	TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:235972330G>C	uc001hxj.2	-	5	1963	c.1788C>G	c.(1786-1788)CTC>CTG	p.L596L	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Silent_p.L596L	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	596					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TAAAAGCATGGAGCAAAGGAA	0.388									Chediak-Higashi_syndrome				43	123	---	---	---	---	PASS	C	235972330	C	C	235972330	2	2	51	1	0	0	0	0	0	0	0	1	9128	1161	41	2		2	LYST	1	235972330	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	76	235972330	13278291	32	19198										
NID1	4811	broad.mit.edu	37	chr1	236189398	236189398	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggagatgccccatctcgctcGggctcagtcaccgtgtactc	11	15	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:236189398G>A	uc001hxo.2	-	8	1884	c.1782C>T	c.(1780-1782)CCC>CCT	p.P594P	NID1_uc009xgd.2_Silent_p.P594P	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	594	Nidogen G2 beta-barrel.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	CATCTCGCTCGGGCTCAGTCA	0.597													20	58	---	---	---	---	PASS	A	236189398	A	A	236189398	2	1	51	1	0	0	0	0	0	0	0	1	10414	1103	39	1		1	NID1	1	236189398	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	217068	236189398	13061223	33	19199										
RGS7	6000	broad.mit.edu	37	chr1	240976970	240976970	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggacagccatgggttagaagGgtcaggtggcaaaagaaacg	16	6	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr1:240976970G>T	uc001hyv.2	-	13	1234	c.904C>A	c.(904-906)CCT>ACT	p.P302T	RGS7_uc010pyh.1_Missense_Mutation_p.P276T|RGS7_uc010pyj.1_Missense_Mutation_p.P218T|RGS7_uc001hyu.2_Missense_Mutation_p.P302T|RGS7_uc009xgn.1_Missense_Mutation_p.P249T|RGS7_uc001hyw.2_Missense_Mutation_p.P302T|RGS7_uc001hyt.2_Missense_Mutation_p.P134T	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	302	G protein gamma.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			GGGTTAGAAGGGTCAGGTGGC	0.423													13	42	---	---	---	---	PASS	T	240976970	T	T	240976970	3	4	51	1	0	0	0	0	1	0	0	0	13310	1232	43	3	583	3	RGS7	1	240976970	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	4787572	240976970	8273651	34	19200										
POMC	5443	broad.mit.edu	37	chr2	25387637	25387637	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agcggctgcagcacgatctcGgcatcttccaggcaggctga	13	13	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:25387637G>T	uc002rfy.1	-	3	268	c.5C>A	c.(4-6)CCG>CAG	p.P2Q	POMC_uc002rfz.1_Missense_Mutation_p.P2Q|POMC_uc002rga.1_Missense_Mutation_p.P2Q	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	2					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)	GCACGATCTCGGCATCTTCCA	0.607													19	40	---	---	---	---	PASS	T	25387637	T	T	25387637	3	4	51	1	0	0	0	0	1	0	0	0	12242	1116	39	1	806	1	POMC	2	25387637	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08		25387637	217811736	35	19201										
KCNK3	3777	broad.mit.edu	37	chr2	26951214	26951214	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tacaagagccgcgagaagctGcagtactccatccccatgat	9	13	0	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:26951214G>A	uc002rhn.2	+	2	1126	c.963G>A	c.(961-963)CTG>CTA	p.L321L		NM_002246	NP_002237	O14649	KCNK3_HUMAN	potassium channel, subfamily K, member 3	321	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCGAGAAGCTGCAGTACTCCA	0.687													3	19	---	---	---	---	PASS	A	26951214	A	A	26951214	2	1	51	1	0	0	0	0	0	0	0	1	8067	1306	46	3		3	KCNK3	2	26951214	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	1563577	26951214	216248159	36	19202										
ZNF512	84450	broad.mit.edu	37	chr2	27823603	27823603	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agaaatcgttgataaaggcaGtgtctcctgccctacctgcc	9	12	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:27823603G>T	uc002rla.2	+	6	590	c.503G>T	c.(502-504)AGT>ATT	p.S168I	ZNF512_uc010ylv.1_Missense_Mutation_p.S89I|ZNF512_uc010ylw.1_Missense_Mutation_p.S139I|ZNF512_uc002rlb.2_Missense_Mutation_p.S89I|ZNF512_uc010ylx.1_Missense_Mutation_p.S89I|ZNF512_uc002rlc.2_Missense_Mutation_p.S89I|ZNF512_uc010yly.1_Intron|ZNF512_uc010ylz.1_Missense_Mutation_p.S61I	NM_032434	NP_115810	Q96ME7	ZN512_HUMAN	zinc finger protein 512	168					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					GATAAAGGCAGTGTCTCCTGC	0.433													32	72	---	---	---	---	PASS	T	27823603	T	T	27823603	3	4	51	1	0	0	0	0	1	0	0	0	17953	1029	36	3	525	3	ZNF512	2	27823603	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	872389	27823603	215375770	37	19203										
PPM1B	5495	broad.mit.edu	37	chr2	44428810	44428810	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	attcacgtgctgttctgtatAggaatggacaagtctgcttt	10	7	3	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:44428810A>G	uc002rtt.2	+	2	900	c.472A>G	c.(472-474)AGG>GGG	p.R158G	PPM1B_uc002rts.2_Missense_Mutation_p.R158G|PPM1B_uc002rtu.2_Missense_Mutation_p.R158G|PPM1B_uc002rtv.2_Intron|PPM1B_uc002rtw.2_Missense_Mutation_p.R158G|PPM1B_uc002rtx.2_Missense_Mutation_p.R158G	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	158					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TGTTCTGTATAGGAATGGACA	0.453													35	101	---	---	---	---	PASS	G	44428810	G	G	44428810	3	3	51	1	0	0	0	0	1	0	0	0	12336	411	15	5	474	5	PPM1B	2	44428810	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	16605207	44428810	198770563	38	19204										
FOXN2	3344	broad.mit.edu	37	chr2	48602067	48602067	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tattttccacaggtgagaagCctcttcctcttaaaacagca	6	11	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:48602067C>T	uc002rwh.1	+	7	1096	c.781C>T	c.(781-783)CCT>TCT	p.P261S		NM_002158	NP_002149	P32314	FOXN2_HUMAN	T-cell leukemia virus enhancer factor	261					embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0272)|LUSC - Lung squamous cell carcinoma(58;0.036)			AGGTGAGAAGCCTCTTCCTCT	0.378													16	38	---	---	---	---	PASS	T	48602067	T	T	48602067	3	4	51	1	0	0	0	0	1	0	0	0	6020	739	26	3	799	3	FOXN2	2	48602067	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	4173257	48602067	194597306	39	19205										
C2orf86	51057	broad.mit.edu	37	chr2	63631438	63631438	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctccccttggttgctgccaaCtagcagaatggcaccacttg	9	14	0	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:63631438C>A	uc002sch.2	-	10	1626	c.1180G>T	c.(1180-1182)GTT>TTT	p.V394F	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Missense_Mutation_p.V235F|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Missense_Mutation_p.V202F|C2orf86_uc002sci.1_Missense_Mutation_p.V370F|C2orf86_uc010fcr.1_Missense_Mutation_p.V284F	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	394	WD 2.				cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						TTGCTGCCAACTAGCAGAATG	0.458													31	93	---	---	---	---	PASS	A	63631438	A	A	63631438	3	1	51	1	0	0	0	0	1	0	0	0	2201	565	20	3	1096	3	C2orf86	2	63631438	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	15029371	63631438	179567935	40	19206										
CAPG	822	broad.mit.edu	37	chr2	85628714	85628714	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agactcattgccctgcacctCgcggtgctgcacaggccgct	11	16	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:85628714C>A	uc002spl.1	-	4	539	c.289G>T	c.(289-291)GAG>TAG	p.E97*	CAPG_uc002spm.1_Nonsense_Mutation_p.E97*|CAPG_uc010ysq.1_Nonsense_Mutation_p.E97*|CAPG_uc010fgi.1_Nonsense_Mutation_p.E97*|CAPG_uc010fgj.1_5'UTR	NM_001747	NP_001738	P40121	CAPG_HUMAN	gelsolin-like capping protein	97					barbed-end actin filament capping|protein complex assembly	F-actin capping protein complex|melanosome|nuclear membrane|nucleolus	actin binding				0						CCCTGCACCTCGCGGTGCTGC	0.647													3	51	---	---	---	---	PASS	A	85628714	A	A	85628714	4	1	51	1	0	0	0	0	0	1	0	0	2621	893	31	2	785	2	CAPG	2	85628714	Nonsense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	21997276	85628714	157570659	41	19207										
TEKT4	150483	broad.mit.edu	37	chr2	95539830	95539830	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	accgaggtgcaggctcatccGtactccaccaccttccaaga	8	16	1	1	rs35031477		TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:95539830G>A	uc002stw.1	+	3	783	c.690G>A	c.(688-690)CCG>CCA	p.P230P	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	230					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						AGGCTCATCCGTACTCCACCA	0.662													15	38	---	---	---	---	PASS	A	95539830	A	A	95539830	2	1	51	1	0	0	0	0	0	0	0	1	15752	1132	40	1		1	TEKT4	2	95539830	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	9911116	95539830	147659543	42	19208										
TEKT4	150483	broad.mit.edu	37	chr2	95542363	95542363	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gcgagagaagcttctagaagCggagcagtccctgcgcaacc	13	12	1	2	rs112631866		TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:95542363C>A	uc002stw.1	+	6	1250	c.1157C>A	c.(1156-1158)GCG>GAG	p.A386E	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	386	Potential.				cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						CTTCTAGAAGCGGAGCAGTCC	0.597													4	17	---	---	---	---	PASS	A	95542363	A	A	95542363	3	1	51	1	0	0	0	0	1	0	0	0	15752	768	27	1	1179	1	TEKT4	2	95542363	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	2533	95542363	147657010	43	19209										
SNRNP200	23020	broad.mit.edu	37	chr2	96949340	96949340	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agtgaggcgggtctgcttgcGagacggcacaaagacaatga	15	8	1	4			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:96949340G>A	uc002svu.2	-	33	4782	c.4696C>T	c.(4696-4698)CGC>TGC	p.R1566C	SNRNP200_uc002svt.2_Missense_Mutation_p.R176C|SNRNP200_uc010yuj.1_RNA|SNRNP200_uc002svv.1_Missense_Mutation_p.R93C	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1566	Helicase C-terminal 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						GTCTGCTTGCGAGACGGCACA	0.592													9	98	---	---	---	---	PASS	A	96949340	A	A	96949340	3	1	51	1	0	0	0	0	1	0	0	0	14852	1058	37	2	1766	2	SNRNP200	2	96949340	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	1406977	96949340	146250033	44	19210										
PSD4	23550	broad.mit.edu	37	chr2	113950133	113950133	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctatcgcctggagggcttccGgaagtctgaagtggctgcct	14	11	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:113950133G>T	uc002tjc.2	+	6	1988	c.1805G>T	c.(1804-1806)CGG>CTG	p.R602L	PSD4_uc002tjd.2_Missense_Mutation_p.R223L|PSD4_uc002tje.2_Missense_Mutation_p.R573L|PSD4_uc002tjf.2_Missense_Mutation_p.R223L	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	602	SEC7.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						GAGGGCTTCCGGAAGTCTGAA	0.602													18	42	---	---	---	---	PASS	T	113950133	T	T	113950133	3	4	51	1	0	0	0	0	1	0	0	0	12649	1116	39	1	1823	1	PSD4	2	113950133	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	17000793	113950133	129249240	45	19211										
GLI2	2736	broad.mit.edu	37	chr2	121744085	121744085	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgaccaccatgcaccggttcGagcagctcaagaaggagaag	12	11	1	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:121744085G>A	uc010flp.2	+	12	2218	c.2188G>A	c.(2188-2190)GAG>AAG	p.E730K	GLI2_uc002tmq.1_Missense_Mutation_p.E402K|GLI2_uc002tmr.1_Missense_Mutation_p.E385K|GLI2_uc002tmt.3_Missense_Mutation_p.E402K|GLI2_uc002tmu.3_Missense_Mutation_p.E385K|GLI2_uc002tmw.1_Missense_Mutation_p.E713K	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	730					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				GCACCGGTTCGAGCAGCTCAA	0.647													26	27	---	---	---	---	PASS	A	121744085	A	A	121744085	3	1	51	1	0	0	0	0	1	0	0	0	6438	1059	37	2	2234	2	GLI2	2	121744085	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	7793952	121744085	121455288	46	19212										
TUBA3D	113457	broad.mit.edu	37	chr2	132237844	132237844	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctccatcctgaccacccacaCgaccctggaacattctgact	5	18	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:132237844C>A	uc002tsu.3	+	4	685	c.578C>A	c.(577-579)ACG>AAG	p.T193K		NM_080386	NP_525125	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	193					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(221;0.13)		ACCACCCACACGACCCTGGAA	0.542													42	151	---	---	---	---	PASS	A	132237844	A	A	132237844	3	1	51	1	0	0	0	0	1	0	0	0	16744	536	19	1	592	1	TUBA3D	2	132237844	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	10493759	132237844	110961529	47	19213										
YSK4	80122	broad.mit.edu	37	chr2	135745182	135745182	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gcttcatttttatgtaatgaAactctttttgaagcagcttt	6	6	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:135745182A>T	uc002tue.1	-	7	1291	c.1260T>A	c.(1258-1260)GTT>GTA	p.V420V	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Silent_p.V307V|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Silent_p.V148V|YSK4_uc002tui.3_Silent_p.V437V	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	420							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TATGTAATGAAACTCTTTTTG	0.348													23	87	---	---	---	---	PASS	T	135745182	T	T	135745182	2	4	51	1	0	0	0	0	0	0	0	1	17492	1	1	5		5	YSK4	2	135745182	Silent	SNP	A	TCGA-22-5489-01A-01D-1632-08	3507338	135745182	107454191	48	19214										
ZEB2	9839	broad.mit.edu	37	chr2	145157445	145157445	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	catccctacacctaagtgctGcattggactctgagcagatg	9	12	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:145157445G>T	uc002tvu.2	-	8	1789	c.1309C>A	c.(1309-1311)CAG>AAG	p.Q437K	ZEB2_uc002tvv.2_Missense_Mutation_p.Q431K|ZEB2_uc010zbm.1_Missense_Mutation_p.Q408K|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.Q466K	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	437	SMAD-MH2 binding domain (By similarity).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		CCTAAGTGCTGCATTGGACTC	0.468													38	61	---	---	---	---	PASS	T	145157445	T	T	145157445	3	4	51	1	0	0	0	0	1	0	0	0	17621	1328	46	3	2347	3	ZEB2	2	145157445	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	9412263	145157445	98041928	49	19215										
TTN	7273	broad.mit.edu	37	chr2	179529454	179529454	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcagggacaatttcttggagAgcttcaggcactttaagaaa	10	7	3	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:179529454A>C	uc010zfk.1	-	12	1115	c.567T>G	c.(565-567)GCT>GCG	p.A189A	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TTTCTTGGAGAGCTTCAGGCA	0.383													8	40	---	---	---	---	PASS	C	179529454	C	C	179529454	2	2	51	1	0	0	0	0	0	0	0	1	16732	319	11	5		5	TTN	2	179529454	Silent	SNP	A	TCGA-22-5489-01A-01D-1632-08	34372009	179529454	63669919	50	19216										
TTN	7273	broad.mit.edu	37	chr2	179576820	179576820	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttttgtaagtcgtagtgggtCtcaattttgtatctccttta	8	6	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:179576820C>T	uc010zfg.1	-	93	24229	c.24005G>A	c.(24004-24006)AGA>AAA	p.R8002K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.R4663K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8929							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)			CGTAGTGGGTCTCAATTTTGT	0.408													23	48	---	---	---	---	PASS	T	179576820	T	T	179576820	3	4	51	1	0	0	0	0	1	0	0	0	16732	913	32	2	76860	2	TTN	2	179576820	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	47366	179576820	63622553	51	19217										
TTN	7273	broad.mit.edu	37	chr2	179628932	179628932	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gaaacccggcattgaaaacgGgctggctgcccttcagaagt	12	11	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:179628932G>T	uc010zfg.1	-	43	10310	c.10086C>A	c.(10084-10086)GCC>GCA	p.A3362A	TTN_uc010zfh.1_Silent_p.A3316A|TTN_uc010zfi.1_Silent_p.A3316A|TTN_uc010zfj.1_Silent_p.A3316A|TTN_uc002umz.1_Silent_p.A23A|TTN_uc002unb.2_Silent_p.A3362A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			ATTGAAAACGGGCTGGCTGCC	0.453													12	77	---	---	---	---	PASS	T	179628932	T	T	179628932	2	4	51	1	0	0	0	0	0	0	0	1	16732	1219	43	3		3	TTN	2	179628932	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	52112	179628932	63570441	52	19218										
TTN	7273	broad.mit.edu	37	chr2	179635941	179635941	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aatcctatgttacttgccttCaactttgagtttggcagatg	8	8	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:179635941C>A	uc010zfg.1	-	34	8337	c.8113G>T	c.(8113-8115)GAA>TAA	p.E2705*	TTN_uc010zfh.1_Nonsense_Mutation_p.E2659*|TTN_uc010zfi.1_Nonsense_Mutation_p.E2659*|TTN_uc010zfj.1_Nonsense_Mutation_p.E2659*|TTN_uc002unb.2_Nonsense_Mutation_p.E2705*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2705							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)			TACTTGCCTTCAACTTTGAGT	0.368													20	57	---	---	---	---	PASS	A	179635941	A	A	179635941	4	1	51	1	0	0	0	0	0	1	0	0	16732	835	29	2	103191	2	TTN	2	179635941	Nonsense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	7009	179635941	63563432	53	19219										
DNAH7	56171	broad.mit.edu	37	chr2	196681439	196681439	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcagtgaatactggtacatgGgctcaatgttggctaaatca	10	7	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:196681439G>T	uc002utj.3	-	51	9775	c.9674C>A	c.(9673-9675)CCC>CAC	p.P3225H		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3225					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CTGGTACATGGGCTCAATGTT	0.383													18	43	---	---	---	---	PASS	T	196681439	T	T	196681439	3	4	51	1	0	0	0	0	1	0	0	0	4606	1232	43	3	2460	3	DNAH7	2	196681439	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	17045498	196681439	46517934	54	19220										
ALS2	57679	broad.mit.edu	37	chr2	202582799	202582799	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gaattaacactagttactcaCaaaactttaggtctgtcttt	5	8	3	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:202582799C>A	uc002uyo.2	-	24	4192	c.3836_splice	c.e24+1	p.F1279_splice	ALS2_uc010ftl.2_Splice_Site	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1						cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						TAGTTACTCACAAAACTTTAG	0.323													8	48	---	---	---	---	PASS	A	202582799	A	A	202582799	5	1	51	1	0	0	0	0	0	0	1	0	550	492	17	3	1180	3	ALS2	2	202582799	Splice_Site	SNP	C	TCGA-22-5489-01A-01D-1632-08	5901360	202582799	40616574	55	19221										
SPEG	10290	broad.mit.edu	37	chr2	220342649	220342649	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtgctttctcctacttgcggCgcatagtggagcgtagctcc	12	12	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:220342649C>A	uc010fwg.2	+	22	4849	c.4849C>A	c.(4849-4851)CGC>AGC	p.R1617S		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1617	Protein kinase 1.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CTACTTGCGGCGCATAGTGGA	0.647													22	93	---	---	---	---	PASS	A	220342649	A	A	220342649	3	1	51	1	0	0	0	0	1	0	0	0	15035	768	27	1	4947	1	SPEG	2	220342649	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	17759850	220342649	22856724	56	19222										
PSMD1	5707	broad.mit.edu	37	chr2	231951878	231951878	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agggcagcagtagaatcactTgggttcattctattcaggta	11	7	4	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:231951878T>C	uc002vrn.1	+	16	1997	c.1866T>C	c.(1864-1866)CTT>CTC	p.L622L	PSMD1_uc002vrm.1_Silent_p.L622L|PSMD1_uc010fxu.1_Silent_p.L486L	NM_002807	NP_002798	Q99460	PSMD1_HUMAN	proteasome 26S non-ATPase subunit 1	622	PC 7.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding			ovary(1)|skin(1)	2		Ovarian(221;0.000626)|Medulloblastoma(418;0.0109)|Renal(207;0.0112)|Lung NSC(271;0.0538)|all_lung(227;0.0713)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;4e-26)|LUSC - Lung squamous cell carcinoma(224;0.0138)|Lung(119;0.0168)	Bortezomib(DB00188)	TAGAATCACTTGGGTTCATTC	0.333													10	52	---	---	---	---	PASS	C	231951878	C	C	231951878	2	2	51	1	0	0	0	0	0	0	0	1	12692	1799	63	5		5	PSMD1	2	231951878	Silent	SNP	T	TCGA-22-5489-01A-01D-1632-08	11609229	231951878	11247495	57	19223										
TRPM8	79054	broad.mit.edu	37	chr2	234854669	234854669	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtatatctctgagcgcactaTtcaaggtcagtggttaggag	12	7	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr2:234854669T>A	uc002vvh.2	+	7	909	c.869T>A	c.(868-870)ATT>AAT	p.I290N	TRPM8_uc010fyj.2_5'UTR	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	290	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	GAGCGCACTATTCAAGGTCAG	0.473													6	43	---	---	---	---	PASS	A	234854669	A	A	234854669	3	1	51	1	0	0	0	0	1	0	0	0	16589	1493	52	5	891	5	TRPM8	2	234854669	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	2902791	234854669	8344704	58	19224										
ZNF167	55888	broad.mit.edu	37	chr3	44611698	44611698	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aagttggggaacatccacctCtgtcttccagtcctgttgaa	9	11	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:44611698C>A	uc010hin.2	+	6	1484	c.1096C>A	c.(1096-1098)CTG>ATG	p.L366M	ZNF167_uc003cnh.2_RNA|ZNF167_uc003cni.2_Intron|ZNF167_uc010hio.2_Missense_Mutation_p.L215M|ZNF167_uc003cnj.2_Missense_Mutation_p.L366M|ZNF167_uc003cnk.2_Intron	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	366					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		ACATCCACCTCTGTCTTCCAG	0.373													4	102	---	---	---	---	PASS	A	44611698	A	A	44611698	3	1	51	1	0	0	0	0	1	0	0	0	17738	912	32	2	1114	2	ZNF167	3	44611698	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08		44611698	153410732	59	19225										
BSN	8927	broad.mit.edu	37	chr3	49689524	49689524	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gatgaggatttcatgcgacgGcagattctcgagatgagcgc	14	8	2	4			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:49689524G>T	uc003cxe.3	+	5	2649	c.2535G>T	c.(2533-2535)CGG>CGT	p.R845R		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	845					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		TCATGCGACGGCAGATTCTCG	0.622													6	19	---	---	---	---	PASS	T	49689524	T	T	49689524	2	4	51	1	0	0	0	0	0	0	0	1	1530	1190	42	3		3	BSN	3	49689524	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	5077826	49689524	148332906	60	19226										
NISCH	11188	broad.mit.edu	37	chr3	52521868	52521868	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggtgctcaaggtacggcacaGtgagaacacgctcttcatta	11	10	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:52521868G>T	uc011beg.1	+	17	2432	c.2360G>T	c.(2359-2361)AGT>ATT	p.S787I	NISCH_uc003ded.3_Missense_Mutation_p.S787I|NISCH_uc003dee.3_Missense_Mutation_p.S276I|NISCH_uc003deg.1_RNA	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	787	Interaction with LIMK (By similarity).|Interaction with ITGA5 (By similarity).|Interaction with PAK1 (By similarity).				apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		GTACGGCACAGTGAGAACACG	0.592													6	15	---	---	---	---	PASS	T	52521868	T	T	52521868	3	4	51	1	0	0	0	0	1	0	0	0	10432	1029	36	3	2422	3	NISCH	3	52521868	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	2832344	52521868	145500562	61	19227										
STAB1	23166	broad.mit.edu	37	chr3	52538511	52538511	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gaaatccttaccacagcgggCcctttcaccgtgctggtgcc	10	15	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:52538511C>G	uc003dej.2	+	11	1259	c.1185C>G	c.(1183-1185)GGC>GGG	p.G395G	STAB1_uc003dei.1_Silent_p.G395G	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	395	Extracellular (Potential).|FAS1 1.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CCACAGCGGGCCCTTTCACCG	0.622													8	36	---	---	---	---	PASS	G	52538511	G	G	52538511	2	3	51	1	0	0	0	0	0	0	0	1	15236	726	26	4		4	STAB1	3	52538511	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	16643	52538511	145483919	62	19228										
OR5K1	26339	broad.mit.edu	37	chr3	98188464	98188464	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gaaaaatgagtttatcctcaCaggatttacagatcaccctg	7	9	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:98188464C>A	uc003dsm.2	+	1	44	c.44C>A	c.(43-45)ACA>AAA	p.T15K		NM_001004736	NP_001004736	Q8NHB7	OR5K1_HUMAN	olfactory receptor, family 5, subfamily K,	15	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)	1						TTTATCCTCACAGGATTTACA	0.403													22	164	---	---	---	---	PASS	A	98188464	A	A	98188464	3	1	51	1	0	0	0	0	1	0	0	0	11166	478	17	3	46	3	OR5K1	3	98188464	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	45649953	98188464	99833966	63	19229										
CEP97	79598	broad.mit.edu	37	chr3	101474392	101474392	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcacttctacactaggtcttCaaactgcagaggatgccaaa	7	11	4	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:101474392C>G	uc003dvk.1	+	7	874	c.847C>G	c.(847-849)CAA>GAA	p.Q283E	CEP97_uc010hpm.1_Missense_Mutation_p.Q249E|CEP97_uc011bhf.1_Missense_Mutation_p.Q283E|CEP97_uc003dvl.1_5'UTR|CEP97_uc003dvm.1_Missense_Mutation_p.Q121E	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	283						centrosome|nucleus	protein binding			ovary(2)	2						ACTAGGTCTTCAAACTGCAGA	0.448													15	59	---	---	---	---	PASS	G	101474392	G	G	101474392	3	3	51	1	0	0	0	0	1	0	0	0	3263	827	29	2	873	2	CEP97	3	101474392	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	3285928	101474392	96548038	64	19230										
FAM55C	91775	broad.mit.edu	37	chr3	101535662	101535662	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctaacagtctagaactatctCaaggctcaggaacttttcct	6	11	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:101535662C>T	uc003dvn.2	+	7	1583	c.946C>T	c.(946-948)CAA>TAA	p.Q316*	FAM55C_uc010hpn.2_Nonsense_Mutation_p.Q316*	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	316						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						AGAACTATCTCAAGGCTCAGG	0.343													20	91	---	---	---	---	PASS	T	101535662	T	T	101535662	4	4	51	1	0	0	0	0	0	1	0	0	5586	827	29	2	960	2	FAM55C	3	101535662	Nonsense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	61270	101535662	96486768	65	19231										
ZBTB20	26137	broad.mit.edu	37	chr3	114070156	114070156	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gctgtaaaaagagcgctcgcCgctgccattctgcatggagc	12	12	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:114070156C>T	uc003ebi.2	-	4	949	c.769G>A	c.(769-771)GGC>AGC	p.G257S	ZBTB20_uc003ebj.2_Missense_Mutation_p.G184S|ZBTB20_uc010hqp.2_Missense_Mutation_p.G184S|ZBTB20_uc003ebk.2_Missense_Mutation_p.G184S|ZBTB20_uc003ebl.2_Missense_Mutation_p.G184S|ZBTB20_uc003ebm.2_Missense_Mutation_p.G184S|ZBTB20_uc003ebn.2_Missense_Mutation_p.G184S|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	257					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GAGCGCTCGCCGCTGCCATTC	0.647													10	73	---	---	---	---	PASS	T	114070156	T	T	114070156	3	4	51	1	0	0	0	0	1	0	0	0	17526	652	23	1	1464	1	ZBTB20	3	114070156	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	12534494	114070156	83952274	66	19232										
TFDP2	7029	broad.mit.edu	37	chr3	141678557	141678557	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cctttggcaccagggatttcGcaagtttcagatcctccaga	9	12	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:141678557G>A	uc003eun.3	-	11	1389	c.1010C>T	c.(1009-1011)GCG>GTG	p.A337V	TFDP2_uc003euk.3_Missense_Mutation_p.A250V|TFDP2_uc010hur.2_Missense_Mutation_p.A277V|TFDP2_uc003eul.3_Missense_Mutation_p.A277V|TFDP2_uc011bnf.1_Missense_Mutation_p.A240V|TFDP2_uc011bng.1_Missense_Mutation_p.A201V|TFDP2_uc003eum.3_Missense_Mutation_p.A277V	NM_006286	NP_006277	Q14188	TFDP2_HUMAN	transcription factor Dp-2 (E2F dimerization	337					cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1						CAGGGATTTCGCAAGTTTCAG	0.423													34	172	---	---	---	---	PASS	A	141678557	A	A	141678557	3	1	51	1	0	0	0	0	1	0	0	0	15795	1087	38	1	342	1	TFDP2	3	141678557	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	27608401	141678557	56343873	67	19233										
EIF2A	83939	broad.mit.edu	37	chr3	150301669	150301669	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aagaaacagcccttctccagGagctggaagatttggaattg	11	8	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:150301669G>C	uc003eya.2	+	14	1745	c.1729G>C	c.(1729-1731)GAG>CAG	p.E577Q	SERP1_uc003exz.2_Intron|EIF2A_uc003eyb.2_Missense_Mutation_p.E450Q|EIF2A_uc003eyc.2_Missense_Mutation_p.E450Q|EIF2A_uc011bnv.1_Missense_Mutation_p.E552Q|EIF2A_uc011bnw.1_Missense_Mutation_p.E516Q|EIF2A_uc003eyd.2_Missense_Mutation_p.E352Q|uc003eye.1_Intron	NM_032025	NP_114414	Q9BY44	EIF2A_HUMAN	eukaryotic translation initiation factor 2A	577	Potential.				regulation of translation|ribosome assembly	eukaryotic translation initiation factor 2 complex	ribosome binding|translation initiation factor activity|tRNA binding				0		Melanoma(1037;0.0575)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CCTTCTCCAGGAGCTGGAAGA	0.338													5	74	---	---	---	---	PASS	C	150301669	C	C	150301669	3	2	51	1	0	0	0	0	1	0	0	0	4995	1175	41	2	1783	2	EIF2A	3	150301669	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	8623112	150301669	47720761	68	19234										
WDR49	151790	broad.mit.edu	37	chr3	167223158	167223158	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttctttcatgcaggtacttcTttccttatattttatatcta	3	8	4	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:167223158T>C	uc003fev.1	-	13	2071	c.1765A>G	c.(1765-1767)AGA>GGA	p.R589G	WDR49_uc003feu.1_Missense_Mutation_p.R414G|WDR49_uc011bpd.1_Missense_Mutation_p.R554G|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	589										large_intestine(1)|ovary(1)|skin(1)	3						CAGGTACTTCTTTCCTTATAT	0.269													5	65	---	---	---	---	PASS	C	167223158	C	C	167223158	3	2	51	1	0	0	0	0	1	0	0	0	17299	1617	56	5	340	5	WDR49	3	167223158	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	16921489	167223158	30799272	69	19235										
PIK3CA	5290	broad.mit.edu	37	chr3	178916806	178916806	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tccatcaacttcttcaagatGaatcttcttacattttcgta	3	10	5	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:178916806G>A	uc003fjk.2	+	2	350	c.193G>A	c.(193-195)GAA>AAA	p.E65K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	65	PI3K-ABD.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCTTCAAGATGAATCTTCTTA	0.368		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			15	137	---	---	---	---	PASS	A	178916806	A	A	178916806	3	1	51	1	0	0	0	0	1	0	0	0	11913	1291	45	2	195	2	PIK3CA	3	178916806	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	11693648	178916806	19105624	70	19236										
PEX5L	51555	broad.mit.edu	37	chr3	179576902	179576902	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cttctaaggagtggtttctaGaaagtaatgcgcttccccag	10	9	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:179576902G>T	uc003fki.1	-	8	900	c.770C>A	c.(769-771)TCT>TAT	p.S257Y	PEX5L_uc011bqd.1_Missense_Mutation_p.S214Y|PEX5L_uc011bqe.1_Missense_Mutation_p.S65Y|PEX5L_uc011bqf.1_Missense_Mutation_p.S149Y|PEX5L_uc003fkj.1_Missense_Mutation_p.S222Y|PEX5L_uc010hxd.1_Missense_Mutation_p.S255Y|PEX5L_uc011bqg.1_Missense_Mutation_p.S233Y|PEX5L_uc011bqh.1_Missense_Mutation_p.S198Y	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	257					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			GTGGTTTCTAGAAAGTAATGC	0.373													12	70	---	---	---	---	PASS	T	179576902	T	T	179576902	3	4	51	1	0	0	0	0	1	0	0	0	11749	942	33	2	1142	2	PEX5L	3	179576902	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	660096	179576902	18445528	71	19237										
B3GNT5	84002	broad.mit.edu	37	chr3	182988594	182988594	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caggacctttggaagaatgcTacagatcctaaagtaaaaac	8	8	0	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr3:182988594T>C	uc003flk.2	+	2	1538	c.1008T>C	c.(1006-1008)GCT>GCC	p.A336A	MCF2L2_uc003fli.1_Intron|MCF2L2_uc003flj.1_Intron|MCF2L2_uc011bqr.1_Intron|B3GNT5_uc003fll.2_Silent_p.A336A|B3GNT5_uc003flm.2_Silent_p.A336A	NM_032047	NP_114436	Q9BYG0	B3GN5_HUMAN	UDP-GlcNAc:betaGal	336	Lumenal (Potential).				central nervous system development|glycolipid biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	beta-galactosyl-N-acetylglucosaminylgalactosylglucosyl-ceramide beta-1,3-acetylglucosaminyltransferase activity|galactosyltransferase activity			ovary(1)	1	all_cancers(143;8.52e-13)|Ovarian(172;0.0355)		all cancers(12;4.52e-44)|Epithelial(37;8.82e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			GGAAGAATGCTACAGATCCTA	0.353													46	42	---	---	---	---	PASS	C	182988594	C	C	182988594	2	2	51	1	0	0	0	0	0	0	0	1	1260	1509	53	5		5	B3GNT5	3	182988594	Silent	SNP	T	TCGA-22-5489-01A-01D-1632-08	3411692	182988594	15033836	72	19238										
TMEM175	84286	broad.mit.edu	37	chr4	951970	951970	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggaccacggcgctgctgcacCaggcggagacgctgcagccc	15	16	0	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr4:951970C>G	uc003gbq.2	+	11	1299	c.1201C>G	c.(1201-1203)CAG>GAG	p.Q401E	TMEM175_uc003gbr.2_Missense_Mutation_p.Q319E|TMEM175_uc003gbu.2_Missense_Mutation_p.Q319E|TMEM175_uc003gbs.2_Missense_Mutation_p.Q284E|TMEM175_uc003gbt.2_Missense_Mutation_p.Q284E|TMEM175_uc003gbv.2_Missense_Mutation_p.Q284E|TMEM175_uc010ibm.2_Missense_Mutation_p.Q217E	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	401						integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GCTGCTGCACCAGGCGGAGAC	0.667													11	19	---	---	---	---	PASS	G	951970	G	G	951970	3	3	51	1	0	0	0	0	1	0	0	0	16088	595	21	4	1239	4	TMEM175	4	951970	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08		951970	190202306	73	19239										
AFAP1	60312	broad.mit.edu	37	chr4	7820899	7820899	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctgtaggcttctttgatcacCtataaaaagcacagacactt	6	10	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr4:7820899C>T	uc003gkg.1	-	7	1000	c.727_splice	c.e7-1	p.V243_splice	AFAP1_uc011bwk.1_Splice_Site_p.V243_splice	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1							actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						CTTTGATCACCTATAAAAAGC	0.502													10	16	---	---	---	---	PASS	T	7820899	T	T	7820899	5	4	51	1	0	0	0	0	0	0	1	0	353	695	24	3	1766	3	AFAP1	4	7820899	Splice_Site	SNP	C	TCGA-22-5489-01A-01D-1632-08	6868929	7820899	183333377	74	19240										
RFC1	5981	broad.mit.edu	37	chr4	39322122	39322122	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttctttataagagctctcttCttttcttttcataattgcca	3	9	5	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr4:39322122C>G	uc003gty.1	-	9	1110	c.976G>C	c.(976-978)GAA>CAA	p.E326Q	RFC1_uc003gtx.1_Missense_Mutation_p.E326Q|RFC1_uc003gtz.1_Missense_Mutation_p.E210Q	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit	326				E -> K (in Ref. 1; AAA16121).	DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4						GAGCTCTCTTCTTTTCTTTTC	0.368													13	30	---	---	---	---	PASS	G	39322122	G	G	39322122	3	3	51	1	0	0	0	0	1	0	0	0	13244	922	32	2	2535	2	RFC1	4	39322122	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	31501223	39322122	151832154	75	19241										
C4orf35	85438	broad.mit.edu	37	chr4	71201337	71201337	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tatgagcaattataattcctCcatcaaatccaatgtccctg	4	11	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr4:71201337C>T	uc003hff.2	+	1	667	c.581C>T	c.(580-582)TCC>TTC	p.S194F		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	194						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				TATAATTCCTCCATCAAATCC	0.478													9	31	---	---	---	---	PASS	T	71201337	T	T	71201337	3	4	51	1	0	0	0	0	1	0	0	0	2265	855	30	2	583	2	C4orf35	4	71201337	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	31879215	71201337	119952939	76	19242										
GK2	2712	broad.mit.edu	37	chr4	80329328	80329328	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	accgctcccaccaacggcccCacagctgctgtctttggggc	10	18	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr4:80329328C>A	uc003hlu.2	-	1	45	c.27G>T	c.(25-27)GTG>GTT	p.V9V		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	9					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						CCAACGGCCCCACAGCTGCTG	0.587													12	30	---	---	---	---	PASS	A	80329328	A	A	80329328	2	1	51	1	0	0	0	0	0	0	0	1	6421	581	21	3		3	GK2	4	80329328	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	9127991	80329328	110824948	77	19243										
EGF	1950	broad.mit.edu	37	chr4	110865192	110865192	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttgctcctgtgattatgatgGaggttctgtccacattagta	10	7	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr4:110865192G>A	uc003hzy.3	+	4	1156	c.704G>A	c.(703-705)GGA>GAA	p.G235E	EGF_uc011cfu.1_Missense_Mutation_p.G235E|EGF_uc011cfv.1_Missense_Mutation_p.G235E	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	235	LDL-receptor class B 4.|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	GATTATGATGGAGGTTCTGTC	0.343													12	33	---	---	---	---	PASS	A	110865192	A	A	110865192	3	1	51	1	0	0	0	0	1	0	0	0	4962	1174	41	2	718	2	EGF	4	110865192	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	30535864	110865192	80289084	78	19244										
SCLT1	132320	broad.mit.edu	37	chr4	129867242	129867242	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tttgaacgctctgaaaccagGaatctttggtgcatttcttc	8	9	3	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr4:129867242G>A	uc003igp.2	-	16	1865	c.1359C>T	c.(1357-1359)TTC>TTT	p.F453F	SCLT1_uc003ign.2_Silent_p.F117F|SCLT1_uc003igo.2_Silent_p.F63F|SCLT1_uc003igq.2_Intron|SCLT1_uc010iob.1_Intron	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	453	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						CTGAAACCAGGAATCTTTGGT	0.348													9	35	---	---	---	---	PASS	A	129867242	A	A	129867242	2	1	51	1	0	0	0	0	0	0	0	1	13906	1165	41	2		2	SCLT1	4	129867242	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	19002050	129867242	61287034	79	19245										
GALNTL6	442117	broad.mit.edu	37	chr4	173734859	173734859	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agagctccagagggcagatcCcagcgacccttttgagtgag	13	11	0	5			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr4:173734859C>A	uc003isv.2	+	7	1644	c.908C>A	c.(907-909)CCC>CAC	p.P303H		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	303	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						AGGGCAGATCCCAGCGACCCT	0.552													5	19	---	---	---	---	PASS	A	173734859	A	A	173734859	3	1	51	1	0	0	0	0	1	0	0	0	6225	623	22	3	930	3	GALNTL6	4	173734859	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	43867617	173734859	17419417	80	19246										
GLRA3	8001	broad.mit.edu	37	chr4	175565117	175565117	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tttggcattacctggacaggGtggttggggccctttggagt	16	7	0	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr4:175565117G>A	uc003ity.1	-	10	1718	c.1215C>T	c.(1213-1215)CAC>CAT	p.H405H	GLRA3_uc003itz.1_Silent_p.H390H	NM_006529	NP_006520	O75311	GLRA3_HUMAN	glycine receptor, alpha 3 isoform a	405	Cytoplasmic (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(3)	3		Prostate(90;0.00601)|Breast(14;0.0091)|Melanoma(52;0.00959)|Renal(120;0.0183)|all_neural(102;0.0891)|all_hematologic(60;0.107)		all cancers(43;4.99e-18)|Epithelial(43;1.18e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.88e-09)|STAD - Stomach adenocarcinoma(60;0.00442)|GBM - Glioblastoma multiforme(59;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0421)	Glycine(DB00145)	CCTGGACAGGGTGGTTGGGGC	0.502													27	52	---	---	---	---	PASS	A	175565117	A	A	175565117	2	1	51	1	0	0	0	0	0	0	0	1	6456	1252	44	3		3	GLRA3	4	175565117	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	1830258	175565117	15589159	81	19247										
CDH6	1004	broad.mit.edu	37	chr5	31299680	31299680	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	atgggaggattatctgggacCaccaccgtgaacatcacact	10	11	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:31299680C>A	uc003jhe.1	+	5	1079	c.753C>A	c.(751-753)ACC>ACA	p.T251T	CDH6_uc003jhd.1_Silent_p.T251T	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	251	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						TATCTGGGACCACCACCGTGA	0.478													17	50	---	---	---	---	PASS	A	31299680	A	A	31299680	2	1	51	1	0	0	0	0	0	0	0	1	3114	581	21	3		3	CDH6	5	31299680	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08		31299680	149615580	82	19248										
HEATR7B2	133558	broad.mit.edu	37	chr5	41049468	41049468	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	taatcagaattctgatgataCtaaacaggggctccagagct	9	8	2	4			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:41049468C>A	uc003jmj.3	-	14	1905	c.1415G>T	c.(1414-1416)AGT>ATT	p.S472I	HEATR7B2_uc003jmi.3_Missense_Mutation_p.S27I	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	472							binding			ovary(6)|central_nervous_system(2)	8						TCTGATGATACTAAACAGGGG	0.483													9	27	---	---	---	---	PASS	A	41049468	A	A	41049468	3	1	51	1	0	0	0	0	1	0	0	0	7035	565	20	3	3458	3	HEATR7B2	5	41049468	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	9749788	41049468	139865792	83	19249										
HCN1	348980	broad.mit.edu	37	chr5	45695818	45695818	+	Missense_Mutation	SNP	C	A	A													0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cagaagcctgcagttttaacCctttcctgctccttttccac							TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:45695818C>A	uc003jok.2	-	1	403	c.378G>T	c.(376-378)AGG>AGT	p.R126S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	126	Involved in subunit assembly (By similarity).|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CAGTTTTAACCCTTTCCTGCT	0.587													9	21	---	---	---	---	PASS	A	45695818	A	A	45695818	3	1	51	1	0	0	0	0	1	0	0	0	6996	622	22	3	2326	3	HCN1	5	45695818	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	4646350	45695818	135219442	84	19250	433	2								
HCN1	348980	broad.mit.edu	37	chr5	45695819	45695819	+	Missense_Mutation	SNP	C	A	A													0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agaagcctgcagttttaaccCtttcctgctccttttccacc							TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:45695819C>A	uc003jok.2	-	1	402	c.377G>T	c.(376-378)AGG>ATG	p.R126M		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	126	Involved in subunit assembly (By similarity).|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						AGTTTTAACCCTTTCCTGCTC	0.582													9	22	---	---	---	---	PASS	A	45695819	A	A	45695819	3	1	51	1	0	0	0	0	1	0	0	0	6996	681	24	3	2327	3	HCN1	5	45695819	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	1	45695819	135219441	85	19251	433	2								
MAP3K1	4214	broad.mit.edu	37	chr5	56161203	56161203	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtggaacattctgtattcatCtgctatttgtgatgctccgg	10	8	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:56161203C>T	uc003jqw.3	+	5	1573	c.1072C>T	c.(1072-1074)CTG>TTG	p.L358L		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	358	SWIM-type.				cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		CTGTATTCATCTGCTATTTGT	0.343													18	69	---	---	---	---	PASS	T	56161203	T	T	56161203	2	4	51	1	0	0	0	0	0	0	0	1	9243	912	32	2		2	MAP3K1	5	56161203	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	10465384	56161203	124754057	86	19252										
F2RL1	2150	broad.mit.edu	37	chr5	76129000	76129000	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	actccaggaagaaggcaaacAttgccattggcatctccctg	9	12	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:76129000A>G	uc003keo.2	+	2	743	c.568A>G	c.(568-570)ATT>GTT	p.I190V		NM_005242	NP_005233	P55085	PAR2_HUMAN	coagulation factor II (thrombin) receptor-like 1	190	Cytoplasmic (Potential).				blood coagulation|elevation of cytosolic calcium ion concentration|positive regulation of leukocyte chemotaxis|positive regulation of positive chemotaxis|regulation of blood coagulation	Golgi apparatus|integral to plasma membrane	receptor binding|thrombin receptor activity			central_nervous_system(1)	1		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;7.7e-51)|Epithelial(54;2.77e-45)|all cancers(79;3.47e-41)		GAAGGCAAACATTGCCATTGG	0.502													29	105	---	---	---	---	PASS	G	76129000	G	G	76129000	3	3	51	1	0	0	0	0	1	0	0	0	5344	217	8	5	574	5	F2RL1	5	76129000	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	19967797	76129000	104786260	87	19253										
ANKRD34B	340120	broad.mit.edu	37	chr5	79854374	79854374	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tttcttacttttgaattcttTagggaaaatcggaactgttg	8	5	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:79854374T>A	uc010jam.2	-	4	1815	c.1465A>T	c.(1465-1467)AAA>TAA	p.K489*	ANKRD34B_uc003kgw.2_Nonsense_Mutation_p.K489*|ANKRD34B_uc010jan.2_Nonsense_Mutation_p.K489*	NM_001004441	NP_001004441	A5PLL1	AN34B_HUMAN	ankyrin repeat domain 34B	489						cytoplasm|nucleus				pancreas(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-46)|Epithelial(54;5.64e-41)|all cancers(79;3.24e-36)		TTGAATTCTTTAGGGAAAATC	0.353													23	98	---	---	---	---	PASS	A	79854374	A	A	79854374	4	1	51	1	0	0	0	0	0	1	0	0	663	1763	61	5	83	5	ANKRD34B	5	79854374	Nonsense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	3725374	79854374	101060886	88	19254										
ATP6AP1L	92270	broad.mit.edu	37	chr5	81608539	81608539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cagtctttaacccaactggcGtatatgctccctctggttac	7	13	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:81608539G>T	uc003khv.2	+	9	1566	c.241G>T	c.(241-243)GTA>TTA	p.V81L	ATP6AP1L_uc003khw.2_Missense_Mutation_p.V81L	NM_001017971	NP_001017971	Q52LC2	VAS1L_HUMAN	ATPase, H+ transporting, lysosomal accessory	81					ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						CCCAACTGGCGTATATGCTCC	0.532											OREG0016689	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	129	---	---	---	---	PASS	T	81608539	T	T	81608539	3	4	51	1	0	0	0	0	1	0	0	0	1166	1145	40	1	251	1	ATP6AP1L	5	81608539	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	1754165	81608539	99306721	89	19255										
FBN2	2201	broad.mit.edu	37	chr5	127729062	127729062	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gcaaagtctgcgatattcctCtagaagaaaagaaagttggc	10	7	2	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:127729062C>A	uc003kuu.2	-	10	1671	c.1232_splice	c.e10-1	p.E411_splice	FBN2_uc003kuv.2_Splice_Site_p.E378_splice	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor						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)		CGATATTCCTCTAGAAGAAAA	0.463													4	41	---	---	---	---	PASS	A	127729062	A	A	127729062	5	1	51	1	0	0	0	0	0	0	1	0	5703	927	32	2	7731	2	FBN2	5	127729062	Splice_Site	SNP	C	TCGA-22-5489-01A-01D-1632-08	46120523	127729062	53186198	90	19256										
PKD2L2	27039	broad.mit.edu	37	chr5	137257368	137257368	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttggagattttaattttgctGgtattcagcaagccaatcct	8	7	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:137257368G>A	uc003lby.2	+	9	1428	c.1372G>A	c.(1372-1374)GGT>AGT	p.G458S	PKD2L2_uc003lbw.1_Missense_Mutation_p.G458S|PKD2L2_uc003lbx.2_Intron|PKD2L2_uc011cyi.1_Missense_Mutation_p.G66S	NM_014386	NP_055201	Q9NZM6	PK2L2_HUMAN	polycystic kidney disease 2-like 2	458	Extracellular (Potential).					integral to membrane	calcium ion binding|ion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TAATTTTGCTGGTATTCAGCA	0.318													11	53	---	---	---	---	PASS	A	137257368	A	A	137257368	3	1	51	1	0	0	0	0	1	0	0	0	11968	1348	47	3	1406	3	PKD2L2	5	137257368	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	9528306	137257368	43657892	91	19257										
PCDHB7	56129	broad.mit.edu	37	chr5	140554381	140554381	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gagcctccgcgctcggccacCgccacgctgcacgtgctcct	11	20	0	0	rs17844474		TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:140554381C>T	uc003lit.2	+	1	2139	c.1965C>T	c.(1963-1965)ACC>ACT	p.T655T		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	655	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTCGGCCACCGCCACGCTGC	0.711													18	83	---	---	---	---	PASS	T	140554381	T	T	140554381	2	4	51	1	0	0	0	0	0	0	0	1	11547	639	23	1		1	PCDHB7	5	140554381	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	3297013	140554381	40360879	92	19258										
PCDHB10	56126	broad.mit.edu	37	chr5	140572222	140572222	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caggttctgggtttggacgtTattcggtgactgaggaaaca	14	6	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:140572222T>A	uc003lix.2	+	1	271	c.97T>A	c.(97-99)TAT>AAT	p.Y33N		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	33	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTTTGGACGTTATTCGGTGAC	0.507													29	74	---	---	---	---	PASS	A	140572222	A	A	140572222	3	1	51	1	0	0	0	0	1	0	0	0	11535	1754	61	5	99	5	PCDHB10	5	140572222	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	17841	140572222	40343038	93	19259										
SPINK7	84651	broad.mit.edu	37	chr5	147693698	147693698	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tacaagaagtatccagtggtGgccatcccctgccccatcac	8	15	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:147693698G>A	uc003lpd.2	+	3	180	c.123G>A	c.(121-123)GTG>GTA	p.V41V	uc003lpb.1_Intron	NM_032566	NP_115955	P58062	ISK7_HUMAN	serine peptidase inhibitor, Kazal type 7	41	Kazal-like.					extracellular region	protein binding|serine-type endopeptidase inhibitor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCCAGTGGTGGCCATCCCCT	0.473													22	124	---	---	---	---	PASS	A	147693698	A	A	147693698	2	1	51	1	0	0	0	0	0	0	0	1	15063	1335	47	3		3	SPINK7	5	147693698	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	7121476	147693698	33221562	94	19260										
RBM22	55696	broad.mit.edu	37	chr5	150072543	150072543	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cacttgggggcaagttgaagTagttggcagaggcttcttct	14	7	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:150072543T>A	uc003lst.2	-	10	1168	c.1046A>T	c.(1045-1047)TAC>TTC	p.Y349F		NM_018047	NP_060517	Q9NW64	RBM22_HUMAN	RNA binding motif protein 22	349	Pro-rich.				protein import into nucleus, translocation	catalytic step 2 spliceosome|cytoplasm	calcium-dependent protein binding|nucleotide binding|RNA binding|zinc ion binding				0		Medulloblastoma(196;0.167)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CAAGTTGAAGTAGTTGGCAGA	0.547													12	39	---	---	---	---	PASS	A	150072543	A	A	150072543	3	1	51	1	0	0	0	0	1	0	0	0	13122	1638	57	5	224	5	RBM22	5	150072543	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	2378845	150072543	30842717	95	19261										
GABRB2	2561	broad.mit.edu	37	chr5	160886795	160886795	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agtttaaaggtattacattaTaggacagcctcttatctctc	6	8	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr5:160886795T>C	uc003lys.1	-	5	511	c.293A>G	c.(292-294)TAT>TGT	p.Y98C	GABRB2_uc011deh.1_Intron|GABRB2_uc003lyr.1_Missense_Mutation_p.Y98C|GABRB2_uc003lyt.1_Missense_Mutation_p.Y98C|GABRB2_uc010jiu.1_Missense_Mutation_p.Y35C|GABRB2_uc011dei.1_Missense_Mutation_p.Y98C	NM_021911	NP_068711	P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	98	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|GABA-A receptor activity				0	Renal(175;0.00259)	Medulloblastoma(196;0.021)|all_neural(177;0.0463)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TATTACATTATAGGACAGCCT	0.403													13	39	---	---	---	---	PASS	C	160886795	C	C	160886795	3	2	51	1	0	0	0	0	1	0	0	0	6167	1406	49	5	1273	5	GABRB2	5	160886795	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	10814252	160886795	20028465	96	19262										
HIST1H3F	8968	broad.mit.edu	37	chr6	26250687	26250687	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgatagcggcggatttcacgGagggcgacagtaccaggcct	15	10	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr6:26250687G>A	uc003nhg.1	-	1	149	c.147C>T	c.(145-147)CTC>CTT	p.L49L	HIST1H2BH_uc003nhh.2_5'Flank	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	49					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0						GGATTTCACGGAGGGCGACAG	0.617													14	96	---	---	---	---	PASS	A	26250687	A	A	26250687	2	1	51	1	0	0	0	0	0	0	0	1	7160	1161	41	2		2	HIST1H3F	6	26250687	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08		26250687	144864380	97	19263										
OR2H1	26716	broad.mit.edu	37	chr6	29430068	29430068	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ccccaccagcagatagatgaCtttttatgtgaggtcccatc	8	12	0	4			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr6:29430068C>G	uc003nmi.2	+	3	965	c.522C>G	c.(520-522)GAC>GAG	p.D174E	OR2H1_uc003nmj.1_Missense_Mutation_p.D174E|OR2H1_uc010jri.1_Missense_Mutation_p.D96E	NM_030883	NP_112145	Q9GZK4	OR2H1_HUMAN	olfactory receptor, family 2, subfamily H,	174	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGATAGATGACTTTTTATGTG	0.507													75	107	---	---	---	---	PASS	G	29430068	G	G	29430068	3	3	51	1	0	0	0	0	1	0	0	0	11001	564	20	4	524	4	OR2H1	6	29430068	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	3179381	29430068	141684999	98	19264										
ANKS1A	23294	broad.mit.edu	37	chr6	34985396	34985396	+	Missense_Mutation	SNP	G	C	C													0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tccagctgctctgtaccgctGgccagagccatccagacggg							TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr6:34985396G>C	uc003ojx.3	+	11	1712	c.1570G>C	c.(1570-1572)GGC>CGC	p.G524R	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Missense_Mutation_p.G64R|ANKS1A_uc010jvp.1_Intron	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	524						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						CTGTACCGCTGGCCAGAGCCA	0.692													11	14	---	---	---	---	PASS	C	34985396	C	C	34985396	3	2	51	1	0	0	0	0	1	0	0	0	688	1348	47	4	1612	4	ANKS1A	6	34985396	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	5555328	34985396	136129671	99	19265	434	2								
ANKS1A	23294	broad.mit.edu	37	chr6	34985397	34985397	+	Missense_Mutation	SNP	G	T	T													0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ccagctgctctgtaccgctgGccagagccatccagacgggt							TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr6:34985397G>T	uc003ojx.3	+	11	1713	c.1571G>T	c.(1570-1572)GGC>GTC	p.G524V	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Missense_Mutation_p.G64V|ANKS1A_uc010jvp.1_Intron	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	524						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						TGTACCGCTGGCCAGAGCCAT	0.692													12	13	---	---	---	---	PASS	T	34985397	T	T	34985397	3	4	51	1	0	0	0	0	1	0	0	0	688	1203	42	3	1613	3	ANKS1A	6	34985397	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	1	34985397	136129670	100	19266	434	2								
EYS	346007	broad.mit.edu	37	chr6	66204709	66204709	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tggaggctggcaatggcagcTatatgtcttgctccaagctt	12	9	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr6:66204709T>C	uc011dxu.1	-	4	1133	c.595A>G	c.(595-597)AGC>GGC	p.S199G	EYS_uc003peq.2_Missense_Mutation_p.S199G|EYS_uc003per.1_Missense_Mutation_p.S199G|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	199	EGF-like 1.				response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						CAATGGCAGCTATATGTCTTG	0.393													15	36	---	---	---	---	PASS	C	66204709	C	C	66204709	3	2	51	1	0	0	0	0	1	0	0	0	5332	1522	53	5	8961	5	EYS	6	66204709	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	31219312	66204709	104910358	101	19267										
IMPG1	3617	broad.mit.edu	37	chr6	76744486	76744486	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gaaagatccgatatgcttccCatactgcttcctgacacact	6	13	0	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr6:76744486C>A	uc003pik.1	-	3	450	c.320G>T	c.(319-321)TGG>TTG	p.W107L		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	107					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				ATATGCTTCCCATACTGCTTC	0.483													11	28	---	---	---	---	PASS	A	76744486	A	A	76744486	3	1	51	1	0	0	0	0	1	0	0	0	7728	595	21	3	2133	3	IMPG1	6	76744486	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	10539777	76744486	94370581	102	19268										
NT5E	4907	broad.mit.edu	37	chr6	86194989	86194989	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agaggtgcctgctgggaagtAcccattcatagtcacttctg	11	10	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr6:86194989A>T	uc003pko.3	+	4	1344	c.788A>T	c.(787-789)TAC>TTC	p.Y263F	NT5E_uc010kbr.2_Missense_Mutation_p.Y263F	NM_002526	NP_002517	P21589	5NTD_HUMAN	5' nucleotidase, ecto precursor	263					DNA metabolic process|purine base metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	5'-nucleotidase activity|nucleotide binding			ovary(3)|central_nervous_system(1)	4		all_cancers(76;0.000215)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0427)		BRCA - Breast invasive adenocarcinoma(108;0.0417)	Pentoxifylline(DB00806)	GCTGGGAAGTACCCATTCATA	0.483													10	47	---	---	---	---	PASS	T	86194989	T	T	86194989	3	4	51	1	0	0	0	0	1	0	0	0	10693	391	14	5	802	5	NT5E	6	86194989	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	9450503	86194989	84920078	103	19269										
MACC1	346389	broad.mit.edu	37	chr7	20198665	20198665	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttacttcaaaatcaggatcaCaggaaaaaatagaaatactt	5	6	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr7:20198665C>A	uc003sus.3	-	5	1628	c.1319G>T	c.(1318-1320)TGT>TTT	p.C440F	MACC1_uc010kug.2_Missense_Mutation_p.C440F	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	440					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						ATCAGGATCACAGGAAAAAAT	0.348													7	42	---	---	---	---	PASS	A	20198665	A	A	20198665	3	1	51	1	0	0	0	0	1	0	0	0	9143	478	17	3	1251	3	MACC1	7	20198665	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08		20198665	138939998	104	19270										
H2AFV	94239	broad.mit.edu	37	chr7	44880514	44880514	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aaacctctgcagtgaggtacTccagaatcgcagcactgtac	9	12	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr7:44880514T>C	uc003tma.2	-	3	334	c.179A>G	c.(178-180)GAG>GGG	p.E60G	H2AFV_uc003tlz.2_Missense_Mutation_p.E60G|H2AFV_uc003tmb.2_Intron|H2AFV_uc003tmc.2_Missense_Mutation_p.E60G|H2AFV_uc003tmd.2_Missense_Mutation_p.E34G	NM_012412	NP_036544	Q71UI9	H2AV_HUMAN	H2A histone family, member V isoform 1	60					nucleosome assembly	nucleosome|nucleus	DNA binding				0						AGTGAGGTACTCCAGAATCGC	0.502													3	18	---	---	---	---	PASS	C	44880514	C	C	44880514	3	2	51	1	0	0	0	0	1	0	0	0	6927	1551	54	5	243	5	H2AFV	7	44880514	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	24681849	44880514	114258149	105	19271										
C7orf57	136288	broad.mit.edu	37	chr7	48086089	48086089	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctccatgccggattacatggTtcatgaagaatttaaccccg	8	11	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr7:48086089T>A	uc003toh.3	+	5	595	c.383T>A	c.(382-384)GTT>GAT	p.V128D	C7orf57_uc003toi.3_Missense_Mutation_p.V2D	NM_001100159	NP_001093629	Q8NEG2	CG057_HUMAN	hypothetical protein LOC136288	128										ovary(1)	1						GATTACATGGTTCATGAAGAA	0.517													8	13	---	---	---	---	PASS	A	48086089	A	A	48086089	3	1	51	1	0	0	0	0	1	0	0	0	2404	1725	60	5	397	5	C7orf57	7	48086089	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	3205575	48086089	111052574	106	19272										
ZNF479	90827	broad.mit.edu	37	chr7	57187608	57187608	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tatgtttagcaagacttgaaTgccacttaaaagcttgctca	7	8	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr7:57187608T>C	uc010kzo.2	-	5	1785	c.1514A>G	c.(1513-1515)CAT>CGT	p.H505R		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	505	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			AAGACTTGAATGCCACTTAAA	0.368													3	60	---	---	---	---	PASS	C	57187608	C	C	57187608	3	2	51	1	0	0	0	0	1	0	0	0	17930	1464	51	5	64	5	ZNF479	7	57187608	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	9101519	57187608	101951055	107	19273										
CLDN12	9069	broad.mit.edu	37	chr7	90042534	90042534	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgtatgtcactattgctagtGctgggggcctgtttatgact	12	7	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr7:90042534G>T	uc003ukp.2	+	5	1180	c.544G>T	c.(544-546)GCT>TCT	p.A182S	CLDN12_uc003ukq.2_Missense_Mutation_p.A182S|CLDN12_uc010leq.2_Missense_Mutation_p.A182S|CLDN12_uc003ukr.2_Missense_Mutation_p.A182S|CLDN12_uc003uks.2_Missense_Mutation_p.A182S	NM_012129	NP_036261	P56749	CLD12_HUMAN	claudin 12	182	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						TATTGCTAGTGCTGGGGGCCT	0.413													52	147	---	---	---	---	PASS	T	90042534	T	T	90042534	3	4	51	1	0	0	0	0	1	0	0	0	3474	1319	46	3	546	3	CLDN12	7	90042534	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	32854926	90042534	69096129	108	19274										
TAC1	6863	broad.mit.edu	37	chr7	97361961	97361961	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ccttggcagtcttttttcttGtctccactcagctgtttgca	7	12	4	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr7:97361961G>C	uc003uop.3	+	2	283	c.37G>C	c.(37-39)GTC>CTC	p.V13L	TAC1_uc003uoq.3_Missense_Mutation_p.V13L|TAC1_uc003uor.3_Missense_Mutation_p.V13L|TAC1_uc003uos.3_Missense_Mutation_p.V13L	NM_003182	NP_003173	P20366	TKN1_HUMAN	tachykinin 1 isoform beta precursor	13					detection of abiotic stimulus|elevation of cytosolic calcium ion concentration|insemination|neuropeptide signaling pathway|synaptic transmission|tachykinin receptor signaling pathway	extracellular space					0	all_cancers(62;3.95e-09)|all_epithelial(64;1.1e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0358)|all_lung(186;0.0384)				Bacitracin(DB00626)	CTTTTTTCTTGTCTCCACTCA	0.468													17	104	---	---	---	---	PASS	C	97361961	C	C	97361961	3	2	51	1	0	0	0	0	1	0	0	0	15495	1377	48	4	39	4	TAC1	7	97361961	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	7319427	97361961	61776702	109	19275										
SLC26A3	1811	broad.mit.edu	37	chr7	107434225	107434225	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tccctgtgctgataccagaaAcaatatcactgagcaaccat	6	12	1	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr7:107434225A>G	uc003ver.2	-	3	444	c.233T>C	c.(232-234)GTT>GCT	p.V78A	SLC26A3_uc003ves.2_Missense_Mutation_p.V43A	NM_000111	NP_000102	P40879	S26A3_HUMAN	solute carrier family 26, member 3	78	Helical; (Potential).				excretion	integral to membrane|membrane fraction	inorganic anion exchanger activity|secondary active sulfate transmembrane transporter activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(3)|skin(1)	4						GATACCAGAAACAATATCACT	0.318													12	25	---	---	---	---	PASS	G	107434225	G	G	107434225	3	3	51	1	0	0	0	0	1	0	0	0	14518	43	2	5	2137	5	SLC26A3	7	107434225	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	10072264	107434225	51704438	110	19276										
CADPS2	93664	broad.mit.edu	37	chr7	122047603	122047603	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caaatgctcactgtcatttcGgaggaaattattaagcagtt	8	7	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr7:122047603G>A	uc010lkp.2	-	19	2900	c.2737C>T	c.(2737-2739)CGA>TGA	p.R913*	CADPS2_uc011knx.1_Nonsense_Mutation_p.R288*|CADPS2_uc003vkg.3_Nonsense_Mutation_p.R607*|CADPS2_uc010lkq.2_Nonsense_Mutation_p.R907*	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	913	Interaction with DRD2.|MHD1.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						CTGTCATTTCGGAGGAAATTA	0.438													3	19	---	---	---	---	PASS	A	122047603	A	A	122047603	4	1	51	1	0	0	0	0	0	1	0	0	2571	1124	39	1	1216	1	CADPS2	7	122047603	Nonsense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	14613378	122047603	37091060	111	19277										
LRGUK	136332	broad.mit.edu	37	chr7	133812382	133812382	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gcgagggcgaggcgggatccGaggagtcctcagagtccgaa	18	10	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr7:133812382G>C	uc003vrm.1	+	1	278	c.262G>C	c.(262-264)GAG>CAG	p.E88Q		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	88							ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						GGCGGGATCCGAGGAGTCCTC	0.617													8	29	---	---	---	---	PASS	C	133812382	C	C	133812382	3	2	51	1	0	0	0	0	1	0	0	0	8943	1059	37	2	264	2	LRGUK	7	133812382	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	11764779	133812382	25326281	112	19278										
SSPO	23145	broad.mit.edu	37	chr7	149493523	149493523	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tttcggccgcatggtgcaggCgaggtttgtcagggtgtggc	18	8	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr7:149493523C>A	uc010lpk.2	+	45	6599	c.6599C>A	c.(6598-6600)GCG>GAG	p.A2200E		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2200	F5/8 type C.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			ATGGTGCAGGCGAGGTTTGTC	0.627													3	53	---	---	---	---	PASS	A	149493523	A	A	149493523	3	1	51	1	0	0	0	0	1	0	0	0	15188	768	27	1	6769	1	SSPO	7	149493523	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	15681141	149493523	9645140	113	19279										
XPO7	23039	broad.mit.edu	37	chr8	21844713	21844713	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aggcgggtaatgagaagctaGagttggccatgctgagcttt	15	6	0	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr8:21844713G>A	uc003xaa.3	+	14	1741	c.1639G>A	c.(1639-1641)GAG>AAG	p.E547K	XPO7_uc010lti.2_Missense_Mutation_p.E556K|XPO7_uc010ltk.2_Missense_Mutation_p.E548K	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	547					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		TGAGAAGCTAGAGTTGGCCAT	0.493													86	83	---	---	---	---	PASS	A	21844713	A	A	21844713	3	1	51	1	0	0	0	0	1	0	0	0	17446	943	33	2	1745	2	XPO7	8	21844713	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08		21844713	124519309	114	19280										
ASH2L	9070	broad.mit.edu	37	chr8	37963921	37963921	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caaacttggtcgatgtaagcGgtggcttggagacagaatca	13	7	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr8:37963921G>A	uc003xkt.3	+	2	272	c.214G>A	c.(214-216)GGT>AGT	p.G72S	ASH2L_uc011lbk.1_5'UTR|ASH2L_uc003xku.3_5'UTR|ASH2L_uc010lwa.2_5'UTR	NM_004674	NP_004665	Q9UBL3	ASH2L_HUMAN	ash2-like isoform a	72					hemopoiesis|histone H3-K4 methylation|positive regulation of cell proliferation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription from RNA polymerase II promoter	Set1C/COMPASS complex	metal ion binding|protein binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2	Colorectal(12;0.000501)	Lung NSC(58;0.0295)|all_lung(54;0.0413)				CGATGTAAGCGGTGGCTTGGA	0.343													3	86	---	---	---	---	PASS	A	37963921	A	A	37963921	3	1	51	1	0	0	0	0	1	0	0	0	1042	1116	39	1	220	1	ASH2L	8	37963921	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	16119208	37963921	108400101	115	19281										
PLAT	5327	broad.mit.edu	37	chr8	42044968	42044968	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gatggcgtctggcctccgccCgctgtagggcttctgggcca	15	14	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr8:42044968C>T	uc003xos.2	-	6	696	c.487G>A	c.(487-489)GGG>AGG	p.G163R	PLAT_uc010lxf.1_Missense_Mutation_p.G80R|PLAT_uc010lxg.1_Intron|PLAT_uc003xot.2_Missense_Mutation_p.G117R|PLAT_uc011lcm.1_Intron|PLAT_uc011lcn.1_Intron	NM_000930	NP_000921	P00750	TPA_HUMAN	plasminogen activator, tissue isoform 1	163	Kringle 1.				blood coagulation|fibrinolysis|negative regulation of proteolysis|protein modification process|proteolysis	cell surface|cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			breast(1)|skin(1)	2	all_cancers(6;3.84e-26)|all_epithelial(6;9.61e-28)|all_lung(13;7.2e-13)|Lung NSC(13;1.18e-11)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000378)|Lung NSC(58;0.00145)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00135)|Colorectal(10;0.00165)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)		Alteplase(DB00009)|Aminocaproic Acid(DB00513)|Anistreplase(DB00029)|Iloprost(DB01088)|Reteplase(DB00015)|Tenecteplase(DB00031)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	GGCCTCCGCCCGCTGTAGGGC	0.652													4	28	---	---	---	---	PASS	T	42044968	T	T	42044968	3	4	51	1	0	0	0	0	1	0	0	0	12021	652	23	1	1237	1	PLAT	8	42044968	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	4081047	42044968	104319054	116	19282										
PENK	5179	broad.mit.edu	37	chr8	57354094	57354094	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cccatatctcttgctcacttCttcctcattatcactgccat	2	16	5	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr8:57354094C>T	uc003xsz.2	-	2	622	c.541G>A	c.(541-543)GAA>AAA	p.E181K	PENK_uc003xta.3_Missense_Mutation_p.E181K	NM_006211	NP_006202	P01210	PENK_HUMAN	proenkephalin	181					neuropeptide signaling pathway	extracellular region	neuropeptide hormone activity|opioid peptide activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_lung(136;0.229)	Epithelial(17;0.000873)|all cancers(17;0.0069)			TTGCTCACTTCTTCCTCATTA	0.522													93	102	---	---	---	---	PASS	T	57354094	T	T	57354094	3	4	51	1	0	0	0	0	1	0	0	0	11727	922	32	2	266	2	PENK	8	57354094	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	15309126	57354094	89009928	117	19283										
VCPIP1	80124	broad.mit.edu	37	chr8	67547539	67547539	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	acacaattccagtctatcttCagaagcattatagacaaagg	6	9	3	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr8:67547539C>G	uc003xwn.2	-	3	3125	c.2866G>C	c.(2866-2868)GAA>CAA	p.E956Q		NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	956					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			AGTCTATCTTCAGAAGCATTA	0.403													52	44	---	---	---	---	PASS	G	67547539	G	G	67547539	3	3	51	1	0	0	0	0	1	0	0	0	17138	835	29	2	806	2	VCPIP1	8	67547539	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	10193445	67547539	78816483	118	19284										
RPL7	6129	broad.mit.edu	37	chr8	74203803	74203803	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctaccaagagatcgagcaatCaaagcgttatctgtcaaagc	8	10	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr8:74203803C>G	uc003xzg.2	-	5	544	c.522G>C	c.(520-522)TTG>TTC	p.L174F	RPL7_uc003xzh.1_Missense_Mutation_p.L134F	NM_000971	NP_000962	P18124	RL7_HUMAN	ribosomal protein L7	174					endocrine pancreas development|ribosomal large subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	DNA binding|mRNA binding|protein homodimerization activity|structural constituent of ribosome				0	Breast(64;0.0954)		Epithelial(68;0.0193)|all cancers(69;0.0766)|BRCA - Breast invasive adenocarcinoma(89;0.134)			ATCGAGCAATCAAAGCGTTAT	0.393													31	34	---	---	---	---	PASS	G	74203803	G	G	74203803	3	3	51	1	0	0	0	0	1	0	0	0	13599	825	29	2	232	2	RPL7	8	74203803	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	6656264	74203803	72160219	119	19285										
ZFHX4	79776	broad.mit.edu	37	chr8	77767532	77767532	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgcccctcctgctgaggctgGgtatgatcaaaataaaaccg	10	11	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr8:77767532G>T	uc003yav.2	+	10	8627	c.8240G>T	c.(8239-8241)GGG>GTG	p.G2747V	ZFHX4_uc003yau.1_Missense_Mutation_p.G2792V|ZFHX4_uc003yaw.1_Missense_Mutation_p.G2747V	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2747						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GCTGAGGCTGGGTATGATCAA	0.443										HNSCC(33;0.089)			18	23	---	---	---	---	PASS	T	77767532	T	T	77767532	3	4	51	1	0	0	0	0	1	0	0	0	17632	1232	43	3	8409	3	ZFHX4	8	77767532	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	3563729	77767532	68596490	120	19286										
PSKH2	85481	broad.mit.edu	37	chr8	87076589	87076589	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	atcccgctctgtaaaggatcCctgagcaatgagtcgatcaa	9	11	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr8:87076589C>A	uc011lfy.1	-	2	457	c.457G>T	c.(457-459)GGA>TGA	p.G153*		NM_033126	NP_149117	Q96QS6	KPSH2_HUMAN	protein serine kinase H2	153	Protein kinase.						ATP binding|protein serine/threonine kinase activity			stomach(2)|lung(2)|ovary(1)	5			STAD - Stomach adenocarcinoma(118;0.129)			GTAAAGGATCCCTGAGCAATG	0.493													4	68	---	---	---	---	PASS	A	87076589	A	A	87076589	4	1	51	1	0	0	0	0	0	1	0	0	12665	632	22	3	706	3	PSKH2	8	87076589	Nonsense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	9309057	87076589	59287433	121	19287										
INTS8	55656	broad.mit.edu	37	chr8	95850755	95850755	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agctggctattgtcaagcatGtgatgttcttgtaccttctt	9	8	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr8:95850755G>A	uc003yhb.2	+	8	1052	c.926G>A	c.(925-927)TGT>TAT	p.C309Y	INTS8_uc003yha.1_Missense_Mutation_p.C309Y|INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Missense_Mutation_p.C136Y	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	309					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					TGTCAAGCATGTGATGTTCTT	0.378													8	179	---	---	---	---	PASS	A	95850755	A	A	95850755	3	1	51	1	0	0	0	0	1	0	0	0	7784	1377	48	3	956	3	INTS8	8	95850755	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	8774166	95850755	50513267	122	19288										
FAM135B	51059	broad.mit.edu	37	chr8	139207519	139207519	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	acctgtagctctgagcacagCtgagaaagtgtttcttcaac	9	10	3	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr8:139207519C>A	uc003yuy.2	-	9	1026	c.855G>T	c.(853-855)CAG>CAT	p.Q285H	FAM135B_uc003yux.2_Missense_Mutation_p.Q186H|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	285										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)			CTGAGCACAGCTGAGAAAGTG	0.418										HNSCC(54;0.14)			38	56	---	---	---	---	PASS	A	139207519	A	A	139207519	3	1	51	1	0	0	0	0	1	0	0	0	5449	796	28	3	3413	3	FAM135B	8	139207519	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	43356764	139207519	7156503	123	19289										
MPDZ	8777	broad.mit.edu	37	chr9	13110740	13110740	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtgacaatcctatccccaacCtgcaagggagagaaagaaac	9	11	0	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr9:13110740C>A	uc010mhy.2	-	42	5689	c.5638_splice	c.e42-1	p.V1880_splice	MPDZ_uc003zkx.3_Splice_Site_p.V104_splice|MPDZ_uc003zky.3_Splice_Site_p.V443_splice|MPDZ_uc010mib.2_Splice_Site_p.V614_splice|MPDZ_uc010mhx.2_Splice_Site_p.V731_splice|MPDZ_uc011lmm.1_Splice_Site_p.V768_splice|MPDZ_uc003zkz.3_Splice_Site_p.V602_splice|MPDZ_uc010mhz.2_Splice_Site_p.V1876_splice|MPDZ_uc011lmn.1_Splice_Site_p.V1847_splice|MPDZ_uc003zlb.3_Splice_Site_p.V1880_splice	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein						interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		TATCCCCAACCTGCAAGGGAG	0.473													7	26	---	---	---	---	PASS	A	13110740	A	A	13110740	5	1	51	1	0	0	0	0	0	0	1	0	9722	695	24	3	504	3	MPDZ	9	13110740	Splice_Site	SNP	C	TCGA-22-5489-01A-01D-1632-08		13110740	128102691	124	19290										
C9orf93	203238	broad.mit.edu	37	chr9	15777610	15777610	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctttgaagatccaaattccaGaatttgtggacatttactca	6	8	1	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr9:15777610G>T	uc003zmd.2	+	19	2999	c.2684G>T	c.(2683-2685)AGA>ATA	p.R895I	C9orf93_uc003zme.2_Missense_Mutation_p.R810I|C9orf93_uc011lmu.1_Missense_Mutation_p.R903I|C9orf93_uc003zmf.1_Missense_Mutation_p.R203I	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	895											0				GBM - Glioblastoma multiforme(50;4.84e-07)		CCAAATTCCAGAATTTGTGGA	0.333													4	80	---	---	---	---	PASS	T	15777610	T	T	15777610	3	4	51	1	0	0	0	0	1	0	0	0	2506	942	33	2	2754	2	C9orf93	9	15777610	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	2666870	15777610	125435821	125	19291			1	22		3	3	120	G		5.57704e-07
C9orf93	203238	broad.mit.edu	37	chr9	15777713	15777713	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	atacctctgcacagtagcagGagtattacatatgtagaaaa	8	7	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr9:15777713G>C	uc003zmd.2	+	19	3102	c.2787G>C	c.(2785-2787)AGG>AGC	p.R929S	C9orf93_uc003zme.2_Missense_Mutation_p.R844S|C9orf93_uc011lmu.1_Missense_Mutation_p.R937S|C9orf93_uc003zmf.1_Missense_Mutation_p.R237S	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	929											0				GBM - Glioblastoma multiforme(50;4.84e-07)		ACAGTAGCAGGAGTATTACAT	0.413													11	101	---	---	---	---	PASS	C	15777713	C	C	15777713	3	2	51	1	0	0	0	0	1	0	0	0	2506	1165	41	2	2857	2	C9orf93	9	15777713	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	103	15777713	125435718	126	19292			1	22		3	3	120	G		5.57704e-07
C9orf93	203238	broad.mit.edu	37	chr9	15777729	15777729	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gcaggagtattacatatgtaGaaaaagattccctggttcag	10	6	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr9:15777729G>T	uc003zmd.2	+	19	3118	c.2803G>T	c.(2803-2805)GAA>TAA	p.E935*	C9orf93_uc003zme.2_Nonsense_Mutation_p.E850*|C9orf93_uc011lmu.1_Nonsense_Mutation_p.E943*|C9orf93_uc003zmf.1_Nonsense_Mutation_p.E243*	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	935											0				GBM - Glioblastoma multiforme(50;4.84e-07)		TACATATGTAGAAAAAGATTC	0.428													12	105	---	---	---	---	PASS	T	15777729	T	T	15777729	4	4	51	1	0	0	0	0	0	1	0	0	2506	943	33	2	2873	2	C9orf93	9	15777729	Nonsense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	16	15777729	125435702	127	19293			1	22		3	3	120	G		5.57704e-07
BNC2	54796	broad.mit.edu	37	chr9	16419556	16419556	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caaaaattcatcgcggaggtCcttgctaagggagggctgcg	14	9	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr9:16419556C>A	uc003zml.2	-	7	2871	c.2731G>T	c.(2731-2733)GAC>TAC	p.D911Y	BNC2_uc011lmw.1_Missense_Mutation_p.D816Y|BNC2_uc003zmm.2_3'UTR|BNC2_uc011lmv.1_3'UTR|BNC2_uc003zmj.2_3'UTR|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.D698Y	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	911					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		TCGCGGAGGTCCTTGCTAAGG	0.532													20	146	---	---	---	---	PASS	A	16419556	A	A	16419556	3	1	51	1	0	0	0	0	1	0	0	0	1475	855	30	2	572	2	BNC2	9	16419556	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	641827	16419556	124793875	128	19294										
TAF1L	138474	broad.mit.edu	37	chr9	32633549	32633549	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aaaaaacaactctccaccacCtgaggcttgcctctcttgtt	5	14	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr9:32633549C>G	uc003zrg.1	-	1	2119	c.2029G>C	c.(2029-2031)GGT>CGT	p.G677R	uc003zrh.1_RNA	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	677					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TCTCCACCACCTGAGGCTTGC	0.448													54	53	---	---	---	---	PASS	G	32633549	G	G	32633549	3	3	51	1	0	0	0	0	1	0	0	0	15520	681	24	4	3455	4	TAF1L	9	32633549	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	16213993	32633549	108579882	129	19295										
IL11RA	3590	broad.mit.edu	37	chr9	34659843	34659843	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcagtgcccgggactttctaGatgctggcacctggagcacc	12	13	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr9:34659843G>C	uc003zvi.2	+	9	2254	c.898G>C	c.(898-900)GAT>CAT	p.D300H	IL11RA_uc011loq.1_Missense_Mutation_p.D300H|IL11RA_uc003zvj.2_Missense_Mutation_p.D300H|IL11RA_uc003zvk.2_Missense_Mutation_p.D300H|IL11RA_uc010mke.2_Missense_Mutation_p.D182H|IL11RA_uc003zvl.2_RNA	NM_004512	NP_004503	Q14626	I11RA_HUMAN	interleukin 11 receptor, alpha isoform 1	300	Extracellular (Potential).|Fibronectin type-III 2.					integral to plasma membrane	cytokine receptor activity			skin(1)	1	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.174)	Oprelvekin(DB00038)	GGACTTTCTAGATGCTGGCAC	0.612													6	55	---	---	---	---	PASS	C	34659843	C	C	34659843	3	2	51	1	0	0	0	0	1	0	0	0	7623	942	33	2	928	2	IL11RA	9	34659843	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	2026294	34659843	106553588	130	19296										
EPB41L4B	54566	broad.mit.edu	37	chr9	111945036	111945036	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgtggccctgtggtgaaagtAtcaggaaacgggttcattgt	14	6	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr9:111945036A>G	uc004bdz.1	-	24	2755	c.2460T>C	c.(2458-2460)GAT>GAC	p.D820D		NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	820						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						TGGTGAAAGTATCAGGAAACG	0.418													49	78	---	---	---	---	PASS	G	111945036	G	G	111945036	2	3	51	1	0	0	0	0	0	0	0	1	5156	446	16	5		5	EPB41L4B	9	111945036	Silent	SNP	A	TCGA-22-5489-01A-01D-1632-08	77285193	111945036	29268395	131	19297										
AKNA	80709	broad.mit.edu	37	chr9	117099585	117099585	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aggtcctgcaggcgcatagtAcctgaggagagaagtgagtg	16	7	0	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr9:117099585A>C	uc004biq.3	-	21	4204	c.4069T>G	c.(4069-4071)TAC>GAC	p.Y1357D	AKNA_uc004bin.3_Missense_Mutation_p.Y604D|AKNA_uc004bio.3_Missense_Mutation_p.Y817D|AKNA_uc004bip.3_Missense_Mutation_p.Y1276D|AKNA_uc004bir.3_Missense_Mutation_p.Y1357D|AKNA_uc004bis.3_Missense_Mutation_p.Y1357D|AKNA_uc010mve.2_Missense_Mutation_p.Y1238D	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	1357					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(2)	6						GGCGCATAGTACCTGAGGAGA	0.632													3	36	---	---	---	---	PASS	C	117099585	C	C	117099585	3	2	51	1	0	0	0	0	1	0	0	0	463	405	14	5	254	5	AKNA	9	117099585	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	5154549	117099585	24113846	132	19298										
LRRC8A	56262	broad.mit.edu	37	chr9	131670130	131670130	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	atcgtggaccgctcagagacGggcgtgctggacaagaagga	16	9	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr9:131670130G>T	uc004bwl.3	+	3	941	c.687G>T	c.(685-687)ACG>ACT	p.T229T	LRRC8A_uc010myp.2_Silent_p.T229T|LRRC8A_uc010myq.2_Silent_p.T229T	NM_019594	NP_062540	Q8IWT6	LRC8A_HUMAN	leucine rich repeat containing 8 family, member	229					pre-B cell differentiation	integral to membrane					0						GCTCAGAGACGGGCGTGCTGG	0.607													11	17	---	---	---	---	PASS	T	131670130	T	T	131670130	2	4	51	1	0	0	0	0	0	0	0	1	9021	1103	39	1		1	LRRC8A	9	131670130	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	14570545	131670130	9543301	133	19299										
LARP4B	23185	broad.mit.edu	37	chr10	871190	871190	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aagttaaatattgaaggactTtctaataacccaggtcccct	6	9	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr10:871190T>C	uc001ifs.1	-	12	1340	c.1299A>G	c.(1297-1299)GAA>GAG	p.E433E		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	433							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						TTGAAGGACTTTCTAATAACC	0.403													37	99	---	---	---	---	PASS	C	871190	C	C	871190	2	2	51	1	0	0	0	0	0	0	0	1	8631	1838	64	5		5	LARP4B	10	871190	Silent	SNP	T	TCGA-22-5489-01A-01D-1632-08		871190	134663557	134	19300										
CUBN	8029	broad.mit.edu	37	chr10	16979726	16979726	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agtggagctgaaagattcagTctgggtaccacagtaagctc	12	8	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr10:16979726T>C	uc001ioo.2	-	39	5843	c.5791A>G	c.(5791-5793)ACT>GCT	p.T1931A		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1931	CUB 13.				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)	AAAGATTCAGTCTGGGTACCA	0.413													9	55	---	---	---	---	PASS	C	16979726	C	C	16979726	3	2	51	1	0	0	0	0	1	0	0	0	4051	1667	58	5	5196	5	CUBN	10	16979726	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	16108536	16979726	118555021	135	19301										
CUBN	8029	broad.mit.edu	37	chr10	17087013	17087013	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	acattatacatacagccaggTaatctaaagtgcagtttgga	8	7	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr10:17087013T>C	uc001ioo.2	-	25	3717	c.3665A>G	c.(3664-3666)TAC>TGC	p.Y1222C		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1222	CUB 7.				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)	TACAGCCAGGTAATCTAAAGT	0.423													20	68	---	---	---	---	PASS	C	17087013	C	C	17087013	3	2	51	1	0	0	0	0	1	0	0	0	4051	1638	57	5	7378	5	CUBN	10	17087013	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	107287	17087013	118447734	136	19302										
NEBL	10529	broad.mit.edu	37	chr10	21169795	21169795	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttcatgtgggcataatctgaGaatcctttggcagcatcatg	10	8	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr10:21169795G>A	uc001iqi.2	-	5	805	c.408C>T	c.(406-408)TTC>TTT	p.F136F	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	136	Nebulin 3.			KHDAAKGFSD -> NMMLPRILS (in Ref. 2; AAF24858).	regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						CATAATCTGAGAATCCTTTGG	0.403													13	68	---	---	---	---	PASS	A	21169795	A	A	21169795	2	1	51	1	0	0	0	0	0	0	0	1	10303	933	33	2		2	NEBL	10	21169795	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	4082782	21169795	114364952	137	19303										
ARMC3	219681	broad.mit.edu	37	chr10	23319669	23319669	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tctatgtatgtgtatgaggtGaccaaatcaatactgccaat	8	7	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr10:23319669G>T	uc001irm.3	+	17	2273	c.2190G>T	c.(2188-2190)GTG>GTT	p.V730V	ARMC3_uc010qcv.1_Silent_p.V723V|ARMC3_uc010qcw.1_Silent_p.V467V	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	730							binding				0						TGTATGAGGTGACCAAATCAA	0.348													20	65	---	---	---	---	PASS	T	23319669	T	T	23319669	2	4	51	1	0	0	0	0	0	0	0	1	952	1277	45	2		2	ARMC3	10	23319669	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	2149874	23319669	112215078	138	19304										
FAM21B	55747	broad.mit.edu	37	chr10	47942065	47942065	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tagtaaagaaaaaggcatatGgaagccagaaacacctcagg	10	7	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr10:47942065G>T	uc009xni.2	+	24	2528	c.2528G>T	c.(2527-2529)TGG>TTG	p.W843L	FAM21B_uc001jep.3_Missense_Mutation_p.W738L|FAM21B_uc001jeq.3_5'Flank	NM_018232	NP_060702	Q5SNT6	FA21B_HUMAN	hypothetical protein LOC55747	843					retrograde transport, endosome to Golgi	early endosome membrane|WASH complex				ovary(1)	1						AAAGGCATATGGAAGCCAGAA	0.378													12	40	---	---	---	---	PASS	T	47942065	T	T	47942065	3	4	51	1	0	0	0	0	1	0	0	0	5541	1357	47	3	2622	3	FAM21B	10	47942065	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	24622396	47942065	87592682	139	19305										
PTEN	5728	broad.mit.edu	37	chr10	89720808	89720808	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggaatatctagtacttacttTaacaaaaaatgatcttgaca	5	6	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr10:89720808T>A	uc001kfb.2	+	9	1990	c.959T>A	c.(958-960)TTA>TAA	p.L320*		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	320	C2 tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.T319fs*24(4)|p.R55fs*1(4)|p.?(2)|p.N212fs*1(2)|p.Y27fs*1(2)|p.L320*(2)|p.T319_K332del(1)|p.G165_*404del(1)|p.G165_K342del(1)|p.L316fs*1(1)|p.W274_F341del(1)|p.V317_K322del(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		GTACTTACTTTAACAAAAAAT	0.323		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			25	81	---	---	---	---	PASS	A	89720808	A	A	89720808	4	1	51	1	0	0	0	0	0	1	0	0	12738	1764	61	5	989	5	PTEN	10	89720808	Nonsense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	41778743	89720808	45813939	140	19306										
NOC3L	64318	broad.mit.edu	37	chr10	96121573	96121573	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tttagcttgttttcaagtttGactttactagtttttattaa	5	4	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr10:96121573G>A	uc001kjq.1	-	2	154	c.66C>T	c.(64-66)GTC>GTT	p.V22V	NOC3L_uc009xuk.1_5'UTR	NM_022451	NP_071896	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog	22						nuclear speck|nucleolus	binding			ovary(1)	1		Colorectal(252;0.0897)				TTTCAAGTTTGACTTTACTAG	0.323													20	58	---	---	---	---	PASS	A	96121573	A	A	96121573	2	1	51	1	0	0	0	0	0	0	0	1	10514	1277	45	2		2	NOC3L	10	96121573	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	6400765	96121573	39413174	141	19307										
ENTPD7	57089	broad.mit.edu	37	chr10	101448486	101448486	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttggaatcaactttgttttgGgaagattcgaccacgaggat	11	6	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr10:101448486G>C	uc001kqa.3	+	7	866	c.688G>C	c.(688-690)GGA>CGA	p.G230R	ENTPD7_uc009xwl.2_Missense_Mutation_p.G232R	NM_020354	NP_065087	Q9NQZ7	ENTP7_HUMAN	ectonucleoside triphosphate diphosphohydrolase	230	Vesicular (Potential).					cytoplasmic vesicle membrane|integral to membrane	hydrolase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)		CTTTGTTTTGGGAAGATTCGA	0.383													87	219	---	---	---	---	PASS	C	101448486	C	C	101448486	3	2	51	1	0	0	0	0	1	0	0	0	5144	1233	43	4	710	4	ENTPD7	10	101448486	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	5326913	101448486	34086261	142	19308										
SORCS1	114815	broad.mit.edu	37	chr10	108367015	108367015	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cagtggtgggtaagccagggAgcaccgccaccaggatgtgc	16	11	0	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr10:108367015A>G	uc001kym.2	-	23	3082	c.3074T>C	c.(3073-3075)CTC>CCC	p.L1025P	SORCS1_uc001kyl.2_Missense_Mutation_p.L1025P|SORCS1_uc009xxs.2_Missense_Mutation_p.L1025P|SORCS1_uc001kyn.1_Missense_Mutation_p.L1025P|SORCS1_uc001kyo.2_Missense_Mutation_p.L1025P	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	1025	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TAAGCCAGGGAGCACCGCCAC	0.567													13	34	---	---	---	---	PASS	G	108367015	G	G	108367015	3	3	51	1	0	0	0	0	1	0	0	0	14930	304	11	5	682	5	SORCS1	10	108367015	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	6918529	108367015	27167732	143	19309										
DUSP5	1847	broad.mit.edu	37	chr10	112270038	112270038	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aaggggaggcagcaggctctTcactgataggccatttgcag	14	9	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr10:112270038T>G	uc001kzd.2	+	4	1264	c.1009T>G	c.(1009-1011)TCA>GCA	p.S337A		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	337	Tyrosine-protein phosphatase.				endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		AGCAGGCTCTTCACTGATAGG	0.612													8	52	---	---	---	---	PASS	G	112270038	G	G	112270038	3	3	51	1	0	0	0	0	1	0	0	0	4828	1783	62	5	1023	5	DUSP5	10	112270038	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	3903023	112270038	23264709	144	19310										
CARS	833	broad.mit.edu	37	chr11	3028114	3028114	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caagggctcacccaccttcgTggtcttcaaaccgcacccca	7	18	3	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:3028114T>C	uc001lxh.2	-	18	1969	c.1895A>G	c.(1894-1896)CAC>CGC	p.H632R	CARS_uc009ydu.2_RNA|CARS_uc001lxe.2_Missense_Mutation_p.H622R|CARS_uc001lxf.2_Missense_Mutation_p.H715R|CARS_uc001lxg.2_Missense_Mutation_p.H632R|CARS_uc010qxo.1_Missense_Mutation_p.H715R|CARS_uc010qxp.1_Missense_Mutation_p.H645R	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	632					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	CCCACCTTCGTGGTCTTCAAA	0.587			T	ALK	ALCL								8	179	---	---	---	---	PASS	C	3028114	C	C	3028114	3	2	51	1	0	0	0	0	1	0	0	0	2657	1696	59	5	379	5	CARS	11	3028114	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08		3028114	131978402	145	19311										
OR52D1	390066	broad.mit.edu	37	chr11	5510741	5510741	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcctcacccaccgctttggtCaccacgaagtccccaagcat	6	18	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:5510741C>G	uc010qzg.1	+	1	805	c.805C>G	c.(805-807)CAC>GAC	p.H269D	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005163	NP_001005163	Q9H346	O52D1_HUMAN	olfactory receptor, family 52, subfamily D,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.46e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCGCTTTGGTCACCACGAAGT	0.512													15	50	---	---	---	---	PASS	G	5510741	G	G	5510741	3	3	51	1	0	0	0	0	1	0	0	0	11114	826	29	2	807	2	OR52D1	11	5510741	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	2482627	5510741	129495775	146	19312										
OR52N1	79473	broad.mit.edu	37	chr11	5809149	5809149	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gacactttctcgtacctgccTggttttcaccccatacacaa	5	15	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:5809149T>A	uc010qzo.1	-	1	898	c.898A>T	c.(898-900)AGG>TGG	p.R300W	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001913	NP_001001913	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N,	300	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)		CGTACCTGCCTGGTTTTCACC	0.398													24	97	---	---	---	---	PASS	A	5809149	A	A	5809149	3	1	51	1	0	0	0	0	1	0	0	0	11127	1579	55	5	67	5	OR52N1	11	5809149	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	298408	5809149	129197367	147	19313										
OR56A1	120796	broad.mit.edu	37	chr11	6048454	6048454	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aggaatgggtgcagtaagaaGcgcattccgcaccacaatga	12	9	0	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:6048454G>A	uc010qzw.1	-	1	481	c.481C>T	c.(481-483)CTT>TTT	p.L161F		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	161	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCAGTAAGAAGCGCATTCCGC	0.498													11	64	---	---	---	---	PASS	A	6048454	A	A	6048454	3	1	51	1	0	0	0	0	1	0	0	0	11133	971	34	3	479	3	OR56A1	11	6048454	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	239305	6048454	128958062	148	19314										
OR56A1	120796	broad.mit.edu	37	chr11	6048757	6048757	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caggggctggtgcagagaggCctccagctggatggtgatca	17	9	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:6048757C>G	uc010qzw.1	-	1	178	c.178G>C	c.(178-180)GCC>CCC	p.A60P		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	60	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGCAGAGAGGCCTCCAGCTGG	0.617													10	53	---	---	---	---	PASS	G	6048757	G	G	6048757	3	3	51	1	0	0	0	0	1	0	0	0	11133	739	26	4	782	4	OR56A1	11	6048757	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	303	6048757	128957759	149	19315										
DCHS1	8642	broad.mit.edu	37	chr11	6650773	6650773	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	atccagagaaaagctttcgcTagagacgcctccataagtca	8	11	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:6650773T>A	uc001mem.1	-	12	5481	c.5071A>T	c.(5071-5073)AGC>TGC	p.S1691C		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1691	Cadherin 16.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAGCTTTCGCTAGAGACGCCT	0.552													3	17	---	---	---	---	PASS	A	6650773	A	A	6650773	3	1	51	1	0	0	0	0	1	0	0	0	4287	1522	53	5	4865	5	DCHS1	11	6650773	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	602016	6650773	128355743	150	19316										
DCHS1	8642	broad.mit.edu	37	chr11	6661603	6661603	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	atgacgctgtcttgggtgctTagggcaaagtggccctctcc	13	11	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:6661603T>A	uc001mem.1	-	2	1652	c.1242A>T	c.(1240-1242)CTA>CTT	p.L414L		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	414	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTTGGGTGCTTAGGGCAAAGT	0.557													4	10	---	---	---	---	PASS	A	6661603	A	A	6661603	2	1	51	1	0	0	0	0	0	0	0	1	4287	1741	61	5		5	DCHS1	11	6661603	Silent	SNP	T	TCGA-22-5489-01A-01D-1632-08	10830	6661603	128344913	151	19317										
MADD	8567	broad.mit.edu	37	chr11	47330152	47330152	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttctctctagggtaaagcccAcagcttgaagccaagcataa	8	11	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:47330152A>G	uc001ner.1	+	25	3961	c.3770A>G	c.(3769-3771)CAC>CGC	p.H1257R	MADD_uc001neq.2_Missense_Mutation_p.H1219R|MADD_uc001nev.1_Missense_Mutation_p.H1176R|MADD_uc001nes.1_Missense_Mutation_p.H1196R|MADD_uc001net.1_Missense_Mutation_p.H1239R|MADD_uc009yln.1_Missense_Mutation_p.H1172R|MADD_uc001neu.1_Missense_Mutation_p.H1176R|MADD_uc001nex.2_Missense_Mutation_p.H1257R|MADD_uc001nez.2_Missense_Mutation_p.H1175R|MADD_uc001new.2_Missense_Mutation_p.H1218R|MADD_uc009ylo.2_Missense_Mutation_p.H171R	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	1257					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		GGTAAAGCCCACAGCTTGAAG	0.507													11	30	---	---	---	---	PASS	G	47330152	G	G	47330152	3	3	51	1	0	0	0	0	1	0	0	0	9152	159	6	5	3864	5	MADD	11	47330152	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	40668549	47330152	87676364	152	19318										
OR8J1	219477	broad.mit.edu	37	chr11	56128131	56128131	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgctgtacatggtggtggtgTctcggcggctctgcctcctg	15	11	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:56128131T>A	uc010rjh.1	+	1	409	c.409T>A	c.(409-411)TCT>ACT	p.S137T		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GGTGGTGGTGTCTCGGCGGCT	0.468													19	70	---	---	---	---	PASS	A	56128131	A	A	56128131	3	1	51	1	0	0	0	0	1	0	0	0	11241	1667	58	5	411	5	OR8J1	11	56128131	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	8797979	56128131	78878385	153	19319										
OR5R1	219479	broad.mit.edu	37	chr11	56185408	56185408	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gaaggtgagaaaacaacccaGttgggttgcacaagcatgga	13	7	0	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:56185408G>T	uc010rji.1	-	1	301	c.301C>A	c.(301-303)CTG>ATG	p.L101M		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	101	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AAACAACCCAGTTGGGTTGCA	0.453													6	34	---	---	---	---	PASS	T	56185408	T	T	56185408	3	4	51	1	0	0	0	0	1	0	0	0	11180	1020	36	3	675	3	OR5R1	11	56185408	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	57277	56185408	78821108	154	19320										
OR5AP2	338675	broad.mit.edu	37	chr11	56409733	56409733	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aagaaatacatgggggtgtgGagacagagatcaatcttaat	12	4	2	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:56409733G>A	uc001njb.1	-	1	183	c.183C>T	c.(181-183)CTC>CTT	p.L61L		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	61	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						TGGGGGTGTGGAGACAGAGAT	0.433													6	40	---	---	---	---	PASS	A	56409733	A	A	56409733	2	1	51	1	0	0	0	0	0	0	0	1	11144	1161	41	2		2	OR5AP2	11	56409733	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	224325	56409733	78596783	155	19321										
OR5B21	219968	broad.mit.edu	37	chr11	58275212	58275212	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	atgaagaggcctacataccgCtgcatggcgatcataggcca	11	11	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:58275212C>G	uc010rki.1	-	1	367	c.367G>C	c.(367-369)GCG>CCG	p.A123P		NM_001005218	NP_001005218	A6NL26	OR5BL_HUMAN	olfactory receptor, family 5, subfamily B,	123	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CTACATACCGCTGCATGGCGA	0.527													3	27	---	---	---	---	PASS	G	58275212	G	G	58275212	3	3	51	1	0	0	0	0	1	0	0	0	11151	797	28	4	564	4	OR5B21	11	58275212	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	1865479	58275212	76731304	156	19322										
LGALS12	85329	broad.mit.edu	37	chr11	63279225	63279225	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	acctcccttgttccttcaggAggtgccctgctcacatgctc	8	16	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:63279225A>T	uc001nxa.2	+	7	967	c.626A>T	c.(625-627)GAG>GTG	p.E209V	LGALS12_uc001nxb.2_Missense_Mutation_p.E200V|LGALS12_uc001nxc.2_Missense_Mutation_p.E210V|LGALS12_uc001nxd.2_Missense_Mutation_p.E148V|LGALS12_uc001nxe.2_Missense_Mutation_p.E139V|LGALS12_uc009yot.2_Missense_Mutation_p.E169V	NM_033101	NP_149092	Q96DT0	LEG12_HUMAN	lectin, galactoside-binding, soluble, 12 isoform	209					apoptosis|induction of apoptosis by intracellular signals	nucleus	lactose binding			ovary(2)	2						TTCCTTCAGGAGGTGCCCTGC	0.612													11	47	---	---	---	---	PASS	T	63279225	T	T	63279225	3	4	51	1	0	0	0	0	1	0	0	0	8739	318	11	5	655	5	LGALS12	11	63279225	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	5004013	63279225	71727291	157	19323										
SPTBN2	6712	broad.mit.edu	37	chr11	66488695	66488695	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agctgtcaaagtctgtgggtGacagcgtgctgctcatggtg	15	8	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:66488695G>A	uc001ojd.2	-	2	89	c.17C>T	c.(16-18)TCA>TTA	p.S6L		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	6	Actin-binding.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GTCTGTGGGTGACAGCGTGCT	0.592													15	69	---	---	---	---	PASS	A	66488695	A	A	66488695	3	1	51	1	0	0	0	0	1	0	0	0	15119	1294	45	2	7299	2	SPTBN2	11	66488695	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	3209470	66488695	68517821	158	19324										
ARAP1	116985	broad.mit.edu	37	chr11	72424248	72424248	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtcatcactctggctggggcCcccggcccctcctctgggac	12	18	4	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:72424248C>A	uc001osu.2	-	5	909	c.720G>T	c.(718-720)GGG>GGT	p.G240G	ARAP1_uc001osv.2_Silent_p.G240G|ARAP1_uc001osr.2_5'UTR|ARAP1_uc001oss.2_5'UTR|ARAP1_uc009yth.2_5'UTR|ARAP1_uc010rre.1_5'UTR	NM_001040118	NP_001035207	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	240					actin filament reorganization involved in cell cycle|negative regulation of stress fiber assembly|positive regulation of Cdc42 GTPase activity|positive regulation of filopodium assembly|regulation of ARF GTPase activity|regulation of cell shape|regulation of cellular component movement|small GTPase mediated signal transduction	cytosol|Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|Rho GTPase activator activity|zinc ion binding			skin(1)	1						TGGCTGGGGCCCCCGGCCCCT	0.667													10	49	---	---	---	---	PASS	A	72424248	A	A	72424248	2	1	51	1	0	0	0	0	0	0	0	1	838	610	22	3		3	ARAP1	11	72424248	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	5935553	72424248	62582268	159	19325										
SYTL2	54843	broad.mit.edu	37	chr11	85445045	85445045	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgatgatttatctttgggttCattgatggttggtgaattct	11	3	3	4			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:85445045C>A	uc010rth.1	-	6	1600	c.1324G>T	c.(1324-1326)GAA>TAA	p.E442*	SYTL2_uc010rtg.1_Nonsense_Mutation_p.E443*|SYTL2_uc010rti.1_Nonsense_Mutation_p.E442*|SYTL2_uc010rtj.1_Nonsense_Mutation_p.E394*|SYTL2_uc001pbf.3_Nonsense_Mutation_p.E442*|SYTL2_uc010rtf.1_Nonsense_Mutation_p.E300*	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	442					intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		TCTTTGGGTTCATTGATGGTT	0.388													20	135	---	---	---	---	PASS	A	85445045	A	A	85445045	4	1	51	1	0	0	0	0	0	1	0	0	15480	835	29	2	4013	2	SYTL2	11	85445045	Nonsense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	13020797	85445045	49561471	160	19326										
GRM5	2915	broad.mit.edu	37	chr11	88337890	88337890	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aattgtaacacaataccttcCtggagagtctccattctcat	5	11	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:88337890C>A	uc001pcq.2	-	4	1590	c.1390G>T	c.(1390-1392)GGA>TGA	p.G464*	GRM5_uc009yvm.2_Nonsense_Mutation_p.G464*	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	464	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CAATACCTTCCTGGAGAGTCT	0.423													7	33	---	---	---	---	PASS	A	88337890	A	A	88337890	4	1	51	1	0	0	0	0	0	1	0	0	6800	690	24	3	2272	3	GRM5	11	88337890	Nonsense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	2892845	88337890	46668626	161	19327										
MTNR1B	4544	broad.mit.edu	37	chr11	92714753	92714753	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ccagcgcctttgtgatgggcCtgagcgtcatcggctctgtc	13	13	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:92714753C>A	uc001pdk.1	+	2	467	c.364C>A	c.(364-366)CTG>ATG	p.L122M		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	122	Helical; Name=3; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	TGTGATGGGCCTGAGCGTCAT	0.597													23	84	---	---	---	---	PASS	A	92714753	A	A	92714753	3	1	51	1	0	0	0	0	1	0	0	0	9952	680	24	3	370	3	MTNR1B	11	92714753	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	4376863	92714753	42291763	162	19328										
CCDC67	159989	broad.mit.edu	37	chr11	93097451	93097451	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gaactgagcaatttgaaccaGaaattagaggtgagatatat	10	4	0	5			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:93097451G>C	uc001pdq.2	+	5	523	c.423G>C	c.(421-423)CAG>CAC	p.Q141H	CCDC67_uc001pdo.1_Missense_Mutation_p.Q141H|CCDC67_uc001pdp.2_Missense_Mutation_p.Q141H	NM_181645	NP_857596	Q05D60	CCD67_HUMAN	coiled-coil domain containing 67	141	Potential.									ovary(1)	1		Acute lymphoblastic leukemia(157;2.35e-05)|all_hematologic(158;0.00824)				ATTTGAACCAGAAATTAGAGG	0.333													6	49	---	---	---	---	PASS	C	93097451	C	C	93097451	3	2	51	1	0	0	0	0	1	0	0	0	2839	933	33	2	437	2	CCDC67	11	93097451	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	382698	93097451	41909065	163	19329										
GRIA4	2893	broad.mit.edu	37	chr11	105483132	105483132	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcatgtggacaacattgagaCagccaacagttttgctgtaa	9	8	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:105483132C>A	uc001pix.2	+	3	664	c.218C>A	c.(217-219)ACA>AAA	p.T73K	GRIA4_uc001piu.1_Missense_Mutation_p.T73K|GRIA4_uc001piw.2_Missense_Mutation_p.T73K|GRIA4_uc001piv.2_Missense_Mutation_p.T73K|GRIA4_uc009yxk.1_Missense_Mutation_p.T73K|GRIA4_uc001pit.2_Missense_Mutation_p.T73K	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	73	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	AACATTGAGACAGCCAACAGT	0.398													5	67	---	---	---	---	PASS	A	105483132	A	A	105483132	3	1	51	1	0	0	0	0	1	0	0	0	6770	478	17	3	224	3	GRIA4	11	105483132	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	12385681	105483132	29523384	164	19330										
DPAGT1	1798	broad.mit.edu	37	chr11	118971749	118971749	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcatggtgggggaatgccttAcactgctccttcacaaagca	10	11	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:118971749A>G	uc001pvi.2	-	2	681	c.261T>C	c.(259-261)TGT>TGC	p.C87C	DPAGT1_uc001pvj.2_Intron|DPAGT1_uc009zaq.2_RNA|DPAGT1_uc001pvk.2_5'UTR|DPAGT1_uc010ryz.1_Silent_p.C87C|DPAGT1_uc001pvm.1_5'Flank|DPAGT1_uc010rza.1_Intron	NM_001382	NP_001373	Q9H3H5	GPT_HUMAN	UDP-N-acetylglucosamine-dolichyl-phosphate	87	Lumenal (Potential).				dolichol biosynthetic process|dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|protein oligomerization	integral to endoplasmic reticulum membrane|microsome	phospho-N-acetylmuramoyl-pentapeptide-transferase activity|transferase activity, transferring glycosyl groups|UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosaminephosphotransferase activity			breast(2)|ovary(1)	3	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.55e-05)		GGAATGCCTTACACTGCTCCT	0.537											OREG0021396	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	46	---	---	---	---	PASS	G	118971749	G	G	118971749	2	3	51	1	0	0	0	0	0	0	0	1	4710	389	14	5		5	DPAGT1	11	118971749	Silent	SNP	A	TCGA-22-5489-01A-01D-1632-08	13488617	118971749	16034767	165	19331										
OR8A1	390275	broad.mit.edu	37	chr11	124440849	124440849	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtggcctctgtgttctacacCacggtaatccccatgttgaa	9	12	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:124440849C>A	uc010san.1	+	1	885	c.885C>A	c.(883-885)ACC>ACA	p.T295T		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	295	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		TGTTCTACACCACGGTAATCC	0.478													8	33	---	---	---	---	PASS	A	124440849	A	A	124440849	2	1	51	1	0	0	0	0	0	0	0	1	11225	581	21	3		3	OR8A1	11	124440849	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	5469100	124440849	10565667	166	19332										
EI24	9538	broad.mit.edu	37	chr11	125448072	125448072	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtttggtcgtggctggaattCttcctcacgtcaattttcag	10	9	4	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:125448072C>A	uc001qca.2	+	6	602	c.360C>A	c.(358-360)TTC>TTA	p.F120L	EI24_uc001qcb.2_Missense_Mutation_p.F120L|EI24_uc010sbd.1_RNA|EI24_uc009zbl.2_Missense_Mutation_p.F120L|EI24_uc001qcc.2_RNA|EI24_uc010sbe.1_Missense_Mutation_p.F106L|EI24_uc010sbf.1_RNA	NM_004879	NP_004870	O14681	EI24_HUMAN	etoposide induced 2.4 isoform 1	120	Helical; (Potential).				apoptosis|autophagy|induction of apoptosis|negative regulation of cell growth	endoplasmic reticulum membrane|integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.64e-07)|OV - Ovarian serous cystadenocarcinoma(99;0.0975)		GGCTGGAATTCTTCCTCACGT	0.453													4	72	---	---	---	---	PASS	A	125448072	A	A	125448072	3	1	51	1	0	0	0	0	1	0	0	0	4985	912	32	2	378	2	EI24	11	125448072	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	1007223	125448072	9558444	167	19333										
GLB1L3	112937	broad.mit.edu	37	chr11	134181039	134181039	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtcgctgtacctcccgctgtGggacgccctatcctacttaa	9	15	0	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr11:134181039G>A	uc009zdf.2	+	13	1622	c.1262G>A	c.(1261-1263)TGG>TAG	p.W421*	GLB1L3_uc010scu.1_3'UTR|GLB1L3_uc001qho.3_RNA	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3	421					carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		CTCCCGCTGTGGGACGCCCTA	0.597													29	92	---	---	---	---	PASS	A	134181039	A	A	134181039	4	1	51	1	0	0	0	0	0	1	0	0	6430	1357	47	3	1312	3	GLB1L3	11	134181039	Nonsense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	8732967	134181039	825477	168	19334										
KCNA5	3741	broad.mit.edu	37	chr12	5154154	5154154	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agttcagggatgaacgtgagCtgctccgccaccctccggcg	13	14	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr12:5154154C>A	uc001qni.2	+	1	1070	c.841C>A	c.(841-843)CTG>ATG	p.L281M		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	281						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						TGAACGTGAGCTGCTCCGCCA	0.692													59	47	---	---	---	---	PASS	A	5154154	A	A	5154154	3	1	51	1	0	0	0	0	1	0	0	0	8006	796	28	3	843	3	KCNA5	12	5154154	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08		5154154	128697741	169	19335										
KLRF1	51348	broad.mit.edu	37	chr12	9997097	9997097	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tttctctgaaacctgcagcaGtgttttcaaatggatttgtc	8	8	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr12:9997097G>T	uc010sgw.1	+	7	732	c.668G>T	c.(667-669)AGT>ATT	p.S223I	KLRF1_uc009zgw.2_Missense_Mutation_p.S174I|KLRF1_uc009zgx.2_RNA|KLRF1_uc001qwm.2_RNA|KLRF1_uc009zgy.2_RNA|KLRF1_uc009zgz.2_3'UTR|KLRF1_uc009zha.2_RNA	NM_016523	NP_057607	Q9NZS2	KLRF1_HUMAN	killer cell lectin-like receptor subfamily F,	224	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to plasma membrane	MHC class I receptor activity|sugar binding			large_intestine(1)	1						ACCTGCAGCAGTGTTTTCAAA	0.333													30	30	---	---	---	---	PASS	T	9997097	T	T	9997097	3	4	51	1	0	0	0	0	1	0	0	0	8420	1029	36	3	693	3	KLRF1	12	9997097	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	4842943	9997097	123854798	170	19336										
PLBD1	79887	broad.mit.edu	37	chr12	14659942	14659942	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	acgccggaaaattttggctcGtggagctaaatcataagagt	11	7	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr12:14659942G>T	uc001rcc.1	-	9	1458	c.1297C>A	c.(1297-1299)CGA>AGA	p.R433R		NM_024829	NP_079105	Q6P4A8	PLBL1_HUMAN	phospholipase B domain containing 1	433					lipid catabolic process	extracellular region	hydrolase activity				0						ATTTTGGCTCGTGGAGCTAAA	0.423													72	64	---	---	---	---	PASS	T	14659942	T	T	14659942	2	4	51	1	0	0	0	0	0	0	0	1	12025	1153	40	1		1	PLBD1	12	14659942	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	4662845	14659942	119191953	171	19337										
ERP27	121506	broad.mit.edu	37	chr12	15068528	15068528	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcatctagagtctggtaaatTgccaaagctggcagttgaga	11	7	3	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr12:15068528T>C	uc001rco.2	-	6	690	c.669A>G	c.(667-669)GCA>GCG	p.A223A		NM_152321	NP_689534	Q96DN0	ERP27_HUMAN	endoplasmic reticulum protein 27 kDa precursor	223						endoplasmic reticulum lumen				breast(1)	1						TCTGGTAAATTGCCAAAGCTG	0.413													10	99	---	---	---	---	PASS	C	15068528	C	C	15068528	2	2	51	1	0	0	0	0	0	0	0	1	5241	1799	63	5		5	ERP27	12	15068528	Silent	SNP	T	TCGA-22-5489-01A-01D-1632-08	408586	15068528	118783367	172	19338										
ANO6	196527	broad.mit.edu	37	chr12	45810620	45810620	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tagacgcctggtaccagagaAagcccaagacattggagcat	11	10	0	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr12:45810620A>G	uc001roo.2	+	17	2485	c.2150A>G	c.(2149-2151)AAA>AGA	p.K717R	ANO6_uc010sld.1_Missense_Mutation_p.K717R|ANO6_uc010sle.1_Missense_Mutation_p.K717R|ANO6_uc010slf.1_Missense_Mutation_p.K738R|ANO6_uc010slg.1_Missense_Mutation_p.K699R	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	717	Cytoplasmic (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						GTACCAGAGAAAGCCCAAGAC	0.483													13	50	---	---	---	---	PASS	G	45810620	G	G	45810620	3	3	51	1	0	0	0	0	1	0	0	0	701	14	1	5	2236	5	ANO6	12	45810620	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	30742092	45810620	88041275	173	19339										
SFRS2IP	9169	broad.mit.edu	37	chr12	46320223	46320223	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcattctgatctttataggcAaaactacttctgtaagtgcc	6	9	4	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr12:46320223A>G	uc001rox.2	-	11	3548	c.3261T>C	c.(3259-3261)TTT>TTC	p.F1087F	SFRS2IP_uc001row.2_Silent_p.F772F|SFRS2IP_uc001roy.1_Silent_p.F1161F	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	1087					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		CTTTATAGGCAAAACTACTTC	0.428													9	74	---	---	---	---	PASS	G	46320223	G	G	46320223	2	3	51	1	0	0	0	0	0	0	0	1	14177	127	5	5		5	SFRS2IP	12	46320223	Silent	SNP	A	TCGA-22-5489-01A-01D-1632-08	509603	46320223	87531672	174	19340										
COL2A1	1280	broad.mit.edu	37	chr12	48368475	48368475	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cacatggaagccaccattgaTggtttctccaaaccagatgt	8	11	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr12:48368475T>C	uc001rqu.2	-	52	4238	c.4057A>G	c.(4057-4059)ATC>GTC	p.I1353V	COL2A1_uc001rqt.2_Missense_Mutation_p.I134V|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.I1284V	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1353	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CCACCATTGATGGTTTCTCCA	0.493													48	137	---	---	---	---	PASS	C	48368475	C	C	48368475	3	2	51	1	0	0	0	0	1	0	0	0	3687	1464	51	5	418	5	COL2A1	12	48368475	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	2048252	48368475	85483420	175	19341										
DCD	117159	broad.mit.edu	37	chr12	55042031	55042031	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggggaagagccatactcacaGgcacagaccagggctcctgc	13	13	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr12:55042031G>A	uc001sgj.2	-	1	119	c.57C>T	c.(55-57)GCC>GCT	p.A19A	DCD_uc009znt.2_Silent_p.A19A|DCD_uc009znu.2_RNA	NM_053283	NP_444513	P81605	DCD_HUMAN	dermcidin preproprotein	19					defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular region	protein binding			ovary(1)	1		Myeloproliferative disorder(1001;0.0255)				CATACTCACAGGCACAGACCA	0.572													3	29	---	---	---	---	PASS	A	55042031	A	A	55042031	2	1	51	1	0	0	0	0	0	0	0	1	4283	1014	35	3		3	DCD	12	55042031	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	6673556	55042031	78809864	176	19342										
PPFIA2	8499	broad.mit.edu	37	chr12	81741394	81741394	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttgagtgtccactggggggaGatgaactggccagcgatgaa	16	7	0	4			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr12:81741394G>C	uc001szo.1	-	18	2311	c.2150C>G	c.(2149-2151)TCT>TGT	p.S717C	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_Intron	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	643										ovary(3)|lung(2)|pancreas(1)	6						ACTGGGGGGAGATGAACTGGC	0.557													21	82	---	---	---	---	PASS	C	81741394	C	C	81741394	3	2	51	1	0	0	0	0	1	0	0	0	12310	942	33	2	1683	2	PPFIA2	12	81741394	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	26699363	81741394	52110501	177	19343										
PLXNC1	10154	broad.mit.edu	37	chr12	94603390	94603390	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	acttttcaaggagattgtgtAcattcagagaacttagaaaa	8	5	2	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr12:94603390A>G	uc001tdc.2	+	5	1713	c.1464A>G	c.(1462-1464)GTA>GTG	p.V488V		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	488	Extracellular (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						GAGATTGTGTACATTCAGAGA	0.398													40	153	---	---	---	---	PASS	G	94603390	G	G	94603390	2	3	51	1	0	0	0	0	0	0	0	1	12126	378	14	5		5	PLXNC1	12	94603390	Silent	SNP	A	TCGA-22-5489-01A-01D-1632-08	12861996	94603390	39248505	178	19344										
GNPTAB	79158	broad.mit.edu	37	chr12	102161813	102161813	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttacagtttaacacatccttAccagagcaatccccaccatc	3	15	0	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr12:102161813A>G	uc001tit.2	-	11	1587	c.1408_splice	c.e11+1	p.G470_splice	GNPTAB_uc001tiu.1_Silent_p.G470G	NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase						cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						ACACATCCTTACCAGAGCAAT	0.393													13	34	---	---	---	---	PASS	G	102161813	G	G	102161813	5	3	51	1	0	0	0	0	0	0	1	0	6545	405	14	5	2404	5	GNPTAB	12	102161813	Splice_Site	SNP	A	TCGA-22-5489-01A-01D-1632-08	7558423	102161813	31690082	179	19345										
EP400	57634	broad.mit.edu	37	chr12	132561125	132561125	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cagcatccagcaagttgcctCtgcttcccagcaggtaggac	10	14	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr12:132561125C>G	uc001ujn.2	+	51	9121	c.9086C>G	c.(9085-9087)TCT>TGT	p.S3029C	EP400_uc001ujl.2_Missense_Mutation_p.S3028C|EP400_uc001ujm.2_Missense_Mutation_p.S2948C|EP400_uc001ujp.2_Missense_Mutation_p.S239C|EP400_uc010tbo.1_Silent_p.L95L	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	3065					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CAAGTTGCCTCTGCTTCCCAG	0.448													7	23	---	---	---	---	PASS	G	132561125	G	G	132561125	3	3	51	1	0	0	0	0	1	0	0	0	5149	913	32	2	9285	2	EP400	12	132561125	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	30399312	132561125	1290770	180	19346										
PARP4	143	broad.mit.edu	37	chr13	25009391	25009391	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttaaatagtggttcagttgcTgttggtttacatgactctgt	10	5	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr13:25009391T>G	uc001upl.2	-	31	3994	c.3888A>C	c.(3886-3888)ACA>ACC	p.T1296T		NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	1296					cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		GTTCAGTTGCTGTTGGTTTAC	0.433													26	58	---	---	---	---	PASS	G	25009391	G	G	25009391	2	3	51	1	0	0	0	0	0	0	0	1	11463	1567	55	5		5	PARP4	13	25009391	Silent	SNP	T	TCGA-22-5489-01A-01D-1632-08		25009391	90160487	181	19347										
PDS5B	23047	broad.mit.edu	37	chr13	33225993	33225993	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggactctgaagaagaaaaggAgctttatttaaacctagctt	9	6	1	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr13:33225993A>T	uc010abf.2	+	3	319	c.161A>T	c.(160-162)GAG>GTG	p.E54V	PDS5B_uc001uun.2_Missense_Mutation_p.E54V|PDS5B_uc001uuo.2_Missense_Mutation_p.E54V|PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	54					cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		GAAGAAAAGGAGCTTTATTTA	0.338													38	81	---	---	---	---	PASS	T	33225993	T	T	33225993	3	4	51	1	0	0	0	0	1	0	0	0	11692	304	11	5	167	5	PDS5B	13	33225993	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	8216602	33225993	81943885	182	19348										
OR4K15	81127	broad.mit.edu	37	chr14	20444720	20444720	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgttcttttcctagaaacaaAgtaaacttatgagactgtta	6	6	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr14:20444720A>T	uc010tkx.1	+	1	1043	c.1043A>T	c.(1042-1044)AAG>ATG	p.K348M		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	348	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CTAGAAACAAAGTAAACTTAT	0.393													4	20	---	---	---	---	PASS	T	20444720	T	T	20444720	3	4	51	1	0	0	0	0	1	0	0	0	11070	72	3	5	1045	5	OR4K15	14	20444720	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08		20444720	86904820	183	19349										
RNF31	55072	broad.mit.edu	37	chr14	24626559	24626559	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agaactggaaacgcatgaacGacccagaataccaggcccag	10	12	0	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr14:24626559G>T	uc001wmn.1	+	15	2803	c.2554G>T	c.(2554-2556)GAC>TAC	p.D852Y	RNF31_uc001wml.1_Missense_Mutation_p.D701Y|RNF31_uc010alg.1_Missense_Mutation_p.D611Y|RNF31_uc001wmo.1_Missense_Mutation_p.D319Y|RNF31_uc001wmp.2_RNA|RNF31_uc010alh.1_Missense_Mutation_p.D36Y	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	852					CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		ACGCATGAACGACCCAGAATA	0.557													6	24	---	---	---	---	PASS	T	24626559	T	T	24626559	3	4	51	1	0	0	0	0	1	0	0	0	13487	1058	37	2	2612	2	RNF31	14	24626559	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	4181839	24626559	82722981	184	19350										
LRFN5	145581	broad.mit.edu	37	chr14	42361008	42361008	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caaaagcagaaaagaaagacTggcacaaagccaagtacaga	9	8	0	4			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr14:42361008T>A	uc001wvm.2	+	4	3139	c.1941T>A	c.(1939-1941)ACT>ACA	p.T647T	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	647	Cytoplasmic (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AAAGAAAGACTGGCACAAAGC	0.468										HNSCC(30;0.082)			6	21	---	---	---	---	PASS	A	42361008	A	A	42361008	2	1	51	1	0	0	0	0	0	0	0	1	8941	1567	55	5		5	LRFN5	14	42361008	Silent	SNP	T	TCGA-22-5489-01A-01D-1632-08	17734449	42361008	64988532	185	19351										
WDHD1	11169	broad.mit.edu	37	chr14	55458047	55458047	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgttacaagtggtagattgtGaatgctgccttcttgaccat	10	7	1	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr14:55458047G>C	uc001xbm.1	-	12	1303	c.1225C>G	c.(1225-1227)CAC>GAC	p.H409D	WDHD1_uc010aom.1_5'UTR|WDHD1_uc001xbn.1_Missense_Mutation_p.H286D	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	409						cytoplasm|nucleoplasm	DNA binding			skin(1)	1						GGTAGATTGTGAATGCTGCCT	0.428													16	65	---	---	---	---	PASS	C	55458047	C	C	55458047	3	2	51	1	0	0	0	0	1	0	0	0	17268	1290	45	2	2224	2	WDHD1	14	55458047	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	13097039	55458047	51891493	186	19352										
ZBTB1	22890	broad.mit.edu	37	chr14	64990087	64990087	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tttaagagagcgtcagttgcGactgcacaatgatatgcaca	10	8	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr14:64990087G>A	uc001xhh.3	+	4	2296	c.1865G>A	c.(1864-1866)CGA>CAA	p.R622Q	ZBTB1_uc010aqg.2_Missense_Mutation_p.R622Q|ZBTB1_uc001xhi.2_Missense_Mutation_p.R622Q	NM_001123329	NP_001116801	Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1 isoform	622	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		all_lung(585;0.000567)|Myeloproliferative disorder(585;0.0255)|all_neural(303;0.0294)		UCEC - Uterine corpus endometrioid carcinoma (185;0.0182)|all cancers(60;3.78e-43)|OV - Ovarian serous cystadenocarcinoma(108;1.22e-20)|BRCA - Breast invasive adenocarcinoma(234;6.75e-06)|KIRC - Kidney renal clear cell carcinoma(182;0.00269)|STAD - Stomach adenocarcinoma(64;0.012)		CGTCAGTTGCGACTGCACAAT	0.403													6	90	---	---	---	---	PASS	A	64990087	A	A	64990087	3	1	51	1	0	0	0	0	1	0	0	0	17519	1058	37	2	1867	2	ZBTB1	14	64990087	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	9532040	64990087	42359453	187	19353										
SIPA1L1	26037	broad.mit.edu	37	chr14	72085580	72085580	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aatggatctccgtacaactaCcgaataatttttagaactag	6	8	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr14:72085580C>T	uc001xms.2	+	3	1953	c.1605C>T	c.(1603-1605)TAC>TAT	p.Y535Y	SIPA1L1_uc001xmt.2_Silent_p.Y535Y|SIPA1L1_uc001xmu.2_Silent_p.Y535Y|SIPA1L1_uc001xmv.2_Silent_p.Y535Y|SIPA1L1_uc010ttm.1_Silent_p.Y10Y	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	535					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		CGTACAACTACCGAATAATTT	0.403													9	44	---	---	---	---	PASS	T	72085580	T	T	72085580	2	4	51	1	0	0	0	0	0	0	0	1	14329	518	18	3		3	SIPA1L1	14	72085580	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	7095493	72085580	35263960	188	19354										
PSEN1	5663	broad.mit.edu	37	chr14	73653560	73653560	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttgaaatgctttcttttctaGgtcatccatgcctggcttat	7	9	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr14:73653560G>C	uc001xnr.2	+	6	765	c.481_splice	c.e6-1	p.V161_splice	PSEN1_uc001xnv.2_Splice_Site_p.V157_splice|PSEN1_uc010ark.2_Splice_Site_p.V157_splice|PSEN1_uc001xnt.1_Splice_Site|PSEN1_uc001xnu.2_Splice_Site|uc010ttv.1_5'Flank	NM_000021	NP_000012	P49768	PSN1_HUMAN	presenilin 1 isoform I-467						amyloid precursor protein catabolic process|anti-apoptosis|beta-amyloid metabolic process|cell-cell adhesion|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|smooth endoplasmic reticulum calcium ion homeostasis	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|gamma-secretase complex|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum|smooth endoplasmic reticulum|Z disc	aspartic-type endopeptidase activity|beta-catenin binding|cadherin binding|calcium channel activity|PDZ domain binding			breast(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.075)		TTCTTTTCTAGGTCATCCATG	0.269													28	107	---	---	---	---	PASS	C	73653560	C	C	73653560	5	2	51	1	0	0	0	0	0	0	1	0	12650	1014	35	4	494	4	PSEN1	14	73653560	Splice_Site	SNP	G	TCGA-22-5489-01A-01D-1632-08	1567980	73653560	33695980	189	19355										
ASB2	51676	broad.mit.edu	37	chr14	94420705	94420705	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gcccacctggccatagtatgCggcctcgtgcagcggcagcc	13	16	0	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr14:94420705C>A	uc001ycc.1	-	2	781	c.292G>T	c.(292-294)GCA>TCA	p.A98S	ASB2_uc001ycd.2_Missense_Mutation_p.A146S|ASB2_uc001yce.1_Missense_Mutation_p.A44S	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	98	ANK 2.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		CCATAGTATGCGGCCTCGTGC	0.607													10	35	---	---	---	---	PASS	A	94420705	A	A	94420705	3	1	51	1	0	0	0	0	1	0	0	0	1023	768	27	1	1499	1	ASB2	14	94420705	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	20767145	94420705	12928835	190	19356										
BDKRB2	624	broad.mit.edu	37	chr14	96707244	96707244	+	Silent	SNP	G	T	T													0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctcctgagctcacccatgctGgtgttccggaccatgaagga							TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr14:96707244G>T	uc010avm.1	+	3	775	c.579G>T	c.(577-579)CTG>CTT	p.L193L	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Silent_p.L166L|BDKRB2_uc001yfg.2_Silent_p.L193L	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	193	Helical; Name=4; (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		CACCCATGCTGGTGTTCCGGA	0.587													14	62	---	---	---	---	PASS	T	96707244	T	T	96707244	2	4	51	1	0	0	0	0	0	0	0	1	1393	1335	47	3		3	BDKRB2	14	96707244	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	2286539	96707244	10642296	191	19357	435	2								
BDKRB2	624	broad.mit.edu	37	chr14	96707245	96707245	+	Missense_Mutation	SNP	G	T	T													0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcctgagctcacccatgctgGtgttccggaccatgaaggag							TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr14:96707245G>T	uc010avm.1	+	3	776	c.580G>T	c.(580-582)GTG>TTG	p.V194L	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Missense_Mutation_p.V167L|BDKRB2_uc001yfg.2_Missense_Mutation_p.V194L	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	194	Helical; Name=4; (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		ACCCATGCTGGTGTTCCGGAC	0.587													14	60	---	---	---	---	PASS	T	96707245	T	T	96707245	3	4	51	1	0	0	0	0	1	0	0	0	1393	1261	44	3	586	3	BDKRB2	14	96707245	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	1	96707245	10642295	192	19358	435	2								
TUBGCP5	114791	broad.mit.edu	37	chr15	22861915	22861915	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gatgatgttcatgatccactGcttgccattaactttgcaag	8	9	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:22861915G>C	uc001yur.3	+	14	2065	c.1935G>C	c.(1933-1935)CTG>CTC	p.L645L	TUBGCP5_uc001yuq.2_Silent_p.L645L|TUBGCP5_uc010axz.1_Silent_p.L232L	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	645					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		ATGATCCACTGCTTGCCATTA	0.433													25	76	---	---	---	---	PASS	C	22861915	C	C	22861915	2	2	51	1	0	0	0	0	0	0	0	1	16766	1306	46	4		4	TUBGCP5	15	22861915	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08		22861915	79669477	193	19359										
RYR3	6263	broad.mit.edu	37	chr15	34130138	34130138	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgtagaccggttccatgagcCagccaaggacatagggttta	12	9	0	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:34130138C>A	uc001zhi.2	+	89	12027	c.11957C>A	c.(11956-11958)CCA>CAA	p.P3986Q	RYR3_uc010bar.2_Missense_Mutation_p.P3981Q	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3986					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTCCATGAGCCAGCCAAGGAC	0.453													19	87	---	---	---	---	PASS	A	34130138	A	A	34130138	3	1	51	1	0	0	0	0	1	0	0	0	13770	594	21	3	12311	3	RYR3	15	34130138	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	11268223	34130138	68401254	194	19360										
PGBD4	161779	broad.mit.edu	37	chr15	34396022	34396022	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tataacgagaatatgggagcAgtggactcggctgatcaaat	12	6	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:34396022A>T	uc001zho.2	+	1	1749	c.1290A>T	c.(1288-1290)GCA>GCT	p.A430A	C15orf24_uc001zhm.2_5'Flank|C15orf24_uc001zhn.2_5'Flank	NM_152595	NP_689808	Q96DM1	PGBD4_HUMAN	piggyBac transposable element derived 4	430											0		all_lung(180;1.76e-08)		all cancers(64;1.22e-17)|GBM - Glioblastoma multiforme(113;1.78e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0242)		ATATGGGAGCAGTGGACTCGG	0.378													9	54	---	---	---	---	PASS	T	34396022	T	T	34396022	2	4	51	1	0	0	0	0	0	0	0	1	11783	175	7	5		5	PGBD4	15	34396022	Silent	SNP	A	TCGA-22-5489-01A-01D-1632-08	265884	34396022	68135370	195	19361										
ZNF770	54989	broad.mit.edu	37	chr15	35275459	35275459	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgtctaaaggttttatgacaCacatcacattcaaatggctt	6	8	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:35275459C>T	uc001ziw.2	-	3	488	c.177G>A	c.(175-177)GTG>GTA	p.V59V		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	59	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		TTTTATGACACACATCACATT	0.343													9	70	---	---	---	---	PASS	T	35275459	T	T	35275459	2	4	51	1	0	0	0	0	0	0	0	1	18140	465	17	3		3	ZNF770	15	35275459	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	879437	35275459	67255933	196	19362										
CASC4	113201	broad.mit.edu	37	chr15	44673094	44673094	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aattccaggctcaaacttggAcagtgaacccagaattcaaa	7	10	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:44673094A>G	uc001zto.1	+	8	1291	c.992A>G	c.(991-993)GAC>GGC	p.D331G	CASC4_uc001ztp.2_Missense_Mutation_p.D331G|CASC4_uc001ztq.2_Missense_Mutation_p.D331G	NM_138423	NP_612432	Q6P4E1	CASC4_HUMAN	cancer susceptibility candidate 4 isoform a	331	Lumenal (Potential).					integral to membrane				ovary(1)	1		all_cancers(109;1.69e-13)|all_epithelial(112;3.94e-11)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.027)		all cancers(107;2.91e-20)|GBM - Glioblastoma multiforme(94;1.57e-06)|COAD - Colon adenocarcinoma(120;0.217)|Colorectal(105;0.237)		TCAAACTTGGACAGTGAACCC	0.398													16	41	---	---	---	---	PASS	G	44673094	G	G	44673094	3	3	51	1	0	0	0	0	1	0	0	0	2662	275	10	5	1022	5	CASC4	15	44673094	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	9397635	44673094	57858298	197	19363										
TRPM7	54822	broad.mit.edu	37	chr15	50904864	50904864	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tttagccattgattcttcacCatgttgccataaaaaacggg	7	9	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:50904864C>A	uc001zyt.3	-	16	2197	c.1933G>T	c.(1933-1935)GGT>TGT	p.G645C	TRPM7_uc010bew.1_Missense_Mutation_p.G645C|TRPM7_uc001zyu.2_Missense_Mutation_p.G203C	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	645	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		GATTCTTCACCATGTTGCCAT	0.413													24	86	---	---	---	---	PASS	A	50904864	A	A	50904864	3	1	51	1	0	0	0	0	1	0	0	0	16588	594	21	3	3760	3	TRPM7	15	50904864	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	6231770	50904864	51626528	198	19364										
SCG3	29106	broad.mit.edu	37	chr15	52005588	52005588	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	attgaatggttgaagaaacaTgacaaaaagggaaataaaga	10	2	0	5			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:52005588T>C	uc002abh.2	+	11	1674	c.1266T>C	c.(1264-1266)CAT>CAC	p.H422H	SCG3_uc010ufz.1_Silent_p.H190H	NM_013243	NP_037375	Q8WXD2	SCG3_HUMAN	secretogranin III isoform 1 precursor	422					platelet activation|platelet degranulation	extracellular region|stored secretory granule				ovary(1)	1				all cancers(107;0.00488)		TGAAGAAACATGACAAAAAGG	0.368													13	63	---	---	---	---	PASS	C	52005588	C	C	52005588	2	2	51	1	0	0	0	0	0	0	0	1	13892	1461	51	5		5	SCG3	15	52005588	Silent	SNP	T	TCGA-22-5489-01A-01D-1632-08	1100724	52005588	50525804	199	19365										
VPS13C	54832	broad.mit.edu	37	chr15	62315669	62315669	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttgtacattttttattacttGagttgccaatttttccacaa	4	7	0	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:62315669G>C	uc002agz.2	-	8	639	c.565C>G	c.(565-567)CAA>GAA	p.Q189E	VPS13C_uc002aha.2_Missense_Mutation_p.Q146E|VPS13C_uc002ahb.1_Missense_Mutation_p.Q189E|VPS13C_uc002ahc.1_Missense_Mutation_p.Q146E	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	189					protein localization					ovary(2)	2						TTTATTACTTGAGTTGCCAAT	0.234													4	17	---	---	---	---	PASS	C	62315669	C	C	62315669	3	2	51	1	0	0	0	0	1	0	0	0	17188	1299	45	2	11036	2	VPS13C	15	62315669	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	10310081	62315669	40215723	200	19366										
IQCH	64799	broad.mit.edu	37	chr15	67786640	67786640	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggtcctcatgacctttgctcGccatctcttcatcatccatc	5	16	4	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:67786640G>A	uc002aqo.1	+	20	2953	c.2906G>A	c.(2905-2907)CGC>CAC	p.R969H	IQCH_uc002aqq.1_Missense_Mutation_p.R626H|IQCH_uc002aqp.1_Silent_p.S609S|uc002aqr.1_Intron	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	969										skin(3)|ovary(1)	4				Colorectal(3;0.0856)		ACCTTTGCTCGCCATCTCTTC	0.403													5	22	---	---	---	---	PASS	A	67786640	A	A	67786640	3	1	51	1	0	0	0	0	1	0	0	0	7811	1087	38	1	3112	1	IQCH	15	67786640	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	5470971	67786640	34744752	201	19367										
NEO1	4756	broad.mit.edu	37	chr15	73581536	73581536	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctggctggaaggcgaggaatGagaccaaaaatgatgatgcc	14	7	0	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:73581536G>A	uc002avm.3	+	25	3841	c.3699G>A	c.(3697-3699)ATG>ATA	p.M1233I	NEO1_uc010ukx.1_Missense_Mutation_p.M1222I|NEO1_uc010uky.1_Missense_Mutation_p.M1233I|NEO1_uc010ukz.1_Missense_Mutation_p.M646I|NEO1_uc002avn.3_Missense_Mutation_p.M871I	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	1233	Cytoplasmic (Potential).				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						GGCGAGGAATGAGACCAAAAA	0.498													4	24	---	---	---	---	PASS	A	73581536	A	A	73581536	3	1	51	1	0	0	0	0	1	0	0	0	10336	1290	45	2	3797	2	NEO1	15	73581536	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	5794896	73581536	28949856	202	19368										
SNX33	257364	broad.mit.edu	37	chr15	75942733	75942733	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	atcagtcattccttccagatGgacccccccttttgctctga	6	15	3	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:75942733G>T	uc002bau.2	+	1	1386	c.1290G>T	c.(1288-1290)ATG>ATT	p.M430I	IMP3_uc002bat.2_5'Flank|SNX33_uc002bav.2_Intron	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	430	BAR.				cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1						CCTTCCAGATGGACCCCCCCT	0.567													28	65	---	---	---	---	PASS	T	75942733	T	T	75942733	3	4	51	1	0	0	0	0	1	0	0	0	14903	1348	47	3	1292	3	SNX33	15	75942733	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	2361197	75942733	26588659	203	19369										
CHRNB4	1143	broad.mit.edu	37	chr15	78921980	78921980	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cttgatgatgaagtcgtaagTcacgtccacgtagctggggt	13	8	1	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:78921980T>A	uc002bed.1	-	5	779	c.667A>T	c.(667-669)ACT>TCT	p.T223S	CHRNB4_uc002bee.1_Intron|CHRNB4_uc010blh.1_Missense_Mutation_p.T41S	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	223	Extracellular (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						AAGTCGTAAGTCACGTCCACG	0.552													15	65	---	---	---	---	PASS	A	78921980	A	A	78921980	3	1	51	1	0	0	0	0	1	0	0	0	3393	1667	58	5	837	5	CHRNB4	15	78921980	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	2979247	78921980	23609412	204	19370										
RASGRF1	5923	broad.mit.edu	37	chr15	79298629	79298629	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	taggagtgcaggaaggtgttGaggaagtcgatgctcaggaa	17	4	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr15:79298629G>C	uc002beq.2	-	15	2388	c.2013C>G	c.(2011-2013)CTC>CTG	p.L671L	RASGRF1_uc002bep.2_Silent_p.L658L|RASGRF1_uc010blm.1_Silent_p.L580L|RASGRF1_uc002ber.3_Silent_p.L658L|RASGRF1_uc010unh.1_Silent_p.L66L	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	671	N-terminal Ras-GEF.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						GGAAGGTGTTGAGGAAGTCGA	0.567													10	62	---	---	---	---	PASS	C	79298629	C	C	79298629	2	2	51	1	0	0	0	0	0	0	0	1	13072	1277	45	2		2	RASGRF1	15	79298629	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	376649	79298629	23232763	205	19371										
SRRM2	23524	broad.mit.edu	37	chr16	2813737	2813737	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cttcaccagaccacagatctGatacttcaagtccagaagtg	7	12	3	4			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr16:2813737G>C	uc002crk.2	+	11	3757	c.3208G>C	c.(3208-3210)GAT>CAT	p.D1070H	SRRM2_uc002crj.1_Missense_Mutation_p.D974H|SRRM2_uc002crl.1_Missense_Mutation_p.D1070H|SRRM2_uc010bsu.1_Missense_Mutation_p.D974H	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1070	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCACAGATCTGATACTTCAAG	0.463													18	81	---	---	---	---	PASS	C	2813737	C	C	2813737	3	2	51	1	0	0	0	0	1	0	0	0	15168	1290	45	2	3246	2	SRRM2	16	2813737	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08		2813737	87541016	206	19372										
RSL1D1	26156	broad.mit.edu	37	chr16	11933713	11933713	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgattcaggtttcttcactgTagtatcaccactttcaggtg	8	9	5	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr16:11933713T>C	uc002dbp.1	-	8	1058	c.985A>G	c.(985-987)ACA>GCA	p.T329A	RSL1D1_uc010buv.1_Missense_Mutation_p.T328A|RSL1D1_uc010uyw.1_Missense_Mutation_p.T109A|RSL1D1_uc010buw.2_RNA	NM_015659	NP_056474	O76021	RL1D1_HUMAN	ribosomal L1 domain containing 1	329					regulation of protein localization|translation	large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						TTCTTCACTGTAGTATCACCA	0.323													34	163	---	---	---	---	PASS	C	11933713	C	C	11933713	3	2	51	1	0	0	0	0	1	0	0	0	13700	1638	57	5	495	5	RSL1D1	16	11933713	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	9119976	11933713	78421040	207	19373										
MYH11	4629	broad.mit.edu	37	chr16	15841519	15841519	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcctctaggtgggccaggacGccagttcggaagaagatttt	13	9	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr16:15841519G>C	uc002ddy.2	-	19	2426	c.2319C>G	c.(2317-2319)GGC>GGG	p.G773G	MYH11_uc002ddv.2_Silent_p.G780G|MYH11_uc002ddw.2_Silent_p.G773G|MYH11_uc002ddx.2_Silent_p.G780G|MYH11_uc010bvg.2_Silent_p.G605G	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	773	Actin-binding (By similarity).|Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						GGGCCAGGACGCCAGTTCGGA	0.502			T	CBFB	AML								15	57	---	---	---	---	PASS	C	15841519	C	C	15841519	2	2	51	1	0	0	0	0	0	0	0	1	10031	1074	38	4		4	MYH11	16	15841519	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	3907806	15841519	74513234	208	19374										
RBBP6	5930	broad.mit.edu	37	chr16	24582460	24582460	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgttagtacaaagccatcaaAtatagtcaagtatcctgaga	7	7	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr16:24582460A>G	uc002dmh.2	+	18	5113	c.4073A>G	c.(4072-4074)AAT>AGT	p.N1358S	RBBP6_uc002dmi.2_Missense_Mutation_p.N1324S|RBBP6_uc010bxr.2_Missense_Mutation_p.N518S|RBBP6_uc002dmk.2_Missense_Mutation_p.N1191S	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1358					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		AAGCCATCAAATATAGTCAAG	0.358													16	33	---	---	---	---	PASS	G	24582460	G	G	24582460	3	3	51	1	0	0	0	0	1	0	0	0	13103	101	4	5	4197	5	RBBP6	16	24582460	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	8740941	24582460	65772293	209	19375										
NSMCE1	197370	broad.mit.edu	37	chr16	27238086	27238086	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttgcagatcttcaccgcgtcGgggtacgtctcccggatgta	12	12	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr16:27238086G>A	uc002doi.1	-	6	653	c.555C>T	c.(553-555)CCC>CCT	p.P185P	NSMCE1_uc002doj.1_RNA	NM_145080	NP_659547	Q8WV22	NSE1_HUMAN	non-SMC element 1 homolog	185					DNA recombination|DNA repair|intracellular signal transduction	nucleus	zinc ion binding				0						TCACCGCGTCGGGGTACGTCT	0.647													13	67	---	---	---	---	PASS	A	27238086	A	A	27238086	2	1	51	1	0	0	0	0	0	0	0	1	10675	1103	39	1		1	NSMCE1	16	27238086	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	2655626	27238086	63116667	210	19376										
TAOK2	9344	broad.mit.edu	37	chr16	29998067	29998067	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggaagaatcaggagcccctaGtcccagtccacaaaaacatg	9	12	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr16:29998067G>T	uc002dva.1	+	16	3257	c.2474G>T	c.(2473-2475)AGT>ATT	p.S825I	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Missense_Mutation_p.S832I|TAOK2_uc002dvd.1_Missense_Mutation_p.S652I	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	825	Glu-rich.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						GGAGCCCCTAGTCCCAGTCCA	0.562													11	55	---	---	---	---	PASS	T	29998067	T	T	29998067	3	4	51	1	0	0	0	0	1	0	0	0	15545	1029	36	3	2532	3	TAOK2	16	29998067	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	2759981	29998067	60356686	211	19377										
HIRIP3	8479	broad.mit.edu	37	chr16	30006746	30006746	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggtggctgcggcccgagtgaGctaagtacctccgccgcacg	15	14	0	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr16:30006746G>C	uc002dve.2	-	2	565	c.104C>G	c.(103-105)GCT>GGT	p.A35G	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|INO80E_uc002dvg.1_5'Flank|INO80E_uc002dvh.1_5'Flank|INO80E_uc002dvi.1_5'Flank|INO80E_uc002dvj.1_5'Flank|INO80E_uc002dvk.1_5'Flank|HIRIP3_uc002dvf.2_Missense_Mutation_p.A35G	NM_003609	NP_003600	Q9BW71	HIRP3_HUMAN	HIRA interacting protein 3	35					chromatin assembly or disassembly	nucleus	protein binding			central_nervous_system(1)	1						GCCCGAGTGAGCTAAGTACCT	0.662													12	36	---	---	---	---	PASS	C	30006746	C	C	30006746	3	2	51	1	0	0	0	0	1	0	0	0	7121	971	34	4	1590	4	HIRIP3	16	30006746	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	8679	30006746	60348007	212	19378										
SETD1A	9739	broad.mit.edu	37	chr16	30970167	30970167	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgcgcaggccttctcagaagGtgtaccgctatgatggagtc	13	10	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr16:30970167G>A	uc002ead.1	+	2	801	c.115G>A	c.(115-117)GTG>ATG	p.V39M	SETD1A_uc002eae.1_Missense_Mutation_p.V39M	NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	39					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						TTCTCAGAAGGTGTACCGCTA	0.607													8	85	---	---	---	---	PASS	A	30970167	A	A	30970167	3	1	51	1	0	0	0	0	1	0	0	0	14130	1261	44	3	117	3	SETD1A	16	30970167	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	963421	30970167	59384586	213	19379										
SLC12A3	6559	broad.mit.edu	37	chr16	56902279	56902279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctggattacggcccaggcagGcatcggtgagtgcccctctg	14	13	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr16:56902279G>T	uc010ccm.2	+	3	529	c.500G>T	c.(499-501)GGC>GTC	p.G167V	SLC12A3_uc002ekd.3_Missense_Mutation_p.G167V|SLC12A3_uc010ccn.2_Missense_Mutation_p.G166V	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	167	Helical; (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	GCCCAGGCAGGCATCGGTGAG	0.607													5	5	---	---	---	---	PASS	T	56902279	T	T	56902279	3	4	51	1	0	0	0	0	1	0	0	0	14384	1203	42	3	510	3	SLC12A3	16	56902279	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	25932112	56902279	33452474	214	19380										
KIAA0513	9764	broad.mit.edu	37	chr16	85100812	85100812	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggggacggtgcatcagagagTgagaccactgagtctgcgga	17	8	2	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr16:85100812T>G	uc002fiu.2	+	2	355	c.135T>G	c.(133-135)AGT>AGG	p.S45R	KIAA0513_uc002fis.3_Missense_Mutation_p.S45R|KIAA0513_uc010voj.1_Missense_Mutation_p.S45R|KIAA0513_uc002fit.2_Missense_Mutation_p.S45R	NM_014732	NP_055547	O60268	K0513_HUMAN	hypothetical protein LOC9764	45						cytoplasm				breast(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.234)		CATCAGAGAGTGAGACCACTG	0.642													9	14	---	---	---	---	PASS	G	85100812	G	G	85100812	3	3	51	1	0	0	0	0	1	0	0	0	8181	1693	59	5	137	5	KIAA0513	16	85100812	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	28198533	85100812	5253941	215	19381										
YWHAE	7531	broad.mit.edu	37	chr17	1265201	1265201	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tagtatagaacctacattttAtaatagaaaaccttggactc	5	7	0	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr17:1265201A>G	uc002fsj.2	-	3	518	c.366T>C	c.(364-366)TAT>TAC	p.Y122Y	YWHAE_uc002fsk.2_Silent_p.Y100Y|YWHAE_uc010vqh.1_Intron|YWHAE_uc010vqi.1_Intron	NM_006761	NP_006752	P62258	1433E_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	122					apoptosis|G2/M transition of mitotic cell cycle|induction of apoptosis by extracellular signals|interspecies interaction between organisms|intracellular signal transduction|nerve growth factor receptor signaling pathway	cytosol|melanosome	histone deacetylase binding|phosphoserine binding			lung(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(18;0.203)	UCEC - Uterine corpus endometrioid carcinoma (25;0.0887)		CCTACATTTTATAATAGAAAA	0.353													9	23	---	---	---	---	PASS	G	1265201	G	G	1265201	2	3	51	1	0	0	0	0	0	0	0	1	17499	456	16	5		5	YWHAE	17	1265201	Silent	SNP	A	TCGA-22-5489-01A-01D-1632-08		1265201	79930009	216	19382										
DHX33	56919	broad.mit.edu	37	chr17	5357289	5357289	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ccgctgcactgctaacacctCaagaccactgtctggatgga	9	14	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr17:5357289C>G	uc002gca.2	-	7	1161	c.1159G>C	c.(1159-1161)GAG>CAG	p.E387Q	DHX33_uc002gbz.2_Missense_Mutation_p.E158Q|DHX33_uc002gcb.2_Missense_Mutation_p.E214Q|DHX33_uc010clf.2_Missense_Mutation_p.E163Q	NM_020162	NP_064547	Q9H6R0	DHX33_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 33	387	Helicase C-terminal.					nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|pancreas(1)	2						GCTAACACCTCAAGACCACTG	0.532													6	23	---	---	---	---	PASS	G	5357289	G	G	5357289	3	3	51	1	0	0	0	0	1	0	0	0	4506	835	29	2	988	2	DHX33	17	5357289	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	4092088	5357289	75837921	217	19383										
TP53	7157	broad.mit.edu	37	chr17	7577022	7577022	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttgtcctgcttgcttacctcGcttagtgctccctgggggca	11	13	0	0	rs121913344		TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr17:7577022G>A	uc002gim.2	-	8	1110	c.916C>T	c.(916-918)CGA>TGA	p.R306*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.R306*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R174*|TP53_uc010cng.1_Nonsense_Mutation_p.R174*|TP53_uc002gii.1_Nonsense_Mutation_p.R174*|TP53_uc010cnh.1_Nonsense_Mutation_p.R306*|TP53_uc010cni.1_Nonsense_Mutation_p.R306*|TP53_uc002gij.2_Nonsense_Mutation_p.R306*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	306	Bipartite nuclear localization signal.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.		R -> Q (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R306*(99)|p.0?(7)|p.?(3)|p.R306R(2)|p.R306fs*39(2)|p.K305fs*1(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)		TGCTTACCTCGCTTAGTGCTC	0.562	R306*(MFE296_ENDOMETRIUM)|R306*(HCC1937_BREAST)|R306*(MOLT4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R306*(RCM1_LARGE_INTESTINE)|R306*(JURLMK1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	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)			14	51	---	---	---	---	PASS	A	7577022	A	A	7577022	4	1	51	1	0	0	0	0	0	1	0	0	16378	1095	38	1	370	1	TP53	17	7577022	Nonsense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	2219733	7577022	73618188	218	19384										
MYH8	4626	broad.mit.edu	37	chr17	10318686	10318686	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gggattggcgctgatgatttGatcttccagagtcccctgca	12	10	1	4			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr17:10318686G>T	uc002gmm.2	-	8	759	c.664C>A	c.(664-666)CAA>AAA	p.Q222K	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	222	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						CTGATGATTTGATCTTCCAGA	0.512									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				17	66	---	---	---	---	PASS	T	10318686	T	T	10318686	3	4	51	1	0	0	0	0	1	0	0	0	10041	1299	45	2	5281	2	MYH8	17	10318686	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	2741664	10318686	70876524	219	19385										
ANKRD13B	124930	broad.mit.edu	37	chr17	27934886	27934886	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgggcagggagaatcgcagcGgctggacaggtgggcagccc	19	10	0	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr17:27934886G>A	uc002hei.2	+	2	354	c.241G>A	c.(241-243)GGC>AGC	p.G81S	ANKRD13B_uc002heh.2_5'UTR|ANKRD13B_uc002hej.2_RNA	NM_152345	NP_689558	Q86YJ7	AN13B_HUMAN	ankyrin repeat domain 13B	81	ANK 2.										0						GAATCGCAGCGGCTGGACAGG	0.692													7	29	---	---	---	---	PASS	A	27934886	A	A	27934886	3	1	51	1	0	0	0	0	1	0	0	0	642	1116	39	1	247	1	ANKRD13B	17	27934886	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	17616200	27934886	53260324	220	19386										
ITGB3	3690	broad.mit.edu	37	chr17	45368430	45368430	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	atccctggcctcaagtcttgTatgggactcaagattggaga	11	9	3	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr17:45368430T>C	uc002ilj.2	+	9	1256	c.1236T>C	c.(1234-1236)TGT>TGC	p.C412C	ITGB3_uc002ili.1_Silent_p.C412C|ITGB3_uc010wkr.1_RNA	NM_000212	NP_000203	P05106	ITB3_HUMAN	integrin beta chain, beta 3 precursor	412	Extracellular (Potential).				activation of protein kinase activity|angiogenesis involved in wound healing|axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|platelet activation|platelet degranulation|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|regulation of bone resorption|smooth muscle cell migration|tube development	alphav-beta3 integrin-vitronectin complex|integrin complex|platelet alpha granule membrane	cell adhesion molecule binding|identical protein binding|platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			central_nervous_system(5)|large_intestine(1)	6					Abciximab(DB00054)|Tirofiban(DB00775)	TCAAGTCTTGTATGGGACTCA	0.537													11	81	---	---	---	---	PASS	C	45368430	C	C	45368430	2	2	51	1	0	0	0	0	0	0	0	1	7895	1644	57	5		5	ITGB3	17	45368430	Silent	SNP	T	TCGA-22-5489-01A-01D-1632-08	17433544	45368430	35826780	221	19387										
KIF2B	84643	broad.mit.edu	37	chr17	51901477	51901477	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	acattttttgagatttatggGggcaaggtgtatgatttgtt	12	2	0	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr17:51901477G>A	uc002iua.2	+	1	1239	c.1083G>A	c.(1081-1083)GGG>GGA	p.G361G	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	361	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						AGATTTATGGGGGCAAGGTGT	0.463													9	72	---	---	---	---	PASS	A	51901477	A	A	51901477	2	1	51	1	0	0	0	0	0	0	0	1	8298	1219	43	3		3	KIF2B	17	51901477	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	6533047	51901477	29293733	222	19388										
USP32	84669	broad.mit.edu	37	chr17	58262956	58262956	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cggagacagctgtccaggttGatgggctcggcttgcgctcg	16	11	0	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr17:58262956G>C	uc002iyo.1	-	30	3985	c.3699C>G	c.(3697-3699)ATC>ATG	p.I1233M	USP32_uc002iyn.1_Missense_Mutation_p.I903M	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	1233					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			TGTCCAGGTTGATGGGCTCGG	0.542													14	42	---	---	---	---	PASS	C	58262956	C	C	58262956	3	2	51	1	0	0	0	0	1	0	0	0	17060	1280	45	2	1135	2	USP32	17	58262956	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	6361479	58262956	22932254	223	19389										
TTYH2	94015	broad.mit.edu	37	chr17	72218788	72218788	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	acggccgtggtggccgggctCatctgctggtgagtgtccct	16	12	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr17:72218788C>T	uc002jkc.2	+	2	325	c.294C>T	c.(292-294)CTC>CTT	p.L98L	TTYH2_uc010wqw.1_Silent_p.L77L	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	98	Helical; Name=2; (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						TGGCCGGGCTCATCTGCTGGT	0.632													9	29	---	---	---	---	PASS	T	72218788	T	T	72218788	2	4	51	1	0	0	0	0	0	0	0	1	16737	813	29	2		2	TTYH2	17	72218788	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	13955832	72218788	8976422	224	19390										
MEX3C	51320	broad.mit.edu	37	chr18	48702952	48702952	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gaagaggagtaactattggtAccattagaaaaagcagggat	12	4	0	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr18:48702952A>G	uc002lfc.3	-	2	1749	c.1749T>C	c.(1747-1749)GGT>GGC	p.G583G		NM_016626	NP_057710	Q5U5Q3	MEX3C_HUMAN	ring finger and KH domain containing 2	583						cytoplasm|nucleus	RNA binding|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		Colorectal(6;0.003)|all_epithelial(6;0.0473)		Colorectal(16;0.0175)|READ - Rectum adenocarcinoma(32;0.15)		AACTATTGGTACCATTAGAAA	0.463													7	55	---	---	---	---	PASS	G	48702952	G	G	48702952	2	3	51	1	0	0	0	0	0	0	0	1	9511	378	14	5		5	MEX3C	18	48702952	Silent	SNP	A	TCGA-22-5489-01A-01D-1632-08		48702952	29374296	225	19391										
DCC	1630	broad.mit.edu	37	chr18	49867237	49867237	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttccttgttcagcgcgcatcTtcaagtaaccggtaagtggc	10	11	3	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr18:49867237T>G	uc002lfe.1	+	1	667	c.80T>G	c.(79-81)CTT>CGT	p.L27R		NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	27	Extracellular (Potential).|Ig-like C2-type 1.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AGCGCGCATCTTCAAGTAACC	0.493													18	77	---	---	---	---	PASS	G	49867237	G	G	49867237	3	3	51	1	0	0	0	0	1	0	0	0	4282	1609	56	5	82	5	DCC	18	49867237	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	1164285	49867237	28210011	226	19392										
DCC	1630	broad.mit.edu	37	chr18	50985708	50985708	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tggagatgaaaaatattgaaAagccatctggcactgaccct	9	8	1	4			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr18:50985708A>G	uc002lfe.1	+	24	4086	c.3499A>G	c.(3499-3501)AAG>GAG	p.K1167E	DCC_uc010dpf.1_Missense_Mutation_p.K802E	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1167	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AAATATTGAAAAGCCATCTGG	0.532													25	72	---	---	---	---	PASS	G	50985708	G	G	50985708	3	3	51	1	0	0	0	0	1	0	0	0	4282	15	1	5	3593	5	DCC	18	50985708	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	1118471	50985708	27091540	227	19393										
ALPK2	115701	broad.mit.edu	37	chr18	56247322	56247322	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gcactgtcttgtggcaacatCtgtcttgtttttcataaata	7	8	4	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr18:56247322C>A	uc002lhj.3	-	4	900	c.686G>T	c.(685-687)AGA>ATA	p.R229I		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	229							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						GTGGCAACATCTGTCTTGTTT	0.413													49	158	---	---	---	---	PASS	A	56247322	A	A	56247322	3	1	51	1	0	0	0	0	1	0	0	0	545	913	32	2	5866	2	ALPK2	18	56247322	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	5261614	56247322	21829926	228	19394										
CDH19	28513	broad.mit.edu	37	chr18	64178906	64178906	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	attcatctctatccactgcaCtgatagtctgaattacctaa	4	11	3	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr18:64178906C>G	uc002lkc.1	-	10	1613	c.1475G>C	c.(1474-1476)AGT>ACT	p.S492T	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Intron	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	492	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				ATCCACTGCACTGATAGTCTG	0.313													14	95	---	---	---	---	PASS	G	64178906	G	G	64178906	3	3	51	1	0	0	0	0	1	0	0	0	3104	565	20	4	855	4	CDH19	18	64178906	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	7931584	64178906	13898342	229	19395										
GALR1	2587	broad.mit.edu	37	chr18	74980688	74980688	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ccgcccactgcctggcgtacAgcaattcctccgtgaatcct	8	17	0	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr18:74980688A>T	uc002lms.3	+	3	1377	c.880A>T	c.(880-882)AGC>TGC	p.S294C		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	294	Cytoplasmic (Potential).				digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		CCTGGCGTACAGCAATTCCTC	0.488													22	75	---	---	---	---	PASS	T	74980688	T	T	74980688	3	4	51	1	0	0	0	0	1	0	0	0	6227	188	7	5	890	5	GALR1	18	74980688	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	10801782	74980688	3096560	230	19396										
TMEM146	257062	broad.mit.edu	37	chr19	5778655	5778655	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cagagcccccgggacgccacCgcactcctcacggaggcagg	13	18	1	1	rs17852929		TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:5778655C>A	uc002mda.2	+	22	2426	c.2365C>A	c.(2365-2367)CGC>AGC	p.R789S		NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	789	Cytoplasmic (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						GGGACGCCACCGCACTCCTCA	0.582													16	36	---	---	---	---	PASS	A	5778655	A	A	5778655	3	1	51	1	0	0	0	0	1	0	0	0	16057	652	23	1	2451	1	TMEM146	19	5778655	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08		5778655	53350328	231	19397										
FBN3	84467	broad.mit.edu	37	chr19	8130934	8130934	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtaggttccaggccccggccGcctccgccccagctgcaggg	14	18	0	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:8130934G>A	uc002mjf.2	-	63	8320	c.8299C>T	c.(8299-8301)CGG>TGG	p.R2767W	FBN3_uc002mje.2_Missense_Mutation_p.R563W	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2767						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GGCCCCGGCCGCCTCCGCCCC	0.682													5	80	---	---	---	---	PASS	A	8130934	A	A	8130934	3	1	51	1	0	0	0	0	1	0	0	0	5704	1086	38	1	134	1	FBN3	19	8130934	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	2352279	8130934	50998049	232	19398										
FBN3	84467	broad.mit.edu	37	chr19	8203327	8203327	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggaggacacagctcagggacCgggccagctgcccagcacct	14	15	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:8203327C>T	uc002mjf.2	-	8	1008	c.987G>A	c.(985-987)CCG>CCA	p.P329P		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	329	TB 2.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GCTCAGGGACCGGGCCAGCTG	0.682													4	24	---	---	---	---	PASS	T	8203327	T	T	8203327	2	4	51	1	0	0	0	0	0	0	0	1	5704	639	23	1		1	FBN3	19	8203327	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	72393	8203327	50925656	233	19399										
MUC16	94025	broad.mit.edu	37	chr19	9074309	9074309	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtcactcctgaagattctgtCattatcagagaggtggaggg	13	7	4	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:9074309C>A	uc002mkp.2	-	3	13341	c.13137G>T	c.(13135-13137)ATG>ATT	p.M4379I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4381	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AAGATTCTGTCATTATCAGAG	0.468													4	79	---	---	---	---	PASS	A	9074309	A	A	9074309	3	1	51	1	0	0	0	0	1	0	0	0	9973	826	29	2	30714	2	MUC16	19	9074309	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	870982	9074309	50054674	234	19400										
PLVAP	83483	broad.mit.edu	37	chr19	17476301	17476301	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggcctgagcctccttctccaCcttctgtttcgcctcctgac	7	18	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:17476301C>T	uc002ngk.1	-	3	1023	c.973G>A	c.(973-975)GTG>ATG	p.V325M		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	325	Potential.|Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						TCCTTCTCCACCTTCTGTTTC	0.657													9	45	---	---	---	---	PASS	T	17476301	T	T	17476301	3	4	51	1	0	0	0	0	1	0	0	0	12116	507	18	3	371	3	PLVAP	19	17476301	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	8401992	17476301	41652682	235	19401										
B3GNT3	10331	broad.mit.edu	37	chr19	17918984	17918984	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ccctagcaactatgtgcgccGcgagctgctgcggcgcacgt	13	15	0	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:17918984G>A	uc002nhk.1	+	2	453	c.368G>A	c.(367-369)CGC>CAC	p.R123H	B3GNT3_uc002nhl.1_Missense_Mutation_p.R123H|B3GNT3_uc010ebd.1_Missense_Mutation_p.R123H|B3GNT3_uc010ebe.1_Missense_Mutation_p.R123H	NM_014256	NP_055071	Q9Y2A9	B3GN3_HUMAN	UDP-GlcNAc:betaGal	123	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to plasma membrane	galactosyltransferase activity			upper_aerodigestive_tract(1)	1						TATGTGCGCCGCGAGCTGCTG	0.682													6	20	---	---	---	---	PASS	A	17918984	A	A	17918984	3	1	51	1	0	0	0	0	1	0	0	0	1258	1087	38	1	370	1	B3GNT3	19	17918984	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	442683	17918984	41209999	236	19402										
GMIP	51291	broad.mit.edu	37	chr19	19746283	19746283	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctcgcggcacttggctgggcCccgcagtcgccgcagctggt	15	16	0	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:19746283C>A	uc002nnd.2	-	15	1618	c.1501G>T	c.(1501-1503)GGC>TGC	p.G501C	GMIP_uc010xrb.1_Missense_Mutation_p.G475C|GMIP_uc010xrc.1_Missense_Mutation_p.G472C	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	501	Phorbol-ester/DAG-type.				negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						TTGGCTGGGCCCCGCAGTCGC	0.647													10	40	---	---	---	---	PASS	A	19746283	A	A	19746283	3	1	51	1	0	0	0	0	1	0	0	0	6491	623	22	3	1439	3	GMIP	19	19746283	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	1827299	19746283	39382700	237	19403										
ZNF676	163223	broad.mit.edu	37	chr19	22363818	22363818	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	taaggattgaggatcgattaAaagctttgccacattcttca	8	7	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:22363818A>T	uc002nqs.1	-	3	1019	c.701T>A	c.(700-702)TTT>TAT	p.F234Y		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	234	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				GGATCGATTAAAAGCTTTGCC	0.368													20	118	---	---	---	---	PASS	T	22363818	T	T	22363818	3	4	51	1	0	0	0	0	1	0	0	0	18080	14	1	5	1069	5	ZNF676	19	22363818	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	2617535	22363818	36765165	238	19404										
ZNF235	9310	broad.mit.edu	37	chr19	44792469	44792469	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caactgtcacatctatagggCttctctcctgtgtgaatagg	9	10	3	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:44792469C>G	uc002oza.3	-	5	1222	c.1119G>C	c.(1117-1119)AAG>AAC	p.K373N	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF235_uc002ozb.3_Missense_Mutation_p.K369N|ZNF235_uc010xwx.1_Missense_Mutation_p.K287N	NM_004234	NP_004225	Q14590	ZN235_HUMAN	zinc finger protein 93 homolog	373					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)	3		Prostate(69;0.0352)|all_neural(266;0.116)				ATCTATAGGGCTTCTCTCCTG	0.448													13	48	---	---	---	---	PASS	G	44792469	G	G	44792469	3	3	51	1	0	0	0	0	1	0	0	0	17785	796	28	4	1101	4	ZNF235	19	44792469	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	22428651	44792469	14336514	239	19405										
SLC6A16	28968	broad.mit.edu	37	chr19	49813646	49813646	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cccacaccaccaatccagggGgcaatgatcttccatacacc	6	17	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:49813646G>A	uc002pmz.2	-	3	771	c.537C>T	c.(535-537)GCC>GCT	p.A179A	SLC6A16_uc002pna.2_Silent_p.A179A|hsa-mir-4324|MI0015854_5'Flank	NM_014037	NP_054756	Q9GZN6	S6A16_HUMAN	solute carrier family 6, member 16	179	Helical; Name=2; (Potential).					integral to membrane|intracellular	neurotransmitter:sodium symporter activity			skin(2)|ovary(1)|kidney(1)	4		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00099)|GBM - Glioblastoma multiforme(486;0.0336)		CAATCCAGGGGGCAATGATCT	0.577													4	21	---	---	---	---	PASS	A	49813646	A	A	49813646	2	1	51	1	0	0	0	0	0	0	0	1	14679	1219	43	3		3	SLC6A16	19	49813646	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	5021177	49813646	9315337	240	19406										
KLK2	3817	broad.mit.edu	37	chr19	51379830	51379830	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ccacacccgctctacaatatGagccttctgaagcatcaaag	6	14	3	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:51379830G>C	uc002ptv.2	+	3	350	c.309G>C	c.(307-309)ATG>ATC	p.M103I	KLK2_uc010eog.2_Missense_Mutation_p.M1I|KLK2_uc010yck.1_Missense_Mutation_p.M103I|KLK2_uc002ptu.2_Missense_Mutation_p.M103I|KLK2_uc002ptt.2_RNA|KLK2_uc010ycl.1_Missense_Mutation_p.M86I|KLK2_uc010ycm.1_Missense_Mutation_p.M1I|KLK2_uc010eoh.2_Missense_Mutation_p.M1I	NM_005551	NP_005542	P20151	KLK2_HUMAN	kallikrein 2, prostatic isoform 1	103	Peptidase S1.				proteolysis		serine-type endopeptidase activity			ovary(1)|skin(1)	2		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00758)|GBM - Glioblastoma multiforme(134;0.00871)		TCTACAATATGAGCCTTCTGA	0.552			T	ETV4	prostate								14	34	---	---	---	---	PASS	C	51379830	C	C	51379830	3	2	51	1	0	0	0	0	1	0	0	0	8404	1290	45	2	319	2	KLK2	19	51379830	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	1566184	51379830	7749153	241	19407										
SIGLEC10	89790	broad.mit.edu	37	chr19	51920564	51920564	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agcacccttggttgtctcagTcactgctttgaaccagtagc	9	12	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:51920564T>A	uc002pwo.2	-	2	809	c.193A>T	c.(193-195)ACT>TCT	p.T65S	SIGLEC10_uc002pwp.2_Missense_Mutation_p.T65S|SIGLEC10_uc002pwq.2_Missense_Mutation_p.T65S|SIGLEC10_uc002pwr.2_Missense_Mutation_p.T65S|SIGLEC10_uc010ycy.1_Missense_Mutation_p.T65S|SIGLEC10_uc010ycz.1_Missense_Mutation_p.T65S|SIGLEC10_uc010eow.2_Intron|SIGLEC10_uc002pws.1_Missense_Mutation_p.T49S	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	65	Extracellular (Potential).|Ig-like V-type.				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GTTGTCTCAGTCACTGCTTTG	0.602													12	43	---	---	---	---	PASS	A	51920564	A	A	51920564	3	1	51	1	0	0	0	0	1	0	0	0	14306	1667	58	5	1940	5	SIGLEC10	19	51920564	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	540734	51920564	7208419	242	19408										
SIGLEC8	27181	broad.mit.edu	37	chr19	51958760	51958760	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caggtgaattccccttcatcCctcacgtgcactcgaggcag	9	15	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:51958760C>T	uc002pwt.2	-	4	1030	c.963G>A	c.(961-963)AGG>AGA	p.R321R	SIGLEC8_uc010yda.1_Silent_p.R212R|SIGLEC8_uc002pwu.2_RNA|SIGLEC8_uc010eox.2_Silent_p.R228R	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	321	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		CCCCTTCATCCCTCACGTGCA	0.642													9	44	---	---	---	---	PASS	T	51958760	T	T	51958760	2	4	51	1	0	0	0	0	0	0	0	1	14314	622	22	3		3	SIGLEC8	19	51958760	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	38196	51958760	7170223	243	19409										
ZNF534	147658	broad.mit.edu	37	chr19	52941413	52941413	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caaactttgcacaacatcaaCgaatccatactggagagaag	7	10	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:52941413C>G	uc002pzk.2	+	4	800	c.739C>G	c.(739-741)CGA>GGA	p.R247G	ZNF534_uc002pzj.1_Intron|ZNF534_uc010epo.1_Intron|ZNF534_uc002pzl.2_Missense_Mutation_p.R234G	NM_001143939	NP_001137411	Q76KX8	ZN534_HUMAN	zinc finger protein 534 isoform 2	247	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACAACATCAACGAATCCATAC	0.373													13	49	---	---	---	---	PASS	G	52941413	G	G	52941413	3	3	51	1	0	0	0	0	1	0	0	0	17970	528	19	4	753	4	ZNF534	19	52941413	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	982653	52941413	6187570	244	19410										
ZNF415	55786	broad.mit.edu	37	chr19	53612105	53612105	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ttctccaatgccttgcaaggCttgaagtctgactgaagact	9	10	2	4			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:53612105C>A	uc002qax.2	-	7	1686	c.1337G>T	c.(1336-1338)AGC>ATC	p.S446I	ZNF415_uc002qat.2_Missense_Mutation_p.S410I|ZNF415_uc002qaw.2_Missense_Mutation_p.S398I|ZNF415_uc010yds.1_Missense_Mutation_p.S398I|ZNF415_uc010ydt.1_Missense_Mutation_p.S398I|ZNF415_uc002qau.2_Missense_Mutation_p.S385I|ZNF415_uc002qav.2_Missense_Mutation_p.S410I|ZNF415_uc002qba.2_Missense_Mutation_p.S168I|ZNF415_uc002qay.2_Missense_Mutation_p.S385I|ZNF415_uc002qaz.2_Missense_Mutation_p.S446I	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	446	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		CCTTGCAAGGCTTGAAGTCTG	0.418													16	53	---	---	---	---	PASS	A	53612105	A	A	53612105	3	1	51	1	0	0	0	0	1	0	0	0	17889	797	28	3	478	3	ZNF415	19	53612105	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	670692	53612105	5516878	245	19411										
LILRA2	11027	broad.mit.edu	37	chr19	55086951	55086951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ccacgggggccagtacagatGctacagtgcacacaacctct	10	14	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:55086951G>T	uc002qgg.3	+	5	973	c.884G>T	c.(883-885)TGC>TTC	p.C295F	LILRA2_uc010ern.2_Missense_Mutation_p.C295F|LILRA2_uc002qgf.2_Missense_Mutation_p.C295F|LILRA2_uc010yfe.1_Missense_Mutation_p.C295F|LILRA2_uc010yff.1_Missense_Mutation_p.C283F|LILRA2_uc010ero.2_Missense_Mutation_p.C283F|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	295	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)		CAGTACAGATGCTACAGTGCA	0.667													26	49	---	---	---	---	PASS	T	55086951	T	T	55086951	3	4	51	1	0	0	0	0	1	0	0	0	8785	1319	46	3	902	3	LILRA2	19	55086951	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	1474846	55086951	4042032	246	19412										
RPL28	6158	broad.mit.edu	37	chr19	55899328	55899328	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gcctgccacctcctatgtgcGgaccaccatcaacaagaatg	8	15	1	1	rs34259396	byFrequency	TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr19:55899328G>T	uc002qkv.2	+	4	278	c.236G>T	c.(235-237)CGG>CTG	p.R79L	RPL28_uc010yga.1_Missense_Mutation_p.R79L|RPL28_uc010ygb.1_Missense_Mutation_p.R79L|RPL28_uc002qkw.1_3'UTR	NM_000991	NP_000982	P46779	RL28_HUMAN	ribosomal protein L28 isoform 2	79					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0	Breast(117;0.191)	Renal(1328;0.245)	LUSC - Lung squamous cell carcinoma(43;0.13)|BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0443)		TCCTATGTGCGGACCACCATC	0.612													51	83	---	---	---	---	PASS	T	55899328	T	T	55899328	3	4	51	1	0	0	0	0	1	0	0	0	13577	1116	39	1	314	1	RPL28	19	55899328	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	812377	55899328	3229655	247	19413										
C20orf46	55321	broad.mit.edu	37	chr20	1161626	1161626	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggtcttcctggagcccttgcCggggacgaaggtcctccggc	15	14	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr20:1161626C>T	uc010gaa.1	-	3	856	c.637G>A	c.(637-639)GGC>AGC	p.G213S	C20orf46_uc002weq.1_Missense_Mutation_p.G213S	NM_018354	NP_060824	Q9NUR3	CT046_HUMAN	hypothetical protein LOC55321	213						integral to membrane	protein binding			ovary(1)	1						GAGCCCTTGCCGGGGACGAAG	0.637													12	53	---	---	---	---	PASS	T	1161626	T	T	1161626	3	4	51	1	0	0	0	0	1	0	0	0	2113	652	23	1	137	1	C20orf46	20	1161626	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08		1161626	61863894	248	19414										
ATRN	8455	broad.mit.edu	37	chr20	3515969	3515969	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tacaaaacgaagtgcacgtgGctcattgaaggacagtaagt	11	7	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr20:3515969G>T	uc002wim.2	+	2	570	c.480G>T	c.(478-480)TGG>TGT	p.W160C	ATRN_uc002wil.2_Missense_Mutation_p.W160C	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	160	Extracellular (Potential).|CUB.				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						AGTGCACGTGGCTCATTGAAG	0.333													7	26	---	---	---	---	PASS	T	3515969	T	T	3515969	3	4	51	1	0	0	0	0	1	0	0	0	1206	1212	42	3	486	3	ATRN	20	3515969	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	2354343	3515969	59509551	249	19415										
PRNP	5621	broad.mit.edu	37	chr20	4680300	4680300	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	catacatttcggcagtgactAtgaggaccgttactatcgtg	10	9	0	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr20:4680300A>G	uc002wku.2	+	2	797	c.434A>G	c.(433-435)TAT>TGT	p.Y145C	PRNP_uc002wkv.2_Missense_Mutation_p.Y145C|PRNP_uc002wkw.2_Missense_Mutation_p.Y145C|PRNP_uc002wkx.2_Missense_Mutation_p.Y145C|PRNP_uc002wkt.1_Missense_Mutation_p.Y115C|PRNP_uc002wky.2_Missense_Mutation_p.Y145C|PRNP_uc010gbe.1_Missense_Mutation_p.Y145C	NM_001080122	NP_001073591	P04156	PRIO_HUMAN	prion protein preproprotein	145	Interaction with GRB2, ERI3 and SYN1 (By similarity).				axon guidance|cell cycle arrest|cellular copper ion homeostasis|metabolic process|negative regulation of activated T cell proliferation|negative regulation of calcineurin-NFAT signaling pathway|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-2 production|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell receptor signaling pathway|protein homooligomerization|response to oxidative stress	anchored to membrane|endoplasmic reticulum|extrinsic to membrane|Golgi apparatus|membrane raft|nucleus|plasma membrane	copper ion binding|identical protein binding|microtubule binding			central_nervous_system(1)	1					Tetracycline(DB00759)	GGCAGTGACTATGAGGACCGT	0.552													7	27	---	---	---	---	PASS	G	4680300	G	G	4680300	3	3	51	1	0	0	0	0	1	0	0	0	12544	449	16	5	436	5	PRNP	20	4680300	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	1164331	4680300	58345220	250	19416										
TMX4	56255	broad.mit.edu	37	chr20	7963097	7963097	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	catccacaccagcagccaagTtgtcctcctcctcttcttcc	4	19	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr20:7963097T>A	uc002wmx.1	-	8	984	c.851A>T	c.(850-852)AAC>ATC	p.N284I		NM_021156	NP_066979	Q9H1E5	TMX4_HUMAN	thioredoxin-related transmembrane protein 4	284	Glu-rich.				cell redox homeostasis|electron transport chain|transport	integral to membrane					0						AGCAGCCAAGTTGtcctcctc	0.313													16	64	---	---	---	---	PASS	A	7963097	A	A	7963097	3	1	51	1	0	0	0	0	1	0	0	0	16266	1725	60	5	202	5	TMX4	20	7963097	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	3282797	7963097	55062423	251	19417										
C20orf26	26074	broad.mit.edu	37	chr20	20232288	20232288	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgatgtcactgtgctcctggGttaatgtcgtggtgggtaga	15	6	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr20:20232288G>A	uc002wru.2	+	20	2285	c.2209G>A	c.(2209-2211)GTT>ATT	p.V737I	C20orf26_uc010zse.1_Missense_Mutation_p.V717I|C20orf26_uc002wrw.2_RNA|C20orf26_uc002wrv.2_Missense_Mutation_p.V93I	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	737										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GTGCTCCTGGGTTAATGTCGT	0.522													25	109	---	---	---	---	PASS	A	20232288	A	A	20232288	3	1	51	1	0	0	0	0	1	0	0	0	2106	1261	44	3	2315	3	C20orf26	20	20232288	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	12269191	20232288	42793232	252	19418										
GGTLC1	92086	broad.mit.edu	37	chr20	23966372	23966372	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gtgcagccggggctcctccaCggcccacttcacgtcatagc	11	17	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr20:23966372C>T	uc002wts.2	-	5	596	c.463G>A	c.(463-465)GTG>ATG	p.V155M	GGTLC1_uc002wtu.2_Missense_Mutation_p.V155M	NM_178312	NP_842564	Q9BX51	GGTL1_HUMAN	gamma-glutamyltransferase light chain 1	155							gamma-glutamyltransferase activity			ovary(1)	1						GGCTCCTCCACGGCCCACTTC	0.612													14	84	---	---	---	---	PASS	T	23966372	T	T	23966372	3	4	51	1	0	0	0	0	1	0	0	0	6365	536	19	1	222	1	GGTLC1	20	23966372	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	3734084	23966372	39059148	253	19419										
STK4	6789	broad.mit.edu	37	chr20	43623803	43623803	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cagaagtgattcaggaaattGgatacaactgtgtagcagac	11	6	1	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr20:43623803G>T	uc002xnb.2	+	6	688	c.598G>T	c.(598-600)GGA>TGA	p.G200*	STK4_uc010ggx.2_Nonsense_Mutation_p.G200*|STK4_uc010ggy.2_Nonsense_Mutation_p.G145*|STK4_uc010ggw.1_Nonsense_Mutation_p.G200*	NM_006282	NP_006273	Q13043	STK4_HUMAN	serine/threonine kinase 4	200	Protein kinase.				apoptosis|cell morphogenesis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of apoptosis|protein autophosphorylation	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein homodimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity|transcription factor binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				TCAGGAAATTGGATACAACTG	0.453													14	68	---	---	---	---	PASS	T	43623803	T	T	43623803	4	4	51	1	0	0	0	0	0	1	0	0	15305	1349	47	3	620	3	STK4	20	43623803	Nonsense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	19657431	43623803	19401717	254	19420										
APCDD1L	164284	broad.mit.edu	37	chr20	57042222	57042222	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tagtgccgcctctccgccggGtcggtgtggatgtcccccag	14	15	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr20:57042222G>T	uc002xze.1	-	3	867	c.681C>A	c.(679-681)GAC>GAA	p.D227E	APCDD1L_uc010zzp.1_Missense_Mutation_p.D238E	NM_153360	NP_699191	Q8NCL9	APCDL_HUMAN	adenomatosis polyposis coli down-regulated	227						integral to membrane				ovary(1)	1	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)			TCTCCGCCGGGTCGGTGTGGA	0.731													3	22	---	---	---	---	PASS	T	57042222	T	T	57042222	3	4	51	1	0	0	0	0	1	0	0	0	766	1252	44	3	832	3	APCDD1L	20	57042222	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	13418419	57042222	5983298	255	19421										
ZNF831	128611	broad.mit.edu	37	chr20	57828032	57828032	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aatgtgcctctccccttgcaGgtctgaatctgcaagaggag	11	11	3	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr20:57828032G>T	uc002yan.2	+	4	4028	c.4028_splice	c.e4-1	p.G1343_splice		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831							intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					TCCCCTTGCAGGTCTGAATCT	0.463													11	23	---	---	---	---	PASS	T	57828032	T	T	57828032	5	4	51	1	0	0	0	0	0	0	1	0	18182	1014	35	3	4041	3	ZNF831	20	57828032	Splice_Site	SNP	G	TCGA-22-5489-01A-01D-1632-08	785810	57828032	5197488	256	19422										
PHACTR3	116154	broad.mit.edu	37	chr20	58342370	58342370	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcccagacctctggagagatCcgtgggccagctccccagcc	11	17	1	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr20:58342370C>T	uc002yau.2	+	5	1138	c.671C>T	c.(670-672)TCC>TTC	p.S224F	PHACTR3_uc002yat.2_Missense_Mutation_p.S221F|PHACTR3_uc010zzw.1_Missense_Mutation_p.S183F|PHACTR3_uc002yav.2_Missense_Mutation_p.S183F|PHACTR3_uc002yaw.2_Missense_Mutation_p.S183F|PHACTR3_uc002yax.2_Intron	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	224	Pro-rich.					nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			CTGGAGAGATCCGTGGGCCAG	0.622													9	30	---	---	---	---	PASS	T	58342370	T	T	58342370	3	4	51	1	0	0	0	0	1	0	0	0	11811	855	30	2	689	2	PHACTR3	20	58342370	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	514338	58342370	4683150	257	19423										
NTSR1	4923	broad.mit.edu	37	chr20	61340778	61340778	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	accgccgtgtacctggcgctCttcgtggtgggcacggtggg	17	12	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr20:61340778C>T	uc002ydf.2	+	1	590	c.219C>T	c.(217-219)CTC>CTT	p.L73L		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1	73	Helical; Name=1; (Potential).					endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			ACCTGGCGCTCTTCGTGGTGG	0.662													4	20	---	---	---	---	PASS	T	61340778	T	T	61340778	2	4	51	1	0	0	0	0	0	0	0	1	10710	900	32	2		2	NTSR1	20	61340778	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	2998408	61340778	1684742	258	19424										
MYT1	4661	broad.mit.edu	37	chr20	62851172	62851172	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cagcagctgcagcagcagccCcggtgtgaagtctcccgacg	13	15	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr20:62851172C>G	uc002yii.2	+	13	2442	c.2078C>G	c.(2077-2079)CCC>CGC	p.P693R	MYT1_uc002yih.2_Missense_Mutation_p.P395R|MYT1_uc002yij.2_Missense_Mutation_p.P352R	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	693	Ser-rich.				cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					agcagcagcCCCGGTGTGAAG	0.537													4	22	---	---	---	---	PASS	G	62851172	G	G	62851172	3	3	51	1	0	0	0	0	1	0	0	0	10106	623	22	4	2120	4	MYT1	20	62851172	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	1510394	62851172	174348	259	19425										
NCAM2	4685	broad.mit.edu	37	chr21	22652925	22652925	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tcaagtgacaatttcacttaGcaaagtagagcttagtgttg	9	6	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr21:22652925G>C	uc002yld.1	+	2	332	c.83G>C	c.(82-84)AGC>ACC	p.S28T	NCAM2_uc011acb.1_Intron|NCAM2_uc011acc.1_Missense_Mutation_p.S53T	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	28	Ig-like C2-type 1.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		ATTTCACTTAGCAAAGTAGAG	0.308													7	22	---	---	---	---	PASS	C	22652925	C	C	22652925	3	2	51	1	0	0	0	0	1	0	0	0	10203	971	34	4	89	4	NCAM2	21	22652925	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08		22652925	25476970	260	19426										
KRTAP6-3	337968	broad.mit.edu	37	chr21	31964914	31964914	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tacggaggcctgggctttggCtatggaggcctggactgtgg	18	8	0	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr21:31964914C>G	uc002yom.2	+	1	156	c.150C>G	c.(148-150)GGC>GGG	p.G50G		NM_181605	NP_853636			keratin associated protein 6-3												0						tgggctttggctatggaggcc	0.05													6	18	---	---	---	---	PASS	G	31964914	G	G	31964914	2	3	51	1	0	0	0	0	0	0	0	1	8571	784	28	4		4	KRTAP6-3	21	31964914	Silent	SNP	C	TCGA-22-5489-01A-01D-1632-08	9311989	31964914	16164981	261	19427										
SH3BGR	6450	broad.mit.edu	37	chr21	40824044	40824044	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tggttatcaaagtgtttgttGctacatcttctgggtccata	9	7	3	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr21:40824044G>T	uc002yya.2	+	1	265	c.211G>T	c.(211-213)GCT>TCT	p.A71S	SH3BGR_uc002yxz.2_Intron	NM_007341	NP_031367	P55822	SH3BG_HUMAN	SH3-binding domain and glutamic acid-rich	71					protein complex assembly	cytosol	SH3 domain binding|SH3/SH2 adaptor activity				0		all_cancers(19;1.16e-23)|all_epithelial(19;1.22e-20)|Prostate(19;2.55e-06)|Breast(209;0.0133)		STAD - Stomach adenocarcinoma(101;0.00151)		AGTGTTTGTTGCTACATCTTC	0.483													41	146	---	---	---	---	PASS	T	40824044	T	T	40824044	3	4	51	1	0	0	0	0	1	0	0	0	14240	1319	46	3	213	3	SH3BGR	21	40824044	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	8859130	40824044	7305851	262	19428										
KRTAP10-8	386681	broad.mit.edu	37	chr21	46032517	46032517	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	atgccaacaggcctgctgtgTgcccatctgctgcaagccca	10	15	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr21:46032517T>C	uc002zfo.1	+	1	522	c.500T>C	c.(499-501)GTG>GCG	p.V167A	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198695	NP_941968	P60410	KR108_HUMAN	keratin associated protein 10-8	167	19 X 5 AA repeats of C-C-X(3).|11.					keratin filament				large_intestine(1)|breast(1)	2						GCCTGCTGTGTGCCCATCTGC	0.617													44	183	---	---	---	---	PASS	C	46032517	C	C	46032517	3	2	51	1	0	0	0	0	1	0	0	0	8515	1696	59	5	502	5	KRTAP10-8	21	46032517	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	5208473	46032517	2097378	263	19429										
KRTAP10-8	386681	broad.mit.edu	37	chr21	46032668	46032668	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ctcctctgccgccctgtgtgCcggcctgcctgctgtgtgcc	12	18	1	0	rs139387695		TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr21:46032668C>G	uc002zfo.1	+	1	673	c.651C>G	c.(649-651)TGC>TGG	p.C217W	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198695	NP_941968	P60410	KR108_HUMAN	keratin associated protein 10-8	217	19 X 5 AA repeats of C-C-X(3).					keratin filament				large_intestine(1)|breast(1)	2						gccctgtgtgccggcctgcct	0.274													15	56	---	---	---	---	PASS	G	46032668	G	G	46032668	3	3	51	1	0	0	0	0	1	0	0	0	8515	747	26	4	653	4	KRTAP10-8	21	46032668	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	151	46032668	2097227	264	19430										
GAB4	128954	broad.mit.edu	37	chr22	17468980	17468980	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gggttcttgttcttgggggaGgtgctgatgggagcagctgg	20	5	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr22:17468980G>T	uc002zlw.2	-	3	664	c.556C>A	c.(556-558)CTC>ATC	p.L186I	GAB4_uc010gqs.1_Missense_Mutation_p.L169I	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	186										large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				TCTTGGGGGAGGTGCTGATGG	0.612													7	17	---	---	---	---	PASS	T	17468980	T	T	17468980	3	4	51	1	0	0	0	0	1	0	0	0	6151	1000	35	3	1200	3	GAB4	22	17468980	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08		17468980	33835586	265	19431										
CECR5	27440	broad.mit.edu	37	chr22	17619472	17619472	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agcttccggatgggggcggcCcagccccgcctctccgcctg	14	18	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr22:17619472C>A	uc002zmf.2	-	7	931	c.903G>T	c.(901-903)TGG>TGT	p.W301C	CECR5_uc002zmd.2_Missense_Mutation_p.W112C|CECR5_uc002zme.2_Missense_Mutation_p.W93C|CECR5_uc002zmg.2_Intron|CECR5_uc002zmh.2_Missense_Mutation_p.W271C	NM_033070	NP_149061	Q9BXW7	CECR5_HUMAN	cat eye syndrome chromosome region, candidate 5	301							hydrolase activity				0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)				TGGGGGCGGCCCAGCCCCGCC	0.602													28	121	---	---	---	---	PASS	A	17619472	A	A	17619472	3	1	51	1	0	0	0	0	1	0	0	0	3207	624	22	3	376	3	CECR5	22	17619472	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	150492	17619472	33685094	266	19432										
TXNRD2	10587	broad.mit.edu	37	chr22	19865642	19865642	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agagcaaatccttgagtaacTtcgcctgcgttggggccaag	12	10	0	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr22:19865642T>G	uc011ahc.1	-	16	1449	c.1416A>C	c.(1414-1416)GAA>GAC	p.E472D	TXNRD2_uc002zql.1_Missense_Mutation_p.E226D|TXNRD2_uc002zqm.1_RNA|TXNRD2_uc002zqn.1_RNA|TXNRD2_uc002zqo.1_RNA|TXNRD2_uc002zqp.1_RNA|TXNRD2_uc002zqr.1_Missense_Mutation_p.E471D|TXNRD2_uc002zqj.1_RNA|TXNRD2_uc002zqq.1_Missense_Mutation_p.E122D	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor	472					cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					CTTGAGTAACTTCGCCTGCGT	0.602													8	20	---	---	---	---	PASS	G	19865642	G	G	19865642	3	3	51	1	0	0	0	0	1	0	0	0	16805	1606	56	5	166	5	TXNRD2	22	19865642	Missense_Mutation	SNP	T	TCGA-22-5489-01A-01D-1632-08	2246170	19865642	31438924	267	19433										
ZNF280A	129025	broad.mit.edu	37	chr22	22869016	22869016	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	aaatgatgcttcatgtgattCataaacttaatattttttag	5	4	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr22:22869016C>A	uc002zwe.2	-	2	1192	c.939G>T	c.(937-939)ATG>ATT	p.M313I	LOC96610_uc011aim.1_Intron	NM_080740	NP_542778	P59817	Z280A_HUMAN	zinc finger protein 280A	313					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		TCATGTGATTCATAAACTTAA	0.473													20	89	---	---	---	---	PASS	A	22869016	A	A	22869016	3	1	51	1	0	0	0	0	1	0	0	0	17811	826	29	2	693	2	ZNF280A	22	22869016	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	3003374	22869016	28435550	268	19434										
HPS4	89781	broad.mit.edu	37	chr22	26860679	26860679	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	atgtgggatctggggtggtcCaggccatggattccacatgg	16	8	1	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr22:26860679C>A	uc003acl.2	-	11	1576	c.917G>T	c.(916-918)TGG>TTG	p.W306L	HPS4_uc003aci.2_Missense_Mutation_p.W301L|HPS4_uc003acj.2_Missense_Mutation_p.W170L|HPS4_uc003ack.2_Missense_Mutation_p.W97L|HPS4_uc003acn.2_Missense_Mutation_p.W152L|HPS4_uc010gvd.1_Missense_Mutation_p.W324L|HPS4_uc003ach.2_Missense_Mutation_p.W41L	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	306					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						TGGGGTGGTCCAGGCCATGGA	0.587									Hermansky-Pudlak_syndrome				3	43	---	---	---	---	PASS	A	26860679	A	A	26860679	3	1	51	1	0	0	0	0	1	0	0	0	7341	595	21	3	1225	3	HPS4	22	26860679	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	3991663	26860679	24443887	269	19435										
MN1	4330	broad.mit.edu	37	chr22	28196401	28196401	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	caggatccacagggccagggGgccccccagtgtggaaagcc	15	14	0	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr22:28196401G>C	uc003adj.2	-	1	1086	c.131C>G	c.(130-132)CCC>CGC	p.P44R		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	44							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						AGGGCCAGGGGGCCCCCCAGT	0.642			T	ETV6	AML|meningioma								8	71	---	---	---	---	PASS	C	28196401	C	C	28196401	3	2	51	1	0	0	0	0	1	0	0	0	9673	1232	43	4	3839	4	MN1	22	28196401	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	1335722	28196401	23108165	270	19436										
SLC5A4	6527	broad.mit.edu	37	chr22	32625228	32625228	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gacgcttgcttccgcatcttGgtgtagaggtcaatggtgaa	13	8	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr22:32625228G>A	uc003ami.2	-	11	1235	c.1233C>T	c.(1231-1233)ACC>ACT	p.T411T		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	411	Extracellular (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						TCCGCATCTTGGTGTAGAGGT	0.552													25	68	---	---	---	---	PASS	A	32625228	A	A	32625228	2	1	51	1	0	0	0	0	0	0	0	1	14667	1335	47	3		3	SLC5A4	22	32625228	Silent	SNP	G	TCGA-22-5489-01A-01D-1632-08	4428827	32625228	18679338	271	19437										
SREBF2	6721	broad.mit.edu	37	chr22	42262852	42262852	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	cagagatgctgcaatttgtcAgtaatcaagtgggagagttc	12	6	2	2			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chr22:42262852A>G	uc003bbi.2	+	2	275	c.106A>G	c.(106-108)AGT>GGT	p.S36G	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron	NM_004599	NP_004590	Q12772	SRBP2_HUMAN	sterol regulatory element-binding transcription	36	Transcriptional activation (acidic).|Cytoplasmic (Potential).				cholesterol metabolic process	ER to Golgi transport vesicle membrane|Golgi membrane|nucleus|SREBP-SCAP-Insig complex	protein C-terminus binding			breast(2)|ovary(1)|central_nervous_system(1)	4						GCAATTTGTCAGTAATCAAGT	0.348													29	137	---	---	---	---	PASS	G	42262852	G	G	42262852	3	3	51	1	0	0	0	0	1	0	0	0	15141	188	7	5	112	5	SREBF2	22	42262852	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08	9637624	42262852	9041714	272	19438										
TLR7	51284	broad.mit.edu	37	chrX	12905134	12905134	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agaccttggatctaagtaaaAatagtatattttttgtcaag	7	4	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chrX:12905134A>T	uc004cvc.2	+	3	1646	c.1507A>T	c.(1507-1509)AAT>TAT	p.N503Y		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	503	Extracellular (Potential).|LRR 16.				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	TCTAAGTAAAAATAGTATATT	0.368													38	74	---	---	---	---	PASS	T	12905134	T	T	12905134	3	4	51	1	0	0	0	0	1	0	0	0	15953	14	1	5	1513	5	TLR7	23	12905134	Missense_Mutation	SNP	A	TCGA-22-5489-01A-01D-1632-08		12905134	142365426	273	19439										
FAM47A	158724	broad.mit.edu	37	chrX	34148709	34148709	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	gaattgatgggactctggagCtttgggaggctccgggtgga	18	6	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chrX:34148709C>T	uc004ddg.2	-	1	1720	c.1687G>A	c.(1687-1689)GCT>ACT	p.A563T		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	563										ovary(4)|central_nervous_system(1)	5						GACTCTGGAGCTTTGGGAGGC	0.562													3	27	---	---	---	---	PASS	T	34148709	T	T	34148709	3	4	51	1	0	0	0	0	1	0	0	0	5569	797	28	3	692	3	FAM47A	23	34148709	Missense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	21243575	34148709	121121851	274	19440										
LPAR4	2846	broad.mit.edu	37	chrX	78011260	78011260	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	atgtacccaatcaccttgtgCcttgcaactctgaactgttg	7	12	2	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chrX:78011260C>A	uc010nme.2	+	2	1299	c.894C>A	c.(892-894)TGC>TGA	p.C298*		NM_005296	NP_005287	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	298	Helical; Name=7; (Potential).					integral to plasma membrane	lipid binding|purinergic nucleotide receptor activity, G-protein coupled			ovary(3)	3						TCACCTTGTGCCTTGCAACTC	0.423													20	29	---	---	---	---	PASS	A	78011260	A	A	78011260	4	1	51	1	0	0	0	0	0	1	0	0	8907	747	26	3	896	3	LPAR4	23	78011260	Nonsense_Mutation	SNP	C	TCGA-22-5489-01A-01D-1632-08	43862551	78011260	77259300	275	19441										
PCDH19	57526	broad.mit.edu	37	chrX	99662244	99662244	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	agtagggcttggaaaagtgcGggtggttgtcattttcgtca	15	5	2	0			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chrX:99662244G>T	uc010nmz.2	-	1	3028	c.1352C>A	c.(1351-1353)CCG>CAG	p.P451Q	PCDH19_uc004efw.3_Missense_Mutation_p.P451Q|PCDH19_uc004efx.3_Missense_Mutation_p.P451Q	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	451	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						GGAAAAGTGCGGGTGGTTGTC	0.572													22	27	---	---	---	---	PASS	T	99662244	T	T	99662244	3	4	51	1	0	0	0	0	1	0	0	0	11514	1116	39	1	2118	1	PCDH19	23	99662244	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	21650984	99662244	55608316	276	19442										
DCX	1641	broad.mit.edu	37	chrX	110653548	110653548	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	ggcgctgtgagtggggctagGcaacccattcatccgggagc	16	11	1	1			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chrX:110653548G>T	uc004epd.2	-	2	494	c.322C>A	c.(322-324)CCT>ACT	p.P108T	DCX_uc011msv.1_Missense_Mutation_p.P108T|DCX_uc004epe.2_Missense_Mutation_p.P27T|DCX_uc004epf.2_Missense_Mutation_p.P27T|DCX_uc004epg.2_Missense_Mutation_p.P27T	NM_000555	NP_000546	O43602	DCX_HUMAN	doublecortin isoform a	108					axon guidance|central nervous system development|intracellular signal transduction	cytosol|microtubule associated complex	microtubule binding			central_nervous_system(2)|lung(1)|skin(1)	4						GTGGGGCTAGGCAACCCATTC	0.493													28	38	---	---	---	---	PASS	T	110653548	T	T	110653548	3	4	51	1	0	0	0	0	1	0	0	0	4318	1203	42	3	1042	3	DCX	23	110653548	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	10991304	110653548	44617012	277	19443										
TRPC5	7224	broad.mit.edu	37	chrX	111155954	111155954	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	acaagcaatttgatgatttcGtagttgttggtgtgggcagc	13	5	0	2	rs141725174		TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chrX:111155954G>T	uc004epl.1	-	3	1384	c.465C>A	c.(463-465)TAC>TAA	p.Y155*	TRPC5_uc004epm.1_Nonsense_Mutation_p.Y155*	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	155	Cytoplasmic (Potential).|ANK 4.				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						TGATGATTTCGTAGTTGTTGG	0.507													11	19	---	---	---	---	PASS	T	111155954	T	T	111155954	4	4	51	1	0	0	0	0	0	1	0	0	16579	1140	40	1	2492	1	TRPC5	23	111155954	Nonsense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	502406	111155954	44114606	278	19444										
PASD1	139135	broad.mit.edu	37	chrX	150844595	150844595	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.11231884057971	31	0.000429840058022766	1.95874125874126	2.81324589389106	1.43095898408991	0.659490074109026	0.925645401874291	15	tgatgcctgcagagcaacgtGactcaaataagccgtgctaa	10	10	1	3			TCGA-22-5489-01A-01D-1632-08	TCGA-22-5489-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	c4eb6681-7ec3-4688-b06a-c47a0043f3fb	f5eb9711-2dc9-4a87-b27b-784ffccaa8fd	g.chrX:150844595G>T	uc004fev.3	+	16	2634	c.2302G>T	c.(2302-2304)GAC>TAC	p.D768Y		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	768						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AGAGCAACGTGACTCAAATAA	0.567													15	20	---	---	---	---	PASS	T	150844595	T	T	150844595	3	4	51	1	0	0	0	0	1	0	0	0	11471	1290	45	2	2360	2	PASD1	23	150844595	Missense_Mutation	SNP	G	TCGA-22-5489-01A-01D-1632-08	39688641	150844595	4425965	279	19445										
SCNN1D	6339	broad.mit.edu	37	chr1	1226035	1226035	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agggagtctgcattcaagctCtccactgggacctccaggtg	12	12	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:1226035C>G	uc001adu.1	+	14	2010	c.1386C>G	c.(1384-1386)CTC>CTG	p.L462L	SCNN1D_uc001adt.1_Silent_p.L626L|SCNN1D_uc001adw.2_Silent_p.L528L|SCNN1D_uc001adx.2_Silent_p.L251L|SCNN1D_uc001adv.2_Silent_p.L462L	NM_002978	NP_002969			sodium channel, nonvoltage-gated 1, delta												0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;2.46e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.199)		CATTCAAGCTCTCCACTGGGA	0.652													17	31	---	---	---	---	PASS	G	1226035	G	G	1226035	2	3	52	1	0	0	0	0	0	0	0	1	13929	900	32	2		2	SCNN1D	1	1226035	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08		1226035	248024586	1	19446										
PRAMEF2	65122	broad.mit.edu	37	chr1	12921089	12921089	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tccacaggtgcctccagaacCccttggagaacttggaatta	9	12	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:12921089C>A	uc001aum.1	+	4	967	c.880C>A	c.(880-882)CCC>ACC	p.P294T		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	294											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCTCCAGAACCCCTTGGAGAA	0.458													4	62	---	---	---	---	PASS	A	12921089	A	A	12921089	3	1	52	1	0	0	0	0	1	0	0	0	12435	623	22	3	890	3	PRAMEF2	1	12921089	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	11695054	12921089	236329532	2	19447										
SLC30A2	7780	broad.mit.edu	37	chr1	26371487	26371487	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aattagcccaaaagtgcttaCcaacgacttctccgatcatg	6	12	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:26371487C>G	uc001blh.1	-	2	488	c.271_splice	c.e2+1	p.E91_splice	SLC30A2_uc001blg.1_Splice_Site_p.G91_splice	NM_032513	NP_115902	Q9BRI3	ZNT2_HUMAN	solute carrier family 30, member 2 isoform 2						positive regulation of sequestering of zinc ion|zinc ion transport	integral to membrane|late endosome|lysosomal membrane	cation transmembrane transporter activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;7.09e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000728)|BRCA - Breast invasive adenocarcinoma(304;0.000969)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00614)|READ - Rectum adenocarcinoma(331;0.0649)		AAAGTGCTTACCAACGACTTC	0.423													71	28	---	---	---	---	PASS	G	26371487	G	G	26371487	5	3	52	1	0	0	0	0	0	0	1	0	14555	521	18	4	874	4	SLC30A2	1	26371487	Splice_Site	SNP	C	TCGA-22-5491-01A-01D-1632-08	13450398	26371487	222879134	3	19448										
UBXN11	91544	broad.mit.edu	37	chr1	26611997	26611997	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tacagtcgctggagctctgaGggaaagaagccatccaatat	11	9	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:26611997G>C	uc001blw.2	-	11	1083	c.810C>G	c.(808-810)CCC>CCG	p.P270P	UBXN11_uc001blz.1_Silent_p.P237P|UBXN11_uc001blv.2_Silent_p.P232P|UBXN11_uc001bly.2_Silent_p.P150P|UBXN11_uc001blx.2_Silent_p.P28P|UBXN11_uc001bma.2_Silent_p.P237P|UBXN11_uc001bmb.1_Silent_p.P270P|UBXN11_uc010ofb.1_Silent_p.P195P|UBXN11_uc010ofc.1_Silent_p.P112P	NM_183008	NP_892120	Q5T124	UBX11_HUMAN	socius isoform 2	270	SEP.					cytoplasm|cytoskeleton				ovary(1)	1						GGAGCTCTGAGGGAAAGAAGC	0.582											OREG0013265	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	6	---	---	---	---	PASS	C	26611997	C	C	26611997	2	2	52	1	0	0	0	0	0	0	0	1	16910	987	35	4		4	UBXN11	1	26611997	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	240510	26611997	222638624	4	19449										
ZMPSTE24	10269	broad.mit.edu	37	chr1	40723960	40723960	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggccatggggatgtgggcatCgctggacgctttgtgggaga	19	7	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:40723960C>T	uc001cfg.2	+	1	228	c.17C>T	c.(16-18)TCG>TTG	p.S6L	uc001cff.2_5'Flank	NM_005857	NP_005848	O75844	FACE1_HUMAN	zinc metallopeptidase STE24	6						endoplasmic reticulum membrane|Golgi membrane|integral to membrane	metal ion binding|metalloexopeptidase activity				0	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;6.3e-18)			ATGTGGGCATCGCTGGACGCT	0.632													28	89	---	---	---	---	PASS	T	40723960	T	T	40723960	3	4	52	1	0	0	0	0	1	0	0	0	17695	893	31	2	19	2	ZMPSTE24	1	40723960	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	14111963	40723960	208526661	5	19450										
PTPRF	5792	broad.mit.edu	37	chr1	44070639	44070639	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgctgctcagctgggaggttCccgactcctataagtcagct	11	12	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:44070639C>G	uc001cjr.2	+	17	3443	c.3103C>G	c.(3103-3105)CCC>GCC	p.P1035A	PTPRF_uc001cjs.2_Missense_Mutation_p.P1026A|PTPRF_uc001cju.2_Missense_Mutation_p.P413A|PTPRF_uc009vwt.2_Missense_Mutation_p.P595A|PTPRF_uc001cjv.2_Missense_Mutation_p.P495A|PTPRF_uc001cjw.2_Missense_Mutation_p.P261A	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1035	Extracellular (Potential).|Fibronectin type-III 8.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CTGGGAGGTTCCCGACTCCTA	0.577													19	116	---	---	---	---	PASS	G	44070639	G	G	44070639	3	3	52	1	0	0	0	0	1	0	0	0	12801	855	30	2	3161	2	PTPRF	1	44070639	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	3346679	44070639	205179982	6	19451										
ZSWIM5	57643	broad.mit.edu	37	chr1	45671861	45671861	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgcaggtgggggcgggccccGaggaccaggcagctgctgcc	19	13	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:45671861G>T	uc001cnd.2	-	1	390	c.162C>A	c.(160-162)CTC>CTA	p.L54L		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	54							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					GGCGGGCCCCGAGGACCAGGC	0.716													5	12	---	---	---	---	PASS	T	45671861	T	T	45671861	2	4	52	1	0	0	0	0	0	0	0	1	18241	1045	37	2		2	ZSWIM5	1	45671861	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	1601222	45671861	203578760	7	19452										
NRD1	4898	broad.mit.edu	37	chr1	52266334	52266334	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	attgaactcagctaagtagtCaataatgagctgaaacagta	8	6	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:52266334C>T	uc001ctc.3	-	23	2861	c.2539G>A	c.(2539-2541)GAC>AAC	p.D847N	NRD1_uc009vzb.2_Missense_Mutation_p.D542N|NRD1_uc001ctd.3_Missense_Mutation_p.D779N|NRD1_uc001cte.2_Missense_Mutation_p.D715N|NRD1_uc001ctf.2_Missense_Mutation_p.D779N|NRD1_uc010ong.1_RNA	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	778					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						GCTAAGTAGTCAATAATGAGC	0.383													27	55	---	---	---	---	PASS	T	52266334	T	T	52266334	3	4	52	1	0	0	0	0	1	0	0	0	10645	826	29	2	1164	2	NRD1	1	52266334	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	6594473	52266334	196984287	8	19453										
JAK1	3716	broad.mit.edu	37	chr1	65339169	65339169	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atgacgccacactgactgctCattgtcgttggttccatgcc	9	13	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:65339169C>A	uc001dbu.1	-	5	616	c.367G>T	c.(367-369)GAG>TAG	p.E123*	JAK1_uc009wam.1_Nonsense_Mutation_p.E111*|JAK1_uc001dbv.2_RNA	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	123	FERM.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		ACTGACTGCTCATTGTCGTTG	0.493			Mis		ALL								19	43	---	---	---	---	PASS	A	65339169	A	A	65339169	4	1	52	1	0	0	0	0	0	1	0	0	7937	835	29	2	3181	2	JAK1	1	65339169	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	13072835	65339169	183911452	9	19454										
GNG12	55970	broad.mit.edu	37	chr1	68171223	68171223	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtcactcctggcatgttcctCacagtaggacatgaggtccg	11	12	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:68171223C>A	uc001dea.1	-	4	322	c.130G>T	c.(130-132)GAG>TAG	p.E44*		NM_018841	NP_061329	Q9UBI6	GBG12_HUMAN	G-protein gamma-12 subunit precursor	44					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	signal transducer activity				0						GCATGTTCCTCACAGTAGGAC	0.398													21	40	---	---	---	---	PASS	A	68171223	A	A	68171223	4	1	52	1	0	0	0	0	0	1	0	0	6525	835	29	2	92	2	GNG12	1	68171223	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2832054	68171223	181079398	10	19455										
COL11A1	1301	broad.mit.edu	37	chr1	103364270	103364270	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tctggaccaggctttcctgcAggtccctgaggaccgactgg	13	13	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:103364270A>C	uc001dul.2	-	56	4518	c.4200T>G	c.(4198-4200)CCT>CCG	p.P1400P	COL11A1_uc001duk.2_Silent_p.P596P|COL11A1_uc001dum.2_Silent_p.P1412P|COL11A1_uc001dun.2_Silent_p.P1361P|COL11A1_uc009weh.2_Silent_p.P1284P	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1400	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GCTTTCCTGCAGGTCCCTGAG	0.468													17	44	---	---	---	---	PASS	C	103364270	C	C	103364270	2	2	52	1	0	0	0	0	0	0	0	1	3667	175	7	5		5	COL11A1	1	103364270	Silent	SNP	A	TCGA-22-5491-01A-01D-1632-08	35193047	103364270	145886351	11	19456										
COL11A1	1301	broad.mit.edu	37	chr1	103379198	103379198	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agtgcatttactcaccggttGaccaggatctccatcttcac	7	13	4	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:103379198G>T	uc001dul.2	-	53	4345	c.4027C>A	c.(4027-4029)CAA>AAA	p.Q1343K	COL11A1_uc001duk.2_Missense_Mutation_p.Q539K|COL11A1_uc001dum.2_Missense_Mutation_p.Q1355K|COL11A1_uc001dun.2_Missense_Mutation_p.Q1304K|COL11A1_uc009weh.2_Missense_Mutation_p.Q1227K	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1343	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CTCACCGGTTGACCAGGATCT	0.343													52	75	---	---	---	---	PASS	T	103379198	T	T	103379198	3	4	52	1	0	0	0	0	1	0	0	0	3667	1299	45	2	1453	2	COL11A1	1	103379198	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	14928	103379198	145871423	12	19457										
KCND3	3752	broad.mit.edu	37	chr1	112524921	112524921	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cgtccatgagccgctcggcgTtctccctcttgcggtccttg	11	16	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:112524921T>C	uc001ebu.1	-	2	908	c.428A>G	c.(427-429)AAC>AGC	p.N143S	KCND3_uc001ebv.1_Missense_Mutation_p.N143S	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	143	Cytoplasmic (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		CCGCTCGGCGTTCTCCCTCTT	0.622													28	37	---	---	---	---	PASS	C	112524921	C	C	112524921	3	2	52	1	0	0	0	0	1	0	0	0	8020	1725	60	5	1567	5	KCND3	1	112524921	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	9145723	112524921	136725700	13	19458										
HMGCS2	3158	broad.mit.edu	37	chr1	120296009	120296009	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gccagttcttgggcagagtgGctgtggggaaagaaatcaaa	15	6	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:120296009G>T	uc001eid.2	-	7	1239	c.1188C>A	c.(1186-1188)CAC>CAA	p.H396Q	HMGCS2_uc010oxj.1_Missense_Mutation_p.H354Q|HMGCS2_uc001eie.2_Missense_Mutation_p.H304Q	NM_005518	NP_005509	P54868	HMCS2_HUMAN	hydroxymethylglutaryl-CoA synthase 2 isoform 1	396					acetoacetic acid biosynthetic process|cholesterol biosynthetic process|isoprenoid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA synthase activity			ovary(2)	2	all_cancers(5;6.38e-10)|all_epithelial(5;1.1e-10)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;1.29e-06)|Lung NSC(69;9.35e-06)|all_epithelial(167;0.00124)		Lung(183;0.0112)|LUSC - Lung squamous cell carcinoma(189;0.0595)		GGGCAGAGTGGCTGTGGGGAA	0.328													8	12	---	---	---	---	PASS	T	120296009	T	T	120296009	3	4	52	1	0	0	0	0	1	0	0	0	7233	1217	42	3	350	3	HMGCS2	1	120296009	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	7771088	120296009	128954612	14	19459										
PDE4DIP	9659	broad.mit.edu	37	chr1	144886274	144886274	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcggagaaggaggggaaaaaGatgggttctgggtctccaca	16	6	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:144886274G>C	uc001elw.3	-	23	3251	c.2960C>G	c.(2959-2961)TCT>TGT	p.S987C	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.S1053C|PDE4DIP_uc001elv.3_Translation_Start_Site	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	987					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		AGGGGAAAAAGATGGGTTCTG	0.478			T	PDGFRB	MPD								27	284	---	---	---	---	PASS	C	144886274	C	C	144886274	3	2	52	1	0	0	0	0	1	0	0	0	11643	942	33	2	4168	2	PDE4DIP	1	144886274	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	24590265	144886274	104364347	15	19460										
MTMR11	10903	broad.mit.edu	37	chr1	149904192	149904192	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atcgtgttccttccagggctGaaagccatttatcctcagct	8	12	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:149904192G>A	uc001etl.3	-	11	1267	c.1016C>T	c.(1015-1017)TCA>TTA	p.S339L	MTMR11_uc001etm.1_Missense_Mutation_p.S267L|MTMR11_uc010pbm.1_Missense_Mutation_p.S311L|MTMR11_uc010pbn.1_Missense_Mutation_p.S181L	NM_001145862	NP_001139334	A4FU01	MTMRB_HUMAN	myotubularin related protein 11 isoform a	339	Myotubularin phosphatase.						phosphatase activity			central_nervous_system(1)	1	Breast(34;0.0009)|Ovarian(49;0.0377)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			TTCCAGGGCTGAAAGCCATTT	0.443													37	156	---	---	---	---	PASS	A	149904192	A	A	149904192	3	1	52	1	0	0	0	0	1	0	0	0	9940	1294	45	2	1180	2	MTMR11	1	149904192	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	5017918	149904192	99346429	16	19461										
RORC	6097	broad.mit.edu	37	chr1	151787699	151787699	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gggggacaggcagaagcctcAggcaggtcaggcgaggagcc	19	10	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:151787699A>T	uc001ezh.2	-	5	609	c.501T>A	c.(499-501)CCT>CCA	p.P167P	RORC_uc001ezg.2_Silent_p.P146P|RORC_uc010pdo.1_Silent_p.P221P|RORC_uc010pdp.1_Silent_p.P167P	NM_005060	NP_005051	P51449	RORG_HUMAN	RAR-related orphan receptor C isoform a	167	Hinge (Potential).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			CAGAAGCCTCAGGCAGGTCAG	0.647													3	49	---	---	---	---	PASS	T	151787699	T	T	151787699	2	4	52	1	0	0	0	0	0	0	0	1	13530	175	7	5		5	RORC	1	151787699	Silent	SNP	A	TCGA-22-5491-01A-01D-1632-08	1883507	151787699	97462922	17	19462										
FLG	2312	broad.mit.edu	37	chr1	152285056	152285056	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggtggctctgctgatggtgaCcagcctgtccatggcctgac	14	12	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:152285056C>T	uc001ezu.1	-	3	2342	c.2306G>A	c.(2305-2307)GGT>GAT	p.G769D	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	769	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGATGGTGACCAGCCTGTCC	0.567									Ichthyosis				207	277	---	---	---	---	PASS	T	152285056	T	T	152285056	3	4	52	1	0	0	0	0	1	0	0	0	5922	507	18	3	9883	3	FLG	1	152285056	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	497357	152285056	96965565	18	19463										
FLG2	388698	broad.mit.edu	37	chr1	152323772	152323772	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggaacctgtctgtgtggactGtccatgaccagactggccat	12	11	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:152323772G>C	uc001ezw.3	-	3	6563	c.6490C>G	c.(6490-6492)CAG>GAG	p.Q2164E	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	2164	Filaggrin 10.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTGTGGACTGTCCATGACCA	0.502													171	255	---	---	---	---	PASS	C	152323772	C	C	152323772	3	2	52	1	0	0	0	0	1	0	0	0	5923	1386	48	4	689	4	FLG2	1	152323772	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	38716	152323772	96926849	19	19464										
SLC39A1	27173	broad.mit.edu	37	chr1	153935025	153935025	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctgagccttcatggttagctCctggccggcgcagcacacag	12	14	1	1	rs141955044		TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:153935025C>T	uc001fdh.2	-	2	336	c.167G>A	c.(166-168)GGA>GAA	p.G56E	SLC39A1_uc001fdi.2_Missense_Mutation_p.G56E|SLC39A1_uc001fdj.2_Missense_Mutation_p.G56E|SLC39A1_uc001fdk.2_Missense_Mutation_p.G56E|SLC39A1_uc010pee.1_5'UTR|SLC39A1_uc001fdl.2_Missense_Mutation_p.G56E	NM_014437	NP_055252	Q9NY26	S39A1_HUMAN	solute carrier family 39 (zinc transporter),	56	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|membrane fraction|plasma membrane	zinc ion transmembrane transporter activity				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)	Colorectal(1306;0.019)		ATGGTTAGCTCCTGGCCGGCG	0.632													8	20	---	---	---	---	PASS	T	153935025	T	T	153935025	3	4	52	1	0	0	0	0	1	0	0	0	14612	855	30	2	819	2	SLC39A1	1	153935025	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1611253	153935025	95315596	20	19465										
GON4L	54856	broad.mit.edu	37	chr1	155730294	155730294	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agcaaagtctttcaacagctGaggccagtcttggagcagaa	11	9	3	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:155730294G>A	uc001flz.2	-	24	5147	c.5050C>T	c.(5050-5052)CAG>TAG	p.Q1684*	GON4L_uc009wrg.1_RNA|GON4L_uc001fly.1_Nonsense_Mutation_p.Q1684*|GON4L_uc009wrh.1_Nonsense_Mutation_p.Q1684*|GON4L_uc001fma.1_Nonsense_Mutation_p.Q1684*|GON4L_uc001fmb.3_Nonsense_Mutation_p.Q880*	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	1684	PAH 1.				regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TTCAACAGCTGAGGCCAGTCT	0.468													22	95	---	---	---	---	PASS	A	155730294	A	A	155730294	4	1	52	1	0	0	0	0	0	1	0	0	6572	1299	45	2	1708	2	GON4L	1	155730294	Nonsense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1795269	155730294	93520327	21	19466										
DARC	2532	broad.mit.edu	37	chr1	159175317	159175317	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aagatgtatggaattcttccTatggtgtgaatgattccttc	9	6	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:159175317T>C	uc001fto.2	+	2	328	c.88T>C	c.(88-90)TAT>CAT	p.Y30H	DARC_uc001ftp.3_Missense_Mutation_p.Y32H	NM_002036	NP_002027	Q16570	DUFFY_HUMAN	Duffy blood group antigen isoform b	30	Extracellular (Potential).				defense response	integral to membrane|plasma membrane	C-C chemokine binding|chemokine receptor activity			ovary(1)|lung(1)	2	all_hematologic(112;0.0429)					GAATTCTTCCTATGGTGTGAA	0.542													22	62	---	---	---	---	PASS	C	159175317	C	C	159175317	3	2	52	1	0	0	0	0	1	0	0	0	4240	1522	53	5	121	5	DARC	1	159175317	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	3445023	159175317	90075304	22	19467										
ATP1A2	477	broad.mit.edu	37	chr1	160109762	160109762	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tccgaaagctcatcctgcggCggtatcctggtggtaagccc	12	13	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:160109762C>T	uc001fvc.2	+	22	3154	c.3022C>T	c.(3022-3024)CGG>TGG	p.R1008W	ATP1A2_uc001fvd.2_Missense_Mutation_p.R727W	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	1008	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CATCCTGCGGCGGTATCCTGG	0.582													57	85	---	---	---	---	PASS	T	160109762	T	T	160109762	3	4	52	1	0	0	0	0	1	0	0	0	1129	759	27	1	3108	1	ATP1A2	1	160109762	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	934445	160109762	89140859	23	19468										
TBX19	9095	broad.mit.edu	37	chr1	168260473	168260473	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tactccctcctgctggacttTgtccctacggacagtcaccg	8	16	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:168260473T>C	uc001gfl.2	+	2	330	c.279T>C	c.(277-279)TTT>TTC	p.F93F	TBX19_uc001gfj.3_Silent_p.F24F	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	93	T-box.				anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					TGCTGGACTTTGTCCCTACGG	0.552													87	125	---	---	---	---	PASS	C	168260473	C	C	168260473	2	2	52	1	0	0	0	0	0	0	0	1	15651	1809	63	5		5	TBX19	1	168260473	Silent	SNP	T	TCGA-22-5491-01A-01D-1632-08	8150711	168260473	80990148	24	19469										
TNN	63923	broad.mit.edu	37	chr1	175097272	175097272	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tttaagggtggtcgccggagCagaaatgtatccaccaccct	11	11	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:175097272C>A	uc001gkl.1	+	14	3263	c.3150C>A	c.(3148-3150)AGC>AGA	p.S1050R		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	1050	Fibronectin type-III 9.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GTCGCCGGAGCAGAAATGTAT	0.557													20	42	---	---	---	---	PASS	A	175097272	A	A	175097272	3	1	52	1	0	0	0	0	1	0	0	0	16320	709	25	3	3200	3	TNN	1	175097272	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	6836799	175097272	74153349	25	19470										
DHX9	1660	broad.mit.edu	37	chr1	182847165	182847165	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttcctatgtaggcagaaagtGaaactcttcactgctcacaa	7	10	3	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:182847165G>A	uc001gpr.2	+	20	2371	c.2208G>A	c.(2206-2208)GTG>GTA	p.V736V	DHX9_uc001gps.2_Silent_p.V522V|DHX9_uc001gpt.2_Silent_p.V15V	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9	736	Helicase C-terminal.				CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						GGCAGAAAGTGAAACTCTTCA	0.403													9	40	---	---	---	---	PASS	A	182847165	A	A	182847165	2	1	52	1	0	0	0	0	0	0	0	1	4516	1277	45	2		2	DHX9	1	182847165	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	7749893	182847165	66403456	26	19471										
FAM58B	339521	broad.mit.edu	37	chr1	200183003	200183003	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atcagtgtgtccaacaggtaCttcaacccaagcagtgagcc	9	12	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:200183003C>A	uc009wzi.1	+	1	348	c.312C>A	c.(310-312)TAC>TAA	p.Y104*		NM_001105517	NP_001098987	P0C7Q3	FA58B_HUMAN	family with sequence similarity 58 member B	104					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	Prostate(682;0.19)					CCAACAGGTACTTCAACCCAA	0.557													71	121	---	---	---	---	PASS	A	200183003	A	A	200183003	4	1	52	1	0	0	0	0	0	1	0	0	5591	576	20	3	314	3	FAM58B	1	200183003	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	17335838	200183003	49067618	27	19472										
PPFIA4	8497	broad.mit.edu	37	chr1	203026006	203026006	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gcaagggcatcaagtcgtccAttggccgcctgtttgggaag	14	10	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:203026006A>G	uc001gyz.2	+	6	1410	c.817A>G	c.(817-819)ATT>GTT	p.I273V	PPFIA4_uc009xaj.2_Missense_Mutation_p.I904V|PPFIA4_uc010pqf.1_Missense_Mutation_p.I486V|PPFIA4_uc001gza.2_Missense_Mutation_p.I273V|PPFIA4_uc001gzb.1_5'UTR	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	273					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						CAAGTCGTCCATTGGCCGCCT	0.612													22	50	---	---	---	---	PASS	G	203026006	G	G	203026006	3	3	52	1	0	0	0	0	1	0	0	0	12312	217	8	5	839	5	PPFIA4	1	203026006	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	2843003	203026006	46224615	28	19473										
PPP1R15B	84919	broad.mit.edu	37	chr1	204379802	204379802	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agtgtctggaagccgactacCtcgctatttccatcactgtt	8	12	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:204379802C>A	uc001hav.3	-	1	1143	c.738G>T	c.(736-738)GAG>GAT	p.E246D		NM_032833	NP_116222	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	246					regulation of translation					ovary(1)|pancreas(1)	2	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			AGCCGACTACCTCGCTATTTC	0.522													22	147	---	---	---	---	PASS	A	204379802	A	A	204379802	3	1	52	1	0	0	0	0	1	0	0	0	12364	680	24	3	1411	3	PPP1R15B	1	204379802	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1353796	204379802	44870819	29	19474										
TMEM206	55248	broad.mit.edu	37	chr1	212538573	212538573	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gacttcagcttatgtggctcGttgcctgacctcttctttta	8	11	3	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:212538573G>A	uc001hjc.3	-	8	1205	c.1037C>T	c.(1036-1038)ACG>ATG	p.T346M	TMEM206_uc010pte.1_Missense_Mutation_p.T407M	NM_018252	NP_060722	Q9H813	TM206_HUMAN	transmembrane protein 206	346	Cytoplasmic (Potential).					integral to membrane				breast(1)	1				all cancers(67;0.012)|OV - Ovarian serous cystadenocarcinoma(81;0.0121)|GBM - Glioblastoma multiforme(131;0.0377)|Epithelial(68;0.148)		TATGTGGCTCGTTGCCTGACC	0.413													9	180	---	---	---	---	PASS	A	212538573	A	A	212538573	3	1	52	1	0	0	0	0	1	0	0	0	16128	1145	40	1	19	1	TMEM206	1	212538573	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	8158771	212538573	36712048	30	19475										
PTPN14	5784	broad.mit.edu	37	chr1	214567092	214567092	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtcgtgtggcaaacaaccgaGaaatatacttggcattttcg	10	8	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:214567092G>T	uc001hkk.1	-	10	1146	c.875C>A	c.(874-876)TCT>TAT	p.S292Y	PTPN14_uc010pty.1_Missense_Mutation_p.S193Y	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	292	FERM.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		AAACAACCGAGAAATATACTT	0.333													24	79	---	---	---	---	PASS	T	214567092	T	T	214567092	3	4	52	1	0	0	0	0	1	0	0	0	12783	942	33	2	2728	2	PTPN14	1	214567092	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2028519	214567092	34683529	31	19476										
OBSCN	84033	broad.mit.edu	37	chr1	228559483	228559483	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcagggacatggggcaccctCagggctccaagcagcttcca	12	14	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:228559483C>T	uc009xez.1	+	94	21048	c.21004C>T	c.(21004-21006)CAG>TAG	p.Q7002*	OBSCN_uc001hsr.1_Nonsense_Mutation_p.Q1631*	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	7002	Pro-rich.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGGGCACCCTCAGGGCTCCAA	0.706													14	48	---	---	---	---	PASS	T	228559483	T	T	228559483	4	4	52	1	0	0	0	0	0	1	0	0	10812	827	29	2	22584	2	OBSCN	1	228559483	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	13992391	228559483	20691138	32	19477										
KIAA1383	54627	broad.mit.edu	37	chr1	232942054	232942054	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaaatgttagctccctaaatGaggaagtcacagaattggac	10	7	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:232942054G>C	uc001hvh.2	+	1	1417	c.1285G>C	c.(1285-1287)GAG>CAG	p.E429Q		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	287										ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				CTCCCTAAATGAGGAAGTCAC	0.448													14	274	---	---	---	---	PASS	C	232942054	C	C	232942054	3	2	52	1	0	0	0	0	1	0	0	0	8228	1291	45	2	1287	2	KIAA1383	1	232942054	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	4382571	232942054	16308567	33	19478										
RYR2	6262	broad.mit.edu	37	chr1	237732556	237732556	+	Missense_Mutation	SNP	G	T	T													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccatgatgttcacactgaatGgtgaaatccttcttgatgat							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:237732556G>T	uc001hyl.1	+	29	3655	c.3535G>T	c.(3535-3537)GGT>TGT	p.G1179C		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1179	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)			CACACTGAATGGTGAAATCCT	0.448													13	31	---	---	---	---	PASS	T	237732556	T	T	237732556	3	4	52	1	0	0	0	0	1	0	0	0	13769	1348	47	3	3649	3	RYR2	1	237732556	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	4790502	237732556	11518065	34	19479	436	2								
RYR2	6262	broad.mit.edu	37	chr1	237732557	237732557	+	Missense_Mutation	SNP	G	T	T													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	catgatgttcacactgaatgGtgaaatccttcttgatgatt							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:237732557G>T	uc001hyl.1	+	29	3656	c.3536G>T	c.(3535-3537)GGT>GTT	p.G1179V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1179	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)			ACACTGAATGGTGAAATCCTT	0.443													13	31	---	---	---	---	PASS	T	237732557	T	T	237732557	3	4	52	1	0	0	0	0	1	0	0	0	13769	1261	44	3	3650	3	RYR2	1	237732557	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1	237732557	11518064	35	19480	436	2								
RYR2	6262	broad.mit.edu	37	chr1	237935345	237935345	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tctgagaactcagactggcaAtaatacaactgtcaacataa	6	9	3	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:237935345A>G	uc001hyl.1	+	86	11711	c.11591A>G	c.(11590-11592)AAT>AGT	p.N3864S	RYR2_uc010pya.1_Missense_Mutation_p.N279S	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3864					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)			CAGACTGGCAATAATACAACT	0.333													3	8	---	---	---	---	PASS	G	237935345	G	G	237935345	3	3	52	1	0	0	0	0	1	0	0	0	13769	101	4	5	11933	5	RYR2	1	237935345	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	202788	237935345	11315276	36	19481										
OPN3	23596	broad.mit.edu	37	chr1	241761284	241761284	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cacttgaattgtctgaagatCttccacacaacgaagctgca	7	11	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:241761284C>G	uc001hza.2	-	3	854	c.709G>C	c.(709-711)GAT>CAT	p.D237H	OPN3_uc001hzb.2_RNA|OPN3_uc001hzc.2_RNA	NM_014322	NP_055137	Q9H1Y3	OPN3_HUMAN	opsin 3	237	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|visual perception	integral to plasma membrane	G-protein coupled photoreceptor activity				0	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			GTCTGAAGATCTTCCACACAA	0.353													13	22	---	---	---	---	PASS	G	241761284	G	G	241761284	3	3	52	1	0	0	0	0	1	0	0	0	10881	913	32	2	507	2	OPN3	1	241761284	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	3825939	241761284	7489337	37	19482										
EXO1	9156	broad.mit.edu	37	chr1	242042219	242042219	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtagcacgtaattcaagtgaTgacattccgaataatcatat	7	7	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:242042219T>C	uc001hzh.2	+	13	2223	c.1683T>C	c.(1681-1683)GAT>GAC	p.D561D	EXO1_uc001hzi.2_Silent_p.D561D|EXO1_uc001hzj.2_Silent_p.D561D|EXO1_uc009xgq.2_Silent_p.D560D	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	561					meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			ATTCAAGTGATGACATTCCGA	0.403								Direct_reversal_of_damage|Editing_and_processing_nucleases					37	47	---	---	---	---	PASS	C	242042219	C	C	242042219	2	2	52	1	0	0	0	0	0	0	0	1	5300	1461	51	5		5	EXO1	1	242042219	Silent	SNP	T	TCGA-22-5491-01A-01D-1632-08	280935	242042219	7208402	38	19483										
AHCTF1	25909	broad.mit.edu	37	chr1	247006029	247006029	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttgtttttgacgtcctgattCgtttcgcttttggctttccc	8	10	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:247006029C>A	uc001ibu.1	-	34	6582	c.6575G>T	c.(6574-6576)CGA>CTA	p.R2192L	AHCTF1_uc001ibv.1_Missense_Mutation_p.R2201L|AHCTF1_uc009xgs.1_Intron	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	2192	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			CGTCCTGATTCGTTTCGCTTT	0.348													8	240	---	---	---	---	PASS	A	247006029	A	A	247006029	3	1	52	1	0	0	0	0	1	0	0	0	408	884	31	2	233	2	AHCTF1	1	247006029	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	4963810	247006029	2244592	39	19484										
OR2G2	81470	broad.mit.edu	37	chr1	247752529	247752529	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tggtaacccgcatgcttaacCctcttatttataccttgagg	7	11	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr1:247752529C>G	uc010pyy.1	+	1	868	c.868C>G	c.(868-870)CCT>GCT	p.P290A		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	290	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			CATGCTTAACCCTCTTATTTA	0.348													56	141	---	---	---	---	PASS	G	247752529	G	G	247752529	3	3	52	1	0	0	0	0	1	0	0	0	10998	623	22	4	870	4	OR2G2	1	247752529	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	746500	247752529	1498092	40	19485										
RSAD2	91543	broad.mit.edu	37	chr2	7023640	7023640	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gagcaatggaagcctgatccGggagaggtggttccagaatt	15	7	0	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:7023640G>A	uc002qyp.1	+	2	621	c.485G>A	c.(484-486)CGG>CAG	p.R162Q		NM_080657	NP_542388	Q8WXG1	RSAD2_HUMAN	radical S-adenosyl methionine domain containing	162					defense response to virus	endoplasmic reticulum membrane|Golgi apparatus	catalytic activity|iron-sulfur cluster binding|metal ion binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			OV - Ovarian serous cystadenocarcinoma(76;0.191)		AGCCTGATCCGGGAGAGGTGG	0.488													25	30	---	---	---	---	PASS	A	7023640	A	A	7023640	3	1	52	1	0	0	0	0	1	0	0	0	13695	1116	39	1	491	1	RSAD2	2	7023640	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08		7023640	236175733	41	19486										
YWHAQ	10971	broad.mit.edu	37	chr2	9770387	9770387	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaggtgtcggtcttctgctcGatgctagagatgaccctcca	12	11	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:9770387G>C	uc002qzw.2	-	1	359	c.195C>G	c.(193-195)ATC>ATG	p.I65M	YWHAQ_uc002qzx.2_Missense_Mutation_p.I65M	NM_006826	NP_006817	P27348	1433T_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	65					negative regulation of transcription, DNA-dependent	centrosome|nucleus	protein N-terminus binding			breast(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.241)		TCTTCTGCTCGATGCTAGAGA	0.607													25	96	---	---	---	---	PASS	C	9770387	C	C	9770387	3	2	52	1	0	0	0	0	1	0	0	0	17502	1048	37	2	562	2	YWHAQ	2	9770387	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2746747	9770387	233428986	42	19487										
LPIN1	23175	broad.mit.edu	37	chr2	11922351	11922351	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cttctccacacaagatgaaaGagtccagcccattgagcagt	8	12	1	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:11922351G>C	uc010yjn.1	+	8	1148	c.874G>C	c.(874-876)GAG>CAG	p.E292Q	LPIN1_uc010yjm.1_Missense_Mutation_p.E377Q|LPIN1_uc002rbt.2_Missense_Mutation_p.E292Q|LPIN1_uc002rbs.2_Missense_Mutation_p.E328Q	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	292					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		CAAGATGAAAGAGTCCAGCCC	0.448													10	57	---	---	---	---	PASS	C	11922351	C	C	11922351	3	2	52	1	0	0	0	0	1	0	0	0	8918	943	33	2	896	2	LPIN1	2	11922351	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2151964	11922351	231277022	43	19488										
WDR35	57539	broad.mit.edu	37	chr2	20137623	20137623	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aagcgcttcacaaacttaatGccttggtaatctttgcagcg	8	10	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:20137623G>A	uc002rdi.2	-	20	2289	c.2181C>T	c.(2179-2181)GGC>GGT	p.G727G	WDR35_uc002rdj.2_Silent_p.G716G|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Silent_p.G292G|WDR35_uc002rdk.3_Silent_p.G292G	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	727										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAAACTTAATGCCTTGGTAAT	0.448													102	168	---	---	---	---	PASS	A	20137623	A	A	20137623	2	1	52	1	0	0	0	0	0	0	0	1	17286	1306	46	3		3	WDR35	2	20137623	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	8215272	20137623	223061750	44	19489										
APOB	338	broad.mit.edu	37	chr2	21224842	21224842	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	taatcagaaattattttcttCgtcgcaatggcctggctttt	7	8	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:21224842C>T	uc002red.2	-	29	13580	c.13452G>A	c.(13450-13452)ACG>ACA	p.T4484T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	4484					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTATTTTCTTCGTCGCAATGG	0.378													5	156	---	---	---	---	PASS	T	21224842	T	T	21224842	2	4	52	1	0	0	0	0	0	0	0	1	785	871	31	2		2	APOB	2	21224842	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	1087219	21224842	221974531	45	19490										
C2orf28	51374	broad.mit.edu	37	chr2	27439399	27439399	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tctggcctccagaaatgtgtCctgagaatggatcttgtgta	11	8	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:27439399C>T	uc002rjf.2	+	6	834	c.661C>T	c.(661-663)CCT>TCT	p.P221S	C2orf28_uc002rjg.2_Missense_Mutation_p.P108S|C2orf28_uc002rjh.2_RNA|CAD_uc002rji.2_5'Flank|CAD_uc010eyw.2_5'Flank	NM_080592	NP_542159	Q6UW56	APR3_HUMAN	apoptosis related protein 3 isoform b	166	EGF-like.|Extracellular (Potential).					integral to membrane|plasma membrane				skin(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGAAATGTGTCCTGAGAATGG	0.403													66	272	---	---	---	---	PASS	T	27439399	T	T	27439399	3	4	52	1	0	0	0	0	1	0	0	0	2160	855	30	2	683	2	C2orf28	2	27439399	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	6214557	27439399	215759974	46	19491										
DYSF	8291	broad.mit.edu	37	chr2	71708055	71708055	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	catcaagaacagcgtgaaccCtgtatggaatgaggtatgtg	12	7	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:71708055C>T	uc002sie.2	+	2	507	c.131C>T	c.(130-132)CCT>CTT	p.P44L	DYSF_uc010feg.2_Missense_Mutation_p.P44L|DYSF_uc010feh.2_Missense_Mutation_p.P44L|DYSF_uc002sig.3_Missense_Mutation_p.P44L|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.P44L|DYSF_uc010fef.2_Missense_Mutation_p.P44L|DYSF_uc010fei.2_Missense_Mutation_p.P44L|DYSF_uc010fek.2_Missense_Mutation_p.P45L|DYSF_uc010fej.2_Missense_Mutation_p.P45L|DYSF_uc010fel.2_Missense_Mutation_p.P45L|DYSF_uc010feo.2_Missense_Mutation_p.P45L|DYSF_uc010fem.2_Missense_Mutation_p.P45L|DYSF_uc010fen.2_Missense_Mutation_p.P45L|DYSF_uc002sif.2_Missense_Mutation_p.P45L	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	44	Cytoplasmic (Potential).|C2 1.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						AGCGTGAACCCTGTATGGAAT	0.502													26	47	---	---	---	---	PASS	T	71708055	T	T	71708055	3	4	52	1	0	0	0	0	1	0	0	0	4859	681	24	3	232	3	DYSF	2	71708055	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	44268656	71708055	171491318	47	19492										
GCC2	9648	broad.mit.edu	37	chr2	109086545	109086545	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tacaccaagaagaggtgaaaGagttgatgtgccagattgaa	12	5	0	7			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:109086545G>A	uc002tec.2	+	6	914	c.760G>A	c.(760-762)GAG>AAG	p.E254K	GCC2_uc002ted.2_Missense_Mutation_p.E153K	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	254	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						AGAGGTGAAAGAGTTGATGTG	0.353													10	202	---	---	---	---	PASS	A	109086545	A	A	109086545	3	1	52	1	0	0	0	0	1	0	0	0	6286	943	33	2	782	2	GCC2	2	109086545	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	37378490	109086545	134112828	48	19493										
GPR148	344561	broad.mit.edu	37	chr2	131487737	131487737	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccggggccacctcccatccaGgaggcaccaggccatcttta	10	17	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:131487737G>T	uc002trv.1	+	1	1015	c.1013G>T	c.(1012-1014)AGG>ATG	p.R338M		NM_207364	NP_997247	Q8TDV2	GP148_HUMAN	G protein-coupled receptor 148	338	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity	p.R338R(1)		skin(1)	1	Colorectal(110;0.1)					CTCCCATCCAGGAGGCACCAG	0.532													13	18	---	---	---	---	PASS	T	131487737	T	T	131487737	3	4	52	1	0	0	0	0	1	0	0	0	6653	1000	35	3	1015	3	GPR148	2	131487737	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	22401192	131487737	111711636	49	19494										
POTEE	445582	broad.mit.edu	37	chr2	132021608	132021608	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gactctggtgacggggtcacCcacactgtgcccatctatga	11	13	3	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:132021608C>A	uc002tsn.2	+	15	2632	c.2580C>A	c.(2578-2580)ACC>ACA	p.T860T	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Silent_p.T460T|POTEE_uc002tsl.2_Silent_p.T442T|POTEE_uc010fmy.1_Silent_p.T324T	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	860	Actin-like.						ATP binding				0						ACGGGGTCACCCACACTGTGC	0.617													6	119	---	---	---	---	PASS	A	132021608	A	A	132021608	2	1	52	1	0	0	0	0	0	0	0	1	12264	610	22	3		3	POTEE	2	132021608	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	533871	132021608	111177765	50	19495										
LRP1B	53353	broad.mit.edu	37	chr2	141232707	141232707	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atttatgttactggaccaacCtttgtgtctatgagatccat	7	8	1	1	rs77794732		TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:141232707C>A	uc002tvj.1	-	60	10597	c.9625G>T	c.(9625-9627)GTC>TTC	p.V3209F		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3209	Extracellular (Potential).|LDL-receptor class B 31.				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)		CTGGACCAACCTTTGTGTCTA	0.289										TSP Lung(27;0.18)			18	80	---	---	---	---	PASS	A	141232707	A	A	141232707	3	1	52	1	0	0	0	0	1	0	0	0	8955	695	24	3	4302	3	LRP1B	2	141232707	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	9211099	141232707	101966666	51	19496										
RIF1	55183	broad.mit.edu	37	chr2	152276711	152276711	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttctctattataggctaattGaacaagccccaattcaaatg	5	9	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:152276711G>C	uc002txm.2	+	7	641	c.511G>C	c.(511-513)GAA>CAA	p.E171Q	RIF1_uc002txl.2_Missense_Mutation_p.E171Q|RIF1_uc010fnv.1_Missense_Mutation_p.E135Q|RIF1_uc002txn.2_Missense_Mutation_p.E171Q|RIF1_uc002txo.2_Missense_Mutation_p.E171Q|RIF1_uc010zby.1_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	171					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		TAGGCTAATTGAACAAGCCCC	0.393													10	27	---	---	---	---	PASS	C	152276711	C	C	152276711	3	2	52	1	0	0	0	0	1	0	0	0	13359	1291	45	2	533	2	RIF1	2	152276711	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	11044004	152276711	90922662	52	19497										
NEB	4703	broad.mit.edu	37	chr2	152473910	152473910	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tattcggttgagtttggctaAcatgatttctggtgtatcag	11	5	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:152473910A>C	uc010fnx.2	-	71	10611	c.10420T>G	c.(10420-10422)TTA>GTA	p.L3474V		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3474	Nebulin 95.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		AGTTTGGCTAACATGATTTCT	0.358													2	6	---	---	---	---	PASS	C	152473910	C	C	152473910	3	2	52	1	0	0	0	0	1	0	0	0	10302	40	2	5	14969	5	NEB	2	152473910	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	197199	152473910	90725463	53	19498										
BAZ2B	29994	broad.mit.edu	37	chr2	160284489	160284489	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cttcatagaagtcacccactCttatttttgcactgaagctg	6	11	3	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:160284489C>G	uc002uao.2	-	13	2781	c.2429G>C	c.(2428-2430)AGA>ACA	p.R810T	BAZ2B_uc002uap.2_Intron|BAZ2B_uc002uaq.1_Missense_Mutation_p.R640T|BAZ2B_uc002uar.1_Missense_Mutation_p.R383T	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	810	MBD.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						GTCACCCACTCTTATTTTTGC	0.353													45	96	---	---	---	---	PASS	G	160284489	G	G	160284489	3	3	52	1	0	0	0	0	1	0	0	0	1332	913	32	2	4177	2	BAZ2B	2	160284489	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	7810579	160284489	82914884	54	19499										
LRP2	4036	broad.mit.edu	37	chr2	170044630	170044630	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtgcatcagctcatcagatcCgtctccacagtcattatcct	6	14	5	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:170044630C>T	uc002ues.2	-	49	9391	c.9178G>A	c.(9178-9180)GGA>AGA	p.G3060R		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3060	LDL-receptor class A 24.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TCATCAGATCCGTCTCCACAG	0.502													48	100	---	---	---	---	PASS	T	170044630	T	T	170044630	3	4	52	1	0	0	0	0	1	0	0	0	8956	661	23	1	4913	1	LRP2	2	170044630	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	9760141	170044630	73154743	55	19500										
LRP2	4036	broad.mit.edu	37	chr2	170090097	170090097	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gggcataggggtgccgtataAtctgtgaggcagaagagaac	16	6	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:170090097A>G	uc002ues.2	-	30	5135	c.4922T>C	c.(4921-4923)ATT>ACT	p.I1641T		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1641	LDL-receptor class B 13.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GTGCCGTATAATCTGTGAGGC	0.488													31	36	---	---	---	---	PASS	G	170090097	G	G	170090097	3	3	52	1	0	0	0	0	1	0	0	0	8956	115	4	5	9245	5	LRP2	2	170090097	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	45467	170090097	73109276	56	19501										
C2orf77	129881	broad.mit.edu	37	chr2	170537574	170537574	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gatcgcaaatgcatttctttCtttgcctttctttctgcacg	6	11	4	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:170537574C>G	uc002ufe.2	-	2	331	c.237G>C	c.(235-237)AAG>AAC	p.K79N		NM_001085447	NP_001078916	Q0VFZ6	CB077_HUMAN	hypothetical protein LOC129881	79	Potential.										0						GCATTTCTTTCTTTGCCTTTC	0.418													45	150	---	---	---	---	PASS	G	170537574	G	G	170537574	3	3	52	1	0	0	0	0	1	0	0	0	2194	912	32	2	1453	2	C2orf77	2	170537574	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	447477	170537574	72661799	57	19502										
DCAF17	80067	broad.mit.edu	37	chr2	172309682	172309682	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	accttgcagtgttccgagttCtacctttttcacttgtaggg	9	10	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:172309682C>G	uc002ugx.2	+	6	815	c.586C>G	c.(586-588)CTA>GTA	p.L196V	DCAF17_uc010zdq.1_RNA|DCAF17_uc010fqf.1_Missense_Mutation_p.L196V|DCAF17_uc010zdr.1_RNA|DCAF17_uc010fqg.2_5'UTR	NM_025000	NP_079276	Q5H9S7	DCA17_HUMAN	DDB1 and CUL4 associated factor 17 isoform 1	196	Helical; (Potential).					CUL4 RING ubiquitin ligase complex|integral to membrane|nucleolus					0						GTTCCGAGTTCTACCTTTTTC	0.348													22	82	---	---	---	---	PASS	G	172309682	G	G	172309682	3	3	52	1	0	0	0	0	1	0	0	0	4269	912	32	2	608	2	DCAF17	2	172309682	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1772108	172309682	70889691	58	19503										
KIAA1715	80856	broad.mit.edu	37	chr2	176794784	176794784	+	Frame_Shift_Del	DEL	C	-	-													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gttggtttcaatcactgaggCttcctcattctcagtctctt							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:176794784delC	uc002ukc.1	-	13	1391	c.1198delG	c.(1198-1200)GCCfs	p.A400fs	KIAA1715_uc010zer.1_Frame_Shift_Del_p.A431fs|KIAA1715_uc010fqw.1_Frame_Shift_Del_p.A466fs|KIAA1715_uc010zes.1_Frame_Shift_Del_p.A402fs|KIAA1715_uc002ukd.1_Frame_Shift_Del_p.A277fs|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	400	Cytoplasmic (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			ATCACTGAGGCTTCCTCATTC	0.433													116	68	---	---	---	---		-	176794784	-	-	176794784	7	5	52	1	0	1	0	1	0	0	0	0	8254	797	28	0	92	0	KIAA1715	2	176794784	Frame_Shift_Del	DEL	C	TCGA-22-5491-01A-01D-1632-08	4485102	176794784	66404589	59	19504										
TTN	7273	broad.mit.edu	37	chr2	179468797	179468797	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aataaggacttccctcttctCttttctccagccagtagcca	5	14	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:179468797C>G	uc010zfg.1	-	231	47137	c.46913G>C	c.(46912-46914)AGA>ACA	p.R15638T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R9333T|TTN_uc010zfi.1_Missense_Mutation_p.R9266T|TTN_uc010zfj.1_Missense_Mutation_p.R9141T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16565							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)			TCCCTCTTCTCTTTTCTCCAG	0.478													6	385	---	---	---	---	PASS	G	179468797	G	G	179468797	3	3	52	1	0	0	0	0	1	0	0	0	16732	913	32	2	53400	2	TTN	2	179468797	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2674013	179468797	63730576	60	19505										
TTN	7273	broad.mit.edu	37	chr2	179605892	179605892	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaagcacaagcagctctgctGcacaggtggactcacccaac	10	14	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:179605892G>A	uc010zfh.1	-	46	11779	c.11555C>T	c.(11554-11556)GCA>GTA	p.A3852V	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.A3785V|TTN_uc010zfj.1_Missense_Mutation_p.A3660V|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CAGCTCTGCTGCACAGGTGGA	0.502													10	162	---	---	---	---	PASS	A	179605892	A	A	179605892	3	1	52	1	0	0	0	0	1	0	0	0	16732	1319	46	3	92721	3	TTN	2	179605892	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	137095	179605892	63593481	61	19506										
CALCRL	10203	broad.mit.edu	37	chr2	188223976	188223976	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gcttctagcaatggcatgtaTacaagcaggaatcagtggaa	11	7	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:188223976T>C	uc002upv.3	-	11	1353	c.805A>G	c.(805-807)ATA>GTA	p.I269V	CALCRL_uc010frt.2_Missense_Mutation_p.I269V	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	269	Helical; Name=4; (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			ATGGCATGTATACAAGCAGGA	0.239													8	7	---	---	---	---	PASS	C	188223976	C	C	188223976	3	2	52	1	0	0	0	0	1	0	0	0	2580	1406	49	5	600	5	CALCRL	2	188223976	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	8618084	188223976	54975397	62	19507										
FAM126B	285172	broad.mit.edu	37	chr2	201853065	201853065	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcggcactgttggagtgactTcaactttaaggactttctgg	11	8	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:201853065T>G	uc002uws.3	-	11	1099	c.911A>C	c.(910-912)GAA>GCA	p.E304A	FAM126B_uc002uwu.2_Missense_Mutation_p.E222A|FAM126B_uc002uwv.2_Missense_Mutation_p.E304A	NM_173822	NP_776183	Q8IXS8	F126B_HUMAN	hypothetical protein LOC285172	304						intracellular				ovary(1)	1						TGGAGTGACTTCAACTTTAAG	0.413													61	82	---	---	---	---	PASS	G	201853065	G	G	201853065	3	3	52	1	0	0	0	0	1	0	0	0	5430	1783	62	5	689	5	FAM126B	2	201853065	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	13629089	201853065	41346308	63	19508										
ADAM23	8745	broad.mit.edu	37	chr2	207460864	207460864	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccagttaggaaccttcacccCcccaaggatgaaggacccaa	8	15	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:207460864C>A	uc002vbq.2	+	24	2560	c.2337C>A	c.(2335-2337)CCC>CCA	p.P779P	ADAM23_uc010ziv.1_Intron	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	779	Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		ACCTTCACCCCCCCAAGGATG	0.448													10	19	---	---	---	---	PASS	A	207460864	A	A	207460864	2	1	52	1	0	0	0	0	0	0	0	1	245	610	22	3		3	ADAM23	2	207460864	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	5607799	207460864	35738509	64	19509										
TNS1	7145	broad.mit.edu	37	chr2	218713626	218713626	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcgtcggtcttgtcggtcttGgtggaggctgtggagttgcc	17	8	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:218713626G>T	uc002vgt.2	-	17	1637	c.1239C>A	c.(1237-1239)ACC>ACA	p.T413T	TNS1_uc002vgr.2_Silent_p.T413T|TNS1_uc002vgs.2_Silent_p.T413T|TNS1_uc010zjv.1_Silent_p.T413T|TNS1_uc010fvj.1_Silent_p.T481T|TNS1_uc010fvk.1_Silent_p.T538T|TNS1_uc010fvi.1_Silent_p.T100T	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	413						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		TGTCGGTCTTGGTGGAGGCTG	0.642													18	84	---	---	---	---	PASS	T	218713626	T	T	218713626	2	4	52	1	0	0	0	0	0	0	0	1	16340	1335	47	3		3	TNS1	2	218713626	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	11252762	218713626	24485747	65	19510										
PTPRN	5798	broad.mit.edu	37	chr2	220156190	220156190	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gatgaatctcctctccacccAcctgcagtgcacgatgatgg	9	14	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:220156190A>T	uc002vkz.2	-	20	2818	c.2729_splice	c.e20+1	p.S910_splice	PTPRN_uc010zlc.1_Splice_Site_p.S820_splice|PTPRN_uc002vla.2_Splice_Site_p.S881_splice	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N						response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		CTCTCCACCCACCTGCAGTGC	0.547													19	24	---	---	---	---	PASS	T	220156190	T	T	220156190	5	4	52	1	0	0	0	0	0	0	1	0	12807	173	6	5	224	5	PTPRN	2	220156190	Splice_Site	SNP	A	TCGA-22-5491-01A-01D-1632-08	1442564	220156190	23043183	66	19511										
SPEG	10290	broad.mit.edu	37	chr2	220357321	220357321	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggctctgcctggcaggagccGgccctccctgcaggactgcc	14	17	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:220357321G>A	uc010fwg.2	+	41	9617	c.9617G>A	c.(9616-9618)CGG>CAG	p.R3206Q		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	3206	Protein kinase 2.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GGCAGGAGCCGGCCCTCCCTG	0.522													6	105	---	---	---	---	PASS	A	220357321	A	A	220357321	3	1	52	1	0	0	0	0	1	0	0	0	15035	1116	39	1	9791	1	SPEG	2	220357321	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	201131	220357321	22842052	67	19512										
TRIP12	9320	broad.mit.edu	37	chr2	230724207	230724207	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgtctttcttaggcacctgcCccgttttttgtctttctgaa	7	11	4	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:230724207C>T	uc002vpw.1	-	3	291	c.182G>A	c.(181-183)GGG>GAG	p.G61E	TRIP12_uc002vpx.1_Missense_Mutation_p.G103E|TRIP12_uc002vpy.1_Intron|TRIP12_uc010zlz.1_RNA|TRIP12_uc010fxh.1_Missense_Mutation_p.G61E	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	61					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)		AGGCACCTGCCCCGTTTTTTG	0.453													7	178	---	---	---	---	PASS	T	230724207	T	T	230724207	3	4	52	1	0	0	0	0	1	0	0	0	16553	623	22	3	5952	3	TRIP12	2	230724207	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	10366886	230724207	12475166	68	19513										
CHRNG	1146	broad.mit.edu	37	chr2	233408046	233408046	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gcccagactgtcttcctcttCcttgtggccaagaaggtgcc	10	14	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:233408046C>A	uc002vsx.1	+	8	888	c.867C>A	c.(865-867)TTC>TTA	p.F289L	CHRNG_uc010fye.1_Missense_Mutation_p.F237L	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	289	Helical; (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)		TCTTCCTCTTCCTTGTGGCCA	0.582													8	32	---	---	---	---	PASS	A	233408046	A	A	233408046	3	1	52	1	0	0	0	0	1	0	0	0	3396	854	30	2	897	2	CHRNG	2	233408046	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2683839	233408046	9791327	69	19514										
CHRNG	1146	broad.mit.edu	37	chr2	233409214	233409214	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	actggggaggaggtggccctCtgcctgcctcgcagtgaact	15	12	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:233409214C>G	uc002vsx.1	+	10	1194	c.1173C>G	c.(1171-1173)CTC>CTG	p.L391L	CHRNG_uc010fye.1_Silent_p.L339L	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	391	Cytoplasmic (Potential).				muscle contraction	cell junction|postsynaptic membrane	acetylcholine receptor activity				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;6.39e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00079)|LUSC - Lung squamous cell carcinoma(224;0.00757)|Lung(119;0.0086)		AGGTGGCCCTCTGCCTGCCTC	0.662													22	84	---	---	---	---	PASS	G	233409214	G	G	233409214	2	3	52	1	0	0	0	0	0	0	0	1	3396	900	32	2		2	CHRNG	2	233409214	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	1168	233409214	9790159	70	19515										
NGEF	25791	broad.mit.edu	37	chr2	233785170	233785170	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctcctcctcctcttcttcttCctcctccggggtgtcctcac	5	20	4	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:233785170C>A	uc002vts.2	-	5	900	c.652G>T	c.(652-654)GAA>TAA	p.E218*	NGEF_uc010fyg.1_Nonsense_Mutation_p.E126*|NGEF_uc002vtt.2_Nonsense_Mutation_p.E126*	NM_019850	NP_062824	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor	218	Poly-Glu.|Regulatory region; modulates activity toward RHOA, RAC1 and CDC42 (By similarity).				apoptosis|cell differentiation|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	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)|skin(1)	7		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		tcttcttcttcctcctccGGG	0.458													19	48	---	---	---	---	PASS	A	233785170	A	A	233785170	4	1	52	1	0	0	0	0	0	1	0	0	10394	864	30	2	1524	2	NGEF	2	233785170	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	375956	233785170	9414203	71	19516										
UGT1A5	54579	broad.mit.edu	37	chr2	234622280	234622280	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgcaaagggtcaagaacatgCtctaccctctggccctgtcc	9	14	3	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr2:234622280C>G	uc002vuw.2	+	1	643	c.643C>G	c.(643-645)CTC>GTC	p.L215V	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Missense_Mutation_p.L215V	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	215					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		CAAGAACATGCTCTACCCTCT	0.483													4	220	---	---	---	---	PASS	G	234622280	G	G	234622280	3	3	52	1	0	0	0	0	1	0	0	0	16945	797	28	4	645	4	UGT1A5	2	234622280	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	837110	234622280	8577093	72	19517										
SATB1	6304	broad.mit.edu	37	chr3	18436276	18436276	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttggaagaggtgtccggacaGagggctggctgccatgggag	19	7	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:18436276G>A	uc003cbh.2	-	7	2619	c.884C>T	c.(883-885)TCT>TTT	p.S295F	SATB1_uc003cbi.2_Missense_Mutation_p.S295F|SATB1_uc003cbj.2_Missense_Mutation_p.S295F	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	295					cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						TGTCCGGACAGAGGGCTGGCT	0.582													15	75	---	---	---	---	PASS	A	18436276	A	A	18436276	3	1	52	1	0	0	0	0	1	0	0	0	13853	942	33	2	1427	2	SATB1	3	18436276	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08		18436276	179586154	73	19518										
TLR9	54106	broad.mit.edu	37	chr3	52257047	52257047	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggctgtcagctccgaagctcCgctgatgcggttgtccgaca	13	13	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:52257047C>T	uc003dda.1	-	2	1919	c.1285G>A	c.(1285-1287)GGA>AGA	p.G429R	TLR9_uc003ddb.2_Missense_Mutation_p.G526R	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	429	LRR 14.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	TCCGAAGCTCCGCTGATGCGG	0.642													7	122	---	---	---	---	PASS	T	52257047	T	T	52257047	3	4	52	1	0	0	0	0	1	0	0	0	15955	661	23	1	1817	1	TLR9	3	52257047	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	33820771	52257047	145765383	74	19519										
CCDC66	285331	broad.mit.edu	37	chr3	56600985	56600985	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgttttaccttagagagaatGaatggaaaccagctgatata	9	5	0	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:56600985G>C	uc003dhz.2	+	6	805	c.718G>C	c.(718-720)GAA>CAA	p.E240Q	CCDC66_uc003dhy.2_5'UTR|CCDC66_uc003dhu.2_Missense_Mutation_p.E206Q|CCDC66_uc003dhx.2_RNA|CCDC66_uc003dhv.2_RNA|CCDC66_uc003dhw.2_Missense_Mutation_p.E240Q	NM_001141947	NP_001135419	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66 isoform 1	240										breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		TAGAGAGAATGAATGGAAACC	0.363													26	41	---	---	---	---	PASS	C	56600985	C	C	56600985	3	2	52	1	0	0	0	0	1	0	0	0	2838	1291	45	2	740	2	CCDC66	3	56600985	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	4343938	56600985	141421445	75	19520										
ADAMTS9	56999	broad.mit.edu	37	chr3	64527226	64527226	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agaagctttcctctaatcatCaggaaatattcaccatcttc	4	11	5	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:64527226C>T	uc003dmg.2	-	34	5300	c.5268G>A	c.(5266-5268)CTG>CTA	p.L1756L	ADAMTS9_uc011bfo.1_Silent_p.L1728L|ADAMTS9_uc011bfp.1_Silent_p.L667L	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1756	GON.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CTCTAATCATCAGGAAATATT	0.388													35	86	---	---	---	---	PASS	T	64527226	T	T	64527226	2	4	52	1	0	0	0	0	0	0	0	1	273	813	29	2		2	ADAMTS9	3	64527226	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	7926241	64527226	133495204	76	19521										
PDZRN3	23024	broad.mit.edu	37	chr3	73433635	73433635	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctcaggcactccagctcgatGctgcgcagctcttcgttcag	10	15	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:73433635G>A	uc003dpl.1	-	10	2178	c.2082C>T	c.(2080-2082)AGC>AGT	p.S694S	PDZRN3_uc011bgh.1_Silent_p.S351S|PDZRN3_uc010hoe.1_Silent_p.S392S|PDZRN3_uc011bgf.1_Silent_p.S411S|PDZRN3_uc011bgg.1_Silent_p.S414S	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	694	Potential.						ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		CCAGCTCGATGCTGCGCAGCT	0.632													23	11	---	---	---	---	PASS	A	73433635	A	A	73433635	2	1	52	1	0	0	0	0	0	0	0	1	11709	1310	46	3		3	PDZRN3	3	73433635	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	8906409	73433635	124588795	77	19522										
EPHA3	2042	broad.mit.edu	37	chr3	89480480	89480480	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gactttcgcgtgtcctggagGatgacccagaagctgcttat	12	10	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:89480480G>A	uc003dqy.2	+	13	2542	c.2317G>A	c.(2317-2319)GAT>AAT	p.D773N	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	773	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		TGTCCTGGAGGATGACCCAGA	0.408										TSP Lung(6;0.00050)			6	11	---	---	---	---	PASS	A	89480480	A	A	89480480	3	1	52	1	0	0	0	0	1	0	0	0	5168	1174	41	2	2393	2	EPHA3	3	89480480	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	16046845	89480480	108541950	78	19523										
FAM55C	91775	broad.mit.edu	37	chr3	101540528	101540528	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cgtcgagcagtggttcggctCctcgatcgaagcccaaagac	12	13	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:101540528C>G	uc003dvn.2	+	8	2047	c.1410C>G	c.(1408-1410)CTC>CTG	p.L470L	FAM55C_uc010hpn.2_Silent_p.L470L	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	470						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						TGGTTCGGCTCCTCGATCGAA	0.567													19	175	---	---	---	---	PASS	G	101540528	G	G	101540528	2	3	52	1	0	0	0	0	0	0	0	1	5586	842	30	2		2	FAM55C	3	101540528	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	12060048	101540528	96481902	79	19524										
PHLDB2	90102	broad.mit.edu	37	chr3	111603110	111603110	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tctggctcctatttaaccctCtcacaacctgtgcctgcaaa	5	15	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:111603110C>G	uc010hqa.2	+	2	597	c.186C>G	c.(184-186)CTC>CTG	p.L62L	PHLDB2_uc003dyc.2_Silent_p.L89L|PHLDB2_uc003dyd.2_Silent_p.L62L|PHLDB2_uc003dyg.2_Silent_p.L62L|PHLDB2_uc003dyh.2_Silent_p.L62L|PHLDB2_uc003dye.3_Silent_p.L62L|PHLDB2_uc003dyf.3_Silent_p.L62L	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	62						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						ATTTAACCCTCTCACAACCTG	0.478													11	447	---	---	---	---	PASS	G	111603110	G	G	111603110	2	3	52	1	0	0	0	0	0	0	0	1	11852	900	32	2		2	PHLDB2	3	111603110	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	10062582	111603110	86419320	80	19525										
GAP43	2596	broad.mit.edu	37	chr3	115395016	115395016	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aggatgatgtccaagctgctGaggctgaagctaataagaag	13	6	0	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:115395016G>A	uc003ebq.2	+	2	573	c.187G>A	c.(187-189)GAG>AAG	p.E63K	GAP43_uc003ebr.2_Missense_Mutation_p.E99K	NM_002045	NP_002036	P17677	NEUM_HUMAN	growth associated protein 43 isoform 2	63					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell differentiation|nervous system development|regulation of filopodium assembly|regulation of growth|response to wounding	cell junction|filopodium membrane|growth cone membrane|synapse	calmodulin binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.164)		CCAAGCTGCTGAGGCTGAAGC	0.517													9	130	---	---	---	---	PASS	A	115395016	A	A	115395016	3	1	52	1	0	0	0	0	1	0	0	0	6235	1291	45	2	335	2	GAP43	3	115395016	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	3791906	115395016	82627414	81	19526										
SLC15A2	6565	broad.mit.edu	37	chr3	121649733	121649733	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcaacatctccctgagtacaGatacctctctcaatgttggt	6	12	4	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:121649733G>C	uc003eep.2	+	18	1753	c.1600G>C	c.(1600-1602)GAT>CAT	p.D534H	SLC15A2_uc011bjn.1_Missense_Mutation_p.D503H	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a	534					protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	CCTGAGTACAGATACCTCTCT	0.383													12	121	---	---	---	---	PASS	C	121649733	C	C	121649733	3	2	52	1	0	0	0	0	1	0	0	0	14399	942	33	2	1670	2	SLC15A2	3	121649733	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	6254717	121649733	76372697	82	19527										
PARP15	165631	broad.mit.edu	37	chr3	122354848	122354848	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cctcacaatcccacagatctCtttgactcagtgacaaacaa	4	14	3	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:122354848C>G	uc003efm.2	+	12	2004	c.1938C>G	c.(1936-1938)CTC>CTG	p.L646L	PARP15_uc003efn.2_Silent_p.L451L|PARP15_uc003efo.1_Silent_p.L393L|PARP15_uc003efp.1_Silent_p.L412L|PARP15_uc011bjt.1_Silent_p.L343L	NM_001113523	NP_001106995	Q460N3	PAR15_HUMAN	poly (ADP-ribose) polymerase family, member 15	624	PARP catalytic.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	NAD+ ADP-ribosyltransferase activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)	5				GBM - Glioblastoma multiforme(114;0.0531)		CCACAGATCTCTTTGACTCAG	0.433													5	165	---	---	---	---	PASS	G	122354848	G	G	122354848	2	3	52	1	0	0	0	0	0	0	0	1	11459	900	32	2		2	PARP15	3	122354848	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	705115	122354848	75667582	83	19528										
ALDH1L1	10840	broad.mit.edu	37	chr3	125855651	125855651	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctcagaggtcttggcgccctCggcatccacgaactcccccc	9	19	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:125855651C>G	uc003eim.1	-	11	1490	c.1300G>C	c.(1300-1302)GAG>CAG	p.E434Q	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Missense_Mutation_p.E333Q|ALDH1L1_uc003eio.2_Missense_Mutation_p.E136Q|ALDH1L1_uc010hsf.1_Missense_Mutation_p.E460Q	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	434	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	TTGGCGCCCTCGGCATCCACG	0.592													3	20	---	---	---	---	PASS	G	125855651	G	G	125855651	3	3	52	1	0	0	0	0	1	0	0	0	494	893	31	2	1460	2	ALDH1L1	3	125855651	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	3500803	125855651	72166779	84	19529										
UROC1	131669	broad.mit.edu	37	chr3	126218239	126218239	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtcctgccagcacctttcttCtccacatccgctcctgtggg	8	17	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:126218239C>T	uc003eiz.1	-	13	1289	c.1257G>A	c.(1255-1257)GAG>GAA	p.E419E	UROC1_uc010hsi.1_Silent_p.E479E	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	419					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		CACCTTTCTTCTCCACATCCG	0.602													6	49	---	---	---	---	PASS	T	126218239	T	T	126218239	2	4	52	1	0	0	0	0	0	0	0	1	17025	912	32	2		2	UROC1	3	126218239	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	362588	126218239	71804191	85	19530										
UROC1	131669	broad.mit.edu	37	chr3	126218994	126218994	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atggctgagacttgcctcctCaggctgcaacaagccatggg	12	12	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:126218994C>G	uc003eiz.1	-	12	1181	c.1149G>C	c.(1147-1149)CTG>CTC	p.L383L	UROC1_uc010hsi.1_Silent_p.L443L	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	383					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		CTTGCCTCCTCAGGCTGCAAC	0.602													8	79	---	---	---	---	PASS	G	126218994	G	G	126218994	2	3	52	1	0	0	0	0	0	0	0	1	17025	813	29	2		2	UROC1	3	126218994	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	755	126218994	71803436	86	19531										
ACAD9	28976	broad.mit.edu	37	chr3	128615308	128615308	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttggctggcactgaggagcaGaaagccaaatacttgcctaa	11	9	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:128615308G>A	uc003ela.3	+	5	685	c.483G>A	c.(481-483)CAG>CAA	p.Q161Q	ACAD9_uc010hsw.1_Silent_p.Q38Q|ACAD9_uc011bks.1_Silent_p.Q38Q|ACAD9_uc003elb.2_Silent_p.Q38Q|ACAD9_uc003elc.1_5'Flank|ACAD9_uc003eld.1_5'Flank	NM_014049	NP_054768	Q9H845	ACAD9_HUMAN	acyl-Coenzyme A dehydrogenase family, member 9	161						mitochondrion	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding			ovary(2)|central_nervous_system(1)	3						CTGAGGAGCAGAAAGCCAAAT	0.512													4	77	---	---	---	---	PASS	A	128615308	A	A	128615308	2	1	52	1	0	0	0	0	0	0	0	1	111	933	33	2		2	ACAD9	3	128615308	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	2396314	128615308	69407122	87	19532										
PLXND1	23129	broad.mit.edu	37	chr3	129282078	129282078	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aggaagaatggctcccccacCgtctcctgaggggcacgggg	15	13	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:129282078C>T	uc003emx.2	-	26	4627	c.4527G>A	c.(4525-4527)ACG>ACA	p.T1509T	PLXND1_uc011blb.1_Silent_p.T177T	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1509	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						GCTCCCCCACCGTCTCCTGAG	0.627													4	37	---	---	---	---	PASS	T	129282078	T	T	129282078	2	4	52	1	0	0	0	0	0	0	0	1	12127	639	23	1		1	PLXND1	3	129282078	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	666770	129282078	68740352	88	19533										
COL6A6	131873	broad.mit.edu	37	chr3	130318603	130318603	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgtctgttcctttgacagggCagaagaggctggccaggccc	14	11	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:130318603C>A	uc010htl.2	+	19	4633	c.4602C>A	c.(4600-4602)GGC>GGA	p.G1534G	COL6A6_uc003eni.3_5'UTR	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1534	Triple-helical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TTTGACAGGGCAGAAGAGGCT	0.498													14	88	---	---	---	---	PASS	A	130318603	A	A	130318603	2	1	52	1	0	0	0	0	0	0	0	1	3703	697	25	3		3	COL6A6	3	130318603	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	1036525	130318603	67703827	89	19534										
ASTE1	28990	broad.mit.edu	37	chr3	130735094	130735094	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gatgtgagctgtgtctaagtCcagtcttgtgcccagccgtg	13	10	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:130735094C>T	uc003env.1	-	5	2045	c.1603G>A	c.(1603-1605)GAC>AAC	p.D535N	ATP2C1_uc011blh.1_3'UTR|ATP2C1_uc011bli.1_3'UTR|ATP2C1_uc003enm.2_3'UTR|ATP2C1_uc003enn.2_3'UTR|ATP2C1_uc003enp.2_3'UTR|ATP2C1_uc003enr.2_3'UTR|ATP2C1_uc003ens.2_3'UTR|ATP2C1_uc003ent.2_3'UTR|ASTE1_uc010htm.1_Missense_Mutation_p.D535N|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	535					DNA repair		nuclease activity				0						GTGTCTAAGTCCAGTCTTGTG	0.512													6	250	---	---	---	---	PASS	T	130735094	T	T	130735094	3	4	52	1	0	0	0	0	1	0	0	0	1062	855	30	2	444	2	ASTE1	3	130735094	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	416491	130735094	67287336	90	19535										
PLS1	5357	broad.mit.edu	37	chr3	142389956	142389956	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cagtgagggcacacagcattCttattcaggtaactgacttc	9	10	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:142389956C>G	uc010huv.2	+	4	515	c.356C>G	c.(355-357)TCT>TGT	p.S119C	PLS1_uc003euz.2_Missense_Mutation_p.S119C|PLS1_uc003eva.2_Missense_Mutation_p.S119C	NM_001145319	NP_001138791	Q14651	PLSI_HUMAN	plastin 1	119	Actin-binding 1.					cytoplasm	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(1)	1						ACACAGCATTCTTATTCAGGT	0.289													5	452	---	---	---	---	PASS	G	142389956	G	G	142389956	3	3	52	1	0	0	0	0	1	0	0	0	12107	913	32	2	366	2	PLS1	3	142389956	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	11654862	142389956	55632474	91	19536										
DHX36	170506	broad.mit.edu	37	chr3	154001039	154001039	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cttttcgtatctgaaaccacGtcgcctagcctcttcccagc	6	16	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:154001039G>A	uc003ezy.3	-	20	2395	c.2314C>T	c.(2314-2316)CGT>TGT	p.R772C	DHX36_uc010hvq.2_Missense_Mutation_p.R758C|DHX36_uc003ezz.3_Missense_Mutation_p.R743C	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	772						cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			CTGAAACCACGTCGCCTAGCC	0.393													118	71	---	---	---	---	PASS	A	154001039	A	A	154001039	3	1	52	1	0	0	0	0	1	0	0	0	4509	1145	40	1	736	1	DHX36	3	154001039	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	11611083	154001039	44021391	92	19537										
GPR149	344758	broad.mit.edu	37	chr3	154055653	154055653	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcaccatcaggattactggtGggcaaaaagagggagtatga	13	6	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:154055653G>T	uc003faa.2	-	4	2131	c.2031C>A	c.(2029-2031)CCC>CCA	p.P677P		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	677	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			GATTACTGGTGGGCAAAAAGA	0.458													86	419	---	---	---	---	PASS	T	154055653	T	T	154055653	2	4	52	1	0	0	0	0	0	0	0	1	6654	1335	47	3		3	GPR149	3	154055653	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	54614	154055653	43966777	93	19538										
PLCH1	23007	broad.mit.edu	37	chr3	155232559	155232559	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atgcgtggccttcagtagtgCccgcactgtgaaactatcag	11	11	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:155232559C>A	uc011bok.1	-	11	1826	c.1549G>T	c.(1549-1551)GCA>TCA	p.A517S	PLCH1_uc011boj.1_Missense_Mutation_p.A517S|PLCH1_uc011bol.1_Missense_Mutation_p.A499S	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	517					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TTCAGTAGTGCCCGCACTGTG	0.408													17	139	---	---	---	---	PASS	A	155232559	A	A	155232559	3	1	52	1	0	0	0	0	1	0	0	0	12037	739	26	3	3599	3	PLCH1	3	155232559	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1176906	155232559	42789871	94	19539										
BCHE	590	broad.mit.edu	37	chr3	165491294	165491294	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	attctgcttcatcaatatttCctgtaaaatatggaataagt	5	6	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:165491294C>T	uc003fem.3	-	4	1845	c.1685G>A	c.(1684-1686)GGA>GAA	p.G562E	BCHE_uc003fen.3_RNA	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	562					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	ATCAATATTTCCTGTAAAATA	0.313													5	100	---	---	---	---	PASS	T	165491294	T	T	165491294	3	4	52	1	0	0	0	0	1	0	0	0	1358	869	30	2	127	2	BCHE	3	165491294	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	10258735	165491294	32531136	95	19540										
SERPINI1	5274	broad.mit.edu	37	chr3	167507060	167507060	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaagatgaaaatattctcttCtctccattgagtattgctct	6	8	3	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:167507060C>G	uc003ffa.3	+	2	342	c.144C>G	c.(142-144)TTC>TTG	p.F48L	SERPINI1_uc003ffb.3_Missense_Mutation_p.F48L	NM_001122752	NP_001116224	Q99574	NEUS_HUMAN	neuroserpin precursor	48					central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1						ATATTCTCTTCTCTCCATTGA	0.458													24	317	---	---	---	---	PASS	G	167507060	G	G	167507060	3	3	52	1	0	0	0	0	1	0	0	0	14118	912	32	2	146	2	SERPINI1	3	167507060	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2015766	167507060	30515370	96	19541										
LRRIQ4	344657	broad.mit.edu	37	chr3	169540078	169540078	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctccacgccctgcgcgagctCcggctctaccagaccgacct	9	20	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:169540078C>T	uc003fgb.2	+	1	369	c.369C>T	c.(367-369)CTC>CTT	p.L123L		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	123	LRR 5.										0						TGCGCGAGCTCCGGCTCTACC	0.582													35	261	---	---	---	---	PASS	T	169540078	T	T	169540078	2	4	52	1	0	0	0	0	0	0	0	1	9031	842	30	2		2	LRRIQ4	3	169540078	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	2033018	169540078	28482352	97	19542										
PRKCI	5584	broad.mit.edu	37	chr3	170016837	170016837	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	caaatatttctggggaatttGgtttggacaactttgattct	9	5	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:170016837G>T	uc003fgs.2	+	17	1880	c.1642G>T	c.(1642-1644)GGT>TGT	p.G548C	PRKCI_uc003fgt.2_Missense_Mutation_p.G103C	NM_002740	NP_002731	P41743	KPCI_HUMAN	protein kinase C, iota	548	AGC-kinase C-terminal.				anti-apoptosis|cellular membrane organization|cellular response to insulin stimulus|establishment or maintenance of epithelial cell apical/basal polarity|intracellular signal transduction|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|protein targeting to membrane|secretion|tight junction assembly|vesicle-mediated transport	cytosol|endosome|nucleus|polarisome	ATP binding|phospholipid binding|protein binding|protein kinase C activity|zinc ion binding			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			TGGGGAATTTGGTTTGGACAA	0.368													8	188	---	---	---	---	PASS	T	170016837	T	T	170016837	3	4	52	1	0	0	0	0	1	0	0	0	12514	1348	47	3	1708	3	PRKCI	3	170016837	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	476759	170016837	28005593	98	19543										
PLD1	5337	broad.mit.edu	37	chr3	171405270	171405270	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cttggctttcctattcctttCagttttgaatccacatcatc	4	12	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:171405270C>T	uc003fhs.2	-	15	1760	c.1644G>A	c.(1642-1644)CTG>CTA	p.L548L	PLD1_uc003fht.2_Silent_p.L548L	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	548	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	CTATTCCTTTCAGTTTTGAAT	0.433													10	428	---	---	---	---	PASS	T	171405270	T	T	171405270	2	4	52	1	0	0	0	0	0	0	0	1	12045	813	29	2		2	PLD1	3	171405270	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	1388433	171405270	26617160	99	19544										
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atcctctctctgaaatcactGagcaggagaaagattttcta	7	9	4	4	rs104886003		TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			11	171	---	---	---	---	PASS	A	178936091	A	A	178936091	3	1	52	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	7530821	178936091	19086339	100	19545										
FAM131A	131408	broad.mit.edu	37	chr3	184062659	184062659	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgccagccactctgcccaccActaacgggcagctgggaacg	11	16	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:184062659A>G	uc003fog.2	+	3	2273	c.909A>G	c.(907-909)CCA>CCG	p.P303P	FAM131A_uc003fob.1_Intron|FAM131A_uc003foc.2_Silent_p.P249P|FAM131A_uc003foe.2_Silent_p.P249P	NM_144635	NP_653236	Q6UXB0	F131A_HUMAN	hypothetical protein LOC131408 precursor	303						extracellular region				breast(1)	1	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCTGCCCACCACTAACGGGCA	0.637													11	124	---	---	---	---	PASS	G	184062659	G	G	184062659	2	3	52	1	0	0	0	0	0	0	0	1	5439	146	6	5		5	FAM131A	3	184062659	Silent	SNP	A	TCGA-22-5491-01A-01D-1632-08	5126568	184062659	13959771	101	19546										
FETUB	26998	broad.mit.edu	37	chr3	186362640	186362640	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaggctgccaccgagtctctTgcgaaatacaacaatgagaa	10	10	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:186362640T>C	uc010hyq.2	+	5	786	c.525T>C	c.(523-525)CTT>CTC	p.L175L	FETUB_uc011brz.1_Silent_p.L27L|FETUB_uc003fqn.2_Silent_p.L175L|FETUB_uc003fqo.2_Silent_p.L70L|FETUB_uc010hyr.2_Silent_p.L138L|FETUB_uc010hys.2_Silent_p.L27L|FETUB_uc003fqp.3_Silent_p.L110L	NM_014375	NP_055190	Q9UGM5	FETUB_HUMAN	fetuin B precursor	175	Cystatin fetuin-B-type 2.					extracellular space	cysteine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0479)		CCGAGTCTCTTGCGAAATACA	0.473													29	377	---	---	---	---	PASS	C	186362640	C	C	186362640	2	2	52	1	0	0	0	0	0	0	0	1	5821	1799	63	5		5	FETUB	3	186362640	Silent	SNP	T	TCGA-22-5491-01A-01D-1632-08	2299981	186362640	11659790	102	19547										
ATP13A5	344905	broad.mit.edu	37	chr3	193028476	193028476	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgatttctgcccaggagacaTtcttgcaaaaactgttccat	7	10	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:193028476T>C	uc011bsq.1	-	21	2476	c.2476A>G	c.(2476-2478)ATG>GTG	p.M826V		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	826					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		CCAGGAGACATTCTTGCAAAA	0.348													23	196	---	---	---	---	PASS	C	193028476	C	C	193028476	3	2	52	1	0	0	0	0	1	0	0	0	1127	1493	52	5	1218	5	ATP13A5	3	193028476	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	6665836	193028476	4993954	103	19548										
MUC4	4585	broad.mit.edu	37	chr3	195487765	195487765	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggccacttactgagggtggcGttcgcctgctcgtagttttt	13	10	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:195487765G>A	uc011bto.1	-	17	14914	c.14454C>T	c.(14452-14454)AAC>AAT	p.N4818N	MUC4_uc003fuz.2_Silent_p.N544N|MUC4_uc003fva.2_Silent_p.N426N|MUC4_uc003fvb.2_Silent_p.N462N|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Silent_p.N462N|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Silent_p.N426N|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Silent_p.N510N|MUC4_uc011bti.1_Silent_p.N510N|MUC4_uc011btj.1_Silent_p.N687N|MUC4_uc011btk.1_Silent_p.N426N|MUC4_uc011btl.1_Silent_p.N455N|MUC4_uc011btm.1_Silent_p.N635N|MUC4_uc011btn.1_Silent_p.N426N|MUC4_uc003fvo.2_Silent_p.N710N|MUC4_uc003fvp.2_Silent_p.N659N	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1703					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TGAGGGTGGCGTTCGCCTGCT	0.582													14	202	---	---	---	---	PASS	A	195487765	A	A	195487765	2	1	52	1	0	0	0	0	0	0	0	1	9978	1136	40	1		1	MUC4	3	195487765	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	2459289	195487765	2534665	104	19549										
MUC4	4585	broad.mit.edu	37	chr3	195515857	195515857	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aggtgccggggacgatcgaaGacgccattcctgtgcttact	13	11	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:195515857G>A	uc011bto.1	-	2	3054	c.2594C>T	c.(2593-2595)TCT>TTT	p.S865F	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.S747F	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	870	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GACGATCGAAGACGCCATTCC	0.587													10	98	---	---	---	---	PASS	A	195515857	A	A	195515857	3	1	52	1	0	0	0	0	1	0	0	0	9978	942	33	2		2	MUC4	3	195515857	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	28092	195515857	2506573	105	19550										
MUC4	4585	broad.mit.edu	37	chr3	195515959	195515959	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgtccctggaggggtttgatGaaaaccttgtcgtctctcct	11	10	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:195515959G>A	uc011bto.1	-	2	2952	c.2492C>T	c.(2491-2493)TCA>TTA	p.S831L	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.S713L	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	836	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGGGTTTGATGAAAACCTTGT	0.567													23	202	---	---	---	---	PASS	A	195515959	A	A	195515959	3	1	52	1	0	0	0	0	1	0	0	0	9978	1294	45	2		2	MUC4	3	195515959	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	102	195515959	2506471	106	19551										
MUC4	4585	broad.mit.edu	37	chr3	195517057	195517057	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agaatgagctcctctcatgaGgccgtcctgtggtctctgca	11	12	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:195517057G>A	uc011bto.1	-	2	1854	c.1394C>T	c.(1393-1395)CCT>CTT	p.P465L	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.P347L	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	470					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		CCTCTCATGAGGCCGTCCTGT	0.493													55	514	---	---	---	---	PASS	A	195517057	A	A	195517057	3	1	52	1	0	0	0	0	1	0	0	0	9978	1000	35	3		3	MUC4	3	195517057	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1098	195517057	2505373	107	19552										
DLG1	1739	broad.mit.edu	37	chr3	196792249	196792249	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcctggatatctttttccatCtgctctcttgaagtcacaaa	5	11	4	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:196792249C>T	uc003fxo.3	-	23	2494	c.2304G>A	c.(2302-2304)CAG>CAA	p.Q768Q	DLG1_uc011bub.1_Silent_p.Q664Q|DLG1_uc011buc.1_Silent_p.Q652Q|DLG1_uc011bud.1_Silent_p.Q451Q|DLG1_uc003fxn.3_Silent_p.Q790Q|DLG1_uc011bue.1_Silent_p.Q756Q|DLG1_uc010ial.2_Silent_p.Q768Q	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	768	Guanylate kinase-like.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		CTTTTTCCATCTGCTCTCTTG	0.353													48	448	---	---	---	---	PASS	T	196792249	T	T	196792249	2	4	52	1	0	0	0	0	0	0	0	1	4554	912	32	2		2	DLG1	3	196792249	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	1275192	196792249	1230181	108	19553										
IQCG	84223	broad.mit.edu	37	chr3	197665535	197665535	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gcgaaccggcctctgtgtctGatttctggcaagttgggtcc	13	11	3	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr3:197665535G>C	uc003fyo.2	-	4	545	c.399C>G	c.(397-399)ATC>ATG	p.I133M	IQCG_uc003fyn.2_Missense_Mutation_p.I35M|IQCG_uc003fyp.2_Missense_Mutation_p.I133M|IQCG_uc003fyq.3_Missense_Mutation_p.I133M	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	133											0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;7.19e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.149)		CTCTGTGTCTGATTTCTGGCA	0.438													686	232	---	---	---	---	PASS	C	197665535	C	C	197665535	3	2	52	1	0	0	0	0	1	0	0	0	7810	1280	45	2	964	2	IQCG	3	197665535	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	873286	197665535	356895	109	19554										
ADRA2C	152	broad.mit.edu	37	chr4	3768879	3768879	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tggctcatctcggccgtcatCtccttcccgccgctggtctc	9	18	5	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:3768879C>G	uc003ghm.2	+	1	584	c.546C>G	c.(544-546)ATC>ATG	p.I182M	ADRA2C_uc010icx.2_Missense_Mutation_p.I182M	NM_000683	NP_000674	P18825	ADA2C_HUMAN	alpha-2C-adrenergic receptor	182	Helical; Name=4; (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation|regulation of insulin secretion	endosome|integral to plasma membrane	alpha-2A adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|protein heterodimerization activity|protein homodimerization activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)	Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	CGGCCGTCATCTCCTTCCCGC	0.672													3	13	---	---	---	---	PASS	G	3768879	G	G	3768879	3	3	52	1	0	0	0	0	1	0	0	0	339	903	32	2	548	2	ADRA2C	4	3768879	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08		3768879	187385397	110	19555										
JAKMIP1	152789	broad.mit.edu	37	chr4	6050631	6050631	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agcttggattattgcaacctGttcttcatttctcaaattct	5	9	4	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:6050631G>C	uc010idb.1	-	16	2467	c.1981C>G	c.(1981-1983)CAG>GAG	p.Q661E	JAKMIP1_uc010idc.1_Missense_Mutation_p.Q476E|JAKMIP1_uc010idd.1_Intron	NM_001099433	NP_001092903	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						ATTGCAACCTGTTCTTCATTT	0.468													12	46	---	---	---	---	PASS	C	6050631	C	C	6050631	3	2	52	1	0	0	0	0	1	0	0	0	7940	1386	48	4	538	4	JAKMIP1	4	6050631	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2281752	6050631	185103645	111	19556										
CPZ	8532	broad.mit.edu	37	chr4	8603071	8603071	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggtgtgagggcggctgggtgCgcagaccctgccggcacatc	18	12	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:8603071C>T	uc003glm.2	+	3	469	c.343C>T	c.(343-345)CGC>TGC	p.R115C	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_5'UTR|CPZ_uc003glo.2_Missense_Mutation_p.R104C|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	115	FZ.				proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						CGGCTGGGTGCGCAGACCCTG	0.692													15	14	---	---	---	---	PASS	T	8603071	T	T	8603071	3	4	52	1	0	0	0	0	1	0	0	0	3839	768	27	1	353	1	CPZ	4	8603071	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2552440	8603071	182551205	112	19557										
KLB	152831	broad.mit.edu	37	chr4	39449075	39449075	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaagtactacctagggaagtAccttcaggaggtgctgaaag	13	7	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:39449075A>T	uc003gua.2	+	4	2826	c.2729A>T	c.(2728-2730)TAC>TTC	p.Y910F	KLB_uc011byj.1_Missense_Mutation_p.Y901F	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	910	Extracellular (Potential).|Glycosyl hydrolase-1 2.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						CTAGGGAAGTACCTTCAGGAG	0.572													23	64	---	---	---	---	PASS	T	39449075	T	T	39449075	3	4	52	1	0	0	0	0	1	0	0	0	8332	391	14	5	2743	5	KLB	4	39449075	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	30846004	39449075	151705201	113	19558										
GNPDA2	132789	broad.mit.edu	37	chr4	44709814	44709814	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcttaattctaaagtagcatCttcatcgcatacaaaaatag	4	8	4	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:44709814C>G	uc003gwy.2	-	6	881	c.724G>C	c.(724-726)GAT>CAT	p.D242H	GNPDA2_uc010iga.2_Missense_Mutation_p.D208H|GNPDA2_uc011bzb.1_Missense_Mutation_p.D172H|GNPDA2_uc003gwz.1_Missense_Mutation_p.D242H	NM_138335	NP_612208	Q8TDQ7	GNPI2_HUMAN	glucosamine-6-phosphate deaminase 2	242					N-acetylglucosamine metabolic process	cytoplasm	glucosamine-6-phosphate deaminase activity|hydrolase activity			ovary(1)	1						AAAGTAGCATCTTCATCGCAT	0.393													29	16	---	---	---	---	PASS	G	44709814	G	G	44709814	3	3	52	1	0	0	0	0	1	0	0	0	6543	913	32	2	114	2	GNPDA2	4	44709814	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	5260739	44709814	146444462	114	19559										
GABRA4	2557	broad.mit.edu	37	chr4	46967219	46967219	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtcgtgcactgatgcttagtGtggtcatggtgaggacagtt	15	6	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:46967219G>C	uc003gxg.2	-	8	1041	c.902C>G	c.(901-903)ACA>AGA	p.T301R		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	301	Helical; (Probable).				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			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GATGCTTAGTGTGGTCATGGT	0.448													4	137	---	---	---	---	PASS	C	46967219	C	C	46967219	3	2	52	1	0	0	0	0	1	0	0	0	6163	1377	48	4	770	4	GABRA4	4	46967219	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2257405	46967219	144187057	115	19560										
MEPE	56955	broad.mit.edu	37	chr4	88766127	88766127	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	catattgaaaattgtattttAgcaggaagaaaaaaacaaag	7	3	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:88766127A>T	uc003hqy.2	+	4	148	c.109_splice	c.e4-2	p.Q37_splice	MEPE_uc010ikn.2_Splice_Site	NM_020203	NP_064588	Q9NQ76	MEPE_HUMAN	matrix, extracellular phosphoglycoprotein with						skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			ovary(1)|lung(1)|skin(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000432)		ATTGTATTTTAGCAGGAAGAA	0.244													13	29	---	---	---	---	PASS	T	88766127	T	T	88766127	5	4	52	1	0	0	0	0	0	0	1	0	9478	434	15	5	117	5	MEPE	4	88766127	Splice_Site	SNP	A	TCGA-22-5491-01A-01D-1632-08	41798908	88766127	102388149	116	19561										
H2AFZ	3015	broad.mit.edu	37	chr4	100870459	100870459	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaggtactccaggatggctgCgctgtacacagcggcagtcg	15	11	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:100870459C>G	uc003hvo.1	-	3	351	c.166G>C	c.(166-168)GCA>CCA	p.A56P	DNAJB14_uc003hvl.2_5'Flank|DNAJB14_uc010ili.2_5'Flank|DNAJB14_uc003hvm.2_5'Flank|H2AFZ_uc003hvn.1_3'UTR|LOC256880_uc003hvp.1_5'Flank	NM_002106	NP_002097	P0C0S5	H2AZ_HUMAN	H2A histone family, member Z	56					nucleosome assembly	nucleosome|nucleus	DNA binding				0				OV - Ovarian serous cystadenocarcinoma(123;2.32e-08)		AGGATGGCTGCGCTGTACACA	0.552											OREG0016271	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	34	---	---	---	---	PASS	G	100870459	G	G	100870459	3	3	52	1	0	0	0	0	1	0	0	0	6931	768	27	4	232	4	H2AFZ	4	100870459	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	12104332	100870459	90283817	117	19562										
ANKRD50	57182	broad.mit.edu	37	chr4	125592435	125592435	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctttgttcacttcagcgccaTgttgtagcaaattcagtaca	7	10	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:125592435T>C	uc003ifg.3	-	3	2263	c.1997A>G	c.(1996-1998)CAT>CGT	p.H666R	ANKRD50_uc011cgo.1_Missense_Mutation_p.H487R|ANKRD50_uc010inw.2_Missense_Mutation_p.H666R	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	666	ANK 6.									central_nervous_system(1)	1						TTCAGCGCCATGTTGTAGCAA	0.468													4	97	---	---	---	---	PASS	C	125592435	C	C	125592435	3	2	52	1	0	0	0	0	1	0	0	0	677	1464	51	5	2296	5	ANKRD50	4	125592435	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	24721976	125592435	65561841	118	19563										
PCDH18	54510	broad.mit.edu	37	chr4	138452960	138452960	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtttttctggcacagttgttCacggtcaattgtagccccta	9	10	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:138452960C>G	uc003ihe.3	-	1	670	c.283G>C	c.(283-285)GAA>CAA	p.E95Q	PCDH18_uc003ihf.3_Missense_Mutation_p.E88Q|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Intron|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	95	Extracellular (Potential).|Cadherin 1.				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					CACAGTTGTTCACGGTCAATT	0.433													51	135	---	---	---	---	PASS	G	138452960	G	G	138452960	3	3	52	1	0	0	0	0	1	0	0	0	11513	835	29	2	3140	2	PCDH18	4	138452960	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	12860525	138452960	52701316	119	19564										
INPP4B	8821	broad.mit.edu	37	chr4	143114254	143114254	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acttactttcttctttctgtTtcaaatctatggagtagctt	5	8	5	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:143114254T>G	uc003iix.3	-	16	1762	c.1167A>C	c.(1165-1167)GAA>GAC	p.E389D	INPP4B_uc003iiw.3_Missense_Mutation_p.E389D|INPP4B_uc011chm.1_RNA|INPP4B_uc011chn.1_Missense_Mutation_p.E204D|INPP4B_uc011cho.1_RNA|INPP4B_uc011chp.1_Missense_Mutation_p.E260D	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	389					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					TTCTTTCTGTTTCAAATCTAT	0.438													4	90	---	---	---	---	PASS	G	143114254	G	G	143114254	3	3	52	1	0	0	0	0	1	0	0	0	7753	1838	64	5	1655	5	INPP4B	4	143114254	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	4661294	143114254	48040022	120	19565										
LRAT	9227	broad.mit.edu	37	chr4	155670262	155670262	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cccttcctgcaatttttattCcattcttcctatggatggct	5	12	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:155670262C>A	uc003iom.1	+	2	994	c.667C>A	c.(667-669)CCA>ACA	p.P223T	LRAT_uc003ion.1_Missense_Mutation_p.P223T	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	223	Lumenal (By similarity).				response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)	AATTTTTATTCCATTCTTCCT	0.393													50	125	---	---	---	---	PASS	A	155670262	A	A	155670262	3	1	52	1	0	0	0	0	1	0	0	0	8930	855	30	2	673	2	LRAT	4	155670262	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	12556008	155670262	35484014	121	19566										
TKTL2	84076	broad.mit.edu	37	chr4	164394680	164394680	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctggagaggatgaaccggtcGttgtccgggtgttctgggtc	17	8	1	2	rs114941835	by1000genomes	TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:164394680G>T	uc003iqp.3	-	1	368	c.207C>A	c.(205-207)AAC>AAA	p.N69K		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	69						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TGAACCGGTCGTTGTCCGGGT	0.557													8	20	---	---	---	---	PASS	T	164394680	T	T	164394680	3	4	52	1	0	0	0	0	1	0	0	0	15933	1136	40	1	1677	1	TKTL2	4	164394680	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	8724418	164394680	26759596	122	19567										
DDX60	55601	broad.mit.edu	37	chr4	169157421	169157421	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acctttgattgataaaactcGaagtgtgcatcttggaactt	8	7	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:169157421G>A	uc003irp.2	-	33	4807	c.4515C>T	c.(4513-4515)TTC>TTT	p.F1505F		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	1505							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		GATAAAACTCGAAGTGTGCAT	0.323													3	36	---	---	---	---	PASS	A	169157421	A	A	169157421	2	1	52	1	0	0	0	0	0	0	0	1	4378	1049	37	2		2	DDX60	4	169157421	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	4762741	169157421	21996855	123	19568										
DDX60L	91351	broad.mit.edu	37	chr4	169362543	169362543	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cttcttgttgttctcagaggAaaagactttccaacgttaaa	7	8	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:169362543A>C	uc003irq.3	-	10	1460	c.1239T>G	c.(1237-1239)TTT>TTG	p.F413L	DDX60L_uc003irr.1_Missense_Mutation_p.F413L|DDX60L_uc003irs.1_Missense_Mutation_p.F140L	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	413							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		TTCTCAGAGGAAAAGACTTTC	0.368													19	59	---	---	---	---	PASS	C	169362543	C	C	169362543	3	2	52	1	0	0	0	0	1	0	0	0	4379	243	9	5	3997	5	DDX60L	4	169362543	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	205122	169362543	21791733	124	19569										
ADAM29	11086	broad.mit.edu	37	chr4	175897229	175897229	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aagaaattgataattccactCagaagcaaagttcttatgtg	7	6	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:175897229C>G	uc003iuc.2	+	5	1223	c.553C>G	c.(553-555)CAG>GAG	p.Q185E	ADAM29_uc003iud.2_Missense_Mutation_p.Q185E|ADAM29_uc010irr.2_Missense_Mutation_p.Q185E|ADAM29_uc011cki.1_Missense_Mutation_p.Q185E	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	185					proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		TAATTCCACTCAGAAGCAAAG	0.358													20	39	---	---	---	---	PASS	G	175897229	G	G	175897229	3	3	52	1	0	0	0	0	1	0	0	0	247	827	29	2	555	2	ADAM29	4	175897229	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	6534686	175897229	15257047	125	19570										
VEGFC	7424	broad.mit.edu	37	chr4	177608578	177608578	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gttctttgtggggtccacagCtggcaggccgaagccccgct	14	13	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:177608578C>A	uc003ius.1	-	6	1338	c.908G>T	c.(907-909)AGC>ATC	p.S303I		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	303	4 X 16 AA repeats of C-X(10)-C-X-C- X(1,3)-C.				angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		GGGTCCACAGCTGGCAGGCCG	0.507													27	72	---	---	---	---	PASS	A	177608578	A	A	177608578	3	1	52	1	0	0	0	0	1	0	0	0	17149	797	28	3	362	3	VEGFC	4	177608578	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1711349	177608578	13545698	126	19571										
CCDC110	256309	broad.mit.edu	37	chr4	186380457	186380457	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aggtaattctgtaagtactgAatttttgcaacacactgctc	7	8	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr4:186380457A>C	uc003ixu.3	-	6	1360	c.1284T>G	c.(1282-1284)ATT>ATG	p.I428M	CCDC110_uc003ixv.3_Missense_Mutation_p.I391M|CCDC110_uc011ckt.1_Missense_Mutation_p.I428M	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	428						nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		GTAAGTACTGAATTTTTGCAA	0.323													45	84	---	---	---	---	PASS	C	186380457	C	C	186380457	3	2	52	1	0	0	0	0	1	0	0	0	2747	242	9	5	1225	5	CCDC110	4	186380457	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	8771879	186380457	4773819	127	19572										
PLEKHG4B	153478	broad.mit.edu	37	chr5	161981	161981	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	caggatttcagaaggggcctGagcgccgtggtcagccaggc	16	11	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:161981G>C	uc003jak.2	+	10	1553	c.1503G>C	c.(1501-1503)CTG>CTC	p.L501L		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	501					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		GAAGGGGCCTGAGCGCCGTGG	0.607													9	35	---	---	---	---	PASS	C	161981	C	C	161981	2	2	52	1	0	0	0	0	0	0	0	1	12072	1277	45	2		2	PLEKHG4B	5	161981	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08		161981	180753279	128	19573										
SLC6A19	340024	broad.mit.edu	37	chr5	1219621	1219621	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tctgtcccccggcctgcaggCctcatctgcctggggacatt	11	16	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:1219621C>T	uc003jbw.3	+	10	1436	c.1380C>T	c.(1378-1380)GGC>GGT	p.G460G		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	460	Helical; Name=9; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GGCCTGCAGGCCTCATCTGCC	0.637													9	43	---	---	---	---	PASS	T	1219621	T	T	1219621	2	4	52	1	0	0	0	0	0	0	0	1	14682	753	26	3		3	SLC6A19	5	1219621	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	1057640	1219621	179695639	129	19574										
TERT	7015	broad.mit.edu	37	chr5	1264568	1264568	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccgggtatccagcagcaggcCgcaccaggggaataggccgt	15	13	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:1264568C>T	uc003jcb.1	-	11	2852	c.2794G>A	c.(2794-2796)GGC>AGC	p.G932S	TERT_uc003jbz.1_Missense_Mutation_p.G128S|TERT_uc003jca.1_Missense_Mutation_p.G920S|TERT_uc003jcc.1_Intron|TERT_uc003jcd.1_Intron|TERT_uc003jce.1_Intron	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	932	Primer grip sequence.|Reverse transcriptase.			WCGLL->AAAAA: Completely abolishes telomerase-mediated primer extension and reduced binding to short telomeric primers. Complete loss of catalytic activity but no further loss of binding to telomeric primers; when associated with 137-A--A-141.	anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			AGCAGCAGGCCGCACCAGGGG	0.647									TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				16	22	---	---	---	---	PASS	T	1264568	T	T	1264568	3	4	52	1	0	0	0	0	1	0	0	0	15761	652	23	1	628	1	TERT	5	1264568	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	44947	1264568	179650692	130	19575										
DNAH5	1767	broad.mit.edu	37	chr5	13721263	13721263	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggagacagatgagtggcgtcCgtggatcagattcctcccac	13	11	1	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:13721263C>G	uc003jfd.2	-	71	12167	c.12125G>C	c.(12124-12126)CGG>CCG	p.R4042P	DNAH5_uc003jfc.2_Missense_Mutation_p.R210P	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4042	AAA 6 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GAGTGGCGTCCGTGGATCAGA	0.483									Kartagener_syndrome				42	77	---	---	---	---	PASS	G	13721263	G	G	13721263	3	3	52	1	0	0	0	0	1	0	0	0	4604	652	23	4	1785	4	DNAH5	5	13721263	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	12456695	13721263	167193997	131	19576										
DNAH5	1767	broad.mit.edu	37	chr5	13894861	13894861	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttcatccactttggccaagtGagggacaatcaattgctcaa	8	10	3	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:13894861G>A	uc003jfd.2	-	16	2371	c.2329C>T	c.(2329-2331)CAC>TAC	p.H777Y		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	777	Potential.|Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTGGCCAAGTGAGGGACAATC	0.413									Kartagener_syndrome				28	115	---	---	---	---	PASS	A	13894861	A	A	13894861	3	1	52	1	0	0	0	0	1	0	0	0	4604	1290	45	2	11801	2	DNAH5	5	13894861	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	173598	13894861	167020399	132	19577										
DNAH5	1767	broad.mit.edu	37	chr5	13923469	13923469	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	taccccagtaagagccacatCgtttccctcggtcacgaaca	7	15	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:13923469C>T	uc003jfd.2	-	4	400	c.358G>A	c.(358-360)GAT>AAT	p.D120N	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	120	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGAGCCACATCGTTTCCCTCG	0.458									Kartagener_syndrome				65	166	---	---	---	---	PASS	T	13923469	T	T	13923469	3	4	52	1	0	0	0	0	1	0	0	0	4604	884	31	2	13820	2	DNAH5	5	13923469	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	28608	13923469	166991791	133	19578										
CDH12	1010	broad.mit.edu	37	chr5	21752083	21752083	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcctgtagcctttgatgaatGaaatcccttatgtctgtgtt	8	8	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:21752083G>A	uc010iuc.2	-	12	2606	c.2148C>T	c.(2146-2148)TTC>TTT	p.F716F	CDH12_uc011cno.1_Silent_p.F676F|CDH12_uc003jgk.2_Silent_p.F716F|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	716	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TTTGATGAATGAAATCCCTTA	0.468										HNSCC(59;0.17)			15	77	---	---	---	---	PASS	A	21752083	A	A	21752083	2	1	52	1	0	0	0	0	0	0	0	1	3098	1281	45	2		2	CDH12	5	21752083	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	7828614	21752083	159163177	134	19579										
PDZD2	23037	broad.mit.edu	37	chr5	32048766	32048766	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aaacactccctcccgcagctGctggactcttccagtgcctc	7	18	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:32048766G>A	uc003jhl.2	+	8	2029	c.1641G>A	c.(1639-1641)CTG>CTA	p.L547L	PDZD2_uc003jhm.2_Silent_p.L547L|PDZD2_uc011cnx.1_Silent_p.L373L	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	547					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						TCCCGCAGCTGCTGGACTCTT	0.552													7	63	---	---	---	---	PASS	A	32048766	A	A	32048766	2	1	52	1	0	0	0	0	0	0	0	1	11701	1306	46	3		3	PDZD2	5	32048766	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	10296683	32048766	148866494	135	19580										
NUP155	9631	broad.mit.edu	37	chr5	37305197	37305197	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	attactcagcatatttggatCagatgacaacactggaggac	9	8	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:37305197C>T	uc003jku.1	-	26	3137	c.3019G>A	c.(3019-3021)GAT>AAT	p.D1007N	NUP155_uc003jkt.1_Missense_Mutation_p.D948N|NUP155_uc010iuz.1_Missense_Mutation_p.D943N	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	1007					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ATATTTGGATCAGATGACAAC	0.408													50	170	---	---	---	---	PASS	T	37305197	T	T	37305197	3	4	52	1	0	0	0	0	1	0	0	0	10756	826	29	2	1196	2	NUP155	5	37305197	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	5256431	37305197	143610063	136	19581										
EGFLAM	133584	broad.mit.edu	37	chr5	38338836	38338836	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttggcgcagataaatccctgCaggagcagttgcacagcgtg	13	10	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:38338836C>T	uc003jlc.1	+	3	568	c.244C>T	c.(244-246)CAG>TAG	p.Q82*	EGFLAM_uc003jlb.1_Nonsense_Mutation_p.Q82*	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	82	Fibronectin type-III 1.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					TAAATCCCTGCAGGAGCAGTT	0.542													18	37	---	---	---	---	PASS	T	38338836	T	T	38338836	4	4	52	1	0	0	0	0	0	1	0	0	4966	711	25	3	254	3	EGFLAM	5	38338836	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1033639	38338836	142576424	137	19582										
HEATR7B2	133558	broad.mit.edu	37	chr5	41004926	41004926	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gagccctcggatggccatctGcctcagagtggcgttggagt	15	11	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:41004926G>T	uc003jmj.3	-	36	4451	c.3961C>A	c.(3961-3963)CAG>AAG	p.Q1321K	HEATR7B2_uc003jmi.3_Missense_Mutation_p.Q876K	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1321							binding			ovary(6)|central_nervous_system(2)	8						ATGGCCATCTGCCTCAGAGTG	0.493													27	27	---	---	---	---	PASS	T	41004926	T	T	41004926	3	4	52	1	0	0	0	0	1	0	0	0	7035	1328	46	3	824	3	HEATR7B2	5	41004926	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2666090	41004926	139910334	138	19583										
HEATR7B2	133558	broad.mit.edu	37	chr5	41069802	41069802	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gttttccctaccttgttaacAatatcttccttgttcagcat	4	11	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:41069802A>G	uc003jmj.3	-	2	571	c.81T>C	c.(79-81)ATT>ATC	p.I27I		NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	27							binding			ovary(6)|central_nervous_system(2)	8						CCTTGTTAACAATATCTTCCT	0.328													6	9	---	---	---	---	PASS	G	41069802	G	G	41069802	2	3	52	1	0	0	0	0	0	0	0	1	7035	126	5	5		5	HEATR7B2	5	41069802	Silent	SNP	A	TCGA-22-5491-01A-01D-1632-08	64876	41069802	139845458	139	19584										
MCCC2	64087	broad.mit.edu	37	chr5	70900248	70900248	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cagatcgagaccactttggcCgtacattctataatcaggca	8	11	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:70900248C>A	uc003kbs.3	+	6	715	c.577C>A	c.(577-579)CGT>AGT	p.R193S	MCCC2_uc010iyv.1_Missense_Mutation_p.R193S|MCCC2_uc003kbt.3_RNA|MCCC2_uc003kbu.1_Missense_Mutation_p.R62S	NM_022132	NP_071415	Q9HCC0	MCCB_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 2 (beta)	193	Carboxyltransferase.		R -> C (in MCC2 deficiency; mild form).		leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)	1		Lung NSC(167;0.000697)|Prostate(74;0.0107)|Ovarian(174;0.0175)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.04e-54)	Biotin(DB00121)	CCACTTTGGCCGTACATTCTA	0.368													3	80	---	---	---	---	PASS	A	70900248	A	A	70900248	3	1	52	1	0	0	0	0	1	0	0	0	9375	652	23	1	599	1	MCCC2	5	70900248	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	29830446	70900248	110015012	140	19585										
BHMT	635	broad.mit.edu	37	chr5	78411716	78411716	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aagctgctgtggagcacccaGaagcaggttggtgcagagct	15	9	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:78411716G>A	uc003kfu.3	+	2	265	c.160G>A	c.(160-162)GAA>AAA	p.E54K	BHMT_uc011cti.1_Missense_Mutation_p.E54K	NM_001713	NP_001704	Q93088	BHMT1_HUMAN	betaine-homocysteine methyltransferase	54	Hcy-binding.				protein methylation|regulation of homocysteine metabolic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)	GGAGCACCCAGAAGCAGGTTG	0.363													12	24	---	---	---	---	PASS	A	78411716	A	A	78411716	3	1	52	1	0	0	0	0	1	0	0	0	1425	943	33	2	166	2	BHMT	5	78411716	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	7511468	78411716	102503544	141	19586										
FAM172A	83989	broad.mit.edu	37	chr5	93388891	93388891	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aaaatcaagaggcggttcatCttttttcattagttcatcca	6	8	5	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:93388891C>T	uc010jbd.2	-	3	355	c.148G>A	c.(148-150)GAT>AAT	p.D50N	FAM172A_uc011cuf.1_Missense_Mutation_p.D4N|FAM172A_uc011cug.1_Missense_Mutation_p.D4N|FAM172A_uc011cuh.1_5'UTR|FAM172A_uc011cui.1_RNA|FAM172A_uc011cuj.1_5'UTR|FAM172A_uc003kkm.3_Missense_Mutation_p.D50N	NM_032042	NP_114431	Q8WUF8	F172A_HUMAN	hypothetical protein LOC83989 isoform 1	50						endoplasmic reticulum|extracellular region					0						GGCGGTTCATCTTTTTTCATT	0.244													31	22	---	---	---	---	PASS	T	93388891	T	T	93388891	3	4	52	1	0	0	0	0	1	0	0	0	5492	913	32	2	1138	2	FAM172A	5	93388891	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	14977175	93388891	87526369	142	19587										
FAM172A	83989	broad.mit.edu	37	chr5	93410402	93410402	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tggacctccctgctggatttGtgccatgtttatccaaattg	9	10	0	0	rs143516571		TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:93410402G>C	uc010jbd.2	-	2	262	c.55C>G	c.(55-57)CAA>GAA	p.Q19E	FAM172A_uc011cuf.1_Intron|FAM172A_uc011cug.1_Intron|FAM172A_uc011cuh.1_5'UTR|FAM172A_uc011cui.1_RNA|FAM172A_uc011cuj.1_Intron|FAM172A_uc003kkm.3_Missense_Mutation_p.Q19E	NM_032042	NP_114431	Q8WUF8	F172A_HUMAN	hypothetical protein LOC83989 isoform 1	19						endoplasmic reticulum|extracellular region					0						TGCTGGATTTGTGCCATGTTT	0.338													13	63	---	---	---	---	PASS	C	93410402	C	C	93410402	3	2	52	1	0	0	0	0	1	0	0	0	5492	1386	48	4	1235	4	FAM172A	5	93410402	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	21511	93410402	87504858	143	19588										
CAMK4	814	broad.mit.edu	37	chr5	110820063	110820063	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agggcctagcagaggagaagCtgaagactgtggaggaggca	18	6	0	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:110820063C>A	uc011cvj.1	+	12	1420	c.1321C>A	c.(1321-1323)CTG>ATG	p.L441M	CAMK4_uc003kpf.2_Missense_Mutation_p.L441M|CAMK4_uc010jbv.2_Missense_Mutation_p.L244M|CAMK4_uc003kpg.2_Missense_Mutation_p.L132M	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	441					activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		AGAGGAGAAGCTGAAGACTGT	0.537													31	10	---	---	---	---	PASS	A	110820063	A	A	110820063	3	1	52	1	0	0	0	0	1	0	0	0	2605	796	28	3	1363	3	CAMK4	5	110820063	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	17409661	110820063	70095197	144	19589										
FBN2	2201	broad.mit.edu	37	chr5	127670448	127670448	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cccttcttcactgagtaaccCagctgacagtggcaaatgaa	8	12	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:127670448C>G	uc003kuu.2	-	31	4501	c.4062G>C	c.(4060-4062)CTG>CTC	p.L1354L	FBN2_uc003kuv.2_Silent_p.L1321L	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1354	EGF-like 21; calcium-binding.				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)		CTGAGTAACCCAGCTGACAGT	0.408													72	19	---	---	---	---	PASS	G	127670448	G	G	127670448	2	3	52	1	0	0	0	0	0	0	0	1	5703	581	21	4		4	FBN2	5	127670448	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	16850385	127670448	53244812	145	19590										
ADAMTS19	171019	broad.mit.edu	37	chr5	128957936	128957936	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	caaacaaatccgcagagtgtCaattctgtgatggttccctc	8	11	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:128957936C>T	uc003kvb.1	+	10	1647	c.1647C>T	c.(1645-1647)GTC>GTT	p.V549V	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	549	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		CGCAGAGTGTCAATTCTGTGA	0.433													18	39	---	---	---	---	PASS	T	128957936	T	T	128957936	2	4	52	1	0	0	0	0	0	0	0	1	264	813	29	2		2	ADAMTS19	5	128957936	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	1287488	128957936	51957324	146	19591										
SKP1	6500	broad.mit.edu	37	chr5	133496743	133496743	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttggtcccaaacagggatatCatctgttcgcttttctttgt	8	9	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:133496743C>T	uc003kzc.3	-	4	429	c.250G>A	c.(250-252)GAT>AAT	p.D84N	SKP1_uc003kzd.3_Missense_Mutation_p.D84N|SKP1_uc010jdv.2_Missense_Mutation_p.D84N	NM_170679	NP_733779	P63208	SKP1_HUMAN	S-phase kinase-associated protein 1 isoform b	84					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|G1/S transition of mitotic cell cycle|histone H2A monoubiquitination|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|viral reproduction	cytosol|nucleoplasm|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ACAGGGATATCATCTGTTCGC	0.413													17	30	---	---	---	---	PASS	T	133496743	T	T	133496743	3	4	52	1	0	0	0	0	1	0	0	0	14361	826	29	2	280	2	SKP1	5	133496743	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	4538807	133496743	47418517	147	19592										
CAMLG	819	broad.mit.edu	37	chr5	134086614	134086614	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcttttgtcatgaactgcttGattattggggctctgaagta	10	6	3	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:134086614G>C	uc003kzt.2	+	4	970	c.865G>C	c.(865-867)GAT>CAT	p.D289H	CAMLG_uc003kzu.2_3'UTR	NM_001745	NP_001736	P49069	CAMLG_HUMAN	calcium modulating ligand	289	Cytoplasmic (Potential).				defense response	endoplasmic reticulum|integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Cyclosporine(DB00091)	TGAACTGCTTGATTATTGGGG	0.368													36	14	---	---	---	---	PASS	C	134086614	C	C	134086614	3	2	52	1	0	0	0	0	1	0	0	0	2609	1290	45	2	879	2	CAMLG	5	134086614	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	589871	134086614	46828646	148	19593										
CXXC5	51523	broad.mit.edu	37	chr5	139060756	139060756	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tacctgggcgctttccccatCaacccaggcctcttcattat	6	16	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:139060756C>T	uc010jfg.1	+	2	938	c.648C>T	c.(646-648)ATC>ATT	p.I216I	CXXC5_uc003let.2_Silent_p.I216I	NM_016463	NP_057547	Q7LFL8	CXXC5_HUMAN	CXXC finger 5	216					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|nucleus	DNA binding|signal transducer activity|zinc ion binding			central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTTCCCCATCAACCCAGGCC	0.657													10	31	---	---	---	---	PASS	T	139060756	T	T	139060756	2	4	52	1	0	0	0	0	0	0	0	1	4099	816	29	2		2	CXXC5	5	139060756	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	4974142	139060756	41854504	149	19594										
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139905841	139905841	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	taaatggagaacctagaggtGgtggtgcaggtgggaatagt	17	3	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:139905841G>T	uc003lfs.1	+	26	4877	c.4753G>T	c.(4753-4755)GGT>TGT	p.G1585C	ANKHD1_uc003lfr.2_Missense_Mutation_p.G1585C|ANKHD1_uc003lfu.1_Missense_Mutation_p.G1065C|ANKHD1-EIF4EBP3_uc011czh.1_Missense_Mutation_p.G324C|ANKHD1_uc003lfw.2_Missense_Mutation_p.G223C|ANKHD1_uc010jfl.2_Missense_Mutation_p.G20C|ANKHD1-EIF4EBP3_uc003lfx.1_5'Flank	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1585						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCTAGAGGTGGTGGTGCAGG	0.398													40	103	---	---	---	---	PASS	T	139905841	T	T	139905841	3	4	52	1	0	0	0	0	1	0	0	0	629	1348	47	3	4855	3	ANKHD1-EIF4EBP3	5	139905841	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	845085	139905841	41009419	150	19595										
PCDHGA2	56113	broad.mit.edu	37	chr5	140719400	140719400	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tagagaaaagccctggagaaAcctcagaggtatttgagctt	11	7	1	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:140719400A>T	uc003ljk.1	+	1	1047	c.862A>T	c.(862-864)ACC>TCC	p.T288S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.T288S	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	288	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTGGAGAAACCTCAGAGGT	0.448													11	149	---	---	---	---	PASS	T	140719400	T	T	140719400	3	4	52	1	0	0	0	0	1	0	0	0	11554	43	2	5	864	5	PCDHGA2	5	140719400	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	813559	140719400	40195860	151	19596										
PTTG1	9232	broad.mit.edu	37	chr5	159855639	159855639	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtctccttcaagcattctgtCgaccctggatgttgaattgc	9	11	3	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:159855639C>T	uc003lyj.2	+	6	605	c.560C>T	c.(559-561)TCG>TTG	p.S187L	PTTG1_uc003lyk.2_Missense_Mutation_p.S187L	NM_004219	NP_004210	O95997	PTTG1_HUMAN	pituitary tumor-transforming protein 1	187					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|chromosome organization|chromosome segregation|DNA repair|mitosis|spermatogenesis|transcription from RNA polymerase II promoter	cytosol|nucleus	cysteine-type endopeptidase inhibitor activity|sequence-specific DNA binding transcription factor activity|SH3 domain binding				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.00219)|Epithelial(171;0.00348)|all cancers(165;0.0104)		AGCATTCTGTCGACCCTGGAT	0.348													112	58	---	---	---	---	PASS	T	159855639	T	T	159855639	3	4	52	1	0	0	0	0	1	0	0	0	12819	893	31	2	578	2	PTTG1	5	159855639	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	19136239	159855639	21059621	152	19597										
ADAMTS2	9509	broad.mit.edu	37	chr5	178634588	178634588	+	Missense_Mutation	SNP	C	A	A													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	caccacagagtcatccacgcCcagcaggacctcgatgttgt							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:178634588C>A	uc003mjw.2	-	4	817	c.817G>T	c.(817-819)GGC>TGC	p.G273C	ADAMTS2_uc011dgm.1_Missense_Mutation_p.G273C	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	273	Peptidase M12B.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		TCATCCACGCCCAGCAGGACC	0.627													73	41	---	---	---	---	PASS	A	178634588	A	A	178634588	3	1	52	1	0	0	0	0	1	0	0	0	265	623	22	3	2969	3	ADAMTS2	5	178634588	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	18778949	178634588	2280672	153	19598	437	2								
ADAMTS2	9509	broad.mit.edu	37	chr5	178634589	178634589	+	Silent	SNP	C	A	A													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	accacagagtcatccacgccCagcaggacctcgatgttgta							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:178634589C>A	uc003mjw.2	-	4	816	c.816G>T	c.(814-816)CTG>CTT	p.L272L	ADAMTS2_uc011dgm.1_Silent_p.L272L	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	272	Peptidase M12B.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CATCCACGCCCAGCAGGACCT	0.622													74	40	---	---	---	---	PASS	A	178634589	A	A	178634589	2	1	52	1	0	0	0	0	0	0	0	1	265	581	21	3		3	ADAMTS2	5	178634589	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	1	178634589	2280671	154	19599	437	2								
CNOT6	57472	broad.mit.edu	37	chr5	180001041	180001041	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cagctgaacaccttaggcatCctgggccctctggaccacca	9	16	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr5:180001041C>A	uc003mlx.2	+	12	1864	c.1515C>A	c.(1513-1515)ATC>ATA	p.I505I	CNOT6_uc010jld.2_Silent_p.I505I|CNOT6_uc010jle.2_Silent_p.I500I	NM_015455	NP_056270	Q9ULM6	CNOT6_HUMAN	CCR4-NOT transcription complex, subunit 6	505					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	exonuclease activity|metal ion binding|protein binding|RNA binding				0	all_cancers(89;3.3e-05)|all_epithelial(37;7.38e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00543)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.023)		CCTTAGGCATCCTGGGCCCTC	0.463													13	76	---	---	---	---	PASS	A	180001041	A	A	180001041	2	1	52	1	0	0	0	0	0	0	0	1	3622	845	30	2		2	CNOT6	5	180001041	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	1366452	180001041	914219	155	19600										
FOXF2	2295	broad.mit.edu	37	chr6	1390512	1390512	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcgtacatcgcgctcatcgtCatggccatccagagctcgcc	9	16	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:1390512C>T	uc003mtm.2	+	1	444	c.330C>T	c.(328-330)GTC>GTT	p.V110V	FOXF2_uc003mtn.2_Silent_p.V110V	NM_001452	NP_001443	Q12947	FOXF2_HUMAN	forkhead box F2	110	Fork-head.				epithelial to mesenchymal transition|genitalia development|palate development|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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 factor binding				0	Ovarian(93;0.0733)	all_lung(73;0.0713)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.095)		CGCTCATCGTCATGGCCATCC	0.552													8	15	---	---	---	---	PASS	T	1390512	T	T	1390512	2	4	52	1	0	0	0	0	0	0	0	1	6006	813	29	2		2	FOXF2	6	1390512	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08		1390512	169724555	156	19601										
JARID2	3720	broad.mit.edu	37	chr6	15501270	15501270	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccccagaactgcccaggaccGgctggccaagctgcaggagg	14	15	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:15501270G>A	uc003nbj.2	+	8	2322	c.2078G>A	c.(2077-2079)CGG>CAG	p.R693Q	JARID2_uc011div.1_Missense_Mutation_p.R521Q|JARID2_uc011diw.1_Missense_Mutation_p.R655Q	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	693	ARID.				central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				GCCCAGGACCGGCTGGCCAAG	0.587													29	72	---	---	---	---	PASS	A	15501270	A	A	15501270	3	1	52	1	0	0	0	0	1	0	0	0	7945	1116	39	1	2108	1	JARID2	6	15501270	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	14110758	15501270	155613797	157	19602										
BTN2A2	10385	broad.mit.edu	37	chr6	26393175	26393175	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gcctgaaacttcacagagtgGggacccaccagagcctatag	11	12	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:26393175G>T	uc003nhq.2	+	8	1638	c.1552G>T	c.(1552-1554)GGG>TGG	p.G518W	BTN2A2_uc011dkg.1_3'UTR|BTN2A2_uc003nhr.2_Missense_Mutation_p.G402W|BTN2A2_uc011dkh.1_Missense_Mutation_p.G308W|BTN2A2_uc003nhs.2_Intron|BTN2A2_uc003nht.2_Missense_Mutation_p.G518W|BTN2A2_uc011dki.1_3'UTR	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	518	Cytoplasmic (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						TCACAGAGTGGGGACCCACCA	0.557													7	52	---	---	---	---	PASS	T	26393175	T	T	26393175	3	4	52	1	0	0	0	0	1	0	0	0	1561	1232	43	3	1578	3	BTN2A2	6	26393175	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	10891905	26393175	144721892	158	19603										
ZNF192	7745	broad.mit.edu	37	chr6	28121755	28121755	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aagtctcattcgacatcagaGaatccacagtggtgaaaaat	8	8	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:28121755G>C	uc003nkn.1	+	6	1881	c.1697G>C	c.(1696-1698)AGA>ACA	p.R566T	ZNF192_uc010jqx.1_Missense_Mutation_p.R566T|ZNF192_uc010jqy.1_Missense_Mutation_p.R379T|ZNF192_uc011dkz.1_Missense_Mutation_p.R379T	NM_006298	NP_006289	Q15776	ZN192_HUMAN	zinc finger protein 192	566	C2H2-type 9.				viral reproduction	cytoplasm|nucleolus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CGACATCAGAGAATCCACAGT	0.428													4	92	---	---	---	---	PASS	C	28121755	C	C	28121755	3	2	52	1	0	0	0	0	1	0	0	0	17753	942	33	2	1715	2	ZNF192	6	28121755	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1728580	28121755	142993312	159	19604										
ZKSCAN3	80317	broad.mit.edu	37	chr6	28333415	28333415	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atgaatgtggaaagagttttGctcaaagctcaggcctgagt	12	6	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:28333415G>A	uc003nle.3	+	6	1186	c.970G>A	c.(970-972)GCT>ACT	p.A324T	ZKSCAN3_uc010jrc.2_Missense_Mutation_p.A324T|ZKSCAN3_uc003nlf.3_Missense_Mutation_p.A176T|uc010jrd.2_5'Flank	NM_024493	NP_077819	Q9BRR0	ZKSC3_HUMAN	zinc finger with KRAB and SCAN domains 3	324	C2H2-type 1.				positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	chromatin binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						AAAGAGTTTTGCTCAAAGCTC	0.507													28	21	---	---	---	---	PASS	A	28333415	A	A	28333415	3	1	52	1	0	0	0	0	1	0	0	0	17685	1319	46	3	988	3	ZKSCAN3	6	28333415	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	211660	28333415	142781652	160	19605										
MDC1	9656	broad.mit.edu	37	chr6	30672362	30672362	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aaggctggagctcaggggctGcgggcacaactgtttcaggg	17	9	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:30672362G>T	uc003nrg.3	-	10	5038	c.4598C>A	c.(4597-4599)GCA>GAA	p.A1533E	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Missense_Mutation_p.A1140E	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1533	Interaction with the PRKDC complex.			A -> T (in Ref. 4; BAC54931/BAF31266).	cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						CTCAGGGGCTGCGGGCACAAC	0.592								Other_conserved_DNA_damage_response_genes					5	230	---	---	---	---	PASS	T	30672362	T	T	30672362	3	4	52	1	0	0	0	0	1	0	0	0	9403	1319	46	3	1695	3	MDC1	6	30672362	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2338947	30672362	140442705	161	19606										
ZBTB12	221527	broad.mit.edu	37	chr6	31868521	31868521	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggctttcagctccaagtcttCatccagtgggaactccagct	9	13	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:31868521C>T	uc003nyd.1	-	2	738	c.562G>A	c.(562-564)GAA>AAA	p.E188K	C2_uc003nyc.2_Intron|C2_uc011doo.1_Intron|C2_uc011dop.1_5'Flank	NM_181842	NP_862825	Q9Y330	ZBT12_HUMAN	zinc finger and BTB domain containing 12	188					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCCAAGTCTTCATCCAGTGGG	0.622													12	40	---	---	---	---	PASS	T	31868521	T	T	31868521	3	4	52	1	0	0	0	0	1	0	0	0	17522	835	29	2	821	2	ZBTB12	6	31868521	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1196159	31868521	139246546	162	19607										
ZBTB12	221527	broad.mit.edu	37	chr6	31868998	31868998	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cacgtcgcagaaccgctcctCtgcccggagctggttcatgt	11	15	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:31868998C>T	uc003nyd.1	-	2	261	c.85G>A	c.(85-87)GAG>AAG	p.E29K	C2_uc003nyc.2_Intron|C2_uc011doo.1_Intron|C2_uc011dop.1_Intron	NM_181842	NP_862825	Q9Y330	ZBT12_HUMAN	zinc finger and BTB domain containing 12	29					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AACCGCTCCTCTGCCCGGAGC	0.652													12	32	---	---	---	---	PASS	T	31868998	T	T	31868998	3	4	52	1	0	0	0	0	1	0	0	0	17522	922	32	2	1298	2	ZBTB12	6	31868998	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	477	31868998	139246069	163	19608										
COL11A2	1302	broad.mit.edu	37	chr6	33132203	33132203	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctgagcagccgcaggaaggtGagctggaccacacccactgg	14	13	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:33132203G>A	uc003ocx.1	-	65	5139	c.4911C>T	c.(4909-4911)CTC>CTT	p.L1637L	COL11A2_uc010jul.1_Silent_p.L207L|COL11A2_uc003ocy.1_Silent_p.L1551L|COL11A2_uc003ocz.1_Silent_p.L1530L	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1637	Fibrillar collagen NC1.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						GCAGGAAGGTGAGCTGGACCA	0.652													3	10	---	---	---	---	PASS	A	33132203	A	A	33132203	2	1	52	1	0	0	0	0	0	0	0	1	3668	1277	45	2		2	COL11A2	6	33132203	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	1263205	33132203	137982864	164	19609										
UHRF1BP1	54887	broad.mit.edu	37	chr6	34826439	34826439	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgaggctcttgcccctgactCtatgtcccatccgcggtcaa	9	15	3	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:34826439C>T	uc003oju.3	+	14	2540	c.2306C>T	c.(2305-2307)TCT>TTT	p.S769F	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	769										ovary(3)	3						GCCCCTGACTCTATGTCCCAT	0.502													6	89	---	---	---	---	PASS	T	34826439	T	T	34826439	3	4	52	1	0	0	0	0	1	0	0	0	16965	913	32	2	2360	2	UHRF1BP1	6	34826439	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1694236	34826439	136288628	165	19610										
PI16	221476	broad.mit.edu	37	chr6	36929668	36929668	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctgacctcctgtagggggaaCgtgaaggggaaacggcccta	15	10	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:36929668C>A	uc003ona.2	+	4	838	c.510C>A	c.(508-510)AAC>AAA	p.N170K	PI16_uc003omz.1_Missense_Mutation_p.N170K|PI16_uc003onb.2_Missense_Mutation_p.N170K|PI16_uc011dts.1_5'UTR	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	170	Extracellular (Potential).					extracellular region|integral to membrane	peptidase inhibitor activity				0						GTAGGGGGAACGTGAAGGGGA	0.612													36	43	---	---	---	---	PASS	A	36929668	A	A	36929668	3	1	52	1	0	0	0	0	1	0	0	0	11869	535	19	1	524	1	PI16	6	36929668	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2103229	36929668	134185399	166	19611										
CUL9	23113	broad.mit.edu	37	chr6	43163986	43163986	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtccctgcagccgtgatcctGatgctgaatactgaggggtc	13	11	0	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:43163986G>A	uc003ouk.2	+	10	2643	c.2568G>A	c.(2566-2568)CTG>CTA	p.L856L	CUL9_uc003oul.2_Silent_p.L856L|CUL9_uc010jyk.2_5'UTR	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	856					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						CCGTGATCCTGATGCTGAATA	0.577													6	63	---	---	---	---	PASS	A	43163986	A	A	43163986	2	1	52	1	0	0	0	0	0	0	0	1	4061	1277	45	2		2	CUL9	6	43163986	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	6234318	43163986	127951081	167	19612										
DST	667	broad.mit.edu	37	chr6	56438586	56438586	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agtccagcatttcatccaagCcatcctgcacactcagtgaa	6	14	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:56438586C>T	uc003pdf.2	-	45	6798	c.6770G>A	c.(6769-6771)GGC>GAC	p.G2257D	DST_uc003pcz.3_Missense_Mutation_p.G2079D|DST_uc011dxj.1_Missense_Mutation_p.G2108D|DST_uc011dxk.1_Missense_Mutation_p.G2119D|DST_uc003pcy.3_Missense_Mutation_p.G1753D|DST_uc010kaa.1_RNA	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	4165					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)			TTCATCCAAGCCATCCTGCAC	0.423													32	67	---	---	---	---	PASS	T	56438586	T	T	56438586	3	4	52	1	0	0	0	0	1	0	0	0	4783	739	26	3	10469	3	DST	6	56438586	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	13274600	56438586	114676481	168	19613										
MYO6	4646	broad.mit.edu	37	chr6	76580394	76580394	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atttgcttctggataaacttCgaagtactgtgagtatgctt	9	6	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:76580394C>T	uc003pih.1	+	19	2254	c.1975C>T	c.(1975-1977)CGA>TGA	p.R659*	MYO6_uc003pig.1_Nonsense_Mutation_p.R659*|MYO6_uc003pii.1_Nonsense_Mutation_p.R659*	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	659	Myosin head-like.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		GGATAAACTTCGAAGTACTGT	0.308													10	33	---	---	---	---	PASS	T	76580394	T	T	76580394	4	4	52	1	0	0	0	0	0	1	0	0	10081	876	31	2	2045	2	MYO6	6	76580394	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	20141808	76580394	94534673	169	19614										
SNAP91	9892	broad.mit.edu	37	chr6	84371269	84371269	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccatctgtctgtaagaaaaaGccttttcattcaaatatcta	4	9	5	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:84371269G>T	uc011dze.1	-	5	721	c.404C>A	c.(403-405)GCT>GAT	p.A135D	SNAP91_uc003pkb.2_Missense_Mutation_p.A100D|SNAP91_uc003pkc.2_Missense_Mutation_p.A135D|SNAP91_uc003pkd.2_Missense_Mutation_p.A135D|SNAP91_uc003pka.2_Missense_Mutation_p.A135D|SNAP91_uc011dzf.1_Missense_Mutation_p.A16D	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	135	ENTH.				clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		GTAAGAAAAAGCCTTTTCATT	0.333													14	30	---	---	---	---	PASS	T	84371269	T	T	84371269	3	4	52	1	0	0	0	0	1	0	0	0	14833	971	34	3	2415	3	SNAP91	6	84371269	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	7790875	84371269	86743798	170	19615										
CASP8AP2	9994	broad.mit.edu	37	chr6	90581069	90581069	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggccatcatttaaaacatttGcatatttagccgccaagttg	7	9	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:90581069G>C	uc003pnr.2	+	9	6050	c.5854G>C	c.(5854-5856)GCA>CCA	p.A1952P	CASP8AP2_uc003pns.2_Missense_Mutation_p.A160P|CASP8AP2_uc003pnt.2_Missense_Mutation_p.A1952P|CASP8AP2_uc011dzz.1_Missense_Mutation_p.A1952P	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	1952	NCOA2-binding.				cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		TAAAACATTTGCATATTTAGC	0.338													37	40	---	---	---	---	PASS	C	90581069	C	C	90581069	3	2	52	1	0	0	0	0	1	0	0	0	2678	1319	46	4	5884	4	CASP8AP2	6	90581069	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	6209800	90581069	80533998	171	19616										
CLVS2	134829	broad.mit.edu	37	chr6	123319198	123319198	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttcaaaagctttaaggccacCgaccctggcatcaagcaggc	9	13	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:123319198C>A	uc003pzi.1	+	2	1145	c.276C>A	c.(274-276)ACC>ACA	p.T92T		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	92					lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						TTAAGGCCACCGACCCTGGCA	0.542													52	75	---	---	---	---	PASS	A	123319198	A	A	123319198	2	1	52	1	0	0	0	0	0	0	0	1	3572	639	23	1		1	CLVS2	6	123319198	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	32738129	123319198	47795869	172	19617										
PTPRK	5796	broad.mit.edu	37	chr6	128411138	128411138	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctttggggttctcataggttCtgaaaaataaatcagagttg	10	5	3	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:128411138C>T	uc003qbk.2	-	8	1530	c.1163_splice	c.e8-1	p.E388_splice	PTPRK_uc003qbj.2_Splice_Site_p.E388_splice|PTPRK_uc010kfc.2_Splice_Site_p.E388_splice|PTPRK_uc011ebu.1_Splice_Site_p.E388_splice|PTPRK_uc003qbl.1_Splice_Site_p.E258_splice|PTPRK_uc011ebv.1_Splice_Site_p.E388_splice	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K						cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		CTCATAGGTTCTGAAAAATAA	0.363													12	65	---	---	---	---	PASS	T	128411138	T	T	128411138	5	4	52	1	0	0	0	0	0	0	1	0	12805	927	32	2	3274	2	PTPRK	6	128411138	Splice_Site	SNP	C	TCGA-22-5491-01A-01D-1632-08	5091940	128411138	42703929	173	19618										
MYB	4602	broad.mit.edu	37	chr6	135516964	135516964	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccagacctcatggagacagtGcacctgtttcctgtttggga	11	11	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:135516964G>T	uc003qfc.2	+	9	1226	c.1027G>T	c.(1027-1029)GCA>TCA	p.A343S	MYB_uc003qfh.2_Missense_Mutation_p.A343S|MYB_uc003qfi.2_Missense_Mutation_p.A343S|MYB_uc010kgi.2_Missense_Mutation_p.A343S|MYB_uc003qfq.2_Missense_Mutation_p.A340S|MYB_uc010kgj.2_Missense_Mutation_p.A308S|MYB_uc003qfo.2_Intron|MYB_uc003qfu.2_Missense_Mutation_p.A340S|MYB_uc003qfl.2_RNA|MYB_uc003qfv.2_RNA|MYB_uc003qfz.2_RNA|MYB_uc003qfx.2_RNA|MYB_uc003qga.2_RNA|MYB_uc003qgb.2_RNA|MYB_uc010kgk.2_RNA|MYB_uc003qfd.2_RNA|MYB_uc003qfe.2_RNA|MYB_uc003qfg.2_RNA|MYB_uc003qff.2_RNA|MYB_uc003qfj.2_Intron|MYB_uc003qfm.2_RNA|MYB_uc003qfp.2_RNA|MYB_uc003qfn.2_RNA|MYB_uc003qfk.2_RNA|MYB_uc003qfr.2_RNA|MYB_uc003qfs.2_5'UTR|MYB_uc003qft.2_RNA|MYB_uc003qfw.2_Missense_Mutation_p.A155S|MYB_uc003qfy.2_RNA|MYB_uc003qgc.2_RNA|MYB_uc003qfb.1_Missense_Mutation_p.A343S|MYB_uc003qge.1_RNA	NM_005375	NP_005366	P10242	MYB_HUMAN	v-myb myeloblastosis viral oncogene homolog	343	Negative regulatory domain (By similarity).				blood coagulation|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone H3-K4 methylation|positive regulation of histone H3-K9 methylation|positive regulation of T-helper cell differentiation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear matrix	DNA binding|protein binding			lung(1)	1	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)		TGGAGACAGTGCACCTGTTTC	0.577			T	NFIB	adenoid cystic carcinoma								35	57	---	---	---	---	PASS	T	135516964	T	T	135516964	3	4	52	1	0	0	0	0	1	0	0	0	10007	1319	46	3	1061	3	MYB	6	135516964	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	7105826	135516964	35598103	174	19619										
GRM1	2911	broad.mit.edu	37	chr6	146625764	146625764	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tagtgatggatgggcagacaGagatgaagtcattgaaggtt	15	3	1	5			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:146625764G>A	uc010khw.1	+	4	1438	c.968G>A	c.(967-969)AGA>AAA	p.R323K	GRM1_uc010khv.1_Missense_Mutation_p.R323K|GRM1_uc003qll.2_Missense_Mutation_p.R323K|GRM1_uc011edz.1_Missense_Mutation_p.R323K|GRM1_uc011eea.1_Missense_Mutation_p.R323K	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	323	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	TGGGCAGACAGAGATGAAGTC	0.428													7	15	---	---	---	---	PASS	A	146625764	A	A	146625764	3	1	52	1	0	0	0	0	1	0	0	0	6796	942	33	2	978	2	GRM1	6	146625764	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	11108800	146625764	24489303	175	19620										
GRM1	2911	broad.mit.edu	37	chr6	146720267	146720267	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agaagatctgcacccggaagCccaggttcatgagtgcctgg	13	11	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:146720267C>A	uc010khw.1	+	8	2562	c.2092C>A	c.(2092-2094)CCC>ACC	p.P698T	GRM1_uc010khv.1_Missense_Mutation_p.P698T|GRM1_uc003qll.2_Missense_Mutation_p.P698T|GRM1_uc011edz.1_Missense_Mutation_p.P698T|GRM1_uc011eea.1_Missense_Mutation_p.P698T	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	698	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CACCCGGAAGCCCAGGTTCAT	0.512													45	104	---	---	---	---	PASS	A	146720267	A	A	146720267	3	1	52	1	0	0	0	0	1	0	0	0	6796	739	26	3	2118	3	GRM1	6	146720267	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	94503	146720267	24394800	176	19621										
STXBP5	134957	broad.mit.edu	37	chr6	147680256	147680256	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctttagccgatcacggagttCaagtgtaacaagcattgaca	9	9	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:147680256C>T	uc003qlz.2	+	23	2503	c.2342C>T	c.(2341-2343)TCA>TTA	p.S781L	STXBP5_uc010khz.1_Missense_Mutation_p.S745L|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Missense_Mutation_p.S436L	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	781					exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		TCACGGAGTTCAAGTGTAACA	0.398													14	36	---	---	---	---	PASS	T	147680256	T	T	147680256	3	4	52	1	0	0	0	0	1	0	0	0	15355	838	29	2	2432	2	STXBP5	6	147680256	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	959989	147680256	23434811	177	19622										
SYNE1	23345	broad.mit.edu	37	chr6	152763307	152763307	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggcctcggtcaggcagccccCcttctccctgctgcgcctgc	11	20	2	0	rs141164314		TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:152763307C>T	uc010kiw.2	-	31	4513	c.3911G>A	c.(3910-3912)GGG>GAG	p.G1304E	SYNE1_uc003qot.3_Missense_Mutation_p.G1311E|SYNE1_uc003qou.3_Missense_Mutation_p.G1304E|SYNE1_uc010kjb.1_Missense_Mutation_p.G1287E|SYNE1_uc003qow.2_Missense_Mutation_p.G599E|SYNE1_uc003qox.1_Missense_Mutation_p.G820E	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1304	Potential.|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)		AGGCAGCCCCCCTTCTCCCTG	0.592										HNSCC(10;0.0054)			38	83	---	---	---	---	PASS	T	152763307	T	T	152763307	3	4	52	1	0	0	0	0	1	0	0	0	15442	623	22	3	23019	3	SYNE1	6	152763307	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	5083051	152763307	18351760	178	19623										
NOX3	50508	broad.mit.edu	37	chr6	155728279	155728279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cttacctggggtgattgtagGcaatctgcttgaactcattg	11	8	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:155728279G>T	uc003qqm.2	-	12	1668	c.1565C>A	c.(1564-1566)GCC>GAC	p.A522D		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	522	Cytoplasmic (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		GTGATTGTAGGCAATCTGCTT	0.483													31	47	---	---	---	---	PASS	T	155728279	T	T	155728279	3	4	52	1	0	0	0	0	1	0	0	0	10557	1203	42	3	149	3	NOX3	6	155728279	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2964972	155728279	15386788	179	19624										
ZDHHC14	79683	broad.mit.edu	37	chr6	158014099	158014099	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atcatcaatggccagaccgtGaaacttaaatactgtttcac	6	10	3	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:158014099G>T	uc003qqt.2	+	3	983	c.486G>T	c.(484-486)GTG>GTT	p.V162V	ZDHHC14_uc003qqs.2_Silent_p.V162V|ZDHHC14_uc010kjm.1_Silent_p.V57V	NM_024630	NP_078906	Q8IZN3	ZDH14_HUMAN	zinc finger, DHHC-type containing 14 isoform 1	162						integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|skin(1)	2		Breast(66;0.00586)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.9e-17)|BRCA - Breast invasive adenocarcinoma(81;5.8e-05)		GCCAGACCGTGAAACTTAAAT	0.532													54	75	---	---	---	---	PASS	T	158014099	T	T	158014099	2	4	52	1	0	0	0	0	0	0	0	1	17601	1277	45	2		2	ZDHHC14	6	158014099	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	2285820	158014099	13100968	180	19625										
MAS1	4142	broad.mit.edu	37	chr6	160328118	160328118	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggtcattatgagcatctcccCagtggggtttgttgagaatg	13	7	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr6:160328118C>A	uc003qsz.2	+	1	145	c.131C>A	c.(130-132)CCA>CAA	p.P44Q		NM_002377	NP_002368	P04201	MAS_HUMAN	MAS1 oncogene	44	Helical; Name=1; (Potential).				anatomical structure morphogenesis|cell proliferation|protein kinase C signaling cascade	integral to plasma membrane	angiotensin type II receptor activity			ovary(2)|lung(2)	4		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.44e-18)|BRCA - Breast invasive adenocarcinoma(81;5.6e-06)		AGCATCTCCCCAGTGGGGTTT	0.527													68	94	---	---	---	---	PASS	A	160328118	A	A	160328118	3	1	52	1	0	0	0	0	1	0	0	0	9320	594	21	3	133	3	MAS1	6	160328118	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2314019	160328118	10786949	181	19626										
CARD11	84433	broad.mit.edu	37	chr7	2962953	2962953	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cgtgccccacagaggtgaccGaaggccggaagggtctgcag	16	12	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:2962953G>A	uc003smv.2	-	16	2359	c.1955C>T	c.(1954-1956)TCG>TTG	p.S652L		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	652					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		AGAGGTGACCGAAGGCCGGAA	0.652			Mis		DLBCL								16	102	---	---	---	---	PASS	A	2962953	A	A	2962953	3	1	52	1	0	0	0	0	1	0	0	0	2645	1059	37	2	1549	2	CARD11	7	2962953	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08		2962953	156175710	182	19627										
PAPOLB	56903	broad.mit.edu	37	chr7	4900561	4900561	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atacaggcaaattaagattcCgttcttcaggctccttcagt	7	10	3	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:4900561C>T	uc003snk.2	-	1	1065	c.881G>A	c.(880-882)CGG>CAG	p.R294Q	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	293					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		ATTAAGATTCCGTTCTTCAGG	0.443													10	153	---	---	---	---	PASS	T	4900561	T	T	4900561	3	4	52	1	0	0	0	0	1	0	0	0	11430	652	23	1	1036	1	PAPOLB	7	4900561	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1937608	4900561	154238102	183	19628										
THSD7A	221981	broad.mit.edu	37	chr7	11445965	11445965	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aggattcctccagaaccataTttttattaccatctataatg	4	9	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:11445965T>C	uc003ssf.3	-	21	4451	c.4199A>G	c.(4198-4200)AAT>AGT	p.N1400S		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1400	TSP type-1 14.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		CAGAACCATATTTTTATTACC	0.418										HNSCC(18;0.044)			29	129	---	---	---	---	PASS	C	11445965	C	C	11445965	3	2	52	1	0	0	0	0	1	0	0	0	15876	1493	52	5	802	5	THSD7A	7	11445965	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	6545404	11445965	147692698	184	19629										
THSD7A	221981	broad.mit.edu	37	chr7	11501683	11501683	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cctcacaggccttctcttcaTagaggggatctgtgcagtct	10	12	5	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:11501683T>C	uc003ssf.3	-	10	2708	c.2456A>G	c.(2455-2457)TAT>TGT	p.Y819C		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	819	TSP type-1 8.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		CTTCTCTTCATAGAGGGGATC	0.542										HNSCC(18;0.044)			96	169	---	---	---	---	PASS	C	11501683	C	C	11501683	3	2	52	1	0	0	0	0	1	0	0	0	15876	1406	49	5	2589	5	THSD7A	7	11501683	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	55718	11501683	147636980	185	19630										
TMEM195	392636	broad.mit.edu	37	chr7	15240918	15240918	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tacaaattcaggttatttccAagggtgagaggtgagttgtt	12	4	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:15240918A>T	uc003stb.1	-	13	1500	c.1330T>A	c.(1330-1332)TGG>AGG	p.W444R		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	444					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						GGTTATTTCCAAGGGTGAGAG	0.303													23	50	---	---	---	---	PASS	T	15240918	T	T	15240918	3	4	52	1	0	0	0	0	1	0	0	0	16114	130	5	5	11	5	TMEM195	7	15240918	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	3739235	15240918	143897745	186	19631										
NUPL2	11097	broad.mit.edu	37	chr7	23226676	23226676	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttttcttttttgcagggaagGaattgtaaaagatatggagg	12	2	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:23226676G>A	uc003svu.2	+	3	615	c.356G>A	c.(355-357)GGA>GAA	p.G119E	NUPL2_uc003svv.2_RNA|NUPL2_uc003svw.2_5'UTR|NUPL2_uc011jyw.1_RNA|NUPL2_uc003svx.2_5'UTR	NM_007342	NP_031368	O15504	NUPL2_HUMAN	nucleoporin like 2	119	Interaction with HIV-1 Vpr.				carbohydrate metabolic process|glucose transport|mRNA transport|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nuclear pore	nuclear export signal receptor activity|nucleic acid binding|zinc ion binding			skin(2)|ovary(1)	3						TGCAGGGAAGGAATTGTAAAA	0.308													40	54	---	---	---	---	PASS	A	23226676	A	A	23226676	3	1	52	1	0	0	0	0	1	0	0	0	10775	1174	41	2	366	2	NUPL2	7	23226676	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	7985758	23226676	135911987	187	19632										
HOXA7	3204	broad.mit.edu	37	chr7	27195942	27195942	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gggcaggttgccgtaggcgtCggcgcccaggccgtagccgg	19	13	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:27195942C>T	uc003sys.2	-	1	355	c.223G>A	c.(223-225)GAC>AAC	p.D75N		NM_006896	NP_008827	P31268	HXA7_HUMAN	homeobox A7	75				DA -> RR (in Ref. 8; AAD00727).	angiogenesis|negative regulation of cell-matrix adhesion|negative regulation of keratinocyte differentiation|negative regulation of leukocyte migration|negative regulation of monocyte differentiation|negative regulation of transcription from RNA polymerase II promoter		sequence-specific DNA binding|transcription factor binding				0						CCGTAGGCGTCGGCGCCCAGG	0.677													36	45	---	---	---	---	PASS	T	27195942	T	T	27195942	3	4	52	1	0	0	0	0	1	0	0	0	7297	884	31	2	477	2	HOXA7	7	27195942	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	3969266	27195942	131942721	188	19633										
PDE1C	5137	broad.mit.edu	37	chr7	31793022	31793022	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tttctgttccagttatgtgaGatgttctgaatctttttcat	7	6	4	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:31793022G>A	uc003tcm.1	-	18	2575	c.2106C>T	c.(2104-2106)ATC>ATT	p.I702I	PDE1C_uc003tcn.1_Silent_p.I702I|PDE1C_uc003tco.1_Silent_p.I762I	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	702					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			AGTTATGTGAGATGTTCTGAA	0.473													48	397	---	---	---	---	PASS	A	31793022	A	A	31793022	2	1	52	1	0	0	0	0	0	0	0	1	11635	957	33	2		2	PDE1C	7	31793022	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	4597080	31793022	127345641	189	19634										
BBS9	27241	broad.mit.edu	37	chr7	33573664	33573664	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttgaacctcaacagccagctGaacatacccaaagacacaag	6	13	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:33573664G>A	uc003tdn.1	+	21	2910	c.2397G>A	c.(2395-2397)CTG>CTA	p.L799L	BBS9_uc003tdo.1_Silent_p.L764L|BBS9_uc003tdp.1_Silent_p.L794L|BBS9_uc003tdq.1_Silent_p.L759L|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Silent_p.L323L|BBS9_uc003tds.1_Silent_p.L222L|BBS9_uc003tdt.2_RNA	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	799					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			ACAGCCAGCTGAACATACCCA	0.507									Bardet-Biedl_syndrome				36	129	---	---	---	---	PASS	A	33573664	A	A	33573664	2	1	52	1	0	0	0	0	0	0	0	1	1342	1277	45	2		2	BBS9	7	33573664	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	1780642	33573664	125564999	190	19635										
GCK	2645	broad.mit.edu	37	chr7	44192988	44192988	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agcctcaggccgcggtccatCtccttctgcatccgtctcat	8	17	4	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:44192988C>T	uc003tkl.2	-	2	590	c.120G>A	c.(118-120)GAG>GAA	p.E40E	GCK_uc003tkj.1_Silent_p.E39E|GCK_uc003tkk.1_Silent_p.E41E	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	40					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						CGCGGTCCATCTCCTTCTGCA	0.607													13	306	---	---	---	---	PASS	T	44192988	T	T	44192988	2	4	52	1	0	0	0	0	0	0	0	1	6293	912	32	2		2	GCK	7	44192988	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	10619324	44192988	114945675	191	19636										
GCK	2645	broad.mit.edu	37	chr7	44193044	44193044	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctcctcctgcagctggaactCtgccaggatctgctctacct	8	16	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:44193044C>G	uc003tkl.2	-	2	534	c.64G>C	c.(64-66)GAG>CAG	p.E22Q	GCK_uc003tkj.1_Missense_Mutation_p.E21Q|GCK_uc003tkk.1_Missense_Mutation_p.E23Q	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	22					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						AGCTGGAACTCTGCCAGGATC	0.637													9	267	---	---	---	---	PASS	G	44193044	G	G	44193044	3	3	52	1	0	0	0	0	1	0	0	0	6293	922	32	2	1369	2	GCK	7	44193044	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	56	44193044	114945619	192	19637										
CCDC146	57639	broad.mit.edu	37	chr7	76797022	76797022	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cagacacagaaaaagaagagGaagaggagaaagatgaaaag	13	3	0	8			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:76797022G>C	uc003uga.2	+	2	164	c.37G>C	c.(37-39)GAA>CAA	p.E13Q	CCDC146_uc003ufz.1_Missense_Mutation_p.E13Q	NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	13	Poly-Glu.									ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				AAAAGAAGAGGAAGAGGAGAA	0.358													11	44	---	---	---	---	PASS	C	76797022	C	C	76797022	3	2	52	1	0	0	0	0	1	0	0	0	2780	1175	41	2	39	2	CCDC146	7	76797022	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	32603978	76797022	82341641	193	19638										
ABCB4	5244	broad.mit.edu	37	chr7	87049377	87049377	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtgaggatctcgccagctttCccaaacgtgaaaccctggtt	10	12	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:87049377C>T	uc003uiv.1	-	19	2407	c.2331G>A	c.(2329-2331)GGG>GGA	p.G777G	ABCB4_uc003uiw.1_Silent_p.G777G|ABCB4_uc003uix.1_Silent_p.G777G	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	777	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CGCCAGCTTTCCCAAACGTGA	0.358													24	111	---	---	---	---	PASS	T	87049377	T	T	87049377	2	4	52	1	0	0	0	0	0	0	0	1	43	842	30	2		2	ABCB4	7	87049377	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	10252355	87049377	72089286	194	19639										
CLDN12	9069	broad.mit.edu	37	chr7	90042641	90042641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tactcccatccacccagtatGcatacttactcacagcccta	3	17	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:90042641G>T	uc003ukp.2	+	5	1287	c.651G>T	c.(649-651)ATG>ATT	p.M217I	CLDN12_uc003ukq.2_Missense_Mutation_p.M217I|CLDN12_uc010leq.2_Missense_Mutation_p.M217I|CLDN12_uc003ukr.2_Missense_Mutation_p.M217I|CLDN12_uc003uks.2_Missense_Mutation_p.M217I	NM_012129	NP_036261	P56749	CLD12_HUMAN	claudin 12	217	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CACCCAGTATGCATACTTACT	0.418													16	291	---	---	---	---	PASS	T	90042641	T	T	90042641	3	4	52	1	0	0	0	0	1	0	0	0	3474	1319	46	3	653	3	CLDN12	7	90042641	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2993264	90042641	69096022	195	19640										
CASD1	64921	broad.mit.edu	37	chr7	94174881	94174881	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tatttcgtctcaatttcctgGtagtggtgttatgtatagta	9	5	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:94174881G>T	uc003uni.3	+	12	1728	c.1501G>T	c.(1501-1503)GTA>TTA	p.V501L	CASD1_uc003unj.3_Missense_Mutation_p.V501L	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	501	Helical; (Potential).					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)			CAATTTCCTGGTAGTGGTGTT	0.353													41	78	---	---	---	---	PASS	T	94174881	T	T	94174881	3	4	52	1	0	0	0	0	1	0	0	0	2664	1261	44	3	1547	3	CASD1	7	94174881	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	4132240	94174881	64963782	196	19641										
GNB2	2783	broad.mit.edu	37	chr7	100275765	100275765	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccagcagacagtgggttttgCtggacacagtggggatgtga	16	7	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:100275765C>T	uc003uwb.2	+	8	815	c.542C>T	c.(541-543)GCT>GTT	p.A181V	GNB2_uc003uwc.2_Missense_Mutation_p.A137V|GNB2_uc010lhd.2_Missense_Mutation_p.A137V|GNB2_uc010lhe.2_Missense_Mutation_p.A137V|GNB2_uc003uwd.2_Missense_Mutation_p.A81V|GNB2_uc010lhf.2_Missense_Mutation_p.A81V|GNB2_uc003uwe.2_Missense_Mutation_p.A181V|GNB2_uc003uwf.2_Missense_Mutation_p.A81V	NM_005273	NP_005264	P62879	GBB2_HUMAN	guanine nucleotide-binding protein, beta-2	181					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	perinuclear region of cytoplasm|plasma membrane	GTPase activity|GTPase binding|signal transducer activity			ovary(2)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)	Ovarian(593;0.238)				GTGGGTTTTGCTGGACACAGT	0.577													57	78	---	---	---	---	PASS	T	100275765	T	T	100275765	3	4	52	1	0	0	0	0	1	0	0	0	6517	797	28	3	568	3	GNB2	7	100275765	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	6100884	100275765	58862898	197	19642										
CUX1	1523	broad.mit.edu	37	chr7	101840185	101840185	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttctactccaaggctatgcaGgaagccggaagcacaagcat	10	11	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:101840185G>T	uc003uyx.3	+	15	1532	c.1494G>T	c.(1492-1494)CAG>CAT	p.Q498H	CUX1_uc003uys.3_Missense_Mutation_p.Q509H|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	498					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						AGGCTATGCAGGAAGCCGGAA	0.483													51	58	---	---	---	---	PASS	T	101840185	T	T	101840185	3	4	52	1	0	0	0	0	1	0	0	0	4064	991	35	3	1619	3	CUX1	7	101840185	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1564420	101840185	57298478	198	19643										
SLC26A5	375611	broad.mit.edu	37	chr7	103050851	103050851	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	catacaccacggaaaagattCcactgtaccgctttgtttta	6	11	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:103050851C>A	uc003vbz.2	-	7	952	c.716G>T	c.(715-717)GGA>GTA	p.G239V	SLC26A5_uc003vbt.1_Missense_Mutation_p.G239V|SLC26A5_uc003vbu.1_Missense_Mutation_p.G239V|SLC26A5_uc003vbv.1_Missense_Mutation_p.G239V|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Missense_Mutation_p.G239V|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_RNA	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	239	Extracellular (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						GGAAAAGATTCCACTGTACCG	0.433													24	62	---	---	---	---	PASS	A	103050851	A	A	103050851	3	1	52	1	0	0	0	0	1	0	0	0	14520	855	30	2	1615	2	SLC26A5	7	103050851	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1210666	103050851	56087812	199	19644										
NRCAM	4897	broad.mit.edu	37	chr7	107820820	107820820	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaaggtgaggatctttttctCaatgtgacgtctgtttcttt	10	6	4	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:107820820C>T	uc003vfb.2	-	25	3169	c.2698G>A	c.(2698-2700)GAG>AAG	p.E900K	NRCAM_uc003vfc.2_Missense_Mutation_p.E884K|NRCAM_uc011kmk.1_Missense_Mutation_p.E895K|NRCAM_uc003vfd.2_Missense_Mutation_p.E876K|NRCAM_uc003vfe.2_Missense_Mutation_p.E876K	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	900	Fibronectin type-III 3.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						ATCTTTTTCTCAATGTGACGT	0.458													25	52	---	---	---	---	PASS	T	107820820	T	T	107820820	3	4	52	1	0	0	0	0	1	0	0	0	10644	835	29	2	1282	2	NRCAM	7	107820820	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	4769969	107820820	51317843	200	19645										
KCND2	3751	broad.mit.edu	37	chr7	119914873	119914873	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aggacaccctggaacgttacCcagacactctactgggcagt	10	13	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:119914873C>A	uc003vjj.1	+	1	1152	c.187C>A	c.(187-189)CCA>ACA	p.P63T		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	63	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					GGAACGTTACCCAGACACTCT	0.542													103	163	---	---	---	---	PASS	A	119914873	A	A	119914873	3	1	52	1	0	0	0	0	1	0	0	0	8019	623	22	3	189	3	KCND2	7	119914873	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	12094053	119914873	39223790	201	19646										
SSPO	23145	broad.mit.edu	37	chr7	149476004	149476004	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gacagacacaaggcctctgtGggctctacaatggctggcca	12	12	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr7:149476004G>T	uc010lpk.2	+	7	970	c.970G>T	c.(970-972)GGG>TGG	p.G324W	SSPO_uc010lpl.1_5'UTR	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	324	VWFD 1.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AGGCCTCTGTGGGCTCTACAA	0.627													12	111	---	---	---	---	PASS	T	149476004	T	T	149476004	3	4	52	1	0	0	0	0	1	0	0	0	15188	1348	47	3	996	3	SSPO	7	149476004	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	29561131	149476004	9662659	202	19647										
DLC1	10395	broad.mit.edu	37	chr8	13251104	13251104	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaattggctactggagtggaAgatgggaggtccgtggactc	17	6	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr8:13251104A>C	uc003wwm.2	-	4	1716	c.1272T>G	c.(1270-1272)TCT>TCG	p.S424S	DLC1_uc003wwn.2_Silent_p.S424S|DLC1_uc011kxy.1_Silent_p.S424S	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	424					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CTGGAGTGGAAGATGGGAGGT	0.428													55	28	---	---	---	---	PASS	C	13251104	C	C	13251104	2	2	52	1	0	0	0	0	0	0	0	1	4550	59	3	5		5	DLC1	8	13251104	Silent	SNP	A	TCGA-22-5491-01A-01D-1632-08		13251104	133112918	203	19648										
TOX	9760	broad.mit.edu	37	chr8	59720307	59720307	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agaagaggtgttcagattctCaagtaaggtacagtgctttg	12	5	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr8:59720307C>T	uc003xtw.1	-	9	1801	c.1580G>A	c.(1579-1581)TGA>TAA	p.*527*		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	527						nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				TTCAGATTCTCAAGTAAGGTA	0.438											OREG0018787	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	47	---	---	---	---	PASS	T	59720307	T	T	59720307	2	4	52	1	0	0	0	0	0	0	0	1	16374	837	29	2		2	TOX	8	59720307	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	46469203	59720307	86643715	204	19649										
PREX2	80243	broad.mit.edu	37	chr8	69020434	69020434	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acagcagtgatttctgccctAccaactgccatgtcaatgtg	8	12	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr8:69020434A>G	uc003xxv.1	+	24	2833	c.2806A>G	c.(2806-2808)ACC>GCC	p.T936A	PREX2_uc011lez.1_Missense_Mutation_p.T871A	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	936					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TTTCTGCCCTACCAACTGCCA	0.428													31	43	---	---	---	---	PASS	G	69020434	G	G	69020434	3	3	52	1	0	0	0	0	1	0	0	0	12477	391	14	5	3129	5	PREX2	8	69020434	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	9300127	69020434	77343588	205	19650										
TPD52	7163	broad.mit.edu	37	chr8	80992640	80992640	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gttcactcctgcatcaaaatCaaacggggactggtagtcct	9	11	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr8:80992640C>T	uc003ybr.1	-	1	371	c.49G>A	c.(49-51)GAT>AAT	p.D17N	TPD52_uc010lzr.2_RNA|TPD52_uc010lzs.1_Intron|TPD52_uc003ybs.1_Intron|TPD52_uc003ybt.1_Intron	NM_001025252	NP_001020423	P55327	TPD52_HUMAN	tumor protein D52 isoform 1	17					anatomical structure morphogenesis|B cell differentiation|secretion	endoplasmic reticulum|perinuclear region of cytoplasm	calcium ion binding|protein heterodimerization activity|protein homodimerization activity			ovary(1)	1	all_epithelial(4;1.13e-09)|Lung NSC(7;9.71e-07)|all_lung(9;3.75e-06)	Lung NSC(129;3.55e-06)|all_lung(136;1.53e-05)|Acute lymphoblastic leukemia(644;0.158)	BRCA - Breast invasive adenocarcinoma(6;0.00181)|Epithelial(68;0.0149)|all cancers(69;0.0612)			GCATCAAAATCAAACGGGGAC	0.433													27	48	---	---	---	---	PASS	T	80992640	T	T	80992640	3	4	52	1	0	0	0	0	1	0	0	0	16394	826	29	2	726	2	TPD52	8	80992640	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	11972206	80992640	65371382	206	19651										
RSPO2	340419	broad.mit.edu	37	chr8	108913390	108913390	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cttttctttttcttgttcctCttctccttcgcctttggtgt	5	12	4	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr8:108913390C>G	uc003yms.2	-	6	1303	c.645G>C	c.(643-645)AAG>AAC	p.K215N	RSPO2_uc003ymq.2_Missense_Mutation_p.K148N|RSPO2_uc003ymr.2_Missense_Mutation_p.K151N	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	215					Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			tcttgttcctcttctccttcg	0.338													16	47	---	---	---	---	PASS	G	108913390	G	G	108913390	3	3	52	1	0	0	0	0	1	0	0	0	13710	912	32	2	90	2	RSPO2	8	108913390	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	27920750	108913390	37450632	207	19652										
TRHR	7201	broad.mit.edu	37	chr8	110100362	110100362	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gttgtgccaatgatcctggcTaccgtcctctatggattcat	9	11	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr8:110100362T>A	uc003ymz.3	+	1	637	c.621T>A	c.(619-621)GCT>GCA	p.A207A		NM_003301	NP_003292	P34981	TRFR_HUMAN	thyrotropin-releasing hormone receptor	207	Helical; Name=5; (Potential).					integral to plasma membrane	thyrotropin-releasing hormone receptor activity			skin(2)|lung(1)	3			OV - Ovarian serous cystadenocarcinoma(57;2.3e-11)			TGATCCTGGCTACCGTCCTCT	0.388													37	62	---	---	---	---	PASS	A	110100362	A	A	110100362	2	1	52	1	0	0	0	0	0	0	0	1	16477	1509	53	5		5	TRHR	8	110100362	Silent	SNP	T	TCGA-22-5491-01A-01D-1632-08	1186972	110100362	36263660	208	19653										
PKHD1L1	93035	broad.mit.edu	37	chr8	110406702	110406702	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcaataaaattgcaatgtttCaaacatatgcaggtatgtga	7	5	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr8:110406702C>T	uc003yne.2	+	10	903	c.799C>T	c.(799-801)CAA>TAA	p.Q267*		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	267	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TGCAATGTTTCAAACATATGC	0.284										HNSCC(38;0.096)			3	6	---	---	---	---	PASS	T	110406702	T	T	110406702	4	4	52	1	0	0	0	0	0	1	0	0	11972	827	29	2	837	2	PKHD1L1	8	110406702	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	306340	110406702	35957320	209	19654										
CSMD3	114788	broad.mit.edu	37	chr8	113694723	113694723	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acttttccatccataagaatAcatgtaattgtttctgttcc	4	9	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr8:113694723A>T	uc003ynu.2	-	16	2784	c.2625T>A	c.(2623-2625)TGT>TGA	p.C875*	CSMD3_uc003yns.2_Nonsense_Mutation_p.C147*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.C835*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.C771*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	875	Sushi 4.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCATAAGAATACATGTAATTG	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			56	91	---	---	---	---	PASS	T	113694723	T	T	113694723	4	4	52	1	0	0	0	0	0	1	0	0	3946	389	14	5	8722	5	CSMD3	8	113694723	Nonsense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	3288021	113694723	32669299	210	19655										
ADCY8	114	broad.mit.edu	37	chr8	131795975	131795975	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgttgaatgaatgcttgttgAtctcctgtatgctttctgtc	9	7	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr8:131795975A>G	uc003ytd.3	-	17	3486	c.3230T>C	c.(3229-3231)ATC>ACC	p.I1077T	ADCY8_uc010mds.2_Missense_Mutation_p.I946T	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1077	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			ATGCTTGTTGATCTCCTGTAT	0.498										HNSCC(32;0.087)			24	38	---	---	---	---	PASS	G	131795975	G	G	131795975	3	3	52	1	0	0	0	0	1	0	0	0	300	333	12	5	533	5	ADCY8	8	131795975	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	18101252	131795975	14568047	211	19656										
CYP11B1	1584	broad.mit.edu	37	chr8	143955898	143955898	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tctccacctggaggtgtttcAgcacctaggacagaagccgg	12	12	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr8:143955898A>T	uc003yxi.2	-	9	1410	c.1403T>A	c.(1402-1404)CTG>CAG	p.L468Q	CYP11B1_uc010mex.2_Missense_Mutation_p.L167Q|CYP11B1_uc003yxh.2_Missense_Mutation_p.L118Q|CYP11B1_uc003yxj.2_Missense_Mutation_p.L402Q|CYP11B1_uc010mey.2_Missense_Mutation_p.L539Q	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	468					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	GAGGTGTTTCAGCACCTAGGA	0.537									Familial_Hyperaldosteronism_type_I		OREG0005640	type=TRANSCRIPTION FACTOR BINDING SITE|Gene=CYP11B1|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	23	57	---	---	---	---	PASS	T	143955898	T	T	143955898	3	4	52	1	0	0	0	0	1	0	0	0	4145	188	7	5	112	5	CYP11B1	8	143955898	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	12159923	143955898	2408124	212	19657										
DGAT1	8694	broad.mit.edu	37	chr8	145541059	145541059	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cagccacggcattcaggcagGagtggaagagccagtagaag	15	9	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr8:145541059G>T	uc003zbv.3	-	13	1299	c.1031C>A	c.(1030-1032)TCC>TAC	p.S344Y	DGAT1_uc010mfv.2_Intron	NM_012079	NP_036211	O75907	DGAT1_HUMAN	diacylglycerol O-acyltransferase 1	344	Lumenal (Potential).				triglyceride biosynthetic process|very-low-density lipoprotein particle assembly	endoplasmic reticulum membrane|integral to membrane	diacylglycerol O-acyltransferase 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;3.94e-40)|Epithelial(56;7.67e-40)|all cancers(56;7.88e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			ATTCAGGCAGGAGTGGAAGAG	0.607													17	84	---	---	---	---	PASS	T	145541059	T	T	145541059	3	4	52	1	0	0	0	0	1	0	0	0	4457	1174	41	2	455	2	DGAT1	8	145541059	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1585161	145541059	822963	213	19658										
KIAA1432	57589	broad.mit.edu	37	chr9	5765672	5765672	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtaatcctaggaacccagttCaagtggtggatttgagttct	11	7	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:5765672C>G	uc003zji.2	+	20	2867	c.2774C>G	c.(2773-2775)TCA>TGA	p.S925*	KIAA1432_uc003zjh.2_Nonsense_Mutation_p.S925*|KIAA1432_uc003zjl.3_Nonsense_Mutation_p.S888*|KIAA1432_uc003zjj.1_Nonsense_Mutation_p.S467*|ERMP1_uc011lme.1_RNA	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	1004						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		GAACCCAGTTCAAGTGGTGGA	0.413													161	78	---	---	---	---	PASS	G	5765672	G	G	5765672	4	3	52	1	0	0	0	0	0	1	0	0	8233	838	29	2	2852	2	KIAA1432	9	5765672	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08		5765672	135447759	214	19659										
IFNA8	3445	broad.mit.edu	37	chr9	21409512	21409512	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atgaattctacatcgaacttGaccagcagctgaatgacctg	8	10	1	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:21409512G>C	uc003zpc.1	+	1	367	c.337G>C	c.(337-339)GAC>CAC	p.D113H		NM_002170	NP_002161	P32881	IFNA8_HUMAN	interferon, alpha 8 precursor	113					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;0.0174)		CATCGAACTTGACCAGCAGCT	0.502													32	62	---	---	---	---	PASS	C	21409512	C	C	21409512	3	2	52	1	0	0	0	0	1	0	0	0	7543	1290	45	2	339	2	IFNA8	9	21409512	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	15643840	21409512	119803919	215	19660										
CBWD6	644019	broad.mit.edu	37	chr9	69238300	69238300	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tttattaatgagaatgatatCtgccaaagcaacttgcctaa	6	7	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:69238300C>G	uc004afj.3	-	8	698	c.592G>C	c.(592-594)GAT>CAT	p.D198H	CBWD6_uc004afk.3_Intron|CBWD6_uc011lrf.1_Intron	NM_001085457	NP_001078926	Q4V339	CBWD6_HUMAN	COBW domain containing 6	198							ATP binding				0						AGAATGATATCTGCCAAAGCA	0.303													12	192	---	---	---	---	PASS	G	69238300	G	G	69238300	3	3	52	1	0	0	0	0	1	0	0	0	2716	913	32	2	627	2	CBWD6	9	69238300	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	47828788	69238300	71975131	216	19661										
BICD2	23299	broad.mit.edu	37	chr9	95491487	95491487	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tctctccgtcagcagccaccTtcttgtggtttgtgtgtgct	10	12	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:95491487T>A	uc004aso.1	-	2	329	c.272A>T	c.(271-273)AAG>ATG	p.K91M	BICD2_uc004asp.1_Missense_Mutation_p.K91M	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	91	Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						AGCAGCCACCTTCTTGTGGTT	0.602													14	57	---	---	---	---	PASS	A	95491487	A	A	95491487	3	1	52	1	0	0	0	0	1	0	0	0	1429	1609	56	5	2329	5	BICD2	9	95491487	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	26253187	95491487	45721944	217	19662										
COL15A1	1306	broad.mit.edu	37	chr9	101748070	101748070	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acccgtggtggcgtgctcttCgccatcactgacgccttcca	10	16	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:101748070C>A	uc004azb.1	+	3	530	c.324C>A	c.(322-324)TTC>TTA	p.F108L	COL15A1_uc004aza.2_Missense_Mutation_p.F108L	NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	108	TSP N-terminal.				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				GCGTGCTCTTCGCCATCACTG	0.627													4	80	---	---	---	---	PASS	A	101748070	A	A	101748070	3	1	52	1	0	0	0	0	1	0	0	0	3672	883	31	2	334	2	COL15A1	9	101748070	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	6256583	101748070	39465361	218	19663										
RNF20	56254	broad.mit.edu	37	chr9	104309471	104309471	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggggagcagtctgtatggcgGcacaatcactatcaatgctc	12	10	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:104309471G>A	uc004bbn.2	+	8	1037	c.947G>A	c.(946-948)GGC>GAC	p.G316D		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	316	Potential.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		CTGTATGGCGGCACAATCACT	0.428													5	119	---	---	---	---	PASS	A	104309471	A	A	104309471	3	1	52	1	0	0	0	0	1	0	0	0	13473	1203	42	3	973	3	RNF20	9	104309471	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2561401	104309471	36903960	219	19664										
OR13C4	138804	broad.mit.edu	37	chr9	107289089	107289089	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tacaccaccttgttcatgatGatggggtatctcagagggtt	11	8	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:107289089G>A	uc011lvn.1	-	1	402	c.402C>T	c.(400-402)ATC>ATT	p.I134I		NM_001001919	NP_001001919	Q8NGS5	O13C4_HUMAN	olfactory receptor, family 13, subfamily C,	134	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGTTCATGATGATGGGGTATC	0.453													27	128	---	---	---	---	PASS	A	107289089	A	A	107289089	2	1	52	1	0	0	0	0	0	0	0	1	10936	1280	45	2		2	OR13C4	9	107289089	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	2979618	107289089	33924342	220	19665										
SLC44A1	23446	broad.mit.edu	37	chr9	108145413	108145413	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctctgcttcaggtgctgataGtctgcagcacaggtttagct	11	10	3	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:108145413G>T	uc004bcn.2	+	14	1863	c.1642G>T	c.(1642-1644)GTC>TTC	p.V548F	SLC44A1_uc010mtk.1_Missense_Mutation_p.V548F|SLC44A1_uc004bco.1_Missense_Mutation_p.V340F	NM_080546	NP_536856	Q8WWI5	CTL1_HUMAN	CDW92 antigen	548	Helical; (Potential).					integral to membrane|mitochondrial outer membrane|plasma membrane	choline transmembrane transporter activity			breast(3)|ovary(1)	4					Choline(DB00122)	GGTGCTGATAGTCTGCAGCAC	0.423													44	154	---	---	---	---	PASS	T	108145413	T	T	108145413	3	4	52	1	0	0	0	0	1	0	0	0	14635	1029	36	3	1696	3	SLC44A1	9	108145413	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	856324	108145413	33068018	221	19666										
RXRA	6256	broad.mit.edu	37	chr9	137300036	137300036	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtcagcagcagcgaggacatCaagccccccctgggcctcaa	11	16	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:137300036C>T	uc004cfb.2	+	3	483	c.321C>T	c.(319-321)ATC>ATT	p.I107I	RXRA_uc004cfc.1_Silent_p.I10I	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	107	Modulating (By similarity).				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)	GCGAGGACATCAAGCCCCCCC	0.637													11	22	---	---	---	---	PASS	T	137300036	T	T	137300036	2	4	52	1	0	0	0	0	0	0	0	1	13763	816	29	2		2	RXRA	9	137300036	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	29154623	137300036	3913395	222	19667										
NOTCH1	4851	broad.mit.edu	37	chr9	139390779	139390779	+	Nonsense_Mutation	SNP	G	T	T													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cggtcacgggtgggaccagcGaggatggcagcgacgtgggc							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:139390779G>T	uc004chz.2	-	34	7412	c.7412C>A	c.(7411-7413)TCG>TAG	p.S2471*		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2471	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.L2473fs*1(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		TGGGACCAGCGAGGATGGCAG	0.697			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			3	6	---	---	---	---	PASS	T	139390779	T	T	139390779	4	4	52	1	0	0	0	0	0	1	0	0	10547	1059	37	2	259	2	NOTCH1	9	139390779	Nonsense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2090743	139390779	1822652	223	19668	438	2								
NOTCH1	4851	broad.mit.edu	37	chr9	139390786	139390786	+	Missense_Mutation	SNP	G	A	A													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gggtgggaccagcgaggatgGcagcgacgtgggcagggcgg							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:139390786G>A	uc004chz.2	-	34	7405	c.7405C>T	c.(7405-7407)CCA>TCA	p.P2469S		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2469	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.L2469fs*10(2)|p.L2469fs*11(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		AGCGAGGATGGCAGCGACGTG	0.697			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			3	7	---	---	---	---	PASS	A	139390786	A	A	139390786	3	1	52	1	0	0	0	0	1	0	0	0	10547	1203	42	3	266	3	NOTCH1	9	139390786	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	7	139390786	1822645	224	19669	438	2								
NRARP	441478	broad.mit.edu	37	chr9	140196134	140196134	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtgcagcgcgctccagccgtCgcggttggccaggcggatgt	17	13	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:140196134C>T	uc004cmo.2	-	1	570	c.247G>A	c.(247-249)GAC>AAC	p.D83N	C9orf167_uc011mew.1_Intron	NM_001004354	NP_001004354	Q7Z6K4	NRARP_HUMAN	NOTCH-regulated ankyrin repeat protein	83	ANK 2.				negative regulation of Notch signaling pathway|positive regulation of canonical Wnt receptor signaling pathway						0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.185)	OV - Ovarian serous cystadenocarcinoma(145;9.07e-05)|Epithelial(140;0.000273)		CTCCAGCCGTCGCGGTTGGCC	0.672													11	16	---	---	---	---	PASS	T	140196134	T	T	140196134	3	4	52	1	0	0	0	0	1	0	0	0	10639	884	31	2	101	2	NRARP	9	140196134	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	805348	140196134	1017297	225	19670										
NRARP	441478	broad.mit.edu	37	chr9	140196233	140196233	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtgcagcgccgtctggccctCgggcccgaacgagttcacgt	14	15	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr9:140196233C>A	uc004cmo.2	-	1	471	c.148G>T	c.(148-150)GAG>TAG	p.E50*	C9orf167_uc011mew.1_Intron	NM_001004354	NP_001004354	Q7Z6K4	NRARP_HUMAN	NOTCH-regulated ankyrin repeat protein	50	ANK 1.				negative regulation of Notch signaling pathway|positive regulation of canonical Wnt receptor signaling pathway						0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.185)	OV - Ovarian serous cystadenocarcinoma(145;9.07e-05)|Epithelial(140;0.000273)		GTCTGGCCCTCGGGCCCGAAC	0.637													17	39	---	---	---	---	PASS	A	140196233	A	A	140196233	4	1	52	1	0	0	0	0	0	1	0	0	10639	893	31	2	200	2	NRARP	9	140196233	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	99	140196233	1017198	226	19671										
GAD2	2572	broad.mit.edu	37	chr10	26508134	26508134	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agaatataattgggaattggCagaccaaccacaaaatttgg	9	6	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr10:26508134C>A	uc001isp.2	+	4	952	c.449C>A	c.(448-450)GCA>GAA	p.A150E	GAD2_uc009xkr.2_Missense_Mutation_p.A150E|GAD2_uc001isq.2_Missense_Mutation_p.A150E	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	150					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	TGGGAATTGGCAGACCAACCA	0.328													40	99	---	---	---	---	PASS	A	26508134	A	A	26508134	3	1	52	1	0	0	0	0	1	0	0	0	6180	710	25	3	463	3	GAD2	10	26508134	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08		26508134	109026613	227	19672										
GPRIN2	9721	broad.mit.edu	37	chr10	46999535	46999535	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aggctgagcccaaagctgctGaacagctggctaccaccacc	10	15	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr10:46999535G>A	uc001jec.2	+	3	790	c.655G>A	c.(655-657)GAA>AAA	p.E219K	GPRIN2_uc010qfq.1_5'Flank	NM_014696	NP_055511	O60269	GRIN2_HUMAN	G protein-regulated inducer of neurite outgrowth	219											0						CAAAGCTGCTGAACAGCTGGC	0.637													6	56	---	---	---	---	PASS	A	46999535	A	A	46999535	3	1	52	1	0	0	0	0	1	0	0	0	6730	1291	45	2	657	2	GPRIN2	10	46999535	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	20491401	46999535	88535212	228	19673										
JMJD1C	221037	broad.mit.edu	37	chr10	64967446	64967446	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctgaagatctttcactaacaCgatctttagaagctaactgc	6	10	3	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr10:64967446C>T	uc001jmn.2	-	10	4283	c.3983G>A	c.(3982-3984)CGA>CAA	p.R1328Q	JMJD1C_uc001jml.2_Missense_Mutation_p.R1109Q|JMJD1C_uc001jmm.2_Missense_Mutation_p.R1040H|JMJD1C_uc010qiq.1_Missense_Mutation_p.R1146H|JMJD1C_uc009xpi.2_Missense_Mutation_p.R1146H|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Missense_Mutation_p.R365H	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1328					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TTCACTAACACGATCTTTAGA	0.423													45	128	---	---	---	---	PASS	T	64967446	T	T	64967446	3	4	52	1	0	0	0	0	1	0	0	0	7950	536	19	1	3707	1	JMJD1C	10	64967446	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	17967911	64967446	70567301	229	19674										
TET1	80312	broad.mit.edu	37	chr10	70426800	70426800	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgaatgtattctgttttttcAggttttaagaagaagcagtg	10	3	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr10:70426800A>C	uc001jok.3	+	7	4967	c.4462_splice	c.e7-2	p.V1488_splice		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6						DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						CTGTTTTTTCAGGTTTTAAGA	0.373													11	17	---	---	---	---	PASS	C	70426800	C	C	70426800	5	2	52	1	0	0	0	0	0	0	1	0	15766	202	7	5	4482	5	TET1	10	70426800	Splice_Site	SNP	A	TCGA-22-5491-01A-01D-1632-08	5459354	70426800	65107947	230	19675										
TACR2	6865	broad.mit.edu	37	chr10	71168822	71168822	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tagatgagggcgatcaccacGaggtggtacctgcagggaga	16	8	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr10:71168822G>A	uc001jpn.2	-	3	1192	c.597C>T	c.(595-597)CTC>CTT	p.L199L	TACR2_uc001jpm.2_5'UTR	NM_001057	NP_001048	P21452	NK2R_HUMAN	tachykinin receptor 2	199	Helical; Name=5; (Potential).				excretion|muscle contraction	integral to plasma membrane	tachykinin receptor activity			prostate(1)	1					Clonidine(DB00575)|Octreotide(DB00104)	CGATCACCACGAGGTGGTACC	0.687													3	14	---	---	---	---	PASS	A	71168822	A	A	71168822	2	1	52	1	0	0	0	0	0	0	0	1	15503	1045	37	2		2	TACR2	10	71168822	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	742022	71168822	64365925	231	19676										
KCNMA1	3778	broad.mit.edu	37	chr10	78844400	78844400	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cgccccaagagttacctcatGatattcgaggcatcctccgc	8	15	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr10:78844400G>C	uc001jxn.2	-	12	1695	c.1518C>G	c.(1516-1518)ATC>ATG	p.I506M	KCNMA1_uc001jxj.2_Missense_Mutation_p.I506M|KCNMA1_uc001jxk.1_Missense_Mutation_p.I121M|KCNMA1_uc009xrt.1_Missense_Mutation_p.I326M|KCNMA1_uc001jxl.1_Missense_Mutation_p.I160M|KCNMA1_uc001jxo.2_Missense_Mutation_p.I506M|KCNMA1_uc001jxm.2_Missense_Mutation_p.I506M|KCNMA1_uc001jxq.2_Missense_Mutation_p.I506M	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	506	RCK N-terminal.|Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	GTTACCTCATGATATTCGAGG	0.537													7	50	---	---	---	---	PASS	C	78844400	C	C	78844400	3	2	52	1	0	0	0	0	1	0	0	0	8073	1280	45	2	2432	2	KCNMA1	10	78844400	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	7675578	78844400	56690347	232	19677										
PAX2	5076	broad.mit.edu	37	chr10	102506039	102506039	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tggatatgcactgcaaagcaGaccccttctccgcgatgcac	9	14	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr10:102506039G>C	uc001krk.3	+	1	572	c.22G>C	c.(22-24)GAC>CAC	p.D8H	PAX2_uc001krl.3_Missense_Mutation_p.D8H|PAX2_uc001krm.3_Missense_Mutation_p.D8H|PAX2_uc001kro.3_Missense_Mutation_p.D8H|PAX2_uc001krn.3_Missense_Mutation_p.D8H|PAX2_uc010qps.1_Missense_Mutation_p.D8H|PAX2_uc001krp.1_5'Flank	NM_003990	NP_003981	Q02962	PAX2_HUMAN	paired box protein 2 isoform e	8					anti-apoptosis|axonogenesis|brain morphogenesis|branching involved in ureteric bud morphogenesis|cell fate determination|cellular response to glucose stimulus|cellular response to hydrogen peroxide|cellular response to retinoic acid|cochlea development|glial cell differentiation|inner ear morphogenesis|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesodermal cell fate specification|mesonephros development|metanephric collecting duct development|metanephric distal convoluted tubule development|metanephric mesenchymal cell differentiation|metanephric nephron tubule formation|negative regulation of caspase activity|negative regulation of cytolysis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|negative regulation of reactive oxygen species metabolic process|negative regulation of transcription, DNA-dependent|nephric duct formation|neural tube closure|optic chiasma development|optic cup morphogenesis involved in camera-type eye development|optic nerve structural organization|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of metanephric glomerulus development|positive regulation of optic nerve formation|positive regulation of transcription from RNA polymerase II promoter|pronephric field specification|protein kinase B signaling cascade|reactive oxygen species metabolic process|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of metanephros size|retinal pigment epithelium development|stem cell differentiation|transcription from RNA polymerase II promoter|ureter maturation|vestibulocochlear nerve formation|visual perception	centriolar satellite|nucleus|protein complex|protein-DNA complex	core promoter proximal region sequence-specific DNA binding|superoxide-generating NADPH oxidase activity				0		Colorectal(252;0.234)		Epithelial(162;1.32e-08)|all cancers(201;7.32e-07)		CTGCAAAGCAGACCCCTTCTC	0.682													7	241	---	---	---	---	PASS	C	102506039	C	C	102506039	3	2	52	1	0	0	0	0	1	0	0	0	11479	942	33	2	24	2	PAX2	10	102506039	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	23661639	102506039	33028708	233	19678										
POLL	27343	broad.mit.edu	37	chr10	103344610	103344610	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggggtagtggccactgatgaGggcttccagatcagctgcac	15	10	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr10:103344610G>A	uc001ktg.1	-	4	1406	c.640C>T	c.(640-642)CTC>TTC	p.L214F	DPCD_uc010qpz.1_Intron|POLL_uc001ktd.1_5'Flank|POLL_uc001kte.1_5'Flank|POLL_uc001kth.1_Intron|POLL_uc001kti.1_Missense_Mutation_p.L214F|POLL_uc001ktj.1_Missense_Mutation_p.L214F|POLL_uc001ktf.2_Intron|POLL_uc001ktk.1_Intron|POLL_uc010qqa.1_Intron|POLL_uc010qqb.1_Intron|POLL_uc001ktm.2_Missense_Mutation_p.L214F|POLL_uc001ktl.2_Missense_Mutation_p.L126F|POLL_uc010qqc.1_Intron|POLL_uc010qqd.1_Silent_p.P71P	NM_013274	NP_037406	Q9UGP5	DPOLL_HUMAN	DNA-directed DNA polymerase lambda	214					DNA replication|nucleotide-excision repair|somatic hypermutation of immunoglobulin genes	nucleus	DNA binding|DNA-directed DNA polymerase activity|lyase activity|metal ion binding				0		Colorectal(252;0.234)		Epithelial(162;1.55e-08)|all cancers(201;6.64e-07)		CCACTGATGAGGGCTTCCAGA	0.527								DNA_polymerases_(catalytic_subunits)					20	19	---	---	---	---	PASS	A	103344610	A	A	103344610	3	1	52	1	0	0	0	0	1	0	0	0	12205	1000	35	3	1107	3	POLL	10	103344610	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	838571	103344610	32190137	234	19679										
NOLC1	9221	broad.mit.edu	37	chr10	103919289	103919289	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aggattcctccagtgacgagGaagaggagcaaaaaaaaccc	11	9	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr10:103919289G>C	uc001kuo.2	+	7	1058	c.823G>C	c.(823-825)GAA>CAA	p.E275Q	NOLC1_uc001kup.2_Missense_Mutation_p.E285Q|NOLC1_uc001kuq.2_Missense_Mutation_p.E276Q|NOLC1_uc009xxb.1_5'UTR|NOLC1_uc001kur.2_5'UTR	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	275	Acidic serine cluster 5.|11 X 12 AA approximate repeats of an acidic serine cluster.|Interacts with RPA194.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		CAGTGACGAGGAAGAGGAGCA	0.358													24	39	---	---	---	---	PASS	C	103919289	C	C	103919289	3	2	52	1	0	0	0	0	1	0	0	0	10529	1175	41	2	849	2	NOLC1	10	103919289	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	574679	103919289	31615458	235	19680										
SORCS3	22986	broad.mit.edu	37	chr10	107022168	107022168	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttgggtcagtgagccaaagtGaaaacgcccccaaaatcaca	9	11	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr10:107022168G>A	uc001kyi.1	+	26	3750	c.3523G>A	c.(3523-3525)GAA>AAA	p.E1175K		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	1175	Cytoplasmic (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GAGCCAAAGTGAAAACGCCCC	0.507													12	49	---	---	---	---	PASS	A	107022168	A	A	107022168	3	1	52	1	0	0	0	0	1	0	0	0	14932	1291	45	2	3625	2	SORCS3	10	107022168	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	3102879	107022168	28512579	236	19681										
SMC3	9126	broad.mit.edu	37	chr10	112344088	112344088	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aatgacaagaaaagacagatTgctgctatacataaggattt	8	5	0	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr10:112344088T>C	uc001kze.2	+	13	1365	c.1239T>C	c.(1237-1239)ATT>ATC	p.I413I		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	413	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)		AAAGACAGATTGCTGCTATAC	0.343													5	90	---	---	---	---	PASS	C	112344088	C	C	112344088	2	2	52	1	0	0	0	0	0	0	0	1	14784	1800	63	5		5	SMC3	10	112344088	Silent	SNP	T	TCGA-22-5491-01A-01D-1632-08	5321920	112344088	23190659	237	19682										
TUBGCP2	10844	broad.mit.edu	37	chr10	135106044	135106044	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cccctgtagatccacttctcCagaacctcgaagtagggagc	9	14	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr10:135106044C>G	uc001lmg.1	-	8	1530	c.1173G>C	c.(1171-1173)CTG>CTC	p.L391L	TUBGCP2_uc001lmf.1_5'Flank|TUBGCP2_uc010qvc.1_Silent_p.L419L|TUBGCP2_uc009ybk.1_Silent_p.L391L|TUBGCP2_uc010qvd.1_Silent_p.L261L|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	391					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		TCCACTTCTCCAGAACCTCGA	0.458													10	42	---	---	---	---	PASS	G	135106044	G	G	135106044	2	3	52	1	0	0	0	0	0	0	0	1	16763	581	21	4		4	TUBGCP2	10	135106044	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	22761956	135106044	428703	238	19683										
OR52E2	119678	broad.mit.edu	37	chr11	5080688	5080688	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agtagaacatgggctggtgtAggctgctgtcagtcttgatc	14	7	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:5080688A>G	uc010qyw.1	-	1	170	c.170T>C	c.(169-171)CTA>CCA	p.L57P		NM_001005164	NP_001005164	Q8NGJ4	O52E2_HUMAN	olfactory receptor, family 52, subfamily E,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.03e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.191)		GGGCTGGTGTAGGCTGCTGTC	0.488													18	38	---	---	---	---	PASS	G	5080688	G	G	5080688	3	3	52	1	0	0	0	0	1	0	0	0	11115	420	15	5	810	5	OR52E2	11	5080688	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08		5080688	129925828	239	19684										
CNGA4	1262	broad.mit.edu	37	chr11	6265537	6265537	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	actcgagagtggccaatgccCgaggacctggctgaggctga	15	11	0	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:6265537C>T	uc001mco.2	+	6	1733	c.1626C>T	c.(1624-1626)CCC>CCT	p.P542P	CNGA4_uc010raa.1_3'UTR|CNGA4_uc001mcn.2_3'UTR	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	542	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGCCAATGCCCGAGGACCTGG	0.607													14	36	---	---	---	---	PASS	T	6265537	T	T	6265537	2	4	52	1	0	0	0	0	0	0	0	1	3599	639	23	1		1	CNGA4	11	6265537	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	1184849	6265537	128740979	240	19685										
CYB5R2	51700	broad.mit.edu	37	chr11	7689735	7689735	+	Missense_Mutation	SNP	T	A	A													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccccagcaatcattcccaggTgatcggccagtgttttttta							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:7689735T>A	uc001mfm.2	-	6	684	c.446A>T	c.(445-447)CAC>CTC	p.H149L	CYB5R2_uc001mfn.2_RNA|CYB5R2_uc009yfk.2_Missense_Mutation_p.H149L|CYB5R2_uc009yfl.1_3'UTR	NM_016229	NP_057313	Q6BCY4	NB5R2_HUMAN	cytochrome b5 reductase b5R.2	149	FAD (By similarity).				sterol biosynthetic process	membrane|soluble fraction	cytochrome-b5 reductase activity				0				Epithelial(150;5.48e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CATTCCCAGGTGATCGGCCAG	0.517													96	154	---	---	---	---	PASS	A	7689735	A	A	7689735	3	1	52	1	0	0	0	0	1	0	0	0	4127	1696	59	5	400	5	CYB5R2	11	7689735	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	1424198	7689735	127316781	241	19686	439	2								
CYB5R2	51700	broad.mit.edu	37	chr11	7689738	7689738	+	Missense_Mutation	SNP	T	A	A													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cagcaatcattcccaggtgaTcggccagtgtttttttaggc					rs142026127	byFrequency	TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:7689738T>A	uc001mfm.2	-	6	681	c.443A>T	c.(442-444)GAT>GTT	p.D148V	CYB5R2_uc001mfn.2_RNA|CYB5R2_uc009yfk.2_Missense_Mutation_p.D148V|CYB5R2_uc009yfl.1_3'UTR	NM_016229	NP_057313	Q6BCY4	NB5R2_HUMAN	cytochrome b5 reductase b5R.2	148	FAD (By similarity).				sterol biosynthetic process	membrane|soluble fraction	cytochrome-b5 reductase activity				0				Epithelial(150;5.48e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TCCCAGGTGATCGGCCAGTGT	0.507													93	158	---	---	---	---	PASS	A	7689738	A	A	7689738	3	1	52	1	0	0	0	0	1	0	0	0	4127	1435	50	5	403	5	CYB5R2	11	7689738	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	3	7689738	127316778	242	19687	439	2								
ABTB2	25841	broad.mit.edu	37	chr11	34180853	34180853	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acccacacacctgaaaaatgTggtacttcatgtcgctgatc	7	12	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:34180853T>C	uc001mvl.1	-	14	2359	c.2129A>G	c.(2128-2130)CAC>CGC	p.H710R		NM_145804	NP_665803	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing	710							DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)				CTGAAAAATGTGGTACTTCAT	0.522													8	39	---	---	---	---	PASS	C	34180853	C	C	34180853	3	2	52	1	0	0	0	0	1	0	0	0	103	1696	59	5	406	5	ABTB2	11	34180853	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	26491115	34180853	100825663	243	19688										
ABTB2	25841	broad.mit.edu	37	chr11	34226167	34226167	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agctccagctgggcataggcAtcggctcgctcgtcatggcc	13	14	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:34226167A>C	uc001mvl.1	-	2	626	c.396T>G	c.(394-396)GAT>GAG	p.D132E		NM_145804	NP_665803	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing	132							DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)				GGGCATAGGCATCGGCTCGCT	0.632													16	17	---	---	---	---	PASS	C	34226167	C	C	34226167	3	2	52	1	0	0	0	0	1	0	0	0	103	214	8	5	2187	5	ABTB2	11	34226167	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	45314	34226167	100780349	244	19689										
LRRC4C	57689	broad.mit.edu	37	chr11	40136744	40136744	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cagctcagctgccatgccttCagtgacattgaggtctgcag	11	12	3	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:40136744C>T	uc001mxa.1	-	2	3063	c.1099G>A	c.(1099-1101)GAA>AAA	p.E367K	LRRC4C_uc001mxc.1_Missense_Mutation_p.E363K|LRRC4C_uc001mxd.1_Missense_Mutation_p.E363K|LRRC4C_uc001mxb.1_Missense_Mutation_p.E363K	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	367	Ig-like C2-type.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				GCCATGCCTTCAGTGACATTG	0.507													22	110	---	---	---	---	PASS	T	40136744	T	T	40136744	3	4	52	1	0	0	0	0	1	0	0	0	9008	835	29	2	827	2	LRRC4C	11	40136744	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	5910577	40136744	94869772	245	19690										
OR8J3	81168	broad.mit.edu	37	chr11	55904510	55904510	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tttccttccttctggtgaacGtatccttagaatggacaaaa	7	9	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:55904510G>T	uc010riz.1	-	1	685	c.685C>A	c.(685-687)CGT>AGT	p.R229S		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					TCTGGTGAACGTATCCTTAGA	0.363													5	98	---	---	---	---	PASS	T	55904510	T	T	55904510	3	4	52	1	0	0	0	0	1	0	0	0	11242	1145	40	1	264	1	OR8J3	11	55904510	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	15767766	55904510	79102006	246	19691										
OR5J2	282775	broad.mit.edu	37	chr11	55944867	55944867	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tatggtaccttaatctttagCtacattcagccaagctccca	5	12	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:55944867C>A	uc010rjb.1	+	1	774	c.774C>A	c.(772-774)AGC>AGA	p.S258R		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	258	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					TAATCTTTAGCTACATTCAGC	0.453													25	148	---	---	---	---	PASS	A	55944867	A	A	55944867	3	1	52	1	0	0	0	0	1	0	0	0	11165	796	28	3	776	3	OR5J2	11	55944867	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	40357	55944867	79061649	247	19692										
MS4A2	2206	broad.mit.edu	37	chr11	59857928	59857928	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tttaaagcaggttatccattCtggggagccatatttgtgag	11	6	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:59857928C>A	uc001nop.2	+	3	408	c.306C>A	c.(304-306)TTC>TTA	p.F102L	MS4A2_uc009ymu.2_Missense_Mutation_p.F102L	NM_000139	NP_000130	Q01362	FCERB_HUMAN	membrane-spanning 4-domains, subfamily A, member	102	Helical; (Potential).				cell proliferation|humoral immune response	integral to plasma membrane	calcium channel activity			ovary(1)	1		all_epithelial(135;0.245)			Omalizumab(DB00043)	GTTATCCATTCTGGGGAGCCA	0.343													5	213	---	---	---	---	PASS	A	59857928	A	A	59857928	3	1	52	1	0	0	0	0	1	0	0	0	9860	912	32	2	316	2	MS4A2	11	59857928	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	3913061	59857928	75148588	248	19693										
CD6	923	broad.mit.edu	37	chr11	60785236	60785236	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cctttcctgccttaggacttGaagagttgcatgcctcccac	8	14	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:60785236G>C	uc001nqq.2	+	11	1811	c.1588G>C	c.(1588-1590)GAA>CAA	p.E530Q	CD6_uc001nqp.2_Missense_Mutation_p.E530Q|CD6_uc001nqr.2_Missense_Mutation_p.E498Q|CD6_uc001nqs.2_RNA|CD6_uc001nqt.2_Missense_Mutation_p.E489Q	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule precursor	530	Cytoplasmic (Potential).				cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1						CTTAGGACTTGAAGAGTTGCA	0.398													18	108	---	---	---	---	PASS	C	60785236	C	C	60785236	3	2	52	1	0	0	0	0	1	0	0	0	3028	1291	45	2	1630	2	CD6	11	60785236	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	927308	60785236	74221280	249	19694										
FERMT3	83706	broad.mit.edu	37	chr11	63978285	63978285	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agcttctcccagcccctcttCcaggctgtggctgccatctg	9	17	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:63978285C>G	uc001nyl.2	+	3	512	c.363C>G	c.(361-363)TTC>TTG	p.F121L	FERMT3_uc001nym.2_Missense_Mutation_p.F121L	NM_178443	NP_848537	Q86UX7	URP2_HUMAN	fermitin family homolog 3 long form	121					integrin activation|leukocyte cell-cell adhesion|platelet aggregation|regulation of cell-cell adhesion mediated by integrin	cell junction|cell projection|podosome	integrin binding			ovary(1)	1						AGCCCCTCTTCCAGGCTGTGG	0.667													49	176	---	---	---	---	PASS	G	63978285	G	G	63978285	3	3	52	1	0	0	0	0	1	0	0	0	5819	854	30	2	369	2	FERMT3	11	63978285	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	3193049	63978285	71028231	250	19695										
PGM2L1	283209	broad.mit.edu	37	chr11	74057825	74057825	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgtctgcatcaggatctgtgGctagcactacccgggcattt	11	11	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:74057825G>A	uc001ovb.1	-	8	1285	c.989C>T	c.(988-990)GCC>GTC	p.A330V		NM_173582	NP_775853	Q6PCE3	PGM2L_HUMAN	phosphoglucomutase 2-like 1	330					glucose 1-phosphate metabolic process	cytosol	glucose-1,6-bisphosphate synthase activity|phosphoglucomutase activity			ovary(1)	1	Breast(11;3.32e-06)					AGGATCTGTGGCTAGCACTAC	0.418													7	343	---	---	---	---	PASS	A	74057825	A	A	74057825	3	1	52	1	0	0	0	0	1	0	0	0	11799	1203	42	3	907	3	PGM2L1	11	74057825	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	10079540	74057825	60948691	251	19696										
DDI1	414301	broad.mit.edu	37	chr11	103908395	103908395	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atgtaacatcatgaggctggTggaccgacggtgggctgggg	18	7	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:103908395T>G	uc001phr.2	+	1	1088	c.845T>G	c.(844-846)GTG>GGG	p.V282G	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	282					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		ATGAGGCTGGTGGACCGACGG	0.502													61	74	---	---	---	---	PASS	G	103908395	G	G	103908395	3	3	52	1	0	0	0	0	1	0	0	0	4328	1696	59	5	847	5	DDI1	11	103908395	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	29850570	103908395	31098121	252	19697										
NPAT	4863	broad.mit.edu	37	chr11	108043724	108043724	+	Frame_Shift_Del	DEL	A	-	-													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctcttcttttacagaagatgAaggctcctgtgaattctcag							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:108043724delA	uc001pjz.3	-	13	2089	c.1987delT	c.(1987-1989)TCAfs	p.S663fs	NPAT_uc010rvv.1_5'Flank|NPAT_uc001pka.2_Frame_Shift_Del_p.S458fs	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	663					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		ACAGAAGATGAAGGCTCCTGT	0.398													68	44	---	---	---	---		-	108043724	-	-	108043724	7	5	52	1	0	1	0	1	0	0	0	0	10566	246	9	0	2320	0	NPAT	11	108043724	Frame_Shift_Del	DEL	A	TCGA-22-5491-01A-01D-1632-08	4135329	108043724	26962792	253	19698										
MLL	4297	broad.mit.edu	37	chr11	118352801	118352801	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aaaagcagcctccaccaccaGaatcaggtgagtgaggaggg	13	10	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:118352801G>T	uc001pta.2	+	7	4029	c.4006G>T	c.(4006-4008)GAA>TAA	p.E1336*	MLL_uc001ptb.2_Nonsense_Mutation_p.E1336*|MLL_uc001pte.1_RNA|MLL_uc009zab.1_Missense_Mutation_p.Q61H	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1336					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TCCACCACCAGAATCAGGTGA	0.478			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								14	19	---	---	---	---	PASS	T	118352801	T	T	118352801	4	4	52	1	0	0	0	0	0	1	0	0	9620	943	33	2	4032	2	MLL	11	118352801	Nonsense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	10309077	118352801	16653715	254	19699										
ARHGAP32	9743	broad.mit.edu	37	chr11	128840352	128840352	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agggtacggtggaatgtcttCggggtaacaggtattcctga	15	6	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr11:128840352C>T	uc009zcp.2	-	22	4714	c.4714G>A	c.(4714-4716)GAA>AAA	p.E1572K	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.E531K|ARHGAP32_uc001qez.2_Missense_Mutation_p.E1223K	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1572	Interaction with GAB2.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						GGAATGTCTTCGGGGTAACAG	0.552													15	65	---	---	---	---	PASS	T	128840352	T	T	128840352	3	4	52	1	0	0	0	0	1	0	0	0	881	893	31	2	1553	2	ARHGAP32	11	128840352	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	10487551	128840352	6166164	255	19700										
KCNA6	3742	broad.mit.edu	37	chr12	4920213	4920213	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gccagaatgggcagcaggccAtgtccctggccatcctccga	12	15	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:4920213A>C	uc001qng.2	+	1	1872	c.1006A>C	c.(1006-1008)ATG>CTG	p.M336L		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	336						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						GCAGCAGGCCATGTCCCTGGC	0.632										HNSCC(72;0.22)			19	51	---	---	---	---	PASS	C	4920213	C	C	4920213	3	2	52	1	0	0	0	0	1	0	0	0	8007	217	8	5	1008	5	KCNA6	12	4920213	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08		4920213	128931682	256	19701										
GDF3	9573	broad.mit.edu	37	chr12	7842861	7842861	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cactgatcagggttgagagtCaccaccagcagggaagcatg	13	10	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:7842861C>T	uc001qte.2	-	2	744	c.708G>A	c.(706-708)GTG>GTA	p.V236V		NM_020634	NP_065685	Q9NR23	GDF3_HUMAN	growth differentiation factor 3 precursor	236					eye development|growth|skeletal system development	extracellular space	cytokine activity|growth factor activity			skin(3)|ovary(1)|lung(1)|central_nervous_system(1)	6						GGTTGAGAGTCACCACCAGCA	0.517													4	97	---	---	---	---	PASS	T	7842861	T	T	7842861	2	4	52	1	0	0	0	0	0	0	0	1	6315	813	29	2		2	GDF3	12	7842861	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	2922648	7842861	126009034	257	19702										
TAS2R19	259294	broad.mit.edu	37	chr12	11174550	11174550	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttgctatggagccgcatcttCttgagatgtttacaaagaga	10	7	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:11174550C>A	uc010shj.1	-	1	621	c.621G>T	c.(619-621)AAG>AAT	p.K207N	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176888	NP_795369	P59542	T2R19_HUMAN	taste receptor, type 2, member 19	207	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			skin(1)	1						GCCGCATCTTCTTGAGATGTT	0.403													10	219	---	---	---	---	PASS	A	11174550	A	A	11174550	3	1	52	1	0	0	0	0	1	0	0	0	15567	912	32	2	281	2	TAS2R19	12	11174550	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	3331689	11174550	122677345	258	19703										
TAS2R19	259294	broad.mit.edu	37	chr12	11174583	11174583	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	caaagagaacagattaacagCagaaaacatattaggctcag	8	7	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:11174583C>T	uc010shj.1	-	1	588	c.588G>A	c.(586-588)CTG>CTA	p.L196L	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176888	NP_795369	P59542	T2R19_HUMAN	taste receptor, type 2, member 19	196	Helical; Name=5; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			skin(1)	1						AGATTAACAGCAGAAAACATA	0.398													7	211	---	---	---	---	PASS	T	11174583	T	T	11174583	2	4	52	1	0	0	0	0	0	0	0	1	15567	697	25	3		3	TAS2R19	12	11174583	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	33	11174583	122677312	259	19704										
ABCC9	10060	broad.mit.edu	37	chr12	22061137	22061137	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttatagagcagaatcacgccCattatgatctagagagaaaa	8	7	2	5	rs151197166		TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:22061137C>A	uc001rfi.1	-	9	1349	c.1329G>T	c.(1327-1329)ATG>ATT	p.M443I	ABCC9_uc001rfh.2_Missense_Mutation_p.M443I|ABCC9_uc001rfj.1_Missense_Mutation_p.M443I	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	443	ABC transmembrane type-1 1.|Helical; Name=8; (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GAATCACGCCCATTATGATCT	0.393													19	33	---	---	---	---	PASS	A	22061137	A	A	22061137	3	1	52	1	0	0	0	0	1	0	0	0	59	594	21	3	3582	3	ABCC9	12	22061137	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	10886554	22061137	111790758	260	19705										
SOX5	6660	broad.mit.edu	37	chr12	23699316	23699316	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttttccttcttcattctgttTaactgccagttgctgagtca	6	10	4	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:23699316T>A	uc001rfw.2	-	12	1633	c.1531A>T	c.(1531-1533)AAA>TAA	p.K511*	SOX5_uc001rfx.2_Nonsense_Mutation_p.K498*|SOX5_uc001rfy.2_Nonsense_Mutation_p.K390*|SOX5_uc001rfv.2_Nonsense_Mutation_p.K125*|SOX5_uc010siv.1_Nonsense_Mutation_p.K498*|SOX5_uc010siw.1_Intron|SOX5_uc001rfz.1_Nonsense_Mutation_p.K463*	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	511	Potential.				transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TCATTCTGTTTAACTGCCAGT	0.313													83	112	---	---	---	---	PASS	A	23699316	A	A	23699316	4	1	52	1	0	0	0	0	0	1	0	0	14954	1763	61	5	776	5	SOX5	12	23699316	Nonsense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	1638179	23699316	110152579	261	19706										
C12orf35	55196	broad.mit.edu	37	chr12	32135892	32135892	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgctaaaagtgacagtagctGttccatggaagtgctagcaa	11	7	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:32135892G>T	uc001rks.2	+	4	2417	c.2003G>T	c.(2002-2004)TGT>TTT	p.C668F		NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	668										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			GACAGTAGCTGTTCCATGGAA	0.423													23	28	---	---	---	---	PASS	T	32135892	T	T	32135892	3	4	52	1	0	0	0	0	1	0	0	0	1682	1377	48	3	2005	3	C12orf35	12	32135892	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	8436576	32135892	101716003	262	19707										
LRRK2	120892	broad.mit.edu	37	chr12	40657693	40657693	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcacaaactggtcctagcagCtttgaacagggtatgttgaa	10	8	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:40657693C>A	uc001rmg.3	+	14	1767	c.1646C>A	c.(1645-1647)GCT>GAT	p.A549D	LRRK2_uc001rmh.1_Missense_Mutation_p.A171D	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	549					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)				GTCCTAGCAGCTTTGAACAGG	0.323													23	48	---	---	---	---	PASS	A	40657693	A	A	40657693	3	1	52	1	0	0	0	0	1	0	0	0	9033	797	28	3	1700	3	LRRK2	12	40657693	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	8521801	40657693	93194202	263	19708										
H1FNT	341567	broad.mit.edu	37	chr12	48723172	48723172	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgggcccagtggcgaatcccGaggacactcagccactcagc	12	15	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:48723172G>A	uc001rrm.2	+	1	410	c.98G>A	c.(97-99)CGA>CAA	p.R33Q		NM_181788	NP_861453	Q75WM6	H1FNT_HUMAN	H1 histone family, member N, testis-specific	33					chromosome condensation|multicellular organismal development|sperm chromatin condensation|spermatid nucleus elongation	nuclear chromatin	ATP binding|DNA binding			pancreas(1)	1						GGCGAATCCCGAGGACACTCA	0.657													5	28	---	---	---	---	PASS	A	48723172	A	A	48723172	3	1	52	1	0	0	0	0	1	0	0	0	6921	1058	37	2	100	2	H1FNT	12	48723172	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	8065479	48723172	85128723	264	19709										
ZNF385A	25946	broad.mit.edu	37	chr12	54767862	54767862	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gcctctggtcttggcagcctCaatgcctttgactcgtcggg	12	13	3	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:54767862C>G	uc001sfw.1	-	3	439	c.256G>C	c.(256-258)GAG>CAG	p.E86Q	ZNF385A_uc001sfv.1_Missense_Mutation_p.E67Q|ZNF385A_uc009zno.1_RNA|ZNF385A_uc010sov.1_Missense_Mutation_p.E86Q|ZNF385A_uc001sfx.1_Missense_Mutation_p.E86Q|ZNF385A_uc001sfy.3_Missense_Mutation_p.E106Q|ZNF385A_uc001sfz.3_Missense_Mutation_p.E106Q	NM_015481	NP_056296	Q96PM9	Z385A_HUMAN	zinc finger protein 385A isoform c	86					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1						TTGGCAGCCTCAATGCCTTTG	0.587													10	53	---	---	---	---	PASS	G	54767862	G	G	54767862	3	3	52	1	0	0	0	0	1	0	0	0	17873	835	29	2	864	2	ZNF385A	12	54767862	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	6044690	54767862	79084033	265	19710										
OR6C1	390321	broad.mit.edu	37	chr12	55714515	55714515	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	actgggaacctgacccttatCacaattaccctgctggattc	7	13	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:55714515C>A	uc010spi.1	+	1	132	c.132C>A	c.(130-132)ATC>ATA	p.I44I		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	44	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						TGACCCTTATCACAATTACCC	0.433													50	73	---	---	---	---	PASS	A	55714515	A	A	55714515	2	1	52	1	0	0	0	0	0	0	0	1	11190	816	29	2		2	OR6C1	12	55714515	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	946653	55714515	78137380	266	19711										
NUP107	57122	broad.mit.edu	37	chr12	69085841	69085841	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agccccacagtataacagaaGatgtaactatcagtgctgtt	8	9	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:69085841G>C	uc001suf.2	+	5	512	c.397G>C	c.(397-399)GAT>CAT	p.D133H	NUP107_uc001sug.2_Intron|NUP107_uc010stj.1_Missense_Mutation_p.D104H	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	133					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			TATAACAGAAGATGTAACTAT	0.428													18	85	---	---	---	---	PASS	C	69085841	C	C	69085841	3	2	52	1	0	0	0	0	1	0	0	0	10753	942	33	2	415	2	NUP107	12	69085841	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	13371326	69085841	64766054	267	19712										
ZFC3H1	196441	broad.mit.edu	37	chr12	72036236	72036236	+	Missense_Mutation	SNP	T	A	A													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctggagaactggtttcactaTctgtatccatagcaacttct							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:72036236T>A	uc001swo.2	-	6	1966	c.1607A>T	c.(1606-1608)GAT>GTT	p.D536V		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	536					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						GGTTTCACTATCTGTATCCAT	0.368													22	109	---	---	---	---	PASS	A	72036236	A	A	72036236	3	1	52	1	0	0	0	0	1	0	0	0	17630	1435	50	5	4482	5	ZFC3H1	12	72036236	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	2950395	72036236	61815659	268	19713	440	2								
ZFC3H1	196441	broad.mit.edu	37	chr12	72036237	72036237	+	Missense_Mutation	SNP	C	A	A													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tggagaactggtttcactatCtgtatccatagcaacttctt							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:72036237C>A	uc001swo.2	-	6	1965	c.1606G>T	c.(1606-1608)GAT>TAT	p.D536Y		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	536					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						GTTTCACTATCTGTATCCATA	0.368													22	109	---	---	---	---	PASS	A	72036237	A	A	72036237	3	1	52	1	0	0	0	0	1	0	0	0	17630	913	32	2	4483	2	ZFC3H1	12	72036237	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1	72036237	61815658	269	19714	440	2								
RAB21	23011	broad.mit.edu	37	chr12	72149021	72149021	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggaagacgtcgctggtgctgCgctactgcgagaacaagttt	14	9	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:72149021C>T	uc001swt.2	+	1	364	c.112C>T	c.(112-114)CGC>TGC	p.R38C		NM_014999	NP_055814	Q9UL25	RAB21_HUMAN	RAB21, member RAS oncogene family	38					protein transport|small GTPase mediated signal transduction	cleavage furrow|cytoplasmic vesicle membrane|early endosome membrane|endoplasmic reticulum membrane|Golgi membrane	GDP binding|GTP binding|GTPase activity|protein binding				0						GCTGGTGCTGCGCTACTGCGA	0.557													5	10	---	---	---	---	PASS	T	72149021	T	T	72149021	3	4	52	1	0	0	0	0	1	0	0	0	12908	768	27	1	114	1	RAB21	12	72149021	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	112784	72149021	61702874	270	19715										
TPH2	121278	broad.mit.edu	37	chr12	72338186	72338186	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aacagaattcaatgagctcaTtcagttgctgaaatttcaaa	6	7	4	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:72338186T>C	uc009zrw.1	+	3	509	c.368T>C	c.(367-369)ATT>ACT	p.I123T	TPH2_uc001swy.2_Missense_Mutation_p.I33T	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	123	ACT.				aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	AATGAGCTCATTCAGTTGCTG	0.433													60	97	---	---	---	---	PASS	C	72338186	C	C	72338186	3	2	52	1	0	0	0	0	1	0	0	0	16399	1493	52	5	378	5	TPH2	12	72338186	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	189165	72338186	61513709	271	19716										
SYT1	6857	broad.mit.edu	37	chr12	79685839	79685839	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgacagatggagaagaaaaaGaagaacccaaagaagaggag	13	4	0	8			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:79685839G>C	uc001sys.2	+	7	1074	c.403G>C	c.(403-405)GAA>CAA	p.E135Q	SYT1_uc001syt.2_Missense_Mutation_p.E135Q|SYT1_uc001syu.2_Missense_Mutation_p.E132Q|SYT1_uc001syv.2_Missense_Mutation_p.E135Q	NM_001135805	NP_001129277	P21579	SYT1_HUMAN	synaptotagmin I	135	Cytoplasmic (Potential).				detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6						AGAAGAAAAAGAAGAACCCAA	0.373													18	71	---	---	---	---	PASS	C	79685839	C	C	79685839	3	2	52	1	0	0	0	0	1	0	0	0	15462	943	33	2	413	2	SYT1	12	79685839	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	7347653	79685839	54166056	272	19717										
LRRIQ1	84125	broad.mit.edu	37	chr12	85546834	85546834	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttaaaatgggatgatacttcAtttaatttaccaagtaatcc	5	6	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:85546834A>T	uc001tac.2	+	21	4563	c.4452A>T	c.(4450-4452)TCA>TCT	p.S1484S		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1484										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		ATGATACTTCATTTAATTTAC	0.284													51	89	---	---	---	---	PASS	T	85546834	T	T	85546834	2	4	52	1	0	0	0	0	0	0	0	1	9029	204	8	5		5	LRRIQ1	12	85546834	Silent	SNP	A	TCGA-22-5491-01A-01D-1632-08	5860995	85546834	48305061	273	19718										
TMTC3	160418	broad.mit.edu	37	chr12	88588962	88588962	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	taggagcaaaaaaatgttttGaaaggattttggagatggat	12	1	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:88588962G>C	uc001tau.2	+	14	2501	c.2281G>C	c.(2281-2283)GAA>CAA	p.E761Q		NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat	762	TPR 9.					integral to membrane	binding			skin(1)	1						AAAATGTTTTGAAAGGATTTT	0.333													24	71	---	---	---	---	PASS	C	88588962	C	C	88588962	3	2	52	1	0	0	0	0	1	0	0	0	16259	1291	45	2	2331	2	TMTC3	12	88588962	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	3042128	88588962	45262933	274	19719										
SLC17A8	246213	broad.mit.edu	37	chr12	100813710	100813710	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agtgggctgacccagagaatCtctctgaggagaaatgtgga	14	7	2	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:100813710C>G	uc010svi.1	+	12	1856	c.1543C>G	c.(1543-1545)CTC>GTC	p.L515V	SLC17A8_uc009ztx.2_Missense_Mutation_p.L465V	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	515	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						CCCAGAGAATCTCTCTGAGGA	0.468													12	68	---	---	---	---	PASS	G	100813710	G	G	100813710	3	3	52	1	0	0	0	0	1	0	0	0	14423	913	32	2	1589	2	SLC17A8	12	100813710	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	12224748	100813710	33038185	275	19720										
ATP2A2	488	broad.mit.edu	37	chr12	110783838	110783838	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccagtccttgctgaggatgcCcccctgggagaacatctggc	12	14	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:110783838C>G	uc001tqk.3	+	19	3337	c.2774C>G	c.(2773-2775)CCC>CGC	p.P925R	ATP2A2_uc001tql.3_Missense_Mutation_p.P925R|ATP2A2_uc010sxy.1_Missense_Mutation_p.P898R|ATP2A2_uc001tqn.3_Missense_Mutation_p.P2R|ATP2A2_uc009zvn.2_5'Flank	NM_170665	NP_733765	P16615	AT2A2_HUMAN	ATPase, Ca++ transporting, slow twitch 2 isoform	925	Cytoplasmic (By similarity).				ATP biosynthetic process|cell adhesion|epidermis development|platelet activation|sarcoplasmic reticulum calcium ion transport	integral to plasma membrane|microsome|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|protein C-terminus binding|S100 alpha binding			ovary(3)|skin(1)	4						CTGAGGATGCCCCCCTGGGAG	0.577													65	107	---	---	---	---	PASS	G	110783838	G	G	110783838	3	3	52	1	0	0	0	0	1	0	0	0	1137	623	22	4	2848	4	ATP2A2	12	110783838	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	9970128	110783838	23068057	276	19721										
EP400	57634	broad.mit.edu	37	chr12	132537712	132537712	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggaatcaactatgacaagccGctgcctcccatccaggtggc	10	14	1	1	rs141540187	byFrequency	TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:132537712G>A	uc001ujn.2	+	41	7451	c.7416G>A	c.(7414-7416)CCG>CCA	p.P2472P	EP400_uc001ujl.2_Silent_p.P2471P|EP400_uc001ujm.2_Silent_p.P2391P	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2508					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		ATGACAAGCCGCTGCCTCCCA	0.493													11	122	---	---	---	---	PASS	A	132537712	A	A	132537712	2	1	52	1	0	0	0	0	0	0	0	1	5149	1074	38	1		1	EP400	12	132537712	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	21753874	132537712	1314183	277	19722										
POLE	5426	broad.mit.edu	37	chr12	133256810	133256810	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtttatagggcaaagccaccTgttaagagtcaccaacccat	8	11	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr12:133256810T>A	uc001uks.1	-	4	330	c.286_splice	c.e4-1	p.V96_splice	POLE_uc010tbq.1_Splice_Site|POLE_uc009zyu.1_Splice_Site_p.V69_splice	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon						base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CAAAGCCACCTGTTAAGAGTC	0.468								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					41	64	---	---	---	---	PASS	A	133256810	A	A	133256810	5	1	52	1	0	0	0	0	0	0	1	0	12196	1594	55	5	6760	5	POLE	12	133256810	Splice_Site	SNP	T	TCGA-22-5491-01A-01D-1632-08	719098	133256810	595085	278	19723										
NUPL1	9818	broad.mit.edu	37	chr13	25914196	25914196	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tggggtgtccaatcctgcctCtgcaggttttggaacaggag	14	9	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr13:25914196C>G	uc001uqi.2	+	16	1970	c.1724C>G	c.(1723-1725)TCT>TGT	p.S575C	NUPL1_uc001uqj.2_Missense_Mutation_p.S563C	NM_014089	NP_054808	Q9BVL2	NUPL1_HUMAN	nucleoporin like 1 isoform a	575	14 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore					0		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.0092)|Epithelial(112;0.0477)|OV - Ovarian serous cystadenocarcinoma(117;0.165)|GBM - Glioblastoma multiforme(144;0.244)		AATCCTGCCTCTGCAGGTTTT	0.458													4	129	---	---	---	---	PASS	G	25914196	G	G	25914196	3	3	52	1	0	0	0	0	1	0	0	0	10774	913	32	2	1786	2	NUPL1	13	25914196	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08		25914196	89255682	279	19724										
GPR183	1880	broad.mit.edu	37	chr13	99948238	99948238	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttcctgttttgaacaatgacGaccaaggctagtaagtttcc	8	9	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr13:99948238G>A	uc001vog.2	-	2	336	c.162C>T	c.(160-162)GTC>GTT	p.V54V	UBAC2_uc001voa.3_Intron|UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron	NM_004951	NP_004942	P32249	GP183_HUMAN	EBV-induced G protein-coupled receptor 2	54	Helical; Name=1; (Potential).				humoral immune response|mature B cell differentiation involved in immune response	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0						GAACAATGACGACCAAGGCTA	0.438													21	57	---	---	---	---	PASS	A	99948238	A	A	99948238	2	1	52	1	0	0	0	0	0	0	0	1	6678	1045	37	2		2	GPR183	13	99948238	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	74034042	99948238	15221640	280	19725										
MYO16	23026	broad.mit.edu	37	chr13	109445971	109445971	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaaatgtcaatgagaaaaacGatgaaggagtaaccctggta	11	5	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr13:109445971G>A	uc001vqt.1	+	6	784	c.658G>A	c.(658-660)GAT>AAT	p.D220N	MYO16_uc010agk.1_Missense_Mutation_p.D242N|MYO16_uc001vqu.1_Missense_Mutation_p.D20N	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	220					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			TGAGAAAAACGATGAAGGAGT	0.338													8	38	---	---	---	---	PASS	A	109445971	A	A	109445971	3	1	52	1	0	0	0	0	1	0	0	0	10064	1058	37	2	676	2	MYO16	13	109445971	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	9497733	109445971	5723907	281	19726										
GRK1	6011	broad.mit.edu	37	chr13	114321992	114321992	+	Frame_Shift_Del	DEL	G	-	-													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gacatcgaggactatgacacGgcagacaatgacctccagcc							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr13:114321992delG	uc010tkf.1	+	1	399	c.291delG	c.(289-291)ACGfs	p.T97fs		NM_002929	NP_002920	Q15835	RK_HUMAN	rhodopsin kinase precursor	97	RGS.|N-terminal.				regulation of G-protein coupled receptor protein signaling pathway|rhodopsin mediated phototransduction|rhodopsin mediated signaling pathway	membrane	ATP binding|G-protein coupled receptor kinase activity|rhodopsin kinase activity|signal transducer activity			ovary(2)	2	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.00696)|all_epithelial(44;0.00347)|all_lung(25;0.0221)|Breast(118;0.0411)|Lung NSC(25;0.0839)	all cancers(43;0.234)			ACTATGACACGGCAGACAATG	0.582													7	23	---	---	---	---		-	114321992	-	-	114321992	7	5	52	1	0	1	0	1	0	0	0	0	6790	1103	39	0	293	0	GRK1	13	114321992	Frame_Shift_Del	DEL	G	TCGA-22-5491-01A-01D-1632-08	4876021	114321992	847886	282	19727										
TOX4	9878	broad.mit.edu	37	chr14	21955802	21955802	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acatgcctgtgggcatgaccCatggcttgatggagcagggc	15	10	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr14:21955802C>T	uc001waz.2	+	3	371	c.268C>T	c.(268-270)CAT>TAT	p.H90Y	TOX4_uc001way.2_5'UTR|TOX4_uc001wba.2_RNA|TOX4_uc010tlu.1_Missense_Mutation_p.H67Y|TOX4_uc010tlv.1_Intron	NM_014828	NP_055643	O94842	TOX4_HUMAN	epidermal Langerhans cell protein LCP1	90						chromatin|nucleus|PTW/PP1 phosphatase complex	DNA binding|protein binding			ovary(1)	1	all_cancers(95;0.000465)		Epithelial(56;6.61e-06)|all cancers(55;5.15e-05)	GBM - Glioblastoma multiforme(265;0.0149)		GGGCATGACCCATGGCTTGAT	0.572													18	87	---	---	---	---	PASS	T	21955802	T	T	21955802	3	4	52	1	0	0	0	0	1	0	0	0	16377	594	21	3	278	3	TOX4	14	21955802	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08		21955802	85393738	283	19728										
HOMEZ	57594	broad.mit.edu	37	chr14	23746292	23746292	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccacacaagctgtagctcctCagagattggagggaggcaga	13	10	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr14:23746292C>T	uc001wja.2	-	2	293	c.145G>A	c.(145-147)GAG>AAG	p.E49K	HOMEZ_uc001wjb.2_Missense_Mutation_p.E51K	NM_020834	NP_065885	Q8IX15	HOMEZ_HUMAN	homeodomain leucine zipper protein	49						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		TGTAGCTCCTCAGAGATTGGA	0.542													9	37	---	---	---	---	PASS	T	23746292	T	T	23746292	3	4	52	1	0	0	0	0	1	0	0	0	7281	835	29	2	1511	2	HOMEZ	14	23746292	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1790490	23746292	83603248	284	19729										
DHRS4L1	728635	broad.mit.edu	37	chr14	24507074	24507074	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gggggaggggctgagcatgaCgggcactgtgtgccatgtgg	21	7	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr14:24507074C>G	uc010alc.2	+	2	251	c.251C>G	c.(250-252)ACG>AGG	p.T84R	DHRS4L1_uc010tnu.1_Intron	NM_001082488	NP_001075957	P0CG22	DR4L1_HUMAN	dehydrogenase/reductase (SDR family) member 4	84							binding|oxidoreductase activity				0						CTGAGCATGACGGGCACTGTG	0.652													3	12	---	---	---	---	PASS	G	24507074	G	G	24507074	3	3	52	1	0	0	0	0	1	0	0	0	4493	536	19	4	257	4	DHRS4L1	14	24507074	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	760782	24507074	82842466	285	19730										
NYNRIN	57523	broad.mit.edu	37	chr14	24885022	24885022	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gccaacctatgcccacctggCagccgtggcctgcggcctgg	13	17	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr14:24885022C>A	uc001wpf.3	+	9	4385	c.4067C>A	c.(4066-4068)GCA>GAA	p.A1356E		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	1356					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						GCCCACCTGGCAGCCGTGGCC	0.612													9	88	---	---	---	---	PASS	A	24885022	A	A	24885022	3	1	52	1	0	0	0	0	1	0	0	0	10796	710	25	3	4097	3	NYNRIN	14	24885022	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	377948	24885022	82464518	286	19731										
PTGER2	5732	broad.mit.edu	37	chr14	52781483	52781483	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgttccacgtgctggtgaccGagctggtgttcaccgacctg	13	12	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr14:52781483G>A	uc001wzr.2	+	1	468	c.217G>A	c.(217-219)GAG>AAG	p.E73K		NM_000956	NP_000947	P43116	PE2R2_HUMAN	prostaglandin E receptor 2 (subtype EP2), 53kDa	73	Helical; Name=2; (Potential).					integral to plasma membrane	prostaglandin E receptor activity			lung(1)|breast(1)	2	Breast(41;0.0639)|all_epithelial(31;0.0729)				Alprostadil(DB00770)|Iloprost(DB01088)	GCTGGTGACCGAGCTGGTGTT	0.697													5	55	---	---	---	---	PASS	A	52781483	A	A	52781483	3	1	52	1	0	0	0	0	1	0	0	0	12743	1059	37	2	219	2	PTGER2	14	52781483	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	27896461	52781483	54568057	287	19732										
CGRRF1	10668	broad.mit.edu	37	chr14	54989297	54989297	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agagatcactaatccatcttCagcttcaattacaagttggt	6	9	4	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr14:54989297C>G	uc001xay.2	+	2	321	c.230C>G	c.(229-231)TCA>TGA	p.S77*	CGRRF1_uc010tra.1_Nonsense_Mutation_p.S77*|CGRRF1_uc001xaz.2_RNA	NM_006568	NP_006559	Q99675	CGRF1_HUMAN	cell growth regulator with ring finger domain 1	77					cell cycle arrest|negative regulation of cell proliferation|response to stress		zinc ion binding			ovary(1)	1						AATCCATCTTCAGCTTCAATT	0.363													38	91	---	---	---	---	PASS	G	54989297	G	G	54989297	4	3	52	1	0	0	0	0	0	1	0	0	3306	838	29	2	236	2	CGRRF1	14	54989297	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2207814	54989297	52360243	288	19733										
ESR2	2100	broad.mit.edu	37	chr14	64727439	64727439	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttctctgtctccgcacaaggCggtacccacatctctctctc	6	17	4	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr14:64727439C>A	uc001xha.1	-	5	1148	c.680G>T	c.(679-681)CGC>CTC	p.R227L	ESR2_uc001xgu.2_Missense_Mutation_p.R227L|ESR2_uc001xgv.2_Missense_Mutation_p.R227L|ESR2_uc001xgw.2_RNA|ESR2_uc001xgx.2_Missense_Mutation_p.R227L|ESR2_uc001xgy.1_Missense_Mutation_p.R227L|ESR2_uc001xgz.1_Missense_Mutation_p.R227L|ESR2_uc010aqb.1_RNA|ESR2_uc010aqc.1_Missense_Mutation_p.R227L|ESR2_uc010aqd.1_RNA	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1	227	Steroid-binding.				cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	CCGCACAAGGCGGTACCCACA	0.587													13	41	---	---	---	---	PASS	A	64727439	A	A	64727439	3	1	52	1	0	0	0	0	1	0	0	0	5257	768	27	1	1018	1	ESR2	14	64727439	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	9738142	64727439	42622101	289	19734										
KCNK13	56659	broad.mit.edu	37	chr14	90650863	90650863	+	Missense_Mutation	SNP	A	G	G													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggacctggtcagcagccagaAcgcccactatgagagccaag							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr14:90650863A>G	uc001xye.1	+	2	1185	c.743A>G	c.(742-744)AAC>AGC	p.N248S		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	248						integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				AGCAGCCAGAACGCCCACTAT	0.502													10	56	---	---	---	---	PASS	G	90650863	G	G	90650863	3	3	52	1	0	0	0	0	1	0	0	0	8061	43	2	5	749	5	KCNK13	14	90650863	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	25923424	90650863	16698677	290	19735	441	2								
KCNK13	56659	broad.mit.edu	37	chr14	90650864	90650864	+	Silent	SNP	C	T	T													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gacctggtcagcagccagaaCgcccactatgagagccaagg							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr14:90650864C>T	uc001xye.1	+	2	1186	c.744C>T	c.(742-744)AAC>AAT	p.N248N		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	248						integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				GCAGCCAGAACGCCCACTATG	0.507													10	57	---	---	---	---	PASS	T	90650864	T	T	90650864	2	4	52	1	0	0	0	0	0	0	0	1	8061	535	19	1		1	KCNK13	14	90650864	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	1	90650864	16698676	291	19736	441	2								
DYNC1H1	1778	broad.mit.edu	37	chr14	102483504	102483504	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcactactgcgagtacaggcGcacacctaatggggtggttt	12	10	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr14:102483504G>T	uc001yks.2	+	39	8092	c.7928G>T	c.(7927-7929)CGC>CTC	p.R2643L	DYNC1H1_uc001ykt.1_Missense_Mutation_p.R134L	NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2643	AAA 3 (By similarity).				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						GAGTACAGGCGCACACCTAAT	0.473													28	154	---	---	---	---	PASS	T	102483504	T	T	102483504	3	4	52	1	0	0	0	0	1	0	0	0	4841	1087	38	1	8082	1	DYNC1H1	14	102483504	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	11832640	102483504	4866036	292	19737										
AHNAK2	113146	broad.mit.edu	37	chr14	105405346	105405346	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	caaactctggtgtcactatgCtgtgtatagtgacctcttga	9	9	3	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr14:105405346C>T	uc010axc.1	-	7	16562	c.16442G>A	c.(16441-16443)AGC>AAC	p.S5481N	AHNAK2_uc001ypx.2_Missense_Mutation_p.S5381N	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5481						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)			TGTCACTATGCTGTGTATAGT	0.478													3	27	---	---	---	---	PASS	T	105405346	T	T	105405346	3	4	52	1	0	0	0	0	1	0	0	0	415	797	28	3	949	3	AHNAK2	14	105405346	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2921842	105405346	1944194	293	19738										
C15orf2	23742	broad.mit.edu	37	chr15	24921369	24921369	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gttccgtaaggatccctcctCccagccgcatgttcactctc	7	17	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr15:24921369C>A	uc001ywo.2	+	1	829	c.355C>A	c.(355-357)CCC>ACC	p.P119T		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	119					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GATCCCTCCTCCCAGCCGCAT	0.652													38	54	---	---	---	---	PASS	A	24921369	A	A	24921369	3	1	52	1	0	0	0	0	1	0	0	0	1784	855	30	2	357	2	C15orf2	15	24921369	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08		24921369	77610023	294	19739										
GABRB3	2562	broad.mit.edu	37	chr15	26806098	26806098	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cccggttgctttcgctctttGaacggtcattctttgccttg	9	12	3	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr15:26806098G>C	uc001zaz.2	-	8	1203	c.1061C>G	c.(1060-1062)TCA>TGA	p.S354*	GABRB3_uc010uae.1_Nonsense_Mutation_p.S269*|GABRB3_uc001zba.2_Nonsense_Mutation_p.S354*|GABRB3_uc001zbb.2_Nonsense_Mutation_p.S410*	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	354	Cytoplasmic (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)	TTCGCTCTTTGAACGGTCATT	0.483													17	274	---	---	---	---	PASS	C	26806098	C	C	26806098	4	2	52	1	0	0	0	0	0	1	0	0	6168	1294	45	2	368	2	GABRB3	15	26806098	Nonsense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1884729	26806098	75725294	295	19740										
GABRA5	2558	broad.mit.edu	37	chr15	27185157	27185157	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acctaccttccctgcataatGaccgtgatcttatcacaggt	6	13	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr15:27185157G>A	uc001zbd.1	+	10	1149	c.810G>A	c.(808-810)ATG>ATA	p.M270I	GABRB3_uc001zbb.2_5'Flank	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	270	Helical; (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CCTGCATAATGACCGTGATCT	0.493													21	39	---	---	---	---	PASS	A	27185157	A	A	27185157	3	1	52	1	0	0	0	0	1	0	0	0	6164	1290	45	2	836	2	GABRA5	15	27185157	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	379059	27185157	75346235	296	19741										
RYR3	6263	broad.mit.edu	37	chr15	33922206	33922206	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcaaagctcccagaaactgaGaagaactataacctgcaaat	6	10	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr15:33922206G>C	uc001zhi.2	+	22	2815	c.2745G>C	c.(2743-2745)GAG>GAC	p.E915D	RYR3_uc010bar.2_Missense_Mutation_p.E915D	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	915	4 X approximate repeats.|1.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CAGAAACTGAGAAGAACTATA	0.338													3	14	---	---	---	---	PASS	C	33922206	C	C	33922206	3	2	52	1	0	0	0	0	1	0	0	0	13770	933	33	2	2831	2	RYR3	15	33922206	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	6737049	33922206	68609186	297	19742										
MAP1A	4130	broad.mit.edu	37	chr15	43822282	43822282	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tctaggtgactctgatccctActcatgacacggaggtgact	10	11	3	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr15:43822282A>T	uc001zrt.2	+	6	8739	c.8272A>T	c.(8272-8274)ACT>TCT	p.T2758S		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	2758						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	TCTGATCCCTACTCATGACAC	0.517													32	57	---	---	---	---	PASS	T	43822282	T	T	43822282	3	4	52	1	0	0	0	0	1	0	0	0	9227	391	14	5	8282	5	MAP1A	15	43822282	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	9900076	43822282	58709110	298	19743										
CATSPER2	117155	broad.mit.edu	37	chr15	43940214	43940214	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gagacgtgaacgaatggcatCagctcggggaagctgcatct	14	9	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr15:43940214C>T	uc001zsh.2	-	2	261	c.46G>A	c.(46-48)GAT>AAT	p.D16N	CATSPER2_uc010bdm.2_RNA|CATSPER2_uc001zsi.2_Missense_Mutation_p.D16N|CATSPER2_uc001zsj.2_Missense_Mutation_p.D16N|CATSPER2_uc001zsk.2_Missense_Mutation_p.D16N|CATSPER2_uc001zsl.1_Intron	NM_172095	NP_742093	Q96P56	CTSR2_HUMAN	sperm-associated cation channel 2 isoform 2	16	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|protein binding|voltage-gated ion channel activity			ovary(1)	1		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		CGAATGGCATCAGCTCGGGGA	0.488													64	286	---	---	---	---	PASS	T	43940214	T	T	43940214	3	4	52	1	0	0	0	0	1	0	0	0	2688	826	29	2	1633	2	CATSPER2	15	43940214	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	117932	43940214	58591178	299	19744										
ELL3	80237	broad.mit.edu	37	chr15	44066423	44066427	+	Frame_Shift_Del	DEL	CCCAG	-	-													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaactcttttaatctctgctCccagctctatgaacctttgg					rs139597518		TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr15:44066423_44066427delCCCAG	uc001zsw.1	-	9	1394_1398	c.991_995delCTGGG	c.(991-996)CTGGGAfs	p.L331fs	ELL3_uc001zsv.1_Frame_Shift_Del_p.L285fs|ELL3_uc001zsx.1_Frame_Shift_Del_p.L216fs|uc001zsy.2_5'Flank	NM_025165	NP_079441	Q9HB65	ELL3_HUMAN	elongation factor RNA polymerase II-like 3	331_332					positive regulation of transcription elongation, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				ovary(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;7.81e-07)		AATCTCTGCTCCCAGCTCTATGAAC	0.507													89	45	---	---	---	---		-	44066427	-	-	44066423	7	5	52	1	0	1	0	1	0	0	0	0	5064	855	30	0	210	0	ELL3	15	44066423	Frame_Shift_Del	DEL	CCCAG	TCGA-22-5491-01A-01D-1632-08	126209	44066423	58464969	300	19745										
MYO5A	4644	broad.mit.edu	37	chr15	52615590	52615590	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tttcaagcagtgcaaaaatcGgcatgtgttagagagccaga	11	7	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr15:52615590G>C	uc002aby.2	-	36	4931	c.4687C>G	c.(4687-4689)CGA>GGA	p.R1563G	MYO5A_uc002abx.3_Missense_Mutation_p.R1536G|MYO5A_uc010ugd.1_Missense_Mutation_p.R285G	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	1563	Dilute.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		TGCAAAAATCGGCATGTGTTA	0.383													4	97	---	---	---	---	PASS	C	52615590	C	C	52615590	3	2	52	1	0	0	0	0	1	0	0	0	10078	1124	39	4	904	4	MYO5A	15	52615590	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	8549167	52615590	49915802	301	19746										
MYO1E	4643	broad.mit.edu	37	chr15	59506474	59506474	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aaaaatctgctgcagtttttCattaacaaaattgatacaaa	4	6	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr15:59506474C>T	uc002aga.2	-	12	1600	c.1228G>A	c.(1228-1230)GAA>AAA	p.E410K		NM_004998	NP_004989	Q12965	MYO1E_HUMAN	myosin IE	410	Myosin head-like.				actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)		TGCAGTTTTTCATTAACAAAA	0.279													15	55	---	---	---	---	PASS	T	59506474	T	T	59506474	3	4	52	1	0	0	0	0	1	0	0	0	10072	835	29	2	2166	2	MYO1E	15	59506474	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	6890884	59506474	43024918	302	19747										
TRIP4	9325	broad.mit.edu	37	chr15	64701915	64701915	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aaaccttgcagaagcgagagGaggagctgagagaacttcga	14	7	0	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr15:64701915G>A	uc002anm.2	+	7	974	c.931G>A	c.(931-933)GAG>AAG	p.E311K		NM_016213	NP_057297	Q15650	TRIP4_HUMAN	thyroid hormone receptor interactor 4	311					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ligand-dependent nuclear receptor binding|transcription coactivator activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3						GAAGCGAGAGGAGGAGCTGAG	0.463													21	96	---	---	---	---	PASS	A	64701915	A	A	64701915	3	1	52	1	0	0	0	0	1	0	0	0	16555	1175	41	2	957	2	TRIP4	15	64701915	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	5195441	64701915	37829477	303	19748										
PDE8A	5151	broad.mit.edu	37	chr15	85643423	85643423	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aatgtgttcagtctgacactCatacaggtacggtgccccgt	10	11	3	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr15:85643423C>A	uc002blh.2	+	11	1219	c.1030C>A	c.(1030-1032)CAT>AAT	p.H344N	PDE8A_uc002bli.2_Missense_Mutation_p.H298N|PDE8A_uc010bnc.2_Missense_Mutation_p.H97N|PDE8A_uc010bnd.2_Missense_Mutation_p.H97N|PDE8A_uc002blj.2_5'UTR|PDE8A_uc002blk.2_5'UTR	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	344				H -> R (in Ref. 2; AAK57641 and 6; AAC39763).	cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			GTCTGACACTCATACAGGTAC	0.383													32	50	---	---	---	---	PASS	A	85643423	A	A	85643423	3	1	52	1	0	0	0	0	1	0	0	0	11653	826	29	2	1072	2	PDE8A	15	85643423	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	20941508	85643423	16887969	304	19749										
TBC1D24	57465	broad.mit.edu	37	chr16	2546958	2546958	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cagcgtgaagcaggacatccGcacgttcgtcagagacatcg	12	12	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr16:2546958G>T	uc002cql.2	+	2	949	c.809G>T	c.(808-810)CGC>CTC	p.R270L	TBC1D24_uc002cqk.2_Missense_Mutation_p.R270L|TBC1D24_uc002cqm.2_Missense_Mutation_p.R270L|TBC1D24_uc010bsm.2_5'Flank	NM_020705	NP_065756	Q9ULP9	TBC24_HUMAN	TBC1 domain family, member 24	270					neuron projection development	cytoplasm	protein binding|Rab GTPase activator activity				0						CAGGACATCCGCACGTTCGTC	0.617													4	147	---	---	---	---	PASS	T	2546958	T	T	2546958	3	4	52	1	0	0	0	0	1	0	0	0	15611	1087	38	1	811	1	TBC1D24	16	2546958	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08		2546958	87807795	305	19750										
OR1F1	4992	broad.mit.edu	37	chr16	3254528	3254528	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gagactcagaccatctccttCtgtggctgtctcacacagat	8	13	4	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr16:3254528C>T	uc010uwu.1	+	1	282	c.282C>T	c.(280-282)TTC>TTT	p.F94F		NM_012360	NP_036492	O43749	OR1F1_HUMAN	olfactory receptor, family 1, subfamily F,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCATCTCCTTCTGTGGCTGTC	0.502													7	300	---	---	---	---	PASS	T	3254528	T	T	3254528	2	4	52	1	0	0	0	0	0	0	0	1	10956	912	32	2		2	OR1F1	16	3254528	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	707570	3254528	87100225	306	19751										
ZNF174	7727	broad.mit.edu	37	chr16	3458795	3458795	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aaactgctttgggcggcagtCaaccctgaagctgcaccaga	11	12	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr16:3458795C>T	uc002cvc.2	+	3	1915	c.1100C>T	c.(1099-1101)TCA>TTA	p.S367L		NM_003450	NP_003441	Q15697	ZN174_HUMAN	zinc finger protein 174 isoform a	367	C2H2-type 2.				negative regulation of transcription from RNA polymerase II promoter|viral reproduction	actin cytoskeleton|cytoplasm|nucleus	protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0						GGGCGGCAGTCAACCCTGAAG	0.542													6	43	---	---	---	---	PASS	T	3458795	T	T	3458795	3	4	52	1	0	0	0	0	1	0	0	0	17741	838	29	2	1194	2	ZNF174	16	3458795	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	204267	3458795	86895958	307	19752										
UBN1	29855	broad.mit.edu	37	chr16	4924782	4924782	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acagcttgccacggacgtctCacgggccccaagtggcagtt	12	14	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr16:4924782C>T	uc002cyb.2	+	15	2710	c.2371C>T	c.(2371-2373)CAC>TAC	p.H791Y	UBN1_uc010uxw.1_Missense_Mutation_p.H791Y|UBN1_uc002cyc.2_Missense_Mutation_p.H791Y	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	791					chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						ACGGACGTCTCACGGGCCCCA	0.572													24	200	---	---	---	---	PASS	T	4924782	T	T	4924782	3	4	52	1	0	0	0	0	1	0	0	0	16889	826	29	2	2425	2	UBN1	16	4924782	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1465987	4924782	85429971	308	19753										
CIITA	4261	broad.mit.edu	37	chr16	11004059	11004059	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctccaggacgagaagttcctCggaagacacagctggggagc	14	11	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr16:11004059C>G	uc002dai.3	+	13	2964	c.2831C>G	c.(2830-2832)TCG>TGG	p.S944W	CIITA_uc002daj.3_Missense_Mutation_p.S945W|CIITA_uc002dak.3_Missense_Mutation_p.S360W|CIITA_uc010bup.1_Missense_Mutation_p.R341G	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	944			Missing (in BLS2).		interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						AGAAGTTCCTCGGAAGACACA	0.567			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								8	24	---	---	---	---	PASS	G	11004059	G	G	11004059	3	3	52	1	0	0	0	0	1	0	0	0	3428	893	31	2	2881	2	CIITA	16	11004059	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	6079277	11004059	79350694	309	19754										
SLC5A2	6524	broad.mit.edu	37	chr16	31494562	31494562	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	attgctgcatatttcctgctGgtcattggcgttggcttgtg	12	8	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr16:31494562G>A	uc002ecf.3	+	1	124	c.105G>A	c.(103-105)CTG>CTA	p.L35L	SLC5A2_uc010car.2_RNA	NM_003041	NP_003032	P31639	SC5A2_HUMAN	solute carrier family 5 (sodium/glucose	35	Helical; (Potential).				carbohydrate metabolic process	integral to membrane	low-affinity glucose:sodium symporter activity			ovary(1)	1						ATTTCCTGCTGGTCATTGGCG	0.597													56	97	---	---	---	---	PASS	A	31494562	A	A	31494562	2	1	52	1	0	0	0	0	0	0	0	1	14665	1335	47	3		3	SLC5A2	16	31494562	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	20490503	31494562	58860191	310	19755										
DNAJA2	10294	broad.mit.edu	37	chr16	46998598	46998598	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gcctggtctgcttccccagtGaatgtaattctctgtccatg	9	12	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr16:46998598G>A	uc002eeo.2	-	6	841	c.699C>T	c.(697-699)TTC>TTT	p.F233F	DNAJA2_uc002eep.2_Silent_p.F150F	NM_005880	NP_005871	O60884	DNJA2_HUMAN	DnaJ subfamily A member 2	233					positive regulation of cell proliferation|protein folding|response to heat	membrane	ATP binding|heat shock protein binding|metal ion binding|unfolded protein binding			lung(1)	1		all_cancers(37;0.00125)|all_lung(18;0.00338)|all_epithelial(9;0.00358)|Lung NSC(13;0.0309)|Breast(268;0.116)				CTTCCCCAGTGAATGTAATTC	0.418													52	196	---	---	---	---	PASS	A	46998598	A	A	46998598	2	1	52	1	0	0	0	0	0	0	0	1	4612	1281	45	2		2	DNAJA2	16	46998598	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	15504036	46998598	43356155	311	19756										
HSF4	3299	broad.mit.edu	37	chr16	67199689	67199689	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccggagcgcgaccacgtcgaGttccagcacccgagcttcgt	12	16	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr16:67199689G>A	uc002erl.1	+	5	1265	c.300G>A	c.(298-300)GAG>GAA	p.E100E	HSF4_uc002erm.1_Silent_p.E100E|HSF4_uc002ern.1_RNA|HSF4_uc010cec.1_RNA	NM_001040667	NP_001035757	Q9ULV5	HSF4_HUMAN	heat shock transcription factor 4 isoform b	100	By similarity.				response to stress	nucleus	sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		ACCACGTCGAGTTCCAGCACC	0.711													20	6	---	---	---	---	PASS	A	67199689	A	A	67199689	2	1	52	1	0	0	0	0	0	0	0	1	7398	1020	36	3		3	HSF4	16	67199689	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	20201091	67199689	23155064	312	19757										
PSMB10	5699	broad.mit.edu	37	chr16	67968568	67968568	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccaggcacaaagtggtagcgGccagacctgggagggaggag	18	9	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr16:67968568G>A	uc002eux.1	-	8	818	c.717C>T	c.(715-717)GGC>GGT	p.G239G	CTRL_uc002euw.2_5'Flank	NM_002801	NP_002792	P40306	PSB10_HUMAN	proteasome beta 10 subunit proprotein	239					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|humoral immune response|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|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00415)|Epithelial(162;0.0182)|all cancers(182;0.119)		AGTGGTAGCGGCCAGACCTGG	0.597													4	174	---	---	---	---	PASS	A	67968568	A	A	67968568	2	1	52	1	0	0	0	0	0	0	0	1	12675	1190	42	3		3	PSMB10	16	67968568	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	768879	67968568	22386185	313	19758										
ZFHX3	463	broad.mit.edu	37	chr16	72821373	72821373	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cggaggagggggcggcggccGacgggggaggggggctgtcg	27	8	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr16:72821373G>C	uc002fck.2	-	10	11475	c.10802C>G	c.(10801-10803)TCG>TGG	p.S3601W	uc002fcj.1_Intron|ZFHX3_uc002fcl.2_Missense_Mutation_p.S2687W	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3601					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GGCGGCGGCCGACGGGGGAGG	0.652													12	50	---	---	---	---	PASS	C	72821373	C	C	72821373	3	2	52	1	0	0	0	0	1	0	0	0	17631	1059	37	2	313	2	ZFHX3	16	72821373	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	4852805	72821373	17533380	314	19759										
SCARF1	8578	broad.mit.edu	37	chr17	1543260	1543260	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cccctgtcacagtatcacagGacccctgaacacaggtgggg	11	14	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:1543260G>A	uc002fsz.1	-	6	1135	c.1085C>T	c.(1084-1086)TCC>TTC	p.S362F	SCARF1_uc002fsy.1_Missense_Mutation_p.S362F|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Intron	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	362	Extracellular (Potential).|EGF-like 6.				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		AGTATCACAGGACCCCTGAAC	0.642													16	50	---	---	---	---	PASS	A	1543260	A	A	1543260	3	1	52	1	0	0	0	0	1	0	0	0	13883	1174	41	2	1431	2	SCARF1	17	1543260	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08		1543260	79651950	315	19760										
ANKFY1	51479	broad.mit.edu	37	chr17	4084552	4084552	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	actggggactctcagacctgCgaataagaaagcaggcggtg	14	9	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:4084552C>A	uc002fxq.1	-	16	2275	c.2237G>T	c.(2236-2238)CGC>CTC	p.R746L	ANKFY1_uc002fxn.2_Missense_Mutation_p.R788L|ANKFY1_uc002fxo.2_Missense_Mutation_p.R747L|ANKFY1_uc002fxp.2_Missense_Mutation_p.R745L|ANKFY1_uc010ckp.2_Missense_Mutation_p.R688L	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	746	ANK 12.					endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						CTCAGACCTGCGAATAAGAAA	0.522													25	11	---	---	---	---	PASS	A	4084552	A	A	4084552	3	1	52	1	0	0	0	0	1	0	0	0	626	768	27	1	1312	1	ANKFY1	17	4084552	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2541292	4084552	77110658	316	19761										
ZNF232	7775	broad.mit.edu	37	chr17	5009402	5009402	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtttctctcctgtatgaattCtctgatgctgaccgaggttt	9	9	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:5009402C>G	uc002gas.2	-	5	1725	c.971G>C	c.(970-972)AGA>ACA	p.R324T	ZNF232_uc002gar.1_Missense_Mutation_p.R342T|ZNF232_uc002gat.2_Missense_Mutation_p.R351T	NM_014519	NP_055334	Q9UNY5	ZN232_HUMAN	zinc finger protein 232	324	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)	2						TGTATGAATTCTCTGATGCTG	0.458													53	77	---	---	---	---	PASS	G	5009402	G	G	5009402	3	3	52	1	0	0	0	0	1	0	0	0	17782	913	32	2	286	2	ZNF232	17	5009402	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	924850	5009402	76185808	317	19762										
NEURL4	84461	broad.mit.edu	37	chr17	7232368	7232368	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	accttgcggtcgatgcggacGgtgaagacgcgtccatcgcg	15	12	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:7232368G>A	uc002gga.1	-	1	271	c.264C>T	c.(262-264)ACC>ACT	p.T88T	NEURL4_uc002ggb.1_Silent_p.T88T|NEURL4_uc002ggc.1_5'Flank	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	88	NHR 1.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						CGATGCGGACGGTGAAGACGC	0.672													23	10	---	---	---	---	PASS	A	7232368	A	A	7232368	2	1	52	1	0	0	0	0	0	0	0	1	10347	1103	39	1		1	NEURL4	17	7232368	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	2222966	7232368	73962842	318	19763										
TP53	7157	broad.mit.edu	37	chr17	7578478	7578478	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggacgcgggtgccgggcgggGgtgtggaatcaacccacagc	19	11	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:7578478G>C	uc002gim.2	-	5	646	c.452C>G	c.(451-453)CCC>CGC	p.P151R	TP53_uc002gig.1_Missense_Mutation_p.P151R|TP53_uc002gih.2_Missense_Mutation_p.P151R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.P19R|TP53_uc010cng.1_Missense_Mutation_p.P19R|TP53_uc002gii.1_Missense_Mutation_p.P19R|TP53_uc010cnh.1_Missense_Mutation_p.P151R|TP53_uc010cni.1_Missense_Mutation_p.P151R|TP53_uc002gij.2_Missense_Mutation_p.P151R|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.P58R|TP53_uc002gio.2_Missense_Mutation_p.P19R|TP53_uc010vug.1_Missense_Mutation_p.P112R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	151	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> R (in sporadic cancers; somatic mutation).|P -> A (in sporadic cancers; somatic mutation).|P -> L (in sporadic cancers; somatic mutation).|P -> H (in sporadic cancers; somatic mutation).|P -> T (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P151S(61)|p.P151H(25)|p.P151T(13)|p.P151P(12)|p.P151A(8)|p.0?(7)|p.P151fs*30(7)|p.P151L(6)|p.P151R(6)|p.T150fs*16(3)|p.P151_V173del23(1)|p.P152_P153del(1)|p.P152fs*28(1)|p.P151del(1)|p.D148_T155delDSTPPPGT(1)|p.T150_P153delTPPP(1)|p.P153fs*28(1)|p.D148fs*23(1)|p.P152del(1)|p.S149fs*72(1)|p.S149fs*17(1)|p.Q144_G154del11(1)|p.P152fs*14(1)|p.T150_P151delTP(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)		GCCGGGCGGGGGTGTGGAATC	0.607		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)			32	16	---	---	---	---	PASS	C	7578478	C	C	7578478	3	2	52	1	0	0	0	0	1	0	0	0	16378	1232	43	4	846	4	TP53	17	7578478	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	346110	7578478	73616732	319	19764										
MYH2	4620	broad.mit.edu	37	chr17	10432354	10432354	+	Frame_Shift_Del	DEL	C	-	-													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctctgctttggcccgggaggCccgctctgcctcgatttcct							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:10432354delC	uc010coi.2	-	27	3525	c.3397delG	c.(3397-3399)GCCfs	p.A1133fs	uc002gml.1_Intron|MYH2_uc002gmp.3_Frame_Shift_Del_p.A1133fs|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1133	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GCCCGGGAGGCCCGCTCTGCC	0.602													29	41	---	---	---	---		-	10432354	-	-	10432354	7	5	52	1	0	1	0	1	0	0	0	0	10035	739	26	0	2484	0	MYH2	17	10432354	Frame_Shift_Del	DEL	C	TCGA-22-5491-01A-01D-1632-08	2853876	10432354	70762856	320	19765										
MYOCD	93649	broad.mit.edu	37	chr17	12666802	12666802	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttaagcttcactgaatctccCtgggaaaccatggagtggct	10	10	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:12666802C>A	uc002gnn.2	+	13	2957	c.2658C>A	c.(2656-2658)CCC>CCA	p.P886P	MYOCD_uc002gno.2_Silent_p.P934P|MYOCD_uc002gnq.2_Silent_p.P610P	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	886					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CTGAATCTCCCTGGGAAACCA	0.547													11	20	---	---	---	---	PASS	A	12666802	A	A	12666802	2	1	52	1	0	0	0	0	0	0	0	1	10087	668	24	3		3	MYOCD	17	12666802	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	2234448	12666802	68528408	321	19766										
FBXW10	10517	broad.mit.edu	37	chr17	18647967	18647967	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtggaccaaggcgaattataCtctcttactgctgcagatgt	10	9	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:18647967C>T	uc002guk.2	+	1	642	c.410C>T	c.(409-411)ACT>ATT	p.T137I	FBXW10_uc002guj.2_Missense_Mutation_p.T137I|FBXW10_uc002gul.2_Missense_Mutation_p.T137I|FBXW10_uc010cqh.1_Missense_Mutation_p.T137I	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	137										ovary(1)	1						GCGAATTATACTCTCTTACTG	0.438													71	36	---	---	---	---	PASS	T	18647967	T	T	18647967	3	4	52	1	0	0	0	0	1	0	0	0	5763	565	20	3	412	3	FBXW10	17	18647967	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	5981165	18647967	62547243	322	19767										
RAB34	83871	broad.mit.edu	37	chr17	27041699	27041699	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cttcttcttgctggcagttaGgtagaggttgctgtcatcac	11	9	4	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:27041699G>C	uc002hce.2	-	10	1366	c.742C>G	c.(742-744)CTA>GTA	p.L248V	PROCA1_uc002hca.1_5'Flank|RAB34_uc002hcg.2_Missense_Mutation_p.L240V|RAB34_uc002hcf.2_Missense_Mutation_p.L249V|RAB34_uc010was.1_Missense_Mutation_p.L305V|RAB34_uc010wat.1_Missense_Mutation_p.L297V|RAB34_uc002hch.2_Missense_Mutation_p.L248V|RAB34_uc010wau.1_Missense_Mutation_p.L226V|RAB34_uc010wav.1_Intron	NM_031934	NP_114140	Q9BZG1	RAB34_HUMAN	Ras-related protein RAB34 isoform 1	248					protein transport|small GTPase mediated signal transduction	Golgi apparatus	GTP binding				0	Lung NSC(42;0.00431)					CTGGCAGTTAGGTAGAGGTTG	0.552													44	64	---	---	---	---	PASS	C	27041699	C	C	27041699	3	2	52	1	0	0	0	0	1	0	0	0	12924	991	35	4	105	4	RAB34	17	27041699	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	8393732	27041699	54153511	323	19768										
SSH2	85464	broad.mit.edu	37	chr17	27963527	27963527	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atccattgatgtcatttaagTttaattcatcctcaatctgt	4	8	4	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:27963527T>C	uc002heo.1	-	14	1640	c.1640A>G	c.(1639-1641)AAC>AGC	p.N547S	SSH2_uc010wbh.1_Missense_Mutation_p.N574S	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	547					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						GTCATTTAAGTTTAATTCATC	0.393													62	100	---	---	---	---	PASS	C	27963527	C	C	27963527	3	2	52	1	0	0	0	0	1	0	0	0	15184	1725	60	5	2639	5	SSH2	17	27963527	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	921828	27963527	53231683	324	19769										
CRLF3	51379	broad.mit.edu	37	chr17	29119460	29119460	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gttttaatatctacttgcctGaatgttaatgtctgcccaca	6	9	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:29119460G>C	uc002hfr.3	-	6	1066	c.957C>G	c.(955-957)TTC>TTG	p.F319L	CRLF3_uc010wbr.1_Missense_Mutation_p.F203L	NM_015986	NP_057070	Q8IUI8	CRLF3_HUMAN	cytokine receptor-like factor 3	319					negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|positive regulation of cell cycle arrest|positive regulation of JAK-STAT cascade|positive regulation of transcription from RNA polymerase II promoter	cytoplasm					0		all_hematologic(16;0.014)|Acute lymphoblastic leukemia(14;0.0236)|Myeloproliferative disorder(56;0.0255)				CTACTTGCCTGAATGTTAATG	0.294													25	115	---	---	---	---	PASS	C	29119460	C	C	29119460	3	2	52	1	0	0	0	0	1	0	0	0	3888	1281	45	2	383	2	CRLF3	17	29119460	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1155933	29119460	52075750	325	19770										
C17orf102	400591	broad.mit.edu	37	chr17	32906212	32906212	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	taccctggagaaacgcagctGagggaggtggaggctcctcc	15	11	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:32906212G>A	uc002hie.1	-	1	177	c.88C>T	c.(88-90)CAG>TAG	p.Q30*	TMEM132E_uc002hif.2_5'Flank	NM_207454	NP_997337	A2RUQ5	CQ102_HUMAN	hypothetical protein LOC400591	30										ovary(1)	1						AAACGCAGCTGAGGGAGGTGG	0.627													11	31	---	---	---	---	PASS	A	32906212	A	A	32906212	4	1	52	1	0	0	0	0	0	1	0	0	1849	1299	45	2	423	2	C17orf102	17	32906212	Nonsense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	3786752	32906212	48288998	326	19771										
PIP4K2B	8396	broad.mit.edu	37	chr17	36940500	36940500	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccaggagcctccatacctggTaatcctgatcatcaattcca	6	14	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:36940500T>A	uc002hqs.2	-	3	831	c.350A>T	c.(349-351)TAC>TTC	p.Y117F	PIP4K2B_uc010wdt.1_Missense_Mutation_p.Y117F|PIP4K2B_uc010wdu.1_Missense_Mutation_p.Y53F	NM_003559	NP_003550	P78356	PI42B_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	117	PIPK.				cell surface receptor linked signaling pathway	endoplasmic reticulum membrane|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|receptor signaling protein activity			ovary(1)	1						CCATACCTGGTAATCCTGATC	0.493													15	41	---	---	---	---	PASS	A	36940500	A	A	36940500	3	1	52	1	0	0	0	0	1	0	0	0	11937	1638	57	5	932	5	PIP4K2B	17	36940500	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	4034288	36940500	44254710	327	19772										
KCNH4	23415	broad.mit.edu	37	chr17	40317507	40317507	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gcaggttgaaggtgaggtccCggggcaggccagcccggaag	19	10	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:40317507C>T	uc002hzb.2	-	11	2378	c.2045G>A	c.(2044-2046)CGG>CAG	p.R682Q		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	682	Cytoplasmic (Potential).				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)		GGTGAGGTCCCGGGGCAGGCC	0.632													5	140	---	---	---	---	PASS	T	40317507	T	T	40317507	3	4	52	1	0	0	0	0	1	0	0	0	8034	652	23	1	1032	1	KCNH4	17	40317507	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	3377007	40317507	40877703	328	19773										
C1QL1	10882	broad.mit.edu	37	chr17	43045094	43045094	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cccccgcgcccggcagccccGgagggcccggcttgcctggc	15	21	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:43045094G>T	uc002ihv.2	-	1	551	c.323C>A	c.(322-324)CCG>CAG	p.P108Q		NM_006688	NP_006679	O75973	C1QRF_HUMAN	complement component 1, q subcomponent-like 1	108	Collagen-like.				locomotory behavior	collagen					0		Prostate(33;0.155)				cggcagccccggagggcccgg	0.577													16	38	---	---	---	---	PASS	T	43045094	T	T	43045094	3	4	52	1	0	0	0	0	1	0	0	0	1958	1116	39	1	461	1	C1QL1	17	43045094	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2727587	43045094	38150116	329	19774										
C17orf57	124989	broad.mit.edu	37	chr17	45473328	45473328	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aatttctagctgcattggaaCtagtgacagttgatggtgag	12	5	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:45473328C>A	uc002iln.2	+	17	2341	c.1930C>A	c.(1930-1932)CTA>ATA	p.L644I	C17orf57_uc002ilm.2_Missense_Mutation_p.L548I	NM_152347	NP_689560	Q8IY85	CQ057_HUMAN	hypothetical protein LOC124989	644	EF-hand 3.						calcium ion binding			breast(1)|central_nervous_system(1)|skin(1)	3						TGCATTGGAACTAGTGACAGT	0.328													50	87	---	---	---	---	PASS	A	45473328	A	A	45473328	3	1	52	1	0	0	0	0	1	0	0	0	1865	564	20	3	1984	3	C17orf57	17	45473328	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2428234	45473328	35721882	330	19775										
COL1A1	1277	broad.mit.edu	37	chr17	48266307	48266307	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtccagccaatccaggggggCccatgggaccagggggacca	16	13	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:48266307C>T	uc002iqm.2	-	41	3128	c.3002G>A	c.(3001-3003)GGC>GAC	p.G1001D		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	1001	Triple-helical region.		G -> C (in OI2A).		axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	TCCAGGGGGGCCCATGGGACC	0.612			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						30	116	---	---	---	---	PASS	T	48266307	T	T	48266307	3	4	52	1	0	0	0	0	1	0	0	0	3677	739	26	3	1436	3	COL1A1	17	48266307	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2792979	48266307	32928903	331	19776										
ANKFN1	162282	broad.mit.edu	37	chr17	54428207	54428207	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acatagtgctccctcatctcCcaacgcagccaaacgcctgt	6	17	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:54428207C>A	uc002iun.1	+	4	313	c.278C>A	c.(277-279)CCC>CAC	p.P93H		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	93										large_intestine(1)|ovary(1)	2						CCCTCATCTCCCAACGCAGCC	0.453													51	74	---	---	---	---	PASS	A	54428207	A	A	54428207	3	1	52	1	0	0	0	0	1	0	0	0	625	623	22	3	292	3	ANKFN1	17	54428207	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	6161900	54428207	26767003	332	19777										
DCAF7	10238	broad.mit.edu	37	chr17	61661022	61661022	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccactgcttcgcctctgctgGaacaagcaggaccctaacta	8	15	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:61661022G>C	uc002jbc.2	+	6	904	c.687G>C	c.(685-687)TGG>TGC	p.W229C	DCAF7_uc002jbb.2_RNA|DCAF7_uc010wpn.1_Intron	NM_005828	NP_005819	P61962	DCAF7_HUMAN	WD-repeat protein	229					multicellular organismal development	CUL4 RING ubiquitin ligase complex|cytoplasm|nucleus	protein binding			ovary(1)	1						GCCTCTGCTGGAACAAGCAGG	0.572													13	39	---	---	---	---	PASS	C	61661022	C	C	61661022	3	2	52	1	0	0	0	0	1	0	0	0	4275	1175	41	2	706	2	DCAF7	17	61661022	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	7232815	61661022	19534188	333	19778										
SCN4A	6329	broad.mit.edu	37	chr17	62018997	62018997	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggggtcacagtctgggggccCgctgttgaggatggggttga	20	7	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:62018997C>T	uc002jds.1	-	24	4722	c.4645G>A	c.(4645-4647)GGG>AGG	p.G1549R		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1549	IV.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	TCTGGGGGCCCGCTGTTGAGG	0.597													4	38	---	---	---	---	PASS	T	62018997	T	T	62018997	3	4	52	1	0	0	0	0	1	0	0	0	13920	652	23	1	869	1	SCN4A	17	62018997	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	357975	62018997	19176213	334	19779										
KPNA2	3838	broad.mit.edu	37	chr17	66040122	66040122	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	caaacatcacagccggccgcCaggaccagatacagcaagtt	9	14	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:66040122C>T	uc002jgk.2	+	8	1231	c.1099C>T	c.(1099-1101)CAG>TAG	p.Q367*	KPNA2_uc002jgl.2_Nonsense_Mutation_p.Q367*	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	367	NLS binding site (minor) (By similarity).|ARM 8.				DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			AGCCGGCCGCCAGGACCAGAT	0.468													63	215	---	---	---	---	PASS	T	66040122	T	T	66040122	4	4	52	1	0	0	0	0	0	1	0	0	8430	595	21	3	1125	3	KPNA2	17	66040122	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	4021125	66040122	15155088	335	19780										
KIAA0195	9772	broad.mit.edu	37	chr17	73486809	73486809	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aagttctcagaggatactctCagcagctatacggaggctgt	11	9	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:73486809C>T	uc002jnz.3	+	11	1373	c.1098C>T	c.(1096-1098)CTC>CTT	p.L366L	KIAA0195_uc010wsa.1_Silent_p.L376L|KIAA0195_uc010wsb.1_Silent_p.L18L	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	366					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			AGGATACTCTCAGCAGCTATA	0.572													12	88	---	---	---	---	PASS	T	73486809	T	T	73486809	2	4	52	1	0	0	0	0	0	0	0	1	8160	813	29	2		2	KIAA0195	17	73486809	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	7446687	73486809	7708401	336	19781										
SAP30BP	29115	broad.mit.edu	37	chr17	73702548	73702548	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccaccagcgccagcggctccAagaccaccgtcatctctgct	8	19	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:73702548A>G	uc002jpe.2	+	11	928	c.874A>G	c.(874-876)AAG>GAG	p.K292E	SAP30BP_uc002jpc.1_RNA|SAP30BP_uc010wsf.1_RNA|SAP30BP_uc010wsg.1_RNA|SAP30BP_uc002jpf.2_Missense_Mutation_p.K276E	NM_013260	NP_037392	Q9UHR5	S30BP_HUMAN	transcriptional regulator protein	292	Thr-rich.				apoptosis|induction of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1	all_cancers(13;6.42e-08)		all cancers(21;4.25e-07)|Epithelial(20;9.57e-07)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			CAGCGGCTCCAAGACCACCGT	0.612													61	150	---	---	---	---	PASS	G	73702548	G	G	73702548	3	3	52	1	0	0	0	0	1	0	0	0	13834	131	5	5	916	5	SAP30BP	17	73702548	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	215739	73702548	7492662	337	19782										
RHBDF2	79651	broad.mit.edu	37	chr17	74476009	74476009	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggctggcttttctttagcctCctattctgaaaaccctgaga	8	11	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:74476009C>T	uc002jrq.1	-	4	458	c.165G>A	c.(163-165)AGG>AGA	p.R55R	RHBDF2_uc002jrp.1_Intron|RHBDF2_uc002jrr.1_Intron|RHBDF2_uc010wtf.1_Intron|RHBDF2_uc002jrs.1_Intron	NM_024599	NP_078875	Q6PJF5	RHDF2_HUMAN	rhomboid, veinlet-like 6 isoform 1	55	Cytoplasmic (Potential).				negative regulation of protein secretion|protein transport|proteolysis	endoplasmic reticulum membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity				0						TCTTTAGCCTCCTATTCTGAA	0.433													5	11	---	---	---	---	PASS	T	74476009	T	T	74476009	2	4	52	1	0	0	0	0	0	0	0	1	13320	854	30	2		2	RHBDF2	17	74476009	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	773461	74476009	6719201	338	19783										
GPS1	2873	broad.mit.edu	37	chr17	80012801	80012801	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tctacttgcagaattggtctCatgtgctcagctacgtcagc	9	11	4	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:80012801C>A	uc002kdl.1	+	5	694	c.649C>A	c.(649-651)CAT>AAT	p.H217N	GPS1_uc002kdk.1_Missense_Mutation_p.H253N|GPS1_uc010dij.1_Missense_Mutation_p.H253N|GPS1_uc002kdm.1_Missense_Mutation_p.H197N|GPS1_uc002kdn.1_Missense_Mutation_p.H213N|GPS1_uc002kdo.1_Missense_Mutation_p.H217N|GPS1_uc010wvh.1_Missense_Mutation_p.H209N	NM_004127	NP_004118	Q13098	CSN1_HUMAN	G protein pathway suppressor 1 isoform 2	217					cell cycle|cullin deneddylation|inactivation of MAPK activity|JNK cascade	cytoplasm|signalosome	GTPase inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			GAATTGGTCTCATGTGCTCAG	0.662													6	87	---	---	---	---	PASS	A	80012801	A	A	80012801	3	1	52	1	0	0	0	0	1	0	0	0	6732	826	29	2	824	2	GPS1	17	80012801	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	5536792	80012801	1182409	339	19784										
TBCD	6904	broad.mit.edu	37	chr17	80724167	80724167	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaggctataaaacatttcttCgtttatttcctcatgaagtt	6	7	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr17:80724167C>A	uc002kfz.2	+	4	488	c.358C>A	c.(358-360)CGT>AGT	p.R120S	TBCD_uc002kfx.1_Missense_Mutation_p.R103S|TBCD_uc002kfy.1_Missense_Mutation_p.R120S	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	120					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			AACATTTCTTCGTTTATTTCC	0.388													7	23	---	---	---	---	PASS	A	80724167	A	A	80724167	3	1	52	1	0	0	0	0	1	0	0	0	15630	884	31	2	372	2	TBCD	17	80724167	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	711366	80724167	471043	340	19785										
KIAA1632	57724	broad.mit.edu	37	chr18	43456279	43456279	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggccaccacagtatcactctCtagccaggggtaatgccgct	10	14	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr18:43456279C>A	uc002lbm.2	-	35	6071	c.5971G>T	c.(5971-5973)GAG>TAG	p.E1991*	KIAA1632_uc010xcq.1_Nonsense_Mutation_p.E545*|KIAA1632_uc010xcr.1_Intron|KIAA1632_uc010xcs.1_Intron|KIAA1632_uc002lbn.2_Nonsense_Mutation_p.E866*	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1991					autophagy						0						GTATCACTCTCTAGCCAGGGG	0.458													48	60	---	---	---	---	PASS	A	43456279	A	A	43456279	4	1	52	1	0	0	0	0	0	1	0	0	8249	922	32	2	1808	2	KIAA1632	18	43456279	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08		43456279	34620969	341	19786										
KIAA0427	9811	broad.mit.edu	37	chr18	46284376	46284376	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	caaacacaacagggaccaccAgaaatcctaccaggggggct	10	13	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr18:46284376A>G	uc002ldc.2	+	8	956	c.671A>G	c.(670-672)CAG>CGG	p.Q224R	KIAA0427_uc002ldd.2_Missense_Mutation_p.Q224R|KIAA0427_uc002lde.3_5'Flank	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	224	Interaction with NCBP1/CBP80.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						AGGGACCACCAGAAATCCTAC	0.632													102	110	---	---	---	---	PASS	G	46284376	G	G	46284376	3	3	52	1	0	0	0	0	1	0	0	0	8176	188	7	5	697	5	KIAA0427	18	46284376	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	2828097	46284376	31792872	342	19787										
KIAA1468	57614	broad.mit.edu	37	chr18	59899640	59899640	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgccacacattgttcccaatGtgctattggcaaagagagag	10	9	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr18:59899640G>C	uc002lil.2	+	10	1815	c.1600G>C	c.(1600-1602)GTG>CTG	p.V534L	KIAA1468_uc002lik.1_Missense_Mutation_p.V534L|KIAA1468_uc010xel.1_Missense_Mutation_p.V534L|KIAA1468_uc002lim.2_Missense_Mutation_p.V178L	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	534							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				TGTTCCCAATGTGCTATTGGC	0.388													42	113	---	---	---	---	PASS	C	59899640	C	C	59899640	3	2	52	1	0	0	0	0	1	0	0	0	8236	1377	48	4	1638	4	KIAA1468	18	59899640	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	13615264	59899640	18177608	343	19788										
KCNG2	26251	broad.mit.edu	37	chr18	77659303	77659303	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctgcgtgcgctgcgcgtgctCtacgtgatgcgcctggcgcg	16	14	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr18:77659303C>G	uc010xfl.1	+	2	888	c.888C>G	c.(886-888)CTC>CTG	p.L296L		NM_012283	NP_036415	Q9UJ96	KCNG2_HUMAN	potassium voltage-gated channel, subfamily G,	296	Helical; Voltage-sensor; Name=Segment S4; (Potential).				energy reserve metabolic process|regulation of heart contraction|regulation of insulin secretion	voltage-gated potassium channel complex	delayed rectifier potassium channel activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;6.92e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0244)		TGCGCGTGCTCTACGTGATGC	0.741													5	12	---	---	---	---	PASS	G	77659303	G	G	77659303	2	3	52	1	0	0	0	0	0	0	0	1	8028	900	32	2		2	KCNG2	18	77659303	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	17759663	77659303	417945	344	19789										
AP3D1	8943	broad.mit.edu	37	chr19	2114168	2114168	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctccttgtctctctctttctCtttgtgttttttctctttct	3	12	5	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:2114168C>G	uc002luz.2	-	22	2780	c.2557G>C	c.(2557-2559)GAG>CAG	p.E853Q	AP3D1_uc010dsv.2_5'Flank|AP3D1_uc002luy.2_Missense_Mutation_p.E762Q|AP3D1_uc002lva.2_Missense_Mutation_p.E853Q	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	853	Lys-rich.|Potential.				eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ctctctttctctttGTGTTTT	0.388													6	15	---	---	---	---	PASS	G	2114168	G	G	2114168	3	3	52	1	0	0	0	0	1	0	0	0	746	922	32	2	1098	2	AP3D1	19	2114168	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08		2114168	57014815	345	19790										
ZFR2	23217	broad.mit.edu	37	chr19	3831804	3831804	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gctgtccggactccactatgGgcgcctgctgtgggggctga	16	12	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:3831804G>T	uc002lyw.2	-	4	464	c.452C>A	c.(451-453)CCC>CAC	p.P151H	ZFR2_uc010xhx.1_RNA	NM_015174	NP_055989	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2 isoform 1	151						intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		CTCCACTATGGGCGCCTGCTG	0.677													5	24	---	---	---	---	PASS	T	3831804	T	T	3831804	3	4	52	1	0	0	0	0	1	0	0	0	17657	1232	43	3	2431	3	ZFR2	19	3831804	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1717636	3831804	55297179	346	19791										
SAFB	6294	broad.mit.edu	37	chr19	5664121	5664121	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	accgccaggaccgcttccacGactttgaccacagggaccgc	10	17	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:5664121G>A	uc002mcf.2	+	16	2295	c.2242G>A	c.(2242-2244)GAC>AAC	p.D748N	SAFB_uc002mcg.2_Missense_Mutation_p.D748N|SAFB_uc002mce.3_Missense_Mutation_p.D747N|SAFB_uc010xir.1_Missense_Mutation_p.D747N|SAFB_uc010xis.1_Missense_Mutation_p.D679N|SAFB_uc010xit.1_Missense_Mutation_p.D590N|SAFB_uc010xiu.1_Missense_Mutation_p.D547N	NM_002967	NP_002958	Q15424	SAFB1_HUMAN	scaffold attachment factor B	748	Interaction with SAFB2.|Interaction with POLR2A.|Arg-rich.				chromatin organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding			ovary(1)|liver(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;0.000222)		CCGCTTCCACGACTTTGACCA	0.627													5	80	---	---	---	---	PASS	A	5664121	A	A	5664121	3	1	52	1	0	0	0	0	1	0	0	0	13806	1058	37	2	2304	2	SAFB	19	5664121	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1832317	5664121	53464862	347	19792										
EMR1	2015	broad.mit.edu	37	chr19	6904052	6904052	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tccagttctttgcagatattGatgagtgccgccaagatcca	9	10	1	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:6904052G>C	uc002mfw.2	+	8	846	c.808G>C	c.(808-810)GAT>CAT	p.D270H	EMR1_uc010dvc.2_Missense_Mutation_p.D270H|EMR1_uc010dvb.2_Missense_Mutation_p.D218H|EMR1_uc010xji.1_Missense_Mutation_p.D129H|EMR1_uc010xjj.1_Intron	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	270	Extracellular (Potential).|EGF-like 6; calcium-binding (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					TGCAGATATTGATGAGTGCCG	0.463													43	74	---	---	---	---	PASS	C	6904052	C	C	6904052	3	2	52	1	0	0	0	0	1	0	0	0	5104	1290	45	2	838	2	EMR1	19	6904052	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1239931	6904052	52224931	348	19793										
PNPLA6	10908	broad.mit.edu	37	chr19	7620527	7620527	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcggagtactaaaggcattaGaggaggcgggggtccccgtg	17	8	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:7620527G>C	uc010xjq.1	+	26	3196	c.3001G>C	c.(3001-3003)GAG>CAG	p.E1001Q	PNPLA6_uc002mgq.1_Missense_Mutation_p.E953Q|PNPLA6_uc010xjp.1_Missense_Mutation_p.E926Q|PNPLA6_uc002mgr.1_Missense_Mutation_p.E953Q|PNPLA6_uc002mgs.2_Missense_Mutation_p.E991Q|PNPLA6_uc002mgt.1_RNA	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	992	Patatin.|Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						AAAGGCATTAGAGGAGGCGGG	0.662													7	48	---	---	---	---	PASS	C	7620527	C	C	7620527	3	2	52	1	0	0	0	0	1	0	0	0	12169	943	33	2	3099	2	PNPLA6	19	7620527	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	716475	7620527	51508456	349	19794										
ZNF560	147741	broad.mit.edu	37	chr19	9583891	9583891	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctgcaaggttctcaactcttCttcttccaaccaagagatga	6	12	4	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:9583891C>G	uc002mlp.1	-	5	412	c.202G>C	c.(202-204)GAA>CAA	p.E68Q	ZNF560_uc010dwr.1_5'UTR	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	68	KRAB 1.				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						CTCAACTCTTCTTCTTCCAAC	0.353													104	200	---	---	---	---	PASS	G	9583891	G	G	9583891	3	3	52	1	0	0	0	0	1	0	0	0	17988	922	32	2	2194	2	ZNF560	19	9583891	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1963364	9583891	49545092	350	19795										
LPPR2	64748	broad.mit.edu	37	chr19	11474413	11474413	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cctgcgttgtgcataactttCagagccggccaccctctggc	10	15	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:11474413C>T	uc002mre.1	+	8	1202	c.865C>T	c.(865-867)CAG>TAG	p.Q289*	LPPR2_uc002mrf.1_Nonsense_Mutation_p.Q264*|LPPR2_uc010dxy.1_Nonsense_Mutation_p.Q96*	NM_022737	NP_073574	Q96GM1	LPPR2_HUMAN	lipid phosphate phosphatase-related protein type	289						integral to membrane	phosphatidate phosphatase activity			large_intestine(1)	1						GCATAACTTTCAGAGCCGGCC	0.512													19	65	---	---	---	---	PASS	T	11474413	T	T	11474413	4	4	52	1	0	0	0	0	0	1	0	0	8925	827	29	2	887	2	LPPR2	19	11474413	Nonsense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1890522	11474413	47654570	351	19796										
ZNF709	163051	broad.mit.edu	37	chr19	12575430	12575430	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gtgagtcctttcatgtattcGaacagaactggaacaactga	9	8	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:12575430G>C	uc002mtv.3	-	4	1467	c.1306C>G	c.(1306-1308)CGA>GGA	p.R436G	ZNF709_uc002mtw.3_Missense_Mutation_p.R404G|ZNF709_uc002mtx.3_Missense_Mutation_p.R436G	NM_152601	NP_689814	Q8N972	ZN709_HUMAN	zinc finger protein 709 isoform a	436	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCATGTATTCGAACAGAACTG	0.408													15	209	---	---	---	---	PASS	C	12575430	C	C	12575430	3	2	52	1	0	0	0	0	1	0	0	0	18110	1066	37	2	623	2	ZNF709	19	12575430	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1101017	12575430	46553553	352	19797										
ZNF709	163051	broad.mit.edu	37	chr19	12577613	12577613	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctgagagggacccagcaaagCccactcctcctgggtgaagt	12	13	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:12577613C>T	uc002mtv.3	-	2	216	c.55G>A	c.(55-57)GCT>ACT	p.A19T	ZNF709_uc002mtw.3_5'UTR|ZNF709_uc002mtx.3_Missense_Mutation_p.A19T	NM_152601	NP_689814	Q8N972	ZN709_HUMAN	zinc finger protein 709 isoform a	19	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCCAGCAAAGCCCACTCCTCC	0.473													7	103	---	---	---	---	PASS	T	12577613	T	T	12577613	3	4	52	1	0	0	0	0	1	0	0	0	18110	739	26	3	1882	3	ZNF709	19	12577613	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	2183	12577613	46551370	353	19798										
BRD4	23476	broad.mit.edu	37	chr19	15349587	15349587	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cttcgctcctgctcccgcttCcgggccaactccctctgctg	8	20	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:15349587C>A	uc002nar.2	-	19	4209	c.3987G>T	c.(3985-3987)CGG>CGT	p.R1329R		NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	1329					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			GCTCCCGCTTCCGGGCCAACT	0.622			T	NUT|C15orf55	lethal midline carcinoma of young people								5	31	---	---	---	---	PASS	A	15349587	A	A	15349587	2	1	52	1	0	0	0	0	0	0	0	1	1504	842	30	2		2	BRD4	19	15349587	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	2771974	15349587	43779396	354	19799										
SFRS14	10147	broad.mit.edu	37	chr19	19120951	19120951	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agccccggagcccttgagcaCggaggagcccccgccgctgc	14	18	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:19120951C>G	uc002nkx.2	-	5	2197	c.2051G>C	c.(2050-2052)CGT>CCT	p.R684P	SFRS14_uc002nkz.1_Missense_Mutation_p.R698P|SFRS14_uc002nla.1_Missense_Mutation_p.R684P|SFRS14_uc002nlb.2_Missense_Mutation_p.R684P|SFRS14_uc010xqk.1_Missense_Mutation_p.R453P	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	684					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			CCCTTGAGCACGGAGGAGCCC	0.667													49	90	---	---	---	---	PASS	G	19120951	G	G	19120951	3	3	52	1	0	0	0	0	1	0	0	0	14170	536	19	4	1221	4	SFRS14	19	19120951	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	3771364	19120951	40008032	355	19800										
ZNF100	163227	broad.mit.edu	37	chr19	21910548	21910548	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tatgtctgtttgaatttgaaAatgtatgaaagacttttgca	8	3	1	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:21910548A>T	uc002nqi.2	-	5	765	c.566T>A	c.(565-567)TTT>TAT	p.F189Y	ZNF100_uc002nqh.2_Missense_Mutation_p.F125Y	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	189	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGAATTTGAAAATGTATGAAA	0.299													23	168	---	---	---	---	PASS	T	21910548	T	T	21910548	3	4	52	1	0	0	0	0	1	0	0	0	17710	14	1	5	1066	5	ZNF100	19	21910548	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	2789597	21910548	37218435	356	19801										
ZNF208	7757	broad.mit.edu	37	chr19	22156018	22156018	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcttcacatttgtagggtttCtcaccagtatgaattctctt	6	9	4	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:22156018C>T	uc002nqp.2	-	5	1667	c.1518G>A	c.(1516-1518)GAG>GAA	p.E506E	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TGTAGGGTTTCTCACCAGTAT	0.363													21	79	---	---	---	---	PASS	T	22156018	T	T	22156018	2	4	52	1	0	0	0	0	0	0	0	1	17763	912	32	2		2	ZNF208	19	22156018	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	245470	22156018	36972965	357	19802										
ZNF208	7757	broad.mit.edu	37	chr19	22157258	22157258	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aattctctctagtataaattCttttatgttgagataggtgt	7	4	3	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:22157258C>G	uc002nqp.2	-	4	727	c.578G>C	c.(577-579)AGA>ACA	p.R193T	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				AGTATAAATTCTTTTATGTTG	0.353													39	61	---	---	---	---	PASS	G	22157258	G	G	22157258	3	3	52	1	0	0	0	0	1	0	0	0	17763	913	32	2	3268	2	ZNF208	19	22157258	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1240	22157258	36971725	358	19803										
ZNF676	163223	broad.mit.edu	37	chr19	22375890	22375890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttgctccagaaaaatgatcaGgtctggcttaaaggcagcaa	10	8	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:22375890G>T	uc002nqs.1	-	2	376	c.58C>A	c.(58-60)CTG>ATG	p.L20M		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	20	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				AAAATGATCAGGTCTGGCTTA	0.403													31	58	---	---	---	---	PASS	T	22375890	T	T	22375890	3	4	52	1	0	0	0	0	1	0	0	0	18080	991	35	3	1716	3	ZNF676	19	22375890	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	218632	22375890	36753093	359	19804										
KIAA0355	9710	broad.mit.edu	37	chr19	34833290	34833290	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cagggacctagaaataacacCtggcccaaccgtgaccaaag	9	13	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:34833290C>A	uc002nvd.3	+	10	3310	c.2451C>A	c.(2449-2451)ACC>ACA	p.T817T		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	817										ovary(1)	1	Esophageal squamous(110;0.162)					GAAATAACACCTGGCCCAACC	0.517													62	122	---	---	---	---	PASS	A	34833290	A	A	34833290	2	1	52	1	0	0	0	0	0	0	0	1	8170	668	24	3		3	KIAA0355	19	34833290	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	12457400	34833290	24295693	360	19805										
ZNF585B	92285	broad.mit.edu	37	chr19	37677991	37677991	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tttttctcctgtaggaacttTcagatgtaccttgaactgtg	8	8	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:37677991T>G	uc002ofq.2	-	5	702	c.448A>C	c.(448-450)AAA>CAA	p.K150Q	ZNF585B_uc002ofr.1_Intron	NM_152279	NP_689492	Q52M93	Z585B_HUMAN	zinc finger protein 585B	150					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)			GTAGGAACTTTCAGATGTACC	0.388													61	89	---	---	---	---	PASS	G	37677991	G	G	37677991	3	3	52	1	0	0	0	0	1	0	0	0	18015	1792	62	5	1865	5	ZNF585B	19	37677991	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	2844701	37677991	21450992	361	19806										
ZNF571	51276	broad.mit.edu	37	chr19	38055520	38055520	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcaattatgaagccttgtatGttgagtaagttgtgaaggac	11	4	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:38055520G>A	uc002ogt.2	-	4	1911	c.1810C>T	c.(1810-1812)CAT>TAT	p.H604Y	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Missense_Mutation_p.H604Y	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	604	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGCCTTGTATGTTGAGTAAGT	0.348													24	33	---	---	---	---	PASS	A	38055520	A	A	38055520	3	1	52	1	0	0	0	0	1	0	0	0	18000	1377	48	3	23	3	ZNF571	19	38055520	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	377529	38055520	21073463	362	19807										
ZNF571	51276	broad.mit.edu	37	chr19	38056780	38056780	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	agtctgaattctctgatgttGaatatagcttggctttttgc	9	6	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:38056780G>A	uc002ogt.2	-	4	651	c.550C>T	c.(550-552)CAA>TAA	p.Q184*	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Nonsense_Mutation_p.Q184*	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	184	C2H2-type 2; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTCTGATGTTGAATATAGCTT	0.363													18	70	---	---	---	---	PASS	A	38056780	A	A	38056780	4	1	52	1	0	0	0	0	0	1	0	0	18000	1299	45	2	1283	2	ZNF571	19	38056780	Nonsense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1260	38056780	21072203	363	19808										
SIPA1L3	23094	broad.mit.edu	37	chr19	38573263	38573263	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gagcatgctgttcgacctcaAcgaggcggccgccaacaggg	14	13	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:38573263A>G	uc002ohk.2	+	3	1567	c.1058A>G	c.(1057-1059)AAC>AGC	p.N353S		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	353					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TTCGACCTCAACGAGGCGGCC	0.706													26	34	---	---	---	---	PASS	G	38573263	G	G	38573263	3	3	52	1	0	0	0	0	1	0	0	0	14331	43	2	5	1060	5	SIPA1L3	19	38573263	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	516483	38573263	20555720	364	19809										
RYR1	6261	broad.mit.edu	37	chr19	38956903	38956903	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cagtgcaggacatcccagcgCgccgaaaccctcggctggtg	13	15	0	0	rs139006437		TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:38956903C>A	uc002oit.2	+	24	3173	c.3043C>A	c.(3043-3045)CGC>AGC	p.R1015S	RYR1_uc002oiu.2_Missense_Mutation_p.R1015S	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1015	6 X approximate repeats.|2.|Cytoplasmic.|B30.2/SPRY 2.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CATCCCAGCGCGCCGAAACCC	0.677													11	31	---	---	---	---	PASS	A	38956903	A	A	38956903	3	1	52	1	0	0	0	0	1	0	0	0	13768	768	27	1	3137	1	RYR1	19	38956903	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	383640	38956903	20172080	365	19810										
PVRL2	5819	broad.mit.edu	37	chr19	45375120	45375120	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctctccccagccaagcccaaGaaccaagctgaggcccagaa	8	17	1	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:45375120G>A	uc002ozw.1	+	3	879	c.489G>A	c.(487-489)AAG>AAA	p.K163K	PVRL2_uc002ozv.2_Silent_p.K163K	NM_001042724	NP_001036189	Q92692	PVRL2_HUMAN	poliovirus receptor related 2 isoform delta	163	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|adhesion to symbiont|cell junction assembly|homophilic cell adhesion|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|susceptibility to natural killer cell mediated cytotoxicity|susceptibility to T cell mediated cytotoxicity|viral envelope fusion with host membrane|virion attachment, binding of host cell surface coreceptor	cell surface|integral to membrane|zonula adherens	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0	Lung NSC(12;0.00195)|all_lung(12;0.00522)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0143)		CCAAGCCCAAGAACCAAGCTG	0.547													10	25	---	---	---	---	PASS	A	45375120	A	A	45375120	2	1	52	1	0	0	0	0	0	0	0	1	12840	933	33	2		2	PVRL2	19	45375120	Silent	SNP	G	TCGA-22-5491-01A-01D-1632-08	6418217	45375120	13753863	366	19811										
CCDC8	83987	broad.mit.edu	37	chr19	46915713	46915713	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cttgccccgccgcgggccctGgcggctcttgtctctggagg	15	16	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:46915713G>A	uc002pep.2	-	1	1207	c.355C>T	c.(355-357)CAG>TAG	p.Q119*		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	119						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		CGCGGGCCCTGGCGGCTCTTG	0.642													48	74	---	---	---	---	PASS	A	46915713	A	A	46915713	4	1	52	1	0	0	0	0	0	1	0	0	2853	1357	47	3	1265	3	CCDC8	19	46915713	Nonsense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1540593	46915713	12213270	367	19812										
GRIN2D	2906	broad.mit.edu	37	chr19	48945182	48945182	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcccgctggaagcggcccatCgacctggcgttgctgcagtt	13	14	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:48945182C>T	uc002pjc.3	+	11	2497	c.2409C>T	c.(2407-2409)ATC>ATT	p.I803I	GRIN2D_uc010elx.2_Silent_p.I38I	NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	803	Extracellular (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		all_epithelial(76;1.11e-06)|all_lung(116;5.79e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		all cancers(93;0.00014)|OV - Ovarian serous cystadenocarcinoma(262;0.000233)|Epithelial(262;0.0112)|GBM - Glioblastoma multiforme(486;0.0161)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	AGCGGCCCATCGACCTGGCGT	0.602													4	66	---	---	---	---	PASS	T	48945182	T	T	48945182	2	4	52	1	0	0	0	0	0	0	0	1	6782	874	31	2		2	GRIN2D	19	48945182	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	2029469	48945182	10183801	368	19813										
HAS1	3036	broad.mit.edu	37	chr19	52220298	52220298	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cattgaaggctacccagtatCgcaggctgcttaggaagctg	12	10	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:52220298C>G	uc002pxo.1	-	3	886	c.851G>C	c.(850-852)CGA>CCA	p.R284P	HAS1_uc010epc.1_5'UTR|HAS1_uc010epd.1_Missense_Mutation_p.R249P|HAS1_uc002pxn.1_Missense_Mutation_p.R291P|HAS1_uc002pxp.1_Missense_Mutation_p.R283P	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1	284	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding			ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		TACCCAGTATCGCAGGCTGCT	0.597													33	101	---	---	---	---	PASS	G	52220298	G	G	52220298	3	3	52	1	0	0	0	0	1	0	0	0	6961	884	31	2	897	2	HAS1	19	52220298	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	3275116	52220298	6908685	369	19814										
ZNF600	162966	broad.mit.edu	37	chr19	53270592	53270592	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaattcggggaattattcccAtagttattagaaatatggat	9	4	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:53270592A>T	uc002qab.3	-	3	703	c.417T>A	c.(415-417)TAT>TAA	p.Y139*		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	139					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		AATTATTCCCATAGTTATTAG	0.373													80	133	---	---	---	---	PASS	T	53270592	T	T	53270592	4	4	52	1	0	0	0	0	0	1	0	0	18027	224	8	5	1755	5	ZNF600	19	53270592	Nonsense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	1050294	53270592	5858391	370	19815										
NLRP12	91662	broad.mit.edu	37	chr19	54310894	54310894	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgccagatgttcactgtaggCgtccagcagaacggtcctct	11	12	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:54310894C>T	uc002qch.3	-	4	2318	c.2098G>A	c.(2098-2100)GCC>ACC	p.A700T	NLRP12_uc010eqw.2_5'UTR|NLRP12_uc002qci.3_Missense_Mutation_p.A700T|NLRP12_uc002qcj.3_Missense_Mutation_p.A701T|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.A701T	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	700					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		TCACTGTAGGCGTCCAGCAGA	0.552													13	70	---	---	---	---	PASS	T	54310894	T	T	54310894	3	4	52	1	0	0	0	0	1	0	0	0	10474	768	27	1	1211	1	NLRP12	19	54310894	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1040302	54310894	4818089	371	19816										
PPP1R12C	54776	broad.mit.edu	37	chr19	55607648	55607648	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	accttctgtgtttgctgctaGagggcgcttggggctcctgg	15	10	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:55607648G>T	uc002qix.2	-	7	1023	c.1007C>A	c.(1006-1008)TCT>TAT	p.S336Y	PPP1R12C_uc010yfs.1_Missense_Mutation_p.S262Y|PPP1R12C_uc002qiy.2_Missense_Mutation_p.S336Y	NM_017607	NP_060077	Q9BZL4	PP12C_HUMAN	protein phosphatase 1, regulatory subunit 12C	336						cytoplasm				ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		TTTGCTGCTAGAGGGCGCTTG	0.652													82	202	---	---	---	---	PASS	T	55607648	T	T	55607648	3	4	52	1	0	0	0	0	1	0	0	0	12356	942	33	2	1405	2	PPP1R12C	19	55607648	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1296754	55607648	3521335	372	19817										
ZNF776	284309	broad.mit.edu	37	chr19	58265931	58265931	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aaagggcagtctcattcgacAtcagcagattcactctggag	10	10	4	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:58265931A>C	uc002qpx.2	+	3	1656	c.1433A>C	c.(1432-1434)CAT>CCT	p.H478P	ZNF587_uc002qqb.2_Intron|ZNF776_uc002qqa.2_Missense_Mutation_p.H478P	NM_173632	NP_775903	Q68DI1	ZN776_HUMAN	zinc finger protein 776	478	C2H2-type 10; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0256)		CTCATTCGACATCAGCAGATT	0.453													39	44	---	---	---	---	PASS	C	58265931	C	C	58265931	3	2	52	1	0	0	0	0	1	0	0	0	18146	217	8	5	1443	5	ZNF776	19	58265931	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	2658283	58265931	863052	373	19818										
ZNF418	147686	broad.mit.edu	37	chr19	58438048	58438048	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttctccagtgtgaactctctGatgaacacgaaacccagagc	8	12	2	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:58438048G>C	uc002qqs.1	-	4	1793	c.1501C>G	c.(1501-1503)CAG>GAG	p.Q501E	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Missense_Mutation_p.Q416E	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	501	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0158)		TGAACTCTCTGATGAACACGA	0.448													36	158	---	---	---	---	PASS	C	58438048	C	C	58438048	3	2	52	1	0	0	0	0	1	0	0	0	17892	1299	45	2	533	2	ZNF418	19	58438048	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	172117	58438048	690935	374	19819										
ZNF606	80095	broad.mit.edu	37	chr19	58490952	58490952	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atacgctttctctacagtacCaattttttgatgttccataa	4	9	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:58490952C>A	uc002qqw.2	-	7	1714	c.1096G>T	c.(1096-1098)GGT>TGT	p.G366C	ZNF606_uc010yhp.1_Missense_Mutation_p.G276C	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	366					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		TCTACAGTACCAATTTTTTGA	0.343													54	100	---	---	---	---	PASS	A	58490952	A	A	58490952	3	1	52	1	0	0	0	0	1	0	0	0	18029	594	21	3	1286	3	ZNF606	19	58490952	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	52904	58490952	638031	375	19820										
ZNF544	27300	broad.mit.edu	37	chr19	58773197	58773197	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acactggagagaagccctatGagtgtgacctgtgtgggaaa	14	7	0	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr19:58773197G>T	uc010euo.2	+	7	1699	c.1225G>T	c.(1225-1227)GAG>TAG	p.E409*	ZNF544_uc010yhw.1_RNA|ZNF544_uc010yhx.1_Nonsense_Mutation_p.E381*|ZNF544_uc010yhy.1_Nonsense_Mutation_p.E381*|ZNF544_uc002qrt.3_Nonsense_Mutation_p.E267*|ZNF544_uc002qru.3_Nonsense_Mutation_p.E267*|uc002qrx.1_Intron	NM_014480	NP_055295	Q6NX49	ZN544_HUMAN	zinc finger protein 544	409	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		all_cancers(17;4.17e-12)|all_epithelial(17;1.25e-08)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.17)|GBM - Glioblastoma multiforme(193;0.018)		GAAGCCCTATGAGTGTGACCT	0.448													15	98	---	---	---	---	PASS	T	58773197	T	T	58773197	4	4	52	1	0	0	0	0	0	1	0	0	17974	1291	45	2	1239	2	ZNF544	19	58773197	Nonsense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	282245	58773197	355786	376	19821										
SIRPB2	284759	broad.mit.edu	37	chr20	1456912	1456912	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcctccgagaggtagccaggGccagtaggagtgcagccaag	15	11	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr20:1456912G>A	uc002wfg.2	-	5	1157	c.929C>T	c.(928-930)GCC>GTC	p.A310V	SIRPB2_uc002wfh.3_Missense_Mutation_p.A212V	NM_001122962	NP_001116434	Q5JXA9	SIRB2_HUMAN	signal-regulatory protein beta 2 isoform 1	310	Cytoplasmic (Potential).					integral to membrane					0						GGTAGCCAGGGCCAGTAGGAG	0.602													5	144	---	---	---	---	PASS	A	1456912	A	A	1456912	3	1	52	1	0	0	0	0	1	0	0	0	14334	1203	42	3	103	3	SIRPB2	20	1456912	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08		1456912	61568608	377	19822										
SMOX	54498	broad.mit.edu	37	chr20	4163303	4163303	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttgtgtgggaggacgaagcaGagagccacaccctcacctac	12	12	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr20:4163303G>C	uc002wkm.1	+	5	1378	c.1177G>C	c.(1177-1179)GAG>CAG	p.E393Q	SMOX_uc002wkk.1_Missense_Mutation_p.E340Q|SMOX_uc002wkl.1_Missense_Mutation_p.E340Q|SMOX_uc002wkn.1_Intron|SMOX_uc002wkp.2_Missense_Mutation_p.E393Q|SMOX_uc010zqo.1_Missense_Mutation_p.E317Q|SMOX_uc002wko.1_Missense_Mutation_p.E393Q	NM_175839	NP_787033	Q9NWM0	SMOX_HUMAN	spermine oxidase isoform 1	393					polyamine biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	polyamine oxidase activity			breast(1)	1					Spermine(DB00127)	GGACGAAGCAGAGAGCCACAC	0.597													15	82	---	---	---	---	PASS	C	4163303	C	C	4163303	3	2	52	1	0	0	0	0	1	0	0	0	14803	943	33	2	1191	2	SMOX	20	4163303	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	2706391	4163303	58862217	378	19823										
BTBD3	22903	broad.mit.edu	37	chr20	11903866	11903866	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	taagggccttgtcccccagcGctgtcaccgtttccagtcgt	10	15	1	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr20:11903866G>A	uc002wnz.2	+	4	1480	c.1121G>A	c.(1120-1122)CGC>CAC	p.R374H	BTBD3_uc002wny.2_Missense_Mutation_p.R313H|BTBD3_uc002woa.2_Missense_Mutation_p.R313H|BTBD3_uc010zrf.1_Missense_Mutation_p.R223H|BTBD3_uc010zrg.1_Missense_Mutation_p.R223H|BTBD3_uc010zrh.1_Missense_Mutation_p.R223H	NM_014962	NP_055777	Q9Y2F9	BTBD3_HUMAN	BTB/POZ domain containing protein 3 isoform a	374										ovary(2)|central_nervous_system(1)	3						GTCCCCCAGCGCTGTCACCGT	0.502													9	82	---	---	---	---	PASS	A	11903866	A	A	11903866	3	1	52	1	0	0	0	0	1	0	0	0	1544	1087	38	1	1135	1	BTBD3	20	11903866	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	7740563	11903866	51121654	379	19824										
NAPB	63908	broad.mit.edu	37	chr20	23401981	23401981	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aggagtgggaggccttgactCgcttctcggcctccgccatc	13	14	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr20:23401981C>G	uc002wta.2	-	1	176	c.59G>C	c.(58-60)CGA>CCA	p.R20P	NAPB_uc002wtc.2_5'UTR|NAPB_uc002wtb.2_Missense_Mutation_p.R20P|NAPB_uc002wtd.3_RNA|NAPB_uc010zst.1_Missense_Mutation_p.R20P	NM_022080	NP_071363	Q9H115	SNAB_HUMAN	N-ethylmaleimide-sensitive factor attachment	20					intracellular protein transport|vesicle-mediated transport	membrane				ovary(1)	1	Lung NSC(19;0.0646)|Colorectal(13;0.0993)|all_lung(19;0.143)					GGCCTTGACTCGCTTCTCGGC	0.701													3	4	---	---	---	---	PASS	G	23401981	G	G	23401981	3	3	52	1	0	0	0	0	1	0	0	0	10162	884	31	2	881	2	NAPB	20	23401981	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	11498115	23401981	39623539	380	19825										
DUSP15	128853	broad.mit.edu	37	chr20	30436696	30436696	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cagatctggtactttgggtcCggtgaccatcctgcaggtgg	14	10	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr20:30436696C>T	uc002wwu.1	-	9	716	c.639G>A	c.(637-639)CCG>CCA	p.P213P				Q9H1R2	DUS15_HUMAN	RecName: Full=Dual specificity protein phosphatase 15;          EC=3.1.3.48;          EC=3.1.3.16; AltName: Full=Vaccinia virus VH1-related dual-specific protein phosphatase Y; AltName: Full=VH1-related member Y;	213						cytoplasm|plasma membrane	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			ACTTTGGGTCCGGTGACCATC	0.567													14	26	---	---	---	---	PASS	T	30436696	T	T	30436696	2	4	52	1	0	0	0	0	0	0	0	1	4815	667	23	1		1	DUSP15	20	30436696	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	7034715	30436696	32588824	381	19826										
EPB41L1	2036	broad.mit.edu	37	chr20	34761748	34761748	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	aggtgaagaaagctcaggagGaggccccgcagcagcccgag	16	11	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr20:34761748G>A	uc002xfb.2	+	2	220	c.49G>A	c.(49-51)GAG>AAG	p.E17K	EPB41L1_uc002xeu.2_Intron|EPB41L1_uc010zvo.1_Missense_Mutation_p.E17K|EPB41L1_uc002xev.2_Missense_Mutation_p.E17K|EPB41L1_uc002xew.2_Intron|EPB41L1_uc002xex.2_Intron|EPB41L1_uc002xey.2_Missense_Mutation_p.E17K|EPB41L1_uc002xez.2_Intron	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	17					cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					AGCTCAGGAGGAGGCCCCGCA	0.622													8	65	---	---	---	---	PASS	A	34761748	A	A	34761748	3	1	52	1	0	0	0	0	1	0	0	0	5152	1175	41	2	51	2	EPB41L1	20	34761748	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	4325052	34761748	28263772	382	19827										
DOK5	55816	broad.mit.edu	37	chr20	53205259	53205259	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tgagtggtgcaaagtactccAgatggagtgtgtaggaacac	14	6	0	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr20:53205259A>C	uc002xwy.2	+	4	543	c.323A>C	c.(322-324)CAG>CCG	p.Q108P	DOK5_uc010gin.2_5'UTR|DOK5_uc002xwz.2_5'UTR	NM_018431	NP_060901	Q9P104	DOK5_HUMAN	docking protein 5	108	PH.						insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)			AAAGTACTCCAGATGGAGTGT	0.453													36	55	---	---	---	---	PASS	C	53205259	C	C	53205259	3	2	52	1	0	0	0	0	1	0	0	0	4700	188	7	5	337	5	DOK5	20	53205259	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	18443511	53205259	9820261	383	19828										
TMPRSS15	5651	broad.mit.edu	37	chr21	19713822	19713822	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttaggctaatgtcatccaacGcaatatcactcaggatcttg	7	10	4	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr21:19713822G>A	uc002ykw.2	-	13	1503	c.1472C>T	c.(1471-1473)GCG>GTG	p.A491V		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	491	Extracellular (Potential).|MAM.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						GTCATCCAACGCAATATCACT	0.388													4	99	---	---	---	---	PASS	A	19713822	A	A	19713822	3	1	52	1	0	0	0	0	1	0	0	0	16243	1087	38	1	1639	1	TMPRSS15	21	19713822	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08		19713822	28416073	384	19829										
SLC7A4	6545	broad.mit.edu	37	chr22	21384233	21384233	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	atccaagaagcccaggtaggGcctcagggctggcttcagct	13	12	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr22:21384233G>T	uc002zud.2	-	3	1458	c.1390C>A	c.(1390-1392)CCC>ACC	p.P464T	SLC7A4_uc002zue.2_Missense_Mutation_p.P464T	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	464					cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	CCCAGGTAGGGCCTCAGGGCT	0.617													5	75	---	---	---	---	PASS	T	21384233	T	T	21384233	3	4	52	1	0	0	0	0	1	0	0	0	14699	1203	42	3	529	3	SLC7A4	22	21384233	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08		21384233	29920333	385	19830										
TOP3B	8940	broad.mit.edu	37	chr22	22324733	22324733	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggcccggaacacggtcttctCgccaccatgggccttgttca	11	15	3	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr22:22324733C>T	uc002zvs.2	-	6	865	c.430G>A	c.(430-432)GAG>AAG	p.E144K	TOP3B_uc010gtm.1_5'Flank|TOP3B_uc002zvr.2_5'Flank|TOP3B_uc010gtl.2_Missense_Mutation_p.E144K|TOP3B_uc002zvt.3_Missense_Mutation_p.E144K	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	144	Toprim.				DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		ACGGTCTTCTCGCCACCATGG	0.612													10	41	---	---	---	---	PASS	T	22324733	T	T	22324733	3	4	52	1	0	0	0	0	1	0	0	0	16365	893	31	2	2210	2	TOP3B	22	22324733	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	940500	22324733	28979833	386	19831										
PIWIL3	440822	broad.mit.edu	37	chr22	25145673	25145673	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tcagtacctgtcatgtggcaCagctgaggaatcagcaggat	12	9	3	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr22:25145673C>G	uc003abd.1	-	10	1620	c.1203G>C	c.(1201-1203)CTG>CTC	p.L401L	PIWIL3_uc011ajx.1_Silent_p.L292L|PIWIL3_uc011ajy.1_Silent_p.L292L|PIWIL3_uc010gut.1_Silent_p.L401L	NM_001008496	NP_001008496	Q7Z3Z3	PIWL3_HUMAN	piwi-like 3	401	PAZ.				cell differentiation|gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatogenesis	cytoplasm	RNA binding			ovary(3)|central_nervous_system(1)	4						TCATGTGGCACAGCTGAGGAA	0.478													22	40	---	---	---	---	PASS	G	25145673	G	G	25145673	2	3	52	1	0	0	0	0	0	0	0	1	11959	465	17	4		4	PIWIL3	22	25145673	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	2820940	25145673	26158893	387	19832										
ZNRF3	84133	broad.mit.edu	37	chr22	29445639	29445639	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gggcagtccccacctagcctCgcaccccggggcccggcccg	13	21	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr22:29445639C>T	uc003aeg.2	+	8	1335	c.1170C>T	c.(1168-1170)CTC>CTT	p.L390L	ZNRF3_uc003aeh.1_Silent_p.L390L	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	490	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						CACCTAGCCTCGCACCCCGGG	0.682													7	25	---	---	---	---	PASS	T	29445639	T	T	29445639	2	4	52	1	0	0	0	0	0	0	0	1	18210	871	31	2		2	ZNRF3	22	29445639	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	4299966	29445639	21858927	388	19833										
ZNRF3	84133	broad.mit.edu	37	chr22	29446217	29446217	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ggggcccaatagctctacctCagaagtggggctcgaggctt	14	11	2	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr22:29446217C>T	uc003aeg.2	+	8	1913	c.1748C>T	c.(1747-1749)TCA>TTA	p.S583L	ZNRF3_uc003aeh.1_Missense_Mutation_p.S583L	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	683	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						AGCTCTACCTCAGAAGTGGGG	0.662													21	116	---	---	---	---	PASS	T	29446217	T	T	29446217	3	4	52	1	0	0	0	0	1	0	0	0	18210	838	29	2	1774	2	ZNRF3	22	29446217	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	578	29446217	21858349	389	19834										
KREMEN1	83999	broad.mit.edu	37	chr22	29490392	29490392	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acggggaggggggcctgggtGagcacaactattgcaggtaa	18	7	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr22:29490392G>A	uc011akm.1	+	2	257	c.244G>A	c.(244-246)GAG>AAG	p.E82K	KREMEN1_uc003ael.2_Missense_Mutation_p.E82K|KREMEN1_uc011akn.1_5'UTR	NM_032045	NP_114434	Q96MU8	KREM1_HUMAN	kringle-containing transmembrane protein 1	80	Extracellular (Potential).|Kringle.				cell communication|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane|membrane fraction	protein binding			ovary(3)|lung(2)	5						GGGCCTGGGTGAGCACAACTA	0.483													35	53	---	---	---	---	PASS	A	29490392	A	A	29490392	3	1	52	1	0	0	0	0	1	0	0	0	8442	1291	45	2	250	2	KREMEN1	22	29490392	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	44175	29490392	21814174	390	19835										
MORC2	22880	broad.mit.edu	37	chr22	31345808	31345808	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	cttggccgacttcccaaactGgatcacactggcagcatcac	8	15	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr22:31345808G>A	uc003aje.1	-	6	1425	c.61C>T	c.(61-63)CAG>TAG	p.Q21*		NM_014941	NP_055756	Q9Y6X9	MORC2_HUMAN	MORC family CW-type zinc finger 2	83							ATP binding|zinc ion binding			ovary(1)|pancreas(1)	2						TTCCCAAACTGGATCACACTG	0.478													30	82	---	---	---	---	PASS	A	31345808	A	A	31345808	4	1	52	1	0	0	0	0	0	1	0	0	9702	1357	47	3	2939	3	MORC2	22	31345808	Nonsense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	1855416	31345808	19958758	391	19836										
C1QTNF6	114904	broad.mit.edu	37	chr22	37578732	37578732	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccttggggaccctccctgccCatgtaccctggcaggcccat	10	18	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr22:37578732C>A	uc003aqw.1	-	2	781	c.276G>T	c.(274-276)ATG>ATT	p.M92I	C1QTNF6_uc003aqx.1_Missense_Mutation_p.M111I|C1QTNF6_uc003aqy.1_Missense_Mutation_p.M111I|C1QTNF6_uc003aqz.1_Intron	NM_182486	NP_872292	Q9BXI9	C1QT6_HUMAN	C1q and tumor necrosis factor related protein 6	92	Collagen-like.					collagen					0						CCTCCCTGCCCATGTACCCTG	0.657													8	42	---	---	---	---	PASS	A	37578732	A	A	37578732	3	1	52	1	0	0	0	0	1	0	0	0	1967	594	21	3	507	3	C1QTNF6	22	37578732	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	6232924	37578732	13725834	392	19837										
MICALL1	85377	broad.mit.edu	37	chr22	38323472	38323472	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gccctcggccacaccatcgcCagcgctcagcgtggagagcc	12	18	1	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr22:38323472C>T	uc003aui.2	+	9	1604	c.1520C>T	c.(1519-1521)CCA>CTA	p.P507L		NM_033386	NP_203744	Q8N3F8	MILK1_HUMAN	molecule interacting with Rab13	507	Pro-rich.					cytoplasm|cytoskeleton	protein binding|zinc ion binding			breast(1)	1	Melanoma(58;0.045)					ACACCATCGCCAGCGCTCAGC	0.672													14	48	---	---	---	---	PASS	T	38323472	T	T	38323472	3	4	52	1	0	0	0	0	1	0	0	0	9573	594	21	3	1554	3	MICALL1	22	38323472	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	744740	38323472	12981094	393	19838										
BRD1	23774	broad.mit.edu	37	chr22	50170800	50170800	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ttgccccgcccacatttgggCgcattaaagcttcgggagga	12	12	0	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chr22:50170800C>A	uc003biv.2	-	9	3097	c.2610G>T	c.(2608-2610)GCG>GCT	p.A870A	BRD1_uc011arf.1_Silent_p.A596A|BRD1_uc011arg.1_Silent_p.A919A|BRD1_uc011arh.1_Silent_p.A870A|BRD1_uc003biu.3_Silent_p.A1001A	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	870					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CACATTTGGGCGCATTAAAGC	0.637													48	105	---	---	---	---	PASS	A	50170800	A	A	50170800	2	1	52	1	0	0	0	0	0	0	0	1	1501	755	27	1		1	BRD1	22	50170800	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	11847328	50170800	1133766	394	19839										
CRLF2	64109	broad.mit.edu	37	chrX	1325354	1325354	+	RNA	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	accatccagcgacttgcggtGaaaacggggtgcgtcccatt	12	12	0	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chrX:1325354G>A	uc004cpm.1	-	3		c.321C>T						Q9HC73	CRLF2_HUMAN	Homo sapiens mRNA for IL-XR, complete cds.							extracellular region|integral to membrane|plasma membrane	receptor activity			haematopoietic_and_lymphoid_tissue(7)	7		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				GACTTGCGGTGAAAACGGGGT	0.493			Mis|T	P2RY8|IGH@	B-ALL|Downs associated ALL								17	181	---	---	---	---	PASS	A	1325354	A	A	1325354	1	1	52	0	1	0	0	0	0	0	0	0	3887	1281	45	2		2	CRLF2	23	1325354	RNA	SNP	G	TCGA-22-5491-01A-01D-1632-08		1325354	153945206	395	19840										
OFD1	8481	broad.mit.edu	37	chrX	13771542	13771542	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaactaatcgactgattgaaGatgaaaggaagaataaaggt	11	3	0	5			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chrX:13771542G>A	uc004cvp.3	+	11	1470	c.1111G>A	c.(1111-1113)GAT>AAT	p.D371N	OFD1_uc004cvr.3_5'UTR|OFD1_uc011mil.1_5'UTR|OFD1_uc004cvq.3_Missense_Mutation_p.D231N|OFD1_uc010nen.2_Missense_Mutation_p.D370N|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Missense_Mutation_p.D330N|OFD1_uc004cvv.3_Missense_Mutation_p.D330N|OFD1_uc010neo.1_Missense_Mutation_p.D117N	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	371	Potential.				cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0						ACTGATTGAAGATGAAAGGAA	0.363													131	16	---	---	---	---	PASS	A	13771542	A	A	13771542	3	1	52	1	0	0	0	0	1	0	0	0	10838	942	33	2	1153	2	OFD1	23	13771542	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	12446188	13771542	141499018	396	19841										
BMX	660	broad.mit.edu	37	chrX	15540664	15540664	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acttcaacatgcagtatattCcaagggaagacttccctgac	7	11	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chrX:15540664C>G	uc004cww.2	+	7	894	c.706C>G	c.(706-708)CCA>GCA	p.P236A	BMX_uc004cwx.3_Missense_Mutation_p.P236A|BMX_uc004cwy.3_Missense_Mutation_p.P236A	NM_203281	NP_975010	P51813	BMX_HUMAN	BMX non-receptor tyrosine kinase	236					cellular component disassembly involved in apoptosis|intracellular signal transduction|mesoderm development	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(3)|ovary(2)	5	Hepatocellular(33;0.183)					GCAGTATATTCCAAGGGAAGA	0.483													25	120	---	---	---	---	PASS	G	15540664	G	G	15540664	3	3	52	1	0	0	0	0	1	0	0	0	1473	855	30	2	728	2	BMX	23	15540664	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1769122	15540664	139729896	397	19842										
TMEM27	57393	broad.mit.edu	37	chrX	15646095	15646095	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gaagcagaacaacagcccttCagagaggggtgagcctctca	12	11	2	3			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chrX:15646095C>T	uc004cxc.1	-	6	924	c.668G>A	c.(667-669)TGA>TAA	p.*223*		NM_020665	NP_065716	Q9HBJ8	TMM27_HUMAN	transmembrane protein 27 precursor	223					proteolysis	integral to membrane	metallopeptidase activity|peptidyl-dipeptidase activity			ovary(1)	1	Hepatocellular(33;0.183)					AACAGCCCTTCAGAGAGGGGT	0.438													11	53	---	---	---	---	PASS	T	15646095	T	T	15646095	2	4	52	1	0	0	0	0	0	0	0	1	16149	837	29	2		2	TMEM27	23	15646095	Silent	SNP	C	TCGA-22-5491-01A-01D-1632-08	105431	15646095	139624465	398	19843										
LAS1L	81887	broad.mit.edu	37	chrX	64753613	64753613	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ccagagggagttcgttgcctGacctaaagggtcacagtcca	12	11	1	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chrX:64753613G>A	uc004dwa.1	-	2	311	c.239C>T	c.(238-240)TCA>TTA	p.S80L	LAS1L_uc004dwc.1_Missense_Mutation_p.S80L|LAS1L_uc004dwd.1_Intron	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	80						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						TTCGTTGCCTGACCTAAAGGG	0.517													14	18	---	---	---	---	PASS	A	64753613	A	A	64753613	3	1	52	1	0	0	0	0	1	0	0	0	8636	1294	45	2	2017	2	LAS1L	23	64753613	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	49107518	64753613	90516947	399	19844										
NAP1L2	4674	broad.mit.edu	37	chrX	72433467	72433467	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	attgggtttgaagtgaaattCtagtgtgaaactgaggggct	14	3	1	4			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chrX:72433467C>G	uc004ebi.2	-	1	1218	c.862G>C	c.(862-864)GAA>CAA	p.E288Q	NAP1L2_uc011mqj.1_Missense_Mutation_p.E146Q	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	288					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					AAGTGAAATTCTAGTGTGAAA	0.383													4	72	---	---	---	---	PASS	G	72433467	G	G	72433467	3	3	52	1	0	0	0	0	1	0	0	0	10157	922	32	2	524	2	NAP1L2	23	72433467	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	7679854	72433467	82837093	400	19845										
NAP1L2	4674	broad.mit.edu	37	chrX	72434097	72434097	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	ctctgagtcctcatcagtatCgccaccttttttcccatctt	4	15	4	1			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chrX:72434097C>T	uc004ebi.2	-	1	588	c.232G>A	c.(232-234)GAT>AAT	p.D78N	NAP1L2_uc011mqj.1_Intron	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	78					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					TCATCAGTATCGCCACCTTTT	0.498													5	72	---	---	---	---	PASS	T	72434097	T	T	72434097	3	4	52	1	0	0	0	0	1	0	0	0	10157	884	31	2	1154	2	NAP1L2	23	72434097	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	630	72434097	82836463	401	19846										
RGAG1	57529	broad.mit.edu	37	chrX	109694327	109694327	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	gctaatggtagcaccagattCtgcagagatatcaccattgg	10	9	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chrX:109694327C>T	uc004eor.1	+	3	728	c.482C>T	c.(481-483)TCT>TTT	p.S161F	RGAG1_uc011msr.1_Missense_Mutation_p.S161F	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	161										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GCACCAGATTCTGCAGAGATA	0.483													30	71	---	---	---	---	PASS	T	109694327	T	T	109694327	3	4	52	1	0	0	0	0	1	0	0	0	13274	913	32	2	484	2	RGAG1	23	109694327	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	37260230	109694327	45576233	402	19847										
PGRMC1	10857	broad.mit.edu	37	chrX	118370591	118370591	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	acggcgtccaggacccgcgcAtactcatggccatcaacggc	11	16	2	0			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chrX:118370591A>G	uc004erb.2	+	1	381	c.265A>G	c.(265-267)ATA>GTA	p.I89V	PGRMC1_uc011mts.1_Missense_Mutation_p.I89V	NM_006667	NP_006658	O00264	PGRC1_HUMAN	progesterone receptor membrane component 1	89	Cytochrome b5 heme-binding.|Cytoplasmic (Potential).					cell surface|endoplasmic reticulum membrane|integral to membrane|microsome|nucleolus	heme binding|protein binding|receptor activity|steroid binding				0						GGACCCGCGCATACTCATGGC	0.677													11	5	---	---	---	---	PASS	G	118370591	G	G	118370591	3	3	52	1	0	0	0	0	1	0	0	0	11806	217	8	5	267	5	PGRMC1	23	118370591	Missense_Mutation	SNP	A	TCGA-22-5491-01A-01D-1632-08	8676264	118370591	36899969	403	19848										
ARHGAP36	158763	broad.mit.edu	37	chrX	130215674	130215674	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tccttttctgaaggcagcaaGggcactgtgccccagaatca	10	12	2	2			TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chrX:130215674G>A	uc004evz.2	+	2	380	c.35G>A	c.(34-36)AGG>AAG	p.R12K	ARHGAP36_uc004ewa.2_Intron|ARHGAP36_uc004ewb.2_Intron|ARHGAP36_uc004ewc.2_5'Flank	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	12					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						AAGGCAGCAAGGGCACTGTGC	0.522													66	16	---	---	---	---	PASS	A	130215674	A	A	130215674	3	1	52	1	0	0	0	0	1	0	0	0	883	1000	35	3	37	3	ARHGAP36	23	130215674	Missense_Mutation	SNP	G	TCGA-22-5491-01A-01D-1632-08	11845083	130215674	25054886	404	19849										
SLITRK2	84631	broad.mit.edu	37	chrX	144906425	144906425	+	Missense_Mutation	SNP	T	A	A													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	tactgcaagctaagccgcaaTcagaaccggactacctcgaa							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chrX:144906425T>A	uc004fcd.2	+	5	3472	c.2482T>A	c.(2482-2484)TCA>ACA	p.S828T	SLITRK2_uc010nsp.2_Missense_Mutation_p.S828T|SLITRK2_uc010nso.2_Missense_Mutation_p.S828T|SLITRK2_uc011mwq.1_Missense_Mutation_p.S828T|SLITRK2_uc011mwr.1_Missense_Mutation_p.S828T|SLITRK2_uc011mws.1_Missense_Mutation_p.S828T|SLITRK2_uc004fcg.2_Missense_Mutation_p.S828T|SLITRK2_uc011mwt.1_Missense_Mutation_p.S828T|CXorf1_uc004fch.2_5'Flank	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	828	Cytoplasmic (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					TAAGCCGCAATCAGAACCGGA	0.458													16	70	---	---	---	---	PASS	A	144906425	A	A	144906425	3	1	52	1	0	0	0	0	1	0	0	0	14743	1435	50	5	2484	5	SLITRK2	23	144906425	Missense_Mutation	SNP	T	TCGA-22-5491-01A-01D-1632-08	14690751	144906425	10364135	405	19850	442	2								
SLITRK2	84631	broad.mit.edu	37	chrX	144906426	144906426	+	Missense_Mutation	SNP	C	T	T													0.303258145363409	121	1.17820317641014e-35	3.42494254263941	4.20763207717703	2.97840812870449	0.141819920368211	0.480769946897156	86	actgcaagctaagccgcaatCagaaccggactacctcgaag							TCGA-22-5491-01A-01D-1632-08	TCGA-22-5491-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	ed4b5a8c-1dae-41a3-8a2a-f54fa51be4b8	e987bceb-d835-432f-968a-9369f1d58541	g.chrX:144906426C>T	uc004fcd.2	+	5	3473	c.2483C>T	c.(2482-2484)TCA>TTA	p.S828L	SLITRK2_uc010nsp.2_Missense_Mutation_p.S828L|SLITRK2_uc010nso.2_Missense_Mutation_p.S828L|SLITRK2_uc011mwq.1_Missense_Mutation_p.S828L|SLITRK2_uc011mwr.1_Missense_Mutation_p.S828L|SLITRK2_uc011mws.1_Missense_Mutation_p.S828L|SLITRK2_uc004fcg.2_Missense_Mutation_p.S828L|SLITRK2_uc011mwt.1_Missense_Mutation_p.S828L|CXorf1_uc004fch.2_5'Flank	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	828	Cytoplasmic (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					AAGCCGCAATCAGAACCGGAC	0.458													16	70	---	---	---	---	PASS	T	144906426	T	T	144906426	3	4	52	1	0	0	0	0	1	0	0	0	14743	838	29	2	2485	2	SLITRK2	23	144906426	Missense_Mutation	SNP	C	TCGA-22-5491-01A-01D-1632-08	1	144906426	10364134	406	19851	442	2								
CAMTA1	23261	broad.mit.edu	37	chr1	7805028	7805028	+	Missense_Mutation	SNP	G	T	T													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cattagcagtacaatgagctGgctggccagttatctagcgg							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:7805028G>T	uc001aoi.2	+	17	4523	c.4316G>T	c.(4315-4317)TGG>TTG	p.W1439L	CAMTA1_uc010nzv.1_Missense_Mutation_p.W526L|CAMTA1_uc001aok.3_Missense_Mutation_p.W482L|CAMTA1_uc001aoj.2_Missense_Mutation_p.W395L|CAMTA1_uc009vmf.2_Missense_Mutation_p.W43L	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1439					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		ACAATGAGCTGGCTGGCCAGT	0.532													14	38	---	---	---	---	PASS	T	7805028	T	T	7805028	3	4	53	1	0	0	0	0	1	0	0	0	2613	1357	47	3	4382	3	CAMTA1	1	7805028	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08		7805028	241445593	1	19852	443	2								
CAMTA1	23261	broad.mit.edu	37	chr1	7805029	7805029	+	Missense_Mutation	SNP	G	C	C													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	attagcagtacaatgagctgGctggccagttatctagcgga							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:7805029G>C	uc001aoi.2	+	17	4524	c.4317G>C	c.(4315-4317)TGG>TGC	p.W1439C	CAMTA1_uc010nzv.1_Missense_Mutation_p.W526C|CAMTA1_uc001aok.3_Missense_Mutation_p.W482C|CAMTA1_uc001aoj.2_Missense_Mutation_p.W395C|CAMTA1_uc009vmf.2_Missense_Mutation_p.W43C	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1439					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		CAATGAGCTGGCTGGCCAGTT	0.527													12	38	---	---	---	---	PASS	C	7805029	C	C	7805029	3	2	53	1	0	0	0	0	1	0	0	0	2613	1212	42	4	4383	4	CAMTA1	1	7805029	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	1	7805029	241445592	2	19853	443	2								
ZBTB40	9923	broad.mit.edu	37	chr1	22846715	22846715	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgctggagcggcacgtggtgAcccacgttggagggaagccc	17	11	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:22846715A>C	uc001bft.2	+	15	3506	c.2995A>C	c.(2995-2997)ACC>CCC	p.T999P	ZBTB40_uc001bfu.2_Missense_Mutation_p.T999P|ZBTB40_uc009vqi.1_Missense_Mutation_p.T887P	NM_001083621	NP_001077090	Q9NUA8	ZBT40_HUMAN	zinc finger and BTB domain containing 40	999	C2H2-type 7.				bone mineralization|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.86e-26)|Colorectal(126;8.55e-08)|COAD - Colon adenocarcinoma(152;4.1e-06)|GBM - Glioblastoma multiforme(114;1.39e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000712)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.216)		GCACGTGGTGACCCACGTTGG	0.622													7	34	---	---	---	---	PASS	C	22846715	C	C	22846715	3	2	53	1	0	0	0	0	1	0	0	0	17539	275	10	5	3045	5	ZBTB40	1	22846715	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	15041686	22846715	226403906	3	19854										
PTPRU	10076	broad.mit.edu	37	chr1	29651779	29651779	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tccgctgccacaacttggtgGacgttttctttgctgccaaa	9	12	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:29651779G>T	uc001bru.2	+	30	4329	c.4219G>T	c.(4219-4221)GAC>TAC	p.D1407Y	PTPRU_uc001brv.2_Missense_Mutation_p.D1403Y|PTPRU_uc001brw.2_Missense_Mutation_p.D1397Y|PTPRU_uc009vtq.2_Missense_Mutation_p.D1401Y|PTPRU_uc009vtr.2_Missense_Mutation_p.D1394Y|PTPRU_uc001brx.2_Missense_Mutation_p.D133Y	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	1407	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		CAACTTGGTGGACGTTTTCTT	0.582													27	57	---	---	---	---	PASS	T	29651779	T	T	29651779	3	4	53	1	0	0	0	0	1	0	0	0	12813	1174	41	2	4359	2	PTPRU	1	29651779	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	6805064	29651779	219598842	4	19855										
ZBTB8A	653121	broad.mit.edu	37	chr1	33060763	33060763	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tacaggagaaaggccctatcCatgtcaagcttgtggaaaaa	10	8	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:33060763C>T	uc001bvn.2	+	4	1417	c.932C>T	c.(931-933)CCA>CTA	p.P311L	ZBTB8A_uc001bvk.2_RNA|ZBTB8A_uc001bvm.2_Missense_Mutation_p.P311L	NM_001040441	NP_001035531	Q96BR9	ZBT8A_HUMAN	zinc finger and BTB domain containing 8A	311	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGGCCCTATCCATGTCAAGCT	0.433													23	70	---	---	---	---	PASS	T	33060763	T	T	33060763	3	4	53	1	0	0	0	0	1	0	0	0	17553	594	21	3	938	3	ZBTB8A	1	33060763	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	3408984	33060763	216189858	5	19856										
ZBTB8OS	339487	broad.mit.edu	37	chr1	33099247	33099247	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aagaaaaacctttgcttaccCggggtatgaagaattcatca	8	8	2	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:33099247C>A	uc001bvp.2	-	4	381	c.362G>T	c.(361-363)CGG>CTG	p.R121L	ZBTB8OS_uc001bvo.1_Intron|ZBTB8OS_uc001bvq.2_Missense_Mutation_p.R109L	NM_178547	NP_848642	Q8IWT0	ARCH_HUMAN	zinc finger and BTB domain containing 8 opposite	109											0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				TTTGCTTACCCGGGGTATGAA	0.328													6	23	---	---	---	---	PASS	A	33099247	A	A	33099247	3	1	53	1	0	0	0	0	1	0	0	0	17554	666	23	1	193	1	ZBTB8OS	1	33099247	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	38484	33099247	216151374	6	19857										
MACF1	23499	broad.mit.edu	37	chr1	39800752	39800752	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aaaggttaaagtgagagtttCtgatggggagcaggcaaaaa	14	3	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:39800752C>T	uc010oiu.1	+	1	3943	c.3812C>T	c.(3811-3813)TCT>TTT	p.S1271F	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2836					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)			GTGAGAGTTTCTGATGGGGAG	0.373													3	16	---	---	---	---	PASS	T	39800752	T	T	39800752	3	4	53	1	0	0	0	0	1	0	0	0	9144	913	32	2	8583	2	MACF1	1	39800752	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	6701505	39800752	209449869	7	19858										
MACF1	23499	broad.mit.edu	37	chr1	39800780	39800780	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gagcaggcaaaaaagagcagGgaaatttccttaaaggaatt	11	5	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:39800780G>T	uc010oiu.1	+	1	3971	c.3840G>T	c.(3838-3840)AGG>AGT	p.R1280S	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2845					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)			AAAAGAGCAGGGAAATTTCCT	0.363													7	20	---	---	---	---	PASS	T	39800780	T	T	39800780	3	4	53	1	0	0	0	0	1	0	0	0	9144	1223	43	3	8611	3	MACF1	1	39800780	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	28	39800780	209449841	8	19859										
MPL	4352	broad.mit.edu	37	chr1	43804366	43804366	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctaaaccagactcggactcaGcgagtcctctttgtggacag	10	12	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:43804366G>A	uc001ciw.2	+	3	411	c.366G>A	c.(364-366)CAG>CAA	p.Q122Q	MPL_uc001civ.2_Silent_p.Q122Q|MPL_uc009vwr.2_Silent_p.Q115Q	NM_005373	NP_005364	P40238	TPOR_HUMAN	myeloproliferative leukemia virus oncogene	122	Extracellular (Potential).				cell proliferation|platelet activation	integral to plasma membrane	cytokine receptor activity			haematopoietic_and_lymphoid_tissue(361)|upper_aerodigestive_tract(1)|pancreas(1)	363	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CTCGGACTCAGCGAGTCCTCT	0.572			Mis		MPD	MPD	congenital amegakaryocytic thrombocytopenia						14	44	---	---	---	---	PASS	A	43804366	A	A	43804366	2	1	53	1	0	0	0	0	0	0	0	1	9730	962	34	3		3	MPL	1	43804366	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	4003586	43804366	205446255	9	19860										
KIAA0467	23334	broad.mit.edu	37	chr1	43898249	43898249	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttctgagggtgtccccctcaTcagcctgccccgcgtgccac	10	18	3	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:43898249T>G	uc001cjk.1	+	23	3269	c.2807T>G	c.(2806-2808)ATC>AGC	p.I936S		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1835						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GTCCCCCTCATCAGCCTGCCC	0.612													27	72	---	---	---	---	PASS	G	43898249	G	G	43898249	3	3	53	1	0	0	0	0	1	0	0	0	8178	1435	50	5	2889	5	KIAA0467	1	43898249	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	93883	43898249	205352372	10	19861										
SGIP1	84251	broad.mit.edu	37	chr1	67208762	67208762	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gttttgttttgcaggaaaatActtggcagataactaatgaa	9	4	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:67208762A>G	uc001dcr.2	+	25	2688	c.2471A>G	c.(2470-2472)TAC>TGC	p.Y824C	SGIP1_uc010opd.1_Missense_Mutation_p.Y424C|SGIP1_uc001dcs.2_Missense_Mutation_p.Y424C|SGIP1_uc001dct.2_Missense_Mutation_p.Y426C|SGIP1_uc009wat.2_Missense_Mutation_p.Y618C|SGIP1_uc001dcu.2_Missense_Mutation_p.Y329C	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	824					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						GCAGGAAAATACTTGGCAGAT	0.328													11	49	---	---	---	---	PASS	G	67208762	G	G	67208762	3	3	53	1	0	0	0	0	1	0	0	0	14206	391	14	5	2569	5	SGIP1	1	67208762	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	23310513	67208762	182041859	11	19862										
PTGER3	5733	broad.mit.edu	37	chr1	71440049	71440049	+	Missense_Mutation	SNP	T	C	C													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aggaggtggagctggatgcaTagttgtttgtgtggtacctg							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:71440049T>C	uc001dfg.1	-	3	1331	c.1100A>G	c.(1099-1101)TAT>TGT	p.Y367C	PTGER3_uc001dfh.1_Intron|PTGER3_uc001dfi.1_Intron|PTGER3_uc001dfj.1_Intron|PTGER3_uc001dfk.1_Intron|PTGER3_uc001dfl.1_Intron|PTGER3_uc009wbm.1_Intron|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Intron|PTGER3_uc009wbn.1_Intron|PTGER3_uc009wbo.2_Missense_Mutation_p.Y367C|PTGER3_uc001dfo.2_Intron|PTGER3_uc001dfp.1_Missense_Mutation_p.Y367C	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	367	Cytoplasmic (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	gctggatgcatagttgtttgt	0.144													9	29	---	---	---	---	PASS	C	71440049	C	C	71440049	3	2	53	1	0	0	0	0	1	0	0	0	12744	1406	49	5	293	5	PTGER3	1	71440049	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	4231287	71440049	177810572	12	19863	444	2								
PTGER3	5733	broad.mit.edu	37	chr1	71440051	71440051	+	Missense_Mutation	SNP	G	T	T													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gaggtggagctggatgcataGttgtttgtgtggtacctgat							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:71440051G>T	uc001dfg.1	-	3	1329	c.1098C>A	c.(1096-1098)AAC>AAA	p.N366K	PTGER3_uc001dfh.1_Intron|PTGER3_uc001dfi.1_Intron|PTGER3_uc001dfj.1_Intron|PTGER3_uc001dfk.1_Intron|PTGER3_uc001dfl.1_Intron|PTGER3_uc009wbm.1_Intron|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Intron|PTGER3_uc009wbn.1_Intron|PTGER3_uc009wbo.2_Missense_Mutation_p.N366K|PTGER3_uc001dfo.2_Intron|PTGER3_uc001dfp.1_Missense_Mutation_p.N366K	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	366	Cytoplasmic (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	tggatgcatagttgtttgtgt	0.134													10	28	---	---	---	---	PASS	T	71440051	T	T	71440051	3	4	53	1	0	0	0	0	1	0	0	0	12744	1020	36	3	295	3	PTGER3	1	71440051	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	2	71440051	177810570	13	19864	444	2								
GIPC2	54810	broad.mit.edu	37	chr1	78560770	78560770	+	Missense_Mutation	SNP	G	T	T													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aagttaaaggaattaaaaaaGgaggaactctttactatgaa							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:78560770G>T	uc001dik.2	+	3	751	c.561G>T	c.(559-561)AAG>AAT	p.K187N		NM_017655	NP_060125	Q8TF65	GIPC2_HUMAN	PDZ domain protein GIPC2	187	PDZ.					cytoplasm				ovary(1)	1						AATTAAAAAAGGAGGAACTCT	0.383													14	48	---	---	---	---	PASS	T	78560770	T	T	78560770	3	4	53	1	0	0	0	0	1	0	0	0	6393	991	35	3	571	3	GIPC2	1	78560770	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	7120719	78560770	170689851	14	19865	445	2								
GIPC2	54810	broad.mit.edu	37	chr1	78560771	78560771	+	Nonsense_Mutation	SNP	G	T	T													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agttaaaggaattaaaaaagGaggaactctttactatgaag					rs138753471	byFrequency	TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:78560771G>T	uc001dik.2	+	3	752	c.562G>T	c.(562-564)GAG>TAG	p.E188*		NM_017655	NP_060125	Q8TF65	GIPC2_HUMAN	PDZ domain protein GIPC2	188	PDZ.					cytoplasm				ovary(1)	1						ATTAAAAAAGGAGGAACTCTT	0.388													14	48	---	---	---	---	PASS	T	78560771	T	T	78560771	4	4	53	1	0	0	0	0	0	1	0	0	6393	1175	41	2	572	2	GIPC2	1	78560771	Nonsense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	1	78560771	170689850	15	19866	445	2								
WDR47	22911	broad.mit.edu	37	chr1	109524461	109524461	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gatgcaatcatccagccactCcaggtataaagtgctaaaat	7	10	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:109524461C>A	uc001dwj.2	-	13	2668	c.2292G>T	c.(2290-2292)TGG>TGT	p.W764C	WDR47_uc001dwl.2_Missense_Mutation_p.W772C|WDR47_uc001dwi.2_Missense_Mutation_p.W765C|WDR47_uc010ovf.1_Missense_Mutation_p.W689C	NM_001142551	NP_001136023	O94967	WDR47_HUMAN	WD repeat domain 47 isoform 3	764	WD 4.									ovary(1)	1		all_lung(203;0.00519)|all_epithelial(167;0.00611)|Lung NSC(277;0.00822)		Colorectal(144;0.0165)|Lung(183;0.0484)|COAD - Colon adenocarcinoma(174;0.128)|Epithelial(280;0.168)|all cancers(265;0.201)|LUSC - Lung squamous cell carcinoma(189;0.244)		TCCAGCCACTCCAGGTATAAA	0.378													18	40	---	---	---	---	PASS	A	109524461	A	A	109524461	3	1	53	1	0	0	0	0	1	0	0	0	17297	856	30	2	479	2	WDR47	1	109524461	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	30963690	109524461	139726160	16	19867										
PDE4DIP	9659	broad.mit.edu	37	chr1	144881450	144881450	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	taagcataactctgtatttcTccagctcgttagcctgagca	7	11	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:144881450T>C	uc001elw.3	-	25	4037	c.3746A>G	c.(3745-3747)GAG>GGG	p.E1249G	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.E1205G|PDE4DIP_uc001elv.3_Missense_Mutation_p.E256G	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1249					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TCTGTATTTCTCCAGCTCGTT	0.408			T	PDGFRB	MPD								33	192	---	---	---	---	PASS	C	144881450	C	C	144881450	3	2	53	1	0	0	0	0	1	0	0	0	11643	1551	54	5	3374	5	PDE4DIP	1	144881450	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	35356989	144881450	104369171	17	19868										
RORC	6097	broad.mit.edu	37	chr1	151786031	151786031	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cctgagagcctcttggcgaaCtccaccacgtactgaatggc	10	14	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:151786031C>T	uc001ezh.2	-	7	1107	c.999G>A	c.(997-999)GAG>GAA	p.E333E	RORC_uc001ezg.2_Silent_p.E312E|RORC_uc010pdo.1_Silent_p.E387E|RORC_uc010pdp.1_Silent_p.E333E	NM_005060	NP_005051	P51449	RORG_HUMAN	RAR-related orphan receptor C isoform a	333	Ligand-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			TCTTGGCGAACTCCACCACGT	0.612													9	24	---	---	---	---	PASS	T	151786031	T	T	151786031	2	4	53	1	0	0	0	0	0	0	0	1	13530	564	20	3		3	RORC	1	151786031	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	6904581	151786031	97464590	18	19869										
FCRL5	83416	broad.mit.edu	37	chr1	157485497	157485497	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agctgaggaagccaagaacaGggatccggaaaccggggttg	16	8	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:157485497G>A	uc001fqu.2	-	17	3060	c.2902C>T	c.(2902-2904)CTG>TTG	p.L968L	FCRL5_uc009wsm.2_Silent_p.P964P	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	968	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				GCCAAGAACAGGGATCCGGAA	0.577													30	104	---	---	---	---	PASS	A	157485497	A	A	157485497	2	1	53	1	0	0	0	0	0	0	0	1	5798	991	35	3		3	FCRL5	1	157485497	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	5699466	157485497	91765124	19	19870										
CADM3	57863	broad.mit.edu	37	chr1	159166195	159166195	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ggccagaccctccccatcctCgtgagggccagaagctgttg	12	15	0	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:159166195C>T	uc001ftl.2	+	6	875	c.733C>T	c.(733-735)CGT>TGT	p.R245C	CADM3_uc009wsy.1_Missense_Mutation_p.R199C|CADM3_uc001ftk.2_Missense_Mutation_p.R279C	NM_001127173	NP_001120645	Q8N126	CADM3_HUMAN	cell adhesion molecule 3 isoform 2	245	Ig-like C2-type 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|heterophilic cell-cell adhesion|homophilic cell adhesion	cell-cell junction|integral to membrane	protein homodimerization activity			ovary(2)	2	all_hematologic(112;0.0429)					TCCCCATCCTCGTGAGGGCCA	0.517											OREG0013913	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	12	---	---	---	---	PASS	T	159166195	T	T	159166195	3	4	53	1	0	0	0	0	1	0	0	0	2568	884	31	2	861	2	CADM3	1	159166195	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	1680698	159166195	90084426	20	19871										
LY9	4063	broad.mit.edu	37	chr1	160784493	160784493	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gccggcccctaccatgcctaCgtgtgctcagaggcctccag	11	17	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:160784493C>T	uc001fwu.2	+	4	1064	c.1014C>T	c.(1012-1014)TAC>TAT	p.Y338Y	LY9_uc010pjs.1_Silent_p.Y338Y|LY9_uc001fwv.2_Silent_p.Y338Y|LY9_uc001fww.2_Silent_p.Y338Y|LY9_uc001fwx.2_Silent_p.Y338Y|LY9_uc001fwy.1_Silent_p.Y240Y|LY9_uc001fwz.2_Translation_Start_Site	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	338	Extracellular (Potential).|Ig-like V-type 2.				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			ACCATGCCTACGTGTGCTCAG	0.587													6	19	---	---	---	---	PASS	T	160784493	T	T	160784493	2	4	53	1	0	0	0	0	0	0	0	1	9101	547	19	1		1	LY9	1	160784493	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	1618298	160784493	88466128	21	19872										
MPZL1	9019	broad.mit.edu	37	chr1	167742573	167742573	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	atgattctggctgtcctctaTagaaggaaaaactctaaacg	8	8	3	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:167742573T>C	uc001geo.2	+	4	775	c.573T>C	c.(571-573)TAT>TAC	p.Y191Y	MPZL1_uc001gen.3_Silent_p.Y191Y|MPZL1_uc001gep.2_Silent_p.Y191Y|MPZL1_uc001geq.2_Intron|MPZL1_uc009wvh.2_RNA	NM_003953	NP_003944	O95297	MPZL1_HUMAN	myelin protein zero-like 1 isoform a	191	Cytoplasmic (Potential).				cell-cell signaling|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	protein binding|structural molecule activity			ovary(2)	2	all_hematologic(923;0.215)					CTGTCCTCTATAGAAGGAAAA	0.453													25	42	---	---	---	---	PASS	C	167742573	C	C	167742573	2	2	53	1	0	0	0	0	0	0	0	1	9749	1413	49	5		5	MPZL1	1	167742573	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	6958080	167742573	81508048	22	19873										
TNN	63923	broad.mit.edu	37	chr1	175092743	175092743	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	catggagtacatggtgcacgTgtgggcccagaagggggccc	17	10	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:175092743T>C	uc001gkl.1	+	12	2971	c.2858T>C	c.(2857-2859)GTG>GCG	p.V953A		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	953	Fibronectin type-III 8.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		ATGGTGCACGTGTGGGCCCAG	0.622													19	34	---	---	---	---	PASS	C	175092743	C	C	175092743	3	2	53	1	0	0	0	0	1	0	0	0	16320	1696	59	5	2900	5	TNN	1	175092743	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	7350170	175092743	74157878	23	19874										
TNR	7143	broad.mit.edu	37	chr1	175334287	175334287	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cagggagacctccatcatctCttcctcctcatccctggggc	8	17	3	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:175334287C>G	uc001gkp.1	-	10	2527	c.2446G>C	c.(2446-2448)GAG>CAG	p.E816Q	TNR_uc009wwu.1_Missense_Mutation_p.E816Q	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	816	Fibronectin type-III 6.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TCCATCATCTCTTCCTCCTCA	0.532													10	46	---	---	---	---	PASS	G	175334287	G	G	175334287	3	3	53	1	0	0	0	0	1	0	0	0	16335	922	32	2	1678	2	TNR	1	175334287	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	241544	175334287	73916334	24	19875										
PAPPA2	60676	broad.mit.edu	37	chr1	176738821	176738821	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ccgtggactgcggtgttcccGacccgtctttggtgaactat	12	12	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:176738821G>T	uc001gkz.2	+	16	5566	c.4402G>T	c.(4402-4404)GAC>TAC	p.D1468Y	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1468	Sushi 2.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CGGTGTTCCCGACCCGTCTTT	0.507													21	44	---	---	---	---	PASS	T	176738821	T	T	176738821	3	4	53	1	0	0	0	0	1	0	0	0	11433	1058	37	2	4513	2	PAPPA2	1	176738821	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	1404534	176738821	72511800	25	19876										
CR2	1380	broad.mit.edu	37	chr1	207647145	207647145	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	attccatccttgcttctccaGaaacatgccagcatgtgaga	7	12	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:207647145G>C	uc001hfw.2	+	11	2073	c.1979_splice	c.e11-1	p.E660_splice	CR2_uc001hfv.2_Splice_Site_p.E719_splice|CR2_uc009xch.2_Splice_Site_p.E660_splice	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)						complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TGCTTCTCCAGAAACATGCCA	0.453													28	55	---	---	---	---	PASS	C	207647145	C	C	207647145	5	2	53	1	0	0	0	0	0	0	1	0	3842	956	33	2	2201	2	CR2	1	207647145	Splice_Site	SNP	G	TCGA-22-5492-01A-01D-1632-08	30908324	207647145	41603476	26	19877										
CR1	1378	broad.mit.edu	37	chr1	207696963	207696963	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttcctttttccaggaattccTtgtgggctaccccccaccat	6	15	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:207696963T>C	uc001hfy.2	+	5	635	c.495T>C	c.(493-495)CCT>CCC	p.P165P	CR1_uc009xcl.1_Silent_p.P165P|CR1_uc001hfx.2_Silent_p.P165P|CR1_uc009xcj.1_Silent_p.P165P|CR1_uc009xck.1_Silent_p.P165P	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	165	Extracellular (Potential).|Sushi 3.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						CAGGAATTCCTTGTGGGCTAC	0.398													4	24	---	---	---	---	PASS	C	207696963	C	C	207696963	2	2	53	1	0	0	0	0	0	0	0	1	3840	1596	56	5		5	CR1	1	207696963	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	49818	207696963	41553658	27	19878										
INTS7	25896	broad.mit.edu	37	chr1	212180086	212180086	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctgggatcattcttcaaataCtgcaacagaagctgaatcta	7	9	4	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:212180086C>T	uc001hiw.1	-	7	879	c.774G>A	c.(772-774)CAG>CAA	p.Q258Q	INTS7_uc009xdb.1_Silent_p.Q258Q|INTS7_uc001hix.1_Silent_p.Q134Q|INTS7_uc001hiy.1_Silent_p.Q258Q|INTS7_uc010pta.1_Silent_p.Q209Q	NM_015434	NP_056249	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	258					snRNA processing	integrator complex	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		TCTTCAAATACTGCAACAGAA	0.294													20	62	---	---	---	---	PASS	T	212180086	T	T	212180086	2	4	53	1	0	0	0	0	0	0	0	1	7783	564	20	3		3	INTS7	1	212180086	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	4483123	212180086	37070535	28	19879										
USH2A	7399	broad.mit.edu	37	chr1	215847809	215847809	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgtatatacaatggttccatCcctcctaagttcataacttc	4	11	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:215847809C>T	uc001hku.1	-	63	13831	c.13444G>A	c.(13444-13446)GAT>AAT	p.D4482N		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4482	Fibronectin type-III 30.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATGGTTCCATCCCTCCTAAGT	0.453										HNSCC(13;0.011)			30	79	---	---	---	---	PASS	T	215847809	T	T	215847809	3	4	53	1	0	0	0	0	1	0	0	0	17033	855	30	2	2204	2	USH2A	1	215847809	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	3667723	215847809	33402812	29	19880										
USH2A	7399	broad.mit.edu	37	chr1	216019303	216019303	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttacatctggcaagatttttAgagagtcgtttgaggtagca	11	5	1	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:216019303A>G	uc001hku.1	-	45	9305	c.8918T>C	c.(8917-8919)CTA>CCA	p.L2973P		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2973	Fibronectin type-III 16.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CAAGATTTTTAGAGAGTCGTT	0.408										HNSCC(13;0.011)			9	31	---	---	---	---	PASS	G	216019303	G	G	216019303	3	3	53	1	0	0	0	0	1	0	0	0	17033	420	15	5	6802	5	USH2A	1	216019303	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	171494	216019303	33231318	30	19881										
RHOU	58480	broad.mit.edu	37	chr1	228879123	228879123	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gagcccctcatccttccagaAcgtcagtgagaaatgggtgc	11	12	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:228879123A>T	uc001htf.2	+	3	1034	c.413A>T	c.(412-414)AAC>ATC	p.N138I		NM_021205	NP_067028	Q7L0Q8	RHOU_HUMAN	ras homolog gene family, member U	138					regulation of small GTPase mediated signal transduction	cell projection|cytosol|focal adhesion|Golgi membrane|podosome	GTP binding|metal ion binding|protein binding				0	Breast(184;0.162)	Prostate(94;0.183)				TCCTTCCAGAACGTCAGTGAG	0.522													15	92	---	---	---	---	PASS	T	228879123	T	T	228879123	3	4	53	1	0	0	0	0	1	0	0	0	13345	43	2	5	423	5	RHOU	1	228879123	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	12859820	228879123	20371498	31	19882										
NUP133	55746	broad.mit.edu	37	chr1	229596517	229596517	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aagagaaagtctgaaaaattCtacaaataacagaacataga	6	5	2	4			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:229596517C>G	uc001htn.2	-	20	2778	c.2686_splice	c.e20-1	p.N896_splice		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa						carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				CTGAAAAATTCTACAAATAAC	0.328													3	32	---	---	---	---	PASS	G	229596517	G	G	229596517	5	3	53	1	0	0	0	0	0	0	1	0	10754	927	32	2	813	2	NUP133	1	229596517	Splice_Site	SNP	C	TCGA-22-5492-01A-01D-1632-08	717394	229596517	19654104	32	19883										
SLC35F3	148641	broad.mit.edu	37	chr1	234367239	234367239	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gtggaggccggcgggagagcGagtcgccgctgctggacgtg	21	10	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:234367239G>A	uc001hwa.1	+	2	381	c.153G>A	c.(151-153)GCG>GCA	p.A51A	SLC35F3_uc001hvy.1_Silent_p.A120A	NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	51					transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			GCGGGAGAGCGAGTCGCCGCT	0.741													6	19	---	---	---	---	PASS	A	234367239	A	A	234367239	2	1	53	1	0	0	0	0	0	0	0	1	14590	1045	37	2		2	SLC35F3	1	234367239	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	4770722	234367239	14883382	33	19884										
NLRP3	114548	broad.mit.edu	37	chr1	247587806	247587806	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	catcaccacgagacctgtggCcctggagaaactgcagcact	10	14	1	2	rs121908149		TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:247587806C>A	uc001icr.2	+	5	1199	c.1061C>A	c.(1060-1062)GCC>GAC	p.A354D	NLRP3_uc001ics.2_Missense_Mutation_p.A354D|NLRP3_uc001icu.2_Missense_Mutation_p.A354D|NLRP3_uc001icw.2_Missense_Mutation_p.A354D|NLRP3_uc001icv.2_Missense_Mutation_p.A354D|NLRP3_uc010pyw.1_Missense_Mutation_p.A352D|NLRP3_uc001ict.1_Missense_Mutation_p.A352D	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	354	NACHT.		A -> V (in MWS).		detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			AGACCTGTGGCCCTGGAGAAA	0.557													19	40	---	---	---	---	PASS	A	247587806	A	A	247587806	3	1	53	1	0	0	0	0	1	0	0	0	10478	739	26	3	1071	3	NLRP3	1	247587806	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	13220567	247587806	1662815	34	19885										
OR14A16	284532	broad.mit.edu	37	chr1	247978807	247978807	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttggcgatagatttgggagcCgtgactgaaataaggcagag	15	5	0	4			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr1:247978807C>A	uc001idm.1	-	1	225	c.225G>T	c.(223-225)ACG>ACT	p.T75T		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	75	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATTTGGGAGCCGTGACTGAAA	0.418													7	28	---	---	---	---	PASS	A	247978807	A	A	247978807	2	1	53	1	0	0	0	0	0	0	0	1	10945	639	23	1		1	OR14A16	1	247978807	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	391001	247978807	1271814	35	19886										
TPO	7173	broad.mit.edu	37	chr2	1488614	1488614	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctttcttcagcccatggacaTtactccgtggaggtgagtga	11	10	2	2	rs114401108	byFrequency	TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:1488614T>G	uc002qww.2	+	9	1676	c.1585T>G	c.(1585-1587)TTA>GTA	p.L529V	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.L529V|TPO_uc002qwr.2_Missense_Mutation_p.L529V|TPO_uc002qwx.2_Missense_Mutation_p.L529V|TPO_uc010yio.1_Missense_Mutation_p.L356V|TPO_uc010yip.1_Missense_Mutation_p.L529V|TPO_uc002qwy.1_5'UTR|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	529	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CCCATGGACATTACTCCGTGG	0.507													8	32	---	---	---	---	PASS	G	1488614	G	G	1488614	3	3	53	1	0	0	0	0	1	0	0	0	16407	1490	52	5	1615	5	TPO	2	1488614	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08		1488614	241710759	36	19887										
DNMT3A	1788	broad.mit.edu	37	chr2	25464474	25464474	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cgtccccgacgtacatgatcTtcccctggtgccgcaccatg	9	17	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:25464474T>C	uc002rgc.2	-	17	2296	c.2039A>G	c.(2038-2040)AAG>AGG	p.K680R	DNMT3A_uc002rgd.2_Missense_Mutation_p.K680R|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Missense_Mutation_p.K491R	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	680					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTACATGATCTTCCCCTGGTG	0.617			Mis|F|N|S		AML								7	19	---	---	---	---	PASS	C	25464474	C	C	25464474	3	2	53	1	0	0	0	0	1	0	0	0	4676	1609	56	5	727	5	DNMT3A	2	25464474	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	23975860	25464474	217734899	37	19888										
BCL11A	53335	broad.mit.edu	37	chr2	60687659	60687659	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tcacatttgtaaacgtccttCcccacctggccatgcgtttt	6	14	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:60687659C>T	uc002sae.1	-	4	2616	c.2388G>A	c.(2386-2388)GGG>GGA	p.G796G	BCL11A_uc002sab.2_Intron|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Intron|BCL11A_uc010ypj.1_Intron|BCL11A_uc002sad.1_Silent_p.G644G|BCL11A_uc002saf.1_Silent_p.G762G	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	796					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			AAACGTCCTTCCCCACCTGGC	0.478			T	IGH@	B-CLL								16	185	---	---	---	---	PASS	T	60687659	T	T	60687659	2	4	53	1	0	0	0	0	0	0	0	1	1363	842	30	2		2	BCL11A	2	60687659	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	35223185	60687659	182511714	38	19889										
DPP10	57628	broad.mit.edu	37	chr2	116534843	116534843	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ggaaactgggaagtgataaaGatcttggcatacgatgaaac	12	5	1	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:116534843G>C	uc002tla.1	+	14	1738	c.1281G>C	c.(1279-1281)AAG>AAC	p.K427N	DPP10_uc002tlb.1_Missense_Mutation_p.K377N|DPP10_uc002tlc.1_Missense_Mutation_p.K423N|DPP10_uc002tle.2_Missense_Mutation_p.K431N|DPP10_uc002tlf.1_Missense_Mutation_p.K420N	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	427	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						AAGTGATAAAGATCTTGGCAT	0.358													9	23	---	---	---	---	PASS	C	116534843	C	C	116534843	3	2	53	1	0	0	0	0	1	0	0	0	4727	933	33	2	1506	2	DPP10	2	116534843	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	55847184	116534843	126664530	39	19890										
PTPN4	5775	broad.mit.edu	37	chr2	120714483	120714483	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aattacctcagaatatttccAaaaatagatacagagatatt	4	6	1	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:120714483A>G	uc002tmf.1	+	21	2815	c.2044A>G	c.(2044-2046)AAA>GAA	p.K682E	PTPN4_uc010flj.1_Missense_Mutation_p.K395E|PTPN4_uc010yyr.1_Missense_Mutation_p.K315E	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	682	Tyrosine-protein phosphatase.					cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	GAATATTTCCAAAAATAGATA	0.269													21	58	---	---	---	---	PASS	G	120714483	G	G	120714483	3	3	53	1	0	0	0	0	1	0	0	0	12790	131	5	5	2122	5	PTPN4	2	120714483	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	4179640	120714483	122484890	40	19891										
CNTNAP5	129684	broad.mit.edu	37	chr2	125660468	125660468	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttacattgcagagaatcttgGtttggattctgaagttgcta	10	5	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:125660468G>T	uc002tno.2	+	22	3807	c.3443G>T	c.(3442-3444)GGT>GTT	p.G1148V	CNTNAP5_uc010flu.2_Missense_Mutation_p.G1149V	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	1148	Extracellular (Potential).|Laminin G-like 4.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GAGAATCTTGGTTTGGATTCT	0.403													3	13	---	---	---	---	PASS	T	125660468	T	T	125660468	3	4	53	1	0	0	0	0	1	0	0	0	3650	1261	44	3	3529	3	CNTNAP5	2	125660468	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	4945985	125660468	117538905	41	19892										
NCKAP5	344148	broad.mit.edu	37	chr2	133539728	133539728	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tcaggcttctttttctctttTtttctttctgattttagttg	5	7	5	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:133539728T>C	uc002ttp.2	-	14	5030	c.4656A>G	c.(4654-4656)AAA>AAG	p.K1552K	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1552							protein binding				0						TTTTCTCTTTTTTTCTTTCTG	0.383													15	60	---	---	---	---	PASS	C	133539728	C	C	133539728	2	2	53	1	0	0	0	0	0	0	0	1	10223	1838	64	5		5	NCKAP5	2	133539728	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	7879260	133539728	109659645	42	19893										
BAZ2B	29994	broad.mit.edu	37	chr2	160255379	160255379	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tccaataatttggcatttgcCgcttcttccttctttttctt	4	11	3	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:160255379C>T	uc002uao.2	-	18	3277	c.2925G>A	c.(2923-2925)GCG>GCA	p.A975A	BAZ2B_uc002uap.2_Silent_p.A939A|BAZ2B_uc002uaq.1_Silent_p.A805A	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	975	Lys-rich.|Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TGGCATTTGCCGCTTCTTCCT	0.343													12	32	---	---	---	---	PASS	T	160255379	T	T	160255379	2	4	53	1	0	0	0	0	0	0	0	1	1332	639	23	1		1	BAZ2B	2	160255379	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	26715651	160255379	82943994	43	19894										
SLC4A10	57282	broad.mit.edu	37	chr2	162735785	162735785	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttcaaggactggctgaagtcCcaatcccaaccaggtaaaaa	8	11	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:162735785C>A	uc002ubx.3	+	9	1277	c.1093C>A	c.(1093-1095)CCA>ACA	p.P365T	SLC4A10_uc010fpa.1_Missense_Mutation_p.P377T|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.P335T|SLC4A10_uc010zcs.1_Missense_Mutation_p.P346T	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	365	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						GGCTGAAGTCCCAATCCCAAC	0.388													17	80	---	---	---	---	PASS	A	162735785	A	A	162735785	3	1	53	1	0	0	0	0	1	0	0	0	14651	623	22	3	1212	3	SLC4A10	2	162735785	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	2480406	162735785	80463588	44	19895										
SCN2A	6326	broad.mit.edu	37	chr2	166201106	166201106	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aaatcttggccaactctaaaTatgctaattaagatcattgg	6	7	3	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:166201106T>C	uc002udc.2	+	16	2894	c.2604T>C	c.(2602-2604)AAT>AAC	p.N868N	SCN2A_uc002udd.2_Silent_p.N868N|SCN2A_uc002ude.2_Silent_p.N868N	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	868	II.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	CAACTCTAAATATGCTAATTA	0.408													18	39	---	---	---	---	PASS	C	166201106	C	C	166201106	2	2	53	1	0	0	0	0	0	0	0	1	13916	1403	49	5		5	SCN2A	2	166201106	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	3465321	166201106	76998267	45	19896										
TLK1	9874	broad.mit.edu	37	chr2	171939356	171939356	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	attagagctttcgttatttgTtgaggcctgttaaagatttt	9	4	0	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:171939356T>C	uc002ugn.2	-	3	737	c.265A>G	c.(265-267)ACA>GCA	p.T89A	TLK1_uc002ugo.2_Missense_Mutation_p.T89A|TLK1_uc002ugp.2_Missense_Mutation_p.T41A|TLK1_uc002ugq.2_RNA	NM_012290	NP_036422	Q9UKI8	TLK1_HUMAN	tousled-like kinase 1 isoform 1	89					cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						TCGTTATTTGTTGAGGCCTGT	0.279													19	58	---	---	---	---	PASS	C	171939356	C	C	171939356	3	2	53	1	0	0	0	0	1	0	0	0	15940	1725	60	5	2157	5	TLK1	2	171939356	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	5738250	171939356	71260017	46	19897										
TTN	7273	broad.mit.edu	37	chr2	179402307	179402307	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agccgaagtgtggaacccacAgctccataatatttctcttt	7	11	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:179402307A>G	uc010zfg.1	-	304	92147	c.91923T>C	c.(91921-91923)GCT>GCC	p.A30641A	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.A24336A|TTN_uc010zfi.1_Silent_p.A24269A|TTN_uc010zfj.1_Silent_p.A24144A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31568							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)			TGGAACCCACAGCTCCATAAT	0.453													6	28	---	---	---	---	PASS	G	179402307	G	G	179402307	2	3	53	1	0	0	0	0	0	0	0	1	16732	175	7	5		5	TTN	2	179402307	Silent	SNP	A	TCGA-22-5492-01A-01D-1632-08	7462951	179402307	63797066	47	19898										
DNAH7	56171	broad.mit.edu	37	chr2	196709795	196709795	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	caatattccaagttcgaattGtcacagcttctcccagggta	7	11	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:196709795G>C	uc002utj.3	-	47	8977	c.8876C>G	c.(8875-8877)ACA>AGA	p.T2959R		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2959	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AGTTCGAATTGTCACAGCTTC	0.373													6	18	---	---	---	---	PASS	C	196709795	C	C	196709795	3	2	53	1	0	0	0	0	1	0	0	0	4606	1377	48	4	3274	4	DNAH7	2	196709795	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	17307488	196709795	46489578	48	19899										
ZDBF2	57683	broad.mit.edu	37	chr2	207170724	207170724	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ccaaagctatgaatctagtaGttctgaaacgaattttgatt	7	6	2	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:207170724G>C	uc002vbp.2	+	5	1722	c.1472G>C	c.(1471-1473)AGT>ACT	p.S491T		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	491							nucleic acid binding|zinc ion binding			ovary(3)	3						GAATCTAGTAGTTCTGAAACG	0.393													10	37	---	---	---	---	PASS	C	207170724	C	C	207170724	3	2	53	1	0	0	0	0	1	0	0	0	17596	1029	36	4	1482	4	ZDBF2	2	207170724	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	10460929	207170724	36028649	49	19900										
VWC2L	402117	broad.mit.edu	37	chr2	215440509	215440509	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ggtggaagcctgctcagtgtTcgaaacgtgaatgccaaggc	14	9	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:215440509T>C	uc002vet.2	+	4	764	c.634T>C	c.(634-636)TCG>CCG	p.S212P	VWC2L_uc010zjl.1_3'UTR	NM_001080500	NP_001073969	B2RUY7	VWC2L_HUMAN	von Willebrand factor C domain-containing	212						extracellular region					0						TGCTCAGTGTTCGAAACGTGA	0.473													33	88	---	---	---	---	PASS	C	215440509	C	C	215440509	3	2	53	1	0	0	0	0	1	0	0	0	17241	1783	62	5	644	5	VWC2L	2	215440509	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	8269785	215440509	27758864	50	19901										
PTPRN	5798	broad.mit.edu	37	chr2	220167470	220167470	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ccactggtggttgtggaagcCgatgctgggcagcaggggcg	19	9	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:220167470C>T	uc002vkz.2	-	5	556	c.467G>A	c.(466-468)CGG>CAG	p.R156Q	PTPRN_uc010zlc.1_Missense_Mutation_p.R66Q|PTPRN_uc002vla.2_Missense_Mutation_p.R156Q	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	156	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		TTGTGGAAGCCGATGCTGGGC	0.632													20	36	---	---	---	---	PASS	T	220167470	T	T	220167470	3	4	53	1	0	0	0	0	1	0	0	0	12807	652	23	1	2548	1	PTPRN	2	220167470	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	4726961	220167470	23031903	51	19902										
COL4A4	1286	broad.mit.edu	37	chr2	227886820	227886820	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tggctccttctggtcctctcAtgcctggcgccccaggaagg	12	15	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:227886820A>G	uc010zlt.1	-	43	4814	c.4160T>C	c.(4159-4161)ATG>ACG	p.M1387T		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1387	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		TGGTCCTCTCATGCCTGGCGC	0.547													46	119	---	---	---	---	PASS	G	227886820	G	G	227886820	3	3	53	1	0	0	0	0	1	0	0	0	3693	217	8	5	932	5	COL4A4	2	227886820	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	7719350	227886820	15312553	52	19903										
SP100	6672	broad.mit.edu	37	chr2	231405712	231405712	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgctgcctgaggagcagttgGtgagtaaaaatgtgaacctg	14	6	0	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:231405712G>T	uc002vqu.1	+	26	2472	c.2331_splice	c.e26+1	p.L777_splice	SP100_uc010fxp.1_Splice_Site_p.L95_splice	NM_001080391	NP_001073860	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 1						DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		GGAGCAGTTGGTGAGTAAAAA	0.478													14	44	---	---	---	---	PASS	T	231405712	T	T	231405712	5	4	53	1	0	0	0	0	0	0	1	0	14960	1275	44	3	2984	3	SP100	2	231405712	Splice_Site	SNP	G	TCGA-22-5492-01A-01D-1632-08	3518892	231405712	11793661	53	19904										
NDUFA10	4705	broad.mit.edu	37	chr2	240929490	240929490	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tctccatttccacagtcttaCctctctgaactgatgtaaga	5	12	3	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:240929490C>T	uc002vyn.2	-	9	1079	c.999_splice	c.e9+1	p.E333_splice	NDUFA10_uc010fzc.1_Splice_Site_p.E363_splice	NM_004544	NP_004535	O95299	NDUAA_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha						mitochondrial electron transport, NADH to ubiquinone|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transport	mitochondrial matrix|mitochondrial respiratory chain complex I	ATP binding|NADH dehydrogenase (ubiquinone) activity|phosphotransferase activity, alcohol group as acceptor			central_nervous_system(1)	1		all_epithelial(40;4.26e-15)|Breast(86;4.4e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0396)|Lung NSC(271;0.128)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(121;7.82e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.5e-13)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;2.39e-05)|Lung(119;0.00519)|LUSC - Lung squamous cell carcinoma(224;0.0202)	NADH(DB00157)	CACAGTCTTACCTCTCTGAAC	0.473													12	28	---	---	---	---	PASS	T	240929490	T	T	240929490	5	4	53	1	0	0	0	0	0	0	1	0	10260	521	18	3	75	3	NDUFA10	2	240929490	Splice_Site	SNP	C	TCGA-22-5492-01A-01D-1632-08	9523778	240929490	2269883	54	19905										
AGXT	189	broad.mit.edu	37	chr2	241817438	241817438	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgagccaggcccctcctgcaGgcgctccggcttcccacagt	11	18	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr2:241817438G>T	uc002waa.3	+	10	1064	c.943_splice	c.e10-1	p.A315_splice	AGXT_uc002wab.3_Splice_Site_p.A193_splice	NM_000030	NP_000021	P21549	SPYA_HUMAN	alanine-glyoxylate aminotransferase						glyoxylate metabolic process|protein targeting to peroxisome	mitochondrial matrix|peroxisomal matrix	alanine-glyoxylate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|serine-pyruvate transaminase activity				0		all_epithelial(40;1.61e-15)|Breast(86;2.35e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;8.14e-32)|all cancers(36;4.77e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;4.88e-06)|Lung(119;0.000452)|LUSC - Lung squamous cell carcinoma(224;0.00415)|Colorectal(34;0.021)|COAD - Colon adenocarcinoma(134;0.15)	Glycine(DB00145)|L-Alanine(DB00160)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	CCCTCCTGCAGGCGCTCCGGC	0.602													6	23	---	---	---	---	PASS	T	241817438	T	T	241817438	5	4	53	1	0	0	0	0	0	0	1	0	404	1014	35	3	980	3	AGXT	2	241817438	Splice_Site	SNP	G	TCGA-22-5492-01A-01D-1632-08	887948	241817438	1381935	55	19906										
SCN10A	6336	broad.mit.edu	37	chr3	38739960	38739960	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tggccgctcggatcagtctgAggatgcggccaattcgggcc	15	12	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr3:38739960A>C	uc003ciq.2	-	27	4751	c.4751T>G	c.(4750-4752)CTC>CGC	p.L1584R		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1584	IV.|Helical; Voltage-sensor; Name=S4 of repeat IV; (Potential).				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GATCAGTCTGAGGATGCGGCC	0.522													20	23	---	---	---	---	PASS	C	38739960	C	C	38739960	3	2	53	1	0	0	0	0	1	0	0	0	13912	304	11	5	1123	5	SCN10A	3	38739960	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08		38739960	159282470	56	19907										
ZNF654	55279	broad.mit.edu	37	chr3	88189354	88189354	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cacaggatatttcaggctcaGtgtagttttccagaatgcca	9	9	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr3:88189354G>T	uc003dqv.2	+	1	1093	c.894G>T	c.(892-894)CAG>CAT	p.Q298H	CGGBP1_uc003dqu.2_Intron	NM_018293	NP_060763	Q8IZM8	ZN654_HUMAN	zinc finger protein 654	298	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(201;0.0283)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		TTCAGGCTCAGTGTAGTTTTC	0.403													28	46	---	---	---	---	PASS	T	88189354	T	T	88189354	3	4	53	1	0	0	0	0	1	0	0	0	18064	1020	36	3	896	3	ZNF654	3	88189354	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	49449394	88189354	109833076	57	19908										
HHLA2	11148	broad.mit.edu	37	chr3	108076898	108076898	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	caaagagctgataaaccagaGtgacttctctatgaatttga	8	7	1	6			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr3:108076898G>C	uc003dwy.3	+	6	1060	c.893G>C	c.(892-894)AGT>ACT	p.S298T	HHLA2_uc011bhl.1_Missense_Mutation_p.S234T|HHLA2_uc010hpu.2_Missense_Mutation_p.S298T|HHLA2_uc003dwz.2_Missense_Mutation_p.S298T	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	298	Ig-like V-type 2.					integral to membrane				ovary(1)	1						ATAAACCAGAGTGACTTCTCT	0.373													23	90	---	---	---	---	PASS	C	108076898	C	C	108076898	3	2	53	1	0	0	0	0	1	0	0	0	7095	1029	36	4	907	4	HHLA2	3	108076898	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	19887544	108076898	89945532	58	19909										
TRAT1	50852	broad.mit.edu	37	chr3	108572698	108572698	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tcagactgtttggattgatcCgtgctaagagagaacctata	10	7	1	4			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr3:108572698C>A	uc003dxi.1	+	6	679	c.535C>A	c.(535-537)CGT>AGT	p.R179S	TRAT1_uc010hpx.1_Missense_Mutation_p.R142S	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	179	Cytoplasmic (Potential).				cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						TGGATTGATCCGTGCTAAGAG	0.433													20	87	---	---	---	---	PASS	A	108572698	A	A	108572698	3	1	53	1	0	0	0	0	1	0	0	0	16463	652	23	1	557	1	TRAT1	3	108572698	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	495800	108572698	89449732	59	19910										
SIDT1	54847	broad.mit.edu	37	chr3	113299545	113299545	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	catgttctgttgtctcagtcCagaatatcatggtgagtgct	10	8	3	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr3:113299545C>G	uc003eak.2	+	5	1303	c.652C>G	c.(652-654)CAG>GAG	p.Q218E	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Missense_Mutation_p.Q218E|SIDT1_uc011big.1_5'UTR	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	218	Extracellular (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						TGTCTCAGTCCAGAATATCAT	0.383													24	84	---	---	---	---	PASS	G	113299545	G	G	113299545	3	3	53	1	0	0	0	0	1	0	0	0	14302	595	21	4	670	4	SIDT1	3	113299545	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	4726847	113299545	84722885	60	19911										
POLQ	10721	broad.mit.edu	37	chr3	121206279	121206279	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aatgtttggaaaagattttgGtcacttgctacatcaattat	7	5	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr3:121206279G>C	uc003eee.3	-	16	5628	c.5499C>G	c.(5497-5499)GAC>GAG	p.D1833E	POLQ_uc003eed.2_Missense_Mutation_p.D1005E	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1833					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AAAGATTTTGGTCACTTGCTA	0.383								DNA_polymerases_(catalytic_subunits)					25	92	---	---	---	---	PASS	C	121206279	C	C	121206279	3	2	53	1	0	0	0	0	1	0	0	0	12208	1252	44	4	2333	4	POLQ	3	121206279	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	7906734	121206279	76816151	61	19912										
PLSCR4	57088	broad.mit.edu	37	chr3	145924389	145924389	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tccatgttattggaacagacTgatttggcataggatatttg	10	5	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr3:145924389T>A	uc010huy.2	-	4	607	c.278A>T	c.(277-279)CAG>CTG	p.Q93L	PLSCR4_uc010huz.2_Missense_Mutation_p.Q93L|PLSCR4_uc003evt.3_Missense_Mutation_p.Q93L|PLSCR4_uc010hva.2_Missense_Mutation_p.Q93L|PLSCR4_uc003evu.3_Missense_Mutation_p.Q78L	NM_001128305	NP_001121777	Q9NRQ2	PLS4_HUMAN	phospholipid scramblase 4 isoform a	93	Cytoplasmic (By similarity).				blood coagulation|phospholipid scrambling	integral to membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding				0						TGGAACAGACTGATTTGGCAT	0.468													16	82	---	---	---	---	PASS	A	145924389	A	A	145924389	3	1	53	1	0	0	0	0	1	0	0	0	12112	1580	55	5	735	5	PLSCR4	3	145924389	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	24718110	145924389	52098041	62	19913										
MME	4311	broad.mit.edu	37	chr3	154857994	154857994	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ccataggctacggctaaaccTgaagatcgaaatgatccaat	8	10	0	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr3:154857994T>C	uc010hvr.1	+	10	1081	c.870T>C	c.(868-870)CCT>CCC	p.P290P	MME_uc003fab.1_Silent_p.P290P|MME_uc003fac.1_Silent_p.P290P|MME_uc003fad.1_Silent_p.P290P|MME_uc003fae.1_Silent_p.P290P	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	290	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	CGGCTAAACCTGAAGATCGAA	0.308													3	36	---	---	---	---	PASS	C	154857994	C	C	154857994	2	2	53	1	0	0	0	0	0	0	0	1	9645	1567	55	5		5	MME	3	154857994	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	8933605	154857994	43164436	63	19914										
ZBBX	79740	broad.mit.edu	37	chr3	167035342	167035342	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agtggtttcatgtggatgtgGgaacgtatctggtagcattt	14	4	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr3:167035342G>T	uc003fep.2	-	13	1350	c.1027C>A	c.(1027-1029)CCA>ACA	p.P343T	ZBBX_uc011bpc.1_Missense_Mutation_p.P343T|ZBBX_uc003feq.2_Missense_Mutation_p.P314T	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	343						intracellular	zinc ion binding			ovary(2)	2						TGTGGATGTGGGAACGTATCT	0.338													15	72	---	---	---	---	PASS	T	167035342	T	T	167035342	3	4	53	1	0	0	0	0	1	0	0	0	17513	1232	43	3	1411	3	ZBBX	3	167035342	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	12177348	167035342	30987088	64	19915										
FNDC3B	64778	broad.mit.edu	37	chr3	172080476	172080476	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tggaccatttagtcagttcaTtaaagcaaaaactcggccat	7	9	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr3:172080476T>C	uc003fhy.2	+	23	3021	c.2849T>C	c.(2848-2850)ATT>ACT	p.I950T	FNDC3B_uc003fhz.3_Missense_Mutation_p.I950T	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	950	Fibronectin type-III 7.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		AGTCAGTTCATTAAAGCAAAA	0.433													36	49	---	---	---	---	PASS	C	172080476	C	C	172080476	3	2	53	1	0	0	0	0	1	0	0	0	5970	1493	52	5	2935	5	FNDC3B	3	172080476	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	5045134	172080476	25941954	65	19916										
EIF4G1	1981	broad.mit.edu	37	chr3	184043326	184043326	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gaccattgaccagatccataAggaggctgagatggaagaac	12	8	0	4			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr3:184043326A>G	uc003fnp.2	+	20	3218	c.3020A>G	c.(3019-3021)AAG>AGG	p.K1007R	EIF4G1_uc003fnt.2_Missense_Mutation_p.K718R|EIF4G1_uc003fnq.2_Missense_Mutation_p.K920R|EIF4G1_uc003fnr.2_Missense_Mutation_p.K843R|EIF4G1_uc010hxx.2_Missense_Mutation_p.K1014R|EIF4G1_uc003fns.2_Missense_Mutation_p.K967R|EIF4G1_uc010hxy.2_Missense_Mutation_p.K1014R|EIF4G1_uc003fnv.3_Missense_Mutation_p.K1008R|EIF4G1_uc003fnu.3_Missense_Mutation_p.K1007R|EIF4G1_uc003fnw.2_Missense_Mutation_p.K1014R|EIF4G1_uc003fnx.2_Missense_Mutation_p.K812R|EIF4G1_uc003fny.3_Missense_Mutation_p.K811R|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1007	eIF3/EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CAGATCCATAAGGAGGCTGAG	0.592													34	113	---	---	---	---	PASS	G	184043326	G	G	184043326	3	3	53	1	0	0	0	0	1	0	0	0	5036	72	3	5	3090	5	EIF4G1	3	184043326	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	11962850	184043326	13979104	66	19917										
BOD1L	259282	broad.mit.edu	37	chr4	13602759	13602759	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tttcatttgcattcatgatgGcagctccagcctcagcttcc	7	13	3	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:13602759G>A	uc003gmz.1	-	10	5882	c.5765C>T	c.(5764-5766)GCC>GTC	p.A1922V	BOD1L_uc010idr.1_Missense_Mutation_p.A1259V	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1922							DNA binding			ovary(5)|breast(1)	6						ATTCATGATGGCAGCTCCAGC	0.443													16	40	---	---	---	---	PASS	A	13602759	A	A	13602759	3	1	53	1	0	0	0	0	1	0	0	0	1483	1203	42	3	3458	3	BOD1L	4	13602759	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08		13602759	177551517	67	19918										
POLR2B	5431	broad.mit.edu	37	chr4	57897088	57897088	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tctttggtgcgaatgccttaCgcatgcaaactattgtttca	8	9	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:57897088C>G	uc003hcl.1	+	25	3502	c.3459C>G	c.(3457-3459)TAC>TAG	p.Y1153*	POLR2B_uc011cae.1_Nonsense_Mutation_p.Y1146*|POLR2B_uc011caf.1_Nonsense_Mutation_p.Y1078*|POLR2B_uc003hcm.1_Nonsense_Mutation_p.Y646*	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	1153					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					GAATGCCTTACGCATGCAAAC	0.353													12	59	---	---	---	---	PASS	G	57897088	G	G	57897088	4	3	53	1	0	0	0	0	0	1	0	0	12215	547	19	4	3557	4	POLR2B	4	57897088	Nonsense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	44294329	57897088	133257188	68	19919										
TMPRSS11F	389208	broad.mit.edu	37	chr4	68930480	68930480	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttatagatgagtctgggaggCaaactctctggactatattt	10	6	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:68930480C>A	uc003hdt.1	-	8	987	c.938G>T	c.(937-939)TGC>TTC	p.C313F	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron|SYT14L_uc010ihn.2_5'Flank	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	313	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						GTCTGGGAGGCAAACTCTCTG	0.378													3	45	---	---	---	---	PASS	A	68930480	A	A	68930480	3	1	53	1	0	0	0	0	1	0	0	0	16240	710	25	3	390	3	TMPRSS11F	4	68930480	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	11033392	68930480	122223796	69	19920										
ALB	213	broad.mit.edu	37	chr4	74270121	74270121	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gggtgtgtttcgtcgagatgCacgtaagaaatccatttttc	11	7	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:74270121C>G	uc003hgs.3	+	1	150	c.77C>G	c.(76-78)GCA>GGA	p.A26G	ALB_uc003hgw.3_Missense_Mutation_p.A26G|ALB_uc011cbe.1_5'UTR|ALB_uc003hgt.3_Missense_Mutation_p.A26G|ALB_uc010iii.2_Missense_Mutation_p.A26G|ALB_uc003hgu.3_5'UTR|ALB_uc003hgv.3_5'UTR|ALB_uc011cbf.1_5'Flank	NM_000477	NP_000468	P02768	ALBU_HUMAN	albumin preproprotein	26	Albumin 1.				bile acid and bile salt transport|bile acid metabolic process|cellular response to starvation|hemolysis by symbiont of host erythrocytes|lipoprotein metabolic process|maintenance of mitochondrion location|negative regulation of apoptosis|platelet activation|platelet degranulation|sodium-independent organic anion transport|transmembrane transport	extracellular space|platelet alpha granule lumen|protein complex	antioxidant activity|chaperone binding|copper ion binding|DNA binding|drug binding|fatty acid binding|pyridoxal phosphate binding|toxin binding			ovary(3)|skin(3)	6	Breast(15;0.00102)		Epithelial(6;4.8e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000263)|all cancers(17;0.000472)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Acenocoumarol(DB01418)|Acitretin(DB00459)|Alfentanil(DB00802)|Aluminium(DB01370)|Auranofin(DB00995)|Bismuth(DB01402)|Captopril(DB01197)|Carboplatin(DB00958)|Cefalotin(DB00456)|Cefazolin(DB01327)|Cefonicid(DB01328)|Cefoperazone(DB01329)|Chlorpheniramine(DB01114)|Chlorpromazine(DB00477)|Ciprofloxacin(DB00537)|Clonazepam(DB01068)|Cloxacillin(DB01147)|Cytarabine(DB00987)|Dantrolene(DB01219)|Diclofenac(DB00586)|Diflunisal(DB00861)|Digitoxin(DB01396)|Estrone(DB00655)|Ethacrynic acid(DB00903)|Etodolac(DB00749)|Flurbiprofen(DB00712)|Gadobenate Dimeglumine(DB00743)|Gatifloxacin(DB01044)|Gliclazide(DB01120)|Halothane(DB01159)|Human Serum Albumin(DB00062)|Hyaluronidase(DB00070)|Ibuprofen(DB01050)|Insulin-detemir(DB01307)|Insulin-glargine(DB01308)|Iodipamide(DB04711)|Ketoprofen(DB01009)|Levamisole(DB00848)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Mefenamic acid(DB00784)|Mephenytoin(DB00532)|Methotrexate(DB00563)|Nortriptyline(DB00540)|Oxazepam(DB00842)|Paclitaxel(DB01229)|Phenprocoumon(DB00946)|Probenecid(DB01032)|Propofol(DB00818)|Pyridoxine(DB00165)|Salicyclic acid(DB00936)|Saquinavir(DB01232)|Serum albumin(DB00096)|Serum albumin iodonated(DB00064)|Sodium lauryl sulfate(DB00815)|Sucralfate(DB00364)|Sulfamethizole(DB00576)|Sulindac(DB00605)|Suprofen(DB00870)|Testosterone(DB00624)|Xanthophyll(DB00137)	CGTCGAGATGCACGTAAGAAA	0.363													7	33	---	---	---	---	PASS	G	74270121	G	G	74270121	3	3	53	1	0	0	0	0	1	0	0	0	486	710	25	4	79	4	ALB	4	74270121	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	5339641	74270121	116884155	70	19921										
HPSE	10855	broad.mit.edu	37	chr4	84227463	84227463	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ggctgacaggcccaatttatCcagccacctgggacagagca	11	13	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:84227463C>G	uc003hoj.3	-	9	1198	c.1099G>C	c.(1099-1101)GAT>CAT	p.D367H	HPSE_uc010ika.2_Missense_Mutation_p.D309H|HPSE_uc011ccq.1_RNA|HPSE_uc011ccr.1_Intron|HPSE_uc011ccs.1_Missense_Mutation_p.D110H|HPSE_uc011cct.1_Intron|HPSE_uc003hok.3_Missense_Mutation_p.D367H	NM_001098540	NP_001092010	Q9Y251	HPSE_HUMAN	heparanase precursor	367				D->A: Strong decrease in heparanase activity.	carbohydrate metabolic process|cell adhesion|proteoglycan metabolic process	extracellular region|lysosomal membrane|nucleus	beta-glucuronidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.114)		COAD - Colon adenocarcinoma(81;0.141)	Heparin(DB01109)	CCCAATTTATCCAGCCACCTG	0.408													16	65	---	---	---	---	PASS	G	84227463	G	G	84227463	3	3	53	1	0	0	0	0	1	0	0	0	7344	855	30	2	548	2	HPSE	4	84227463	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	9957342	84227463	106926813	71	19922										
WDFY3	23001	broad.mit.edu	37	chr4	85638087	85638087	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tttatgaacttccttgatatCttcatatgcaaaaatgctgc	5	8	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:85638087C>A	uc003hpd.2	-	49	8245	c.7837G>T	c.(7837-7839)GAT>TAT	p.D2613Y	WDFY3_uc003hpe.1_Missense_Mutation_p.D224Y	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2613						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TCCTTGATATCTTCATATGCA	0.378													22	57	---	---	---	---	PASS	A	85638087	A	A	85638087	3	1	53	1	0	0	0	0	1	0	0	0	17267	913	32	2	2823	2	WDFY3	4	85638087	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	1410624	85638087	105516189	72	19923										
FAM13A	10144	broad.mit.edu	37	chr4	89679910	89679910	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	atcagacaaccctaccttccCagttcttttcatcacacaat	2	15	4	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:89679910C>A	uc003hse.1	-	14	1929	c.1721G>T	c.(1720-1722)TGG>TTG	p.W574L	FAM13A_uc003hsa.1_Missense_Mutation_p.W45L|FAM13A_uc003hsb.1_Missense_Mutation_p.W248L|FAM13A_uc003hsd.1_Missense_Mutation_p.W248L|FAM13A_uc003hsc.1_Missense_Mutation_p.W234L|FAM13A_uc011cdq.1_Missense_Mutation_p.W220L|FAM13A_uc003hsf.1_Missense_Mutation_p.W160L|FAM13A_uc003hsg.1_Missense_Mutation_p.W45L|FAM13A_uc010ikr.1_Missense_Mutation_p.W70L	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	574					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						CCTACCTTCCCAGTTCTTTTC	0.448													13	39	---	---	---	---	PASS	A	89679910	A	A	89679910	3	1	53	1	0	0	0	0	1	0	0	0	5452	595	21	3	1394	3	FAM13A	4	89679910	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	4041823	89679910	101474366	73	19924										
GRID2	2895	broad.mit.edu	37	chr4	94436380	94436380	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aatcaaggtctctccaggacCtttccaagcaaacagaaatc	6	12	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:94436380C>A	uc011cdt.1	+	13	2269	c.2011C>A	c.(2011-2013)CTT>ATT	p.L671I	GRID2_uc011cdu.1_Missense_Mutation_p.L576I	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	671	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	TCTCCAGGACCTTTCCAAGCA	0.418													5	10	---	---	---	---	PASS	A	94436380	A	A	94436380	3	1	53	1	0	0	0	0	1	0	0	0	6772	681	24	3	2061	3	GRID2	4	94436380	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	4756470	94436380	96717896	74	19925										
RAP1GDS1	5910	broad.mit.edu	37	chr4	99342542	99342542	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cttatacgacacagtaaatcAaaagtaagttccagaggaaa	7	7	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:99342542A>T	uc003htx.3	+	12	1627	c.1437A>T	c.(1435-1437)TCA>TCT	p.S479S	RAP1GDS1_uc003htw.3_Silent_p.S480S|RAP1GDS1_uc003htv.3_Silent_p.S479S|RAP1GDS1_uc003htz.3_Silent_p.S430S|RAP1GDS1_uc003hty.3_Silent_p.S431S|RAP1GDS1_uc003hua.3_Silent_p.S388S	NM_001100427	NP_001093897	P52306	GDS1_HUMAN	RAP1, GTP-GDP dissociation stimulator 1 isoform	479	ARM 5.						binding|GTPase activator activity			ovary(1)|lung(1)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;2.9e-07)|LUSC - Lung squamous cell carcinoma(1;0.0253)|Lung(1;0.0576)		ACAGTAAATCAAAAGTAAGTT	0.418			T	NUP98	T-ALL								3	22	---	---	---	---	PASS	T	99342542	T	T	99342542	2	4	53	1	0	0	0	0	0	0	0	1	13039	117	5	5		5	RAP1GDS1	4	99342542	Silent	SNP	A	TCGA-22-5492-01A-01D-1632-08	4906162	99342542	91811734	75	19926										
AIMP1	9255	broad.mit.edu	37	chr4	107252864	107252864	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aaaaacagcaatcaatagctGgaagtgccgactctaagcca	8	10	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:107252864G>C	uc011cfg.1	+	5	479	c.427G>C	c.(427-429)GGA>CGA	p.G143R	AIMP1_uc003hyg.2_Missense_Mutation_p.G143R|AIMP1_uc003hyh.2_Missense_Mutation_p.G167R	NM_001142415	NP_001135887	Q12904	AIMP1_HUMAN	small inducible cytokine subfamily E, member 1	143	Interaction with HSP90B1 (By similarity).|Required for endothelial cell migration.				angiogenesis|apoptosis|cell adhesion|cell-cell signaling|chemotaxis|glucose metabolic process|inflammatory response|leukocyte migration|negative regulation of endothelial cell proliferation|signal transduction|tRNA aminoacylation for protein translation	aminoacyl-tRNA synthetase multienzyme complex|cytosol|endoplasmic reticulum|extracellular space|Golgi apparatus|nucleus|transport vesicle	cell surface binding|cytokine activity|protein homodimerization activity|tRNA binding				0						ATCAATAGCTGGAAGTGCCGA	0.368													31	43	---	---	---	---	PASS	C	107252864	C	C	107252864	3	2	53	1	0	0	0	0	1	0	0	0	433	1349	47	4	517	4	AIMP1	4	107252864	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	7910322	107252864	83901412	76	19927										
INTU	27152	broad.mit.edu	37	chr4	128584544	128584544	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	taatttttaaaggtgaaactGacatttgaaaatgcatatga	7	3	0	4			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:128584544G>T	uc003ifk.1	+	4	847	c.777G>T	c.(775-777)CTG>CTT	p.L259L	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	259	PDZ.									ovary(1)	1						AGGTGAAACTGACATTTGAAA	0.393													3	10	---	---	---	---	PASS	T	128584544	T	T	128584544	2	4	53	1	0	0	0	0	0	0	0	1	7786	1277	45	2		2	INTU	4	128584544	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	21331680	128584544	62569732	77	19928										
CPE	1363	broad.mit.edu	37	chr4	166300542	166300542	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ccttcgagtaccaccgctacCccgagctgcgcgaggcgctc	11	18	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:166300542C>A	uc003irg.3	+	1	446	c.169C>A	c.(169-171)CCC>ACC	p.P57T		NM_001873	NP_001864	P16870	CBPE_HUMAN	carboxypeptidase E preproprotein	57					cardiac left ventricle morphogenesis|neuropeptide signaling pathway|protein modification process	extracellular region|nucleus|plasma membrane	metallocarboxypeptidase activity|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0962)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.137)	Glucagon recombinant(DB00040)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CCACCGCTACCCCGAGCTGCG	0.617													6	7	---	---	---	---	PASS	A	166300542	A	A	166300542	3	1	53	1	0	0	0	0	1	0	0	0	3799	623	22	3	171	3	CPE	4	166300542	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	37715998	166300542	24853734	78	19929										
ADAM29	11086	broad.mit.edu	37	chr4	175896968	175896968	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aggaccagccatttgtccagAataactgctactatcatggt	8	10	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:175896968A>T	uc003iuc.2	+	5	962	c.292A>T	c.(292-294)AAT>TAT	p.N98Y	ADAM29_uc003iud.2_Missense_Mutation_p.N98Y|ADAM29_uc010irr.2_Missense_Mutation_p.N98Y|ADAM29_uc011cki.1_Missense_Mutation_p.N98Y	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	98					proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		ATTTGTCCAGAATAACTGCTA	0.443													13	35	---	---	---	---	PASS	T	175896968	T	T	175896968	3	4	53	1	0	0	0	0	1	0	0	0	247	246	9	5	294	5	ADAM29	4	175896968	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	9596426	175896968	15257308	79	19930										
ODZ3	55714	broad.mit.edu	37	chr4	183714971	183714971	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gggaaggacccagctcctttTaacttgtacatgtttaggaa	10	8	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:183714971T>A	uc003ivd.1	+	25	7183	c.7146T>A	c.(7144-7146)TTT>TTA	p.F2382L		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2382	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CAGCTCCTTTTAACTTGTACA	0.413													10	18	---	---	---	---	PASS	A	183714971	A	A	183714971	3	1	53	1	0	0	0	0	1	0	0	0	10836	1751	61	5	7244	5	ODZ3	4	183714971	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	7818003	183714971	7439305	80	19931										
FAT1	2195	broad.mit.edu	37	chr4	187542483	187542483	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	attctcatcctgcaagtgaaCtagaaccgttgtattagtgg	9	8	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr4:187542483C>A	uc003izf.2	-	10	5445	c.5257G>T	c.(5257-5259)GTT>TTT	p.V1753F		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1753	Extracellular (Potential).|Cadherin 15.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TGCAAGTGAACTAGAACCGTT	0.423										HNSCC(5;0.00058)			14	48	---	---	---	---	PASS	A	187542483	A	A	187542483	3	1	53	1	0	0	0	0	1	0	0	0	5689	565	20	3	8581	3	FAT1	4	187542483	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	3827512	187542483	3611793	81	19932										
TRIP13	9319	broad.mit.edu	37	chr5	912047	912047	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ggctgacatcaagcagtacaTtgggccaccctctgcagcag	11	13	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:912047T>A	uc003jbr.2	+	10	1066	c.956T>A	c.(955-957)ATT>AAT	p.I319N		NM_004237	NP_004228	Q15645	PCH2_HUMAN	thyroid hormone receptor interactor 13	319					double-strand break repair|reciprocal meiotic recombination|synaptonemal complex assembly|transcription from RNA polymerase II promoter		ATP binding|identical protein binding|nucleoside-triphosphatase activity|transcription cofactor activity				0			Epithelial(17;0.00147)|OV - Ovarian serous cystadenocarcinoma(19;0.00271)|all cancers(22;0.00622)|Lung(60;0.165)			AAGCAGTACATTGGGCCACCC	0.458													21	121	---	---	---	---	PASS	A	912047	A	A	912047	3	1	53	1	0	0	0	0	1	0	0	0	16554	1493	52	5	998	5	TRIP13	5	912047	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08		912047	180003213	82	19933										
TERT	7015	broad.mit.edu	37	chr5	1254487	1254487	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctccacccacacttgcctgtCctgagtgaccccaggagtgg	10	16	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:1254487C>A	uc003jcb.1	-	15	3349	c.3291G>T	c.(3289-3291)AGG>AGT	p.R1097S	TERT_uc003jbz.1_Missense_Mutation_p.R293S|TERT_uc003jca.1_Missense_Mutation_p.R1085S|TERT_uc003jcc.1_Missense_Mutation_p.R1034S|TERT_uc003jcd.1_RNA|TERT_uc003jce.1_RNA	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	1097	CTE.				anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			ACTTGCCTGTCCTGAGTGACC	0.647									TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				12	78	---	---	---	---	PASS	A	1254487	A	A	1254487	3	1	53	1	0	0	0	0	1	0	0	0	15761	854	30	2	115	2	TERT	5	1254487	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	342440	1254487	179660773	83	19934										
ADAMTS16	170690	broad.mit.edu	37	chr5	5235235	5235235	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttccgtgctgctcagtgtgcCgagcacaacagcagacgatt	11	12	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:5235235C>T	uc003jdl.2	+	13	2097	c.1959C>T	c.(1957-1959)GCC>GCT	p.A653A	ADAMTS16_uc003jdk.1_Silent_p.A653A|ADAMTS16_uc010itk.1_RNA	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	653	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding	p.A653A(2)		ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CTCAGTGTGCCGAGCACAACA	0.522													14	70	---	---	---	---	PASS	T	5235235	T	T	5235235	2	4	53	1	0	0	0	0	0	0	0	1	261	639	23	1		1	ADAMTS16	5	5235235	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	3980748	5235235	175680025	84	19935										
DNAH5	1767	broad.mit.edu	37	chr5	13870880	13870880	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aatgatcattagttacctcaAtaggtcctacttgaaagtca	6	8	3	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:13870880A>G	uc003jfd.2	-	24	3872	c.3830T>C	c.(3829-3831)ATT>ACT	p.I1277T		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1277	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGTTACCTCAATAGGTCCTAC	0.368									Kartagener_syndrome				19	54	---	---	---	---	PASS	G	13870880	G	G	13870880	3	3	53	1	0	0	0	0	1	0	0	0	4604	101	4	5	10268	5	DNAH5	5	13870880	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	8635645	13870880	167044380	85	19936										
FAM105B	90268	broad.mit.edu	37	chr5	14693114	14693114	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cattgctgaggacgatcggcActataacatccccgtcagag	10	12	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:14693114A>T	uc003jfk.2	+	7	1168	c.1016A>T	c.(1015-1017)CAC>CTC	p.H339L		NM_138348	NP_612357	Q96BN8	F105B_HUMAN	hypothetical protein LOC90268	339										ovary(2)	2	Lung NSC(4;0.00696)					GACGATCGGCACTATAACATC	0.572													6	30	---	---	---	---	PASS	T	14693114	T	T	14693114	3	4	53	1	0	0	0	0	1	0	0	0	5388	159	6	5	1042	5	FAM105B	5	14693114	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	822234	14693114	166222146	86	19937										
CDH18	1016	broad.mit.edu	37	chr5	19544051	19544051	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agaacctttgtagtcctaatGgtcccagtattggcatcaat	8	9	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:19544051G>T	uc003jgc.2	-	8	1694	c.1317C>A	c.(1315-1317)ACC>ACA	p.T439T	CDH18_uc003jgd.2_Silent_p.T439T|CDH18_uc011cnm.1_Silent_p.T439T	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	439	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TAGTCCTAATGGTCCCAGTAT	0.348													17	86	---	---	---	---	PASS	T	19544051	T	T	19544051	2	4	53	1	0	0	0	0	0	0	0	1	3103	1335	47	3		3	CDH18	5	19544051	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	4850937	19544051	161371209	87	19938										
EGFLAM	133584	broad.mit.edu	37	chr5	38406999	38406999	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aaagcaagaagatgtctataTctaacccaaagaccatttct	5	9	3	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:38406999T>A	uc003jlc.1	+	8	1222	c.898T>A	c.(898-900)TCT>ACT	p.S300T	EGFLAM_uc003jlb.1_Missense_Mutation_p.S300T|EGFLAM_uc003jle.1_Missense_Mutation_p.S66T|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	300						cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					GATGTCTATATCTAACCCAAA	0.478													18	114	---	---	---	---	PASS	A	38406999	A	A	38406999	3	1	53	1	0	0	0	0	1	0	0	0	4966	1435	50	5	942	5	EGFLAM	5	38406999	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	18862948	38406999	142508261	88	19939										
PAIP1	10605	broad.mit.edu	37	chr5	43543192	43543192	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttacacaggcgagctcccatAtaagagaaatttgggataga	10	7	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:43543192A>G	uc003job.2	-	4	895	c.648T>C	c.(646-648)TAT>TAC	p.Y216Y	PAIP1_uc003joa.2_Silent_p.Y137Y|PAIP1_uc010ivp.2_Silent_p.Y137Y|PAIP1_uc010ivo.2_RNA|PAIP1_uc003joc.2_Silent_p.Y104Y	NM_006451	NP_006442	Q9H074	PAIP1_HUMAN	poly(A) binding protein interacting protein 1	216	MIF4G.				mRNA stabilization|nuclear-transcribed mRNA poly(A) tail shortening|translational initiation	cytosol	protein binding|RNA binding|translation activator activity			ovary(1)	1	Lung NSC(6;2.07e-05)					GAGCTCCCATATAAGAGAAAT	0.373													12	58	---	---	---	---	PASS	G	43543192	G	G	43543192	2	3	53	1	0	0	0	0	0	0	0	1	11396	456	16	5		5	PAIP1	5	43543192	Silent	SNP	A	TCGA-22-5492-01A-01D-1632-08	5136193	43543192	137372068	89	19940										
HCN1	348980	broad.mit.edu	37	chr5	45267348	45267348	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cgacgtcctttggtcagcagGcaaatctctataaaaacaaa	7	10	2	0	rs150863293	byFrequency	TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:45267348G>T	uc003jok.2	-	7	1651	c.1626C>A	c.(1624-1626)TGC>TGA	p.C542*		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	542	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TGGTCAGCAGGCAAATCTCTA	0.398													11	71	---	---	---	---	PASS	T	45267348	T	T	45267348	4	4	53	1	0	0	0	0	0	1	0	0	6996	1195	42	3	1054	3	HCN1	5	45267348	Nonsense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	1724156	45267348	135647912	90	19941										
IPO11	51194	broad.mit.edu	37	chr5	61923060	61923060	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	caaggcacagcaggagatgcTaggagaacaaggtttccagt	13	8	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:61923060T>C	uc003jtc.2	+	30	3033	c.2843T>C	c.(2842-2844)CTA>CCA	p.L948P	IPO11_uc011cqr.1_Missense_Mutation_p.L988P|IPO11_uc010iwr.2_3'UTR|IPO11_uc003jte.2_Missense_Mutation_p.L67P	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	948						cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		CAGGAGATGCTAGGAGAACAA	0.502													15	19	---	---	---	---	PASS	C	61923060	C	C	61923060	3	2	53	1	0	0	0	0	1	0	0	0	7793	1522	53	5	3081	5	IPO11	5	61923060	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	16655712	61923060	118992200	91	19942										
APC	324	broad.mit.edu	37	chr5	112154688	112154688	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aatggtgtattcattgttgtCaatgcttggtactcatgata	9	5	3	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:112154688C>G	uc010jby.2	+	10	1339	c.959C>G	c.(958-960)TCA>TGA	p.S320*	APC_uc011cvt.1_Nonsense_Mutation_p.S302*|APC_uc003kpz.3_Nonsense_Mutation_p.S320*|APC_uc003kpy.3_Nonsense_Mutation_p.S320*|APC_uc010jbz.2_Nonsense_Mutation_p.S37*|APC_uc010jca.2_5'Flank	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	320	Leu-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity			large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TCATTGTTGTCAATGCTTGGT	0.388		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			41	57	---	---	---	---	PASS	G	112154688	G	G	112154688	4	3	53	1	0	0	0	0	0	1	0	0	763	838	29	2	993	2	APC	5	112154688	Nonsense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	50231628	112154688	68760572	92	19943										
PCDH12	51294	broad.mit.edu	37	chr5	141329130	141329130	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcccttgcacttgggccatcTgtgtctgggattgcactcct	11	13	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:141329130T>G	uc003llx.2	-	3	4208	c.2997A>C	c.(2995-2997)ACA>ACC	p.T999T		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	999	Cytoplasmic (Potential).				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGGGCCATCTGTGTCTGGGA	0.502													48	33	---	---	---	---	PASS	G	141329130	G	G	141329130	2	3	53	1	0	0	0	0	0	0	0	1	11510	1567	55	5		5	PCDH12	5	141329130	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	29174442	141329130	39586130	93	19944										
GRM6	2916	broad.mit.edu	37	chr5	178413911	178413911	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctggcactgccattggtcgcCtggtactggaagatgtcgta	13	10	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr5:178413911C>A	uc003mjr.2	-	7	1607	c.1428G>T	c.(1426-1428)CAG>CAT	p.Q476H	GRM6_uc003mjq.2_5'Flank|GRM6_uc010jla.1_Missense_Mutation_p.Q59H|GRM6_uc003mjs.1_Missense_Mutation_p.Q96H	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	476	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		CATTGGTCGCCTGGTACTGGA	0.632													8	9	---	---	---	---	PASS	A	178413911	A	A	178413911	3	1	53	1	0	0	0	0	1	0	0	0	6801	680	24	3	1221	3	GRM6	5	178413911	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	37084781	178413911	2501349	94	19945										
HIST1H1E	3008	broad.mit.edu	37	chr6	26157147	26157147	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cgaaaagcccgaaaaaggcgAaagcagccaagccaaaaaag	10	10	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr6:26157147A>T	uc003ngq.2	+	1	589	c.529A>T	c.(529-531)AAA>TAA	p.K177*	HIST1H2BD_uc003ngr.2_5'Flank|HIST1H2BD_uc003ngs.2_5'Flank	NM_005321	NP_005312	P10412	H14_HUMAN	histone cluster 1, H1e	177					nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			large_intestine(1)|ovary(1)	2						GAAAAAGGCGAAAGCAGCCAA	0.582													6	13	---	---	---	---	PASS	T	26157147	T	T	26157147	4	4	53	1	0	0	0	0	0	1	0	0	7126	247	9	5	531	5	HIST1H1E	6	26157147	Nonsense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08		26157147	144957920	95	19946										
BTN1A1	696	broad.mit.edu	37	chr6	26507025	26507025	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttggagactatacaacgaaaGacccagagagaggaggaatg	13	6	0	4			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr6:26507025G>T	uc003nif.3	+	4	844	c.824G>T	c.(823-825)AGA>ATA	p.R275I		NM_001732	NP_001723	Q13410	BT1A1_HUMAN	butyrophilin, subfamily 1, member A1 precursor	275	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2						TACAACGAAAGACCCAGAGAG	0.488													39	106	---	---	---	---	PASS	T	26507025	T	T	26507025	3	4	53	1	0	0	0	0	1	0	0	0	1559	942	33	2	838	2	BTN1A1	6	26507025	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	349878	26507025	144608042	96	19947										
OR2B2	81697	broad.mit.edu	37	chr6	27879591	27879591	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgatccacttctttgtgaccAcacagtggcatcttaagtgt	8	10	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr6:27879591A>G	uc011dkw.1	-	1	507	c.507T>C	c.(505-507)TGT>TGC	p.C169C		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTTGTGACCACACAGTGGCA	0.473													19	51	---	---	---	---	PASS	G	27879591	G	G	27879591	2	3	53	1	0	0	0	0	0	0	0	1	10989	157	6	5		5	OR2B2	6	27879591	Silent	SNP	A	TCGA-22-5492-01A-01D-1632-08	1372566	27879591	143235476	97	19948										
ZNF193	7746	broad.mit.edu	37	chr6	28195519	28195519	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tctgtaaagagatggtgcctCtagcagagcagacaccactg	11	10	2	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr6:28195519C>T	uc003nkq.1	+	3	587	c.472C>T	c.(472-474)CTA>TTA	p.L158L	ZNF193_uc003nkr.1_Silent_p.L158L|ZNF193_uc010jqz.1_Silent_p.L158L	NM_006299	NP_006290	O15535	ZN193_HUMAN	zinc finger protein 193	158					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GATGGTGCCTCTAGCAGAGCA	0.483													7	17	---	---	---	---	PASS	T	28195519	T	T	28195519	2	4	53	1	0	0	0	0	0	0	0	1	17754	912	32	2		2	ZNF193	6	28195519	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	315928	28195519	142919548	98	19949										
MDC1	9656	broad.mit.edu	37	chr6	30672865	30672865	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tcaggggctatagggacagtTgattcagggttcttcacaga	13	7	4	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr6:30672865T>C	uc003nrg.3	-	10	4535	c.4095A>G	c.(4093-4095)TCA>TCG	p.S1365S	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Silent_p.S972S	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1365	Pro-rich.|Interaction with the PRKDC complex.				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TAGGGACAGTTGATTCAGGGT	0.537								Other_conserved_DNA_damage_response_genes					25	57	---	---	---	---	PASS	C	30672865	C	C	30672865	2	2	53	1	0	0	0	0	0	0	0	1	9403	1799	63	5		5	MDC1	6	30672865	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	2477346	30672865	140442202	99	19950										
MDGA1	266727	broad.mit.edu	37	chr6	37605156	37605156	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agctctcatcatctctgcaaCgccaagaggaagatggccat	9	12	3	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr6:37605156C>T	uc003onu.1	-	17	4035	c.2856G>A	c.(2854-2856)GCG>GCA	p.A952A	MDGA1_uc003onv.1_3'UTR	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	952					brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						ATCTCTGCAACGCCAAGAGGA	0.637													6	24	---	---	---	---	PASS	T	37605156	T	T	37605156	2	4	53	1	0	0	0	0	0	0	0	1	9406	523	19	1		1	MDGA1	6	37605156	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	6932291	37605156	133509911	100	19951										
TINAG	27283	broad.mit.edu	37	chr6	54216195	54216195	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgcaaaatggaccagttcaaGgtaagcttgaatgaaatacg	10	6	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr6:54216195G>T	uc003pcj.2	+	8	1272	c.1126G>T	c.(1126-1128)GCC>TCC	p.A376S	TINAG_uc010jzt.2_RNA	NM_014464	NP_055279	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	376					cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			ACCAGTTCAAGGTAAGCTTGA	0.294													5	8	---	---	---	---	PASS	T	54216195	T	T	54216195	3	4	53	1	0	0	0	0	1	0	0	0	15918	1014	35	3	1156	3	TINAG	6	54216195	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	16611039	54216195	116898872	101	19952										
LAMA2	3908	broad.mit.edu	37	chr6	129621881	129621881	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tccctcttataccggtgaagCttgtgaatgttctcatctgg	9	10	3	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr6:129621881C>G	uc003qbn.2	+	22	3143	c.3038C>G	c.(3037-3039)GCT>GGT	p.A1013G	LAMA2_uc003qbo.2_Missense_Mutation_p.A1013G	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1013	Laminin EGF-like 10.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		ACCGGTGAAGCTTGTGAATGT	0.378													15	37	---	---	---	---	PASS	G	129621881	G	G	129621881	3	3	53	1	0	0	0	0	1	0	0	0	8606	811	28	4	3124	4	LAMA2	6	129621881	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	75405686	129621881	41493186	102	19953										
EPB41L2	2037	broad.mit.edu	37	chr6	131225639	131225639	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agtcaattgagaaggatcagGaggataaaacttcacattaa	9	5	3	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr6:131225639G>T	uc003qch.2	-	6	1077	c.895C>A	c.(895-897)CCT>ACT	p.P299T	EPB41L2_uc003qcg.1_Missense_Mutation_p.P299T|EPB41L2_uc011eby.1_Missense_Mutation_p.P299T|EPB41L2_uc003qci.2_Missense_Mutation_p.P299T|EPB41L2_uc010kfk.2_Missense_Mutation_p.P299T|EPB41L2_uc010kfl.1_Missense_Mutation_p.P299T	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	299	FERM.				cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		GAAGGATCAGGAGGATAAAAC	0.343													15	12	---	---	---	---	PASS	T	131225639	T	T	131225639	3	4	53	1	0	0	0	0	1	0	0	0	5153	1174	41	2	2178	2	EPB41L2	6	131225639	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	1603758	131225639	39889428	103	19954										
KIAA1244	57221	broad.mit.edu	37	chr6	138640890	138640890	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	acctcctccttcctgtgatgTccgtttggctccgccggagc	10	16	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr6:138640890T>C	uc003qhu.2	+	28	4525	c.4525T>C	c.(4525-4527)TCC>CCC	p.S1509P		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1509	Helical; (Potential).				regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		TCCTGTGATGTCCGTTTGGCT	0.502													41	70	---	---	---	---	PASS	C	138640890	C	C	138640890	3	2	53	1	0	0	0	0	1	0	0	0	8217	1667	58	5	4635	5	KIAA1244	6	138640890	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	7415251	138640890	32474177	104	19955										
ECT2L	345930	broad.mit.edu	37	chr6	139135688	139135688	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	acctctggactaacaagcaaCgtcaagaattcttattcgca	6	11	3	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr6:139135688C>G	uc003qif.1	+	2	230	c.127C>G	c.(127-129)CGT>GGT	p.R43G	ECT2L_uc011edq.1_5'UTR	NM_001077706	NP_001071174	Q008S8	ECT2L_HUMAN	epithelial cell transforming sequence 2	43					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0						TAACAAGCAACGTCAAGAATT	0.363													6	13	---	---	---	---	PASS	G	139135688	G	G	139135688	3	3	53	1	0	0	0	0	1	0	0	0	4902	536	19	4	133	4	ECT2L	6	139135688	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	494798	139135688	31979379	105	19956										
FUCA2	2519	broad.mit.edu	37	chr6	143825251	143825251	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agagcggatgaaaccattcaAaaagggaatagtacagtcca	10	7	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr6:143825251A>T	uc003qjm.2	-	3	643	c.551T>A	c.(550-552)TTT>TAT	p.F184Y	FUCA2_uc003qjn.2_5'Flank	NM_032020	NP_114409	Q9BTY2	FUCO2_HUMAN	fucosidase, alpha-L- 2, plasma precursor	184					fucose metabolic process	extracellular region	alpha-L-fucosidase activity|cation binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;7.45e-06)|GBM - Glioblastoma multiforme(68;0.0142)		AAACCATTCAAAAAGGGAATA	0.448													19	32	---	---	---	---	PASS	T	143825251	T	T	143825251	3	4	53	1	0	0	0	0	1	0	0	0	6095	14	1	5	872	5	FUCA2	6	143825251	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	4689563	143825251	27289816	106	19957										
CCDC129	223075	broad.mit.edu	37	chr7	31682869	31682869	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcagtggattctgtcctcacAccaaccacagcttactcgta	7	14	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr7:31682869A>G	uc003tcj.1	+	11	2878	c.1885A>G	c.(1885-1887)ACC>GCC	p.T629A	CCDC129_uc011kad.1_Missense_Mutation_p.T639A|CCDC129_uc003tci.1_Missense_Mutation_p.T480A|CCDC129_uc011kae.1_Missense_Mutation_p.T655A|CCDC129_uc003tck.1_Missense_Mutation_p.T537A	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	629											0						CTGTCCTCACACCAACCACAG	0.463													16	18	---	---	---	---	PASS	G	31682869	G	G	31682869	3	3	53	1	0	0	0	0	1	0	0	0	2764	159	6	5	1923	5	CCDC129	7	31682869	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08		31682869	127455794	107	19958										
DPY19L1	23333	broad.mit.edu	37	chr7	35050131	35050131	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ccatcattagtccatttaaaAtaaaaattacagcaacataa	2	8	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr7:35050131A>G	uc003tem.3	-	6	639	c.494T>C	c.(493-495)ATT>ACT	p.I165T		NM_015283	NP_056098	Q2PZI1	D19L1_HUMAN	dpy-19-like 1	165	Helical; (Potential).					integral to membrane					0						TCCATTTAAAATAAAAATTAC	0.259													9	21	---	---	---	---	PASS	G	35050131	G	G	35050131	3	3	53	1	0	0	0	0	1	0	0	0	4740	101	4	5	1601	5	DPY19L1	7	35050131	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	3367262	35050131	124088532	108	19959										
GBAS	2631	broad.mit.edu	37	chr7	56066761	56066761	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	actgaagacctcgcccctccAgtaaagctgtagagtttcta	8	12	1	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr7:56066761A>T	uc003tre.1	+	10	865	c.857A>T	c.(856-858)CAG>CTG	p.Q286L	GBAS_uc003trf.1_Missense_Mutation_p.Q247L	NM_001483	NP_001474	O75323	NIPS2_HUMAN	nipsnap homolog 2	286						integral to plasma membrane|membrane fraction|mitochondrion	protein binding			central_nervous_system(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TCGCCCCTCCAGTAAAGCTGT	0.373													21	42	---	---	---	---	PASS	T	56066761	T	T	56066761	3	4	53	1	0	0	0	0	1	0	0	0	6269	188	7	5	895	5	GBAS	7	56066761	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	21016630	56066761	103071902	109	19960										
MLXIPL	51085	broad.mit.edu	37	chr7	73021342	73021342	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gtcatcttccctgctgggctTacggagctgcagggacacac	12	13	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr7:73021342T>A	uc003tyn.1	-	5	628	c.580A>T	c.(580-582)AAG>TAG	p.K194*	MLXIPL_uc003tyk.1_Nonsense_Mutation_p.K194*|MLXIPL_uc003tyl.1_Nonsense_Mutation_p.K194*|MLXIPL_uc003tym.1_Nonsense_Mutation_p.K194*|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_Intron|MLXIPL_uc003tyq.1_5'Flank	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	194					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				CTGCTGGGCTTACGGAGCTGC	0.592											OREG0018107	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	14	---	---	---	---	PASS	A	73021342	A	A	73021342	4	1	53	1	0	0	0	0	0	1	0	0	9637	1763	61	5	2030	5	MLXIPL	7	73021342	Nonsense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	16954581	73021342	86117321	110	19961										
HGF	3082	broad.mit.edu	37	chr7	81386580	81386580	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgatagatactgttcccttgTagctgcgtcctttaccaatg	8	10	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr7:81386580T>C	uc003uhl.2	-	4	572	c.407A>G	c.(406-408)TAC>TGC	p.Y136C	HGF_uc003uhm.2_Missense_Mutation_p.Y136C|HGF_uc003uhn.1_Missense_Mutation_p.Y136C|HGF_uc003uho.1_Missense_Mutation_p.Y136C|HGF_uc003uhp.2_Missense_Mutation_p.Y136C	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	136	Kringle 1.				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						TGTTCCCTTGTAGCTGCGTCC	0.368													7	27	---	---	---	---	PASS	C	81386580	C	C	81386580	3	2	53	1	0	0	0	0	1	0	0	0	7085	1638	57	5	1859	5	HGF	7	81386580	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	8365238	81386580	77752083	111	19962										
GRM3	2913	broad.mit.edu	37	chr7	86468464	86468464	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	atacctggctgatgagtttaCctgtatggattgtgggtctg	13	6	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr7:86468464C>G	uc003uid.2	+	4	2733	c.1634C>G	c.(1633-1635)ACC>AGC	p.T545S	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Missense_Mutation_p.T417S|GRM3_uc010leh.2_Missense_Mutation_p.T137S	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	545	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GATGAGTTTACCTGTATGGAT	0.527													32	138	---	---	---	---	PASS	G	86468464	G	G	86468464	3	3	53	1	0	0	0	0	1	0	0	0	6798	507	18	4	1644	4	GRM3	7	86468464	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	5081884	86468464	72670199	112	19963										
COL1A2	1278	broad.mit.edu	37	chr7	94052351	94052351	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tggtgaccaaggtccagttgGccgaactggagaagtaggtg	16	7	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr7:94052351G>T	uc003ung.1	+	40	2957	c.2486G>T	c.(2485-2487)GGC>GTC	p.G829V	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	829			Missing (in OI2A).		axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GGTCCAGTTGGCCGAACTGGA	0.567										HNSCC(75;0.22)			38	83	---	---	---	---	PASS	T	94052351	T	T	94052351	3	4	53	1	0	0	0	0	1	0	0	0	3678	1203	42	3	2644	3	COL1A2	7	94052351	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	7583887	94052351	65086312	113	19964										
HIPK2	28996	broad.mit.edu	37	chr7	139305195	139305195	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttaaaggtcatggtcaggttGgtggacgtgctgggggccac	17	7	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr7:139305195G>A	uc003vvf.3	-	7	1908	c.1734C>T	c.(1732-1734)ACC>ACT	p.T578T	HIPK2_uc003vvd.3_Silent_p.T578T	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	578	Interaction with SKI and SMAD1.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					TGGTCAGGTTGGTGGACGTGC	0.552													23	69	---	---	---	---	PASS	A	139305195	A	A	139305195	2	1	53	1	0	0	0	0	0	0	0	1	7117	1335	47	3		3	HIPK2	7	139305195	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	45252844	139305195	19833468	114	19965										
OR2F1	26211	broad.mit.edu	37	chr7	143657235	143657235	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tggacagccgactccacactCccatgtatttctttctcacc	5	16	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr7:143657235C>A	uc003wds.1	+	1	216	c.172C>A	c.(172-174)CCC>ACC	p.P58T		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					ACTCCACACTCCCATGTATTT	0.502													53	213	---	---	---	---	PASS	A	143657235	A	A	143657235	3	1	53	1	0	0	0	0	1	0	0	0	10996	855	30	2	174	2	OR2F1	7	143657235	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	4352040	143657235	15481428	115	19966										
CRYGN	155051	broad.mit.edu	37	chr7	151135212	151135212	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gattgaagcagacccaggctCcgctctccacgtggatggag	13	12	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr7:151135212C>A	uc003wke.2	-	2	236	c.140G>T	c.(139-141)GGA>GTA	p.G47V	CRYGN_uc003wkf.2_Missense_Mutation_p.G47V|CRYGN_uc003wkg.2_RNA|CRYGN_uc010lqd.1_5'Flank	NM_144727	NP_653328	Q8WXF5	CRGN_HUMAN	gammaN-crystallin	47	Beta/gamma crystallin 'Greek key' 2.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00358)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GACCCAGGCTCCGCTCTCCAC	0.592													15	30	---	---	---	---	PASS	A	151135212	A	A	151135212	3	1	53	1	0	0	0	0	1	0	0	0	3918	855	30	2	420	2	CRYGN	7	151135212	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	7477977	151135212	8003451	116	19967										
CLN8	2055	broad.mit.edu	37	chr8	1719295	1719295	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcatcctgggggatccgctcCacgctgatggtcgctggctt	14	13	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr8:1719295C>T	uc003wpo.3	+	2	380	c.75C>T	c.(73-75)TCC>TCT	p.S25S		NM_018941	NP_061764	Q9UBY8	CLN8_HUMAN	ceroid-lipofuscinosis, neuronal 8	25	Helical; (Potential).				cell death|ceramide biosynthetic process|cholesterol metabolic process|lipid transport|negative regulation of proteolysis|phospholipid metabolic process	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(12;0.0563)|Colorectal(14;0.0815)|Hepatocellular(245;0.0831)		BRCA - Breast invasive adenocarcinoma(11;7.67e-05)|READ - Rectum adenocarcinoma(644;0.0913)		GGATCCGCTCCACGCTGATGG	0.537													17	24	---	---	---	---	PASS	T	1719295	T	T	1719295	2	4	53	1	0	0	0	0	0	0	0	1	3546	581	21	3		3	CLN8	8	1719295	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08		1719295	144644727	117	19968										
PXDNL	137902	broad.mit.edu	37	chr8	52320767	52320767	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctacccctttgaatgatggtGgcagccgaatccacggccgc	11	14	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr8:52320767G>C	uc003xqu.3	-	17	3518	c.3417C>G	c.(3415-3417)GCC>GCG	p.A1139A	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1139					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GAATGATGGTGGCAGCCGAAT	0.517													17	77	---	---	---	---	PASS	C	52320767	C	C	52320767	2	2	53	1	0	0	0	0	0	0	0	1	12848	1335	47	4		4	PXDNL	8	52320767	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	50601472	52320767	94043255	118	19969										
ARFGEF1	10565	broad.mit.edu	37	chr8	68179410	68179410	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	actagtctttcaaatatattGgctgcatttaagtcacagtc	6	8	3	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr8:68179410G>T	uc003xxo.1	-	12	2118	c.1728C>A	c.(1726-1728)GCC>GCA	p.A576A	ARFGEF1_uc003xxl.1_Silent_p.A30A	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	576					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			CAAATATATTGGCTGCATTTA	0.313													17	52	---	---	---	---	PASS	T	68179410	T	T	68179410	2	4	53	1	0	0	0	0	0	0	0	1	852	1335	47	3		3	ARFGEF1	8	68179410	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	15858643	68179410	78184612	119	19970										
C8orf34	116328	broad.mit.edu	37	chr8	69552748	69552748	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tctgttcaaggtgtgccaggTaaaagacataataggtatag	11	5	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr8:69552748T>A	uc010lyz.2	+	8	1032	c.983_splice	c.e8+2	p.R328_splice	C8orf34_uc003xyb.2_Splice_Site_p.R303_splice	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328						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)			GTGTGCCAGGTAAAAGACATA	0.383													24	18	---	---	---	---	PASS	A	69552748	A	A	69552748	5	1	53	1	0	0	0	0	0	0	1	0	2422	1652	57	5	936	5	C8orf34	8	69552748	Splice_Site	SNP	T	TCGA-22-5492-01A-01D-1632-08	1373338	69552748	76811274	120	19971										
CRISPLD1	83690	broad.mit.edu	37	chr8	75927109	75927109	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctgttctgcttgcccacctaGttttggagggggctgtagag	14	9	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr8:75927109G>A	uc003yan.2	+	6	1064	c.689G>A	c.(688-690)AGT>AAT	p.S230N	CRISPLD1_uc011lfk.1_Missense_Mutation_p.S42N|CRISPLD1_uc011lfl.1_Missense_Mutation_p.S42N	NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	230						extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			TGCCCACCTAGTTTTGGAGGG	0.438													16	17	---	---	---	---	PASS	A	75927109	A	A	75927109	3	1	53	1	0	0	0	0	1	0	0	0	3882	1029	36	3	707	3	CRISPLD1	8	75927109	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	6374361	75927109	70436913	121	19972										
ZFHX4	79776	broad.mit.edu	37	chr8	77764469	77764469	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcctggcatgacaggaatggCtggctccttgcttgaagacc	13	11	0	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr8:77764469C>T	uc003yav.2	+	10	5564	c.5177C>T	c.(5176-5178)GCT>GTT	p.A1726V	ZFHX4_uc003yau.1_Missense_Mutation_p.A1771V|ZFHX4_uc003yaw.1_Missense_Mutation_p.A1726V	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1726	Gln-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACAGGAATGGCTGGCTCCTTG	0.433										HNSCC(33;0.089)			5	14	---	---	---	---	PASS	T	77764469	T	T	77764469	3	4	53	1	0	0	0	0	1	0	0	0	17632	797	28	3	5346	3	ZFHX4	8	77764469	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	1837360	77764469	68599553	122	19973										
MATN2	4147	broad.mit.edu	37	chr8	98943591	98943591	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ccgaggtggctgctaaggcaCgggacacgggcatcctaatc	14	12	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr8:98943591C>T	uc003yic.2	+	3	784	c.553C>T	c.(553-555)CGG>TGG	p.R185W	MATN2_uc003yib.1_Missense_Mutation_p.R185W|MATN2_uc010mbh.1_Missense_Mutation_p.R185W|MATN2_uc003yid.2_Missense_Mutation_p.R185W|MATN2_uc003yie.1_Missense_Mutation_p.R185W|MATN2_uc010mbi.1_Missense_Mutation_p.R59W	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	185	VWFA 1.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			TGCTAAGGCACGGGACACGGG	0.587													14	21	---	---	---	---	PASS	T	98943591	T	T	98943591	3	4	53	1	0	0	0	0	1	0	0	0	9334	527	19	1	559	1	MATN2	8	98943591	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	21179122	98943591	47420431	123	19974										
FBXO43	286151	broad.mit.edu	37	chr8	101146070	101146070	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcttactctgggcacttcctGggagagcatcttttctattt	9	10	3	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr8:101146070G>A	uc003yjd.2	-	5	2800	c.2087C>T	c.(2086-2088)CCA>CTA	p.P696L	FBXO43_uc003yje.2_Missense_Mutation_p.P662L	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	696					meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			GGCACTTCCTGGGAGAGCATC	0.398													14	63	---	---	---	---	PASS	A	101146070	A	A	101146070	3	1	53	1	0	0	0	0	1	0	0	0	5752	1348	47	3	43	3	FBXO43	8	101146070	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	2202479	101146070	45217952	124	19975										
RIMS2	9699	broad.mit.edu	37	chr8	104898414	104898414	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cctgaatatacaagttgtgaTgatgttgagattgaaagtga	11	3	0	6			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr8:104898414T>C	uc003yls.2	+	2	1162	c.921T>C	c.(919-921)GAT>GAC	p.D307D	RIMS2_uc003ylp.2_Silent_p.D529D|RIMS2_uc003ylw.2_Silent_p.D337D|RIMS2_uc003ylq.2_Silent_p.D337D|RIMS2_uc003ylr.2_Silent_p.D337D	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	560					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CAAGTTGTGATGATGTTGAGA	0.363										HNSCC(12;0.0054)			9	36	---	---	---	---	PASS	C	104898414	C	C	104898414	2	2	53	1	0	0	0	0	0	0	0	1	13368	1461	51	5		5	RIMS2	8	104898414	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	3752344	104898414	41465608	125	19976										
MED30	90390	broad.mit.edu	37	chr8	118533160	118533160	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tcggggatggcgcccgggccCttcgccgggccccaggctca	16	17	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr8:118533160C>G	uc003yoj.2	+	1	196	c.45C>G	c.(43-45)CCC>CCG	p.P15P	MED30_uc011lib.1_Silent_p.P15P	NM_080651	NP_542382	Q96HR3	MED30_HUMAN	TRAP/Mediator complex component TRAP25	15					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding				0	all_cancers(13;3.41e-25)|Lung NSC(37;3.02e-05)|Ovarian(258;0.00163)		STAD - Stomach adenocarcinoma(47;0.0266)			CGCCCGGGCCCTTCGCCGGGC	0.716													14	11	---	---	---	---	PASS	G	118533160	G	G	118533160	2	3	53	1	0	0	0	0	0	0	0	1	9448	668	24	4		4	MED30	8	118533160	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	13634746	118533160	27830862	126	19977										
FAM135B	51059	broad.mit.edu	37	chr8	139160838	139160838	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctcttcctctggtgggaaatAtggtatatcagaagctagta	10	7	3	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr8:139160838A>T	uc003yuy.2	-	14	3544	c.3373T>A	c.(3373-3375)TAT>AAT	p.Y1125N	FAM135B_uc003yux.2_Missense_Mutation_p.Y1026N|FAM135B_uc003yuz.2_Intron|FAM135B_uc003yva.2_Missense_Mutation_p.Y687N|FAM135B_uc003yvb.2_Intron	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1125										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)			GGTGGGAAATATGGTATATCA	0.373										HNSCC(54;0.14)			16	13	---	---	---	---	PASS	T	139160838	T	T	139160838	3	4	53	1	0	0	0	0	1	0	0	0	5449	449	16	5	875	5	FAM135B	8	139160838	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	20627678	139160838	7203184	127	19978										
PTPRD	5789	broad.mit.edu	37	chr9	8527348	8527348	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cagaactaagcacttaccaaTagattctggagatttaaata	6	7	1	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr9:8527348T>G	uc003zkk.2	-	15	1258	c.547A>C	c.(547-549)ATT>CTT	p.I183L	PTPRD_uc003zkp.2_Missense_Mutation_p.I183L|PTPRD_uc003zkq.2_Missense_Mutation_p.I183L|PTPRD_uc003zkr.2_Missense_Mutation_p.I183L|PTPRD_uc003zks.2_Missense_Mutation_p.I183L|PTPRD_uc003zkl.2_Missense_Mutation_p.I183L|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Missense_Mutation_p.I183L|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	183	Extracellular (Potential).|Ig-like C2-type 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CACTTACCAATAGATTCTGGA	0.284										TSP Lung(15;0.13)			11	22	---	---	---	---	PASS	G	8527348	G	G	8527348	3	3	53	1	0	0	0	0	1	0	0	0	12799	1406	49	5	5383	5	PTPRD	9	8527348	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08		8527348	132686083	128	19979										
IFNA4	3441	broad.mit.edu	37	chr9	21187362	21187362	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctcggggaatccgaaatcatGtctgtccttcaggcaggaga	12	10	3	1	rs144166492	byFrequency	TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr9:21187362G>T	uc003zon.2	-	1	237	c.169C>A	c.(169-171)CAT>AAT	p.H57N		NM_021068	NP_066546	P05014	IFNA4_HUMAN	interferon, alpha 4 precursor	57					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(5;2.69e-202)|Lung(24;2.26e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		CCGAAATCATGTCTGTCCTTC	0.517													19	78	---	---	---	---	PASS	T	21187362	T	T	21187362	3	4	53	1	0	0	0	0	1	0	0	0	7539	1377	48	3	404	3	IFNA4	9	21187362	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	12660014	21187362	120026069	129	19980										
CDKN2A	1029	broad.mit.edu	37	chr9	21974695	21974696	+	Frame_Shift_Ins	INS	-	T	T													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cctggatcggcctccgaccgINStaactattcggtgcgttggg							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr9:21974695_21974696insT	uc003zpk.2	-	1	343_344	c.131_132insA	c.(130-132)TACfs	p.Y44fs	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_Frame_Shift_Ins_p.Y44fs|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Intron	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	44	ANK 2.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(25)|p.Y44*(3)|p.Y44fs*1(1)|p.Y44fs*76(1)|p.V28_V51del(1)|p.G45del(1)|p.Y44S(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		GCCTCCGACCGTAACTATTCGG	0.683		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			68	62	---	---	---	---		T	21974696	T	T	21974695	7	5	53	1	0	1	1	0	0	0	0	0	3161	1140	40	0	551	0	CDKN2A	9	21974695	Frame_Shift_Ins	INS	-	TCGA-22-5492-01A-01D-1632-08	787333	21974695	119238736	130	19981										
POLR1E	64425	broad.mit.edu	37	chr9	37495219	37495219	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aagatgactccctctaccttCctccctgctatgatgatgca	6	14	1	4			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr9:37495219C>T	uc003zzz.1	+	6	1075	c.787C>T	c.(787-789)CCT>TCT	p.P263S	POLR1E_uc011lqj.1_Silent_p.F140F|POLR1E_uc003zzy.1_Missense_Mutation_p.P201S|POLR1E_uc011lqk.1_Missense_Mutation_p.P130S	NM_022490	NP_071935	Q9GZS1	RPA49_HUMAN	RNA polymerase I associated factor 53	263					rRNA transcription	cell junction|cytoplasm|nucleolus	DNA binding|DNA-directed RNA polymerase activity|protein binding				0				GBM - Glioblastoma multiforme(29;0.00851)|Lung(182;0.229)		CCTCTACCTTCCTCCCTGCTA	0.423													34	65	---	---	---	---	PASS	T	37495219	T	T	37495219	3	4	53	1	0	0	0	0	1	0	0	0	12213	855	30	2	627	2	POLR1E	9	37495219	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	15520524	37495219	103718212	131	19982										
OR13D1	286365	broad.mit.edu	37	chr9	107456872	107456872	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ccaatatccagagctccagcTttttctgttcctgctctgcc	6	15	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr9:107456872T>G	uc011lvs.1	+	1	170	c.170T>G	c.(169-171)CTT>CGT	p.L57R		NM_001004484	NP_001004484	Q8NGV5	O13D1_HUMAN	olfactory receptor, family 13, subfamily D,	57	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GAGCTCCAGCTTTTTCTGTTC	0.478													31	76	---	---	---	---	PASS	G	107456872	G	G	107456872	3	3	53	1	0	0	0	0	1	0	0	0	10940	1609	56	5	172	5	OR13D1	9	107456872	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	69961653	107456872	33756559	132	19983										
MUSK	4593	broad.mit.edu	37	chr9	113547908	113547908	+	Missense_Mutation	SNP	C	A	A													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gatgccgctccttctgaaccCcaaattgctcagcctggagt							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr9:113547908C>A	uc004bey.2	+	12	1786	c.1688C>A	c.(1687-1689)CCC>CAC	p.P563H	MUSK_uc004bez.1_Missense_Mutation_p.P143H	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	563	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						CTTCTGAACCCCAAATTGCTC	0.483													9	59	---	---	---	---	PASS	A	113547908	A	A	113547908	3	1	53	1	0	0	0	0	1	0	0	0	9989	623	22	3	1770	3	MUSK	9	113547908	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	6091036	113547908	27665523	133	19984	446	3								
MUSK	4593	broad.mit.edu	37	chr9	113547909	113547909	+	Silent	SNP	C	A	A													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	atgccgctccttctgaacccCaaattgctcagcctggagta							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr9:113547909C>A	uc004bey.2	+	12	1787	c.1689C>A	c.(1687-1689)CCC>CCA	p.P563P	MUSK_uc004bez.1_Silent_p.P143P	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	563	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						TTCTGAACCCCAAATTGCTCA	0.483													10	59	---	---	---	---	PASS	A	113547909	A	A	113547909	2	1	53	1	0	0	0	0	0	0	0	1	9989	581	21	3		3	MUSK	9	113547909	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	1	113547909	27665522	134	19985	446	3								
MUSK	4593	broad.mit.edu	37	chr9	113547910	113547910	+	Nonsense_Mutation	SNP	A	T	T													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgccgctccttctgaaccccAaattgctcagcctggagtat							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr9:113547910A>T	uc004bey.2	+	12	1788	c.1690A>T	c.(1690-1692)AAA>TAA	p.K564*	MUSK_uc004bez.1_Nonsense_Mutation_p.K144*	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	564	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						TCTGAACCCCAAATTGCTCAG	0.483													10	60	---	---	---	---	PASS	T	113547910	T	T	113547910	4	4	53	1	0	0	0	0	0	1	0	0	9989	131	5	5	1772	5	MUSK	9	113547910	Nonsense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	1	113547910	27665521	135	19986	446	3								
ZFP37	7539	broad.mit.edu	37	chr9	115805911	115805911	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aggtgtgacttttggctaaaGgctatcccacattcattaca	8	9	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr9:115805911G>T	uc004bgm.1	-	4	1015	c.987C>A	c.(985-987)GCC>GCA	p.A329A	ZFP37_uc011lwz.1_Silent_p.A344A|ZFP37_uc011lxa.1_Silent_p.A330A	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	329	C2H2-type 2.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TTTGGCTAAAGGCTATCCCAC	0.413													34	77	---	---	---	---	PASS	T	115805911	T	T	115805911	2	4	53	1	0	0	0	0	0	0	0	1	17645	987	35	3		3	ZFP37	9	115805911	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	2258001	115805911	25407520	136	19987										
NOTCH1	4851	broad.mit.edu	37	chr9	139396757	139396757	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agtcctcgccgaggggctccCgccgcttcttcttgctggcc	12	17	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr9:139396757C>A	uc004chz.2	-	28	5351	c.5351G>T	c.(5350-5352)CGG>CTG	p.R1784L		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1784	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.K1783_R1784ins31(2)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GAGGGGCTCCCGCCGCTTCTT	0.701			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			11	14	---	---	---	---	PASS	A	139396757	A	A	139396757	3	1	53	1	0	0	0	0	1	0	0	0	10547	652	23	1	2344	1	NOTCH1	9	139396757	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	23590846	139396757	1816674	137	19988										
TAF3	83860	broad.mit.edu	37	chr10	8007226	8007226	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aatttcttaaagaggaagagGcagatccctacaagtttaaa	8	6	1	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr10:8007226G>T	uc010qbd.1	+	3	1753	c.1753G>T	c.(1753-1755)GCA>TCA	p.A585S		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	585	Lys-rich.				maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						AGAGGAAGAGGCAGATCCCTA	0.284													10	35	---	---	---	---	PASS	T	8007226	T	T	8007226	3	4	53	1	0	0	0	0	1	0	0	0	15522	1203	42	3	1763	3	TAF3	10	8007226	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08		8007226	127527521	138	19989										
PRKG1	5592	broad.mit.edu	37	chr10	53227593	53227593	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gtacccggacagcgaccgtcAagagtaagactattttcata	9	10	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr10:53227593A>G	uc001jjm.2	+	3	738	c.544A>G	c.(544-546)AAG>GAG	p.K182E	PRKG1_uc001jjn.2_Missense_Mutation_p.K197E|PRKG1_uc001jjo.2_Missense_Mutation_p.K197E|PRKG1_uc010qhp.1_Missense_Mutation_p.K182E	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	182	cGMP 1.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		AGCGACCGTCAAGAGTAAGAC	0.358													8	37	---	---	---	---	PASS	G	53227593	G	G	53227593	3	3	53	1	0	0	0	0	1	0	0	0	12522	131	5	5	869	5	PRKG1	10	53227593	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	45220367	53227593	82307154	139	19990										
TFAM	7019	broad.mit.edu	37	chr10	60147948	60147948	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttctttttatttcattccatAgatgcaaaaactacagaact	3	8	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr10:60147948A>G	uc001jkf.2	+	3	353	c.221_splice	c.e3-2	p.D74_splice	TFAM_uc001jkg.2_Splice_Site|TFAM_uc001jkh.2_Splice_Site_p.D74_splice	NM_003201	NP_003192	Q00059	TFAM_HUMAN	transcription factor A, mitochondrial precursor						DNA-dependent DNA replication|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase I promoter|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	mitochondrial light strand promoter sense binding|protein binding|sequence-specific DNA binding transcription factor activity				0						TTCATTCCATAGATGCAAAAA	0.338													12	20	---	---	---	---	PASS	G	60147948	G	G	60147948	5	3	53	1	0	0	0	0	0	0	1	0	15783	434	15	5	229	5	TFAM	10	60147948	Splice_Site	SNP	A	TCGA-22-5492-01A-01D-1632-08	6920355	60147948	75386799	140	19991										
SFTPA1	653509	broad.mit.edu	37	chr10	81373017	81373017	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	acatcaaatcctgcagacaaGgggaggtaaggggaccccct	12	11	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr10:81373017G>A	uc001kap.2	+	5	486	c.365G>A	c.(364-366)AGG>AAG	p.R122K	SFTPA1_uc001kaq.2_Missense_Mutation_p.R122K|SFTPA1_uc009xry.2_Missense_Mutation_p.R137K|SFTPA1_uc001kar.2_Missense_Mutation_p.R122K|SFTPA1_uc010qlt.1_Missense_Mutation_p.R63K|SFTPA1_uc009xrz.2_Missense_Mutation_p.R52K|SFTPA1_uc009xsa.2_Missense_Mutation_p.R122K|SFTPA1_uc009xsf.2_5'Flank	NM_005411	NP_005402	Q8IWL2	SFTA1_HUMAN	surfactant protein A1 isoform 1	122					cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	lipid transporter activity|sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			CTGCAGACAAGGGGAGGTAAG	0.532													22	84	---	---	---	---	PASS	A	81373017	A	A	81373017	3	1	53	1	0	0	0	0	1	0	0	0	14189	1000	35	3	424	3	SFTPA1	10	81373017	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	21225069	81373017	54161730	141	19992										
ANXA11	311	broad.mit.edu	37	chr10	81928934	81928934	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgggtatggcggatatgaggGcatcctggagggtgggtttc	19	5	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr10:81928934G>C	uc001kbq.1	-	6	1177	c.352C>G	c.(352-354)CCC>GCC	p.P118A	ANXA11_uc010qlx.1_Missense_Mutation_p.P218A|ANXA11_uc001kbr.1_Missense_Mutation_p.P118A|ANXA11_uc001kbs.1_Missense_Mutation_p.P118A|ANXA11_uc001kbt.1_Missense_Mutation_p.P118A|ANXA11_uc010qly.1_Missense_Mutation_p.P85A|ANXA11_uc009xsq.1_Missense_Mutation_p.P118A|ANXA11_uc001kbu.1_Missense_Mutation_p.P118A	NM_145869	NP_665876	P50995	ANX11_HUMAN	annexin A11	118					cell cycle|cytokinesis, completion of separation|phagocytosis|response to calcium ion	azurophil granule|melanosome|midbody|nuclear envelope|nucleoplasm|phagocytic vesicle|specific granule|spindle	calcium-dependent phospholipid binding|calcium-dependent protein binding|S100 alpha binding			ovary(1)	1	Prostate(51;0.00985)|all_epithelial(25;0.0951)		Colorectal(32;0.109)			GGATATGAGGGCATCCTGGAG	0.697													2	5	---	---	---	---	PASS	C	81928934	C	C	81928934	3	2	53	1	0	0	0	0	1	0	0	0	716	1203	42	4	1213	4	ANXA11	10	81928934	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	555917	81928934	53605813	142	19993										
PKD2L1	9033	broad.mit.edu	37	chr10	102052704	102052704	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gctgggtctctggttgctcaCtcccttaaggtgttggtgaa	13	9	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr10:102052704C>G	uc001kqx.1	-	11	2263	c.1880_splice	c.e11+1	p.E627_splice	PKD2L1_uc009xwm.1_Splice_Site_p.E580_splice	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1						signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		TGGTTGCTCACTCCCTTAAGG	0.488													10	38	---	---	---	---	PASS	G	102052704	G	G	102052704	5	3	53	1	0	0	0	0	0	0	1	0	11967	579	20	4	560	4	PKD2L1	10	102052704	Splice_Site	SNP	C	TCGA-22-5492-01A-01D-1632-08	20123770	102052704	33482043	143	19994										
DUSP5	1847	broad.mit.edu	37	chr10	112258016	112258016	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcgcggctcgctcaacgtcaAcctcaactcggtggtgctgc	12	15	3	0	rs149325838		TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr10:112258016A>T	uc001kzd.2	+	1	392	c.137A>T	c.(136-138)AAC>ATC	p.N46I		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	46	Rhodanese.				endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		CTCAACGTCAACCTCAACTCG	0.632													6	23	---	---	---	---	PASS	T	112258016	T	T	112258016	3	4	53	1	0	0	0	0	1	0	0	0	4828	43	2	5	139	5	DUSP5	10	112258016	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	10205312	112258016	23276731	144	19995										
PWWP2B	170394	broad.mit.edu	37	chr10	134218192	134218192	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ggtcgatgagtcccctgtcaAcgacagccatggccgggctc	13	14	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr10:134218192A>G	uc001lll.3	+	2	217	c.188A>G	c.(187-189)AAC>AGC	p.N63S	PWWP2B_uc009ybe.2_Missense_Mutation_p.N63S	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	63											0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		TCCCCTGTCAACGACAGCCAT	0.677													28	88	---	---	---	---	PASS	G	134218192	G	G	134218192	3	3	53	1	0	0	0	0	1	0	0	0	12846	43	2	5	194	5	PWWP2B	10	134218192	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	21960176	134218192	1316555	145	19996										
GPR123	84435	broad.mit.edu	37	chr10	134912164	134912164	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cgccatccgcatcagccgcaAgggccggcacacgctcctga	11	18	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr10:134912164A>G	uc001llx.3	+	4	588	c.152A>G	c.(151-153)AAG>AGG	p.K51R	GPR123_uc001llw.2_Missense_Mutation_p.K771R	NM_001083909	NP_001077378	Q86SQ6	GP123_HUMAN	G protein-coupled receptor 123	51	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		ATCAGCCGCAAGGGCCGGCAC	0.652													17	32	---	---	---	---	PASS	G	134912164	G	G	134912164	3	3	53	1	0	0	0	0	1	0	0	0	6637	72	3	5	162	5	GPR123	10	134912164	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	693972	134912164	622583	146	19997										
PAOX	196743	broad.mit.edu	37	chr10	135193889	135193889	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tcctgaactccttcttcaacCtggaatgctgtgtgagcggc	10	12	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr10:135193889C>G	uc001lmv.2	+	2	648	c.568C>G	c.(568-570)CTG>GTG	p.L190V	PAOX_uc001lmw.2_Intron|PAOX_uc001lmx.2_Missense_Mutation_p.L190V|PAOX_uc001lmy.2_Missense_Mutation_p.L190V|PAOX_uc001lmz.2_RNA|PAOX_uc001lna.2_Intron|PAOX_uc001lnb.2_RNA|PAOX_uc001lnc.2_Intron	NM_152911	NP_690875	Q6QHF9	PAOX_HUMAN	polyamine oxidase isoform 1	328					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		CTTCTTCAACCTGGAATGCTG	0.597													7	28	---	---	---	---	PASS	G	135193889	G	G	135193889	3	3	53	1	0	0	0	0	1	0	0	0	11423	680	24	4	574	4	PAOX	10	135193889	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	281725	135193889	340858	147	19998										
SYCE1	93426	broad.mit.edu	37	chr10	135369308	135369308	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tggctgcagcctcctggctgCggagaaagagtccctcatca	12	13	2	2	rs150742469		TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr10:135369308C>T	uc001lno.2	-	10	800	c.695G>A	c.(694-696)CGC>CAC	p.R232H	CYP2E1_uc001lnl.1_3'UTR|SYCE1_uc001lnm.2_Missense_Mutation_p.R104H|SYCE1_uc009ybn.2_Missense_Mutation_p.R232H|SYCE1_uc001lnn.2_Missense_Mutation_p.R196H	NM_001143764	NP_001137236	Q8N0S2	SYCE1_HUMAN	synaptonemal complex central element protein 1	232	Potential.				cell division	central element				ovary(1)	1		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		CTCCTGGCTGCGGAGAAAGAG	0.642													14	19	---	---	---	---	PASS	T	135369308	T	T	135369308	3	4	53	1	0	0	0	0	1	0	0	0	15425	768	27	1	419	1	SYCE1	10	135369308	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	175419	135369308	165439	148	19999										
MUC5B	727897	broad.mit.edu	37	chr11	1267408	1267408	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	caatccacccctcctccactCcggagaccacccacacctcc	3	24	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:1267408C>A	uc009ycr.1	+	49	11173	c.11047C>A	c.(11047-11049)CCG>ACG	p.P3683T	MUC5B_uc001ltb.2_Missense_Mutation_p.P3103T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3100	7 X Cys-rich subdomain repeats.|Thr-rich.|17 X approximate tandem repeats, Ser/Thr- rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTCCTCCACTCCGGAGACCAC	0.642													12	31	---	---	---	---	PASS	A	1267408	A	A	1267408	3	1	53	1	0	0	0	0	1	0	0	0	9979	855	30	2	9429	2	MUC5B	11	1267408	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08		1267408	133739108	149	20000										
OR51Q1	390061	broad.mit.edu	37	chr11	5443646	5443646	+	Missense_Mutation	SNP	C	A	A													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tccatgctggccctgacggaCctgggtctcaccctcaccac							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:5443646C>A	uc010qzd.1	+	1	216	c.216C>A	c.(214-216)GAC>GAA	p.D72E	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	72	Helical; Name=2; (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;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCCTGACGGACCTGGGTCTCA	0.532													29	63	---	---	---	---	PASS	A	5443646	A	A	5443646	3	1	53	1	0	0	0	0	1	0	0	0	11104	506	18	3	218	3	OR51Q1	11	5443646	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	4176238	5443646	129562870	150	20001	447	2								
OR51Q1	390061	broad.mit.edu	37	chr11	5443647	5443647	+	Missense_Mutation	SNP	C	A	A													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ccatgctggccctgacggacCtgggtctcaccctcaccacc							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:5443647C>A	uc010qzd.1	+	1	217	c.217C>A	c.(217-219)CTG>ATG	p.L73M	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	73	Helical; Name=2; (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;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCTGACGGACCTGGGTCTCAC	0.532													29	63	---	---	---	---	PASS	A	5443647	A	A	5443647	3	1	53	1	0	0	0	0	1	0	0	0	11104	680	24	3	219	3	OR51Q1	11	5443647	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	1	5443647	129562869	151	20002	447	2								
TRIM6	117854	broad.mit.edu	37	chr11	5632516	5632516	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttcccactactctttgtccaTattttaatccttgcaactgt	3	12	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:5632516T>C	uc001mbc.1	+	8	1543	c.1411T>C	c.(1411-1413)TAT>CAT	p.Y471H	HBG2_uc001mak.1_Intron|TRIM6-TRIM34_uc001mbf.2_Intron|TRIM6_uc009yeo.1_Missense_Mutation_p.Y445H|TRIM6_uc010qzj.1_Missense_Mutation_p.Y296H|TRIM6_uc001mbe.2_Missense_Mutation_p.Y296H|TRIM6_uc010qzk.1_Missense_Mutation_p.Y296H|TRIM6_uc010qzl.1_Missense_Mutation_p.Y296H|TRIM6_uc001mbd.2_Missense_Mutation_p.Y499H|TRIM6_uc001mbg.1_Missense_Mutation_p.Y296H|TRIM6_uc009yep.1_3'UTR	NM_058166	NP_477514	Q9C030	TRIM6_HUMAN	tripartite motif-containing 6 isoform 2	471	B30.2/SPRY.				protein trimerization	cytoplasm	zinc ion binding				0		Lung NSC(207;2.23e-07)|all_lung(207;1.81e-06)|Medulloblastoma(188;0.00225)|Breast(177;0.0101)|all_neural(188;0.0212)		Epithelial(150;1.12e-45)|BRCA - Breast invasive adenocarcinoma(625;0.00101)|LUSC - Lung squamous cell carcinoma(625;0.192)		TCTTTGTCCATATTTTAATCC	0.413													36	79	---	---	---	---	PASS	C	5632516	C	C	5632516	3	2	53	1	0	0	0	0	1	0	0	0	16530	1406	49	5	1525	5	TRIM6	11	5632516	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	188869	5632516	129374000	152	20003										
CNGA4	1262	broad.mit.edu	37	chr11	6262857	6262857	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agccccagacctactcaccaGgtgaatatgtatgccgcaaa	8	13	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:6262857G>C	uc001mco.2	+	5	1221	c.1114G>C	c.(1114-1116)GGT>CGT	p.G372R	CNGA4_uc010raa.1_Missense_Mutation_p.G141R|CNGA4_uc001mcn.2_Missense_Mutation_p.G332R	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	372	cNMP.|Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTACTCACCAGGTGAATATGT	0.557													25	64	---	---	---	---	PASS	C	6262857	C	C	6262857	3	2	53	1	0	0	0	0	1	0	0	0	3599	1000	35	4	1132	4	CNGA4	11	6262857	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	630341	6262857	128743659	153	20004										
OR10A4	283297	broad.mit.edu	37	chr11	6898394	6898394	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agtttccctttttgtggcccCaacagggtgaaccacttctt	8	12	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:6898394C>A	uc010rat.1	+	1	516	c.516C>A	c.(514-516)CCC>CCA	p.P172P		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	172	Extracellular (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)		TTTGTGGCCCCAACAGGGTGA	0.527													19	42	---	---	---	---	PASS	A	6898394	A	A	6898394	2	1	53	1	0	0	0	0	0	0	0	1	10892	581	21	3		3	OR10A4	11	6898394	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	635537	6898394	128108122	154	20005										
NLRP10	338322	broad.mit.edu	37	chr11	7982313	7982313	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agaagggagcacgtggggagTgtatgtctcctaattagaag	15	5	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:7982313T>A	uc001mfv.1	-	2	863	c.846A>T	c.(844-846)ACA>ACT	p.T282T		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	282	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ACGTGGGGAGTGTATGTCTCC	0.522													28	50	---	---	---	---	PASS	A	7982313	A	A	7982313	2	1	53	1	0	0	0	0	0	0	0	1	10472	1683	59	5		5	NLRP10	11	7982313	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	1083919	7982313	127024203	155	20006										
PRDM11	56981	broad.mit.edu	37	chr11	45203858	45203858	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agaaactgaaggggaagcgcGacctcatcgtgcccaaaagc	12	11	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:45203858G>T	uc001myo.2	+	4	532	c.283G>T	c.(283-285)GAC>TAC	p.D95Y		NM_020229	NP_064614	Q9NQV5	PRD11_HUMAN	PR domain containing 11	95										upper_aerodigestive_tract(1)	1						GGGGAAGCGCGACCTCATCGT	0.592													3	20	---	---	---	---	PASS	T	45203858	T	T	45203858	3	4	53	1	0	0	0	0	1	0	0	0	12452	1058	37	2	293	2	PRDM11	11	45203858	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	37221545	45203858	89802658	156	20007										
OR4X2	119764	broad.mit.edu	37	chr11	48267363	48267363	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tccacctgtgggtcccatttCgctgtggttatcttgttctt	9	11	2	0	rs144663280	byFrequency	TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:48267363C>T	uc001ngs.1	+	1	708	c.708C>T	c.(706-708)TTC>TTT	p.F236F		NM_001004727	NP_001004727	Q8NGF9	OR4X2_HUMAN	olfactory receptor, family 4, subfamily X,	236	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGTCCCATTTCGCTGTGGTTA	0.522													14	18	---	---	---	---	PASS	T	48267363	T	T	48267363	2	4	53	1	0	0	0	0	0	0	0	1	11085	883	31	2		2	OR4X2	11	48267363	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	3063505	48267363	86739153	157	20008										
OR5D18	219438	broad.mit.edu	37	chr11	55587447	55587447	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tttgtggtcactgaatccttTttattagctgtgatggccta	9	7	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:55587447T>C	uc010rin.1	+	1	342	c.342T>C	c.(340-342)TTT>TTC	p.F114F		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	114	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				CTGAATCCTTTTTATTAGCTG	0.438													46	112	---	---	---	---	PASS	C	55587447	C	C	55587447	2	2	53	1	0	0	0	0	0	0	0	1	11157	1838	64	5		5	OR5D18	11	55587447	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	7320084	55587447	79419069	158	20009										
OR5J2	282775	broad.mit.edu	37	chr11	55944433	55944433	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tcatcaccacagaaggcttcTtactgtcagtgatggcctat	8	11	4	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:55944433T>C	uc010rjb.1	+	1	340	c.340T>C	c.(340-342)TTA>CTA	p.L114L		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	114	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					AGAAGGCTTCTTACTGTCAGT	0.473													24	67	---	---	---	---	PASS	C	55944433	C	C	55944433	2	2	53	1	0	0	0	0	0	0	0	1	11165	1606	56	5		5	OR5J2	11	55944433	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	356986	55944433	79062083	159	20010										
CD5	921	broad.mit.edu	37	chr11	60889118	60889118	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgcagagccgtctggtggggGgcagcagcatctgtgaaggc	18	9	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:60889118G>A	uc009ynk.2	+	6	944	c.841G>A	c.(841-843)GGC>AGC	p.G281S		NM_014207	NP_055022	P06127	CD5_HUMAN	CD5 molecule precursor	281	Extracellular (Potential).|SRCR 3.				cell proliferation|cell recognition	integral to plasma membrane	scavenger receptor activity			ovary(1)	1		all_lung(304;5.94e-05)|Lung NSC(402;7.26e-05)		BRCA - Breast invasive adenocarcinoma(625;0.000946)|Lung(977;0.0086)|LUSC - Lung squamous cell carcinoma(625;0.0528)		TCTGGTGGGGGGCAGCAGCAT	0.637													5	24	---	---	---	---	PASS	A	60889118	A	A	60889118	3	1	53	1	0	0	0	0	1	0	0	0	3021	1232	43	3	863	3	CD5	11	60889118	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	4944685	60889118	74117398	160	20011										
TSGA10IP	254187	broad.mit.edu	37	chr11	65721086	65721086	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cggcaggaggagcggcagcaGgccgagctgcggcgggcccg	21	13	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:65721086G>T	uc001ogk.1	+	7	1232	c.1200G>T	c.(1198-1200)CAG>CAT	p.Q400H	TSGA10IP_uc009yqw.1_RNA|TSGA10IP_uc009yqx.1_RNA	NM_152762	NP_689975	Q3SY00	T10IP_HUMAN	testis specific, 10 interacting protein	400	Potential.										0						AGCGGCAGCAGGCCGAGCTGC	0.721													12	27	---	---	---	---	PASS	T	65721086	T	T	65721086	3	4	53	1	0	0	0	0	1	0	0	0	16615	991	35	3	1218	3	TSGA10IP	11	65721086	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	4831968	65721086	69285430	161	20012										
MOGAT2	80168	broad.mit.edu	37	chr11	75442316	75442316	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aacatccctgctgaccagcaCttggagttctgctgagccca	9	14	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:75442316C>G	uc010rru.1	+	6	990	c.990C>G	c.(988-990)CAC>CAG	p.H330Q	MOGAT2_uc010rrv.1_Missense_Mutation_p.H248Q	NM_025098	NP_079374	Q3SYC2	MOGT2_HUMAN	monoacylglycerol O-acyltransferase 2	330					glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			ovary(2)	2	Ovarian(111;0.103)					CTGACCAGCACTTGGAGTTCT	0.537													9	34	---	---	---	---	PASS	G	75442316	G	G	75442316	3	3	53	1	0	0	0	0	1	0	0	0	9695	564	20	4	1012	4	MOGAT2	11	75442316	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	9721230	75442316	59564200	162	20013										
SYTL2	54843	broad.mit.edu	37	chr11	85418532	85418532	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	actacgagtgttttcttcttGcccattttgcctttgtctgg	8	10	3	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:85418532G>T	uc010rth.1	-	13	2319	c.2043C>A	c.(2041-2043)GGC>GGA	p.G681G	SYTL2_uc010rtg.1_Silent_p.G682G|SYTL2_uc010rti.1_Silent_p.G657G|SYTL2_uc010rtj.1_Silent_p.G649G|SYTL2_uc001pav.2_Silent_p.G123G|SYTL2_uc010rte.1_Silent_p.G83G|SYTL2_uc001pax.2_Silent_p.G123G|SYTL2_uc001paz.2_Silent_p.G2G|SYTL2_uc001pba.2_Silent_p.G66G|SYTL2_uc001pay.2_Silent_p.G112G|SYTL2_uc001paw.2_Silent_p.G83G|SYTL2_uc009yvj.2_RNA|SYTL2_uc001pbd.2_Silent_p.G979G|SYTL2_uc001pbb.2_Silent_p.G1019G|SYTL2_uc001pbc.2_Silent_p.G1003G|SYTL2_uc010rtf.1_Silent_p.G499G	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	681	C2 1.				intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		TTTTCTTCTTGCCCATTTTGC	0.373													17	77	---	---	---	---	PASS	T	85418532	T	T	85418532	2	4	53	1	0	0	0	0	0	0	0	1	15480	1306	46	3		3	SYTL2	11	85418532	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	9976216	85418532	49587984	163	20014										
ROBO3	64221	broad.mit.edu	37	chr11	124743597	124743597	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttatctcccactgcagaagaCtggggagtatcaccagaccc	9	13	2	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:124743597C>A	uc001qbc.2	+	11	1815	c.1623C>A	c.(1621-1623)GAC>GAA	p.D541E		NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	541	Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		CTGCAGAAGACTGGGGAGTAT	0.522													4	23	---	---	---	---	PASS	A	124743597	A	A	124743597	3	1	53	1	0	0	0	0	1	0	0	0	13515	564	20	3	1665	3	ROBO3	11	124743597	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	39325065	124743597	10262919	164	20015										
HEPACAM	220296	broad.mit.edu	37	chr11	124794863	124794863	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gccacttcactacaggcctgTcgctgctggtactgctgtac	10	14	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:124794863T>A	uc001qbk.2	-	2	594	c.188A>T	c.(187-189)GAC>GTC	p.D63V	HEPACAM_uc009zbj.2_5'Flank|HEPACAM_uc001qbl.1_Missense_Mutation_p.D63V	NM_152722	NP_689935	Q14CZ8	HECAM_HUMAN	hepatocyte cell adhesion molecule precursor	63	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell cycle arrest|regulation of growth	cytoplasm|integral to membrane				pancreas(1)	1	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.54e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		TACAGGCCTGTCGCTGCTGGT	0.622													14	39	---	---	---	---	PASS	A	124794863	A	A	124794863	3	1	53	1	0	0	0	0	1	0	0	0	7052	1667	58	5	1086	5	HEPACAM	11	124794863	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	51266	124794863	10211653	165	20016										
SRPR	6734	broad.mit.edu	37	chr11	126136409	126136409	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	caaggcagcctcaggggttcCattggtggtgggagtactgt	16	8	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:126136409C>G	uc001qdh.2	-	6	853	c.802G>C	c.(802-804)GGA>CGA	p.G268R	SRPR_uc010sbm.1_Missense_Mutation_p.G240R|FOXRED1_uc001qdi.2_5'Flank|FOXRED1_uc010sbn.1_5'Flank|FOXRED1_uc010sbo.1_5'Flank|FOXRED1_uc010sbp.1_5'Flank|FOXRED1_uc010sbq.1_5'Flank|FOXRED1_uc001qdj.2_5'Flank|FOXRED1_uc010sbr.1_5'Flank	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	268					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		TCAGGGGTTCCATTGGTGGTG	0.502													23	52	---	---	---	---	PASS	G	126136409	G	G	126136409	3	3	53	1	0	0	0	0	1	0	0	0	15161	603	21	4	1150	4	SRPR	11	126136409	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	1341546	126136409	8870107	166	20017										
ADAMTS15	170689	broad.mit.edu	37	chr11	130319592	130319592	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcgcggacctggaacattatCtgctgacgctgctggcaacg	13	12	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr11:130319592C>G	uc010scd.1	+	1	724	c.724C>G	c.(724-726)CTG>GTG	p.L242V		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	242	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		GGAACATTATCTGCTGACGCT	0.602											OREG0021518	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	5	---	---	---	---	PASS	G	130319592	G	G	130319592	3	3	53	1	0	0	0	0	1	0	0	0	260	912	32	2	726	2	ADAMTS15	11	130319592	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	4183183	130319592	4686924	167	20018										
LRP6	4040	broad.mit.edu	37	chr12	12336941	12336941	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcaggtttttccattctccaGgagtttgaccccagtggggc	12	11	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr12:12336941G>A	uc001rah.3	-	5	1091	c.949C>T	c.(949-951)CTG>TTG	p.L317L	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Silent_p.L317L	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	317	Extracellular (Potential).|EGF-like 1.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				CCATTCTCCAGGAGTTTGACC	0.368													12	42	---	---	---	---	PASS	A	12336941	A	A	12336941	2	1	53	1	0	0	0	0	0	0	0	1	8962	991	35	3		3	LRP6	12	12336941	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08		12336941	121514954	168	20019										
KIF5A	3798	broad.mit.edu	37	chr12	57957917	57957917	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctgcacgaccctcagctgatGggaatcattcctcgaattgc	9	13	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr12:57957917G>A	uc001sor.1	+	4	526	c.318G>A	c.(316-318)ATG>ATA	p.M106I	KIF5A_uc010srr.1_Intron	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	106	Kinesin-motor.				blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						CTCAGCTGATGGGAATCATTC	0.517													15	41	---	---	---	---	PASS	A	57957917	A	A	57957917	3	1	53	1	0	0	0	0	1	0	0	0	8305	1348	47	3	332	3	KIF5A	12	57957917	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	45620976	57957917	75893978	169	20020										
MDM2	4193	broad.mit.edu	37	chr12	69218345	69218345	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aaatgcttaggaccttgtacAagagcttcaggaagagaaac	10	7	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr12:69218345A>C	uc001sui.2	+	7	724	c.437A>C	c.(436-438)CAA>CCA	p.Q146P	MDM2_uc009zri.2_Missense_Mutation_p.Q101P|MDM2_uc009zqx.2_Intron|MDM2_uc009zqw.2_Missense_Mutation_p.Q146P|MDM2_uc001suk.2_Intron|MDM2_uc009zqy.1_Missense_Mutation_p.Q135P|MDM2_uc001sun.3_Intron|MDM2_uc009zqz.2_Missense_Mutation_p.Q140P|MDM2_uc009zra.2_Intron|MDM2_uc001sum.1_Intron|MDM2_uc009zrd.2_5'UTR|MDM2_uc009zrc.2_5'UTR|MDM2_uc009zre.2_Intron|MDM2_uc009zrf.2_Intron|MDM2_uc001suo.2_Intron|MDM2_uc009zrg.2_Intron|MDM2_uc009zrh.2_Intron	NM_002392	NP_002383	Q00987	MDM2_HUMAN	mouse double minute 2 homolog isoform MDM2	140					cellular response to hypoxia|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|establishment of protein localization|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein complex assembly|protein destabilization|protein localization to nucleus|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to antibiotic|synaptic transmission	cytosol|endocytic vesicle membrane|insoluble fraction|nucleolus|nucleoplasm|plasma membrane|protein complex	enzyme binding|identical protein binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|central_nervous_system(1)	3	all_cancers(1;8.46e-121)|all_epithelial(5;3.21e-36)|Lung NSC(4;2.16e-33)|all_lung(4;3.03e-31)|Glioma(1;1.9e-09)|Breast(13;1.59e-06)|all_neural(1;1.03e-05)|Melanoma(1;0.0171)|Renal(347;0.0684)		all cancers(2;8.67e-65)|GBM - Glioblastoma multiforme(2;8.89e-62)|BRCA - Breast invasive adenocarcinoma(5;2.43e-08)|Lung(24;1.5e-05)|LUAD - Lung adenocarcinoma(15;8.5e-05)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			GACCTTGTACAAGAGCTTCAG	0.328			A		sarcoma|glioma|colorectal|other								9	27	---	---	---	---	PASS	C	69218345	C	C	69218345	3	2	53	1	0	0	0	0	1	0	0	0	9413	130	5	5	463	5	MDM2	12	69218345	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	11260428	69218345	64633550	170	20021										
NAV3	89795	broad.mit.edu	37	chr12	78571406	78571406	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gtatgtacatacaggtcaccCcttgtctggccaccaaagaa	8	12	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr12:78571406C>A	uc001syp.2	+	28	5477	c.5304C>A	c.(5302-5304)CCC>CCA	p.P1768P	NAV3_uc001syo.2_Intron|NAV3_uc010sub.1_Intron|NAV3_uc009zsf.2_Intron	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1768						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						ACAGGTCACCCCTTGTCTGGC	0.428										HNSCC(70;0.22)			8	10	---	---	---	---	PASS	A	78571406	A	A	78571406	2	1	53	1	0	0	0	0	0	0	0	1	10185	638	22	3		3	NAV3	12	78571406	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	9353061	78571406	55280489	171	20022										
CLLU1OS	574016	broad.mit.edu	37	chr12	92821903	92821903	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	taaggcattccttaagttcgTtgtgccccaatttgttcatc	7	10	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr12:92821903T>C	uc001tcb.1	-	1	22	c.20A>G	c.(19-21)AAC>AGC	p.N7S	CLLU1_uc001tcc.2_Intron|CLLU1_uc001tcd.2_Intron|CLLU1_uc001tce.1_Intron|CLLU1_uc001tcf.2_Intron	NM_001025232	NP_001020403	Q5K130	CLU1O_HUMAN	chronic lymphocytic leukemia up-regulated 1	7											0						cttaagttcgttgtgccccaa	0.06													17	46	---	---	---	---	PASS	C	92821903	C	C	92821903	3	2	53	1	0	0	0	0	1	0	0	0	3541	1725	60	5	297	5	CLLU1OS	12	92821903	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	14250497	92821903	41029992	172	20023										
FGD6	55785	broad.mit.edu	37	chr12	95535241	95535241	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgaggcaagtagtataggatCtgatttagaatccggtcctc	11	7	1	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr12:95535241C>G	uc001tdp.3	-	6	2984	c.2760G>C	c.(2758-2760)CAG>CAC	p.Q920H	FGD6_uc009zsx.2_Missense_Mutation_p.Q53H	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	920	DH.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						AGTATAGGATCTGATTTAGAA	0.458													12	26	---	---	---	---	PASS	G	95535241	G	G	95535241	3	3	53	1	0	0	0	0	1	0	0	0	5837	912	32	2	1596	2	FGD6	12	95535241	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	2713338	95535241	38316654	173	20024										
TDG	6996	broad.mit.edu	37	chr12	104376576	104376576	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aactgaattttcattttacaGggaagtgtttgtttatgtca	8	4	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr12:104376576G>A	uc001tkg.2	+	5	702	c.479_splice	c.e5-1	p.W160_splice	TDG_uc009zuk.2_Splice_Site_p.W156_splice|TDG_uc010swi.1_Splice_Site_p.W17_splice|TDG_uc010swj.1_Splice_Site	NM_003211	NP_003202	Q13569	TDG_HUMAN	thymine-DNA glycosylase						depyrimidination|mismatch repair	nucleoplasm	damaged DNA binding|mismatched DNA binding|protein binding|pyrimidine-specific mismatch base pair DNA N-glycosylase activity	p.?(1)		ovary(3)|lung(3)	6				BRCA - Breast invasive adenocarcinoma(302;0.00114)		TCATTTTACAGGGAAGTGTTT	0.249								BER_DNA_glycosylases					21	68	---	---	---	---	PASS	A	104376576	A	A	104376576	5	1	53	1	0	0	0	0	0	0	1	0	15722	1014	35	3	496	3	TDG	12	104376576	Splice_Site	SNP	G	TCGA-22-5492-01A-01D-1632-08	8841335	104376576	29475319	174	20025										
NUAK1	9891	broad.mit.edu	37	chr12	106460732	106460732	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gttctggagcccctcaaagtCctggatctggaggaagtttt	12	9	3	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr12:106460732C>A	uc001tlj.1	-	7	3214	c.1834G>T	c.(1834-1836)GAC>TAC	p.D612Y		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	612							ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						CCCTCAAAGTCCTGGATCTGG	0.607													5	37	---	---	---	---	PASS	A	106460732	A	A	106460732	3	1	53	1	0	0	0	0	1	0	0	0	10712	855	30	2	155	2	NUAK1	12	106460732	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	2084156	106460732	27391163	175	20026										
IFT81	28981	broad.mit.edu	37	chr12	110655915	110655915	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	atatgaaacaagcaaaaatgTggcgtgatttggaacaatta	9	4	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr12:110655915T>C	uc001tqi.2	+	19	2045	c.1915T>C	c.(1915-1917)TGG>CGG	p.W639R	IFT81_uc001tqh.2_Missense_Mutation_p.W639R|IFT81_uc001tqj.2_RNA	NM_001143779	NP_001137251	Q8WYA0	IFT81_HUMAN	intraflagellar transport 81-like isoform 1	639					cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1						AGCAAAAATGTGGCGTGATTT	0.343													16	35	---	---	---	---	PASS	C	110655915	C	C	110655915	3	2	53	1	0	0	0	0	1	0	0	0	7565	1696	59	5	2097	5	IFT81	12	110655915	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	4195183	110655915	23195980	176	20027										
MLXIP	22877	broad.mit.edu	37	chr12	122622070	122622070	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gtgtgcatcggagcagagccCcagtcctcaatctccccaga	10	15	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr12:122622070C>T	uc001ubq.2	+	12	2087	c.2087C>T	c.(2086-2088)CCC>CTC	p.P696L	MLXIP_uc001ubt.2_Missense_Mutation_p.P303L	NM_014938	NP_055753	Q9HAP2	MLXIP_HUMAN	MLX interacting protein	696					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)		GAGCAGAGCCCCAGTCCTCAA	0.592													17	34	---	---	---	---	PASS	T	122622070	T	T	122622070	3	4	53	1	0	0	0	0	1	0	0	0	9636	623	22	3	2133	3	MLXIP	12	122622070	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	11966155	122622070	11229825	177	20028										
ATP11A	23250	broad.mit.edu	37	chr13	113459361	113459361	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttatcatatttctggtgcagGtaaggccggtcattgttttc	10	7	3	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr13:113459361G>T	uc001vsi.3	+	3	340	c.252_splice	c.e3+1	p.Q84_splice	ATP11A_uc001vsj.3_Splice_Site_p.Q84_splice|ATP11A_uc001vsm.1_Splice_Site	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a						ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				TCTGGTGCAGGTAAGGCCGGT	0.348													12	17	---	---	---	---	PASS	T	113459361	T	T	113459361	5	4	53	1	0	0	0	0	0	0	1	0	1119	1275	44	3	263	3	ATP11A	13	113459361	Splice_Site	SNP	G	TCGA-22-5492-01A-01D-1632-08		113459361	1710517	178	20029										
PRMT5	10419	broad.mit.edu	37	chr14	23390249	23390249	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cacagatggtttggccttcaCgtaccgttatgggctgctgt	12	10	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr14:23390249C>A	uc001whm.1	-	17	1869	c.1778G>T	c.(1777-1779)CGT>CTT	p.R593L	RBM23_uc001whh.2_5'Flank|RBM23_uc001whg.2_5'Flank|RBM23_uc001whi.2_5'Flank|RBM23_uc010tne.1_5'Flank|RBM23_uc001whj.2_5'Flank|RBM23_uc001whk.1_5'Flank|PRMT5_uc001whl.1_Missense_Mutation_p.R576L|PRMT5_uc010akd.1_RNA|PRMT5_uc010tnf.1_Missense_Mutation_p.R487L|PRMT5_uc010tng.1_Missense_Mutation_p.R532L|PRMT5_uc010tnh.1_Missense_Mutation_p.R549L|PRMT5_uc001whn.1_Missense_Mutation_p.R422L	NM_006109	NP_006100	O14744	ANM5_HUMAN	protein arginine methyltransferase 5 isoform a	593					cell proliferation|histone H4-R3 methylation|ncRNA metabolic process|regulation of mitosis|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	histone-arginine N-methyltransferase activity|protein binding|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding			ovary(1)	1	all_cancers(95;2.76e-05)			GBM - Glioblastoma multiforme(265;0.0126)		TTGGCCTTCACGTACCGTTAT	0.423													4	19	---	---	---	---	PASS	A	23390249	A	A	23390249	3	1	53	1	0	0	0	0	1	0	0	0	12539	536	19	1	139	1	PRMT5	14	23390249	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08		23390249	83959291	179	20030										
CDH24	64403	broad.mit.edu	37	chr14	23518860	23518860	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gttgtcctggacagtaaagtTggcatcagggcccagaggac	14	9	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr14:23518860T>C	uc001wil.2	-	11	1947	c.1687A>G	c.(1687-1689)AAC>GAC	p.N563D	CDH24_uc001wik.3_RNA|CDH24_uc010akf.2_Missense_Mutation_p.N525D	NM_022478	NP_071923	Q86UP0	CAD24_HUMAN	cadherin-like 24 isoform 1	563	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|cell-cell adhesion|homophilic cell adhesion	cell-cell junction|cell-cell junction|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|delta-catenin binding			central_nervous_system(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		ACAGTAAAGTTGGCATCAGGG	0.577													9	21	---	---	---	---	PASS	C	23518860	C	C	23518860	3	2	53	1	0	0	0	0	1	0	0	0	3109	1812	63	5	784	5	CDH24	14	23518860	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	128611	23518860	83830680	180	20031										
MDGA2	161357	broad.mit.edu	37	chr14	47351272	47351272	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tatttgatcacacgaattgtTgaatctccttcaccaaattt	4	9	3	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr14:47351272T>C	uc001wwj.3	-	11	2380	c.2184A>G	c.(2182-2184)TCA>TCG	p.S728S	MDGA2_uc001wwh.3_5'UTR|MDGA2_uc001wwi.3_Silent_p.S499S|MDGA2_uc010ani.2_Silent_p.S288S	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	728					spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CACGAATTGTTGAATCTCCTT	0.313													6	16	---	---	---	---	PASS	C	47351272	C	C	47351272	2	2	53	1	0	0	0	0	0	0	0	1	9407	1799	63	5		5	MDGA2	14	47351272	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	23832412	47351272	59998268	181	20032										
NAA30	122830	broad.mit.edu	37	chr14	57857808	57857808	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcagcgaggacgaggaggacGacgaagagcacgaaggcggc	19	9	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr14:57857808G>T	uc001xcx.3	+	2	287	c.133G>T	c.(133-135)GAC>TAC	p.D45Y	NAA30_uc010trk.1_Intron|NAA30_uc010aow.2_Intron	NM_001011713	NP_001011713	Q147X3	NAA30_HUMAN	N-acetyltransferase 12	45						cytoplasm	peptide alpha-N-acetyltransferase activity			skin(1)	1						CGAGGAGGACGACGAAGAGCA	0.776													5	9	---	---	---	---	PASS	T	57857808	T	T	57857808	3	4	53	1	0	0	0	0	1	0	0	0	10122	1058	37	2	135	2	NAA30	14	57857808	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	10506536	57857808	49491732	182	20033										
MLH3	27030	broad.mit.edu	37	chr14	75514257	75514257	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aatctgtttgtgattttttgCtaccttcctgaaaagcagaa	7	7	1	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr14:75514257C>G	uc001xrd.1	-	2	2318	c.2102G>C	c.(2101-2103)AGC>ACC	p.S701T	MLH3_uc001xre.1_Missense_Mutation_p.S701T|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	701					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		TGATTTTTTGCTACCTTCCTG	0.348								MMR					23	52	---	---	---	---	PASS	G	75514257	G	G	75514257	3	3	53	1	0	0	0	0	1	0	0	0	9618	797	28	4	2307	4	MLH3	14	75514257	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	17656449	75514257	31835283	183	20034										
COX8C	341947	broad.mit.edu	37	chr14	93814406	93814406	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ggacttgtggtgttttttacGaccttcttaacaccagctgc	9	10	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr14:93814406G>A	uc001ybt.1	+	2	237	c.159G>A	c.(157-159)ACG>ACA	p.T53T	KIAA1409_uc001ybs.1_Intron	NM_182971	NP_892016	Q7Z4L0	COX8C_HUMAN	cytochrome c oxidase subunit VIIIc	53	Helical; (By similarity).					integral to membrane|mitochondrial inner membrane	cytochrome-c oxidase activity				0		all_cancers(154;0.083)		Epithelial(152;0.176)|all cancers(159;0.197)|COAD - Colon adenocarcinoma(157;0.202)		TGTTTTTTACGACCTTCTTAA	0.453													8	39	---	---	---	---	PASS	A	93814406	A	A	93814406	2	1	53	1	0	0	0	0	0	0	0	1	3786	1045	37	2		2	COX8C	14	93814406	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	18300149	93814406	13535134	184	20035										
SERPINA4	5267	broad.mit.edu	37	chr14	95030027	95030027	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	actacctgatcgcttcggagAccccggggaagaacatcttt	10	12	1	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr14:95030027A>T	uc001ydk.2	+	2	274	c.208A>T	c.(208-210)ACC>TCC	p.T70S	SERPINA4_uc010avd.2_Missense_Mutation_p.T107S|SERPINA4_uc001ydl.2_Missense_Mutation_p.T70S	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	70					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		CGCTTCGGAGACCCCGGGGAA	0.602													17	36	---	---	---	---	PASS	T	95030027	T	T	95030027	3	4	53	1	0	0	0	0	1	0	0	0	14091	275	10	5	210	5	SERPINA4	14	95030027	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	1215621	95030027	12319513	185	20036										
DYNC1H1	1778	broad.mit.edu	37	chr14	102483190	102483190	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aggtggcagcccctgatgtcGtcgtgccaacgctggacaca	13	13	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr14:102483190G>A	uc001yks.2	+	38	7866	c.7702G>A	c.(7702-7704)GTC>ATC	p.V2568I	DYNC1H1_uc001ykt.1_Missense_Mutation_p.V59I	NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2568	AAA 3 (By similarity).				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						CCCTGATGTCGTCGTGCCAAC	0.607													7	14	---	---	---	---	PASS	A	102483190	A	A	102483190	3	1	53	1	0	0	0	0	1	0	0	0	4841	1145	40	1	7852	1	DYNC1H1	14	102483190	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	7453163	102483190	4866350	186	20037										
MKRN3	7681	broad.mit.edu	37	chr15	23812324	23812324	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aaaagcattaagaaggagctTgtcgtgcttcggctggccag	13	8	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr15:23812324T>G	uc001ywh.3	+	1	1871	c.1395T>G	c.(1393-1395)CTT>CTG	p.L465L	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Intron	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	465						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		AGAAGGAGCTTGTCGTGCTTC	0.507													22	52	---	---	---	---	PASS	G	23812324	G	G	23812324	2	3	53	1	0	0	0	0	0	0	0	1	9608	1799	63	5		5	MKRN3	15	23812324	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08		23812324	78719068	187	20038										
APBA2	321	broad.mit.edu	37	chr15	29393827	29393827	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	catgatggaccacgccttgcGtaccatctcctacatcgccg	8	16	1	1	rs142481200		TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr15:29393827G>A	uc001zck.2	+	9	1571	c.1364G>A	c.(1363-1365)CGT>CAT	p.R455H	APBA2_uc010azj.2_Missense_Mutation_p.R443H|APBA2_uc010uat.1_Missense_Mutation_p.R443H|APBA2_uc001zcl.2_Missense_Mutation_p.R443H|APBA2_uc001zcm.1_Missense_Mutation_p.R147H	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	455	PID.				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)		CACGCCTTGCGTACCATCTCC	0.552													3	9	---	---	---	---	PASS	A	29393827	A	A	29393827	3	1	53	1	0	0	0	0	1	0	0	0	757	1145	40	1	1390	1	APBA2	15	29393827	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	5581503	29393827	73137565	188	20039										
TJP1	7082	broad.mit.edu	37	chr15	30092866	30092866	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	taccctgtgaagcgtcactgTatgttgttcccatatagctg	9	10	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr15:30092866T>C	uc001zcr.2	-	2	542	c.67A>G	c.(67-69)ACA>GCA	p.T23A	TJP1_uc010azl.2_Missense_Mutation_p.T11A|TJP1_uc001zcq.2_Missense_Mutation_p.T27A|TJP1_uc001zcs.2_Missense_Mutation_p.T23A	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	23	PDZ 1.				cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		AGCGTCACTGTATGTTGTTCC	0.373													12	41	---	---	---	---	PASS	C	30092866	C	C	30092866	3	2	53	1	0	0	0	0	1	0	0	0	15926	1638	57	5	5287	5	TJP1	15	30092866	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	699039	30092866	72438526	189	20040										
RYR3	6263	broad.mit.edu	37	chr15	33955095	33955095	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ggggagaaggccggcaaggaGgctcctgtcaaaggcttgtt	17	8	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr15:33955095G>T	uc001zhi.2	+	35	5434	c.5364G>T	c.(5362-5364)GAG>GAT	p.E1788D	RYR3_uc010bar.2_Missense_Mutation_p.E1788D	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1788	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CCGGCAAGGAGGCTCCTGTCA	0.567													32	109	---	---	---	---	PASS	T	33955095	T	T	33955095	3	4	53	1	0	0	0	0	1	0	0	0	13770	991	35	3	5502	3	RYR3	15	33955095	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	3862229	33955095	68576297	190	20041										
ACTC1	70	broad.mit.edu	37	chr15	35084669	35084669	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	catgaggtagtcagtgaggtCccgaccagccagatccagac	12	12	1	4			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr15:35084669C>A	uc001ziu.1	-	4	799	c.556G>T	c.(556-558)GAC>TAC	p.D186Y	uc001zit.1_Intron	NM_005159	NP_005150	P68032	ACTC_HUMAN	cardiac muscle alpha actin 1 proprotein	186					apoptosis|cardiac muscle tissue morphogenesis|cardiac myofibril assembly|muscle filament sliding|skeletal muscle thin filament assembly	actomyosin, actin part|cytosol|I band	ATP binding|ATPase activity|myosin binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(180;2.3e-08)		all cancers(64;5.83e-19)|GBM - Glioblastoma multiforme(113;1.98e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		TCAGTGAGGTCCCGACCAGCC	0.542													12	23	---	---	---	---	PASS	A	35084669	A	A	35084669	3	1	53	1	0	0	0	0	1	0	0	0	195	855	30	2	593	2	ACTC1	15	35084669	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	1129574	35084669	67446723	191	20042										
EIF2AK4	440275	broad.mit.edu	37	chr15	40322614	40322614	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cattgtgagtgtgctagcccCggagaagctgtcagccagca	13	11	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr15:40322614C>T	uc001zkm.1	+	35	4666	c.4616C>T	c.(4615-4617)CCG>CTG	p.P1539L	EIF2AK4_uc010bbj.1_Missense_Mutation_p.P1240L|EIF2AK4_uc001zkn.1_Missense_Mutation_p.P639L|EIF2AK4_uc001zko.1_Missense_Mutation_p.P420L|EIF2AK4_uc010bbk.1_RNA	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	1539					translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		GTGCTAGCCCCGGAGAAGCTG	0.468											OREG0023054	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	17	---	---	---	---	PASS	T	40322614	T	T	40322614	3	4	53	1	0	0	0	0	1	0	0	0	4999	652	23	1	4754	1	EIF2AK4	15	40322614	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	5237945	40322614	62208778	192	20043										
INO80	54617	broad.mit.edu	37	chr15	41308393	41308393	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ggcatacagctttccactgtCagtgatgaggctctccttgc	10	12	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr15:41308393C>T	uc001zni.2	-	27	3508	c.3295G>A	c.(3295-3297)GAC>AAC	p.D1099N	INO80_uc010ucu.1_Intron	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	1099	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						TTTCCACTGTCAGTGATGAGG	0.493													7	22	---	---	---	---	PASS	T	41308393	T	T	41308393	3	4	53	1	0	0	0	0	1	0	0	0	7746	826	29	2	1415	2	INO80	15	41308393	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	985779	41308393	61222999	193	20044										
UNC13C	440279	broad.mit.edu	37	chr15	54624308	54624308	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gattgatctgtcaaagtataGggtatgtacaaatttacttg	9	4	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr15:54624308G>A	uc002ack.2	+	13	4493	c.4493G>A	c.(4492-4494)AGG>AAG	p.R1498K	UNC13C_uc002acl.2_Missense_Mutation_p.R328K	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1498					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TCAAAGTATAGGGTATGTACA	0.313													2	4	---	---	---	---	PASS	A	54624308	A	A	54624308	3	1	53	1	0	0	0	0	1	0	0	0	16983	1014	35	3	4543	3	UNC13C	15	54624308	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	13315915	54624308	47907084	194	20045										
PIAS1	8554	broad.mit.edu	37	chr15	68434669	68434669	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgacttcacagtacaggtccAgttaaggtacagtgctgact	10	9	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr15:68434669A>C	uc002aqz.2	+	4	692	c.596A>C	c.(595-597)CAG>CCG	p.Q199P	PIAS1_uc010ujx.1_Missense_Mutation_p.Q199P	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	199	PINIT.				androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						GTACAGGTCCAGTTAAGGTAC	0.358													5	10	---	---	---	---	PASS	C	68434669	C	C	68434669	3	2	53	1	0	0	0	0	1	0	0	0	11875	188	7	5	610	5	PIAS1	15	68434669	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	13810361	68434669	34096723	195	20046										
PARP6	56965	broad.mit.edu	37	chr15	72534978	72534978	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tacctgggggatggtattcaTcctgttgtatctctggacca	11	9	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr15:72534978T>C	uc002auc.2	-	20	2083	c.1624A>G	c.(1624-1626)ATG>GTG	p.M542V	PARP6_uc002aua.2_Missense_Mutation_p.M388V|PARP6_uc002aub.2_RNA|PARP6_uc002aud.3_RNA|PARP6_uc002auf.1_Missense_Mutation_p.M543V	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	542	PARP catalytic.						NAD+ ADP-ribosyltransferase activity				0						ATGGTATTCATCCTGTTGTAT	0.473													23	33	---	---	---	---	PASS	C	72534978	C	C	72534978	3	2	53	1	0	0	0	0	1	0	0	0	11464	1435	50	5	284	5	PARP6	15	72534978	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	4100309	72534978	29996414	196	20047										
NEIL1	79661	broad.mit.edu	37	chr15	75647319	75647319	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ccccaggccactgcagacccCggaaggtcaaggctgacatc	11	16	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr15:75647319C>T	uc002bad.2	+	10	1623	c.1117C>T	c.(1117-1119)CGG>TGG	p.R373W	NEIL1_uc002bae.2_Missense_Mutation_p.R459W|MIR631_hsa-mir-631|MI0003645_5'Flank	NM_024608	NP_078884	Q96FI4	NEIL1_HUMAN	nei endonuclease VIII-like 1	373					base-excision repair|negative regulation of nuclease activity|nucleotide-excision repair|response to oxidative stress	cytoplasm|nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|protein C-terminus binding|zinc ion binding			ovary(1)	1						CTGCAGACCCCGGAAGGTCAA	0.572								BER_DNA_glycosylases					6	10	---	---	---	---	PASS	T	75647319	T	T	75647319	3	4	53	1	0	0	0	0	1	0	0	0	10318	643	23	1	1151	1	NEIL1	15	75647319	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	3112341	75647319	26884073	197	20048										
ACD	65057	broad.mit.edu	37	chr16	67694091	67694091	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agaatcagctcccgaatccaGggccgtaggaccagcctccc	10	16	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr16:67694091G>A	uc002etq.3	-	1	628	c.291C>T	c.(289-291)CCC>CCT	p.P97P	ACD_uc002etp.3_Silent_p.P97P|ACD_uc002etr.3_Silent_p.P97P|ACD_uc010vjt.1_Silent_p.P87P|PARD6A_uc002ets.2_5'Flank|PARD6A_uc002ett.2_5'Flank|PARD6A_uc002etu.2_5'Flank	NM_001082486	NP_001075955	Q96AP0	ACD_HUMAN	adrenocortical dysplasia homolog isoform 1	97	PWI.				intracellular protein transport|negative regulation of telomere maintenance via telomerase|positive regulation of single-stranded telomeric DNA binding|positive regulation of telomerase activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|telomere assembly	nuclear telomere cap complex|nucleoplasm	DNA binding|DNA polymerase binding			pancreas(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		CCCGAATCCAGGGCCGTAGGA	0.701													15	38	---	---	---	---	PASS	A	67694091	A	A	67694091	2	1	53	1	0	0	0	0	0	0	0	1	135	987	35	3		3	ACD	16	67694091	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08		67694091	22660662	198	20049										
CNTNAP4	85445	broad.mit.edu	37	chr16	76556015	76556015	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cagtcacccacccacttcaaCgacaaccagtggcaccatgt	6	17	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr16:76556015C>A	uc002feu.1	+	19	3001	c.2616C>A	c.(2614-2616)AAC>AAA	p.N872K	CNTNAP4_uc002fev.1_Missense_Mutation_p.N736K|CNTNAP4_uc010chb.1_Missense_Mutation_p.N799K|CNTNAP4_uc002fex.1_Missense_Mutation_p.N875K	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	872	Extracellular (Potential).|Laminin G-like 3.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						CCCACTTCAACGACAACCAGT	0.502													27	57	---	---	---	---	PASS	A	76556015	A	A	76556015	3	1	53	1	0	0	0	0	1	0	0	0	3649	535	19	1	2695	1	CNTNAP4	16	76556015	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	8861924	76556015	13798738	199	20050										
ADAMTS18	170692	broad.mit.edu	37	chr16	77369771	77369771	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gggccggggcccgagctcccCaaactttacgcactggcctt	12	16	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr16:77369771C>A	uc002ffc.3	-	12	2160	c.1741G>T	c.(1741-1743)GGG>TGG	p.G581W	ADAMTS18_uc010chc.1_Missense_Mutation_p.G169W|ADAMTS18_uc002ffe.1_Missense_Mutation_p.G277W	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	581					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						CCGAGCTCCCCAAACTTTACG	0.597													25	86	---	---	---	---	PASS	A	77369771	A	A	77369771	3	1	53	1	0	0	0	0	1	0	0	0	263	594	21	3	1972	3	ADAMTS18	16	77369771	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	813756	77369771	12984982	200	20051										
GALNS	2588	broad.mit.edu	37	chr16	88902186	88902186	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gaggcatagacgggtgcgtgCgtggcgtcgacagcccagta	17	10	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr16:88902186C>A	uc002fly.3	-	7	794	c.705G>T	c.(703-705)ACG>ACT	p.T235T	GALNS_uc010cid.2_Silent_p.T241T|GALNS_uc002flz.3_5'UTR	NM_000512	NP_000503	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfate sulfatase	235						lysosome	metal ion binding|N-acetylgalactosamine-4-sulfatase activity|N-acetylgalactosamine-6-sulfatase activity			large_intestine(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0496)	Hyaluronidase(DB00070)	CGGGTGCGTGCGTGGCGTCGA	0.617													9	36	---	---	---	---	PASS	A	88902186	A	A	88902186	2	1	53	1	0	0	0	0	0	0	0	1	6206	755	27	1		1	GALNS	16	88902186	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	11532415	88902186	1452567	201	20052										
ALOX15	246	broad.mit.edu	37	chr17	4536516	4536516	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctcccaggagcccccggtcgGccaagtcatcagggggacag	14	15	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr17:4536516G>A	uc002fyh.2	-	10	1357	c.1343C>T	c.(1342-1344)GCC>GTC	p.A448V	ALOX15_uc010vsd.1_Missense_Mutation_p.A409V|ALOX15_uc010vse.1_Missense_Mutation_p.A470V	NM_001140	NP_001131	P16050	LOX15_HUMAN	arachidonate 15-lipoxygenase	448	Lipoxygenase.				inflammatory response|leukotriene biosynthetic process	nucleus	arachidonate 15-lipoxygenase activity|iron ion binding|lipoxygenase activity			skin(3)|ovary(1)|lung(1)	5				READ - Rectum adenocarcinoma(115;0.0327)	Ciclopirox(DB01188)|Masoprocol(DB00179)|Zileuton(DB00744)	CCCCCGGTCGGCCAAGTCATC	0.592													3	17	---	---	---	---	PASS	A	4536516	A	A	4536516	3	1	53	1	0	0	0	0	1	0	0	0	538	1203	42	3	665	3	ALOX15	17	4536516	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08		4536516	76658694	202	20053										
TP53	7157	broad.mit.edu	37	chr17	7578188	7578188	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aaaccagacctcaggcggctCatagggcaccaccacactat	8	15	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr17:7578188C>A	uc002gim.2	-	6	855	c.661G>T	c.(661-663)GAG>TAG	p.E221*	TP53_uc002gig.1_Nonsense_Mutation_p.E221*|TP53_uc002gih.2_Nonsense_Mutation_p.E221*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.E89*|TP53_uc010cng.1_Nonsense_Mutation_p.E89*|TP53_uc002gii.1_Nonsense_Mutation_p.E89*|TP53_uc010cnh.1_Nonsense_Mutation_p.E221*|TP53_uc010cni.1_Nonsense_Mutation_p.E221*|TP53_uc002gij.2_Nonsense_Mutation_p.E221*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.E128*|TP53_uc002gio.2_Nonsense_Mutation_p.E89*|TP53_uc010vug.1_Nonsense_Mutation_p.E182*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	221	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> D (in sporadic cancers; somatic mutation).|E -> G (in sporadic cancers; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).|E -> Q (in sporadic cancers; somatic mutation).|E -> A (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.E221*(5)|p.E221fs*4(3)|p.E221G(2)|p.E221K(2)|p.E221D(2)|p.E221fs*26(2)|p.E221E(2)|p.Y220_P223delYEPP(1)|p.?(1)|p.E221fs*2(1)|p.V218_E224delVPYEPPE(1)|p.V218_E221delVPYE(1)|p.Y220fs*25(1)|p.V218fs*26(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)		TCAGGCGGCTCATAGGGCACC	0.552		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)			4	9	---	---	---	---	PASS	A	7578188	A	A	7578188	4	1	53	1	0	0	0	0	0	1	0	0	16378	835	29	2	633	2	TP53	17	7578188	Nonsense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	3041672	7578188	73617022	203	20054										
MAP2K4	6416	broad.mit.edu	37	chr17	12044544	12044544	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aaaatcctggatcaaatgccAgctactcccagctctcccat	5	15	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr17:12044544A>T	uc002gnj.2	+	11	1236	c.1167A>T	c.(1165-1167)CCA>CCT	p.P389P	MAP2K4_uc002gnk.2_Silent_p.P400P|MAP2K4_uc010vvi.1_Silent_p.P271P|MAP2K4_uc010vvj.1_Silent_p.P261P	NM_003010	NP_003001	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4	389					cellular response to mechanical stimulus|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|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	ATP binding|JUN kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.?(2)		large_intestine(14)|breast(12)|lung(8)|ovary(8)|pancreas(8)|stomach(2)|central_nervous_system(1)|biliary_tract(1)|testis(1)|endometrium(1)|urinary_tract(1)|skin(1)	58		all_cancers(5;0.0413)|Breast(5;0.000625)|all_epithelial(5;0.00978)|all_lung(20;0.0449)|Lung NSC(33;0.163)		Epithelial(2;4.12e-09)|all cancers(2;6.86e-07)|BRCA - Breast invasive adenocarcinoma(2;8.74e-07)|Colorectal(4;5.32e-05)|COAD - Colon adenocarcinoma(4;0.0039)|READ - Rectum adenocarcinoma(10;0.0681)		ATCAAATGCCAGCTACTCCCA	0.413			D|Mis|N		pancreatic|breast|colorectal								12	39	---	---	---	---	PASS	T	12044544	T	T	12044544	2	4	53	1	0	0	0	0	0	0	0	1	9239	175	7	5		5	MAP2K4	17	12044544	Silent	SNP	A	TCGA-22-5492-01A-01D-1632-08	4466356	12044544	69150666	204	20055										
MYO15A	51168	broad.mit.edu	37	chr17	18039093	18039093	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gccgtggcagagctgctgcaGatctcccctgagggcctgca	14	14	1	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr17:18039093G>C	uc010vxh.1	+	12	4889	c.4551G>C	c.(4549-4551)CAG>CAC	p.Q1517H		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1517	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					AGCTGCTGCAGATCTCCCCTG	0.567													5	10	---	---	---	---	PASS	C	18039093	C	C	18039093	3	2	53	1	0	0	0	0	1	0	0	0	10063	933	33	2	4593	2	MYO15A	17	18039093	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	5994549	18039093	63156117	205	20056										
ITGB3	3690	broad.mit.edu	37	chr17	45361811	45361811	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	catctttctgccttccagatGattcgaagaatttctccatc	5	12	3	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr17:45361811G>T	uc002ilj.2	+	4	384	c.364G>T	c.(364-366)GAT>TAT	p.D122Y	ITGB3_uc002ili.1_Missense_Mutation_p.D122Y|ITGB3_uc010wkr.1_RNA	NM_000212	NP_000203	P05106	ITB3_HUMAN	integrin beta chain, beta 3 precursor	122	Extracellular (Potential).				activation of protein kinase activity|angiogenesis involved in wound healing|axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|platelet activation|platelet degranulation|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|regulation of bone resorption|smooth muscle cell migration|tube development	alphav-beta3 integrin-vitronectin complex|integrin complex|platelet alpha granule membrane	cell adhesion molecule binding|identical protein binding|platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			central_nervous_system(5)|large_intestine(1)	6					Abciximab(DB00054)|Tirofiban(DB00775)	CCTTCCAGATGATTCGAAGAA	0.418													9	27	---	---	---	---	PASS	T	45361811	T	T	45361811	3	4	53	1	0	0	0	0	1	0	0	0	7895	1290	45	2	378	2	ITGB3	17	45361811	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	27322718	45361811	35833399	206	20057										
MPO	4353	broad.mit.edu	37	chr17	56348155	56348155	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gtgttgtcgcagatgatccgGggcaatgagatctgggccag	16	8	1	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr17:56348155G>T	uc002ivu.1	-	12	2277	c.2100C>A	c.(2098-2100)CCC>CCA	p.P700P		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	700					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	AGATGATCCGGGGCAATGAGA	0.547													10	26	---	---	---	---	PASS	T	56348155	T	T	56348155	2	4	53	1	0	0	0	0	0	0	0	1	9732	1219	43	3		3	MPO	17	56348155	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	10986344	56348155	24847055	207	20058										
TRIM47	91107	broad.mit.edu	37	chr17	73871553	73871553	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gaggtcttggggctcagcatCagctgtagaagaggagacag	16	7	3	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr17:73871553C>T	uc002jpw.2	-	5	1231	c.1204G>A	c.(1204-1206)GAT>AAT	p.D402N	TRIM47_uc002jpv.2_Missense_Mutation_p.D164N	NM_033452	NP_258411	Q96LD4	TRI47_HUMAN	tripartite motif-containing 47	402						cytoplasm|nucleus	zinc ion binding			ovary(2)|prostate(1)|lung(1)|breast(1)	5			Epithelial(20;4.23e-06)|all cancers(21;5.24e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGCTCAGCATCAGCTGTAGAA	0.577													6	22	---	---	---	---	PASS	T	73871553	T	T	73871553	3	4	53	1	0	0	0	0	1	0	0	0	16519	826	29	2	720	2	TRIM47	17	73871553	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	17523398	73871553	7323657	208	20059										
SLC25A10	1468	broad.mit.edu	37	chr17	79686879	79686879	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agggcgttttccactgcgccGtggagacagcgaagctcggg	16	11	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr17:79686879G>C	uc002kbi.2	+	10	810	c.724G>C	c.(724-726)GTG>CTG	p.V242L	SLC25A10_uc010wut.1_Missense_Mutation_p.V397L|SLC25A10_uc010dif.2_Missense_Mutation_p.V251L|SLC25A10_uc010wuu.1_Missense_Mutation_p.V196L	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	242	Solcar 3.				gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)	CCACTGCGCCGTGGAGACAGC	0.602													54	172	---	---	---	---	PASS	C	79686879	C	C	79686879	3	2	53	1	0	0	0	0	1	0	0	0	14472	1145	40	4	762	4	SLC25A10	17	79686879	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	5815326	79686879	1508331	209	20060										
EPB41L3	23136	broad.mit.edu	37	chr18	5419875	5419875	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcgtactggccagtaccaacCtctgcagcagacatagaatc	9	13	1	2	rs11661706		TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr18:5419875C>T	uc002kmt.1	-	12	1427	c.1341G>A	c.(1339-1341)GAG>GAA	p.E447E	EPB41L3_uc010wzh.1_Silent_p.E465E|EPB41L3_uc002kmu.1_Silent_p.E465E|EPB41L3_uc010dkq.1_Silent_p.E356E|EPB41L3_uc002kms.1_5'UTR|EPB41L3_uc010wze.1_5'UTR|EPB41L3_uc010wzf.1_5'UTR|EPB41L3_uc010wzg.1_5'UTR|EPB41L3_uc010dkr.2_Silent_p.E26E	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	447	Hydrophilic.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						CAGTACCAACCTCTGCAGCAG	0.328													10	56	---	---	---	---	PASS	T	5419875	T	T	5419875	2	4	53	1	0	0	0	0	0	0	0	1	5154	695	24	3		3	EPB41L3	18	5419875	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08		5419875	72657373	210	20061										
DSG2	1829	broad.mit.edu	37	chr18	29125885	29125885	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tttgcctgggtcaaaaaataGatataaataaggaaattgag	9	3	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr18:29125885G>C	uc002kwu.3	+	15	2724	c.2536G>C	c.(2536-2538)GAT>CAT	p.D846H	uc002kwv.3_Intron	NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	846	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			TCAAAAAATAGATATAAATAA	0.373													19	66	---	---	---	---	PASS	C	29125885	C	C	29125885	3	2	53	1	0	0	0	0	1	0	0	0	4777	942	33	2	2594	2	DSG2	18	29125885	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	23706010	29125885	48951363	211	20062										
SMAD4	4089	broad.mit.edu	37	chr18	48604789	48604789	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cgggccctccagctcctagaCgaagtacttcataccatgcc	8	16	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr18:48604789C>A	uc010xdp.1	+	12	2149	c.1611C>A	c.(1609-1611)GAC>GAA	p.D537E	SMAD4_uc002lfb.3_Missense_Mutation_p.D382E	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	537	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.D537Y(2)|p.?(2)|p.L536fs*11(1)|p.L536fs*14(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		AGCTCCTAGACGAAGTACTTC	0.483									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				5	24	---	---	---	---	PASS	A	48604789	A	A	48604789	3	1	53	1	0	0	0	0	1	0	0	0	14760	535	19	1	1653	1	SMAD4	18	48604789	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	19478904	48604789	29472459	212	20063										
NARS	4677	broad.mit.edu	37	chr18	55270082	55270082	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	atcctcaggacatcgctgcaTgtagaaggacttgatctcca	9	11	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr18:55270082T>C	uc002lgs.2	-	12	1573	c.1345A>G	c.(1345-1347)ATG>GTG	p.M449V	NARS_uc002lgt.2_Missense_Mutation_p.M448V|NARS_uc010xea.1_Missense_Mutation_p.M200V	NM_004539	NP_004530	O43776	SYNC_HUMAN	asparaginyl-tRNA synthetase	449					asparaginyl-tRNA aminoacylation	cytosol|soluble fraction	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding				0		Colorectal(73;0.227)			L-Asparagine(DB00174)	CATCGCTGCATGTAGAAGGAC	0.438													13	27	---	---	---	---	PASS	C	55270082	C	C	55270082	3	2	53	1	0	0	0	0	1	0	0	0	10170	1464	51	5	313	5	NARS	18	55270082	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	6665293	55270082	22807166	213	20064										
ALPK2	115701	broad.mit.edu	37	chr18	56203604	56203604	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gactatcaggtacagcccagAccttgtcaggaattatgaga	10	9	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr18:56203604A>G	uc002lhj.3	-	5	4029	c.3815T>C	c.(3814-3816)GTC>GCC	p.V1272A	ALPK2_uc002lhk.1_Missense_Mutation_p.V603A	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1272							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						TACAGCCCAGACCTTGTCAGG	0.498													37	52	---	---	---	---	PASS	G	56203604	G	G	56203604	3	3	53	1	0	0	0	0	1	0	0	0	545	275	10	5	2733	5	ALPK2	18	56203604	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	933522	56203604	21873644	214	20065										
CDH7	1005	broad.mit.edu	37	chr18	63477081	63477081	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	atcgtgaggagcaggcctacTacacgctccgagctcaagcg	12	13	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr18:63477081T>C	uc002ljz.2	+	3	677	c.352T>C	c.(352-354)TAC>CAC	p.Y118H	CDH7_uc002lka.2_Missense_Mutation_p.Y118H|CDH7_uc002lkb.2_Missense_Mutation_p.Y118H	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	118	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GCAGGCCTACTACACGCTCCG	0.502													17	23	---	---	---	---	PASS	C	63477081	C	C	63477081	3	2	53	1	0	0	0	0	1	0	0	0	3115	1522	53	5	358	5	CDH7	18	63477081	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	7273477	63477081	14600167	215	20066										
TMEM38A	79041	broad.mit.edu	37	chr19	16791277	16791277	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttcctgcctgtgaaactcatCttcgtggccatgaaggaggt	11	10	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr19:16791277C>T	uc002nes.2	+	3	442	c.351C>T	c.(349-351)ATC>ATT	p.I117I		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	117	Cytoplasmic (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3						TGAAACTCATCTTCGTGGCCA	0.552													55	87	---	---	---	---	PASS	T	16791277	T	T	16791277	2	4	53	1	0	0	0	0	0	0	0	1	16156	903	32	2		2	TMEM38A	19	16791277	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08		16791277	42337706	216	20067										
B3GNT3	10331	broad.mit.edu	37	chr19	17918639	17918639	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gaagtatctccggcaccggcGgcccaatgccaccctcattc	9	17	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr19:17918639G>C	uc002nhk.1	+	2	108	c.23G>C	c.(22-24)CGG>CCG	p.R8P	B3GNT3_uc002nhl.1_Missense_Mutation_p.R8P|B3GNT3_uc010ebd.1_Missense_Mutation_p.R8P|B3GNT3_uc010ebe.1_Missense_Mutation_p.R8P	NM_014256	NP_055071	Q9Y2A9	B3GN3_HUMAN	UDP-GlcNAc:betaGal	8	Cytoplasmic (Potential).				protein glycosylation	Golgi membrane|integral to plasma membrane	galactosyltransferase activity			upper_aerodigestive_tract(1)	1						CGGCACCGGCGGCCCAATGCC	0.572													8	32	---	---	---	---	PASS	C	17918639	C	C	17918639	3	2	53	1	0	0	0	0	1	0	0	0	1258	1116	39	4	25	4	B3GNT3	19	17918639	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	1127362	17918639	41210344	217	20068										
PLEKHG2	64857	broad.mit.edu	37	chr19	39912892	39912892	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tcaatcactgaagaaatcctGgaactgctgaatcagcgagg	10	9	3	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr19:39912892G>T	uc010xuz.1	+	17	1966	c.1641G>T	c.(1639-1641)CTG>CTT	p.L547L	PLEKHG2_uc010xuy.1_Silent_p.L488L|PLEKHG2_uc002olj.2_Silent_p.L547L|PLEKHG2_uc010xva.1_Silent_p.L325L	NM_022835	NP_073746	Q9H7P9	PKHG2_HUMAN	common-site lymphoma/leukemia guanine nucleotide	547					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			skin(2)|pancreas(1)|breast(1)	4	all_cancers(60;3.08e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;6.57e-07)|Ovarian(47;0.0569)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			AAGAAATCCTGGAACTGCTGA	0.607													5	14	---	---	---	---	PASS	T	39912892	T	T	39912892	2	4	53	1	0	0	0	0	0	0	0	1	12069	1335	47	3		3	PLEKHG2	19	39912892	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	21994253	39912892	19216091	218	20069										
ZFP112	7771	broad.mit.edu	37	chr19	44844689	44844689	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcaacatccttgaatgtcacCatctcctacaatgccaaaca	4	14	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr19:44844689C>A	uc010ejj.2	-	3	134	c.21G>T	c.(19-21)ATG>ATT	p.M7I	ZFP112_uc002ozc.3_Missense_Mutation_p.M1I|ZFP112_uc010xwy.1_Missense_Mutation_p.M24I|ZFP112_uc010xwz.1_Missense_Mutation_p.M6I	NM_001083335	NP_001076804	Q9UJU3	ZF112_HUMAN	zinc finger protein 228 isoform 1	7					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)	5						TGAATGTCACCATCTCCTACA	0.507													25	50	---	---	---	---	PASS	A	44844689	A	A	44844689	3	1	53	1	0	0	0	0	1	0	0	0	17635	594	21	3	2732	3	ZFP112	19	44844689	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	4931797	44844689	14284294	219	20070										
ZNF616	90317	broad.mit.edu	37	chr19	52618360	52618360	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	catcacatttatatggtttcTttcctgcatgaattatctga	5	8	3	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr19:52618360T>A	uc002pym.2	-	4	2340	c.2057A>T	c.(2056-2058)AAG>ATG	p.K686M	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	686					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		ATATGGTTTCTTTCCTGCATG	0.393													36	112	---	---	---	---	PASS	A	52618360	A	A	52618360	3	1	53	1	0	0	0	0	1	0	0	0	18038	1609	56	5	292	5	ZNF616	19	52618360	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	7773671	52618360	6510623	220	20071										
ANGPT4	51378	broad.mit.edu	37	chr20	853651	853651	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cgagaggcacgcagtgagtaGctggggcccttgaagtagtg	17	8	0	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr20:853651G>A	uc002wei.2	-	9	1567	c.1464C>T	c.(1462-1464)AGC>AGT	p.S488S	ANGPT4_uc010zpn.1_3'UTR	NM_015985	NP_057069	Q9Y264	ANGP4_HUMAN	angiopoietin 4 precursor	488	Fibrinogen C-terminal.				anti-apoptosis|blood coagulation|cellular response to hypoxia|leukocyte migration|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of peptidyl-tyrosine phosphorylation|signal transduction	extracellular space	receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			ovary(2)	2						GCAGTGAGTAGCTGGGGCCCT	0.582													8	36	---	---	---	---	PASS	A	853651	A	A	853651	2	1	53	1	0	0	0	0	0	0	0	1	612	962	34	3		3	ANGPT4	20	853651	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08		853651	62171869	221	20072										
PLCB4	5332	broad.mit.edu	37	chr20	9434026	9434026	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	atgcagaagttacactgcacGcaagttgacaaaattgtggc	10	8	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr20:9434026G>A	uc002wnf.2	+	31	3013	c.2877G>A	c.(2875-2877)ACG>ACA	p.T959T	PLCB4_uc010gbw.1_Silent_p.T959T|PLCB4_uc010gbx.2_Silent_p.T971T|PLCB4_uc002wne.2_Silent_p.T959T|PLCB4_uc002wnh.2_Silent_p.T806T	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	959					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						TACACTGCACGCAAGTTGACA	0.418													11	18	---	---	---	---	PASS	A	9434026	A	A	9434026	2	1	53	1	0	0	0	0	0	0	0	1	12030	1074	38	1		1	PLCB4	20	9434026	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	8580375	9434026	53591494	222	20073										
ZNFX1	57169	broad.mit.edu	37	chr20	47887968	47887968	+	Missense_Mutation	SNP	C	A	A													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ggcttctggtggggagtccgCcactgctggaagttgtcatt							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr20:47887968C>A	uc002xui.2	-	3	628	c.381G>T	c.(379-381)TGG>TGT	p.W127C		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	127							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GGGGAGTCCGCCACTGCTGGA	0.527													47	139	---	---	---	---	PASS	A	47887968	A	A	47887968	3	1	53	1	0	0	0	0	1	0	0	0	18202	740	26	3	5423	3	ZNFX1	20	47887968	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	38453942	47887968	15137552	223	20074	448	2								
ZNFX1	57169	broad.mit.edu	37	chr20	47887969	47887969	+	Missense_Mutation	SNP	C	A	A													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcttctggtggggagtccgcCactgctggaagttgtcattg							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr20:47887969C>A	uc002xui.2	-	3	627	c.380G>T	c.(379-381)TGG>TTG	p.W127L		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	127							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GGGAGTCCGCCACTGCTGGAA	0.527													46	135	---	---	---	---	PASS	A	47887969	A	A	47887969	3	1	53	1	0	0	0	0	1	0	0	0	18202	595	21	3	5424	3	ZNFX1	20	47887969	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	1	47887969	15137551	224	20075	448	2								
TPTE	7179	broad.mit.edu	37	chr21	10914394	10914394	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctaatgaaatagtggaaaagAcaacctttttctccatttct	5	8	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr21:10914394A>G	uc002yip.1	-	21	1693	c.1325T>C	c.(1324-1326)GTC>GCC	p.V442A	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.V424A|TPTE_uc002yir.1_Missense_Mutation_p.V404A|TPTE_uc010gkv.1_Missense_Mutation_p.V304A	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	442	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		AGTGGAAAAGACAACCTTTTT	0.323													4	44	---	---	---	---	PASS	G	10914394	G	G	10914394	3	3	53	1	0	0	0	0	1	0	0	0	16427	275	10	5	346	5	TPTE	21	10914394	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08		10914394	37215501	225	20076										
TIAM1	7074	broad.mit.edu	37	chr21	32598070	32598070	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	atattgttttctttttctttGagtcagtgactgaagacagc	8	6	3	4			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr21:32598070G>C	uc002yow.1	-	8	2253	c.1781C>G	c.(1780-1782)TCA>TGA	p.S594*	TIAM1_uc011adk.1_Nonsense_Mutation_p.S594*|TIAM1_uc011adl.1_Nonsense_Mutation_p.S594*|TIAM1_uc002yox.1_Nonsense_Mutation_p.S202*	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	594					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CTTTTTCTTTGAGTCAGTGAC	0.358													25	64	---	---	---	---	PASS	C	32598070	C	C	32598070	4	2	53	1	0	0	0	0	0	1	0	0	15887	1294	45	2	3082	2	TIAM1	21	32598070	Nonsense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	21683676	32598070	15531825	226	20077										
USP18	11274	broad.mit.edu	37	chr22	18650677	18650677	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gtggagagactgcaggccctGtatacgatccgggtgaagga	16	8	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr22:18650677G>T	uc002zny.2	+	6	839	c.501G>T	c.(499-501)CTG>CTT	p.L167L		NM_017414	NP_059110	Q9UMW8	UBP18_HUMAN	ubiquitin specific protease 18	167					regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway|ubiquitin-dependent protein catabolic process	cytosol|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			breast(1)	1						TGCAGGCCCTGTATACGATCC	0.547													11	33	---	---	---	---	PASS	T	18650677	T	T	18650677	2	4	53	1	0	0	0	0	0	0	0	1	17046	1364	48	3		3	USP18	22	18650677	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08		18650677	32653889	227	20078										
MED15	51586	broad.mit.edu	37	chr22	20929434	20929434	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cttggcccaaggtgggatgcAcataagagcccggttcccgc	13	13	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr22:20929434A>G	uc002zsp.2	+	9	1267	c.1187A>G	c.(1186-1188)CAC>CGC	p.H396R	MED15_uc002zsq.2_Intron|MED15_uc010gso.2_Intron|MED15_uc002zsr.2_Intron|MED15_uc011ahs.1_Intron|MED15_uc002zss.2_Intron|MED15_uc011ahu.1_Missense_Mutation_p.H122R|MED15_uc002zst.2_Missense_Mutation_p.H12R	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	396	Pro-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			GGTGGGATGCACATAAGAGCC	0.582													32	106	---	---	---	---	PASS	G	20929434	G	G	20929434	3	3	53	1	0	0	0	0	1	0	0	0	9433	159	6	5	1221	5	MED15	22	20929434	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	2278757	20929434	30375132	228	20079										
THAP7	80764	broad.mit.edu	37	chr22	21355637	21355637	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tcccacaggccctggccgctGgggtccagccgctggcagtt	14	16	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chr22:21355637G>A	uc002ztr.1	-	3	174	c.144C>T	c.(142-144)CCC>CCT	p.P48P	THAP7_uc002zts.1_Silent_p.P48P|FLJ39582_uc002ztt.1_5'Flank|FLJ39582_uc002ztu.1_5'Flank|FLJ39582_uc002ztv.2_5'Flank	NM_001008695	NP_001008695	Q9BT49	THAP7_HUMAN	THAP domain containing 7 isoform 2	48	THAP-type.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck	C2H2 zinc finger domain binding|DNA binding|metal ion binding|protein N-terminus binding				0	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			CCTGGCCGCTGGGGTCCAGCC	0.617													43	124	---	---	---	---	PASS	A	21355637	A	A	21355637	2	1	53	1	0	0	0	0	0	0	0	1	15846	1335	47	3		3	THAP7	22	21355637	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	426203	21355637	29948929	229	20080										
ASB9	140462	broad.mit.edu	37	chrX	15270382	15270382	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctcaacagatttacctctccTagcagcttcatggatggggg	10	11	3	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:15270382T>A	uc004cwl.2	-	4	674	c.427A>T	c.(427-429)AGG>TGG	p.R143W	ASB9_uc004cwk.2_Missense_Mutation_p.R143W|ASB9_uc004cwm.2_Missense_Mutation_p.R143W|ASB9_uc010ner.2_Missense_Mutation_p.R143W|ASB9_uc004cwn.2_Missense_Mutation_p.R114W	NM_001031739	NP_001026909	Q96DX5	ASB9_HUMAN	ankyrin repeat and SOCS box-containing 9 isoform	143	ANK 4.				intracellular signal transduction						0	Hepatocellular(33;0.183)					TTACCTCTCCTAGCAGCTTCA	0.443													10	25	---	---	---	---	PASS	A	15270382	A	A	15270382	3	1	53	1	0	0	0	0	1	0	0	0	1030	1521	53	5	502	5	ASB9	23	15270382	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08		15270382	140000178	230	20081										
CNKSR2	22866	broad.mit.edu	37	chrX	21627564	21627564	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgctaaatggaaatgggggcAagcctcgaagttttactctg	12	7	1	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:21627564A>T	uc004czx.1	+	20	2557	c.2521A>T	c.(2521-2523)AAG>TAG	p.K841*	CNKSR2_uc004czw.2_Nonsense_Mutation_p.K841*|CNKSR2_uc011mjn.1_Nonsense_Mutation_p.K792*|CNKSR2_uc011mjo.1_Nonsense_Mutation_p.K811*|CNKSR2_uc004czy.2_Nonsense_Mutation_p.K433*	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	841					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						AAATGGGGGCAAGCCTCGAAG	0.532													16	44	---	---	---	---	PASS	T	21627564	T	T	21627564	4	4	53	1	0	0	0	0	0	1	0	0	3607	131	5	5	2599	5	CNKSR2	23	21627564	Nonsense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	6357182	21627564	133642996	231	20082										
DDX53	168400	broad.mit.edu	37	chrX	23019932	23019932	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ggtgaattgattaaaattctGgacagagcaaatcagagtgt	11	4	2	4			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:23019932G>T	uc004daj.2	+	1	1846	c.1758G>T	c.(1756-1758)CTG>CTT	p.L586L		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	586	Helicase C-terminal.					nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						TTAAAATTCTGGACAGAGCAA	0.423													15	55	---	---	---	---	PASS	T	23019932	T	T	23019932	2	4	53	1	0	0	0	0	0	0	0	1	4371	1335	47	3		3	DDX53	23	23019932	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	1392368	23019932	132250628	232	20083										
PTCHD1	139411	broad.mit.edu	37	chrX	23397917	23397917	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aaggacgggagggctgtgtaCaatgggcaccagcttggggg	19	7	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:23397917C>A	uc004dal.3	+	2	569	c.561C>A	c.(559-561)TAC>TAA	p.Y187*	PTCHD1_uc010nfu.1_Nonsense_Mutation_p.Y187*	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	187					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						GGGCTGTGTACAATGGGCACC	0.532													35	91	---	---	---	---	PASS	A	23397917	A	A	23397917	4	1	53	1	0	0	0	0	0	1	0	0	12732	489	17	3	567	3	PTCHD1	23	23397917	Nonsense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	377985	23397917	131872643	233	20084										
FAM47C	442444	broad.mit.edu	37	chrX	37028238	37028238	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gtgtcccatctctgcccagaGcctcccaagactcgggtgtc	10	16	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:37028238G>A	uc004ddl.1	+	1	1769	c.1755G>A	c.(1753-1755)GAG>GAA	p.E585E		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	585										ovary(3)	3						TCTGCCCAGAGCCTCCCAAGA	0.642													19	42	---	---	---	---	PASS	A	37028238	A	A	37028238	2	1	53	1	0	0	0	0	0	0	0	1	5571	962	34	3		3	FAM47C	23	37028238	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	13630321	37028238	118242322	234	20085										
FAM47C	442444	broad.mit.edu	37	chrX	37028815	37028815	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tgtcccatctccacccagagCttcccaagcctcgggtatcc	7	18	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:37028815C>A	uc004ddl.1	+	1	2346	c.2332C>A	c.(2332-2334)CTT>ATT	p.L778I		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	778										ovary(3)	3						CCACCCAGAGCTTCCCAAGCC	0.632													7	32	---	---	---	---	PASS	A	37028815	A	A	37028815	3	1	53	1	0	0	0	0	1	0	0	0	5571	797	28	3	2334	3	FAM47C	23	37028815	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	577	37028815	118241745	235	20086										
ZNF157	7712	broad.mit.edu	37	chrX	47271926	47271926	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agaaaacaggctttgttagaCgtaaaagaacacccagagga	10	7	0	4			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:47271926C>A	uc004dhr.1	+	4	523	c.454C>A	c.(454-456)CGT>AGT	p.R152S		NM_003446	NP_003437	P51786	ZN157_HUMAN	zinc finger protein 157	152					negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTTTGTTAGACGTAAAAGAAC	0.373													18	36	---	---	---	---	PASS	A	47271926	A	A	47271926	3	1	53	1	0	0	0	0	1	0	0	0	17734	536	19	1	468	1	ZNF157	23	47271926	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	10243111	47271926	107998634	236	20087										
SYN1	6853	broad.mit.edu	37	chrX	47478795	47478795	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	accagcagcaccctggaggcGgctcccccgcggcctgcgcc	13	20	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:47478795G>T	uc004die.2	-	1	462	c.333C>A	c.(331-333)GCC>GCA	p.A111A	SYN1_uc004did.2_Silent_p.A111A	NM_006950	NP_008881	P17600	SYN1_HUMAN	synapsin I isoform Ia	111	B; linker.					cell junction|Golgi apparatus	actin binding|ATP binding|ligase activity|transporter activity			ovary(1)	1						CCCTGGAGGCGGCTCCCCCGC	0.716													3	7	---	---	---	---	PASS	T	47478795	T	T	47478795	2	4	53	1	0	0	0	0	0	0	0	1	15437	1103	39	1		1	SYN1	23	47478795	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	206869	47478795	107791765	237	20088										
CLCN5	1184	broad.mit.edu	37	chrX	49855383	49855383	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cttccatcatttatttcacgGagcattctcctccattgcca	4	14	3	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:49855383G>T	uc004dos.1	+	11	2238	c.1990G>T	c.(1990-1992)GAG>TAG	p.E664*	CLCN5_uc004dor.1_Nonsense_Mutation_p.E734*|CLCN5_uc004doq.1_Nonsense_Mutation_p.E734*|CLCN5_uc004dot.1_Nonsense_Mutation_p.E664*	NM_000084	NP_000075	P51795	CLCN5_HUMAN	chloride channel 5 isoform b	664	Cytoplasmic (By similarity).				excretion	apical part of cell|endosome membrane|Golgi membrane|integral to plasma membrane	antiporter activity|ATP binding			ovary(2)|lung(1)|central_nervous_system(1)	4	Ovarian(276;0.236)					TTATTTCACGGAGCATTCTCC	0.448													6	14	---	---	---	---	PASS	T	49855383	T	T	49855383	4	4	53	1	0	0	0	0	0	1	0	0	3466	1175	41	2	2246	2	CLCN5	23	49855383	Nonsense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	2376588	49855383	105415177	238	20089										
AKAP4	8852	broad.mit.edu	37	chrX	49958335	49958335	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttcatgagagagaccatcatGtcagatgccacctgatttgc	9	10	3	4			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:49958335G>T	uc004dow.1	-	5	1153	c.1029C>A	c.(1027-1029)GAC>GAA	p.D343E	AKAP4_uc004dov.1_Intron|AKAP4_uc010njp.1_Missense_Mutation_p.D165E|AKAP4_uc004dou.1_Missense_Mutation_p.D334E	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	343	PKA-RI-alpha subunit binding domain (By similarity).				cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					AGACCATCATGTCAGATGCCA	0.488													7	17	---	---	---	---	PASS	T	49958335	T	T	49958335	3	4	53	1	0	0	0	0	1	0	0	0	453	1368	48	3	1543	3	AKAP4	23	49958335	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	102952	49958335	105312225	239	20090										
CCNB3	85417	broad.mit.edu	37	chrX	50094328	50094328	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	caaactgctgactttcagttCttacgatagtctcaaggctg	8	10	3	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:50094328C>A	uc004dox.3	+	12	4347	c.4049C>A	c.(4048-4050)TCT>TAT	p.S1350Y	CCNB3_uc004doy.2_Missense_Mutation_p.S1350Y|CCNB3_uc004doz.2_Missense_Mutation_p.S246Y|CCNB3_uc010njq.2_Missense_Mutation_p.S242Y|CCNB3_uc004dpa.2_Missense_Mutation_p.S189Y	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1350					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					ACTTTCAGTTCTTACGATAGT	0.458													51	137	---	---	---	---	PASS	A	50094328	A	A	50094328	3	1	53	1	0	0	0	0	1	0	0	0	2914	913	32	2	4087	2	CCNB3	23	50094328	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	135993	50094328	105176232	240	20091										
ARHGEF9	23229	broad.mit.edu	37	chrX	62857963	62857963	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gccagaatggtgactggctgCgcttgggttcggtgaactca	15	9	1	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:62857963C>T	uc004dvl.2	-	10	2335	c.1496G>A	c.(1495-1497)CGC>CAC	p.R499H	ARHGEF9_uc004dvj.1_Missense_Mutation_p.R388H|ARHGEF9_uc004dvk.1_Missense_Mutation_p.R317H|ARHGEF9_uc011mos.1_Missense_Mutation_p.R478H|ARHGEF9_uc004dvm.1_Missense_Mutation_p.R478H|ARHGEF9_uc011mot.1_Missense_Mutation_p.R446H	NM_015185	NP_056000	O43307	ARHG9_HUMAN	Cdc42 guanine exchange factor 9	499					apoptosis|induction of apoptosis by extracellular signals|ion transmembrane transport|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(5)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	8						TGACTGGCTGCGCTTGGGTTC	0.488													3	11	---	---	---	---	PASS	T	62857963	T	T	62857963	3	4	53	1	0	0	0	0	1	0	0	0	912	768	27	1	58	1	ARHGEF9	23	62857963	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	12763635	62857963	92412597	241	20092										
ZMYM3	9203	broad.mit.edu	37	chrX	70469503	70469503	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctgcagagccggtgtaccacGctgccattgctgacctcgtg	12	14	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:70469503G>A	uc004dzh.1	-	7	1365	c.1278C>T	c.(1276-1278)AGC>AGT	p.S426S	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Silent_p.S426S|ZMYM3_uc004dzj.1_Silent_p.S426S|ZMYM3_uc011mpu.1_Silent_p.S157S|ZMYM3_uc004dzk.3_Silent_p.S426S|ZMYM3_uc004dzl.3_Silent_p.S426S|ZMYM3_uc004dzm.3_Silent_p.S426S	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	426					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					GGTGTACCACGCTGCCATTGC	0.592													3	16	---	---	---	---	PASS	A	70469503	A	A	70469503	2	1	53	1	0	0	0	0	0	0	0	1	17698	1078	38	1		1	ZMYM3	23	70469503	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	7611540	70469503	84801057	242	20093										
HDAC8	55869	broad.mit.edu	37	chrX	71708787	71708787	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agtgttactgccatacctttCacagatctggtaatattttt	6	8	2	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:71708787C>A	uc004eau.2	-	7	775	c.733G>T	c.(733-735)GAA>TAA	p.E245*	HDAC8_uc011mqe.1_Nonsense_Mutation_p.E102*|HDAC8_uc011mqf.1_Nonsense_Mutation_p.E50*|HDAC8_uc011mqg.1_Nonsense_Mutation_p.E154*|HDAC8_uc011mqh.1_Nonsense_Mutation_p.E154*|HDAC8_uc010nlk.1_Nonsense_Mutation_p.E116*|HDAC8_uc004eav.2_Nonsense_Mutation_p.E245*|HDAC8_uc004eaw.2_RNA	NM_018486	NP_060956	Q9BY41	HDAC8_HUMAN	histone deacetylase 8	245	Histone deacetylase.				chromatin assembly or disassembly|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nuclear chromosome	histone deacetylase activity (H3-K16 specific)|metal ion binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding				0	Renal(35;0.156)				Vorinostat(DB02546)	CCATACCTTTCACAGATCTGG	0.423													21	34	---	---	---	---	PASS	A	71708787	A	A	71708787	4	1	53	1	0	0	0	0	0	1	0	0	7013	835	29	2	458	2	HDAC8	23	71708787	Nonsense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	1239284	71708787	83561773	243	20094										
NAP1L2	4674	broad.mit.edu	37	chrX	72433074	72433074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	attaacttctctaactacccCctcctgctgagattccagtg	5	14	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:72433074C>A	uc004ebi.2	-	1	1611	c.1255G>T	c.(1255-1257)GGG>TGG	p.G419W	NAP1L2_uc011mqj.1_Missense_Mutation_p.G277W	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	419					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					CTAACTACCCCCTCCTGCTGA	0.338													7	38	---	---	---	---	PASS	A	72433074	A	A	72433074	3	1	53	1	0	0	0	0	1	0	0	0	10157	623	22	3	131	3	NAP1L2	23	72433074	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	724287	72433074	82837486	244	20095										
BRWD3	254065	broad.mit.edu	37	chrX	79999651	79999651	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	gcaataagagtgttttcataGttaacagccatgtcagaaat	8	6	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:79999651G>C	uc004edt.2	-	8	956	c.693C>G	c.(691-693)AAC>AAG	p.N231K	BRWD3_uc004edo.2_5'UTR|BRWD3_uc004edp.2_Missense_Mutation_p.N60K|BRWD3_uc004edq.2_5'UTR|BRWD3_uc010nmj.1_5'UTR|BRWD3_uc004edr.2_5'UTR|BRWD3_uc004eds.2_5'UTR|BRWD3_uc004edu.2_5'UTR|BRWD3_uc004edv.2_5'UTR|BRWD3_uc004edw.2_5'UTR|BRWD3_uc004edx.2_5'UTR|BRWD3_uc004edy.2_5'UTR|BRWD3_uc004edz.2_5'UTR|BRWD3_uc004eea.2_5'UTR|BRWD3_uc004eeb.2_Intron	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	231	WD 3.									ovary(4)	4						TGTTTTCATAGTTAACAGCCA	0.448													18	75	---	---	---	---	PASS	C	79999651	C	C	79999651	3	2	53	1	0	0	0	0	1	0	0	0	1526	1020	36	4	4851	4	BRWD3	23	79999651	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	7566577	79999651	75270909	245	20096										
PCDH11X	27328	broad.mit.edu	37	chrX	91134108	91134108	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttcagcctgaaactcccctgAattcgaagcaccacatcatc	5	15	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:91134108A>C	uc004efk.1	+	2	3714	c.2869A>C	c.(2869-2871)AAT>CAT	p.N957H	PCDH11X_uc004efl.1_Missense_Mutation_p.N957H|PCDH11X_uc004efo.1_Missense_Mutation_p.N957H|PCDH11X_uc010nmv.1_Missense_Mutation_p.N957H|PCDH11X_uc004efm.1_Missense_Mutation_p.N957H|PCDH11X_uc004efn.1_Missense_Mutation_p.N957H|PCDH11X_uc004efh.1_Missense_Mutation_p.N957H|PCDH11X_uc004efj.1_Missense_Mutation_p.N957H	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	957	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						AACTCCCCTGAATTCGAAGCA	0.502													44	115	---	---	---	---	PASS	C	91134108	C	C	91134108	3	2	53	1	0	0	0	0	1	0	0	0	11508	246	9	5	2875	5	PCDH11X	23	91134108	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	11134457	91134108	64136452	246	20097										
TAF7L	54457	broad.mit.edu	37	chrX	100530214	100530214	+	Missense_Mutation	SNP	T	C	C													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	aaaacatacttcttaccttcTcatttttttgtttttcctgt							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:100530214T>C	uc004ehb.2	-	12	1352	c.1340A>G	c.(1339-1341)GAG>GGG	p.E447G	TAF7L_uc004eha.2_Missense_Mutation_p.E287G	NM_024885	NP_079161	Q5H9L4	TAF7L_HUMAN	TATA box binding protein-associated factor, RNA	447	Potential.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription initiation from RNA polymerase II promoter	cytoplasm|transcription factor TFIID complex	binding			breast(1)	1						TCTTACCTTCTCATTTTTTTG	0.343													33	100	---	---	---	---	PASS	C	100530214	C	C	100530214	3	2	53	1	0	0	0	0	1	0	0	0	15530	1551	54	5	56	5	TAF7L	23	100530214	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	9396106	100530214	54740346	247	20098	449	2								
TAF7L	54457	broad.mit.edu	37	chrX	100530223	100530223	+	Missense_Mutation	SNP	T	G	G													0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ttcttaccttctcattttttTgtttttcctgtaactcaagc							TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:100530223T>G	uc004ehb.2	-	12	1343	c.1331A>C	c.(1330-1332)CAA>CCA	p.Q444P	TAF7L_uc004eha.2_Missense_Mutation_p.Q284P	NM_024885	NP_079161	Q5H9L4	TAF7L_HUMAN	TATA box binding protein-associated factor, RNA	444	Potential.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription initiation from RNA polymerase II promoter	cytoplasm|transcription factor TFIID complex	binding			breast(1)	1						CTCATTTTTTTGTTTTTCCTG	0.323													35	101	---	---	---	---	PASS	G	100530223	G	G	100530223	3	3	53	1	0	0	0	0	1	0	0	0	15530	1812	63	5	65	5	TAF7L	23	100530223	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	9	100530223	54740337	248	20099	449	2								
MORF4L2	9643	broad.mit.edu	37	chrX	102931102	102931102	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tagacgctcacagggctttgCggtggtactcagcagaagcc	13	11	2	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:102931102C>T	uc004ekw.2	-	4	2086	c.854G>A	c.(853-855)CGC>CAC	p.R285H	MORF4L2_uc004ela.2_Missense_Mutation_p.R285H|MORF4L2_uc004ekx.2_Missense_Mutation_p.R285H|MORF4L2_uc004elb.2_Missense_Mutation_p.R285H|MORF4L2_uc004eky.2_Missense_Mutation_p.R285H|MORF4L2_uc010nos.2_Missense_Mutation_p.R285H|MORF4L2_uc004ekz.2_Missense_Mutation_p.R285H|MORF4L2_uc011mry.1_Missense_Mutation_p.R285H|MORF4L2_uc011mrz.1_Missense_Mutation_p.R285H|MORF4L2_uc004elc.2_Missense_Mutation_p.R285H|MORF4L2_uc004elf.2_Missense_Mutation_p.R285H|MORF4L2_uc004ele.2_Missense_Mutation_p.R285H|MORF4L2_uc011msa.1_Missense_Mutation_p.R285H|MORF4L2_uc011msb.1_Missense_Mutation_p.R285H|MORF4L2_uc011msc.1_Missense_Mutation_p.R285H|MORF4L2_uc011msd.1_Missense_Mutation_p.R285H|MORF4L2_uc004eld.2_Missense_Mutation_p.R285H	NM_012286	NP_036418	Q15014	MO4L2_HUMAN	mortality factor 4 like 2	285					chromatin modification|DNA repair|regulation of cell growth|transcription, DNA-dependent	nucleolus	protein binding				0						CAGGGCTTTGCGGTGGTACTC	0.388													27	98	---	---	---	---	PASS	T	102931102	T	T	102931102	3	4	53	1	0	0	0	0	1	0	0	0	9707	768	27	1	16	1	MORF4L2	23	102931102	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	2400879	102931102	52339458	249	20100										
TBC1D8B	54885	broad.mit.edu	37	chrX	106083280	106083280	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	atttttctgtcattacagttGaaagaaaaaatgaaggaaca	7	4	2	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:106083280G>A	uc004emo.2	+	9	1521	c.1356G>A	c.(1354-1356)TTG>TTA	p.L452L	MORC4_uc004emp.3_Intron|TBC1D8B_uc004emn.2_Silent_p.L452L	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	452						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						CATTACAGTTGAAAGAAAAAA	0.328													12	39	---	---	---	---	PASS	A	106083280	A	A	106083280	2	1	53	1	0	0	0	0	0	0	0	1	15623	1281	45	2		2	TBC1D8B	23	106083280	Silent	SNP	G	TCGA-22-5492-01A-01D-1632-08	3152178	106083280	49187280	250	20101										
UPF3B	65109	broad.mit.edu	37	chrX	118986836	118986836	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cgctgcctgtggccccggcgGgggttaacagggttactcgc	16	13	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:118986836G>A	uc004erz.1	-	1	133	c.56C>T	c.(55-57)CCC>CTC	p.P19L	UPF3B_uc004esa.1_Missense_Mutation_p.P19L	NM_080632	NP_542199	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B	19					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|termination of RNA polymerase II transcription	cytosol|exon-exon junction complex|nucleoplasm	mRNA binding|nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(2)|kidney(1)	3						GGCCCCGGCGGGGGTTAACAG	0.617													40	118	---	---	---	---	PASS	A	118986836	A	A	118986836	3	1	53	1	0	0	0	0	1	0	0	0	17003	1232	43	3	1439	3	UPF3B	23	118986836	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	12903556	118986836	36283724	251	20102										
ZNF280C	55609	broad.mit.edu	37	chrX	129394398	129394398	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	agcagaaatacttactttttGgttgaaaaggtttgtcgtca	9	5	1	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:129394398G>T	uc004evm.2	-	2	180	c.26C>A	c.(25-27)CCA>CAA	p.P9Q	ZNF280C_uc010nrf.1_Missense_Mutation_p.P9Q	NM_017666	NP_060136	Q8ND82	Z280C_HUMAN	zinc finger protein 280C	9					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)	3						CTTACTTTTTGGTTGAAAAGG	0.353													13	52	---	---	---	---	PASS	T	129394398	T	T	129394398	3	4	53	1	0	0	0	0	1	0	0	0	17813	1348	47	3	2259	3	ZNF280C	23	129394398	Missense_Mutation	SNP	G	TCGA-22-5492-01A-01D-1632-08	10407562	129394398	25876162	252	20103										
MBNL3	55796	broad.mit.edu	37	chrX	131526209	131526209	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	catcagttttgggccaacagCtcctggcattgcaagaggtg	12	10	1	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:131526209C>A	uc004ewv.3	-	3	575	c.496G>T	c.(496-498)GCT>TCT	p.A166S	uc004ewr.1_Intron|MBNL3_uc004eww.2_Missense_Mutation_p.A70S|MBNL3_uc004ews.2_Missense_Mutation_p.A70S|MBNL3_uc004ewt.2_Missense_Mutation_p.A116S|MBNL3_uc011muz.1_Missense_Mutation_p.A70S|MBNL3_uc004ewu.3_Missense_Mutation_p.A166S|MBNL3_uc004ewx.1_Missense_Mutation_p.A116S	NM_018388	NP_060858	Q9NUK0	MBNL3_HUMAN	muscleblind-like 3 isoform G	166	Pro-rich.				mRNA processing|multicellular organismal development|regulation of RNA splicing|RNA splicing	Golgi apparatus|nucleus	nucleic acid binding|zinc ion binding				0	Acute lymphoblastic leukemia(192;0.000127)					GGGCCAACAGCTCCTGGCATT	0.423													6	45	---	---	---	---	PASS	A	131526209	A	A	131526209	3	1	53	1	0	0	0	0	1	0	0	0	9355	797	28	3	653	3	MBNL3	23	131526209	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	2131811	131526209	23744351	253	20104										
RBMX	27316	broad.mit.edu	37	chrX	135958741	135958741	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ggaggacccccacttcttggTggtggtcctctttttactgg	12	11	2	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:135958741T>A	uc004fae.1	-	5	672	c.462A>T	c.(460-462)CCA>CCT	p.P154P	RBMX_uc004fac.1_5'Flank|RBMX_uc011mwf.1_Intron|RBMX_uc004fad.1_Silent_p.P154P|RBMX_uc011mwg.1_Silent_p.P115P|RBMX_uc004faf.1_Silent_p.P15P|RBMX_uc010nsf.1_Silent_p.P115P|RBMX_uc004fag.1_Silent_p.P26P	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	154						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					CACTTCTTGGTGGTGGTCCTC	0.448													32	116	---	---	---	---	PASS	A	135958741	A	A	135958741	2	1	53	1	0	0	0	0	0	0	0	1	13151	1683	59	5		5	RBMX	23	135958741	Silent	SNP	T	TCGA-22-5492-01A-01D-1632-08	4432532	135958741	19311819	254	20105										
MAGEA4	4103	broad.mit.edu	37	chrX	151092423	151092423	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	cagccaagaagaggaggggcCaagcacctcgcctgacgcag	14	13	0	3			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:151092423C>A	uc004fez.2	+	3	443	c.287C>A	c.(286-288)CCA>CAA	p.P96Q	MAGEA4_uc004ffa.2_Missense_Mutation_p.P96Q|MAGEA4_uc004ffb.2_Missense_Mutation_p.P96Q|MAGEA4_uc004ffc.2_Missense_Mutation_p.P96Q|MAGEA4_uc004ffd.2_Missense_Mutation_p.P96Q	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	96				GP -> EA (in Ref. 3; BAA06841).			protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GAGGAGGGGCCAAGCACCTCG	0.567													18	68	---	---	---	---	PASS	A	151092423	A	A	151092423	3	1	53	1	0	0	0	0	1	0	0	0	9168	594	21	3	289	3	MAGEA4	23	151092423	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	15133682	151092423	4178137	255	20106										
GABRQ	55879	broad.mit.edu	37	chrX	151820229	151820229	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	ctaccgctaccagcaagtggTggtaggaaacgtgcaggttt	13	9	0	0			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:151820229T>C	uc004ffp.1	+	8	1162	c.1142T>C	c.(1141-1143)GTG>GCG	p.V381A		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	381						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CAGCAAGTGGTGGTAGGAAAC	0.517													27	41	---	---	---	---	PASS	C	151820229	C	C	151820229	3	2	53	1	0	0	0	0	1	0	0	0	6175	1696	59	5	1172	5	GABRQ	23	151820229	Missense_Mutation	SNP	T	TCGA-22-5492-01A-01D-1632-08	727806	151820229	3450331	256	20107										
ATP2B3	492	broad.mit.edu	37	chrX	152845732	152845732	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	tccagtcccgggagcccgctCcacagcgtggagacgtccct	12	17	0	1			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:152845732C>A	uc004fht.1	+	20	3765	c.3639C>A	c.(3637-3639)CTC>CTA	p.L1213L	ATP2B3_uc004fhs.1_3'UTR|ATP2B3_uc010nuf.1_Silent_p.L350L|ATP2B3_uc004fhu.1_Silent_p.L165L	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	1213	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGAGCCCGCTCCACAGCGTGG	0.388													12	21	---	---	---	---	PASS	A	152845732	A	A	152845732	2	1	53	1	0	0	0	0	0	0	0	1	1141	842	30	2		2	ATP2B3	23	152845732	Silent	SNP	C	TCGA-22-5492-01A-01D-1632-08	1025503	152845732	2424828	257	20108										
OPN1LW	5956	broad.mit.edu	37	chrX	153418503	153418503	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	caatgtgagatttgatgccaAgctggccatcgtgggcattg	13	8	0	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:153418503A>C	uc004fjz.3	+	3	533	c.500A>C	c.(499-501)AAG>ACG	p.K167T		NM_020061	NP_064445	P04000	OPSR_HUMAN	opsin 1 (cone pigments), long-wave-sensitive	167	Cytoplasmic.				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0	all_cancers(53;1.83e-16)|all_epithelial(53;2.73e-10)|all_lung(58;6.39e-07)|Lung NSC(58;8.37e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TTTGATGCCAAGCTGGCCATC	0.577													7	28	---	---	---	---	PASS	C	153418503	C	C	153418503	3	2	53	1	0	0	0	0	1	0	0	0	10877	72	3	5	510	5	OPN1LW	23	153418503	Missense_Mutation	SNP	A	TCGA-22-5492-01A-01D-1632-08	572771	153418503	1852057	258	20109										
F8	2157	broad.mit.edu	37	chrX	154182312	154182312	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0637450199203187	16	0.216398287547725	1.2991118077325	2.10150439486139	0.793901660280971	0.353412512653542	0.753662828188879	0	atgacattcctcttgtctgaCattatctgttaattacatat	4	8	3	2			TCGA-22-5492-01A-01D-1632-08	TCGA-22-5492-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	abc94013-71f5-4ac6-88a4-01b4ef9f9d2f	d888d563-4af8-4487-9e42-7a4595d962df	g.chrX:154182312C>A	uc004fmt.2	-	12	1929	c.1758G>T	c.(1756-1758)ATG>ATT	p.M586I		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	586	F5/8 type A 2.|Plastocyanin-like 4.		M -> V (in HEMA; mild).		acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TCTTGTCTGACATTATCTGTT	0.418													35	91	---	---	---	---	PASS	A	154182312	A	A	154182312	3	1	53	1	0	0	0	0	1	0	0	0	5350	478	17	3	5385	3	F8	23	154182312	Missense_Mutation	SNP	C	TCGA-22-5492-01A-01D-1632-08	763809	154182312	1088248	259	20110										
KIAA1751	85452	broad.mit.edu	37	chr1	1920058	1920058	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcctcagctgttttcttcttCaatttatcagcatcagtatc	4	11	6	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:1920058C>A	uc001aim.1	-	4	345	c.189G>T	c.(187-189)TTG>TTT	p.L63F	KIAA1751_uc009vkz.1_Missense_Mutation_p.L63F|KIAA1751_uc001ain.1_Missense_Mutation_p.L63F	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	63										pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		TTTTCTTCTTCAATTTATCAG	0.498													96	108	---	---	---	---	PASS	A	1920058	A	A	1920058	3	1	54	1	0	0	0	0	1	0	0	0	8256	825	29	2	2159	2	KIAA1751	1	1920058	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08		1920058	247330563	1	20111										
CLSTN1	22883	broad.mit.edu	37	chr1	9794028	9794028	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtggctgcagcgctccccttAcctgtgaaggtcatgcccag	12	14	1	1	rs111547640		TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:9794028A>G	uc001aqh.2	-	15	3040	c.2281_splice	c.e15+1	p.G761_splice	CLSTN1_uc001aqi.2_Splice_Site_p.G751_splice|CLSTN1_uc010oag.1_Splice_Site_p.G742_splice|CLSTN1_uc001aqf.2_5'Flank	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1						homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		CGCTCCCCTTACCTGTGAAGG	0.597													8	155	---	---	---	---	PASS	G	9794028	G	G	9794028	5	3	54	1	0	0	0	0	0	0	1	0	3561	405	14	5	682	5	CLSTN1	1	9794028	Splice_Site	SNP	A	TCGA-33-4532-01A-01D-1267-08	7873970	9794028	239456593	2	20112										
CASP9	842	broad.mit.edu	37	chr1	15821807	15821807	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cacaaagatgtcactgggtgTgggcaaactagatatggcgt	13	7	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:15821807T>C	uc001awn.2	-	7	1104	c.1009A>G	c.(1009-1011)ACA>GCA	p.T337A	CASP9_uc001awm.1_Missense_Mutation_p.T337A|CASP9_uc001awo.2_Missense_Mutation_p.T187A|CASP9_uc001awp.2_Missense_Mutation_p.T181A|CASP9_uc009voi.2_Missense_Mutation_p.T181A|CASP9_uc010obm.1_Missense_Mutation_p.T254A|CASP9_uc001awq.2_Missense_Mutation_p.T254A	NM_001229	NP_001220	P55211	CASP9_HUMAN	caspase 9 isoform alpha preproprotein	337					activation of caspase activity by cytochrome c|induction of apoptosis by intracellular signals|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol	cysteine-type endopeptidase activity|enzyme activator activity|protein binding			central_nervous_system(1)|kidney(1)	2		Breast(348;0.000207)|all_lung(284;0.000211)|Colorectal(325;0.000259)|Lung NSC(340;0.000269)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;8.49e-07)|COAD - Colon adenocarcinoma(227;4.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00013)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00763)|READ - Rectum adenocarcinoma(331;0.0655)		TCACTGGGTGTGGGCAAACTA	0.582													15	23	---	---	---	---	PASS	C	15821807	C	C	15821807	3	2	54	1	0	0	0	0	1	0	0	0	2679	1696	59	5	253	5	CASP9	1	15821807	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	6027779	15821807	233428814	3	20113										
NBPF1	55672	broad.mit.edu	37	chr1	16902816	16902816	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tctacacccctcagccagctGttcttggaggtcctgcccct	8	17	3	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:16902816G>A	uc009vos.1	-	19	2953	c.2065C>T	c.(2065-2067)CAG>TAG	p.Q689*	NBPF1_uc009vot.1_Intron|NBPF1_uc001ayz.1_Nonsense_Mutation_p.Q147*|NBPF1_uc010oce.1_Nonsense_Mutation_p.Q418*	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	689						cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TCAGCCAGCTGTTCTTGGAGG	0.582													34	883	---	---	---	---	PASS	A	16902816	A	A	16902816	4	1	54	1	0	0	0	0	0	1	0	0	10192	1386	48	3	1403	3	NBPF1	1	16902816	Nonsense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1081009	16902816	232347805	4	20114										
UBXN10	127733	broad.mit.edu	37	chr1	20517189	20517189	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cccaagtccgccaagggacgGacaagaccgagtctgcagaa	12	13	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:20517189G>T	uc001bdb.2	+	2	219	c.135G>T	c.(133-135)CGG>CGT	p.R45R		NM_152376	NP_689589	Q96LJ8	UBX10_HUMAN	UBX domain protein 10	45										ovary(1)	1						CCAAGGGACGGACAAGACCGA	0.532													73	77	---	---	---	---	PASS	T	20517189	T	T	20517189	2	4	54	1	0	0	0	0	0	0	0	1	16909	1161	41	2		2	UBXN10	1	20517189	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	3614373	20517189	228733432	5	20115										
EPHA8	2046	broad.mit.edu	37	chr1	22915561	22915561	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgccccagcagacaagcctgGtgcaggccagcctgctggtg	14	14	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:22915561G>T	uc001bfx.1	+	5	1302	c.1177G>T	c.(1177-1179)GTG>TTG	p.V393L	EPHA8_uc001bfw.2_Missense_Mutation_p.V393L	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	393	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GACAAGCCTGGTGCAGGCCAG	0.672													8	29	---	---	---	---	PASS	T	22915561	T	T	22915561	3	4	54	1	0	0	0	0	1	0	0	0	5173	1261	44	3	1195	3	EPHA8	1	22915561	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	2398372	22915561	226335060	6	20116										
CSMD2	114784	broad.mit.edu	37	chr1	34238179	34238179	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgctcacttacacacgcagcCtggcttcttagccgaccatt	7	15	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:34238179C>G	uc001bxn.1	-	13	1746	c.1717G>C	c.(1717-1719)GGC>CGC	p.G573R	CSMD2_uc001bxm.1_Missense_Mutation_p.G613R	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	573	Sushi 3.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CACACGCAGCCTGGCTTCTTA	0.587													38	128	---	---	---	---	PASS	G	34238179	G	G	34238179	3	3	54	1	0	0	0	0	1	0	0	0	3945	681	24	4	8974	4	CSMD2	1	34238179	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	11322618	34238179	215012442	7	20117										
CSF3R	1441	broad.mit.edu	37	chr1	36941098	36941098	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gatgatagattcctgggtccCatcagacagacgctgctgcc	11	12	1	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:36941098C>T	uc001caw.1	-	4	419	c.241G>A	c.(241-243)GGG>AGG	p.G81R	CSF3R_uc001cav.1_Missense_Mutation_p.G81R|CSF3R_uc001cax.1_Missense_Mutation_p.G81R|CSF3R_uc001cay.1_Missense_Mutation_p.G81R	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	81	Ig-like C2-type.|Extracellular (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	TCCTGGGTCCCATCAGACAGA	0.602													84	70	---	---	---	---	PASS	T	36941098	T	T	36941098	3	4	54	1	0	0	0	0	1	0	0	0	3937	594	21	3	2515	3	CSF3R	1	36941098	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	2702919	36941098	212309523	8	20118										
AKIRIN1	79647	broad.mit.edu	37	chr1	39457232	39457232	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccaccgcagagtctgcagcaGcccgccccgcccggcagcga	12	20	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:39457232G>T	uc001ccw.2	+	1	317	c.180G>T	c.(178-180)CAG>CAT	p.Q60H	AKIRIN1_uc010oip.1_Missense_Mutation_p.Q60H|AKIRIN1_uc010oiq.1_Missense_Mutation_p.Q60H	NM_024595	NP_078871	Q9H9L7	AKIR1_HUMAN	akirin 1 isoform 1	60	Pro-rich.					nucleus					0						GTCTGCAGCAGCCCGCCCCGC	0.736													3	3	---	---	---	---	PASS	T	39457232	T	T	39457232	3	4	54	1	0	0	0	0	1	0	0	0	461	962	34	3	182	3	AKIRIN1	1	39457232	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	2516134	39457232	209793389	9	20119										
MACF1	23499	broad.mit.edu	37	chr1	39696876	39696876	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaacgggaccgggttcagaaGaaaacgttcaccaagtgggt	14	8	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:39696876G>C	uc010ois.1	+	4	448	c.243G>C	c.(241-243)AAG>AAC	p.K81N	MACF1_uc001cda.1_5'UTR|MACF1_uc010oit.1_Missense_Mutation_p.K44N	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	81	Actin-binding.|CH 1.				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)			GGGTTCAGAAGAAAACGTTCA	0.512													90	472	---	---	---	---	PASS	C	39696876	C	C	39696876	3	2	54	1	0	0	0	0	1	0	0	0	9144	933	33	2	249	2	MACF1	1	39696876	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	239644	39696876	209553745	10	20120										
NT5C1A	84618	broad.mit.edu	37	chr1	40131788	40131788	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	actgaagggttcgttctcatGttccagctggtagcgcacgt	12	10	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:40131788G>T	uc001cdq.1	-	2	256	c.256C>A	c.(256-258)CAT>AAT	p.H86N		NM_032526	NP_115915	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	86					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1	Lung NSC(20;3.81e-06)|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;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TCGTTCTCATGTTCCAGCTGG	0.478													66	123	---	---	---	---	PASS	T	40131788	T	T	40131788	3	4	54	1	0	0	0	0	1	0	0	0	10685	1377	48	3	870	3	NT5C1A	1	40131788	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	434912	40131788	209118833	11	20121										
ZNF642	339559	broad.mit.edu	37	chr1	40954798	40954798	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gacatatctattgacttcacCcaggaagagtgggggcagct	12	9	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:40954798C>G	uc001cfo.2	+	4	552	c.258C>G	c.(256-258)ACC>ACG	p.T86T	ZNF642_uc009vwb.2_Silent_p.T86T|ZNF642_uc010ojk.1_Silent_p.T86T	NM_198494	NP_940896	Q49AA0	ZN642_HUMAN	zinc finger protein 642	86	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.81e-19)			TTGACTTCACCCAGGAAGAGT	0.468													18	127	---	---	---	---	PASS	G	40954798	G	G	40954798	2	3	54	1	0	0	0	0	0	0	0	1	18055	610	22	4		4	ZNF642	1	40954798	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	823010	40954798	208295823	12	20122										
TIE1	7075	broad.mit.edu	37	chr1	43778111	43778111	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcgcctgtgggacgggacacGggggcaggagcggcgggaga	23	9	0	1	rs148519949	byFrequency	TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:43778111G>T	uc001ciu.2	+	12	1845	c.1766G>T	c.(1765-1767)CGG>CTG	p.R589L	TIE1_uc010okd.1_Missense_Mutation_p.R589L|TIE1_uc010oke.1_Missense_Mutation_p.R544L|TIE1_uc009vwq.2_Missense_Mutation_p.R545L|TIE1_uc010okf.1_Missense_Mutation_p.R234L|TIE1_uc010okg.1_Missense_Mutation_p.R234L	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	589	Fibronectin type-III 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GACGGGACACGGGGGCAGGAG	0.697													44	80	---	---	---	---	PASS	T	43778111	T	T	43778111	3	4	54	1	0	0	0	0	1	0	0	0	15890	1116	39	1	1812	1	TIE1	1	43778111	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	2823313	43778111	205472510	13	20123										
SLC1A7	6512	broad.mit.edu	37	chr1	53569154	53569154	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgggagccattctcctcctgGaccccgtagatgaggatccg	12	13	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:53569154G>C	uc001cuy.2	-	5	729	c.561C>G	c.(559-561)GTC>GTG	p.V187V		NM_006671	NP_006662	O00341	EAA5_HUMAN	solute carrier family 1 (glutamate transporter),	187	Extracellular (Potential).					integral to membrane|plasma membrane	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|large_intestine(1)	3				Colorectal(1306;0.234)	L-Glutamic Acid(DB00142)	TCTCCTCCTGGACCCCGTAGA	0.637													19	43	---	---	---	---	PASS	C	53569154	C	C	53569154	2	2	54	1	0	0	0	0	0	0	0	1	14437	1161	41	2		2	SLC1A7	1	53569154	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	9791043	53569154	195681467	14	20124										
C8A	731	broad.mit.edu	37	chr1	57351626	57351626	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	attttcacaagaatcttcacAaaggtgcagactgcacattt	6	9	3	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:57351626A>T	uc001cyo.2	+	7	1014	c.882A>T	c.(880-882)ACA>ACT	p.T294T		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	294	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						GAATCTTCACAAAGGTGCAGA	0.363													57	73	---	---	---	---	PASS	T	57351626	T	T	57351626	2	4	54	1	0	0	0	0	0	0	0	1	2416	117	5	5		5	C8A	1	57351626	Silent	SNP	A	TCGA-33-4532-01A-01D-1267-08	3782472	57351626	191898995	15	20125										
INSL5	10022	broad.mit.edu	37	chr1	67266898	67266898	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aaacagagtgaaaatggagcCcttcattttgctgaggactg	11	7	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:67266898C>A	uc001dcw.2	-	1	42	c.7G>T	c.(7-9)GGC>TGC	p.G3C		NM_005478	NP_005469	Q9Y5Q6	INSL5_HUMAN	insulin-like 5 precursor	3						extracellular region	hormone activity				0						AAAATGGAGCCCTTCATTTTG	0.403													16	31	---	---	---	---	PASS	A	67266898	A	A	67266898	3	1	54	1	0	0	0	0	1	0	0	0	7769	623	22	3	408	3	INSL5	1	67266898	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	9915272	67266898	181983723	16	20126										
WDR78	79819	broad.mit.edu	37	chr1	67337155	67337155	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	atataggtcattgcctaatcTgtttctacaaaggacttcat	6	8	4	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:67337155T>A	uc001dcx.2	-	6	894	c.838A>T	c.(838-840)AGA>TGA	p.R280*	WDR78_uc001dcy.2_Nonsense_Mutation_p.R280*|WDR78_uc001dcz.2_Nonsense_Mutation_p.R280*|WDR78_uc009waw.2_Nonsense_Mutation_p.R26*|WDR78_uc009wax.2_RNA	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	280										ovary(2)	2						TTGCCTAATCTGTTTCTACAA	0.313													34	52	---	---	---	---	PASS	A	67337155	A	A	67337155	4	1	54	1	0	0	0	0	0	1	0	0	17325	1588	55	5	1813	5	WDR78	1	67337155	Nonsense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	70257	67337155	181913466	17	20127										
C1orf173	127254	broad.mit.edu	37	chr1	75038644	75038644	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctctcagggctgctacttcaTgaagatgctccaagttcagg	10	11	3	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:75038644T>C	uc001dgg.2	-	14	2969	c.2750A>G	c.(2749-2751)CAT>CGT	p.H917R		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	917	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TGCTACTTCATGAAGATGCTC	0.542													25	464	---	---	---	---	PASS	C	75038644	C	C	75038644	3	2	54	1	0	0	0	0	1	0	0	0	2014	1464	51	5	1846	5	C1orf173	1	75038644	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	7701489	75038644	174211977	18	20128										
PALMD	54873	broad.mit.edu	37	chr1	100155158	100155158	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	atgctgagctggttgtgattGatgatgaggaggaggaggat	18	2	0	5			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:100155158G>C	uc001dsg.2	+	7	1785	c.1342G>C	c.(1342-1344)GAT>CAT	p.D448H	PALMD_uc001dsf.2_Missense_Mutation_p.D448H	NM_017734	NP_060204	Q9NP74	PALMD_HUMAN	palmdelphin	448					regulation of cell shape	cytoplasm|membrane				ovary(2)|pancreas(1)	3		all_epithelial(167;0.000813)|all_lung(203;0.0214)|Lung NSC(277;0.0216)		Epithelial(280;0.067)|all cancers(265;0.117)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)		GGTTGTGATTGATGATGAGGA	0.483													6	97	---	---	---	---	PASS	C	100155158	C	C	100155158	3	2	54	1	0	0	0	0	1	0	0	0	11411	1290	45	2	1368	2	PALMD	1	100155158	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	25116514	100155158	149095463	19	20129										
PROK1	84432	broad.mit.edu	37	chr1	110998902	110998902	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acacctgtccttgcttgcccAacctgctgtgctccaggttc	8	16	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:110998902A>T	uc001dzs.2	+	3	298	c.247A>T	c.(247-249)AAC>TAC	p.N83Y		NM_032414	NP_115790	P58294	PROK1_HUMAN	prokineticin 1 precursor	83					angiogenesis|positive regulation of cell division	extracellular region	growth factor activity				0		all_cancers(81;6.23e-06)|all_epithelial(167;2.12e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0239)|all cancers(265;0.0699)|Epithelial(280;0.0753)|Colorectal(144;0.105)|LUSC - Lung squamous cell carcinoma(189;0.135)		TTGCTTGCCCAACCTGCTGTG	0.552													102	98	---	---	---	---	PASS	T	110998902	T	T	110998902	3	4	54	1	0	0	0	0	1	0	0	0	12550	130	5	5	257	5	PROK1	1	110998902	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	10843744	110998902	138251719	20	20130										
KCNA2	3737	broad.mit.edu	37	chr1	111146539	111146539	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgacacggaggatggccagtGacatggcctgctggccttgc	15	11	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:111146539G>A	uc001dzu.2	-	2	1362	c.866C>T	c.(865-867)TCA>TTA	p.S289L	KCNA2_uc009wfv.1_Missense_Mutation_p.S289L|KCNA2_uc009wfw.2_Missense_Mutation_p.S289L	NM_004974	NP_004965	P16389	KCNA2_HUMAN	potassium voltage-gated channel, shaker-related	289						juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(1)	1		all_cancers(81;5.55e-06)|all_epithelial(167;1.87e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Colorectal(144;0.00878)|Lung(183;0.0234)|all cancers(265;0.0492)|Epithelial(280;0.0529)|COAD - Colon adenocarcinoma(174;0.131)|LUSC - Lung squamous cell carcinoma(189;0.133)|READ - Rectum adenocarcinoma(129;0.191)		GATGGCCAGTGACATGGCCTG	0.517													68	179	---	---	---	---	PASS	A	111146539	A	A	111146539	3	1	54	1	0	0	0	0	1	0	0	0	8003	1294	45	2	637	2	KCNA2	1	111146539	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	147637	111146539	138104082	21	20131										
S100A1	6271	broad.mit.edu	37	chr1	153604243	153604243	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agaatggagacggggaggtgGacttccaggagtatgtggtg	19	4	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:153604243G>A	uc001fck.1	+	3	324	c.211G>A	c.(211-213)GAC>AAC	p.D71N	C1orf77_uc001fcm.1_5'Flank|C1orf77_uc001fcn.1_5'Flank|S100A13_uc001fcj.2_Intron|S100A1_uc001fcl.1_RNA|C1orf77_uc009woi.1_5'Flank|C1orf77_uc009woj.1_5'Flank	NM_006271	NP_006262	P23297	S10A1_HUMAN	S100 calcium binding protein A1	71	2; high affinity.|EF-hand 2.				intracellular signal transduction|regulation of heart contraction	nucleus|protein complex|sarcoplasmic reticulum	ATPase binding|calcium ion binding|protein homodimerization activity|S100 alpha binding|S100 beta binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)		Olopatadine(DB00768)	CGGGGAGGTGGACTTCCAGGA	0.562													123	662	---	---	---	---	PASS	A	153604243	A	A	153604243	3	1	54	1	0	0	0	0	1	0	0	0	13771	1174	41	2	217	2	S100A1	1	153604243	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	42457704	153604243	95646378	22	20132										
BCAN	63827	broad.mit.edu	37	chr1	156622664	156622664	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cagcgccagccgaggtggagTggccgtggtccccgcatcag	16	14	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:156622664T>A	uc001fpp.2	+	8	2258	c.1922T>A	c.(1921-1923)GTG>GAG	p.V641E	BCAN_uc001fpo.2_Missense_Mutation_p.V641E	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	641					cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CGAGGTGGAGTGGCCGTGGTC	0.607													48	117	---	---	---	---	PASS	A	156622664	A	A	156622664	3	1	54	1	0	0	0	0	1	0	0	0	1345	1696	59	5	1948	5	BCAN	1	156622664	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	3018421	156622664	92627957	23	20133										
CADM3	57863	broad.mit.edu	37	chr1	159169596	159169596	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cacgccatcatcggtgggatCgtggctttcattgtcttcct	10	12	3	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:159169596C>T	uc001ftl.2	+	8	1150	c.1008C>T	c.(1006-1008)ATC>ATT	p.I336I	CADM3_uc001ftk.2_Silent_p.I370I|uc001ftm.1_RNA	NM_001127173	NP_001120645	Q8N126	CADM3_HUMAN	cell adhesion molecule 3 isoform 2	336	Helical; (Potential).				adherens junction organization|cell junction assembly|heterophilic cell-cell adhesion|homophilic cell adhesion	cell-cell junction|integral to membrane	protein homodimerization activity			ovary(2)	2	all_hematologic(112;0.0429)					TCGGTGGGATCGTGGCTTTCA	0.557													32	99	---	---	---	---	PASS	T	159169596	T	T	159169596	2	4	54	1	0	0	0	0	0	0	0	1	2568	874	31	2		2	CADM3	1	159169596	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	2546932	159169596	90081025	24	20134										
COPA	1314	broad.mit.edu	37	chr1	160281763	160281763	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgccatgaacagcataggctGgccgttcccgttccagctta	10	13	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:160281763G>T	uc009wti.2	-	11	1365	c.971C>A	c.(970-972)CCA>CAA	p.P324Q	COPA_uc001fvv.3_Missense_Mutation_p.P324Q|COPA_uc009wtj.1_Missense_Mutation_p.P270Q	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	324					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AGCATAGGCTGGCCGTTCCCG	0.468													35	50	---	---	---	---	PASS	T	160281763	T	T	160281763	3	4	54	1	0	0	0	0	1	0	0	0	3727	1348	47	3	2822	3	COPA	1	160281763	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1112167	160281763	88968858	25	20135										
DUSP27	92235	broad.mit.edu	37	chr1	167088577	167088577	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccggcgtttacactggccccGaattctacactggcctggag	11	14	1	0	rs150600224		TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:167088577G>A	uc001geb.1	+	4	529	c.529G>A	c.(529-531)GAA>AAA	p.E177K		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	177					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						CACTGGCCCCGAATTCTACAC	0.562													47	69	---	---	---	---	PASS	A	167088577	A	A	167088577	3	1	54	1	0	0	0	0	1	0	0	0	4824	1059	37	2	543	2	DUSP27	1	167088577	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	6806814	167088577	82162044	26	20136										
FMO2	2327	broad.mit.edu	37	chr1	171168503	171168503	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aggtatggagaggttcaaagGccaatatttccatagccgcc	11	9	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:171168503G>A	uc001ghk.1	+	5	620	c.503G>A	c.(502-504)GGC>GAC	p.G168D	FMO2_uc010pmd.1_Intron	NM_001460	NP_001451	Q99518	FMO2_HUMAN	flavin containing monooxygenase 2	168					drug metabolic process|NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|host cell microsome|integral to membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AGGTTCAAAGGCCAATATTTC	0.448													10	132	---	---	---	---	PASS	A	171168503	A	A	171168503	3	1	54	1	0	0	0	0	1	0	0	0	5955	1203	42	3	517	3	FMO2	1	171168503	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	4079926	171168503	78082118	27	20137										
SLC9A11	284525	broad.mit.edu	37	chr1	173526509	173526509	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acttccacttttcgttcagcGagattataaacatcaggagc	7	10	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:173526509G>T	uc001giz.2	-	10	1608	c.1185C>A	c.(1183-1185)CTC>CTA	p.L395L	SLC9A11_uc009wwe.2_5'UTR|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	395					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						TTCGTTCAGCGAGATTATAAA	0.348													75	127	---	---	---	---	PASS	T	173526509	T	T	173526509	2	4	54	1	0	0	0	0	0	0	0	1	14711	1045	37	2		2	SLC9A11	1	173526509	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	2358006	173526509	75724112	28	20138										
RC3H1	149041	broad.mit.edu	37	chr1	173916691	173916691	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cttctctgaagatctaatcgCtggtccctcattcctttact	5	13	3	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:173916691C>A	uc001gju.3	-	14	2640	c.2553G>T	c.(2551-2553)CAG>CAT	p.Q851H	RC3H1_uc010pms.1_Missense_Mutation_p.Q851H|RC3H1_uc001gjv.2_Missense_Mutation_p.Q851H|RC3H1_uc010pmt.1_Missense_Mutation_p.Q851H	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	851					cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GATCTAATCGCTGGTCCCTCA	0.438													37	121	---	---	---	---	PASS	A	173916691	A	A	173916691	3	1	54	1	0	0	0	0	1	0	0	0	13166	796	28	3	872	3	RC3H1	1	173916691	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	390182	173916691	75333930	29	20139										
TDRD5	163589	broad.mit.edu	37	chr1	179562999	179562999	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aaaagccgagaggatgtccaGcaggtacgcatgtgagcaaa	13	8	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:179562999G>C	uc001gnf.1	+	3	887	c.637G>C	c.(637-639)GCA>CCA	p.A213P	TDRD5_uc010pnp.1_Missense_Mutation_p.A213P	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	213	Lotus/OST-HTH 2.				DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						AGGATGTCCAGCAGGTACGCA	0.413													57	71	---	---	---	---	PASS	C	179562999	C	C	179562999	3	2	54	1	0	0	0	0	1	0	0	0	15730	971	34	4	643	4	TDRD5	1	179562999	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	5646308	179562999	69687622	30	20140										
CACNA1E	777	broad.mit.edu	37	chr1	181764045	181764045	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gacgttcattttccactattCgggataagcgttcaaattcc	7	10	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:181764045C>A	uc001gow.2	+	45	6109	c.5944C>A	c.(5944-5946)CGG>AGG	p.R1982R	CACNA1E_uc009wxs.2_Silent_p.R1870R|CACNA1E_uc009wxt.2_Silent_p.R1251R	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	2025	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TTCCACTATTCGGGATAAGCG	0.473													35	79	---	---	---	---	PASS	A	181764045	A	A	181764045	2	1	54	1	0	0	0	0	0	0	0	1	2542	875	31	2		2	CACNA1E	1	181764045	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	2201046	181764045	67486576	31	20141										
PRG4	10216	broad.mit.edu	37	chr1	186275939	186275939	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggagcctgcatctaccacacCcaaagagcccacacctacca	6	18	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:186275939C>A	uc001gru.3	+	7	1139	c.1088C>A	c.(1087-1089)CCC>CAC	p.P363H	PRG4_uc001grt.3_Missense_Mutation_p.P322H|PRG4_uc009wyl.2_Missense_Mutation_p.P270H|PRG4_uc009wym.2_Missense_Mutation_p.P229H|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	363	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|2; approximate.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						TCTACCACACCCAAAGAGCCC	0.597													98	284	---	---	---	---	PASS	A	186275939	A	A	186275939	3	1	54	1	0	0	0	0	1	0	0	0	12481	623	22	3	1110	3	PRG4	1	186275939	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	4511894	186275939	62974682	32	20142										
FAM5C	339479	broad.mit.edu	37	chr1	190423824	190423824	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgctaaatccctgccggcttCtgtccacaaaatctgtgtat	7	12	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:190423824C>T	uc001gse.1	-	2	429	c.197G>A	c.(196-198)AGA>AAA	p.R66K	FAM5C_uc010pot.1_Missense_Mutation_p.E28K	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	66						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CTGCCGGCTTCTGTCCACAAA	0.458													5	51	---	---	---	---	PASS	T	190423824	T	T	190423824	3	4	54	1	0	0	0	0	1	0	0	0	5594	913	32	2	2131	2	FAM5C	1	190423824	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	4147885	190423824	58826797	33	20143										
CHIT1	1118	broad.mit.edu	37	chr1	203194875	203194875	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcagctggtggttggtcatgCcagcgaaggcgtagatgagg	17	7	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:203194875C>T	uc001gzn.2	-	3	275	c.179G>A	c.(178-180)GGC>GAC	p.G60D	FMOD_uc010pqi.1_Intron|CHIT1_uc001gzm.1_RNA|CHIT1_uc009xal.1_5'Flank|CHIT1_uc009xam.1_RNA|CHIT1_uc009xan.1_RNA|CHIT1_uc001gzo.2_Missense_Mutation_p.G70D	NM_003465	NP_003456	Q13231	CHIT1_HUMAN	chitotriosidase precursor	60					chitin catabolic process|immune response|response to bacterium	extracellular space|lysosome	cation binding|chitin binding|endochitinase activity				0						GTTGGTCATGCCAGCGAAGGC	0.572													4	181	---	---	---	---	PASS	T	203194875	T	T	203194875	3	4	54	1	0	0	0	0	1	0	0	0	3346	739	26	3	1257	3	CHIT1	1	203194875	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	12771051	203194875	46055746	34	20144										
ATP2B4	493	broad.mit.edu	37	chr1	203696535	203696535	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gttttcagttcatctccgcaAtacctacccgatccctgaag	6	14	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:203696535A>G	uc001gzw.2	+	20	4029	c.3145A>G	c.(3145-3147)ATA>GTA	p.I1049V	ATP2B4_uc001gzv.2_Missense_Mutation_p.I1049V|ATP2B4_uc009xaq.2_Missense_Mutation_p.I1049V|ATP2B4_uc001gzx.2_Missense_Mutation_p.I80V|ATP2B4_uc009xar.2_Missense_Mutation_p.I44V|ATP2B4_uc010pqj.1_5'Flank|uc010pqk.1_5'Flank|SNORA77_uc001gzy.1_5'Flank	NM_001684	NP_001675	P23634	AT2B4_HUMAN	plasma membrane calcium ATPase 4 isoform 4b	1049	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|skin(1)	3	all_cancers(21;0.071)|all_epithelial(62;0.228)		BRCA - Breast invasive adenocarcinoma(75;0.109)			CATCTCCGCAATACCTACCCG	0.542													76	81	---	---	---	---	PASS	G	203696535	G	G	203696535	3	3	54	1	0	0	0	0	1	0	0	0	1142	101	4	5	3219	5	ATP2B4	1	203696535	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	501660	203696535	45554086	35	20145										
USH2A	7399	broad.mit.edu	37	chr1	216040426	216040426	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tggctcctctctctggaagaCcagctaacgttgtcacagtc	9	13	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:216040426C>G	uc001hku.1	-	44	9155	c.8768G>C	c.(8767-8769)GGT>GCT	p.G2923A		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2923	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTCTGGAAGACCAGCTAACGT	0.458										HNSCC(13;0.011)			29	79	---	---	---	---	PASS	G	216040426	G	G	216040426	3	3	54	1	0	0	0	0	1	0	0	0	17033	507	18	4	6956	4	USH2A	1	216040426	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	12343891	216040426	33210195	36	20146										
WNT3A	89780	broad.mit.edu	37	chr1	228210498	228210498	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agatcatgcccagcgtggccGagggcatcaagattggcatc	13	11	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:228210498G>A	uc001hrq.1	+	2	280	c.202G>A	c.(202-204)GAG>AAG	p.E68K	WNT3A_uc001hrp.1_Missense_Mutation_p.E68K	NM_033131	NP_149122	P56704	WNT3A_HUMAN	wingless-type MMTV integration site family,	68					axis specification|cell proliferation in forebrain|cell-cell signaling|cellular response to retinoic acid|convergent extension|dermatome development|dorsal/ventral neural tube patterning|embryonic pattern specification|extracellular matrix organization|hemopoietic stem cell proliferation|hippocampus development|inner ear morphogenesis|mammary gland development|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of neuron projection development|notochord development|palate development|paraxial mesodermal cell fate commitment|positive regulation of catenin import into nucleus|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of receptor internalization|positive regulation of transcription from RNA polymerase II promoter|signalosome assembly|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuroblast division|Wnt receptor signaling pathway, calcium modulating pathway	cell surface|early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled-2 binding|receptor agonist activity|signal transducer activity|transcription coactivator activity			ovary(1)	1		Prostate(94;0.0405)				CAGCGTGGCCGAGGGCATCAA	0.667													19	123	---	---	---	---	PASS	A	228210498	A	A	228210498	3	1	54	1	0	0	0	0	1	0	0	0	17386	1059	37	2	208	2	WNT3A	1	228210498	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	12170072	228210498	21040123	37	20147										
C1orf96	126731	broad.mit.edu	37	chr1	229462485	229462485	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cacaagggcccagagcgcacCtcgtgcacaggagcggacgc	14	15	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:229462485C>A	uc001htl.3	-	3	714	c.636G>T	c.(634-636)GAG>GAT	p.E212D	C1orf96_uc009xfc.2_RNA	NM_145257	NP_660300	Q6IQ19	CA096_HUMAN	hypothetical protein LOC126731	212						centrosome					0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.178)				CAGAGCGCACCTCGTGCACAG	0.562													20	232	---	---	---	---	PASS	A	229462485	A	A	229462485	3	1	54	1	0	0	0	0	1	0	0	0	2073	695	24	3	184	3	C1orf96	1	229462485	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1251987	229462485	19788136	38	20148										
AGT	183	broad.mit.edu	37	chr1	230846075	230846075	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aggaccttgtgcgcatccagCcgggaggtgcagttcttgtc	14	11	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:230846075C>A	uc001hty.3	-	2	1030	c.522G>T	c.(520-522)CGG>CGT	p.R174R	AGT_uc009xfe.2_Silent_p.R174R|AGT_uc009xff.2_Silent_p.R146R	NM_000029	NP_000020	P01019	ANGT_HUMAN	angiotensinogen preproprotein	174					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|blood vessel remodeling|cell-cell signaling|cellular lipid metabolic process|G-protein signaling, coupled to cGMP nucleotide second messenger|kidney development|low-density lipoprotein particle remodeling|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of activation of JAK2 kinase activity|positive regulation of apoptosis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of cardiac muscle hypertrophy|positive regulation of cholesterol esterification|positive regulation of cytokine production|positive regulation of endothelial cell migration|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription, DNA-dependent|regulation of proteolysis|regulation of renal output by angiotensin|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|response to muscle activity involved in regulation of muscle adaptation	extracellular space|soluble fraction	acetyltransferase activator activity|growth factor activity|hormone activity|serine-type endopeptidase inhibitor activity|type 1 angiotensin receptor binding|type 2 angiotensin receptor binding				0	Breast(184;0.0735)|Ovarian(103;0.183)	all_cancers(173;4.64e-23)|all_epithelial(177;3.61e-18)|Breast(1374;0.00093)|all_neural(198;0.0604)|Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;4.4e-06)|Colorectal(1306;5.46e-06)|COAD - Colon adenocarcinoma(196;0.000256)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)	Aliskiren(DB01258)|Atorvastatin(DB01076)|Cilazapril(DB01340)|Irbesartan(DB01029)|Lisinopril(DB00722)|Ouabain(DB01092)|Simvastatin(DB00641)	GCGCATCCAGCCGGGAGGTGC	0.632													37	98	---	---	---	---	PASS	A	230846075	A	A	230846075	2	1	54	1	0	0	0	0	0	0	0	1	399	726	26	3		3	AGT	1	230846075	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	1383590	230846075	18404546	39	20149										
C1orf31	388753	broad.mit.edu	37	chr1	234509501	234509501	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccttactgtccccgagccgcGggttcctcttgtgcaaaacg	10	15	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:234509501G>T	uc001hwc.2	+	1	73	c.37G>T	c.(37-39)GGG>TGG	p.G13W	C1orf31_uc001hwb.2_Intron	NM_001012985	NP_001013003	Q5JTJ3	CA031_HUMAN	hypothetical protein LOC388753	13						mitochondrion	cytochrome-c oxidase activity				0	Ovarian(103;0.0339)	all_cancers(173;0.241)|Prostate(94;0.0353)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			CCCGAGCCGCGGGTTCCTCTT	0.622													51	85	---	---	---	---	PASS	T	234509501	T	T	234509501	3	4	54	1	0	0	0	0	1	0	0	0	2037	1116	39	1	39	1	C1orf31	1	234509501	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	3663426	234509501	14741120	40	20150										
SDCCAG8	10806	broad.mit.edu	37	chr1	243471409	243471409	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtggtctttgtttgaaatgtGctcagcatgaagctgttctt	11	6	3	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:243471409G>A	uc001hzw.2	+	8	1015	c.859G>A	c.(859-861)GCT>ACT	p.A287T	SDCCAG8_uc010pyk.1_Missense_Mutation_p.A142T|SDCCAG8_uc010pyl.1_Missense_Mutation_p.A99T|SDCCAG8_uc001hzx.2_Missense_Mutation_p.A99T	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	287	Sufficient for homodimerization (By similarity).				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		TTTGAAATGTGCTCAGCATGA	0.403													35	291	---	---	---	---	PASS	A	243471409	A	A	243471409	3	1	54	1	0	0	0	0	1	0	0	0	13959	1319	46	3	889	3	SDCCAG8	1	243471409	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	8961908	243471409	5779212	41	20151										
VN1R5	317705	broad.mit.edu	37	chr1	247419893	247419893	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcttccttttctcatgggtcCtcaacatgttcattggtgta	7	10	4	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:247419893C>A	uc010pyu.1	+	2	520	c.520C>A	c.(520-522)CTC>ATC	p.L174I		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	174	Helical; Name=5; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			CTCATGGGTCCTCAACATGTT	0.488													112	323	---	---	---	---	PASS	A	247419893	A	A	247419893	3	1	54	1	0	0	0	0	1	0	0	0	17178	681	24	3	522	3	VN1R5	1	247419893	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	3948484	247419893	1830728	42	20152										
OR2W5	441932	broad.mit.edu	37	chr1	247654487	247654487	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcctggtgggctcttctgatCggcctggactggagaaaatt	13	9	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:247654487C>A	uc001icz.1	+	1	58	c.58C>A	c.(58-60)CGG>AGG	p.R20R		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	20					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CTCTTCTGATCGGCCTGGACT	0.463													40	111	---	---	---	---	PASS	A	247654487	A	A	247654487	2	1	54	1	0	0	0	0	0	0	0	1	11034	875	31	2		2	OR2W5	1	247654487	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	234594	247654487	1596134	43	20153										
OR2M7	391196	broad.mit.edu	37	chr1	248487077	248487077	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgtcctgcataggagaatgaTgagatgtgggctgaatgcac	14	6	0	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr1:248487077T>A	uc010pzk.1	-	1	794	c.794A>T	c.(793-795)CAT>CTT	p.H265L		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AGGAGAATGATGAGATGTGGG	0.478													101	120	---	---	---	---	PASS	A	248487077	A	A	248487077	3	1	54	1	0	0	0	0	1	0	0	0	11014	1464	51	5	147	5	OR2M7	1	248487077	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	832590	248487077	763544	44	20154										
TPO	7173	broad.mit.edu	37	chr2	1497666	1497666	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccagcaggagcgtggccgacAagatcctggacttgtacaag	13	11	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:1497666A>G	uc002qww.2	+	11	1952	c.1861A>G	c.(1861-1863)AAG>GAG	p.K621E	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.K564E|TPO_uc002qwr.2_Missense_Mutation_p.K621E|TPO_uc002qwx.2_Missense_Mutation_p.K564E|TPO_uc010yio.1_Missense_Mutation_p.K448E|TPO_uc010yip.1_Missense_Mutation_p.K621E|TPO_uc002qwy.1_5'UTR|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	621	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CGTGGCCGACAAGATCCTGGA	0.607													76	24	---	---	---	---	PASS	G	1497666	G	G	1497666	3	3	54	1	0	0	0	0	1	0	0	0	16407	131	5	5	1899	5	TPO	2	1497666	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08		1497666	241701707	45	20155										
DDX1	1653	broad.mit.edu	37	chr2	15746377	15746377	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggatggttacattgtcaaatCacagcactcaggtattatac	8	8	3	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:15746377C>T	uc002rce.2	+	12	1094	c.806C>T	c.(805-807)TCA>TTA	p.S269L	DDX1_uc010yjq.1_Missense_Mutation_p.S177L	NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	269	Necessary for interaction with HNRNPK.|Necessary for interaction with RELA.|Helicase ATP-binding.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		ATTGTCAAATCACAGCACTCA	0.398													49	244	---	---	---	---	PASS	T	15746377	T	T	15746377	3	4	54	1	0	0	0	0	1	0	0	0	4341	838	29	2	852	2	DDX1	2	15746377	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	14248711	15746377	227452996	46	20156										
APOB	338	broad.mit.edu	37	chr2	21235356	21235356	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgaagcagacatctgtggtcCccaggaactagatgcatcga	11	10	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:21235356C>T	uc002red.2	-	26	4512	c.4384G>A	c.(4384-4386)GGA>AGA	p.G1462R		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1462					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ATCTGTGGTCCCCAGGAACTA	0.378													23	224	---	---	---	---	PASS	T	21235356	T	T	21235356	3	4	54	1	0	0	0	0	1	0	0	0	785	632	22	3	9323	3	APOB	2	21235356	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	5488979	21235356	221964017	47	20157										
ITSN2	50618	broad.mit.edu	37	chr2	24435597	24435597	+	Silent	SNP	C	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gagaggggcattcctttacaCcgcgggtcagatgccagctt							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:24435597C>A	uc002rfe.2	-	33	4269	c.4011G>T	c.(4009-4011)CGG>CGT	p.R1337R	ITSN2_uc002rff.2_Silent_p.R1310R	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	1337	DH.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTCCTTTACACCGCGGGTCAG	0.542													86	282	---	---	---	---	PASS	A	24435597	A	A	24435597	2	1	54	1	0	0	0	0	0	0	0	1	7927	494	18	3		3	ITSN2	2	24435597	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	3200241	24435597	218763776	48	20158	450	2								
ITSN2	50618	broad.mit.edu	37	chr2	24435600	24435600	+	Silent	SNP	C	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aggggcattcctttacaccgCgggtcagatgccagcttctg					rs146758206	byFrequency	TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:24435600C>A	uc002rfe.2	-	33	4266	c.4008G>T	c.(4006-4008)CCG>CCT	p.P1336P	ITSN2_uc002rff.2_Silent_p.P1309P	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	1336	DH.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTTACACCGCGGGTCAGATG	0.542													80	264	---	---	---	---	PASS	A	24435600	A	A	24435600	2	1	54	1	0	0	0	0	0	0	0	1	7927	755	27	1		1	ITSN2	2	24435600	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	3	24435600	218763773	49	20159	450	2								
DNMT3A	1788	broad.mit.edu	37	chr2	25523041	25523041	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cgcttcctcccaggccgcccCaccttccgtgccgtggtgct	10	20	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:25523041C>A	uc002rgc.2	-	3	401	c.144G>T	c.(142-144)GTG>GTT	p.V48V	DNMT3A_uc002rgd.2_Silent_p.V48V|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rge.2_Silent_p.V45V|DNMT3A_uc002rgf.2_Silent_p.V48V	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	48					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGGCCGCCCCACCTTCCGTG	0.662			Mis|F|N|S		AML								51	139	---	---	---	---	PASS	A	25523041	A	A	25523041	2	1	54	1	0	0	0	0	0	0	0	1	4676	581	21	3		3	DNMT3A	2	25523041	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	1087441	25523041	217676332	50	20160										
OTOF	9381	broad.mit.edu	37	chr2	26684724	26684724	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcgaaggggaacaggtagcgCcagttgaagttgccctcgcc	14	11	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:26684724C>T	uc002rhk.2	-	43	5500	c.5373G>A	c.(5371-5373)TGG>TGA	p.W1791*	OTOF_uc010yla.1_Nonsense_Mutation_p.W521*|OTOF_uc002rhh.2_Nonsense_Mutation_p.W1024*|OTOF_uc002rhi.2_Nonsense_Mutation_p.W1101*|OTOF_uc002rhj.2_Nonsense_Mutation_p.W1024*	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1791	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACAGGTAGCGCCAGTTGAAGT	0.597													17	478	---	---	---	---	PASS	T	26684724	T	T	26684724	4	4	54	1	0	0	0	0	0	1	0	0	11303	740	26	3	821	3	OTOF	2	26684724	Nonsense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1161683	26684724	216514649	51	20161										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48873862	48873862	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caccagtgatatacttgtatCtcctggaaatgagcataaaa	7	8	1	2	rs142381844		TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:48873862C>A	uc010yol.1	+	5	2677	c.2630C>A	c.(2629-2631)TCT>TAT	p.S877Y	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.S924Y|GTF2A1L_uc002rws.1_Missense_Mutation_p.S220Y|GTF2A1L_uc010yom.1_Missense_Mutation_p.S186Y|GTF2A1L_uc002rwt.2_Missense_Mutation_p.S220Y	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	877					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ATACTTGTATCTCCTGGAAAT	0.428													20	195	---	---	---	---	PASS	A	48873862	A	A	48873862	3	1	54	1	0	0	0	0	1	0	0	0	15316	913	32	2	2797	2	STON1-GTF2A1L	2	48873862	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	22189138	48873862	194325511	52	20162										
USP34	9736	broad.mit.edu	37	chr2	61417463	61417463	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cggttggagaaatcagactgTaggttctgatactggcttat	12	6	2	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:61417463T>A	uc002sbe.2	-	78	9838	c.9816A>T	c.(9814-9816)CTA>CTT	p.L3272L	USP34_uc002sbd.2_Silent_p.L74L	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	3272					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			AATCAGACTGTAGGTTCTGAT	0.398													325	158	---	---	---	---	PASS	A	61417463	A	A	61417463	2	1	54	1	0	0	0	0	0	0	0	1	17062	1625	57	5		5	USP34	2	61417463	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	12543601	61417463	181781910	53	20163										
ANTXR1	84168	broad.mit.edu	37	chr2	69350194	69350194	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tacttatttactgtgtccagCgcctatcttaaaagaagttg	7	8	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:69350194C>T	uc002sfg.2	+	11	1204	c.848C>T	c.(847-849)GCG>GTG	p.A283V	ANTXR1_uc002sfe.2_Missense_Mutation_p.A283V|ANTXR1_uc002sff.2_Missense_Mutation_p.A283V	NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	283	Extracellular (Potential).				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						CTGTGTCCAGCGCCTATCTTA	0.433									Familial_Infantile_Hemangioma				27	436	---	---	---	---	PASS	T	69350194	T	T	69350194	3	4	54	1	0	0	0	0	1	0	0	0	711	768	27	1	890	1	ANTXR1	2	69350194	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	7932731	69350194	173849179	54	20164										
TIA1	7072	broad.mit.edu	37	chr2	70441526	70441526	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggccatacattccatatgcaGgaacttgccaaccattaggc	8	12	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:70441526G>A	uc002sgj.3	-	12	1206	c.989C>T	c.(988-990)CCT>CTT	p.P330L	TIA1_uc002sgk.3_Missense_Mutation_p.P319L|TIA1_uc002sgl.3_RNA	NM_022173	NP_071505	P31483	TIA1_HUMAN	TIA1 cytotoxic granule-associated RNA binding	330					apoptosis|induction of apoptosis|regulation of nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|poly(A) RNA binding|protein binding				0						TCCATATGCAGGAACTTGCCA	0.408													48	131	---	---	---	---	PASS	A	70441526	A	A	70441526	3	1	54	1	0	0	0	0	1	0	0	0	15884	1000	35	3	179	3	TIA1	2	70441526	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1091332	70441526	172757847	55	20165										
ALMS1	7840	broad.mit.edu	37	chr2	73717751	73717751	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttgaacaacgagagctctttGaacaaagcaaagccccacgt	8	11	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:73717751G>C	uc002sje.1	+	12	8779	c.8668G>C	c.(8668-8670)GAA>CAA	p.E2890Q	ALMS1_uc002sjf.1_Missense_Mutation_p.E2846Q|ALMS1_uc002sjg.2_Missense_Mutation_p.E2276Q|ALMS1_uc002sjh.1_Missense_Mutation_p.E2276Q	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2888					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AGAGCTCTTTGAACAAAGCAA	0.428													353	238	---	---	---	---	PASS	C	73717751	C	C	73717751	3	2	54	1	0	0	0	0	1	0	0	0	535	1291	45	2	8700	2	ALMS1	2	73717751	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	3276225	73717751	169481622	56	20166										
LRRTM1	347730	broad.mit.edu	37	chr2	80529502	80529502	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tattcctgggcagacatggcAgccatctgatgcatggtctg	12	10	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:80529502A>G	uc002sok.1	-	2	1713	c.1443T>C	c.(1441-1443)GCT>GCC	p.A481A	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	481	Cytoplasmic (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						CAGACATGGCAGCCATCTGAT	0.537										HNSCC(69;0.2)			58	192	---	---	---	---	PASS	G	80529502	G	G	80529502	2	3	54	1	0	0	0	0	0	0	0	1	9039	175	7	5		5	LRRTM1	2	80529502	Silent	SNP	A	TCGA-33-4532-01A-01D-1267-08	6811751	80529502	162669871	57	20167										
ST3GAL5	8869	broad.mit.edu	37	chr2	86075211	86075211	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctgtctttgggggccttctgCacaaaagggagtaagtccac	12	10	2	0	rs148420220	by1000genomes	TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:86075211C>A	uc002sqq.1	-	4	564	c.435G>T	c.(433-435)GTG>GTT	p.V145V	ST3GAL5_uc010fgq.1_Silent_p.V17V|ST3GAL5_uc002sqp.1_Silent_p.V122V	NM_003896	NP_003887	Q9UNP4	SIAT9_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	145	Lumenal (Potential).				ganglioside biosynthetic process|protein glycosylation	integral to Golgi membrane|integral to plasma membrane	lactosylceramide alpha-2,3-sialyltransferase activity|neolactotetraosylceramide alpha-2,3-sialyltransferase activity				0						GGGCCTTCTGCACAAAAGGGA	0.498													6	905	---	---	---	---	PASS	A	86075211	A	A	86075211	2	1	54	1	0	0	0	0	0	0	0	1	15217	697	25	3		3	ST3GAL5	2	86075211	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	5545709	86075211	157124162	58	20168										
POLR1A	25885	broad.mit.edu	37	chr2	86292524	86292524	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cccgggtgaaaaagcaacccCgagtagtcatgcttgcccct	10	14	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:86292524C>A	uc002sqs.2	-	14	2310	c.1931G>T	c.(1930-1932)CGG>CTG	p.R644L	POLR1A_uc010ytb.1_Missense_Mutation_p.R10L	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	644					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						AAAGCAACCCCGAGTAGTCAT	0.517													5	485	---	---	---	---	PASS	A	86292524	A	A	86292524	3	1	54	1	0	0	0	0	1	0	0	0	12209	652	23	1	3315	1	POLR1A	2	86292524	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	217313	86292524	156906849	59	20169										
LOC285033	285033	broad.mit.edu	37	chr2	96906072	96906072	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	attattcagaatgaaaagtgTttacaatattcgtcctctta	5	6	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:96906072T>C	uc002svp.1	+	1	96	c.11T>C	c.(10-12)GTT>GCT	p.V4A	LOC285033_uc002svn.2_RNA|LOC285033_uc002svo.2_Intron	NM_001037228	NP_001032305	Q3KRF4	Q3KRF4_HUMAN	hypothetical protein LOC285033	4											0						ATGAAAAGTGTTTACAATATT	0.378													44	49	---	---	---	---	PASS	C	96906072	C	C	96906072	3	2	54	1	0	0	0	0	1	0	0	0	8873	1725	60	5	13	5	LOC285033	2	96906072	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	10613548	96906072	146293301	60	20170										
AFF3	3899	broad.mit.edu	37	chr2	100210027	100210027	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gatcattcccggaggaggcaGaggcagccacggtctgtgct	15	11	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:100210027G>A	uc002tag.2	-	14	2332	c.2096C>T	c.(2095-2097)TCT>TTT	p.S699F	AFF3_uc002taf.2_Missense_Mutation_p.S724F|AFF3_uc010fiq.1_Missense_Mutation_p.S699F|AFF3_uc010yvr.1_Missense_Mutation_p.S852F|AFF3_uc002tah.1_Missense_Mutation_p.S724F	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	699					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						GGAGGAGGCAGAGGCAGCCAC	0.617													45	313	---	---	---	---	PASS	A	100210027	A	A	100210027	3	1	54	1	0	0	0	0	1	0	0	0	358	942	33	2	1628	2	AFF3	2	100210027	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	3303955	100210027	142989346	61	20171										
NPAS2	4862	broad.mit.edu	37	chr2	101582167	101582167	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccttttgaagtgctgggaacCtcaggctatgactactacca	9	11	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:101582167C>T	uc002tap.1	+	10	1132	c.846C>T	c.(844-846)ACC>ACT	p.T282T	NPAS2_uc010yvt.1_Silent_p.T347T	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	282	PAS 2.				central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						TGCTGGGAACCTCAGGCTATG	0.577													31	231	---	---	---	---	PASS	T	101582167	T	T	101582167	2	4	54	1	0	0	0	0	0	0	0	1	10563	668	24	3		3	NPAS2	2	101582167	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	1372140	101582167	141617206	62	20172										
DPP10	57628	broad.mit.edu	37	chr2	116599900	116599900	+	Missense_Mutation	SNP	G	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaaatatctgtgctaccacaGgaaccagaagaagatgaata							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:116599900G>T	uc002tla.1	+	26	2827	c.2370G>T	c.(2368-2370)CAG>CAT	p.Q790H	DPP10_uc002tlb.1_Missense_Mutation_p.Q740H|DPP10_uc002tlc.1_Missense_Mutation_p.Q786H|DPP10_uc002tle.2_Missense_Mutation_p.Q794H|DPP10_uc002tlf.1_Missense_Mutation_p.Q783H	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	790	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TGCTACCACAGGAACCAGAAG	0.373													25	85	---	---	---	---	PASS	T	116599900	T	T	116599900	3	4	54	1	0	0	0	0	1	0	0	0	4727	991	35	3	2643	3	DPP10	2	116599900	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	15017733	116599900	126599473	63	20173	451	2								
DPP10	57628	broad.mit.edu	37	chr2	116599901	116599901	+	Nonsense_Mutation	SNP	G	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aaatatctgtgctaccacagGaaccagaagaagatgaataa							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:116599901G>T	uc002tla.1	+	26	2828	c.2371G>T	c.(2371-2373)GAA>TAA	p.E791*	DPP10_uc002tlb.1_Nonsense_Mutation_p.E741*|DPP10_uc002tlc.1_Nonsense_Mutation_p.E787*|DPP10_uc002tle.2_Nonsense_Mutation_p.E795*|DPP10_uc002tlf.1_Nonsense_Mutation_p.E784*	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	791	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						GCTACCACAGGAACCAGAAGA	0.373													26	86	---	---	---	---	PASS	T	116599901	T	T	116599901	4	4	54	1	0	0	0	0	0	1	0	0	4727	1175	41	2	2644	2	DPP10	2	116599901	Nonsense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1	116599901	126599472	64	20174	451	2								
STEAP3	55240	broad.mit.edu	37	chr2	120005403	120005403	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cctcctcccggcctggaaggTgcccaccctgctggccctgg	12	19	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:120005403T>C	uc002tlp.2	+	4	798	c.641T>C	c.(640-642)GTG>GCG	p.V214A	STEAP3_uc002tlq.2_Missense_Mutation_p.V224A|STEAP3_uc002tlr.2_Missense_Mutation_p.V214A|STEAP3_uc010fle.2_Missense_Mutation_p.V214A	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	214	Helical; (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						GCCTGGAAGGTGCCCACCCTG	0.642													23	162	---	---	---	---	PASS	C	120005403	C	C	120005403	3	2	54	1	0	0	0	0	1	0	0	0	15278	1696	59	5	681	5	STEAP3	2	120005403	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	3405502	120005403	123193970	65	20175										
CLASP1	23332	broad.mit.edu	37	chr2	122120801	122120801	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cttcataatcgtcagctcggCgtagtttttaaatcttgctg	8	9	3	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:122120801C>T	uc002tnc.2	-	36	4543	c.4153G>A	c.(4153-4155)GCC>ACC	p.A1385T	CLASP1_uc010yyv.1_Missense_Mutation_p.A431T|CLASP1_uc002tmz.2_Missense_Mutation_p.A470T|CLASP1_uc002tna.2_Missense_Mutation_p.A431T|CLASP1_uc010yyw.1_RNA|CLASP1_uc002tnb.2_RNA|CLASP1_uc010yyx.1_RNA|CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Missense_Mutation_p.A1326T|CLASP1_uc010yza.1_Missense_Mutation_p.A1318T|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_RNA|CLASP1_uc002tmy.2_Missense_Mutation_p.A221T	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	1385	Localization to kinetochores.|Interaction with PHLDB2 and RSN.|Interaction with CLIP2 (By similarity).				axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					GTCAGCTCGGCGTAGTTTTTA	0.468													5	58	---	---	---	---	PASS	T	122120801	T	T	122120801	3	4	54	1	0	0	0	0	1	0	0	0	3454	768	27	1	479	1	CLASP1	2	122120801	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	2115398	122120801	121078572	66	20176										
CNTNAP5	129684	broad.mit.edu	37	chr2	125320836	125320836	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	catggaggaagctgctcccaGtcctggactaccttctattg	10	12	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:125320836G>T	uc002tno.2	+	11	2053	c.1689G>T	c.(1687-1689)CAG>CAT	p.Q563H	CNTNAP5_uc010flu.2_Missense_Mutation_p.Q564H	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	563	EGF-like 1.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GCTGCTCCCAGTCCTGGACTA	0.443													3	18	---	---	---	---	PASS	T	125320836	T	T	125320836	3	4	54	1	0	0	0	0	1	0	0	0	3650	1020	36	3	1731	3	CNTNAP5	2	125320836	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	3200035	125320836	117878537	67	20177										
MYO7B	4648	broad.mit.edu	37	chr2	128388470	128388470	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acaccctggaggagttctccTatgagttcttcaggtgcccc	10	13	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:128388470T>A	uc002top.2	+	35	4899	c.4846T>A	c.(4846-4848)TAT>AAT	p.Y1616N	MYO7B_uc002tor.1_Missense_Mutation_p.Y469N	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	1616	SH3 2.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GGAGTTCTCCTATGAGTTCTT	0.348													7	19	---	---	---	---	PASS	A	128388470	A	A	128388470	3	1	54	1	0	0	0	0	1	0	0	0	10083	1522	53	5	4980	5	MYO7B	2	128388470	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	3067634	128388470	114810903	68	20178										
SPOPL	339745	broad.mit.edu	37	chr2	139310159	139310159	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	atcgatttgtgcaagggaagGactggggttttaaaaaattc	12	4	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:139310159G>T	uc002tvh.2	+	5	788	c.388G>T	c.(388-390)GAC>TAC	p.D130Y		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	130	MATH.					nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		GCAAGGGAAGGACTGGGGTTT	0.348													51	71	---	---	---	---	PASS	T	139310159	T	T	139310159	3	4	54	1	0	0	0	0	1	0	0	0	15084	1174	41	2	402	2	SPOPL	2	139310159	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	10921689	139310159	103889214	69	20179										
LRP1B	53353	broad.mit.edu	37	chr2	140990769	140990769	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cactgattatgccactgtctCtcttataccaatttctattt	3	11	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:140990769C>T	uc002tvj.1	-	91	14758	c.13786G>A	c.(13786-13788)GAG>AAG	p.E4596K		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4596	Cytoplasmic (Potential).				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)		GCCACTGTCTCTCTTATACCA	0.313										TSP Lung(27;0.18)			9	52	---	---	---	---	PASS	T	140990769	T	T	140990769	3	4	54	1	0	0	0	0	1	0	0	0	8955	922	32	2	17	2	LRP1B	2	140990769	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1680610	140990769	102208604	70	20180										
DPP4	1803	broad.mit.edu	37	chr2	162881449	162881449	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acatcacacaagtagtgatcCctggaaggaagaaagaaagg	11	7	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:162881449C>A	uc002ubz.2	-	11	1449	c.888G>T	c.(886-888)GGG>GGT	p.G296G	DPP4_uc010fpb.2_5'UTR	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	296	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	AGTAGTGATCCCTggaaggaa	0.318													71	133	---	---	---	---	PASS	A	162881449	A	A	162881449	2	1	54	1	0	0	0	0	0	0	0	1	4729	637	22	3		3	DPP4	2	162881449	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	21890680	162881449	80317924	71	20181										
SCN1A	6323	broad.mit.edu	37	chr2	166848831	166848831	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cgtgcggatcccctttgctcCtttgatcagacgtaggattc	10	12	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:166848831C>T	uc010zcz.1	-	26	4939	c.4921G>A	c.(4921-4923)GGA>AGA	p.G1641R		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1652	Helical; Voltage-sensor; Name=S4 of repeat IV; (By similarity).|IV.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CCCTTTGCTCCTTTGATCAGA	0.493													80	135	---	---	---	---	PASS	T	166848831	T	T	166848831	3	4	54	1	0	0	0	0	1	0	0	0	13914	690	24	3	1079	3	SCN1A	2	166848831	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	3967382	166848831	76350542	72	20182										
SCN1A	6323	broad.mit.edu	37	chr2	166892640	166892640	+	Missense_Mutation	SNP	G	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cagattctcctacagcaattGgtacagtcacagtaagactg							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:166892640G>T	uc010zcz.1	-	16	3332	c.3314C>A	c.(3313-3315)CCA>CAA	p.P1105Q	SCN1A_uc002udo.3_Missense_Mutation_p.P985Q|SCN1A_uc010fpk.2_Missense_Mutation_p.P957Q	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1116						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TACAGCAATTGGTACAGTCAC	0.368													85	205	---	---	---	---	PASS	T	166892640	T	T	166892640	3	4	54	1	0	0	0	0	1	0	0	0	13914	1348	47	3	2726	3	SCN1A	2	166892640	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	43809	166892640	76306733	73	20183	452	2								
SCN1A	6323	broad.mit.edu	37	chr2	166892641	166892641	+	Missense_Mutation	SNP	G	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agattctcctacagcaattgGtacagtcacagtaagactgg							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:166892641G>T	uc010zcz.1	-	16	3331	c.3313C>A	c.(3313-3315)CCA>ACA	p.P1105T	SCN1A_uc002udo.3_Missense_Mutation_p.P985T|SCN1A_uc010fpk.2_Missense_Mutation_p.P957T	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1116						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	ACAGCAATTGGTACAGTCACA	0.368													87	205	---	---	---	---	PASS	T	166892641	T	T	166892641	3	4	54	1	0	0	0	0	1	0	0	0	13914	1261	44	3	2727	3	SCN1A	2	166892641	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1	166892641	76306732	74	20184	452	2								
SCN9A	6335	broad.mit.edu	37	chr2	167141025	167141025	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aagctgtccattggggagcaTgagggctgagcgtccatcaa	14	9	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:167141025T>A	uc010fpl.2	-	12	2253	c.1912A>T	c.(1912-1914)ATG>TTG	p.M638L	uc002udp.2_Intron|SCN9A_uc002udr.1_Missense_Mutation_p.M509L|SCN9A_uc002uds.1_Missense_Mutation_p.M509L|SCN9A_uc002udt.1_Missense_Mutation_p.M509L	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	638						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	TTGGGGAGCATGAGGGCTGAG	0.552													30	67	---	---	---	---	PASS	A	167141025	A	A	167141025	3	1	54	1	0	0	0	0	1	0	0	0	13925	1464	51	5	4085	5	SCN9A	2	167141025	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	248384	167141025	76058348	75	20185										
TTN	7273	broad.mit.edu	37	chr2	179393015	179393015	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acttacgaaggaccattaagGaagctgtagctgaacactgg	11	8	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:179393015G>A	uc010zfg.1	-	310	99883	c.99659C>T	c.(99658-99660)TCC>TTC	p.S33220F	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S26915F|TTN_uc010zfi.1_Missense_Mutation_p.S26848F|TTN_uc010zfj.1_Missense_Mutation_p.S26723F|TTN_uc002umq.2_Missense_Mutation_p.S237F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34147							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)			GACCATTAAGGAAGCTGTAGC	0.413													11	83	---	---	---	---	PASS	A	179393015	A	A	179393015	3	1	54	1	0	0	0	0	1	0	0	0	16732	1174	41	2	624	2	TTN	2	179393015	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	12251990	179393015	63806358	76	20186										
TTN	7273	broad.mit.edu	37	chr2	179544138	179544138	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctctggcttcttaggaacctCaggcactttaaagatattgt	8	9	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:179544138C>A	uc010zfg.1	-	139	30162	c.29938G>T	c.(29938-29940)GAG>TAG	p.E9980*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.E6641*|TTN_uc010fre.1_Intron|TTN_uc002una.1_RNA|TTN_uc010frf.1_RNA	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10907							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)			TTAGGAACCTCAGGCACTTTA	0.378													40	61	---	---	---	---	PASS	A	179544138	A	A	179544138	4	1	54	1	0	0	0	0	0	1	0	0	16732	835	29	2	70743	2	TTN	2	179544138	Nonsense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	151123	179544138	63655235	77	20187										
TTN	7273	broad.mit.edu	37	chr2	179621147	179621147	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggttacatcaatgaaagaatCatcttttaaaacacagagga	7	6	3	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:179621147C>A	uc010zfh.1	-	44	10767	c.10543G>T	c.(10543-10545)GAT>TAT	p.D3515Y	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			ATGAAAGAATCATCTTTTAAA	0.428													23	69	---	---	---	---	PASS	A	179621147	A	A	179621147	3	1	54	1	0	0	0	0	1	0	0	0	16732	826	29	2	100200	2	TTN	2	179621147	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	77009	179621147	63578226	78	20188										
CERKL	375298	broad.mit.edu	37	chr2	182413546	182413546	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aaagcgaagaagcttgccagCggtgctgaaggtgcagacgt	15	8	0	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:182413546C>T	uc002unx.2	-	8	1113	c.1012G>A	c.(1012-1014)GCT>ACT	p.A338T	CERKL_uc002uny.2_Missense_Mutation_p.A312T|CERKL_uc010zfm.1_Missense_Mutation_p.A294T|CERKL_uc002unz.2_Missense_Mutation_p.A60T|CERKL_uc002uoa.2_Missense_Mutation_p.A243T|CERKL_uc002uob.2_Missense_Mutation_p.A60T|CERKL_uc002uoc.2_Missense_Mutation_p.A199T|CERKL_uc010frk.2_RNA|CERKL_uc002uod.1_Missense_Mutation_p.A107T|CERKL_uc002uoe.2_Missense_Mutation_p.A312T|CERKL_uc002unw.2_5'Flank	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	338	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			AGCTTGCCAGCGGTGCTGAAG	0.453													5	158	---	---	---	---	PASS	T	182413546	T	T	182413546	3	4	54	1	0	0	0	0	1	0	0	0	3268	768	27	1	692	1	CERKL	2	182413546	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	2792399	182413546	60785827	79	20189										
DNAH7	56171	broad.mit.edu	37	chr2	196825142	196825142	+	Missense_Mutation	SNP	C	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acaaattccactgcatcccaCtcagtaatcatcttctccat							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:196825142C>A	uc002utj.3	-	18	2834	c.2733G>T	c.(2731-2733)GAG>GAT	p.E911D		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	911	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CTGCATCCCACTCAGTAATCA	0.368													103	182	---	---	---	---	PASS	A	196825142	A	A	196825142	3	1	54	1	0	0	0	0	1	0	0	0	4606	564	20	3	9533	3	DNAH7	2	196825142	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	14411596	196825142	46374231	80	20190	453	2								
DNAH7	56171	broad.mit.edu	37	chr2	196825143	196825143	+	Missense_Mutation	SNP	T	C	C													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caaattccactgcatcccacTcagtaatcatcttctccatc							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:196825143T>C	uc002utj.3	-	18	2833	c.2732A>G	c.(2731-2733)GAG>GGG	p.E911G		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	911	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TGCATCCCACTCAGTAATCAT	0.373													104	186	---	---	---	---	PASS	C	196825143	C	C	196825143	3	2	54	1	0	0	0	0	1	0	0	0	4606	1551	54	5	9534	5	DNAH7	2	196825143	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	1	196825143	46374230	81	20191	453	2								
SF3B1	23451	broad.mit.edu	37	chr2	198285797	198285797	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	attaagcaatgccacaggggCatgatatcctggcttcttct	9	10	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:198285797C>T	uc002uue.2	-	3	304	c.256G>A	c.(256-258)GCC>ACC	p.A86T	SF3B1_uc010fsk.1_RNA|SF3B1_uc002uuf.2_Missense_Mutation_p.A86T|SF3B1_uc002uug.2_Missense_Mutation_p.A86T	NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	86					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GCCACAGGGGCATGATATCCT	0.383													96	189	---	---	---	---	PASS	T	198285797	T	T	198285797	3	4	54	1	0	0	0	0	1	0	0	0	14149	710	25	3	3774	3	SF3B1	2	198285797	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1460654	198285797	44913576	82	20192										
PLCL1	5334	broad.mit.edu	37	chr2	198950232	198950232	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggacttttggaattgtggctGtcagattgtagcaatgaatt	12	4	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:198950232G>C	uc010fsp.2	+	2	2282	c.1991G>C	c.(1990-1992)TGT>TCT	p.C664S	PLCL1_uc002uuv.3_Missense_Mutation_p.C585S	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	664	PI-PLC Y-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	AATTGTGGCTGTCAGATTGTA	0.418													58	74	---	---	---	---	PASS	C	198950232	C	C	198950232	3	2	54	1	0	0	0	0	1	0	0	0	12039	1377	48	4	1997	4	PLCL1	2	198950232	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	664435	198950232	44249141	83	20193										
BARD1	580	broad.mit.edu	37	chr2	215617174	215617174	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gctaaatccatacttactacTgagcagtggctagctgagga	10	9	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr2:215617174T>A	uc002veu.2	-	7	1809	c.1674A>T	c.(1672-1674)TCA>TCT	p.S558S	BARD1_uc010zjm.1_Silent_p.S414S	NM_000465	NP_000456	Q99728	BARD1_HUMAN	BRCA1 associated RING domain 1	558	Flexible linker.				cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TACTTACTACTGAGCAGTGGC	0.343									Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				36	19	---	---	---	---	PASS	A	215617174	A	A	215617174	2	1	54	1	0	0	0	0	0	0	0	1	1312	1567	55	5		5	BARD1	2	215617174	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	16666942	215617174	27582199	84	20194										
CLASP2	23122	broad.mit.edu	37	chr3	33617681	33617681	+	Nonsense_Mutation	SNP	C	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caaggcatctgccaccgcctCctccacatcagaacctgtgt							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:33617681C>A	uc003cfu.2	-	24	2788	c.2434G>T	c.(2434-2436)GAG>TAG	p.E812*	CLASP2_uc003cfs.2_Nonsense_Mutation_p.E12*|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Nonsense_Mutation_p.E405*	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	813										ovary(3)|central_nervous_system(1)	4						GCCACCGCCTCCTCCACATCA	0.448													63	13	---	---	---	---	PASS	A	33617681	A	A	33617681	4	1	54	1	0	0	0	0	0	1	0	0	3455	864	30	2	2146	2	CLASP2	3	33617681	Nonsense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08		33617681	164404749	85	20195	454	2								
CLASP2	23122	broad.mit.edu	37	chr3	33617682	33617682	+	Missense_Mutation	SNP	C	G	G													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aaggcatctgccaccgcctcCtccacatcagaacctgtgtt							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:33617682C>G	uc003cfu.2	-	24	2787	c.2433G>C	c.(2431-2433)GAG>GAC	p.E811D	CLASP2_uc003cfs.2_Missense_Mutation_p.E11D|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Missense_Mutation_p.E404D	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	812										ovary(3)|central_nervous_system(1)	4						CCACCGCCTCCTCCACATCAG	0.448													63	13	---	---	---	---	PASS	G	33617682	G	G	33617682	3	3	54	1	0	0	0	0	1	0	0	0	3455	680	24	4	2147	4	CLASP2	3	33617682	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1	33617682	164404748	86	20196	454	2								
ZNF167	55888	broad.mit.edu	37	chr3	44611936	44611936	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctatgaatgcagtgagtgtgGaaaggcctataggcacagct	13	7	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:44611936G>C	uc010hin.2	+	6	1722	c.1334G>C	c.(1333-1335)GGA>GCA	p.G445A	ZNF167_uc003cnh.2_RNA|ZNF167_uc003cni.2_Intron|ZNF167_uc010hio.2_Missense_Mutation_p.G294A|ZNF167_uc003cnj.2_Missense_Mutation_p.G445A|ZNF167_uc003cnk.2_Intron	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	445	C2H2-type 3.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		AGTGAGTGTGGAAAGGCCTAT	0.463													64	27	---	---	---	---	PASS	C	44611936	C	C	44611936	3	2	54	1	0	0	0	0	1	0	0	0	17738	1174	41	2	1352	2	ZNF167	3	44611936	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	10994254	44611936	153410494	87	20197										
DOCK3	1795	broad.mit.edu	37	chr3	51263153	51263153	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggaggaaagagtgtacaaaaGaatattgaagtgaccatgta	12	3	0	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:51263153G>T	uc011bds.1	+	15	1349	c.1326G>T	c.(1324-1326)AAG>AAT	p.K442N		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	442	DHR-1.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		GTGTACAAAAGAATATTGAAG	0.438													106	31	---	---	---	---	PASS	T	51263153	T	T	51263153	3	4	54	1	0	0	0	0	1	0	0	0	4688	933	33	2	1384	2	DOCK3	3	51263153	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	6651217	51263153	146759277	88	20198										
TNNC1	7134	broad.mit.edu	37	chr3	52485422	52485422	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cttaccatcatagtcgatgcGgccgtcgttgttcttgtctc	9	12	3	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:52485422G>A	uc003deb.2	-	5	465	c.439C>T	c.(439-441)CGC>TGC	p.R147C		NM_003280	NP_003271	P63316	TNNC1_HUMAN	troponin C, slow	147	3.|EF-hand 4.				cardiac muscle contraction|muscle filament sliding|regulation of ATPase activity|regulation of muscle filament sliding speed|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin filament binding|calcium ion binding|calcium-dependent protein binding|protein homodimerization activity|troponin I binding|troponin T binding				0				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00175)|KIRC - Kidney renal clear cell carcinoma(197;0.00198)|OV - Ovarian serous cystadenocarcinoma(275;0.0525)	Bepridil(DB01244)|Dihydroxyaluminium(DB01375)|Levosimendan(DB00922)	TAGTCGATGCGGCCGTCGTTG	0.592													23	75	---	---	---	---	PASS	A	52485422	A	A	52485422	3	1	54	1	0	0	0	0	1	0	0	0	16321	1116	39	1	54	1	TNNC1	3	52485422	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1222269	52485422	145537008	89	20199										
CNTN3	5067	broad.mit.edu	37	chr3	74313618	74313618	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cttgacatagggtggacattCgagatggctgaagtggatcc	14	7	0	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:74313618C>T	uc003dpm.1	-	22	3101	c.3021G>A	c.(3019-3021)TCG>TCA	p.S1007S		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	1007					cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		GGTGGACATTCGAGATGGCTG	0.338													50	38	---	---	---	---	PASS	T	74313618	T	T	74313618	2	4	54	1	0	0	0	0	0	0	0	1	3642	871	31	2		2	CNTN3	3	74313618	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	21828196	74313618	123708812	90	20200										
ROBO2	6092	broad.mit.edu	37	chr3	77671537	77671537	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aggcccctgagagcactggaCcagactcctggatccagcat	11	14	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:77671537C>A	uc003dpy.3	+	23	4357	c.3714C>A	c.(3712-3714)GAC>GAA	p.D1238E	ROBO2_uc003dpz.2_Missense_Mutation_p.D1242E|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.D1242E	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1238	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		GAGCACTGGACCAGACTCCTG	0.463													12	63	---	---	---	---	PASS	A	77671537	A	A	77671537	3	1	54	1	0	0	0	0	1	0	0	0	13514	506	18	3	3806	3	ROBO2	3	77671537	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	3357919	77671537	120350893	91	20201										
EPHA3	2042	broad.mit.edu	37	chr3	89391229	89391229	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgctgcggtcagcatcacaaCtaatcaggctggtgagtaca	11	10	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:89391229C>T	uc003dqy.2	+	5	1520	c.1295C>T	c.(1294-1296)ACT>ATT	p.T432I	EPHA3_uc003dqx.1_Missense_Mutation_p.T432I|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	432	Extracellular (Potential).					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		AGCATCACAACTAATCAGGCT	0.463										TSP Lung(6;0.00050)			33	18	---	---	---	---	PASS	T	89391229	T	T	89391229	3	4	54	1	0	0	0	0	1	0	0	0	5168	565	20	3	1313	3	EPHA3	3	89391229	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	11719692	89391229	108631201	92	20202										
NSUN3	63899	broad.mit.edu	37	chr3	93845224	93845224	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gctcccacgacttcacatttGctcccactggccaggaatgt	8	15	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:93845224G>T	uc003drl.1	+	6	1029	c.913G>T	c.(913-915)GCT>TCT	p.A305S		NM_022072	NP_071355	Q9H649	NSUN3_HUMAN	NOL1/NOP2/Sun domain family, member 3	305							methyltransferase activity			skin(1)	1						CTTCACATTTGCTCCCACTGG	0.453													14	195	---	---	---	---	PASS	T	93845224	T	T	93845224	3	4	54	1	0	0	0	0	1	0	0	0	10679	1319	46	3	935	3	NSUN3	3	93845224	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	4453995	93845224	104177206	93	20203										
EPHA6	285220	broad.mit.edu	37	chr3	97454806	97454806	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agaagggtacagacttccagCtcccatgggctgtccagcat	11	12	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:97454806C>T	uc010how.1	+	16	3015	c.2972C>T	c.(2971-2973)GCT>GTT	p.A991V	EPHA6_uc003drt.2_Missense_Mutation_p.A383V|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	896	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						AGACTTCCAGCTCCCATGGGC	0.413													78	31	---	---	---	---	PASS	T	97454806	T	T	97454806	3	4	54	1	0	0	0	0	1	0	0	0	5171	797	28	3	3151	3	EPHA6	3	97454806	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	3609582	97454806	100567624	94	20204										
MYH15	22989	broad.mit.edu	37	chr3	108211997	108211997	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agatgacagcatgcctctggCaccaaagtgcatcctgatga	10	11	1	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:108211997C>T	uc003dxa.1	-	9	856	c.799G>A	c.(799-801)GCC>ACC	p.A267T		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	267	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						ATGCCTCTGGCACCAAAGTGC	0.363													9	116	---	---	---	---	PASS	T	108211997	T	T	108211997	3	4	54	1	0	0	0	0	1	0	0	0	10034	710	25	3	5177	3	MYH15	3	108211997	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	10757191	108211997	89810433	95	20205										
MYH15	22989	broad.mit.edu	37	chr3	108229345	108229345	+	Silent	SNP	G	C	C													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcttcacttcttctgaggaaGgctgcggcttctccaaggtc							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:108229345G>C	uc003dxa.1	-	2	150	c.93C>G	c.(91-93)GCC>GCG	p.A31A		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	31	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TTCTGAGGAAGGCTGCGGCTT	0.458													43	95	---	---	---	---	PASS	C	108229345	C	C	108229345	2	2	54	1	0	0	0	0	0	0	0	1	10034	987	35	4		4	MYH15	3	108229345	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	17348	108229345	89793085	96	20206	455	2								
MYH15	22989	broad.mit.edu	37	chr3	108229346	108229346	+	Missense_Mutation	SNP	G	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cttcacttcttctgaggaagGctgcggcttctccaaggtct							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:108229346G>T	uc003dxa.1	-	2	149	c.92C>A	c.(91-93)GCC>GAC	p.A31D		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	31	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TCTGAGGAAGGCTGCGGCTTC	0.453													45	95	---	---	---	---	PASS	T	108229346	T	T	108229346	3	4	54	1	0	0	0	0	1	0	0	0	10034	1203	42	3	5912	3	MYH15	3	108229346	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1	108229346	89793084	97	20207	455	2								
PVRL3	25945	broad.mit.edu	37	chr3	110840989	110840989	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgctcctgaagtttcggtaaCaggatatgatggaaattggt	12	5	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:110840989C>T	uc003dxt.1	+	4	821	c.821C>T	c.(820-822)ACA>ATA	p.T274I	PVRL3_uc003dxu.1_Missense_Mutation_p.T251I	NM_015480	NP_056295	Q9NQS3	PVRL3_HUMAN	poliovirus receptor-related 3 precursor	274	Extracellular (Potential).|Ig-like C2-type 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane	cell adhesion molecule binding|protein homodimerization activity			upper_aerodigestive_tract(2)	2						GTTTCGGTAACAGGATATGAT	0.333													11	132	---	---	---	---	PASS	T	110840989	T	T	110840989	3	4	54	1	0	0	0	0	1	0	0	0	12841	478	17	3	835	3	PVRL3	3	110840989	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	2611643	110840989	87181441	98	20208										
LSAMP	4045	broad.mit.edu	37	chr3	115560723	115560723	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aggctggcattggtgaccccCagcttgttggcagccacaca	12	13	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:115560723C>A	uc003ebt.2	-	6	1388	c.888G>T	c.(886-888)CTG>CTT	p.L296L	LSAMP_uc011bis.1_Silent_p.L296L	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein	296	Ig-like C2-type 3.				cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)		TGGTGACCCCCAGCTTGTTGG	0.502													96	62	---	---	---	---	PASS	A	115560723	A	A	115560723	2	1	54	1	0	0	0	0	0	0	0	1	9048	581	21	3		3	LSAMP	3	115560723	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	4719734	115560723	82461707	99	20209										
TMEM108	66000	broad.mit.edu	37	chr3	133098894	133098894	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccccattctgaaagctccctGtccacagggcccgctccagc	8	19	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:133098894G>T	uc003eph.2	+	4	613	c.339G>T	c.(337-339)CTG>CTT	p.L113L	TMEM108_uc003epi.2_Silent_p.L113L|TMEM108_uc003epj.1_Silent_p.L113L|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_Silent_p.L64L	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	113	Pro-rich.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						AAAGCTCCCTGTCCACAGGGC	0.657													31	189	---	---	---	---	PASS	T	133098894	T	T	133098894	2	4	54	1	0	0	0	0	0	0	0	1	16021	1364	48	3		3	TMEM108	3	133098894	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	17538171	133098894	64923536	100	20210										
EPHB1	2047	broad.mit.edu	37	chr3	134898766	134898766	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gatcccaacgaagctgtccgGgagtttgccaaggagattga	13	9	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:134898766G>T	uc003eqt.2	+	10	2044	c.1824G>T	c.(1822-1824)CGG>CGT	p.R608R	EPHB1_uc003equ.2_Silent_p.R169R	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	608	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						AAGCTGTCCGGGAGTTTGCCA	0.483													64	260	---	---	---	---	PASS	T	134898766	T	T	134898766	2	4	54	1	0	0	0	0	0	0	0	1	5174	1219	43	3		3	EPHB1	3	134898766	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	1799872	134898766	63123664	101	20211										
PPP2R3A	5523	broad.mit.edu	37	chr3	135768131	135768131	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aaccatcatgatgatgcctcTaaattcatctgtcttctagc	5	11	6	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:135768131T>A	uc003eqv.1	+	5	2962	c.2397T>A	c.(2395-2397)TCT>TCA	p.S799S	PPP2R3A_uc011blz.1_Silent_p.S63S|PPP2R3A_uc003eqw.1_Silent_p.S178S|PPP2R3A_uc011bma.1_RNA	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	799					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						ATGATGCCTCTAAATTCATCT	0.373													259	109	---	---	---	---	PASS	A	135768131	A	A	135768131	2	1	54	1	0	0	0	0	0	0	0	1	12388	1509	53	5		5	PPP2R3A	3	135768131	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	869365	135768131	62254299	102	20212										
XRN1	54464	broad.mit.edu	37	chr3	142031585	142031585	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agccaaagagatgagacgacGaaggcattatattagctgtt	11	6	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:142031585G>A	uc003eus.2	-	41	4740	c.4673C>T	c.(4672-4674)TCG>TTG	p.S1558L	XRN1_uc010huu.2_Missense_Mutation_p.S1012L|XRN1_uc003eut.2_Missense_Mutation_p.S1545L|XRN1_uc003euu.2_Missense_Mutation_p.S1546L	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	1558					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						ATGAGACGACGAAGGCATTAT	0.428													23	476	---	---	---	---	PASS	A	142031585	A	A	142031585	3	1	54	1	0	0	0	0	1	0	0	0	17456	1059	37	2	455	2	XRN1	3	142031585	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	6263454	142031585	55990845	103	20213										
SLC9A9	285195	broad.mit.edu	37	chr3	143082377	143082377	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gccgagcactctctgctttcGtcatgtttttatccaagtta	7	11	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:143082377G>A	uc003evn.2	-	14	1735	c.1553C>T	c.(1552-1554)ACG>ATG	p.T518M		NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	518					regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						CTCTGCTTTCGTCATGTTTTT	0.368													28	276	---	---	---	---	PASS	A	143082377	A	A	143082377	3	1	54	1	0	0	0	0	1	0	0	0	14721	1145	40	1	396	1	SLC9A9	3	143082377	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1050792	143082377	54940053	104	20214										
PLCH1	23007	broad.mit.edu	37	chr3	155282752	155282752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cacccgtgcatacatatccaCtttggactgagaaaggagct	9	11	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:155282752C>A	uc011bok.1	-	7	1262	c.985G>T	c.(985-987)GTG>TTG	p.V329L	PLCH1_uc011boj.1_Missense_Mutation_p.V329L|PLCH1_uc011bol.1_Missense_Mutation_p.V311L	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	329	PI-PLC X-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TACATATCCACTTTGGACTGA	0.502													17	258	---	---	---	---	PASS	A	155282752	A	A	155282752	3	1	54	1	0	0	0	0	1	0	0	0	12037	565	20	3	4179	3	PLCH1	3	155282752	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	12200375	155282752	42739678	105	20215										
KPNA4	3840	broad.mit.edu	37	chr3	160239695	160239695	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggcccagactgtgtctaccaGtatctaatgaataaaataaa	7	8	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:160239695G>C	uc003fdn.2	-	11	1081	c.775C>G	c.(775-777)CTG>GTG	p.L259V		NM_002268	NP_002259	O00629	IMA4_HUMAN	karyopherin alpha 4	259	ARM 5.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			GTGTCTACCAGTATCTAATGA	0.333													22	138	---	---	---	---	PASS	C	160239695	C	C	160239695	3	2	54	1	0	0	0	0	1	0	0	0	8432	1020	36	4	818	4	KPNA4	3	160239695	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	4956943	160239695	37782735	106	20216										
GOLIM4	27333	broad.mit.edu	37	chr3	167750493	167750493	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctcttccacctgatgctcctCaggttctctgcgttccactt	6	16	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:167750493C>T	uc003ffe.2	-	9	1335	c.991G>A	c.(991-993)GAG>AAG	p.E331K	GOLIM4_uc011bpe.1_Missense_Mutation_p.E331K|GOLIM4_uc011bpf.1_Missense_Mutation_p.E303K|GOLIM4_uc011bpg.1_Missense_Mutation_p.E303K	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	331	Glu-rich.|Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						TGATGCTCCTCAGGTTCTCTG	0.527													39	641	---	---	---	---	PASS	T	167750493	T	T	167750493	3	4	54	1	0	0	0	0	1	0	0	0	6566	835	29	2	1131	2	GOLIM4	3	167750493	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	7510798	167750493	30271937	107	20217										
NLGN1	22871	broad.mit.edu	37	chr3	173996992	173996992	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aatttgttgaaaatatagtaGatagcgatgatggtatatca	9	2	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:173996992G>A	uc003fio.1	+	6	1624	c.1201G>A	c.(1201-1203)GAT>AAT	p.D401N	NLGN1_uc010hww.1_Missense_Mutation_p.D441N|NLGN1_uc003fip.1_Missense_Mutation_p.D401N	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	418	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			AAATATAGTAGATAGCGATGA	0.353													52	350	---	---	---	---	PASS	A	173996992	A	A	173996992	3	1	54	1	0	0	0	0	1	0	0	0	10461	942	33	2	1215	2	NLGN1	3	173996992	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	6246499	173996992	24025438	108	20218										
USP13	8975	broad.mit.edu	37	chr3	179399767	179399767	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	actggacagagtgtatacatGcacctgaaaagacatgtgcg	11	8	0	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:179399767G>A	uc003fkh.2	+	2	351	c.270G>A	c.(268-270)ATG>ATA	p.M90I	USP13_uc003fkf.2_Missense_Mutation_p.M90I	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	90					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			GTGTATACATGCACCTGAAAA	0.443													124	525	---	---	---	---	PASS	A	179399767	A	A	179399767	3	1	54	1	0	0	0	0	1	0	0	0	17041	1319	46	3	276	3	USP13	3	179399767	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	5402775	179399767	18622663	109	20219										
USP13	8975	broad.mit.edu	37	chr3	179501877	179501877	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caaagtttgtgcctcagaaaGgccccctaaagacctgggct	10	12	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:179501877G>T	uc003fkh.2	+	21	2621	c.2540G>T	c.(2539-2541)AGG>ATG	p.R847M		NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	847					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			GCCTCAGAAAGGCCCCCTAAA	0.388													48	791	---	---	---	---	PASS	T	179501877	T	T	179501877	3	4	54	1	0	0	0	0	1	0	0	0	17041	1000	35	3	2622	3	USP13	3	179501877	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	102110	179501877	18520553	110	20220										
ATP13A4	84239	broad.mit.edu	37	chr3	193132516	193132516	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aggtctgaaaggcaccagctTagggtaggcaccattcagat	12	9	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:193132516T>A	uc003ftd.2	-	26	2974	c.2866A>T	c.(2866-2868)AAG>TAG	p.K956*	ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	956	Extracellular (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)		GGCACCAGCTTAGGGTAGGCA	0.373													191	35	---	---	---	---	PASS	A	193132516	A	A	193132516	4	1	54	1	0	0	0	0	0	1	0	0	1126	1763	61	5	744	5	ATP13A4	3	193132516	Nonsense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	13630639	193132516	4889914	111	20221										
ATP13A4	84239	broad.mit.edu	37	chr3	193272586	193272586	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tggcccttctcaaagtgtccCatgaaaaagttattccacac	6	12	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr3:193272586C>T	uc003ftd.2	-	1	111	c.3G>A	c.(1-3)ATG>ATA	p.M1I	ATP13A4_uc003fte.1_Missense_Mutation_p.M1I|ATP13A4_uc011bsr.1_5'UTR	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	1	Cytoplasmic (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)		CAAAGTGTCCCATGAAAAAGT	0.517													34	475	---	---	---	---	PASS	T	193272586	T	T	193272586	3	4	54	1	0	0	0	0	1	0	0	0	1126	594	21	3	3707	3	ATP13A4	3	193272586	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	140070	193272586	4749844	112	20222										
MFSD7	84179	broad.mit.edu	37	chr4	680322	680322	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggtgtggggtctgactcaccGccgcacggagcccgacggag	17	13	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:680322G>A	uc003gay.2	-	2	350	c.293C>T	c.(292-294)GCG>GTG	p.A98V	MFSD7_uc003gaw.2_5'Flank|MFSD7_uc003gax.2_Missense_Mutation_p.A98V|MFSD7_uc003gaz.2_Missense_Mutation_p.A76V|MFSD7_uc003gba.2_Missense_Mutation_p.A98V|MFSD7_uc003gbb.1_Missense_Mutation_p.A34V	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	98					transmembrane transport	integral to membrane					0						CTGACTCACCGCCGCACGGAG	0.657													68	190	---	---	---	---	PASS	A	680322	A	A	680322	3	1	54	1	0	0	0	0	1	0	0	0	9537	1101	38	1	1422	1	MFSD7	4	680322	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08		680322	190473954	113	20223										
HTT	3064	broad.mit.edu	37	chr4	3189570	3189570	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caacgctagaagaacacagtGaagggaaacaaataaagaat	9	6	0	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:3189570G>A	uc011bvq.1	+	40	5333	c.5188G>A	c.(5188-5190)GAA>AAA	p.E1730K		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1728					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		AGAACACAGTGAAGGGAAACA	0.398													16	129	---	---	---	---	PASS	A	3189570	A	A	3189570	3	1	54	1	0	0	0	0	1	0	0	0	7457	1291	45	2	5336	2	HTT	4	3189570	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	2509248	3189570	187964706	114	20224										
TADA2B	93624	broad.mit.edu	37	chr4	7056107	7056107	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcaactatgatgacgacgacGtggagatcgagctgaagcgc	13	9	1	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:7056107G>T	uc003gjw.3	+	2	740	c.589G>T	c.(589-591)GTG>TTG	p.V197L	TADA2B_uc010idi.2_Missense_Mutation_p.V122L	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	197					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0						TGACGACGACGTGGAGATCGA	0.582													69	105	---	---	---	---	PASS	T	7056107	T	T	7056107	3	4	54	1	0	0	0	0	1	0	0	0	15508	1145	40	1	595	1	TADA2B	4	7056107	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	3866537	7056107	184098169	115	20225										
CPZ	8532	broad.mit.edu	37	chr4	8621244	8621244	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cacggagcccgacccgctccGggcgcgcaggcagccctcgg	15	19	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:8621244G>T	uc003glm.2	+	11	1985	c.1859G>T	c.(1858-1860)CGG>CTG	p.R620L	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Missense_Mutation_p.R483L|CPZ_uc003glo.2_Missense_Mutation_p.R609L|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	620					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						GACCCGCTCCGGGCGCGCAGG	0.667													57	61	---	---	---	---	PASS	T	8621244	T	T	8621244	3	4	54	1	0	0	0	0	1	0	0	0	3839	1116	39	1	1901	1	CPZ	4	8621244	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1565137	8621244	182533032	116	20226										
NCAPG	64151	broad.mit.edu	37	chr4	17827057	17827057	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caaagaagctttggaaaattGcattaccttacaggatttta	7	6	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:17827057G>T	uc003gpp.2	+	11	1702	c.1526G>T	c.(1525-1527)TGC>TTC	p.C509F	NCAPG_uc011bxj.1_Missense_Mutation_p.C18F	NM_022346	NP_071741	Q9BPX3	CND3_HUMAN	chromosome condensation protein G	509					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	protein binding			large_intestine(1)	1				STAD - Stomach adenocarcinoma(129;0.18)		TTGGAAAATTGCATTACCTTA	0.318													8	48	---	---	---	---	PASS	T	17827057	T	T	17827057	3	4	54	1	0	0	0	0	1	0	0	0	10207	1319	46	3	1568	3	NCAPG	4	17827057	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	9205813	17827057	173327219	117	20227										
LGI2	55203	broad.mit.edu	37	chr4	25026481	25026481	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggccacgaaaggcatttcttGaaatggtttctattttgttc	9	7	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:25026481G>C	uc003grf.2	-	4	473	c.374C>G	c.(373-375)TCA>TGA	p.S125*		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	125	LRR 2.					extracellular region					0		Breast(46;0.173)				GGCATTTCTTGAAATGGTTTC	0.363													15	67	---	---	---	---	PASS	C	25026481	C	C	25026481	4	2	54	1	0	0	0	0	0	1	0	0	8752	1294	45	2	1283	2	LGI2	4	25026481	Nonsense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	7199424	25026481	166127795	118	20228										
TLR10	81793	broad.mit.edu	37	chr4	38776273	38776273	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tagattttatcctgttgaatGtaaaacactctgaaatgtac	6	6	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:38776273G>A	uc003gti.2	-	2	1318	c.939C>T	c.(937-939)TAC>TAT	p.Y313Y	TLR10_uc003gtj.2_Silent_p.Y313Y|TLR10_uc003gtk.2_Silent_p.Y313Y	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	313	LRR 7.|Extracellular (Potential).				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						CCTGTTGAATGTAAAACACTC	0.338													14	90	---	---	---	---	PASS	A	38776273	A	A	38776273	2	1	54	1	0	0	0	0	0	0	0	1	15947	1372	48	3		3	TLR10	4	38776273	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	13749792	38776273	152378003	119	20229										
SPATA18	132671	broad.mit.edu	37	chr4	52928491	52928491	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggagtcaatgcaaccaggttCaagacgagtaagaggaatgc	13	7	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:52928491C>G	uc003gzl.2	+	4	693	c.415C>G	c.(415-417)CAA>GAA	p.Q139E	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.Q139E|SPATA18_uc003gzk.1_Missense_Mutation_p.Q139E	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	139	Potential.				mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			CAACCAGGTTCAAGACGAGTA	0.368													89	72	---	---	---	---	PASS	G	52928491	G	G	52928491	3	3	54	1	0	0	0	0	1	0	0	0	15002	827	29	2	429	2	SPATA18	4	52928491	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	14152218	52928491	138225785	120	20230										
EXOC1	55763	broad.mit.edu	37	chr4	56738082	56738082	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gatttgcgagagctttttgcCcggagactggccagtcacct	12	11	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:56738082C>T	uc003hbe.1	+	8	1190	c.1032C>T	c.(1030-1032)GCC>GCT	p.A344A	EXOC1_uc003hbf.1_Silent_p.A344A|EXOC1_uc003hbg.1_Silent_p.A344A	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	344					exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					AGCTTTTTGCCCGGAGACTGG	0.398													28	70	---	---	---	---	PASS	T	56738082	T	T	56738082	2	4	54	1	0	0	0	0	0	0	0	1	5301	610	22	3		3	EXOC1	4	56738082	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	3809591	56738082	134416194	121	20231										
MMRN1	22915	broad.mit.edu	37	chr4	90856839	90856839	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgacatatgaacaaccaaagGaagcaatagtgataaggaaa	9	5	0	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:90856839G>A	uc003hst.2	+	6	2079	c.2008G>A	c.(2008-2010)GAA>AAA	p.E670K	MMRN1_uc010iku.2_Intron|MMRN1_uc011cds.1_Missense_Mutation_p.E412K	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	670					cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		ACAACCAAAGGAAGCAATAGT	0.348													57	21	---	---	---	---	PASS	A	90856839	A	A	90856839	3	1	54	1	0	0	0	0	1	0	0	0	9670	1175	41	2	2030	2	MMRN1	4	90856839	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	34118757	90856839	100297437	122	20232										
PDHA2	5161	broad.mit.edu	37	chr4	96762275	96762275	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccaagatagaatggtaaacaGcaagctcgccactgtggaag	11	9	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:96762275G>T	uc003htr.3	+	1	1037	c.974G>T	c.(973-975)AGC>ATC	p.S325I		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	325					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	ATGGTAAACAGCAAGCTCGCC	0.428													34	138	---	---	---	---	PASS	T	96762275	T	T	96762275	3	4	54	1	0	0	0	0	1	0	0	0	11665	971	34	3	976	3	PDHA2	4	96762275	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	5905436	96762275	94392001	123	20233										
ADAD1	132612	broad.mit.edu	37	chr4	123333884	123333884	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtcctcaagtgacaaattgaCcagatgggaagtgcttggtg	13	7	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:123333884C>G	uc003ieo.2	+	10	1401	c.1169C>G	c.(1168-1170)ACC>AGC	p.T390S	ADAD1_uc003iep.2_Missense_Mutation_p.T379S|ADAD1_uc003ieq.2_Missense_Mutation_p.T372S	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	390	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						GACAAATTGACCAGATGGGAA	0.413													74	256	---	---	---	---	PASS	G	123333884	G	G	123333884	3	3	54	1	0	0	0	0	1	0	0	0	231	507	18	4	1199	4	ADAD1	4	123333884	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	26571609	123333884	67820392	124	20234										
GLRB	2743	broad.mit.edu	37	chr4	158065105	158065105	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acgcgagtgctgccagagtgCccctgggtaaggtgttccat	14	11	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr4:158065105C>A	uc003ipj.2	+	8	1100	c.898C>A	c.(898-900)CCC>ACC	p.P300T		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	300	Helical; (Probable).				nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	TGCCAGAGTGCCCCTGGGTAA	0.448													32	28	---	---	---	---	PASS	A	158065105	A	A	158065105	3	1	54	1	0	0	0	0	1	0	0	0	6458	739	26	3	924	3	GLRB	4	158065105	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	34731221	158065105	33089171	125	20235										
MTRR	4552	broad.mit.edu	37	chr5	7897251	7897251	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccttctcaagagatgctcctGttggggaggaggaagcccca	13	11	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:7897251G>T	uc003jed.2	+	14	1954	c.1924G>T	c.(1924-1926)GTT>TTT	p.V642F	MTRR_uc003jee.3_Missense_Mutation_p.V615F|MTRR_uc003jef.3_RNA|MTRR_uc003jeg.3_RNA|MTRR_uc010ito.2_RNA	NM_024010	NP_076915	Q9UBK8	MTRR_HUMAN	methionine synthase reductase isoform 2	642					methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	AGATGCTCCTGTTGGGGAGGA	0.448													84	190	---	---	---	---	PASS	T	7897251	T	T	7897251	3	4	54	1	0	0	0	0	1	0	0	0	9961	1377	48	3	1978	3	MTRR	5	7897251	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08		7897251	173018009	126	20236										
CTNND2	1501	broad.mit.edu	37	chr5	11236820	11236820	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gacctcggctttaattttgtTgtctccaaaacagaggtgtt	9	8	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:11236820T>G	uc003jfa.1	-	10	1889	c.1744A>C	c.(1744-1746)AAC>CAC	p.N582H	CTNND2_uc010itt.2_Missense_Mutation_p.N491H|CTNND2_uc011cmy.1_Missense_Mutation_p.N245H|CTNND2_uc011cmz.1_Missense_Mutation_p.N149H|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.N149H	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	582	ARM 3.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						TTAATTTTGTTGTCTCCAAAA	0.458													191	213	---	---	---	---	PASS	G	11236820	G	G	11236820	3	3	54	1	0	0	0	0	1	0	0	0	4020	1812	63	5	1985	5	CTNND2	5	11236820	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	3339569	11236820	169678440	127	20237										
CDH18	1016	broad.mit.edu	37	chr5	19747337	19747337	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccatcacctttgtcagaattGgagtgcagctgtgaaataca	9	9	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:19747337G>T	uc003jgc.2	-	3	614	c.237C>A	c.(235-237)TCC>TCA	p.S79S	CDH18_uc003jgd.2_Silent_p.S79S|CDH18_uc011cnm.1_Silent_p.S79S	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	79	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TGTCAGAATTGGAGTGCAGCT	0.383													20	238	---	---	---	---	PASS	T	19747337	T	T	19747337	2	4	54	1	0	0	0	0	0	0	0	1	3103	1335	47	3		3	CDH18	5	19747337	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	8510517	19747337	161167923	128	20238										
IL7R	3575	broad.mit.edu	37	chr5	35861006	35861006	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcattctcatgctatagccaGttggaagtgaatggatcgca	10	8	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:35861006G>T	uc003jjs.2	+	2	224	c.135G>T	c.(133-135)CAG>CAT	p.Q45H	IL7R_uc011coo.1_Missense_Mutation_p.Q45H|IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	45	Extracellular (Potential).				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			GCTATAGCCAGTTGGAAGTGA	0.448													13	955	---	---	---	---	PASS	T	35861006	T	T	35861006	3	4	54	1	0	0	0	0	1	0	0	0	7705	1020	36	3	141	3	IL7R	5	35861006	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	16113669	35861006	145054254	129	20239										
SKP2	6502	broad.mit.edu	37	chr5	36168477	36168477	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agaagtgtccaccctccacgGcatactgtctcagtgttcca	8	14	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:36168477G>A	uc003jkc.1	+	5	781	c.599G>A	c.(598-600)GGC>GAC	p.G200D	SKP2_uc011cou.1_Intron|SKP2_uc003jkd.2_Missense_Mutation_p.G200D	NM_005983	NP_005974	Q13309	SKP2_HUMAN	S-phase kinase-associated protein 2 isoform 1	200	LRR 3.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G1/S transition of mitotic cell cycle|S phase of mitotic cell cycle	nucleoplasm|SCF ubiquitin ligase complex	protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4	all_lung(31;5.63e-05)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ACCCTCCACGGCATACTGTCT	0.507													7	958	---	---	---	---	PASS	A	36168477	A	A	36168477	3	1	54	1	0	0	0	0	1	0	0	0	14362	1203	42	3	617	3	SKP2	5	36168477	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	307471	36168477	144746783	130	20240										
C7	730	broad.mit.edu	37	chr5	40959652	40959652	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ataacccacctcccagtgggGgtgggagatcctgcgttgga	14	11	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:40959652G>C	uc003jmh.2	+	12	1705	c.1591G>C	c.(1591-1593)GGT>CGT	p.G531R	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	531	TSP type-1 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				TCCCAGTGGGGGTGGGAGATC	0.557													17	35	---	---	---	---	PASS	C	40959652	C	C	40959652	3	2	54	1	0	0	0	0	1	0	0	0	2375	1232	43	4	1637	4	C7	5	40959652	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	4791175	40959652	139955608	131	20241										
OXCT1	5019	broad.mit.edu	37	chr5	41805702	41805702	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctcaaactcaagagcggcccTcttgatgattcgttccctta	7	13	3	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:41805702T>C	uc003jmn.2	-	9	1253	c.922A>G	c.(922-924)AGG>GGG	p.R308G		NM_000436	NP_000427	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1 precursor	308					cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)	AGAGCGGCCCTCTTGATGATT	0.443													109	104	---	---	---	---	PASS	C	41805702	C	C	41805702	3	2	54	1	0	0	0	0	1	0	0	0	11329	1550	54	5	676	5	OXCT1	5	41805702	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	846050	41805702	139109558	132	20242										
HCN1	348980	broad.mit.edu	37	chr5	45262720	45262720	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtggagattgtgtcctcatgCgggaggtcggggtcgtagta	18	6	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:45262720C>A	uc003jok.2	-	8	2001	c.1976G>T	c.(1975-1977)CGC>CTC	p.R659L		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	659	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TGTCCTCATGCGGGAGGTCGG	0.567													101	153	---	---	---	---	PASS	A	45262720	A	A	45262720	3	1	54	1	0	0	0	0	1	0	0	0	6996	768	27	1	700	1	HCN1	5	45262720	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	3457018	45262720	135652540	133	20243										
PCDHA6	56142	broad.mit.edu	37	chr5	140208933	140208933	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctggaccgcgagagcgtgtcGgcctatgagttggtggtaac	16	9	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:140208933G>C	uc003lho.2	+	1	1284	c.1257G>C	c.(1255-1257)TCG>TCC	p.S419S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.S419S|PCDHA6_uc011dab.1_Silent_p.S419S	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	419	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAGCGTGTCGGCCTATGAGT	0.612													65	408	---	---	---	---	PASS	C	140208933	C	C	140208933	2	2	54	1	0	0	0	0	0	0	0	1	11528	1103	39	4		4	PCDHA6	5	140208933	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	94946213	140208933	40706327	134	20244										
PCDHGB1	56104	broad.mit.edu	37	chr5	140730487	140730487	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggcggggacccgcctctaagCggcaccacccatatctggat	12	15	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:140730487C>T	uc003ljo.1	+	1	660	c.660C>T	c.(658-660)AGC>AGT	p.S220S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Silent_p.S220S	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	220	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCCTCTAAGCGGCACCACCC	0.512													14	66	---	---	---	---	PASS	T	140730487	T	T	140730487	2	4	54	1	0	0	0	0	0	0	0	1	11562	767	27	1		1	PCDHGB1	5	140730487	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	521554	140730487	40184773	135	20245										
PCDHGB4	8641	broad.mit.edu	37	chr5	140768219	140768219	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agcctttcagaaaacgtgtaCccggggaccacggtgctaca	11	12	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:140768219C>T	uc003lkc.1	+	1	768	c.768C>T	c.(766-768)TAC>TAT	p.Y256Y	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Silent_p.Y256Y	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	256	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAACGTGTACCCGGGGACCA	0.507													285	104	---	---	---	---	PASS	T	140768219	T	T	140768219	2	4	54	1	0	0	0	0	0	0	0	1	11565	518	18	3		3	PCDHGB4	5	140768219	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	37732	140768219	40147041	136	20246										
SLIT3	6586	broad.mit.edu	37	chr5	168201350	168201350	+	Silent	SNP	C	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aggtcctgaaacgtgttcacCcgcaggcagttgatcttgtt							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:168201350C>A	uc003mab.2	-	13	1605	c.1185G>T	c.(1183-1185)CGG>CGT	p.R395R	SLIT3_uc010jjg.2_Silent_p.R395R|SLIT3_uc010jji.2_Silent_p.R395R|SLIT3_uc003mac.1_Silent_p.R192R	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	395	LRR 10.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACGTGTTCACCCGCAGGCAGT	0.537													376	157	---	---	---	---	PASS	A	168201350	A	A	168201350	2	1	54	1	0	0	0	0	0	0	0	1	14741	610	22	3		3	SLIT3	5	168201350	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	27433131	168201350	12713910	137	20247	456	2								
SLIT3	6586	broad.mit.edu	37	chr5	168201351	168201351	+	Missense_Mutation	SNP	C	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggtcctgaaacgtgttcaccCgcaggcagttgatcttgttg					rs2288792	by1000genomes	TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:168201351C>A	uc003mab.2	-	13	1604	c.1184G>T	c.(1183-1185)CGG>CTG	p.R395L	SLIT3_uc010jjg.2_Missense_Mutation_p.R395L|SLIT3_uc010jji.2_Missense_Mutation_p.R395L|SLIT3_uc003mac.1_Missense_Mutation_p.R192L	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	395	LRR 10.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CGTGTTCACCCGCAGGCAGTT	0.542													375	157	---	---	---	---	PASS	A	168201351	A	A	168201351	3	1	54	1	0	0	0	0	1	0	0	0	14741	652	23	1	3483	1	SLIT3	5	168201351	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1	168201351	12713909	138	20248	456	2								
DOK3	79930	broad.mit.edu	37	chr5	176931128	176931128	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agccgccggtactgggcctcCagggtactgtcgttggccgg	16	13	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr5:176931128C>T	uc003mhk.2	-	6	1352	c.1347G>A	c.(1345-1347)CTG>CTA	p.L449L	DOK3_uc003mhh.3_Intron|DOK3_uc003mhi.3_Intron|DOK3_uc003mhj.3_Intron|DOK3_uc003mhl.2_Silent_p.L393L	NM_024872	NP_079148	Q7L591	DOK3_HUMAN	docking protein 3 isoform 1	449	Pro-rich.					cytoplasm|plasma membrane	insulin receptor binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	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)|Epithelial(233;0.191)			ACTGGGCCTCCAGGGTACTGT	0.687													31	9	---	---	---	---	PASS	T	176931128	T	T	176931128	2	4	54	1	0	0	0	0	0	0	0	1	4698	581	21	3		3	DOK3	5	176931128	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	8729777	176931128	3984132	139	20249										
SLC22A23	63027	broad.mit.edu	37	chr6	3324141	3324141	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctgccaatcccggcacagggCggctagcccaggcatgagga	14	14	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:3324141C>T	uc003mvm.3	-	4	1009	c.1009G>A	c.(1009-1011)GCC>ACC	p.A337T	SLC22A23_uc003mvn.3_Missense_Mutation_p.A56T|SLC22A23_uc003mvo.3_Missense_Mutation_p.A56T|SLC22A23_uc003mvp.1_RNA|SLC22A23_uc010jnn.2_Missense_Mutation_p.A337T|SLC22A23_uc010jno.2_Missense_Mutation_p.A337T	NM_015482	NP_056297	A1A5C7	S22AN_HUMAN	solute carrier family 22, member 23 isoform a	337					ion transport	integral to membrane	transmembrane transporter activity			ovary(1)	1	Ovarian(93;0.0493)	all_hematologic(90;0.0905)				CGGCACAGGGCGGCTAGCCCA	0.612													14	42	---	---	---	---	PASS	T	3324141	T	T	3324141	3	4	54	1	0	0	0	0	1	0	0	0	14452	768	27	1	1079	1	SLC22A23	6	3324141	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08		3324141	167790926	140	20250										
BMP6	654	broad.mit.edu	37	chr6	7862565	7862565	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cacccccgagccgcaggcctGgtgggcagagacggccctta	14	16	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:7862565G>T	uc003mxu.3	+	4	1216	c.1038G>T	c.(1036-1038)CTG>CTT	p.L346L		NM_001718	NP_001709	P22004	BMP6_HUMAN	bone morphogenetic protein 6 preproprotein	346					BMP signaling pathway|cartilage development|growth|immune response|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	BMP receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity			large_intestine(2)|ovary(1)	3	Ovarian(93;0.0721)					CCGCAGGCCTGGTGGGCAGAG	0.547													76	209	---	---	---	---	PASS	T	7862565	T	T	7862565	2	4	54	1	0	0	0	0	0	0	0	1	1464	1335	47	3		3	BMP6	6	7862565	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	4538424	7862565	163252502	141	20251										
HSPA1L	3305	broad.mit.edu	37	chr6	31778147	31778147	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctttgcagcaattttctcccTctggacctcatcttcagctt	5	14	5	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:31778147T>A	uc003nxh.2	-	2	1786	c.1603A>T	c.(1603-1605)AGG>TGG	p.R535W	HSPA1L_uc010jte.2_Missense_Mutation_p.R535W	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	535					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						ATTTTCTCCCTCTGGACCTCA	0.448													232	302	---	---	---	---	PASS	A	31778147	A	A	31778147	3	1	54	1	0	0	0	0	1	0	0	0	7410	1550	54	5	326	5	HSPA1L	6	31778147	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	23915582	31778147	139336920	142	20252										
NEU1	4758	broad.mit.edu	37	chr6	31827543	31827543	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggccacggagatgctctctgTgtagtggttccggcctttct	13	11	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:31827543T>A	uc003nxq.3	-	6	1357	c.1201A>T	c.(1201-1203)ACA>TCA	p.T401S	NEU1_uc010jtg.2_RNA|NEU1_uc003nxr.3_RNA|NEU1_uc010jth.2_Missense_Mutation_p.T232S|NEU1_uc003nxs.3_3'UTR	NM_000434	NP_000425	Q99519	NEUR1_HUMAN	neuraminidase precursor	401						cytoplasmic membrane-bounded vesicle|lysosomal lumen|lysosomal membrane|plasma membrane	exo-alpha-sialidase activity|protein binding			ovary(1)	1					Oseltamivir(DB00198)|Zanamivir(DB00558)	ATGCTCTCTGTGTAGTGGTTC	0.572													87	161	---	---	---	---	PASS	A	31827543	A	A	31827543	3	1	54	1	0	0	0	0	1	0	0	0	10341	1696	59	5	50	5	NEU1	6	31827543	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	49396	31827543	139287524	143	20253										
RGL2	5863	broad.mit.edu	37	chr6	33263293	33263293	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cttctctctcacctctgccaCgcggatccacttctccagga	6	18	4	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:33263293C>A	uc003odv.2	-	7	1145	c.1012G>T	c.(1012-1014)GTG>TTG	p.V338L	RGL2_uc003odu.2_5'UTR|RGL2_uc010jur.2_5'UTR|RGL2_uc003odw.2_Missense_Mutation_p.V256L|RGL2_uc011drb.1_Missense_Mutation_p.V256L	NM_004761	NP_004752	O15211	RGL2_HUMAN	ral guanine nucleotide dissociation	338	Ras-GEF.				Ras protein signal transduction|regulation of small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity			skin(3)|lung(1)|breast(1)|pancreas(1)	6						ACCTCTGCCACGCGGATCCAC	0.617													14	89	---	---	---	---	PASS	A	33263293	A	A	33263293	3	1	54	1	0	0	0	0	1	0	0	0	13277	536	19	1	1369	1	RGL2	6	33263293	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1435750	33263293	137851774	144	20254										
DNAH8	1769	broad.mit.edu	37	chr6	38754631	38754631	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tttggaagttgttcgggaaaCtaagtgtatgataaaaatga	11	2	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:38754631C>G	uc003ooe.1	+	16	2435	c.1835C>G	c.(1834-1836)ACT>AGT	p.T612S		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GTTCGGGAAACTAAGTGTATG	0.368													34	68	---	---	---	---	PASS	G	38754631	G	G	38754631	3	3	54	1	0	0	0	0	1	0	0	0	4607	565	20	4	1889	4	DNAH8	6	38754631	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	5491338	38754631	132360436	145	20255										
DNAH8	1769	broad.mit.edu	37	chr6	38879313	38879313	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aatggttataaaaacatttaTgctgaaaaggtgaagttcat	8	3	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:38879313T>A	uc003ooe.1	+	64	9759	c.9159T>A	c.(9157-9159)TAT>TAA	p.Y3053*	uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AAAACATTTATGCTGAAAAGG	0.294													28	67	---	---	---	---	PASS	A	38879313	A	A	38879313	4	1	54	1	0	0	0	0	0	1	0	0	4607	1471	51	5	9405	5	DNAH8	6	38879313	Nonsense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	124682	38879313	132235754	146	20256										
KIAA0240	23506	broad.mit.edu	37	chr6	42789780	42789780	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	catggatgatgatgatgactCgtgtctccttgatcttattg	10	7	2	5			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:42789780C>T	uc003osn.1	+	3	171	c.20C>T	c.(19-21)TCG>TTG	p.S7L	KIAA0240_uc003osm.1_Missense_Mutation_p.S7L|KIAA0240_uc011duw.1_Missense_Mutation_p.S7L|KIAA0240_uc003oso.1_Missense_Mutation_p.S7L|KIAA0240_uc003osp.1_Missense_Mutation_p.S7L	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	7										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			GATGATGACTCGTGTCTCCTT	0.358													13	253	---	---	---	---	PASS	T	42789780	T	T	42789780	3	4	54	1	0	0	0	0	1	0	0	0	8164	893	31	2	22	2	KIAA0240	6	42789780	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	3910467	42789780	128325287	147	20257										
COL19A1	1310	broad.mit.edu	37	chr6	70669889	70669889	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttctgtgtacttcttttaggGtgaaaatggtttacatggtg	11	4	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:70669889G>A	uc003pfc.1	+	10	1055	c.938G>A	c.(937-939)GGT>GAT	p.G313D	COL19A1_uc010kam.1_Missense_Mutation_p.G209D	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	313	Triple-helical region 1 (COL1).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TTCTTTTAGGGTGAAAATGGT	0.328													22	56	---	---	---	---	PASS	A	70669889	A	A	70669889	3	1	54	1	0	0	0	0	1	0	0	0	3676	1275	44	3	972	3	COL19A1	6	70669889	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	27880109	70669889	100445178	148	20258										
ZNF292	23036	broad.mit.edu	37	chr6	87971382	87971382	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agaatcttaaagattgcactGagcttgtcttaaagcaactt	7	7	2	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:87971382G>T	uc003plm.3	+	8	8076	c.8035G>T	c.(8035-8037)GAG>TAG	p.E2679*		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	2679					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		AGATTGCACTGAGCTTGTCTT	0.343													11	24	---	---	---	---	PASS	T	87971382	T	T	87971382	4	4	54	1	0	0	0	0	0	1	0	0	17823	1291	45	2	8065	2	ZNF292	6	87971382	Nonsense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	17301493	87971382	83143685	149	20259										
TNFAIP3	7128	broad.mit.edu	37	chr6	138196127	138196127	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cgctggcaactggagtctctCaaatctcaggaatttgttga	10	9	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:138196127C>G	uc003qhr.2	+	3	507	c.441C>G	c.(439-441)CTC>CTG	p.L147L	TNFAIP3_uc003qhs.2_Silent_p.L147L	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	147	TRAF-binding.|OTU.				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)|p.L147fs*7(1)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		TGGAGTCTCTCAAATCTCAGG	0.483			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								39	238	---	---	---	---	PASS	G	138196127	G	G	138196127	2	3	54	1	0	0	0	0	0	0	0	1	16271	813	29	2		2	TNFAIP3	6	138196127	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	50224745	138196127	32918940	150	20260										
UTRN	7402	broad.mit.edu	37	chr6	144768801	144768801	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agctgagtgagattggccagGatgtgggacaattacttgat	14	5	0	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:144768801G>A	uc003qkt.2	+	15	1878	c.1786G>A	c.(1786-1788)GAT>AAT	p.D596N	UTRN_uc010khq.1_Missense_Mutation_p.D596N	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	596	Interaction with SYNM.|Spectrin 4.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GATTGGCCAGGATGTGGGACA	0.378													36	181	---	---	---	---	PASS	A	144768801	A	A	144768801	3	1	54	1	0	0	0	0	1	0	0	0	17100	1174	41	2	1844	2	UTRN	6	144768801	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	6572674	144768801	26346266	151	20261										
STXBP5	134957	broad.mit.edu	37	chr6	147636666	147636666	+	Nonsense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tccagtaactctacaagtatTatataagctaaagacatcta	4	8	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:147636666T>G	uc003qlz.2	+	15	1579	c.1418T>G	c.(1417-1419)TTA>TGA	p.L473*	STXBP5_uc010khz.1_Nonsense_Mutation_p.L473*|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Nonsense_Mutation_p.L144*	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	473	WD 8.				exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		CTACAAGTATTATATAAGCTA	0.284													20	27	---	---	---	---	PASS	G	147636666	G	G	147636666	4	3	54	1	0	0	0	0	0	1	0	0	15355	1764	61	5	1476	5	STXBP5	6	147636666	Nonsense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	2867865	147636666	23478401	152	20262										
SYNE1	23345	broad.mit.edu	37	chr6	152536168	152536168	+	Missense_Mutation	SNP	C	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tagacggtctaaatctggagCcatgctgctgaattttaaca							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:152536168C>A	uc010kiw.2	-	122	22821	c.22219G>T	c.(22219-22221)GCT>TCT	p.A7407S	SYNE1_uc010kiv.2_Missense_Mutation_p.A1931S|SYNE1_uc003qos.3_Missense_Mutation_p.A1931S|SYNE1_uc003qot.3_Missense_Mutation_p.A7336S|SYNE1_uc003qou.3_Missense_Mutation_p.A7407S|SYNE1_uc003qor.3_Missense_Mutation_p.A307S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7407	Spectrin 24.|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)		AAATCTGGAGCCATGCTGCTG	0.388										HNSCC(10;0.0054)			80	135	---	---	---	---	PASS	A	152536168	A	A	152536168	3	1	54	1	0	0	0	0	1	0	0	0	15442	739	26	3	4347	3	SYNE1	6	152536168	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	4899502	152536168	18578899	153	20263	457	2								
SYNE1	23345	broad.mit.edu	37	chr6	152536169	152536169	+	Missense_Mutation	SNP	C	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agacggtctaaatctggagcCatgctgctgaattttaacat							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr6:152536169C>A	uc010kiw.2	-	122	22820	c.22218G>T	c.(22216-22218)ATG>ATT	p.M7406I	SYNE1_uc010kiv.2_Missense_Mutation_p.M1930I|SYNE1_uc003qos.3_Missense_Mutation_p.M1930I|SYNE1_uc003qot.3_Missense_Mutation_p.M7335I|SYNE1_uc003qou.3_Missense_Mutation_p.M7406I|SYNE1_uc003qor.3_Missense_Mutation_p.M306I	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7406	Spectrin 24.|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)		AATCTGGAGCCATGCTGCTGA	0.388										HNSCC(10;0.0054)			81	135	---	---	---	---	PASS	A	152536169	A	A	152536169	3	1	54	1	0	0	0	0	1	0	0	0	15442	594	21	3	4348	3	SYNE1	6	152536169	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1	152536169	18578898	154	20264	457	2								
MAD1L1	8379	broad.mit.edu	37	chr7	2255539	2255539	+	Missense_Mutation	SNP	C	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cctcgttctccagctccaagCcaaccagcgtctcctgcatc							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:2255539C>A	uc003slh.1	-	9	1171	c.905G>T	c.(904-906)GGC>GTC	p.G302V	MAD1L1_uc003sle.1_Missense_Mutation_p.G31V|MAD1L1_uc003slf.1_Missense_Mutation_p.G302V|MAD1L1_uc003slg.1_Missense_Mutation_p.G302V|MAD1L1_uc010ksh.1_Missense_Mutation_p.G302V|MAD1L1_uc003sli.1_Missense_Mutation_p.G210V|MAD1L1_uc010ksi.1_Missense_Mutation_p.G255V|MAD1L1_uc010ksj.2_Missense_Mutation_p.G302V	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	302	Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		CAGCTCCAAGCCAACCAGCGT	0.637													123	214	---	---	---	---	PASS	A	2255539	A	A	2255539	3	1	54	1	0	0	0	0	1	0	0	0	9147	739	26	3	1295	3	MAD1L1	7	2255539	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08		2255539	156883124	155	20265	458	2								
MAD1L1	8379	broad.mit.edu	37	chr7	2255540	2255540	+	Missense_Mutation	SNP	C	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctcgttctccagctccaagcCaaccagcgtctcctgcatct							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:2255540C>A	uc003slh.1	-	9	1170	c.904G>T	c.(904-906)GGC>TGC	p.G302C	MAD1L1_uc003sle.1_Missense_Mutation_p.G31C|MAD1L1_uc003slf.1_Missense_Mutation_p.G302C|MAD1L1_uc003slg.1_Missense_Mutation_p.G302C|MAD1L1_uc010ksh.1_Missense_Mutation_p.G302C|MAD1L1_uc003sli.1_Missense_Mutation_p.G210C|MAD1L1_uc010ksi.1_Missense_Mutation_p.G255C|MAD1L1_uc010ksj.2_Missense_Mutation_p.G302C	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	302	Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		AGCTCCAAGCCAACCAGCGTC	0.632													125	213	---	---	---	---	PASS	A	2255540	A	A	2255540	3	1	54	1	0	0	0	0	1	0	0	0	9147	594	21	3	1296	3	MAD1L1	7	2255540	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1	2255540	156883123	156	20266	458	2								
PHF14	9678	broad.mit.edu	37	chr7	11078436	11078436	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cctgaatggaaaacttcgaaGtgaaggacaaggaatatggg	13	5	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:11078436G>A	uc003sry.1	+	11	2465	c.2030G>A	c.(2029-2031)AGT>AAT	p.S677N	PHF14_uc011jxi.1_Missense_Mutation_p.S392N|PHF14_uc003srz.2_Missense_Mutation_p.S677N|PHF14_uc011jxj.1_Missense_Mutation_p.S392N	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	677							zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		AAACTTCGAAGTGAAGGACAA	0.353													6	28	---	---	---	---	PASS	A	11078436	A	A	11078436	3	1	54	1	0	0	0	0	1	0	0	0	11825	1029	36	3	2072	3	PHF14	7	11078436	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	8822896	11078436	148060227	157	20267										
DNAH11	8701	broad.mit.edu	37	chr7	21723437	21723437	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcttttacatggctgtctcaActtcgtcaccgatgggagga	11	10	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:21723437A>T	uc003svc.2	+	33	5548	c.5517A>T	c.(5515-5517)CAA>CAT	p.Q1839H		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1839	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GGCTGTCTCAACTTCGTCACC	0.438									Kartagener_syndrome				204	234	---	---	---	---	PASS	T	21723437	T	T	21723437	3	4	54	1	0	0	0	0	1	0	0	0	4599	40	2	5	5644	5	DNAH11	7	21723437	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	10645001	21723437	137415226	158	20268										
GHRHR	2692	broad.mit.edu	37	chr7	31008714	31008714	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggatgggctgctgtgctggcCaacggcaggctctggcgagt	18	10	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:31008714C>A	uc003tbx.2	+	3	245	c.197C>A	c.(196-198)CCA>CAA	p.P66Q	GHRHR_uc003tbw.1_Missense_Mutation_p.P66Q|GHRHR_uc003tby.2_5'Flank|GHRHR_uc003tbz.2_5'Flank	NM_000823	NP_000814	Q02643	GHRHR_HUMAN	growth hormone releasing hormone receptor	66	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to estrogen stimulus|response to glucocorticoid stimulus	cell surface|integral to membrane|nuclear inner membrane|nuclear matrix|nuclear outer membrane|plasma membrane|stored secretory granule	growth factor binding|growth hormone-releasing hormone receptor activity|peptide hormone binding			ovary(2)|lung(1)|breast(1)|large_intestine(1)	5					Sermorelin(DB00010)	CTGTGCTGGCCAACGGCAGGC	0.637													4	6	---	---	---	---	PASS	A	31008714	A	A	31008714	3	1	54	1	0	0	0	0	1	0	0	0	6373	594	21	3	207	3	GHRHR	7	31008714	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	9285277	31008714	128129949	159	20269										
DPY19L1	23333	broad.mit.edu	37	chr7	35050089	35050089	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aatattcttaccttaaatatGtgccatatatgaagaataat	4	5	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:35050089G>T	uc003tem.3	-	6	681	c.536C>A	c.(535-537)ACA>AAA	p.T179K		NM_015283	NP_056098	Q2PZI1	D19L1_HUMAN	dpy-19-like 1	179						integral to membrane					0						CCTTAAATATGTGCCATATAT	0.234													10	26	---	---	---	---	PASS	T	35050089	T	T	35050089	3	4	54	1	0	0	0	0	1	0	0	0	4740	1377	48	3	1559	3	DPY19L1	7	35050089	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	4041375	35050089	124088574	160	20270										
GLI3	2737	broad.mit.edu	37	chr7	42005725	42005725	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cgcccgtagccgtgggctccCccgtcgctgcacctcctcgg	12	20	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:42005725C>A	uc011kbh.1	-	15	3037	c.2946G>T	c.(2944-2946)GGG>GGT	p.G982G	GLI3_uc011kbg.1_Silent_p.G923G	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	982					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CGTGGGCTCCCCCGTCGCTGC	0.746									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				8	8	---	---	---	---	PASS	A	42005725	A	A	42005725	2	1	54	1	0	0	0	0	0	0	0	1	6439	610	22	3		3	GLI3	7	42005725	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	6955636	42005725	117132938	161	20271										
ABCA13	154664	broad.mit.edu	37	chr7	48431646	48431646	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcagcaggacatcctgttggAcaacctcaccgtccgggaac	11	14	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:48431646A>G	uc003toq.2	+	38	11808	c.11783A>G	c.(11782-11784)GAC>GGC	p.D3928G	ABCA13_uc010kys.1_Missense_Mutation_p.D1002G|ABCA13_uc003tos.1_Missense_Mutation_p.D754G|ABCA13_uc010kyt.1_RNA	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3928	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ATCCTGTTGGACAACCTCACC	0.507													16	106	---	---	---	---	PASS	G	48431646	G	G	48431646	3	3	54	1	0	0	0	0	1	0	0	0	31	275	10	5	11762	5	ABCA13	7	48431646	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	6425921	48431646	110707017	162	20272										
CALN1	83698	broad.mit.edu	37	chr7	71252808	71252808	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttggctgcaatcagcatgacActgatgatgaaggccatagc	11	9	1	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:71252808A>G	uc003twa.3	-	6	1139	c.612T>C	c.(610-612)AGT>AGC	p.S204S	CALN1_uc003twb.3_Silent_p.S246S|CALN1_uc003twc.3_Silent_p.S204S	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2	204	Helical; Anchor for type IV membrane protein; (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				TCAGCATGACACTGATGATGA	0.582													9	97	---	---	---	---	PASS	G	71252808	G	G	71252808	2	3	54	1	0	0	0	0	0	0	0	1	2591	156	6	5		5	CALN1	7	71252808	Silent	SNP	A	TCGA-33-4532-01A-01D-1267-08	22821162	71252808	87885855	163	20273										
CCDC146	57639	broad.mit.edu	37	chr7	76916837	76916837	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caggtctccaggctcacagaCaggctctgcagcaaaactca	9	14	4	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:76916837C>A	uc003uga.2	+	17	2485	c.2358C>A	c.(2356-2358)GAC>GAA	p.D786E	CCDC146_uc010ldp.2_Missense_Mutation_p.D500E|CCDC146_uc003ugc.2_Missense_Mutation_p.D123E	NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	786	Potential.									ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				GGCTCACAGACAGGCTCTGCA	0.522													45	59	---	---	---	---	PASS	A	76916837	A	A	76916837	3	1	54	1	0	0	0	0	1	0	0	0	2780	477	17	3	2420	3	CCDC146	7	76916837	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	5664029	76916837	82221826	164	20274										
STAG3	10734	broad.mit.edu	37	chr7	99779815	99779815	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cgaccaccgaaaacaacaccGgtgagtcagccagttttctt	8	13	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:99779815G>A	uc003utx.1	+	3	374	c.219G>A	c.(217-219)CCG>CCA	p.P73P	STAG3_uc010lgs.1_5'UTR|STAG3_uc011kjk.1_Silent_p.P73P	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	73					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AAACAACACCGGTGAGTCAGC	0.333													4	67	---	---	---	---	PASS	A	99779815	A	A	99779815	2	1	54	1	0	0	0	0	0	0	0	1	15243	1130	39	1		1	STAG3	7	99779815	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	22862978	99779815	59358848	165	20275										
SLC12A9	56996	broad.mit.edu	37	chr7	100452291	100452291	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caggccctggccatgctgctGgttgcctacttcatcctggc	11	15	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:100452291G>T	uc003uwp.2	+	3	373	c.231G>T	c.(229-231)CTG>CTT	p.L77L	SLC12A9_uc003uwo.1_Intron|SLC12A9_uc003uwq.2_Intron|SLC12A9_uc011kki.1_Intron|SLC12A9_uc003uwr.2_5'Flank|SLC12A9_uc003uws.2_5'Flank|SLC12A9_uc003uwt.2_5'Flank	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	77	Helical; (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					CCATGCTGCTGGTTGCCTACT	0.612													115	170	---	---	---	---	PASS	T	100452291	T	T	100452291	2	4	54	1	0	0	0	0	0	0	0	1	14390	1335	47	3		3	SLC12A9	7	100452291	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	672476	100452291	58686372	166	20276										
MUC17	140453	broad.mit.edu	37	chr7	100682800	100682800	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acaaatatacttgtcagcacCacgctgttggccaattctga	7	11	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:100682800C>G	uc003uxp.1	+	3	8156	c.8103C>G	c.(8101-8103)ACC>ACG	p.T2701T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2701	Extracellular (Potential).|43.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TTGTCAGCACCACGCTGTTGG	0.488													76	521	---	---	---	---	PASS	G	100682800	G	G	100682800	2	3	54	1	0	0	0	0	0	0	0	1	9974	581	21	4		4	MUC17	7	100682800	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	230509	100682800	58455863	167	20277										
MOGAT3	346606	broad.mit.edu	37	chr7	100841537	100841537	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtaaggcagtgctccccgggGactgaatacagggcctcgtg	15	11	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:100841537G>A	uc003uyc.2	-	5	770	c.603C>T	c.(601-603)GTC>GTT	p.V201V	MOGAT3_uc010lhr.2_Silent_p.V201V	NM_178176	NP_835470	Q86VF5	MOGT3_HUMAN	monoacylglycerol O-acyltransferase 3	201					glycerol metabolic process|lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity|diacylglycerol O-acyltransferase activity			ovary(2)	2	Lung NSC(181;0.168)|all_lung(186;0.215)					GCTCCCCGGGGACTGAATACA	0.672													25	165	---	---	---	---	PASS	A	100841537	A	A	100841537	2	1	54	1	0	0	0	0	0	0	0	1	9696	1161	41	2		2	MOGAT3	7	100841537	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	158737	100841537	58297126	168	20278										
EMID2	136227	broad.mit.edu	37	chr7	101006372	101006372	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cctctgcgggtcggcgctggCcaccggcttcctctatccct	11	18	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:101006372C>T	uc010lhy.1	+	1	251	c.59C>T	c.(58-60)GCC>GTC	p.A20V	EMID2_uc003uyo.1_Missense_Mutation_p.A20V	NM_133457	NP_597714	Q96A83	EMID2_HUMAN	EMI domain containing 2	20						collagen				ovary(1)	1	Lung NSC(181;0.215)					TCGGCGCTGGCCACCGGCTTC	0.751													3	7	---	---	---	---	PASS	T	101006372	T	T	101006372	3	4	54	1	0	0	0	0	1	0	0	0	5092	739	26	3	61	3	EMID2	7	101006372	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	164835	101006372	58132291	169	20279										
ORC5L	5001	broad.mit.edu	37	chr7	103838219	103838219	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcaaaagatttgcttccataTctcttagatactctgcttta	5	9	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:103838219T>C	uc003vcb.2	-	4	506	c.395A>G	c.(394-396)GAT>GGT	p.D132G	ORC5L_uc011klp.1_5'UTR|ORC5L_uc003vcc.2_Missense_Mutation_p.D132G|ORC5L_uc003vcd.2_Missense_Mutation_p.D132G	NM_002553	NP_002544	O43913	ORC5_HUMAN	origin recognition complex subunit 5 isoform 1	132					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	cytoplasm|nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|identical protein binding				0						TGCTTCCATATCTCTTAGATA	0.199													19	16	---	---	---	---	PASS	C	103838219	C	C	103838219	3	2	54	1	0	0	0	0	1	0	0	0	11265	1435	50	5	1054	5	ORC5L	7	103838219	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	2831847	103838219	55300444	170	20280										
SLC26A3	1811	broad.mit.edu	37	chr7	107418637	107418637	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cacaattgggtcctgaacacGatggttagcagttgaaatgc	11	8	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:107418637G>C	uc003ver.2	-	13	1708	c.1497C>G	c.(1495-1497)ATC>ATG	p.I499M	SLC26A3_uc003ves.2_Missense_Mutation_p.I464M	NM_000111	NP_000102	P40879	S26A3_HUMAN	solute carrier family 26, member 3	499					excretion	integral to membrane|membrane fraction	inorganic anion exchanger activity|secondary active sulfate transmembrane transporter activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(3)|skin(1)	4						TCCTGAACACGATGGTTAGCA	0.473													18	22	---	---	---	---	PASS	C	107418637	C	C	107418637	3	2	54	1	0	0	0	0	1	0	0	0	14518	1048	37	2	833	2	SLC26A3	7	107418637	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	3580418	107418637	51720026	171	20281										
DOCK4	9732	broad.mit.edu	37	chr7	111405235	111405235	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgaagaactctggttcaagaCgttgctggtccataattttg	10	7	2	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:111405235C>A	uc003vfx.2	-	38	4201	c.3932G>T	c.(3931-3933)CGT>CTT	p.R1311L	DOCK4_uc011kml.1_Missense_Mutation_p.R192L|DOCK4_uc011kmm.1_Missense_Mutation_p.R218L|DOCK4_uc003vfw.2_Missense_Mutation_p.R761L|DOCK4_uc003vfy.2_Missense_Mutation_p.R1356L	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1311	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				TGGTTCAAGACGTTGCTGGTC	0.328													4	4	---	---	---	---	PASS	A	111405235	A	A	111405235	3	1	54	1	0	0	0	0	1	0	0	0	4689	536	19	1	2028	1	DOCK4	7	111405235	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	3986598	111405235	47733428	172	20282										
ANKRD7	56311	broad.mit.edu	37	chr7	117876971	117876971	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggaatatgtttatttccatgGttttactgcgtaagtgatac	9	5	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:117876971G>A	uc003vji.2	+	5	876	c.703G>A	c.(703-705)GTT>ATT	p.V235I		NM_019644	NP_062618	Q92527	ANKR7_HUMAN	ankyrin repeat domain 7	235					male gonad development						0						TATTTCCATGGTTTTACTGCG	0.393													230	302	---	---	---	---	PASS	A	117876971	A	A	117876971	3	1	54	1	0	0	0	0	1	0	0	0	686	1261	44	3	721	3	ANKRD7	7	117876971	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	6471736	117876971	41261692	173	20283										
DENND2A	27147	broad.mit.edu	37	chr7	140287512	140287512	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtgtcagccccagcttagtcTgcgcgtaccagtccaccctg	10	16	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:140287512T>G	uc010lnj.2	-	2	1209	c.1064A>C	c.(1063-1065)CAG>CCG	p.Q355P	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.Q355P|DENND2A_uc003vvw.2_Missense_Mutation_p.Q355P|DENND2A_uc003vvx.2_Missense_Mutation_p.Q355P	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	355										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					CAGCTTAGTCTGCGCGTACCA	0.493													46	117	---	---	---	---	PASS	G	140287512	G	G	140287512	3	3	54	1	0	0	0	0	1	0	0	0	4429	1580	55	5	2033	5	DENND2A	7	140287512	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	22410541	140287512	18851151	174	20284										
TRPV5	56302	broad.mit.edu	37	chr7	142626552	142626552	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgaggttgcggggactacggCggaaggcagtgcctgtggct	19	8	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:142626552C>T	uc003wby.1	-	4	722	c.458G>A	c.(457-459)CGC>CAC	p.R153H	TRPV5_uc003wbz.2_Missense_Mutation_p.R153H	NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	153	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					GGGACTACGGCGGAAGGCAGT	0.622													56	66	---	---	---	---	PASS	T	142626552	T	T	142626552	3	4	54	1	0	0	0	0	1	0	0	0	16596	768	27	1	1779	1	TRPV5	7	142626552	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	2339040	142626552	16512111	175	20285										
OR9A2	135924	broad.mit.edu	37	chr7	142724138	142724138	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	atagaagaaaaagaatatagCaaaaagaatgtggtgtagtc	10	2	0	4	rs147361429		TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:142724138C>T	uc003wcc.1	-	1	82	c.82G>A	c.(82-84)GCT>ACT	p.A28T		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	28	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					AAGAATATAGCAAAAAGAATG	0.418													30	129	---	---	---	---	PASS	T	142724138	T	T	142724138	3	4	54	1	0	0	0	0	1	0	0	0	11248	710	25	3	854	3	OR9A2	7	142724138	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	97586	142724138	16414525	176	20286										
SSPO	23145	broad.mit.edu	37	chr7	149475964	149475964	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	actggctccatctccatctcTgtggaccacgagctctgggg	11	14	3	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:149475964T>C	uc010lpk.2	+	7	930	c.930T>C	c.(928-930)TCT>TCC	p.S310S	SSPO_uc010lpl.1_5'UTR	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	310	VWFD 1.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TCTCCATCTCTGTGGACCACG	0.637													72	175	---	---	---	---	PASS	C	149475964	C	C	149475964	2	2	54	1	0	0	0	0	0	0	0	1	15188	1567	55	5		5	SSPO	7	149475964	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	6751826	149475964	9662699	177	20287										
SSPO	23145	broad.mit.edu	37	chr7	149489487	149489487	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggtgcccgctactggcctggGcaacgcatcaaggccgactg	14	14	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:149489487G>C	uc010lpk.2	+	38	5640	c.5640G>C	c.(5638-5640)GGG>GGC	p.G1880G		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	1880	EGF-like 2.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			ACTGGCCTGGGCAACGCATCA	0.706													8	17	---	---	---	---	PASS	C	149489487	C	C	149489487	2	2	54	1	0	0	0	0	0	0	0	1	15188	1190	42	4		4	SSPO	7	149489487	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	13523	149489487	9649176	178	20288										
ABCB8	11194	broad.mit.edu	37	chr7	150741298	150741298	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgtcgtcatggccgatggccGtgtctgggaggttagttgtc	16	8	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:150741298G>A	uc003wil.3	+	16	2150	c.2057G>A	c.(2056-2058)CGT>CAT	p.R686H	ABCB8_uc010lpx.2_Intron|ABCB8_uc011kvd.1_Missense_Mutation_p.R581H|ABCB8_uc003wim.3_Missense_Mutation_p.R464H|ABCB8_uc003wik.3_Missense_Mutation_p.R669H	NM_007188	NP_009119	Q9NUT2	ABCB8_HUMAN	ATP-binding cassette, sub-family B, member 8	686	ABC transporter.					ATP-binding cassette (ABC) transporter complex|integral to membrane|membrane fraction|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCCGATGGCCGTGTCTGGGAG	0.602													76	203	---	---	---	---	PASS	A	150741298	A	A	150741298	3	1	54	1	0	0	0	0	1	0	0	0	47	1145	40	1	2064	1	ABCB8	7	150741298	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1251811	150741298	8397365	179	20289										
ACCN3	9311	broad.mit.edu	37	chr7	150748977	150748977	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaagaaggcctatgagatgtCagagctgcttggtgtgtgtg	16	5	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:150748977C>T	uc003win.2	+	7	1663	c.1295C>T	c.(1294-1296)TCA>TTA	p.S432L	ACCN3_uc003wio.2_Missense_Mutation_p.S432L|ACCN3_uc003wip.2_Missense_Mutation_p.S432L|ACCN3_uc003wiq.2_RNA	NM_004769	NP_004760	Q9UHC3	ACCN3_HUMAN	amiloride-sensitive cation channel 3 isoform a	432	Extracellular (Potential).				sensory perception|signal transduction	cytoplasm|integral to plasma membrane	ligand-gated sodium channel activity			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TATGAGATGTCAGAGCTGCTT	0.587													32	224	---	---	---	---	PASS	T	150748977	T	T	150748977	3	4	54	1	0	0	0	0	1	0	0	0	130	838	29	2	1321	2	ACCN3	7	150748977	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	7679	150748977	8389686	180	20290										
GBX1	2636	broad.mit.edu	37	chr7	150864346	150864346	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cggtggtcagcgccaccatcGagggcacagcctgacccagc	13	16	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:150864346G>C	uc011kvg.1	-	1	522	c.290C>G	c.(289-291)TCG>TGG	p.S97W		NM_001098834	NP_001092304	Q14549	GBX1_HUMAN	gastrulation brain homeo box 1	97	Ala-rich.|Pro-rich.					nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGCCACCATCGAGGGCACAGC	0.637													3	9	---	---	---	---	PASS	C	150864346	C	C	150864346	3	2	54	1	0	0	0	0	1	0	0	0	6280	1059	37	2	808	2	GBX1	7	150864346	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	115369	150864346	8274317	181	20291										
MLL3	58508	broad.mit.edu	37	chr7	151932996	151932996	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cacctcgaggtctccgctttCctggaaatccagacccacgg	9	16	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr7:151932996C>A	uc003wla.2	-	16	2894	c.2675G>T	c.(2674-2676)GGA>GTA	p.G892V	MLL3_uc003wkz.2_5'UTR	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	892					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TCTCCGCTTTCCTGGAAATCC	0.493			N		medulloblastoma								7	136	---	---	---	---	PASS	A	151932996	A	A	151932996	3	1	54	1	0	0	0	0	1	0	0	0	9622	855	30	2	12236	2	MLL3	7	151932996	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1068650	151932996	7205667	182	20292										
MFHAS1	9258	broad.mit.edu	37	chr8	8748528	8748528	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cgccgagtcccaccagcttaGccacagtcgctgggcctgag	12	16	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:8748528G>T	uc003wsj.1	-	1	2604	c.2041C>A	c.(2041-2043)CTA>ATA	p.L681I		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	681											0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		CACCAGCTTAGCCACAGTCGC	0.622													20	13	---	---	---	---	PASS	T	8748528	T	T	8748528	3	4	54	1	0	0	0	0	1	0	0	0	9521	962	34	3	1129	3	MFHAS1	8	8748528	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08		8748528	137615494	183	20293										
EFHA2	286097	broad.mit.edu	37	chr8	16884802	16884802	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctccgctatggctgcgctgcGaaggctcttgtggccgccac	13	15	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:16884802G>C	uc003wxd.2	+	1	56	c.14G>C	c.(13-15)CGA>CCA	p.R5P		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	5						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		GCTGCGCTGCGAAGGCTCTTG	0.622													7	27	---	---	---	---	PASS	C	16884802	C	C	16884802	3	2	54	1	0	0	0	0	1	0	0	0	4944	1058	37	2	16	2	EFHA2	8	16884802	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	8136274	16884802	129479220	184	20294										
MTUS1	57509	broad.mit.edu	37	chr8	17512165	17512165	+	Nonsense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aggtttcatgcgcagcatttAagttgtcaaactgtaagcaa	9	7	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:17512165A>C	uc003wxv.2	-	10	3593	c.3119T>G	c.(3118-3120)TTA>TGA	p.L1040*	MTUS1_uc003wxt.2_Nonsense_Mutation_p.L287*|MTUS1_uc011kyg.1_Nonsense_Mutation_p.L185*|MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Nonsense_Mutation_p.L986*|MTUS1_uc003wxs.2_Nonsense_Mutation_p.L206*	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	1040	Potential.					Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		CGCAGCATTTAAGTTGTCAAA	0.413													62	24	---	---	---	---	PASS	C	17512165	C	C	17512165	4	2	54	1	0	0	0	0	0	1	0	0	9965	372	13	5	717	5	MTUS1	8	17512165	Nonsense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	627363	17512165	128851857	185	20295										
SH2D4A	63898	broad.mit.edu	37	chr8	19177078	19177078	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gatgctgaaacagatactgtCggagatgtacatagatcctg	11	7	0	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:19177078C>T	uc003wzb.2	+	2	356	c.20C>T	c.(19-21)TCG>TTG	p.S7L	SH2D4A_uc011kym.1_Intron|SH2D4A_uc003wzc.2_Missense_Mutation_p.S7L	NM_022071	NP_071354	Q9H788	SH24A_HUMAN	SH2 domain containing 4A	7						cytoplasm|nucleus	protein binding				0				Colorectal(111;0.0732)		CAGATACTGTCGGAGATGTAC	0.468													16	86	---	---	---	---	PASS	T	19177078	T	T	19177078	3	4	54	1	0	0	0	0	1	0	0	0	14235	893	31	2	72	2	SH2D4A	8	19177078	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1664913	19177078	127186944	186	20296										
DOCK5	80005	broad.mit.edu	37	chr8	25203000	25203000	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttccttctcagagtgcagagAagtgctgctgccactgctga	11	11	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:25203000A>T	uc003xeg.2	+	26	2764	c.2627A>T	c.(2626-2628)GAA>GTA	p.E876V	DOCK5_uc010luf.1_RNA|DOCK5_uc003xeh.1_Missense_Mutation_p.E590V|DOCK5_uc003xei.2_Missense_Mutation_p.E446V|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	876						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		GAGTGCAGAGAAGTGCTGCTG	0.552													25	106	---	---	---	---	PASS	T	25203000	T	T	25203000	3	4	54	1	0	0	0	0	1	0	0	0	4690	246	9	5	2729	5	DOCK5	8	25203000	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	6025922	25203000	121161022	187	20297										
FGFR1	2260	broad.mit.edu	37	chr8	38275843	38275843	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggaggagagccgtgatggccGaaccagaagaaccccagagt	15	10	0	5			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:38275843G>A	uc003xlp.2	-	11	2275	c.1333C>T	c.(1333-1335)CGG>TGG	p.R445W	FGFR1_uc010lwf.2_RNA|FGFR1_uc011lbo.1_Missense_Mutation_p.R443W|FGFR1_uc011lbp.1_Missense_Mutation_p.R356W|FGFR1_uc011lbq.1_Missense_Mutation_p.R354W|FGFR1_uc010lwk.2_Missense_Mutation_p.R435W	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	445	Cytoplasmic (Potential).				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	CGTGATGGCCGAACCAGAAGA	0.607		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						4	105	---	---	---	---	PASS	A	38275843	A	A	38275843	3	1	54	1	0	0	0	0	1	0	0	0	5863	1057	37	2	1171	2	FGFR1	8	38275843	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	13072843	38275843	108088179	188	20298										
ADAM18	8749	broad.mit.edu	37	chr8	39564308	39564308	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttctgtatttttctgtttcaGatatgtaataattttggtaa	6	3	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:39564308G>T	uc003xni.2	+	18	1903	c.1903_splice	c.e18-1	p.I635_splice	ADAM18_uc010lww.2_Splice_Site|ADAM18_uc010lwx.2_Splice_Site_p.I611_splice	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18						cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TTCTGTTTCAGATATGTAATA	0.333													15	8	---	---	---	---	PASS	T	39564308	T	T	39564308	5	4	54	1	0	0	0	0	0	0	1	0	239	956	33	2	1972	2	ADAM18	8	39564308	Splice_Site	SNP	G	TCGA-33-4532-01A-01D-1267-08	1288465	39564308	106799714	189	20299										
HOOK3	84376	broad.mit.edu	37	chr8	42868200	42868200	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	attattttttgcaggtcatcCgtactttagatcctaaacag	6	8	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:42868200C>T	uc003xpr.2	+	20	2088	c.1846C>T	c.(1846-1848)CGT>TGT	p.R616C		NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	616	Potential.|Required for interaction with MSR1.|Required for association with Golgi.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			GCAGGTCATCCGTACTTTAGA	0.318			T	RET	papillary thyroid								28	35	---	---	---	---	PASS	T	42868200	T	T	42868200	3	4	54	1	0	0	0	0	1	0	0	0	7284	652	23	1	1924	1	HOOK3	8	42868200	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	3303892	42868200	103495822	190	20300										
POTEA	340441	broad.mit.edu	37	chr8	43173651	43173651	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	taatgtgggattatcagaaaAcctgactgatggtgctgctg	12	6	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:43173651A>T	uc003xpz.1	+	9	1116	c.1073A>T	c.(1072-1074)AAC>ATC	p.N358I	POTEA_uc003xqa.1_Missense_Mutation_p.N312I	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	358										ovary(1)	1						TTATCAGAAAACCTGACTGAT	0.378													15	175	---	---	---	---	PASS	T	43173651	T	T	43173651	3	4	54	1	0	0	0	0	1	0	0	0	12261	43	2	5	1107	5	POTEA	8	43173651	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	305451	43173651	103190371	191	20301										
PCMTD1	115294	broad.mit.edu	37	chr8	52733146	52733146	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgttaattctctgtttaactCtctttcttttccttttgggt	5	8	3	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:52733146C>A	uc003xqx.3	-	6	1180	c.839G>T	c.(838-840)AGA>ATA	p.R280I	PCMTD1_uc011ldm.1_Missense_Mutation_p.R150I|PCMTD1_uc003xqw.3_Missense_Mutation_p.R280I|PCMTD1_uc011ldn.1_Missense_Mutation_p.R92I|PCMTD1_uc010lya.2_Missense_Mutation_p.R204I	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	280						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				CTGTTTAACTCTCTTTCTTTT	0.343													11	551	---	---	---	---	PASS	A	52733146	A	A	52733146	3	1	54	1	0	0	0	0	1	0	0	0	11586	913	32	2	238	2	PCMTD1	8	52733146	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	9559495	52733146	93630876	192	20302										
RP1	6101	broad.mit.edu	37	chr8	55540455	55540455	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gacctacgttcctgtcaatgTctgcaataccattgactttt	6	11	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:55540455T>C	uc003xsd.1	+	4	4161	c.4013T>C	c.(4012-4014)GTC>GCC	p.V1338A	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1338					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CCTGTCAATGTCTGCAATACC	0.383													116	181	---	---	---	---	PASS	C	55540455	C	C	55540455	3	2	54	1	0	0	0	0	1	0	0	0	13532	1667	58	5	4023	5	RP1	8	55540455	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	2807309	55540455	90823567	193	20303										
NSMAF	8439	broad.mit.edu	37	chr8	59506795	59506795	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggggaggaacactgaccttgGgatgttgtgaatactgaaga	15	5	0	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:59506795G>A	uc003xtt.2	-	23	2161	c.1947C>T	c.(1945-1947)TCC>TCT	p.S649S	NSMAF_uc011lee.1_Silent_p.S680S	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	649	WD 1.				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)				ACTGACCTTGGGATGTTGTGA	0.428													46	73	---	---	---	---	PASS	A	59506795	A	A	59506795	2	1	54	1	0	0	0	0	0	0	0	1	10674	1219	43	3		3	NSMAF	8	59506795	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	3966340	59506795	86857227	194	20304										
CHD7	55636	broad.mit.edu	37	chr8	61655205	61655205	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	catgaaagcaatgagtaatcCagcaggcactcctcctccac	7	14	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:61655205C>T	uc003xue.2	+	2	1691	c.1214C>T	c.(1213-1215)CCA>CTA	p.P405L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	405	Pro-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)			ATGAGTAATCCAGCAGGCACT	0.502													40	367	---	---	---	---	PASS	T	61655205	T	T	61655205	3	4	54	1	0	0	0	0	1	0	0	0	3330	594	21	3	1216	3	CHD7	8	61655205	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	2148410	61655205	84708817	195	20305										
CHD7	55636	broad.mit.edu	37	chr8	61769073	61769073	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaaaaatcgaaattgaggccGaaagagctgccaagaggcga	13	7	0	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:61769073G>C	uc003xue.2	+	34	7711	c.7234G>C	c.(7234-7236)GAA>CAA	p.E2412Q		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2412	Potential.				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)			AATTGAGGCCGAAAGAGCTGC	0.478													5	81	---	---	---	---	PASS	C	61769073	C	C	61769073	3	2	54	1	0	0	0	0	1	0	0	0	3330	1059	37	2	7364	2	CHD7	8	61769073	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	113868	61769073	84594949	196	20306										
SULF1	23213	broad.mit.edu	37	chr8	70514019	70514019	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gccatatgactttgatattcGtgtgcctttttttattcgtg	8	7	0	2	rs61747207	byFrequency	TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:70514019G>A	uc010lza.1	+	10	1733	c.1016G>A	c.(1015-1017)CGT>CAT	p.R339H	SULF1_uc003xyd.2_Missense_Mutation_p.R339H|SULF1_uc003xye.2_Missense_Mutation_p.R339H|SULF1_uc003xyf.2_Missense_Mutation_p.R339H|SULF1_uc003xyg.2_Missense_Mutation_p.R339H|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	339					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			TTTGATATTCGTGTGCCTTTT	0.423													76	665	---	---	---	---	PASS	A	70514019	A	A	70514019	3	1	54	1	0	0	0	0	1	0	0	0	15369	1145	40	1	1038	1	SULF1	8	70514019	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	8744946	70514019	75850003	197	20307										
SULF1	23213	broad.mit.edu	37	chr8	70540420	70540420	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctgcagctattacaataaagAgaaaggtgtaaaaaagcaag	9	5	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:70540420A>T	uc010lza.1	+	18	2774	c.2057A>T	c.(2056-2058)GAG>GTG	p.E686V	SULF1_uc003xyd.2_Missense_Mutation_p.E686V|SULF1_uc003xye.2_Missense_Mutation_p.E686V|SULF1_uc003xyf.2_Missense_Mutation_p.E686V|SULF1_uc003xyg.2_Missense_Mutation_p.E686V|SULF1_uc003xyh.1_RNA|SULF1_uc003xyi.1_5'UTR	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	686					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			TACAATAAAGAGAAAGGTGTA	0.348													154	192	---	---	---	---	PASS	T	70540420	T	T	70540420	3	4	54	1	0	0	0	0	1	0	0	0	15369	304	11	5	2111	5	SULF1	8	70540420	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	26401	70540420	75823602	198	20308										
CNGB3	54714	broad.mit.edu	37	chr8	87588256	87588256	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tttatctttatcttcattttCttttcctttatcttcatttt	0	8	6	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:87588256C>G	uc003ydx.2	-	18	2252	c.2206G>C	c.(2206-2208)GAA>CAA	p.E736Q	CNGB3_uc010maj.2_Missense_Mutation_p.E593Q	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	736	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						tcttcattttcttttccttta	0.229													58	166	---	---	---	---	PASS	G	87588256	G	G	87588256	3	3	54	1	0	0	0	0	1	0	0	0	3601	922	32	2	227	2	CNGB3	8	87588256	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	17047836	87588256	58775766	199	20309										
RIMS2	9699	broad.mit.edu	37	chr8	104897620	104897620	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agtatgctacttcggataccGcaatgcctagatctccatca	7	12	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:104897620G>A	uc003yls.2	+	2	368	c.127G>A	c.(127-129)GCA>ACA	p.A43T	RIMS2_uc003ylp.2_Missense_Mutation_p.A265T|RIMS2_uc003ylw.2_Missense_Mutation_p.A73T|RIMS2_uc003ylq.2_Missense_Mutation_p.A73T|RIMS2_uc003ylr.2_Missense_Mutation_p.A73T	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	296					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TTCGGATACCGCAATGCCTAG	0.413										HNSCC(12;0.0054)			14	186	---	---	---	---	PASS	A	104897620	A	A	104897620	3	1	54	1	0	0	0	0	1	0	0	0	13368	1087	38	1	933	1	RIMS2	8	104897620	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	17309364	104897620	41466402	200	20310										
RIMS2	9699	broad.mit.edu	37	chr8	104987664	104987664	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caaaccactgttcaccatcaGggtctcctcatcgagtagat	7	13	4	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:104987664G>T	uc003yls.2	+	14	2432	c.2191G>T	c.(2191-2193)GGG>TGG	p.G731W	RIMS2_uc003ylp.2_Missense_Mutation_p.G953W|RIMS2_uc003ylw.2_Missense_Mutation_p.G745W|RIMS2_uc003ylq.2_Missense_Mutation_p.G745W|RIMS2_uc003ylr.2_Missense_Mutation_p.G792W|RIMS2_uc003ylt.2_Missense_Mutation_p.G338W	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1015					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TTCACCATCAGGGTCTCCTCA	0.408										HNSCC(12;0.0054)			39	76	---	---	---	---	PASS	T	104987664	T	T	104987664	3	4	54	1	0	0	0	0	1	0	0	0	13368	1000	35	3	3045	3	RIMS2	8	104987664	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	90044	104987664	41376358	201	20311										
COL22A1	169044	broad.mit.edu	37	chr8	139833462	139833462	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctcccgttcctcgatgggtaGtgtctgcaccagcgcacagt	11	14	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:139833462G>T	uc003yvd.2	-	7	1609	c.1162C>A	c.(1162-1164)CTA>ATA	p.L388I		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	388	TSP N-terminal.				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)			TCGATGGGTAGTGTCTGCACC	0.582										HNSCC(7;0.00092)			81	114	---	---	---	---	PASS	T	139833462	T	T	139833462	3	4	54	1	0	0	0	0	1	0	0	0	3681	1020	36	3	3954	3	COL22A1	8	139833462	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	34845798	139833462	6530560	202	20312										
COL22A1	169044	broad.mit.edu	37	chr8	139890388	139890388	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agagtcccaactcgaaggccGtggtgggccggtcgctgtag	16	11	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:139890388G>A	uc003yvd.2	-	3	710	c.263C>T	c.(262-264)ACG>ATG	p.T88M		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	88	VWFA.				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)			CTCGAAGGCCGTGGTGGGCCG	0.697										HNSCC(7;0.00092)			3	36	---	---	---	---	PASS	A	139890388	A	A	139890388	3	1	54	1	0	0	0	0	1	0	0	0	3681	1145	40	1	4869	1	COL22A1	8	139890388	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	56926	139890388	6473634	203	20313										
KCNK9	51305	broad.mit.edu	37	chr8	140631068	140631068	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cagtagtagtaggcgtggaaGaagctccactcctcacactg	11	11	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr8:140631068G>A	uc003yvf.1	-	2	622	c.558C>T	c.(556-558)TTC>TTT	p.F186F	KCNK9_uc003yvg.1_Silent_p.F186F|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	186	Extracellular (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			AGGCGTGGAAGAAGCTCCACT	0.587													17	218	---	---	---	---	PASS	A	140631068	A	A	140631068	2	1	54	1	0	0	0	0	0	0	0	1	8072	933	33	2		2	KCNK9	8	140631068	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	740680	140631068	5732954	204	20314										
DMRT2	10655	broad.mit.edu	37	chr9	1053757	1053757	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tccgggaaacagaataatttCgagcgcaaagctgtgtacca	10	9	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:1053757C>T	uc003zha.2	+	3	761	c.561C>T	c.(559-561)TTC>TTT	p.F187F	DMRT2_uc003zgx.3_5'UTR|DMRT2_uc010mgz.2_5'UTR|DMRT2_uc003zgy.3_Silent_p.F31F|DMRT2_uc003zhb.3_Silent_p.F187F|DMRT2_uc011llt.1_Silent_p.F187F|DMRT2_uc011llu.1_Silent_p.F187F|DMRT2_uc011llv.1_Silent_p.F187F	NM_181872	NP_870987	Q9Y5R5	DMRT2_HUMAN	doublesex and mab-3 related transcription factor	187					male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0		all_lung(10;1.49e-09)|Lung NSC(10;1.86e-09)		Lung(218;0.0195)|GBM - Glioblastoma multiforme(50;0.0388)		AGAATAATTTCGAGCGCAAAG	0.448													7	237	---	---	---	---	PASS	T	1053757	T	T	1053757	2	4	54	1	0	0	0	0	0	0	0	1	4586	883	31	2		2	DMRT2	9	1053757	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08		1053757	140159674	205	20315										
JAK2	3717	broad.mit.edu	37	chr9	5078317	5078317	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctctaataggaagaaaacacCcttattcatgggaatgtatg	8	7	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:5078317C>T	uc010mhm.2	+	15	2117	c.2004C>T	c.(2002-2004)ACC>ACT	p.T668T	JAK2_uc003ziw.2_Silent_p.T668T	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	668	Protein kinase 1.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		AAGAAAACACCCTTATTCATG	0.373		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				67	147	---	---	---	---	PASS	T	5078317	T	T	5078317	2	4	54	1	0	0	0	0	0	0	0	1	7938	610	22	3		3	JAK2	9	5078317	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	4024560	5078317	136135114	206	20316										
RLN2	6019	broad.mit.edu	37	chr9	5300255	5300255	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cggcttcactttgtctattgCgaataagtttcttaaattct	6	8	4	0	rs61738986	byFrequency	TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:5300255C>T	uc003zja.1	-	2	401	c.401G>A	c.(400-402)CGC>CAC	p.R134H	RLN2_uc003ziz.1_3'UTR	NM_134441	NP_604390	P04090	REL2_HUMAN	relaxin 2 isoform 1 preproprotein	134					female pregnancy	extracellular region	hormone activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0201)|Lung(218;0.0987)		TTGTCTATTGCGAATAAGTTT	0.393													78	118	---	---	---	---	PASS	T	5300255	T	T	5300255	3	4	54	1	0	0	0	0	1	0	0	0	13392	768	27	1	160	1	RLN2	9	5300255	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	221938	5300255	135913176	207	20317										
KDM4C	23081	broad.mit.edu	37	chr9	6984351	6984351	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	atcttcagaagaagagtcatCtgctagcaggatgcaggtgg	13	7	4	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:6984351C>T	uc003zkh.2	+	10	1881	c.1301C>T	c.(1300-1302)TCT>TTT	p.S434F	KDM4C_uc010mhu.2_Missense_Mutation_p.S456F|KDM4C_uc011lmi.1_Missense_Mutation_p.S434F|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Missense_Mutation_p.S434F|KDM4C_uc011lmk.1_Missense_Mutation_p.S253F|KDM4C_uc011lml.1_Missense_Mutation_p.S121F	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	434					positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						GAAGAGTCATCTGCTAGCAGG	0.448													131	105	---	---	---	---	PASS	T	6984351	T	T	6984351	3	4	54	1	0	0	0	0	1	0	0	0	8130	913	32	2	1405	2	KDM4C	9	6984351	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1684096	6984351	134229080	208	20318										
IFNA6	3443	broad.mit.edu	37	chr9	21350654	21350654	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaatcacctcatggaggacaGagatggcttcagccttctgg	12	10	4	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:21350654G>A	uc011lni.1	-	1	233	c.233C>T	c.(232-234)TCT>TTT	p.S78F		NM_021002	NP_066282	P05013	IFNA6_HUMAN	interferon, alpha 6 precursor	78					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)		ATGGAGGACAGAGATGGCTTC	0.473													103	182	---	---	---	---	PASS	A	21350654	A	A	21350654	3	1	54	1	0	0	0	0	1	0	0	0	7541	942	33	2	338	2	IFNA6	9	21350654	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	14366303	21350654	119862777	209	20319										
TEK	7010	broad.mit.edu	37	chr9	27229209	27229209	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acttatgcaggaattgactgTtctgctgaagaagcggccta	11	8	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:27229209T>C	uc003zqi.3	+	23	3796	c.3354T>C	c.(3352-3354)TGT>TGC	p.C1118C	TEK_uc011lno.1_Silent_p.C1075C|TEK_uc011lnp.1_Silent_p.C970C	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	1118	Cytoplasmic (Potential).				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		GAATTGACTGTTCTGCTGAAG	0.458													12	318	---	---	---	---	PASS	C	27229209	C	C	27229209	2	2	54	1	0	0	0	0	0	0	0	1	15748	1731	60	5		5	TEK	9	27229209	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	5878555	27229209	113984222	210	20320										
FBXO10	26267	broad.mit.edu	37	chr9	37516034	37516034	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cagggccttggcacggccccGcacggcgatgccgtaggccc	15	17	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:37516034G>A	uc004aab.2	-	10	2612	c.2563C>T	c.(2563-2565)CGG>TGG	p.R855W	FBXO10_uc004aac.2_Missense_Mutation_p.R871W|FBXO10_uc004aad.2_Missense_Mutation_p.R405W	NM_012166	NP_036298	Q9UK96	FBX10_HUMAN	F-box protein 10	855						ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(5)	5				GBM - Glioblastoma multiforme(29;0.0107)		GCACGGCCCCGCACGGCGATG	0.478													21	166	---	---	---	---	PASS	A	37516034	A	A	37516034	3	1	54	1	0	0	0	0	1	0	0	0	5726	1086	38	1	315	1	FBXO10	9	37516034	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	10286825	37516034	103697397	211	20321										
FRMPD1	22844	broad.mit.edu	37	chr9	37731012	37731012	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggaggagtcacatgactaccGctgcctcttcagggtctgtt	12	11	4	1	rs148192224	byFrequency	TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:37731012G>T	uc004aag.1	+	9	814	c.770G>T	c.(769-771)CGC>CTC	p.R257L	FRMPD1_uc004aah.1_Missense_Mutation_p.R257L|FRMPD1_uc011lqm.1_Missense_Mutation_p.R79L|FRMPD1_uc011lqn.1_Missense_Mutation_p.R126L	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	257	FERM.					cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		CATGACTACCGCTGCCTCTTC	0.512													51	89	---	---	---	---	PASS	T	37731012	T	T	37731012	3	4	54	1	0	0	0	0	1	0	0	0	6057	1087	38	1	800	1	FRMPD1	9	37731012	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	214978	37731012	103482419	212	20322										
SMC5	23137	broad.mit.edu	37	chr9	72962528	72962528	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agtttttttttcccctgccaGattgttcaggaatatacaaa	6	8	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:72962528G>C	uc004ahr.2	+	21	2782	c.2665_splice	c.e21-1	p.I889_splice	SMC5_uc011lry.1_Splice_Site_p.I34_splice	NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein						DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						TCCCCTGCCAGATTGTTCAGG	0.289													23	7	---	---	---	---	PASS	C	72962528	C	C	72962528	5	2	54	1	0	0	0	0	0	0	1	0	14786	956	33	2	2746	2	SMC5	9	72962528	Splice_Site	SNP	G	TCGA-33-4532-01A-01D-1267-08	35231516	72962528	68250903	213	20323										
RORB	6096	broad.mit.edu	37	chr9	77257578	77257578	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	attacaacgtcgattccggtCagccgtcccctgatcagtca	8	14	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:77257578C>T	uc004aji.2	+	4	566	c.517C>T	c.(517-519)CAG>TAG	p.Q173*	RORB_uc004ajh.2_Nonsense_Mutation_p.Q162*	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	173	Hinge (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						CGATTCCGGTCAGCCGTCCCC	0.507													15	74	---	---	---	---	PASS	T	77257578	T	T	77257578	4	4	54	1	0	0	0	0	0	1	0	0	13529	827	29	2	498	2	RORB	9	77257578	Nonsense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	4295050	77257578	63955853	214	20324										
RORB	6096	broad.mit.edu	37	chr9	77286791	77286791	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aacatgtgattcagaagaatCacctggatgatgagaccttg	10	7	2	5			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:77286791C>T	uc004aji.2	+	9	1280	c.1231C>T	c.(1231-1233)CAC>TAC	p.H411Y	RORB_uc004ajh.2_Missense_Mutation_p.H400Y	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	411	Ligand-binding (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						TCAGAAGAATCACCTGGATGA	0.428													20	32	---	---	---	---	PASS	T	77286791	T	T	77286791	3	4	54	1	0	0	0	0	1	0	0	0	13529	826	29	2	1232	2	RORB	9	77286791	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	29213	77286791	63926640	215	20325										
PCSK5	5125	broad.mit.edu	37	chr9	78722196	78722196	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gatctgaggcagcgttgcacGgacaaccacactgggacgtc	13	12	1	1	rs41310061	byFrequency	TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:78722196G>A	uc004ajz.2	+	9	1675	c.1137G>A	c.(1135-1137)ACG>ACA	p.T379T	PCSK5_uc004ajy.2_Silent_p.T379T|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	379	Catalytic.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						AGCGTTGCACGGACAACCACA	0.483													6	53	---	---	---	---	PASS	A	78722196	A	A	78722196	2	1	54	1	0	0	0	0	0	0	0	1	11603	1103	39	1		1	PCSK5	9	78722196	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	1435405	78722196	62491235	216	20326										
TRIM32	22954	broad.mit.edu	37	chr9	119461837	119461837	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttctccattttcctaagggtGggggctatagtgtccttatt	10	8	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:119461837G>T	uc004bjx.2	+	2	1974	c.1816G>T	c.(1816-1818)GGG>TGG	p.G606W	ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjs.1_Intron|ASTN2_uc004bjt.1_Intron|TRIM32_uc004bjw.2_Missense_Mutation_p.G606W	NM_001099679	NP_001093149	Q13049	TRI32_HUMAN	tripartite motif-containing 32	606	NHL 5.				fat cell differentiation|innate immune response|negative regulation of apoptosis|negative regulation of fibroblast proliferation|positive regulation of cell cycle|positive regulation of cell growth|positive regulation of cell migration|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein catabolic process|positive regulation of proteolysis|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to tumor necrosis factor|response to UV	nucleus	myosin binding|protein self-association|RNA binding|Tat protein binding|transcription coactivator activity|translation initiation factor binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(2)|kidney(1)	3						TCCTAAGGGTGGGGGCTATAG	0.527									Bardet-Biedl_syndrome				6	148	---	---	---	---	PASS	T	119461837	T	T	119461837	3	4	54	1	0	0	0	0	1	0	0	0	16503	1348	47	3	1818	3	TRIM32	9	119461837	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	40739641	119461837	21751594	217	20327										
OR1L4	254973	broad.mit.edu	37	chr9	125486622	125486622	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gacagctacctgctggcctcTatggccatcgaccggctggt	12	14	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:125486622T>C	uc004bmu.1	+	1	354	c.354T>C	c.(352-354)TCT>TCC	p.S118S		NM_001005235	NP_001005235	Q8NGR5	OR1L4_HUMAN	olfactory receptor, family 1, subfamily L,	118	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGCTGGCCTCTATGGCCATCG	0.478													40	139	---	---	---	---	PASS	C	125486622	C	C	125486622	2	2	54	1	0	0	0	0	0	0	0	1	10965	1509	53	5		5	OR1L4	9	125486622	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	6024785	125486622	15726809	218	20328										
STRBP	55342	broad.mit.edu	37	chr9	125941312	125941312	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tagttttctccggcctcatcTttcttcacttctgtctcacc	4	15	7	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:125941312T>C	uc004bns.2	-	4	628	c.198A>G	c.(196-198)AAA>AAG	p.K66K	STRBP_uc004bnt.2_5'UTR|STRBP_uc004bnu.2_Silent_p.K52K|STRBP_uc004bnv.2_Silent_p.K66K	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	66					multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2						CGGCCTCATCTTTCTTCACTT	0.443													39	222	---	---	---	---	PASS	C	125941312	C	C	125941312	2	2	54	1	0	0	0	0	0	0	0	1	15326	1606	56	5		5	STRBP	9	125941312	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	454690	125941312	15272119	219	20329										
DENND1A	57706	broad.mit.edu	37	chr9	126414402	126414402	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aaaatattctgtcagatttcTctaggagaaagaagaaggca	9	5	3	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:126414402T>A	uc004bnz.1	-	9	741	c.508A>T	c.(508-510)AGA>TGA	p.R170*	DENND1A_uc011lzl.1_5'UTR|DENND1A_uc004bny.1_5'UTR|DENND1A_uc011lzm.1_Nonsense_Mutation_p.R138*|DENND1A_uc004boa.1_Nonsense_Mutation_p.R170*|DENND1A_uc004bob.1_Nonsense_Mutation_p.R140*|DENND1A_uc004boc.2_Nonsense_Mutation_p.R138*	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	170	DENN.					cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						GTCAGATTTCTCTAGGAGAAA	0.368													16	25	---	---	---	---	PASS	A	126414402	A	A	126414402	4	1	54	1	0	0	0	0	0	1	0	0	4426	1565	54	5	2684	5	DENND1A	9	126414402	Nonsense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	473090	126414402	14799029	220	20330										
GAPVD1	26130	broad.mit.edu	37	chr9	128122903	128122903	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acaaagtgcagtgcatcctgAgaatgtgctctacgattatg	10	8	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:128122903A>G	uc010mwx.2	+	27	4521	c.4195A>G	c.(4195-4197)AGA>GGA	p.R1399G	GAPVD1_uc004bpp.2_Missense_Mutation_p.R1408G|GAPVD1_uc004bpq.2_Missense_Mutation_p.R1381G|GAPVD1_uc004bpr.2_Missense_Mutation_p.R1360G|GAPVD1_uc004bps.2_Missense_Mutation_p.R1354G|GAPVD1_uc004bpt.2_Missense_Mutation_p.R414G	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	1399	VPS9.				endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GTGCATCCTGAGAATGTGCTC	0.468													153	48	---	---	---	---	PASS	G	128122903	G	G	128122903	3	3	54	1	0	0	0	0	1	0	0	0	6239	296	11	5	4320	5	GAPVD1	9	128122903	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	1708501	128122903	13090528	221	20331										
ABL1	25	broad.mit.edu	37	chr9	133760617	133760617	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acccccatcagcccagccccCgttccctccacgttgccatc	5	23	1	0	rs11558834	byFrequency	TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:133760617C>A	uc004bzw.2	+	11	2943	c.2940C>A	c.(2938-2940)CCC>CCA	p.P980P	ABL1_uc004bzv.2_Silent_p.P999P	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	980	F-actin-binding.|Pro-rich.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	GCCCAGCCCCCGTTCCCTCCA	0.662			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								4	194	---	---	---	---	PASS	A	133760617	A	A	133760617	2	1	54	1	0	0	0	0	0	0	0	1	92	639	23	1		1	ABL1	9	133760617	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	5637714	133760617	7452814	222	20332										
SETX	23064	broad.mit.edu	37	chr9	135202917	135202917	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cgtctatttttttgtgatttGggtctgatctgcctttgcat	9	7	3	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:135202917G>C	uc004cbk.2	-	10	4251	c.4068C>G	c.(4066-4068)CCC>CCG	p.P1356P	SETX_uc004cbj.2_Silent_p.P975P|SETX_uc010mzt.2_Silent_p.P975P	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1356					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		TTTGTGATTTGGGTCTGATCT	0.358													23	115	---	---	---	---	PASS	C	135202917	C	C	135202917	2	2	54	1	0	0	0	0	0	0	0	1	14141	1335	47	4		4	SETX	9	135202917	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	1442300	135202917	6010514	223	20333										
ABCA2	20	broad.mit.edu	37	chr9	139902942	139902942	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctcgtctgccacaagtgcccGgagctccgtgggggcagacc	14	15	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:139902942G>A	uc011mem.1	-	47	7346	c.7198C>T	c.(7198-7200)CGG>TGG	p.R2400W	ABCA2_uc011mel.1_Missense_Mutation_p.R2401W|ABCA2_uc004ckl.1_Missense_Mutation_p.R2331W|ABCA2_uc004ckm.1_Missense_Mutation_p.R2431W	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	2400					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		ACAAGTGCCCGGAGCTCCGTG	0.687													21	7	---	---	---	---	PASS	A	139902942	A	A	139902942	3	1	54	1	0	0	0	0	1	0	0	0	32	1115	39	1	117	1	ABCA2	9	139902942	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	4700025	139902942	1310489	224	20334										
ABCA2	20	broad.mit.edu	37	chr9	139911420	139911420	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaggatgccatagaccacggCgtccaccatcagcatggtga	12	12	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr9:139911420C>A	uc011mem.1	-	18	2855	c.2707G>T	c.(2707-2709)GCC>TCC	p.A903S	ABCA2_uc011mel.1_Missense_Mutation_p.A904S|ABCA2_uc004ckl.1_Missense_Mutation_p.A834S|ABCA2_uc004ckm.1_Missense_Mutation_p.A934S|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	903	Helical; (Potential).				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		TAGACCACGGCGTCCACCATC	0.657													128	50	---	---	---	---	PASS	A	139911420	A	A	139911420	3	1	54	1	0	0	0	0	1	0	0	0	32	768	27	1	4724	1	ABCA2	9	139911420	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	8478	139911420	1302011	225	20335										
ADARB2	105	broad.mit.edu	37	chr10	1284216	1284216	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caggtgcagctccagctgcgTgtagaggaagtgcaggaacg	16	9	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:1284216T>C	uc009xhq.2	-	5	1713	c.1339A>G	c.(1339-1341)ACG>GCG	p.T447A		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	447	A to I editase.				mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		TCCAGCTGCGTGTAGAGGAAG	0.701													17	29	---	---	---	---	PASS	C	1284216	C	C	1284216	3	2	54	1	0	0	0	0	1	0	0	0	283	1696	59	5	904	5	ADARB2	10	1284216	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08		1284216	134250531	226	20336										
SEPHS1	22929	broad.mit.edu	37	chr10	13375904	13375904	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctgtttggccgcctgttacaGatgttcctgcttcctcagct	9	13	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:13375904G>T	uc001imk.2	-	5	832	c.473C>A	c.(472-474)TCT>TAT	p.S158Y	SEPHS1_uc001imh.2_Missense_Mutation_p.S82Y|SEPHS1_uc010qbs.1_Missense_Mutation_p.S110Y|SEPHS1_uc001imi.2_Missense_Mutation_p.S158Y|SEPHS1_uc001imj.2_Missense_Mutation_p.S158Y|SEPHS1_uc010qbt.1_Missense_Mutation_p.S91Y|SEPHS1_uc009xje.2_Missense_Mutation_p.S158Y	NM_012247	NP_036379	P49903	SPS1_HUMAN	selenophosphate synthetase 1	158					protein modification process		ATP binding|GTP binding|selenide, water dikinase activity			skin(1)	1						GCCTGTTACAGATGTTCCTGC	0.423													19	120	---	---	---	---	PASS	T	13375904	T	T	13375904	3	4	54	1	0	0	0	0	1	0	0	0	14054	942	33	2	725	2	SEPHS1	10	13375904	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	12091688	13375904	122158843	227	20337										
CUBN	8029	broad.mit.edu	37	chr10	17147511	17147511	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aaatattactgagctgcacaCatccatttggcccataacca	5	12	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:17147511C>A	uc001ioo.2	-	11	1227	c.1175G>T	c.(1174-1176)TGT>TTT	p.C392F		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	392					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)	GAGCTGCACACATCCATTTGG	0.433													31	92	---	---	---	---	PASS	A	17147511	A	A	17147511	3	1	54	1	0	0	0	0	1	0	0	0	4051	478	17	3	9924	3	CUBN	10	17147511	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	3771607	17147511	118387236	228	20338										
ST8SIA6	338596	broad.mit.edu	37	chr10	17363299	17363299	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aaatgcatctccataggttgCaatgtcctccagaaataggg	9	9	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:17363299C>A	uc001ipd.2	-	8	775	c.775G>T	c.(775-777)GCA>TCA	p.A259S	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	259	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						CCATAGGTTGCAATGTCCTCC	0.373													29	97	---	---	---	---	PASS	A	17363299	A	A	17363299	3	1	54	1	0	0	0	0	1	0	0	0	15235	710	25	3	425	3	ST8SIA6	10	17363299	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	215788	17363299	118171448	229	20339										
DNAJC1	64215	broad.mit.edu	37	chr10	22171304	22171304	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccatgatcataagactgaatAtatgtagtttctaaaggtgt	8	5	2	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:22171304A>G	uc001irc.2	-	8	1172	c.885T>C	c.(883-885)TAT>TAC	p.Y295Y	DNAJC1_uc001ird.2_Silent_p.Y181Y	NM_022365	NP_071760	Q96KC8	DNJC1_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 1	295	Cytoplasmic (By similarity).				negative regulation of proteolysis|regulation of protein secretion|regulation of transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	ATPase activator activity|DNA binding|heat shock protein binding|unfolded protein binding			lung(1)	1		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)				AAGACTGAATATATGTAGTTT	0.303													20	90	---	---	---	---	PASS	G	22171304	G	G	22171304	2	3	54	1	0	0	0	0	0	0	0	1	4628	456	16	5		5	DNAJC1	10	22171304	Silent	SNP	A	TCGA-33-4532-01A-01D-1267-08	4808005	22171304	113363443	230	20340										
GAD2	2572	broad.mit.edu	37	chr10	26534906	26534906	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gggattggaacagacagcgtGattctgattaaatgtgatga	13	4	1	5			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:26534906G>A	uc001isp.2	+	8	1400	c.897G>A	c.(895-897)GTG>GTA	p.V299V	GAD2_uc001isq.2_Silent_p.V299V	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	299					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	CAGACAGCGTGATTCTGATTA	0.383													7	69	---	---	---	---	PASS	A	26534906	A	A	26534906	2	1	54	1	0	0	0	0	0	0	0	1	6180	1277	45	2		2	GAD2	10	26534906	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	4363602	26534906	108999841	231	20341										
PARD3	56288	broad.mit.edu	37	chr10	34573111	34573111	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tctcctcttctgatgtaaagGattcctgtatttttatttta	5	7	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:34573111G>A	uc010qej.1	-	21	3137	c.3137C>T	c.(3136-3138)TCC>TTC	p.S1046F	PARD3_uc010qek.1_Missense_Mutation_p.S1043F|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Missense_Mutation_p.S1030F|PARD3_uc010qen.1_Missense_Mutation_p.S1000F|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Missense_Mutation_p.S956F|PARD3_uc010qeq.1_Intron	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	1046					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)				TGATGTAAAGGATTCCTGTAT	0.338													22	182	---	---	---	---	PASS	A	34573111	A	A	34573111	3	1	54	1	0	0	0	0	1	0	0	0	11443	1174	41	2	953	2	PARD3	10	34573111	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	8038205	34573111	100961636	232	20342										
BMS1	9790	broad.mit.edu	37	chr10	43292046	43292046	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aagaagatgatgaaatgtctGaagatgacgggttggaaaac	13	3	1	7			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:43292046G>T	uc001jaj.2	+	10	1712	c.1354G>T	c.(1354-1356)GAA>TAA	p.E452*		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	452					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						TGAAATGTCTGAAGATGACGG	0.438													78	118	---	---	---	---	PASS	T	43292046	T	T	43292046	4	4	54	1	0	0	0	0	0	1	0	0	1472	1291	45	2	1388	2	BMS1	10	43292046	Nonsense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	8718935	43292046	92242701	233	20343										
CHAT	1103	broad.mit.edu	37	chr10	50835813	50835813	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggagcgagtgggccgaggccAggacggtcctcgtgaaaggt	19	9	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:50835813A>T	uc001jhz.2	+	7	1246	c.1093A>T	c.(1093-1095)AGG>TGG	p.R365W	CHAT_uc001jhv.1_Missense_Mutation_p.R247W|CHAT_uc001jhx.1_Missense_Mutation_p.R247W|CHAT_uc001jhy.1_Missense_Mutation_p.R247W|CHAT_uc001jia.2_Missense_Mutation_p.R247W|CHAT_uc010qgs.1_Missense_Mutation_p.R247W	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	365					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	GGCCGAGGCCAGGACGGTCCT	0.592													33	92	---	---	---	---	PASS	T	50835813	T	T	50835813	3	4	54	1	0	0	0	0	1	0	0	0	3313	179	7	5	1163	5	CHAT	10	50835813	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	7543767	50835813	84698934	234	20344										
NRBF2	29982	broad.mit.edu	37	chr10	64913362	64913362	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aagggcccagcgtgaagaaaGattgaaagcccagcagaaca	12	9	0	5			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:64913362G>T	uc001jmj.3	+	4	472	c.248G>T	c.(247-249)AGA>ATA	p.R83I	NRBF2_uc010qip.1_Missense_Mutation_p.R73I	NM_030759	NP_110386	Q96F24	NRBF2_HUMAN	nuclear receptor binding factor 2	83					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	cytoplasm|nucleoplasm	protein binding				0	Prostate(12;0.0119)|all_hematologic(501;0.191)					CGTGAAGAAAGATTGAAAGCC	0.493													22	68	---	---	---	---	PASS	T	64913362	T	T	64913362	3	4	54	1	0	0	0	0	1	0	0	0	10641	942	33	2	262	2	NRBF2	10	64913362	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	14077549	64913362	70621385	235	20345										
SFTPA1	653509	broad.mit.edu	37	chr10	81373751	81373751	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gacccctgtaaactacaccaActggtaccgaggggagcccg	11	14	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:81373751A>G	uc001kap.2	+	6	750	c.629A>G	c.(628-630)AAC>AGC	p.N210S	SFTPA1_uc001kaq.2_Missense_Mutation_p.N210S|SFTPA1_uc009xry.2_Missense_Mutation_p.N225S|SFTPA1_uc001kar.2_Missense_Mutation_p.N210S|SFTPA1_uc010qlt.1_Missense_Mutation_p.N151S|SFTPA1_uc009xrz.2_Missense_Mutation_p.N140S|SFTPA1_uc009xsa.2_Missense_Mutation_p.N210S|SFTPA1_uc009xsf.2_RNA	NM_005411	NP_005402	Q8IWL2	SFTA1_HUMAN	surfactant protein A1 isoform 1	210	C-type lectin.				cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	lipid transporter activity|sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			AACTACACCAACTGGTACCGA	0.557													178	247	---	---	---	---	PASS	G	81373751	G	G	81373751	3	3	54	1	0	0	0	0	1	0	0	0	14189	43	2	5	692	5	SFTPA1	10	81373751	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	16460389	81373751	54160996	236	20346										
CDHR1	92211	broad.mit.edu	37	chr10	85970803	85970803	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agagaagttcagttccacagCggatgttgtgatccagctcc	11	10	1	2	rs142742994		TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:85970803C>G	uc001kcv.2	+	13	1367	c.1367C>G	c.(1366-1368)GCG>GGG	p.A456G	CDHR1_uc001kcw.2_Missense_Mutation_p.A456G|CDHR1_uc009xst.2_Intron|CDHR1_uc001kcx.2_5'Flank	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	456	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						AGTTCCACAGCGGATGTTGTG	0.562													194	216	---	---	---	---	PASS	G	85970803	G	G	85970803	3	3	54	1	0	0	0	0	1	0	0	0	3118	768	27	4	1417	4	CDHR1	10	85970803	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	4597052	85970803	49563944	237	20347										
CEP55	55165	broad.mit.edu	37	chr10	95276824	95276824	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	atttcgaagaaaatatgaagAaacccaaaaagaagttcaca	6	6	1	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:95276824A>G	uc009xug.2	+	6	994	c.812A>G	c.(811-813)GAA>GGA	p.E271G	CEP55_uc001kiq.3_Missense_Mutation_p.E271G	NM_001127182	NP_001120654	Q53EZ4	CEP55_HUMAN	centrosomal protein 55kDa	271	Potential.				cell division|mitosis	centriole|cleavage furrow|midbody					0		Colorectal(252;0.207)				AAATATGAAGAAACCCAAAAA	0.363													59	70	---	---	---	---	PASS	G	95276824	G	G	95276824	3	3	54	1	0	0	0	0	1	0	0	0	3255	246	9	5	830	5	CEP55	10	95276824	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	9306021	95276824	40257923	238	20348										
ZNF518A	9849	broad.mit.edu	37	chr10	97919144	97919144	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggtagaaccaaacaataattGtcttacacctggactttgtt	7	8	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:97919144G>T	uc001klp.2	+	6	3922	c.3065G>T	c.(3064-3066)TGT>TTT	p.C1022F	ZNF518A_uc001klo.1_Missense_Mutation_p.C492F|ZNF518A_uc001klq.2_Missense_Mutation_p.C1022F|ZNF518A_uc001klr.2_Missense_Mutation_p.C1022F	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	1022					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		AACAATAATTGTCTTACACCT	0.433													20	45	---	---	---	---	PASS	T	97919144	T	T	97919144	3	4	54	1	0	0	0	0	1	0	0	0	17959	1377	48	3	3067	3	ZNF518A	10	97919144	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	2642320	97919144	37615603	239	20349										
ATRNL1	26033	broad.mit.edu	37	chr10	117093820	117093820	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgtaatggacatagcacttgCatcaataataatgtgtgcga	9	6	1	0	rs112084285		TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:117093820C>T	uc001lcg.2	+	19	3452	c.3066C>T	c.(3064-3066)TGC>TGT	p.C1022C	ATRNL1_uc010qsm.1_Intron|ATRNL1_uc010qsn.1_Intron	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	1022	Laminin EGF-like 1.|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)		ATAGCACTTGCATCAATAATA	0.353													20	66	---	---	---	---	PASS	T	117093820	T	T	117093820	2	4	54	1	0	0	0	0	0	0	0	1	1207	718	25	3		3	ATRNL1	10	117093820	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	19174676	117093820	18440927	240	20350										
C10orf96	374355	broad.mit.edu	37	chr10	118084897	118084897	+	Silent	SNP	T	C	C													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gagaaaatcaagctggaatcTaaggtattgaaatgtaaagc							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:118084897T>C	uc001lck.2	+	3	413	c.162T>C	c.(160-162)TCT>TCC	p.S54S		NM_198515	NP_940917	P0C7W6	CJ096_HUMAN	hypothetical protein LOC374355	54	Potential.									ovary(2)	2		Lung NSC(174;0.204)|all_lung(145;0.248)		all cancers(201;0.014)		AGCTGGAATCTAAGGTATTGA	0.343													14	19	---	---	---	---	PASS	C	118084897	C	C	118084897	2	2	54	1	0	0	0	0	0	0	0	1	1627	1509	53	5		5	C10orf96	10	118084897	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	991077	118084897	17449850	241	20351	459	2								
C10orf96	374355	broad.mit.edu	37	chr10	118084900	118084900	+	Silent	SNP	G	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aaaatcaagctggaatctaaGgtattgaaatgtaaagcata							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:118084900G>A	uc001lck.2	+	3	416	c.165G>A	c.(163-165)AAG>AAA	p.K55K		NM_198515	NP_940917	P0C7W6	CJ096_HUMAN	hypothetical protein LOC374355	55	Potential.									ovary(2)	2		Lung NSC(174;0.204)|all_lung(145;0.248)		all cancers(201;0.014)		TGGAATCTAAGGTATTGAAAT	0.348													13	17	---	---	---	---	PASS	A	118084900	A	A	118084900	2	1	54	1	0	0	0	0	0	0	0	1	1627	1014	35	3		3	C10orf96	10	118084900	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	3	118084900	17449847	242	20352	459	2								
SLC18A2	6571	broad.mit.edu	37	chr10	119017365	119017365	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggagccagccctgcccatctGgatgatggagaccatgtgtt	13	11	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:119017365G>T	uc001ldd.1	+	10	984	c.953G>T	c.(952-954)TGG>TTG	p.W318L	SLC18A2_uc009xyy.1_Missense_Mutation_p.W115L	NM_003054	NP_003045	Q05940	VMAT2_HUMAN	solute carrier family 18 (vesicular monoamine),	318	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted monoamine transport vesicle membrane|integral to plasma membrane|membrane fraction	monoamine transmembrane transporter activity				0		Colorectal(252;0.19)		all cancers(201;0.029)	Alseroxylon(DB00386)|Reserpine(DB00206)|Tetrabenazine(DB04844)	CTGCCCATCTGGATGATGGAG	0.567													41	47	---	---	---	---	PASS	T	119017365	T	T	119017365	3	4	54	1	0	0	0	0	1	0	0	0	14426	1357	47	3	987	3	SLC18A2	10	119017365	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	932465	119017365	16517382	243	20353										
FAM45A	404636	broad.mit.edu	37	chr10	120867505	120867505	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gacacaaatggagaagttctGtgggtgtggtgttatccttc	13	6	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:120867505G>T	uc001ldw.2	+	2	125	c.81G>T	c.(79-81)CTG>CTT	p.L27L	FAM45A_uc010qsv.1_Silent_p.L19L|FAM45A_uc010qsw.1_5'UTR|FAM45A_uc010qsx.1_RNA|FAM45A_uc010qsy.1_5'UTR	NM_207009	NP_996892	Q8TCE6	FA45A_HUMAN	hypothetical protein LOC404636	27										ovary(1)	1		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0293)		GAGAAGTTCTGTGGGTGTGGT	0.438													74	198	---	---	---	---	PASS	T	120867505	T	T	120867505	2	4	54	1	0	0	0	0	0	0	0	1	5564	1364	48	3		3	FAM45A	10	120867505	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	1850140	120867505	14667242	244	20354										
FRG2B	441581	broad.mit.edu	37	chr10	135440183	135440183	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggagatctgttggaaaggggGctggtcagtggagcactgga	19	5	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr10:135440183G>T	uc010qvg.1	-	1	117	c.64C>A	c.(64-66)CCC>ACC	p.P22T		NM_001080998	NP_001074467	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	22						nucleus					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		TGGAAAGGGGGCTGGTCAGTG	0.502													29	485	---	---	---	---	PASS	T	135440183	T	T	135440183	3	4	54	1	0	0	0	0	1	0	0	0	6047	1203	42	3	787	3	FRG2B	10	135440183	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	14572678	135440183	94564	245	20355										
OR51B2	79345	broad.mit.edu	37	chr11	5345319	5345319	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcatcgtggtcaatgtcaccAtgaggtctgtgcctgccagc	12	12	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:5345319A>C	uc001mao.1	-	1	264	c.209T>G	c.(208-210)ATG>AGG	p.M70R	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	70	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAATGTCACCATGAGGTCTGT	0.507													30	87	---	---	---	---	PASS	C	5345319	C	C	5345319	3	2	54	1	0	0	0	0	1	0	0	0	11089	217	8	5	733	5	OR51B2	11	5345319	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08		5345319	129661197	246	20356										
OR52E6	390078	broad.mit.edu	37	chr11	5862213	5862213	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tctgtcttgaagaaaatcctCagcactgtctccctaatatg	6	11	4	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:5862213C>T	uc010qzq.1	-	1	915	c.915G>A	c.(913-915)CTG>CTA	p.L305L	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGAAAATCCTCAGCACTGTCT	0.443													11	89	---	---	---	---	PASS	T	5862213	T	T	5862213	2	4	54	1	0	0	0	0	0	0	0	1	11117	813	29	2		2	OR52E6	11	5862213	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	516894	5862213	129144303	247	20357										
C11orf16	56673	broad.mit.edu	37	chr11	8947122	8947122	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aagatgggatctgtgttgacTgcactgttcaccatcagtct	10	9	4	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:8947122T>C	uc001mhb.3	-	5	1216	c.1092A>G	c.(1090-1092)GCA>GCG	p.A364A	C11orf16_uc001mhc.3_Silent_p.A364A	NM_020643	NP_065694	Q9NQ32	CK016_HUMAN	hypothetical protein LOC56673	364										upper_aerodigestive_tract(1)|pancreas(1)	2				Epithelial(150;4.11e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0234)		CTGTGTTGACTGCACTGTTCA	0.552													19	81	---	---	---	---	PASS	C	8947122	C	C	8947122	2	2	54	1	0	0	0	0	0	0	0	1	1631	1567	55	5		5	C11orf16	11	8947122	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	3084909	8947122	126059394	248	20358										
MRVI1	10335	broad.mit.edu	37	chr11	10602078	10602078	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aggactctcactcttctgttCttcctcctcctccttcaggt	5	16	5	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:10602078C>A	uc010rcc.1	-	20	2805	c.2419G>T	c.(2419-2421)GAA>TAA	p.E807*	uc001miu.2_Intron|MRVI1_uc001miw.2_Nonsense_Mutation_p.E798*|MRVI1_uc010rcb.1_Nonsense_Mutation_p.E799*|MRVI1_uc009ygb.1_Nonsense_Mutation_p.E492*|MRVI1_uc001mix.2_Nonsense_Mutation_p.E492*|MRVI1_uc001miz.2_Nonsense_Mutation_p.E716*|MRVI1_uc009ygc.1_Nonsense_Mutation_p.E716*|MRVI1_uc010rcd.1_Nonsense_Mutation_p.E601*|MRVI1_uc009ygd.1_Nonsense_Mutation_p.E492*	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	780	Glu-rich.				platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum				ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		CTCTTCTGTTCTTCCTCCTCC	0.493													5	255	---	---	---	---	PASS	A	10602078	A	A	10602078	4	1	54	1	0	0	0	0	0	1	0	0	9853	922	32	2	327	2	MRVI1	11	10602078	Nonsense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1654956	10602078	124404438	249	20359										
MRGPRX4	117196	broad.mit.edu	37	chr11	18195697	18195697	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cagagggctctgcaggacaaGcctgaggtggataaaggtga	16	7	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:18195697G>A	uc001mnv.1	+	1	1314	c.894G>A	c.(892-894)AAG>AAA	p.K298K		NM_054032	NP_473373	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	298	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						TGCAGGACAAGCCTGAGGTGG	0.557													28	98	---	---	---	---	PASS	A	18195697	A	A	18195697	2	1	54	1	0	0	0	0	0	0	0	1	9769	962	34	3		3	MRGPRX4	11	18195697	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	7593619	18195697	116810819	250	20360										
MRGPRX1	259249	broad.mit.edu	37	chr11	18955915	18955915	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agcaggacacacaccaccgcTgacaggtgtgtggggcggtg	16	11	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:18955915T>C	uc001mpg.2	-	1	635	c.417A>G	c.(415-417)TCA>TCG	p.S139S		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	139	Cytoplasmic (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						ACACCACCGCTGACAGGTGTG	0.617													26	89	---	---	---	---	PASS	C	18955915	C	C	18955915	2	2	54	1	0	0	0	0	0	0	0	1	9766	1567	55	5		5	MRGPRX1	11	18955915	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	760218	18955915	116050601	251	20361										
SLC5A12	159963	broad.mit.edu	37	chr11	26730881	26730881	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gggtacagtagaatgtgcaaAcaattcctgttgcaaacaca	9	8	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:26730881A>G	uc001mra.2	-	4	816	c.503T>C	c.(502-504)GTT>GCT	p.V168A	SLC5A12_uc001mrb.2_RNA|SLC5A12_uc001mrc.3_Missense_Mutation_p.V168A	NM_178498	NP_848593	Q1EHB4	SC5AC_HUMAN	solute carrier family 5 (sodium/glucose	168	Helical; (Potential).				sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(1)|skin(1)	2						GAATGTGCAAACAATTCCTGT	0.378													13	27	---	---	---	---	PASS	G	26730881	G	G	26730881	3	3	54	1	0	0	0	0	1	0	0	0	14664	43	2	5	1401	5	SLC5A12	11	26730881	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	7774966	26730881	108275635	252	20362										
QSER1	79832	broad.mit.edu	37	chr11	32954413	32954413	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tattgtcttcagttacaaatGagaattaccctgctcaaaca	5	9	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:32954413G>C	uc001mty.2	+	4	1489	c.1222G>C	c.(1222-1224)GAG>CAG	p.E408Q	QSER1_uc001mtz.1_Intron|QSER1_uc001mua.2_5'Flank	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	408	Ser-rich.									ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					AGTTACAAATGAGAATTACCC	0.393													18	131	---	---	---	---	PASS	C	32954413	C	C	32954413	3	2	54	1	0	0	0	0	1	0	0	0	12882	1291	45	2	1228	2	QSER1	11	32954413	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	6223532	32954413	102052103	253	20363										
FOLH1	2346	broad.mit.edu	37	chr11	49204779	49204779	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caacagcctctgcaattccaCgcctataagcatattctgaa	5	13	2	1	rs116795343	byFrequency	TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:49204779C>A	uc001ngy.2	-	7	1103	c.842G>T	c.(841-843)CGT>CTT	p.R281L	FOLH1_uc001ngz.2_Missense_Mutation_p.R281L|FOLH1_uc009yly.2_Missense_Mutation_p.R266L|FOLH1_uc009ylz.2_Missense_Mutation_p.R266L|FOLH1_uc009yma.2_5'UTR	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	281	NAALADase.|Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	TGCAATTCCACGCCTATAAGC	0.348													14	63	---	---	---	---	PASS	A	49204779	A	A	49204779	3	1	54	1	0	0	0	0	1	0	0	0	5979	536	19	1	1462	1	FOLH1	11	49204779	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	16250366	49204779	85801737	254	20364										
SPRYD5	84767	broad.mit.edu	37	chr11	55658796	55658796	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgggaggttcatatgggggaCtcttggaattgggcttttgg	17	4	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:55658796C>A	uc010rip.1	+	7	1139	c.1047C>A	c.(1045-1047)GAC>GAA	p.D349E	SPRYD5_uc010riq.1_Missense_Mutation_p.D206E	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	349	B30.2/SPRY.					intracellular	zinc ion binding				0		all_epithelial(135;0.226)				ATATGGGGGACTCTTGGAATT	0.423													73	146	---	---	---	---	PASS	A	55658796	A	A	55658796	3	1	54	1	0	0	0	0	1	0	0	0	15110	564	20	3	1069	3	SPRYD5	11	55658796	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	6454017	55658796	79347720	255	20365										
SSRP1	6749	broad.mit.edu	37	chr11	57102589	57102589	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtcgttgaactccagtgtctCtgccatgtcgacccctgcct	9	15	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:57102589C>A	uc001njt.2	-	2	274	c.7G>T	c.(7-9)GAG>TAG	p.E3*	SSRP1_uc010rjq.1_Nonsense_Mutation_p.E3*	NM_003146	NP_003137	Q08945	SSRP1_HUMAN	structure specific recognition protein 1	3					DNA repair|DNA replication|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|cytoplasm|nucleoplasm	DNA binding|protein binding			ovary(2)	2						TCCAGTGTCTCTGCCATGTCG	0.567													412	487	---	---	---	---	PASS	A	57102589	A	A	57102589	4	1	54	1	0	0	0	0	0	1	0	0	15193	922	32	2	2186	2	SSRP1	11	57102589	Nonsense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1443793	57102589	77903927	256	20366										
ZP1	22917	broad.mit.edu	37	chr11	60635139	60635139	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cagcccgaccctggcctcccAggcctccggcacagctacga	10	20	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:60635139A>T	uc001nqd.2	+	1	125	c.105A>T	c.(103-105)CCA>CCT	p.P35P	ZP1_uc001nqe.2_5'Flank	NM_207341	NP_997224	P60852	ZP1_HUMAN	zona pellucida glycoprotein 1 precursor	35	Extracellular (Potential).				single fertilization	integral to membrane|plasma membrane|proteinaceous extracellular matrix					0						CTGGCCTCCCAGGCCTCCGGC	0.662													19	58	---	---	---	---	PASS	T	60635139	T	T	60635139	2	4	54	1	0	0	0	0	0	0	0	1	18212	175	7	5		5	ZP1	11	60635139	Silent	SNP	A	TCGA-33-4532-01A-01D-1267-08	3532550	60635139	74371377	257	20367										
SCGB2A2	4250	broad.mit.edu	37	chr11	62038457	62038457	+	Missense_Mutation	SNP	G	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aagagttcatagacgacaatGccactacaaatgccatagat							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:62038457G>A	uc001ntc.2	+	2	219	c.160G>A	c.(160-162)GCC>ACC	p.A54T	SCGB2A2_uc009ynx.2_Missense_Mutation_p.A54T	NM_002411	NP_002402	Q13296	SG2A2_HUMAN	secretoglobin, family 2A, member 2 precursor	54						extracellular region	steroid binding			ovary(1)	1						AGACGACAATGCCACTACAAA	0.373													103	127	---	---	---	---	PASS	A	62038457	A	A	62038457	3	1	54	1	0	0	0	0	1	0	0	0	13900	1319	46	3	166	3	SCGB2A2	11	62038457	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1403318	62038457	72968059	258	20368	460	2								
SCGB2A2	4250	broad.mit.edu	37	chr11	62038458	62038458	+	Missense_Mutation	SNP	C	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agagttcatagacgacaatgCcactacaaatgccatagatg							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:62038458C>T	uc001ntc.2	+	2	220	c.161C>T	c.(160-162)GCC>GTC	p.A54V	SCGB2A2_uc009ynx.2_Missense_Mutation_p.A54V	NM_002411	NP_002402	Q13296	SG2A2_HUMAN	secretoglobin, family 2A, member 2 precursor	54						extracellular region	steroid binding			ovary(1)	1						GACGACAATGCCACTACAAAT	0.378													103	127	---	---	---	---	PASS	T	62038458	T	T	62038458	3	4	54	1	0	0	0	0	1	0	0	0	13900	739	26	3	167	3	SCGB2A2	11	62038458	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1	62038458	72968058	259	20369	460	2								
ESRRA	2101	broad.mit.edu	37	chr11	64074792	64074792	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccagctcccactcgctgcctCccaggccacaaggaagagga	10	17	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:64074792C>G	uc001nzq.1	+	2	318	c.141C>G	c.(139-141)CTC>CTG	p.L47L	ESRRA_uc001nzr.1_Silent_p.L47L|ESRRA_uc001nzs.1_Silent_p.L47L	NM_004451	NP_004442	P11474	ERR1_HUMAN	estrogen-related receptor alpha	47	Repressor domain.				positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein domain specific binding|sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding				0						CTCGCTGCCTCCCAGGCCACA	0.697													13	77	---	---	---	---	PASS	G	64074792	G	G	64074792	2	3	54	1	0	0	0	0	0	0	0	1	5260	842	30	2		2	ESRRA	11	64074792	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	2036334	64074792	70931724	260	20370										
LRRC32	2615	broad.mit.edu	37	chr11	76372428	76372428	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gacgaagtgctgtgtagaagCccaggggtgaggccaggata	17	7	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:76372428C>T	uc001oxq.3	-	3	452	c.209G>A	c.(208-210)GGC>GAC	p.G70D	LRRC32_uc001oxr.3_Missense_Mutation_p.G70D|LRRC32_uc010rsf.1_Missense_Mutation_p.G70D	NM_005512	NP_005503	Q14392	LRC32_HUMAN	leucine rich repeat containing 32 precursor	70	LRR 1.|Extracellular (Potential).					integral to plasma membrane					0						TGTGTAGAAGCCCAGGGGTGA	0.622													24	143	---	---	---	---	PASS	T	76372428	T	T	76372428	3	4	54	1	0	0	0	0	1	0	0	0	8987	739	26	3	1783	3	LRRC32	11	76372428	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	12297636	76372428	58634088	261	20371										
KIAA1377	57562	broad.mit.edu	37	chr11	101833343	101833343	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agacagttttcaagatgcctAtatacctcacaatcctgatt	5	10	2	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:101833343A>G	uc001pgm.2	+	6	1847	c.1577A>G	c.(1576-1578)TAT>TGT	p.Y526C	KIAA1377_uc001pgn.2_Missense_Mutation_p.Y482C|KIAA1377_uc010run.1_Missense_Mutation_p.Y327C|KIAA1377_uc009yxa.1_Missense_Mutation_p.Y327C	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	526							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		CAAGATGCCTATATACCTCAC	0.303													13	31	---	---	---	---	PASS	G	101833343	G	G	101833343	3	3	54	1	0	0	0	0	1	0	0	0	8227	449	16	5	1599	5	KIAA1377	11	101833343	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	25460915	101833343	33173173	262	20372										
MMP8	4317	broad.mit.edu	37	chr11	102586136	102586136	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aaataaaattcatttcgactCtttgtagctgaggatgcctt	7	7	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:102586136C>G	uc001phe.2	-	7	1034	c.935G>C	c.(934-936)AGA>ACA	p.R312T	MMP8_uc010rut.1_Missense_Mutation_p.R247T|MMP8_uc010ruu.1_Missense_Mutation_p.R289T	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	312	Hemopexin-like 1.				collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		CATTTCGACTCTTTGTAGCTG	0.398													18	110	---	---	---	---	PASS	G	102586136	G	G	102586136	3	3	54	1	0	0	0	0	1	0	0	0	9668	913	32	2	484	2	MMP8	11	102586136	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	752793	102586136	32420380	263	20373										
NCAM1	4684	broad.mit.edu	37	chr11	113146071	113146071	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aagtcaagacggtccccaatGacgccacacagacaaaggag	10	12	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:113146071G>A	uc001pnt.2	+	2	812	c.244G>A	c.(244-246)GAC>AAC	p.D82N	NCAM1_uc001pns.2_3'UTR|uc010rwu.1_5'Flank			P13591	NCAM1_HUMAN	Homo sapiens cDNA FLJ30008 fis, clone 3NB692000029.	847	Cytoplasmic (Potential).				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		GGTCCCCAATGACGCCACACA	0.517													7	38	---	---	---	---	PASS	A	113146071	A	A	113146071	3	1	54	1	0	0	0	0	1	0	0	0	10202	1290	45	2	2815	2	NCAM1	11	113146071	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	10559935	113146071	21860445	264	20374										
DSCAML1	57453	broad.mit.edu	37	chr11	117314643	117314643	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcaccttctcgctgctgttgCcccggccggcagaggtgacg	13	15	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:117314643C>T	uc001prh.1	-	21	4003	c.4001G>A	c.(4000-4002)GGC>GAC	p.G1334D		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1274	Extracellular (Potential).|Fibronectin type-III 4.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GCTGCTGTTGCCCCGGCCGGC	0.607													17	100	---	---	---	---	PASS	T	117314643	T	T	117314643	3	4	54	1	0	0	0	0	1	0	0	0	4769	739	26	3	2392	3	DSCAML1	11	117314643	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	4168572	117314643	17691873	265	20375										
VPS11	55823	broad.mit.edu	37	chr11	118947642	118947642	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggagccatcctacgtgatccGcaagtttctggatgcccagc	11	13	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:118947642G>T	uc010ryx.1	+	9	1316	c.1274G>T	c.(1273-1275)CGC>CTC	p.R425L	VPS11_uc010ryy.1_Missense_Mutation_p.R271L	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	425	Clathrin.				protein transport	endocytic vesicle|HOPS complex|late endosome membrane|lysosomal membrane	nucleotide binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.88e-05)		TACGTGATCCGCAAGTTTCTG	0.478													36	34	---	---	---	---	PASS	T	118947642	T	T	118947642	3	4	54	1	0	0	0	0	1	0	0	0	17185	1087	38	1	1303	1	VPS11	11	118947642	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1632999	118947642	16058874	266	20376										
RNF26	79102	broad.mit.edu	37	chr11	119206720	119206720	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtctggagccgcagtctgcaGctggcgagttggccaaaccg	15	12	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:119206720G>C	uc001pwh.2	+	1	1484	c.888G>C	c.(886-888)CAG>CAC	p.Q296H		NM_032015	NP_114404	Q9BY78	RNF26_HUMAN	ring finger protein 26	296							zinc ion binding			ovary(1)	1		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.8e-05)		GCAGTCTGCAGCTGGCGAGTT	0.642													52	63	---	---	---	---	PASS	C	119206720	C	C	119206720	3	2	54	1	0	0	0	0	1	0	0	0	13486	962	34	4	890	4	RNF26	11	119206720	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	259078	119206720	15799796	267	20377										
OPCML	4978	broad.mit.edu	37	chr11	132398972	132398972	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tacccttgactgacaggtgtCtccatgtcacagttggctct	9	12	3	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:132398972C>T	uc001qgs.2	-	3	559	c.509G>A	c.(508-510)AGA>AAA	p.R170K	OPCML_uc001qgu.2_Missense_Mutation_p.R163K|OPCML_uc010sck.1_Missense_Mutation_p.R170K|OPCML_uc001qgt.2_Missense_Mutation_p.R170K|OPCML_uc010scl.1_Missense_Mutation_p.R129K	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	170	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		TGACAGGTGTCTCCATGTCAC	0.483													21	74	---	---	---	---	PASS	T	132398972	T	T	132398972	3	4	54	1	0	0	0	0	1	0	0	0	10874	913	32	2	548	2	OPCML	11	132398972	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	13192252	132398972	2607544	268	20378										
SPATA19	219938	broad.mit.edu	37	chr11	133715280	133715280	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttaccgaactggttattggtAggaagggaagccctacacct	11	9	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:133715280A>T	uc001qgv.1	-	1	113	c.62T>A	c.(61-63)CTA>CAA	p.L21Q		NM_174927	NP_777587	Q7Z5L4	SPT19_HUMAN	spermatogenesis associated 19 precursor	21					cell differentiation|multicellular organismal development|spermatogenesis	mitochondrial outer membrane					0	all_hematologic(175;0.127)	all_cancers(12;5.59e-17)|all_epithelial(12;2.65e-12)|all_lung(97;0.00045)|Lung NSC(97;0.000861)|Breast(109;0.000873)|Medulloblastoma(222;0.0425)|Esophageal squamous(93;0.0844)|all_neural(223;0.117)		Epithelial(10;4.36e-10)|all cancers(11;7.1e-09)|BRCA - Breast invasive adenocarcinoma(10;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00286)|Lung(977;0.207)		GGTTATTGGTAGGAAGGGAAG	0.458													47	77	---	---	---	---	PASS	T	133715280	T	T	133715280	3	4	54	1	0	0	0	0	1	0	0	0	15003	420	15	5	465	5	SPATA19	11	133715280	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	1316308	133715280	1291236	269	20379										
IGSF9B	22997	broad.mit.edu	37	chr11	133790529	133790529	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aggggagcgccctcctgtagGtgtctgagtcaagggcagcg	17	10	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr11:133790529G>T	uc001qgx.3	-	18	3322	c.3091C>A	c.(3091-3093)CCT>ACT	p.P1031T		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	1031	Pro-rich.|Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		CCTCCTGTAGGTGTCTGAGTC	0.677													33	188	---	---	---	---	PASS	T	133790529	T	T	133790529	3	4	54	1	0	0	0	0	1	0	0	0	7606	1261	44	3	966	3	IGSF9B	11	133790529	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	75249	133790529	1215987	270	20380										
IQSEC3	440073	broad.mit.edu	37	chr12	248014	248014	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acggtgcagatcgccaaccaGaacatatccgtctcctcctc	7	16	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:248014G>C	uc001qhw.1	+	1	582	c.576G>C	c.(574-576)CAG>CAC	p.Q192H	IQSEC3_uc001qhu.1_Missense_Mutation_p.Q192H|IQSEC3_uc001qht.1_Missense_Mutation_p.Q277H|uc001qhv.1_Intron	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	495					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		TCGCCAACCAGAACATATCCG	0.677													7	75	---	---	---	---	PASS	C	248014	C	C	248014	3	2	54	1	0	0	0	0	1	0	0	0	7819	933	33	2	1499	2	IQSEC3	12	248014	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08		248014	133603881	271	20381										
KDM5A	5927	broad.mit.edu	37	chr12	461444	461444	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agctctgaagtgtatactctCgtacagcttgttcaaatcca	7	10	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:461444C>A	uc001qif.1	-	9	1439	c.1076G>T	c.(1075-1077)CGA>CTA	p.R359L	KDM5A_uc001qie.1_Missense_Mutation_p.R359L|KDM5A_uc010sdn.1_Missense_Mutation_p.R318L|KDM5A_uc010sdo.1_Intron	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	359					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						TGTATACTCTCGTACAGCTTG	0.363			T 	NUP98	AML								52	90	---	---	---	---	PASS	A	461444	A	A	461444	3	1	54	1	0	0	0	0	1	0	0	0	8133	884	31	2	4076	2	KDM5A	12	461444	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	213430	461444	133390451	272	20382										
CACNA1C	775	broad.mit.edu	37	chr12	2721167	2721167	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	atgatcctgaagctcattgcCttcaaacccaaggtaggcct	8	12	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:2721167C>G	uc009zdu.1	+	30	4189	c.3876C>G	c.(3874-3876)GCC>GCG	p.A1292A	CACNA1C_uc009zdv.1_Silent_p.A1269A|CACNA1C_uc001qkb.2_Silent_p.A1272A|CACNA1C_uc001qkc.2_Silent_p.A1272A|CACNA1C_uc001qke.2_Silent_p.A1272A|CACNA1C_uc001qkf.2_Silent_p.A1272A|CACNA1C_uc001qjz.2_Silent_p.A1272A|CACNA1C_uc001qkd.2_Silent_p.A1272A|CACNA1C_uc001qkg.2_Silent_p.A1272A|CACNA1C_uc009zdw.1_Silent_p.A1272A|CACNA1C_uc001qkh.2_Silent_p.A1272A|CACNA1C_uc001qkl.2_Silent_p.A1292A|CACNA1C_uc001qkn.2_Silent_p.A1272A|CACNA1C_uc001qko.2_Silent_p.A1292A|CACNA1C_uc001qkp.2_Silent_p.A1272A|CACNA1C_uc001qkr.2_Silent_p.A1272A|CACNA1C_uc001qku.2_Silent_p.A1272A|CACNA1C_uc001qkq.2_Silent_p.A1272A|CACNA1C_uc001qks.2_Silent_p.A1272A|CACNA1C_uc001qkt.2_Silent_p.A1272A|CACNA1C_uc001qka.1_Silent_p.A807A|CACNA1C_uc001qki.1_Silent_p.A1008A|CACNA1C_uc001qkj.1_Silent_p.A1008A|CACNA1C_uc001qkk.1_Silent_p.A1008A|CACNA1C_uc001qkm.1_Silent_p.A1008A	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1292	Helical; Name=S2 of repeat IV; (Potential).|IV.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	AGCTCATTGCCTTCAAACCCA	0.532													35	76	---	---	---	---	PASS	G	2721167	G	G	2721167	2	3	54	1	0	0	0	0	0	0	0	1	2540	668	24	4		4	CACNA1C	12	2721167	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	2259723	2721167	131130728	273	20383										
FGF6	2251	broad.mit.edu	37	chr12	4553375	4553375	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caaagagactcaccacgcctCgctccacagtggaaatttcc	7	15	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:4553375C>T	uc001qmr.1	-	2	418	c.374G>A	c.(373-375)CGA>CAA	p.R125Q		NM_020996	NP_066276	P10767	FGF6_HUMAN	fibroblast growth factor 6 precursor	125					angiogenesis|cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	growth factor activity			lung(2)|ovary(1)	3			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)			CACCACGCCTCGCTCCACAGT	0.537													9	108	---	---	---	---	PASS	T	4553375	T	T	4553375	3	4	54	1	0	0	0	0	1	0	0	0	5856	884	31	2	260	2	FGF6	12	4553375	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1832208	4553375	129298520	274	20384										
CLEC12A	160364	broad.mit.edu	37	chr12	10132050	10132050	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aacatgaatatctccaacaaGatcaggaacctctccaccac	4	14	3	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:10132050G>T	uc001qwr.3	+	3	494	c.306G>T	c.(304-306)AAG>AAT	p.K102N	CLEC12A_uc001qwq.2_Missense_Mutation_p.K112N|CLEC12A_uc001qws.3_Missense_Mutation_p.K69N|CLEC12A_uc001qwt.2_Missense_Mutation_p.K31N	NM_138337	NP_612210	Q5QGZ9	CL12A_HUMAN	myeloid inhibitory C-type lectin-like receptor	102	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity|sugar binding			skin(1)	1						TCTCCAACAAGATCAGGAACC	0.353													15	35	---	---	---	---	PASS	T	10132050	T	T	10132050	3	4	54	1	0	0	0	0	1	0	0	0	3497	933	33	2	316	2	CLEC12A	12	10132050	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	5578675	10132050	123719845	275	20385										
GRIN2B	2904	broad.mit.edu	37	chr12	13717454	13717454	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccagacaggttagccatgttCttggccgtgcgcagcaggcg	14	12	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:13717454C>G	uc001rbt.2	-	13	2897	c.2718G>C	c.(2716-2718)AAG>AAC	p.K906N		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	906	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TAGCCATGTTCTTGGCCGTGC	0.592													175	311	---	---	---	---	PASS	G	13717454	G	G	13717454	3	3	54	1	0	0	0	0	1	0	0	0	6780	912	32	2	1740	2	GRIN2B	12	13717454	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	3585404	13717454	120134441	276	20386										
GRIN2B	2904	broad.mit.edu	37	chr12	13717533	13717533	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gggagttcattacagactggCgctcctcgatcgccacccca	10	15	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:13717533C>G	uc001rbt.2	-	13	2818	c.2639G>C	c.(2638-2640)CGC>CCC	p.R880P		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	880	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TACAGACTGGCGCTCCTCGAT	0.537													120	237	---	---	---	---	PASS	G	13717533	G	G	13717533	3	3	54	1	0	0	0	0	1	0	0	0	6780	768	27	4	1819	4	GRIN2B	12	13717533	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	79	13717533	120134362	277	20387										
C12orf77	196415	broad.mit.edu	37	chr12	25149149	25149149	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acctgaagcaggatgtaagcGtataatttgtcagacgggca	12	7	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:25149149G>T	uc001rgf.2	-	2	333	c.128C>A	c.(127-129)ACG>AAG	p.T43K		NM_001101339	NP_001094809	C9JDV5	CL097_HUMAN	hypothetical protein LOC196415	43											0						GGATGTAAGCGTATAATTTGT	0.403													57	91	---	---	---	---	PASS	T	25149149	T	T	25149149	3	4	54	1	0	0	0	0	1	0	0	0	1716	1145	40	1	321	1	C12orf77	12	25149149	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	11431616	25149149	108702746	278	20388										
C12orf41	54934	broad.mit.edu	37	chr12	49072821	49072821	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgtggagttacaacttacttTaggggatcttcttgatcact	9	7	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:49072821T>A	uc001rrx.2	-	4	618	c.543A>T	c.(541-543)CTA>CTT	p.L181L	C12orf41_uc001rrw.2_Intron|C12orf41_uc001rrz.2_Silent_p.L364L|C12orf41_uc001rry.2_Intron	NM_017822	NP_060292	Q9H9L4	CL041_HUMAN	hypothetical protein LOC54934	181										ovary(2)	2						CAACTTACTTTAGGGGATCTT	0.433													111	50	---	---	---	---	PASS	A	49072821	A	A	49072821	2	1	54	1	0	0	0	0	0	0	0	1	1687	1741	61	5		5	C12orf41	12	49072821	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	23923672	49072821	84779074	279	20389										
RACGAP1	29127	broad.mit.edu	37	chr12	50388061	50388061	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tttcactctgaggaatttctCtttcagctcttttactgtgc	6	10	5	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:50388061C>G	uc001rvt.2	-	14	1502	c.1192G>C	c.(1192-1194)GAG>CAG	p.E398Q	RACGAP1_uc009zlm.1_Missense_Mutation_p.E398Q|RACGAP1_uc001rvs.2_Missense_Mutation_p.E398Q|RACGAP1_uc001rvu.2_Missense_Mutation_p.E398Q	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1	398	Rho-GAP.				blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						AGGAATTTCTCTTTCAGCTCT	0.393													119	154	---	---	---	---	PASS	G	50388061	G	G	50388061	3	3	54	1	0	0	0	0	1	0	0	0	12977	922	32	2	730	2	RACGAP1	12	50388061	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1315240	50388061	83463834	280	20390										
KRT73	319101	broad.mit.edu	37	chr12	53004486	53004486	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcaaaagctcttggtactcgCgcagcatccgtgccagctcc	9	15	2	0	rs115844388	by1000genomes	TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:53004486C>A	uc001sas.2	-	7	1279	c.1244G>T	c.(1243-1245)CGC>CTC	p.R415L		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	415	Rod.|Coil 2.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		TTGGTACTCGCGCAGCATCCG	0.647													55	81	---	---	---	---	PASS	A	53004486	A	A	53004486	3	1	54	1	0	0	0	0	1	0	0	0	8486	768	27	1	390	1	KRT73	12	53004486	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	2616425	53004486	80847409	281	20391										
KRT2	3849	broad.mit.edu	37	chr12	53045515	53045515	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tccaggcccaaagccaccagGaccccctaaacctccaacac	5	20	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:53045515G>T	uc001sat.2	-	1	445	c.412C>A	c.(412-414)CCT>ACT	p.P138T		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	138	Head.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		AAGCCACCAGGACCCCCTAAa	0.313													62	105	---	---	---	---	PASS	T	53045515	T	T	53045515	3	4	54	1	0	0	0	0	1	0	0	0	8457	1174	41	2	1543	2	KRT2	12	53045515	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	41029	53045515	80806380	282	20392										
HOXC6	3223	broad.mit.edu	37	chr12	54422463	54422463	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaaccggatctactcgactcCcttttattcgccacaggaga	8	13	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:54422463C>A	uc001sev.2	+	1	270	c.158C>A	c.(157-159)CCC>CAC	p.P53H	HOXC6_uc001ses.2_5'UTR|HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron	NM_004503	NP_004494	P09630	HXC6_HUMAN	homeobox C6 isoform 1	53					regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|upper_aerodigestive_tract(1)	3						TACTCGACTCCCTTTTATTCG	0.532													28	188	---	---	---	---	PASS	A	54422463	A	A	54422463	3	1	54	1	0	0	0	0	1	0	0	0	7315	623	22	3	160	3	HOXC6	12	54422463	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1376948	54422463	79429432	283	20393										
ANKRD52	283373	broad.mit.edu	37	chr12	56647572	56647572	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agccatgtgcagaggactttTcccttctttgctctgtggaa	10	10	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:56647572T>C	uc001skm.3	-	9	1009	c.919A>G	c.(919-921)AAA>GAA	p.K307E		NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	307	ANK 10.						protein binding			ovary(2)	2						AGAGGACTTTTCCCTTCTTTG	0.483													28	135	---	---	---	---	PASS	C	56647572	C	C	56647572	3	2	54	1	0	0	0	0	1	0	0	0	678	1792	62	5	2391	5	ANKRD52	12	56647572	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	2225109	56647572	77204323	284	20394										
DPY19L2	283417	broad.mit.edu	37	chr12	63954358	63954358	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtgaagtaaggcctggcgtcTtcgagcaggacgctacataa	13	9	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:63954358T>C	uc001srp.1	-	22	2392	c.2211A>G	c.(2209-2211)GAA>GAG	p.E737E	DPY19L2_uc010sso.1_Silent_p.E184E	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	737					multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		GCCTGGCGTCTTCGAGCAGGA	0.453													58	74	---	---	---	---	PASS	C	63954358	C	C	63954358	2	2	54	1	0	0	0	0	0	0	0	1	4741	1606	56	5		5	DPY19L2	12	63954358	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	7306786	63954358	69897537	285	20395										
TBK1	29110	broad.mit.edu	37	chr12	64879294	64879294	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gggatgctagcatggctaagGttagtatttaatttaattac	10	4	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:64879294G>C	uc001ssc.1	+	10	1310	c.1248_splice	c.e10+1	p.K416_splice		NM_013254	NP_037386	Q9UHD2	TBK1_HUMAN	TANK-binding kinase 1						I-kappaB kinase/NF-kappaB cascade|innate immune response|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription from RNA polymerase II promoter|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|large_intestine(1)|breast(1)	5				GBM - Glioblastoma multiforme(28;0.0386)		CATGGCTAAGGTTAGTATTTA	0.303													2	10	---	---	---	---	PASS	C	64879294	C	C	64879294	5	2	54	1	0	0	0	0	0	0	1	0	15634	1275	44	4	1283	4	TBK1	12	64879294	Splice_Site	SNP	G	TCGA-33-4532-01A-01D-1267-08	924936	64879294	68972601	286	20396										
IRAK3	11213	broad.mit.edu	37	chr12	66605326	66605326	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaaggagagatttttgaggtAtacagagtggagattcaaaa	13	2	1	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:66605326A>T	uc001sth.2	+	5	639	c.537A>T	c.(535-537)GTA>GTT	p.V179V	IRAK3_uc010ssy.1_Silent_p.V118V	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	179	ATP (By similarity).|Protein kinase.				interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		TTTTTGAGGTATACAGAGTGG	0.338													52	101	---	---	---	---	PASS	T	66605326	T	T	66605326	2	4	54	1	0	0	0	0	0	0	0	1	7824	436	16	5		5	IRAK3	12	66605326	Silent	SNP	A	TCGA-33-4532-01A-01D-1267-08	1726032	66605326	67246569	287	20397										
NAV3	89795	broad.mit.edu	37	chr12	78530995	78530995	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctcagtttaaccttcccgggCccagcatgatgcgctcaaac	8	15	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:78530995C>G	uc001syp.2	+	19	4653	c.4480C>G	c.(4480-4482)CCC>GCC	p.P1494A	NAV3_uc001syo.2_Missense_Mutation_p.P1494A|NAV3_uc010sub.1_Missense_Mutation_p.P980A|NAV3_uc009zsf.2_Missense_Mutation_p.P325A	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1494	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CCTTCCCGGGCCCAGCATGAT	0.468										HNSCC(70;0.22)			65	94	---	---	---	---	PASS	G	78530995	G	G	78530995	3	3	54	1	0	0	0	0	1	0	0	0	10185	739	26	4	4554	4	NAV3	12	78530995	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	11925669	78530995	55320900	288	20398										
PPFIA2	8499	broad.mit.edu	37	chr12	81777926	81777926	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gggctgctaaacgttctttcAtctgggccatttcatagttt	9	9	4	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:81777926A>G	uc001szo.1	-	9	1021	c.860T>C	c.(859-861)ATG>ACG	p.M287T	PPFIA2_uc010sue.1_Missense_Mutation_p.M187T|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	213										ovary(3)|lung(2)|pancreas(1)	6						ACGTTCTTTCATCTGGGCCAT	0.418													12	48	---	---	---	---	PASS	G	81777926	G	G	81777926	3	3	54	1	0	0	0	0	1	0	0	0	12310	217	8	5	3009	5	PPFIA2	12	81777926	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	3246931	81777926	52073969	289	20399										
NR2C1	7181	broad.mit.edu	37	chr12	95416028	95416028	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aatgctgtgaccaattatttGagagttataatctgcaggct	9	6	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:95416028G>C	uc001tdm.3	-	14	2045	c.1789C>G	c.(1789-1791)CAA>GAA	p.Q597E		NM_003297	NP_003288	P13056	NR2C1_HUMAN	nuclear receptor subfamily 2, group C, member 1	597	Required for interaction with NRIP1 (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	PML body	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1						CCAATTATTTGAGAGTTATAA	0.368													34	210	---	---	---	---	PASS	C	95416028	C	C	95416028	3	2	54	1	0	0	0	0	1	0	0	0	10622	1299	45	2	26	2	NR2C1	12	95416028	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	13638102	95416028	38435867	290	20400										
ALDH1L2	160428	broad.mit.edu	37	chr12	105451930	105451930	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggataaagccttcaaacttgGtggccatatagacatcttca	8	9	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:105451930G>T	uc001tlc.2	-	10	1335	c.1208C>A	c.(1207-1209)ACC>AAC	p.T403N	ALDH1L2_uc009zuo.2_5'UTR|ALDH1L2_uc009zup.2_RNA	NM_001034173	NP_001029345	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	403	Acyl carrier.				10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1						TTCAAACTTGGTGGCCATATA	0.428													97	174	---	---	---	---	PASS	T	105451930	T	T	105451930	3	4	54	1	0	0	0	0	1	0	0	0	495	1261	44	3	1619	3	ALDH1L2	12	105451930	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	10035902	105451930	28399965	291	20401										
HSPB8	26353	broad.mit.edu	37	chr12	119617130	119617130	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cagccaccatggctgacggtCagatgcccttctcctgccac	9	17	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:119617130C>T	uc001txb.2	+	1	536	c.13C>T	c.(13-15)CAG>TAG	p.Q5*	HSPB8_uc001txc.2_Nonsense_Mutation_p.Q5*	NM_014365	NP_055180	Q9UJY1	HSPB8_HUMAN	heat shock 22kDa protein 8	5					cell death|response to heat	cytoplasm|nucleus	identical protein binding|protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GGCTGACGGTCAGATGCCCTT	0.388													47	326	---	---	---	---	PASS	T	119617130	T	T	119617130	4	4	54	1	0	0	0	0	0	1	0	0	7423	827	29	2	15	2	HSPB8	12	119617130	Nonsense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	14165200	119617130	14234765	292	20402										
HSPB8	26353	broad.mit.edu	37	chr12	119617283	119617283	+	Missense_Mutation	SNP	C	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccgactgggctctgcctcgtCtctcctccgcctggccaggc							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:119617283C>T	uc001txb.2	+	1	689	c.166C>T	c.(166-168)CTC>TTC	p.L56F	HSPB8_uc001txc.2_Missense_Mutation_p.L56F	NM_014365	NP_055180	Q9UJY1	HSPB8_HUMAN	heat shock 22kDa protein 8	56					cell death|response to heat	cytoplasm|nucleus	identical protein binding|protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCTGCCTCGTCTCTCCTCCGC	0.692													79	381	---	---	---	---	PASS	T	119617283	T	T	119617283	3	4	54	1	0	0	0	0	1	0	0	0	7423	913	32	2	168	2	HSPB8	12	119617283	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	153	119617283	14234612	293	20403	461	2								
HSPB8	26353	broad.mit.edu	37	chr12	119617290	119617290	+	Missense_Mutation	SNP	C	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggctctgcctcgtctctcctCcgcctggccaggcaccctaa							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:119617290C>T	uc001txb.2	+	1	696	c.173C>T	c.(172-174)TCC>TTC	p.S58F	HSPB8_uc001txc.2_Missense_Mutation_p.S58F	NM_014365	NP_055180	Q9UJY1	HSPB8_HUMAN	heat shock 22kDa protein 8	58					cell death|response to heat	cytoplasm|nucleus	identical protein binding|protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CGTCTCTCCTCCGCCTGGCCA	0.692													70	347	---	---	---	---	PASS	T	119617290	T	T	119617290	3	4	54	1	0	0	0	0	1	0	0	0	7423	855	30	2	175	2	HSPB8	12	119617290	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	7	119617290	14234605	294	20404	461	2								
HNF1A	6927	broad.mit.edu	37	chr12	121432067	121432067	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acaactggtttgccaaccggCgcaaagaagaagccttccgg	11	12	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:121432067C>A	uc001tzg.2	+	4	837	c.814C>A	c.(814-816)CGC>AGC	p.R272S	HNF1A_uc001tze.1_Missense_Mutation_p.R272S|HNF1A_uc001tzf.2_Missense_Mutation_p.R272S|HNF1A_uc010szn.1_Missense_Mutation_p.R272S	NM_000545	NP_000536	P20823	HNF1A_HUMAN	hepatic nuclear factor-1-alpha	272	Homeobox; HNF1-type.|Interaction with DNA.		R -> C (in NIDDM).|R -> H (in IDDM20 and MODY3).		glucose homeostasis|glucose import|insulin secretion|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|renal glucose absorption	cytoplasm|nucleus|protein complex	DNA binding|protein dimerization activity|protein heterodimerization activity|protein homodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding	p.K273fs*41(1)|p.R272H(1)|p.R272S(1)		liver(92)|large_intestine(15)|endometrium(6)|breast(2)|lung(1)	116	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TGCCAACCGGCGCAAAGAAGA	0.672									Hepatic_Adenoma_Familial_Clustering_of				14	25	---	---	---	---	PASS	A	121432067	A	A	121432067	3	1	54	1	0	0	0	0	1	0	0	0	7251	768	27	1	828	1	HNF1A	12	121432067	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1814777	121432067	12419828	295	20405										
ZCCHC8	55596	broad.mit.edu	37	chr12	122958565	122958565	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggagtcgctgtttacgctctCggcctgctcaagagctgccc	12	14	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:122958565C>T	uc001ucn.2	-	14	1734	c.1603G>A	c.(1603-1605)GAG>AAG	p.E535K	ZCCHC8_uc001ucl.2_Missense_Mutation_p.E146K|ZCCHC8_uc001ucm.2_Missense_Mutation_p.E297K|ZCCHC8_uc009zxp.2_Missense_Mutation_p.E297K|ZCCHC8_uc009zxq.2_Missense_Mutation_p.E297K	NM_017612	NP_060082	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	535	Potential.					catalytic step 2 spliceosome	nucleic acid binding|protein binding|zinc ion binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.25e-05)|Epithelial(86;0.000113)|BRCA - Breast invasive adenocarcinoma(302;0.202)		TTTACGCTCTCGGCCTGCTCA	0.547													166	295	---	---	---	---	PASS	T	122958565	T	T	122958565	3	4	54	1	0	0	0	0	1	0	0	0	17591	893	31	2	524	2	ZCCHC8	12	122958565	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1526498	122958565	10893330	296	20406										
SBNO1	55206	broad.mit.edu	37	chr12	123800192	123800192	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caggagcagtaacttggtttGatctatgagtacgtcctgca	11	8	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:123800192G>C	uc010tap.1	-	21	2951	c.2951C>G	c.(2950-2952)TCA>TGA	p.S984*	SBNO1_uc010tao.1_Nonsense_Mutation_p.S983*|SBNO1_uc010taq.1_Translation_Start_Site|SBNO1_uc001ues.1_5'Flank	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	984							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		AACTTGGTTTGATCTATGAGT	0.373													31	147	---	---	---	---	PASS	C	123800192	C	C	123800192	4	2	54	1	0	0	0	0	0	1	0	0	13862	1294	45	2	1274	2	SBNO1	12	123800192	Nonsense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	841627	123800192	10051703	297	20407										
TMEM132D	121256	broad.mit.edu	37	chr12	130015694	130015694	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgcgctccttgacatcccaaAtggaagggctgctggctcgc	12	13	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:130015694A>G	uc009zyl.1	-	3	1353	c.1025T>C	c.(1024-1026)ATT>ACT	p.I342T		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	342	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GACATCCCAAATGGAAGGGCT	0.532													33	84	---	---	---	---	PASS	G	130015694	G	G	130015694	3	3	54	1	0	0	0	0	1	0	0	0	16044	101	4	5	2302	5	TMEM132D	12	130015694	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	6215502	130015694	3836201	298	20408										
RIMBP2	23504	broad.mit.edu	37	chr12	130929768	130929768	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtattttcccgccgtgagggGcagctcagcttcggggttct	14	11	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr12:130929768G>T	uc001uil.2	-	7	741	c.577C>A	c.(577-579)CCC>ACC	p.P193T	RIMBP2_uc001uim.2_Missense_Mutation_p.P101T|RIMBP2_uc001uin.1_5'Flank	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	193	SH3 1.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		GCCGTGAGGGGCAGCTCAGCT	0.547													91	133	---	---	---	---	PASS	T	130929768	T	T	130929768	3	4	54	1	0	0	0	0	1	0	0	0	13363	1203	42	3	2633	3	RIMBP2	12	130929768	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	914074	130929768	2922127	299	20409										
SACS	26278	broad.mit.edu	37	chr13	23929364	23929364	+	Missense_Mutation	SNP	G	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gccaaagaacccactgatgtGaactgggaggcctgtgctgc					rs149951538		TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr13:23929364G>A	uc001uon.2	-	8	1976	c.1387C>T	c.(1387-1389)CAC>TAC	p.H463Y	SACS_uc001uoo.2_Missense_Mutation_p.H316Y|SACS_uc001uop.1_Missense_Mutation_p.H250Y|SACS_uc001uoq.1_Missense_Mutation_p.H316Y	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	463					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CCACTGATGTGAACTGGGAGG	0.483													61	26	---	---	---	---	PASS	A	23929364	A	A	23929364	3	1	54	1	0	0	0	0	1	0	0	0	13804	1290	45	2	12364	2	SACS	13	23929364	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08		23929364	91240514	300	20410	462	2								
SACS	26278	broad.mit.edu	37	chr13	23929365	23929365	+	Silent	SNP	A	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccaaagaacccactgatgtgAactgggaggcctgtgctgct							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr13:23929365A>T	uc001uon.2	-	8	1975	c.1386T>A	c.(1384-1386)GTT>GTA	p.V462V	SACS_uc001uoo.2_Silent_p.V315V|SACS_uc001uop.1_Silent_p.V249V|SACS_uc001uoq.1_Silent_p.V315V	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	462					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CACTGATGTGAACTGGGAGGC	0.488													60	25	---	---	---	---	PASS	T	23929365	T	T	23929365	2	4	54	1	0	0	0	0	0	0	0	1	13804	233	9	5		5	SACS	13	23929365	Silent	SNP	A	TCGA-33-4532-01A-01D-1267-08	1	23929365	91240513	301	20411	462	2								
MTIF3	219402	broad.mit.edu	37	chr13	28011400	28011400	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gacaaaatcagttcctttctCagggttggtcctggtttgaa	10	8	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr13:28011400C>G	uc001urh.2	-	2	1695	c.471G>C	c.(469-471)CTG>CTC	p.L157L	MTIF3_uc001uri.2_Silent_p.L157L|MTIF3_uc001urj.2_Silent_p.L157L|MTIF3_uc001urk.2_Silent_p.L157L	NM_152912	NP_690876	Q9H2K0	IF3M_HUMAN	mitochondrial translational initiation factor 3	157					regulation of translational initiation|ribosome disassembly	mitochondrion	ribosomal small subunit binding|translation initiation factor activity			ovary(1)|skin(1)	2		Lung SC(185;0.0161)	Colorectal(13;0.00042)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.108)|OV - Ovarian serous cystadenocarcinoma(117;0.157)		GTTCCTTTCTCAGGGTTGGTC	0.413													8	58	---	---	---	---	PASS	G	28011400	G	G	28011400	2	3	54	1	0	0	0	0	0	0	0	1	9935	813	29	2		2	MTIF3	13	28011400	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	4082035	28011400	87158478	302	20412										
FLT3	2322	broad.mit.edu	37	chr13	28623591	28623591	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtgtagtatccggtgtcgttTcttgccactgatgatacaaa	10	8	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr13:28623591T>C	uc001urw.2	-	8	1048	c.966A>G	c.(964-966)AGA>AGG	p.R322R	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Silent_p.R322R	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	322	Extracellular (Potential).|Ig-like C2-type.				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	CGGTGTCGTTTCTTGCCACTG	0.398			Mis|O		AML|ALL								30	295	---	---	---	---	PASS	C	28623591	C	C	28623591	2	2	54	1	0	0	0	0	0	0	0	1	5942	1780	62	5		5	FLT3	13	28623591	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	612191	28623591	86546287	303	20413										
AKAP11	11215	broad.mit.edu	37	chr13	42876298	42876298	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgcacctgctacaccaccttCtactccacacaactcatctg	3	18	3	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr13:42876298C>G	uc001uys.1	+	8	3591	c.3416C>G	c.(3415-3417)TCT>TGT	p.S1139C		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	1139					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		ACACCACCTTCTACTCCACAC	0.398													24	183	---	---	---	---	PASS	G	42876298	G	G	42876298	3	3	54	1	0	0	0	0	1	0	0	0	447	913	32	2	3438	2	AKAP11	13	42876298	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	14252707	42876298	72293580	304	20414										
CPB2	1361	broad.mit.edu	37	chr13	46632487	46632487	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ataaagtccacagtaggtttCcgagcatgaggaactggatg	12	7	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr13:46632487C>T	uc001vaw.2	-	9	893	c.826G>A	c.(826-828)GAA>AAA	p.E276K	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Missense_Mutation_p.E239K	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	276					blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		CAGTAGGTTTCCGAGCATGAG	0.418													174	97	---	---	---	---	PASS	T	46632487	T	T	46632487	3	4	54	1	0	0	0	0	1	0	0	0	3797	864	30	2	457	2	CPB2	13	46632487	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	3756189	46632487	68537391	305	20415										
FBXL3	26224	broad.mit.edu	37	chr13	77589613	77589613	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	atcactattgttggccactaGtactttgagagatggatcat	9	7	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr13:77589613G>A	uc001vkd.2	-	4	945	c.574C>T	c.(574-576)CTA>TTA	p.L192L		NM_012158	NP_036290	Q9UKT7	FBXL3_HUMAN	F-box and leucine-rich repeat protein 3	192	LRR 2.				regulation of circadian rhythm|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.218)		GBM - Glioblastoma multiforme(99;0.0521)		TTGGCCACTAGTACTTTGAGA	0.408													29	160	---	---	---	---	PASS	A	77589613	A	A	77589613	2	1	54	1	0	0	0	0	0	0	0	1	5720	1020	36	3		3	FBXL3	13	77589613	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	30957126	77589613	37580265	306	20416										
SLITRK6	84189	broad.mit.edu	37	chr13	86369028	86369028	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agaggatgtcatctgtcactGtgttcttgcttaacttttgt	9	7	4	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr13:86369028G>T	uc001vll.1	-	2	2075	c.1616C>A	c.(1615-1617)ACA>AAA	p.T539K	SLITRK6_uc010afe.1_Intron	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	539	LRRCT 2.|Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		ATCTGTCACTGTGTTCTTGCT	0.453													99	39	---	---	---	---	PASS	T	86369028	T	T	86369028	3	4	54	1	0	0	0	0	1	0	0	0	14747	1377	48	3	913	3	SLITRK6	13	86369028	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	8779415	86369028	28800850	307	20417										
GPC5	2262	broad.mit.edu	37	chr13	92345699	92345699	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggaatactcagaatgcatccGgatggctcgccgggatgtga	14	9	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr13:92345699G>T	uc010tif.1	+	3	950	c.584G>T	c.(583-585)CGG>CTG	p.R195L		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	195						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				GAATGCATCCGGATGGCTCGC	0.493													26	150	---	---	---	---	PASS	T	92345699	T	T	92345699	3	4	54	1	0	0	0	0	1	0	0	0	6601	1116	39	1	594	1	GPC5	13	92345699	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	5976671	92345699	22824179	308	20418										
GPC5	2262	broad.mit.edu	37	chr13	92797143	92797143	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttcttcagctgggcagtggtGgaggcatggttgaacaagtc	15	7	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr13:92797143G>A	uc010tif.1	+	7	1828	c.1462G>A	c.(1462-1464)GGA>AGA	p.G488R		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	488						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				GGGCAGTGGTGGAGGCATGGT	0.463													25	159	---	---	---	---	PASS	A	92797143	A	A	92797143	3	1	54	1	0	0	0	0	1	0	0	0	6601	1349	47	3	1488	3	GPC5	13	92797143	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	451444	92797143	22372735	309	20419										
MYO16	23026	broad.mit.edu	37	chr13	109772789	109772789	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gatttgtgcctacagttgcaGagaaaaattataacctgcca	8	8	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr13:109772789G>T	uc001vqt.1	+	29	3570	c.3444G>T	c.(3442-3444)CAG>CAT	p.Q1148H	MYO16_uc010agk.1_Missense_Mutation_p.Q1170H|MYO16_uc010tjh.1_Missense_Mutation_p.Q660H	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1148	IQ.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			TACAGTTGCAGAGAAAAATTA	0.353													19	80	---	---	---	---	PASS	T	109772789	T	T	109772789	3	4	54	1	0	0	0	0	1	0	0	0	10064	933	33	2	3554	2	MYO16	13	109772789	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	16975646	109772789	5397089	310	20420										
PROZ	8858	broad.mit.edu	37	chr13	113826141	113826141	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gctgggcacgcaatggcactGacctgggcaactcgctgacc	13	14	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr13:113826141G>A	uc001vta.1	+	8	932	c.925G>A	c.(925-927)GAC>AAC	p.D309N	PROZ_uc010agr.1_Missense_Mutation_p.D331N	NM_003891	NP_003882	P22891	PROZ_HUMAN	protein Z, vitamin K-dependent plasma	309	Peptidase S1.				blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.216)	all cancers(43;0.104)		Menadione(DB00170)	CAATGGCACTGACCTGGGCAA	0.647													9	89	---	---	---	---	PASS	A	113826141	A	A	113826141	3	1	54	1	0	0	0	0	1	0	0	0	12562	1290	45	2	955	2	PROZ	13	113826141	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	4053352	113826141	1343737	311	20421										
EFS	10278	broad.mit.edu	37	chr14	23826697	23826697	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gagcagccaccaccaccctcTtgctgtggggcacgaaaagg	12	14	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:23826697T>C	uc001wjo.2	-	6	2032	c.1424A>G	c.(1423-1425)AAG>AGG	p.K475R	EFS_uc001wjp.2_Missense_Mutation_p.K382R|EFS_uc010tnm.1_Missense_Mutation_p.K306R	NM_005864	NP_005855	O43281	EFS_HUMAN	embryonal Fyn-associated substrate isoform 1	475	Divergent helix-loop-helix motif.				cell adhesion|intracellular signal transduction	cytoplasm	SH3 domain binding			large_intestine(1)	1	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00649)		CACCACCCTCTTGCTGTGGGG	0.652													59	80	---	---	---	---	PASS	C	23826697	C	C	23826697	3	2	54	1	0	0	0	0	1	0	0	0	4959	1609	56	5	265	5	EFS	14	23826697	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08		23826697	83522843	312	20422										
BAZ1A	11177	broad.mit.edu	37	chr14	35234367	35234367	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agaccatatcacgctacgatCcaaggtggataggtgaagaa	11	8	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:35234367C>G	uc001wsk.2	-	22	3977	c.3409G>C	c.(3409-3411)GAT>CAT	p.D1137H	BAZ1A_uc001wsl.2_Missense_Mutation_p.D1105H	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1137					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		ACGCTACGATCCAAGGTGGAT	0.438													56	105	---	---	---	---	PASS	G	35234367	G	G	35234367	3	3	54	1	0	0	0	0	1	0	0	0	1329	855	30	2	1285	2	BAZ1A	14	35234367	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	11407670	35234367	72115173	313	20423										
FSCB	84075	broad.mit.edu	37	chr14	44973932	44973932	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aattctgtagacacattctcTaccagagcctcatcttcagg	6	12	5	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:44973932T>A	uc001wvn.2	-	1	2568	c.2259A>T	c.(2257-2259)GTA>GTT	p.V753V		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	753						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		ACACATTCTCTACCAGAGCCT	0.463													153	148	---	---	---	---	PASS	A	44973932	A	A	44973932	2	1	54	1	0	0	0	0	0	0	0	1	6066	1509	53	5		5	FSCB	14	44973932	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	9739565	44973932	62375608	314	20424										
MDGA2	161357	broad.mit.edu	37	chr14	47343269	47343269	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttctttggagccactacggtCagcattaggtcctgtattag	10	9	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:47343269C>A	uc001wwj.3	-	13	2561	c.2365G>T	c.(2365-2367)GAC>TAC	p.D789Y	MDGA2_uc001wwh.3_5'UTR|MDGA2_uc001wwi.3_Missense_Mutation_p.D560Y|MDGA2_uc010ani.2_Missense_Mutation_p.D349Y	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	789	MAM.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CCACTACGGTCAGCATTAGGT	0.338													37	130	---	---	---	---	PASS	A	47343269	A	A	47343269	3	1	54	1	0	0	0	0	1	0	0	0	9407	826	29	2	525	2	MDGA2	14	47343269	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	2369337	47343269	60006271	315	20425										
EXOC5	10640	broad.mit.edu	37	chr14	57675449	57675449	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcagacttgctttaaattatCtggggcaactaccagaagat	9	8	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:57675449C>A	uc001xct.2	-	18	2256	c.2005G>T	c.(2005-2007)GAT>TAT	p.D669Y	EXOC5_uc001xcs.2_Missense_Mutation_p.D348Y|EXOC5_uc010trg.1_Missense_Mutation_p.D614Y|EXOC5_uc010trh.1_Missense_Mutation_p.D604Y	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	669					exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						TTTAAATTATCTGGGGCAACT	0.378													71	72	---	---	---	---	PASS	A	57675449	A	A	57675449	3	1	54	1	0	0	0	0	1	0	0	0	5307	913	32	2	125	2	EXOC5	14	57675449	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	10332180	57675449	49674091	316	20426										
DACT1	51339	broad.mit.edu	37	chr14	59112477	59112477	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaacgggagcgtttgtgtcaGagccccgggcggtgtctcac	16	11	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:59112477G>T	uc001xdw.2	+	4	1300	c.1136G>T	c.(1135-1137)AGA>ATA	p.R379I	DACT1_uc010trv.1_Missense_Mutation_p.R98I|DACT1_uc001xdx.2_Missense_Mutation_p.R342I|DACT1_uc010trw.1_Missense_Mutation_p.R98I	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	379					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						GTTTGTGTCAGAGCCCCGGGC	0.542													88	105	---	---	---	---	PASS	T	59112477	T	T	59112477	3	4	54	1	0	0	0	0	1	0	0	0	4222	942	33	2	1150	2	DACT1	14	59112477	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1437028	59112477	48237063	317	20427										
DAAM1	23002	broad.mit.edu	37	chr14	59822020	59822020	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcaagatatctagcctaaacAaaattgctgacacaaaatcc	4	10	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:59822020A>G	uc001xdz.1	+	21	2649	c.2524A>G	c.(2524-2526)AAA>GAA	p.K842E	DAAM1_uc001xea.1_Missense_Mutation_p.K832E|DAAM1_uc001xec.1_RNA	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of	842	FH2.				actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		TAGCCTAAACAAAATTGCTGA	0.433													27	165	---	---	---	---	PASS	G	59822020	G	G	59822020	3	3	54	1	0	0	0	0	1	0	0	0	4215	131	5	5	2602	5	DAAM1	14	59822020	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	709543	59822020	47527520	318	20428										
DCAF5	8816	broad.mit.edu	37	chr14	69558590	69558590	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggagggacaggtttccaccaTagcgcaggagagaactggaa	15	8	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:69558590T>C	uc001xkp.2	-	6	899	c.680A>G	c.(679-681)TAT>TGT	p.Y227C	DCAF5_uc001xkq.2_Missense_Mutation_p.Y226C|DCAF5_uc001xkr.3_Missense_Mutation_p.Y227C	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	227						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						GTTTCCACCATAGCGCAGGAG	0.537													29	26	---	---	---	---	PASS	C	69558590	C	C	69558590	3	2	54	1	0	0	0	0	1	0	0	0	4273	1406	49	5	2164	5	DCAF5	14	69558590	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	9736570	69558590	37790950	319	20429										
TTLL5	23093	broad.mit.edu	37	chr14	76330119	76330119	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	atcaccccacagcaggcagcTatcagcttcaatttgccctg	7	15	3	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:76330119T>C	uc001xrx.2	+	29	3641	c.3436T>C	c.(3436-3438)TAT>CAT	p.Y1146H	TTLL5_uc010ask.1_Missense_Mutation_p.Y1161H|TTLL5_uc001xrz.2_Missense_Mutation_p.Y721H|TTLL5_uc001xsa.2_Missense_Mutation_p.Y220H	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	1146					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		AGCAGGCAGCTATCAGCTTCA	0.537													7	256	---	---	---	---	PASS	C	76330119	C	C	76330119	3	2	54	1	0	0	0	0	1	0	0	0	16727	1522	53	5	3546	5	TTLL5	14	76330119	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	6771529	76330119	31019421	320	20430										
ESRRB	2103	broad.mit.edu	37	chr14	76964656	76964656	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gagccagcgccatgaggagcCctggaggacgggcaagctgc	17	12	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:76964656C>T	uc001xsq.1	+	7	1224	c.1157C>T	c.(1156-1158)CCC>CTC	p.P386L	ESRRB_uc001xsr.2_Missense_Mutation_p.P386L|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	386						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		CATGAGGAGCCCTGGAGGACG	0.617													32	32	---	---	---	---	PASS	T	76964656	T	T	76964656	3	4	54	1	0	0	0	0	1	0	0	0	5261	623	22	3	1179	3	ESRRB	14	76964656	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	634537	76964656	30384884	321	20431										
VIPAR	63894	broad.mit.edu	37	chr14	77919736	77919736	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctgttcaccgcccgcttggaCtcctttaactgcagagggac	10	14	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:77919736C>T	uc001xtt.1	-	4	440	c.102G>A	c.(100-102)GAG>GAA	p.E34E	VIPAR_uc001xtu.1_Silent_p.E34E|VIPAR_uc010tvj.1_Silent_p.E34E|VIPAR_uc001xtv.1_Silent_p.E34E	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894	34					endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1						CCCGCTTGGACTCCTTTAACT	0.537													89	595	---	---	---	---	PASS	T	77919736	T	T	77919736	2	4	54	1	0	0	0	0	0	0	0	1	17165	564	20	3		3	VIPAR	14	77919736	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	955080	77919736	29429804	322	20432										
NRXN3	9369	broad.mit.edu	37	chr14	80164196	80164196	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cagacgacctccatgccaccAgaaatgtctactactgtcat	6	14	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:80164196A>G	uc001xun.2	+	15	3212	c.2721A>G	c.(2719-2721)CCA>CCG	p.P907P	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Silent_p.P275P|NRXN3_uc010asw.2_Silent_p.P305P|NRXN3_uc001xur.3_Silent_p.P275P	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1280	Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CCATGCCACCAGAAATGTCTA	0.468													58	118	---	---	---	---	PASS	G	80164196	G	G	80164196	2	3	54	1	0	0	0	0	0	0	0	1	10667	175	7	5		5	NRXN3	14	80164196	Silent	SNP	A	TCGA-33-4532-01A-01D-1267-08	2244460	80164196	27185344	323	20433										
C14orf145	145508	broad.mit.edu	37	chr14	81259310	81259310	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agcctgcttggttgcatcctCcgcatggcgagtcagctctg	12	13	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:81259310C>A	uc001xux.2	-	13	1525	c.1354G>T	c.(1354-1356)GAG>TAG	p.E452*	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	452	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		GTTGCATCCTCCGCATGGCGA	0.537													94	119	---	---	---	---	PASS	A	81259310	A	A	81259310	4	1	54	1	0	0	0	0	0	1	0	0	1749	864	30	2	1978	2	C14orf145	14	81259310	Nonsense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1095114	81259310	26090230	324	20434										
STON2	85439	broad.mit.edu	37	chr14	81743488	81743488	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	catcacattctcacagggaaCctgagtgagggggtcacgat	12	10	3	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:81743488C>A	uc010tvu.1	-	4	2368	c.2167G>T	c.(2167-2169)GTT>TTT	p.V723F	STON2_uc001xvk.1_Missense_Mutation_p.V723F|STON2_uc010tvt.1_Missense_Mutation_p.V520F	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	723	MHD.				endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		TCACAGGGAACCTGAGTGAGG	0.552													23	335	---	---	---	---	PASS	A	81743488	A	A	81743488	3	1	54	1	0	0	0	0	1	0	0	0	15317	507	18	3	556	3	STON2	14	81743488	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	484178	81743488	25606052	325	20435										
FLRT2	23768	broad.mit.edu	37	chr14	86088740	86088740	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctgcggatgctgactcaaggGgtttttgataatctctccaa	10	9	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:86088740G>T	uc001xvr.2	+	2	1649	c.882G>T	c.(880-882)GGG>GGT	p.G294G	FLRT2_uc010atd.2_Silent_p.G294G	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	294	Extracellular (Potential).|LRR 10.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		TGACTCAAGGGGTTTTTGATA	0.443													75	669	---	---	---	---	PASS	T	86088740	T	T	86088740	2	4	54	1	0	0	0	0	0	0	0	1	5939	1219	43	3		3	FLRT2	14	86088740	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	4345252	86088740	21260800	326	20436										
GPR65	8477	broad.mit.edu	37	chr14	88477620	88477620	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tccatctggatattggaaacCatcttcaatgctgtcatgtt	7	9	4	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:88477620C>A	uc001xvv.2	+	2	959	c.429C>A	c.(427-429)ACC>ACA	p.T143T		NM_003608	NP_003599	Q8IYL9	PSYR_HUMAN	G protein-coupled receptor 65	143	Helical; Name=4; (Potential).				actin cytoskeleton reorganization|activation of Rho GTPase activity|apoptosis|immune response|multicellular organismal development|positive regulation of cAMP biosynthetic process|positive regulation of stress fiber assembly|response to acidity	integral to plasma membrane	G-protein coupled receptor activity				0						TATTGGAAACCATCTTCAATG	0.383													6	538	---	---	---	---	PASS	A	88477620	A	A	88477620	2	1	54	1	0	0	0	0	0	0	0	1	6706	581	21	3		3	GPR65	14	88477620	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	2388880	88477620	18871920	327	20437										
TRIP11	9321	broad.mit.edu	37	chr14	92471638	92471638	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agttgagatacctcagatgcTagttcagtaacactatcaag	8	8	3	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:92471638T>C	uc001xzy.2	-	11	3470	c.2682A>G	c.(2680-2682)CTA>CTG	p.L894L	TRIP11_uc010auf.1_Silent_p.L630L	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	894	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		CCTCAGATGCTAGTTCAGTAA	0.403			T	PDGFRB	AML								177	117	---	---	---	---	PASS	C	92471638	C	C	92471638	2	2	54	1	0	0	0	0	0	0	0	1	16552	1509	53	5		5	TRIP11	14	92471638	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	3994018	92471638	14877902	328	20438										
PPP4R4	57718	broad.mit.edu	37	chr14	94731758	94731758	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acaccaacgcaaagtctgccCaagaacatccccatttctgt	5	15	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:94731758C>G	uc001ycs.1	+	21	2386	c.2232C>G	c.(2230-2232)CCC>CCG	p.P744P		NM_058237	NP_478144	Q6NUP7	PP4R4_HUMAN	HEAT-like repeat-containing protein isoform 1	744						cytoplasm|protein serine/threonine phosphatase complex	protein binding			skin(3)|upper_aerodigestive_tract(1)	4						AAAGTCTGCCCAAGAACATCC	0.353													28	222	---	---	---	---	PASS	G	94731758	G	G	94731758	2	3	54	1	0	0	0	0	0	0	0	1	12405	581	21	4		4	PPP4R4	14	94731758	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	2260120	94731758	12617782	329	20439										
CLMN	79789	broad.mit.edu	37	chr14	95786073	95786073	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aggttctgcactcggatgtcGctaatctgcccgatgagctc	11	12	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:95786073G>T	uc001yef.2	-	1	173	c.57C>A	c.(55-57)AGC>AGA	p.S19R		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	19	Actin-binding.|CH 1.					integral to membrane	actin binding				0				Epithelial(152;0.193)		CTCGGATGTCGCTAATCTGCC	0.632													8	92	---	---	---	---	PASS	T	95786073	T	T	95786073	3	4	54	1	0	0	0	0	1	0	0	0	3542	1078	38	1	3003	1	CLMN	14	95786073	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1054315	95786073	11563467	330	20440										
PPP1R13B	23368	broad.mit.edu	37	chr14	104206296	104206296	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtggccacgttgttgttattGtcctctgccggctcggcagt	13	11	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr14:104206296G>A	uc001yof.1	-	12	2740	c.2457C>T	c.(2455-2457)GAC>GAT	p.D819D	PPP1R13B_uc010awv.1_RNA|PPP1R13B_uc001yog.1_Silent_p.D686D	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	819	Pro-rich.				apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				TGTTGTTATTGTCCTCTGCCG	0.602													9	138	---	---	---	---	PASS	A	104206296	A	A	104206296	2	1	54	1	0	0	0	0	0	0	0	1	12357	1368	48	3		3	PPP1R13B	14	104206296	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	8420223	104206296	3143244	331	20441										
OTUD7A	161725	broad.mit.edu	37	chr15	31776859	31776859	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaatcgcggtccgagtccagCgagtcggccagggactgcac	15	13	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:31776859C>A	uc001zfq.2	-	11	1512	c.1419G>T	c.(1417-1419)TCG>TCT	p.S473S	OTUD7A_uc001zfr.2_Silent_p.S480S	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	473						cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		CCGAGTCCAGCGAGTCGGCCA	0.527													3	16	---	---	---	---	PASS	A	31776859	A	A	31776859	2	1	54	1	0	0	0	0	0	0	0	1	11318	755	27	1		1	OTUD7A	15	31776859	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08		31776859	70754533	332	20442										
RYR3	6263	broad.mit.edu	37	chr15	33954961	33954961	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgtttgatgatgatgatgttCggcagatcctcctcctgatt	10	8	0	6			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:33954961C>A	uc001zhi.2	+	35	5300	c.5230C>A	c.(5230-5232)CGG>AGG	p.R1744R	RYR3_uc010bar.2_Silent_p.R1744R	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1744	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGATGATGTTCGGCAGATCCT	0.552													4	170	---	---	---	---	PASS	A	33954961	A	A	33954961	2	1	54	1	0	0	0	0	0	0	0	1	13770	875	31	2		2	RYR3	15	33954961	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	2178102	33954961	68576431	333	20443										
PDIA3	2923	broad.mit.edu	37	chr15	44062447	44062447	+	Splice_Site	SNP	G	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tttaacctgttttattaacaGctcagcaaagacccaaatat							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:44062447G>T	uc001zsu.2	+	11	1415	c.1267_splice	c.e11-1	p.L423_splice	PDIA3_uc010bdp.2_Splice_Site_p.L403_splice|PDIA3_uc010ued.1_Splice_Site_p.L197_splice	NM_005313	NP_005304	P30101	PDIA3_HUMAN	protein disulfide-isomerase A3 precursor						cell redox homeostasis|glycerol ether metabolic process|post-translational protein modification|protein folding|protein import into nucleus|protein N-linked glycosylation via asparagine|protein retention in ER lumen|signal transduction	endoplasmic reticulum lumen|melanosome	cysteine-type endopeptidase activity|electron carrier activity|phospholipase C activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)|skin(1)	2		all_cancers(109;2.61e-15)|all_epithelial(112;1.12e-12)|Lung NSC(122;2.17e-08)|all_lung(180;2.45e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.48e-07)		TTTATTAACAGCTCAGCAAAG	0.368													12	94	---	---	---	---	PASS	T	44062447	T	T	44062447	5	4	54	1	0	0	0	0	0	0	1	0	11669	985	34	3	1308	3	PDIA3	15	44062447	Splice_Site	SNP	G	TCGA-33-4532-01A-01D-1267-08	10107486	44062447	58468945	334	20444	463	2								
PDIA3	2923	broad.mit.edu	37	chr15	44062448	44062448	+	Missense_Mutation	SNP	C	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttaacctgttttattaacagCtcagcaaagacccaaatatc							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:44062448C>A	uc001zsu.2	+	11	1415	c.1267C>A	c.(1267-1269)CTC>ATC	p.L423I	PDIA3_uc010bdp.2_Missense_Mutation_p.L403I|PDIA3_uc010ued.1_Missense_Mutation_p.L197I	NM_005313	NP_005304	P30101	PDIA3_HUMAN	protein disulfide-isomerase A3 precursor	423	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|post-translational protein modification|protein folding|protein import into nucleus|protein N-linked glycosylation via asparagine|protein retention in ER lumen|signal transduction	endoplasmic reticulum lumen|melanosome	cysteine-type endopeptidase activity|electron carrier activity|phospholipase C activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)|skin(1)	2		all_cancers(109;2.61e-15)|all_epithelial(112;1.12e-12)|Lung NSC(122;2.17e-08)|all_lung(180;2.45e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.48e-07)		TTATTAACAGCTCAGCAAAGA	0.373													13	98	---	---	---	---	PASS	A	44062448	A	A	44062448	3	1	54	1	0	0	0	0	1	0	0	0	11669	811	28	3	1309	3	PDIA3	15	44062448	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1	44062448	58468944	335	20445	463	2								
ELL3	80237	broad.mit.edu	37	chr15	44066938	44066938	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agttctgaacctcttttcttCcagttctacagtggctacag	7	11	4	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:44066938C>A	uc001zsw.1	-	7	1082	c.679G>T	c.(679-681)GAA>TAA	p.E227*	ELL3_uc001zsv.1_Nonsense_Mutation_p.E181*|ELL3_uc001zsx.1_Nonsense_Mutation_p.E112*|uc001zsy.2_5'Flank	NM_025165	NP_079441	Q9HB65	ELL3_HUMAN	elongation factor RNA polymerase II-like 3	227					positive regulation of transcription elongation, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				ovary(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;7.81e-07)		CTCTTTTCTTCCAGTTCTACA	0.443													35	153	---	---	---	---	PASS	A	44066938	A	A	44066938	4	1	54	1	0	0	0	0	0	1	0	0	5064	864	30	2	534	2	ELL3	15	44066938	Nonsense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	4490	44066938	58464454	336	20446										
TRIM69	140691	broad.mit.edu	37	chr15	45059595	45059595	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcaagaggcttcacctctggAaagtggtactgggaagtaga	13	7	3	2	rs141242641		TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:45059595A>T	uc001zuf.2	+	8	2023	c.1128A>T	c.(1126-1128)GGA>GGT	p.G376G	TRIM69_uc001zui.1_Silent_p.G172G|TRIM69_uc010bdy.1_Silent_p.G155G|TRIM69_uc001zug.1_Silent_p.G376G|TRIM69_uc001zuh.1_Silent_p.G217G	NM_182985	NP_892030	Q86WT6	TRI69_HUMAN	tripartite motif-containing 69 isoform a	376	B30.2/SPRY.				apoptosis	nuclear speck	zinc ion binding				0		all_cancers(109;2.47e-13)|all_epithelial(112;2.84e-11)|Lung NSC(122;2.23e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;5.5e-19)|GBM - Glioblastoma multiforme(94;1.07e-06)|Colorectal(105;0.138)|COAD - Colon adenocarcinoma(120;0.141)		TCACCTCTGGAAAGTGGTACT	0.483													81	166	---	---	---	---	PASS	T	45059595	T	T	45059595	2	4	54	1	0	0	0	0	0	0	0	1	16539	233	9	5		5	TRIM69	15	45059595	Silent	SNP	A	TCGA-33-4532-01A-01D-1267-08	992657	45059595	57471797	337	20447										
DUOX2	50506	broad.mit.edu	37	chr15	45387146	45387146	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgacatactagcatggtggtCctgaggtcgaacttctcagc	11	10	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:45387146C>A	uc010bea.2	-	32	4586	c.4383G>T	c.(4381-4383)AGG>AGT	p.R1461S	DUOX2_uc001zun.2_Missense_Mutation_p.R1461S	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1461	Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		GCATGGTGGTCCTGAGGTCGA	0.607													22	91	---	---	---	---	PASS	A	45387146	A	A	45387146	3	1	54	1	0	0	0	0	1	0	0	0	4801	854	30	2	275	2	DUOX2	15	45387146	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	327551	45387146	57144246	338	20448										
MYEF2	50804	broad.mit.edu	37	chr15	48435118	48435118	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cttgaaattatgcattacgaTccaagcgaacatcaatttct	5	9	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:48435118T>C	uc001zwi.3	-	17	1914	c.1790A>G	c.(1789-1791)GAT>GGT	p.D597G	MYEF2_uc001zwg.3_Missense_Mutation_p.D135G|MYEF2_uc001zwh.3_Missense_Mutation_p.D185G|MYEF2_uc001zwj.3_Missense_Mutation_p.D573G	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	597	RRM 3.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		TGCATTACGATCCAAGCGAAC	0.363													43	115	---	---	---	---	PASS	C	48435118	C	C	48435118	3	2	54	1	0	0	0	0	1	0	0	0	10024	1435	50	5	16	5	MYEF2	15	48435118	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	3047972	48435118	54096274	339	20449										
SLC12A1	6557	broad.mit.edu	37	chr15	48577447	48577447	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	taagacaacgcctaaaaaagGtaagaactttttaaaatttg	6	5	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:48577447G>A	uc001zwn.3	+	21	2845	c.2629_splice	c.e21+1	p.D877_splice	SLC12A1_uc001zwq.3_Splice_Site_p.D648_splice|SLC12A1_uc001zwr.3_Splice_Site_p.D604_splice	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2						potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	CCTAAAAAAGGTAAGAACTTT	0.368													14	85	---	---	---	---	PASS	A	48577447	A	A	48577447	5	1	54	1	0	0	0	0	0	0	1	0	14382	1275	44	3	2808	3	SLC12A1	15	48577447	Splice_Site	SNP	G	TCGA-33-4532-01A-01D-1267-08	142329	48577447	53953945	340	20450										
DYX1C1	161582	broad.mit.edu	37	chr15	55724695	55724695	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	catttctatcaattccttacCttctacatacaattctagtt	1	11	4	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:55724695C>A	uc002adc.2	-	9	1521	c.1153G>T	c.(1153-1155)GGC>TGC	p.G385C	CCPG1_uc002acy.2_5'UTR|DYX1C1_uc010ugh.1_Intron|DYX1C1_uc010ugi.1_RNA|DYX1C1_uc002adb.2_Intron|DYX1C1_uc002add.2_Intron	NM_130810	NP_570722	Q8WXU2	DYXC1_HUMAN	dyslexia susceptibility 1 candidate 1 isoform a	385	TPR 3.				neuron migration|regulation of estrogen receptor signaling pathway|regulation of proteasomal protein catabolic process	cytoplasm|nucleus	estrogen receptor binding			skin(1)	1				all cancers(107;0.0118)|GBM - Glioblastoma multiforme(80;0.171)		AATTCCTTACCTTCTACATAC	0.348													9	103	---	---	---	---	PASS	A	55724695	A	A	55724695	3	1	54	1	0	0	0	0	1	0	0	0	4862	695	24	3	220	3	DYX1C1	15	55724695	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	7147248	55724695	46806697	341	20451										
AP3B2	8120	broad.mit.edu	37	chr15	83350255	83350255	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcttccttgatagctagcatCatgatgggcactatgatggg	12	8	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:83350255C>T	uc010uoh.1	-	5	615	c.438G>A	c.(436-438)ATG>ATA	p.M146I	AP3B2_uc010uoi.1_Missense_Mutation_p.M146I|AP3B2_uc010uoj.1_Missense_Mutation_p.M114I|AP3B2_uc010uog.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	146					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)			TAGCTAGCATCATGATGGGCA	0.567													32	249	---	---	---	---	PASS	T	83350255	T	T	83350255	3	4	54	1	0	0	0	0	1	0	0	0	745	826	29	2	2822	2	AP3B2	15	83350255	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	27625560	83350255	19181137	342	20452										
AKAP13	11214	broad.mit.edu	37	chr15	86076900	86076900	+	Missense_Mutation	SNP	T	A	A													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtggtggctgaagaagacttTcatttcgtccaggatgaagc							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:86076900T>A	uc002blv.1	+	4	437	c.267T>A	c.(265-267)TTT>TTA	p.F89L	AKAP13_uc002bls.2_Missense_Mutation_p.F89L|AKAP13_uc002blt.1_Missense_Mutation_p.F89L|AKAP13_uc002blu.1_Missense_Mutation_p.F89L	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	89					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						AAGAAGACTTTCATTTCGTCC	0.473													28	300	---	---	---	---	PASS	A	86076900	A	A	86076900	3	1	54	1	0	0	0	0	1	0	0	0	449	1780	62	5	277	5	AKAP13	15	86076900	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	2726645	86076900	16454492	343	20453	464	2								
AKAP13	11214	broad.mit.edu	37	chr15	86076901	86076901	+	Missense_Mutation	SNP	C	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tggtggctgaagaagactttCatttcgtccaggatgaagcg							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:86076901C>T	uc002blv.1	+	4	438	c.268C>T	c.(268-270)CAT>TAT	p.H90Y	AKAP13_uc002bls.2_Missense_Mutation_p.H90Y|AKAP13_uc002blt.1_Missense_Mutation_p.H90Y|AKAP13_uc002blu.1_Missense_Mutation_p.H90Y	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	90					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						AGAAGACTTTCATTTCGTCCA	0.473													28	299	---	---	---	---	PASS	T	86076901	T	T	86076901	3	4	54	1	0	0	0	0	1	0	0	0	449	826	29	2	278	2	AKAP13	15	86076901	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1	86076901	16454491	344	20454	464	2								
MESP2	145873	broad.mit.edu	37	chr15	90319886	90319886	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcatgcgcacgctggcccgcGccctgcacgagttgcgccgc	14	18	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:90319886G>T	uc002bon.2	+	1	298	c.298G>T	c.(298-300)GCC>TCC	p.A100S	MESP2_uc010uqa.1_Intron	NM_001039958	NP_001035047	Q0VG99	MESP2_HUMAN	mesoderm posterior 2 homolog	100	Helix-loop-helix motif.				Notch signaling pathway	nucleus	DNA binding				0	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)			GCTGGCCCGCGCCCTGCACGA	0.726													25	10	---	---	---	---	PASS	T	90319886	T	T	90319886	3	4	54	1	0	0	0	0	1	0	0	0	9483	1087	38	1	300	1	MESP2	15	90319886	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	4242985	90319886	12211506	345	20455										
NGRN	51335	broad.mit.edu	37	chr15	90814723	90814723	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cacagcacagctttgaaagtGatagagtcagacactcacag	9	10	2	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:90814723G>T	uc002bpf.1	+	3	629	c.579G>T	c.(577-579)GTG>GTT	p.V193V	TTLL13_uc002bpe.1_RNA|NGRN_uc002bpg.1_Silent_p.V121V	NM_001033088	NP_001028260	Q9NPE2	NGRN_HUMAN	neugrin	193					neuron differentiation	extracellular region|nucleus				large_intestine(2)|ovary(1)	3	Melanoma(11;0.00551)|Lung NSC(78;0.0178)|all_lung(78;0.0378)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|BRCA - Breast invasive adenocarcinoma(143;0.0323)|Kidney(142;0.0514)			CTTTGAAAGTGATAGAGTCAG	0.488													6	482	---	---	---	---	PASS	T	90814723	T	T	90814723	2	4	54	1	0	0	0	0	0	0	0	1	10399	1277	45	2		2	NGRN	15	90814723	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	494837	90814723	11716669	346	20456										
FAM169B	283777	broad.mit.edu	37	chr15	99023833	99023833	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gccatgcatccctcacctttCatcttggttgtgtaaaaccc	6	14	3	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:99023833C>G	uc002buk.1	-	4	430	c.180G>C	c.(178-180)ATG>ATC	p.M60I		NM_182562	NP_872368	Q8N8A8	F169B_HUMAN	hypothetical protein LOC283777	60											0						CCTCACCTTTCATCTTGGTTG	0.527													12	428	---	---	---	---	PASS	G	99023833	G	G	99023833	3	3	54	1	0	0	0	0	1	0	0	0	5488	826	29	2	414	2	FAM169B	15	99023833	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	8209110	99023833	3507559	347	20457										
LRRK1	79705	broad.mit.edu	37	chr15	101597168	101597168	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aagaagctgtccaagggcatCcgcccggttctggggcagcc	14	13	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:101597168C>G	uc002bwr.2	+	28	4759	c.4440C>G	c.(4438-4440)ATC>ATG	p.I1480M	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bws.2_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	1480	Protein kinase.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CCAAGGGCATCCGCCCGGTTC	0.602													48	819	---	---	---	---	PASS	G	101597168	G	G	101597168	3	3	54	1	0	0	0	0	1	0	0	0	9032	845	30	2	4546	2	LRRK1	15	101597168	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	2573335	101597168	934224	348	20458										
TM2D3	80213	broad.mit.edu	37	chr15	102191910	102191910	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtctagtacctgctgccctgGgaactactgtgaatgtgcgt	12	10	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:102191910G>A	uc002bxi.2	-	2	188	c.158C>T	c.(157-159)CCC>CTC	p.P53L	TM2D3_uc010usg.1_Intron|TM2D3_uc002bxh.2_5'Flank|TM2D3_uc002bxj.2_Intron|TM2D3_uc002bxk.2_5'UTR|TM2D3_uc010ush.1_Missense_Mutation_p.P53L	NM_078474	NP_510883	Q9BRN9	TM2D3_HUMAN	TM2 domain containing 3 isoform a	53						integral to membrane				ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGCTGCCCTGGGAACTACTGT	0.398													41	850	---	---	---	---	PASS	A	102191910	A	A	102191910	3	1	54	1	0	0	0	0	1	0	0	0	15962	1232	43	3	605	3	TM2D3	15	102191910	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	594742	102191910	339482	349	20459			1	23		3	3	61	G		3.509121e-07
TM2D3	80213	broad.mit.edu	37	chr15	102191952	102191952	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttgggcccggatcctttattGactgagccagcgcctgcgat	12	12	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:102191952G>C	uc002bxi.2	-	2	146	c.116C>G	c.(115-117)TCA>TGA	p.S39*	TM2D3_uc010usg.1_Intron|TM2D3_uc002bxh.2_5'Flank|TM2D3_uc002bxj.2_Intron|TM2D3_uc002bxk.2_5'UTR|TM2D3_uc010ush.1_Nonsense_Mutation_p.S39*	NM_078474	NP_510883	Q9BRN9	TM2D3_HUMAN	TM2 domain containing 3 isoform a	39						integral to membrane				ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			ATCCTTTATTGACTGAGCCAG	0.433													32	843	---	---	---	---	PASS	C	102191952	C	C	102191952	4	2	54	1	0	0	0	0	0	1	0	0	15962	1294	45	2	647	2	TM2D3	15	102191952	Nonsense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	42	102191952	339440	350	20460			1	23		3	3	61	G		3.509121e-07
TM2D3	80213	broad.mit.edu	37	chr15	102191970	102191970	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttgactgagccagcgcctgcGattgctctaaatttaaggat	10	9	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr15:102191970G>A	uc002bxi.2	-	2	128	c.98C>T	c.(97-99)TCG>TTG	p.S33L	TM2D3_uc010usg.1_Intron|TM2D3_uc002bxh.2_5'Flank|TM2D3_uc002bxj.2_Intron|TM2D3_uc002bxk.2_5'UTR|TM2D3_uc010ush.1_Missense_Mutation_p.S33L	NM_078474	NP_510883	Q9BRN9	TM2D3_HUMAN	TM2 domain containing 3 isoform a	33						integral to membrane				ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CAGCGCCTGCGATTGCTCTAA	0.468													26	817	---	---	---	---	PASS	A	102191970	A	A	102191970	3	1	54	1	0	0	0	0	1	0	0	0	15962	1059	37	2	665	2	TM2D3	15	102191970	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	18	102191970	339422	351	20461			1	23		3	3	61	G		3.509121e-07
SRRM2	23524	broad.mit.edu	37	chr16	2819118	2819118	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tccagctcctcctcttcatcTtcctcctcctcctcctcctc	1	23	3	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:2819118T>C	uc002crk.2	+	12	8403	c.7854T>C	c.(7852-7854)TCT>TCC	p.S2618S		NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2618	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						cctcttcatcttcctcctcct	0.279													56	105	---	---	---	---	PASS	C	2819118	C	C	2819118	2	2	54	1	0	0	0	0	0	0	0	1	15168	1596	56	5		5	SRRM2	16	2819118	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08		2819118	87535635	352	20462										
CREBBP	1387	broad.mit.edu	37	chr16	3788606	3788606	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tccaataaggatctcatggtAaacggctgtgcggaggcaac	12	9	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:3788606A>C	uc002cvv.2	-	26	4552	c.4348T>G	c.(4348-4350)TAC>GAC	p.Y1450D	CREBBP_uc002cvw.2_Missense_Mutation_p.Y1412D	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1450	Cys/His-rich.		Y -> H (in RSTS1).		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	p.Y1450C(1)		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)		ATCTCATGGTAAACGGCTGTG	0.398			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				26	43	---	---	---	---	PASS	C	3788606	C	C	3788606	3	2	54	1	0	0	0	0	1	0	0	0	3861	362	13	5	3004	5	CREBBP	16	3788606	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	969488	3788606	86566147	353	20463										
TXNDC11	51061	broad.mit.edu	37	chr16	11785816	11785816	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gttggcgggtctggcagctgTgccggcacttccagggccag	17	12	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:11785816T>C	uc010buu.1	-	9	1373	c.1311A>G	c.(1309-1311)GCA>GCG	p.A437A	TXNDC11_uc002dbg.1_Silent_p.A410A	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	437					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						CTGGCAGCTGTGCCGGCACTT	0.637													14	74	---	---	---	---	PASS	C	11785816	C	C	11785816	2	2	54	1	0	0	0	0	0	0	0	1	16789	1683	59	5		5	TXNDC11	16	11785816	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	7997210	11785816	78568937	354	20464										
UMOD	7369	broad.mit.edu	37	chr16	20359951	20359951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agccacatgggggcggccgtGttgcagcgcaggactggcac	17	12	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:20359951G>T	uc002dgz.2	-	3	801	c.672C>A	c.(670-672)AAC>AAA	p.N224K	UMOD_uc002dha.2_Missense_Mutation_p.N224K|UMOD_uc002dhb.2_Missense_Mutation_p.N257K	NM_003361	NP_003352	P07911	UROM_HUMAN	uromodulin precursor	224					cellular defense response|negative regulation of cell proliferation	anchored to membrane|apical plasma membrane|basolateral plasma membrane|cilium membrane|extrinsic to membrane|primary cilium|spindle pole	calcium ion binding			ovary(1)|skin(1)	2						GGGCGGCCGTGTTGCAGCGCA	0.711													4	15	---	---	---	---	PASS	T	20359951	T	T	20359951	3	4	54	1	0	0	0	0	1	0	0	0	16976	1368	48	3	1286	3	UMOD	16	20359951	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	8574135	20359951	69994802	355	20465										
RABEP2	79874	broad.mit.edu	37	chr16	28922461	28922461	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctcttggagctcgtcccgctCgcgactgacgctctccaggt	11	16	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:28922461C>A	uc002drq.2	-	6	982	c.934G>T	c.(934-936)GAG>TAG	p.E312*	uc010vct.1_Intron|RABEP2_uc010vdf.1_Nonsense_Mutation_p.E241*|RABEP2_uc010byn.2_Intron|RABEP2_uc002drr.2_Nonsense_Mutation_p.E312*	NM_024816	NP_079092	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	312	Potential.				endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3						TCGTCCCGCTCGCGACTGACG	0.562													35	98	---	---	---	---	PASS	A	28922461	A	A	28922461	4	1	54	1	0	0	0	0	0	1	0	0	12962	893	31	2	807	2	RABEP2	16	28922461	Nonsense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	8562510	28922461	61432292	356	20466										
ITGAX	3687	broad.mit.edu	37	chr16	31382415	31382415	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctctggccagcggatcgcggGctcccagctctcctccaggc	12	18	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:31382415G>A	uc002ebu.1	+	15	1788	c.1721G>A	c.(1720-1722)GGC>GAC	p.G574D	ITGAX_uc002ebt.2_Missense_Mutation_p.G574D|ITGAX_uc010vfk.1_Missense_Mutation_p.G224D	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	574	FG-GAP 7.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CGGATCGCGGGCTCCCAGCTC	0.582													63	329	---	---	---	---	PASS	A	31382415	A	A	31382415	3	1	54	1	0	0	0	0	1	0	0	0	7889	1203	42	3	1779	3	ITGAX	16	31382415	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	2459954	31382415	58972338	357	20467										
ITGAD	3681	broad.mit.edu	37	chr16	31405562	31405562	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccaaatattcctcagtcctgGcttcttatcatggattcaac	5	12	4	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:31405562G>C	uc002ebv.1	+	2	86	c.37G>C	c.(37-39)GCT>CCT	p.A13P	ITGAD_uc010vfl.1_Missense_Mutation_p.A13P|ITGAD_uc010cap.1_Missense_Mutation_p.A13P	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	13					cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						CTCAGTCCTGGCTTCTTATCA	0.502													26	88	---	---	---	---	PASS	C	31405562	C	C	31405562	3	2	54	1	0	0	0	0	1	0	0	0	7884	1203	42	4	43	4	ITGAD	16	31405562	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	23147	31405562	58949191	358	20468										
C16orf58	64755	broad.mit.edu	37	chr16	31502156	31502156	+	Nonstop_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgggcctccgtctgggctgcTcacaagaccttcttttcggg	12	13	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:31502156T>A	uc002eci.1	-	13	1419	c.1407A>T	c.(1405-1407)TGA>TGT	p.*469C	C16orf58_uc002ecg.2_5'Flank|C16orf58_uc002ech.1_Nonstop_Mutation_p.*207C	NM_022744	NP_073581	Q96GQ5	CP058_HUMAN	hypothetical protein LOC64755	469						integral to membrane				ovary(1)|breast(1)	2						TCTGGGCTGCTCACAAGACCT	0.587													95	234	---	---	---	---	PASS	A	31502156	A	A	31502156	4	1	54	1	0	0	0	0	0	0	0	0	1822	1564	54	5	3	5	C16orf58	16	31502156	Nonstop_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	96594	31502156	58852597	359	20469										
IRX6	79190	broad.mit.edu	37	chr16	55361550	55361550	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gccgaaagaacgcgacccggGagaccaccagtacactcaag	11	14	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:55361550G>T	uc002ehy.2	+	4	999	c.466G>T	c.(466-468)GAG>TAG	p.E156*	IRX6_uc002ehx.2_Nonsense_Mutation_p.E156*|IRX6_uc010ccb.1_RNA	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	156	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						CGCGACCCGGGAGACCACCAG	0.562													38	69	---	---	---	---	PASS	T	55361550	T	T	55361550	4	4	54	1	0	0	0	0	0	1	0	0	7848	1175	41	2	480	2	IRX6	16	55361550	Nonsense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	23859394	55361550	34993203	360	20470										
GPR114	221188	broad.mit.edu	37	chr16	57601428	57601428	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agagttgctggcacctcttaCgtacatctccctcgtgggct	10	13	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:57601428C>A	uc002elx.3	+	8	831	c.746C>A	c.(745-747)ACG>AAG	p.T249K	GPR114_uc010vhr.1_Missense_Mutation_p.T249K|GPR114_uc002ely.2_Missense_Mutation_p.T249K	NM_153837	NP_722579	Q8IZF4	GP114_HUMAN	G protein-coupled receptor 114 precursor	249	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)	1						GCACCTCTTACGTACATCTCC	0.607													73	88	---	---	---	---	PASS	A	57601428	A	A	57601428	3	1	54	1	0	0	0	0	1	0	0	0	6631	536	19	1	772	1	GPR114	16	57601428	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	2239878	57601428	32753325	361	20471										
CDH11	1009	broad.mit.edu	37	chr16	65022192	65022192	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tctggatctttagctttcacTcttcctacttcctccccagg	5	15	4	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:65022192T>C	uc002eoi.2	-	7	1301	c.867A>G	c.(865-867)AGA>AGG	p.R289R	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Silent_p.R289R|CDH11_uc010vin.1_Silent_p.R163R	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	289	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		TAGCTTTCACTCTTCCTACTT	0.403			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			49	277	---	---	---	---	PASS	C	65022192	C	C	65022192	2	2	54	1	0	0	0	0	0	0	0	1	3097	1548	54	5		5	CDH11	16	65022192	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	7420764	65022192	25332561	362	20472										
FAM65A	79567	broad.mit.edu	37	chr16	67572954	67572954	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aggggcagataagggagtccAagaggaattcccgcttggtg	16	7	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:67572954A>T	uc010vjp.1	+	4	475	c.379A>T	c.(379-381)AAG>TAG	p.K127*	FAM65A_uc010cei.1_5'UTR|FAM65A_uc002eth.2_Nonsense_Mutation_p.K107*|FAM65A_uc010cej.2_Nonsense_Mutation_p.K110*|FAM65A_uc002eti.1_Nonsense_Mutation_p.K70*|FAM65A_uc010vjq.1_Nonsense_Mutation_p.K121*|FAM65A_uc002etj.1_Nonsense_Mutation_p.K106*|FAM65A_uc002etk.2_Nonsense_Mutation_p.K106*	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	111	Potential.					cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		AAGGGAGTCCAAGAGGAATTC	0.587													43	148	---	---	---	---	PASS	T	67572954	T	T	67572954	4	4	54	1	0	0	0	0	0	1	0	0	5599	131	5	5	329	5	FAM65A	16	67572954	Nonsense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	2550762	67572954	22781799	363	20473										
CNTNAP4	85445	broad.mit.edu	37	chr16	76592434	76592434	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgctttgcatcactgccataGctgttcgcatttatcagcag	8	11	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr16:76592434G>C	uc002feu.1	+	26	4166	c.3781G>C	c.(3781-3783)GCT>CCT	p.A1261P	CNTNAP4_uc002fev.1_Missense_Mutation_p.A1125P|CNTNAP4_uc010chb.1_Missense_Mutation_p.A1188P|CNTNAP4_uc002fex.1_Missense_Mutation_p.A1264P	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	1261	Helical; (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						CACTGCCATAGCTGTTCGCAT	0.368													35	48	---	---	---	---	PASS	C	76592434	C	C	76592434	3	2	54	1	0	0	0	0	1	0	0	0	3649	971	34	4	3888	4	CNTNAP4	16	76592434	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	9019480	76592434	13762319	364	20474										
WDR81	124997	broad.mit.edu	37	chr17	1638985	1638985	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctgactctaccctgcgctttGtggactgcaggaagcctggt	12	12	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:1638985G>A	uc002fti.2	+	8	1879	c.1618G>A	c.(1618-1620)GTG>ATG	p.V540M	WDR81_uc002fth.2_Missense_Mutation_p.V716M|WDR81_uc010vqp.1_Missense_Mutation_p.V564M|WDR81_uc002ftj.2_Missense_Mutation_p.V1767M|WDR81_uc010vqq.1_Missense_Mutation_p.V398M	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	540										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CCTGCGCTTTGTGGACTGCAG	0.652													177	32	---	---	---	---	PASS	A	1638985	A	A	1638985	3	1	54	1	0	0	0	0	1	0	0	0	17327	1377	48	3	5391	3	WDR81	17	1638985	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08		1638985	79556225	365	20475										
AIPL1	23746	broad.mit.edu	37	chr17	6328914	6328914	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggatgactgtgcgggtggctCtgtgggtggctctgcgggag	21	7	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:6328914C>A	uc002gcp.2	-	6	1116	c.1021G>T	c.(1021-1023)GAG>TAG	p.E341*	AIPL1_uc002gcq.2_Nonsense_Mutation_p.E281*|AIPL1_uc002gcr.2_Nonsense_Mutation_p.E278*|AIPL1_uc010clk.2_Nonsense_Mutation_p.E319*|AIPL1_uc010cll.2_Nonsense_Mutation_p.E317*|AIPL1_uc002gcs.2_3'UTR	NM_014336	NP_055151	Q9NZN9	AIPL1_HUMAN	aryl hydrocarbon receptor interacting	341					protein farnesylation|protein folding|visual perception	cytoplasm|nucleus	farnesylated protein binding|unfolded protein binding				0				COAD - Colon adenocarcinoma(228;0.141)		gcgggtggctctgtgggtggc	0.264													273	85	---	---	---	---	PASS	A	6328914	A	A	6328914	4	1	54	1	0	0	0	0	0	1	0	0	436	922	32	2	137	2	AIPL1	17	6328914	Nonsense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	4689929	6328914	74866296	366	20476										
TP53	7157	broad.mit.edu	37	chr17	7577570	7577570	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cccatgcaggaactgttacaCatgtagttgtagtggatggt	12	7	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:7577570C>A	uc002gim.2	-	7	905	c.711G>T	c.(709-711)ATG>ATT	p.M237I	TP53_uc002gig.1_Missense_Mutation_p.M237I|TP53_uc002gih.2_Missense_Mutation_p.M237I|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.M105I|TP53_uc010cng.1_Missense_Mutation_p.M105I|TP53_uc002gii.1_Missense_Mutation_p.M105I|TP53_uc010cnh.1_Missense_Mutation_p.M237I|TP53_uc010cni.1_Missense_Mutation_p.M237I|TP53_uc002gij.2_Missense_Mutation_p.M237I|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.M144I|TP53_uc002gio.2_Missense_Mutation_p.M105I	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	237	|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		M -> L (in sporadic cancers; somatic mutation).|M -> K (in sporadic cancers; somatic mutation).|M -> I (in LFS; germline mutation and in sporadic cancers; somatic mutation).|M -> R (in sporadic cancers; somatic mutation).|M -> T (in sporadic cancers; somatic mutation).|M -> V (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.M237I(99)|p.M237K(8)|p.0?(7)|p.M237V(6)|p.M237fs*10(4)|p.M237R(3)|p.M237T(2)|p.M237L(2)|p.Y236_M237delYM(1)|p.Y236_M237insXX(1)|p.M237_N239delMCN(1)|p.H233fs*6(1)|p.M144I(1)|p.Y236_M243delYMCNSSCM(1)|p.C238fs*2(1)|p.V225fs*23(1)|p.M237_C238insX(1)|p.Y236_M237>*L(1)|p.H233_C242del10(1)|p.M237fs*1(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)		AACTGTTACACATGTAGTTGT	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			102	45	---	---	---	---	PASS	A	7577570	A	A	7577570	3	1	54	1	0	0	0	0	1	0	0	0	16378	478	17	3	579	3	TP53	17	7577570	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1248656	7577570	73617640	367	20477										
GAS7	8522	broad.mit.edu	37	chr17	9846539	9846539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acggtgccgttgccttggggGtccttcttatcagcctacaa	11	12	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:9846539G>T	uc002gmg.1	-	7	791	c.630C>A	c.(628-630)GAC>GAA	p.D210E	GAS7_uc010vvc.1_Missense_Mutation_p.D24E|GAS7_uc002gmh.1_Missense_Mutation_p.D70E|GAS7_uc010vvd.1_Missense_Mutation_p.D162E|GAS7_uc002gmi.2_Missense_Mutation_p.D146E|GAS7_uc002gmj.1_Missense_Mutation_p.D150E|GAS7_uc010coh.1_Missense_Mutation_p.D150E	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	210	FCH.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						TGCCTTGGGGGTCCTTCTTAT	0.527			T	MLL	AML*								12	362	---	---	---	---	PASS	T	9846539	T	T	9846539	3	4	54	1	0	0	0	0	1	0	0	0	6250	1252	44	3	832	3	GAS7	17	9846539	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	2268969	9846539	71348671	368	20478										
MYH13	8735	broad.mit.edu	37	chr17	10233743	10233743	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgaactccacccgcatcaggTaccccctgcacaccgcctgc	7	20	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:10233743T>G	uc002gmk.1	-	21	2486	c.2396A>C	c.(2395-2397)TAC>TCC	p.Y799S		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	799	IQ.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						CCGCATCAGGTACCCCCTGCA	0.547													40	10	---	---	---	---	PASS	G	10233743	G	G	10233743	3	3	54	1	0	0	0	0	1	0	0	0	10032	1638	57	5	3504	5	MYH13	17	10233743	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	387204	10233743	70961467	369	20479										
MYH1	4619	broad.mit.edu	37	chr17	10408812	10408812	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tccttcagggatagcacttgCatttaacaccttgtatctgt	7	10	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:10408812C>T	uc002gmo.2	-	20	2285	c.2191G>A	c.(2191-2193)GCA>ACA	p.A731T	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	731	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						ATAGCACTTGCATTTAACACC	0.423													12	116	---	---	---	---	PASS	T	10408812	T	T	10408812	3	4	54	1	0	0	0	0	1	0	0	0	10029	710	25	3	3712	3	MYH1	17	10408812	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	175069	10408812	70786398	370	20480										
SMARCE1	6605	broad.mit.edu	37	chr17	38788534	38788534	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cgaacgtctggcaccacactCtcactaagaatttcactgat	6	13	3	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:38788534C>T	uc002hux.2	-	8	751	c.627G>A	c.(625-627)GAG>GAA	p.E209E	SMARCE1_uc010wff.1_Silent_p.E174E|SMARCE1_uc010wfg.1_Silent_p.E139E|SMARCE1_uc002huy.2_Silent_p.E174E|SMARCE1_uc010wfh.1_Silent_p.E139E|SMARCE1_uc010wfi.1_Silent_p.E191E	NM_003079	NP_003070	Q969G3	SMCE1_HUMAN	SWI/SNF-related matrix-associated	209					chromatin modification|negative regulation of transcription, DNA-dependent|nervous system development|nucleosome disassembly|regulation of transcription from RNA polymerase II promoter	nBAF complex|npBAF complex|nuclear chromosome|SWI/SNF complex|transcriptional repressor complex	chromatin binding|DNA binding|N-acetyltransferase activity|protein binding|protein N-terminus binding|transcription coactivator activity				0		Breast(137;0.000812)				GCACCACACTCTCACTAAGAA	0.463													177	33	---	---	---	---	PASS	T	38788534	T	T	38788534	2	4	54	1	0	0	0	0	0	0	0	1	14780	912	32	2		2	SMARCE1	17	38788534	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	28379722	38788534	42406676	371	20481										
KRTAP1-1	81851	broad.mit.edu	37	chr17	39197320	39197320	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctgatacgggtgctcacagcTccactgctgccctcctggcc	10	17	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:39197320T>C	uc002hvw.1	-	1	394	c.330A>G	c.(328-330)GGA>GGG	p.G110G		NM_030967	NP_112229	Q07627	KRA11_HUMAN	keratin associated protein 1-1	110			Missing (in allele KAP1.7).			extracellular region|keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			TGCTCACAGCTCCACTGCTGC	0.642													58	20	---	---	---	---	PASS	C	39197320	C	C	39197320	2	2	54	1	0	0	0	0	0	0	0	1	8502	1538	54	5		5	KRTAP1-1	17	39197320	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	408786	39197320	41997890	372	20482										
KRTAP4-2	85291	broad.mit.edu	37	chr17	39334352	39334352	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tggtctggcagcagctgggaCggcagcagttctctaggcca	15	11	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:39334352C>T	uc002hwd.2	-	1	109	c.65G>A	c.(64-66)CGT>CAT	p.R22H		NM_033062	NP_149051	Q9BYR5	KRA42_HUMAN	keratin associated protein 4-2	22	2.|20 X 5 AA repeats OF C-C-[GRQVS]-[SPT]- [VSTQ].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			GCAGCTGGGACGGCAGCAGTT	0.627													49	315	---	---	---	---	PASS	T	39334352	T	T	39334352	3	4	54	1	0	0	0	0	1	0	0	0	8551	536	19	1	349	1	KRTAP4-2	17	39334352	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	137032	39334352	41860858	373	20483										
KRT34	3885	broad.mit.edu	37	chr17	39535405	39535405	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tagtgggcctcgctctccgtCagcgtgttttccagagagtc	12	12	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:39535405C>T	uc002hwm.2	-	6	1038	c.1026G>A	c.(1024-1026)CTG>CTA	p.L342L		NM_021013	NP_066293	O76011	KRT34_HUMAN	keratin 34	342	Rod.|Coil 2.				epidermis development	intermediate filament	protein binding|structural molecule activity			central_nervous_system(1)	1		Breast(137;0.000496)				CGCTCTCCGTCAGCGTGTTTT	0.562													140	27	---	---	---	---	PASS	T	39535405	T	T	39535405	2	4	54	1	0	0	0	0	0	0	0	1	8471	813	29	2		2	KRT34	17	39535405	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	201053	39535405	41659805	374	20484										
PLEKHH3	79990	broad.mit.edu	37	chr17	40826032	40826032	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tctcctcccagctctgcagcCtgggccagaggggagggaag	15	13	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:40826032C>T	uc002iau.2	-	3	686	c.219_splice	c.e3-1	p.R73_splice	PLEKHH3_uc010cyl.1_5'Flank|PLEKHH3_uc002iat.1_Splice_Site|PLEKHH3_uc002iav.2_Splice_Site|PLEKHH3_uc010cym.1_Splice_Site|PLEKHH3_uc002iaw.2_Splice_Site_p.R73_splice	NM_024927	NP_079203	Q7Z736	PKHH3_HUMAN	pleckstrin homology domain containing, family H						signal transduction	cytoskeleton				large_intestine(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.14)		GCTCTGCAGCCTGGGCCAGAG	0.657													51	43	---	---	---	---	PASS	T	40826032	T	T	40826032	5	4	54	1	0	0	0	0	0	0	1	0	12078	695	24	3	2207	3	PLEKHH3	17	40826032	Splice_Site	SNP	C	TCGA-33-4532-01A-01D-1267-08	1290627	40826032	40369178	375	20485										
EZH1	2145	broad.mit.edu	37	chr17	40880863	40880863	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctttgcacccatatttgcctGaagccgtttaagttgtcgaa	8	10	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:40880863G>T	uc002iaz.2	-	3	242	c.97C>A	c.(97-99)CAG>AAG	p.Q33K	EZH1_uc002iba.2_Missense_Mutation_p.Q33K|EZH1_uc010wgt.1_Intron|EZH1_uc010wgu.1_Missense_Mutation_p.Q39K|EZH1_uc010wgv.1_Missense_Mutation_p.Q33K|EZH1_uc010wgw.1_5'UTR|EZH1_uc010cyp.2_5'UTR|EZH1_uc010cyq.2_Missense_Mutation_p.Q33K|EZH1_uc010cys.2_Missense_Mutation_p.Q33K	NM_001991	NP_001982	Q92800	EZH1_HUMAN	enhancer of zeste homolog 1	33					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	chromatin binding|DNA binding			ovary(3)	3		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0784)		ATATTTGCCTGAAGCCGTTTA	0.348													166	48	---	---	---	---	PASS	T	40880863	T	T	40880863	3	4	54	1	0	0	0	0	1	0	0	0	5333	1299	45	2	2222	2	EZH1	17	40880863	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	54831	40880863	40314347	376	20486										
GPATCH8	23131	broad.mit.edu	37	chr17	42477692	42477692	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tttttctgttcctttagttcTggcatctttgttccttgaaa	6	8	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:42477692T>C	uc002igw.1	-	8	1817	c.1753A>G	c.(1753-1755)AGA>GGA	p.R585G	GPATCH8_uc002igv.1_Missense_Mutation_p.R507G|GPATCH8_uc010wiz.1_Missense_Mutation_p.R507G	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	585						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)		CCTTTAGTTCTGGCATCTTTG	0.403											OREG0024461	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	179	---	---	---	---	PASS	C	42477692	C	C	42477692	3	2	54	1	0	0	0	0	1	0	0	0	6594	1588	55	5	2759	5	GPATCH8	17	42477692	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	1596829	42477692	38717518	377	20487										
KIF2B	84643	broad.mit.edu	37	chr17	51900535	51900535	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	atccacctcgctgtggtcacGgagatcaacagagaaaacta	9	11	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:51900535G>T	uc002iua.2	+	1	297	c.141G>T	c.(139-141)ACG>ACT	p.T47T		NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	47					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CTGTGGTCACGGAGATCAACA	0.527													149	61	---	---	---	---	PASS	T	51900535	T	T	51900535	2	4	54	1	0	0	0	0	0	0	0	1	8298	1103	39	1		1	KIF2B	17	51900535	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	9422843	51900535	29294675	378	20488										
KIF2B	84643	broad.mit.edu	37	chr17	51902274	51902274	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggaaaacatccaggagagagCtggtggagtacaccatgata	13	7	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:51902274C>G	uc002iua.2	+	1	2036	c.1880C>G	c.(1879-1881)GCT>GGT	p.A627G	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	627					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CAGGAGAGAGCTGGTGGAGTA	0.438													179	38	---	---	---	---	PASS	G	51902274	G	G	51902274	3	3	54	1	0	0	0	0	1	0	0	0	8298	797	28	4	1882	4	KIF2B	17	51902274	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1739	51902274	29292936	379	20489										
YPEL2	388403	broad.mit.edu	37	chr17	57430779	57430779	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcagcagcaccaatggtgaaGatgacaagatcgaagacttt	10	8	1	5			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:57430779G>C	uc002ixm.1	+	2	337	c.9G>C	c.(7-9)AAG>AAC	p.K3N	YPEL2_uc002ixl.1_Missense_Mutation_p.K3N	NM_001005404	NP_001005404	Q96QA6	YPEL2_HUMAN	yippee-like 2	3						nucleolus					0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					CAATGGTGAAGATGACAAGAT	0.552													24	173	---	---	---	---	PASS	C	57430779	C	C	57430779	3	2	54	1	0	0	0	0	1	0	0	0	17487	933	33	2	11	2	YPEL2	17	57430779	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	5528505	57430779	23764431	380	20490										
CCDC46	201134	broad.mit.edu	37	chr17	64179375	64179375	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cacaaagtgatcaaattctgCatccagcttctcccattttt	4	12	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:64179375C>A	uc002jfl.2	-	2	262	c.43G>T	c.(43-45)GCA>TCA	p.A15S	CCDC46_uc002jfm.2_Missense_Mutation_p.A15S|CCDC46_uc010dep.2_Missense_Mutation_p.A15S	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	15						centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			TCAAATTCTGCATCCAGCTTC	0.264													106	39	---	---	---	---	PASS	A	64179375	A	A	64179375	3	1	54	1	0	0	0	0	1	0	0	0	2817	710	25	3	3094	3	CCDC46	17	64179375	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	6748596	64179375	17015835	381	20491										
ABCA9	10350	broad.mit.edu	37	chr17	66979855	66979855	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aacacctgtgtctacctttcCtgctgagcagcctgggggaa	11	12	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:66979855C>A	uc002jhu.2	-	36	4778	c.4635G>T	c.(4633-4635)CAG>CAT	p.Q1545H	ABCA9_uc010dez.2_Missense_Mutation_p.Q1507H	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1545					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					TCTACCTTTCCTGCTGAGCAG	0.458													181	38	---	---	---	---	PASS	A	66979855	A	A	66979855	3	1	54	1	0	0	0	0	1	0	0	0	39	680	24	3	255	3	ABCA9	17	66979855	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	2800480	66979855	14215355	382	20492										
GPRC5C	55890	broad.mit.edu	37	chr17	72436967	72436967	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	catggatgagccggttgcagGtgggtctctgtggatgcccc	16	10	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:72436967G>T	uc002jks.2	+	1	1090	c.1051_splice	c.e1+1	p.A351_splice	GPRC5C_uc002jkp.2_Splice_Site_p.A396_splice|GPRC5C_uc002jkq.2_Intron|GPRC5C_uc002jkr.2_Splice_Site_p.A363_splice|GPRC5C_uc002jkt.2_Splice_Site_p.A351_splice|GPRC5C_uc002jku.2_5'Flank	NM_018653	NP_061123	Q9NQ84	GPC5C_HUMAN	G protein-coupled receptor family C, group 5,							cytoplasmic vesicle membrane|integral to plasma membrane	G-protein coupled receptor activity|protein binding			ovary(2)|prostate(1)|central_nervous_system(1)|pancreas(1)	5						CCGGTTGCAGGTGGGTCTCTG	0.552													14	189	---	---	---	---	PASS	T	72436967	T	T	72436967	5	4	54	1	0	0	0	0	0	0	1	0	6726	1275	44	3	1201	3	GPRC5C	17	72436967	Splice_Site	SNP	G	TCGA-33-4532-01A-01D-1267-08	5457112	72436967	8758243	383	20493										
FDXR	2232	broad.mit.edu	37	chr17	72860983	72860983	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cttgcaggggtccacgccggCccactagccacactgtcttc	10	17	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr17:72860983C>A	uc002jly.2	-	7	767	c.680G>T	c.(679-681)GGC>GTC	p.G227V	FDXR_uc010wri.1_Missense_Mutation_p.G175V|FDXR_uc010wrj.1_Missense_Mutation_p.G225V|FDXR_uc002jlw.2_5'UTR|FDXR_uc002jlx.2_Missense_Mutation_p.G233V|FDXR_uc002jmc.2_Missense_Mutation_p.G228V|FDXR_uc010wrk.1_Missense_Mutation_p.G258V|FDXR_uc010wrl.1_Missense_Mutation_p.G270V|FDXR_uc002jma.2_Missense_Mutation_p.G228V|FDXR_uc010wrm.1_Missense_Mutation_p.G187V|FDXR_uc002jlz.2_Missense_Mutation_p.G219V|FDXR_uc002jmb.2_RNA	NM_024417	NP_077728	P22570	ADRO_HUMAN	ferredoxin reductase isoform 1 precursor	227					cholesterol metabolic process|electron transport chain|steroid biosynthetic process|transport	mitochondrial matrix	ferredoxin-NADP+ reductase activity|protein binding				0	all_lung(278;0.172)|Lung NSC(278;0.207)					TCCACGCCGGCCCACTAGCCA	0.612											OREG0024720	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	207	---	---	---	---	PASS	A	72860983	A	A	72860983	3	1	54	1	0	0	0	0	1	0	0	0	5807	739	26	3	819	3	FDXR	17	72860983	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	424016	72860983	8334227	384	20494										
COLEC12	81035	broad.mit.edu	37	chr18	348087	348087	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aattttttcaggtcactttcCactgctgtgagcttgtcatc	7	10	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr18:348087C>G	uc002kkm.2	-	4	473	c.258G>C	c.(256-258)GTG>GTC	p.V86V		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	86	Potential.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				GGTCACTTTCCACTGCTGTGA	0.393													41	113	---	---	---	---	PASS	G	348087	G	G	348087	2	3	54	1	0	0	0	0	0	0	0	1	3712	581	21	4		4	COLEC12	18	348087	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08		348087	77729161	385	20495										
LAMA1	284217	broad.mit.edu	37	chr18	6999568	6999568	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcaccgtggacagagccgtgCgggttgcagtcacacttctg	13	12	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr18:6999568C>A	uc002knm.2	-	32	4633	c.4539G>T	c.(4537-4539)CCG>CCT	p.P1513P	LAMA1_uc010wzj.1_Silent_p.P989P	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1513	Laminin EGF-like 17.			P -> R (in Ref. 1).	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)	CAGAGCCGTGCGGGTTGCAGT	0.592													22	45	---	---	---	---	PASS	A	6999568	A	A	6999568	2	1	54	1	0	0	0	0	0	0	0	1	8605	755	27	1		1	LAMA1	18	6999568	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	6651481	6999568	71077680	386	20496										
CEP192	55125	broad.mit.edu	37	chr18	13048935	13048935	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggtgattctatgcttaggatCagcaccattgcttcagccat	9	10	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr18:13048935C>T	uc010xac.1	+	16	2225	c.2145C>T	c.(2143-2145)ATC>ATT	p.I715I	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Silent_p.I240I|CEP192_uc002kru.2_RNA|CEP192_uc002krs.1_Silent_p.I456I	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	715										ovary(4)|pancreas(1)	5						TGCTTAGGATCAGCACCATTG	0.403													60	146	---	---	---	---	PASS	T	13048935	T	T	13048935	2	4	54	1	0	0	0	0	0	0	0	1	3251	816	29	2		2	CEP192	18	13048935	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	6049367	13048935	65028313	387	20497										
NPC1	4864	broad.mit.edu	37	chr18	21125076	21125076	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agcagtgaaggaaatggtcaGattgggattcttgtagtttt	13	3	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr18:21125076G>C	uc002kum.3	-	12	2069	c.1795C>G	c.(1795-1797)CTG>GTG	p.L599V	NPC1_uc010xaz.1_Missense_Mutation_p.L332V|NPC1_uc010xba.1_Missense_Mutation_p.L444V	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	599					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					GAAATGGTCAGATTGGGATTC	0.328													7	157	---	---	---	---	PASS	C	21125076	C	C	21125076	3	2	54	1	0	0	0	0	1	0	0	0	10570	933	33	2	2097	2	NPC1	18	21125076	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	8076141	21125076	56952172	388	20498										
RNF138	51444	broad.mit.edu	37	chr18	29703512	29703512	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aaacatccacatctgataacAcagaaacttaccaagagaat	4	10	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr18:29703512A>G	uc002kxg.2	+	5	863	c.424A>G	c.(424-426)ACA>GCA	p.T142A	RNF138_uc002kxh.2_Missense_Mutation_p.T48A	NM_016271	NP_057355	Q8WVD3	RN138_HUMAN	ring finger protein 138 isoform 1	142					Wnt receptor signaling pathway	intracellular	ligase activity|protein kinase binding|zinc ion binding				0						ATCTGATAACACAGAAACTTA	0.308													11	90	---	---	---	---	PASS	G	29703512	G	G	29703512	3	3	54	1	0	0	0	0	1	0	0	0	13441	159	6	5	438	5	RNF138	18	29703512	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	8578436	29703512	48373736	389	20499										
MBD1	4152	broad.mit.edu	37	chr18	47801364	47801364	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cactagctcgtcctcgtctaCacagtaatagatgaactcgg	8	12	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr18:47801364C>T	uc010dow.1	-	10	1398	c.961G>A	c.(961-963)GTA>ATA	p.V321I	MBD1_uc002lef.2_Missense_Mutation_p.V128I|MBD1_uc002leg.2_Missense_Mutation_p.V272I|MBD1_uc010xdi.1_Missense_Mutation_p.V372I|MBD1_uc002leh.3_Missense_Mutation_p.V321I|MBD1_uc002len.2_Missense_Mutation_p.V321I|MBD1_uc002lei.3_Missense_Mutation_p.V321I|MBD1_uc002lej.3_Missense_Mutation_p.V321I|MBD1_uc002lek.3_Missense_Mutation_p.V272I|MBD1_uc002lel.3_Intron|MBD1_uc002lem.3_Missense_Mutation_p.V321I|MBD1_uc010xdj.1_Missense_Mutation_p.V321I|MBD1_uc010xdk.1_Missense_Mutation_p.V346I|MBD1_uc010dox.1_Intron|MBD1_uc002leo.2_Missense_Mutation_p.V321I	NM_015846	NP_056671	Q9UIS9	MBD1_HUMAN	methyl-CpG binding domain protein 1 isoform 1	321					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|nuclear speck	methyl-CpG binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TCCTCGTCTACACAGTAATAG	0.567													25	136	---	---	---	---	PASS	T	47801364	T	T	47801364	3	4	54	1	0	0	0	0	1	0	0	0	9342	478	17	3	1078	3	MBD1	18	47801364	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	18097852	47801364	30275884	390	20500										
ATP8B1	5205	broad.mit.edu	37	chr18	55319349	55319349	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgccaaaataaagtgcaatgCttccaaaaattgaaaaagca	6	7	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr18:55319349C>T	uc002lgw.2	-	25	3317	c.3317G>A	c.(3316-3318)AGC>AAC	p.S1106N	uc002lgu.1_Intron|uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	1106	Helical; (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				AAGTGCAATGCTTCCAAAAAT	0.358									Byler_disease				40	72	---	---	---	---	PASS	T	55319349	T	T	55319349	3	4	54	1	0	0	0	0	1	0	0	0	1194	797	28	3	450	3	ATP8B1	18	55319349	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	7517985	55319349	22757899	391	20501										
SALL3	27164	broad.mit.edu	37	chr18	76753205	76753205	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gggcaagccgcccaatgtgtCggtgttcgagcccaaagcca	13	13	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr18:76753205C>T	uc002lmt.2	+	2	1214	c.1214C>T	c.(1213-1215)TCG>TTG	p.S405L	SALL3_uc010dra.2_Missense_Mutation_p.S12L	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	405					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CCCAATGTGTCGGTGTTCGAG	0.647													10	52	---	---	---	---	PASS	T	76753205	T	T	76753205	3	4	54	1	0	0	0	0	1	0	0	0	13812	893	31	2	1220	2	SALL3	18	76753205	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	21433856	76753205	1324043	392	20502										
SIRT6	51548	broad.mit.edu	37	chr19	4179132	4179132	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgagcgcacatggagcccgtCcacgttctggctgaccagga	13	13	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:4179132C>T	uc002lzo.2	-	3	406	c.346G>A	c.(346-348)GAC>AAC	p.D116N	SIRT6_uc002lzn.2_Missense_Mutation_p.D44N|SIRT6_uc002lzp.2_Intron|SIRT6_uc010xid.1_Missense_Mutation_p.D44N|SIRT6_uc002lzq.2_Missense_Mutation_p.D116N|SIRT6_uc002lzr.2_Missense_Mutation_p.D44N	NM_016539	NP_057623	Q8N6T7	SIRT6_HUMAN	sirtuin 6	116	NAD (By similarity).|Deacetylase sirtuin-type.				chromatin silencing|protein ADP-ribosylation	nuclear telomeric heterochromatin|nucleoplasm	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity|NAD+ binding|NAD-dependent histone deacetylase activity (H3-K9 specific)|protein binding|zinc ion binding			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.023)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGAGCCCGTCCACGTTCTGG	0.657													19	12	---	---	---	---	PASS	T	4179132	T	T	4179132	3	4	54	1	0	0	0	0	1	0	0	0	14342	855	30	2	745	2	SIRT6	19	4179132	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08		4179132	54949851	393	20503										
KDM4B	23030	broad.mit.edu	37	chr19	5131396	5131396	+	Missense_Mutation	SNP	A	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gggcaaggcagccttcaaccAggagcacgtgtcctgccagc							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:5131396A>T	uc002mbq.3	+	12	1851	c.1625A>T	c.(1624-1626)CAG>CTG	p.Q542L	KDM4B_uc010xim.1_Missense_Mutation_p.Q576L|KDM4B_uc002mbr.3_Missense_Mutation_p.Q300L	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	542					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						GCCTTCAACCAGGAGCACGTG	0.652													63	25	---	---	---	---	PASS	T	5131396	T	T	5131396	3	4	54	1	0	0	0	0	1	0	0	0	8129	188	7	5	1663	5	KDM4B	19	5131396	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	952264	5131396	53997587	394	20504	465	2								
KDM4B	23030	broad.mit.edu	37	chr19	5131397	5131397	+	Missense_Mutation	SNP	G	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggcaaggcagccttcaaccaGgagcacgtgtcctgccagca							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:5131397G>T	uc002mbq.3	+	12	1852	c.1626G>T	c.(1624-1626)CAG>CAT	p.Q542H	KDM4B_uc010xim.1_Missense_Mutation_p.Q576H|KDM4B_uc002mbr.3_Missense_Mutation_p.Q300H	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	542					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						CCTTCAACCAGGAGCACGTGT	0.652													62	25	---	---	---	---	PASS	T	5131397	T	T	5131397	3	4	54	1	0	0	0	0	1	0	0	0	8129	991	35	3	1664	3	KDM4B	19	5131397	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1	5131397	53997586	395	20505	465	2								
TUBB4	10382	broad.mit.edu	37	chr19	6495567	6495567	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	catgcggccccggaacacggCggccacggtcaggtagcggc	16	15	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:6495567C>T	uc002mfg.1	-	4	1050	c.943G>A	c.(943-945)GCC>ACC	p.A315T	TUBB4_uc002mff.1_Missense_Mutation_p.A243T|MIR220B_hsa-mir-220b|MI0005529_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	315					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		CGGAACACGGCGGCCACGGTC	0.647													5	164	---	---	---	---	PASS	T	6495567	T	T	6495567	3	4	54	1	0	0	0	0	1	0	0	0	16755	768	27	1	395	1	TUBB4	19	6495567	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1364170	6495567	52633416	396	20506										
FBN3	84467	broad.mit.edu	37	chr19	8136935	8136935	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgcagcacccatgtcacctgGtggtccctgtgggcactgcg	13	14	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:8136935G>A	uc002mjf.2	-	62	8106	c.8085C>T	c.(8083-8085)CAC>CAT	p.H2695H	FBN3_uc002mje.2_Silent_p.H491H	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2695						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						ATGTCACCTGGTGGTCCCTGT	0.617													193	88	---	---	---	---	PASS	A	8136935	A	A	8136935	2	1	54	1	0	0	0	0	0	0	0	1	5704	1252	44	3		3	FBN3	19	8136935	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	1641368	8136935	50992048	397	20507										
OR7G2	390882	broad.mit.edu	37	chr19	9213755	9213755	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aagaagtacatgggggtgtgGaggtgagagtcagagatgac	18	3	1	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:9213755G>T	uc010xkk.1	-	1	228	c.228C>A	c.(226-228)CTC>CTA	p.L76L		NM_001005193	NP_001005193	Q8NG99	OR7G2_HUMAN	olfactory receptor, family 7, subfamily G,	55	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGGGGGTGTGGAGGTGAGAGT	0.502													65	52	---	---	---	---	PASS	T	9213755	T	T	9213755	2	4	54	1	0	0	0	0	0	0	0	1	11223	1161	41	2		2	OR7G2	19	9213755	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	1076820	9213755	49915228	398	20508										
KEAP1	9817	broad.mit.edu	37	chr19	10600448	10600449	+	Frame_Shift_Ins	INS	-	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccacggcataaaggagacgaINSttgaggacagccacgcccac							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:10600448_10600449insT	uc002moq.1	-	4	1562_1563	c.1406_1407insA	c.(1405-1407)AATfs	p.N469fs	KEAP1_uc002mop.1_Frame_Shift_Ins_p.N187fs|KEAP1_uc002mor.1_Frame_Shift_Ins_p.N469fs	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	469	Kelch 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			AAAGGAGACGATTGAGGACAGC	0.554													38	55	---	---	---	---		T	10600449	T	T	10600448	7	5	54	1	0	1	1	0	0	0	0	0	8141	330	12	0	479	0	KEAP1	19	10600448	Frame_Shift_Ins	INS	-	TCGA-33-4532-01A-01D-1267-08	1386693	10600448	48528535	399	20509										
OR10H1	26539	broad.mit.edu	37	chr19	15918646	15918646	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggtgtagaggatctcggagaCggagagggcgcacaggaaga	19	6	1	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:15918646C>T	uc002nbq.2	-	1	291	c.202G>A	c.(202-204)GTC>ATC	p.V68I		NM_013940	NP_039228	Q9Y4A9	O10H1_HUMAN	olfactory receptor, family 10, subfamily H,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATCTCGGAGACGGAGAGGGCG	0.642													174	54	---	---	---	---	PASS	T	15918646	T	T	15918646	3	4	54	1	0	0	0	0	1	0	0	0	10905	536	19	1	758	1	OR10H1	19	15918646	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	5318198	15918646	43210337	400	20510										
KLF2	10365	broad.mit.edu	37	chr19	16437684	16437684	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	caggtgagaagccctaccacTgcaactgggacggctgcggc	14	13	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:16437684T>C	uc002ndw.2	+	3	994	c.910T>C	c.(910-912)TGC>CGC	p.C304R		NM_016270	NP_057354	Q9Y5W3	KLF2_HUMAN	Kruppel-like factor	304	C2H2-type 2.				positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCCCTACCACTGCAACTGGGA	0.647													33	19	---	---	---	---	PASS	C	16437684	C	C	16437684	3	2	54	1	0	0	0	0	1	0	0	0	8346	1580	55	5	920	5	KLF2	19	16437684	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	519038	16437684	42691299	401	20511										
ZNF208	7757	broad.mit.edu	37	chr19	22154271	22154271	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tttctctccagtatgaattaCcttatgttttgcaaggattg	7	7	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:22154271C>A	uc002nqp.2	-	6	3330	c.3181G>T	c.(3181-3183)GTA>TTA	p.V1061L	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GTATGAATTACCTTATGTTTT	0.363													53	54	---	---	---	---	PASS	A	22154271	A	A	22154271	3	1	54	1	0	0	0	0	1	0	0	0	17763	507	18	3	281	3	ZNF208	19	22154271	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	5716587	22154271	36974712	402	20512										
ZNF536	9745	broad.mit.edu	37	chr19	30934951	30934951	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cgagaagcccttcaagtgccCgtactgcgaccacagggcgg	13	14	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:30934951C>G	uc002nsu.1	+	2	620	c.482C>G	c.(481-483)CCG>CGG	p.P161R	ZNF536_uc010edd.1_Missense_Mutation_p.P161R	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	161	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TTCAAGTGCCCGTACTGCGAC	0.657													58	116	---	---	---	---	PASS	G	30934951	G	G	30934951	3	3	54	1	0	0	0	0	1	0	0	0	17971	652	23	4	484	4	ZNF536	19	30934951	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	8780680	30934951	28194032	403	20513										
ZNF570	148268	broad.mit.edu	37	chr19	37975309	37975309	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cagccagagatcaaatcttgTtcaacatcagaggattcata	7	9	5	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:37975309T>C	uc002ogk.1	+	5	1314	c.785T>C	c.(784-786)GTT>GCT	p.V262A	ZNF570_uc010efl.1_Missense_Mutation_p.V318A|ZNF570_uc010xtr.1_Missense_Mutation_p.V59A	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	262	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCAAATCTTGTTCAACATCAG	0.398													25	286	---	---	---	---	PASS	C	37975309	C	C	37975309	3	2	54	1	0	0	0	0	1	0	0	0	17999	1725	60	5	799	5	ZNF570	19	37975309	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	7040358	37975309	21153674	404	20514										
RYR1	6261	broad.mit.edu	37	chr19	38964024	38964024	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cctgccacctcaggtatcccGagtggacggcactgtggaca	12	14	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:38964024G>T	uc002oit.2	+	28	3903	c.3773G>T	c.(3772-3774)CGA>CTA	p.R1258L	RYR1_uc002oiu.2_Missense_Mutation_p.R1258L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1258	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CAGGTATCCCGAGTGGACGGC	0.612													124	572	---	---	---	---	PASS	T	38964024	T	T	38964024	3	4	54	1	0	0	0	0	1	0	0	0	13768	1058	37	2	3883	2	RYR1	19	38964024	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	988715	38964024	20164959	405	20515										
SARS2	54938	broad.mit.edu	37	chr19	39409109	39409109	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccaggttgagatctttgaagCgggcagggtcgatgttgtaa	15	6	1	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:39409109C>T	uc002oka.2	-	9	1029	c.869G>A	c.(868-870)CGC>CAC	p.R290H	SARS2_uc002ojz.2_Missense_Mutation_p.R100H|SARS2_uc010xup.1_Missense_Mutation_p.R292H|SARS2_uc002okb.2_Missense_Mutation_p.R290H|SARS2_uc010xuq.1_Missense_Mutation_p.R290H|SARS2_uc010xur.1_RNA	NM_017827	NP_060297	Q9NP81	SYSM_HUMAN	seryl-tRNA synthetase 2 isoform b precursor	290					seryl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|serine-tRNA ligase activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(60;2.74e-06)|all_epithelial(25;4.36e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			ATCTTTGAAGCGGGCAGGGTC	0.597													17	397	---	---	---	---	PASS	T	39409109	T	T	39409109	3	4	54	1	0	0	0	0	1	0	0	0	13845	768	27	1	719	1	SARS2	19	39409109	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	445085	39409109	19719874	406	20516										
IRGC	56269	broad.mit.edu	37	chr19	44223450	44223450	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcgccacgctggcctgctgtCgctccccgacatctcgctgg	12	18	1	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:44223450C>T	uc002oxh.2	+	2	887	c.740C>T	c.(739-741)TCG>TTG	p.S247L		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	247						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				GGCCTGCTGTCGCTCCCCGAC	0.657													28	44	---	---	---	---	PASS	T	44223450	T	T	44223450	3	4	54	1	0	0	0	0	1	0	0	0	7838	893	31	2	742	2	IRGC	19	44223450	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	4814341	44223450	14905533	407	20517										
ZNF283	284349	broad.mit.edu	37	chr19	44351978	44351978	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cctatgaatgcaaggaatgtGggaaggcttttaattgcgga	13	5	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:44351978G>T	uc002oxr.3	+	7	1493	c.1225G>T	c.(1225-1227)GGG>TGG	p.G409W	ZNF283_uc002oxp.3_Missense_Mutation_p.G270W	NM_181845	NP_862828	Q8N7M2	ZN283_HUMAN	zinc finger protein 283	409	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				CAAGGAATGTGGGAAGGCTTT	0.373													60	174	---	---	---	---	PASS	T	44351978	T	T	44351978	3	4	54	1	0	0	0	0	1	0	0	0	17817	1348	47	3	1239	3	ZNF283	19	44351978	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	128528	44351978	14777005	408	20518										
BCL3	602	broad.mit.edu	37	chr19	45262824	45262824	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ccctttgctggggtcctccgAggccctggccggccggtgcc	15	17	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:45262824A>T	uc010xxe.1	+	9	1387	c.1317A>T	c.(1315-1317)CGA>CGT	p.R439R		NM_005178	NP_005169	P20749	BCL3_HUMAN	B-cell CLL/lymphoma 3	439	Pro/Ser-rich.				DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|I-kappaB kinase/NF-kappaB cascade|maintenance of protein location in nucleus|negative regulation of apoptosis|negative regulation of interleukin-8 biosynthetic process|negative regulation of transcription, DNA-dependent|positive regulation of translation|protein import into nucleus, translocation|regulation of DNA binding|regulation of NF-kappaB import into nucleus|response to UV-C|response to virus	Bcl3-Bcl10 complex|Bcl3/NF-kappaB2 complex|nucleus|perinuclear region of cytoplasm	protein binding, bridging|transcription factor binding			ovary(1)|lung(1)	2	Lung NSC(12;0.000698)|all_lung(12;0.002)	Ovarian(192;0.0728)				GGGTCCTCCGAGGCCCTGGCC	0.697			T	IGH@	CLL 								86	262	---	---	---	---	PASS	T	45262824	T	T	45262824	2	4	54	1	0	0	0	0	0	0	0	1	1375	291	11	5		5	BCL3	19	45262824	Silent	SNP	A	TCGA-33-4532-01A-01D-1267-08	910846	45262824	13866159	409	20519										
PPP5C	5536	broad.mit.edu	37	chr19	46878998	46878998	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtggtggactcgctggacatCgagagcatgagtgagtcagg	17	7	1	3	rs144237776		TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:46878998C>T	uc002pem.2	+	3	561	c.501C>T	c.(499-501)ATC>ATT	p.I167I	PPP5C_uc010xya.1_Silent_p.I34I|PPP5C_uc002pen.2_Silent_p.I167I	NM_006247	NP_006238	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	167					mitosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein dephosphorylation|transcription, DNA-dependent	Golgi apparatus|nucleus	metal ion binding|protein binding|protein serine/threonine phosphatase activity|signal transducer activity			lung(1)|pancreas(1)	2		Ovarian(192;0.0731)|all_neural(266;0.196)		OV - Ovarian serous cystadenocarcinoma(262;0.000196)|all cancers(93;0.00192)|GBM - Glioblastoma multiforme(486;0.0499)|Epithelial(262;0.0504)		CGCTGGACATCGAGAGCATGA	0.612													4	13	---	---	---	---	PASS	T	46878998	T	T	46878998	2	4	54	1	0	0	0	0	0	0	0	1	12406	874	31	2		2	PPP5C	19	46878998	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	1616174	46878998	12249985	410	20520										
CTU1	90353	broad.mit.edu	37	chr19	51602334	51602334	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcccccgccccgggccagccGccccgcgtcgccccgtagga	13	23	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:51602334G>A	uc010eop.2	-	3	636	c.571C>T	c.(571-573)CGG>TGG	p.R191W		NM_145232	NP_660275	Q7Z7A3	CTU1_HUMAN	ATP binding domain 3	191					tRNA thio-modification|tRNA wobble uridine modification	cytosol	ATP binding|protein binding|transferase activity|tRNA binding				0						cgggccagccgccccgcgtcg	0.373													6	6	---	---	---	---	PASS	A	51602334	A	A	51602334	3	1	54	1	0	0	0	0	1	0	0	0	4047	1086	38	1	479	1	CTU1	19	51602334	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	4723336	51602334	7526649	411	20521										
SIGLEC10	89790	broad.mit.edu	37	chr19	51920156	51920156	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	agatgaccgtcaccggctgcCcgggctccagggtctcgggg	16	14	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:51920156C>T	uc002pwo.2	-	3	1086	c.470G>A	c.(469-471)GGG>GAG	p.G157E	SIGLEC10_uc002pwp.2_Intron|SIGLEC10_uc002pwq.2_Intron|SIGLEC10_uc002pwr.2_Missense_Mutation_p.G157E|SIGLEC10_uc010ycy.1_Missense_Mutation_p.G157E|SIGLEC10_uc010ycz.1_Intron|SIGLEC10_uc010eow.2_5'UTR|SIGLEC10_uc002pws.1_Intron	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	157	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		CACCGGCTGCCCGGGCTCCAG	0.612													81	151	---	---	---	---	PASS	T	51920156	T	T	51920156	3	4	54	1	0	0	0	0	1	0	0	0	14306	623	22	3	1659	3	SIGLEC10	19	51920156	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	317822	51920156	7208827	412	20522										
ZNF816A	125893	broad.mit.edu	37	chr19	53453974	53453974	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aattacaagggctgaatttcGaccaaaagtcttgccacact	7	10	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:53453974G>T	uc002qal.1	-	5	1355	c.1054C>A	c.(1054-1056)CGA>AGA	p.R352R	ZNF321_uc010eqj.2_Intron|ZNF321_uc002qak.1_Intron|ZNF816A_uc002qam.1_Silent_p.R336R	NM_001031665	NP_001026835	Q0VGE8	ZN816_HUMAN	zinc finger protein 816A	352	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0313)		GCTGAATTTCGACCAAAAGTC	0.423													71	410	---	---	---	---	PASS	T	53453974	T	T	53453974	2	4	54	1	0	0	0	0	0	0	0	1	18174	1066	37	2		2	ZNF816A	19	53453974	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	1533818	53453974	5675009	413	20523										
VSTM1	284415	broad.mit.edu	37	chr19	54545450	54545450	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tggattcctcagatgatgaaCctacaaaaaatgcaggagga	10	7	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:54545450C>A	uc002qcw.3	-	6	664	c.488G>T	c.(487-489)AGT>ATT	p.S163I	VSTM1_uc010erb.2_Intron|VSTM1_uc002qcx.3_Missense_Mutation_p.G132V	NM_198481	NP_940883	Q6UX27	VSTM1_HUMAN	V-set and transmembrane domain containing 1	163						integral to membrane					0	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.165)		AGATGATGAACCTACAAAAAA	0.493													99	128	---	---	---	---	PASS	A	54545450	A	A	54545450	3	1	54	1	0	0	0	0	1	0	0	0	17225	521	18	3	238	3	VSTM1	19	54545450	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1091476	54545450	4583533	414	20524										
LILRB5	10990	broad.mit.edu	37	chr19	54759149	54759149	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaacccgctgggctcctcacCtgcgatcaggatgtccaggg	13	14	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:54759149C>T	uc002qex.2	-	5	1063	c.952G>A	c.(952-954)GGA>AGA	p.G318R	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.G309R|LILRB5_uc002qey.2_Missense_Mutation_p.G318R|LILRB5_uc002qez.2_Missense_Mutation_p.G218R|LILRB5_uc002qfa.1_Missense_Mutation_p.G208R|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	318	Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GGCTCCTCACCTGCGATCAGG	0.677													46	69	---	---	---	---	PASS	T	54759149	T	T	54759149	3	4	54	1	0	0	0	0	1	0	0	0	8794	695	24	3	859	3	LILRB5	19	54759149	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	213699	54759149	4369834	415	20525										
NLRP7	199713	broad.mit.edu	37	chr19	55452951	55452951	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcagcctcttccacctcagaCcatggggtcttctgtagcac	8	15	5	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:55452951C>T	uc002qih.3	-	2	205	c.129G>A	c.(127-129)TGG>TGA	p.W43*	NLRP7_uc002qig.3_Nonsense_Mutation_p.W43*|NLRP7_uc002qii.3_Nonsense_Mutation_p.W43*|NLRP7_uc010esk.2_Nonsense_Mutation_p.W43*|NLRP7_uc010esl.2_Nonsense_Mutation_p.W71*	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	43	DAPIN.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CCACCTCAGACCATGGGGTCT	0.473													34	185	---	---	---	---	PASS	T	55452951	T	T	55452951	4	4	54	1	0	0	0	0	0	1	0	0	10482	508	18	3	3024	3	NLRP7	19	55452951	Nonsense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	693802	55452951	3676032	416	20526										
NLRP2	55655	broad.mit.edu	37	chr19	55494236	55494236	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctaatgaggagcaacgcggcCctgttccagctgggctcggc	14	13	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:55494236C>A	uc002qij.2	+	6	1256	c.1170C>A	c.(1168-1170)GCC>GCA	p.A390A	NLRP2_uc010yfp.1_Silent_p.A367A|NLRP2_uc010esn.2_Silent_p.A366A|NLRP2_uc010eso.2_Silent_p.A387A|NLRP2_uc010esp.2_Silent_p.A368A	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	390	NACHT.				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		GCAACGCGGCCCTGTTCCAGC	0.627													41	75	---	---	---	---	PASS	A	55494236	A	A	55494236	2	1	54	1	0	0	0	0	0	0	0	1	10477	610	22	3		3	NLRP2	19	55494236	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	41285	55494236	3634747	417	20527										
NLRP8	126205	broad.mit.edu	37	chr19	56481925	56481925	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tacaggttggaagactgcttGgccacccctagaatttggac	11	10	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:56481925G>T	uc002qmh.2	+	6	2468	c.2397G>T	c.(2395-2397)TTG>TTT	p.L799F	NLRP8_uc010etg.2_Missense_Mutation_p.L799F	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	799						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)		AAGACTGCTTGGCCACCCCTA	0.473													73	209	---	---	---	---	PASS	T	56481925	T	T	56481925	3	4	54	1	0	0	0	0	1	0	0	0	10483	1339	47	3	2419	3	NLRP8	19	56481925	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	987689	56481925	2647058	418	20528										
NLRP5	126206	broad.mit.edu	37	chr19	56539467	56539467	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaggtccatggagcttaaacAggcaggcttccatatccact	10	11	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:56539467A>T	uc002qmj.2	+	7	1868	c.1868A>T	c.(1867-1869)CAG>CTG	p.Q623L	NLRP5_uc002qmi.2_Missense_Mutation_p.Q604L	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	623						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)		GAGCTTAAACAGGCAGGCTTC	0.547													24	74	---	---	---	---	PASS	T	56539467	T	T	56539467	3	4	54	1	0	0	0	0	1	0	0	0	10480	188	7	5	1894	5	NLRP5	19	56539467	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	57542	56539467	2589516	419	20529										
ZIM2	23619	broad.mit.edu	37	chr19	57286820	57286820	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttccggagtgagggtcttggGgtcattcattgttataggag	15	5	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:57286820G>T	uc002qnr.2	-	11	1202	c.820C>A	c.(820-822)CCC>ACC	p.P274T	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Missense_Mutation_p.P70T|ZIM2_uc010ygr.1_Missense_Mutation_p.P70T|ZIM2_uc002qnq.2_Missense_Mutation_p.P274T|ZIM2_uc010etp.2_Missense_Mutation_p.P274T|ZIM2_uc010ygs.1_Missense_Mutation_p.P274T	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	274					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		AGGGTCTTGGGGTCATTCATT	0.443													52	147	---	---	---	---	PASS	T	57286820	T	T	57286820	3	4	54	1	0	0	0	0	1	0	0	0	17681	1232	43	3	767	3	ZIM2	19	57286820	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	747353	57286820	1842163	420	20530										
PEG3	5178	broad.mit.edu	37	chr19	57335870	57335870	+	Missense_Mutation	SNP	G	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aacaaattccacatagattaGgttccgaaacctctgatgaa							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:57335870G>T	uc002qnu.2	-	1	505	c.154C>A	c.(154-156)CTA>ATA	p.L52I	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_5'UTR|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.L52I|PEG3_uc002qnv.2_Missense_Mutation_p.L52I|PEG3_uc002qnw.2_Intron|PEG3_uc002qnx.2_Intron|PEG3_uc010etr.2_Missense_Mutation_p.L52I	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	52	SCAN box.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		ACATAGATTAGGTTCCGAAAC	0.488													29	101	---	---	---	---	PASS	T	57335870	T	T	57335870	3	4	54	1	0	0	0	0	1	0	0	0	11720	991	35	3		3	PEG3	19	57335870	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	49050	57335870	1793113	421	20531	466	2								
PEG3	5178	broad.mit.edu	37	chr19	57335871	57335871	+	Missense_Mutation	SNP	G	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	acaaattccacatagattagGttccgaaacctctgatgaaa							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr19:57335871G>T	uc002qnu.2	-	1	504	c.153C>A	c.(151-153)AAC>AAA	p.N51K	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_5'UTR|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.N51K|PEG3_uc002qnv.2_Missense_Mutation_p.N51K|PEG3_uc002qnw.2_Intron|PEG3_uc002qnx.2_Intron|PEG3_uc010etr.2_Missense_Mutation_p.N51K	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	51	SCAN box.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CATAGATTAGGTTCCGAAACC	0.493													29	100	---	---	---	---	PASS	T	57335871	T	T	57335871	3	4	54	1	0	0	0	0	1	0	0	0	11720	1252	44	3		3	PEG3	19	57335871	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1	57335871	1793112	422	20532	466	2								
C20orf27	54976	broad.mit.edu	37	chr20	3734772	3734772	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cggcgcccacacacttgacaCcatccagcagcatgggcgtg	11	16	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr20:3734772C>A	uc002wji.1	-	6	687	c.458G>T	c.(457-459)GGT>GTT	p.G153V	C20orf27_uc002wjf.1_3'UTR|C20orf27_uc002wjh.1_Missense_Mutation_p.G178V	NM_001039140	NP_001034229	Q9GZN8	CT027_HUMAN	hypothetical protein LOC54976	153											0						ACACTTGACACCATCCAGCAG	0.692													37	40	---	---	---	---	PASS	A	3734772	A	A	3734772	3	1	54	1	0	0	0	0	1	0	0	0	2107	507	18	3	70	3	C20orf27	20	3734772	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08		3734772	59290748	423	20533										
ADRA1D	146	broad.mit.edu	37	chr20	4229009	4229009	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctgggtacttgagtgagtggCgcacgcccacgtaccggtcc	14	13	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr20:4229009C>T	uc002wkr.2	-	1	651	c.596G>A	c.(595-597)CGC>CAC	p.R199H		NM_000678	NP_000669	P25100	ADA1D_HUMAN	alpha-1D-adrenergic receptor	199	Cytoplasmic (By similarity).				cell proliferation|cell-cell signaling|DNA metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|multicellular organismal development|positive regulation of cell proliferation	integral to plasma membrane	alpha1-adrenergic receptor activity				0					Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Methotrimeprazine(DB01403)|Norepinephrine(DB00368)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)	GAGTGAGTGGCGCACGCCCAC	0.682													29	16	---	---	---	---	PASS	T	4229009	T	T	4229009	3	4	54	1	0	0	0	0	1	0	0	0	336	768	27	1	1130	1	ADRA1D	20	4229009	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	494237	4229009	58796511	424	20534										
SEL1L2	80343	broad.mit.edu	37	chr20	13830204	13830204	+	Missense_Mutation	SNP	G	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcacaaataagtcccagtgtGgtccaatggtgttgtccagt							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr20:13830204G>T	uc010gcf.2	-	20	2076	c.1994C>A	c.(1993-1995)CCA>CAA	p.P665Q	SEL1L2_uc002woq.3_Missense_Mutation_p.P526Q|SEL1L2_uc010zrl.1_Missense_Mutation_p.P552Q|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	665	Helical; (Potential).					integral to membrane	binding			ovary(2)	2						GTCCCAGTGTGGTCCAATGGT	0.473													76	261	---	---	---	---	PASS	T	13830204	T	T	13830204	3	4	54	1	0	0	0	0	1	0	0	0	14011	1348	47	3	76	3	SEL1L2	20	13830204	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	9601195	13830204	49195316	425	20535	467	2								
SEL1L2	80343	broad.mit.edu	37	chr20	13830205	13830205	+	Missense_Mutation	SNP	G	T	T													0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cacaaataagtcccagtgtgGtccaatggtgttgtccagtt							TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr20:13830205G>T	uc010gcf.2	-	20	2075	c.1993C>A	c.(1993-1995)CCA>ACA	p.P665T	SEL1L2_uc002woq.3_Missense_Mutation_p.P526T|SEL1L2_uc010zrl.1_Missense_Mutation_p.P552T|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	665	Helical; (Potential).					integral to membrane	binding			ovary(2)	2						TCCCAGTGTGGTCCAATGGTG	0.478													76	260	---	---	---	---	PASS	T	13830205	T	T	13830205	3	4	54	1	0	0	0	0	1	0	0	0	14011	1261	44	3	77	3	SEL1L2	20	13830205	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1	13830205	49195315	426	20536	467	2								
C20orf12	55184	broad.mit.edu	37	chr20	18370448	18370448	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tatgacgggtcgattgtcttCatcacagcagttggggtctg	13	8	4	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr20:18370448C>G	uc010zsa.1	-	19	2181	c.1972G>C	c.(1972-1974)GAA>CAA	p.E658Q	C20orf12_uc010zrz.1_Missense_Mutation_p.E177Q|C20orf12_uc002wqp.3_Missense_Mutation_p.E349Q|C20orf12_uc002wqr.3_RNA|C20orf12_uc002wqs.3_Missense_Mutation_p.E525Q|C20orf12_uc002wqq.3_Missense_Mutation_p.E639Q	NM_001099407	NP_001092877	Q9NVP4	CT012_HUMAN	hypothetical protein LOC55184	466						intracellular	zinc ion binding			ovary(1)	1		Myeloproliferative disorder(85;0.0122)				CGATTGTCTTCATCACAGCAG	0.517													122	252	---	---	---	---	PASS	G	18370448	G	G	18370448	3	3	54	1	0	0	0	0	1	0	0	0	2085	835	29	2	355	2	C20orf12	20	18370448	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	4540243	18370448	44655072	427	20537										
GGTLC1	92086	broad.mit.edu	37	chr20	23966534	23966534	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggtgatctgcgtgcccccggCagctcccaccaccatccgga	11	18	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr20:23966534C>T	uc002wts.2	-	4	515	c.382G>A	c.(382-384)GCC>ACC	p.A128T	GGTLC1_uc002wtu.2_Missense_Mutation_p.A128T	NM_178312	NP_842564	Q9BX51	GGTL1_HUMAN	gamma-glutamyltransferase light chain 1	128							gamma-glutamyltransferase activity			ovary(1)	1						GTGCCCCCGGCAGCTCCCACC	0.647													165	362	---	---	---	---	PASS	T	23966534	T	T	23966534	3	4	54	1	0	0	0	0	1	0	0	0	6365	710	25	3	307	3	GGTLC1	20	23966534	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	5596086	23966534	39058986	428	20538										
ASXL1	171023	broad.mit.edu	37	chr20	31021590	31021590	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaggaaatcctttgagcaggCggcctctgcatcctttcccg	11	13	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr20:31021590C>A	uc002wxs.2	+	11	2015	c.1589C>A	c.(1588-1590)GCG>GAG	p.A530E	ASXL1_uc010geb.2_Missense_Mutation_p.A421E	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	530					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						TTTGAGCAGGCGGCCTCTGCA	0.517			F|N|Mis		MDS|CMML								5	754	---	---	---	---	PASS	A	31021590	A	A	31021590	3	1	54	1	0	0	0	0	1	0	0	0	1066	768	27	1	1641	1	ASXL1	20	31021590	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	7055056	31021590	32003930	429	20539										
PREX1	57580	broad.mit.edu	37	chr20	47364384	47364384	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gaggcccttctccactgagtCggccacgttctgccggatgc	12	15	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr20:47364384C>T	uc002xtw.1	-	2	276	c.253G>A	c.(253-255)GAC>AAC	p.D85N		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	85	DH.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			TCCACTGAGTCGGCCACGTTC	0.597													35	48	---	---	---	---	PASS	T	47364384	T	T	47364384	3	4	54	1	0	0	0	0	1	0	0	0	12476	884	31	2	4882	2	PREX1	20	47364384	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	16342794	47364384	15661136	430	20540										
KCNQ2	3785	broad.mit.edu	37	chr20	62076081	62076081	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cgccggtccatgcggatcatCcgcagaatctgcaggaagcg	13	13	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr20:62076081C>T	uc002yey.1	-	4	798	c.621G>A	c.(619-621)CGG>CGA	p.R207R	KCNQ2_uc002yez.1_Silent_p.R207R|KCNQ2_uc002yfa.1_Silent_p.R207R|KCNQ2_uc002yfb.1_Silent_p.R207R|KCNQ2_uc011aax.1_Silent_p.R207R|KCNQ2_uc002yfc.1_Silent_p.R207R	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	207	Helical; Voltage-sensor; Name=Segment S4; (Potential).		R -> W (in EBN1; phenotype manifestations include myokymia in some patients; leads to a shift of voltage-dependent activation of the channel and a dramatic slowing of activation upon depolarization).|R -> Q (in a patient with isolated myokymia and no history of neonatal seizures; leads to a shift of voltage- dependent activation).		axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	TGCGGATCATCCGCAGAATCT	0.667													18	14	---	---	---	---	PASS	T	62076081	T	T	62076081	2	4	54	1	0	0	0	0	0	0	0	1	8083	842	30	2		2	KCNQ2	20	62076081	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	14711697	62076081	949439	431	20541										
NPBWR2	2832	broad.mit.edu	37	chr20	62737384	62737384	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gtccagcagaggaggcacacGgccagcacgacgaggaccag	15	13	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr20:62737384G>A	uc011abt.1	-	1	801	c.801C>T	c.(799-801)GCC>GCT	p.A267A		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	267	Helical; Name=6; (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					GGAGGCACACGGCCAGCACGA	0.677													19	98	---	---	---	---	PASS	A	62737384	A	A	62737384	2	1	54	1	0	0	0	0	0	0	0	1	10569	1103	39	1		1	NPBWR2	20	62737384	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	661303	62737384	288136	432	20542										
ADAMTS5	11096	broad.mit.edu	37	chr21	28338580	28338580	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cctcctccccctgccgccggCggggctgggcggctgctgca	15	19	0	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr21:28338580C>T	uc002ymg.2	-	1	860	c.131G>A	c.(130-132)CGC>CAC	p.R44H		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	44					proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CTGCCGCCGGCGGGGCTGGGC	0.766													5	2	---	---	---	---	PASS	T	28338580	T	T	28338580	3	4	54	1	0	0	0	0	1	0	0	0	269	768	27	1	2693	1	ADAMTS5	21	28338580	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08		28338580	19791315	433	20543										
SYNJ1	8867	broad.mit.edu	37	chr21	34051029	34051029	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tcagagtatttcccagtagcAaaacatcaatggcctcttgc	7	11	3	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr21:34051029A>C	uc002yqh.2	-	12	1553	c.1553T>G	c.(1552-1554)TTG>TGG	p.L518W	SYNJ1_uc011ads.1_Missense_Mutation_p.L482W|SYNJ1_uc002yqf.2_Missense_Mutation_p.L479W|SYNJ1_uc002yqg.2_Missense_Mutation_p.L482W|SYNJ1_uc002yqi.2_Missense_Mutation_p.L518W	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	479							inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						TCCCAGTAGCAAAACATCAAT	0.393													84	32	---	---	---	---	PASS	C	34051029	C	C	34051029	3	2	54	1	0	0	0	0	1	0	0	0	15449	131	5	5	3394	5	SYNJ1	21	34051029	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	5712449	34051029	14078866	434	20544										
CLTCL1	8218	broad.mit.edu	37	chr22	19222104	19222104	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	aagagggtattgaattttctCacaaacaacttctctgcccc	6	11	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr22:19222104C>G	uc002zpb.2	-	7	1170	c.1095G>C	c.(1093-1095)GTG>GTC	p.V365V	CLTCL1_uc011agv.1_Silent_p.V365V|CLTCL1_uc011agw.1_Silent_p.V365V	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	365	Globular terminal domain.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					TGAATTTTCTCACAAACAACT	0.468			T	?	ALCL								13	134	---	---	---	---	PASS	G	19222104	G	G	19222104	2	3	54	1	0	0	0	0	0	0	0	1	3567	813	29	2		2	CLTCL1	22	19222104	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08		19222104	32082462	435	20545										
ASPHD2	57168	broad.mit.edu	37	chr22	26830243	26830243	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cccgcaaggatggaaaatgaAcagcacccccagcggggagt	13	12	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr22:26830243A>T	uc003acg.2	+	2	1059	c.662A>T	c.(661-663)AAC>ATC	p.N221I		NM_020437	NP_065170	Q6ICH7	ASPH2_HUMAN	aspartate beta-hydroxylase domain containing 2	221	Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity			ovary(1)	1						TGGAAAATGAACAGCACCCCC	0.537													104	449	---	---	---	---	PASS	T	26830243	T	T	26830243	3	4	54	1	0	0	0	0	1	0	0	0	1055	43	2	5	664	5	ASPHD2	22	26830243	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	7608139	26830243	24474323	436	20546										
HPS4	89781	broad.mit.edu	37	chr22	26866751	26866751	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggcaggtctgcagaatgcggGctgccttcagcaacaacagg	14	11	2	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr22:26866751G>A	uc003acl.2	-	7	1189	c.530C>T	c.(529-531)GCC>GTC	p.A177V	HPS4_uc003aci.2_Missense_Mutation_p.A172V|HPS4_uc003acj.2_Missense_Mutation_p.A23V|HPS4_uc003ack.2_5'UTR|HPS4_uc003acn.2_Missense_Mutation_p.A23V|HPS4_uc010gvd.1_Missense_Mutation_p.A177V|HPS4_uc003ach.2_5'UTR	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	177					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						CAGAATGCGGGCTGCCTTCAG	0.572									Hermansky-Pudlak_syndrome				5	234	---	---	---	---	PASS	A	26866751	A	A	26866751	3	1	54	1	0	0	0	0	1	0	0	0	7341	1203	42	3	1628	3	HPS4	22	26866751	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	36508	26866751	24437815	437	20547										
MN1	4330	broad.mit.edu	37	chr22	28194126	28194126	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gagcccagcgagagcgcgccCaatttactggccgaggtgcg	15	13	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr22:28194126C>A	uc003adj.2	-	1	3361	c.2406G>T	c.(2404-2406)TTG>TTT	p.L802F		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	802							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						AGAGCGCGCCCAATTTACTGG	0.682			T	ETV6	AML|meningioma								36	69	---	---	---	---	PASS	A	28194126	A	A	28194126	3	1	54	1	0	0	0	0	1	0	0	0	9673	593	21	3	1564	3	MN1	22	28194126	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	1327375	28194126	23110440	438	20548										
EMID1	129080	broad.mit.edu	37	chr22	29639453	29639453	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gggggaacctggccctaaggGagaccctggtgagaagagcc	17	10	0	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr22:29639453G>A	uc003aen.2	+	13	1163	c.1088G>A	c.(1087-1089)GGA>GAA	p.G363E	EMID1_uc003aem.2_Missense_Mutation_p.G365E|EMID1_uc003aeo.2_Missense_Mutation_p.G365E|EMID1_uc003aep.2_Missense_Mutation_p.G344E	NM_133455	NP_597712	Q96A84	EMID1_HUMAN	EMI domain containing 1	363	Collagen-like.					collagen					0						GGCCCTAAGGGAGACCCTGGT	0.388													8	93	---	---	---	---	PASS	A	29639453	A	A	29639453	3	1	54	1	0	0	0	0	1	0	0	0	5091	1174	41	2	1144	2	EMID1	22	29639453	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	1445327	29639453	21665113	439	20549										
MCM5	4174	broad.mit.edu	37	chr22	35799327	35799327	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cagccgagcacctgcagctgGtgagtgggaccccatccctg	13	15	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr22:35799327G>T	uc003anu.3	+	3	388	c.294_splice	c.e3+1	p.L98_splice	MCM5_uc010gwr.2_Splice_Site|MCM5_uc003anv.3_Splice_Site_p.L98_splice	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5						cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						CCTGCAGCTGGTGAGTGGGAC	0.597													54	119	---	---	---	---	PASS	T	35799327	T	T	35799327	5	4	54	1	0	0	0	0	0	0	1	0	9390	1275	44	3	301	3	MCM5	22	35799327	Splice_Site	SNP	G	TCGA-33-4532-01A-01D-1267-08	6159874	35799327	15505239	440	20550										
MIOX	55586	broad.mit.edu	37	chr22	50926092	50926092	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctgaccctccggcctgcagtCaggtcccctcctggaccgtg	11	18	1	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chr22:50926092C>T	uc003bll.1	+	3	212	c.98C>T	c.(97-99)TCA>TTA	p.S33L	MIOX_uc003blm.1_Missense_Mutation_p.S33L|MIOX_uc003bln.1_Missense_Mutation_p.S33L	NM_017584	NP_060054	Q9UGB7	MIOX_HUMAN	myo-inositol oxygenase	33					inositol catabolic process	cytoplasm|inclusion body	aldo-keto reductase (NADP) activity|ferric iron binding|inositol oxygenase activity				0		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GGCCTGCAGTCAGGTCCCCTC	0.667													39	102	---	---	---	---	PASS	T	50926092	T	T	50926092	3	4	54	1	0	0	0	0	1	0	0	0	9590	840	29	2	108	2	MIOX	22	50926092	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	15126765	50926092	378474	441	20551										
ARSE	415	broad.mit.edu	37	chrX	2864051	2864051	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcacttacctaccatccagtCcatctcctctacgttgtccc	4	18	2	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrX:2864051C>T	uc004crc.3	-	7	1229	c.979G>A	c.(979-981)GAC>AAC	p.D327N	ARSE_uc011mhi.1_Missense_Mutation_p.D273N|ARSE_uc011mhh.1_Missense_Mutation_p.D352N	NM_000047	NP_000038	P51690	ARSE_HUMAN	arylsulfatase E precursor	327					skeletal system development	Golgi stack	arylsulfatase activity|metal ion binding			ovary(1)|central_nervous_system(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ACCATCCAGTCCATCTCCTCT	0.473													35	67	---	---	---	---	PASS	T	2864051	T	T	2864051	3	4	54	1	0	0	0	0	1	0	0	0	990	855	30	2	810	2	ARSE	23	2864051	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08		2864051	152406509	442	20552										
HUWE1	10075	broad.mit.edu	37	chrX	53574823	53574823	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ggttgaggtggcagtggtggTggaggaagcaccgctgccag	20	7	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrX:53574823T>C	uc004dsp.2	-	68	10849	c.10447A>G	c.(10447-10449)ACC>GCC	p.T3483A	HUWE1_uc004dsn.2_Missense_Mutation_p.T2291A	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3483	Thr-rich.				base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						gcagtggtggtggAGGAAGCA	0.383													13	0	---	---	---	---	PASS	C	53574823	C	C	53574823	3	2	54	1	0	0	0	0	1	0	0	0	7461	1696	59	5	2745	5	HUWE1	23	53574823	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	50710772	53574823	101695737	443	20553										
HEPH	9843	broad.mit.edu	37	chrX	65480022	65480022	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gagatggtggccagcaacccTgggacatggctgatgcactg	15	10	0	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrX:65480022T>C	uc011moz.1	+	19	3186	c.3126T>C	c.(3124-3126)CCT>CCC	p.P1042P	HEPH_uc004dwn.2_Silent_p.P1042P|HEPH_uc004dwo.2_Silent_p.P772P|HEPH_uc010nkr.2_Silent_p.P850P|HEPH_uc011mpa.1_Silent_p.P1042P	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	1039	Extracellular (Potential).|Plastocyanin-like 6.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						CCAGCAACCCTGGGACATGGC	0.527													43	14	---	---	---	---	PASS	C	65480022	C	C	65480022	2	2	54	1	0	0	0	0	0	0	0	1	7054	1567	55	5		5	HEPH	23	65480022	Silent	SNP	T	TCGA-33-4532-01A-01D-1267-08	11905199	65480022	89790538	444	20554										
P2RY10	27334	broad.mit.edu	37	chrX	78216990	78216990	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gccatggcagttctgtgaccCgctcccgcctcatgagcaag	11	15	2	2			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrX:78216990C>A	uc004ede.2	+	4	1342	c.973C>A	c.(973-975)CGC>AGC	p.R325S	P2RY10_uc004edf.2_Missense_Mutation_p.R325S	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	325	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						TTCTGTGACCCGCTCCCGCCT	0.438													266	36	---	---	---	---	PASS	A	78216990	A	A	78216990	3	1	54	1	0	0	0	0	1	0	0	0	11347	652	23	1	975	1	P2RY10	23	78216990	Missense_Mutation	SNP	C	TCGA-33-4532-01A-01D-1267-08	12736968	78216990	77053570	445	20555										
PAK3	5063	broad.mit.edu	37	chrX	110435802	110435802	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	attattaatgaaattctggtCatgagggaaaataagaaccc	8	5	2	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrX:110435802C>T	uc004epa.2	+	10	1020	c.993C>T	c.(991-993)GTC>GTT	p.V331V	PAK3_uc010npt.1_Silent_p.V316V|PAK3_uc010npu.1_Silent_p.V316V|PAK3_uc004eoy.1_Silent_p.V71V|PAK3_uc004eoz.2_Silent_p.V316V|PAK3_uc011mst.1_RNA|PAK3_uc010npv.1_Silent_p.V352V|PAK3_uc010npw.1_Silent_p.V337V	NM_001128173	NP_001121645	O75914	PAK3_HUMAN	p21-activated kinase 3 isoform d	331	Protein kinase.				multicellular organismal development		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding			lung(6)|ovary(3)|large_intestine(1)	10						AAATTCTGGTCATGAGGGAAA	0.299										TSP Lung(19;0.15)			17	73	---	---	---	---	PASS	T	110435802	T	T	110435802	2	4	54	1	0	0	0	0	0	0	0	1	11402	813	29	2		2	PAK3	23	110435802	Silent	SNP	C	TCGA-33-4532-01A-01D-1267-08	32218812	110435802	44834758	446	20556										
KIAA1210	57481	broad.mit.edu	37	chrX	118230556	118230556	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tgggtggtggctggggtgctGaaaccaatgggcagctgggt	20	6	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrX:118230556G>T	uc004era.3	-	8	1167	c.1167C>A	c.(1165-1167)TTC>TTA	p.F389L		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	389								p.G389D(1)		ovary(4)|skin(1)	5						CTGGGGTGCTGAAACCAATGG	0.498													57	7	---	---	---	---	PASS	T	118230556	T	T	118230556	3	4	54	1	0	0	0	0	1	0	0	0	8214	1281	45	2	3990	2	KIAA1210	23	118230556	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	7794754	118230556	37040004	447	20557										
ATP11C	286410	broad.mit.edu	37	chrX	138857060	138857060	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	cccagtgagcacccagacttTcaggcctgctgcatgcagag	11	14	1	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrX:138857060T>A	uc004faz.2	-	19	2113	c.2014A>T	c.(2014-2016)AAA>TAA	p.K672*	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Nonsense_Mutation_p.K672*	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	672	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					ACCCAGACTTTCAGGCCTGCT	0.488													26	125	---	---	---	---	PASS	A	138857060	A	A	138857060	4	1	54	1	0	0	0	0	0	1	0	0	1121	1792	62	5	1495	5	ATP11C	23	138857060	Nonsense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08	20626504	138857060	16413500	448	20558										
CXorf66	347487	broad.mit.edu	37	chrX	139038093	139038093	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ttcagaggtgacttgattgtAccctctgtcacacgtaatga	9	9	3	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrX:139038093A>T	uc004fbb.2	-	3	1070	c.1048T>A	c.(1048-1050)TAC>AAC	p.Y350N		NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor	350	Cytoplasmic (Potential).					integral to membrane					0						ACTTGATTGTACCCTCTGTCA	0.353													90	26	---	---	---	---	PASS	T	139038093	T	T	139038093	3	4	54	1	0	0	0	0	1	0	0	0	4118	391	14	5	41	5	CXorf66	23	139038093	Missense_Mutation	SNP	A	TCGA-33-4532-01A-01D-1267-08	181033	139038093	16232467	449	20559										
SPANXN1	494118	broad.mit.edu	37	chrX	144329181	144329181	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	tccaacaatgaaaatgatgaGgtaagattgttaggttttga	10	3	0	5			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrX:144329181G>T	uc004fcb.2	+	1	75	c.75G>T	c.(73-75)GAG>GAT	p.E25D		NM_001009614	NP_001009614	Q5VSR9	SPXN1_HUMAN	SPANX-N1 protein	25											0	Acute lymphoblastic leukemia(192;6.56e-05)					AAAATGATGAGGTAAGATtgt	0.234													179	53	---	---	---	---	PASS	T	144329181	T	T	144329181	3	4	54	1	0	0	0	0	1	0	0	0	14990	1014	35	3	77	3	SPANXN1	23	144329181	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	5291088	144329181	10941379	450	20560										
MAGEA4	4103	broad.mit.edu	37	chrX	151092185	151092185	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	gcaagcctgaggaaggcgttGaggcccaagaagaggccctg	16	10	0	4			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrX:151092185G>C	uc004fez.2	+	3	205	c.49G>C	c.(49-51)GAG>CAG	p.E17Q	MAGEA4_uc004ffa.2_Missense_Mutation_p.E17Q|MAGEA4_uc004ffb.2_Missense_Mutation_p.E17Q|MAGEA4_uc004ffc.2_Missense_Mutation_p.E17Q|MAGEA4_uc004ffd.2_Missense_Mutation_p.E17Q	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	17							protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGAAGGCGTTGAGGCCCAAGA	0.602													13	112	---	---	---	---	PASS	C	151092185	C	C	151092185	3	2	54	1	0	0	0	0	1	0	0	0	9168	1291	45	2	51	2	MAGEA4	23	151092185	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	6763004	151092185	4178375	451	20561										
MAGEA6	4105	broad.mit.edu	37	chrX	151870230	151870230	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	ctacccactcctgcatgagtGggctttgagagagggggaag	15	9	0	3			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrX:151870230G>C	uc004ffq.1	+	3	1114	c.920G>C	c.(919-921)TGG>TCG	p.W307S	MAGEA6_uc004ffr.1_Missense_Mutation_p.W307S|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	307	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					CTGCATGAGTGGGCTTTGAGA	0.577													249	44	---	---	---	---	PASS	C	151870230	C	C	151870230	3	2	54	1	0	0	0	0	1	0	0	0	9170	1357	47	4	922	4	MAGEA6	23	151870230	Missense_Mutation	SNP	G	TCGA-33-4532-01A-01D-1267-08	778045	151870230	3400330	452	20562										
ATP2B3	492	broad.mit.edu	37	chrX	152818709	152818709	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	atagctgtcgtgggcattgaGgaccctgtgcggcccgaggt	16	10	0	1			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrX:152818709G>A	uc004fht.1	+	11	2166	c.2040G>A	c.(2038-2040)GAG>GAA	p.E680E	ATP2B3_uc004fhs.1_Silent_p.E680E	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	680	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TGGGCATTGAGGACCCTGTGC	0.642													13	126	---	---	---	---	PASS	A	152818709	A	A	152818709	2	1	54	1	0	0	0	0	0	0	0	1	1141	991	35	3		3	ATP2B3	23	152818709	Silent	SNP	G	TCGA-33-4532-01A-01D-1267-08	948479	152818709	2451851	453	20563										
PCDH11Y	83259	broad.mit.edu	37	chrY	4967120	4967120	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.114678899082569	50	9.22141129732565e-06	1.94902745719804	3.06030345143774	1.45973429555519	0.861164665319828	1	24	atgctccagttttcacccagTctttcgtaactgtttctatt	5	11	3	0			TCGA-33-4532-01A-01D-1267-08	TCGA-33-4532-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8baeba2-2a73-41d7-9226-b89a8f42e18f	8f754086-e8c4-4f80-bdb5-50b62ef8bbf4	g.chrY:4967120T>A	uc004fqo.2	+	2	2235	c.1501T>A	c.(1501-1503)TCT>ACT	p.S501T	PCDH11Y_uc010nwg.1_Missense_Mutation_p.S490T|PCDH11Y_uc004fql.1_Missense_Mutation_p.S490T|PCDH11Y_uc004fqm.1_Missense_Mutation_p.S490T|PCDH11Y_uc004fqn.1_Missense_Mutation_p.S501T|PCDH11Y_uc004fqp.1_Missense_Mutation_p.S272T	NM_032973	NP_116755	Q9BZA8	PC11Y_HUMAN	protocadherin 11 Y-linked isoform c	501	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						TTTCACCCAGTCTTTCGTAAC	0.433													51	23	---	---	---	---	PASS	A	4967120	A	A	4967120	3	1	54	1	0	0	0	0	1	0	0	0	11509	1667	58	5	1543	5	PCDH11Y	24	4967120	Missense_Mutation	SNP	T	TCGA-33-4532-01A-01D-1267-08		4967120	54406446	454	20564										
SCNN1D	6339	broad.mit.edu	37	chr1	1226037	1226037	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggagtctgcattcaagctctCcactgggacctccaggtggc	12	13	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:1226037C>A	uc001adu.1	+	14	2012	c.1388C>A	c.(1387-1389)TCC>TAC	p.S463Y	SCNN1D_uc001adt.1_Missense_Mutation_p.S627Y|SCNN1D_uc001adw.2_Missense_Mutation_p.S529Y|SCNN1D_uc001adx.2_Missense_Mutation_p.S252Y|SCNN1D_uc001adv.2_Missense_Mutation_p.S463Y	NM_002978	NP_002969			sodium channel, nonvoltage-gated 1, delta												0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;2.46e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.199)		TTCAAGCTCTCCACTGGGACC	0.647													41	106	---	---	---	---	PASS	A	1226037	A	A	1226037	3	1	55	1	0	0	0	0	1	0	0	0	13929	855	30	2	1632	2	SCNN1D	1	1226037	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08		1226037	248024584	1	20565										
H6PD	9563	broad.mit.edu	37	chr1	9324831	9324831	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gatcaccacgctggtgagccGggtgggccatgagcccaaga	15	12	1	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:9324831G>T	uc001apt.2	+	5	2552	c.2279G>T	c.(2278-2280)CGG>CTG	p.R760L		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	760	6-phosphogluconolactonase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	CTGGTGAGCCGGGTGGGCCAT	0.637													59	62	---	---	---	---	PASS	T	9324831	T	T	9324831	3	4	55	1	0	0	0	0	1	0	0	0	6936	1116	39	1	2293	1	H6PD	1	9324831	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	8098794	9324831	239925790	2	20566										
IGSF21	84966	broad.mit.edu	37	chr1	18703336	18703336	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgttcacgtggacgcgggttGggagccgcctcctggacggc	17	12	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:18703336G>A	uc001bau.1	+	8	1527	c.1144G>A	c.(1144-1146)GGG>AGG	p.G382R	IGSF21_uc001bav.1_Missense_Mutation_p.G203R	NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	382	Ig-like 2.					extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		GACGCGGGTTGGGAGCCGCCT	0.647													35	85	---	---	---	---	PASS	A	18703336	A	A	18703336	3	1	55	1	0	0	0	0	1	0	0	0	7599	1348	47	3	1174	3	IGSF21	1	18703336	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	9378505	18703336	230547285	3	20567										
EIF4G3	8672	broad.mit.edu	37	chr1	21133912	21133912	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cattctgctctgcagggtccTtgctgctctcccatttgtag	9	13	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:21133912T>C	uc001bec.2	-	32	4914	c.4658A>G	c.(4657-4659)AAG>AGG	p.K1553R	EIF4G3_uc010odi.1_Missense_Mutation_p.K1157R|EIF4G3_uc010odj.1_Missense_Mutation_p.K1552R|EIF4G3_uc009vpz.2_Missense_Mutation_p.K1273R|EIF4G3_uc001bed.2_Missense_Mutation_p.K1553R|EIF4G3_uc001bef.2_Missense_Mutation_p.K1589R|EIF4G3_uc001bee.2_Missense_Mutation_p.K1559R	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	1553	EIF4A-binding (By similarity).|W2.				interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		TGCAGGGTCCTTGCTGCTCTC	0.498													144	228	---	---	---	---	PASS	C	21133912	C	C	21133912	3	2	55	1	0	0	0	0	1	0	0	0	5038	1609	56	5	103	5	EIF4G3	1	21133912	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	2430576	21133912	228116709	4	20568										
TMEM57	55219	broad.mit.edu	37	chr1	25783156	25783156	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctttctagtattgggtacccTgtggtaactttggggtttgg	13	6	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:25783156T>A	uc001bkk.2	+	5	688	c.486T>A	c.(484-486)CCT>CCA	p.P162P	TMEM57_uc009vru.2_Intron|TMEM57_uc009vrv.2_Intron|TMEM57_uc009vrt.2_RNA	NM_018202	NP_060672	Q8N5G2	MACOI_HUMAN	transmembrane protein 57	162	Helical; (Potential).					axon|integral to membrane|neuron projection terminus|nuclear membrane|synapse part					0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00715)|all_lung(284;0.00989)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.201)		UCEC - Uterine corpus endometrioid carcinoma (279;0.042)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-26)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|GBM - Glioblastoma multiforme(114;0.0191)|READ - Rectum adenocarcinoma(331;0.0649)		TTGGGTACCCTGTGGTAACTT	0.383													23	38	---	---	---	---	PASS	A	25783156	A	A	25783156	2	1	55	1	0	0	0	0	0	0	0	1	16181	1567	55	5		5	TMEM57	1	25783156	Silent	SNP	T	TCGA-33-4533-01A-01D-1267-08	4649244	25783156	223467465	5	20569										
PTPRU	10076	broad.mit.edu	37	chr1	29587268	29587268	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tggcgcgcgggccctgggctGaggtgcacgccgtcagcctg	18	14	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:29587268G>A	uc001bru.2	+	7	1107	c.997G>A	c.(997-999)GAG>AAG	p.E333K	PTPRU_uc001brv.2_Missense_Mutation_p.E333K|PTPRU_uc001brw.2_Missense_Mutation_p.E333K|PTPRU_uc009vtq.2_Missense_Mutation_p.E333K|PTPRU_uc009vtr.2_Missense_Mutation_p.E333K	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	333	Fibronectin type-III 1.|Extracellular (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GCCCTGGGCTGAGGTGCACGC	0.637													65	89	---	---	---	---	PASS	A	29587268	A	A	29587268	3	1	55	1	0	0	0	0	1	0	0	0	12813	1291	45	2	1023	2	PTPRU	1	29587268	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	3804112	29587268	219663353	6	20570										
LAPTM5	7805	broad.mit.edu	37	chr1	31214487	31214487	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cggggctcctgagccctcacCttgactacgccgatcagtag	11	15	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:31214487C>G	uc001bsc.2	-	3	349	c.258G>C	c.(256-258)AAG>AAC	p.K86N		NM_006762	NP_006753	Q13571	LAPM5_HUMAN	lysosomal protein transmembrane 5	86					transport	integral to plasma membrane|lysosomal membrane					0		Colorectal(325;0.0199)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0966)|Medulloblastoma(700;0.151)|Ovarian(437;0.192)		STAD - Stomach adenocarcinoma(196;0.0196)|READ - Rectum adenocarcinoma(331;0.0649)		GAGCCCTCACCTTGACTACGC	0.607													6	15	---	---	---	---	PASS	G	31214487	G	G	31214487	3	3	55	1	0	0	0	0	1	0	0	0	8626	695	24	4	554	4	LAPTM5	1	31214487	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1627219	31214487	218036134	7	20571										
TEKT2	27285	broad.mit.edu	37	chr1	36552339	36552339	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tccaacagcagctcaactccGaccatcggggcaaaatggag	10	13	1	0	rs141019195		TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:36552339G>A	uc001bzr.2	+	5	650	c.523G>A	c.(523-525)GAC>AAC	p.D175N	TEKT2_uc001bzs.2_Missense_Mutation_p.D81N|ADPRHL2_uc001bzt.2_5'Flank|ADPRHL2_uc001bzu.2_5'Flank	NM_014466	NP_055281	Q9UIF3	TEKT2_HUMAN	tektin 2	175					cell projection organization|microtubule cytoskeleton organization	actin cytoskeleton|cilium axoneme|flagellar axoneme|focal adhesion|microtubule|nucleolus					0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GCTCAACTCCGACCATCGGGG	0.562													117	204	---	---	---	---	PASS	A	36552339	A	A	36552339	3	1	55	1	0	0	0	0	1	0	0	0	15750	1058	37	2	537	2	TEKT2	1	36552339	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	5337852	36552339	212698282	8	20572										
GRIK3	2899	broad.mit.edu	37	chr1	37346264	37346264	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgtcatagaccacggtggctGaccgccacttgaggtactgg	13	12	1	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:37346264G>T	uc001caz.2	-	3	656	c.521C>A	c.(520-522)TCA>TAA	p.S174*	GRIK3_uc001cba.1_Nonsense_Mutation_p.S174*	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	174	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	CACGGTGGCTGACCGCCACTT	0.622													249	248	---	---	---	---	PASS	T	37346264	T	T	37346264	4	4	55	1	0	0	0	0	0	1	0	0	6775	1294	45	2	2294	2	GRIK3	1	37346264	Nonsense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	793925	37346264	211904357	9	20573										
SNIP1	79753	broad.mit.edu	37	chr1	38005899	38005899	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cctcatcatttttaaatgggTagagacgccaccgttttttg	8	9	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:38005899T>C	uc001cbi.2	-	3	858	c.785A>G	c.(784-786)TAC>TGC	p.Y262C	SNIP1_uc010oid.1_RNA	NM_024700	NP_078976	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein	262					production of miRNAs involved in gene silencing by miRNA	nucleus	protein binding			upper_aerodigestive_tract(1)|lung(1)	2		Myeloproliferative disorder(586;0.0393)				TTTAAATGGGTAGAGACGCCA	0.488													79	99	---	---	---	---	PASS	C	38005899	C	C	38005899	3	2	55	1	0	0	0	0	1	0	0	0	14848	1638	57	5	413	5	SNIP1	1	38005899	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	659635	38005899	211244722	10	20574										
KIAA0467	23334	broad.mit.edu	37	chr1	43898205	43898205	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cagaccctgacagccagcccCcaagcacctgggtccccaga	9	19	0	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:43898205C>T	uc001cjk.1	+	23	3225	c.2763C>T	c.(2761-2763)CCC>CCT	p.P921P		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1820						peroxisome		p.P921P(1)			0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CAGCCAGCCCCCAAGCACCTG	0.632													113	295	---	---	---	---	PASS	T	43898205	T	T	43898205	2	4	55	1	0	0	0	0	0	0	0	1	8178	610	22	3		3	KIAA0467	1	43898205	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	5892306	43898205	205352416	11	20575										
LRRC41	10489	broad.mit.edu	37	chr1	46763301	46763301	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgccagatggcctgagttgaGaggcctgtaaggagaaatat	14	7	0	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:46763301G>A	uc001cpn.2	-	3	335	c.291C>T	c.(289-291)CTC>CTT	p.L97L	LRRC41_uc010omb.1_Silent_p.L97L|LRRC41_uc001cpo.1_Silent_p.L97L	NM_006369	NP_006360	Q15345	LRC41_HUMAN	MUF1 protein	97										ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(166;0.155)					CCTGAGTTGAGAGGCCTGTAA	0.463													30	76	---	---	---	---	PASS	A	46763301	A	A	46763301	2	1	55	1	0	0	0	0	0	0	0	1	8999	929	33	2		2	LRRC41	1	46763301	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	2865096	46763301	202487320	12	20576										
STIL	6491	broad.mit.edu	37	chr1	47755241	47755241	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gagaactatgatgaaatttcCagattctgaaaaaaccctgc	7	8	1	5			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:47755241C>A	uc001crc.1	-	9	1044	c.889G>T	c.(889-891)GGA>TGA	p.G297*	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Nonsense_Mutation_p.G250*|STIL_uc010omo.1_Nonsense_Mutation_p.G297*|STIL_uc001crd.1_Nonsense_Mutation_p.G297*|STIL_uc001cre.1_Nonsense_Mutation_p.G297*|STIL_uc001crg.1_Nonsense_Mutation_p.G250*	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	297					cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				ATGAAATTTCCAGATTCTGAA	0.338													25	43	---	---	---	---	PASS	A	47755241	A	A	47755241	4	1	55	1	0	0	0	0	0	1	0	0	15281	603	21	3	3013	3	STIL	1	47755241	Nonsense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	991940	47755241	201495380	13	20577										
ELAVL4	1996	broad.mit.edu	37	chr1	50661265	50661265	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gggtgggattcatccgctttGataagaggattgaggcagaa	15	5	1	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:50661265G>A	uc001csb.2	+	5	809	c.541G>A	c.(541-543)GAT>AAT	p.D181N	ELAVL4_uc001cry.3_Missense_Mutation_p.D184N|ELAVL4_uc001crz.3_Missense_Mutation_p.D181N|ELAVL4_uc001csa.3_Missense_Mutation_p.D198N|ELAVL4_uc001csc.3_Missense_Mutation_p.D181N|ELAVL4_uc009vyu.2_Missense_Mutation_p.D186N|ELAVL4_uc010omz.1_Missense_Mutation_p.D186N	NM_021952	NP_068771	P26378	ELAV4_HUMAN	ELAV-like 4 isoform 1	181	RRM 2.				mRNA processing		AU-rich element binding|mRNA 3'-UTR binding|nucleotide binding			ovary(1)|pancreas(1)	2						CATCCGCTTTGATAAGAGGAT	0.498													79	129	---	---	---	---	PASS	A	50661265	A	A	50661265	3	1	55	1	0	0	0	0	1	0	0	0	5052	1290	45	2	658	2	ELAVL4	1	50661265	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	2906024	50661265	198589356	14	20578										
CPT2	1376	broad.mit.edu	37	chr1	53676551	53676551	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgccgtcactccacagagccAgccagctaccactgactcta	7	17	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:53676551A>C	uc001cvb.3	+	4	1720	c.1205A>C	c.(1204-1206)CAG>CCG	p.Q402P		NM_000098	NP_000089	P23786	CPT2_HUMAN	carnitine O-palmitoyltransferase precursor	402	Mitochondrial matrix (By similarity).				carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	mitochondrial inner membrane	carnitine O-palmitoyltransferase activity				0					L-Carnitine(DB00583)|Perhexiline(DB01074)	CCACAGAGCCAGCCAGCTACC	0.483													19	26	---	---	---	---	PASS	C	53676551	C	C	53676551	3	2	55	1	0	0	0	0	1	0	0	0	3834	188	7	5	1219	5	CPT2	1	53676551	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	3015286	53676551	195574070	15	20579										
JUN	3725	broad.mit.edu	37	chr1	59248539	59248539	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tcgggcgacgccagcttgagCagccccacgtcgggcgaggt	16	14	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:59248539C>A	uc001cze.2	-	1	1247	c.204G>T	c.(202-204)CTG>CTT	p.L68L	uc001czf.2_5'Flank|uc010oop.1_5'Flank	NM_002228	NP_002219	P05412	JUN_HUMAN	jun oncogene	68					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation by host of viral transcription|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|SMAD protein import into nucleus|SMAD protein signal transduction|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|transforming growth factor beta receptor signaling pathway		R-SMAD binding|Rho GTPase activator activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity|transcription factor binding|transcription regulatory region DNA binding				0	all_cancers(7;8.55e-07)				Arsenic trioxide(DB01169)|Irbesartan(DB01029)|Vinblastine(DB00570)	CCAGCTTGAGCAGCCCCACGT	0.662			A		sarcoma								124	273	---	---	---	---	PASS	A	59248539	A	A	59248539	2	1	55	1	0	0	0	0	0	0	0	1	7969	697	25	3		3	JUN	1	59248539	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	5571988	59248539	190002082	16	20580										
INADL	10207	broad.mit.edu	37	chr1	62330263	62330263	+	Nonsense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agaaccgggaggactgtctaTtcccaggaggcacagccgta	13	11	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:62330263T>G	uc001dab.2	+	20	2907	c.2793T>G	c.(2791-2793)TAT>TAG	p.Y931*	INADL_uc009waf.1_Nonsense_Mutation_p.Y931*|INADL_uc001daa.2_Nonsense_Mutation_p.Y931*|INADL_uc001dad.3_Nonsense_Mutation_p.Y628*|INADL_uc001dac.2_RNA	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	931					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						GGACTGTCTATTCCCAGGAGG	0.502													83	122	---	---	---	---	PASS	G	62330263	G	G	62330263	4	3	55	1	0	0	0	0	0	1	0	0	7731	1500	52	5	2867	5	INADL	1	62330263	Nonsense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	3081724	62330263	186920358	17	20581										
LRRIQ3	127255	broad.mit.edu	37	chr1	74507031	74507031	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	attttaagtagtcctctggtCaaaagagtgcgctcattatt	8	7	3	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:74507031C>A	uc001dfy.3	-	7	1776	c.1584G>T	c.(1582-1584)TTG>TTT	p.L528F	LRRIQ3_uc001dfz.3_Intron	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	528										ovary(2)	2						GTCCTCTGGTCAAAAGAGTGC	0.343													39	74	---	---	---	---	PASS	A	74507031	A	A	74507031	3	1	55	1	0	0	0	0	1	0	0	0	9030	825	29	2	298	2	LRRIQ3	1	74507031	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	12176768	74507031	174743590	18	20582										
CLCA1	1179	broad.mit.edu	37	chr1	86939149	86939149	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcttgaagctacaggaaagcGattttatttcaaaaatgttg	9	5	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:86939149G>C	uc001dlt.2	+	2	341	c.212G>C	c.(211-213)CGA>CCA	p.R71P	CLCA1_uc001dls.1_Intron	NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	71					calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		ACAGGAAAGCGATTTTATTTC	0.358													42	144	---	---	---	---	PASS	C	86939149	C	C	86939149	3	2	55	1	0	0	0	0	1	0	0	0	3457	1058	37	2	218	2	CLCA1	1	86939149	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	12432118	86939149	162311472	19	20583										
TBX15	6913	broad.mit.edu	37	chr1	119467405	119467405	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcacaggggaatcagcattgCcagccaccatccacttggag	11	13	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:119467405C>A	uc001ehl.1	-	4	554	c.239G>T	c.(238-240)GGC>GTC	p.G80V		NM_152380	NP_689593	Q96SF7	TBX15_HUMAN	T-box 15	186	T-box.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)	2	all_neural(166;0.117)	all_cancers(81;0.000692)|all_lung(203;3.05e-06)|Lung NSC(69;2.13e-05)|all_epithelial(167;0.000237)		Lung(183;0.044)|LUSC - Lung squamous cell carcinoma(189;0.141)		ATCAGCATTGCCAGCCACCAT	0.373													169	152	---	---	---	---	PASS	A	119467405	A	A	119467405	3	1	55	1	0	0	0	0	1	0	0	0	15649	739	26	3	1271	3	TBX15	1	119467405	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	32528256	119467405	129783216	20	20584										
CGN	57530	broad.mit.edu	37	chr1	151497266	151497266	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctgaagggggccctgaaagaGgaggtagcctcccgtgacca	15	11	0	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:151497266G>C	uc009wmw.2	+	8	1662	c.1518G>C	c.(1516-1518)GAG>GAC	p.E506D		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	500	Glu-rich.|Potential.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			CCCTGAAAGAGGAGGTAGCCT	0.612													48	28	---	---	---	---	PASS	C	151497266	C	C	151497266	3	2	55	1	0	0	0	0	1	0	0	0	3303	991	35	4	1544	4	CGN	1	151497266	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	32029861	151497266	97753355	21	20585										
HRNR	388697	broad.mit.edu	37	chr1	152191644	152191644	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gccctgtcctgagccagactCgtgttgcccaaaaccagaag	10	14	0	3	rs141963410		TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:152191644C>A	uc001ezt.1	-	3	2537	c.2461G>T	c.(2461-2463)GAG>TAG	p.E821*		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	821	8.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GAGCCAGACTCGTGTTGCCCA	0.567													4	246	---	---	---	---	PASS	A	152191644	A	A	152191644	4	1	55	1	0	0	0	0	0	1	0	0	7359	893	31	2	6095	2	HRNR	1	152191644	Nonsense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	694378	152191644	97058977	22	20586										
LCE2D	353141	broad.mit.edu	37	chr1	152636633	152636633	+	Missense_Mutation	SNP	C	A	A													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agccccctcccaaatgtcctCccaagtgtaccccaaaatgt							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:152636633C>A	uc001fag.2	+	2	107	c.52C>A	c.(52-54)CCC>ACC	p.P18T		NM_178430	NP_848517	Q5TA82	LCE2D_HUMAN	late cornified envelope 2D	18	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CAAATGTCCTCCCAAGTGTAC	0.517													311	218	---	---	---	---	PASS	A	152636633	A	A	152636633	3	1	55	1	0	0	0	0	1	0	0	0	8668	855	30	2	54	2	LCE2D	1	152636633	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	444989	152636633	96613988	23	20587	468	2								
LCE2D	353141	broad.mit.edu	37	chr1	152636634	152636634	+	Missense_Mutation	SNP	C	A	A													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gccccctcccaaatgtcctcCcaagtgtaccccaaaatgtc							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:152636634C>A	uc001fag.2	+	2	108	c.53C>A	c.(52-54)CCC>CAC	p.P18H		NM_178430	NP_848517	Q5TA82	LCE2D_HUMAN	late cornified envelope 2D	18	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			AAATGTCCTCCCAAGTGTACC	0.522													307	221	---	---	---	---	PASS	A	152636634	A	A	152636634	3	1	55	1	0	0	0	0	1	0	0	0	8668	623	22	3	55	3	LCE2D	1	152636634	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1	152636634	96613987	24	20588	468	2								
IVL	3713	broad.mit.edu	37	chr1	152882692	152882692	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	actggatcaagagctagtcaAgagagatgagcaactgggaa	13	6	2	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:152882692A>G	uc001fau.2	+	2	465	c.419A>G	c.(418-420)AAG>AGG	p.K140R		NM_005547	NP_005538	P07476	INVO_HUMAN	involucrin	140					isopeptide cross-linking via N6-(L-isoglutamyl)-L-lysine|keratinization|response to UV-B	cornified envelope|cytoplasm	protein binding, bridging|structural molecule activity			ovary(3)	3	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GAGCTAGTCAAGAGAGATGAG	0.348													21	70	---	---	---	---	PASS	G	152882692	G	G	152882692	3	3	55	1	0	0	0	0	1	0	0	0	7929	72	3	5	421	5	IVL	1	152882692	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	246058	152882692	96367929	25	20589										
PYGO2	90780	broad.mit.edu	37	chr1	154932143	154932143	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tagcctgggggtacctggccCgccatgcccccctgcacacg	12	18	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:154932143C>T	uc001fft.2	-	3	539	c.333G>A	c.(331-333)GCG>GCA	p.A111A		NM_138300	NP_612157	Q9BRQ0	PYGO2_HUMAN	pygopus homolog 2	111	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding|zinc ion binding			skin(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			GTACCTGGCCCGCCATGCCCC	0.662													24	40	---	---	---	---	PASS	T	154932143	T	T	154932143	2	4	55	1	0	0	0	0	0	0	0	1	12864	639	23	1		1	PYGO2	1	154932143	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	2049451	154932143	94318478	26	20590										
IQGAP3	128239	broad.mit.edu	37	chr1	156514248	156514248	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggtaaatcttccgctgcctaTaaccccgccaatgagcctgc	8	15	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:156514248T>C	uc001fpf.2	-	20	2396	c.2321A>G	c.(2320-2322)TAT>TGT	p.Y774C		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	774	IQ 2.				small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCGCTGCCTATAACCCCGCCA	0.483													51	28	---	---	---	---	PASS	C	156514248	C	C	156514248	3	2	55	1	0	0	0	0	1	0	0	0	7816	1406	49	5	2650	5	IQGAP3	1	156514248	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	1582105	156514248	92736373	27	20591										
FCRL5	83416	broad.mit.edu	37	chr1	157494125	157494125	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cctccagaccattgtctgccTcacaggagtagattccagaa	8	13	2	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:157494125T>A	uc001fqu.2	-	10	2341	c.2183A>T	c.(2182-2184)GAG>GTG	p.E728V	FCRL5_uc009wsm.2_Missense_Mutation_p.E728V|FCRL5_uc010phv.1_Missense_Mutation_p.E728V|FCRL5_uc010phw.1_Missense_Mutation_p.E643V	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	728	Extracellular (Potential).|Ig-like C2-type 7.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				ATTGTCTGCCTCACAGGAGTA	0.557													46	157	---	---	---	---	PASS	A	157494125	A	A	157494125	3	1	55	1	0	0	0	0	1	0	0	0	5798	1551	54	5	782	5	FCRL5	1	157494125	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	979877	157494125	91756496	28	20592										
CENPF	1063	broad.mit.edu	37	chr1	214813603	214813603	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atcagaaaaggaaaacttgcAgagtaaaattaatcacttgg	8	5	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:214813603A>G	uc001hkm.2	+	12	2096	c.1922A>G	c.(1921-1923)CAG>CGG	p.Q641R		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	641	Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		GAAAACTTGCAGAGTAAAATT	0.338													25	56	---	---	---	---	PASS	G	214813603	G	G	214813603	3	3	55	1	0	0	0	0	1	0	0	0	3231	188	7	5	1964	5	CENPF	1	214813603	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	57319478	214813603	34437018	29	20593										
RHOU	58480	broad.mit.edu	37	chr1	228873420	228873420	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	attttggttttgtttttaagCggtggtgtctgtggatgggc	15	3	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:228873420C>A	uc001htf.2	+	2	884	c.263C>A	c.(262-264)GCG>GAG	p.A88E		NM_021205	NP_067028	Q7L0Q8	RHOU_HUMAN	ras homolog gene family, member U	88					regulation of small GTPase mediated signal transduction	cell projection|cytosol|focal adhesion|Golgi membrane|podosome	GTP binding|metal ion binding|protein binding				0	Breast(184;0.162)	Prostate(94;0.183)				TGTTTTTAAGCGGTGGTGTCT	0.473													33	201	---	---	---	---	PASS	A	228873420	A	A	228873420	3	1	55	1	0	0	0	0	1	0	0	0	13345	782	27	1	269	1	RHOU	1	228873420	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	14059817	228873420	20377201	30	20594										
SIPA1L2	57568	broad.mit.edu	37	chr1	232619559	232619559	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cttattgtctagctgagctcGatatttactaaatcctttca	5	9	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:232619559G>A	uc001hvg.2	-	4	2118	c.1960C>T	c.(1960-1962)CGA>TGA	p.R654*		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	654	Rap-GAP.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				AGCTGAGCTCGATATTTACTA	0.398													85	55	---	---	---	---	PASS	A	232619559	A	A	232619559	4	1	55	1	0	0	0	0	0	1	0	0	14330	1066	37	2	3280	2	SIPA1L2	1	232619559	Nonsense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	3746139	232619559	16631062	31	20595										
GGPS1	9453	broad.mit.edu	37	chr1	235506071	235506071	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	acacttaagtaagatgttcaAagaagaaaatgaataatgtt	7	3	1	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:235506071A>T	uc001hwv.2	+	4	971	c.887A>T	c.(886-888)AAA>ATA	p.K296I	GGPS1_uc001hww.2_Missense_Mutation_p.K296I|GGPS1_uc001hwx.2_Missense_Mutation_p.K242I|GGPS1_uc001hwy.2_Missense_Mutation_p.K296I	NM_001037277	NP_001032354	O95749	GGPPS_HUMAN	geranylgeranyl diphosphate synthase 1 isoform A	296					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|soluble fraction	dimethylallyltranstransferase activity|farnesyltranstransferase activity|geranyltranstransferase activity|metal ion binding			central_nervous_system(1)	1	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00192)|Prostate(94;0.0294)|all_epithelial(177;0.155)|Lung SC(1967;0.238)	OV - Ovarian serous cystadenocarcinoma(106;1.39e-05)			AAGATGTTCAAAGAAGAAAAT	0.338													52	35	---	---	---	---	PASS	T	235506071	T	T	235506071	3	4	55	1	0	0	0	0	1	0	0	0	6360	14	1	5	897	5	GGPS1	1	235506071	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	2886512	235506071	13744550	32	20596										
CHML	1122	broad.mit.edu	37	chr1	241798732	241798732	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cagagcaccaatctcttcaaCgttgtcctccatatcctgac	5	15	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:241798732C>A	uc001hzd.2	-	1	501	c.337G>T	c.(337-339)GTT>TTT	p.V113F	OPN3_uc001hza.2_Intron|OPN3_uc001hzb.2_Intron|OPN3_uc001hzc.2_Intron	NM_001821	NP_001812	P26374	RAE2_HUMAN	choroideremia-like Rab escort protein 2	113					intracellular protein transport|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(4)|skin(2)	6	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			ATCTCTTCAACGTTGTCCTCC	0.433													164	496	---	---	---	---	PASS	A	241798732	A	A	241798732	3	1	55	1	0	0	0	0	1	0	0	0	3351	536	19	1	1637	1	CHML	1	241798732	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	6292661	241798732	7451889	33	20597										
ZNF238	10472	broad.mit.edu	37	chr1	244218085	244218085	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cggtcttgagggagctggacCgggaggacaaagccagtgat	17	8	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:244218085C>T	uc001iae.2	+	1	1504	c.982C>T	c.(982-984)CGG>TGG	p.R328W	ZNF238_uc001iad.3_Missense_Mutation_p.R337W|ZNF238_uc001iaf.1_3'UTR	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	328	Interaction with DNMT3A.				negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			GGAGCTGGACCGGGAGGACAA	0.572													65	172	---	---	---	---	PASS	T	244218085	T	T	244218085	3	4	55	1	0	0	0	0	1	0	0	0	17787	643	23	1	1015	1	ZNF238	1	244218085	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	2419353	244218085	5032536	34	20598										
OR2M2	391194	broad.mit.edu	37	chr1	248343633	248343633	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gctctgaatgttttcttttgGctgttatggcttatgaccgc	10	8	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:248343633G>C	uc010pzf.1	+	1	346	c.346G>C	c.(346-348)GCT>CCT	p.A116P		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TTTTCTTTTGGCTGTTATGGC	0.403													407	235	---	---	---	---	PASS	C	248343633	C	C	248343633	3	2	55	1	0	0	0	0	1	0	0	0	11010	1203	42	4	348	4	OR2M2	1	248343633	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	4125548	248343633	906988	35	20599										
OR2G6	391211	broad.mit.edu	37	chr1	248685250	248685250	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggtggctgtgtggcccagctCtatgtggccatggggttggg	19	8	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:248685250C>G	uc001ien.1	+	1	303	c.303C>G	c.(301-303)CTC>CTG	p.L101L		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	101	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGGCCCAGCTCTATGTGGCCA	0.542													145	125	---	---	---	---	PASS	G	248685250	G	G	248685250	2	3	55	1	0	0	0	0	0	0	0	1	11000	900	32	2		2	OR2G6	1	248685250	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	341617	248685250	565371	36	20600										
OR2T29	343563	broad.mit.edu	37	chr1	248722772	248722772	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aaccttccagtgtggttggcCatcctggtgatgttggccat	12	10	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:248722772C>A	uc001ieo.1	-	1	3	c.3G>T	c.(1-3)ATG>ATT	p.M1I		NM_001004694	NP_001004694	Q8NH02	O2T29_HUMAN	olfactory receptor, family 2, subfamily T,	7	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGTGGTTGGCCATCCTGGTGA	0.473													22	123	---	---	---	---	PASS	A	248722772	A	A	248722772	3	1	55	1	0	0	0	0	1	0	0	0	11022	594	21	3	930	3	OR2T29	1	248722772	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	37522	248722772	527849	37	20601										
PGBD2	267002	broad.mit.edu	37	chr1	249210959	249210959	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggaattcactgatgaggactCaggggatgaagacagccagc	14	8	2	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr1:249210959C>T	uc001ifh.2	+	3	323	c.176C>T	c.(175-177)TCA>TTA	p.S59L	PGBD2_uc001ifg.2_Intron|PGBD2_uc009xhd.2_Missense_Mutation_p.S56L	NM_170725	NP_733843	Q6P3X8	PGBD2_HUMAN	hypothetical protein LOC267002 isoform a	59										ovary(1)	1	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.012)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			GATGAGGACTCAGGGGATGAA	0.542													27	106	---	---	---	---	PASS	T	249210959	T	T	249210959	3	4	55	1	0	0	0	0	1	0	0	0	11781	838	29	2	182	2	PGBD2	1	249210959	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	488187	249210959	39662	38	20602										
IFT172	26160	broad.mit.edu	37	chr2	27670407	27670407	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtttgacactctgggctgcaGagcgcgtggcatagtaatga	14	8	1	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:27670407G>A	uc002rku.2	-	42	4685	c.4634C>T	c.(4633-4635)TCT>TTT	p.S1545F	IFT172_uc010ezb.2_RNA	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	1545					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CTGGGCTGCAGAGCGCGTGGC	0.502													80	504	---	---	---	---	PASS	A	27670407	A	A	27670407	3	1	55	1	0	0	0	0	1	0	0	0	7557	942	33	2	643	2	IFT172	2	27670407	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08		27670407	215528966	39	20603										
GALNT14	79623	broad.mit.edu	37	chr2	31152291	31152291	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcctctccagggcgaatggcCgggcagcgtaatagtattgc	14	11	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:31152291C>T	uc002rnr.2	-	11	1740	c.1121G>A	c.(1120-1122)CGG>CAG	p.R374Q	GALNT14_uc002rnq.2_Missense_Mutation_p.R354Q|GALNT14_uc002rns.2_Missense_Mutation_p.R379Q|GALNT14_uc010ymr.1_Missense_Mutation_p.R339Q|GALNT14_uc010ezo.1_Missense_Mutation_p.R341Q	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	374	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					GGCGAATGGCCGGGCAGCGTA	0.542													4	170	---	---	---	---	PASS	T	31152291	T	T	31152291	3	4	55	1	0	0	0	0	1	0	0	0	6212	652	23	1	557	1	GALNT14	2	31152291	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	3481884	31152291	212047082	40	20604										
RASGRP3	25780	broad.mit.edu	37	chr2	33752408	33752408	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	accagctctccgttaccctgAgtgaactagtctccctgcag	8	15	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:33752408A>T	uc002rox.2	+	11	1639	c.1012A>T	c.(1012-1014)AGT>TGT	p.S338C	RASGRP3_uc010ync.1_Missense_Mutation_p.S338C|RASGRP3_uc002roy.2_Missense_Mutation_p.S338C	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	338	Ras-GEF.				MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					CGTTACCCTGAGTGAACTAGT	0.478													14	72	---	---	---	---	PASS	T	33752408	T	T	33752408	3	4	55	1	0	0	0	0	1	0	0	0	13076	304	11	5	1042	5	RASGRP3	2	33752408	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	2600117	33752408	209446965	41	20605										
PNPT1	87178	broad.mit.edu	37	chr2	55870350	55870350	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	attctaattgctgctcctgcTgtaagtgcaaaataagccat	7	9	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:55870350T>A	uc002rzf.2	-	25	2067	c.2014_splice	c.e25-1	p.Q672_splice	PNPT1_uc002rzg.2_Splice_Site	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1						mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			CTGCTCCTGCTGTAAGTGCAA	0.284													65	62	---	---	---	---	PASS	A	55870350	A	A	55870350	5	1	55	1	0	0	0	0	0	0	1	0	12173	1594	55	5	355	5	PNPT1	2	55870350	Splice_Site	SNP	T	TCGA-33-4533-01A-01D-1267-08	22117942	55870350	187329023	42	20606										
CCDC85A	114800	broad.mit.edu	37	chr2	56420530	56420530	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccctcagacggcaggcacagGaggacgggtcaccccatcac	12	16	3	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:56420530G>A	uc002rzn.2	+	2	1697	c.1195G>A	c.(1195-1197)GAG>AAG	p.E399K		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	399										breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			GCAGGCACAGGAGGACGGGTC	0.612													18	16	---	---	---	---	PASS	A	56420530	A	A	56420530	3	1	55	1	0	0	0	0	1	0	0	0	2859	1175	41	2	1201	2	CCDC85A	2	56420530	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	550180	56420530	186778843	43	20607										
ATP6V1B1	525	broad.mit.edu	37	chr2	71190703	71190703	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccagtgagttttcttgtagaTatcacccaccctatcccaga	6	13	2	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:71190703T>A	uc002shj.2	+	11	1149	c.1062T>A	c.(1060-1062)GAT>GAA	p.D354E	ATP6V1B1_uc010fdv.2_Missense_Mutation_p.D337E|ATP6V1B1_uc010fdw.2_RNA|ATP6V1B1_uc010fdx.2_Missense_Mutation_p.D312E	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	354					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						TTCTTGTAGATATCACCCACC	0.562													73	59	---	---	---	---	PASS	A	71190703	A	A	71190703	3	1	55	1	0	0	0	0	1	0	0	0	1178	1420	49	5	1104	5	ATP6V1B1	2	71190703	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	14770173	71190703	172008670	44	20608										
ZAP70	7535	broad.mit.edu	37	chr2	98351161	98351161	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggctcagtgcgccagggcgtGtaccgcatgcgcaagtatgg	16	11	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:98351161G>C	uc002syd.1	+	9	1275	c.1068G>C	c.(1066-1068)GTG>GTC	p.V356V	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Silent_p.V246V|ZAP70_uc002syf.1_Silent_p.V49V	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	356	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						GCCAGGGCGTGTACCGCATGC	0.637													101	90	---	---	---	---	PASS	C	98351161	C	C	98351161	2	2	55	1	0	0	0	0	0	0	0	1	17511	1364	48	4		4	ZAP70	2	98351161	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	27160458	98351161	144848212	45	20609										
MERTK	10461	broad.mit.edu	37	chr2	112755045	112755045	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agaaaaagagtccaggagacAaagtttgggtaagtctccca	11	7	1	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:112755045A>C	uc002thk.1	+	10	1718	c.1596A>C	c.(1594-1596)ACA>ACC	p.T532T	MERTK_uc002thl.1_Silent_p.T356T	NM_006343	NP_006334	Q12866	MERTK_HUMAN	MER receptor tyrosine kinase precursor	532	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|cell-cell signaling|leukocyte migration	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|upper_aerodigestive_tract(1)|stomach(1)|kidney(1)	9						TCCAGGAGACAAAGTTTGGGT	0.423													21	88	---	---	---	---	PASS	C	112755045	C	C	112755045	2	2	55	1	0	0	0	0	0	0	0	1	9479	117	5	5		5	MERTK	2	112755045	Silent	SNP	A	TCGA-33-4533-01A-01D-1267-08	14403884	112755045	130444328	46	20610										
DPP10	57628	broad.mit.edu	37	chr2	115200385	115200385	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	actgccagcgtgtcccatcaCatcaagtgtcaaccctcaaa	6	15	4	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:115200385C>T	uc002tla.1	+	1	487	c.30C>T	c.(28-30)CAC>CAT	p.H10H		NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	10	Mediates effects on KCND2.|Cytoplasmic (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TGTCCCATCACATCAAGTGTC	0.468													7	62	---	---	---	---	PASS	T	115200385	T	T	115200385	2	4	55	1	0	0	0	0	0	0	0	1	4727	477	17	3		3	DPP10	2	115200385	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	2445340	115200385	127998988	47	20611										
LCT	3938	broad.mit.edu	37	chr2	136590717	136590717	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atgggtggttctagcaggagCtccgggatatcttcagctcg	14	9	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:136590717C>A	uc002tuu.1	-	2	695	c.684G>T	c.(682-684)GAG>GAT	p.E228D		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	228	Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CTAGCAGGAGCTCCGGGATAT	0.488													72	494	---	---	---	---	PASS	A	136590717	A	A	136590717	3	1	55	1	0	0	0	0	1	0	0	0	8693	796	28	3	5163	3	LCT	2	136590717	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	21390332	136590717	106608656	48	20612										
LRP1B	53353	broad.mit.edu	37	chr2	141004694	141004694	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cttgctgctctttggggctgGcctttcacactgtgtgcctg	12	12	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:141004694G>T	uc002tvj.1	-	87	14257	c.13285C>A	c.(13285-13287)CCA>ACA	p.P4429T		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4429	Extracellular (Potential).				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)		TTTGGGGCTGGCCTTTCACAC	0.388										TSP Lung(27;0.18)			14	45	---	---	---	---	PASS	T	141004694	T	T	141004694	3	4	55	1	0	0	0	0	1	0	0	0	8955	1203	42	3	534	3	LRP1B	2	141004694	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	4413977	141004694	102194679	49	20613										
LRP1B	53353	broad.mit.edu	37	chr2	141115593	141115593	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	accatctccgcagtcatcaaGtcgatcacactggagatcca	7	14	4	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:141115593G>C	uc002tvj.1	-	74	12322	c.11350C>G	c.(11350-11352)CTT>GTT	p.L3784V		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3784	Extracellular (Potential).|LDL-receptor class A 32.				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)		CAGTCATCAAGTCGATCACAC	0.418										TSP Lung(27;0.18)			17	86	---	---	---	---	PASS	C	141115593	C	C	141115593	3	2	55	1	0	0	0	0	1	0	0	0	8955	1029	36	4	2521	4	LRP1B	2	141115593	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	110899	141115593	102083780	50	20614										
LRP1B	53353	broad.mit.edu	37	chr2	141259330	141259330	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	actcaaacattcatttatatGgcagtttctctcatctgaac	4	10	5	1	rs146247369		TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:141259330G>T	uc002tvj.1	-	55	9748	c.8776C>A	c.(8776-8778)CAT>AAT	p.H2926N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2926	Extracellular (Potential).|LDL-receptor class A 20.|EGF-like 6.				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)		TCATTTATATGGCAGTTTCTC	0.408										TSP Lung(27;0.18)			36	18	---	---	---	---	PASS	T	141259330	T	T	141259330	3	4	55	1	0	0	0	0	1	0	0	0	8955	1348	47	3	5171	3	LRP1B	2	141259330	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	143737	141259330	101940043	51	20615										
GALNT13	114805	broad.mit.edu	37	chr2	155295176	155295176	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atgtttctagactcaatggaCctgtaatcatgttaaaatgc	7	7	3	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:155295176C>T	uc002tyr.3	+	12	2035	c.1468C>T	c.(1468-1470)CCT>TCT	p.P490S	GALNT13_uc002tyt.3_Missense_Mutation_p.P490S|GALNT13_uc010fod.2_Missense_Mutation_p.T222I|uc002tyu.1_Intron	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	490	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						ACTCAATGGACCTGTAATCAT	0.323													25	88	---	---	---	---	PASS	T	155295176	T	T	155295176	3	4	55	1	0	0	0	0	1	0	0	0	6211	507	18	3	1506	3	GALNT13	2	155295176	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	14035846	155295176	87904197	52	20616										
IFIH1	64135	broad.mit.edu	37	chr2	163144789	163144789	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttcttcccttccaaggctggCtgggcaacttccatttggta	9	12	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:163144789C>G	uc002uce.2	-	5	1173	c.951G>C	c.(949-951)CAG>CAC	p.Q317H		NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	317	Helicase ATP-binding.				detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1						CCAAGGCTGGCTGGGCAACTT	0.478													56	53	---	---	---	---	PASS	G	163144789	G	G	163144789	3	3	55	1	0	0	0	0	1	0	0	0	7520	796	28	4	2174	4	IFIH1	2	163144789	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	7849613	163144789	80054584	53	20617										
XIRP2	129446	broad.mit.edu	37	chr2	168106960	168106960	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cacatattaaaactcaagcgGaagatatgcttgtgtcctat	7	8	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:168106960G>A	uc002udx.2	+	8	9076	c.9058G>A	c.(9058-9060)GAA>AAA	p.E3020K	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E2845K|XIRP2_uc010fpq.2_Missense_Mutation_p.E2798K|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2845	Potential.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AACTCAAGCGGAAGATATGCT	0.348													25	99	---	---	---	---	PASS	A	168106960	A	A	168106960	3	1	55	1	0	0	0	0	1	0	0	0	17427	1175	41	2	9088	2	XIRP2	2	168106960	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	4962171	168106960	75092413	54	20618										
PDE11A	50940	broad.mit.edu	37	chr2	178936293	178936293	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgaccgtttctccatgctccCcgacatagccaatgatacct	6	15	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:178936293C>A	uc002ulq.2	-	1	1190	c.872G>T	c.(871-873)GGG>GTG	p.G291V	PDE11A_uc002ulr.2_Intron|PDE11A_uc002ult.1_Intron	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	291	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TCCATGCTCCCCGACATAGCC	0.537									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				134	141	---	---	---	---	PASS	A	178936293	A	A	178936293	3	1	55	1	0	0	0	0	1	0	0	0	11631	623	22	3	2009	3	PDE11A	2	178936293	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	10829333	178936293	64263080	55	20619										
TTN	7273	broad.mit.edu	37	chr2	179395577	179395577	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttcgggtgagaaggttctggAgatttcactcgttttggaga	14	5	2	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:179395577A>C	uc010zfg.1	-	307	98285	c.98061T>G	c.(98059-98061)TCT>TCG	p.S32687S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.S26382S|TTN_uc010zfi.1_Silent_p.S26315S|TTN_uc010zfj.1_Silent_p.S26190S|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33614							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)			AAGGTTCTGGAGATTTCACTC	0.498													30	104	---	---	---	---	PASS	C	179395577	C	C	179395577	2	2	55	1	0	0	0	0	0	0	0	1	16732	291	11	5		5	TTN	2	179395577	Silent	SNP	A	TCGA-33-4533-01A-01D-1267-08	459284	179395577	63803796	56	20620										
TTN	7273	broad.mit.edu	37	chr2	179538385	179538385	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gctggtggtgcctccactttTttaggaacaggagtaggtgc	14	8	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:179538385T>A	uc010zfg.1	-	147	31082	c.30858A>T	c.(30856-30858)AAA>AAT	p.K10286N	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K6947N|TTN_uc010fre.1_Missense_Mutation_p.K794N|TTN_uc010zfk.1_5'Flank|TTN_uc002una.1_RNA|TTN_uc010frf.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11213							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)			CCTCCACTTTTTTAGGAACAG	0.328													11	31	---	---	---	---	PASS	A	179538385	A	A	179538385	3	1	55	1	0	0	0	0	1	0	0	0	16732	1838	64	5	69791	5	TTN	2	179538385	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	142808	179538385	63660988	57	20621										
TTN	7273	broad.mit.edu	37	chr2	179602984	179602984	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tctcggccagctttaaaccaCtggaaccggacattgggagc	11	12	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:179602984C>T	uc010zfg.1	-	46	10688	c.10464G>A	c.(10462-10464)CAG>CAA	p.Q3488Q	TTN_uc010zfh.1_Silent_p.Q4561Q|TTN_uc010zfi.1_Silent_p.Q4494Q|TTN_uc010zfj.1_Silent_p.Q4369Q|TTN_uc002umz.1_Silent_p.Q149Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4415							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)			CTTTAAACCACTGGAACCGGA	0.478													14	14	---	---	---	---	PASS	T	179602984	T	T	179602984	2	4	55	1	0	0	0	0	0	0	0	1	16732	564	20	3		3	TTN	2	179602984	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	64599	179602984	63596389	58	20622										
TTN	7273	broad.mit.edu	37	chr2	179666959	179666959	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttggctttagtcacggcgggGatcgtcagtttagcgcggcc	15	10	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:179666959G>C	uc002und.2	-	3	426	c.201C>G	c.(199-201)ATC>ATG	p.I67M	TTN_uc010zfg.1_Missense_Mutation_p.I67M|TTN_uc010zfh.1_Missense_Mutation_p.I67M|TTN_uc010zfi.1_Missense_Mutation_p.I67M|TTN_uc010zfj.1_Missense_Mutation_p.I67M|TTN_uc002unb.2_Missense_Mutation_p.I67M			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	67							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)			TCACGGCGGGGATCGTCAGTT	0.547													81	89	---	---	---	---	PASS	C	179666959	C	C	179666959	3	2	55	1	0	0	0	0	1	0	0	0	16732	1164	41	2	111227	2	TTN	2	179666959	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	63975	179666959	63532414	59	20623										
NEUROD1	4760	broad.mit.edu	37	chr2	182542874	182542874	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggaggcttaacgtggaagacAtgggagctgtccatggtacc	15	8	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:182542874A>G	uc002uof.2	-	2	950	c.714T>C	c.(712-714)CAT>CAC	p.H238H	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	238					amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			CGTGGAAGACATGGGAGCTGT	0.622													104	108	---	---	---	---	PASS	G	182542874	G	G	182542874	2	3	55	1	0	0	0	0	0	0	0	1	10348	214	8	5		5	NEUROD1	2	182542874	Silent	SNP	A	TCGA-33-4533-01A-01D-1267-08	2875915	182542874	60656499	60	20624										
ZNF804A	91752	broad.mit.edu	37	chr2	185803623	185803623	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gccaacttttgttgctcctcCtcagatgccaatcattccag	6	14	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:185803623C>T	uc002uph.2	+	4	4094	c.3500C>T	c.(3499-3501)CCT>CTT	p.P1167L		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	1167						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						GTTGCTCCTCCTCAGATGCCA	0.517													183	179	---	---	---	---	PASS	T	185803623	T	T	185803623	3	4	55	1	0	0	0	0	1	0	0	0	18167	681	24	3	3514	3	ZNF804A	2	185803623	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	3260749	185803623	57395750	61	20625										
COL3A1	1281	broad.mit.edu	37	chr2	189868763	189868763	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aggcaaggatgggcccccagGtcctgcgggtaacactggtg	16	11	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:189868763G>T	uc002uqj.1	+	39	2834	c.2717G>T	c.(2716-2718)GGT>GTT	p.G906V		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	906	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	GGGCCCCCAGGTCCTGCGGGT	0.547													10	52	---	---	---	---	PASS	T	189868763	T	T	189868763	3	4	55	1	0	0	0	0	1	0	0	0	3688	1261	44	3	2871	3	COL3A1	2	189868763	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	4065140	189868763	53330610	62	20626										
SLC40A1	30061	broad.mit.edu	37	chr2	190430288	190430288	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gccatgggggctaagatgttGgttaactggtcaatccttcg	13	8	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:190430288G>A	uc002uqp.3	-	6	903	c.552C>T	c.(550-552)ACC>ACT	p.T184T		NM_014585	NP_055400	Q9NP59	S40A1_HUMAN	solute carrier family 40 (iron-regulated	184					anatomical structure morphogenesis|cellular iron ion homeostasis	cytoplasm|integral to plasma membrane	iron ion transmembrane transporter activity|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000917)|Epithelial(96;0.014)|all cancers(119;0.0491)			CTAAGATGTTGGTTAACTGGT	0.483													22	107	---	---	---	---	PASS	A	190430288	A	A	190430288	2	1	55	1	0	0	0	0	0	0	0	1	14628	1335	47	3		3	SLC40A1	2	190430288	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	561525	190430288	52769085	63	20627										
PGAP1	80055	broad.mit.edu	37	chr2	197781209	197781209	+	Missense_Mutation	SNP	C	A	A													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tctgcttctgaagacttccaCcatacaaagccaccagttct							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:197781209C>A	uc002utw.2	-	3	524	c.410G>T	c.(409-411)GGT>GTT	p.G137V	PGAP1_uc002utx.2_5'UTR|PGAP1_uc002uty.1_Missense_Mutation_p.G137V|PGAP1_uc010zgv.1_RNA|PGAP1_uc010fsj.2_5'UTR	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	137	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						AAGACTTCCACCATACAAAGC	0.378													12	60	---	---	---	---	PASS	A	197781209	A	A	197781209	3	1	55	1	0	0	0	0	1	0	0	0	11777	507	18	3	2458	3	PGAP1	2	197781209	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	7350921	197781209	45418164	64	20628	469	2								
PGAP1	80055	broad.mit.edu	37	chr2	197781210	197781210	+	Missense_Mutation	SNP	C	A	A													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctgcttctgaagacttccacCatacaaagccaccagttctt							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:197781210C>A	uc002utw.2	-	3	523	c.409G>T	c.(409-411)GGT>TGT	p.G137C	PGAP1_uc002utx.2_5'UTR|PGAP1_uc002uty.1_Missense_Mutation_p.G137C|PGAP1_uc010zgv.1_RNA|PGAP1_uc010fsj.2_5'UTR	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	137	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						AGACTTCCACCATACAAAGCC	0.373													12	59	---	---	---	---	PASS	A	197781210	A	A	197781210	3	1	55	1	0	0	0	0	1	0	0	0	11777	594	21	3	2459	3	PGAP1	2	197781210	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1	197781210	45418163	65	20629	469	2								
WDR12	55759	broad.mit.edu	37	chr2	203748393	203748393	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgaaatcagctgctgttcatGggtaggagaccattttactg	11	7	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:203748393G>A	uc002uzl.2	-	11	1810	c.1060C>T	c.(1060-1062)CAT>TAT	p.H354Y	WDR12_uc010ftt.2_Missense_Mutation_p.H354Y	NM_018256	NP_060726	Q9GZL7	WDR12_HUMAN	WD repeat domain 12 protein	354	WD 6.|Sufficient for nucleolar localization.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						TGCTGTTCATGGGTAGGAGAC	0.383													16	63	---	---	---	---	PASS	A	203748393	A	A	203748393	3	1	55	1	0	0	0	0	1	0	0	0	17271	1348	47	3	223	3	WDR12	2	203748393	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	5967183	203748393	39450980	66	20630										
NBEAL1	65065	broad.mit.edu	37	chr2	204078285	204078285	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agccatgcgactgcctatccAttgtgtttgtgtcaccaaag	9	11	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:204078285A>G	uc002uzt.3	+	54	8225	c.7892A>G	c.(7891-7893)CAT>CGT	p.H2631R	NBEAL1_uc002uzs.3_Missense_Mutation_p.H1272R|NBEAL1_uc002uzu.2_Missense_Mutation_p.H126R	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	2631							binding			ovary(1)|skin(1)	2						CTGCCTATCCATTGTGTTTGT	0.363													84	79	---	---	---	---	PASS	G	204078285	G	G	204078285	3	3	55	1	0	0	0	0	1	0	0	0	10188	217	8	5	8102	5	NBEAL1	2	204078285	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	329892	204078285	39121088	67	20631										
IDH1	3417	broad.mit.edu	37	chr2	209108187	209108187	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gaaagatgtctttaaaacgcCcatcatatttcttcagaata	5	8	4	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:209108187C>A	uc002vcs.2	-	6	908	c.662G>T	c.(661-663)GGG>GTG	p.G221V	IDH1_uc002vct.2_Missense_Mutation_p.G221V|IDH1_uc002vcu.2_Missense_Mutation_p.G221V	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	221					2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity			central_nervous_system(2156)|haematopoietic_and_lymphoid_tissue(606)|bone(74)|thyroid(22)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2868				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		TTTAAAACGCCCATCATATTT	0.343			Mis		gliobastoma 								19	163	---	---	---	---	PASS	A	209108187	A	A	209108187	3	1	55	1	0	0	0	0	1	0	0	0	7494	623	22	3	602	3	IDH1	2	209108187	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	5029902	209108187	34091186	68	20632										
DOCK10	55619	broad.mit.edu	37	chr2	225702549	225702549	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccacaatgtcggtcagaaccCtgcaaaagcaaagctgttca	8	12	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:225702549C>A	uc010fwz.1	-	25	3020	c.2781_splice	c.e25-1	p.R927_splice	DOCK10_uc002vob.2_Splice_Site_p.R921_splice	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10								GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		GGTCAGAACCCTGCAAAAGCA	0.423													31	26	---	---	---	---	PASS	A	225702549	A	A	225702549	5	1	55	1	0	0	0	0	0	0	1	0	4685	695	24	3	3908	3	DOCK10	2	225702549	Splice_Site	SNP	C	TCGA-33-4533-01A-01D-1267-08	16594362	225702549	17496824	69	20633										
DOCK10	55619	broad.mit.edu	37	chr2	225721669	225721669	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gaaaatcttgagtctctgtcCacatttccctggttgtcctt	7	11	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:225721669C>T	uc010fwz.1	-	15	1955	c.1716G>A	c.(1714-1716)GTG>GTA	p.V572V	DOCK10_uc002vob.2_Silent_p.V566V	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	572							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		AGTCTCTGTCCACATTTCCCT	0.318													10	21	---	---	---	---	PASS	T	225721669	T	T	225721669	2	4	55	1	0	0	0	0	0	0	0	1	4685	581	21	3		3	DOCK10	2	225721669	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	19120	225721669	17477704	70	20634										
PSMD1	5707	broad.mit.edu	37	chr2	231937100	231937100	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtgcctggatccactaatacGggtactgttccgggatcaga	12	10	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:231937100G>T	uc002vrn.1	+	7	983	c.852G>T	c.(850-852)ACG>ACT	p.T284T	PSMD1_uc002vrm.1_Silent_p.T284T|PSMD1_uc010fxu.1_Silent_p.T148T	NM_002807	NP_002798	Q99460	PSMD1_HUMAN	proteasome 26S non-ATPase subunit 1	284					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding			ovary(1)|skin(1)	2		Ovarian(221;0.000626)|Medulloblastoma(418;0.0109)|Renal(207;0.0112)|Lung NSC(271;0.0538)|all_lung(227;0.0713)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;4e-26)|LUSC - Lung squamous cell carcinoma(224;0.0138)|Lung(119;0.0168)	Bortezomib(DB00188)	CCACTAATACGGGTACTGTTC	0.393													79	81	---	---	---	---	PASS	T	231937100	T	T	231937100	2	4	55	1	0	0	0	0	0	0	0	1	12692	1103	39	1		1	PSMD1	2	231937100	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	6215431	231937100	11262273	71	20635										
ATG16L1	55054	broad.mit.edu	37	chr2	234178666	234178666	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aggaggcggcaagcccggctGcagaaagagcttgcagaagc	16	10	0	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:234178666G>T	uc002vty.2	+	6	917	c.660G>T	c.(658-660)CTG>CTT	p.L220L	ATG16L1_uc002vtx.1_Silent_p.L76L|ATG16L1_uc002vua.2_Silent_p.L220L|ATG16L1_uc002vub.2_Silent_p.L97L|ATG16L1_uc002vtz.2_Silent_p.L76L|ATG16L1_uc002vud.3_Silent_p.L136L	NM_030803	NP_110430	Q676U5	A16L1_HUMAN	APG16 autophagy 16-like isoform 1	220	Potential.				autophagic vacuole assembly|protein homooligomerization|protein transport	autophagic vacuole|pre-autophagosomal structure membrane	protein binding				0		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0539)		Epithelial(121;1.53e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000379)|LUSC - Lung squamous cell carcinoma(224;0.00619)|Lung(119;0.00732)|GBM - Glioblastoma multiforme(43;0.11)		AAGCCCGGCTGCAGAAAGAGC	0.443													19	159	---	---	---	---	PASS	T	234178666	T	T	234178666	2	4	55	1	0	0	0	0	0	0	0	1	1091	1306	46	3		3	ATG16L1	2	234178666	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	2241566	234178666	9020707	72	20636										
DNAJB3	414061	broad.mit.edu	37	chr2	234652404	234652404	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttggcgtccgacaacacctcGtaggcctcggccacctgctt	10	16	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:234652404G>A	uc002vuz.2	-	1	258	c.159C>T	c.(157-159)TAC>TAT	p.Y53Y	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron	NM_001001394	NP_001001394	Q8WWF6	DNJB3_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 3	53	J.				protein folding		heat shock protein binding|unfolded protein binding				0						ACAACACCTCGTAGGCCTCGG	0.632													111	455	---	---	---	---	PASS	A	234652404	A	A	234652404	2	1	55	1	0	0	0	0	0	0	0	1	4621	1140	40	1		1	DNAJB3	2	234652404	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	473738	234652404	8546969	73	20637										
TRPM8	79054	broad.mit.edu	37	chr2	234835254	234835254	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctggacagcacccggaccctGtactccagcgcgtctcggag	12	16	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:234835254G>T	uc002vvh.2	+	2	112	c.72G>T	c.(70-72)CTG>CTT	p.L24L	TRPM8_uc010fyj.2_5'UTR	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	24	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	CCCGGACCCTGTACTCCAGCG	0.517													40	48	---	---	---	---	PASS	T	234835254	T	T	234835254	2	4	55	1	0	0	0	0	0	0	0	1	16589	1364	48	3		3	TRPM8	2	234835254	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	182850	234835254	8364119	74	20638										
ESPNL	339768	broad.mit.edu	37	chr2	239037448	239037448	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgacgggctggtgcccacgcGggatgagcgcggccagccca	17	15	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr2:239037448G>T	uc002vxq.3	+	8	1426	c.1316G>T	c.(1315-1317)CGG>CTG	p.R439L	ESPNL_uc010fyw.2_Missense_Mutation_p.R135L	NM_194312	NP_919288	Q6ZVH7	ESPNL_HUMAN	espin-like	439										pancreas(1)	1		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;4.71e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.02e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.63e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000109)|Lung(119;0.0108)|LUSC - Lung squamous cell carcinoma(224;0.0253)		GTGCCCACGCGGGATGAGCGC	0.706													7	3	---	---	---	---	PASS	T	239037448	T	T	239037448	3	4	55	1	0	0	0	0	1	0	0	0	5255	1116	39	1	1346	1	ESPNL	2	239037448	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	4202194	239037448	4161925	75	20639										
TSEN2	80746	broad.mit.edu	37	chr3	12531401	12531401	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggtcaggaccatggtcctctGaaagaattcaagatattccg	10	9	3	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:12531401G>T	uc003bxc.2	+	2	489	c.102G>T	c.(100-102)CTG>CTT	p.L34L	TSEN2_uc003bwy.2_Silent_p.L34L|TSEN2_uc003bwz.2_Silent_p.L34L|TSEN2_uc003bxa.2_Silent_p.L34L|TSEN2_uc011auq.1_Silent_p.L34L|TSEN2_uc003bxb.2_Silent_p.L34L|TSEN2_uc011aur.1_5'UTR	NM_025265	NP_079541	Q8NCE0	SEN2_HUMAN	tRNA-intron nuclease 2 isoform 1	34					mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|nucleolus|tRNA-intron endonuclease complex	nucleic acid binding|tRNA-intron endonuclease activity			central_nervous_system(1)	1						ATGGTCCTCTGAAAGAATTCA	0.448													4	171	---	---	---	---	PASS	T	12531401	T	T	12531401	2	4	55	1	0	0	0	0	0	0	0	1	16609	1277	45	2		2	TSEN2	3	12531401	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08		12531401	185491029	76	20640										
NEK10	152110	broad.mit.edu	37	chr3	27243972	27243972	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gaaggggggactcaaagtcgCcatctgataaaggatgcagc	14	8	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:27243972C>T	uc010hfk.2	-	3	332	c.103G>A	c.(103-105)GCG>ACG	p.A35T	NEK10_uc003cds.1_Missense_Mutation_p.A120T|NEK10_uc010hfj.2_Missense_Mutation_p.A35T			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	723							ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						CTCAAAGTCGCCATCTGATAA	0.488													35	59	---	---	---	---	PASS	T	27243972	T	T	27243972	3	4	55	1	0	0	0	0	1	0	0	0	10322	754	26	3		3	NEK10	3	27243972	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	14712571	27243972	170778458	77	20641										
OSBPL10	114884	broad.mit.edu	37	chr3	31871615	31871615	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cttgtgatgcgtgattgtgaCaacaccgggggcccccacac	12	13	0	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:31871615C>A	uc003cev.2	-	5	1027	c.646G>T	c.(646-648)GTC>TTC	p.V216F	OSBPL10_uc003ceu.1_5'UTR|OSBPL10_uc011axf.1_Intron	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	216					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		GTGATTGTGACAACACCGGGG	0.577													35	51	---	---	---	---	PASS	A	31871615	A	A	31871615	3	1	55	1	0	0	0	0	1	0	0	0	11275	478	17	3	1684	3	OSBPL10	3	31871615	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	4627643	31871615	166150815	78	20642										
SCN11A	11280	broad.mit.edu	37	chr3	38945400	38945400	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctcaaaactggcctccatctTgtgatgctccatggccaaga	8	13	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:38945400T>A	uc011ays.1	-	12	1997	c.1798A>T	c.(1798-1800)AAG>TAG	p.K600*		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	600	II.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	GCCTCCATCTTGTGATGCTCC	0.373													4	157	---	---	---	---	PASS	A	38945400	A	A	38945400	4	1	55	1	0	0	0	0	0	1	0	0	13913	1821	63	5	3637	5	SCN11A	3	38945400	Nonsense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	7073785	38945400	159077030	79	20643										
SCAP	22937	broad.mit.edu	37	chr3	47467063	47467063	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cactgtgaccacggcagccaGggccagcccccacttggact	11	17	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:47467063G>C	uc003crh.1	-	8	1204	c.949C>G	c.(949-951)CTG>GTG	p.L317V	SCAP_uc011baz.1_Missense_Mutation_p.L62V|SCAP_uc003crg.2_Intron	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	317	SSD.|Helical; Name=3; (Potential).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		ACGGCAGCCAGGGCCAGCCCC	0.672													48	48	---	---	---	---	PASS	C	47467063	C	C	47467063	3	2	55	1	0	0	0	0	1	0	0	0	13877	991	35	4	2954	4	SCAP	3	47467063	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	8521663	47467063	150555367	80	20644										
CELSR3	1951	broad.mit.edu	37	chr3	48697982	48697982	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtttatcacaaaaggagtatCaggtgccacaccagttaggg	11	8	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:48697982C>G	uc003cul.2	-	1	2367	c.2086G>C	c.(2086-2088)GAT>CAT	p.D696H	CELSR3_uc003cuf.1_Missense_Mutation_p.D766H	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	696	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AAAGGAGTATCAGGTGCCACA	0.537													50	21	---	---	---	---	PASS	G	48697982	G	G	48697982	3	3	55	1	0	0	0	0	1	0	0	0	3223	826	29	2	7992	2	CELSR3	3	48697982	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1230919	48697982	149324448	81	20645										
CELSR3	1951	broad.mit.edu	37	chr3	48698817	48698817	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gctactgtcacggccaccatCgtggtggccgagaggcgcgg	16	13	1	1	rs111946927		TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:48698817C>T	uc003cul.2	-	1	1532	c.1251G>A	c.(1249-1251)ACG>ACA	p.T417T	CELSR3_uc003cuf.1_Silent_p.T487T	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	417	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CGGCCACCATCGTGGTGGCCG	0.657													36	33	---	---	---	---	PASS	T	48698817	T	T	48698817	2	4	55	1	0	0	0	0	0	0	0	1	3223	871	31	2		2	CELSR3	3	48698817	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	835	48698817	149323613	82	20646										
GRM2	2912	broad.mit.edu	37	chr3	51749765	51749765	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	caagaccaaccgcattgcacGcatcttcggtggggcccggg	13	14	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:51749765G>A	uc010hlv.2	+	4	2215	c.1976G>A	c.(1975-1977)CGC>CAC	p.R659H	GRM2_uc003dbo.3_Missense_Mutation_p.R41H|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	659	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	CGCATTGCACGCATCTTCGGT	0.622													51	36	---	---	---	---	PASS	A	51749765	A	A	51749765	3	1	55	1	0	0	0	0	1	0	0	0	6797	1087	38	1	1986	1	GRM2	3	51749765	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	3050948	51749765	146272665	83	20647										
FOXP1	27086	broad.mit.edu	37	chr3	71102787	71102787	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggtggaggaaggacaattacCtgttgaagcatgagggcctg	16	6	0	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:71102787C>A	uc003dol.2	-	4	743	c.420G>T	c.(418-420)CAG>CAT	p.Q140H	FOXP1_uc003dom.2_Intron|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Missense_Mutation_p.Q140H|FOXP1_uc003dop.2_Missense_Mutation_p.Q140H|FOXP1_uc003doq.1_Missense_Mutation_p.Q140H|FOXP1_uc003doi.2_Missense_Mutation_p.Q40H|FOXP1_uc003doj.2_Missense_Mutation_p.Q40H|FOXP1_uc003dok.2_Intron	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	140	Gln-rich.				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)		GGACAATTACCTGTTGAAGCA	0.592			T	PAX5	ALL								56	36	---	---	---	---	PASS	A	71102787	A	A	71102787	3	1	55	1	0	0	0	0	1	0	0	0	6026	695	24	3	1669	3	FOXP1	3	71102787	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	19353022	71102787	126919643	84	20648										
CADM2	253559	broad.mit.edu	37	chr3	85961556	85961556	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aaaagaagaggatgcaaatcGcaagacattcactgtcagca	9	8	2	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:85961556G>T	uc003dqj.2	+	5	1162	c.536G>T	c.(535-537)CGC>CTC	p.R179L	CADM2_uc003dqk.2_Missense_Mutation_p.R188L|CADM2_uc003dql.2_Missense_Mutation_p.R181L	NM_153184	NP_694854	Q8N3J6	CADM2_HUMAN	immunoglobulin superfamily, member 4D	179	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly	integral to membrane|plasma membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4		Lung NSC(201;0.0148)		LUSC - Lung squamous cell carcinoma(29;0.000815)|Lung(72;0.00304)|BRCA - Breast invasive adenocarcinoma(55;0.156)|Epithelial(33;0.157)		GATGCAAATCGCAAGACATTC	0.393													28	50	---	---	---	---	PASS	T	85961556	T	T	85961556	3	4	55	1	0	0	0	0	1	0	0	0	2567	1087	38	1	625	1	CADM2	3	85961556	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	14858769	85961556	112060874	85	20649										
DTX3L	151636	broad.mit.edu	37	chr3	122287797	122287797	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tcaagtcgatcaggtgacctGgaagcagctcgtgagtcttt	12	9	3	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:122287797G>A	uc003efk.2	+	3	950	c.861G>A	c.(859-861)CTG>CTA	p.L287L	DTX3L_uc010hrj.2_Intron	NM_138287	NP_612144	Q8TDB6	DTX3L_HUMAN	deltex 3-like	287					histone monoubiquitination|response to DNA damage stimulus	cytoplasm|nucleus	histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)	4				GBM - Glioblastoma multiforme(114;0.0459)		CAGGTGACCTGGAAGCAGCTC	0.398													65	32	---	---	---	---	PASS	A	122287797	A	A	122287797	2	1	55	1	0	0	0	0	0	0	0	1	4796	1335	47	3		3	DTX3L	3	122287797	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	36326241	122287797	75734633	86	20650										
PARP14	54625	broad.mit.edu	37	chr3	122399772	122399772	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccgctgctggtcgagggctcCtggggccccgaccccccgaa	14	18	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:122399772C>T	uc003efq.3	+	1	101	c.42C>T	c.(40-42)TCC>TCT	p.S14S		NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	14					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		TCGAGGGCTCCTGGGGCCCCG	0.672													19	17	---	---	---	---	PASS	T	122399772	T	T	122399772	2	4	55	1	0	0	0	0	0	0	0	1	11458	668	24	3		3	PARP14	3	122399772	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	111975	122399772	75622658	87	20651										
PRR23B	389151	broad.mit.edu	37	chr3	138739139	138739139	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccaggaaaacgtccacttccAgcccggcagacgagtcgtgc	11	15	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:138739139A>T	uc003esy.1	-	1	630	c.365T>A	c.(364-366)CTG>CAG	p.L122Q		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	122										breast(1)	1						GTCCACTTCCAGCCCGGCAGA	0.632													65	329	---	---	---	---	PASS	T	138739139	T	T	138739139	3	4	55	1	0	0	0	0	1	0	0	0	12595	188	7	5	436	5	PRR23B	3	138739139	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	16339367	138739139	59283291	88	20652										
LRRIQ4	344657	broad.mit.edu	37	chr3	169540309	169540309	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gacctggacgagaacaaaatAggtgccatcccagaagagat	11	9	0	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:169540309A>T	uc003fgb.2	+	1	600	c.600A>T	c.(598-600)ATA>ATT	p.I200I		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	200	LRR 8.										0						AGAACAAAATAGGTGCCATCC	0.512													128	761	---	---	---	---	PASS	T	169540309	T	T	169540309	2	4	55	1	0	0	0	0	0	0	0	1	9031	410	15	5		5	LRRIQ4	3	169540309	Silent	SNP	A	TCGA-33-4533-01A-01D-1267-08	30801170	169540309	28482121	89	20653										
SAMD7	344658	broad.mit.edu	37	chr3	169644948	169644948	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agaatggggtttgccctccaGttcctcgaccatctctgcca	9	14	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:169644948G>T	uc003fgd.2	+	6	1165	c.898G>T	c.(898-900)GTT>TTT	p.V300F	SAMD7_uc003fge.2_Missense_Mutation_p.V300F|SAMD7_uc011bpo.1_Missense_Mutation_p.V201F	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	300										skin(1)	1	all_cancers(22;1.55e-22)|all_epithelial(15;2.41e-27)|all_lung(20;3.52e-17)|Lung NSC(18;1.44e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0106)			TTGCCCTCCAGTTCCTCGACC	0.507													468	163	---	---	---	---	PASS	T	169644948	T	T	169644948	3	4	55	1	0	0	0	0	1	0	0	0	13824	1029	36	3	912	3	SAMD7	3	169644948	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	104639	169644948	28377482	90	20654										
ZNF639	51193	broad.mit.edu	37	chr3	179052178	179052178	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttggaaatgaaagggaattaAtaagtcaccttccagtccat	8	7	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr3:179052178A>T	uc003fjq.1	+	6	1769	c.1426A>T	c.(1426-1428)ATA>TTA	p.I476L	ZNF639_uc003fjr.1_Missense_Mutation_p.I476L	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	476	C2H2-type 8.				initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			AAGGGAATTAATAAGTCACCT	0.308													119	50	---	---	---	---	PASS	T	179052178	T	T	179052178	3	4	55	1	0	0	0	0	1	0	0	0	18053	101	4	5	1440	5	ZNF639	3	179052178	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	9407230	179052178	18970252	91	20655										
UGT2A3	79799	broad.mit.edu	37	chr4	69796922	69796922	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tacagccgagtattggctccTaatgtggatggtttttttcc	10	8	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr4:69796922T>C	uc003hef.2	-	4	1066	c.1035A>G	c.(1033-1035)TTA>TTG	p.L345L	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	345	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						TATTGGCTCCTAATGTGGATG	0.378													32	13	---	---	---	---	PASS	C	69796922	C	C	69796922	2	2	55	1	0	0	0	0	0	0	0	1	16952	1519	53	5		5	UGT2A3	4	69796922	Silent	SNP	T	TCGA-33-4533-01A-01D-1267-08		69796922	121357354	92	20656										
UGT2A3	79799	broad.mit.edu	37	chr4	69798458	69798458	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	taccatcttcccctgaactcTggacaaaattttccatttcc	3	14	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr4:69798458T>C	uc003hef.2	-	3	915	c.884A>G	c.(883-885)CAG>CGG	p.Q295R	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	295	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						CCCTGAACTCTGGACAAAATT	0.338													64	36	---	---	---	---	PASS	C	69798458	C	C	69798458	3	2	55	1	0	0	0	0	1	0	0	0	16952	1580	55	5	715	5	UGT2A3	4	69798458	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	1536	69798458	121355818	93	20657										
GPRIN3	285513	broad.mit.edu	37	chr4	90169135	90169135	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgtctttgcaaatggttctgGatcgcgattcccagggactc	11	10	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr4:90169135G>T	uc003hsm.1	-	2	2646	c.2127C>A	c.(2125-2127)ATC>ATA	p.I709I		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	709										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		AATGGTTCTGGATCGCGATTC	0.473													71	26	---	---	---	---	PASS	T	90169135	T	T	90169135	2	4	55	1	0	0	0	0	0	0	0	1	6731	1164	41	2		2	GPRIN3	4	90169135	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	20370677	90169135	100985141	94	20658										
ASB5	140458	broad.mit.edu	37	chr4	177138064	177138064	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttttggcattgatatctgctCcaaattctagcagtaagttt	7	7	2	1	rs144451873		TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr4:177138064C>A	uc003iuq.1	-	6	783	c.767G>T	c.(766-768)GGA>GTA	p.G256V	ASB5_uc003iup.1_Missense_Mutation_p.G203V	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	256	ANK 6.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		GATATCTGCTCCAAATTCTAG	0.413													98	57	---	---	---	---	PASS	A	177138064	A	A	177138064	3	1	55	1	0	0	0	0	1	0	0	0	1026	855	30	2	230	2	ASB5	4	177138064	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	86968929	177138064	14016212	95	20659										
CCDC111	201973	broad.mit.edu	37	chr4	185606641	185606641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttctttggtgaataaagatgGcattaaaggaggtaaagtta	11	2	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr4:185606641G>T	uc003iwk.2	+	10	1608	c.1175G>T	c.(1174-1176)GGC>GTC	p.G392V	CCDC111_uc003iwj.2_Missense_Mutation_p.G391V|CCDC111_uc003iwl.2_Missense_Mutation_p.G392V|CCDC111_uc003iwm.2_Missense_Mutation_p.G263V|CCDC111_uc003iwn.2_Missense_Mutation_p.G132V	NM_152683	NP_689896	Q96LW4	CC111_HUMAN	coiled-coil domain containing 111	392					DNA replication, synthesis of RNA primer		DNA primase activity			central_nervous_system(1)	1		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.00531)|Hepatocellular(41;0.00932)|Renal(120;0.0246)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|all_neural(102;0.131)		all cancers(43;5.84e-27)|Epithelial(43;2.2e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.28e-11)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.03e-05)|Colorectal(24;7.57e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000249)|COAD - Colon adenocarcinoma(29;0.000502)|LUSC - Lung squamous cell carcinoma(40;0.00995)|READ - Rectum adenocarcinoma(43;0.173)		AATAAAGATGGCATTAAAGGA	0.338													54	39	---	---	---	---	PASS	T	185606641	T	T	185606641	3	4	55	1	0	0	0	0	1	0	0	0	2748	1203	42	3	1205	3	CCDC111	4	185606641	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	8468577	185606641	5547635	96	20660										
TARS	6897	broad.mit.edu	37	chr5	33461126	33461126	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aggactcacccgggtacgaaGattccaacaggatgatgctc	11	11	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr5:33461126G>A	uc003jhy.2	+	12	1665	c.1370G>A	c.(1369-1371)AGA>AAA	p.R457K	TARS_uc011cob.1_Missense_Mutation_p.R445K|TARS_uc010iup.1_Missense_Mutation_p.R398K|TARS_uc011coc.1_Missense_Mutation_p.R478K|TARS_uc003jhz.2_Missense_Mutation_p.R353K|TARS_uc011cod.1_Missense_Mutation_p.R336K	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	457					threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)	CGGGTACGAAGATTCCAACAG	0.488													213	109	---	---	---	---	PASS	A	33461126	A	A	33461126	3	1	55	1	0	0	0	0	1	0	0	0	15556	942	33	2	1416	2	TARS	5	33461126	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08		33461126	147454134	97	20661										
HCN1	348980	broad.mit.edu	37	chr5	45461983	45461983	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agacacccagcaatctggtgGgaagtcctgcagtagtggta	13	9	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr5:45461983G>A	uc003jok.2	-	3	1001	c.976C>T	c.(976-978)CCA>TCA	p.P326S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	326	Extracellular (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CAATCTGGTGGGAAGTCCTGC	0.408													38	26	---	---	---	---	PASS	A	45461983	A	A	45461983	3	1	55	1	0	0	0	0	1	0	0	0	6996	1232	43	3	1720	3	HCN1	5	45461983	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	12000857	45461983	135453277	98	20662										
TNPO1	3842	broad.mit.edu	37	chr5	72192363	72192363	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	caatgccacatgggcaattgGagaaatctccattcaaatgg	9	9	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr5:72192363G>A	uc003kck.3	+	19	2369	c.2222G>A	c.(2221-2223)GGA>GAA	p.G741E	TNPO1_uc011csj.1_Missense_Mutation_p.G691E|TNPO1_uc003kch.2_Missense_Mutation_p.G733E|TNPO1_uc003kci.3_Missense_Mutation_p.G733E|TNPO1_uc003kcg.3_Missense_Mutation_p.G733E	NM_002270	NP_002261	Q92973	TNPO1_HUMAN	transportin 1 isoform 1	741					interspecies interaction between organisms|mRNA metabolic process|protein import into nucleus, translocation	cytosol|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			skin(3)|urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)	7		Lung NSC(167;0.0053)|Ovarian(174;0.0175)		OV - Ovarian serous cystadenocarcinoma(47;6.14e-54)		TGGGCAATTGGAGAAATCTCC	0.254													53	21	---	---	---	---	PASS	A	72192363	A	A	72192363	3	1	55	1	0	0	0	0	1	0	0	0	16332	1174	41	2	2296	2	TNPO1	5	72192363	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	26730380	72192363	108722897	99	20663										
RASGRF2	5924	broad.mit.edu	37	chr5	80503102	80503102	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgaatgctttgagtccttgtCggccatggagctggcagaac	13	10	0	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr5:80503102C>T	uc003kha.1	+	21	3005	c.3005C>T	c.(3004-3006)TCG>TTG	p.S1002L	RNU5E_uc011cto.1_Intron|RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	1002	Ras-GEF.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		GAGTCCTTGTCGGCCATGGAG	0.572													79	35	---	---	---	---	PASS	T	80503102	T	T	80503102	3	4	55	1	0	0	0	0	1	0	0	0	13073	893	31	2	3087	2	RASGRF2	5	80503102	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	8310739	80503102	100412158	100	20664										
GPR98	84059	broad.mit.edu	37	chr5	90074835	90074835	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agatgaggaaaagtctgcatGttgaaatccttgatgatgac	11	5	1	6			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr5:90074835G>T	uc003kju.2	+	64	13099	c.13003G>T	c.(13003-13005)GTT>TTT	p.V4335F	GPR98_uc003kjt.2_Missense_Mutation_p.V2041F|GPR98_uc003kjw.2_5'Flank	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	4335	Extracellular (Potential).|Calx-beta 29.				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AAGTCTGCATGTTGAAATCCT	0.478													68	33	---	---	---	---	PASS	T	90074835	T	T	90074835	3	4	55	1	0	0	0	0	1	0	0	0	6721	1377	48	3	13257	3	GPR98	5	90074835	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	9571733	90074835	90840425	101	20665										
GPR98	84059	broad.mit.edu	37	chr5	90101179	90101179	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttatgatttctaggagaggcAcatatggagctctctcggtt	11	7	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr5:90101179A>T	uc003kju.2	+	72	14836	c.14740A>T	c.(14740-14742)ACA>TCA	p.T4914S	GPR98_uc003kjt.2_Missense_Mutation_p.T2620S|GPR98_uc003kjw.2_Missense_Mutation_p.T575S	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	4914	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TAGGAGAGGCACATATGGAGC	0.468													49	22	---	---	---	---	PASS	T	90101179	T	T	90101179	3	4	55	1	0	0	0	0	1	0	0	0	6721	159	6	5	15026	5	GPR98	5	90101179	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	26344	90101179	90814081	102	20666										
DMXL1	1657	broad.mit.edu	37	chr5	118485124	118485124	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttctaaatttgtactattacGaagtgtggacctagtttctt	7	6	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr5:118485124G>T	uc003ksd.2	+	18	3783	c.3602G>T	c.(3601-3603)CGA>CTA	p.R1201L	DMXL1_uc010jcl.1_Missense_Mutation_p.R1201L	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1201										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		GTACTATTACGAAGTGTGGAC	0.478													155	68	---	---	---	---	PASS	T	118485124	T	T	118485124	3	4	55	1	0	0	0	0	1	0	0	0	4594	1058	37	2	3672	2	DMXL1	5	118485124	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	28383945	118485124	62430136	103	20667										
FBN2	2201	broad.mit.edu	37	chr5	127674728	127674728	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	attccactgccacagaggtcAggagaaatcctgcactcgtc	9	13	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr5:127674728A>T	uc003kuu.2	-	26	3808	c.3369T>A	c.(3367-3369)CCT>CCA	p.P1123P	FBN2_uc003kuv.2_Silent_p.P1090P	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1123	EGF-like 16; calcium-binding.				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)		CACAGAGGTCAGGAGAAATCC	0.458													97	36	---	---	---	---	PASS	T	127674728	T	T	127674728	2	4	55	1	0	0	0	0	0	0	0	1	5703	175	7	5		5	FBN2	5	127674728	Silent	SNP	A	TCGA-33-4533-01A-01D-1267-08	9189604	127674728	53240532	104	20668										
SLC27A6	28965	broad.mit.edu	37	chr5	128326129	128326129	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtttcagtatattggagaacTttgtcgctacctttgcaaac	8	8	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr5:128326129T>G	uc003kuy.2	+	5	1337	c.941T>G	c.(940-942)CTT>CGT	p.L314R	SLC27A6_uc003kuz.2_Missense_Mutation_p.L314R	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	314					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		ATTGGAGAACTTTGTCGCTAC	0.338													62	16	---	---	---	---	PASS	G	128326129	G	G	128326129	3	3	55	1	0	0	0	0	1	0	0	0	14530	1609	56	5	955	5	SLC27A6	5	128326129	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	651401	128326129	52589131	105	20669										
PCDHA2	56146	broad.mit.edu	37	chr5	140175437	140175437	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cagactaagtttaccatagaTcccatctcaggggaaatcag	8	10	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr5:140175437T>A	uc003lhd.2	+	1	994	c.888T>A	c.(886-888)GAT>GAA	p.D296E	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.D296E|PCDHA2_uc011czy.1_Missense_Mutation_p.D296E	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	296	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTACCATAGATCCCATCTCAG	0.428													193	59	---	---	---	---	PASS	A	140175437	A	A	140175437	3	1	55	1	0	0	0	0	1	0	0	0	11524	1432	50	5	890	5	PCDHA2	5	140175437	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	11849308	140175437	40739823	106	20670										
CDHR2	54825	broad.mit.edu	37	chr5	176005554	176005554	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	caatgcacccgtggttagcgGctcctacaacatcttcgtcc	8	15	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr5:176005554G>C	uc003mem.1	+	16	1829	c.1763G>C	c.(1762-1764)GGC>GCC	p.G588A	CDHR2_uc003men.1_Missense_Mutation_p.G588A	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	588	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GTGGTTAGCGGCTCCTACAAC	0.617													83	26	---	---	---	---	PASS	C	176005554	C	C	176005554	3	2	55	1	0	0	0	0	1	0	0	0	3119	1203	42	4	1821	4	CDHR2	5	176005554	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	35830117	176005554	4909706	107	20671										
BTNL8	79908	broad.mit.edu	37	chr5	180377501	180377501	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gacaagcaacagtgagtcctCctcacaggcaaccacgccct	8	16	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr5:180377501C>A	uc003mmp.2	+	8	1694	c.1460C>A	c.(1459-1461)TCC>TAC	p.S487Y	BTNL8_uc003mmq.2_3'UTR|BTNL8_uc011dhg.1_Missense_Mutation_p.S362Y|BTNL8_uc010jll.2_3'UTR|BTNL8_uc010jlm.2_Missense_Mutation_p.S371Y|BTNL8_uc011dhh.1_Missense_Mutation_p.S303Y	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	487	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGTGAGTCCTCCTCACAGGCA	0.522													88	25	---	---	---	---	PASS	A	180377501	A	A	180377501	3	1	55	1	0	0	0	0	1	0	0	0	1567	855	30	2	1646	2	BTNL8	5	180377501	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	4371947	180377501	537759	108	20672										
SNRNP48	154007	broad.mit.edu	37	chr6	7602899	7602899	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tcctaccttgaaatcctggcAgaagtacgagattataaaag	8	8	0	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:7602899A>G	uc003mxr.2	+	6	698	c.639A>G	c.(637-639)GCA>GCG	p.A213A	SNRNP48_uc003mxs.2_RNA|SNRNP48_uc003mxt.1_5'UTR	NM_152551	NP_689764	Q6IEG0	SNR48_HUMAN	U11/U12 snRNP 48K	213					mRNA processing	cytoplasm|U12-type spliceosomal complex	metal ion binding				0						AAATCCTGGCAGAAGTACGAG	0.308													7	27	---	---	---	---	PASS	G	7602899	G	G	7602899	2	3	55	1	0	0	0	0	0	0	0	1	14857	175	7	5		5	SNRNP48	6	7602899	Silent	SNP	A	TCGA-33-4533-01A-01D-1267-08		7602899	163512168	109	20673										
OR2B3	442184	broad.mit.edu	37	chr6	29054278	29054278	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aatggctgttccataaaagaGggacaccacaatcatgtggg	11	8	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:29054278G>T	uc003nlx.2	-	1	813	c.748C>A	c.(748-750)CTC>ATC	p.L250I		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						CCATAAAAGAGGGACACCACA	0.443													38	82	---	---	---	---	PASS	T	29054278	T	T	29054278	3	4	55	1	0	0	0	0	1	0	0	0	10990	1000	35	3	197	3	OR2B3	6	29054278	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	21451379	29054278	142060789	110	20674										
GTF2H4	2968	broad.mit.edu	37	chr6	30881678	30881678	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgtgctcgtgttcgagaactCggccaagcggctcatggtgg	15	11	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:30881678C>A	uc003nsa.1	+	14	1514	c.1307C>A	c.(1306-1308)TCG>TAG	p.S436*	GTF2H4_uc003nsb.1_Nonsense_Mutation_p.S274*|VARS2_uc003nsc.1_5'Flank|VARS2_uc003nsd.2_5'Flank|VARS2_uc011dmx.1_5'Flank|VARS2_uc011dmy.1_5'Flank|VARS2_uc011dmz.1_5'Flank|VARS2_uc011dna.1_5'Flank|VARS2_uc011dnb.1_5'Flank|VARS2_uc011dnc.1_5'Flank	NM_001517	NP_001508	Q92759	TF2H4_HUMAN	general transcription factor IIH, polypeptide 4,	436					mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3						TTCGAGAACTCGGCCAAGCGG	0.632								NER					20	48	---	---	---	---	PASS	A	30881678	A	A	30881678	4	1	55	1	0	0	0	0	0	1	0	0	6865	893	31	2	1357	2	GTF2H4	6	30881678	Nonsense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1827400	30881678	140233389	111	20675										
ANKS1A	23294	broad.mit.edu	37	chr6	34951166	34951166	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccccaccccagccacctctcAtctccagtatggactccata	4	20	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:34951166A>G	uc003ojx.3	+	7	1118	c.976A>G	c.(976-978)ATC>GTC	p.I326V	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	326						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						GCCACCTCTCATCTCCAGTAT	0.413													127	179	---	---	---	---	PASS	G	34951166	G	G	34951166	3	3	55	1	0	0	0	0	1	0	0	0	688	217	8	5	1002	5	ANKS1A	6	34951166	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	4069488	34951166	136163901	112	20676										
DNAH8	1769	broad.mit.edu	37	chr6	38704871	38704871	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctttactgttctggatgcgtCgaaaggactcttaaatggaa	10	7	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:38704871C>A	uc003ooe.1	+	4	740	c.140C>A	c.(139-141)TCG>TAG	p.S47*		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CTGGATGCGTCGAAAGGACTC	0.388													57	107	---	---	---	---	PASS	A	38704871	A	A	38704871	4	1	55	1	0	0	0	0	0	1	0	0	4607	893	31	2	146	2	DNAH8	6	38704871	Nonsense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	3753705	38704871	132410196	113	20677										
C6orf138	442213	broad.mit.edu	37	chr6	48036181	48036181	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gctgggagcgaccaggcgctCcaggtcgccctcgggctgga	17	14	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:48036181C>T	uc011dwm.1	-	1	245	c.160G>A	c.(160-162)GAG>AAG	p.E54K	C6orf138_uc011dwn.1_Intron|C6orf138_uc003ozf.2_Missense_Mutation_p.E71K	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	71						integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						ACCAGGCGCTCCAGGTCGCCC	0.657													66	86	---	---	---	---	PASS	T	48036181	T	T	48036181	3	4	55	1	0	0	0	0	1	0	0	0	2332	864	30	2	2341	2	C6orf138	6	48036181	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	9331310	48036181	123078886	114	20678										
BAI3	577	broad.mit.edu	37	chr6	69666693	69666693	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gagaagatgcaatgagcagcGatgccctggtgagaatgaac	14	7	0	5			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:69666693G>A	uc003pev.3	+	8	1965	c.1517G>A	c.(1516-1518)CGA>CAA	p.R506Q	BAI3_uc010kak.2_Missense_Mutation_p.R506Q	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	506	TSP type-1 4.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity	p.R506R(1)		lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AATGAGCAGCGATGCCCTGGT	0.428													53	62	---	---	---	---	PASS	A	69666693	A	A	69666693	3	1	55	1	0	0	0	0	1	0	0	0	1300	1058	37	2	1539	2	BAI3	6	69666693	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	21630512	69666693	101448374	115	20679										
KLHL32	114792	broad.mit.edu	37	chr6	97512545	97512545	+	Frame_Shift_Del	DEL	G	-	-													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atccaggatgtgctagcagcGggcagtcacctacagctgtt					rs138548618		TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:97512545delG	uc010kcm.1	+	5	826	c.354delG	c.(352-354)GCGfs	p.A118fs	KLHL32_uc003poy.2_Frame_Shift_Del_p.A118fs|KLHL32_uc011ead.1_Frame_Shift_Del_p.A82fs|KLHL32_uc003poz.2_5'UTR|KLHL32_uc011eae.1_Intron|KLHL32_uc003ppa.2_RNA	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	118										ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		TGCTAGCAGCGGGCAGTCACC	0.423													62	31	---	---	---	---		-	97512545	-	-	97512545	7	5	55	1	0	1	0	1	0	0	0	0	8386	1103	39	0	368	0	KLHL32	6	97512545	Frame_Shift_Del	DEL	G	TCGA-33-4533-01A-01D-1267-08	27845852	97512545	73602522	116	20680										
C6orf204	387119	broad.mit.edu	37	chr6	118887133	118887133	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccaattgtcctcagttgtgaTgttaaagccttagccttccc	7	12	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:118887133T>C	uc003pxz.1	-	3	1167	c.579A>G	c.(577-579)ACA>ACG	p.T193T	C6orf204_uc003pya.1_Silent_p.T196T|C6orf204_uc003pyb.2_Silent_p.T193T|C6orf204_uc011ebj.1_Silent_p.T91T|C6orf204_uc003pyc.2_Silent_p.T196T|C6orf204_uc011ebl.1_Silent_p.T91T	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	193						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		TCAGTTGTGATGTTAAAGCCT	0.453													93	131	---	---	---	---	PASS	C	118887133	C	C	118887133	2	2	55	1	0	0	0	0	0	0	0	1	2353	1451	51	5		5	C6orf204	6	118887133	Silent	SNP	T	TCGA-33-4533-01A-01D-1267-08	21374588	118887133	52227934	117	20681										
RNF146	81847	broad.mit.edu	37	chr6	127608771	127608771	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgatcgatcagtagcaggggGtggaacagtgagtgtcagtg	17	5	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:127608771G>A	uc003qav.2	+	3	1172	c.1013G>A	c.(1012-1014)GGT>GAT	p.G338D	RNF146_uc003qat.2_Missense_Mutation_p.G337D|RNF146_uc003qau.2_Missense_Mutation_p.G337D|RNF146_uc003qaw.2_Missense_Mutation_p.G337D	NM_030963	NP_112225	Q9NTX7	RN146_HUMAN	ring finger protein 146	338					positive regulation of canonical Wnt receptor signaling pathway|protein autoubiquitination|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol	poly-ADP-D-ribose binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1				GBM - Glioblastoma multiforme(226;0.0407)|all cancers(137;0.2)		GTAGCAGGGGGTGGAACAGTG	0.468													39	98	---	---	---	---	PASS	A	127608771	A	A	127608771	3	1	55	1	0	0	0	0	1	0	0	0	13448	1261	44	3	1012	3	RNF146	6	127608771	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	8721638	127608771	43506296	118	20682										
TAAR5	9038	broad.mit.edu	37	chr6	132910270	132910270	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcaactgcccacacaaggcaTctcttccagccactggctga	8	16	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:132910270T>A	uc003qdk.2	-	1	608	c.556A>T	c.(556-558)ATG>TTG	p.M186L		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	186	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		ACACAAGGCATCTCTTCCAGC	0.512													34	47	---	---	---	---	PASS	A	132910270	A	A	132910270	3	1	55	1	0	0	0	0	1	0	0	0	15488	1435	50	5	461	5	TAAR5	6	132910270	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	5301499	132910270	38204797	119	20683										
REPS1	85021	broad.mit.edu	37	chr6	139247564	139247564	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agctggtgcaatgttagaatCaaattgggtcagagtttgtg	13	4	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:139247564C>A	uc003qii.2	-	10	1891	c.1312G>T	c.(1312-1314)GAT>TAT	p.D438Y	REPS1_uc003qig.3_Intron|REPS1_uc011edr.1_Missense_Mutation_p.D438Y|REPS1_uc003qij.2_Intron|REPS1_uc003qik.2_Intron	NM_031922	NP_114128	Q96D71	REPS1_HUMAN	RALBP1 associated Eps domain containing 1	438						coated pit|plasma membrane	calcium ion binding|SH3 domain binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(68;0.000434)|OV - Ovarian serous cystadenocarcinoma(155;0.000548)		ATGTTAGAATCAAATTGGGTC	0.388													6	23	---	---	---	---	PASS	A	139247564	A	A	139247564	3	1	55	1	0	0	0	0	1	0	0	0	13228	826	29	2	1122	2	REPS1	6	139247564	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	6337294	139247564	31867503	120	20684										
UTRN	7402	broad.mit.edu	37	chr6	145124203	145124203	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttaagcattttaactatgatGtctgccagagttgtttcttt	7	6	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:145124203G>A	uc003qkt.2	+	64	9369	c.9277G>A	c.(9277-9279)GTC>ATC	p.V3093I		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	3093	Interaction with SYNM.|ZZ-type.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TAACTATGATGTCTGCCAGAG	0.343													20	34	---	---	---	---	PASS	A	145124203	A	A	145124203	3	1	55	1	0	0	0	0	1	0	0	0	17100	1377	48	3	9531	3	UTRN	6	145124203	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	5876639	145124203	25990864	121	20685										
LRP11	84918	broad.mit.edu	37	chr6	150141797	150141797	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atgcaaccatgagaagcagcAgagcagtgatagccaaaccc	10	11	0	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:150141797A>G	uc003qng.2	-	7	1715	c.1391T>C	c.(1390-1392)CTG>CCG	p.L464P		NM_032832	NP_116221	Q86VZ4	LRP11_HUMAN	low density lipoprotein receptor-related protein	464	Helical; (Potential).					integral to membrane	receptor activity				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;4.56e-12)|GBM - Glioblastoma multiforme(68;0.225)		GAGAAGCAGCAGAGCAGTGAT	0.498													21	15	---	---	---	---	PASS	G	150141797	G	G	150141797	3	3	55	1	0	0	0	0	1	0	0	0	8953	188	7	5	115	5	LRP11	6	150141797	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	5017594	150141797	20973270	122	20686										
C6orf97	80129	broad.mit.edu	37	chr6	151914353	151914353	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tagctcgaacagagcagctgGttcgtcttgagagcaatgca	12	9	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:151914353G>T	uc003qol.2	+	8	1494	c.1405G>T	c.(1405-1407)GTT>TTT	p.V469F		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	469											0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		AGAGCAGCTGGTTCGTCTTGA	0.458													47	85	---	---	---	---	PASS	T	151914353	T	T	151914353	3	4	55	1	0	0	0	0	1	0	0	0	2374	1261	44	3	1435	3	C6orf97	6	151914353	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	1772556	151914353	19200714	123	20687										
PACRG	135138	broad.mit.edu	37	chr6	163510373	163510373	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gttgtgtcagctgagatggtGggcaaggccttggtgcctta	16	7	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:163510373G>T	uc003qua.2	+	5	770	c.546G>T	c.(544-546)GTG>GTT	p.V182V	PACRG_uc003qub.2_Silent_p.V182V|PACRG_uc003quc.2_Silent_p.V182V	NM_152410	NP_689623	Q96M98	PACRG_HUMAN	parkin co-regulated gene protein isoform 1	182											0		Breast(66;2.41e-05)|Ovarian(120;0.0245)|Prostate(117;0.0273)|all_neural(5;0.0416)|Glioma(2;0.203)		OV - Ovarian serous cystadenocarcinoma(33;4.31e-19)|GBM - Glioblastoma multiforme(2;7.42e-11)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)|KIRC - Kidney renal clear cell carcinoma(3;0.205)|Kidney(3;0.242)		CTGAGATGGTGGGCAAGGCCT	0.468													83	113	---	---	---	---	PASS	T	163510373	T	T	163510373	2	4	55	1	0	0	0	0	0	0	0	1	11370	1335	47	3		3	PACRG	6	163510373	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	11596020	163510373	7604694	124	20688										
UNC93A	54346	broad.mit.edu	37	chr6	167728850	167728850	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atggtggcgtatgggcttgtGgagtgcgtggagtccaagaa	18	5	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:167728850G>T	uc003qvq.2	+	8	1459	c.1284G>T	c.(1282-1284)GTG>GTT	p.V428V	UNC93A_uc003qvr.2_Silent_p.V386V	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	428						integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		ATGGGCTTGTGGAGTGCGTGG	0.537													240	619	---	---	---	---	PASS	T	167728850	T	T	167728850	2	4	55	1	0	0	0	0	0	0	0	1	16993	1335	47	3		3	UNC93A	6	167728850	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	4218477	167728850	3386217	125	20689										
TTLL2	83887	broad.mit.edu	37	chr6	167753874	167753874	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aaagactgtttggccaaacaCctgaagcacatgaggaggat	11	8	0	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr6:167753874C>A	uc003qvs.1	+	3	574	c.486C>A	c.(484-486)CAC>CAA	p.H162Q	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	162	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		TGGCCAAACACCTGAAGCACA	0.502													51	71	---	---	---	---	PASS	A	167753874	A	A	167753874	3	1	55	1	0	0	0	0	1	0	0	0	16724	506	18	3	496	3	TTLL2	6	167753874	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	25024	167753874	3361193	126	20690										
TTYH3	80727	broad.mit.edu	37	chr7	2692645	2692645	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gggagcagccggccactaagGtgaggggctgcggggtaggc	21	9	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:2692645G>T	uc003smp.2	+	9	1207	c.1020_splice	c.e9+1	p.K340_splice	TTYH3_uc010ksn.2_Splice_Site_p.K60_splice|TTYH3_uc003smq.2_Splice_Site_p.K169_splice	NM_025250	NP_079526	Q9C0H2	TTYH3_HUMAN	tweety 3							chloride channel complex|plasma membrane	chloride channel activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.04e-14)		GGCCACTAAGGTGAGGGGCTG	0.597													7	11	---	---	---	---	PASS	T	2692645	T	T	2692645	5	4	55	1	0	0	0	0	0	0	1	0	16738	1275	44	3	1055	3	TTYH3	7	2692645	Splice_Site	SNP	G	TCGA-33-4533-01A-01D-1267-08		2692645	156446018	127	20691										
THSD7A	221981	broad.mit.edu	37	chr7	11486857	11486857	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggcatcccaattattcttacCaacaagagtgcgctttctgg	8	11	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:11486857C>A	uc003ssf.3	-	12	3052	c.2800G>T	c.(2800-2802)GGA>TGA	p.G934*		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	934	TSP type-1 9.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TTATTCTTACCAACAAGAGTG	0.428										HNSCC(18;0.044)			35	33	---	---	---	---	PASS	A	11486857	A	A	11486857	4	1	55	1	0	0	0	0	0	1	0	0	15876	608	21	3	2237	3	THSD7A	7	11486857	Nonsense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	8794212	11486857	147651806	128	20692										
THSD7A	221981	broad.mit.edu	37	chr7	11509548	11509548	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgatgtccagtcactatatgGggtcacaatacagtccttct	8	10	3	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:11509548G>A	uc003ssf.3	-	9	2578	c.2326C>T	c.(2326-2328)CCA>TCA	p.P776S		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	776	TSP type-1 8.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TCACTATATGGGGTCACAATA	0.463										HNSCC(18;0.044)			5	8	---	---	---	---	PASS	A	11509548	A	A	11509548	3	1	55	1	0	0	0	0	1	0	0	0	15876	1232	43	3	2723	3	THSD7A	7	11509548	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	22691	11509548	147629115	129	20693										
THSD7A	221981	broad.mit.edu	37	chr7	11521576	11521576	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccacagggatggggaagatgGcatctctgcacagctgtctg	14	10	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:11521576G>A	uc003ssf.3	-	7	2108	c.1856C>T	c.(1855-1857)GCC>GTC	p.A619V		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	619	Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		GGGGAAGATGGCATCTCTGCA	0.493										HNSCC(18;0.044)			4	122	---	---	---	---	PASS	A	11521576	A	A	11521576	3	1	55	1	0	0	0	0	1	0	0	0	15876	1203	42	3	3201	3	THSD7A	7	11521576	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	12028	11521576	147617087	130	20694										
HDAC9	9734	broad.mit.edu	37	chr7	18705957	18705957	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gccctctagtggcaacagcaCtaggagcgacagcagtgctt	12	12	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:18705957C>T	uc003suh.2	+	11	1621	c.1580C>T	c.(1579-1581)ACT>ATT	p.T527I	HDAC9_uc003sue.2_Missense_Mutation_p.T527I|HDAC9_uc011jyd.1_Missense_Mutation_p.T527I|HDAC9_uc003sui.2_Missense_Mutation_p.T530I|HDAC9_uc003suj.2_Missense_Mutation_p.T486I|HDAC9_uc011jya.1_Missense_Mutation_p.T524I|HDAC9_uc003sua.1_Missense_Mutation_p.T505I|HDAC9_uc011jyb.1_Missense_Mutation_p.T483I|HDAC9_uc003sud.1_Missense_Mutation_p.T527I|HDAC9_uc011jyc.1_Missense_Mutation_p.T486I|HDAC9_uc003suf.1_Missense_Mutation_p.T558I|HDAC9_uc010kud.1_Missense_Mutation_p.T530I|HDAC9_uc011jye.1_Missense_Mutation_p.T499I|HDAC9_uc011jyf.1_Missense_Mutation_p.T450I|HDAC9_uc010kue.1_Intron	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	527					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	GGCAACAGCACTAGGAGCGAC	0.557											OREG0017877	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	126	95	---	---	---	---	PASS	T	18705957	T	T	18705957	3	4	55	1	0	0	0	0	1	0	0	0	7014	565	20	3	1631	3	HDAC9	7	18705957	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	7184381	18705957	140432706	131	20695										
SCRN1	9805	broad.mit.edu	37	chr7	29980442	29980442	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cctgagttccggatgctctgCatccatcttagtggtgagcg	12	11	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:29980442C>A	uc010kvp.2	-	4	799	c.595G>T	c.(595-597)GCA>TCA	p.A199S	SCRN1_uc011jzy.1_Missense_Mutation_p.A131S|SCRN1_uc003tak.2_Missense_Mutation_p.A199S|SCRN1_uc011jzz.1_Missense_Mutation_p.A199S|SCRN1_uc011kaa.1_Missense_Mutation_p.A219S|SCRN1_uc011jzw.1_Intron|SCRN1_uc011jzx.1_Missense_Mutation_p.A22S	NM_001145515	NP_001138987	Q12765	SCRN1_HUMAN	secernin 1 isoform c	199					exocytosis|proteolysis	cytoplasm|nuclear membrane	dipeptidase activity			ovary(2)	2						GGATGCTCTGCATCCATCTTA	0.473													6	454	---	---	---	---	PASS	A	29980442	A	A	29980442	3	1	55	1	0	0	0	0	1	0	0	0	13938	710	25	3	665	3	SCRN1	7	29980442	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	11274485	29980442	129158221	132	20696										
ADCYAP1R1	117	broad.mit.edu	37	chr7	31132311	31132311	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atccttgtgcagaaacttcaGtctccagacatgggaggcaa	10	10	2	2	rs139752068		TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:31132311G>T	uc003tca.1	+	13	1231	c.1008G>T	c.(1006-1008)CAG>CAT	p.Q336H	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.Q315H|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.Q336H|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.Q336H|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.Q336H|ADCYAP1R1_uc003tcf.1_Missense_Mutation_p.Q38H	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	336	Cytoplasmic (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						AGAAACTTCAGTCTCCAGACA	0.458													100	86	---	---	---	---	PASS	T	31132311	T	T	31132311	3	4	55	1	0	0	0	0	1	0	0	0	303	1020	36	3	1054	3	ADCYAP1R1	7	31132311	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	1151869	31132311	128006352	133	20697										
SAMD9L	219285	broad.mit.edu	37	chr7	92760803	92760803	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgtgctttatcaaagtactgCtctattttggccttgtgaac	8	8	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:92760803C>A	uc003umh.1	-	5	5698	c.4482G>T	c.(4480-4482)GAG>GAT	p.E1494D	SAMD9L_uc003umj.1_Missense_Mutation_p.E1494D|SAMD9L_uc003umi.1_Missense_Mutation_p.E1494D|SAMD9L_uc010lfb.1_Missense_Mutation_p.E1494D|SAMD9L_uc003umk.1_Missense_Mutation_p.E1494D|SAMD9L_uc010lfc.1_Missense_Mutation_p.E1494D|SAMD9L_uc010lfd.1_Missense_Mutation_p.E1494D|SAMD9L_uc011khx.1_3'UTR	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1494										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			CAAAGTACTGCTCTATTTTGG	0.448													16	314	---	---	---	---	PASS	A	92760803	A	A	92760803	3	1	55	1	0	0	0	0	1	0	0	0	13827	796	28	3	276	3	SAMD9L	7	92760803	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	61628492	92760803	66377860	134	20698										
PON1	5444	broad.mit.edu	37	chr7	94937448	94937448	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aaatacatctcccaggattgTaagtaggggtcaagaaaata	9	6	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:94937448T>A	uc003uns.2	-	6	670	c.573A>T	c.(571-573)TTA>TTT	p.L191F	PON1_uc011kih.1_Missense_Mutation_p.L191F	NM_000446	NP_000437	P27169	PON1_HUMAN	paraoxonase 1 precursor	191					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	CCCAGGATTGTAAGTAGGGGT	0.393													112	80	---	---	---	---	PASS	A	94937448	A	A	94937448	3	1	55	1	0	0	0	0	1	0	0	0	12248	1635	57	5	510	5	PON1	7	94937448	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	2176645	94937448	64201215	135	20699										
ARPC1A	10552	broad.mit.edu	37	chr7	98955993	98955993	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctgaagacagagttcctgccGctcctaagtgtgtcatttgt	10	10	1	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:98955993G>T	uc003upx.1	+	7	891	c.744G>T	c.(742-744)CCG>CCT	p.P248P	ARPC1A_uc010lfu.1_RNA|ARPC1A_uc003upy.1_Silent_p.P234P|ARPC1A_uc011kit.1_RNA	NM_006409	NP_006400	Q92747	ARC1A_HUMAN	actin related protein 2/3 complex subunit 1A	248	WD 5.				actin cytoskeleton organization|regulation of actin filament polymerization	actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	all_cancers(62;4.46e-09)|all_epithelial(64;3.44e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0258)		STAD - Stomach adenocarcinoma(171;0.215)			AGTTCCTGCCGCTCCTAAGTG	0.468													166	147	---	---	---	---	PASS	T	98955993	T	T	98955993	2	4	55	1	0	0	0	0	0	0	0	1	969	1074	38	1		1	ARPC1A	7	98955993	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	4018545	98955993	60182670	136	20700										
STAG3	10734	broad.mit.edu	37	chr7	99795708	99795708	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agtgactttctcctttctgcAggaccggatggtttccatgg	11	10	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:99795708A>G	uc003utx.1	+	12	1320	c.1165_splice	c.e12-2	p.D389_splice	STAG3_uc010lgs.1_Splice_Site_p.D177_splice|STAG3_uc011kjk.1_Splice_Site_p.D331_splice|STAG3_uc003uub.1_5'Flank	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3						chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TCCTTTCTGCAGGACCGGATG	0.458													46	178	---	---	---	---	PASS	G	99795708	G	G	99795708	5	3	55	1	0	0	0	0	0	0	1	0	15243	202	7	5	1205	5	STAG3	7	99795708	Splice_Site	SNP	A	TCGA-33-4533-01A-01D-1267-08	839715	99795708	59342955	137	20701										
ZAN	7455	broad.mit.edu	37	chr7	100350489	100350489	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccatctccacggaaaaacccAccatccccacggaaaaaccc	4	19	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:100350489A>G	uc003uwj.2	+	14	2926	c.2761A>G	c.(2761-2763)ACC>GCC	p.T921A	ZAN_uc003uwk.2_Missense_Mutation_p.T921A|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	921	66 X heptapeptide repeats (approximate) (mucin-like domain).|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GGAAAAACCCACCATCCCCAC	0.502													94	248	---	---	---	---	PASS	G	100350489	G	G	100350489	3	3	55	1	0	0	0	0	1	0	0	0	17510	159	6	5	2811	5	ZAN	7	100350489	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	554781	100350489	58788174	138	20702										
GRM8	2918	broad.mit.edu	37	chr7	126173378	126173378	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gctggactaatgaacttgggCgctgtgacagatttcttccc	11	10	1	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:126173378C>G	uc003vlr.2	-	8	2369	c.2058G>C	c.(2056-2058)GCG>GCC	p.A686A	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.A686A|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	686	Cytoplasmic (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TGAACTTGGGCGCTGTGACAG	0.507										HNSCC(24;0.065)			49	40	---	---	---	---	PASS	G	126173378	G	G	126173378	2	3	55	1	0	0	0	0	0	0	0	1	6803	755	27	4		4	GRM8	7	126173378	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	25822889	126173378	32965285	139	20703										
OR6B1	135946	broad.mit.edu	37	chr7	143701539	143701539	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctcgctcttggttcctgggcCattggctttggcatctccct	10	14	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:143701539C>A	uc003wdt.1	+	1	450	c.450C>A	c.(448-450)GCC>GCA	p.A150A		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					GTTCCTGGGCCATTGGCTTTG	0.552													53	24	---	---	---	---	PASS	A	143701539	A	A	143701539	2	1	55	1	0	0	0	0	0	0	0	1	11187	581	21	3		3	OR6B1	7	143701539	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	17528161	143701539	15437124	140	20704										
TMEM176B	28959	broad.mit.edu	37	chr7	150489160	150489160	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tcaccaggggctgggagctcTggccacacaagtttcgaaga	13	11	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:150489160T>C	uc003wht.3	-	6	870	c.704A>G	c.(703-705)CAG>CGG	p.Q235R	TMEM176B_uc003whu.3_Missense_Mutation_p.Q235R|TMEM176B_uc003whv.3_Missense_Mutation_p.Q198R|TMEM176B_uc003whw.3_Missense_Mutation_p.Q235R	NM_001101313	NP_001094783	Q3YBM2	T176B_HUMAN	transmembrane protein 176B isoform a	235					cell differentiation|organ morphogenesis	integral to membrane|nuclear membrane				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTGGGAGCTCTGGCCACACAA	0.597													99	95	---	---	---	---	PASS	C	150489160	C	C	150489160	3	2	55	1	0	0	0	0	1	0	0	0	16090	1580	55	5	116	5	TMEM176B	7	150489160	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	6787621	150489160	8649503	141	20705										
UBE3C	9690	broad.mit.edu	37	chr7	157041102	157041102	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggtggagctgccctttgcagGcttctttctttccaagttgc	11	11	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr7:157041102G>T	uc010lqs.2	+	19	2834	c.2522G>T	c.(2521-2523)GGC>GTC	p.G841V	UBE3C_uc003wni.3_Missense_Mutation_p.G204V	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	841	HECT.				protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		CCCTTTGCAGGCTTCTTTCTT	0.468													149	356	---	---	---	---	PASS	T	157041102	T	T	157041102	3	4	55	1	0	0	0	0	1	0	0	0	16878	1203	42	3	2596	3	UBE3C	7	157041102	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	6551942	157041102	2097561	142	20706										
PNMA2	10687	broad.mit.edu	37	chr8	26365632	26365632	+	Frame_Shift_Del	DEL	C	-	-													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tatgtgcatgaggtccagggCagggccccgcaggctttccg							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr8:26365632delC	uc003xez.2	-	3	1410	c.640delG	c.(640-642)GCCfs	p.A214fs		NM_007257	NP_009188	Q9UL42	PNMA2_HUMAN	paraneoplastic antigen MA2	214					apoptosis	nucleolus	protein binding				0		all_cancers(63;0.109)|Ovarian(32;2.61e-05)|all_epithelial(46;0.105)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0196)|Epithelial(17;3.13e-11)|Colorectal(74;0.123)		aggtccagggcagggccccgc	0													109	128	---	---	---	---		-	26365632	-	-	26365632	7	5	55	1	0	1	0	1	0	0	0	0	12154	710	25	0	458	0	PNMA2	8	26365632	Frame_Shift_Del	DEL	C	TCGA-33-4533-01A-01D-1267-08		26365632	119998390	143	20707										
POTEA	340441	broad.mit.edu	37	chr8	43147734	43147734	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctgctgcttcccctgctgcaGgggaagcggcaagaacaaca	12	13	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr8:43147734G>T	uc003xpz.1	+	1	150	c.107G>T	c.(106-108)AGG>ATG	p.R36M	POTEA_uc003xqa.1_Missense_Mutation_p.R36M	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	36										ovary(1)	1						CCCTGCTGCAGGGGAAGCGGC	0.592													126	58	---	---	---	---	PASS	T	43147734	T	T	43147734	3	4	55	1	0	0	0	0	1	0	0	0	12261	1000	35	3	109	3	POTEA	8	43147734	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	16782102	43147734	103216288	144	20708										
PXDNL	137902	broad.mit.edu	37	chr8	52323825	52323825	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctgacctttgccttccaagtCcacagtgagcccctgcttca	7	16	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr8:52323825C>A	uc003xqu.3	-	16	2148	c.2047G>T	c.(2047-2049)GAC>TAC	p.D683Y	PXDNL_uc003xqt.3_5'Flank	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	683					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CCTTCCAAGTCCACAGTGAGC	0.507													13	4	---	---	---	---	PASS	A	52323825	A	A	52323825	3	1	55	1	0	0	0	0	1	0	0	0	12848	855	30	2	2376	2	PXDNL	8	52323825	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	9176091	52323825	94040197	145	20709										
PREX2	80243	broad.mit.edu	37	chr8	69012004	69012004	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atgaagtgattcctactgacCttcagagtaaattcagtgcc	8	9	2	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr8:69012004C>T	uc003xxv.1	+	23	2668	c.2641C>T	c.(2641-2643)CTT>TTT	p.L881F	PREX2_uc003xxu.1_Missense_Mutation_p.L881F|PREX2_uc011lez.1_Missense_Mutation_p.L816F	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	881					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TCCTACTGACCTTCAGAGTAA	0.353													4	187	---	---	---	---	PASS	T	69012004	T	T	69012004	3	4	55	1	0	0	0	0	1	0	0	0	12477	681	24	3	2731	3	PREX2	8	69012004	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	16688179	69012004	77352018	146	20710										
PRDM14	63978	broad.mit.edu	37	chr8	70980718	70980718	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aaggagtcctgcctaccttcTggaagttgaagggagtcttt	12	8	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr8:70980718T>C	uc003xym.2	-	3	952	c.750A>G	c.(748-750)CCA>CCG	p.P250P		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	250					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			GCCTACCTTCTGGAAGTTGAA	0.413													148	37	---	---	---	---	PASS	C	70980718	C	C	70980718	2	2	55	1	0	0	0	0	0	0	0	1	12455	1567	55	5		5	PRDM14	8	70980718	Silent	SNP	T	TCGA-33-4533-01A-01D-1267-08	1968714	70980718	75383304	147	20711										
IMPA1	3612	broad.mit.edu	37	chr8	82572769	82572769	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	acctgtaacatccattagcaCgccaccagcttcagtaacaa	5	14	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr8:82572769C>T	uc003ych.2	-	8	827	c.700G>A	c.(700-702)GTG>ATG	p.V234M	IMPA1_uc011lfq.1_Missense_Mutation_p.V293M|IMPA1_uc011lfr.1_Silent_p.A197A	NM_005536	NP_005527	P29218	IMPA1_HUMAN	inositol(myo)-1(or 4)-monophosphatase 1 isoform	234					inositol phosphate dephosphorylation|phosphatidylinositol biosynthetic process|signal transduction	cytoplasm	inositol-1(or 4)-monophosphatase activity|metal ion binding|protein homodimerization activity			skin(1)	1					Lithium(DB01356)	TCCATTAGCACGCCACCAGCT	0.418													86	31	---	---	---	---	PASS	T	82572769	T	T	82572769	3	4	55	1	0	0	0	0	1	0	0	0	7722	536	19	1	141	1	IMPA1	8	82572769	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	11592051	82572769	63791253	148	20712										
NBN	4683	broad.mit.edu	37	chr8	90996768	90996768	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cttacctcctgccgggcccgCggcgggcagcagtttccaca	12	17	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr8:90996768C>T	uc003yej.1	-	1	132	c.22G>A	c.(22-24)GCG>ACG	p.A8T	NBN_uc003yei.1_5'UTR|NBN_uc011lgb.1_Missense_Mutation_p.A8T	NM_002485	NP_002476	O60934	NBN_HUMAN	nibrin	8					cell cycle arrest|DNA damage response, signal transduction by p53 class mediator|DNA duplex unwinding|double-strand break repair via homologous recombination|meiosis|mitotic cell cycle G1/S transition checkpoint|mitotic cell cycle G2/M transition DNA damage checkpoint|positive regulation of kinase activity|positive regulation of protein autophosphorylation|regulation of DNA-dependent DNA replication initiation|telomere maintenance	Mre11 complex|nuclear chromosome, telomeric region|nuclear inclusion body|nucleolus|nucleoplasm	protein N-terminus binding|transcription factor binding			central_nervous_system(3)|kidney(3)|lung(1)	7			BRCA - Breast invasive adenocarcinoma(11;0.0344)			GCCGGGCCCGCGGCGGGCAGC	0.706								Direct_reversal_of_damage|Homologous_recombination	Nijmegen_Breakage_syndrome		OREG0018856	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	36	---	---	---	---	PASS	T	90996768	T	T	90996768	3	4	55	1	0	0	0	0	1	0	0	0	10191	768	27	1	2306	1	NBN	8	90996768	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	8423999	90996768	55367254	149	20713										
RRM2B	50484	broad.mit.edu	37	chr8	103226340	103226340	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccctttcttctgaaggcttaTttactaagtattggaacatc	6	9	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr8:103226340T>C	uc003ykn.2	-	7	975	c.731A>G	c.(730-732)AAT>AGT	p.N244S	RRM2B_uc003yko.2_RNA|RRM2B_uc010mbv.1_Missense_Mutation_p.N192S|RRM2B_uc010mbw.1_Missense_Mutation_p.N32S|RRM2B_uc010mbx.1_Intron|RRM2B_uc010mby.1_Intron	NM_015713	NP_056528	Q7LG56	RIR2B_HUMAN	ribonucleotide reductase M2 B (TP53 inducible)	244					deoxyribonucleoside diphosphate metabolic process|DNA repair|nucleobase, nucleoside and nucleotide interconversion	nucleoplasm	ribonucleoside-diphosphate reductase activity|transition metal ion binding			ovary(2)	2	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000728)			TGAAGGCTTATTTACTAAGTA	0.378								Direct_reversal_of_damage|Modulation_of_nucleotide_pools					98	21	---	---	---	---	PASS	C	103226340	C	C	103226340	3	2	55	1	0	0	0	0	1	0	0	0	13683	1493	52	5	336	5	RRM2B	8	103226340	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	12229572	103226340	43137682	150	20714										
PKHD1L1	93035	broad.mit.edu	37	chr8	110476887	110476887	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tcaaaaaagagttccccttgGcgaattttttaacaatactg	6	8	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr8:110476887G>A	uc003yne.2	+	49	7930	c.7826G>A	c.(7825-7827)GGC>GAC	p.G2609D		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2609	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GTTCCCCTTGGCGAATTTTTT	0.438										HNSCC(38;0.096)			186	53	---	---	---	---	PASS	A	110476887	A	A	110476887	3	1	55	1	0	0	0	0	1	0	0	0	11972	1203	42	3	8020	3	PKHD1L1	8	110476887	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	7250547	110476887	35887135	151	20715										
PKHD1L1	93035	broad.mit.edu	37	chr8	110477141	110477141	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggatcctggctccttatgttGgagggtggggtgaaaccaat	15	7	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr8:110477141G>A	uc003yne.2	+	49	8184	c.8080G>A	c.(8080-8082)GGA>AGA	p.G2694R		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2694	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TCCTTATGTTGGAGGGTGGGG	0.463										HNSCC(38;0.096)			144	57	---	---	---	---	PASS	A	110477141	A	A	110477141	3	1	55	1	0	0	0	0	1	0	0	0	11972	1349	47	3	8274	3	PKHD1L1	8	110477141	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	254	110477141	35886881	152	20716										
CSMD3	114788	broad.mit.edu	37	chr8	113308161	113308161	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aggattacattgatatacaaCtgtgtctctatatccataat	5	7	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr8:113308161C>A	uc003ynu.2	-	54	8674	c.8515G>T	c.(8515-8517)GTT>TTT	p.V2839F	CSMD3_uc003yns.2_Missense_Mutation_p.V2041F|CSMD3_uc003ynt.2_Missense_Mutation_p.V2799F|CSMD3_uc011lhx.1_Missense_Mutation_p.V2670F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2839	Extracellular (Potential).|Sushi 18.					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						TGATATACAACTGTGTCTCTA	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			59	14	---	---	---	---	PASS	A	113308161	A	A	113308161	3	1	55	1	0	0	0	0	1	0	0	0	3946	565	20	3	2680	3	CSMD3	8	113308161	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	2831020	113308161	33055861	153	20717										
TNFRSF11B	4982	broad.mit.edu	37	chr8	119938863	119938863	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctctctgcgtttactttggtGccaggcaaattgtctaccaa	8	11	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr8:119938863G>T	uc003yon.3	-	4	1010	c.687C>A	c.(685-687)GGC>GGA	p.G229G	TNFRSF11B_uc010mdc.1_RNA	NM_002546	NP_002537	O00300	TR11B_HUMAN	osteoprotegerin precursor	229	Death 1.				apoptosis|skeletal system development		cytokine activity|receptor activity			central_nervous_system(2)	2	all_cancers(13;3.71e-26)|Lung NSC(37;1.69e-07)|Ovarian(258;0.018)|all_neural(195;0.0592)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00193)			TTACTTTGGTGCCAGGCAAAT	0.438													145	42	---	---	---	---	PASS	T	119938863	T	T	119938863	2	4	55	1	0	0	0	0	0	0	0	1	16282	1306	46	3		3	TNFRSF11B	8	119938863	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	6630702	119938863	26425159	154	20718										
PTPRD	5789	broad.mit.edu	37	chr9	8465650	8465650	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tcccataacggatgcttctgCgcttcctagatatctcctta	6	13	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:8465650C>A	uc003zkk.2	-	31	4241	c.3530G>T	c.(3529-3531)CGC>CTC	p.R1177L	PTPRD_uc003zkp.2_Missense_Mutation_p.R766L|PTPRD_uc003zkq.2_Missense_Mutation_p.R766L|PTPRD_uc003zkr.2_Missense_Mutation_p.R761L|PTPRD_uc003zks.2_Missense_Mutation_p.R756L|PTPRD_uc003zkl.2_Missense_Mutation_p.R1168L|PTPRD_uc003zkm.2_Missense_Mutation_p.R1164L|PTPRD_uc003zkn.2_Missense_Mutation_p.R766L|PTPRD_uc003zko.2_Missense_Mutation_p.R763L	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1177	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		GATGCTTCTGCGCTTCCTAGA	0.393										TSP Lung(15;0.13)			24	62	---	---	---	---	PASS	A	8465650	A	A	8465650	3	1	55	1	0	0	0	0	1	0	0	0	12799	768	27	1	2333	1	PTPRD	9	8465650	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08		8465650	132747781	155	20719										
SLC24A2	25769	broad.mit.edu	37	chr9	19550241	19550241	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aaggccaggcaaggctgagaGgctggtcctcctcctcatca	12	13	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:19550241G>A	uc003zoa.1	-	7	1435	c.1373C>T	c.(1372-1374)CCT>CTT	p.P458L	SLC24A2_uc003zob.1_Missense_Mutation_p.P441L	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	458	Cytoplasmic (Potential).				visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		AAGGCTGAGAGGCTGGTCCTC	0.458													78	134	---	---	---	---	PASS	A	19550241	A	A	19550241	3	1	55	1	0	0	0	0	1	0	0	0	14466	1000	35	3	628	3	SLC24A2	9	19550241	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	11084591	19550241	121663190	156	20720										
IFNA10	3446	broad.mit.edu	37	chr9	21206861	21206861	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gctggatcatctcatggaggAcagagatggcttgagccttc	13	9	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:21206861A>G	uc003zoq.1	-	1	282	c.236T>C	c.(235-237)GTC>GCC	p.V79A	IFNA14_uc003zoo.1_Intron	NM_002171	NP_002162	P01566	IFN10_HUMAN	interferon, alpha 10 precursor	79					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;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.17)		CTCATGGAGGACAGAGATGGC	0.488													3	120	---	---	---	---	PASS	G	21206861	G	G	21206861	3	3	55	1	0	0	0	0	1	0	0	0	7532	275	10	5	337	5	IFNA10	9	21206861	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	1656620	21206861	120006570	157	20721										
LRRC19	64922	broad.mit.edu	37	chr9	26997838	26997838	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agatgaaatagtggtggtacAtccaaatagctaatcaaatt	8	5	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:26997838A>T	uc003zqh.2	-	3	594	c.483T>A	c.(481-483)GAT>GAA	p.D161E	IFT74_uc010mja.2_Intron|IFT74_uc010mjb.2_Intron|IFT74_uc003zqf.3_Intron|IFT74_uc003zqg.3_Intron	NM_022901	NP_075052	Q9H756	LRC19_HUMAN	leucine rich repeat containing 19 precursor	161	LRR 5.|Extracellular (Potential).					integral to membrane					0		all_neural(11;1.81e-09)		Lung(218;1.06e-05)|LUSC - Lung squamous cell carcinoma(38;0.0001)		GTGGTGGTACATCCAAATAGC	0.353													47	88	---	---	---	---	PASS	T	26997838	T	T	26997838	3	4	55	1	0	0	0	0	1	0	0	0	8975	214	8	5	641	5	LRRC19	9	26997838	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	5790977	26997838	114215593	158	20722										
DNAI1	27019	broad.mit.edu	37	chr9	34506780	34506780	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cagtaggccactatgacggcAacgtggccatttacaacctc	9	13	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:34506780A>C	uc003zum.2	+	13	1412	c.1219A>C	c.(1219-1221)AAC>CAC	p.N407H		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	407	WD 1.				cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)		CTATGACGGCAACGTGGCCAT	0.582									Kartagener_syndrome				35	93	---	---	---	---	PASS	C	34506780	C	C	34506780	3	2	55	1	0	0	0	0	1	0	0	0	4609	130	5	5	1269	5	DNAI1	9	34506780	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	7508942	34506780	106706651	159	20723										
UNC13B	10497	broad.mit.edu	37	chr9	35313984	35313984	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aggttcgactccagctgcagGaggtaggaaatctgttctag	13	8	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:35313984G>A	uc003zwq.2	+	10	1457	c.1165G>A	c.(1165-1167)GAG>AAG	p.E389K	UNC13B_uc010mkl.1_Missense_Mutation_p.E389K|UNC13B_uc003zwr.2_Missense_Mutation_p.E389K	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	389					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			CCAGCTGCAGGAGGTAGGAAA	0.443													49	74	---	---	---	---	PASS	A	35313984	A	A	35313984	3	1	55	1	0	0	0	0	1	0	0	0	16982	1175	41	2	1203	2	UNC13B	9	35313984	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	807204	35313984	105899447	160	20724										
UNC13B	10497	broad.mit.edu	37	chr9	35385807	35385807	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agcattactttcttcagaatGaaggtaagaaatggactggg	11	5	2	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:35385807G>A	uc003zwq.2	+	22	3007	c.2715G>A	c.(2713-2715)ATG>ATA	p.M905I	UNC13B_uc003zwr.2_Missense_Mutation_p.M905I	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	905					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			TCTTCAGAATGAAGGTAAGAA	0.483													35	79	---	---	---	---	PASS	A	35385807	A	A	35385807	3	1	55	1	0	0	0	0	1	0	0	0	16982	1290	45	2	2801	2	UNC13B	9	35385807	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	71823	35385807	105827624	161	20725										
UNC13B	10497	broad.mit.edu	37	chr9	35397239	35397239	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cacaactcaatcagagctttGagatcatccggaagctggaa	9	10	3	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:35397239G>C	uc003zwq.2	+	28	3653	c.3361G>C	c.(3361-3363)GAG>CAG	p.E1121Q	UNC13B_uc003zwr.2_Missense_Mutation_p.E1121Q	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	1121	MHD1.				excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			TCAGAGCTTTGAGATCATCCG	0.512													100	170	---	---	---	---	PASS	C	35397239	C	C	35397239	3	2	55	1	0	0	0	0	1	0	0	0	16982	1291	45	2	3471	2	UNC13B	9	35397239	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	11432	35397239	105816192	162	20726										
TRPM3	80036	broad.mit.edu	37	chr9	73442860	73442860	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtcccgttgtcagccagaatGaagtgggaatgcatgctgtt	13	8	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:73442860G>T	uc004aid.2	-	6	1120	c.876C>A	c.(874-876)TTC>TTA	p.F292L	TRPM3_uc004ahu.2_Missense_Mutation_p.F122L|TRPM3_uc004ahv.2_Missense_Mutation_p.F122L|TRPM3_uc004ahw.2_Missense_Mutation_p.F139L|TRPM3_uc004ahx.2_Missense_Mutation_p.F139L|TRPM3_uc004ahy.2_Missense_Mutation_p.F139L|TRPM3_uc004ahz.2_Missense_Mutation_p.F139L|TRPM3_uc004aia.2_Missense_Mutation_p.F139L|TRPM3_uc004aib.2_Missense_Mutation_p.F139L|TRPM3_uc004aic.2_Missense_Mutation_p.F292L|TRPM3_uc010mor.2_Missense_Mutation_p.F292L|TRPM3_uc004aie.2_Missense_Mutation_p.F139L|TRPM3_uc004aif.2_Missense_Mutation_p.F139L|TRPM3_uc004aig.2_Missense_Mutation_p.F139L|TRPM3_uc004aii.2_Missense_Mutation_p.F294L	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	292	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						CAGCCAGAATGAAGTGGGAAT	0.468													84	180	---	---	---	---	PASS	T	73442860	T	T	73442860	3	4	55	1	0	0	0	0	1	0	0	0	16584	1281	45	2	4450	2	TRPM3	9	73442860	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	38045621	73442860	67770571	163	20727										
SLC28A3	64078	broad.mit.edu	37	chr9	86900906	86900906	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atgtttccaaaccaggacagGgctgaattcataaaagacag	9	8	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:86900906G>C	uc010mpz.2	-	13	1526	c.1401C>G	c.(1399-1401)GCC>GCG	p.A467A	SLC28A3_uc011lsy.1_Silent_p.A398A|SLC28A3_uc004anu.1_Silent_p.A467A	NM_022127	NP_071410	Q9HAS3	S28A3_HUMAN	concentrative Na+-nucleoside cotransporter	467	Cytoplasmic (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to membrane|plasma membrane	nucleoside binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|skin(1)	4						ACCAGGACAGGGCTGAATTCA	0.493													19	31	---	---	---	---	PASS	C	86900906	C	C	86900906	2	2	55	1	0	0	0	0	0	0	0	1	14533	1219	43	4		4	SLC28A3	9	86900906	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	13458046	86900906	54312525	164	20728										
NOL8	55035	broad.mit.edu	37	chr9	95078179	95078179	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtgttaagggtggtctctctAttaccctcctgggccttgta	11	10	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:95078179A>G	uc004arv.2	-	7	1065	c.728T>C	c.(727-729)ATA>ACA	p.I243T	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Intron|NOL8_uc011ltw.1_Missense_Mutation_p.I175T	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	243					DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						TGGTCTCTCTATTACCCTCCT	0.453													28	55	---	---	---	---	PASS	G	95078179	G	G	95078179	3	3	55	1	0	0	0	0	1	0	0	0	10527	449	16	5	2819	5	NOL8	9	95078179	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	8177273	95078179	46135252	165	20729										
C9orf3	84909	broad.mit.edu	37	chr9	97522859	97522859	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atggacctcagaccagagtgGcaggtaggttatccaagcac	12	10	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:97522859G>T	uc004ava.2	+	1	929	c.794G>T	c.(793-795)GGC>GTC	p.G265V	C9orf3_uc011lui.1_RNA|C9orf3_uc004aux.1_Missense_Mutation_p.G265V|C9orf3_uc004auy.2_Missense_Mutation_p.G265V|C9orf3_uc004auz.1_Missense_Mutation_p.G265V	NM_032823	NP_116212	Q8N6M6	AMPO_HUMAN	aminopeptidase O	265					leukotriene biosynthetic process|proteolysis	cytoplasm	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(323;0.000275)		GACCAGAGTGGCAGGTAGGTT	0.507													18	42	---	---	---	---	PASS	T	97522859	T	T	97522859	3	4	55	1	0	0	0	0	1	0	0	0	2477	1203	42	3	796	3	C9orf3	9	97522859	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	2444680	97522859	43690572	166	20730										
C9orf102	375748	broad.mit.edu	37	chr9	98735335	98735335	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aaatgagaaagttgttaatcAagagcagtcgtatgaatcaa	9	4	2	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:98735335A>T	uc010mry.1	+	15	3529	c.2441A>T	c.(2440-2442)CAA>CTA	p.Q814L	C9orf102_uc004avu.2_Missense_Mutation_p.Q392L|uc010msa.1_Missense_Mutation_p.Q82L|uc011lun.1_Missense_Mutation_p.Q82L			Q5T890	RAD26_HUMAN	RecName: Full=Putative DNA repair and recombination protein RAD26-like;          EC=3.6.1.-;	Error:Variant_position_missing_in_Q5T890_after_alignment					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				GTTGTTAATCAAGAGCAGTCG	0.274													4	6	---	---	---	---	PASS	T	98735335	T	T	98735335	3	4	55	1	0	0	0	0	1	0	0	0	2445	145	5	5		5	C9orf102	9	98735335	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	1212476	98735335	42478096	167	20731										
ANKS6	203286	broad.mit.edu	37	chr9	101552494	101552494	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctccagcacgctgaggtggtCagggttggcgcccttctcca	13	14	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:101552494C>T	uc004ayu.2	-	2	775	c.754G>A	c.(754-756)GAC>AAC	p.D252N	ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	252	ANK 6.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				CTGAGGTGGTCAGGGTTGGCG	0.672													79	172	---	---	---	---	PASS	T	101552494	T	T	101552494	3	4	55	1	0	0	0	0	1	0	0	0	692	826	29	2	1917	2	ANKS6	9	101552494	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	2817159	101552494	39660937	168	20732										
DFNB31	25861	broad.mit.edu	37	chr9	117186785	117186785	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtctggttccccaggctgctCagggtcacctgggagccggc	15	14	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:117186785C>G	uc004biz.3	-	6	1894	c.1245G>C	c.(1243-1245)CTG>CTC	p.L415L	DFNB31_uc004bix.2_Silent_p.L64L|DFNB31_uc004biy.3_Silent_p.L32L|DFNB31_uc004bja.3_Silent_p.L415L	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	415					inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CCAGGCTGCTCAGGGTCACCT	0.587													41	58	---	---	---	---	PASS	G	117186785	G	G	117186785	2	3	55	1	0	0	0	0	0	0	0	1	4455	813	29	2		2	DFNB31	9	117186785	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	15634291	117186785	24026646	169	20733										
TSC1	7248	broad.mit.edu	37	chr9	135772642	135772642	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aggaggccatctttctccaaCctgccatataaatctaagat	6	11	3	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:135772642C>A	uc004cca.2	-	22	3138	c.2904G>T	c.(2902-2904)AGG>AGT	p.R968S	TSC1_uc004ccb.3_Missense_Mutation_p.R967S|TSC1_uc011mcq.1_Missense_Mutation_p.R917S|TSC1_uc011mcr.1_Intron	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	968	Potential.				activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding	p.?(1)		lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		CTTTCTCCAACCTGCCATATA	0.438			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				193	276	---	---	---	---	PASS	A	135772642	A	A	135772642	3	1	55	1	0	0	0	0	1	0	0	0	16602	506	18	3	598	3	TSC1	9	135772642	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	18585857	135772642	5440789	170	20734										
QSOX2	169714	broad.mit.edu	37	chr9	139137450	139137450	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccccgcgcacgctgccgctgTccagcacccacacggcgtcc	10	22	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr9:139137450T>G	uc010nbi.2	-	1	238	c.200A>C	c.(199-201)GAC>GCC	p.D67A		NM_181701	NP_859052	Q6ZRP7	QSOX2_HUMAN	quiescin Q6 sulfhydryl oxidase 2 precursor	67	Thioredoxin.				cell redox homeostasis	extracellular region|integral to membrane|nuclear membrane|plasma membrane	thiol oxidase activity			ovary(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;7.78e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.55e-07)		GCTGCCGCTGTCCAGCACCCA	0.557													4	20	---	---	---	---	PASS	G	139137450	G	G	139137450	3	3	55	1	0	0	0	0	1	0	0	0	12884	1667	58	5	1944	5	QSOX2	9	139137450	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	3364808	139137450	2075981	171	20735										
ITIH5	80760	broad.mit.edu	37	chr10	7659226	7659226	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttttggttaatgacagtagaTgggggaggcccagaatcatc	13	6	1	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:7659226T>A	uc001ijq.2	-	6	751	c.672A>T	c.(670-672)CCA>CCT	p.P224P	ITIH5_uc001ijp.2_Silent_p.P10P|ITIH5_uc001ijr.1_Silent_p.P224P	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	224					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						TGACAGTAGATGGGGGAGGCC	0.338													58	12	---	---	---	---	PASS	A	7659226	A	A	7659226	2	1	55	1	0	0	0	0	0	0	0	1	7907	1451	51	5		5	ITIH5	10	7659226	Silent	SNP	T	TCGA-33-4533-01A-01D-1267-08		7659226	127875521	172	20736										
C1QL3	389941	broad.mit.edu	37	chr10	16563058	16563058	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gatgaggatcaccagcagcaGcaccatcaccacccccagcg	9	17	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:16563058G>T	uc001ioj.1	-	1	947	c.7C>A	c.(7-9)CTG>ATG	p.L3M		NM_001010908	NP_001010908	Q5VWW1	C1QL3_HUMAN	complement component 1, q subcomponent-like 3	3						collagen				ovary(1)	1						ACCAGCAGCAGCACCATCACC	0.692													18	2	---	---	---	---	PASS	T	16563058	T	T	16563058	3	4	55	1	0	0	0	0	1	0	0	0	1960	962	34	3	768	3	C1QL3	10	16563058	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	8903832	16563058	118971689	173	20737										
ST8SIA6	338596	broad.mit.edu	37	chr10	17369080	17369080	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	attcagaattcccccatttcCgaccactgcacactgattat	4	14	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:17369080C>T	uc001ipd.2	-	6	568	c.568G>A	c.(568-570)GGA>AGA	p.G190R	ST8SIA6_uc010qce.1_Intron	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	190	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						CCCCCATTTCCGACCACTGCA	0.393													51	22	---	---	---	---	PASS	T	17369080	T	T	17369080	3	4	55	1	0	0	0	0	1	0	0	0	15235	661	23	1	640	1	ST8SIA6	10	17369080	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	806022	17369080	118165667	174	20738										
KIAA1462	57608	broad.mit.edu	37	chr10	30317316	30317316	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggcagatgtgattctgatttCactgggatagaaaccaagca	11	7	2	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:30317316C>T	uc001iux.2	-	2	1820	c.1761G>A	c.(1759-1761)GTG>GTA	p.V587V	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Silent_p.V449V|KIAA1462_uc009xle.1_Silent_p.V587V	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	587										ovary(4)	4						ATTCTGATTTCACTGGGATAG	0.413													199	213	---	---	---	---	PASS	T	30317316	T	T	30317316	2	4	55	1	0	0	0	0	0	0	0	1	8234	813	29	2		2	KIAA1462	10	30317316	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	12948236	30317316	105217431	175	20739										
SLC18A3	6572	broad.mit.edu	37	chr10	50818900	50818900	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aggcgcctggtgcttgttatCgtgtgcgtggcgctgttact	15	9	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:50818900C>G	uc001jhw.2	+	1	554	c.114C>G	c.(112-114)ATC>ATG	p.I38M	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	38	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						TGCTTGTTATCGTGTGCGTGG	0.697													26	50	---	---	---	---	PASS	G	50818900	G	G	50818900	3	3	55	1	0	0	0	0	1	0	0	0	14427	874	31	2	116	2	SLC18A3	10	50818900	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	20501584	50818900	84715847	176	20740										
UBE2D1	7321	broad.mit.edu	37	chr10	60124635	60124635	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccagctctgactgtatcaaaAggtaatttcattgatcaggt	8	8	4	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:60124635A>T	uc001jke.1	+	5	526	c.303A>T	c.(301-303)AAA>AAT	p.K101N		NM_003338	NP_003329	P51668	UB2D1_HUMAN	ubiquitin-conjugating enzyme E2D 1	101					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|BMP signaling pathway|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K48-linked ubiquitination|transforming growth factor beta receptor signaling pathway	cytosol|nucleoplasm	ATP binding|protein binding|ubiquitin-protein ligase activity			skin(2)	2						CTGTATCAAAAGGTAATTTCA	0.338													40	113	---	---	---	---	PASS	T	60124635	T	T	60124635	3	4	55	1	0	0	0	0	1	0	0	0	16845	86	3	5	321	5	UBE2D1	10	60124635	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	9305735	60124635	75410112	177	20741										
SUPV3L1	6832	broad.mit.edu	37	chr10	70960234	70960234	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttattaaaggaaattttgaaGaggcctgtggatcctataag	10	4	0	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:70960234G>A	uc001jpe.1	+	11	1552	c.1497G>A	c.(1495-1497)AAG>AAA	p.K499K	SUPV3L1_uc010qjd.1_Silent_p.K368K	NM_003171	NP_003162	Q8IYB8	SUV3_HUMAN	suppressor of var1, 3-like 1 precursor	499	Helicase C-terminal.				DNA duplex unwinding	mitochondrial nucleoid|nucleus	ATP binding|DNA binding|DNA helicase activity|RNA binding			urinary_tract(1)|ovary(1)	2						AAATTTTGAAGAGGCCTGTGG	0.438													14	158	---	---	---	---	PASS	A	70960234	A	A	70960234	2	1	55	1	0	0	0	0	0	0	0	1	15399	933	33	2		2	SUPV3L1	10	70960234	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	10835599	70960234	64574513	178	20742										
CHST3	9469	broad.mit.edu	37	chr10	73767080	73767080	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cagagccgtctccgcaacctCagcttgcagctgggcgtgga	13	14	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:73767080C>A	uc001jsn.2	+	3	731	c.291C>A	c.(289-291)CTC>CTA	p.L97L		NM_004273	NP_004264	Q7LGC8	CHST3_HUMAN	chondroitin 6-sulfotransferase 3	97	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity				0						TCCGCAACCTCAGCTTGCAGC	0.647													12	69	---	---	---	---	PASS	A	73767080	A	A	73767080	2	1	55	1	0	0	0	0	0	0	0	1	3405	813	29	2		2	CHST3	10	73767080	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	2806846	73767080	61767667	179	20743										
GRID1	2894	broad.mit.edu	37	chr10	87966225	87966225	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtggtctcgaagccagtgtgTaggcctcaccatcggggctg	15	11	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:87966225T>C	uc001kdl.1	-	3	517	c.416A>G	c.(415-417)TAC>TGC	p.Y139C	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	139	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	AGCCAGTGTGTAGGCCTCACC	0.622										Multiple Myeloma(13;0.14)			111	41	---	---	---	---	PASS	C	87966225	C	C	87966225	3	2	55	1	0	0	0	0	1	0	0	0	6771	1638	57	5	2669	5	GRID1	10	87966225	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	14199145	87966225	47568522	180	20744										
CYP2C19	1557	broad.mit.edu	37	chr10	96612635	96612635	+	Frame_Shift_Del	DEL	C	-	-													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtcaatggatttgcttctgtCccgcccttctatcagctgtg							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:96612635delC	uc010qnz.1	+	9	1437	c.1437delC	c.(1435-1437)GTCfs	p.V479fs	CYP2C19_uc010qny.1_Frame_Shift_Del_p.V457fs	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	479					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	TTGCTTCTGTCCCGCCCTTCT	0.463													61	114	---	---	---	---		-	96612635	-	-	96612635	7	5	55	1	0	1	0	1	0	0	0	0	4166	842	30	0	1471	0	CYP2C19	10	96612635	Frame_Shift_Del	DEL	C	TCGA-33-4533-01A-01D-1267-08	8646410	96612635	38922112	181	20745										
PIK3AP1	118788	broad.mit.edu	37	chr10	98412549	98412549	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gaaaactctgcttctgtcgcCaccctgtcatccagcttaca	6	15	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:98412549C>T	uc001kmq.2	-	4	746	c.618G>A	c.(616-618)GTG>GTA	p.V206V	PIK3AP1_uc001kmp.2_Silent_p.V28V	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	206	DBB.					cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		CTTCTGTCGCCACCCTGTCAT	0.507													183	96	---	---	---	---	PASS	T	98412549	T	T	98412549	2	4	55	1	0	0	0	0	0	0	0	1	11908	581	21	3		3	PIK3AP1	10	98412549	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	1799914	98412549	37122198	182	20746										
DHDPSL	112817	broad.mit.edu	37	chr10	99359443	99359443	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcccccctccccaggttgctGatctctctccaatccctgtg	7	19	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:99359443G>C	uc001kny.2	+	4	834	c.475G>C	c.(475-477)GAT>CAT	p.D159H	DHDPSL_uc001knx.2_3'UTR|DHDPSL_uc001knz.2_Intron|PI4K2A_uc010qoy.1_Intron	NM_138413	NP_612422	Q86XE5	HOGA1_HUMAN	DHDPS-like protein isoform 1	159					glyoxylate catabolic process	mitochondrion	4-hydroxy-2-oxoglutarate aldolase activity				0						CCAGGTTGCTGATCTCTCTCC	0.622													103	333	---	---	---	---	PASS	C	99359443	C	C	99359443	3	2	55	1	0	0	0	0	1	0	0	0	4480	1290	45	2	489	2	DHDPSL	10	99359443	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	946894	99359443	36175304	183	20747										
HPS6	79803	broad.mit.edu	37	chr10	103826716	103826716	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gaagtggcacgcctgctgagGactgagttgataggagacca	15	8	0	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:103826716G>T	uc001kuj.2	+	1	1570	c.1485G>T	c.(1483-1485)AGG>AGT	p.R495S		NM_024747	NP_079023	Q86YV9	HPS6_HUMAN	Hermansky-Pudlak syndrome-6	495						cytosol|early endosome membrane|endoplasmic reticulum|microsome					0		Colorectal(252;0.122)		Epithelial(162;5.93e-08)|all cancers(201;1.03e-06)		GCCTGCTGAGGACTGAGTTGA	0.622									Hermansky-Pudlak_syndrome				109	42	---	---	---	---	PASS	T	103826716	T	T	103826716	3	4	55	1	0	0	0	0	1	0	0	0	7343	1165	41	2	1487	2	HPS6	10	103826716	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	4467273	103826716	31708031	184	20748										
C10orf79	80217	broad.mit.edu	37	chr10	105932195	105932195	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	acttcttcctgactttcatcAtgaagcctttctagttcctc	4	13	4	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:105932195A>T	uc001kxw.2	-	20	2675	c.2559T>A	c.(2557-2559)CAT>CAA	p.H853Q	C10orf79_uc009xxq.2_Missense_Mutation_p.H161Q|C10orf79_uc001kxx.3_Missense_Mutation_p.H854Q	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	853	Potential.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		GACTTTCATCATGAAGCCTTT	0.323													66	24	---	---	---	---	PASS	T	105932195	T	T	105932195	3	4	55	1	0	0	0	0	1	0	0	0	1618	214	8	5	2514	5	C10orf79	10	105932195	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	2105479	105932195	29602552	185	20749										
ADAM12	8038	broad.mit.edu	37	chr10	128019004	128019004	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggagtcgaagctcttcactgGgatccagaggtccccactcc	11	14	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:128019004G>T	uc001ljk.2	-	2	576	c.163C>A	c.(163-165)CCA>ACA	p.P55T	ADAM12_uc010qul.1_Missense_Mutation_p.P55T|ADAM12_uc001ljm.2_Missense_Mutation_p.P55T|ADAM12_uc001ljn.2_Missense_Mutation_p.P55T|ADAM12_uc001ljl.3_Missense_Mutation_p.P55T	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	55					cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		CTCTTCACTGGGATCCAGAGG	0.473													185	51	---	---	---	---	PASS	T	128019004	T	T	128019004	3	4	55	1	0	0	0	0	1	0	0	0	236	1232	43	3	2762	3	ADAM12	10	128019004	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	22086809	128019004	7515743	186	20750										
GLRX3	10539	broad.mit.edu	37	chr10	131958274	131958274	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	taaagttggaagctgaaggtGttcctgaagtatctgaaaaa	11	4	1	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr10:131958274G>T	uc001lkm.1	+	3	239	c.217G>T	c.(217-219)GTT>TTT	p.V73F	GLRX3_uc001lkn.1_Missense_Mutation_p.V73F|GLRX3_uc001lko.2_RNA	NM_006541	NP_006532	O76003	GLRX3_HUMAN	glutaredoxin 3	73	Thioredoxin.				cell redox homeostasis|negative regulation of cardiac muscle hypertrophy|regulation of the force of heart contraction	cell cortex	electron carrier activity|iron-sulfur cluster binding|metal ion binding|protein disulfide oxidoreductase activity				0		all_cancers(35;9.59e-07)|all_epithelial(44;1.48e-06)|Lung NSC(174;0.00566)|all_lung(145;0.00949)|Colorectal(57;0.142)|all_neural(114;0.16)|Breast(234;0.173)|Glioma(114;0.222)		OV - Ovarian serous cystadenocarcinoma(35;0.00218)		AGCTGAAGGTGTTCCTGAAGT	0.323													64	23	---	---	---	---	PASS	T	131958274	T	T	131958274	3	4	55	1	0	0	0	0	1	0	0	0	6461	1377	48	3	227	3	GLRX3	10	131958274	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	3939270	131958274	3576473	187	20751										
OR51G2	81282	broad.mit.edu	37	chr11	4936530	4936530	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aaagcggtcaaaggccatagAcagtagcacagaggactcga	12	9	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr11:4936530A>G	uc001lzr.1	-	1	364	c.364T>C	c.(364-366)TCT>CCT	p.S122P		NM_001005238	NP_001005238	Q8NGK0	O51G2_HUMAN	olfactory receptor, family 51, subfamily G,	122	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		AAGGCCATAGACAGTAGCACA	0.502													39	16	---	---	---	---	PASS	G	4936530	G	G	4936530	3	3	55	1	0	0	0	0	1	0	0	0	11099	275	10	5	584	5	OR51G2	11	4936530	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08		4936530	130069986	188	20752										
OR56A1	120796	broad.mit.edu	37	chr11	6048462	6048462	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtgcagtaagaagcgcattcCgcaccacaatgaagacacta	9	11	0	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr11:6048462C>T	uc010qzw.1	-	1	473	c.473G>A	c.(472-474)CGG>CAG	p.R158Q		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAGCGCATTCCGCACCACAAT	0.493													91	41	---	---	---	---	PASS	T	6048462	T	T	6048462	3	4	55	1	0	0	0	0	1	0	0	0	11133	652	23	1	487	1	OR56A1	11	6048462	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1111932	6048462	128958054	189	20753										
OR8I2	120586	broad.mit.edu	37	chr11	55861369	55861369	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tagatacattcggcacagaaAtggtgagctttgtcttagct	10	7	1	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr11:55861369A>T	uc010rix.1	+	1	586	c.586A>T	c.(586-588)ATG>TTG	p.M196L		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	196	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					CGGCACAGAAATGGTGAGCTT	0.428													6	185	---	---	---	---	PASS	T	55861369	T	T	55861369	3	4	55	1	0	0	0	0	1	0	0	0	11240	101	4	5	588	5	OR8I2	11	55861369	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	49812907	55861369	79145147	190	20754										
APLNR	187	broad.mit.edu	37	chr11	57004147	57004147	+	Frame_Shift_Del	DEL	A	-	-													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agacgctggcgtacatgttgAcgaagatgaggtagctgctg							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr11:57004147delA	uc001njo.2	-	1	781	c.332delT	c.(331-333)GTCfs	p.V111fs	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	111	Helical; Name=3; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						GTACATGTTGACGAAGATGAG	0.612													17	48	---	---	---	---		-	57004147	-	-	57004147	7	5	55	1	0	1	0	1	0	0	0	0	777	275	10	0	814	0	APLNR	11	57004147	Frame_Shift_Del	DEL	A	TCGA-33-4533-01A-01D-1267-08	1142778	57004147	78002369	191	20755										
OR9Q1	219956	broad.mit.edu	37	chr11	57947664	57947664	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	acctcactgctgtgtcactcTtctttggtaccctcatcttc	5	15	6	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr11:57947664T>C	uc001nmj.2	+	3	1064	c.748T>C	c.(748-750)TTC>CTC	p.F250L		NM_001005212	NP_001005212	Q8NGQ5	OR9Q1_HUMAN	olfactory receptor, family 9, subfamily Q,	250	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.222)				TGTGTCACTCTTCTTTGGTAC	0.517													205	90	---	---	---	---	PASS	C	57947664	C	C	57947664	3	2	55	1	0	0	0	0	1	0	0	0	11255	1609	56	5	750	5	OR9Q1	11	57947664	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	943517	57947664	77058852	192	20756										
MS4A12	54860	broad.mit.edu	37	chr11	60264962	60264962	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccctacggcatcacatctccGggaatctttgctagcagtca	8	14	4	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr11:60264962G>A	uc001npr.2	+	2	228	c.171G>A	c.(169-171)CCG>CCA	p.P57P	MS4A12_uc009ynb.2_Silent_p.P57P	NM_017716	NP_060186	Q9NXJ0	M4A12_HUMAN	membrane-spanning 4-domains, subfamily A, member	57	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						TCACATCTCCGGGAATCTTTG	0.463													4	126	---	---	---	---	PASS	A	60264962	A	A	60264962	2	1	55	1	0	0	0	0	0	0	0	1	9856	1103	39	1		1	MS4A12	11	60264962	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	2317298	60264962	74741554	193	20757										
SPTBN2	6712	broad.mit.edu	37	chr11	66483365	66483365	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtccgtcccggaggtcgctgTacaggtcccccacccggcac	12	18	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr11:66483365T>C	uc001ojd.2	-	3	317	c.245A>G	c.(244-246)TAC>TGC	p.Y82C		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	82	CH 1.|Actin-binding.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GAGGTCGCTGTACAGGTCCCC	0.612													99	34	---	---	---	---	PASS	C	66483365	C	C	66483365	3	2	55	1	0	0	0	0	1	0	0	0	15119	1638	57	5	7067	5	SPTBN2	11	66483365	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	6218403	66483365	68523151	194	20758										
UCP3	7352	broad.mit.edu	37	chr11	73717342	73717342	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggctgcagggaccctcagtcCgcaccatggtcaggatggtg	15	12	2	0	rs58614015	by1000genomes	TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr11:73717342C>T	uc001our.2	-	3	564	c.209G>A	c.(208-210)CGG>CAG	p.R70Q	UCP3_uc001ous.2_Missense_Mutation_p.R70Q	NM_003356	NP_003347	P55916	UCP3_HUMAN	uncoupling protein 3 isoform UCP3L	70	Solcar 1.				mitochondrial transport|respiratory electron transport chain|respiratory gaseous exchange	integral to membrane|mitochondrial inner membrane	binding			pancreas(1)	1	Breast(11;2.08e-05)					ACCCTCAGTCCGCACCATGGT	0.657													32	12	---	---	---	---	PASS	T	73717342	T	T	73717342	3	4	55	1	0	0	0	0	1	0	0	0	16929	652	23	1	753	1	UCP3	11	73717342	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	7233977	73717342	61289174	195	20759										
OR10G4	390264	broad.mit.edu	37	chr11	123886786	123886786	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctttccatttgccctactgtGgacccaaccagatccagcac	6	16	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr11:123886786G>T	uc010sac.1	+	1	505	c.505G>T	c.(505-507)GGA>TGA	p.G169*		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		GCCCTACTGTGGACCCAACCA	0.567													213	118	---	---	---	---	PASS	T	123886786	T	T	123886786	4	4	55	1	0	0	0	0	0	1	0	0	10901	1349	47	3	507	3	OR10G4	11	123886786	Nonsense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	50169444	123886786	11119730	196	20760										
OR8B2	26595	broad.mit.edu	37	chr11	124253171	124253171	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aggaaaaagaggggttgccgGaactctggatgatctgttaa	14	5	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr11:124253171G>T	uc010sai.1	-	1	69	c.69C>A	c.(67-69)TTC>TTA	p.F23L	OR8B2_uc001qab.3_RNA	NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	23	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GGGGTTGCCGGAACTCTGGAT	0.413													59	242	---	---	---	---	PASS	T	124253171	T	T	124253171	3	4	55	1	0	0	0	0	1	0	0	0	11227	1165	41	2	875	2	OR8B2	11	124253171	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	366385	124253171	10753345	197	20761										
A2M	2	broad.mit.edu	37	chr12	9268360	9268360	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gctctctgtgtggaactcacGgttttccagagactgaggcg	13	10	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr12:9268360G>T	uc001qvk.1	-	1	199	c.86C>A	c.(85-87)CCG>CAG	p.P29Q	A2M_uc009zgk.1_5'UTR	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	29					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	TGGAACTCACGGTTTTCCAGA	0.443													68	35	---	---	---	---	PASS	T	9268360	T	T	9268360	3	4	55	1	0	0	0	0	1	0	0	0	4	1130	39	1	4482	1	A2M	12	9268360	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08		9268360	124583535	198	20762										
TAS2R31	259290	broad.mit.edu	37	chr12	11183530	11183530	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	caagccaaaaatagtaaaggCcccaacagcatcaccagaat	6	12	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr12:11183530C>A	uc001qzo.1	-	1	477	c.405G>T	c.(403-405)GGG>GGT	p.G135G	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176885	NP_795366	P59538	T2R31_HUMAN	taste receptor, type 2, member 31	135	Helical; Name=4; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity				0						ATAGTAAAGGCCCCAACAGCA	0.348													54	44	---	---	---	---	PASS	A	11183530	A	A	11183530	2	1	55	1	0	0	0	0	0	0	0	1	15571	726	26	3		3	TAS2R31	12	11183530	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	1915170	11183530	122668365	199	20763										
SLCO1C1	53919	broad.mit.edu	37	chr12	20876065	20876065	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atctttttggaaacccagtaTacttcctatatttatgtaca	4	8	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr12:20876065T>G	uc001rej.3	+	10	1418	c.1063T>G	c.(1063-1065)TAC>GAC	p.Y355D	SLCO1C1_uc010sii.1_Missense_Mutation_p.Y355D|SLCO1C1_uc010sij.1_Missense_Mutation_p.Y306D|SLCO1C1_uc009zip.2_Missense_Mutation_p.Y189D|SLCO1C1_uc001rei.2_Missense_Mutation_p.Y355D|SLCO1C1_uc010sik.1_Missense_Mutation_p.Y237D	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	355	Helical; Name=7; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					AAACCCAGTATACTTCCTATA	0.368													72	25	---	---	---	---	PASS	G	20876065	G	G	20876065	3	3	55	1	0	0	0	0	1	0	0	0	14725	1406	49	5	1093	5	SLCO1C1	12	20876065	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	9692535	20876065	112975830	200	20764										
IPO8	10526	broad.mit.edu	37	chr12	30783889	30783889	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttgttcaatcttcttctttgCctctagcatttttcaaaaga	4	9	6	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr12:30783889C>T	uc001rjd.2	-	25	3189	c.3019G>A	c.(3019-3021)GCA>ACA	p.A1007T	IPO8_uc001rje.1_3'UTR|IPO8_uc010sjt.1_Missense_Mutation_p.A802T	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	1007					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					TTCTTCTTTGCCTCTAGCATT	0.398													40	17	---	---	---	---	PASS	T	30783889	T	T	30783889	3	4	55	1	0	0	0	0	1	0	0	0	7798	739	26	3	98	3	IPO8	12	30783889	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	9907824	30783889	103068006	201	20765										
LRRK2	120892	broad.mit.edu	37	chr12	40745484	40745484	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctgggctgtgggcacaccgaCagaggacagctctcatttct	12	12	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr12:40745484C>A	uc001rmg.3	+	44	6646	c.6525C>A	c.(6523-6525)GAC>GAA	p.D2175E	LRRK2_uc009zjw.2_Missense_Mutation_p.D1013E|LRRK2_uc001rmi.2_Missense_Mutation_p.D1008E	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2175					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)				GGCACACCGACAGAGGACAGC	0.388													61	25	---	---	---	---	PASS	A	40745484	A	A	40745484	3	1	55	1	0	0	0	0	1	0	0	0	9033	477	17	3	6699	3	LRRK2	12	40745484	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	9961595	40745484	93106411	202	20766										
CNTN1	1272	broad.mit.edu	37	chr12	41337799	41337799	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	acatttaaaaatatatagatCctacgcgaattatattggcc	5	7	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr12:41337799C>T	uc001rmm.1	+	14	1623	c.1510C>T	c.(1510-1512)CCT>TCT	p.P504S	CNTN1_uc009zjy.1_Missense_Mutation_p.P504S|CNTN1_uc001rmn.1_Missense_Mutation_p.P493S|CNTN1_uc001rmo.2_Missense_Mutation_p.P504S	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	504	Ig-like C2-type 6.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				ATATATAGATCCTACGCGAAT	0.343													36	12	---	---	---	---	PASS	T	41337799	T	T	41337799	3	4	55	1	0	0	0	0	1	0	0	0	3640	855	30	2	1560	2	CNTN1	12	41337799	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	592315	41337799	92514096	203	20767										
NCKAP1L	3071	broad.mit.edu	37	chr12	54905761	54905761	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cttctttgtcatgggtgcctCaactccaatagccagtgcca	8	13	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr12:54905761C>T	uc001sgc.3	+	9	892	c.813C>T	c.(811-813)CTC>CTT	p.L271L	NCKAP1L_uc010sox.1_5'UTR|NCKAP1L_uc010soy.1_Silent_p.L221L	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	271					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						ATGGGTGCCTCAACTCCAATA	0.483													61	104	---	---	---	---	PASS	T	54905761	T	T	54905761	2	4	55	1	0	0	0	0	0	0	0	1	10222	813	29	2		2	NCKAP1L	12	54905761	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	13567962	54905761	78946134	204	20768										
USP15	9958	broad.mit.edu	37	chr12	62785030	62785030	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tcagtctgaagattcagttgGaggagataatgattctgaaa	11	4	4	5			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr12:62785030G>A	uc001src.1	+	16	2063	c.2054G>A	c.(2053-2055)GGA>GAA	p.G685E	USP15_uc001srb.1_Missense_Mutation_p.G656E	NM_006313	NP_006304	Q9Y4E8	UBP15_HUMAN	ubiquitin specific peptidase 15	685					protein deubiquitination|ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)	3			GBM - Glioblastoma multiforme(1;0.000276)	GBM - Glioblastoma multiforme(28;0.0622)		GATTCAGTTGGAGGAGATAAT	0.393													38	44	---	---	---	---	PASS	A	62785030	A	A	62785030	3	1	55	1	0	0	0	0	1	0	0	0	17043	1174	41	2	2025	2	USP15	12	62785030	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	7879269	62785030	71066865	205	20769										
MGAT4C	25834	broad.mit.edu	37	chr12	86374004	86374004	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	catgtataaccattaatcttCctgcaataatatggtgcgca	6	9	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr12:86374004C>T	uc001tai.3	-	8	1750	c.500G>A	c.(499-501)GGA>GAA	p.G167E	MGAT4C_uc001tal.3_Missense_Mutation_p.G167E|MGAT4C_uc001taj.3_Missense_Mutation_p.G167E|MGAT4C_uc001tak.3_Missense_Mutation_p.G167E|MGAT4C_uc010sum.1_Missense_Mutation_p.G191E|MGAT4C_uc001tah.3_Missense_Mutation_p.G167E	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	167	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						CATTAATCTTCCTGCAATAAT	0.398													45	81	---	---	---	---	PASS	T	86374004	T	T	86374004	3	4	55	1	0	0	0	0	1	0	0	0	9547	855	30	2	940	2	MGAT4C	12	86374004	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	23588974	86374004	47477891	206	20770										
NTN4	59277	broad.mit.edu	37	chr12	96104392	96104392	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agtgacaggtatcagcatgcCcattacacttgcaggctgga	11	10	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr12:96104392C>G	uc001tei.2	-	5	1456	c.1007G>C	c.(1006-1008)GGG>GCG	p.G336A	NTN4_uc009ztf.2_Missense_Mutation_p.G336A|NTN4_uc009ztg.2_Missense_Mutation_p.G299A	NM_021229	NP_067052	Q9HB63	NET4_HUMAN	netrin 4 precursor	336	Laminin EGF-like 2.				axon guidance	basement membrane|plasma membrane				upper_aerodigestive_tract(1)|ovary(1)	2						ATCAGCATGCCCATTACACTT	0.423													60	17	---	---	---	---	PASS	G	96104392	G	G	96104392	3	3	55	1	0	0	0	0	1	0	0	0	10702	623	22	4	903	4	NTN4	12	96104392	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	9730388	96104392	37747503	207	20771										
ANO4	121601	broad.mit.edu	37	chr12	101520783	101520783	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgtatgaagcagaactggaaCgtctccagaaggaacgaaag	12	7	1	3	rs139827573		TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr12:101520783C>A	uc010svm.1	+	27	3375	c.2803C>A	c.(2803-2805)CGT>AGT	p.R935S	ANO4_uc001thw.2_Missense_Mutation_p.R900S|ANO4_uc001thx.2_Missense_Mutation_p.R935S|ANO4_uc001thy.2_Missense_Mutation_p.R455S	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	935	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						AGAACTGGAACGTCTCCAGAA	0.483										HNSCC(74;0.22)			39	22	---	---	---	---	PASS	A	101520783	A	A	101520783	3	1	55	1	0	0	0	0	1	0	0	0	699	536	19	1	2796	1	ANO4	12	101520783	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	5416391	101520783	32331112	208	20772										
TBX5	6910	broad.mit.edu	37	chr12	114793441	114793441	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atgagagtagaggaactcagGgggctgaagggtgccagggg	20	5	1	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr12:114793441G>A	uc001tvo.2	-	9	1948	c.1453C>T	c.(1453-1455)CCT>TCT	p.P485S	TBX5_uc001tvp.2_Missense_Mutation_p.P485S|TBX5_uc001tvq.2_Missense_Mutation_p.P435S	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	485					cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		AGGAACTCAGGGGGCTGAAGG	0.607													101	52	---	---	---	---	PASS	A	114793441	A	A	114793441	3	1	55	1	0	0	0	0	1	0	0	0	15658	1232	43	3	107	3	TBX5	12	114793441	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	13272658	114793441	19058454	209	20773										
RB1	5925	broad.mit.edu	37	chr13	48916733	48916733	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gatctttattttttgttcccAgggaggttatattcaaaaga	8	5	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr13:48916733A>G	uc001vcb.2	+	3	431	c.265_splice	c.e3-2	p.G89_splice	RB1_uc010acs.1_Intron	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1						androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding			lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TTTTGTTCCCAGGGAGGTTAT	0.318		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			45	11	---	---	---	---	PASS	G	48916733	G	G	48916733	5	3	55	1	0	0	0	0	0	0	1	0	13098	202	7	5	273	5	RB1	13	48916733	Splice_Site	SNP	A	TCGA-33-4533-01A-01D-1267-08		48916733	66253145	210	20774										
PCDH9	5101	broad.mit.edu	37	chr13	67800906	67800906	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gaacagtaacaatcacagccGcttggctttggaggggaggg	15	8	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr13:67800906G>T	uc001vik.2	-	2	2359	c.1667C>A	c.(1666-1668)GCG>GAG	p.A556E	PCDH9_uc001vil.2_Missense_Mutation_p.A556E|PCDH9_uc010thl.1_Missense_Mutation_p.A556E|PCDH9_uc001vin.3_Missense_Mutation_p.A556E	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	556	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		AATCACAGCCGCTTGGCTTTG	0.418													168	57	---	---	---	---	PASS	T	67800906	T	T	67800906	3	4	55	1	0	0	0	0	1	0	0	0	11518	1087	38	1	2062	1	PCDH9	13	67800906	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	18884173	67800906	47368972	211	20775										
MYO16	23026	broad.mit.edu	37	chr13	109777485	109777485	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agaggatttttagcacgccaGcacctgcttcagagaataag	10	9	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr13:109777485G>A	uc001vqt.1	+	30	3621	c.3495G>A	c.(3493-3495)CAG>CAA	p.Q1165Q	MYO16_uc010agk.1_Silent_p.Q1187Q|MYO16_uc010tjh.1_Silent_p.Q677Q	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1165	IQ.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			TAGCACGCCAGCACCTGCTTC	0.408													3	65	---	---	---	---	PASS	A	109777485	A	A	109777485	2	1	55	1	0	0	0	0	0	0	0	1	10064	962	34	3		3	MYO16	13	109777485	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	41976579	109777485	5392393	212	20776										
OR4M1	441670	broad.mit.edu	37	chr14	20248790	20248790	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgcattgcacagctcttcttCttacactttgttggggcttc	8	11	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:20248790C>T	uc010tku.1	+	1	309	c.309C>T	c.(307-309)TTC>TTT	p.F103F		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	103	Helical; Name=3; (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)		AGCTCTTCTTCTTACACTTTG	0.458													215	442	---	---	---	---	PASS	T	20248790	T	T	20248790	2	4	55	1	0	0	0	0	0	0	0	1	11075	912	32	2		2	OR4M1	14	20248790	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08		20248790	87100750	213	20777										
OR4N2	390429	broad.mit.edu	37	chr14	20295820	20295820	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aacttggccttcctggatgcAtcctactccttcattgtggc	8	13	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:20295820A>G	uc010tkv.1	+	1	213	c.213A>G	c.(211-213)GCA>GCG	p.A71A		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	71	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCCTGGATGCATCCTACTCCT	0.493													54	537	---	---	---	---	PASS	G	20295820	G	G	20295820	2	3	55	1	0	0	0	0	0	0	0	1	11077	204	8	5		5	OR4N2	14	20295820	Silent	SNP	A	TCGA-33-4533-01A-01D-1267-08	47030	20295820	87053720	214	20778										
OR11G2	390439	broad.mit.edu	37	chr14	20666364	20666364	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gctgtggtttcactgttctaCggctcagtactggtcatgta	11	9	4	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:20666364C>A	uc010tlb.1	+	1	870	c.870C>A	c.(868-870)TAC>TAA	p.Y290*		NM_001005503	NP_001005503	Q8NGC1	O11G2_HUMAN	olfactory receptor, family 11, subfamily G,	290	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.76e-07)|all cancers(55;5.61e-06)	GBM - Glioblastoma multiforme(265;0.0144)		CACTGTTCTACGGCTCAGTAC	0.348													151	408	---	---	---	---	PASS	A	20666364	A	A	20666364	4	1	55	1	0	0	0	0	0	1	0	0	10925	547	19	1	872	1	OR11G2	14	20666364	Nonsense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	370544	20666364	86683176	215	20779										
TEP1	7011	broad.mit.edu	37	chr14	20854783	20854783	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aaagccggatgctgcgccatCtggggataagcagagagctg	15	9	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:20854783C>G	uc001vxe.2	-	19	2725	c.2685_splice	c.e19-1	p.G895_splice	TEP1_uc010ahk.2_Splice_Site_p.G245_splice|TEP1_uc010tlf.1_Splice_Site|TEP1_uc010tlg.1_Splice_Site_p.G787_splice	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1						telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		GCTGCGCCATCTGGGGATAAG	0.577													20	49	---	---	---	---	PASS	G	20854783	G	G	20854783	5	3	55	1	0	0	0	0	0	0	1	0	15756	927	32	2	5347	2	TEP1	14	20854783	Splice_Site	SNP	C	TCGA-33-4533-01A-01D-1267-08	188419	20854783	86494757	216	20780										
OR5AU1	390445	broad.mit.edu	37	chr14	21623814	21623814	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggggcacaaccgtggaggagTagcagaaatccaagaaggag	16	7	0	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:21623814T>A	uc010tlp.1	-	1	371	c.371A>T	c.(370-372)TAC>TTC	p.Y124F		NM_001004731	NP_001004731	Q8NGC0	O5AU1_HUMAN	olfactory receptor, family 5, subfamily AU,	124	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(95;0.00238)		Epithelial(56;6.88e-07)|all cancers(55;6.02e-06)	GBM - Glioblastoma multiforme(265;0.0192)		CGTGGAGGAGTAGCAGAAATC	0.527													75	78	---	---	---	---	PASS	A	21623814	A	A	21623814	3	1	55	1	0	0	0	0	1	0	0	0	11147	1638	57	5	720	5	OR5AU1	14	21623814	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	769031	21623814	85725726	217	20781										
OR5AU1	390445	broad.mit.edu	37	chr14	21624025	21624025	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cccttggctcaggtttgcccCtttcatccttctccagtgct	7	16	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:21624025C>A	uc010tlp.1	-	1	160	c.160G>T	c.(160-162)GGG>TGG	p.G54W		NM_001004731	NP_001004731	Q8NGC0	O5AU1_HUMAN	olfactory receptor, family 5, subfamily AU,	54	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(95;0.00238)		Epithelial(56;6.88e-07)|all cancers(55;6.02e-06)	GBM - Glioblastoma multiforme(265;0.0192)		AGGTTTGCCCCTTTCATCCTT	0.547													58	157	---	---	---	---	PASS	A	21624025	A	A	21624025	3	1	55	1	0	0	0	0	1	0	0	0	11147	681	24	3	931	3	OR5AU1	14	21624025	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	211	21624025	85725515	218	20782										
CDH24	64403	broad.mit.edu	37	chr14	23521275	23521275	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aagaggtacccagcccctttCtggcccccagctccagcctg	9	18	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:23521275C>T	uc001wil.2	-	9	1641	c.1381G>A	c.(1381-1383)GAA>AAA	p.E461K	CDH24_uc001wik.3_5'Flank|CDH24_uc010akf.2_Intron	NM_022478	NP_071923	Q86UP0	CAD24_HUMAN	cadherin-like 24 isoform 1	461	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|cell-cell adhesion|homophilic cell adhesion	cell-cell junction|cell-cell junction|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|delta-catenin binding			central_nervous_system(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		CAGCCCCTTTCTGGCCCCCAG	0.592													8	14	---	---	---	---	PASS	T	23521275	T	T	23521275	3	4	55	1	0	0	0	0	1	0	0	0	3109	922	32	2	1098	2	CDH24	14	23521275	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1897250	23521275	83828265	219	20783										
LRFN5	145581	broad.mit.edu	37	chr14	42356796	42356796	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgcaattcactggatttctcCtgaagggaagcttatttcaa	8	8	3	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:42356796C>G	uc001wvm.2	+	3	2166	c.968C>G	c.(967-969)CCT>CGT	p.P323R	LRFN5_uc010ana.2_Missense_Mutation_p.P323R	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	323	Extracellular (Potential).|Ig-like.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TGGATTTCTCCTGAAGGGAAG	0.458										HNSCC(30;0.082)			98	209	---	---	---	---	PASS	G	42356796	G	G	42356796	3	3	55	1	0	0	0	0	1	0	0	0	8941	681	24	4	970	4	LRFN5	14	42356796	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	18835521	42356796	64992744	220	20784										
FSCB	84075	broad.mit.edu	37	chr14	44975893	44975893	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aatagcagcttctctaacatCagctgacttttcttcaggta	6	10	4	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:44975893C>T	uc001wvn.2	-	1	607	c.298G>A	c.(298-300)GAT>AAT	p.D100N		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	100						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		TCTCTAACATCAGCTGACTTT	0.403													246	262	---	---	---	---	PASS	T	44975893	T	T	44975893	3	4	55	1	0	0	0	0	1	0	0	0	6066	826	29	2	2183	2	FSCB	14	44975893	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	2619097	44975893	62373647	221	20785										
PTGDR	5729	broad.mit.edu	37	chr14	52735279	52735279	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgtgccgagccgcgcgcggaCgggagggaagcgtcccctca	17	14	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:52735279C>A	uc001wzq.2	+	1	849	c.747C>A	c.(745-747)GAC>GAA	p.D249E		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	249	Cytoplasmic (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	CGCGCGCGGACGGGAGGGAAG	0.667													120	295	---	---	---	---	PASS	A	52735279	A	A	52735279	3	1	55	1	0	0	0	0	1	0	0	0	12741	535	19	1	749	1	PTGDR	14	52735279	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	7759386	52735279	54614261	222	20786										
DDHD1	80821	broad.mit.edu	37	chr14	53619162	53619162	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggaactggaggctgggcccgTgggggagcacacatggtcgc	19	10	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:53619162T>A	uc001xai.2	-	1	885	c.655A>T	c.(655-657)ACG>TCG	p.T219S	DDHD1_uc001xaj.2_Missense_Mutation_p.T219S|DDHD1_uc001xah.2_Missense_Mutation_p.T219S	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	219					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					GCTGGGCCCGTGGGGGAGCAC	0.701													23	52	---	---	---	---	PASS	A	53619162	A	A	53619162	3	1	55	1	0	0	0	0	1	0	0	0	4326	1696	59	5	2124	5	DDHD1	14	53619162	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	883883	53619162	53730378	223	20787										
SPTB	6710	broad.mit.edu	37	chr14	65263341	65263341	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcggccttccggtcaaagcgCcgggccagttgctctagctt	13	14	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:65263341C>A	uc001xht.2	-	10	1329	c.1275G>T	c.(1273-1275)CGG>CGT	p.R425R	SPTB_uc001xhr.2_Silent_p.R425R|SPTB_uc001xhs.2_Silent_p.R425R|SPTB_uc001xhu.2_Silent_p.R425R	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	425	Spectrin 2.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		GGTCAAAGCGCCGGGCCAGTT	0.597													44	144	---	---	---	---	PASS	A	65263341	A	A	65263341	2	1	55	1	0	0	0	0	0	0	0	1	15117	726	26	3		3	SPTB	14	65263341	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	11644179	65263341	42086199	224	20788										
ESRRB	2103	broad.mit.edu	37	chr14	76906013	76906013	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	caagcgcctgtgcctcgtgtGcggggacattgcctctggct	14	13	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:76906013G>A	uc001xsq.1	+	2	384	c.317G>A	c.(316-318)TGC>TAC	p.C106Y	ESRRB_uc001xsr.2_Missense_Mutation_p.C106Y|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	106						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		TGCCTCGTGTGCGGGGACATT	0.617													37	98	---	---	---	---	PASS	A	76906013	A	A	76906013	3	1	55	1	0	0	0	0	1	0	0	0	5261	1319	46	3	319	3	ESRRB	14	76906013	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	11642672	76906013	30443527	225	20789										
ATG2B	55102	broad.mit.edu	37	chr14	96777896	96777896	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cacttgctctccatcagaatCagacttcactgcagttatgg	7	12	4	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr14:96777896C>T	uc001yfi.2	-	27	4338	c.3973G>A	c.(3973-3975)GAT>AAT	p.D1325N		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1325										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)		CCATCAGAATCAGACTTCACT	0.289													5	51	---	---	---	---	PASS	T	96777896	T	T	96777896	3	4	55	1	0	0	0	0	1	0	0	0	1094	826	29	2	2327	2	ATG2B	14	96777896	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	19871883	96777896	10571644	226	20790										
OR4M2	390538	broad.mit.edu	37	chr15	22369109	22369109	+	Silent	SNP	C	T	T													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aatgagttagacagttacttCtgtgacatcacacaggttgt							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr15:22369109C>T	uc010tzu.1	+	1	534	c.534C>T	c.(532-534)TTC>TTT	p.F178F	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	178	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		ACAGTTACTTCTGTGACATCA	0.493													26	352	---	---	---	---	PASS	T	22369109	T	T	22369109	2	4	55	1	0	0	0	0	0	0	0	1	11076	912	32	2		2	OR4M2	15	22369109	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08		22369109	80162283	227	20791	470	3								
OR4M2	390538	broad.mit.edu	37	chr15	22369110	22369110	+	Missense_Mutation	SNP	T	G	G													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atgagttagacagttacttcTgtgacatcacacaggttgtc							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr15:22369110T>G	uc010tzu.1	+	1	535	c.535T>G	c.(535-537)TGT>GGT	p.C179G	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	179	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CAGTTACTTCTGTGACATCAC	0.493													23	354	---	---	---	---	PASS	G	22369110	G	G	22369110	3	3	55	1	0	0	0	0	1	0	0	0	11076	1580	55	5	537	5	OR4M2	15	22369110	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	1	22369110	80162282	228	20792	470	3								
OR4M2	390538	broad.mit.edu	37	chr15	22369111	22369111	+	Missense_Mutation	SNP	G	T	T													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgagttagacagttacttctGtgacatcacacaggttgtcc							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr15:22369111G>T	uc010tzu.1	+	1	536	c.536G>T	c.(535-537)TGT>TTT	p.C179F	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	179	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		AGTTACTTCTGTGACATCACA	0.488													22	352	---	---	---	---	PASS	T	22369111	T	T	22369111	3	4	55	1	0	0	0	0	1	0	0	0	11076	1377	48	3	538	3	OR4M2	15	22369111	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	1	22369111	80162281	229	20793	470	3								
HERC2	8924	broad.mit.edu	37	chr15	28544607	28544607	+	Missense_Mutation	SNP	C	A	A													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttccagtgtatacaatttctCcatctttaaccatttcattc							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr15:28544607C>A	uc001zbj.2	-	3	234	c.128G>T	c.(127-129)GGA>GTA	p.G43V	HERC2_uc001zbl.1_5'UTR	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	43	WD 1.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TACAATTTCTCCATCTTTAAC	0.423													100	31	---	---	---	---	PASS	A	28544607	A	A	28544607	3	1	55	1	0	0	0	0	1	0	0	0	7058	855	30	2	14740	2	HERC2	15	28544607	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	6175496	28544607	73986785	230	20794	471	2								
HERC2	8924	broad.mit.edu	37	chr15	28544608	28544608	+	Missense_Mutation	SNP	C	T	T													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tccagtgtatacaatttctcCatctttaaccatttcattcc							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr15:28544608C>T	uc001zbj.2	-	3	233	c.127G>A	c.(127-129)GGA>AGA	p.G43R	HERC2_uc001zbl.1_5'UTR	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	43	WD 1.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ACAATTTCTCCATCTTTAACC	0.423													98	33	---	---	---	---	PASS	T	28544608	T	T	28544608	3	4	55	1	0	0	0	0	1	0	0	0	7058	603	21	3	14741	3	HERC2	15	28544608	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1	28544608	73986784	231	20795	471	2								
MTMR15	22909	broad.mit.edu	37	chr15	31196869	31196869	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccagtttttctaatactcatGatgtcagaagggaaacctcc	7	10	3	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr15:31196869G>A	uc001zff.2	+	2	294	c.3G>A	c.(1-3)ATG>ATA	p.M1I	MTMR15_uc001zfc.3_Missense_Mutation_p.M1I|MTMR15_uc010azw.2_Missense_Mutation_p.M1I|MTMR15_uc001zfd.3_Missense_Mutation_p.M1I|MTMR15_uc001zfe.2_5'UTR	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a	1					double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		TAATACTCATGATGTCAGAAG	0.328								Direct_reversal_of_damage|Editing_and_processing_nucleases					219	75	---	---	---	---	PASS	A	31196869	A	A	31196869	3	1	55	1	0	0	0	0	1	0	0	0	9943	1290	45	2	5	2	MTMR15	15	31196869	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	2652261	31196869	71334523	232	20796										
CASC5	57082	broad.mit.edu	37	chr15	40954333	40954333	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agaacaactacctgaagaatGtagtcaagcaaatttaccaa	6	8	1	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr15:40954333G>T	uc010bbs.1	+	27	7137	c.6976G>T	c.(6976-6978)GTA>TTA	p.V2326L	CASC5_uc010bbt.1_Missense_Mutation_p.V2300L	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	2326					acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		CCTGAAGAATGTAGTCAAGCA	0.368													342	99	---	---	---	---	PASS	T	40954333	T	T	40954333	3	4	55	1	0	0	0	0	1	0	0	0	2663	1377	48	3	7078	3	CASC5	15	40954333	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	9757464	40954333	61577059	233	20797										
SLC24A5	283652	broad.mit.edu	37	chr15	48414135	48414135	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	acaggagcgcagagatggagGcatcataatctatttcctaa	10	8	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr15:48414135G>T	uc001zwe.2	+	2	276	c.203G>T	c.(202-204)GGC>GTC	p.G68V	SLC24A5_uc001zwd.2_Missense_Mutation_p.G68V|SLC24A5_uc010bel.2_Intron	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	68	Helical; Name=1; (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)		AGAGATGGAGGCATCATAATC	0.418													140	51	---	---	---	---	PASS	T	48414135	T	T	48414135	3	4	55	1	0	0	0	0	1	0	0	0	14469	1203	42	3	209	3	SLC24A5	15	48414135	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	7459802	48414135	54117257	234	20798										
ISLR	3671	broad.mit.edu	37	chr15	74467980	74467980	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cactgcactgtgatgtggacGggcagccggcccctcagctt	13	14	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr15:74467980G>T	uc002axg.1	+	2	1063	c.781G>T	c.(781-783)GGG>TGG	p.G261W	ISLR_uc002axh.1_Missense_Mutation_p.G261W	NM_005545	NP_005536	O14498	ISLR_HUMAN	immunoglobulin superfamily containing	261	Ig-like.				cell adhesion	extracellular region				large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						TGATGTGGACGGGCAGCCGGC	0.647													67	76	---	---	---	---	PASS	T	74467980	T	T	74467980	3	4	55	1	0	0	0	0	1	0	0	0	7858	1116	39	1	783	1	ISLR	15	74467980	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	26053845	74467980	28063412	235	20799										
SIN3A	25942	broad.mit.edu	37	chr15	75684663	75684663	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcacttcccgttcccattctCtctctcggttttcttcttca	4	16	5	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr15:75684663C>G	uc002bai.2	-	15	3030	c.2771G>C	c.(2770-2772)AGA>ACA	p.R924T	SIN3A_uc002baj.2_Missense_Mutation_p.R924T|SIN3A_uc010uml.1_Missense_Mutation_p.R924T	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	924					blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						TTCCCATTCTCTCTCTCGGTT	0.498													88	208	---	---	---	---	PASS	G	75684663	G	G	75684663	3	3	55	1	0	0	0	0	1	0	0	0	14325	913	32	2	1078	2	SIN3A	15	75684663	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1216683	75684663	26846729	236	20800										
SNRNP25	79622	broad.mit.edu	37	chr16	107122	107122	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgagacgaggtttccttcatCaaaaagctgaggcaaaagtg	11	8	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr16:107122C>T	uc002cfj.3	+	5	539	c.378C>T	c.(376-378)ATC>ATT	p.I126I	SNRNP25_uc002cfk.3_RNA	NM_024571	NP_078847	Q9BV90	SNR25_HUMAN	U11/U12 snRNP 25K protein	126	Ubiquitin-like.				mRNA processing	U12-type spliceosomal complex					0						TTTCCTTCATCAAAAAGCTGA	0.512													66	384	---	---	---	---	PASS	T	107122	T	T	107122	2	4	55	1	0	0	0	0	0	0	0	1	14853	816	29	2		2	SNRNP25	16	107122	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08		107122	90247631	237	20801										
PKD1	5310	broad.mit.edu	37	chr16	2153488	2153488	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgatggggatctgggcgccgGcctgtgtctggaatgccatc	16	11	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr16:2153488G>T	uc002cos.1	-	23	8779	c.8570C>A	c.(8569-8571)GCC>GAC	p.A2857D	PKD1_uc002cot.1_Missense_Mutation_p.A2857D|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2857	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CTGGGCGCCGGCCTGTGTCTG	0.627													22	138	---	---	---	---	PASS	T	2153488	T	T	2153488	3	4	55	1	0	0	0	0	1	0	0	0	11963	1203	42	3	4437	3	PKD1	16	2153488	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	2046366	2153488	88201265	238	20802										
IL32	9235	broad.mit.edu	37	chr16	3119009	3119009	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aggagctcactcctctacttGaaaaagaaagagatggatta	9	7	2	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr16:3119009G>C	uc002cto.2	+	6	569	c.358G>C	c.(358-360)GAA>CAA	p.E120Q	IL32_uc002ctk.2_Missense_Mutation_p.E74Q|IL32_uc010uwp.1_Missense_Mutation_p.E54Q|IL32_uc010btb.2_Missense_Mutation_p.E64Q|IL32_uc002ctl.2_Missense_Mutation_p.E74Q|IL32_uc002ctm.2_Missense_Mutation_p.E74Q|IL32_uc002ctn.2_Missense_Mutation_p.E74Q|IL32_uc002cts.3_Missense_Mutation_p.E74Q|IL32_uc002ctp.2_Missense_Mutation_p.E54Q|IL32_uc002ctq.2_Missense_Mutation_p.E120Q|IL32_uc002ctr.2_Missense_Mutation_p.E54Q|IL32_uc002ctt.2_Missense_Mutation_p.E74Q|IL32_uc010uwr.1_Missense_Mutation_p.E34Q|IL32_uc002ctu.2_Missense_Mutation_p.E65Q	NM_004221	NP_004212	P24001	IL32_HUMAN	interleukin 32 isoform B	120					cell adhesion|defense response|immune response	extracellular space	cytokine activity			pancreas(1)	1						TCCTCTACTTGAAAAAGAAAG	0.582													20	32	---	---	---	---	PASS	C	3119009	C	C	3119009	3	2	55	1	0	0	0	0	1	0	0	0	7692	1291	45	2	242	2	IL32	16	3119009	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	965521	3119009	87235744	239	20803										
C16orf71	146562	broad.mit.edu	37	chr16	4790471	4790471	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gaatctgtgaaccgccgggcCctccgacaggagagaaggaa	14	11	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr16:4790471C>T	uc002cxn.2	+	4	1056	c.594C>T	c.(592-594)GCC>GCT	p.A198A		NM_139170	NP_631909	Q8IYS4	CP071_HUMAN	hypothetical protein LOC146562	198										central_nervous_system(1)	1						ACCGCCGGGCCCTCCGACAGG	0.612													82	39	---	---	---	---	PASS	T	4790471	T	T	4790471	2	4	55	1	0	0	0	0	0	0	0	1	1830	610	22	3		3	C16orf71	16	4790471	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	1671462	4790471	85564282	240	20804										
GLYR1	84656	broad.mit.edu	37	chr16	4882911	4882911	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gctgttccactttgatccagGcactagcagaaaacaaacac	7	12	0	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr16:4882911G>A	uc002cxx.3	-	4	195	c.158C>T	c.(157-159)GCC>GTC	p.A53V	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_5'UTR|GLYR1_uc002cya.2_Missense_Mutation_p.A53V|GLYR1_uc010uxv.1_Missense_Mutation_p.A53V	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	53	PWWP.				pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						TTTGATCCAGGCACTAGCAGA	0.403													95	37	---	---	---	---	PASS	A	4882911	A	A	4882911	3	1	55	1	0	0	0	0	1	0	0	0	6483	1203	42	3	1555	3	GLYR1	16	4882911	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	92440	4882911	85471842	241	20805										
EARS2	124454	broad.mit.edu	37	chr16	23546569	23546569	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	attccagccatagaccaggtCctggaaggctggcaccacct	10	14	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr16:23546569C>T	uc002dlt.3	-	4	630	c.598G>A	c.(598-600)GAC>AAC	p.D200N	EARS2_uc002dlr.3_RNA|EARS2_uc002dls.3_RNA|EARS2_uc002dlu.2_Missense_Mutation_p.D200N	NM_001083614	NP_001077083	Q5JPH6	SYEM_HUMAN	glutamyl-tRNA synthetase 2 precursor	200					glutamyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|glutamate-tRNA ligase activity|RNA binding				0				GBM - Glioblastoma multiforme(48;0.0353)	L-Glutamic Acid(DB00142)	TAGACCAGGTCCTGGAAGGCT	0.627													23	157	---	---	---	---	PASS	T	23546569	T	T	23546569	3	4	55	1	0	0	0	0	1	0	0	0	4878	855	30	2	997	2	EARS2	16	23546569	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	18663658	23546569	66808184	242	20806										
CD19	930	broad.mit.edu	37	chr16	28944824	28944824	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tccacctggagatcactgctCggccaggtagagtttctctc	10	13	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr16:28944824C>A	uc002drs.2	+	4	891	c.829C>A	c.(829-831)CGG>AGG	p.R277R	uc010vct.1_Intron|CD19_uc010byo.1_Silent_p.R277R	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	277	Extracellular (Potential).|Ig-like C2-type 2.				cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						GATCACTGCTCGGCCAGGTAG	0.552													4	117	---	---	---	---	PASS	A	28944824	A	A	28944824	2	1	55	1	0	0	0	0	0	0	0	1	2973	875	31	2		2	CD19	16	28944824	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	5398255	28944824	61409929	243	20807										
ZNF646	9726	broad.mit.edu	37	chr16	31087665	31087665	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	catggaggacacacccccctCactcagctgctccgactgtc	8	18	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr16:31087665C>T	uc002eap.2	+	2	309	c.20C>T	c.(19-21)TCA>TTA	p.S7L	ZNF668_uc002eao.2_5'Flank	NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	7					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						ACACCCCCCTCACTCAGCTGC	0.617													28	187	---	---	---	---	PASS	T	31087665	T	T	31087665	3	4	55	1	0	0	0	0	1	0	0	0	18059	838	29	2	22	2	ZNF646	16	31087665	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	2142841	31087665	59267088	244	20808			1	24		4	4	3498	N	G_C	8.389134e-06
ZNF646	9726	broad.mit.edu	37	chr16	31090223	31090223	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcccgaaggagtttgactctCtgcctgccctccgcagccac	10	17	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr16:31090223C>T	uc002eap.2	+	2	2867	c.2578C>T	c.(2578-2580)CTG>TTG	p.L860L		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	860	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						GTTTGACTCTCTGCCTGCCCT	0.627													38	176	---	---	---	---	PASS	T	31090223	T	T	31090223	2	4	55	1	0	0	0	0	0	0	0	1	18059	912	32	2		2	ZNF646	16	31090223	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	2558	31090223	59264530	245	20809			1	24		4	4	3498	N	G_C	8.389134e-06
ZNF646	9726	broad.mit.edu	37	chr16	31090538	31090538	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	acatctgtggctgctgtggtCagacctacgatgacctgggg	14	10	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr16:31090538C>T	uc002eap.2	+	2	3182	c.2893C>T	c.(2893-2895)CAG>TAG	p.Q965*		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	965	C2H2-type 17; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						CTGCTGTGGTCAGACCTACGA	0.607													15	192	---	---	---	---	PASS	T	31090538	T	T	31090538	4	4	55	1	0	0	0	0	0	1	0	0	18059	827	29	2	2895	2	ZNF646	16	31090538	Nonsense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	315	31090538	59264215	246	20810			1	24		4	4	3498	N	G_C	8.389134e-06
ZNF646	9726	broad.mit.edu	37	chr16	31091162	31091162	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gggtgaaagaagaggtgtggGaggagaccactgtgaagggg	21	3	0	5			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr16:31091162G>A	uc002eap.2	+	2	3806	c.3517G>A	c.(3517-3519)GAG>AAG	p.E1173K		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	1173					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						AGAGGTGTGGGAGGAGACCAC	0.617													11	56	---	---	---	---	PASS	A	31091162	A	A	31091162	3	1	55	1	0	0	0	0	1	0	0	0	18059	1175	41	2	3519	2	ZNF646	16	31091162	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	624	31091162	59263591	247	20811			1	24		4	4	3498	N	G_C	8.389134e-06
CDH16	1014	broad.mit.edu	37	chr16	66949990	66949990	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggcctggtaccccggctcagCcgagctctgtagatggcttg	14	13	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr16:66949990C>T	uc002eql.2	-	5	475	c.402G>A	c.(400-402)CGG>CGA	p.R134R	CDH16_uc010cdy.2_Silent_p.R134R|CDH16_uc002eqm.2_Intron	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	134	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		CCCGGCTCAGCCGAGCTCTGT	0.567													60	24	---	---	---	---	PASS	T	66949990	T	T	66949990	2	4	55	1	0	0	0	0	0	0	0	1	3101	726	26	3		3	CDH16	16	66949990	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	35858828	66949990	23404763	248	20812										
TP53	7157	broad.mit.edu	37	chr17	7577046	7577046	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agtgctccctgggggcagctCgtggtgaggctcccctttct	14	13	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr17:7577046C>A	uc002gim.2	-	8	1086	c.892G>T	c.(892-894)GAG>TAG	p.E298*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.E298*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.E166*|TP53_uc010cng.1_Nonsense_Mutation_p.E166*|TP53_uc002gii.1_Nonsense_Mutation_p.E166*|TP53_uc010cnh.1_Nonsense_Mutation_p.E298*|TP53_uc010cni.1_Nonsense_Mutation_p.E298*|TP53_uc002gij.2_Nonsense_Mutation_p.E298*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	298	Interaction with HIPK1 (By similarity).		E -> V (in sporadic cancers; somatic mutation).|E -> Q (in sporadic cancers; somatic mutation).|E -> A (in a sporadic cancer; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).|E -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.E298*(35)|p.0?(7)|p.E298K(2)|p.?(2)|p.E298V(2)|p.L299fs*2(1)|p.L265_K305del41(1)|p.E298A(1)|p.E298fs*53(1)|p.G293fs*1(1)|p.E298fs*47(1)|p.E298E(1)|p.E298Q(1)|p.E298_P301delELPP(1)|p.H296_S303delHHELPPGS(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)		GGGGGCAGCTCGTGGTGAGGC	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			164	63	---	---	---	---	PASS	A	7577046	A	A	7577046	4	1	55	1	0	0	0	0	0	1	0	0	16378	893	31	2	394	2	TP53	17	7577046	Nonsense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08		7577046	73618164	249	20813										
MYH4	4622	broad.mit.edu	37	chr17	10348590	10348590	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttggccttctcctctgcattGcgggcttcctggacgatgtc	11	13	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr17:10348590G>A	uc002gmn.2	-	36	5370	c.5259C>T	c.(5257-5259)CGC>CGT	p.R1753R	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1753	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CCTCTGCATTGCGGGCTTCCT	0.468													307	89	---	---	---	---	PASS	A	10348590	A	A	10348590	2	1	55	1	0	0	0	0	0	0	0	1	10037	1306	46	3		3	MYH4	17	10348590	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	2771544	10348590	70846620	250	20814										
MYH2	4620	broad.mit.edu	37	chr17	10427947	10427947	+	Nonsense_Mutation	SNP	C	A	A													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cagctgttccttcaggtcctCctggctccggagagcatcat							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr17:10427947C>A	uc010coi.2	-	35	5139	c.5011G>T	c.(5011-5013)GAG>TAG	p.E1671*	uc002gml.1_Intron|MYH2_uc002gmp.3_Nonsense_Mutation_p.E1671*|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1671	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TTCAGGTCCTCCTGGCTCCGG	0.572													100	50	---	---	---	---	PASS	A	10427947	A	A	10427947	4	1	55	1	0	0	0	0	0	1	0	0	10035	864	30	2	838	2	MYH2	17	10427947	Nonsense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	79357	10427947	70767263	251	20815	472	2								
MYH2	4620	broad.mit.edu	37	chr17	10427948	10427948	+	Missense_Mutation	SNP	C	A	A													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agctgttccttcaggtcctcCtggctccggagagcatcatc							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr17:10427948C>A	uc010coi.2	-	35	5138	c.5010G>T	c.(5008-5010)CAG>CAT	p.Q1670H	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.Q1670H|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1670	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TCAGGTCCTCCTGGCTCCGGA	0.567													100	49	---	---	---	---	PASS	A	10427948	A	A	10427948	3	1	55	1	0	0	0	0	1	0	0	0	10035	680	24	3	839	3	MYH2	17	10427948	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1	10427948	70767262	252	20816	472	2								
USP22	23326	broad.mit.edu	37	chr17	20907656	20907657	+	Frame_Shift_Del	DEL	AG	-	-													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gatggttaacaacagcaaacAgggaatacctagtgcaggag							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr17:20907656_20907657delAG	uc002gym.3	-	12	1597_1598	c.1393_1394delCT	c.(1393-1395)CTGfs	p.L465fs	USP22_uc002gyn.3_Frame_Shift_Del_p.L453fs|USP22_uc002gyl.3_Frame_Shift_Del_p.L360fs	NM_015276	NP_056091	Q9UPT9	UBP22_HUMAN	ubiquitin thiolesterase 22	465					cell cycle|embryo development|histone deubiquitination|histone H4 acetylation|histone ubiquitination|positive regulation of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1						AACAGCAAACAGGGAATACCTA	0.545													50	180	---	---	---	---		-	20907657	-	-	20907656	7	5	55	1	0	1	0	1	0	0	0	0	17051	188	7	0	191	0	USP22	17	20907656	Frame_Shift_Del	DEL	AG	TCGA-33-4533-01A-01D-1267-08	10479708	20907656	60287554	253	20817										
KCNJ12	3768	broad.mit.edu	37	chr17	21319284	21319284	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctgcgtgacggcaagctctgCctcatgtggcgtgtgggtaa	15	10	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr17:21319284C>T	uc002gyv.1	+	3	1335	c.630C>T	c.(628-630)TGC>TGT	p.C210C		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	210	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GCAAGCTCTGCCTCATGTGGC	0.637										Prostate(3;0.18)			45	84	---	---	---	---	PASS	T	21319284	T	T	21319284	2	4	55	1	0	0	0	0	0	0	0	1	8046	747	26	3		3	KCNJ12	17	21319284	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	411628	21319284	59875926	254	20818										
NF1	4763	broad.mit.edu	37	chr17	29664885	29664885	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agtggctggaccagtggacaGaactagctcaaaggtatgtc	13	8	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr17:29664885G>T	uc002hgg.2	+	44	7024	c.6691G>T	c.(6691-6693)GAA>TAA	p.E2231*	NF1_uc002hgh.2_Nonsense_Mutation_p.E2210*|NF1_uc010cso.2_Nonsense_Mutation_p.E419*|NF1_uc010wbt.1_5'UTR|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2231					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		CCAGTGGACAGAACTAGCTCA	0.313			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			38	15	---	---	---	---	PASS	T	29664885	T	T	29664885	4	4	55	1	0	0	0	0	0	1	0	0	10356	943	33	2	6926	2	NF1	17	29664885	Nonsense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	8345601	29664885	51530325	255	20819										
SUZ12	23512	broad.mit.edu	37	chr17	30315405	30315405	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tcactcttcgttggacaggaGagaccaatgataaatctacg	9	9	3	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr17:30315405G>T	uc002hgs.2	+	10	1312	c.1090G>T	c.(1090-1092)GAG>TAG	p.E364*	SUZ12_uc002hgt.2_Nonsense_Mutation_p.E341*	NM_015355	NP_056170	Q15022	SUZ12_HUMAN	joined to JAZF1	364					negative regulation of cell differentiation|transcription, DNA-dependent	ESC/E(Z) complex	histone methyltransferase activity|methylated histone residue binding|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.041)|Ovarian(249;0.182)|Breast(31;0.231)				TTGGACAGGAGAGACCAATGA	0.433			T	JAZF1	endometrial stromal tumours								158	49	---	---	---	---	PASS	T	30315405	T	T	30315405	4	4	55	1	0	0	0	0	0	1	0	0	15413	943	33	2	1128	2	SUZ12	17	30315405	Nonsense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	650520	30315405	50879805	256	20820										
ABCA9	10350	broad.mit.edu	37	chr17	67022584	67022585	+	Frame_Shift_Ins	INS	-	A	A													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcctgcacacttcagcttccINScattggatatgaacaccttc							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr17:67022584_67022585insA	uc002jhu.2	-	16	2217_2218	c.2074_2075insT	c.(2074-2076)GGGfs	p.G692fs	ABCA9_uc010dez.2_Frame_Shift_Ins_p.G692fs	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	692	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					CTTCAGCTTCCCATTGGATATG	0.381													107	284	---	---	---	---		A	67022585	A	A	67022584	7	5	55	1	0	1	1	0	0	0	0	0	39	623	22	0	2895	0	ABCA9	17	67022584	Frame_Shift_Ins	INS	-	TCGA-33-4533-01A-01D-1267-08	36707179	67022584	14172626	257	20821										
FDXR	2232	broad.mit.edu	37	chr17	72860310	72860310	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggcggacacctgctgcccgcCgcccatctggtgagggcagc	15	16	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr17:72860310C>A	uc002jly.2	-	9	1049	c.962G>T	c.(961-963)CGG>CTG	p.R321L	FDXR_uc010wri.1_Missense_Mutation_p.R269L|FDXR_uc010wrj.1_Missense_Mutation_p.R319L|FDXR_uc002jlw.2_Missense_Mutation_p.R78L|FDXR_uc002jlx.2_Missense_Mutation_p.R327L|FDXR_uc002jmc.2_Missense_Mutation_p.R293L|FDXR_uc010wrk.1_Missense_Mutation_p.R352L|FDXR_uc010wrl.1_Missense_Mutation_p.R364L|FDXR_uc002jma.2_Missense_Mutation_p.R322L|FDXR_uc010wrm.1_Missense_Mutation_p.R281L|FDXR_uc002jlz.2_Missense_Mutation_p.R313L|FDXR_uc002jmb.2_RNA	NM_024417	NP_077728	P22570	ADRO_HUMAN	ferredoxin reductase isoform 1 precursor	321					cholesterol metabolic process|electron transport chain|steroid biosynthetic process|transport	mitochondrial matrix	ferredoxin-NADP+ reductase activity|protein binding				0	all_lung(278;0.172)|Lung NSC(278;0.207)					TGCTGCCCGCCGCCCATCTGG	0.672													74	33	---	---	---	---	PASS	A	72860310	A	A	72860310	3	1	55	1	0	0	0	0	1	0	0	0	5807	652	23	1	529	1	FDXR	17	72860310	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	5837726	72860310	8334900	258	20822										
CANT1	124583	broad.mit.edu	37	chr17	76993183	76993183	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tccacggagtagagtttcccAttgaaaacaatcaggtcgga	10	9	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr17:76993183A>G	uc002jwn.2	-	4	961	c.522T>C	c.(520-522)AAT>AAC	p.N174N	CANT1_uc002jwk.2_Silent_p.N174N|CANT1_uc002jwj.2_Silent_p.N174N|CANT1_uc002jwl.2_RNA|CANT1_uc002jwm.1_5'Flank	NM_001159772	NP_001153244	Q8WVQ1	CANT1_HUMAN	calcium activated nucleotidase 1	174	Lumenal (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to membrane	calcium ion binding|nucleoside-diphosphatase activity|signal transducer activity				0			BRCA - Breast invasive adenocarcinoma(99;0.0362)|OV - Ovarian serous cystadenocarcinoma(97;0.139)			AGAGTTTCCCATTGAAAACAA	0.602			T	ETV4	prostate								461	153	---	---	---	---	PASS	G	76993183	G	G	76993183	2	3	55	1	0	0	0	0	0	0	0	1	2617	214	8	5		5	CANT1	17	76993183	Silent	SNP	A	TCGA-33-4533-01A-01D-1267-08	4132873	76993183	4202027	259	20823										
CETN1	1068	broad.mit.edu	37	chr18	580811	580811	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtgtggccaacgagctggggGagaacctcacggatgaggag	18	8	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr18:580811G>A	uc002kko.1	+	1	445	c.403G>A	c.(403-405)GAG>AAG	p.E135K		NM_004066	NP_004057	Q12798	CETN1_HUMAN	centrin 1	135	EF-hand 3.				cell division|mitosis	spindle pole	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding			upper_aerodigestive_tract(1)|ovary(1)	2						CGAGCTGGGGGAGAACCTCAC	0.537													45	146	---	---	---	---	PASS	A	580811	A	A	580811	3	1	55	1	0	0	0	0	1	0	0	0	3274	1175	41	2	405	2	CETN1	18	580811	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08		580811	77496437	260	20824										
EPB41L3	23136	broad.mit.edu	37	chr18	5395670	5395670	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgtgatcgtctgtgcactcaTcagcacgcctggctccagat	10	13	3	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr18:5395670T>A	uc002kmt.1	-	20	3096	c.3010A>T	c.(3010-3012)ATG>TTG	p.M1004L	EPB41L3_uc010wzh.1_Missense_Mutation_p.M835L|EPB41L3_uc002kmu.1_Missense_Mutation_p.M782L|EPB41L3_uc010dkq.1_Missense_Mutation_p.M673L|EPB41L3_uc002kms.1_Missense_Mutation_p.M239L|EPB41L3_uc010wze.1_Missense_Mutation_p.M309L|EPB41L3_uc010wzf.1_Missense_Mutation_p.M301L|EPB41L3_uc010wzg.1_Missense_Mutation_p.M276L|EPB41L3_uc010dkr.2_Missense_Mutation_p.M396L	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	1004	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TGTGCACTCATCAGCACGCCT	0.522													124	279	---	---	---	---	PASS	A	5395670	A	A	5395670	3	1	55	1	0	0	0	0	1	0	0	0	5154	1435	50	5	265	5	EPB41L3	18	5395670	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	4814859	5395670	72681578	261	20825										
EPB41L3	23136	broad.mit.edu	37	chr18	5434020	5434020	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgggtcatagtctccgagctCtgactggacagtgtaggagc	14	9	3	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr18:5434020C>A	uc002kmt.1	-	7	792	c.706G>T	c.(706-708)GAG>TAG	p.E236*	EPB41L3_uc010wzh.1_Nonsense_Mutation_p.E236*|EPB41L3_uc002kmu.1_Nonsense_Mutation_p.E236*|EPB41L3_uc010dkq.1_Nonsense_Mutation_p.E127*|EPB41L3_uc010dks.1_Nonsense_Mutation_p.E258*|EPB41L3_uc002kmv.1_Nonsense_Mutation_p.E127*	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	236	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity	p.E236V(1)		ovary(5)	5						TCTCCGAGCTCTGACTGGACA	0.517													129	182	---	---	---	---	PASS	A	5434020	A	A	5434020	4	1	55	1	0	0	0	0	0	1	0	0	5154	922	32	2	2621	2	EPB41L3	18	5434020	Nonsense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	38350	5434020	72643228	262	20826										
CIDEA	1149	broad.mit.edu	37	chr18	12274250	12274250	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtgtcctacgacatccggtgCacgggactcaagggcctgct	13	13	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr18:12274250C>T	uc002kqt.3	+	4	554	c.489C>T	c.(487-489)TGC>TGT	p.C163C	CIDEA_uc002kqu.3_Silent_p.C197C|CIDEA_uc010dlc.2_RNA	NM_001279	NP_001270	O60543	CIDEA_HUMAN	cell death-inducing DFFA-like effector a isoform	163					DNA damage response, signal transduction resulting in induction of apoptosis|DNA fragmentation involved in apoptotic nuclear change|lipid metabolic process|lipid storage|negative regulation of apoptosis|negative regulation of cytokine secretion|negative regulation of lipid catabolic process|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of sequestering of triglyceride|temperature homeostasis	mitochondrial envelope|nucleus	protein homodimerization activity			ovary(1)|central_nervous_system(1)	2						ACATCCGGTGCACGGGACTCA	0.597													81	110	---	---	---	---	PASS	T	12274250	T	T	12274250	2	4	55	1	0	0	0	0	0	0	0	1	3425	718	25	3		3	CIDEA	18	12274250	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	6840230	12274250	65802998	263	20827										
MOCOS	55034	broad.mit.edu	37	chr18	33779713	33779713	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tcactgccgggagcacggctGctctcaaactggtggcagag	14	12	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr18:33779713G>T	uc002kzq.3	+	4	390	c.367G>T	c.(367-369)GCT>TCT	p.A123S		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	123					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GAGCACGGCTGCTCTCAAACT	0.607													57	73	---	---	---	---	PASS	T	33779713	T	T	33779713	3	4	55	1	0	0	0	0	1	0	0	0	9689	1319	46	3	381	3	MOCOS	18	33779713	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	21505463	33779713	44297535	264	20828										
KATNAL2	83473	broad.mit.edu	37	chr18	44586020	44586020	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gagaggaaaatgcccacccaCgaagagtaagtgaaactcat	10	9	1	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr18:44586020C>T	uc002lco.2	+	5	522	c.328C>T	c.(328-330)CGA>TGA	p.R110*	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lcp.3_Nonsense_Mutation_p.R70*	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2	182						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						TGCCCACCCACGAAGAGTAAG	0.383													76	148	---	---	---	---	PASS	T	44586020	T	T	44586020	4	4	55	1	0	0	0	0	0	1	0	0	7986	528	19	1	342	1	KATNAL2	18	44586020	Nonsense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	10806307	44586020	33491228	265	20829										
MBD1	4152	broad.mit.edu	37	chr18	47799999	47799999	+	Frame_Shift_Del	DEL	C	-	-													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cacaggactgcttgcgccttCccgtaaaaacacaaggtcag							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr18:47799999delC	uc010dow.1	-	12	1818	c.1381delG	c.(1381-1383)GAAfs	p.E461fs	MBD1_uc002lef.2_Frame_Shift_Del_p.E212fs|MBD1_uc002leg.2_Frame_Shift_Del_p.E411fs|MBD1_uc010xdi.1_Frame_Shift_Del_p.E512fs|MBD1_uc002leh.3_Frame_Shift_Del_p.E405fs|MBD1_uc002len.2_Frame_Shift_Del_p.E461fs|MBD1_uc002lei.3_Frame_Shift_Del_p.E461fs|MBD1_uc002lej.3_Frame_Shift_Del_p.E405fs|MBD1_uc002lek.3_Frame_Shift_Del_p.E412fs|MBD1_uc002lel.3_Frame_Shift_Del_p.E438fs|MBD1_uc002lem.3_Frame_Shift_Del_p.E461fs|MBD1_uc010xdj.1_Frame_Shift_Del_p.E405fs|MBD1_uc010xdk.1_Frame_Shift_Del_p.E486fs|MBD1_uc010dox.1_Frame_Shift_Del_p.E438fs|MBD1_uc002leo.2_Frame_Shift_Del_p.E461fs	NM_015846	NP_056671	Q9UIS9	MBD1_HUMAN	methyl-CpG binding domain protein 1 isoform 1	461					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|nuclear speck	methyl-CpG binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CTTGCGCCTTCCCGTAAAAAC	0.632													112	69	---	---	---	---		-	47799999	-	-	47799999	7	5	55	1	0	1	0	1	0	0	0	0	9342	864	30	0	650	0	MBD1	18	47799999	Frame_Shift_Del	DEL	C	TCGA-33-4533-01A-01D-1267-08	3213979	47799999	30277249	266	20830										
MBD1	4152	broad.mit.edu	37	chr18	47800013	47800013	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgccttcccgtaaaaacacaAggtcagtgccaggcgggggc	13	13	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr18:47800013A>C	uc010dow.1	-	12	1804	c.1367T>G	c.(1366-1368)CTT>CGT	p.L456R	MBD1_uc002lef.2_Missense_Mutation_p.L207R|MBD1_uc002leg.2_Missense_Mutation_p.L406R|MBD1_uc010xdi.1_Missense_Mutation_p.L507R|MBD1_uc002leh.3_Missense_Mutation_p.L400R|MBD1_uc002len.2_Missense_Mutation_p.L456R|MBD1_uc002lei.3_Missense_Mutation_p.L456R|MBD1_uc002lej.3_Missense_Mutation_p.L400R|MBD1_uc002lek.3_Missense_Mutation_p.L407R|MBD1_uc002lel.3_Missense_Mutation_p.L433R|MBD1_uc002lem.3_Missense_Mutation_p.L456R|MBD1_uc010xdj.1_Missense_Mutation_p.L400R|MBD1_uc010xdk.1_Missense_Mutation_p.L481R|MBD1_uc010dox.1_Missense_Mutation_p.L433R|MBD1_uc002leo.2_Missense_Mutation_p.L456R	NM_015846	NP_056671	Q9UIS9	MBD1_HUMAN	methyl-CpG binding domain protein 1 isoform 1	456					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|nuclear speck	methyl-CpG binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TAAAAACACAAGGTCAGTGCC	0.627													68	108	---	---	---	---	PASS	C	47800013	C	C	47800013	3	2	55	1	0	0	0	0	1	0	0	0	9342	72	3	5	664	5	MBD1	18	47800013	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	14	47800013	30277235	267	20831										
MEX3C	51320	broad.mit.edu	37	chr18	48703429	48703429	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	acaggattggaggagagccaCgcagagccaagagtgccacc	14	11	0	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr18:48703429C>A	uc002lfc.3	-	2	1272	c.1272G>T	c.(1270-1272)GCG>GCT	p.A424A		NM_016626	NP_057710	Q5U5Q3	MEX3C_HUMAN	ring finger and KH domain containing 2	424						cytoplasm|nucleus	RNA binding|zinc ion binding	p.A424D(1)		lung(2)|ovary(1)|skin(1)	4		Colorectal(6;0.003)|all_epithelial(6;0.0473)		Colorectal(16;0.0175)|READ - Rectum adenocarcinoma(32;0.15)		AGGAGAGCCACGCAGAGCCAA	0.448													23	75	---	---	---	---	PASS	A	48703429	A	A	48703429	2	1	55	1	0	0	0	0	0	0	0	1	9511	523	19	1		1	MEX3C	18	48703429	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	903416	48703429	29373819	268	20832										
RTTN	25914	broad.mit.edu	37	chr18	67855446	67855446	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aattccagaactcttattatCacttgtctgctacctaggaa	5	10	3	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr18:67855446C>T	uc002lkp.2	-	10	1271	c.1203G>A	c.(1201-1203)GTG>GTA	p.V401V	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR|RTTN_uc002lkq.1_Silent_p.V401V	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	401							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				CTCTTATTATCACTTGTCTGC	0.328													16	23	---	---	---	---	PASS	T	67855446	T	T	67855446	2	4	55	1	0	0	0	0	0	0	0	1	13737	813	29	2		2	RTTN	18	67855446	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	19152017	67855446	10221802	269	20833										
GALR1	2587	broad.mit.edu	37	chr18	74980742	74980742	+	Frame_Shift_Del	DEL	A	-	-													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttctctctgaaaatttcaggAaggcctataaacaagtgttc							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr18:74980742delA	uc002lms.3	+	3	1431	c.934delA	c.(934-936)AAGfs	p.K312fs		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	312	Cytoplasmic (Potential).				digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		AAATTTCAGGAAGGCCTATAA	0.443													131	76	---	---	---	---		-	74980742	-	-	74980742	7	5	55	1	0	1	0	1	0	0	0	0	6227	247	9	0	944	0	GALR1	18	74980742	Frame_Shift_Del	DEL	A	TCGA-33-4533-01A-01D-1267-08	7125296	74980742	3096506	270	20834										
SALL3	27164	broad.mit.edu	37	chr18	76752199	76752199	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gggcggacttcctggagcacCagcggagctgcaccaagctc	14	14	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr18:76752199C>T	uc002lmt.2	+	2	208	c.208C>T	c.(208-210)CAG>TAG	p.Q70*	SALL3_uc010dra.2_5'Flank	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	70					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CCTGGAGCACCAGCGGAGCTG	0.721													13	21	---	---	---	---	PASS	T	76752199	T	T	76752199	4	4	55	1	0	0	0	0	0	1	0	0	13812	595	21	3	214	3	SALL3	18	76752199	Nonsense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1771457	76752199	1325049	271	20835										
THOP1	7064	broad.mit.edu	37	chr19	2807757	2807757	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggctctacaccgcgagggacGcggcctcgggggaggtggtc	19	12	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:2807757G>A	uc002lwj.2	+	8	1359	c.1204G>A	c.(1204-1206)GCG>ACG	p.A402T	THOP1_uc010xgz.1_Missense_Mutation_p.A281T|THOP1_uc002lwk.2_5'Flank	NM_003249	NP_003240	P52888	THOP1_HUMAN	thimet oligopeptidase 1	402					proteolysis	cytoplasm	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCGAGGGACGCGGCCTCGGG	0.726													9	63	---	---	---	---	PASS	A	2807757	A	A	2807757	3	1	55	1	0	0	0	0	1	0	0	0	15868	1087	38	1	1234	1	THOP1	19	2807757	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08		2807757	56321226	272	20836										
PIP5K1C	23396	broad.mit.edu	37	chr19	3641803	3641803	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttccgcgggtggctcctcctGcggcctgcaggcaatgggag	16	13	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:3641803G>A	uc002lyj.1	-	15	1744	c.1687C>T	c.(1687-1689)CAG>TAG	p.Q563*	PIP5K1C_uc010xhq.1_Nonsense_Mutation_p.Q563*|PIP5K1C_uc010xhr.1_Nonsense_Mutation_p.Q563*	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	563					axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		GGCTCCTCCTGCGGCCTGCAG	0.637													44	62	---	---	---	---	PASS	A	3641803	A	A	3641803	4	1	55	1	0	0	0	0	0	1	0	0	11941	1328	46	3	335	3	PIP5K1C	19	3641803	Nonsense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	834046	3641803	55487180	273	20837										
WIZ	58525	broad.mit.edu	37	chr19	15538134	15538134	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccagggcttttgggcttggcCctggtgggttgggaggtcca	18	9	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:15538134C>A	uc002nbc.2	-	4	1285	c.1262G>T	c.(1261-1263)GGG>GTG	p.G421V	WIZ_uc002nba.3_Missense_Mutation_p.G288V|WIZ_uc002nbb.3_Missense_Mutation_p.G247V	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	1104	Pro-rich.					nucleus	zinc ion binding				0						TGGGCTTGGCCCTGGTGGGTT	0.652													62	90	---	---	---	---	PASS	A	15538134	A	A	15538134	3	1	55	1	0	0	0	0	1	0	0	0	17372	623	22	3	1664	3	WIZ	19	15538134	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	11896331	15538134	43590849	274	20838										
ZNF85	7639	broad.mit.edu	37	chr19	21133024	21133024	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ggagaaaaaccttacaaatgTgaagaatgtgacaaagcttt	9	5	0	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:21133024T>C	uc002npg.3	+	4	1831	c.1704T>C	c.(1702-1704)TGT>TGC	p.C568C	ZNF85_uc010ecn.2_Silent_p.C503C|ZNF85_uc010eco.2_Silent_p.C516C|ZNF85_uc002npi.2_Silent_p.C509C	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	568	C2H2-type 16.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						CTTACAAATGTGAAGAATGTG	0.338													25	35	---	---	---	---	PASS	C	21133024	C	C	21133024	2	2	55	1	0	0	0	0	0	0	0	1	18190	1702	59	5		5	ZNF85	19	21133024	Silent	SNP	T	TCGA-33-4533-01A-01D-1267-08	5594890	21133024	37995959	275	20839										
ZNF430	80264	broad.mit.edu	37	chr19	21240490	21240490	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tggagagaaaccctacaaatGtgaagaatgtggcaaagcct	11	7	0	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:21240490G>T	uc002npj.2	+	5	1486	c.1376G>T	c.(1375-1377)TGT>TTT	p.C459F	ZNF430_uc002npk.2_Missense_Mutation_p.C458F	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	459	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						CCCTACAAATGTGAAGAATGT	0.393													40	113	---	---	---	---	PASS	T	21240490	T	T	21240490	3	4	55	1	0	0	0	0	1	0	0	0	17901	1377	48	3	1394	3	ZNF430	19	21240490	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	107466	21240490	37888493	276	20840										
ZNF99	7652	broad.mit.edu	37	chr19	22939415	22939415	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	taaaagctttgccacattctTcacatttgtacggtttctcc	5	11	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:22939415T>A	uc010xrh.1	-	7	2756	c.2756A>T	c.(2755-2757)GAA>GTA	p.E919V		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)				GCCACATTCTTCACATTTGTA	0.368													34	5	---	---	---	---	PASS	A	22939415	A	A	22939415	3	1	55	1	0	0	0	0	1	0	0	0	18201	1783	62	5	360	5	ZNF99	19	22939415	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	1698925	22939415	36189568	277	20841			2	25		3	3	383	N	T_A	8.247118e-06
ZNF99	7652	broad.mit.edu	37	chr19	22939499	22939499	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	taaaacctttgccacattctTcacatttgtacggtttctcc	4	12	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:22939499T>A	uc010xrh.1	-	7	2672	c.2672A>T	c.(2671-2673)GAA>GTA	p.E891V		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)				GCCACATTCTTCACATTTGTA	0.363													8	5	---	---	---	---	PASS	A	22939499	A	A	22939499	3	1	55	1	0	0	0	0	1	0	0	0	18201	1783	62	5	444	5	ZNF99	19	22939499	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	84	22939499	36189484	278	20842			2	25		3	3	383	N	T_A	8.247118e-06
ZNF99	7652	broad.mit.edu	37	chr19	22939797	22939797	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gaattatcttatgtttcctaAgggctgagaaattgctaaaa	8	5	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:22939797A>T	uc010xrh.1	-	6	2534	c.2534T>A	c.(2533-2535)CTT>CAT	p.L845H		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)				ATGTTTCCTAAGGGCTGAGAA	0.348													45	57	---	---	---	---	PASS	T	22939797	T	T	22939797	3	4	55	1	0	0	0	0	1	0	0	0	18201	72	3	5	586	5	ZNF99	19	22939797	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	298	22939797	36189186	279	20843			2	25		3	3	383	N	T_A	8.247118e-06
ZNF675	171392	broad.mit.edu	37	chr19	23836845	23836845	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttttatgtgtagtaagatttGagaactggttaaaggctttg	11	2	0	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:23836845G>A	uc002nri.2	-	4	1072	c.890C>T	c.(889-891)TCA>TTA	p.S297L		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	297	C2H2-type 6.				bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				AGTAAGATTTGAGAACTGGTT	0.388													39	117	---	---	---	---	PASS	A	23836845	A	A	23836845	3	1	55	1	0	0	0	0	1	0	0	0	18079	1294	45	2	820	2	ZNF675	19	23836845	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	897048	23836845	35292138	280	20844										
ATP4A	495	broad.mit.edu	37	chr19	36042008	36042008	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgatggcgatcaccaggatcTtattcctgggggtgggcaga	15	9	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:36042008T>G	uc002oal.1	-	20	2920	c.2891A>C	c.(2890-2892)AAG>ACG	p.K964T	ATP4A_uc010eee.1_Missense_Mutation_p.K122T	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	964	Helical; (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	CACCAGGATCTTATTCCTGGG	0.542													14	25	---	---	---	---	PASS	G	36042008	G	G	36042008	3	3	55	1	0	0	0	0	1	0	0	0	1145	1609	56	5	228	5	ATP4A	19	36042008	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	12205163	36042008	23086975	281	20845										
ZNF566	84924	broad.mit.edu	37	chr19	36940084	36940084	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gatgtctagtaaggtctgagCcagaacgaaaagccttttca	10	8	3	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:36940084C>A	uc002oea.3	-	5	1134	c.1052G>T	c.(1051-1053)GGC>GTC	p.G351V	ZNF566_uc010xte.1_Missense_Mutation_p.G351V|ZNF566_uc010xtf.1_Missense_Mutation_p.G352V|ZNF566_uc002oeb.3_Missense_Mutation_p.G351V|ZNF566_uc002oec.3_Missense_Mutation_p.G247V|ZNF566_uc010xtg.1_Missense_Mutation_p.G247V	NM_032838	NP_116227	Q969W8	ZN566_HUMAN	zinc finger protein 566 isoform 1	351	C2H2-type 5.|C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					AAGGTCTGAGCCAGAACGAAA	0.388													38	59	---	---	---	---	PASS	A	36940084	A	A	36940084	3	1	55	1	0	0	0	0	1	0	0	0	17994	739	26	3	208	3	ZNF566	19	36940084	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	898076	36940084	22188899	282	20846										
PLEKHG2	64857	broad.mit.edu	37	chr19	39913469	39913469	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cctgcccagccgggactcttCagaagaggaggaggaggaag	16	10	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:39913469C>T	uc010xuz.1	+	18	2100	c.1775C>T	c.(1774-1776)TCA>TTA	p.S592L	PLEKHG2_uc010xuy.1_Missense_Mutation_p.S533L|PLEKHG2_uc002olj.2_Intron|PLEKHG2_uc010xva.1_Missense_Mutation_p.S370L	NM_022835	NP_073746	Q9H7P9	PKHG2_HUMAN	common-site lymphoma/leukemia guanine nucleotide	592					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			skin(2)|pancreas(1)|breast(1)	4	all_cancers(60;3.08e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;6.57e-07)|Ovarian(47;0.0569)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			CGGGACTCTTCAGAAGAGGAG	0.602													46	97	---	---	---	---	PASS	T	39913469	T	T	39913469	3	4	55	1	0	0	0	0	1	0	0	0	12069	838	29	2	1841	2	PLEKHG2	19	39913469	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	2973385	39913469	19215514	283	20847										
PRR19	284338	broad.mit.edu	37	chr19	42813770	42813770	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gaccagtctcccagccttttCagcagcctgagaaacctggt	9	14	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:42813770C>G	uc002oti.2	+	2	412	c.34C>G	c.(34-36)CAG>GAG	p.Q12E	PRR19_uc002oth.1_Missense_Mutation_p.Q12E|PRR19_uc002otj.2_Missense_Mutation_p.Q12E	NM_199285	NP_954979	A6NJB7	PRR19_HUMAN	proline rich 19	12											0		Prostate(69;0.00682)				CCAGCCTTTTCAGCAGCCTGA	0.572													68	346	---	---	---	---	PASS	G	42813770	G	G	42813770	3	3	55	1	0	0	0	0	1	0	0	0	12591	827	29	2	36	2	PRR19	19	42813770	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	2900301	42813770	16315213	284	20848										
PNMAL1	55228	broad.mit.edu	37	chr19	46974186	46974186	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aggtctcctcaatttctgccTgcccacagtcctctgggatg	9	14	4	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:46974186T>A	uc002peq.3	-	2	413	c.107A>T	c.(106-108)CAG>CTG	p.Q36L	PNMAL1_uc002per.3_Missense_Mutation_p.Q36L	NM_018215	NP_060685	Q86V59	PNML1_HUMAN	PNMA-like 1 isoform a	36											0		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000166)|all cancers(93;0.0014)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		aatttctgcctgcccacagtc	0													62	131	---	---	---	---	PASS	A	46974186	A	A	46974186	3	1	55	1	0	0	0	0	1	0	0	0	12157	1580	55	5	1242	5	PNMAL1	19	46974186	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	4160416	46974186	12154797	285	20849										
DHX34	9704	broad.mit.edu	37	chr19	47879705	47879705	+	Frame_Shift_Del	DEL	C	-	-													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctctgtcctccgcagattttCcacacgcaggccaagcaggg							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:47879705delC	uc010xyn.1	+	12	2828	c.2487delC	c.(2485-2487)TTCfs	p.F829fs	DHX34_uc010xyo.1_5'Flank	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	829						intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		CGCAGATTTTCCACACGCAGG	0.547													47	23	---	---	---	---		-	47879705	-	-	47879705	7	5	55	1	0	1	0	1	0	0	0	0	4507	854	30	0	2529	0	DHX34	19	47879705	Frame_Shift_Del	DEL	C	TCGA-33-4533-01A-01D-1267-08	905519	47879705	11249278	286	20850										
ELSPBP1	64100	broad.mit.edu	37	chr19	48517489	48517489	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tctgtttacttcacttgcacCcatattcatagcttatcccc	3	14	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:48517489C>A	uc002pht.2	+	3	287	c.132C>A	c.(130-132)ACC>ACA	p.T44T		NM_022142	NP_071425	Q96BH3	ESPB1_HUMAN	epididymal sperm binding protein 1 precursor	44	Fibronectin type-II 1.				single fertilization	extracellular region					0		all_cancers(25;8.7e-09)|all_lung(116;1.15e-06)|all_epithelial(76;1.17e-06)|Lung NSC(112;2.56e-06)|all_neural(266;0.0138)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000253)|all cancers(93;0.00129)|Epithelial(262;0.0314)|GBM - Glioblastoma multiforme(486;0.0606)		TCACTTGCACCCATATTCATA	0.498													155	213	---	---	---	---	PASS	A	48517489	A	A	48517489	2	1	55	1	0	0	0	0	0	0	0	1	5083	610	22	3		3	ELSPBP1	19	48517489	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	637784	48517489	10611494	287	20851										
KCNJ14	3770	broad.mit.edu	37	chr19	48967528	48967528	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcaccgatcgtatcttcctcGtgtcccccatcaccatcgtc	6	18	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:48967528G>A	uc002pje.1	+	3	1210	c.805G>A	c.(805-807)GTG>ATG	p.V269M	KCNJ14_uc002pjf.1_Missense_Mutation_p.V269M	NM_013348	NP_037480	Q9UNX9	IRK14_HUMAN	potassium inwardly-rectifying channel J14	269	Cytoplasmic (By similarity).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			skin(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000109)|all cancers(93;0.000129)|Epithelial(262;0.0081)|GBM - Glioblastoma multiforme(486;0.0222)		TATCTTCCTCGTGTCCCCCAT	0.597													53	76	---	---	---	---	PASS	A	48967528	A	A	48967528	3	1	55	1	0	0	0	0	1	0	0	0	8048	1145	40	1	811	1	KCNJ14	19	48967528	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	450039	48967528	10161455	288	20852										
PRR12	57479	broad.mit.edu	37	chr19	50099158	50099158	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gggccagccgcccactcccaGgggctgcccacagccagccc	12	21	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:50099158G>A	uc002poo.3	+	4	1566	c.1566G>A	c.(1564-1566)CAG>CAA	p.Q522Q		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		CCCACTCCCAGGGGCTGCCCA	0.711													19	23	---	---	---	---	PASS	A	50099158	A	A	50099158	2	1	55	1	0	0	0	0	0	0	0	1	12584	991	35	3		3	PRR12	19	50099158	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	1131630	50099158	9029825	289	20853										
TSKS	60385	broad.mit.edu	37	chr19	50248526	50248526	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgccgtctgtgcctgttcgcGctgtgcccgctcccactggc	12	18	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:50248526G>C	uc002ppm.2	-	7	1131	c.1120C>G	c.(1120-1122)CGC>GGC	p.R374G		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	374							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		GCCTGTTCGCGCTGTGCCCGC	0.701													27	50	---	---	---	---	PASS	C	50248526	C	C	50248526	3	2	55	1	0	0	0	0	1	0	0	0	16623	1087	38	4	678	4	TSKS	19	50248526	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	149368	50248526	8880457	290	20854										
AKT1S1	84335	broad.mit.edu	37	chr19	50373310	50373310	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgatgcggtccaggtcgggcGaagagggctgcggggacggc	21	10	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:50373310G>A	uc002pql.3	-	5	1361	c.635C>T	c.(634-636)TCG>TTG	p.S212L	PNKP_uc002pqh.2_5'Flank|PNKP_uc002pqi.2_5'Flank|PNKP_uc002pqj.2_5'Flank|PNKP_uc010enm.2_5'Flank|PNKP_uc002pqk.2_5'Flank|AKT1S1_uc002pqn.3_Missense_Mutation_p.S212L|AKT1S1_uc002pqm.3_Missense_Mutation_p.S212L	NM_032375	NP_115751	Q96B36	AKTS1_HUMAN	AKT1 substrate 1 (proline-rich)	212					negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|nerve growth factor receptor signaling pathway|neuroprotection|phosphatidylinositol-mediated signaling|regulation of survival gene product expression	cytosolic part	protein binding				0		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		CAGGTCGGGCGAAGAGGGCTG	0.741													5	14	---	---	---	---	PASS	A	50373310	A	A	50373310	3	1	55	1	0	0	0	0	1	0	0	0	479	1059	37	2	139	2	AKT1S1	19	50373310	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	124784	50373310	8755673	291	20855										
KCNC3	3748	broad.mit.edu	37	chr19	50831691	50831691	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcctccgtcgtgggcgcctgCggcgttggcggcgttggcgg	20	13	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:50831691C>A	uc002pru.1	-	1	944	c.649G>T	c.(649-651)GCA>TCA	p.A217S	NR1H2_uc002prv.3_5'Flank	NM_004977	NP_004968	Q14003	KCNC3_HUMAN	Shaw-related voltage-gated potassium channel	217	Cytoplasmic (Potential).				cell death	voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1		all_neural(266;0.057)|Ovarian(192;0.208)		OV - Ovarian serous cystadenocarcinoma(262;0.00283)|GBM - Glioblastoma multiforme(134;0.0181)		TGGGCGCCTGCGGCGTTGGCG	0.637													5	9	---	---	---	---	PASS	A	50831691	A	A	50831691	3	1	55	1	0	0	0	0	1	0	0	0	8016	768	27	1	1640	1	KCNC3	19	50831691	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	458381	50831691	8297292	292	20856										
IGLON5	402665	broad.mit.edu	37	chr19	51826948	51826948	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgagcacgtgacccgcgtggCctggctgaaccgctccaaca	12	16	0	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:51826948C>A	uc002pwc.2	+	3	191	c.191C>A	c.(190-192)GCC>GAC	p.A64D		NM_001101372	NP_001094842	A6NGN9	IGLO5_HUMAN	IgLON family member 5 precursor	64	Ig-like C2-type 1.					extracellular region					0						ACCCGCGTGGCCTGGCTGAAC	0.642													28	65	---	---	---	---	PASS	A	51826948	A	A	51826948	3	1	55	1	0	0	0	0	1	0	0	0	7595	739	26	3	201	3	IGLON5	19	51826948	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	995257	51826948	7302035	293	20857										
SIGLEC10	89790	broad.mit.edu	37	chr19	51918657	51918657	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	caggctttggccctccagtaCtgggagagacgtgccgttcc	13	13	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:51918657C>G	uc002pwo.2	-	7	1724	c.1108G>C	c.(1108-1110)GTA>CTA	p.V370L	SIGLEC10_uc002pwp.2_Missense_Mutation_p.V312L|SIGLEC10_uc002pwq.2_Missense_Mutation_p.V312L|SIGLEC10_uc002pwr.2_Missense_Mutation_p.V370L|SIGLEC10_uc010ycy.1_Missense_Mutation_p.V280L|SIGLEC10_uc010ycz.1_Missense_Mutation_p.V322L|SIGLEC10_uc010eow.2_Missense_Mutation_p.V182L|SIGLEC10_uc002pws.1_Missense_Mutation_p.V206L	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	370	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		CCCTCCAGTACTGGGAGAGAC	0.632													52	135	---	---	---	---	PASS	G	51918657	G	G	51918657	3	3	55	1	0	0	0	0	1	0	0	0	14306	565	20	4	1005	4	SIGLEC10	19	51918657	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	91709	51918657	7210326	294	20858										
SIGLEC12	89858	broad.mit.edu	37	chr19	52004682	52004682	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctgatgctcagggtacaatcCttgttctgtgggtccccaag	11	11	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:52004682C>T	uc002pwx.1	-	1	362	c.306G>A	c.(304-306)AAG>AAA	p.K102K	SIGLEC12_uc002pww.1_5'Flank|SIGLEC12_uc010eoy.1_5'UTR	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	102	Ig-like V-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		GGGTACAATCCTTGTTCTGTG	0.493													7	561	---	---	---	---	PASS	T	52004682	T	T	52004682	2	4	55	1	0	0	0	0	0	0	0	1	14308	680	24	3		3	SIGLEC12	19	52004682	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	86025	52004682	7124301	295	20859										
ZNF83	55769	broad.mit.edu	37	chr19	53117505	53117505	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	atgtatagtaaaatgtaagcCttgatgaaaggccttgccac	9	7	0	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:53117505C>T	uc002pzu.3	-	2	1557	c.313G>A	c.(313-315)GGC>AGC	p.G105S	ZNF83_uc002pzv.3_Missense_Mutation_p.G105S|ZNF83_uc010eps.2_Missense_Mutation_p.G105S|ZNF83_uc010ept.2_Missense_Mutation_p.G105S|ZNF83_uc010epu.2_Missense_Mutation_p.G105S|ZNF83_uc010epv.2_Missense_Mutation_p.G105S|ZNF83_uc010epw.2_Missense_Mutation_p.G105S|ZNF83_uc010epx.2_Missense_Mutation_p.G105S|ZNF83_uc010epy.2_Missense_Mutation_p.G105S|ZNF83_uc010epz.2_Missense_Mutation_p.G105S|ZNF83_uc010eqb.1_Missense_Mutation_p.G105S	NM_018300	NP_060770	P51522	ZNF83_HUMAN	zinc finger protein 83 isoform a	105	C2H2-type 1; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00841)|GBM - Glioblastoma multiforme(134;0.0244)		AAATGTAAGCCTTGATGAAAG	0.328													23	94	---	---	---	---	PASS	T	53117505	T	T	53117505	3	4	55	1	0	0	0	0	1	0	0	0	18180	681	24	3	1241	3	ZNF83	19	53117505	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1112823	53117505	6011478	296	20860										
TTYH1	57348	broad.mit.edu	37	chr19	54932556	54932556	+	Missense_Mutation	SNP	C	A	A													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cacacactcagcaccattgaCcacctggtgaggggccagca							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:54932556C>A	uc002qfq.2	+	3	503	c.411C>A	c.(409-411)GAC>GAA	p.D137E	TTYH1_uc010yey.1_Missense_Mutation_p.D186E|TTYH1_uc002qfr.2_Missense_Mutation_p.D137E|TTYH1_uc002qft.2_Missense_Mutation_p.D137E|TTYH1_uc002qfu.1_Missense_Mutation_p.D52E	NM_020659	NP_065710	Q9H313	TTYH1_HUMAN	tweety 1 isoform 1	137	Extracellular (Potential).				cell adhesion	chloride channel complex|plasma membrane	chloride channel activity|iron ion transmembrane transporter activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0767)		GCACCATTGACCACCTGGTGA	0.602													42	127	---	---	---	---	PASS	A	54932556	A	A	54932556	3	1	55	1	0	0	0	0	1	0	0	0	16736	506	18	3	421	3	TTYH1	19	54932556	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1815051	54932556	4196427	297	20861	473	2								
TTYH1	57348	broad.mit.edu	37	chr19	54932557	54932557	+	Missense_Mutation	SNP	C	T	T													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	acacactcagcaccattgacCacctggtgaggggccagcaa							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:54932557C>T	uc002qfq.2	+	3	504	c.412C>T	c.(412-414)CAC>TAC	p.H138Y	TTYH1_uc010yey.1_Missense_Mutation_p.H187Y|TTYH1_uc002qfr.2_Missense_Mutation_p.H138Y|TTYH1_uc002qft.2_Missense_Mutation_p.H138Y|TTYH1_uc002qfu.1_Missense_Mutation_p.H53Y	NM_020659	NP_065710	Q9H313	TTYH1_HUMAN	tweety 1 isoform 1	138	Extracellular (Potential).				cell adhesion	chloride channel complex|plasma membrane	chloride channel activity|iron ion transmembrane transporter activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0767)		CACCATTGACCACCTGGTGAG	0.602													42	124	---	---	---	---	PASS	T	54932557	T	T	54932557	3	4	55	1	0	0	0	0	1	0	0	0	16736	594	21	3	422	3	TTYH1	19	54932557	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1	54932557	4196426	298	20862	473	2								
NLRP5	126206	broad.mit.edu	37	chr19	56539873	56539873	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcatgtcctgtggtccctctAtggtgagtaccccaggcagt	12	12	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr19:56539873A>G	uc002qmj.2	+	7	2274	c.2274A>G	c.(2272-2274)CTA>CTG	p.L758L	NLRP5_uc002qmi.2_Silent_p.L739L	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	758						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)		TGGTCCCTCTATGGTGAGTAC	0.527													261	429	---	---	---	---	PASS	G	56539873	G	G	56539873	2	3	55	1	0	0	0	0	0	0	0	1	10480	436	16	5		5	NLRP5	19	56539873	Silent	SNP	A	TCGA-33-4533-01A-01D-1267-08	1607316	56539873	2589110	299	20863										
ESF1	51575	broad.mit.edu	37	chr20	13698128	13698128	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gaagtgtttcttactgtcctCgtcctcatccatcataagca	6	12	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr20:13698128C>T	uc002woj.2	-	13	2257	c.2149G>A	c.(2149-2151)GAG>AAG	p.E717K		NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	717	Lys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						TTACTGTCCTCGTCCTCATCC	0.373													82	123	---	---	---	---	PASS	T	13698128	T	T	13698128	3	4	55	1	0	0	0	0	1	0	0	0	5251	893	31	2	414	2	ESF1	20	13698128	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08		13698128	49327392	300	20864										
TSHZ2	128553	broad.mit.edu	37	chr20	51870229	51870229	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gaagtcatttgtccaatcagGatgccgagaacgagtctctg	11	9	3	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr20:51870229G>A	uc002xwo.2	+	2	1188	c.232G>A	c.(232-234)GAT>AAT	p.D78N		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	78					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GTCCAATCAGGATGCCGAGAA	0.537													52	115	---	---	---	---	PASS	A	51870229	A	A	51870229	3	1	55	1	0	0	0	0	1	0	0	0	16621	1174	41	2	238	2	TSHZ2	20	51870229	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	38172101	51870229	11155291	301	20865										
TSHZ2	128553	broad.mit.edu	37	chr20	51870575	51870575	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctcgaaacccagcctgttcaGctcggtgcagttgtaccgac	10	14	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr20:51870575G>A	uc002xwo.2	+	2	1534	c.578G>A	c.(577-579)AGC>AAC	p.S193N		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	193					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			AGCCTGTTCAGCTCGGTGCAG	0.572													58	102	---	---	---	---	PASS	A	51870575	A	A	51870575	3	1	55	1	0	0	0	0	1	0	0	0	16621	971	34	3	584	3	TSHZ2	20	51870575	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	346	51870575	11154945	302	20866										
DYRK1A	1859	broad.mit.edu	37	chr21	38858871	38858871	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cacagatagaagtgcgacttCttgagctcatgaacaaacat	8	9	2	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr21:38858871C>G	uc002ywk.2	+	5	694	c.619C>G	c.(619-621)CTT>GTT	p.L207V	DYRK1A_uc002ywh.1_Missense_Mutation_p.L169V|DYRK1A_uc002ywi.2_Missense_Mutation_p.L207V|DYRK1A_uc002ywj.2_Missense_Mutation_p.L198V|DYRK1A_uc002ywl.2_Missense_Mutation_p.L207V|DYRK1A_uc002ywm.2_Missense_Mutation_p.L207V|DYRK1A_uc011aei.1_5'Flank	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	207	Protein kinase.				nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						AGTGCGACTTCTTGAGCTCAT	0.403													11	35	---	---	---	---	PASS	G	38858871	G	G	38858871	3	3	55	1	0	0	0	0	1	0	0	0	4854	913	32	2	637	2	DYRK1A	21	38858871	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08		38858871	9271024	303	20867										
KRTAP10-8	386681	broad.mit.edu	37	chr21	46032670	46032670	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cctctgccgccctgtgtgccGgcctgcctgctgtgtgcctg	13	17	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr21:46032670G>A	uc002zfo.1	+	1	675	c.653G>A	c.(652-654)CGG>CAG	p.R218Q	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198695	NP_941968	P60410	KR108_HUMAN	keratin associated protein 10-8	218	19 X 5 AA repeats of C-C-X(3).					keratin filament				large_intestine(1)|breast(1)	2						cctgtgtgccggcctgcctgc	0.264													5	320	---	---	---	---	PASS	A	46032670	A	A	46032670	3	1	55	1	0	0	0	0	1	0	0	0	8515	1116	39	1	655	1	KRTAP10-8	21	46032670	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	7173799	46032670	2097225	304	20868										
PLA2G3	50487	broad.mit.edu	37	chr22	31533955	31533955	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctgggctgcaggcgagcgagGggcactgtgccgtacatcct	16	12	0	0	rs142651583		TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr22:31533955G>T	uc003aka.2	-	4	936	c.807C>A	c.(805-807)CCC>CCA	p.P269P		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	269	Phospholipase A2-like.				cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						GGCGAGCGAGGGGCACTGTGC	0.652													83	128	---	---	---	---	PASS	T	31533955	T	T	31533955	2	4	55	1	0	0	0	0	0	0	0	1	12000	1219	43	3		3	PLA2G3	22	31533955	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08		31533955	19770611	305	20869										
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31859726	31859726	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gtctctcaagtcccgcaggtCcttatcgctaagacggtgat	10	12	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr22:31859726C>A	uc003akz.1	-	5	690	c.526G>T	c.(526-528)GAC>TAC	p.D176Y	EIF4ENIF1_uc003ala.1_Missense_Mutation_p.D176Y|EIF4ENIF1_uc003alb.1_Intron	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	176	Arg-rich.					nucleus	protein binding|protein transporter activity			ovary(1)	1						TCCCGCAGGTCCTTATCGCTA	0.433													81	116	---	---	---	---	PASS	A	31859726	A	A	31859726	3	1	55	1	0	0	0	0	1	0	0	0	5035	855	30	2	2494	2	EIF4ENIF1	22	31859726	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	325771	31859726	19444840	306	20870										
CSF2RB	1439	broad.mit.edu	37	chr22	37325795	37325795	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcctggccccaggttctcggCtctcaggacgtcccagcaag	12	16	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr22:37325795C>A	uc003aqa.3	+	6	881	c.664C>A	c.(664-666)CTC>ATC	p.L222I	CSF2RB_uc003aqc.3_Missense_Mutation_p.L222I	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	222	Fibronectin type-III 1.|Extracellular (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	AGGTTCTCGGCTCTCAGGACG	0.667													40	64	---	---	---	---	PASS	A	37325795	A	A	37325795	3	1	55	1	0	0	0	0	1	0	0	0	3935	797	28	3	682	3	CSF2RB	22	37325795	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	5466069	37325795	13978771	307	20871										
SSTR3	6753	broad.mit.edu	37	chr22	37603375	37603375	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	accgtgcgggccaccggagcTgtgcgccagcgggccgagcg	18	15	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr22:37603375T>A	uc003ara.2	-	2	530	c.468A>T	c.(466-468)ACA>ACT	p.T156T	SSTR3_uc003arb.2_Silent_p.T156T	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	156	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						CCACCGGAGCTGTGCGCCAGC	0.672													94	132	---	---	---	---	PASS	A	37603375	A	A	37603375	2	1	55	1	0	0	0	0	0	0	0	1	15198	1567	55	5		5	SSTR3	22	37603375	Silent	SNP	T	TCGA-33-4533-01A-01D-1267-08	277580	37603375	13701191	308	20872										
SCUBE1	80274	broad.mit.edu	37	chr22	43600112	43600112	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgtacttgaagtagttctggGgatgcgccagcacgtcgaag	14	8	1	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chr22:43600112G>A	uc003bdt.1	-	22	2946	c.2858C>T	c.(2857-2859)CCC>CTC	p.P953L		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	953					adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				GTAGTTCTGGGGATGCGCCAG	0.582													103	195	---	---	---	---	PASS	A	43600112	A	A	43600112	3	1	55	1	0	0	0	0	1	0	0	0	13944	1232	43	3	112	3	SCUBE1	22	43600112	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	5996737	43600112	7704454	309	20873										
KAL1	3730	broad.mit.edu	37	chrX	8501094	8501094	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gacgatgcttaagatgagatCctaaaaagtgacaaaatatg	9	5	0	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:8501094C>A	uc004csf.2	-	14	2135	c.1985G>T	c.(1984-1986)AGA>ATA	p.R662I		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	662					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						AAGATGAGATCCTAAAAAGTG	0.338													20	53	---	---	---	---	PASS	A	8501094	A	A	8501094	3	1	55	1	0	0	0	0	1	0	0	0	7974	869	30	2	61	2	KAL1	23	8501094	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08		8501094	146769466	310	20874										
FAM48B1	100130302	broad.mit.edu	37	chrX	24381382	24381382	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcaggcatattcttctacgtCcaacgatgcagactttagcc	8	12	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:24381382C>G	uc011mjx.1	+	1	505	c.505C>G	c.(505-507)CCA>GCA	p.P169A		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						TCTTCTACGTCCAACGATGCA	0.458													24	787	---	---	---	---	PASS	G	24381382	G	G	24381382	3	3	55	1	0	0	0	0	1	0	0	0	5573	855	30	2	507	2	FAM48B1	23	24381382	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	15880288	24381382	130889178	311	20875										
IL1RAPL1	11141	broad.mit.edu	37	chrX	29973391	29973391	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ctaattgaatgcagtgaactGagaggaattatgaactacca	9	6	0	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:29973391G>T	uc004dby.2	+	11	2053	c.1545G>T	c.(1543-1545)CTG>CTT	p.L515L		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	515	Cytoplasmic (Potential).|TIR.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						GCAGTGAACTGAGAGGAATTA	0.438													7	171	---	---	---	---	PASS	T	29973391	T	T	29973391	2	4	55	1	0	0	0	0	0	0	0	1	7661	1277	45	2		2	IL1RAPL1	23	29973391	Silent	SNP	G	TCGA-33-4533-01A-01D-1267-08	5592009	29973391	125297169	312	20876										
NR0B1	190	broad.mit.edu	37	chrX	30327185	30327185	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cccagcacggacccagcgtcGcctcgggcgccttcggtgcc	13	19	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:30327185G>T	uc004dcf.3	-	1	311	c.296C>A	c.(295-297)GCG>GAG	p.A99E		NM_000475	NP_000466	P51843	NR0B1_HUMAN	nuclear receptor subfamily 0, group B, member 1	99	4 X 67 AA tandem repeats.|2.				adrenal gland development|hypothalamus development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of steroid hormone receptor signaling pathway|pituitary gland development|protein localization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid biosynthetic process	cytoplasm|membrane fraction|nucleoplasm|nucleus|polysomal ribosome	AF-2 domain binding|DNA hairpin binding|ligand-regulated transcription factor activity|protein domain specific binding|protein homodimerization activity|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|steroid hormone receptor binding|transcription corepressor activity|transcription factor binding			ovary(1)|lung(1)	2					Dexamethasone(DB01234)|Tretinoin(DB00755)	ACCCAGCGTCGCCTCGGGCGC	0.682											OREG0019719	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	167	---	---	---	---	PASS	T	30327185	T	T	30327185	3	4	55	1	0	0	0	0	1	0	0	0	10613	1087	38	1	1124	1	NR0B1	23	30327185	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	353794	30327185	124943375	313	20877										
GK	2710	broad.mit.edu	37	chrX	30739016	30739016	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cactgggtgcggctatggcgGcaggggctgcagaaggagtc	19	9	0	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:30739016G>A	uc004dch.3	+	18	1584	c.1405G>A	c.(1405-1407)GCA>ACA	p.A469T	GK_uc010ngj.2_Missense_Mutation_p.A463T|GK_uc004dci.3_Missense_Mutation_p.A463T|GK_uc011mjz.1_Missense_Mutation_p.A264T|GK_uc011mka.1_Missense_Mutation_p.A306T|GK_uc010ngk.2_Missense_Mutation_p.A258T	NM_203391	NP_976325	P32189	GLPK_HUMAN	glycerol kinase isoform a	469					glycerol-3-phosphate metabolic process|triglyceride biosynthetic process	cytosol|mitochondrial outer membrane	ATP binding|glycerol kinase activity			central_nervous_system(1)	1						GGCTATGGCGGCAGGGGCTGC	0.542													4	66	---	---	---	---	PASS	A	30739016	A	A	30739016	3	1	55	1	0	0	0	0	1	0	0	0	6420	1203	42	3	1475	3	GK	23	30739016	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	411831	30739016	124531544	314	20878										
DMD	1756	broad.mit.edu	37	chrX	32383289	32383289	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gatactcttcaggtgcacctTctgtttctcaatctcttttt	5	11	5	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:32383289T>C	uc004dda.1	-	35	5117	c.4873A>G	c.(4873-4875)AAG>GAG	p.K1625E	DMD_uc004dcw.2_Missense_Mutation_p.K281E|DMD_uc004dcx.2_Missense_Mutation_p.K284E|DMD_uc004dcz.2_Missense_Mutation_p.K1502E|DMD_uc004dcy.1_Missense_Mutation_p.K1621E|DMD_uc004ddb.1_Missense_Mutation_p.K1617E|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1625	Spectrin 11.|Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AGGTGCACCTTCTGTTTCTCA	0.408													5	118	---	---	---	---	PASS	C	32383289	C	C	32383289	3	2	55	1	0	0	0	0	1	0	0	0	4580	1792	62	5	6512	5	DMD	23	32383289	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	1644273	32383289	122887271	315	20879										
CXorf22	170063	broad.mit.edu	37	chrX	35993797	35993797	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gctgcattacaggtctttcaCctttacagtgaacaatgtac	7	10	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:35993797C>A	uc004ddj.2	+	15	2539	c.2480C>A	c.(2479-2481)ACC>AAC	p.T827N	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	827										large_intestine(1)|lung(1)|ovary(1)	3						AGGTCTTTCACCTTTACAGTG	0.383													4	214	---	---	---	---	PASS	A	35993797	A	A	35993797	3	1	55	1	0	0	0	0	1	0	0	0	4102	507	18	3	2538	3	CXorf22	23	35993797	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	3610508	35993797	119276763	316	20880										
SRPX	8406	broad.mit.edu	37	chrX	38020265	38020265	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tactggatcttgtggtctccTtctggaaagttggagcctgg	13	8	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:38020265T>A	uc004ddy.1	-	6	782	c.696A>T	c.(694-696)GAA>GAT	p.E232D	SRPX_uc004ddz.1_Missense_Mutation_p.E212D|SRPX_uc011mkh.1_Missense_Mutation_p.E173D|SRPX_uc011mki.1_Missense_Mutation_p.E232D	NM_006307	NP_006298	P78539	SRPX_HUMAN	sushi-repeat-containing protein, X-linked	232	HYR.				cell adhesion	cell surface|membrane					0						TGTGGTCTCCTTCTGGAAAGT	0.423													10	237	---	---	---	---	PASS	A	38020265	A	A	38020265	3	1	55	1	0	0	0	0	1	0	0	0	15163	1606	56	5	718	5	SRPX	23	38020265	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	2026468	38020265	117250295	317	20881										
SSX7	280658	broad.mit.edu	37	chrX	52681327	52681327	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttcccttggttacggtcattAtcaaaatcattcccctggag	7	11	3	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:52681327A>G	uc004dqx.1	-	4	414	c.255T>C	c.(253-255)GAT>GAC	p.D85D		NM_173358	NP_775494	Q7RTT5	SSX7_HUMAN	synovial sarcoma, X breakpoint 7	85					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding			skin(1)	1	Ovarian(276;0.236)					TACGGTCATTATCAAAATCAT	0.488													184	105	---	---	---	---	PASS	G	52681327	G	G	52681327	2	3	55	1	0	0	0	0	0	0	0	1	15208	446	16	5		5	SSX7	23	52681327	Silent	SNP	A	TCGA-33-4533-01A-01D-1267-08	14661062	52681327	102589233	318	20882										
XAGE5	170627	broad.mit.edu	37	chrX	52841664	52841664	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gctggttgggcctatgcttgTgagtgacttcacattcgatt	12	8	1	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:52841664T>C	uc004drd.1	+	2	137	c.72_splice	c.e2+2	p.L24_splice		NM_130775	NP_570131	Q8WWM1	GAGD5_HUMAN	X antigen family, member 5											ovary(1)	1						CCTATGCTTGTGAGTGACTTC	0.383													14	270	---	---	---	---	PASS	C	52841664	C	C	52841664	5	2	55	1	0	0	0	0	0	0	1	0	17418	1710	59	5	76	5	XAGE5	23	52841664	Splice_Site	SNP	T	TCGA-33-4533-01A-01D-1267-08	160337	52841664	102428896	319	20883										
SMC1A	8243	broad.mit.edu	37	chrX	53439033	53439033	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cctgccgagccttctccactGacagcatctccttctccagc	6	19	3	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:53439033G>A	uc004dsg.2	-	6	1094	c.1025C>T	c.(1024-1026)TCA>TTA	p.S342L	SMC1A_uc011moe.1_Missense_Mutation_p.S320L|SMC1A_uc011mof.1_Intron	NM_006306	NP_006297	Q14683	SMC1A_HUMAN	structural maintenance of chromosomes 1A	342	Potential.				cell cycle checkpoint|cell division|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic sister chromatid cohesion|mitotic spindle organization|negative regulation of DNA endoreduplication|nuclear mRNA splicing, via spliceosome|response to radiation|signal transduction in response to DNA damage	cohesin core heterodimer|condensed chromosome kinetochore|condensed nuclear chromosome|cytoplasm|meiotic cohesin complex|nucleoplasm	ATP binding|chromatin binding|microtubule motor activity|protein heterodimerization activity			ovary(5)|central_nervous_system(1)	6						CTTCTCCACTGACAGCATCTC	0.498													12	52	---	---	---	---	PASS	A	53439033	A	A	53439033	3	1	55	1	0	0	0	0	1	0	0	0	14781	1294	45	2	2756	2	SMC1A	23	53439033	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	597369	53439033	101831527	320	20884										
USP51	158880	broad.mit.edu	37	chrX	55513249	55513249	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tggtaagactagtctttctcTagaccctgtttgtgatagaa	9	7	2	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:55513249T>C	uc004dun.1	-	2	2203	c.2124A>G	c.(2122-2124)CTA>CTG	p.L708L	USP51_uc011moo.1_Silent_p.L412L	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	708					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						AGTCTTTCTCTAGACCCTGTT	0.413													70	33	---	---	---	---	PASS	C	55513249	C	C	55513249	2	2	55	1	0	0	0	0	0	0	0	1	17080	1509	53	5		5	USP51	23	55513249	Silent	SNP	T	TCGA-33-4533-01A-01D-1267-08	2074216	55513249	99757311	321	20885										
NLGN3	54413	broad.mit.edu	37	chrX	70389333	70389333	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tccactatacgtccaccaccAccaaagtgccgcctccggat	6	18	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:70389333A>G	uc004dzb.2	+	7	2177	c.1873A>G	c.(1873-1875)ACC>GCC	p.T625A	NLGN3_uc004dzc.2_Missense_Mutation_p.T508A|NLGN3_uc011mps.1_Missense_Mutation_p.T605A|NLGN3_uc004dze.2_Missense_Mutation_p.T443A	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	645	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					GTCCACCACCACCAAAGTGCC	0.582													42	36	---	---	---	---	PASS	G	70389333	G	G	70389333	3	3	55	1	0	0	0	0	1	0	0	0	10463	159	6	5	1959	5	NLGN3	23	70389333	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	14876084	70389333	84881227	322	20886										
NAP1L2	4674	broad.mit.edu	37	chrX	72433380	72433380	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agttcccctatagggatgggGatcataatatgctagctttg	11	7	1	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:72433380G>C	uc004ebi.2	-	1	1305	c.949C>G	c.(949-951)CCC>GCC	p.P317A	NAP1L2_uc011mqj.1_Missense_Mutation_p.P175A	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	317					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					TAGGGATGGGGATCATAATAT	0.378													12	286	---	---	---	---	PASS	C	72433380	C	C	72433380	3	2	55	1	0	0	0	0	1	0	0	0	10157	1174	41	2	437	2	NAP1L2	23	72433380	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	2044047	72433380	82837180	323	20887										
ATRX	546	broad.mit.edu	37	chrX	76854945	76854945	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccacatttccttcaccacctCcccgagatcttgaattccag	4	17	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:76854945C>G	uc004ecp.3	-	25	6123	c.5891G>C	c.(5890-5892)GGA>GCA	p.G1964A	ATRX_uc004ecq.3_Missense_Mutation_p.G1926A|ATRX_uc004eco.3_Missense_Mutation_p.G1749A	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1964					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TTCACCACCTCCCCGAGATCT	0.388			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						20	372	---	---	---	---	PASS	G	76854945	G	G	76854945	3	3	55	1	0	0	0	0	1	0	0	0	1208	855	30	2	1631	2	ATRX	23	76854945	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	4421565	76854945	78415615	324	20888										
GPR174	84636	broad.mit.edu	37	chrX	78427277	78427277	+	Missense_Mutation	SNP	C	A	A													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tttagatttcctggtgaagtCcaatgaaattaaaagctgcc							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:78427277C>A	uc004edg.1	+	1	809	c.773C>A	c.(772-774)TCC>TAC	p.S258Y		NM_032553	NP_115942	Q9BXC1	GP174_HUMAN	putative purinergic receptor FKSG79	258	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)|central_nervous_system(1)	2						CTGGTGAAGTCCAATGAAATT	0.388										HNSCC(63;0.18)			6	116	---	---	---	---	PASS	A	78427277	A	A	78427277	3	1	55	1	0	0	0	0	1	0	0	0	6672	855	30	2	775	2	GPR174	23	78427277	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1572332	78427277	76843283	325	20889	474	2								
GPR174	84636	broad.mit.edu	37	chrX	78427278	78427278	+	Silent	SNP	C	A	A													0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ttagatttcctggtgaagtcCaatgaaattaaaagctgcct							TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:78427278C>A	uc004edg.1	+	1	810	c.774C>A	c.(772-774)TCC>TCA	p.S258S		NM_032553	NP_115942	Q9BXC1	GP174_HUMAN	putative purinergic receptor FKSG79	258	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)|central_nervous_system(1)	2						TGGTGAAGTCCAATGAAATTA	0.388										HNSCC(63;0.18)			7	116	---	---	---	---	PASS	A	78427278	A	A	78427278	2	1	55	1	0	0	0	0	0	0	0	1	6672	581	21	3		3	GPR174	23	78427278	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	1	78427278	76843282	326	20890	474	2								
DRP2	1821	broad.mit.edu	37	chrX	100505427	100505427	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	agcagacctcttcagccaagTggccaactcaggcagccagt	10	14	3	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:100505427T>C	uc004egz.2	+	15	1925	c.1556T>C	c.(1555-1557)GTG>GCG	p.V519A	DRP2_uc011mrh.1_Missense_Mutation_p.V441A	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	519					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						TTCAGCCAAGTGGCCAACTCA	0.587													154	65	---	---	---	---	PASS	C	100505427	C	C	100505427	3	2	55	1	0	0	0	0	1	0	0	0	4764	1696	59	5	1606	5	DRP2	23	100505427	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	22078149	100505427	54765133	327	20891										
ARMCX5	64860	broad.mit.edu	37	chrX	101857704	101857704	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aaagcccaagcccacacacaAacccacacttactataaaac	2	16	0	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:101857704A>T	uc004ejg.2	+	6	1516	c.635A>T	c.(634-636)AAA>ATA	p.K212I	ARMCX5_uc004ejh.2_Missense_Mutation_p.K212I	NM_022838	NP_073749	Q6P1M9	ARMX5_HUMAN	armadillo repeat containing, X-linked 5	212							binding			ovary(1)	1						CCCACACACAAACCCACACTT	0.478													10	215	---	---	---	---	PASS	T	101857704	T	T	101857704	3	4	55	1	0	0	0	0	1	0	0	0	962	14	1	5	637	5	ARMCX5	23	101857704	Missense_Mutation	SNP	A	TCGA-33-4533-01A-01D-1267-08	1352277	101857704	53412856	328	20892										
GLRA4	441509	broad.mit.edu	37	chrX	102974010	102974010	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	gcaaagaggcccgggagccaGagctctgggtggtcatggtg	18	9	2	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:102974010G>T	uc011mse.1	-	7	1329	c.908C>A	c.(907-909)TCT>TAT	p.S303Y	GLRA4_uc010nou.2_Missense_Mutation_p.S303Y	NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	303	Cytoplasmic (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						CCGGGAGCCAGAGCTCTGGGT	0.582													18	296	---	---	---	---	PASS	T	102974010	T	T	102974010	3	4	55	1	0	0	0	0	1	0	0	0	6457	942	33	2	452	2	GLRA4	23	102974010	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	1116306	102974010	52296550	329	20893										
PLP1	5354	broad.mit.edu	37	chrX	103043405	103043405	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tttccctggcaaggtttgtgGctccaaccttctgtccatct	8	13	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:103043405G>T	uc010nov.2	+	6	942	c.662G>T	c.(661-663)GGC>GTC	p.G221V	RAB9B_uc004eli.1_Intron|PLP1_uc004elk.2_Missense_Mutation_p.G221V|PLP1_uc004elj.2_Missense_Mutation_p.G186V|PLP1_uc011msf.1_Missense_Mutation_p.G166V|PLP1_uc010nox.2_Missense_Mutation_p.G175V	NM_001128834	NP_001122306	P60201	MYPR_HUMAN	proteolipid protein 1 isoform 1	221	Extracellular (Probable).		G -> C (in HLD1).		cell death|synaptic transmission	integral to membrane				ovary(1)	1						AAGGTTTGTGGCTCCAACCTT	0.463													390	210	---	---	---	---	PASS	T	103043405	T	T	103043405	3	4	55	1	0	0	0	0	1	0	0	0	12104	1203	42	3	680	3	PLP1	23	103043405	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	69395	103043405	52227155	330	20894										
MORC4	79710	broad.mit.edu	37	chrX	106185171	106185171	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	aaaccctagtaattaaccttTctaggtcatctccctctggg	6	12	4	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:106185171T>A	uc004emu.3	-	16	2900	c.2657A>T	c.(2656-2658)GAA>GTA	p.E886V	MORC4_uc004emp.3_Intron|MORC4_uc004emv.3_Intron|MORC4_uc004emw.3_Intron	NM_024657	NP_078933	Q8TE76	MORC4_HUMAN	zinc finger, CW type with coiled-coil domain 2	886							ATP binding|zinc ion binding			ovary(1)	1						AATTAACCTTTCTAGGTCATC	0.478													12	169	---	---	---	---	PASS	A	106185171	A	A	106185171	3	1	55	1	0	0	0	0	1	0	0	0	9704	1783	62	5	164	5	MORC4	23	106185171	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	3141766	106185171	49085389	331	20895										
MID2	11043	broad.mit.edu	37	chrX	107169340	107169340	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tcaggccaaccctttaaattGgatcccaaaatgactcacaa	5	12	2	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:107169340G>T	uc004enl.2	+	9	2187	c.1614G>T	c.(1612-1614)TTG>TTT	p.L538F	MID2_uc004enk.2_Missense_Mutation_p.L508F	NM_012216	NP_036348	Q9UJV3	TRIM1_HUMAN	midline 2 isoform 1	538	B30.2/SPRY.					centrosome|microtubule	ligase activity|zinc ion binding			ovary(1)	1						CCTTTAAATTGGATCCCAAAA	0.383													9	177	---	---	---	---	PASS	T	107169340	T	T	107169340	3	4	55	1	0	0	0	0	1	0	0	0	9578	1339	47	3	1648	3	MID2	23	107169340	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	984169	107169340	48101220	332	20896										
HTR2C	3358	broad.mit.edu	37	chrX	113961348	113961348	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cttaagactgaagcaatcatGgtgaacctgaggaatgcggt	12	7	1	4			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:113961348G>T	uc004epu.1	+	3	731	c.3G>T	c.(1-3)ATG>ATT	p.M1I	HTR2C_uc010nqc.1_Missense_Mutation_p.M1I|HTR2C_uc004epv.1_Missense_Mutation_p.M1I	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	1	Extracellular (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	AAGCAATCATGGTGAACCTGA	0.368													13	7	---	---	---	---	PASS	T	113961348	T	T	113961348	3	4	55	1	0	0	0	0	1	0	0	0	7443	1348	47	3	5	3	HTR2C	23	113961348	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	6792008	113961348	41309212	333	20897										
DOCK11	139818	broad.mit.edu	37	chrX	117773511	117773511	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	ccggcttcagcatcttagtaGcctagaaagttcatttacac	7	11	3	1			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:117773511G>T	uc004eqp.2	+	38	4178	c.4115G>T	c.(4114-4116)AGC>ATC	p.S1372I	DOCK11_uc004eqq.2_Missense_Mutation_p.S1151I	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1372					blood coagulation	cytosol	GTP binding			ovary(3)	3						CATCTTAGTAGCCTAGAAAGT	0.393													68	32	---	---	---	---	PASS	T	117773511	T	T	117773511	3	4	55	1	0	0	0	0	1	0	0	0	4686	971	34	3	4265	3	DOCK11	23	117773511	Missense_Mutation	SNP	G	TCGA-33-4533-01A-01D-1267-08	3812163	117773511	37497049	334	20898										
RHOXF1	158800	broad.mit.edu	37	chrX	119249579	119249579	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cgccgccctcggggatcatgCcgccatcgcggttcatgccg	13	17	2	0			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:119249579C>T	uc004esk.1	-	1	269	c.194G>A	c.(193-195)GGC>GAC	p.G65D	uc004esi.1_Intron	NM_139282	NP_644811	Q8NHV9	RHXF1_HUMAN	Rhox homeobox family, member 1	65					gamete generation|multicellular organismal development|steroid hormone receptor signaling pathway	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGGGATCATGCCGCCATCGCG	0.687													5	161	---	---	---	---	PASS	T	119249579	T	T	119249579	3	4	55	1	0	0	0	0	1	0	0	0	13347	739	26	3	372	3	RHOXF1	23	119249579	Missense_Mutation	SNP	C	TCGA-33-4533-01A-01D-1267-08	1476068	119249579	36020981	335	20899										
ODZ1	10178	broad.mit.edu	37	chrX	123870869	123870869	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgcagatggactgaatcctgCgtgctggttgggggagctgg	18	7	0	2			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:123870869C>A	uc004euj.2	-	4	778	c.714G>T	c.(712-714)ACG>ACT	p.T238T	ODZ1_uc011muj.1_Silent_p.T238T|ODZ1_uc010nqy.2_Silent_p.T238T	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	238	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CTGAATCCTGCGTGCTGGTTG	0.542													19	540	---	---	---	---	PASS	A	123870869	A	A	123870869	2	1	55	1	0	0	0	0	0	0	0	1	10834	755	27	1		1	ODZ1	23	123870869	Silent	SNP	C	TCGA-33-4533-01A-01D-1267-08	4621290	123870869	31399691	336	20900										
SMARCA1	6594	broad.mit.edu	37	chrX	128623054	128623054	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	cttgttagactgttggtcaaTgagtcttcctaatgataaaa	8	6	2	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:128623054T>A	uc004eun.3	-	16	2070	c.1957A>T	c.(1957-1959)ATT>TTT	p.I653F	SMARCA1_uc004eup.3_Missense_Mutation_p.I641F|SMARCA1_uc011muk.1_Missense_Mutation_p.I653F|SMARCA1_uc011mul.1_Missense_Mutation_p.I641F	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	653	Helicase C-terminal.				ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						TGTTGGTCAATGAGTCTTCCT	0.348													3	59	---	---	---	---	PASS	A	128623054	A	A	128623054	3	1	55	1	0	0	0	0	1	0	0	0	14768	1464	51	5	1243	5	SMARCA1	23	128623054	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	4752185	128623054	26647506	337	20901										
MAGEA6	4105	broad.mit.edu	37	chrX	151870167	151870167	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103030303030303	34	0.000150415394557796	2.00879370629371	2.56022727272727	1.84336363636364	0.00436882490944224	0.055234429212234	17	tgaaaccagctatgtgaaagTcctgcaccatatggtaaaga	9	8	0	3			TCGA-33-4533-01A-01D-1267-08	TCGA-33-4533-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	52b8c7c1-2cfe-410d-a738-1dec43109e24	a2f81c91-c632-4d91-8ef0-97592e267307	g.chrX:151870167T>A	uc004ffq.1	+	3	1051	c.857T>A	c.(856-858)GTC>GAC	p.V286D	MAGEA6_uc004ffr.1_Missense_Mutation_p.V286D|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	286	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					TATGTGAAAGTCCTGCACCAT	0.542													320	146	---	---	---	---	PASS	A	151870167	A	A	151870167	3	1	55	1	0	0	0	0	1	0	0	0	9170	1667	58	5	859	5	MAGEA6	23	151870167	Missense_Mutation	SNP	T	TCGA-33-4533-01A-01D-1267-08	23247113	151870167	3400393	338	20902										
SH2D5	400745	broad.mit.edu	37	chr1	21051069	21051069	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ggctgtgcccgctcctcaggGtgctgcaagaggtaagccag	15	12	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:21051069G>A	uc001bdt.1	-	5	823	c.198C>T	c.(196-198)CAC>CAT	p.H66H	SH2D5_uc009vpy.1_Silent_p.H150H|SH2D5_uc001bdu.1_RNA	NM_001103160	NP_001096630	Q6ZV89	SH2D5_HUMAN	SH2 domain containing 5 isoform 2	66											0		Colorectal(325;3.46e-05)|all_lung(284;5.32e-05)|Lung NSC(340;5.51e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(152;1.17e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000142)|GBM - Glioblastoma multiforme(114;0.000465)|Kidney(64;0.000476)|STAD - Stomach adenocarcinoma(196;0.00303)|KIRC - Kidney renal clear cell carcinoma(64;0.00634)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GCTCCTCAGGGTGCTGCAAGA	0.682													8	7	---	---	---	---	PASS	A	21051069	A	A	21051069	2	1	56	1	0	0	0	0	0	0	0	1	14237	1252	44	3		3	SH2D5	1	21051069	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08		21051069	228199552	1	20903										
RIMKLA	284716	broad.mit.edu	37	chr1	42880318	42880318	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aatgttggcttcctagccttTgaccaggcatgcaacttaga	9	10	0	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:42880318T>A	uc001chi.2	+	5	987	c.849T>A	c.(847-849)TTT>TTA	p.F283L		NM_173642	NP_775913	Q8IXN7	RIMKA_HUMAN	ribosomal modification protein rimK-like family	283	ATP-grasp.				protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						TCCTAGCCTTTGACCAGGCAT	0.498													16	201	---	---	---	---	PASS	A	42880318	A	A	42880318	3	1	56	1	0	0	0	0	1	0	0	0	13365	1809	63	5	867	5	RIMKLA	1	42880318	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	21829249	42880318	206370303	2	20904										
EPS15	2060	broad.mit.edu	37	chr1	51946954	51946954	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aaaaatcttacctgtctataGtatttttcatatacaggatt	4	6	3	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:51946954G>C	uc001csq.1	-	2	158	c.66C>G	c.(64-66)TAC>TAG	p.Y22*	EPS15_uc009vyz.1_Nonsense_Mutation_p.Y22*	NM_001981	NP_001972	P42566	EPS15_HUMAN	epidermal growth factor receptor pathway	22	EH 1.				cell proliferation|clathrin coat assembly|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|protein transport	cytosol|early endosome membrane	calcium ion binding|SH3 domain binding			lung(1)|kidney(1)	2						CCTGTCTATAGTATTTTTCAT	0.264			T	MLL	ALL								11	6	---	---	---	---	PASS	C	51946954	C	C	51946954	4	2	56	1	0	0	0	0	0	1	0	0	5192	1024	36	4	2818	4	EPS15	1	51946954	Nonsense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	9066636	51946954	197303667	3	20905										
SGIP1	84251	broad.mit.edu	37	chr1	67145430	67145430	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aggatcccccttaacaattgGaccaggtacgcttttgtttt	8	10	0	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:67145430G>A	uc001dcr.2	+	14	1026	c.809G>A	c.(808-810)GGA>GAA	p.G270E	SGIP1_uc010opd.1_Missense_Mutation_p.G37E|SGIP1_uc001dcs.2_Missense_Mutation_p.G37E|SGIP1_uc001dct.2_Missense_Mutation_p.G37E|uc010ope.1_5'Flank|SGIP1_uc009wat.2_Missense_Mutation_p.G37E	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	270	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						TTAACAATTGGACCAGGTACG	0.468													25	24	---	---	---	---	PASS	A	67145430	A	A	67145430	3	1	56	1	0	0	0	0	1	0	0	0	14206	1174	41	2	863	2	SGIP1	1	67145430	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	15198476	67145430	182105191	4	20906										
LRRC8D	55144	broad.mit.edu	37	chr1	90400336	90400336	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agagttgtacttaataggcaAtttgaactctgaaaacaata	7	5	1	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:90400336A>G	uc001dnm.2	+	3	2134	c.1709A>G	c.(1708-1710)AAT>AGT	p.N570S	LRRC8D_uc001dnn.2_Missense_Mutation_p.N570S	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	570	LRR 3.					integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		TTAATAGGCAATTTGAACTCT	0.428													31	11	---	---	---	---	PASS	G	90400336	G	G	90400336	3	3	56	1	0	0	0	0	1	0	0	0	9024	101	4	5	1711	5	LRRC8D	1	90400336	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	23254906	90400336	158850285	5	20907										
COL11A1	1301	broad.mit.edu	37	chr1	103453203	103453203	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	accaaccttttctcctgcttGacctgaaggacctgggtctc	8	14	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:103453203G>A	uc001dul.2	-	30	2806	c.2488C>T	c.(2488-2490)CAA>TAA	p.Q830*	COL11A1_uc001duk.2_Silent_p.V20V|COL11A1_uc001dum.2_Nonsense_Mutation_p.Q842*|COL11A1_uc001dun.2_Nonsense_Mutation_p.Q791*|COL11A1_uc009weh.2_Nonsense_Mutation_p.Q714*	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	830	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TCTCCTGCTTGACCTGAAGGA	0.463													13	34	---	---	---	---	PASS	A	103453203	A	A	103453203	4	1	56	1	0	0	0	0	0	1	0	0	3667	1299	45	2	3084	2	COL11A1	1	103453203	Nonsense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	13052867	103453203	145797418	6	20908										
KCNA2	3737	broad.mit.edu	37	chr1	111147297	111147297	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cgcagccctgagatgttgatCaccaccctctcacagcactc	7	17	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:111147297C>G	uc001dzu.2	-	2	604	c.108G>C	c.(106-108)GTG>GTC	p.V36V	KCNA2_uc009wfv.1_Silent_p.V36V|KCNA2_uc009wfw.2_Silent_p.V36V	NM_004974	NP_004965	P16389	KCNA2_HUMAN	potassium voltage-gated channel, shaker-related	36						juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(1)	1		all_cancers(81;5.55e-06)|all_epithelial(167;1.87e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Colorectal(144;0.00878)|Lung(183;0.0234)|all cancers(265;0.0492)|Epithelial(280;0.0529)|COAD - Colon adenocarcinoma(174;0.131)|LUSC - Lung squamous cell carcinoma(189;0.133)|READ - Rectum adenocarcinoma(129;0.191)		AGATGTTGATCACCACCCTCT	0.582													44	197	---	---	---	---	PASS	G	111147297	G	G	111147297	2	3	56	1	0	0	0	0	0	0	0	1	8003	813	29	2		2	KCNA2	1	111147297	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	7694094	111147297	138103324	7	20909										
NOTCH2	4853	broad.mit.edu	37	chr1	120468395	120468395	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tcccccttcctacatttcacTtgtccacagctgctctggca	5	17	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:120468395T>A	uc001eik.2	-	25	4300	c.4044A>T	c.(4042-4044)CAA>CAT	p.Q1348H		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1348	Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TACATTTCACTTGTCCACAGC	0.547			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				15	13	---	---	---	---	PASS	A	120468395	A	A	120468395	3	1	56	1	0	0	0	0	1	0	0	0	10548	1606	56	5	3411	5	NOTCH2	1	120468395	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	9321098	120468395	128782226	8	20910										
SPTA1	6708	broad.mit.edu	37	chr1	158623135	158623135	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cgccgctgtgggagcatcggGaactcatcgtgggccagtct	15	12	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:158623135G>A	uc001fst.1	-	22	3316	c.3117C>T	c.(3115-3117)TTC>TTT	p.F1039F		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1039					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)					GGAGCATCGGGAACTCATCGT	0.562													19	64	---	---	---	---	PASS	A	158623135	A	A	158623135	2	1	56	1	0	0	0	0	0	0	0	1	15115	1165	41	2		2	SPTA1	1	158623135	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	38154740	158623135	90627486	9	20911										
AIM2	9447	broad.mit.edu	37	chr1	159035952	159035952	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gtattaaaaacttttacaaaGaagaattccttttctgtagc	5	6	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:159035952G>A	uc001ftj.1	-	4	809	c.564C>T	c.(562-564)TTC>TTT	p.F188F		NM_004833	NP_004824	O14862	AIM2_HUMAN	absent in melanoma 2	188	HIN-200.				cellular response to drug|immune response|interleukin-1 beta secretion	mitochondrion|nucleus				ovary(2)|pancreas(1)	3	all_hematologic(112;0.0429)					CTTTTACAAAGAAGAATTCCT	0.363													35	134	---	---	---	---	PASS	A	159035952	A	A	159035952	2	1	56	1	0	0	0	0	0	0	0	1	432	933	33	2		2	AIM2	1	159035952	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	412817	159035952	90214669	10	20912										
IGSF8	93185	broad.mit.edu	37	chr1	160062180	160062180	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gggggcacagtggtacacgcCttcatcctcgggccccaagc	13	15	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:160062180C>T	uc001fva.2	-	5	1663	c.1618G>A	c.(1618-1620)GGC>AGC	p.G540S	IGSF8_uc001fuz.2_Missense_Mutation_p.G540S|IGSF8_uc009wtf.2_Missense_Mutation_p.G540S	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	540	Ig-like C2-type 4.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			TGGTACACGCCTTCATCCTCG	0.662													54	126	---	---	---	---	PASS	T	160062180	T	T	160062180	3	4	56	1	0	0	0	0	1	0	0	0	7604	681	24	3	231	3	IGSF8	1	160062180	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	1026228	160062180	89188441	11	20913										
RABGAP1L	9910	broad.mit.edu	37	chr1	174190149	174190149	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aacaattggaaaaagccatgGaagagattttgagagattcc	10	5	0	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:174190149G>T	uc001gjx.2	+	3	373	c.178G>T	c.(178-180)GAA>TAA	p.E60*	RABGAP1L_uc009wwq.1_Nonsense_Mutation_p.E60*|RABGAP1L_uc001gjw.2_Nonsense_Mutation_p.E23*	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	60					regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						AAAAGCCATGGAAGAGATTTT	0.373													16	77	---	---	---	---	PASS	T	174190149	T	T	174190149	4	4	56	1	0	0	0	0	0	1	0	0	12965	1175	41	2	184	2	RABGAP1L	1	174190149	Nonsense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	14127969	174190149	75060472	12	20914										
TNN	63923	broad.mit.edu	37	chr1	175046710	175046710	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tacaagatcgatgtgcccaaGtctgccttggttcaggttga	11	9	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:175046710G>T	uc001gkl.1	+	2	269	c.156G>T	c.(154-156)AAG>AAT	p.K52N	TNN_uc010pmx.1_Missense_Mutation_p.K52N	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	52					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		ATGTGCCCAAGTCTGCCTTGG	0.612													16	67	---	---	---	---	PASS	T	175046710	T	T	175046710	3	4	56	1	0	0	0	0	1	0	0	0	16320	1020	36	3	158	3	TNN	1	175046710	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	856561	175046710	74203911	13	20915										
FAM5C	339479	broad.mit.edu	37	chr1	190067750	190067750	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gacataaacagccaacactgGctccaaggtgctgtttttag	9	10	0	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:190067750G>A	uc001gse.1	-	8	1931	c.1699C>T	c.(1699-1701)CCA>TCA	p.P567S	FAM5C_uc010pot.1_Missense_Mutation_p.P465S	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	567						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					GCCAACACTGGCTCCAAGGTG	0.458													67	103	---	---	---	---	PASS	A	190067750	A	A	190067750	3	1	56	1	0	0	0	0	1	0	0	0	5594	1203	42	3	605	3	FAM5C	1	190067750	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	15021040	190067750	59182871	14	20916										
KCNT2	343450	broad.mit.edu	37	chr1	196311207	196311207	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tttctctgaggcagaaacatActttttgtgtgcatggaaag	10	6	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:196311207A>C	uc001gtd.1	-	15	1613	c.1553_splice	c.e15+1	p.K518_splice	KCNT2_uc009wyt.1_Splice_Site|KCNT2_uc001gte.1_Intron|KCNT2_uc001gtf.1_Splice_Site_p.K518_splice|KCNT2_uc001gtg.1_Splice_Site|KCNT2_uc009wyu.2_Splice_Site_p.K518_splice|KCNT2_uc001gth.1_Intron	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2							voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						GCAGAAACATACTTTTTGTGT	0.318													10	30	---	---	---	---	PASS	C	196311207	C	C	196311207	5	2	56	1	0	0	0	0	0	0	1	0	8092	405	14	5	1908	5	KCNT2	1	196311207	Splice_Site	SNP	A	TCGA-33-4538-01A-01D-1267-08	6243457	196311207	52939414	15	20917										
KCNT2	343450	broad.mit.edu	37	chr1	196342287	196342287	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tactgccctctagaggtatgAaccagtagtgtaataagtgt	10	7	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:196342287A>G	uc001gtd.1	-	14	1446	c.1386T>C	c.(1384-1386)GTT>GTC	p.V462V	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Silent_p.V462V|KCNT2_uc001gtf.1_Silent_p.V462V|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Silent_p.V462V|KCNT2_uc009wyv.1_Silent_p.V437V	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	462	Cytoplasmic (Potential).|RCK N-terminal.					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TAGAGGTATGAACCAGTAGTG	0.299													4	21	---	---	---	---	PASS	G	196342287	G	G	196342287	2	3	56	1	0	0	0	0	0	0	0	1	8092	233	9	5		5	KCNT2	1	196342287	Silent	SNP	A	TCGA-33-4538-01A-01D-1267-08	31080	196342287	52908334	16	20918										
CFHR4	10877	broad.mit.edu	37	chr1	196884133	196884133	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cacctattagcaatggtgatAccacctcctttctactaaaa	4	12	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:196884133A>G	uc001gto.2	+	5	733	c.664A>G	c.(664-666)ACC>GCC	p.T222A	CFHR4_uc009wyy.2_Missense_Mutation_p.T468A|CFHR4_uc001gtp.2_Missense_Mutation_p.T469A	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	222	Sushi 4.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						CAATGGTGATACCACCTCCTT	0.383													15	52	---	---	---	---	PASS	G	196884133	G	G	196884133	3	3	56	1	0	0	0	0	1	0	0	0	3287	391	14	5	682	5	CFHR4	1	196884133	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	541846	196884133	52366488	17	20919										
CR2	1380	broad.mit.edu	37	chr1	207646438	207646438	+	Missense_Mutation	SNP	A	T	T													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cactgtgacattcaagtgttAtagtggatttactttgaagg							TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:207646438A>T	uc001hfw.2	+	10	1986	c.1892A>T	c.(1891-1893)TAT>TTT	p.Y631F	CR2_uc001hfv.2_Missense_Mutation_p.Y631F|CR2_uc009xch.2_Missense_Mutation_p.Y631F|CR2_uc009xci.1_Missense_Mutation_p.Y116F	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	631	Sushi 10.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TTCAAGTGTTATAGTGGATTT	0.403													32	38	---	---	---	---	PASS	T	207646438	T	T	207646438	3	4	56	1	0	0	0	0	1	0	0	0	3842	449	16	5	1930	5	CR2	1	207646438	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	10762305	207646438	41604183	18	20920	475	2								
CR2	1380	broad.mit.edu	37	chr1	207646439	207646439	+	Nonsense_Mutation	SNP	T	A	A													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	actgtgacattcaagtgttaTagtggatttactttgaaggg							TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:207646439T>A	uc001hfw.2	+	10	1987	c.1893T>A	c.(1891-1893)TAT>TAA	p.Y631*	CR2_uc001hfv.2_Nonsense_Mutation_p.Y631*|CR2_uc009xch.2_Nonsense_Mutation_p.Y631*|CR2_uc009xci.1_Nonsense_Mutation_p.Y116*	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	631	Sushi 10.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TCAAGTGTTATAGTGGATTTA	0.398													33	36	---	---	---	---	PASS	A	207646439	A	A	207646439	4	1	56	1	0	0	0	0	0	1	0	0	3842	1413	49	5	1931	5	CR2	1	207646439	Nonsense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	1	207646439	41604182	19	20921	475	2								
RRP15	51018	broad.mit.edu	37	chr1	218458671	218458671	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gcagaaaaatggcagccgccGctccggactcacgtgtgagt	13	12	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:218458671G>T	uc001hlj.2	+	1	43	c.13G>T	c.(13-15)GCT>TCT	p.A5S		NM_016052	NP_057136	Q9Y3B9	RRP15_HUMAN	ribosomal RNA processing 15 homolog	5						mitochondrion|nucleolus	protein binding				0				all cancers(67;0.0315)|OV - Ovarian serous cystadenocarcinoma(81;0.0411)|GBM - Glioblastoma multiforme(131;0.06)|Epithelial(68;0.248)		GGCAGCCGCCGCTCCGGACTC	0.542													8	32	---	---	---	---	PASS	T	218458671	T	T	218458671	3	4	56	1	0	0	0	0	1	0	0	0	13687	1087	38	1	15	1	RRP15	1	218458671	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	10812232	218458671	30791950	20	20922										
NLRP3	114548	broad.mit.edu	37	chr1	247607404	247607404	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aggggatcaaactactctgtGagggactcttgcaccccgac	11	12	3	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:247607404G>T	uc001icr.2	+	9	2938	c.2800G>T	c.(2800-2802)GAG>TAG	p.E934*	NLRP3_uc001ics.2_Nonsense_Mutation_p.E877*|NLRP3_uc001icu.2_Nonsense_Mutation_p.E934*|NLRP3_uc001icw.2_Nonsense_Mutation_p.E877*|NLRP3_uc001icv.2_Nonsense_Mutation_p.E820*|NLRP3_uc010pyw.1_Nonsense_Mutation_p.E912*	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	934					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			ACTACTCTGTGAGGGACTCTT	0.507													28	76	---	---	---	---	PASS	T	247607404	T	T	247607404	4	4	56	1	0	0	0	0	0	1	0	0	10478	1291	45	2	2826	2	NLRP3	1	247607404	Nonsense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	29148733	247607404	1643217	21	20923										
OR2T8	343172	broad.mit.edu	37	chr1	248085113	248085113	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gagacccaaatcccacaggtCcactaaccacgacaaggttg	8	14	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:248085113C>A	uc010pzc.1	+	1	794	c.794C>A	c.(793-795)TCC>TAC	p.S265Y		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TCCCACAGGTCCACTAACCAC	0.493													35	94	---	---	---	---	PASS	A	248085113	A	A	248085113	3	1	56	1	0	0	0	0	1	0	0	0	11030	855	30	2	796	2	OR2T8	1	248085113	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	477709	248085113	1165508	22	20924										
OR2T34	127068	broad.mit.edu	37	chr1	248737429	248737429	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	atgatgggggtgagaagcatGaggatgcagcacaggtacgt	17	5	0	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr1:248737429G>T	uc001iep.1	-	1	630	c.630C>A	c.(628-630)CTC>CTA	p.L210L		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGAGAAGCATGAGGATGCAGC	0.542													91	383	---	---	---	---	PASS	T	248737429	T	T	248737429	2	4	56	1	0	0	0	0	0	0	0	1	11025	1277	45	2		2	OR2T34	1	248737429	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	652316	248737429	513192	23	20925										
CMPK2	129607	broad.mit.edu	37	chr2	7001388	7001388	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aatataattgcccaaagagtAaaaagctcttctaatgatag	6	6	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:7001388A>G	uc002qyo.2	-	3	1028	c.919T>C	c.(919-921)TAC>CAC	p.Y307H	CMPK2_uc010yis.1_Missense_Mutation_p.Y307H|CMPK2_uc010ewv.2_Missense_Mutation_p.Y307H	NM_207315	NP_997198	Q5EBM0	CMPK2_HUMAN	UMP-CMP kinase 2 precursor	307					dTDP biosynthetic process	mitochondrion	ATP binding|cytidylate kinase activity|thymidylate kinase activity|UMP kinase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					CCCAAAGAGTAAAAAGCTCTT	0.408													17	46	---	---	---	---	PASS	G	7001388	G	G	7001388	3	3	56	1	0	0	0	0	1	0	0	0	3581	362	13	5	442	5	CMPK2	2	7001388	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08		7001388	236197985	24	20926										
APOB	338	broad.mit.edu	37	chr2	21233009	21233009	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tttgaatccaggatgcagtaCtacttccacttttgttaaaa	6	8	0	1	rs146333152	byFrequency	TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:21233009C>A	uc002red.2	-	26	6859	c.6731G>T	c.(6730-6732)AGT>ATT	p.S2244I		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2244					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GGATGCAGTACTACTTCCACT	0.323													11	22	---	---	---	---	PASS	A	21233009	A	A	21233009	3	1	56	1	0	0	0	0	1	0	0	0	785	565	20	3	6976	3	APOB	2	21233009	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	14231621	21233009	221966364	25	20927										
APOB	338	broad.mit.edu	37	chr2	21236165	21236165	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ttgtacaagttgctgtagacAttcgtggagaggtctagaac	12	6	1	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:21236165A>G	uc002red.2	-	25	4211	c.4083T>C	c.(4081-4083)AAT>AAC	p.N1361N		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1361					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TGCTGTAGACATTCGTGGAGA	0.512													3	171	---	---	---	---	PASS	G	21236165	G	G	21236165	2	3	56	1	0	0	0	0	0	0	0	1	785	214	8	5		5	APOB	2	21236165	Silent	SNP	A	TCGA-33-4538-01A-01D-1267-08	3156	21236165	221963208	26	20928										
CGREF1	10669	broad.mit.edu	37	chr2	27327225	27327225	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gattaacactgtcatcgtcaAaggtaacatccttcctggaa	7	10	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:27327225A>G	uc010eys.1	-	2	152	c.10T>C	c.(10-12)TTG>CTG	p.L4L	CGREF1_uc010ylf.1_Intron|CGREF1_uc002rip.1_5'UTR|CGREF1_uc002riq.2_Silent_p.L4L|CGREF1_uc010eyr.1_Silent_p.L126L|CGREF1_uc002rir.1_Silent_p.L4L|CGREF1_uc002ris.2_Silent_p.L4L	NM_006569	NP_006560	Q99674	CGRE1_HUMAN	cell growth regulator with EF-hand domain 1	4					cell adhesion|cell cycle arrest|negative regulation of cell proliferation|response to stress	extracellular region	calcium ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTCATCGTCAAAGGTAACATC	0.562													23	36	---	---	---	---	PASS	G	27327225	G	G	27327225	2	3	56	1	0	0	0	0	0	0	0	1	3305	11	1	5		5	CGREF1	2	27327225	Silent	SNP	A	TCGA-33-4538-01A-01D-1267-08	6091060	27327225	215872148	27	20929										
BIRC6	57448	broad.mit.edu	37	chr2	32773076	32773076	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aggaacatgttacctgccttCtgcaggtatatttgtaaact	8	8	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:32773076C>T	uc010ezu.2	+	64	13104	c.12970C>T	c.(12970-12972)CTG>TTG	p.L4324L		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4324					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)					TACCTGCCTTCTGCAGGTATA	0.368													9	26	---	---	---	---	PASS	T	32773076	T	T	32773076	2	4	56	1	0	0	0	0	0	0	0	1	1438	912	32	2		2	BIRC6	2	32773076	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	5445851	32773076	210426297	28	20930										
TTC27	55622	broad.mit.edu	37	chr2	32855589	32855589	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cactaattttttatattacaGagagtggatctttcctacaa	5	7	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:32855589G>T	uc002rom.2	+	2	320	c.89_splice	c.e2-1	p.E30_splice	TTC27_uc010ymx.1_Splice_Site	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27								protein binding			central_nervous_system(1)	1						TTATATTACAGAGAGTGGATC	0.303													10	34	---	---	---	---	PASS	T	32855589	T	T	32855589	5	4	56	1	0	0	0	0	0	0	1	0	16692	956	33	2	94	2	TTC27	2	32855589	Splice_Site	SNP	G	TCGA-33-4538-01A-01D-1267-08	82513	32855589	210343784	29	20931										
OTX1	5013	broad.mit.edu	37	chr2	63283220	63283220	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	atggcgggccaccatcatcaCcacccacatgcgcaccaccc	7	20	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:63283220C>T	uc002scd.2	+	5	1082	c.834C>T	c.(832-834)CAC>CAT	p.H278H	OTX1_uc010ypt.1_Silent_p.H212H	NM_014562	NP_055377	P32242	OTX1_HUMAN	orthodenticle homeobox 1	278	His-rich.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(2)	2	Lung NSC(7;0.121)|all_lung(7;0.211)					ACCATCATCACCACCCACATG	0.537													43	201	---	---	---	---	PASS	T	63283220	T	T	63283220	2	4	56	1	0	0	0	0	0	0	0	1	11320	506	18	3		3	OTX1	2	63283220	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	30427631	63283220	179916153	30	20932										
PROKR1	10887	broad.mit.edu	37	chr2	68882195	68882195	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tgcggccagatctggcctgtGgaccagcagctctactacaa	11	13	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:68882195G>T	uc010yqj.1	+	2	669	c.669G>T	c.(667-669)GTG>GTT	p.V223V	PROKR1_uc002ses.2_RNA	NM_138964	NP_620414	Q8TCW9	PKR1_HUMAN	G protein-coupled receptor 73	223	Extracellular (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1						TCTGGCCTGTGGACCAGCAGC	0.552													38	156	---	---	---	---	PASS	T	68882195	T	T	68882195	2	4	56	1	0	0	0	0	0	0	0	1	12552	1335	47	3		3	PROKR1	2	68882195	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	5598975	68882195	174317178	31	20933										
ALMS1	7840	broad.mit.edu	37	chr2	73635753	73635753	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctgcttttgattttcagattGttccattgacctgtcatgta	7	8	2	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:73635753G>T	uc002sje.1	+	3	442	c.331G>T	c.(331-333)GTT>TTT	p.V111F	ALMS1_uc002sjf.1_Intron	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	110					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TTTTCAGATTGTTCCATTGAC	0.269													3	23	---	---	---	---	PASS	T	73635753	T	T	73635753	3	4	56	1	0	0	0	0	1	0	0	0	535	1377	48	3	334	3	ALMS1	2	73635753	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	4753558	73635753	169563620	32	20934										
TTN	7273	broad.mit.edu	37	chr2	179644760	179644760	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	taagttctgaccactacagtAtctttggccattttcttcct	5	11	3	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:179644760A>G	uc010zfg.1	-	22	3920	c.3696T>C	c.(3694-3696)GAT>GAC	p.D1232D	TTN_uc010zfh.1_Silent_p.D1186D|TTN_uc010zfi.1_Silent_p.D1186D|TTN_uc010zfj.1_Silent_p.D1186D|TTN_uc002unb.2_Silent_p.D1232D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1232							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)			CCACTACAGTATCTTTGGCCA	0.279													25	20	---	---	---	---	PASS	G	179644760	G	G	179644760	2	3	56	1	0	0	0	0	0	0	0	1	16732	446	16	5		5	TTN	2	179644760	Silent	SNP	A	TCGA-33-4538-01A-01D-1267-08	106009007	179644760	63554613	33	20935										
PLCL1	5334	broad.mit.edu	37	chr2	198948702	198948702	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	accttcaaagaaagacctcgAgaaagccaagcttgatattt	7	9	1	4			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:198948702A>G	uc010fsp.2	+	2	752	c.461A>G	c.(460-462)GAG>GGG	p.E154G	PLCL1_uc002uuv.3_Missense_Mutation_p.E75G	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	154	PH.|Interaction with PPP1C.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	AAAGACCTCGAGAAAGCCAAG	0.443													38	35	---	---	---	---	PASS	G	198948702	G	G	198948702	3	3	56	1	0	0	0	0	1	0	0	0	12039	304	11	5	467	5	PLCL1	2	198948702	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	19303942	198948702	44250671	34	20936										
PLCL1	5334	broad.mit.edu	37	chr2	198948753	198948753	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agagatcagactggggaaaaAcacggaaacatttagaaaca	10	6	1	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:198948753A>T	uc010fsp.2	+	2	803	c.512A>T	c.(511-513)AAC>ATC	p.N171I	PLCL1_uc002uuv.3_Missense_Mutation_p.N92I	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	171	PH.|Interaction with PPP1C.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	CTGGGGAAAAACACGGAAACA	0.458													24	88	---	---	---	---	PASS	T	198948753	T	T	198948753	3	4	56	1	0	0	0	0	1	0	0	0	12039	43	2	5	518	5	PLCL1	2	198948753	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	51	198948753	44250620	35	20937										
CHPF	79586	broad.mit.edu	37	chr2	220406348	220406362	+	In_Frame_Del	DEL	CCAGTGCAGCCCACC	-	-													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	atcatcccacctcgtggtcaCcagtgcagcccaccccggtg							TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:220406348_220406362delCCAGTGCAGCCCACC	uc002vmc.3	-	2	1091_1105	c.864_878delGGTGGGCTGCACTGG	c.(862-879)GGGGTGGGCTGCACTGGT>GGT	p.288_293GVGCTG>G	CHPF_uc010zlh.1_In_Frame_Del_p.126_131GVGCTG>G|CHPF_uc002vmd.3_In_Frame_Del_p.288_293GVGCTG>G|TMEM198_uc002vme.2_5'Flank|TMEM198_uc002vmf.2_5'Flank	NM_024536	NP_078812	Q8IZ52	CHSS2_HUMAN	chondroitin polymerizing factor	288_293	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity|protein binding				0		Renal(207;0.0183)		Epithelial(149;3.02e-08)|all cancers(144;3.41e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		CTCGTGGTCACCAGTGCAGCCCACCCCGGTGGCAT	0.526											OREG0015229	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	8	---	---	---	---		-	220406362	-	-	220406348	7	5	56	1	0	1	0	1	0	0	0	0	3368	507	18	0	1461	0	CHPF	2	220406348	In_Frame_Del	DEL	CCAGTGCAGCCCACC	TCGA-33-4538-01A-01D-1267-08	21457595	220406348	22793025	36	20938										
STK11IP	114790	broad.mit.edu	37	chr2	220462644	220462644	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gaggaccagacggggaggttCggtatgtctgaccaggactt	16	8	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr2:220462644C>T	uc002vml.2	+	1	49	c.6C>T	c.(4-6)TTC>TTT	p.F2F	STK11IP_uc010zlj.1_5'UTR|STK11IP_uc010zlk.1_5'UTR|STK11IP_uc010zll.1_5'UTR|STK11IP_uc002vmm.1_5'Flank	NM_052902	NP_443134	Q8N1F8	S11IP_HUMAN	LKB1 interacting protein	2					protein localization	cytoplasm	protein kinase binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;2.69e-07)|all cancers(144;5.91e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CGGGGAGGTTCGGTATGTCTG	0.572											OREG0003993	type=REGULATORY REGION|Gene=STK11IP|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	5	24	---	---	---	---	PASS	T	220462644	T	T	220462644	2	4	56	1	0	0	0	0	0	0	0	1	15287	898	31	2		2	STK11IP	2	220462644	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	56296	220462644	22736729	37	20939										
VHL	7428	broad.mit.edu	37	chr3	10191556	10191556	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agactggacatcgtcaggtcGctctacgaagatctggaaga	12	9	3	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:10191556G>A	uc003bvc.2	+	3	762	c.549G>A	c.(547-549)TCG>TCA	p.S183S	VHL_uc003bvd.2_Silent_p.S142S	NM_000551	NP_000542	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor isoform 1	183					anti-apoptosis|cell morphogenesis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell differentiation|positive regulation of transcription, DNA-dependent|protein stabilization|protein ubiquitination|proteolysis	cytosol|endoplasmic reticulum|membrane|mitochondrion|nucleus	protein binding|transcription factor binding	p.S183*(6)|p.S183fs*19(1)		kidney(1273)|soft_tissue(24)|adrenal_gland(15)|large_intestine(13)|pancreas(5)|endometrium(4)|thyroid(3)|upper_aerodigestive_tract(3)|central_nervous_system(2)|lung(2)|pleura(1)|paratesticular_tissues(1)	1346				Kidney(1;0.000404)|KIRC - Kidney renal clear cell carcinoma(1;0.000569)		TCGTCAGGTCGCTCTACGAAG	0.512		1	D|Mis|N|F|S		renal|hemangioma|pheochromocytoma	renal|hemangioma|pheochromocytoma			von_Hippel-Lindau_disease|Chuvash_Polycythemia_|Pheochromocytoma_(Adrenal)_Familial				20	12	---	---	---	---	PASS	A	10191556	A	A	10191556	2	1	56	1	0	0	0	0	0	0	0	1	17159	1074	38	1		1	VHL	3	10191556	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08		10191556	187830874	38	20940										
TRANK1	9881	broad.mit.edu	37	chr3	36899190	36899190	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ggacttgagctgagatgtgtGaccaggggcagtggactttg	17	6	0	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:36899190G>C	uc003cgj.2	-	3	543	c.241C>G	c.(241-243)CAC>GAC	p.H81D		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	631					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TGAGATGTGTGACCAGGGGCA	0.582													8	128	---	---	---	---	PASS	C	36899190	C	C	36899190	3	2	56	1	0	0	0	0	1	0	0	0	16451	1290	45	2	6934	2	TRANK1	3	36899190	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	26707634	36899190	161123240	39	20941										
CCBP2	1238	broad.mit.edu	37	chr3	42906283	42906283	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tctccaaccttctgtttctgGtgacactgcccttctggggc	9	14	4	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:42906283G>T	uc003cme.2	+	3	468	c.289G>T	c.(289-291)GTG>TTG	p.V97L	CCBP2_uc003cmd.1_Missense_Mutation_p.V97L|CCBP2_uc003cmf.2_Missense_Mutation_p.V97L|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Intron	NM_001296	NP_001287	O00590	CCBP2_HUMAN	chemokine binding protein 2	97	Helical; Name=2; (Potential).				chemotaxis|immune response|multicellular organismal development	integral to plasma membrane	C-X-C chemokine receptor activity			lung(4)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.241)		TCTGTTTCTGGTGACACTGCC	0.507													95	57	---	---	---	---	PASS	T	42906283	T	T	42906283	3	4	56	1	0	0	0	0	1	0	0	0	2734	1261	44	3	291	3	CCBP2	3	42906283	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	6007093	42906283	155116147	40	20942										
ZNF662	389114	broad.mit.edu	37	chr3	42956129	42956129	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	catcacaaaattctaaatgaGcaaatattctatatatgtga	4	6	3	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:42956129G>T	uc003cmi.2	+	5	916	c.564G>T	c.(562-564)GAG>GAT	p.E188D	ZNF662_uc003cmk.2_Missense_Mutation_p.E214D|ZNF662_uc003cmj.2_Missense_Mutation_p.E80D	NM_207404	NP_997287	Q6ZS27	ZN662_HUMAN	zinc finger protein 662 isoform 1	188					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.217)		TTCTAAATGAGCAAATATTCT	0.363													16	20	---	---	---	---	PASS	T	42956129	T	T	42956129	3	4	56	1	0	0	0	0	1	0	0	0	18068	962	34	3	765	3	ZNF662	3	42956129	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	49846	42956129	155066301	41	20943										
FBXW12	285231	broad.mit.edu	37	chr3	48420927	48420927	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tgacatctacacatttacacTgcctgggttaagagatgttt	8	8	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:48420927T>C	uc003csr.2	+	7	839	c.653T>C	c.(652-654)CTG>CCG	p.L218P	FBXW12_uc010hjv.2_Missense_Mutation_p.L199P|FBXW12_uc003css.2_Missense_Mutation_p.L148P|FBXW12_uc010hjw.2_Missense_Mutation_p.L117P	NM_207102	NP_996985	Q6X9E4	FBW12_HUMAN	F-box and WD repeat domain containing 12 isoform	218	WD 3.										0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		ACATTTACACTGCCTGGGTTA	0.418													120	89	---	---	---	---	PASS	C	48420927	C	C	48420927	3	2	56	1	0	0	0	0	1	0	0	0	5765	1580	55	5	712	5	FBXW12	3	48420927	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	5464798	48420927	149601503	42	20944										
USP4	7375	broad.mit.edu	37	chr3	49318254	49318254	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aaggccttgctgacaggttaCagacaaactcggacatgttc	10	10	0	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:49318254C>T	uc003cwq.2	-	20	2646	c.2567G>A	c.(2566-2568)TGT>TAT	p.C856Y	USP4_uc003cwo.2_Missense_Mutation_p.C568Y|USP4_uc003cwp.2_Missense_Mutation_p.C586Y|USP4_uc003cwr.2_Missense_Mutation_p.C809Y	NM_003363	NP_003354	Q13107	UBP4_HUMAN	ubiquitin specific protease 4 isoform a	856					negative regulation of protein ubiquitination|protein deubiquitination|protein localization at cell surface|regulation of protein stability|ubiquitin-dependent protein catabolic process	lysosome|nucleus	adenosine receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|urinary_tract(1)|lung(1)	4		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)		TGACAGGTTACAGACAAACTC	0.438													17	29	---	---	---	---	PASS	T	49318254	T	T	49318254	3	4	56	1	0	0	0	0	1	0	0	0	17068	478	17	3	336	3	USP4	3	49318254	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	897327	49318254	148704176	43	20945										
MAGI1	9223	broad.mit.edu	37	chr3	65415667	65415667	+	Frame_Shift_Del	DEL	G	-	-													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gaggtcactaaacttgtattGgggtcatctggatcaaaagg							TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:65415667delG	uc003dmn.2	-	12	2221	c.1695delC	c.(1693-1695)CCCfs	p.P565fs	MAGI1_uc003dmm.2_Frame_Shift_Del_p.P565fs|MAGI1_uc003dmo.2_Frame_Shift_Del_p.P565fs|MAGI1_uc003dmp.2_Frame_Shift_Del_p.P565fs|MAGI1_uc010hny.2_Frame_Shift_Del_p.P450fs	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	565					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		AACTTGTATTGGGGTCATCTG	0.453													28	22	---	---	---	---		-	65415667	-	-	65415667	7	5	56	1	0	1	0	1	0	0	0	0	9190	1335	47	0	2975	0	MAGI1	3	65415667	Frame_Shift_Del	DEL	G	TCGA-33-4538-01A-01D-1267-08	16097413	65415667	132606763	44	20946										
PROS1	5627	broad.mit.edu	37	chr3	93611872	93611872	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ttcaatctttccaccacgaaGtgcaatcaggagccacgctg	8	13	3	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:93611872G>C	uc003drb.3	-	10	1401	c.1060C>G	c.(1060-1062)CTT>GTT	p.L354V	PROS1_uc010hoo.2_Missense_Mutation_p.L223V|PROS1_uc003dqz.3_Missense_Mutation_p.L223V	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	354	Laminin G-like 1.				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	CCACCACGAAGTGCAATCAGG	0.398													18	35	---	---	---	---	PASS	C	93611872	C	C	93611872	3	2	56	1	0	0	0	0	1	0	0	0	12558	1029	36	4	994	4	PROS1	3	93611872	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	28196205	93611872	104410558	45	20947										
TBC1D23	55773	broad.mit.edu	37	chr3	100039691	100039691	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cacggaaaggattggcttatAtacagtctcgacaagcgctg	11	9	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:100039691A>T	uc003dtt.2	+	18	2071	c.1894A>T	c.(1894-1896)ATA>TTA	p.I632L	TBC1D23_uc003dts.2_Missense_Mutation_p.I617L|TBC1D23_uc003dtu.2_Missense_Mutation_p.I63L	NM_018309	NP_060779	Q9NUY8	TBC23_HUMAN	TBC1 domain family, member 23	632						intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2						ATTGGCTTATATACAGTCTCG	0.353													16	23	---	---	---	---	PASS	T	100039691	T	T	100039691	3	4	56	1	0	0	0	0	1	0	0	0	15610	449	16	5	1915	5	TBC1D23	3	100039691	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	6427819	100039691	97982739	46	20948										
CCDC80	151887	broad.mit.edu	37	chr3	112357078	112357078	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	actcttaagtaacttgtctgCgttctcattcttcatctttt	4	10	6	0	rs145200206	byFrequency	TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:112357078C>A	uc003dzf.2	-	2	1893	c.1675G>T	c.(1675-1677)GCA>TCA	p.A559S	CCDC80_uc011bhv.1_Missense_Mutation_p.A559S|CCDC80_uc003dzg.2_Missense_Mutation_p.A559S|CCDC80_uc003dzh.1_Missense_Mutation_p.A559S	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	559	Lys-rich.									ovary(2)	2						aacttgtctgcgttctcattc	0.164													16	59	---	---	---	---	PASS	A	112357078	A	A	112357078	3	1	56	1	0	0	0	0	1	0	0	0	2854	768	27	1	1205	1	CCDC80	3	112357078	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	12317387	112357078	85665352	47	20949										
POPDC2	64091	broad.mit.edu	37	chr3	119367437	119367437	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gaagaggcaggagatgtatcGctctttggtcagaagaagat	14	5	2	5			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:119367437G>A	uc003ecx.1	-	3	813	c.679C>T	c.(679-681)CGA>TGA	p.R227*	POPDC2_uc010hqw.1_Nonsense_Mutation_p.R227*|POPDC2_uc003ecy.1_Nonsense_Mutation_p.R45*	NM_022135	NP_071418	Q9HBU9	POPD2_HUMAN	popeye protein 2	227						integral to membrane				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.242)		GAGATGTATCGCTCTTTGGTC	0.507													14	57	---	---	---	---	PASS	A	119367437	A	A	119367437	4	1	56	1	0	0	0	0	0	1	0	0	12255	1095	38	1	423	1	POPDC2	3	119367437	Nonsense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	7010359	119367437	78654993	48	20950										
CCDC37	348807	broad.mit.edu	37	chr3	126152023	126152023	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aaagcccgagtcttccacttCggcgagtacaagggcgatca	11	12	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:126152023C>T	uc003eiu.1	+	14	1497	c.1398C>T	c.(1396-1398)TTC>TTT	p.F466F	CCDC37_uc010hsg.1_Silent_p.F467F	NM_182628	NP_872434	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37	466										ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.166)		TCTTCCACTTCGGCGAGTACA	0.597													5	216	---	---	---	---	PASS	T	126152023	T	T	126152023	2	4	56	1	0	0	0	0	0	0	0	1	2809	883	31	2		2	CCDC37	3	126152023	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	6784586	126152023	71870407	49	20951										
PSMD2	5708	broad.mit.edu	37	chr3	184020241	184020241	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ccgaaagtttagccgcttccCtgaagctctgagattggcat	10	11	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:184020241C>T	uc003fnn.1	+	6	821	c.788C>T	c.(787-789)CCT>CTT	p.P263L	PSMD2_uc011brj.1_Missense_Mutation_p.P104L|PSMD2_uc011brk.1_Missense_Mutation_p.P133L	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	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|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|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	AGCCGCTTCCCTGAAGCTCTG	0.478													121	74	---	---	---	---	PASS	T	184020241	T	T	184020241	3	4	56	1	0	0	0	0	1	0	0	0	12698	681	24	3	810	3	PSMD2	3	184020241	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	57868218	184020241	14002189	50	20952										
TBCCD1	55171	broad.mit.edu	37	chr3	186272063	186272063	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tttgtcaaatgagcctccttCacagttttctgccagatctg	7	11	4	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:186272063C>T	uc003fqg.2	-	6	1653	c.1524G>A	c.(1522-1524)GTG>GTA	p.V508V	TBCCD1_uc011bry.1_Silent_p.V508V|TBCCD1_uc003fqh.2_Silent_p.V412V	NM_018138	NP_060608	Q9NVR7	TBCC1_HUMAN	TBCC domain containing 1	508					cell morphogenesis|maintenance of centrosome location|maintenance of Golgi location|regulation of cell migration|regulation of cell shape	spindle pole centrosome	binding			large_intestine(1)|ovary(1)	2	all_cancers(143;3.75e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.3e-21)	GBM - Glioblastoma multiforme(93;0.0474)		GAGCCTCCTTCACAGTTTTCT	0.403													170	125	---	---	---	---	PASS	T	186272063	T	T	186272063	2	4	56	1	0	0	0	0	0	0	0	1	15629	813	29	2		2	TBCCD1	3	186272063	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	2251822	186272063	11750367	51	20953										
ACAP2	23527	broad.mit.edu	37	chr3	195017976	195017976	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ccacattagcttcataaactCgatttataacatcattcccc	2	13	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr3:195017976C>T	uc003fun.3	-	16	1671	c.1430G>A	c.(1429-1431)CGA>CAA	p.R477Q		NM_012287	NP_036419	Q15057	ACAP2_HUMAN	centaurin, beta 2	477	Arf-GAP.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)	2						TTCATAAACTCGATTTATAAC	0.308													6	49	---	---	---	---	PASS	T	195017976	T	T	195017976	3	4	56	1	0	0	0	0	1	0	0	0	119	884	31	2	938	2	ACAP2	3	195017976	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	8745913	195017976	3004454	52	20954										
ZNF718	255403	broad.mit.edu	37	chr4	59997	59997	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gtcacctgtctggagcaaatAaaagagccctgcaatttgaa	9	9	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr4:59997A>T	uc003fzt.3	+	7	310	c.177A>T	c.(175-177)AGA>AGT	p.R59S	ZNF595_uc003fzu.1_RNA|ZNF595_uc010iay.1_RNA|ZNF595_uc003fzv.1_Silent_p.I59I|ZNF595_uc011bus.1_Intron|ZNF595_uc011but.1_Intron	NM_001039127	NP_001034216	Q3SXZ3	ZN718_HUMAN	zinc finger protein 718	59	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0681)|Epithelial(2;0.0838)|all cancers(2;0.135)|LUSC - Lung squamous cell carcinoma(95;0.18)		TGGAGCAAATAAAAGAGCCCT	0.453													4	62	---	---	---	---	PASS	T	59997	T	T	59997	3	4	56	1	0	0	0	0	1	0	0	0	18117	352	13	5	187	5	ZNF718	4	59997	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08		59997	191094279	53	20955										
EVC2	132884	broad.mit.edu	37	chr4	5577977	5577977	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cacggcataccactgctgatGttgctccagtaatgtctggc	10	12	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr4:5577977G>T	uc003gij.2	-	18	3316	c.3262C>A	c.(3262-3264)CAT>AAT	p.H1088N	EVC2_uc011bwb.1_Missense_Mutation_p.H528N|EVC2_uc003gik.2_Missense_Mutation_p.H1008N	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1088	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						CACTGCTGATGTTGCTCCAGT	0.562													95	66	---	---	---	---	PASS	T	5577977	T	T	5577977	3	4	56	1	0	0	0	0	1	0	0	0	5286	1377	48	3	684	3	EVC2	4	5577977	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	5517980	5577977	185576299	54	20956										
CLRN2	645104	broad.mit.edu	37	chr4	17528554	17528554	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ccagtttgtggtggtggaagAacagtatgaagagtcgtttt	14	4	0	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr4:17528554A>G	uc003gpg.1	+	3	650	c.548A>G	c.(547-549)GAA>GGA	p.E183G		NM_001079827	NP_001073296	A0PK11	CLRN2_HUMAN	clarin 2	183						integral to membrane					0						GTGGTGGAAGAACAGTATGAA	0.532													17	35	---	---	---	---	PASS	G	17528554	G	G	17528554	3	3	56	1	0	0	0	0	1	0	0	0	3558	246	9	5	558	5	CLRN2	4	17528554	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	11950577	17528554	173625722	55	20957										
G3BP2	9908	broad.mit.edu	37	chr4	76573882	76573882	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	taggtcgttgttcacgcacaCgaggtggctgagattgaact	13	8	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr4:76573882C>T	uc003hir.2	-	9	1034	c.869G>A	c.(868-870)CGT>CAT	p.R290H	G3BP2_uc003his.2_Missense_Mutation_p.R290H|G3BP2_uc003hit.2_Missense_Mutation_p.R257H	NM_012297	NP_036429	Q9UN86	G3BP2_HUMAN	Ras-GTPase activating protein SH3 domain-binding	290					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)			TTCACGCACACGAGGTGGCTG	0.408													12	7	---	---	---	---	PASS	T	76573882	T	T	76573882	3	4	56	1	0	0	0	0	1	0	0	0	6142	536	19	1	595	1	G3BP2	4	76573882	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	59045328	76573882	114580394	56	20958										
PDHA2	5161	broad.mit.edu	37	chr4	96761711	96761711	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	atccattctcgcagagctgaCgggaagaagaggaggttgtg	15	7	1	4			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr4:96761711C>T	uc003htr.3	+	1	473	c.410C>T	c.(409-411)ACG>ATG	p.T137M		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	137					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	GCAGAGCTGACGGGAAGAAGA	0.527													4	105	---	---	---	---	PASS	T	96761711	T	T	96761711	3	4	56	1	0	0	0	0	1	0	0	0	11665	536	19	1	412	1	PDHA2	4	96761711	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	20187829	96761711	94392565	57	20959										
C4orf21	55345	broad.mit.edu	37	chr4	113505305	113505305	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tacatcgatcagctttgggtCcatcacatgtataaaagaga	8	8	2	1	rs112544380		TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr4:113505305C>G	uc003iau.2	-	15	4338	c.4127G>C	c.(4126-4128)GGA>GCA	p.G1376A	C4orf21_uc003iav.2_RNA	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	198						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		AGCTTTGGGTCCATCACATGT	0.368													3	6	---	---	---	---	PASS	G	113505305	G	G	113505305	3	3	56	1	0	0	0	0	1	0	0	0	2254	855	30	2	2243	2	C4orf21	4	113505305	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	16743594	113505305	77648971	58	20960										
PLK4	10733	broad.mit.edu	37	chr4	128819593	128819593	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tttttcttttgcttcacttaGgtatggagaaaatgaaaaat	7	4	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr4:128819593G>C	uc003ifo.2	+	16	3056	c.2811_splice	c.e16-1	p.R937_splice	PLK4_uc011cgs.1_Splice_Site_p.R905_splice|PLK4_uc011cgt.1_Splice_Site_p.R896_splice	NM_014264	NP_055079	O00444	PLK4_HUMAN	polo-like kinase 4						G2/M transition of mitotic cell cycle|positive regulation of centriole replication|trophoblast giant cell differentiation	centriole|cleavage furrow|cytosol|nucleolus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						GCTTCACTTAGGTATGGAGAA	0.313													6	13	---	---	---	---	PASS	C	128819593	C	C	128819593	5	2	56	1	0	0	0	0	0	0	1	0	12098	1014	35	4	2872	4	PLK4	4	128819593	Splice_Site	SNP	G	TCGA-33-4538-01A-01D-1267-08	15314288	128819593	62334683	59	20961										
ASB5	140458	broad.mit.edu	37	chr4	177142317	177142317	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ggaaaataccagcataaagaAgcttccagatgcaatggaat	9	7	0	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr4:177142317A>G	uc003iuq.1	-	5	675	c.659T>C	c.(658-660)CTT>CCT	p.L220P	ASB5_uc003iup.1_Missense_Mutation_p.L167P	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	220	ANK 5.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		AGCATAAAGAAGCTTCCAGAT	0.368													14	14	---	---	---	---	PASS	G	177142317	G	G	177142317	3	3	56	1	0	0	0	0	1	0	0	0	1026	72	3	5	342	5	ASB5	4	177142317	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	48322724	177142317	14011959	60	20962										
SLC6A3	6531	broad.mit.edu	37	chr5	1443164	1443164	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cctccacggggctctgccgcGggttggtgagggtggagctg	19	11	1	1	rs146798197		TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr5:1443164G>A	uc003jck.2	-	2	270	c.149C>T	c.(148-150)CCG>CTG	p.P50L		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	50	Cytoplasmic (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	GCTCTGCCGCGGGTTGGTGAG	0.632													62	126	---	---	---	---	PASS	A	1443164	A	A	1443164	3	1	56	1	0	0	0	0	1	0	0	0	14685	1116	39	1	1769	1	SLC6A3	5	1443164	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08		1443164	179472096	61	20963										
CDH12	1010	broad.mit.edu	37	chr5	21842269	21842269	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ttaacaggaaaggtgacataCttttggggaatcgaggtgga	14	4	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr5:21842269C>T	uc010iuc.2	-	5	1272	c.814_splice	c.e5+1	p.S272_splice	CDH12_uc011cno.1_Splice_Site_p.S232_splice|CDH12_uc003jgk.2_Splice_Site_p.S272_splice	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						AGGTGACATACTTTTGGGGAA	0.408										HNSCC(59;0.17)			11	70	---	---	---	---	PASS	T	21842269	T	T	21842269	5	4	56	1	0	0	0	0	0	0	1	0	3098	579	20	3	1601	3	CDH12	5	21842269	Splice_Site	SNP	C	TCGA-33-4538-01A-01D-1267-08	20399105	21842269	159072991	62	20964										
PRDM9	56979	broad.mit.edu	37	chr5	23509677	23509677	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cgctataggaatgtgaaaagGaactataatgcactgattac	9	6	0	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr5:23509677G>T	uc003jgo.2	+	3	350	c.168G>T	c.(166-168)AGG>AGT	p.R56S		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	56	KRAB-related.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						ATGTGAAAAGGAACTATAATG	0.423										HNSCC(3;0.000094)			40	92	---	---	---	---	PASS	T	23509677	T	T	23509677	3	4	56	1	0	0	0	0	1	0	0	0	12463	1165	41	2	174	2	PRDM9	5	23509677	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	1667408	23509677	157405583	63	20965										
ADAMTS12	81792	broad.mit.edu	37	chr5	33643489	33643489	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gcctgacgcatcaccttcttCtcaccacattgagttccatc	5	16	3	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr5:33643489C>T	uc003jia.1	-	10	1729	c.1566G>A	c.(1564-1566)GAG>GAA	p.E522E	ADAMTS12_uc010iuq.1_Silent_p.E522E	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	522	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TCACCTTCTTCTCACCACATT	0.547										HNSCC(64;0.19)			31	66	---	---	---	---	PASS	T	33643489	T	T	33643489	2	4	56	1	0	0	0	0	0	0	0	1	257	912	32	2		2	ADAMTS12	5	33643489	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	10133812	33643489	147271771	64	20966										
CD180	4064	broad.mit.edu	37	chr5	66478990	66478990	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ggacaagatagggaggagacGgggtgagatgatgttaatgc	18	3	0	4	rs150000308		TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr5:66478990G>A	uc003juy.2	-	3	1829	c.1681C>T	c.(1681-1683)CGT>TGT	p.R561C		NM_005582	NP_005573	Q99467	CD180_HUMAN	CD180 molecule precursor	561	LRR 19.|Extracellular (Potential).				inflammatory response|innate immune response	integral to membrane|plasma membrane	receptor activity			ovary(1)	1		Lung NSC(167;4.94e-05)|Prostate(74;0.00601)|Ovarian(174;0.0654)|Breast(144;0.198)|Colorectal(97;0.234)		Lung(70;0.0046)		GGGAGGAGACGGGGTGAGATG	0.453													25	24	---	---	---	---	PASS	A	66478990	A	A	66478990	3	1	56	1	0	0	0	0	1	0	0	0	2972	1116	39	1	308	1	CD180	5	66478990	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	32835501	66478990	114436270	65	20967										
XRCC4	7518	broad.mit.edu	37	chr5	82499434	82499434	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctttataagcggtttattctGgtgttgaatgagaagaaaac	10	4	1	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr5:82499434G>C	uc003kib.2	+	5	674	c.546G>C	c.(544-546)CTG>CTC	p.L182L	XRCC4_uc003kia.1_Silent_p.L182L|XRCC4_uc003kid.2_Silent_p.L182L|XRCC4_uc003kic.2_Silent_p.L182L|XRCC4_uc003kie.2_Silent_p.L182L|XRCC4_uc003kif.1_Silent_p.L182L|XRCC4_uc003kig.2_5'Flank	NM_022406	NP_071801	Q13426	XRCC4_HUMAN	X-ray repair cross complementing protein 4	182	Interacts with LIG4.				DNA ligation involved in DNA repair|double-strand break repair via nonhomologous end joining|initiation of viral infection|positive regulation of ligase activity|provirus integration|response to X-ray	cytosol|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|nucleoplasm	DNA binding|protein C-terminus binding			skin(3)	3		Lung NSC(167;0.00132)|all_lung(232;0.00154)|Ovarian(174;0.034)		OV - Ovarian serous cystadenocarcinoma(54;1.44e-38)|Epithelial(54;3.72e-33)|all cancers(79;9.22e-28)		GGTTTATTCTGGTGTTGAATG	0.313								NHEJ					11	27	---	---	---	---	PASS	C	82499434	C	C	82499434	2	2	56	1	0	0	0	0	0	0	0	1	17452	1335	47	4		4	XRCC4	5	82499434	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	16020444	82499434	98415826	66	20968										
POU5F2	134187	broad.mit.edu	37	chr5	93077080	93077080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gtgtggcaggggacccagggGaatcctccacacgtcagggc	16	12	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr5:93077080G>T	uc003kkl.1	-	1	230	c.190C>A	c.(190-192)CCC>ACC	p.P64T	FAM172A_uc010jbd.2_Intron|FAM172A_uc011cuf.1_Intron|FAM172A_uc011cug.1_Intron|FAM172A_uc011cuh.1_Intron|FAM172A_uc011cui.1_Intron|FAM172A_uc011cuj.1_Intron	NM_153216	NP_694948	Q8N7G0	PO5F2_HUMAN	POU domain class 5, transcription factor 2	64						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(142;3.87e-05)|all_epithelial(76;4.59e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0415)|all cancers(79;2.03e-19)		GGACCCAGGGGAATCCTCCAC	0.677													14	11	---	---	---	---	PASS	T	93077080	T	T	93077080	3	4	56	1	0	0	0	0	1	0	0	0	12283	1174	41	2	800	2	POU5F2	5	93077080	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	10577646	93077080	87838180	67	20969										
PCDHGB5	56101	broad.mit.edu	37	chr5	140779353	140779353	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ttggtgggcgaccgaaacgaCaacgcaccgcgggtgctgta	15	11	0	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr5:140779353C>A	uc003lkf.1	+	1	1659	c.1659C>A	c.(1657-1659)GAC>GAA	p.D553E	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.D553E	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	553	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCGAAACGACAACGCACCGC	0.682													8	32	---	---	---	---	PASS	A	140779353	A	A	140779353	3	1	56	1	0	0	0	0	1	0	0	0	11566	477	17	3	1661	3	PCDHGB5	5	140779353	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	47702273	140779353	40135907	68	20970										
WWC1	23286	broad.mit.edu	37	chr5	167882517	167882517	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	caggaccccagagccagtacGtgtgccgggtaagtgagcgt	15	11	0	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr5:167882517G>T	uc003lzu.2	+	19	2908	c.2815G>T	c.(2815-2817)GTG>TTG	p.V939L	WWC1_uc003lzv.2_Missense_Mutation_p.V939L|WWC1_uc011den.1_Missense_Mutation_p.V939L|WWC1_uc003lzw.2_Missense_Mutation_p.V738L|WWC1_uc010jjf.1_Missense_Mutation_p.V211L	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	939	Interaction with histone H3.				cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		GAGCCAGTACGTGTGCCGGGT	0.502													63	69	---	---	---	---	PASS	T	167882517	T	T	167882517	3	4	56	1	0	0	0	0	1	0	0	0	17408	1145	40	1	2889	1	WWC1	5	167882517	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	27103164	167882517	13032743	69	20971										
BTNL3	10917	broad.mit.edu	37	chr5	180424385	180424385	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gatgggtacagcctgtatgaTgtggagatctccattatagt	12	6	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr5:180424385T>A	uc003mmr.2	+	3	698	c.570T>A	c.(568-570)GAT>GAA	p.D190E		NM_197975	NP_932079	Q6UXE8	BTNL3_HUMAN	butyrophilin-like 3 precursor	190	Ig-like V-type.|Extracellular (Potential).				lipid metabolic process	integral to membrane					0	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.00336)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)|all_lung(500;0.248)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000272)			GCCTGTATGATGTGGAGATCT	0.498													24	9	---	---	---	---	PASS	A	180424385	A	A	180424385	3	1	56	1	0	0	0	0	1	0	0	0	1566	1461	51	5	580	5	BTNL3	5	180424385	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	12541868	180424385	490875	70	20972										
GCM2	9247	broad.mit.edu	37	chr6	10877430	10877430	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cctcagctgcaggcgggaacCgtcgggcagggtgcaggcct	17	13	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:10877430C>A	uc003mzn.3	-	2	358	c.286G>T	c.(286-288)GGT>TGT	p.G96C	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	96	GCM.				cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				AGGCGGGAACCGTCGGGCAGG	0.627													4	144	---	---	---	---	PASS	A	10877430	A	A	10877430	3	1	56	1	0	0	0	0	1	0	0	0	6298	652	23	1	1250	1	GCM2	6	10877430	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08		10877430	160237637	71	20973										
HIST1H2AK	8330	broad.mit.edu	37	chr6	27806045	27806045	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cactcggcccactgggaactGaagacccgcccttgaagaac	10	15	0	4			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:27806045G>T	uc003njs.2	-	1	73	c.73C>A	c.(73-75)CAG>AAG	p.Q25K	HIST1H2BN_uc003njt.1_5'Flank|HIST1H2BN_uc003nju.1_5'Flank|HIST1H2BN_uc003njv.2_5'Flank	NM_003510	NP_003501	P0C0S8	H2A1_HUMAN	histone cluster 1, H2ak	25					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding			upper_aerodigestive_tract(1)	1						ACTGGGAACTGAAGACCCGCC	0.612													19	76	---	---	---	---	PASS	T	27806045	T	T	27806045	3	4	56	1	0	0	0	0	1	0	0	0	7137	1299	45	2	323	2	HIST1H2AK	6	27806045	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	16928615	27806045	143309022	72	20974										
OR2W1	26692	broad.mit.edu	37	chr6	29012353	29012353	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	acaattataatgcctaaagcGaaaacagacatttcaactgt	5	8	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:29012353G>A	uc003nlw.2	-	1	600	c.600C>T	c.(598-600)TTC>TTT	p.F200F		NM_030903	NP_112165	Q9Y3N9	OR2W1_HUMAN	olfactory receptor, family 2, subfamily W,	200	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TGCCTAAAGCGAAAACAGACA	0.423													21	83	---	---	---	---	PASS	A	29012353	A	A	29012353	2	1	56	1	0	0	0	0	0	0	0	1	11032	1049	37	2		2	OR2W1	6	29012353	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	1206308	29012353	142102714	73	20975										
OR5V1	81696	broad.mit.edu	37	chr6	29323508	29323508	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aacactgtatgcaccactgaGttaaggaaaccagcagccca	8	12	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:29323508G>A	uc011dlo.1	-	1	547	c.465C>T	c.(463-465)AAC>AAT	p.N155N		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4						GCACCACTGAGTTAAGGAAAC	0.433													17	26	---	---	---	---	PASS	A	29323508	A	A	29323508	2	1	56	1	0	0	0	0	0	0	0	1	11184	1020	36	3		3	OR5V1	6	29323508	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	311155	29323508	141791559	74	20976										
ZBTB9	221504	broad.mit.edu	37	chr6	33423675	33423675	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cgaaagcttccagagggtgaGagtgcaccacttgagcttcc	12	11	0	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:33423675G>T	uc003oeq.2	+	2	1066	c.798G>T	c.(796-798)GAG>GAT	p.E266D		NM_152735	NP_689948	Q96C00	ZBTB9_HUMAN	zinc finger and BTB domain containing 9	266	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CAGAGGGTGAGAGTGCACCAC	0.567													32	129	---	---	---	---	PASS	T	33423675	T	T	33423675	3	4	56	1	0	0	0	0	1	0	0	0	17555	933	33	2	800	2	ZBTB9	6	33423675	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	4100167	33423675	137691392	75	20977										
SUPT3H	8464	broad.mit.edu	37	chr6	44971458	44971458	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tgctaaaagttctcctgtctGgtcaatagagttgaggaagt	11	6	3	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:44971458G>A	uc003oxo.2	-	8	787	c.469C>T	c.(469-471)CAG>TAG	p.Q157*	SUPT3H_uc003oxn.1_Nonsense_Mutation_p.Q146*|SUPT3H_uc011dvv.1_5'UTR|SUPT3H_uc003oxp.2_Nonsense_Mutation_p.Q146*|SUPT3H_uc011dvw.1_Nonsense_Mutation_p.Q60*	NM_181356	NP_852001	O75486	SUPT3_HUMAN	suppressor of Ty 3 homolog isoform 2	228					histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3						TCTCCTGTCTGGTCAATAGAG	0.353													4	29	---	---	---	---	PASS	A	44971458	A	A	44971458	4	1	56	1	0	0	0	0	0	1	0	0	15394	1357	47	3	541	3	SUPT3H	6	44971458	Nonsense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	11547783	44971458	126143609	76	20978										
IL17A	3605	broad.mit.edu	37	chr6	52053995	52053995	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agatcctggtcctgcgcaggGagcctccacactgccccaac	10	17	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:52053995G>T	uc003pak.1	+	3	418	c.373G>T	c.(373-375)GAG>TAG	p.E125*		NM_002190	NP_002181	Q16552	IL17_HUMAN	interleukin 17A precursor	125					apoptosis|cell-cell signaling|fibroblast activation|immune response|inflammatory response|positive regulation of interleukin-23 production|positive regulation of osteoclast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein glycosylation	extracellular space	cytokine activity				0	Lung NSC(77;0.116)					CCTGCGCAGGGAGCCTCCACA	0.597													17	23	---	---	---	---	PASS	T	52053995	T	T	52053995	4	4	56	1	0	0	0	0	0	1	0	0	7634	1175	41	2	383	2	IL17A	6	52053995	Nonsense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	7082537	52053995	119061072	77	20979										
GJA10	84694	broad.mit.edu	37	chr6	90604623	90604623	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aggagcagaagaggatccatAaagtccctctgaaaggatgt	12	7	1	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:90604623A>G	uc011eaa.1	+	1	436	c.436A>G	c.(436-438)AAA>GAA	p.K146E		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	146	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		GAGGATCCATAAAGTCCCTCT	0.448													44	49	---	---	---	---	PASS	G	90604623	G	G	90604623	3	3	56	1	0	0	0	0	1	0	0	0	6401	363	13	5	438	5	GJA10	6	90604623	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	38550628	90604623	80510444	78	20980										
HACE1	57531	broad.mit.edu	37	chr6	105219851	105219851	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gtaaatattgaccagctgccTgtggttcaacgctaatccca	8	11	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:105219851T>A	uc003pqu.1	-	18	2240	c.1963A>T	c.(1963-1965)AGG>TGG	p.R655W	HACE1_uc010kcy.1_Missense_Mutation_p.R137W|HACE1_uc010kcz.1_Intron|HACE1_uc010kcx.1_Missense_Mutation_p.R64W|HACE1_uc003pqt.1_Missense_Mutation_p.R308W	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	655	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		ACCAGCTGCCTGTGGTTCAAC	0.368													14	28	---	---	---	---	PASS	A	105219851	A	A	105219851	3	1	56	1	0	0	0	0	1	0	0	0	6940	1579	55	5	794	5	HACE1	6	105219851	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	14615228	105219851	65895216	79	20981										
MOXD1	26002	broad.mit.edu	37	chr6	132618998	132618998	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aggaccagcttgttgaaggaGagaccttcctttttagtcca	10	9	0	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:132618998G>C	uc003qdf.2	-	11	1704	c.1605C>G	c.(1603-1605)CTC>CTG	p.L535L	MOXD1_uc003qde.2_Silent_p.L467L	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	535	Lumenal (Potential).				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		TGTTGAAGGAGAGACCTTCCT	0.423													3	37	---	---	---	---	PASS	C	132618998	C	C	132618998	2	2	56	1	0	0	0	0	0	0	0	1	9720	929	33	2		2	MOXD1	6	132618998	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	27399147	132618998	38496069	80	20982										
TAAR1	134864	broad.mit.edu	37	chr6	132967052	132967052	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tgtggtcagaattatgagcaCcattaaactgtacagggaag	11	6	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:132967052C>G	uc003qdm.1	-	1	91	c.91G>C	c.(91-93)GTG>CTG	p.V31L		NM_138327	NP_612200	Q96RJ0	TAAR1_HUMAN	trace amine associated receptor 1	31	Helical; Name=1; (Potential).					plasma membrane					0	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00616)|GBM - Glioblastoma multiforme(226;0.0154)	Amphetamine(DB00182)	ATTATGAGCACCATTAAACTG	0.388													31	93	---	---	---	---	PASS	G	132967052	G	G	132967052	3	3	56	1	0	0	0	0	1	0	0	0	15486	507	18	4	932	4	TAAR1	6	132967052	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	348054	132967052	38148015	81	20983										
PHACTR2	9749	broad.mit.edu	37	chr6	144074909	144074909	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agatggagatgtaacagttaActttgaaaattcaaacgggc	10	5	1	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:144074909A>T	uc003qjq.3	+	4	411	c.281A>T	c.(280-282)AAC>ATC	p.N94I	PHACTR2_uc010khh.2_Missense_Mutation_p.N94I|PHACTR2_uc010khi.2_Missense_Mutation_p.N105I|PHACTR2_uc003qjr.3_Missense_Mutation_p.N105I	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3	94							actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		GTAACAGTTAACTTTGAAAAT	0.373													3	18	---	---	---	---	PASS	T	144074909	T	T	144074909	3	4	56	1	0	0	0	0	1	0	0	0	11810	43	2	5	345	5	PHACTR2	6	144074909	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	11107857	144074909	27040158	82	20984										
SLC22A2	6582	broad.mit.edu	37	chr6	160668227	160668227	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctggctcacctgaagggaggCgggtagagattttccatttt	13	8	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:160668227C>A	uc003qtf.2	-	5	1116	c.946G>T	c.(946-948)GCC>TCC	p.A316S	SLC22A2_uc003qte.1_Missense_Mutation_p.A316S	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	316	Cytoplasmic (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		TGAAGGGAGGCGGGTAGAGAT	0.483													6	58	---	---	---	---	PASS	A	160668227	A	A	160668227	3	1	56	1	0	0	0	0	1	0	0	0	14450	768	27	1	749	1	SLC22A2	6	160668227	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	16593318	160668227	10446840	83	20985										
PLG	5340	broad.mit.edu	37	chr6	161139408	161139408	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cgcgggaatgtggctgttacCgtgtccgggcacacctgtca	14	12	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr6:161139408C>T	uc003qtm.3	+	8	933	c.870C>T	c.(868-870)ACC>ACT	p.T290T		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	290	Kringle 3.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	TGGCTGTTACCGTGTCCGGGC	0.532													6	51	---	---	---	---	PASS	T	161139408	T	T	161139408	2	4	56	1	0	0	0	0	0	0	0	1	12086	639	23	1		1	PLG	6	161139408	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	471181	161139408	9975659	84	20986										
DNAH11	8701	broad.mit.edu	37	chr7	21584692	21584692	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	actgaaagcattggagtaaaTgacttttctcaagtggtttt	9	5	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr7:21584692T>C	uc003svc.2	+	2	451	c.420T>C	c.(418-420)AAT>AAC	p.N140N		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	140	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TTGGAGTAAATGACTTTTCTC	0.338									Kartagener_syndrome				6	4	---	---	---	---	PASS	C	21584692	C	C	21584692	2	2	56	1	0	0	0	0	0	0	0	1	4599	1461	51	5		5	DNAH11	7	21584692	Silent	SNP	T	TCGA-33-4538-01A-01D-1267-08		21584692	137553971	85	20987										
TXNDC3	51314	broad.mit.edu	37	chr7	37927962	37927962	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agaaaccgctgaaagggaaaTacagcatttctttcctcttc	7	10	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr7:37927962T>A	uc003tfn.2	+	15	1703	c.1331T>A	c.(1330-1332)ATA>AAA	p.I444K		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	444	NDK 2.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						GAAAGGGAAATACAGCATTTC	0.373									Kartagener_syndrome				14	29	---	---	---	---	PASS	A	37927962	A	A	37927962	3	1	56	1	0	0	0	0	1	0	0	0	16795	1406	49	5	1381	5	TXNDC3	7	37927962	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	16343270	37927962	121210701	86	20988										
COBL	23242	broad.mit.edu	37	chr7	51097005	51097005	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gcggggtgcagggcaggtacTtcctcccttgccttttcatg	13	12	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr7:51097005T>A	uc003tpr.3	-	10	1973	c.1788A>T	c.(1786-1788)GAA>GAT	p.E596D	COBL_uc003tps.2_Missense_Mutation_p.E653D|COBL_uc011kcl.1_Missense_Mutation_p.E596D|COBL_uc003tpp.3_Missense_Mutation_p.E382D|COBL_uc003tpq.3_Missense_Mutation_p.E537D|COBL_uc003tpo.3_Missense_Mutation_p.E138D	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	596										skin(3)|ovary(2)	5	Glioma(55;0.08)					GGGCAGGTACTTCCTCCCTTG	0.562													23	86	---	---	---	---	PASS	A	51097005	A	A	51097005	3	1	56	1	0	0	0	0	1	0	0	0	3653	1606	56	5	2013	5	COBL	7	51097005	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	13169043	51097005	108041658	87	20989										
CCDC132	55610	broad.mit.edu	37	chr7	92940500	92940500	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tttctcgggaaactctaaaaAgcaggaagaaatcagattac	8	7	3	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr7:92940500A>G	uc003umo.2	+	20	1899	c.1771A>G	c.(1771-1773)AGC>GGC	p.S591G	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.S561G|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Missense_Mutation_p.S311G	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	591											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			AACTCTAAAAAGCAGGAAGAA	0.353													19	36	---	---	---	---	PASS	G	92940500	G	G	92940500	3	3	56	1	0	0	0	0	1	0	0	0	2767	72	3	5	1891	5	CCDC132	7	92940500	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	41843495	92940500	66198163	88	20990										
DYNC1I1	1780	broad.mit.edu	37	chr7	95665060	95665060	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tctacacggcttgtcgtcatGgaaggtgatttttctgtttc	10	8	3	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr7:95665060G>A	uc003uoc.3	+	13	1688	c.1411G>A	c.(1411-1413)GGA>AGA	p.G471R	DYNC1I1_uc003uod.3_Missense_Mutation_p.G454R|DYNC1I1_uc003uob.2_Missense_Mutation_p.G434R|DYNC1I1_uc003uoe.3_Missense_Mutation_p.G451R|DYNC1I1_uc010lfl.2_Missense_Mutation_p.G460R	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	471	WD 4.				vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			TTGTCGTCATGGAAGGTGATT	0.443													78	136	---	---	---	---	PASS	A	95665060	A	A	95665060	3	1	56	1	0	0	0	0	1	0	0	0	4842	1349	47	3	1457	3	DYNC1I1	7	95665060	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	2724560	95665060	63473603	89	20991										
PSMC2	5701	broad.mit.edu	37	chr7	103004738	103004738	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tattggatctgagcttgtacAgaaatacgtcggtgaggtaa	12	5	1	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr7:103004738A>C	uc003vbs.2	+	8	810	c.740A>C	c.(739-741)CAG>CCG	p.Q247P	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011klo.1_Missense_Mutation_p.Q110P	NM_002803	NP_002794	P35998	PRS7_HUMAN	proteasome 26S ATPase subunit 2	247					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|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0						GAGCTTGTACAGAAATACGTC	0.413													52	87	---	---	---	---	PASS	C	103004738	C	C	103004738	3	2	56	1	0	0	0	0	1	0	0	0	12686	188	7	5	770	5	PSMC2	7	103004738	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	7339678	103004738	56133925	90	20992										
IQUB	154865	broad.mit.edu	37	chr7	123150084	123150084	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gcccactggaataagtacaaCttttactgtaaattaaatag	6	7	0	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr7:123150084C>A	uc003vkn.2	-	3	980	c.403G>T	c.(403-405)GTT>TTT	p.V135F	IQUB_uc003vko.2_Missense_Mutation_p.V135F|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Missense_Mutation_p.V135F|IQUB_uc003vkq.2_Missense_Mutation_p.V135F	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	135	Ubiquitin-like.									ovary(3)|large_intestine(1)	4						ATAAGTACAACTTTTACTGTA	0.303													10	45	---	---	---	---	PASS	A	123150084	A	A	123150084	3	1	56	1	0	0	0	0	1	0	0	0	7820	565	20	3	2016	3	IQUB	7	123150084	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	20145346	123150084	35988579	91	20993										
POT1	25913	broad.mit.edu	37	chr7	124493159	124493159	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	attcattgattgaagtttggTatgaaggctatagattctaa	9	3	2	4			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr7:124493159T>A	uc003vlm.2	-	10	1337	c.736A>T	c.(736-738)ACC>TCC	p.T246S	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_Missense_Mutation_p.T115S|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	246					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						TGAAGTTTGGTATGAAGGCTA	0.328													4	10	---	---	---	---	PASS	A	124493159	A	A	124493159	3	1	56	1	0	0	0	0	1	0	0	0	12260	1638	57	5	1208	5	POT1	7	124493159	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	1343075	124493159	34645504	92	20994										
FAM115A	9747	broad.mit.edu	37	chr7	143556250	143556250	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	atggggtaccctgcatgcatCcagcctggaaaatgcagaag	12	10	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr7:143556250C>T	uc003wdo.1	-	7	2305	c.2172G>A	c.(2170-2172)TGG>TGA	p.W724*	FAM115A_uc011ktu.1_Nonsense_Mutation_p.W300*|FAM115A_uc003wdp.1_Nonsense_Mutation_p.W724*	NM_014719	NP_055534	Q9Y4C2	F115A_HUMAN	hypothetical protein LOC9747	724											0	Melanoma(164;0.0903)					CTGCATGCATCCAGCCTGGAA	0.507													18	118	---	---	---	---	PASS	T	143556250	T	T	143556250	4	4	56	1	0	0	0	0	0	1	0	0	5405	856	30	2	605	2	FAM115A	7	143556250	Nonsense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	19063091	143556250	15582413	93	20995										
WDR60	55112	broad.mit.edu	37	chr7	158723180	158723180	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gggagggtcaagctggtacaTagtgctctgatccagttggg	16	7	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr7:158723180T>C	uc003woe.3	+	21	2678	c.2520T>C	c.(2518-2520)CAT>CAC	p.H840H	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Silent_p.H472H	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	840										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		AGCTGGTACATAGTGCTCTGA	0.398													9	16	---	---	---	---	PASS	C	158723180	C	C	158723180	2	2	56	1	0	0	0	0	0	0	0	1	17308	1403	49	5		5	WDR60	7	158723180	Silent	SNP	T	TCGA-33-4538-01A-01D-1267-08	15166930	158723180	415483	94	20996										
SH2D4A	63898	broad.mit.edu	37	chr8	19192231	19192231	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aagaattcaccaatagcttgAaaacaaaatcacagtaccat	4	9	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:19192231A>C	uc003wzb.2	+	4	712	c.376A>C	c.(376-378)AAA>CAA	p.K126Q	SH2D4A_uc011kym.1_Missense_Mutation_p.K81Q|SH2D4A_uc003wzc.2_Missense_Mutation_p.K126Q	NM_022071	NP_071354	Q9H788	SH24A_HUMAN	SH2 domain containing 4A	126						cytoplasm|nucleus	protein binding				0				Colorectal(111;0.0732)		CAATAGCTTGAAAACAAAATC	0.413													30	39	---	---	---	---	PASS	C	19192231	C	C	19192231	3	2	56	1	0	0	0	0	1	0	0	0	14235	247	9	5	436	5	SH2D4A	8	19192231	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08		19192231	127171791	95	20997										
EGR3	1960	broad.mit.edu	37	chr8	22548882	22548882	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gttggaaggggagtcgaaggCgaactttcccaagtaggtca	15	7	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:22548882C>A	uc003xcm.1	-	2	626	c.268G>T	c.(268-270)GCC>TCC	p.A90S	EGR3_uc011kzn.1_Missense_Mutation_p.A52S|EGR3_uc011kzo.1_Missense_Mutation_p.A36S	NM_004430	NP_004421	Q06889	EGR3_HUMAN	early growth response 3	90					circadian rhythm|muscle organ development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Prostate(55;0.0421)|Breast(100;0.102)		Colorectal(74;0.0145)|BRCA - Breast invasive adenocarcinoma(99;0.053)|COAD - Colon adenocarcinoma(73;0.0608)		GAGTCGAAGGCGAACTTTCCC	0.617													52	166	---	---	---	---	PASS	A	22548882	A	A	22548882	3	1	56	1	0	0	0	0	1	0	0	0	4973	768	27	1	899	1	EGR3	8	22548882	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	3356651	22548882	123815140	96	20998										
WHSC1L1	54904	broad.mit.edu	37	chr8	38186925	38186925	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ataaacaaattgatcgataaAtttcccatcccctgtagcat	4	10	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:38186925A>G	uc003xli.2	-	6	2070	c.1552T>C	c.(1552-1554)TTT>CTT	p.F518L	WHSC1L1_uc011lbm.1_Missense_Mutation_p.F518L|WHSC1L1_uc010lwe.2_Missense_Mutation_p.F518L|WHSC1L1_uc003xlj.2_Missense_Mutation_p.F518L	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	518					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			TGATCGATAAATTTCCCATCC	0.388			T	NUP98	AML								15	39	---	---	---	---	PASS	G	38186925	G	G	38186925	3	3	56	1	0	0	0	0	1	0	0	0	17360	101	4	5	2924	5	WHSC1L1	8	38186925	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	15638043	38186925	108177097	97	20999										
ANK1	286	broad.mit.edu	37	chr8	41574571	41574571	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gtagcggggtctccactttcTataaaataacaaaattatag	7	7	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:41574571T>C	uc003xok.2	-	13	1390	c.1306_splice	c.e13-1	p.K436_splice	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Splice_Site_p.K436_splice|ANK1_uc003xoj.2_Splice_Site_p.K436_splice|ANK1_uc003xol.2_Splice_Site_p.K436_splice|ANK1_uc003xom.2_Splice_Site_p.K469_splice	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1						axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			CTCCACTTTCTATAAAATAAC	0.478													46	144	---	---	---	---	PASS	C	41574571	C	C	41574571	5	2	56	1	0	0	0	0	0	0	1	0	620	1536	53	5	4815	5	ANK1	8	41574571	Splice_Site	SNP	T	TCGA-33-4538-01A-01D-1267-08	3387646	41574571	104789451	98	21000										
CHD7	55636	broad.mit.edu	37	chr8	61655366	61655366	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ccagaaacatgcagcagtctCgtccatttataggcatgtcc	8	12	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:61655366C>A	uc003xue.2	+	2	1852	c.1375C>A	c.(1375-1377)CGT>AGT	p.R459S		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	459	Pro-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)			GCAGCAGTCTCGTCCATTTAT	0.542													3	45	---	---	---	---	PASS	A	61655366	A	A	61655366	3	1	56	1	0	0	0	0	1	0	0	0	3330	884	31	2	1377	2	CHD7	8	61655366	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	20080795	61655366	84708656	99	21001										
YTHDF3	253943	broad.mit.edu	37	chr8	64099962	64099962	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aaggcccactctatttactcTtcagtgtgaatggcagtgga	10	9	3	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:64099962T>C	uc003xuy.2	+	5	1709	c.1393T>C	c.(1393-1395)TTC>CTC	p.F465L	YTHDF3_uc010lys.2_Missense_Mutation_p.F409L|YTHDF3_uc003xuz.2_Missense_Mutation_p.F409L|YTHDF3_uc003xva.2_Missense_Mutation_p.F409L|YTHDF3_uc011len.1_Missense_Mutation_p.F409L	NM_152758	NP_689971	Q7Z739	YTHD3_HUMAN	YTH domain family, member 3	465	YTH.										0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)			CTATTTACTCTTCAGTGTGAA	0.438													11	30	---	---	---	---	PASS	C	64099962	C	C	64099962	3	2	56	1	0	0	0	0	1	0	0	0	17497	1596	56	5	1406	5	YTHDF3	8	64099962	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	2444596	64099962	82264060	100	21002										
ZFHX4	79776	broad.mit.edu	37	chr8	77690550	77690550	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gaatctggtacaacatgtccGttcggtgaagcatcagcaga	11	9	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:77690550G>T	uc003yav.2	+	4	3509	c.3122G>T	c.(3121-3123)CGT>CTT	p.R1041L	ZFHX4_uc003yau.1_Missense_Mutation_p.R1067L|ZFHX4_uc003yaw.1_Missense_Mutation_p.R1041L	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1041	C2H2-type 7.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CAACATGTCCGTTCGGTGAAG	0.517										HNSCC(33;0.089)			34	82	---	---	---	---	PASS	T	77690550	T	T	77690550	3	4	56	1	0	0	0	0	1	0	0	0	17632	1145	40	1	3210	1	ZFHX4	8	77690550	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	13590588	77690550	68673472	101	21003										
ZFHX4	79776	broad.mit.edu	37	chr8	77763734	77763734	+	Missense_Mutation	SNP	G	A	A													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gaccttaccttttagaaaagGgcccaattttacgatggaaa							TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:77763734G>A	uc003yav.2	+	10	4829	c.4442G>A	c.(4441-4443)GGG>GAG	p.G1481E	ZFHX4_uc003yau.1_Missense_Mutation_p.G1526E|ZFHX4_uc003yaw.1_Missense_Mutation_p.G1481E	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1481						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTTAGAAAAGGGCCCAATTTT	0.433										HNSCC(33;0.089)			7	10	---	---	---	---	PASS	A	77763734	A	A	77763734	3	1	56	1	0	0	0	0	1	0	0	0	17632	1232	43	3	4611	3	ZFHX4	8	77763734	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	73184	77763734	68600288	102	21004	476	2								
ZFHX4	79776	broad.mit.edu	37	chr8	77763735	77763735	+	Silent	SNP	G	T	T													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	accttaccttttagaaaaggGcccaattttacgatggaaaa							TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:77763735G>T	uc003yav.2	+	10	4830	c.4443G>T	c.(4441-4443)GGG>GGT	p.G1481G	ZFHX4_uc003yau.1_Silent_p.G1526G|ZFHX4_uc003yaw.1_Silent_p.G1481G	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1481						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTAGAAAAGGGCCCAATTTTA	0.428										HNSCC(33;0.089)			6	10	---	---	---	---	PASS	T	77763735	T	T	77763735	2	4	56	1	0	0	0	0	0	0	0	1	17632	1190	42	3		3	ZFHX4	8	77763735	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	1	77763735	68600287	103	21005	476	2								
KCNV1	27012	broad.mit.edu	37	chr8	110980540	110980540	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aagcagagaagcgatcgttaAtaatagcaataggcaaggcc	11	7	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:110980540A>G	uc003ynr.3	-	3	1622	c.1280T>C	c.(1279-1281)ATT>ACT	p.I427T	KCNV1_uc010mcw.2_Missense_Mutation_p.I427T	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	427	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			GCGATCGTTAATAATAGCAAT	0.448													3	70	---	---	---	---	PASS	G	110980540	G	G	110980540	3	3	56	1	0	0	0	0	1	0	0	0	8094	101	4	5	226	5	KCNV1	8	110980540	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	33216805	110980540	35383482	104	21006										
EFR3A	23167	broad.mit.edu	37	chr8	132996486	132996486	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tacttctcttgctcttataaCtattgaactggctaatgaag	6	8	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:132996486C>G	uc003yte.2	+	15	1877	c.1676C>G	c.(1675-1677)ACT>AGT	p.T559S		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	559						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			GCTCTTATAACTATTGAACTG	0.363													16	22	---	---	---	---	PASS	G	132996486	G	G	132996486	3	3	56	1	0	0	0	0	1	0	0	0	4958	565	20	4	1734	4	EFR3A	8	132996486	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	22015946	132996486	13367536	105	21007										
COL22A1	169044	broad.mit.edu	37	chr8	139629158	139629158	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aagtgaggcgcccacttaccCggggaccgggtgcaccagaa	14	13	0	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:139629158C>T	uc003yvd.2	-	54	4316	c.3869G>A	c.(3868-3870)CGG>CAG	p.R1290Q	COL22A1_uc011ljo.1_Missense_Mutation_p.R570Q	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1290	Pro-rich.|Gly-rich.|Collagen-like 12.				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)			CCCACTTACCCGGGGACCGGG	0.572										HNSCC(7;0.00092)			7	56	---	---	---	---	PASS	T	139629158	T	T	139629158	3	4	56	1	0	0	0	0	1	0	0	0	3681	666	23	1	1059	1	COL22A1	8	139629158	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	6632672	139629158	6734864	106	21008										
NAPRT1	93100	broad.mit.edu	37	chr8	144658690	144658690	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cctcacgcccactgcccggtAgcccagctctcccagggcca	9	21	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr8:144658690A>T	uc003yym.3	-	7	959	c.934T>A	c.(934-936)TAC>AAC	p.Y312N	NAPRT1_uc003yyn.3_Missense_Mutation_p.Y312N|NAPRT1_uc011lkh.1_Missense_Mutation_p.Y312N|NAPRT1_uc003yyo.3_Missense_Mutation_p.Y312N	NM_145201	NP_660202	Q6XQN6	PNCB_HUMAN	nicotinate phosphoribosyltransferase domain	312					nicotinamide metabolic process|nicotinate nucleotide salvage|response to oxidative stress|water-soluble vitamin metabolic process	cytosol|Golgi apparatus|nucleus	nicotinate phosphoribosyltransferase activity|nicotinate-nucleotide diphosphorylase (carboxylating) activity			ovary(1)	1	all_cancers(97;6.49e-11)|all_epithelial(106;4.73e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.014)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.146)			ACTGCCCGGTAGCCCAGCTCT	0.617													12	40	---	---	---	---	PASS	T	144658690	T	T	144658690	3	4	56	1	0	0	0	0	1	0	0	0	10165	420	15	5	710	5	NAPRT1	8	144658690	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	5029532	144658690	1705332	107	21009										
CDKN2A	1029	broad.mit.edu	37	chr9	21971114	21971114	+	Frame_Shift_Del	DEL	C	-	-													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctcccgggcagcgtcgtgcaCgggtcgggtgagagtggcgg							TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr9:21971114delC	uc003zpk.2	-	2	456	c.244delG	c.(244-246)GTGfs	p.V82fs	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Frame_Shift_Del_p.R137fs	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	82	ANK 3.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(13)|p.V82M(2)|p.V82V(1)|p.T79fs*37(1)|p.V82fs*62(1)|p.V82_E88del(1)|p.V82_G89>G(1)|p.E61_L94del(1)|p.R137fs*48(1)|p.A68fs*3(1)|p.P81_A85del(1)|p.R80fs*34(1)|p.V82L(1)|p.P81fs*38(1)|p.V82fs*44(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		GCGTCGTGCACGGGTCGGGTG	0.741		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			28	21	---	---	---	---		-	21971114	-	-	21971114	7	5	56	1	0	1	0	1	0	0	0	0	3161	536	19	0	234	0	CDKN2A	9	21971114	Frame_Shift_Del	DEL	C	TCGA-33-4538-01A-01D-1267-08		21971114	119242317	108	21010										
FRMPD1	22844	broad.mit.edu	37	chr9	37740403	37740403	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tgctcctccagcaggtccacCttcttccactttggctcgcc	7	18	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr9:37740403C>G	uc004aag.1	+	15	1922	c.1878C>G	c.(1876-1878)ACC>ACG	p.T626T	FRMPD1_uc004aah.1_Silent_p.T626T|FRMPD1_uc011lqm.1_Silent_p.T448T|FRMPD1_uc011lqn.1_Silent_p.T495T	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	626						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		GCAGGTCCACCTTCTTCCACT	0.587													30	21	---	---	---	---	PASS	G	37740403	G	G	37740403	2	3	56	1	0	0	0	0	0	0	0	1	6057	668	24	4		4	FRMPD1	9	37740403	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	15769289	37740403	103473028	109	21011										
WNK2	65268	broad.mit.edu	37	chr9	96061478	96061478	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ccagcagccctgctccgtccGggcctccctgtcttcggaca	10	19	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr9:96061478G>T	uc004ati.1	+	25	6161	c.6161G>T	c.(6160-6162)CGG>CTG	p.R2054L	WNK2_uc011lud.1_Missense_Mutation_p.R2017L|WNK2_uc004atj.2_Missense_Mutation_p.R2017L|WNK2_uc004atk.2_Intron|WNK2_uc004atl.1_Missense_Mutation_p.R611L	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	2054					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						TGCTCCGTCCGGGCCTCCCTG	0.657													30	52	---	---	---	---	PASS	T	96061478	T	T	96061478	3	4	56	1	0	0	0	0	1	0	0	0	17375	1116	39	1	6144	1	WNK2	9	96061478	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	58321075	96061478	45151953	110	21012										
C9orf84	158401	broad.mit.edu	37	chr9	114521017	114521017	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agatctgtcctttgaaatctAaaagaggatcctttaccaaa	6	8	2	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr9:114521017A>G	uc004bfr.2	-	4	497	c.362T>C	c.(361-363)TTA>TCA	p.L121S	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfs.1_Missense_Mutation_p.L185S|C9orf84_uc004bfq.2_Missense_Mutation_p.L82S|C9orf84_uc010mug.2_Missense_Mutation_p.L67S	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	121										ovary(2)	2						TTTGAAATCTAAAAGAGGATC	0.318													10	13	---	---	---	---	PASS	G	114521017	G	G	114521017	3	3	56	1	0	0	0	0	1	0	0	0	2500	372	13	5	4064	5	C9orf84	9	114521017	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	18459539	114521017	26692414	111	21013										
ITIH2	3698	broad.mit.edu	37	chr10	7759670	7759670	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gtgcagttcgaacttcactaCcaggaggtgaagtggaggaa	14	7	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr10:7759670C>T	uc001ijs.2	+	6	711	c.549C>T	c.(547-549)TAC>TAT	p.Y183Y		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	183	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						AACTTCACTACCAGGAGGTGA	0.517													42	204	---	---	---	---	PASS	T	7759670	T	T	7759670	2	4	56	1	0	0	0	0	0	0	0	1	7904	518	18	3		3	ITIH2	10	7759670	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08		7759670	127775077	112	21014										
GJD4	219770	broad.mit.edu	37	chr10	35896661	35896661	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	acgtcttctcccccgtgtctCacctgcggttctggctgatc	9	16	4	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr10:35896661C>T	uc001iyy.1	+	2	378	c.220C>T	c.(220-222)CAC>TAC	p.H74Y		NM_153368	NP_699199	Q96KN9	CXD4_HUMAN	connexin40.1	74	Extracellular (Potential).				cell communication	connexon complex|integral to membrane				large_intestine(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CCCCGTGTCTCACCTGCGGTT	0.657													60	306	---	---	---	---	PASS	T	35896661	T	T	35896661	3	4	56	1	0	0	0	0	1	0	0	0	6419	826	29	2	226	2	GJD4	10	35896661	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	28136991	35896661	99638086	113	21015										
FRMPD2	143162	broad.mit.edu	37	chr10	49448520	49448520	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cacagaggagctttcctccaCaactcttttctccacctggg	7	15	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr10:49448520C>A	uc001jgi.2	-	6	690	c.583G>T	c.(583-585)GTG>TTG	p.V195L	FRMPD2_uc001jgh.2_Missense_Mutation_p.V164L|FRMPD2_uc001jgj.2_Missense_Mutation_p.V173L	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	195	KIND.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		CTTTCCTCCACAACTCTTTTC	0.557													13	68	---	---	---	---	PASS	A	49448520	A	A	49448520	3	1	56	1	0	0	0	0	1	0	0	0	6058	478	17	3	3442	3	FRMPD2	10	49448520	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	13551859	49448520	86086227	114	21016										
SLC18A3	6572	broad.mit.edu	37	chr10	50820269	50820269	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agccaccgcaaggtctgtacGatgcggtgcgcctgcgtgag	15	12	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr10:50820269G>T	uc001jhw.2	+	1	1923	c.1483G>T	c.(1483-1485)GAT>TAT	p.D495Y	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	495	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						AGGTCTGTACGATGCGGTGCG	0.647													4	149	---	---	---	---	PASS	T	50820269	T	T	50820269	3	4	56	1	0	0	0	0	1	0	0	0	14427	1058	37	2	1485	2	SLC18A3	10	50820269	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	1371749	50820269	84714478	115	21017										
ZNF365	22891	broad.mit.edu	37	chr10	64136627	64136627	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aacagacaggtggacgtggcCgtggaaatgatagctgtact	14	7	0	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr10:64136627C>A	uc001jmc.2	+	2	990	c.675C>A	c.(673-675)GCC>GCA	p.A225A	ZNF365_uc001jly.3_Silent_p.A240A|ZNF365_uc001jmb.3_Silent_p.A225A|ZNF365_uc001jlz.3_Silent_p.A225A|ZNF365_uc001jma.3_Intron	NM_199451	NP_955523	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform C	Error:Variant_position_missing_in_Q70YC4_after_alignment										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					TGGACGTGGCCGTGGAAATGA	0.522													51	78	---	---	---	---	PASS	A	64136627	A	A	64136627	2	1	56	1	0	0	0	0	0	0	0	1	17866	639	23	1		1	ZNF365	10	64136627	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	13316358	64136627	71398120	116	21018										
LRRTM3	347731	broad.mit.edu	37	chr10	68687044	68687044	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gttccaatagaatctcctatTttcttaacaataccttcaga	3	10	3	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr10:68687044T>A	uc001jmz.1	+	2	920	c.370T>A	c.(370-372)TTT>ATT	p.F124I	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.F124I	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	124	LRR 3.|Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						AATCTCCTATTTTCTTAACAA	0.393													85	103	---	---	---	---	PASS	A	68687044	A	A	68687044	3	1	56	1	0	0	0	0	1	0	0	0	9041	1841	64	5	376	5	LRRTM3	10	68687044	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	4550417	68687044	66847703	117	21019										
CYP2C8	1558	broad.mit.edu	37	chr10	96802818	96802818	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctgccaattacatgatcaatCtcttcctggactttagctga	6	11	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr10:96802818C>A	uc001kkb.2	-	7	1073	c.978G>T	c.(976-978)GAG>GAT	p.E326D	CYP2C8_uc001kkc.2_RNA|CYP2C8_uc010qoa.1_Missense_Mutation_p.E256D|CYP2C8_uc010qob.1_Missense_Mutation_p.E240D|CYP2C8_uc010qoc.1_Missense_Mutation_p.E224D|CYP2C8_uc010qod.1_Missense_Mutation_p.E240D	NM_000770	NP_000761	P10632	CP2C8_HUMAN	cytochrome P450, family 2, subfamily C,	326					exogenous drug catabolic process|organic acid metabolic process|oxidative demethylation|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|electron carrier activity|heme binding|oxygen binding				0		Colorectal(252;0.0397)		all cancers(201;6.21e-05)	Aminophenazone(DB01424)|Amiodarone(DB01118)|Amodiaquine(DB00613)|Benzphetamine(DB00865)|Carbamazepine(DB00564)|Cerivastatin(DB00439)|Diclofenac(DB00586)|Fluvastatin(DB01095)|Fosphenytoin(DB01320)|Gemfibrozil(DB01241)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Lovastatin(DB00227)|Midazolam(DB00683)|Montelukast(DB00471)|Nicardipine(DB00622)|Paclitaxel(DB01229)|Phenytoin(DB00252)|Pioglitazone(DB01132)|Repaglinide(DB00912)|Rifampin(DB01045)|Rosiglitazone(DB00412)|Simvastatin(DB00641)|Sitagliptin(DB01261)|Tolbutamide(DB01124)|Torasemide(DB00214)|Tretinoin(DB00755)|Trimethoprim(DB00440)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zopiclone(DB01198)	CATGATCAATCTCTTCCTGGA	0.438													37	19	---	---	---	---	PASS	A	96802818	A	A	96802818	3	1	56	1	0	0	0	0	1	0	0	0	4167	912	32	2	506	2	CYP2C8	10	96802818	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	28115774	96802818	38731929	118	21020										
KCNK18	338567	broad.mit.edu	37	chr10	118969311	118969311	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	caaacttggcacatgtccttCacgcccaagctgcagcatgg	9	14	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr10:118969311C>T	uc010qsr.1	+	3	656	c.656C>T	c.(655-657)TCA>TTA	p.S219L		NM_181840	NP_862823	Q7Z418	KCNKI_HUMAN	potassium channel, subfamily K, member 18	219	Cytoplasmic (Potential).					integral to membrane|plasma membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;0.19)		all cancers(201;0.0211)		ACATGTCCTTCACGCCCAAGC	0.532													5	68	---	---	---	---	PASS	T	118969311	T	T	118969311	3	4	56	1	0	0	0	0	1	0	0	0	8065	838	29	2	666	2	KCNK18	10	118969311	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	22166493	118969311	16565436	119	21021										
SPTY2D1	144108	broad.mit.edu	37	chr11	18636721	18636721	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tgctgcctggctgcctgacaCctggactcttagccttattg	10	13	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:18636721C>G	uc001moy.2	-	3	1316	c.1100G>C	c.(1099-1101)GGT>GCT	p.G367A	SPTY2D1_uc010rdi.1_Missense_Mutation_p.G367A	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	367	Ser-rich.									breast(1)	1						CTGCCTGACACCTGGACTCTT	0.587													5	235	---	---	---	---	PASS	G	18636721	G	G	18636721	3	3	56	1	0	0	0	0	1	0	0	0	15125	507	18	4	973	4	SPTY2D1	11	18636721	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08		18636721	116369795	120	21022										
OR4S2	219431	broad.mit.edu	37	chr11	55419124	55419124	+	Missense_Mutation	SNP	T	A	A													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ttgccatggtcgttatctttTtcggcccctgtacttttatg							TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:55419124T>A	uc001nhs.1	+	1	745	c.745T>A	c.(745-747)TTC>ATC	p.F249I		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				CGTTATCTTTTTCGGCCCCTG	0.483													16	90	---	---	---	---	PASS	A	55419124	A	A	55419124	3	1	56	1	0	0	0	0	1	0	0	0	11083	1841	64	5	747	5	OR4S2	11	55419124	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	36782403	55419124	79587392	121	21023	477	2								
OR4S2	219431	broad.mit.edu	37	chr11	55419125	55419125	+	Missense_Mutation	SNP	T	A	A													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tgccatggtcgttatcttttTcggcccctgtacttttatgt							TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:55419125T>A	uc001nhs.1	+	1	746	c.746T>A	c.(745-747)TTC>TAC	p.F249Y		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				GTTATCTTTTTCGGCCCCTGT	0.478													16	87	---	---	---	---	PASS	A	55419125	A	A	55419125	3	1	56	1	0	0	0	0	1	0	0	0	11083	1783	62	5	748	5	OR4S2	11	55419125	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	1	55419125	79587391	122	21024	477	2								
OR5W2	390148	broad.mit.edu	37	chr11	55681566	55681566	+	Frame_Shift_Del	DEL	G	-	-													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agacccacagaagcataggcGgaaggccagtgtcatatgta					rs61749302	byFrequency	TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:55681566delG	uc010rir.1	-	1	493	c.493delC	c.(493-495)CGCfs	p.R165fs		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AAGCATAGGCGGAAGGCCAGT	0.428													50	33	---	---	---	---		-	55681566	-	-	55681566	7	5	56	1	0	1	0	1	0	0	0	0	11185	1116	39	0	441	0	OR5W2	11	55681566	Frame_Shift_Del	DEL	G	TCGA-33-4538-01A-01D-1267-08	262441	55681566	79324950	123	21025										
OR5M8	219484	broad.mit.edu	37	chr11	56258190	56258190	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tttaaaatagcagggaaaatGtaaaggtaggaaatacatat	9	2	0	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:56258190G>T	uc001nix.1	-	1	657	c.657C>A	c.(655-657)TAC>TAA	p.Y219*		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	219	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					CAGGGAAAATGTAAAGGTAGG	0.408													21	50	---	---	---	---	PASS	T	56258190	T	T	56258190	4	4	56	1	0	0	0	0	0	1	0	0	11176	1372	48	3	282	3	OR5M8	11	56258190	Nonsense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	576624	56258190	78748326	124	21026										
OR5B2	390190	broad.mit.edu	37	chr11	58190445	58190445	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctacaaagaagaacatctgaAcagcacatgcattgtaggag	9	8	1	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:58190445A>G	uc010rkg.1	-	1	290	c.290T>C	c.(289-291)GTT>GCT	p.V97A		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	97	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GAACATCTGAACAGCACATGC	0.502													25	68	---	---	---	---	PASS	G	58190445	G	G	58190445	3	3	56	1	0	0	0	0	1	0	0	0	11150	43	2	5	643	5	OR5B2	11	58190445	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	1932255	58190445	76816071	125	21027										
OR5A2	219981	broad.mit.edu	37	chr11	59190177	59190177	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctgctctgtgatgatgtcagAcagcatcttaggggcggtgg	15	8	3	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:59190177A>G	uc010rkt.1	-	1	250	c.250T>C	c.(250-252)TCT>CCT	p.S84P		NM_001001954	NP_001001954	Q8NGI9	OR5A2_HUMAN	olfactory receptor, family 5, subfamily A,	84	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGATGTCAGACAGCATCTTA	0.502													28	44	---	---	---	---	PASS	G	59190177	G	G	59190177	3	3	56	1	0	0	0	0	1	0	0	0	11140	275	10	5	726	5	OR5A2	11	59190177	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	999732	59190177	75816339	126	21028										
PLCB3	5331	broad.mit.edu	37	chr11	64032799	64032799	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cagaggtggcccccaccccgCtggatgagctccgaggtcac	13	16	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:64032799C>T	uc001nzb.2	+	25	2860	c.2860C>T	c.(2860-2862)CTG>TTG	p.L954L	PLCB3_uc009ypg.1_Silent_p.L954L|PLCB3_uc009yph.1_Silent_p.L887L|PLCB3_uc009ypi.2_Silent_p.L954L	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	954					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						CCCCACCCCGCTGGATGAGCT	0.692													4	16	---	---	---	---	PASS	T	64032799	T	T	64032799	2	4	56	1	0	0	0	0	0	0	0	1	12029	796	28	3		3	PLCB3	11	64032799	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	4842622	64032799	70973717	127	21029										
NRXN2	9379	broad.mit.edu	37	chr11	64427952	64427952	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tctgcctccgtgtgcatggcGttaggcagcatgatcttcat	11	11	3	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:64427952G>A	uc001oar.2	-	12	2680	c.2241C>T	c.(2239-2241)AAC>AAT	p.N747N	NRXN2_uc001oas.2_Silent_p.N716N|NRXN2_uc001oaq.2_Silent_p.N414N	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:Variant_position_missing_in_P58401_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						TGTGCATGGCGTTAGGCAGCA	0.597													22	72	---	---	---	---	PASS	A	64427952	A	A	64427952	2	1	56	1	0	0	0	0	0	0	0	1	10666	1136	40	1		1	NRXN2	11	64427952	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	395153	64427952	70578564	128	21030										
PTPRCAP	5790	broad.mit.edu	37	chr11	67203563	67203563	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tcgggcctgcagccagcgacCtggggggctggcccagagca	17	14	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:67203563C>T	uc001oli.1	-	2	325	c.262G>A	c.(262-264)GGT>AGT	p.G88S		NM_005608	NP_005599	Q14761	PTCA_HUMAN	protein tyrosine phosphatase, receptor type,	88					defense response	integral to membrane|plasma membrane					0			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			AGCCAGCGACCTGGGGGGCTG	0.701													13	30	---	---	---	---	PASS	T	67203563	T	T	67203563	3	4	56	1	0	0	0	0	1	0	0	0	12798	681	24	3	362	3	PTPRCAP	11	67203563	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	2775611	67203563	67802953	129	21031										
C11orf24	53838	broad.mit.edu	37	chr11	68030121	68030121	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gtcgtaatggaggccgcagtCgtactggaggccacagccgt	15	11	0	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:68030121C>T	uc001onr.3	-	4	784	c.342G>A	c.(340-342)ACG>ACA	p.T114T	C11orf24_uc001ons.2_Silent_p.T114T	NM_022338	NP_071733	Q96F05	CK024_HUMAN	hypothetical protein LOC53838 precursor	114	Extracellular (Potential).					integral to membrane					0						AGGCCGCAGTCGTACTGGAGG	0.592													12	49	---	---	---	---	PASS	T	68030121	T	T	68030121	2	4	56	1	0	0	0	0	0	0	0	1	1635	871	31	2		2	C11orf24	11	68030121	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	826558	68030121	66976395	130	21032										
XRRA1	143570	broad.mit.edu	37	chr11	74555221	74555221	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctggatgtttacccgtttctCtttgtgaacatagggtttct	9	8	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:74555221C>G	uc009yub.2	-	17	2343	c.2011G>C	c.(2011-2013)GAG>CAG	p.E671Q	XRRA1_uc001ovm.2_RNA|XRRA1_uc001ovn.2_Missense_Mutation_p.E294Q|XRRA1_uc001ovo.2_Missense_Mutation_p.E279Q|XRRA1_uc001ovq.3_Missense_Mutation_p.E584Q|XRRA1_uc001ovp.3_Missense_Mutation_p.E396Q|XRRA1_uc001ovr.2_Missense_Mutation_p.E294Q|XRRA1_uc001ovs.1_Missense_Mutation_p.E273Q	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	671					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						ACCCGTTTCTCTTTGTGAACA	0.522													55	251	---	---	---	---	PASS	G	74555221	G	G	74555221	3	3	56	1	0	0	0	0	1	0	0	0	17458	922	32	2	379	2	XRRA1	11	74555221	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	6525100	74555221	60451295	131	21033										
GRIA4	2893	broad.mit.edu	37	chr11	105845102	105845102	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tacattctggttggcggcttGggcttggcaatgctggtggc	16	8	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:105845102G>T	uc001pix.2	+	16	2921	c.2475G>T	c.(2473-2475)TTG>TTT	p.L825F	GRIA4_uc001piw.2_Missense_Mutation_p.L825F|GRIA4_uc010rvm.1_RNA|GRIA4_uc009yxl.1_RNA	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	825	Helical; (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	TTGGCGGCTTGGGCTTGGCAA	0.498													16	76	---	---	---	---	PASS	T	105845102	T	T	105845102	3	4	56	1	0	0	0	0	1	0	0	0	6770	1339	47	3	2689	3	GRIA4	11	105845102	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	31289881	105845102	29161414	132	21034										
EXPH5	23086	broad.mit.edu	37	chr11	108382901	108382901	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aggaatggaagtggtcctttTctaacggaagtagatccact	11	7	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:108382901T>C	uc001pkk.2	-	6	3444	c.3333A>G	c.(3331-3333)AGA>AGG	p.R1111R	EXPH5_uc010rvy.1_Silent_p.R923R|EXPH5_uc010rvz.1_Silent_p.R955R|EXPH5_uc010rwa.1_Silent_p.R1035R	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1111					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		GTGGTCCTTTTCTAACGGAAG	0.468													18	79	---	---	---	---	PASS	C	108382901	C	C	108382901	2	2	56	1	0	0	0	0	0	0	0	1	5322	1780	62	5		5	EXPH5	11	108382901	Silent	SNP	T	TCGA-33-4538-01A-01D-1267-08	2537799	108382901	26623615	133	21035										
CRTAM	56253	broad.mit.edu	37	chr11	122720810	122720810	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aaccacacagaaaccatcacCgtggaggaaggccagacgct	10	13	1	2	rs151156247	byFrequency	TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:122720810C>A	uc001pyj.2	+	2	81	c.81C>A	c.(79-81)ACC>ACA	p.T27T		NM_019604	NP_062550	O95727	CRTAM_HUMAN	class-I MHC-restricted T cell associated	27	Ig-like V-type.|Extracellular (Potential).				cell recognition|detection of tumor cell|positive regulation of cytokine secretion|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	integral to membrane|plasma membrane	receptor binding			ovary(1)	1		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.28e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		AAACCATCACCGTGGAGGAAG	0.532													3	37	---	---	---	---	PASS	A	122720810	A	A	122720810	2	1	56	1	0	0	0	0	0	0	0	1	3897	639	23	1		1	CRTAM	11	122720810	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	14337909	122720810	12285706	134	21036										
OR8D1	283159	broad.mit.edu	37	chr11	124180028	124180028	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cataggagacagcaacagctAgggtgggcaccaaggtgtta	14	8	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:124180028A>G	uc010sag.1	-	1	635	c.635T>C	c.(634-636)CTA>CCA	p.L212P		NM_001002917	NP_001002917	Q8WZ84	OR8D1_HUMAN	olfactory receptor, family 8, subfamily D,	212	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		AGCAACAGCTAGGGTGGGCAC	0.507													22	14	---	---	---	---	PASS	G	124180028	G	G	124180028	3	3	56	1	0	0	0	0	1	0	0	0	11231	420	15	5	294	5	OR8D1	11	124180028	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	1459218	124180028	10826488	135	21037										
CDON	50937	broad.mit.edu	37	chr11	125867207	125867207	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tttatattcgactttgaaggCagtgattggagaacccccgt	10	8	0	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr11:125867207C>T	uc009zbw.2	-	12	2385	c.2257G>A	c.(2257-2259)GCC>ACC	p.A753T	CDON_uc001qdb.3_Missense_Mutation_p.A130T|CDON_uc001qdc.3_Missense_Mutation_p.A753T	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	753	Fibronectin type-III 2.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		ACTTTGAAGGCAGTGATTGGA	0.498													11	31	---	---	---	---	PASS	T	125867207	T	T	125867207	3	4	56	1	0	0	0	0	1	0	0	0	3170	710	25	3	1573	3	CDON	11	125867207	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	1687179	125867207	9139309	136	21038										
KLRC1	3821	broad.mit.edu	37	chr12	10601878	10601878	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gaaagcagactggagttcttCgaagtacaggccagcaaact	11	9	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:10601878C>G	uc001qyl.2	-	5	611	c.447G>C	c.(445-447)TCG>TCC	p.S149S	KLRC1_uc009zhm.1_Silent_p.S149S|KLRC1_uc001qym.2_Silent_p.S131S|KLRC1_uc001qyn.2_Silent_p.S149S|KLRC1_uc001qyo.2_Silent_p.S131S	NM_002259	NP_002250	P26715	NKG2A_HUMAN	killer cell lectin-like receptor subfamily C,	149	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|regulation of immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0						TGGAGTTCTTCGAAGTACAGG	0.328													20	150	---	---	---	---	PASS	G	10601878	G	G	10601878	2	3	56	1	0	0	0	0	0	0	0	1	8415	871	31	2		2	KLRC1	12	10601878	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08		10601878	123250017	137	21039										
LRP6	4040	broad.mit.edu	37	chr12	12311984	12311984	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ggccactggttttgttggcaCgctcaatgctgcgtcggctc	13	12	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:12311984C>T	uc001rah.3	-	12	2712	c.2570G>A	c.(2569-2571)CGT>CAT	p.R857H	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.R857H	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	857	Extracellular (Potential).|Beta-propeller 3.|LDL-receptor class B 15.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				TTTGTTGGCACGCTCAATGCT	0.488													23	34	---	---	---	---	PASS	T	12311984	T	T	12311984	3	4	56	1	0	0	0	0	1	0	0	0	8962	536	19	1	2319	1	LRP6	12	12311984	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	1710106	12311984	121539911	138	21040										
ABCC9	10060	broad.mit.edu	37	chr12	21960410	21960410	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ccccaccttcagtgacaaccGcatctaaatcagagaaagaa	6	13	3	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:21960410G>C	uc001rfi.1	-	36	4339	c.4319C>G	c.(4318-4320)GCG>GGG	p.A1440G	ABCC9_uc001rfh.2_Missense_Mutation_p.A1440G|ABCC9_uc001rfj.1_Missense_Mutation_p.A1404G|ABCC9_uc001rfg.2_5'UTR	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1440	Cytoplasmic (Potential).|ABC transporter 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AGTGACAACCGCATCTAAATC	0.398													19	49	---	---	---	---	PASS	C	21960410	C	C	21960410	3	2	56	1	0	0	0	0	1	0	0	0	59	1087	38	4	484	4	ABCC9	12	21960410	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	9648426	21960410	111891485	139	21041										
NELL2	4753	broad.mit.edu	37	chr12	45105132	45105132	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctgatgagactctggacaatCcaaagctggacagcctgaac	10	11	1	3	rs142043324		TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:45105132C>A	uc001rog.2	-	11	1727	c.1132G>T	c.(1132-1134)GAT>TAT	p.D378Y	NELL2_uc001rof.3_Missense_Mutation_p.D377Y|NELL2_uc001roh.2_Missense_Mutation_p.D378Y|NELL2_uc009zkd.2_Missense_Mutation_p.D377Y|NELL2_uc010skz.1_Missense_Mutation_p.D428Y|NELL2_uc010sla.1_Missense_Mutation_p.D401Y|NELL2_uc001roi.1_Missense_Mutation_p.D378Y|NELL2_uc010slb.1_Missense_Mutation_p.D377Y|NELL2_uc001roj.2_Missense_Mutation_p.D378Y	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	378	VWFC 2.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		TCTGGACAATCCAAAGCTGGA	0.378													15	30	---	---	---	---	PASS	A	45105132	A	A	45105132	3	1	56	1	0	0	0	0	1	0	0	0	10334	855	30	2	1358	2	NELL2	12	45105132	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	23144722	45105132	88746763	140	21042										
PLEKHA9	51054	broad.mit.edu	37	chr12	45567236	45567236	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cttttccccatttttcacttCtgtcaaaaatcccttcaaaa	1	13	4	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:45567236C>T	uc001rom.1	-	3	1450	c.913G>A	c.(913-915)GAA>AAA	p.E305K	PLEKHA9_uc009zke.2_Missense_Mutation_p.E305K	NM_015899	NP_056983			pleckstrin homology domain containing, family A												0	Lung SC(27;0.192)|Renal(347;0.236)			GBM - Glioblastoma multiforme(48;0.173)		TTTTTCACTTCTGTCAAAAAT	0.483													14	82	---	---	---	---	PASS	T	45567236	T	T	45567236	3	4	56	1	0	0	0	0	1	0	0	0	12063	922	32	2	266	2	PLEKHA9	12	45567236	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	462104	45567236	88284659	141	21043										
VDR	7421	broad.mit.edu	37	chr12	48249571	48249571	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tccagattggagaagctggaCgagtccatcatgtctgggag	14	8	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:48249571C>T	uc001rqm.2	-	8	879	c.597G>A	c.(595-597)TCG>TCA	p.S199S	VDR_uc001rql.2_Silent_p.S249S|VDR_uc001rqn.2_Silent_p.S199S|VDR_uc010slq.1_Silent_p.S167S	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	199	Ligand-binding.				decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	AGAAGCTGGACGAGTCCATCA	0.547													4	97	---	---	---	---	PASS	T	48249571	T	T	48249571	2	4	56	1	0	0	0	0	0	0	0	1	17146	523	19	1		1	VDR	12	48249571	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	2682335	48249571	85602324	142	21044										
MLL2	8085	broad.mit.edu	37	chr12	49443464	49443464	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cgcagctagatagcccctcaCctgtttgatgcgggaacggg	13	12	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:49443464C>A	uc001rta.3	-	11	3906	c.3906_splice	c.e11+1	p.Q1302_splice		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2						chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TAGCCCCTCACCTGTTTGATG	0.567			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			29	48	---	---	---	---	PASS	A	49443464	A	A	49443464	5	1	56	1	0	0	0	0	0	0	1	0	9621	521	18	3	12882	3	MLL2	12	49443464	Splice_Site	SNP	C	TCGA-33-4538-01A-01D-1267-08	1193893	49443464	84408431	143	21045										
MAP3K12	7786	broad.mit.edu	37	chr12	53877794	53877794	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agtgcagttttacttcttccCgccactctgcctatgggttg	9	12	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:53877794C>T	uc001sdm.1	-	9	1258	c.1160G>A	c.(1159-1161)CGG>CAG	p.R387Q	MAP3K12_uc001sdn.1_Missense_Mutation_p.R420Q	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	387					histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						TACTTCTTCCCGCCACTCTGC	0.532													16	91	---	---	---	---	PASS	T	53877794	T	T	53877794	3	4	56	1	0	0	0	0	1	0	0	0	9246	652	23	1	1447	1	MAP3K12	12	53877794	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	4434330	53877794	79974101	144	21046										
RBMS2	5939	broad.mit.edu	37	chr12	56975191	56975191	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctctctcggcagccccatccGatcccttgctttgcaaattt	6	16	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:56975191G>T	uc001sln.2	+	7	830	c.631G>T	c.(631-633)GAT>TAT	p.D211Y	RBMS2_uc010sqp.1_Missense_Mutation_p.D66Y|RBMS2_uc010sqq.1_Missense_Mutation_p.D86Y|RBMS2_uc009zou.2_5'UTR	NM_002898	NP_002889	Q15434	RBMS2_HUMAN	RNA binding motif, single stranded interacting	211	RRM 2.				RNA processing	nucleus	nucleotide binding|RNA binding				0						AGCCCCATCCGATCCCTTGCT	0.532													17	32	---	---	---	---	PASS	T	56975191	T	T	56975191	3	4	56	1	0	0	0	0	1	0	0	0	13149	1058	37	2	657	2	RBMS2	12	56975191	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	3097397	56975191	76876704	145	21047										
PTPRB	5787	broad.mit.edu	37	chr12	71029760	71029760	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ccacatccactgctggttctGgatggtcctgttgcatgagc	11	12	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:71029760G>A	uc001swc.3	-	2	186	c.142C>T	c.(142-144)CAG>TAG	p.Q48*	PTPRB_uc001swa.3_Nonsense_Mutation_p.Q48*|PTPRB_uc001swd.3_Nonsense_Mutation_p.Q47*|PTPRB_uc009zrr.1_Nonsense_Mutation_p.Q48*|PTPRB_uc001swe.2_Nonsense_Mutation_p.Q48*	NM_001109754	NP_001103224	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	Error:Variant_position_missing_in_P23467_after_alignment					angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			TGCTGGTTCTGGATGGTCCTG	0.493													7	17	---	---	---	---	PASS	A	71029760	A	A	71029760	4	1	56	1	0	0	0	0	0	1	0	0	12796	1357	47	3	6695	3	PTPRB	12	71029760	Nonsense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	14054569	71029760	62822135	146	21048										
ATP2B1	490	broad.mit.edu	37	chr12	90028892	90028892	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	attcggctctgcaaacctctAaactgtttttccttactcca	4	13	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:90028892A>T	uc001tbh.2	-	3	724	c.543T>A	c.(541-543)TTT>TTA	p.F181L	ATP2B1_uc001tbg.2_Missense_Mutation_p.F181L	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	181	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						GCAAACCTCTAAACTGTTTTT	0.433													24	42	---	---	---	---	PASS	T	90028892	T	T	90028892	3	4	56	1	0	0	0	0	1	0	0	0	1139	359	13	5	3349	5	ATP2B1	12	90028892	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	18999132	90028892	43823003	147	21049										
VEZT	55591	broad.mit.edu	37	chr12	95668571	95668571	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	caactacatctgtgtggtgcCttttaaagagctgggccttg	11	9	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:95668571C>A	uc001tdz.2	+	7	1007	c.902C>A	c.(901-903)CCT>CAT	p.P301H	VEZT_uc009ztb.1_RNA|VEZT_uc009ztc.1_5'UTR|VEZT_uc001tdy.2_RNA	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	301						acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						TGTGTGGTGCCTTTTAAAGAG	0.428													6	79	---	---	---	---	PASS	A	95668571	A	A	95668571	3	1	56	1	0	0	0	0	1	0	0	0	17153	681	24	3	928	3	VEZT	12	95668571	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	5639679	95668571	38183324	148	21050										
C12orf63	374467	broad.mit.edu	37	chr12	97052002	97052002	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tgtctagtgagaggtatacaGaacaagtgacaccacttctg	10	8	2	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:97052002G>A	uc001tet.1	+	5	691	c.613G>A	c.(613-615)GAA>AAA	p.E205K		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	205										skin(6)|ovary(1)	7						GAGGTATACAGAACAAGTGAC	0.378													10	79	---	---	---	---	PASS	A	97052002	A	A	97052002	3	1	56	1	0	0	0	0	1	0	0	0	1706	943	33	2	627	2	C12orf63	12	97052002	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	1383431	97052002	36799893	149	21051										
FOXN4	121643	broad.mit.edu	37	chr12	109717646	109717646	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ggcaggggttaggcctgaggCccccaggtcacagccaagcg	16	13	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:109717646C>A	uc001toe.3	-	10	1489	c.1384G>T	c.(1384-1386)GCC>TCC	p.A462S	FOXN4_uc009zvg.2_Missense_Mutation_p.A259S|FOXN4_uc001tof.3_Missense_Mutation_p.A282S	NM_213596	NP_998761	Q96NZ1	FOXN4_HUMAN	forkhead box N4	462					axon extension|embryo development|organ development|pattern specification process|regulation of heart contraction|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(1)|lung(1)	2						AGGCCTGAGGCCCCCAGGTCA	0.612													23	19	---	---	---	---	PASS	A	109717646	A	A	109717646	3	1	56	1	0	0	0	0	1	0	0	0	6022	739	26	3	173	3	FOXN4	12	109717646	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	12665644	109717646	24134249	150	21052										
SDSL	113675	broad.mit.edu	37	chr12	113866227	113866227	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cattccttctcttcccagatGgccaagaagggatgcagaca	9	12	1	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:113866227G>A	uc001tvi.2	+	4	387	c.177G>A	c.(175-177)ATG>ATA	p.M59I	SDSL_uc009zwh.2_Missense_Mutation_p.M59I	NM_138432	NP_612441	Q96GA7	SDSL_HUMAN	serine dehydratase-like	59					cellular amino acid metabolic process		L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	CTTCCCAGATGGCCAAGAAGG	0.557													12	24	---	---	---	---	PASS	A	113866227	A	A	113866227	3	1	56	1	0	0	0	0	1	0	0	0	13976	1348	47	3	183	3	SDSL	12	113866227	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	4148581	113866227	19985668	151	21053										
VPS33A	65082	broad.mit.edu	37	chr12	122724483	122724483	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cggttaatttatcaaaaaagTcttcagaagctaaaatgaaa	6	5	3	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr12:122724483T>A	uc001ucd.2	-	9	1219	c.1106A>T	c.(1105-1107)GAC>GTC	p.D369V	VPS33A_uc001ucc.2_RNA	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	369					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		ATCAAAAAAGTCTTCAGAAGC	0.318													21	41	---	---	---	---	PASS	A	122724483	A	A	122724483	3	1	56	1	0	0	0	0	1	0	0	0	17198	1667	58	5	704	5	VPS33A	12	122724483	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	8858256	122724483	11127412	152	21054										
CCDC70	83446	broad.mit.edu	37	chr13	52440012	52440012	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gaaaaggccctgtgggtagaGgaaagagccctccttgaggg	16	8	0	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr13:52440012G>A	uc001vfu.3	+	2	794	c.498G>A	c.(496-498)GAG>GAA	p.E166E	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	166						extracellular region|plasma membrane					0		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)		TGTGGGTAGAGGAAAGAGCCC	0.557													77	54	---	---	---	---	PASS	A	52440012	A	A	52440012	2	1	56	1	0	0	0	0	0	0	0	1	2843	991	35	3		3	CCDC70	13	52440012	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08		52440012	62729866	153	21055										
MYCBP2	23077	broad.mit.edu	37	chr13	77900796	77900796	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ggagccgtcgggaaccggcaTgaacagcgcccccggcgccg	16	16	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr13:77900796T>A	uc001vkf.2	-	2	92	c.1A>T	c.(1-3)ATG>TTG	p.M1L	MYCBP2_uc010aev.2_5'UTR	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GGAACCGGCATGAACAGCGCC	0.756													4	0	---	---	---	---	PASS	A	77900796	A	A	77900796	3	1	56	1	0	0	0	0	1	0	0	0	10018	1464	51	5	14253	5	MYCBP2	13	77900796	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	25460784	77900796	37269082	154	21056										
GPR18	2841	broad.mit.edu	37	chr13	99908124	99908124	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tcttgattgttcagggtgatCattttacagcttgttggtag	11	5	3	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr13:99908124C>G	uc001voe.3	-	3	504	c.3G>C	c.(1-3)ATG>ATC	p.M1I	UBAC2_uc001voa.3_Intron|UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron|GPR18_uc010afv.2_Missense_Mutation_p.M1I	NM_005292	NP_005283	Q14330	GPR18_HUMAN	G protein-coupled receptor 18	1	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Glycine(DB00145)	TCAGGGTGATCATTTTACAGC	0.323													16	63	---	---	---	---	PASS	G	99908124	G	G	99908124	3	3	56	1	0	0	0	0	1	0	0	0	6675	826	29	2	996	2	GPR18	13	99908124	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	22007328	99908124	15261754	155	21057										
LIG4	3981	broad.mit.edu	37	chr13	108862405	108862405	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ttagtatgagcttgtgttttCtgcactatttctattctacc	6	8	3	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr13:108862405C>T	uc001vqn.2	-	2	1485	c.1212G>A	c.(1210-1212)CAG>CAA	p.Q404Q	LIG4_uc001vqo.2_Silent_p.Q404Q|LIG4_uc010agg.1_Silent_p.Q337Q|LIG4_uc010agf.2_Silent_p.Q404Q|LIG4_uc001vqp.2_Silent_p.Q404Q	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	404					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					CTTGTGTTTTCTGCACTATTT	0.333								NHEJ					10	74	---	---	---	---	PASS	T	108862405	T	T	108862405	2	4	56	1	0	0	0	0	0	0	0	1	8783	912	32	2		2	LIG4	13	108862405	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	8954281	108862405	6307473	156	21058										
COL4A2	1284	broad.mit.edu	37	chr13	111125434	111125434	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ccgggccacggggagatgctGgtgtgcctggacagcctggg	19	11	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr13:111125434G>T	uc001vqx.2	+	29	2651	c.2362G>T	c.(2362-2364)GGT>TGT	p.G788C		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	788	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GGGAGATGCTGGTGTGCCTGG	0.701													7	6	---	---	---	---	PASS	T	111125434	T	T	111125434	3	4	56	1	0	0	0	0	1	0	0	0	3690	1348	47	3	2472	3	COL4A2	13	111125434	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	2263029	111125434	4044444	157	21059										
OR4K15	81127	broad.mit.edu	37	chr14	20443879	20443879	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	caattctgttgggcaactttCtcatcatcctcactgtgacc	6	13	4	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr14:20443879C>G	uc010tkx.1	+	1	202	c.202C>G	c.(202-204)CTC>GTC	p.L68V		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	68	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GGGCAACTTTCTCATCATCCT	0.433													23	61	---	---	---	---	PASS	G	20443879	G	G	20443879	3	3	56	1	0	0	0	0	1	0	0	0	11070	913	32	2	204	2	OR4K15	14	20443879	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08		20443879	86905661	158	21060										
IRF9	10379	broad.mit.edu	37	chr14	24633866	24633866	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	atctacaacgggcgcgtggtGggcgaggcccaggtgcaaag	17	10	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr14:24633866G>A	uc001wmq.2	+	7	820	c.693G>A	c.(691-693)GTG>GTA	p.V231V	RNF31_uc001wmp.2_RNA|IRF9_uc010alj.2_Intron	NM_006084	NP_006075	Q00978	IRF9_HUMAN	interferon-stimulated transcription factor 3,	231					interferon-gamma-mediated signaling pathway|response to virus|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|nucleoplasm	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00853)		GGCGCGTGGTGGGCGAGGCCC	0.637													47	161	---	---	---	---	PASS	A	24633866	A	A	24633866	2	1	56	1	0	0	0	0	0	0	0	1	7837	1335	47	3		3	IRF9	14	24633866	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	4189987	24633866	82715674	159	21061										
TM9SF1	10548	broad.mit.edu	37	chr14	24662104	24662104	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	acaagcaccatggagttgatGatggacaaccaatggatttc	10	8	0	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr14:24662104G>C	uc001wnb.1	-	3	1065	c.717C>G	c.(715-717)ATC>ATG	p.I239M	IPO4_uc001wmz.1_5'Flank|TM9SF1_uc010toa.1_Missense_Mutation_p.I152M|TM9SF1_uc001wna.1_RNA|TM9SF1_uc010tob.1_Missense_Mutation_p.I474M|TM9SF1_uc001wnc.2_Missense_Mutation_p.I239M|TM9SF1_uc001wnd.2_Missense_Mutation_p.I95M	NM_006405	NP_006396	O15321	TM9S1_HUMAN	transmembrane 9 superfamily member 1 isoform a	239	Helical; (Potential).				autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0183)		TGGAGTTGATGATGGACAACC	0.512													12	33	---	---	---	---	PASS	C	24662104	C	C	24662104	3	2	56	1	0	0	0	0	1	0	0	0	15974	1280	45	2	1162	2	TM9SF1	14	24662104	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	28238	24662104	82687436	160	21062										
PLEKHG3	26030	broad.mit.edu	37	chr14	65203596	65203596	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	accaaacacctgctcaggcaActcaacgagaaaggtgagtg	10	11	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr14:65203596A>T	uc001xho.1	+	13	1640	c.1371A>T	c.(1369-1371)CAA>CAT	p.Q457H	PLEKHG3_uc001xhn.1_Missense_Mutation_p.Q401H|PLEKHG3_uc001xhp.2_Missense_Mutation_p.Q457H|PLEKHG3_uc010aqh.1_5'UTR|PLEKHG3_uc001xhq.1_5'Flank	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	457				QGRRQSEPTKHLLRQLNEKARAAGMK -> KGAGPEPPGSE EEEEEQEESLAVAEQ (in Ref. 2; AAH04298).	regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		TGCTCAGGCAACTCAACGAGA	0.617													9	34	---	---	---	---	PASS	T	65203596	T	T	65203596	3	4	56	1	0	0	0	0	1	0	0	0	12070	40	2	5	1241	5	PLEKHG3	14	65203596	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	40541492	65203596	42145944	161	21063										
PLEKHH1	57475	broad.mit.edu	37	chr14	68042598	68042598	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agaggaagtagatcgatcctGtgactcagacgaggactatg	13	7	1	4			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr14:68042598G>T	uc001xjl.1	+	16	2370	c.2228G>T	c.(2227-2229)TGT>TTT	p.C743F	PLEKHH1_uc010tsw.1_Missense_Mutation_p.C311F|PLEKHH1_uc001xjn.1_Missense_Mutation_p.C258F|PLEKHH1_uc010tsx.1_5'Flank	NM_020715	NP_065766	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H	743	PH 2.					cytoskeleton	binding				0				all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)		GATCGATCCTGTGACTCAGAC	0.607													13	32	---	---	---	---	PASS	T	68042598	T	T	68042598	3	4	56	1	0	0	0	0	1	0	0	0	12076	1377	48	3	2286	3	PLEKHH1	14	68042598	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	2839002	68042598	39306942	162	21064										
PAPLN	89932	broad.mit.edu	37	chr14	73739301	73739301	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aggcccagctttgtggcaatGagtattactccagcttctgc	10	11	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr14:73739301G>A	uc010ttx.1	+	26	3929	c.3766G>A	c.(3766-3768)GAG>AAG	p.E1256K	PAPLN_uc001xnw.3_Missense_Mutation_p.E1229K|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.E1240K|PAPLN_uc010arm.2_Missense_Mutation_p.E455K|PAPLN_uc010arn.2_3'UTR	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	1256	PLAC.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		TTGTGGCAATGAGTATTACTC	0.602													97	110	---	---	---	---	PASS	A	73739301	A	A	73739301	3	1	56	1	0	0	0	0	1	0	0	0	11428	1291	45	2	3783	2	PAPLN	14	73739301	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	5696703	73739301	33610239	163	21065										
FLRT2	23768	broad.mit.edu	37	chr14	86088141	86088141	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agtcggtgcacacggtctacCtgtatggcaaccaactggac	11	12	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr14:86088141C>T	uc001xvr.2	+	2	1050	c.283C>T	c.(283-285)CTG>TTG	p.L95L	FLRT2_uc010atd.2_Silent_p.L95L	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	95	Extracellular (Potential).|LRR 2.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		CACGGTCTACCTGTATGGCAA	0.478													28	102	---	---	---	---	PASS	T	86088141	T	T	86088141	2	4	56	1	0	0	0	0	0	0	0	1	5939	680	24	3		3	FLRT2	14	86088141	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	12348840	86088141	21261399	164	21066										
ATG2B	55102	broad.mit.edu	37	chr14	96772007	96772007	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gccagacaagagagacctccTtcaccacatagcgaatcaca	7	14	2	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr14:96772007T>G	uc001yfi.2	-	31	5017	c.4652A>C	c.(4651-4653)AAG>ACG	p.K1551T		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1551										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)		AGAGACCTCCTTCACCACATA	0.408													15	47	---	---	---	---	PASS	G	96772007	G	G	96772007	3	3	56	1	0	0	0	0	1	0	0	0	1094	1609	56	5	1632	5	ATG2B	14	96772007	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	10683866	96772007	10577533	165	21067										
INF2	64423	broad.mit.edu	37	chr14	105167956	105167956	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ggaggcgctggcgcggctgtCgggccgcggcgttgcacgta	20	12	0	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr14:105167956C>T	uc001ypb.2	+	2	397	c.254C>T	c.(253-255)TCG>TTG	p.S85L	INF2_uc010tyi.1_Missense_Mutation_p.S85L|INF2_uc001ypc.2_Missense_Mutation_p.S85L|INF2_uc001yoy.3_Missense_Mutation_p.S85L|INF2_uc001ypa.2_Missense_Mutation_p.S85L	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	85	GBD/FH3.				actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)		GCGCGGCTGTCGGGCCGCGGC	0.706													11	17	---	---	---	---	PASS	T	105167956	T	T	105167956	3	4	56	1	0	0	0	0	1	0	0	0	7734	893	31	2	256	2	INF2	14	105167956	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	8395949	105167956	2181584	166	21068										
ATP10A	57194	broad.mit.edu	37	chr15	25959015	25959015	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctgacacttggtcgtgcagcCgctccacaagcacgcagttg	11	14	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr15:25959015C>T	uc010ayu.2	-	10	2256	c.2150G>A	c.(2149-2151)CGG>CAG	p.R717Q		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	717	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GTCGTGCAGCCGCTCCACAAG	0.637													45	96	---	---	---	---	PASS	T	25959015	T	T	25959015	3	4	56	1	0	0	0	0	1	0	0	0	1116	652	23	1	2397	1	ATP10A	15	25959015	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08		25959015	76572377	167	21069										
TJP1	7082	broad.mit.edu	37	chr15	30024643	30024643	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ttgaggctacttacttgcaaTttgataaatatctggttctt	7	6	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr15:30024643T>G	uc001zcr.2	-	15	2486	c.2011A>C	c.(2011-2013)ATT>CTT	p.I671L	TJP1_uc010azl.2_Missense_Mutation_p.I659L|TJP1_uc001zcq.2_Missense_Mutation_p.I675L|TJP1_uc001zcs.2_Missense_Mutation_p.I671L	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	671	Guanylate kinase-like.				cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		TTACTTGCAATTTGATAAATA	0.388													8	60	---	---	---	---	PASS	G	30024643	G	G	30024643	3	3	56	1	0	0	0	0	1	0	0	0	15926	1493	52	5	3291	5	TJP1	15	30024643	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	4065628	30024643	72506749	168	21070										
ATPBD4	89978	broad.mit.edu	37	chr15	35703062	35703062	+	Missense_Mutation	SNP	C	T	T													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gagataaggctccatttgatCcagggttttcccaagatgct							TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr15:35703062C>T	uc001zja.2	-	6	603	c.541G>A	c.(541-543)GAT>AAT	p.D181N	ATPBD4_uc001ziz.2_Missense_Mutation_p.D165N	NM_080650	NP_542381	Q7L8W6	ATBD4_HUMAN	ATP binding domain 4 isoform 1	181											0		all_epithelial(112;2.11e-09)|Lung NSC(122;2.38e-08)|all_lung(180;3.65e-07)		all cancers(64;9.9e-19)|GBM - Glioblastoma multiforme(113;2.01e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)		TCCATTTGATCCAGGGTTTTC	0.343													12	35	---	---	---	---	PASS	T	35703062	T	T	35703062	3	4	56	1	0	0	0	0	1	0	0	0	1202	855	30	2	278	2	ATPBD4	15	35703062	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	5678419	35703062	66828330	169	21071	478	2								
ATPBD4	89978	broad.mit.edu	37	chr15	35703063	35703063	+	Silent	SNP	C	A	A													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agataaggctccatttgatcCagggttttcccaagatgctt							TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr15:35703063C>A	uc001zja.2	-	6	602	c.540G>T	c.(538-540)CTG>CTT	p.L180L	ATPBD4_uc001ziz.2_Silent_p.L164L	NM_080650	NP_542381	Q7L8W6	ATBD4_HUMAN	ATP binding domain 4 isoform 1	180											0		all_epithelial(112;2.11e-09)|Lung NSC(122;2.38e-08)|all_lung(180;3.65e-07)		all cancers(64;9.9e-19)|GBM - Glioblastoma multiforme(113;2.01e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)		CCATTTGATCCAGGGTTTTCC	0.343													12	34	---	---	---	---	PASS	A	35703063	A	A	35703063	2	1	56	1	0	0	0	0	0	0	0	1	1202	581	21	3		3	ATPBD4	15	35703063	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	1	35703063	66828329	170	21072	478	2								
FAM82A2	55177	broad.mit.edu	37	chr15	41029865	41029865	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gcatcttccacagtggcactGagagggctttcaagcaaggc	12	11	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr15:41029865G>A	uc001zmo.1	-	10	1329	c.1185C>T	c.(1183-1185)CTC>CTT	p.L395L	FAM82A2_uc001zmp.1_Silent_p.L395L|FAM82A2_uc001zmq.1_Silent_p.L395L	NM_018145	NP_060615	Q96TC7	RMD3_HUMAN	family with sequence similarity 82, member A2	395					apoptosis|cell differentiation	integral to membrane|microtubule|mitochondrial membrane|nucleus|spindle pole	protein binding				0						CAGTGGCACTGAGAGGGCTTT	0.468													35	73	---	---	---	---	PASS	A	41029865	A	A	41029865	2	1	56	1	0	0	0	0	0	0	0	1	5631	1277	45	2		2	FAM82A2	15	41029865	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	5326802	41029865	61501527	171	21073										
CAPN3	825	broad.mit.edu	37	chr15	42693986	42693986	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gctaggggccagtctcttcaCcattggcttcgccatctacg	10	14	3	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr15:42693986C>G	uc001zpn.1	+	11	1808	c.1502C>G	c.(1501-1503)ACC>AGC	p.T501S	CAPN3_uc001zpk.1_Missense_Mutation_p.T274S|CAPN3_uc001zpl.1_Missense_Mutation_p.T414S|CAPN3_uc010udf.1_Missense_Mutation_p.T414S|CAPN3_uc010udg.1_Missense_Mutation_p.T366S|CAPN3_uc001zpo.1_Missense_Mutation_p.T501S|CAPN3_uc001zpp.1_Missense_Mutation_p.T453S|CAPN3_uc001zpq.1_5'Flank|CAPN3_uc010bcv.1_5'Flank|CAPN3_uc001zpr.1_5'Flank|CAPN3_uc001zps.1_5'Flank|CAPN3_uc001zpt.1_5'Flank	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	501	Domain III.				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)		AGTCTCTTCACCATTGGCTTC	0.592													14	21	---	---	---	---	PASS	G	42693986	G	G	42693986	3	3	56	1	0	0	0	0	1	0	0	0	2628	507	18	4	1596	4	CAPN3	15	42693986	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	1664121	42693986	59837406	172	21074										
CEP152	22995	broad.mit.edu	37	chr15	49081179	49081179	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tttccagagccatttcagttGttctggacttcttgatcatc	7	10	4	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr15:49081179G>C	uc001zwy.2	-	9	1026	c.992C>G	c.(991-993)ACA>AGA	p.T331R	CEP152_uc001zwz.2_Missense_Mutation_p.T331R|CEP152_uc001zxa.1_Missense_Mutation_p.T238R	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	331	Potential.				centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		CATTTCAGTTGTTCTGGACTT	0.383													33	80	---	---	---	---	PASS	C	49081179	C	C	49081179	3	2	56	1	0	0	0	0	1	0	0	0	3248	1377	48	4	4044	4	CEP152	15	49081179	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	6387193	49081179	53450213	173	21075										
DPP8	54878	broad.mit.edu	37	chr15	65790284	65790284	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ttgctatgtataaaagcaatCcagtctggatcagcagggca	10	8	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr15:65790284C>A	uc002aov.2	-	5	2259	c.681G>T	c.(679-681)TGG>TGT	p.W227C	DPP8_uc002aow.2_Missense_Mutation_p.W227C|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.W211C|DPP8_uc002aoy.2_Missense_Mutation_p.W227C|DPP8_uc002aoz.2_Missense_Mutation_p.W211C|DPP8_uc010bhj.2_Missense_Mutation_p.W227C|DPP8_uc002apa.2_Missense_Mutation_p.W124C	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	227					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						TAAAAGCAATCCAGTCTGGAT	0.403													35	41	---	---	---	---	PASS	A	65790284	A	A	65790284	3	1	56	1	0	0	0	0	1	0	0	0	4732	856	30	2	2079	2	DPP8	15	65790284	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	16709105	65790284	36741108	174	21076										
DIS3L	115752	broad.mit.edu	37	chr15	66621404	66621404	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tccatggccacgcaggccatGtcgaatgctctgtacttctc	9	14	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr15:66621404G>T	uc010ujm.1	+	13	2313	c.2298G>T	c.(2296-2298)ATG>ATT	p.M766I	DIS3L_uc002app.2_Missense_Mutation_p.M683I|DIS3L_uc010bho.2_Missense_Mutation_p.M632I	NM_001143688	NP_001137160	Q8TF46	DI3L1_HUMAN	DIS3 mitotic control homolog (S.	766					rRNA catabolic process	cytoplasm|exosome (RNase complex)	exonuclease activity|protein binding|ribonuclease activity|RNA binding			ovary(2)	2						CGCAGGCCATGTCGAATGCTC	0.517													39	75	---	---	---	---	PASS	T	66621404	T	T	66621404	3	4	56	1	0	0	0	0	1	0	0	0	4536	1377	48	3	2348	3	DIS3L	15	66621404	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	831120	66621404	35909988	175	21077										
MPI	4351	broad.mit.edu	37	chr15	75188595	75188595	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctttgccatctacttcctgaAcctgcttaccctgaagcctg	6	15	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr15:75188595A>G	uc002azc.1	+	6	778	c.773A>G	c.(772-774)AAC>AGC	p.N258S	MPI_uc010ulv.1_Missense_Mutation_p.N258S|MPI_uc010ulw.1_Missense_Mutation_p.N147S|MPI_uc002azd.1_Missense_Mutation_p.N258S|MPI_uc010ulx.1_Missense_Mutation_p.N208S|MPI_uc002aze.1_Missense_Mutation_p.N197S	NM_002435	NP_002426	P34949	MPI_HUMAN	mannose-6- phosphate isomerase	258					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	mannose-6-phosphate isomerase activity|zinc ion binding			ovary(2)	2						TACTTCCTGAACCTGCTTACC	0.547													46	117	---	---	---	---	PASS	G	75188595	G	G	75188595	3	3	56	1	0	0	0	0	1	0	0	0	9729	43	2	5	795	5	MPI	15	75188595	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	8567191	75188595	27342797	176	21078										
CHRNA3	1136	broad.mit.edu	37	chr15	78894275	78894275	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gaacaagggcaggcgccggaTgtacagcgagtatgtgatgt	16	7	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr15:78894275T>C	uc002bec.2	-	5	895	c.709A>G	c.(709-711)ATC>GTC	p.I237V	CHRNA3_uc002bea.2_RNA|CHRNA3_uc002beb.2_Missense_Mutation_p.I237V	NM_000743	NP_000734	P32297	ACHA3_HUMAN	cholinergic receptor, nicotinic, alpha 3	237	Extracellular (Potential).			I -> S (in Ref. 1; AAC84176).	activation of transmembrane receptor protein tyrosine kinase activity|behavioral response to nicotine|locomotory behavior|regulation of acetylcholine secretion|regulation of dendrite morphogenesis|regulation of excitatory postsynaptic membrane potential|regulation of smooth muscle contraction|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|dendrite|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic density|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(3)|ovary(1)	4						AGGCGCCGGATGTACAGCGAG	0.572													23	56	---	---	---	---	PASS	C	78894275	C	C	78894275	3	2	56	1	0	0	0	0	1	0	0	0	3384	1464	51	5	901	5	CHRNA3	15	78894275	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	3705680	78894275	23637117	177	21079										
CHSY1	22856	broad.mit.edu	37	chr15	101717972	101717972	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tctgagtaaaggcaaaatggTtgtcactgggaactttccca	10	8	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr15:101717972T>C	uc002bwt.1	-	4	2513	c.2030A>G	c.(2029-2031)AAC>AGC	p.N677S	CHSY1_uc010usd.1_Missense_Mutation_p.N405S	NM_014918	NP_055733	Q86X52	CHSS1_HUMAN	chondroitin sulfate synthase 1	677	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity				0	Lung NSC(78;0.00217)|all_lung(78;0.00271)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GGCAAAATGGTTGTCACTGGG	0.418													56	117	---	---	---	---	PASS	C	101717972	C	C	101717972	3	2	56	1	0	0	0	0	1	0	0	0	3412	1725	60	5	382	5	CHSY1	15	101717972	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	22823697	101717972	813420	178	21080										
IL4R	3566	broad.mit.edu	37	chr16	27374479	27374479	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ggtcccccaggagaggctggTtacaaggccttctcaagcct	12	13	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr16:27374479T>A	uc002don.2	+	11	2048	c.1806T>A	c.(1804-1806)GGT>GGA	p.G602G	IL4R_uc002dop.3_Silent_p.G587G|IL4R_uc010bxy.2_Silent_p.G602G|IL4R_uc002doo.2_Silent_p.G442G	NM_000418	NP_000409	P24394	IL4RA_HUMAN	interleukin 4 receptor alpha chain isoform a	602	Required for IL4-induced gene expression.|Cytoplasmic (Potential).				immune response|production of molecular mediator involved in inflammatory response	integral to plasma membrane	identical protein binding|interleukin-4 receptor activity|receptor signaling protein activity			ovary(1)|skin(1)	2						GAGAGGCTGGTTACAAGGCCT	0.612													20	70	---	---	---	---	PASS	A	27374479	A	A	27374479	2	1	56	1	0	0	0	0	0	0	0	1	7698	1712	60	5		5	IL4R	16	27374479	Silent	SNP	T	TCGA-33-4538-01A-01D-1267-08		27374479	62980274	179	21081										
LPCAT2	54947	broad.mit.edu	37	chr16	55608595	55608595	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tgtgattggcctggctgtctTgtgcaacccttccaacacag	10	12	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr16:55608595T>C	uc002eie.3	+	12	1449	c.1268T>C	c.(1267-1269)TTG>TCG	p.L423S	LPCAT2_uc002eic.2_Missense_Mutation_p.L153S	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	423	Lumenal (Potential).|EF-hand 1.				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						CTGGCTGTCTTGTGCAACCCT	0.468													11	34	---	---	---	---	PASS	C	55608595	C	C	55608595	3	2	56	1	0	0	0	0	1	0	0	0	8911	1821	63	5	1314	5	LPCAT2	16	55608595	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	28234116	55608595	34746158	180	21082										
CCDC135	84229	broad.mit.edu	37	chr16	57760055	57760055	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cagagcgcgtgtttctggtcGcggaggagcgcatccagctg	16	11	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr16:57760055G>A	uc002emi.2	+	13	1923	c.1834G>A	c.(1834-1836)GCG>ACG	p.A612T	CCDC135_uc002emj.2_Missense_Mutation_p.A612T|CCDC135_uc002emk.2_Missense_Mutation_p.A547T	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	612						cytoplasm				central_nervous_system(1)	1						GTTTCTGGTCGCGGAGGAGCG	0.632													22	77	---	---	---	---	PASS	A	57760055	A	A	57760055	3	1	56	1	0	0	0	0	1	0	0	0	2769	1087	38	1	1880	1	CCDC135	16	57760055	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	2151460	57760055	32594698	181	21083										
AARS	16	broad.mit.edu	37	chr16	70302213	70302213	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tccactaacgtagcaaagaaGcccctgctggcattgagctt	9	12	0	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr16:70302213G>C	uc002eyn.1	-	8	1142	c.1032C>G	c.(1030-1032)GGC>GGG	p.G344G	AARS_uc010vlu.1_Silent_p.G174G	NM_001605	NP_001596	P49588	SYAC_HUMAN	alanyl-tRNA synthetase	344					alanyl-tRNA aminoacylation|tRNA processing	cytosol|soluble fraction	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			pancreas(1)	1		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)	L-Alanine(DB00160)	TAGCAAAGAAGCCCCTGCTGG	0.498													25	76	---	---	---	---	PASS	C	70302213	C	C	70302213	2	2	56	1	0	0	0	0	0	0	0	1	19	958	34	4		4	AARS	16	70302213	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	12542158	70302213	20052540	182	21084										
CHST6	4166	broad.mit.edu	37	chr16	75512961	75512961	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gggtggcggcttgagtgtggCggcctcggcgatgcgtacgt	20	9	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr16:75512961C>T	uc002fef.2	-	3	946	c.766G>A	c.(766-768)GCC>ACC	p.A256T	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Missense_Mutation_p.A256T	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	256	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						TTGAGTGTGGCGGCCTCGGCG	0.721													43	44	---	---	---	---	PASS	T	75512961	T	T	75512961	3	4	56	1	0	0	0	0	1	0	0	0	3408	768	27	1	425	1	CHST6	16	75512961	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	5210748	75512961	14841792	183	21085										
TP53	7157	broad.mit.edu	37	chr17	7578208	7578208	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	catagggcaccaccacactaTgtcgaaaagtgtttctgtca	8	11	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:7578208T>C	uc002gim.2	-	6	835	c.641A>G	c.(640-642)CAT>CGT	p.H214R	TP53_uc002gig.1_Missense_Mutation_p.H214R|TP53_uc002gih.2_Missense_Mutation_p.H214R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H82R|TP53_uc010cng.1_Missense_Mutation_p.H82R|TP53_uc002gii.1_Missense_Mutation_p.H82R|TP53_uc010cnh.1_Missense_Mutation_p.H214R|TP53_uc010cni.1_Missense_Mutation_p.H214R|TP53_uc002gij.2_Missense_Mutation_p.H214R|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.H121R|TP53_uc002gio.2_Missense_Mutation_p.H82R|TP53_uc010vug.1_Missense_Mutation_p.H175R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	214	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		H -> Y (in sporadic cancers; somatic mutation).|H -> D (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> P (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H214R(45)|p.0?(7)|p.H214Y(4)|p.H214Q(4)|p.H214D(3)|p.H214fs*5(2)|p.H214fs*33(2)|p.D208fs*1(1)|p.K164_P219del(1)|p.H214H(1)|p.H214fs*7(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213fs*32(1)|p.T211_S215delTFRHS(1)|p.H214_S215insX(1)|p.R209fs*6(1)|p.D208_V216delDRNTFRHSV(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)		CACCACACTATGTCGAAAAGT	0.542		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)			57	20	---	---	---	---	PASS	C	7578208	C	C	7578208	3	2	56	1	0	0	0	0	1	0	0	0	16378	1464	51	5	653	5	TP53	17	7578208	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08		7578208	73617002	184	21086										
KDM6B	23135	broad.mit.edu	37	chr17	7751014	7751014	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctggaccttcctcaccccctCcacccccctgtccccgcctc	4	26	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:7751014C>G	uc002giw.1	+	11	1784	c.1408C>G	c.(1408-1410)CCA>GCA	p.P470A	KDM6B_uc002gix.2_5'UTR	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	470	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						ctcaccccctccacccccctg	0.333													4	7	---	---	---	---	PASS	G	7751014	G	G	7751014	3	3	56	1	0	0	0	0	1	0	0	0	8138	855	30	2	1438	2	KDM6B	17	7751014	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	172806	7751014	73444196	185	21087										
SREBF1	6720	broad.mit.edu	37	chr17	17722421	17722421	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	caatggcgttgtgggctgtgCgcttctctccacggctctgg	14	12	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:17722421C>A	uc002gru.1	-	5	1168	c.974G>T	c.(973-975)CGC>CTC	p.R325L	SREBF1_uc002grp.1_5'Flank|SREBF1_uc002grq.1_5'UTR|SREBF1_uc002grr.1_Missense_Mutation_p.R71L|SREBF1_uc002grs.1_Missense_Mutation_p.R301L|SREBF1_uc002grt.1_Missense_Mutation_p.R355L|SREBF1_uc010cpp.1_Missense_Mutation_p.R301L|SREBF1_uc010cpq.1_Missense_Mutation_p.R325L	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	325	Cytoplasmic (Potential).|Basic motif.|Interaction with LMNA (By similarity).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						GTGGGCTGTGCGCTTCTCTCC	0.597													29	166	---	---	---	---	PASS	A	17722421	A	A	17722421	3	1	56	1	0	0	0	0	1	0	0	0	15140	768	27	1	2529	1	SREBF1	17	17722421	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	9971407	17722421	63472789	186	21088										
RAB34	83871	broad.mit.edu	37	chr17	27043983	27043983	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cgggggtggaagtctttgtgCccgtgcaaagcggcctcctt	15	11	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:27043983C>T	uc002hce.2	-	2	708	c.84G>A	c.(82-84)GGG>GGA	p.G28G	RAB34_uc002hcg.2_Silent_p.G28G|RAB34_uc002hcf.2_Silent_p.G28G|RAB34_uc010was.1_Silent_p.G85G|RAB34_uc010wat.1_Silent_p.G85G|RAB34_uc002hch.2_Silent_p.G28G|RAB34_uc010wau.1_Silent_p.G28G|RAB34_uc010wav.1_Silent_p.G85G	NM_031934	NP_114140	Q9BZG1	RAB34_HUMAN	Ras-related protein RAB34 isoform 1	28					protein transport|small GTPase mediated signal transduction	Golgi apparatus	GTP binding				0	Lung NSC(42;0.00431)					AGTCTTTGTGCCCGTGCAAAG	0.637													5	230	---	---	---	---	PASS	T	27043983	T	T	27043983	2	4	56	1	0	0	0	0	0	0	0	1	12924	726	26	3		3	RAB34	17	27043983	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	9321562	27043983	54151227	187	21089										
MED1	5469	broad.mit.edu	37	chr17	37565861	37565861	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aaaccactttggctctggctGttcaataaatcaggattgaa	8	8	3	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:37565861G>A	uc002hrv.3	-	17	2825	c.2613C>T	c.(2611-2613)AAC>AAT	p.N871N	MED1_uc010wee.1_Silent_p.N699N|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	871	Interaction with ESR1.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		GGCTCTGGCTGTTCAATAAAT	0.398										HNSCC(31;0.082)			26	89	---	---	---	---	PASS	A	37565861	A	A	37565861	2	1	56	1	0	0	0	0	0	0	0	1	9425	1368	48	3		3	MED1	17	37565861	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	10521878	37565861	43629349	188	21090										
CCDC43	124808	broad.mit.edu	37	chr17	42761315	42761315	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctccttgcagatattaaggaGggaatcttcttcctagttgg	10	8	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:42761315G>A	uc002ihc.2	-	2	261	c.217C>T	c.(217-219)CTC>TTC	p.L73F	CCDC43_uc010czw.1_Missense_Mutation_p.L73F	NM_144609	NP_653210	Q96MW1	CCD43_HUMAN	coiled-coil domain containing 43 isoform 1	73											0		Prostate(33;0.0322)				ATATTAAGGAGGGAATCTTCT	0.393													11	23	---	---	---	---	PASS	A	42761315	A	A	42761315	3	1	56	1	0	0	0	0	1	0	0	0	2815	1000	35	3	473	3	CCDC43	17	42761315	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	5195454	42761315	38433895	189	21091										
KIAA1267	284058	broad.mit.edu	37	chr17	44249081	44249081	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ggcagagctgtctgaccactCgtattcatggttctaagatt	10	9	3	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:44249081C>A	uc002ikb.2	-	1	514	c.429G>T	c.(427-429)ACG>ACT	p.T143T	KIAA1267_uc002ikc.2_Silent_p.T143T|KIAA1267_uc002ikd.2_Silent_p.T143T|KIAA1267_uc010dav.2_Silent_p.T143T	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	143						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				TCTGACCACTCGTATTCATGG	0.438													5	439	---	---	---	---	PASS	A	44249081	A	A	44249081	2	1	56	1	0	0	0	0	0	0	0	1	8219	871	31	2		2	KIAA1267	17	44249081	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	1487766	44249081	36946129	190	21092										
SPAG9	9043	broad.mit.edu	37	chr17	49197943	49197943	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tagatggagccggccaggccGgacacccgctccgacatcac	12	16	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:49197943G>A	uc002itc.2	-	1	284	c.75C>T	c.(73-75)TCC>TCT	p.S25S	SPAG9_uc002itb.2_Silent_p.S25S|SPAG9_uc002itd.2_Silent_p.S25S	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	25					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			CGGCCAGGCCGGACACCCGCT	0.627													9	17	---	---	---	---	PASS	A	49197943	A	A	49197943	2	1	56	1	0	0	0	0	0	0	0	1	14985	1103	39	1		1	SPAG9	17	49197943	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	4948862	49197943	31997267	191	21093										
KCNH6	81033	broad.mit.edu	37	chr17	61619602	61619602	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cccacccctctggctggcagGaaagaatgacatctttgggg	12	12	2	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:61619602G>A	uc002jay.2	+	9	2035	c.1955G>A	c.(1954-1956)GGA>GAA	p.G652E	KCNH6_uc010wpl.1_Missense_Mutation_p.G529E|KCNH6_uc010wpm.1_Missense_Mutation_p.G652E|KCNH6_uc002jaz.1_Missense_Mutation_p.G599E	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	652	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	TGGCTGGCAGGAAAGAATGAC	0.587													16	40	---	---	---	---	PASS	A	61619602	A	A	61619602	3	1	56	1	0	0	0	0	1	0	0	0	8036	1188	41	2	1989	2	KCNH6	17	61619602	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	12421659	61619602	19575608	192	21094										
ABCA8	10351	broad.mit.edu	37	chr17	66914254	66914254	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cacgcggtctgttttgcgttCtttcagaaggttccatactt	9	10	3	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:66914254C>A	uc002jhp.2	-	14	2040	c.1861G>T	c.(1861-1863)GAA>TAA	p.E621*	ABCA8_uc002jhq.2_Nonsense_Mutation_p.E661*|ABCA8_uc010wqq.1_Nonsense_Mutation_p.E661*|ABCA8_uc010wqr.1_Nonsense_Mutation_p.E600*|ABCA8_uc002jhr.2_Nonsense_Mutation_p.E661*	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	621	ABC transporter 1.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					GTTTTGCGTTCTTTCAGAAGG	0.463													11	43	---	---	---	---	PASS	A	66914254	A	A	66914254	4	1	56	1	0	0	0	0	0	1	0	0	38	922	32	2	2984	2	ABCA8	17	66914254	Nonsense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	5294652	66914254	14280956	193	21095										
P4HB	5034	broad.mit.edu	37	chr17	79801949	79801949	+	Missense_Mutation	SNP	T	G	G													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ccatgtctggctcctctgctTcttccaggtcctcgagatcc					rs148124283		TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:79801949T>G	uc002kbn.1	-	11	1663	c.1466A>C	c.(1465-1467)GAA>GCA	p.E489A	P4HB_uc002kbl.1_Missense_Mutation_p.E166A|P4HB_uc002kbm.1_Missense_Mutation_p.E166A	NM_000918	NP_000909	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta subunit precursor	489					cell redox homeostasis|glycerol ether metabolic process|lipid metabolic process|lipoprotein metabolic process|peptidyl-proline hydroxylation to 4-hydroxy-L-proline	cell surface|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|extracellular region|melanosome|plasma membrane	electron carrier activity|procollagen-proline 4-dioxygenase activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			CTCCTCTGCTTCTTCCAGGTC	0.612													79	279	---	---	---	---	PASS	G	79801949	G	G	79801949	3	3	56	1	0	0	0	0	1	0	0	0	11359	1783	62	5	64	5	P4HB	17	79801949	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	12887695	79801949	1393261	194	21096	479	2								
P4HB	5034	broad.mit.edu	37	chr17	79801950	79801950	+	Nonsense_Mutation	SNP	C	A	A													0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	catgtctggctcctctgcttCttccaggtcctcgagatcct							TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:79801950C>A	uc002kbn.1	-	11	1662	c.1465G>T	c.(1465-1467)GAA>TAA	p.E489*	P4HB_uc002kbl.1_Nonsense_Mutation_p.E166*|P4HB_uc002kbm.1_Nonsense_Mutation_p.E166*	NM_000918	NP_000909	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta subunit precursor	489					cell redox homeostasis|glycerol ether metabolic process|lipid metabolic process|lipoprotein metabolic process|peptidyl-proline hydroxylation to 4-hydroxy-L-proline	cell surface|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|extracellular region|melanosome|plasma membrane	electron carrier activity|procollagen-proline 4-dioxygenase activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			TCCTCTGCTTCTTCCAGGTCC	0.607													80	278	---	---	---	---	PASS	A	79801950	A	A	79801950	4	1	56	1	0	0	0	0	0	1	0	0	11359	922	32	2	65	2	P4HB	17	79801950	Nonsense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	1	79801950	1393260	195	21097	479	2								
P4HB	5034	broad.mit.edu	37	chr17	79803533	79803533	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gtcgagtccatcttggcgatGacgatgttctcatggtcctt	11	10	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr17:79803533G>C	uc002kbn.1	-	9	1460	c.1263C>G	c.(1261-1263)GTC>GTG	p.V421V	P4HB_uc002kbl.1_Silent_p.V98V|P4HB_uc002kbm.1_Silent_p.V98V	NM_000918	NP_000909	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta subunit precursor	421	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|lipid metabolic process|lipoprotein metabolic process|peptidyl-proline hydroxylation to 4-hydroxy-L-proline	cell surface|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|extracellular region|melanosome|plasma membrane	electron carrier activity|procollagen-proline 4-dioxygenase activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			TCTTGGCGATGACGATGTTCT	0.542													9	30	---	---	---	---	PASS	C	79803533	C	C	79803533	2	2	56	1	0	0	0	0	0	0	0	1	11359	1277	45	2		2	P4HB	17	79803533	Silent	SNP	G	TCGA-33-4538-01A-01D-1267-08	1583	79803533	1391677	196	21098										
APCDD1	147495	broad.mit.edu	37	chr18	10487807	10487807	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gggcgctatctgctgttcaaCggtcagaggcccagcgacgg	15	12	3	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr18:10487807C>T	uc002kom.3	+	5	1671	c.1317C>T	c.(1315-1317)AAC>AAT	p.N439N		NM_153000	NP_694545	Q8J025	APCD1_HUMAN	adenomatosis polyposis coli down-regulated 1	439	Extracellular (Potential).				hair follicle development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to plasma membrane	Wnt-protein binding				0				READ - Rectum adenocarcinoma(15;0.08)		TGCTGTTCAACGGTCAGAGGC	0.607													14	127	---	---	---	---	PASS	T	10487807	T	T	10487807	2	4	56	1	0	0	0	0	0	0	0	1	765	535	19	1		1	APCDD1	18	10487807	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08		10487807	67589441	197	21099										
CHST9	83539	broad.mit.edu	37	chr18	24496806	24496806	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tcttcaaatgcttcccgtagTggacagcattgtgggagatg	12	8	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr18:24496806T>A	uc002kwd.2	-	5	947	c.749A>T	c.(748-750)CAC>CTC	p.H250L	C18orf16_uc002kwb.2_Intron|C18orf16_uc010xbm.1_Intron|CHST9_uc002kwc.2_Missense_Mutation_p.H165L|CHST9_uc002kwe.2_Missense_Mutation_p.H250L	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	250	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					CTTCCCGTAGTGGACAGCATT	0.428													26	28	---	---	---	---	PASS	A	24496806	A	A	24496806	3	1	56	1	0	0	0	0	1	0	0	0	3411	1696	59	5	586	5	CHST9	18	24496806	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	14008999	24496806	53580442	198	21100										
ARID3A	1820	broad.mit.edu	37	chr19	960131	960131	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	accccaagaggaaggaattcCtggatgacttgttcagcttc	10	10	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:960131C>G	uc002lql.2	+	4	1023	c.733C>G	c.(733-735)CTG>GTG	p.L245V		NM_005224	NP_005215	Q99856	ARI3A_HUMAN	AT rich interactive domain 3A (BRIGHT- like)	245	ARID.					cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAAGGAATTCCTGGATGACTT	0.597													39	68	---	---	---	---	PASS	G	960131	G	G	960131	3	3	56	1	0	0	0	0	1	0	0	0	916	680	24	4	743	4	ARID3A	19	960131	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08		960131	58168852	199	21101										
ANKRD24	170961	broad.mit.edu	37	chr19	4219654	4219654	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aggcacagctggccacagcaGagcagcagctacgggggcta	15	12	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:4219654G>A	uc010dtt.1	+	19	3346	c.3070G>A	c.(3070-3072)GAG>AAG	p.E1024K		NM_133475	NP_597732	Q8TF21	ANR24_HUMAN	ankyrin repeat domain 24	1024	Potential.										0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)		GGCCACAGCAGAGCAGCAGCT	0.652													70	138	---	---	---	---	PASS	A	4219654	A	A	4219654	3	1	56	1	0	0	0	0	1	0	0	0	653	943	33	2	3140	2	ANKRD24	19	4219654	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	3259523	4219654	54909329	200	21102										
INSR	3643	broad.mit.edu	37	chr19	7163054	7163054	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tgcactcacctttgaggcaaTaatccagctcgaacagctca	7	13	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:7163054T>C	uc002mgd.1	-	9	2127	c.2018A>G	c.(2017-2019)TAT>TGT	p.Y673C	INSR_uc002mge.1_Missense_Mutation_p.Y673C|INSR_uc002mgf.2_Missense_Mutation_p.Y673C	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	673	Fibronectin type-III 1.				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TTTGAGGCAATAATCCAGCTC	0.547													27	145	---	---	---	---	PASS	C	7163054	C	C	7163054	3	2	56	1	0	0	0	0	1	0	0	0	7773	1406	49	5	2186	5	INSR	19	7163054	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	2943400	7163054	51965929	201	21103										
KEAP1	9817	broad.mit.edu	37	chr19	10602649	10602649	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tcacctgcgtgggcttgtgcAgggtgagctcctcgaagatc	14	11	1	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:10602649A>G	uc002moq.1	-	3	1085	c.929T>C	c.(928-930)CTG>CCG	p.L310P	KEAP1_uc002mop.1_Missense_Mutation_p.L28P|KEAP1_uc002mor.1_Missense_Mutation_p.L310P	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	310	Nuclear export signal.			L->A: Loss of export from nucleus; when associated with A-308.	regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			GGGCTTGTGCAGGGTGAGCTC	0.637													47	79	---	---	---	---	PASS	G	10602649	G	G	10602649	3	3	56	1	0	0	0	0	1	0	0	0	8141	188	7	5	961	5	KEAP1	19	10602649	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	3439595	10602649	48526334	202	21104										
DNAJB1	3337	broad.mit.edu	37	chr19	14627679	14627679	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gcccatagggaagccagagaAtgggtcatcaatgtccatgc	12	10	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:14627679A>C	uc002myz.1	-	2	431	c.391T>G	c.(391-393)TTC>GTC	p.F131V	DNAJB1_uc010xnr.1_Missense_Mutation_p.F31V	NM_006145	NP_006136	P25685	DNJB1_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 1	131					chaperone cofactor-dependent protein refolding|response to unfolded protein	cytoplasm|nucleolus	heat shock protein binding|unfolded protein binding				0				GBM - Glioblastoma multiforme(1328;0.0476)		AAGCCAGAGAATGGGTCATCA	0.567													94	128	---	---	---	---	PASS	C	14627679	C	C	14627679	3	2	56	1	0	0	0	0	1	0	0	0	4615	101	4	5	639	5	DNAJB1	19	14627679	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	4025030	14627679	44501304	203	21105										
ARRDC2	27106	broad.mit.edu	37	chr19	18119344	18119344	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	acggcttacacgcagagctaCagtgaacgcgtggaggtcgt	14	10	0	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:18119344C>T	uc002nhv.2	+	1	368	c.225C>T	c.(223-225)TAC>TAT	p.Y75Y	ARRDC2_uc002nhu.2_Intron	NM_015683	NP_056498	Q8TBH0	ARRD2_HUMAN	arrestin domain containing 2 isoform 1	75										pancreas(1)	1						CGCAGAGCTACAGTGAACGCG	0.711													9	19	---	---	---	---	PASS	T	18119344	T	T	18119344	2	4	56	1	0	0	0	0	0	0	0	1	983	489	17	3		3	ARRDC2	19	18119344	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	3491665	18119344	41009639	204	21106										
ZNF91	7644	broad.mit.edu	37	chr19	23556594	23556594	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tcatattccagggctcttttCcttgctccagataagtaatc	6	11	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:23556594C>T	uc002nre.2	-	3	316	c.203G>A	c.(202-204)GGA>GAA	p.G68E	ZNF91_uc010xrj.1_Intron	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	68	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				GGGCTCTTTTCCTTGCTCCAG	0.433													19	74	---	---	---	---	PASS	T	23556594	T	T	23556594	3	4	56	1	0	0	0	0	1	0	0	0	18197	855	30	2	3380	2	ZNF91	19	23556594	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	5437250	23556594	35572389	205	21107										
SPTBN4	57731	broad.mit.edu	37	chr19	41040049	41040049	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tccgtgcggaagaagctgggCgagatccgccagtgctgggc	17	11	0	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:41040049C>T	uc002ony.2	+	20	4244	c.4158C>T	c.(4156-4158)GGC>GGT	p.G1386G	SPTBN4_uc002onx.2_Silent_p.G1386G|SPTBN4_uc002onz.2_Silent_p.G1386G|SPTBN4_uc010egx.2_Silent_p.G129G|SPTBN4_uc010egy.1_Silent_p.G62G|SPTBN4_uc002ooa.2_Silent_p.G62G|SPTBN4_uc010egz.1_Silent_p.G62G	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1386	Spectrin 11.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AGAAGCTGGGCGAGATCCGCC	0.637													8	12	---	---	---	---	PASS	T	41040049	T	T	41040049	2	4	56	1	0	0	0	0	0	0	0	1	15120	755	27	1		1	SPTBN4	19	41040049	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	17483455	41040049	18088934	206	21108										
CYP2B6	1555	broad.mit.edu	37	chr19	41512931	41512931	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ctgaagatgctgaacttgttCtaccagactttttcactcat	6	10	3	4			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:41512931C>G	uc002opr.1	+	4	613	c.606C>G	c.(604-606)TTC>TTG	p.F202L	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Intron	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	202					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	TGAACTTGTTCTACCAGACTT	0.512													38	86	---	---	---	---	PASS	G	41512931	G	G	41512931	3	3	56	1	0	0	0	0	1	0	0	0	4164	912	32	2	620	2	CYP2B6	19	41512931	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	472882	41512931	17616052	207	21109										
PRKD2	25865	broad.mit.edu	37	chr19	47207510	47207510	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gggccgtgtatagctgtggaTgaggaaggtgtgcggcacct	18	7	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:47207510T>C	uc002pfh.2	-	6	1147	c.805A>G	c.(805-807)ATC>GTC	p.I269V	PRKD2_uc002pfg.2_Missense_Mutation_p.I112V|PRKD2_uc002pfi.2_Missense_Mutation_p.I269V|PRKD2_uc002pfj.2_Missense_Mutation_p.I269V|PRKD2_uc010xye.1_Missense_Mutation_p.I269V|PRKD2_uc002pfk.2_Missense_Mutation_p.I112V	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	269	Phorbol-ester/DAG-type 2.				cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		TAGCTGTGGATGAGGAAGGTG	0.582											OREG0025578	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	86	---	---	---	---	PASS	C	47207510	C	C	47207510	3	2	56	1	0	0	0	0	1	0	0	0	12519	1464	51	5	1887	5	PRKD2	19	47207510	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	5694579	47207510	11921473	208	21110										
PPP1R15A	23645	broad.mit.edu	37	chr19	49378889	49378889	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	aggtgcgcttctccgagaagGtcactgtccatttcctggct	11	12	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:49378889G>A	uc002pky.3	+	3	1953	c.1684G>A	c.(1684-1686)GTC>ATC	p.V562I		NM_014330	NP_055145	O75807	PR15A_HUMAN	protein phosphatase 1, regulatory subunit 15A	562	Interaction with SMARCB1.				apoptosis|cell cycle arrest|regulation of translation|response to DNA damage stimulus	endoplasmic reticulum	protein binding			lung(1)	1		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000244)|all cancers(93;0.000694)|GBM - Glioblastoma multiforme(486;0.0222)|Epithelial(262;0.033)		CTCCGAGAAGGTCACTGTCCA	0.687													62	59	---	---	---	---	PASS	A	49378889	A	A	49378889	3	1	56	1	0	0	0	0	1	0	0	0	12363	1261	44	3	1690	3	PPP1R15A	19	49378889	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	2171379	49378889	9750094	209	21111										
SHANK1	50944	broad.mit.edu	37	chr19	51165736	51165736	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cccggcggagcagagggggcCgcatctcgaactccacgccc	14	17	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:51165736C>T	uc002psx.1	-	23	5991	c.5972G>A	c.(5971-5973)CGG>CAG	p.R1991Q	SHANK1_uc002psw.1_Missense_Mutation_p.R1375Q	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1991					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		CAGAGGGGGCCGCATCTCGAA	0.741													5	3	---	---	---	---	PASS	T	51165736	T	T	51165736	3	4	56	1	0	0	0	0	1	0	0	0	14264	652	23	1	517	1	SHANK1	19	51165736	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	1786847	51165736	7963247	210	21112										
ZNF616	90317	broad.mit.edu	37	chr19	52633754	52633754	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tgagtaaagtatcactctacCtgagtagccatcactgactc	7	11	3	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr19:52633754C>T	uc002pym.2	-	2	295	c.12G>A	c.(10-12)CAG>CAA	p.Q4Q	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	4					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		ATCACTCTACCTGAGTAGCCA	0.413													47	30	---	---	---	---	PASS	T	52633754	T	T	52633754	2	4	56	1	0	0	0	0	0	0	0	1	18038	695	24	3		3	ZNF616	19	52633754	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	1468018	52633754	6495229	211	21113										
C20orf96	140680	broad.mit.edu	37	chr20	259859	259859	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gggcccgcacgtgcagggtcGtgctgttctccatctcctgg	14	14	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr20:259859G>A	uc002wde.1	-	5	558	c.419C>T	c.(418-420)ACG>ATG	p.T140M	C20orf96_uc002wdc.2_Missense_Mutation_p.T87M|C20orf96_uc002wdd.2_Missense_Mutation_p.T105M|C20orf96_uc010zpi.1_Missense_Mutation_p.T87M|C20orf96_uc010zpj.1_Missense_Mutation_p.T105M|C20orf96_uc010zpk.1_Missense_Mutation_p.T78M	NM_153269	NP_695001	Q9NUD7	CT096_HUMAN	hypothetical protein LOC140680	140	Potential.										0		all_cancers(10;0.00959)|Lung NSC(37;0.227)	OV - Ovarian serous cystadenocarcinoma(29;0.149)			GTGCAGGGTCGTGCTGTTCTC	0.567													31	55	---	---	---	---	PASS	A	259859	A	A	259859	3	1	56	1	0	0	0	0	1	0	0	0	2122	1145	40	1	700	1	C20orf96	20	259859	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08		259859	62765661	212	21114										
CDS2	8760	broad.mit.edu	37	chr20	5157335	5157335	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tgtttccatgagataatcacTattggctacaacgtctacca	6	10	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr20:5157335T>A	uc002wls.2	+	4	590	c.333T>A	c.(331-333)ACT>ACA	p.T111T	CDS2_uc002wlr.1_Silent_p.T33T|CDS2_uc010zqt.1_RNA|CDS2_uc002wlu.2_Silent_p.T56T|CDS2_uc010zqu.1_Intron|CDS2_uc002wlv.2_Silent_p.T13T|CDS2_uc010zqv.1_5'Flank	NM_003818	NP_003809	O95674	CDS2_HUMAN	phosphatidate cytidylyltransferase 2	111					phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphatidate cytidylyltransferase activity				0						AGATAATCACTATTGGCTACA	0.453													8	131	---	---	---	---	PASS	A	5157335	A	A	5157335	2	1	56	1	0	0	0	0	0	0	0	1	3178	1509	53	5		5	CDS2	20	5157335	Silent	SNP	T	TCGA-33-4538-01A-01D-1267-08	4897476	5157335	57868185	213	21115										
EMILIN3	90187	broad.mit.edu	37	chr20	39990911	39990911	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ccagaccctcaagcagcccgTccacacctccctcgagcatg	7	20	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr20:39990911T>C	uc002xjy.1	-	4	1522	c.1298A>G	c.(1297-1299)GAC>GGC	p.D433G		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	433						proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				AAGCAGCCCGTCCACACCTCC	0.667													85	184	---	---	---	---	PASS	C	39990911	C	C	39990911	3	2	56	1	0	0	0	0	1	0	0	0	5095	1667	58	5	1006	5	EMILIN3	20	39990911	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	34833576	39990911	23034609	214	21116										
GNAS	2778	broad.mit.edu	37	chr20	57428683	57428683	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	tggcctacactggagcagccTggattccccagtggggtcca	13	13	0	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr20:57428683T>G	uc002xzw.2	+	1	648	c.363T>G	c.(361-363)CCT>CCG	p.P121P	GNASAS_uc002xzs.1_5'Flank|GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			TGGAGCAGCCTGGATTCCCCA	0.632			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			33	56	---	---	---	---	PASS	G	57428683	G	G	57428683	2	3	56	1	0	0	0	0	0	0	0	1	6510	1580	55	5		5	GNAS	20	57428683	Silent	SNP	T	TCGA-33-4538-01A-01D-1267-08	17437772	57428683	5596837	215	21117										
POTED	317754	broad.mit.edu	37	chr21	14982968	14982968	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	ccacatccgtcgagaagatcTggacaagctccacagagctg	10	13	1	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr21:14982968T>A	uc002yjb.1	+	1	471	c.419T>A	c.(418-420)CTG>CAG	p.L140Q		NM_174981	NP_778146	Q86YR6	POTED_HUMAN	pote protein	140						plasma membrane				ovary(3)|skin(3)	6						CGAGAAGATCTGGACAAGCTC	0.582													72	30	---	---	---	---	PASS	A	14982968	A	A	14982968	3	1	56	1	0	0	0	0	1	0	0	0	12263	1580	55	5	421	5	POTED	21	14982968	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08		14982968	33146927	216	21118										
KRTAP19-3	337970	broad.mit.edu	37	chr21	31864238	31864238	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	caccaaagcctccacagccaTagcccaggcctccatagtag	7	17	0	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr21:31864238T>C	uc002yog.1	-	1	38	c.38A>G	c.(37-39)TAT>TGT	p.Y13C		NM_181609	NP_853640	Q7Z4W3	KR193_HUMAN	keratin associated protein 19-3	13						intermediate filament					0						TCCACAGCCATAGCCCAGGCC	0.557													55	36	---	---	---	---	PASS	C	31864238	C	C	31864238	3	2	56	1	0	0	0	0	1	0	0	0	8530	1406	49	5	211	5	KRTAP19-3	21	31864238	Missense_Mutation	SNP	T	TCGA-33-4538-01A-01D-1267-08	16881270	31864238	16265657	217	21119										
COL6A2	1292	broad.mit.edu	37	chr21	47541030	47541030	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gggagctcttggggagcccgGaaagcaggtcagtgtcagtg	18	8	3	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr21:47541030G>C	uc002zia.1	+	17	1533	c.1451G>C	c.(1450-1452)GGA>GCA	p.G484A	COL6A2_uc002zhy.1_Missense_Mutation_p.G484A|COL6A2_uc002zhz.1_Missense_Mutation_p.G484A|COL6A2_uc002zib.1_Intron	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	484	Triple-helical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GGGGAGCCCGGAAAGCAGGTC	0.642													20	49	---	---	---	---	PASS	C	47541030	C	C	47541030	3	2	56	1	0	0	0	0	1	0	0	0	3700	1174	41	2	1513	2	COL6A2	21	47541030	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	15676792	47541030	588865	218	21120										
SLC5A1	6523	broad.mit.edu	37	chr22	32506172	32506172	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	catcatcctggtgaccgtggCtgtcttttgccatgcatatt	9	11	2	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr22:32506172C>A	uc003amc.2	+	15	2199	c.1967C>A	c.(1966-1968)GCT>GAT	p.A656D	SLC5A1_uc011alz.1_Missense_Mutation_p.A529D	NM_000343	NP_000334	P13866	SC5A1_HUMAN	solute carrier family 5 (sodium/glucose	656	Helical; (Potential).				carbohydrate metabolic process	integral to plasma membrane	glucose:sodium symporter activity|protein binding			skin(1)	1						GTGACCGTGGCTGTCTTTTGC	0.483													13	79	---	---	---	---	PASS	A	32506172	A	A	32506172	3	1	56	1	0	0	0	0	1	0	0	0	14661	797	28	3	2025	3	SLC5A1	22	32506172	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08		32506172	18798394	219	21121										
MOV10L1	54456	broad.mit.edu	37	chr22	50555692	50555692	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gggaggagtcactaattgctGcgcgcgaaccattttcttgg	13	9	2	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chr22:50555692G>T	uc003bjj.2	+	9	1449	c.1366G>T	c.(1366-1368)GCG>TCG	p.A456S	MOV10L1_uc003bjk.3_Missense_Mutation_p.A456S|MOV10L1_uc011arp.1_Missense_Mutation_p.A436S|MOV10L1_uc011arq.1_Missense_Mutation_p.A217S|MOV10L1_uc010hao.1_RNA	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	456					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		ACTAATTGCTGCGCGCGAACC	0.443													38	51	---	---	---	---	PASS	T	50555692	T	T	50555692	3	4	56	1	0	0	0	0	1	0	0	0	9719	1319	46	3	1441	3	MOV10L1	22	50555692	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	18049520	50555692	748874	220	21122										
MAGEB18	286514	broad.mit.edu	37	chrX	26157221	26157221	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	agaaggagagtcaccctcccCtgcctatcttctctttggtg	9	13	3	2			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chrX:26157221C>T	uc004dbq.1	+	2	306	c.119C>T	c.(118-120)TCT>TTT	p.S40F		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	40							protein binding			central_nervous_system(1)	1						TCACCCTCCCCTGCCTATCTT	0.577													8	15	---	---	---	---	PASS	T	26157221	T	T	26157221	3	4	56	1	0	0	0	0	1	0	0	0	9175	681	24	3	121	3	MAGEB18	23	26157221	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08		26157221	129113339	221	21123										
MAGEB2	4113	broad.mit.edu	37	chrX	30237487	30237487	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	atctggagtacaagcaggtgCccagcagtgatcccccacgc	11	14	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chrX:30237487C>G	uc004dbz.2	+	2	893	c.790C>G	c.(790-792)CCC>GCC	p.P264A		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	264	MAGE.						protein binding			ovary(1)	1						CAAGCAGGTGCCCAGCAGTGA	0.512													19	5	---	---	---	---	PASS	G	30237487	G	G	30237487	3	3	56	1	0	0	0	0	1	0	0	0	9176	739	26	4	792	4	MAGEB2	23	30237487	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	4080266	30237487	125033073	222	21124										
KDM6A	7403	broad.mit.edu	37	chrX	44896929	44896929	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	acattgcccacttatatgaaAcccaggtaagtattttaact	5	9	0	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chrX:44896929A>G	uc004dge.3	+	8	1024	c.649A>G	c.(649-651)ACC>GCC	p.T217A	KDM6A_uc010nhk.2_Missense_Mutation_p.T217A|KDM6A_uc011mkz.1_Missense_Mutation_p.T217A|KDM6A_uc011mla.1_Missense_Mutation_p.T217A|KDM6A_uc011mlb.1_Missense_Mutation_p.T217A|KDM6A_uc011mlc.1_5'UTR	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	217	TPR 4.				histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen	p.0(2)|p.?(1)		kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						CTTATATGAAACCCAGGTAAG	0.299			D|N|F|S		renal|oesophageal SCC|MM								9	10	---	---	---	---	PASS	G	44896929	G	G	44896929	3	3	56	1	0	0	0	0	1	0	0	0	8137	43	2	5	679	5	KDM6A	23	44896929	Missense_Mutation	SNP	A	TCGA-33-4538-01A-01D-1267-08	14659442	44896929	110373631	223	21125										
CCNB3	85417	broad.mit.edu	37	chrX	50052359	50052359	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gactgaggggaagaggtcccGtctgaagccattagtattgc	14	8	1	3			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chrX:50052359G>C	uc004dox.3	+	6	1488	c.1190G>C	c.(1189-1191)CGT>CCT	p.R397P	CCNB3_uc004doy.2_Missense_Mutation_p.R397P|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	397					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					AAGAGGTCCCGTCTGAAGCCA	0.468													5	22	---	---	---	---	PASS	C	50052359	C	C	50052359	3	2	56	1	0	0	0	0	1	0	0	0	2914	1145	40	4	1204	4	CCNB3	23	50052359	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	5155430	50052359	105218201	224	21126										
NKRF	55922	broad.mit.edu	37	chrX	118723942	118723942	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	attacttcactctctagaatCactttgcatttccagcggag	6	11	3	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chrX:118723942C>A	uc004erq.2	-	2	2099	c.1446G>T	c.(1444-1446)GTG>GTT	p.V482V	NKRF_uc004err.2_Silent_p.V482V	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	482					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2						TCTCTAGAATCACTTTGCATT	0.463													5	87	---	---	---	---	PASS	A	118723942	A	A	118723942	2	1	56	1	0	0	0	0	0	0	0	1	10447	813	29	2		2	NKRF	23	118723942	Silent	SNP	C	TCGA-33-4538-01A-01D-1267-08	68671583	118723942	36546618	225	21127										
ARHGEF6	9459	broad.mit.edu	37	chrX	135795454	135795454	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	cttgttattggactgcagggGtcttaagtaagtaacaagaa	11	5	1	1			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chrX:135795454G>T	uc004fab.2	-	7	1270	c.808C>A	c.(808-810)CCC>ACC	p.P270T	ARHGEF6_uc011mwd.1_Missense_Mutation_p.P143T|ARHGEF6_uc011mwe.1_Missense_Mutation_p.P116T	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	270	DH.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					GACTGCAGGGGTCTTAAGTAA	0.323													25	8	---	---	---	---	PASS	T	135795454	T	T	135795454	3	4	56	1	0	0	0	0	1	0	0	0	910	1261	44	3	1586	3	ARHGEF6	23	135795454	Missense_Mutation	SNP	G	TCGA-33-4538-01A-01D-1267-08	17071512	135795454	19475106	226	21128										
SOX3	6658	broad.mit.edu	37	chrX	139586835	139586835	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0990990990990991	22	0.021817250644651	1.66032050404054	2.37727708533078	1.37353787152445	0.421975381019902	0.801770950033723	9	gtcctggtctgtacccccgcCacctccgctcgcaccaccgc	8	22	1	0			TCGA-33-4538-01A-01D-1267-08	TCGA-33-4538-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	e04814f8-a51f-4b6b-a4e9-bd8d2291817c	ed230819-c882-4247-9e1a-66fc4876e648	g.chrX:139586835C>A	uc004fbd.1	-	1	391	c.391G>T	c.(391-393)GGC>TGC	p.G131C		NM_005634	NP_005625	P41225	SOX3_HUMAN	SRY (sex determining region Y)-box 3	131	Poly-Gly.				face development|hypothalamus development|negative regulation of neuron differentiation|pituitary gland development|regulation of transcription, DNA-dependent|sensory organ development|sex determination|transcription, DNA-dependent	nucleus	DNA binding			pancreas(1)	1	Acute lymphoblastic leukemia(192;7.65e-05)					GTACCCCCGCCACCTCCGCTC	0.706													26	12	---	---	---	---	PASS	A	139586835	A	A	139586835	3	1	56	1	0	0	0	0	1	0	0	0	14951	594	21	3	953	3	SOX3	23	139586835	Missense_Mutation	SNP	C	TCGA-33-4538-01A-01D-1267-08	3791381	139586835	15683725	227	21129										
SLC35E2	9906	broad.mit.edu	37	chr1	1666131	1666131	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ggaagttcctctgctcacctGaaagtcaccggggagatttt	11	10	3	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:1666131G>A	uc001aib.1	-	5	1146	c.730C>T	c.(730-732)CAG>TAG	p.Q244*	SLC35E2B_uc001ahh.3_Intron|SLC35E2_uc009vkm.1_Intron|SLC35E2_uc001ahy.2_Nonsense_Mutation_p.Q244*|SLC35E2_uc001ahz.2_Nonsense_Mutation_p.Q244*	NM_182838	NP_878258	P0CK97	S35E2_HUMAN	solute carrier family 35, member E2	244						integral to membrane				pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;5.26e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.54e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|BRCA - Breast invasive adenocarcinoma(365;0.00786)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CTGCTCACCTGAAAGTCACCG	0.507													9	41	---	---	---	---	PASS	A	1666131	A	A	1666131	4	1	57	1	0	0	0	0	0	1	0	0	14585	1299	45	2	1328	2	SLC35E2	1	1666131	Nonsense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08		1666131	247584490	1	21130										
DNAJC11	55735	broad.mit.edu	37	chr1	6700080	6700080	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cagaagctggtccgtcaagtGaatagggaagaagtatgtct	13	6	2	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:6700080G>A	uc001aof.2	-	11	1241	c.1135C>T	c.(1135-1137)CAC>TAC	p.H379Y	DNAJC11_uc010nzt.1_Intron|DNAJC11_uc001aog.2_Intron|DNAJC11_uc010nzu.1_Missense_Mutation_p.H289Y	NM_018198	NP_060668	Q9NVH1	DJC11_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 11	379					protein folding		heat shock protein binding|unfolded protein binding			ovary(1)|skin(1)	2	Ovarian(185;0.0265)|all_lung(157;0.154)	all_cancers(23;1.97e-27)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;2.34e-07)|COAD - Colon adenocarcinoma(227;2.05e-05)|Kidney(185;7.67e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000639)|KIRC - Kidney renal clear cell carcinoma(229;0.00128)|STAD - Stomach adenocarcinoma(132;0.00179)|READ - Rectum adenocarcinoma(331;0.0649)		TCCGTCAAGTGAATAGGGAAG	0.478													9	32	---	---	---	---	PASS	A	6700080	A	A	6700080	3	1	57	1	0	0	0	0	1	0	0	0	4630	1290	45	2	568	2	DNAJC11	1	6700080	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	5033949	6700080	242550541	2	21131										
KIF1B	23095	broad.mit.edu	37	chr1	10342554	10342554	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tattcaagagaggatcatgtCtacacctggaggagaggaag	13	6	3	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:10342554C>G	uc001aqx.3	+	15	1599	c.1397C>G	c.(1396-1398)TCT>TGT	p.S466C	KIF1B_uc001aqv.3_Missense_Mutation_p.S420C|KIF1B_uc001aqw.3_Missense_Mutation_p.S420C|KIF1B_uc001aqy.2_Missense_Mutation_p.S440C|KIF1B_uc001aqz.2_Missense_Mutation_p.S466C|KIF1B_uc001ara.2_Missense_Mutation_p.S426C|KIF1B_uc001arb.2_Missense_Mutation_p.S452C	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	466					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		AGGATCATGTCTACACCTGGA	0.393													29	81	---	---	---	---	PASS	G	10342554	G	G	10342554	3	3	57	1	0	0	0	0	1	0	0	0	8284	913	32	2	1305	2	KIF1B	1	10342554	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	3642474	10342554	238908067	3	21132										
KIF1B	23095	broad.mit.edu	37	chr1	10380147	10380147	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcagaagcaggttgaaacccGatctctggctgcagaaacaa	11	10	1	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:10380147G>A	uc001aqx.3	+	23	2364	c.2162G>A	c.(2161-2163)CGA>CAA	p.R721Q	KIF1B_uc001aqw.3_Missense_Mutation_p.R675Q|KIF1B_uc001aqy.2_Missense_Mutation_p.R695Q|KIF1B_uc001aqz.2_Missense_Mutation_p.R721Q|KIF1B_uc001ara.2_Missense_Mutation_p.R681Q|KIF1B_uc001arb.2_Missense_Mutation_p.R707Q	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	721	Potential.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		GTTGAAACCCGATCTCTGGCT	0.313													6	21	---	---	---	---	PASS	A	10380147	A	A	10380147	3	1	57	1	0	0	0	0	1	0	0	0	8284	1058	37	2	3591	2	KIF1B	1	10380147	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	37593	10380147	238870474	4	21133										
UBR4	23352	broad.mit.edu	37	chr1	19494528	19494528	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agtaggtacttacacaataaGatctccagtcaacctgacca	6	11	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:19494528G>C	uc001bbi.2	-	28	3896	c.3892C>G	c.(3892-3894)CTT>GTT	p.L1298V	UBR4_uc001bbm.1_Missense_Mutation_p.L509V	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	1298					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TACACAATAAGATCTCCAGTC	0.478													26	69	---	---	---	---	PASS	C	19494528	C	C	19494528	3	2	57	1	0	0	0	0	1	0	0	0	16901	942	33	2	11975	2	UBR4	1	19494528	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	9114381	19494528	229756093	5	21134										
HSPG2	3339	broad.mit.edu	37	chr1	22202777	22202777	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agtagggtccagataagagtCtgtggaaggaggagaatccc	15	6	1	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:22202777C>G	uc001bfj.2	-	23	2988	c.2948G>C	c.(2947-2949)AGA>ACA	p.R983T	HSPG2_uc009vqd.2_Missense_Mutation_p.R984T	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	983	Laminin IV type A 2.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	AGATAAGAGTCTGTGGAAGGA	0.428													19	31	---	---	---	---	PASS	G	22202777	G	G	22202777	3	3	57	1	0	0	0	0	1	0	0	0	7430	913	32	2	10527	2	HSPG2	1	22202777	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	2708249	22202777	227047844	6	21135										
RHD	6007	broad.mit.edu	37	chr1	25617255	25617255	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gtgacagctttaggcaacctGaggatggtcatcagtaatat	11	7	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:25617255G>A	uc001bjz.2	+	3	517	c.459G>A	c.(457-459)CTG>CTA	p.L153L	RHD_uc010oep.1_Silent_p.L153L|RHD_uc001bkc.2_Silent_p.L153L|RHD_uc009vrm.2_5'UTR|RHD_uc001bka.2_Silent_p.L153L|RHD_uc001bkb.2_Silent_p.L153L|RHD_uc009vrn.2_Silent_p.L153L|RHD_uc009vro.2_Silent_p.L153L|RHD_uc009vrp.2_Silent_p.L153L	NM_016124	NP_057208	Q02161	RHD_HUMAN	Rh blood group D antigen isoform 1	153						integral to plasma membrane				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.39e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000332)|BRCA - Breast invasive adenocarcinoma(304;0.000438)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000908)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TAGGCAACCTGAGGATGGTCA	0.537													35	40	---	---	---	---	PASS	A	25617255	A	A	25617255	2	1	57	1	0	0	0	0	0	0	0	1	13327	1277	45	2		2	RHD	1	25617255	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	3414478	25617255	223633366	7	21136										
MYCL1	4610	broad.mit.edu	37	chr1	40363471	40363471	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctgaagcctcttcttgggagCagctttctggaggaaaacgg	13	9	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:40363471C>A	uc001cer.1	-	3	885	c.668G>T	c.(667-669)TGC>TTC	p.C223F	MYCL1_uc001ces.1_Missense_Mutation_p.C223F	NM_001033082	NP_001028254	P12524	MYCL1_HUMAN	l-myc-1 proto-oncogene isoform 1	223						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|liver(1)	2	all_cancers(7;1.73e-14)|all_lung(5;2.77e-17)|all_epithelial(6;6.81e-17)|Lung SC(1;2.85e-13)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.51e-19)|Epithelial(16;3.36e-18)|all cancers(16;8.43e-17)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TTCTTGGGAGCAGCTTTCTGG	0.532			A		small cell lung 								4	182	---	---	---	---	PASS	A	40363471	A	A	40363471	3	1	57	1	0	0	0	0	1	0	0	0	10020	710	25	3	430	3	MYCL1	1	40363471	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	14746216	40363471	208887150	8	21137										
LEPR	3953	broad.mit.edu	37	chr1	66036310	66036310	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aattcgaatggacattatgaGacagctgttgaacctaagtt	9	6	0	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:66036310G>C	uc001dci.2	+	4	397	c.195G>C	c.(193-195)GAG>GAC	p.E65D	LEPR_uc001dcg.2_Missense_Mutation_p.E65D|LEPR_uc001dch.2_Missense_Mutation_p.E65D|LEPR_uc009waq.2_Missense_Mutation_p.E65D|LEPR_uc001dcj.2_Missense_Mutation_p.E65D|LEPR_uc001dck.2_Missense_Mutation_p.E65D	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	65	Extracellular (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)		GACATTATGAGACAGCTGTTG	0.378													14	62	---	---	---	---	PASS	C	66036310	C	C	66036310	3	2	57	1	0	0	0	0	1	0	0	0	8728	933	33	2	201	2	LEPR	1	66036310	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	25672839	66036310	183214311	9	21138										
C1orf141	400757	broad.mit.edu	37	chr1	67558694	67558694	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcatacataatattttatgaGgcatttaaaatttcatttga	5	4	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:67558694G>A	uc001ddl.1	-	7	1308	c.1197C>T	c.(1195-1197)GCC>GCT	p.A399A	C1orf141_uc001ddm.1_Silent_p.A399A|C1orf141_uc001ddn.1_RNA	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	399										ovary(1)	1						TATTTTATGAGGCATTTAAAA	0.249													4	18	---	---	---	---	PASS	A	67558694	A	A	67558694	2	1	57	1	0	0	0	0	0	0	0	1	2001	987	35	3		3	C1orf141	1	67558694	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	1522384	67558694	181691927	10	21139										
GBP7	388646	broad.mit.edu	37	chr1	89615179	89615179	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttctcacactgggccagaacTgccattgcattctccagaca	7	14	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:89615179T>A	uc001dna.2	-	7	1087	c.948A>T	c.(946-948)GCA>GCT	p.A316A	GBP2_uc001dmy.1_RNA	NM_207398	NP_997281	Q8N8V2	GBP7_HUMAN	guanylate binding protein 4-like	316						integral to membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.0908)		all cancers(265;0.00835)|Epithelial(280;0.0322)		GGGCCAGAACTGCCATTGCAT	0.557													15	52	---	---	---	---	PASS	A	89615179	A	A	89615179	2	1	57	1	0	0	0	0	0	0	0	1	6279	1567	55	5		5	GBP7	1	89615179	Silent	SNP	T	TCGA-33-4547-01A-01D-1267-08	22056485	89615179	159635442	11	21140										
LPPR5	163404	broad.mit.edu	37	chr1	99418658	99418658	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agctgcatagacactgagagCtgcttctttggatggaaagg	13	7	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:99418658C>A	uc001dsb.2	-	3	811	c.589G>T	c.(589-591)GCT>TCT	p.A197S	LPPR5_uc001dsc.2_Missense_Mutation_p.A197S	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	197	Helical; (Potential).					integral to membrane	hydrolase activity				0						ACACTGAGAGCTGCTTCTTTG	0.393													14	61	---	---	---	---	PASS	A	99418658	A	A	99418658	3	1	57	1	0	0	0	0	1	0	0	0	8928	797	28	3	392	3	LPPR5	1	99418658	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	9803479	99418658	149831963	12	21141										
SARS	6301	broad.mit.edu	37	chr1	109756748	109756748	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ggcagacagcgagtggcgacGatgtaagtaccgggacgggc	18	9	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:109756748G>A	uc001dwu.1	+	1	209	c.134G>A	c.(133-135)CGA>CAA	p.R45Q	SARS_uc001dwt.1_Missense_Mutation_p.R45Q|SARS_uc001dwv.1_Missense_Mutation_p.R45Q|SARS_uc001dww.1_5'UTR|SARS_uc001dwx.1_Missense_Mutation_p.R45Q|SARS_uc009wfa.1_Missense_Mutation_p.R45Q|SARS_uc001dwy.1_5'UTR	NM_006513	NP_006504	P49591	SYSC_HUMAN	seryl-tRNA synthetase	45					seryl-tRNA aminoacylation|tRNA processing	cytosol	ATP binding|protein binding|RNA binding|serine-tRNA ligase activity			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0301)|Lung(183;0.0677)|COAD - Colon adenocarcinoma(174;0.116)|Epithelial(280;0.233)	L-Serine(DB00133)	GAGTGGCGACGATGTAAGTAC	0.592													6	75	---	---	---	---	PASS	A	109756748	A	A	109756748	3	1	57	1	0	0	0	0	1	0	0	0	13844	1058	37	2	136	2	SARS	1	109756748	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	10338090	109756748	139493873	13	21142										
GNAT2	2780	broad.mit.edu	37	chr1	110148995	110148995	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gtggttttgactctggatcgGagcacatcttgctcactagg	12	9	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:110148995G>C	uc001dya.2	-	5	738	c.525C>G	c.(523-525)CTC>CTG	p.L175L		NM_005272	NP_005263	P19087	GNAT2_HUMAN	guanine nucleotide binding protein, alpha	175	GTP (By similarity).				detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	G-protein beta/gamma-subunit complex binding|G-protein coupled photoreceptor activity|G-protein-coupled receptor binding|GTP binding|GTPase activity				0		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0422)|Colorectal(144;0.108)|Epithelial(280;0.125)|all cancers(265;0.129)|LUSC - Lung squamous cell carcinoma(189;0.227)		CTCTGGATCGGAGCACATCTT	0.428													30	80	---	---	---	---	PASS	C	110148995	C	C	110148995	2	2	57	1	0	0	0	0	0	0	0	1	6512	1161	41	2		2	GNAT2	1	110148995	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	392247	110148995	139101626	14	21143										
SLC16A4	9122	broad.mit.edu	37	chr1	110921905	110921905	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ccagaattgttctcacttttGatatggatgggtcttaagag	10	6	2	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:110921905G>C	uc001dzo.1	-	6	782	c.600C>G	c.(598-600)ATC>ATG	p.I200M	SLC16A4_uc009wfs.1_Missense_Mutation_p.I152M|SLC16A4_uc001dzp.1_Intron|SLC16A4_uc010ovy.1_Missense_Mutation_p.I138M|SLC16A4_uc001dzq.1_Intron|SLC16A4_uc010ovz.1_Missense_Mutation_p.I90M	NM_004696	NP_004687	O15374	MOT5_HUMAN	solute carrier family 16, member 4	200	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			ovary(3)	3		all_cancers(81;0.000476)|all_epithelial(167;0.000401)|all_lung(203;0.00277)|Lung NSC(277;0.0043)		Lung(183;0.0251)|all cancers(265;0.0766)|Epithelial(280;0.0807)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.14)	Pyruvic acid(DB00119)	TCTCACTTTTGATATGGATGG	0.408													11	53	---	---	---	---	PASS	C	110921905	C	C	110921905	3	2	57	1	0	0	0	0	1	0	0	0	14410	1280	45	2	879	2	SLC16A4	1	110921905	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	772910	110921905	138328716	15	21144										
MCL1	4170	broad.mit.edu	37	chr1	150551448	150551448	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ggcgccggtggcctgctcccGaaggtaccgagagataatct	14	12	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:150551448G>A	uc001euz.2	-	1	689	c.559C>T	c.(559-561)CGG>TGG	p.R187W	MCL1_uc010pch.1_Missense_Mutation_p.R77W|MCL1_uc001eva.2_Missense_Mutation_p.R187W	NM_021960	NP_068779	Q07820	MCL1_HUMAN	myeloid cell leukemia sequence 1 isoform 1	187					anti-apoptosis|apoptosis|cell fate determination|cellular homeostasis|multicellular organismal development|response to cytokine stimulus	integral to membrane|mitochondrial outer membrane|nucleoplasm	BH3 domain binding|protein binding|protein channel activity|protein heterodimerization activity				0	all_cancers(9;1.69e-53)|all_epithelial(9;1.95e-43)|all_lung(15;1.09e-34)|Lung NSC(24;4.04e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			GCCTGCTCCCGAAGGTACCGA	0.647													15	121	---	---	---	---	PASS	A	150551448	A	A	150551448	3	1	57	1	0	0	0	0	1	0	0	0	9384	1057	37	2	516	2	MCL1	1	150551448	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	39629543	150551448	98699173	16	21145										
CRNN	49860	broad.mit.edu	37	chr1	152382343	152382343	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gactcagtgcttgccccagtCtgggcctgtcctcccggtac	11	16	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:152382343C>T	uc001ezx.2	-	3	1289	c.1215G>A	c.(1213-1215)CAG>CAA	p.Q405Q		NM_016190	NP_057274	Q9UBG3	CRNN_HUMAN	cornulin	405					cell-cell adhesion|response to heat	cytoplasm|membrane	calcium ion binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTGCCCCAGTCTGGGCCTGTC	0.607													25	82	---	---	---	---	PASS	T	152382343	T	T	152382343	2	4	57	1	0	0	0	0	0	0	0	1	3892	912	32	2		2	CRNN	1	152382343	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	1830895	152382343	96868278	17	21146										
PKLR	5313	broad.mit.edu	37	chr1	155263135	155263135	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcctctgcctcccgggcaatCtgcaggtgccagaatgttag	12	13	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:155263135C>T	uc001fkb.3	-	9	1309	c.1270_splice	c.e9-1	p.I424_splice	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Splice_Site_p.I393_splice	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1						endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	CCCGGGCAATCTGCAGGTGCC	0.597													31	101	---	---	---	---	PASS	T	155263135	T	T	155263135	5	4	57	1	0	0	0	0	0	0	1	0	11976	927	32	2	467	2	PKLR	1	155263135	Splice_Site	SNP	C	TCGA-33-4547-01A-01D-1267-08	2880792	155263135	93987486	18	21147										
PKLR	5313	broad.mit.edu	37	chr1	155264083	155264083	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cagcgcccaatcatcatcttCtgagccaggaaaaccttctc	6	15	5	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:155264083C>G	uc001fkb.3	-	7	1098	c.1059G>C	c.(1057-1059)CAG>CAC	p.Q353H	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Missense_Mutation_p.Q322H	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	353					endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	TCATCATCTTCTGAGCCAGGA	0.567													21	55	---	---	---	---	PASS	G	155264083	G	G	155264083	3	3	57	1	0	0	0	0	1	0	0	0	11976	912	32	2	685	2	PKLR	1	155264083	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	948	155264083	93986538	19	21148										
RIT1	6016	broad.mit.edu	37	chr1	155874207	155874207	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttaaactcacgaacttcatgGaaacttcgacgatccgtgat	7	10	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:155874207G>T	uc001fmh.1	-	5	511	c.324C>A	c.(322-324)TTC>TTA	p.F108L	RIT1_uc010pgr.1_Missense_Mutation_p.F72L	NM_006912	NP_008843	Q92963	RIT1_HUMAN	Ras-like without CAAX 1	108					nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			breast(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;1.79e-05)			GAACTTCATGGAAACTTCGAC	0.453													16	52	---	---	---	---	PASS	T	155874207	T	T	155874207	3	4	57	1	0	0	0	0	1	0	0	0	13386	1165	41	2	343	2	RIT1	1	155874207	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	610124	155874207	93376414	20	21149										
DNM3	26052	broad.mit.edu	37	chr1	172011204	172011204	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gaattgaagggtcaggggatCaagtagataccctggaactc	13	7	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:172011204C>T	uc001gie.2	+	8	1224	c.1048C>T	c.(1048-1050)CAA>TAA	p.Q350*	DNM3_uc001gid.3_Nonsense_Mutation_p.Q350*|DNM3_uc009wwb.2_Nonsense_Mutation_p.Q350*|DNM3_uc001gif.2_Nonsense_Mutation_p.Q350*	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	350					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						GTCAGGGGATCAAGTAGATAC	0.378													11	39	---	---	---	---	PASS	T	172011204	T	T	172011204	4	4	57	1	0	0	0	0	0	1	0	0	4673	827	29	2	1078	2	DNM3	1	172011204	Nonsense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	16136997	172011204	77239417	21	21150										
DARS2	55157	broad.mit.edu	37	chr1	173826783	173826783	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tctgtccctcctgaggaactGaagccctatcatatccgagt	8	13	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:173826783G>C	uc001gjh.1	+	17	2288	c.1878G>C	c.(1876-1878)CTG>CTC	p.L626L		NM_018122	NP_060592	Q6PI48	SYDM_HUMAN	aspartyl-tRNA synthetase 2, mitochondrial	626			L -> Q (in LBSL).|L -> V (in LBSL).		tRNA aminoacylation for protein translation	mitochondrial matrix|nucleus	aspartate-tRNA ligase activity|ATP binding|nucleic acid binding			central_nervous_system(2)	2					L-Aspartic Acid(DB00128)	CTGAGGAACTGAAGCCCTATC	0.478													13	54	---	---	---	---	PASS	C	173826783	C	C	173826783	2	2	57	1	0	0	0	0	0	0	0	1	4242	1277	45	2		2	DARS2	1	173826783	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	1815579	173826783	75423838	22	21151										
TSEN15	116461	broad.mit.edu	37	chr1	184023991	184023991	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	catcactgcttccctcagccAtaacaggtgagcaggtgatt	9	12	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:184023991A>G	uc001gqt.3	+	3	426	c.347A>G	c.(346-348)CAT>CGT	p.H116R	TSEN15_uc009wyg.2_RNA|TSEN15_uc001gqu.3_Missense_Mutation_p.H116R	NM_052965	NP_443197	Q8WW01	SEN15_HUMAN	tRNA splicing endonuclease 15 isoform 1	116					mRNA processing|tRNA processing	nucleolus	protein binding				0						TCCCTCAGCCATAACAGGTGA	0.448													3	10	---	---	---	---	PASS	G	184023991	G	G	184023991	3	3	57	1	0	0	0	0	1	0	0	0	16608	217	8	5	357	5	TSEN15	1	184023991	Missense_Mutation	SNP	A	TCGA-33-4547-01A-01D-1267-08	10197208	184023991	65226630	23	21152										
DDX59	83479	broad.mit.edu	37	chr1	200635181	200635181	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cacaggaatcatctgcatttGaatgggagttggcacctcat	10	9	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:200635181G>C	uc009wzk.2	-	2	931	c.688C>G	c.(688-690)CAA>GAA	p.Q230E	DDX59_uc010ppl.1_Missense_Mutation_p.Q230E	NM_001031725	NP_001026895	Q5T1V6	DDX59_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 59	230	Q motif.					intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4						ATCTGCATTTGAATGGGAGTT	0.443													42	140	---	---	---	---	PASS	C	200635181	C	C	200635181	3	2	57	1	0	0	0	0	1	0	0	0	4376	1299	45	2	1199	2	DDX59	1	200635181	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	16611190	200635181	48615440	24	21153			1	26		3	3	280	G		2.445347e-06
DDX59	83479	broad.mit.edu	37	chr1	200635425	200635425	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tcagccttctgtggattgctGagttttgatttctcttcctt	8	9	3	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:200635425G>A	uc009wzk.2	-	2	687	c.444C>T	c.(442-444)CTC>CTT	p.L148L	DDX59_uc010ppl.1_Silent_p.L148L	NM_001031725	NP_001026895	Q5T1V6	DDX59_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 59	148						intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4						GTGGATTGCTGAGTTTTGATT	0.408													19	66	---	---	---	---	PASS	A	200635425	A	A	200635425	2	1	57	1	0	0	0	0	0	0	0	1	4376	1277	45	2		2	DDX59	1	200635425	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	244	200635425	48615196	25	21154			1	26		3	3	280	G		2.445347e-06
DDX59	83479	broad.mit.edu	37	chr1	200635460	200635460	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttccttttccttaacttgtaGaagatgtttcgctttacact	5	9	0	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:200635460G>T	uc009wzk.2	-	2	652	c.409C>A	c.(409-411)CTA>ATA	p.L137I	DDX59_uc010ppl.1_Missense_Mutation_p.L137I	NM_001031725	NP_001026895	Q5T1V6	DDX59_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 59	137						intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TTAACTTGTAGAAGATGTTTC	0.418													25	70	---	---	---	---	PASS	T	200635460	T	T	200635460	3	4	57	1	0	0	0	0	1	0	0	0	4376	933	33	2	1478	2	DDX59	1	200635460	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	35	200635460	48615161	26	21155			1	26		3	3	280	G		2.445347e-06
PTPN14	5784	broad.mit.edu	37	chr1	214531328	214531328	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tagacaaacttgtactgagcGatagtctggatcatgaacat	9	7	2	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:214531328G>A	uc001hkk.1	-	19	3772	c.3501C>T	c.(3499-3501)ATC>ATT	p.I1167I		NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	1167	Tyrosine-protein phosphatase.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		TGTACTGAGCGATAGTCTGGA	0.507													12	38	---	---	---	---	PASS	A	214531328	A	A	214531328	2	1	57	1	0	0	0	0	0	0	0	1	12783	1048	37	2		2	PTPN14	1	214531328	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	13895868	214531328	34719293	27	21156										
TARBP1	6894	broad.mit.edu	37	chr1	234569206	234569206	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aatggatgcatttttcaaaaGagaaataactctccagatag	7	6	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:234569206G>C	uc001hwd.2	-	14	2344	c.2344C>G	c.(2344-2346)CTT>GTT	p.L782V		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	782					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			TTTTTCAAAAGAGAAATAACT	0.398													12	50	---	---	---	---	PASS	C	234569206	C	C	234569206	3	2	57	1	0	0	0	0	1	0	0	0	15552	942	33	2	2589	2	TARBP1	1	234569206	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	20037878	234569206	14681415	28	21157										
TARBP1	6894	broad.mit.edu	37	chr1	234569302	234569302	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	catcaggtataaatggcaacGatccagatctgaaacctaag	8	9	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:234569302G>T	uc001hwd.2	-	14	2248	c.2248C>A	c.(2248-2250)CGT>AGT	p.R750S		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	750					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			AAATGGCAACGATCCAGATCT	0.393													16	61	---	---	---	---	PASS	T	234569302	T	T	234569302	3	4	57	1	0	0	0	0	1	0	0	0	15552	1058	37	2	2685	2	TARBP1	1	234569302	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	96	234569302	14681319	29	21158										
LYST	1130	broad.mit.edu	37	chr1	235945292	235945292	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcaaaaactcttcttgggatGataaacaatggccaatcatg	8	8	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:235945292G>T	uc001hxj.2	-	15	5133	c.4958C>A	c.(4957-4959)TCA>TAA	p.S1653*	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	1653					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TTCTTGGGATGATAAACAATG	0.299									Chediak-Higashi_syndrome				17	39	---	---	---	---	PASS	T	235945292	T	T	235945292	4	4	57	1	0	0	0	0	0	1	0	0	9128	1294	45	2	6603	2	LYST	1	235945292	Nonsense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	1375990	235945292	13305329	30	21159										
NID1	4811	broad.mit.edu	37	chr1	236208960	236208960	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gagctggaatcagaggaggcTagaacagcctggaacgtgtt	15	7	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:236208960T>C	uc001hxo.2	-	3	651	c.549A>G	c.(547-549)CTA>CTG	p.L183L	NID1_uc009xgd.2_Silent_p.L183L	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	183	NIDO.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	CAGAGGAGGCTAGAACAGCCT	0.403													7	19	---	---	---	---	PASS	C	236208960	C	C	236208960	2	2	57	1	0	0	0	0	0	0	0	1	10414	1509	53	5		5	NID1	1	236208960	Silent	SNP	T	TCGA-33-4547-01A-01D-1267-08	263668	236208960	13041661	31	21160										
RYR2	6262	broad.mit.edu	37	chr1	237659980	237659980	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctccctaccctggagggggcGaagagtggggtggaaatggt	18	8	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:237659980G>A	uc001hyl.1	+	20	2251	c.2131G>A	c.(2131-2133)GAA>AAA	p.E711K		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	711	Cytoplasmic (By similarity).|B30.2/SPRY 1.				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)			TGGAGGGGGCGAAGAGTGGGG	0.522													44	72	---	---	---	---	PASS	A	237659980	A	A	237659980	3	1	57	1	0	0	0	0	1	0	0	0	13769	1059	37	2	2209	2	RYR2	1	237659980	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	1451020	237659980	11590641	32	21161										
FMN2	56776	broad.mit.edu	37	chr1	240370862	240370862	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ccctccccctcctcttcccgGagcgggcatacctcctccgc	7	23	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:240370862G>A	uc010pyd.1	+	5	2975	c.2750G>A	c.(2749-2751)GGA>GAA	p.G917E	FMN2_uc010pye.1_Missense_Mutation_p.G921E	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	917	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CCTCTTCCCGGAGCGGGCATA	0.657													50	110	---	---	---	---	PASS	A	240370862	A	A	240370862	3	1	57	1	0	0	0	0	1	0	0	0	5950	1174	41	2	2768	2	FMN2	1	240370862	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	2710882	240370862	8879759	33	21162										
SCCPDH	51097	broad.mit.edu	37	chr1	246923314	246923314	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cacctctgttattaagctgaTgtttgcaggacttttctttt	7	8	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr1:246923314T>A	uc001ibr.2	+	8	1216	c.869T>A	c.(868-870)ATG>AAG	p.M290K		NM_016002	NP_057086	Q8NBX0	SCPDH_HUMAN	saccharopine dehydrogenase (putative)	290						midbody	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity			ovary(1)	1	all_cancers(71;6.8e-05)|all_epithelial(71;7.93e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0545)|Lung NSC(105;0.0618)	all_cancers(173;0.0343)	OV - Ovarian serous cystadenocarcinoma(106;0.00323)	GBM - Glioblastoma multiforme(49;0.0896)		ATTAAGCTGATGTTTGCAGGA	0.343													17	89	---	---	---	---	PASS	A	246923314	A	A	246923314	3	1	57	1	0	0	0	0	1	0	0	0	13885	1464	51	5	899	5	SCCPDH	1	246923314	Missense_Mutation	SNP	T	TCGA-33-4547-01A-01D-1267-08	6552452	246923314	2327307	34	21163										
MYT1L	23040	broad.mit.edu	37	chr2	1796159	1796159	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctcaggttcgccagctcgtgGaggagagactcgttctgctg	14	11	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:1796159G>A	uc002qxe.2	-	24	4181	c.3354C>T	c.(3352-3354)CTC>CTT	p.L1118L	MYT1L_uc002qxd.2_Silent_p.L1116L|MYT1L_uc010ewk.2_Silent_p.L116L	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	1118	Potential.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CCAGCTCGTGGAGGAGAGACT	0.537													8	10	---	---	---	---	PASS	A	1796159	A	A	1796159	2	1	57	1	0	0	0	0	0	0	0	1	10107	1161	41	2		2	MYT1L	2	1796159	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08		1796159	241403214	35	21164										
DPYSL5	56896	broad.mit.edu	37	chr2	27147901	27147901	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctccacgtggggatcacctgGtgggcacccaaggtaacagt	13	12	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:27147901G>T	uc002rhu.3	+	3	566	c.408G>T	c.(406-408)TGG>TGT	p.W136C	DPYSL5_uc002rhv.3_Missense_Mutation_p.W136C	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	136					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGATCACCTGGTGGGCACCCA	0.602													9	40	---	---	---	---	PASS	T	27147901	T	T	27147901	3	4	57	1	0	0	0	0	1	0	0	0	4750	1270	44	3	414	3	DPYSL5	2	27147901	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	25351742	27147901	216051472	36	21165										
SLC30A3	7781	broad.mit.edu	37	chr2	27479355	27479355	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcaccgacaacagcgtatccCgcacaggttcgaaccccaca	8	17	0	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:27479355C>T	uc002rjk.2	-	7	1103	c.917G>A	c.(916-918)CGG>CAG	p.R306Q	SLC30A3_uc002rjj.2_Missense_Mutation_p.G152R|SLC30A3_uc010ylh.1_Missense_Mutation_p.R301Q	NM_003459	NP_003450	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter),	306	Cytoplasmic (Potential).				regulation of sequestering of zinc ion	cell junction|integral to plasma membrane|late endosome|membrane fraction|synaptic vesicle membrane	zinc transporting ATPase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGCGTATCCCGCACAGGTTC	0.617													20	67	---	---	---	---	PASS	T	27479355	T	T	27479355	3	4	57	1	0	0	0	0	1	0	0	0	14556	652	23	1	257	1	SLC30A3	2	27479355	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	331454	27479355	215720018	37	21166										
MCFD2	90411	broad.mit.edu	37	chr2	47135052	47135052	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aatggagctgcaattcttgtGgcgacatctccgcctctggt	11	11	3	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:47135052G>A	uc002rvk.2	-	3	300	c.206C>T	c.(205-207)CCA>CTA	p.P69L	MCFD2_uc002rvl.2_Missense_Mutation_p.P17L|MCFD2_uc010fba.2_Missense_Mutation_p.P67L|MCFD2_uc010yof.1_Missense_Mutation_p.P50L	NM_139279	NP_644808	Q8NI22	MCFD2_HUMAN	multiple coagulation factor deficiency 2	69	EF-hand 1.				post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|vesicle-mediated transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment|Golgi apparatus	calcium ion binding			central_nervous_system(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)		Antihemophilic Factor(DB00025)	CAATTCTTGTGGCGACATCTC	0.433													16	50	---	---	---	---	PASS	A	47135052	A	A	47135052	3	1	57	1	0	0	0	0	1	0	0	0	9381	1348	47	3	242	3	MCFD2	2	47135052	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	19655697	47135052	196064321	38	21167										
FSHR	2492	broad.mit.edu	37	chr2	49381409	49381409	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tccctctgatactcacagttCaatggcattcctcgggaggt	9	12	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:49381409C>T	uc002rww.2	-	1	222	c.148G>A	c.(148-150)GAA>AAA	p.E50K	FSHR_uc002rwx.2_Missense_Mutation_p.E50K|FSHR_uc010fbn.2_Missense_Mutation_p.E50K|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	50	Extracellular (Potential).|LRR 1.				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	ACTCACAGTTCAATGGCATTC	0.453									Gonadal_Dysgenesis_46_XX				4	26	---	---	---	---	PASS	T	49381409	T	T	49381409	3	4	57	1	0	0	0	0	1	0	0	0	6073	835	29	2	1979	2	FSHR	2	49381409	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	2246357	49381409	193817964	39	21168										
ALMS1	7840	broad.mit.edu	37	chr2	73682351	73682351	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ccatttcagaattaaatgaaGatgacaggaggaaagtagaa	10	4	1	5			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:73682351G>A	uc002sje.1	+	11	7717	c.7606G>A	c.(7606-7608)GAT>AAT	p.D2536N	ALMS1_uc002sjf.1_Missense_Mutation_p.D2492N|ALMS1_uc002sjg.2_Missense_Mutation_p.D1922N|ALMS1_uc002sjh.1_Missense_Mutation_p.D1922N	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2534					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						ATTAAATGAAGATGACAGGAG	0.363													19	71	---	---	---	---	PASS	A	73682351	A	A	73682351	3	1	57	1	0	0	0	0	1	0	0	0	535	942	33	2	7634	2	ALMS1	2	73682351	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	24300942	73682351	169517022	40	21169										
RTKN	6242	broad.mit.edu	37	chr2	74653636	74653636	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ccagggtgggggtgtctccaGccttgcgccctcccgctggg	16	15	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:74653636G>A	uc002sle.2	-	12	1543	c.1426C>T	c.(1426-1428)CTG>TTG	p.L476L	RTKN_uc002slc.2_Silent_p.L463L|RTKN_uc002sld.2_Silent_p.L426L	NM_001015055	NP_001015055	Q9BST9	RTKN_HUMAN	rhotekin isoform a	476					apoptosis|regulation of anti-apoptosis|Rho protein signal transduction	intracellular	GTP binding|GTP-Rho binding|GTPase inhibitor activity			skin(1)	1						GGTGTCTCCAGCCTTGCGCCC	0.657													20	79	---	---	---	---	PASS	A	74653636	A	A	74653636	2	1	57	1	0	0	0	0	0	0	0	1	13722	962	34	3		3	RTKN	2	74653636	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	971285	74653636	168545737	41	21170										
IL1RL1	9173	broad.mit.edu	37	chr2	102959613	102959613	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctttggtgaaccaagaattcAacaagaggaagggcaaaatc	10	7	1	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:102959613A>T	uc002tbu.1	+	7	1071	c.800A>T	c.(799-801)CAA>CTA	p.Q267L	IL1RL1_uc010ywa.1_Missense_Mutation_p.Q150L|IL18R1_uc002tbw.3_Intron|IL1RL1_uc002tbv.2_Missense_Mutation_p.Q267L	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	267	Extracellular (Potential).|Ig-like C2-type 3.				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4						CCAAGAATTCAACAAGAGGAA	0.413													25	65	---	---	---	---	PASS	T	102959613	T	T	102959613	3	4	57	1	0	0	0	0	1	0	0	0	7663	130	5	5	822	5	IL1RL1	2	102959613	Missense_Mutation	SNP	A	TCGA-33-4547-01A-01D-1267-08	28305977	102959613	140239760	42	21171										
GPR45	11250	broad.mit.edu	37	chr2	105858475	105858475	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tggggttcctgggcaacactGtggtctgcatcatcgtgtac	13	10	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:105858475G>A	uc002tco.1	+	1	276	c.160G>A	c.(160-162)GTG>ATG	p.V54M		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	54	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						GGGCAACACTGTGGTCTGCAT	0.627													6	226	---	---	---	---	PASS	A	105858475	A	A	105858475	3	1	57	1	0	0	0	0	1	0	0	0	6696	1377	48	3	162	3	GPR45	2	105858475	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	2898862	105858475	137340898	43	21172										
RANBP2	5903	broad.mit.edu	37	chr2	109383853	109383853	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tctcctgccaagttgaatcaGagtgggacttcagttggcac	11	10	3	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:109383853G>A	uc002tem.3	+	20	6984	c.6858G>A	c.(6856-6858)CAG>CAA	p.Q2286Q		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2286					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						AGTTGAATCAGAGTGGGACTT	0.393													28	107	---	---	---	---	PASS	A	109383853	A	A	109383853	2	1	57	1	0	0	0	0	0	0	0	1	13028	933	33	2		2	RANBP2	2	109383853	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	3525378	109383853	133815520	44	21173										
BUB1	699	broad.mit.edu	37	chr2	111428129	111428129	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tggcaaatgggtttcagtgaGgcgtgtctgaaataacctaa	12	6	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:111428129G>A	uc002tgc.2	-	5	551	c.439C>T	c.(439-441)CTC>TTC	p.L147F	BUB1_uc010yxh.1_Missense_Mutation_p.L127F|BUB1_uc010fkb.2_Missense_Mutation_p.L147F|BUB1_uc002tgd.2_Missense_Mutation_p.L147F	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	147	BUB1 N-terminal.				apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		GTTTCAGTGAGGCGTGTCTGA	0.353													20	92	---	---	---	---	PASS	A	111428129	A	A	111428129	3	1	57	1	0	0	0	0	1	0	0	0	1570	1000	35	3	2902	3	BUB1	2	111428129	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	2044276	111428129	131771244	45	21174										
FOXD4L1	200350	broad.mit.edu	37	chr2	114257217	114257217	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	caaagcccgcacaagcgcctCacgctcagcggcatctgcgc	10	18	3	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:114257217C>G	uc002tjw.3	+	1	557	c.384C>G	c.(382-384)CTC>CTG	p.L128L		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	128	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0						ACAAGCGCCTCACGCTCAGCG	0.647													26	341	---	---	---	---	PASS	G	114257217	G	G	114257217	2	3	57	1	0	0	0	0	0	0	0	1	6000	813	29	2		2	FOXD4L1	2	114257217	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	2829088	114257217	128942156	46	21175										
THSD7B	80731	broad.mit.edu	37	chr2	137917884	137917884	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	actgcatagtatcttcctggTcagcctggggcctgtgcatc	11	12	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:137917884T>G	uc002tva.1	+	5	1378	c.1378T>G	c.(1378-1380)TCA>GCA	p.S460A	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.S350A	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		ATCTTCCTGGTCAGCCTGGGG	0.517													13	54	---	---	---	---	PASS	G	137917884	G	G	137917884	3	3	57	1	0	0	0	0	1	0	0	0	15877	1667	58	5	1396	5	THSD7B	2	137917884	Missense_Mutation	SNP	T	TCGA-33-4547-01A-01D-1267-08	23660667	137917884	105281489	47	21176										
THSD7B	80731	broad.mit.edu	37	chr2	137917917	137917917	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgtgcatccatgaaaactgtCatgatcctcaggggaaaaaa	9	8	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:137917917C>G	uc002tva.1	+	5	1411	c.1411C>G	c.(1411-1413)CAT>GAT	p.H471D	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.H361D	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TGAAAACTGTCATGATCCTCA	0.498													4	46	---	---	---	---	PASS	G	137917917	G	G	137917917	3	3	57	1	0	0	0	0	1	0	0	0	15877	826	29	2	1429	2	THSD7B	2	137917917	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	33	137917917	105281456	48	21177										
LRP1B	53353	broad.mit.edu	37	chr2	141457836	141457836	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tactttcaacaattacttgtCtgtcttcccagttgtcttta	4	10	4	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:141457836C>G	uc002tvj.1	-	41	7754	c.6782G>C	c.(6781-6783)AGA>ACA	p.R2261T		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2261	Extracellular (Potential).|LDL-receptor class B 23.				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)		AATTACTTGTCTGTCTTCCCA	0.308										TSP Lung(27;0.18)			12	34	---	---	---	---	PASS	G	141457836	G	G	141457836	3	3	57	1	0	0	0	0	1	0	0	0	8955	913	32	2	7221	2	LRP1B	2	141457836	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	3539919	141457836	101741537	49	21178										
RIF1	55183	broad.mit.edu	37	chr2	152319636	152319636	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tttcgttgtcagcagtagttCagtttctaataccactgttg	8	8	3	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:152319636C>G	uc002txm.2	+	30	3732	c.3602C>G	c.(3601-3603)TCA>TGA	p.S1201*	RIF1_uc002txl.2_Nonsense_Mutation_p.S1201*|RIF1_uc002txn.2_Nonsense_Mutation_p.S1201*|RIF1_uc002txo.2_Nonsense_Mutation_p.S1201*|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	1201					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		AGCAGTAGTTCAGTTTCTAAT	0.363													3	72	---	---	---	---	PASS	G	152319636	G	G	152319636	4	3	57	1	0	0	0	0	0	1	0	0	13359	838	29	2	3716	2	RIF1	2	152319636	Nonsense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	10861800	152319636	90879737	50	21179										
SCN3A	6328	broad.mit.edu	37	chr2	165987921	165987921	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttctgctgtgaaaatcccagTaaagacctaaaaaatagaga	7	7	1	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:165987921T>G	uc002ucx.2	-	16	2890	c.2398A>C	c.(2398-2400)ACT>CCT	p.T800P	SCN3A_uc002ucy.2_Missense_Mutation_p.T751P|SCN3A_uc002ucz.2_Missense_Mutation_p.T751P|SCN3A_uc002uda.1_Missense_Mutation_p.T620P|SCN3A_uc002udb.1_Missense_Mutation_p.T620P	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	800	Helical; Name=S2 of repeat II; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	AAAATCCCAGTAAAGACCTAA	0.338													3	52	---	---	---	---	PASS	G	165987921	G	G	165987921	3	3	57	1	0	0	0	0	1	0	0	0	13918	1638	57	5	3656	5	SCN3A	2	165987921	Missense_Mutation	SNP	T	TCGA-33-4547-01A-01D-1267-08	13668285	165987921	77211452	51	21180										
TTN	7273	broad.mit.edu	37	chr2	179576712	179576712	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	atgcagaaacttctcccacgCtgttttcagctttgcagata	7	11	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:179576712C>A	uc010zfg.1	-	93	24337	c.24113G>T	c.(24112-24114)AGC>ATC	p.S8038I	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S4699I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8965							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)			TTCTCCCACGCTGTTTTCAGC	0.333													5	36	---	---	---	---	PASS	A	179576712	A	A	179576712	3	1	57	1	0	0	0	0	1	0	0	0	16732	797	28	3	76752	3	TTN	2	179576712	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	13588791	179576712	63622661	52	21181										
ZNF804A	91752	broad.mit.edu	37	chr2	185800831	185800831	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gctgcagccttctctgaataCagtgatgatgcctcagtggg	12	10	2	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:185800831C>A	uc002uph.2	+	4	1302	c.708C>A	c.(706-708)TAC>TAA	p.Y236*		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	236						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TCTCTGAATACAGTGATGATG	0.443													28	75	---	---	---	---	PASS	A	185800831	A	A	185800831	4	1	57	1	0	0	0	0	0	1	0	0	18167	489	17	3	722	3	ZNF804A	2	185800831	Nonsense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	6224119	185800831	57398542	53	21182										
CCDC150	284992	broad.mit.edu	37	chr2	197521510	197521510	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	atgtgccgtcttgaaagcctCatgcagtccttgaagatgaa	10	9	2	4			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:197521510C>G	uc002utp.1	+	3	465	c.330C>G	c.(328-330)CTC>CTG	p.L110L	CCDC150_uc002uto.1_Silent_p.L110L|CCDC150_uc010zgq.1_RNA|CCDC150_uc010zgr.1_Intron|CCDC150_uc010zgs.1_Intron	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150	110	Potential.										0						TTGAAAGCCTCATGCAGTCCT	0.383													8	25	---	---	---	---	PASS	G	197521510	G	G	197521510	2	3	57	1	0	0	0	0	0	0	0	1	2785	813	29	2		2	CCDC150	2	197521510	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	11720679	197521510	45677863	54	21183										
SGOL2	151246	broad.mit.edu	37	chr2	201437262	201437262	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gaagtgaatcatttagataaTgacaaaagtatagaatacac	7	4	1	4			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:201437262T>G	uc002uvw.2	+	7	2306	c.2193T>G	c.(2191-2193)AAT>AAG	p.N731K	SGOL2_uc010zhd.1_Missense_Mutation_p.N731K|SGOL2_uc010zhe.1_Missense_Mutation_p.N731K	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	731					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						ATTTAGATAATGACAAAAGTA	0.338													9	27	---	---	---	---	PASS	G	201437262	G	G	201437262	3	3	57	1	0	0	0	0	1	0	0	0	14217	1461	51	5	2215	5	SGOL2	2	201437262	Missense_Mutation	SNP	T	TCGA-33-4547-01A-01D-1267-08	3915752	201437262	41762111	55	21184										
AOX1	316	broad.mit.edu	37	chr2	201477490	201477490	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ccagccaccatctgtgccaaGaattcctgccagaaactcat	6	15	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:201477490G>C	uc002uvx.2	+	14	1523	c.1422G>C	c.(1420-1422)AAG>AAC	p.K474N	AOX1_uc010zhf.1_Missense_Mutation_p.K30N|AOX1_uc010fsu.2_5'UTR	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	474					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	TCTGTGCCAAGAATTCCTGCC	0.443													5	25	---	---	---	---	PASS	C	201477490	C	C	201477490	3	2	57	1	0	0	0	0	1	0	0	0	729	933	33	2	1476	2	AOX1	2	201477490	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	40228	201477490	41721883	56	21185										
PIKFYVE	200576	broad.mit.edu	37	chr2	209190867	209190867	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	acagctgctcagggatctctCtggacttcagggcatgaatg	12	10	4	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:209190867C>G	uc002vcz.2	+	20	3490	c.3332C>G	c.(3331-3333)TCT>TGT	p.S1111C	PIKFYVE_uc010fun.1_Missense_Mutation_p.S792C|PIKFYVE_uc002vcy.1_Missense_Mutation_p.S1055C	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1111					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						AGGGATCTCTCTGGACTTCAG	0.453													12	47	---	---	---	---	PASS	G	209190867	G	G	209190867	3	3	57	1	0	0	0	0	1	0	0	0	11924	913	32	2	3417	2	PIKFYVE	2	209190867	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	7713377	209190867	34008506	57	21186										
PIKFYVE	200576	broad.mit.edu	37	chr2	209192962	209192962	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgtgctcttcagcagctcttCtgcccagtccagcaatgctc	8	15	4	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:209192962C>G	uc002vcz.2	+	21	3835	c.3677C>G	c.(3676-3678)TCT>TGT	p.S1226C	PIKFYVE_uc002vcy.1_Missense_Mutation_p.S1170C	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1226					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						AGCAGCTCTTCTGCCCAGTCC	0.453													35	82	---	---	---	---	PASS	G	209192962	G	G	209192962	3	3	57	1	0	0	0	0	1	0	0	0	11924	913	32	2	3766	2	PIKFYVE	2	209192962	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	2095	209192962	34006411	58	21187										
PER2	8864	broad.mit.edu	37	chr2	239184406	239184406	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttcacctgcttcacgctcctGagggcgtacttcaaggtggc	11	13	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr2:239184406G>A	uc002vyc.2	-	4	663	c.426C>T	c.(424-426)CTC>CTT	p.L142L	PER2_uc010znv.1_Silent_p.L142L|PER2_uc010znw.1_Silent_p.L142L|PER2_uc010fyx.1_Silent_p.L142L	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	142					circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		TCACGCTCCTGAGGGCGTACT	0.493													10	222	---	---	---	---	PASS	A	239184406	A	A	239184406	2	1	57	1	0	0	0	0	0	0	0	1	11730	1277	45	2		2	PER2	2	239184406	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	29991444	239184406	4014967	59	21188										
SCN5A	6331	broad.mit.edu	37	chr3	38627355	38627355	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcgaggcagcaggcctgagtCgctgtccctcagctccgagt	14	14	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:38627355C>T	uc003cio.2	-	16	2808	c.2614G>A	c.(2614-2616)GAC>AAC	p.D872N	SCN5A_uc003cin.2_Missense_Mutation_p.D872N|SCN5A_uc003cil.3_Missense_Mutation_p.D872N|SCN5A_uc010hhi.2_Missense_Mutation_p.D872N|SCN5A_uc010hhk.2_Missense_Mutation_p.D872N|SCN5A_uc011ayr.1_Missense_Mutation_p.D872N|SCN5A_uc010hhj.1_Missense_Mutation_p.D483N	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	872					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	AGGCCTGAGTCGCTGTCCCTC	0.552													5	121	---	---	---	---	PASS	T	38627355	T	T	38627355	3	4	57	1	0	0	0	0	1	0	0	0	13922	884	31	2	3488	2	SCN5A	3	38627355	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08		38627355	159395075	60	21189										
BSN	8927	broad.mit.edu	37	chr3	49699829	49699829	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttggggaggccccgccctgcCggagggcccctccctcccgg	15	19	0	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:49699829C>T	uc003cxe.3	+	6	10665	c.10551C>T	c.(10549-10551)GCC>GCT	p.A3517A		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	3517					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CCCGCCCTGCCGGAGGGCCCC	0.677													22	38	---	---	---	---	PASS	T	49699829	T	T	49699829	2	4	57	1	0	0	0	0	0	0	0	1	1530	639	23	1		1	BSN	3	49699829	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	11072474	49699829	148322601	61	21190										
ARHGEF3	50650	broad.mit.edu	37	chr3	56787587	56787587	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cttctccttgggaaagctcaAagatcgcctgcaaggaaaga	10	10	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:56787587A>G	uc003dig.2	-	4	552	c.383T>C	c.(382-384)TTT>TCT	p.F128S	ARHGEF3_uc011bew.1_Missense_Mutation_p.F128S|ARHGEF3_uc003dih.2_Missense_Mutation_p.F160S|ARHGEF3_uc011bev.1_Missense_Mutation_p.F99S|ARHGEF3_uc003dif.2_Missense_Mutation_p.F134S|ARHGEF3_uc010hmy.1_5'UTR|ARHGEF3_uc003dii.2_Missense_Mutation_p.F128S	NM_019555	NP_062455	Q9NR81	ARHG3_HUMAN	Rho guanine nucleotide exchange factor 3 isoform	128	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)		GGAAAGCTCAAAGATCGCCTG	0.368													19	36	---	---	---	---	PASS	G	56787587	G	G	56787587	3	3	57	1	0	0	0	0	1	0	0	0	904	14	1	5	1225	5	ARHGEF3	3	56787587	Missense_Mutation	SNP	A	TCGA-33-4547-01A-01D-1267-08	7087758	56787587	141234843	62	21191										
STXBP5L	9515	broad.mit.edu	37	chr3	121137260	121137260	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ccaggtagtatagaagggatGaaaggcgctgctggaggggt	18	5	0	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:121137260G>A	uc003eec.3	+	27	3515	c.3375G>A	c.(3373-3375)ATG>ATA	p.M1125I	STXBP5L_uc011bji.1_Missense_Mutation_p.M1101I	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	1125	v-SNARE coiled-coil homology.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		TAGAAGGGATGAAAGGCGCTG	0.522													6	41	---	---	---	---	PASS	A	121137260	A	A	121137260	3	1	57	1	0	0	0	0	1	0	0	0	15356	1290	45	2	3477	2	STXBP5L	3	121137260	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	64349673	121137260	76885170	63	21192										
SNX4	8723	broad.mit.edu	37	chr3	125216804	125216804	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ggatccatgttgtcagcagaGagtttatgccaaacaaattc	9	8	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:125216804G>C	uc003eib.2	-	4	465	c.423C>G	c.(421-423)CTC>CTG	p.L141L	SNX4_uc011bkf.1_5'UTR	NM_003794	NP_003785	O95219	SNX4_HUMAN	sorting nexin 4	141	PX.				cell communication|endocytic recycling|endocytosis|protein transport	cytoplasmic dynein complex|early endosome membrane	phosphatidylinositol binding|protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4						TGTCAGCAGAGAGTTTATGCC	0.388													18	93	---	---	---	---	PASS	C	125216804	C	C	125216804	2	2	57	1	0	0	0	0	0	0	0	1	14904	929	33	2		2	SNX4	3	125216804	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	4079544	125216804	72805626	64	21193										
RASA2	5922	broad.mit.edu	37	chr3	141304930	141304930	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gtacgagtgagcctgtgcacCtgaaagaagggtaatttaat	12	6	0	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:141304930C>G	uc003etz.1	+	18	1816	c.1816C>G	c.(1816-1818)CTG>GTG	p.L606V	RASA2_uc010huq.1_Missense_Mutation_p.L606V|RASA2_uc003eua.1_Missense_Mutation_p.L606V|RASA2_uc011bnc.1_Missense_Mutation_p.L198V	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	606	PH.				intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6						GCCTGTGCACCTGAAAGAAGG	0.289													4	9	---	---	---	---	PASS	G	141304930	G	G	141304930	3	3	57	1	0	0	0	0	1	0	0	0	13061	680	24	4	1886	4	RASA2	3	141304930	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	16088126	141304930	56717500	65	21194										
MECOM	2122	broad.mit.edu	37	chr3	168838844	168838844	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctggagtgttgaaaacttacAgataaagggcttcacactgc	10	8	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:168838844A>C	uc003ffi.3	-	6	837	c.568T>G	c.(568-570)TGT>GGT	p.C190G	MECOM_uc010hwk.1_Missense_Mutation_p.C213G|MECOM_uc003ffj.3_Missense_Mutation_p.C255G|MECOM_uc011bpi.1_Missense_Mutation_p.C191G|MECOM_uc003ffn.3_Missense_Mutation_p.C190G|MECOM_uc003ffk.2_Missense_Mutation_p.C190G|MECOM_uc003ffl.2_Missense_Mutation_p.C350G|MECOM_uc011bpj.1_Missense_Mutation_p.C378G|MECOM_uc011bpk.1_Missense_Mutation_p.C180G|MECOM_uc010hwn.2_Missense_Mutation_p.C378G	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	190	Interaction with MAPK9, SMAD3 and probably SUV39H1.|C2H2-type 6.				apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						GAAAACTTACAGATAAAGGGC	0.552													44	70	---	---	---	---	PASS	C	168838844	C	C	168838844	3	2	57	1	0	0	0	0	1	0	0	0	9422	202	7	5	2631	5	MECOM	3	168838844	Missense_Mutation	SNP	A	TCGA-33-4547-01A-01D-1267-08	27533914	168838844	29183586	66	21195										
TNIK	23043	broad.mit.edu	37	chr3	170800083	170800083	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agtccctctagcacatccatCtgctgaaatcgcctccggtt	7	15	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:170800083C>G	uc003fhh.2	-	27	3615	c.3270G>C	c.(3268-3270)CAG>CAC	p.Q1090H	TNIK_uc003fhi.2_Missense_Mutation_p.Q1035H|TNIK_uc003fhj.2_Missense_Mutation_p.Q1061H|TNIK_uc003fhk.2_Missense_Mutation_p.Q1082H|TNIK_uc003fhl.2_Missense_Mutation_p.Q1006H|TNIK_uc003fhm.2_Missense_Mutation_p.Q1027H|TNIK_uc003fhn.2_Missense_Mutation_p.Q1053H|TNIK_uc003fho.2_Missense_Mutation_p.Q998H|TNIK_uc003fhg.2_Missense_Mutation_p.Q268H|TNIK_uc003fhp.2_Missense_Mutation_p.Q22H	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	1090	CNH.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			GCACATCCATCTGCTGAAATC	0.488													9	33	---	---	---	---	PASS	G	170800083	G	G	170800083	3	3	57	1	0	0	0	0	1	0	0	0	16310	912	32	2	840	2	TNIK	3	170800083	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	1961239	170800083	27222347	67	21196										
PIK3CA	5290	broad.mit.edu	37	chr3	178938934	178938934	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tcaaacaggagaagaaggatGaaacacaaaaggtgtgtgac	12	5	1	4			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:178938934G>A	uc003fjk.2	+	14	2333	c.2176G>A	c.(2176-2178)GAA>AAA	p.E726K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	726					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E726K(2)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GAAGAAGGATGAAACACAAAA	0.363		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			9	56	---	---	---	---	PASS	A	178938934	A	A	178938934	3	1	57	1	0	0	0	0	1	0	0	0	11913	1291	45	2	2226	2	PIK3CA	3	178938934	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	8138851	178938934	19083496	68	21197										
ABCC5	10057	broad.mit.edu	37	chr3	183655727	183655727	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agcaccggctcttgaggaatGatagagagtttgcttcggag	14	7	1	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:183655727G>C	uc003fmg.2	-	26	3981	c.3816C>G	c.(3814-3816)ATC>ATG	p.I1272M	ABCC5_uc011bqt.1_Missense_Mutation_p.I800M|ABCC5_uc010hxl.2_Missense_Mutation_p.I1229M	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	1272	ABC transporter 2.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			CTTGAGGAATGATAGAGAGTT	0.537													10	116	---	---	---	---	PASS	C	183655727	C	C	183655727	3	2	57	1	0	0	0	0	1	0	0	0	56	1280	45	2	517	2	ABCC5	3	183655727	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	4716793	183655727	14366703	69	21198										
EIF4A2	1974	broad.mit.edu	37	chr3	186502264	186502264	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tggaccccgatggtgtcatcGaggtaagaaacggttgtgga	15	7	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:186502264G>C	uc003fqs.2	+	2	112	c.73G>C	c.(73-75)GAG>CAG	p.E25Q	EIF4A2_uc003fqt.2_RNA|EIF4A2_uc003fqu.2_Missense_Mutation_p.E26Q|EIF4A2_uc003fqv.2_5'UTR|EIF4A2_uc003fqw.2_5'UTR|SNORD2_uc010hyu.1_5'Flank|EIF4A2_uc011bsb.1_5'Flank|MIR1248_hsa-mir-1248|MI0006383_5'Flank|SNORA81_uc010hyv.1_5'Flank|SNORA63_uc010hyw.1_5'Flank	NM_001967	NP_001958	Q14240	IF4A2_HUMAN	eukaryotic translation initiation factor 4A2	25					interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|protein binding|translation initiation factor activity			ovary(2)|breast(2)	4	all_cancers(143;2.68e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.07e-20)	GBM - Glioblastoma multiforme(93;0.0704)		TGGTGTCATCGAGGTAAGAAA	0.478			T	BCL6	NHL								31	389	---	---	---	---	PASS	C	186502264	C	C	186502264	3	2	57	1	0	0	0	0	1	0	0	0	5025	1059	37	2	79	2	EIF4A2	3	186502264	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	2846537	186502264	11520166	70	21199										
RTP2	344892	broad.mit.edu	37	chr3	187416707	187416707	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgaagacgcgcatgcgcaccGagcccgcccgctgggcgcgg	16	16	0	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:187416707G>A	uc003fro.1	-	2	686	c.257C>T	c.(256-258)TCG>TTG	p.S86L		NM_001004312	NP_001004312	Q5QGT7	RTP2_HUMAN	receptor transporting protein 2	86	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding				0	all_cancers(143;4.06e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0515)		CATGCGCACCGAGCCCGCCCG	0.662													11	82	---	---	---	---	PASS	A	187416707	A	A	187416707	3	1	57	1	0	0	0	0	1	0	0	0	13734	1059	37	2	424	2	RTP2	3	187416707	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	914443	187416707	10605723	71	21200										
ATP13A4	84239	broad.mit.edu	37	chr3	193151649	193151649	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cttacttgttacaccaataaGagttgtaatggccagatcct	7	9	0	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:193151649G>A	uc003ftd.2	-	25	2935	c.2827C>T	c.(2827-2829)CTT>TTT	p.L943F	ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	943	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)		ACACCAATAAGAGTTGTAATG	0.403													19	106	---	---	---	---	PASS	A	193151649	A	A	193151649	3	1	57	1	0	0	0	0	1	0	0	0	1126	942	33	2	787	2	ATP13A4	3	193151649	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	5734942	193151649	4870781	72	21201										
C3orf34	84984	broad.mit.edu	37	chr3	196434643	196434643	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgtttcccgttgaatttgttCcattgtttctgccagactct	7	10	2	2	rs139813132	by1000genomes	TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:196434643C>A	uc011btw.1	-	3	665	c.283G>T	c.(283-285)GAA>TAA	p.E95*		NM_032898	NP_116287	Q96LK0	CEP19_HUMAN	hypothetical protein LOC84984	91						centriole|spindle pole					0	all_cancers(143;1.48e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;1.08e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00301)		TGAATTTGTTCCATTGTTTCT	0.428													22	229	---	---	---	---	PASS	A	196434643	A	A	196434643	4	1	57	1	0	0	0	0	0	1	0	0	2224	864	30	2	224	2	C3orf34	3	196434643	Nonsense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	3282994	196434643	1587787	73	21202										
C3orf34	84984	broad.mit.edu	37	chr3	196434703	196434703	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	taaaaaactgaatagcttctCtagctgcctcagggatactt	7	9	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr3:196434703C>G	uc011btw.1	-	3	605	c.223G>C	c.(223-225)GAG>CAG	p.E75Q		NM_032898	NP_116287	Q96LK0	CEP19_HUMAN	hypothetical protein LOC84984	71						centriole|spindle pole					0	all_cancers(143;1.48e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;1.08e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00301)		AATAGCTTCTCTAGCTGCCTC	0.438													30	230	---	---	---	---	PASS	G	196434703	G	G	196434703	3	3	57	1	0	0	0	0	1	0	0	0	2224	922	32	2	284	2	C3orf34	3	196434703	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	60	196434703	1587727	74	21203										
JAKMIP1	152789	broad.mit.edu	37	chr4	6064080	6064080	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cagcgtgcctcccacctgctCctggagcagggcgtaggcgc	14	16	0	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr4:6064080C>T	uc003giu.3	-	10	1795	c.1519G>A	c.(1519-1521)GAG>AAG	p.E507K	JAKMIP1_uc010idb.1_Missense_Mutation_p.E507K|JAKMIP1_uc010idc.1_Missense_Mutation_p.E322K|JAKMIP1_uc010idd.1_Intron|JAKMIP1_uc011bwc.1_Missense_Mutation_p.E342K|JAKMIP1_uc003giv.3_Missense_Mutation_p.E507K|JAKMIP1_uc010ide.2_Missense_Mutation_p.E507K	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	507	Mediates interaction with TYK2 and GABBR1.|Potential.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						CCCACCTGCTCCTGGAGCAGG	0.682													33	86	---	---	---	---	PASS	T	6064080	T	T	6064080	3	4	57	1	0	0	0	0	1	0	0	0	7940	864	30	2	1099	2	JAKMIP1	4	6064080	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08		6064080	185090196	75	21204										
CCDC158	339965	broad.mit.edu	37	chr4	77276503	77276503	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgcatttgtcattgcctcttCcaaaaactgtatcttgctct	5	11	4	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr4:77276503C>A	uc003hkb.3	-	14	2413	c.2260G>T	c.(2260-2262)GAA>TAA	p.E754*		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	754	Potential.									skin(3)|ovary(2)|pancreas(1)	6						ATTGCCTCTTCCAAAAACTGT	0.438													40	115	---	---	---	---	PASS	A	77276503	A	A	77276503	4	1	57	1	0	0	0	0	0	1	0	0	2790	864	30	2	1125	2	CCDC158	4	77276503	Nonsense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	71212423	77276503	113877773	76	21205										
SHROOM3	57619	broad.mit.edu	37	chr4	77662003	77662003	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tccgtagccagagcaccttcCagctctccagcgagccagag	10	16	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr4:77662003C>T	uc011cbx.1	+	5	3630	c.2677C>T	c.(2677-2679)CAG>TAG	p.Q893*	SHROOM3_uc011cbz.1_Nonsense_Mutation_p.Q717*|SHROOM3_uc003hkf.1_Nonsense_Mutation_p.Q768*|SHROOM3_uc003hkg.2_Nonsense_Mutation_p.Q671*	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	893					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			GAGCACCTTCCAGCTCTCCAG	0.731													5	21	---	---	---	---	PASS	T	77662003	T	T	77662003	4	4	57	1	0	0	0	0	0	1	0	0	14295	595	21	3	2695	3	SHROOM3	4	77662003	Nonsense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	385500	77662003	113492273	77	21206										
TET2	54790	broad.mit.edu	37	chr4	106155466	106155466	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aaaaggctaatggagaaagaCgtaacttcggggtaagccaa	12	6	0	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr4:106155466C>A	uc003hxk.2	+	3	753	c.367C>A	c.(367-369)CGT>AGT	p.R123S	TET2_uc011cez.1_Missense_Mutation_p.R144S|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Missense_Mutation_p.R123S|TET2_uc003hxi.1_Missense_Mutation_p.R123S	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	123			R -> H.		cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		TGGAGAAAGACGTAACTTCGG	0.423			Mis N|F		MDS								3	38	---	---	---	---	PASS	A	106155466	A	A	106155466	3	1	57	1	0	0	0	0	1	0	0	0	15767	536	19	1	369	1	TET2	4	106155466	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	28493463	106155466	84998810	78	21207										
TET2	54790	broad.mit.edu	37	chr4	106157923	106157923	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gaagtcacactcagacccctCcccagaaggacactcaaaag	7	15	3	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr4:106157923C>T	uc003hxk.2	+	3	3210	c.2824C>T	c.(2824-2826)CCC>TCC	p.P942S	TET2_uc011cez.1_Missense_Mutation_p.P963S|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Missense_Mutation_p.P942S|TET2_uc003hxi.1_Missense_Mutation_p.P942S	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	942	Gln-rich.				cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		TCAGACCCCTCCCCAGAAGGA	0.488			Mis N|F		MDS								15	26	---	---	---	---	PASS	T	106157923	T	T	106157923	3	4	57	1	0	0	0	0	1	0	0	0	15767	855	30	2	2826	2	TET2	4	106157923	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	2457	106157923	84996353	79	21208										
C4orf21	55345	broad.mit.edu	37	chr4	113539912	113539912	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cttcttgaatgtcagattctGataatataccatcattttct	4	8	5	3	rs147826438		TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr4:113539912G>C	uc003iau.2	-	6	1497	c.1286C>G	c.(1285-1287)TCA>TGA	p.S429*	C4orf21_uc003iaw.2_Nonsense_Mutation_p.S429*	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		GTCAGATTCTGATAATATACC	0.338													3	68	---	---	---	---	PASS	C	113539912	C	C	113539912	4	2	57	1	0	0	0	0	0	1	0	0	2254	1294	45	2	5120	2	C4orf21	4	113539912	Nonsense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	7381989	113539912	77614364	80	21209										
BBS7	55212	broad.mit.edu	37	chr4	122775966	122775966	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tcccaaacaaaaggtcttctCcagagtcacctacttataat	4	12	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr4:122775966C>G	uc003ied.2	-	7	785	c.611G>C	c.(610-612)GGA>GCA	p.G204A	BBS7_uc003iee.1_Missense_Mutation_p.G204A	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	204					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						AAGGTCTTCTCCAGAGTCACC	0.299									Bardet-Biedl_syndrome				5	37	---	---	---	---	PASS	G	122775966	G	G	122775966	3	3	57	1	0	0	0	0	1	0	0	0	1341	855	30	2	1593	2	BBS7	4	122775966	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	9236054	122775966	68378310	81	21210										
HSPA4L	22824	broad.mit.edu	37	chr4	128724970	128724970	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgagtgcaaatgcatcagatCttccattgaacattgagtgt	9	7	2	4			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr4:128724970C>T	uc003ifm.2	+	7	1103	c.850C>T	c.(850-852)CTT>TTT	p.L284F	HSPA4L_uc010iny.1_Missense_Mutation_p.L243F|HSPA4L_uc011cgr.1_Missense_Mutation_p.L251F	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	284					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						TGCATCAGATCTTCCATTGAA	0.323													12	24	---	---	---	---	PASS	T	128724970	T	T	128724970	3	4	57	1	0	0	0	0	1	0	0	0	7413	913	32	2	876	2	HSPA4L	4	128724970	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	5949004	128724970	62429306	82	21211										
PCDH10	57575	broad.mit.edu	37	chr4	134073688	134073688	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gagctccaatgtacccagtaAcccggcccaggtgccgatag	11	14	0	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr4:134073688A>C	uc003iha.2	+	1	3219	c.2393A>C	c.(2392-2394)AAC>ACC	p.N798T	PCDH10_uc003igz.2_Missense_Mutation_p.N798T	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	798	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GTACCCAGTAACCCGGCCCAG	0.607													7	34	---	---	---	---	PASS	C	134073688	C	C	134073688	3	2	57	1	0	0	0	0	1	0	0	0	11507	43	2	5	2395	5	PCDH10	4	134073688	Missense_Mutation	SNP	A	TCGA-33-4547-01A-01D-1267-08	5348718	134073688	57080588	83	21212										
PALLD	23022	broad.mit.edu	37	chr4	169835086	169835086	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	atatttctacagggccgcatCagttgtactggacggctaat	10	9	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr4:169835086C>T	uc011cjx.1	+	16	2842	c.2631C>T	c.(2629-2631)ATC>ATT	p.I877I	CBR4_uc011cjy.1_Intron|PALLD_uc003iru.2_Silent_p.I860I|PALLD_uc003irv.2_Silent_p.I478I|PALLD_uc003irw.2_Silent_p.I362I|PALLD_uc003irx.2_Silent_p.I86I	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2	1084	Ig-like C2-type 3.				cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)		AGGGCCGCATCAGTTGTACTG	0.423									Pancreatic_Cancer_Familial_Clustering_of				11	41	---	---	---	---	PASS	T	169835086	T	T	169835086	2	4	57	1	0	0	0	0	0	0	0	1	11407	816	29	2		2	PALLD	4	169835086	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	35761398	169835086	21319190	84	21213										
ADCY2	108	broad.mit.edu	37	chr5	7727361	7727361	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcatcttcattgtgcagattCtcgtgctgccaaagtaagta	9	9	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr5:7727361C>T	uc003jdz.1	+	14	1925	c.1858C>T	c.(1858-1860)CTC>TTC	p.L620F	ADCY2_uc011cmo.1_Missense_Mutation_p.L440F	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	620	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						TGTGCAGATTCTCGTGCTGCC	0.493													9	65	---	---	---	---	PASS	T	7727361	T	T	7727361	3	4	57	1	0	0	0	0	1	0	0	0	294	913	32	2	1912	2	ADCY2	5	7727361	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08		7727361	173187899	85	21214										
FAM105B	90268	broad.mit.edu	37	chr5	14693101	14693101	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cagtggtaacgctcattgctGaggacgatcggcactataac	11	10	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr5:14693101G>C	uc003jfk.2	+	7	1155	c.1003G>C	c.(1003-1005)GAG>CAG	p.E335Q		NM_138348	NP_612357	Q96BN8	F105B_HUMAN	hypothetical protein LOC90268	335										ovary(2)	2	Lung NSC(4;0.00696)					GCTCATTGCTGAGGACGATCG	0.562													5	41	---	---	---	---	PASS	C	14693101	C	C	14693101	3	2	57	1	0	0	0	0	1	0	0	0	5388	1291	45	2	1029	2	FAM105B	5	14693101	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	6965740	14693101	166222159	86	21215										
CDH10	1008	broad.mit.edu	37	chr5	24535881	24535881	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aatgactctggcgctgttccCatatgaagggtcatcggcat	11	10	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr5:24535881C>A	uc003jgr.1	-	4	909	c.577G>T	c.(577-579)GGG>TGG	p.G193W	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	193	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		GCGCTGTTCCCATATGAAGGG	0.468										HNSCC(23;0.051)			8	47	---	---	---	---	PASS	A	24535881	A	A	24535881	3	1	57	1	0	0	0	0	1	0	0	0	3096	594	21	3	1825	3	CDH10	5	24535881	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	9842780	24535881	156379379	87	21216										
GPR98	84059	broad.mit.edu	37	chr5	89986823	89986823	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ccattcaaaccttgttgttaGaggtcctggctgacgacgtt	10	10	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr5:89986823G>C	uc003kju.2	+	31	7012	c.6916G>C	c.(6916-6918)GAG>CAG	p.E2306Q	GPR98_uc003kjt.2_Intron|GPR98_uc003kjv.2_5'Flank	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2306	Calx-beta 16.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CTTGTTGTTAGAGGTCCTGGC	0.483													17	36	---	---	---	---	PASS	C	89986823	C	C	89986823	3	2	57	1	0	0	0	0	1	0	0	0	6721	943	33	2	7038	2	GPR98	5	89986823	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	65450942	89986823	90928437	88	21217										
ST8SIA4	7903	broad.mit.edu	37	chr5	100222116	100222116	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	acagaatgccagaatttccaAcaactgcacaggtcttaaac	6	11	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr5:100222116A>T	uc003knk.2	-	3	762	c.434T>A	c.(433-435)GTT>GAT	p.V145D	ST8SIA4_uc003knl.2_Missense_Mutation_p.V145D	NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	145	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		AGAATTTCCAACAACTGCACA	0.408													21	50	---	---	---	---	PASS	T	100222116	T	T	100222116	3	4	57	1	0	0	0	0	1	0	0	0	15233	43	2	5	661	5	ST8SIA4	5	100222116	Missense_Mutation	SNP	A	TCGA-33-4547-01A-01D-1267-08	10235293	100222116	80693144	89	21218										
CHSY3	337876	broad.mit.edu	37	chr5	129520539	129520539	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tatcttcagcagttgttcagCaagcctttcttcagagagac	8	10	5	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr5:129520539C>A	uc003kvd.2	+	3	1704	c.1704C>A	c.(1702-1704)AGC>AGA	p.S568R		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	568	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		AGTTGTTCAGCAAGCCTTTCT	0.398													3	29	---	---	---	---	PASS	A	129520539	A	A	129520539	3	1	57	1	0	0	0	0	1	0	0	0	3413	709	25	3	1714	3	CHSY3	5	129520539	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	29298423	129520539	51394721	90	21219										
PCDHA3	56145	broad.mit.edu	37	chr5	140183011	140183011	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cccacgctggtgtgctccagCgcggtggggagctggtcata	16	12	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr5:140183011C>A	uc003lhf.2	+	1	2229	c.2229C>A	c.(2227-2229)AGC>AGA	p.S743R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.S743R	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	743	Cytoplasmic (Potential).|6 X 4 AA repeats of P-X-X-P.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTGCTCCAGCGCGGTGGGGA	0.637													4	209	---	---	---	---	PASS	A	140183011	A	A	140183011	3	1	57	1	0	0	0	0	1	0	0	0	11525	767	27	1	2231	1	PCDHA3	5	140183011	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	10662472	140183011	40732249	91	21220										
PCDHA6	56142	broad.mit.edu	37	chr5	140209689	140209689	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gttctggtgtcgctggtggaGagtggccaggctccaaaggc	17	9	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr5:140209689G>C	uc003lho.2	+	1	2040	c.2013G>C	c.(2011-2013)GAG>GAC	p.E671D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Missense_Mutation_p.E671D	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	671	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCTGGTGGAGAGTGGCCAGG	0.677													39	65	---	---	---	---	PASS	C	140209689	C	C	140209689	3	2	57	1	0	0	0	0	1	0	0	0	11528	933	33	2	2015	2	PCDHA6	5	140209689	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	26678	140209689	40705571	92	21221										
PCDHGA3	56112	broad.mit.edu	37	chr5	140725244	140725244	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctcagcagcaacgtgtcgctGaacctgttcgtgctggacca	11	13	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr5:140725244G>A	uc003ljm.1	+	1	1644	c.1644G>A	c.(1642-1644)CTG>CTA	p.L548L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.L308L|PCDHGA3_uc011dap.1_Silent_p.L548L	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	548	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGTGTCGCTGAACCTGTTCG	0.612													111	145	---	---	---	---	PASS	A	140725244	A	A	140725244	2	1	57	1	0	0	0	0	0	0	0	1	11555	1277	45	2		2	PCDHGA3	5	140725244	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	515555	140725244	40190016	93	21222										
SLIT3	6586	broad.mit.edu	37	chr5	168093540	168093540	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ccgtccgtgcactggaagacGtatttccgccgcttgctgcg	12	14	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr5:168093540G>A	uc003mab.2	-	36	4911	c.4491C>T	c.(4489-4491)TAC>TAT	p.Y1497Y	SLIT3_uc010jjg.2_Silent_p.Y1504Y	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	1497	CTCK.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACTGGAAGACGTATTTCCGCC	0.627													3	31	---	---	---	---	PASS	A	168093540	A	A	168093540	2	1	57	1	0	0	0	0	0	0	0	1	14741	1140	40	1		1	SLIT3	5	168093540	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	27368296	168093540	12821720	94	21223										
HIST1H2BC	8347	broad.mit.edu	37	chr6	26123911	26123911	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aggcgggaagcctcgcccgcGatgcgctcaaatatgtcgtt	13	12	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:26123911G>A	uc003ngk.3	-	1	244	c.222C>T	c.(220-222)ATC>ATT	p.I74I	HIST1H2BC_uc003ngl.2_Silent_p.I74I|HIST1H2AC_uc003ngm.2_5'Flank|HIST1H2AC_uc003ngn.2_5'Flank|HIST1H2AC_uc003ngo.2_5'Flank|HIST1H2AC_uc003ngp.2_5'Flank	NM_003526	NP_003517	P62807	H2B1C_HUMAN	histone cluster 1, H2bc	74					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			ovary(1)	1						CCTCGCCCGCGATGCGCTCAA	0.582													48	151	---	---	---	---	PASS	A	26123911	A	A	26123911	2	1	57	1	0	0	0	0	0	0	0	1	7142	1048	37	2		2	HIST1H2BC	6	26123911	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08		26123911	144991156	95	21224										
NOTCH4	4855	broad.mit.edu	37	chr6	32163533	32163533	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctcctactcccgagaggctcCggcaatgagaataggccccg	11	15	0	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:32163533C>G	uc003obb.2	-	30	5832	c.5693G>C	c.(5692-5694)CGG>CCG	p.R1898P	GPSM3_uc003oax.3_5'Flank|GPSM3_uc003oay.3_5'Flank|GPSM3_uc003oaz.2_5'Flank|NOTCH4_uc011dpt.1_3'UTR|NOTCH4_uc003oba.2_Missense_Mutation_p.R558P|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1898	Cytoplasmic (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						CGAGAGGCTCCGGCAATGAGA	0.687													13	22	---	---	---	---	PASS	G	32163533	G	G	32163533	3	3	57	1	0	0	0	0	1	0	0	0	10551	652	23	4	322	4	NOTCH4	6	32163533	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	6039622	32163533	138951534	96	21225										
TBX18	9096	broad.mit.edu	37	chr6	85446684	85446684	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aaaagtattataggaaccctGatgggtctggttagtggcga	13	5	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:85446684G>C	uc003pkl.1	-	8	1543	c.1543C>G	c.(1543-1545)CAG>GAG	p.Q515E	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	515					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TAGGAACCCTGATGGGTCTGG	0.483													41	193	---	---	---	---	PASS	C	85446684	C	C	85446684	3	2	57	1	0	0	0	0	1	0	0	0	15650	1299	45	2	284	2	TBX18	6	85446684	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	53283151	85446684	85668383	97	21226										
FUT9	10690	broad.mit.edu	37	chr6	96651713	96651713	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	catttggagaatatgtcaatGataaaaatttgattcctacc	6	6	1	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:96651713G>A	uc003pop.3	+	3	1023	c.682G>A	c.(682-684)GAT>AAT	p.D228N		NM_006581	NP_006572	Q9Y231	FUT9_HUMAN	fucosyltransferase 9 (alpha (1,3)	228	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			skin(4)|ovary(1)	5		all_cancers(76;4.77e-07)|Acute lymphoblastic leukemia(125;4.01e-09)|all_hematologic(75;1.25e-06)|all_epithelial(107;0.00279)|Colorectal(196;0.0356)		BRCA - Breast invasive adenocarcinoma(108;0.08)		ATATGTCAATGATAAAAATTT	0.348													4	19	---	---	---	---	PASS	A	96651713	A	A	96651713	3	1	57	1	0	0	0	0	1	0	0	0	6111	1290	45	2	684	2	FUT9	6	96651713	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	11205029	96651713	74463354	98	21227										
NR2E1	7101	broad.mit.edu	37	chr6	108502128	108502128	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gttagatgctactgaatttgCctgtctaaaatgcatcgtca	8	8	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:108502128C>T	uc003psg.2	+	7	1612	c.857C>T	c.(856-858)GCC>GTC	p.A286V		NM_003269	NP_003260	Q9Y466	NR2E1_HUMAN	nuclear receptor subfamily 2, group E, member 1	286	Ligand-binding (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(87;8.13e-05)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00866)|Colorectal(196;0.0637)		BRCA - Breast invasive adenocarcinoma(108;0.013)|Epithelial(106;0.0521)|all cancers(137;0.068)|OV - Ovarian serous cystadenocarcinoma(136;0.0689)		ACTGAATTTGCCTGTCTAAAA	0.458													5	219	---	---	---	---	PASS	T	108502128	T	T	108502128	3	4	57	1	0	0	0	0	1	0	0	0	10625	739	26	3	883	3	NR2E1	6	108502128	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	11850415	108502128	62612939	99	21228										
CD164	8763	broad.mit.edu	37	chr6	109700790	109700790	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aaagtttcttacctttacatTctatccaaaagcaggtagta	5	8	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:109700790T>C	uc003pte.2	-	2	432	c.251A>G	c.(250-252)GAA>GGA	p.E84G	CD164_uc003ptd.2_Missense_Mutation_p.E84G|CD164_uc003ptf.2_Missense_Mutation_p.E84G|CD164_uc011eap.1_Missense_Mutation_p.E84G|CD164_uc010kdn.2_Missense_Mutation_p.E84G	NM_006016	NP_006007	Q04900	MUC24_HUMAN	CD164 molecule, sialomucin isoform 1	84	Extracellular (Potential).				hemopoiesis|heterophilic cell-cell adhesion|immune response|muscle organ development|negative regulation of cell adhesion|negative regulation of cell proliferation|signal transduction	endosome membrane|extracellular region|integral to plasma membrane|lysosomal membrane	protein binding				0		all_cancers(87;4.65e-22)|all_epithelial(87;2.54e-20)|all_lung(197;1.6e-05)|Lung NSC(302;2.92e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.0175)		Epithelial(106;7.83e-46)|all cancers(137;1.15e-45)|OV - Ovarian serous cystadenocarcinoma(136;2.89e-26)|BRCA - Breast invasive adenocarcinoma(108;0.00128)|GBM - Glioblastoma multiforme(226;0.16)		ACCTTTACATTCTATCCAAAA	0.378													14	67	---	---	---	---	PASS	C	109700790	C	C	109700790	3	2	57	1	0	0	0	0	1	0	0	0	2969	1783	62	5	413	5	CD164	6	109700790	Missense_Mutation	SNP	T	TCGA-33-4547-01A-01D-1267-08	1198662	109700790	61414277	100	21229										
GPR6	2830	broad.mit.edu	37	chr6	110300475	110300475	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcggcggagctaatgggtctCtggagctgtcctcgcagctg	16	11	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:110300475C>G	uc011eaw.1	+	2	340	c.160C>G	c.(160-162)CTG>GTG	p.L54V	GPR6_uc011eav.1_Missense_Mutation_p.L69V|GPR6_uc003ptu.2_Missense_Mutation_p.L54V	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	54	Extracellular (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		TAATGGGTCTCTGGAGCTGTC	0.572													34	238	---	---	---	---	PASS	G	110300475	G	G	110300475	3	3	57	1	0	0	0	0	1	0	0	0	6701	912	32	2	162	2	GPR6	6	110300475	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	599685	110300475	60814592	101	21230										
WISP3	8838	broad.mit.edu	37	chr6	112389443	112389443	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cacttatttggaaaaaaaaaTgtcttgtgcaagcaacaaaa	6	6	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:112389443T>A	uc003pvm.2	+	5	735	c.625T>A	c.(625-627)TGT>AGT	p.C209S	WISP3_uc003pvn.2_RNA|WISP3_uc003pvo.2_Missense_Mutation_p.C227S	NM_003880	NP_003871	O95389	WISP3_HUMAN	WNT1 inducible signaling pathway protein 3	209	TSP type-1.				cell-cell signaling|regulation of cell growth|signal transduction	extracellular region|soluble fraction	growth factor activity|insulin-like growth factor binding				0		all_cancers(87;0.000196)|Acute lymphoblastic leukemia(125;1.18e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0283)|OV - Ovarian serous cystadenocarcinoma(136;0.0613)|Epithelial(106;0.0827)|GBM - Glioblastoma multiforme(226;0.0972)|BRCA - Breast invasive adenocarcinoma(108;0.246)		GAAAAAAAAATGTCTTGTGCA	0.333													14	21	---	---	---	---	PASS	A	112389443	A	A	112389443	3	1	57	1	0	0	0	0	1	0	0	0	17371	1464	51	5	693	5	WISP3	6	112389443	Missense_Mutation	SNP	T	TCGA-33-4547-01A-01D-1267-08	2088968	112389443	58725624	102	21231										
PHACTR2	9749	broad.mit.edu	37	chr6	144086763	144086763	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tggccccccctctccctcttGaggatcagtgcattactgcc	8	17	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:144086763G>A	uc003qjq.3	+	6	1157	c.1027G>A	c.(1027-1029)GAG>AAG	p.E343K	PHACTR2_uc010khh.2_Missense_Mutation_p.E263K|PHACTR2_uc010khi.2_Missense_Mutation_p.E354K|PHACTR2_uc003qjr.3_Missense_Mutation_p.E274K	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3	343							actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		TCTCCCTCTTGAGGATCAGTG	0.592													14	83	---	---	---	---	PASS	A	144086763	A	A	144086763	3	1	57	1	0	0	0	0	1	0	0	0	11810	1291	45	2	1099	2	PHACTR2	6	144086763	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	31697320	144086763	27028304	103	21232										
RMND1	55005	broad.mit.edu	37	chr6	151766679	151766679	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tggaaggtgtgccttttcatCttggcaacgagcagcattta	11	8	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:151766679C>G	uc003qoi.2	-	2	448	c.268G>C	c.(268-270)GAT>CAT	p.D90H	RMND1_uc011eeq.1_5'Flank|RMND1_uc003qoj.2_Missense_Mutation_p.D90H|RMND1_uc011eer.1_Missense_Mutation_p.D90H	NM_017909	NP_060379	Q9NWS8	RMND1_HUMAN	required for meiotic nuclear division 1 homolog	90											0		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.146)	OV - Ovarian serous cystadenocarcinoma(155;6.8e-11)		GCCTTTTCATCTTGGCAACGA	0.393													7	322	---	---	---	---	PASS	G	151766679	G	G	151766679	3	3	57	1	0	0	0	0	1	0	0	0	13396	913	32	2	1125	2	RMND1	6	151766679	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	7679916	151766679	19348388	104	21233										
SYNE1	23345	broad.mit.edu	37	chr6	152690680	152690680	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gctttcatggaccatcttctCagttttactcagccagtcct	6	13	4	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:152690680C>T	uc010kiw.2	-	60	10179	c.9577G>A	c.(9577-9579)GAG>AAG	p.E3193K	SYNE1_uc003qot.3_Missense_Mutation_p.E3200K|SYNE1_uc003qou.3_Missense_Mutation_p.E3193K|SYNE1_uc010kja.1_5'UTR|SYNE1_uc003qov.2_Missense_Mutation_p.E271K	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3193	Spectrin 6.|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)		ACCATCTTCTCAGTTTTACTC	0.502										HNSCC(10;0.0054)			14	50	---	---	---	---	PASS	T	152690680	T	T	152690680	3	4	57	1	0	0	0	0	1	0	0	0	15442	835	29	2	17237	2	SYNE1	6	152690680	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	924001	152690680	18424387	105	21234										
RBM16	22828	broad.mit.edu	37	chr6	155152162	155152162	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gccagcaatcttgctacttcCgctctgccagctggaaatgt	9	13	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:155152162C>A	uc003qqa.2	+	20	2479	c.2247C>A	c.(2245-2247)TCC>TCA	p.S749S	TIAM2_uc003qqb.2_5'Flank|RBM16_uc011efj.1_Silent_p.S815S|RBM16_uc011efk.1_Silent_p.S794S|RBM16_uc003qpz.2_Silent_p.S749S|RBM16_uc010kji.2_Silent_p.S770S	NM_014892	NP_055707	Q9UPN6	SCAF8_HUMAN	RNA-binding motif protein 16	749	Pro-rich.				mRNA processing|RNA splicing	nuclear matrix|spliceosomal complex	nucleotide binding|RNA binding|RNA polymerase core enzyme binding				0		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;2.33e-15)|BRCA - Breast invasive adenocarcinoma(81;0.00524)		TTGCTACTTCCGCTCTGCCAG	0.448													3	76	---	---	---	---	PASS	A	155152162	A	A	155152162	2	1	57	1	0	0	0	0	0	0	0	1	13118	639	23	1		1	RBM16	6	155152162	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	2461482	155152162	15962905	106	21235										
PDE10A	10846	broad.mit.edu	37	chr6	165809938	165809938	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgcactctgagtggcgaattCtatgatacatctagaaggca	10	8	3	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr6:165809938C>T	uc003qun.2	-	15	1500	c.1259G>A	c.(1258-1260)AGA>AAA	p.R420K	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.R350K|PDE10A_uc003quo.2_Missense_Mutation_p.R430K	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	420					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	GTGGCGAATTCTATGATACAT	0.373													9	80	---	---	---	---	PASS	T	165809938	T	T	165809938	3	4	57	1	0	0	0	0	1	0	0	0	11630	913	32	2	1116	2	PDE10A	6	165809938	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	10657776	165809938	5305129	107	21236										
AMPH	273	broad.mit.edu	37	chr7	38502604	38502604	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgaccgaggccgtgctggtgCgggagacgcaggtgctaatg	18	9	0	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr7:38502604C>T	uc003tgu.2	-	10	928	c.859G>A	c.(859-861)GCA>ACA	p.A287T	AMPH_uc003tgv.2_Missense_Mutation_p.A287T|AMPH_uc003tgt.2_Missense_Mutation_p.A40T	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	287					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						CGTGCTGGTGCGGGAGACGCA	0.547													14	103	---	---	---	---	PASS	T	38502604	T	T	38502604	3	4	57	1	0	0	0	0	1	0	0	0	588	768	27	1	1276	1	AMPH	7	38502604	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08		38502604	120636059	108	21237										
WBSCR17	64409	broad.mit.edu	37	chr7	71175772	71175772	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cgctacaccaaggaaggcttCctgcacttgggtgccctggg	13	13	0	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr7:71175772C>A	uc003tvy.2	+	10	1527	c.1527C>A	c.(1525-1527)TTC>TTA	p.F509L	WBSCR17_uc003tvz.2_Missense_Mutation_p.F208L	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	509	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				AGGAAGGCTTCCTGCACTTGG	0.632													22	102	---	---	---	---	PASS	A	71175772	A	A	71175772	3	1	57	1	0	0	0	0	1	0	0	0	17261	854	30	2	1565	2	WBSCR17	7	71175772	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	32673168	71175772	87962891	109	21238										
MGC26647	219557	broad.mit.edu	37	chr7	88423766	88423766	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgacctcctttagggactgtGactgtgtcacatcgtcgaga	11	10	1	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr7:88423766G>A	uc003ujv.2	-	2	673	c.491C>T	c.(490-492)TCA>TTA	p.S164L	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	164											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			TAGGGACTGTGACTGTGTCAC	0.398													19	98	---	---	---	---	PASS	A	88423766	A	A	88423766	3	1	57	1	0	0	0	0	1	0	0	0	9550	1294	45	2	274	2	MGC26647	7	88423766	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	17247994	88423766	70714897	110	21239										
AKAP9	10142	broad.mit.edu	37	chr7	91631106	91631106	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gaagctgaattagagaggctGagaacacagcttctatttag	11	6	1	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr7:91631106G>C	uc003ulg.2	+	8	2100	c.1875G>C	c.(1873-1875)CTG>CTC	p.L625L	AKAP9_uc003ule.2_Silent_p.L637L|AKAP9_uc003ulf.2_Silent_p.L625L|AKAP9_uc003uli.2_Silent_p.L250L	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	637	Glu-rich.|Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TAGAGAGGCTGAGAACACAGC	0.308			T	BRAF	papillary thyroid								7	60	---	---	---	---	PASS	C	91631106	C	C	91631106	2	2	57	1	0	0	0	0	0	0	0	1	459	1277	45	2		2	AKAP9	7	91631106	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	3207340	91631106	67507557	111	21240										
ARPC1A	10552	broad.mit.edu	37	chr7	98951667	98951667	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgggtccacggggtaagcttCtctgccagtgggagccgcct	15	12	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr7:98951667C>G	uc003upx.1	+	6	783	c.636C>G	c.(634-636)TTC>TTG	p.F212L	ARPC1A_uc010lfu.1_RNA|ARPC1A_uc003upy.1_Missense_Mutation_p.F198L|ARPC1A_uc011kit.1_RNA	NM_006409	NP_006400	Q92747	ARC1A_HUMAN	actin related protein 2/3 complex subunit 1A	212	WD 4.				actin cytoskeleton organization|regulation of actin filament polymerization	actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	all_cancers(62;4.46e-09)|all_epithelial(64;3.44e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0258)		STAD - Stomach adenocarcinoma(171;0.215)			GGGTAAGCTTCTCTGCCAGTG	0.592													35	138	---	---	---	---	PASS	G	98951667	G	G	98951667	3	3	57	1	0	0	0	0	1	0	0	0	969	912	32	2	654	2	ARPC1A	7	98951667	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	7320561	98951667	60186996	112	21241										
PILRA	29992	broad.mit.edu	37	chr7	99971947	99971947	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttcctcaggatctccaacctGcagaagcaggaccagtctgt	9	13	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr7:99971947G>T	uc003uuo.1	+	2	557	c.345G>T	c.(343-345)CTG>CTT	p.L115L	PILRA_uc011kjn.1_Silent_p.L115L|PILRA_uc011kjo.1_Silent_p.L115L|PILRA_uc003uup.1_Silent_p.L115L|PILRA_uc003uuq.1_Silent_p.L115L	NM_013439	NP_038467	Q9UKJ1	PILRA_HUMAN	paired immunoglobulin-like type 2 receptor alpha	115	Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms	extracellular region|integral to membrane|plasma membrane	protein binding|receptor activity			skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TCTCCAACCTGCAGAAGCAGG	0.557													10	249	---	---	---	---	PASS	T	99971947	T	T	99971947	2	4	57	1	0	0	0	0	0	0	0	1	11925	1306	46	3		3	PILRA	7	99971947	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	1020280	99971947	59166716	113	21242										
RELN	5649	broad.mit.edu	37	chr7	103124174	103124174	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgggcgatgacatgccaggtGatcccgttgttgacgctgta	14	9	0	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr7:103124174G>A	uc003vca.2	-	62	10267	c.10107C>T	c.(10105-10107)ATC>ATT	p.I3369I	RELN_uc010liz.2_Silent_p.I3369I	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3369	BNR 16.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CATGCCAGGTGATCCCGTTGT	0.562													62	123	---	---	---	---	PASS	A	103124174	A	A	103124174	2	1	57	1	0	0	0	0	0	0	0	1	13220	1280	45	2		2	RELN	7	103124174	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	3152227	103124174	56014489	114	21243										
SND1	27044	broad.mit.edu	37	chr7	127528043	127528043	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agagatcatcacactacgatGaactgcttgctgcagaggcc	10	11	2	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr7:127528043G>C	uc003vmi.2	+	13	1658	c.1432G>C	c.(1432-1434)GAA>CAA	p.E478Q	SND1_uc010lle.2_Missense_Mutation_p.E131Q	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	478	TNase-like 3.				gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						ACACTACGATGAACTGCTTGC	0.468													3	32	---	---	---	---	PASS	C	127528043	C	C	127528043	3	2	57	1	0	0	0	0	1	0	0	0	14844	1291	45	2	1482	2	SND1	7	127528043	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	24403869	127528043	31610620	115	21244										
LPL	4023	broad.mit.edu	37	chr8	19797007	19797007	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cgtgtggctccagagtctgaCcgcctcccgcggaggggtgg	17	13	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr8:19797007C>A	uc003wzk.3	+	1	426	c.56C>A	c.(55-57)ACC>AAC	p.T19N		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor	19					fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	CAGAGTCTGACCGCCTCCCGC	0.692													3	17	---	---	---	---	PASS	A	19797007	A	A	19797007	3	1	57	1	0	0	0	0	1	0	0	0	8921	507	18	3	58	3	LPL	8	19797007	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08		19797007	126567015	116	21245										
KCTD9	54793	broad.mit.edu	37	chr8	25293004	25293004	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tcgaaggtccaaacgagaaaGatcagcaccactgaagttca	9	10	2	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr8:25293004G>C	uc003xeo.2	-	9	846	c.688C>G	c.(688-690)CTT>GTT	p.L230V	PPP2R2A_uc003xek.2_Intron|KCTD9_uc011lad.1_5'Flank	NM_017634	NP_060104	Q7L273	KCTD9_HUMAN	potassium channel tetramerisation domain	230						voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		AAACGAGAAAGATCAGCACCA	0.358													6	19	---	---	---	---	PASS	C	25293004	C	C	25293004	3	2	57	1	0	0	0	0	1	0	0	0	8116	942	33	2	497	2	KCTD9	8	25293004	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	5495997	25293004	121071018	117	21246										
GPR124	25960	broad.mit.edu	37	chr8	37672477	37672477	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttcctgggactgtcactgctGgagaagctgtaagtgctggg	15	8	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr8:37672477G>T	uc003xkj.2	+	2	693	c.330G>T	c.(328-330)CTG>CTT	p.L110L	GPR124_uc003xki.2_Silent_p.L110L|GPR124_uc010lvy.2_Silent_p.L110L	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	110	Extracellular (Potential).|LRR 2.				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			TGTCACTGCTGGAGAAGCTGT	0.602													5	299	---	---	---	---	PASS	T	37672477	T	T	37672477	2	4	57	1	0	0	0	0	0	0	0	1	6638	1335	47	3		3	GPR124	8	37672477	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	12379473	37672477	108691545	118	21247										
HOOK3	84376	broad.mit.edu	37	chr8	42821647	42821647	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ccaaagatgattatcgaataCgttgtgaagagttagaaaag	10	4	0	5			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr8:42821647C>T	uc003xpr.2	+	10	1053	c.811C>T	c.(811-813)CGT>TGT	p.R271C	HOOK3_uc010lxq.1_Missense_Mutation_p.R271C	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	271	Potential.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			TTATCGAATACGTTGTGAAGA	0.398			T	RET	papillary thyroid								43	63	---	---	---	---	PASS	T	42821647	T	T	42821647	3	4	57	1	0	0	0	0	1	0	0	0	7284	536	19	1	849	1	HOOK3	8	42821647	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	5149170	42821647	103542375	119	21248										
POTEA	340441	broad.mit.edu	37	chr8	43157168	43157168	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cagcaagtatagttagtcttCtacttcagcaaaatattgat	6	7	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr8:43157168C>G	uc003xpz.1	+	5	791	c.748C>G	c.(748-750)CTA>GTA	p.L250V	POTEA_uc003xqa.1_Intron	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	250	ANK 5.									ovary(1)	1						AGTTAGTCTTCTACTTCAGCA	0.328													9	31	---	---	---	---	PASS	G	43157168	G	G	43157168	3	3	57	1	0	0	0	0	1	0	0	0	12261	912	32	2	766	2	POTEA	8	43157168	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	335521	43157168	103206854	120	21249										
MCM4	4173	broad.mit.edu	37	chr8	48877253	48877253	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcattgaagactaagaatatGagaaacctgaatccagaagg	10	6	0	6			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr8:48877253G>A	uc003xqk.1	+	8	908	c.813G>A	c.(811-813)ATG>ATA	p.M271I	MCM4_uc003xql.1_Missense_Mutation_p.M271I|MCM4_uc011ldi.1_Missense_Mutation_p.M258I|MCM4_uc010lxw.1_RNA	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	271					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				CTAAGAATATGAGAAACCTGA	0.338													13	45	---	---	---	---	PASS	A	48877253	A	A	48877253	3	1	57	1	0	0	0	0	1	0	0	0	9389	1290	45	2	839	2	MCM4	8	48877253	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	5720085	48877253	97486769	121	21250										
MMP16	4325	broad.mit.edu	37	chr8	89180185	89180185	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tctcagggtctcctacttttGgagttacgttctttatactg	8	9	3	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr8:89180185G>C	uc003yeb.3	-	4	704	c.422C>G	c.(421-423)CCA>CGA	p.P141R	MMP16_uc003yec.2_Missense_Mutation_p.P141R	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	141	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						TCCTACTTTTGGAGTTACGTT	0.363													14	44	---	---	---	---	PASS	C	89180185	C	C	89180185	3	2	57	1	0	0	0	0	1	0	0	0	9655	1348	47	4	1585	4	MMP16	8	89180185	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	40302932	89180185	57183837	122	21251										
CSMD3	114788	broad.mit.edu	37	chr8	113697958	113697958	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cagtaaagttagacaggcagGgaactggtgaaacaggaaga	14	5	0	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr8:113697958G>A	uc003ynu.2	-	15	2318	c.2159C>T	c.(2158-2160)CCC>CTC	p.P720L	CSMD3_uc003yns.2_5'UTR|CSMD3_uc003ynt.2_Missense_Mutation_p.P680L|CSMD3_uc011lhx.1_Missense_Mutation_p.P616L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	720	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGACAGGCAGGGAACTGGTGA	0.318										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	54	---	---	---	---	PASS	A	113697958	A	A	113697958	3	1	57	1	0	0	0	0	1	0	0	0	3946	1232	43	3	9192	3	CSMD3	8	113697958	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	24517773	113697958	32666064	123	21252										
RHPN1	114822	broad.mit.edu	37	chr8	144459598	144459598	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctgggcctgaaggagaccaaGgagctggactggtctacacc	14	11	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr8:144459598G>C	uc003yyb.2	+	4	487	c.354G>C	c.(352-354)AAG>AAC	p.K118N		NM_052924	NP_443156	Q8TCX5	RHPN1_HUMAN	rhophilin 1	118	BRO1.				signal transduction	intracellular				large_intestine(1)	1	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.156)			AGGAGACCAAGGAGCTGGACT	0.522													10	49	---	---	---	---	PASS	C	144459598	C	C	144459598	3	2	57	1	0	0	0	0	1	0	0	0	13350	991	35	4	368	4	RHPN1	8	144459598	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	30761640	144459598	1904424	124	21253										
FOXD4	2298	broad.mit.edu	37	chr9	117745	117745	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcgcagatgccgctgagcgtGaggcgcttgtgcgggctttg	18	10	0	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr9:117745G>C	uc003zfz.2	-	1	673	c.375C>G	c.(373-375)CTC>CTG	p.L125L		NM_207305	NP_997188	Q12950	FOXD4_HUMAN	forkhead box D4	125	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			skin(1)	1	all_lung(41;0.218)	all_cancers(5;0.0395)|Acute lymphoblastic leukemia(5;1.91e-07)|all_hematologic(5;1.95e-06)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		CGCTGAGCGTGAGGCGCTTGT	0.647													13	271	---	---	---	---	PASS	C	117745	C	C	117745	2	2	57	1	0	0	0	0	0	0	0	1	5999	1277	45	2		2	FOXD4	9	117745	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08		117745	141095686	125	21254										
KIAA2026	158358	broad.mit.edu	37	chr9	5921511	5921511	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gaaacacctgtagatgtcagCgcaggtgtcatattaattgc	10	8	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr9:5921511C>T	uc003zjq.3	-	8	4701	c.4485G>A	c.(4483-4485)GCG>GCA	p.A1495A	KIAA2026_uc010mht.2_Silent_p.A670A	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	1495										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		TAGATGTCAGCGCAGGTGTCA	0.413													10	23	---	---	---	---	PASS	T	5921511	T	T	5921511	2	4	57	1	0	0	0	0	0	0	0	1	8270	755	27	1		1	KIAA2026	9	5921511	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	5803766	5921511	135291920	126	21255										
ECM2	1842	broad.mit.edu	37	chr9	95264875	95264875	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	acaatgacattgatctttctGgtatgattgaaacaaatttc	6	6	2	4			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr9:95264875G>C	uc004ash.2	-	8	1589	c.1524C>G	c.(1522-1524)ACC>ACG	p.T508T	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ECM2_uc004asf.3_Silent_p.T486T|ECM2_uc011lty.1_Silent_p.T508T|ECM2_uc004asg.2_Silent_p.T486T|ECM2_uc010mqz.1_Intron	NM_001393	NP_001384	O94769	ECM2_HUMAN	extracellular matrix protein 2 precursor	508					cell-matrix adhesion		integrin binding			ovary(1)|skin(1)	2						TGATCTTTCTGGTATGATTGA	0.274													4	20	---	---	---	---	PASS	C	95264875	C	C	95264875	2	2	57	1	0	0	0	0	0	0	0	1	4898	1335	47	4		4	ECM2	9	95264875	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	89343364	95264875	45948556	127	21256										
GALNT12	79695	broad.mit.edu	37	chr9	101611252	101611252	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aggatggatctttatttcacGaacagtccaagaaatgtgtc	9	7	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr9:101611252G>A	uc004ayz.2	+	10	1624	c.1624G>A	c.(1624-1626)GAA>AAA	p.E542K		NM_024642	NP_078918	Q8IXK2	GLT12_HUMAN	N-acetylgalactosaminyltransferase 12	542	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(62;0.0559)				TTTATTTCACGAACAGTCCAA	0.423											OREG0019361	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	22	---	---	---	---	PASS	A	101611252	A	A	101611252	3	1	57	1	0	0	0	0	1	0	0	0	6210	1059	37	2	1662	2	GALNT12	9	101611252	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	6346377	101611252	39602179	128	21257										
MAPKAP1	79109	broad.mit.edu	37	chr9	128419946	128419946	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttaccttgccatcaaatttgGaatactcgttaaaagggtta	7	7	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr9:128419946G>C	uc004bpv.2	-	4	815	c.482C>G	c.(481-483)TCC>TGC	p.S161C	MAPKAP1_uc011lzv.1_5'UTR|MAPKAP1_uc004bpw.2_5'UTR|MAPKAP1_uc004bpx.2_5'UTR|MAPKAP1_uc004bpy.2_Missense_Mutation_p.S161C|MAPKAP1_uc004bpz.2_Missense_Mutation_p.S161C|MAPKAP1_uc010mxa.2_RNA|MAPKAP1_uc004bqa.2_Missense_Mutation_p.S161C|MAPKAP1_uc010mxc.1_5'UTR	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	161	Interaction with MAP3K2.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4						ATCAAATTTGGAATACTCGTT	0.378													10	43	---	---	---	---	PASS	C	128419946	C	C	128419946	3	2	57	1	0	0	0	0	1	0	0	0	9288	1174	41	2	1140	2	MAPKAP1	9	128419946	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	26808694	128419946	12793485	129	21258										
PRDM12	59335	broad.mit.edu	37	chr9	133556880	133556880	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgtgccagagcgcctactcgCagctggccggcctgcgcgcc	14	17	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr9:133556880C>T	uc004bzt.1	+	5	988	c.928C>T	c.(928-930)CAG>TAG	p.Q310*		NM_021619	NP_067632	Q9H4Q4	PRD12_HUMAN	PR domain containing 12	310	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_hematologic(13;0.0433)|Acute lymphoblastic leukemia(5;0.0534)		OV - Ovarian serous cystadenocarcinoma(145;0.000344)		CGCCTACTCGCAGCTGGCCGG	0.751													4	11	---	---	---	---	PASS	T	133556880	T	T	133556880	4	4	57	1	0	0	0	0	0	1	0	0	12453	711	25	3	946	3	PRDM12	9	133556880	Nonsense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	5136934	133556880	7656551	130	21259										
VAV2	7410	broad.mit.edu	37	chr9	136671274	136671274	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	acggacacgtcgatggccctCaggaagctgtgatgcacctt	12	12	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr9:136671274C>T	uc004ces.2	-	9	811	c.765G>A	c.(763-765)CTG>CTA	p.L255L	VAV2_uc004cer.2_Silent_p.L250L	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	255	DH.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		CGATGGCCCTCAGGAAGCTGT	0.627													6	20	---	---	---	---	PASS	T	136671274	T	T	136671274	2	4	57	1	0	0	0	0	0	0	0	1	17129	813	29	2		2	VAV2	9	136671274	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	3114394	136671274	4542157	131	21260										
COL5A1	1289	broad.mit.edu	37	chr9	137677895	137677895	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	caggaagacaaggaccaaagGtaacttctggccgtgttagg	13	8	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr9:137677895G>C	uc004cfe.2	+	31	3028	c.2646_splice	c.e31+1	p.K882_splice		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein						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)		AGGACCAAAGGTAACTTCTGG	0.592													5	17	---	---	---	---	PASS	C	137677895	C	C	137677895	5	2	57	1	0	0	0	0	0	0	1	0	3696	1275	44	4	2769	4	COL5A1	9	137677895	Splice_Site	SNP	G	TCGA-33-4547-01A-01D-1267-08	1006621	137677895	3535536	132	21261										
DIP2C	22982	broad.mit.edu	37	chr10	436246	436246	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttggcatctttaatgtgtggGaaccagtctcggggcggttt	14	7	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr10:436246G>A	uc001ifp.2	-	12	1542	c.1452C>T	c.(1450-1452)TTC>TTT	p.F484F	DIP2C_uc009xhj.1_Silent_p.F180F	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	484						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		TAATGTGTGGGAACCAGTCTC	0.488													37	120	---	---	---	---	PASS	A	436246	A	A	436246	2	1	57	1	0	0	0	0	0	0	0	1	4529	1165	41	2		2	DIP2C	10	436246	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08		436246	135098501	133	21262										
PITRM1	10531	broad.mit.edu	37	chr10	3202450	3202450	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gtgcttggttcaattttctgGaatttgctcagtgcttcctc	9	9	3	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr10:3202450G>A	uc010qah.1	-	7	800	c.768C>T	c.(766-768)TTC>TTT	p.F256F	PITRM1_uc001igr.1_Silent_p.F288F|PITRM1_uc001igt.1_Silent_p.F288F|PITRM1_uc009xhv.1_5'Flank|PITRM1_uc001igu.1_Silent_p.F280F|PITRM1_uc010qai.1_Silent_p.F259F|PITRM1_uc001igw.1_Silent_p.F288F			E7ES23	E7ES23_HUMAN	SubName: Full=cDNA FLJ54065, moderately similar to Mus musculus pitrilysin metallepetidase 1 (Pitrm1), mRNA;	256					proteolysis		metalloendopeptidase activity|zinc ion binding			pancreas(1)	1						CAATTTTCTGGAATTTGCTCA	0.438													10	32	---	---	---	---	PASS	A	3202450	A	A	3202450	2	1	57	1	0	0	0	0	0	0	0	1	11953	1165	41	2		2	PITRM1	10	3202450	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	2766204	3202450	132332297	134	21263										
ITGA8	8516	broad.mit.edu	37	chr10	15639281	15639281	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttttccatcttgtactcacaGctcagtggtcgaaatcccta	6	12	3	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr10:15639281G>T	uc001ioc.1	-	21	2136	c.2136C>A	c.(2134-2136)AGC>AGA	p.S712R	ITGA8_uc010qcb.1_Missense_Mutation_p.S697R	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	712	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						TGTACTCACAGCTCAGTGGTC	0.488													22	69	---	---	---	---	PASS	T	15639281	T	T	15639281	3	4	57	1	0	0	0	0	1	0	0	0	7882	962	34	3	1095	3	ITGA8	10	15639281	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	12436831	15639281	119895466	135	21264										
EPC1	80314	broad.mit.edu	37	chr10	32581966	32581966	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tctaaaagccacataaggatCatttgtgctggaaccatctc	7	10	3	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr10:32581966C>T	uc001iwg.1	-	4	886	c.616G>A	c.(616-618)GAT>AAT	p.D206N	EPC1_uc001iwi.3_Missense_Mutation_p.D156N|EPC1_uc009xlt.2_Missense_Mutation_p.D156N|EPC1_uc001iwh.1_Missense_Mutation_p.D206N	NM_025209	NP_079485	Q9H2F5	EPC1_HUMAN	enhancer of polycomb 1	206					histone H2A acetylation|histone H4 acetylation|negative regulation of gene expression, epigenetic|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear membrane|Piccolo NuA4 histone acetyltransferase complex				ovary(3)|central_nervous_system(1)	4		Prostate(175;0.0199)				ACATAAGGATCATTTGTGCTG	0.303													7	35	---	---	---	---	PASS	T	32581966	T	T	32581966	3	4	57	1	0	0	0	0	1	0	0	0	5160	826	29	2	1942	2	EPC1	10	32581966	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	16942685	32581966	102952781	136	21265										
SLC18A3	6572	broad.mit.edu	37	chr10	50819868	50819868	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cctgcagtggctgtacggcgCgcttgggctggctgtgatcg	17	11	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr10:50819868C>T	uc001jhw.2	+	1	1522	c.1082C>T	c.(1081-1083)GCG>GTG	p.A361V	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	361	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CTGTACGGCGCGCTTGGGCTG	0.682													18	85	---	---	---	---	PASS	T	50819868	T	T	50819868	3	4	57	1	0	0	0	0	1	0	0	0	14427	768	27	1	1084	1	SLC18A3	10	50819868	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	18237902	50819868	84714879	137	21266										
SFTPA1	653509	broad.mit.edu	37	chr10	81371658	81371658	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gtgcgaagtgaaggacgtttGtgttggaagccctggtatcc	15	7	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr10:81371658G>T	uc001kap.2	+	3	198	c.77G>T	c.(76-78)TGT>TTT	p.C26F	SFTPA1_uc001kao.2_RNA|SFTPA1_uc001kaq.2_Missense_Mutation_p.C26F|SFTPA1_uc009xry.2_Missense_Mutation_p.C41F|SFTPA1_uc001kar.2_Missense_Mutation_p.C26F|SFTPA1_uc010qlt.1_Intron|SFTPA1_uc009xrz.2_Missense_Mutation_p.C36F|SFTPA1_uc009xsa.2_Missense_Mutation_p.C26F|SFTPA1_uc009xsf.2_5'Flank	NM_005411	NP_005402	Q8IWL2	SFTA1_HUMAN	surfactant protein A1 isoform 1	26					cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	lipid transporter activity|sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			AAGGACGTTTGTGTTGGAAGC	0.622													4	257	---	---	---	---	PASS	T	81371658	T	T	81371658	3	4	57	1	0	0	0	0	1	0	0	0	14189	1377	48	3	128	3	SFTPA1	10	81371658	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	30551790	81371658	54163089	138	21267										
MMS19	64210	broad.mit.edu	37	chr10	99221792	99221792	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	acctggaatggctggaatctGctcgggaagctgttttcagg	14	8	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr10:99221792G>A	uc001kns.3	-	21	2322	c.2097C>T	c.(2095-2097)AGC>AGT	p.S699S	MMS19_uc001knq.2_5'Flank|MMS19_uc009xvs.2_Silent_p.S284S|MMS19_uc009xvt.2_Silent_p.S443S|MMS19_uc001knr.2_Silent_p.S540S|MMS19_uc010qox.1_Silent_p.S677S|MMS19_uc001knt.2_Silent_p.S699S|MMS19_uc001knu.1_RNA	NM_022362	NP_071757	Q96T76	MMS19_HUMAN	MMS19 nucleotide excision repair homolog	699					chromosome segregation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|response to hormone stimulus|transcription, DNA-dependent|two-component signal transduction system (phosphorelay)	cytoplasm|holo TFIIH complex|MMXD complex	estrogen receptor binding|protein binding, bridging|receptor signaling complex scaffold activity|transcription coactivator activity				0		Colorectal(252;0.0846)		Epithelial(162;3.33e-10)|all cancers(201;2.74e-08)		GCTGGAATCTGCTCGGGAAGC	0.493								Direct_reversal_of_damage|NER					3	10	---	---	---	---	PASS	A	99221792	A	A	99221792	2	1	57	1	0	0	0	0	0	0	0	1	9672	1310	46	3		3	MMS19	10	99221792	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	17850134	99221792	36312955	139	21268										
CHUK	1147	broad.mit.edu	37	chr10	101980409	101980409	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctcgatgtataattttgtttTcatgcaaatatcgaatccca	5	8	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr10:101980409T>C	uc001kqp.2	-	5	465	c.410A>G	c.(409-411)GAA>GGA	p.E137G		NM_001278	NP_001269	O15111	IKKA_HUMAN	conserved helix-loop-helix ubiquitous kinase	137	Protein kinase.				I-kappaB phosphorylation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|nucleus	ATP binding|identical protein binding|IkappaB kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|breast(1)	7		Colorectal(252;0.117)		Epithelial(162;2.05e-10)|all cancers(201;1.91e-08)		AATTTTGTTTTCATGCAAATA	0.308													5	28	---	---	---	---	PASS	C	101980409	C	C	101980409	3	2	57	1	0	0	0	0	1	0	0	0	3416	1783	62	5	1895	5	CHUK	10	101980409	Missense_Mutation	SNP	T	TCGA-33-4547-01A-01D-1267-08	2758617	101980409	33554338	140	21269										
PDCD11	22984	broad.mit.edu	37	chr10	105184879	105184879	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	acaccttccgctttgactcaGagaaattgcaggtgggacag	11	10	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr10:105184879G>C	uc001kwy.1	+	20	2989	c.2902G>C	c.(2902-2904)GAG>CAG	p.E968Q		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	968					mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		CTTTGACTCAGAGAAATTGCA	0.572													25	68	---	---	---	---	PASS	C	105184879	C	C	105184879	3	2	57	1	0	0	0	0	1	0	0	0	11617	943	33	2	2976	2	PDCD11	10	105184879	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	3204470	105184879	30349868	141	21270										
C10orf118	55088	broad.mit.edu	37	chr10	115910894	115910894	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctttgtgtaactgctgaactGcatttttagctgtaacgtct	8	8	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr10:115910894G>T	uc001lbb.1	-	4	1497	c.845C>A	c.(844-846)GCA>GAA	p.A282E	C10orf118_uc001lbc.1_Missense_Mutation_p.A282E|C10orf118_uc009xye.1_RNA	NM_018017	NP_060487	Q7Z3E2	CJ118_HUMAN	CTCL tumor antigen L14-2	282	Potential.									ovary(2)	2		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0161)|all cancers(201;0.0397)		CTGCTGAACTGCATTTTTAGC	0.343													4	76	---	---	---	---	PASS	T	115910894	T	T	115910894	3	4	57	1	0	0	0	0	1	0	0	0	1587	1319	46	3	1903	3	C10orf118	10	115910894	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	10726015	115910894	19623853	142	21271										
C10orf119	79892	broad.mit.edu	37	chr10	121616948	121616948	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gtttaaatcaagttcttgttGaggctgtgatatacataaaa	8	4	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr10:121616948G>C	uc001ler.2	-	5	629	c.331C>G	c.(331-333)CAA>GAA	p.Q111E	C10orf119_uc001les.1_5'UTR	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	111					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)		AGTTCTTGTTGAGGCTGTGAT	0.318													9	37	---	---	---	---	PASS	C	121616948	C	C	121616948	3	2	57	1	0	0	0	0	1	0	0	0	1588	1299	45	2	1645	2	C10orf119	10	121616948	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	5706054	121616948	13917799	143	21272										
C10orf88	80007	broad.mit.edu	37	chr10	124708165	124708165	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agaaatccatttctacttacCcgctgctgacacctaaccat	4	14	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr10:124708165C>G	uc001lgw.2	-	4	873	c.648G>C	c.(646-648)CGG>CGC	p.R216R	C10orf88_uc001lgx.2_Silent_p.R118R	NM_024942	NP_079218	Q9H8K7	CJ088_HUMAN	hypothetical protein LOC80007	216											0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)		TTCTACTTACCCGCTGCTGAC	0.378													8	38	---	---	---	---	PASS	G	124708165	G	G	124708165	2	3	57	1	0	0	0	0	0	0	0	1	1622	637	22	4		4	C10orf88	10	124708165	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	3091217	124708165	10826582	144	21273										
LDLRAD3	143458	broad.mit.edu	37	chr11	36248660	36248660	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ggcagtgggcaggtgtttgtGacttcagagaaccaacttgt	14	7	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr11:36248660G>T	uc001mwk.1	+	5	517	c.480G>T	c.(478-480)GTG>GTT	p.V160V	LDLRAD3_uc010rey.1_Silent_p.V111V|LDLRAD3_uc010rez.1_Silent_p.V39V|LDLRAD3_uc010rfa.1_Intron	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	160	Extracellular (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)				AGGTGTTTGTGACTTCAGAGA	0.507													7	209	---	---	---	---	PASS	T	36248660	T	T	36248660	2	4	57	1	0	0	0	0	0	0	0	1	8707	1277	45	2		2	LDLRAD3	11	36248660	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08		36248660	98757856	145	21274										
OR1S2	219958	broad.mit.edu	37	chr11	57971290	57971290	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	caaaagcaaattgtcagtgaCgacaaacacaatagaaaagt	7	7	1	2	rs138124206		TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr11:57971290C>T	uc010rkb.1	-	1	364	c.364G>A	c.(364-366)GTC>ATC	p.V122I		NM_001004459	NP_001004459	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S,	122	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				TTGTCAGTGACGACAAACACA	0.473													19	79	---	---	---	---	PASS	T	57971290	T	T	57971290	3	4	57	1	0	0	0	0	1	0	0	0	10973	536	19	1	616	1	OR1S2	11	57971290	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	21722630	57971290	77035226	146	21275										
OR10W1	81341	broad.mit.edu	37	chr11	58035329	58035329	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aggccaggaacacaaattccAtcaacactgagtgattttcc	7	11	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr11:58035329A>T	uc001nmq.1	-	1	404	c.2T>A	c.(1-3)ATG>AAG	p.M1K		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				CACAAATTCCATCAACACTGA	0.428													7	19	---	---	---	---	PASS	T	58035329	T	T	58035329	3	4	57	1	0	0	0	0	1	0	0	0	10921	217	8	5	919	5	OR10W1	11	58035329	Missense_Mutation	SNP	A	TCGA-33-4547-01A-01D-1267-08	64039	58035329	76971187	147	21276										
VWCE	220001	broad.mit.edu	37	chr11	61048621	61048621	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tggggacagggcaggccggcCggcctcaggaagcaacagaa	17	11	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr11:61048621C>T	uc001nra.2	-	8	1153	c.874G>A	c.(874-876)GGC>AGC	p.G292S	VWCE_uc001nrb.2_RNA	NM_152718	NP_689931	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains	292						extracellular region	calcium ion binding			ovary(1)	1						GCAGGCCGGCCGGCCTCAGGA	0.657													4	134	---	---	---	---	PASS	T	61048621	T	T	61048621	3	4	57	1	0	0	0	0	1	0	0	0	17242	652	23	1	2045	1	VWCE	11	61048621	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	3013292	61048621	73957895	148	21277										
PPP2R5B	5526	broad.mit.edu	37	chr11	64694350	64694350	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agcacccggggtgtcctcatCgagcccgtctacccagacat	10	16	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr11:64694350C>T	uc001oby.2	+	3	951	c.366C>T	c.(364-366)ATC>ATT	p.I122I	PPP2R5B_uc001obz.2_Silent_p.I122I	NM_006244	NP_006235	Q15173	2A5B_HUMAN	beta isoform of regulatory subunit B56, protein	122					signal transduction	cytoplasm|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(2)	2						GTGTCCTCATCGAGCCCGTCT	0.662													20	78	---	---	---	---	PASS	T	64694350	T	T	64694350	2	4	57	1	0	0	0	0	0	0	0	1	12393	874	31	2		2	PPP2R5B	11	64694350	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	3645729	64694350	70312166	149	21278										
ARHGEF17	9828	broad.mit.edu	37	chr11	73066920	73066920	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tttcagcaaagcatgcgtgaGaacaaggagaagcaggcgct	13	8	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr11:73066920G>A	uc001otu.2	+	5	3606	c.3585G>A	c.(3583-3585)GAG>GAA	p.E1195E		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1195	DH.				actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						GCATGCGTGAGAACAAGGAGA	0.577													53	238	---	---	---	---	PASS	A	73066920	A	A	73066920	2	1	57	1	0	0	0	0	0	0	0	1	900	933	33	2		2	ARHGEF17	11	73066920	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	8372570	73066920	61939596	150	21279										
GPR83	10888	broad.mit.edu	37	chr11	94134045	94134045	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	accaaagtgaagggggtgttGagcagcgtgatcattatgtc	14	6	1	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr11:94134045G>C	uc001pet.2	-	1	541	c.369C>G	c.(367-369)CTC>CTG	p.L123L		NM_016540	NP_057624	Q9NYM4	GPR83_HUMAN	G protein-coupled receptor 83 precursor	123	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			central_nervous_system(2)|ovary(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				AGGGGGTGTTGAGCAGCGTGA	0.438													16	43	---	---	---	---	PASS	C	94134045	C	C	94134045	2	2	57	1	0	0	0	0	0	0	0	1	6713	1277	45	2		2	GPR83	11	94134045	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	21067125	94134045	40872471	151	21280										
PIWIL4	143689	broad.mit.edu	37	chr11	94300723	94300723	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gtgaaggccagaggcatcgcCcgcagccccagtgccacaga	13	15	0	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr11:94300723C>T	uc001pfa.2	+	1	250	c.39C>T	c.(37-39)GCC>GCT	p.A13A	PIWIL4_uc010rue.1_Intron|PIWIL4_uc009ywk.1_Intron	NM_152431	NP_689644	Q7Z3Z4	PIWL4_HUMAN	piwi-like 4	13					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|meiosis|multicellular organismal development|piRNA metabolic process|regulation of translation|spermatogenesis	nucleus|piP-body	piRNA binding			skin(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				GAGGCATCGCCCGCAGCCCCA	0.552													4	14	---	---	---	---	PASS	T	94300723	T	T	94300723	2	4	57	1	0	0	0	0	0	0	0	1	11960	610	22	3		3	PIWIL4	11	94300723	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	166678	94300723	40705793	152	21281										
PPP2R1B	5519	broad.mit.edu	37	chr11	111618706	111618706	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	acgagccaagccatacataaAgaattcagcttttcatcaaa	5	10	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr11:111618706A>G	uc001plx.1	-	11	1455	c.1371T>C	c.(1369-1371)TCT>TCC	p.S457S	PPP2R1B_uc001plw.1_Silent_p.S457S|PPP2R1B_uc010rwi.1_Silent_p.S393S|PPP2R1B_uc010rwj.1_Silent_p.S296S|PPP2R1B_uc010rwk.1_Silent_p.S412S|PPP2R1B_uc010rwl.1_Silent_p.S330S	NM_002716	NP_002707	P30154	2AAB_HUMAN	beta isoform of regulatory subunit A, protein	457	HEAT 12.						protein binding				0		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|Epithelial(105;2.36e-06)|all cancers(92;3.78e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0761)		CCATACATAAAGAATTCAGCT	0.333													10	31	---	---	---	---	PASS	G	111618706	G	G	111618706	2	3	57	1	0	0	0	0	0	0	0	1	12383	59	3	5		5	PPP2R1B	11	111618706	Silent	SNP	A	TCGA-33-4547-01A-01D-1267-08	17317983	111618706	23387810	153	21282										
PHLDB1	23187	broad.mit.edu	37	chr11	118509911	118509911	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gctgactgtgctggaaaggaGataccactcactcacagggg	13	10	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr11:118509911G>A	uc001ptr.1	+	13	3031	c.2678G>A	c.(2677-2679)AGA>AAA	p.R893K	PHLDB1_uc001pts.2_Missense_Mutation_p.R893K|PHLDB1_uc001ptt.2_Missense_Mutation_p.R893K|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Missense_Mutation_p.R693K|PHLDB1_uc001ptw.1_Missense_Mutation_p.R295K|PHLDB1_uc009zai.1_5'UTR|PHLDB1_uc001ptx.1_5'UTR|PHLDB1_uc010ryi.1_5'Flank|PHLDB1_uc010ryj.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	893											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CTGGAAAGGAGATACCACTCA	0.582													16	92	---	---	---	---	PASS	A	118509911	A	A	118509911	3	1	57	1	0	0	0	0	1	0	0	0	11851	942	33	2	2720	2	PHLDB1	11	118509911	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	6891205	118509911	16496605	154	21283										
FOXR1	283150	broad.mit.edu	37	chr11	118851317	118851317	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agcatgcagggcggggccagCacacggcctcgatcttgcct	14	14	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr11:118851317C>T	uc001pui.2	+	5	954	c.729C>T	c.(727-729)AGC>AGT	p.S243S	FOXR1_uc001puj.2_RNA|FOXR1_uc001puk.2_Silent_p.S74S	NM_181721	NP_859072	Q6PIV2	FOXR1_HUMAN	forkhead box R1	243	Fork-head.				embryo development|organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			skin(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.62e-05)		GCGGGGCCAGCACACGGCCTC	0.607													30	121	---	---	---	---	PASS	T	118851317	T	T	118851317	2	4	57	1	0	0	0	0	0	0	0	1	6031	709	25	3		3	FOXR1	11	118851317	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	341406	118851317	16155199	155	21284										
WNK1	65125	broad.mit.edu	37	chr12	1009828	1009828	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agtaccaagcctttctgctcCaggtcaaggtaataaagcaa	8	10	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:1009828C>A	uc001qio.3	+	26	7142	c.6635C>A	c.(6634-6636)CCA>CAA	p.P2212Q	WNK1_uc001qip.3_Missense_Mutation_p.P1964Q|WNK1_uc001qir.3_Missense_Mutation_p.P1385Q|WNK1_uc009zdm.1_RNA|WNK1_uc009zdn.1_RNA|uc009zdo.1_5'Flank	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	2212					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CTTTCTGCTCCAGGTCAAGGT	0.473													4	187	---	---	---	---	PASS	A	1009828	A	A	1009828	3	1	57	1	0	0	0	0	1	0	0	0	17374	594	21	3	8239	3	WNK1	12	1009828	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08		1009828	132842067	156	21285										
PRPF40B	25766	broad.mit.edu	37	chr12	50037728	50037728	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aagaacaggacaaggacaggGagctccaacaggcagagctc	13	10	0	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:50037728G>C	uc001rur.1	+	24	2528	c.2464G>C	c.(2464-2466)GAG>CAG	p.E822Q	FMNL3_uc001ruv.1_3'UTR|FMNL3_uc001ruw.1_3'UTR|PRPF40B_uc001ruq.1_Missense_Mutation_p.E809Q|PRPF40B_uc001rus.1_Missense_Mutation_p.E764Q|FMNL3_uc001rut.1_3'UTR|FMNL3_uc001ruu.1_3'UTR	NM_001031698	NP_001026868	Q6NWY9	PR40B_HUMAN	Huntingtin interacting protein C isoform 1	822					mRNA processing|RNA splicing	nuclear speck				skin(2)|ovary(1)|pancreas(1)|kidney(1)	5						CAAGGACAGGGAGCTCCAACA	0.552													16	64	---	---	---	---	PASS	C	50037728	C	C	50037728	3	2	57	1	0	0	0	0	1	0	0	0	12572	1175	41	2	2558	2	PRPF40B	12	50037728	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	49027900	50037728	83814167	157	21286										
MYL6	4637	broad.mit.edu	37	chr12	56553920	56553920	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gtgctgaaatccggcatgttCttgtcacactgggtaaggtt	12	8	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:56553920C>G	uc001sjw.1	+	4	423	c.337C>G	c.(337-339)CTT>GTT	p.L113V	MYL6_uc001sjv.2_Missense_Mutation_p.L113V|MYL6_uc001sjx.1_Missense_Mutation_p.L113V|MYL6_uc010sqd.1_Missense_Mutation_p.L206V|MYL6_uc001sjz.2_Missense_Mutation_p.L78V|MYL6_uc010sqe.1_Missense_Mutation_p.L78V	NM_021019	NP_066299	P60660	MYL6_HUMAN	myosin, light chain 6, alkali, smooth muscle and	113	EF-hand 2.				axon guidance|muscle filament sliding|skeletal muscle tissue development	cytosol|unconventional myosin complex	actin-dependent ATPase activity|calcium ion binding|motor activity|structural constituent of muscle			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(18;0.0979)			CCGGCATGTTCTTGTCACACT	0.502													22	60	---	---	---	---	PASS	G	56553920	G	G	56553920	3	3	57	1	0	0	0	0	1	0	0	0	10051	913	32	2	351	2	MYL6	12	56553920	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	6516192	56553920	77297975	158	21287										
BAZ2A	11176	broad.mit.edu	37	chr12	57008797	57008797	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agttcaccaacccagttataCctggctgctcttcttccagc	6	15	3	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:57008797C>A	uc001slq.1	-	3	930	c.736_splice	c.e3+1	p.E246_splice	BAZ2A_uc001slp.1_Splice_Site_p.E244_splice|BAZ2A_uc010sqr.1_Missense_Mutation_p.G246V|BAZ2A_uc009zow.1_Splice_Site_p.E214_splice	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A						chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						CCCAGTTATACCTGGCTGCTC	0.512													3	12	---	---	---	---	PASS	A	57008797	A	A	57008797	5	1	57	1	0	0	0	0	0	0	1	0	1331	521	18	3	5088	3	BAZ2A	12	57008797	Splice_Site	SNP	C	TCGA-33-4547-01A-01D-1267-08	454877	57008797	76843098	159	21288										
C12orf61	283416	broad.mit.edu	37	chr12	62996892	62996892	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cgccggcgattatcggcgccGagagcgggccggcggcgggt	20	13	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:62996892G>C	uc001sri.1	-	1	323	c.227C>G	c.(226-228)TCG>TGG	p.S76W	MIRLET7I_hsa-let-7i|MI0000434_5'Flank|uc001srj.1_5'Flank	NM_175895	NP_787091	Q8N7H1	CL061_HUMAN	hypothetical protein LOC283416	76											0			BRCA - Breast invasive adenocarcinoma(9;0.0399)	GBM - Glioblastoma multiforme(28;0.134)		TATCGGCGCCGAGAGCGGGCC	0.766													5	11	---	---	---	---	PASS	C	62996892	C	C	62996892	3	2	57	1	0	0	0	0	1	0	0	0	1704	1059	37	2	172	2	C12orf61	12	62996892	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	5988095	62996892	70855003	160	21289										
PPFIA2	8499	broad.mit.edu	37	chr12	81762563	81762563	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttgtaggcgttcattggattCagtcagaagtctatcaaccg	10	8	5	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:81762563C>G	uc001szo.1	-	13	1584	c.1423G>C	c.(1423-1425)GAA>CAA	p.E475Q	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	401										ovary(3)|lung(2)|pancreas(1)	6						TCATTGGATTCAGTCAGAAGT	0.343													26	82	---	---	---	---	PASS	G	81762563	G	G	81762563	3	3	57	1	0	0	0	0	1	0	0	0	12310	835	29	2	2430	2	PPFIA2	12	81762563	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	18765671	81762563	52089332	161	21290										
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100452907	100452907	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gggaatgagtctacaaaactTattggccgtccttttccact	8	10	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:100452907T>C	uc001tgq.2	-	14	2377	c.2148A>G	c.(2146-2148)ATA>ATG	p.I716M	UHRF1BP1L_uc001tgp.2_Missense_Mutation_p.I366M	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	716										ovary(2)	2						CTACAAAACTTATTGGCCGTC	0.398													20	56	---	---	---	---	PASS	C	100452907	C	C	100452907	3	2	57	1	0	0	0	0	1	0	0	0	16966	1744	61	5	2278	5	UHRF1BP1L	12	100452907	Missense_Mutation	SNP	T	TCGA-33-4547-01A-01D-1267-08	18690344	100452907	33398988	162	21291										
GNPTAB	79158	broad.mit.edu	37	chr12	102158641	102158641	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cttcctgggctctccttgttGagttaacatcatgtctctta	7	11	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:102158641G>C	uc001tit.2	-	13	2233	c.2054C>G	c.(2053-2055)TCA>TGA	p.S685*		NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	685					cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						TCTCCTTGTTGAGTTAACATC	0.423													5	44	---	---	---	---	PASS	C	102158641	C	C	102158641	4	2	57	1	0	0	0	0	0	1	0	0	6545	1294	45	2	1752	2	GNPTAB	12	102158641	Nonsense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	1705734	102158641	31693254	163	21292										
HCFC2	29915	broad.mit.edu	37	chr12	104487212	104487212	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctgaacagccagccacaaaaGaaacttcaatgaaaaacaaa	5	10	1	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:104487212G>T	uc001tkj.3	+	10	1436	c.1333G>T	c.(1333-1335)GAA>TAA	p.E445*	HCFC2_uc009zul.2_RNA	NM_013320	NP_037452	Q9Y5Z7	HCFC2_HUMAN	host cell factor C2	445					regulation of transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus	transcription coactivator activity			ovary(2)|central_nervous_system(1)	3						AGCCACAAAAGAAACTTCAAT	0.313													5	21	---	---	---	---	PASS	T	104487212	T	T	104487212	4	4	57	1	0	0	0	0	0	1	0	0	6993	943	33	2	1371	2	HCFC2	12	104487212	Nonsense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	2328571	104487212	29364683	164	21293										
BRAP	8315	broad.mit.edu	37	chr12	112087808	112087808	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgctctagattatcacacttCtcaattgtttctttaaactt	3	9	4	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:112087808C>G	uc001tsn.3	-	11	1544	c.1350G>C	c.(1348-1350)GAG>GAC	p.E450D	BRAP_uc010syh.1_Missense_Mutation_p.E271D|BRAP_uc009zvv.2_Missense_Mutation_p.E420D	NM_006768	NP_006759	Q7Z569	BRAP_HUMAN	BRCA1 associated protein	450	Potential.				MAPKKK cascade|negative regulation of signal transduction|Ras protein signal transduction	cytoplasm|ubiquitin ligase complex	identical protein binding|nuclear localization sequence binding|nucleotide binding|ubiquitin-protein ligase activity|zinc ion binding			lung(1)	1						TATCACACTTCTCAATTGTTT	0.358													10	37	---	---	---	---	PASS	G	112087808	G	G	112087808	3	3	57	1	0	0	0	0	1	0	0	0	1497	912	32	2	436	2	BRAP	12	112087808	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	7600596	112087808	21764087	165	21294										
SFRS9	8683	broad.mit.edu	37	chr12	120903553	120903553	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aagccgacactggccataatCataaccatttcttccataaa	4	12	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:120903553C>G	uc001tyi.2	-	2	372	c.226G>C	c.(226-228)GAT>CAT	p.D76H	SFRS9_uc009zwy.2_Missense_Mutation_p.D76H	NM_003769	NP_003760	Q13242	SRSF9_HUMAN	splicing factor, arginine/serine-rich 9	76	RRM 1.				mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|RNA binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGGCCATAATCATAACCATTT	0.483													6	28	---	---	---	---	PASS	G	120903553	G	G	120903553	3	3	57	1	0	0	0	0	1	0	0	0	14184	826	29	2	451	2	SFRS9	12	120903553	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	8815745	120903553	12948342	166	21295										
RNF10	9921	broad.mit.edu	37	chr12	120995234	120995234	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	acgtggagtaaatgtcccatCtgttacagttctgtgcataa	9	8	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:120995234C>G	uc001typ.3	+	5	1278	c.795C>G	c.(793-795)ATC>ATG	p.I265M	RNF10_uc010szk.1_RNA|RNF10_uc001tyq.3_Missense_Mutation_p.I171M	NM_014868	NP_055683	Q8N5U6	RNF10_HUMAN	ring finger protein 10	265	RING-type.				negative regulation of Schwann cell proliferation|positive regulation of myelination|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AATGTCCCATCTGTTACAGTT	0.458													50	95	---	---	---	---	PASS	G	120995234	G	G	120995234	3	3	57	1	0	0	0	0	1	0	0	0	13422	903	32	2	813	2	RNF10	12	120995234	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	91681	120995234	12856661	167	21296										
EP400	57634	broad.mit.edu	37	chr12	132445647	132445647	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cctggccctgggctgggcctCtgcagcagcagccctacagg	14	16	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:132445647C>G	uc001ujn.2	+	1	518	c.483C>G	c.(481-483)CTC>CTG	p.L161L	EP400_uc001ujl.2_Silent_p.L161L|EP400_uc001ujm.2_Silent_p.L161L|EP400_uc001ujj.1_Silent_p.L161L|EP400_uc001ujk.2_Silent_p.L161L	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	161					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		GGCTGGGCCTCTGCAGCAGCA	0.667													4	18	---	---	---	---	PASS	G	132445647	G	G	132445647	2	3	57	1	0	0	0	0	0	0	0	1	5149	900	32	2		2	EP400	12	132445647	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	11450413	132445647	1406248	168	21297										
GOLGA3	2802	broad.mit.edu	37	chr12	133372731	133372731	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agcctcctgagtcaaggtgaGctgtttcatcaggtccaggt	12	10	3	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:133372731G>C	uc001ukz.1	-	11	2735	c.2176C>G	c.(2176-2178)CTC>GTC	p.L726V	GOLGA3_uc001ula.1_Missense_Mutation_p.L726V|GOLGA3_uc001ulb.2_Missense_Mutation_p.L726V	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	726	Gln-rich.|Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GTCAAGGTGAGCTGTTTCATC	0.587													12	49	---	---	---	---	PASS	C	133372731	C	C	133372731	3	2	57	1	0	0	0	0	1	0	0	0	6554	971	34	4	2514	4	GOLGA3	12	133372731	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	927084	133372731	479164	169	21298										
ZNF10	7556	broad.mit.edu	37	chr12	133733132	133733132	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	acactggactaaaaccttttGagtgtaaggattgtggaaaa	10	5	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr12:133733132G>C	uc009zzb.2	+	5	1747	c.1300G>C	c.(1300-1302)GAG>CAG	p.E434Q	ZNF268_uc010tbv.1_Intron|ZNF10_uc001ulq.2_Missense_Mutation_p.E434Q	NM_015394	NP_056209	P21506	ZNF10_HUMAN	zinc finger protein 10	434	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;1.28e-06)|all_epithelial(31;0.0051)|Lung NSC(355;0.00948)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		AAAACCTTTTGAGTGTAAGGA	0.413													25	84	---	---	---	---	PASS	C	133733132	C	C	133733132	3	2	57	1	0	0	0	0	1	0	0	0	17709	1291	45	2	1314	2	ZNF10	12	133733132	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	360401	133733132	118763	170	21299										
FKBP3	2287	broad.mit.edu	37	chr14	45587322	45587322	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	actcatagtcaagagagcttCatcccactaaaggcaagaac	7	11	3	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr14:45587322C>T	uc010tqf.1	-	6	602	c.529G>A	c.(529-531)GAA>AAA	p.E177K		NM_002013	NP_002004	Q00688	FKBP3_HUMAN	FK506 binding protein 3, 25kDa	177	PPIase FKBP-type.				protein folding	membrane|nucleus	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|receptor activity				0						AAGAGAGCTTCATCCCACTAA	0.393													11	66	---	---	---	---	PASS	T	45587322	T	T	45587322	3	4	57	1	0	0	0	0	1	0	0	0	5909	835	29	2	153	2	FKBP3	14	45587322	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08		45587322	61762218	171	21300										
FRMD6	122786	broad.mit.edu	37	chr14	52182111	52182111	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctcatatactacacggggtgCcccatgcgctccagacacct	8	16	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr14:52182111C>A	uc001wzd.2	+	10	1203	c.918C>A	c.(916-918)TGC>TGA	p.C306*	FRMD6_uc001wzb.2_Nonsense_Mutation_p.C298*|FRMD6_uc001wzc.2_Nonsense_Mutation_p.C298*|FRMD6_uc001wze.2_Nonsense_Mutation_p.C229*|FRMD6_uc001wzf.2_5'UTR|FRMD6_uc001wzg.2_5'Flank	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	306	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					ACACGGGGTGCCCCATGCGCT	0.512													13	25	---	---	---	---	PASS	A	52182111	A	A	52182111	4	1	57	1	0	0	0	0	0	1	0	0	6054	747	26	3	928	3	FRMD6	14	52182111	Nonsense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	6594789	52182111	55167429	172	21301										
ZBTB1	22890	broad.mit.edu	37	chr14	64988550	64988550	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	acctacagctatacaatgttCctgactgtttagaagacatc	6	10	0	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr14:64988550C>G	uc001xhh.3	+	4	759	c.328C>G	c.(328-330)CCT>GCT	p.P110A	ZBTB1_uc010aqg.2_Missense_Mutation_p.P110A|ZBTB1_uc001xhi.2_Missense_Mutation_p.P110A	NM_001123329	NP_001116801	Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1 isoform	110					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		all_lung(585;0.000567)|Myeloproliferative disorder(585;0.0255)|all_neural(303;0.0294)		UCEC - Uterine corpus endometrioid carcinoma (185;0.0182)|all cancers(60;3.78e-43)|OV - Ovarian serous cystadenocarcinoma(108;1.22e-20)|BRCA - Breast invasive adenocarcinoma(234;6.75e-06)|KIRC - Kidney renal clear cell carcinoma(182;0.00269)|STAD - Stomach adenocarcinoma(64;0.012)		ATACAATGTTCCTGACTGTTT	0.378													33	51	---	---	---	---	PASS	G	64988550	G	G	64988550	3	3	57	1	0	0	0	0	1	0	0	0	17519	855	30	2	330	2	ZBTB1	14	64988550	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	12806439	64988550	42360990	173	21302										
ZBTB1	22890	broad.mit.edu	37	chr14	64988812	64988812	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgatgtatgtaaaaaaagttCcgtgtccaaattatctactc	6	7	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr14:64988812C>T	uc001xhh.3	+	4	1021	c.590C>T	c.(589-591)TCC>TTC	p.S197F	ZBTB1_uc010aqg.2_Missense_Mutation_p.S197F|ZBTB1_uc001xhi.2_Missense_Mutation_p.S197F	NM_001123329	NP_001116801	Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1 isoform	197					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		all_lung(585;0.000567)|Myeloproliferative disorder(585;0.0255)|all_neural(303;0.0294)		UCEC - Uterine corpus endometrioid carcinoma (185;0.0182)|all cancers(60;3.78e-43)|OV - Ovarian serous cystadenocarcinoma(108;1.22e-20)|BRCA - Breast invasive adenocarcinoma(234;6.75e-06)|KIRC - Kidney renal clear cell carcinoma(182;0.00269)|STAD - Stomach adenocarcinoma(64;0.012)		AAAAAAAGTTCCGTGTCCAAA	0.378													26	53	---	---	---	---	PASS	T	64988812	T	T	64988812	3	4	57	1	0	0	0	0	1	0	0	0	17519	855	30	2	592	2	ZBTB1	14	64988812	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	262	64988812	42360728	174	21303										
SPATA7	55812	broad.mit.edu	37	chr14	88904590	88904590	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aaacttctgtgaatgtcattGaaggtgatagtgaccctgaa	10	6	2	5			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr14:88904590G>A	uc001xwq.2	+	12	1775	c.1624G>A	c.(1624-1626)GAA>AAA	p.E542K	SPATA7_uc001xwr.2_Missense_Mutation_p.E510K|SPATA7_uc001xws.2_Missense_Mutation_p.E478K|SPATA7_uc001xwt.2_Missense_Mutation_p.E436K|SPATA7_uc001xwu.2_Intron	NM_018418	NP_060888	Q9P0W8	SPAT7_HUMAN	spermatogenesis-associated protein 7 isoform a	542					response to stimulus|visual perception					ovary(1)	1						GAATGTCATTGAAGGTGATAG	0.388													6	51	---	---	---	---	PASS	A	88904590	A	A	88904590	3	1	57	1	0	0	0	0	1	0	0	0	15013	1291	45	2	1670	2	SPATA7	14	88904590	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	23915778	88904590	18444950	175	21304										
TRAF3	7187	broad.mit.edu	37	chr14	103372057	103372063	+	Frame_Shift_Del	DEL	ATATTAA	-	-													0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgttctagaaaatgggacatAtattaaagatgatacaattt							TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr14:103372057_103372063delATATTAA	uc001ymc.1	+	12	1996_2002	c.1643_1649delATATTAA	c.(1642-1650)TATATTAAAfs	p.Y548fs	TRAF3_uc001yme.1_Frame_Shift_Del_p.Y523fs|TRAF3_uc001ymd.1_Frame_Shift_Del_p.Y548fs|TRAF3_uc010txy.1_Frame_Shift_Del_p.Y465fs	NM_145725	NP_663777	Q13114	TRAF3_HUMAN	TNF receptor-associated factor 3 isoform 1	548_550	MATH.				apoptosis|induction of apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|regulation of defense response to virus|regulation of interferon-beta production|regulation of proteolysis|toll-like receptor signaling pathway|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|endosome|internal side of plasma membrane|mitochondrion	signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(154;7.87e-06)|all_epithelial(191;0.0024)		Epithelial(152;9.92e-24)|all cancers(159;2.23e-21)|OV - Ovarian serous cystadenocarcinoma(161;7.85e-12)|Colorectal(3;0.0971)		AATGGGACATATATTAAAGATGATACA	0.459													71	63	---	---	---	---		-	103372063	-	-	103372057	7	5	57	1	0	1	0	1	0	0	0	0	16436	449	16	0	1681	0	TRAF3	14	103372057	Frame_Shift_Del	DEL	ATATTAA	TCGA-33-4547-01A-01D-1267-08	14467467	103372057	3977483	176	21305										
AHNAK2	113146	broad.mit.edu	37	chr14	105409872	105409872	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ccgaacgacggcatcttgaaCttgggcattttgaacttgct	10	10	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr14:105409872C>T	uc010axc.1	-	7	12036	c.11916G>A	c.(11914-11916)AAG>AAA	p.K3972K	AHNAK2_uc001ypx.2_Silent_p.K3872K	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3972						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)			GCATCTTGAACTTGGGCATTT	0.622													27	705	---	---	---	---	PASS	T	105409872	T	T	105409872	2	4	57	1	0	0	0	0	0	0	0	1	415	564	20	3		3	AHNAK2	14	105409872	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	2037815	105409872	1939668	177	21306										
AHNAK2	113146	broad.mit.edu	37	chr14	105409902	105409902	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttgaacttgctgtctttggcCgtcatgtccttgtcggccag	11	11	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr14:105409902C>A	uc010axc.1	-	7	12006	c.11886G>T	c.(11884-11886)ACG>ACT	p.T3962T	AHNAK2_uc001ypx.2_Silent_p.T3862T	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3962						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)			TGTCTTTGGCCGTCATGTCCT	0.622													48	679	---	---	---	---	PASS	A	105409902	A	A	105409902	2	1	57	1	0	0	0	0	0	0	0	1	415	639	23	1		1	AHNAK2	14	105409902	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	30	105409902	1939638	178	21307										
AHNAK2	113146	broad.mit.edu	37	chr14	105419662	105419662	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cctgcatggagaggaggctcAcgtcggcctccaccttcggc	13	15	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr14:105419662A>T	uc010axc.1	-	7	2246	c.2126T>A	c.(2125-2127)GTG>GAG	p.V709E	AHNAK2_uc001ypx.2_Missense_Mutation_p.V609E	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	709						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)			GAGGAGGCTCACGTCGGCCTC	0.607													138	151	---	---	---	---	PASS	T	105419662	T	T	105419662	3	4	57	1	0	0	0	0	1	0	0	0	415	159	6	5	15265	5	AHNAK2	14	105419662	Missense_Mutation	SNP	A	TCGA-33-4547-01A-01D-1267-08	9760	105419662	1929878	179	21308										
C15orf56	644809	broad.mit.edu	37	chr15	40544699	40544699	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cgacacttggcaacttctccCgcgctctgggttcgccgccg	11	17	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr15:40544699C>G	uc001zla.1	-	2	294	c.273G>C	c.(271-273)GCG>GCC	p.A91A	PAK6_uc010bbl.2_Intron|PAK6_uc010bbm.2_Intron|PAK6_uc001zky.3_Intron|PAK6_uc010bbn.2_Intron|PAK6_uc001zlb.2_5'Flank	NM_001039905	NP_001034994	Q8N910	CO056_HUMAN	hypothetical protein LOC644809	91											0		all_cancers(109;1.62e-14)|all_epithelial(112;7.09e-12)|Lung NSC(122;3.4e-09)|all_lung(180;6.88e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;2.28e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0503)		CAACTTCTCCCGCGCTCTGGG	0.662													6	23	---	---	---	---	PASS	G	40544699	G	G	40544699	2	3	57	1	0	0	0	0	0	0	0	1	1804	639	23	4		4	C15orf56	15	40544699	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08		40544699	61986693	180	21309										
LIPC	3990	broad.mit.edu	37	chr15	58834752	58834752	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ggaatctgtgcaactctctcGaagccatgttcacctaattg	8	11	3	0	rs145742763		TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr15:58834752G>A	uc010bga.1	+	6	1084	c.476G>A	c.(475-477)CGA>CAA	p.R159Q	LIPC_uc010bfz.1_Missense_Mutation_p.R159Q|LIPC_uc002afa.1_Missense_Mutation_p.R159Q|LIPC_uc010bgb.1_Missense_Mutation_p.R57Q|LIPC_uc010ugy.1_Missense_Mutation_p.R98Q	NM_000236	NP_000227	P11150	LIPC_HUMAN	lipase C precursor	159					cholesterol homeostasis|chylomicron remnant clearance|fatty acid biosynthetic process|high-density lipoprotein particle remodeling|intermediate-density lipoprotein particle remodeling|low-density lipoprotein particle remodeling|phosphatidylcholine catabolic process|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein binding|heparin binding|low-density lipoprotein particle binding|phospholipase activity|triglyceride lipase activity			ovary(1)	1		Colorectal(260;0.215)		GBM - Glioblastoma multiforme(80;0.00213)|all cancers(107;0.00548)		CAACTCTCTCGAAGCCATGTT	0.562													36	197	---	---	---	---	PASS	A	58834752	A	A	58834752	3	1	57	1	0	0	0	0	1	0	0	0	8820	1058	37	2	490	2	LIPC	15	58834752	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	18290053	58834752	43696640	181	21310										
VPS13C	54832	broad.mit.edu	37	chr15	62223364	62223364	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gtttaacgctgacattcattGagccatccttaaacatcttc	5	11	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr15:62223364G>C	uc002agz.2	-	50	6037	c.5963C>G	c.(5962-5964)TCA>TGA	p.S1988*	VPS13C_uc002aha.2_Nonsense_Mutation_p.S1945*|VPS13C_uc002ahb.1_Nonsense_Mutation_p.S1988*|VPS13C_uc002ahc.1_Nonsense_Mutation_p.S1945*	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	1988					protein localization					ovary(2)	2						GACATTCATTGAGCCATCCTT	0.423													35	33	---	---	---	---	PASS	C	62223364	C	C	62223364	4	2	57	1	0	0	0	0	0	1	0	0	17188	1294	45	2	5470	2	VPS13C	15	62223364	Nonsense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	3388612	62223364	40308028	182	21311										
PTPN9	5780	broad.mit.edu	37	chr15	75762273	75762273	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agtcaatgagggaagctgctGaggaagggacaccatagtct	14	7	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr15:75762273G>A	uc002bal.2	-	12	1935	c.1427C>T	c.(1426-1428)TCA>TTA	p.S476L		NM_002833	NP_002824	P43378	PTN9_HUMAN	protein tyrosine phosphatase, non-receptor type	476	Tyrosine-protein phosphatase.					cytoplasmic part	non-membrane spanning protein tyrosine phosphatase activity|protein binding			lung(1)|skin(1)	2						GGAAGCTGCTGAGGAAGGGAC	0.522													54	30	---	---	---	---	PASS	A	75762273	A	A	75762273	3	1	57	1	0	0	0	0	1	0	0	0	12794	1294	45	2	362	2	PTPN9	15	75762273	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	13538909	75762273	26769119	183	21312										
HAPLN3	145864	broad.mit.edu	37	chr15	89424863	89424863	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agaccagggccggctcgtagCggtagcggcagggcaggatc	18	11	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr15:89424863C>T	uc002bnc.2	-	3	346	c.218G>A	c.(217-219)CGC>CAC	p.R73H	HAPLN3_uc002bne.2_RNA|HAPLN3_uc002bnd.2_Missense_Mutation_p.R135H	NM_178232	NP_839946	Q96S86	HPLN3_HUMAN	hyaluronan and proteoglycan link protein 3	73	Ig-like V-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	Lung NSC(78;0.0392)|all_lung(78;0.077)					CGGCTCGTAGCGGTAGCGGCA	0.647													60	90	---	---	---	---	PASS	T	89424863	T	T	89424863	3	4	57	1	0	0	0	0	1	0	0	0	6956	768	27	1	876	1	HAPLN3	15	89424863	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	13662590	89424863	13106529	184	21313										
CLCN7	1186	broad.mit.edu	37	chr16	1499072	1499072	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	atcatgatgacggtcaggctCagtgtcatccgcacaatccc	9	13	4	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:1499072C>T	uc002clv.2	-	19	1802	c.1692G>A	c.(1690-1692)CTG>CTA	p.L564L	CLCN7_uc010brq.1_5'Flank|CLCN7_uc002clu.2_Silent_p.L12L|CLCN7_uc002clw.2_Silent_p.L540L	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	564						integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				CGGTCAGGCTCAGTGTCATCC	0.617													37	31	---	---	---	---	PASS	T	1499072	T	T	1499072	2	4	57	1	0	0	0	0	0	0	0	1	3468	813	29	2		2	CLCN7	16	1499072	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08		1499072	88855681	185	21314										
BTBD12	84464	broad.mit.edu	37	chr16	3652259	3652259	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcaaactcctgctgcagggtCaaggccaccgcagcgtcgct	12	15	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:3652259C>G	uc002cvp.2	-	4	1437	c.810G>C	c.(808-810)TTG>TTC	p.L270F	BTBD12_uc002cvq.1_Missense_Mutation_p.L270F	NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	270	Interaction with C20orf94, ERCC4 and MSH2.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						GCTGCAGGGTCAAGGCCACCG	0.537								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				4	182	---	---	---	---	PASS	G	3652259	G	G	3652259	3	3	57	1	0	0	0	0	1	0	0	0	1540	825	29	2	4742	2	BTBD12	16	3652259	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	2153187	3652259	86702494	186	21315										
GRIN2A	2903	broad.mit.edu	37	chr16	9857426	9857426	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gggacactaaacaggctgccGtaaaaatttccctccagaag	9	11	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:9857426G>A	uc002czo.3	-	13	4523	c.3975C>T	c.(3973-3975)TAC>TAT	p.Y1325Y	GRIN2A_uc010uym.1_Silent_p.Y1325Y|GRIN2A_uc010uyn.1_Intron|GRIN2A_uc002czr.3_Intron	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1325	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ACAGGCTGCCGTAAAAATTTC	0.527													51	68	---	---	---	---	PASS	A	9857426	A	A	9857426	2	1	57	1	0	0	0	0	0	0	0	1	6779	1140	40	1		1	GRIN2A	16	9857426	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	6205167	9857426	80497327	187	21316										
MYH11	4629	broad.mit.edu	37	chr16	15831356	15831356	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttcttggccagctgcatcttGagctctgcgatctgcgcctg	11	13	4	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:15831356G>C	uc002ddy.2	-	25	3350	c.3243C>G	c.(3241-3243)CTC>CTG	p.L1081L	MYH11_uc002ddv.2_Silent_p.L1088L|MYH11_uc002ddw.2_Silent_p.L1081L|MYH11_uc002ddx.2_Silent_p.L1088L|MYH11_uc010bvg.2_Silent_p.L913L	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1081	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						GCTGCATCTTGAGCTCTGCGA	0.627			T	CBFB	AML								55	196	---	---	---	---	PASS	C	15831356	C	C	15831356	2	2	57	1	0	0	0	0	0	0	0	1	10031	1277	45	2		2	MYH11	16	15831356	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	5973930	15831356	74523397	188	21317										
MYH11	4629	broad.mit.edu	37	chr16	15841585	15841585	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gggtcaagttccagggctttGatctgcaaaaggaaggaaag	14	6	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:15841585G>C	uc002ddy.2	-	19	2360	c.2253C>G	c.(2251-2253)ATC>ATG	p.I751M	MYH11_uc002ddv.2_Missense_Mutation_p.I758M|MYH11_uc002ddw.2_Missense_Mutation_p.I751M|MYH11_uc002ddx.2_Missense_Mutation_p.I758M|MYH11_uc010bvg.2_Missense_Mutation_p.I583M	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	751	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						CCAGGGCTTTGATCTGCAAAA	0.522			T	CBFB	AML								22	95	---	---	---	---	PASS	C	15841585	C	C	15841585	3	2	57	1	0	0	0	0	1	0	0	0	10031	1280	45	2	3792	2	MYH11	16	15841585	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	10229	15841585	74513168	189	21318										
ABCC1	4363	broad.mit.edu	37	chr16	16110447	16110447	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gtcctgtttctcagatcgctCacccctgttctcggaaacca	7	15	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:16110447C>T	uc010bvi.2	+	5	759	c.584C>T	c.(583-585)TCA>TTA	p.S195L	ABCC1_uc010bvj.2_Missense_Mutation_p.S195L|ABCC1_uc010bvk.2_Missense_Mutation_p.S195L|ABCC1_uc010bvl.2_Missense_Mutation_p.S195L|ABCC1_uc010bvm.2_Missense_Mutation_p.S195L|ABCC1_uc002del.3_Missense_Mutation_p.S79L|ABCC1_uc010bvn.2_Missense_Mutation_p.S58L	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	195	Cytoplasmic.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TCAGATCGCTCACCCCTGTTC	0.502													166	508	---	---	---	---	PASS	T	16110447	T	T	16110447	3	4	57	1	0	0	0	0	1	0	0	0	49	838	29	2	602	2	ABCC1	16	16110447	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	268862	16110447	74244306	190	21319										
CLN3	1201	broad.mit.edu	37	chr16	28497729	28497729	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ggtctgctgaggggagaggcCggcctgggtgaggcccaggt	21	9	1	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:28497729C>T	uc002dpo.2	-	8	939	c.616G>A	c.(616-618)GGC>AGC	p.G206S	uc010vct.1_Intron|CLN3_uc002dpl.2_Missense_Mutation_p.G128S|CLN3_uc010vcu.1_Missense_Mutation_p.G106S|CLN3_uc002dpn.2_Intron|CLN3_uc002dpm.2_Missense_Mutation_p.G152S|CLN3_uc010vcv.1_Missense_Mutation_p.G182S|CLN3_uc010byd.2_Missense_Mutation_p.G206S|CLN3_uc002dpp.2_Missense_Mutation_p.G206S|CLN3_uc002dpt.1_Missense_Mutation_p.G106S|CLN3_uc002dpq.1_Intron|CLN3_uc010bye.1_Missense_Mutation_p.G206S|CLN3_uc002dpr.1_Intron|CLN3_uc010byf.1_Intron|CLN3_uc002dps.1_Intron|CLN3_uc002dpu.1_Intron|CLN3_uc002dpw.1_Intron|CLN3_uc010vcw.1_Missense_Mutation_p.G152S|CLN3_uc002dqa.2_Missense_Mutation_p.G257S|CLN3_uc010vcx.1_Missense_Mutation_p.G106S|CLN3_uc002dpx.1_Intron|CLN3_uc002dpy.1_Intron|CLN3_uc002dpz.1_RNA	NM_000086	NP_000077	Q13286	CLN3_HUMAN	ceroid-lipofuscinosis, neuronal 3	206					amyloid precursor protein catabolic process|arginine transport|associative learning|autophagic vacuole fusion|cell death|cellular amino acid metabolic process|cytosolic calcium ion homeostasis|galactosylceramide metabolic process|globoside metabolic process|glucosylceramide metabolic process|ionotropic glutamate receptor signaling pathway|lysosomal lumen acidification|lysosomal lumen pH elevation|negative regulation of catalytic activity|negative regulation of macroautophagy|negative regulation of neuron apoptosis|negative regulation of proteolysis|neuromuscular process controlling balance|neurotransmitter metabolic process|protein catabolic process|protein folding|protein processing|receptor-mediated endocytosis|regulation of action potential|sphingomyelin metabolic process|vacuolar transport	autophagic vacuole|caveola|cytosol|early endosome|Golgi membrane|Golgi stack|integral to endoplasmic reticulum membrane|late endosome|lysosomal membrane|membrane fraction|mitochondrion|neuron projection|nucleus|synaptic vesicle|trans-Golgi network	unfolded protein binding				0						GGGGAGAGGCCGGCCTGGGTG	0.687													28	21	---	---	---	---	PASS	T	28497729	T	T	28497729	3	4	57	1	0	0	0	0	1	0	0	0	3543	652	23	1	732	1	CLN3	16	28497729	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	12387282	28497729	61857024	191	21320										
TUFM	7284	broad.mit.edu	37	chr16	28856350	28856350	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	accaccaggatgcagccgtcGaggggtgcagtgcctgtgat	15	11	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:28856350G>A	uc002drh.2	-	4	580	c.441C>T	c.(439-441)CTC>CTT	p.L147L	uc010vct.1_Intron|SH2B1_uc002dri.2_5'Flank	NM_003321	NP_003312	P49411	EFTU_HUMAN	Tu translation elongation factor, mitochondrial	144						mitochondrial nucleoid	GTP binding|GTPase activity|protein binding|translation elongation factor activity			ovary(1)	1						TGCAGCCGTCGAGGGGTGCAG	0.542													22	44	---	---	---	---	PASS	A	28856350	A	A	28856350	2	1	57	1	0	0	0	0	0	0	0	1	16768	1045	37	2		2	TUFM	16	28856350	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	358621	28856350	61498403	192	21321										
ZNF319	57567	broad.mit.edu	37	chr16	58030723	58030723	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgggcacttgagtggcttctCgcgggccggatcgcagcggt	17	11	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:58030723C>T	uc002emx.1	-	2	2070	c.1447G>A	c.(1447-1449)GAG>AAG	p.E483K		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	483					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGTGGCTTCTCGCGGGCCGGA	0.642													7	15	---	---	---	---	PASS	T	58030723	T	T	58030723	3	4	57	1	0	0	0	0	1	0	0	0	17834	893	31	2	305	2	ZNF319	16	58030723	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	29174373	58030723	32324030	193	21322										
B3GNT9	84752	broad.mit.edu	37	chr16	67184165	67184165	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agggtcccgtaggcgtgggcGgcgccggtgtgtccccttcg	18	13	0	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:67184165G>A	uc002erf.2	-	2	545	c.224C>T	c.(223-225)CCG>CTG	p.P75L	uc002erg.1_3'UTR	NM_033309	NP_171608	Q6UX72	B3GN9_HUMAN	UDP-GlcNAc:betaGal	75	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0						AGGCGTGGGCGGCGCCGGTGT	0.716													14	33	---	---	---	---	PASS	A	67184165	A	A	67184165	3	1	57	1	0	0	0	0	1	0	0	0	1264	1116	39	1	988	1	B3GNT9	16	67184165	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	9153442	67184165	23170588	194	21323										
ZFP90	146198	broad.mit.edu	37	chr16	68598214	68598214	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgtgggaaagctttcaaaagGagtacaagtttcatagagca	11	5	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:68598214G>C	uc010cff.2	+	5	1816	c.1524G>C	c.(1522-1524)AGG>AGC	p.R508S	ZFP90_uc002ewb.2_3'UTR|ZFP90_uc002ewc.2_3'UTR|ZFP90_uc002ewd.2_Missense_Mutation_p.R508S|ZFP90_uc002ewe.2_Missense_Mutation_p.R508S	NM_133458	NP_597715	Q8TF47	ZFP90_HUMAN	zinc finger protein 90	508	C2H2-type 9.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00233)|Epithelial(162;0.0184)|all cancers(182;0.0946)		CTTTCAAAAGGAGTACAAGTT	0.418													13	67	---	---	---	---	PASS	C	68598214	C	C	68598214	3	2	57	1	0	0	0	0	1	0	0	0	17651	1165	41	2	1538	2	ZFP90	16	68598214	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	1414049	68598214	21756539	195	21324										
CHST4	10164	broad.mit.edu	37	chr16	71570713	71570713	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cacagcccgagcgcatgcacGtgctggttctgtcttcctgg	12	14	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:71570713G>A	uc002fan.2	+	2	314	c.133G>A	c.(133-135)GTG>ATG	p.V45M	CHST4_uc002fao.2_Missense_Mutation_p.V45M	NM_005769	NP_005760	Q8NCG5	CHST4_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	45	Lumenal (Potential).				cell-cell signaling|immune response|inflammatory response|N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity				0						GCGCATGCACGTGCTGGTTCT	0.552													5	108	---	---	---	---	PASS	A	71570713	A	A	71570713	3	1	57	1	0	0	0	0	1	0	0	0	3406	1145	40	1	135	1	CHST4	16	71570713	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	2972499	71570713	18784040	196	21325										
DPEP1	1800	broad.mit.edu	37	chr16	89704569	89704569	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tggggcttccagcctccatcGccactgggggctcctgctgg	14	15	0	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr16:89704569G>A	uc010cin.2	+	11	1378	c.1175G>A	c.(1174-1176)CGC>CAC	p.R392H	DPEP1_uc002fnr.3_Missense_Mutation_p.R392H|DPEP1_uc002fns.3_Missense_Mutation_p.R392H	NM_001128141	NP_001121613	P16444	DPEP1_HUMAN	dipeptidase 1 precursor	392					proteolysis	anchored to membrane|apical plasma membrane|microvillus membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity|protein binding			large_intestine(1)	1		all_lung(18;0.0054)|all_hematologic(23;0.094)		BRCA - Breast invasive adenocarcinoma(80;0.0258)	Cilastatin(DB01597)	AGCCTCCATCGCCACTGGGGG	0.657													28	57	---	---	---	---	PASS	A	89704569	A	A	89704569	3	1	57	1	0	0	0	0	1	0	0	0	4713	1087	38	1	1213	1	DPEP1	16	89704569	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	18133856	89704569	650184	197	21326										
KIAA0753	9851	broad.mit.edu	37	chr17	6499544	6499544	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tccttgctgtcctcaacggtGgctaaggtttcagaccccaa	9	13	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr17:6499544G>T	uc002gde.3	-	15	2651	c.2292C>A	c.(2290-2292)GCC>GCA	p.A764A	KIAA0753_uc010vtd.1_Silent_p.A220A|KIAA0753_uc010clo.2_Silent_p.A465A|KIAA0753_uc010vte.1_Silent_p.A465A	NM_014804	NP_055619	Q2KHM9	K0753_HUMAN	hypothetical protein LOC9851	764						centrosome					0				COAD - Colon adenocarcinoma(228;0.157)		CCTCAACGGTGGCTAAGGTTT	0.507													5	132	---	---	---	---	PASS	T	6499544	T	T	6499544	2	4	57	1	0	0	0	0	0	0	0	1	8191	1335	47	3		3	KIAA0753	17	6499544	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08		6499544	74695666	198	21327										
RNASEK	440400	broad.mit.edu	37	chr17	6916010	6916010	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gactcccttctttatggcgtCgctcctgtgctgtgggccga	12	13	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr17:6916010C>A	uc002gea.2	+	1	213	c.8C>A	c.(7-9)TCG>TAG	p.S3*	uc002gdy.1_5'Flank|C17orf49_uc002geb.3_5'UTR|C17orf49_uc002gec.2_5'UTR|C17orf49_uc002ged.2_5'Flank|C17orf49_uc002gee.2_5'Flank|C17orf49_uc010vti.1_5'Flank	NM_001004333	NP_001004333	Q6P5S7	RNK_HUMAN	ribonuclease kappa	3					rRNA transcription	integral to membrane	endoribonuclease activity				0						TTTATGGCGTCGCTCCTGTGC	0.677													12	28	---	---	---	---	PASS	A	6916010	A	A	6916010	4	1	57	1	0	0	0	0	0	1	0	0	13415	893	31	2	10	2	RNASEK	17	6916010	Nonsense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	416466	6916010	74279200	199	21328										
CD68	968	broad.mit.edu	37	chr17	7484226	7484226	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tcctccagagtggacattctCggctcagaatgcatcccttc	8	14	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr17:7484226C>G	uc002ghv.2	+	5	964	c.773C>G	c.(772-774)TCG>TGG	p.S258W	CD68_uc002ghu.2_Missense_Mutation_p.S231W|MPDU1_uc010vub.1_5'Flank|MPDU1_uc002ghw.2_5'Flank|MPDU1_uc002ghx.2_5'Flank|MPDU1_uc010vuc.1_5'Flank	NM_001251	NP_001242	P34810	CD68_HUMAN	CD68 antigen isoform A	258	Extracellular (Potential).					endosome membrane|integral to membrane|lysosomal membrane|membrane fraction|plasma membrane					0						TGGACATTCTCGGCTCAGAAT	0.557													26	65	---	---	---	---	PASS	G	7484226	G	G	7484226	3	3	57	1	0	0	0	0	1	0	0	0	3030	893	31	2	791	2	CD68	17	7484226	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	568216	7484226	73710984	200	21329										
TP53	7157	broad.mit.edu	37	chr17	7577127	7577127	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	acaggcacaaacacgcacctCaaagctgttccgtcccagta	7	15	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr17:7577127C>T	uc002gim.2	-	8	1005	c.811G>A	c.(811-813)GAG>AAG	p.E271K	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.E271K|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.E139K|TP53_uc010cng.1_Missense_Mutation_p.E139K|TP53_uc002gii.1_Missense_Mutation_p.E139K|TP53_uc010cnh.1_Missense_Mutation_p.E271K|TP53_uc010cni.1_Missense_Mutation_p.E271K|TP53_uc002gij.2_Missense_Mutation_p.E271K	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	271	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> D (in sporadic cancers; somatic mutation).|E -> G (in sporadic cancers; somatic mutation).|E -> V (in an osteosarcoma with no family history; germline mutation and in sporadic cancers; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).|E -> R (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|E -> A (in sporadic cancers; somatic mutation).|E -> Q (in sporadic cancers; somatic mutation).|E -> 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.E271K(22)|p.E271*(14)|p.0?(7)|p.E271V(5)|p.E271Q(3)|p.E271G(3)|p.E271D(3)|p.?(2)|p.G266_E271delGRNSFE(2)|p.E271E(2)|p.E271fs*73(1)|p.E258fs*71(1)|p.E271_R273delEVR(1)|p.F270fs*72(1)|p.S269fs*21(1)|p.L265_K305del41(1)|p.F270_D281del12(1)|p.E271P(1)|p.E271del(1)|p.S269fs*34(1)|p.E271fs*34(1)|p.E271fs*35(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)		ACACGCACCTCAAAGCTGTTC	0.537		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)			12	20	---	---	---	---	PASS	T	7577127	T	T	7577127	3	4	57	1	0	0	0	0	1	0	0	0	16378	835	29	2	475	2	TP53	17	7577127	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	92901	7577127	73618083	201	21330										
DNAH9	1770	broad.mit.edu	37	chr17	11711192	11711192	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gatcacactgcgcaaaggctAccagatccaggacttcaagg	10	12	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr17:11711192A>C	uc002gne.2	+	44	8632	c.8564A>C	c.(8563-8565)TAC>TCC	p.Y2855S	DNAH9_uc010coo.2_Missense_Mutation_p.Y2149S	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2855	AAA 4 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CGCAAAGGCTACCAGATCCAG	0.562													3	38	---	---	---	---	PASS	C	11711192	C	C	11711192	3	2	57	1	0	0	0	0	1	0	0	0	4608	391	14	5	8738	5	DNAH9	17	11711192	Missense_Mutation	SNP	A	TCGA-33-4547-01A-01D-1267-08	4134065	11711192	69484018	202	21331										
TUBG2	27175	broad.mit.edu	37	chr17	40818455	40818455	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctccctacctgccctcggccCaccgggtcagcgggctcatg	11	19	2	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr17:40818455C>A	uc010wgr.1	+	10	1367	c.1111C>A	c.(1111-1113)CAC>AAC	p.H371N	TUBG2_uc002iaq.2_Missense_Mutation_p.H213N|TUBG2_uc002iar.2_Missense_Mutation_p.H218N|TUBG2_uc002ias.2_Missense_Mutation_p.H213N|TUBG2_uc002iap.2_Missense_Mutation_p.H218N	NM_016437	NP_057521	Q9NRH3	TBG2_HUMAN	tubulin, gamma 2	371					G2/M transition of mitotic cell cycle|microtubule-based process|protein polymerization	cytosol	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.141)		GCCCTCGGCCCACCGGGTCAG	0.607													13	169	---	---	---	---	PASS	A	40818455	A	A	40818455	3	1	57	1	0	0	0	0	1	0	0	0	16762	594	21	3	1149	3	TUBG2	17	40818455	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	29107263	40818455	40376755	203	21332										
CD300A	11314	broad.mit.edu	37	chr17	72469886	72469886	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agggacagtcctgcaaacctCagcttcacagtgaccctgga	10	13	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr17:72469886C>G	uc002jkv.2	+	2	573	c.252C>G	c.(250-252)CTC>CTG	p.L84L	CD300A_uc002jkw.2_Intron|CD300A_uc010dfr.2_Intron|CD300A_uc010dfs.2_Intron	NM_007261	NP_009192	Q9UGN4	CLM8_HUMAN	leukocyte membrane antigen	84	Extracellular (Potential).|Ig-like V-type.				cell adhesion	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2						CTGCAAACCTCAGCTTCACAG	0.532													3	119	---	---	---	---	PASS	G	72469886	G	G	72469886	2	3	57	1	0	0	0	0	0	0	0	1	2996	813	29	2		2	CD300A	17	72469886	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	31651431	72469886	8725324	204	21333										
TCEB3C	162699	broad.mit.edu	37	chr18	44554593	44554593	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttatcgtcgggagaatcttcCcttgtagtctcgaattgcct	9	10	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr18:44554593C>G	uc010xdb.1	-	1	1857	c.1621G>C	c.(1621-1623)GGA>CGA	p.G541R	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	541					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						GAGAATCTTCCCTTGTAGTCT	0.443													10	680	---	---	---	---	PASS	G	44554593	G	G	44554593	3	3	57	1	0	0	0	0	1	0	0	0	15680	632	22	4	1666	4	TCEB3C	18	44554593	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08		44554593	33522655	205	21334										
SMAD4	4089	broad.mit.edu	37	chr18	48604754	48604754	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aagaaacaccttgctggattGaaattcacttacaccgggcc	8	11	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr18:48604754G>T	uc010xdp.1	+	12	2114	c.1576G>T	c.(1576-1578)GAA>TAA	p.E526*	SMAD4_uc002lfb.3_Nonsense_Mutation_p.E371*	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	526	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)|p.E526*(2)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TTGCTGGATTGAAATTCACTT	0.488									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				15	31	---	---	---	---	PASS	T	48604754	T	T	48604754	4	4	57	1	0	0	0	0	0	1	0	0	14760	1291	45	2	1618	2	SMAD4	18	48604754	Nonsense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	4050161	48604754	29472494	206	21335										
S1PR4	8698	broad.mit.edu	37	chr19	3179147	3179147	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctggcgcccgcccagtggttCctacgggagggcctgctctt	14	15	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:3179147C>T	uc002lxg.2	+	1	382	c.357C>T	c.(355-357)TTC>TTT	p.F119F		NM_003775	NP_003766	O95977	S1PR4_HUMAN	sphingosine-1-phosphate receptor 4 precursor	119	Helical; Name=3; (By similarity).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|immune response	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			lung(1)|skin(1)	2						CCCAGTGGTTCCTACGGGAGG	0.697													15	89	---	---	---	---	PASS	T	3179147	T	T	3179147	2	4	57	1	0	0	0	0	0	0	0	1	13796	854	30	2		2	S1PR4	19	3179147	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08		3179147	55949836	207	21336										
SLC25A41	284427	broad.mit.edu	37	chr19	6433624	6433624	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgggggggaggcggggctttGatgagtaaggtcttgaccct	19	6	1	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:6433624G>C	uc010dus.2	-	1	167	c.81C>G	c.(79-81)ATC>ATG	p.I27M	SLC25A41_uc010dut.2_Translation_Start_Site	NM_173637	NP_775908	Q8N5S1	S2541_HUMAN	solute carrier family 25, member 41	27					transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0						gcggggCTTTGATGAGTAAGG	0.428													6	38	---	---	---	---	PASS	C	6433624	C	C	6433624	3	2	57	1	0	0	0	0	1	0	0	0	14506	1280	45	2	1059	2	SLC25A41	19	6433624	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	3254477	6433624	52695359	208	21337										
S1PR5	53637	broad.mit.edu	37	chr19	10624743	10624743	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cagaccaggcgcaggagcgcGtggcgcaggtcgcggttggt	19	11	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:10624743G>A	uc002mot.1	-	2	1002	c.945C>T	c.(943-945)CAC>CAT	p.H315H	S1PR5_uc002mou.1_Silent_p.H315H	NM_030760	NP_110387	Q9H228	S1PR5_HUMAN	endothelial differentiation, sphingolipid	315	Cytoplasmic (By similarity).					integral to membrane|plasma membrane	lysosphingolipid and lysophosphatidic acid receptor activity			central_nervous_system(1)|pancreas(1)	2						GCAGGAGCGCGTGGCGCAGGT	0.682													11	60	---	---	---	---	PASS	A	10624743	A	A	10624743	2	1	57	1	0	0	0	0	0	0	0	1	13797	1136	40	1		1	S1PR5	19	10624743	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	4191119	10624743	48504240	209	21338										
ZSWIM4	65249	broad.mit.edu	37	chr19	13930269	13930269	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ccgcactgctgcctcatgacCcggacctggcctatcgcctc	9	19	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:13930269C>G	uc002mxh.1	+	9	1861	c.1672C>G	c.(1672-1674)CCG>GCG	p.P558A	ZSWIM4_uc010xng.1_Missense_Mutation_p.P481A	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	558							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			GCCTCATGACCCGGACCTGGC	0.672													4	21	---	---	---	---	PASS	G	13930269	G	G	13930269	3	3	57	1	0	0	0	0	1	0	0	0	18240	623	22	4	1706	4	ZSWIM4	19	13930269	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	3305526	13930269	45198714	210	21339										
PKN1	5585	broad.mit.edu	37	chr19	14580255	14580255	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	acaccggagcacgtgtgcttCgtgatggagtactcggccgg	15	11	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:14580255C>A	uc002myp.2	+	16	2247	c.2079C>A	c.(2077-2079)TTC>TTA	p.F693L	PKN1_uc002myq.2_Missense_Mutation_p.F699L|PKN1_uc002myr.2_Missense_Mutation_p.F33L	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	693	Protein kinase.				activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						ACGTGTGCTTCGTGATGGAGT	0.627													4	277	---	---	---	---	PASS	A	14580255	A	A	14580255	3	1	57	1	0	0	0	0	1	0	0	0	11979	883	31	2	2184	2	PKN1	19	14580255	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	649986	14580255	44548728	211	21340										
SLC27A1	376497	broad.mit.edu	37	chr19	17581502	17581502	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cgcatcgtctgcaagaccgcGaggcgagacctcttgtgagt	13	12	2	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:17581502G>C	uc002ngu.1	+	1	203	c.153G>C	c.(151-153)GCG>GCC	p.A51A	SLC27A1_uc002ngt.1_5'UTR|SLC27A1_uc010xpp.1_5'UTR	NM_198580	NP_940982	Q6PCB7	S27A1_HUMAN	solute carrier family 27, member 1	51	Cytoplasmic (Potential).				cardiolipin biosynthetic process|fatty acid metabolic process|long-chain fatty acid transport|negative regulation of phospholipid biosynthetic process|phosphatidic acid biosynthetic process|phosphatidylcholine biosynthetic process|phosphatidylethanolamine biosynthetic process|phosphatidylinositol biosynthetic process|phosphatidylserine biosynthetic process|transmembrane transport	endomembrane system|integral to membrane	fatty acid transporter activity|nucleotide binding				0						GCAAGACCGCGAGGCGAGACC	0.741													6	4	---	---	---	---	PASS	C	17581502	C	C	17581502	2	2	57	1	0	0	0	0	0	0	0	1	14525	1045	37	2		2	SLC27A1	19	17581502	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	3001247	17581502	41547481	212	21341										
CRTC1	23373	broad.mit.edu	37	chr19	18864380	18864380	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aaaaacctttccaagcaagcAtgggacaccaagaaggtaag	9	9	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:18864380A>G	uc002nkb.3	+	6	697	c.609A>G	c.(607-609)GCA>GCG	p.A203A	CRTC1_uc010ebv.2_Silent_p.A219A|CRTC1_uc010ebw.2_Silent_p.A68A|CRTC1_uc002nkc.3_Silent_p.A68A	NM_015321	NP_056136	Q6UUV9	CRTC1_HUMAN	mucoepidermoid carcinoma translocated 1 isoform	203					interspecies interaction between organisms|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	cAMP response element binding protein binding|protein binding		CRTC1/MAML2(516)	salivary_gland(474)|lung(35)|thyroid(4)|breast(3)|skin(2)|ovary(1)	519						CCAAGCAAGCATGGGACACCA	0.463													57	219	---	---	---	---	PASS	G	18864380	G	G	18864380	2	3	57	1	0	0	0	0	0	0	0	1	3899	204	8	5		5	CRTC1	19	18864380	Silent	SNP	A	TCGA-33-4547-01A-01D-1267-08	1282878	18864380	40264603	213	21342										
ZNF675	171392	broad.mit.edu	37	chr19	23845859	23845859	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aagaccaggtttctgtagttCtctaaaatcacatttttata	5	7	3	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:23845859C>A	uc002nri.2	-	2	287	c.105G>T	c.(103-105)GAG>GAT	p.E35D		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	35	KRAB.				bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				TTCTGTAGTTCTCTAAAATCA	0.303													4	95	---	---	---	---	PASS	A	23845859	A	A	23845859	3	1	57	1	0	0	0	0	1	0	0	0	18079	912	32	2	1613	2	ZNF675	19	23845859	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	4981479	23845859	35283124	214	21343										
ZNF565	147929	broad.mit.edu	37	chr19	36673603	36673603	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	taaaggccttcccacattccTtacattcgtagggtttgtca	7	11	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:36673603T>A	uc002odn.2	-	5	1373	c.1265A>T	c.(1264-1266)AAG>ATG	p.K422M	ZNF565_uc010ees.2_Missense_Mutation_p.K357M|ZNF565_uc002odo.2_Missense_Mutation_p.K422M	NM_152477	NP_689690	Q8N9K5	ZN565_HUMAN	zinc finger protein 565	422	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.206)			CCCACATTCCTTACATTCGTA	0.443													11	63	---	---	---	---	PASS	A	36673603	A	A	36673603	3	1	57	1	0	0	0	0	1	0	0	0	17993	1609	56	5	238	5	ZNF565	19	36673603	Missense_Mutation	SNP	T	TCGA-33-4547-01A-01D-1267-08	12827744	36673603	22455380	215	21344										
ZNF780A	284323	broad.mit.edu	37	chr19	40581535	40581535	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttcatatggttttacaccagAatgaatactctgatgttgaa	7	6	2	4			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:40581535A>C	uc002omy.2	-	6	1039	c.814T>G	c.(814-816)TCT>GCT	p.S272A	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.S272A|ZNF780A_uc010xvh.1_Missense_Mutation_p.S273A	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	272					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TTTACACCAGAATGAATACTC	0.388													3	201	---	---	---	---	PASS	C	40581535	C	C	40581535	3	2	57	1	0	0	0	0	1	0	0	0	18149	246	9	5	1242	5	ZNF780A	19	40581535	Missense_Mutation	SNP	A	TCGA-33-4547-01A-01D-1267-08	3907932	40581535	18547448	216	21345										
C19orf54	284325	broad.mit.edu	37	chr19	41248484	41248484	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	caggttgctctcccggacctGgtcgtagtcccacagctgat	11	14	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:41248484G>A	uc002oou.1	-	6	1030	c.910C>T	c.(910-912)CAG>TAG	p.Q304*	C19orf54_uc002oow.1_Nonsense_Mutation_p.Q132*|C19orf54_uc002oox.1_RNA|C19orf54_uc002ooy.1_Intron|C19orf54_uc010xvs.1_RNA	NM_198476	NP_940878	Q5BKX5	CS054_HUMAN	hypothetical protein LOC284325	304											0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			TCCCGGACCTGGTCGTAGTCC	0.662													5	29	---	---	---	---	PASS	A	41248484	A	A	41248484	4	1	57	1	0	0	0	0	0	1	0	0	1936	1357	47	3	149	3	C19orf54	19	41248484	Nonsense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	666949	41248484	17880499	217	21346										
MEGF8	1954	broad.mit.edu	37	chr19	42872647	42872647	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcccctgcgatgtatggccgGaggctgtgggcggctgctcc	17	13	0	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:42872647G>T	uc002otl.3	+	35	6748	c.6113G>T	c.(6112-6114)GGA>GTA	p.G2038V	MEGF8_uc002otm.3_Missense_Mutation_p.G1646V|MEGF8_uc002otn.3_5'Flank	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	2105	Extracellular (Potential).|PSI 6.					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				TGTATGGCCGGAGGCTGTGGG	0.642													6	24	---	---	---	---	PASS	T	42872647	T	T	42872647	3	4	57	1	0	0	0	0	1	0	0	0	9463	1174	41	2	6251	2	MEGF8	19	42872647	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	1624163	42872647	16256336	218	21347										
FBXO46	23403	broad.mit.edu	37	chr19	46215941	46215941	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aggccgctgtctggtgcacgGggctcccggccgttggagat	17	12	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:46215941G>T	uc002pcy.2	-	2	938	c.813C>A	c.(811-813)CCC>CCA	p.P271P	FBXO46_uc002pcz.2_Silent_p.P271P	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	271							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		CTGGTGCACGGGGCTCCCGGC	0.726													4	44	---	---	---	---	PASS	T	46215941	T	T	46215941	2	4	57	1	0	0	0	0	0	0	0	1	5755	1219	43	3		3	FBXO46	19	46215941	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	3343294	46215941	12913042	219	21348										
SNRNP70	6625	broad.mit.edu	37	chr19	49601727	49601727	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gctcagggggatgccttcaaGactctcttcgtggcgagagt	14	10	3	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:49601727G>C	uc002pmk.2	+	5	748	c.309G>C	c.(307-309)AAG>AAC	p.K103N	SNRNP70_uc002pmh.1_RNA|SNRNP70_uc002pmi.1_Missense_Mutation_p.K103N|SNRNP70_uc002pml.2_5'UTR|SNRNP70_uc002pmm.2_RNA	NM_003089	NP_003080	P08621	RU17_HUMAN	U1 small nuclear ribonucleoprotein 70 kDa	103	RRM.				nuclear mRNA splicing, via spliceosome|regulation of RNA splicing	nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0						ATGCCTTCAAGACTCTCTTCG	0.532											OREG0025616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	190	---	---	---	---	PASS	C	49601727	C	C	49601727	3	2	57	1	0	0	0	0	1	0	0	0	14858	933	33	2	323	2	SNRNP70	19	49601727	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	3385786	49601727	9527256	220	21349										
PPFIA3	8541	broad.mit.edu	37	chr19	49631272	49631272	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcctgctggagacgctgcgcGaggcacaggacgggttggct	18	11	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:49631272G>A	uc002pmr.2	+	2	474	c.142G>A	c.(142-144)GAG>AAG	p.E48K	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_5'Flank|PPFIA3_uc010yaj.1_5'Flank|PPFIA3_uc002pms.2_5'Flank	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	48	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		GACGCTGCGCGAGGCACAGGA	0.736													8	58	---	---	---	---	PASS	A	49631272	A	A	49631272	3	1	57	1	0	0	0	0	1	0	0	0	12311	1059	37	2	144	2	PPFIA3	19	49631272	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	29545	49631272	9497711	221	21350										
FCGRT	2217	broad.mit.edu	37	chr19	50017655	50017655	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cagcagcaggacaaggcggcCaacaaggagctcaccttcct	11	14	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:50017655C>T	uc002poe.2	+	4	999	c.513C>T	c.(511-513)GCC>GCT	p.A171A	FCGRT_uc002pod.2_RNA|FCGRT_uc002pog.2_Silent_p.A171A|FCGRT_uc002pof.1_Silent_p.A76A|FCGRT_uc010yax.1_Silent_p.A171A|FCGRT_uc002poh.1_Silent_p.A31A	NM_001136019	NP_001129491	P55899	FCGRN_HUMAN	Fc fragment of IgG, receptor, transporter, alpha	171	Extracellular (Potential).|Alpha-2.				antigen processing and presentation|female pregnancy|immune response	integral to membrane|MHC class I protein complex	IgG binding|receptor activity			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;0.00291)|GBM - Glioblastoma multiforme(134;0.0156)		ACAAGGCGGCCAACAAGGAGC	0.647													12	29	---	---	---	---	PASS	T	50017655	T	T	50017655	2	4	57	1	0	0	0	0	0	0	0	1	5786	581	21	3		3	FCGRT	19	50017655	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	386383	50017655	9111328	222	21351										
SIGLEC8	27181	broad.mit.edu	37	chr19	51957955	51957955	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cacatgatgaagatgatgcaGaaggacaggaaggccagggc	15	7	0	5			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:51957955G>C	uc002pwt.2	-	5	1198	c.1131C>G	c.(1129-1131)TTC>TTG	p.F377L	SIGLEC8_uc010yda.1_Missense_Mutation_p.F268L|SIGLEC8_uc002pwu.2_RNA|SIGLEC8_uc010eox.2_Missense_Mutation_p.F284L	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	377	Helical; (Potential).				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		AGATGATGCAGAAGGACAGGA	0.587													30	135	---	---	---	---	PASS	C	51957955	C	C	51957955	3	2	57	1	0	0	0	0	1	0	0	0	14314	933	33	2	380	2	SIGLEC8	19	51957955	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	1940300	51957955	7171028	223	21352										
ZNF256	10172	broad.mit.edu	37	chr19	58452800	58452800	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgcactcatatggcctttctCctgtgtgaactctctcatgt	7	12	4	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr19:58452800C>G	uc002qqu.2	-	3	1611	c.1376G>C	c.(1375-1377)GGA>GCA	p.G459A	ZNF256_uc010euj.2_Missense_Mutation_p.G306A	NM_005773	NP_005764	Q9Y2P7	ZN256_HUMAN	zinc finger protein 256	459					multicellular organismal development|negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0155)		TGGCCTTTCTCCTGTGTGAAC	0.398													17	50	---	---	---	---	PASS	G	58452800	G	G	58452800	3	3	57	1	0	0	0	0	1	0	0	0	17796	855	30	2	511	2	ZNF256	19	58452800	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	6494845	58452800	676183	224	21353										
C20orf7	79133	broad.mit.edu	37	chr20	13782282	13782282	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctcctttcactgctgtcaatGacctgggacatctgcttggg	10	12	3	1	rs149637004		TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr20:13782282G>C	uc002wom.2	+	7	703	c.670G>C	c.(670-672)GAC>CAC	p.D224H	C20orf7_uc002wol.1_3'UTR|C20orf7_uc002won.2_Missense_Mutation_p.D196H|C20orf7_uc002woo.2_RNA	NM_024120	NP_077025	Q5TEU4	CT007_HUMAN	hypothetical protein LOC79133 isoform 1	224					mitochondrial respiratory chain complex I assembly	extrinsic to mitochondrial inner membrane	methyltransferase activity				0		Myeloproliferative disorder(85;0.00878)				TGCTGTCAATGACCTGGGACA	0.438													7	51	---	---	---	---	PASS	C	13782282	C	C	13782282	3	2	57	1	0	0	0	0	1	0	0	0	2115	1290	45	2	716	2	C20orf7	20	13782282	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08		13782282	49243238	225	21354										
SPAG4	6676	broad.mit.edu	37	chr20	34204067	34204067	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agcccgggcctggggagcccGagggcagaagagcccggggc	20	13	0	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr20:34204067G>T	uc002xdb.1	+	1	259	c.142G>T	c.(142-144)GAG>TAG	p.E48*	SPAG4_uc010zvi.1_5'UTR	NM_003116	NP_003107	Q9NPE6	SPAG4_HUMAN	sperm associated antigen 4	48					spermatogenesis	cilium|flagellar axoneme|integral to membrane	structural molecule activity				0	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			TGGGGAGCCCGAGGGCAGAAG	0.667													4	18	---	---	---	---	PASS	T	34204067	T	T	34204067	4	4	57	1	0	0	0	0	0	1	0	0	14980	1059	37	2	144	2	SPAG4	20	34204067	Nonsense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	20421785	34204067	28821453	226	21355										
SPAG4	6676	broad.mit.edu	37	chr20	34204119	34204119	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tgagcccgccttgagcgcggGagtgcccggaggaaccacat	15	13	0	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr20:34204119G>C	uc002xdb.1	+	1	311	c.194G>C	c.(193-195)GGA>GCA	p.G65A	SPAG4_uc010zvi.1_5'UTR	NM_003116	NP_003107	Q9NPE6	SPAG4_HUMAN	sperm associated antigen 4	65					spermatogenesis	cilium|flagellar axoneme|integral to membrane	structural molecule activity				0	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			TTGAGCGCGGGAGTGCCCGGA	0.716													6	8	---	---	---	---	PASS	C	34204119	C	C	34204119	3	2	57	1	0	0	0	0	1	0	0	0	14980	1174	41	2	196	2	SPAG4	20	34204119	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	52	34204119	28821401	227	21356										
NDRG3	57446	broad.mit.edu	37	chr20	35312861	35312861	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gcatttcagccagctcatccAttgtggggtactgatacctg	10	11	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr20:35312861A>G	uc002xfw.2	-	6	420	c.338T>C	c.(337-339)ATG>ACG	p.M113T	NDRG3_uc002xfx.2_Missense_Mutation_p.M101T|NDRG3_uc010zvq.1_Missense_Mutation_p.M18T|NDRG3_uc010zvr.1_Missense_Mutation_p.M1T	NM_032013	NP_114402	Q9UGV2	NDRG3_HUMAN	N-myc downstream regulated gene 3 isoform a	113					cell differentiation|negative regulation of cell growth|spermatogenesis	cytoplasm				ovary(1)	1		Myeloproliferative disorder(115;0.00878)				CAGCTCATCCATTGTGGGGTA	0.438													4	31	---	---	---	---	PASS	G	35312861	G	G	35312861	3	3	57	1	0	0	0	0	1	0	0	0	10253	217	8	5	833	5	NDRG3	20	35312861	Missense_Mutation	SNP	A	TCGA-33-4547-01A-01D-1267-08	1108742	35312861	27712659	228	21357										
PLTP	5360	broad.mit.edu	37	chr20	44538310	44538310	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ttgatgtagcccccatcataGctgccaggggggttaatatt	11	9	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr20:44538310G>A	uc002xqn.1	-	5	410	c.330C>T	c.(328-330)TTC>TTT	p.F110F	PLTP_uc002xql.1_Silent_p.F22F|PLTP_uc002xqm.1_Silent_p.F130F|PLTP_uc002xqo.1_Intron|PLTP_uc002xqp.1_Silent_p.F110F|PLTP_uc002xqq.1_Silent_p.F79F|PLTP_uc010zxj.1_Intron|PLTP_uc010ghj.1_Silent_p.F110F	NM_006227	NP_006218	P55058	PLTP_HUMAN	phospholipid transfer protein isoform a	110					cellular lipid metabolic process|lipid transport	extracellular region	lipid binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CCCCATCATAGCTGCCAGGGG	0.438													34	125	---	---	---	---	PASS	A	44538310	A	A	44538310	2	1	57	1	0	0	0	0	0	0	0	1	12114	985	34	3		3	PLTP	20	44538310	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	9225449	44538310	18487210	229	21358										
TSHZ2	128553	broad.mit.edu	37	chr20	51872765	51872765	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gaaaaacatggacaaaggccAccccatcttttattgcagtg	8	10	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr20:51872765A>G	uc002xwo.2	+	2	3724	c.2768A>G	c.(2767-2769)CAC>CGC	p.H923R		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	923					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GACAAAGGCCACCCCATCTTT	0.478													21	63	---	---	---	---	PASS	G	51872765	G	G	51872765	3	3	57	1	0	0	0	0	1	0	0	0	16621	159	6	5	2774	5	TSHZ2	20	51872765	Missense_Mutation	SNP	A	TCGA-33-4547-01A-01D-1267-08	7334455	51872765	11152755	230	21359										
PMEPA1	56937	broad.mit.edu	37	chr20	56227337	56227337	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tagcacgtggcgctgatgccCgagttactgctgggggggca	17	10	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr20:56227337C>T	uc002xyq.2	-	4	1029	c.636G>A	c.(634-636)TCG>TCA	p.S212S	PMEPA1_uc002xyr.2_Silent_p.S162S|PMEPA1_uc002xys.2_Silent_p.S177S|PMEPA1_uc002xyt.2_Silent_p.S162S	NM_020182	NP_064567	Q969W9	PMEPA_HUMAN	transmembrane prostate androgen-induced protein	212	Cytoplasmic (Potential).				androgen receptor signaling pathway	integral to membrane|plasma membrane	WW domain binding			pancreas(1)	1						CGCTGATGCCCGAGTTACTGC	0.692													13	53	---	---	---	---	PASS	T	56227337	T	T	56227337	2	4	57	1	0	0	0	0	0	0	0	1	12132	639	23	1		1	PMEPA1	20	56227337	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	4354572	56227337	6798183	231	21360										
VAPB	9217	broad.mit.edu	37	chr20	57009745	57009745	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gtttgctccaactgacacttCagatatggaagcagtagtaa	9	8	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr20:57009745C>G	uc002xza.2	+	3	570	c.299C>G	c.(298-300)TCA>TGA	p.S100*	VAPB_uc002xzb.2_Intron|VAPB_uc010zzo.1_Intron|VAPB_uc002xzc.2_Intron	NM_004738	NP_004729	O95292	VAPB_HUMAN	VAMP-associated protein B/C	100	Cytoplasmic (Potential).|MSP.				cell death|endoplasmic reticulum unfolded protein response|positive regulation of viral genome replication|sphingolipid metabolic process|virus-host interaction	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	beta-tubulin binding|enzyme binding|protein heterodimerization activity|protein homodimerization activity|structural molecule activity			kidney(1)	1	Lung NSC(12;0.000615)|all_lung(29;0.00186)		BRCA - Breast invasive adenocarcinoma(13;6.2e-12)|Epithelial(14;3.7e-08)|all cancers(14;3.88e-07)			ACTGACACTTCAGATATGGAA	0.333													8	37	---	---	---	---	PASS	G	57009745	G	G	57009745	4	3	57	1	0	0	0	0	0	1	0	0	17119	838	29	2	309	2	VAPB	20	57009745	Nonsense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	782408	57009745	6015775	232	21361										
ZNF831	128611	broad.mit.edu	37	chr20	57769737	57769737	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agcctccgagatgagggtccCaatggccctcctgggagcaa	13	13	0	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr20:57769737C>T	uc002yan.2	+	1	3663	c.3663C>T	c.(3661-3663)CCC>CCT	p.P1221P		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1221						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					ATGAGGGTCCCAATGGCCCTC	0.632													8	32	---	---	---	---	PASS	T	57769737	T	T	57769737	2	4	57	1	0	0	0	0	0	0	0	1	18182	581	21	3		3	ZNF831	20	57769737	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	759992	57769737	5255783	233	21362										
ITSN1	6453	broad.mit.edu	37	chr21	35127600	35127600	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctcctttttcttttccccacAgtgtcccaccagtggcagag	7	15	1	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr21:35127600A>T	uc002yta.1	+	8	892	c.624_splice	c.e8-2	p.S208_splice	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_Splice_Site|ITSN1_uc002ysz.2_Splice_Site_p.S208_splice|ITSN1_uc010gmg.2_Splice_Site_p.S171_splice|ITSN1_uc010gmh.2_Splice_Site|ITSN1_uc002ysw.2_Splice_Site_p.S208_splice|ITSN1_uc010gmi.2_Splice_Site_p.S171_splice|ITSN1_uc010gmj.2_Splice_Site_p.S92_splice|ITSN1_uc002ysy.2_Splice_Site_p.S208_splice|ITSN1_uc002ysx.2_Splice_Site_p.S171_splice|ITSN1_uc002ytb.1_Splice_Site_p.S208_splice|ITSN1_uc002ytc.1_Splice_Site_p.S208_splice|ITSN1_uc002ytd.2_Splice_Site|ITSN1_uc010gmk.2_Splice_Site_p.S171_splice|ITSN1_uc010gml.2_Splice_Site|ITSN1_uc002ytj.2_Splice_Site_p.S208_splice|ITSN1_uc010gmm.1_Splice_Site|ITSN1_uc002yte.2_Splice_Site_p.S142_splice	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						TTTTCCCCACAGTGTCCCACC	0.403													6	14	---	---	---	---	PASS	T	35127600	T	T	35127600	5	4	57	1	0	0	0	0	0	0	1	0	7926	202	7	5	648	5	ITSN1	21	35127600	Splice_Site	SNP	A	TCGA-33-4547-01A-01D-1267-08		35127600	13002295	234	21363										
CLTCL1	8218	broad.mit.edu	37	chr22	19197964	19197964	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	caggcggctgatgtactccaTgacccgtgtgcggtctgcct	13	13	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr22:19197964T>A	uc002zpb.2	-	20	3196	c.3121A>T	c.(3121-3123)ATG>TTG	p.M1041L	CLTCL1_uc011agv.1_Missense_Mutation_p.M1041L|CLTCL1_uc011agw.1_Missense_Mutation_p.M1041L|CLTCL1_uc011agt.1_5'Flank|CLTCL1_uc011agu.1_5'Flank|CLTCL1_uc010grm.1_5'Flank|CLTCL1_uc002zpe.2_Missense_Mutation_p.M1L|CLTCL1_uc002zpd.1_Missense_Mutation_p.M1L	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	1041	Proximal segment.|Heavy chain arm.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					ATGTACTCCATGACCCGTGTG	0.562			T	?	ALCL								13	46	---	---	---	---	PASS	A	19197964	A	A	19197964	3	1	57	1	0	0	0	0	1	0	0	0	3567	1464	51	5	1853	5	CLTCL1	22	19197964	Missense_Mutation	SNP	T	TCGA-33-4547-01A-01D-1267-08		19197964	32106602	235	21364										
SFI1	9814	broad.mit.edu	37	chr22	32011205	32011205	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ccgacggcaagcacaggcccGgagctgctgctgctgcctct	13	16	1	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr22:32011205G>A	uc003ale.2	+	29	3633	c.3240G>A	c.(3238-3240)CCG>CCA	p.P1080P	SFI1_uc003alf.2_Silent_p.P1049P|SFI1_uc003alg.2_Silent_p.P998P|SFI1_uc011alp.1_Silent_p.P986P|SFI1_uc011alq.1_Silent_p.P1025P|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_RNA|SFI1_uc003ali.2_Silent_p.P172P|SFI1_uc003alj.2_Silent_p.P214P	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	1080					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						GCACAGGCCCGGAGCTGCTGC	0.711													10	19	---	---	---	---	PASS	A	32011205	A	A	32011205	2	1	57	1	0	0	0	0	0	0	0	1	14156	1103	39	1		1	SFI1	22	32011205	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	12813241	32011205	19293361	236	21365										
PICK1	9463	broad.mit.edu	37	chr22	38469093	38469093	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	tacctggacgtgaagtttgaGtacctggtgagtagtccagg	14	7	0	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr22:38469093G>A	uc003auq.2	+	10	1167	c.777G>A	c.(775-777)GAG>GAA	p.E259E	PICK1_uc003aur.2_Silent_p.E259E|PICK1_uc003aus.2_Silent_p.E259E|PICK1_uc003aut.2_Silent_p.E259E	NM_012407	NP_036539	Q9NRD5	PICK1_HUMAN	protein interacting with C kinase 1	259	AH.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|DNA methylation involved in embryo development|DNA methylation involved in gamete generation|monoamine transport|neuronal ion channel clustering|protein phosphorylation|receptor clustering|retrograde vesicle-mediated transport, Golgi to ER|synaptic transmission	cell junction|endocytic vesicle membrane|Golgi apparatus|perinuclear region of cytoplasm|presynaptic membrane	ATPase activity|metal ion binding|protein C-terminus binding|protein kinase C binding|receptor binding				0	Melanoma(58;0.045)					TGAAGTTTGAGTACCTGGTGA	0.597													37	84	---	---	---	---	PASS	A	38469093	A	A	38469093	2	1	57	1	0	0	0	0	0	0	0	1	11881	1020	36	3		3	PICK1	22	38469093	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	6457888	38469093	12835473	237	21366										
SYNGR1	9145	broad.mit.edu	37	chr22	39777839	39777839	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agcccactgggccggatcccGccggtatgggcggcacctac	14	16	0	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr22:39777839G>A	uc003axq.3	+	4	684	c.622G>A	c.(622-624)GCC>ACC	p.A208T	TAB1_uc003axr.2_Intron	NM_004711	NP_004702	O43759	SNG1_HUMAN	synaptogyrin 1 isoform 1a	208					regulation of long-term neuronal synaptic plasticity|regulation of short-term neuronal synaptic plasticity	cell junction|integral to plasma membrane|melanosome					0	Melanoma(58;0.04)					GCCGGATCCCGCCGGTATGGG	0.687													13	25	---	---	---	---	PASS	A	39777839	A	A	39777839	3	1	57	1	0	0	0	0	1	0	0	0	15445	1087	38	1	839	1	SYNGR1	22	39777839	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	1308746	39777839	11526727	238	21367										
SMCR7L	54471	broad.mit.edu	37	chr22	39908484	39908484	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	atgtacttgagtggcagcctCtacgatgacctgcaggtaac	11	10	1	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr22:39908484C>G	uc003axx.2	+	5	1068	c.570C>G	c.(568-570)CTC>CTG	p.L190L	SMCR7L_uc003axw.2_Silent_p.L190L|SMCR7L_uc010gxz.1_Silent_p.L12L|SMCR7L_uc003axy.2_Silent_p.L12L	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	190						integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					GTGGCAGCCTCTACGATGACC	0.572													16	70	---	---	---	---	PASS	G	39908484	G	G	39908484	2	3	57	1	0	0	0	0	0	0	0	1	14791	900	32	2		2	SMCR7L	22	39908484	Silent	SNP	C	TCGA-33-4547-01A-01D-1267-08	130645	39908484	11396082	239	21368										
CACNA1I	8911	broad.mit.edu	37	chr22	40061891	40061891	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	accccctttccccagctcttCaagggcaagttctaccactg	6	17	3	0			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr22:40061891C>G	uc003ayc.2	+	23	3984	c.3984C>G	c.(3982-3984)TTC>TTG	p.F1328L	CACNA1I_uc003ayd.2_Missense_Mutation_p.F1293L|CACNA1I_uc003aye.2_Missense_Mutation_p.F1243L|CACNA1I_uc003ayf.2_Missense_Mutation_p.F1208L	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1328	Extracellular (Potential).|III.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CCCAGCTCTTCAAGGGCAAGT	0.567													39	147	---	---	---	---	PASS	G	40061891	G	G	40061891	3	3	57	1	0	0	0	0	1	0	0	0	2546	825	29	2	4074	2	CACNA1I	22	40061891	Missense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	153407	40061891	11242675	240	21369										
SMC1B	27127	broad.mit.edu	37	chr22	45789624	45789624	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	ctgcaattcacttctaataaGattcaattcttcattaaatt	2	8	5	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr22:45789624G>C	uc003bgc.2	-	9	1487	c.1435C>G	c.(1435-1437)CTT>GTT	p.L479V	SMC1B_uc003bgd.2_Missense_Mutation_p.L479V|SMC1B_uc003bge.1_Missense_Mutation_p.L262V	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	479	Potential.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		CTTCTAATAAGATTCAATTCT	0.373													17	53	---	---	---	---	PASS	C	45789624	C	C	45789624	3	2	57	1	0	0	0	0	1	0	0	0	14782	942	33	2	2340	2	SMC1B	22	45789624	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	5727733	45789624	5514942	241	21370										
CELSR1	9620	broad.mit.edu	37	chr22	46859695	46859695	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	gggtcggagtagcagaggtcGatctccgtctcgcagtagtc	15	10	2	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chr22:46859695G>A	uc003bhw.1	-	2	4092	c.4092C>T	c.(4090-4092)ATC>ATT	p.I1364I		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1364	Extracellular (Potential).|EGF-like 2; calcium-binding.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		AGCAGAGGTCGATCTCCGTCT	0.697													8	20	---	---	---	---	PASS	A	46859695	A	A	46859695	2	1	57	1	0	0	0	0	0	0	0	1	3221	1048	37	2		2	CELSR1	22	46859695	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08	1070071	46859695	4444871	242	21371										
RBBP7	5931	broad.mit.edu	37	chrX	16881153	16881153	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	atgtactcgagcaaccaccaGatgattctgctcatcagacg	8	12	3	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chrX:16881153G>A	uc004cxt.2	-	3	590	c.232C>T	c.(232-234)CTG>TTG	p.L78L	RBBP7_uc004cxs.1_Silent_p.L122L|RBBP7_uc004cxu.2_Silent_p.L78L	NM_002893	NP_002884	Q16576	RBBP7_HUMAN	retinoblastoma binding protein 7	78	WD 1.				cell proliferation|cellular heat acclimation|CenH3-containing nucleosome assembly at centromere|DNA replication|multicellular organismal development|negative regulation of cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex|NuRD complex	protein binding			upper_aerodigestive_tract(1)|ovary(1)	2	Hepatocellular(33;0.0997)					GCAACCACCAGATGATTCTGC	0.408													19	31	---	---	---	---	PASS	A	16881153	A	A	16881153	2	1	57	1	0	0	0	0	0	0	0	1	13104	933	33	2		2	RBBP7	23	16881153	Silent	SNP	G	TCGA-33-4547-01A-01D-1267-08		16881153	138389407	243	21372										
SPANXN5	494197	broad.mit.edu	37	chrX	52825601	52825601	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	agcacaacactaatactgttGaatattctgatgttttcatc	5	8	2	2			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chrX:52825601G>A	uc004drc.1	-	2	146	c.146C>T	c.(145-147)TCA>TTA	p.S49L		NM_001009616	NP_001009616	Q5MJ07	SPXN5_HUMAN	SPANX family, member N5	49											0	Ovarian(276;0.236)					TAATACTGTTGAATATTCTGA	0.413													4	36	---	---	---	---	PASS	A	52825601	A	A	52825601	3	1	57	1	0	0	0	0	1	0	0	0	14993	1294	45	2	76	2	SPANXN5	23	52825601	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	35944448	52825601	102444959	244	21373										
NSDHL	50814	broad.mit.edu	37	chrX	152037559	152037559	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	cattccactactacagctgcGagagagccaaaaaggccatg	9	12	0	1			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chrX:152037559G>A	uc004fgt.1	+	9	1282	c.1021G>A	c.(1021-1023)GAG>AAG	p.E341K	NSDHL_uc004fgs.1_Missense_Mutation_p.E341K	NM_001129765	NP_001123237	Q15738	NSDHL_HUMAN	NAD(P) dependent steroid dehydrogenase-like	341					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity|sterol-4-alpha-carboxylate 3-dehydrogenase (decarboxylating) activity				0	Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	CTACAGCTGCGAGAGAGCCAA	0.582													17	24	---	---	---	---	PASS	A	152037559	A	A	152037559	3	1	57	1	0	0	0	0	1	0	0	0	10670	1059	37	2	1047	2	NSDHL	23	152037559	Missense_Mutation	SNP	G	TCGA-33-4547-01A-01D-1267-08	99211958	152037559	3233001	245	21374										
DUSP9	1852	broad.mit.edu	37	chrX	152915069	152915069	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.386178861788618	95	1.39773417723666e-31	3.73891232470642	5.04449483497103	2.65980841316118	0.00468912102292458	0.05533162807051	70	aagaatggtgactttcactaCaagcagatccccatctccga	7	12	2	3			TCGA-33-4547-01A-01D-1267-08	TCGA-33-4547-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7e622fc2-06c5-4686-a885-e407725c2f08	4bd53437-8c85-40cb-8f40-2eef0244a539	g.chrX:152915069C>A	uc004fhx.3	+	3	960	c.756C>A	c.(754-756)TAC>TAA	p.Y252*	DUSP9_uc004fhy.3_Nonsense_Mutation_p.Y252*	NM_001395	NP_001386	Q99956	DUS9_HUMAN	dual specificity phosphatase 9	252	Tyrosine-protein phosphatase.				inactivation of MAPK activity|JNK cascade	cytosol|endoplasmic reticulum|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)	2	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACTTTCACTACAAGCAGATCC	0.557													9	232	---	---	---	---	PASS	A	152915069	A	A	152915069	4	1	57	1	0	0	0	0	0	1	0	0	4832	489	17	3	762	3	DUSP9	23	152915069	Nonsense_Mutation	SNP	C	TCGA-33-4547-01A-01D-1267-08	877510	152915069	2355491	246	21375										
DVL1	1855	broad.mit.edu	37	chr1	1273368	1273368	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgttctcaccttcactctgcTgactcccggtgctgccgctg	9	17	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:1273368T>A	uc001aer.3	-	14	1675	c.1628A>T	c.(1627-1629)CAG>CTG	p.Q543L	DVL1_uc002quu.2_Missense_Mutation_p.Q285L|DVL1_uc009vka.2_Missense_Mutation_p.Q226L|DVL1_uc001aeu.1_Missense_Mutation_p.Q302L	NM_004421	NP_004412	O14640	DVL1_HUMAN	dishevelled 1	568					canonical Wnt receptor signaling pathway|dendrite morphogenesis|intracellular signal transduction|negative regulation of protein binding|negative regulation of protein kinase activity|neural tube development|neuromuscular junction development|neurotransmitter secretion|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein localization to nucleus|receptor clustering|transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, planar cell polarity pathway	cytoplasmic membrane-bounded vesicle|cytosol|plasma membrane|synapse|synaptosome	frizzled binding|identical protein binding|protein kinase binding|signal transducer activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		TTCACTCTGCTGACTCCCGGT	0.488													3	6	---	---	---	---	PASS	A	1273368	A	A	1273368	3	1	58	1	0	0	0	0	1	0	0	0	4835	1580	55	5	392	5	DVL1	1	1273368	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08		1273368	247977253	1	21376										
KCNAB2	8514	broad.mit.edu	37	chr1	6133813	6133813	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaacatgggtgaccttcggaGgccagatcaccgatgaggta	14	9	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:6133813G>A	uc009vlv.1	+	5	319	c.184G>A	c.(184-186)GGC>AGC	p.G62S	KCNAB2_uc001alv.1_Missense_Mutation_p.G62S|KCNAB2_uc001alw.1_Missense_Mutation_p.G48S|KCNAB2_uc001alx.1_Missense_Mutation_p.G62S|KCNAB2_uc001aly.1_Missense_Mutation_p.G95S|KCNAB2_uc009vlw.1_5'UTR|KCNAB2_uc001alu.2_Missense_Mutation_p.G62S	NM_003636	NP_003627	Q13303	KCAB2_HUMAN	potassium voltage-gated channel, shaker-related	62						cytoplasm|integral to membrane|juxtaparanode region of axon	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity				0	Ovarian(185;0.0634)	all_cancers(23;5.85e-39)|all_epithelial(116;4.88e-22)|all_lung(118;4.21e-08)|Lung NSC(185;9.77e-07)|all_hematologic(16;2.78e-06)|all_neural(13;3.18e-06)|Acute lymphoblastic leukemia(12;0.000272)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00106)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0393)|Medulloblastoma(700;0.211)		Epithelial(90;6.9e-37)|GBM - Glioblastoma multiforme(13;8.8e-31)|OV - Ovarian serous cystadenocarcinoma(86;1.45e-19)|Colorectal(212;2.46e-07)|COAD - Colon adenocarcinoma(227;2.07e-05)|Kidney(185;7.88e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00131)|BRCA - Breast invasive adenocarcinoma(365;0.00133)|STAD - Stomach adenocarcinoma(132;0.00391)|READ - Rectum adenocarcinoma(331;0.0649)		GACCTTCGGAGGCCAGATCAC	0.597													25	102	---	---	---	---	PASS	A	6133813	A	A	6133813	3	1	58	1	0	0	0	0	1	0	0	0	8010	1000	35	3	198	3	KCNAB2	1	6133813	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	4860445	6133813	243116808	2	21377										
KCNAB2	8514	broad.mit.edu	37	chr1	6155592	6155592	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgcttttcctcttcaggaGtgggcgccatgacctggtcc	11	14	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:6155592G>T	uc009vlv.1	+	13	847	c.712G>T	c.(712-714)GTG>TTG	p.V238L	KCNAB2_uc001alv.1_Missense_Mutation_p.V238L|KCNAB2_uc001alw.1_Missense_Mutation_p.V224L|KCNAB2_uc001alx.1_Missense_Mutation_p.V238L|KCNAB2_uc001aly.1_Missense_Mutation_p.V286L|KCNAB2_uc009vlw.1_Missense_Mutation_p.V171L|KCNAB2_uc001alu.2_Missense_Mutation_p.V238L	NM_003636	NP_003627	Q13303	KCAB2_HUMAN	potassium voltage-gated channel, shaker-related	238						cytoplasm|integral to membrane|juxtaparanode region of axon	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity				0	Ovarian(185;0.0634)	all_cancers(23;5.85e-39)|all_epithelial(116;4.88e-22)|all_lung(118;4.21e-08)|Lung NSC(185;9.77e-07)|all_hematologic(16;2.78e-06)|all_neural(13;3.18e-06)|Acute lymphoblastic leukemia(12;0.000272)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00106)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0393)|Medulloblastoma(700;0.211)		Epithelial(90;6.9e-37)|GBM - Glioblastoma multiforme(13;8.8e-31)|OV - Ovarian serous cystadenocarcinoma(86;1.45e-19)|Colorectal(212;2.46e-07)|COAD - Colon adenocarcinoma(227;2.07e-05)|Kidney(185;7.88e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00131)|BRCA - Breast invasive adenocarcinoma(365;0.00133)|STAD - Stomach adenocarcinoma(132;0.00391)|READ - Rectum adenocarcinoma(331;0.0649)		CTCTTCAGGAGTGGGCGCCAT	0.632													19	51	---	---	---	---	PASS	T	6155592	T	T	6155592	3	4	58	1	0	0	0	0	1	0	0	0	8010	1029	36	3	758	3	KCNAB2	1	6155592	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	21779	6155592	243095029	3	21378										
NOL9	79707	broad.mit.edu	37	chr1	6586794	6586794	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgtggaatggcaatagctcCaacgagcagacaattcacgg	11	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:6586794C>T	uc001ans.2	-	11	1940	c.1921G>A	c.(1921-1923)GGA>AGA	p.G641R	NOL9_uc010nzs.1_RNA	NM_024654	NP_078930	Q5SY16	NOL9_HUMAN	nucleolar protein 9	641					maturation of 5.8S rRNA	nucleolus	ATP binding|polynucleotide 5'-hydroxyl-kinase activity|RNA binding			skin(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;2.46e-35)|all_epithelial(116;1.41e-22)|all_lung(118;7.59e-07)|Lung NSC(185;4.28e-06)|Colorectal(325;4.52e-05)|Breast(487;0.000353)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.47e-07)|COAD - Colon adenocarcinoma(227;1.47e-05)|Kidney(185;5.27e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|BRCA - Breast invasive adenocarcinoma(365;0.00113)|STAD - Stomach adenocarcinoma(132;0.0017)|READ - Rectum adenocarcinoma(331;0.0649)		GCAATAGCTCCAACGAGCAGA	0.567													44	105	---	---	---	---	PASS	T	6586794	T	T	6586794	3	4	58	1	0	0	0	0	1	0	0	0	10528	603	21	3	195	3	NOL9	1	6586794	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	431202	6586794	242663827	4	21379										
ERRFI1	54206	broad.mit.edu	37	chr1	8073377	8073377	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaagatataccgcagtcagCaggtaatggctggatttggg	14	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:8073377C>A	uc001aoz.2	-	4	1531	c.1282G>T	c.(1282-1284)GCT>TCT	p.A428S		NM_018948	NP_061821	Q9UJM3	ERRFI_HUMAN	mitogen-inducible gene 6 protein	428					lung alveolus development|lung epithelium development|lung vasculature development|negative regulation of epidermal growth factor receptor activity|negative regulation of protein autophosphorylation|regulation of keratinocyte differentiation|response to stress|skin morphogenesis	cytoplasm|extrinsic to internal side of plasma membrane|nucleus	protein kinase binding|Rho GTPase activator activity			ovary(1)	1	Ovarian(185;0.06)|all_lung(157;0.151)	all_epithelial(116;1.76e-16)|all_lung(118;3.66e-05)|Lung NSC(185;0.000163)|Renal(390;0.000469)|Colorectal(325;0.0033)|Breast(348;0.0044)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.33e-70)|GBM - Glioblastoma multiforme(8;8.05e-37)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;6.9e-06)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.000985)|READ - Rectum adenocarcinoma(331;0.0642)		CCGCAGTCAGCAGGTAATGGC	0.433													28	79	---	---	---	---	PASS	A	8073377	A	A	8073377	3	1	58	1	0	0	0	0	1	0	0	0	5244	710	25	3	110	3	ERRFI1	1	8073377	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1486583	8073377	241177244	5	21380										
SLC45A1	50651	broad.mit.edu	37	chr1	8384421	8384421	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agccagcagcaccccgccggGagatgccctcttccccagcg	11	19	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:8384421G>T	uc001apb.2	+	1	32	c.32G>T	c.(31-33)GGA>GTA	p.G11V		NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	11					carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		ACCCCGCCGGGAGATGCCCTC	0.677													23	70	---	---	---	---	PASS	T	8384421	T	T	8384421	3	4	58	1	0	0	0	0	1	0	0	0	14640	1174	41	2	34	2	SLC45A1	1	8384421	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	311044	8384421	240866200	6	21381										
FBXO44	93611	broad.mit.edu	37	chr1	11721303	11721303	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccgagggtcaccaacagcagCatcaccatcgggcccccgct	10	18	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:11721303C>T	uc001asm.2	+	6	867	c.741C>T	c.(739-741)AGC>AGT	p.S247S	FBXO44_uc001ask.2_Missense_Mutation_p.H206Y|FBXO44_uc001asl.2_Silent_p.S247S|FBXO44_uc001asn.2_Missense_Mutation_p.H206Y|FBXO44_uc010oar.1_Missense_Mutation_p.H238Y|FBXO44_uc010oas.1_Silent_p.S107S|FBXO6_uc001aso.2_5'Flank	NM_033182	NP_149438	Q9H4M3	FBX44_HUMAN	F-box protein 44 isoform 1	247	FBA.				protein catabolic process	SCF ubiquitin ligase complex	protein binding			ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.41e-06)|COAD - Colon adenocarcinoma(227;0.000255)|BRCA - Breast invasive adenocarcinoma(304;0.0003)|Kidney(185;0.000758)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		CCAACAGCAGCATCACCATCG	0.637													27	60	---	---	---	---	PASS	T	11721303	T	T	11721303	2	4	58	1	0	0	0	0	0	0	0	1	5753	710	25	3		3	FBXO44	1	11721303	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	3336882	11721303	237529318	7	21382										
KIAA2013	90231	broad.mit.edu	37	chr1	11983154	11983154	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcatagctgttgtgcagcaCgtcggggtcggcctggaact	15	10	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:11983154C>A	uc001atk.2	-	2	1620	c.1426G>T	c.(1426-1428)GTG>TTG	p.V476L	KIAA2013_uc001atl.1_Missense_Mutation_p.V476L	NM_138346	NP_612355	Q8IYS2	K2013_HUMAN	hypothetical protein LOC90231 precursor	476	Extracellular (Potential).					integral to membrane				ovary(1)	1	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00149)|all_lung(284;0.00189)|Breast(348;0.00586)|Colorectal(325;0.0062)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0556)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TTGTGCAGCACGTCGGGGTCG	0.612													13	48	---	---	---	---	PASS	A	11983154	A	A	11983154	3	1	58	1	0	0	0	0	1	0	0	0	8267	536	19	1	486	1	KIAA2013	1	11983154	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	261851	11983154	237267467	8	21383										
PRAMEF1	65121	broad.mit.edu	37	chr1	12854133	12854133	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgggccagatggcctggagcCtgggccctgtcctgcttccc	14	15	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:12854133C>A	uc001auj.1	+	3	460	c.357C>A	c.(355-357)GCC>GCA	p.A119A		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	119											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GGCCTGGAGCCTGGGCCCTGT	0.537													80	304	---	---	---	---	PASS	A	12854133	A	A	12854133	2	1	58	1	0	0	0	0	0	0	0	1	12425	668	24	3		3	PRAMEF1	1	12854133	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	870979	12854133	236396488	9	21384										
PRAMEF8	391002	broad.mit.edu	37	chr1	12979866	12979866	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtggccaccctgcagacccTggacttagaggactgtggga	14	11	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:12979866T>C	uc001aup.2	+	4	1141	c.1058T>C	c.(1057-1059)CTG>CCG	p.L353P		NM_001012276	NP_001012276	Q5VWM4	PRAM8_HUMAN	PRAME family member 8	353	LRR 2.										0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CTGCAGACCCTGGACTTAGAG	0.592													12	72	---	---	---	---	PASS	C	12979866	C	C	12979866	3	2	58	1	0	0	0	0	1	0	0	0	12440	1580	55	5	1068	5	PRAMEF8	1	12979866	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	125733	12979866	236270755	10	21385										
CLCNKA	1187	broad.mit.edu	37	chr1	16353885	16353885	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcttctttgcggccacctgcGgggccttcatattccggctc	11	15	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:16353885G>A	uc001axu.2	+	8	816	c.736G>A	c.(736-738)GGG>AGG	p.G246R	CLCNKA_uc001axt.2_RNA|CLCNKA_uc001axv.2_Missense_Mutation_p.G246R|CLCNKA_uc010obw.1_Missense_Mutation_p.G203R|CLCNKB_uc001axw.3_Intron|CLCNKA_uc010obx.1_5'Flank|CLCNKA_uc010oby.1_5'Flank	NM_004070	NP_004061	P51800	CLCKA_HUMAN	chloride channel Ka isoform 1	246	Helical; (Potential).				excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)	Niflumic Acid(DB04552)	GGCCACCTGCGGGGCCTTCAT	0.657													46	97	---	---	---	---	PASS	A	16353885	A	A	16353885	3	1	58	1	0	0	0	0	1	0	0	0	3469	1116	39	1	762	1	CLCNKA	1	16353885	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3374019	16353885	232896736	11	21386										
CROCC	9696	broad.mit.edu	37	chr1	17266410	17266410	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acatgcgtgggcgctatgagGcaagccaggacctactgggc	15	11	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:17266410G>T	uc001azt.2	+	13	1699	c.1630G>T	c.(1630-1632)GCA>TCA	p.A544S	CROCC_uc009voy.1_Missense_Mutation_p.A247S|CROCC_uc009voz.1_Missense_Mutation_p.A307S|CROCC_uc001azu.2_5'UTR	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	544					cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		GCGCTATGAGGCAAGCCAGGA	0.657													6	59	---	---	---	---	PASS	T	17266410	T	T	17266410	3	4	58	1	0	0	0	0	1	0	0	0	3893	1203	42	3	1680	3	CROCC	1	17266410	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	912525	17266410	231984211	12	21387										
CROCC	9696	broad.mit.edu	37	chr1	17296397	17296397	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acctggaactgcagcgggtgGaggccgagggccagctacaa	16	11	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:17296397G>C	uc001azt.2	+	33	5488	c.5419G>C	c.(5419-5421)GAG>CAG	p.E1807Q	CROCC_uc001azu.2_Missense_Mutation_p.E1110Q|CROCC_uc001azv.2_Missense_Mutation_p.E143Q	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	1807					cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		GCAGCGGGTGGAGGCCGAGGG	0.662													10	32	---	---	---	---	PASS	C	17296397	C	C	17296397	3	2	58	1	0	0	0	0	1	0	0	0	3893	1175	41	2	5549	2	CROCC	1	17296397	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	29987	17296397	231954224	13	21388										
RCC2	55920	broad.mit.edu	37	chr1	17739593	17739593	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagccaggctccggattctcCagccgcagaggtcctgcact	11	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:17739593C>A	uc001bal.2	-	9	1336	c.1289G>T	c.(1288-1290)TGG>TTG	p.W430L	RCC2_uc001bam.2_Missense_Mutation_p.W430L	NM_001136204	NP_001129676	Q9P258	RCC2_HUMAN	regulator of chromosome condensation 2	430	RCC1 6.				cell division|mitotic prometaphase	chromosome, centromeric region|cytosol|microtubule|nucleolus|spindle					0		Colorectal(325;0.000147)|Breast(348;0.00122)|Renal(390;0.00145)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;7.69e-06)|COAD - Colon adenocarcinoma(227;1.19e-05)|Kidney(64;0.000189)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.0135)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)		CCGGATTCTCCAGCCGCAGAG	0.567													13	32	---	---	---	---	PASS	A	17739593	A	A	17739593	3	1	58	1	0	0	0	0	1	0	0	0	13174	595	21	3	295	3	RCC2	1	17739593	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	443196	17739593	231511028	14	21389										
TMCO4	255104	broad.mit.edu	37	chr1	20067393	20067393	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaggccaggcagtactgctCacggctgtgggccagggcag	16	13	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:20067393C>A	uc001bcn.2	-	11	1161	c.919G>T	c.(919-921)GAG>TAG	p.E307*	TMCO4_uc001bcm.2_Intron|TMCO4_uc001bco.1_Nonsense_Mutation_p.E307*|TMCO4_uc001bcp.1_Nonsense_Mutation_p.E267*	NM_181719	NP_859070	Q5TGY1	TMCO4_HUMAN	transmembrane and coiled-coil domains 4	307						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00708)|COAD - Colon adenocarcinoma(152;2.28e-05)|BRCA - Breast invasive adenocarcinoma(304;5.8e-05)|Kidney(64;0.000367)|GBM - Glioblastoma multiforme(114;0.000377)|KIRC - Kidney renal clear cell carcinoma(64;0.00459)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0862)|Lung(427;0.223)		CAGTACTGCTCACGGCTGTGG	0.632													3	47	---	---	---	---	PASS	A	20067393	A	A	20067393	4	1	58	1	0	0	0	0	0	1	0	0	15995	835	29	2	1009	2	TMCO4	1	20067393	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2327800	20067393	229183228	15	21390										
KIF17	57576	broad.mit.edu	37	chr1	21042056	21042056	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggagggcggatccggcaggCcctgcatggtgaaggacttc	18	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:21042056C>A	uc001bdr.3	-	2	426	c.308G>T	c.(307-309)GGC>GTC	p.G103V	KIF17_uc001bds.3_Missense_Mutation_p.G103V	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	103	Kinesin-motor.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		ATCCGGCAGGCCCTGCATGGT	0.657													26	67	---	---	---	---	PASS	A	21042056	A	A	21042056	3	1	58	1	0	0	0	0	1	0	0	0	8279	739	26	3	2837	3	KIF17	1	21042056	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	974663	21042056	228208565	16	21391										
EIF4G3	8672	broad.mit.edu	37	chr1	21144032	21144032	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gactctatgaagtccaacttCtgaaacataaaaggtggaac	8	8	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:21144032C>G	uc001bec.2	-	29	4457	c.4201_splice	c.e29-1	p.K1401_splice	EIF4G3_uc010odi.1_Splice_Site_p.K1005_splice|EIF4G3_uc010odj.1_Splice_Site_p.K1400_splice|EIF4G3_uc009vpz.2_Splice_Site_p.K1121_splice|EIF4G3_uc001bed.2_Splice_Site_p.K1401_splice|EIF4G3_uc001bef.2_Splice_Site_p.K1437_splice|EIF4G3_uc001bee.2_Splice_Site_p.K1407_splice	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4						interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		AGTCCAACTTCTGAAACATAA	0.363													18	54	---	---	---	---	PASS	G	21144032	G	G	21144032	5	3	58	1	0	0	0	0	0	0	1	0	5038	927	32	2	573	2	EIF4G3	1	21144032	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	101976	21144032	228106589	17	21392										
CELA3B	23436	broad.mit.edu	37	chr1	22307651	22307651	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	catccactctggaaccgctcGtgtgtggcctgtgggtgagt	14	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:22307651G>C	uc001bfk.2	+	4	463	c.348G>C	c.(346-348)TCG>TCC	p.S116S	CELA3B_uc009vqf.2_Intron	NM_007352	NP_031378	P08861	CEL3B_HUMAN	elastase 3B, pancreatic preproprotein	116	Peptidase S1.				cholesterol metabolic process|proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1						GGAACCGCTCGTGTGTGGCCT	0.592													28	91	---	---	---	---	PASS	C	22307651	C	C	22307651	2	2	58	1	0	0	0	0	0	0	0	1	3214	1132	40	4		4	CELA3B	1	22307651	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1163619	22307651	226942970	18	21393										
EPHA8	2046	broad.mit.edu	37	chr1	22921766	22921766	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	attgtctggatctgcctgacGctcatcacgggcctggtggt	13	11	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:22921766G>T	uc001bfx.1	+	8	1772	c.1647G>T	c.(1645-1647)ACG>ACT	p.T549T		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	549	Helical; (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TCTGCCTGACGCTCATCACGG	0.647													8	33	---	---	---	---	PASS	T	22921766	T	T	22921766	2	4	58	1	0	0	0	0	0	0	0	1	5173	1074	38	1		1	EPHA8	1	22921766	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	614115	22921766	226328855	19	21394										
LUZP1	7798	broad.mit.edu	37	chr1	23420350	23420350	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcaggctcagacacagctgGgtacagtcattcttactcct	8	12	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:23420350G>A	uc001bgk.2	-	4	789	c.405C>T	c.(403-405)ACC>ACT	p.T135T	LUZP1_uc010odv.1_Silent_p.T135T|LUZP1_uc001bgl.2_Silent_p.T135T|LUZP1_uc001bgm.1_Silent_p.T135T	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	135	Potential.					nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		GACACAGCTGGGTACAGTCAT	0.463													29	82	---	---	---	---	PASS	A	23420350	A	A	23420350	2	1	58	1	0	0	0	0	0	0	0	1	9086	1219	43	3		3	LUZP1	1	23420350	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	498584	23420350	225830271	20	21395										
HNRNPR	10236	broad.mit.edu	37	chr1	23637164	23637164	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cattgcccccacgattgcccCgagatccacgggaaccacgg	10	17	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:23637164C>T	uc001bgr.3	-	11	1844	c.1685G>A	c.(1684-1686)CGG>CAG	p.R562Q	HNRNPR_uc001bgo.2_Missense_Mutation_p.R172Q|HNRNPR_uc001bgp.3_Missense_Mutation_p.R565Q|HNRNPR_uc009vqk.2_Missense_Mutation_p.R464Q|HNRNPR_uc001bgs.3_Missense_Mutation_p.R461Q|HNRNPR_uc010odw.1_Missense_Mutation_p.R524Q|HNRNPR_uc010odx.1_Missense_Mutation_p.R402Q|HNRNPR_uc009vql.2_Missense_Mutation_p.R423Q	NM_005826	NP_005817	O43390	HNRPR_HUMAN	heterogeneous nuclear ribonucleoprotein R	562	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)		ACGATTGCCCCGAGATCCACG	0.587													35	136	---	---	---	---	PASS	T	23637164	T	T	23637164	3	4	58	1	0	0	0	0	1	0	0	0	7272	652	23	1	220	1	HNRNPR	1	23637164	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	216814	23637164	225613457	21	21396										
SEPN1	57190	broad.mit.edu	37	chr1	26142208	26142208	+	Nonstop_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgcccctcctccagccctAgagtgcctggacgggatctg	11	17	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:26142208A>G	uc010oer.1	+	16	1827	c.1772A>G	c.(1771-1773)TAG>TGG	p.*591W	SEPN1_uc010oes.1_Nonstop_Mutation_p.*557W	NM_020451	NP_065184	Q9NZV5	SELN_HUMAN	selenoprotein N, 1 isoform 1 precursor	591						endoplasmic reticulum membrane|extracellular region	protein binding			ovary(2)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0421)|OV - Ovarian serous cystadenocarcinoma(117;1.26e-25)|Colorectal(126;3.01e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0143)|READ - Rectum adenocarcinoma(331;0.0649)		CTCCAGCCCTAGAGTGCCTGG	0.632													37	94	---	---	---	---	PASS	G	26142208	G	G	26142208	4	3	58	1	0	0	0	0	0	0	0	0	14056	433	15	5	1822	5	SEPN1	1	26142208	Nonstop_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	2505044	26142208	223108413	22	21397										
PAQR7	164091	broad.mit.edu	37	chr1	26189347	26189347	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggctcaggaggaatgcagtGaggatgctgctgcccaccgt	15	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:26189347G>A	uc001bkx.2	-	2	1651	c.984C>T	c.(982-984)CTC>CTT	p.L328L		NM_178422	NP_848509	Q86WK9	MPRA_HUMAN	progestin and adipoQ receptor family member VII	328	Helical; Name=7; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding			breast(3)	3		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.16e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000724)|BRCA - Breast invasive adenocarcinoma(304;0.000965)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0136)|READ - Rectum adenocarcinoma(331;0.0649)		GGAATGCAGTGAGGATGCTGC	0.577													26	54	---	---	---	---	PASS	A	26189347	A	A	26189347	2	1	58	1	0	0	0	0	0	0	0	1	11440	1277	45	2		2	PAQR7	1	26189347	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	47139	26189347	223061274	23	21398										
EXTL1	2134	broad.mit.edu	37	chr1	26349777	26349777	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcgaggtggggctcctggcCagctgcggcaacacagcccc	15	15	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:26349777C>A	uc001blf.2	+	1	1507	c.640C>A	c.(640-642)CAG>AAG	p.Q214K		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	214	Lumenal (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		GGCTCCTGGCCAGCTGCGGCA	0.697													7	24	---	---	---	---	PASS	A	26349777	A	A	26349777	3	1	58	1	0	0	0	0	1	0	0	0	5325	595	21	3	642	3	EXTL1	1	26349777	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	160430	26349777	222900844	24	21399										
SLC9A1	6548	broad.mit.edu	37	chr1	27434310	27434310	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtgtgggacttgtgggagaTgttggcctccacataggggc	18	7	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:27434310T>A	uc001bnm.2	-	4	1737	c.1111A>T	c.(1111-1113)ATC>TTC	p.I371F	SLC9A1_uc010ofk.1_Missense_Mutation_p.I32F|SLC9A1_uc001bnn.2_Missense_Mutation_p.I371F	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	371	Extracellular (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	TTGTGGGAGATGTTGGCCTCC	0.597													7	7	---	---	---	---	PASS	A	27434310	A	A	27434310	3	1	58	1	0	0	0	0	1	0	0	0	14709	1464	51	5	1372	5	SLC9A1	1	27434310	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1084533	27434310	221816311	25	21400										
FCN3	8547	broad.mit.edu	37	chr1	27700903	27700903	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggagctccgggacaactgGgcaggaggacaactttgctg	15	10	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:27700903G>T	uc001boa.2	-	2	137	c.131C>A	c.(130-132)CCC>CAC	p.P44H	FCN3_uc001bob.2_Missense_Mutation_p.P44H	NM_003665	NP_003656	O75636	FCN3_HUMAN	ficolin 3 isoform 1 precursor	44					complement activation, lectin pathway|signal transduction	collagen|extracellular space	receptor binding|sugar binding				0		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;1.42e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00128)|KIRC - Kidney renal clear cell carcinoma(1967;0.00155)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		GGGACAACTGGGCAGGAGGAC	0.622													14	60	---	---	---	---	PASS	T	27700903	T	T	27700903	3	4	58	1	0	0	0	0	1	0	0	0	5793	1232	43	3	796	3	FCN3	1	27700903	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	266593	27700903	221549718	26	21401										
BAI2	576	broad.mit.edu	37	chr1	32196882	32196882	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccatgggcaccaggatattcCcaggcagtggtgagaagctg	14	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:32196882C>A	uc001btn.2	-	29	4253	c.3899G>T	c.(3898-3900)GGG>GTG	p.G1300V	BAI2_uc001btm.2_Missense_Mutation_p.G294V|BAI2_uc001btp.1_Missense_Mutation_p.G294V|BAI2_uc010ogn.1_Missense_Mutation_p.G270V|BAI2_uc010ogo.1_Missense_Mutation_p.G909V|BAI2_uc010ogp.1_Missense_Mutation_p.G1233V|BAI2_uc010ogq.1_Missense_Mutation_p.G1267V|BAI2_uc001bto.2_Missense_Mutation_p.G1300V	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	1300	Cytoplasmic (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)		CAGGATATTCCCAGGCAGTGG	0.657													6	16	---	---	---	---	PASS	A	32196882	A	A	32196882	3	1	58	1	0	0	0	0	1	0	0	0	1299	623	22	3	878	3	BAI2	1	32196882	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4495979	32196882	217053739	27	21402										
SPOCD1	90853	broad.mit.edu	37	chr1	32259485	32259485	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaggagcctagcagctcattCgagggctcccagtctgcaaa	11	12	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:32259485C>T	uc001bts.1	-	12	2455	c.2397G>A	c.(2395-2397)TCG>TCA	p.S799S	SPOCD1_uc001btr.1_5'Flank|SPOCD1_uc001btt.2_Silent_p.S104S|SPOCD1_uc001btu.2_Silent_p.S799S|SPOCD1_uc001btv.2_Silent_p.S292S	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	799					transcription, DNA-dependent					ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)		GCAGCTCATTCGAGGGCTCCC	0.582													49	176	---	---	---	---	PASS	T	32259485	T	T	32259485	2	4	58	1	0	0	0	0	0	0	0	1	15077	871	31	2		2	SPOCD1	1	32259485	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	62603	32259485	216991136	28	21403										
CSMD2	114784	broad.mit.edu	37	chr1	34006158	34006158	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagctctccggtccaggaccCatttccctcacaggtgaaca	8	16	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:34006158C>T	uc001bxn.1	-	59	9195	c.9166G>A	c.(9166-9168)GGG>AGG	p.G3056R	CSMD2_uc001bxm.1_Missense_Mutation_p.G3200R	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3056	Sushi 23.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GTCCAGGACCCATTTCCCTCA	0.587													34	98	---	---	---	---	PASS	T	34006158	T	T	34006158	3	4	58	1	0	0	0	0	1	0	0	0	3945	594	21	3	1341	3	CSMD2	1	34006158	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1746673	34006158	215244463	29	21404										
EIF2C4	192670	broad.mit.edu	37	chr1	36298081	36298081	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagggtgtctgggacatgcGaggaaagcagttttatgctg	15	7	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:36298081G>T	uc001bzj.1	+	11	1479	c.1289G>T	c.(1288-1290)CGA>CTA	p.R430L		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4	430					mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TGGGACATGCGAGGAAAGCAG	0.318													26	62	---	---	---	---	PASS	T	36298081	T	T	36298081	3	4	58	1	0	0	0	0	1	0	0	0	5008	1058	37	2	1331	2	EIF2C4	1	36298081	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2291923	36298081	212952540	30	21405										
CSF3R	1441	broad.mit.edu	37	chr1	36939205	36939205	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggatggagtccccttgggtCtgacagttgccccggctcct	13	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:36939205C>A	uc001caw.1	-	6	682	c.504G>T	c.(502-504)CAG>CAT	p.Q168H	CSF3R_uc009vvc.1_5'Flank|CSF3R_uc001cau.1_5'Flank|CSF3R_uc001cav.1_Missense_Mutation_p.Q168H|CSF3R_uc001cax.1_Missense_Mutation_p.Q168H|CSF3R_uc001cay.1_Missense_Mutation_p.Q168H	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	168	Fibronectin type-III 1.|Extracellular (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	CCCCTTGGGTCTGACAGTTGC	0.607													17	27	---	---	---	---	PASS	A	36939205	A	A	36939205	3	1	58	1	0	0	0	0	1	0	0	0	3937	912	32	2	2244	2	CSF3R	1	36939205	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	641124	36939205	212311416	31	21406										
CSF3R	1441	broad.mit.edu	37	chr1	36941175	36941175	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaatctgtggctccgggtccAgatggctgcagttctgcttg	14	10	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:36941175A>T	uc001caw.1	-	4	342	c.164T>A	c.(163-165)CTG>CAG	p.L55Q	CSF3R_uc001cav.1_Missense_Mutation_p.L55Q|CSF3R_uc001cax.1_Missense_Mutation_p.L55Q|CSF3R_uc001cay.1_Missense_Mutation_p.L55Q	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	55	Ig-like C2-type.|Extracellular (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	CTCCGGGTCCAGATGGCTGCA	0.612													17	47	---	---	---	---	PASS	T	36941175	T	T	36941175	3	4	58	1	0	0	0	0	1	0	0	0	3937	188	7	5	2592	5	CSF3R	1	36941175	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1970	36941175	212309446	32	21407										
SNIP1	79753	broad.mit.edu	37	chr1	38005790	38005790	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accgcatgctgctttgaacaAgacgggtgatcaattggaat	11	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:38005790A>T	uc001cbi.2	-	3	967	c.894T>A	c.(892-894)TCT>TCA	p.S298S	SNIP1_uc010oid.1_RNA	NM_024700	NP_078976	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein	298	FHA.				production of miRNAs involved in gene silencing by miRNA	nucleus	protein binding			upper_aerodigestive_tract(1)|lung(1)	2		Myeloproliferative disorder(586;0.0393)				GCTTTGAACAAGACGGGTGAT	0.438													53	127	---	---	---	---	PASS	T	38005790	T	T	38005790	2	4	58	1	0	0	0	0	0	0	0	1	14848	59	3	5		5	SNIP1	1	38005790	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	1064615	38005790	211244831	33	21408										
MACF1	23499	broad.mit.edu	37	chr1	39916832	39916832	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccacagctggctgaggaccaGcccgtgcacggggaccttga	14	14	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:39916832G>T	uc010oiu.1	+	50	15827	c.15696G>T	c.(15694-15696)CAG>CAT	p.Q5232H	MACF1_uc010ois.1_Missense_Mutation_p.Q4730H	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)			CTGAGGACCAGCCCGTGCACG	0.547													18	56	---	---	---	---	PASS	T	39916832	T	T	39916832	3	4	58	1	0	0	0	0	1	0	0	0	9144	962	34	3	20663	3	MACF1	1	39916832	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1911042	39916832	209333789	34	21409										
MFSD2A	84879	broad.mit.edu	37	chr1	40432551	40432551	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tacggctggtcatgagccacGgcccatacatcaaacttatt	8	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:40432551G>T	uc001cev.2	+	8	1094	c.913G>T	c.(913-915)GGC>TGC	p.G305C	MFSD2A_uc010ojb.1_Missense_Mutation_p.G253C|MFSD2A_uc001ceu.2_Missense_Mutation_p.G292C|MFSD2A_uc010ojc.1_Missense_Mutation_p.G136C|MFSD2A_uc009vvy.2_RNA|MFSD2A_uc001cex.2_5'Flank	NM_001136493	NP_001129965	Q8NA29	MFS2A_HUMAN	major facilitator superfamily domain containing	305					transmembrane transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)|pancreas(1)	2						CATGAGCCACGGCCCATACAT	0.562													39	96	---	---	---	---	PASS	T	40432551	T	T	40432551	3	4	58	1	0	0	0	0	1	0	0	0	9530	1116	39	1	943	1	MFSD2A	1	40432551	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	515719	40432551	208818070	35	21410										
RLF	6018	broad.mit.edu	37	chr1	40701552	40701552	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agatgaggaaatgaaggcatCagtttgtaaaacaattgcct	10	5	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:40701552C>G	uc001cfc.3	+	8	1209	c.1178C>G	c.(1177-1179)TCA>TGA	p.S393*	RLF_uc001cfd.3_Nonsense_Mutation_p.S84*	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	393					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			ATGAAGGCATCAGTTTGTAAA	0.393													36	82	---	---	---	---	PASS	G	40701552	G	G	40701552	4	3	58	1	0	0	0	0	0	1	0	0	13389	838	29	2	1208	2	RLF	1	40701552	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	269001	40701552	208549069	36	21411										
DEM1	64789	broad.mit.edu	37	chr1	40981204	40981204	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggcctactggatgggccacCgagagccccagggagttgac	15	12	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:40981204C>T	uc001cfp.2	+	3	1193	c.988C>T	c.(988-990)CGA>TGA	p.R330*	DEM1_uc001cfq.2_Nonsense_Mutation_p.R330*|DEM1_uc001cfr.2_Nonsense_Mutation_p.R330*|DEM1_uc001cfs.2_Nonsense_Mutation_p.R330*	NM_022774	NP_073611	Q9H790	EXO5_HUMAN	defects in morphology 1 homolog	330							DNA binding|exonuclease activity				0						GATGGGCCACCGAGAGCCCCA	0.557													12	43	---	---	---	---	PASS	T	40981204	T	T	40981204	4	4	58	1	0	0	0	0	0	1	0	0	4425	644	23	1	990	1	DEM1	1	40981204	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	279652	40981204	208269417	37	21412										
DEM1	64789	broad.mit.edu	37	chr1	40981278	40981278	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tatgcagacatttgtgagtgGagaaagggcagtggagtgct	16	4	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:40981278G>T	uc001cfp.2	+	3	1267	c.1062G>T	c.(1060-1062)TGG>TGT	p.W354C	DEM1_uc001cfq.2_Missense_Mutation_p.W354C|DEM1_uc001cfr.2_Missense_Mutation_p.W354C|DEM1_uc001cfs.2_Missense_Mutation_p.W354C	NM_022774	NP_073611	Q9H790	EXO5_HUMAN	defects in morphology 1 homolog	354							DNA binding|exonuclease activity				0						TTTGTGAGTGGAGAAAGGGCA	0.517													14	67	---	---	---	---	PASS	T	40981278	T	T	40981278	3	4	58	1	0	0	0	0	1	0	0	0	4425	1183	41	2	1064	2	DEM1	1	40981278	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	74	40981278	208269343	38	21413										
EBNA1BP2	10969	broad.mit.edu	37	chr1	43632543	43632543	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcctgccttcttgcgctgtgCcagaggtttctgatctccct	9	14	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:43632543C>A	uc001cin.2	-	7	858	c.661G>T	c.(661-663)GCA>TCA	p.A221S	EBNA1BP2_uc001cio.2_Missense_Mutation_p.A276S|EBNA1BP2_uc001cim.2_Missense_Mutation_p.A116S|EBNA1BP2_uc010ojx.1_Missense_Mutation_p.A276S	NM_006824	NP_006815	Q99848	EBP2_HUMAN	EBNA1 binding protein 2 isoform 2	221					ribosome biogenesis	membrane fraction|nucleolus	protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TTGCGCTGTGCCAGAGGTTTC	0.473													28	83	---	---	---	---	PASS	A	43632543	A	A	43632543	3	1	58	1	0	0	0	0	1	0	0	0	4885	739	26	3	271	3	EBNA1BP2	1	43632543	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2651265	43632543	205618078	39	21414										
MPL	4352	broad.mit.edu	37	chr1	43805701	43805701	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccagcctggcaactcctacTggctgcagctgcgcagcgaa	11	15	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:43805701T>C	uc001ciw.2	+	5	802	c.757T>C	c.(757-759)TGG>CGG	p.W253R	MPL_uc001civ.2_Missense_Mutation_p.W253R|MPL_uc009vwr.2_Missense_Mutation_p.W246R	NM_005373	NP_005364	P40238	TPOR_HUMAN	myeloproliferative leukemia virus oncogene	253	Extracellular (Potential).				cell proliferation|platelet activation	integral to plasma membrane	cytokine receptor activity			haematopoietic_and_lymphoid_tissue(361)|upper_aerodigestive_tract(1)|pancreas(1)	363	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CAACTCCTACTGGCTGCAGCT	0.597			Mis		MPD	MPD	congenital amegakaryocytic thrombocytopenia						17	51	---	---	---	---	PASS	C	43805701	C	C	43805701	3	2	58	1	0	0	0	0	1	0	0	0	9730	1580	55	5	775	5	MPL	1	43805701	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	173158	43805701	205444920	40	21415										
PTPRF	5792	broad.mit.edu	37	chr1	44085828	44085828	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagcaccgaggacttctggcGcatgctatgggagcacaatt	13	10	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:44085828G>T	uc001cjr.2	+	30	5514	c.5174G>T	c.(5173-5175)CGC>CTC	p.R1725L	PTPRF_uc001cjs.2_Missense_Mutation_p.R1716L|PTPRF_uc001cju.2_Missense_Mutation_p.R1114L|PTPRF_uc009vwt.2_Missense_Mutation_p.R1285L|PTPRF_uc001cjv.2_Missense_Mutation_p.R1196L|PTPRF_uc001cjw.2_Missense_Mutation_p.R951L	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1725	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GACTTCTGGCGCATGCTATGG	0.592													44	96	---	---	---	---	PASS	T	44085828	T	T	44085828	3	4	58	1	0	0	0	0	1	0	0	0	12801	1087	38	1	5284	1	PTPRF	1	44085828	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	280127	44085828	205164793	41	21416										
KIF2C	11004	broad.mit.edu	37	chr1	45232789	45232789	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgtcatcaaggccttgcgcCtggccatgcagctggaagag	13	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:45232789C>A	uc001cmg.3	+	21	2231	c.2116C>A	c.(2116-2118)CTG>ATG	p.L706M	KIF2C_uc010olb.1_Missense_Mutation_p.L665M|KIF2C_uc010olc.1_Missense_Mutation_p.L593M|KIF2C_uc001cmh.3_Missense_Mutation_p.L652M	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	706					blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GGCCTTGCGCCTGGCCATGCA	0.527													31	120	---	---	---	---	PASS	A	45232789	A	A	45232789	3	1	58	1	0	0	0	0	1	0	0	0	8299	680	24	3	2198	3	KIF2C	1	45232789	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1146961	45232789	204017832	42	21417										
ZCCHC11	23318	broad.mit.edu	37	chr1	52956403	52956403	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttatcttcattgttaccaaCctttttcgatctctgcacac	3	12	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:52956403C>A	uc001ctx.2	-	8	1622	c.1388_splice	c.e8+1	p.S463_splice	ZCCHC11_uc001cty.2_Splice_Site_p.S463_splice|ZCCHC11_uc001ctz.2_Splice_Site_p.S463_splice|ZCCHC11_uc009vze.1_Splice_Site_p.S463_splice|ZCCHC11_uc009vzf.1_Splice_Site_p.S222_splice|ZCCHC11_uc001cub.2_Splice_Site_p.S463_splice|ZCCHC11_uc001cuc.2_Splice_Site	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform						miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						TTGTTACCAACCTTTTTCGAT	0.294													17	52	---	---	---	---	PASS	A	52956403	A	A	52956403	5	1	58	1	0	0	0	0	0	0	1	0	17577	521	18	3	3640	3	ZCCHC11	1	52956403	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	7723614	52956403	196294218	43	21418										
HSPB11	51668	broad.mit.edu	37	chr1	54395743	54395743	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggattacaagcctttcaatCcttacatgtttgtggaaaca	7	8	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:54395743C>A	uc001cwh.2	-	3	250	c.174G>T	c.(172-174)AGG>AGT	p.R58S	HSPB11_uc001cwi.1_Missense_Mutation_p.R58S	NM_016126	NP_057210	Q9Y547	HSB11_HUMAN	heat shock protein family B (small), member 11	58					cell adhesion|response to stress						0						GCCTTTCAATCCTTACATGTT	0.303													48	104	---	---	---	---	PASS	A	54395743	A	A	54395743	3	1	58	1	0	0	0	0	1	0	0	0	7419	854	30	2	276	2	HSPB11	1	54395743	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1439340	54395743	194854878	44	21419										
CDCP2	200008	broad.mit.edu	37	chr1	54605533	54605533	+	Frame_Shift_Del	DEL	C	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgggtggtggcaggtggtgtCcacaccaattccccagcagg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:54605533delC	uc001cwv.1	-	4	1858	c.1010delG	c.(1009-1011)GGAfs	p.G337fs		NM_201546	NP_963840	Q5VXM1	CDCP2_HUMAN	CUB domain containing protein 2 precursor	337	CUB 3.					extracellular region				ovary(1)	1						CAGGTGGTGTCCACACCAATT	0.632													35	16	---	---	---	---		-	54605533	-	-	54605533	7	5	58	1	0	1	0	1	0	0	0	0	3094	855	30	0	343	0	CDCP2	1	54605533	Frame_Shift_Del	DEL	C	TCGA-33-4566-01A-01D-1441-08	209790	54605533	194645088	45	21420										
C8A	731	broad.mit.edu	37	chr1	57340725	57340725	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagttctacaacttgtgtaaGgcaagcacagtgtggacagg	12	8	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:57340725G>A	uc001cyo.2	+	3	407	c.275G>A	c.(274-276)AGG>AAG	p.R92K		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	92					complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						ACTTGTGTAAGGCAAGCACAG	0.433													16	16	---	---	---	---	PASS	A	57340725	A	A	57340725	3	1	58	1	0	0	0	0	1	0	0	0	2416	1000	35	3	285	3	C8A	1	57340725	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2735192	57340725	191909896	46	21421										
DAB1	1600	broad.mit.edu	37	chr1	57602255	57602255	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	attttgattcctccaaaggaGatggttaaaaagattttctg	8	5	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:57602255G>A	uc001cys.1	-	6	941	c.267C>T	c.(265-267)ATC>ATT	p.I89I	DAB1_uc001cyt.1_Silent_p.I89I|DAB1_uc001cyq.1_Silent_p.I89I|DAB1_uc001cyr.1_Silent_p.I89I|DAB1_uc009vzw.1_Silent_p.I89I|DAB1_uc009vzx.1_Silent_p.I89I	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	89	PID.				cell differentiation|nervous system development					skin(2)|ovary(1)	3						CTCCAAAGGAGATGGTTAAAA	0.378													14	57	---	---	---	---	PASS	A	57602255	A	A	57602255	2	1	58	1	0	0	0	0	0	0	0	1	4217	932	33	2		2	DAB1	1	57602255	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	261530	57602255	191648366	47	21422										
FGGY	55277	broad.mit.edu	37	chr1	60073511	60073511	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttttgtaccaggcgtctggGggccttatttctcagccatg	11	10	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:60073511G>T	uc001czi.3	+	9	1152	c.940G>T	c.(940-942)GGG>TGG	p.G314W	FGGY_uc001czg.2_Missense_Mutation_p.G202W|FGGY_uc001czh.2_RNA|FGGY_uc009wac.2_Missense_Mutation_p.G314W|FGGY_uc001czj.3_Missense_Mutation_p.G313W|FGGY_uc001czk.3_Missense_Mutation_p.G202W|FGGY_uc001czl.3_Missense_Mutation_p.G226W|FGGY_uc001czm.3_Missense_Mutation_p.G15W	NM_018291	NP_060761	Q96C11	FGGY_HUMAN	FGGY carbohydrate kinase domain containing	314					carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)					AGGCGTCTGGGGGCCTTATTT	0.453													30	93	---	---	---	---	PASS	T	60073511	T	T	60073511	3	4	58	1	0	0	0	0	1	0	0	0	5871	1232	43	3	970	3	FGGY	1	60073511	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2471256	60073511	189177110	48	21423										
INADL	10207	broad.mit.edu	37	chr1	62593659	62593659	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttaggagctcagtgatgccCttggaatcagtattgctgga	12	7	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:62593659C>G	uc001dab.2	+	40	5173	c.5059C>G	c.(5059-5061)CTT>GTT	p.L1687V	INADL_uc001dac.2_RNA|INADL_uc009wag.2_Missense_Mutation_p.L471V	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1687	PDZ 10.				intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						CAGTGATGCCCTTGGAATCAG	0.428													21	64	---	---	---	---	PASS	G	62593659	G	G	62593659	3	3	58	1	0	0	0	0	1	0	0	0	7731	681	24	4	5213	4	INADL	1	62593659	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2520148	62593659	186656962	49	21424										
KANK4	163782	broad.mit.edu	37	chr1	62718789	62718789	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcttaagagcttccagacaaCagccatgtcttcattggtct	7	11	4	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:62718789C>T	uc001dah.3	-	8	3009	c.2632G>A	c.(2632-2634)GTT>ATT	p.V878I	KANK4_uc001dai.3_Missense_Mutation_p.V250I|KANK4_uc001daf.3_Missense_Mutation_p.V16I|KANK4_uc001dag.3_Missense_Mutation_p.V234I	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	878	ANK 2.									ovary(3)|skin(2)|lung(1)	6						TTCCAGACAACAGCCATGTCT	0.498													28	67	---	---	---	---	PASS	T	62718789	T	T	62718789	3	4	58	1	0	0	0	0	1	0	0	0	7979	478	17	3	367	3	KANK4	1	62718789	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	125130	62718789	186531832	50	21425										
KANK4	163782	broad.mit.edu	37	chr1	62734158	62734158	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtcctcaccgctggtctcctCacttgaggtggtctcatacc	9	15	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:62734158C>T	uc001dah.3	-	5	2409	c.2032G>A	c.(2032-2034)GAG>AAG	p.E678K	KANK4_uc001dai.3_Missense_Mutation_p.E50K|KANK4_uc001dag.3_Missense_Mutation_p.E34K	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	678										ovary(3)|skin(2)|lung(1)	6						CTGGTCTCCTCACTTGAGGTG	0.562													17	46	---	---	---	---	PASS	T	62734158	T	T	62734158	3	4	58	1	0	0	0	0	1	0	0	0	7979	835	29	2	979	2	KANK4	1	62734158	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	15369	62734158	186516463	51	21426										
ROR1	4919	broad.mit.edu	37	chr1	64606046	64606046	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgaagatctcccccagccaGagagcccagaagctgcgaac	11	14	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:64606046G>C	uc001dbj.2	+	6	1264	c.865G>C	c.(865-867)GAG>CAG	p.E289Q	ROR1_uc001dbi.3_Missense_Mutation_p.E289Q|uc001dbl.2_Intron	NM_005012	NP_005003	Q01973	ROR1_HUMAN	receptor tyrosine kinase-like orphan receptor 1	289	FZ.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19						CCCCCAGCCAGAGAGCCCAGA	0.463													15	78	---	---	---	---	PASS	C	64606046	C	C	64606046	3	2	58	1	0	0	0	0	1	0	0	0	13526	943	33	2	887	2	ROR1	1	64606046	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1871888	64606046	184644575	52	21427										
RAVER2	55225	broad.mit.edu	37	chr1	65243601	65243601	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaggctagactggagctattGggtagacagttgggagcatc	15	6	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:65243601G>T	uc001dbs.1	+	3	690	c.612G>T	c.(610-612)TTG>TTT	p.L204F	RAVER2_uc001dbt.1_Missense_Mutation_p.L83F|RAVER2_uc010opb.1_Missense_Mutation_p.L83F	NM_018211	NP_060681	Q9HCJ3	RAVR2_HUMAN	ribonucleoprotein, PTB-binding 2	204	RRM 2.					cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)	1						TGGAGCTATTGGGTAGACAGT	0.413													56	183	---	---	---	---	PASS	T	65243601	T	T	65243601	3	4	58	1	0	0	0	0	1	0	0	0	13095	1339	47	3	622	3	RAVER2	1	65243601	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	637555	65243601	184007020	53	21428										
DEPDC1	55635	broad.mit.edu	37	chr1	68947132	68947132	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatcaacttaccagtgacctCgtacccattgcatcatgaag	6	12	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:68947132C>A	uc001dem.3	-	9	2043	c.1926G>T	c.(1924-1926)ACG>ACT	p.T642T	DEPDC1_uc001dej.3_Silent_p.T10T|DEPDC1_uc001dek.3_RNA|DEPDC1_uc001del.3_Silent_p.T358T	NM_001114120	NP_001107592	Q5TB30	DEP1A_HUMAN	DEP domain containing 1 isoform a	642	Interaction with ZNF224.				intracellular signal transduction|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	GTPase activator activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(397;7.21e-36)		CCAGTGACCTCGTACCCATTG	0.358													11	41	---	---	---	---	PASS	A	68947132	A	A	68947132	2	1	58	1	0	0	0	0	0	0	0	1	4439	871	31	2		2	DEPDC1	1	68947132	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	3703531	68947132	180303489	54	21429										
LRRC7	57554	broad.mit.edu	37	chr1	70541817	70541817	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccttcagcatcgcagccggGagcagcagccgtatgaagga	14	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:70541817G>T	uc001dep.2	+	22	4204	c.4174G>T	c.(4174-4176)GAG>TAG	p.E1392*	LRRC7_uc009wbg.2_Nonsense_Mutation_p.E676*|LRRC7_uc001deq.2_Nonsense_Mutation_p.E586*	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1392						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TCGCAGCCGGGAGCAGCAGCC	0.527													16	53	---	---	---	---	PASS	T	70541817	T	T	70541817	4	4	58	1	0	0	0	0	0	1	0	0	9020	1175	41	2	4260	2	LRRC7	1	70541817	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1594685	70541817	178708804	55	21430										
C1orf173	127254	broad.mit.edu	37	chr1	75036891	75036891	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctcgggtttcagtgaaatcAggcttcactggaagtgttgc	12	8	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:75036891A>C	uc001dgg.2	-	14	4722	c.4503T>G	c.(4501-4503)CCT>CCG	p.P1501P		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1501										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CAGTGAAATCAGGCTTCACTG	0.507													51	142	---	---	---	---	PASS	C	75036891	C	C	75036891	2	2	58	1	0	0	0	0	0	0	0	1	2014	175	7	5		5	C1orf173	1	75036891	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	4495074	75036891	174213730	56	21431										
SLC44A5	204962	broad.mit.edu	37	chr1	75684269	75684269	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtagcgaatgcaccagcaaGggcgcactgacctaatgcaa	11	11	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:75684269G>C	uc001dgu.2	-	17	1579	c.1435C>G	c.(1435-1437)CTT>GTT	p.L479V	SLC44A5_uc001dgt.2_Missense_Mutation_p.L479V|SLC44A5_uc001dgs.2_Missense_Mutation_p.L437V|SLC44A5_uc001dgr.2_Missense_Mutation_p.L437V|SLC44A5_uc010oqz.1_Missense_Mutation_p.L518V|SLC44A5_uc010ora.1_Missense_Mutation_p.L473V|SLC44A5_uc010orb.1_Missense_Mutation_p.L349V	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	479	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						GCACCAGCAAGGGCGCACTGA	0.428													40	110	---	---	---	---	PASS	C	75684269	C	C	75684269	3	2	58	1	0	0	0	0	1	0	0	0	14639	1000	35	4	867	4	SLC44A5	1	75684269	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	647378	75684269	173566352	57	21432										
AK5	26289	broad.mit.edu	37	chr1	77759493	77759493	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcagtaatgcctgaaaactCaaactttccatatcggcggt	8	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:77759493C>A	uc001dhn.2	+	3	520	c.263C>A	c.(262-264)TCA>TAA	p.S88*	AK5_uc001dho.2_Nonsense_Mutation_p.S62*|AK5_uc001dhm.1_Intron	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	88					ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						CCTGAAAACTCAAACTTTCCA	0.388													18	54	---	---	---	---	PASS	A	77759493	A	A	77759493	4	1	58	1	0	0	0	0	0	1	0	0	443	838	29	2	273	2	AK5	1	77759493	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2075224	77759493	171491128	58	21433										
ELTD1	64123	broad.mit.edu	37	chr1	79383371	79383371	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccaaataaagttgttttcgGtgctaagccaacatctgaaa	7	8	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:79383371G>T	uc001diq.3	-	12	1853	c.1697C>A	c.(1696-1698)ACC>AAC	p.T566N		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	566	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)		GTTGTTTTCGGTGCTAAGCCA	0.274													10	41	---	---	---	---	PASS	T	79383371	T	T	79383371	3	4	58	1	0	0	0	0	1	0	0	0	5084	1261	44	3	391	3	ELTD1	1	79383371	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1623878	79383371	169867250	59	21434										
CLCA2	9635	broad.mit.edu	37	chr1	86919105	86919105	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	taggcagaaatgaggaggagCgaaagtggggctttagccga	17	5	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:86919105C>A	uc001dlr.3	+	13	2371	c.2209C>A	c.(2209-2211)CGA>AGA	p.R737R		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor	737	Extracellular (Potential).				cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		TGAGGAGGAGCGAAAGTGGGG	0.448													14	75	---	---	---	---	PASS	A	86919105	A	A	86919105	2	1	58	1	0	0	0	0	0	0	0	1	3458	760	27	1		1	CLCA2	1	86919105	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	7535734	86919105	162331516	60	21435										
PKN2	5586	broad.mit.edu	37	chr1	89279243	89279243	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatattttcttttacagcctGatgtgtgaaaaaagaatttt	6	4	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:89279243G>T	uc001dmn.2	+	16	2448	c.2106G>T	c.(2104-2106)CTG>CTT	p.L702L	PKN2_uc010osp.1_Silent_p.L686L|PKN2_uc010osq.1_Silent_p.L545L|PKN2_uc009wcv.2_Silent_p.L654L|PKN2_uc010osr.1_Silent_p.L367L	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	702	Protein kinase.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		TTTACAGCCTGATGTGTGAAA	0.269													24	82	---	---	---	---	PASS	T	89279243	T	T	89279243	2	4	58	1	0	0	0	0	0	0	0	1	11980	1277	45	2		2	PKN2	1	89279243	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	2360138	89279243	159971378	61	21436										
LRRC8B	23507	broad.mit.edu	37	chr1	90049959	90049959	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgttgaacaacttgaaaaagAtggtcaatctgaaaagccta	8	6	2	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:90049959A>G	uc001dni.2	+	7	2257	c.1750A>G	c.(1750-1752)ATG>GTG	p.M584V	LRRC8B_uc001dnh.2_Missense_Mutation_p.M584V|LRRC8B_uc001dnj.2_Missense_Mutation_p.M584V	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	584						integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		CTTGAAAAAGATGGTCAATCT	0.443													16	39	---	---	---	---	PASS	G	90049959	G	G	90049959	3	3	58	1	0	0	0	0	1	0	0	0	9022	333	12	5	1752	5	LRRC8B	1	90049959	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	770716	90049959	159200662	62	21437										
BRDT	676	broad.mit.edu	37	chr1	92441951	92441951	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctatttctcccttgaacgtgGtacagggagcttcagtcaac	9	11	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:92441951G>C	uc001dok.3	+	5	923	c.574G>C	c.(574-576)GTA>CTA	p.V192L	BRDT_uc001dol.3_Missense_Mutation_p.V192L|BRDT_uc010osz.1_Missense_Mutation_p.V196L|BRDT_uc009wdf.2_Missense_Mutation_p.V119L|BRDT_uc010ota.1_Missense_Mutation_p.V146L|BRDT_uc010otb.1_Missense_Mutation_p.V146L|BRDT_uc001dom.3_Missense_Mutation_p.V192L	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	192					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		CTTGAACGTGGTACAGGGAGC	0.373													20	69	---	---	---	---	PASS	C	92441951	C	C	92441951	3	2	58	1	0	0	0	0	1	0	0	0	1508	1261	44	4	588	4	BRDT	1	92441951	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2391992	92441951	156808670	63	21438										
ABCA4	24	broad.mit.edu	37	chr1	94502905	94502905	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccatcagctcatttacatcCcctaggacaagaaaaaagac	5	12	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:94502905C>A	uc001dqh.2	-	25	3713	c.3609G>T	c.(3607-3609)GGG>GGT	p.G1203G		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1203	Cytoplasmic.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CATTTACATCCCCTAGGACAA	0.443													28	68	---	---	---	---	PASS	A	94502905	A	A	94502905	2	1	58	1	0	0	0	0	0	0	0	1	34	637	22	3		3	ABCA4	1	94502905	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2060954	94502905	154747716	64	21439										
RWDD3	25950	broad.mit.edu	37	chr1	95709926	95709926	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaccagggcccagtgtgtgaCtgtgaaagagaatttacttg	13	7	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:95709926C>G	uc009wdu.2	+	2	321	c.245C>G	c.(244-246)ACT>AGT	p.T82S	RWDD3_uc001drd.3_3'UTR|RWDD3_uc010oty.1_Missense_Mutation_p.T67S|RWDD3_uc009wdt.2_Missense_Mutation_p.T82S|RWDD3_uc001drf.3_Missense_Mutation_p.T82S|RWDD3_uc001drh.3_Missense_Mutation_p.T67S|RWDD3_uc009wdv.2_Intron|RWDD3_uc001drg.3_RNA|RWDD3_uc001dri.3_Missense_Mutation_p.T82S	NM_015485	NP_056300	Q9Y3V2	RWDD3_HUMAN	RWD domain containing 3 isoform a	82	RWD.					cytoplasm|nucleus	protein binding			ovary(1)	1		all_epithelial(167;5.99e-05)|all_lung(203;0.00168)|Lung NSC(277;0.00769)		all cancers(265;0.112)|Epithelial(280;0.229)		CAGTGTGTGACTGTGAAAGAG	0.458													26	88	---	---	---	---	PASS	G	95709926	G	G	95709926	3	3	58	1	0	0	0	0	1	0	0	0	13757	565	20	4	251	4	RWDD3	1	95709926	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1207021	95709926	153540695	65	21440										
VCAM1	7412	broad.mit.edu	37	chr1	101190441	101190441	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaagaggtggaattaattgTtcaaggtgagtagaatgtga	13	1	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:101190441T>C	uc001dti.2	+	4	1043	c.923T>C	c.(922-924)GTT>GCT	p.V308A	VCAM1_uc001dtj.2_Missense_Mutation_p.V308A|VCAM1_uc010ouj.1_Missense_Mutation_p.V246A	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	308	Ig-like C2-type 3.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	GAATTAATTGTTCAAGGTGAG	0.373													15	34	---	---	---	---	PASS	C	101190441	C	C	101190441	3	2	58	1	0	0	0	0	1	0	0	0	17134	1725	60	5	937	5	VCAM1	1	101190441	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	5480515	101190441	148060180	66	21441										
COL11A1	1301	broad.mit.edu	37	chr1	103347304	103347304	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttcctggtttctcctttggCcatgatgaaattcttacctg	7	11	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:103347304C>G	uc001dul.2	-	65	5307	c.4989G>C	c.(4987-4989)TGG>TGC	p.W1663C	COL11A1_uc001duk.2_Missense_Mutation_p.W859C|COL11A1_uc001dum.2_Missense_Mutation_p.W1675C|COL11A1_uc001dun.2_Missense_Mutation_p.W1624C|COL11A1_uc009weh.2_Missense_Mutation_p.W1547C	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1663	Fibrillar collagen NC1.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TCTCCTTTGGCCATGATGAAA	0.318													12	52	---	---	---	---	PASS	G	103347304	G	G	103347304	3	3	58	1	0	0	0	0	1	0	0	0	3667	740	26	4	443	4	COL11A1	1	103347304	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2156863	103347304	145903317	67	21442										
COL11A1	1301	broad.mit.edu	37	chr1	103381204	103381204	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tacgcctacacctgcttcccCaggaggccctgggttccctg	10	17	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:103381204C>A	uc001dul.2	-	50	4117	c.3799G>T	c.(3799-3801)GGG>TGG	p.G1267W	COL11A1_uc001duk.2_Missense_Mutation_p.G463W|COL11A1_uc001dum.2_Missense_Mutation_p.G1279W|COL11A1_uc001dun.2_Missense_Mutation_p.G1228W|COL11A1_uc009weh.2_Missense_Mutation_p.G1151W	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1267	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCTGCTTCCCCAGGAGGCCCT	0.363													38	108	---	---	---	---	PASS	A	103381204	A	A	103381204	3	1	58	1	0	0	0	0	1	0	0	0	3667	594	21	3	1693	3	COL11A1	1	103381204	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	33900	103381204	145869417	68	21443										
COL11A1	1301	broad.mit.edu	37	chr1	103428316	103428316	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accagtctcaccggttggtcCctaaattagataagcaaaat	7	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:103428316C>A	uc001dul.2	-	39	3235	c.2917G>T	c.(2917-2919)GGA>TGA	p.G973*	COL11A1_uc001duk.2_Nonsense_Mutation_p.G169*|COL11A1_uc001dum.2_Nonsense_Mutation_p.G985*|COL11A1_uc001dun.2_Nonsense_Mutation_p.G934*|COL11A1_uc009weh.2_Nonsense_Mutation_p.G857*	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	973	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCGGTTGGTCCCTAAATTAGA	0.428													22	64	---	---	---	---	PASS	A	103428316	A	A	103428316	4	1	58	1	0	0	0	0	0	1	0	0	3667	637	22	3	2619	3	COL11A1	1	103428316	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	47112	103428316	145822305	69	21444										
COL11A1	1301	broad.mit.edu	37	chr1	103444657	103444657	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agggcctggtttgccagctaCtccctagcaaagacagttca	10	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:103444657C>A	uc001dul.2	-	33	2932	c.2614G>T	c.(2614-2616)GTA>TTA	p.V872L	COL11A1_uc001duk.2_Missense_Mutation_p.V68L|COL11A1_uc001dum.2_Missense_Mutation_p.V884L|COL11A1_uc001dun.2_Missense_Mutation_p.V833L|COL11A1_uc009weh.2_Missense_Mutation_p.V756L	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	872	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TTGCCAGCTACTCCCTAGCAA	0.393													15	56	---	---	---	---	PASS	A	103444657	A	A	103444657	3	1	58	1	0	0	0	0	1	0	0	0	3667	565	20	3	2946	3	COL11A1	1	103444657	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	16341	103444657	145805964	70	21445										
COL11A1	1301	broad.mit.edu	37	chr1	103444981	103444981	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacctggaaacccagggaatCcagtggaaccctacaataat	8	12	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:103444981C>A	uc001dul.2	-	32	2885	c.2567G>T	c.(2566-2568)GGA>GTA	p.G856V	COL11A1_uc001duk.2_Missense_Mutation_p.G52V|COL11A1_uc001dum.2_Missense_Mutation_p.G868V|COL11A1_uc001dun.2_Missense_Mutation_p.G817V|COL11A1_uc009weh.2_Missense_Mutation_p.G740V	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	856	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCCAGGGAATCCAGTGGAACC	0.308													16	58	---	---	---	---	PASS	A	103444981	A	A	103444981	3	1	58	1	0	0	0	0	1	0	0	0	3667	855	30	2	2997	2	COL11A1	1	103444981	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	324	103444981	145805640	71	21446										
PSRC1	84722	broad.mit.edu	37	chr1	109824326	109824326	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cattactccggagtcgaggcGtcaggctgcttggggagggg	18	9	1	0	rs148605172		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:109824326G>A	uc001dxg.2	-	4	556	c.434C>T	c.(433-435)ACG>ATG	p.T145M	PSRC1_uc001dxb.2_Translation_Start_Site|PSRC1_uc001dxc.2_Missense_Mutation_p.T145M|PSRC1_uc001dxd.2_Missense_Mutation_p.T145M|PSRC1_uc001dxe.2_Missense_Mutation_p.T145M|PSRC1_uc001dxf.2_Missense_Mutation_p.T145M|PSRC1_uc001dxh.2_Missense_Mutation_p.T145M|PSRC1_uc001dxi.2_Missense_Mutation_p.T145M|PSRC1_uc001dxj.2_Missense_Mutation_p.T145M	NM_001032290	NP_001027461	Q6PGN9	PSRC1_HUMAN	proline/serine-rich coiled-coil 1 isoform c	145	4 X 4 AA repeats of P-X-X-P.				cell division|microtubule bundle formation|mitotic metaphase plate congression|negative regulation of cell growth|positive regulation of microtubule polymerization|positive regulation of transcription, DNA-dependent|regulation of mitotic spindle organization	cytosol|midbody|spindle pole	microtubule binding				0		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0286)|Lung(183;0.0658)|COAD - Colon adenocarcinoma(174;0.112)|Epithelial(280;0.188)|all cancers(265;0.213)		GAGTCGAGGCGTCAGGCTGCT	0.592													6	131	---	---	---	---	PASS	A	109824326	A	A	109824326	3	1	58	1	0	0	0	0	1	0	0	0	12719	1145	40	1	648	1	PSRC1	1	109824326	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6379345	109824326	139426295	72	21447										
ATXN7L2	127002	broad.mit.edu	37	chr1	110026622	110026622	+	Frame_Shift_Del	DEL	G	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agcaatggccgctctggagcGgcgggtgccgagtctcgatg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:110026622delG	uc001dxr.2	+	1	62	c.47delG	c.(46-48)CGGfs	p.R16fs		NM_153340	NP_699171	Q5T6C5	AT7L2_HUMAN	ataxin 7-like 2	16										ovary(2)	2		all_epithelial(167;0.00197)|all_lung(203;0.00291)|Lung NSC(277;0.00453)		Colorectal(144;0.0129)|Lung(183;0.0426)|Epithelial(280;0.0675)|READ - Rectum adenocarcinoma(129;0.0693)|all cancers(265;0.071)|LUSC - Lung squamous cell carcinoma(189;0.228)		gctctggagcggcggGTGCCG	0.313													11	6	---	---	---	---		-	110026622	-	-	110026622	7	5	58	1	0	1	0	1	0	0	0	0	1217	1116	39	0	49	0	ATXN7L2	1	110026622	Frame_Shift_Del	DEL	G	TCGA-33-4566-01A-01D-1441-08	202296	110026622	139223999	73	21448										
KCNA2	3737	broad.mit.edu	37	chr1	111147092	111147092	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcagagaatatatctaaggGcacattcacaggtcgcctca	8	10	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:111147092G>T	uc001dzu.2	-	2	809	c.313C>A	c.(313-315)CCC>ACC	p.P105T	KCNA2_uc009wfv.1_Missense_Mutation_p.P105T|KCNA2_uc009wfw.2_Missense_Mutation_p.P105T	NM_004974	NP_004965	P16389	KCNA2_HUMAN	potassium voltage-gated channel, shaker-related	105						juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(1)	1		all_cancers(81;5.55e-06)|all_epithelial(167;1.87e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Colorectal(144;0.00878)|Lung(183;0.0234)|all cancers(265;0.0492)|Epithelial(280;0.0529)|COAD - Colon adenocarcinoma(174;0.131)|LUSC - Lung squamous cell carcinoma(189;0.133)|READ - Rectum adenocarcinoma(129;0.191)		ATATCTAAGGGCACATTCACA	0.478													20	45	---	---	---	---	PASS	T	111147092	T	T	111147092	3	4	58	1	0	0	0	0	1	0	0	0	8003	1203	42	3	1190	3	KCNA2	1	111147092	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1120470	111147092	138103529	74	21449										
CAPZA1	829	broad.mit.edu	37	chr1	113197267	113197267	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctttaagagcctatgtgaaaGaccattattccaacggcttc	7	10	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:113197267G>A	uc001ecj.1	+	5	792	c.400G>A	c.(400-402)GAC>AAC	p.D134N		NM_006135	NP_006126	P52907	CAZA1_HUMAN	F-actin capping protein alpha-1 subunit	134					actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement|innate immune response|protein complex assembly	cytosol|extracellular region|F-actin capping protein complex|WASH complex	actin binding				0	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTATGTGAAAGACCATTATTC	0.438													55	166	---	---	---	---	PASS	A	113197267	A	A	113197267	3	1	58	1	0	0	0	0	1	0	0	0	2640	942	33	2	418	2	CAPZA1	1	113197267	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2050175	113197267	136053354	75	21450										
AMPD1	270	broad.mit.edu	37	chr1	115220052	115220052	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaccaggaggagagtttgctCcactcatcaggactgcggcc	12	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:115220052C>A	uc001efe.1	-	10	1392	c.1308G>T	c.(1306-1308)TGG>TGT	p.W436C	AMPD1_uc001eff.1_Missense_Mutation_p.W432C	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	436					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	AGAGTTTGCTCCACTCATCAG	0.567													28	90	---	---	---	---	PASS	A	115220052	A	A	115220052	3	1	58	1	0	0	0	0	1	0	0	0	585	856	30	2	963	2	AMPD1	1	115220052	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2022785	115220052	134030569	76	21451										
SPAG17	200162	broad.mit.edu	37	chr1	118623765	118623765	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagccttcatgatgctctccTgctctaacagctgtctatta	7	12	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:118623765T>A	uc001ehk.2	-	15	2236	c.2168A>T	c.(2167-2169)CAG>CTG	p.Q723L		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	723						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GATGCTCTCCTGCTCTAACAG	0.343													48	135	---	---	---	---	PASS	A	118623765	A	A	118623765	3	1	58	1	0	0	0	0	1	0	0	0	14979	1580	55	5	4639	5	SPAG17	1	118623765	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	3403713	118623765	130626856	77	21452										
TBX15	6913	broad.mit.edu	37	chr1	119427626	119427626	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atccatacaggttgtaagggTtgtgaagggagaaggcattg	15	4	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:119427626T>C	uc001ehl.1	-	8	1535	c.1220A>G	c.(1219-1221)AAC>AGC	p.N407S	TBX15_uc009whj.1_Missense_Mutation_p.N231S	NM_152380	NP_689593	Q96SF7	TBX15_HUMAN	T-box 15	513						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)	2	all_neural(166;0.117)	all_cancers(81;0.000692)|all_lung(203;3.05e-06)|Lung NSC(69;2.13e-05)|all_epithelial(167;0.000237)		Lung(183;0.044)|LUSC - Lung squamous cell carcinoma(189;0.141)		GTTGTAAGGGTTGTGAAGGGA	0.532													12	28	---	---	---	---	PASS	C	119427626	C	C	119427626	3	2	58	1	0	0	0	0	1	0	0	0	15649	1725	60	5	274	5	TBX15	1	119427626	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	803861	119427626	129822995	78	21453										
HSD3B2	3284	broad.mit.edu	37	chr1	119965138	119965138	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaggctcagcgagatctggcGtataagccactctacagctg	11	11	3	1	rs116342586	by1000genomes	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:119965138G>T	uc001ehs.2	+	3	1787	c.1014G>T	c.(1012-1014)GCG>GCT	p.A338A	HSD3B2_uc001eht.2_Silent_p.A338A|HSD3B2_uc001ehu.2_Intron	NM_000198	NP_000189	P26439	3BHS2_HUMAN	3 beta-hydroxysteroid dehydrogenase 2	338					androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)	GAGATCTGGCGTATAAGCCAC	0.517													18	47	---	---	---	---	PASS	T	119965138	T	T	119965138	2	4	58	1	0	0	0	0	0	0	0	1	7391	1132	40	1		1	HSD3B2	1	119965138	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	537512	119965138	129285483	79	21454										
NBPF7	343505	broad.mit.edu	37	chr1	120384192	120384192	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccttaactggatcagctctcGttcctgagagtgaaccagga	10	11	2	2	rs6656217		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:120384192G>T	uc010oxk.1	-	3	991	c.370C>A	c.(370-372)CGA>AGA	p.R124R		NM_001047980	NP_001041445	P0C2Y1	NBPF7_HUMAN	hypothetical protein LOC343505	124	Potential.					cytoplasm				ovary(1)|skin(1)	2	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;3.66e-05)|Lung NSC(69;0.000192)|all_epithelial(167;0.0347)		Lung(183;0.0103)|LUSC - Lung squamous cell carcinoma(189;0.0544)		ATCAGCTCTCGTTCCTGAGAG	0.448													55	151	---	---	---	---	PASS	T	120384192	T	T	120384192	2	4	58	1	0	0	0	0	0	0	0	1	10198	1153	40	1		1	NBPF7	1	120384192	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	419054	120384192	128866429	80	21455										
PPIAL4G	644591	broad.mit.edu	37	chr1	143767487	143767487	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccacatgcttgccatccaacCactcagtcttggcagtgcag	8	15	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:143767487C>T	uc001ejt.2	-	1	395	c.362G>A	c.(361-363)TGG>TAG	p.W121*		NM_001123068	NP_001116540	A2BFH1	PAL4G_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	121	PPIase cyclophilin-type.				protein folding	cytoplasm	peptidyl-prolyl cis-trans isomerase activity				0						GCCATCCAACCACTCAGTCTT	0.488													78	515	---	---	---	---	PASS	T	143767487	T	T	143767487	4	4	58	1	0	0	0	0	0	1	0	0	12318	595	21	3	136	3	PPIAL4G	1	143767487	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	23383295	143767487	105483134	81	21456										
PDE4DIP	9659	broad.mit.edu	37	chr1	144871797	144871797	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggaggagagggccagtggggCtgaaaggcaggaagctggat	21	5	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:144871797C>A	uc001elw.3	-	32	5456	c.5165G>T	c.(5164-5166)AGC>ATC	p.S1722I	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Intron|PDE4DIP_uc001elv.3_Missense_Mutation_p.S729I	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1722					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GCCAGTGGGGCTGAAAGGCAG	0.552			T	PDGFRB	MPD								82	166	---	---	---	---	PASS	A	144871797	A	A	144871797	3	1	58	1	0	0	0	0	1	0	0	0	11643	797	28	3	1927	3	PDE4DIP	1	144871797	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1104310	144871797	104378824	82	21457										
NOTCH2NL	388677	broad.mit.edu	37	chr1	145281564	145281564	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgcctcaacctgcctggttCctaccagtgccagtgccttc	8	17	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:145281564C>T	uc001emn.3	+	4	864	c.494C>T	c.(493-495)TCC>TTC	p.S165F	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_5'UTR|NOTCH2NL_uc001emm.3_Missense_Mutation_p.S165F|NOTCH2NL_uc001emo.2_Missense_Mutation_p.S165F|NOTCH2NL_uc010oyh.1_RNA	NM_203458	NP_982283	Q7Z3S9	NT2NL_HUMAN	Notch homolog 2 N-terminal like protein	165	EGF-like 5; calcium-binding (Potential).				cell differentiation|multicellular organismal development|Notch signaling pathway	cytoplasm|extracellular region	calcium ion binding			ovary(1)	1						CTGCCTGGTTCCTACCAGTGC	0.577													28	239	---	---	---	---	PASS	T	145281564	T	T	145281564	3	4	58	1	0	0	0	0	1	0	0	0	10549	855	30	2	504	2	NOTCH2NL	1	145281564	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	409767	145281564	103969057	83	21458										
BOLA1	51027	broad.mit.edu	37	chr1	149871789	149871789	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aacgagagcggtggccacgcGgtcccgcctggcagtgagac	16	13	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:149871789G>C	uc001etf.2	+	2	298	c.177G>C	c.(175-177)GCG>GCC	p.A59A		NM_016074	NP_057158	Q9Y3E2	BOLA1_HUMAN	bolA-like 1	59						extracellular region	protein binding			ovary(1)	1	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			GTGGCCACGCGGTCCCGCCTG	0.682													16	45	---	---	---	---	PASS	C	149871789	C	C	149871789	2	2	58	1	0	0	0	0	0	0	0	1	1485	1103	39	4		4	BOLA1	1	149871789	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	4590225	149871789	99378832	84	21459										
OTUD7B	56957	broad.mit.edu	37	chr1	149943093	149943093	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctggagccaccactcccctCactaaaggatgggggtaggt	12	13	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:149943093C>G	uc001etn.2	-	3	528	c.172G>C	c.(172-174)GAG>CAG	p.E58Q	OTUD7B_uc001eto.2_Silent_p.V23V	NM_020205	NP_064590	Q6GQQ9	OTU7B_HUMAN	zinc finger protein Cezanne	58					negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)			CCACTCCCCTCACTAAAGGAT	0.542													55	71	---	---	---	---	PASS	G	149943093	G	G	149943093	3	3	58	1	0	0	0	0	1	0	0	0	11319	835	29	2	2399	2	OTUD7B	1	149943093	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	71304	149943093	99307528	85	21460										
ANXA9	8416	broad.mit.edu	37	chr1	150958880	150958880	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcttgcaggacctgctgttgGccctggccaaggtgaggagg	16	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:150958880G>T	uc001ewa.2	+	8	1011	c.541G>T	c.(541-543)GCC>TCC	p.A181S		NM_003568	NP_003559	O76027	ANXA9_HUMAN	annexin A9	181	Annexin 2.				cell-cell adhesion	cell surface|cytosol	acetylcholine receptor activity|calcium ion binding|calcium-dependent phospholipid binding|phosphatidylserine binding|protein homodimerization activity				0	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CCTGCTGTTGGCCCTGGCCAA	0.577													25	48	---	---	---	---	PASS	T	150958880	T	T	150958880	3	4	58	1	0	0	0	0	1	0	0	0	725	1203	42	3	563	3	ANXA9	1	150958880	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1015787	150958880	98291741	86	21461										
GABPB2	126626	broad.mit.edu	37	chr1	151070370	151070370	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgttaatccagagagagccAaccctgtgactgaccctgtg	10	11	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:151070370A>T	uc001ewr.2	+	5	845	c.514A>T	c.(514-516)AAC>TAC	p.N172Y	GABPB2_uc010pcp.1_Missense_Mutation_p.N188Y|GABPB2_uc001ews.2_Missense_Mutation_p.N132Y|GABPB2_uc001ewt.2_Missense_Mutation_p.N71Y	NM_144618	NP_653219	Q8TAK5	GABP2_HUMAN	GA repeat binding protein, beta 2	172					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	protein heterodimerization activity|transcription regulatory region DNA binding				0				all cancers(107;7.17e-05)|GBM - Glioblastoma multiforme(94;0.000662)		AGAGAGAGCCAACCCTGTGAC	0.413													48	102	---	---	---	---	PASS	T	151070370	T	T	151070370	3	4	58	1	0	0	0	0	1	0	0	0	6159	130	5	5	528	5	GABPB2	1	151070370	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	111490	151070370	98180251	87	21462										
TCHHL1	126637	broad.mit.edu	37	chr1	152057894	152057894	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttggtcaccaccttctcctGccagctcttggggactttca	8	14	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:152057894G>T	uc001ezo.1	-	3	2329	c.2264C>A	c.(2263-2265)GCA>GAA	p.A755E		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	755							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			ACCTTCTCCTGCCAGCTCTTG	0.473													116	263	---	---	---	---	PASS	T	152057894	T	T	152057894	3	4	58	1	0	0	0	0	1	0	0	0	15698	1319	46	3	454	3	TCHHL1	1	152057894	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	987524	152057894	97192727	88	21463										
TCHHL1	126637	broad.mit.edu	37	chr1	152058212	152058212	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgcttctgggtgtccattgGgctccacagctgcacctggg	14	12	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:152058212G>T	uc001ezo.1	-	3	2011	c.1946C>A	c.(1945-1947)CCC>CAC	p.P649H		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	649							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			GTGTCCATTGGGCTCCACAGC	0.537													108	193	---	---	---	---	PASS	T	152058212	T	T	152058212	3	4	58	1	0	0	0	0	1	0	0	0	15698	1232	43	3	772	3	TCHHL1	1	152058212	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	318	152058212	97192409	89	21464										
TCHH	7062	broad.mit.edu	37	chr1	152083673	152083673	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctctcttcctcatgctcgcGcttcagccgctgctcgagcc	8	19	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:152083673G>C	uc001ezp.2	-	2	2020	c.2020C>G	c.(2020-2022)CGC>GGC	p.R674G	TCHH_uc009wne.1_Missense_Mutation_p.R674G	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	674	9 X 28 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCATGCTCGCGCTTCAGCCGC	0.657													48	71	---	---	---	---	PASS	C	152083673	C	C	152083673	3	2	58	1	0	0	0	0	1	0	0	0	15697	1087	38	4	3815	4	TCHH	1	152083673	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	25461	152083673	97166948	90	21465										
HRNR	388697	broad.mit.edu	37	chr1	152193146	152193146	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acccgtgttggccgtggctgGaggagtgccccgaaccggac	16	13	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:152193146G>T	uc001ezt.1	-	3	1035	c.959C>A	c.(958-960)TCC>TAC	p.S320Y		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	320	3.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCCGTGGCTGGAGGAGTGCCC	0.607													51	66	---	---	---	---	PASS	T	152193146	T	T	152193146	3	4	58	1	0	0	0	0	1	0	0	0	7359	1174	41	2	7597	2	HRNR	1	152193146	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	109473	152193146	97057475	91	21466										
FLG	2312	broad.mit.edu	37	chr1	152286978	152286978	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttctattgtttcttctttcCagacttgagggtctttttct	6	8	5	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:152286978C>T	uc001ezu.1	-	3	420	c.384G>A	c.(382-384)CTG>CTA	p.L128L	uc001ezv.2_Intron	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	128					keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCTTCTTTCCAGACTTGAGG	0.373									Ichthyosis				73	221	---	---	---	---	PASS	T	152286978	T	T	152286978	2	4	58	1	0	0	0	0	0	0	0	1	5922	581	21	3		3	FLG	1	152286978	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	93832	152286978	96963643	92	21467										
CRNN	49860	broad.mit.edu	37	chr1	152382453	152382453	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccctgttctctagcccctcCgtggcttacagtttggcttc	8	15	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:152382453C>A	uc001ezx.2	-	3	1179	c.1105G>T	c.(1105-1107)GGA>TGA	p.G369*		NM_016190	NP_057274	Q9UBG3	CRNN_HUMAN	cornulin	369	Gln-rich.				cell-cell adhesion|response to heat	cytoplasm|membrane	calcium ion binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTAGCCCCTCCGTGGCTTACA	0.592													108	233	---	---	---	---	PASS	A	152382453	A	A	152382453	4	1	58	1	0	0	0	0	0	1	0	0	3892	661	23	1	386	1	CRNN	1	152382453	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	95475	152382453	96868168	93	21468										
KPRP	448834	broad.mit.edu	37	chr1	152732350	152732350	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctaagaccacccaggtgaagGgccaggctgcatcccaatct	10	14	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:152732350G>T	uc001fal.1	+	2	344	c.286G>T	c.(286-288)GGC>TGC	p.G96C		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	96	Gln-rich.					cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCAGGTGAAGGGCCAGGCTGC	0.552													151	264	---	---	---	---	PASS	T	152732350	T	T	152732350	3	4	58	1	0	0	0	0	1	0	0	0	8436	1232	43	3	288	3	KPRP	1	152732350	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	349897	152732350	96518271	94	21469										
GATAD2B	57459	broad.mit.edu	37	chr1	153791379	153791379	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctgcttgataagctgctgcCgctcctcaatgcctttcccc	8	16	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:153791379C>A	uc001fdb.3	-	4	729	c.485G>T	c.(484-486)CGG>CTG	p.R162L		NM_020699	NP_065750	Q8WXI9	P66B_HUMAN	GATA zinc finger domain containing 2B	162	Potential.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_lung(78;1.34e-32)|Lung NSC(65;1.04e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			AAGCTGCTGCCGCTCCTCAAT	0.468													65	95	---	---	---	---	PASS	A	153791379	A	A	153791379	3	1	58	1	0	0	0	0	1	0	0	0	6261	652	23	1	1328	1	GATAD2B	1	153791379	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1059029	153791379	95459242	95	21470										
ADAR	103	broad.mit.edu	37	chr1	154574229	154574229	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gattttctccttgatctcggCcatgtctaaaaactcaagag	7	10	4	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:154574229C>A	uc001ffh.2	-	2	1089	c.889G>T	c.(889-891)GCC>TCC	p.A297S	ADAR_uc001ffj.2_Missense_Mutation_p.A297S|ADAR_uc001ffi.2_Missense_Mutation_p.A297S|ADAR_uc001ffk.2_Missense_Mutation_p.A2S|ADAR_uc001ffl.1_Missense_Mutation_p.A2S	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	297	DRADA 2.				adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		TTGATCTCGGCCATGTCTAAA	0.468													59	151	---	---	---	---	PASS	A	154574229	A	A	154574229	3	1	58	1	0	0	0	0	1	0	0	0	281	739	26	3	2847	3	ADAR	1	154574229	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	782850	154574229	94676392	96	21471										
PMVK	10654	broad.mit.edu	37	chr1	154904862	154904862	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccttgagtggaccagagagcCggaggacagcacagacatca	13	11	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:154904862C>A	uc001ffq.2	-	2	448	c.125G>T	c.(124-126)CGG>CTG	p.R42L		NM_006556	NP_006547	Q15126	PMVK_HUMAN	phosphomevalonate kinase	42					cholesterol biosynthetic process|protein phosphorylation	cytosol|peroxisome	ATP binding|phosphomevalonate kinase activity|protein binding				0	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.142)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			ACCAGAGAGCCGGAGGACAGC	0.552													25	51	---	---	---	---	PASS	A	154904862	A	A	154904862	3	1	58	1	0	0	0	0	1	0	0	0	12144	652	23	1	469	1	PMVK	1	154904862	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	330633	154904862	94345759	97	21472										
CCT3	7203	broad.mit.edu	37	chr1	156288776	156288776	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttaatcatgactccacgcaaGacacaggagtcttcaatgat	7	10	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:156288776G>A	uc001fol.1	-	8	862	c.642C>T	c.(640-642)GTC>GTT	p.V214V	CCT3_uc001fom.1_Silent_p.V213V|CCT3_uc001fon.1_Silent_p.V176V|CCT3_uc010phj.1_Silent_p.V168V|CCT3_uc010phk.1_Silent_p.V168V|CCT3_uc010phl.1_Silent_p.V168V	NM_005998	NP_005989	P49368	TCPG_HUMAN	chaperonin containing TCP1, subunit 3 isoform a	214					'de novo' posttranslational protein folding	cytoskeleton|cytosol|plasma membrane	ATP binding|unfolded protein binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					CTCCACGCAAGACACAGGAGT	0.438													29	66	---	---	---	---	PASS	A	156288776	A	A	156288776	2	1	58	1	0	0	0	0	0	0	0	1	2954	929	33	2		2	CCT3	1	156288776	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1383914	156288776	92961845	98	21473										
TTC24	164118	broad.mit.edu	37	chr1	156553228	156553228	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaagtactataaggaagcaCtggcccagtgtcaggtgaga	13	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:156553228C>A	uc009wsc.1	+	3	438	c.298C>A	c.(298-300)CTG>ATG	p.L100M		NM_001105669	NP_001099139	A2A3L6	TTC24_HUMAN	tetratricopeptide repeat domain 24	380	TPR 8.						binding			pancreas(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TAAGGAAGCACTGGCCCAGTG	0.602											OREG0013875	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	15	---	---	---	---	PASS	A	156553228	A	A	156553228	3	1	58	1	0	0	0	0	1	0	0	0	16689	564	20	3	1152	3	TTC24	1	156553228	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	264452	156553228	92697393	99	21474										
NES	10763	broad.mit.edu	37	chr1	156642011	156642011	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttctcttgcagagaacttaCtaattcttgattttccgttc	6	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:156642011C>A	uc001fpq.2	-	4	2102	c.1969G>T	c.(1969-1971)GTA>TTA	p.V657L		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	657	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGAGAACTTACTAATTCTTGA	0.408													33	74	---	---	---	---	PASS	A	156642011	A	A	156642011	3	1	58	1	0	0	0	0	1	0	0	0	10337	565	20	3	2900	3	NES	1	156642011	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	88783	156642011	92608610	100	21475										
INSRR	3645	broad.mit.edu	37	chr1	156823971	156823971	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgaggcgagggaagctgagGccgcggaagtcctccccggt	18	11	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:156823971G>T	uc010pht.1	-	2	464	c.210C>A	c.(208-210)GGC>GGA	p.G70G	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron|INSRR_uc009wsj.1_Silent_p.G70G	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	70					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GGAAGCTGAGGCCGCGGAAGT	0.632													27	52	---	---	---	---	PASS	T	156823971	T	T	156823971	2	4	58	1	0	0	0	0	0	0	0	1	7774	1190	42	3		3	INSRR	1	156823971	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	181960	156823971	92426650	101	21476										
ARHGEF11	9826	broad.mit.edu	37	chr1	156928544	156928544	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagactcacaaaatatctcCaagggcagccagctgcttct	7	12	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:156928544C>A	uc001fqo.2	-	16	2412	c.1372G>T	c.(1372-1374)GGA>TGA	p.G458*	ARHGEF11_uc001fqn.2_Nonsense_Mutation_p.G498*|ARHGEF11_uc001fqp.1_5'Flank	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	458	RGSL.|Potential.				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)					AAAATATCTCCAAGGGCAGCC	0.542													24	39	---	---	---	---	PASS	A	156928544	A	A	156928544	4	1	58	1	0	0	0	0	0	1	0	0	896	603	21	3	3296	3	ARHGEF11	1	156928544	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	104573	156928544	92322077	102	21477										
CD1C	911	broad.mit.edu	37	chr1	158262530	158262530	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcaactgggcactaaacatgGtgatattcttcctaatgctg	9	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:158262530G>T	uc001fru.2	+	4	1047	c.755G>T	c.(754-756)GGT>GTT	p.G252V	CD1C_uc001frv.2_Missense_Mutation_p.G55V	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	252	Extracellular (Potential).|Ig-like.				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding	p.G252C(1)		ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					ACTAAACATGGTGATATTCTT	0.532													43	99	---	---	---	---	PASS	T	158262530	T	T	158262530	3	4	58	1	0	0	0	0	1	0	0	0	2976	1261	44	3	769	3	CD1C	1	158262530	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1333986	158262530	90988091	103	21478										
OR6K6	128371	broad.mit.edu	37	chr1	158725183	158725183	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgagattgcatggatttccaCcttgcctttctgtggctcca	9	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:158725183C>G	uc001fsw.1	+	1	578	c.578C>G	c.(577-579)ACC>AGC	p.T193S		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	193	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					TGGATTTCCACCTTGCCTTTC	0.478													30	78	---	---	---	---	PASS	G	158725183	G	G	158725183	3	3	58	1	0	0	0	0	1	0	0	0	11204	507	18	4	580	4	OR6K6	1	158725183	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	462653	158725183	90525438	104	21479										
MNDA	4332	broad.mit.edu	37	chr1	158817656	158817656	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcttctgccttcaactgagaAcagttgaccgcaagctgaaa	8	11	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:158817656A>T	uc001fsz.1	+	6	1326	c.1126A>T	c.(1126-1128)ACA>TCA	p.T376S		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	376	HIN-200.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					TCAACTGAGAACAGTTGACCG	0.433													59	114	---	---	---	---	PASS	T	158817656	T	T	158817656	3	4	58	1	0	0	0	0	1	0	0	0	9676	43	2	5	1144	5	MNDA	1	158817656	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	92473	158817656	90432965	105	21480										
DARC	2532	broad.mit.edu	37	chr1	159176115	159176115	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagaagccctggcaattttgCactgtgtggctacgcccctg	11	13	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:159176115C>A	uc001fto.2	+	2	1126	c.886C>A	c.(886-888)CAC>AAC	p.H296N	DARC_uc001ftp.3_Missense_Mutation_p.H298N	NM_002036	NP_002027	Q16570	DUFFY_HUMAN	Duffy blood group antigen isoform b	296	Helical; Name=7; (Potential).				defense response	integral to membrane|plasma membrane	C-C chemokine binding|chemokine receptor activity			ovary(1)|lung(1)	2	all_hematologic(112;0.0429)					GGCAATTTTGCACTGTGTGGC	0.597													171	387	---	---	---	---	PASS	A	159176115	A	A	159176115	3	1	58	1	0	0	0	0	1	0	0	0	4240	710	25	3	919	3	DARC	1	159176115	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	358459	159176115	90074506	106	21481										
CD84	8832	broad.mit.edu	37	chr1	160519720	160519720	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggttaccttatcagcaaacTgcacttcggaataaactgtg	9	9	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:160519720T>A	uc001fwh.3	-	7	983	c.959A>T	c.(958-960)CAG>CTG	p.Q320L	CD84_uc001fwf.3_Missense_Mutation_p.Q303L|CD84_uc001fwg.3_Missense_Mutation_p.Q314L|CD84_uc009wtn.2_Silent_p.A270A|CD84_uc001fwi.3_Missense_Mutation_p.Q189L	NM_003874	NP_003865	Q9UIB8	SLAF5_HUMAN	CD84 molecule	320	Cytoplasmic (Potential).				blood coagulation|defense response|homophilic cell adhesion|leukocyte migration	integral to plasma membrane	receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(52;3.62e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			ATCAGCAAACTGCACTTCGGA	0.512													27	62	---	---	---	---	PASS	A	160519720	A	A	160519720	3	1	58	1	0	0	0	0	1	0	0	0	3042	1580	55	5	86	5	CD84	1	160519720	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1343605	160519720	88730901	107	21482										
USP21	27005	broad.mit.edu	37	chr1	161130856	161130856	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggggctgcactgagccgcttGgccctccggcctgagccacc	14	17	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:161130856G>T	uc010pke.1	+	3	803	c.426G>T	c.(424-426)TTG>TTT	p.L142F	USP21_uc010pkc.1_Missense_Mutation_p.L142F|USP21_uc010pkd.1_Missense_Mutation_p.L142F|USP21_uc010pkf.1_Missense_Mutation_p.L142F	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	142					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			TGAGCCGCTTGGCCCTCCGGC	0.642													51	64	---	---	---	---	PASS	T	161130856	T	T	161130856	3	4	58	1	0	0	0	0	1	0	0	0	17050	1339	47	3	428	3	USP21	1	161130856	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	611136	161130856	88119765	108	21483										
B4GALT3	8703	broad.mit.edu	37	chr1	161143466	161143466	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagccattcatcttcaggtaCtggtcaggagtaagtgctga	11	8	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:161143466C>A	uc001fyq.1	-	6	994	c.732G>T	c.(730-732)CAG>CAT	p.Q244H	PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_Intron|B4GALT3_uc001fyo.1_Missense_Mutation_p.Q24H|B4GALT3_uc001fyp.1_RNA|B4GALT3_uc001fyr.1_Missense_Mutation_p.Q244H|B4GALT3_uc001fys.1_Missense_Mutation_p.Q244H|B4GALT3_uc009wud.1_3'UTR	NM_003779	NP_003770	O60512	B4GT3_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	244	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|metal ion binding|N-acetyllactosamine synthase activity				0	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)		N-Acetyl-D-glucosamine(DB00141)	TCTTCAGGTACTGGTCAGGAG	0.552													57	150	---	---	---	---	PASS	A	161143466	A	A	161143466	3	1	58	1	0	0	0	0	1	0	0	0	1272	564	20	3	461	3	B4GALT3	1	161143466	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	12610	161143466	88107155	109	21484										
ADAMTS4	9507	broad.mit.edu	37	chr1	161161322	161161322	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caagaatgtgggtggcccccGcggggatagtgaccacattg	15	10	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:161161322G>A	uc001fyt.3	-	9	2548	c.2120C>T	c.(2119-2121)GCG>GTG	p.A707V		NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	707	Spacer.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GGTGGCCCCCGCGGGGATAGT	0.577													31	159	---	---	---	---	PASS	A	161161322	A	A	161161322	3	1	58	1	0	0	0	0	1	0	0	0	268	1087	38	1	397	1	ADAMTS4	1	161161322	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	17856	161161322	88089299	110	21485										
FCGR2C	9103	broad.mit.edu	37	chr1	161561180	161561180	+	Missense_Mutation	SNP	C	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atccaagcctgtgaccatcaCtgtccaaggtatgaggagtc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:161561180C>T	uc001gav.2	+	5	737	c.638C>T	c.(637-639)ACT>ATT	p.T213I	FCGR2C_uc009wuj.2_RNA|FCGR2C_uc009wuk.2_RNA	NM_201563	NP_963857			Fc fragment of IgG, low affinity IIc, receptor												0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			GTGACCATCACTGTCCAAGGT	0.527													21	62	---	---	---	---	PASS	T	161561180	T	T	161561180	3	4	58	1	0	0	0	0	1	0	0	0	5783	565	20	3	652	3	FCGR2C	1	161561180	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	399858	161561180	87689441	111	21486	480	2								
FCGR2C	9103	broad.mit.edu	37	chr1	161561181	161561181	+	Silent	SNP	T	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccaagcctgtgaccatcacTgtccaaggtatgaggagtct							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:161561181T>A	uc001gav.2	+	5	738	c.639T>A	c.(637-639)ACT>ACA	p.T213T	FCGR2C_uc009wuj.2_RNA|FCGR2C_uc009wuk.2_RNA	NM_201563	NP_963857			Fc fragment of IgG, low affinity IIc, receptor												0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			TGACCATCACTGTCCAAGGTA	0.532													21	62	---	---	---	---	PASS	A	161561181	A	A	161561181	2	1	58	1	0	0	0	0	0	0	0	1	5783	1567	55	5		5	FCGR2C	1	161561181	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	1	161561181	87689440	112	21487	480	2								
FCRLA	84824	broad.mit.edu	37	chr1	161680596	161680596	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagggacctgtctgcactgaGgagagcagctgccacacgga	15	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:161680596G>T	uc001gbe.2	+	3	437	c.195G>T	c.(193-195)GAG>GAT	p.E65D	FCRLA_uc001gbd.2_Missense_Mutation_p.E59D|FCRLA_uc001gbf.2_Missense_Mutation_p.E59D|FCRLA_uc001gbg.2_Intron|FCRLA_uc009wuo.2_Intron|FCRLA_uc009wup.2_Missense_Mutation_p.E59D|FCRLA_uc009wuq.2_Intron	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	42					cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			TCTGCACTGAGGAGAGCAGCT	0.537													25	67	---	---	---	---	PASS	T	161680596	T	T	161680596	3	4	58	1	0	0	0	0	1	0	0	0	5800	991	35	3	205	3	FCRLA	1	161680596	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	119415	161680596	87570025	113	21488										
ADCY10	55811	broad.mit.edu	37	chr1	167793991	167793991	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccctcgcctttcagggggaGgttgaagatgtgctccatgg	15	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:167793991G>T	uc001ger.2	-	27	4151	c.3853C>A	c.(3853-3855)CTC>ATC	p.L1285I	ADCY10_uc009wvj.2_RNA|ADCY10_uc009wvk.2_Missense_Mutation_p.L1193I|ADCY10_uc010plj.1_Missense_Mutation_p.L1132I	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	1285					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						TTCAGGGGGAGGTTGAAGATG	0.488													88	217	---	---	---	---	PASS	T	167793991	T	T	167793991	3	4	58	1	0	0	0	0	1	0	0	0	293	1000	35	3	1007	3	ADCY10	1	167793991	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6113395	167793991	81456630	114	21489										
DCAF6	55827	broad.mit.edu	37	chr1	168012380	168012380	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaaggagacagtgaaacaagTaaggtgttattttgcttttg	12	3	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:168012380T>A	uc001gew.2	+	12	1854	c.1612_splice	c.e12+2	p.K538_splice	DCAF6_uc001gev.2_Splice_Site_p.K558_splice|DCAF6_uc001gex.2_Splice_Site_p.K615_splice|DCAF6_uc010plk.1_Splice_Site_p.K584_splice|DCAF6_uc001gey.2_Splice_Site_p.K411_splice|DCAF6_uc001gez.2_Splice_Site	NM_001017977	NP_001017977	Q58WW2	DCAF6_HUMAN	IQ motif and WD repeats 1 isoform b						positive regulation of transcription from RNA polymerase II promoter	CUL4 RING ubiquitin ligase complex|nucleus	ligand-dependent nuclear receptor transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GTGAAACAAGTAAGGTGTTAT	0.398													14	22	---	---	---	---	PASS	A	168012380	A	A	168012380	5	1	58	1	0	0	0	0	0	0	1	0	4274	1652	57	5	1724	5	DCAF6	1	168012380	Splice_Site	SNP	T	TCGA-33-4566-01A-01D-1441-08	218389	168012380	81238241	115	21490										
F5	2153	broad.mit.edu	37	chr1	169511512	169511512	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcccaaccaaaatcttagatGagttactttgttttaagagt	6	7	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:169511512G>T	uc001ggg.1	-	13	2961	c.2816C>A	c.(2815-2817)TCA>TAA	p.S939*		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	939	B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	AATCTTAGATGAGTTACTTTG	0.448													74	154	---	---	---	---	PASS	T	169511512	T	T	169511512	4	4	58	1	0	0	0	0	0	1	0	0	5348	1294	45	2	3910	2	F5	1	169511512	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1499132	169511512	79739109	116	21491										
PRRX1	5396	broad.mit.edu	37	chr1	170695457	170695457	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcaaatcctactcaggagacGtgactgctgtggagcagccc	11	12	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:170695457G>T	uc001ghf.2	+	3	561	c.514G>T	c.(514-516)GTG>TTG	p.V172L	PRRX1_uc001ghe.2_Missense_Mutation_p.V172L	NM_022716	NP_073207	P54821	PRRX1_HUMAN	paired mesoderm homeobox 1 isoform pmx-1b	172						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CTCAGGAGACGTGACTGCTGT	0.562													40	73	---	---	---	---	PASS	T	170695457	T	T	170695457	3	4	58	1	0	0	0	0	1	0	0	0	12612	1145	40	1	524	1	PRRX1	1	170695457	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1183945	170695457	78555164	117	21492										
FMO3	2328	broad.mit.edu	37	chr1	171086461	171086461	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	actgacccagtgggaccggtCgttgaaacccatgcagacac	11	13	0	3	rs61008738	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:171086461C>A	uc001ghi.2	+	9	1589	c.1478C>A	c.(1477-1479)TCG>TAG	p.S493*	FMO3_uc001ghh.2_Nonsense_Mutation_p.S493*|FMO3_uc010pmb.1_Nonsense_Mutation_p.S473*|FMO3_uc010pmc.1_Nonsense_Mutation_p.S430*	NM_001002294	NP_001002294	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	493					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TGGGACCGGTCGTTGAAACCC	0.517													64	84	---	---	---	---	PASS	A	171086461	A	A	171086461	4	1	58	1	0	0	0	0	0	1	0	0	5956	893	31	2	1508	2	FMO3	1	171086461	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	391004	171086461	78164160	118	21493										
DNM3	26052	broad.mit.edu	37	chr1	171810835	171810835	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaggagctgatcccgctggtGaaccgtctgcaggacgcgtt	15	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:171810835G>T	uc001gie.2	+	1	215	c.39G>T	c.(37-39)GTG>GTT	p.V13V	DNM3_uc001gid.3_Silent_p.V13V|DNM3_uc009wwb.2_Silent_p.V13V|DNM3_uc001gif.2_Silent_p.V13V	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	13					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						TCCCGCTGGTGAACCGTCTGC	0.687													7	6	---	---	---	---	PASS	T	171810835	T	T	171810835	2	4	58	1	0	0	0	0	0	0	0	1	4673	1277	45	2		2	DNM3	1	171810835	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	724374	171810835	77439786	119	21494										
SLC9A11	284525	broad.mit.edu	37	chr1	173545879	173545879	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agcggctaaggcaagagtgcCtgacattcctaaaaattcca	9	10	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:173545879C>A	uc001giz.2	-	8	1246	c.823G>T	c.(823-825)GGC>TGC	p.G275C	SLC9A11_uc009wwe.2_Translation_Start_Site|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	275					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						GCAAGAGTGCCTGACATTCCT	0.353													17	56	---	---	---	---	PASS	A	173545879	A	A	173545879	3	1	58	1	0	0	0	0	1	0	0	0	14711	681	24	3	2635	3	SLC9A11	1	173545879	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1735044	173545879	75704742	120	21495										
TNR	7143	broad.mit.edu	37	chr1	175355325	175355325	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcccaccttccccgcccacCaggccatatttcaaaagaat	4	18	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:175355325C>A	uc001gkp.1	-	6	1701	c.1620G>T	c.(1618-1620)CTG>CTT	p.L540L	TNR_uc009wwu.1_Silent_p.L540L	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	540	Fibronectin type-III 3.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CCCCGCCCACCAGGCCATATT	0.597													32	52	---	---	---	---	PASS	A	175355325	A	A	175355325	2	1	58	1	0	0	0	0	0	0	0	1	16335	581	21	3		3	TNR	1	175355325	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1809446	175355325	73895296	121	21496										
RASAL2	9462	broad.mit.edu	37	chr1	178414797	178414797	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtatcttcatgacgcactgGgtatgaaagagaaaaacatc	9	7	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:178414797G>T	uc001glr.2	+	7	1308	c.1183G>T	c.(1183-1185)GGG>TGG	p.G395W	RASAL2_uc001glq.2_Missense_Mutation_p.G543W	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	395	Ras-GAP.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						TGACGCACTGGGTATGAAAGA	0.373													43	84	---	---	---	---	PASS	T	178414797	T	T	178414797	3	4	58	1	0	0	0	0	1	0	0	0	13064	1246	43	3	1678	3	RASAL2	1	178414797	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3059472	178414797	70835824	122	21497										
TDRD5	163589	broad.mit.edu	37	chr1	179599950	179599950	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaaattaggcttcttaaatGtgacagaacttgttggagct	9	5	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:179599950G>C	uc001gnf.1	+	7	1271	c.1021G>C	c.(1021-1023)GTG>CTG	p.V341L	TDRD5_uc010pnp.1_Missense_Mutation_p.V341L|TDRD5_uc001gnh.1_5'UTR	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	341	Lotus/OST-HTH 3.				DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						CTTCTTAAATGTGACAGAACT	0.353													55	105	---	---	---	---	PASS	C	179599950	C	C	179599950	3	2	58	1	0	0	0	0	1	0	0	0	15730	1377	48	4	1043	4	TDRD5	1	179599950	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1185153	179599950	69650671	123	21498										
CEP350	9857	broad.mit.edu	37	chr1	179983075	179983075	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acgttcgagaagtaaatctcGgtctgaaaataatataaaga	8	5	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:179983075G>T	uc001gnt.2	+	10	1870	c.1487G>T	c.(1486-1488)CGG>CTG	p.R496L	CEP350_uc009wxl.2_Missense_Mutation_p.R495L|CEP350_uc001gnu.2_Missense_Mutation_p.R330L	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	496						centrosome|nucleus|spindle				ovary(4)	4						AGTAAATCTCGGTCTGAAAAT	0.373													61	86	---	---	---	---	PASS	T	179983075	T	T	179983075	3	4	58	1	0	0	0	0	1	0	0	0	3254	1116	39	1	1521	1	CEP350	1	179983075	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	383125	179983075	69267546	124	21499										
CEP350	9857	broad.mit.edu	37	chr1	180047715	180047715	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtaccatccgagtctatagGacaggagcagccagggagtc	13	10	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:180047715G>T	uc001gnt.2	+	29	6268	c.5885G>T	c.(5884-5886)GGA>GTA	p.G1962V	CEP350_uc009wxl.2_Missense_Mutation_p.G1961V|CEP350_uc001gnv.2_Missense_Mutation_p.G97V	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1962						centrosome|nucleus|spindle				ovary(4)	4						GAGTCTATAGGACAGGAGCAG	0.428													9	30	---	---	---	---	PASS	T	180047715	T	T	180047715	3	4	58	1	0	0	0	0	1	0	0	0	3254	1174	41	2	5995	2	CEP350	1	180047715	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	64640	180047715	69202906	125	21500										
KIAA1614	57710	broad.mit.edu	37	chr1	180886163	180886163	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgttgctgcaggagatgctCaacgtttctgggcagagccc	13	11	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:180886163C>A	uc001gok.2	+	2	991	c.924C>A	c.(922-924)CTC>CTA	p.L308L		NM_020950	NP_066001	Q5VZ46	K1614_HUMAN	hypothetical protein LOC57710	308										ovary(3)|skin(1)	4						AGGAGATGCTCAACGTTTCTG	0.622													35	65	---	---	---	---	PASS	A	180886163	A	A	180886163	2	1	58	1	0	0	0	0	0	0	0	1	8248	813	29	2		2	KIAA1614	1	180886163	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	838448	180886163	68364458	126	21501										
HMCN1	83872	broad.mit.edu	37	chr1	186157125	186157125	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgtccacccaactaccaaCgggatcctgtttcagggtat	8	14	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:186157125C>A	uc001grq.1	+	106	16754	c.16525C>A	c.(16525-16527)CGG>AGG	p.R5509R	HMCN1_uc001grs.1_Silent_p.R961R	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5509					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CAACTACCAACGGGATCCTGT	0.483													37	122	---	---	---	---	PASS	A	186157125	A	A	186157125	2	1	58	1	0	0	0	0	0	0	0	1	7220	527	19	1		1	HMCN1	1	186157125	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	5270962	186157125	63093496	127	21502										
PRG4	10216	broad.mit.edu	37	chr1	186276374	186276374	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cactcccaaggagcctgcacCcaccaccaccaaggagcctt	7	19	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:186276374C>A	uc001gru.3	+	7	1574	c.1523C>A	c.(1522-1524)CCC>CAC	p.P508H	PRG4_uc001grt.3_Missense_Mutation_p.P467H|PRG4_uc009wyl.2_Missense_Mutation_p.P415H|PRG4_uc009wym.2_Missense_Mutation_p.P374H|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	508	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|21.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GAGCCTGCACCCACCACCACC	0.647													51	110	---	---	---	---	PASS	A	186276374	A	A	186276374	3	1	58	1	0	0	0	0	1	0	0	0	12481	623	22	3	1545	3	PRG4	1	186276374	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	119249	186276374	62974247	128	21503										
TPR	7175	broad.mit.edu	37	chr1	186312594	186312594	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttcagcaatttctttttctCgtcgtataaatctacaaaaa	3	8	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:186312594C>T	uc001grv.2	-	27	3911	c.3614G>A	c.(3613-3615)CGA>CAA	p.R1205Q		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1205					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	p.R1205*(1)		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)		TTCTTTTTCTCGTCGTATAAA	0.338			T	NTRK1	papillary thyroid								50	89	---	---	---	---	PASS	T	186312594	T	T	186312594	3	4	58	1	0	0	0	0	1	0	0	0	16413	884	31	2	3577	2	TPR	1	186312594	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	36220	186312594	62938027	129	21504										
PLA2G4A	5321	broad.mit.edu	37	chr1	186925314	186925314	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atcgtatgataatggccttgGtgagtgattcagctttattc	10	6	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:186925314G>T	uc001gsc.2	+	14	1622	c.1417G>T	c.(1417-1419)GTG>TTG	p.V473L	PLA2G4A_uc010pos.1_Missense_Mutation_p.V413L	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	473	PLA2c.				phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	AATGGCCTTGGTGAGTGATTC	0.413													41	56	---	---	---	---	PASS	T	186925314	T	T	186925314	3	4	58	1	0	0	0	0	1	0	0	0	12001	1261	44	3	1467	3	PLA2G4A	1	186925314	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	612720	186925314	62325307	130	21505										
FAM5C	339479	broad.mit.edu	37	chr1	190129813	190129813	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttacctttgtcttggcaggCtgatgaggggttgtttatga	13	6	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:190129813C>A	uc001gse.1	-	7	1401	c.1169G>T	c.(1168-1170)AGC>ATC	p.S390I	FAM5C_uc010pot.1_Missense_Mutation_p.S288I	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	390						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TCTTGGCAGGCTGATGAGGGG	0.378													58	112	---	---	---	---	PASS	A	190129813	A	A	190129813	3	1	58	1	0	0	0	0	1	0	0	0	5594	797	28	3	1139	3	FAM5C	1	190129813	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3204499	190129813	59120808	131	21506										
KCNT2	343450	broad.mit.edu	37	chr1	196577354	196577354	+	Frame_Shift_Del	DEL	T	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acaccactcacctgtcgtcgTtttgccatccttggtcccct							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:196577354delT	uc001gtd.1	-	1	146	c.86delA	c.(85-87)AACfs	p.N29fs	KCNT2_uc001gte.1_Frame_Shift_Del_p.N29fs|KCNT2_uc001gtf.1_Frame_Shift_Del_p.N29fs|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Frame_Shift_Del_p.N29fs|KCNT2_uc009wyv.1_Frame_Shift_Del_p.N29fs	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	29	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						CCTGTCGTCGTTTTGCCATCC	0.517													158	73	---	---	---	---		-	196577354	-	-	196577354	7	5	58	1	0	1	0	1	0	0	0	0	8092	1725	60	0	3433	0	KCNT2	1	196577354	Frame_Shift_Del	DEL	T	TCGA-33-4566-01A-01D-1441-08	6447541	196577354	52673267	132	21507										
ZBTB41	360023	broad.mit.edu	37	chr1	197160934	197160934	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	actgtgcttctttctgtgaaCagttaggttagactttgttg	10	6	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:197160934C>A	uc001gtx.1	-	2	1285	c.1216G>T	c.(1216-1218)GTT>TTT	p.V406F	ZBTB41_uc009wyz.1_RNA	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	406	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TTTCTGTGAACAGTTAGGTTA	0.398													35	59	---	---	---	---	PASS	A	197160934	A	A	197160934	3	1	58	1	0	0	0	0	1	0	0	0	17540	478	17	3	1549	3	ZBTB41	1	197160934	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	583580	197160934	52089687	133	21508										
CRB1	23418	broad.mit.edu	37	chr1	197403947	197403947	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggtttcagaacaagggatgCaaatgtaataatattgcatg	10	4	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:197403947C>A	uc001gtz.2	+	9	3089	c.2954C>A	c.(2953-2955)GCA>GAA	p.A985E	CRB1_uc010poz.1_Missense_Mutation_p.A961E|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.A873E|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.A466E|CRB1_uc001gub.1_Missense_Mutation_p.A634E	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	985	Extracellular (Potential).|Laminin G-like 3.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						ACAAGGGATGCAAATGTAATA	0.338													55	130	---	---	---	---	PASS	A	197403947	A	A	197403947	3	1	58	1	0	0	0	0	1	0	0	0	3848	710	25	3	2988	3	CRB1	1	197403947	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	243013	197403947	51846674	134	21509										
GPR25	2848	broad.mit.edu	37	chr1	200842988	200842988	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acctggcgcgtctgggggcgCtgccgctgccgtgccccctg	16	17	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:200842988C>A	uc001gvn.1	+	1	823	c.823C>A	c.(823-825)CTG>ATG	p.L275M		NM_005298	NP_005289	O00155	GPR25_HUMAN	G protein-coupled receptor 25	275	Extracellular (Potential).					integral to plasma membrane				ovary(1)	1						TCTGGGGGCGCTGCCGCTGCC	0.692													17	13	---	---	---	---	PASS	A	200842988	A	A	200842988	3	1	58	1	0	0	0	0	1	0	0	0	6683	796	28	3	825	3	GPR25	1	200842988	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3439041	200842988	48407633	135	21510										
KIF21B	23046	broad.mit.edu	37	chr1	200946404	200946404	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagcatggtgcccgaagggcTgagggcgatctggttgatct	16	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:200946404T>A	uc001gvs.1	-	31	4578	c.4261A>T	c.(4261-4263)AGC>TGC	p.S1421C	KIF21B_uc001gvr.1_Missense_Mutation_p.S1408C|KIF21B_uc009wzl.1_Missense_Mutation_p.S1421C|KIF21B_uc010ppn.1_Missense_Mutation_p.S1408C	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	1421	WD 3.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						CCCGAAGGGCTGAGGGCGATC	0.647													74	144	---	---	---	---	PASS	A	200946404	A	A	200946404	3	1	58	1	0	0	0	0	1	0	0	0	8289	1580	55	5	672	5	KIF21B	1	200946404	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	103416	200946404	48304217	136	21511										
SYT2	127833	broad.mit.edu	37	chr1	202573743	202573743	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caatggcgatcagtgcccagGgtggtactgcccacacagag	13	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:202573743G>T	uc001gye.2	-	3	378	c.185C>A	c.(184-186)CCC>CAC	p.P62H	SYT2_uc010pqb.1_Missense_Mutation_p.P62H|SYT2_uc009xaf.2_Intron	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	62	Vesicular (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	CAGTGCCCAGGGTGGTACTGC	0.517													16	36	---	---	---	---	PASS	T	202573743	T	T	202573743	3	4	58	1	0	0	0	0	1	0	0	0	15471	1232	43	3	1102	3	SYT2	1	202573743	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1627339	202573743	46676878	137	21512										
PPFIA4	8497	broad.mit.edu	37	chr1	203037726	203037726	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaccacaacacactggccctGatcctccagatccccacaca	5	19	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:203037726G>T	uc001gyz.2	+	14	2369	c.1776G>T	c.(1774-1776)CTG>CTT	p.L592L	PPFIA4_uc009xaj.2_Silent_p.L1223L|PPFIA4_uc010pqf.1_Silent_p.L805L|PPFIA4_uc001gza.2_Silent_p.L583L|PPFIA4_uc001gzb.1_Silent_p.L278L|PPFIA4_uc001gzc.1_Silent_p.L134L	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	592	SAM 3.				cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						CACTGGCCCTGATCCTCCAGA	0.552													10	11	---	---	---	---	PASS	T	203037726	T	T	203037726	2	4	58	1	0	0	0	0	0	0	0	1	12312	1277	45	2		2	PPFIA4	1	203037726	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	463983	203037726	46212895	138	21513										
CHIT1	1118	broad.mit.edu	37	chr1	203186086	203186086	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggcagctttgctggaacagCcgccccgctgcacagctgta	13	14	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:203186086C>G	uc001gzn.2	-	11	1428	c.1332G>C	c.(1330-1332)CGG>CGC	p.R444R	FMOD_uc010pqi.1_Intron|CHIT1_uc001gzm.1_Intron|CHIT1_uc009xal.1_Silent_p.R206R|CHIT1_uc009xam.1_RNA|CHIT1_uc009xan.1_RNA|CHIT1_uc001gzo.2_Silent_p.R435R	NM_003465	NP_003456	Q13231	CHIT1_HUMAN	chitotriosidase precursor	444	Chitin-binding type-2.				chitin catabolic process|immune response|response to bacterium	extracellular space|lysosome	cation binding|chitin binding|endochitinase activity				0						GCTGGAACAGCCGCCCCGCTG	0.597											OREG0014113	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	63	148	---	---	---	---	PASS	G	203186086	G	G	203186086	2	3	58	1	0	0	0	0	0	0	0	1	3346	726	26	4		4	CHIT1	1	203186086	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	148360	203186086	46064535	139	21514										
NFASC	23114	broad.mit.edu	37	chr1	204943341	204943341	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgctgtcgccccggaaccaGctcattcgagtgattcttta	9	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:204943341G>C	uc001hbj.2	+	13	1642	c.1314G>C	c.(1312-1314)CAG>CAC	p.Q438H	NFASC_uc001hbh.2_Missense_Mutation_p.Q438H|NFASC_uc010pqz.1_Missense_Mutation_p.Q432H|NFASC_uc010pra.1_Missense_Mutation_p.Q449H|NFASC_uc001hbi.2_Missense_Mutation_p.Q449H|NFASC_uc009xbg.1_Missense_Mutation_p.Q522H|NFASC_uc010prb.1_Missense_Mutation_p.Q449H|NFASC_uc010prc.1_5'UTR|NFASC_uc001hbk.1_Missense_Mutation_p.Q259H	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	438	Extracellular (Potential).|Ig-like C2-type 5.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			CCCGGAACCAGCTCATTCGAG	0.557													21	41	---	---	---	---	PASS	C	204943341	C	C	204943341	3	2	58	1	0	0	0	0	1	0	0	0	10359	962	34	4	1411	4	NFASC	1	204943341	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1757255	204943341	44307280	140	21515										
CNTN2	6900	broad.mit.edu	37	chr1	205033820	205033820	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcagatgaaggcaaatacacCtgctttgctgagaacttcat	8	9	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:205033820C>G	uc001hbr.2	+	12	1730	c.1461C>G	c.(1459-1461)ACC>ACG	p.T487T	CNTN2_uc001hbq.1_Silent_p.T378T|CNTN2_uc001hbs.2_Silent_p.T275T	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	487	Ig-like C2-type 5.				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)			GCAAATACACCTGCTTTGCTG	0.542													33	195	---	---	---	---	PASS	G	205033820	G	G	205033820	2	3	58	1	0	0	0	0	0	0	0	1	3641	668	24	4		4	CNTN2	1	205033820	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	90479	205033820	44216801	141	21516										
CR1	1378	broad.mit.edu	37	chr1	207753697	207753697	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagcctggctatgacctcagAggggctgcgtctctgcactg	14	12	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:207753697A>T	uc001hfy.2	+	22	3839	c.3699A>T	c.(3697-3699)AGA>AGT	p.R1233S	CR1_uc009xcl.1_Missense_Mutation_p.R783S|CR1_uc001hfx.2_Missense_Mutation_p.R1683S	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1233	Extracellular (Potential).|Sushi 19.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						ATGACCTCAGAGGGGCTGCGT	0.562													91	172	---	---	---	---	PASS	T	207753697	T	T	207753697	3	4	58	1	0	0	0	0	1	0	0	0	3840	301	11	5	5167	5	CR1	1	207753697	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	2719877	207753697	41496924	142	21517										
LAMB3	3914	broad.mit.edu	37	chr1	209799241	209799241	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggtggcaggccacgcacacCgggtagcgattacagtagcc	15	12	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:209799241C>A	uc001hhg.2	-	13	2118	c.1728G>T	c.(1726-1728)CCG>CCT	p.P576P	LAMB3_uc009xco.2_Silent_p.P576P|LAMB3_uc001hhh.2_Silent_p.P576P|LAMB3_uc010psl.1_Intron|hsa-mir-4260|MI0015859_5'Flank	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	576	Laminin EGF-like 6.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		CCACGCACACCGGGTAGCGAT	0.677													16	19	---	---	---	---	PASS	A	209799241	A	A	209799241	2	1	58	1	0	0	0	0	0	0	0	1	8612	639	23	1		1	LAMB3	1	209799241	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2045544	209799241	39451380	143	21518										
TRAF3IP3	80342	broad.mit.edu	37	chr1	209933636	209933636	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagcgcagcatccccaggcCagggagcaagggccctccag	13	15	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:209933636C>A	uc001hho.2	+	3	542	c.252C>A	c.(250-252)GCC>GCA	p.A84A	TRAF3IP3_uc001hhl.2_Silent_p.A84A|TRAF3IP3_uc001hhm.1_Silent_p.A84A|TRAF3IP3_uc001hhn.2_Silent_p.A84A|TRAF3IP3_uc009xcr.2_Silent_p.A84A	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	84	Cytoplasmic (Potential).					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		ATCCCCAGGCCAGGGAGCAAG	0.602													18	39	---	---	---	---	PASS	A	209933636	A	A	209933636	2	1	58	1	0	0	0	0	0	0	0	1	16439	581	21	3		3	TRAF3IP3	1	209933636	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	134395	209933636	39316985	144	21519										
IRF6	3664	broad.mit.edu	37	chr1	209965773	209965773	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggctggcgccatgggagaacCtaaaacaaaagcatatggtg	13	8	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:209965773C>A	uc001hhq.1	-	6	772	c.509_splice	c.e6-1	p.G170_splice	IRF6_uc010psm.1_Splice_Site_p.G75_splice|IRF6_uc009xct.1_Splice_Site_p.G170_splice	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6						cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		ATGGGAGAACCTAAAACAAAA	0.537										HNSCC(57;0.16)			21	44	---	---	---	---	PASS	A	209965773	A	A	209965773	5	1	58	1	0	0	0	0	0	0	1	0	7834	695	24	3	911	3	IRF6	1	209965773	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	32137	209965773	39284848	145	21520										
SYT14	255928	broad.mit.edu	37	chr1	210334354	210334354	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagagtcaaaaggacagcaAgtatgtagatggcatgcgtt	12	5	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:210334354A>G	uc009xcv.2	+	8	1707	c.1635A>G	c.(1633-1635)CAA>CAG	p.Q545Q	SYT14_uc001hhs.3_Silent_p.Q609Q|SYT14_uc001hht.3_Silent_p.Q564Q|SYT14_uc001hhu.3_RNA|SYT14_uc010psn.1_Silent_p.Q590Q|SYT14_uc010pso.1_Silent_p.Q507Q|SYT14_uc010psp.1_Silent_p.Q83Q	NM_153262	NP_694994	Q8NB59	SYT14_HUMAN	synaptotagmin XIV isoform 4	545	Cytoplasmic (Potential).					integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)		AAGGACAGCAAGTATGTAGAT	0.388													51	111	---	---	---	---	PASS	G	210334354	G	G	210334354	2	3	58	1	0	0	0	0	0	0	0	1	15467	69	3	5		5	SYT14	1	210334354	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	368581	210334354	38916267	146	21521										
KCNH1	3756	broad.mit.edu	37	chr1	210948806	210948806	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gatcacatgcagatcacagtAggtcaaggccctaacattgg	10	10	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:210948806A>T	uc001hib.2	-	10	2166	c.1996T>A	c.(1996-1998)TAC>AAC	p.Y666N	KCNH1_uc001hic.2_Missense_Mutation_p.Y639N	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	666	Cytoplasmic (Potential).|cNMP.				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		AGATCACAGTAGGTCAAGGCC	0.517													50	94	---	---	---	---	PASS	T	210948806	T	T	210948806	3	4	58	1	0	0	0	0	1	0	0	0	8031	420	15	5	981	5	KCNH1	1	210948806	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	614452	210948806	38301815	147	21522										
FAM71A	149647	broad.mit.edu	37	chr1	212799154	212799154	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggacaggtgagcgcagccaTagctggggcggccaccatcg	16	12	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:212799154T>C	uc001hjk.2	+	1	1339	c.935T>C	c.(934-936)ATA>ACA	p.I312T	uc010pth.1_RNA	NM_153606	NP_705834	Q8IYT1	FA71A_HUMAN	hypothetical protein LOC149647	312	Ala-rich.									skin(3)|ovary(1)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00631)|all cancers(67;0.00981)|GBM - Glioblastoma multiforme(131;0.0715)|Epithelial(68;0.094)		AGCGCAGCCATAGCTGGGGCG	0.478													14	30	---	---	---	---	PASS	C	212799154	C	C	212799154	3	2	58	1	0	0	0	0	1	0	0	0	5607	1406	49	5	937	5	FAM71A	1	212799154	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1850348	212799154	36451467	148	21523										
PTPN14	5784	broad.mit.edu	37	chr1	214556843	214556843	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gacatgctgatggccttggcTggcccatgcctcagcaccct	11	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:214556843T>A	uc001hkk.1	-	13	2626	c.2355A>T	c.(2353-2355)CCA>CCT	p.P785P	PTPN14_uc010pty.1_Silent_p.P686P	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	785					lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		TGGCCTTGGCTGGCCCATGCC	0.647													45	60	---	---	---	---	PASS	A	214556843	A	A	214556843	2	1	58	1	0	0	0	0	0	0	0	1	12783	1567	55	5		5	PTPN14	1	214556843	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	1757689	214556843	34693778	149	21524										
USH2A	7399	broad.mit.edu	37	chr1	215844504	215844504	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagaaacagttggctggaatCctcctggagccatttgtacc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:215844504C>A	uc001hku.1	-	64	14330	c.13943G>T	c.(13942-13944)GGA>GTA	p.G4648V		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4648	Fibronectin type-III 32.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGGCTGGAATCCTCCTGGAGC	0.468										HNSCC(13;0.011)			78	173	---	---	---	---	PASS	A	215844504	A	A	215844504	3	1	58	1	0	0	0	0	1	0	0	0	17033	855	30	2	1701	2	USH2A	1	215844504	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1287661	215844504	33406117	150	21525	481	2								
USH2A	7399	broad.mit.edu	37	chr1	215844505	215844505	+	Missense_Mutation	SNP	C	G	G													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agaaacagttggctggaatcCtcctggagccatttgtacct							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:215844505C>G	uc001hku.1	-	64	14329	c.13942G>C	c.(13942-13944)GGA>CGA	p.G4648R		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4648	Fibronectin type-III 32.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GGCTGGAATCCTCCTGGAGCC	0.473										HNSCC(13;0.011)			80	172	---	---	---	---	PASS	G	215844505	G	G	215844505	3	3	58	1	0	0	0	0	1	0	0	0	17033	690	24	4	1702	4	USH2A	1	215844505	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1	215844505	33406116	151	21526	481	2								
USH2A	7399	broad.mit.edu	37	chr1	215847647	215847647	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcctgcaattttggaggttCcatccctgagggtgctgagg	15	9	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:215847647C>T	uc001hku.1	-	63	13993	c.13606G>A	c.(13606-13608)GAA>AAA	p.E4536K		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4536	Fibronectin type-III 31.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTTGGAGGTTCCATCCCTGAG	0.493										HNSCC(13;0.011)			72	163	---	---	---	---	PASS	T	215847647	T	T	215847647	3	4	58	1	0	0	0	0	1	0	0	0	17033	864	30	2	2042	2	USH2A	1	215847647	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3142	215847647	33402974	152	21527										
USH2A	7399	broad.mit.edu	37	chr1	215847895	215847895	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgattctgagcctgtgactTgcaatgttggagagtccatg	12	7	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:215847895T>A	uc001hku.1	-	63	13745	c.13358A>T	c.(13357-13359)CAA>CTA	p.Q4453L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4453	Fibronectin type-III 30.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GCCTGTGACTTGCAATGTTGG	0.478										HNSCC(13;0.011)			41	116	---	---	---	---	PASS	A	215847895	A	A	215847895	3	1	58	1	0	0	0	0	1	0	0	0	17033	1812	63	5	2290	5	USH2A	1	215847895	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	248	215847895	33402726	153	21528										
USH2A	7399	broad.mit.edu	37	chr1	215848719	215848719	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atttttccatttgggttaacAggctcagaccagctcagctc	8	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:215848719A>T	uc001hku.1	-	63	12921	c.12534T>A	c.(12532-12534)CCT>CCA	p.P4178P		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4178	Extracellular (Potential).|Fibronectin type-III 27.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTGGGTTAACAGGCTCAGACC	0.502										HNSCC(13;0.011)			56	113	---	---	---	---	PASS	T	215848719	T	T	215848719	2	4	58	1	0	0	0	0	0	0	0	1	17033	175	7	5		5	USH2A	1	215848719	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	824	215848719	33401902	154	21529										
USH2A	7399	broad.mit.edu	37	chr1	215953204	215953204	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgtgaccgtatgctgtctCctgtcagtggtgtcagtgtg	13	10	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:215953204C>A	uc001hku.1	-	55	11307	c.10920G>T	c.(10918-10920)AGG>AGT	p.R3640S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3640	Extracellular (Potential).|Fibronectin type-III 21.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TATGCTGTCTCCTGTCAGTGG	0.493										HNSCC(13;0.011)			51	92	---	---	---	---	PASS	A	215953204	A	A	215953204	3	1	58	1	0	0	0	0	1	0	0	0	17033	854	30	2	4760	2	USH2A	1	215953204	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	104485	215953204	33297417	155	21530										
USH2A	7399	broad.mit.edu	37	chr1	216144085	216144085	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggaattgtggattaatataCcatctagatataatccataa	6	5	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:216144085C>G	uc001hku.1	-	36	7226	c.6839G>C	c.(6838-6840)GGT>GCT	p.G2280A		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2280	Fibronectin type-III 9.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GATTAATATACCATCTAGATA	0.398										HNSCC(13;0.011)			50	152	---	---	---	---	PASS	G	216144085	G	G	216144085	3	3	58	1	0	0	0	0	1	0	0	0	17033	507	18	4	8917	4	USH2A	1	216144085	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	190881	216144085	33106536	156	21531										
ESRRG	2104	broad.mit.edu	37	chr1	216737693	216737693	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atagatcttctccggttcagCcaccaacaaatgtgagacaa	7	11	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:216737693C>G	uc001hkw.1	-	5	896	c.730G>C	c.(730-732)GCT>CCT	p.A244P	ESRRG_uc001hky.1_Missense_Mutation_p.A221P|ESRRG_uc009xdp.1_Missense_Mutation_p.A221P|ESRRG_uc001hkz.1_Missense_Mutation_p.A182P|ESRRG_uc010puc.1_Missense_Mutation_p.A221P|ESRRG_uc001hla.1_Missense_Mutation_p.A221P|ESRRG_uc001hlb.1_Missense_Mutation_p.A221P|ESRRG_uc010pud.1_Missense_Mutation_p.A52P|ESRRG_uc001hlc.1_Missense_Mutation_p.A221P|ESRRG_uc001hld.1_Missense_Mutation_p.A221P|ESRRG_uc001hkx.1_Missense_Mutation_p.A256P|ESRRG_uc009xdo.1_Missense_Mutation_p.A221P|ESRRG_uc001hle.1_Missense_Mutation_p.A221P	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	244					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	TCCGGTTCAGCCACCAACAAA	0.478													33	123	---	---	---	---	PASS	G	216737693	G	G	216737693	3	3	58	1	0	0	0	0	1	0	0	0	5262	739	26	4	658	4	ESRRG	1	216737693	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	593608	216737693	32512928	157	21532										
HLX	3142	broad.mit.edu	37	chr1	221053252	221053252	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctccaacttcagcctctggtCggccgcttactgctcctcgg	9	17	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:221053252C>A	uc001hmv.3	+	1	510	c.53C>A	c.(52-54)TCG>TAG	p.S18*		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	18					cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	p.S18S(1)		ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)		AGCCTCTGGTCGGCCGCTTAC	0.687													6	11	---	---	---	---	PASS	A	221053252	A	A	221053252	4	1	58	1	0	0	0	0	0	1	0	0	7216	893	31	2	55	2	HLX	1	221053252	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4315559	221053252	28197369	158	21533										
DISP1	84976	broad.mit.edu	37	chr1	223168310	223168310	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caattaaatcaatgtgcaatGtagataattccagggtatgt	8	5	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:223168310G>T	uc001hnu.1	+	7	1120	c.973G>T	c.(973-975)GTA>TTA	p.V325L		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	325					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		AATGTGCAATGTAGATAATTC	0.353													84	194	---	---	---	---	PASS	T	223168310	T	T	223168310	3	4	58	1	0	0	0	0	1	0	0	0	4539	1377	48	3	995	3	DISP1	1	223168310	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2115058	223168310	26082311	159	21534										
DISP1	84976	broad.mit.edu	37	chr1	223176710	223176710	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggcttccagcagttgttgtGctgcatgagcggtatcttct	12	9	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:223176710G>A	uc001hnu.1	+	8	2118	c.1971G>A	c.(1969-1971)GTG>GTA	p.V657V		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	657	Helical; (Potential).|SSD.				diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		CAGTTGTTGTGCTGCATGAGC	0.433													71	107	---	---	---	---	PASS	A	223176710	A	A	223176710	2	1	58	1	0	0	0	0	0	0	0	1	4539	1306	46	3		3	DISP1	1	223176710	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	8400	223176710	26073911	160	21535										
TLR5	7100	broad.mit.edu	37	chr1	223285332	223285332	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgaactgtaaagttcccccaGaaggttatatgacaaattga	8	8	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:223285332G>A	uc001hnv.1	-	4	1488	c.1042C>T	c.(1042-1044)CTG>TTG	p.L348L	TLR5_uc001hnw.1_Silent_p.L348L	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	348	Extracellular (Potential).|LRR 7.				cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		AGTTCCCCCAGAAGGTTATAT	0.368													75	152	---	---	---	---	PASS	A	223285332	A	A	223285332	2	1	58	1	0	0	0	0	0	0	0	1	15951	933	33	2		2	TLR5	1	223285332	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	108622	223285332	25965289	161	21536										
LEFTY2	7044	broad.mit.edu	37	chr1	226125383	226125383	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acactcgtaagccaggaagcCcgggggctccagcacccagt	12	15	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:226125383C>A	uc001hpt.1	-	4	939	c.859G>T	c.(859-861)GGC>TGC	p.G287C	LEFTY2_uc010pvk.1_Missense_Mutation_p.G253C|LEFTY2_uc009xek.1_3'UTR	NM_003240	NP_003231	O00292	LFTY2_HUMAN	endometrial bleeding associated factor	287					cell growth|multicellular organismal development|platelet activation|platelet degranulation|transforming growth factor beta receptor signaling pathway	extracellular space|platelet alpha granule lumen	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)					GCCAGGAAGCCCGGGGGCTCC	0.642													13	31	---	---	---	---	PASS	A	226125383	A	A	226125383	3	1	58	1	0	0	0	0	1	0	0	0	8716	623	22	3	245	3	LEFTY2	1	226125383	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2840051	226125383	23125238	162	21537										
C1orf55	163859	broad.mit.edu	37	chr1	226173192	226173192	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agttctgcaacagaggtgaaCgccaataaatctatagtttc	8	8	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:226173192C>G	uc001hpu.3	-	7	1220	c.1167G>C	c.(1165-1167)GCG>GCC	p.A389A	C1orf55_uc001hpv.2_Intron	NM_152608	NP_689821	Q6IQ49	CA055_HUMAN	hypothetical protein LOC163859	389										lung(1)	1	Breast(184;0.197)					CAGAGGTGAACGCCAATAAAT	0.428													47	109	---	---	---	---	PASS	G	226173192	G	G	226173192	2	3	58	1	0	0	0	0	0	0	0	1	2047	523	19	4		4	C1orf55	1	226173192	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	47809	226173192	23077429	163	21538										
C1orf55	163859	broad.mit.edu	37	chr1	226175617	226175617	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcgtttcctggctggctttCctgcagtttggcaacggcaa	12	11	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:226175617C>A	uc001hpu.3	-	6	1167	c.1114G>T	c.(1114-1116)GAA>TAA	p.E372*	C1orf55_uc001hpv.2_Nonsense_Mutation_p.E372*	NM_152608	NP_689821	Q6IQ49	CA055_HUMAN	hypothetical protein LOC163859	372										lung(1)	1	Breast(184;0.197)					GGCTGGCTTTCCTGCAGTTTG	0.418													59	115	---	---	---	---	PASS	A	226175617	A	A	226175617	4	1	58	1	0	0	0	0	0	1	0	0	2047	864	30	2	249	2	C1orf55	1	226175617	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2425	226175617	23075004	164	21539										
PARP1	142	broad.mit.edu	37	chr1	226555963	226555963	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaaagtcgtgggggatcagGgtgtaaaagcgatttgagag	16	5	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:226555963G>A	uc001hqd.3	-	16	2385	c.2214C>T	c.(2212-2214)ACC>ACT	p.T738T		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	738	PARP alpha-helical.				cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		GGGGGATCAGGGTGTAAAAGC	0.567								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					59	93	---	---	---	---	PASS	A	226555963	A	A	226555963	2	1	58	1	0	0	0	0	0	0	0	1	11454	1219	43	3		3	PARP1	1	226555963	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	380346	226555963	22694658	165	21540										
ACTA1	58	broad.mit.edu	37	chr1	229568343	229568343	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tagagggacagcacggcctgGatggccacgtacatggcggg	17	10	0	1	rs121909526		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:229568343G>A	uc001htm.2	-	3	519	c.414C>T	c.(412-414)ATC>ATT	p.I138I		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	138			I -> M (in NEM3; autosomal recessive).		muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	GCACGGCCTGGATGGCCACGT	0.498													33	50	---	---	---	---	PASS	A	229568343	A	A	229568343	2	1	58	1	0	0	0	0	0	0	0	1	191	1164	41	2		2	ACTA1	1	229568343	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	3012380	229568343	19682278	166	21541										
URB2	9816	broad.mit.edu	37	chr1	229770871	229770871	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgtggtagcccagttgtttGaggtcattcacctggccctt	11	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:229770871G>T	uc001hts.1	+	4	647	c.511G>T	c.(511-513)GAG>TAG	p.E171*	URB2_uc009xfd.1_Nonsense_Mutation_p.E171*	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	171						nucleolus				central_nervous_system(2)|ovary(1)	3						CCAGTTGTTTGAGGTCATTCA	0.587													42	68	---	---	---	---	PASS	T	229770871	T	T	229770871	4	4	58	1	0	0	0	0	0	1	0	0	17022	1291	45	2	521	2	URB2	1	229770871	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	202528	229770871	19479750	167	21542										
TTC13	79573	broad.mit.edu	37	chr1	231069608	231069608	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgaaggattcaatagcttcCtataaaaagtgtagagaaaa	8	4	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:231069608C>A	uc001huf.3	-	9	932	c.901_splice	c.e9-1	p.E301_splice	TTC13_uc009xfi.2_Splice_Site_p.E248_splice|TTC13_uc009xfj.2_Splice_Site|TTC13_uc001hug.3_Splice_Site_p.E248_splice|TTC13_uc009xfk.1_Splice_Site_p.E191_splice	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a								binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		CAATAGCTTCCTATAAAAAGT	0.284													19	108	---	---	---	---	PASS	A	231069608	A	A	231069608	5	1	58	1	0	0	0	0	0	0	1	0	16677	695	24	3	1742	3	TTC13	1	231069608	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	1298737	231069608	18181013	168	21543										
DISC1	27185	broad.mit.edu	37	chr1	231829612	231829612	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgcagcgtgctttcggagGcggcggctggcacggaggcc	18	13	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:231829612G>T	uc001huz.2	+	2	161	c.108G>T	c.(106-108)AGG>AGT	p.R36S	TSNAX-DISC1_uc010pwe.1_5'UTR|TSNAX-DISC1_uc010pwf.1_5'UTR|TSNAX-DISC1_uc010pwg.1_Missense_Mutation_p.R25S|TSNAX-DISC1_uc010pwh.1_5'UTR|TSNAX-DISC1_uc010pwi.1_5'UTR|TSNAX-DISC1_uc010pwj.1_Missense_Mutation_p.R25S|TSNAX-DISC1_uc010pwk.1_Missense_Mutation_p.R25S|TSNAX-DISC1_uc010pwl.1_RNA|DISC1_uc010pwo.1_Missense_Mutation_p.R36S|DISC1_uc010pwp.1_Missense_Mutation_p.R36S|DISC1_uc010pwq.1_Missense_Mutation_p.R36S|DISC1_uc010pwr.1_Missense_Mutation_p.R36S|DISC1_uc010pws.1_Missense_Mutation_p.R36S|DISC1_uc010pwt.1_Missense_Mutation_p.R36S|DISC1_uc010pwu.1_Intron|DISC1_uc010pwv.1_RNA|DISC1_uc010pww.1_Missense_Mutation_p.R36S|DISC1_uc010pwx.1_RNA|DISC1_uc010pwy.1_RNA|DISC1_uc010pwz.1_RNA|DISC1_uc010pxa.1_RNA|DISC1_uc001huy.2_Missense_Mutation_p.R36S|DISC1_uc010pxb.1_Missense_Mutation_p.R36S|DISC1_uc010pxc.1_Missense_Mutation_p.R36S|DISC1_uc010pxd.1_5'UTR|DISC1_uc010pxe.1_Missense_Mutation_p.R36S|DISC1_uc009xfr.2_5'UTR|DISC1_uc010pxf.1_Missense_Mutation_p.R36S|DISC1_uc010pxg.1_Missense_Mutation_p.R36S|DISC1_uc010pxh.1_Missense_Mutation_p.R36S|DISC1_uc010pxi.1_RNA|DISC1_uc010pxj.1_5'UTR|DISC1_uc010pxk.1_RNA|DISC1_uc010pxl.1_RNA|DISC1_uc010pxm.1_Missense_Mutation_p.R36S|DISC1_uc010pxn.1_5'UTR|DISC1_uc001hva.2_Missense_Mutation_p.R36S|DISC1_uc010pwm.1_Missense_Mutation_p.R36S|DISC1_uc001hux.1_Missense_Mutation_p.R36S|DISC1_uc001hvc.3_Missense_Mutation_p.R36S|DISC1_uc010pwn.1_Missense_Mutation_p.R36S	NM_018662	NP_061132	Q9NRI5	DISC1_HUMAN	disrupted in schizophrenia 1 isoform L	36	Interaction with MAP1A.				microtubule cytoskeleton organization|neuron migration|positive regulation of neuroblast proliferation|positive regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	centrosome|microtubule	protein binding			skin(1)	1		all_cancers(173;0.0208)|Prostate(94;0.0975)				GCTTTCGGAGGCGGCGGCTGG	0.597													33	64	---	---	---	---	PASS	T	231829612	T	T	231829612	3	4	58	1	0	0	0	0	1	0	0	0	4538	1194	42	3	114	3	DISC1	1	231829612	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	760004	231829612	17421009	169	21544										
EDARADD	128178	broad.mit.edu	37	chr1	236590723	236590723	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gatacaattactttgaactgCccacgaaattcagatatgaa	6	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:236590723C>A	uc001hxu.1	+	4	257	c.192C>A	c.(190-192)TGC>TGA	p.C64*	EDARADD_uc001hxv.1_Nonsense_Mutation_p.C54*	NM_145861	NP_665860	Q8WWZ3	EDAD_HUMAN	EDAR-associated death domain isoform A	64					cell differentiation|signal transduction	cytoplasm					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.0232)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CTTTGAACTGCCCACGAAATT	0.244													20	80	---	---	---	---	PASS	A	236590723	A	A	236590723	4	1	58	1	0	0	0	0	0	1	0	0	4906	747	26	3	241	3	EDARADD	1	236590723	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4761111	236590723	12659898	170	21545										
RYR2	6262	broad.mit.edu	37	chr1	237580371	237580371	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgttcattatgaaggtggcGctgtgtctgttcatgcacgt	12	8	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:237580371G>T	uc001hyl.1	+	11	916	c.796G>T	c.(796-798)GCT>TCT	p.A266S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	266	Cytoplasmic (By similarity).|MIR 3.				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	p.A264T(1)		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)			TGAAGGTGGCGCTGTGTCTGT	0.388													15	46	---	---	---	---	PASS	T	237580371	T	T	237580371	3	4	58	1	0	0	0	0	1	0	0	0	13769	1087	38	1	838	1	RYR2	1	237580371	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	989648	237580371	11670250	171	21546										
RYR2	6262	broad.mit.edu	37	chr1	237729917	237729917	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggaaaggttccgaatcttcCgtgccgagaagacctatgca	12	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:237729917C>A	uc001hyl.1	+	28	3385	c.3265C>A	c.(3265-3267)CGT>AGT	p.R1089S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1089	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)			CCGAATCTTCCGTGCCGAGAA	0.552													40	72	---	---	---	---	PASS	A	237729917	A	A	237729917	3	1	58	1	0	0	0	0	1	0	0	0	13769	652	23	1	3375	1	RYR2	1	237729917	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	149546	237729917	11520704	172	21547										
RYR2	6262	broad.mit.edu	37	chr1	237758948	237758948	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatggcaaggaactgagcacAtactatcaggtacgcggtca	11	9	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:237758948A>G	uc001hyl.1	+	34	4707	c.4587A>G	c.(4585-4587)ACA>ACG	p.T1529T		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1529	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AACTGAGCACATACTATCAGG	0.473													19	38	---	---	---	---	PASS	G	237758948	G	G	237758948	2	3	58	1	0	0	0	0	0	0	0	1	13769	204	8	5		5	RYR2	1	237758948	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	29031	237758948	11491673	173	21548										
RYR2	6262	broad.mit.edu	37	chr1	237813349	237813349	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttctaagggctgttcacttaCcaaagctcagcgggattcca	9	11	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:237813349C>A	uc001hyl.1	+	50	7805	c.7685C>A	c.(7684-7686)ACC>AAC	p.T2562N		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2562	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TGTTCACTTACCAAAGCTCAG	0.403													84	171	---	---	---	---	PASS	A	237813349	A	A	237813349	3	1	58	1	0	0	0	0	1	0	0	0	13769	507	18	3	7883	3	RYR2	1	237813349	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	54401	237813349	11437272	174	21549										
RYR2	6262	broad.mit.edu	37	chr1	237837496	237837496	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gacatcctcaagttcttgcaGatcaatggatatgctgtatc	8	9	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:237837496G>C	uc001hyl.1	+	59	8811	c.8691G>C	c.(8689-8691)CAG>CAC	p.Q2897H	RYR2_uc010pxz.1_5'Flank	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2897	Modulator (Potential).|Cytoplasmic (By similarity).|4 X approximate repeats.|Calmodulin-binding (Potential).|4.				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)			AGTTCTTGCAGATCAATGGAT	0.403													25	39	---	---	---	---	PASS	C	237837496	C	C	237837496	3	2	58	1	0	0	0	0	1	0	0	0	13769	933	33	2	8925	2	RYR2	1	237837496	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	24147	237837496	11413125	175	21550										
RYR2	6262	broad.mit.edu	37	chr1	237947642	237947642	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctcagatctcggagtcggaCttgaacgagaggtcagcgaa	14	9	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:237947642C>A	uc001hyl.1	+	90	12750	c.12630C>A	c.(12628-12630)GAC>GAA	p.D4210E	RYR2_uc010pya.1_Missense_Mutation_p.D625E	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4210					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)			CGGAGTCGGACTTGAACGAGA	0.537													34	73	---	---	---	---	PASS	A	237947642	A	A	237947642	3	1	58	1	0	0	0	0	1	0	0	0	13769	564	20	3	12988	3	RYR2	1	237947642	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	110146	237947642	11302979	176	21551										
RYR2	6262	broad.mit.edu	37	chr1	237972324	237972324	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caccagatatgaaatgtgacGatatgctaacagtaagttca	8	7	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:237972324G>T	uc001hyl.1	+	100	14542	c.14422G>T	c.(14422-14424)GAT>TAT	p.D4808Y	RYR2_uc010pyb.1_Missense_Mutation_p.D241Y	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4808					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)			GAAATGTGACGATATGCTAAC	0.338													114	215	---	---	---	---	PASS	T	237972324	T	T	237972324	3	4	58	1	0	0	0	0	1	0	0	0	13769	1058	37	2	14820	2	RYR2	1	237972324	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	24682	237972324	11278297	177	21552										
ZP4	57829	broad.mit.edu	37	chr1	238053840	238053840	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagctccacggcccacagtgGagcacactggaataatctgg	11	12	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:238053840G>T	uc001hym.2	-	1	96	c.96C>A	c.(94-96)CTC>CTA	p.L32L	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	32	Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			GCCCACAGTGGAGCACACTGG	0.507													27	67	---	---	---	---	PASS	T	238053840	T	T	238053840	2	4	58	1	0	0	0	0	0	0	0	1	18215	1161	41	2		2	ZP4	1	238053840	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	81516	238053840	11196781	178	21553										
ZP4	57829	broad.mit.edu	37	chr1	238053887	238053887	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggcttatgctggccactcaCagcaagagataatgaaacac	9	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:238053887C>A	uc001hym.2	-	1	49	c.49G>T	c.(49-51)GTG>TTG	p.V17L	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	17					acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			TGGCCACTCACAGCAAGAGAT	0.552													18	59	---	---	---	---	PASS	A	238053887	A	A	238053887	3	1	58	1	0	0	0	0	1	0	0	0	18215	478	17	3	1621	3	ZP4	1	238053887	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	47	238053887	11196734	179	21554										
CHRM3	1131	broad.mit.edu	37	chr1	240070879	240070879	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttcggcagctacaatgtttCtcgagcagctggcaatttct	9	10	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:240070879C>A	uc001hyp.2	+	5	907	c.128C>A	c.(127-129)TCT>TAT	p.S43Y		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	43	Extracellular (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	TACAATGTTTCTCGAGCAGCT	0.562													44	114	---	---	---	---	PASS	A	240070879	A	A	240070879	3	1	58	1	0	0	0	0	1	0	0	0	3378	913	32	2	130	2	CHRM3	1	240070879	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2016992	240070879	9179742	180	21555										
EXO1	9156	broad.mit.edu	37	chr1	242052766	242052766	+	Splice_Site	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtattttattgtattttgcaGagattctgaaaagcttcctc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:242052766G>T	uc001hzh.2	+	16	2946	c.2406_splice	c.e16-1	p.K802_splice	EXO1_uc001hzi.2_Intron|EXO1_uc001hzj.2_Splice_Site_p.K802_splice|EXO1_uc009xgq.2_Splice_Site_p.K801_splice	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b						meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			GTATTTTGCAGAGATTCTGAA	0.358								Direct_reversal_of_damage|Editing_and_processing_nucleases					13	106	---	---	---	---	PASS	T	242052766	T	T	242052766	5	4	58	1	0	0	0	0	0	0	1	0	5300	956	33	2	2455	2	EXO1	1	242052766	Splice_Site	SNP	G	TCGA-33-4566-01A-01D-1441-08	1981887	242052766	7197855	181	21556	482	2								
EXO1	9156	broad.mit.edu	37	chr1	242052767	242052767	+	Missense_Mutation	SNP	A	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tattttattgtattttgcagAgattctgaaaagcttcctcc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:242052767A>T	uc001hzh.2	+	16	2946	c.2406A>T	c.(2404-2406)AAA>AAT	p.K802N	EXO1_uc001hzi.2_Splice_Site_p.K802_splice|EXO1_uc001hzj.2_Missense_Mutation_p.K802N|EXO1_uc009xgq.2_Missense_Mutation_p.K801N	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	802	Interaction with MLH1.|Interaction with MSH2.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			TATTTTGCAGAGATTCTGAAA	0.363								Direct_reversal_of_damage|Editing_and_processing_nucleases					14	107	---	---	---	---	PASS	T	242052767	T	T	242052767	3	4	58	1	0	0	0	0	1	0	0	0	5300	318	11	5	2456	5	EXO1	1	242052767	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1	242052767	7197854	182	21557	482	2								
EXO1	9156	broad.mit.edu	37	chr1	242052787	242052787	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agattctgaaaagcttcctcCttgtaagaaacccctgtccc	6	13	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:242052787C>T	uc001hzh.2	+	16	2966	c.2426C>T	c.(2425-2427)CCT>CTT	p.P809L	EXO1_uc001hzi.2_3'UTR|EXO1_uc001hzj.2_Missense_Mutation_p.P809L|EXO1_uc009xgq.2_Missense_Mutation_p.P808L	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	809	Interaction with MLH1.|Interaction with MSH2.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			AAGCTTCCTCCTTGTAAGAAA	0.363								Direct_reversal_of_damage|Editing_and_processing_nucleases					21	122	---	---	---	---	PASS	T	242052787	T	T	242052787	3	4	58	1	0	0	0	0	1	0	0	0	5300	681	24	3	2476	3	EXO1	1	242052787	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	20	242052787	7197834	183	21558										
ADSS	159	broad.mit.edu	37	chr1	244579333	244579333	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acttgtaagcaactccaactTtgatttccgtaaacatgtcc	5	11	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:244579333T>A	uc001iaj.2	-	11	1412	c.1118A>T	c.(1117-1119)AAA>ATA	p.K373I		NM_001126	NP_001117	P30520	PURA2_HUMAN	adenylosuccinate synthase	373					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol|plasma membrane	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(2)|kidney(1)	3	all_cancers(71;2.17e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)	all_cancers(173;0.0896)|all_epithelial(177;0.172)	all cancers(7;9.71e-08)|GBM - Glioblastoma multiforme(7;1.28e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.0014)		L-Aspartic Acid(DB00128)	AACTCCAACTTTGATTTCCGT	0.338													37	87	---	---	---	---	PASS	A	244579333	A	A	244579333	3	1	58	1	0	0	0	0	1	0	0	0	347	1841	64	5	264	5	ADSS	1	244579333	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	2526546	244579333	4671288	184	21559										
CNST	163882	broad.mit.edu	37	chr1	246810488	246810488	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caagtaaagaaagccaacatAcagtggagcccctggggagc	12	10	0	1	rs144281475	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:246810488A>G	uc001ibp.2	+	9	1363	c.985A>G	c.(985-987)ACA>GCA	p.T329A	CNST_uc001ibo.3_Missense_Mutation_p.T329A	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	329					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						AAGCCAACATACAGTGGAGCC	0.433											OREG0014367	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	65	170	---	---	---	---	PASS	G	246810488	G	G	246810488	3	3	58	1	0	0	0	0	1	0	0	0	3634	391	14	5	1015	5	CNST	1	246810488	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	2231155	246810488	2440133	185	21560										
SCCPDH	51097	broad.mit.edu	37	chr1	246929399	246929399	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccccatagctatggttcaggCagccatgactcttctaagtg	9	12	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:246929399C>A	uc001ibr.2	+	11	1489	c.1142C>A	c.(1141-1143)GCA>GAA	p.A381E		NM_016002	NP_057086	Q8NBX0	SCPDH_HUMAN	saccharopine dehydrogenase (putative)	381						midbody	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity			ovary(1)	1	all_cancers(71;6.8e-05)|all_epithelial(71;7.93e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0545)|Lung NSC(105;0.0618)	all_cancers(173;0.0343)	OV - Ovarian serous cystadenocarcinoma(106;0.00323)	GBM - Glioblastoma multiforme(49;0.0896)		ATGGTTCAGGCAGCCATGACT	0.398													68	165	---	---	---	---	PASS	A	246929399	A	A	246929399	3	1	58	1	0	0	0	0	1	0	0	0	13885	710	25	3	1184	3	SCCPDH	1	246929399	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	118911	246929399	2321222	186	21561										
OR2B11	127623	broad.mit.edu	37	chr1	247615153	247615153	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggatgatggcgacgttcccCaacatggccagcacatagga	12	11	0	1	rs35822304		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:247615153C>A	uc010pyx.1	-	1	132	c.132G>T	c.(130-132)TTG>TTT	p.L44F		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	44	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CGACGTTCCCCAACATGGCCA	0.572													71	129	---	---	---	---	PASS	A	247615153	A	A	247615153	3	1	58	1	0	0	0	0	1	0	0	0	10988	593	21	3	824	3	OR2B11	1	247615153	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	685754	247615153	1635468	187	21562										
OR2C3	81472	broad.mit.edu	37	chr1	247694937	247694937	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttcacctccgtgttcctcaGggtgtaaataagtgggttca	10	10	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:247694937G>A	uc009xgy.2	-	2	1239	c.877C>T	c.(877-879)CTG>TTG	p.L293L	C1orf150_uc009xgw.2_Intron|C1orf150_uc001ida.3_Intron|C1orf150_uc001idb.3_Intron|C1orf150_uc009xgx.2_Intron|LOC148824_uc001idd.2_5'Flank	NM_198074	NP_932340	Q8N628	OR2C3_HUMAN	olfactory receptor, family 2, subfamily C,	293	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0242)	OV - Ovarian serous cystadenocarcinoma(106;0.0241)			GTGTTCCTCAGGGTGTAAATA	0.547													30	73	---	---	---	---	PASS	A	247694937	A	A	247694937	2	1	58	1	0	0	0	0	0	0	0	1	10993	991	35	3		3	OR2C3	1	247694937	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	79784	247694937	1555684	188	21563										
OR14A16	284532	broad.mit.edu	37	chr1	247978123	247978123	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tactttttggtgagctttccCtttatcaacatccccagagc	6	12	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:247978123C>A	uc001idm.1	-	1	909	c.909G>T	c.(907-909)AAG>AAT	p.K303N		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGAGCTTTCCCTTTATCAACA	0.338													28	70	---	---	---	---	PASS	A	247978123	A	A	247978123	3	1	58	1	0	0	0	0	1	0	0	0	10945	680	24	3	24	3	OR14A16	1	247978123	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	283186	247978123	1272498	189	21564										
OR11L1	391189	broad.mit.edu	37	chr1	248004856	248004856	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtcataggccatgaaggccaGgagaaagcactcggtggcgc	15	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:248004856G>T	uc001idn.1	-	1	343	c.343C>A	c.(343-345)CTG>ATG	p.L115M		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			ATGAAGGCCAGGAGAAAGCAC	0.602													8	23	---	---	---	---	PASS	T	248004856	T	T	248004856	3	4	58	1	0	0	0	0	1	0	0	0	10930	991	35	3	629	3	OR11L1	1	248004856	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	26733	248004856	1245765	190	21565										
TRIM58	25893	broad.mit.edu	37	chr1	248028214	248028214	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agctgcaggagaggtgccagCgcccggccctgggtctgctg	17	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:248028214C>G	uc001ido.2	+	3	772	c.724C>G	c.(724-726)CGC>GGC	p.R242G		NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	242	Potential.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GAGGTGCCAGCGCCCGGCCCT	0.627													4	12	---	---	---	---	PASS	G	248028214	G	G	248028214	3	3	58	1	0	0	0	0	1	0	0	0	16528	768	27	4	734	4	TRIM58	1	248028214	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	23358	248028214	1222407	191	21566										
OR2W3	343171	broad.mit.edu	37	chr1	248039289	248039289	+	Translation_Start_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcaggatggagaaccatggaGggatgtccccaacaaccctg	13	11	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:248039289G>T	uc001idp.1	+	2	189	c.-80G>T	c.(-82--78)GAGGG>GATGG		TRIM58_uc001ido.2_Missense_Mutation_p.R320M	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GAACCATGGAGGGATGTCCCC	0.582													28	79	---	---	---	---	PASS	T	248039289	T	T	248039289	1	4	58	1	0	0	0	0	0	0	0	0	11033	1000	35	3		3	OR2W3	1	248039289	Translation_Start_Site	SNP	G	TCGA-33-4566-01A-01D-1441-08	11075	248039289	1211332	192	21567										
OR2AK2	391191	broad.mit.edu	37	chr1	248129078	248129078	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtcaccctttacattatcctAtgcttatgagcaagaagatc	6	10	1	3	rs140557072		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:248129078A>T	uc010pzd.1	+	1	445	c.445A>T	c.(445-447)ATG>TTG	p.M149L	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	149	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			ACATTATCCTATGCTTATGAG	0.433													141	275	---	---	---	---	PASS	T	248129078	T	T	248129078	3	4	58	1	0	0	0	0	1	0	0	0	10986	449	16	5	447	5	OR2AK2	1	248129078	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	89789	248129078	1121543	193	21568										
OR2T33	391195	broad.mit.edu	37	chr1	248436847	248436847	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acaccacagccagcgcgggaGatggccttacttccggtcaa	11	14	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:248436847G>T	uc010pzi.1	-	1	270	c.270C>A	c.(268-270)ATC>ATA	p.I90I		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CAGCGCGGGAGATGGCCTTAC	0.567													50	165	---	---	---	---	PASS	T	248436847	T	T	248436847	2	4	58	1	0	0	0	0	0	0	0	1	11024	932	33	2		2	OR2T33	1	248436847	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	307769	248436847	813774	194	21569										
OR2T2	401992	broad.mit.edu	37	chr1	248616772	248616772	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctacacgcacatcctcctgaCtgtccacaggatgaactctg	7	15	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:248616772C>G	uc001iek.1	+	1	674	c.674C>G	c.(673-675)ACT>AGT	p.T225S		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	225	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATCCTCCTGACTGTCCACAGG	0.542													39	20	---	---	---	---	PASS	G	248616772	G	G	248616772	3	3	58	1	0	0	0	0	1	0	0	0	11020	565	20	4	676	4	OR2T2	1	248616772	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	179925	248616772	633849	195	21570										
OR2T3	343173	broad.mit.edu	37	chr1	248637345	248637345	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcatcctgcatctcatccacAggatgaattctgccgccggc	8	15	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:248637345A>T	uc001iel.1	+	1	694	c.694A>T	c.(694-696)AGG>TGG	p.R232W		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCTCATCCACAGGATGAATTC	0.547													47	164	---	---	---	---	PASS	T	248637345	T	T	248637345	3	4	58	1	0	0	0	0	1	0	0	0	11023	179	7	5	696	5	OR2T3	1	248637345	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	20573	248637345	613276	196	21571										
OR2T34	127068	broad.mit.edu	37	chr1	248737365	248737365	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccggcggcagaattcatccTgtggatgagatgcaggatga	15	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:248737365T>A	uc001iep.1	-	1	694	c.694A>T	c.(694-696)AGG>TGG	p.R232W		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GAATTCATCCTGTGGATGAGA	0.547													36	241	---	---	---	---	PASS	A	248737365	A	A	248737365	3	1	58	1	0	0	0	0	1	0	0	0	11025	1579	55	5	266	5	OR2T34	1	248737365	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	100020	248737365	513256	197	21572										
OR2T34	127068	broad.mit.edu	37	chr1	248738021	248738021	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgagggtgaaatcagtgcttGctgtttgattctgagaagtc	13	5	2	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr1:248738021G>T	uc001iep.1	-	1	38	c.38C>A	c.(37-39)GCA>GAA	p.A13E		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	13	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATCAGTGCTTGCTGTTTGATT	0.468													32	124	---	---	---	---	PASS	T	248738021	T	T	248738021	3	4	58	1	0	0	0	0	1	0	0	0	11025	1319	46	3	922	3	OR2T34	1	248738021	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	656	248738021	512600	198	21573										
MYT1L	23040	broad.mit.edu	37	chr2	1893231	1893231	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtccagggtcccgttctcatCcacctccatgtcagggttct	9	15	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:1893231C>A	uc002qxe.2	-	16	3129	c.2302G>T	c.(2302-2304)GAT>TAT	p.D768Y	MYT1L_uc002qxd.2_Missense_Mutation_p.D766Y|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	768					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CCGTTCTCATCCACCTCCATG	0.597													13	68	---	---	---	---	PASS	A	1893231	A	A	1893231	3	1	58	1	0	0	0	0	1	0	0	0	10107	855	30	2	1298	2	MYT1L	2	1893231	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08		1893231	241306142	199	21574										
GREB1	9687	broad.mit.edu	37	chr2	11735431	11735431	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctcactcctgcggagtaccAgaaggaagtcaattacgagc	10	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:11735431A>G	uc002rbk.1	+	12	2051	c.1751A>G	c.(1750-1752)CAG>CGG	p.Q584R	GREB1_uc002rbo.1_Missense_Mutation_p.Q218R	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	584						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)		GCGGAGTACCAGAAGGAAGTC	0.363													31	45	---	---	---	---	PASS	G	11735431	G	G	11735431	3	3	58	1	0	0	0	0	1	0	0	0	6760	188	7	5	1901	5	GREB1	2	11735431	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	9842200	11735431	231463942	200	21575										
DDX1	1653	broad.mit.edu	37	chr2	15757435	15757435	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aactggaaagctgaacttatCtcaagttagattcctggtcc	8	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:15757435C>G	uc002rce.2	+	15	1373	c.1085C>G	c.(1084-1086)TCT>TGT	p.S362C	DDX1_uc010yjq.1_Missense_Mutation_p.S270C	NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	362	Necessary for interaction with RELA.|Helicase ATP-binding.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		CTGAACTTATCTCAAGTTAGA	0.313													82	121	---	---	---	---	PASS	G	15757435	G	G	15757435	3	3	58	1	0	0	0	0	1	0	0	0	4341	913	32	2	1143	2	DDX1	2	15757435	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4022004	15757435	227441938	201	21576										
RAD51AP2	729475	broad.mit.edu	37	chr2	17698070	17698070	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttataccaatttgctttttaCacttcaaaatgttacagcag	4	8	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:17698070C>A	uc002rcl.1	-	1	1637	c.1613G>T	c.(1612-1614)TGT>TTT	p.C538F	RAD51AP2_uc010exn.1_Missense_Mutation_p.C529F	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	538										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTGCTTTTTACACTTCAAAAT	0.224													3	39	---	---	---	---	PASS	A	17698070	A	A	17698070	3	1	58	1	0	0	0	0	1	0	0	0	12987	478	17	3	1878	3	RAD51AP2	2	17698070	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1940635	17698070	225501303	202	21577										
RAD51AP2	729475	broad.mit.edu	37	chr2	17699345	17699345	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggggggagactgcaaacagCtactcatttggaatttgaga	13	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:17699345C>A	uc002rcl.1	-	1	362	c.338G>T	c.(337-339)AGC>ATC	p.S113I	RAD51AP2_uc010exn.1_Missense_Mutation_p.S104I	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	113										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CTGCAAACAGCTACTCATTTG	0.468													43	81	---	---	---	---	PASS	A	17699345	A	A	17699345	3	1	58	1	0	0	0	0	1	0	0	0	12987	797	28	3	3153	3	RAD51AP2	2	17699345	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1275	17699345	225500028	203	21578										
GEN1	348654	broad.mit.edu	37	chr2	17954485	17954485	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tattttcttttttcttgctaGgttattcaagaattcctttt	4	6	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:17954485G>T	uc002rct.2	+	10	1064	c.991_splice	c.e10-1	p.V331_splice	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Splice_Site_p.V331_splice|GEN1_uc002rcu.2_Splice_Site_p.V331_splice	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease						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)					TTTCTTGCTAGGTTATTCAAG	0.284								Homologous_recombination					32	36	---	---	---	---	PASS	T	17954485	T	T	17954485	5	4	58	1	0	0	0	0	0	0	1	0	6335	1014	35	3	1024	3	GEN1	2	17954485	Splice_Site	SNP	G	TCGA-33-4566-01A-01D-1441-08	255140	17954485	225244888	204	21579										
NT5C1B	93034	broad.mit.edu	37	chr2	18745242	18745242	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctagaccccagcgtcgaagGgtcttcagcacacgggcgcc	12	15	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:18745242G>T	uc002rcz.2	-	10	1757	c.1653C>A	c.(1651-1653)ACC>ACA	p.T551T	NT5C1B_uc002rcy.2_Silent_p.T551T|NT5C1B_uc010exr.2_Intron|NT5C1B_uc010yju.1_Silent_p.T491T|NT5C1B_uc002rda.2_Silent_p.T491T|NT5C1B_uc010yjv.1_Silent_p.T568T|NT5C1B_uc010yjw.1_Silent_p.T534T|NT5C1B_uc010exs.2_Silent_p.T553T	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	551					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				AGCGTCGAAGGGTCTTCAGCA	0.517													62	114	---	---	---	---	PASS	T	18745242	T	T	18745242	2	4	58	1	0	0	0	0	0	0	0	1	10686	1219	43	3		3	NT5C1B	2	18745242	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	790757	18745242	224454131	205	21580										
PUM2	23369	broad.mit.edu	37	chr2	20508288	20508288	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccttctgagggattagtattGgggcccaagcgctcaactac	11	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:20508288G>A	uc002rds.1	-	5	599	c.576C>T	c.(574-576)CCC>CCT	p.P192P	PUM2_uc002rdt.1_Silent_p.P192P|PUM2_uc002rdr.2_Silent_p.P131P|PUM2_uc010yjy.1_Silent_p.P192P|PUM2_uc002rdu.1_Silent_p.P192P|PUM2_uc010yjz.1_Silent_p.P131P	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2	192	Interaction with SNAPIN.				regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GATTAGTATTGGGGCCCAAGC	0.408													47	130	---	---	---	---	PASS	A	20508288	A	A	20508288	2	1	58	1	0	0	0	0	0	0	0	1	12826	1335	47	3		3	PUM2	2	20508288	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1763046	20508288	222691085	206	21581										
APOB	338	broad.mit.edu	37	chr2	21229324	21229324	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggtcaactgctcctttagcGgtagagtacagcattgaaga	11	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:21229324G>T	uc002red.2	-	26	10544	c.10416C>A	c.(10414-10416)ACC>ACA	p.T3472T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3472	Heparin-binding.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CTCCTTTAGCGGTAGAGTACA	0.398													54	136	---	---	---	---	PASS	T	21229324	T	T	21229324	2	4	58	1	0	0	0	0	0	0	0	1	785	1103	39	1		1	APOB	2	21229324	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	721036	21229324	221970049	207	21582										
APOB	338	broad.mit.edu	37	chr2	21233860	21233860	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgtgttcaagagctgcactGatgcttttcctagacacgag	10	9	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:21233860G>T	uc002red.2	-	26	6008	c.5880C>A	c.(5878-5880)ATC>ATA	p.I1960I		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1960					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GAGCTGCACTGATGCTTTTCC	0.443													81	105	---	---	---	---	PASS	T	21233860	T	T	21233860	2	4	58	1	0	0	0	0	0	0	0	1	785	1280	45	2		2	APOB	2	21233860	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	4536	21233860	221965513	208	21583										
OTOF	9381	broad.mit.edu	37	chr2	26699040	26699040	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggaaggcatgcaggcccaggCcctgggctgccttgacctcc	14	15	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:26699040C>A	uc002rhk.2	-	23	2949	c.2822G>T	c.(2821-2823)GGC>GTC	p.G941V	OTOF_uc010yla.1_5'Flank|OTOF_uc002rhh.2_Missense_Mutation_p.G194V|OTOF_uc002rhi.2_Missense_Mutation_p.G251V|OTOF_uc002rhj.2_Missense_Mutation_p.G194V	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	941	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGGCCCAGGCCCTGGGCTGC	0.672													10	36	---	---	---	---	PASS	A	26699040	A	A	26699040	3	1	58	1	0	0	0	0	1	0	0	0	11303	739	26	3	3452	3	OTOF	2	26699040	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5465180	26699040	216500333	209	21584										
OTOF	9381	broad.mit.edu	37	chr2	26712555	26712555	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccccactcaccgaaatcttGatgatcttgtcaaacatgac	5	13	4	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:26712555G>C	uc002rhk.2	-	10	1078	c.951C>G	c.(949-951)ATC>ATG	p.I317M		NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	317	Cytoplasmic (Potential).|C2 1.				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCGAAATCTTGATGATCTTGT	0.383													30	31	---	---	---	---	PASS	C	26712555	C	C	26712555	3	2	58	1	0	0	0	0	1	0	0	0	11303	1280	45	2	5519	2	OTOF	2	26712555	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	13515	26712555	216486818	210	21585										
SLC5A6	8884	broad.mit.edu	37	chr2	27424659	27424659	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccatgctggtcacgatgctCccgatgccaatccagaaggc	10	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:27424659C>A	uc002rjd.2	-	14	1810	c.1419G>T	c.(1417-1419)GGG>GGT	p.G473G	SLC5A6_uc010eyv.1_Silent_p.G473G	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	473	Helical; (Potential).				biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	TCACGATGCTCCCGATGCCAA	0.612													32	36	---	---	---	---	PASS	A	27424659	A	A	27424659	2	1	58	1	0	0	0	0	0	0	0	1	14669	842	30	2		2	SLC5A6	2	27424659	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	712104	27424659	215774714	211	21586										
IFT172	26160	broad.mit.edu	37	chr2	27700124	27700124	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaattcagtgcgtacagaacCcagggtgtcattattcccat	9	10	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:27700124C>A	uc002rku.2	-	13	1336	c.1285G>T	c.(1285-1287)GGT>TGT	p.G429C	IFT172_uc002rkw.2_Missense_Mutation_p.G429C|IFT172_uc010yls.1_Missense_Mutation_p.G408C|IFT172_uc010ezc.2_Missense_Mutation_p.G429C|IFT172_uc002rkv.2_Missense_Mutation_p.G403C	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	429					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CGTACAGAACCCAGGGTGTCA	0.453													62	258	---	---	---	---	PASS	A	27700124	A	A	27700124	3	1	58	1	0	0	0	0	1	0	0	0	7557	623	22	3	4108	3	IFT172	2	27700124	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	275465	27700124	215499249	212	21587										
C2orf16	84226	broad.mit.edu	37	chr2	27800909	27800909	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caagtcacagaatctgcaagGacacagcttcaagttgctca	8	11	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:27800909G>C	uc002rkz.3	+	1	1521	c.1470G>C	c.(1468-1470)AGG>AGC	p.R490S		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	490										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					AATCTGCAAGGACACAGCTTC	0.443													36	73	---	---	---	---	PASS	C	27800909	C	C	27800909	3	2	58	1	0	0	0	0	1	0	0	0	2157	1165	41	2	1472	2	C2orf16	2	27800909	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	100785	27800909	215398464	213	21588										
EHD3	30845	broad.mit.edu	37	chr2	31483649	31483649	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctacatcggctccttctggtCccaccccctcctcatccctg	5	21	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:31483649C>A	uc002rnu.2	+	4	1384	c.776C>A	c.(775-777)TCC>TAC	p.S259Y	EHD3_uc010ymt.1_Intron	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	259					blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					TCCTTCTGGTCCCACCCCCTC	0.607													28	97	---	---	---	---	PASS	A	31483649	A	A	31483649	3	1	58	1	0	0	0	0	1	0	0	0	4979	855	30	2	790	2	EHD3	2	31483649	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3682740	31483649	211715724	214	21589										
LTBP1	4052	broad.mit.edu	37	chr2	33498804	33498804	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtgagatatacctgtatatGctacgagggctacaggttca	11	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:33498804G>T	uc002ros.2	+	16	2702	c.2702G>T	c.(2701-2703)TGC>TTC	p.C901F	LTBP1_uc002rot.2_Missense_Mutation_p.C575F|LTBP1_uc002rou.2_Missense_Mutation_p.C574F|LTBP1_uc002rov.2_Missense_Mutation_p.C521F|LTBP1_uc010ymz.1_Missense_Mutation_p.C574F|LTBP1_uc010yna.1_Missense_Mutation_p.C521F	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	900	EGF-like 4; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				ACCTGTATATGCTACGAGGGC	0.343													8	72	---	---	---	---	PASS	T	33498804	T	T	33498804	3	4	58	1	0	0	0	0	1	0	0	0	9073	1319	46	3	2816	3	LTBP1	2	33498804	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2015155	33498804	209700569	215	21590										
HEATR5B	54497	broad.mit.edu	37	chr2	37215788	37215788	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttttataagaatatacttaCtgttttgttcttcaccaaga	4	6	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:37215788C>A	uc002rpp.1	-	35	6007	c.5911_splice	c.e35+1	p.R1971_splice	HEATR5B_uc002rpo.1_Splice_Site_p.R283_splice|HEATR5B_uc010ezy.1_Splice_Site_p.R466_splice	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B								binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				AATATACTTACTGTTTTGTTC	0.303													43	46	---	---	---	---	PASS	A	37215788	A	A	37215788	5	1	58	1	0	0	0	0	0	0	1	0	7032	579	20	3	311	3	HEATR5B	2	37215788	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	3716984	37215788	205983585	216	21591										
ATL2	64225	broad.mit.edu	37	chr2	38537548	38537548	+	Frame_Shift_Del	DEL	C	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagaaacaattgtgtatgtgCttccttacattctgaagctc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:38537548delC	uc002rqq.2	-	8	876	c.846delG	c.(844-846)AAGfs	p.K282fs	ATL2_uc010ynm.1_Frame_Shift_Del_p.K264fs|ATL2_uc010ynn.1_Frame_Shift_Del_p.K264fs|ATL2_uc010yno.1_Frame_Shift_Del_p.K111fs|ATL2_uc002rqs.2_Frame_Shift_Del_p.K282fs|ATL2_uc002rqr.2_Frame_Shift_Del_p.K111fs	NM_001135673	NP_001129145	Q8NHH9	ATLA2_HUMAN	atlastin GTPase 2 isoform 2	282	Potential.|Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			ovary(1)|kidney(1)|skin(1)	3						TGTGTATGTGCTTCCTTACAT	0.368													71	42	---	---	---	---		-	38537548	-	-	38537548	7	5	58	1	0	1	0	1	0	0	0	0	1107	796	28	0	1041	0	ATL2	2	38537548	Frame_Shift_Del	DEL	C	TCGA-33-4566-01A-01D-1441-08	1321760	38537548	204661825	217	21592										
SOS1	6654	broad.mit.edu	37	chr2	39251238	39251238	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgttattgcttgttttaaaCattccttgtcttcttgatct	5	8	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:39251238C>A	uc002rrk.3	-	9	1156	c.1115G>T	c.(1114-1116)TGT>TTT	p.C372F	SOS1_uc010ynr.1_RNA|SOS1_uc002rrj.3_5'UTR|SOS1_uc002rrl.2_Missense_Mutation_p.C104F	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	372	DH.				apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				TTGTTTTAAACATTCCTTGTC	0.299									Noonan_syndrome				16	84	---	---	---	---	PASS	A	39251238	A	A	39251238	3	1	58	1	0	0	0	0	1	0	0	0	14936	478	17	3	2946	3	SOS1	2	39251238	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	713690	39251238	203948135	218	21593										
SLC8A1	6546	broad.mit.edu	37	chr2	40401970	40401970	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgaaaaattcatacctgttAttgtgaagccacctaaaaaa	5	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:40401970A>G	uc002rrx.2	-	4	1973	c.1949T>C	c.(1948-1950)ATA>ACA	p.I650T	uc002rrw.2_Intron|SLC8A1_uc002rry.2_Missense_Mutation_p.I650T|SLC8A1_uc002rrz.2_Missense_Mutation_p.I642T|SLC8A1_uc002rsa.2_Missense_Mutation_p.I642T|SLC8A1_uc002rsd.3_Missense_Mutation_p.I642T|SLC8A1_uc002rsb.1_Missense_Mutation_p.I642T	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	650	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CATACCTGTTATTGTGAAGCC	0.308													27	129	---	---	---	---	PASS	G	40401970	G	G	40401970	3	3	58	1	0	0	0	0	1	0	0	0	14706	449	16	5	1000	5	SLC8A1	2	40401970	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1150732	40401970	202797403	219	21594										
THADA	63892	broad.mit.edu	37	chr2	43804212	43804212	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tatccaagagcagggcctccCcactccgacccatgcttccg	8	18	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:43804212C>A	uc002rsw.3	-	10	1338	c.986G>T	c.(985-987)GGG>GTG	p.G329V	THADA_uc002rsx.3_Missense_Mutation_p.G329V|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_5'Flank|THADA_uc002rsz.2_Missense_Mutation_p.G39V|THADA_uc002rta.2_Missense_Mutation_p.G39V|THADA_uc002rtb.1_Missense_Mutation_p.G329V|THADA_uc002rtc.3_Missense_Mutation_p.G329V|THADA_uc002rtd.2_Missense_Mutation_p.G329V	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	329							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				CAGGGCCTCCCCACTCCGACC	0.478											OREG0014580	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	22	---	---	---	---	PASS	A	43804212	A	A	43804212	3	1	58	1	0	0	0	0	1	0	0	0	15837	623	22	3	4991	3	THADA	2	43804212	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3402242	43804212	199395161	220	21595										
PLEKHH2	130271	broad.mit.edu	37	chr2	43937155	43937155	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctctctcctctgtggcttctGaaagtgattatgctattcct	7	11	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:43937155G>A	uc010yny.1	+	12	2076	c.1993G>A	c.(1993-1995)GAA>AAA	p.E665K	PLEKHH2_uc002rte.3_Missense_Mutation_p.E665K|PLEKHH2_uc002rtf.3_Missense_Mutation_p.E664K	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	665	Ser-rich.					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TGTGGCTTCTGAAAGTGATTA	0.458													42	234	---	---	---	---	PASS	A	43937155	A	A	43937155	3	1	58	1	0	0	0	0	1	0	0	0	12077	1291	45	2	2035	2	PLEKHH2	2	43937155	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	132943	43937155	199262218	221	21596										
NRXN1	9378	broad.mit.edu	37	chr2	50724472	50724472	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaacaggcatgtactcaccCtttaactaattcaaccacaa	4	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:50724472C>G	uc010fbq.2	-	14	4475	c.2998G>C	c.(2998-3000)GGG>CGG	p.G1000R	NRXN1_uc002rxb.3_Missense_Mutation_p.G632R|NRXN1_uc002rxe.3_Missense_Mutation_p.G960R|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	150	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TGTACTCACCCTTTAACTAAT	0.328													38	59	---	---	---	---	PASS	G	50724472	G	G	50724472	3	3	58	1	0	0	0	0	1	0	0	0	10665	695	24	4	1948	4	NRXN1	2	50724472	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	6787317	50724472	192474901	222	21597										
UGP2	7360	broad.mit.edu	37	chr2	64083466	64083466	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcaaagcaatgtctcaagatGgtgcttctcagttccaagaa	9	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:64083466G>T	uc002scm.2	+	2	352	c.46G>T	c.(46-48)GGT>TGT	p.G16C	UGP2_uc002scl.2_Missense_Mutation_p.G5C|UGP2_uc010ypx.1_Missense_Mutation_p.G25C	NM_006759	NP_006750	Q16851	UGPA_HUMAN	UDP-glucose pyrophosphorylase 2 isoform a	16					glycogen biosynthetic process|phosphorylation|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	metal ion binding|protein binding|UTP:glucose-1-phosphate uridylyltransferase activity				0						GTCTCAAGATGGTGCTTCTCA	0.378													67	189	---	---	---	---	PASS	T	64083466	T	T	64083466	3	4	58	1	0	0	0	0	1	0	0	0	16940	1348	47	3	52	3	UGP2	2	64083466	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	13358994	64083466	179115907	223	21598										
AAK1	22848	broad.mit.edu	37	chr2	69771660	69771660	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtaacccacaatattcttgTgccctgaaagatccctctgt	6	12	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:69771660T>A	uc002sfp.2	-	4	804	c.299A>T	c.(298-300)CAC>CTC	p.H100L	AAK1_uc010fdk.2_Missense_Mutation_p.H100L|AAK1_uc010yqm.1_Missense_Mutation_p.H100L|AAK1_uc010fdm.1_Missense_Mutation_p.H100L	NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	100	Protein kinase.					coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0						AATATTCTTGTGCCCTGAAAG	0.398													24	47	---	---	---	---	PASS	A	69771660	A	A	69771660	3	1	58	1	0	0	0	0	1	0	0	0	16	1696	59	5	2662	5	AAK1	2	69771660	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	5688194	69771660	173427713	224	21599										
ASPRV1	151516	broad.mit.edu	37	chr2	70187792	70187792	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagaaaaggtggcttctcaGtgggatagctcctgccgccc	12	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:70187792G>T	uc002sfz.3	-	1	1606	c.1029C>A	c.(1027-1029)CAC>CAA	p.H343Q		NM_152792	NP_690005	Q53RT3	APRV1_HUMAN	aspartic peptidase, retroviral-like 1 precursor	343	Extracellular (Potential).				protein maturation by peptide bond cleavage|skin development		aspartic-type endopeptidase activity			ovary(1)	1						TGGCTTCTCAGTGGGATAGCT	0.572													33	91	---	---	---	---	PASS	T	70187792	T	T	70187792	3	4	58	1	0	0	0	0	1	0	0	0	1058	1020	36	3	6	3	ASPRV1	2	70187792	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	416132	70187792	173011581	225	21600										
BOLA3	388962	broad.mit.edu	37	chr2	74372362	74372362	+	Frame_Shift_Del	DEL	T	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtagctcgtggaaacttttcTttgagaatttgggtcactct							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:74372362delT	uc002skc.1	-	2	161	c.123delA	c.(121-123)AAAfs	p.K41fs	BOLA3_uc002skd.1_Frame_Shift_Del_p.K41fs|uc002ske.2_5'Flank|uc002skf.2_5'Flank|uc002skg.2_5'Flank	NM_212552	NP_997717	Q53S33	BOLA3_HUMAN	bolA-like 3 isoform 1	41						extracellular region					0						GAAACTTTTCTTTGAGAATTT	0.483													92	69	---	---	---	---		-	74372362	-	-	74372362	7	5	58	1	0	1	0	1	0	0	0	0	1486	1606	56	0	283	0	BOLA3	2	74372362	Frame_Shift_Del	DEL	T	TCGA-33-4566-01A-01D-1441-08	4184570	74372362	168827011	226	21601										
CTNNA2	1496	broad.mit.edu	37	chr2	79878772	79878772	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtggaaaggctgttggagccActtgttacacaggtaaggga	15	6	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:79878772A>T	uc010ysh.1	+	1	95	c.90A>T	c.(88-90)CCA>CCT	p.P30P	CTNNA2_uc010yse.1_Silent_p.P30P|CTNNA2_uc010ysf.1_Silent_p.P30P|CTNNA2_uc010ysg.1_Silent_p.P30P|hsa-mir-4264|MI0015877_5'Flank	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	30					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TGTTGGAGCCACTTGTTACAC	0.413													25	38	---	---	---	---	PASS	T	79878772	T	T	79878772	2	4	58	1	0	0	0	0	0	0	0	1	4013	146	6	5		5	CTNNA2	2	79878772	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	5506410	79878772	163320601	227	21602										
POLR1A	25885	broad.mit.edu	37	chr2	86297336	86297336	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgggcctggatggagggtctGtgcagtgtgggctgtcggtt	20	6	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:86297336G>A	uc002sqs.2	-	13	2050	c.1671C>T	c.(1669-1671)CAC>CAT	p.H557H		NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	557					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						TGGAGGGTCTGTGCAGTGTGG	0.572													31	34	---	---	---	---	PASS	A	86297336	A	A	86297336	2	1	58	1	0	0	0	0	0	0	0	1	12209	1368	48	3		3	POLR1A	2	86297336	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	6418564	86297336	156902037	228	21603										
EIF2AK3	9451	broad.mit.edu	37	chr2	88879056	88879056	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctattggggagacggatcctCttgatagcataattgcagtc	11	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:88879056C>A	uc002stc.3	-	11	2068	c.1866G>T	c.(1864-1866)AAG>AAT	p.K622N		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	622	Cytoplasmic (Potential).|Protein kinase.	ATP (By similarity).			activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						GACGGATCCTCTTGATAGCAT	0.398													34	165	---	---	---	---	PASS	A	88879056	A	A	88879056	3	1	58	1	0	0	0	0	1	0	0	0	4998	912	32	2	1512	2	EIF2AK3	2	88879056	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2581720	88879056	154320317	229	21604										
ADRA2B	151	broad.mit.edu	37	chr2	96781401	96781401	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctcctggttgagcttgcacTgggggcgcccgcgcggctgg	17	14	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:96781401T>A	uc002svi.2	-	1	488	c.488A>T	c.(487-489)CAG>CTG	p.Q163L		NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor	163	Extracellular (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	GAGCTTGCACTGGGGGCGCCC	0.617													13	43	---	---	---	---	PASS	A	96781401	A	A	96781401	3	1	58	1	0	0	0	0	1	0	0	0	338	1580	55	5	859	5	ADRA2B	2	96781401	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	7902345	96781401	146417972	230	21605										
DUSP2	1844	broad.mit.edu	37	chr2	96810554	96810554	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggttttgtcccctgttggCggcagcgcaggggcgggggc	19	11	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:96810554C>A	uc002svk.3	-	2	542	c.456G>T	c.(454-456)CCG>CCT	p.P152P		NM_004418	NP_004409	Q05923	DUS2_HUMAN	dual specificity phosphatase 2	152					endoderm formation|inactivation of MAPK activity|regulation of apoptosis	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/threonine phosphatase activity			breast(1)	1		Ovarian(717;0.0228)				CCCCTGTTGGCGGCAGCGCAG	0.672													2	1	---	---	---	---	PASS	A	96810554	A	A	96810554	2	1	58	1	0	0	0	0	0	0	0	1	4819	755	27	1		1	DUSP2	2	96810554	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	29153	96810554	146388819	231	21606										
TMEM131	23505	broad.mit.edu	37	chr2	98377352	98377352	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtcaacttgtgtttgcttcCatttggctgttttattttag	8	6	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:98377352C>A	uc002syh.3	-	37	5144	c.4915G>T	c.(4915-4917)GGA>TGA	p.G1639*	TMEM131_uc002syg.2_Nonsense_Mutation_p.G19*	NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1639						integral to membrane				ovary(4)|central_nervous_system(2)	6						TGTTTGCTTCCATTTGGCTGT	0.537													21	97	---	---	---	---	PASS	A	98377352	A	A	98377352	4	1	58	1	0	0	0	0	0	1	0	0	16041	603	21	3	756	3	TMEM131	2	98377352	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1566798	98377352	144822021	232	21607										
TMEM131	23505	broad.mit.edu	37	chr2	98409345	98409345	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgctgtgtgggtggaccgaTgggccacactgcttatgact	14	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:98409345T>A	uc002syh.3	-	31	3877	c.3648A>T	c.(3646-3648)CCA>CCT	p.P1216P		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1216						integral to membrane				ovary(4)|central_nervous_system(2)	6						GGTGGACCGATGGGCCACACT	0.547													15	31	---	---	---	---	PASS	A	98409345	A	A	98409345	2	1	58	1	0	0	0	0	0	0	0	1	16041	1451	51	5		5	TMEM131	2	98409345	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	31993	98409345	144790028	233	21608										
AFF3	3899	broad.mit.edu	37	chr2	100343538	100343538	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tagaaaatgaaagaaacttaCgatgtattcgatgtgccact	8	6	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:100343538C>T	uc002tag.2	-	10	1327	c.1091_splice	c.e10+1	p.S364_splice	AFF3_uc002taf.2_Splice_Site_p.S389_splice|AFF3_uc010fiq.1_Splice_Site_p.S364_splice|AFF3_uc010yvr.1_Splice_Site_p.S518_splice|AFF3_uc002tah.1_Splice_Site_p.S389_splice|AFF3_uc010fir.1_Silent_p.S441S	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						AAGAAACTTACGATGTATTCG	0.363													19	66	---	---	---	---	PASS	T	100343538	T	T	100343538	5	4	58	1	0	0	0	0	0	0	1	0	358	550	19	1	2648	1	AFF3	2	100343538	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	1934193	100343538	142855835	234	21609										
LONRF2	164832	broad.mit.edu	37	chr2	100910719	100910719	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcagcagataaacacatgcCaaaccgcttggtgccagttt	8	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:100910719C>A	uc002tal.3	-	9	2369	c.1729G>T	c.(1729-1731)GGC>TGC	p.G577C	LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	577	Lon.				proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						AAACACATGCCAAACCGCTTG	0.493													35	51	---	---	---	---	PASS	A	100910719	A	A	100910719	3	1	58	1	0	0	0	0	1	0	0	0	8895	594	21	3	551	3	LONRF2	2	100910719	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	567181	100910719	142288654	235	21610										
NPAS2	4862	broad.mit.edu	37	chr2	101604630	101604630	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctacagcaaaggtcagctgcAgtgactcagccccagctcgg	11	14	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:101604630A>T	uc002tap.1	+	17	2005	c.1719A>T	c.(1717-1719)GCA>GCT	p.A573A	NPAS2_uc010yvt.1_Silent_p.A638A|NPAS2_uc010fit.1_Intron	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	573					central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						GGTCAGCTGCAGTGACTCAGC	0.602													36	143	---	---	---	---	PASS	T	101604630	T	T	101604630	2	4	58	1	0	0	0	0	0	0	0	1	10563	175	7	5		5	NPAS2	2	101604630	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	693911	101604630	141594743	236	21611										
IL18RAP	8807	broad.mit.edu	37	chr2	103040825	103040825	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggctctatttcttgccccaGtctcagctgccaaagtgatg	9	12	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:103040825G>A	uc002tbx.2	+	5	1014	c.530G>A	c.(529-531)AGT>AAT	p.S177N	IL18RAP_uc010fiz.2_Missense_Mutation_p.S35N	NM_003853	NP_003844	O95256	I18RA_HUMAN	interleukin 18 receptor accessory protein	177	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|inflammatory response|innate immune response	integral to membrane	transmembrane receptor activity			skin(3)|ovary(2)	5						tctTGCCCCAGTCTCAGCTGC	0.294													28	110	---	---	---	---	PASS	A	103040825	A	A	103040825	3	1	58	1	0	0	0	0	1	0	0	0	7648	1029	36	3	540	3	IL18RAP	2	103040825	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1436195	103040825	140158548	237	21612										
SLC5A7	60482	broad.mit.edu	37	chr2	108608580	108608580	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agctacctgggtcggaggagGgtatatcaatggcacagctg	15	8	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:108608580G>T	uc002tdv.2	+	3	473	c.197G>T	c.(196-198)GGG>GTG	p.G66V	SLC5A7_uc010ywm.1_5'UTR|SLC5A7_uc010fjj.2_Missense_Mutation_p.G66V|SLC5A7_uc010ywn.1_5'UTR	NM_021815	NP_068587	Q9GZV3	SC5A7_HUMAN	solute carrier family 5 (choline transporter),	66	Helical; (Potential).				acetylcholine biosynthetic process|neurotransmitter secretion	integral to membrane|plasma membrane	choline:sodium symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4					Choline(DB00122)	GTCGGAGGAGGGTATATCAAT	0.383													26	104	---	---	---	---	PASS	T	108608580	T	T	108608580	3	4	58	1	0	0	0	0	1	0	0	0	14670	1232	43	3	203	3	SLC5A7	2	108608580	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5567755	108608580	134590793	238	21613										
SH3RF3	344558	broad.mit.edu	37	chr2	110015230	110015230	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatggcaagaagaacaccaAgaaacgccactccttcaccg	9	13	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:110015230A>T	uc010ywt.1	+	4	1130	c.1130A>T	c.(1129-1131)AAG>ATG	p.K377M		NM_001099289	NP_001092759	Q8TEJ3	SH3R3_HUMAN	SH3 domain containing ring finger 3	377							zinc ion binding			ovary(1)	1						AAGAACACCAAGAAACGCCAC	0.597													10	23	---	---	---	---	PASS	T	110015230	T	T	110015230	3	4	58	1	0	0	0	0	1	0	0	0	14260	72	3	5	1144	5	SH3RF3	2	110015230	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1406650	110015230	133184143	239	21614										
FOXD4L1	200350	broad.mit.edu	37	chr2	114257000	114257000	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttcctagagcagtcgctccAgccggggctgcaggtggccc	15	14	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:114257000A>T	uc002tjw.3	+	1	340	c.167A>T	c.(166-168)CAG>CTG	p.Q56L		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	56					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0						CAGTCGCTCCAGCCGGGGCTG	0.522													19	57	---	---	---	---	PASS	T	114257000	T	T	114257000	3	4	58	1	0	0	0	0	1	0	0	0	6000	188	7	5	169	5	FOXD4L1	2	114257000	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	4241770	114257000	128942373	240	21615										
SLC35F5	80255	broad.mit.edu	37	chr2	114512771	114512771	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcagaggaagcaacccataTcacatcaacaagcagaagaa	7	10	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:114512771T>C	uc002tku.1	-	3	668	c.244A>G	c.(244-246)ATA>GTA	p.I82V	SLC35F5_uc002tkt.2_RNA|SLC35F5_uc002tkv.2_Missense_Mutation_p.I76V|SLC35F5_uc002tkw.2_Missense_Mutation_p.I82V	NM_025181	NP_079457	Q8WV83	S35F5_HUMAN	solute carrier family 35, member F5	82	Helical; (Potential).				transport	integral to membrane					0						GCAACCCATATCACATCAACA	0.423													11	63	---	---	---	---	PASS	C	114512771	C	C	114512771	3	2	58	1	0	0	0	0	1	0	0	0	14592	1435	50	5	1379	5	SLC35F5	2	114512771	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	255771	114512771	128686602	241	21616										
PCDP1	200373	broad.mit.edu	37	chr2	120369312	120369312	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaacgggttgttcgcaatcaAgaagaggtgggtaactttcc	12	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:120369312A>G	uc002tmb.2	+	14	1539	c.447A>G	c.(445-447)CAA>CAG	p.Q149Q	PCDP1_uc010yyq.1_Silent_p.Q279Q	NM_001029996	NP_001025167	Q4G0U5	PCDP1_HUMAN	primary ciliary dyskinesia protein 1	435						cilium	calmodulin binding				0	Colorectal(110;0.196)					TTCGCAATCAAGAAGAGGTGG	0.343													25	47	---	---	---	---	PASS	G	120369312	G	G	120369312	2	3	58	1	0	0	0	0	0	0	0	1	11572	69	3	5		5	PCDP1	2	120369312	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	5856541	120369312	122830061	242	21617										
CNTNAP5	129684	broad.mit.edu	37	chr2	125261959	125261959	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atttgctgctgcccggcaccCcccaaattgatgggctctca	9	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:125261959C>A	uc002tno.2	+	8	1514	c.1150C>A	c.(1150-1152)CCC>ACC	p.P384T	CNTNAP5_uc010flu.2_Missense_Mutation_p.P385T	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	384	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GCCCGGCACCCCCCAAATTGA	0.532													20	42	---	---	---	---	PASS	A	125261959	A	A	125261959	3	1	58	1	0	0	0	0	1	0	0	0	3650	623	22	3	1180	3	CNTNAP5	2	125261959	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4892647	125261959	117937414	243	21618										
CNTNAP5	129684	broad.mit.edu	37	chr2	125504814	125504814	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttgtcttccagatggaacaCcatttacctggtggattggg	11	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:125504814C>A	uc002tno.2	+	14	2447	c.2083C>A	c.(2083-2085)CCA>ACA	p.P695T	CNTNAP5_uc010flu.2_Missense_Mutation_p.P696T	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	695	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		AGATGGAACACCATTTACCTG	0.532													20	22	---	---	---	---	PASS	A	125504814	A	A	125504814	3	1	58	1	0	0	0	0	1	0	0	0	3650	507	18	3	2137	3	CNTNAP5	2	125504814	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	242855	125504814	117694559	244	21619										
MYO7B	4648	broad.mit.edu	37	chr2	128389280	128389280	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcagcacccggccctccaggAcgaggtctactgccagatcc	11	17	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:128389280A>T	uc002top.2	+	37	5176	c.5123A>T	c.(5122-5124)GAC>GTC	p.D1708V	MYO7B_uc002tos.1_5'Flank|MYO7B_uc002tot.2_5'Flank	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	1708	MyTH4 2.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GCCCTCCAGGACGAGGTCTAC	0.672													5	25	---	---	---	---	PASS	T	128389280	T	T	128389280	3	4	58	1	0	0	0	0	1	0	0	0	10083	275	10	5	5265	5	MYO7B	2	128389280	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	2884466	128389280	114810093	245	21620										
WDR33	55339	broad.mit.edu	37	chr2	128477377	128477377	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctctgggaccaggtggtcccTgcataccttgagtacccgga	12	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:128477377T>A	uc002tpg.1	-	16	2405	c.2222A>T	c.(2221-2223)CAG>CTG	p.Q741L		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	741	Collagen-like.				postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		AGGTGGTCCCTGCATACCTTG	0.647													30	103	---	---	---	---	PASS	A	128477377	A	A	128477377	3	1	58	1	0	0	0	0	1	0	0	0	17284	1580	55	5	1816	5	WDR33	2	128477377	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	88097	128477377	114721996	246	21621										
CCDC74B	91409	broad.mit.edu	37	chr2	130897166	130897166	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caggcgccgtttctgcattgCctgcagcctcttctgcctct	9	16	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:130897166C>G	uc002tqm.1	-	8	1167	c.1105G>C	c.(1105-1107)GCA>CCA	p.A369P	CCDC74B_uc010yzw.1_Missense_Mutation_p.A471P|CCDC74B_uc002tqn.1_Missense_Mutation_p.A303P	NM_207310	NP_997193	Q96LY2	CC74B_HUMAN	coiled-coil domain containing 74B	369											0	Colorectal(110;0.1)					TTCTGCATTGCCTGCAGCCTC	0.612													14	21	---	---	---	---	PASS	G	130897166	G	G	130897166	3	3	58	1	0	0	0	0	1	0	0	0	2848	739	26	4	41	4	CCDC74B	2	130897166	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2419789	130897166	112302207	247	21622										
FAM123C	205147	broad.mit.edu	37	chr2	131520578	131520578	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gacttcaccaggttctgggaCagtgtgaatcgctcagtgcg	13	10	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:131520578C>A	uc002trw.2	+	2	1123	c.933C>A	c.(931-933)GAC>GAA	p.D311E	FAM123C_uc010fmv.2_Missense_Mutation_p.D311E|FAM123C_uc010fms.1_Missense_Mutation_p.D311E|FAM123C_uc010fmt.1_Missense_Mutation_p.D311E|FAM123C_uc010fmu.1_Missense_Mutation_p.D311E	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	311										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GGTTCTGGGACAGTGTGAATC	0.652													30	46	---	---	---	---	PASS	A	131520578	A	A	131520578	3	1	58	1	0	0	0	0	1	0	0	0	5424	477	17	3	935	3	FAM123C	2	131520578	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	623412	131520578	111678795	248	21623										
NCKAP5	344148	broad.mit.edu	37	chr2	133540424	133540424	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggggccttgttgggagagctTtccgtggaagagttctgccg	17	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:133540424T>G	uc002ttp.2	-	14	4334	c.3960A>C	c.(3958-3960)GAA>GAC	p.E1320D	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1320							protein binding				0						TGGGAGAGCTTTCCGTGGAAG	0.612													3	71	---	---	---	---	PASS	G	133540424	G	G	133540424	3	3	58	1	0	0	0	0	1	0	0	0	10223	1838	64	5	1797	5	NCKAP5	2	133540424	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	2019846	133540424	109658949	249	21624										
NCKAP5	344148	broad.mit.edu	37	chr2	133540837	133540837	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttagacttgttcacagccaCggaacttttggaggcttcat	9	10	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:133540837C>A	uc002ttp.2	-	14	3921	c.3547G>T	c.(3547-3549)GTG>TTG	p.V1183L	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1183							protein binding				0						TTCACAGCCACGGAACTTTTG	0.483													18	64	---	---	---	---	PASS	A	133540837	A	A	133540837	3	1	58	1	0	0	0	0	1	0	0	0	10223	536	19	1	2210	1	NCKAP5	2	133540837	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	413	133540837	109658536	250	21625										
NCKAP5	344148	broad.mit.edu	37	chr2	133547683	133547683	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttgaaagagacagttcactGctgctactgtagctgtttcg	10	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:133547683G>T	uc002ttp.2	-	13	1379	c.1005C>A	c.(1003-1005)AGC>AGA	p.S335R	NCKAP5_uc002ttq.2_Missense_Mutation_p.S335R	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	335	Ser-rich.						protein binding				0						ACAGTTCACTGCTGCTACTGT	0.522													16	30	---	---	---	---	PASS	T	133547683	T	T	133547683	3	4	58	1	0	0	0	0	1	0	0	0	10223	1310	46	3	4756	3	NCKAP5	2	133547683	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6846	133547683	109651690	251	21626										
TMEM163	81615	broad.mit.edu	37	chr2	135308166	135308166	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctccctatgggcagagtgcaCagcggccgcgttgctgtaac	13	13	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:135308166C>A	uc002ttx.2	-	4	499	c.433G>T	c.(433-435)GTG>TTG	p.V145L	TMEM163_uc002tty.2_RNA	NM_030923	NP_112185	Q8TC26	TM163_HUMAN	transmembrane protein 163	145						integral to membrane					0				BRCA - Breast invasive adenocarcinoma(221;0.154)		GCAGAGTGCACAGCGGCCGCG	0.537													30	58	---	---	---	---	PASS	A	135308166	A	A	135308166	3	1	58	1	0	0	0	0	1	0	0	0	16075	478	17	3	456	3	TMEM163	2	135308166	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1760483	135308166	107891207	252	21627										
YSK4	80122	broad.mit.edu	37	chr2	135741288	135741288	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agaatctcacccttggtccaTaggataggttcttcagactt	8	10	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:135741288T>C	uc002tue.1	-	8	3211	c.3180A>G	c.(3178-3180)CTA>CTG	p.L1060L	YSK4_uc002tuf.1_Silent_p.L242L|YSK4_uc010fnc.1_Silent_p.L242L|YSK4_uc010fnd.1_Silent_p.L947L|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Silent_p.L788L|YSK4_uc002tui.3_Silent_p.L1077L	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	1060							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		CCTTGGTCCATAGGATAGGTT	0.348													57	76	---	---	---	---	PASS	C	135741288	C	C	135741288	2	2	58	1	0	0	0	0	0	0	0	1	17492	1393	49	5		5	YSK4	2	135741288	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	433122	135741288	107458085	253	21628										
NXPH2	11249	broad.mit.edu	37	chr2	139428622	139428622	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaagggcttggagcacaacCaagacacatggctctgagtc	12	10	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:139428622C>A	uc002tvi.2	-	2	665	c.665G>T	c.(664-666)TGG>TTG	p.W222L		NM_007226	NP_009157	O95156	NXPH2_HUMAN	neurexophilin 2 precursor	222	V (Cys-rich).				neuropeptide signaling pathway	extracellular region				ovary(3)|skin(1)	4				BRCA - Breast invasive adenocarcinoma(221;0.101)		GGAGCACAACCAAGACACATG	0.448													10	53	---	---	---	---	PASS	A	139428622	A	A	139428622	3	1	58	1	0	0	0	0	1	0	0	0	10791	595	21	3	133	3	NXPH2	2	139428622	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3687334	139428622	103770751	254	21629										
NXPH2	11249	broad.mit.edu	37	chr2	139428799	139428799	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaattccaccaccttggagGgtggtaccaagctcactgaa	9	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:139428799G>T	uc002tvi.2	-	2	488	c.488C>A	c.(487-489)CCC>CAC	p.P163H		NM_007226	NP_009157	O95156	NXPH2_HUMAN	neurexophilin 2 precursor	163	III.				neuropeptide signaling pathway	extracellular region				ovary(3)|skin(1)	4				BRCA - Breast invasive adenocarcinoma(221;0.101)		CACCTTGGAGGGTGGTACCAA	0.443													10	40	---	---	---	---	PASS	T	139428799	T	T	139428799	3	4	58	1	0	0	0	0	1	0	0	0	10791	1232	43	3	310	3	NXPH2	2	139428799	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	177	139428799	103770574	255	21630										
LRP1B	53353	broad.mit.edu	37	chr2	141253291	141253291	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	catgttttgccgtcatccttCagttggaatccaggccagca	9	12	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:141253291C>A	uc002tvj.1	-	56	9849	c.8877G>T	c.(8875-8877)CTG>CTT	p.L2959L		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2959	Extracellular (Potential).|EGF-like 6.				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)		CGTCATCCTTCAGTTGGAATC	0.408										TSP Lung(27;0.18)			8	57	---	---	---	---	PASS	A	141253291	A	A	141253291	2	1	58	1	0	0	0	0	0	0	0	1	8955	813	29	2		2	LRP1B	2	141253291	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1824492	141253291	101946082	256	21631										
LRP1B	53353	broad.mit.edu	37	chr2	141571229	141571229	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agaataatttcacttacccaTgatggttagggctgtagctt	9	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:141571229T>C	uc002tvj.1	-	32	6328	c.5356A>G	c.(5356-5358)ATG>GTG	p.M1786V		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1786	Extracellular (Potential).|LDL-receptor class B 17.				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)		CACTTACCCATGATGGTTAGG	0.363										TSP Lung(27;0.18)			36	84	---	---	---	---	PASS	C	141571229	C	C	141571229	3	2	58	1	0	0	0	0	1	0	0	0	8955	1464	51	5	8683	5	LRP1B	2	141571229	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	317938	141571229	101628144	257	21632										
GTDC1	79712	broad.mit.edu	37	chr2	144899607	144899607	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaactgagttgaatacaacCacatcagccaccaggctgta	7	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:144899607C>G	uc002tvp.2	-	6	642	c.363G>C	c.(361-363)GTG>GTC	p.V121V	GTDC1_uc002tvo.2_Silent_p.V121V|GTDC1_uc002tvq.2_Silent_p.V121V|GTDC1_uc002tvr.2_Silent_p.V121V|GTDC1_uc010fnn.2_Silent_p.V121V|GTDC1_uc002tvs.2_Silent_p.V89V|GTDC1_uc010fno.2_5'UTR|GTDC1_uc002tvt.1_Silent_p.V121V	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	121					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		TGAATACAACCACATCAGCCA	0.378													27	47	---	---	---	---	PASS	G	144899607	G	G	144899607	2	3	58	1	0	0	0	0	0	0	0	1	6851	581	21	4		4	GTDC1	2	144899607	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	3328378	144899607	98299766	258	21633										
NEB	4703	broad.mit.edu	37	chr2	152404000	152404000	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acttggggtgtgtatggcagAgagatcatgtggccctgcat	15	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:152404000A>C	uc010fnx.2	-	105	15398	c.15207T>G	c.(15205-15207)TCT>TCG	p.S5069S	NEB_uc002txr.2_Silent_p.S1492S	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	5069	Nebulin 139.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGTATGGCAGAGAGATCATGT	0.423													3	16	---	---	---	---	PASS	C	152404000	C	C	152404000	2	2	58	1	0	0	0	0	0	0	0	1	10302	291	11	5		5	NEB	2	152404000	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	7504393	152404000	90795373	259	21634										
GALNT13	114805	broad.mit.edu	37	chr2	155115539	155115539	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttttttttcaactaggacccCtactatggctggtggcctat	8	10	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:155115539C>G	uc002tyr.3	+	8	1430	c.863C>G	c.(862-864)CCT>CGT	p.P288R	GALNT13_uc002tyt.3_Missense_Mutation_p.P288R|GALNT13_uc010foc.1_Missense_Mutation_p.P107R|GALNT13_uc010fod.2_Missense_Mutation_p.P41R	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	288	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						ACTAGGACCCCTACTATGGCT	0.353													10	47	---	---	---	---	PASS	G	155115539	G	G	155115539	3	3	58	1	0	0	0	0	1	0	0	0	6211	681	24	4	885	4	GALNT13	2	155115539	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2711539	155115539	88083834	260	21635										
KCNJ3	3760	broad.mit.edu	37	chr2	155711481	155711481	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagacataattctgtggaaTgcttagatggactagatgat	10	4	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:155711481T>A	uc002tyv.1	+	3	1357	c.1162T>A	c.(1162-1164)TGC>AGC	p.C388S	KCNJ3_uc010zce.1_3'UTR	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	388	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	TTCTGTGGAATGCTTAGATGG	0.393													39	167	---	---	---	---	PASS	A	155711481	A	A	155711481	3	1	58	1	0	0	0	0	1	0	0	0	8052	1464	51	5	1172	5	KCNJ3	2	155711481	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	595942	155711481	87487892	261	21636										
GALNT5	11227	broad.mit.edu	37	chr2	158142595	158142595	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcggattcttcgcctcaaaGagagacatggcttaataagg	10	8	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:158142595G>T	uc002tzg.2	+	3	1945	c.1690G>T	c.(1690-1692)GAG>TAG	p.E564*	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	564	Catalytic subdomain A.|Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						TCGCCTCAAAGAGAGACATGG	0.348													34	71	---	---	---	---	PASS	T	158142595	T	T	158142595	4	4	58	1	0	0	0	0	0	1	0	0	6216	943	33	2	1700	2	GALNT5	2	158142595	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2431114	158142595	85056778	262	21637										
CCDC148	130940	broad.mit.edu	37	chr2	159028705	159028705	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggtaatatctctttagcatAaagtgttctatgaagtccag	8	6	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:159028705A>G	uc002tzq.2	-	14	1959	c.1696T>C	c.(1696-1698)TAT>CAT	p.Y566H	CCDC148_uc002tzr.2_Missense_Mutation_p.Y414H|CCDC148_uc010foh.2_Missense_Mutation_p.Y279H	NM_138803	NP_620158	Q8NFR7	CC148_HUMAN	coiled-coil domain containing 148	566										ovary(2)	2						TCTTTAGCATAAAGTGTTCTA	0.323													27	122	---	---	---	---	PASS	G	159028705	G	G	159028705	3	3	58	1	0	0	0	0	1	0	0	0	2782	362	13	5	83	5	CCDC148	2	159028705	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	886110	159028705	84170668	263	21638										
BAZ2B	29994	broad.mit.edu	37	chr2	160304783	160304783	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accatttcgattactttttcCcgaagtccttgaatggaatg	7	9	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:160304783C>A	uc002uao.2	-	5	824	c.472G>T	c.(472-474)GGA>TGA	p.G158*	BAZ2B_uc002uap.2_Nonsense_Mutation_p.G156*|BAZ2B_uc002uas.1_Nonsense_Mutation_p.G95*|BAZ2B_uc002uau.1_Nonsense_Mutation_p.G156*|BAZ2B_uc002uaq.1_Nonsense_Mutation_p.G86*|BAZ2B_uc002uat.3_Nonsense_Mutation_p.G95*|BAZ2B_uc010fop.1_Nonsense_Mutation_p.G156*	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	158	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TTACTTTTTCCCGAAGTCCTT	0.378													25	134	---	---	---	---	PASS	A	160304783	A	A	160304783	4	1	58	1	0	0	0	0	0	1	0	0	1332	632	22	3	6166	3	BAZ2B	2	160304783	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1276078	160304783	82894590	264	21639										
LY75	4065	broad.mit.edu	37	chr2	160741801	160741801	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctatagtaggtgcactgggcCtgtcttaaaagggaacattt	11	7	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:160741801C>A	uc002ubc.3	-	6	986	c.917G>T	c.(916-918)AGG>ATG	p.R306M	LY75_uc002ubb.3_Missense_Mutation_p.R306M|LY75_uc010fos.2_Missense_Mutation_p.R306M|LY75_uc010fot.1_Missense_Mutation_p.R306M	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	306	Extracellular (Potential).|C-type lectin 1.				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		TGCACTGGGCCTGTCTTAAAA	0.428													71	137	---	---	---	---	PASS	A	160741801	A	A	160741801	3	1	58	1	0	0	0	0	1	0	0	0	9099	681	24	3	4371	3	LY75	2	160741801	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	437018	160741801	82457572	265	21640										
SCN3A	6328	broad.mit.edu	37	chr2	166027021	166027021	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggcagaggtggcactgaatCggaaaattgcctttccttta	11	8	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:166027021C>A	uc002ucx.2	-	4	794	c.302G>T	c.(301-303)CGA>CTA	p.R101L	SCN3A_uc002ucy.2_Missense_Mutation_p.R101L|SCN3A_uc002ucz.2_Missense_Mutation_p.R101L|SCN3A_uc002uda.1_5'Flank|SCN3A_uc002udb.1_5'Flank	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	101						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	GGCACTGAATCGGAAAATTGC	0.308													62	65	---	---	---	---	PASS	A	166027021	A	A	166027021	3	1	58	1	0	0	0	0	1	0	0	0	13918	884	31	2	5896	2	SCN3A	2	166027021	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5285220	166027021	77172352	266	21641										
SCN2A	6326	broad.mit.edu	37	chr2	166245798	166245798	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgcagatgccctggatcctCctcttctcatagcaaaaccc	6	15	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:166245798C>G	uc002udc.2	+	27	5772	c.5482C>G	c.(5482-5484)CCT>GCT	p.P1828A	SCN2A_uc002udd.2_Missense_Mutation_p.P1828A|SCN2A_uc002ude.2_Missense_Mutation_p.P1828A	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1828					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	CCTGGATCCTCCTCTTCTCAT	0.458													30	134	---	---	---	---	PASS	G	166245798	G	G	166245798	3	3	58	1	0	0	0	0	1	0	0	0	13916	855	30	2	5680	2	SCN2A	2	166245798	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	218777	166245798	76953575	267	21642										
SCN1A	6323	broad.mit.edu	37	chr2	166848855	166848855	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gatcagacgtaggattcggcCaatcctagcaagacggatca	11	10	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:166848855C>T	uc010zcz.1	-	26	4915	c.4897G>A	c.(4897-4899)GGC>AGC	p.G1633S		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1644	Helical; Voltage-sensor; Name=S4 of repeat IV; (By similarity).|IV.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AGGATTCGGCCAATCCTAGCA	0.473													32	146	---	---	---	---	PASS	T	166848855	T	T	166848855	3	4	58	1	0	0	0	0	1	0	0	0	13914	594	21	3	1103	3	SCN1A	2	166848855	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	603057	166848855	76350518	268	21643										
SCN7A	6332	broad.mit.edu	37	chr2	167301326	167301326	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttactcattggataatgctcCaaggtcagaaaacatacgtt	7	8	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:167301326C>A	uc002udu.1	-	12	1699	c.1572G>T	c.(1570-1572)TTG>TTT	p.L524F	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	524	Helical; Name=S1 of repeat II; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						GATAATGCTCCAAGGTCAGAA	0.318													12	15	---	---	---	---	PASS	A	167301326	A	A	167301326	3	1	58	1	0	0	0	0	1	0	0	0	13923	593	21	3	3532	3	SCN7A	2	167301326	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	452471	167301326	75898047	269	21644										
XIRP2	129446	broad.mit.edu	37	chr2	168100283	168100283	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agaaattaaagttgtccgagGaatatccatggaagaaaatg	10	4	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:168100283G>T	uc002udx.2	+	8	2399	c.2381G>T	c.(2380-2382)GGA>GTA	p.G794V	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.G619V|XIRP2_uc010fpq.2_Missense_Mutation_p.G572V|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	619					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GTTGTCCGAGGAATATCCATG	0.408													25	92	---	---	---	---	PASS	T	168100283	T	T	168100283	3	4	58	1	0	0	0	0	1	0	0	0	17427	1174	41	2	2411	2	XIRP2	2	168100283	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	798957	168100283	75099090	270	21645										
XIRP2	129446	broad.mit.edu	37	chr2	168104217	168104217	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gacagggcagtgagagagctGaagaaggatgatgtctttaa	15	4	1	5			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:168104217G>T	uc002udx.2	+	8	6333	c.6315G>T	c.(6313-6315)CTG>CTT	p.L2105L	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.L1930L|XIRP2_uc010fpq.2_Silent_p.L1883L|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1930					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TGAGAGAGCTGAAGAAGGATG	0.383													28	45	---	---	---	---	PASS	T	168104217	T	T	168104217	2	4	58	1	0	0	0	0	0	0	0	1	17427	1277	45	2		2	XIRP2	2	168104217	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	3934	168104217	75095156	271	21646										
XIRP2	129446	broad.mit.edu	37	chr2	168105195	168105195	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccaaacccaaacttcccaaGcatataaaagataataagaa	3	11	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:168105195G>T	uc002udx.2	+	8	7311	c.7293G>T	c.(7291-7293)AAG>AAT	p.K2431N	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.K2256N|XIRP2_uc010fpq.2_Missense_Mutation_p.K2209N|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2256					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AACTTCCCAAGCATATAAAAG	0.403													48	74	---	---	---	---	PASS	T	168105195	T	T	168105195	3	4	58	1	0	0	0	0	1	0	0	0	17427	962	34	3	7323	3	XIRP2	2	168105195	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	978	168105195	75094178	272	21647										
B3GALT1	8708	broad.mit.edu	37	chr2	168726221	168726221	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtaagtggtatatgcccagGgatttgtacccagacagtaa	11	7	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:168726221G>A	uc002udz.1	+	2	1023	c.672G>A	c.(670-672)AGG>AGA	p.R224R		NM_020981	NP_066191	Q9Y5Z6	B3GT1_HUMAN	UDP-Gal:betaGlcNAc beta	224	Lumenal (Potential).				lipid glycosylation|protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4						ATATGCCCAGGGATTTGTACC	0.478													15	75	---	---	---	---	PASS	A	168726221	A	A	168726221	2	1	58	1	0	0	0	0	0	0	0	1	1247	1223	43	3		3	B3GALT1	2	168726221	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	621026	168726221	74473152	273	21648										
LRP2	4036	broad.mit.edu	37	chr2	170103263	170103263	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttatcatgacaatcatcgaCtccatcacagagatagtaat	6	9	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:170103263C>G	uc002ues.2	-	21	3355	c.3142G>C	c.(3142-3144)GTC>CTC	p.V1048L	LRP2_uc010zdf.1_Missense_Mutation_p.V911L	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1048	LDL-receptor class A 8.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CAATCATCGACTCCATCACAG	0.463													69	282	---	---	---	---	PASS	G	170103263	G	G	170103263	3	3	58	1	0	0	0	0	1	0	0	0	8956	565	20	4	11061	4	LRP2	2	170103263	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1377042	170103263	73096110	274	21649										
WIPF1	7456	broad.mit.edu	37	chr2	175437023	175437023	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccacgtcgggccttgggggCggcattcggttcctctgagg	16	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:175437023C>A	uc002uiy.2	-	6	842	c.510G>T	c.(508-510)CCG>CCT	p.P170P	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Silent_p.P170P|WIPF1_uc010fqt.1_Silent_p.P170P|WIPF1_uc002ujc.1_Silent_p.P170P|WIPF1_uc002uiz.2_Silent_p.P170P|WIPF1_uc002ujb.1_Silent_p.P170P|WIPF1_uc010zep.1_Silent_p.P170P	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	170					actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						GCCTTGGGGGCGGCATTCGGT	0.602													36	99	---	---	---	---	PASS	A	175437023	A	A	175437023	2	1	58	1	0	0	0	0	0	0	0	1	17364	755	27	1		1	WIPF1	2	175437023	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	5333760	175437023	67762350	275	21650										
HOXD12	3238	broad.mit.edu	37	chr2	176965022	176965022	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcgcccctggcttcaaggacGacaccaagggcccgctcaac	11	17	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:176965022G>T	uc010zev.1	+	1	493	c.493G>T	c.(493-495)GAC>TAC	p.D165Y	HOXD12_uc010zew.1_Missense_Mutation_p.D165Y	NM_021193	NP_067016	P35452	HXD12_HUMAN	homeobox D12	165						nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0521)|READ - Rectum adenocarcinoma(9;0.0678)		CTTCAAGGACGACACCAAGGG	0.652													14	36	---	---	---	---	PASS	T	176965022	T	T	176965022	3	4	58	1	0	0	0	0	1	0	0	0	7321	1058	37	2	495	2	HOXD12	2	176965022	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1527999	176965022	66234351	276	21651										
TTN	7273	broad.mit.edu	37	chr2	179431400	179431400	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	attggtaggtgggccaggttTgaacacaggatcacaggctt	14	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:179431400T>C	uc010zfg.1	-	275	71979	c.71755A>G	c.(71755-71757)AAA>GAA	p.K23919E	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K17614E|TTN_uc010zfi.1_Missense_Mutation_p.K17547E|TTN_uc010zfj.1_Missense_Mutation_p.K17422E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24846							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)			GGGCCAGGTTTGAACACAGGA	0.453													140	198	---	---	---	---	PASS	C	179431400	C	C	179431400	3	2	58	1	0	0	0	0	1	0	0	0	16732	1821	63	5	28668	5	TTN	2	179431400	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	2466378	179431400	63767973	277	21652										
TTN	7273	broad.mit.edu	37	chr2	179434750	179434750	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	actcataatcgtgattttctAtgagtccagttactctcagg	7	9	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:179434750A>G	uc010zfg.1	-	275	68629	c.68405T>C	c.(68404-68406)ATA>ACA	p.I22802T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I16497T|TTN_uc010zfi.1_Missense_Mutation_p.I16430T|TTN_uc010zfj.1_Missense_Mutation_p.I16305T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23729							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)			GTGATTTTCTATGAGTCCAGT	0.438													23	68	---	---	---	---	PASS	G	179434750	G	G	179434750	3	3	58	1	0	0	0	0	1	0	0	0	16732	449	16	5	32018	5	TTN	2	179434750	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	3350	179434750	63764623	278	21653										
TTN	7273	broad.mit.edu	37	chr2	179437167	179437167	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttgcaacagttgaatatgcTtttcttgttgattcccgctt	8	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:179437167T>C	uc010zfg.1	-	275	66212	c.65988A>G	c.(65986-65988)AAA>AAG	p.K21996K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.K15691K|TTN_uc010zfi.1_Silent_p.K15624K|TTN_uc010zfj.1_Silent_p.K15499K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22923							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)			TTGAATATGCTTTTCTTGTTG	0.428													21	56	---	---	---	---	PASS	C	179437167	C	C	179437167	2	2	58	1	0	0	0	0	0	0	0	1	16732	1606	56	5		5	TTN	2	179437167	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	2417	179437167	63762206	279	21654										
TTN	7273	broad.mit.edu	37	chr2	179439252	179439252	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acagtctgccagagaataccAtttcgttcttttctttcaac	5	11	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:179439252A>T	uc010zfg.1	-	275	64127	c.63903T>A	c.(63901-63903)AAT>AAA	p.N21301K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.N14996K|TTN_uc010zfi.1_Missense_Mutation_p.N14929K|TTN_uc010zfj.1_Missense_Mutation_p.N14804K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22228							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)			AGAGAATACCATTTCGTTCTT	0.418													56	251	---	---	---	---	PASS	T	179439252	T	T	179439252	3	4	58	1	0	0	0	0	1	0	0	0	16732	214	8	5	36520	5	TTN	2	179439252	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	2085	179439252	63760121	280	21655										
TTN	7273	broad.mit.edu	37	chr2	179486603	179486603	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccagaagttctcgctgtccTtacttcacaggaatattcag	8	11	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:179486603T>C	uc010zfg.1	-	193	37566	c.37342A>G	c.(37342-37344)AGG>GGG	p.R12448G	TTN_uc010zfh.1_Missense_Mutation_p.R6143G|TTN_uc010zfi.1_Missense_Mutation_p.R6076G|TTN_uc010zfj.1_Missense_Mutation_p.R5951G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13375							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)			CTCGCTGTCCTTACTTCACAG	0.383													13	61	---	---	---	---	PASS	C	179486603	C	C	179486603	3	2	58	1	0	0	0	0	1	0	0	0	16732	1608	56	5	63123	5	TTN	2	179486603	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	47351	179486603	63712770	281	21656										
TTN	7273	broad.mit.edu	37	chr2	179585181	179585181	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agctttgcagtgatattcccCgacatcggaggcttcaagat	10	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:179585181C>T	uc010zfg.1	-	77	19800	c.19576G>A	c.(19576-19578)GGG>AGG	p.G6526R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.G3187R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7453							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)			TGATATTCCCCGACATCGGAG	0.373													39	137	---	---	---	---	PASS	T	179585181	T	T	179585181	3	4	58	1	0	0	0	0	1	0	0	0	16732	652	23	1	81353	1	TTN	2	179585181	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	98578	179585181	63614192	282	21657										
TTN	7273	broad.mit.edu	37	chr2	179605898	179605898	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caagcagctctgctgcacagGtggactcacccaacatattc	8	14	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:179605898G>T	uc010zfh.1	-	46	11773	c.11549C>A	c.(11548-11550)ACC>AAC	p.T3850N	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.T3783N|TTN_uc010zfj.1_Missense_Mutation_p.T3658N|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TGCTGCACAGGTGGACTCACC	0.493													28	136	---	---	---	---	PASS	T	179605898	T	T	179605898	3	4	58	1	0	0	0	0	1	0	0	0	16732	1261	44	3	92727	3	TTN	2	179605898	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	20717	179605898	63593475	283	21658										
TTN	7273	broad.mit.edu	37	chr2	179611228	179611228	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagaaggtgttcttgatgatGtggtgtgttccaaatcaaac	12	5	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:179611228G>T	uc002unb.2	-	46	16123	c.15899C>A	c.(15898-15900)ACA>AAA	p.T5300K	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TCTTGATGATGTGGTGTGTTC	0.403													19	71	---	---	---	---	PASS	T	179611228	T	T	179611228	3	4	58	1	0	0	0	0	1	0	0	0	16732	1377	48	3	94398	3	TTN	2	179611228	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5330	179611228	63588145	284	21659										
TTN	7273	broad.mit.edu	37	chr2	179640772	179640772	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccttggttcaggagctctcCtaaggacagacctaaaatct	9	11	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:179640772C>G	uc010zfg.1	-	28	6043	c.5819G>C	c.(5818-5820)AGG>ACG	p.R1940T	TTN_uc010zfh.1_Missense_Mutation_p.R1894T|TTN_uc010zfi.1_Missense_Mutation_p.R1894T|TTN_uc010zfj.1_Missense_Mutation_p.R1894T|TTN_uc002unb.2_Missense_Mutation_p.R1940T|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1940							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)			AGGAGCTCTCCTAAGGACAGA	0.453													58	222	---	---	---	---	PASS	G	179640772	G	G	179640772	3	3	58	1	0	0	0	0	1	0	0	0	16732	681	24	4	105509	4	TTN	2	179640772	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	29544	179640772	63558601	285	21660										
TTN	7273	broad.mit.edu	37	chr2	179644907	179644907	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgataaagcatttcttgctgGgacttcatcagtaactcata	7	8	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:179644907G>C	uc010zfg.1	-	22	3773	c.3549C>G	c.(3547-3549)TCC>TCG	p.S1183S	TTN_uc010zfh.1_Silent_p.S1137S|TTN_uc010zfi.1_Silent_p.S1137S|TTN_uc010zfj.1_Silent_p.S1137S|TTN_uc002unb.2_Silent_p.S1183S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1183							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)			TTTCTTGCTGGGACTTCATCA	0.328													26	105	---	---	---	---	PASS	C	179644907	C	C	179644907	2	2	58	1	0	0	0	0	0	0	0	1	16732	1219	43	4		4	TTN	2	179644907	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	4135	179644907	63554466	286	21661										
TTN	7273	broad.mit.edu	37	chr2	179658139	179658139	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acccattttcacctgctcatGagttacgtgcatctgctctt	6	13	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:179658139G>C	uc010zfg.1	-	9	1752	c.1528C>G	c.(1528-1530)CAT>GAT	p.H510D	TTN_uc010zfh.1_Missense_Mutation_p.H510D|TTN_uc010zfi.1_Missense_Mutation_p.H510D|TTN_uc010zfj.1_Missense_Mutation_p.H510D|TTN_uc002unb.2_Missense_Mutation_p.H510D|TTN_uc010frg.1_Missense_Mutation_p.H184D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	510							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)			ACCTGCTCATGAGTTACGTGC	0.403													127	179	---	---	---	---	PASS	C	179658139	C	C	179658139	3	2	58	1	0	0	0	0	1	0	0	0	16732	1290	45	2	109876	2	TTN	2	179658139	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	13232	179658139	63541234	287	21662										
CERKL	375298	broad.mit.edu	37	chr2	182409456	182409456	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tacactggcatatcttttcaGgtgttttataaattctggcc	7	8	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:182409456G>T	uc002unx.2	-	12	1515	c.1414C>A	c.(1414-1416)CTG>ATG	p.L472M	CERKL_uc002uny.2_Missense_Mutation_p.L446M|CERKL_uc010zfm.1_Missense_Mutation_p.L428M|CERKL_uc002unz.2_Missense_Mutation_p.L194M|CERKL_uc002uoa.2_Missense_Mutation_p.L377M|CERKL_uc002uob.2_Missense_Mutation_p.L194M|CERKL_uc002uoc.2_Missense_Mutation_p.L333M|CERKL_uc010frk.2_RNA|CERKL_uc002uod.1_Missense_Mutation_p.L241M|CERKL_uc002unw.2_Missense_Mutation_p.L42M	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	472					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			TATCTTTTCAGGTGTTTTATA	0.294													41	48	---	---	---	---	PASS	T	182409456	T	T	182409456	3	4	58	1	0	0	0	0	1	0	0	0	3268	991	35	3	274	3	CERKL	2	182409456	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2751317	182409456	60789917	288	21663										
ZNF804A	91752	broad.mit.edu	37	chr2	185802585	185802585	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaaagaggcagattccaccCcggatttgaaactttagaac	8	9	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:185802585C>G	uc002uph.2	+	4	3056	c.2462C>G	c.(2461-2463)CCC>CGC	p.P821R		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	821						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						AGATTCCACCCCGGATTTGAA	0.388													26	59	---	---	---	---	PASS	G	185802585	G	G	185802585	3	3	58	1	0	0	0	0	1	0	0	0	18167	623	22	4	2476	4	ZNF804A	2	185802585	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3393129	185802585	57396788	289	21664										
ITGAV	3685	broad.mit.edu	37	chr2	187521118	187521118	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcagtgtgaggaattgatagCgtatctgcgggtaagagcta	15	5	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:187521118C>T	uc002upq.2	+	17	1985	c.1709C>T	c.(1708-1710)GCG>GTG	p.A570V	ITGAV_uc010frs.2_Missense_Mutation_p.A534V|ITGAV_uc010zfv.1_Missense_Mutation_p.A524V	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	570	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		GAATTGATAGCGTATCTGCGG	0.403													94	142	---	---	---	---	PASS	T	187521118	T	T	187521118	3	4	58	1	0	0	0	0	1	0	0	0	7888	768	27	1	1826	1	ITGAV	2	187521118	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1718533	187521118	55678255	290	21665										
SGOL2	151246	broad.mit.edu	37	chr2	201438624	201438624	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagtgctccccagcctttcaAgtaagtgatgatgagcatga	11	9	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:201438624A>T	uc002uvw.2	+	7	3668	c.3555A>T	c.(3553-3555)CAA>CAT	p.Q1185H	SGOL2_uc010zhd.1_Missense_Mutation_p.Q1185H|SGOL2_uc010zhe.1_Missense_Mutation_p.Q1185H	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	1185					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						CAGCCTTTCAAGTAAGTGATG	0.363													55	79	---	---	---	---	PASS	T	201438624	T	T	201438624	3	4	58	1	0	0	0	0	1	0	0	0	14217	69	3	5	3577	5	SGOL2	2	201438624	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	13917506	201438624	41760749	291	21666										
AOX1	316	broad.mit.edu	37	chr2	201515773	201515773	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caatgccaagaacctaatccAgtgttggagagaatgtatgg	11	7	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:201515773A>T	uc002uvx.2	+	26	3025	c.2924A>T	c.(2923-2925)CAG>CTG	p.Q975L	AOX1_uc010zhf.1_Missense_Mutation_p.Q531L|AOX1_uc010fsu.2_Missense_Mutation_p.Q341L	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	975					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	AACCTAATCCAGTGTTGGAGA	0.398													35	123	---	---	---	---	PASS	T	201515773	T	T	201515773	3	4	58	1	0	0	0	0	1	0	0	0	729	188	7	5	3026	5	AOX1	2	201515773	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	77149	201515773	41683600	292	21667										
CASP10	843	broad.mit.edu	37	chr2	202074132	202074132	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agatgctctgaaccctgagcAggcacccacttccctgcagg	10	15	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:202074132A>T	uc002uxl.1	+	9	1680	c.1262A>T	c.(1261-1263)CAG>CTG	p.Q421L	CASP10_uc002uxj.1_Missense_Mutation_p.Q421L|CASP10_uc002uxk.1_Missense_Mutation_p.Q378L|CASP10_uc010fta.1_Missense_Mutation_p.Q354L|CASP10_uc002uxm.1_Missense_Mutation_p.Q378L|CASP10_uc010ftb.1_RNA	NM_032974	NP_116756	Q92851	CASPA_HUMAN	caspase 10 isoform b preproprotein	421					apoptosis|induction of apoptosis by extracellular signals|proteolysis	cytosol|plasma membrane	cysteine-type endopeptidase activity|identical protein binding|protein binding			skin(3)|ovary(1)|pancreas(1)|breast(1)	6						AACCCTGAGCAGGCACCCACT	0.527													65	110	---	---	---	---	PASS	T	202074132	T	T	202074132	3	4	58	1	0	0	0	0	1	0	0	0	2669	188	7	5	1292	5	CASP10	2	202074132	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	558359	202074132	41125241	293	21668										
ZDBF2	57683	broad.mit.edu	37	chr2	207172542	207172542	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggttaaaaaaatagaccaatGgaaggaagaggttattggcc	12	4	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:207172542G>T	uc002vbp.2	+	5	3540	c.3290G>T	c.(3289-3291)TGG>TTG	p.W1097L		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1097	Potential.						nucleic acid binding|zinc ion binding			ovary(3)	3						ATAGACCAATGGAAGGAAGAG	0.323													20	51	---	---	---	---	PASS	T	207172542	T	T	207172542	3	4	58	1	0	0	0	0	1	0	0	0	17596	1357	47	3	3300	3	ZDBF2	2	207172542	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5098410	207172542	36026831	294	21669										
MDH1B	130752	broad.mit.edu	37	chr2	207625738	207625738	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atatggacaatctgctctacCtaaaagagttcaaattagca	6	8	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:207625738C>A	uc002vbs.2	-	2	78	c.23_splice	c.e2-1	p.G8_splice	MDH1B_uc010ziw.1_Splice_Site|MDH1B_uc010fui.2_Splice_Site_p.G8_splice|MDH1B_uc010fuj.2_Intron|MDH1B_uc002vbt.2_Splice_Site	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)						carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		TCTGCTCTACCTAAAAGAGTT	0.308													83	107	---	---	---	---	PASS	A	207625738	A	A	207625738	5	1	58	1	0	0	0	0	0	0	1	0	9409	695	24	3	1578	3	MDH1B	2	207625738	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	453196	207625738	35573635	295	21670										
ERBB4	2066	broad.mit.edu	37	chr2	212248595	212248595	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctggcattgacagtatgttGttcttcaggtactcagcttt	9	8	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:212248595G>T	uc002veg.1	-	28	3770	c.3672C>A	c.(3670-3672)AAC>AAA	p.N1224K	ERBB4_uc002veh.1_Missense_Mutation_p.N1208K|ERBB4_uc010zji.1_Missense_Mutation_p.N1214K|ERBB4_uc010zjj.1_Missense_Mutation_p.N1198K	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1224	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		ACAGTATGTTGTTCTTCAGGT	0.522										TSP Lung(8;0.080)			48	204	---	---	---	---	PASS	T	212248595	T	T	212248595	3	4	58	1	0	0	0	0	1	0	0	0	5209	1368	48	3	258	3	ERBB4	2	212248595	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	4622857	212248595	30950778	296	21671										
ERBB4	2066	broad.mit.edu	37	chr2	212295689	212295689	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctttcctccatcagcattgTactctttttcatctccttcc	2	16	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:212295689T>A	uc002veg.1	-	21	2722	c.2624A>T	c.(2623-2625)TAC>TTC	p.Y875F	ERBB4_uc002veh.1_Missense_Mutation_p.Y875F|ERBB4_uc010zji.1_Missense_Mutation_p.Y865F|ERBB4_uc010zjj.1_Missense_Mutation_p.Y865F	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	875	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		ATCAGCATTGTACTCTTTTTC	0.378										TSP Lung(8;0.080)			33	132	---	---	---	---	PASS	A	212295689	A	A	212295689	3	1	58	1	0	0	0	0	1	0	0	0	5209	1638	57	5	1334	5	ERBB4	2	212295689	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	47094	212295689	30903684	297	21672										
ABCA12	26154	broad.mit.edu	37	chr2	215884167	215884167	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcatttgcagtgcctgttctAgaaacctggaacaaaacaga	8	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:215884167A>T	uc002vew.2	-	13	1770	c.1550T>A	c.(1549-1551)CTA>CAA	p.L517Q	ABCA12_uc002vev.2_Missense_Mutation_p.L199Q|ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	517					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TGCCTGTTCTAGAAACCTGGA	0.343													24	111	---	---	---	---	PASS	T	215884167	T	T	215884167	3	4	58	1	0	0	0	0	1	0	0	0	30	420	15	5	6401	5	ABCA12	2	215884167	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	3588478	215884167	27315206	298	21673										
PRKAG3	53632	broad.mit.edu	37	chr2	219694976	219694976	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcagctgaggctgtacagtCagaggggaggcagtcccacc	15	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:219694976C>A	uc002vjb.1	-	4	377	c.358G>T	c.(358-360)GAC>TAC	p.D120Y	PRKAG3_uc010zkn.1_RNA|PRKAG3_uc010fvy.1_Missense_Mutation_p.D120Y|PRKAG3_uc010zko.1_Missense_Mutation_p.D116Y	NM_017431	NP_059127	Q9UGI9	AAKG3_HUMAN	AMP-activated protein kinase, non-catalytic	120					cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|intracellular protein kinase cascade|regulation of fatty acid oxidation	cytosol	AMP-activated protein kinase activity|protein kinase binding			ovary(1)|lung(1)	2		Renal(207;0.0474)		Epithelial(149;4.35e-07)|all cancers(144;8.96e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCTGTACAGTCAGAGGGGAGG	0.637													14	35	---	---	---	---	PASS	A	219694976	A	A	219694976	3	1	58	1	0	0	0	0	1	0	0	0	12502	826	29	2	1151	2	PRKAG3	2	219694976	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3810809	219694976	23504397	299	21674										
CCDC108	255101	broad.mit.edu	37	chr2	219870807	219870807	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagtagtcggtggcatgggCtcgggcagtaaggcccaggc	17	9	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:219870807C>A	uc002vjl.1	-	31	4942	c.4858G>T	c.(4858-4860)GCC>TCC	p.A1620S		NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	1620						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GTGGCATGGGCTCGGGCAGTA	0.607													9	68	---	---	---	---	PASS	A	219870807	A	A	219870807	3	1	58	1	0	0	0	0	1	0	0	0	2743	797	28	3	939	3	CCDC108	2	219870807	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	175831	219870807	23328566	300	21675										
PTPRN	5798	broad.mit.edu	37	chr2	220159714	220159714	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacctgcggaagtccagcagGggccgcgtggaggccggtgt	18	12	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:220159714G>T	uc002vkz.2	-	19	2747	c.2658C>A	c.(2656-2658)CCC>CCA	p.P886P	PTPRN_uc010zlc.1_Silent_p.P796P|PTPRN_uc002vla.2_Silent_p.P857P|uc010zld.1_5'Flank|MIR153-1_hsa-mir-153-1|MI0000463_5'Flank	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	886	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		AGTCCAGCAGGGGCCGCGTGG	0.746													3	4	---	---	---	---	PASS	T	220159714	T	T	220159714	2	4	58	1	0	0	0	0	0	0	0	1	12807	1219	43	3		3	PTPRN	2	220159714	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	288907	220159714	23039659	301	21676										
PTPRN	5798	broad.mit.edu	37	chr2	220161834	220161834	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcaaggcggtcccggttccgCaggtgatcctccatgtatgc	13	13	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:220161834C>A	uc002vkz.2	-	15	2198	c.2109G>T	c.(2107-2109)CTG>CTT	p.L703L	PTPRN_uc010zlc.1_Silent_p.L613L|PTPRN_uc002vla.2_Silent_p.L674L|uc010zld.1_5'Flank|MIR153-1_hsa-mir-153-1|MI0000463_5'Flank	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	703	Cytoplasmic (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		CCCGGTTCCGCAGGTGATCCT	0.632													19	20	---	---	---	---	PASS	A	220161834	A	A	220161834	2	1	58	1	0	0	0	0	0	0	0	1	12807	697	25	3		3	PTPRN	2	220161834	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2120	220161834	23037539	302	21677										
DES	1674	broad.mit.edu	37	chr2	220285300	220285300	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagccagacctcactgccgcCctcagggacatccgggctca	10	17	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:220285300C>A	uc002vll.2	+	4	905	c.819C>A	c.(817-819)GCC>GCA	p.A273A		NM_001927	NP_001918	P17661	DESM_HUMAN	desmin	273	Rod.|Coil 2A.				cytoskeleton organization|muscle filament sliding|regulation of heart contraction	cytosol|Z disc	protein binding|structural constituent of cytoskeleton			central_nervous_system(2)	2		Renal(207;0.0183)		Epithelial(149;5.25e-07)|all cancers(144;0.000103)|Lung(261;0.00533)|LUSC - Lung squamous cell carcinoma(224;0.008)		TCACTGCCGCCCTCAGGGACA	0.587													39	33	---	---	---	---	PASS	A	220285300	A	A	220285300	2	1	58	1	0	0	0	0	0	0	0	1	4449	610	22	3		3	DES	2	220285300	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	123466	220285300	22914073	303	21678										
OBSL1	23363	broad.mit.edu	37	chr2	220422698	220422698	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	taggccctcgccctcctgcaCgggcctcccattgtggctcc	10	19	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:220422698C>A	uc010fwk.2	-	11	3694	c.3637G>T	c.(3637-3639)GTG>TTG	p.V1213L	OBSL1_uc002vmh.1_Missense_Mutation_p.V204L|OBSL1_uc010zli.1_Missense_Mutation_p.V112L|OBSL1_uc010fwl.1_Missense_Mutation_p.V688L	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	1213	Ig-like 10.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		CCCTCCTGCACGGGCCTCCCA	0.701													6	18	---	---	---	---	PASS	A	220422698	A	A	220422698	3	1	58	1	0	0	0	0	1	0	0	0	10813	536	19	1	2120	1	OBSL1	2	220422698	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	137398	220422698	22776675	304	21679										
SLC4A3	6508	broad.mit.edu	37	chr2	220494051	220494051	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggaggggggagctggagtgGatgaggaagaggaggaagag	24	1	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:220494051G>C	uc002vmp.3	+	4	672	c.403G>C	c.(403-405)GAT>CAT	p.D135H	SLC4A3_uc002vmn.2_Missense_Mutation_p.D135H|SLC4A3_uc002vmo.3_Missense_Mutation_p.D135H|SLC4A3_uc010fwm.2_5'UTR|SLC4A3_uc010fwn.1_5'Flank	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	135	Cytoplasmic.				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGCTGGAGTggatgaggaaga	0.527													19	17	---	---	---	---	PASS	C	220494051	C	C	220494051	3	2	58	1	0	0	0	0	1	0	0	0	14655	1174	41	2	413	2	SLC4A3	2	220494051	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	71353	220494051	22705322	305	21680										
SLC4A3	6508	broad.mit.edu	37	chr2	220500081	220500081	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatggcagcattgtgatccCcccgtccgaggtggagggcc	16	12	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:220500081C>T	uc002vmp.3	+	13	2104	c.1835C>T	c.(1834-1836)CCC>CTC	p.P612L	SLC4A3_uc002vmo.3_Missense_Mutation_p.P639L|SLC4A3_uc010fwm.2_Missense_Mutation_p.P162L|SLC4A3_uc010fwn.1_Missense_Mutation_p.P121L	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	612	Cytoplasmic.				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ATTGTGATCCCCCCGTCCGAG	0.612													28	66	---	---	---	---	PASS	T	220500081	T	T	220500081	3	4	58	1	0	0	0	0	1	0	0	0	14655	623	22	3	1962	3	SLC4A3	2	220500081	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	6030	220500081	22699292	306	21681										
SPHKAP	80309	broad.mit.edu	37	chr2	228860331	228860331	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctctcctcgctgctgcttgGagggttgggggcctcatcgg	16	12	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:228860331G>T	uc002vpq.2	-	8	4575	c.4528C>A	c.(4528-4530)CCA>ACA	p.P1510T	SPHKAP_uc002vpp.2_Missense_Mutation_p.P1510T|SPHKAP_uc010zlx.1_Intron	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1510						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CTGCTGCTTGGAGGGTTGGGG	0.557													25	95	---	---	---	---	PASS	T	228860331	T	T	228860331	3	4	58	1	0	0	0	0	1	0	0	0	15047	1174	41	2	594	2	SPHKAP	2	228860331	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	8360250	228860331	14339042	307	21682										
SPHKAP	80309	broad.mit.edu	37	chr2	228882714	228882714	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaccagggttgttttccactGgagttgtcaaggcaaatcgc	11	9	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:228882714G>T	uc002vpq.2	-	7	2903	c.2856C>A	c.(2854-2856)TCC>TCA	p.S952S	SPHKAP_uc002vpp.2_Silent_p.S952S|SPHKAP_uc010zlx.1_Silent_p.S952S	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	952						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GTTTTCCACTGGAGTTGTCAA	0.483													48	148	---	---	---	---	PASS	T	228882714	T	T	228882714	2	4	58	1	0	0	0	0	0	0	0	1	15047	1335	47	3		3	SPHKAP	2	228882714	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	22383	228882714	14316659	308	21683										
SPHKAP	80309	broad.mit.edu	37	chr2	228883481	228883481	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtccagaatttcagatgaatGcctgttgtcattggggtcga	12	7	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:228883481G>A	uc002vpq.2	-	7	2136	c.2089C>T	c.(2089-2091)CAT>TAT	p.H697Y	SPHKAP_uc002vpp.2_Missense_Mutation_p.H697Y|SPHKAP_uc010zlx.1_Missense_Mutation_p.H697Y	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	697						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TCAGATGAATGCCTGTTGTCA	0.398													63	264	---	---	---	---	PASS	A	228883481	A	A	228883481	3	1	58	1	0	0	0	0	1	0	0	0	15047	1319	46	3	3037	3	SPHKAP	2	228883481	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	767	228883481	14315892	309	21684										
DNER	92737	broad.mit.edu	37	chr2	230223351	230223351	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacatcatacattgcaggccGggatttctttccaaacctga	7	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:230223351G>A	uc002vpv.2	-	13	2266	c.2119C>T	c.(2119-2121)CGG>TGG	p.R707W		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	707	Cytoplasmic (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		ATTGCAGGCCGGGATTTCTTT	0.363													20	87	---	---	---	---	PASS	A	230223351	A	A	230223351	3	1	58	1	0	0	0	0	1	0	0	0	4667	1115	39	1	98	1	DNER	2	230223351	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1339870	230223351	12976022	310	21685										
ALPI	248	broad.mit.edu	37	chr2	233323623	233323623	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccctgtcgtccgagacccacGgaggcgaagacgtggcggtg	16	13	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:233323623G>T	uc002vst.3	+	11	1431	c.1354G>T	c.(1354-1356)GGA>TGA	p.G452*	ALPI_uc002vsu.3_Nonsense_Mutation_p.G363*	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	452					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		CGAGACCCACGGAGGCGAAGA	0.692													7	16	---	---	---	---	PASS	T	233323623	T	T	233323623	4	4	58	1	0	0	0	0	0	1	0	0	543	1117	39	1	1396	1	ALPI	2	233323623	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3100272	233323623	9875750	311	21686										
CHRND	1144	broad.mit.edu	37	chr2	233396137	233396137	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctgctcatctccaagcgtcTgcctgccacatccatggcca	8	17	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:233396137T>A	uc002vsw.2	+	8	900	c.896T>A	c.(895-897)CTG>CAG	p.L299Q	CHRND_uc010zmg.1_Missense_Mutation_p.L284Q|CHRND_uc010fyc.2_Missense_Mutation_p.L172Q|CHRND_uc010zmh.1_Missense_Mutation_p.L105Q	NM_000751	NP_000742	Q07001	ACHD_HUMAN	nicotinic acetylcholine receptor delta	299	Helical; (Potential).				muscle contraction|musculoskeletal movement|neuromuscular process|skeletal muscle tissue growth|synaptic transmission	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)|breast(1)|skin(1)	3		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.89e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00078)|Lung(119;0.00579)|LUSC - Lung squamous cell carcinoma(224;0.00754)		TCCAAGCGTCTGCCTGCCACA	0.607													33	55	---	---	---	---	PASS	A	233396137	A	A	233396137	3	1	58	1	0	0	0	0	1	0	0	0	3394	1580	55	5	926	5	CHRND	2	233396137	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	72514	233396137	9803236	312	21687										
IQCA1	79781	broad.mit.edu	37	chr2	237272468	237272468	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggaggccatttttgccaggGtatttcccagcaatgttaga	11	8	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:237272468G>T	uc002vvz.1	-	15	2006	c.1824C>A	c.(1822-1824)TAC>TAA	p.Y608*	IQCA1_uc002vwb.2_Nonsense_Mutation_p.Y616*|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Nonsense_Mutation_p.Y567*	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	608							ATP binding			ovary(1)	1						TTTTGCCAGGGTATTTCCCAG	0.473													84	79	---	---	---	---	PASS	T	237272468	T	T	237272468	4	4	58	1	0	0	0	0	0	1	0	0	7802	1256	44	3	664	3	IQCA1	2	237272468	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3876331	237272468	5926905	313	21688										
COL6A3	1293	broad.mit.edu	37	chr2	238243328	238243328	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acctcaggtagcagaccacaGccacatggtatgtctgccca	9	14	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:238243328G>A	uc002vwl.2	-	41	9455	c.9170C>T	c.(9169-9171)GCT>GTT	p.A3057V	COL6A3_uc002vwo.2_Missense_Mutation_p.A2851V|COL6A3_uc010znj.1_Missense_Mutation_p.A2450V|COL6A3_uc002vwj.2_Missense_Mutation_p.A438V	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	3057	Fibronectin type-III.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GCAGACCACAGCCACATGGTA	0.537													24	50	---	---	---	---	PASS	A	238243328	A	A	238243328	3	1	58	1	0	0	0	0	1	0	0	0	3701	971	34	3	379	3	COL6A3	2	238243328	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	970860	238243328	4956045	314	21689										
HDAC4	9759	broad.mit.edu	37	chr2	239990258	239990258	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcgaagcctgatgacaccagCaccacatccggggcaaactc	9	15	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:239990258C>A	uc002vyk.3	-	23	3573	c.2781G>T	c.(2779-2781)GTG>GTT	p.V927V	HDAC4_uc010fyy.2_Silent_p.V884V	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	927	Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		ATGACACCAGCACCACATCCG	0.597													30	59	---	---	---	---	PASS	A	239990258	A	A	239990258	2	1	58	1	0	0	0	0	0	0	0	1	7009	697	25	3		3	HDAC4	2	239990258	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1746930	239990258	3209115	315	21690										
ANKMY1	51281	broad.mit.edu	37	chr2	241468696	241468696	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tagtcatagaaaaagggatcCtgtccctcctgcagtcccca	8	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:241468696C>A	uc002vyz.1	-	4	673	c.444G>T	c.(442-444)CAG>CAT	p.Q148H	ANKMY1_uc002vza.1_Intron|ANKMY1_uc010fzd.1_Missense_Mutation_p.Q237H|ANKMY1_uc002vzb.1_Intron|ANKMY1_uc002vzc.1_Intron|ANKMY1_uc002vzd.1_Intron|ANKMY1_uc010fze.1_Intron|ANKMY1_uc002vze.2_Intron	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	148							zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		AAAAGGGATCCTGTCCCTCCT	0.517													19	54	---	---	---	---	PASS	A	241468696	A	A	241468696	3	1	58	1	0	0	0	0	1	0	0	0	634	680	24	3	2437	3	ANKMY1	2	241468696	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1478438	241468696	1730677	316	21691										
CAPN10	11132	broad.mit.edu	37	chr2	241528825	241528825	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggcaggtgaagcaggggctGctgggggattgctggttcct	20	7	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:241528825G>C	uc002vzk.1	+	2	391	c.207G>C	c.(205-207)CTG>CTC	p.L69L	CAPN10_uc010zoh.1_Silent_p.L69L|CAPN10_uc002vzl.1_Silent_p.L69L|CAPN10_uc002vzm.1_Intron|CAPN10_uc002vzn.1_5'UTR|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_RNA|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Silent_p.L69L	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	69	Calpain catalytic.				actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		AGCAGGGGCTGCTGGGGGATT	0.607													94	126	---	---	---	---	PASS	C	241528825	C	C	241528825	2	2	58	1	0	0	0	0	0	0	0	1	2623	1306	46	4		4	CAPN10	2	241528825	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	60129	241528825	1670548	317	21692										
PASK	23178	broad.mit.edu	37	chr2	242066238	242066238	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caggtctctgcctcccagatCgcaggacgacacaggagcgg	13	14	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr2:242066238C>G	uc002wao.1	-	10	2184	c.2092G>C	c.(2092-2094)GAT>CAT	p.D698H	PASK_uc010zol.1_Missense_Mutation_p.D512H|PASK_uc010zom.1_Missense_Mutation_p.D663H|PASK_uc010fzl.1_Missense_Mutation_p.D698H|PASK_uc010zon.1_Missense_Mutation_p.D479H|PASK_uc002wap.2_Missense_Mutation_p.D241H|PASK_uc002waq.2_Missense_Mutation_p.D698H	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	698					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CCTCCCAGATCGCAGGACGAC	0.667													58	104	---	---	---	---	PASS	G	242066238	G	G	242066238	3	3	58	1	0	0	0	0	1	0	0	0	11472	884	31	2	1915	2	PASK	2	242066238	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	537413	242066238	1133135	318	21693										
CNTN4	152330	broad.mit.edu	37	chr3	2908472	2908472	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gatcttcaatgaatacccttCctatcaggataatcgccgct	6	12	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:2908472C>A	uc003bpc.2	+	7	712	c.491C>A	c.(490-492)TCC>TAC	p.S164Y	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Missense_Mutation_p.S164Y	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	164	Ig-like C2-type 2.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		GAATACCCTTCCTATCAGGAT	0.383													105	94	---	---	---	---	PASS	A	2908472	A	A	2908472	3	1	58	1	0	0	0	0	1	0	0	0	3643	855	30	2	509	2	CNTN4	3	2908472	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08		2908472	195113958	319	21694										
GRM7	2917	broad.mit.edu	37	chr3	7456800	7456800	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggaggaaaacttcaactgcaAgttgacgattagtgggtcaa	12	6	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:7456800A>T	uc003bqm.2	+	5	1398	c.1124A>T	c.(1123-1125)AAG>ATG	p.K375M	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.K375M|GRM7_uc003bql.2_Missense_Mutation_p.K375M|GRM7_uc003bqn.1_Translation_Start_Site	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	375	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	TTCAACTGCAAGTTGACGATT	0.413													64	46	---	---	---	---	PASS	T	7456800	T	T	7456800	3	4	58	1	0	0	0	0	1	0	0	0	6802	72	3	5	1142	5	GRM7	3	7456800	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	4548328	7456800	190565630	320	21695										
FGD5	152273	broad.mit.edu	37	chr3	14964614	14964614	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtacctgaaggacaggatggCcaaggtctgcgacggctgct	15	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:14964614C>A	uc003bzc.2	+	16	3979	c.3869C>A	c.(3868-3870)GCC>GAC	p.A1290D	FGD5_uc011avk.1_Missense_Mutation_p.A1290D|FGD5_uc003bzd.2_Missense_Mutation_p.A368D	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	1290	FYVE-type.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						GACAGGATGGCCAAGGTCTGC	0.607													39	38	---	---	---	---	PASS	A	14964614	A	A	14964614	3	1	58	1	0	0	0	0	1	0	0	0	5836	739	26	3	3931	3	FGD5	3	14964614	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	7507814	14964614	183057816	321	21696										
ZCWPW2	152098	broad.mit.edu	37	chr3	28454649	28454649	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgtatgtaaacaaagtgtgGgttcaatgtgagaatgaaaa	11	2	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:28454649G>T	uc003ceh.2	+	3	258	c.90G>T	c.(88-90)TGG>TGT	p.W30C	ZCWPW2_uc003cei.2_Missense_Mutation_p.W30C	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	30	CW-type.						zinc ion binding			ovary(2)	2						ACAAAGTGTGGGTTCAATGTG	0.338													60	66	---	---	---	---	PASS	T	28454649	T	T	28454649	3	4	58	1	0	0	0	0	1	0	0	0	17595	1241	43	3	92	3	ZCWPW2	3	28454649	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	13490035	28454649	169567781	322	21697										
RBMS3	27303	broad.mit.edu	37	chr3	30032588	30032588	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttagggtgttgttgctgatAcctctccccagacagtggca	11	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:30032588A>T	uc003cel.2	+	14	1425	c.1195A>T	c.(1195-1197)ACC>TCC	p.T399S	RBMS3_uc003cek.2_Missense_Mutation_p.T383S|RBMS3_uc010hfq.2_Missense_Mutation_p.T396S|RBMS3_uc003cem.2_Missense_Mutation_p.T381S|RBMS3_uc010hfr.2_Missense_Mutation_p.T383S	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	399						cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				TGTTGCTGATACCTCTCCCCA	0.483													35	23	---	---	---	---	PASS	T	30032588	T	T	30032588	3	4	58	1	0	0	0	0	1	0	0	0	13150	391	14	5	1292	5	RBMS3	3	30032588	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1577939	30032588	167989842	323	21698										
PDCD6IP	10015	broad.mit.edu	37	chr3	33877570	33877570	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gattaaaacagtggcatctcGctatgatgaatatgttaatg	9	5	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:33877570G>T	uc003cfx.2	+	8	1024	c.869G>T	c.(868-870)CGC>CTC	p.R290L	PDCD6IP_uc003cfy.2_Missense_Mutation_p.R295L|PDCD6IP_uc011axw.1_Missense_Mutation_p.R71L	NM_013374	NP_037506	Q8WUM4	PDC6I_HUMAN	programmed cell death 6 interacting protein	290	Interaction with EIAV p9.|Interaction with CHMP4A, CHMP4B and CHMP4C.|BRO1.				apoptosis|cell cycle|cell division|interspecies interaction between organisms|protein transport	cytosol|melanosome|microtubule organizing center	calcium-dependent protein binding			ovary(1)|skin(1)	2						GTGGCATCTCGCTATGATGAA	0.358													98	97	---	---	---	---	PASS	T	33877570	T	T	33877570	3	4	58	1	0	0	0	0	1	0	0	0	11624	1087	38	1	914	1	PDCD6IP	3	33877570	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3844982	33877570	164144860	324	21699										
OXSR1	9943	broad.mit.edu	37	chr3	38271889	38271889	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcaagaaaaaacattgcagAgagcaccaaccatttctgaa	6	9	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:38271889A>T	uc003chy.2	+	10	1261	c.919A>T	c.(919-921)AGA>TGA	p.R307*	OXSR1_uc010hhb.2_Nonsense_Mutation_p.R241*|OXSR1_uc010hha.1_Nonsense_Mutation_p.R239*	NM_005109	NP_005100	O95747	OXSR1_HUMAN	oxidative-stress responsive 1	307					intracellular protein kinase cascade|response to oxidative stress		ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		AACATTGCAGAGAGCACCAAC	0.284													80	55	---	---	---	---	PASS	T	38271889	T	T	38271889	4	4	58	1	0	0	0	0	0	1	0	0	11336	296	11	5	957	5	OXSR1	3	38271889	Nonsense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	4394319	38271889	159750541	325	21700										
SCN5A	6331	broad.mit.edu	37	chr3	38603979	38603979	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccgcagtgacttgatggggCccatctcggcaaagcccagg	13	13	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:38603979C>A	uc003cio.2	-	22	4084	c.3890G>T	c.(3889-3891)GGC>GTC	p.G1297V	SCN5A_uc003cin.2_Missense_Mutation_p.G1296V|SCN5A_uc003cil.3_Missense_Mutation_p.G1297V|SCN5A_uc010hhi.2_Missense_Mutation_p.G1297V|SCN5A_uc010hhk.2_Missense_Mutation_p.G1296V|SCN5A_uc011ayr.1_Missense_Mutation_p.G1243V|SCN5A_uc010hhj.1_Missense_Mutation_p.G907V	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1297	Helical; Voltage-sensor; Name=S4 of repeat III; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	CTTGATGGGGCCCATCTCGGC	0.602													18	12	---	---	---	---	PASS	A	38603979	A	A	38603979	3	1	58	1	0	0	0	0	1	0	0	0	13922	739	26	3	2188	3	SCN5A	3	38603979	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	332090	38603979	159418451	326	21701										
SCN5A	6331	broad.mit.edu	37	chr3	38616872	38616872	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgtggtagcaggtcttgcgCaaccgccaccagaccttccc	10	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:38616872C>T	uc003cio.2	-	20	3776	c.3582G>A	c.(3580-3582)TTG>TTA	p.L1194L	SCN5A_uc003cin.2_Silent_p.L1193L|SCN5A_uc003cil.3_Silent_p.L1194L|SCN5A_uc010hhi.2_Silent_p.L1194L|SCN5A_uc010hhk.2_Silent_p.L1193L|SCN5A_uc011ayr.1_Silent_p.L1140L|SCN5A_uc010hhj.1_Silent_p.L804L	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1194					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	AGGTCTTGCGCAACCGCCACC	0.612													8	4	---	---	---	---	PASS	T	38616872	T	T	38616872	2	4	58	1	0	0	0	0	0	0	0	1	13922	709	25	3		3	SCN5A	3	38616872	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	12893	38616872	159405558	327	21702										
SCN5A	6331	broad.mit.edu	37	chr3	38639229	38639229	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcagcccttaccaggtttccGacctgcagcatctcctcgaa	8	16	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:38639229G>A	uc003cio.2	-	14	2447	c.2253C>T	c.(2251-2253)GTC>GTT	p.V751V	SCN5A_uc003cin.2_Silent_p.V751V|SCN5A_uc003cil.3_Silent_p.V751V|SCN5A_uc010hhi.2_Silent_p.V751V|SCN5A_uc010hhk.2_Silent_p.V751V|SCN5A_uc011ayr.1_Silent_p.V751V|SCN5A_uc010hhj.1_Silent_p.V362V	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	751	Helical; Name=S2 of repeat II; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	CCAGGTTTCCGACCTGCAGCA	0.547													35	28	---	---	---	---	PASS	A	38639229	A	A	38639229	2	1	58	1	0	0	0	0	0	0	0	1	13922	1045	37	2		2	SCN5A	3	38639229	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	22357	38639229	159383201	328	21703										
SCN11A	11280	broad.mit.edu	37	chr3	38888717	38888717	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	catcttcacccaaagggtccTcactttcttcagtggctgta	7	13	5	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:38888717T>A	uc011ays.1	-	26	5043	c.4844A>T	c.(4843-4845)GAG>GTG	p.E1615V		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1615					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CAAAGGGTCCTCACTTTCTTC	0.373													81	75	---	---	---	---	PASS	A	38888717	A	A	38888717	3	1	58	1	0	0	0	0	1	0	0	0	13913	1551	54	5	535	5	SCN11A	3	38888717	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	249488	38888717	159133713	329	21704										
TTC21A	199223	broad.mit.edu	37	chr3	39167842	39167842	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagcagcaccagctctgatcGaccccctgtatttgatggct	9	13	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:39167842G>C	uc003cjc.2	+	12	1684	c.1507G>C	c.(1507-1509)GAC>CAC	p.D503H	TTC21A_uc003cje.2_Missense_Mutation_p.D503H|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Missense_Mutation_p.D454H	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	503	TPR 7.						binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		AGCTCTGATCGACCCCCTGTA	0.542													70	53	---	---	---	---	PASS	C	39167842	C	C	39167842	3	2	58	1	0	0	0	0	1	0	0	0	16684	1058	37	2	1553	2	TTC21A	3	39167842	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	279125	39167842	158854588	330	21705										
LARS2	23395	broad.mit.edu	37	chr3	45458977	45458977	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctcttctgggtcctaggtcAtcaaccccatgggatgggat	11	12	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:45458977A>G	uc003cop.1	+	5	552	c.367A>G	c.(367-369)ATC>GTC	p.I123V	LARS2_uc010hit.1_Missense_Mutation_p.I80V	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial	123					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)	GTCCTAGGTCATCAACCCCAT	0.458													89	58	---	---	---	---	PASS	G	45458977	G	G	45458977	3	3	58	1	0	0	0	0	1	0	0	0	8635	217	8	5	377	5	LARS2	3	45458977	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	6291135	45458977	152563453	331	21706										
SMARCC1	6599	broad.mit.edu	37	chr3	47742767	47742767	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcatgcagaagaatacaaaCcatttttgggaagtactact	7	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:47742767C>A	uc003crq.2	-	11	1283	c.1165_splice	c.e11+1	p.V389_splice	SMARCC1_uc011bbd.1_Splice_Site_p.V280_splice	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated						chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		AGAATACAAACCATTTTTGGG	0.398													54	46	---	---	---	---	PASS	A	47742767	A	A	47742767	5	1	58	1	0	0	0	0	0	0	1	0	14775	521	18	3	2223	3	SMARCC1	3	47742767	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	2283790	47742767	150279663	332	21707										
PARP3	10039	broad.mit.edu	37	chr3	51978871	51978871	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagccacgcagaagctcatCactaacatcttcagcaagga	7	14	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:51978871C>T	uc003dby.2	+	5	950	c.579C>T	c.(577-579)ATC>ATT	p.I193I	RRP9_uc003dbw.1_5'Flank|PARP3_uc003dbz.2_Silent_p.I200I	NM_005485	NP_005476	Q9Y6F1	PARP3_HUMAN	poly (ADP-ribose) polymerase family, member 3	193	PARP alpha-helical.				DNA repair|protein ADP-ribosylation	centriole|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		AGAAGCTCATCACTAACATCT	0.607													23	20	---	---	---	---	PASS	T	51978871	T	T	51978871	2	4	58	1	0	0	0	0	0	0	0	1	11462	816	29	2		2	PARP3	3	51978871	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	4236104	51978871	146043559	333	21708										
DNAH1	25981	broad.mit.edu	37	chr3	52356484	52356484	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcagcctaacagtaaaggctAtagcctgggaaggacccctc	11	12	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:52356484A>G	uc011bef.1	+	2	287	c.26A>G	c.(25-27)TAT>TGT	p.Y9C	DNAH1_uc003ddt.1_Missense_Mutation_p.Y9C	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	9	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		AGTAAAGGCTATAGCCTGGGA	0.597													14	16	---	---	---	---	PASS	G	52356484	G	G	52356484	3	3	58	1	0	0	0	0	1	0	0	0	4597	449	16	5	28	5	DNAH1	3	52356484	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	377613	52356484	145665946	334	21709										
STAB1	23166	broad.mit.edu	37	chr3	52544007	52544007	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagtccatgggggactgtggGcccacagggctggcccagca	17	12	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:52544007G>A	uc003dej.2	+	23	2543	c.2469G>A	c.(2467-2469)GGG>GGA	p.G823G		NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	823	EGF-like 6.|Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		GGGACTGTGGGCCCACAGGGC	0.677													54	43	---	---	---	---	PASS	A	52544007	A	A	52544007	2	1	58	1	0	0	0	0	0	0	0	1	15236	1190	42	3		3	STAB1	3	52544007	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	187523	52544007	145478423	335	21710										
ITIH4	3700	broad.mit.edu	37	chr3	52855104	52855104	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggaactccgcctcctgctCtgccacactggactccgttt	8	17	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:52855104C>T	uc003dfz.2	-	12	1618	c.1582G>A	c.(1582-1584)GAG>AAG	p.E528K	ITIH4_uc011bel.1_Missense_Mutation_p.E258K|ITIH4_uc003dfy.2_Missense_Mutation_p.E392K|ITIH4_uc011bem.1_Missense_Mutation_p.E528K|ITIH4_uc011ben.1_Missense_Mutation_p.E528K	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	528					acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		GCCTCCTGCTCTGCCACACTG	0.577											OREG0015616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	94	70	---	---	---	---	PASS	T	52855104	T	T	52855104	3	4	58	1	0	0	0	0	1	0	0	0	7906	922	32	2	1262	2	ITIH4	3	52855104	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	311097	52855104	145167326	336	21711										
FLNB	2317	broad.mit.edu	37	chr3	58131689	58131689	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaactaccccaacagtggaAgtgtttctgcatacggtcca	9	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:58131689A>T	uc003djj.2	+	33	5632	c.5467A>T	c.(5467-5469)AGT>TGT	p.S1823C	FLNB_uc010hne.2_Missense_Mutation_p.S1854C|FLNB_uc003djk.2_Missense_Mutation_p.S1812C|FLNB_uc010hnf.2_Missense_Mutation_p.S1799C|FLNB_uc003djl.2_Missense_Mutation_p.S1643C|FLNB_uc003djm.2_Missense_Mutation_p.S1630C	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1823	Filamin 17.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		CAACAGTGGAAGTGTTTCTGC	0.507													73	67	---	---	---	---	PASS	T	58131689	T	T	58131689	3	4	58	1	0	0	0	0	1	0	0	0	5934	72	3	5	5694	5	FLNB	3	58131689	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	5276585	58131689	139890741	337	21712										
PRICKLE2	166336	broad.mit.edu	37	chr3	64138884	64138884	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttgggcacaggtgtcacaaTattctgcatacaaggactcg	11	9	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:64138884T>A	uc003dmf.2	-	6	1347	c.761A>T	c.(760-762)TAT>TTT	p.Y254F		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	254	LIM zinc-binding 3.					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)		GGTGTCACAATATTCTGCATA	0.498													98	93	---	---	---	---	PASS	A	64138884	A	A	64138884	3	1	58	1	0	0	0	0	1	0	0	0	12487	1406	49	5	1785	5	PRICKLE2	3	64138884	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	6007195	64138884	133883546	338	21713										
SHQ1	55164	broad.mit.edu	37	chr3	72891501	72891501	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agagcagttaacatgttcagCccctcaaaatgctggccagg	10	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:72891501C>A	uc003dpf.2	-	3	368	c.261G>T	c.(259-261)GGG>GGT	p.G87G	SHQ1_uc010hod.2_5'UTR	NM_018130	NP_060600	Q6PI26	SHQ1_HUMAN	SHQ1 homolog	87	CS.				ribonucleoprotein complex assembly	cytosol|nucleoplasm	protein binding			ovary(2)|large_intestine(1)	3		Prostate(10;0.00482)|Lung NSC(201;0.0339)|Myeloproliferative disorder(1037;0.204)		BRCA - Breast invasive adenocarcinoma(55;9.68e-05)|Epithelial(33;0.000563)|LUSC - Lung squamous cell carcinoma(21;0.00229)|Lung(16;0.00688)|KIRC - Kidney renal clear cell carcinoma(39;0.018)|Kidney(39;0.0213)		ACATGTTCAGCCCCTCAAAAT	0.363													4	113	---	---	---	---	PASS	A	72891501	A	A	72891501	2	1	58	1	0	0	0	0	0	0	0	1	14292	726	26	3		3	SHQ1	3	72891501	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	8752617	72891501	125130929	339	21714										
VGLL3	389136	broad.mit.edu	37	chr3	87027808	87027808	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtctccctggaaataagtgaAaaggacacagcgagagttaa	11	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:87027808A>G	uc003dqn.2	-	2	635	c.271T>C	c.(271-273)TTC>CTC	p.F91L		NM_016206	NP_057290	A8MV65	VGLL3_HUMAN	colon carcinoma related protein	91					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)		AAATAAGTGAAAAGGACACAG	0.403													47	40	---	---	---	---	PASS	G	87027808	G	G	87027808	3	3	58	1	0	0	0	0	1	0	0	0	17157	14	1	5	721	5	VGLL3	3	87027808	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	14136307	87027808	110994622	340	21715										
VGLL3	389136	broad.mit.edu	37	chr3	87027868	87027868	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggtctttctcctcctcctCctcctcctcatcctcctcct	2	22	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:87027868C>T	uc003dqn.2	-	2	575	c.211G>A	c.(211-213)GAG>AAG	p.E71K		NM_016206	NP_057290	A8MV65	VGLL3_HUMAN	colon carcinoma related protein	71					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)		tcctcctcctcctcctcctca	0.393													28	22	---	---	---	---	PASS	T	87027868	T	T	87027868	3	4	58	1	0	0	0	0	1	0	0	0	17157	864	30	2	781	2	VGLL3	3	87027868	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	60	87027868	110994562	341	21716										
MINA	84864	broad.mit.edu	37	chr3	97677934	97677934	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accggcctgccgatcctttcCtcggcctccacgctgtactc	8	19	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:97677934C>T	uc003drz.1	-	4	1148	c.642G>A	c.(640-642)GAG>GAA	p.E214E	MINA_uc003dsa.1_Silent_p.E214E|MINA_uc003dsb.1_Silent_p.E214E|MINA_uc003dsc.1_Silent_p.E214E|MINA_uc010hpa.1_RNA|MINA_uc010hpb.1_RNA	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	214	JmjC.				ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1						CGATCCTTTCCTCGGCCTCCA	0.552													28	21	---	---	---	---	PASS	T	97677934	T	T	97677934	2	4	58	1	0	0	0	0	0	0	0	1	9586	680	24	3		3	MINA	3	97677934	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	10650066	97677934	100344496	342	21717										
OR5K3	403277	broad.mit.edu	37	chr3	98109766	98109766	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caagatgttagagaacttctTttctgaggacaaaaggatta	9	5	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:98109766T>A	uc011bgw.1	+	1	257	c.257T>A	c.(256-258)TTT>TAT	p.F86Y		NM_001005516	NP_001005516	A6NET4	OR5K3_HUMAN	olfactory receptor, family 5, subfamily K,	86	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GAGAACTTCTTTTCTGAGGAC	0.413													280	186	---	---	---	---	PASS	A	98109766	A	A	98109766	3	1	58	1	0	0	0	0	1	0	0	0	11168	1841	64	5	259	5	OR5K3	3	98109766	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	431832	98109766	99912664	343	21718										
CCDC54	84692	broad.mit.edu	37	chr3	107097325	107097325	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagagatactgtccattcacTgggcccattttgagcttgac	9	11	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:107097325T>G	uc003dwi.1	+	1	1138	c.891T>G	c.(889-891)ACT>ACG	p.T297T		NM_032600	NP_115989	Q8NEL0	CCD54_HUMAN	coiled-coil domain containing 54	297											0						GTCCATTCACTGGGCCCATTT	0.423													92	59	---	---	---	---	PASS	G	107097325	G	G	107097325	2	3	58	1	0	0	0	0	0	0	0	1	2824	1567	55	5		5	CCDC54	3	107097325	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	8987559	107097325	90925105	344	21719										
PLCXD2	257068	broad.mit.edu	37	chr3	111426998	111426998	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgccgaccaggagatctactTcatccatgggctttttggca	10	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:111426998T>C	uc003dya.2	+	2	975	c.389T>C	c.(388-390)TTC>TCC	p.F130S	PLCXD2_uc003dyb.2_Missense_Mutation_p.F130S|PLCXD2_uc003dxz.2_Missense_Mutation_p.F130S	NM_001134478	NP_001127950	Q0VAA5	PLCX2_HUMAN	phosphatidylinositol-specific phospholipase C, X	130	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(1)	1						GAGATCTACTTCATCCATGGG	0.502													153	73	---	---	---	---	PASS	C	111426998	C	C	111426998	3	2	58	1	0	0	0	0	1	0	0	0	12042	1783	62	5	395	5	PLCXD2	3	111426998	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	4329673	111426998	86595432	345	21720										
CD200R1L	344807	broad.mit.edu	37	chr3	112546014	112546014	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgggatccaggagatctgggCagctggcttccctgtaactg	14	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:112546014C>A	uc003dzi.1	-	4	731	c.505G>T	c.(505-507)GCC>TCC	p.A169S	CD200R1L_uc011bhw.1_Missense_Mutation_p.A148S|CD200R1L_uc010hqf.1_Missense_Mutation_p.A148S	NM_001008784	NP_001008784	Q6Q8B3	MO2R2_HUMAN	CD200 cell surface glycoprotein receptor 2	169	Extracellular (Potential).|Ig-like C2-type.					integral to membrane	receptor activity			ovary(1)	1						GAGATCTGGGCAGCTGGCTTC	0.493													35	19	---	---	---	---	PASS	A	112546014	A	A	112546014	3	1	58	1	0	0	0	0	1	0	0	0	2982	710	25	3	322	3	CD200R1L	3	112546014	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1119016	112546014	85476416	346	21721										
ZDHHC23	254887	broad.mit.edu	37	chr3	113673034	113673034	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggagtgcctgagcagaaaaGggcaggagaagaccaaaggg	17	6	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:113673034G>T	uc003eau.2	+	3	948	c.649G>T	c.(649-651)GGG>TGG	p.G217W	ZDHHC23_uc003eav.2_Missense_Mutation_p.G211W	NM_173570	NP_775841	Q8IYP9	ZDH23_HUMAN	zinc finger, DHHC domain containing 23	217						integral to membrane	acyltransferase activity|zinc ion binding			ovary(2)	2						GAGCAGAAAAGGGCAGGAGAA	0.557													113	96	---	---	---	---	PASS	T	113673034	T	T	113673034	3	4	58	1	0	0	0	0	1	0	0	0	17611	1000	35	3	655	3	ZDHHC23	3	113673034	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1127020	113673034	84349396	347	21722										
STXBP5L	9515	broad.mit.edu	37	chr3	120941900	120941900	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtcctatgacaaagcttgtaGaagaccaagtttaaccatca	7	9	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:120941900G>T	uc003eec.3	+	11	1147	c.1007G>T	c.(1006-1008)AGA>ATA	p.R336I	STXBP5L_uc011bji.1_Missense_Mutation_p.R336I	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	336	WD 6.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		AAAGCTTGTAGAAGACCAAGT	0.368													115	86	---	---	---	---	PASS	T	120941900	T	T	120941900	3	4	58	1	0	0	0	0	1	0	0	0	15356	942	33	2	1045	2	STXBP5L	3	120941900	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	7268866	120941900	77080530	348	21723										
MYLK	4638	broad.mit.edu	37	chr3	123452850	123452850	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggaccggggtctgcggggcCgttctgggcgagtccttgca	18	11	2	0	rs55932343	by1000genomes	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:123452850C>A	uc003ego.2	-	10	1275	c.993G>T	c.(991-993)ACG>ACT	p.T331T	MYLK_uc011bjw.1_Silent_p.T331T|MYLK_uc003egp.2_Silent_p.T331T|MYLK_uc003egq.2_Silent_p.T331T|MYLK_uc003egr.2_Silent_p.T331T|MYLK_uc003egs.2_Silent_p.T155T	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	331					aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		TCTGCGGGGCCGTTCTGGGCG	0.652													87	45	---	---	---	---	PASS	A	123452850	A	A	123452850	2	1	58	1	0	0	0	0	0	0	0	1	10056	639	23	1		1	MYLK	3	123452850	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2510950	123452850	74569580	349	21724										
KALRN	8997	broad.mit.edu	37	chr3	124201667	124201667	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccctgcaggagatacaacagCggcatggtctggccaactcc	11	14	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:124201667C>A	uc003ehg.2	+	28	4325	c.4198C>A	c.(4198-4200)CGG>AGG	p.R1400R	KALRN_uc010hrv.1_Silent_p.R1391R|KALRN_uc003ehf.1_Silent_p.R1400R|KALRN_uc011bjy.1_Silent_p.R1391R|KALRN_uc003ehh.1_Silent_p.R746R	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1400	DH 1.				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						GATACAACAGCGGCATGGTCT	0.507													75	59	---	---	---	---	PASS	A	124201667	A	A	124201667	2	1	58	1	0	0	0	0	0	0	0	1	7975	759	27	1		1	KALRN	3	124201667	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	748817	124201667	73820763	350	21725										
OSBPL11	114885	broad.mit.edu	37	chr3	125266342	125266342	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgacactgactttgccaccCagttctacccaaggaacagt	7	13	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:125266342C>A	uc003eic.2	-	10	2486	c.1749G>T	c.(1747-1749)CTG>CTT	p.L583L		NM_022776	NP_073613	Q9BXB4	OSB11_HUMAN	oxysterol binding protein-like 11	583					lipid transport		lipid binding			ovary(3)|breast(1)|kidney(1)	5						CTTTGCCACCCAGTTCTACCC	0.438													84	44	---	---	---	---	PASS	A	125266342	A	A	125266342	2	1	58	1	0	0	0	0	0	0	0	1	11276	581	21	3		3	OSBPL11	3	125266342	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1064675	125266342	72756088	351	21726										
CLSTN2	64084	broad.mit.edu	37	chr3	140282882	140282882	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtggccatgggtgtgtaccgGgtccggatcgcccaccagca	15	13	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:140282882G>T	uc003etn.2	+	16	2752	c.2562G>T	c.(2560-2562)CGG>CGT	p.R854R		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	854	Cytoplasmic (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						GTGTGTACCGGGTCCGGATCG	0.547										HNSCC(16;0.037)			130	74	---	---	---	---	PASS	T	140282882	T	T	140282882	2	4	58	1	0	0	0	0	0	0	0	1	3562	1219	43	3		3	CLSTN2	3	140282882	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	15016540	140282882	57739548	352	21727										
ZIC1	7545	broad.mit.edu	37	chr3	147128169	147128169	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggccacgtcggctcctattcCagcgcagccttcaactccac	8	18	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:147128169C>T	uc003ewe.2	+	1	989	c.270C>T	c.(268-270)TCC>TCT	p.S90S		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	90					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GCTCCTATTCCAGCGCAGCCT	0.687													8	35	---	---	---	---	PASS	T	147128169	T	T	147128169	2	4	58	1	0	0	0	0	0	0	0	1	17675	581	21	3		3	ZIC1	3	147128169	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	6845287	147128169	50894261	353	21728										
AGTR1	185	broad.mit.edu	37	chr3	148459207	148459207	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcagcattgatcgatacctgGctattgttcacccaatgaag	8	10	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:148459207G>T	uc003ewg.2	+	4	831	c.385G>T	c.(385-387)GCT>TCT	p.A129S	AGTR1_uc003ewh.2_Missense_Mutation_p.A129S|AGTR1_uc003ewi.2_Missense_Mutation_p.A129S|AGTR1_uc003ewj.2_Missense_Mutation_p.A129S|AGTR1_uc003ewk.2_Missense_Mutation_p.A129S	NM_031850	NP_114038	P30556	AGTR1_HUMAN	angiotensin II receptor, type 1	129	Cytoplasmic (Potential).				calcium-mediated signaling|cell chemotaxis|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|kidney development|low-density lipoprotein particle remodeling|positive regulation of cellular protein metabolic process|positive regulation of cholesterol esterification|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of phospholipase A2 activity|positive regulation of reactive oxygen species metabolic process|regulation of cell growth|regulation of cell proliferation|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|Rho protein signal transduction		acetyltransferase activator activity|angiotensin type I receptor activity|angiotensin type II receptor activity|bradykinin receptor binding|protein heterodimerization activity				0			LUSC - Lung squamous cell carcinoma(72;0.127)|Lung(72;0.152)		Candesartan(DB00796)|Eprosartan(DB00876)|Forasartan(DB01342)|Irbesartan(DB01029)|Losartan(DB00678)|Olmesartan(DB00275)|Saprisartan(DB01347)|Spironolactone(DB00421)|Tasosartan(DB01349)|Telmisartan(DB00966)|Valsartan(DB00177)	TCGATACCTGGCTATTGTTCA	0.493													131	131	---	---	---	---	PASS	T	148459207	T	T	148459207	3	4	58	1	0	0	0	0	1	0	0	0	401	1203	42	3	387	3	AGTR1	3	148459207	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1331038	148459207	49563223	354	21729										
CPB1	1360	broad.mit.edu	37	chr3	148552407	148552407	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagcagaatgaactacaataCaagtaagtttatgttttata	6	4	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:148552407C>G	uc003ewl.2	+	3	293	c.270C>G	c.(268-270)TAC>TAG	p.Y90*		NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein	90					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			AACTACAATACAAGTAAGTTT	0.323													19	124	---	---	---	---	PASS	G	148552407	G	G	148552407	4	3	58	1	0	0	0	0	0	1	0	0	3796	489	17	4	280	4	CPB1	3	148552407	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	93200	148552407	49470023	355	21730										
P2RY14	9934	broad.mit.edu	37	chr3	150931184	150931184	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatggaatgtgcaatttcttAcataagatttccctaaacgg	7	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:150931184A>T	uc003eyr.1	-	3	1399	c.921T>A	c.(919-921)TGT>TGA	p.C307*	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY14_uc003eys.1_Nonsense_Mutation_p.C307*	NM_001081455	NP_001074924	Q15391	P2Y14_HUMAN	P2Y14 receptor	307	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled|UDP-activated nucleotide receptor activity			large_intestine(2)|ovary(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GCAATTTCTTACATAAGATTT	0.358													124	140	---	---	---	---	PASS	T	150931184	T	T	150931184	4	4	58	1	0	0	0	0	0	1	0	0	11351	389	14	5	99	5	P2RY14	3	150931184	Nonsense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	2378777	150931184	47091246	356	21731										
AADACL2	344752	broad.mit.edu	37	chr3	151463429	151463429	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgaatctgcattgcgggagaCagttctgggggcaatttagc	14	8	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:151463429C>G	uc003ezc.2	+	4	684	c.564C>G	c.(562-564)GAC>GAG	p.D188E	AADACL2_uc010hvn.2_5'UTR	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2 precursor	188						extracellular region|integral to membrane	carboxylesterase activity				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			TTGCGGGAGACAGTTCTGGGG	0.333													22	168	---	---	---	---	PASS	G	151463429	G	G	151463429	3	3	58	1	0	0	0	0	1	0	0	0	11	477	17	4	578	4	AADACL2	3	151463429	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	532245	151463429	46559001	357	21732										
PLCH1	23007	broad.mit.edu	37	chr3	155199359	155199359	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgatgttaagtcccccagacTtttggatttgcaaggactag	10	8	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:155199359T>C	uc011bok.1	-	23	4757	c.4480A>G	c.(4480-4482)AGT>GGT	p.S1494G	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.S1456G	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1494					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TCCCCCAGACTTTTGGATTTG	0.443													15	96	---	---	---	---	PASS	C	155199359	C	C	155199359	3	2	58	1	0	0	0	0	1	0	0	0	12037	1609	56	5	605	5	PLCH1	3	155199359	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	3735930	155199359	42823071	358	21733										
MFSD1	64747	broad.mit.edu	37	chr3	158519984	158519984	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgcgggcgctcctggcaggcGgccctgacgaggccgacaga	17	15	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:158519984G>C	uc003fcl.1	+	1	73	c.43G>C	c.(43-45)GGC>CGC	p.G15R	MFSD1_uc003fcm.1_RNA|MFSD1_uc003fcn.1_5'UTR|MFSD1_uc011bow.1_Missense_Mutation_p.G15R|MFSD1_uc011box.1_5'UTR	NM_022736	NP_073573	Q9H3U5	MFSD1_HUMAN	major facilitator superfamily domain containing	15					transmembrane transport	integral to membrane					0			Lung(72;0.00372)|LUSC - Lung squamous cell carcinoma(72;0.00523)			CCTGGCAGGCGGCCCTGACGA	0.692													12	3	---	---	---	---	PASS	C	158519984	C	C	158519984	3	2	58	1	0	0	0	0	1	0	0	0	9527	1116	39	4	192	4	MFSD1	3	158519984	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3320625	158519984	39502446	359	21734										
SCHIP1	29970	broad.mit.edu	37	chr3	158980335	158980335	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgttttgttttgttttttcAgcattcagcgagcatggcga	10	6	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:158980335A>T	uc003fcq.1	+	4	261	c.156_splice	c.e4-2	p.I52_splice	SCHIP1_uc003fcr.1_Splice_Site|IQCJ_uc003fco.2_Splice_Site_p.I52_splice|IQCJ_uc010hvy.1_Splice_Site_p.N25_splice|IQCJ_uc003fcp.1_Splice_Site_p.I52_splice	NM_014575	NP_055390	Q9P0W5	SCHI1_HUMAN	schwannomin interacting protein 1							cytoplasm	identical protein binding|protein binding			ovary(1)|central_nervous_system(1)	2			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			TTGTTTTTTCAGCATTCAGCG	0.512													50	59	---	---	---	---	PASS	T	158980335	T	T	158980335	5	4	58	1	0	0	0	0	0	0	1	0	13904	202	7	5		5	SCHIP1	3	158980335	Splice_Site	SNP	A	TCGA-33-4566-01A-01D-1441-08	460351	158980335	39042095	360	21735										
SI	6476	broad.mit.edu	37	chr3	164777795	164777795	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaagattccaatatgctggCattgctggtagtccaacaag	9	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:164777795C>A	uc003fei.2	-	10	1103	c.1041G>T	c.(1039-1041)ATG>ATT	p.M347I		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	347	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)	AATATGCTGGCATTGCTGGTA	0.363										HNSCC(35;0.089)			111	85	---	---	---	---	PASS	A	164777795	A	A	164777795	3	1	58	1	0	0	0	0	1	0	0	0	14297	710	25	3	4598	3	SI	3	164777795	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5797460	164777795	33244635	361	21736										
GOLIM4	27333	broad.mit.edu	37	chr3	167750452	167750452	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acctgctccatttcttcctcCtccagggcctttctgtgctc	6	17	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:167750452C>A	uc003ffe.2	-	9	1376	c.1032G>T	c.(1030-1032)GAG>GAT	p.E344D	GOLIM4_uc011bpe.1_Missense_Mutation_p.E344D|GOLIM4_uc011bpf.1_Missense_Mutation_p.E316D|GOLIM4_uc011bpg.1_Missense_Mutation_p.E316D	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	344	Glu-rich.|Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						TTTCTTCCTCCTCCAGGGCCT	0.552													76	57	---	---	---	---	PASS	A	167750452	A	A	167750452	3	1	58	1	0	0	0	0	1	0	0	0	6566	680	24	3	1090	3	GOLIM4	3	167750452	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2972657	167750452	30271978	362	21737										
TNIK	23043	broad.mit.edu	37	chr3	170802911	170802911	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcccttcttgcttacctgcGgctgatgattcctcatcctc	8	15	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:170802911G>A	uc003fhh.2	-	25	3339	c.2994C>T	c.(2992-2994)GCC>GCT	p.A998A	TNIK_uc003fhi.2_Silent_p.A943A|TNIK_uc003fhj.2_Silent_p.A969A|TNIK_uc003fhk.2_Silent_p.A990A|TNIK_uc003fhl.2_Silent_p.A914A|TNIK_uc003fhm.2_Silent_p.A935A|TNIK_uc003fhn.2_Silent_p.A961A|TNIK_uc003fho.2_Silent_p.A906A|TNIK_uc003fhg.2_Silent_p.A176A|TNIK_uc003fhp.2_5'Flank	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	998	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			GCTTACCTGCGGCTGATGATT	0.483													5	25	---	---	---	---	PASS	A	170802911	A	A	170802911	2	1	58	1	0	0	0	0	0	0	0	1	16310	1103	39	1		1	TNIK	3	170802911	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	3052459	170802911	27219519	363	21738										
SPATA16	83893	broad.mit.edu	37	chr3	172835288	172835288	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttccgtttaaaggctgctttCtctaaatcattgctttgttt	6	8	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:172835288C>A	uc003fin.3	-	2	392	c.234G>T	c.(232-234)GAG>GAT	p.E78D		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	78					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			AGGCTGCTTTCTCTAAATCAT	0.368													219	125	---	---	---	---	PASS	A	172835288	A	A	172835288	3	1	58	1	0	0	0	0	1	0	0	0	15000	912	32	2	1515	2	SPATA16	3	172835288	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2032377	172835288	25187142	364	21739										
EPHB3	2049	broad.mit.edu	37	chr3	184295691	184295691	+	Frame_Shift_Del	DEL	G	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttctctatctccaggctctGgggcccagcagctccaggag							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:184295691delG	uc003foz.2	+	8	2082	c.1645delG	c.(1645-1647)GGGfs	p.G549fs		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	549	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			TCCAGGCTCTGGGGCCCAGCA	0.632													48	61	---	---	---	---		-	184295691	-	-	184295691	7	5	58	1	0	1	0	1	0	0	0	0	5176	1348	47	0	1675	0	EPHB3	3	184295691	Frame_Shift_Del	DEL	G	TCGA-33-4566-01A-01D-1441-08	11460403	184295691	13726739	365	21740										
IL1RAP	3556	broad.mit.edu	37	chr3	190366198	190366198	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgttctaagccccaactacGtgctccagggaacccaagcc	8	15	1	0	rs34661910	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr3:190366198G>C	uc003fsm.1	+	12	1623	c.1417G>C	c.(1417-1419)GTG>CTG	p.V473L	IL1RAP_uc010hzg.1_Missense_Mutation_p.V473L|IL1RAP_uc003fsn.1_RNA|IL1RAP_uc003fso.1_Missense_Mutation_p.V473L|IL1RAP_uc003fsp.1_RNA|IL1RAP_uc003fsq.2_Intron	NM_002182	NP_002173	Q9NPH3	IL1AP_HUMAN	interleukin 1 receptor accessory protein isoform	473	Cytoplasmic (Potential).|TIR.				inflammatory response|innate immune response|protein complex assembly	extracellular region|integral to plasma membrane				ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0733)|Breast(254;0.21)		Lung(62;1.95e-06)|LUSC - Lung squamous cell carcinoma(58;2.05e-06)	GBM - Glioblastoma multiforme(93;0.00851)		CCCCAACTACGTGCTCCAGGG	0.493													176	85	---	---	---	---	PASS	C	190366198	C	C	190366198	3	2	58	1	0	0	0	0	1	0	0	0	7660	1145	40	4	1475	4	IL1RAP	3	190366198	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6070507	190366198	7656232	366	21741										
ZNF721	170960	broad.mit.edu	37	chr4	437772	437772	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcacatttgtaaggtttctCtccagtatgaattttcttgt	6	7	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:437772C>A	uc003gag.2	-	3	1175	c.484G>T	c.(484-486)GAG>TAG	p.E162*	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Nonsense_Mutation_p.E194*|ZNF721_uc010ibe.2_Nonsense_Mutation_p.E150*	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	162						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						TAAGGTTTCTCTCCAGTATGA	0.403													39	90	---	---	---	---	PASS	A	437772	A	A	437772	4	1	58	1	0	0	0	0	0	1	0	0	18119	922	32	2	2291	2	ZNF721	4	437772	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08		437772	190716504	367	21742										
FGFRL1	53834	broad.mit.edu	37	chr4	1018425	1018425	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acaccatgggctacagcttcCgcagcgccttcctcaccgtg	9	17	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:1018425C>T	uc003gce.2	+	6	1206	c.1045C>T	c.(1045-1047)CGC>TGC	p.R349C	FGFRL1_uc003gcf.2_Missense_Mutation_p.R349C|FGFRL1_uc003gcg.2_Missense_Mutation_p.R349C|FGFRL1_uc010ibo.2_Missense_Mutation_p.R349C	NM_021923	NP_068742	Q8N441	FGRL1_HUMAN	fibroblast growth factor receptor-like 1	349	Ig-like C2-type 3.|Extracellular (Potential).				regulation of cell growth	integral to membrane|plasma membrane	fibroblast growth factor receptor activity|heparin binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CTACAGCTTCCGCAGCGCCTT	0.692													7	42	---	---	---	---	PASS	T	1018425	T	T	1018425	3	4	58	1	0	0	0	0	1	0	0	0	5869	652	23	1	1063	1	FGFRL1	4	1018425	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	580653	1018425	190135851	368	21743										
D4S234E	27065	broad.mit.edu	37	chr4	4419021	4419021	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcggagcaagactccagtgcCcgggagaaattttacacagt	12	10	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:4419021C>A	uc011bvz.1	+	8	1698	c.417C>A	c.(415-417)GCC>GCA	p.A139A	D4S234E_uc011bwa.1_Silent_p.A100A|D4S234E_uc003ghz.2_Silent_p.A139A|D4S234E_uc003gia.2_Silent_p.A139A|D4S234E_uc003gib.2_Silent_p.A139A	NM_014392	NP_055207	P42857	NSG1_HUMAN	brain neuron cytoplasmic protein 1	139	Lumenal (Potential).				dopamine receptor signaling pathway	Golgi membrane|integral to membrane|nucleus	dopamine receptor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.166)		ACTCCAGTGCCCGGGAGAAAT	0.547													11	120	---	---	---	---	PASS	A	4419021	A	A	4419021	2	1	58	1	0	0	0	0	0	0	0	1	4214	610	22	3		3	D4S234E	4	4419021	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	3400596	4419021	186735255	369	21744										
EVC2	132884	broad.mit.edu	37	chr4	5564592	5564592	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggctagtccatgcccaaggCcctcatggcctttttggcat	11	13	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:5564592C>T	uc003gij.2	-	22	3964	c.3910G>A	c.(3910-3912)GCC>ACC	p.A1304T	EVC2_uc011bwb.1_Missense_Mutation_p.A744T|EVC2_uc003gik.2_Missense_Mutation_p.A1224T	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1304						integral to membrane				large_intestine(3)|ovary(2)	5						ATGCCCAAGGCCCTCATGGCC	0.483													40	85	---	---	---	---	PASS	T	5564592	T	T	5564592	3	4	58	1	0	0	0	0	1	0	0	0	5286	739	26	3	20	3	EVC2	4	5564592	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1145571	5564592	185589684	370	21745										
EVC	2121	broad.mit.edu	37	chr4	5800437	5800437	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcttctgcagcagcacatggAgtgcgccattgggcaggcgc	15	12	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:5800437A>C	uc003gil.1	+	15	2406	c.2222A>C	c.(2221-2223)GAG>GCG	p.E741A	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	741					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				CAGCACATGGAGTGCGCCATT	0.642													4	11	---	---	---	---	PASS	C	5800437	C	C	5800437	3	2	58	1	0	0	0	0	1	0	0	0	5285	304	11	5	2280	5	EVC	4	5800437	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	235845	5800437	185353839	371	21746										
SH3TC1	54436	broad.mit.edu	37	chr4	8229084	8229084	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggcggccaagaaagctggcCtcctcatggccctggccagg	15	14	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:8229084C>T	uc003gkv.3	+	12	1764	c.1663C>T	c.(1663-1665)CTC>TTC	p.L555F	SH3TC1_uc003gkw.3_Missense_Mutation_p.L479F|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	555							binding			large_intestine(2)|pancreas(1)	3						GAAAGCTGGCCTCCTCATGGC	0.697													7	22	---	---	---	---	PASS	T	8229084	T	T	8229084	3	4	58	1	0	0	0	0	1	0	0	0	14261	681	24	3	1705	3	SH3TC1	4	8229084	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2428647	8229084	182925192	372	21747										
DEFB131	644414	broad.mit.edu	37	chr4	9452106	9452106	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagaagcttcatttctaatGatgaatgtccttcagaatat	6	8	3	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:9452106G>A	uc011bwt.1	+	2	79	c.79G>A	c.(79-81)GAT>AAT	p.D27N		NM_001040448	NP_001035538	P59861	DB131_HUMAN	defensin, beta 131 precursor	27					defense response to bacterium	extracellular region					0						CATTTCTAATGATGAATGTCC	0.308													4	50	---	---	---	---	PASS	A	9452106	A	A	9452106	3	1	58	1	0	0	0	0	1	0	0	0	4416	1290	45	2	85	2	DEFB131	4	9452106	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1223022	9452106	181702170	373	21748										
PROM1	8842	broad.mit.edu	37	chr4	15995679	15995679	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agagtgccgtaagtgcctctAttttttttgcagtcactgtg	10	8	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:15995679A>G	uc003goo.2	-	15	1910	c.1698T>C	c.(1696-1698)AAT>AAC	p.N566N	PROM1_uc003gor.2_Silent_p.N566N|PROM1_uc003gos.2_Silent_p.N557N|PROM1_uc003got.2_Silent_p.N566N|PROM1_uc003gou.2_Silent_p.N557N|PROM1_uc003gop.2_Silent_p.N557N|PROM1_uc003goq.3_Silent_p.N557N	NM_006017	NP_006008	O43490	PROM1_HUMAN	prominin 1 isoform 1	566	Extracellular (Potential).				camera-type eye photoreceptor cell differentiation|photoreceptor cell maintenance|retina layer formation	apical plasma membrane|cell surface|integral to plasma membrane|microvillus membrane|photoreceptor outer segment membrane|plasma membrane	beta-actinin binding|cadherin binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	7						AAGTGCCTCTATTTTTTTTGC	0.423													37	73	---	---	---	---	PASS	G	15995679	G	G	15995679	2	3	58	1	0	0	0	0	0	0	0	1	12555	446	16	5		5	PROM1	4	15995679	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	6543573	15995679	175158597	374	21749										
CLRN2	645104	broad.mit.edu	37	chr4	17528607	17528607	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagcgcttcggcccatgctGcaaacttggtcgtggtggcg	14	13	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:17528607G>T	uc003gpg.1	+	3	703	c.601G>T	c.(601-603)GCA>TCA	p.A201S		NM_001079827	NP_001073296	A0PK11	CLRN2_HUMAN	clarin 2	201	Helical; (Potential).					integral to membrane					0						GGCCCATGCTGCAAACTTGGT	0.493													25	51	---	---	---	---	PASS	T	17528607	T	T	17528607	3	4	58	1	0	0	0	0	1	0	0	0	3558	1319	46	3	611	3	CLRN2	4	17528607	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1532928	17528607	173625669	375	21750										
SLIT2	9353	broad.mit.edu	37	chr4	20618799	20618799	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccctctgtgaccaacggaccAatgacccttgccttggaaat	8	14	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:20618799A>T	uc003gpr.1	+	35	4318	c.4114A>T	c.(4114-4116)AAT>TAT	p.N1372Y	SLIT2_uc003gps.1_Missense_Mutation_p.N1364Y	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1372					apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CCAACGGACCAATGACCCTTG	0.552													22	61	---	---	---	---	PASS	T	20618799	T	T	20618799	3	4	58	1	0	0	0	0	1	0	0	0	14740	130	5	5	4252	5	SLIT2	4	20618799	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	3090192	20618799	170535477	376	21751										
SLIT2	9353	broad.mit.edu	37	chr4	20620619	20620619	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtgaagtgcggctgtacgaGgtgtgtgtcctaaacacact	14	8	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:20620619G>C	uc003gpr.1	+	37	4781	c.4577G>C	c.(4576-4578)AGG>ACG	p.R1526T	SLIT2_uc003gps.1_Missense_Mutation_p.R1518T	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1526	CTCK.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GGCTGTACGAGGTGTGTGTCC	0.498													27	63	---	---	---	---	PASS	C	20620619	C	C	20620619	3	2	58	1	0	0	0	0	1	0	0	0	14740	1000	35	4	4723	4	SLIT2	4	20620619	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1820	20620619	170533657	377	21752										
PDS5A	23244	broad.mit.edu	37	chr4	39868592	39868592	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttttcatacccaacagccacCttaccagaagtttaattgcc	4	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:39868592C>A	uc003guv.3	-	23	3071	c.2531G>T	c.(2530-2532)AGG>ATG	p.R844M	PDS5A_uc010ifo.2_Missense_Mutation_p.R804M	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	844					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						CAACAGCCACCTTACCAGAAG	0.343													7	24	---	---	---	---	PASS	A	39868592	A	A	39868592	3	1	58	1	0	0	0	0	1	0	0	0	11691	681	24	3	1526	3	PDS5A	4	39868592	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	19247973	39868592	151285684	378	21753										
N4BP2	55728	broad.mit.edu	37	chr4	40121773	40121773	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgctttaattctggaaactcCacacatgtatttttctgact	5	9	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:40121773C>A	uc003guy.3	+	9	2380	c.2042C>A	c.(2041-2043)CCA>CAA	p.P681Q	N4BP2_uc010ifq.2_Missense_Mutation_p.P601Q|N4BP2_uc010ifr.2_Missense_Mutation_p.P601Q	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	681						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						CTGGAAACTCCACACATGTAT	0.338													40	96	---	---	---	---	PASS	A	40121773	A	A	40121773	3	1	58	1	0	0	0	0	1	0	0	0	10110	594	21	3	2068	3	N4BP2	4	40121773	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	253181	40121773	151032503	379	21754										
RHOH	399	broad.mit.edu	37	chr4	40245257	40245257	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgtggtgctgatgtgctactCtgtggccaaccataactcat	10	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:40245257C>A	uc003guz.2	+	3	975	c.251C>A	c.(250-252)TCT>TAT	p.S84Y		NM_004310	NP_004301	Q15669	RHOH_HUMAN	ras homolog gene family, member H precursor	84	Interaction with ZAP70 (By similarity).				negative regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|T cell differentiation	cytosol|mitochondrion|plasma membrane	GTP binding|GTPase inhibitor activity|kinase inhibitor activity|Rho GTPase binding			ovary(1)|lung(1)	2						ATGTGCTACTCTGTGGCCAAC	0.567													11	38	---	---	---	---	PASS	A	40245257	A	A	40245257	3	1	58	1	0	0	0	0	1	0	0	0	13340	913	32	2	253	2	RHOH	4	40245257	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	123484	40245257	150909019	380	21755										
KCTD8	386617	broad.mit.edu	37	chr4	44450284	44450284	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtccctgggcagctcgcccCggcgccgggcgccgccacgg	16	19	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:44450284C>A	uc003gwu.2	-	1	541	c.257G>T	c.(256-258)CGG>CTG	p.R86L		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	86	BTB.					cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						CAGCTcgccccggcgccgggc	0.537										HNSCC(17;0.042)			5	10	---	---	---	---	PASS	A	44450284	A	A	44450284	3	1	58	1	0	0	0	0	1	0	0	0	8115	652	23	1	1172	1	KCTD8	4	44450284	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4205027	44450284	146703992	381	21756										
YIPF7	285525	broad.mit.edu	37	chr4	44626800	44626800	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaaactgaacttttcctgcCtgaaacgacgtgaagaaaaa	7	10	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:44626800C>A	uc010ifx.1	-	5	516	c.499_splice	c.e5-1	p.A167_splice		NM_182592	NP_872398	Q8N8F6	YIPF7_HUMAN	Yip1 domain family, member 7							endoplasmic reticulum membrane|integral to membrane					0						CTTTTCCTGCCTGAAACGACG	0.453													6	15	---	---	---	---	PASS	A	44626800	A	A	44626800	5	1	58	1	0	0	0	0	0	0	1	0	17480	695	24	3	352	3	YIPF7	4	44626800	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	176516	44626800	146527476	382	21757										
PDGFRA	5156	broad.mit.edu	37	chr4	54248489	54248489	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agatgaaactgctgaaaatgGtgtaccaaaaccggtaacat	9	7	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:54248489G>T	uc003haa.2	+	4	401	c.215G>T	c.(214-216)GGT>GTT	p.G72V	FIP1L1_uc003gzx.3_Missense_Mutation_p.G57V|FIP1L1_uc011bzt.1_Missense_Mutation_p.G72V|FIP1L1_uc003gzy.2_Missense_Mutation_p.G72V|FIP1L1_uc011bzu.1_Missense_Mutation_p.G57V|FIP1L1_uc003gzz.2_Missense_Mutation_p.G57V|FIP1L1_uc003hab.2_Missense_Mutation_p.G60V|FIP1L1_uc003hac.2_5'UTR	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	1053	Ser-rich.|Cytoplasmic (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	GCTGAAAATGGTGTACCAAAA	0.358			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			30	56	---	---	---	---	PASS	T	54248489	T	T	54248489	3	4	58	1	0	0	0	0	1	0	0	0	11661	1261	44	3		3	PDGFRA	4	54248489	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	9621689	54248489	136905787	383	21758										
KDR	3791	broad.mit.edu	37	chr4	55974023	55974023	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccgtactggtaggaatccacAggagagattagagatttctc	11	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:55974023A>T	uc003has.2	-	10	1595	c.1293T>A	c.(1291-1293)CCT>CCA	p.P431P	KDR_uc003hat.1_Silent_p.P431P|KDR_uc011bzx.1_Silent_p.P431P	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	431	Ig-like C2-type 5.|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)	AGGAATCCACAGGAGAGATTA	0.473			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			7	125	---	---	---	---	PASS	T	55974023	T	T	55974023	2	4	58	1	0	0	0	0	0	0	0	1	8139	175	7	5		5	KDR	4	55974023	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	1725534	55974023	135180253	384	21759										
LPHN3	23284	broad.mit.edu	37	chr4	62845285	62845285	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcattgtgtttccagcacaGtgatgcggtccatgacctcc	9	12	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:62845285G>T	uc010ihh.2	+	15	2779	c.2606G>T	c.(2605-2607)AGT>ATT	p.S869I	LPHN3_uc003hcq.3_Missense_Mutation_p.S869I|LPHN3_uc003hct.2_Missense_Mutation_p.S262I	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	856	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						TTCCAGCACAGTGATGCGGTC	0.408													16	245	---	---	---	---	PASS	T	62845285	T	T	62845285	3	4	58	1	0	0	0	0	1	0	0	0	8917	1029	36	3	2664	3	LPHN3	4	62845285	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6871262	62845285	128308991	385	21760										
EPHA5	2044	broad.mit.edu	37	chr4	66213856	66213856	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccataactccagacatcactGgcagaagtaaactttcggaa	7	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:66213856G>T	uc003hcy.2	-	15	2767	c.2574C>A	c.(2572-2574)GCC>GCA	p.A858A	EPHA5_uc003hcx.2_Silent_p.A790A|EPHA5_uc003hcz.2_Silent_p.A836A|EPHA5_uc011cah.1_Silent_p.A859A|EPHA5_uc011cai.1_Silent_p.A837A|EPHA5_uc003hda.2_Silent_p.A859A	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	858	Cytoplasmic (Potential).|Protein kinase.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						AGACATCACTGGCAGAAGTAA	0.398										TSP Lung(17;0.13)			38	77	---	---	---	---	PASS	T	66213856	T	T	66213856	2	4	58	1	0	0	0	0	0	0	0	1	5170	1335	47	3		3	EPHA5	4	66213856	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	3368571	66213856	124940420	386	21761										
EPHA5	2044	broad.mit.edu	37	chr4	66270123	66270123	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaggacgccgataaccactgCcaacaaaatgactcccactg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:66270123C>A	uc003hcy.2	-	8	1952	c.1759G>T	c.(1759-1761)GCA>TCA	p.A587S	EPHA5_uc003hcx.2_Missense_Mutation_p.A519S|EPHA5_uc003hcz.2_Missense_Mutation_p.A587S|EPHA5_uc011cah.1_Missense_Mutation_p.A588S|EPHA5_uc011cai.1_Missense_Mutation_p.A588S|EPHA5_uc003hda.2_Missense_Mutation_p.A588S	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	587	Helical; (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						ATAACCACTGCCAACAAAATG	0.483										TSP Lung(17;0.13)			10	42	---	---	---	---	PASS	A	66270123	A	A	66270123	3	1	58	1	0	0	0	0	1	0	0	0	5170	739	26	3	1398	3	EPHA5	4	66270123	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	56267	66270123	124884153	387	21762	483	2								
EPHA5	2044	broad.mit.edu	37	chr4	66270124	66270124	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggacgccgataaccactgcCaacaaaatgactcccactgt							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:66270124C>A	uc003hcy.2	-	8	1951	c.1758G>T	c.(1756-1758)TTG>TTT	p.L586F	EPHA5_uc003hcx.2_Missense_Mutation_p.L518F|EPHA5_uc003hcz.2_Missense_Mutation_p.L586F|EPHA5_uc011cah.1_Missense_Mutation_p.L587F|EPHA5_uc011cai.1_Missense_Mutation_p.L587F|EPHA5_uc003hda.2_Missense_Mutation_p.L587F	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	586	Helical; (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TAACCACTGCCAACAAAATGA	0.478										TSP Lung(17;0.13)			10	41	---	---	---	---	PASS	A	66270124	A	A	66270124	3	1	58	1	0	0	0	0	1	0	0	0	5170	593	21	3	1399	3	EPHA5	4	66270124	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1	66270124	124884152	388	21763	483	2								
UGT2B11	10720	broad.mit.edu	37	chr4	70079792	70079792	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaaaagtcaaaataaagcaCatagatcatattttttaccc	3	9	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:70079792C>G	uc003heh.2	-	1	658	c.649G>C	c.(649-651)GTG>CTG	p.V217L	uc003hei.1_Intron	NM_001073	NP_001064	O75310	UDB11_HUMAN	UDP glucuronosyltransferase 2 family,	217					estrogen metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3						AAATAAAGCACATAGATCATA	0.343													13	57	---	---	---	---	PASS	G	70079792	G	G	70079792	3	3	58	1	0	0	0	0	1	0	0	0	16954	478	17	4	964	4	UGT2B11	4	70079792	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3809668	70079792	121074484	389	21764										
NPFFR2	10886	broad.mit.edu	37	chr4	72897664	72897664	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cggccagctggtgcctcctgGaaagtgacgtctcatctgca	12	13	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:72897664G>A	uc003hgg.2	+	1	144	c.46G>A	c.(46-48)GAA>AAA	p.E16K	NPFFR2_uc010iig.1_5'UTR	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	16	Extracellular (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			GTGCCTCCTGGAAAGTGACGT	0.632													16	32	---	---	---	---	PASS	A	72897664	A	A	72897664	3	1	58	1	0	0	0	0	1	0	0	0	10578	1175	41	2	48	2	NPFFR2	4	72897664	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2817872	72897664	118256612	390	21765										
ANKRD17	26057	broad.mit.edu	37	chr4	74010501	74010501	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aacagtacaaacatgaccagCtcttgcagctttcattaaag	6	10	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:74010501C>G	uc003hgp.2	-	11	2035	c.1918G>C	c.(1918-1920)GCT>CCT	p.A640P	ANKRD17_uc003hgo.2_Missense_Mutation_p.A527P|ANKRD17_uc003hgq.2_Missense_Mutation_p.A640P|ANKRD17_uc003hgr.2_Missense_Mutation_p.A640P|ANKRD17_uc011cbd.1_Missense_Mutation_p.A205P	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	640	ANK 13.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			ACATGACCAGCTCTTGCAGCT	0.333													7	48	---	---	---	---	PASS	G	74010501	G	G	74010501	3	3	58	1	0	0	0	0	1	0	0	0	646	797	28	4	5989	4	ANKRD17	4	74010501	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1112837	74010501	117143775	391	21766										
AFP	174	broad.mit.edu	37	chr4	74310718	74310718	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttttttccctagaactgttaCtaaactgagtcagaagttta	6	7	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:74310718C>A	uc003hgz.1	+	7	769	c.722C>A	c.(721-723)ACT>AAT	p.T241N	AFP_uc003hha.1_Missense_Mutation_p.T241N|AFP_uc011cbg.1_Missense_Mutation_p.T15N	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	241	Albumin 2.				transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			AGAACTGTTACTAAACTGAGT	0.323									Alpha-Fetoprotein_Hereditary_Persistence_of				5	49	---	---	---	---	PASS	A	74310718	A	A	74310718	3	1	58	1	0	0	0	0	1	0	0	0	363	565	20	3	748	3	AFP	4	74310718	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	300217	74310718	116843558	392	21767										
RASSF6	166824	broad.mit.edu	37	chr4	74447946	74447946	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctttattacttcttcagttCtcatgttactgtttactctg	5	9	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:74447946C>T	uc003hhd.1	-	7	848	c.725G>A	c.(724-726)AGA>AAA	p.R242K	RASSF6_uc003hhc.1_Missense_Mutation_p.R210K|RASSF6_uc010iik.1_Intron|RASSF6_uc010iil.1_Missense_Mutation_p.R198K	NM_201431	NP_958834	Q6ZTQ3	RASF6_HUMAN	Ras association (RalGDS/AF-6) domain family 6	242	Ras-associating.				apoptosis|signal transduction		protein binding			pancreas(2)	2	Breast(15;0.00102)		all cancers(17;0.00104)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)			TTCTTCAGTTCTCATGTTACT	0.269													3	38	---	---	---	---	PASS	T	74447946	T	T	74447946	3	4	58	1	0	0	0	0	1	0	0	0	13090	913	32	2	404	2	RASSF6	4	74447946	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	137228	74447946	116706330	393	21768										
PPEF2	5470	broad.mit.edu	37	chr4	76794303	76794303	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcggttgtgacagaattcatAgccttcaggtttgcattcat	10	8	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:76794303A>T	uc003hix.2	-	12	1840	c.1483T>A	c.(1483-1485)TAT>AAT	p.Y495N	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Missense_Mutation_p.Y495N	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	495	Catalytic.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			CAGAATTCATAGCCTTCAGGT	0.488													24	47	---	---	---	---	PASS	T	76794303	T	T	76794303	3	4	58	1	0	0	0	0	1	0	0	0	12308	420	15	5	802	5	PPEF2	4	76794303	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	2346357	76794303	114359973	394	21769										
FRAS1	80144	broad.mit.edu	37	chr4	79393426	79393426	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagataacgacgggccctaaGcatggctttgtggagaacaa	13	8	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:79393426G>T	uc003hlb.2	+	52	7904	c.7464G>T	c.(7462-7464)AAG>AAT	p.K2488N		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2487	CSPG 12.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						CGGGCCCTAAGCATGGCTTTG	0.537													10	35	---	---	---	---	PASS	T	79393426	T	T	79393426	3	4	58	1	0	0	0	0	1	0	0	0	6042	962	34	3	7745	3	FRAS1	4	79393426	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2599123	79393426	111760850	395	21770										
FGF5	2250	broad.mit.edu	37	chr4	81207575	81207575	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atagaactgaaaaaacagggCgggagtggtatgtggccctg	15	6	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:81207575C>A	uc003hmd.2	+	3	793	c.556C>A	c.(556-558)CGG>AGG	p.R186R	FGF5_uc003hme.2_3'UTR	NM_004464	NP_004455	P12034	FGF5_HUMAN	fibroblast growth factor 5 isoform 1 precursor	186					cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	fibroblast growth factor receptor binding|growth factor activity			ovary(1)|breast(1)	2						AAAAACAGGGCGGGAGTGGTA	0.458													47	118	---	---	---	---	PASS	A	81207575	A	A	81207575	2	1	58	1	0	0	0	0	0	0	0	1	5855	759	27	1		1	FGF5	4	81207575	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1814149	81207575	109946701	396	21771										
BMP3	651	broad.mit.edu	37	chr4	81967120	81967120	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaaagtcaactccttggccAtctgtcagtggatatggcca	9	12	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:81967120A>G	uc003hmg.3	+	2	865	c.545A>G	c.(544-546)CAT>CGT	p.H182R		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	182					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						CTCCTTGGCCATCTGTCAGTG	0.438													10	174	---	---	---	---	PASS	G	81967120	G	G	81967120	3	3	58	1	0	0	0	0	1	0	0	0	1461	217	8	5	551	5	BMP3	4	81967120	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	759545	81967120	109187156	397	21772										
ENOPH1	58478	broad.mit.edu	37	chr4	83375922	83375922	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caggaagtggagagaggccgGaatgaaggtgtacatctatt	15	5	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:83375922G>T	uc003hmv.2	+	4	694	c.437G>T	c.(436-438)GGA>GTA	p.G146V	ENOPH1_uc003hmw.2_Missense_Mutation_p.G58V|ENOPH1_uc003hmx.2_5'UTR	NM_021204	NP_067027	Q9UHY7	ENOPH_HUMAN	enolase-phosphatase 1	146					L-methionine salvage from methylthioadenosine	cytoplasm|nucleus	2,3-diketo-5-methylthiopentyl-1-phosphate enolase activity|2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase activity|acireductone synthase activity|magnesium ion binding|phosphoglycolate phosphatase activity				0						AGAGAGGCCGGAATGAAGGTG	0.463													40	97	---	---	---	---	PASS	T	83375922	T	T	83375922	3	4	58	1	0	0	0	0	1	0	0	0	5124	1174	41	2	451	2	ENOPH1	4	83375922	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1408802	83375922	107778354	398	21773										
WDFY3	23001	broad.mit.edu	37	chr4	85722993	85722993	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggattgtaaaatatttgccaCggcaagttgaagatccaaag	10	6	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:85722993C>A	uc003hpd.2	-	17	3040	c.2632G>T	c.(2632-2634)GTG>TTG	p.V878L		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	878						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		ATATTTGCCACGGCAAGTTGA	0.438													3	39	---	---	---	---	PASS	A	85722993	A	A	85722993	3	1	58	1	0	0	0	0	1	0	0	0	17267	536	19	1	8156	1	WDFY3	4	85722993	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2347071	85722993	105431283	399	21774										
GRID2	2895	broad.mit.edu	37	chr4	94006212	94006212	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggctgcacgtcagcaggatCcctccagtctttggcagacg	12	13	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:94006212C>A	uc011cdt.1	+	3	569	c.311C>A	c.(310-312)TCC>TAC	p.S104Y	GRID2_uc010ikx.2_Missense_Mutation_p.S104Y|GRID2_uc011cdu.1_Intron|GRID2_uc011cdv.1_RNA	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	104	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	TCAGCAGGATCCCTCCAGTCT	0.537													20	67	---	---	---	---	PASS	A	94006212	A	A	94006212	3	1	58	1	0	0	0	0	1	0	0	0	6772	855	30	2	321	2	GRID2	4	94006212	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	8283219	94006212	97148064	400	21775										
GRID2	2895	broad.mit.edu	37	chr4	94693642	94693642	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgatccagaccgaggcacctCcatatgagcatcaaacaaat							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:94693642C>A	uc011cdt.1	+	16	3275	c.3017C>A	c.(3016-3018)TCC>TAC	p.S1006Y	GRID2_uc011cdu.1_Missense_Mutation_p.S911Y	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	1006	PDZ-binding (By similarity).|Cytoplasmic (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CGAGGCACCTCCATATGAGCA	0.418													18	51	---	---	---	---	PASS	A	94693642	A	A	94693642	3	1	58	1	0	0	0	0	1	0	0	0	6772	855	30	2	3079	2	GRID2	4	94693642	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	687430	94693642	96460634	401	21776	484	2								
GRID2	2895	broad.mit.edu	37	chr4	94693643	94693643	+	Silent	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gatccagaccgaggcacctcCatatgagcatcaaacaaatc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:94693643C>A	uc011cdt.1	+	16	3276	c.3018C>A	c.(3016-3018)TCC>TCA	p.S1006S	GRID2_uc011cdu.1_Silent_p.S911S	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	1006	PDZ-binding (By similarity).|Cytoplasmic (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	GAGGCACCTCCATATGAGCAT	0.413													18	50	---	---	---	---	PASS	A	94693643	A	A	94693643	2	1	58	1	0	0	0	0	0	0	0	1	6772	581	21	3		3	GRID2	4	94693643	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1	94693643	96460633	402	21777	484	2								
ADH1A	124	broad.mit.edu	37	chr4	100205627	100205627	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagacagactttctctagagGcgaggctgcatcaattttgg	12	8	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:100205627G>T	uc003hur.1	-	5	567	c.496C>A	c.(496-498)CCT>ACT	p.P166T	uc003hum.1_Intron|ADH1A_uc011ceg.1_Missense_Mutation_p.P166T|ADH1A_uc010ilf.1_5'UTR	NM_000667	NP_000658	P07327	ADH1A_HUMAN	class I alcohol dehydrogenase, alpha subunit	166					ethanol oxidation|transcription, DNA-dependent|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|protein binding|zinc ion binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(123;9.56e-08)	Fomepizole(DB01213)|NADH(DB00157)	TTCTCTAGAGGCGAGGCTGCA	0.478													6	54	---	---	---	---	PASS	T	100205627	T	T	100205627	3	4	58	1	0	0	0	0	1	0	0	0	307	1203	42	3	651	3	ADH1A	4	100205627	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5511984	100205627	90948649	403	21778										
C4orf17	84103	broad.mit.edu	37	chr4	100443678	100443678	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttgaataacattccaatctGtactgtgaatgatgatgaga	8	6	1	5			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:100443678G>T	uc003huw.2	+	3	472	c.149G>T	c.(148-150)TGT>TTT	p.C50F	C4orf17_uc003hux.2_RNA	NM_032149	NP_115525	Q53FE4	CD017_HUMAN	hypothetical protein LOC84103	50											0				OV - Ovarian serous cystadenocarcinoma(123;2.08e-08)		ATTCCAATCTGTACTGTGAAT	0.373													26	43	---	---	---	---	PASS	T	100443678	T	T	100443678	3	4	58	1	0	0	0	0	1	0	0	0	2252	1377	48	3	155	3	C4orf17	4	100443678	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	238051	100443678	90710598	404	21779										
MTTP	4547	broad.mit.edu	37	chr4	100518257	100518257	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcggtccaccaggaaatacCtgcagcctgacaacctttcc	9	15	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:100518257C>T	uc003hvc.3	+	9	1199	c.943C>T	c.(943-945)CTG>TTG	p.L315L	MTTP_uc011cej.1_Silent_p.L342L	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	315	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	CAGGAAATACCTGCAGCCTGA	0.498													49	106	---	---	---	---	PASS	T	100518257	T	T	100518257	2	4	58	1	0	0	0	0	0	0	0	1	9964	680	24	3		3	MTTP	4	100518257	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	74579	100518257	90636019	405	21780										
CENPE	1062	broad.mit.edu	37	chr4	104064497	104064497	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aacaatccctcttagtttatCaatagtttcttggtgctcct	5	10	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:104064497C>G	uc003hxb.1	-	34	5302	c.5212G>C	c.(5212-5214)GAT>CAT	p.D1738H	CENPE_uc003hxc.1_Missense_Mutation_p.D1713H|CENPE_uc003hxd.1_5'Flank	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	1738	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		CTTAGTTTATCAATAGTTTCT	0.303													50	89	---	---	---	---	PASS	G	104064497	G	G	104064497	3	3	58	1	0	0	0	0	1	0	0	0	3230	826	29	2	2957	2	CENPE	4	104064497	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3546240	104064497	87089779	406	21781										
AGXT2L1	64850	broad.mit.edu	37	chr4	109670424	109670424	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tattccatcccagagctgctGaaggcttctgcaatttcttt	7	11	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:109670424G>C	uc003hzc.2	-	8	1078	c.897C>G	c.(895-897)TTC>TTG	p.F299L	AGXT2L1_uc010imc.2_Missense_Mutation_p.F293L|AGXT2L1_uc011cfm.1_Missense_Mutation_p.F259L|AGXT2L1_uc011cfn.1_Missense_Mutation_p.F226L|AGXT2L1_uc011cfo.1_Missense_Mutation_p.F241L	NM_031279	NP_112569	Q8TBG4	AT2L1_HUMAN	alanine-glyoxylate aminotransferase 2-like 1	299					cellular amino acid metabolic process	mitochondrion	alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000281)		CAGAGCTGCTGAAGGCTTCTG	0.418													9	66	---	---	---	---	PASS	C	109670424	C	C	109670424	3	2	58	1	0	0	0	0	1	0	0	0	406	1281	45	2	626	2	AGXT2L1	4	109670424	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5605927	109670424	81483852	407	21782										
COL25A1	84570	broad.mit.edu	37	chr4	110221759	110221759	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgctgggcagttacattctGaaggtgcttctcttgcgatt	11	9	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:110221759G>T	uc003hze.1	-	3	878	c.347C>A	c.(346-348)TCA>TAA	p.S116*	COL25A1_uc003hzg.2_Nonsense_Mutation_p.S116*|COL25A1_uc003hzh.1_Nonsense_Mutation_p.S116*	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	116	Extracellular (Potential).					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		GTTACATTCTGAAGGTGCTTC	0.383													26	55	---	---	---	---	PASS	T	110221759	T	T	110221759	4	4	58	1	0	0	0	0	0	1	0	0	3684	1294	45	2	1841	2	COL25A1	4	110221759	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	551335	110221759	80932517	408	21783										
SEC24B	10427	broad.mit.edu	37	chr4	110402874	110402874	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttaataaccaagctagctccGcaccaactcccttgtcatca	4	15	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:110402874G>T	uc003hzk.2	+	4	1157	c.1102G>T	c.(1102-1104)GCA>TCA	p.A368S	SEC24B_uc003hzl.2_Intron|SEC24B_uc011cfp.1_Missense_Mutation_p.A399S|SEC24B_uc011cfq.1_Missense_Mutation_p.A368S|SEC24B_uc011cfr.1_Intron	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	368					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		AGCTAGCTCCGCACCAACTCC	0.358													19	143	---	---	---	---	PASS	T	110402874	T	T	110402874	3	4	58	1	0	0	0	0	1	0	0	0	13995	1087	38	1	1116	1	SEC24B	4	110402874	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	181115	110402874	80751402	409	21784										
ENPEP	2028	broad.mit.edu	37	chr4	111397698	111397698	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgtgggcttgaccagatcgtGtgactccagcggggacggcg	17	11	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:111397698G>T	uc003iab.3	+	1	470	c.128G>T	c.(127-129)TGT>TTT	p.C43F		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	43	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	ACCAGATCGTGTGACTCCAGC	0.612													14	115	---	---	---	---	PASS	T	111397698	T	T	111397698	3	4	58	1	0	0	0	0	1	0	0	0	5128	1377	48	3	130	3	ENPEP	4	111397698	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	994824	111397698	79756578	410	21785										
NEUROG2	63973	broad.mit.edu	37	chr4	113436086	113436086	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcctcggagaagagcgccccCggcaggcccccgccgccgcc	14	21	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:113436086C>A	uc003ias.2	-	2	873	c.546G>T	c.(544-546)CCG>CCT	p.P182P		NM_024019	NP_076924	Q9H2A3	NGN2_HUMAN	neurogenin 2	182					positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent	nucleus	E-box binding			skin(2)|central_nervous_system(1)	3		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.00168)		AGAgcgcccccggcaggcccc	0.557													3	3	---	---	---	---	PASS	A	113436086	A	A	113436086	2	1	58	1	0	0	0	0	0	0	0	1	10353	639	23	1		1	NEUROG2	4	113436086	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2038388	113436086	77718190	411	21786										
METTL14	57721	broad.mit.edu	37	chr4	119609096	119609096	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agttgggagctgaaagtgccGacagcattggtgccgtgtta	15	7	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:119609096G>T	uc003icf.2	+	2	201	c.85G>T	c.(85-87)GAC>TAC	p.D29Y	METTL14_uc003icg.2_5'UTR	NM_020961	NP_066012	Q9HCE5	MTL14_HUMAN	methyltransferase like 14	29						nucleus	mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity				0						TGAAAGTGCCGACAGCATTGG	0.368													11	44	---	---	---	---	PASS	T	119609096	T	T	119609096	3	4	58	1	0	0	0	0	1	0	0	0	9498	1058	37	2	91	2	METTL14	4	119609096	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6173010	119609096	71545180	412	21787										
ANKRD50	57182	broad.mit.edu	37	chr4	125592529	125592529	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atctgcacaatccacttttaCgccagcataaagtagtgcag	7	11	1	0	rs148381297		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:125592529C>G	uc003ifg.3	-	3	2169	c.1903G>C	c.(1903-1905)GTA>CTA	p.V635L	ANKRD50_uc011cgo.1_Missense_Mutation_p.V456L|ANKRD50_uc010inw.2_Missense_Mutation_p.V635L	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	635	ANK 5.									central_nervous_system(1)	1						TCCACTTTTACGCCAGCATAA	0.458													13	104	---	---	---	---	PASS	G	125592529	G	G	125592529	3	3	58	1	0	0	0	0	1	0	0	0	677	536	19	4	2390	4	ANKRD50	4	125592529	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5983433	125592529	65561747	413	21788										
LARP1B	55132	broad.mit.edu	37	chr4	129127647	129127647	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaaaaaattcaggcgagaaAtttttcaggatttccaagaa	7	5	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:129127647A>G	uc003iga.2	+	18	2505	c.2374A>G	c.(2374-2376)ATT>GTT	p.I792V	LARP1B_uc003igc.2_Missense_Mutation_p.I211V|LARP1B_uc010ioa.1_RNA|LARP1B_uc003ige.2_Intron|LARP1B_uc003igd.2_RNA|LARP1B_uc003igf.2_Intron	NM_018078	NP_060548	Q659C4	LAR1B_HUMAN	La ribonucleoprotein domain family member 2	792							RNA binding				0						CAGGCGAGAAATTTTTCAGGA	0.303													10	73	---	---	---	---	PASS	G	129127647	G	G	129127647	3	3	58	1	0	0	0	0	1	0	0	0	8629	101	4	5	2570	5	LARP1B	4	129127647	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	3535118	129127647	62026629	414	21789										
INPP4B	8821	broad.mit.edu	37	chr4	143029265	143029265	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caatcaggaggcatcttttcCataaatatcttgtaatattc	5	8	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:143029265C>A	uc003iix.3	-	24	2950	c.2355G>T	c.(2353-2355)ATG>ATT	p.M785I	INPP4B_uc003iiw.3_Missense_Mutation_p.M785I|INPP4B_uc011chm.1_RNA|INPP4B_uc011chn.1_Missense_Mutation_p.M600I|INPP4B_uc011cho.1_RNA	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	785					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					GCATCTTTTCCATAAATATCT	0.328													7	48	---	---	---	---	PASS	A	143029265	A	A	143029265	3	1	58	1	0	0	0	0	1	0	0	0	7753	594	21	3	435	3	INPP4B	4	143029265	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	13901618	143029265	48125011	415	21790										
DCHS2	54798	broad.mit.edu	37	chr4	155158210	155158210	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcctatctccactaaagtaaGagctctcaggtcaggatttc	7	11	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:155158210G>T	uc003inw.2	-	25	6229	c.6229C>A	c.(6229-6231)CTT>ATT	p.L2077I		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2077	Cadherin 18.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		ACTAAAGTAAGAGCTCTCAGG	0.393													29	67	---	---	---	---	PASS	T	155158210	T	T	155158210	3	4	58	1	0	0	0	0	1	0	0	0	4288	942	33	2	2525	2	DCHS2	4	155158210	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	12128945	155158210	35996066	416	21791										
FGA	2243	broad.mit.edu	37	chr4	155507006	155507006	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaacctgggaatgtttttccAgttgaggcagtgtcgaagaa	12	6	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:155507006A>T	uc003iod.1	-	5	1633	c.1575T>A	c.(1573-1575)ACT>ACA	p.T525T	FGA_uc003ioe.1_Silent_p.T525T|FGA_uc003iof.1_Intron	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	525	By similarity.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	ATGTTTTTCCAGTTGAGGCAG	0.488													3	78	---	---	---	---	PASS	T	155507006	T	T	155507006	2	4	58	1	0	0	0	0	0	0	0	1	5830	175	7	5		5	FGA	4	155507006	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	348796	155507006	35647270	417	21792										
VEGFC	7424	broad.mit.edu	37	chr4	177650717	177650717	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctctgtattataatgtgctgCagcaaattttatagtctctt	6	7	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr4:177650717C>T	uc003ius.1	-	2	761	c.331G>A	c.(331-333)GCA>ACA	p.A111T		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	111					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		TAATGTGCTGCAGCAAATTTT	0.383													22	56	---	---	---	---	PASS	T	177650717	T	T	177650717	3	4	58	1	0	0	0	0	1	0	0	0	17149	710	25	3	955	3	VEGFC	4	177650717	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	22143711	177650717	13503559	418	21793										
AHRR	57491	broad.mit.edu	37	chr5	344045	344045	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgccgggggagtgcacgtacGcgggccggaagcggaggagg	22	10	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:344045G>T	uc003jav.2	+	2	84	c.40G>T	c.(40-42)GCG>TCG	p.A14S	AHRR_uc003jaw.2_Missense_Mutation_p.A10S|AHRR_uc010isy.2_5'UTR|AHRR_uc010isz.2_Missense_Mutation_p.A10S	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	14					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			GTGCACGTACGCGGGCCGGAA	0.662													16	22	---	---	---	---	PASS	T	344045	T	T	344045	3	4	58	1	0	0	0	0	1	0	0	0	417	1087	38	1	46	1	AHRR	5	344045	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08		344045	180571215	419	21794										
SLC6A19	340024	broad.mit.edu	37	chr5	1201812	1201812	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cggcctagacgcccggatccCgtccctggctgagctggaga	14	15	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:1201812C>T	uc003jbw.3	+	1	103	c.47C>T	c.(46-48)CCG>CTG	p.P16L		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	16	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GCCCGGATCCCGTCCCTGGCT	0.677													7	32	---	---	---	---	PASS	T	1201812	T	T	1201812	3	4	58	1	0	0	0	0	1	0	0	0	14682	652	23	1	49	1	SLC6A19	5	1201812	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	857767	1201812	179713448	420	21795										
ADAMTS16	170690	broad.mit.edu	37	chr5	5242188	5242188	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctgtttcagggaaggaaccCgggtgttgcctgggaatact	15	8	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:5242188C>A	uc003jdl.2	+	17	2684	c.2546C>A	c.(2545-2547)CCG>CAG	p.P849Q	ADAMTS16_uc003jdk.1_Missense_Mutation_p.P849Q	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	849	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GGAAGGAACCCGGGTGTTGCC	0.512													33	101	---	---	---	---	PASS	A	5242188	A	A	5242188	3	1	58	1	0	0	0	0	1	0	0	0	261	652	23	1	2612	1	ADAMTS16	5	5242188	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4040376	5242188	175673072	421	21796										
ADCY2	108	broad.mit.edu	37	chr5	7707951	7707951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tactttgtgatcaaccccaaGgtcagtatcattgtaaagag	8	8	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:7707951G>T	uc003jdz.1	+	9	1468	c.1401G>T	c.(1399-1401)AAG>AAT	p.K467N	ADCY2_uc011cmo.1_Missense_Mutation_p.K287N	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	467	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						TCAACCCCAAGGTCAGTATCA	0.373													50	93	---	---	---	---	PASS	T	7707951	T	T	7707951	3	4	58	1	0	0	0	0	1	0	0	0	294	1014	35	3	1435	3	ADCY2	5	7707951	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2465763	7707951	173207309	422	21797										
ADCY2	108	broad.mit.edu	37	chr5	7709399	7709399	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaaaatgagggcctcggtcCgcatgacccggtacttggag	13	12	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:7709399C>A	uc003jdz.1	+	10	1544	c.1477C>A	c.(1477-1479)CGC>AGC	p.R493S	ADCY2_uc011cmo.1_Missense_Mutation_p.R313S	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	493	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						GGCCTCGGTCCGCATGACCCG	0.587													26	79	---	---	---	---	PASS	A	7709399	A	A	7709399	3	1	58	1	0	0	0	0	1	0	0	0	294	652	23	1	1515	1	ADCY2	5	7709399	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1448	7709399	173205861	423	21798										
ADCY2	108	broad.mit.edu	37	chr5	7773087	7773087	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgggactgatatcctgttccGtgttcctgcgggtaaactat	11	9	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:7773087G>T	uc003jdz.1	+	18	2324	c.2257G>T	c.(2257-2259)GTG>TTG	p.V753L	ADCY2_uc011cmo.1_Missense_Mutation_p.V573L	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	753	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						ATCCTGTTCCGTGTTCCTGCG	0.493													137	231	---	---	---	---	PASS	T	7773087	T	T	7773087	3	4	58	1	0	0	0	0	1	0	0	0	294	1145	40	1	2327	1	ADCY2	5	7773087	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	63688	7773087	173142173	424	21799										
MTRR	4552	broad.mit.edu	37	chr5	7870910	7870910	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttacatgccttgaagtgatGaggaggtttctgttactata	11	5	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:7870910G>T	uc003jed.2	+	2	114	c.84G>T	c.(82-84)ATG>ATT	p.M28I	FASTKD3_uc011cmp.1_5'Flank|FASTKD3_uc003jeb.2_5'Flank|FASTKD3_uc003jec.2_5'Flank|MTRR_uc010itn.1_RNA|MTRR_uc003jee.3_Missense_Mutation_p.M1I|MTRR_uc003jef.3_RNA|MTRR_uc003jeg.3_RNA|MTRR_uc010ito.2_RNA	NM_024010	NP_076915	Q9UBK8	MTRR_HUMAN	methionine synthase reductase isoform 2	28					methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	TTGAAGTGATGAGGAGGTTTC	0.403													35	90	---	---	---	---	PASS	T	7870910	T	T	7870910	3	4	58	1	0	0	0	0	1	0	0	0	9961	1290	45	2	90	2	MTRR	5	7870910	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	97823	7870910	173044350	425	21800										
SEMA5A	9037	broad.mit.edu	37	chr5	9052120	9052120	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcttcacactcagaccagtCcgaccactccgaccagctct	7	18	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:9052120C>A	uc003jek.2	-	20	3422	c.2710G>T	c.(2710-2712)GAC>TAC	p.D904Y		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	904	Extracellular (Potential).|TSP type-1 7.				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						TCAGACCAGTCCGACCACTCC	0.592													17	40	---	---	---	---	PASS	A	9052120	A	A	9052120	3	1	58	1	0	0	0	0	1	0	0	0	14037	855	30	2	530	2	SEMA5A	5	9052120	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1181210	9052120	171863140	426	21801										
SEMA5A	9037	broad.mit.edu	37	chr5	9063065	9063065	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaggcaaggcattcccccatActtgggttcggggttgttgc	13	10	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:9063065A>G	uc003jek.2	-	18	3164	c.2452T>C	c.(2452-2454)TAT>CAT	p.Y818H		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	818	TSP type-1 5.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						ATTCCCCCATACTTGGGTTCG	0.552													34	91	---	---	---	---	PASS	G	9063065	G	G	9063065	3	3	58	1	0	0	0	0	1	0	0	0	14037	391	14	5	796	5	SEMA5A	5	9063065	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	10945	9063065	171852195	427	21802										
SEMA5A	9037	broad.mit.edu	37	chr5	9237981	9237981	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acaggcctttttggtagcttCatcacactcccattccacag	6	14	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:9237981C>A	uc003jek.2	-	6	1004	c.292G>T	c.(292-294)GAA>TAA	p.E98*		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	98	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						TTGGTAGCTTCATCACACTCC	0.393													34	134	---	---	---	---	PASS	A	9237981	A	A	9237981	4	1	58	1	0	0	0	0	0	1	0	0	14037	835	29	2	3004	2	SEMA5A	5	9237981	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	174916	9237981	171677279	428	21803										
MARCH6	10299	broad.mit.edu	37	chr5	10405729	10405729	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatgatccagatttcaatccAgtacaggaaatgatccattt	6	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:10405729A>T	uc003jet.1	+	16	1575	c.1392A>T	c.(1390-1392)CCA>CCT	p.P464P	MARCH6_uc011cmu.1_Silent_p.P416P|MARCH6_uc003jeu.1_Silent_p.P162P|MARCH6_uc011cmv.1_Silent_p.P359P	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	464	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						ATTTCAATCCAGTACAGGAAA	0.323													58	122	---	---	---	---	PASS	T	10405729	T	T	10405729	2	4	58	1	0	0	0	0	0	0	0	1	9305	175	7	5		5	MARCH6	5	10405729	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	1167748	10405729	170509531	429	21804										
ROPN1L	83853	broad.mit.edu	37	chr5	10464985	10464985	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaggaagaacggcatgataGgtctttcagatttcttcttt							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:10464985G>T	uc003jex.3	+	5	890	c.619G>T	c.(619-621)GGT>TGT	p.G207C		NM_031916	NP_114122	Q96C74	ROP1L_HUMAN	ropporin 1-like	207					ciliary or flagellar motility|signal transduction	cytoplasm|motile cilium	cAMP-dependent protein kinase regulator activity|protein binding			ovary(1)	1						CGGCATGATAGGTCTTTCAGA	0.313													43	137	---	---	---	---	PASS	T	10464985	T	T	10464985	3	4	58	1	0	0	0	0	1	0	0	0	13525	1000	35	3	637	3	ROPN1L	5	10464985	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	59256	10464985	170450275	430	21805	485	2								
ROPN1L	83853	broad.mit.edu	37	chr5	10464986	10464986	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caggaagaacggcatgatagGtctttcagatttcttctttc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:10464986G>T	uc003jex.3	+	5	891	c.620G>T	c.(619-621)GGT>GTT	p.G207V		NM_031916	NP_114122	Q96C74	ROP1L_HUMAN	ropporin 1-like	207					ciliary or flagellar motility|signal transduction	cytoplasm|motile cilium	cAMP-dependent protein kinase regulator activity|protein binding			ovary(1)	1						GGCATGATAGGTCTTTCAGAT	0.313													40	138	---	---	---	---	PASS	T	10464986	T	T	10464986	3	4	58	1	0	0	0	0	1	0	0	0	13525	1261	44	3	638	3	ROPN1L	5	10464986	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1	10464986	170450274	431	21806	485	2								
DNAH5	1767	broad.mit.edu	37	chr5	13770872	13770872	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acttacctgttggccagggtCcgcacctccacatgcttttc	8	15	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:13770872C>A	uc003jfd.2	-	56	9633	c.9591G>T	c.(9589-9591)CGG>CGT	p.R3197R	DNAH5_uc003jfc.2_5'Flank	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3197	Stalk (By similarity).|Potential.				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity	p.R3197W(1)|p.R3197Q(1)		ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TGGCCAGGGTCCGCACCTCCA	0.338									Kartagener_syndrome				38	51	---	---	---	---	PASS	A	13770872	A	A	13770872	2	1	58	1	0	0	0	0	0	0	0	1	4604	842	30	2		2	DNAH5	5	13770872	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	3305886	13770872	167144388	432	21807										
FBXL7	23194	broad.mit.edu	37	chr5	15928149	15928149	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	catggtgcactccccgccccCgacccgcctcacacacccgc	7	24	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:15928149C>A	uc003jfn.1	+	3	759	c.278C>A	c.(277-279)CCG>CAG	p.P93Q		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	93					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						TCCCCGCCCCCGACCCGCCTC	0.652													11	29	---	---	---	---	PASS	A	15928149	A	A	15928149	3	1	58	1	0	0	0	0	1	0	0	0	5724	652	23	1	288	1	FBXL7	5	15928149	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2157277	15928149	164987111	433	21808										
MARCH11	441061	broad.mit.edu	37	chr5	16067764	16067764	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcaatggcaaccacaaagtcCtacttgtggaagactctccc	7	13	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:16067764C>G	uc003jfo.2	-	4	1238	c.1025G>C	c.(1024-1026)AGG>ACG	p.R342T	MARCH11_uc010itw.1_Missense_Mutation_p.R98T	NM_001102562	NP_001096032	A6NNE9	MARHB_HUMAN	membrane-associated ring finger (C3HC4) 11	342						cytoplasmic vesicle membrane|integral to membrane	ligase activity|zinc ion binding				0						CCACAAAGTCCTACTTGTGGA	0.478													23	117	---	---	---	---	PASS	G	16067764	G	G	16067764	3	3	58	1	0	0	0	0	1	0	0	0	9300	681	24	4	187	4	MARCH11	5	16067764	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	139615	16067764	164847496	434	21809										
ZNF622	90441	broad.mit.edu	37	chr5	16465451	16465451	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccaagttcttttcattcatCatctccactttccgattcac	2	14	6	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:16465451C>A	uc003jfq.2	-	1	444	c.324G>T	c.(322-324)ATG>ATT	p.M108I		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	108						cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						TTTCATTCATCATCTCCACTT	0.557													94	176	---	---	---	---	PASS	A	16465451	A	A	16465451	3	1	58	1	0	0	0	0	1	0	0	0	18043	826	29	2	1133	2	ZNF622	5	16465451	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	397687	16465451	164449809	435	21810										
CDH18	1016	broad.mit.edu	37	chr5	19571932	19571932	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atatgacttctttttctcatAgttcagtggctgtggggaaa	10	6	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:19571932A>T	uc003jgc.2	-	7	1386	c.1009T>A	c.(1009-1011)TAT>AAT	p.Y337N	CDH18_uc003jgd.2_Missense_Mutation_p.Y337N|CDH18_uc011cnm.1_Missense_Mutation_p.Y337N	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	337	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TTTTTCTCATAGTTCAGTGGC	0.303													28	102	---	---	---	---	PASS	T	19571932	T	T	19571932	3	4	58	1	0	0	0	0	1	0	0	0	3103	420	15	5	1387	5	CDH18	5	19571932	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	3106481	19571932	161343328	436	21811										
CDH18	1016	broad.mit.edu	37	chr5	19721511	19721511	+	Silent	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggagaatgctgtaaaccacCcgagcgctgtttccataggt							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:19721511C>A	uc003jgc.2	-	4	965	c.588G>T	c.(586-588)CGG>CGT	p.R196R	CDH18_uc003jgd.2_Silent_p.R196R|CDH18_uc011cnm.1_Silent_p.R196R	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	196	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TGTAAACCACCCGAGCGCTGT	0.463													53	162	---	---	---	---	PASS	A	19721511	A	A	19721511	2	1	58	1	0	0	0	0	0	0	0	1	3103	610	22	3		3	CDH18	5	19721511	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	149579	19721511	161193749	437	21812	486	2								
CDH18	1016	broad.mit.edu	37	chr5	19721517	19721517	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgctgtaaaccacccgagcGctgtttccataggtagggtc					rs147239335	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:19721517G>T	uc003jgc.2	-	4	959	c.582C>A	c.(580-582)AGC>AGA	p.S194R	CDH18_uc003jgd.2_Missense_Mutation_p.S194R|CDH18_uc011cnm.1_Missense_Mutation_p.S194R	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	194	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CCACCCGAGCGCTGTTTCCAT	0.463													32	183	---	---	---	---	PASS	T	19721517	T	T	19721517	3	4	58	1	0	0	0	0	1	0	0	0	3103	1078	38	1	1826	1	CDH18	5	19721517	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6	19721517	161193743	438	21813	486	2								
CDH12	1010	broad.mit.edu	37	chr5	22078722	22078722	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgtggctgtggttgtagtgGtgttaggagacctccatcaa	14	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:22078722G>C	uc010iuc.2	-	2	522	c.64C>G	c.(64-66)CCA>GCA	p.P22A	CDH12_uc011cno.1_Missense_Mutation_p.P22A|CDH12_uc003jgk.2_Missense_Mutation_p.P22A	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	22					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						GGTTGTAGTGGTGTTAGGAGA	0.458										HNSCC(59;0.17)			66	206	---	---	---	---	PASS	C	22078722	C	C	22078722	3	2	58	1	0	0	0	0	1	0	0	0	3098	1261	44	4	2364	4	CDH12	5	22078722	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2357205	22078722	158836538	439	21814										
PRDM9	56979	broad.mit.edu	37	chr5	23509607	23509607	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgccttcaaagacatttccaTatacttcaccaaggaagaat	5	10	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:23509607T>A	uc003jgo.2	+	3	280	c.98T>A	c.(97-99)ATA>AAA	p.I33K		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	33	KRAB-related.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						GACATTTCCATATACTTCACC	0.413										HNSCC(3;0.000094)			106	253	---	---	---	---	PASS	A	23509607	A	A	23509607	3	1	58	1	0	0	0	0	1	0	0	0	12463	1406	49	5	104	5	PRDM9	5	23509607	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1430885	23509607	157405653	440	21815										
PRDM9	56979	broad.mit.edu	37	chr5	23522877	23522877	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggccatcaggcatccctcaGgctgggcttggagtatggaa	15	10	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:23522877G>T	uc003jgo.2	+	8	947	c.765G>T	c.(763-765)CAG>CAT	p.Q255H		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	255	SET.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						GCATCCCTCAGGCTGGGCTTG	0.567										HNSCC(3;0.000094)			16	96	---	---	---	---	PASS	T	23522877	T	T	23522877	3	4	58	1	0	0	0	0	1	0	0	0	12463	991	35	3	791	3	PRDM9	5	23522877	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	13270	23522877	157392383	441	21816										
PRDM9	56979	broad.mit.edu	37	chr5	23526523	23526523	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatcaggagcagcaatatccAgatccacacagccgtaatga	8	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:23526523A>T	uc003jgo.2	+	11	1508	c.1326A>T	c.(1324-1326)CCA>CCT	p.P442P		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	442					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AGCAATATCCAGATCCACACA	0.478										HNSCC(3;0.000094)			28	71	---	---	---	---	PASS	T	23526523	T	T	23526523	2	4	58	1	0	0	0	0	0	0	0	1	12463	175	7	5		5	PRDM9	5	23526523	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	3646	23526523	157388737	442	21817										
PDZD2	23037	broad.mit.edu	37	chr5	32010568	32010568	+	Missense_Mutation	SNP	A	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggaagaggacgaaggaaccAgctcttctgtccagagagca							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:32010568A>T	uc003jhl.2	+	6	1775	c.1387A>T	c.(1387-1389)AGC>TGC	p.S463C	PDZD2_uc003jhm.2_Missense_Mutation_p.S463C|PDZD2_uc011cnx.1_Missense_Mutation_p.S289C	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	463					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CGAAGGAACCAGCTCTTCTGT	0.512													33	77	---	---	---	---	PASS	T	32010568	T	T	32010568	3	4	58	1	0	0	0	0	1	0	0	0	11701	188	7	5	1405	5	PDZD2	5	32010568	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	8484045	32010568	148904692	443	21818	487	2								
PDZD2	23037	broad.mit.edu	37	chr5	32010569	32010569	+	Missense_Mutation	SNP	G	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggaagaggacgaaggaaccaGctcttctgtccagagagcag							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:32010569G>A	uc003jhl.2	+	6	1776	c.1388G>A	c.(1387-1389)AGC>AAC	p.S463N	PDZD2_uc003jhm.2_Missense_Mutation_p.S463N|PDZD2_uc011cnx.1_Missense_Mutation_p.S289N	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	463					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GAAGGAACCAGCTCTTCTGTC	0.517													32	77	---	---	---	---	PASS	A	32010569	A	A	32010569	3	1	58	1	0	0	0	0	1	0	0	0	11701	971	34	3	1406	3	PDZD2	5	32010569	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1	32010569	148904691	444	21819	487	2								
PDZD2	23037	broad.mit.edu	37	chr5	32088501	32088501	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccagtccccgtgagaaggcCgcctgcttgccaggctcata	12	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:32088501C>T	uc003jhl.2	+	20	5335	c.4947C>T	c.(4945-4947)GCC>GCT	p.A1649A	PDZD2_uc003jhm.2_Silent_p.A1649A	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1649					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GTGAGAAGGCCGCCTGCTTGC	0.547													7	199	---	---	---	---	PASS	T	32088501	T	T	32088501	2	4	58	1	0	0	0	0	0	0	0	1	11701	639	23	1		1	PDZD2	5	32088501	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	77932	32088501	148826759	445	21820										
NPR3	4883	broad.mit.edu	37	chr5	32774923	32774923	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatggagggaaaattatacAgcagacttggaacagaacat	12	5	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:32774923A>G	uc003jhv.2	+	4	1387	c.1169A>G	c.(1168-1170)CAG>CGG	p.Q390R	NPR3_uc010iuo.2_Missense_Mutation_p.Q174R|NPR3_uc011cnz.1_Missense_Mutation_p.Q174R|NPR3_uc003jhu.2_Missense_Mutation_p.Q390R	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	390	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	AAAATTATACAGCAGACTTGG	0.438													72	154	---	---	---	---	PASS	G	32774923	G	G	32774923	3	3	58	1	0	0	0	0	1	0	0	0	10596	188	7	5	1183	5	NPR3	5	32774923	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	686422	32774923	148140337	446	21821										
ADAMTS12	81792	broad.mit.edu	37	chr5	33596054	33596054	+	Frame_Shift_Del	DEL	T	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttacctgggtggacaagccTtttcatggcacttcttctgt							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:33596054delT	uc003jia.1	-	17	2802	c.2639delA	c.(2638-2640)AAGfs	p.K880fs	ADAMTS12_uc010iuq.1_Frame_Shift_Del_p.K795fs	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	880	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TGGACAAGCCTTTTCATGGCA	0.502										HNSCC(64;0.19)			130	76	---	---	---	---		-	33596054	-	-	33596054	7	5	58	1	0	1	0	1	0	0	0	0	257	1609	56	0	2177	0	ADAMTS12	5	33596054	Frame_Shift_Del	DEL	T	TCGA-33-4566-01A-01D-1441-08	821131	33596054	147319206	447	21822										
ADAMTS12	81792	broad.mit.edu	37	chr5	33624406	33624406	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccatctcccaggcacacaccGcagcgatcctcggtggcatt	9	17	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:33624406G>A	uc003jia.1	-	14	2236	c.2073C>T	c.(2071-2073)TGC>TGT	p.C691C	ADAMTS12_uc010iuq.1_Intron	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	691	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GGCACACACCGCAGCGATCCT	0.507										HNSCC(64;0.19)			34	85	---	---	---	---	PASS	A	33624406	A	A	33624406	2	1	58	1	0	0	0	0	0	0	0	1	257	1079	38	1		1	ADAMTS12	5	33624406	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	28352	33624406	147290854	448	21823										
ADAMTS12	81792	broad.mit.edu	37	chr5	33649685	33649685	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagcgggtgatgtactcctcGctgcacttggaccatgtcag	12	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:33649685G>A	uc003jia.1	-	8	1471	c.1308C>T	c.(1306-1308)AGC>AGT	p.S436S	ADAMTS12_uc010iuq.1_Silent_p.S436S	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	436	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TGTACTCCTCGCTGCACTTGG	0.517										HNSCC(64;0.19)			58	101	---	---	---	---	PASS	A	33649685	A	A	33649685	2	1	58	1	0	0	0	0	0	0	0	1	257	1078	38	1		1	ADAMTS12	5	33649685	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	25279	33649685	147265575	449	21824										
ADAMTS12	81792	broad.mit.edu	37	chr5	33881520	33881520	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caagccatatgacaaaaaatGcccactggcatctactcgga	7	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:33881520G>T	uc003jia.1	-	2	356	c.193C>A	c.(193-195)CAT>AAT	p.H65N	ADAMTS12_uc010iuq.1_Missense_Mutation_p.H65N|ADAMTS12_uc003jib.1_Missense_Mutation_p.H65N	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	65					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GACAAAAAATGCCCACTGGCA	0.488										HNSCC(64;0.19)			86	172	---	---	---	---	PASS	T	33881520	T	T	33881520	3	4	58	1	0	0	0	0	1	0	0	0	257	1319	46	3	4683	3	ADAMTS12	5	33881520	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	231835	33881520	147033740	450	21825										
SPEF2	79925	broad.mit.edu	37	chr5	35692818	35692818	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttctgcaagaggagattaaaGaaagccaggcaagtgtgatt	12	5	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:35692818G>A	uc003jjo.2	+	12	2002	c.1891G>A	c.(1891-1893)GAA>AAA	p.E631K	SPEF2_uc003jjq.3_Missense_Mutation_p.E631K|SPEF2_uc003jjp.1_Missense_Mutation_p.E122K	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	631					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGAGATTAAAGAAAGCCAGGC	0.388													26	146	---	---	---	---	PASS	A	35692818	A	A	35692818	3	1	58	1	0	0	0	0	1	0	0	0	15034	943	33	2	1958	2	SPEF2	5	35692818	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1811298	35692818	145222442	451	21826										
IL7R	3575	broad.mit.edu	37	chr5	35871231	35871231	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gactttgtggtgacatttaaTacatcacacttgcaaaagaa	7	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:35871231T>A	uc003jjs.2	+	4	542	c.453T>A	c.(451-453)AAT>AAA	p.N151K	IL7R_uc011coo.1_Missense_Mutation_p.N151K|IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	151	Extracellular (Potential).|Fibronectin type-III.				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			TGACATTTAATACATCACACT	0.383													45	92	---	---	---	---	PASS	A	35871231	A	A	35871231	3	1	58	1	0	0	0	0	1	0	0	0	7705	1403	49	5	467	5	IL7R	5	35871231	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	178413	35871231	145044029	452	21827										
GDNF	2668	broad.mit.edu	37	chr5	37815898	37815898	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcaccagccttctatttctgGataagtttttcaatattttg	5	8	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:37815898G>A	uc011cpi.1	-	3	691	c.491C>T	c.(490-492)TCC>TTC	p.S164F	GDNF_uc011cpc.1_Missense_Mutation_p.S86F|GDNF_uc011cpd.1_Missense_Mutation_p.S112F|GDNF_uc011cpe.1_Missense_Mutation_p.S138F|GDNF_uc011cpf.1_Missense_Mutation_p.S138F|GDNF_uc011cpg.1_Missense_Mutation_p.S181F|GDNF_uc011cph.1_Missense_Mutation_p.S155F	NM_000514	NP_000505	P39905	GDNF_HUMAN	glial cell derived neurotrophic factor isoform 1	164					adult locomotory behavior|anti-apoptosis|axon guidance|branching involved in ureteric bud morphogenesis|enteric nervous system development|mRNA stabilization|negative regulation of neuron apoptosis|neural crest cell migration|peristalsis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of dopamine secretion|positive regulation of monooxygenase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|postganglionic parasympathetic nervous system development|regulation of dopamine uptake|signal transduction|sympathetic nervous system development	extracellular region	growth factor activity|protein homodimerization activity				0	all_lung(31;0.00118)					TCTATTTCTGGATAAGTTTTT	0.453													82	170	---	---	---	---	PASS	A	37815898	A	A	37815898	3	1	58	1	0	0	0	0	1	0	0	0	6322	1174	41	2	147	2	GDNF	5	37815898	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1944667	37815898	143099362	453	21828										
HEATR7B2	133558	broad.mit.edu	37	chr5	41019108	41019108	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggtcttgtagtgagagctgAggtttcagtttactgaaatg	13	4	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:41019108A>T	uc003jmj.3	-	25	2944	c.2454T>A	c.(2452-2454)CCT>CCA	p.P818P	HEATR7B2_uc003jmi.3_Silent_p.P373P	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	818	HEAT 9.						binding			ovary(6)|central_nervous_system(2)	8						GTGAGAGCTGAGGTTTCAGTT	0.458													6	66	---	---	---	---	PASS	T	41019108	T	T	41019108	2	4	58	1	0	0	0	0	0	0	0	1	7035	291	11	5		5	HEATR7B2	5	41019108	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	3203210	41019108	139896152	454	21829										
C6	729	broad.mit.edu	37	chr5	41160347	41160347	+	Silent	SNP	A	G	G													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agggtgggtcggccattattAgggcatggagcacactggca							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:41160347A>G	uc003jmk.2	-	11	1791	c.1581T>C	c.(1579-1581)CCT>CCC	p.P527P	C6_uc003jml.1_Silent_p.P527P	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	527	EGF-like.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				GGCCATTATTAGGGCATGGAG	0.483													90	185	---	---	---	---	PASS	G	41160347	G	G	41160347	2	3	58	1	0	0	0	0	0	0	0	1	2315	407	15	5		5	C6	5	41160347	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	141239	41160347	139754913	455	21830	488	2								
C6	729	broad.mit.edu	37	chr5	41160349	41160349	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtgggtcggccattattagGgcatggagcacactggcaag							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:41160349G>T	uc003jmk.2	-	11	1789	c.1579C>A	c.(1579-1581)CCT>ACT	p.P527T	C6_uc003jml.1_Missense_Mutation_p.P527T	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	527	EGF-like.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				CCATTATTAGGGCATGGAGCA	0.493													87	184	---	---	---	---	PASS	T	41160349	T	T	41160349	3	4	58	1	0	0	0	0	1	0	0	0	2315	1232	43	3	1257	3	C6	5	41160349	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2	41160349	139754911	456	21831	488	2								
C6	729	broad.mit.edu	37	chr5	41186221	41186221	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaacacggtatggattacttGtcctactgcttttgacagtt	9	8	0	1	rs61734261	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:41186221G>T	uc003jmk.2	-	6	887	c.677C>A	c.(676-678)ACA>AAA	p.T226K	C6_uc003jml.1_Missense_Mutation_p.T226K	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	226	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TGGATTACTTGTCCTACTGCT	0.448													59	84	---	---	---	---	PASS	T	41186221	T	T	41186221	3	4	58	1	0	0	0	0	1	0	0	0	2315	1377	48	3	2179	3	C6	5	41186221	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	25872	41186221	139729039	457	21832										
SEPP1	6414	broad.mit.edu	37	chr5	42808330	42808330	+	RNA	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	actgaaccattggagtttagCattggatcttgatctcttat	8	7	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:42808330C>A	uc011cps.1	-	3		c.314G>T			SEPP1_uc011cpt.1_RNA|SEPP1_uc011cpu.1_RNA|SEPP1_uc011cpv.1_RNA|SEPP1_uc003jna.2_RNA			P49908	SEPP1_HUMAN	Homo sapiens cDNA FLJ37321 fis, clone BRAMY2018122.						response to oxidative stress	extracellular region	selenium binding				0						TGGAGTTTAGCATTGGATCTT	0.498													16	125	---	---	---	---	PASS	A	42808330	A	A	42808330	1	1	58	0	1	0	0	0	0	0	0	0	14057	710	25	3		3	SEPP1	5	42808330	RNA	SNP	C	TCGA-33-4566-01A-01D-1441-08	1622109	42808330	138106930	458	21833										
NNT	23530	broad.mit.edu	37	chr5	43675646	43675646	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccctggctaatgtgattcttGgaggctatggcaccacttca	10	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:43675646G>T	uc003joe.2	+	18	2923	c.2668G>T	c.(2668-2670)GGA>TGA	p.G890*	NNT_uc003jof.2_Nonsense_Mutation_p.G890*	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	890	Mitochondrial matrix.				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	TGTGATTCTTGGAGGCTATGG	0.413													35	132	---	---	---	---	PASS	T	43675646	T	T	43675646	4	4	58	1	0	0	0	0	0	1	0	0	10510	1349	47	3	2734	3	NNT	5	43675646	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	867316	43675646	137239614	459	21834										
HCN1	348980	broad.mit.edu	37	chr5	45262788	45262788	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaggataattgatgggagcGattgcctgcaccatctccct	11	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:45262788G>T	uc003jok.2	-	8	1933	c.1908C>A	c.(1906-1908)ATC>ATA	p.I636I		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	636	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TGATGGGAGCGATTGCCTGCA	0.478													59	166	---	---	---	---	PASS	T	45262788	T	T	45262788	2	4	58	1	0	0	0	0	0	0	0	1	6996	1048	37	2		2	HCN1	5	45262788	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1587142	45262788	135652472	460	21835										
ITGA1	3672	broad.mit.edu	37	chr5	52235523	52235523	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaacgaggcacaattctggTaaattaagacaagtgctatt	8	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:52235523T>C	uc003jou.2	+	25	3232	c.3180_splice	c.e25+2	p.L1060_splice	ITGA1_uc003jov.2_Splice_Site|ITGA1_uc003jow.2_Splice_Site_p.L591_splice	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor						axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				ACAATTCTGGTAAATTAAGAC	0.328													39	36	---	---	---	---	PASS	C	52235523	C	C	52235523	5	2	58	1	0	0	0	0	0	0	1	0	7872	1652	57	5	3280	5	ITGA1	5	52235523	Splice_Site	SNP	T	TCGA-33-4566-01A-01D-1441-08	6972735	52235523	128679737	461	21836										
GPX8	493869	broad.mit.edu	37	chr5	54456978	54456978	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cggagccccgcccaagcaagGaagtagaatcttttgcaaga	11	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:54456978G>C	uc003jpq.2	+	2	398	c.361G>C	c.(361-363)GAA>CAA	p.E121Q	CDC20B_uc003jpn.1_Intron|CDC20B_uc010ivu.1_Intron|CDC20B_uc003jpo.1_Intron|CDC20B_uc010ivv.1_Intron|CDC20B_uc003jpp.2_Intron|GPX8_uc003jpr.2_Intron|GPX8_uc003jps.2_RNA|GPX8_uc003jpt.2_Missense_Mutation_p.E70Q	NM_001008397	NP_001008398	Q8TED1	GPX8_HUMAN	glutathione peroxidase 8	121					response to oxidative stress	integral to membrane	glutathione peroxidase activity				0					Glutathione(DB00143)	CCCAAGCAAGGAAGTAGAATC	0.453													48	47	---	---	---	---	PASS	C	54456978	C	C	54456978	3	2	58	1	0	0	0	0	1	0	0	0	6746	1175	41	2	367	2	GPX8	5	54456978	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2221455	54456978	126458282	462	21837										
ACTBL2	345651	broad.mit.edu	37	chr5	56777566	56777566	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atcttgattttcatggtgctGggtgccagggttatgatttc	12	6	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:56777566G>T	uc003jrm.2	-	1	1071	c.969C>A	c.(967-969)CCC>CCA	p.P323P		NM_001017992	NP_001017992	Q562R1	ACTBL_HUMAN	actin, beta-like 2	323						cytoplasm|cytoskeleton	ATP binding			ovary(3)	3		Lung NSC(810;0.000135)|Prostate(74;0.055)|Breast(144;0.0707)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;4.24e-37)		TCATGGTGCTGGGTGCCAGGG	0.512													64	60	---	---	---	---	PASS	T	56777566	T	T	56777566	2	4	58	1	0	0	0	0	0	0	0	1	194	1335	47	3		3	ACTBL2	5	56777566	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	2320588	56777566	124137694	463	21838										
ACTBL2	345651	broad.mit.edu	37	chr5	56778020	56778020	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcgtagaatggcatgaggcAgggcataaccttcatagatg	14	7	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:56778020A>T	uc003jrm.2	-	1	617	c.515T>A	c.(514-516)CTG>CAG	p.L172Q		NM_001017992	NP_001017992	Q562R1	ACTBL_HUMAN	actin, beta-like 2	172						cytoplasm|cytoskeleton	ATP binding			ovary(3)	3		Lung NSC(810;0.000135)|Prostate(74;0.055)|Breast(144;0.0707)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;4.24e-37)		GGCATGAGGCAGGGCATAACC	0.547													48	55	---	---	---	---	PASS	T	56778020	T	T	56778020	3	4	58	1	0	0	0	0	1	0	0	0	194	188	7	5	619	5	ACTBL2	5	56778020	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	454	56778020	124137240	464	21839										
HTR1A	3350	broad.mit.edu	37	chr5	63256357	63256357	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaagtatgcgtaaatgacgGggttaagcagagagttggag							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:63256357G>T	uc011cqt.1	-	1	1190	c.1190C>A	c.(1189-1191)CCC>CAC	p.P397H		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	397	Helical; Name=7; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	GTAAATGACGGGGTTAAGCAG	0.517													143	173	---	---	---	---	PASS	T	63256357	T	T	63256357	3	4	58	1	0	0	0	0	1	0	0	0	7436	1232	43	3	81	3	HTR1A	5	63256357	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6478337	63256357	117658903	465	21840	489	2								
HTR1A	3350	broad.mit.edu	37	chr5	63256358	63256358	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaagtatgcgtaaatgacggGgttaagcagagagttggagt							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:63256358G>T	uc011cqt.1	-	1	1189	c.1189C>A	c.(1189-1191)CCC>ACC	p.P397T		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	397	Helical; Name=7; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TAAATGACGGGGTTAAGCAGA	0.522													141	175	---	---	---	---	PASS	T	63256358	T	T	63256358	3	4	58	1	0	0	0	0	1	0	0	0	7436	1232	43	3	82	3	HTR1A	5	63256358	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1	63256358	117658902	466	21841	489	2								
NAIP	4671	broad.mit.edu	37	chr5	70308644	70308644	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcttctagttcctttgccaaCtgaactgcatctaggcccag	7	13	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:70308644C>A	uc003kar.1	-	4	817	c.99G>T	c.(97-99)CAG>CAT	p.Q33H	NAIP_uc003kat.1_Intron|NAIP_uc011crs.1_Missense_Mutation_p.Q33H|NAIP_uc003kas.1_Intron	NM_004536	NP_004527	Q13075	BIRC1_HUMAN	NLR family, apoptosis inhibitory protein isoform	33					anti-apoptosis|apoptosis|nervous system development	basolateral plasma membrane|cytoplasm	caspase inhibitor activity|metal ion binding|nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(1)	1		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		CCTTTGCCAACTGAACTGCAT	0.478													85	184	---	---	---	---	PASS	A	70308644	A	A	70308644	3	1	58	1	0	0	0	0	1	0	0	0	10147	564	20	3	4168	3	NAIP	5	70308644	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	7052286	70308644	110606616	467	21842										
ZNF366	167465	broad.mit.edu	37	chr5	71752345	71752345	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	taggcgcggatgttggtgtgGatcagcacgtgtcgcttcat	15	8	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:71752345G>T	uc003kce.1	-	3	1596	c.1410C>A	c.(1408-1410)ATC>ATA	p.I470I		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	470	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		TGTTGGTGTGGATCAGCACGT	0.557													104	106	---	---	---	---	PASS	T	71752345	T	T	71752345	2	4	58	1	0	0	0	0	0	0	0	1	17867	1164	41	2		2	ZNF366	5	71752345	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1443701	71752345	109162915	468	21843										
RGNEF	64283	broad.mit.edu	37	chr5	73136487	73136487	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcacacactgaagcccagcaGtccttcatgtcaccatcaag	7	15	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:73136487G>T	uc011csq.1	+	10	1340	c.1329G>T	c.(1327-1329)CAG>CAT	p.Q443H	RGNEF_uc003kcx.2_Missense_Mutation_p.Q443H|RGNEF_uc003kcy.1_Missense_Mutation_p.Q443H|RGNEF_uc010izf.2_Missense_Mutation_p.Q443H|RGNEF_uc011csr.1_Missense_Mutation_p.Q130H	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	443					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		AAGCCCAGCAGTCCTTCATGT	0.458													17	15	---	---	---	---	PASS	T	73136487	T	T	73136487	3	4	58	1	0	0	0	0	1	0	0	0	13283	1020	36	3	1367	3	RGNEF	5	73136487	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1384142	73136487	107778773	469	21844										
COL4A3BP	10087	broad.mit.edu	37	chr5	74706902	74706902	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	attgcatttttatatgcttcCtctgttcttcttttcttctc	3	10	5	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:74706902C>A	uc011csu.1	-	8	1286	c.864G>T	c.(862-864)GAG>GAT	p.E288D	COL4A3BP_uc003kds.2_Missense_Mutation_p.E288D|COL4A3BP_uc003kdt.2_Missense_Mutation_p.E416D|COL4A3BP_uc003kdu.2_Missense_Mutation_p.E288D	NM_005713	NP_005704	Q9Y5P4	C43BP_HUMAN	alpha 3 type IV collagen binding protein isoform	288	Potential.				ER to Golgi ceramide transport|immune response	cytosol|endoplasmic reticulum membrane|Golgi apparatus	ceramide binding|phosphatidylinositol-4-phosphate binding|protein binding|protein kinase activity			skin(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;1e-53)		TATATGCTTCCTCTGTTCTTC	0.303													35	39	---	---	---	---	PASS	A	74706902	A	A	74706902	3	1	58	1	0	0	0	0	1	0	0	0	3692	680	24	3	1050	3	COL4A3BP	5	74706902	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1570415	74706902	106208358	470	21845										
PDE8B	8622	broad.mit.edu	37	chr5	76707522	76707522	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acggcttgagaagactgtcaGgaaacgagtatgtgtttact	12	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:76707522G>A	uc003kfa.2	+	15	1597	c.1552G>A	c.(1552-1554)GGA>AGA	p.G518R	PDE8B_uc003kfb.2_Missense_Mutation_p.G498R|PDE8B_uc003kfc.2_Missense_Mutation_p.G463R|PDE8B_uc003kfd.2_Missense_Mutation_p.G471R|PDE8B_uc003kfe.2_Missense_Mutation_p.G421R	NM_003719	NP_003710	O95263	PDE8B_HUMAN	phosphodiesterase 8B isoform 1	518					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity				0		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)		AAGACTGTCAGGAAACGAGTA	0.373													53	38	---	---	---	---	PASS	A	76707522	A	A	76707522	3	1	58	1	0	0	0	0	1	0	0	0	11654	1001	35	3	1610	3	PDE8B	5	76707522	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2000620	76707522	104207738	471	21846										
BHMT2	23743	broad.mit.edu	37	chr5	78379182	78379182	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagaggggtttgtggatctcCcagaatatccctttggtaag	12	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:78379182C>A	uc003kft.2	+	6	789	c.766C>A	c.(766-768)CCA>ACA	p.P256T	BHMT2_uc011cth.1_Missense_Mutation_p.P192T	NM_017614	NP_060084	Q9H2M3	BHMT2_HUMAN	betaine-homocysteine methyltransferase 2	256	Hcy-binding.				methionine biosynthetic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00063)|Lung NSC(167;0.00171)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;2.09e-45)|Epithelial(54;9.3e-41)|all cancers(79;4.09e-36)	L-Methionine(DB00134)	TGTGGATCTCCCAGAATATCC	0.502													50	47	---	---	---	---	PASS	A	78379182	A	A	78379182	3	1	58	1	0	0	0	0	1	0	0	0	1426	623	22	3	788	3	BHMT2	5	78379182	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1671660	78379182	102536078	472	21847										
RASGRF2	5924	broad.mit.edu	37	chr5	80388701	80388701	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttgtctttgaaaaaggaagGagagagacaatgcttcttat	11	4	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:80388701G>T	uc003kha.1	+	10	1472	c.1472G>T	c.(1471-1473)GGA>GTA	p.G491V	RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	491	PH 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		AAAAAGGAAGGAGAGAGACAA	0.388													78	71	---	---	---	---	PASS	T	80388701	T	T	80388701	3	4	58	1	0	0	0	0	1	0	0	0	13073	1174	41	2	1510	2	RASGRF2	5	80388701	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2009519	80388701	100526559	473	21848										
ATP6AP1L	92270	broad.mit.edu	37	chr5	81608492	81608492	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtttagtttgcgccgagtcgAgatcatttccaacaattcaa	8	9	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:81608492A>G	uc003khv.2	+	9	1519	c.194A>G	c.(193-195)GAG>GGG	p.E65G	ATP6AP1L_uc003khw.2_Missense_Mutation_p.E65G	NM_001017971	NP_001017971	Q52LC2	VAS1L_HUMAN	ATPase, H+ transporting, lysosomal accessory	65					ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						CGCCGAGTCGAGATCATTTCC	0.448											OREG0016689	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	120	119	---	---	---	---	PASS	G	81608492	G	G	81608492	3	3	58	1	0	0	0	0	1	0	0	0	1166	304	11	5	204	5	ATP6AP1L	5	81608492	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1219791	81608492	99306768	474	21849										
GPR98	84059	broad.mit.edu	37	chr5	90025522	90025522	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtcttccttcaggtattttcAgtctgtagattttgctgctg	9	8	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:90025522A>T	uc003kju.2	+	50	10586	c.10490A>T	c.(10489-10491)CAG>CTG	p.Q3497L	GPR98_uc003kjt.2_Missense_Mutation_p.Q1203L|GPR98_uc003kjv.2_Missense_Mutation_p.Q1097L	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3497	EAR 6.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AGGTATTTTCAGTCTGTAGAT	0.378													17	24	---	---	---	---	PASS	T	90025522	T	T	90025522	3	4	58	1	0	0	0	0	1	0	0	0	6721	188	7	5	10688	5	GPR98	5	90025522	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	8417030	90025522	90889738	475	21850										
ANKRD32	84250	broad.mit.edu	37	chr5	94022349	94022349	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcttcaaatgtttgttgcaGaggcagtctttaaaaagttg	11	5	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:94022349G>C	uc003kkr.3	+	16	2127	c.2047G>C	c.(2047-2049)GAG>CAG	p.E683Q	ANKRD32_uc003kks.2_Missense_Mutation_p.E47Q	NM_032290	NP_115666	Q9BQI6	ANR32_HUMAN	ankyrin repeat domain 32	683										ovary(2)	2		all_cancers(142;1.51e-09)|all_epithelial(76;4.68e-12)|all_lung(232;5.94e-05)|Ovarian(174;0.000953)|Lung NSC(167;0.00105)|Colorectal(57;0.122)|Lung SC(612;0.152)		all cancers(79;3.88e-18)		GTTTGTTGCAGAGGCAGTCTT	0.393													109	102	---	---	---	---	PASS	C	94022349	C	C	94022349	3	2	58	1	0	0	0	0	1	0	0	0	660	943	33	2	2105	2	ANKRD32	5	94022349	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3996827	94022349	86892911	476	21851										
CAST	831	broad.mit.edu	37	chr5	96064905	96064905	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagaaggaaagccaaaagaaCacacagaggtaaatgattat	9	5	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:96064905C>T	uc003klz.1	+	5	340	c.178C>T	c.(178-180)CAC>TAC	p.H60Y	CAST_uc003klt.2_Missense_Mutation_p.H60Y|CAST_uc003klu.2_Missense_Mutation_p.H143Y|CAST_uc003klv.2_Missense_Mutation_p.H121Y|CAST_uc003klw.2_Intron|CAST_uc003klx.2_Intron|CAST_uc003kly.2_Missense_Mutation_p.H121Y|CAST_uc011cuo.1_Missense_Mutation_p.H106Y|CAST_uc011cup.1_Missense_Mutation_p.H38Y|CAST_uc011cuq.1_Intron|CAST_uc011cur.1_Missense_Mutation_p.H46Y|CAST_uc011cus.1_Missense_Mutation_p.H60Y|CAST_uc003kma.1_Intron|CAST_uc011cut.1_Missense_Mutation_p.H38Y|CAST_uc003kmb.2_Intron|CAST_uc003kmc.2_Missense_Mutation_p.H60Y|CAST_uc003kmd.2_Missense_Mutation_p.H38Y|CAST_uc003kme.2_Intron|CAST_uc003kmf.2_Missense_Mutation_p.H38Y	NM_001042443	NP_001035908	P20810	ICAL_HUMAN	calpastatin isoform i	60							calcium-dependent cysteine-type endopeptidase inhibitor activity|protein binding			central_nervous_system(3)|ovary(1)|kidney(1)	5		all_cancers(142;5.27e-07)|all_epithelial(76;8.21e-10)|all_lung(232;0.000396)|Lung NSC(167;0.000539)|Ovarian(225;0.024)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;6.85e-15)		GCCAAAAGAACACACAGAGGT	0.323													26	38	---	---	---	---	PASS	T	96064905	T	T	96064905	3	4	58	1	0	0	0	0	1	0	0	0	2684	478	17	3	453	3	CAST	5	96064905	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2042556	96064905	84850355	477	21852										
SLCO6A1	133482	broad.mit.edu	37	chr5	101748803	101748803	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaattgaagatgagcatctaCatttttcattgcaaggagcc	8	7	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:101748803C>G	uc003knn.2	-	9	1689	c.1517G>C	c.(1516-1518)TGT>TCT	p.C506S	SLCO6A1_uc003kno.2_Missense_Mutation_p.C253S|SLCO6A1_uc003knp.2_Missense_Mutation_p.C506S|SLCO6A1_uc003knq.2_Missense_Mutation_p.C444S	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	506	Extracellular (Potential).|Kazal-like.					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		TGAGCATCTACATTTTTCATT	0.333													42	45	---	---	---	---	PASS	G	101748803	G	G	101748803	3	3	58	1	0	0	0	0	1	0	0	0	14732	478	17	4	662	4	SLCO6A1	5	101748803	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5683898	101748803	79166457	478	21853										
SLCO6A1	133482	broad.mit.edu	37	chr5	101755672	101755672	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agacatttctaatgtggaaaCaatgacacctcccagaagct	7	10	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:101755672C>A	uc003knn.2	-	8	1502	c.1330G>T	c.(1330-1332)GTT>TTT	p.V444F	SLCO6A1_uc003kno.2_Intron|SLCO6A1_uc003knp.2_Missense_Mutation_p.V444F|SLCO6A1_uc003knq.2_Missense_Mutation_p.V382F	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	444	Helical; Name=8; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		AATGTGGAAACAATGACACCT	0.353													31	48	---	---	---	---	PASS	A	101755672	A	A	101755672	3	1	58	1	0	0	0	0	1	0	0	0	14732	478	17	3	853	3	SLCO6A1	5	101755672	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	6869	101755672	79159588	479	21854										
GIN1	54826	broad.mit.edu	37	chr5	102423699	102423699	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctatcaatggagagattttcGtatttctatattctaatagt	6	5	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:102423699G>A	uc003koa.1	-	8	1554	c.1472C>T	c.(1471-1473)ACG>ATG	p.T491M	GIN1_uc003kob.1_Missense_Mutation_p.T344M|GIN1_uc003koc.1_3'UTR	NM_017676	NP_060146	Q9NXP7	GIN1_HUMAN	zinc finger, H2C2 domain containing	491					DNA integration		DNA binding			ovary(1)|skin(1)	2		all_cancers(142;3.23e-07)|all_epithelial(76;3.64e-10)|Prostate(80;0.00914)|Ovarian(225;0.0139)|Lung NSC(167;0.0212)|Colorectal(57;0.0249)|all_lung(232;0.0283)		Epithelial(69;3.57e-14)|COAD - Colon adenocarcinoma(37;0.00794)		AGAGATTTTCGTATTTCTATA	0.343													37	105	---	---	---	---	PASS	A	102423699	A	A	102423699	3	1	58	1	0	0	0	0	1	0	0	0	6386	1145	40	1	100	1	GIN1	5	102423699	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	668027	102423699	78491561	480	21855										
STARD4	134429	broad.mit.edu	37	chr5	110835665	110835665	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accgcagactgaggaatcatCccacgcagatctgtctgaat	9	12	3	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:110835665C>T	uc003kph.1	-	6	621	c.537G>A	c.(535-537)GGG>GGA	p.G179G	STARD4_uc010jbw.1_Silent_p.G81G|STARD4_uc010jbx.1_Silent_p.G81G|STARD4_uc003kpi.1_RNA	NM_139164	NP_631903	Q96DR4	STAR4_HUMAN	StAR-related lipid transfer (START) domain	179	START.				lipid transport		lipid binding			ovary(1)	1		all_cancers(142;0.00259)|all_epithelial(76;8.32e-05)|Prostate(80;0.0115)|Colorectal(10;0.0959)|Ovarian(225;0.156)|all_lung(232;0.18)|Lung NSC(167;0.248)		OV - Ovarian serous cystadenocarcinoma(64;4.91e-09)|Epithelial(69;1.39e-08)|all cancers(49;2.34e-06)|COAD - Colon adenocarcinoma(37;0.049)|Colorectal(14;0.138)		GAGGAATCATCCCACGCAGAT	0.413													39	80	---	---	---	---	PASS	T	110835665	T	T	110835665	2	4	58	1	0	0	0	0	0	0	0	1	15258	842	30	2		2	STARD4	5	110835665	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	8411966	110835665	70079595	481	21856										
CEP120	153241	broad.mit.edu	37	chr5	122726941	122726941	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accttcgactgtgactgggtGctggttgatttctgtactgc	12	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:122726941G>A	uc003ktk.2	-	8	983	c.901C>T	c.(901-903)CAC>TAC	p.H301Y	CEP120_uc011cwq.1_Missense_Mutation_p.H110Y|CEP120_uc010jcz.1_Missense_Mutation_p.H275Y	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	301				H -> R (in Ref. 4; CAH10371).		centrosome				ovary(1)	1						GTGACTGGGTGCTGGTTGATT	0.463													115	88	---	---	---	---	PASS	A	122726941	A	A	122726941	3	1	58	1	0	0	0	0	1	0	0	0	3246	1319	46	3	2115	3	CEP120	5	122726941	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	11891276	122726941	58188319	482	21857										
FBN2	2201	broad.mit.edu	37	chr5	127671679	127671679	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcctgcttggtctccccttaCctgtacagccctggcggtct	10	16	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:127671679C>A	uc003kuu.2	-	28	4163	c.3724_splice	c.e28+1	p.D1242_splice	FBN2_uc003kuv.2_Splice_Site_p.D1209_splice	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor						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)		TCTCCCCTTACCTGTACAGCC	0.458													20	21	---	---	---	---	PASS	A	127671679	A	A	127671679	5	1	58	1	0	0	0	0	0	0	1	0	5703	521	18	3	5165	3	FBN2	5	127671679	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	4944738	127671679	53243581	483	21858										
SLC27A6	28965	broad.mit.edu	37	chr5	128302173	128302173	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggctctgctgatgagcaatGagccggacttcgttcacgtg	13	10	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:128302173G>T	uc003kuy.2	+	2	739	c.343G>T	c.(343-345)GAG>TAG	p.E115*	SLC27A6_uc003kuz.2_Nonsense_Mutation_p.E115*	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	115					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		GATGAGCAATGAGCCGGACTT	0.547													19	26	---	---	---	---	PASS	T	128302173	T	T	128302173	4	4	58	1	0	0	0	0	0	1	0	0	14530	1291	45	2	345	2	SLC27A6	5	128302173	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	630494	128302173	52613087	484	21859										
PITX1	5307	broad.mit.edu	37	chr5	134364975	134364975	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagctgctggttacgctcgcGcttacgccacttggctcgcc	11	16	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:134364975G>T	uc010jea.2	-	3	832	c.439C>A	c.(439-441)CGC>AGC	p.R147S	PITX1_uc011cxy.1_Missense_Mutation_p.R147S	NM_002653	NP_002644	P78337	PITX1_HUMAN	paired-like homeodomain transcription factor 1	147	Homeobox.|Interacts with PIT-1 (By similarity).					nucleolus	sequence-specific DNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	READ - Rectum adenocarcinoma(2;0.0607)		TTACGCTCGCGCTTACGCCAC	0.687													45	56	---	---	---	---	PASS	T	134364975	T	T	134364975	3	4	58	1	0	0	0	0	1	0	0	0	11954	1087	38	1	509	1	PITX1	5	134364975	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6062802	134364975	46550285	485	21860										
CDC23	8697	broad.mit.edu	37	chr5	137542257	137542257	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agatatctggaatacatataCagaaaataggctttcttgct	7	6	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:137542257C>A	uc003lcl.2	-	3	382	c.351G>T	c.(349-351)CTG>CTT	p.L117L	CDC23_uc003lcm.1_Silent_p.L117L	NM_004661	NP_004652	Q9UJX2	CDC23_HUMAN	cell division cycle protein 23	117					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1 phase of mitotic cell cycle|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase plate congression|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of exit from mitosis	anaphase-promoting complex|cytosol|nucleoplasm	binding|ubiquitin-protein ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			AATACATATACAGAAAATAGG	0.393													58	44	---	---	---	---	PASS	A	137542257	A	A	137542257	2	1	58	1	0	0	0	0	0	0	0	1	3061	465	17	3		3	CDC23	5	137542257	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	3177282	137542257	43373003	486	21861										
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139908801	139908802	+	Frame_Shift_Ins	INS	-	G	G													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagtgtgtctgatttaagtINScctatgtcaatgccttttgc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:139908801_139908802insG	uc003lfs.1	+	29	6394_6395	c.6270_6271insG	c.(6268-6273)AGTCCTfs	p.S2090fs	ANKHD1_uc003lfr.2_Frame_Shift_Ins_p.S2090fs|ANKHD1-EIF4EBP3_uc011czh.1_Frame_Shift_Ins_p.S829fs|ANKHD1_uc003lfw.2_Frame_Shift_Ins_p.S728fs|ANKHD1_uc010jfl.2_Frame_Shift_Ins_p.S525fs|ANKHD1-EIF4EBP3_uc003lfx.1_Frame_Shift_Ins_p.S227fs	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	2090_2091						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGATTTAAGTCCTATGTCAAT	0.48													150	170	---	---	---	---		G	139908802	G	G	139908801	7	5	58	1	0	1	1	0	0	0	0	0	629	1664	58	0	6384	0	ANKHD1-EIF4EBP3	5	139908801	Frame_Shift_Ins	INS	-	TCGA-33-4566-01A-01D-1441-08	2366544	139908801	41006459	487	21862										
PCDHA1	56147	broad.mit.edu	37	chr5	140166549	140166549	+	Missense_Mutation	SNP	C	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaaccggagctgcaaggtaCagttgagctgctgatcaccg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140166549C>T	uc003lhb.2	+	1	674	c.674C>T	c.(673-675)ACA>ATA	p.T225I	PCDHA1_uc003lha.2_Missense_Mutation_p.T225I|PCDHA1_uc003lgz.2_Missense_Mutation_p.T225I	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	225	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCAAGGTACAGTTGAGCTG	0.463													50	39	---	---	---	---	PASS	T	140166549	T	T	140166549	3	4	58	1	0	0	0	0	1	0	0	0	11519	478	17	3	676	3	PCDHA1	5	140166549	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	257748	140166549	40748711	488	21863	490	2								
PCDHA1	56147	broad.mit.edu	37	chr5	140166551	140166551	+	Missense_Mutation	SNP	G	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaccggagctgcaaggtacaGttgagctgctgatcaccgtc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140166551G>A	uc003lhb.2	+	1	676	c.676G>A	c.(676-678)GTT>ATT	p.V226I	PCDHA1_uc003lha.2_Missense_Mutation_p.V226I|PCDHA1_uc003lgz.2_Missense_Mutation_p.V226I	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	226	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAAGGTACAGTTGAGCTGCT	0.463													50	40	---	---	---	---	PASS	A	140166551	A	A	140166551	3	1	58	1	0	0	0	0	1	0	0	0	11519	1029	36	3	678	3	PCDHA1	5	140166551	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2	140166551	40748709	489	21864	490	2								
PCDHA1	56147	broad.mit.edu	37	chr5	140167336	140167336	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gacgcggacgcgcaggagaaCgcgctggtgtcctattcgct	15	12	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140167336C>A	uc003lhb.2	+	1	1461	c.1461C>A	c.(1459-1461)AAC>AAA	p.N487K	PCDHA1_uc003lha.2_Missense_Mutation_p.N487K|PCDHA1_uc003lgz.2_Missense_Mutation_p.N487K	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	487	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCAGGAGAACGCGCTGGTGT	0.657													48	51	---	---	---	---	PASS	A	140167336	A	A	140167336	3	1	58	1	0	0	0	0	1	0	0	0	11519	535	19	1	1463	1	PCDHA1	5	140167336	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	785	140167336	40747924	490	21865										
PCDHA2	56146	broad.mit.edu	37	chr5	140175926	140175926	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccggcgttcgcacagcctgaGtacacagtattcgtgaagga	12	11	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140175926G>T	uc003lhd.2	+	1	1483	c.1377G>T	c.(1375-1377)GAG>GAT	p.E459D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.E459D|PCDHA2_uc011czy.1_Missense_Mutation_p.E459D	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	459	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACAGCCTGAGTACACAGTAT	0.652													54	49	---	---	---	---	PASS	T	140175926	T	T	140175926	3	4	58	1	0	0	0	0	1	0	0	0	11524	1020	36	3	1379	3	PCDHA2	5	140175926	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	8590	140175926	40739334	491	21866										
PCDHA4	56144	broad.mit.edu	37	chr5	140188024	140188024	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgccctggaccgcgagagcGtgtcagcctatgagctggtg	16	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140188024G>T	uc003lhi.2	+	1	1353	c.1252G>T	c.(1252-1254)GTG>TTG	p.V418L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.V418L|PCDHA4_uc011daa.1_Missense_Mutation_p.V418L	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	418	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGCGAGAGCGTGTCAGCCTA	0.612													84	96	---	---	---	---	PASS	T	140188024	T	T	140188024	3	4	58	1	0	0	0	0	1	0	0	0	11526	1145	40	1	1254	1	PCDHA4	5	140188024	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	12098	140188024	40727236	492	21867										
PCDHA5	56143	broad.mit.edu	37	chr5	140202727	140202727	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caacgctccggcgttcgcgcAgccccagtataccgtgttcg	11	16	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140202727A>G	uc003lhl.2	+	1	1367	c.1367A>G	c.(1366-1368)CAG>CGG	p.Q456R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.Q456R|PCDHA5_uc003lhj.1_Missense_Mutation_p.Q456R	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	456	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGTTCGCGCAGCCCCAGTAT	0.677													55	59	---	---	---	---	PASS	G	140202727	G	G	140202727	3	3	58	1	0	0	0	0	1	0	0	0	11527	188	7	5	1369	5	PCDHA5	5	140202727	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	14703	140202727	40712533	493	21868										
PCDHAC2	56134	broad.mit.edu	37	chr5	140358567	140358567	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accctgactggcgttactctGcctccctgagagcaggcatg	11	14	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140358567G>T	uc003lii.2	+	2	2839	c.2599G>T	c.(2599-2601)GCC>TCC	p.A867S	PCDHA1_uc003lha.2_Missense_Mutation_p.A546S|PCDHA1_uc003lhb.2_Missense_Mutation_p.A810S|PCDHA2_uc003lhd.2_Missense_Mutation_p.A808S|PCDHA3_uc003lhf.2_Missense_Mutation_p.A810S|PCDHA4_uc003lhi.2_Missense_Mutation_p.A807S|PCDHA4_uc003lhh.1_Missense_Mutation_p.A807S|PCDHA5_uc003lhk.1_Missense_Mutation_p.A796S|PCDHA5_uc003lhl.2_Missense_Mutation_p.A796S|PCDHA6_uc003lhn.2_Missense_Mutation_p.A546S|PCDHA6_uc003lho.2_Missense_Mutation_p.A810S|PCDHA7_uc003lhq.2_Missense_Mutation_p.A797S|PCDHA8_uc003lhs.2_Missense_Mutation_p.A810S|PCDHA9_uc003lhu.2_Missense_Mutation_p.A810S|PCDHA10_uc003lhw.2_Missense_Mutation_p.A545S|PCDHA10_uc003lhx.2_Missense_Mutation_p.A808S|PCDHA11_uc003lia.2_Missense_Mutation_p.A809S|PCDHA12_uc003lic.2_Missense_Mutation_p.A801S|PCDHA13_uc003lie.1_Missense_Mutation_p.A810S|PCDHA13_uc003lif.2_Missense_Mutation_p.A810S|PCDHAC1_uc003lih.2_Missense_Mutation_p.A823S	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	867	4 X 4 AA repeats of P-X-X-P.|Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGTTACTCTGCCTCCCTGAG	0.463													35	33	---	---	---	---	PASS	T	140358567	T	T	140358567	3	4	58	1	0	0	0	0	1	0	0	0	11533	1319	46	3	2693	3	PCDHAC2	5	140358567	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	155840	140358567	40556693	494	21869										
PCDHB13	56123	broad.mit.edu	37	chr5	140594417	140594417	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatgtcaacgataatgcccCtgaatttgagcagcctttct	9	10	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140594417C>T	uc003lja.1	+	1	909	c.722C>T	c.(721-723)CCT>CTT	p.P241L		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	241	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GATAATGCCCCTGAATTTGAG	0.532													84	102	---	---	---	---	PASS	T	140594417	T	T	140594417	3	4	58	1	0	0	0	0	1	0	0	0	11538	681	24	3	724	3	PCDHB13	5	140594417	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	235850	140594417	40320843	495	21870										
PCDHGA2	56113	broad.mit.edu	37	chr5	140720414	140720414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgggtctgcacacgggcgagGtgcgcacggcgcgagccctg	18	13	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140720414G>T	uc003ljk.1	+	1	2061	c.1876G>T	c.(1876-1878)GTG>TTG	p.V626L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.V626L	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	626	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACGGGCGAGGTGCGCACGGC	0.687													45	34	---	---	---	---	PASS	T	140720414	T	T	140720414	3	4	58	1	0	0	0	0	1	0	0	0	11554	1261	44	3	1878	3	PCDHGA2	5	140720414	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	125997	140720414	40194846	496	21871										
PCDHGB1	56104	broad.mit.edu	37	chr5	140731432	140731432	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caggccagggaccagggctcCcccgcgctcagcgccaacgt	13	18	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140731432C>G	uc003ljo.1	+	1	1605	c.1605C>G	c.(1603-1605)TCC>TCG	p.S535S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Silent_p.S535S	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	535	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCAGGGCTCCCCCGCGCTCA	0.711													44	50	---	---	---	---	PASS	G	140731432	G	G	140731432	2	3	58	1	0	0	0	0	0	0	0	1	11562	610	22	4		4	PCDHGB1	5	140731432	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	11018	140731432	40183828	497	21872										
PCDHGA8	9708	broad.mit.edu	37	chr5	140774289	140774289	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagccctgctggacagagatGcgctcaagcagagcctcgtg	14	12	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140774289G>C	uc003lkd.1	+	1	2807	c.1909G>C	c.(1909-1911)GCG>CCG	p.A637P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.A637P	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	637	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACAGAGATGCGCTCAAGCA	0.687													21	23	---	---	---	---	PASS	C	140774289	C	C	140774289	3	2	58	1	0	0	0	0	1	0	0	0	11560	1319	46	4	1911	4	PCDHGA8	5	140774289	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	42857	140774289	40140971	498	21873										
PCDHGB6	56100	broad.mit.edu	37	chr5	140787817	140787817	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgggccggcccgcggcaggtGctatttcctttgctgctgcc	14	15	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140787817G>A	uc003lkj.1	+	1	48	c.48G>A	c.(46-48)GTG>GTA	p.V16V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Silent_p.V16V	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	16					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			cgcggcAGGTGCTATTTCCTT	0.547											OREG0016861	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	6	---	---	---	---	PASS	A	140787817	A	A	140787817	2	1	58	1	0	0	0	0	0	0	0	1	11567	1306	46	3		3	PCDHGB6	5	140787817	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	13528	140787817	40127443	499	21874										
PCDHGB7	56099	broad.mit.edu	37	chr5	140799700	140799700	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tataatttttgtgtgcctggGgatcaaatgaatccagaatt	9	5	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:140799700G>T	uc003lkn.1	+	1	2419	c.2274G>T	c.(2272-2274)GGG>GGT	p.G758G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Silent_p.G758G|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	758	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGTGCCTGGGGATCAAATGA	0.448													25	40	---	---	---	---	PASS	T	140799700	T	T	140799700	2	4	58	1	0	0	0	0	0	0	0	1	11568	1219	43	3		3	PCDHGB7	5	140799700	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	11883	140799700	40115560	500	21875										
KCTD16	57528	broad.mit.edu	37	chr5	143853639	143853639	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtttcctgagagaaaacatCcttggcaatctgaactttta	8	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:143853639C>T	uc003lnm.1	+	4	1878	c.1249C>T	c.(1249-1251)CCT>TCT	p.P417S	KCTD16_uc003lnn.1_Missense_Mutation_p.P417S	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	417						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			GAGAAAACATCCTTGGCAATC	0.383													58	63	---	---	---	---	PASS	T	143853639	T	T	143853639	3	4	58	1	0	0	0	0	1	0	0	0	8103	855	30	2	1255	2	KCTD16	5	143853639	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3053939	143853639	37061621	501	21876										
PDE6A	5145	broad.mit.edu	37	chr5	149245768	149245768	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcaaacaaagtcaatgaagcCgacttgaagcttagggagtt	11	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:149245768C>A	uc003lrg.3	-	20	2443	c.2323G>T	c.(2323-2325)GGC>TGC	p.G775C		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	775					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TCAATGAAGCCGACTTGAAGC	0.458													33	32	---	---	---	---	PASS	A	149245768	A	A	149245768	3	1	58	1	0	0	0	0	1	0	0	0	11645	652	23	1	271	1	PDE6A	5	149245768	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5392129	149245768	31669492	502	21877										
PDGFRB	5159	broad.mit.edu	37	chr5	149502665	149502665	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctccgcgctgggcgggcggCgcttgtcggagtggtgctgc	20	12	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:149502665C>A	uc003lro.2	-	15	2592	c.2123G>T	c.(2122-2124)CGC>CTC	p.R708L	PDGFRB_uc010jhd.2_Missense_Mutation_p.R547L	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	708	Cytoplasmic (Potential).|Protein kinase.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	GGGCGGGCGGCGCTTGTCGGA	0.617			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								60	60	---	---	---	---	PASS	A	149502665	A	A	149502665	3	1	58	1	0	0	0	0	1	0	0	0	11662	768	27	1	1233	1	PDGFRB	5	149502665	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	256897	149502665	31412595	503	21878										
ARSI	340075	broad.mit.edu	37	chr5	149677244	149677244	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacgcggatggcagcctgcaCggcggtgttccagatgccaa	14	13	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:149677244C>G	uc003lrv.2	-	2	1832	c.1243G>C	c.(1243-1245)GTG>CTG	p.V415L		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	415						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCAGCCTGCACGGCGGTGTTC	0.637													26	40	---	---	---	---	PASS	G	149677244	G	G	149677244	3	3	58	1	0	0	0	0	1	0	0	0	994	536	19	4	470	4	ARSI	5	149677244	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	174579	149677244	31238016	504	21879										
FAM71B	153745	broad.mit.edu	37	chr5	156589937	156589937	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgactttcacctgccttgcGgtgatgagaacttttcctac	9	11	1	3	rs115938677	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:156589937G>C	uc003lwn.2	-	2	1439	c.1339C>G	c.(1339-1341)CGC>GGC	p.R447G		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	447	Bipartite nuclear localization signal (Potential).					nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CCTGCCTTGCGGTGATGAGAA	0.498													128	104	---	---	---	---	PASS	C	156589937	C	C	156589937	3	2	58	1	0	0	0	0	1	0	0	0	5608	1116	39	4	482	4	FAM71B	5	156589937	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6912693	156589937	24325323	505	21880										
RNF145	153830	broad.mit.edu	37	chr5	158621832	158621832	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcaccacacttaagatataaCctgtaccagaaagataaata	5	9	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:158621832C>G	uc003lxp.2	-	3	498	c.185G>C	c.(184-186)GGT>GCT	p.G62A	RNF145_uc011ddy.1_Missense_Mutation_p.G76A|RNF145_uc003lxo.1_Missense_Mutation_p.G90A|RNF145_uc011ddz.1_Missense_Mutation_p.G79A|RNF145_uc010jiq.1_Missense_Mutation_p.G92A|RNF145_uc011dea.1_Missense_Mutation_p.G78A	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	62	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TAAGATATAACCTGTACCAGA	0.333													59	42	---	---	---	---	PASS	G	158621832	G	G	158621832	3	3	58	1	0	0	0	0	1	0	0	0	13447	521	18	4	1842	4	RNF145	5	158621832	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2031895	158621832	22293428	506	21881										
GABRA6	2559	broad.mit.edu	37	chr5	161119134	161119134	+	Frame_Shift_Del	DEL	G	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acacagaaggccaaaaggaaGgcacagtttgcagccccacc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:161119134delG	uc003lyu.2	+	8	1352	c.1014delG	c.(1012-1014)AAGfs	p.K338fs	GABRA6_uc003lyv.2_Frame_Shift_Del_p.K109fs	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	338	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CCAAAAGGAAGGCACAGTTTG	0.428										TCGA Ovarian(5;0.080)			57	60	---	---	---	---		-	161119134	-	-	161119134	7	5	58	1	0	1	0	1	0	0	0	0	6165	991	35	0	1044	0	GABRA6	5	161119134	Frame_Shift_Del	DEL	G	TCGA-33-4566-01A-01D-1441-08	2497302	161119134	19796126	507	21882										
GABRP	2568	broad.mit.edu	37	chr5	170222299	170222299	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agagcttcactctggatgccCgcctcgtggagttcctctgg	12	13	3	1	rs145233692		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:170222299C>A	uc003mau.2	+	5	526	c.328C>A	c.(328-330)CGC>AGC	p.R110S	GABRP_uc011dev.1_Missense_Mutation_p.R110S	NM_014211	NP_055026	O00591	GBRP_HUMAN	gamma-aminobutyric acid (GABA) A receptor, pi	110	Extracellular (Potential).					cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			breast(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0122)|all_lung(126;0.0193)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TCTGGATGCCCGCCTCGTGGA	0.562													133	106	---	---	---	---	PASS	A	170222299	A	A	170222299	3	1	58	1	0	0	0	0	1	0	0	0	6174	652	23	1	342	1	GABRP	5	170222299	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	9103165	170222299	10692961	508	21883										
STK10	6793	broad.mit.edu	37	chr5	171533644	171533644	+	Frame_Shift_Del	DEL	C	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacttagagggcgtgagcagCgtgggagggtccgacttggc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:171533644delC	uc003mbo.1	-	6	1068	c.768delG	c.(766-768)ACGfs	p.T256fs		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	256	Protein kinase.						ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GCGTGAGCAGCGTGGGAGGGT	0.662											OREG0017039	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	26	---	---	---	---		-	171533644	-	-	171533644	7	5	58	1	0	1	0	1	0	0	0	0	15285	755	27	0	2194	0	STK10	5	171533644	Frame_Shift_Del	DEL	C	TCGA-33-4566-01A-01D-1441-08	1311345	171533644	9381616	509	21884										
HRH2	3274	broad.mit.edu	37	chr5	175111071	175111071	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcgttctgtggctgggctatGccaactcagccctgaacccc	10	15	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:175111071G>C	uc003mdd.2	+	1	2608	c.835G>C	c.(835-837)GCC>CCC	p.A279P	HRH2_uc003mdc.3_Missense_Mutation_p.A279P	NM_022304	NP_071640	P25021	HRH2_HUMAN	histamine receptor H2 isoform 2	279	Helical; Name=7; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|immune response	integral to plasma membrane	histamine receptor activity			ovary(1)	1	all_cancers(89;0.00805)|Renal(175;0.000269)|Lung NSC(126;0.00419)|all_lung(126;0.00711)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Colorectal(1;0.0154)|COAD - Colon adenocarcinoma(1;0.149)	Betazole(DB00272)|Cimetidine(DB00501)|Doxepin(DB01142)|Epinastine(DB00751)|Famotidine(DB00927)|Histamine Phosphate(DB00667)|Nizatidine(DB00585)|Ranitidine(DB00863)	GCTGGGCTATGCCAACTCAGC	0.572													45	28	---	---	---	---	PASS	C	175111071	C	C	175111071	3	2	58	1	0	0	0	0	1	0	0	0	7356	1319	46	4	837	4	HRH2	5	175111071	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3577427	175111071	5804189	510	21885										
FAM153B	202134	broad.mit.edu	37	chr5	175533576	175533576	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctctagatgcaggtggaccCagccacgccggcaaagagta	12	12	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:175533576C>A	uc003mdk.2	+	16	902	c.845C>A	c.(844-846)CCA>CAA	p.P282Q		NM_001079529	NP_001072997	P0C7A2	F153B_HUMAN	hypothetical protein LOC202134	282										ovary(1)	1	all_cancers(89;0.00406)|Renal(175;0.000269)|Lung NSC(126;0.0103)|all_lung(126;0.0164)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Kidney(146;0.0965)		CAGGTGGACCCAGCCACGCCG	0.463													100	150	---	---	---	---	PASS	A	175533576	A	A	175533576	3	1	58	1	0	0	0	0	1	0	0	0	5461	594	21	3	907	3	FAM153B	5	175533576	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	422505	175533576	5381684	511	21886										
DBN1	1627	broad.mit.edu	37	chr5	176893795	176893795	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agatagactgctccttcaacCgcctcttggcctcttccgct	7	16	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:176893795C>A	uc003mgy.2	-	8	921	c.749G>T	c.(748-750)CGG>CTG	p.R250L	DBN1_uc003mgx.2_Missense_Mutation_p.R252L|DBN1_uc010jkn.1_Missense_Mutation_p.R200L|DBN1_uc003mgz.1_Missense_Mutation_p.R187L	NM_004395	NP_004386	Q16643	DREB_HUMAN	drebrin 1 isoform a	250					actin filament organization|regulation of dendrite development|regulation of neuronal synaptic plasticity	actomyosin|cytoplasm|dendrite	actin binding|profilin binding			breast(3)|ovary(1)|lung(1)|skin(1)	6	all_cancers(89;2.17e-05)|Renal(175;0.000269)|Lung NSC(126;0.0014)|all_lung(126;0.0025)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTCCTTCAACCGCCTCTTGGC	0.597													118	103	---	---	---	---	PASS	A	176893795	A	A	176893795	3	1	58	1	0	0	0	0	1	0	0	0	4252	652	23	1	1228	1	DBN1	5	176893795	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1360219	176893795	4021465	512	21887										
PROP1	5626	broad.mit.edu	37	chr5	177419911	177419911	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagcaggtcactggtggtggTggtgctgcgtaagaataggg	18	5	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:177419911T>A	uc003mif.1	-	3	789	c.480A>T	c.(478-480)CCA>CCT	p.P160P		NM_006261	NP_006252	O75360	PROP1_HUMAN	PROP paired-like homeobox 1	160					central nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(89;0.00176)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTGGTGGTGGTGGTGCTGCGT	0.597													21	25	---	---	---	---	PASS	A	177419911	A	A	177419911	2	1	58	1	0	0	0	0	0	0	0	1	12557	1683	59	5		5	PROP1	5	177419911	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	526116	177419911	3495349	513	21888										
ADAMTS2	9509	broad.mit.edu	37	chr5	178554976	178554976	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcacctccgccacagggcttGgagcacggagaccacttctt	10	15	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr5:178554976G>C	uc003mjw.2	-	17	2601	c.2601C>G	c.(2599-2601)TCC>TCG	p.S867S		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	867	TSP type-1 2.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CACAGGGCTTGGAGCACGGAG	0.607													68	72	---	---	---	---	PASS	C	178554976	C	C	178554976	2	2	58	1	0	0	0	0	0	0	0	1	265	1335	47	4		4	ADAMTS2	5	178554976	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1135065	178554976	2360284	514	21889										
FOXF2	2295	broad.mit.edu	37	chr6	1391171	1391171	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcgagcgccatcgaatgccActcgccctacacgagccctg	11	17	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:1391171A>T	uc003mtm.2	+	1	1103	c.989A>T	c.(988-990)CAC>CTC	p.H330L	FOXF2_uc003mtn.2_Missense_Mutation_p.H330L	NM_001452	NP_001443	Q12947	FOXF2_HUMAN	forkhead box F2	330					epithelial to mesenchymal transition|genitalia development|palate development|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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 factor binding				0	Ovarian(93;0.0733)	all_lung(73;0.0713)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.095)		ATCGAATGCCACTCGCCCTAC	0.612													7	4	---	---	---	---	PASS	T	1391171	T	T	1391171	3	4	58	1	0	0	0	0	1	0	0	0	6006	159	6	5	991	5	FOXF2	6	1391171	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08		1391171	169723896	515	21890										
NUP153	9972	broad.mit.edu	37	chr6	17688803	17688803	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaagtatctttgtagccacCctggcacaatattcttaaca	6	10	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:17688803C>A	uc003ncd.1	-	2	358	c.158G>T	c.(157-159)GGG>GTG	p.G53V	NUP153_uc011dje.1_Missense_Mutation_p.G53V|NUP153_uc010jpl.1_Missense_Mutation_p.G53V	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	53					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			TTGTAGCCACCCTGGCACAAT	0.378													164	84	---	---	---	---	PASS	A	17688803	A	A	17688803	3	1	58	1	0	0	0	0	1	0	0	0	10755	623	22	3	4353	3	NUP153	6	17688803	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	16297632	17688803	153426264	516	21891										
SLC17A4	10050	broad.mit.edu	37	chr6	25769301	25769301	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaatgaacttgagcattgcCatcccagctatggtgaacaa	8	10	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:25769301C>G	uc003nfe.2	+	3	299	c.180C>G	c.(178-180)GCC>GCG	p.A60A	SLC17A4_uc011djx.1_Silent_p.A60A|SLC17A4_uc003nff.1_5'UTR|SLC17A4_uc003nfg.2_5'UTR	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),	60					phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						TGAGCATTGCCATCCCAGCTA	0.493													90	57	---	---	---	---	PASS	G	25769301	G	G	25769301	2	3	58	1	0	0	0	0	0	0	0	1	14419	581	21	4		4	SLC17A4	6	25769301	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	8080498	25769301	145345766	517	21892										
HIST1H3A	8350	broad.mit.edu	37	chr6	26020907	26020907	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtccactgaactgcttattCgtaaactacctttccagcgc	6	13	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:26020907C>A	uc003nfp.1	+	1	190	c.190C>A	c.(190-192)CGT>AGT	p.R64S	HIST1H1A_uc003nfo.2_5'Flank|HIST1H4A_uc003nfq.2_5'Flank	NM_003529	NP_003520	P68431	H31_HUMAN	histone cluster 1, H3a	64					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)|pancreas(1)	2						ACTGCTTATTCGTAAACTACC	0.607													50	24	---	---	---	---	PASS	A	26020907	A	A	26020907	3	1	58	1	0	0	0	0	1	0	0	0	7155	884	31	2	192	2	HIST1H3A	6	26020907	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	251606	26020907	145094160	518	21893										
HIST1H3E	8353	broad.mit.edu	37	chr6	26225524	26225524	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctaccgccctggcaccgtgGctctgcgcgagatccgtcgc	13	17	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:26225524G>T	uc003nhb.2	+	2	502	c.142G>T	c.(142-144)GCT>TCT	p.A48S	HIST1H3E_uc003nhc.3_Missense_Mutation_p.A48S	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	48					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.0223)|Acute lymphoblastic leukemia(11;0.0351)				TGGCACCGTGGCTCTGCGCGA	0.617													63	22	---	---	---	---	PASS	T	26225524	T	T	26225524	3	4	58	1	0	0	0	0	1	0	0	0	7159	1203	42	3	144	3	HIST1H3E	6	26225524	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	204617	26225524	144889543	519	21894										
BTN2A2	10385	broad.mit.edu	37	chr6	26393015	26393015	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccttctacaacatgagggaCagatcgcacatctacacatg	7	12	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:26393015C>A	uc003nhq.2	+	8	1478	c.1392C>A	c.(1390-1392)GAC>GAA	p.D464E	BTN2A2_uc011dkg.1_3'UTR|BTN2A2_uc003nhr.2_Missense_Mutation_p.D348E|BTN2A2_uc011dkh.1_Missense_Mutation_p.D254E|BTN2A2_uc003nhs.2_Intron|BTN2A2_uc003nht.2_Missense_Mutation_p.D464E|BTN2A2_uc011dki.1_3'UTR	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	464	B30.2/SPRY.|Cytoplasmic (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						ACATGAGGGACAGATCGCACA	0.547													5	146	---	---	---	---	PASS	A	26393015	A	A	26393015	3	1	58	1	0	0	0	0	1	0	0	0	1561	477	17	3	1418	3	BTN2A2	6	26393015	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	167491	26393015	144722052	520	21895										
BTN1A1	696	broad.mit.edu	37	chr6	26501971	26501971	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccggccgtgctggtgcataGggacgggcgcgagcaggaag	20	10	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:26501971G>A	uc003nif.3	+	2	253	c.233G>A	c.(232-234)AGG>AAG	p.R78K		NM_001732	NP_001723	Q13410	BT1A1_HUMAN	butyrophilin, subfamily 1, member A1 precursor	78	Extracellular (Potential).|Ig-like V-type 1.					extracellular region|integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2						CTGGTGCATAGGGACGGGCGC	0.692													29	14	---	---	---	---	PASS	A	26501971	A	A	26501971	3	1	58	1	0	0	0	0	1	0	0	0	1559	1000	35	3	239	3	BTN1A1	6	26501971	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	108956	26501971	144613096	521	21896										
ZNF165	7718	broad.mit.edu	37	chr6	28056811	28056811	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgcagcagttttcagtggaGataaaactcatcagtgtaat	9	6	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:28056811G>A	uc003nkg.2	+	5	2105	c.1021G>A	c.(1021-1023)GAT>AAT	p.D341N	ZNF165_uc003nkh.2_Missense_Mutation_p.D341N|ZNF165_uc003nki.3_Missense_Mutation_p.D341N|ZSCAN12P1_uc003nkj.3_5'Flank	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	341					viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTTCAGTGGAGATAAAACTCA	0.378													47	21	---	---	---	---	PASS	A	28056811	A	A	28056811	3	1	58	1	0	0	0	0	1	0	0	0	17737	942	33	2	1031	2	ZNF165	6	28056811	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1554840	28056811	143058256	522	21897										
OR2B3	442184	broad.mit.edu	37	chr6	29054515	29054515	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagtggtccacttcctggtGaccacagcgtggcatgttaa	11	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:29054515G>T	uc003nlx.2	-	1	576	c.511C>A	c.(511-513)CAC>AAC	p.H171N		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						ACTTCCTGGTGACCACAGCGT	0.488													61	30	---	---	---	---	PASS	T	29054515	T	T	29054515	3	4	58	1	0	0	0	0	1	0	0	0	10990	1290	45	2	434	2	OR2B3	6	29054515	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	997704	29054515	142060552	523	21898										
GABBR1	2550	broad.mit.edu	37	chr6	29574167	29574167	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctttgcccacatcccacacaCcaagccatgtattcatcttc	3	17	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:29574167C>A	uc003nmt.3	-	19	2647	c.2311_splice	c.e19+1	p.G771_splice	GABBR1_uc003nmp.3_Splice_Site_p.G654_splice|GABBR1_uc003nms.3_Splice_Site_p.G654_splice|GABBR1_uc003nmu.3_Splice_Site_p.G709_splice|GABBR1_uc011dlr.1_Splice_Site_p.G594_splice	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1						gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	ATCCCACACACCAAGCCATGT	0.547													141	89	---	---	---	---	PASS	A	29574167	A	A	29574167	5	1	58	1	0	0	0	0	0	0	1	0	6155	521	18	3	593	3	GABBR1	6	29574167	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	519652	29574167	141540900	524	21899										
MOG	4340	broad.mit.edu	37	chr6	29627378	29627378	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaggttctcagatgaaggagGtttcacctgcttcttccgag	11	9	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:29627378G>C	uc003nnf.2	+	2	549	c.371G>C	c.(370-372)GGT>GCT	p.G124A	MOG_uc003qzk.1_Missense_Mutation_p.G124A|MOG_uc010kle.1_Intron|MOG_uc010klf.1_Intron|MOG_uc003nmy.1_Missense_Mutation_p.G124A|MOG_uc003nmz.2_Missense_Mutation_p.G124A|MOG_uc011dlt.1_Missense_Mutation_p.G54A|MOG_uc003nna.2_Intron|MOG_uc011dlu.1_Intron|MOG_uc011dlv.1_Intron|MOG_uc003nnd.2_Missense_Mutation_p.G124A|MOG_uc003nne.2_Missense_Mutation_p.G124A|MOG_uc003nng.2_Missense_Mutation_p.G124A|MOG_uc003nnh.2_Missense_Mutation_p.G124A|MOG_uc003nni.2_Missense_Mutation_p.G124A|MOG_uc003nnj.2_Missense_Mutation_p.G124A|MOG_uc003nnk.2_Missense_Mutation_p.G124A	NM_206809	NP_996532	Q16653	MOG_HUMAN	myelin oligodendrocyte glycoprotein isoform	124	Ig-like V-type.|Extracellular (Potential).				cell adhesion|central nervous system development|positive regulation of MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)	1						GATGAAGGAGGTTTCACCTGC	0.458													77	21	---	---	---	---	PASS	C	29627378	C	C	29627378	3	2	58	1	0	0	0	0	1	0	0	0	9693	1261	44	4	377	4	MOG	6	29627378	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	53211	29627378	141487689	525	21900										
MOG	4340	broad.mit.edu	37	chr6	29633931	29633931	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtcagtcctgcctttcagatCctttctactgggtgagccct	9	13	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:29633931C>A	uc003nnf.2	+	3	617	c.439C>A	c.(439-441)CCT>ACT	p.P147T	MOG_uc003nmy.1_Missense_Mutation_p.P147T|MOG_uc003nmz.2_3'UTR|MOG_uc011dlt.1_Missense_Mutation_p.P77T|MOG_uc003nna.2_Missense_Mutation_p.P31T|MOG_uc011dlu.1_Missense_Mutation_p.P31T|MOG_uc011dlv.1_Missense_Mutation_p.P31T|MOG_uc003nnd.2_3'UTR|MOG_uc003nne.2_Missense_Mutation_p.P147T|MOG_uc003nng.2_Missense_Mutation_p.P147T|MOG_uc003nnh.2_Missense_Mutation_p.P147T|MOG_uc003nni.2_Missense_Mutation_p.P147T|MOG_uc003nnj.2_Missense_Mutation_p.P147T|MOG_uc003nnk.2_Missense_Mutation_p.P147T	NM_206809	NP_996532	Q16653	MOG_HUMAN	myelin oligodendrocyte glycoprotein isoform	147	Extracellular (Potential).				cell adhesion|central nervous system development|positive regulation of MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)	1						cctttcagatcctttctactg	0.299													176	83	---	---	---	---	PASS	A	29633931	A	A	29633931	3	1	58	1	0	0	0	0	1	0	0	0	9693	855	30	2	533	2	MOG	6	29633931	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	6553	29633931	141481136	526	21901										
DDR1	780	broad.mit.edu	37	chr6	30859793	30859793	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctccagactgcagtatggggGtctgggccagctggcagatg	16	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:30859793G>T	uc003nrr.2	+	8	939	c.680G>T	c.(679-681)GGT>GTT	p.G227V	DDR1_uc010jse.2_Missense_Mutation_p.G227V|DDR1_uc003nrq.2_Missense_Mutation_p.G227V|DDR1_uc003nrs.2_Missense_Mutation_p.G227V|DDR1_uc003nrt.2_Missense_Mutation_p.G227V|DDR1_uc011dms.1_Missense_Mutation_p.G245V|DDR1_uc003nru.2_Missense_Mutation_p.G227V|DDR1_uc011dmu.1_Missense_Mutation_p.V194F|DDR1_uc003nrv.2_Missense_Mutation_p.G227V|DDR1_uc003nrw.1_Missense_Mutation_p.G26V|DDR1_uc003nry.1_5'Flank|DDR1_uc003nrx.1_5'Flank	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	227	Extracellular (Potential).				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	CAGTATGGGGGTCTGGGCCAG	0.597													172	71	---	---	---	---	PASS	T	30859793	T	T	30859793	3	4	58	1	0	0	0	0	1	0	0	0	4336	1261	44	3	702	3	DDR1	6	30859793	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1225862	30859793	140255274	527	21902										
VARS	7407	broad.mit.edu	37	chr6	31749688	31749688	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctgccttctcccgggcctcCgcctcattgcgtccactcac	8	20	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:31749688C>A	uc003nxe.2	-	19	2706	c.2283G>T	c.(2281-2283)GCG>GCT	p.A761A	VARS_uc003nxf.1_5'Flank|VARS_uc011doi.1_RNA	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	761					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	CCCGGGCCTCCGCCTCATTGC	0.627													205	96	---	---	---	---	PASS	A	31749688	A	A	31749688	2	1	58	1	0	0	0	0	0	0	0	1	17120	639	23	1		1	VARS	6	31749688	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	889895	31749688	139365379	528	21903										
VARS	7407	broad.mit.edu	37	chr6	31760824	31760824	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagccagagtgggggcctccCcggccaagtaggtgtgcagc	16	13	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:31760824C>A	uc003nxe.2	-	3	884	c.461G>T	c.(460-462)GGG>GTG	p.G154V	VARS_uc011doi.1_Intron	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	154	GST C-terminal.				translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	GGGGGCCTCCCCGGCCAAGTA	0.652													27	22	---	---	---	---	PASS	A	31760824	A	A	31760824	3	1	58	1	0	0	0	0	1	0	0	0	17120	623	22	3	3445	3	VARS	6	31760824	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	11136	31760824	139354243	529	21904										
BRD2	6046	broad.mit.edu	37	chr6	32944196	32944196	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgcactctgctggacccccGctccttgctgttactgcagc	9	16	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:32944196G>T	uc003ocn.3	+	6	2481	c.780G>T	c.(778-780)CCG>CCT	p.P260P	BRD2_uc003oco.2_RNA|BRD2_uc003ocq.3_Silent_p.P260P|BRD2_uc003ocp.3_Silent_p.P140P|BRD2_uc010juh.2_Silent_p.P260P	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	260					spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						CTGGACCCCCGCTCCTTGCTG	0.542													92	49	---	---	---	---	PASS	T	32944196	T	T	32944196	2	4	58	1	0	0	0	0	0	0	0	1	1502	1074	38	1		1	BRD2	6	32944196	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1183372	32944196	138170871	530	21905										
TCP11	6954	broad.mit.edu	37	chr6	35108619	35108619	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgagtcgccaggatatttcGggggcacactctccttgacg	12	12	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:35108619G>A	uc003okd.2	-	2	249	c.68C>T	c.(67-69)CCG>CTG	p.P23L	TCP11_uc003ojz.1_5'UTR|TCP11_uc003oka.2_5'UTR|TCP11_uc003okb.2_5'UTR|TCP11_uc003okc.2_5'UTR|TCP11_uc011dsu.1_Missense_Mutation_p.P10L|TCP11_uc011dsv.1_Intron|TCP11_uc011dsw.1_Intron	NM_001093728	NP_001087197	Q8WWU5	TCP11_HUMAN	t-complex 11 isoform 1	10					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(3)|skin(2)	5						AGGATATTTCGGGGGCACACT	0.612													31	4	---	---	---	---	PASS	A	35108619	A	A	35108619	3	1	58	1	0	0	0	0	1	0	0	0	15710	1116	39	1	1572	1	TCP11	6	35108619	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2164423	35108619	136006448	531	21906										
SLC26A8	116369	broad.mit.edu	37	chr6	35923176	35923176	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acacggacgatactgtgtatGgcacttggtcttcggatgca	12	9	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:35923176G>T	uc003olm.2	-	17	2096	c.1985C>A	c.(1984-1986)CCA>CAA	p.P662Q	SLC26A8_uc010jwa.2_RNA|SLC26A8_uc003olk.2_Missense_Mutation_p.P244Q|SLC26A8_uc003oln.2_Missense_Mutation_p.P662Q|SLC26A8_uc003oll.2_Missense_Mutation_p.P557Q	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	662	STAS.|Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						TACTGTGTATGGCACTTGGTC	0.448													109	54	---	---	---	---	PASS	T	35923176	T	T	35923176	3	4	58	1	0	0	0	0	1	0	0	0	14523	1348	47	3	943	3	SLC26A8	6	35923176	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	814557	35923176	135191891	532	21907										
C6orf89	221477	broad.mit.edu	37	chr6	36884283	36884283	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcctgttttcactcacctgcCatttccaaaagatgcctctt	4	14	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:36884283C>T	uc003omx.2	+	7	1042	c.758C>T	c.(757-759)CCA>CTA	p.P253L	C6orf89_uc003omv.2_Missense_Mutation_p.P147L|C6orf89_uc003omw.2_Missense_Mutation_p.P260L|C6orf89_uc011dtr.1_Missense_Mutation_p.P147L|C6orf89_uc003omy.2_Missense_Mutation_p.P87L	NM_152734	NP_689947	Q6UWU4	CF089_HUMAN	hypothetical protein LOC221477	253						integral to membrane				ovary(1)	1						ACTCACCTGCCATTTCCAAAA	0.398													108	57	---	---	---	---	PASS	T	36884283	T	T	36884283	3	4	58	1	0	0	0	0	1	0	0	0	2373	594	21	3	801	3	C6orf89	6	36884283	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	961107	36884283	134230784	533	21908										
USP49	25862	broad.mit.edu	37	chr6	41774093	41774093	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggggcgtgtgcaggagcagcCgtgcactcttgcgcggaggg	20	10	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:41774093C>A	uc003ori.2	-	4	851	c.629G>T	c.(628-630)CGG>CTG	p.R210L		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	210					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CAGGAGCAGCCGTGCACTCTT	0.557													6	3	---	---	---	---	PASS	A	41774093	A	A	41774093	3	1	58	1	0	0	0	0	1	0	0	0	17077	652	23	1	1309	1	USP49	6	41774093	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4889810	41774093	129340974	534	21909										
CRISP1	167	broad.mit.edu	37	chr6	49814308	49814308	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgaaacttgtagactcactGtaccagactccaattacact	5	11	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:49814308G>C	uc003ozw.2	-	5	439	c.360C>G	c.(358-360)TAC>TAG	p.Y120*	CRISP1_uc003ozx.2_Nonsense_Mutation_p.Y120*	NM_001131	NP_001122	P54107	CRIS1_HUMAN	acidic epididymal glycoprotein-like 1 isoform 1	120					fusion of sperm to egg plasma membrane	extracellular space					0	Lung NSC(77;0.0358)					TAGACTCACTGTACCAGACTC	0.418													72	69	---	---	---	---	PASS	C	49814308	C	C	49814308	4	2	58	1	0	0	0	0	0	1	0	0	3879	1372	48	4	405	4	CRISP1	6	49814308	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	8040215	49814308	121300759	535	21910										
PKHD1	5314	broad.mit.edu	37	chr6	51771113	51771113	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctctactgaaggagttcctCactgtgcagccctgtatgaa	9	12	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:51771113C>A	uc003pah.1	-	41	6984	c.6708G>T	c.(6706-6708)GTG>GTT	p.V2236V	PKHD1_uc010jzn.1_Intron|PKHD1_uc003pai.2_Silent_p.V2236V	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2236	Extracellular (Potential).|PbH1 1.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AGGAGTTCCTCACTGTGCAGC	0.438													48	49	---	---	---	---	PASS	A	51771113	A	A	51771113	2	1	58	1	0	0	0	0	0	0	0	1	11971	813	29	2		2	PKHD1	6	51771113	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1956805	51771113	119343954	536	21911										
FAM83B	222584	broad.mit.edu	37	chr6	54806171	54806171	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acctgccttttatagattgtGtagtagctctgacacattag	8	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:54806171G>T	uc003pck.2	+	5	2518	c.2402G>T	c.(2401-2403)TGT>TTT	p.C801F		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	801										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					TATAGATTGTGTAGTAGCTCT	0.358													29	38	---	---	---	---	PASS	T	54806171	T	T	54806171	3	4	58	1	0	0	0	0	1	0	0	0	5634	1377	48	3	2416	3	FAM83B	6	54806171	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3035058	54806171	116308896	537	21912										
BAI3	577	broad.mit.edu	37	chr6	70071070	70071070	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	catagtccatcctcaagaaaGaatgatggaaagtgactata	8	7	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:70071070G>T	uc003pev.3	+	29	4353	c.3905G>T	c.(3904-3906)AGA>ATA	p.R1302I	BAI3_uc010kak.2_Missense_Mutation_p.R1302I|BAI3_uc011dxx.1_Missense_Mutation_p.R508I	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1302	Cytoplasmic (Potential).				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)				CCTCAAGAAAGAATGATGGAA	0.373													37	32	---	---	---	---	PASS	T	70071070	T	T	70071070	3	4	58	1	0	0	0	0	1	0	0	0	1300	942	33	2	4011	2	BAI3	6	70071070	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	15264899	70071070	101043997	538	21913										
BAI3	577	broad.mit.edu	37	chr6	70082331	70082331	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gatattcagaccttgactttGaggtaagtttatatgaatta	8	4	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:70082331G>T	uc003pev.3	+	30	4721	c.4273G>T	c.(4273-4275)GAG>TAG	p.E1425*	BAI3_uc010kak.2_Nonsense_Mutation_p.E1425*|BAI3_uc011dxx.1_Nonsense_Mutation_p.E631*	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1425	Cytoplasmic (Potential).				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)				CCTTGACTTTGAGGTAAGTTT	0.249													14	18	---	---	---	---	PASS	T	70082331	T	T	70082331	4	4	58	1	0	0	0	0	0	1	0	0	1300	1291	45	2	4383	2	BAI3	6	70082331	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	11261	70082331	101032736	539	21914										
IMPG1	3617	broad.mit.edu	37	chr6	76712652	76712652	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	taccaggtagaccatgctctGctccgtccactgtctcaagc	8	15	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:76712652G>T	uc003pik.1	-	12	1404	c.1274C>A	c.(1273-1275)GCA>GAA	p.A425E		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	425					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				ACCATGCTCTGCTCCGTCCAC	0.443													21	20	---	---	---	---	PASS	T	76712652	T	T	76712652	3	4	58	1	0	0	0	0	1	0	0	0	7728	1319	46	3	1143	3	IMPG1	6	76712652	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6630321	76712652	94402415	540	21915										
BCKDHB	594	broad.mit.edu	37	chr6	80881107	80881107	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaatactttacagggcagcaGgtaaagattttctttatttt	7	5	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:80881107G>T	uc003pjd.2	+	6	809	c.742G>T	c.(742-744)GCG>TCG	p.A248S	BCKDHB_uc003pje.2_Missense_Mutation_p.A248S	NM_000056	NP_000047	P21953	ODBB_HUMAN	branched chain keto acid dehydrogenase E1 beta	248					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|carboxy-lyase activity|protein binding				0		all_cancers(76;1.38e-05)|Acute lymphoblastic leukemia(125;1.15e-05)|all_hematologic(105;0.00118)|all_epithelial(107;0.0149)		BRCA - Breast invasive adenocarcinoma(397;0.0291)		CAGGGCAGCAGGTAAAGATTT	0.284													13	18	---	---	---	---	PASS	T	80881107	T	T	80881107	3	4	58	1	0	0	0	0	1	0	0	0	1360	1014	35	3	764	3	BCKDHB	6	80881107	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	4168455	80881107	90233960	541	21916										
SNAP91	9892	broad.mit.edu	37	chr6	84290221	84290221	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcacttccaagggctttgctGgctgccattgcaggactggg	13	11	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:84290221G>T	uc011dze.1	-	23	2564	c.2247C>A	c.(2245-2247)GCC>GCA	p.A749A	SNAP91_uc011dzd.1_Silent_p.A247A|SNAP91_uc003pkb.2_Silent_p.A658A|SNAP91_uc003pkc.2_Silent_p.A719A|SNAP91_uc003pkd.2_Silent_p.A442A|SNAP91_uc003pka.2_Silent_p.A747A	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	749					clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		GGGCTTTGCTGGCTGCCATTG	0.458													56	53	---	---	---	---	PASS	T	84290221	T	T	84290221	2	4	58	1	0	0	0	0	0	0	0	1	14833	1335	47	3		3	SNAP91	6	84290221	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	3409114	84290221	86824846	542	21917										
PRDM1	639	broad.mit.edu	37	chr6	106553194	106553194	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctacggcacggaaggtttgGgctcctaccctggctacgca	12	14	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:106553194G>T	uc003prd.2	+	5	1393	c.1159G>T	c.(1159-1161)GGC>TGC	p.G387C	PRDM1_uc003pre.2_Missense_Mutation_p.G253C	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	387					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)		GGAAGGTTTGGGCTCCTACCC	0.637			D|N|Mis|F|S		DLBCL								43	42	---	---	---	---	PASS	T	106553194	T	T	106553194	3	4	58	1	0	0	0	0	1	0	0	0	12450	1232	43	3	1190	3	PRDM1	6	106553194	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	22262973	106553194	64561873	543	21918										
AIM1	202	broad.mit.edu	37	chr6	106960405	106960405	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagaaagtgaaatctccgcgGgcagccctcgacgggggcgt	15	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:106960405G>T	uc003prh.2	+	1	676	c.189G>T	c.(187-189)CGG>CGT	p.R63R		NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	63							sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		AATCTCCGCGGGCAGCCCTCG	0.677													7	9	---	---	---	---	PASS	T	106960405	T	T	106960405	2	4	58	1	0	0	0	0	0	0	0	1	430	1219	43	3		3	AIM1	6	106960405	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	407211	106960405	64154662	544	21919										
KIAA1919	91749	broad.mit.edu	37	chr6	111587213	111587213	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctttgggtccgacagcgtctGctgaaaaccacacagagtct	10	12	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:111587213G>T	uc003puv.3	+	4	870	c.448G>T	c.(448-450)GCT>TCT	p.A150S		NM_153369	NP_699200	Q5TF39	NAGT1_HUMAN	sodium-dependent glucose transporter 1	150	Extracellular (Potential).				carbohydrate transport|sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(3)	3		all_cancers(87;2.35e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.055)|all cancers(137;0.0871)|Epithelial(106;0.0884)		GACAGCGTCTGCTGAAAACCA	0.478													26	36	---	---	---	---	PASS	T	111587213	T	T	111587213	3	4	58	1	0	0	0	0	1	0	0	0	8262	1319	46	3	462	3	KIAA1919	6	111587213	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	4626808	111587213	59527854	545	21920										
FYN	2534	broad.mit.edu	37	chr6	112041170	112041170	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtggggtctgtgccatagcGgtacccagagctctggttca	15	10	3	1	rs113851622	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:112041170G>C	uc003pvj.2	-	3	425	c.85C>G	c.(85-87)CGC>GGC	p.R29G	FYN_uc003pvi.2_Missense_Mutation_p.R29G|FYN_uc003pvk.2_Missense_Mutation_p.R29G|FYN_uc003pvh.2_Missense_Mutation_p.R29G	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	29					axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	GTGCCATAGCGGTACCCAGAG	0.562													35	37	---	---	---	---	PASS	C	112041170	C	C	112041170	3	2	58	1	0	0	0	0	1	0	0	0	6126	1116	39	4	1732	4	FYN	6	112041170	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	453957	112041170	59073897	546	21921										
WISP3	8838	broad.mit.edu	37	chr6	112382385	112382385	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgctgtaaaatctgtgccaaGcaaccaggggaaatctgcaa	10	9	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:112382385G>T	uc003pvm.2	+	3	350	c.240G>T	c.(238-240)AAG>AAT	p.K80N	WISP3_uc003pvn.2_RNA|WISP3_uc003pvo.2_Missense_Mutation_p.K98N	NM_003880	NP_003871	O95389	WISP3_HUMAN	WNT1 inducible signaling pathway protein 3	80	IGFBP N-terminal.				cell-cell signaling|regulation of cell growth|signal transduction	extracellular region|soluble fraction	growth factor activity|insulin-like growth factor binding				0		all_cancers(87;0.000196)|Acute lymphoblastic leukemia(125;1.18e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0283)|OV - Ovarian serous cystadenocarcinoma(136;0.0613)|Epithelial(106;0.0827)|GBM - Glioblastoma multiforme(226;0.0972)|BRCA - Breast invasive adenocarcinoma(108;0.246)		TCTGTGCCAAGCAACCAGGGG	0.537													61	50	---	---	---	---	PASS	T	112382385	T	T	112382385	3	4	58	1	0	0	0	0	1	0	0	0	17371	962	34	3	300	3	WISP3	6	112382385	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	341215	112382385	58732682	547	21922										
LAMA4	3910	broad.mit.edu	37	chr6	112462013	112462013	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aacactgtgtcctcagggtcCaggtccagcagagagtcatc	11	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:112462013C>T	uc003pvu.2	-	22	3234	c.2925G>A	c.(2923-2925)CTG>CTA	p.L975L	LAMA4_uc003pvv.2_Silent_p.L968L|LAMA4_uc003pvt.2_Silent_p.L968L	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	975	Laminin G-like 1.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CCTCAGGGTCCAGGTCCAGCA	0.428													45	54	---	---	---	---	PASS	T	112462013	T	T	112462013	2	4	58	1	0	0	0	0	0	0	0	1	8608	581	21	3		3	LAMA4	6	112462013	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	79628	112462013	58653054	548	21923										
LAMA4	3910	broad.mit.edu	37	chr6	112486416	112486416	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgaggtgttgtcagagagtcCgcagatgtgctcagagacat	14	8	2	3	rs143587921	by1000genomes	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:112486416C>G	uc003pvu.2	-	13	1923	c.1614G>C	c.(1612-1614)GCG>GCC	p.A538A	LAMA4_uc003pvv.2_Silent_p.A531A|LAMA4_uc003pvt.2_Silent_p.A531A	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	538	Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		TCAGAGAGTCCGCAGATGTGC	0.438													62	61	---	---	---	---	PASS	G	112486416	G	G	112486416	2	3	58	1	0	0	0	0	0	0	0	1	8608	639	23	4		4	LAMA4	6	112486416	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	24403	112486416	58628651	549	21924										
DCBLD1	285761	broad.mit.edu	37	chr6	117858346	117858346	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgtttgtctttattgtttcAgtggttccctgtcagacaag	9	7	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:117858346A>T	uc003pxs.2	+	7	845	c.720_splice	c.e7-2	p.D240_splice	GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxr.1_Splice_Site_p.D240_splice|DCBLD1_uc003pxt.1_5'Flank	NM_173674	NP_775945	Q8N8Z6	DCBD1_HUMAN	discoidin, CUB and LCCL domain containing 1						cell adhesion	integral to membrane				ovary(1)	1		all_cancers(87;0.171)		GBM - Glioblastoma multiforme(226;0.0447)|OV - Ovarian serous cystadenocarcinoma(136;0.0921)|all cancers(137;0.125)		TTATTGTTTCAGTGGTTCCCT	0.249													111	87	---	---	---	---	PASS	T	117858346	T	T	117858346	5	4	58	1	0	0	0	0	0	0	1	0	4280	202	7	5	744	5	DCBLD1	6	117858346	Splice_Site	SNP	A	TCGA-33-4566-01A-01D-1441-08	5371930	117858346	53256721	550	21925										
LAMA2	3908	broad.mit.edu	37	chr6	129674447	129674447	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgccgacctggagccacgggAaggaagtgtgacggctgcaa	16	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:129674447A>G	uc003qbn.2	+	32	4767	c.4662A>G	c.(4660-4662)GGA>GGG	p.G1554G	LAMA2_uc003qbo.2_Silent_p.G1554G	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1554	Laminin EGF-like 17.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GAGCCACGGGAAGGAAGTGTG	0.557													61	55	---	---	---	---	PASS	G	129674447	G	G	129674447	2	3	58	1	0	0	0	0	0	0	0	1	8606	233	9	5		5	LAMA2	6	129674447	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	11816101	129674447	41440620	551	21926										
ENPP3	5169	broad.mit.edu	37	chr6	132014756	132014756	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttgtggatcaacagtggctGgctgttaggttcgtgtatct	13	6	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:132014756G>T	uc003qcu.3	+	16	1751	c.1404G>T	c.(1402-1404)CTG>CTT	p.L468L	ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Silent_p.L468L	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	468	Extracellular (Potential).|Phosphodiesterase.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		AACAGTGGCTGGCTGTTAGGT	0.393													71	70	---	---	---	---	PASS	T	132014756	T	T	132014756	2	4	58	1	0	0	0	0	0	0	0	1	5131	1335	47	3		3	ENPP3	6	132014756	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	2340309	132014756	39100311	552	21927										
SGK1	6446	broad.mit.edu	37	chr6	134583250	134583250	+	Frame_Shift_Del	DEL	C	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctgggactctgatgcttgtCcacactgaccattgggctct							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:134583250delC	uc003qeo.3	-	2	704	c.106delG	c.(106-108)GACfs	p.D36fs	SGK1_uc003qep.2_Frame_Shift_Del_p.D36fs	NM_001143676	NP_001137148	O00141	SGK1_HUMAN	serum/glucocorticoid regulated kinase 1 isoform	Error:Variant_position_missing_in_O00141_after_alignment					apoptosis|response to stress|sodium ion transport	endoplasmic reticulum|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(3)|stomach(1)|lung(1)|central_nervous_system(1)	6	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00317)|GBM - Glioblastoma multiforme(68;0.00847)		TGATGCTTGTCCACACTGACC	0.493													142	133	---	---	---	---		-	134583250	-	-	134583250	7	5	58	1	0	1	0	1	0	0	0	0	14207	855	30	0	1892	0	SGK1	6	134583250	Frame_Shift_Del	DEL	C	TCGA-33-4566-01A-01D-1441-08	2568494	134583250	36531817	553	21928										
BCLAF1	9774	broad.mit.edu	37	chr6	136599464	136599464	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcaaatgtatctttcggttcCtcctgtgatttacttttcaa	5	9	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:136599464C>G	uc003qgx.1	-	4	808	c.555G>C	c.(553-555)GAG>GAC	p.E185D	BCLAF1_uc003qgw.1_Missense_Mutation_p.E185D|BCLAF1_uc003qgy.1_Missense_Mutation_p.E183D|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.E183D	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	185					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CTTTCGGTTCCTCCTGTGATT	0.423													67	325	---	---	---	---	PASS	G	136599464	G	G	136599464	3	3	58	1	0	0	0	0	1	0	0	0	1383	680	24	4	2247	4	BCLAF1	6	136599464	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2016214	136599464	34515603	554	21929										
BCLAF1	9774	broad.mit.edu	37	chr6	136600970	136600970	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	actgtgatctagactttgacCttgaagaatgtgatctagaa	9	6	2	7			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:136600970C>T	uc003qgx.1	-	3	288	c.35G>A	c.(34-36)AGG>AAG	p.R12K	BCLAF1_uc003qgw.1_Missense_Mutation_p.R12K|BCLAF1_uc003qgy.1_Missense_Mutation_p.R12K|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.R12K	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	12					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		AGACTTTGACCTTGAAGAATG	0.303													8	119	---	---	---	---	PASS	T	136600970	T	T	136600970	3	4	58	1	0	0	0	0	1	0	0	0	1383	681	24	3	2771	3	BCLAF1	6	136600970	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1506	136600970	34514097	555	21930										
GPR126	57211	broad.mit.edu	37	chr6	142723805	142723805	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttaaatttaactgctgatgGgcagaacttaacctcagcca	7	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:142723805G>T	uc010khc.2	+	13	2204	c.1793G>T	c.(1792-1794)GGG>GTG	p.G598V	GPR126_uc010khd.2_Missense_Mutation_p.G570V|GPR126_uc010khe.2_Missense_Mutation_p.G598V|GPR126_uc010khf.2_Missense_Mutation_p.G570V	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	598	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		ACTGCTGATGGGCAGAACTTA	0.333													11	24	---	---	---	---	PASS	T	142723805	T	T	142723805	3	4	58	1	0	0	0	0	1	0	0	0	6640	1232	43	3	1843	3	GPR126	6	142723805	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6122835	142723805	28391262	556	21931										
HIVEP2	3097	broad.mit.edu	37	chr6	143082622	143082622	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcttcctcagtttctgtatCatccaccgatgtcattgaga	7	11	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:143082622C>A	uc003qjd.2	-	8	6342	c.5599G>T	c.(5599-5601)GAT>TAT	p.D1867Y		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1867					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GTTTCTGTATCATCCACCGAT	0.393													138	114	---	---	---	---	PASS	A	143082622	A	A	143082622	3	1	58	1	0	0	0	0	1	0	0	0	7187	826	29	2	1753	2	HIVEP2	6	143082622	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	358817	143082622	28032445	557	21932										
RAB32	10981	broad.mit.edu	37	chr6	146875734	146875734	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agcagagaacaaatcccagtGttgctgatatatggcttctg	10	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:146875734G>A	uc003qln.1	+	3	851	c.671G>A	c.(670-672)TGT>TAT	p.C224Y		NM_006834	NP_006825	Q13637	RAB32_HUMAN	RAB32, member RAS oncogene family	224					protein transport|small GTPase mediated signal transduction	mitochondrion	GTP binding				0		Ovarian(120;0.142)		OV - Ovarian serous cystadenocarcinoma(155;2.68e-09)|GBM - Glioblastoma multiforme(68;0.00608)		AAATCCCAGTGTTGCTGATAT	0.428													30	81	---	---	---	---	PASS	A	146875734	A	A	146875734	3	1	58	1	0	0	0	0	1	0	0	0	12921	1377	48	3	681	3	RAB32	6	146875734	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3793112	146875734	24239333	558	21933										
C6orf97	80129	broad.mit.edu	37	chr6	151939118	151939118	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggtggtgtcgcagatgctaGgcttgaacgtgaccagcctt	14	9	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:151939118G>T	uc003qol.2	+	11	2073	c.1984G>T	c.(1984-1986)GGC>TGC	p.G662C		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	662											0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		GCAGATGCTAGGCTTGAACGT	0.448													45	76	---	---	---	---	PASS	T	151939118	T	T	151939118	3	4	58	1	0	0	0	0	1	0	0	0	2374	1000	35	3	2026	3	C6orf97	6	151939118	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5063384	151939118	19175949	559	21934										
ZDHHC14	79683	broad.mit.edu	37	chr6	158093997	158093997	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agatgagcacatgggccaccAgttcctgacgcccgatgagg	13	12	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:158093997A>T	uc003qqt.2	+	9	1807	c.1310A>T	c.(1309-1311)CAG>CTG	p.Q437L	ZDHHC14_uc003qqs.2_Missense_Mutation_p.Q422L|ZDHHC14_uc010kjn.2_Missense_Mutation_p.Q92L	NM_024630	NP_078906	Q8IZN3	ZDH14_HUMAN	zinc finger, DHHC-type containing 14 isoform 1	437						integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|skin(1)	2		Breast(66;0.00586)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.9e-17)|BRCA - Breast invasive adenocarcinoma(81;5.8e-05)		ATGGGCCACCAGTTCCTGACG	0.731													8	4	---	---	---	---	PASS	T	158093997	T	T	158093997	3	4	58	1	0	0	0	0	1	0	0	0	17601	188	7	5	1344	5	ZDHHC14	6	158093997	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	6154879	158093997	13021070	560	21935										
IGF2R	3482	broad.mit.edu	37	chr6	160494403	160494403	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcagtttcgtgtgcaggcctGaggccaggccaaccaatagg	13	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:160494403G>T	uc003qta.2	+	34	4997	c.4849G>T	c.(4849-4851)GAG>TAG	p.E1617*		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1617	11.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GTGCAGGCCTGAGGCCAGGCC	0.592													34	35	---	---	---	---	PASS	T	160494403	T	T	160494403	4	4	58	1	0	0	0	0	0	1	0	0	7576	1291	45	2	4983	2	IGF2R	6	160494403	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2400406	160494403	10620664	561	21936										
RPS6KA2	6196	broad.mit.edu	37	chr6	167184401	167184401	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcagctgagtcacttttgcCctgtgaaaatggaaacgaag	12	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:167184401C>A	uc003qvd.1	-	3	237	c.124G>T	c.(124-126)GGC>TGC	p.G42C	RPS6KA2_uc003qvc.1_Intron	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	Error:Variant_position_missing_in_Q15349_after_alignment					axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		TCACTTTTGCCCTGTGAAAAT	0.438													56	51	---	---	---	---	PASS	A	167184401	A	A	167184401	3	1	58	1	0	0	0	0	1	0	0	0	13651	638	22	3		3	RPS6KA2	6	167184401	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	6689998	167184401	3930666	562	21937										
THBS2	7058	broad.mit.edu	37	chr6	169648981	169648981	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccggcacgccggggtcgggcCcgcggaactgcttggcgcca	17	16	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr6:169648981C>A	uc003qwt.2	-	4	388	c.140G>T	c.(139-141)GGG>GTG	p.G47V		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	47	TSP N-terminal.|Heparin-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		GGGGTCGGGCCCGCGGAACTG	0.582													36	28	---	---	---	---	PASS	A	169648981	A	A	169648981	3	1	58	1	0	0	0	0	1	0	0	0	15851	623	22	3	3458	3	THBS2	6	169648981	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2464580	169648981	1466086	563	21938										
SUN1	23353	broad.mit.edu	37	chr7	883097	883097	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agcgcaaggacgtgctcacgGcgcaccccgcggcccccggg	15	18	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:883097G>T	uc011jvp.1	+	6	677	c.598G>T	c.(598-600)GCG>TCG	p.A200S	SUN1_uc010ksa.1_Missense_Mutation_p.A221S|SUN1_uc003sje.1_Missense_Mutation_p.A200S|SUN1_uc003sjf.2_Missense_Mutation_p.A150S|SUN1_uc011jvq.1_Intron|SUN1_uc003sjg.2_Missense_Mutation_p.A11S	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	200	Nuclear.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						CGTGCTCACGGCGCACCCCGC	0.587													59	225	---	---	---	---	PASS	T	883097	T	T	883097	3	4	58	1	0	0	0	0	1	0	0	0	15388	1203	42	3	683	3	SUN1	7	883097	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08		883097	158255566	564	21939										
INTS1	26173	broad.mit.edu	37	chr7	1532691	1532691	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtgatggtaggtgcacagaTtcagaacggcgtcgatcagc	15	8	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:1532691T>C	uc003skn.2	-	16	2221	c.2120A>G	c.(2119-2121)AAT>AGT	p.N707S	INTS1_uc003skp.1_Missense_Mutation_p.N54S	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	707					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		GGTGCACAGATTCAGAACGGC	0.423													18	55	---	---	---	---	PASS	C	1532691	C	C	1532691	3	2	58	1	0	0	0	0	1	0	0	0	7775	1493	52	5	4584	5	INTS1	7	1532691	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	649594	1532691	157605972	565	21940										
INTS1	26173	broad.mit.edu	37	chr7	1539521	1539521	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccgggagaggacgctcaccTtgacaaagatctcgggccag	13	13	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:1539521T>A	uc003skn.2	-	5	784	c.683A>T	c.(682-684)AAG>ATG	p.K228M	INTS1_uc003skq.2_Missense_Mutation_p.K228M	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	228					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		GACGCTCACCTTGACAAAGAT	0.607													4	16	---	---	---	---	PASS	A	1539521	A	A	1539521	3	1	58	1	0	0	0	0	1	0	0	0	7775	1623	56	5	6065	5	INTS1	7	1539521	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	6830	1539521	157599142	566	21941										
INTS1	26173	broad.mit.edu	37	chr7	1539889	1539889	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtagagggtgctgtcaggctTggcgcgggtgaccttcagct	17	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:1539889T>G	uc003skn.2	-	4	564	c.463A>C	c.(463-465)AAG>CAG	p.K155Q	INTS1_uc003skq.2_Missense_Mutation_p.K155Q	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	155					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CTGTCAGGCTTGGCGCGGGTG	0.632													7	7	---	---	---	---	PASS	G	1539889	G	G	1539889	3	3	58	1	0	0	0	0	1	0	0	0	7775	1821	63	5	6289	5	INTS1	7	1539889	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	368	1539889	157598774	567	21942										
RBAK	57786	broad.mit.edu	37	chr7	5103661	5103661	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atacctattctcacaatgaaGaaaatattcttcagaaaatt	3	7	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:5103661G>A	uc010kss.1	+	6	898	c.574G>A	c.(574-576)GAA>AAA	p.E192K	LOC389458_uc003snr.2_Intron|RBAK_uc003sns.1_Missense_Mutation_p.E192K	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	192	Required for interaction with RB1.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		TCACAATGAAGAAAATATTCT	0.328													45	39	---	---	---	---	PASS	A	5103661	A	A	5103661	3	1	58	1	0	0	0	0	1	0	0	0	13100	943	33	2	588	2	RBAK	7	5103661	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3563772	5103661	154035002	568	21943										
RNF216	54476	broad.mit.edu	37	chr7	5754762	5754762	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagtgagcatctgcgcactgCgtcagctcctcgaatggaaa	11	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:5754762C>A	uc003soy.1	-	11	1774	c.1584G>T	c.(1582-1584)ACG>ACT	p.T528T	RNF216_uc010ksz.1_Silent_p.T150T|RNF216_uc010kta.1_Silent_p.T150T|RNF216_uc011jwj.1_Silent_p.T150T|RNF216_uc003sox.1_Silent_p.T585T	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	528	RING-type 1.				apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		CTGCGCACTGCGTCAGCTCCT	0.488													141	215	---	---	---	---	PASS	A	5754762	A	A	5754762	2	1	58	1	0	0	0	0	0	0	0	1	13480	755	27	1		1	RNF216	7	5754762	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	651101	5754762	153383901	569	21944										
ZDHHC4	55146	broad.mit.edu	37	chr7	6624666	6624666	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtgtgtgtaactggtgtgtGcaccgtttcgaccatcactg	13	9	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:6624666G>T	uc003sqi.2	+	8	874	c.516G>T	c.(514-516)GTG>GTT	p.V172V	ZDHHC4_uc003sql.2_Silent_p.V172V|ZDHHC4_uc003sqh.2_Silent_p.V172V|ZDHHC4_uc003sqj.2_Silent_p.V172V|ZDHHC4_uc003sqk.2_Silent_p.V172V|ZDHHC4_uc003sqm.2_Silent_p.V172V	NM_001134388	NP_001127860	Q9NPG8	ZDHC4_HUMAN	zinc finger, DHHC-type containing 4	172	DHHC-type.					integral to membrane	acyltransferase activity|zinc ion binding			breast(1)|pancreas(1)	2		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.1)		ACTGGTGTGTGCACCGTTTCG	0.537													12	54	---	---	---	---	PASS	T	6624666	T	T	6624666	2	4	58	1	0	0	0	0	0	0	0	1	17614	1306	46	3		3	ZDHHC4	7	6624666	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	869904	6624666	152513997	570	21945										
COL28A1	340267	broad.mit.edu	37	chr7	7571510	7571510	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcagagctgtccacgatgaaGacaatatctatgaaacaaat	7	8	2	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:7571510G>A	uc003src.1	-	3	267	c.150C>T	c.(148-150)GTC>GTT	p.V50V	COL28A1_uc011jxe.1_5'UTR	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	50	VWFA 1.				cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		CCACGATGAAGACAATATCTA	0.358													14	75	---	---	---	---	PASS	A	7571510	A	A	7571510	2	1	58	1	0	0	0	0	0	0	0	1	3686	929	33	2		2	COL28A1	7	7571510	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	946844	7571510	151567153	571	21946										
DGKB	1607	broad.mit.edu	37	chr7	14622750	14622750	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgaagtcaggaacatcacgGaaaaagtttaacctgaaaaa	8	7	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:14622750G>T	uc003ssz.2	-	17	1636	c.1449C>A	c.(1447-1449)TTC>TTA	p.F483L	DGKB_uc011jxt.1_Missense_Mutation_p.F464L|DGKB_uc003sta.2_Missense_Mutation_p.F483L|DGKB_uc011jxu.1_Missense_Mutation_p.F482L	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	483	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	GAACATCACGGAAAAAGTTTA	0.368													16	31	---	---	---	---	PASS	T	14622750	T	T	14622750	3	4	58	1	0	0	0	0	1	0	0	0	4466	1165	41	2	1016	2	DGKB	7	14622750	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	7051240	14622750	144515913	572	21947										
TMEM195	392636	broad.mit.edu	37	chr7	15458244	15458244	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gatgaacagcatatactgaaGggggtatgaagagggccagg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:15458244G>T	uc003stb.1	-	5	718	c.548C>A	c.(547-549)CCT>CAT	p.P183H		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	183					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						ATATACTGAAGGGGGTATGAA	0.299													16	45	---	---	---	---	PASS	T	15458244	T	T	15458244	3	4	58	1	0	0	0	0	1	0	0	0	16114	1000	35	3	825	3	TMEM195	7	15458244	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	835494	15458244	143680419	573	21948	491	2								
TMEM195	392636	broad.mit.edu	37	chr7	15458245	15458245	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgaacagcatatactgaagGgggtatgaagagggccaggg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:15458245G>T	uc003stb.1	-	5	717	c.547C>A	c.(547-549)CCT>ACT	p.P183T		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	183					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						TATACTGAAGGGGGTATGAAG	0.299													16	44	---	---	---	---	PASS	T	15458245	T	T	15458245	3	4	58	1	0	0	0	0	1	0	0	0	16114	1232	43	3	826	3	TMEM195	7	15458245	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1	15458245	143680418	574	21949	491	2								
BZW2	28969	broad.mit.edu	37	chr7	16705107	16705107	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagtgctaacaggccagcgGttcaaaactcggaaaagggg	13	10	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:16705107G>T	uc003stl.2	+	2	217	c.39G>T	c.(37-39)CGG>CGT	p.R13R	BZW2_uc011jxx.1_5'UTR|BZW2_uc003stm.2_5'UTR|BZW2_uc003stj.2_Silent_p.R13R|BZW2_uc003stk.2_Intron|BZW2_uc003stn.1_Silent_p.R13R|BZW2_uc003sto.1_5'UTR|BZW2_uc003stp.2_5'UTR|BZW2_uc010kua.2_Silent_p.R13R	NM_001159767	NP_001153239	Q9Y6E2	BZW2_HUMAN	basic leucine zipper and W2 domains 2	13					cell differentiation|nervous system development|RNA metabolic process		protein binding			ovary(2)	2	Lung NSC(10;0.0367)|all_lung(11;0.0837)			UCEC - Uterine corpus endometrioid carcinoma (126;0.199)		CAGGCCAGCGGTTCAAAACTC	0.294													28	53	---	---	---	---	PASS	T	16705107	T	T	16705107	2	4	58	1	0	0	0	0	0	0	0	1	1579	1248	44	3		3	BZW2	7	16705107	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1246862	16705107	142433556	575	21950										
HDAC9	9734	broad.mit.edu	37	chr7	18914114	18914114	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtgcaggaccatcgtgaagCctgtggccaaagagtttgat	13	8	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:18914114C>A	uc003suh.2	+	21	2730	c.2689C>A	c.(2689-2691)CCT>ACT	p.P897T	HDAC9_uc003sue.2_Missense_Mutation_p.P897T|HDAC9_uc003sui.2_Missense_Mutation_p.P900T|HDAC9_uc003suj.2_Missense_Mutation_p.P856T|HDAC9_uc003suk.2_Missense_Mutation_p.P145T	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	897	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CATCGTGAAGCCTGTGGCCAA	0.483													5	17	---	---	---	---	PASS	A	18914114	A	A	18914114	3	1	58	1	0	0	0	0	1	0	0	0	7014	739	26	3	2893	3	HDAC9	7	18914114	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2209007	18914114	140224549	576	21951										
DNAH11	8701	broad.mit.edu	37	chr7	21639426	21639426	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaataggaagctcttcaaaGccaatccctctctggatacc	6	12	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:21639426G>C	uc003svc.2	+	15	2720	c.2689G>C	c.(2689-2691)GCC>CCC	p.A897P		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	897	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GCTCTTCAAAGCCAATCCCTC	0.338									Kartagener_syndrome				16	16	---	---	---	---	PASS	C	21639426	C	C	21639426	3	2	58	1	0	0	0	0	1	0	0	0	4599	971	34	4	2747	4	DNAH11	7	21639426	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2725312	21639426	137499237	577	21952										
GPNMB	10457	broad.mit.edu	37	chr7	23309634	23309634	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctgaccccacctgcgagatCacccagaacacagtctgcag	8	16	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:23309634C>G	uc003swc.2	+	9	1466	c.1305C>G	c.(1303-1305)ATC>ATG	p.I435M	GPNMB_uc003swb.2_Missense_Mutation_p.I423M|GPNMB_uc011jyy.1_Missense_Mutation_p.I377M|GPNMB_uc011jyz.1_Missense_Mutation_p.I324M	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	435	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			CCTGCGAGATCACCCAGAACA	0.577													77	145	---	---	---	---	PASS	G	23309634	G	G	23309634	3	3	58	1	0	0	0	0	1	0	0	0	6620	816	29	2	1339	2	GPNMB	7	23309634	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1670208	23309634	135829029	578	21953										
GPNMB	10457	broad.mit.edu	37	chr7	23309696	23309696	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgtctgctgactgtgagacGaaccttcaatgggtctggga	14	8	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:23309696G>T	uc003swc.2	+	9	1528	c.1367G>T	c.(1366-1368)CGA>CTA	p.R456L	GPNMB_uc003swb.2_Missense_Mutation_p.R444L|GPNMB_uc011jyy.1_Missense_Mutation_p.R398L|GPNMB_uc011jyz.1_Missense_Mutation_p.R345L	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	456	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			ACTGTGAGACGAACCTTCAAT	0.547													55	91	---	---	---	---	PASS	T	23309696	T	T	23309696	3	4	58	1	0	0	0	0	1	0	0	0	6620	1058	37	2	1401	2	GPNMB	7	23309696	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	62	23309696	135828967	579	21954										
STK31	56164	broad.mit.edu	37	chr7	23792389	23792389	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacttagaatacactctgaaGacctatatagataccagaat	5	9	1	5			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:23792389G>T	uc003sws.3	+	9	1138	c.1071G>T	c.(1069-1071)AAG>AAT	p.K357N	STK31_uc003swt.3_Missense_Mutation_p.K334N|STK31_uc011jze.1_Missense_Mutation_p.K357N|STK31_uc010kuq.2_Missense_Mutation_p.K334N	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	357							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						ACACTCTGAAGACCTATATAG	0.358													23	92	---	---	---	---	PASS	T	23792389	T	T	23792389	3	4	58	1	0	0	0	0	1	0	0	0	15295	933	33	2	1105	2	STK31	7	23792389	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	482693	23792389	135346274	580	21955										
STK31	56164	broad.mit.edu	37	chr7	23802424	23802424	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttttttcttcctccagagtgAagggaatattttgattgccc	8	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:23802424A>T	uc003sws.3	+	11	1365	c.1298A>T	c.(1297-1299)GAA>GTA	p.E433V	STK31_uc003swt.3_Missense_Mutation_p.E410V|STK31_uc011jze.1_Missense_Mutation_p.E433V|STK31_uc010kuq.2_Missense_Mutation_p.E410V	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	433							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						CTCCAGAGTGAAGGGAATATT	0.323													66	100	---	---	---	---	PASS	T	23802424	T	T	23802424	3	4	58	1	0	0	0	0	1	0	0	0	15295	246	9	5	1340	5	STK31	7	23802424	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	10035	23802424	135336239	581	21956										
STK31	56164	broad.mit.edu	37	chr7	23808706	23808706	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaattttatgactggaagtgTgataaaagagaggagttcac	11	3	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:23808706T>G	uc003sws.3	+	12	1576	c.1509T>G	c.(1507-1509)TGT>TGG	p.C503W	STK31_uc003swt.3_Missense_Mutation_p.C480W|STK31_uc011jze.1_Missense_Mutation_p.C503W|STK31_uc010kuq.2_Missense_Mutation_p.C480W	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	503							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						ACTGGAAGTGTGATAAAAGAG	0.393													42	135	---	---	---	---	PASS	G	23808706	G	G	23808706	3	3	58	1	0	0	0	0	1	0	0	0	15295	1702	59	5	1555	5	STK31	7	23808706	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	6282	23808706	135329957	582	21957										
HNRNPA2B1	3181	broad.mit.edu	37	chr7	26235514	26235514	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agccatccccaaatccacgtCcactgccatatccatctgtt	4	17	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:26235514C>A	uc003sxr.3	-	8	926	c.710G>T	c.(709-711)GGA>GTA	p.G237V	HNRNPA2B1_uc003sxs.3_Missense_Mutation_p.G225V	NM_031243	NP_112533	P22626	ROA2_HUMAN	heterogeneous nuclear ribonucleoprotein A2/B1	237	Gly-rich.				RNA transport	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	nucleotide binding|protein binding|protein binding|RNA binding|single-stranded telomeric DNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3						AAATCCACGTCCACTGCCATA	0.383			T	ETV1	prostate								34	55	---	---	---	---	PASS	A	26235514	A	A	26235514	3	1	58	1	0	0	0	0	1	0	0	0	7259	855	30	2	367	2	HNRNPA2B1	7	26235514	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2426808	26235514	132903149	583	21958										
CPVL	54504	broad.mit.edu	37	chr7	29126100	29126100	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaaacgtgacttctacttacCtccccagtgacataaaagtc	6	12	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:29126100C>A	uc003szv.2	-	7	728	c.609G>T	c.(607-609)GAG>GAT	p.E203D	CPVL_uc003szw.2_Missense_Mutation_p.E203D|CPVL_uc003szx.2_Missense_Mutation_p.E203D	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	203					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						TTCTACTTACCTCCCCAGTGA	0.294													24	103	---	---	---	---	PASS	A	29126100	A	A	29126100	3	1	58	1	0	0	0	0	1	0	0	0	3835	695	24	3	849	3	CPVL	7	29126100	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2890586	29126100	130012563	584	21959										
GGCT	79017	broad.mit.edu	37	chr7	30544212	30544212	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgggccacacagaagaacgcCgccgaggggtttcggaggtg	17	11	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:30544212C>G	uc003tba.2	-	1	241	c.114G>C	c.(112-114)GCG>GCC	p.A38A	GGCT_uc003tbb.2_Silent_p.A38A|GGCT_uc003tbc.2_RNA	NM_024051	NP_076956	O75223	GGCT_HUMAN	gamma-glutamyl cyclotransferase	38					release of cytochrome c from mitochondria	cytosol	acyltransferase activity|gamma-glutamylcyclotransferase activity|protein homodimerization activity				0						AGAAGAACGCCGCCGAGGGGT	0.657													37	72	---	---	---	---	PASS	G	30544212	G	G	30544212	2	3	58	1	0	0	0	0	0	0	0	1	6355	639	23	4		4	GGCT	7	30544212	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1418112	30544212	128594451	585	21960										
GHRHR	2692	broad.mit.edu	37	chr7	31011577	31011577	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	catttctcccattacccccaGgaggctccactgcccccgga	7	19	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:31011577G>T	uc003tbx.2	+	6	513	c.465_splice	c.e6-1	p.R155_splice	GHRHR_uc003tbw.1_Splice_Site_p.R155_splice|GHRHR_uc003tby.2_Splice_Site_p.R91_splice|GHRHR_uc003tbz.2_Splice_Site	NM_000823	NP_000814	Q02643	GHRHR_HUMAN	growth hormone releasing hormone receptor						activation of adenylate cyclase activity by G-protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to estrogen stimulus|response to glucocorticoid stimulus	cell surface|integral to membrane|nuclear inner membrane|nuclear matrix|nuclear outer membrane|plasma membrane|stored secretory granule	growth factor binding|growth hormone-releasing hormone receptor activity|peptide hormone binding			ovary(2)|lung(1)|breast(1)|large_intestine(1)	5					Sermorelin(DB00010)	ATTACCCCCAGGAGGCTCCAC	0.463													16	120	---	---	---	---	PASS	T	31011577	T	T	31011577	5	4	58	1	0	0	0	0	0	0	1	0	6373	1014	35	3	486	3	GHRHR	7	31011577	Splice_Site	SNP	G	TCGA-33-4566-01A-01D-1441-08	467365	31011577	128127086	586	21961										
BMPER	168667	broad.mit.edu	37	chr7	34014336	34014336	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtgtgtttgagggtgtgcaGtatcaagaaggggaggaatt	17	2	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:34014336G>C	uc011kap.1	+	6	630	c.516G>C	c.(514-516)CAG>CAC	p.Q172H		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	172	VWFC 3.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						AGGGTGTGCAGTATCAAGAAG	0.483													63	109	---	---	---	---	PASS	C	34014336	C	C	34014336	3	2	58	1	0	0	0	0	1	0	0	0	1468	1020	36	4	538	4	BMPER	7	34014336	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3002759	34014336	125124327	587	21962										
BMPER	168667	broad.mit.edu	37	chr7	34091578	34091578	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	taactgcacagcttgtacctGcagggtaaggcagctctgag	12	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:34091578G>A	uc011kap.1	+	8	896	c.782G>A	c.(781-783)TGC>TAC	p.C261Y		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	261	VWFC 4.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						GCTTGTACCTGCAGGGTAAGG	0.463													50	83	---	---	---	---	PASS	A	34091578	A	A	34091578	3	1	58	1	0	0	0	0	1	0	0	0	1468	1319	46	3	812	3	BMPER	7	34091578	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	77242	34091578	125047085	588	21963										
BMPER	168667	broad.mit.edu	37	chr7	34118635	34118635	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcccgccggacacgctccttCtcgtggaccaagtcggtgga	13	15	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:34118635C>T	uc011kap.1	+	12	1359	c.1245C>T	c.(1243-1245)TTC>TTT	p.F415F		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	415	VWFD.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						CACGCTCCTTCTCGTGGACCA	0.647													75	108	---	---	---	---	PASS	T	34118635	T	T	34118635	2	4	58	1	0	0	0	0	0	0	0	1	1468	912	32	2		2	BMPER	7	34118635	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	27057	34118635	125020028	589	21964										
AMPH	273	broad.mit.edu	37	chr7	38424479	38424479	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgtaggtggcaaggtctctGtactgaagccagtctgattc	12	8	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:38424479G>T	uc003tgu.2	-	21	2097	c.2028C>A	c.(2026-2028)TAC>TAA	p.Y676*	AMPH_uc003tgv.2_Nonsense_Mutation_p.Y634*|AMPH_uc003tgt.2_Nonsense_Mutation_p.Y561*	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	676	SH3.				endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						CAAGGTCTCTGTACTGAAGCC	0.493													28	70	---	---	---	---	PASS	T	38424479	T	T	38424479	4	4	58	1	0	0	0	0	0	1	0	0	588	1372	48	3	63	3	AMPH	7	38424479	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	4305844	38424479	120714184	590	21965										
INHBA	3624	broad.mit.edu	37	chr7	41729316	41729316	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gatgatgttttgaccatcatCatagtacaacatggacatgg	9	7	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:41729316C>T	uc003thq.2	-	2	1448	c.1213G>A	c.(1213-1215)GAT>AAT	p.D405N	INHBA_uc003thr.2_Missense_Mutation_p.D405N	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	405					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						TGACCATCATCATAGTACAAC	0.517										TSP Lung(11;0.080)			50	80	---	---	---	---	PASS	T	41729316	T	T	41729316	3	4	58	1	0	0	0	0	1	0	0	0	7741	826	29	2	71	2	INHBA	7	41729316	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3304837	41729316	117409347	591	21966										
GLI3	2737	broad.mit.edu	37	chr7	42005297	42005297	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcgcgtcaaagtcaccgggcCcgtggggcactttgctgtcg	15	13	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:42005297C>A	uc011kbh.1	-	15	3465	c.3374G>T	c.(3373-3375)GGG>GTG	p.G1125V	GLI3_uc011kbg.1_Missense_Mutation_p.G1066V	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1125					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GTCACCGGGCCCGTGGGGCAC	0.657									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				28	93	---	---	---	---	PASS	A	42005297	A	A	42005297	3	1	58	1	0	0	0	0	1	0	0	0	6439	623	22	3	1372	3	GLI3	7	42005297	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	275981	42005297	117133366	592	21967										
ZMIZ2	83637	broad.mit.edu	37	chr7	44804560	44804560	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caagacagctttgctggaggGcctggaggtggaccagtaca	15	9	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:44804560G>T	uc003tlr.2	+	15	2072	c.1949G>T	c.(1948-1950)GGC>GTC	p.G650V	ZMIZ2_uc003tlq.2_Missense_Mutation_p.G592V|ZMIZ2_uc003tls.2_Missense_Mutation_p.G624V|ZMIZ2_uc003tlt.2_Missense_Mutation_p.G273V|ZMIZ2_uc010kyj.2_Missense_Mutation_p.G172V|ZMIZ2_uc003tlu.2_5'Flank	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	650	SP-RING-type.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						TTGCTGGAGGGCCTGGAGGTG	0.557													29	64	---	---	---	---	PASS	T	44804560	T	T	44804560	3	4	58	1	0	0	0	0	1	0	0	0	17694	1203	42	3	2003	3	ZMIZ2	7	44804560	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2799263	44804560	114334103	593	21968										
ABCA13	154664	broad.mit.edu	37	chr7	48318020	48318020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaactcaatcaagatcttgGgtcagctcttcaccttgtaa	6	11	6	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:48318020G>T	uc003toq.2	+	18	7254	c.7229G>T	c.(7228-7230)GGG>GTG	p.G2410V	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2410					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CAAGATCTTGGGTCAGCTCTT	0.368													34	63	---	---	---	---	PASS	T	48318020	T	T	48318020	3	4	58	1	0	0	0	0	1	0	0	0	31	1232	43	3	7128	3	ABCA13	7	48318020	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3513460	48318020	110820643	594	21969										
ABCA13	154664	broad.mit.edu	37	chr7	48451964	48451964	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatagccttctgttctggaGgcccatgatctgaaagacat	11	9	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:48451964G>T	uc003toq.2	+	41	12268	c.12243G>T	c.(12241-12243)GAG>GAT	p.E4081D	ABCA13_uc010kys.1_Missense_Mutation_p.E1155D|ABCA13_uc010kyt.1_RNA	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4081					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CTGTTCTGGAGGCCCATGATC	0.373													3	9	---	---	---	---	PASS	T	48451964	T	T	48451964	3	4	58	1	0	0	0	0	1	0	0	0	31	991	35	3	12234	3	ABCA13	7	48451964	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	133944	48451964	110686699	595	21970										
DDC	1644	broad.mit.edu	37	chr7	50530992	50530992	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgtgttcccaggcccgctgCacatgggcagattccaccgt	11	14	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:50530992C>A	uc003tpf.3	-	14	1466	c.1380G>T	c.(1378-1380)GTG>GTT	p.V460V	DDC_uc010kza.2_Silent_p.V375V|DDC_uc003tpg.3_Silent_p.V460V	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	460					cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	AGGCCCGCTGCACATGGGCAG	0.572													5	28	---	---	---	---	PASS	A	50530992	A	A	50530992	2	1	58	1	0	0	0	0	0	0	0	1	4325	697	25	3		3	DDC	7	50530992	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2079028	50530992	108607671	596	21971										
POM121L12	285877	broad.mit.edu	37	chr7	53103778	53103778	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cggacctggagcccggtgacCatcgggatcgcgccccctga	14	16	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:53103778C>A	uc003tpz.2	+	1	430	c.414C>A	c.(412-414)ACC>ACA	p.T138T		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	138											0						GCCCGGTGACCATCGGGATCG	0.577													19	22	---	---	---	---	PASS	A	53103778	A	A	53103778	2	1	58	1	0	0	0	0	0	0	0	1	12241	581	21	3		3	POM121L12	7	53103778	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2572786	53103778	106034885	597	21972										
VSTM2A	222008	broad.mit.edu	37	chr7	54617857	54617857	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaatccccaaacaaagtccaCaatcaggtatggaaacccat	5	12	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:54617857C>A	uc010kzf.2	+	4	1033	c.628C>A	c.(628-630)CAA>AAA	p.Q210K	VSTM2A_uc010kze.2_Missense_Mutation_p.Q210K|VSTM2A_uc003tqc.3_Missense_Mutation_p.Q210K	NM_182546	NP_872352	Q8TAG5	VTM2A_HUMAN	V-set and transmembrane domain containing 2	210						extracellular region					0			STAD - Stomach adenocarcinoma(5;0.0525)			ACAAAGTCCACAATCAGGTAT	0.493													3	5	---	---	---	---	PASS	A	54617857	A	A	54617857	3	1	58	1	0	0	0	0	1	0	0	0	17226	479	17	3	642	3	VSTM2A	7	54617857	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1514079	54617857	104520806	598	21973										
WBSCR28	135886	broad.mit.edu	37	chr7	73279936	73279936	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgaactgcgtggtaaggaaGctcctggtacagctgagacg	15	8	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:73279936G>T	uc003tzk.2	+	3	567	c.531G>T	c.(529-531)AAG>AAT	p.K177N	RFC2_uc011kfa.1_Intron|WBSCR28_uc003tzl.2_Missense_Mutation_p.K76N	NM_182504	NP_872310	Q6UE05	WBS28_HUMAN	hypothetical protein LOC135886	177						integral to membrane				breast(1)	1		Lung NSC(55;0.159)				TGGTAAGGAAGCTCCTGGTAC	0.582													140	198	---	---	---	---	PASS	T	73279936	T	T	73279936	3	4	58	1	0	0	0	0	1	0	0	0	17264	962	34	3	541	3	WBSCR28	7	73279936	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	18662079	73279936	85858727	599	21974										
PTPN12	5782	broad.mit.edu	37	chr7	77210755	77210755	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttctcgtagttgatcacagcCgagttaaattgacattaaag	8	7	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:77210755C>T	uc003ugh.2	+	3	311	c.220C>T	c.(220-222)CGA>TGA	p.R74*	PTPN12_uc011kgp.1_5'UTR|PTPN12_uc011kgq.1_5'UTR|PTPN12_uc010ldq.1_Intron|PTPN12_uc010ldr.1_Intron	NM_002835	NP_002826	Q05209	PTN12_HUMAN	protein tyrosine phosphatase, non-receptor type	74	Tyrosine-protein phosphatase.					soluble fraction	non-membrane spanning protein tyrosine phosphatase activity|SH3 domain binding			ovary(1)|breast(1)|pancreas(1)	3						TGATCACAGCCGAGTTAAATT	0.313													22	97	---	---	---	---	PASS	T	77210755	T	T	77210755	4	4	58	1	0	0	0	0	0	1	0	0	12781	644	23	1	230	1	PTPN12	7	77210755	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3930819	77210755	81927908	600	21975										
MAGI2	9863	broad.mit.edu	37	chr7	77814960	77814960	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acttgccagaggaatccattCgaaaactggtcctgggtggc	12	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:77814960C>A	uc003ugx.2	-	13	2551	c.2297G>T	c.(2296-2298)CGA>CTA	p.R766L	MAGI2_uc003ugy.2_Intron|MAGI2_uc010ldx.1_Intron|MAGI2_uc010ldy.1_Missense_Mutation_p.R375L	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	766						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				GGAATCCATTCGAAAACTGGT	0.353													27	106	---	---	---	---	PASS	A	77814960	A	A	77814960	3	1	58	1	0	0	0	0	1	0	0	0	9191	884	31	2	2110	2	MAGI2	7	77814960	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	604205	77814960	81323703	601	21976										
SEMA3C	10512	broad.mit.edu	37	chr7	80374286	80374286	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctttaacttgccatagtccCctctcattttctgtgattca	4	13	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:80374286C>G	uc003uhj.2	-	18	2742	c.2180G>C	c.(2179-2181)GGG>GCG	p.G727A	SEMA3C_uc011kgw.1_Missense_Mutation_p.G745A	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	727	Arg/Lys-rich (basic).				immune response|response to drug	membrane	receptor activity			ovary(1)	1						GCCATAGTCCCCTCTCATTTT	0.433													92	110	---	---	---	---	PASS	G	80374286	G	G	80374286	3	3	58	1	0	0	0	0	1	0	0	0	14026	623	22	4	79	4	SEMA3C	7	80374286	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2559326	80374286	78764377	602	21977										
PCLO	27445	broad.mit.edu	37	chr7	82538238	82538238	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctagagtggaccaatctttcCggcagttttcggtccagacc	10	12	1	2	rs78925303	by1000genomes	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:82538238C>G	uc003uhx.2	-	8	13681	c.13392G>C	c.(13390-13392)CCG>CCC	p.P4464P	PCLO_uc003uhv.2_Silent_p.P4464P	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4395					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CCAATCTTTCCGGCAGTTTTC	0.413													41	77	---	---	---	---	PASS	G	82538238	G	G	82538238	2	3	58	1	0	0	0	0	0	0	0	1	11583	639	23	4		4	PCLO	7	82538238	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2163952	82538238	76600425	603	21978										
PCLO	27445	broad.mit.edu	37	chr7	82544515	82544515	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atttcctaatgtgcccagtcCtgtgccaagagaagatccca	8	12	0	2	rs61995909		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:82544515C>T	uc003uhx.2	-	7	13076	c.12787G>A	c.(12787-12789)GGA>AGA	p.G4263R	PCLO_uc003uhv.2_Missense_Mutation_p.G4263R|PCLO_uc010lec.2_Missense_Mutation_p.G1228R	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4194					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GTGCCCAGTCCTGTGCCAAGA	0.408													4	31	---	---	---	---	PASS	T	82544515	T	T	82544515	3	4	58	1	0	0	0	0	1	0	0	0	11583	690	24	3	2734	3	PCLO	7	82544515	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	6277	82544515	76594148	604	21979										
SEMA3A	10371	broad.mit.edu	37	chr7	83590949	83590949	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acatttctttggtcttagagCcatctccatcatcatcttta	4	11	6	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:83590949C>A	uc003uhz.2	-	17	2369	c.2054G>T	c.(2053-2055)GGC>GTC	p.G685V		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	685					axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						GGTCTTAGAGCCATCTCCATC	0.433													63	123	---	---	---	---	PASS	A	83590949	A	A	83590949	3	1	58	1	0	0	0	0	1	0	0	0	14024	739	26	3	265	3	SEMA3A	7	83590949	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1046434	83590949	75547714	605	21980										
GRM3	2913	broad.mit.edu	37	chr7	86416245	86416245	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcgacaagcacctggccatCgacagcagcaactacgagca	10	14	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:86416245C>G	uc003uid.2	+	3	2236	c.1137C>G	c.(1135-1137)ATC>ATG	p.I379M	GRM3_uc010lef.2_Missense_Mutation_p.I377M|GRM3_uc010leg.2_Missense_Mutation_p.I251M|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	379	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	ACCTGGCCATCGACAGCAGCA	0.567													30	83	---	---	---	---	PASS	G	86416245	G	G	86416245	3	3	58	1	0	0	0	0	1	0	0	0	6798	874	31	2	1143	2	GRM3	7	86416245	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2825296	86416245	72722418	606	21981										
RUNDC3B	154661	broad.mit.edu	37	chr7	87370833	87370833	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtttctgcctaaagggagaGgggctggatggcagttttcc	15	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:87370833G>T	uc003ujb.2	+	7	1029	c.618G>T	c.(616-618)GAG>GAT	p.E206D	RUNDC3B_uc011khd.1_Missense_Mutation_p.E189D|RUNDC3B_uc011khe.1_Missense_Mutation_p.E189D|RUNDC3B_uc003ujc.2_Missense_Mutation_p.E189D|RUNDC3B_uc003ujd.2_Missense_Mutation_p.E111D	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	206	RUN.									skin(1)	1	Esophageal squamous(14;0.00164)					TAAAGGGAGAGGGGCTGGATG	0.279													25	39	---	---	---	---	PASS	T	87370833	T	T	87370833	3	4	58	1	0	0	0	0	1	0	0	0	13745	991	35	3	644	3	RUNDC3B	7	87370833	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	954588	87370833	71767830	607	21982										
ZNF804B	219578	broad.mit.edu	37	chr7	88964054	88964054	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgcctctttacctcaacacAtctctaaaggattgtgctgg	8	11	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:88964054A>G	uc011khi.1	+	4	2296	c.1758A>G	c.(1756-1758)ACA>ACG	p.T586T		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	586						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			ACCTCAACACATCTCTAAAGG	0.383										HNSCC(36;0.09)			35	72	---	---	---	---	PASS	G	88964054	G	G	88964054	2	3	58	1	0	0	0	0	0	0	0	1	18168	204	8	5		5	ZNF804B	7	88964054	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	1593221	88964054	70174609	608	21983										
CDK14	5218	broad.mit.edu	37	chr7	90613556	90613556	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caacttgaacgaatatttctGgtaagtcctttacagagtat	7	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:90613556G>T	uc003uky.2	+	10	1263	c.1041G>T	c.(1039-1041)CTG>CTT	p.L347L	CDK14_uc003ukz.1_Silent_p.L329L|CDK14_uc010les.1_Silent_p.L301L|CDK14_uc011khl.1_Silent_p.L218L	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	347	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						GAATATTTCTGGTAAGTCCTT	0.343													47	146	---	---	---	---	PASS	T	90613556	T	T	90613556	2	4	58	1	0	0	0	0	0	0	0	1	3130	1362	47	3		3	CDK14	7	90613556	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1649502	90613556	68525107	609	21984										
KRIT1	889	broad.mit.edu	37	chr7	91867069	91867069	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttttcattagtacaactcgTtttcctaatcatttttaaaa	2	7	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:91867069T>C	uc003ulq.1	-	4	438	c.267A>G	c.(265-267)AAA>AAG	p.K89K	KRIT1_uc010lev.1_5'UTR|KRIT1_uc003ulr.1_Silent_p.K89K|KRIT1_uc003uls.1_Silent_p.K89K|KRIT1_uc003ult.1_Silent_p.K89K|KRIT1_uc003ulu.1_Silent_p.K89K|KRIT1_uc003ulv.1_Silent_p.K89K	NM_194456	NP_919438	O00522	KRIT1_HUMAN	krev interaction trapped 1 isoform 1	89					angiogenesis|cell redox homeostasis|negative regulation of angiogenesis|negative regulation of endothelial cell apoptosis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|regulation of establishment of cell polarity|small GTPase mediated signal transduction	cell-cell junction|cytoskeleton	protein binding|small GTPase regulator activity			ovary(2)|lung(1)	3	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GTACAACTCGTTTTCCTAATC	0.289									Familial_Cerebral_Cavernous_Angioma				15	70	---	---	---	---	PASS	C	91867069	C	C	91867069	2	2	58	1	0	0	0	0	0	0	0	1	8445	1722	60	5		5	KRIT1	7	91867069	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	1253513	91867069	67271594	610	21985										
HEPACAM2	253012	broad.mit.edu	37	chr7	92848547	92848547	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gatgcattgggtggcatcatGgtgaacttgtgttggtattc	14	5	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:92848547G>T	uc003umm.2	-	2	320	c.297C>A	c.(295-297)ACC>ACA	p.T99T	HEPACAM2_uc003uml.2_Silent_p.T87T|HEPACAM2_uc010lff.2_Silent_p.T87T|HEPACAM2_uc011khy.1_Silent_p.T122T	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	99	Extracellular (Potential).					integral to membrane				ovary(3)|breast(1)|kidney(1)	5						GTGGCATCATGGTGAACTTGT	0.448													47	51	---	---	---	---	PASS	T	92848547	T	T	92848547	2	4	58	1	0	0	0	0	0	0	0	1	7053	1335	47	3		3	HEPACAM2	7	92848547	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	981478	92848547	66290116	611	21986										
SLC25A13	10165	broad.mit.edu	37	chr7	95775920	95775920	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgacagacagagcactgactCgaggaccagtggtgatttct	12	10	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:95775920C>A	uc003uof.3	-	14	1591	c.1400G>T	c.(1399-1401)CGA>CTA	p.R467L	SLC25A13_uc003uog.3_Missense_Mutation_p.R468L|SLC25A13_uc011kik.1_Missense_Mutation_p.R359L	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	467	Solcar 2.				ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	AGCACTGACTCGAGGACCAGT	0.423													92	193	---	---	---	---	PASS	A	95775920	A	A	95775920	3	1	58	1	0	0	0	0	1	0	0	0	14475	884	31	2	647	2	SLC25A13	7	95775920	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2927373	95775920	63362743	612	21987										
DLX5	1749	broad.mit.edu	37	chr7	96650126	96650126	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggtgggaattgattgagctGgctgcacttgtgtaccagga	15	6	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:96650126G>T	uc003uon.2	-	3	1000	c.792C>A	c.(790-792)GCC>GCA	p.A264A		NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	264					cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					TGATTGAGCTGGCTGCACTTG	0.622													31	43	---	---	---	---	PASS	T	96650126	T	T	96650126	2	4	58	1	0	0	0	0	0	0	0	1	4574	1335	47	3		3	DLX5	7	96650126	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	874206	96650126	62488537	613	21988										
CYP3A43	64816	broad.mit.edu	37	chr7	99459374	99459374	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaatcaatggagtgttcattCccaaagggttagcagtgatg	11	6	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:99459374C>A	uc003urx.1	+	11	1268	c.1165C>A	c.(1165-1167)CCC>ACC	p.P389T	CYP3A43_uc003ury.1_Missense_Mutation_p.P389T|CYP3A43_uc003urz.1_Missense_Mutation_p.P389T|CYP3A43_uc003usa.1_RNA|CYP3A43_uc010lgi.1_Missense_Mutation_p.P279T|CYP3A43_uc003usb.1_Missense_Mutation_p.P249T	NM_057095	NP_476436	Q9HB55	CP343_HUMAN	cytochrome P450, family 3, subfamily A,	389			Missing (in allele CYP3A43*2).		xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)				Cetirizine(DB00341)|Doxycycline(DB00254)	AGTGTTCATTCCCAAAGGGTT	0.453													61	95	---	---	---	---	PASS	A	99459374	A	A	99459374	3	1	58	1	0	0	0	0	1	0	0	0	4179	855	30	2	1207	2	CYP3A43	7	99459374	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2809248	99459374	59679289	614	21989										
ZNF3	7551	broad.mit.edu	37	chr7	99668855	99668855	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaaggcttctctccagtgtGaattctctgatggcgaacaa	9	10	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:99668855G>T	uc003usq.2	-	6	1559	c.1252C>A	c.(1252-1254)CAC>AAC	p.H418N	ZNF3_uc003usp.2_Intron|ZNF3_uc003usr.2_Missense_Mutation_p.H418N|ZNF3_uc010lgj.2_Missense_Mutation_p.H382N|ZNF3_uc003uss.2_Missense_Mutation_p.H425N|ZNF3_uc003ust.3_Missense_Mutation_p.H418N	NM_032924	NP_116313	P17036	ZNF3_HUMAN	zinc finger protein 3 isoform 2	418	C2H2-type 8.				cell differentiation|leukocyte activation|multicellular organismal development	nucleus	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)	Ovarian(593;2.06e-05)|Myeloproliferative disorder(862;0.0122)|Breast(660;0.029)	STAD - Stomach adenocarcinoma(171;0.129)			TCTCCAGTGTGAATTCTCTGA	0.498													90	108	---	---	---	---	PASS	T	99668855	T	T	99668855	3	4	58	1	0	0	0	0	1	0	0	0	17826	1290	45	2	221	2	ZNF3	7	99668855	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	209481	99668855	59469808	615	21990										
AP4M1	9179	broad.mit.edu	37	chr7	99701305	99701305	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccgccccgtcctgtccagtcGctctgaccaggtgagggaag	13	15	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:99701305G>C	uc003utb.3	+	6	741	c.533G>C	c.(532-534)CGC>CCC	p.R178P	MCM7_uc003usv.1_5'Flank|MCM7_uc003usw.1_5'Flank|MCM7_uc003usx.1_5'Flank|AP4M1_uc011kjg.1_Missense_Mutation_p.R132P|AP4M1_uc010lgl.1_Missense_Mutation_p.R178P|AP4M1_uc003utc.3_Missense_Mutation_p.R185P|AP4M1_uc010lgm.2_Missense_Mutation_p.R50P|AP4M1_uc003utd.2_Missense_Mutation_p.R178P|AP4M1_uc011kjh.1_Missense_Mutation_p.R130P|AP4M1_uc003ute.3_5'UTR|AP4M1_uc003utf.3_Missense_Mutation_p.R50P	NM_004722	NP_004713	O00189	AP4M1_HUMAN	adaptor-related protein complex 4, mu 1 subunit	178					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|coated pit|Golgi trans cisterna	transporter activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CTGTCCAGTCGCTCTGACCAG	0.498													48	139	---	---	---	---	PASS	C	99701305	C	C	99701305	3	2	58	1	0	0	0	0	1	0	0	0	753	1087	38	4	555	4	AP4M1	7	99701305	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	32450	99701305	59437358	616	21991										
GAL3ST4	79690	broad.mit.edu	37	chr7	99757738	99757738	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgacccaaactggaaggggCggaaccggcgatcagtgatg	15	10	1	2	rs139840294	by1000genomes	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:99757738C>T	uc003utt.2	-	3	2291	c.1274G>A	c.(1273-1275)CGC>CAC	p.R425H	C7orf43_uc010lgp.2_5'Flank|C7orf43_uc011kjj.1_5'Flank|C7orf43_uc003utr.2_5'Flank|C7orf43_uc003uts.2_5'Flank|GAL3ST4_uc003utu.2_Missense_Mutation_p.R425H|GAL3ST4_uc010lgq.2_Missense_Mutation_p.R363H	NM_024637	NP_078913	Q96RP7	G3ST4_HUMAN	galactose-3-O-sulfotransferase 4	425	Lumenal (Potential).				cell-cell signaling|oligosaccharide metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane|membrane fraction	3'-phosphoadenosine 5'-phosphosulfate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(3)	3	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CTGGAAGGGGCGGAACCGGCG	0.582													25	98	---	---	---	---	PASS	T	99757738	T	T	99757738	3	4	58	1	0	0	0	0	1	0	0	0	6200	768	27	1	190	1	GAL3ST4	7	99757738	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	56433	99757738	59380925	617	21992										
C7orf47	221908	broad.mit.edu	37	chr7	100033915	100033915	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcggagttgcgggacttggGgctccgggggtggccccggg	21	11	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:100033915G>T	uc003uuy.1	-	1	180	c.83C>A	c.(82-84)CCC>CAC	p.P28H	C7orf47_uc003uux.1_5'UTR	NM_145030	NP_659467	Q8TAP8	CG047_HUMAN	hypothetical protein LOC221908	28	Pro-rich.									ovary(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CGGGACTTGGGGCTCCGGGGG	0.682													9	14	---	---	---	---	PASS	T	100033915	T	T	100033915	3	4	58	1	0	0	0	0	1	0	0	0	2397	1232	43	3	694	3	C7orf47	7	100033915	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	276177	100033915	59104748	618	21993										
ZAN	7455	broad.mit.edu	37	chr7	100358100	100358100	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cggtttgtggagctgcagacGgagttcggtttgcgggtgag	19	6	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:100358100G>T	uc003uwj.2	+	19	3948	c.3783G>T	c.(3781-3783)ACG>ACT	p.T1261T	ZAN_uc003uwk.2_Silent_p.T1261T|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kkd.1_5'Flank	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1261	VWFD 1.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AGCTGCAGACGGAGTTCGGTT	0.592													29	77	---	---	---	---	PASS	T	100358100	T	T	100358100	2	4	58	1	0	0	0	0	0	0	0	1	17510	1103	39	1		1	ZAN	7	100358100	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	324185	100358100	58780563	619	21994										
MUC17	140453	broad.mit.edu	37	chr7	100676657	100676657	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcaccctttcaacaactcctGttgactccaacactcctgtg	5	16	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:100676657G>C	uc003uxp.1	+	3	2013	c.1960G>C	c.(1960-1962)GTT>CTT	p.V654L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	654	Extracellular (Potential).|8.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AACAACTCCTGTTGACTCCAA	0.473													93	220	---	---	---	---	PASS	C	100676657	C	C	100676657	3	2	58	1	0	0	0	0	1	0	0	0	9974	1377	48	4	1970	4	MUC17	7	100676657	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	318557	100676657	58462006	620	21995										
MUC17	140453	broad.mit.edu	37	chr7	100677014	100677014	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccctttcaacaactcctcttGacacaagcacacatatcacc	2	17	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:100677014G>A	uc003uxp.1	+	3	2370	c.2317G>A	c.(2317-2319)GAC>AAC	p.D773N	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	773	Extracellular (Potential).|Ser-rich.|10.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AACTCCTCTTGACACAAGCAC	0.478													93	221	---	---	---	---	PASS	A	100677014	A	A	100677014	3	1	58	1	0	0	0	0	1	0	0	0	9974	1290	45	2	2327	2	MUC17	7	100677014	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	357	100677014	58461649	621	21996										
C7orf52	375607	broad.mit.edu	37	chr7	100815508	100815508	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaggccaacgaggcgcgggGcctggcgctgcaggtgccac	18	13	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:100815508G>T	uc003uxy.1	-	4	1201	c.962C>A	c.(961-963)GCC>GAC	p.A321D	C7orf52_uc003uxz.1_Missense_Mutation_p.A321D	NM_198571	NP_940973	Q8N8M0	CG052_HUMAN	hypothetical protein LOC375607	321							N-acetyltransferase activity			ovary(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					GAGGCGCGGGGCCTGGCGCTG	0.672													6	24	---	---	---	---	PASS	T	100815508	T	T	100815508	3	4	58	1	0	0	0	0	1	0	0	0	2401	1203	42	3	151	3	C7orf52	7	100815508	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	138494	100815508	58323155	622	21997										
CUX1	1523	broad.mit.edu	37	chr7	101801838	101801838	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctctccctctcaccctcctAgggccgacgagattgaaatg	8	15	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:101801838A>G	uc003uyx.3	+	9	713	c.675_splice	c.e9-2	p.K225_splice	CUX1_uc003uys.3_Splice_Site_p.K236_splice|CUX1_uc003uyt.2_Splice_Site_p.K236_splice|CUX1_uc011kkn.1_Splice_Site_p.K199_splice|CUX1_uc003uyw.2_Splice_Site_p.K190_splice|CUX1_uc003uyv.2_Splice_Site_p.K220_splice|CUX1_uc003uyu.2_Splice_Site_p.K236_splice	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a						negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						TCACCCTCCTAGGGCCGACGA	0.572													20	54	---	---	---	---	PASS	G	101801838	G	G	101801838	5	3	58	1	0	0	0	0	0	0	1	0	4064	434	15	5	774	5	CUX1	7	101801838	Splice_Site	SNP	A	TCGA-33-4566-01A-01D-1441-08	986330	101801838	57336825	623	21998										
RELN	5649	broad.mit.edu	37	chr7	103207056	103207056	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcagtaacttaccatgttgcGgttgccaccatcgaaatgcc	9	12	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:103207056G>A	uc003vca.2	-	32	4899	c.4739C>T	c.(4738-4740)CCG>CTG	p.P1580L	RELN_uc010liz.2_Missense_Mutation_p.P1580L	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1580					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		ACCATGTTGCGGTTGCCACCA	0.483													32	57	---	---	---	---	PASS	A	103207056	A	A	103207056	3	1	58	1	0	0	0	0	1	0	0	0	13220	1116	39	1	5779	1	RELN	7	103207056	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1405218	103207056	55931607	624	21999										
PIK3CG	5294	broad.mit.edu	37	chr7	106509447	106509447	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcctgcgccgtggagaatacGtcctccacatgtggcagata	11	12	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:106509447G>T	uc003vdv.3	+	2	1526	c.1441G>T	c.(1441-1443)GTC>TTC	p.V481F	PIK3CG_uc003vdu.2_Missense_Mutation_p.V481F|PIK3CG_uc003vdw.2_Missense_Mutation_p.V481F	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	481					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						TGGAGAATACGTCCTCCACAT	0.502													24	99	---	---	---	---	PASS	T	106509447	T	T	106509447	3	4	58	1	0	0	0	0	1	0	0	0	11916	1145	40	1	1443	1	PIK3CG	7	106509447	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3302391	106509447	52629216	625	22000										
SLC26A3	1811	broad.mit.edu	37	chr7	107418651	107418651	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaacacgatggttagcagttGaaatgccacactagctgcca	10	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:107418651G>T	uc003ver.2	-	13	1694	c.1483C>A	c.(1483-1485)CAA>AAA	p.Q495K	SLC26A3_uc003ves.2_Missense_Mutation_p.Q460K	NM_000111	NP_000102	P40879	S26A3_HUMAN	solute carrier family 26, member 3	495					excretion	integral to membrane|membrane fraction	inorganic anion exchanger activity|secondary active sulfate transmembrane transporter activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(3)|skin(1)	4						GTTAGCAGTTGAAATGCCACA	0.468													7	18	---	---	---	---	PASS	T	107418651	T	T	107418651	3	4	58	1	0	0	0	0	1	0	0	0	14518	1299	45	2	847	2	SLC26A3	7	107418651	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	909204	107418651	51720012	626	22001										
PNPLA8	50640	broad.mit.edu	37	chr7	108142935	108142935	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatcatgttcctagccttacCttgttcctccaccatcaatt	3	14	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:108142935C>A	uc003vff.1	-	6	1765	c.1358G>T	c.(1357-1359)AGG>ATG	p.R453M	PNPLA8_uc003vfg.1_RNA|PNPLA8_uc003vfh.1_Missense_Mutation_p.R453M|PNPLA8_uc003vfi.1_Missense_Mutation_p.R353M|PNPLA8_uc003vfj.1_Missense_Mutation_p.R453M|PNPLA8_uc003vfk.1_Missense_Mutation_p.R353M	NM_015723	NP_056538	Q9NP80	PLPL8_HUMAN	patatin-like phospholipase domain containing 8	453	Patatin.				fatty acid metabolic process|lipid catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|membrane fraction|perinuclear region of cytoplasm|peroxisomal membrane	ATP binding|calcium-independent phospholipase A2 activity|lysophospholipase activity			breast(2)	2						CTAGCCTTACCTTGTTCCTCC	0.269													18	55	---	---	---	---	PASS	A	108142935	A	A	108142935	3	1	58	1	0	0	0	0	1	0	0	0	12171	695	24	3	1018	3	PNPLA8	7	108142935	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	724284	108142935	50995728	627	22002										
DOCK4	9732	broad.mit.edu	37	chr7	111508203	111508203	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctatatacttaaaaatgtatTcttgtgccttaaaaatacaa	3	6	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:111508203T>G	uc003vfx.2	-	22	2386	c.2117A>C	c.(2116-2118)GAA>GCA	p.E706A	DOCK4_uc003vfw.2_Missense_Mutation_p.E147A|DOCK4_uc003vfy.2_Missense_Mutation_p.E706A|DOCK4_uc003vga.1_Missense_Mutation_p.E311A	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	706					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				AAAAATGTATTCTTGTGCCTT	0.378													6	34	---	---	---	---	PASS	G	111508203	G	G	111508203	3	3	58	1	0	0	0	0	1	0	0	0	4689	1783	62	5	3907	5	DOCK4	7	111508203	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	3365268	111508203	47630460	628	22003										
CTTNBP2	83992	broad.mit.edu	37	chr7	117431274	117431274	+	Frame_Shift_Del	DEL	G	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agcaaaaggcaatggtggtaGgaatgacaagggaactgtct							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:117431274delG	uc003vjf.2	-	4	2068	c.1976delC	c.(1975-1977)CCTfs	p.P659fs		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	659										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		AATGGTGGTAGGAATGACAAG	0.562													95	43	---	---	---	---		-	117431274	-	-	117431274	7	5	58	1	0	1	0	1	0	0	0	0	4045	1000	35	0	3095	0	CTTNBP2	7	117431274	Frame_Shift_Del	DEL	G	TCGA-33-4566-01A-01D-1441-08	5923071	117431274	41707389	629	22004										
CTTNBP2	83992	broad.mit.edu	37	chr7	117432359	117432359	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaccttgtcacagttccttcTgttcccacagatatggaaac	7	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:117432359T>G	uc003vjf.2	-	4	983	c.891A>C	c.(889-891)ACA>ACC	p.T297T		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	297										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		CAGTTCCTTCTGTTCCCACAG	0.443													30	142	---	---	---	---	PASS	G	117432359	G	G	117432359	2	3	58	1	0	0	0	0	0	0	0	1	4045	1567	55	5		5	CTTNBP2	7	117432359	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	1085	117432359	41706304	630	22005										
KCND2	3751	broad.mit.edu	37	chr7	119915167	119915167	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccgacaccgctggggagagcGccttgcccaccatgactgca	12	16	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:119915167G>C	uc003vjj.1	+	1	1446	c.481G>C	c.(481-483)GCC>CCC	p.A161P		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	161	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TGGGGAGAGCGCCTTGCCCAC	0.607													21	64	---	---	---	---	PASS	C	119915167	C	C	119915167	3	2	58	1	0	0	0	0	1	0	0	0	8019	1087	38	4	483	4	KCND2	7	119915167	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2482808	119915167	39223496	631	22006										
AASS	10157	broad.mit.edu	37	chr7	121738556	121738556	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcccagcttctcttcttgttTacaaatgtccatgctaacag	6	12	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:121738556T>A	uc003vka.2	-	14	1699	c.1603A>T	c.(1603-1605)AAA>TAA	p.K535*	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Nonsense_Mutation_p.K535*|AASS_uc011knw.1_Nonsense_Mutation_p.K23*	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	535	Saccharopine dehydrogenase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	TCTTCTTGTTTACAAATGTCC	0.333													11	51	---	---	---	---	PASS	A	121738556	A	A	121738556	4	1	58	1	0	0	0	0	0	1	0	0	24	1763	61	5	1217	5	AASS	7	121738556	Nonsense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1823389	121738556	37400107	632	22007										
AASS	10157	broad.mit.edu	37	chr7	121738574	121738574	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttacaaatgtccatgctaaCaggattaatattatatttct	4	6	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:121738574C>A	uc003vka.2	-	14	1681	c.1585G>T	c.(1585-1587)GTT>TTT	p.V529F	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.V529F|AASS_uc011knw.1_Missense_Mutation_p.V17F	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	529	Saccharopine dehydrogenase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	TCCATGCTAACAGGATTAATA	0.343													14	38	---	---	---	---	PASS	A	121738574	A	A	121738574	3	1	58	1	0	0	0	0	1	0	0	0	24	478	17	3	1235	3	AASS	7	121738574	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	18	121738574	37400089	633	22008										
AASS	10157	broad.mit.edu	37	chr7	121773664	121773664	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcttgggagctagcggggcCcttctctcccaggcgttcac	13	14	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:121773664C>A	uc003vka.2	-	1	213	c.117G>T	c.(115-117)AGG>AGT	p.R39S	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.R39S|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	39	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	CTAGCGGGGCCCTTCTCTCCC	0.577													38	82	---	---	---	---	PASS	A	121773664	A	A	121773664	3	1	58	1	0	0	0	0	1	0	0	0	24	622	22	3	2755	3	AASS	7	121773664	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	35090	121773664	37364999	634	22009										
RNF148	378925	broad.mit.edu	37	chr7	122342063	122342063	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atttaggtctaattcctcatCcccttctttgagaactcgca	5	12	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:122342063C>T	uc003vkk.1	-	1	959	c.742G>A	c.(742-744)GAT>AAT	p.D248N	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron|RNF133_uc003vkj.1_5'Flank|RNF148_uc010lkr.1_3'UTR	NM_198085	NP_932351	Q8N7C7	RN148_HUMAN	ring finger protein 148 precursor	248						integral to membrane	zinc ion binding				0						AATTCCTCATCCCCTTCTTTG	0.403													7	36	---	---	---	---	PASS	T	122342063	T	T	122342063	3	4	58	1	0	0	0	0	1	0	0	0	13449	855	30	2	179	2	RNF148	7	122342063	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	568399	122342063	36796600	635	22010										
GRM8	2918	broad.mit.edu	37	chr7	126173635	126173635	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcggacaaaggtcacgatcaCaaaggtggtggcgatgattc	14	8	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:126173635C>G	uc003vlr.2	-	8	2112	c.1801G>C	c.(1801-1803)GTG>CTG	p.V601L	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.V601L|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	601	Helical; Name=1; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	GTCACGATCACAAAGGTGGTG	0.493										HNSCC(24;0.065)			21	40	---	---	---	---	PASS	G	126173635	G	G	126173635	3	3	58	1	0	0	0	0	1	0	0	0	6803	478	17	4	987	4	GRM8	7	126173635	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3831572	126173635	32965028	636	22011										
PAX4	5078	broad.mit.edu	37	chr7	127253566	127253566	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccacgggccactgaatcagGatactgcccacgctggaact	10	14	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:127253566G>T	uc010lld.1	-	5	765	c.559C>A	c.(559-561)CCT>ACT	p.P187T	PAX4_uc003vmf.2_Missense_Mutation_p.P185T|PAX4_uc003vmg.1_Missense_Mutation_p.P187T|PAX4_uc003vmh.2_Missense_Mutation_p.P185T	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	195	Homeobox.				cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ACTGAATCAGGATACTGCCCA	0.582													21	77	---	---	---	---	PASS	T	127253566	T	T	127253566	3	4	58	1	0	0	0	0	1	0	0	0	11481	1174	41	2	492	2	PAX4	7	127253566	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1079931	127253566	31885097	637	22012										
FAM40B	57464	broad.mit.edu	37	chr7	129091497	129091497	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttggaagaagatgcccaaaaGgcctatataatgggactctt	10	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:129091497G>T	uc011koy.1	+	4	358	c.318G>T	c.(316-318)AAG>AAT	p.K106N	FAM40B_uc003vow.2_Missense_Mutation_p.K106N	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	106											0						ATGCCCAAAAGGCCTATATAA	0.547													28	43	---	---	---	---	PASS	T	129091497	T	T	129091497	3	4	58	1	0	0	0	0	1	0	0	0	5561	991	35	3	332	3	FAM40B	7	129091497	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1837931	129091497	30047166	638	22013										
FAM40B	57464	broad.mit.edu	37	chr7	129093116	129093116	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgatgtgctacactggtccaGgtacaactgcttcctgctgt	10	12	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:129093116G>T	uc011koy.1	+	5	498	c.458G>T	c.(457-459)AGG>ATG	p.R153M	FAM40B_uc003vow.2_Missense_Mutation_p.R153M	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	153											0						CACTGGTCCAGGTACAACTGC	0.522													23	68	---	---	---	---	PASS	T	129093116	T	T	129093116	3	4	58	1	0	0	0	0	1	0	0	0	5561	1000	35	3	476	3	FAM40B	7	129093116	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1619	129093116	30045547	639	22014										
NUP205	23165	broad.mit.edu	37	chr7	135261844	135261844	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgagaaactacagcgagagAgaggtttgggcagtgaaaaa	14	4	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:135261844A>G	uc003vsw.2	+	5	647	c.616A>G	c.(616-618)AGA>GGA	p.R206G	NUP205_uc011kqa.1_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	206					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						ACAGCGAGAGAGAGGTTTGGG	0.403													22	64	---	---	---	---	PASS	G	135261844	G	G	135261844	3	3	58	1	0	0	0	0	1	0	0	0	10759	296	11	5	634	5	NUP205	7	135261844	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	6168728	135261844	23876819	640	22015										
NUP205	23165	broad.mit.edu	37	chr7	135312824	135312824	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtgccaggtcatcctcacaTctagtatggcccagcacttg	9	13	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:135312824T>C	uc003vsw.2	+	34	4928	c.4897T>C	c.(4897-4899)TCT>CCT	p.S1633P	NUP205_uc003vsx.2_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1633					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						CATCCTCACATCTAGTATGGC	0.433													54	132	---	---	---	---	PASS	C	135312824	C	C	135312824	3	2	58	1	0	0	0	0	1	0	0	0	10759	1435	50	5	5031	5	NUP205	7	135312824	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	50980	135312824	23825839	641	22016										
CHRM2	1129	broad.mit.edu	37	chr7	136700561	136700561	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttccctgggccattccaaaGatgagaactctaagcaaaca	7	12	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:136700561G>T	uc003vtf.1	+	4	1572	c.949G>T	c.(949-951)GAT>TAT	p.D317Y	CHRM2_uc003vtg.1_Missense_Mutation_p.D317Y|CHRM2_uc003vtj.1_Missense_Mutation_p.D317Y|CHRM2_uc003vtk.1_Missense_Mutation_p.D317Y|CHRM2_uc003vtl.1_Missense_Mutation_p.D317Y|CHRM2_uc003vtm.1_Missense_Mutation_p.D317Y|CHRM2_uc003vti.1_Missense_Mutation_p.D317Y|CHRM2_uc003vto.1_Missense_Mutation_p.D317Y|CHRM2_uc003vtn.1_Missense_Mutation_p.D317Y|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	317	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	CCATTCCAAAGATGAGAACTC	0.463													17	80	---	---	---	---	PASS	T	136700561	T	T	136700561	3	4	58	1	0	0	0	0	1	0	0	0	3377	942	33	2	951	2	CHRM2	7	136700561	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1387737	136700561	22438102	642	22017										
DGKI	9162	broad.mit.edu	37	chr7	137206685	137206685	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgattttgttcacccggatCctcagacgatctgggacaga	10	11	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:137206685C>G	uc003vtt.2	-	21	2176	c.2175G>C	c.(2173-2175)AGG>AGC	p.R725S	DGKI_uc003vtu.2_Missense_Mutation_p.R425S	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	725					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						TCACCCGGATCCTCAGACGAT	0.453													15	51	---	---	---	---	PASS	G	137206685	G	G	137206685	3	3	58	1	0	0	0	0	1	0	0	0	4471	854	30	2	1078	2	DGKI	7	137206685	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	506124	137206685	21931978	643	22018										
JHDM1D	80853	broad.mit.edu	37	chr7	139826556	139826556	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttgggaaagactgaatcatCtggccaataattttccaccc	7	11	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:139826556C>G	uc003vvm.2	-	6	773	c.769G>C	c.(769-771)GAT>CAT	p.D257H		NM_030647	NP_085150	Q6ZMT4	KDM7_HUMAN	jumonji C domain containing histone demethylase	257	JmjC.				midbrain development|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1	Melanoma(164;0.0142)					ACTGAATCATCTGGCCAATAA	0.403													32	83	---	---	---	---	PASS	G	139826556	G	G	139826556	3	3	58	1	0	0	0	0	1	0	0	0	7948	913	32	2	2116	2	JHDM1D	7	139826556	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2619871	139826556	19312107	644	22019										
WEE2	494551	broad.mit.edu	37	chr7	141420746	141420746	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtctcataggaattcggcttTgcatgaagtttatgctcacg	10	8	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:141420746T>A	uc003vwn.2	+	5	1176	c.770T>A	c.(769-771)TTG>TAG	p.L257*	FLJ40852_uc011krh.1_Intron|FLJ40852_uc010lnm.2_Intron|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028	P0C1S8	WEE2_HUMAN	WEE1 homolog 2	257	Protein kinase.				egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)					AATTCGGCTTTGCATGAAGTT	0.393													59	166	---	---	---	---	PASS	A	141420746	A	A	141420746	4	1	58	1	0	0	0	0	0	1	0	0	17342	1821	63	5	788	5	WEE2	7	141420746	Nonsense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1594190	141420746	17717917	645	22020										
MGAM	8972	broad.mit.edu	37	chr7	141736022	141736022	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acccctgaggagctctgtagGcggtggatgcagttgggtgc	17	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:141736022G>A	uc003vwy.2	+	17	2067	c.2013G>A	c.(2011-2013)AGG>AGA	p.R671R		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	671	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	AGCTCTGTAGGCGGTGGATGC	0.478													15	14	---	---	---	---	PASS	A	141736022	A	A	141736022	2	1	58	1	0	0	0	0	0	0	0	1	9541	1194	42	3		3	MGAM	7	141736022	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	315276	141736022	17402641	646	22021										
OR2F2	135948	broad.mit.edu	37	chr7	143632509	143632509	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccacactcccatgtatttcTttctcaccaacctctccctt	1	18	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:143632509T>C	uc011ktv.1	+	1	184	c.184T>C	c.(184-186)TTT>CTT	p.F62L		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	62	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					CATGTATTTCTTTCTCACCAA	0.502													97	248	---	---	---	---	PASS	C	143632509	C	C	143632509	3	2	58	1	0	0	0	0	1	0	0	0	10997	1609	56	5	186	5	OR2F2	7	143632509	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1896487	143632509	15506154	647	22022										
OR6B1	135946	broad.mit.edu	37	chr7	143701517	143701517	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagccatgggctctgcttccGcctcgctcttggttcctggg	13	14	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:143701517G>T	uc003wdt.1	+	1	428	c.428G>T	c.(427-429)CGC>CTC	p.R143L		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					CTCTGCTTCCGCCTCGCTCTT	0.562													20	48	---	---	---	---	PASS	T	143701517	T	T	143701517	3	4	58	1	0	0	0	0	1	0	0	0	11187	1087	38	1	430	1	OR6B1	7	143701517	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	69008	143701517	15437146	648	22023										
CNTNAP2	26047	broad.mit.edu	37	chr7	147600693	147600693	+	Missense_Mutation	SNP	A	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttggtgggttggcaaagccaAcgagaagcactactactggg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:147600693A>T	uc003weu.1	+	14	2651	c.2135A>T	c.(2134-2136)AAC>ATC	p.N712I		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	712	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GGCAAAGCCAACGAGAAGCAC	0.498										HNSCC(39;0.1)			16	40	---	---	---	---	PASS	T	147600693	T	T	147600693	3	4	58	1	0	0	0	0	1	0	0	0	3647	43	2	5	2189	5	CNTNAP2	7	147600693	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	3899176	147600693	11537970	649	22024	492	2								
CNTNAP2	26047	broad.mit.edu	37	chr7	147600694	147600694	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggtgggttggcaaagccaaCgagaagcactactactgggg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:147600694C>A	uc003weu.1	+	14	2652	c.2136C>A	c.(2134-2136)AAC>AAA	p.N712K		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	712	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GCAAAGCCAACGAGAAGCACT	0.502										HNSCC(39;0.1)			16	40	---	---	---	---	PASS	A	147600694	A	A	147600694	3	1	58	1	0	0	0	0	1	0	0	0	3647	535	19	1	2190	1	CNTNAP2	7	147600694	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1	147600694	11537969	650	22025	492	2								
ZNF425	155054	broad.mit.edu	37	chr7	148801268	148801268	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggaacttcatggaggccttCcaggagaagctcttgtcgca							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:148801268C>A	uc003wfj.2	-	4	1768	c.1695G>T	c.(1693-1695)TGG>TGT	p.W565C		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	565	C2H2-type 13.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TGGAGGCCTTCCAGGAGAAGC	0.617													18	30	---	---	---	---	PASS	A	148801268	A	A	148801268	3	1	58	1	0	0	0	0	1	0	0	0	17896	856	30	2	567	2	ZNF425	7	148801268	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1200574	148801268	10337395	651	22026	493	2								
ZNF425	155054	broad.mit.edu	37	chr7	148801269	148801269	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggaacttcatggaggccttcCaggagaagctcttgtcgcac							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:148801269C>A	uc003wfj.2	-	4	1767	c.1694G>T	c.(1693-1695)TGG>TTG	p.W565L		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	565	C2H2-type 13.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			GGAGGCCTTCCAGGAGAAGCT	0.617													18	29	---	---	---	---	PASS	A	148801269	A	A	148801269	3	1	58	1	0	0	0	0	1	0	0	0	17896	595	21	3	568	3	ZNF425	7	148801269	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1	148801269	10337394	652	22027	493	2								
ZNF282	8427	broad.mit.edu	37	chr7	148921516	148921516	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaccagcggctgcacacggGcgagcggcctttccaatgtg	13	15	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:148921516G>C	uc003wfm.2	+	8	1898	c.1793G>C	c.(1792-1794)GGC>GCC	p.G598A	ZNF282_uc011kun.1_3'UTR|ZNF282_uc003wfo.2_3'UTR	NM_003575	NP_003566	Q9UDV7	ZN282_HUMAN	zinc finger protein 282	598					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)	Lung(243;0.145)		CTGCACACGGGCGAGCGGCCT	0.642													7	24	---	---	---	---	PASS	C	148921516	C	C	148921516	3	2	58	1	0	0	0	0	1	0	0	0	17816	1203	42	4	1823	4	ZNF282	7	148921516	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	120247	148921516	10217147	653	22028										
GIMAP8	155038	broad.mit.edu	37	chr7	150174527	150174527	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgaaactggaggccatctttGgagcagactttacgaaatac	10	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:150174527G>C	uc003whj.2	+	5	1987	c.1657G>C	c.(1657-1659)GGA>CGA	p.G553R		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	553						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		GGCCATCTTTGGAGCAGACTT	0.483													28	93	---	---	---	---	PASS	C	150174527	C	C	150174527	3	2	58	1	0	0	0	0	1	0	0	0	6385	1349	47	4	1671	4	GIMAP8	7	150174527	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1253011	150174527	8964136	654	22029										
GIMAP7	168537	broad.mit.edu	37	chr7	150217668	150217668	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aacgaaggggcttacttttcTgatgacatatacaaggacac	9	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr7:150217668T>A	uc003whk.2	+	2	736	c.606T>A	c.(604-606)TCT>TCA	p.S202S		NM_153236	NP_694968	Q8NHV1	GIMA7_HUMAN	GTPase, IMAP family member 7	202							GTP binding			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTTACTTTTCTGATGACATAT	0.418													22	56	---	---	---	---	PASS	A	150217668	A	A	150217668	2	1	58	1	0	0	0	0	0	0	0	1	6384	1567	55	5		5	GIMAP7	7	150217668	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	43141	150217668	8920995	655	22030										
DLGAP2	9228	broad.mit.edu	37	chr8	1514000	1514000	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caagacatcaccaaagtcggCaatcctaccagagccgctgc	8	15	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:1514000C>A	uc003wpl.2	+	3	1239	c.1142C>A	c.(1141-1143)GCA>GAA	p.A381E	DLGAP2_uc003wpm.2_Missense_Mutation_p.A381E	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	460					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		CCAAAGTCGGCAATCCTACCA	0.557													6	12	---	---	---	---	PASS	A	1514000	A	A	1514000	3	1	58	1	0	0	0	0	1	0	0	0	4560	710	25	3	1148	3	DLGAP2	8	1514000	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08		1514000	144850022	656	22031										
CSMD1	64478	broad.mit.edu	37	chr8	3087562	3087562	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	taagttctgttgtctgatacCtatgcatgtaggagggtctg	12	6	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:3087562C>A	uc011kwk.1	-	27	4738	c.4348G>T	c.(4348-4350)GCT>TCT	p.A1450S	CSMD1_uc011kwj.1_Missense_Mutation_p.A842S|CSMD1_uc003wqe.2_Missense_Mutation_p.A606S	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1450	Extracellular (Potential).|Sushi 8.					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)		TGTCTGATACCTATGCATGTA	0.418													11	32	---	---	---	---	PASS	A	3087562	A	A	3087562	3	1	58	1	0	0	0	0	1	0	0	0	3944	695	24	3	6525	3	CSMD1	8	3087562	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1573562	3087562	143276460	657	22032										
RP1L1	94137	broad.mit.edu	37	chr8	10466885	10466885	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccctggagcttctggagctCtctcttggtgctgtcctgga	13	12	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:10466885C>T	uc003wtc.2	-	4	4952	c.4723G>A	c.(4723-4725)GAG>AAG	p.E1575K		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1575					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TTCTGGAGCTCTCTCTTGGTG	0.677													4	10	---	---	---	---	PASS	T	10466885	T	T	10466885	3	4	58	1	0	0	0	0	1	0	0	0	13533	922	32	2	2483	2	RP1L1	8	10466885	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	7379323	10466885	135897137	658	22033										
SGCZ	137868	broad.mit.edu	37	chr8	14022118	14022118	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcagcttttcagccccaatgGtaatctcatcttcatctgca	5	13	6	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:14022118G>T	uc003wwq.2	-	5	1178	c.518C>A	c.(517-519)ACC>AAC	p.T173N	SGCZ_uc010lss.2_Missense_Mutation_p.T126N	NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta	160	Extracellular (Potential).				cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		AGCCCCAATGGTAATCTCATC	0.413													20	38	---	---	---	---	PASS	T	14022118	T	T	14022118	3	4	58	1	0	0	0	0	1	0	0	0	14204	1261	44	3	436	3	SGCZ	8	14022118	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3555233	14022118	132341904	659	22034										
MTUS1	57509	broad.mit.edu	37	chr8	17541903	17541903	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtattaccacaggcaagaagCtgcttgagctgcaggataaa	11	8	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:17541903C>A	uc003wxv.2	-	7	3246	c.2772G>T	c.(2770-2772)CAG>CAT	p.Q924H	MTUS1_uc003wxt.2_Missense_Mutation_p.Q171H|MTUS1_uc011kyg.1_Missense_Mutation_p.Q69H|MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Missense_Mutation_p.Q870H|MTUS1_uc003wxs.2_Missense_Mutation_p.Q90H|hsa-mir-548v|MI0014174_5'Flank	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	924						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		AGGCAAGAAGCTGCTTGAGCT	0.458													45	92	---	---	---	---	PASS	A	17541903	A	A	17541903	3	1	58	1	0	0	0	0	1	0	0	0	9965	796	28	3	1076	3	MTUS1	8	17541903	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3519785	17541903	128822119	660	22035										
BMP1	649	broad.mit.edu	37	chr8	22049654	22049654	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gatggcttctggaggaaggcGcccctccgaggtaacggcac	15	12	1	0	rs76021885	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:22049654G>T	uc003xbg.2	+	9	1414	c.1170G>T	c.(1168-1170)GCG>GCT	p.A390A	BMP1_uc003xba.2_Silent_p.A390A|BMP1_uc003xbb.2_Silent_p.A390A|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Silent_p.A139A|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Silent_p.A139A|BMP1_uc011kzc.1_Silent_p.A139A|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	390	CUB 1.				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		GGAGGAAGGCGCCCCTCCGAG	0.622													12	25	---	---	---	---	PASS	T	22049654	T	T	22049654	2	4	58	1	0	0	0	0	0	0	0	1	1456	1074	38	1		1	BMP1	8	22049654	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	4507751	22049654	124314368	661	22036										
ADAM7	8756	broad.mit.edu	37	chr8	24324400	24324400	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atttggtgttcaaatataacCtgagggtgccgtatggtgcc	12	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:24324400C>T	uc003xeb.2	+	6	591	c.478C>T	c.(478-480)CTG>TTG	p.L160L	ADAM7_uc003xea.1_Silent_p.L160L	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	160	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		CAAATATAACCTGAGGGTGCC	0.383													37	70	---	---	---	---	PASS	T	24324400	T	T	24324400	2	4	58	1	0	0	0	0	0	0	0	1	251	680	24	3		3	ADAM7	8	24324400	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2274746	24324400	122039622	662	22037										
CDCA2	157313	broad.mit.edu	37	chr8	25364168	25364168	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtctctgaattctgctcttaTataaaaagttcctcatcgct	5	10	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:25364168T>C	uc003xep.1	+	15	2465	c.1986T>C	c.(1984-1986)TAT>TAC	p.Y662Y	PPP2R2A_uc003xek.2_Intron|CDCA2_uc011lae.1_3'UTR|CDCA2_uc003xeq.1_Silent_p.Y647Y|CDCA2_uc003xer.1_Silent_p.Y325Y	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	662				Y -> D (in Ref. 4; BG354575).	cell division|mitosis	cytoplasm|nucleus					0		all_cancers(63;0.0378)|Ovarian(32;0.000878)|all_epithelial(46;0.0162)|Breast(100;0.0164)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.022)|Epithelial(17;1.37e-11)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0443)		TCTGCTCTTATATAAAAAGTT	0.313													40	56	---	---	---	---	PASS	C	25364168	C	C	25364168	2	2	58	1	0	0	0	0	0	0	0	1	3086	1413	49	5		5	CDCA2	8	25364168	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	1039768	25364168	120999854	663	22038										
ADRA1A	148	broad.mit.edu	37	chr8	26627827	26627827	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtacaggaggattggtcttTggacactgtaatcctggcag	14	7	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:26627827T>C	uc003xfh.1	-	2	1676	c.1240A>G	c.(1240-1242)AAA>GAA	p.K414E	ADRA1A_uc003xfc.1_Missense_Mutation_p.K414E|ADRA1A_uc010lul.1_Intron|ADRA1A_uc003xfd.1_Intron|ADRA1A_uc003xfe.1_Missense_Mutation_p.K414E|ADRA1A_uc010lum.1_Intron|ADRA1A_uc003xff.1_Intron|ADRA1A_uc003xfg.1_Missense_Mutation_p.K414E	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	414	Cytoplasmic (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	GATTGGTCTTTGGACACTGTA	0.507													41	70	---	---	---	---	PASS	C	26627827	C	C	26627827	3	2	58	1	0	0	0	0	1	0	0	0	334	1821	63	5	455	5	ADRA1A	8	26627827	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1263659	26627827	119736195	664	22039										
TEX15	56154	broad.mit.edu	37	chr8	30700887	30700887	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaaaagatatgttccagacCataaagagatattttaacac	5	6	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:30700887C>A	uc003xil.2	-	1	5647	c.5647G>T	c.(5647-5649)GGT>TGT	p.G1883C		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1883										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TGTTCCAGACCATAAAGAGAT	0.343													56	110	---	---	---	---	PASS	A	30700887	A	A	30700887	3	1	58	1	0	0	0	0	1	0	0	0	15776	594	21	3	2738	3	TEX15	8	30700887	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4073060	30700887	115663135	665	22040										
TEX15	56154	broad.mit.edu	37	chr8	30703577	30703577	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gacatttgcttttacataaaGatgcttcatcacttaggata	6	7	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:30703577G>C	uc003xil.2	-	1	2957	c.2957C>G	c.(2956-2958)TCT>TGT	p.S986C		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	986										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TTTACATAAAGATGCTTCATC	0.338													48	98	---	---	---	---	PASS	C	30703577	C	C	30703577	3	2	58	1	0	0	0	0	1	0	0	0	15776	942	33	2	5428	2	TEX15	8	30703577	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2690	30703577	115660445	666	22041										
KCNU1	157855	broad.mit.edu	37	chr8	36788571	36788571	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ataaggataaagtctatggtGtggcagatagctgcacgtcg	13	6	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:36788571G>T	uc010lvw.2	+	25	2926	c.2839G>T	c.(2839-2841)GTG>TTG	p.V947L	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	947	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		AGTCTATGGTGTGGCAGATAG	0.443													35	48	---	---	---	---	PASS	T	36788571	T	T	36788571	3	4	58	1	0	0	0	0	1	0	0	0	8093	1377	48	3	2937	3	KCNU1	8	36788571	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6084994	36788571	109575451	667	22042										
PXDNL	137902	broad.mit.edu	37	chr8	52322096	52322096	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgaggctgagggagcgcggGgacaccaagtcattgtaccg	16	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:52322096G>A	uc003xqu.3	-	17	2189	c.2088C>T	c.(2086-2088)TCC>TCT	p.S696S	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	696					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GGGAGCGCGGGGACACCAAGT	0.612													9	35	---	---	---	---	PASS	A	52322096	A	A	52322096	2	1	58	1	0	0	0	0	0	0	0	1	12848	1219	43	3		3	PXDNL	8	52322096	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	15533525	52322096	94041926	668	22043										
ST18	9705	broad.mit.edu	37	chr8	53076624	53076624	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggacattgccaatttttcaGctgcagcaattggacaacca	9	10	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:53076624G>T	uc003xqz.2	-	8	1478	c.1322C>A	c.(1321-1323)GCT>GAT	p.A441D	ST18_uc011ldq.1_Missense_Mutation_p.A88D|ST18_uc011ldr.1_Missense_Mutation_p.A406D|ST18_uc011lds.1_Missense_Mutation_p.A346D|ST18_uc003xra.2_Missense_Mutation_p.A441D|ST18_uc003xrb.2_Missense_Mutation_p.A441D	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	441						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				CAATTTTTCAGCTGCAGCAAT	0.418													48	59	---	---	---	---	PASS	T	53076624	T	T	53076624	3	4	58	1	0	0	0	0	1	0	0	0	15211	971	34	3	1877	3	ST18	8	53076624	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	754528	53076624	93287398	669	22044										
ST18	9705	broad.mit.edu	37	chr8	53092721	53092721	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtttccaaggggccatcgtCctctgtcctgtcactgcggt	11	13	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:53092721C>T	uc003xqz.2	-	4	394	c.238G>A	c.(238-240)GAC>AAC	p.D80N	ST18_uc011ldq.1_5'UTR|ST18_uc011ldr.1_Missense_Mutation_p.D45N|ST18_uc011lds.1_5'UTR|ST18_uc003xra.2_Missense_Mutation_p.D80N|ST18_uc003xrb.2_Missense_Mutation_p.D80N|ST18_uc010lyb.2_RNA	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	80						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				GGGCCATCGTCCTCTGTCCTG	0.532													111	172	---	---	---	---	PASS	T	53092721	T	T	53092721	3	4	58	1	0	0	0	0	1	0	0	0	15211	855	30	2	2977	2	ST18	8	53092721	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	16097	53092721	93271301	670	22045										
TRIM55	84675	broad.mit.edu	37	chr8	67064773	67064773	+	Nonsense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttcagagctctctcaggtgGagctgcaggctgcccctggg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:67064773G>T	uc003xvv.2	+	8	1373	c.1147G>T	c.(1147-1149)GAG>TAG	p.E383*	TRIM55_uc003xvu.2_Nonsense_Mutation_p.E383*|TRIM55_uc003xvw.2_Nonsense_Mutation_p.E383*|TRIM55_uc003xvx.2_Intron	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	383						cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			CTCTCAGGTGGAGCTGCAGGC	0.473													25	55	---	---	---	---	PASS	T	67064773	T	T	67064773	4	4	58	1	0	0	0	0	0	1	0	0	16526	1175	41	2	1177	2	TRIM55	8	67064773	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	13972052	67064773	79299249	671	22046	494	2								
TRIM55	84675	broad.mit.edu	37	chr8	67064781	67064781	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctctctcaggtggagctgcaGgctgcccctggggcacttcc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:67064781G>T	uc003xvv.2	+	8	1381	c.1155G>T	c.(1153-1155)CAG>CAT	p.Q385H	TRIM55_uc003xvu.2_Missense_Mutation_p.Q385H|TRIM55_uc003xvw.2_Missense_Mutation_p.Q385H|TRIM55_uc003xvx.2_Intron	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	385						cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			TGGAGCTGCAGGCTGCCCCTG	0.493													24	63	---	---	---	---	PASS	T	67064781	T	T	67064781	3	4	58	1	0	0	0	0	1	0	0	0	16526	991	35	3	1185	3	TRIM55	8	67064781	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	8	67064781	79299241	672	22047	494	2								
MSC	9242	broad.mit.edu	37	chr8	72755880	72755880	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttgcgcgccgcgcccctacCaggttcactgggtgcacgta	12	16	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:72755880C>T	uc003xyx.1	-	1	852	c.534G>A	c.(532-534)CTG>CTA	p.L178L	uc011lff.1_RNA|uc003xyy.2_5'Flank	NM_005098	NP_005089	O60682	MUSC_HUMAN	musculin	178					transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Breast(64;0.176)		Epithelial(68;0.137)|BRCA - Breast invasive adenocarcinoma(89;0.203)			GCGCCCCTACCAGGTTCACTG	0.647											OREG0018826	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	46	---	---	---	---	PASS	T	72755880	T	T	72755880	2	4	58	1	0	0	0	0	0	0	0	1	9868	608	21	3		3	MSC	8	72755880	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	5691099	72755880	73608142	673	22048										
KCNB2	9312	broad.mit.edu	37	chr8	73479991	73479991	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggcagaaaaggctcccccgGgcttaaacaggaagacttca	11	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:73479991G>T	uc003xzb.2	+	2	610	c.22G>T	c.(22-24)GGC>TGC	p.G8C		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	8	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			GGCTCCCCCGGGCTTAAACAG	0.498													32	144	---	---	---	---	PASS	T	73479991	T	T	73479991	3	4	58	1	0	0	0	0	1	0	0	0	8013	1232	43	3	24	3	KCNB2	8	73479991	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	724111	73479991	72884031	674	22049										
ZFHX4	79776	broad.mit.edu	37	chr8	77764403	77764403	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tatacctgggacggagttcaGcttggggccagatttgggct	15	8	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:77764403G>T	uc003yav.2	+	10	5498	c.5111G>T	c.(5110-5112)AGC>ATC	p.S1704I	ZFHX4_uc003yau.1_Missense_Mutation_p.S1749I|ZFHX4_uc003yaw.1_Missense_Mutation_p.S1704I	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1704	Gln-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACGGAGTTCAGCTTGGGGCCA	0.512										HNSCC(33;0.089)			12	66	---	---	---	---	PASS	T	77764403	T	T	77764403	3	4	58	1	0	0	0	0	1	0	0	0	17632	971	34	3	5280	3	ZFHX4	8	77764403	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	4284412	77764403	68599619	675	22050										
SLC10A5	347051	broad.mit.edu	37	chr8	82606632	82606632	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acaatctgagacaaaagaaaCccgcaaaatggcatcagaaa	7	9	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:82606632C>T	uc011lfs.1	-	1	576	c.576G>A	c.(574-576)GGG>GGA	p.G192G		NM_001010893	NP_001010893	Q5PT55	NTCP5_HUMAN	solute carrier family 10 (sodium/bile acid	192	Helical; (Potential).					integral to membrane	bile acid:sodium symporter activity				0						ACAAAAGAAACCCGCAAAATG	0.468													38	186	---	---	---	---	PASS	T	82606632	T	T	82606632	2	4	58	1	0	0	0	0	0	0	0	1	14377	494	18	3		3	SLC10A5	8	82606632	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	4842229	82606632	63757390	676	22051										
ATP6V0D2	245972	broad.mit.edu	37	chr8	87153719	87153719	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgtctgaaaatgctctagaTgaactgaatattgaattgct	8	5	2	5			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:87153719T>G	uc003ydp.1	+	4	591	c.522T>G	c.(520-522)GAT>GAG	p.D174E		NM_152565	NP_689778	Q8N8Y2	VA0D2_HUMAN	ATPase, H+ transporting, lysosomal 38kDa, V0	174					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	apical plasma membrane|endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex	hydrogen ion transmembrane transporter activity|protein binding				0						ATGCTCTAGATGAACTGAATA	0.333													40	102	---	---	---	---	PASS	G	87153719	G	G	87153719	3	3	58	1	0	0	0	0	1	0	0	0	1174	1461	51	5	536	5	ATP6V0D2	8	87153719	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	4547087	87153719	59210303	677	22052										
SLC7A13	157724	broad.mit.edu	37	chr8	87229835	87229835	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgttaagataattgcaaggGatcccaaagtgacaagtagt	10	5	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:87229835G>T	uc003ydq.1	-	3	1141	c.1043C>A	c.(1042-1044)TCC>TAC	p.S348Y	SLC7A13_uc003ydr.1_Missense_Mutation_p.S339Y	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	348	Helical; Name=9; (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						AATTGCAAGGGATCCCAAAGT	0.358													40	141	---	---	---	---	PASS	T	87229835	T	T	87229835	3	4	58	1	0	0	0	0	1	0	0	0	14695	1174	41	2	377	2	SLC7A13	8	87229835	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	76116	87229835	59134187	678	22053										
SLC7A13	157724	broad.mit.edu	37	chr8	87235208	87235208	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttgcatacaaacctgaagaGagaatttccctgggtgtcag	10	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:87235208G>T	uc003ydq.1	-	2	908	c.810C>A	c.(808-810)CTC>CTA	p.L270L	SLC7A13_uc003ydr.1_Silent_p.L261L	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	270	Extracellular (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						AACCTGAAGAGAGAATTTCCC	0.383													72	110	---	---	---	---	PASS	T	87235208	T	T	87235208	2	4	58	1	0	0	0	0	0	0	0	1	14695	929	33	2		2	SLC7A13	8	87235208	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	5373	87235208	59128814	679	22054										
MMP16	4325	broad.mit.edu	37	chr8	89053926	89053926	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttggtccatcacagcccatAaaatccttgaggatggatct	9	10	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:89053926A>C	uc003yeb.3	-	10	1869	c.1587T>G	c.(1585-1587)TTT>TTG	p.F529L		NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	529	Hemopexin-like 4.|Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						CACAGCCCATAAAATCCTTGA	0.428													47	71	---	---	---	---	PASS	C	89053926	C	C	89053926	3	2	58	1	0	0	0	0	1	0	0	0	9655	359	13	5	240	5	MMP16	8	89053926	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1818718	89053926	57310096	680	22055										
MMP16	4325	broad.mit.edu	37	chr8	89128775	89128775	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgacgaagaatagctagagtGttaaagttcccatcacagat	9	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:89128775G>A	uc003yeb.3	-	6	1326	c.1044C>T	c.(1042-1044)AAC>AAT	p.N348N	MMP16_uc003yec.2_Silent_p.N348N	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	348	Extracellular (Potential).|Hemopexin-like 1.				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						TAGCTAGAGTGTTAAAGTTCC	0.443													14	89	---	---	---	---	PASS	A	89128775	A	A	89128775	2	1	58	1	0	0	0	0	0	0	0	1	9655	1368	48	3		3	MMP16	8	89128775	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	74849	89128775	57235247	681	22056										
MMP16	4325	broad.mit.edu	37	chr8	89128850	89128850	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttggaggccgaggaggtttTggcctgtcatttttccttgg	15	7	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:89128850T>A	uc003yeb.3	-	6	1251	c.969A>T	c.(967-969)CCA>CCT	p.P323P	MMP16_uc003yec.2_Silent_p.P323P	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	323	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						GAGGAGGTTTTGGCCTGTCAT	0.542													52	194	---	---	---	---	PASS	A	89128850	A	A	89128850	2	1	58	1	0	0	0	0	0	0	0	1	9655	1799	63	5		5	MMP16	8	89128850	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	75	89128850	57235172	682	22057										
SLC26A7	115111	broad.mit.edu	37	chr8	92406201	92406201	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgacgtattatggaaacctAgactcagagaaaccaatttt	7	7	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:92406201A>G	uc003yex.2	+	19	2147	c.1869A>G	c.(1867-1869)CTA>CTG	p.L623L	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Silent_p.L623L|SLC26A7_uc003yfa.2_Silent_p.L623L	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	623	STAS.|Cytoplasmic (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)			ATGGAAACCTAGACTCAGAGA	0.348													60	103	---	---	---	---	PASS	G	92406201	G	G	92406201	2	3	58	1	0	0	0	0	0	0	0	1	14522	407	15	5		5	SLC26A7	8	92406201	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	3277351	92406201	53957821	683	22058										
OSR2	116039	broad.mit.edu	37	chr8	99961435	99961435	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtggacgcgcgcttccccttCccggccctgccttttaccac	9	19	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:99961435C>G	uc003yir.2	+	2	790	c.255C>G	c.(253-255)TTC>TTG	p.F85L	OSR2_uc010mbn.2_Missense_Mutation_p.F85L|OSR2_uc003yiq.2_Missense_Mutation_p.F85L|OSR2_uc011lgx.1_Missense_Mutation_p.F206L	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	85					bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding			central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			GCTTCCCCTTCCCGGCCCTGC	0.657													59	94	---	---	---	---	PASS	G	99961435	G	G	99961435	3	3	58	1	0	0	0	0	1	0	0	0	11294	854	30	2	257	2	OSR2	8	99961435	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	7555234	99961435	46402587	684	22059										
OSR2	116039	broad.mit.edu	37	chr8	99963899	99963899	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtgatctgcggcggcacagCctgactcacaccccgcggca	12	16	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:99963899C>A	uc003yir.2	+	4	1444	c.909C>A	c.(907-909)AGC>AGA	p.S303R	OSR2_uc003yiq.2_Missense_Mutation_p.A276D|OSR2_uc011lgx.1_Missense_Mutation_p.S424R	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	303	C2H2-type 5; degenerate.				bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding			central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			GGCGGCACAGCCTGACTCACA	0.602													6	31	---	---	---	---	PASS	A	99963899	A	A	99963899	3	1	58	1	0	0	0	0	1	0	0	0	11294	739	26	3	919	3	OSR2	8	99963899	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2464	99963899	46400123	685	22060										
UBR5	51366	broad.mit.edu	37	chr8	103324640	103324640	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtcagcatctggaccagagCtgttctgacagttagtatta	11	8	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:103324640C>A	uc003ykr.1	-	17	2114	c.2081G>T	c.(2080-2082)AGC>ATC	p.S694I	UBR5_uc003yks.1_Missense_Mutation_p.S694I	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	694					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TGGACCAGAGCTGTTCTGACA	0.408													64	87	---	---	---	---	PASS	A	103324640	A	A	103324640	3	1	58	1	0	0	0	0	1	0	0	0	16902	797	28	3	6490	3	UBR5	8	103324640	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3360741	103324640	43039382	686	22061										
EBAG9	9166	broad.mit.edu	37	chr8	110569170	110569170	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aattaatctttcagattgttAttaagaagagagaaccattg	7	4	2	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:110569170A>T	uc003ynf.2	+	5	563	c.328A>T	c.(328-330)ATT>TTT	p.I110F	EBAG9_uc010mcn.1_RNA|EBAG9_uc003yng.2_Missense_Mutation_p.I110F	NM_198120	NP_936056	O00559	RCAS1_HUMAN	estrogen receptor binding site associated	110	Cytoplasmic (Potential).				apoptosis|regulation of cell growth	focal adhesion|Golgi membrane|integral to membrane|soluble fraction	apoptotic protease activator activity				0			OV - Ovarian serous cystadenocarcinoma(57;1.39e-14)			TCAGATTGTTATTAAGAAGAG	0.308													24	56	---	---	---	---	PASS	T	110569170	T	T	110569170	3	4	58	1	0	0	0	0	1	0	0	0	4879	449	16	5	342	5	EBAG9	8	110569170	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	7244530	110569170	35794852	687	22062										
CSMD3	114788	broad.mit.edu	37	chr8	113332171	113332171	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccgtcaaaatttcagcattgGgcacaggtggtggaggttgg	15	7	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:113332171G>T	uc003ynu.2	-	46	7364	c.7205C>A	c.(7204-7206)CCC>CAC	p.P2402H	CSMD3_uc003yns.2_Missense_Mutation_p.P1604H|CSMD3_uc003ynt.2_Missense_Mutation_p.P2362H|CSMD3_uc011lhx.1_Missense_Mutation_p.P2298H|CSMD3_uc003ynw.1_Missense_Mutation_p.P113H	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2402	Extracellular (Potential).|Sushi 13.					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						TTCAGCATTGGGCACAGGTGG	0.363										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			33	176	---	---	---	---	PASS	T	113332171	T	T	113332171	3	4	58	1	0	0	0	0	1	0	0	0	3946	1232	43	3	4022	3	CSMD3	8	113332171	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2763001	113332171	33031851	688	22063										
CSMD3	114788	broad.mit.edu	37	chr8	113353715	113353715	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atttctcttaccttggtataCaatatgaaacccttgtttgt	5	8	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:113353715C>A	uc003ynu.2	-	42	6802	c.6643G>T	c.(6643-6645)GTA>TTA	p.V2215L	CSMD3_uc003yns.2_Missense_Mutation_p.V1417L|CSMD3_uc003ynt.2_Missense_Mutation_p.V2175L|CSMD3_uc011lhx.1_Missense_Mutation_p.V2111L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2215	Extracellular (Potential).|CUB 12.					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						CCTTGGTATACAATATGAAAC	0.299										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			20	81	---	---	---	---	PASS	A	113353715	A	A	113353715	3	1	58	1	0	0	0	0	1	0	0	0	3946	478	17	3	4600	3	CSMD3	8	113353715	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	21544	113353715	33010307	689	22064										
TNFRSF11B	4982	broad.mit.edu	37	chr8	119936778	119936778	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtctttgagtgctttagtgcGtgcattaggcccttcaaggt	12	8	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:119936778G>A	uc003yon.3	-	5	1364	c.1041C>T	c.(1039-1041)CAC>CAT	p.H347H		NM_002546	NP_002537	O00300	TR11B_HUMAN	osteoprotegerin precursor	347	Death 2.				apoptosis|skeletal system development		cytokine activity|receptor activity			central_nervous_system(2)	2	all_cancers(13;3.71e-26)|Lung NSC(37;1.69e-07)|Ovarian(258;0.018)|all_neural(195;0.0592)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00193)			GCTTTAGTGCGTGCATTAGGC	0.443													41	414	---	---	---	---	PASS	A	119936778	A	A	119936778	2	1	58	1	0	0	0	0	0	0	0	1	16282	1136	40	1		1	TNFRSF11B	8	119936778	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	6583063	119936778	26427244	690	22065										
TAF2	6873	broad.mit.edu	37	chr8	120744199	120744199	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggagaacgaatagacctgcCactggcagggctggagaaag	15	8	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:120744199C>A	uc003you.2	-	26	3835	c.3565G>T	c.(3565-3567)GGC>TGC	p.G1189C		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	1189					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			ATAGACCTGCCACTGGCAGGG	0.423													97	85	---	---	---	---	PASS	A	120744199	A	A	120744199	3	1	58	1	0	0	0	0	1	0	0	0	15521	594	21	3	38	3	TAF2	8	120744199	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	807421	120744199	25619823	691	22066										
ATAD2	29028	broad.mit.edu	37	chr8	124408531	124408531	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaggaagtcactggacaggtCcaaggagcccgtggccgagg	17	10	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:124408531C>A	uc003yqh.3	-	1	175	c.67G>T	c.(67-69)GAC>TAC	p.D23Y	ATAD2_uc011lii.1_5'UTR|ATAD2_uc003yqi.3_Intron|ATAD2_uc003yqj.2_Missense_Mutation_p.D23Y	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	23					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			CTGGACAGGTCCAAGGAGCCC	0.687													14	33	---	---	---	---	PASS	A	124408531	A	A	124408531	3	1	58	1	0	0	0	0	1	0	0	0	1071	855	30	2	4217	2	ATAD2	8	124408531	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3664332	124408531	21955491	692	22067										
KLHL38	340359	broad.mit.edu	37	chr8	124659171	124659171	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccacaatgacaatccgctcCccaagcaccactgcaggggc	8	18	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:124659171C>A	uc003yqs.1	-	2	1458	c.1434G>T	c.(1432-1434)GGG>GGT	p.G478G		NM_001081675	NP_001075144	Q2WGJ6	KLH38_HUMAN	kelch-like 38	478	Kelch 4.										0						CAATCCGCTCCCCAAGCACCA	0.478													133	184	---	---	---	---	PASS	A	124659171	A	A	124659171	2	1	58	1	0	0	0	0	0	0	0	1	8390	610	22	3		3	KLHL38	8	124659171	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	250640	124659171	21704851	693	22068										
ADCY8	114	broad.mit.edu	37	chr8	131955658	131955658	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcctgaccagctcctgagcaGacaaggtcgtggagaggttg	14	10	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:131955658G>T	uc003ytd.3	-	4	1548	c.1292C>A	c.(1291-1293)TCT>TAT	p.S431Y	ADCY8_uc010mds.2_Missense_Mutation_p.S431Y	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	431	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CTCCTGAGCAGACAAGGTCGT	0.463										HNSCC(32;0.087)			7	72	---	---	---	---	PASS	T	131955658	T	T	131955658	3	4	58	1	0	0	0	0	1	0	0	0	300	942	33	2	2523	2	ADCY8	8	131955658	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	7296487	131955658	14408364	694	22069										
ADCY8	114	broad.mit.edu	37	chr8	132002665	132002665	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttggttctctgtctccaggcGcagcctggcctccacacacc	9	17	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:132002665G>T	uc003ytd.3	-	2	1340	c.1084C>A	c.(1084-1086)CGC>AGC	p.R362S	ADCY8_uc010mds.2_Missense_Mutation_p.R362S	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	362	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GTCTCCAGGCGCAGCCTGGCC	0.502										HNSCC(32;0.087)			51	225	---	---	---	---	PASS	T	132002665	T	T	132002665	3	4	58	1	0	0	0	0	1	0	0	0	300	1087	38	1	2739	1	ADCY8	8	132002665	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	47007	132002665	14361357	695	22070										
KCNQ3	3786	broad.mit.edu	37	chr8	133182664	133182664	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttggggttggtagcataataCctccaggcagcctgaggggc	15	9	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:133182664C>A	uc003ytj.2	-	8	1377	c.1152G>T	c.(1150-1152)AGG>AGT	p.R384S	KCNQ3_uc010mdt.2_Missense_Mutation_p.R384S	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	384					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			TAGCATAATACCTCCAGGCAG	0.502													17	74	---	---	---	---	PASS	A	133182664	A	A	133182664	3	1	58	1	0	0	0	0	1	0	0	0	8084	506	18	3	1498	3	KCNQ3	8	133182664	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1179999	133182664	13181358	696	22071										
TG	7038	broad.mit.edu	37	chr8	133961037	133961037	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcaggtgccatcatctgtggGttgctgagctcacccagtgt	12	11	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:133961037G>T	uc003ytw.2	+	27	5291	c.5250G>T	c.(5248-5250)GGG>GGT	p.G1750G	TG_uc010mdw.2_Silent_p.G509G|TG_uc011ljb.1_Silent_p.G119G	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1750	Type IIIB.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCATCTGTGGGTTGCTGAGCT	0.512													52	245	---	---	---	---	PASS	T	133961037	T	T	133961037	2	4	58	1	0	0	0	0	0	0	0	1	15810	1248	44	3		3	TG	8	133961037	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	778373	133961037	12402985	697	22072										
FAM135B	51059	broad.mit.edu	37	chr8	139144863	139144863	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagtagttgagtcctgccacCaagaaaaacttctccaggaa	8	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:139144863C>T	uc003yuy.2	-	20	4365	c.4194G>A	c.(4192-4194)TTG>TTA	p.L1398L	FAM135B_uc003yux.2_Silent_p.L1299L|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1398										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)			GTCCTGCCACCAAGAAAAACT	0.527										HNSCC(54;0.14)			15	271	---	---	---	---	PASS	T	139144863	T	T	139144863	2	4	58	1	0	0	0	0	0	0	0	1	5449	593	21	3		3	FAM135B	8	139144863	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	5183826	139144863	7219159	698	22073										
TRAPPC9	83696	broad.mit.edu	37	chr8	141034035	141034035	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcggcaggaagacatttaccTggttgctgggagggtgctga	17	7	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:141034035T>A	uc003yvj.2	-	18	2832	c.2698A>T	c.(2698-2700)AGT>TGT	p.S900C	TRAPPC9_uc003yvh.2_Missense_Mutation_p.S998C|TRAPPC9_uc010mel.1_Missense_Mutation_p.S321C|TRAPPC9_uc003yvi.1_Missense_Mutation_p.S891C	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	900					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						GACATTTACCTGGTTGCTGGG	0.517													32	149	---	---	---	---	PASS	A	141034035	A	A	141034035	3	1	58	1	0	0	0	0	1	0	0	0	16462	1594	55	5	772	5	TRAPPC9	8	141034035	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1889172	141034035	5329987	699	22074										
EIF2C2	27161	broad.mit.edu	37	chr8	141582932	141582932	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgtccctcccaatcggaagGggcatggctgtgtatagatt	12	9	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:141582932G>A	uc003yvn.2	-	3	355	c.315C>T	c.(313-315)CCC>CCT	p.P105P	EIF2C2_uc010men.2_Silent_p.P28P|EIF2C2_uc010meo.2_Silent_p.P105P	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	105					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			CAATCGGAAGGGGCATGGCTG	0.507													45	69	---	---	---	---	PASS	A	141582932	A	A	141582932	2	1	58	1	0	0	0	0	0	0	0	1	5006	1219	43	3		3	EIF2C2	8	141582932	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	548897	141582932	4781090	700	22075										
BAI1	575	broad.mit.edu	37	chr8	143559664	143559664	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acgggccttcctacgggggtGcggagtgccagggccactgg	18	12	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:143559664G>A	uc003ywm.2	+	6	1687	c.1504G>A	c.(1504-1506)GCG>ACG	p.A502T		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	502	Extracellular (Potential).|TSP type-1 4.				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CTACGGGGGTGCGGAGTGCCA	0.682													10	9	---	---	---	---	PASS	A	143559664	A	A	143559664	3	1	58	1	0	0	0	0	1	0	0	0	1298	1319	46	3	1526	3	BAI1	8	143559664	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1976732	143559664	2804358	701	22076										
BAI1	575	broad.mit.edu	37	chr8	143572166	143572166	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agacctgtatcctgtgggatGagacggatgtgtaagttcac	13	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:143572166G>A	uc003ywm.2	+	16	2848	c.2665G>A	c.(2665-2667)GAG>AAG	p.E889K		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	889	Extracellular (Potential).|GPS.				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CCTGTGGGATGAGACGGATGT	0.642													3	4	---	---	---	---	PASS	A	143572166	A	A	143572166	3	1	58	1	0	0	0	0	1	0	0	0	1298	1291	45	2	2727	2	BAI1	8	143572166	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	12502	143572166	2791856	702	22077										
ARC	23237	broad.mit.edu	37	chr8	143695373	143695373	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggccttgatggacttcttcCagcgctgcgagtcgctcgtg	13	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:143695373C>A	uc003ywn.1	-	1	461	c.260G>T	c.(259-261)TGG>TTG	p.W87L		NM_015193	NP_056008	Q7LC44	ARC_HUMAN	activity-regulated cytoskeleton-associated	87					endocytosis	acrosomal vesicle|cell junction|dendritic spine|endosome|postsynaptic density|postsynaptic membrane				breast(1)	1	all_cancers(97;3.55e-12)|all_epithelial(106;1.03e-08)|Lung NSC(106;0.000353)|all_lung(105;0.00092)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.0279)				GGACTTCTTCCAGCGCTGCGA	0.662													5	20	---	---	---	---	PASS	A	143695373	A	A	143695373	3	1	58	1	0	0	0	0	1	0	0	0	841	595	21	3	934	3	ARC	8	143695373	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	123207	143695373	2668649	703	22078										
CYP11B1	1584	broad.mit.edu	37	chr8	143960516	143960516	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagggctccaggctcatcctGtggggatgcaggctgtccac	14	13	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:143960516G>T	uc003yxi.2	-	2	334	c.327C>A	c.(325-327)CAC>CAA	p.H109Q	CYP11B1_uc003yxh.2_5'Flank|CYP11B1_uc003yxj.2_Missense_Mutation_p.H109Q|CYP11B1_uc010mey.2_Missense_Mutation_p.H154Q	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	109					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity	p.H109N(1)		ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	GGCTCATCCTGTGGGGATGCA	0.612									Familial_Hyperaldosteronism_type_I				14	67	---	---	---	---	PASS	T	143960516	T	T	143960516	3	4	58	1	0	0	0	0	1	0	0	0	4145	1368	48	3	1216	3	CYP11B1	8	143960516	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	265143	143960516	2403506	704	22079										
LY6H	4062	broad.mit.edu	37	chr8	144240339	144240339	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctggcaccacaggccatgaGctgggcagggcatggggagg	18	11	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:144240339G>T	uc011lka.1	-	3	234	c.68C>A	c.(67-69)GCT>GAT	p.A23D	LY6H_uc011lkb.1_Missense_Mutation_p.A44D|LY6H_uc003yxt.2_Missense_Mutation_p.A61D|LY6H_uc011lkc.1_Missense_Mutation_p.A44D	NM_002347	NP_002338	O94772	LY6H_HUMAN	lymphocyte antigen 6 complex, locus H isoform a	23					nervous system development|organ morphogenesis	anchored to membrane|plasma membrane					0	all_cancers(97;6.49e-11)|all_epithelial(106;2.77e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					CAGGCCATGAGCTGGGCAGGG	0.677													20	37	---	---	---	---	PASS	T	144240339	T	T	144240339	3	4	58	1	0	0	0	0	1	0	0	0	9097	985	34	3	362	3	LY6H	8	144240339	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	279823	144240339	2123683	705	22080										
MAFA	389692	broad.mit.edu	37	chr8	144511677	144511678	+	Frame_Shift_Ins	INS	-	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctctttggccaggcgccccINSacctccagcttcagctgctc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:144511677_144511678insA	uc003yyc.1	-	1	899_900	c.899_900insT	c.(898-900)GTGfs	p.V300fs		NM_201589	NP_963883	Q8NHW3	MAFA_HUMAN	v-maf musculoaponeurotic fibrosarcoma oncogene	300	Leucine-zipper.				insulin secretion|nitric oxide mediated signal transduction|response to glucose stimulus	nucleus	protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.237)			CCAGGCGCCCCACCTCCAGCTT	0.5										HNSCC(29;0.082)			42	23	---	---	---	---		A	144511678	A	A	144511677	7	5	58	1	0	1	1	0	0	0	0	0	9157	581	21	0	165	0	MAFA	8	144511677	Frame_Shift_Ins	INS	-	TCGA-33-4566-01A-01D-1441-08	271338	144511677	1852345	706	22081										
GSDMD	79792	broad.mit.edu	37	chr8	144644650	144644650	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgcagcacaagctgctggcgGaggcgctggagtcgcagacc	16	13	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:144644650G>T	uc010mfe.2	+	13	1874	c.1171G>T	c.(1171-1173)GAG>TAG	p.E391*	GSDMD_uc003yyf.2_Nonsense_Mutation_p.E439*|GSDMD_uc003yyg.2_Nonsense_Mutation_p.E391*|GSDMD_uc003yyh.2_Nonsense_Mutation_p.E322*	NM_024736	NP_079012	P57764	GSDMD_HUMAN	gasdermin D	391				SGMLVPELAIPVVYLLGALTMLSETQHKLLAEALESQTLLG PLELVGSLLEQSAPWQERSTMSLPPGLLGNSWGEGAPAWVL LDECGLELGEDTPHVCWEPQAQGRMCALYASLALLSGLSQE P -> PECWCRNSLSLLSTCWG (in Ref. 1; AAG22861).							0						GCTGCTGGCGGAGGCGCTGGA	0.647													3	20	---	---	---	---	PASS	T	144644650	T	T	144644650	4	4	58	1	0	0	0	0	0	1	0	0	6819	1175	41	2	1205	2	GSDMD	8	144644650	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	132973	144644650	1719372	707	22082										
EPPK1	83481	broad.mit.edu	37	chr8	144940678	144940678	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgcagcacgcccttccacatGgcctggtagatgctcatctt	9	15	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr8:144940678G>A	uc003zaa.1	-	2	14767	c.14754C>T	c.(14752-14754)GCC>GCT	p.A4918A		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	4918	Plectin 61.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCTTCCACATGGCCTGGTAGA	0.706													4	74	---	---	---	---	PASS	A	144940678	A	A	144940678	2	1	58	1	0	0	0	0	0	0	0	1	5190	1335	47	3		3	EPPK1	8	144940678	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	296028	144940678	1423344	708	22083										
DMRT2	10655	broad.mit.edu	37	chr9	1056414	1056414	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctgcccaaccgcatggtgcCtggacctgactacaattcct	8	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:1056414C>A	uc003zha.2	+	4	1027	c.827C>A	c.(826-828)CCT>CAT	p.P276H	DMRT2_uc003zgx.3_Missense_Mutation_p.P43H|DMRT2_uc010mgz.2_Missense_Mutation_p.P43H|DMRT2_uc003zgy.3_Missense_Mutation_p.P120H|DMRT2_uc003zhb.3_3'UTR|DMRT2_uc011llt.1_3'UTR|DMRT2_uc011llu.1_3'UTR|DMRT2_uc011llv.1_Missense_Mutation_p.P276H	NM_181872	NP_870987	Q9Y5R5	DMRT2_HUMAN	doublesex and mab-3 related transcription factor	276					male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0		all_lung(10;1.49e-09)|Lung NSC(10;1.86e-09)		Lung(218;0.0195)|GBM - Glioblastoma multiforme(50;0.0388)		CGCATGGTGCCTGGACCTGAC	0.468													92	64	---	---	---	---	PASS	A	1056414	A	A	1056414	3	1	58	1	0	0	0	0	1	0	0	0	4586	681	24	3	894	3	DMRT2	9	1056414	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08		1056414	140157017	709	22084										
RFX3	5991	broad.mit.edu	37	chr9	3277416	3277416	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgtctgttgaccacttccTgtgaaaccatctgcaacccc	6	16	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:3277416T>G	uc003zhr.2	-	9	1209	c.897A>C	c.(895-897)ACA>ACC	p.T299T	RFX3_uc010mhd.2_Silent_p.T299T|RFX3_uc003zhs.1_Silent_p.T299T|RFX3_uc003zht.1_Silent_p.T299T|RFX3_uc010mhe.1_Silent_p.T274T	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	299					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		GACCACTTCCTGTGAAACCAT	0.368													119	60	---	---	---	---	PASS	G	3277416	G	G	3277416	2	3	58	1	0	0	0	0	0	0	0	1	13264	1567	55	5		5	RFX3	9	3277416	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	2221002	3277416	137936015	710	22085										
TPD52L3	89882	broad.mit.edu	37	chr9	6329011	6329011	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcagggggcaaaagagcttGgccctgactgtctttcttct	11	11	4	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:6329011G>T	uc003zjw.2	+	1	637	c.416G>T	c.(415-417)TGG>TTG	p.W139L	TPD52L3_uc003zjv.2_Intron|TPD52L3_uc003zjx.1_Intron	NM_033516	NP_277051	Q96J77	TPD55_HUMAN	protein kinase NYD-SP25 isoform 1	139							protein binding				0		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0198)|Lung(218;0.1)		AAAAGAGCTTGGCCCTGACTG	0.547													50	30	---	---	---	---	PASS	T	6329011	T	T	6329011	3	4	58	1	0	0	0	0	1	0	0	0	16397	1357	47	3	418	3	TPD52L3	9	6329011	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3051595	6329011	134884420	711	22086										
KDM4C	23081	broad.mit.edu	37	chr9	7011847	7011847	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaggatgaagccacactgtGccatctgcactctgctcatg	9	14	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:7011847G>T	uc003zkh.2	+	13	2516	c.1936G>T	c.(1936-1938)GCC>TCC	p.A646S	KDM4C_uc010mhu.2_Missense_Mutation_p.A668S|KDM4C_uc011lmi.1_Missense_Mutation_p.A646S|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Missense_Mutation_p.A646S|KDM4C_uc011lmk.1_Missense_Mutation_p.A391S|KDM4C_uc011lml.1_Missense_Mutation_p.A333S	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	646					positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						GCCACACTGTGCCATCTGCAC	0.517													32	30	---	---	---	---	PASS	T	7011847	T	T	7011847	3	4	58	1	0	0	0	0	1	0	0	0	8130	1319	46	3	2052	3	KDM4C	9	7011847	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	682836	7011847	134201584	712	22087										
PTPRD	5789	broad.mit.edu	37	chr9	8497241	8497241	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaacagtcaaaaattactcaCatgttcagtagtatcatcaa	4	8	5	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:8497241C>A	uc003zkk.2	-	25	3060	c.2349_splice	c.e25+1	p.H783_splice	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Splice_Site_p.H770_splice|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		AAATTACTCACATGTTCAGTA	0.333										TSP Lung(15;0.13)			21	21	---	---	---	---	PASS	A	8497241	A	A	8497241	5	1	58	1	0	0	0	0	0	0	1	0	12799	492	17	3	3540	3	PTPRD	9	8497241	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	1485394	8497241	132716190	713	22088										
MPDZ	8777	broad.mit.edu	37	chr9	13107037	13107037	+	Frame_Shift_Del	DEL	C	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagcttcttcatgggtgactCcttctagactctgcccattg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:13107037delC	uc010mhy.2	-	45	6104	c.6053delG	c.(6052-6054)GGAfs	p.G2018fs	MPDZ_uc003zkx.3_Frame_Shift_Del_p.G242fs|MPDZ_uc003zky.3_Frame_Shift_Del_p.G581fs|MPDZ_uc010mib.2_Frame_Shift_Del_p.G752fs|MPDZ_uc010mhx.2_Frame_Shift_Del_p.G869fs|MPDZ_uc011lmm.1_Frame_Shift_Del_p.G906fs|MPDZ_uc003zkz.3_Frame_Shift_Del_p.G740fs|MPDZ_uc010mhz.2_Frame_Shift_Del_p.G2014fs|MPDZ_uc011lmn.1_Frame_Shift_Del_p.G1985fs|MPDZ_uc003zlb.3_Frame_Shift_Del_p.G2018fs	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	2047	PDZ 13.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		ATGGGTGACTCCTTCTAGACT	0.463													109	136	---	---	---	---		-	13107037	-	-	13107037	7	5	58	1	0	1	0	1	0	0	0	0	9722	855	30	0	76	0	MPDZ	9	13107037	Frame_Shift_Del	DEL	C	TCGA-33-4566-01A-01D-1441-08	4609796	13107037	128106394	714	22089										
NFIB	4781	broad.mit.edu	37	chr9	14307058	14307058	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	actgtgatatgatgtggctgGacacaaagtgctgggtttgt	14	5	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:14307058G>T	uc003zle.2	-	2	927	c.492C>A	c.(490-492)GTC>GTA	p.V164V	NFIB_uc003zlf.2_Silent_p.V164V|NFIB_uc011lmo.1_Silent_p.V164V	NM_005596	NP_005587	O00712	NFIB_HUMAN	nuclear factor I/B	164	CTF/NF-I.				anterior commissure morphogenesis|chondrocyte differentiation|Clara cell differentiation|commissural neuron axon guidance|DNA replication|glial cell differentiation|lung ciliated cell differentiation|negative regulation of DNA binding|negative regulation of epithelial cell proliferation involved in lung morphogenesis|negative regulation of mesenchymal cell proliferation involved in lung development|positive regulation of transcription from RNA polymerase II promoter|principal sensory nucleus of trigeminal nerve development|Type I pneumocyte differentiation|Type II pneumocyte differentiation	cerebellar mossy fiber|nucleolus|nucleus	RNA polymerase II transcription corepressor activity|sequence-specific DNA binding RNA polymerase II transcription factor activity				0				GBM - Glioblastoma multiforme(50;4.4e-08)|LUAD - Lung adenocarcinoma(58;0.119)|Lung(218;0.164)		GATGTGGCTGGACACAAAGTG	0.458			T	MYB|HGMA2	adenoid cystic carcinoma|lipoma								90	50	---	---	---	---	PASS	T	14307058	T	T	14307058	2	4	58	1	0	0	0	0	0	0	0	1	10371	1161	41	2		2	NFIB	9	14307058	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1200021	14307058	126906373	715	22090										
C9orf93	203238	broad.mit.edu	37	chr9	15848936	15848936	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgagagcagtagaaaatacGcttcacaaggtactgttatt	9	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:15848936G>T	uc003zmd.2	+	23	3774	c.3459G>T	c.(3457-3459)ACG>ACT	p.T1153T	C9orf93_uc003zme.2_Silent_p.T1068T|C9orf93_uc011lmu.1_Silent_p.T1161T|C9orf93_uc003zmf.1_Silent_p.T461T	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	1153											0				GBM - Glioblastoma multiforme(50;4.84e-07)		TAGAAAATACGCTTCACAAGG	0.294													22	20	---	---	---	---	PASS	T	15848936	T	T	15848936	2	4	58	1	0	0	0	0	0	0	0	1	2506	1074	38	1		1	C9orf93	9	15848936	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1541878	15848936	125364495	716	22091										
CNTLN	54875	broad.mit.edu	37	chr9	17487026	17487026	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgatgctgaaaatgacaagGaatggatgttgtacattcag	11	4	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:17487026G>T	uc003zmz.2	+	25	4104	c.4078G>T	c.(4078-4080)GAA>TAA	p.E1360*	CNTLN_uc003zmy.2_Nonsense_Mutation_p.E1361*|CNTLN_uc010mio.2_Nonsense_Mutation_p.E1040*	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	1361						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		AAATGACAAGGAATGGATGTT	0.274													44	44	---	---	---	---	PASS	T	17487026	T	T	17487026	4	4	58	1	0	0	0	0	0	1	0	0	3639	1175	41	2	4209	2	CNTLN	9	17487026	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1638090	17487026	123726405	717	22092										
FAM154A	158297	broad.mit.edu	37	chr9	18950896	18950896	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agacatggtttctctgttttAtcataaatcttggtagggag	10	5	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:18950896A>G	uc003zni.1	-	2	356	c.78T>C	c.(76-78)GAT>GAC	p.D26D	FAM154A_uc010mip.1_5'UTR	NM_153707	NP_714918	Q8IYX7	F154A_HUMAN	hypothetical protein LOC158297	26										pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.53e-16)		TCTCTGTTTTATCATAAATCT	0.443													113	71	---	---	---	---	PASS	G	18950896	G	G	18950896	2	3	58	1	0	0	0	0	0	0	0	1	5463	446	16	5		5	FAM154A	9	18950896	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	1463870	18950896	122262535	718	22093										
LINGO2	158038	broad.mit.edu	37	chr9	27950283	27950283	+	Frame_Shift_Del	DEL	G	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgtcaagcttagtgagattGgacagccccgtgaatactcc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:27950283delG	uc003zqu.1	-	2	581	c.387delC	c.(385-387)TCCfs	p.S129fs	LINGO2_uc010mjf.1_Frame_Shift_Del_p.S129fs|LINGO2_uc003zqv.1_Frame_Shift_Del_p.S129fs	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	129	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)		TAGTGAGATTGGACAGCCCCG	0.443													63	97	---	---	---	---		-	27950283	-	-	27950283	7	5	58	1	0	1	0	1	0	0	0	0	8815	1335	47	0	1437	0	LINGO2	9	27950283	Frame_Shift_Del	DEL	G	TCGA-33-4566-01A-01D-1441-08	8999387	27950283	113263148	719	22094										
TAF1L	138474	broad.mit.edu	37	chr9	32631522	32631522	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gattttctgcgaacctcatgCacattctcaattagctgttt	6	10	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:32631522C>A	uc003zrg.1	-	1	4146	c.4056G>T	c.(4054-4056)GTG>GTT	p.V1352V	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1352					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		GAACCTCATGCACATTCTCAA	0.408													228	133	---	---	---	---	PASS	A	32631522	A	A	32631522	2	1	58	1	0	0	0	0	0	0	0	1	15520	697	25	3		3	TAF1L	9	32631522	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	4681239	32631522	108581909	720	22095										
DNAI1	27019	broad.mit.edu	37	chr9	34493299	34493299	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaatcagggaagatggccatGaggaagctgacatctatgga	13	6	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:34493299G>T	uc003zum.2	+	9	982	c.789G>T	c.(787-789)ATG>ATT	p.M263I		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	263					cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)		AGATGGCCATGAGGAAGCTGA	0.478									Kartagener_syndrome				84	46	---	---	---	---	PASS	T	34493299	T	T	34493299	3	4	58	1	0	0	0	0	1	0	0	0	4609	1290	45	2	823	2	DNAI1	9	34493299	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1861777	34493299	106720132	721	22096										
PIGO	84720	broad.mit.edu	37	chr9	35091903	35091903	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	attcttggctcgaccacccaCcatggatgccagaggactca	9	14	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:35091903C>A	uc003zwd.2	-	7	2377	c.1981G>T	c.(1981-1983)GTG>TTG	p.V661L	PIGO_uc003zwc.1_3'UTR|PIGO_uc003zwe.2_Intron|PIGO_uc003zwf.2_Intron|PIGO_uc003zwg.1_Missense_Mutation_p.V224L	NM_032634	NP_116023	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	661					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	transferase activity			large_intestine(1)|ovary(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			CGACCACCCACCATGGATGCC	0.557													54	32	---	---	---	---	PASS	A	35091903	A	A	35091903	3	1	58	1	0	0	0	0	1	0	0	0	11894	507	18	3	1308	3	PIGO	9	35091903	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	598604	35091903	106121528	722	22097										
TRPM3	80036	broad.mit.edu	37	chr9	73235224	73235224	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggatcatccaagtcaatgtCcacctcttcttcacgtttct	5	13	6	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:73235224C>G	uc004aid.2	-	15	2105	c.1861G>C	c.(1861-1863)GAC>CAC	p.D621H	TRPM3_uc004ahu.2_Missense_Mutation_p.D451H|TRPM3_uc004ahv.2_Missense_Mutation_p.D423H|TRPM3_uc004ahw.2_Missense_Mutation_p.D493H|TRPM3_uc004ahx.2_Missense_Mutation_p.D480H|TRPM3_uc004ahy.2_Missense_Mutation_p.D483H|TRPM3_uc004ahz.2_Missense_Mutation_p.D470H|TRPM3_uc004aia.2_Missense_Mutation_p.D468H|TRPM3_uc004aib.2_Missense_Mutation_p.D458H|TRPM3_uc004aic.2_Missense_Mutation_p.D621H	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	646	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						AAGTCAATGTCCACCTCTTCT	0.468													56	195	---	---	---	---	PASS	G	73235224	G	G	73235224	3	3	58	1	0	0	0	0	1	0	0	0	16584	855	30	2	3306	2	TRPM3	9	73235224	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	38143321	73235224	67978207	723	22098										
GDA	9615	broad.mit.edu	37	chr9	74828854	74828854	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtttgcatggatttgaatgaCacttttccagaatacaagga	9	6	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:74828854C>A	uc004aiq.2	+	5	708	c.525C>A	c.(523-525)GAC>GAA	p.D175E	GDA_uc011lse.1_Missense_Mutation_p.D101E|GDA_uc011lsf.1_Missense_Mutation_p.D101E|GDA_uc004air.2_Missense_Mutation_p.D175E|GDA_uc010mow.1_RNA|GDA_uc004ais.2_Missense_Mutation_p.D133E|GDA_uc004ait.1_Missense_Mutation_p.D101E	NM_004293	NP_004284	Q9Y2T3	GUAD_HUMAN	guanine deaminase	175					nervous system development|purine base metabolic process|purine nucleotide catabolic process	cytosol	guanine deaminase activity|zinc ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		ATTTGAATGACACTTTTCCAG	0.388													18	60	---	---	---	---	PASS	A	74828854	A	A	74828854	3	1	58	1	0	0	0	0	1	0	0	0	6306	477	17	3	543	3	GDA	9	74828854	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1593630	74828854	66384577	724	22099										
ZFAND5	7763	broad.mit.edu	37	chr9	74970881	74970881	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaagtaatttatattctctgAattttttcagccacaacaac	4	8	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:74970881A>T	uc004aiv.2	-	6	908	c.630T>A	c.(628-630)ATT>ATA	p.I210I	ZFAND5_uc010mox.1_Silent_p.I107I|ZFAND5_uc010moy.1_Silent_p.I210I|ZFAND5_uc004aix.2_Silent_p.I210I|ZFAND5_uc004aiw.2_Silent_p.I210I|ZFAND5_uc004aiy.2_Silent_p.I210I	NM_006007	NP_005998	O76080	ZFAN5_HUMAN	zinc finger, AN1-type domain 5	210							DNA binding|zinc ion binding				0						ATATTCTCTGAATTTTTTCAG	0.343													15	58	---	---	---	---	PASS	T	74970881	T	T	74970881	2	4	58	1	0	0	0	0	0	0	0	1	17627	242	9	5		5	ZFAND5	9	74970881	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	142027	74970881	66242550	725	22100										
TRPM6	140803	broad.mit.edu	37	chr9	77442862	77442862	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagagtctggtacaggcacaCcacctgagagacagcaagga	12	11	1	3	rs139476357		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:77442862C>A	uc004ajl.1	-	7	911	c.673G>T	c.(673-675)GTG>TTG	p.V225L	TRPM6_uc004ajk.1_Missense_Mutation_p.V220L|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.V225L|TRPM6_uc010mpd.1_Missense_Mutation_p.V225L|TRPM6_uc010mpe.1_Missense_Mutation_p.V225L|TRPM6_uc004ajn.1_Missense_Mutation_p.V225L	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	225	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						TACAGGCACACCACCTGAGAG	0.532													12	46	---	---	---	---	PASS	A	77442862	A	A	77442862	3	1	58	1	0	0	0	0	1	0	0	0	16587	507	18	3	5527	3	TRPM6	9	77442862	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2471981	77442862	63770569	726	22101										
C9orf40	55071	broad.mit.edu	37	chr9	77563085	77563085	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaggcaaaggattcctccagTactggaaggtattatactgc	11	8	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:77563085T>A	uc004ajo.3	-	2	739	c.464A>T	c.(463-465)TAC>TTC	p.Y155F		NM_017998	NP_060468	Q8IXQ3	CI040_HUMAN	hypothetical protein LOC55071	155											0						ATTCCTCCAGTACTGGAAGGT	0.388													27	87	---	---	---	---	PASS	A	77563085	A	A	77563085	3	1	58	1	0	0	0	0	1	0	0	0	2481	1638	57	5	124	5	C9orf40	9	77563085	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	120223	77563085	63650346	727	22102										
PRUNE2	158471	broad.mit.edu	37	chr9	79320494	79320494	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgagttacaaaaatgctagtTgccacattttcaatccttgg	7	8	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:79320494T>G	uc010mpk.2	-	8	6820	c.6696A>C	c.(6694-6696)GCA>GCC	p.A2232A	PRUNE2_uc004akj.3_5'Flank|PRUNE2_uc010mpl.1_5'Flank	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	2232					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						AAATGCTAGTTGCCACATTTT	0.443													20	59	---	---	---	---	PASS	G	79320494	G	G	79320494	2	3	58	1	0	0	0	0	0	0	0	1	12641	1799	63	5		5	PRUNE2	9	79320494	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	1757409	79320494	61892937	728	22103										
TLE4	7091	broad.mit.edu	37	chr9	82323695	82323695	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctgctgcctatgggagatcAccagtggtgcgtttgtgagc	15	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:82323695A>T	uc004ald.2	+	14	2181	c.1332A>T	c.(1330-1332)TCA>TCT	p.S444S	TLE4_uc004alc.2_Silent_p.S419S|TLE4_uc010mpr.2_Silent_p.S298S|TLE4_uc004ale.2_Silent_p.S56S|TLE4_uc011lsq.1_Silent_p.S387S|TLE4_uc010mps.2_Silent_p.S343S|TLE4_uc004alf.2_Silent_p.S358S	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						ATGGGAGATCACCAGTGGTGC	0.363													6	14	---	---	---	---	PASS	T	82323695	T	T	82323695	2	4	58	1	0	0	0	0	0	0	0	1	15938	146	6	5		5	TLE4	9	82323695	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	3003201	82323695	58889736	729	22104										
FLJ46321	389763	broad.mit.edu	37	chr9	84608354	84608354	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgatcgtcctcaccctgtctCctcacctgtcgtccaagaag	7	16	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:84608354C>A	uc004amn.2	+	4	3016	c.2969C>A	c.(2968-2970)TCC>TAC	p.S990Y		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	990						integral to membrane					0						CACCCTGTCTCCTCACCTGTC	0.502													66	184	---	---	---	---	PASS	A	84608354	A	A	84608354	3	1	58	1	0	0	0	0	1	0	0	0	5932	855	30	2	2983	2	FLJ46321	9	84608354	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2284659	84608354	56605077	730	22105										
KIF27	55582	broad.mit.edu	37	chr9	86503502	86503502	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctgaatccatgaacgacttCtacatcttaaaaaaaaatca	3	9	4	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:86503502C>A	uc004ana.2	-	8	2129	c.1985G>T	c.(1984-1986)AGA>ATA	p.R662I	KIF27_uc010mpw.2_Missense_Mutation_p.R662I|KIF27_uc010mpx.2_Missense_Mutation_p.R662I	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	662					cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						TGAACGACTTCTACATCTTAA	0.338													16	46	---	---	---	---	PASS	A	86503502	A	A	86503502	3	1	58	1	0	0	0	0	1	0	0	0	8296	913	32	2	2264	2	KIF27	9	86503502	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1895148	86503502	54709929	731	22106										
SLC28A3	64078	broad.mit.edu	37	chr9	86893173	86893173	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cattgcagttaaaggtcgatGgattcaacaatgtgcagcag	11	7	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:86893173G>A	uc010mpz.2	-	18	2161	c.2036C>T	c.(2035-2037)CCA>CTA	p.P679L	SLC28A3_uc011lsy.1_Missense_Mutation_p.P610L|SLC28A3_uc004anu.1_Missense_Mutation_p.P679L	NM_022127	NP_071410	Q9HAS3	S28A3_HUMAN	concentrative Na+-nucleoside cotransporter	679	Extracellular (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to membrane|plasma membrane	nucleoside binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|skin(1)	4						AAAGGTCGATGGATTCAACAA	0.463													14	37	---	---	---	---	PASS	A	86893173	A	A	86893173	3	1	58	1	0	0	0	0	1	0	0	0	14533	1348	47	3	43	3	SLC28A3	9	86893173	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	389671	86893173	54320258	732	22107										
NXNL2	158046	broad.mit.edu	37	chr9	91150625	91150625	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgcatggcgcctggctggcGctgcccttccacgaccccta	11	18	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:91150625G>C	uc011ltj.1	+	1	610	c.276G>C	c.(274-276)GCG>GCC	p.A92A	NXNL2_uc004aqa.2_Silent_p.A92A	NM_001161625	NP_001155097	Q5VZ03	NXNL2_HUMAN	nucleoredoxin-like 2 isoform 1	92	Thioredoxin.										0						CCTGGCTGGCGCTGCCCTTCC	0.622													5	24	---	---	---	---	PASS	C	91150625	C	C	91150625	2	2	58	1	0	0	0	0	0	0	0	1	10789	1074	38	4		4	NXNL2	9	91150625	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	4257452	91150625	50062806	733	22108										
ROR2	4920	broad.mit.edu	37	chr9	94495406	94495406	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggccctcgggcactcacagCggcccagcctctcggctggg	15	17	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:94495406C>A	uc004arj.1	-	6	1134	c.935G>T	c.(934-936)CGC>CTC	p.R312L	ROR2_uc004ari.1_Missense_Mutation_p.R172L|ROR2_uc004ark.2_Missense_Mutation_p.R312L	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	312	Extracellular (Potential).				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						GCACTCACAGCGGCCCAGCCT	0.687													3	4	---	---	---	---	PASS	A	94495406	A	A	94495406	3	1	58	1	0	0	0	0	1	0	0	0	13527	768	27	1	1912	1	ROR2	9	94495406	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3344781	94495406	46718025	734	22109										
CENPP	401541	broad.mit.edu	37	chr9	95099822	95099822	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atttgtttttctgctttacaGgtattagaaaagttctacag	7	5	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:95099822G>T	uc004arz.2	+	3	830	c.290_splice	c.e3-1	p.S97_splice	CENPP_uc010mqx.2_Splice_Site|CENPP_uc004ary.1_Splice_Site_p.S97_splice	NM_001012267	NP_001012267	Q6IPU0	CENPP_HUMAN	centromere protein P						CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	chromosome, centromeric region|cytosol|nucleoplasm				ovary(2)	2						CTGCTTTACAGGTATTAGAAA	0.289													41	122	---	---	---	---	PASS	T	95099822	T	T	95099822	5	4	58	1	0	0	0	0	0	0	1	0	3240	1014	35	3	299	3	CENPP	9	95099822	Splice_Site	SNP	G	TCGA-33-4566-01A-01D-1441-08	604416	95099822	46113609	735	22110										
CDC14B	8555	broad.mit.edu	37	chr9	99285911	99285911	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcccaatcaccgagccaggtCtgcagatcctgacccacgca	9	17	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:99285911C>T	uc004awj.2	-	10	1495	c.1043G>A	c.(1042-1044)AGA>AAA	p.R348K	CDC14B_uc004awk.2_Missense_Mutation_p.R348K|CDC14B_uc004awl.2_RNA|CDC14B_uc004awi.2_Missense_Mutation_p.R311K	NM_033331	NP_201588	O60729	CC14B_HUMAN	CDC14 homolog B isoform 2	348	B.				activation of anaphase-promoting complex activity|DNA repair|G2/M transition DNA damage checkpoint	nucleolus|nucleoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				CGAGCCAGGTCTGCAGATCCT	0.542													26	109	---	---	---	---	PASS	T	99285911	T	T	99285911	3	4	58	1	0	0	0	0	1	0	0	0	3057	913	32	2	473	2	CDC14B	9	99285911	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4186089	99285911	41927520	736	22111										
HEMGN	55363	broad.mit.edu	37	chr9	100692380	100692380	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttaggatcctggccttgggGcccacctgtttcttggtgtg	13	10	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:100692380G>T	uc004axy.2	-	3	1405	c.1297C>A	c.(1297-1299)CCC>ACC	p.P433T	HEMGN_uc004axz.2_Missense_Mutation_p.P433T	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	433					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TGGCCTTGGGGCCCACCTGTT	0.463													71	279	---	---	---	---	PASS	T	100692380	T	T	100692380	3	4	58	1	0	0	0	0	1	0	0	0	7050	1203	42	3	165	3	HEMGN	9	100692380	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1406469	100692380	40521051	737	22112										
COL15A1	1306	broad.mit.edu	37	chr9	101747923	101747923	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcgtccgtatcctttgtcacAggctatggtggcttcccggc	11	13	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:101747923A>T	uc004azb.1	+	3	383	c.177A>T	c.(175-177)ACA>ACT	p.T59T	COL15A1_uc004aza.2_Silent_p.T59T	NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	59	TSP N-terminal.				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				CCTTTGTCACAGGCTATGGTG	0.622													21	24	---	---	---	---	PASS	T	101747923	T	T	101747923	2	4	58	1	0	0	0	0	0	0	0	1	3672	175	7	5		5	COL15A1	9	101747923	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	1055543	101747923	39465508	738	22113										
COL15A1	1306	broad.mit.edu	37	chr9	101777769	101777769	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtccctcagtacttttgaggAtgaggaagccagtggggtcc	14	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:101777769A>T	uc004azb.1	+	10	1630	c.1424A>T	c.(1423-1425)GAT>GTT	p.D475V		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	475	3.|Nonhelical region 1 (NC1).|4 X tandem repeats.				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				ACTTTTGAGGATGAGGAAGCC	0.547													28	30	---	---	---	---	PASS	T	101777769	T	T	101777769	3	4	58	1	0	0	0	0	1	0	0	0	3672	333	12	5	1462	5	COL15A1	9	101777769	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	29846	101777769	39435662	739	22114										
COL15A1	1306	broad.mit.edu	37	chr9	101829241	101829241	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcttcaagcaggccagagcTgcaggactgttgtccaccta	11	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:101829241T>A	uc004azb.1	+	40	3935	c.3729T>A	c.(3727-3729)GCT>GCA	p.A1243A		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1243	Nonhelical region 10 (NC10).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				AGGCCAGAGCTGCAGGACTGT	0.473													65	83	---	---	---	---	PASS	A	101829241	A	A	101829241	2	1	58	1	0	0	0	0	0	0	0	1	3672	1567	55	5		5	COL15A1	9	101829241	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	51472	101829241	39384190	740	22115										
NR4A3	8013	broad.mit.edu	37	chr9	102609735	102609735	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaggtcaaacactgctgaaGataagtttgtgttctgcaat	9	8	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:102609735G>C	uc004baf.1	+	7	2200	c.1471G>C	c.(1471-1473)GAT>CAT	p.D491H	NR4A3_uc004bag.1_Missense_Mutation_p.D491H|NR4A3_uc004bai.2_Missense_Mutation_p.D502H	NM_006981	NP_008912	Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	491					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		EWSR1/NR4A3(140)|TAF15/NR4A3(33)	bone(173)	173		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				CACTGCTGAAGATAAGTTTGT	0.428			T	EWSR1	extraskeletal myxoid chondrosarcoma								68	122	---	---	---	---	PASS	C	102609735	C	C	102609735	3	2	58	1	0	0	0	0	1	0	0	0	10634	942	33	2	1604	2	NR4A3	9	102609735	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	780494	102609735	38603696	741	22116										
GRIN3A	116443	broad.mit.edu	37	chr9	104432717	104432717	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgggagctgctgtatctcgGgtcctcactaagatgcccaa	11	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:104432717G>A	uc004bbp.1	-	3	2578	c.1977C>T	c.(1975-1977)ACC>ACT	p.T659T	GRIN3A_uc004bbq.1_Silent_p.T659T	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	659	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding	p.T659N(1)		ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	CTGTATCTCGGGTCCTCACTA	0.527													58	74	---	---	---	---	PASS	A	104432717	A	A	104432717	2	1	58	1	0	0	0	0	0	0	0	1	6783	1219	43	3		3	GRIN3A	9	104432717	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1822982	104432717	36780714	742	22117										
CYLC2	1539	broad.mit.edu	37	chr9	105767109	105767109	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctctcaaaccaactcgtactGtcgaggtggattctaaagca	8	11	2	0	rs143843968		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:105767109G>T	uc004bbs.2	+	4	383	c.313G>T	c.(313-315)GTC>TTC	p.V105F		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	105	31 X 3 AA repeats of K-K-X.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				AACTCGTACTGTCGAGGTGGA	0.363													34	47	---	---	---	---	PASS	T	105767109	T	T	105767109	3	4	58	1	0	0	0	0	1	0	0	0	4142	1377	48	3	327	3	CYLC2	9	105767109	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1334392	105767109	35446322	743	22118										
OR13F1	138805	broad.mit.edu	37	chr9	107266977	107266977	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagaacctgtgtgcagattgCagctggctcctggatgacag	14	9	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:107266977C>A	uc011lvm.1	+	1	434	c.434C>A	c.(433-435)GCA>GAA	p.A145E		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						GTGCAGATTGCAGCTGGCTCC	0.507													44	51	---	---	---	---	PASS	A	107266977	A	A	107266977	3	1	58	1	0	0	0	0	1	0	0	0	10941	710	25	3	436	3	OR13F1	9	107266977	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1499868	107266977	33946454	744	22119										
ABCA1	19	broad.mit.edu	37	chr9	107576438	107576438	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atttggatcagcagcatcatCttcagtgaacgggcgaagac	11	9	4	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:107576438C>A	uc004bcl.2	-	27	4175	c.3862G>T	c.(3862-3864)GAT>TAT	p.D1288Y		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1288					Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GCAGCATCATCTTCAGTGAAC	0.488													19	92	---	---	---	---	PASS	A	107576438	A	A	107576438	3	1	58	1	0	0	0	0	1	0	0	0	28	913	32	2	3019	2	ABCA1	9	107576438	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	309461	107576438	33636993	745	22120										
C9orf4	23732	broad.mit.edu	37	chr9	111899755	111899755	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttagggggttcccatcaataGgtagaaggtcagagcaacaa	12	7	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:111899755G>T	uc004bdw.1	-	5	1015	c.1015C>A	c.(1015-1017)CTA>ATA	p.L339I		NM_014334	NP_055149	Q9P0K9	CI004_HUMAN	hypothetical protein LOC23732	339	Helical; (Potential).					integral to membrane					0						CCCATCAATAGGTAGAAGGTC	0.373													29	130	---	---	---	---	PASS	T	111899755	T	T	111899755	3	4	58	1	0	0	0	0	1	0	0	0	2480	991	35	3	23	3	C9orf4	9	111899755	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	4323317	111899755	29313676	746	22121										
SVEP1	79987	broad.mit.edu	37	chr9	113170526	113170526	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ataggcaaggccttgcacatCaatgattccattggggattt	10	8	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:113170526C>T	uc010mtz.2	-	38	7691	c.7354G>A	c.(7354-7356)GAT>AAT	p.D2452N	SVEP1_uc010mty.2_Missense_Mutation_p.D378N	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	2452	Sushi 18.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						CCTTGCACATCAATGATTCCA	0.502													26	54	---	---	---	---	PASS	T	113170526	T	T	113170526	3	4	58	1	0	0	0	0	1	0	0	0	15417	826	29	2	3405	2	SVEP1	9	113170526	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1270771	113170526	28042905	747	22122										
SVEP1	79987	broad.mit.edu	37	chr9	113192679	113192679	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacctactgtataaatctcaCctgaggagtggccattttcc	7	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:113192679C>A	uc010mtz.2	-	33	5742	c.5405G>T	c.(5404-5406)GGT>GTT	p.G1802V	SVEP1_uc010mty.2_5'Flank	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1802	Sushi 7.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						ATAAATCTCACCTGAGGAGTG	0.428													15	32	---	---	---	---	PASS	A	113192679	A	A	113192679	3	1	58	1	0	0	0	0	1	0	0	0	15417	507	18	3	5374	3	SVEP1	9	113192679	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	22153	113192679	28020752	748	22123										
SVEP1	79987	broad.mit.edu	37	chr9	113194802	113194802	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtacagaacatccttgagtCacccaatagatagtagccat	7	10	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:113194802C>A	uc010mtz.2	-	31	5510	c.5173G>T	c.(5173-5175)GAC>TAC	p.D1725Y		NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1725	Sushi 6.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						ATCCTTGAGTCACCCAATAGA	0.463													61	97	---	---	---	---	PASS	A	113194802	A	A	113194802	3	1	58	1	0	0	0	0	1	0	0	0	15417	826	29	2	5614	2	SVEP1	9	113194802	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2123	113194802	28018629	749	22124										
ZNF483	158399	broad.mit.edu	37	chr9	114289897	114289897	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagctctgagtcaactctgGgagctctgcaatcagtggct	11	10	5	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:114289897G>A	uc004bff.2	+	2	446	c.222G>A	c.(220-222)TGG>TGA	p.W74*	ZNF483_uc011lwq.1_Nonsense_Mutation_p.W74*|ZNF483_uc004bfg.2_Nonsense_Mutation_p.W74*|ZNF483_uc010mud.1_Nonsense_Mutation_p.W74*	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	74	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						GTCAACTCTGGGAGCTCTGCA	0.473													43	103	---	---	---	---	PASS	A	114289897	A	A	114289897	4	1	58	1	0	0	0	0	0	1	0	0	17933	1241	43	3	224	3	ZNF483	9	114289897	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1095095	114289897	26923534	750	22125										
SLC46A2	57864	broad.mit.edu	37	chr9	115652195	115652195	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtccaactgatcaggatccAgagtgcggtatgtgccaacc	12	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:115652195A>G	uc004bgk.2	-	1	999	c.767T>C	c.(766-768)CTG>CCG	p.L256P		NM_033051	NP_149040	Q9BY10	TSCOT_HUMAN	solute carrier family 46, member 2	256	Cytoplasmic (Potential).					integral to membrane|plasma membrane	symporter activity			central_nervous_system(1)	1						ATCAGGATCCAGAGTGCGGTA	0.562													22	71	---	---	---	---	PASS	G	115652195	G	G	115652195	3	3	58	1	0	0	0	0	1	0	0	0	14645	188	7	5	676	5	SLC46A2	9	115652195	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1362298	115652195	25561236	751	22126										
ZFP37	7539	broad.mit.edu	37	chr9	115806140	115806140	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tatgggatgaactatgacagCataatttgtcatgttttttg	9	4	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:115806140C>A	uc004bgm.1	-	4	786	c.758G>T	c.(757-759)TGC>TTC	p.C253F	ZFP37_uc011lwz.1_Missense_Mutation_p.C268F|ZFP37_uc011lxa.1_Missense_Mutation_p.C254F	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	253						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						ACTATGACAGCATAATTTGTC	0.363													103	215	---	---	---	---	PASS	A	115806140	A	A	115806140	3	1	58	1	0	0	0	0	1	0	0	0	17645	710	25	3	1138	3	ZFP37	9	115806140	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	153945	115806140	25407291	752	22127										
DFNB31	25861	broad.mit.edu	37	chr9	117228590	117228590	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagagcctgggtccacgccaGtgatgtaaatgccaaggccg	13	12	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:117228590G>A	uc004biz.3	-	3	1569	c.920C>T	c.(919-921)ACT>ATT	p.T307I	DFNB31_uc004biy.3_5'UTR|DFNB31_uc004bja.3_Missense_Mutation_p.T307I	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	307	PDZ 2.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						GTCCACGCCAGTGATGTAAAT	0.617													65	83	---	---	---	---	PASS	A	117228590	A	A	117228590	3	1	58	1	0	0	0	0	1	0	0	0	4455	1029	36	3	1843	3	DFNB31	9	117228590	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1422450	117228590	23984841	753	22128										
ASTN2	23245	broad.mit.edu	37	chr9	120053605	120053605	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacatccccccatcactcacCatcacagaaatgtggaggat	6	15	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:120053605C>A	uc004bjs.1	-	2	731	c.630G>T	c.(628-630)ATG>ATT	p.M210I	ASTN2_uc004bjr.1_Missense_Mutation_p.M210I|ASTN2_uc004bjt.1_Missense_Mutation_p.M210I	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	210	Helical; (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CATCACTCACCATCACAGAAA	0.622													11	46	---	---	---	---	PASS	A	120053605	A	A	120053605	3	1	58	1	0	0	0	0	1	0	0	0	1065	608	21	3	3552	3	ASTN2	9	120053605	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2825015	120053605	21159826	754	22129										
PTGS1	5742	broad.mit.edu	37	chr9	125148949	125148949	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agttcttgttcaacacctccAtgttggtggactatggggtt	11	8	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:125148949A>T	uc004bmg.1	+	9	1369	c.1234A>T	c.(1234-1236)ATG>TTG	p.M412L	PTGS1_uc011lys.1_Intron|PTGS1_uc010mwb.1_Intron|PTGS1_uc004bmf.1_Intron|PTGS1_uc004bmh.1_Missense_Mutation_p.M303L|PTGS1_uc011lyt.1_Missense_Mutation_p.M303L	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	412					cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	CAACACCTCCATGTTGGTGGA	0.493													34	133	---	---	---	---	PASS	T	125148949	T	T	125148949	3	4	58	1	0	0	0	0	1	0	0	0	12755	217	8	5	1268	5	PTGS1	9	125148949	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	5095344	125148949	16064482	755	22130										
OR1J2	26740	broad.mit.edu	37	chr9	125273890	125273890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtaagcagttctattgacaaGgatgtcattgtggctctcat	10	7	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:125273890G>T	uc004bmj.1	+	4	1665	c.810G>T	c.(808-810)AAG>AAT	p.K270N	OR1J2_uc011lyv.1_Missense_Mutation_p.K270N	NM_054107	NP_473448	Q8NGS2	OR1J2_HUMAN	olfactory receptor, family 1, subfamily J,	270	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|pancreas(1)|breast(1)	5						CTATTGACAAGGATGTCATTG	0.478													59	246	---	---	---	---	PASS	T	125273890	T	T	125273890	3	4	58	1	0	0	0	0	1	0	0	0	10960	991	35	3	812	3	OR1J2	9	125273890	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	124941	125273890	15939541	756	22131										
OR1L8	138881	broad.mit.edu	37	chr9	125330086	125330086	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agggaatcttgagaactgtaGtgaggattcgtatataagag	13	3	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:125330086G>T	uc004bmp.1	-	1	671	c.671C>A	c.(670-672)ACT>AAT	p.T224N		NM_001004454	NP_001004454	Q8NGR8	OR1L8_HUMAN	olfactory receptor, family 1, subfamily L,	224	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3						GAGAACTGTAGTGAGGATTCG	0.423													11	40	---	---	---	---	PASS	T	125330086	T	T	125330086	3	4	58	1	0	0	0	0	1	0	0	0	10967	1029	36	3	262	3	OR1L8	9	125330086	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	56196	125330086	15883345	757	22132										
COQ4	51117	broad.mit.edu	37	chr9	131087483	131087483	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgaaggtcctcagggaccaGatgaggagggatccagaggg	17	8	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:131087483G>A	uc004bur.3	+	3	611	c.264G>A	c.(262-264)CAG>CAA	p.Q88Q	TRUB2_uc004buq.1_5'Flank|COQ4_uc011max.1_Silent_p.Q88Q|COQ4_uc004bus.2_Silent_p.Q64Q|COQ4_uc010mxy.2_Silent_p.Q64Q	NM_016035	NP_057119	Q9Y3A0	COQ4_HUMAN	coenzyme Q4 homolog precursor	88					ubiquinone biosynthetic process	mitochondrial inner membrane					0						TCAGGGACCAGATGAGGAGGG	0.557													12	57	---	---	---	---	PASS	A	131087483	A	A	131087483	2	1	58	1	0	0	0	0	0	0	0	1	3747	933	33	2		2	COQ4	9	131087483	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	5757397	131087483	10125948	758	22133										
COQ4	51117	broad.mit.edu	37	chr9	131094561	131094561	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatgcccaccaacatcctgGgtgagtgcccccaaccctga	10	16	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:131094561G>T	uc004bur.3	+	5	879	c.532G>T	c.(532-534)GGG>TGG	p.G178W	COQ4_uc004bus.2_Missense_Mutation_p.G154W|COQ4_uc010mxy.2_Missense_Mutation_p.G154W	NM_016035	NP_057119	Q9Y3A0	COQ4_HUMAN	coenzyme Q4 homolog precursor	178					ubiquinone biosynthetic process	mitochondrial inner membrane					0						CAACATCCTGGGTGAGTGCCC	0.622													13	28	---	---	---	---	PASS	T	131094561	T	T	131094561	3	4	58	1	0	0	0	0	1	0	0	0	3747	1246	43	3	550	3	COQ4	9	131094561	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	7078	131094561	10118870	759	22134										
NUP214	8021	broad.mit.edu	37	chr9	134106048	134106048	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcagcaacaccacatccttcGgcacgctcgcgagtcagaat	9	15	1	1	rs142328071		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:134106048G>T	uc004cag.2	+	34	6217	c.6106G>T	c.(6106-6108)GGC>TGC	p.G2036C	NUP214_uc004cah.2_Missense_Mutation_p.G2026C|NUP214_uc004cai.2_Missense_Mutation_p.G1466C|NUP214_uc010mzg.2_RNA|NUP214_uc011mcg.1_Missense_Mutation_p.G862C	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	2036	Pro/Ser/Thr-rich.|11 X 3 AA approximate repeats.|11 X 5 AA approximate repeats.|18 X 4 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		CACATCCTTCGGCACGCTCGC	0.567			T	DEK|SET|ABL1	AML|T-ALL								37	62	---	---	---	---	PASS	T	134106048	T	T	134106048	3	4	58	1	0	0	0	0	1	0	0	0	10762	1116	39	1	6240	1	NUP214	9	134106048	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3011487	134106048	7107383	760	22135										
PPAPDC3	84814	broad.mit.edu	37	chr9	134165440	134165440	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccgcaacaacgtcctcaaccGggctgagttcctgtccctga	9	16	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:134165440G>T	uc004cal.2	+	1	360	c.56G>T	c.(55-57)CGG>CTG	p.R19L		NM_032728	NP_116117	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain	19	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	hydrolase activity			breast(1)	1	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		GTCCTCAACCGGGCTGAGTTC	0.711													12	23	---	---	---	---	PASS	T	134165440	T	T	134165440	3	4	58	1	0	0	0	0	1	0	0	0	12296	1116	39	1	58	1	PPAPDC3	9	134165440	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	59392	134165440	7047991	761	22136										
PPAPDC3	84814	broad.mit.edu	37	chr9	134183627	134183627	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agttccgtctggtggagctgGtctggatgccctccagcacc	13	13	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:134183627G>T	uc004cal.2	+	2	1073	c.769G>T	c.(769-771)GTC>TTC	p.V257F		NM_032728	NP_116117	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain	257	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	hydrolase activity			breast(1)	1	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		GGTGGAGCTGGTCTGGATGCC	0.667													3	15	---	---	---	---	PASS	T	134183627	T	T	134183627	3	4	58	1	0	0	0	0	1	0	0	0	12296	1261	44	3	775	3	PPAPDC3	9	134183627	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	18187	134183627	7029804	762	22137										
POMT1	10585	broad.mit.edu	37	chr9	134396836	134396836	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtacctgctccgacggcgaaGaaatgtccatgacctccctc	9	15	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:134396836G>A	uc004cav.2	+	18	2070	c.1868G>A	c.(1867-1869)AGA>AAA	p.R623K	POMT1_uc004cax.2_Missense_Mutation_p.R601K|POMT1_uc011mcj.1_Missense_Mutation_p.R341K|POMT1_uc004cau.2_Missense_Mutation_p.R601K|POMT1_uc004caw.2_Missense_Mutation_p.R547K|POMT1_uc011mck.1_Missense_Mutation_p.R484K|POMT1_uc011mcl.1_Missense_Mutation_p.R449K|POMT1_uc011mcm.1_Missense_Mutation_p.R571K	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	623					multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		CGACGGCGAAGAAATGTCCAT	0.413													14	83	---	---	---	---	PASS	A	134396836	A	A	134396836	3	1	58	1	0	0	0	0	1	0	0	0	12245	942	33	2	1934	2	POMT1	9	134396836	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	213209	134396836	6816595	763	22138										
GFI1B	8328	broad.mit.edu	37	chr9	135862794	135862794	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accagaacttggccaggatgGccccggcaccaggtaccccg	12	16	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:135862794G>T	uc004ccg.2	+	3	377	c.226G>T	c.(226-228)GCC>TCC	p.A76S	GFI1B_uc010mzy.2_Missense_Mutation_p.A76S	NM_004188	NP_004179	Q5VTD9	GFI1B_HUMAN	growth factor independent 1B transcription	76					cell proliferation|chromatin modification|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;9.04e-07)|Epithelial(140;1.17e-05)		GGCCAGGATGGCCCCGGCACC	0.627													27	48	---	---	---	---	PASS	T	135862794	T	T	135862794	3	4	58	1	0	0	0	0	1	0	0	0	6340	1203	42	3	232	3	GFI1B	9	135862794	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1465958	135862794	5350637	764	22139										
GTF3C5	9328	broad.mit.edu	37	chr9	135906463	135906463	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgtggagctgaggcgggagcGacgcatggtgtgcgtggagt	21	7	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:135906463G>A	uc004cci.3	+	1	402	c.65G>A	c.(64-66)CGA>CAA	p.R22Q	GTF3C5_uc010mzz.2_5'UTR|GTF3C5_uc004ccj.3_Missense_Mutation_p.R22Q	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	22						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		AGGCGGGAGCGACGCATGGTG	0.721													6	15	---	---	---	---	PASS	A	135906463	A	A	135906463	3	1	58	1	0	0	0	0	1	0	0	0	6876	1058	37	2	67	2	GTF3C5	9	135906463	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	43669	135906463	5306968	765	22140										
ADAMTS13	11093	broad.mit.edu	37	chr9	136304491	136304491	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttttcttctttctagaataTgtcacatttctgacagttac	4	9	5	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:136304491T>A	uc004cdv.3	+	15	2154	c.1710T>A	c.(1708-1710)TAT>TAA	p.Y570*	ADAMTS13_uc004cdp.3_5'UTR|ADAMTS13_uc004cdt.1_Nonsense_Mutation_p.Y570*|ADAMTS13_uc004cdu.1_Nonsense_Mutation_p.Y539*|ADAMTS13_uc004cdw.3_Nonsense_Mutation_p.Y570*|ADAMTS13_uc004cdx.3_Nonsense_Mutation_p.Y539*|ADAMTS13_uc004cdy.1_RNA|ADAMTS13_uc004cdz.3_Nonsense_Mutation_p.Y240*|ADAMTS13_uc004cds.1_Nonsense_Mutation_p.Y95*|ADAMTS13_uc004cdr.1_RNA	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	570	Spacer.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		TTCTAGAATATGTCACATTTC	0.488													33	152	---	---	---	---	PASS	A	136304491	A	A	136304491	4	1	58	1	0	0	0	0	0	1	0	0	258	1471	51	5	1768	5	ADAMTS13	9	136304491	Nonsense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	398028	136304491	4908940	766	22141										
COL5A1	1289	broad.mit.edu	37	chr9	137593147	137593147	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcaatggcatcatcgtgtttGgcacccggatcctggatgag	12	10	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:137593147G>A	uc004cfe.2	+	4	1004	c.622G>A	c.(622-624)GGC>AGC	p.G208S		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	208	TSP N-terminal.|Laminin G-like.				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)		CATCGTGTTTGGCACCCGGAT	0.557													5	34	---	---	---	---	PASS	A	137593147	A	A	137593147	3	1	58	1	0	0	0	0	1	0	0	0	3696	1348	47	3	636	3	COL5A1	9	137593147	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1288656	137593147	3620284	767	22142										
C9orf172	389813	broad.mit.edu	37	chr9	139741707	139741707	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccacggaccggcgcaccggCcgccccttcatgtgcatgat	11	18	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:139741707C>G	uc011meh.1	+	1	2841	c.2841C>G	c.(2839-2841)GGC>GGG	p.G947G	PHPT1_uc004cjp.2_5'Flank|PHPT1_uc011mei.1_5'Flank|PHPT1_uc004cjq.3_5'Flank	NM_001080482	NP_001073951	C9J069	CI172_HUMAN	chromosome 9 open reading frame 172	947											0						GGCGCACCGGCCGCCCCTTCA	0.662													7	12	---	---	---	---	PASS	G	139741707	G	G	139741707	2	3	58	1	0	0	0	0	0	0	0	1	2471	726	26	4		4	C9orf172	9	139741707	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2148560	139741707	1471724	768	22143										
ABCA2	20	broad.mit.edu	37	chr9	139909925	139909925	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaggcggtacccgtcgccaTaggtgcccttgaggaagagc	15	11	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:139909925T>C	uc011mem.1	-	23	3783	c.3635A>G	c.(3634-3636)TAT>TGT	p.Y1212C	ABCA2_uc011mel.1_Missense_Mutation_p.Y1213C|ABCA2_uc004ckl.1_Missense_Mutation_p.Y1143C|ABCA2_uc004ckm.1_Missense_Mutation_p.Y1243C|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1212	ABC transporter 1.				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CCCGTCGCCATAGGTGCCCTT	0.657													7	6	---	---	---	---	PASS	C	139909925	C	C	139909925	3	2	58	1	0	0	0	0	1	0	0	0	32	1406	49	5	3776	5	ABCA2	9	139909925	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	168218	139909925	1303506	769	22144										
NDOR1	27158	broad.mit.edu	37	chr9	140100357	140100357	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtgcaggccctggactcctAcccggtggtgagggctcgct	16	13	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:140100357A>G	uc004clw.2	+	1	239	c.128A>G	c.(127-129)TAC>TGC	p.Y43C	TMEM203_uc004clv.2_5'Flank|NDOR1_uc004clx.2_Missense_Mutation_p.Y43C|NDOR1_uc011mes.1_Missense_Mutation_p.Y43C|NDOR1_uc004cly.2_Missense_Mutation_p.Y43C	NM_014434	NP_055249	Q9UHB4	NDOR1_HUMAN	NADPH dependent diflavin oxidoreductase 1	43	Flavodoxin-like.				cell death	cytosol|intermediate filament cytoskeleton|nucleus|perinuclear region of cytoplasm	flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding|oxidoreductase activity|protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		CTGGACTCCTACCCGGTGGTG	0.711													3	19	---	---	---	---	PASS	G	140100357	G	G	140100357	3	3	58	1	0	0	0	0	1	0	0	0	10249	391	14	5	130	5	NDOR1	9	140100357	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	190432	140100357	1113074	770	22145										
CACNA1B	774	broad.mit.edu	37	chr9	140846807	140846807	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctccttcttcatgctcaacCtggtgctgggcgtgctctcg	11	14	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:140846807C>A	uc004cog.2	+	7	1193	c.1048C>A	c.(1048-1050)CTG>ATG	p.L350M		NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	350	Helical; Name=S6 of repeat I; (Potential).|I.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	CATGCTCAACCTGGTGCTGGG	0.587													32	47	---	---	---	---	PASS	A	140846807	A	A	140846807	3	1	58	1	0	0	0	0	1	0	0	0	2539	680	24	3	1074	3	CACNA1B	9	140846807	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	746450	140846807	366624	771	22146										
CACNA1B	774	broad.mit.edu	37	chr9	140991014	140991014	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttccatcctaggtcctcacCacttggatgagttcatccgg	8	14	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr9:140991014C>A	uc004cog.2	+	36	5318	c.5173C>A	c.(5173-5175)CAC>AAC	p.H1725N	CACNA1B_uc004coi.2_Missense_Mutation_p.H937N|CACNA1B_uc004cok.1_RNA|CACNA1B_uc010ncp.1_Intron	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	1725	EF-hand.|Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	AGGTCCTCACCACTTGGATGA	0.552													17	99	---	---	---	---	PASS	A	140991014	A	A	140991014	3	1	58	1	0	0	0	0	1	0	0	0	2539	594	21	3	5315	3	CACNA1B	9	140991014	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	144207	140991014	222417	772	22147										
ADARB2	105	broad.mit.edu	37	chr10	1405856	1405856	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accggggcatgcaccgggccCgtctgcgacactgtccggta	14	15	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:1405856C>A	uc009xhq.2	-	3	818	c.444G>T	c.(442-444)ACG>ACT	p.T148T		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	148	DRBM 1.				mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		GCACCGGGCCCGTCTGCGACA	0.677													16	17	---	---	---	---	PASS	A	1405856	A	A	1405856	2	1	58	1	0	0	0	0	0	0	0	1	283	639	23	1		1	ADARB2	10	1405856	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08		1405856	134128891	773	22148										
ADARB2	105	broad.mit.edu	37	chr10	1421339	1421339	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaggagcgaggaaggttgaCaatatgcttactttatctgg	12	5	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:1421339C>A	uc009xhq.2	-	2	491	c.117G>T	c.(115-117)TTG>TTT	p.L39F		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	39					mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		GGAAGGTTGACAATATGCTTA	0.428													11	52	---	---	---	---	PASS	A	1421339	A	A	1421339	3	1	58	1	0	0	0	0	1	0	0	0	283	477	17	3	2138	3	ADARB2	10	1421339	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	15483	1421339	134113408	774	22149										
PRKCQ	5588	broad.mit.edu	37	chr10	6506291	6506291	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttacgtcgctctggaaaggtCgaacttgtggcagctttgga	13	8	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:6506291C>A	uc001ijj.1	-	13	1504	c.1429G>T	c.(1429-1431)GAC>TAC	p.D477Y	PRKCQ_uc009xim.1_Missense_Mutation_p.D477Y|PRKCQ_uc001iji.1_Missense_Mutation_p.D510Y|PRKCQ_uc009xin.1_Missense_Mutation_p.D441Y|PRKCQ_uc010qax.1_Missense_Mutation_p.D352Y	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	477	Protein kinase.				axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						CTGGAAAGGTCGAACTTGTGG	0.428													151	230	---	---	---	---	PASS	A	6506291	A	A	6506291	3	1	58	1	0	0	0	0	1	0	0	0	12515	884	31	2	715	2	PRKCQ	10	6506291	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5084952	6506291	129028456	775	22150										
ITIH5	80760	broad.mit.edu	37	chr10	7608323	7608323	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtgcgctgtttcttgtggcCatttggaggggcgggtgccc	17	9	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:7608323C>A	uc001ijq.2	-	13	2276	c.2197G>T	c.(2197-2199)GGC>TGC	p.G733C	ITIH5_uc001ijp.2_Missense_Mutation_p.G519C	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	733					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						TTCTTGTGGCCATTTGGAGGG	0.458													18	22	---	---	---	---	PASS	A	7608323	A	A	7608323	3	1	58	1	0	0	0	0	1	0	0	0	7907	594	21	3	681	3	ITIH5	10	7608323	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1102032	7608323	127926424	776	22151										
GATA3	2625	broad.mit.edu	37	chr10	8097818	8097818	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccgccctactacggaaactCggtcagggccacggtgcaga	12	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:8097818C>A	uc001ika.2	+	2	757	c.200C>A	c.(199-201)TCG>TAG	p.S67*	FLJ45983_uc010qbe.1_5'Flank|FLJ45983_uc001ijx.1_5'Flank|FLJ45983_uc010qbf.1_5'Flank|FLJ45983_uc010qbg.1_5'Flank|FLJ45983_uc001ijy.1_5'Flank|GATA3_uc001ijz.2_Nonsense_Mutation_p.S67*	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	67					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						TACGGAAACTCGGTCAGGGCC	0.687			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						3	5	---	---	---	---	PASS	A	8097818	A	A	8097818	4	1	58	1	0	0	0	0	0	1	0	0	6255	893	31	2	202	2	GATA3	10	8097818	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	489495	8097818	127436929	777	22152										
CDNF	441549	broad.mit.edu	37	chr10	14867509	14867509	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcacagatctggctatccaaCttcttcagcttctcacaaat	4	13	5	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:14867509C>A	uc001inb.1	-	3	392	c.354G>T	c.(352-354)AAG>AAT	p.K118N	CDNF_uc010qbv.1_Missense_Mutation_p.K118N|CDNF_uc001inc.1_Missense_Mutation_p.K9N	NM_001029954	NP_001025125	Q49AH0	CDNF_HUMAN	arginine-rich, mutated in early stage	118						extracellular region	growth factor activity				0						GGCTATCCAACTTCTTCAGCT	0.468													81	115	---	---	---	---	PASS	A	14867509	A	A	14867509	3	1	58	1	0	0	0	0	1	0	0	0	3168	564	20	3	217	3	CDNF	10	14867509	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	6769691	14867509	120667238	778	22153										
FAM171A1	221061	broad.mit.edu	37	chr10	15296871	15296871	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaatgaacgcgaggctgtggCcgggcacctgcagagattaa	14	9	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:15296871C>A	uc001iob.2	-	4	433	c.426G>T	c.(424-426)CGG>CGT	p.R142R		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	142	Extracellular (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						GAGGCTGTGGCCGGGCACCTG	0.542													9	30	---	---	---	---	PASS	A	15296871	A	A	15296871	2	1	58	1	0	0	0	0	0	0	0	1	5490	726	26	3		3	FAM171A1	10	15296871	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	429362	15296871	120237876	779	22154										
CUBN	8029	broad.mit.edu	37	chr10	16893320	16893320	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaggtgaattactttgtttaCaggtgcaattatgatccata	9	5	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:16893320C>A	uc001ioo.2	-	60	9629	c.9577G>T	c.(9577-9579)GTA>TTA	p.V3193L	CUBN_uc009xjq.1_RNA	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3193	CUB 24.				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)	ACTTTGTTTACAGGTGCAATT	0.373													28	99	---	---	---	---	PASS	A	16893320	A	A	16893320	3	1	58	1	0	0	0	0	1	0	0	0	4051	478	17	3	1326	3	CUBN	10	16893320	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1596449	16893320	118641427	780	22155										
CUBN	8029	broad.mit.edu	37	chr10	16930512	16930512	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttgttgtcatattgttttgGgtaatttggagaaatgatgt	12	1	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:16930512G>T	uc001ioo.2	-	56	8861	c.8809C>A	c.(8809-8811)CCA>ACA	p.P2937T	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Missense_Mutation_p.P293T	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2937	CUB 22.				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)	TATTGTTTTGGGTAATTTGGA	0.388													30	148	---	---	---	---	PASS	T	16930512	T	T	16930512	3	4	58	1	0	0	0	0	1	0	0	0	4051	1232	43	3	2110	3	CUBN	10	16930512	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	37192	16930512	118604235	781	22156										
MYO3A	53904	broad.mit.edu	37	chr10	26446322	26446322	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaccaaatagtgagcgtcaGgcaagaaaatatgacaaaga	9	6	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:26446322G>T	uc001isn.2	+	26	3237	c.2877G>T	c.(2875-2877)CAG>CAT	p.Q959H	MYO3A_uc009xko.1_Missense_Mutation_p.Q959H|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	959	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GTGAGCGTCAGGCAAGAAAAT	0.413													56	94	---	---	---	---	PASS	T	26446322	T	T	26446322	3	4	58	1	0	0	0	0	1	0	0	0	10076	991	35	3	2971	3	MYO3A	10	26446322	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	9515810	26446322	109088425	782	22157										
APBB1IP	54518	broad.mit.edu	37	chr10	26830589	26830589	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcagcataaaatgaaatatAaagcgcccactgactattgc	6	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:26830589A>T	uc001iss.2	+	11	1444	c.1123A>T	c.(1123-1125)AAA>TAA	p.K375*	APBB1IP_uc009xks.1_Nonsense_Mutation_p.K375*	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	375	PH.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						AATGAAATATAAAGCGCCCAC	0.303													14	59	---	---	---	---	PASS	T	26830589	T	T	26830589	4	4	58	1	0	0	0	0	0	1	0	0	760	363	13	5	1157	5	APBB1IP	10	26830589	Nonsense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	384267	26830589	108704158	783	22158										
PTCHD3	374308	broad.mit.edu	37	chr10	27702954	27702954	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtccagcatcgacggccgggGgggtgcatcgtccccctctg	15	15	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:27702954G>A	uc001itu.2	-	1	344	c.226C>T	c.(226-228)CCC>TCC	p.P76S		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	76					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GACGGCCGGGGGGGTGCATCG	0.721													10	52	---	---	---	---	PASS	A	27702954	A	A	27702954	3	1	58	1	0	0	0	0	1	0	0	0	12734	1232	43	3	2093	3	PTCHD3	10	27702954	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	872365	27702954	107831793	784	22159										
C10orf10	11067	broad.mit.edu	37	chr10	45473174	45473174	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagccagtccagggggtccAcagtatcagccatgggcagt	13	11	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:45473174A>G	uc001jbr.3	-	2	595	c.305T>C	c.(304-306)GTG>GCG	p.V102A	RASSF4_uc001jbo.2_Intron|RASSF4_uc001jbp.2_Intron|RASSF4_uc009xmn.2_Intron|RASSF4_uc001jbq.2_Intron	NM_007021	NP_008952	Q9NTK1	DEPP_HUMAN	fasting-induced protein	102						mitochondrion					0						CAGGGGGTCCACAGTATCAGC	0.657													26	48	---	---	---	---	PASS	G	45473174	G	G	45473174	3	3	58	1	0	0	0	0	1	0	0	0	1580	159	6	5	337	5	C10orf10	10	45473174	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	17770220	45473174	90061573	785	22160										
GDF10	2662	broad.mit.edu	37	chr10	48429028	48429028	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcgcggctcggcgcacgcgGgggtccgctgagttgttggg	20	11	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:48429028G>T	uc001jfb.2	-	2	1314	c.858C>A	c.(856-858)CCC>CCA	p.P286P	GDF10_uc009xnp.2_Silent_p.P285P|GDF10_uc009xnq.1_Silent_p.P286P	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	286					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						GGCGCACGCGGGGGTCCGCTG	0.721													7	4	---	---	---	---	PASS	T	48429028	T	T	48429028	2	4	58	1	0	0	0	0	0	0	0	1	6311	1219	43	3		3	GDF10	10	48429028	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	2955854	48429028	87105719	786	22161										
C10orf71	118461	broad.mit.edu	37	chr10	50530616	50530616	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcaaggaaataagaagtgcaCagacgcgttcagcgactcct	11	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:50530616C>A	uc010qgp.1	+	3	365	c.26C>A	c.(25-27)ACA>AAA	p.T9K		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	9											0						AAGAAGTGCACAGACGCGTTC	0.532													7	17	---	---	---	---	PASS	A	50530616	A	A	50530616	3	1	58	1	0	0	0	0	1	0	0	0	1614	478	17	3	28	3	C10orf71	10	50530616	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2101588	50530616	85004131	787	22162										
PCDH15	65217	broad.mit.edu	37	chr10	55780053	55780053	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcttcttggtctggaaatgCctcataatctaaactcctta	6	10	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:55780053C>G	uc001jju.1	-	20	3045	c.2650G>C	c.(2650-2652)GCA>CCA	p.A884P	PCDH15_uc010qhq.1_Missense_Mutation_p.A889P|PCDH15_uc010qhr.1_Missense_Mutation_p.A884P|PCDH15_uc010qhs.1_Missense_Mutation_p.A896P|PCDH15_uc010qht.1_Missense_Mutation_p.A891P|PCDH15_uc010qhu.1_Missense_Mutation_p.A884P|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.A884P|PCDH15_uc010qhw.1_Missense_Mutation_p.A847P|PCDH15_uc010qhx.1_Missense_Mutation_p.A813P|PCDH15_uc010qhy.1_Missense_Mutation_p.A889P|PCDH15_uc010qhz.1_Missense_Mutation_p.A884P|PCDH15_uc010qia.1_Missense_Mutation_p.A862P|PCDH15_uc010qib.1_Missense_Mutation_p.A862P|PCDH15_uc001jjw.2_Missense_Mutation_p.A884P	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	884	Extracellular (Potential).|Cadherin 8.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TCTGGAAATGCCTCATAATCT	0.393										HNSCC(58;0.16)			46	210	---	---	---	---	PASS	G	55780053	G	G	55780053	3	3	58	1	0	0	0	0	1	0	0	0	11511	739	26	4	4892	4	PCDH15	10	55780053	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5249437	55780053	79754694	788	22163										
PCDH15	65217	broad.mit.edu	37	chr10	56287599	56287599	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	actttcttcatcaatagcaaCtatggtagctggtggtcctc	8	10	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:56287599C>T	uc001jju.1	-	3	525	c.130G>A	c.(130-132)GTT>ATT	p.V44I	PCDH15_uc010qhq.1_Missense_Mutation_p.V49I|PCDH15_uc010qhr.1_Missense_Mutation_p.V44I|PCDH15_uc010qhs.1_Missense_Mutation_p.V49I|PCDH15_uc010qht.1_Missense_Mutation_p.V44I|PCDH15_uc010qhu.1_Missense_Mutation_p.V44I|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.V44I|PCDH15_uc010qhw.1_Missense_Mutation_p.V44I|PCDH15_uc010qhx.1_Missense_Mutation_p.V44I|PCDH15_uc010qhy.1_Missense_Mutation_p.V49I|PCDH15_uc010qhz.1_Missense_Mutation_p.V44I|PCDH15_uc010qia.1_Intron|PCDH15_uc010qib.1_Intron|PCDH15_uc001jjw.2_Missense_Mutation_p.V44I	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	44	Cadherin 1.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TCAATAGCAACTATGGTAGCT	0.348										HNSCC(58;0.16)			25	119	---	---	---	---	PASS	T	56287599	T	T	56287599	3	4	58	1	0	0	0	0	1	0	0	0	11511	565	20	3	7505	3	PCDH15	10	56287599	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	507546	56287599	79247148	789	22164										
BICC1	80114	broad.mit.edu	37	chr10	60556226	60556226	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccccagcatcctgccctgccGgcctggcatgtcccagcctg	10	20	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:60556226G>T	uc001jki.1	+	10	1306	c.1306G>T	c.(1306-1308)GGC>TGC	p.G436C	BICC1_uc001jkj.1_Missense_Mutation_p.G77C	NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	436					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						CTGCCCTGCCGGCCTGGCATG	0.502													34	62	---	---	---	---	PASS	T	60556226	T	T	60556226	3	4	58	1	0	0	0	0	1	0	0	0	1427	1116	39	1	1344	1	BICC1	10	60556226	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	4268627	60556226	74978521	790	22165										
ZNF365	22891	broad.mit.edu	37	chr10	64159503	64159503	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgcaaaggcaacatcaggccCaaaatggctaaaaaaaagcc	8	11	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:64159503C>T	uc001jly.3	+	5	1286	c.1224C>T	c.(1222-1224)CCC>CCT	p.P408P	ZNF365_uc001jmb.3_Intron|ZNF365_uc001jmc.2_Intron|ZNF365_uc001jlz.3_Silent_p.P393P|ZNF365_uc001jma.3_RNA	NM_014951	NP_055766	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform A	Error:Variant_position_missing_in_Q70YC4_after_alignment										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					ACATCAGGCCCAAAATGGCTA	0.527													25	40	---	---	---	---	PASS	T	64159503	T	T	64159503	2	4	58	1	0	0	0	0	0	0	0	1	17866	581	21	3		3	ZNF365	10	64159503	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	3603277	64159503	71375244	791	22166										
TET1	80312	broad.mit.edu	37	chr10	70412277	70412277	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtatggtcaaaaaggaaacGcaataaggatagaaatagta	11	3	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:70412277G>T	uc001jok.3	+	6	4892	c.4387G>T	c.(4387-4389)GCA>TCA	p.A1463S		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1463					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						AAAAGGAAACGCAATAAGGAT	0.358													40	63	---	---	---	---	PASS	T	70412277	T	T	70412277	3	4	58	1	0	0	0	0	1	0	0	0	15766	1087	38	1	4405	1	TET1	10	70412277	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6252774	70412277	65122470	792	22167										
PRF1	5551	broad.mit.edu	37	chr10	72358511	72358511	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acccaggctgagtactgctcGggcccggcctggatcccgaa	13	15	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:72358511G>T	uc009xqg.2	-	3	1127	c.966C>A	c.(964-966)CCC>CCA	p.P322P	PRF1_uc001jrf.3_Silent_p.P322P	NM_001083116	NP_001076585	P14222	PERF_HUMAN	perforin 1 precursor	322	MACPF.				apoptosis|cellular defense response|cytolysis|defense response to tumor cell|defense response to virus|immune response to tumor cell|protein homooligomerization	cytolytic granule|endosome lumen|extracellular region|integral to membrane|plasma membrane	calcium ion binding|protein binding|wide pore channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						AGTACTGCTCGGGCCCGGCCT	0.662			M			various leukaemia|lymphoma	Type 2 familial hemophagocytic lymphohistiocytosis		Familial_Hemophagocytic_Lymphohistiocytosis				46	59	---	---	---	---	PASS	T	72358511	T	T	72358511	2	4	58	1	0	0	0	0	0	0	0	1	12478	1103	39	1		1	PRF1	10	72358511	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1946234	72358511	63176236	793	22168										
CDH23	64072	broad.mit.edu	37	chr10	73464784	73464784	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agcggcgtggtggtcaccacCaccgagctggaccgcgagcg	16	14	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:73464784C>A	uc001jrx.3	+	24	3227	c.2850C>A	c.(2848-2850)ACC>ACA	p.T950T	CDH23_uc001jry.2_Silent_p.T566T|CDH23_uc001jrz.2_Silent_p.T566T	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	950	Cadherin 9.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						TGGTCACCACCACCGAGCTGG	0.667													38	95	---	---	---	---	PASS	A	73464784	A	A	73464784	2	1	58	1	0	0	0	0	0	0	0	1	3108	581	21	3		3	CDH23	10	73464784	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1106273	73464784	62069963	794	22169										
MYST4	23522	broad.mit.edu	37	chr10	76603051	76603051	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcacaagcaccaccaacaacCcagcctttcagcagcggctg	7	17	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:76603051C>A	uc001jwn.1	+	3	929	c.436C>A	c.(436-438)CCA>ACA	p.P146T	MYST4_uc001jwm.1_Missense_Mutation_p.P146T|MYST4_uc001jwo.1_Missense_Mutation_p.P146T|MYST4_uc001jwp.1_Missense_Mutation_p.P146T	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	146	H15.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					CACCAACAACCCAGCCTTTCA	0.517			T	CREBBP	AML								63	59	---	---	---	---	PASS	A	76603051	A	A	76603051	3	1	58	1	0	0	0	0	1	0	0	0	10105	623	22	3	438	3	MYST4	10	76603051	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3138267	76603051	58931696	795	22170										
KCNMA1	3778	broad.mit.edu	37	chr10	78943265	78943265	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agttcacttccagccagaacCacaatttatcgttggctgca	7	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:78943265C>T	uc001jxn.2	-	5	899	c.722G>A	c.(721-723)TGG>TAG	p.W241*	KCNMA1_uc001jxj.2_Nonsense_Mutation_p.W241*|KCNMA1_uc001jxk.1_5'UTR|KCNMA1_uc009xrt.1_Nonsense_Mutation_p.W61*|KCNMA1_uc001jxo.2_Nonsense_Mutation_p.W241*|KCNMA1_uc001jxm.2_Nonsense_Mutation_p.W241*|KCNMA1_uc001jxq.2_Nonsense_Mutation_p.W241*	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	241	Helical; Name=Segment S3; (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	CAGCCAGAACCACAATTTATC	0.438													22	50	---	---	---	---	PASS	T	78943265	T	T	78943265	4	4	58	1	0	0	0	0	0	1	0	0	8073	595	21	3	3256	3	KCNMA1	10	78943265	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2340214	78943265	56591482	796	22171										
C10orf58	84293	broad.mit.edu	37	chr10	82185667	82185667	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagcatgttggaccagctgGgcgtccccctctatgcagtg	12	12	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:82185667G>T	uc001kcc.3	+	4	476	c.316G>T	c.(316-318)GGC>TGC	p.G106C	C10orf58_uc001kcd.3_Missense_Mutation_p.G95C|C10orf58_uc001kce.3_Missense_Mutation_p.G106C|C10orf58_uc001kcf.3_Missense_Mutation_p.G106C	NM_032333	NP_115709	Q9BRX8	CJ058_HUMAN	hypothetical protein LOC84293 precursor	106						extracellular region					0			Colorectal(32;0.229)			GGACCAGCTGGGCGTCCCCCT	0.522													34	130	---	---	---	---	PASS	T	82185667	T	T	82185667	3	4	58	1	0	0	0	0	1	0	0	0	1610	1232	43	3	326	3	C10orf58	10	82185667	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3242402	82185667	53349080	797	22172										
SH2D4B	387694	broad.mit.edu	37	chr10	82369182	82369182	+	Splice_Site	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cactttctttctcttcagcaGgacctgggagcgcccgctgc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:82369182G>T	uc001kck.1	+	6	1291	c.861_splice	c.e6-1	p.R287_splice	SH2D4B_uc001kcl.1_Missense_Mutation_p.R239M|SH2D4B_uc001kcm.1_Missense_Mutation_p.R34M	NM_207372	NP_997255	Q5SQS7	SH24B_HUMAN	SH2 domain containing 4B isoform 1												0			Colorectal(32;0.229)			CTCTTCAGCAGGACCTGGGAG	0.483													27	91	---	---	---	---	PASS	T	82369182	T	T	82369182	5	4	58	1	0	0	0	0	0	0	1	0	14236	1014	35	3	926	3	SH2D4B	10	82369182	Splice_Site	SNP	G	TCGA-33-4566-01A-01D-1441-08	183515	82369182	53165565	798	22173	495	2								
SH2D4B	387694	broad.mit.edu	37	chr10	82369183	82369183	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	actttctttctcttcagcagGacctgggagcgcccgctgcg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:82369183G>T	uc001kck.1	+	6	1291	c.861G>T	c.(859-861)AGG>AGT	p.R287S	SH2D4B_uc001kcl.1_Missense_Mutation_p.R239S|SH2D4B_uc001kcm.1_Missense_Mutation_p.R34S	NM_207372	NP_997255	Q5SQS7	SH24B_HUMAN	SH2 domain containing 4B isoform 1	286											0			Colorectal(32;0.229)			TCTTCAGCAGGACCTGGGAGC	0.483													28	91	---	---	---	---	PASS	T	82369183	T	T	82369183	3	4	58	1	0	0	0	0	1	0	0	0	14236	1188	41	2	927	2	SH2D4B	10	82369183	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1	82369183	53165564	799	22174	495	2								
GRID1	2894	broad.mit.edu	37	chr10	88123739	88123739	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggttgttggcctcgatgaccTtgatggagtaggtgatcttc	14	7	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:88123739T>A	uc001kdl.1	-	2	295	c.194A>T	c.(193-195)AAG>ATG	p.K65M	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	65	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CTCGATGACCTTGATGGAGTA	0.612										Multiple Myeloma(13;0.14)			21	87	---	---	---	---	PASS	A	88123739	A	A	88123739	3	1	58	1	0	0	0	0	1	0	0	0	6771	1609	56	5	2895	5	GRID1	10	88123739	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	5754556	88123739	47411008	800	22175										
OPN4	94233	broad.mit.edu	37	chr10	88423458	88423458	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagctgtgtggggagctgccCagcaagcaaatgggcggtcc	16	11	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:88423458C>T	uc001kdq.2	+	9	1524	c.1297C>T	c.(1297-1299)CAG>TAG	p.Q433*	OPN4_uc001kdp.2_Nonsense_Mutation_p.Q444*|OPN4_uc010qmk.1_Nonsense_Mutation_p.Q444*|OPN4_uc009xsx.1_Nonsense_Mutation_p.Q103*	NM_033282	NP_150598	Q9UHM6	OPN4_HUMAN	opsin 4 isoform 1	433	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|rhythmic process|visual perception	integral to membrane|plasma membrane	11-cis retinal binding|G-protein coupled photoreceptor activity			ovary(1)	1						GGGAGCTGCCCAGCAAGCAAA	0.617													8	11	---	---	---	---	PASS	T	88423458	T	T	88423458	4	4	58	1	0	0	0	0	0	1	0	0	10882	595	21	3	1368	3	OPN4	10	88423458	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	299719	88423458	47111289	801	22176										
FAM22A	728118	broad.mit.edu	37	chr10	88988233	88988233	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgcggcccgagtggggccgGggcttccaacgtctttgtcc	15	14	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:88988233G>C	uc001kek.2	+	2	979	c.596G>C	c.(595-597)GGG>GCG	p.G199A	LOC728190_uc009xtc.2_Intron|LOC728190_uc009xtd.2_Intron	NM_001099338	NP_001092808	Q8IVF1	FA22A_HUMAN	hypothetical protein LOC728118	199											0						AGTGGGGCCGGGGCTTCCAAC	0.662													5	91	---	---	---	---	PASS	C	88988233	C	C	88988233	3	2	58	1	0	0	0	0	1	0	0	0	5543	1232	43	4	602	4	FAM22A	10	88988233	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	564775	88988233	46546514	802	22177										
KIF11	3832	broad.mit.edu	37	chr10	94381142	94381142	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acaacattcctcttgtgtagGagtatacggaggagatagaa	11	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:94381142G>C	uc001kic.2	+	10	1437	c.1129G>C	c.(1129-1131)GAG>CAG	p.E377Q	KIF11_uc010qnq.1_Intron	NM_004523	NP_004514	P52732	KIF11_HUMAN	kinesin family member 11	377	Potential.				blood coagulation|cell division|microtubule-based movement|spindle assembly involved in mitosis	chromatin remodeling complex|cytosol|kinesin complex|microtubule|spindle pole	ATP binding|microtubule motor activity|protein kinase binding			skin(1)	1						TCTTGTGTAGGAGTATACGGA	0.373													47	59	---	---	---	---	PASS	C	94381142	C	C	94381142	3	2	58	1	0	0	0	0	1	0	0	0	8272	1188	41	2	1167	2	KIF11	10	94381142	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5392909	94381142	41153605	803	22178										
PLCE1	51196	broad.mit.edu	37	chr10	95892039	95892039	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccatggaaggataagcgttGgtccatgcttaaagcaatgt	11	8	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:95892039G>T	uc001kjk.2	+	3	1949	c.1315G>T	c.(1315-1317)GGT>TGT	p.G439C	PLCE1_uc010qnx.1_Missense_Mutation_p.G439C|PLCE1_uc001kjm.2_Missense_Mutation_p.G131C	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	439					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GATAAGCGTTGGTCCATGCTT	0.488													53	73	---	---	---	---	PASS	T	95892039	T	T	95892039	3	4	58	1	0	0	0	0	1	0	0	0	12034	1348	47	3	1607	3	PLCE1	10	95892039	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1510897	95892039	39642708	804	22179										
SORBS1	10580	broad.mit.edu	37	chr10	97135751	97135751	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtttcccaaactccaattcCgaaaagaatttataccaagg	6	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:97135751C>T	uc001kkp.2	-	17	1761	c.1716G>A	c.(1714-1716)TCG>TCA	p.S572S	SORBS1_uc001kkk.2_Intron|SORBS1_uc001kkl.2_Silent_p.S174S|SORBS1_uc001kkn.2_Silent_p.S359S|SORBS1_uc001kkm.2_Silent_p.S428S|SORBS1_uc001kko.2_Silent_p.S594S|SORBS1_uc001kkq.2_Silent_p.S457S|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_Intron|SORBS1_uc001kku.2_Intron|SORBS1_uc001kkv.2_Intron|SORBS1_uc001kkw.2_Silent_p.S526S|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Intron	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	572					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)		ACTCCAATTCCGAAAAGAATT	0.378													16	99	---	---	---	---	PASS	T	97135751	T	T	97135751	2	4	58	1	0	0	0	0	0	0	0	1	14927	639	23	1		1	SORBS1	10	97135751	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1243712	97135751	38398996	805	22180										
ARHGAP19	84986	broad.mit.edu	37	chr10	99025847	99025847	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgggctgacctcgaagggaaGaatcattgcagatcacaaaa	11	8	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:99025847G>A	uc001knb.2	-	2	121	c.92C>T	c.(91-93)TCT>TTT	p.S31F	ARHGAP19_uc001kmy.2_RNA|ARHGAP19_uc001kna.2_Missense_Mutation_p.S22F|ARHGAP19_uc009xvi.2_RNA|ARHGAP19_uc009xvj.2_Missense_Mutation_p.S31F|ARHGAP19_uc009xvk.2_Intron	NM_032900	NP_116289	Q14CB8	RHG19_HUMAN	Rho GTPase activating protein 19	31					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	GTPase activator activity				0		Colorectal(252;0.0854)		Epithelial(162;7.65e-09)|all cancers(201;4.49e-07)		TCGAAGGGAAGAATCATTGCA	0.393													53	70	---	---	---	---	PASS	A	99025847	A	A	99025847	3	1	58	1	0	0	0	0	1	0	0	0	869	942	33	2	1436	2	ARHGAP19	10	99025847	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1890096	99025847	36508900	806	22181										
SEC31B	25956	broad.mit.edu	37	chr10	102256950	102256950	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccagcactccaccagccgcTccacactccctgagcacaca	5	22	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:102256950T>C	uc001krc.1	-	17	2180	c.2078A>G	c.(2077-2079)GAG>GGG	p.E693G	SEC31B_uc010qpo.1_Missense_Mutation_p.E692G|SEC31B_uc001krd.1_Missense_Mutation_p.E230G|SEC31B_uc001krf.1_Missense_Mutation_p.E230G|SEC31B_uc001kre.1_Missense_Mutation_p.E230G|SEC31B_uc001krg.1_Missense_Mutation_p.E262G	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B	693	WD 7.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		CACCAGCCGCTCCACACTCCC	0.607													50	47	---	---	---	---	PASS	C	102256950	C	C	102256950	3	2	58	1	0	0	0	0	1	0	0	0	13999	1551	54	5	1501	5	SEC31B	10	102256950	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	3231103	102256950	33277797	807	22182										
INA	9118	broad.mit.edu	37	chr10	105036977	105036977	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gatcccggcaccatgagcttCggctcggagcactacctgtg	12	14	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:105036977C>G	uc001kws.2	+	1	58	c.9C>G	c.(7-9)TTC>TTG	p.F3L	uc001kwr.2_5'Flank|INA_uc009xxj.2_Missense_Mutation_p.F3L	NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	3	Head.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		CCATGAGCTTCGGCTCGGAGC	0.627													15	25	---	---	---	---	PASS	G	105036977	G	G	105036977	3	3	58	1	0	0	0	0	1	0	0	0	7730	883	31	2	11	2	INA	10	105036977	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2780027	105036977	30497770	808	22183										
PDCD11	22984	broad.mit.edu	37	chr10	105178383	105178383	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtgtctgagccagagcgagGggcgtgttgtatccttgact							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:105178383G>T	uc001kwy.1	+	15	2185	c.2098G>T	c.(2098-2100)GGG>TGG	p.G700W		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	700	S1 motif 7.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		CCAGAGCGAGGGGCGTGTTGT	0.542													20	47	---	---	---	---	PASS	T	105178383	T	T	105178383	3	4	58	1	0	0	0	0	1	0	0	0	11617	1232	43	3	2152	3	PDCD11	10	105178383	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	141406	105178383	30356364	809	22184	496	2								
PDCD11	22984	broad.mit.edu	37	chr10	105178384	105178384	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgtctgagccagagcgaggGgcgtgttgtatccttgactg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:105178384G>T	uc001kwy.1	+	15	2186	c.2099G>T	c.(2098-2100)GGG>GTG	p.G700V		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	700	S1 motif 7.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		CAGAGCGAGGGGCGTGTTGTA	0.547													20	47	---	---	---	---	PASS	T	105178384	T	T	105178384	3	4	58	1	0	0	0	0	1	0	0	0	11617	1232	43	3	2153	3	PDCD11	10	105178384	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1	105178384	30356363	810	22185	496	2								
OBFC1	79991	broad.mit.edu	37	chr10	105648830	105648830	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgtacattataccacttacGatttggtttctggcagtcct	7	9	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:105648830G>A	uc001kxl.2	-	8	1024	c.949C>T	c.(949-951)CAC>TAC	p.H317Y	OBFC1_uc001kxm.2_Missense_Mutation_p.H317Y|OBFC1_uc001kxn.2_RNA	NM_024928	NP_079204	Q9H668	STN1_HUMAN	oligonucleotide/oligosaccharide-binding fold	317					positive regulation of DNA replication|telomere maintenance via telomere lengthening		protein binding|single-stranded telomeric DNA binding			ovary(1)	1		Colorectal(252;0.178)		Epithelial(162;3.39e-10)|all cancers(201;1.32e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0151)		TACCACTTACGATTTGGTTTC	0.373													42	118	---	---	---	---	PASS	A	105648830	A	A	105648830	3	1	58	1	0	0	0	0	1	0	0	0	10807	1072	37	2	165	2	OBFC1	10	105648830	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	470446	105648830	29885917	811	22186										
C10orf79	80217	broad.mit.edu	37	chr10	105971806	105971806	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcctaccagcccggcaatggCtgacagtggcagcacgggac	14	14	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:105971806C>A	uc001kxw.2	-	5	810	c.694G>T	c.(694-696)GCC>TCC	p.A232S	C10orf79_uc001kxx.3_Missense_Mutation_p.A232S|C10orf79_uc001kxy.1_Missense_Mutation_p.A232S|C10orf79_uc001kxz.2_Missense_Mutation_p.A232S	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	232											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		CCGGCAATGGCTGACAGTGGC	0.498													20	81	---	---	---	---	PASS	A	105971806	A	A	105971806	3	1	58	1	0	0	0	0	1	0	0	0	1618	797	28	3	4439	3	C10orf79	10	105971806	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	322976	105971806	29562941	812	22187										
CCDC147	159686	broad.mit.edu	37	chr10	106121841	106121841	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acaaagagcagaaggccaagGagacgattcttgctctgaaa	11	8	2	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:106121841G>T	uc001kyh.2	+	3	486	c.352G>T	c.(352-354)GAG>TAG	p.E118*		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	118	Potential.									ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		GAAGGCCAAGGAGACGATTCT	0.478													20	77	---	---	---	---	PASS	T	106121841	T	T	106121841	4	4	58	1	0	0	0	0	0	1	0	0	2781	1175	41	2	362	2	CCDC147	10	106121841	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	150035	106121841	29412906	813	22188										
SORCS1	114815	broad.mit.edu	37	chr10	108439016	108439016	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccagggtattttcttacctGtctccaggtgttccctgcat	8	13	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:108439016G>T	uc001kym.2	-	12	1746	c.1738C>A	c.(1738-1740)CAG>AAG	p.Q580K	SORCS1_uc001kyl.2_Missense_Mutation_p.Q580K|SORCS1_uc009xxs.2_Missense_Mutation_p.Q580K|SORCS1_uc001kyn.1_Missense_Mutation_p.Q580K|SORCS1_uc001kyo.2_Missense_Mutation_p.Q580K	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	580	Lumenal (Potential).|BNR 4.					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TTTCTTACCTGTCTCCAGGTG	0.418													61	85	---	---	---	---	PASS	T	108439016	T	T	108439016	3	4	58	1	0	0	0	0	1	0	0	0	14930	1386	48	3	2062	3	SORCS1	10	108439016	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2317175	108439016	27095731	814	22189										
SORCS1	114815	broad.mit.edu	37	chr10	108589406	108589406	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aactttatcattcagcttctCataggttgttccataatcgg	6	9	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:108589406C>T	uc001kym.2	-	3	660	c.652G>A	c.(652-654)GAG>AAG	p.E218K	SORCS1_uc001kyl.2_Missense_Mutation_p.E218K|SORCS1_uc009xxs.2_Missense_Mutation_p.E218K|SORCS1_uc001kyn.1_Missense_Mutation_p.E218K|SORCS1_uc001kyo.2_Missense_Mutation_p.E218K	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	218	Lumenal (Potential).|BNR 1.					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TTCAGCTTCTCATAGGTTGTT	0.363													66	116	---	---	---	---	PASS	T	108589406	T	T	108589406	3	4	58	1	0	0	0	0	1	0	0	0	14930	835	29	2	3184	2	SORCS1	10	108589406	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	150390	108589406	26945341	815	22190										
ABLIM1	3983	broad.mit.edu	37	chr10	116361718	116361718	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgagggtcctgagggtgggCcactgaaagaaaatcaacaa	14	7	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:116361718C>A	uc010qsg.1	-	2	346	c.247G>T	c.(247-249)GCC>TCC	p.A83S	ABLIM1_uc010qsh.1_Missense_Mutation_p.A23S|ABLIM1_uc010qsi.1_Missense_Mutation_p.A23S|ABLIM1_uc010qsk.1_Missense_Mutation_p.A7S|ABLIM1_uc009xyp.2_Missense_Mutation_p.A17S|ABLIM1_uc001lbz.1_Missense_Mutation_p.A6S	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	83					axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		TGAGGGTGGGCCACTGAAAGA	0.493													20	69	---	---	---	---	PASS	A	116361718	A	A	116361718	3	1	58	1	0	0	0	0	1	0	0	0	94	739	26	3	2261	3	ABLIM1	10	116361718	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	7772312	116361718	19173029	816	22191										
TRUB1	142940	broad.mit.edu	37	chr10	116734977	116734978	+	Frame_Shift_Ins	INS	-	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcctgaagacaaatggacaaINSttgatgacattgcacagtct							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:116734977_116734978insT	uc001lcd.2	+	8	950_951	c.889_890insT	c.(889-891)ATTfs	p.I297fs	TRUB1_uc010qsl.1_Frame_Shift_Ins_p.I199fs	NM_139169	NP_631908	Q8WWH5	TRUB1_HUMAN	TruB pseudouridine (psi) synthase homolog 1	297					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding				0		Colorectal(252;0.09)|Breast(234;0.174)|Lung NSC(174;0.245)		Epithelial(162;0.00879)|all cancers(201;0.0243)		CAAATGGACAATTGATGACATT	0.436													176	100	---	---	---	---		T	116734978	T	T	116734977	7	5	58	1	0	1	1	0	0	0	0	0	16599	101	4	0	919	0	TRUB1	10	116734977	Frame_Shift_Ins	INS	-	TCGA-33-4566-01A-01D-1441-08	373259	116734977	18799770	817	22192										
ATRNL1	26033	broad.mit.edu	37	chr10	117154178	117154178	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgacttacagcttgtacatGcagtggccatgcaaatatct	8	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:117154178G>C	uc001lcg.2	+	20	3571	c.3185G>C	c.(3184-3186)TGC>TCC	p.C1062S	ATRNL1_uc010qsm.1_Missense_Mutation_p.C191S|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	1062	Laminin EGF-like 2.|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)		GCTTGTACATGCAGTGGCCAT	0.328													32	45	---	---	---	---	PASS	C	117154178	C	C	117154178	3	2	58	1	0	0	0	0	1	0	0	0	1207	1319	46	4	3263	4	ATRNL1	10	117154178	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	419201	117154178	18380569	818	22193										
PDZD8	118987	broad.mit.edu	37	chr10	119044377	119044377	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atctacaagaggaggtggcaCcaccttctctggcttttcaa	9	11	3	1	rs114690685	by1000genomes	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:119044377C>T	uc001lde.1	-	5	2066	c.1867G>A	c.(1867-1869)GTG>ATG	p.V623M		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	623	Pro-rich.				intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		GGAGGTGGCACCACCTTCTCT	0.478													74	104	---	---	---	---	PASS	T	119044377	T	T	119044377	3	4	58	1	0	0	0	0	1	0	0	0	11705	507	18	3	1601	3	PDZD8	10	119044377	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1890199	119044377	16490370	819	22194										
RGS10	6001	broad.mit.edu	37	chr10	121286930	121286930	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggaactgccatcgctgtcgTggatgtctgcaaagcaaagt	12	9	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:121286930T>A	uc001lee.2	-	1	32	c.32A>T	c.(31-33)CAC>CTC	p.H11L	RGS10_uc001lef.2_Missense_Mutation_p.H5L|RGS10_uc001leg.2_Missense_Mutation_p.H19L	NM_002925	NP_002916	O43665	RGS10_HUMAN	regulator of G-protein signaling 10 isoform b	11					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|protein binding|signal transducer activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00105)|GBM - Glioblastoma multiforme(135;0.195)		ATCGCTGTCGTGGATGTCTGC	0.537													29	40	---	---	---	---	PASS	A	121286930	A	A	121286930	3	1	58	1	0	0	0	0	1	0	0	0	13293	1696	59	5	505	5	RGS10	10	121286930	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	2242553	121286930	14247817	820	22195										
PPAPDC1A	196051	broad.mit.edu	37	chr10	122348813	122348813	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgctctgctgtttcctgcctAgattcctttgtgggtggagt	12	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:122348813A>G	uc001lev.1	+	7	969	c.617_splice	c.e7-2	p.D206_splice	PPAPDC1A_uc009xzl.1_Splice_Site_p.D143_splice|PPAPDC1A_uc001lew.1_Splice_Site|PPAPDC1A_uc001lex.1_Splice_Site_p.I56_splice|PPAPDC1A_uc001ley.1_Splice_Site_p.D85_splice	NM_001030059	NP_001025230	Q5VZY2	PPC1A_HUMAN	phosphatidic acid phosphatase type 2 domain						phospholipid dephosphorylation	integral to membrane	phosphatidate phosphatase activity			breast(1)	1		Lung NSC(174;0.1)|all_lung(145;0.132)		all cancers(201;0.0117)		TTTCCTGCCTAGATTCCTTTG	0.453													45	175	---	---	---	---	PASS	G	122348813	G	G	122348813	5	3	58	1	0	0	0	0	0	0	1	0	12293	434	15	5	641	5	PPAPDC1A	10	122348813	Splice_Site	SNP	A	TCGA-33-4566-01A-01D-1441-08	1061883	122348813	13185934	821	22196										
C10orf137	26098	broad.mit.edu	37	chr10	127426970	127426970	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agatgaatcctcaagaggggGtcccgaggggctagagaagc	16	8	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:127426970G>T	uc001liq.1	+	15	2230	c.1937G>T	c.(1936-1938)GGT>GTT	p.G646V	C10orf137_uc001lin.2_Missense_Mutation_p.G612V|C10orf137_uc001lio.1_Missense_Mutation_p.G612V|C10orf137_uc001lip.1_Missense_Mutation_p.G350V|C10orf137_uc001lir.2_Missense_Mutation_p.G140V|C10orf137_uc001lis.1_5'Flank	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	646					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TCAAGAGGGGGTCCCGAGGGG	0.433													55	112	---	---	---	---	PASS	T	127426970	T	T	127426970	3	4	58	1	0	0	0	0	1	0	0	0	1594	1261	44	3	1889	3	C10orf137	10	127426970	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5078157	127426970	8107777	822	22197										
DOCK1	1793	broad.mit.edu	37	chr10	128830580	128830580	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgctccaccaaactgactcaGaacggtgcgttcgagaggag	12	11	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:128830580G>T	uc001ljt.2	+	18	1909	c.1845G>T	c.(1843-1845)CAG>CAT	p.Q615H	DOCK1_uc010qun.1_Missense_Mutation_p.Q636H	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	615	DHR-1.				apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		AACTGACTCAGAACGGTGCGT	0.577													4	5	---	---	---	---	PASS	T	128830580	T	T	128830580	3	4	58	1	0	0	0	0	1	0	0	0	4684	933	33	2	1915	2	DOCK1	10	128830580	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1403610	128830580	6704167	823	22198										
GLRX3	10539	broad.mit.edu	37	chr10	131967730	131967730	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acaaataaagcttctgtgatGctctttatgaaaggaaacaa	7	6	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:131967730G>T	uc001lkm.1	+	7	769	c.747G>T	c.(745-747)ATG>ATT	p.M249I	GLRX3_uc001lkn.1_Missense_Mutation_p.M249I|GLRX3_uc001lko.2_RNA	NM_006541	NP_006532	O76003	GLRX3_HUMAN	glutaredoxin 3	249	Glutaredoxin 2.				cell redox homeostasis|negative regulation of cardiac muscle hypertrophy|regulation of the force of heart contraction	cell cortex	electron carrier activity|iron-sulfur cluster binding|metal ion binding|protein disulfide oxidoreductase activity				0		all_cancers(35;9.59e-07)|all_epithelial(44;1.48e-06)|Lung NSC(174;0.00566)|all_lung(145;0.00949)|Colorectal(57;0.142)|all_neural(114;0.16)|Breast(234;0.173)|Glioma(114;0.222)		OV - Ovarian serous cystadenocarcinoma(35;0.00218)		CTTCTGTGATGCTCTTTATGA	0.353													41	47	---	---	---	---	PASS	T	131967730	T	T	131967730	3	4	58	1	0	0	0	0	1	0	0	0	6461	1319	46	3	773	3	GLRX3	10	131967730	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3137150	131967730	3567017	824	22199										
DPYSL4	10570	broad.mit.edu	37	chr10	134016258	134016258	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggaagatgtttgtcaccccgGgggcgggccgcttcgtccct	15	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:134016258G>A	uc009ybb.2	+	12	1544	c.1390G>A	c.(1390-1392)GGG>AGG	p.G464R		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	464					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-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;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		TGTCACCCCGGGGGCGGGCCG	0.622													22	105	---	---	---	---	PASS	A	134016258	A	A	134016258	3	1	58	1	0	0	0	0	1	0	0	0	4749	1232	43	3	1436	3	DPYSL4	10	134016258	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2048528	134016258	1518489	825	22200										
TUBGCP2	10844	broad.mit.edu	37	chr10	135102436	135102436	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttctcgatctgctccacataCgcccgctcttttaacgtgta	6	14	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr10:135102436C>G	uc001lmg.1	-	10	1806	c.1449G>C	c.(1447-1449)GCG>GCC	p.A483A	TUBGCP2_uc001lmf.1_Silent_p.A76A|TUBGCP2_uc010qvc.1_Silent_p.A511A|TUBGCP2_uc009ybk.1_Silent_p.A483A|TUBGCP2_uc010qvd.1_Silent_p.A353A|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	483					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		GCTCCACATACGCCCGCTCTT	0.517													18	83	---	---	---	---	PASS	G	135102436	G	G	135102436	2	3	58	1	0	0	0	0	0	0	0	1	16763	523	19	4		4	TUBGCP2	10	135102436	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1086178	135102436	432311	826	22201										
ART5	116969	broad.mit.edu	37	chr11	3661139	3661139	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggcccaagcggacagagtCtcccagcctcttgggttcaa	11	14	3	1	rs143088148		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:3661139C>A	uc001lyb.1	-	2	913	c.520G>T	c.(520-522)GAC>TAC	p.D174Y	ART5_uc001lyc.1_Missense_Mutation_p.D174Y|ART5_uc001lyd.2_Missense_Mutation_p.D174Y|ART5_uc009yea.2_Missense_Mutation_p.D174Y	NM_053017	NP_443750	Q96L15	NAR5_HUMAN	ADP-ribosyltransferase 5 precursor	174						extracellular region	NAD(P)+-protein-arginine ADP-ribosyltransferase activity			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0336)|LUSC - Lung squamous cell carcinoma(625;0.19)		CGGACAGAGTCTCCCAGCCTC	0.607													46	40	---	---	---	---	PASS	A	3661139	A	A	3661139	3	1	58	1	0	0	0	0	1	0	0	0	1000	913	32	2	367	2	ART5	11	3661139	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08		3661139	131345377	827	22202										
OR52K1	390036	broad.mit.edu	37	chr11	4510584	4510584	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agattggcatggctgctgtgGcccgggctgtgacactaatg	15	9	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:4510584G>T	uc001lza.1	+	1	454	c.454G>T	c.(454-456)GCC>TCC	p.A152S		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		GGCTGCTGTGGCCCGGGCTGT	0.582													22	25	---	---	---	---	PASS	T	4510584	T	T	4510584	3	4	58	1	0	0	0	0	1	0	0	0	11123	1203	42	3	456	3	OR52K1	11	4510584	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	849445	4510584	130495932	828	22203										
OR52M1	119772	broad.mit.edu	37	chr11	4567167	4567167	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acatgcgcttctcacctctgTgccatcctgatcttttatgt	6	13	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:4567167T>A	uc010qyf.1	+	1	747	c.747T>A	c.(745-747)TGT>TGA	p.C249*		NM_001004137	NP_001004137	Q8NGK5	O52M1_HUMAN	olfactory receptor, family 52, subfamily M,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTCACCTCTGTGCCATCCTGA	0.512													78	75	---	---	---	---	PASS	A	4567167	A	A	4567167	4	1	58	1	0	0	0	0	0	1	0	0	11126	1702	59	5	749	5	OR52M1	11	4567167	Nonsense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	56583	4567167	130439349	829	22204										
OR51E1	143503	broad.mit.edu	37	chr11	4674143	4674143	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttgaccgctatgtggccatCtgtcacccactgcgccatgc	9	15	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:4674143C>G	uc001lzi.3	+	2	531	c.387C>G	c.(385-387)ATC>ATG	p.I129M		NM_152430	NP_689643	Q8TCB6	O51E1_HUMAN	olfactory receptor, family 51, subfamily E,	128	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(3)|pancreas(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;7.37e-14)|GBM - Glioblastoma multiforme(2;2.85e-05)|BRCA - Breast invasive adenocarcinoma(625;0.00222)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATGTGGCCATCTGTCACCCAC	0.552													61	34	---	---	---	---	PASS	G	4674143	G	G	4674143	3	3	58	1	0	0	0	0	1	0	0	0	11094	903	32	2	389	2	OR51E1	11	4674143	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	106976	4674143	130332373	830	22205										
OR52A5	390054	broad.mit.edu	37	chr11	5152960	5152960	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaaaaacactttcacaatatGgtcacgaatttgcttggtct	7	8	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:5152960G>T	uc010qyx.1	-	1	913	c.913C>A	c.(913-915)CAT>AAT	p.H305N		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		TTCACAATATGGTCACGAATT	0.343													42	39	---	---	---	---	PASS	T	5152960	T	T	5152960	3	4	58	1	0	0	0	0	1	0	0	0	11110	1348	47	3	40	3	OR52A5	11	5152960	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	478817	5152960	129853556	831	22206										
HBE1	3046	broad.mit.edu	37	chr11	5290708	5290708	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagttctcaggatccacatgCagcttgtcacagtgcagctc	9	12	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:5290708C>A	uc001mal.1	-	2	544	c.291G>T	c.(289-291)CTG>CTT	p.L97L	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Silent_p.L97L	NM_005330	NP_005321	P02100	HBE_HUMAN	epsilon globin	97					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.34e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GATCCACATGCAGCTTGTCAC	0.423													55	65	---	---	---	---	PASS	A	5290708	A	A	5290708	2	1	58	1	0	0	0	0	0	0	0	1	6980	697	25	3		3	HBE1	11	5290708	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	137748	5290708	129715808	832	22207										
OR52E6	390078	broad.mit.edu	37	chr11	5862226	5862226	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaatcctcagcactgtctccCtaatatgtttggttctgacc	6	12	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:5862226C>A	uc010qzq.1	-	1	902	c.902G>T	c.(901-903)AGG>ATG	p.R301M	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CACTGTCTCCCTAATATGTTT	0.438													58	54	---	---	---	---	PASS	A	5862226	A	A	5862226	3	1	58	1	0	0	0	0	1	0	0	0	11117	681	24	3	41	3	OR52E6	11	5862226	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	571518	5862226	129144290	833	22208										
OR52L1	338751	broad.mit.edu	37	chr11	6007816	6007816	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgaagaacatctggatcagGcagacgatgtacccaatctc	9	10	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:6007816G>T	uc001mcd.2	-	1	400	c.345C>A	c.(343-345)TGC>TGA	p.C115*		NM_001005173	NP_001005173	Q8NGH7	O52L1_HUMAN	olfactory receptor, family 52, subfamily L,	115	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.98e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCTGGATCAGGCAGACGATGT	0.552													23	17	---	---	---	---	PASS	T	6007816	T	T	6007816	4	4	58	1	0	0	0	0	0	1	0	0	11125	1195	42	3	648	3	OR52L1	11	6007816	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	145590	6007816	128998700	834	22209										
ARFIP2	23647	broad.mit.edu	37	chr11	6500011	6500011	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaggtcagcaaaggcatcaCccagtgcatgctgggtctgc	13	11	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:6500011C>A	uc001mdk.2	-	5	631	c.494G>T	c.(493-495)GGT>GTT	p.G165V	ARFIP2_uc001mdl.2_Missense_Mutation_p.G165V|ARFIP2_uc010ral.1_Missense_Mutation_p.G127V|ARFIP2_uc010ram.1_Missense_Mutation_p.G71V|ARFIP2_uc010ran.1_Missense_Mutation_p.G198V|ARFIP2_uc001mdm.2_Intron|FXC1_uc001mdn.3_5'Flank|FXC1_uc001mdo.3_5'Flank	NM_012402	NP_036534	P53365	ARFP2_HUMAN	ADP-ribosylation factor interacting protein 2	165	AH.				actin cytoskeleton organization|cellular component movement|lamellipodium assembly|ruffle organization|small GTPase mediated signal transduction	cell cortex|plasma membrane|ruffle	GTP binding|GTP-dependent protein binding|Rac GTPase binding				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;3.41e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AAAGGCATCACCCAGTGCATG	0.622													22	18	---	---	---	---	PASS	A	6500011	A	A	6500011	3	1	58	1	0	0	0	0	1	0	0	0	855	507	18	3	547	3	ARFIP2	11	6500011	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	492195	6500011	128506505	835	22210										
OR10A4	283297	broad.mit.edu	37	chr11	6898600	6898600	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaaacatcaggcattctccaCctgttccgcccacctcttgg	7	16	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:6898600C>A	uc010rat.1	+	1	722	c.722C>A	c.(721-723)ACC>AAC	p.T241N		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	241	Helical; Name=6; (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)		GCATTCTCCACCTGTTCCGCC	0.517													67	43	---	---	---	---	PASS	A	6898600	A	A	6898600	3	1	58	1	0	0	0	0	1	0	0	0	10892	507	18	3	724	3	OR10A4	11	6898600	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	398589	6898600	128107916	836	22211										
OR2D2	120776	broad.mit.edu	37	chr11	6913008	6913008	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaccaccatgaggtgggagcCacaggtagaaaatgccttga	13	9	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:6913008C>A	uc010rau.1	-	1	724	c.724G>T	c.(724-726)GGC>TGC	p.G242C		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		AGGTGGGAGCCACAGGTAGAA	0.428													29	38	---	---	---	---	PASS	A	6913008	A	A	6913008	3	1	58	1	0	0	0	0	1	0	0	0	10994	594	21	3	205	3	OR2D2	11	6913008	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	14408	6913008	128093508	837	22212										
OR10A3	26496	broad.mit.edu	37	chr11	7960899	7960899	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaggaacaggtacatgggaaCgtggaggctctggtttaagg	17	5	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:7960899C>A	uc010rbi.1	-	1	169	c.169G>T	c.(169-171)GTT>TTT	p.V57F		NM_001003745	NP_001003745	P58181	O10A3_HUMAN	olfactory receptor, family 10, subfamily A,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1				Epithelial(150;1.38e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TACATGGGAACGTGGAGGCTC	0.483													45	53	---	---	---	---	PASS	A	7960899	A	A	7960899	3	1	58	1	0	0	0	0	1	0	0	0	10891	536	19	1	778	1	OR10A3	11	7960899	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1047891	7960899	127045617	838	22213										
ABCC8	6833	broad.mit.edu	37	chr11	17450148	17450148	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggctgggccctgaggtgtGggctcatggggggcacactg	19	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:17450148G>T	uc001mnc.2	-	13	2013	c.1887C>A	c.(1885-1887)CCC>CCA	p.P629P		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	629	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)	CCTGAGGTGTGGGCTCATGGG	0.627													36	51	---	---	---	---	PASS	T	17450148	T	T	17450148	2	4	58	1	0	0	0	0	0	0	0	1	58	1335	47	3		3	ABCC8	11	17450148	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	9489249	17450148	117556368	839	22214										
CSRP3	8048	broad.mit.edu	37	chr11	19209755	19209755	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgccttgtccatacccgatcCctttggggccatatctgcgc	9	16	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:19209755C>T	uc001mpk.2	-	3	326	c.209G>A	c.(208-210)GGG>GAG	p.G70E		NM_003476	NP_003467	P50461	CSRP3_HUMAN	cysteine and glycine-rich protein 3	70	Gly-rich.				cell differentiation|skeletal muscle tissue development	cytoskeleton|nucleus	protein binding|zinc ion binding				0						ATACCCGATCCCTTTGGGGCC	0.607													76	85	---	---	---	---	PASS	T	19209755	T	T	19209755	3	4	58	1	0	0	0	0	1	0	0	0	3969	623	22	3	391	3	CSRP3	11	19209755	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1759607	19209755	115796761	840	22215										
DBX1	120237	broad.mit.edu	37	chr11	20177907	20177907	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcccgcaggtgctgggggtcGgaggacgcgtggtaggccag	20	10	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:20177907G>A	uc001mpw.1	-	4	1002	c.1002C>T	c.(1000-1002)TCC>TCT	p.S334S		NM_001029865	NP_001025036	A6NMT0	DBX1_HUMAN	developing brain homeobox 1	295					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCTGGGGGTCGGAGGACGCGT	0.731													11	23	---	---	---	---	PASS	A	20177907	A	A	20177907	2	1	58	1	0	0	0	0	0	0	0	1	4259	1103	39	1		1	DBX1	11	20177907	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	968152	20177907	114828609	841	22216										
PRMT3	10196	broad.mit.edu	37	chr11	20515791	20515791	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tactggaaaaaccattttcaGttaaagcaggtgagaaagaa	9	5	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:20515791G>C	uc001mqb.2	+	15	1694	c.1477G>C	c.(1477-1479)GTT>CTT	p.V493L	PRMT3_uc001mqc.2_Missense_Mutation_p.V416L|PRMT3_uc010rdn.1_Missense_Mutation_p.V431L	NM_005788	NP_005779	O60678	ANM3_HUMAN	protein arginine methyltransferase 3 isoform 1	493							zinc ion binding				0						ACCATTTTCAGTTAAAGCAGG	0.378													112	90	---	---	---	---	PASS	C	20515791	C	C	20515791	3	2	58	1	0	0	0	0	1	0	0	0	12538	1029	36	4	1535	4	PRMT3	11	20515791	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	337884	20515791	114490725	842	22217										
NELL1	4745	broad.mit.edu	37	chr11	20940811	20940811	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tattgagcttgcccaacctgCagtgatttcttaagcctggt	9	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:20940811C>A	uc001mqe.2	+	7	843	c.690C>A	c.(688-690)TGC>TGA	p.C230*	NELL1_uc001mqf.2_Nonsense_Mutation_p.C230*|NELL1_uc009yid.2_Nonsense_Mutation_p.C258*|NELL1_uc010rdo.1_Nonsense_Mutation_p.C173*|NELL1_uc010rdp.1_Intron	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	230	TSP N-terminal.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						GCCCAACCTGCAGTGATTTCT	0.279													50	38	---	---	---	---	PASS	A	20940811	A	A	20940811	4	1	58	1	0	0	0	0	0	1	0	0	10333	718	25	3	716	3	NELL1	11	20940811	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	425020	20940811	114065705	843	22218										
BBOX1	8424	broad.mit.edu	37	chr11	27148882	27148882	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggcgcttacttcatggccGacgtagctatgaagcaggaa	12	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:27148882G>A	uc001mre.1	+	9	1414	c.1046G>A	c.(1045-1047)CGA>CAA	p.R349Q	BBOX1_uc009yih.1_Missense_Mutation_p.R349Q|BBOX1_uc001mrg.1_Missense_Mutation_p.R349Q	NM_003986	NP_003977	O75936	BODG_HUMAN	gamma-butyrobetaine dioxygenase	349					carnitine biosynthetic process	actin cytoskeleton|cytosol|intracellular membrane-bounded organelle	gamma-butyrobetaine dioxygenase activity|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1					Succinic acid(DB00139)|Vitamin C(DB00126)	CTTCATGGCCGACGTAGCTAT	0.413													52	81	---	---	---	---	PASS	A	27148882	A	A	27148882	3	1	58	1	0	0	0	0	1	0	0	0	1334	1058	37	2	1072	2	BBOX1	11	27148882	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6208071	27148882	107857634	844	22219										
KCNA4	3739	broad.mit.edu	37	chr11	30033380	30033380	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aattcattctcggggagggcCctgtcttcctcttctctcac	8	14	6	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:30033380C>T	uc001msk.2	-	2	1998	c.846G>A	c.(844-846)AGG>AGA	p.R282R		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	282						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CGGGGAGGGCCCTGTCTTCCT	0.512													26	95	---	---	---	---	PASS	T	30033380	T	T	30033380	2	4	58	1	0	0	0	0	0	0	0	1	8005	622	22	3		3	KCNA4	11	30033380	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2884498	30033380	104973136	845	22220										
MPPED2	744	broad.mit.edu	37	chr11	30516883	30516883	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaatcccttcactgttacctCcgaatcttgtaagtaaatac	5	11	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:30516883C>A	uc001msr.2	-	3	616	c.496G>T	c.(496-498)GAG>TAG	p.E166*	MPPED2_uc001msq.3_Nonsense_Mutation_p.E166*|MPPED2_uc009yji.2_Nonsense_Mutation_p.E40*	NM_001584	NP_001575	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2	166					nervous system development		hydrolase activity|metal ion binding			skin(1)	1						ACTGTTACCTCCGAATCTTGT	0.418													38	72	---	---	---	---	PASS	A	30516883	A	A	30516883	4	1	58	1	0	0	0	0	0	1	0	0	9742	864	30	2	476	2	MPPED2	11	30516883	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	483503	30516883	104489633	846	22221										
RCN1	5954	broad.mit.edu	37	chr11	32119896	32119896	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcatacatacatcctgcagGaaaccccgcagagtttcatg	8	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:32119896G>T	uc010reb.1	+	3	715	c.449G>T	c.(448-450)GGA>GTA	p.G150V	RCN1_uc010rea.1_Missense_Mutation_p.G99V|RCN1_uc001mtk.2_5'UTR	NM_002901	NP_002892	Q15293	RCN1_HUMAN	reticulocalbin 1 precursor	150	EF-hand 2.					endoplasmic reticulum lumen	calcium ion binding			large_intestine(1)	1	Lung SC(675;0.225)					CATCCTGCAGGAAACCCCGCA	0.443													31	76	---	---	---	---	PASS	T	32119896	T	T	32119896	3	4	58	1	0	0	0	0	1	0	0	0	13179	1188	41	2	459	2	RCN1	11	32119896	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1603013	32119896	102886620	847	22222										
C11orf41	25758	broad.mit.edu	37	chr11	33612940	33612940	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatggaagcaccatcaagaCcgccaaatccactgaaacca	8	13	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:33612940C>A	uc001mup.3	+	11	3975	c.3851C>A	c.(3850-3852)ACC>AAC	p.T1284N	C11orf41_uc001mun.1_Intron	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	1278						integral to membrane				ovary(2)	2						ACCATCAAGACCGCCAAATCC	0.522													43	77	---	---	---	---	PASS	A	33612940	A	A	33612940	3	1	58	1	0	0	0	0	1	0	0	0	1640	507	18	3	3893	3	C11orf41	11	33612940	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1493044	33612940	101393576	848	22223										
RAG1	5896	broad.mit.edu	37	chr11	36597797	36597797	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cggaaaatgaatgccaggcaGtccaaatgctatgagatgga	12	7	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:36597797G>T	uc001mwu.3	+	2	3067	c.2943G>T	c.(2941-2943)CAG>CAT	p.Q981H	RAG1_uc001mwt.2_Intron	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	981			Q -> P (in T-CMVA).		histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				ATGCCAGGCAGTCCAAATGCT	0.438									Familial_Hemophagocytic_Lymphohistiocytosis				73	92	---	---	---	---	PASS	T	36597797	T	T	36597797	3	4	58	1	0	0	0	0	1	0	0	0	13003	1020	36	3	2945	3	RAG1	11	36597797	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2984857	36597797	98408719	849	22224										
LRRC4C	57689	broad.mit.edu	37	chr11	40137179	40137179	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccagaaagatccagctcatCtagttttatgagcggtgtga	10	9	2	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:40137179C>A	uc001mxa.1	-	2	2628	c.664G>T	c.(664-666)GAT>TAT	p.D222Y	LRRC4C_uc001mxc.1_Missense_Mutation_p.D218Y|LRRC4C_uc001mxd.1_Missense_Mutation_p.D218Y|LRRC4C_uc001mxb.1_Missense_Mutation_p.D218Y	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	222	LRR 7.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				TCCAGCTCATCTAGTTTTATG	0.468													18	129	---	---	---	---	PASS	A	40137179	A	A	40137179	3	1	58	1	0	0	0	0	1	0	0	0	9008	913	32	2	1262	2	LRRC4C	11	40137179	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3539382	40137179	94869337	850	22225										
LRP4	4038	broad.mit.edu	37	chr11	46911596	46911596	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccgtaaatttgttagcgctaTtgatgctcttggtgtgccag	11	8	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:46911596T>C	uc001ndn.3	-	15	2137	c.1991A>G	c.(1990-1992)AAT>AGT	p.N664S		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	664	Extracellular (Potential).|LDL-receptor class B 5.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		GTTAGCGCTATTGATGCTCTT	0.532											OREG0020948	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	147	---	---	---	---	PASS	C	46911596	C	C	46911596	3	2	58	1	0	0	0	0	1	0	0	0	8959	1493	52	5	3822	5	LRP4	11	46911596	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	6774417	46911596	88094920	851	22226										
MYBPC3	4607	broad.mit.edu	37	chr11	47357557	47357557	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caggtgggtgggttcgctggGgggacctgggcagaggagag	23	6	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:47357557G>T	uc001nfa.3	-	25	2663	c.2608C>A	c.(2608-2610)CCC>ACC	p.P870T	MYBPC3_uc010rhl.1_RNA	NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	869	Fibronectin type-III 2.				cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		GGTTCGCTGGGGGGACCTGGG	0.647													9	12	---	---	---	---	PASS	T	47357557	T	T	47357557	3	4	58	1	0	0	0	0	1	0	0	0	10013	1232	43	3	1252	3	MYBPC3	11	47357557	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	445961	47357557	87648959	852	22227										
MYBPC3	4607	broad.mit.edu	37	chr11	47361282	47361282	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagacgtagcttatttccagCtacaaccacaatggtgtctg	8	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:47361282C>A	uc001nfa.3	-	20	2042	c.1987G>T	c.(1987-1989)GCT>TCT	p.A663S	MYBPC3_uc010rhl.1_RNA	NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	662	Ig-like C2-type 5.				cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		TTATTTCCAGCTACAACCACA	0.537													3	62	---	---	---	---	PASS	A	47361282	A	A	47361282	3	1	58	1	0	0	0	0	1	0	0	0	10013	797	28	3	1893	3	MYBPC3	11	47361282	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3725	47361282	87645234	853	22228										
RAPSN	5913	broad.mit.edu	37	chr11	47469657	47469657	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtagctctccaggaggaagtCggcatcctccagctcccggg	13	14	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:47469657C>G	uc001nfi.1	-	2	452	c.238G>C	c.(238-240)GAC>CAC	p.D80H	RAPSN_uc001nfj.1_Missense_Mutation_p.D80H|RAPSN_uc009yls.1_Missense_Mutation_p.D80H	NM_005055	NP_005046	Q13702	RAPSN_HUMAN	43 kD receptor-associated protein of the synapse	80					synaptic transmission, cholinergic	cell junction|cytoskeleton|postsynaptic membrane	acetylcholine receptor binding|zinc ion binding			ovary(1)	1						AGGAGGAAGTCGGCATCCTCC	0.617													13	69	---	---	---	---	PASS	G	47469657	G	G	47469657	3	3	58	1	0	0	0	0	1	0	0	0	13051	884	31	2	1028	2	RAPSN	11	47469657	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	108375	47469657	87536859	854	22229										
AGBL2	79841	broad.mit.edu	37	chr11	47711888	47711888	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagggtgaactctggcactCaagaccacagctttctttgc	9	13	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:47711888C>A	uc001ngg.2	-	9	1471	c.1371G>T	c.(1369-1371)TTG>TTT	p.L457F	AGBL2_uc001ngf.2_RNA|AGBL2_uc010rhq.1_Missense_Mutation_p.L419F|AGBL2_uc001ngh.1_Missense_Mutation_p.L401F	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	457					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						CTCTGGCACTCAAGACCACAG	0.512													111	155	---	---	---	---	PASS	A	47711888	A	A	47711888	3	1	58	1	0	0	0	0	1	0	0	0	376	825	29	2	1377	2	AGBL2	11	47711888	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	242231	47711888	87294628	855	22230										
FNBP4	23360	broad.mit.edu	37	chr11	47744565	47744565	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttttgtcttttcaggtggtGgcattttgggagctggtggt	15	4	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:47744565G>A	uc009ylv.2	-	15	2921	c.2768C>T	c.(2767-2769)CCA>CTA	p.P923L	FNBP4_uc001ngi.2_Missense_Mutation_p.P237L|FNBP4_uc001ngj.2_Missense_Mutation_p.P830L	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	923	Pro-rich.									ovary(1)	1						TTCAGGTGGTGGCATTTTGGG	0.254													4	6	---	---	---	---	PASS	A	47744565	A	A	47744565	3	1	58	1	0	0	0	0	1	0	0	0	5967	1348	47	3	297	3	FNBP4	11	47744565	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	32677	47744565	87261951	856	22231										
OR4P4	81300	broad.mit.edu	37	chr11	55405873	55405873	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcactttgtttattctcttgGggttttcccaaaataagaac	7	8	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:55405873G>T	uc010rij.1	+	1	40	c.40G>T	c.(40-42)GGG>TGG	p.G14W		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TATTCTCTTGGGGTTTTCCCA	0.313													123	70	---	---	---	---	PASS	T	55405873	T	T	55405873	3	4	58	1	0	0	0	0	1	0	0	0	11080	1232	43	3	42	3	OR4P4	11	55405873	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	7661308	55405873	79600643	857	22232										
OR5D13	390142	broad.mit.edu	37	chr11	55541387	55541387	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acatgggggatagtgtgctcCctgatactcacatattttct	9	9	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:55541387C>A	uc010ril.1	+	1	474	c.474C>A	c.(472-474)TCC>TCA	p.S158S		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				TAGTGTGCTCCCTGATACTCA	0.408													112	164	---	---	---	---	PASS	A	55541387	A	A	55541387	2	1	58	1	0	0	0	0	0	0	0	1	11154	610	22	3		3	OR5D13	11	55541387	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	135514	55541387	79465129	858	22233										
OR5D16	390144	broad.mit.edu	37	chr11	55607085	55607085	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tacaccgtggtgatccccttGttgaatcccctgatctacag	8	13	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:55607085G>T	uc010rio.1	+	1	858	c.858G>T	c.(856-858)TTG>TTT	p.L286F		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				TGATCCCCTTGTTGAATCCCC	0.408													43	47	---	---	---	---	PASS	T	55607085	T	T	55607085	3	4	58	1	0	0	0	0	1	0	0	0	11156	1368	48	3	860	3	OR5D16	11	55607085	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	65698	55607085	79399431	859	22234										
OR5F1	338674	broad.mit.edu	37	chr11	55761264	55761264	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	attcaacatgggaatcaccaCtgtgtagaacacagaagcca	8	10	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:55761264C>A	uc010riv.1	-	1	838	c.838G>T	c.(838-840)GTG>TTG	p.V280L		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	280	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					GGAATCACCACTGTGTAGAAC	0.443													48	73	---	---	---	---	PASS	A	55761264	A	A	55761264	3	1	58	1	0	0	0	0	1	0	0	0	11158	565	20	3	109	3	OR5F1	11	55761264	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	154179	55761264	79245252	860	22235										
OR5F1	338674	broad.mit.edu	37	chr11	55761943	55761943	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tacatgggtgtgtgaagctgGgaatcgatcctgattaagag	14	5	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:55761943G>C	uc010riv.1	-	1	159	c.159C>G	c.(157-159)TCC>TCG	p.S53S		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	53	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					TGTGAAGCTGGGAATCGATCC	0.418													32	34	---	---	---	---	PASS	C	55761943	C	C	55761943	2	2	58	1	0	0	0	0	0	0	0	1	11158	1219	43	4		4	OR5F1	11	55761943	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	679	55761943	79244573	861	22236										
OR5AS1	219447	broad.mit.edu	37	chr11	55798057	55798057	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tagttaatattaattcaagcCttcaaattcccatgtattat	3	7	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:55798057C>A	uc010riw.1	+	1	163	c.163C>A	c.(163-165)CTT>ATT	p.L55I		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	55	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					TAATTCAAGCCTTCAAATTCC	0.343													18	100	---	---	---	---	PASS	A	55798057	A	A	55798057	3	1	58	1	0	0	0	0	1	0	0	0	11146	681	24	3	165	3	OR5AS1	11	55798057	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	36114	55798057	79208459	862	22237										
OR8J3	81168	broad.mit.edu	37	chr11	55904716	55904716	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acacagagaatatacaaggtGaaaccacaatagctgtagaa	8	7	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:55904716G>A	uc010riz.1	-	1	479	c.479C>T	c.(478-480)TCA>TTA	p.S160L		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	160	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					TATACAAGGTGAAACCACAAT	0.428													28	109	---	---	---	---	PASS	A	55904716	A	A	55904716	3	1	58	1	0	0	0	0	1	0	0	0	11242	1294	45	2	470	2	OR8J3	11	55904716	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	106659	55904716	79101800	863	22238										
OR5T1	390155	broad.mit.edu	37	chr11	56043850	56043850	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agatgcagtctgctgaagggAggagaaaagtcttctctaca	12	7	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:56043850A>T	uc001nio.1	+	1	736	c.736A>T	c.(736-738)AGG>TGG	p.R246W		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	246	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TGCTGAAGGGAGGAGAAAAGT	0.438													65	234	---	---	---	---	PASS	T	56043850	T	T	56043850	3	4	58	1	0	0	0	0	1	0	0	0	11181	295	11	5	738	5	OR5T1	11	56043850	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	139134	56043850	78962666	864	22239										
OR8H1	219469	broad.mit.edu	37	chr11	56057656	56057656	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatgagagcatttttaacttCtttgtttctaagactataaa	5	5	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:56057656C>A	uc010rje.1	-	1	883	c.883G>T	c.(883-885)GAA>TAA	p.E295*		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	295	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					TTTTTAACTTCTTTGTTTCTA	0.343													96	145	---	---	---	---	PASS	A	56057656	A	A	56057656	4	1	58	1	0	0	0	0	0	1	0	0	11237	922	32	2	54	2	OR8H1	11	56057656	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	13806	56057656	78948860	865	22240										
OR5AP2	338675	broad.mit.edu	37	chr11	56409760	56409760	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agatcaatcttaatcaatacAatcatccccaaattgcccac	2	13	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:56409760A>T	uc001njb.1	-	1	156	c.156T>A	c.(154-156)ATT>ATA	p.I52I		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	52	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						TAATCAATACAATCATCCCCA	0.428													17	113	---	---	---	---	PASS	T	56409760	T	T	56409760	2	4	58	1	0	0	0	0	0	0	0	1	11144	126	5	5		5	OR5AP2	11	56409760	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	352104	56409760	78596756	866	22241										
OR9G9	504191	broad.mit.edu	37	chr11	56468339	56468339	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tattaactcttcaatcatcaCcaagaaaacgttttccttta	2	10	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:56468339C>A	uc010rjn.1	+	1	476	c.476C>A	c.(475-477)ACC>AAC	p.T159N		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCAATCATCACCAAGAAAACG	0.463													25	221	---	---	---	---	PASS	A	56468339	A	A	56468339	3	1	58	1	0	0	0	0	1	0	0	0	11252	507	18	3	478	3	OR9G9	11	56468339	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	58579	56468339	78538177	867	22242										
APLNR	187	broad.mit.edu	37	chr11	57003959	57003959	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgcaccttagtggtgttctCcaagtccccggtggtgcgta	12	12	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:57003959C>A	uc001njo.2	-	1	969	c.520G>T	c.(520-522)GAG>TAG	p.E174*	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	174	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						GTGGTGTTCTCCAAGTCCCCG	0.647													20	40	---	---	---	---	PASS	A	57003959	A	A	57003959	4	1	58	1	0	0	0	0	0	1	0	0	777	864	30	2	626	2	APLNR	11	57003959	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	535620	57003959	78002557	868	22243										
SSRP1	6749	broad.mit.edu	37	chr11	57099251	57099251	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttgacaaaggagatctcatCgaagcggatgtgcacaggtg	14	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:57099251C>A	uc001njt.2	-	9	1381	c.1114G>T	c.(1114-1116)GAT>TAT	p.D372Y		NM_003146	NP_003137	Q08945	SSRP1_HUMAN	structure specific recognition protein 1	372					DNA repair|DNA replication|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|cytoplasm|nucleoplasm	DNA binding|protein binding			ovary(2)	2						GAGATCTCATCGAAGCGGATG	0.517													28	33	---	---	---	---	PASS	A	57099251	A	A	57099251	3	1	58	1	0	0	0	0	1	0	0	0	15193	884	31	2	1051	2	SSRP1	11	57099251	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	95292	57099251	77907265	869	22244										
OR10Q1	219960	broad.mit.edu	37	chr11	57995616	57995616	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgaggtggaaggagcaggtGgagaaggcccggcggcggcc	22	8	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:57995616G>T	uc010rkd.1	-	1	732	c.732C>A	c.(730-732)TCC>TCA	p.S244S		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				AGGAGCAGGTGGAGAAGGCCC	0.632													34	29	---	---	---	---	PASS	T	57995616	T	T	57995616	2	4	58	1	0	0	0	0	0	0	0	1	10916	1335	47	3		3	OR10Q1	11	57995616	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	896365	57995616	77010900	870	22245										
FAM111B	374393	broad.mit.edu	37	chr11	58892264	58892264	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tatgcaaggatggccgttttCggtctgacataggtgaattt	12	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:58892264C>A	uc001nnl.2	+	4	937	c.694C>A	c.(694-696)CGG>AGG	p.R232R	FAM111B_uc001nnm.2_Silent_p.R202R|FAM111B_uc010rko.1_Silent_p.R202R	NM_198947	NP_945185	Q6SJ93	F111B_HUMAN	hypothetical protein LOC374393 isoform a	232							catalytic activity			ovary(2)	2						TGGCCGTTTTCGGTCTGACAT	0.373													4	98	---	---	---	---	PASS	A	58892264	A	A	58892264	2	1	58	1	0	0	0	0	0	0	0	1	5400	875	31	2		2	FAM111B	11	58892264	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	896648	58892264	76114252	871	22246										
MPEG1	219972	broad.mit.edu	37	chr11	58979250	58979250	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcgcaggagccatcatccgtGttggcctgaaaattgaagtt	11	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:58979250G>T	uc001nnu.3	-	1	1245	c.1089C>A	c.(1087-1089)AAC>AAA	p.N363K		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	363	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				CATCATCCGTGTTGGCCTGAA	0.483													68	81	---	---	---	---	PASS	T	58979250	T	T	58979250	3	4	58	1	0	0	0	0	1	0	0	0	9723	1368	48	3	1065	3	MPEG1	11	58979250	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	86986	58979250	76027266	872	22247										
MS4A3	932	broad.mit.edu	37	chr11	59828757	59828757	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agcccatagatggatcaccaGattatcagaaagcaaaatta	7	8	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:59828757G>T	uc001nom.2	+	2	252	c.124G>T	c.(124-126)GAT>TAT	p.D42Y	MS4A3_uc001non.2_Missense_Mutation_p.D42Y|MS4A3_uc001noo.2_Intron	NM_006138	NP_006129	Q96HJ5	MS4A3_HUMAN	membrane-spanning 4-domains, subfamily A, member	42	Cytoplasmic (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm	protein binding|receptor activity			ovary(2)|skin(1)	3		all_epithelial(135;0.245)				TGGATCACCAGATTATCAGAA	0.418													30	132	---	---	---	---	PASS	T	59828757	T	T	59828757	3	4	58	1	0	0	0	0	1	0	0	0	9861	942	33	2	126	2	MS4A3	11	59828757	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	849507	59828757	75177759	873	22248										
FADS3	3995	broad.mit.edu	37	chr11	61645001	61645001	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accgcccactgcatgcacacCagcatgtacgccagattttc	7	16	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:61645001C>A	uc001nsm.2	-	7	1020	c.867G>T	c.(865-867)CTG>CTT	p.L289L	FADS3_uc001nsn.2_Silent_p.L165L	NM_021727	NP_068373	Q9Y5Q0	FADS3_HUMAN	fatty acid desaturase 3	289	Lumenal (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|membrane fraction	heme binding|oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water			ovary(1)|pancreas(1)	2						GCATGCACACCAGCATGTACG	0.637													12	45	---	---	---	---	PASS	A	61645001	A	A	61645001	2	1	58	1	0	0	0	0	0	0	0	1	5367	581	21	3		3	FADS3	11	61645001	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1816244	61645001	73361515	874	22249										
AHNAK	79026	broad.mit.edu	37	chr11	62290294	62290294	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgggggctttgatgttcatCtcaggcatcttgaatttggg	13	6	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:62290294C>T	uc001ntl.2	-	5	11895	c.11595G>A	c.(11593-11595)GAG>GAA	p.E3865E	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3865					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TGATGTTCATCTCAGGCATCT	0.468													88	239	---	---	---	---	PASS	T	62290294	T	T	62290294	2	4	58	1	0	0	0	0	0	0	0	1	414	912	32	2		2	AHNAK	11	62290294	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	645293	62290294	72716222	875	22250										
STX5	6811	broad.mit.edu	37	chr11	62591750	62591750	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtgtctgcccgactctggaTgtaggaatccttcaggagag	14	9	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:62591750T>C	uc001nvh.2	-	10	950	c.796A>G	c.(796-798)ATC>GTC	p.I266V	STX5_uc010rmi.1_Missense_Mutation_p.I170V|STX5_uc009yoh.2_RNA|STX5_uc001nvi.2_Missense_Mutation_p.I212V|STX5_uc010rmj.1_Missense_Mutation_p.I266V|STX5_uc001nvj.2_Missense_Mutation_p.I81V	NM_003164	NP_003155	Q13190	STX5_HUMAN	syntaxin 5	266	t-SNARE coiled-coil homology.|Cytoplasmic (Potential).				intracellular protein transport|retrograde transport, endosome to Golgi|vesicle targeting	ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|nucleus|SNARE complex	protein N-terminus binding|SNAP receptor activity			ovary(1)|breast(1)	2						CGACTCTGGATGTAGGAATCC	0.512													36	112	---	---	---	---	PASS	C	62591750	C	C	62591750	3	2	58	1	0	0	0	0	1	0	0	0	15347	1464	51	5	279	5	STX5	11	62591750	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	301456	62591750	72414766	876	22251										
NRXN2	9379	broad.mit.edu	37	chr11	64453121	64453121	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttctcactcctcctacctgGcgcaggtttcgggtgacccg	10	16	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:64453121G>T	uc001oar.2	-	7	1588	c.1149C>A	c.(1147-1149)CGC>CGA	p.R383R	NRXN2_uc001oas.2_Silent_p.R359R|NRXN2_uc001oaq.2_Silent_p.R57R	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	203	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CTCCTACCTGGCGCAGGTTTC	0.607													49	111	---	---	---	---	PASS	T	64453121	T	T	64453121	2	4	58	1	0	0	0	0	0	0	0	1	10666	1190	42	3		3	NRXN2	11	64453121	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1861371	64453121	70553395	877	22252										
DPF2	5977	broad.mit.edu	37	chr11	65113402	65113402	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaactctttctctctgtagcCaaaaagggtcctgatggatt	8	9	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:65113402C>G	uc001odm.2	+	8	789	c.777C>G	c.(775-777)TCC>TCG	p.S259S	DPF2_uc001odn.2_Silent_p.S273S|DPF2_uc010roe.1_Intron	NM_006268	NP_006259	Q92785	REQU_HUMAN	D4, zinc and double PHD fingers family 2	259					apoptosis|induction of apoptosis by extracellular signals|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						TCTCTGTAGCCAAAAAGGGTC	0.517													37	141	---	---	---	---	PASS	G	65113402	G	G	65113402	2	3	58	1	0	0	0	0	0	0	0	1	4717	608	21	4		4	DPF2	11	65113402	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	660281	65113402	69893114	878	22253										
SSSCA1	10534	broad.mit.edu	37	chr11	65338992	65338992	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagcactgtgagggagctgcAgcaggactcaaggcagccca	15	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:65338992A>T	uc001oek.2	+	4	407	c.387A>T	c.(385-387)GCA>GCT	p.A129A	FAM89B_uc001oen.2_5'Flank|FAM89B_uc001oem.2_5'Flank|FAM89B_uc001oel.2_5'Flank	NM_006396	NP_006387	O60232	SSA27_HUMAN	Sjogren syndrome/scleroderma autoantigen 1	129					cell division|mitosis		protein binding			ovary(1)|skin(1)	2						AGGGAGCTGCAGCAGGACTCA	0.652													28	107	---	---	---	---	PASS	T	65338992	T	T	65338992	2	4	58	1	0	0	0	0	0	0	0	1	15194	175	7	5		5	SSSCA1	11	65338992	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	225590	65338992	69667524	879	22254										
PCNXL3	399909	broad.mit.edu	37	chr11	65397058	65397058	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgttcgctgcagcacacactGtgtggggacctggtgctggg	16	11	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:65397058G>T	uc001oey.2	+	26	4068	c.4068G>T	c.(4066-4068)CTG>CTT	p.L1356L	PCNXL3_uc001oez.2_Silent_p.L243L	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1356						integral to membrane					0						AGCACACACTGTGTGGGGACC	0.577													7	25	---	---	---	---	PASS	T	65397058	T	T	65397058	2	4	58	1	0	0	0	0	0	0	0	1	11593	1364	48	3		3	PCNXL3	11	65397058	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	58066	65397058	69609458	880	22255										
TSGA10IP	254187	broad.mit.edu	37	chr11	65714655	65714655	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagcatcgccacagatgtccGggctgtgcttcagccaagct	12	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:65714655G>T	uc001ogk.1	+	5	391	c.359G>T	c.(358-360)CGG>CTG	p.R120L	TSGA10IP_uc009yqw.1_RNA|TSGA10IP_uc009yqx.1_Intron	NM_152762	NP_689975	Q3SY00	T10IP_HUMAN	testis specific, 10 interacting protein	120											0						ACAGATGTCCGGGCTGTGCTT	0.637													6	11	---	---	---	---	PASS	T	65714655	T	T	65714655	3	4	58	1	0	0	0	0	1	0	0	0	16615	1116	39	1	369	1	TSGA10IP	11	65714655	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	317597	65714655	69291861	881	22256										
CD248	57124	broad.mit.edu	37	chr11	66083426	66083426	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgaggtcctgggaagcctggGcacccatggcccctgcaggg	16	14	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:66083426G>T	uc001ohm.1	-	1	1090	c.1073C>A	c.(1072-1074)GCC>GAC	p.A358D		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	358	Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	GGAAGCCTGGGCACCCATGGC	0.592													14	49	---	---	---	---	PASS	T	66083426	T	T	66083426	3	4	58	1	0	0	0	0	1	0	0	0	2989	1203	42	3	1204	3	CD248	11	66083426	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	368771	66083426	68923090	882	22257										
CD248	57124	broad.mit.edu	37	chr11	66083757	66083757	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacgtgaccatccacctcctCcacacattcgtgttcgcagc	6	18	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:66083757C>A	uc001ohm.1	-	1	759	c.742G>T	c.(742-744)GAG>TAG	p.E248*		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	248	Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	TCCACCTCCTCCACACATTCG	0.687													10	29	---	---	---	---	PASS	A	66083757	A	A	66083757	4	1	58	1	0	0	0	0	0	1	0	0	2989	864	30	2	1535	2	CD248	11	66083757	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	331	66083757	68922759	883	22258										
RBM4B	83759	broad.mit.edu	37	chr11	66444332	66444332	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aacttggttgaagctttgctCttattcttgctggcttccac	8	10	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:66444332C>G	uc001oja.2	-	1	888	c.219G>C	c.(217-219)AAG>AAC	p.K73N	RBM4B_uc001ojb.2_Missense_Mutation_p.K73N	NM_031492	NP_113680	Q9BQ04	RBM4B_HUMAN	RNA binding motif protein 4B	73					circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|RNA splicing	nucleolus	nucleotide binding|RNA binding|zinc ion binding				0						AAGCTTTGCTCTTATTCTTGC	0.493													82	221	---	---	---	---	PASS	G	66444332	G	G	66444332	3	3	58	1	0	0	0	0	1	0	0	0	13142	912	32	2	868	2	RBM4B	11	66444332	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	360575	66444332	68562184	884	22259										
FGF19	9965	broad.mit.edu	37	chr11	69514229	69514229	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctctgttcttgtacagctgcCgctgtttggcactgctcagg	11	12	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:69514229C>A	uc001opf.2	-	3	915	c.452G>T	c.(451-453)CGG>CTG	p.R151L		NM_005117	NP_005108	O95750	FGF19_HUMAN	fibroblast growth factor 19 precursor	151					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of bile acid biosynthetic process|nervous system development|positive regulation of cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of glucose import|positive regulation of JNK cascade	extracellular region	fibroblast growth factor receptor binding|growth factor activity			skin(1)	1	all_cancers(3;5.53e-114)|all_epithelial(3;1.34e-121)|Breast(3;9.28e-34)|all_lung(4;1.99e-21)|Lung NSC(4;4.65e-21)|Hepatocellular(3;6.15e-15)|Melanoma(5;1.89e-05)|Ovarian(3;0.0348)		Epithelial(3;3.05e-56)|all cancers(3;2.69e-50)|Lung(3;1.13e-16)|LUSC - Lung squamous cell carcinoma(11;3.74e-15)|STAD - Stomach adenocarcinoma(18;0.0278)|LUAD - Lung adenocarcinoma(13;0.0537)			GTACAGCTGCCGCTGTTTGGC	0.582													37	58	---	---	---	---	PASS	A	69514229	A	A	69514229	3	1	58	1	0	0	0	0	1	0	0	0	5847	652	23	1	202	1	FGF19	11	69514229	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3069897	69514229	65492287	885	22260										
SHANK2	22941	broad.mit.edu	37	chr11	70332401	70332401	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	catctccacctctgccttctCgtcctcttcctgcagggcgt	7	18	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:70332401C>T	uc001oqc.2	-	21	4075	c.3997G>A	c.(3997-3999)GAG>AAG	p.E1333K	SHANK2_uc010rqn.1_Missense_Mutation_p.E745K|SHANK2_uc001opz.2_Missense_Mutation_p.E738K|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	954	SH3-binding (Potential).				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)			TCTGCCTTCTCGTCCTCTTCC	0.602													16	74	---	---	---	---	PASS	T	70332401	T	T	70332401	3	4	58	1	0	0	0	0	1	0	0	0	14265	893	31	2	1560	2	SHANK2	11	70332401	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	818172	70332401	64674115	886	22261										
SHANK2	22941	broad.mit.edu	37	chr11	70332942	70332942	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccacgaaatggttttcgggCtccctgggcgtggcactcgg	14	13	0	0	rs138180057		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:70332942C>T	uc001oqc.2	-	21	3534	c.3456G>A	c.(3454-3456)GAG>GAA	p.E1152E	SHANK2_uc010rqn.1_Silent_p.E564E|SHANK2_uc001opz.2_Silent_p.E557E|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	773					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding	p.E557E(1)		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)			GGTTTTCGGGCTCCCTGGGCG	0.677													15	44	---	---	---	---	PASS	T	70332942	T	T	70332942	2	4	58	1	0	0	0	0	0	0	0	1	14265	796	28	3		3	SHANK2	11	70332942	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	541	70332942	64673574	887	22262										
NADSYN1	55191	broad.mit.edu	37	chr11	71184686	71184686	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggcagccaccaagtgctgcGcaaagccaacaccagggtgg	14	13	0	0	rs137910047		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:71184686G>C	uc001oqn.2	+	8	746	c.620G>C	c.(619-621)CGC>CCC	p.R207P	NADSYN1_uc001oqm.2_RNA|NADSYN1_uc001oqo.2_5'UTR	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	207	CN hydrolase.			R -> H (in Ref. 3; CAG33567).	NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CAAGTGCTGCGCAAAGCCAAC	0.557													23	80	---	---	---	---	PASS	C	71184686	C	C	71184686	3	2	58	1	0	0	0	0	1	0	0	0	10138	1087	38	4	650	4	NADSYN1	11	71184686	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	851744	71184686	63821830	888	22263										
PGM2L1	283209	broad.mit.edu	37	chr11	74047787	74047787	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcttcagttcttcctccagTaaagcagtgtcactgaggaa	8	10	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:74047787T>C	uc001ovb.1	-	14	2075	c.1779A>G	c.(1777-1779)TTA>TTG	p.L593L		NM_173582	NP_775853	Q6PCE3	PGM2L_HUMAN	phosphoglucomutase 2-like 1	593					glucose 1-phosphate metabolic process	cytosol	glucose-1,6-bisphosphate synthase activity|phosphoglucomutase activity			ovary(1)	1	Breast(11;3.32e-06)					CTTCCTCCAGTAAAGCAGTGT	0.353													29	61	---	---	---	---	PASS	C	74047787	C	C	74047787	2	2	58	1	0	0	0	0	0	0	0	1	11799	1635	57	5		5	PGM2L1	11	74047787	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	2863101	74047787	60958729	889	22264										
PAK1	5058	broad.mit.edu	37	chr11	77091007	77091007	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaatctgaagggagagaaaTctctggccgctctttctctt	9	9	4	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:77091007T>A	uc001oyh.3	-	3	756	c.223A>T	c.(223-225)ATT>TTT	p.I75F	PAK1_uc010rso.1_5'UTR|PAK1_uc001oyg.3_Missense_Mutation_p.I75F|PAK1_uc001oyi.1_Missense_Mutation_p.I75F	NM_002576	NP_002567	Q13153	PAK1_HUMAN	p21-activated kinase 1 isoform 2	75	CRIB.|GTPase-binding (By similarity).|Autoregulatory region.				apoptosis|axon guidance|cytoskeleton organization|ER-nucleus signaling pathway|positive regulation of JUN kinase activity|positive regulation of peptidyl-serine phosphorylation|protein autophosphorylation|T cell costimulation|T cell receptor signaling pathway	cytosol|focal adhesion|Golgi apparatus	ATP binding|collagen binding|protein binding|protein serine/threonine kinase activity			skin(2)|stomach(1)|lung(1)	4	all_cancers(14;1.75e-18)					GGGAGAGAAATCTCTGGCCGC	0.393													23	74	---	---	---	---	PASS	A	77091007	A	A	77091007	3	1	58	1	0	0	0	0	1	0	0	0	11399	1435	50	5	1519	5	PAK1	11	77091007	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	3043220	77091007	57915509	890	22265										
PRCP	5547	broad.mit.edu	37	chr11	82536103	82536103	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctctgagatggtgactgcaaCcagagtgtctgtgatatcct	11	9	2	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:82536103C>G	uc001ozs.2	-	9	1449	c.1336G>C	c.(1336-1338)GTT>CTT	p.V446L	PRCP_uc001ozr.2_Missense_Mutation_p.V467L	NM_005040	NP_005031	P42785	PCP_HUMAN	prolylcarboxypeptidase isoform 1 preproprotein	446					blood coagulation, intrinsic pathway|proteolysis	lysosome|plasma membrane	protein binding|serine-type carboxypeptidase activity			skin(1)	1						GTGACTGCAACCAGAGTGTCT	0.473													16	35	---	---	---	---	PASS	G	82536103	G	G	82536103	3	3	58	1	0	0	0	0	1	0	0	0	12449	507	18	4	158	4	PRCP	11	82536103	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5445096	82536103	52470413	891	22266										
DLG2	1740	broad.mit.edu	37	chr11	83585492	83585492	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagacggcccgttggagagtCattgaaggctgacgagttgc	16	8	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:83585492C>T	uc001paj.2	-	11	1524	c.1221G>A	c.(1219-1221)ATG>ATA	p.M407I	DLG2_uc001pai.2_Missense_Mutation_p.M304I|DLG2_uc010rsy.1_Missense_Mutation_p.M374I|DLG2_uc010rsz.1_Missense_Mutation_p.M407I|DLG2_uc010rta.1_Missense_Mutation_p.M407I|DLG2_uc001pak.2_Missense_Mutation_p.M512I|DLG2_uc010rtb.1_Missense_Mutation_p.M374I|DLG2_uc001pal.1_Missense_Mutation_p.M407I|DLG2_uc001pam.1_Missense_Mutation_p.M446I	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	407						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				GTTGGAGAGTCATTGAAGGCT	0.343													20	58	---	---	---	---	PASS	T	83585492	T	T	83585492	3	4	58	1	0	0	0	0	1	0	0	0	4555	826	29	2	1493	2	DLG2	11	83585492	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1049389	83585492	51421024	892	22267										
CCDC83	220047	broad.mit.edu	37	chr11	85630407	85630407	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cataggattatgtaaacttgGgccccctgggagtgaagctt	12	8	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:85630407G>T	uc001pbh.1	+	11	1608	c.1096G>T	c.(1096-1098)GGC>TGC	p.G366C	CCDC83_uc001pbg.1_Missense_Mutation_p.G397C|CCDC83_uc001pbi.1_RNA|CCDC83_uc001pbj.1_Missense_Mutation_p.G266C	NM_173556	NP_775827	Q8IWF9	CCD83_HUMAN	coiled-coil domain containing 83	366										skin(1)	1		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				TGTAAACTTGGGCCCCCTGGG	0.398													43	109	---	---	---	---	PASS	T	85630407	T	T	85630407	3	4	58	1	0	0	0	0	1	0	0	0	2857	1232	43	3	1231	3	CCDC83	11	85630407	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2044915	85630407	49376109	893	22268										
FOLH1B	219595	broad.mit.edu	37	chr11	89424086	89424086	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcggctatccactgtatcacAgtgtctatgaaacatatgag	9	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:89424086A>G	uc001pda.2	+	11	1262	c.736A>G	c.(736-738)AGT>GGT	p.S246G		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	246					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						ACTGTATCACAGTGTCTATGA	0.368													24	60	---	---	---	---	PASS	G	89424086	G	G	89424086	3	3	58	1	0	0	0	0	1	0	0	0	5980	188	7	5	770	5	FOLH1B	11	89424086	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	3793679	89424086	45582430	894	22269										
NAALAD2	10003	broad.mit.edu	37	chr11	89896533	89896533	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgggtatttggagctattgaCccaaccagtggggttgctgt	14	7	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:89896533C>A	uc001pdf.3	+	10	1240	c.1131C>A	c.(1129-1131)GAC>GAA	p.D377E	NAALAD2_uc009yvx.2_Missense_Mutation_p.D344E|NAALAD2_uc009yvy.2_Intron|NAALAD2_uc001pde.2_Missense_Mutation_p.D284E	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	377	Extracellular (Potential).|NAALADase.	Zinc 2; catalytic.|Zinc 1.			proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				GAGCTATTGACCCAACCAGTG	0.413													61	186	---	---	---	---	PASS	A	89896533	A	A	89896533	3	1	58	1	0	0	0	0	1	0	0	0	10128	506	18	3	1169	3	NAALAD2	11	89896533	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	472447	89896533	45109983	895	22270										
FAT3	120114	broad.mit.edu	37	chr11	92088254	92088254	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gataaagcaagtggtgccatCcgcttgagcaaagagcttga	12	8	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:92088254C>A	uc001pdj.3	+	1	2993	c.2976C>A	c.(2974-2976)ATC>ATA	p.I992I		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	992	Cadherin 9.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GTGGTGCCATCCGCTTGAGCA	0.463										TCGA Ovarian(4;0.039)			14	37	---	---	---	---	PASS	A	92088254	A	A	92088254	2	1	58	1	0	0	0	0	0	0	0	1	5691	845	30	2		2	FAT3	11	92088254	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2191721	92088254	42918262	896	22271										
FAT3	120114	broad.mit.edu	37	chr11	92534453	92534453	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagggggcatattcgtcatAgaacaggaaacaggcactat	11	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:92534453A>T	uc001pdj.3	+	9	8291	c.8274A>T	c.(8272-8274)ATA>ATT	p.I2758I		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2758	Extracellular (Potential).|Cadherin 25.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TATTCGTCATAGAACAGGAAA	0.478										TCGA Ovarian(4;0.039)			13	37	---	---	---	---	PASS	T	92534453	T	T	92534453	2	4	58	1	0	0	0	0	0	0	0	1	5691	410	15	5		5	FAT3	11	92534453	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	446199	92534453	42472063	897	22272										
FAT3	120114	broad.mit.edu	37	chr11	92564924	92564924	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcgtacaacatcagcgtgcgGgccactgaccagagtcctgg	12	13	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:92564924G>T	uc001pdj.3	+	13	9635	c.9618G>T	c.(9616-9618)CGG>CGT	p.R3206R		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3206	Cadherin 29.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCAGCGTGCGGGCCACTGACC	0.562										TCGA Ovarian(4;0.039)			6	16	---	---	---	---	PASS	T	92564924	T	T	92564924	2	4	58	1	0	0	0	0	0	0	0	1	5691	1219	43	3		3	FAT3	11	92564924	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	30471	92564924	42441592	898	22273										
FAT3	120114	broad.mit.edu	37	chr11	92577660	92577660	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttgcggtggagatgcacagCagcgagttctacaagccagc	13	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:92577660C>G	uc001pdj.3	+	18	11144	c.11127C>G	c.(11125-11127)AGC>AGG	p.S3709R	FAT3_uc001pdi.3_Missense_Mutation_p.S149R	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3709	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGATGCACAGCAGCGAGTTCT	0.547										TCGA Ovarian(4;0.039)			3	14	---	---	---	---	PASS	G	92577660	G	G	92577660	3	3	58	1	0	0	0	0	1	0	0	0	5691	709	25	4	11197	4	FAT3	11	92577660	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	12736	92577660	42428856	899	22274										
MTMR2	8898	broad.mit.edu	37	chr11	95595495	95595495	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtcagagttcctcgtacagCgccagtgaatggacatatat	10	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:95595495C>A	uc001pfu.2	-	4	551	c.298G>T	c.(298-300)GCT>TCT	p.A100S	MTMR2_uc001pfv.2_Missense_Mutation_p.A28S|MTMR2_uc001pfs.2_Missense_Mutation_p.A28S|MTMR2_uc001pft.2_Missense_Mutation_p.A28S|MTMR2_uc010ruj.1_Missense_Mutation_p.A83S	NM_016156	NP_057240	Q13614	MTMR2_HUMAN	myotubularin-related protein 2 isoform 1	100	GRAM.					nucleus	inositol or phosphatidylinositol phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CCTCGTACAGCGCCAGTGAAT	0.363													20	51	---	---	---	---	PASS	A	95595495	A	A	95595495	3	1	58	1	0	0	0	0	1	0	0	0	9944	768	27	1	1681	1	MTMR2	11	95595495	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3017835	95595495	39411021	900	22275										
PGR	5241	broad.mit.edu	37	chr11	100933286	100933286	+	Nonsense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggttttgtgttgtcatgtcCtgcatagatcacatctggtt							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:100933286C>A	uc001pgh.2	-	4	2847	c.2104G>T	c.(2104-2106)GGA>TGA	p.G702*	PGR_uc001pgg.2_Nonsense_Mutation_p.G83*|PGR_uc001pgi.2_Intron|PGR_uc009yww.1_Intron|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	702	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	TTGTCATGTCCTGCATAGATC	0.428													57	211	---	---	---	---	PASS	A	100933286	A	A	100933286	4	1	58	1	0	0	0	0	0	1	0	0	11805	690	24	3	717	3	PGR	11	100933286	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5337791	100933286	34073230	901	22276	497	2								
PGR	5241	broad.mit.edu	37	chr11	100933287	100933287	+	Silent	SNP	T	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggttttgtgttgtcatgtccTgcatagatcacatctggttc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:100933287T>A	uc001pgh.2	-	4	2846	c.2103A>T	c.(2101-2103)GCA>GCT	p.A701A	PGR_uc001pgg.2_Silent_p.A82A|PGR_uc001pgi.2_Intron|PGR_uc009yww.1_Intron|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	701	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	TGTCATGTCCTGCATAGATCA	0.428													58	209	---	---	---	---	PASS	A	100933287	A	A	100933287	2	1	58	1	0	0	0	0	0	0	0	1	11805	1567	55	5		5	PGR	11	100933287	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	1	100933287	34073229	902	22277	497	2								
PGR	5241	broad.mit.edu	37	chr11	100999141	100999141	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agagccatcctcctcctcaaCctccaccgcagcggcctgcg	8	20	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:100999141C>A	uc001pgh.2	-	1	1404	c.661G>T	c.(661-663)GTT>TTT	p.V221F	PGR_uc001pgi.2_Missense_Mutation_p.V221F|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	221	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	TCCTCCTCAACCTCCACCGCA	0.711													3	12	---	---	---	---	PASS	A	100999141	A	A	100999141	3	1	58	1	0	0	0	0	1	0	0	0	11805	507	18	3	2172	3	PGR	11	100999141	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	65854	100999141	34007375	903	22278										
MMP20	9313	broad.mit.edu	37	chr11	102477371	102477371	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcttgtgatggggggcatggGgcagagtgggcttccccagg	20	8	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:102477371G>T	uc001phc.2	-	6	861	c.848C>A	c.(847-849)CCC>CAC	p.P283H		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein	283					proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		GGGGGCATGGGGCAGAGTGGG	0.522													8	47	---	---	---	---	PASS	T	102477371	T	T	102477371	3	4	58	1	0	0	0	0	1	0	0	0	9659	1232	43	3	623	3	MMP20	11	102477371	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1478230	102477371	32529145	904	22279										
DDI1	414301	broad.mit.edu	37	chr11	103908673	103908673	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tatgctctaggatggtaagtGggcaagatgagtcttcggac	14	6	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:103908673G>A	uc001phr.2	+	1	1366	c.1123G>A	c.(1123-1125)GGG>AGG	p.G375R	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	375					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		GATGGTAAGTGGGCAAGATGA	0.443													23	54	---	---	---	---	PASS	A	103908673	A	A	103908673	3	1	58	1	0	0	0	0	1	0	0	0	4328	1348	47	3	1125	3	DDI1	11	103908673	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1431302	103908673	31097843	905	22280										
CUL5	8065	broad.mit.edu	37	chr11	107966404	107966404	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aactccctgatgctgaacttAggaggactttatgggttggt	12	7	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:107966404A>T	uc001pjv.2	+	16	2558	c.1891A>T	c.(1891-1893)AGG>TGG	p.R631W	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	631					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		TGCTGAACTTAGGAGGACTTT	0.363													31	131	---	---	---	---	PASS	T	107966404	T	T	107966404	3	4	58	1	0	0	0	0	1	0	0	0	4059	411	15	5	1953	5	CUL5	11	107966404	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	4057731	107966404	27040112	906	22281										
NPAT	4863	broad.mit.edu	37	chr11	108047022	108047022	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	actgctagattagtttcatcTgctaagactatactgggatt	8	7	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:108047022T>A	uc001pjz.3	-	12	1185	c.1083A>T	c.(1081-1083)GCA>GCT	p.A361A	NPAT_uc001pka.2_Silent_p.A156A	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	361					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		TAGTTTCATCTGCTAAGACTA	0.289													22	75	---	---	---	---	PASS	A	108047022	A	A	108047022	2	1	58	1	0	0	0	0	0	0	0	1	10566	1567	55	5		5	NPAT	11	108047022	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	80618	108047022	26959494	907	22282										
ATM	472	broad.mit.edu	37	chr11	108168091	108168091	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agatggcaataaaccacactGgtgaaaaagaagttctaggt	10	6	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:108168091G>T	uc001pkb.1	+	33	5372	c.4987G>T	c.(4987-4989)GGT>TGT	p.G1663C	ATM_uc009yxr.1_Missense_Mutation_p.G1663C|ATM_uc001pke.1_Missense_Mutation_p.G315C|ATM_uc001pkg.1_Missense_Mutation_p.G20C	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1663					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		AAACCACACTGGTGAAAAAGA	0.199			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			15	52	---	---	---	---	PASS	T	108168091	T	T	108168091	3	4	58	1	0	0	0	0	1	0	0	0	1109	1348	47	3	5113	3	ATM	11	108168091	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	121069	108168091	26838425	908	22283										
HTR3A	3359	broad.mit.edu	37	chr11	113857310	113857310	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagcatcttcctcatggtcaTggacatcgtgggcttctacc	9	13	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:113857310T>C	uc010rxb.1	+	7	1027	c.794T>C	c.(793-795)ATG>ACG	p.M265T	HTR3A_uc010rxa.1_Missense_Mutation_p.M265T|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Missense_Mutation_p.M244T	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	259	Helical; Name=1; (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	CTCATGGTCATGGACATCGTG	0.582													26	90	---	---	---	---	PASS	C	113857310	C	C	113857310	3	2	58	1	0	0	0	0	1	0	0	0	7444	1464	51	5	846	5	HTR3A	11	113857310	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	5689219	113857310	21149206	909	22284										
HTR3A	3359	broad.mit.edu	37	chr11	113857737	113857737	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcccagaggcccccagccacCtcccaagccaccaagactga	7	20	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:113857737C>T	uc010rxb.1	+	7	1454	c.1221C>T	c.(1219-1221)ACC>ACT	p.T407T	HTR3A_uc010rxa.1_Silent_p.T375T|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Silent_p.T354T	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	369	Cytoplasmic (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	CCCCAGCCACCTCCCAAGCCA	0.577													9	44	---	---	---	---	PASS	T	113857737	T	T	113857737	2	4	58	1	0	0	0	0	0	0	0	1	7444	668	24	3		3	HTR3A	11	113857737	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	427	113857737	21148779	910	22285										
HTR3A	3359	broad.mit.edu	37	chr11	113860256	113860256	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagcccgagggacagatgtaGccctcccccaccacctcggg	12	17	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:113860256G>T	uc010rxb.1	+	8	1555	c.1322G>T	c.(1321-1323)AGC>ATC	p.S441I	HTR3A_uc010rxa.1_Missense_Mutation_p.S409I|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Missense_Mutation_p.S388I	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	403	Cytoplasmic (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	GACAGATGTAGCCCTCCCCCA	0.627													33	100	---	---	---	---	PASS	T	113860256	T	T	113860256	3	4	58	1	0	0	0	0	1	0	0	0	7444	971	34	3	1378	3	HTR3A	11	113860256	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2519	113860256	21146260	911	22286										
ZBTB16	7704	broad.mit.edu	37	chr11	114121265	114121265	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagaagacgtacctctacctGtgctatgtgtgaagggaggc	14	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:114121265G>T	uc001pop.2	+	7	2274	c.2010G>T	c.(2008-2010)CTG>CTT	p.L670L	ZBTB16_uc001poq.2_Silent_p.L670L	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	670					apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		ACCTCTACCTGTGCTATGTGT	0.562													27	40	---	---	---	---	PASS	T	114121265	T	T	114121265	2	4	58	1	0	0	0	0	0	0	0	1	17523	1364	48	3		3	ZBTB16	11	114121265	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	261009	114121265	20885251	912	22287										
APOC3	345	broad.mit.edu	37	chr11	116701610	116701610	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcccaggtggcccagcaggcCaggtacacccgctggcctcc	12	18	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:116701610C>T	uc001ppt.1	+	3	223	c.177C>T	c.(175-177)GCC>GCT	p.A59A		NM_000040	NP_000031	P02656	APOC3_HUMAN	apolipoprotein C-III precursor	59				QQA -> AQQ (in Ref. 8; AA sequence).	Cdc42 protein signal transduction|cholesterol efflux|cholesterol homeostasis|chylomicron remnant clearance|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle remodeling|lipoprotein metabolic process|negative regulation of cholesterol import|negative regulation of fatty acid biosynthetic process|negative regulation of high-density lipoprotein particle clearance|negative regulation of lipoprotein lipase activity|negative regulation of low-density lipoprotein particle clearance|negative regulation of receptor-mediated endocytosis|negative regulation of triglyceride catabolic process|negative regulation of very-low-density lipoprotein particle clearance|negative regulation of very-low-density lipoprotein particle remodeling|phospholipid efflux|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle assembly	chylomicron|intermediate-density lipoprotein particle|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	high-density lipoprotein particle receptor binding|lipase inhibitor activity|phospholipid binding				0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		CCCAGCAGGCCAGGTACACCC	0.642													6	34	---	---	---	---	PASS	T	116701610	T	T	116701610	2	4	58	1	0	0	0	0	0	0	0	1	799	581	21	3		3	APOC3	11	116701610	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2580345	116701610	18304906	913	22288										
PAFAH1B2	5049	broad.mit.edu	37	chr11	117031909	117031909	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgcactgaattttggaattGggggagatacaacaagacat	11	5	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:117031909G>T	uc001pqe.1	+	4	322	c.220G>T	c.(220-222)GGG>TGG	p.G74W	PAFAH1B2_uc009yzk.1_Missense_Mutation_p.G74W|PAFAH1B2_uc009yzl.1_Missense_Mutation_p.G74W|PAFAH1B2_uc009yzm.2_RNA|PAFAH1B2_uc009yzn.2_RNA|PAFAH1B2_uc009yzj.1_Intron	NM_002572	NP_002563	P68402	PA1B2_HUMAN	platelet-activating factor acetylhydrolase,	74					lipid catabolic process	cytoplasm	1-alkyl-2-acetylglycerophosphocholine esterase activity			kidney(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;1.68e-05)|Epithelial(105;0.000162)|all cancers(92;0.00111)		TTTTGGAATTGGGGGAGATAC	0.348			T	IGH@	MLCLS								39	103	---	---	---	---	PASS	T	117031909	T	T	117031909	3	4	58	1	0	0	0	0	1	0	0	0	11385	1348	47	3	230	3	PAFAH1B2	11	117031909	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	330299	117031909	17974607	914	22289										
DSCAML1	57453	broad.mit.edu	37	chr11	117647604	117647604	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaagacggccacgttgccaCgcattgacctttgatcctcc	9	14	0	4	rs148829010		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:117647604C>A	uc001prh.1	-	3	595	c.593G>T	c.(592-594)CGT>CTT	p.R198L	DSCAML1_uc001pri.1_Missense_Mutation_p.R2L	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	138	Extracellular (Potential).|Ig-like C2-type 2.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CACGTTGCCACGCATTGACCT	0.522													11	37	---	---	---	---	PASS	A	117647604	A	A	117647604	3	1	58	1	0	0	0	0	1	0	0	0	4769	536	19	1	5872	1	DSCAML1	11	117647604	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	615695	117647604	17358912	915	22290										
TMEM25	84866	broad.mit.edu	37	chr11	118403633	118403633	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcctctgctttgtaccagtCaagccagagattgcccaagt	10	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:118403633C>G	uc010rye.1	+	4	558	c.384C>G	c.(382-384)TTC>TTG	p.F128L	TMEM25_uc010ryd.1_Missense_Mutation_p.F128L|TMEM25_uc001ptk.3_Missense_Mutation_p.F128L|TMEM25_uc001pth.2_Missense_Mutation_p.F128L|TMEM25_uc009zad.2_Missense_Mutation_p.F128L|TMEM25_uc001pti.2_Silent_p.V24V|TMEM25_uc010ryf.1_Intron|TMEM25_uc001ptl.2_Missense_Mutation_p.F128L|TMEM25_uc001ptm.2_Missense_Mutation_p.F128L|TMEM25_uc001ptn.2_Missense_Mutation_p.F128L	NM_032780	NP_116169	Q86YD3	TMM25_HUMAN	transmembrane protein 25 isoform 1	128	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane					0	all_hematologic(175;0.0349)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)		BRCA - Breast invasive adenocarcinoma(274;3.04e-05)		TTGTACCAGTCAAGCCAGAGA	0.612													34	81	---	---	---	---	PASS	G	118403633	G	G	118403633	3	3	58	1	0	0	0	0	1	0	0	0	16147	840	29	2	394	2	TMEM25	11	118403633	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	756029	118403633	16602883	916	22291										
C2CD2L	9854	broad.mit.edu	37	chr11	118983091	118983091	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaagtgctgaggagcagcaGctgtggagacagtaagtgag	16	6	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:118983091G>A	uc001pvo.2	+	8	1432	c.1073G>A	c.(1072-1074)AGC>AAC	p.S358N	C2CD2L_uc001pvn.2_Missense_Mutation_p.S358N	NM_014807	NP_055622	O14523	C2C2L_HUMAN	transmembrane protein 24	358						integral to membrane					0						AGGAGCAGCAGCTGTGGAGAC	0.622													24	46	---	---	---	---	PASS	A	118983091	A	A	118983091	3	1	58	1	0	0	0	0	1	0	0	0	2153	971	34	3	1103	3	C2CD2L	11	118983091	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	579458	118983091	16023425	917	22292										
CBL	867	broad.mit.edu	37	chr11	119148970	119148970	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtaaagattgagccctgtgGacacctcatgtgcacatcct	9	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:119148970G>T	uc001pwe.2	+	8	1328	c.1190G>T	c.(1189-1191)GGA>GTA	p.G397V		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral	397	Asp/Glu-rich (acidic).|RING-type.				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding	p.E366_Q409del(13)|p.G397_I429del(1)|p.E366_K477del(1)		haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		GAGCCCTGTGGACACCTCATG	0.383									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome				35	92	---	---	---	---	PASS	T	119148970	T	T	119148970	3	4	58	1	0	0	0	0	1	0	0	0	2700	1174	41	2	1220	2	CBL	11	119148970	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	165879	119148970	15857546	918	22293										
ARHGEF12	23365	broad.mit.edu	37	chr11	120352171	120352171	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttctggtccagcagcgctgGggagctatggagtattcctg	14	9	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:120352171G>A	uc001pxl.1	+	39	4447	c.4440G>A	c.(4438-4440)TGG>TGA	p.W1480*	ARHGEF12_uc009zau.1_Nonsense_Mutation_p.W1377*	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	1480					apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		AGCAGCGCTGGGGAGCTATGG	0.507			T	MLL	AML								24	59	---	---	---	---	PASS	A	120352171	A	A	120352171	4	1	58	1	0	0	0	0	0	1	0	0	897	1241	43	3	4594	3	ARHGEF12	11	120352171	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1203201	120352171	14654345	919	22294										
SORL1	6653	broad.mit.edu	37	chr11	121430366	121430366	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctacaaggggaagaacactGgtaagccagagtctcttctt	10	9	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:121430366G>A	uc001pxx.2	+	21	3129	c.3049G>A	c.(3049-3051)GGA>AGA	p.G1017R		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1017	Extracellular (Potential).				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		GAAGAACACTGGTAAGCCAGA	0.507													16	57	---	---	---	---	PASS	A	121430366	A	A	121430366	3	1	58	1	0	0	0	0	1	0	0	0	14934	1362	47	3	3131	3	SORL1	11	121430366	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1078195	121430366	13576150	920	22295										
OR10G8	219869	broad.mit.edu	37	chr11	123900904	123900904	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	actggcctgtgcagacacctCagccatagagactgtcattt	9	12	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:123900904C>A	uc001pzp.1	+	1	575	c.575C>A	c.(574-576)TCA>TAA	p.S192*		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	192	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		GCAGACACCTCAGCCATAGAG	0.507													31	117	---	---	---	---	PASS	A	123900904	A	A	123900904	4	1	58	1	0	0	0	0	0	1	0	0	10903	838	29	2	577	2	OR10G8	11	123900904	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2470538	123900904	11105612	921	22296										
OR8D2	283160	broad.mit.edu	37	chr11	124189528	124189528	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cattgatgtgggtgctggagCaagacagagtcaataagggg	16	5	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:124189528C>A	uc010sah.1	-	1	566	c.566G>T	c.(565-567)TGC>TTC	p.C189F		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0525)		GGTGCTGGAGCAAGACAGAGT	0.428													19	50	---	---	---	---	PASS	A	124189528	A	A	124189528	3	1	58	1	0	0	0	0	1	0	0	0	11232	710	25	3	372	3	OR8D2	11	124189528	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	288624	124189528	10816988	922	22297										
ROBO4	54538	broad.mit.edu	37	chr11	124757010	124757010	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctgggctggggccagagagGgaagaggcctgggggctagg	23	7	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:124757010G>A	uc001qbg.2	-	15	2438	c.2298C>T	c.(2296-2298)TCC>TCT	p.S766S	ROBO4_uc010sas.1_Silent_p.S621S|ROBO4_uc001qbh.2_Silent_p.S656S|ROBO4_uc001qbi.2_Silent_p.S324S	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	766	Pro/Ser-rich.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		GGCCAGAGAGGGAAGAGGCCT	0.677													10	42	---	---	---	---	PASS	A	124757010	A	A	124757010	2	1	58	1	0	0	0	0	0	0	0	1	13516	1219	43	3		3	ROBO4	11	124757010	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	567482	124757010	10249506	923	22298										
ROBO4	54538	broad.mit.edu	37	chr11	124766560	124766560	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctggatctggaaatcctccCggaggactgtggggaggatg	17	8	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:124766560C>A	uc001qbg.2	-	3	547	c.407G>T	c.(406-408)CGG>CTG	p.R136L	ROBO4_uc010sas.1_5'UTR|ROBO4_uc001qbh.2_Missense_Mutation_p.R26L|ROBO4_uc001qbi.2_5'Flank|ROBO4_uc010sat.1_5'Flank	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	136					angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		GAAATCCTCCCGGAGGACTGT	0.622													10	19	---	---	---	---	PASS	A	124766560	A	A	124766560	3	1	58	1	0	0	0	0	1	0	0	0	13516	652	23	1	2680	1	ROBO4	11	124766560	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	9550	124766560	10239956	924	22299										
ST14	6768	broad.mit.edu	37	chr11	130058447	130058447	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgggacgtgcgtgtccagaaGgtcttcaatggctacatgag	14	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:130058447G>T	uc001qfw.2	+	3	457	c.264G>T	c.(262-264)AAG>AAT	p.K88N	ST14_uc010sca.1_5'Flank	NM_021978	NP_068813	Q9Y5Y6	ST14_HUMAN	matriptase	88	Extracellular (Potential).				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(2)|skin(2)|central_nervous_system(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000602)|Breast(109;0.000962)|all_lung(97;0.00126)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0183)|Lung(977;0.228)	Urokinase(DB00013)	GTGTCCAGAAGGTCTTCAATG	0.557													38	107	---	---	---	---	PASS	T	130058447	T	T	130058447	3	4	58	1	0	0	0	0	1	0	0	0	15210	991	35	3	274	3	ST14	11	130058447	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5291887	130058447	4948069	925	22300										
OPCML	4978	broad.mit.edu	37	chr11	132527091	132527091	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttttggatcatgatgctgtaCtgggttggtgtattgaccag	13	5	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr11:132527091C>G	uc001qgs.2	-	2	341	c.291G>C	c.(289-291)CAG>CAC	p.Q97H	OPCML_uc001qgu.2_Missense_Mutation_p.Q90H|OPCML_uc010sck.1_Missense_Mutation_p.Q97H|OPCML_uc001qgt.2_Missense_Mutation_p.Q97H|OPCML_uc010scl.1_Missense_Mutation_p.Q56H	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	97	Ig-like C2-type 1.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		TGATGCTGTACTGGGTTGGTG	0.527													32	96	---	---	---	---	PASS	G	132527091	G	G	132527091	3	3	58	1	0	0	0	0	1	0	0	0	10874	564	20	4	770	4	OPCML	11	132527091	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2468644	132527091	2479425	926	22301										
CACNA2D4	93589	broad.mit.edu	37	chr12	1995152	1995152	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctcgattgtctcggtccgcCtggacgaggatccctttaaa	10	12	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:1995152C>A	uc001qjp.2	-	9	1278	c.1047G>T	c.(1045-1047)CAG>CAT	p.Q349H	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Missense_Mutation_p.Q265H	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	349	VWFA.|Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		CTCGGTCCGCCTGGACGAGGA	0.537													25	26	---	---	---	---	PASS	A	1995152	A	A	1995152	3	1	58	1	0	0	0	0	1	0	0	0	2551	680	24	3	2486	3	CACNA2D4	12	1995152	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08		1995152	131856743	927	22302										
KCNA5	3741	broad.mit.edu	37	chr12	5154071	5154071	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgggtccgcgcgggccatcgCcatcgtctcggtcttggtta	14	13	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:5154071C>G	uc001qni.2	+	1	987	c.758C>G	c.(757-759)GCC>GGC	p.A253G		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	253	Helical; Name=Segment S1; (Potential).					Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						CGGGCCATCGCCATCGTCTCG	0.592													123	192	---	---	---	---	PASS	G	5154071	G	G	5154071	3	3	58	1	0	0	0	0	1	0	0	0	8006	739	26	4	760	4	KCNA5	12	5154071	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3158919	5154071	128697824	928	22303										
NTF3	4908	broad.mit.edu	37	chr12	5603961	5603961	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acaatatttttatgaaacgcGatgtaaggaagccaggccgg	11	7	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:5603961G>C	uc001qnl.3	+	1	664	c.581G>C	c.(580-582)CGA>CCA	p.R194P	NTF3_uc001qnk.3_Missense_Mutation_p.R207P	NM_002527	NP_002518	P20783	NTF3_HUMAN	neurotrophin 3 isoform 2 preproprotein	194					signal transduction	extracellular region	growth factor activity|neurotrophin receptor binding			pancreas(1)	1						TATGAAACGCGATGTAAGGAA	0.507													64	86	---	---	---	---	PASS	C	5603961	C	C	5603961	3	2	58	1	0	0	0	0	1	0	0	0	10696	1058	37	2	626	2	NTF3	12	5603961	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	449890	5603961	128247934	929	22304										
VWF	7450	broad.mit.edu	37	chr12	6125732	6125732	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgacgtccacaaggctcagcAaatgggctttctccgggacc	11	13	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:6125732A>T	uc001qnn.1	-	30	5511	c.5261T>A	c.(5260-5262)TTG>TAG	p.L1754*	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1754	VWFA 3; main binding site for collagens type I and III.				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)	AAGGCTCAGCAAATGGGCTTT	0.473													40	72	---	---	---	---	PASS	T	6125732	T	T	6125732	4	4	58	1	0	0	0	0	0	1	0	0	17243	131	5	5	3272	5	VWF	12	6125732	Nonsense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	521771	6125732	127726163	930	22305										
TNFRSF1A	7132	broad.mit.edu	37	chr12	6438776	6438776	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaccacggcgtacagcgtcGcggggtcatcagctgcgggg	16	14	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:6438776G>A	uc001qnu.2	-	10	1351	c.1070C>T	c.(1069-1071)GCG>GTG	p.A357V	TNFRSF1A_uc001qnt.2_Missense_Mutation_p.A249V|TNFRSF1A_uc010sey.1_Missense_Mutation_p.A125V|TNFRSF1A_uc010sez.1_Missense_Mutation_p.A249V|TNFRSF1A_uc009zek.2_Missense_Mutation_p.A314V	NM_001065	NP_001056	P19438	TNR1A_HUMAN	tumor necrosis factor receptor 1 precursor	357	Death.|Cytoplasmic (Potential).				apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|inflammatory response|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of inflammatory response|positive regulation of transcription from RNA polymerase II promoter|prostaglandin metabolic process	extracellular region|integral to plasma membrane|membrane raft	tumor necrosis factor receptor activity			lung(2)|skin(1)	3						GTACAGCGTCGCGGGGTCATC	0.726													5	33	---	---	---	---	PASS	A	6438776	A	A	6438776	3	1	58	1	0	0	0	0	1	0	0	0	16290	1087	38	1	301	1	TNFRSF1A	12	6438776	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	313044	6438776	127413119	931	22306										
GAPDH	2597	broad.mit.edu	37	chr12	6645907	6645907	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccatggcaccgtcaaggctGagaacgggaagcttgtcatc	12	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:6645907G>A	uc001qop.1	+	4	289	c.187G>A	c.(187-189)GAG>AAG	p.E63K	GAPDH_uc009zep.1_Missense_Mutation_p.E21K|GAPDH_uc001qoq.1_5'UTR|GAPDH_uc001qor.1_5'UTR|GAPDH_uc001qos.1_Missense_Mutation_p.E63K|GAPDH_uc001qot.1_Missense_Mutation_p.E63K|GAPDH_uc001qou.1_5'UTR|GAPDH_uc001qov.1_Missense_Mutation_p.E21K|GAPDH_uc001qow.1_Silent_p.L14L|GAPDH_uc001qox.1_5'Flank	NM_002046	NP_002037	P04406	G3P_HUMAN	glyceraldehyde-3-phosphate dehydrogenase	63	Interaction with WARS.				gluconeogenesis|glycolysis|neuron apoptosis|peptidyl-cysteine S-trans-nitrosylation|protein stabilization	cytosol|membrane|nucleus|perinuclear region of cytoplasm	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity|NAD binding|peptidyl-cysteine S-nitrosylase activity|protein binding				0					NADH(DB00157)	CGTCAAGGCTGAGAACGGGAA	0.498													97	138	---	---	---	---	PASS	A	6645907	A	A	6645907	3	1	58	1	0	0	0	0	1	0	0	0	6236	1291	45	2	197	2	GAPDH	12	6645907	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	207131	6645907	127205988	932	22307										
CLEC6A	93978	broad.mit.edu	37	chr12	8629926	8629926	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttcctttagattttggcacCtaggtgagcccaatcattct	7	10	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:8629926C>T	uc001qum.1	+	6	613	c.496C>T	c.(496-498)CTA>TTA	p.L166L		NM_001007033	NP_001007034	Q6EIG7	CLC6A_HUMAN	dectin-2	166	Extracellular (Potential).|C-type lectin.				defense response to fungus|innate immune response|positive regulation of cytokine secretion|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	sugar binding			breast(1)	1	Lung SC(5;0.184)					ATTTTGGCACCTAGGTGAGCC	0.403													66	219	---	---	---	---	PASS	T	8629926	T	T	8629926	2	4	58	1	0	0	0	0	0	0	0	1	3520	680	24	3		3	CLEC6A	12	8629926	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1984019	8629926	125221969	933	22308										
PZP	5858	broad.mit.edu	37	chr12	9356370	9356370	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accgtagcactcacagtgaaGgagacacagtggaataagtc	11	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:9356370G>C	uc001qvl.2	-	2	290	c.261C>G	c.(259-261)TCC>TCG	p.S87S	PZP_uc009zgl.2_5'UTR	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						TCACAGTGAAGGAGACACAGT	0.512													43	123	---	---	---	---	PASS	C	9356370	C	C	9356370	2	2	58	1	0	0	0	0	0	0	0	1	12869	987	35	4		4	PZP	12	9356370	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	726444	9356370	124495525	934	22309										
CLEC2D	29121	broad.mit.edu	37	chr12	9845509	9845509	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accatggaaatggataaatgGtactgaatggacaagacagt	11	5	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:9845509G>T	uc001qwg.1	+	4	465	c.443G>T	c.(442-444)GGT>GTT	p.G148V	CLEC2D_uc001qwf.1_Missense_Mutation_p.G148V|CLEC2D_uc009zgs.1_RNA|CLEC2D_uc001qwh.1_RNA|CLEC2D_uc009zgt.1_Intron|CLEC2D_uc009zgu.1_Intron	NM_013269	NP_037401	Q9UHP7	CLC2D_HUMAN	osteoclast inhibitory lectin isoform 1	148	Extracellular (Potential).|C-type lectin.				cell surface receptor linked signaling pathway	cell surface|endoplasmic reticulum|integral to plasma membrane|membrane fraction	sugar binding|transmembrane receptor activity				0						TGGATAAATGGTACTGAATGG	0.363													26	71	---	---	---	---	PASS	T	9845509	T	T	9845509	3	4	58	1	0	0	0	0	1	0	0	0	3508	1261	44	3	457	3	CLEC2D	12	9845509	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	489139	9845509	124006386	935	22310										
CLEC12A	160364	broad.mit.edu	37	chr12	10137593	10137593	+	Frame_Shift_Del	DEL	C	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agaagatggccaatccagtgCagcttggttctacatatttt							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:10137593delC	uc001qwr.3	+	6	954	c.766delC	c.(766-768)CAGfs	p.Q256fs	CLEC12A_uc001qwq.2_Frame_Shift_Del_p.Q266fs|CLEC12A_uc001qws.3_Frame_Shift_Del_p.Q223fs|CLEC12A_uc001qwt.2_Frame_Shift_Del_p.Q185fs	NM_138337	NP_612210	Q5QGZ9	CL12A_HUMAN	myeloid inhibitory C-type lectin-like receptor	256	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity|sugar binding			skin(1)	1						caatccagtgcagcttggttc	0.075													16	9	---	---	---	---		-	10137593	-	-	10137593	7	5	58	1	0	1	0	1	0	0	0	0	3497	711	25	0	788	0	CLEC12A	12	10137593	Frame_Shift_Del	DEL	C	TCGA-33-4566-01A-01D-1441-08	292084	10137593	123714302	936	22311										
TAS2R10	50839	broad.mit.edu	37	chr12	10978682	10978682	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tatctgtataaatccatctgTaattattatccatatcagaa	3	7	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:10978682T>C	uc001qyy.1	-	1	187	c.187A>G	c.(187-189)ACA>GCA	p.T63A		NM_023921	NP_076410	Q9NYW0	T2R10_HUMAN	taste receptor, type 2, member 10	63	Helical; Name=2; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity				0						AATCCATCTGTAATTATTATC	0.313													61	73	---	---	---	---	PASS	C	10978682	C	C	10978682	3	2	58	1	0	0	0	0	1	0	0	0	15563	1638	57	5	740	5	TAS2R10	12	10978682	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	841089	10978682	122873213	937	22312										
C12orf36	283422	broad.mit.edu	37	chr12	13526185	13526185	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcattgatgcctcacatcttCctcaattttctgcttctttt	4	12	5	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:13526185C>A	uc001rbs.1	-	3	588	c.370G>T	c.(370-372)GAA>TAA	p.E124*		NM_182558	NP_872364			hypothetical protein LOC283422												0				BRCA - Breast invasive adenocarcinoma(232;0.198)		CTCACATCTTCCTCAATTTTC	0.408													81	232	---	---	---	---	PASS	A	13526185	A	A	13526185	4	1	58	1	0	0	0	0	0	1	0	0	1683	864	30	2	50	2	C12orf36	12	13526185	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2547503	13526185	120325710	938	22313										
GUCY2C	2984	broad.mit.edu	37	chr12	14840956	14840956	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcctgagttatgaatcagacCatccgaatacatgaaagtag	9	8	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:14840956C>A	uc001rcd.2	-	2	396	c.259G>T	c.(259-261)GGT>TGT	p.G87C	GUCY2C_uc009zhz.2_Missense_Mutation_p.G87C	NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	87	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TGAATCAGACCATCCGAATAC	0.433													65	126	---	---	---	---	PASS	A	14840956	A	A	14840956	3	1	58	1	0	0	0	0	1	0	0	0	6896	594	21	3	3066	3	GUCY2C	12	14840956	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1314771	14840956	119010939	939	22314										
WBP11	51729	broad.mit.edu	37	chr12	14949838	14949838	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaatatctggattctcttttTcatagagtcgtagaatacgt	7	6	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:14949838T>A	uc001rci.2	-	5	451	c.290A>T	c.(289-291)GAA>GTA	p.E97V		NM_016312	NP_057396	Q9Y2W2	WBP11_HUMAN	WW domain binding protein 11	97	Potential.				mRNA processing|RNA splicing|rRNA processing	cytoplasm	single-stranded DNA binding|WW domain binding			ovary(1)|lung(1)	2						ATTCTCTTTTTCATAGAGTCG	0.368													77	166	---	---	---	---	PASS	A	14949838	A	A	14949838	3	1	58	1	0	0	0	0	1	0	0	0	17255	1783	62	5	1667	5	WBP11	12	14949838	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	108882	14949838	118902057	940	22315										
EPS8	2059	broad.mit.edu	37	chr12	15823797	15823797	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaagcatcttacttcaacaCggtattgagatatatctgac	6	9	3	2	rs77383735		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:15823797C>A	uc009zif.2	-	4	291	c.197G>T	c.(196-198)CGT>CTT	p.R66L	EPS8_uc001rdb.2_Missense_Mutation_p.R66L|EPS8_uc009zig.2_5'UTR	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	66					cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		TACTTCAACACGGTATTGAGA	0.353													82	128	---	---	---	---	PASS	A	15823797	A	A	15823797	3	1	58	1	0	0	0	0	1	0	0	0	5194	536	19	1	2343	1	EPS8	12	15823797	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	873959	15823797	118028098	941	22316										
MGST1	4257	broad.mit.edu	37	chr12	16516939	16516939	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tatggagttactctttccatGgcttacaggttgctgaaaag	10	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:16516939G>T	uc001rdf.2	+	4	497	c.432G>T	c.(430-432)ATG>ATT	p.M144I	MGST1_uc001rdg.2_Missense_Mutation_p.M144I|MGST1_uc009zih.1_Intron|MGST1_uc001rdh.2_Missense_Mutation_p.M144I|MGST1_uc001rdi.2_Missense_Mutation_p.M144I	NM_145792	NP_665735	P10620	MGST1_HUMAN	microsomal glutathione S-transferase 1	144	Helical; (By similarity).				protein homotrimerization|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane	glutathione transferase activity				0		Hepatocellular(102;0.121)			Glutathione(DB00143)	CTCTTTCCATGGCTTACAGGT	0.388													116	141	---	---	---	---	PASS	T	16516939	T	T	16516939	3	4	58	1	0	0	0	0	1	0	0	0	9560	1348	47	3	442	3	MGST1	12	16516939	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	693142	16516939	117334956	942	22317										
CAPZA3	93661	broad.mit.edu	37	chr12	18892099	18892099	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgttgtgcaactggataatAtaaagaattgctcctggtaa	10	5	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:18892099A>G	uc001rdy.2	+	1	1055	c.897A>G	c.(895-897)ATA>ATG	p.I299M	PLCZ1_uc001rdv.3_5'Flank|PLCZ1_uc001rdw.3_5'Flank|PLCZ1_uc010sid.1_5'Flank	NM_033328	NP_201585	Q96KX2	CAZA3_HUMAN	capping protein alpha 3	299					actin cytoskeleton organization|actin filament capping	F-actin capping protein complex	actin binding			ovary(1)|central_nervous_system(1)	2	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)	Hepatocellular(102;0.194)				ACTGGATAATATAAAGAATTG	0.353													241	141	---	---	---	---	PASS	G	18892099	G	G	18892099	3	3	58	1	0	0	0	0	1	0	0	0	2642	439	16	5	899	5	CAPZA3	12	18892099	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	2375160	18892099	114959796	943	22318										
PDE3A	5139	broad.mit.edu	37	chr12	20522893	20522893	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agcgcggtcaggaccgtgtcCctcatttccttagagaggtt	12	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:20522893C>A	uc001reh.1	+	1	697	c.675C>A	c.(673-675)TCC>TCA	p.S225S		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	225	Helical; (Potential).				lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	GGACCGTGTCCCTCATTTCCT	0.622													41	150	---	---	---	---	PASS	A	20522893	A	A	20522893	2	1	58	1	0	0	0	0	0	0	0	1	11637	610	22	3		3	PDE3A	12	20522893	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1630794	20522893	113329002	944	22319										
SLCO1B1	10599	broad.mit.edu	37	chr12	21331906	21331906	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caatcattggctttaccctgGgatctctgttttctaaaatg	7	9	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:21331906G>T	uc001req.3	+	7	783	c.679G>T	c.(679-681)GGA>TGA	p.G227*		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	227	Helical; Name=5; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	CTTTACCCTGGGATCTCTGTT	0.353													257	187	---	---	---	---	PASS	T	21331906	T	T	21331906	4	4	58	1	0	0	0	0	0	1	0	0	14723	1233	43	3	701	3	SLCO1B1	12	21331906	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	809013	21331906	112519989	945	22320										
RECQL	5965	broad.mit.edu	37	chr12	21643203	21643203	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtaggcataacaagaaatacCtcctttccagccattgttac	6	11	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:21643203C>G	uc001rex.2	-	5	672	c.324G>C	c.(322-324)GAG>GAC	p.E108D	RECQL_uc001rey.2_Missense_Mutation_p.E108D	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	108	Helicase ATP-binding.				DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						CAAGAAATACCTCCTTTCCAG	0.353								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					72	295	---	---	---	---	PASS	G	21643203	G	G	21643203	3	3	58	1	0	0	0	0	1	0	0	0	13201	680	24	4	1673	4	RECQL	12	21643203	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	311297	21643203	112208692	946	22321										
ST8SIA1	6489	broad.mit.edu	37	chr12	22487129	22487129	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagtacagccatggcccctCtggacgtttgtcgccgggcc	12	16	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:22487129C>A	uc001rfo.3	-	1	520	c.38G>T	c.(37-39)AGA>ATA	p.R13I	ST8SIA1_uc009zix.2_5'UTR|uc001rfp.1_Intron	NM_003034	NP_003025	Q92185	SIA8A_HUMAN	alpha-2,8-sialyltransferase 1	13	Cytoplasmic (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(3)	3						CATGGCCCCTCTGGACGTTTG	0.697													32	110	---	---	---	---	PASS	A	22487129	A	A	22487129	3	1	58	1	0	0	0	0	1	0	0	0	15230	913	32	2	1052	2	ST8SIA1	12	22487129	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	843926	22487129	111364766	947	22322										
ITPR2	3709	broad.mit.edu	37	chr12	26750058	26750058	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tatcagcacgtcttcaccccCatttatcaactgaaatgata	4	12	4	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:26750058C>A	uc001rhg.2	-	31	4429	c.4012G>T	c.(4012-4014)GGG>TGG	p.G1338W		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1338	Cytoplasmic (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)					TCTTCACCCCCATTTATCAAC	0.408													266	214	---	---	---	---	PASS	A	26750058	A	A	26750058	3	1	58	1	0	0	0	0	1	0	0	0	7921	594	21	3	4201	3	ITPR2	12	26750058	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4262929	26750058	107101837	948	22323										
ITPR2	3709	broad.mit.edu	37	chr12	26807026	26807026	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcactgaaactataaaatcCaaagtatataagattccgag	5	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:26807026C>A	uc001rhg.2	-	21	3040	c.2623G>T	c.(2623-2625)GGA>TGA	p.G875*		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	875	Cytoplasmic (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)					CTATAAAATCCAAAGTATATA	0.373													34	154	---	---	---	---	PASS	A	26807026	A	A	26807026	4	1	58	1	0	0	0	0	0	1	0	0	7921	603	21	3	5630	3	ITPR2	12	26807026	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	56968	26807026	107044869	949	22324										
PPFIBP1	8496	broad.mit.edu	37	chr12	27829480	27829480	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtcagatcttcctttggccgGggcttttttaaaatcaaaag	9	8	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:27829480G>T	uc001ric.1	+	18	1958	c.1581G>T	c.(1579-1581)CGG>CGT	p.R527R	PPFIBP1_uc010sjr.1_Silent_p.R358R|PPFIBP1_uc001rib.1_Silent_p.R510R|PPFIBP1_uc001ria.2_Silent_p.R496R|PPFIBP1_uc001rid.1_Silent_p.R374R|PPFIBP1_uc001rif.1_5'Flank	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	527					cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					CCTTTGGCCGGGGCTTTTTTA	0.502													196	123	---	---	---	---	PASS	T	27829480	T	T	27829480	2	4	58	1	0	0	0	0	0	0	0	1	12313	1219	43	3		3	PPFIBP1	12	27829480	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1022454	27829480	106022415	950	22325										
FAR2	55711	broad.mit.edu	37	chr12	29423493	29423493	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttcgcaccagcccagacctGaaagtcatttacatccttgt	6	13	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:29423493G>A	uc001ris.3	+	2	258	c.111G>A	c.(109-111)CTG>CTA	p.L37L	FAR2_uc001rit.2_Silent_p.L37L|FAR2_uc009zjm.2_Intron	NM_018099	NP_060569	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	37					ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0						GCCCAGACCTGAAAGTCATTT	0.527													103	54	---	---	---	---	PASS	A	29423493	A	A	29423493	2	1	58	1	0	0	0	0	0	0	0	1	5675	1277	45	2		2	FAR2	12	29423493	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1594013	29423493	104428402	951	22326										
OVCH1	341350	broad.mit.edu	37	chr12	29628067	29628067	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcacttttaaagtatatcacCgtcatgttactagaactgaa	5	8	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:29628067C>A	uc001rix.1	-	14	1527	c.1527G>T	c.(1525-1527)ACG>ACT	p.T509T		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	509	CUB 2.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					AGTATATCACCGTCATGTTAC	0.308													11	29	---	---	---	---	PASS	A	29628067	A	A	29628067	2	1	58	1	0	0	0	0	0	0	0	1	11323	639	23	1		1	OVCH1	12	29628067	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	204574	29628067	104223828	952	22327										
OVCH1	341350	broad.mit.edu	37	chr12	29648348	29648348	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcttatccttctgaaagagGctgtactccccagaagtcac	8	12	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:29648348G>C	uc001rix.1	-	4	324	c.324C>G	c.(322-324)AGC>AGG	p.S108R		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	108	Peptidase S1 1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					TCTGAAAGAGGCTGTACTCCC	0.388													49	195	---	---	---	---	PASS	C	29648348	C	C	29648348	3	2	58	1	0	0	0	0	1	0	0	0	11323	1194	42	4	3180	4	OVCH1	12	29648348	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	20281	29648348	104203547	953	22328										
DDX11	1663	broad.mit.edu	37	chr12	31236942	31236942	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgctggagaaccggcctggGttactcagtttgtgcagaag	14	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:31236942G>A	uc001rjt.1	+	3	591	c.340G>A	c.(340-342)GTT>ATT	p.V114I	DDX11_uc010sjw.1_Missense_Mutation_p.V114I|DDX11_uc010sjx.1_RNA|DDX11_uc001rjr.1_Missense_Mutation_p.V114I|DDX11_uc001rjs.1_Missense_Mutation_p.V114I|DDX11_uc001rju.1_5'UTR|DDX11_uc001rjv.1_Missense_Mutation_p.V114I|DDX11_uc001rjw.1_Missense_Mutation_p.V88I	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	114	Helicase ATP-binding.				G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					ACCGGCCTGGGTTACTCAGTT	0.562										Multiple Myeloma(12;0.14)			89	284	---	---	---	---	PASS	A	31236942	A	A	31236942	3	1	58	1	0	0	0	0	1	0	0	0	4343	1261	44	3	346	3	DDX11	12	31236942	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1588594	31236942	102614953	954	22329										
LRRK2	120892	broad.mit.edu	37	chr12	40740726	40740726	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatacaaggaaaattacctgGtaagttctgttttctctaca	6	7	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:40740726G>T	uc001rmg.3	+	42	6401	c.6280_splice	c.e42+1	p.D2094_splice	LRRK2_uc009zjw.2_Splice_Site_p.D932_splice|LRRK2_uc001rmi.2_Splice_Site_p.D927_splice	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2						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)				AAATTACCTGGTAAGTTCTGT	0.294													27	39	---	---	---	---	PASS	T	40740726	T	T	40740726	5	4	58	1	0	0	0	0	0	0	1	0	9033	1275	44	3	6447	3	LRRK2	12	40740726	Splice_Site	SNP	G	TCGA-33-4566-01A-01D-1441-08	9503784	40740726	93111169	955	22330										
CNTN1	1272	broad.mit.edu	37	chr12	41327336	41327336	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcattgatgggccaaaatgtGaccttagaatgttttgcact	10	7	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:41327336G>C	uc001rmm.1	+	8	890	c.777G>C	c.(775-777)GTG>GTC	p.V259V	CNTN1_uc009zjy.1_Silent_p.V259V|CNTN1_uc001rmn.1_Silent_p.V248V|CNTN1_uc001rmo.2_Silent_p.V259V	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	259	Ig-like C2-type 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				GCCAAAATGTGACCTTAGAAT	0.294													81	94	---	---	---	---	PASS	C	41327336	C	C	41327336	2	2	58	1	0	0	0	0	0	0	0	1	3640	1277	45	2		2	CNTN1	12	41327336	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	586610	41327336	92524559	956	22331										
SLC38A4	55089	broad.mit.edu	37	chr12	47178371	47178371	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acaaaagctccaatttttccCggccatccaaatgccttttc	4	14	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:47178371C>A	uc001rpi.2	-	7	846	c.447G>T	c.(445-447)CCG>CCT	p.P149P	SLC38A4_uc001rpj.2_Silent_p.P149P|SLC38A4_uc009zkl.2_Silent_p.P149P	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	149	Cytoplasmic (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)					CAATTTTTCCCGGCCATCCAA	0.333													48	52	---	---	---	---	PASS	A	47178371	A	A	47178371	2	1	58	1	0	0	0	0	0	0	0	1	14606	639	23	1		1	SLC38A4	12	47178371	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	5851035	47178371	86673524	957	22332										
MLL2	8085	broad.mit.edu	37	chr12	49431527	49431527	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccagcagggaggatcctccTgggccactcagtgggctggg	16	12	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:49431527T>A	uc001rta.3	-	34	9612	c.9612A>T	c.(9610-9612)CCA>CCT	p.P3204P		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3204					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGGATCCTCCTGGGCCACTCA	0.602			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			6	10	---	---	---	---	PASS	A	49431527	A	A	49431527	2	1	58	1	0	0	0	0	0	0	0	1	9621	1567	55	5		5	MLL2	12	49431527	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	2253156	49431527	84420368	958	22333										
PRPF40B	25766	broad.mit.edu	37	chr12	50026907	50026907	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgctcaagtccaaggcagaGgtcctgagctgggctttctg	14	10	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:50026907G>T	uc001rur.1	+	6	457	c.393G>T	c.(391-393)GAG>GAT	p.E131D	PRPF40B_uc001rup.1_Missense_Mutation_p.E153D|PRPF40B_uc001ruq.1_Missense_Mutation_p.E125D|PRPF40B_uc001rus.1_Missense_Mutation_p.E74D	NM_001031698	NP_001026868	Q6NWY9	PR40B_HUMAN	Huntingtin interacting protein C isoform 1	131					mRNA processing|RNA splicing	nuclear speck				skin(2)|ovary(1)|pancreas(1)|kidney(1)	5						CCAAGGCAGAGGTCCTGAGCT	0.557													8	5	---	---	---	---	PASS	T	50026907	T	T	50026907	3	4	58	1	0	0	0	0	1	0	0	0	12572	1014	35	3	415	3	PRPF40B	12	50026907	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	595380	50026907	83824988	959	22334										
KRT75	9119	broad.mit.edu	37	chr12	52828050	52828050	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtggtgctgaagcccctgcgGctgccagactggaaggtgat	16	10	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:52828050G>T	uc001saj.2	-	1	61	c.39C>A	c.(37-39)AGC>AGA	p.S13R		NM_004693	NP_004684	O95678	K2C75_HUMAN	keratin 75	13	Head.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.192)		AGCCCCTGCGGCTGCCAGACT	0.672													12	4	---	---	---	---	PASS	T	52828050	T	T	52828050	3	4	58	1	0	0	0	0	1	0	0	0	8488	1194	42	3	1652	3	KRT75	12	52828050	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2801143	52828050	81023845	960	22335										
OR6C65	403282	broad.mit.edu	37	chr12	55795096	55795096	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttatgtgtgtaaaaacatctGcaaaagaaggtatggctttg	10	4	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:55795096G>C	uc010spl.1	+	1	784	c.784G>C	c.(784-786)GCA>CCA	p.A262P		NM_001005518	NP_001005518	A6NJZ3	O6C65_HUMAN	olfactory receptor, family 6, subfamily C,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AAAAACATCTGCAAAAGAAGG	0.388													75	61	---	---	---	---	PASS	C	55795096	C	C	55795096	3	2	58	1	0	0	0	0	1	0	0	0	11195	1319	46	4	786	4	OR6C65	12	55795096	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2967046	55795096	78056799	961	22336										
OR10P1	121130	broad.mit.edu	37	chr12	56030896	56030896	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtggtggagctcttctacaCcactgacatcgtgcccagga	11	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:56030896C>A	uc010spq.1	+	1	221	c.221C>A	c.(220-222)ACC>AAC	p.T74N		NM_206899	NP_996782	Q8NGE3	O10P1_HUMAN	olfactory receptor, family 10, subfamily P,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						CTCTTCTACACCACTGACATC	0.592													75	46	---	---	---	---	PASS	A	56030896	A	A	56030896	3	1	58	1	0	0	0	0	1	0	0	0	10915	507	18	3	223	3	OR10P1	12	56030896	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	235800	56030896	77820999	962	22337										
RDH16	8608	broad.mit.edu	37	chr12	57346753	57346753	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcaatcatagccaccttcacCccaaagtaggagagttccct	6	14	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:57346753C>A	uc001smi.3	-	3	766	c.594G>T	c.(592-594)GGG>GGT	p.G198G	RDH16_uc009zpa.2_Silent_p.G53G	NM_003708	NP_003699	O75452	RDH16_HUMAN	retinol dehydrogenase 16	198	Cytoplasmic (Potential).				lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	binding|electron carrier activity|retinol dehydrogenase activity				0						CCACCTTCACCCCAAAGTAGG	0.458													65	72	---	---	---	---	PASS	A	57346753	A	A	57346753	2	1	58	1	0	0	0	0	0	0	0	1	13194	610	22	3		3	RDH16	12	57346753	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1315857	57346753	76505142	963	22338										
AGAP2	116986	broad.mit.edu	37	chr12	58126641	58126641	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cactcaccctcctggaagacCcgatccacattgagcccata	6	17	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:58126641C>A	uc001spq.2	-	6	1671	c.1671G>T	c.(1669-1671)CGG>CGT	p.R557R	AGAP2_uc001spp.2_Silent_p.R557R|AGAP2_uc001spr.2_Silent_p.R221R	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	557	G domain.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						CCTGGAAGACCCGATCCACAT	0.567													223	183	---	---	---	---	PASS	A	58126641	A	A	58126641	2	1	58	1	0	0	0	0	0	0	0	1	368	610	22	3		3	AGAP2	12	58126641	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	779888	58126641	75725254	964	22339										
LRIG3	121227	broad.mit.edu	37	chr12	59268065	59268065	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcctttttctttatgtaacTgggctcatagtggtccatta	7	9	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:59268065T>A	uc001sqr.2	-	18	3133	c.2887A>T	c.(2887-2889)AGT>TGT	p.S963C	LRIG3_uc009zqh.2_Missense_Mutation_p.S903C|LRIG3_uc010ssh.1_RNA	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like	963						integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			TTTATGTAACTGGGCTCATAG	0.428													94	68	---	---	---	---	PASS	A	59268065	A	A	59268065	3	1	58	1	0	0	0	0	1	0	0	0	8946	1580	55	5	480	5	LRIG3	12	59268065	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1141424	59268065	74583830	965	22340										
FRS2	10818	broad.mit.edu	37	chr12	69962853	69962853	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagataaagacactgtcccaGataaccatcggaacaagttt	7	10	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:69962853G>T	uc001suy.2	+	6	553	c.43G>T	c.(43-45)GAT>TAT	p.D15Y	FRS2_uc001suz.2_Missense_Mutation_p.D15Y|FRS2_uc009zrj.2_Missense_Mutation_p.D15Y|FRS2_uc009zrk.2_Missense_Mutation_p.D15Y	NM_006654	NP_006645	Q8WU20	FRS2_HUMAN	fibroblast growth factor receptor substrate 2	15	IRS-type PTB.				activation of MAPKK activity|activation of phospholipase C activity|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|transmembrane receptor protein tyrosine phosphatase signaling pathway	endomembrane system|endosome|integral to plasma membrane|membrane fraction	fibroblast growth factor receptor binding|insulin receptor binding|phosphatase activator activity|transmembrane receptor protein tyrosine kinase adaptor activity			prostate(1)|kidney(1)	2	Breast(13;2.15e-06)|Esophageal squamous(21;0.187)		Epithelial(6;2.94e-18)|Lung(24;9.68e-05)|OV - Ovarian serous cystadenocarcinoma(12;0.000984)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			CACTGTCCCAGATAACCATCG	0.353													50	40	---	---	---	---	PASS	T	69962853	T	T	69962853	3	4	58	1	0	0	0	0	1	0	0	0	6061	942	33	2	45	2	FRS2	12	69962853	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	10694788	69962853	63889042	966	22341										
TPH2	121278	broad.mit.edu	37	chr12	72372758	72372758	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggcttcacggtgaggccgGtggctggatacctgagccca	15	12	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:72372758G>C	uc009zrw.1	+	7	973	c.832G>C	c.(832-834)GTG>CTG	p.V278L	TPH2_uc001swy.2_Missense_Mutation_p.V188L	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	278					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	GGTGAGGCCGGTGGCTGGATA	0.527													76	61	---	---	---	---	PASS	C	72372758	C	C	72372758	3	2	58	1	0	0	0	0	1	0	0	0	16399	1261	44	4	858	4	TPH2	12	72372758	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2409905	72372758	61479137	967	22342										
NAV3	89795	broad.mit.edu	37	chr12	78400815	78400815	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagatggctccaaaaaagacCtccaaaattgcaagcttgat	8	9	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:78400815C>G	uc001syp.2	+	8	1670	c.1497C>G	c.(1495-1497)ACC>ACG	p.T499T	NAV3_uc001syo.2_Silent_p.T499T	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	499						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CAAAAAAGACCTCCAAAATTG	0.418										HNSCC(70;0.22)			49	50	---	---	---	---	PASS	G	78400815	G	G	78400815	2	3	58	1	0	0	0	0	0	0	0	1	10185	668	24	4		4	NAV3	12	78400815	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	6028057	78400815	55451080	968	22343										
ALX1	8092	broad.mit.edu	37	chr12	85677442	85677442	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acagtctccgaatgtctcccGtgaaagggatgcaagagaag	12	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:85677442G>T	uc001tae.3	+	2	323	c.319G>T	c.(319-321)GTG>TTG	p.V107L		NM_006982	NP_008913	Q15699	ALX1_HUMAN	cartilage paired-class homeoprotein 1	107					brain development|cartilage condensation|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(134;0.134)		AATGTCTCCCGTGAAAGGGAT	0.483													37	35	---	---	---	---	PASS	T	85677442	T	T	85677442	3	4	58	1	0	0	0	0	1	0	0	0	556	1145	40	1	325	1	ALX1	12	85677442	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	7276627	85677442	48174453	969	22344										
ALX1	8092	broad.mit.edu	37	chr12	85677506	85677506	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	taaatgtgatagcaatgtatCcagcagtaagaaacggaggc	11	6	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:85677506C>G	uc001tae.3	+	2	387	c.383C>G	c.(382-384)TCC>TGC	p.S128C		NM_006982	NP_008913	Q15699	ALX1_HUMAN	cartilage paired-class homeoprotein 1	128					brain development|cartilage condensation|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(134;0.134)		AGCAATGTATCCAGCAGTAAG	0.478													38	42	---	---	---	---	PASS	G	85677506	G	G	85677506	3	3	58	1	0	0	0	0	1	0	0	0	556	855	30	2	389	2	ALX1	12	85677506	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	64	85677506	48174389	970	22345										
CLLU1OS	574016	broad.mit.edu	37	chr12	92814818	92814818	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgtgcttccttcttcccatCatcattgcccaagtgtgtct	6	14	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:92814818C>T	uc001tcb.1	-	3	276	c.274G>A	c.(274-276)GAT>AAT	p.D92N	CLLU1_uc001tcc.2_5'Flank|CLLU1_uc001tcd.2_5'Flank|CLLU1_uc001tce.1_5'Flank|CLLU1_uc001tcf.2_5'Flank	NM_001025232	NP_001020403	Q5K130	CLU1O_HUMAN	chronic lymphocytic leukemia up-regulated 1	92											0						TTCTTCCCATCATCATTGCCC	0.438													242	228	---	---	---	---	PASS	T	92814818	T	T	92814818	3	4	58	1	0	0	0	0	1	0	0	0	3541	826	29	2	35	2	CLLU1OS	12	92814818	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	7137312	92814818	41037077	971	22346										
ANKS1B	56899	broad.mit.edu	37	chr12	99225845	99225845	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agggggcttctgtgggggatCgtcgtgcagcctgtctccca	16	11	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:99225845C>T	uc001tge.1	-	18	3265	c.2848G>A	c.(2848-2850)GAT>AAT	p.D950N	ANKS1B_uc001tgf.1_Missense_Mutation_p.D526N|ANKS1B_uc001tgk.2_Missense_Mutation_p.D247N|ANKS1B_uc010svd.1_5'UTR|ANKS1B_uc001tgd.1_Missense_Mutation_p.D176N|ANKS1B_uc009ztq.2_5'UTR|ANKS1B_uc010sve.1_5'UTR|ANKS1B_uc001tgh.3_5'UTR|ANKS1B_uc001tgi.2_Missense_Mutation_p.D176N|ANKS1B_uc009ztr.2_Missense_Mutation_p.D176N|ANKS1B_uc001tgj.2_Missense_Mutation_p.D176N|ANKS1B_uc009ztp.2_5'UTR|ANKS1B_uc010svf.1_5'UTR|ANKS1B_uc001tgg.3_Intron|ANKS1B_uc010svg.1_Missense_Mutation_p.D145N|ANKS1B_uc009zts.1_Missense_Mutation_p.D176N|ANKS1B_uc001tgm.1_Missense_Mutation_p.D176N	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	950						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		TGTGGGGGATCGTCGTGCAGC	0.418													8	2	---	---	---	---	PASS	T	99225845	T	T	99225845	3	4	58	1	0	0	0	0	1	0	0	0	689	884	31	2	1125	2	ANKS1B	12	99225845	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	6411027	99225845	34626050	972	22347										
MYBPC1	4604	broad.mit.edu	37	chr12	102046932	102046932	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatggtcttgatgctgacaAcacagtgacagtgattgcag	13	7	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:102046932A>T	uc001tii.2	+	16	1700	c.1598A>T	c.(1597-1599)AAC>ATC	p.N533I	MYBPC1_uc001tig.2_Missense_Mutation_p.N558I|MYBPC1_uc010svq.1_Missense_Mutation_p.N520I|MYBPC1_uc001tih.2_Missense_Mutation_p.N558I|MYBPC1_uc001tij.2_Missense_Mutation_p.N533I|MYBPC1_uc010svr.1_Missense_Mutation_p.N533I|MYBPC1_uc010svs.1_Missense_Mutation_p.N533I|MYBPC1_uc010svt.1_Missense_Mutation_p.N521I|MYBPC1_uc010svu.1_Missense_Mutation_p.N514I|MYBPC1_uc001tik.2_Missense_Mutation_p.N507I	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	533	Ig-like C2-type 5.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						GATGCTGACAACACAGTGACA	0.443													41	40	---	---	---	---	PASS	T	102046932	T	T	102046932	3	4	58	1	0	0	0	0	1	0	0	0	10011	43	2	5	1743	5	MYBPC1	12	102046932	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	2821087	102046932	31804963	973	22348										
PAH	5053	broad.mit.edu	37	chr12	103310894	103310894	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccaagcctgggttttccagGaccgcagtggacatgctggc	13	13	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:103310894G>T	uc001tjq.1	-	2	487	c.15C>A	c.(13-15)GTC>GTA	p.V5V	PAH_uc010swc.1_Silent_p.V5V	NM_000277	NP_000268	P00439	PH4H_HUMAN	phenylalanine hydroxylase	5					catecholamine biosynthetic process|L-phenylalanine catabolic process|neurotransmitter biosynthetic process	cytosol	phenylalanine 4-monooxygenase activity			ovary(4)	4					Epinephrine(DB00668)|L-Phenylalanine(DB00120)|Levodopa(DB01235)|Norepinephrine(DB00368)|Tetrahydrobiopterin(DB00360)	GGTTTTCCAGGACCGCAGTGG	0.572													36	34	---	---	---	---	PASS	T	103310894	T	T	103310894	2	4	58	1	0	0	0	0	0	0	0	1	11394	1161	41	2		2	PAH	12	103310894	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1263962	103310894	30541001	974	22349										
STAB2	55576	broad.mit.edu	37	chr12	104089513	104089513	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcttgtctctttccatcgcAgcaatataatctggcgaatg	7	11	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:104089513A>T	uc001tjw.2	+	33	3661	c.3475_splice	c.e33-2	p.Q1159_splice		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor						angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						TTTCCATCGCAGCAATATAAT	0.483													53	34	---	---	---	---	PASS	T	104089513	T	T	104089513	5	4	58	1	0	0	0	0	0	0	1	0	15237	202	7	5	3603	5	STAB2	12	104089513	Splice_Site	SNP	A	TCGA-33-4566-01A-01D-1441-08	778619	104089513	29762382	975	22350										
TXNRD1	7296	broad.mit.edu	37	chr12	104712786	104712789	+	Frame_Shift_Del	DEL	GTCT	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctctgcgggagaaaaaagtcGtctatgagaatgcttatggg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:104712786_104712789delGTCT	uc010swk.1	+	8	848_851	c.826_829delGTCT	c.(826-831)GTCTATfs	p.V276fs	TXNRD1_uc010swl.1_Frame_Shift_Del_p.V126fs|TXNRD1_uc010swm.1_Frame_Shift_Del_p.V178fs|TXNRD1_uc010swn.1_Frame_Shift_Del_p.V126fs|TXNRD1_uc010swo.1_Frame_Shift_Del_p.V126fs|TXNRD1_uc010swp.1_Frame_Shift_Del_p.V88fs|TXNRD1_uc010swq.1_Frame_Shift_Del_p.V176fs|TXNRD1_uc001tku.2_RNA|TXNRD1_uc009zun.2_Frame_Shift_Del_p.V192fs	NM_001093771	NP_001087240	Q16881	TRXR1_HUMAN	thioredoxin reductase 1 isoform 3	276_277					cell redox homeostasis|cellular lipid metabolic process|electron transport chain|nucleobase, nucleoside and nucleotide interconversion|signal transduction|transport	cytosol|nucleolus	electron carrier activity|flavin adenine dinucleotide binding|NADP binding|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity				0						GAAAAAAGTCGTCTATGAGAATGC	0.382													45	42	---	---	---	---		-	104712789	-	-	104712786	7	5	58	1	0	1	0	1	0	0	0	0	16804	1145	40	0	870	0	TXNRD1	12	104712786	Frame_Shift_Del	DEL	GTCT	TCGA-33-4566-01A-01D-1441-08	623273	104712786	29139109	976	22351										
APPL2	55198	broad.mit.edu	37	chr12	105583577	105583577	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttctggaaatgattcatcctCagtttcaccaaaagggttgg	9	8	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:105583577C>G	uc001tlf.1	-	16	1650	c.1432G>C	c.(1432-1434)GAG>CAG	p.E478Q	APPL2_uc010swt.1_Missense_Mutation_p.E435Q|APPL2_uc001tlg.1_Missense_Mutation_p.E232Q|APPL2_uc010swu.1_Missense_Mutation_p.E484Q|APPL2_uc009zuq.2_Missense_Mutation_p.E435Q	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH	478					cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1						GATTCATCCTCAGTTTCACCA	0.433													37	24	---	---	---	---	PASS	G	105583577	G	G	105583577	3	3	58	1	0	0	0	0	1	0	0	0	818	835	29	2	586	2	APPL2	12	105583577	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	870791	105583577	28268318	977	22352										
NUAK1	9891	broad.mit.edu	37	chr12	106477667	106477667	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tattgcagttgtcatcgagcAgtatattttccagcttcaag	8	8	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:106477667A>T	uc001tlj.1	-	4	1934	c.554T>A	c.(553-555)CTG>CAG	p.L185Q		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	185	Protein kinase.						ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						GTCATCGAGCAGTATATTTTC	0.502													38	38	---	---	---	---	PASS	T	106477667	T	T	106477667	3	4	58	1	0	0	0	0	1	0	0	0	10712	188	7	5	1447	5	NUAK1	12	106477667	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	894090	106477667	27374228	978	22353										
ASCL4	121549	broad.mit.edu	37	chr12	108169386	108169386	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcaggagctgctggagcgcCaggcctgggggctcgagggc	20	11	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:108169386C>T	uc001tmr.2	+	1	1225	c.394C>T	c.(394-396)CAG>TAG	p.Q132*		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	131					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						GCTGGAGCGCCAGGCCTGGGG	0.711													7	3	---	---	---	---	PASS	T	108169386	T	T	108169386	4	4	58	1	0	0	0	0	0	1	0	0	1036	595	21	3	396	3	ASCL4	12	108169386	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1691719	108169386	25682509	979	22354										
ANKRD13A	88455	broad.mit.edu	37	chr12	110450962	110450962	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgtgagcactggcgatcctGagatggtgtacacagttctc	12	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:110450962G>T	uc001tpx.2	+	3	521	c.262G>T	c.(262-264)GAG>TAG	p.E88*	ANKRD13A_uc009zvl.1_RNA|ANKRD13A_uc009zvm.1_Nonsense_Mutation_p.E88*|ANKRD13A_uc010sxw.1_Nonsense_Mutation_p.E88*	NM_033121	NP_149112	Q8IZ07	AN13A_HUMAN	ankyrin repeat domain 13	88	ANK 2.										0						TGGCGATCCTGAGATGGTGTA	0.433													53	39	---	---	---	---	PASS	T	110450962	T	T	110450962	4	4	58	1	0	0	0	0	0	1	0	0	641	1291	45	2	272	2	ANKRD13A	12	110450962	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2281576	110450962	23400933	980	22355										
HVCN1	84329	broad.mit.edu	37	chr12	111099059	111099059	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaggggcaggggcaacgtcAggggctgcagctctgccttc	16	13	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:111099059A>T	uc001trs.1	-	4	381	c.216T>A	c.(214-216)CCT>CCA	p.P72P	HVCN1_uc001trq.1_Silent_p.P72P|HVCN1_uc001trt.1_Silent_p.P72P|HVCN1_uc010syd.1_Silent_p.P52P	NM_032369	NP_115745	Q96D96	HVCN1_HUMAN	hydrogen voltage-gated channel 1	72	Cytoplasmic (Potential).				response to pH|response to zinc ion	integral to membrane	voltage-gated proton channel activity			skin(1)	1						GGGCAACGTCAGGGGCTGCAG	0.522													31	20	---	---	---	---	PASS	T	111099059	T	T	111099059	2	4	58	1	0	0	0	0	0	0	0	1	7462	175	7	5		5	HVCN1	12	111099059	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	648097	111099059	22752836	981	22356										
MYL2	4633	broad.mit.edu	37	chr12	111350900	111350900	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgcttgaaggaccccattacCtcctccttggaaaacctctc	6	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:111350900C>G	uc001try.3	-	6	473	c.402G>C	c.(400-402)GAG>GAC	p.E134D	MYL2_uc001trx.3_Missense_Mutation_p.E115D	NM_000432	NP_000423	P10916	MLRV_HUMAN	slow cardiac myosin regulatory light chain 2	134	EF-hand 3.				cardiac myofibril assembly|heart contraction|muscle filament sliding|negative regulation of cell growth|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	cytosol|myosin complex|sarcomere	actin monomer binding|calcium ion binding|myosin heavy chain binding|structural constituent of muscle			ovary(1)	1						ACCCCATTACCTCCTCCTTGG	0.587													59	67	---	---	---	---	PASS	G	111350900	G	G	111350900	3	3	58	1	0	0	0	0	1	0	0	0	10047	695	24	4	106	4	MYL2	12	111350900	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	251841	111350900	22500995	982	22357										
CUX2	23316	broad.mit.edu	37	chr12	111744741	111744741	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcaggataaggtgaacttcaCtctgtgctcgggccctcggc	13	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:111744741C>G	uc001tsa.1	+	11	1028	c.875C>G	c.(874-876)ACT>AGT	p.T292S		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	292	Potential.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						GTGAACTTCACTCTGTGCTCG	0.642													60	49	---	---	---	---	PASS	G	111744741	G	G	111744741	3	3	58	1	0	0	0	0	1	0	0	0	4065	565	20	4	917	4	CUX2	12	111744741	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	393841	111744741	22107154	983	22358										
C12orf51	283450	broad.mit.edu	37	chr12	112743916	112743916	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaatgtcccttcggtgttttCtcattcaggctggcaggaga	12	9	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:112743916C>A	uc009zwc.2	-	1	123	c.105G>T	c.(103-105)GAG>GAT	p.E35D		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TCGGTGTTTTCTCATTCAGGC	0.453													26	29	---	---	---	---	PASS	A	112743916	A	A	112743916	3	1	58	1	0	0	0	0	1	0	0	0	1696	912	32	2	12161	2	C12orf51	12	112743916	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	999175	112743916	21107979	984	22359										
GCN1L1	10985	broad.mit.edu	37	chr12	120586073	120586073	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtcagcacctccgtaagctTgggcacaatgttgggtagac	13	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:120586073T>G	uc001txo.2	-	37	4637	c.4624A>C	c.(4624-4626)AAG>CAG	p.K1542Q		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	1542	HEAT 9.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCCGTAAGCTTGGGCACAATG	0.572													45	68	---	---	---	---	PASS	G	120586073	G	G	120586073	3	3	58	1	0	0	0	0	1	0	0	0	6299	1821	63	5	3479	5	GCN1L1	12	120586073	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	7842157	120586073	13265822	985	22360										
DNAH10	196385	broad.mit.edu	37	chr12	124311314	124311314	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaaggaattgaaggttttctCagggctctcagaaagctacc	11	8	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:124311314C>T	uc001uft.3	+	24	3931	c.3906C>T	c.(3904-3906)CTC>CTT	p.L1302L		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1302	Stem (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)		AAGGTTTTCTCAGGGCTCTCA	0.458													66	60	---	---	---	---	PASS	T	124311314	T	T	124311314	2	4	58	1	0	0	0	0	0	0	0	1	4598	813	29	2		2	DNAH10	12	124311314	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	3725241	124311314	9540581	986	22361										
DNAH10	196385	broad.mit.edu	37	chr12	124352552	124352552	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggctttgtactgctctctgGgagcctccctgcttgaggat	12	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:124352552G>T	uc001uft.3	+	42	7076	c.7051G>T	c.(7051-7053)GGA>TGA	p.G2351*		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2351					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)		CTGCTCTCTGGGAGCCTCCCT	0.483													30	18	---	---	---	---	PASS	T	124352552	T	T	124352552	4	4	58	1	0	0	0	0	0	1	0	0	4598	1233	43	3	7217	3	DNAH10	12	124352552	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	41238	124352552	9499343	987	22362										
TMEM132B	114795	broad.mit.edu	37	chr12	125900111	125900111	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caggtgtgaagataacggcaGtgagagtcagcagtgaggac	16	6	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr12:125900111G>T	uc001uhe.1	+	3	987	c.979G>T	c.(979-981)GTG>TTG	p.V327L		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	327	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		GATAACGGCAGTGAGAGTCAG	0.478													77	74	---	---	---	---	PASS	T	125900111	T	T	125900111	3	4	58	1	0	0	0	0	1	0	0	0	16043	1029	36	3	989	3	TMEM132B	12	125900111	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1547559	125900111	7951784	988	22363										
TPTE2	93492	broad.mit.edu	37	chr13	20025324	20025324	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgcatagattgtagactcgAtagtggtttcgatgtttctt	10	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:20025324A>G	uc001umd.2	-	12	994	c.783T>C	c.(781-783)TAT>TAC	p.Y261Y	TPTE2_uc009zzk.2_RNA|TPTE2_uc009zzl.2_Silent_p.Y150Y|TPTE2_uc001ume.2_Silent_p.Y184Y|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	261	Phosphatase tensin-type.					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		TGTAGACTCGATAGTGGTTTC	0.338													55	49	---	---	---	---	PASS	G	20025324	G	G	20025324	2	3	58	1	0	0	0	0	0	0	0	1	16428	340	12	5		5	TPTE2	13	20025324	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08		20025324	95144554	989	22364										
SACS	26278	broad.mit.edu	37	chr13	23915357	23915357	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttatttgattacacaatttCtgcaatggcatcttctccat	5	9	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:23915357C>G	uc001uon.2	-	10	3247	c.2658G>C	c.(2656-2658)CAG>CAC	p.Q886H	SACS_uc001uoo.2_Missense_Mutation_p.Q739H|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	886					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TACACAATTTCTGCAATGGCA	0.353													48	117	---	---	---	---	PASS	G	23915357	G	G	23915357	3	3	58	1	0	0	0	0	1	0	0	0	13804	912	32	2	11085	2	SACS	13	23915357	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3890033	23915357	91254521	990	22365										
ATP12A	479	broad.mit.edu	37	chr13	25275055	25275055	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaaatgccggagtgcagggAtcaaggtgggagttattttc	14	7	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:25275055A>T	uc001upp.2	+	13	2063	c.1876A>T	c.(1876-1878)ATC>TTC	p.I626F	ATP12A_uc010aaa.2_Missense_Mutation_p.I632F	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	626	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	GAGTGCAGGGATCAAGGTGGG	0.468													56	47	---	---	---	---	PASS	T	25275055	T	T	25275055	3	4	58	1	0	0	0	0	1	0	0	0	1122	333	12	5	1944	5	ATP12A	13	25275055	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1359698	25275055	89894823	991	22366										
ATP8A2	51761	broad.mit.edu	37	chr13	26153025	26153025	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cattatgccatctggaatacTttgccacggaaggtaagtgg	11	8	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:26153025T>G	uc001uqk.2	+	21	1997	c.1855T>G	c.(1855-1857)TTT>GTT	p.F619V	ATP8A2_uc010tdi.1_Missense_Mutation_p.F579V|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.F129V	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	579	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		TCTGGAATACTTTGCCACGGA	0.388													16	46	---	---	---	---	PASS	G	26153025	G	G	26153025	3	3	58	1	0	0	0	0	1	0	0	0	1193	1609	56	5	1937	5	ATP8A2	13	26153025	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	877970	26153025	89016853	992	22367										
MTUS2	23281	broad.mit.edu	37	chr13	29608120	29608120	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcagccatgctccttaagccCcagctaggattgggtgcaat	10	12	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:29608120C>A	uc001usl.3	+	2	2392	c.2334C>A	c.(2332-2334)CCC>CCA	p.P778P		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	768	Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						TCCTTAAGCCCCAGCTAGGAT	0.507													22	21	---	---	---	---	PASS	A	29608120	A	A	29608120	2	1	58	1	0	0	0	0	0	0	0	1	9966	610	22	3		3	MTUS2	13	29608120	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	3455095	29608120	85561758	993	22368										
RXFP2	122042	broad.mit.edu	37	chr13	32367141	32367141	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	attattttggaaacttttatGggaaaaatggagtatgtttc	9	2	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:32367141G>T	uc001utt.2	+	16	1773	c.1702G>T	c.(1702-1704)GGG>TGG	p.G568W	RXFP2_uc010aba.2_Missense_Mutation_p.G527W	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	568	Extracellular (Potential).					integral to membrane|plasma membrane					0		Lung SC(185;0.0262)		all cancers(112;0.000559)|Epithelial(112;0.0017)|OV - Ovarian serous cystadenocarcinoma(117;0.0145)|BRCA - Breast invasive adenocarcinoma(63;0.0535)		AAACTTTTATGGGAAAAATGG	0.338													43	41	---	---	---	---	PASS	T	32367141	T	T	32367141	3	4	58	1	0	0	0	0	1	0	0	0	13760	1348	47	3	1764	3	RXFP2	13	32367141	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2759021	32367141	82802737	994	22369										
KIAA0564	23078	broad.mit.edu	37	chr13	42161739	42161739	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggccatccatcctgttgaaaCggtacatgctaccagacaca	8	13	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:42161739C>A	uc001uyj.2	-	42	5250	c.5180G>T	c.(5179-5181)CGT>CTT	p.R1727L		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1727	VWFA.					extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		CCTGTTGAAACGGTACATGCT	0.517													49	40	---	---	---	---	PASS	A	42161739	A	A	42161739	3	1	58	1	0	0	0	0	1	0	0	0	8185	536	19	1	553	1	KIAA0564	13	42161739	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	9794598	42161739	73008139	995	22370										
ZC3H13	23091	broad.mit.edu	37	chr13	46563198	46563198	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgagtgatgtctagaagataTaggagaatgatgctgtcctg	13	4	1	6			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:46563198T>C	uc010tfw.1	-	8	985	c.979A>G	c.(979-981)ATA>GTA	p.I327V	ZC3H13_uc001vas.1_Missense_Mutation_p.I327V|ZC3H13_uc001vat.1_Missense_Mutation_p.I327V	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	327	Ser-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		CTAGAAGATATAGGAGAATGA	0.388													29	36	---	---	---	---	PASS	C	46563198	C	C	46563198	3	2	58	1	0	0	0	0	1	0	0	0	17562	1406	49	5	3751	5	ZC3H13	13	46563198	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	4401459	46563198	68606680	996	22371										
CCDC70	83446	broad.mit.edu	37	chr13	52439998	52439998	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccctgtgggaggaagaaaagGccctgtgggtagaggaaaga							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:52439998G>T	uc001vfu.3	+	2	780	c.484G>T	c.(484-486)GCC>TCC	p.A162S	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	162	Potential.					extracellular region|plasma membrane					0		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)		GGAAGAAAAGGCCCTGTGGGT	0.547													95	78	---	---	---	---	PASS	T	52439998	T	T	52439998	3	4	58	1	0	0	0	0	1	0	0	0	2843	1203	42	3	486	3	CCDC70	13	52439998	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5876800	52439998	62729880	997	22372	498	2								
CCDC70	83446	broad.mit.edu	37	chr13	52439999	52439999	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgtgggaggaagaaaaggCcctgtgggtagaggaaagag							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:52439999C>A	uc001vfu.3	+	2	781	c.485C>A	c.(484-486)GCC>GAC	p.A162D	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	162	Potential.					extracellular region|plasma membrane					0		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)		GAAGAAAAGGCCCTGTGGGTA	0.547													94	77	---	---	---	---	PASS	A	52439999	A	A	52439999	3	1	58	1	0	0	0	0	1	0	0	0	2843	739	26	3	487	3	CCDC70	13	52439999	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1	52439999	62729879	998	22373	498	2								
THSD1	55901	broad.mit.edu	37	chr13	52952431	52952431	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcaatggcagtgtctgtcagGggactctgagacacgtgata	13	8	4	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:52952431G>T	uc001vgo.2	-	5	2219	c.1674C>A	c.(1672-1674)CCC>CCA	p.P558P	THSD1_uc001vgp.2_Silent_p.P505P|THSD1_uc010tgz.1_Silent_p.P179P|THSD1_uc010aea.2_Silent_p.P19P	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	558	Cytoplasmic (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		TGTCTGTCAGGGGACTCTGAG	0.517													102	97	---	---	---	---	PASS	T	52952431	T	T	52952431	2	4	58	1	0	0	0	0	0	0	0	1	15874	1219	43	3		3	THSD1	13	52952431	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	512432	52952431	62217447	999	22374										
TDRD3	81550	broad.mit.edu	37	chr13	61102614	61102614	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atcctcctcgaaatgataccAggcagccaagaaatgaaaaa	7	10	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:61102614A>G	uc001via.2	+	11	1764	c.976A>G	c.(976-978)AGG>GGG	p.R326G	TDRD3_uc010aef.2_Missense_Mutation_p.R151G|TDRD3_uc001vhz.3_Missense_Mutation_p.R326G|TDRD3_uc010aeg.2_Missense_Mutation_p.R419G|TDRD3_uc001vib.3_Missense_Mutation_p.R325G	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	326					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		AAATGATACCAGGCAGCCAAG	0.403													82	59	---	---	---	---	PASS	G	61102614	G	G	61102614	3	3	58	1	0	0	0	0	1	0	0	0	15729	179	7	5	1297	5	TDRD3	13	61102614	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	8150183	61102614	54067264	1000	22375										
PCDH9	5101	broad.mit.edu	37	chr13	67205431	67205431	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgtggctgaaccagaggaAgagggtgtgagatcagggtt	17	6	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:67205431A>G	uc001vik.2	-	4	3943	c.3251T>C	c.(3250-3252)CTT>CCT	p.L1084P	PCDH9_uc010aei.2_RNA|PCDH9_uc001vil.2_Missense_Mutation_p.L1050P|PCDH9_uc010thl.1_Intron	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	1084	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		AACCAGAGGAAGAGGGTGTGA	0.552													61	57	---	---	---	---	PASS	G	67205431	G	G	67205431	3	3	58	1	0	0	0	0	1	0	0	0	11518	72	3	5	470	5	PCDH9	13	67205431	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	6102817	67205431	47964447	1001	22376										
LMO7	4008	broad.mit.edu	37	chr13	76432084	76432084	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccaaccgccatgtgatgtaAgcctccatacgaaagcactg	9	13	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:76432084A>T	uc001vjv.2	+	27	4853	c.4093A>T	c.(4093-4095)AGC>TGC	p.S1365C	LMO7_uc010thv.1_3'UTR|LMO7_uc010thw.1_3'UTR|LMO7_uc001vjx.1_RNA	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	Error:Variant_position_missing_in_Q8WWI1_after_alignment						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		ATGTGATGTAAGCCTCCATAC	0.403													39	56	---	---	---	---	PASS	T	76432084	T	T	76432084	3	4	58	1	0	0	0	0	1	0	0	0	8855	72	3	5	5183	5	LMO7	13	76432084	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	9226653	76432084	38737794	1002	22377										
MYCBP2	23077	broad.mit.edu	37	chr13	77835401	77835401	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagagccatcgtgtccaactGagaagtgtactatctttgga	11	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:77835401G>C	uc001vkf.2	-	13	1734	c.1643C>G	c.(1642-1644)TCA>TGA	p.S548*	MYCBP2_uc010aev.2_5'UTR	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	548					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GTGTCCAACTGAGAAGTGTAC	0.428													76	72	---	---	---	---	PASS	C	77835401	C	C	77835401	4	2	58	1	0	0	0	0	0	1	0	0	10018	1294	45	2	12567	2	MYCBP2	13	77835401	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1403317	77835401	37334477	1003	22378										
SLITRK6	84189	broad.mit.edu	37	chr13	86369386	86369386	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	taatttggtcaggtggttacCatttagatagagtttttgta	10	3	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:86369386C>A	uc001vll.1	-	2	1717	c.1258G>T	c.(1258-1260)GGT>TGT	p.G420C	SLITRK6_uc010afe.1_Intron	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	420	Extracellular (Potential).|LRR 8.					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		AGGTGGTTACCATTTAGATAG	0.353													48	36	---	---	---	---	PASS	A	86369386	A	A	86369386	3	1	58	1	0	0	0	0	1	0	0	0	14747	594	21	3	1271	3	SLITRK6	13	86369386	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	8533985	86369386	28800492	1004	22379										
SLITRK5	26050	broad.mit.edu	37	chr13	88329802	88329802	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtacagcgtgtacggcggcgGcggcggcacgggcggccacc	19	14	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:88329802G>A	uc001vln.2	+	2	2378	c.2159G>A	c.(2158-2160)GGC>GAC	p.G720D	SLITRK5_uc010tic.1_Missense_Mutation_p.G479D	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	720	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					TACGGCGGCGGCGGCGGCACG	0.652													24	23	---	---	---	---	PASS	A	88329802	A	A	88329802	3	1	58	1	0	0	0	0	1	0	0	0	14746	1203	42	3	2161	3	SLITRK5	13	88329802	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1960416	88329802	26840076	1005	22380										
STK24	8428	broad.mit.edu	37	chr13	99116047	99116047	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggaagttttctttgcattgCgtagtataaacttgtgcttc	9	6	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:99116047C>G	uc001vnm.1	-	7	1098	c.863G>C	c.(862-864)CGC>CCC	p.R288P	STK24_uc001vnn.1_Missense_Mutation_p.R276P|STK24_uc010tim.1_Missense_Mutation_p.R257P	NM_003576	NP_003567	Q9Y6E0	STK24_HUMAN	serine/threonine kinase 24 isoform a	288					cellular component disassembly involved in apoptosis|signal transduction	cytosol|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			CTTTGCATTGCGTAGTATAAA	0.468													30	46	---	---	---	---	PASS	G	99116047	G	G	99116047	3	3	58	1	0	0	0	0	1	0	0	0	15292	768	27	4	488	4	STK24	13	99116047	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	10786245	99116047	16053831	1006	22381										
NALCN	259232	broad.mit.edu	37	chr13	101735197	101735197	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggtgaaaacaactgacattGttgccaaaggtacggtcacc	10	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:101735197G>T	uc001vox.1	-	33	3917	c.3728C>A	c.(3727-3729)ACA>AAA	p.T1243K		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1243	Helical; Name=S2 of repeat IV; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AACTGACATTGTTGCCAAAGG	0.507													54	53	---	---	---	---	PASS	T	101735197	T	T	101735197	3	4	58	1	0	0	0	0	1	0	0	0	10148	1377	48	3	1536	3	NALCN	13	101735197	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2619150	101735197	13434681	1007	22382										
COL4A1	1282	broad.mit.edu	37	chr13	110815855	110815855	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcctttctggccaggggcacCgtcaaacccaggaatacctg	10	14	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr13:110815855C>A	uc001vqw.3	-	47	4326	c.4204G>T	c.(4204-4206)GGT>TGT	p.G1402C	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1402	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CCAGGGGCACCGTCAAACCCA	0.502													19	29	---	---	---	---	PASS	A	110815855	A	A	110815855	3	1	58	1	0	0	0	0	1	0	0	0	3689	652	23	1	829	1	COL4A1	13	110815855	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	9080658	110815855	4354023	1008	22383										
OR11H6	122748	broad.mit.edu	37	chr14	20692744	20692744	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcaggaatgcagaagatcatCactctggtatacacagcaat	9	9	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:20692744C>A	uc010tlc.1	+	1	876	c.876C>A	c.(874-876)ATC>ATA	p.I292I		NM_001004480	NP_001004480	Q8NGC7	O11H6_HUMAN	olfactory receptor, family 11, subfamily H,	292	Helical; Name=7; (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)		AGAAGATCATCACTCTGGTAT	0.443													46	176	---	---	---	---	PASS	A	20692744	A	A	20692744	2	1	58	1	0	0	0	0	0	0	0	1	10929	816	29	2		2	OR11H6	14	20692744	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08		20692744	86656796	1009	22384										
TTC5	91875	broad.mit.edu	37	chr14	20768879	20768879	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcgggctccagcttcacagCctttgacagaagctcctcag	9	15	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:20768879C>G	uc001vwt.2	-	3	340	c.283G>C	c.(283-285)GCT>CCT	p.A95P	TTC5_uc001vwu.2_5'UTR	NM_138376	NP_612385	Q8N0Z6	TTC5_HUMAN	tetratricopeptide repeat domain 5	95	TPR 1.				DNA repair	cytoplasm|nucleus	binding			ovary(1)	1	all_cancers(95;0.00092)		Epithelial(56;1.1e-06)|all cancers(55;8.07e-06)	GBM - Glioblastoma multiforme(265;0.0106)		AGCTTCACAGCCTTTGACAGA	0.537													83	168	---	---	---	---	PASS	G	20768879	G	G	20768879	3	3	58	1	0	0	0	0	1	0	0	0	16708	739	26	4	1071	4	TTC5	14	20768879	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	76135	20768879	86580661	1010	22385										
TEP1	7011	broad.mit.edu	37	chr14	20845477	20845477	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctcctgggaagtggccagtCctagcacaggcttctggaat	13	11	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:20845477C>T	uc001vxe.2	-	41	6090	c.6050G>A	c.(6049-6051)GGA>GAA	p.G2017E	TEP1_uc010ahk.2_Missense_Mutation_p.G1360E|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.G1909E|TEP1_uc010tlh.1_Missense_Mutation_p.G355E	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	2017	WD 10.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		AGTGGCCAGTCCTAGCACAGG	0.488													13	43	---	---	---	---	PASS	T	20845477	T	T	20845477	3	4	58	1	0	0	0	0	1	0	0	0	15756	855	30	2	1893	2	TEP1	14	20845477	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	76598	20845477	86504063	1011	22386										
SLC39A2	29986	broad.mit.edu	37	chr14	21469569	21469569	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggggactctgaaggagggcGgggcttagcccaggctgtgt	19	8	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:21469569G>T	uc001vyr.2	+	4	948	c.761G>T	c.(760-762)CGG>CTG	p.R254L	SLC39A2_uc001vys.2_Missense_Mutation_p.R155L	NM_014579	NP_055394	Q9NP94	S39A2_HUMAN	solute carrier family 39 (zinc transporter),	254	Extracellular (Potential).					cytoplasmic membrane-bounded vesicle|integral to plasma membrane	zinc ion transmembrane transporter activity			ovary(2)|central_nervous_system(1)	3	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0187)		GAAGGAGGGCGGGGCTTAGCC	0.572													45	108	---	---	---	---	PASS	T	21469569	T	T	21469569	3	4	58	1	0	0	0	0	1	0	0	0	14618	1116	39	1	775	1	SLC39A2	14	21469569	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	624092	21469569	85879971	1012	22387										
SUPT16H	11198	broad.mit.edu	37	chr14	21831008	21831008	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaacacgggcattattacaGtctcatatttcttatcgatg	6	9	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:21831008G>C	uc001wao.2	-	14	1949	c.1610C>G	c.(1609-1611)ACT>AGT	p.T537S		NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	537					DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		CATTATTACAGTCTCATATTT	0.408													71	127	---	---	---	---	PASS	C	21831008	C	C	21831008	3	2	58	1	0	0	0	0	1	0	0	0	15393	1029	36	4	1585	4	SUPT16H	14	21831008	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	361439	21831008	85518532	1013	22388										
OR10G2	26534	broad.mit.edu	37	chr14	22102631	22102631	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctaggtacctgtcataggccAtcaaggtgtagaggaagcac	12	9	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:22102631A>T	uc010tmc.1	-	1	368	c.368T>A	c.(367-369)ATG>AAG	p.M123K		NM_001005466	NP_001005466	Q8NGC3	O10G2_HUMAN	olfactory receptor, family 10, subfamily G,	123	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(95;0.00113)	Acute lymphoblastic leukemia(2;0.0279)		GBM - Glioblastoma multiforme(265;0.0142)		GTCATAGGCCATCAAGGTGTA	0.527													11	32	---	---	---	---	PASS	T	22102631	T	T	22102631	3	4	58	1	0	0	0	0	1	0	0	0	10899	217	8	5	567	5	OR10G2	14	22102631	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	271623	22102631	85246909	1014	22389										
MYH6	4624	broad.mit.edu	37	chr14	23871779	23871779	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgtagacgccagctttctcCtctgaagtgaagcccagcac	9	13	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:23871779C>T	uc001wjv.2	-	12	1102	c.1035G>A	c.(1033-1035)GAG>GAA	p.E345E	MYH6_uc010akp.1_Silent_p.E345E	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	345	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CAGCTTTCTCCTCTGAAGTGA	0.612													53	198	---	---	---	---	PASS	T	23871779	T	T	23871779	2	4	58	1	0	0	0	0	0	0	0	1	10038	680	24	3		3	MYH6	14	23871779	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1769148	23871779	83477761	1015	22390										
DHRS2	10202	broad.mit.edu	37	chr14	24112405	24112405	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagccctgctgctgagccaGttgctgccctacatggagaa	11	14	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:24112405G>T	uc001wkt.3	+	5	912	c.465G>T	c.(463-465)CAG>CAT	p.Q155H	DHRS2_uc010aku.1_3'UTR|DHRS2_uc001wku.3_Missense_Mutation_p.Q155H|DHRS2_uc010akv.2_RNA|DHRS2_uc001wkv.3_Missense_Mutation_p.Q155H	NM_182908	NP_878912	Q13268	DHRS2_HUMAN	dehydrogenase/reductase member 2 isoform 1	133					C21-steroid hormone metabolic process|cellular response to oxidative stress|myeloid dendritic cell differentiation|negative regulation of apoptosis|negative regulation of cell proliferation|response to toxin	mitochondrion|nuclear envelope	binding|carbonyl reductase (NADPH) activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00659)		TGCTGAGCCAGTTGCTGCCCT	0.587													51	275	---	---	---	---	PASS	T	24112405	T	T	24112405	3	4	58	1	0	0	0	0	1	0	0	0	4490	1020	36	3	479	3	DHRS2	14	24112405	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	240626	24112405	83237135	1016	22391										
IPO4	79711	broad.mit.edu	37	chr14	24656300	24656300	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgtcctcacctcatctatGgggatcagagtctgcatggc	10	13	5	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:24656300G>A	uc001wmv.1	-	7	776	c.645C>T	c.(643-645)CCC>CCT	p.P215P	IPO4_uc001wmt.1_5'Flank|IPO4_uc001wmu.2_5'UTR|IPO4_uc001wmx.1_Silent_p.P79P|IPO4_uc001wmy.1_Silent_p.P79P|IPO4_uc010tnz.1_RNA|IPO4_uc001wmw.1_RNA|IPO4_uc001wmz.1_Silent_p.P215P	NM_024658	NP_078934	Q8TEX9	IPO4_HUMAN	importin 4	215					intracellular protein transport	cytoplasm|nucleus	protein binding|protein transporter activity			kidney(1)	1				GBM - Glioblastoma multiforme(265;0.0087)		CCTCATCTATGGGGATCAGAG	0.547													102	344	---	---	---	---	PASS	A	24656300	A	A	24656300	2	1	58	1	0	0	0	0	0	0	0	1	7795	1335	47	3		3	IPO4	14	24656300	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	543895	24656300	82693240	1017	22392										
TGM1	7051	broad.mit.edu	37	chr14	24731488	24731488	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctctggctctggctctggaGatggcgtggtagggggctgc	19	9	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:24731488G>C	uc001wod.2	-	2	195	c.71C>G	c.(70-72)TCT>TGT	p.S24C	TGM1_uc010tog.1_Translation_Start_Site	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	24	Membrane anchorage region.				cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	TGGCTCTGGAGATGGCGTGGT	0.637													25	60	---	---	---	---	PASS	C	24731488	C	C	24731488	3	2	58	1	0	0	0	0	1	0	0	0	15826	942	33	2	2438	2	TGM1	14	24731488	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	75188	24731488	82618052	1018	22393										
C14orf21	161424	broad.mit.edu	37	chr14	24772360	24772360	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaggggtagtcattgccctGgtgggggcctgtcgcagagt	17	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:24772360G>T	uc001wol.1	+	6	1287	c.1224G>T	c.(1222-1224)CTG>CTT	p.L408L	C14orf21_uc001wom.1_5'UTR	NM_174913	NP_777573	Q86U38	CN021_HUMAN	hypothetical protein LOC161424	408							RNA binding			breast(2)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(265;0.0185)		TCATTGCCCTGGTGGGGGCCT	0.557													32	97	---	---	---	---	PASS	T	24772360	T	T	24772360	2	4	58	1	0	0	0	0	0	0	0	1	1769	1335	47	3		3	C14orf21	14	24772360	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	40872	24772360	82577180	1019	22394										
CBLN3	643866	broad.mit.edu	37	chr14	24898088	24898088	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagggctgctcccccgggcCcccctgcagcagctcggcca	12	21	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:24898088C>A	uc001wpg.3	-	1	644	c.173G>T	c.(172-174)GGG>GTG	p.G58V	KHNYN_uc010tpc.1_5'Flank|KHNYN_uc001wph.3_5'Flank|KHNYN_uc010alw.2_5'Flank	NM_001039771	NP_001034860	Q6UW01	CBLN3_HUMAN	cerebellin 3 precursor	58						cell junction|extracellular region|synapse		p.G58G(1)		central_nervous_system(1)	1				GBM - Glioblastoma multiforme(265;0.00159)		TCCCCCGGGCCCCCCTGCAGC	0.726													5	15	---	---	---	---	PASS	A	24898088	A	A	24898088	3	1	58	1	0	0	0	0	1	0	0	0	2706	623	22	3	456	3	CBLN3	14	24898088	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	125728	24898088	82451452	1020	22395										
ARHGAP5	394	broad.mit.edu	37	chr14	32560672	32560672	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatgcttataaaacacagaGacaacttgttgtcacagcaa	8	8	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:32560672G>T	uc001wrl.2	+	2	1036	c.797G>T	c.(796-798)AGA>ATA	p.R266I	ARHGAP5_uc001wrm.2_Missense_Mutation_p.R266I|ARHGAP5_uc001wrn.2_Missense_Mutation_p.R266I|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	266					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		AAAACACAGAGACAACTTGTT	0.328													76	246	---	---	---	---	PASS	T	32560672	T	T	32560672	3	4	58	1	0	0	0	0	1	0	0	0	886	942	33	2	799	2	ARHGAP5	14	32560672	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	7662584	32560672	74788868	1021	22396										
AKAP6	9472	broad.mit.edu	37	chr14	33290637	33290637	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatgtgattgatcctggcttGatggacctaaatgggatgag	13	5	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:33290637G>A	uc001wrq.2	+	13	3788	c.3618G>A	c.(3616-3618)TTG>TTA	p.L1206L		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1206					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		ATCCTGGCTTGATGGACCTAA	0.373													30	112	---	---	---	---	PASS	A	33290637	A	A	33290637	2	1	58	1	0	0	0	0	0	0	0	1	455	1281	45	2		2	AKAP6	14	33290637	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	729965	33290637	74058903	1022	22397										
NKX2-1	7080	broad.mit.edu	37	chr14	36987175	36987175	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtcccccagcgagcccaggcCgcccatgccgctcatgttca	10	19	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:36987175C>G	uc001wtt.2	-	2	765	c.424G>C	c.(424-426)GGC>CGC	p.G142R	SFTA3_uc001wts.2_Intron|NKX2-1_uc001wtu.2_Missense_Mutation_p.G172R|NKX2-1_uc001wtv.2_Missense_Mutation_p.G142R|uc001wtw.1_5'Flank	NM_003317	NP_003308	P43699	NKX21_HUMAN	thyroid transcription factor 1 isoform 2	142					epithelial tube branching involved in lung morphogenesis|globus pallidus development|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|thyroid gland development		protein binding|transcription regulatory region DNA binding			skin(1)	1	all_cancers(3;4.47e-51)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.165)		Lung(8;1.8e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.014)|all cancers(34;0.0366)|LUSC - Lung squamous cell carcinoma(13;0.132)	GBM - Glioblastoma multiforme(112;0.0171)		GAGCCCAGGCCGCCCATGCCG	0.706			A		NSCLC								6	16	---	---	---	---	PASS	G	36987175	G	G	36987175	3	3	58	1	0	0	0	0	1	0	0	0	10449	652	23	4	695	4	NKX2-1	14	36987175	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3696538	36987175	70362365	1023	22398										
LRFN5	145581	broad.mit.edu	37	chr14	42355819	42355819	+	Translation_Start_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccgttacaggctcttaaacCtgatctacaatggaaaaaat	6	9	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:42355819C>A	uc001wvm.2	+	3	1189	c.-9C>A	c.(-11--7)ACCTG>ACATG		LRFN5_uc010ana.2_Translation_Start_Site	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III							integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		GCTCTTAAACCTGATCTACAA	0.338										HNSCC(30;0.082)			9	48	---	---	---	---	PASS	A	42355819	A	A	42355819	1	1	58	1	0	0	0	0	0	0	0	0	8941	696	24	3		3	LRFN5	14	42355819	Translation_Start_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	5368644	42355819	64993721	1024	22399										
LRFN5	145581	broad.mit.edu	37	chr14	42356171	42356171	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcaacagattgactaaaattAcaaatgatatgttcagtggt	8	5	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:42356171A>T	uc001wvm.2	+	3	1541	c.343A>T	c.(343-345)ACA>TCA	p.T115S	LRFN5_uc010ana.2_Missense_Mutation_p.T115S	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	115	Extracellular (Potential).|LRR 3.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		GACTAAAATTACAAATGATAT	0.358										HNSCC(30;0.082)			47	86	---	---	---	---	PASS	T	42356171	T	T	42356171	3	4	58	1	0	0	0	0	1	0	0	0	8941	391	14	5	345	5	LRFN5	14	42356171	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	352	42356171	64993369	1025	22400										
FSCB	84075	broad.mit.edu	37	chr14	44974026	44974026	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	actcctcagtcagaagcaaaTcagctggtggggaatgtttg	12	8	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:44974026T>A	uc001wvn.2	-	1	2474	c.2165A>T	c.(2164-2166)GAT>GTT	p.D722V		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	722						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		CAGAAGCAAATCAGCTGGTGG	0.512													34	47	---	---	---	---	PASS	A	44974026	A	A	44974026	3	1	58	1	0	0	0	0	1	0	0	0	6066	1435	50	5	316	5	FSCB	14	44974026	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	2617855	44974026	62375514	1026	22401										
FANCM	57697	broad.mit.edu	37	chr14	45645258	45645258	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tagtacctaacaatcgtgttCaaatacacagaagccctgca	6	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:45645258C>G	uc001wwd.3	+	14	3400	c.3301C>G	c.(3301-3303)CAA>GAA	p.Q1101E	FANCM_uc010anf.2_Missense_Mutation_p.Q1075E|FANCM_uc001wwe.3_Missense_Mutation_p.Q637E|FANCM_uc010ang.2_Missense_Mutation_p.Q315E	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1101					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						CAATCGTGTTCAAATACACAG	0.348								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				49	74	---	---	---	---	PASS	G	45645258	G	G	45645258	3	3	58	1	0	0	0	0	1	0	0	0	5671	827	29	2	3355	2	FANCM	14	45645258	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	671232	45645258	61704282	1027	22402										
RPL10L	140801	broad.mit.edu	37	chr14	47120699	47120699	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	catgtgaaagccatctctgcCacaacttttcaccatgtatt	5	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:47120699C>A	uc001wwg.2	-	1	330	c.241G>T	c.(241-243)GGC>TGC	p.G81C		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	81					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						CCATCTCTGCCACAACTTTTC	0.537													16	66	---	---	---	---	PASS	A	47120699	A	A	47120699	3	1	58	1	0	0	0	0	1	0	0	0	13556	594	21	3	407	3	RPL10L	14	47120699	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1475441	47120699	60228841	1028	22403										
MAP4K5	11183	broad.mit.edu	37	chr14	50909507	50909507	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aattttcaaaggacagccatCaaaaacttttgaaaagcatg	6	7	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:50909507C>T	uc001wya.2	-	21	1827	c.1507G>A	c.(1507-1509)GAT>AAT	p.D503N	MAP4K5_uc001wyb.2_Missense_Mutation_p.D503N|MAP4K5_uc010anv.1_Missense_Mutation_p.D503N|MAP4K5_uc001wyc.1_Missense_Mutation_p.D177N	NM_006575	NP_006566	Q9Y4K4	M4K5_HUMAN	mitogen-activated protein kinase kinase kinase	503					activation of JUN kinase activity	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(1)	1	all_epithelial(31;0.000415)|Breast(41;0.0102)					GGACAGCCATCAAAAACTTTT	0.249													26	62	---	---	---	---	PASS	T	50909507	T	T	50909507	3	4	58	1	0	0	0	0	1	0	0	0	9263	826	29	2	1081	2	MAP4K5	14	50909507	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3788808	50909507	56440033	1029	22404										
PYGL	5836	broad.mit.edu	37	chr14	51378992	51378992	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcactttgtactccgtctcCaggaactgagaaaacttcag	7	11	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:51378992C>A	uc001wyu.2	-	14	1777	c.1650G>T	c.(1648-1650)CTG>CTT	p.L550L	PYGL_uc010tqq.1_Silent_p.L516L|PYGL_uc001wyv.2_Silent_p.L224L	NM_002863	NP_002854	P06737	PYGL_HUMAN	liver glycogen phosphorylase isoform 1	550					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding			skin(1)	1	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	ACTCCGTCTCCAGGAACTGAG	0.443													91	156	---	---	---	---	PASS	A	51378992	A	A	51378992	2	1	58	1	0	0	0	0	0	0	0	1	12861	581	21	3		3	PYGL	14	51378992	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	469485	51378992	55970548	1030	22405										
CGRRF1	10668	broad.mit.edu	37	chr14	55004942	55004942	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtgttgtttgccagaatggGactgtgaactgggtactctt	13	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:55004942G>T	uc001xay.2	+	6	931	c.840G>T	c.(838-840)GGG>GGT	p.G280G	CGRRF1_uc001xaz.2_RNA	NM_006568	NP_006559	Q99675	CGRF1_HUMAN	cell growth regulator with ring finger domain 1	280	RING-type.				cell cycle arrest|negative regulation of cell proliferation|response to stress		zinc ion binding			ovary(1)	1						GCCAGAATGGGACTGTGAACT	0.473													36	75	---	---	---	---	PASS	T	55004942	T	T	55004942	2	4	58	1	0	0	0	0	0	0	0	1	3306	1161	41	2		2	CGRRF1	14	55004942	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	3625950	55004942	52344598	1031	22406										
RTN1	6252	broad.mit.edu	37	chr14	60193658	60193658	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttttgcttattgagaaacaGcagtgggggcggggcgccag	16	7	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:60193658G>T	uc001xen.1	-	3	1953	c.1744C>A	c.(1744-1746)CTG>ATG	p.L582M	RTN1_uc001xem.1_Missense_Mutation_p.L162M	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	582					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		TTGAGAAACAGCAGTGGGGGC	0.582													4	16	---	---	---	---	PASS	T	60193658	T	T	60193658	3	4	58	1	0	0	0	0	1	0	0	0	13725	962	34	3	679	3	RTN1	14	60193658	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5188716	60193658	47155882	1032	22407										
SYT16	83851	broad.mit.edu	37	chr14	62462806	62462806	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttctcttcctggatatctcgGgtttatgaagctctccagca	8	11	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:62462806G>T	uc001xfu.1	+	1	266	c.69G>T	c.(67-69)CGG>CGT	p.R23R	SYT16_uc010tsd.1_Silent_p.R23R	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	23										central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		GGATATCTCGGGTTTATGAAG	0.453													30	69	---	---	---	---	PASS	T	62462806	T	T	62462806	2	4	58	1	0	0	0	0	0	0	0	1	15469	1219	43	3		3	SYT16	14	62462806	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	2269148	62462806	44886734	1033	22408										
RHOJ	57381	broad.mit.edu	37	chr14	63749907	63749907	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagagaaacctctcacttaCgagcatggtgtgaagctcgc	10	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:63749907C>A	uc001xgb.1	+	4	914	c.471C>A	c.(469-471)TAC>TAA	p.Y157*		NM_020663	NP_065714	Q9H4E5	RHOJ_HUMAN	ras homolog gene family, member J precursor	157					actin cytoskeleton organization|regulation of cell shape|regulation of small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.00326)|all cancers(60;0.031)|BRCA - Breast invasive adenocarcinoma(234;0.119)		CTCTCACTTACGAGCATGGTG	0.413													42	55	---	---	---	---	PASS	A	63749907	A	A	63749907	4	1	58	1	0	0	0	0	0	1	0	0	13341	547	19	1	485	1	RHOJ	14	63749907	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1287101	63749907	43599633	1034	22409										
RAD51L1	5890	broad.mit.edu	37	chr14	68290268	68290268	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggatctggaggcatgggtaGcaagaaactaaaacgagtgg	15	5	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:68290268G>T	uc001xkf.1	+	2	72	c.8G>T	c.(7-9)AGC>ATC	p.S3I	RAD51L1_uc010aqq.2_Missense_Mutation_p.S3I|RAD51L1_uc001xkd.2_Missense_Mutation_p.S3I|RAD51L1_uc010aqr.2_5'UTR|RAD51L1_uc001xke.2_Missense_Mutation_p.S3I|RAD51L1_uc010aqs.1_Missense_Mutation_p.S3I|RAD51L1_uc001xkg.1_Missense_Mutation_p.S3I	NM_133509	NP_598193	O15315	RA51B_HUMAN	RAD51-like 1 isoform 3	3					blood coagulation|DNA repair|reciprocal meiotic recombination	nucleoplasm	ATP binding|DNA binding|DNA-dependent ATPase activity				0				UCEC - Uterine corpus endometrioid carcinoma (185;0.163)|all cancers(60;3.9e-06)|OV - Ovarian serous cystadenocarcinoma(108;0.000103)|BRCA - Breast invasive adenocarcinoma(234;0.000421)		GGCATGGGTAGCAAGAAACTA	0.348			T	HMGA2	lipoma|uterine leiomyoma			Direct_reversal_of_damage|Homologous_recombination					35	80	---	---	---	---	PASS	T	68290268	T	T	68290268	3	4	58	1	0	0	0	0	1	0	0	0	12989	971	34	3	10	3	RAD51L1	14	68290268	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	4540361	68290268	39059272	1035	22410										
SLC8A3	6547	broad.mit.edu	37	chr14	70634430	70634430	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acactggaaagaagaagagaGtgaggaggccttcccaaacc	12	9	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:70634430G>A	uc001xly.2	-	2	1464	c.710C>T	c.(709-711)ACT>ATT	p.T237I	SLC8A3_uc001xlw.2_Missense_Mutation_p.T237I|SLC8A3_uc001xlx.2_Missense_Mutation_p.T237I|SLC8A3_uc001xlz.2_Missense_Mutation_p.T237I|SLC8A3_uc010ara.2_RNA	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	237	Helical; (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		GAAGAAGAGAGTGAGGAGGCC	0.493													39	59	---	---	---	---	PASS	A	70634430	A	A	70634430	3	1	58	1	0	0	0	0	1	0	0	0	14708	1029	36	3	2212	3	SLC8A3	14	70634430	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2344162	70634430	36715110	1036	22411										
SLC8A3	6547	broad.mit.edu	37	chr14	70634971	70634971	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagattggcaggatgacacCctccttgcagtccgatgacc	10	14	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:70634971C>A	uc001xly.2	-	2	923	c.169G>T	c.(169-171)GGT>TGT	p.G57C	SLC8A3_uc001xlw.2_Missense_Mutation_p.G57C|SLC8A3_uc001xlx.2_Missense_Mutation_p.G57C|SLC8A3_uc001xlz.2_Missense_Mutation_p.G57C|SLC8A3_uc010ara.2_RNA	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	57	Extracellular (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		AGGATGACACCCTCCTTGCAG	0.547													24	43	---	---	---	---	PASS	A	70634971	A	A	70634971	3	1	58	1	0	0	0	0	1	0	0	0	14708	623	22	3	2753	3	SLC8A3	14	70634971	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	541	70634971	36714569	1037	22412										
ADAM21	8747	broad.mit.edu	37	chr14	70925091	70925091	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagtctttcccagctacagcAtgatgctgcacatatgttca	7	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:70925091A>T	uc001xmd.2	+	1	875	c.875A>T	c.(874-876)CAT>CTT	p.H292L		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	292	Peptidase M12B.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		CAGCTACAGCATGATGCTGCA	0.383													71	124	---	---	---	---	PASS	T	70925091	T	T	70925091	3	4	58	1	0	0	0	0	1	0	0	0	243	217	8	5	877	5	ADAM21	14	70925091	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	290120	70925091	36424449	1038	22413										
MAP3K9	4293	broad.mit.edu	37	chr14	71215569	71215569	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttctttggccctgagttggtCaaacatctcctgaatctcgt	8	11	4	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:71215569C>A	uc001xmm.2	-	5	1303	c.1303G>T	c.(1303-1305)GAC>TAC	p.D435Y	MAP3K9_uc010ttk.1_Missense_Mutation_p.D172Y|MAP3K9_uc001xmk.2_Missense_Mutation_p.D129Y|MAP3K9_uc001xml.2_Missense_Mutation_p.D435Y	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	435	Leucine-zipper 1.				activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		CTGAGTTGGTCAAACATCTCC	0.363													35	138	---	---	---	---	PASS	A	71215569	A	A	71215569	3	1	58	1	0	0	0	0	1	0	0	0	9257	826	29	2	2089	2	MAP3K9	14	71215569	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	290478	71215569	36133971	1039	22414										
PCNX	22990	broad.mit.edu	37	chr14	71479701	71479701	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcaatgctgactttcttttaGctctctctcccacagattcg	5	13	4	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:71479701G>T	uc001xmo.2	+	11	3225	c.2779_splice	c.e11-1	p.L927_splice	PCNX_uc010are.1_Intron|PCNX_uc010arf.1_5'Flank	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1							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)		CTTTCTTTTAGCTCTCTCTCC	0.308													52	82	---	---	---	---	PASS	T	71479701	T	T	71479701	5	4	58	1	0	0	0	0	0	0	1	0	11591	985	34	3	2820	3	PCNX	14	71479701	Splice_Site	SNP	G	TCGA-33-4566-01A-01D-1441-08	264132	71479701	35869839	1040	22415										
SIPA1L1	26037	broad.mit.edu	37	chr14	72138213	72138213	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	catggaactagactgcctttTagggatctccaatgagttca	9	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:72138213T>C	uc001xms.2	+	8	2981	c.2633T>C	c.(2632-2634)TTA>TCA	p.L878S	SIPA1L1_uc001xmt.2_Missense_Mutation_p.L878S|SIPA1L1_uc001xmu.2_Missense_Mutation_p.L878S|SIPA1L1_uc001xmv.2_Missense_Mutation_p.L878S|SIPA1L1_uc010ttm.1_Missense_Mutation_p.L353S	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	878					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		GACTGCCTTTTAGGGATCTCC	0.493													51	140	---	---	---	---	PASS	C	72138213	C	C	72138213	3	2	58	1	0	0	0	0	1	0	0	0	14329	1764	61	5	2659	5	SIPA1L1	14	72138213	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	658512	72138213	35211327	1041	22416										
SIPA1L1	26037	broad.mit.edu	37	chr14	72205015	72205015	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaccagctggaaggtatgctGaagatgcttcgggaagattt	14	6	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:72205015G>A	uc001xms.2	+	21	5592	c.5244G>A	c.(5242-5244)CTG>CTA	p.L1748L	SIPA1L1_uc001xmt.2_Silent_p.L1727L|SIPA1L1_uc001xmu.2_Silent_p.L1726L|SIPA1L1_uc001xmv.2_Silent_p.L1747L|SIPA1L1_uc010ttm.1_Silent_p.L1201L|SIPA1L1_uc001xmw.2_Silent_p.L513L	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1748	Potential.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		AAGGTATGCTGAAGATGCTTC	0.458													46	61	---	---	---	---	PASS	A	72205015	A	A	72205015	2	1	58	1	0	0	0	0	0	0	0	1	14329	1277	45	2		2	SIPA1L1	14	72205015	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	66802	72205015	35144525	1042	22417										
ENTPD5	957	broad.mit.edu	37	chr14	74443726	74443726	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ataaacttgaggatgtattaCctgtcagaaaattcacagta	7	6	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:74443726C>G	uc010tuo.1	-	8	864	c.553_splice	c.e8+1	p.G185_splice	ENTPD5_uc001xpi.2_Splice_Site_p.G185_splice	NM_001249	NP_001240	O75356	ENTP5_HUMAN	ectonucleoside triphosphate diphosphohydrolase 5						'de novo' posttranslational protein folding|ATP metabolic process|cell growth|cell proliferation|glycolysis|protein N-linked glycosylation|regulation of phosphatidylinositol 3-kinase cascade	endoplasmic reticulum lumen	guanosine-diphosphatase activity|uridine-diphosphatase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00394)		GGATGTATTACCTGTCAGAAA	0.363													43	80	---	---	---	---	PASS	G	74443726	G	G	74443726	5	3	58	1	0	0	0	0	0	0	1	0	5142	521	18	4	768	4	ENTPD5	14	74443726	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	2238711	74443726	32905814	1043	22418										
PROX2	283571	broad.mit.edu	37	chr14	75330491	75330491	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tacaagcttctgctaggtggGagcagatctggggctgagga	16	7	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:75330491G>C	uc001xqr.1	-	1	47	c.47C>G	c.(46-48)TCC>TGC	p.S16C	PROX2_uc001xqq.1_5'UTR	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2	16					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		TGCTAGGTGGGAGCAGATCTG	0.562													13	92	---	---	---	---	PASS	C	75330491	C	C	75330491	3	2	58	1	0	0	0	0	1	0	0	0	12561	1174	41	2	1747	2	PROX2	14	75330491	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	886765	75330491	32019049	1044	22419										
NGB	58157	broad.mit.edu	37	chr14	77732943	77732943	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgtagagttggctccaggcaGcccgtgtggctggtgtgaag	17	9	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:77732943G>T	uc001xtg.1	-	4	767	c.392C>A	c.(391-393)GCT>GAT	p.A131D		NM_021257	NP_067080	Q9NPG2	NGB_HUMAN	neuroglobin	131	Globin.					hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0273)		GCTCCAGGCAGCCCGTGTGGC	0.637													13	65	---	---	---	---	PASS	T	77732943	T	T	77732943	3	4	58	1	0	0	0	0	1	0	0	0	10392	971	34	3	67	3	NGB	14	77732943	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2402452	77732943	29616597	1045	22420										
NRXN3	9369	broad.mit.edu	37	chr14	79434664	79434664	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatgatgctcttcatcggagCggacagatcgagcgtggctg	14	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:79434664C>T	uc001xun.2	+	11	2489	c.1998C>T	c.(1996-1998)AGC>AGT	p.S666S	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Silent_p.S791S	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1039	Extracellular (Potential).|Laminin G-like 5.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		TTCATCGGAGCGGACAGATCG	0.522													13	94	---	---	---	---	PASS	T	79434664	T	T	79434664	2	4	58	1	0	0	0	0	0	0	0	1	10667	767	27	1		1	NRXN3	14	79434664	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1701721	79434664	27914876	1046	22421										
SEL1L	6400	broad.mit.edu	37	chr14	81956810	81956810	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcacttccttccgaatacatCtggaaaacagatcccaattt	4	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:81956810C>G	uc010tvv.1	-	13	1372	c.1255_splice	c.e13-1	p.M419_splice		NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor						Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		CCGAATACATCTGGAAAACAG	0.398													21	86	---	---	---	---	PASS	G	81956810	G	G	81956810	5	3	58	1	0	0	0	0	0	0	1	0	14010	927	32	2	1166	2	SEL1L	14	81956810	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	2522146	81956810	25392730	1047	22422										
GPR65	8477	broad.mit.edu	37	chr14	88478168	88478168	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaacgcatactttctgtgtCtacaaaagatactatggaat	6	7	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:88478168C>A	uc001xvv.2	+	2	1507	c.977C>A	c.(976-978)TCT>TAT	p.S326Y		NM_003608	NP_003599	Q8IYL9	PSYR_HUMAN	G protein-coupled receptor 65	326	Cytoplasmic (Potential).				actin cytoskeleton reorganization|activation of Rho GTPase activity|apoptosis|immune response|multicellular organismal development|positive regulation of cAMP biosynthetic process|positive regulation of stress fiber assembly|response to acidity	integral to plasma membrane	G-protein coupled receptor activity				0						CTTTCTGTGTCTACAAAAGAT	0.343													16	62	---	---	---	---	PASS	A	88478168	A	A	88478168	3	1	58	1	0	0	0	0	1	0	0	0	6706	913	32	2	979	2	GPR65	14	88478168	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	6521358	88478168	18871372	1048	22423										
KCNK10	54207	broad.mit.edu	37	chr14	88652436	88652436	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacgctgagccttcgccgtgTctcccggaactcagccgtga	11	16	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:88652436T>A	uc001xwo.2	-	7	1517	c.1060A>T	c.(1060-1062)ACA>TCA	p.T354S	KCNK10_uc001xwm.2_Missense_Mutation_p.T359S|KCNK10_uc001xwn.2_Missense_Mutation_p.T359S	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	354	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						CTTCGCCGTGTCTCCCGGAAC	0.632													7	27	---	---	---	---	PASS	A	88652436	A	A	88652436	3	1	58	1	0	0	0	0	1	0	0	0	8059	1667	58	5	560	5	KCNK10	14	88652436	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	174268	88652436	18697104	1049	22424										
KCNK10	54207	broad.mit.edu	37	chr14	88654339	88654339	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgtctttttggacagaaccCgtagccaatctccgatcata	7	11	3	1	rs149714386		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:88654339C>G	uc001xwo.2	-	6	1425	c.968G>C	c.(967-969)CGG>CCG	p.R323P	KCNK10_uc001xwm.2_Missense_Mutation_p.R328P|KCNK10_uc001xwn.2_Missense_Mutation_p.R328P	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	323	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity	p.R323Q(1)		ovary(2)|skin(2)|pancreas(1)	5						GGACAGAACCCGTAGCCAATC	0.473													48	111	---	---	---	---	PASS	G	88654339	G	G	88654339	3	3	58	1	0	0	0	0	1	0	0	0	8059	652	23	4	656	4	KCNK10	14	88654339	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1903	88654339	18695201	1050	22425										
SLC24A4	123041	broad.mit.edu	37	chr14	92953010	92953010	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctccaccccacattctgcagGtgactattatcggatacaca	6	14	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:92953010G>A	uc001yak.2	+	14	1396	c.1372G>A	c.(1372-1374)GTG>ATG	p.V458M	SLC24A4_uc001yai.2_Missense_Mutation_p.V411M|SLC24A4_uc010twm.1_Missense_Mutation_p.V456M|SLC24A4_uc001yaj.2_Missense_Mutation_p.V439M|SLC24A4_uc010auj.2_Missense_Mutation_p.V347M|SLC24A4_uc010twn.1_Missense_Mutation_p.V231M|SLC24A4_uc001yan.2_Missense_Mutation_p.V169M	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	475	Helical; (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		CATTCTGCAGGTGACTATTAT	0.463													12	48	---	---	---	---	PASS	A	92953010	A	A	92953010	3	1	58	1	0	0	0	0	1	0	0	0	14468	1275	44	3	1426	3	SLC24A4	14	92953010	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	4298671	92953010	14396530	1051	22426										
UBR7	55148	broad.mit.edu	37	chr14	93686750	93686750	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agagtccagcaagtggaactCatttgtggtaaatactgtgt	11	6	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:93686750C>G	uc001ybm.3	+	9	1352	c.1116C>G	c.(1114-1116)CTC>CTG	p.L372L	UBR7_uc001ybn.3_Silent_p.L296L|UBR7_uc010auq.2_Silent_p.L221L	NM_175748	NP_786924	Q8N806	UBR7_HUMAN	ubiquitin protein ligase E3 component n-recognin	372							ubiquitin-protein ligase activity|zinc ion binding				0						AAGTGGAACTCATTTGTGGTA	0.383													47	144	---	---	---	---	PASS	G	93686750	G	G	93686750	2	3	58	1	0	0	0	0	0	0	0	1	16903	813	29	2		2	UBR7	14	93686750	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	733740	93686750	13662790	1052	22427										
SERPINA4	5267	broad.mit.edu	37	chr14	95033367	95033367	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaagacttctatgttgatgAgaacacaacagtccgggtgc	10	9	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:95033367A>G	uc001ydk.2	+	3	776	c.710A>G	c.(709-711)GAG>GGG	p.E237G	SERPINA4_uc010avd.2_Missense_Mutation_p.E274G|SERPINA4_uc001ydl.2_Missense_Mutation_p.E237G	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	237					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		TATGTTGATGAGAACACAACA	0.502													44	66	---	---	---	---	PASS	G	95033367	G	G	95033367	3	3	58	1	0	0	0	0	1	0	0	0	14091	304	11	5	716	5	SERPINA4	14	95033367	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1346617	95033367	12316173	1053	22428										
ATG2B	55102	broad.mit.edu	37	chr14	96777530	96777530	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtcaccatagcttgcaatgTactgaatgagattcattaac	7	8	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:96777530T>C	uc001yfi.2	-	28	4450	c.4085A>G	c.(4084-4086)TAC>TGC	p.Y1362C		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1362										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)		GCTTGCAATGTACTGAATGAG	0.468													106	156	---	---	---	---	PASS	C	96777530	C	C	96777530	3	2	58	1	0	0	0	0	1	0	0	0	1094	1638	57	5	2211	5	ATG2B	14	96777530	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1744163	96777530	10572010	1054	22429										
DYNC1H1	1778	broad.mit.edu	37	chr14	102510221	102510221	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcctcaccagtctcccaacGagcgtgcccgcttgtacttc	7	17	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:102510221G>T	uc001yks.2	+	70	12687	c.12523G>T	c.(12523-12525)GAG>TAG	p.E4175*		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	4175	AAA 6 (By similarity).				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						GTCTCCCAACGAGCGTGCCCG	0.498													28	42	---	---	---	---	PASS	T	102510221	T	T	102510221	4	4	58	1	0	0	0	0	0	1	0	0	4841	1059	37	2	12801	2	DYNC1H1	14	102510221	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5732691	102510221	4839319	1055	22430										
TDRD9	122402	broad.mit.edu	37	chr14	104472878	104472878	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtatttggatgtctagatgaAtgtcttattataggtaagtg	11	2	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:104472878A>G	uc001yom.3	+	16	1896	c.1866A>G	c.(1864-1866)GAA>GAG	p.E622E	TDRD9_uc001yon.3_Silent_p.E360E	NM_153046	NP_694591	Q8NDG6	TDRD9_HUMAN	tudor domain containing 9	622					cell differentiation|DNA methylation involved in gamete generation|fertilization|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	nucleus|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0768)				GTCTAGATGAATGTCTTATTA	0.338													23	38	---	---	---	---	PASS	G	104472878	G	G	104472878	2	3	58	1	0	0	0	0	0	0	0	1	15733	98	4	5		5	TDRD9	14	104472878	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	1962657	104472878	2876662	1056	22431										
AHNAK2	113146	broad.mit.edu	37	chr14	105409082	105409082	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttggggcccttgacatccaCctgggggcccttgagggcca	14	14	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:105409082C>A	uc010axc.1	-	7	12826	c.12706G>T	c.(12706-12708)GTG>TTG	p.V4236L	AHNAK2_uc001ypx.2_Missense_Mutation_p.V4136L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4236						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)			TTGACATCCACCTGGGGGCCC	0.652													125	155	---	---	---	---	PASS	A	105409082	A	A	105409082	3	1	58	1	0	0	0	0	1	0	0	0	415	507	18	3	4685	3	AHNAK2	14	105409082	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	936204	105409082	1940458	1057	22432										
AHNAK2	113146	broad.mit.edu	37	chr14	105414415	105414415	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccacgcaccatccagcttgGctcccggggcctcgacatcc	10	19	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr14:105414415G>A	uc010axc.1	-	7	7493	c.7373C>T	c.(7372-7374)GCC>GTC	p.A2458V	AHNAK2_uc001ypx.2_Missense_Mutation_p.A2358V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2458						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)			ATCCAGCTTGGCTCCCGGGGC	0.622													109	135	---	---	---	---	PASS	A	105414415	A	A	105414415	3	1	58	1	0	0	0	0	1	0	0	0	415	1203	42	3	10018	3	AHNAK2	14	105414415	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5333	105414415	1935125	1058	22433										
TUBGCP5	114791	broad.mit.edu	37	chr15	22867508	22867508	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttaaagaaggccttatacatGaacaagacacagttgctcag	8	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:22867508G>T	uc001yur.3	+	19	2714	c.2584G>T	c.(2584-2586)GAA>TAA	p.E862*	TUBGCP5_uc001yuq.2_Nonsense_Mutation_p.E862*	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	862					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		CCTTATACATGAACAAGACAC	0.408													52	50	---	---	---	---	PASS	T	22867508	T	T	22867508	4	4	58	1	0	0	0	0	0	1	0	0	16766	1291	45	2	2658	2	TUBGCP5	15	22867508	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08		22867508	79663884	1059	22434										
MAGEL2	54551	broad.mit.edu	37	chr15	23889233	23889233	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcccactcacactctgcgagCgcttcaaggtaatggaatgg	10	12	3	0	rs140288382	by1000genomes	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:23889233C>G	uc001ywj.3	-	1	1943	c.1848G>C	c.(1846-1848)GCG>GCC	p.A616A		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		ACTCTGCGAGCGCTTCAAGGT	0.557													12	82	---	---	---	---	PASS	G	23889233	G	G	23889233	2	3	58	1	0	0	0	0	0	0	0	1	9189	755	27	4		4	MAGEL2	15	23889233	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1021725	23889233	78642159	1060	22435										
GABRB3	2562	broad.mit.edu	37	chr15	26806217	26806217	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agggccaggaacacaaagacGaagcagcccataaggtacat	11	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:26806217G>T	uc001zaz.2	-	8	1084	c.942C>A	c.(940-942)TTC>TTA	p.F314L	GABRB3_uc010uae.1_Missense_Mutation_p.F229L|GABRB3_uc001zba.2_Missense_Mutation_p.F314L|GABRB3_uc001zbb.2_Missense_Mutation_p.F370L	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	314	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)	ACACAAAGACGAAGCAGCCCA	0.483													56	80	---	---	---	---	PASS	T	26806217	T	T	26806217	3	4	58	1	0	0	0	0	1	0	0	0	6168	1049	37	2	487	2	GABRB3	15	26806217	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2916984	26806217	75725175	1061	22436										
GABRG3	2567	broad.mit.edu	37	chr15	27271968	27271968	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgtgtcatcaataaacatGgtaagaagctcctttatttt	6	8	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:27271968G>T	uc001zbg.1	+	3	436	c.270G>T	c.(268-270)ATG>ATT	p.M90I	GABRG3_uc001zbf.2_Missense_Mutation_p.M90I	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	90	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		CAATAAACATGGTAAGAAGCT	0.358													6	41	---	---	---	---	PASS	T	27271968	T	T	27271968	3	4	58	1	0	0	0	0	1	0	0	0	6173	1362	47	3	280	3	GABRG3	15	27271968	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	465751	27271968	75259424	1062	22437										
OCA2	4948	broad.mit.edu	37	chr15	28234752	28234752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagagctgtaattaccatgcCaaacagcagggccagcgtct	11	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:28234752C>A	uc001zbh.3	-	11	1287	c.1177G>T	c.(1177-1179)GGC>TGC	p.G393C	OCA2_uc010ayv.2_Missense_Mutation_p.G369C	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	393	Helical; (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		ATTACCATGCCAAACAGCAGG	0.552									Oculocutaneous_Albinism				14	45	---	---	---	---	PASS	A	28234752	A	A	28234752	3	1	58	1	0	0	0	0	1	0	0	0	10815	594	21	3	1395	3	OCA2	15	28234752	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	962784	28234752	74296640	1063	22438										
RYR3	6263	broad.mit.edu	37	chr15	33927967	33927967	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggcgaggccaggctgtcgaCctgatgtcgagctgggggcc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:33927967C>A	uc001zhi.2	+	26	3398	c.3328C>A	c.(3328-3330)CCT>ACT	p.P1110T	RYR3_uc010bar.2_Missense_Mutation_p.P1110T	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1110	B30.2/SPRY 2.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AGGCTGTCGACCTGATGTCGA	0.512													9	23	---	---	---	---	PASS	A	33927967	A	A	33927967	3	1	58	1	0	0	0	0	1	0	0	0	13770	507	18	3	3430	3	RYR3	15	33927967	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5693215	33927967	68603425	1064	22439	499	2								
RYR3	6263	broad.mit.edu	37	chr15	33927968	33927968	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcgaggccaggctgtcgacCtgatgtcgagctgggggccg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:33927968C>A	uc001zhi.2	+	26	3399	c.3329C>A	c.(3328-3330)CCT>CAT	p.P1110H	RYR3_uc010bar.2_Missense_Mutation_p.P1110H	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1110	B30.2/SPRY 2.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGCTGTCGACCTGATGTCGAG	0.512													9	24	---	---	---	---	PASS	A	33927968	A	A	33927968	3	1	58	1	0	0	0	0	1	0	0	0	13770	681	24	3	3431	3	RYR3	15	33927968	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1	33927968	68603424	1065	22440	499	2								
RYR3	6263	broad.mit.edu	37	chr15	33928020	33928020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttgtgtttgaaggcaacagGgtgagtttatatatctagca	11	4	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:33928020G>T	uc001zhi.2	+	26	3451	c.3381G>T	c.(3379-3381)AGG>AGT	p.R1127S	RYR3_uc010bar.2_Missense_Mutation_p.R1127S	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1127	B30.2/SPRY 2.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AAGGCAACAGGGTGAGTTTAT	0.502													4	11	---	---	---	---	PASS	T	33928020	T	T	33928020	3	4	58	1	0	0	0	0	1	0	0	0	13770	1246	43	3	3483	3	RYR3	15	33928020	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	52	33928020	68603372	1066	22441										
RYR3	6263	broad.mit.edu	37	chr15	33952004	33952004	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagtttgaacttggaaagctGaaggtatttatttgtcctct	9	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:33952004G>A	uc001zhi.2	+	33	4462	c.4392G>A	c.(4390-4392)CTG>CTA	p.L1464L	RYR3_uc010bar.2_Silent_p.L1464L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1464	4 X approximate repeats.|B30.2/SPRY 3.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTGGAAAGCTGAAGGTATTTA	0.438													12	28	---	---	---	---	PASS	A	33952004	A	A	33952004	2	1	58	1	0	0	0	0	0	0	0	1	13770	1277	45	2		2	RYR3	15	33952004	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	23984	33952004	68579388	1067	22442										
RYR3	6263	broad.mit.edu	37	chr15	33952493	33952493	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gacgtccaaaccatccagccCgtgctctggagccgcatgcc	10	17	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:33952493C>G	uc001zhi.2	+	34	4561	c.4491C>G	c.(4489-4491)CCC>CCG	p.P1497P	RYR3_uc010bar.2_Silent_p.P1497P	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1497	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CCATCCAGCCCGTGCTCTGGA	0.632													3	2	---	---	---	---	PASS	G	33952493	G	G	33952493	2	3	58	1	0	0	0	0	0	0	0	1	13770	639	23	4		4	RYR3	15	33952493	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	489	33952493	68578899	1068	22443										
RYR3	6263	broad.mit.edu	37	chr15	34023743	34023743	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgttctgctgtgctcccgctCctcacaagatgtgcccctct	8	16	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:34023743C>A	uc001zhi.2	+	48	7342	c.7272C>A	c.(7270-7272)CTC>CTA	p.L2424L	RYR3_uc010bar.2_Silent_p.L2424L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2424	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGCTCCCGCTCCTCACAAGAT	0.488													22	30	---	---	---	---	PASS	A	34023743	A	A	34023743	2	1	58	1	0	0	0	0	0	0	0	1	13770	842	30	2		2	RYR3	15	34023743	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	71250	34023743	68507649	1069	22444										
RYR3	6263	broad.mit.edu	37	chr15	34080547	34080547	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggagcagttgaaagccgatGgcaaaggggacacccaggag	16	8	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:34080547G>T	uc001zhi.2	+	67	9788	c.9718G>T	c.(9718-9720)GGC>TGC	p.G3240C	RYR3_uc010bar.2_Missense_Mutation_p.G3240C	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3240					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GAAAGCCGATGGCAAAGGGGA	0.567													74	116	---	---	---	---	PASS	T	34080547	T	T	34080547	3	4	58	1	0	0	0	0	1	0	0	0	13770	1348	47	3	9984	3	RYR3	15	34080547	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	56804	34080547	68450845	1070	22445										
RYR3	6263	broad.mit.edu	37	chr15	34109111	34109111	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggctatcagagattttggatAgaaacagaggagtattcctt	11	5	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:34109111A>G	uc001zhi.2	+	75	10621	c.10551A>G	c.(10549-10551)ATA>ATG	p.I3517M	RYR3_uc010bar.2_Missense_Mutation_p.I3512M	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3517					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GATTTTGGATAGAAACAGAGG	0.458													16	13	---	---	---	---	PASS	G	34109111	G	G	34109111	3	3	58	1	0	0	0	0	1	0	0	0	13770	410	15	5	10849	5	RYR3	15	34109111	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	28564	34109111	68422281	1071	22446										
ACTC1	70	broad.mit.edu	37	chr15	35082705	35082705	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaaggtggacagagaggccaGgatggagcccccaatccaga	15	10	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:35082705G>T	uc001ziu.1	-	7	1285	c.1042C>A	c.(1042-1044)CTG>ATG	p.L348M	uc001zit.1_Intron	NM_005159	NP_005150	P68032	ACTC_HUMAN	cardiac muscle alpha actin 1 proprotein	348					apoptosis|cardiac muscle tissue morphogenesis|cardiac myofibril assembly|muscle filament sliding|skeletal muscle thin filament assembly	actomyosin, actin part|cytosol|I band	ATP binding|ATPase activity|myosin binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(180;2.3e-08)		all cancers(64;5.83e-19)|GBM - Glioblastoma multiforme(113;1.98e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		AGAGAGGCCAGGATGGAGCCC	0.483													33	140	---	---	---	---	PASS	T	35082705	T	T	35082705	3	4	58	1	0	0	0	0	1	0	0	0	195	991	35	3	95	3	ACTC1	15	35082705	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	973594	35082705	67448687	1072	22447										
FAM98B	283742	broad.mit.edu	37	chr15	38765759	38765759	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	catgtgggaaaaccactgctGaaaatggatttaaattcaga	9	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:38765759G>T	uc001zkb.1	+	5	620	c.585G>T	c.(583-585)CTG>CTT	p.L195L	FAM98B_uc001zkc.2_Silent_p.L195L	NM_001042429	NP_001035894	Q52LJ0	FA98B_HUMAN	family with sequence similarity 98, member B	195						tRNA-splicing ligase complex	protein binding			ovary(1)	1		all_cancers(109;3.11e-17)|all_epithelial(112;2.64e-15)|Lung NSC(122;2.11e-11)|all_lung(180;5.61e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;9e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0209)		AACCACTGCTGAAAATGGATT	0.274													35	52	---	---	---	---	PASS	T	38765759	T	T	38765759	2	4	58	1	0	0	0	0	0	0	0	1	5657	1277	45	2		2	FAM98B	15	38765759	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	3683054	38765759	63765633	1073	22448										
BAHD1	22893	broad.mit.edu	37	chr15	40751488	40751488	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctgcaggcccacctggctgGcaaggctgccctgatgaacc	13	15	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:40751488G>A	uc001zlu.2	+	2	896	c.825G>A	c.(823-825)TGG>TGA	p.W275*	BAHD1_uc001zlt.2_Nonsense_Mutation_p.W275*|BAHD1_uc010bbp.1_Nonsense_Mutation_p.W275*|BAHD1_uc001zlv.2_Nonsense_Mutation_p.W275*	NM_014952	NP_055767	Q8TBE0	BAHD1_HUMAN	bromo adjacent homology domain containing 1	275	Pro-rich.				heterochromatin formation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin silencing complex|chromosome	chromatin binding|DNA binding|protein binding				0		all_cancers(109;8.28e-19)|all_epithelial(112;2.64e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.46e-06)|BRCA - Breast invasive adenocarcinoma(123;0.08)		CACCTGGCTGGCAAGGCTGCC	0.632													8	72	---	---	---	---	PASS	A	40751488	A	A	40751488	4	1	58	1	0	0	0	0	0	1	0	0	1297	1212	42	3	827	3	BAHD1	15	40751488	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1985729	40751488	61779904	1074	22449										
PPIP5K1	9677	broad.mit.edu	37	chr15	43831688	43831688	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accaagggggcttctcagagCgctgctggagttgcagggga	17	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:43831688C>G	uc001zrw.2	-	30	3662	c.3479G>C	c.(3478-3480)CGC>CCC	p.R1160P	PPIP5K1_uc001zrx.1_Missense_Mutation_p.R1093P|PPIP5K1_uc001zru.2_Missense_Mutation_p.R1135P|PPIP5K1_uc001zry.3_Missense_Mutation_p.R1135P|PPIP5K1_uc001zrv.2_Intron	NM_001130858	NP_001124330	Q6PFW1	VIP1_HUMAN	histidine acid phosphatase domain containing 2A	1160					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity				0						CTTCTCAGAGCGCTGCTGGAG	0.507													3	11	---	---	---	---	PASS	G	43831688	G	G	43831688	3	3	58	1	0	0	0	0	1	0	0	0	12332	768	27	4	954	4	PPIP5K1	15	43831688	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3080200	43831688	58699704	1075	22450										
SPG11	80208	broad.mit.edu	37	chr15	44890865	44890865	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagctgtactgagcatcttCatttctgcacttgtagctca	7	10	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:44890865C>A	uc001ztx.2	-	22	3887	c.3856G>T	c.(3856-3858)GAA>TAA	p.E1286*	SPG11_uc010ueh.1_Nonsense_Mutation_p.E1286*|SPG11_uc010uei.1_Nonsense_Mutation_p.E1286*|SPG11_uc001zty.1_Nonsense_Mutation_p.E15*	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	1286	Cytoplasmic (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		TGAGCATCTTCATTTCTGCAC	0.418													58	87	---	---	---	---	PASS	A	44890865	A	A	44890865	4	1	58	1	0	0	0	0	0	1	0	0	15040	835	29	2	3551	2	SPG11	15	44890865	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1059177	44890865	57640527	1076	22451										
DUOX2	50506	broad.mit.edu	37	chr15	45398789	45398789	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagtttcttttgtagcttctTgtgttctcggccccggaaat	10	9	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:45398789T>A	uc010bea.2	-	16	2085	c.1882A>T	c.(1882-1884)AAG>TAG	p.K628*	DUOX2_uc001zun.2_Nonsense_Mutation_p.K628*	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	628	Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		TGTAGCTTCTTGTGTTCTCGG	0.562													52	165	---	---	---	---	PASS	A	45398789	A	A	45398789	4	1	58	1	0	0	0	0	0	1	0	0	4801	1821	63	5	2840	5	DUOX2	15	45398789	Nonsense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	507924	45398789	57132603	1077	22452										
DUOX2	50506	broad.mit.edu	37	chr15	45401780	45401780	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaaatctgggaggccattccCagcagcagctcattcacctc	9	14	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:45401780C>A	uc010bea.2	-	11	1379	c.1176G>T	c.(1174-1176)CTG>CTT	p.L392L	DUOX2_uc001zun.2_Silent_p.L392L	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	392	Extracellular (Potential).|Peroxidase-like; mediates peroxidase activity (By similarity).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		AGGCCATTCCCAGCAGCAGCT	0.522													58	81	---	---	---	---	PASS	A	45401780	A	A	45401780	2	1	58	1	0	0	0	0	0	0	0	1	4801	581	21	3		3	DUOX2	15	45401780	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2991	45401780	57129612	1078	22453										
GABPB1	2553	broad.mit.edu	37	chr15	50581845	50581845	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atccacagattctgcagtaaCtacttcttctgtggccacta	6	12	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:50581845C>A	uc001zyb.2	-	7	1178	c.754G>T	c.(754-756)GTT>TTT	p.V252F	GABPB1_uc001zya.2_Missense_Mutation_p.V240F|GABPB1_uc010ufg.1_Missense_Mutation_p.V176F|GABPB1_uc001zyc.2_Missense_Mutation_p.V240F|GABPB1_uc001zyd.2_Missense_Mutation_p.V240F|GABPB1_uc001zye.2_Missense_Mutation_p.V252F|GABPB1_uc001zyf.2_Missense_Mutation_p.V239F	NM_005254	NP_005245	Q06547	GABP1_HUMAN	GA binding protein transcription factor, beta	252					positive regulation of transcription from RNA polymerase II promoter	nucleus	protein binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)	1						TCTGCAGTAACTACTTCTTCT	0.378													17	59	---	---	---	---	PASS	A	50581845	A	A	50581845	3	1	58	1	0	0	0	0	1	0	0	0	6158	565	20	3	493	3	GABPB1	15	50581845	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5180065	50581845	51949547	1079	22454										
CYP19A1	1588	broad.mit.edu	37	chr15	51503227	51503227	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagccacggggcccaaagccAaatggctgaaagtacctata	10	12	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:51503227A>C	uc001zyz.3	-	11	1541	c.1290T>G	c.(1288-1290)TTT>TTG	p.F430L	CYP19A1_uc001zza.3_Missense_Mutation_p.F430L	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	430					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	GCCCAAAGCCAAATGGCTGAA	0.448													35	74	---	---	---	---	PASS	C	51503227	C	C	51503227	3	2	58	1	0	0	0	0	1	0	0	0	4148	127	5	5	225	5	CYP19A1	15	51503227	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	921382	51503227	51028165	1080	22455										
DMXL2	23312	broad.mit.edu	37	chr15	51757049	51757049	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtttttaatcacagcaataCctaatggtgatgttacaggc	8	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:51757049C>A	uc002abf.2	-	32	7853	c.7628G>T	c.(7627-7629)GGT>GTT	p.G2543V	DMXL2_uc002abd.2_Missense_Mutation_p.G614V|DMXL2_uc010ufy.1_Missense_Mutation_p.G2544V|DMXL2_uc010bfa.2_Missense_Mutation_p.G1907V	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	2543						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		CACAGCAATACCTAATGGTGA	0.343													66	85	---	---	---	---	PASS	A	51757049	A	A	51757049	3	1	58	1	0	0	0	0	1	0	0	0	4595	507	18	3	1530	3	DMXL2	15	51757049	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	253822	51757049	50774343	1081	22456										
UNC13C	440279	broad.mit.edu	37	chr15	54527271	54527271	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgacagcatgccggatcttCgcagaaaaaaaactttgcct	8	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:54527271C>G	uc002ack.2	+	4	3115	c.3115C>G	c.(3115-3117)CGC>GGC	p.R1039G		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1039					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GCCGGATCTTCGCAGAAAAAA	0.358													24	51	---	---	---	---	PASS	G	54527271	G	G	54527271	3	3	58	1	0	0	0	0	1	0	0	0	16983	884	31	2	3129	2	UNC13C	15	54527271	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2770222	54527271	48004121	1082	22457										
PRTG	283659	broad.mit.edu	37	chr15	55970146	55970146	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcttctgacatcactacagtCagtctggctctagataaaat	6	10	6	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:55970146C>T	uc002adg.2	-	8	1278	c.1230G>A	c.(1228-1230)CTG>CTA	p.L410L	PRTG_uc002adh.2_5'Flank	NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	410	Ig-like 4.				multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		TCACTACAGTCAGTCTGGCTC	0.418													58	67	---	---	---	---	PASS	T	55970146	T	T	55970146	2	4	58	1	0	0	0	0	0	0	0	1	12638	813	29	2		2	PRTG	15	55970146	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1442875	55970146	46561246	1083	22458										
HERC1	8925	broad.mit.edu	37	chr15	63922665	63922665	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caagcaatataaatatttacCtgcccttctgaattgctccc	4	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:63922665C>T	uc002amp.2	-	69	13114	c.12966G>A	c.(12964-12966)CAG>CAA	p.Q4322Q		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	4322	RCC1 14.|WD 11.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						AAATATTTACCTGCCCTTCTG	0.418													73	260	---	---	---	---	PASS	T	63922665	T	T	63922665	2	4	58	1	0	0	0	0	0	0	0	1	7057	695	24	3		3	HERC1	15	63922665	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	7952519	63922665	38608727	1084	22459										
CORO2B	10391	broad.mit.edu	37	chr15	69011060	69011060	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcatgcccaagcacgggctgGatgtgtcagcctgcgaggtg	15	11	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:69011060G>T	uc002arj.3	+	9	1020	c.991G>T	c.(991-993)GAT>TAT	p.D331Y	CORO2B_uc010bic.2_Missense_Mutation_p.D326Y|CORO2B_uc002ark.2_Missense_Mutation_p.D98Y	NM_006091	NP_006082	Q9UQ03	COR2B_HUMAN	coronin, actin binding protein, 2B	331					actin cytoskeleton organization	actin cytoskeleton|cytoplasm|membrane	actin filament binding			ovary(3)|skin(2)|large_intestine(1)	6						GCACGGGCTGGATGTGTCAGC	0.597													11	50	---	---	---	---	PASS	T	69011060	T	T	69011060	3	4	58	1	0	0	0	0	1	0	0	0	3757	1174	41	2	1025	2	CORO2B	15	69011060	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5088395	69011060	33520332	1085	22460										
CORO2B	10391	broad.mit.edu	37	chr15	69018240	69018240	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acggttgaaagaggagctggCccagaaggacatccgcattc	13	10	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:69018240C>G	uc002arj.3	+	12	1399	c.1370C>G	c.(1369-1371)GCC>GGC	p.A457G	CORO2B_uc010bic.2_Missense_Mutation_p.A452G|CORO2B_uc002ark.2_Missense_Mutation_p.A224G	NM_006091	NP_006082	Q9UQ03	COR2B_HUMAN	coronin, actin binding protein, 2B	457	Potential.				actin cytoskeleton organization	actin cytoskeleton|cytoplasm|membrane	actin filament binding			ovary(3)|skin(2)|large_intestine(1)	6						GAGGAGCTGGCCCAGAAGGAC	0.577													30	66	---	---	---	---	PASS	G	69018240	G	G	69018240	3	3	58	1	0	0	0	0	1	0	0	0	3757	739	26	4	1416	4	CORO2B	15	69018240	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	7180	69018240	33513152	1086	22461										
LRRC49	54839	broad.mit.edu	37	chr15	71256238	71256238	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	actgtccttcagaatatgatGcagctgcgccagctagatat	9	10	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:71256238G>T	uc002asw.2	+	9	1135	c.888G>T	c.(886-888)ATG>ATT	p.M296I	LRRC49_uc002asu.2_Missense_Mutation_p.M286I|LRRC49_uc002asx.2_Missense_Mutation_p.M252I|LRRC49_uc010ukf.1_Missense_Mutation_p.M301I|LRRC49_uc002asy.2_Missense_Mutation_p.M2I|LRRC49_uc002asz.2_Missense_Mutation_p.M268I	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	296	LRRCT.					cytoplasm|microtubule				ovary(1)	1						AGAATATGATGCAGCTGCGCC	0.468													40	71	---	---	---	---	PASS	T	71256238	T	T	71256238	3	4	58	1	0	0	0	0	1	0	0	0	9006	1319	46	3	922	3	LRRC49	15	71256238	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2237998	71256238	31275154	1087	22462										
MYO9A	4649	broad.mit.edu	37	chr15	72324912	72324912	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaattgttattatgagctgtCtttgcatttccaaaggcctg	9	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:72324912C>A	uc002atl.3	-	3	1331	c.858G>T	c.(856-858)AAG>AAT	p.K286N	MYO9A_uc010biq.2_5'UTR|MYO9A_uc002ato.2_Missense_Mutation_p.K286N|MYO9A_uc002atn.1_Missense_Mutation_p.K286N	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	286	Myosin head-like 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						TATGAGCTGTCTTTGCATTTC	0.358													24	80	---	---	---	---	PASS	A	72324912	A	A	72324912	3	1	58	1	0	0	0	0	1	0	0	0	10084	912	32	2	6948	2	MYO9A	15	72324912	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1068674	72324912	30206480	1088	22463										
NEO1	4756	broad.mit.edu	37	chr15	73585763	73585763	+	Frame_Shift_Del	DEL	G	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccatcccatccattccctcGataaccctcaccatcatttc					rs149490246	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:73585763delG	uc002avm.3	+	26	3917	c.3775delG	c.(3775-3777)GATfs	p.D1259fs	NEO1_uc010ukx.1_Frame_Shift_Del_p.D1248fs|NEO1_uc010uky.1_Intron|NEO1_uc010ukz.1_Frame_Shift_Del_p.D672fs|NEO1_uc002avn.3_Frame_Shift_Del_p.D897fs	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	1259	Cytoplasmic (Potential).				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						CCATTCCCTCGATAACCCTCA	0.502													192	122	---	---	---	---		-	73585763	-	-	73585763	7	5	58	1	0	1	0	1	0	0	0	0	10336	1058	37	0	3877	0	NEO1	15	73585763	Frame_Shift_Del	DEL	G	TCGA-33-4566-01A-01D-1441-08	1260851	73585763	28945629	1089	22464										
ISLR2	57611	broad.mit.edu	37	chr15	74425228	74425228	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttacaaagagttgcgtgagGtgccggaaggactgcctgcc	14	10	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:74425228G>T	uc002axd.2	+	4	902	c.133G>T	c.(133-135)GTG>TTG	p.V45L	ISLR2_uc002axe.2_Missense_Mutation_p.V45L|ISLR2_uc010bjg.2_Missense_Mutation_p.V45L|ISLR2_uc010bjf.2_Missense_Mutation_p.V45L	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	45	Extracellular (Potential).|LRRNT.				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						GTTGCGTGAGGTGCCGGAAGG	0.637													26	107	---	---	---	---	PASS	T	74425228	T	T	74425228	3	4	58	1	0	0	0	0	1	0	0	0	7859	1261	44	3	135	3	ISLR2	15	74425228	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	839465	74425228	28106164	1090	22465										
CLK3	1198	broad.mit.edu	37	chr15	74912388	74912388	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagaggaggtaccgggagcGccgtgacagcgatacatacc	14	12	0	2	rs146399462	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:74912388G>T	uc010uln.1	+	3	1096	c.635G>T	c.(634-636)CGC>CTC	p.R212L	CLK3_uc002ayg.3_Missense_Mutation_p.R64L|CLK3_uc002ayh.3_5'UTR|CLK3_uc010ulm.1_Missense_Mutation_p.R212L|CLK3_uc002ayj.3_Missense_Mutation_p.R64L|CLK3_uc002ayk.3_5'UTR	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	212	Arg-rich.					acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						TACCGGGAGCGCCGTGACAGC	0.607													25	123	---	---	---	---	PASS	T	74912388	T	T	74912388	3	4	58	1	0	0	0	0	1	0	0	0	3538	1087	38	1	645	1	CLK3	15	74912388	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	487160	74912388	27619004	1091	22466										
C15orf39	56905	broad.mit.edu	37	chr15	75499670	75499670	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagcgagccagccctgctcAgagcctgtgaggcctgcaca	12	16	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:75499670A>T	uc002azp.3	+	2	1601	c.1281A>T	c.(1279-1281)TCA>TCT	p.S427S	C15orf39_uc002azq.3_Silent_p.S427S|C15orf39_uc002azr.3_5'Flank	NM_015492	NP_056307	Q6ZRI6	CO039_HUMAN	hypothetical protein LOC56905	427											0						AGCCCTGCTCAGAGCCTGTGA	0.642													22	55	---	---	---	---	PASS	T	75499670	T	T	75499670	2	4	58	1	0	0	0	0	0	0	0	1	1793	175	7	5		5	C15orf39	15	75499670	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	587282	75499670	27031722	1092	22467										
CSPG4	1464	broad.mit.edu	37	chr15	75968836	75968836	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgaaggcaaagaccacctcGccctggtctatctggaattg	11	11	2	2	rs150399169		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:75968836G>T	uc002baw.2	-	10	6117	c.6024C>A	c.(6022-6024)GGC>GGA	p.G2008G		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	2008	Extracellular (Potential).|CSPG 14.|Cysteine-containing.|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						AGACCACCTCGCCCTGGTCTA	0.597													84	103	---	---	---	---	PASS	T	75968836	T	T	75968836	2	4	58	1	0	0	0	0	0	0	0	1	3960	1074	38	1		1	CSPG4	15	75968836	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	469166	75968836	26562556	1093	22468										
CSPG4	1464	broad.mit.edu	37	chr15	75979665	75979665	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcctctccctggaagacgtaGatcttcttgtgccggaccag	11	13	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:75979665G>T	uc002baw.2	-	3	3834	c.3741C>A	c.(3739-3741)ATC>ATA	p.I1247I		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1247	CSPG 8.|Extracellular (Potential).|Gly/Ser-rich (glycosaminoglycan attachment domain).|Interaction with COL5A1 (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						GGAAGACGTAGATCTTCTTGT	0.617													33	136	---	---	---	---	PASS	T	75979665	T	T	75979665	2	4	58	1	0	0	0	0	0	0	0	1	3960	932	33	2		2	CSPG4	15	75979665	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	10829	75979665	26551727	1094	22469										
CSPG4	1464	broad.mit.edu	37	chr15	75982632	75982632	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccaccacggcccgcaggtgGccctcaaatatgtccacata	8	16	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:75982632G>T	uc002baw.2	-	3	867	c.774C>A	c.(772-774)GGC>GGA	p.G258G		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	258	Extracellular (Potential).|Neurite growth inhibition (By similarity).|Globular or compact configuration stabilized by disulfide bonds.|Laminin G-like 2.				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						CCCGCAGGTGGCCCTCAAATA	0.617													11	51	---	---	---	---	PASS	T	75982632	T	T	75982632	2	4	58	1	0	0	0	0	0	0	0	1	3960	1190	42	3		3	CSPG4	15	75982632	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	2967	75982632	26548760	1095	22470										
ETFA	2108	broad.mit.edu	37	chr15	76566836	76566836	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agcagcacgggaagcaccaaCtaaggggaaaaaatatttgt	11	7	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:76566836C>T	uc002bbt.2	-	9	815	c.734_splice	c.e9-1	p.V245_splice	ETFA_uc010bkq.1_Splice_Site_p.V196_splice|ETFA_uc002bbu.1_Splice_Site_p.V245_splice	NM_000126	NP_000117	P13804	ETFA_HUMAN	electron transfer flavoprotein, alpha						respiratory electron transport chain|transport	mitochondrial matrix	electron carrier activity|flavin adenine dinucleotide binding|oxidoreductase activity				0						GAAGCACCAACTAAGGGGAAA	0.363													16	39	---	---	---	---	PASS	T	76566836	T	T	76566836	5	4	58	1	0	0	0	0	0	0	1	0	5269	579	20	3	284	3	ETFA	15	76566836	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	584204	76566836	25964556	1096	22471										
LINGO1	84894	broad.mit.edu	37	chr15	77907420	77907420	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gacggccaggtagggcacagCggtcagattgcagtgtgtga	17	8	1	2	rs111741384		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:77907420C>G	uc002bct.1	-	2	881	c.829G>C	c.(829-831)GCT>CCT	p.A277P	LINGO1_uc002bcu.1_Missense_Mutation_p.A271P	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	277	Extracellular (Potential).|LRR 8.				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						TAGGGCACAGCGGTCAGATTG	0.577													21	68	---	---	---	---	PASS	G	77907420	G	G	77907420	3	3	58	1	0	0	0	0	1	0	0	0	8814	768	27	4	1037	4	LINGO1	15	77907420	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1340584	77907420	24623972	1097	22472										
RASGRF1	5923	broad.mit.edu	37	chr15	79277507	79277507	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctcaccctggcgttgatgtCctcattgcggatgatttctg	11	11	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:79277507C>A	uc002beq.2	-	24	3679	c.3304G>T	c.(3304-3306)GAC>TAC	p.D1102Y	RASGRF1_uc002bep.2_Missense_Mutation_p.D1086Y|RASGRF1_uc010blm.1_Missense_Mutation_p.D1011Y|RASGRF1_uc002ber.3_Missense_Mutation_p.D1086Y|RASGRF1_uc002beo.2_Missense_Mutation_p.D318Y	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	1104	Ras-GEF.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						GCGTTGATGTCCTCATTGCGG	0.373													73	89	---	---	---	---	PASS	A	79277507	A	A	79277507	3	1	58	1	0	0	0	0	1	0	0	0	13072	855	30	2	537	2	RASGRF1	15	79277507	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1370087	79277507	23253885	1098	22473										
NTRK3	4916	broad.mit.edu	37	chr15	88476298	88476298	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcaaagaccatgatgagggGgtccccatcgccgcacactc	10	14	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:88476298G>C	uc002bme.1	-	15	1996	c.1834C>G	c.(1834-1836)CCC>GCC	p.P612A	NTRK3_uc002bmh.2_Missense_Mutation_p.P604A|NTRK3_uc002bmf.1_Missense_Mutation_p.P612A|NTRK3_uc010upl.1_Missense_Mutation_p.P514A|NTRK3_uc010bnh.1_Missense_Mutation_p.P604A	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	612	Cytoplasmic (Potential).|Protein kinase.				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)			ATGATGAGGGGGTCCCCATCG	0.557			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			22	36	---	---	---	---	PASS	C	88476298	C	C	88476298	3	2	58	1	0	0	0	0	1	0	0	0	10708	1232	43	4	705	4	NTRK3	15	88476298	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	9198791	88476298	14055094	1099	22474										
NTRK3	4916	broad.mit.edu	37	chr15	88669594	88669594	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaaagcagcaagtccaactGctatggatacctgtgaggaa	10	9	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:88669594G>T	uc002bme.1	-	12	1466	c.1304C>A	c.(1303-1305)GCA>GAA	p.A435E	NTRK3_uc002bmh.2_Missense_Mutation_p.A427E|NTRK3_uc002bmf.1_Missense_Mutation_p.A435E|NTRK3_uc010upl.1_Missense_Mutation_p.A337E|NTRK3_uc010bnh.1_Missense_Mutation_p.A427E|NTRK3_uc002bmg.2_Missense_Mutation_p.A435E	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	435	Helical; (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)			AAGTCCAACTGCTATGGATAC	0.443			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			49	58	---	---	---	---	PASS	T	88669594	T	T	88669594	3	4	58	1	0	0	0	0	1	0	0	0	10708	1319	46	3	1509	3	NTRK3	15	88669594	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	193296	88669594	13861798	1100	22475										
NTRK3	4916	broad.mit.edu	37	chr15	88679775	88679775	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgatccagagccattgcaagTgataacagcgttgtcaccct	9	11	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:88679775T>A	uc002bme.1	-	7	850	c.688A>T	c.(688-690)ACT>TCT	p.T230S	NTRK3_uc002bmh.2_Missense_Mutation_p.T230S|NTRK3_uc002bmf.1_Missense_Mutation_p.T230S|NTRK3_uc010upl.1_Missense_Mutation_p.T132S|NTRK3_uc010bnh.1_Missense_Mutation_p.T230S|NTRK3_uc002bmg.2_Missense_Mutation_p.T230S	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	230	Ig-like C2-type 1.|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)			CCATTGCAAGTGATAACAGCG	0.557			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			21	43	---	---	---	---	PASS	A	88679775	A	A	88679775	3	1	58	1	0	0	0	0	1	0	0	0	10708	1696	59	5	2145	5	NTRK3	15	88679775	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	10181	88679775	13851617	1101	22476										
WDR93	56964	broad.mit.edu	37	chr15	90258209	90258209	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttctctggtttcccaatgcAggagccggagatatttggct	12	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:90258209A>T	uc002boj.2	+	6	742	c.641_splice	c.e6-2	p.G214_splice	WDR93_uc010bnr.2_Splice_Site_p.G214_splice	NM_020212	NP_064597	Q6P2C0	WDR93_HUMAN	WD repeat domain 93						electron transport chain	mitochondrial inner membrane	oxidoreductase activity, acting on NADH or NADPH			ovary(2)	2	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			TTCCCAATGCAGGAGCCGGAG	0.458													5	31	---	---	---	---	PASS	T	90258209	T	T	90258209	5	4	58	1	0	0	0	0	0	0	1	0	17337	202	7	5	657	5	WDR93	15	90258209	Splice_Site	SNP	A	TCGA-33-4566-01A-01D-1441-08	1578434	90258209	12273183	1102	22477										
CRTC3	64784	broad.mit.edu	37	chr15	91185216	91185216	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aacagtgcgctggcaggcctGcctgaggtcagcctgaacgt	14	12	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:91185216G>A	uc002bpp.2	+	15	1810	c.1704G>A	c.(1702-1704)CTG>CTA	p.L568L	CRTC3_uc002bpo.2_Silent_p.L567L	NM_022769	NP_073606	Q6UUV7	CRTC3_HUMAN	transducer of regulated CREB protein 3 isoform	568					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus			CRTC3/MAML2(26)	salivary_gland(26)|ovary(1)	27	Melanoma(11;0.00551)|Lung NSC(78;0.0931)|all_lung(78;0.163)		BRCA - Breast invasive adenocarcinoma(143;0.0745)			TGGCAGGCCTGCCTGAGGTCA	0.562			T	MAML2	salivary gland mucoepidermoid								45	75	---	---	---	---	PASS	A	91185216	A	A	91185216	2	1	58	1	0	0	0	0	0	0	0	1	3901	1306	46	3		3	CRTC3	15	91185216	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	927007	91185216	11346176	1103	22478										
CHD2	1106	broad.mit.edu	37	chr15	93480847	93480847	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtaaaagccagaagacctgtCcccagaaggtgcactgtttg	11	10	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:93480847C>A	uc002bsp.2	+	6	1118	c.543C>A	c.(541-543)GTC>GTA	p.V181V	CHD2_uc002bsm.1_Silent_p.V181V|CHD2_uc002bsn.2_Silent_p.V181V|CHD2_uc002bso.1_Silent_p.V181V|CHD2_uc010urb.1_Silent_p.V194V	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	181					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			GAAGACCTGTCCCCAGAAGGT	0.438													7	35	---	---	---	---	PASS	A	93480847	A	A	93480847	2	1	58	1	0	0	0	0	0	0	0	1	3325	842	30	2		2	CHD2	15	93480847	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2295631	93480847	9050545	1104	22479										
MCTP2	55784	broad.mit.edu	37	chr15	94913349	94913349	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccctgaaagatgtgaaagacGtcggcattctacaagtgaag	11	8	1	5			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:94913349G>T	uc002btj.2	+	11	1587	c.1522G>T	c.(1522-1524)GTC>TTC	p.V508F	MCTP2_uc002bti.2_Missense_Mutation_p.V508F|MCTP2_uc010boj.2_Missense_Mutation_p.V237F|MCTP2_uc010bok.2_Missense_Mutation_p.V508F|MCTP2_uc002btk.3_Missense_Mutation_p.V96F|MCTP2_uc002btl.2_Missense_Mutation_p.V96F	NM_018349	NP_060819	Q6DN12	MCTP2_HUMAN	multiple C2 domains, transmembrane 2 isoform 1	508	C2 3.				calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(78;0.0821)|all_lung(78;0.148)		BRCA - Breast invasive adenocarcinoma(143;0.0323)|OV - Ovarian serous cystadenocarcinoma(32;0.0593)			TGTGAAAGACGTCGGCATTCT	0.358													35	49	---	---	---	---	PASS	T	94913349	T	T	94913349	3	4	58	1	0	0	0	0	1	0	0	0	9401	1145	40	1	1564	1	MCTP2	15	94913349	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1432502	94913349	7618043	1105	22480										
LRRC28	123355	broad.mit.edu	37	chr15	99926293	99926293	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccagtgtctgcagacttttGacctgctgagttgataaaca	9	10	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:99926293G>C	uc002bva.1	+	10	1245	c.1090G>C	c.(1090-1092)GAC>CAC	p.D364H	LRRC28_uc002bvb.1_Missense_Mutation_p.D210H|LRRC28_uc010urt.1_Missense_Mutation_p.D178H|LRRC28_uc002bvc.1_Missense_Mutation_p.L310F|LRRC28_uc010uru.1_Missense_Mutation_p.D295H|LRRC28_uc002bvd.1_Missense_Mutation_p.D90H	NM_144598	NP_653199	Q86X40	LRC28_HUMAN	leucine rich repeat containing 28	364											0	Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00106)			GCAGACTTTTGACCTGCTGAG	0.517													210	322	---	---	---	---	PASS	C	99926293	C	C	99926293	3	2	58	1	0	0	0	0	1	0	0	0	8982	1290	45	2	1124	2	LRRC28	15	99926293	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5012944	99926293	2605099	1106	22481										
LRRK1	79705	broad.mit.edu	37	chr15	101554532	101554532	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctctctcaggccctcatgttCttgaggttacaggggaacca	10	12	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr15:101554532C>T	uc002bwr.2	+	11	1750	c.1431C>T	c.(1429-1431)TTC>TTT	p.F477F	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	477	LRR 9.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CCCTCATGTTCTTGAGGTTAC	0.537													107	152	---	---	---	---	PASS	T	101554532	T	T	101554532	2	4	58	1	0	0	0	0	0	0	0	1	9032	912	32	2		2	LRRK1	15	101554532	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1628239	101554532	976860	1107	22482										
WDR90	197335	broad.mit.edu	37	chr16	705883	705883	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acttctcctcggtgctcctgGaggcaggtgatgctgtgggc	15	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:705883G>A	uc002cii.1	+	17	2014	c.1960G>A	c.(1960-1962)GAG>AAG	p.E654K	WDR90_uc002cig.1_Missense_Mutation_p.E654K|WDR90_uc002cih.1_Missense_Mutation_p.E655K|WDR90_uc002cij.1_Intron|WDR90_uc002cik.1_Missense_Mutation_p.E181K|WDR90_uc002cil.1_5'Flank|WDR90_uc002cim.1_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	654	WD 4.									ovary(1)	1		Hepatocellular(780;0.0218)				GGTGCTCCTGGAGGCAGGTGA	0.687													3	7	---	---	---	---	PASS	A	705883	A	A	705883	3	1	58	1	0	0	0	0	1	0	0	0	17334	1175	41	2	2026	2	WDR90	16	705883	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08		705883	89648870	1108	22483										
C16orf42	115939	broad.mit.edu	37	chr16	1400989	1400989	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgacggcgaccccagactgCgccaccagctgtctgccagg	12	16	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:1400989C>T	uc002cll.2	-	3	413	c.345G>A	c.(343-345)GCG>GCA	p.A115A	GNPTG_uc002clm.2_5'Flank	NM_001001410	NP_001001410	Q9UJK0	TSR3_HUMAN	hypothetical protein LOC115939	115					rRNA processing						0		Hepatocellular(780;0.0893)				CCCCAGACTGCGCCACCAGCT	0.622													27	19	---	---	---	---	PASS	T	1400989	T	T	1400989	2	4	58	1	0	0	0	0	0	0	0	1	1813	755	27	1		1	C16orf42	16	1400989	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	695106	1400989	88953764	1109	22484										
CORO7	79585	broad.mit.edu	37	chr16	4414342	4414342	+	Frame_Shift_Del	DEL	C	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggctgtgtcagggaggggctCcgcagggggcaccagacagg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:4414342delC	uc002cwh.3	-	14	1330	c.1210delG	c.(1210-1212)GAGfs	p.E404fs	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Frame_Shift_Del_p.E404fs|CORO7_uc002cwg.3_Frame_Shift_Del_p.E184fs|CORO7_uc010uxh.1_Frame_Shift_Del_p.E386fs|CORO7_uc010uxi.1_Frame_Shift_Del_p.E319fs|CORO7_uc002cwi.1_Frame_Shift_Del_p.E184fs|CORO7_uc010uxj.1_RNA|CORO7_uc010btp.1_Frame_Shift_Del_p.E184fs	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	404						cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						GGGAGGGGCTCCGCAGGGGGC	0.682													14	19	---	---	---	---		-	4414342	-	-	4414342	7	5	58	1	0	1	0	1	0	0	0	0	3759	864	30	0	1627	0	CORO7	16	4414342	Frame_Shift_Del	DEL	C	TCGA-33-4566-01A-01D-1441-08	3013353	4414342	85940411	1110	22485										
CORO7	79585	broad.mit.edu	37	chr16	4415025	4415025	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgggctcagcgccggctgctGcgggaccacctcgtaacagt	14	14	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:4415025G>A	uc002cwh.3	-	11	997	c.877C>T	c.(877-879)CAG>TAG	p.Q293*	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Nonsense_Mutation_p.Q293*|CORO7_uc002cwg.3_Nonsense_Mutation_p.Q73*|CORO7_uc010uxh.1_Nonsense_Mutation_p.Q275*|CORO7_uc010uxi.1_Nonsense_Mutation_p.Q208*|CORO7_uc002cwi.1_Nonsense_Mutation_p.Q73*|CORO7_uc010uxj.1_RNA|CORO7_uc010btp.1_Nonsense_Mutation_p.Q73*	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	293						cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						GCCGGCTGCTGCGGGACCACC	0.642													5	5	---	---	---	---	PASS	A	4415025	A	A	4415025	4	1	58	1	0	0	0	0	0	1	0	0	3759	1328	46	3	1972	3	CORO7	16	4415025	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	683	4415025	85939728	1111	22486										
ZNF500	26048	broad.mit.edu	37	chr16	4815616	4815616	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagcccttccacaaggaccaCggcctcctcaccgctctccg	7	21	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:4815616C>A	uc002cxp.1	-	2	611	c.364G>T	c.(364-366)GTG>TTG	p.V122L	ZNF500_uc002cxo.1_5'UTR|ZNF500_uc010uxt.1_Missense_Mutation_p.V122L	NM_021646	NP_067678	O60304	ZN500_HUMAN	zinc finger protein 500	122	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						ACAAGGACCACGGCCTCCTCA	0.652													59	34	---	---	---	---	PASS	A	4815616	A	A	4815616	3	1	58	1	0	0	0	0	1	0	0	0	17945	536	19	1	1098	1	ZNF500	16	4815616	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	400591	4815616	85539137	1112	22487										
SLC5A11	115584	broad.mit.edu	37	chr16	24902286	24902286	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagcagctgcgggctgccccGggaagatgccttccatattt	12	13	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:24902286G>T	uc002dmu.2	+	9	993	c.761G>T	c.(760-762)CGG>CTG	p.R254L	SLC5A11_uc002dms.2_Missense_Mutation_p.R190L|SLC5A11_uc010vcd.1_Missense_Mutation_p.R219L|SLC5A11_uc002dmt.2_Intron|SLC5A11_uc010vce.1_Missense_Mutation_p.R184L|SLC5A11_uc010bxt.2_Missense_Mutation_p.R190L	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	254	Extracellular (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		GGGCTGCCCCGGGAAGATGCC	0.577													95	76	---	---	---	---	PASS	T	24902286	T	T	24902286	3	4	58	1	0	0	0	0	1	0	0	0	14663	1116	39	1	791	1	SLC5A11	16	24902286	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	20086670	24902286	65452467	1113	22488										
APOB48R	55911	broad.mit.edu	37	chr16	28507281	28507281	+	Missense_Mutation	SNP	G	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagccaggacaatctcaggcGgggaggaggctgagacagcc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:28507281G>A	uc002dqb.1	+	2	929	c.919G>A	c.(919-921)GGG>AGG	p.G307R	uc010vct.1_Intron|APOB48R_uc010byg.1_5'UTR	NM_018690	NP_061160	Q0VD83	APOBR_HUMAN	apolipoprotein B48 receptor	307	Glu-rich.				cholesterol metabolic process|lipid transport	chylomicron|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle					0						AATCTCAGGCGGGGAGGAGGC	0.652													5	9	---	---	---	---	PASS	A	28507281	A	A	28507281	3	1	58	1	0	0	0	0	1	0	0	0	786	1116	39	1	925	1	APOB48R	16	28507281	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3604995	28507281	61847472	1114	22489	500	2								
APOB48R	55911	broad.mit.edu	37	chr16	28507282	28507282	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agccaggacaatctcaggcgGggaggaggctgagacagcct							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:28507282G>T	uc002dqb.1	+	2	930	c.920G>T	c.(919-921)GGG>GTG	p.G307V	uc010vct.1_Intron|APOB48R_uc010byg.1_5'UTR	NM_018690	NP_061160	Q0VD83	APOBR_HUMAN	apolipoprotein B48 receptor	307	Glu-rich.				cholesterol metabolic process|lipid transport	chylomicron|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle					0						ATCTCAGGCGGGGAGGAGGCT	0.652													5	9	---	---	---	---	PASS	T	28507282	T	T	28507282	3	4	58	1	0	0	0	0	1	0	0	0	786	1232	43	3	926	3	APOB48R	16	28507282	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1	28507282	61847471	1115	22490	500	2								
ZNF423	23090	broad.mit.edu	37	chr16	49670164	49670164	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgtcagcagcgaagggaagcGctcaccacagatgggacaca	13	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:49670164G>T	uc002efs.2	-	5	3197	c.2899C>A	c.(2899-2901)CGC>AGC	p.R967S	ZNF423_uc010vgn.1_Missense_Mutation_p.R850S	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	967	C2H2-type 23.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GAAGGGAAGCGCTCACCACAG	0.612													29	24	---	---	---	---	PASS	T	49670164	T	T	49670164	3	4	58	1	0	0	0	0	1	0	0	0	17895	1087	38	1	975	1	ZNF423	16	49670164	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	21162882	49670164	40684589	1116	22491										
NOD2	64127	broad.mit.edu	37	chr16	50745311	50745311	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatggtgtccaaatgccacCaggaactgttgctgcaggag	14	9	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:50745311C>A	uc002egm.1	+	4	1594	c.1489C>A	c.(1489-1491)CAG>AAG	p.Q497K	NOD2_uc010cbk.1_Missense_Mutation_p.Q470K|NOD2_uc002egl.1_Missense_Mutation_p.Q275K|NOD2_uc010cbl.1_Missense_Mutation_p.Q275K|NOD2_uc010cbm.1_Missense_Mutation_p.Q275K|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	497	NACHT.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				CAAATGCCACCAGGAACTGTT	0.597													63	72	---	---	---	---	PASS	A	50745311	A	A	50745311	3	1	58	1	0	0	0	0	1	0	0	0	10517	595	21	3	1503	3	NOD2	16	50745311	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1075147	50745311	39609442	1117	22492										
SALL1	6299	broad.mit.edu	37	chr16	51175911	51175911	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggggaggctggattttcattTacgattaaaactaattgatt	10	4	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:51175911T>A	uc010vgs.1	-	2	253	c.222A>T	c.(220-222)GTA>GTT	p.V74V	SALL1_uc010vgr.1_5'UTR|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	74					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GATTTTCATTTACGATTAAAA	0.443													81	45	---	---	---	---	PASS	A	51175911	A	A	51175911	2	1	58	1	0	0	0	0	0	0	0	1	13810	1741	61	5		5	SALL1	16	51175911	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	430600	51175911	39178842	1118	22493										
IRX5	10265	broad.mit.edu	37	chr16	54966530	54966530	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggaagaacgccacaagggacGccacggctaccctcaaggcc	12	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:54966530G>A	uc002ehv.2	+	2	370	c.370G>A	c.(370-372)GCC>ACC	p.A124T	IRX5_uc010cca.1_Missense_Mutation_p.A176T|IRX5_uc002ehw.2_Missense_Mutation_p.A58T	NM_005853	NP_005844	P78411	IRX5_HUMAN	iroquois homeobox protein 5	124	Homeobox; TALE-type.				response to stimulus|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|vitamin D binding				0						CACAAGGGACGCCACGGCTAC	0.637													71	48	---	---	---	---	PASS	A	54966530	A	A	54966530	3	1	58	1	0	0	0	0	1	0	0	0	7847	1087	38	1	376	1	IRX5	16	54966530	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3790619	54966530	35388223	1119	22494										
SLC6A2	6530	broad.mit.edu	37	chr16	55728016	55728017	+	Frame_Shift_Ins	INS	-	C	C													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tacaacaaatttgacaacaaINSctgttacaggtaagattctt							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:55728016_55728017insC	uc002eif.2	+	7	1124_1125	c.1013_1014insC	c.(1012-1014)AACfs	p.N338fs	SLC6A2_uc010ccd.2_Frame_Shift_Ins_p.N338fs|SLC6A2_uc002eig.2_Frame_Shift_Ins_p.N338fs|SLC6A2_uc002eih.2_Frame_Shift_Ins_p.N338fs|SLC6A2_uc002eii.2_Frame_Shift_Ins_p.N233fs|SLC6A2_uc002eij.2_Frame_Shift_Ins_p.N52fs	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	338					synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	TTTGACAACAACTGTTACAGGT	0.436													58	44	---	---	---	---		C	55728017	C	C	55728016	7	5	58	1	0	1	1	0	0	0	0	0	14683	43	2	0	1126	0	SLC6A2	16	55728016	Frame_Shift_Ins	INS	-	TCGA-33-4566-01A-01D-1441-08	761486	55728016	34626737	1120	22495										
GPR114	221188	broad.mit.edu	37	chr16	57608958	57608958	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcttttcttttggcgtcttCctgctgccccagctgttcct	7	14	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:57608958C>A	uc002elx.3	+	11	1525	c.1440C>A	c.(1438-1440)TTC>TTA	p.F480L	GPR114_uc010vhr.1_Missense_Mutation_p.S441Y|GPR114_uc002ely.2_Missense_Mutation_p.F480L	NM_153837	NP_722579	Q8IZF4	GP114_HUMAN	G protein-coupled receptor 114 precursor	480	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)	1						TTGGCGTCTTCCTGCTGCCCC	0.577													28	29	---	---	---	---	PASS	A	57608958	A	A	57608958	3	1	58	1	0	0	0	0	1	0	0	0	6631	854	30	2	1478	2	GPR114	16	57608958	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1880942	57608958	32745795	1121	22496										
CNGB1	1258	broad.mit.edu	37	chr16	58001179	58001179	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaggcagcaccctctggacCcagcccaacatcctgatgcc	9	17	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:58001179C>T	uc002emt.2	-	2	77	c.12G>A	c.(10-12)TGG>TGA	p.W4*	CNGB1_uc010cdh.2_Nonsense_Mutation_p.W4*|CNGB1_uc002emu.2_Nonsense_Mutation_p.W4*	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	4					sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						CCCTCTGGACCCAGCCCAACA	0.597													23	33	---	---	---	---	PASS	T	58001179	T	T	58001179	4	4	58	1	0	0	0	0	0	1	0	0	3600	624	22	3	3901	3	CNGB1	16	58001179	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	392221	58001179	32353574	1122	22497										
ZNF319	57567	broad.mit.edu	37	chr16	58031855	58031855	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atcttgagacactgtgtgcaCtggaatgagcggtcatggcc	13	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:58031855C>A	uc002emx.1	-	2	938	c.315G>T	c.(313-315)CAG>CAT	p.Q105H		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	105	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACTGTGTGCACTGGAATGAGC	0.617													33	36	---	---	---	---	PASS	A	58031855	A	A	58031855	3	1	58	1	0	0	0	0	1	0	0	0	17834	564	20	3	1437	3	ZNF319	16	58031855	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	30676	58031855	32322898	1123	22498										
CDH5	1003	broad.mit.edu	37	chr16	66432414	66432414	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aacaccacgaaacgtgaagtTcaaattcatcttgaatactg	6	9	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:66432414T>A	uc002eom.3	+	10	1697	c.1541T>A	c.(1540-1542)TTC>TAC	p.F514Y		NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	514	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		AACGTGAAGTTCAAATTCATC	0.403													31	41	---	---	---	---	PASS	A	66432414	A	A	66432414	3	1	58	1	0	0	0	0	1	0	0	0	3113	1783	62	5	1575	5	CDH5	16	66432414	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	8400559	66432414	23922339	1124	22499										
PLEKHG4	25894	broad.mit.edu	37	chr16	67322176	67322176	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgcctcttgctctgttctGgggtccctcaacctgcacct	8	17	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:67322176G>T	uc002eso.3	+	19	5862	c.3327G>T	c.(3325-3327)CTG>CTT	p.L1109L	PLEKHG4_uc002esp.3_Silent_p.L916L|PLEKHG4_uc002esq.3_Silent_p.L1109L|PLEKHG4_uc010cef.2_Silent_p.L1109L|PLEKHG4_uc002ess.3_Silent_p.L1109L|PLEKHG4_uc010ceg.2_Silent_p.L1028L	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	1109					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		GCTCTGTTCTGGGGTCCCTCA	0.622													94	76	---	---	---	---	PASS	T	67322176	T	T	67322176	2	4	58	1	0	0	0	0	0	0	0	1	12071	1335	47	3		3	PLEKHG4	16	67322176	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	889762	67322176	23032577	1125	22500										
FUK	197258	broad.mit.edu	37	chr16	70501323	70501323	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccagagtgatcgccctcccAgggagcccggcctacgctca	12	17	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:70501323A>T	uc002eyy.2	+	7	589	c.531A>T	c.(529-531)CCA>CCT	p.P177P	FUK_uc010vmb.1_3'UTR|FUK_uc010cft.2_Silent_p.P209P|FUK_uc002eyz.2_Intron	NM_145059	NP_659496	Q8N0W3	FUK_HUMAN	fucokinase	177						cytoplasm	ATP binding|fucokinase activity			ovary(1)	1		Ovarian(137;0.0694)				TCGCCCTCCCAGGGAGCCCGG	0.667													13	10	---	---	---	---	PASS	T	70501323	T	T	70501323	2	4	58	1	0	0	0	0	0	0	0	1	6096	175	7	5		5	FUK	16	70501323	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	3179147	70501323	19853430	1126	22501										
PMFBP1	83449	broad.mit.edu	37	chr16	72188115	72188115	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttaatctgtctatacctcatCttctttcagtttgcagtgat	5	9	6	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:72188115C>T	uc002fcc.3	-	4	581	c.409G>A	c.(409-411)GAT>AAT	p.D137N	PMFBP1_uc002fcd.2_Missense_Mutation_p.D137N|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_5'UTR	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	137										ovary(2)	2		Ovarian(137;0.179)				TATACCTCATCTTCTTTCAGT	0.458													127	96	---	---	---	---	PASS	T	72188115	T	T	72188115	3	4	58	1	0	0	0	0	1	0	0	0	12134	913	32	2	2746	2	PMFBP1	16	72188115	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1686792	72188115	18166638	1127	22502										
ADAMTS18	170692	broad.mit.edu	37	chr16	77331277	77331277	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggaattgacttgagtattttGatctcgcaagcaaatggcct	10	7	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:77331277G>T	uc002ffc.3	-	18	3129	c.2710C>A	c.(2710-2712)CAA>AAA	p.Q904K	ADAMTS18_uc010chc.1_Missense_Mutation_p.Q492K|ADAMTS18_uc002ffe.1_Missense_Mutation_p.Q600K	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	904					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TGAGTATTTTGATCTCGCAAG	0.383													72	67	---	---	---	---	PASS	T	77331277	T	T	77331277	3	4	58	1	0	0	0	0	1	0	0	0	263	1299	45	2	979	2	ADAMTS18	16	77331277	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5143162	77331277	13023476	1128	22503										
ATMIN	23300	broad.mit.edu	37	chr16	81078197	81078197	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctaacttcttaggccttgaGatgtttgacacacagacaca	7	10	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:81078197G>A	uc002ffz.1	+	4	2112	c.2094G>A	c.(2092-2094)GAG>GAA	p.E698E	ATMIN_uc002fga.2_Silent_p.E540E|ATMIN_uc010vnn.1_Silent_p.E469E|ATMIN_uc002fgb.1_Silent_p.E540E	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	698					response to DNA damage stimulus	nucleus	zinc ion binding				0						TAGGCCTTGAGATGTTTGACA	0.453													144	117	---	---	---	---	PASS	A	81078197	A	A	81078197	2	1	58	1	0	0	0	0	0	0	0	1	1110	933	33	2		2	ATMIN	16	81078197	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	3746920	81078197	9276556	1129	22504										
OSGIN1	29948	broad.mit.edu	37	chr16	83999007	83999007	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgccctggaggccgccacaAgggtgggtgcggtgaccccg	17	14	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:83999007A>G	uc002fha.2	+	7	1461	c.1078A>G	c.(1078-1080)AGG>GGG	p.R360G	OSGIN1_uc002fhb.2_Missense_Mutation_p.R277G|OSGIN1_uc002fhc.2_Missense_Mutation_p.R277G	NM_013370	NP_037502	Q9UJX0	OSGI1_HUMAN	oxidative stress induced growth inhibitor 1	360					cell differentiation|multicellular organismal development|negative regulation of cell growth		growth factor activity				0						GGCCGCCACAAGGGTGGGTGC	0.706													27	15	---	---	---	---	PASS	G	83999007	G	G	83999007	3	3	58	1	0	0	0	0	1	0	0	0	11289	63	3	5	1104	5	OSGIN1	16	83999007	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	2920810	83999007	6355746	1130	22505										
NECAB2	54550	broad.mit.edu	37	chr16	84014711	84014711	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgaatcactctgtcctgaaGgccatgggttataccaagaa	9	9	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:84014711G>T	uc002fhd.2	+	5	455	c.438G>T	c.(436-438)AAG>AAT	p.K146N	NECAB2_uc002fhe.2_Missense_Mutation_p.K63N	NM_019065	NP_061938	Q7Z6G3	NECA2_HUMAN	neuronal calcium-binding protein 2	146					antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity|protein binding			ovary(2)	2						CTGTCCTGAAGGCCATGGGTT	0.557													97	78	---	---	---	---	PASS	T	84014711	T	T	84014711	3	4	58	1	0	0	0	0	1	0	0	0	10305	991	35	3	456	3	NECAB2	16	84014711	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	15704	84014711	6340042	1131	22506										
NECAB2	54550	broad.mit.edu	37	chr16	84027924	84027924	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagacagaaccacatcaaacCcagccacagcgcggcacaga	8	16	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:84027924C>A	uc002fhd.2	+	7	631	c.614C>A	c.(613-615)CCC>CAC	p.P205H	NECAB2_uc002fhe.2_Missense_Mutation_p.P122H	NM_019065	NP_061938	Q7Z6G3	NECA2_HUMAN	neuronal calcium-binding protein 2	205					antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity|protein binding			ovary(2)	2						CACATCAAACCCAGCCACAGC	0.572													19	28	---	---	---	---	PASS	A	84027924	A	A	84027924	3	1	58	1	0	0	0	0	1	0	0	0	10305	623	22	3	640	3	NECAB2	16	84027924	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	13213	84027924	6326829	1132	22507										
FOXF1	2294	broad.mit.edu	37	chr16	86544788	86544788	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acttgccgggcaacgtggacGgcatggccctgcccagccac	13	16	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:86544788G>A	uc002fjl.2	+	1	656	c.613G>A	c.(613-615)GGC>AGC	p.G205S	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	205					branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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 factor binding				0						CAACGTGGACGGCATGGCCCT	0.607													2	2	---	---	---	---	PASS	A	86544788	A	A	86544788	3	1	58	1	0	0	0	0	1	0	0	0	6005	1116	39	1	615	1	FOXF1	16	86544788	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2516864	86544788	3809965	1133	22508										
FOXC2	2303	broad.mit.edu	37	chr16	86602427	86602427	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccacgcagccccctactccTacgactgcacgaaatactga	7	17	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr16:86602427T>C	uc002fjq.2	+	1	1571	c.1486T>C	c.(1486-1488)TAC>CAC	p.Y496H		NM_005251	NP_005242	Q99958	FOXC2_HUMAN	forkhead box C2	496					anti-apoptosis|artery morphogenesis|blood vessel remodeling|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|embryonic viscerocranium morphogenesis|insulin receptor signaling pathway|lymphangiogenesis|metanephros development|negative regulation of transcription from RNA polymerase II promoter|neural crest cell fate commitment|Notch signaling pathway|ossification|paraxial mesodermal cell fate commitment|patterning of blood vessels|positive regulation of cell adhesion mediated by integrin|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of vascular wound healing|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|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 factor binding|transcription regulatory region DNA binding				0						CCCCTACTCCTACGACTGCAC	0.657									Late-onset_Hereditary_Lymphedema				20	22	---	---	---	---	PASS	C	86602427	C	C	86602427	3	2	58	1	0	0	0	0	1	0	0	0	5995	1522	53	5	1488	5	FOXC2	16	86602427	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	57639	86602427	3752326	1134	22509										
MYO1C	4641	broad.mit.edu	37	chr17	1382019	1382019	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cggcctgctccaggttcagcGggctcaggagctgtggacgc	16	13	2	0	rs139543770	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:1382019G>A	uc002fsp.2	-	10	1323	c.1103C>T	c.(1102-1104)CCG>CTG	p.P368L	MYO1C_uc002fsn.2_Missense_Mutation_p.P349L|MYO1C_uc002fso.2_Missense_Mutation_p.P333L|MYO1C_uc010vqj.1_Missense_Mutation_p.P333L|MYO1C_uc010vqk.1_Missense_Mutation_p.P344L	NM_001080779	NP_001074248	O00159	MYO1C_HUMAN	myosin IC isoform a	368	Myosin head-like.				mRNA transport|protein transport|transmembrane transport	basal plasma membrane|cytoplasm|filamentous actin|lateral plasma membrane|nuclear pore|nucleolus|nucleoplasm|stereocilium membrane	actin binding|ATP binding|calmodulin binding|motor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CAGGTTCAGCGGGCTCAGGAG	0.632													48	42	---	---	---	---	PASS	A	1382019	A	A	1382019	3	1	58	1	0	0	0	0	1	0	0	0	10070	1116	39	1	2180	1	MYO1C	17	1382019	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08		1382019	79813191	1135	22510										
OR1A1	8383	broad.mit.edu	37	chr17	3119405	3119405	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccccacactctgctcacagCtagtctgtccttctgtggca	7	17	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:3119405C>A	uc010vrc.1	+	1	491	c.491C>A	c.(490-492)GCT>GAT	p.A164D		NM_014565	NP_055380	Q9P1Q5	OR1A1_HUMAN	olfactory receptor, family 1, subfamily A,	164	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CTGCTCACAGCTAGTCTGTCC	0.488													62	40	---	---	---	---	PASS	A	3119405	A	A	3119405	3	1	58	1	0	0	0	0	1	0	0	0	10949	797	28	3	493	3	OR1A1	17	3119405	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1737386	3119405	78075805	1136	22511										
ZMYND15	84225	broad.mit.edu	37	chr17	4644069	4644069	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcagcctggggcaaggggcaGaaccaggtcctggaccaggc	16	12	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:4644069G>T	uc002fyt.2	+	2	265	c.226G>T	c.(226-228)GAA>TAA	p.E76*	CXCL16_uc002fyr.3_5'Flank|CXCL16_uc002fys.3_5'Flank|ZMYND15_uc002fyv.2_Nonsense_Mutation_p.E76*|ZMYND15_uc002fyu.2_Nonsense_Mutation_p.E76*	NM_032265	NP_115641	Q9H091	ZMY15_HUMAN	zinc finger, MYND-type containing 15 isoform 2	76							zinc ion binding				0						GCAAGGGGCAGAACCAGGTCC	0.637													21	14	---	---	---	---	PASS	T	4644069	T	T	4644069	4	4	58	1	0	0	0	0	0	1	0	0	17705	943	33	2	228	2	ZMYND15	17	4644069	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1524664	4644069	76551141	1137	22512										
WSCD1	23302	broad.mit.edu	37	chr17	6021442	6021442	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acccatacaggtccctggtgGcagaattcaacagaaaatgt	9	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:6021442G>T	uc010cli.2	+	8	1688	c.1309G>T	c.(1309-1311)GCA>TCA	p.A437S	WSCD1_uc002gcn.2_Missense_Mutation_p.A437S|WSCD1_uc002gco.2_Missense_Mutation_p.A437S|WSCD1_uc010clj.2_Missense_Mutation_p.A128S	NM_015253	NP_056068	Q658N2	WSCD1_HUMAN	WSC domain containing 1	437						integral to membrane	sulfotransferase activity				0						GTCCCTGGTGGCAGAATTCAA	0.542													33	23	---	---	---	---	PASS	T	6021442	T	T	6021442	3	4	58	1	0	0	0	0	1	0	0	0	17403	1203	42	3	1335	3	WSCD1	17	6021442	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1377373	6021442	75173768	1138	22513										
PITPNM3	83394	broad.mit.edu	37	chr17	6373627	6373627	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtggactcccagtaactggCgtggaagaggtggggcaggg	19	7	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:6373627C>G	uc002gdd.3	-	13	1877	c.1726G>C	c.(1726-1728)GCC>CCC	p.A576P	PITPNM3_uc010cln.2_Missense_Mutation_p.A540P|PITPNM3_uc010clm.2_Missense_Mutation_p.A59P|PITPNM3_uc002gdc.3_Missense_Mutation_p.A167P	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	576	DDHD.				phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		CAGTAACTGGCGTGGAAGAGG	0.647													16	11	---	---	---	---	PASS	G	6373627	G	G	6373627	3	3	58	1	0	0	0	0	1	0	0	0	11952	768	27	4	1230	4	PITPNM3	17	6373627	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	352185	6373627	74821583	1139	22514										
TP53	7157	broad.mit.edu	37	chr17	7578440	7578440	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgtcatgtgctgtgactgctTgtagatggccatggcgcgga	15	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:7578440T>C	uc002gim.2	-	5	684	c.490A>G	c.(490-492)AAG>GAG	p.K164E	TP53_uc002gig.1_Missense_Mutation_p.K164E|TP53_uc002gih.2_Missense_Mutation_p.K164E|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.K32E|TP53_uc010cng.1_Missense_Mutation_p.K32E|TP53_uc002gii.1_Missense_Mutation_p.K32E|TP53_uc010cnh.1_Missense_Mutation_p.K164E|TP53_uc010cni.1_Missense_Mutation_p.K164E|TP53_uc002gij.2_Missense_Mutation_p.K164E|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.K71E|TP53_uc002gio.2_Missense_Mutation_p.K32E|TP53_uc010vug.1_Missense_Mutation_p.K125E	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	164	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		K -> E (in sporadic cancers; somatic mutation).|K -> R (in sporadic cancers; somatic mutation).|K -> Q (in sporadic cancers; somatic mutation).|K -> M (in sporadic cancers; somatic mutation).|K -> T (in sporadic cancers; somatic mutation).|K -> N (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.K164E(12)|p.K164*(9)|p.0?(7)|p.K164N(6)|p.K164M(4)|p.K164K(2)|p.K164fs*5(2)|p.K164Q(2)|p.K164fs*6(2)|p.K164fs*3(2)|p.K164T(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.Y163fs*1(1)|p.Y163_Q165delYKQ(1)|p.P151_V173del23(1)|p.S149fs*72(1)|p.K164_Q165insXXX(1)|p.K164fs*17(1)|p.K164R(1)|p.Y163fs*14(1)|p.A159_Q167delAMAIYKQSQ(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)		TGTGACTGCTTGTAGATGGCC	0.627		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)			36	34	---	---	---	---	PASS	C	7578440	C	C	7578440	3	2	58	1	0	0	0	0	1	0	0	0	16378	1821	63	5	808	5	TP53	17	7578440	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1204813	7578440	73616770	1140	22515										
DNAH2	146754	broad.mit.edu	37	chr17	7640532	7640532	+	Frame_Shift_Del	DEL	C	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcatcatctgggtcaactctCcccactacaacactcgggag							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:7640532delC	uc002giu.1	+	7	1140	c.1126delC	c.(1126-1128)CCCfs	p.P376fs	DNAH2_uc002git.2_Frame_Shift_Del_p.P376fs|DNAH2_uc010vuk.1_Frame_Shift_Del_p.P376fs	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	376	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GGTCAACTCTCCCCACTACAA	0.537													48	57	---	---	---	---		-	7640532	-	-	7640532	7	5	58	1	0	1	0	1	0	0	0	0	4602	855	30	0	1152	0	DNAH2	17	7640532	Frame_Shift_Del	DEL	C	TCGA-33-4566-01A-01D-1441-08	62092	7640532	73554678	1141	22516										
GUCY2D	3000	broad.mit.edu	37	chr17	7909797	7909797	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggagcagctgtggcccgccaCatccgggatgcgcaggtccc	15	15	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:7909797C>G	uc002gjt.2	+	4	1217	c.1143C>G	c.(1141-1143)CAC>CAG	p.H381Q		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	381	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				TGGCCCGCCACATCCGGGATG	0.677													20	13	---	---	---	---	PASS	G	7909797	G	G	7909797	3	3	58	1	0	0	0	0	1	0	0	0	6897	477	17	4	1153	4	GUCY2D	17	7909797	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	269265	7909797	73285413	1142	22517										
ALOX12B	242	broad.mit.edu	37	chr17	7979605	7979605	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtagaggctgtcataggtgaGctccgacagagcccgtacca	13	11	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:7979605G>T	uc002gjy.1	-	11	1681	c.1420C>A	c.(1420-1422)CTC>ATC	p.L474I		NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	474	Lipoxygenase.				epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						TCATAGGTGAGCTCCGACAGA	0.602										Multiple Myeloma(8;0.094)			16	23	---	---	---	---	PASS	T	7979605	T	T	7979605	3	4	58	1	0	0	0	0	1	0	0	0	537	971	34	3	705	3	ALOX12B	17	7979605	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	69808	7979605	73215605	1143	22518										
MYH1	4619	broad.mit.edu	37	chr17	10405209	10405209	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccatccggattttcttttctTgttccaaagatccttcaagc	5	12	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:10405209T>A	uc002gmo.2	-	25	3225	c.3131A>T	c.(3130-3132)CAA>CTA	p.Q1044L	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1044	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TTTCTTTTCTTGTTCCAAAGA	0.333													26	24	---	---	---	---	PASS	A	10405209	A	A	10405209	3	1	58	1	0	0	0	0	1	0	0	0	10029	1812	63	5	2752	5	MYH1	17	10405209	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	2425604	10405209	70790001	1144	22519										
MYH1	4619	broad.mit.edu	37	chr17	10417424	10417424	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcttggtgttcacagtcttcCctgcgccagattctccgctg	10	14	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:10417424C>T	uc002gmo.2	-	7	645	c.551G>A	c.(550-552)GGG>GAG	p.G184E	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	184	Myosin head-like.|ATP (Potential).					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CACAGTCTTCCCTGCGCCAGA	0.433													43	45	---	---	---	---	PASS	T	10417424	T	T	10417424	3	4	58	1	0	0	0	0	1	0	0	0	10029	623	22	3	5404	3	MYH1	17	10417424	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	12215	10417424	70777786	1145	22520										
MYH3	4621	broad.mit.edu	37	chr17	10541398	10541398	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctccatgctgctggagaggtCatcgatctccagcttgaact	10	12	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:10541398C>A	uc002gmq.1	-	26	3768	c.3691G>T	c.(3691-3693)GAC>TAC	p.D1231Y		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1231	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CTGGAGAGGTCATCGATCTCC	0.562													70	66	---	---	---	---	PASS	A	10541398	A	A	10541398	3	1	58	1	0	0	0	0	1	0	0	0	10036	826	29	2	2191	2	MYH3	17	10541398	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	123974	10541398	70653812	1146	22521										
DNAH9	1770	broad.mit.edu	37	chr17	11556254	11556254	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttctctggatgatcggcatGatcgaatggaaaaatattac	9	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:11556254G>T	uc002gne.2	+	14	2598	c.2530G>T	c.(2530-2532)GAT>TAT	p.D844Y	DNAH9_uc010coo.2_Missense_Mutation_p.D138Y	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	844	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TGATCGGCATGATCGAATGGA	0.418													50	52	---	---	---	---	PASS	T	11556254	T	T	11556254	3	4	58	1	0	0	0	0	1	0	0	0	4608	1290	45	2	2584	2	DNAH9	17	11556254	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1014856	11556254	69638956	1147	22522										
DNAH9	1770	broad.mit.edu	37	chr17	11572399	11572399	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agagtgtaaggcaggacttaCcccaatatttgaagcacaac	9	9	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:11572399C>A	uc002gne.2	+	16	2818	c.2750C>A	c.(2749-2751)ACC>AAC	p.T917N	DNAH9_uc010coo.2_Missense_Mutation_p.T211N	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	917	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GCAGGACTTACCCCAATATTT	0.428													89	66	---	---	---	---	PASS	A	11572399	A	A	11572399	3	1	58	1	0	0	0	0	1	0	0	0	4608	507	18	3	2812	3	DNAH9	17	11572399	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	16145	11572399	69622811	1148	22523										
TNFRSF13B	23495	broad.mit.edu	37	chr17	16842928	16842928	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggccactgtctgggatgtgtGggcaaggctgcaggactgtg	18	8	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:16842928G>T	uc002gqs.1	-	5	828	c.815C>A	c.(814-816)CCA>CAA	p.P272Q	TNFRSF13B_uc010vwt.1_Intron|TNFRSF13B_uc002gqt.1_Missense_Mutation_p.P226Q	NM_012452	NP_036584	O14836	TR13B_HUMAN	tumor necrosis factor receptor 13B	272	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding|receptor activity			kidney(2)	2						TGGGATGTGTGGGCAAGGCTG	0.587									IgA_Deficiency_Selective				29	27	---	---	---	---	PASS	T	16842928	T	T	16842928	3	4	58	1	0	0	0	0	1	0	0	0	16284	1348	47	3	70	3	TNFRSF13B	17	16842928	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5270529	16842928	64352282	1149	22524										
RAI1	10743	broad.mit.edu	37	chr17	17697397	17697397	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acagccagcagccgctcagcAccggggccttccccgcaggg	13	18	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:17697397A>T	uc002grm.2	+	3	1604	c.1135A>T	c.(1135-1137)ACC>TCC	p.T379S	RAI1_uc002grn.1_Missense_Mutation_p.T379S	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	379						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		GCCGCTCAGCACCGGGGCCTT	0.652													67	45	---	---	---	---	PASS	T	17697397	T	T	17697397	3	4	58	1	0	0	0	0	1	0	0	0	13007	159	6	5	1137	5	RAI1	17	17697397	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	854469	17697397	63497813	1150	22525										
RAI1	10743	broad.mit.edu	37	chr17	17698714	17698714	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agcaggaggaggtgggtgggGtgaaggaggaggcaggtggg	26	2	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:17698714G>T	uc002grm.2	+	3	2921	c.2452G>T	c.(2452-2454)GTG>TTG	p.V818L	RAI1_uc002grn.1_Missense_Mutation_p.V818L	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	818						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		GGTGGGTGGGGTGAAGGAGGA	0.692													12	9	---	---	---	---	PASS	T	17698714	T	T	17698714	3	4	58	1	0	0	0	0	1	0	0	0	13007	1261	44	3	2454	3	RAI1	17	17698714	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1317	17698714	63496496	1151	22526										
TBC1D28	254272	broad.mit.edu	37	chr17	18541193	18541193	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttacttgactccgaatctttGtatgaacatcatgtgtttct	6	8	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:18541193G>T	uc002gud.2	-	9	893	c.481C>A	c.(481-483)CAA>AAA	p.Q161K		NM_001039397	NP_001034486	Q2M2D7	TBC28_HUMAN	TBC1 domain family, member 28	161	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			ovary(1)	1						CCGAATCTTTGTATGAACATC	0.542													29	44	---	---	---	---	PASS	T	18541193	T	T	18541193	3	4	58	1	0	0	0	0	1	0	0	0	15614	1386	48	3	159	3	TBC1D28	17	18541193	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	842479	18541193	62654017	1152	22527										
LGALS9	3965	broad.mit.edu	37	chr17	25967675	25967675	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccctcggtttgaagatggagGgtacgtggtgtgcaacacga	15	8	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:25967675G>T	uc002gzp.2	+	3	327	c.209G>T	c.(208-210)GGG>GTG	p.G70V	LGALS9_uc002gzq.2_Missense_Mutation_p.G70V|LGALS9_uc002gzr.2_Missense_Mutation_p.G13V|LGALS9_uc010waa.1_Missense_Mutation_p.G13V|LGALS9_uc002gzs.2_Missense_Mutation_p.G70V	NM_009587	NP_033665	O00182	LEG9_HUMAN	galectin-9 isoform long	70	Galectin 1.				positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|extracellular region	galactose binding|signal transducer activity				0	Lung NSC(42;0.0103)		BRCA - Breast invasive adenocarcinoma(3;0.0141)	UCEC - Uterine corpus endometrioid carcinoma (53;0.155)		GAAGATGGAGGGTACGTGGTG	0.537													35	130	---	---	---	---	PASS	T	25967675	T	T	25967675	3	4	58	1	0	0	0	0	1	0	0	0	8748	1232	43	3	219	3	LGALS9	17	25967675	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	7426482	25967675	55227535	1153	22528										
SPAG5	10615	broad.mit.edu	37	chr17	26920005	26920005	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagtttctagccactttgagGaatgactgaaatgttctgaa	9	6	2	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:26920005G>A	uc002hbq.2	-	3	349	c.257C>T	c.(256-258)TCC>TTC	p.S86F	SGK494_uc010waq.1_Intron	NM_006461	NP_006452	Q96R06	SPAG5_HUMAN	sperm associated antigen 5	86					cell division|mitosis|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytoplasm|spindle pole	protein binding			central_nervous_system(1)	1	Lung NSC(42;0.00431)					CCACTTTGAGGAATGACTGAA	0.328													47	130	---	---	---	---	PASS	A	26920005	A	A	26920005	3	1	58	1	0	0	0	0	1	0	0	0	14981	1174	41	2	3412	2	SPAG5	17	26920005	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	952330	26920005	54275205	1154	22529										
KIAA0100	9703	broad.mit.edu	37	chr17	26960074	26960074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcaggcaggaactctggggCccgcagagtgacactatggt	14	11	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:26960074C>A	uc002hbu.2	-	20	3790	c.3691G>T	c.(3691-3693)GCC>TCC	p.A1231S		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	1231						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					AACTCTGGGGCCCGCAGAGTG	0.587													19	64	---	---	---	---	PASS	A	26960074	A	A	26960074	3	1	58	1	0	0	0	0	1	0	0	0	8154	739	26	3	3096	3	KIAA0100	17	26960074	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	40069	26960074	54235136	1155	22530										
MYO18A	399687	broad.mit.edu	37	chr17	27425375	27425375	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtgccaggagtcactcaccCggctctccagccggtcactg	12	16	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:27425375C>G	uc002hdt.1	-	24	4027	c.3869G>C	c.(3868-3870)CGG>CCG	p.R1290P	MYO18A_uc010wbc.1_Missense_Mutation_p.R832P|MYO18A_uc002hds.2_Missense_Mutation_p.R832P|MYO18A_uc010csa.1_Missense_Mutation_p.R1290P|MYO18A_uc002hdu.1_Missense_Mutation_p.R1290P|MYO18A_uc010wbd.1_Missense_Mutation_p.R959P	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	1290	Potential.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			GTCACTCACCCGGCTCTCCAG	0.652													9	24	---	---	---	---	PASS	G	27425375	G	G	27425375	3	3	58	1	0	0	0	0	1	0	0	0	10065	666	23	4	2371	4	MYO18A	17	27425375	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	465301	27425375	53769835	1156	22531										
SLC6A4	6532	broad.mit.edu	37	chr17	28543169	28543169	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccctccaggctccagggagGgtggcacccctcaccagcag	12	18	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:28543169G>T	uc002hey.3	-	7	1447	c.903C>A	c.(901-903)ACC>ACA	p.T301T		NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	301					response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	CTCCAGGGAGGGTGGCACCCC	0.517													30	70	---	---	---	---	PASS	T	28543169	T	T	28543169	2	4	58	1	0	0	0	0	0	0	0	1	14686	1219	43	3		3	SLC6A4	17	28543169	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1117794	28543169	52652041	1157	22532										
BLMH	642	broad.mit.edu	37	chr17	28614917	28614917	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccatcctcaggctcctttcTctgggctgtgtccacaaaag	8	15	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:28614917T>A	uc002hez.1	-	4	607	c.370A>T	c.(370-372)AGA>TGA	p.R124*	BLMH_uc010wbn.1_Nonsense_Mutation_p.R37*	NM_000386	NP_000377	Q13867	BLMH_HUMAN	bleomycin hydrolase	124					proteolysis	cytoplasm|nucleus	aminopeptidase activity|carboxypeptidase activity|cysteine-type endopeptidase activity|protein binding			ovary(1)	1						GGCTCCTTTCTCTGGGCTGTG	0.383													37	52	---	---	---	---	PASS	A	28614917	A	A	28614917	4	1	58	1	0	0	0	0	0	1	0	0	1446	1559	54	5	1033	5	BLMH	17	28614917	Nonsense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	71748	28614917	52580293	1158	22533										
TBC1D29	26083	broad.mit.edu	37	chr17	28889927	28889927	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaggaaacatggggacctgcCacccccaggtgggctccagt	13	13	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:28889927C>T	uc002hfh.2	+	4	368	c.219C>T	c.(217-219)GCC>GCT	p.A73A	TBC1D29_uc002hfi.2_Intron|uc002hfj.1_5'Flank	NM_015594	NP_056409	Q9UFV1	TBC29_HUMAN	TBC1 domain family, member 29	73						intracellular	Rab GTPase activator activity				0		Myeloproliferative disorder(56;0.0255)				GGGGACCTGCCACCCCCAGGT	0.453													22	96	---	---	---	---	PASS	T	28889927	T	T	28889927	2	4	58	1	0	0	0	0	0	0	0	1	15615	581	21	3		3	TBC1D29	17	28889927	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	275010	28889927	52305283	1159	22534										
ADAP2	55803	broad.mit.edu	37	chr17	29281555	29281555	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgccatgagcggaggctgctCtattacaagaacccactggt	11	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:29281555C>G	uc002hfx.2	+	9	1143	c.864C>G	c.(862-864)CTC>CTG	p.L288L	ADAP2_uc010csk.2_Silent_p.L294L|ADAP2_uc002hfy.2_Silent_p.L287L|ADAP2_uc010csl.2_RNA	NM_018404	NP_060874	Q9NPF8	ADAP2_HUMAN	centaurin-alpha 2 protein	288	PH 2.				heart development|regulation of ARF GTPase activity	mitochondrial envelope|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding, bridging|zinc ion binding	p.?(1)		ovary(1)	1						GGAGGCTGCTCTATTACAAGA	0.512													61	111	---	---	---	---	PASS	G	29281555	G	G	29281555	2	3	58	1	0	0	0	0	0	0	0	1	280	900	32	2		2	ADAP2	17	29281555	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	391628	29281555	51913655	1160	22535										
NF1	4763	broad.mit.edu	37	chr17	29685528	29685528	+	Silent	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttggactctaagatcaacacCctgttatcattgtgccaaga							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:29685528C>A	uc002hgg.2	+	55	8334	c.8001C>A	c.(7999-8001)ACC>ACA	p.T2667T	NF1_uc002hgh.2_Silent_p.T2646T|NF1_uc010cso.2_Silent_p.T855T|NF1_uc010wbt.1_Silent_p.T145T|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2667					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		AGATCAACACCCTGTTATCAT	0.348			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			15	51	---	---	---	---	PASS	A	29685528	A	A	29685528	2	1	58	1	0	0	0	0	0	0	0	1	10356	610	22	3		3	NF1	17	29685528	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	403973	29685528	51509682	1161	22536	501	2								
NF1	4763	broad.mit.edu	37	chr17	29685530	29685530	+	Missense_Mutation	SNP	T	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggactctaagatcaacacccTgttatcattgtgccaagatc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:29685530T>A	uc002hgg.2	+	55	8336	c.8003T>A	c.(8002-8004)CTG>CAG	p.L2668Q	NF1_uc002hgh.2_Missense_Mutation_p.L2647Q|NF1_uc010cso.2_Missense_Mutation_p.L856Q|NF1_uc010wbt.1_Missense_Mutation_p.L146Q|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2668					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		ATCAACACCCTGTTATCATTG	0.348			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			15	50	---	---	---	---	PASS	A	29685530	A	A	29685530	3	1	58	1	0	0	0	0	1	0	0	0	10356	1580	55	5	8282	5	NF1	17	29685530	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	2	29685530	51509680	1162	22537	501	2								
LRRC37B	114659	broad.mit.edu	37	chr17	30348860	30348860	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttatttgagtatggacacacTgtatcccggcagcctacctc	8	12	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:30348860T>C	uc002hgu.2	+	1	706	c.695T>C	c.(694-696)CTG>CCG	p.L232P	LRRC37B_uc010wbx.1_Missense_Mutation_p.L150P|LRRC37B_uc010csu.2_Missense_Mutation_p.L232P	NM_052888	NP_443120	Q96QE4	LR37B_HUMAN	leucine rich repeat containing 37B precursor	232	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)				ATGGACACACTGTATCCCGGC	0.502													39	118	---	---	---	---	PASS	C	30348860	C	C	30348860	3	2	58	1	0	0	0	0	1	0	0	0	8994	1580	55	5	697	5	LRRC37B	17	30348860	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	663330	30348860	50846350	1163	22538										
RHBDL3	162494	broad.mit.edu	37	chr17	30632392	30632392	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtctgtggctgacatgaccGctccagtcgtgggctcttct	12	12	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:30632392G>T	uc002hhe.1	+	7	828	c.814G>T	c.(814-816)GCT>TCT	p.A272S	RHBDL3_uc010csw.1_Missense_Mutation_p.A264S|RHBDL3_uc010csx.1_Intron|RHBDL3_uc010csy.1_Missense_Mutation_p.A174S|RHBDL3_uc002hhf.1_Missense_Mutation_p.A174S	NM_138328	NP_612201	P58872	RHBL3_HUMAN	rhomboid protease 3	272					proteolysis	integral to membrane	calcium ion binding|serine-type endopeptidase activity			ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)				TGACATGACCGCTCCAGTCGT	0.577													19	91	---	---	---	---	PASS	T	30632392	T	T	30632392	3	4	58	1	0	0	0	0	1	0	0	0	13323	1087	38	1	840	1	RHBDL3	17	30632392	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	283532	30632392	50562818	1164	22539										
CDK5R1	8851	broad.mit.edu	37	chr17	30815061	30815061	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccgcagggacgcccaaacgGgtcatcgtccaggcgtccac	12	16	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:30815061G>T	uc002hhn.2	+	2	644	c.423G>T	c.(421-423)CGG>CGT	p.R141R	CDK5R1_uc010wca.1_Silent_p.R141R|CDK5R1_uc010ctc.2_5'UTR	NM_003885	NP_003876	Q15078	CD5R1_HUMAN	cyclin-dependent kinase 5, regulatory subunit 1	141					axon guidance|axonal fasciculation|brain development|cell proliferation|embryo development|ionotropic glutamate receptor signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of transcription, DNA-dependent|neuron cell-cell adhesion|neuron migration|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of neuron apoptosis|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation	axon|contractile fiber|cyclin-dependent protein kinase 5 holoenzyme complex|cytosol|dendritic spine|growth cone|neuromuscular junction|neuronal cell body|perinuclear region of cytoplasm|plasma membrane	cadherin binding|calcium ion binding|protein kinase binding			ovary(1)	1		Breast(31;0.159)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.0938)			CGCCCAAACGGGTCATCGTCC	0.687													14	38	---	---	---	---	PASS	T	30815061	T	T	30815061	2	4	58	1	0	0	0	0	0	0	0	1	3143	1219	43	3		3	CDK5R1	17	30815061	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	182669	30815061	50380149	1165	22540										
CCL14	6358	broad.mit.edu	37	chr17	34311434	34311434	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatccataatccgctgacgcGggatcttgtaggtagtgtag	12	8	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:34311434G>C	uc010wcr.1	-	2	213	c.134C>G	c.(133-135)CCG>CGG	p.P45R	CCL16_uc002hkl.2_5'Flank|CCL16_uc002hkm.2_5'Flank|CCL14_uc010wcq.1_Missense_Mutation_p.P61R|CCL14_uc002hkn.2_RNA|CCL14-CCL15_uc010wcs.1_RNA|CCL14-CCL15_uc010wct.1_RNA|uc002hkq.2_5'Flank	NM_032963	NP_116739	Q16627	CCL14_HUMAN	chemokine (C-C motif) ligand 14 isoform 1	45					cellular calcium ion homeostasis|immune response|positive regulation of cell proliferation	extracellular space	chemokine activity|signal transducer activity				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCGCTGACGCGGGATCTTGTA	0.557													22	57	---	---	---	---	PASS	C	34311434	C	C	34311434	3	2	58	1	0	0	0	0	1	0	0	0	2885	1116	39	4	155	4	CCL14	17	34311434	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3496373	34311434	46883776	1166	22541										
MYO19	80179	broad.mit.edu	37	chr17	34858937	34858937	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aactcatgggtcccactcacCagggagccctttggcaggat	11	13	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:34858937C>T	uc010wcy.1	-	22	3072	c.2080G>A	c.(2080-2082)GAA>AAA	p.E694K	MYO19_uc002hmw.2_Missense_Mutation_p.E494K|MYO19_uc010cuu.2_RNA	NM_001163735	NP_001157207	Q96H55	MYO19_HUMAN	myosin XIX isoform 2	694						mitochondrial outer membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)	1		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		TCCCACTCACCAGGGAGCCCT	0.318													48	118	---	---	---	---	PASS	T	34858937	T	T	34858937	3	4	58	1	0	0	0	0	1	0	0	0	10067	608	21	3	856	3	MYO19	17	34858937	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	547503	34858937	46336273	1167	22542										
DHRS11	79154	broad.mit.edu	37	chr17	34951410	34951410	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggtttcataggagctggctGctgaatgtaagagtgcaggc	16	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:34951410G>T	uc002hnd.2	+	2	371	c.157G>T	c.(157-159)GCT>TCT	p.A53S		NM_024308	NP_077284	Q6UWP2	DHR11_HUMAN	short-chain dehydrogenase/reductase precursor	53						extracellular region	binding|oxidoreductase activity				0						GGAGCTGGCTGCTGAATGTAA	0.562													11	42	---	---	---	---	PASS	T	34951410	T	T	34951410	3	4	58	1	0	0	0	0	1	0	0	0	4487	1319	46	3	163	3	DHRS11	17	34951410	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	92473	34951410	46243800	1168	22543										
STAC2	342667	broad.mit.edu	37	chr17	37369250	37369250	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgggcctcaggcactcacctGgttctccttgaggctcatgt	11	13	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:37369250G>T	uc002hrs.2	-	10	1348	c.1129C>A	c.(1129-1131)CAG>AAG	p.Q377K	STAC2_uc010cvt.2_Missense_Mutation_p.Q235K	NM_198993	NP_945344	Q6ZMT1	STAC2_HUMAN	SH3 and cysteine rich domain 2	377					intracellular signal transduction		metal ion binding			pancreas(1)	1						GCACTCACCTGGTTCTCCTTG	0.622													32	84	---	---	---	---	PASS	T	37369250	T	T	37369250	3	4	58	1	0	0	0	0	1	0	0	0	15239	1357	47	3	114	3	STAC2	17	37369250	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2417840	37369250	43825960	1169	22544										
CDK12	51755	broad.mit.edu	37	chr17	37687206	37687206	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaatccttggtccagaccctGgtgaagaacaggaccttctc	10	12	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:37687206G>T	uc010cvv.2	+	14	4696	c.4110G>T	c.(4108-4110)CTG>CTT	p.L1370L	CDK12_uc002hrw.3_Silent_p.L1361L	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	1370					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						TCCAGACCCTGGTGAAGAACA	0.552										TCGA Ovarian(9;0.13)			15	40	---	---	---	---	PASS	T	37687206	T	T	37687206	2	4	58	1	0	0	0	0	0	0	0	1	3128	1335	47	3		3	CDK12	17	37687206	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	317956	37687206	43508004	1170	22545										
NEUROD2	4761	broad.mit.edu	37	chr17	37762558	37762558	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccgcgcttcttgggccgctCgccctccgcctcgtccagtc	10	21	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:37762558C>A	uc002hry.2	-	2	495	c.295G>T	c.(295-297)GAG>TAG	p.E99*		NM_006160	NP_006151	Q15784	NDF2_HUMAN	neurogenic differentiation 2	99					cellular response to calcium ion|cellular response to electrical stimulus|cerebellar cortex development|negative regulation of synapse maturation|positive regulation of calcium-mediated signaling|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of synapse maturation|positive regulation of synaptic plasticity|protein ubiquitination|regulation of transcription from RNA polymerase II promoter	nucleus	E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Lung(15;0.00549)|LUAD - Lung adenocarcinoma(14;0.0664)			TTGGGCCGCTCGCCCTCCGCC	0.512													3	13	---	---	---	---	PASS	A	37762558	A	A	37762558	4	1	58	1	0	0	0	0	0	1	0	0	10349	893	31	2	857	2	NEUROD2	17	37762558	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	75352	37762558	43432652	1171	22546										
KRTAP9-8	83901	broad.mit.edu	37	chr17	39394593	39394593	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggtcagagcagctcctgtgCacctgtgtactgcagaagaa	12	10	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:39394593C>A	uc002hwh.3	+	1	324	c.290C>A	c.(289-291)GCA>GAA	p.A97E	KRTAP9-9_uc010wfq.1_Intron	NM_031963	NP_114169	Q9BYQ0	KRA98_HUMAN	keratin associated protein 9.8	97	15 X 5 AA repeats of C-C-[RQVSGE]- [SPSNQ]-[TASPI].					keratin filament				ovary(1)	1		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			AGCTCCTGTGCACCTGTGTAC	0.622													31	66	---	---	---	---	PASS	A	39394593	A	A	39394593	3	1	58	1	0	0	0	0	1	0	0	0	8576	710	25	3	292	3	KRTAP9-8	17	39394593	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1632035	39394593	41800617	1172	22547										
HAP1	9001	broad.mit.edu	37	chr17	39888337	39888337	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtagagctggaggagctcatCccgcaagttcacctggtgtc	13	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:39888337C>T	uc002hxm.1	-	4	760	c.748G>A	c.(748-750)GAT>AAT	p.D250N	JUP_uc010wfs.1_Intron|HAP1_uc002hxn.1_Missense_Mutation_p.D250N|HAP1_uc002hxo.1_Missense_Mutation_p.D258N|HAP1_uc002hxp.1_Missense_Mutation_p.D250N	NM_177977	NP_817084	P54257	HAP1_HUMAN	huntingtin-associated protein 1 isoform 2	250	HAP1 N-terminal.				brain development|protein localization|synaptic transmission	actin cytoskeleton	protein binding			ovary(2)	2		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.0677)			AGGAGCTCATCCCGCAAGTTC	0.368													26	51	---	---	---	---	PASS	T	39888337	T	T	39888337	3	4	58	1	0	0	0	0	1	0	0	0	6953	855	30	2	1143	2	HAP1	17	39888337	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	493744	39888337	41306873	1173	22548										
AOC2	314	broad.mit.edu	37	chr17	40997010	40997010	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgcccgggaggcactggccAtcgtcctctttggtggacaa	13	13	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:40997010A>G	uc002ibu.2	+	1	402	c.367A>G	c.(367-369)ATC>GTC	p.I123V	AOC2_uc002ibt.2_Missense_Mutation_p.I123V	NM_009590	NP_033720	O75106	AOC2_HUMAN	amine oxidase, copper containing 2 isoform b	123					catecholamine metabolic process|visual perception	cytoplasm|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|electron carrier activity|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			ovary(2)	2		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		GGCACTGGCCATCGTCCTCTT	0.657													8	42	---	---	---	---	PASS	G	40997010	G	G	40997010	3	3	58	1	0	0	0	0	1	0	0	0	727	217	8	5	369	5	AOC2	17	40997010	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1108673	40997010	40198200	1174	22549										
AOC3	8639	broad.mit.edu	37	chr17	41006721	41006721	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagccgctgccccaaaacagCtccatggcgagaggcttcag	12	14	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:41006721C>A	uc002ibv.2	+	2	2017	c.1857C>A	c.(1855-1857)AGC>AGA	p.S619R		NM_003734	NP_003725	Q16853	AOC3_HUMAN	amine oxidase, copper containing 3 precursor	619	Extracellular (Potential).				amine metabolic process|cell adhesion|inflammatory response	cell surface|integral to membrane|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|protein homodimerization activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)	Hydralazine(DB01275)|Phenelzine(DB00780)	CCCAAAACAGCTCCATGGCGA	0.627													7	38	---	---	---	---	PASS	A	41006721	A	A	41006721	3	1	58	1	0	0	0	0	1	0	0	0	728	796	28	3	1863	3	AOC3	17	41006721	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	9711	41006721	40188489	1175	22550										
CD300LG	146894	broad.mit.edu	37	chr17	41931263	41931263	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgccagggacttcccagtaCgggcacgaaaggacttctca	11	12	1	0	rs149330626	by1000genomes	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:41931263C>A	uc002iem.2	+	4	611	c.570C>A	c.(568-570)TAC>TAA	p.Y190*	CD300LG_uc002iel.1_Intron|CD300LG_uc010czk.2_Nonsense_Mutation_p.Y190*|CD300LG_uc010wil.1_Nonsense_Mutation_p.Y156*|CD300LG_uc010czl.2_Intron	NM_145273	NP_660316	Q6UXG3	CLM9_HUMAN	CD300 molecule-like family member g precursor	190	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|multivesicular body membrane	receptor activity				0		Breast(137;0.0199)		BRCA - Breast invasive adenocarcinoma(366;0.115)		CTTCCCAGTACGGGCACGAAA	0.632													23	89	---	---	---	---	PASS	A	41931263	A	A	41931263	4	1	58	1	0	0	0	0	0	1	0	0	3002	547	19	1	584	1	CD300LG	17	41931263	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	924542	41931263	39263947	1176	22551										
SLC4A1	6521	broad.mit.edu	37	chr17	42328875	42328875	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctggatgccgctgagcgacGtgacccccatgtagaggaag	15	11	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:42328875G>A	uc002igf.3	-	18	2542	c.2393C>T	c.(2392-2394)ACG>ATG	p.T798M		NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	798	Helical; (Potential).|Membrane (anion exchange).				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		GCTGAGCGACGTGACCCCCAT	0.597													20	74	---	---	---	---	PASS	A	42328875	A	A	42328875	3	1	58	1	0	0	0	0	1	0	0	0	14650	1145	40	1	354	1	SLC4A1	17	42328875	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	397612	42328875	38866335	1177	22552										
ITGB3	3690	broad.mit.edu	37	chr17	45369703	45369703	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctttgagtgtggggtatgcCgttgtgggcctggctggctg	18	8	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:45369703C>T	uc002ilj.2	+	10	1479	c.1459C>T	c.(1459-1461)CGT>TGT	p.R487C	ITGB3_uc010wkr.1_RNA	NM_000212	NP_000203	P05106	ITB3_HUMAN	integrin beta chain, beta 3 precursor	487	I.|Extracellular (Potential).|Cysteine-rich tandem repeats.				activation of protein kinase activity|angiogenesis involved in wound healing|axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|platelet activation|platelet degranulation|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|regulation of bone resorption|smooth muscle cell migration|tube development	alphav-beta3 integrin-vitronectin complex|integrin complex|platelet alpha granule membrane	cell adhesion molecule binding|identical protein binding|platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			central_nervous_system(5)|large_intestine(1)	6					Abciximab(DB00054)|Tirofiban(DB00775)	TGGGGTATGCCGTTGTGGGCC	0.602													31	77	---	---	---	---	PASS	T	45369703	T	T	45369703	3	4	58	1	0	0	0	0	1	0	0	0	7895	652	23	1	1497	1	ITGB3	17	45369703	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3040828	45369703	35825507	1178	22553										
PHB	5245	broad.mit.edu	37	chr17	47484217	47484217	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttcccgaaggtcagatgtgtCtaaggggagagagtgagcac	15	7	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:47484217C>G	uc002iox.1	-	6	584	c.511_splice	c.e6-1	p.T171_splice		NM_002634	NP_002625	P35232	PHB_HUMAN	prohibitin						cellular response to interleukin-6|DNA replication|glucocorticoid receptor signaling pathway|histone deacetylation|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|progesterone receptor signaling pathway|regulation of apoptosis	integral to plasma membrane|mitochondrial inner membrane|nucleoplasm	histone deacetylase binding|transcription regulatory region DNA binding				0	all_cancers(4;2.62e-14)|Breast(4;4.21e-29)|all_epithelial(4;6.9e-18)		Epithelial(5;8.1e-06)|all cancers(6;7.71e-05)			TCAGATGTGTCTAAGGGGAGA	0.562													15	31	---	---	---	---	PASS	G	47484217	G	G	47484217	5	3	58	1	0	0	0	0	0	0	1	0	11814	927	32	2	316	2	PHB	17	47484217	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	2114514	47484217	33710993	1179	22554										
EPX	8288	broad.mit.edu	37	chr17	56276470	56276470	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctttatgcgagagcacaaccGgctggccaccgagctgagac	12	13	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:56276470G>T	uc002ivq.2	+	8	1276	c.1190G>T	c.(1189-1191)CGG>CTG	p.R397L		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	397					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						GAGCACAACCGGCTGGCCACC	0.562													16	45	---	---	---	---	PASS	T	56276470	T	T	56276470	3	4	58	1	0	0	0	0	1	0	0	0	5200	1116	39	1	1220	1	EPX	17	56276470	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	8792253	56276470	24918740	1180	22555										
TRIM37	4591	broad.mit.edu	37	chr17	57094780	57094780	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggcgaattactcttcttatTtgtggctgcaaagacattta	9	7	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:57094780T>C	uc002iwy.3	-	20	2707	c.2263A>G	c.(2263-2265)AAT>GAT	p.N755D	TRIM37_uc002iwz.3_Missense_Mutation_p.N755D|TRIM37_uc002ixa.3_Missense_Mutation_p.N633D|TRIM37_uc010woc.1_Missense_Mutation_p.N721D	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	755						perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					CTCTTCTTATTTGTGGCTGCA	0.423									Mulibrey_Nanism				24	77	---	---	---	---	PASS	C	57094780	C	C	57094780	3	2	58	1	0	0	0	0	1	0	0	0	16508	1841	64	5	659	5	TRIM37	17	57094780	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	818310	57094780	24100430	1181	22556										
APPBP2	10513	broad.mit.edu	37	chr17	58556611	58556611	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctcagcatcactgtaccagCctgcatctgaaagaaagcca	7	13	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:58556611C>G	uc002iys.1	-	4	689	c.401G>C	c.(400-402)GGC>GCC	p.G134A	APPBP2_uc010ddl.1_Missense_Mutation_p.G63A	NM_006380	NP_006371	Q92624	APBP2_HUMAN	amyloid beta precursor protein-binding protein	134	TPR 2.				intracellular protein transport	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|nucleus	microtubule motor activity|protein binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.67e-13)|all cancers(12;1.44e-11)|Colorectal(3;0.01)			ACTGTACCAGCCTGCATCTGA	0.383													18	47	---	---	---	---	PASS	G	58556611	G	G	58556611	3	3	58	1	0	0	0	0	1	0	0	0	816	739	26	4	1396	4	APPBP2	17	58556611	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1461831	58556611	22638599	1182	22557										
PPM1D	8493	broad.mit.edu	37	chr17	58711239	58711239	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaacaagtctggggtgaatCgtgtagtttggaaacgacct	13	6	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:58711239C>T	uc002iyt.1	+	3	949	c.727C>T	c.(727-729)CGT>TGT	p.R243C	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	243	PP2C-like.				negative regulation of cell proliferation|protein dephosphorylation|response to radiation	nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein binding|protein serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)			TGGGGTGAATCGTGTAGTTTG	0.368													14	52	---	---	---	---	PASS	T	58711239	T	T	58711239	3	4	58	1	0	0	0	0	1	0	0	0	12337	884	31	2	737	2	PPM1D	17	58711239	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	154628	58711239	22483971	1183	22558										
EFCAB3	146779	broad.mit.edu	37	chr17	60483852	60483852	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttttaaagctatttccaaaGaaaattccagcatactggcc	5	9	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:60483852G>A	uc002izu.1	+	7	578	c.500G>A	c.(499-501)AGA>AAA	p.R167K	EFCAB3_uc010wpc.1_Missense_Mutation_p.R219K	NM_173503	NP_775774	Q8N7B9	EFCB3_HUMAN	EF-hand calcium binding domain 3 isoform b	167							calcium ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(2;2.27e-11)			TATTTCCAAAGAAAATTCCAG	0.368													13	36	---	---	---	---	PASS	A	60483852	A	A	60483852	3	1	58	1	0	0	0	0	1	0	0	0	4935	942	33	2	690	2	EFCAB3	17	60483852	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1772613	60483852	20711358	1184	22559										
KCNH6	81033	broad.mit.edu	37	chr17	61611394	61611394	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctacacggctgtcttcacgCcctactcagccgccttcctg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:61611394C>A	uc002jay.2	+	5	903	c.823C>A	c.(823-825)CCC>ACC	p.P275T	KCNH6_uc002jax.1_Missense_Mutation_p.P275T|KCNH6_uc010wpl.1_Missense_Mutation_p.P152T|KCNH6_uc010wpm.1_Missense_Mutation_p.P275T|KCNH6_uc002jaz.1_Missense_Mutation_p.P275T	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	275	Helical; Name=Segment S1; (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	TGTCTTCACGCCCTACTCAGC	0.622													40	100	---	---	---	---	PASS	A	61611394	A	A	61611394	3	1	58	1	0	0	0	0	1	0	0	0	8036	739	26	3	841	3	KCNH6	17	61611394	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1127542	61611394	19583816	1185	22560	502	2								
KCNH6	81033	broad.mit.edu	37	chr17	61611395	61611395	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctacacggctgtcttcacgcCctactcagccgccttcctgc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:61611395C>A	uc002jay.2	+	5	904	c.824C>A	c.(823-825)CCC>CAC	p.P275H	KCNH6_uc002jax.1_Missense_Mutation_p.P275H|KCNH6_uc010wpl.1_Missense_Mutation_p.P152H|KCNH6_uc010wpm.1_Missense_Mutation_p.P275H|KCNH6_uc002jaz.1_Missense_Mutation_p.P275H	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	275	Helical; Name=Segment S1; (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	GTCTTCACGCCCTACTCAGCC	0.622													40	98	---	---	---	---	PASS	A	61611395	A	A	61611395	3	1	58	1	0	0	0	0	1	0	0	0	8036	623	22	3	842	3	KCNH6	17	61611395	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1	61611395	19583815	1186	22561	502	2								
CSH2	1443	broad.mit.edu	37	chr17	61950631	61950631	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggataacggaacggtttggaCggcaccagcctcttgaagcc	13	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:61950631C>A	uc002jch.2	-	2	194	c.79G>T	c.(79-81)GTC>TTC	p.V27F	CSH2_uc002jcg.2_Missense_Mutation_p.V27F|CSH2_uc002jci.2_Missense_Mutation_p.V27F|GH2_uc002jcj.2_Intron|CSH2_uc002jck.2_Missense_Mutation_p.V27F	NM_020991	NP_066271	P01243	CSH_HUMAN	chorionic somatomammotropin hormone 2 isoform 1	27					female pregnancy|signal transduction	extracellular region	hormone activity|metal ion binding				0						ACGGTTTGGACGGCACCAGCC	0.607													24	123	---	---	---	---	PASS	A	61950631	A	A	61950631	3	1	58	1	0	0	0	0	1	0	0	0	3941	536	19	1	638	1	CSH2	17	61950631	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	339236	61950631	19244579	1187	22562										
GH2	2689	broad.mit.edu	37	chr17	61958388	61958388	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggggagaaggcatccactcaCagatttctgctgcgttttca	11	10	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:61958388C>A	uc002jco.1	-	3	353	c.291_splice	c.e3+1	p.S97_splice	GH2_uc002jcj.2_Splice_Site_p.S97_splice|CSH2_uc002jck.2_Intron|GH2_uc002jcl.1_Splice_Site_p.S97_splice|GH2_uc002jcm.1_Splice_Site_p.S97_splice|GH2_uc002jcn.1_Splice_Site_p.S82_splice	NM_002059	NP_002050	P01242	SOM2_HUMAN	growth hormone 2 isoform 1							extracellular region	hormone activity			upper_aerodigestive_tract(2)|pancreas(1)	3						CATCCACTCACAGATTTCTGC	0.577													81	250	---	---	---	---	PASS	A	61958388	A	A	61958388	5	1	58	1	0	0	0	0	0	0	1	0	6368	492	17	3	710	3	GH2	17	61958388	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	7757	61958388	19236822	1188	22563										
SCN4A	6329	broad.mit.edu	37	chr17	62050198	62050198	+	Missense_Mutation	SNP	C	G	G													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtgcacagagatggtctggCcatcctcgcatcctgggctc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:62050198C>G	uc002jds.1	-	1	81	c.4G>C	c.(4-6)GCC>CCC	p.A2P		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	2					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GATGGTCTGGCCATCCTCGCA	0.701													7	16	---	---	---	---	PASS	G	62050198	G	G	62050198	3	3	58	1	0	0	0	0	1	0	0	0	13920	739	26	4	5602	4	SCN4A	17	62050198	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	91810	62050198	19145012	1189	22564	503	2								
SCN4A	6329	broad.mit.edu	37	chr17	62050199	62050199	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgcacagagatggtctggcCatcctcgcatcctgggctca							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:62050199C>A	uc002jds.1	-	1	80	c.3G>T	c.(1-3)ATG>ATT	p.M1I		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	ATGGTCTGGCCATCCTCGCAT	0.706													7	16	---	---	---	---	PASS	A	62050199	A	A	62050199	3	1	58	1	0	0	0	0	1	0	0	0	13920	594	21	3	5603	3	SCN4A	17	62050199	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1	62050199	19145011	1190	22565	503	2								
ABCA8	10351	broad.mit.edu	37	chr17	66913532	66913532	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atccaatcccccatttcttcTttagaaacaaagaagagccc	4	13	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:66913532T>A	uc002jhp.2	-	15	2167	c.1988A>T	c.(1987-1989)AAG>ATG	p.K663M	ABCA8_uc002jhq.2_Missense_Mutation_p.K703M|ABCA8_uc010wqq.1_Missense_Mutation_p.K703M|ABCA8_uc010wqr.1_Missense_Mutation_p.K642M|ABCA8_uc002jhr.2_Missense_Mutation_p.K703M	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	663	ABC transporter 1.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					CCATTTCTTCTTTAGAAACAA	0.393													55	162	---	---	---	---	PASS	A	66913532	A	A	66913532	3	1	58	1	0	0	0	0	1	0	0	0	38	1609	56	5	2853	5	ABCA8	17	66913532	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	4863333	66913532	14281678	1191	22566										
ABCA9	10350	broad.mit.edu	37	chr17	66982353	66982353	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcctgagacctttcacggcaGcgtacacctccaggtgctgc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:66982353G>T	uc002jhu.2	-	32	4303	c.4160C>A	c.(4159-4161)GCT>GAT	p.A1387D	ABCA9_uc010dez.2_Missense_Mutation_p.A1349D	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1387	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					TTTCACGGCAGCGTACACCTC	0.612													43	101	---	---	---	---	PASS	T	66982353	T	T	66982353	3	4	58	1	0	0	0	0	1	0	0	0	39	971	34	3	746	3	ABCA9	17	66982353	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	68821	66982353	14212857	1192	22567	504	2								
ABCA9	10350	broad.mit.edu	37	chr17	66982354	66982354	+	Missense_Mutation	SNP	C	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgagacctttcacggcagCgtacacctccaggtgctgcc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:66982354C>T	uc002jhu.2	-	32	4302	c.4159G>A	c.(4159-4161)GCT>ACT	p.A1387T	ABCA9_uc010dez.2_Missense_Mutation_p.A1349T	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1387	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					TTCACGGCAGCGTACACCTCC	0.612													42	97	---	---	---	---	PASS	T	66982354	T	T	66982354	3	4	58	1	0	0	0	0	1	0	0	0	39	768	27	1	747	1	ABCA9	17	66982354	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1	66982354	14212856	1193	22568	504	2								
ABCA9	10350	broad.mit.edu	37	chr17	67012471	67012471	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tagtccattgctaatgacatCcaggaggacaggaaagcaat	10	8	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:67012471C>G	uc002jhu.2	-	22	3105	c.2962G>C	c.(2962-2964)GAT>CAT	p.D988H	ABCA9_uc010dez.2_Missense_Mutation_p.D988H	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	988					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					CTAATGACATCCAGGAGGACA	0.343													35	110	---	---	---	---	PASS	G	67012471	G	G	67012471	3	3	58	1	0	0	0	0	1	0	0	0	39	855	30	2	1984	2	ABCA9	17	67012471	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	30117	67012471	14182739	1194	22569										
KCNJ2	3759	broad.mit.edu	37	chr17	68171898	68171898	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatccagaattacttctgaaGgggagtatatccctctggat	9	8	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:68171898G>A	uc010dfg.2	+	2	1119	c.718G>A	c.(718-720)GGG>AGG	p.G240R	KCNJ2_uc002jir.2_Missense_Mutation_p.G240R	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	240	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					TACTTCTGAAGGGGAGTATAT	0.448													32	79	---	---	---	---	PASS	A	68171898	A	A	68171898	3	1	58	1	0	0	0	0	1	0	0	0	8051	1000	35	3	720	3	KCNJ2	17	68171898	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1159427	68171898	13023312	1195	22570										
ACOX1	51	broad.mit.edu	37	chr17	73949611	73949611	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttagacagagcccgagcagCttctcccacaaggaaggacc	10	14	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:73949611C>A	uc002jqf.2	-	7	1155	c.865G>T	c.(865-867)GCT>TCT	p.A289S	ACOX1_uc010wsq.1_Missense_Mutation_p.A251S|ACOX1_uc002jqe.2_Missense_Mutation_p.A289S|ACOX1_uc010wsr.1_Missense_Mutation_p.A221S	NM_007292	NP_009223	Q15067	ACOX1_HUMAN	acyl-Coenzyme A oxidase 1 isoform b	289					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1						GCCCGAGCAGCTTCTCCCACA	0.537													15	66	---	---	---	---	PASS	A	73949611	A	A	73949611	3	1	58	1	0	0	0	0	1	0	0	0	158	797	28	3	1149	3	ACOX1	17	73949611	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5777713	73949611	7245599	1196	22571										
TMC6	11322	broad.mit.edu	37	chr17	76121327	76121327	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caggctctggagctccttcaCcaggaggctctgcttctctg	11	14	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:76121327C>A	uc002juj.1	-	5	574	c.448G>T	c.(448-450)GTG>TTG	p.V150L	TMC6_uc002jui.1_5'Flank|TMC6_uc010dhf.1_5'UTR|TMC6_uc002juk.2_Missense_Mutation_p.V150L|TMC6_uc010dhg.1_Missense_Mutation_p.V150L|TMC6_uc002jul.1_Missense_Mutation_p.V150L|TMC6_uc002jum.3_5'UTR|TMC6_uc002jun.3_Missense_Mutation_p.V150L|TMC6_uc002juo.2_5'UTR|TMC6_uc010wtp.1_5'UTR	NM_007267	NP_009198	Q7Z403	TMC6_HUMAN	transmembrane channel-like 6	150	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			AGCTCCTTCACCAGGAGGCTC	0.667									Epidermodysplasia_Verruciformis_Familial_Clustering_of				2	1	---	---	---	---	PASS	A	76121327	A	A	76121327	3	1	58	1	0	0	0	0	1	0	0	0	15986	507	18	3	2029	3	TMC6	17	76121327	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2171716	76121327	5073883	1197	22572										
C1QTNF1	114897	broad.mit.edu	37	chr17	77043891	77043891	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcaagttctactgctacgtGcccggcctctacttcttcag	9	14	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:77043891G>T	uc002jwp.2	+	4	907	c.567G>T	c.(565-567)GTG>GTT	p.V189V	C1QTNF1_uc002jwq.2_Silent_p.V107V|C1QTNF1_uc002jwr.3_Silent_p.V199V|C1QTNF1_uc002jws.2_Silent_p.V189V|C1QTNF1_uc002jwt.2_Silent_p.V287V	NM_030968	NP_112230	Q9BXJ1	C1QT1_HUMAN	C1q and tumor necrosis factor related protein 1	189	C1q.					collagen				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.0294)|OV - Ovarian serous cystadenocarcinoma(97;0.201)			ACTGCTACGTGCCCGGCCTCT	0.532													32	93	---	---	---	---	PASS	T	77043891	T	T	77043891	2	4	58	1	0	0	0	0	0	0	0	1	1962	1306	46	3		3	C1QTNF1	17	77043891	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	922564	77043891	4151319	1198	22573										
RNF213	57674	broad.mit.edu	37	chr17	78318559	78318559	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccaaagaggtgatagacatgGagctgagtgccctgaggagt	15	7	0	5			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:78318559G>C	uc002jyh.1	+	4	866	c.643G>C	c.(643-645)GAG>CAG	p.E215Q		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)			GATAGACATGGAGCTGAGTGC	0.488													64	135	---	---	---	---	PASS	C	78318559	C	C	78318559	3	2	58	1	0	0	0	0	1	0	0	0	13477	1175	41	2	6853	2	RNF213	17	78318559	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1274668	78318559	2876651	1199	22574										
RNF213	57674	broad.mit.edu	37	chr17	78321522	78321522	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcggcggccagaagtacgtGgacctcggtctggggaccca	15	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:78321522G>A	uc002jyh.1	+	4	3829	c.3606G>A	c.(3604-3606)GTG>GTA	p.V1202V		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)			AGAAGTACGTGGACCTCGGTC	0.552													34	75	---	---	---	---	PASS	A	78321522	A	A	78321522	2	1	58	1	0	0	0	0	0	0	0	1	13477	1335	47	3		3	RNF213	17	78321522	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	2963	78321522	2873688	1200	22575										
SLC38A10	124565	broad.mit.edu	37	chr17	79250894	79250894	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atggagctcatggttttcacTgacggctcatccaggctgtc	11	11	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:79250894T>A	uc002jzz.1	-	7	1041	c.666A>T	c.(664-666)TCA>TCT	p.S222S	SLC38A10_uc002jzy.1_Silent_p.S140S|SLC38A10_uc002kab.2_Silent_p.S222S	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	222					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			TGGTTTTCACTGACGGCTCAT	0.577													22	50	---	---	---	---	PASS	A	79250894	A	A	79250894	2	1	58	1	0	0	0	0	0	0	0	1	14602	1567	55	5		5	SLC38A10	17	79250894	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	929372	79250894	1944316	1201	22576										
SLC25A10	1468	broad.mit.edu	37	chr17	79671382	79671382	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aacgcccccaaggagtacccCcccaagatacagcagctggt	9	16	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:79671382C>T	uc010wut.1	+	2	308	c.183C>T	c.(181-183)CCC>CCT	p.P61P	MRPL12_uc002kbh.1_Silent_p.P61P	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	Error:Variant_position_missing_in_Q9UBX3_after_alignment					gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)	AGGAGTACCCCCCCAAGATAC	0.597													6	34	---	---	---	---	PASS	T	79671382	T	T	79671382	2	4	58	1	0	0	0	0	0	0	0	1	14472	610	22	3		3	SLC25A10	17	79671382	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	420488	79671382	1523828	1202	22577										
NOTUM	147111	broad.mit.edu	37	chr17	79911102	79911102	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtcccagcagtgcagtgctCggggcagcgacgtccccttc	13	15	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:79911102C>T	uc010wvg.1	-	11	1498	c.1226G>A	c.(1225-1227)CGA>CAA	p.R409Q		NM_178493	NP_848588	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog precursor	409						extracellular region	hydrolase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			GTGCAGTGCTCGGGGCAGCGA	0.657													3	13	---	---	---	---	PASS	T	79911102	T	T	79911102	3	4	58	1	0	0	0	0	1	0	0	0	10552	884	31	2	268	2	NOTUM	17	79911102	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	239720	79911102	1284108	1203	22578										
FASN	2194	broad.mit.edu	37	chr17	80040803	80040803	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gactcacctgtccggatcccGgagcgagaagtcaacacgag	12	13	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:80040803G>A	uc002kdu.2	-	33	5871	c.5754C>T	c.(5752-5754)TCC>TCT	p.S1918S	FASN_uc002kdv.1_5'Flank	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	1918	Beta-ketoacyl reductase (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)	TCCGGATCCCGGAGCGAGAAG	0.652													13	45	---	---	---	---	PASS	A	80040803	A	A	80040803	2	1	58	1	0	0	0	0	0	0	0	1	5683	1103	39	1		1	FASN	17	80040803	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	129701	80040803	1154407	1204	22579										
CCDC57	284001	broad.mit.edu	37	chr17	80136436	80136436	+	Nonsense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacggccttcagcaccacctCctgctcctgtagcgcctgct							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:80136436C>A	uc002kdz.1	-	11	1775	c.1420G>T	c.(1420-1422)GAG>TAG	p.E474*	CCDC57_uc002kdx.1_Nonsense_Mutation_p.E474*|CCDC57_uc010dik.1_5'UTR	NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	474	Potential.									ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			AGCACCACCTCCTGCTCCTGT	0.642													9	26	---	---	---	---	PASS	A	80136436	A	A	80136436	4	1	58	1	0	0	0	0	0	1	0	0	2827	864	30	2	1359	2	CCDC57	17	80136436	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	95633	80136436	1058774	1205	22580	505	2								
CCDC57	284001	broad.mit.edu	37	chr17	80136437	80136437	+	Missense_Mutation	SNP	C	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acggccttcagcaccacctcCtgctcctgtagcgcctgctc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:80136437C>A	uc002kdz.1	-	11	1774	c.1419G>T	c.(1417-1419)CAG>CAT	p.Q473H	CCDC57_uc002kdx.1_Missense_Mutation_p.Q473H|CCDC57_uc010dik.1_Translation_Start_Site	NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	473	Potential.									ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			GCACCACCTCCTGCTCCTGTA	0.642													7	27	---	---	---	---	PASS	A	80136437	A	A	80136437	3	1	58	1	0	0	0	0	1	0	0	0	2827	680	24	3	1360	3	CCDC57	17	80136437	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1	80136437	1058773	1206	22581	505	2								
B3GNTL1	146712	broad.mit.edu	37	chr17	80963008	80963008	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tacctgggttaggagctgctCcggcgtcagctggttgatcc	14	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr17:80963008C>A	uc002kgg.1	-	6	501	c.487G>T	c.(487-489)GAG>TAG	p.E163*	B3GNTL1_uc002kgf.1_Nonsense_Mutation_p.E52*|B3GNTL1_uc002kge.1_RNA	NM_001009905	NP_001009905	Q67FW5	B3GNL_HUMAN	UDP-GlcNAc:betaGal	163							transferase activity, transferring glycosyl groups			ovary(1)|pancreas(1)	2	Breast(20;0.000443)|all_neural(118;0.0779)	all_cancers(8;0.0396)|all_epithelial(8;0.0556)	BRCA - Breast invasive adenocarcinoma(99;0.0517)|OV - Ovarian serous cystadenocarcinoma(97;0.0868)			AGGAGCTGCTCCGGCGTCAGC	0.572													17	47	---	---	---	---	PASS	A	80963008	A	A	80963008	4	1	58	1	0	0	0	0	0	1	0	0	1265	864	30	2	626	2	B3GNTL1	17	80963008	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	826571	80963008	232202	1207	22582										
COLEC12	81035	broad.mit.edu	37	chr18	334952	334952	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccctgagggccggggagtcCctctttgcctggtgggcccg	17	14	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:334952C>A	uc002kkm.2	-	6	1821	c.1606G>T	c.(1606-1608)GGA>TGA	p.G536*		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	536	Collagen-like 3.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				CCGGGGAGTCCCTCTTTGCCT	0.731													14	20	---	---	---	---	PASS	A	334952	A	A	334952	4	1	58	1	0	0	0	0	0	1	0	0	3712	632	22	3	642	3	COLEC12	18	334952	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08		334952	77742296	1208	22583										
RALBP1	10928	broad.mit.edu	37	chr18	9517070	9517070	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaaagacttgacagcagctGatgttgttaaacagtggaag	11	6	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:9517070G>C	uc002kob.2	+	3	695	c.472G>C	c.(472-474)GAT>CAT	p.D158H	RALBP1_uc002koc.2_Missense_Mutation_p.D158H	NM_006788	NP_006779	Q15311	RBP1_HUMAN	ralA binding protein 1	158					chemotaxis|positive regulation of Cdc42 GTPase activity|small GTPase mediated signal transduction|transport	cytosol|membrane	ATPase activity, coupled to movement of substances|Rac GTPase activator activity|Rac GTPase binding|Ral GTPase binding			central_nervous_system(1)	1						gacagcagctgatgttgttaa	0.134													11	5	---	---	---	---	PASS	C	9517070	C	C	9517070	3	2	58	1	0	0	0	0	1	0	0	0	13012	1290	45	2	478	2	RALBP1	18	9517070	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	9182118	9517070	68560178	1209	22584										
FAM38B	63895	broad.mit.edu	37	chr18	10696074	10696074	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcttctgaagaccttacctCtcagtcacaccaggtaagat	8	12	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:10696074C>T	uc002kor.3	-	5	860	c.720G>A	c.(718-720)GAG>GAA	p.E240E	FAM38B_uc002koq.2_Silent_p.E138E	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2283						integral to membrane	ion channel activity			ovary(1)	1						GACCTTACCTCTCAGTCACAC	0.498													79	112	---	---	---	---	PASS	T	10696074	T	T	10696074	2	4	58	1	0	0	0	0	0	0	0	1	5555	912	32	2		2	FAM38B	18	10696074	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1179004	10696074	67381174	1210	22585										
AFG3L2	10939	broad.mit.edu	37	chr18	12358935	12358935	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgtaggcagcatgctcagcaGaaaagagctggggacacaca	13	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:12358935G>A	uc002kqz.1	-	8	873	c.760C>T	c.(760-762)CTG>TTG	p.L254L		NM_006796	NP_006787	Q9Y4W6	AFG32_HUMAN	AFG3 ATPase family gene 3-like 2	254	Helical; (Potential).				cell death|protein catabolic process|proteolysis	integral to membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0					Adenosine triphosphate(DB00171)	ATGCTCAGCAGAAAAGAGCTG	0.537													8	38	---	---	---	---	PASS	A	12358935	A	A	12358935	2	1	58	1	0	0	0	0	0	0	0	1	360	933	33	2		2	AFG3L2	18	12358935	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1662861	12358935	65718313	1211	22586										
ESCO1	114799	broad.mit.edu	37	chr18	19116018	19116018	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttacccattggatatgttcCgcaattaggcagccaactac	7	12	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:19116018C>T	uc002kth.1	-	10	3106	c.2172G>A	c.(2170-2172)GCG>GCA	p.A724A	ESCO1_uc002kti.1_RNA	NM_052911	NP_443143	Q5FWF5	ESCO1_HUMAN	establishment of cohesion 1 homolog 1	724					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding				0						GGATATGTTCCGCAATTAGGC	0.333													61	172	---	---	---	---	PASS	T	19116018	T	T	19116018	2	4	58	1	0	0	0	0	0	0	0	1	5248	639	23	1		1	ESCO1	18	19116018	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	6757083	19116018	58961230	1212	22587										
OSBPL1A	114876	broad.mit.edu	37	chr18	21892062	21892062	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaatgttcttctattgcttcCagccagtcctgaaatcatgc	7	11	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:21892062C>A	uc002kve.2	-	13	1152	c.978G>T	c.(976-978)CTG>CTT	p.L326L	OSBPL1A_uc010xbc.1_5'Flank|OSBPL1A_uc002kvf.3_Silent_p.L106L	NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	326	PH.				cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					CTATTGCTTCCAGCCAGTCCT	0.393													93	93	---	---	---	---	PASS	A	21892062	A	A	21892062	2	1	58	1	0	0	0	0	0	0	0	1	11277	581	21	3		3	OSBPL1A	18	21892062	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2776044	21892062	56185186	1213	22588										
CDH2	1000	broad.mit.edu	37	chr18	25589781	25589781	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagttggaggctggtcagctCctggcccagttacactgtac	12	12	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:25589781C>A	uc002kwg.2	-	5	1061	c.602G>T	c.(601-603)GGA>GTA	p.G201V	CDH2_uc010xbn.1_Missense_Mutation_p.G170V	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	201	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						CTGGTCAGCTCCTGGCCCAGT	0.483													21	57	---	---	---	---	PASS	A	25589781	A	A	25589781	3	1	58	1	0	0	0	0	1	0	0	0	3105	855	30	2	2166	2	CDH2	18	25589781	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3697719	25589781	52487467	1214	22589										
ASXL3	80816	broad.mit.edu	37	chr18	31314344	31314344	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaaaagaaaacagaaccttgGaaagaaaaattctttgagag	9	4	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:31314344G>T	uc010dmg.1	+	10	1102	c.1047G>T	c.(1045-1047)TGG>TGT	p.W349C	ASXL3_uc002kxq.2_Missense_Mutation_p.W56C	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	349					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CAGAACCTTGGAAAGAAAAAT	0.318													12	17	---	---	---	---	PASS	T	31314344	T	T	31314344	3	4	58	1	0	0	0	0	1	0	0	0	1068	1183	41	2	1085	2	ASXL3	18	31314344	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5724563	31314344	46762904	1215	22590										
SETBP1	26040	broad.mit.edu	37	chr18	42533143	42533143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgagatcagagaacctggacGtgttcagtgaaatgaaccct	11	9	2	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:42533143G>T	uc010dni.2	+	4	4134	c.3838G>T	c.(3838-3840)GTG>TTG	p.V1280L		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1280						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GAACCTGGACGTGTTCAGTGA	0.512									Schinzel-Giedion_syndrome				11	41	---	---	---	---	PASS	T	42533143	T	T	42533143	3	4	58	1	0	0	0	0	1	0	0	0	14129	1145	40	1	4041	1	SETBP1	18	42533143	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	11218799	42533143	35544105	1216	22591										
PHLPP1	23239	broad.mit.edu	37	chr18	60527717	60527717	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctctcgtgttgtagcctggAacatctgcctgccaacctct	8	15	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:60527717A>T	uc002lis.2	+	5	591	c.413A>T	c.(412-414)GAA>GTA	p.E138V		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	650	LRR 1.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						TGTAGCCTGGAACATCTGCCT	0.463													13	23	---	---	---	---	PASS	T	60527717	T	T	60527717	3	4	58	1	0	0	0	0	1	0	0	0	11854	246	9	5	1963	5	PHLPP1	18	60527717	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	17994574	60527717	17549531	1217	22592										
SERPINB12	89777	broad.mit.edu	37	chr18	61231353	61231353	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcacctttctgtctaaatgcGgtagtgtatcagaactcatg	9	9	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:61231353G>T	uc010xen.1	+	5	645	c.645G>T	c.(643-645)GCG>GCT	p.A215A	SERPINB12_uc010xeo.1_Silent_p.A235A	NM_080474	NP_536722	Q96P63	SPB12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	215					negative regulation of protein catabolic process|regulation of proteolysis	cytoplasm	enzyme binding|serine-type endopeptidase inhibitor activity				0						GTCTAAATGCGGTAGTGTATC	0.388													26	71	---	---	---	---	PASS	T	61231353	T	T	61231353	2	4	58	1	0	0	0	0	0	0	0	1	14099	1130	39	1		1	SERPINB12	18	61231353	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	703636	61231353	16845895	1218	22593										
CDH7	1005	broad.mit.edu	37	chr18	63489423	63489423	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaaatggaggactgtcaggAactacatcagtcactgtgac	10	9	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:63489423A>T	uc002ljz.2	+	5	1057	c.732A>T	c.(730-732)GGA>GGT	p.G244G	CDH7_uc002lka.2_Silent_p.G244G|CDH7_uc002lkb.2_Silent_p.G244G	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	244	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GACTGTCAGGAACTACATCAG	0.423													16	38	---	---	---	---	PASS	T	63489423	T	T	63489423	2	4	58	1	0	0	0	0	0	0	0	1	3115	233	9	5		5	CDH7	18	63489423	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	2258070	63489423	14587825	1219	22594										
CBLN2	147381	broad.mit.edu	37	chr18	70209051	70209051	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cggctgacctggtcgaaataGatggtcatggtgcggttgct	15	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:70209051G>A	uc002lku.2	-	2	580	c.345C>T	c.(343-345)ATC>ATT	p.I115I	CBLN2_uc002lkv.2_Silent_p.I115I	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	115	C1q.					integral to membrane					0		Esophageal squamous(42;0.131)				GGTCGAAATAGATGGTCATGG	0.701													5	14	---	---	---	---	PASS	A	70209051	A	A	70209051	2	1	58	1	0	0	0	0	0	0	0	1	2705	932	33	2		2	CBLN2	18	70209051	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	6719628	70209051	7868197	1220	22595										
NETO1	81832	broad.mit.edu	37	chr18	70532460	70532460	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gccccagacaaatggaggatGattaaacttgctacaactga	9	9	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:70532460G>T	uc002lkw.2	-	2	329	c.45C>A	c.(43-45)ATC>ATA	p.I15I	NETO1_uc002lkx.1_Silent_p.I14I|NETO1_uc002lky.1_Silent_p.I15I|NETO1_uc002lkz.2_Silent_p.I14I	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	15					memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		AATGGAGGATGATTAAACTTG	0.308													9	23	---	---	---	---	PASS	T	70532460	T	T	70532460	2	4	58	1	0	0	0	0	0	0	0	1	10339	1280	45	2		2	NETO1	18	70532460	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	323409	70532460	7544788	1221	22596										
NFATC1	4772	broad.mit.edu	37	chr18	77170980	77170980	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acactgctgggttccccgcgGcactccccctccacctcgcc	8	22	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr18:77170980G>T	uc010xfg.1	+	2	1158	c.705G>T	c.(703-705)CGG>CGT	p.R235R	NFATC1_uc002lnc.1_Silent_p.R235R|NFATC1_uc010xff.1_Silent_p.R235R|NFATC1_uc002lnd.2_Silent_p.R235R|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Silent_p.R235R|NFATC1_uc010xfi.1_Silent_p.R222R|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Silent_p.R222R|NFATC1_uc002lng.2_Silent_p.R222R|NFATC1_uc010xfk.1_Silent_p.R222R	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	235	3 X SP repeats.|2.			R -> Q (in Ref. 1; AAA19601).	intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		GTTCCCCGCGGCACTCCCCCT	0.701													5	22	---	---	---	---	PASS	T	77170980	T	T	77170980	2	4	58	1	0	0	0	0	0	0	0	1	10361	1190	42	3		3	NFATC1	18	77170980	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	6638520	77170980	906268	1222	22597										
SHC2	25759	broad.mit.edu	37	chr19	425194	425194	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcctcgtggtccggggggccCcgggcgtccgcctgcacgta	16	16	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:425194C>A	uc002loq.3	-	10	1212	c.1212G>T	c.(1210-1212)CGG>CGT	p.R404R	SHC2_uc002lop.3_Silent_p.R145R	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	404	CH1.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGGGGGGCCCCGGGCGTCCG	0.682													25	12	---	---	---	---	PASS	A	425194	A	A	425194	2	1	58	1	0	0	0	0	0	0	0	1	14271	610	22	3		3	SHC2	19	425194	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08		425194	58703789	1223	22598										
PALM	5064	broad.mit.edu	37	chr19	746411	746411	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agggtccacggccggggcggCagagacccggggggctgtgg	22	11	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:746411C>A	uc002lpm.1	+	9	955	c.761C>A	c.(760-762)GCA>GAA	p.A254E	PALM_uc002lpn.1_Missense_Mutation_p.A210E|PALM_uc010xfu.1_Missense_Mutation_p.A119E	NM_002579	NP_002570	O75781	PALM_HUMAN	paralemmin isoform 1	254					cellular component movement|negative regulation of adenylate cyclase activity|negative regulation of dopamine receptor signaling pathway|positive regulation of filopodium assembly|regulation of cell shape	cytoplasmic membrane-bounded vesicle|filopodium membrane|integral to plasma membrane					0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)|Lung(535;0.201)		GCCGGGGCGGCAGAGACCCGG	0.726													3	17	---	---	---	---	PASS	A	746411	A	A	746411	3	1	58	1	0	0	0	0	1	0	0	0	11408	710	25	3	795	3	PALM	19	746411	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	321217	746411	58382572	1224	22599										
ATP8B3	148229	broad.mit.edu	37	chr19	1783259	1783259	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctcgctggggccctcctccAccttctcctcctgaagagca	8	19	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:1783259A>T	uc002ltw.2	-	29	3905	c.3671T>A	c.(3670-3672)GTG>GAG	p.V1224E	ATP8B3_uc002ltv.2_Missense_Mutation_p.V1187E|ATP8B3_uc002ltx.2_RNA	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	1224	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCCTCCTCCACCTTCTCCTC	0.587													9	6	---	---	---	---	PASS	T	1783259	T	T	1783259	3	4	58	1	0	0	0	0	1	0	0	0	1196	159	6	5	235	5	ATP8B3	19	1783259	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1036848	1783259	57345724	1225	22600										
TMPRSS9	360200	broad.mit.edu	37	chr19	2413830	2413830	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccgagtcaccaggctacgtGactggatcctggaggccacc	12	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:2413830G>A	uc010xgx.1	+	9	1285	c.1285G>A	c.(1285-1287)GAC>AAC	p.D429N	TMPRSS9_uc002lvv.1_Missense_Mutation_p.D463N	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	429	Extracellular (Potential).|Peptidase S1 1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGGCTACGTGACTGGATCCT	0.677													39	39	---	---	---	---	PASS	A	2413830	A	A	2413830	3	1	58	1	0	0	0	0	1	0	0	0	16250	1290	45	2	1319	2	TMPRSS9	19	2413830	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	630571	2413830	56715153	1226	22601										
ZNF554	115196	broad.mit.edu	37	chr19	2834576	2834576	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggaaaggccttcagtgaccGttcctctctcaaccagcacg	9	14	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:2834576G>T	uc002lwm.2	+	5	1541	c.1343G>T	c.(1342-1344)CGT>CTT	p.R448L	ZNF554_uc002lwl.2_Missense_Mutation_p.R397L	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	448	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTCAGTGACCGTTCCTCTCTC	0.537													33	21	---	---	---	---	PASS	T	2834576	T	T	2834576	3	4	58	1	0	0	0	0	1	0	0	0	17982	1145	40	1	1361	1	ZNF554	19	2834576	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	420746	2834576	56294407	1227	22602										
ZNF556	80032	broad.mit.edu	37	chr19	2877357	2877357	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaagactcgaaattgtaatcGtcatctgcgcaagaattgtt	8	7	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:2877357G>A	uc002lwp.1	+	4	488	c.401G>A	c.(400-402)CGT>CAT	p.R134H	ZNF556_uc002lwq.2_Missense_Mutation_p.R133H	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	134					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AATTGTAATCGTCATCTGCGC	0.418													50	36	---	---	---	---	PASS	A	2877357	A	A	2877357	3	1	58	1	0	0	0	0	1	0	0	0	17984	1145	40	1	415	1	ZNF556	19	2877357	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	42781	2877357	56251626	1228	22603										
RAX2	84839	broad.mit.edu	37	chr19	3771726	3771727	+	Frame_Shift_Ins	INS	-	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cggttgccggcccctcgcccINSgggctcaggaacatggctcc					rs144065007		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:3771726_3771727insT	uc002lys.2	-	2	82_83	c.14_15insA	c.(13-15)CCGfs	p.P5fs	RAX2_uc010dtp.1_RNA|RAX2_uc002lyr.2_Frame_Shift_Ins_p.P51fs	NM_032753	NP_116142	Q96IS3	RAX2_HUMAN	retina and anterior neural fold homeobox 2	5					response to stimulus|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00463)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCCCTCGCCCGGGCTCAGGAA	0.723													11	6	---	---	---	---		T	3771727	T	T	3771726	7	5	58	1	0	1	1	0	0	0	0	0	13097	639	23	0	547	0	RAX2	19	3771726	Frame_Shift_Ins	INS	-	TCGA-33-4566-01A-01D-1441-08	894369	3771726	55357257	1229	22604										
TMIGD2	126259	broad.mit.edu	37	chr19	4298101	4298101	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctcacagggtccagctgcagGgtgagatggctgggtgcctg	17	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:4298101G>T	uc002lzx.1	-	2	334	c.288C>A	c.(286-288)ACC>ACA	p.T96T	TMIGD2_uc010dtv.1_Silent_p.T96T	NM_144615	NP_653216	Q96BF3	TMIG2_HUMAN	transmembrane and immunoglobulin domain	96	Extracellular (Potential).|Ig-like.					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGCTGCAGGGTGAGATGGC	0.647													51	53	---	---	---	---	PASS	T	4298101	T	T	4298101	2	4	58	1	0	0	0	0	0	0	0	1	16228	1219	43	3		3	TMIGD2	19	4298101	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	526375	4298101	54830882	1230	22605										
VAV1	7409	broad.mit.edu	37	chr19	6853990	6853990	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtattttggcacagccaaaGcccgctatgacttctgcgcc	9	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:6853990G>A	uc002mfu.1	+	26	2462	c.2365G>A	c.(2365-2367)GCC>ACC	p.A789T	VAV1_uc010xjh.1_Missense_Mutation_p.A757T|VAV1_uc010dva.1_Missense_Mutation_p.A767T|VAV1_uc002mfv.1_Missense_Mutation_p.A734T	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	789	SH3 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						CACAGCCAAAGCCCGCTATGA	0.542													88	79	---	---	---	---	PASS	A	6853990	A	A	6853990	3	1	58	1	0	0	0	0	1	0	0	0	17128	971	34	3	2467	3	VAV1	19	6853990	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	2555889	6853990	52274993	1231	22606										
FCER2	2208	broad.mit.edu	37	chr19	7762180	7762180	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccagttcctgtgaaatctgCgtggctgtttgcaggggagg	15	8	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:7762180C>A	uc002mhn.2	-	6	442	c.258G>T	c.(256-258)ACG>ACT	p.T86T	FCER2_uc010xjs.1_Silent_p.T8T|FCER2_uc010xjt.1_Silent_p.T8T|FCER2_uc002mhm.2_Silent_p.T86T|FCER2_uc010dvo.2_Silent_p.T86T	NM_002002	NP_001993	P06734	FCER2_HUMAN	Fc fragment of IgE, low affinity II, receptor	86	Extracellular (Potential).|				positive regulation of killing of cells of other organism|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of nitric-oxide synthase activity	extracellular region|integral to plasma membrane	IgE binding|integrin binding|receptor activity|sugar binding				0						GTGAAATCTGCGTGGCTGTTT	0.552													37	31	---	---	---	---	PASS	A	7762180	A	A	7762180	2	1	58	1	0	0	0	0	0	0	0	1	5776	755	27	1		1	FCER2	19	7762180	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	908190	7762180	51366803	1232	22607										
MUC16	94025	broad.mit.edu	37	chr19	9012814	9012814	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccgtggtgttgaacttcctgGagcctgggtgatgcatgtcc	14	10	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:9012814G>T	uc002mkp.2	-	34	38834	c.38630C>A	c.(38629-38631)TCC>TAC	p.S12877Y	MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12879	SEA 6.|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						GAACTTCCTGGAGCCTGGGTG	0.597													85	68	---	---	---	---	PASS	T	9012814	T	T	9012814	3	4	58	1	0	0	0	0	1	0	0	0	9973	1174	41	2	5097	2	MUC16	19	9012814	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1250634	9012814	50116169	1233	22608										
MUC16	94025	broad.mit.edu	37	chr19	9045689	9045689	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccacagtgggactggaacctGtggtagctaaattagtggct	13	8	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:9045689G>T	uc002mkp.2	-	5	36146	c.35942C>A	c.(35941-35943)ACA>AAA	p.T11981K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11983	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACTGGAACCTGTGGTAGCTAA	0.498													21	21	---	---	---	---	PASS	T	9045689	T	T	9045689	3	4	58	1	0	0	0	0	1	0	0	0	9973	1377	48	3	7901	3	MUC16	19	9045689	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	32875	9045689	50083294	1234	22609										
MUC16	94025	broad.mit.edu	37	chr19	9046271	9046271	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaggaaacacagttgaagcaGgaaatgttttacttgtctct					rs144987884	by1000genomes	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:9046271G>T	uc002mkp.2	-	5	35564	c.35360C>A	c.(35359-35361)CCT>CAT	p.P11787H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11789	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGTTGAAGCAGGAAATGTTTT	0.478													33	29	---	---	---	---	PASS	T	9046271	T	T	9046271	3	4	58	1	0	0	0	0	1	0	0	0	9973	1000	35	3	8483	3	MUC16	19	9046271	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	582	9046271	50082712	1235	22610	506	2								
MUC16	94025	broad.mit.edu	37	chr19	9046272	9046272	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggaaacacagttgaagcagGaaatgttttacttgtctctg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:9046272G>T	uc002mkp.2	-	5	35563	c.35359C>A	c.(35359-35361)CCT>ACT	p.P11787T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11789	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTTGAAGCAGGAAATGTTTTA	0.473													34	28	---	---	---	---	PASS	T	9046272	T	T	9046272	3	4	58	1	0	0	0	0	1	0	0	0	9973	1174	41	2	8484	2	MUC16	19	9046272	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1	9046272	50082711	1236	22611	506	2								
MUC16	94025	broad.mit.edu	37	chr19	9072189	9072189	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agctggtcacaggttccaagCgtgtacgtaatatgtctgta	11	8	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:9072189C>A	uc002mkp.2	-	3	15461	c.15257G>T	c.(15256-15258)CGC>CTC	p.R5086L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5088	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGGTTCCAAGCGTGTACGTAA	0.433													82	81	---	---	---	---	PASS	A	9072189	A	A	9072189	3	1	58	1	0	0	0	0	1	0	0	0	9973	768	27	1	28594	1	MUC16	19	9072189	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	25917	9072189	50056794	1237	22612										
MUC16	94025	broad.mit.edu	37	chr19	9072904	9072904	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggctctgggtaagctgagaCagtagaatgtgattcaaatg	13	5	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:9072904C>G	uc002mkp.2	-	3	14746	c.14542G>C	c.(14542-14544)GTC>CTC	p.V4848L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4850	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TAAGCTGAGACAGTAGAATGT	0.443													41	42	---	---	---	---	PASS	G	9072904	G	G	9072904	3	3	58	1	0	0	0	0	1	0	0	0	9973	478	17	4	29309	4	MUC16	19	9072904	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	715	9072904	50056079	1238	22613										
MUC16	94025	broad.mit.edu	37	chr19	9076689	9076689	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccaggaatctgatgcagctGtggaagaccaggtggaaggg	16	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:9076689G>T	uc002mkp.2	-	3	10961	c.10757C>A	c.(10756-10758)ACA>AAA	p.T3586K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3587	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGATGCAGCTGTGGAAGACCA	0.488													67	46	---	---	---	---	PASS	T	9076689	T	T	9076689	3	4	58	1	0	0	0	0	1	0	0	0	9973	1377	48	3	33094	3	MUC16	19	9076689	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3785	9076689	50052294	1239	22614										
MUC16	94025	broad.mit.edu	37	chr19	9087693	9087693	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtggccggactggtgagattGggtgaacttgagattttagg	17	4	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:9087693G>T	uc002mkp.2	-	1	4326	c.4122C>A	c.(4120-4122)CCC>CCA	p.P1374P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1374	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGGTGAGATTGGGTGAACTTG	0.468													40	50	---	---	---	---	PASS	T	9087693	T	T	9087693	2	4	58	1	0	0	0	0	0	0	0	1	9973	1335	47	3		3	MUC16	19	9087693	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	11004	9087693	50041290	1240	22615										
MUC16	94025	broad.mit.edu	37	chr19	9088753	9088753	+	Frame_Shift_Del	DEL	A	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcgtggtctctgttgtgaggAtggttgttgatggttccctg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:9088753delA	uc002mkp.2	-	1	3266	c.3062delT	c.(3061-3063)ATCfs	p.I1021fs		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1021	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTTGTGAGGATGGTTGTTGA	0.468													121	93	---	---	---	---		-	9088753	-	-	9088753	7	5	58	1	0	1	0	1	0	0	0	0	9973	333	12	0	40797	0	MUC16	19	9088753	Frame_Shift_Del	DEL	A	TCGA-33-4566-01A-01D-1441-08	1060	9088753	50040230	1241	22616										
OR7D4	125958	broad.mit.edu	37	chr19	9324727	9324727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgggaagaatgggtcacagCagaactcagatagaccccaa	11	10	2	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:9324727C>A	uc002mla.1	-	1	787	c.787G>T	c.(787-789)GCT>TCT	p.A263S		NM_001005191	NP_001005191	Q8NG98	OR7D4_HUMAN	olfactory receptor, family 7, subfamily D,	263	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						TGGGTCACAGCAGAACTCAGA	0.537													54	35	---	---	---	---	PASS	A	9324727	A	A	9324727	3	1	58	1	0	0	0	0	1	0	0	0	11220	710	25	3	155	3	OR7D4	19	9324727	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	235974	9324727	49804256	1242	22617										
ZNF846	162993	broad.mit.edu	37	chr19	9873983	9873983	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ataatgagattcttgtagttCtccaacatcacatctctgta	5	9	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:9873983C>G	uc002mmb.1	-	3	648	c.117G>C	c.(115-117)GAG>GAC	p.E39D	ZNF846_uc010xky.1_RNA|ZNF846_uc010xkz.1_RNA|ZNF846_uc010dww.2_Intron|ZNF846_uc002mmc.1_5'UTR	NM_001077624	NP_001071092	Q147U1	ZN846_HUMAN	zinc finger protein 846	39	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCTTGTAGTTCTCCAACATCA	0.418													98	64	---	---	---	---	PASS	G	9873983	G	G	9873983	3	3	58	1	0	0	0	0	1	0	0	0	18189	912	32	2	1500	2	ZNF846	19	9873983	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	549256	9873983	49255000	1243	22618										
S1PR2	9294	broad.mit.edu	37	chr19	10335161	10335161	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcggcagctcttgtcgctgcCatacagcttgaccttggcaa	11	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:10335161C>A	uc002mnl.2	-	2	532	c.421G>T	c.(421-423)GGC>TGC	p.G141C		NM_004230	NP_004221	O95136	S1PR2_HUMAN	endothelial differentiation, sphingolipid	141	Cytoplasmic (By similarity).				activation of MAPK activity|positive regulation of cell proliferation	integral to membrane|plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			lung(1)|central_nervous_system(1)	2						TTGTCGCTGCCATACAGCTTG	0.642													31	21	---	---	---	---	PASS	A	10335161	A	A	10335161	3	1	58	1	0	0	0	0	1	0	0	0	13794	594	21	3	644	3	S1PR2	19	10335161	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	461178	10335161	48793822	1244	22619										
ICAM3	3385	broad.mit.edu	37	chr19	10445845	10445845	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccgcgcgcgccgtggctgtGgctgtggccgttagcgtgtc	17	13	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:10445845G>T	uc002mob.2	-	4	889	c.834C>A	c.(832-834)GCC>GCA	p.A278A	RAVER1_uc002moa.2_5'Flank|ICAM3_uc010dxd.1_Silent_p.A201A|ICAM3_uc010xlf.1_3'UTR	NM_002162	NP_002153	P32942	ICAM3_HUMAN	intercellular adhesion molecule 3 precursor	278	Extracellular (Potential).|Ig-like C2-type 3.				cell-cell adhesion|regulation of immune response	integral to plasma membrane	integrin binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;6.13e-09)|Epithelial(33;9.69e-06)|all cancers(31;2.05e-05)			CCGTGGCTGTGGCTGTGGCCG	0.657													42	37	---	---	---	---	PASS	T	10445845	T	T	10445845	2	4	58	1	0	0	0	0	0	0	0	1	7481	1335	47	3		3	ICAM3	19	10445845	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	110684	10445845	48683138	1245	22620										
ZNF439	90594	broad.mit.edu	37	chr19	11978459	11978459	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctatgcttgtaaagaatgtgGaaaaaacattatttaccatt	6	5	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:11978459G>A	uc002mss.2	+	3	703	c.575G>A	c.(574-576)GGA>GAA	p.G192E	ZNF439_uc002msr.2_Missense_Mutation_p.G56E	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	192	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						AAAGAATGTGGAAAAAACATT	0.388													80	69	---	---	---	---	PASS	A	11978459	A	A	11978459	3	1	58	1	0	0	0	0	1	0	0	0	17908	1174	41	2	585	2	ZNF439	19	11978459	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1532614	11978459	47150524	1246	22621										
ASNA1	439	broad.mit.edu	37	chr19	12848436	12848436	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagcagcgcagcctgaagtgGatcttcgtcgggggcaaggg	18	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:12848436G>T	uc002muv.2	+	1	131	c.117G>T	c.(115-117)TGG>TGT	p.W39C	C19orf43_uc002muu.2_5'Flank|ASNA1_uc002muw.2_Missense_Mutation_p.W39C	NM_004317	NP_004308	O43681	ASNA_HUMAN	arsA arsenite transporter, ATP-binding, homolog	39					response to arsenic-containing substance	endoplasmic reticulum|nucleolus|soluble fraction	arsenite-transporting ATPase activity|ATP binding|metal ion binding			ovary(2)	2					Adenosine triphosphate(DB00171)	GCCTGAAGTGGATCTTCGTCG	0.627													12	16	---	---	---	---	PASS	T	12848436	T	T	12848436	3	4	58	1	0	0	0	0	1	0	0	0	1047	1183	41	2	119	2	ASNA1	19	12848436	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	869977	12848436	46280547	1247	22622										
PKN1	5585	broad.mit.edu	37	chr19	14574703	14574703	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacgtgggtgcggctgctccGgaggctcatccccaatgcca	13	15	1	0	rs56273055		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:14574703G>T	uc002myp.2	+	11	1727	c.1559G>T	c.(1558-1560)CGG>CTG	p.R520L	PKN1_uc002myq.2_Missense_Mutation_p.R526L	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	520					activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						CGGCTGCTCCGGAGGCTCATC	0.667													19	21	---	---	---	---	PASS	T	14574703	T	T	14574703	3	4	58	1	0	0	0	0	1	0	0	0	11979	1116	39	1	1644	1	PKN1	19	14574703	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1726267	14574703	44554280	1248	22623										
CYP4F2	8529	broad.mit.edu	37	chr19	15997053	15997053	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccacactggggccctcaccCtcaaacataaaggtgtcagc	8	16	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:15997053C>T	uc002nbs.1	-	8	1034	c.984G>A	c.(982-984)GAG>GAA	p.E328E	CYP4F2_uc010xot.1_Silent_p.E179E|CYP4F2_uc010xou.1_Intron	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	328		Heme (covalent; via 1 link) (By similarity).			leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						GGCCCTCACCCTCAAACATAA	0.582													162	173	---	---	---	---	PASS	T	15997053	T	T	15997053	2	4	58	1	0	0	0	0	0	0	0	1	4188	695	24	3		3	CYP4F2	19	15997053	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1422350	15997053	43131930	1249	22624										
OR10H4	126541	broad.mit.edu	37	chr19	16060490	16060490	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctcctatgtcttcattgtgGctgccatcttgaggattccc	8	12	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:16060490G>C	uc010xov.1	+	1	673	c.673G>C	c.(673-675)GCT>CCT	p.A225P		NM_001004465	NP_001004465	Q8NGA5	O10H4_HUMAN	olfactory receptor, family 10, subfamily H,	225	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						CTTCATTGTGGCTGCCATCTT	0.493													85	67	---	---	---	---	PASS	C	16060490	C	C	16060490	3	2	58	1	0	0	0	0	1	0	0	0	10908	1203	42	4	675	4	OR10H4	19	16060490	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	63437	16060490	43068493	1250	22625										
USHBP1	83878	broad.mit.edu	37	chr19	17370465	17370465	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caggactgaggggctggttgGgaagagacccaaggatctgg	18	7	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:17370465G>C	uc002nfs.1	-	6	958	c.845C>G	c.(844-846)CCC>CGC	p.P282R	USHBP1_uc002nfr.1_5'Flank|USHBP1_uc002nft.1_RNA|USHBP1_uc010xpk.1_Missense_Mutation_p.P218R|USHBP1_uc010eam.1_Missense_Mutation_p.P210R	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	282							PDZ domain binding			ovary(1)	1						GGGCTGGTTGGGAAGAGACCC	0.572													142	86	---	---	---	---	PASS	C	17370465	C	C	17370465	3	2	58	1	0	0	0	0	1	0	0	0	17034	1232	43	4	1298	4	USHBP1	19	17370465	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1309975	17370465	41758518	1251	22626										
ANO8	57719	broad.mit.edu	37	chr19	17438608	17438608	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttgttgaccagggcgcacaGcgccgccagggggaaggcgg	19	11	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:17438608G>T	uc002ngf.2	-	14	2467	c.2308C>A	c.(2308-2310)CTG>ATG	p.L770M	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	770	Helical; (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						AGGGCGCACAGCGCCGCCAGG	0.652													46	45	---	---	---	---	PASS	T	17438608	T	T	17438608	3	4	58	1	0	0	0	0	1	0	0	0	703	962	34	3	1410	3	ANO8	19	17438608	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	68143	17438608	41690375	1252	22627										
PGPEP1	54858	broad.mit.edu	37	chr19	18474268	18474268	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtcgatcagccttcgtccacGtgcccccactggggaagccg	12	16	1	0	rs142770605		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:18474268G>T	uc002nis.1	+	5	589	c.505G>T	c.(505-507)GTG>TTG	p.V169L	PGPEP1_uc002nir.1_RNA|PGPEP1_uc002nit.1_Missense_Mutation_p.V92L|PGPEP1_uc010xqg.1_Missense_Mutation_p.V92L	NM_017712	NP_060182	Q9NXJ5	PGPI_HUMAN	pyroglutamyl-peptidase I	169							cysteine-type peptidase activity				0						CTTCGTCCACGTGCCCCCACT	0.582													16	15	---	---	---	---	PASS	T	18474268	T	T	18474268	3	4	58	1	0	0	0	0	1	0	0	0	11803	1145	40	1	523	1	PGPEP1	19	18474268	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1035660	18474268	40654715	1253	22628										
GATAD2A	54815	broad.mit.edu	37	chr19	19613322	19613322	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acctccaactggaagaagacGcccctcagcacaggtgggtg	12	13	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:19613322G>T	uc010xqt.1	+	11	2070	c.1758G>T	c.(1756-1758)ACG>ACT	p.T586T	GATAD2A_uc010xqu.1_Silent_p.T215T|GATAD2A_uc010xqv.1_Silent_p.T606T|GATAD2A_uc010xqw.1_Silent_p.T389T	NM_017660	NP_060130	Q86YP4	P66A_HUMAN	GATA zinc finger domain containing 2A	586					DNA methylation|negative regulation of transcription, DNA-dependent	nuclear speck|NuRD complex	protein binding, bridging|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GGAAGAAGACGCCCCTCAGCA	0.637													44	49	---	---	---	---	PASS	T	19613322	T	T	19613322	2	4	58	1	0	0	0	0	0	0	0	1	6260	1074	38	1		1	GATAD2A	19	19613322	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1139054	19613322	39515661	1254	22629										
ATP13A1	57130	broad.mit.edu	37	chr19	19758456	19758456	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggagggagccccgaccgctgCttggctgtcctggaggtggc	18	12	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:19758456C>A	uc002nnh.3	-	20	2773	c.2745G>T	c.(2743-2745)AAG>AAT	p.K915N	ATP13A1_uc002nne.2_Missense_Mutation_p.K55N|ATP13A1_uc002nnf.3_Missense_Mutation_p.K283N|ATP13A1_uc002nng.2_Missense_Mutation_p.K797N	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	915	Cytoplasmic (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(3)|large_intestine(2)|central_nervous_system(1)	6						CCGACCGCTGCTTGGCTGTCC	0.692													10	16	---	---	---	---	PASS	A	19758456	A	A	19758456	3	1	58	1	0	0	0	0	1	0	0	0	1123	796	28	3	897	3	ATP13A1	19	19758456	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	145134	19758456	39370527	1255	22630										
ZNF208	7757	broad.mit.edu	37	chr19	22154164	22154164	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccacattcttcacatttgtaGggtttctctccagtatgaat	6	10	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:22154164G>T	uc002nqp.2	-	6	3437	c.3288C>A	c.(3286-3288)CCC>CCA	p.P1096P	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				CACATTTGTAGGGTTTCTCTC	0.383													21	31	---	---	---	---	PASS	T	22154164	T	T	22154164	2	4	58	1	0	0	0	0	0	0	0	1	17763	987	35	3		3	ZNF208	19	22154164	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	2395708	22154164	36974819	1256	22631										
ZNF676	163223	broad.mit.edu	37	chr19	22363556	22363556	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgtgttcagtaaggcttgaGgaccagctgaaggctttgcc	13	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:22363556G>T	uc002nqs.1	-	3	1281	c.963C>A	c.(961-963)TCC>TCA	p.S321S		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	321	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				TAAGGCTTGAGGACCAGCTGA	0.428													37	79	---	---	---	---	PASS	T	22363556	T	T	22363556	2	4	58	1	0	0	0	0	0	0	0	1	18080	987	35	3		3	ZNF676	19	22363556	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	209392	22363556	36765427	1257	22632										
ZNF676	163223	broad.mit.edu	37	chr19	22375821	22375821	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tattcactctcacctacctgGgggttcttccaccatctcat	5	15	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:22375821G>T	uc002nqs.1	-	2	445	c.127C>A	c.(127-129)CCA>ACA	p.P43T		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	43	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CACCTACCTGGGGGTTCTTCC	0.433													40	49	---	---	---	---	PASS	T	22375821	T	T	22375821	3	4	58	1	0	0	0	0	1	0	0	0	18080	1232	43	3	1647	3	ZNF676	19	22375821	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	12265	22375821	36753162	1258	22633										
C19orf2	8725	broad.mit.edu	37	chr19	30505793	30505793	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aacctgacttttgttttctaGgctttttctggaactgttat	7	7	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:30505793G>T	uc002nsr.2	+	11	1456	c.1426_splice	c.e11-1	p.A476_splice	C19orf2_uc002nsq.2_Intron|C19orf2_uc002nss.2_Splice_Site_p.A436_splice|C19orf2_uc002nst.2_Splice_Site_p.A400_splice	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a						protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		TTGTTTTCTAGGCTTTTTCTG	0.368													61	143	---	---	---	---	PASS	T	30505793	T	T	30505793	5	4	58	1	0	0	0	0	0	0	1	0	1911	1014	35	3	1467	3	C19orf2	19	30505793	Splice_Site	SNP	G	TCGA-33-4566-01A-01D-1441-08	8129972	30505793	28623190	1259	22634										
ZNF536	9745	broad.mit.edu	37	chr19	30936088	30936088	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggaacatggcttcttgtctaAagagcatccgctgcagcgca	11	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:30936088A>T	uc002nsu.1	+	2	1757	c.1619A>T	c.(1618-1620)AAA>ATA	p.K540I	ZNF536_uc010edd.1_Missense_Mutation_p.K540I	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	540					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TTCTTGTCTAAAGAGCATCCG	0.587													55	108	---	---	---	---	PASS	T	30936088	T	T	30936088	3	4	58	1	0	0	0	0	1	0	0	0	17971	14	1	5	1621	5	ZNF536	19	30936088	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	430295	30936088	28192895	1260	22635										
DPY19L3	147991	broad.mit.edu	37	chr19	32955672	32955672	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcagtaccgatattaatactGctgtatctatgctataaggt	7	7	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:32955672G>T	uc002ntg.2	+	15	1772	c.1596G>T	c.(1594-1596)CTG>CTT	p.L532L	DPY19L3_uc002nth.1_Silent_p.L532L|DPY19L3_uc002nti.1_RNA	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	532	Helical; (Potential).					integral to membrane		p.L532V(1)		ovary(4)	4	Esophageal squamous(110;0.162)					TATTAATACTGCTGTATCTAT	0.234													39	77	---	---	---	---	PASS	T	32955672	T	T	32955672	2	4	58	1	0	0	0	0	0	0	0	1	4742	1306	46	3		3	DPY19L3	19	32955672	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	2019584	32955672	26173311	1261	22636										
RGS9BP	388531	broad.mit.edu	37	chr19	33167781	33167781	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccttgcaggagcgcgggggGggttgcgaccccaggaaggc	19	11	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:33167781G>T	uc002ntp.1	+	1	1469	c.612G>T	c.(610-612)GGG>GGT	p.G204G	ANKRD27_uc002ntn.1_5'Flank|ANKRD27_uc002nto.1_5'Flank	NM_207391	NP_997274	Q6ZS82	R9BP_HUMAN	RGS9 anchor protein	204	Cytoplasmic (Potential).				negative regulation of signal transduction	integral to membrane				central_nervous_system(1)	1	Esophageal squamous(110;0.137)					AGCGCGGGGGGGGTTGCGACC	0.741													6	4	---	---	---	---	PASS	T	33167781	T	T	33167781	2	4	58	1	0	0	0	0	0	0	0	1	13314	1219	43	3		3	RGS9BP	19	33167781	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	212109	33167781	25961202	1262	22637										
RHPN2	85415	broad.mit.edu	37	chr19	33490526	33490526	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgctgatcattcttcagtgtGgccaagggtgtcagcccctc	11	12	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:33490526G>A	uc002nuf.2	-	10	1257	c.1191C>T	c.(1189-1191)GCC>GCT	p.A397A	RHPN2_uc010xro.1_Silent_p.A246A|RHPN2_uc002nue.2_Silent_p.A127A	NM_033103	NP_149094	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	397	BRO1.				signal transduction	perinuclear region of cytoplasm	protein binding			central_nervous_system(5)|ovary(1)	6	Esophageal squamous(110;0.137)					TCTTCAGTGTGGCCAAGGGTG	0.622													5	82	---	---	---	---	PASS	A	33490526	A	A	33490526	2	1	58	1	0	0	0	0	0	0	0	1	13351	1335	47	3		3	RHPN2	19	33490526	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	322745	33490526	25638457	1263	22638										
WDR88	126248	broad.mit.edu	37	chr19	33623155	33623155	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accctccgcccccgccagcgAgtattgtcccggcaagctgt	10	18	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:33623155A>T	uc002nui.2	+	1	158	c.80A>T	c.(79-81)GAG>GTG	p.E27V		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	27										ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					CCCGCCAGCGAGTATTGTCCC	0.701													40	131	---	---	---	---	PASS	T	33623155	T	T	33623155	3	4	58	1	0	0	0	0	1	0	0	0	17332	304	11	5	82	5	WDR88	19	33623155	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	132629	33623155	25505828	1264	22639										
LGI4	163175	broad.mit.edu	37	chr19	35617781	35617781	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagctcttcctcgggccggaAgcgctgcaggctgtagtccc	13	15	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:35617781A>T	uc002nxx.2	-	7	1363	c.769T>A	c.(769-771)TTC>ATC	p.F257I	LGI4_uc002nxy.1_Missense_Mutation_p.F85I|LGI4_uc002nxz.1_Missense_Mutation_p.F85I	NM_139284	NP_644813	Q8N135	LGI4_HUMAN	leucine-rich repeat LGI family, member 4	257						extracellular region				pancreas(1)	1	all_lung(56;7.56e-09)|Lung NSC(56;1.1e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.54e-20)|OV - Ovarian serous cystadenocarcinoma(14;1.33e-18)|all cancers(14;4.27e-17)|LUSC - Lung squamous cell carcinoma(66;0.0849)			TCGGGCCGGAAGCGCTGCAGG	0.677													11	25	---	---	---	---	PASS	T	35617781	T	T	35617781	3	4	58	1	0	0	0	0	1	0	0	0	8754	72	3	5	856	5	LGI4	19	35617781	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1994626	35617781	23511202	1265	22640										
CD22	933	broad.mit.edu	37	chr19	35835768	35835768	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cggcaggcgagtggctgtggGactcgggtcctgcctcgcca	17	13	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:35835768G>A	uc010edt.2	+	10	2149	c.2072G>A	c.(2071-2073)GGA>GAA	p.G691E	CD22_uc010xst.1_Missense_Mutation_p.G519E|CD22_uc010edu.2_Missense_Mutation_p.G603E|CD22_uc010edv.2_Missense_Mutation_p.G691E|CD22_uc002nzb.3_Missense_Mutation_p.G514E|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	691	Helical; (Potential).				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)	GTGGCTGTGGGACTCGGGTCC	0.622													33	128	---	---	---	---	PASS	A	35835768	A	A	35835768	3	1	58	1	0	0	0	0	1	0	0	0	2985	1174	41	2	2106	2	CD22	19	35835768	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	217987	35835768	23293215	1266	22641										
HAUS5	23354	broad.mit.edu	37	chr19	36113796	36113796	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggtgggagcagccaggccaGgccgccctctctgaggagct	16	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:36113796G>T	uc002oam.1	+	19	1854	c.1803G>T	c.(1801-1803)CAG>CAT	p.Q601H		NM_015302	NP_056117	O94927	HAUS5_HUMAN	HAUS augmin-like complex, subunit 5	601					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle					0						AGCCAGGCCAGGCCGCCCTCT	0.662													57	78	---	---	---	---	PASS	T	36113796	T	T	36113796	3	4	58	1	0	0	0	0	1	0	0	0	6969	991	35	3	1877	3	HAUS5	19	36113796	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	278028	36113796	23015187	1267	22642										
MLL4	9757	broad.mit.edu	37	chr19	36214714	36214714	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggtcctccaggcccacgccGgggggcgggagctggggggc	21	13	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:36214714G>A	uc010eei.2	+	9	3140	c.3140G>A	c.(3139-3141)CGG>CAG	p.R1047Q		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1047					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGCCCACGCCGGGGGGCGGGA	0.701													6	14	---	---	---	---	PASS	A	36214714	A	A	36214714	3	1	58	1	0	0	0	0	1	0	0	0	9623	1116	39	1	3170	1	MLL4	19	36214714	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	100918	36214714	22914269	1268	22643										
KIRREL2	84063	broad.mit.edu	37	chr19	36352130	36352130	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atcgggcctgcggggcggcgCcgcggaggctcggctgactg	20	13	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:36352130C>A	uc002ocb.3	+	9	1375	c.1163C>A	c.(1162-1164)GCC>GAC	p.A388D	KIRREL2_uc002obz.3_Missense_Mutation_p.A388D|KIRREL2_uc002oca.3_Missense_Mutation_p.A338D|KIRREL2_uc002occ.3_Missense_Mutation_p.A335D|KIRREL2_uc002ocd.3_Missense_Mutation_p.A385D	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	388	Extracellular (Potential).|Ig-like C2-type 4.				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CGGGGCGGCGCCGCGGAGGCT	0.692													12	8	---	---	---	---	PASS	A	36352130	A	A	36352130	3	1	58	1	0	0	0	0	1	0	0	0	8325	739	26	3	1197	3	KIRREL2	19	36352130	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	137416	36352130	22776853	1269	22644										
ZNF585B	92285	broad.mit.edu	37	chr19	37676857	37676857	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttctgagtaaaggcttttcCacaagtattgcattcataag	7	8	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:37676857C>A	uc002ofq.2	-	5	1836	c.1582G>T	c.(1582-1584)GGA>TGA	p.G528*	uc002ofp.1_5'Flank|ZNF585B_uc002ofr.1_Nonsense_Mutation_p.G342*	NM_152279	NP_689492	Q52M93	Z585B_HUMAN	zinc finger protein 585B	528	C2H2-type 13.				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)			AAGGCTTTTCCACAAGTATTG	0.408													36	117	---	---	---	---	PASS	A	37676857	A	A	37676857	4	1	58	1	0	0	0	0	0	1	0	0	18015	603	21	3	731	3	ZNF585B	19	37676857	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1324727	37676857	21452126	1270	22645										
ZNF781	163115	broad.mit.edu	37	chr19	38160624	38160624	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttctgtacattcgtaaagtcTctcatcagtgtgaattttcc	6	9	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:38160624T>C	uc002ogy.2	-	4	1168	c.426A>G	c.(424-426)AGA>AGG	p.R142R	ZNF781_uc002ogz.2_Silent_p.R137R	NM_152605	NP_689818	Q8N8C0	ZN781_HUMAN	zinc finger protein 781	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCGTAAAGTCTCTCATCAGTG	0.373													93	67	---	---	---	---	PASS	C	38160624	C	C	38160624	2	2	58	1	0	0	0	0	0	0	0	1	18151	1548	54	5		5	ZNF781	19	38160624	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	483767	38160624	20968359	1271	22646										
ZNF781	163115	broad.mit.edu	37	chr19	38161015	38161015	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gaaagttacaagcagtctctGccacattctttaaatacatt	5	9	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:38161015G>T	uc002ogy.2	-	4	777	c.35C>A	c.(34-36)GCA>GAA	p.A12E	ZNF781_uc002ogz.2_Missense_Mutation_p.A7E	NM_152605	NP_689818	Q8N8C0	ZN781_HUMAN	zinc finger protein 781	12					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGCAGTCTCTGCCACATTCTT	0.343													92	67	---	---	---	---	PASS	T	38161015	T	T	38161015	3	4	58	1	0	0	0	0	1	0	0	0	18151	1319	46	3	952	3	ZNF781	19	38161015	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	391	38161015	20967968	1272	22647										
RYR1	6261	broad.mit.edu	37	chr19	38991614	38991614	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgcccgacatgagggcagCcgcctcgctggacacggtga	14	15	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:38991614C>A	uc002oit.2	+	47	7728	c.7598C>A	c.(7597-7599)GCC>GAC	p.A2533D	RYR1_uc002oiu.2_Missense_Mutation_p.A2533D|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2533	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	ATGAGGGCAGCCGCCTCGCTG	0.642													19	12	---	---	---	---	PASS	A	38991614	A	A	38991614	3	1	58	1	0	0	0	0	1	0	0	0	13768	739	26	3	7784	3	RYR1	19	38991614	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	830599	38991614	20137369	1273	22648										
RINL	126432	broad.mit.edu	37	chr19	39362466	39362466	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgatagaaaggccaggagatGgggcaggtctggcatgcaga	17	6	1	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:39362466G>A	uc002ojq.2	-	5	404	c.16C>T	c.(16-18)CAT>TAT	p.H6Y	RINL_uc002ojr.1_5'Flank|RINL_uc010xuo.1_Missense_Mutation_p.H120Y	NM_198445	NP_940847	Q6ZS11	RINL_HUMAN	Ras and Rab interactor-like	6							GTPase activator activity			pancreas(1)	1						GCCAGGAGATGGGGCAGGTCT	0.567													48	31	---	---	---	---	PASS	A	39362466	A	A	39362466	3	1	58	1	0	0	0	0	1	0	0	0	13375	1348	47	3	1374	3	RINL	19	39362466	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	370852	39362466	19766517	1274	22649										
ARHGEF1	9138	broad.mit.edu	37	chr19	42396400	42396400	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccccattctctctcttgagcAggttctccgggtgccggtcc	10	16	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:42396400A>C	uc002orx.2	+	6	434	c.325_splice	c.e6-2	p.V109_splice	ARHGEF1_uc002orw.1_Splice_Site_p.V109_splice|ARHGEF1_uc002ory.2_Splice_Site_p.V76_splice|ARHGEF1_uc002orz.2_5'UTR|ARHGEF1_uc002osa.2_Splice_Site_p.V124_splice|ARHGEF1_uc002osb.2_Splice_Site_p.V91_splice	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform						cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		TCTCTTGAGCAGGTTCTCCGG	0.607													46	248	---	---	---	---	PASS	C	42396400	C	C	42396400	5	2	58	1	0	0	0	0	0	0	1	0	893	202	7	5	390	5	ARHGEF1	19	42396400	Splice_Site	SNP	A	TCGA-33-4566-01A-01D-1441-08	3033934	42396400	16732583	1275	22650										
POU2F2	5452	broad.mit.edu	37	chr19	42600276	42600276	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cggcgttgcttgaaggtgcgGgcgaattgctccagctcctc	14	12	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:42600276G>T	uc002osp.2	-	8	688	c.621C>A	c.(619-621)GCC>GCA	p.A207A	POU2F2_uc002osn.2_Silent_p.A191A|POU2F2_uc002oso.2_5'UTR|POU2F2_uc002osq.2_Silent_p.A191A|POU2F2_uc002osr.1_Silent_p.A207A	NM_002698	NP_002689	P09086	PO2F2_HUMAN	POU domain, class 2, transcription factor 2	207	POU-specific.				humoral immune response|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2		Prostate(69;0.059)				TGAAGGTGCGGGCGAATTGCT	0.662													16	19	---	---	---	---	PASS	T	42600276	T	T	42600276	2	4	58	1	0	0	0	0	0	0	0	1	12272	1219	43	3		3	POU2F2	19	42600276	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	203876	42600276	16528707	1276	22651										
PSG6	5675	broad.mit.edu	37	chr19	43414914	43414914	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcagcaaccacaggtagcttGcatccggagtctcaggatca	10	12	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:43414914G>T	uc002ovj.1	-	3	576	c.524C>A	c.(523-525)GCA>GAA	p.A175E	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Missense_Mutation_p.A182E|PSG6_uc002ovi.2_Missense_Mutation_p.A176E|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG6_uc002ove.1_5'UTR|PSG6_uc002ovf.1_Missense_Mutation_p.A175E|PSG6_uc002ovg.1_Missense_Mutation_p.A175E	NM_002782	NP_002773	Q00889	PSG6_HUMAN	pregnancy specific beta-1-glycoprotein 6 isoform	175	Ig-like C2-type 1.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				CAGGTAGCTTGCATCCGGAGT	0.527													73	247	---	---	---	---	PASS	T	43414914	T	T	43414914	3	4	58	1	0	0	0	0	1	0	0	0	12659	1319	46	3	838	3	PSG6	19	43414914	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	814638	43414914	15714069	1277	22652										
PSG7	5676	broad.mit.edu	37	chr19	43433662	43433662	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccgtatttcacattcatagGgtcctgcagtatagtttgtg	9	8	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:43433662G>T	uc002ovl.3	-	4	743	c.641C>A	c.(640-642)CCC>CAC	p.P214H	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_5'Flank|PSG7_uc002out.1_Missense_Mutation_p.P33H|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Missense_Mutation_p.P92H	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	214	Ig-like C2-type 1.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				ACATTCATAGGGTCCTGCAGT	0.512													111	476	---	---	---	---	PASS	T	43433662	T	T	43433662	3	4	58	1	0	0	0	0	1	0	0	0	12660	1232	43	3	634	3	PSG7	19	43433662	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	18748	43433662	15695321	1278	22653										
PSG2	5670	broad.mit.edu	37	chr19	43575854	43575854	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgctgggatccacttaccaGagactttgactgtcaacgat	9	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:43575854G>A	uc002ovr.2	-	4	1055	c.962C>T	c.(961-963)TCT>TTT	p.S321F	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.S321F|PSG2_uc010eiq.1_Missense_Mutation_p.S321F|PSG2_uc002ovs.3_Missense_Mutation_p.S321F|PSG2_uc002ovt.3_Missense_Mutation_p.S321F	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	321					cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				CCACTTACCAGAGACTTTGAC	0.473													65	276	---	---	---	---	PASS	A	43575854	A	A	43575854	3	1	58	1	0	0	0	0	1	0	0	0	12655	942	33	2	53	2	PSG2	19	43575854	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	142192	43575854	15553129	1279	22654										
XRCC1	7515	broad.mit.edu	37	chr19	44065074	44065074	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgcttacctcatagtcttgCtccccagcgcctccagctga	7	17	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:44065074C>G	uc002owt.2	-	3	363	c.243G>C	c.(241-243)GAG>GAC	p.E81D	XRCC1_uc010xwp.1_Missense_Mutation_p.E50D	NM_006297	NP_006288	P18887	XRCC1_HUMAN	X-ray repair cross complementing protein 1	81					base-excision repair|single strand break repair	nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(2)|large_intestine(1)|prostate(1)|breast(1)	7		Prostate(69;0.0153)				CATAGTCTTGCTCCCCAGCGC	0.582								Other_BER_factors					109	174	---	---	---	---	PASS	G	44065074	G	G	44065074	3	3	58	1	0	0	0	0	1	0	0	0	17449	796	28	4	1718	4	XRCC1	19	44065074	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	489220	44065074	15063909	1280	22655										
ZNF283	284349	broad.mit.edu	37	chr19	44352080	44352080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtggaaaggcctttagtcgtGgctatcacctttctcaacat	9	10	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:44352080G>T	uc002oxr.3	+	7	1595	c.1327G>T	c.(1327-1329)GGC>TGC	p.G443C	ZNF283_uc002oxp.3_Missense_Mutation_p.G304C	NM_181845	NP_862828	Q8N7M2	ZN283_HUMAN	zinc finger protein 283	443	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				CTTTAGTCGTGGCTATCACCT	0.388													19	108	---	---	---	---	PASS	T	44352080	T	T	44352080	3	4	58	1	0	0	0	0	1	0	0	0	17817	1348	47	3	1341	3	ZNF283	19	44352080	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	287006	44352080	14776903	1281	22656										
CKM	1158	broad.mit.edu	37	chr19	45822880	45822880	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttcaagggtcagtaccttgGccatgtggttgttatgtttg	13	6	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:45822880G>A	uc002pbd.2	-	2	166	c.92C>T	c.(91-93)GCC>GTC	p.A31V		NM_001824	NP_001815	P06732	KCRM_HUMAN	muscle creatine kinase	31	Phosphagen kinase N-terminal.				creatine metabolic process	cytosol	ATP binding|creatine kinase activity			skin(1)	1		Ovarian(192;0.0336)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;2.29e-44)|Epithelial(262;1.05e-38)|GBM - Glioblastoma multiforme(486;3.56e-07)	Creatine(DB00148)	CAGTACCTTGGCCATGTGGTT	0.517													46	171	---	---	---	---	PASS	A	45822880	A	A	45822880	3	1	58	1	0	0	0	0	1	0	0	0	3448	1203	42	3	1081	3	CKM	19	45822880	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1470800	45822880	13306103	1282	22657										
GPR4	2828	broad.mit.edu	37	chr19	46094288	46094288	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tagaggatggggtccgccacAcagttgaggctggtgaaagc	16	8	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:46094288A>G	uc002pcm.2	-	2	1782	c.837T>C	c.(835-837)TGT>TGC	p.C279C	OPA3_uc010xxk.1_Intron	NM_005282	NP_005273	P46093	GPR4_HUMAN	G protein-coupled receptor 4	279	Helical; Name=7; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(262;0.0071)|GBM - Glioblastoma multiforme(486;0.128)|Epithelial(262;0.223)		GGTCCGCCACACAGTTGAGGC	0.652													25	38	---	---	---	---	PASS	G	46094288	G	G	46094288	2	3	58	1	0	0	0	0	0	0	0	1	6694	157	6	5		5	GPR4	19	46094288	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	271408	46094288	13034695	1283	22658										
SYMPK	8189	broad.mit.edu	37	chr19	46328429	46328429	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtgggctcaggggcctcacCggctgctcaatgaccctcag	14	14	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:46328429C>A	uc002pdn.2	-	18	2735	c.2490G>T	c.(2488-2490)CCG>CCT	p.P830P	SYMPK_uc002pdo.1_Silent_p.P830P|SYMPK_uc002pdp.1_Silent_p.P830P	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	830					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		GGGGCCTCACCGGCTGCTCAA	0.642													55	42	---	---	---	---	PASS	A	46328429	A	A	46328429	2	1	58	1	0	0	0	0	0	0	0	1	15436	666	23	1		1	SYMPK	19	46328429	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	234141	46328429	12800554	1284	22659										
SYMPK	8189	broad.mit.edu	37	chr19	46332347	46332347	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcgttgtactcctggtagagCcaggcgaaggccaggtccag	15	11	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:46332347C>A	uc002pdn.2	-	14	2111	c.1866G>T	c.(1864-1866)TGG>TGT	p.W622C	SYMPK_uc002pdo.1_Missense_Mutation_p.W622C|SYMPK_uc002pdp.1_Missense_Mutation_p.W622C	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	622					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		CCTGGTAGAGCCAGGCGAAGG	0.642													47	74	---	---	---	---	PASS	A	46332347	A	A	46332347	3	1	58	1	0	0	0	0	1	0	0	0	15436	740	26	3	2014	3	SYMPK	19	46332347	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3918	46332347	12796636	1285	22660										
CCDC8	83987	broad.mit.edu	37	chr19	46914865	46914865	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctttgattatctgtaacctcTgacccctggtcagctggggc	10	12	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:46914865T>C	uc002pep.2	-	1	2055	c.1203A>G	c.(1201-1203)TCA>TCG	p.S401S		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	401						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		CTGTAACCTCTGACCCCTGGT	0.607													40	144	---	---	---	---	PASS	C	46914865	C	C	46914865	2	2	58	1	0	0	0	0	0	0	0	1	2853	1567	55	5		5	CCDC8	19	46914865	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	582518	46914865	12214118	1286	22661										
DHX34	9704	broad.mit.edu	37	chr19	47858496	47858496	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagcgcctgttgcccacgcgGcctgacctcaaggtcatcct	10	17	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:47858496G>T	uc010xyn.1	+	3	1247	c.906G>T	c.(904-906)CGG>CGT	p.R302R	DHX34_uc010elc.1_Silent_p.R302R	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	302	Helicase ATP-binding.					intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		TGCCCACGCGGCCTGACCTCA	0.587													102	127	---	---	---	---	PASS	T	47858496	T	T	47858496	2	4	58	1	0	0	0	0	0	0	0	1	4507	1190	42	3		3	DHX34	19	47858496	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	943631	47858496	11270487	1287	22662										
CABP5	56344	broad.mit.edu	37	chr19	48547117	48547117	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccctcactccccacctcacCcgctgtttctcagcaatgcc	4	22	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:48547117C>A	uc002phu.1	-	1	188	c.63G>T	c.(61-63)CGG>CGT	p.R21R		NM_019855	NP_062829	Q9NP86	CABP5_HUMAN	calcium binding protein 5	21					signal transduction	cytoplasm	calcium ion binding			skin(1)	1		all_cancers(25;1.86e-08)|all_lung(116;1.14e-06)|all_epithelial(76;1.16e-06)|Lung NSC(112;2.54e-06)|all_neural(266;0.0138)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;4.09e-05)|all cancers(93;0.000322)|Epithelial(262;0.01)|GBM - Glioblastoma multiforme(486;0.058)		cccacctcacccGCTGTTTCT	0.378													28	32	---	---	---	---	PASS	A	48547117	A	A	48547117	2	1	58	1	0	0	0	0	0	0	0	1	2534	637	22	3		3	CABP5	19	48547117	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	688621	48547117	10581866	1288	22663										
C19orf73	55150	broad.mit.edu	37	chr19	49622256	49622256	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttccggaagcagcccccgccTtgaaatccaacctttagcct	7	16	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:49622256T>A	uc002pmq.3	-	1	142	c.24A>T	c.(22-24)CAA>CAT	p.Q8H	PPFIA3_uc002pmr.2_5'Flank|PPFIA3_uc010yai.1_5'Flank	NM_018111	NP_060581	Q9NVV2	CS073_HUMAN	hypothetical protein LOC55150	8										large_intestine(1)	1						AGCCCCCGCCTTGAAATCCAA	0.706													19	59	---	---	---	---	PASS	A	49622256	A	A	49622256	3	1	58	1	0	0	0	0	1	0	0	0	1948	1606	56	5	369	5	C19orf73	19	49622256	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	1075139	49622256	9506727	1289	22664										
TSKS	60385	broad.mit.edu	37	chr19	50266502	50266502	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtcttcaccaccacgctcgcCatggtgtgggggtctggctc	13	14	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:50266502C>A	uc002ppm.2	-	1	14	c.3G>T	c.(1-3)ATG>ATT	p.M1I		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	1							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		CCACGCTCGCCATGGTGTGGG	0.637													39	121	---	---	---	---	PASS	A	50266502	A	A	50266502	3	1	58	1	0	0	0	0	1	0	0	0	16623	594	21	3	1819	3	TSKS	19	50266502	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	644246	50266502	8862481	1290	22665										
KLK3	354	broad.mit.edu	37	chr19	51361523	51361523	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccacccaggagccagcactgGggaccacctgctacgcctca	10	18	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:51361523G>T	uc002pts.1	+	3	486	c.445G>T	c.(445-447)GGG>TGG	p.G149W	KLK3_uc010ycj.1_Intron|KLK3_uc002ptr.1_Missense_Mutation_p.G106W|KLK3_uc010eof.1_RNA	NM_001030047	NP_001025218	P07288	KLK3_HUMAN	prostate specific antigen isoform 3	149	Peptidase S1.				negative regulation of angiogenesis|proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00763)|GBM - Glioblastoma multiforme(134;0.0144)		GCCAGCACTGGGGACCACCTG	0.488													34	46	---	---	---	---	PASS	T	51361523	T	T	51361523	3	4	58	1	0	0	0	0	1	0	0	0	8405	1232	43	3	459	3	KLK3	19	51361523	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1095021	51361523	7767460	1291	22666										
C19orf75	284369	broad.mit.edu	37	chr19	51770668	51770668	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcaggcgaagaaagctgcagCgatcagagcaaaaaagagct	13	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:51770668C>T	uc002pwb.1	+	5	833	c.452C>T	c.(451-453)GCG>GTG	p.A151V	C19orf75_uc010eov.1_RNA|C19orf75_uc010ycw.1_Missense_Mutation_p.A57V	NM_173635	NP_775906	Q8N7X8	CS075_HUMAN	hypothetical protein LOC284369	151						integral to membrane				ovary(1)|pancreas(1)	2						AAAGCTGCAGCGATCAGAGCA	0.468													34	171	---	---	---	---	PASS	T	51770668	T	T	51770668	3	4	58	1	0	0	0	0	1	0	0	0	1949	768	27	1	466	1	C19orf75	19	51770668	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	409145	51770668	7358315	1292	22667										
SIGLEC12	89858	broad.mit.edu	37	chr19	52003232	52003232	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	catttcctgcttcctctctcCacctggaagtagtacttccc	5	16	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:52003232C>A	uc002pwx.1	-	2	806	c.750G>T	c.(748-750)GTG>GTT	p.V250V	SIGLEC12_uc002pww.1_Silent_p.V132V|SIGLEC12_uc010eoy.1_5'UTR	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	250	Ig-like V-type 2.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		TTCCTCTCTCCACCTGGAAGT	0.537													37	115	---	---	---	---	PASS	A	52003232	A	A	52003232	2	1	58	1	0	0	0	0	0	0	0	1	14308	581	21	3		3	SIGLEC12	19	52003232	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	232564	52003232	7125751	1293	22668										
SIGLEC12	89858	broad.mit.edu	37	chr19	52004701	52004701	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccttgttctgtgggtccccaAggaggtggaatcggtcccga	14	11	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:52004701A>G	uc002pwx.1	-	1	343	c.287T>C	c.(286-288)CTT>CCT	p.L96P	SIGLEC12_uc002pww.1_5'Flank|SIGLEC12_uc010eoy.1_5'UTR	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	96	Ig-like V-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		TGGGTCCCCAAGGAGGTGGAA	0.537													66	147	---	---	---	---	PASS	G	52004701	G	G	52004701	3	3	58	1	0	0	0	0	1	0	0	0	14308	72	3	5	1605	5	SIGLEC12	19	52004701	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1469	52004701	7124282	1294	22669										
SIGLEC14	100049587	broad.mit.edu	37	chr19	52148737	52148737	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggtctttcctacctgtgccTgtgccatttctgaagaagat	10	10	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:52148737T>A	uc002pxf.3	-	4	867	c.747A>T	c.(745-747)ACA>ACT	p.T249T		NM_001098612	NP_001092082	Q08ET2	SIG14_HUMAN	sialic acid binding Ig-like lectin 14 precursor	249	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to membrane|plasma membrane	protein binding|sugar binding			ovary(1)	1		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000965)|OV - Ovarian serous cystadenocarcinoma(262;0.0195)		TACCTGTGCCTGTGCCATTTC	0.552													23	147	---	---	---	---	PASS	A	52148737	A	A	52148737	2	1	58	1	0	0	0	0	0	0	0	1	14309	1567	55	5		5	SIGLEC14	19	52148737	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	144036	52148737	6980246	1295	22670										
FPR2	2358	broad.mit.edu	37	chr19	52272532	52272532	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agagggattatccggtttgtCattggctttagcttgccgat	12	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:52272532C>A	uc002pxr.2	+	2	666	c.621C>A	c.(619-621)GTC>GTA	p.V207V	FPR2_uc002pxs.3_Silent_p.V207V|FPR2_uc010epf.2_Silent_p.V207V	NM_001005738	NP_001005738	P25090	FPR2_HUMAN	formyl peptide receptor-like 1	207	Helical; Name=5; (Potential).				cell adhesion|cellular component movement|chemotaxis|inflammatory response	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(3)|ovary(1)	4						TCCGGTTTGTCATTGGCTTTA	0.507													20	101	---	---	---	---	PASS	A	52272532	A	A	52272532	2	1	58	1	0	0	0	0	0	0	0	1	6039	813	29	2		2	FPR2	19	52272532	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	123795	52272532	6856451	1296	22671										
ZNF534	147658	broad.mit.edu	37	chr19	52938435	52938435	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	taataaacaatccagatggcAgggagtgcatcaaaggtgtg	12	6	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:52938435A>T	uc002pzk.2	+	3	344	c.283A>T	c.(283-285)AGG>TGG	p.R95W	ZNF534_uc002pzj.1_Missense_Mutation_p.R82W|ZNF534_uc010epo.1_Intron|ZNF534_uc002pzl.2_Missense_Mutation_p.R82W	NM_001143939	NP_001137411	Q76KX8	ZN534_HUMAN	zinc finger protein 534 isoform 2	95					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCCAGATGGCAGGGAGTGCAT	0.398													17	37	---	---	---	---	PASS	T	52938435	T	T	52938435	3	4	58	1	0	0	0	0	1	0	0	0	17970	179	7	5	293	5	ZNF534	19	52938435	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	665903	52938435	6190548	1297	22672										
ZNF701	55762	broad.mit.edu	37	chr19	53086575	53086575	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtggcaaggtttttaatcaCaaatcaaaccttgcatgtca	7	8	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:53086575C>A	uc002pzs.1	+	4	1390	c.1263C>A	c.(1261-1263)CAC>CAA	p.H421Q	ZNF701_uc010ydn.1_Missense_Mutation_p.H487Q	NM_018260	NP_060730	Q9NV72	ZN701_HUMAN	zinc finger protein 701	421	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0105)|GBM - Glioblastoma multiforme(134;0.0402)		TTTTTAATCACAAATCAAACC	0.358													14	65	---	---	---	---	PASS	A	53086575	A	A	53086575	3	1	58	1	0	0	0	0	1	0	0	0	18102	477	17	3	1475	3	ZNF701	19	53086575	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	148140	53086575	6042408	1298	22673										
ZNF600	162966	broad.mit.edu	37	chr19	53269553	53269553	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgaattctagtatgttttgCcagataggaatgacacgcaa	9	6	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:53269553C>A	uc002qab.3	-	3	1742	c.1456G>T	c.(1456-1458)GCA>TCA	p.A486S		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	486	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		GTATGTTTTGCCAGATAGGAA	0.428													87	151	---	---	---	---	PASS	A	53269553	A	A	53269553	3	1	58	1	0	0	0	0	1	0	0	0	18027	739	26	3	716	3	ZNF600	19	53269553	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	182978	53269553	5859430	1299	22674										
ZNF320	162967	broad.mit.edu	37	chr19	53385191	53385191	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatcacttctgtattgcctTgccctgttgatgacaatgta	9	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:53385191T>G	uc002qag.2	-	4	379	c.188A>C	c.(187-189)CAA>CCA	p.Q63P	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.Q9P|ZNF320_uc002qai.2_Missense_Mutation_p.Q63P	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	63	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		TGTATTGCCTTGCCCTGTTGA	0.378													108	164	---	---	---	---	PASS	G	53385191	G	G	53385191	3	3	58	1	0	0	0	0	1	0	0	0	17836	1812	63	5	1345	5	ZNF320	19	53385191	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	115638	53385191	5743792	1300	22675										
ZNF160	90338	broad.mit.edu	37	chr19	53572005	53572005	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gctctgccacagtcattacaCttgtaaggtttttctccagt	7	11	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:53572005C>A	uc010eqk.2	-	7	2198	c.1782G>T	c.(1780-1782)AAG>AAT	p.K594N	ZNF160_uc002qaq.3_Missense_Mutation_p.K594N|ZNF160_uc002qar.3_Missense_Mutation_p.K594N	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	594	C2H2-type 13.				hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		AGTCATTACACTTGTAAGGTT	0.408													59	101	---	---	---	---	PASS	A	53572005	A	A	53572005	3	1	58	1	0	0	0	0	1	0	0	0	17736	564	20	3	678	3	ZNF160	19	53572005	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	186814	53572005	5556978	1301	22676										
BIRC8	112401	broad.mit.edu	37	chr19	53792943	53792943	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cataaaaactctttgcttgaAatcaataaccgcgctgcaca	5	11	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:53792943A>T	uc002qbk.2	-	1	1933	c.685T>A	c.(685-687)TTC>ATC	p.F229I		NM_033341	NP_203127	Q96P09	BIRC8_HUMAN	baculoviral IAP repeat-containing 8	229					apoptosis		zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(134;0.00304)		CTTTGCTTGAAATCAATAACC	0.383													126	152	---	---	---	---	PASS	T	53792943	T	T	53792943	3	4	58	1	0	0	0	0	1	0	0	0	1440	14	1	5	29	5	BIRC8	19	53792943	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	220938	53792943	5336040	1302	22677										
BIRC8	112401	broad.mit.edu	37	chr19	53793364	53793364	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtagtttgtaccagagctccCtcaagtgaacgggttaaatg	11	8	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:53793364C>T	uc002qbk.2	-	1	1512	c.264G>A	c.(262-264)GAG>GAA	p.E88E		NM_033341	NP_203127	Q96P09	BIRC8_HUMAN	baculoviral IAP repeat-containing 8	88					apoptosis		zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(134;0.00304)		CCAGAGCTCCCTCAAGTGAAC	0.393													79	117	---	---	---	---	PASS	T	53793364	T	T	53793364	2	4	58	1	0	0	0	0	0	0	0	1	1440	680	24	3		3	BIRC8	19	53793364	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	421	53793364	5335619	1303	22678										
ZNF761	388561	broad.mit.edu	37	chr19	53958872	53958872	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtcacaagtcatcccttacaTgccatcatagacttcatact	4	13	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:53958872T>A	uc010eqp.2	+	7	1569	c.1111T>A	c.(1111-1113)TGC>AGC	p.C371S	ZNF761_uc010ydy.1_Missense_Mutation_p.C317S|ZNF761_uc002qbt.1_Missense_Mutation_p.C317S	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	371	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		ATCCCTTACATGCCATCATAG	0.428													45	227	---	---	---	---	PASS	A	53958872	A	A	53958872	3	1	58	1	0	0	0	0	1	0	0	0	18133	1464	51	5	1122	5	ZNF761	19	53958872	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	165508	53958872	5170111	1304	22679										
ZNF813	126017	broad.mit.edu	37	chr19	53995065	53995065	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agaaaccttacaagtgtaatGaatgtggcaaggtttttaat	9	4	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:53995065G>T	uc002qbu.2	+	4	1707	c.1579G>T	c.(1579-1581)GAA>TAA	p.E527*	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	527	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		CAAGTGTAATGAATGTGGCAA	0.373													22	44	---	---	---	---	PASS	T	53995065	T	T	53995065	4	4	58	1	0	0	0	0	0	1	0	0	18172	1291	45	2	1589	2	ZNF813	19	53995065	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	36193	53995065	5133918	1305	22680										
ZNF813	126017	broad.mit.edu	37	chr19	53995209	53995209	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtcaccatagacttcatactGgagagaaaccttacaagtgt	8	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:53995209G>T	uc002qbu.2	+	4	1851	c.1723G>T	c.(1723-1725)GGA>TGA	p.G575*	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	575					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		ACTTCATACTGGAGAGAAACC	0.373													20	40	---	---	---	---	PASS	T	53995209	T	T	53995209	4	4	58	1	0	0	0	0	0	1	0	0	18172	1349	47	3	1733	3	ZNF813	19	53995209	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	144	53995209	5133774	1306	22681										
NLRP12	91662	broad.mit.edu	37	chr19	54301541	54301541	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatgttgcagcccctcagcCagcaaccacaggccccagtc	10	17	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:54301541C>G	uc002qch.3	-	8	3103	c.2883G>C	c.(2881-2883)CTG>CTC	p.L961L	NLRP12_uc010eqw.2_Intron|NLRP12_uc002qci.3_Intron|NLRP12_uc002qcj.3_Silent_p.L962L|NLRP12_uc002qck.3_Intron|NLRP12_uc010eqx.2_Intron	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	961	LRR 5.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		GCCCCTCAGCCAGCAACCACA	0.622													45	55	---	---	---	---	PASS	G	54301541	G	G	54301541	2	3	58	1	0	0	0	0	0	0	0	1	10474	581	21	4		4	NLRP12	19	54301541	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	306332	54301541	4827442	1307	22682										
NLRP12	91662	broad.mit.edu	37	chr19	54307228	54307228	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caaagtccgtagtctgcagaCtgggtgcctcagtccctggc	12	13	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:54307228C>T	uc002qch.3	-	6	2783	c.2563G>A	c.(2563-2565)GTC>ATC	p.V855I	NLRP12_uc010eqw.2_Missense_Mutation_p.V138I|NLRP12_uc002qci.3_Missense_Mutation_p.V855I|NLRP12_uc002qcj.3_Missense_Mutation_p.V856I|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.V856I	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	855					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		AGTCTGCAGACTGGGTGCCTC	0.473													19	39	---	---	---	---	PASS	T	54307228	T	T	54307228	3	4	58	1	0	0	0	0	1	0	0	0	10474	565	20	3	642	3	NLRP12	19	54307228	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5687	54307228	4821755	1308	22683										
NLRP12	91662	broad.mit.edu	37	chr19	54313686	54313686	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgctggaggcaggtacacacCacccagcacaccagggggac	13	14	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:54313686C>A	uc002qch.3	-	3	1447	c.1227G>T	c.(1225-1227)GTG>GTT	p.V409V	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Silent_p.V409V|NLRP12_uc002qcj.3_Silent_p.V409V|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Silent_p.V409V	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	409	NACHT.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		AGGTACACACCACCCAGCACA	0.577													46	180	---	---	---	---	PASS	A	54313686	A	A	54313686	2	1	58	1	0	0	0	0	0	0	0	1	10474	581	21	3		3	NLRP12	19	54313686	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	6458	54313686	4815297	1309	22684										
MYADM	91663	broad.mit.edu	37	chr19	54377184	54377184	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctgtcccacggccgttcgcGggaccacgccatcgccgcca	11	20	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:54377184G>A	uc002qcl.2	+	3	549	c.401G>A	c.(400-402)CGG>CAG	p.R134Q	MYADM_uc002qcm.2_Missense_Mutation_p.R134Q|MYADM_uc002qcn.2_Missense_Mutation_p.R134Q|MYADM_uc002qco.2_Missense_Mutation_p.R134Q|MYADM_uc002qcp.2_Missense_Mutation_p.R134Q	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	134	MARVEL 1.					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		GGCCGTTCGCGGGACCACGCC	0.662													29	95	---	---	---	---	PASS	A	54377184	A	A	54377184	3	1	58	1	0	0	0	0	1	0	0	0	10006	1116	39	1	403	1	MYADM	19	54377184	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	63498	54377184	4751799	1310	22685										
CACNG7	59284	broad.mit.edu	37	chr19	54418756	54418756	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggcatcttcttcatactaTcgggtgagcctaaggacttg	10	10	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:54418756T>A	uc002qcr.1	+	3	436	c.421T>A	c.(421-423)TCG>ACG	p.S141T	CACNG7_uc010era.1_Missense_Mutation_p.S141T	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	141	Helical; (Potential).				regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	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;0.0711)		CTTCATACTATCGGGTGAGCC	0.413													20	46	---	---	---	---	PASS	A	54418756	A	A	54418756	3	1	58	1	0	0	0	0	1	0	0	0	2562	1435	50	5	431	5	CACNG7	19	54418756	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	41572	54418756	4710227	1311	22686										
TSEN34	79042	broad.mit.edu	37	chr19	54695431	54695431	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtgactctggtcagcgccccGcgtccagactctcggcacca	11	17	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:54695431G>A	uc002qdu.2	+	2	325	c.216G>A	c.(214-216)CCG>CCA	p.P72P	MBOAT7_uc002qdq.2_5'Flank|MBOAT7_uc002qdr.2_5'Flank|MBOAT7_uc002qds.2_5'Flank|MBOAT7_uc010yen.1_5'Flank|MBOAT7_uc002qdt.3_5'Flank|TSEN34_uc010yeo.1_Silent_p.P72P|TSEN34_uc002qdv.2_Silent_p.P72P|TSEN34_uc002qdw.2_Silent_p.P72P	NM_024075	NP_076980	Q9BSV6	SEN34_HUMAN	tRNA-intron endonuclease 34	72					mRNA processing|tRNA-type intron splice site recognition and cleavage	nucleolus|tRNA-intron endonuclease complex	nucleic acid binding|tRNA-intron endonuclease activity				0	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					TCAGCGCCCCGCGTCCAGACT	0.697													9	27	---	---	---	---	PASS	A	54695431	A	A	54695431	2	1	58	1	0	0	0	0	0	0	0	1	16610	1074	38	1		1	TSEN34	19	54695431	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	276675	54695431	4433552	1312	22687										
LILRA5	353514	broad.mit.edu	37	chr19	54823819	54823819	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatctcaccgaggcagagcaGaaccatgagggcagggctca	13	11	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:54823819G>T	uc002qfe.2	-	2	196	c.76C>A	c.(76-78)CTG>ATG	p.L26M	LILRA5_uc002qff.2_Missense_Mutation_p.L26M|LILRA5_uc010yev.1_Missense_Mutation_p.L26M|LILRA5_uc010yew.1_Missense_Mutation_p.L26M|LILRA5_uc002qfh.1_Missense_Mutation_p.L26M|LILRA5_uc002qfg.1_Missense_Mutation_p.L26M	NM_021250	NP_067073	A6NI73	LIRA5_HUMAN	leukocyte immunoglobulin-like receptor subfamily	26					innate immune response	extracellular region|integral to membrane	receptor activity			upper_aerodigestive_tract(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		AGGCAGAGCAGAACCATGAGG	0.612													23	40	---	---	---	---	PASS	T	54823819	T	T	54823819	3	4	58	1	0	0	0	0	1	0	0	0	8788	933	33	2	933	2	LILRA5	19	54823819	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	128388	54823819	4305164	1313	22688										
LILRA4	23547	broad.mit.edu	37	chr19	54848414	54848414	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agggtctgtcagagatctgtCctggagaaaagaaggacggg	16	6	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:54848414C>A	uc002qfj.2	-	6	1010	c.953G>T	c.(952-954)GGA>GTA	p.G318V	LILRA4_uc002qfi.2_Missense_Mutation_p.G252V	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	318	Extracellular (Potential).					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		AGAGATCTGTCCTGGAGAAAA	0.607													15	31	---	---	---	---	PASS	A	54848414	A	A	54848414	3	1	58	1	0	0	0	0	1	0	0	0	8787	869	30	2	558	2	LILRA4	19	54848414	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	24595	54848414	4280569	1314	22689										
LILRB4	11006	broad.mit.edu	37	chr19	55179429	55179429	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	catcccaggaaggggcctctCcagctgagcccagtgtctat	11	14	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:55179429C>A	uc002qgp.2	+	12	1668	c.1306C>A	c.(1306-1308)CCA>ACA	p.P436T	LILRB4_uc002qgq.2_Missense_Mutation_p.P435T|LILRB4_uc002qgr.2_Missense_Mutation_p.P478T|LILRB4_uc010ert.2_Missense_Mutation_p.P477T|LILRB4_uc010eru.2_Missense_Mutation_p.P466T	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	436	Cytoplasmic (Potential).					integral to membrane|plasma membrane	antigen binding|receptor activity			ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)		AGGGGCCTCTCCAGCTGAGCC	0.602													49	98	---	---	---	---	PASS	A	55179429	A	A	55179429	3	1	58	1	0	0	0	0	1	0	0	0	8793	855	30	2	1352	2	LILRB4	19	55179429	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	331015	55179429	3949554	1315	22690										
KIR2DL4	3805	broad.mit.edu	37	chr19	55315366	55315366	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggttcttcttggaccagagtGtgtgggcacacgtgggtgag	17	7	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:55315366G>T	uc010yfm.1	+	2	101	c.61G>T	c.(61-63)GTG>TTG	p.V21L	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL4_uc010yfl.1_Missense_Mutation_p.V16L|KIR2DL4_uc002qhg.2_Missense_Mutation_p.V21L|KIR2DL4_uc002qhi.2_Missense_Mutation_p.V21L|KIR2DL4_uc002qhh.2_Missense_Mutation_p.V21L|KIR2DL4_uc002qhj.2_Missense_Mutation_p.V21L|KIR2DL4_uc002qhf.2_Missense_Mutation_p.V21L|KIR2DL4_uc010esd.2_Missense_Mutation_p.V21L|KIR2DL4_uc010ese.2_5'Flank	NM_002255	NP_002246	Q99706	KI2L4_HUMAN	killer cell immunoglobulin-like receptor, two	21					cellular defense response|regulation of immune response	integral to plasma membrane	protein binding|transmembrane receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0192)		GGACCAGAGTGTGTGGGCACA	0.532													82	113	---	---	---	---	PASS	T	55315366	T	T	55315366	3	4	58	1	0	0	0	0	1	0	0	0	8318	1377	48	3	67	3	KIR2DL4	19	55315366	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	135937	55315366	3813617	1316	22691										
NLRP13	126204	broad.mit.edu	37	chr19	56443408	56443408	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtgaggtcagattcattgtCtggaagatgccgaggaccac	13	8	3	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:56443408C>A	uc010ygg.1	-	1	295	c.270G>T	c.(268-270)CAG>CAT	p.Q90H		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	90	DAPIN.						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)		GATTCATTGTCTGGAAGATGC	0.512													24	107	---	---	---	---	PASS	A	56443408	A	A	56443408	3	1	58	1	0	0	0	0	1	0	0	0	10475	912	32	2	2903	2	NLRP13	19	56443408	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1128042	56443408	2685575	1317	22692										
NLRP8	126205	broad.mit.edu	37	chr19	56466446	56466446	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagatttacctcttggcagaCatgcaagcccttgctgaaat	8	10	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:56466446C>A	uc002qmh.2	+	3	1093	c.1022C>A	c.(1021-1023)ACA>AAA	p.T341K	NLRP8_uc010etg.2_Missense_Mutation_p.T341K	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	341	NACHT.					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)		TCTTGGCAGACATGCAAGCCC	0.458													79	95	---	---	---	---	PASS	A	56466446	A	A	56466446	3	1	58	1	0	0	0	0	1	0	0	0	10483	478	17	3	1032	3	NLRP8	19	56466446	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	23038	56466446	2662537	1318	22693										
NLRP8	126205	broad.mit.edu	37	chr19	56487655	56487655	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgaagaaccctgactgtacAttacagatcctggagtaagt	9	9	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:56487655A>G	uc002qmh.2	+	8	2933	c.2862A>G	c.(2860-2862)ACA>ACG	p.T954T	NLRP8_uc010etg.2_Silent_p.T935T	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	954						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)		CTGACTGTACATTACAGATCC	0.453													49	62	---	---	---	---	PASS	G	56487655	G	G	56487655	2	3	58	1	0	0	0	0	0	0	0	1	10483	204	8	5		5	NLRP8	19	56487655	Silent	SNP	A	TCGA-33-4566-01A-01D-1441-08	21209	56487655	2641328	1319	22694										
ZNF470	388566	broad.mit.edu	37	chr19	57086048	57086048	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgtgatctccttactggagCaagagaaagacccttgggtg	12	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:57086048C>A	uc002qnl.3	+	5	905	c.229C>A	c.(229-231)CAA>AAA	p.Q77K	ZNF470_uc010etn.2_RNA	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	77	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		CTTACTGGAGCAAGAGAAAGA	0.418													20	70	---	---	---	---	PASS	A	57086048	A	A	57086048	3	1	58	1	0	0	0	0	1	0	0	0	17926	711	25	3	239	3	ZNF470	19	57086048	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	598393	57086048	2042935	1320	22695										
ZNF835	90485	broad.mit.edu	37	chr19	57175464	57175464	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agcggttgctgaagcgcttgCcgcagtcgtggcaggggtaa	17	9	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:57175464C>G	uc010ygo.1	-	2	1169	c.1169G>C	c.(1168-1170)GGC>GCC	p.G390A	ZNF835_uc010ygn.1_Missense_Mutation_p.G368A	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						GAAGCGCTTGCCGCAGTCGTG	0.701													5	22	---	---	---	---	PASS	G	57175464	G	G	57175464	3	3	58	1	0	0	0	0	1	0	0	0	18183	739	26	4	512	4	ZNF835	19	57175464	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	89416	57175464	1953519	1321	22696										
USP29	57663	broad.mit.edu	37	chr19	57642468	57642468	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acacaagaggtgaagccaagGaactaacaagaaacgtgaag	11	7	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:57642468G>T	uc002qny.2	+	4	2781	c.2425G>T	c.(2425-2427)GAA>TAA	p.E809*		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	809					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGAAGCCAAGGAACTAACAAG	0.478													16	24	---	---	---	---	PASS	T	57642468	T	T	57642468	4	4	58	1	0	0	0	0	0	1	0	0	17056	1175	41	2	2427	2	USP29	19	57642468	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	467004	57642468	1486515	1322	22697										
ZIM3	114026	broad.mit.edu	37	chr19	57646928	57646928	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caggatgatttccaggaaaaGgcttttccacatgtcttaca	8	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:57646928G>T	uc002qnz.1	-	5	1163	c.777C>A	c.(775-777)GCC>GCA	p.A259A		NM_052882	NP_443114	Q96PE6	ZIM3_HUMAN	zinc finger, imprinted 3	259	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.243)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TCCAGGAAAAGGCTTTTCCAC	0.368													65	142	---	---	---	---	PASS	T	57646928	T	T	57646928	2	4	58	1	0	0	0	0	0	0	0	1	17682	987	35	3		3	ZIM3	19	57646928	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	4460	57646928	1482055	1323	22698										
ZNF304	57343	broad.mit.edu	37	chr19	57868780	57868780	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtggtaaattcttcagccatAgctccaaccttattgtacac	6	11	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:57868780A>T	uc010ygw.1	+	3	1931	c.1543A>T	c.(1543-1545)AGC>TGC	p.S515C	ZNF304_uc010etw.2_Missense_Mutation_p.S562C|ZNF304_uc010etx.2_Missense_Mutation_p.S473C	NM_020657	NP_065708	Q9HCX3	ZN304_HUMAN	zinc finger protein 304	515	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0265)		CTTCAGCCATAGCTCCAACCT	0.443													11	39	---	---	---	---	PASS	T	57868780	T	T	57868780	3	4	58	1	0	0	0	0	1	0	0	0	17830	420	15	5	1553	5	ZNF304	19	57868780	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	221852	57868780	1260203	1324	22699										
ZNF417	147687	broad.mit.edu	37	chr19	58420355	58420355	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	attgtaaggtctttccccagTgtgaagtctctggtgttcag	11	8	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:58420355T>C	uc002qqq.2	-	3	1490	c.1291A>G	c.(1291-1293)ACT>GCT	p.T431A	ZNF417_uc010yhm.1_Missense_Mutation_p.T388A|ZNF417_uc002qqr.2_Missense_Mutation_p.T430A	NM_152475	NP_689688	Q8TAU3	ZN417_HUMAN	zinc finger protein 417	431					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0151)		CTTTCCCCAGTGTGAAGTCTC	0.443													65	81	---	---	---	---	PASS	C	58420355	C	C	58420355	3	2	58	1	0	0	0	0	1	0	0	0	17891	1696	59	5	440	5	ZNF417	19	58420355	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	551575	58420355	708628	1325	22700										
ZSCAN1	284312	broad.mit.edu	37	chr19	58565188	58565188	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggcaaggtcttcctgcacaaCtccgtcctcactgagcatgg	10	14	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:58565188C>G	uc002qrc.1	+	6	1243	c.996C>G	c.(994-996)AAC>AAG	p.N332K		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	332	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TCCTGCACAACTCCGTCCTCA	0.637													36	55	---	---	---	---	PASS	G	58565188	G	G	58565188	3	3	58	1	0	0	0	0	1	0	0	0	18223	564	20	4	1010	4	ZSCAN1	19	58565188	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	144833	58565188	563795	1326	22701										
ZNF135	7694	broad.mit.edu	37	chr19	58578318	58578318	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcacgcctgtgaagacgcctGttctggagcagtggcagagg	15	10	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:58578318G>C	uc010yhq.1	+	5	598	c.502G>C	c.(502-504)GTT>CTT	p.V168L	ZNF135_uc002qre.2_Missense_Mutation_p.V156L|ZNF135_uc002qrd.1_Missense_Mutation_p.V114L|ZNF135_uc002qrf.2_Missense_Mutation_p.V114L|ZNF135_uc002qrg.2_Missense_Mutation_p.V126L|ZNF135_uc010yhr.1_5'UTR	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	168					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		GAAGACGCCTGTTCTGGAGCA	0.557													39	66	---	---	---	---	PASS	C	58578318	C	C	58578318	3	2	58	1	0	0	0	0	1	0	0	0	17722	1377	48	4	669	4	ZNF135	19	58578318	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	13130	58578318	550665	1327	22702										
ZNF329	79673	broad.mit.edu	37	chr19	58639368	58639368	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccctgctatggagtctctgAtgtactgccaggtgagagtt	12	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr19:58639368A>C	uc002qrn.2	-	4	1740	c.1503T>G	c.(1501-1503)CAT>CAG	p.H501Q	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	501	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		GGAGTCTCTGATGTACTGCCA	0.512													61	221	---	---	---	---	PASS	C	58639368	C	C	58639368	3	2	58	1	0	0	0	0	1	0	0	0	17844	330	12	5	126	5	ZNF329	19	58639368	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	61050	58639368	489615	1328	22703										
DEFB128	245939	broad.mit.edu	37	chr20	170231	170231	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttacctgtgagtacctcaaAcagcagaataatgagaacca	8	9	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:170231A>T	uc002wcz.1	-	1	34	c.34T>A	c.(34-36)TTT>ATT	p.F12I		NM_001037732	NP_001032821	Q7Z7B8	DB128_HUMAN	beta-defensin 128 precursor	12					defense response to bacterium	extracellular region				breast(1)	1		all_cancers(10;0.00499)|Lung NSC(37;0.227)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			AGTACCTCAAACAGCAGAATA	0.383													71	77	---	---	---	---	PASS	T	170231	T	T	170231	3	4	58	1	0	0	0	0	1	0	0	0	4414	43	2	5	255	5	DEFB128	20	170231	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08		170231	62855289	1329	22704										
TRIB3	57761	broad.mit.edu	37	chr20	377002	377002	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccgatgtctggagcctgggcGtggcgctcttcaccatgctg	14	13	3	0	rs141572809	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:377002G>T	uc002wdm.2	+	4	1251	c.745G>T	c.(745-747)GTG>TTG	p.V249L	TRIB3_uc002wdn.2_Missense_Mutation_p.V276L	NM_021158	NP_066981	Q96RU7	TRIB3_HUMAN	tribbles 3	249	Protein kinase.				apoptosis|cellular lipid metabolic process|insulin receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fatty acid biosynthetic process|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein binding|positive regulation of ubiquitin-protein ligase activity|regulation of glucose transport|regulation of MAP kinase activity|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	ATP binding|protein kinase activity|protein kinase binding|protein kinase inhibitor activity|transcription corepressor activity|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			central_nervous_system(2)	2		all_epithelial(17;0.165)|Lung NSC(37;0.191)|Breast(17;0.231)		Colorectal(46;0.101)|COAD - Colon adenocarcinoma(99;0.112)		GAGCCTGGGCGTGGCGCTCTT	0.667													30	24	---	---	---	---	PASS	T	377002	T	T	377002	3	4	58	1	0	0	0	0	1	0	0	0	16481	1145	40	1	755	1	TRIB3	20	377002	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	206771	377002	62648518	1330	22705										
TGM6	343641	broad.mit.edu	37	chr20	2375200	2375200	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggtggttcgcaggggccagtCgttcagcctcacgctggagc	16	12	2	0	rs140181785	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:2375200C>A	uc002wfy.1	+	2	171	c.110C>A	c.(109-111)TCG>TAG	p.S37*	TGM6_uc010gal.1_Nonsense_Mutation_p.S37*	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	37					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	AGGGGCCAGTCGTTCAGCCTC	0.617													10	8	---	---	---	---	PASS	A	2375200	A	A	2375200	4	1	58	1	0	0	0	0	0	1	0	0	15831	893	31	2	116	2	TGM6	20	2375200	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1998198	2375200	60650320	1331	22706										
TGM6	343641	broad.mit.edu	37	chr20	2398085	2398085	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccacgacctgagactggcccTgtgcttggccaacctcacct	9	17	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:2398085T>A	uc002wfy.1	+	10	1605	c.1544T>A	c.(1543-1545)CTG>CAG	p.L515Q	TGM6_uc010gal.1_Missense_Mutation_p.L515Q	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	515					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	AGACTGGCCCTGTGCTTGGCC	0.642													27	14	---	---	---	---	PASS	A	2398085	A	A	2398085	3	1	58	1	0	0	0	0	1	0	0	0	15831	1580	55	5	1582	5	TGM6	20	2398085	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	22885	2398085	60627435	1332	22707										
IDH3B	3420	broad.mit.edu	37	chr20	2641176	2641176	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atagtcaaaggcgaactttgCaatccgctgagacttggctc	10	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:2641176C>A	uc002wgp.2	-	7	601	c.592G>T	c.(592-594)GCA>TCA	p.A198S	IDH3B_uc002wgq.2_Missense_Mutation_p.A198S|IDH3B_uc002wgr.2_Missense_Mutation_p.A46S|IDH3B_uc010zpz.1_3'UTR	NM_006899	NP_008830	O43837	IDH3B_HUMAN	isocitrate dehydrogenase 3, beta subunit isoform	198					isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	electron carrier activity|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0					NADH(DB00157)	GCGAACTTTGCAATCCGCTGA	0.527													51	31	---	---	---	---	PASS	A	2641176	A	A	2641176	3	1	58	1	0	0	0	0	1	0	0	0	7497	710	25	3	674	3	IDH3B	20	2641176	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	243091	2641176	60384344	1333	22708										
CPXM1	56265	broad.mit.edu	37	chr20	2774982	2774982	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggggccctcttcaaaggtgaCccgacagttccgtgtcactg	12	13	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:2774982C>A	uc002wgu.2	-	14	2123	c.2059G>T	c.(2059-2061)GTC>TTC	p.V687F	CPXM1_uc010gas.2_Missense_Mutation_p.V613F	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	687					cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						TCAAAGGTGACCCGACAGTTC	0.627													34	30	---	---	---	---	PASS	A	2774982	A	A	2774982	3	1	58	1	0	0	0	0	1	0	0	0	3837	507	18	3	149	3	CPXM1	20	2774982	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	133806	2774982	60250538	1334	22709										
CPXM1	56265	broad.mit.edu	37	chr20	2775967	2775967	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtctttgttgttctcccactCctggggcaattcattctcgt	8	12	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:2775967C>A	uc002wgu.2	-	12	1880	c.1816G>T	c.(1816-1818)GAG>TAG	p.E606*	CPXM1_uc010gas.2_Nonsense_Mutation_p.E532*	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	606					cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						TTCTCCCACTCCTGGGGCAAT	0.552													46	30	---	---	---	---	PASS	A	2775967	A	A	2775967	4	1	58	1	0	0	0	0	0	1	0	0	3837	864	30	2	400	2	CPXM1	20	2775967	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	985	2775967	60249553	1335	22710										
C20orf194	25943	broad.mit.edu	37	chr20	3233244	3233244	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttcagctcaaagaggtcatGatactcctgctgttccagct	8	12	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:3233244G>C	uc002wii.2	-	37	3559	c.3508C>G	c.(3508-3510)CAT>GAT	p.H1170D	C20orf194_uc002wij.3_Missense_Mutation_p.H909D|C20orf194_uc002wik.2_Missense_Mutation_p.H844D	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	1170											0						AAGAGGTCATGATACTCCTGC	0.507													76	69	---	---	---	---	PASS	C	3233244	C	C	3233244	3	2	58	1	0	0	0	0	1	0	0	0	2099	1290	45	2	29	2	C20orf194	20	3233244	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	457277	3233244	59792276	1336	22711										
ADAM33	80332	broad.mit.edu	37	chr20	3660146	3660146	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acatggcactgaccggctccTccaggctgacggtgcgccag	13	15	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:3660146T>G	uc002wit.2	-	2	257	c.170A>C	c.(169-171)GAG>GCG	p.E57A	ADAM33_uc002wir.1_Missense_Mutation_p.E57A|ADAM33_uc002wiu.2_Missense_Mutation_p.E57A|ADAM33_uc002wiw.1_RNA|ADAM33_uc010gba.1_Missense_Mutation_p.E57A|ADAM33_uc010gbb.1_Missense_Mutation_p.E57A|ADAM33_uc002wix.1_Missense_Mutation_p.E57A|ADAM33_uc010zqg.1_Missense_Mutation_p.E57A|ADAM33_uc010zqh.1_Missense_Mutation_p.E57A|ADAM33_uc002wiy.2_Missense_Mutation_p.E57A	NM_025220	NP_079496	Q9BZ11	ADA33_HUMAN	ADAM metallopeptidase domain 33 isoform alpha	57	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|ovary(1)|skin(1)	4						GACCGGCTCCTCCAGGCTGAC	0.612													9	12	---	---	---	---	PASS	G	3660146	G	G	3660146	3	3	58	1	0	0	0	0	1	0	0	0	250	1551	54	5	2355	5	ADAM33	20	3660146	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	426902	3660146	59365374	1337	22712										
SPEF1	25876	broad.mit.edu	37	chr20	3759136	3759136	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggaggacgaagctggggtCgccctgcaacgcccggttat	15	12	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:3759136C>A	uc002wjj.2	-	6	703	c.535G>T	c.(535-537)GAC>TAC	p.D179Y		NM_015417	NP_056232	Q9Y4P9	SPEF1_HUMAN	calponin-homology and microtubule-associated	179						cilium axoneme|cytoplasm|cytoskeleton					0						AAGCTGGGGTCGCCCTGCAAC	0.677													17	9	---	---	---	---	PASS	A	3759136	A	A	3759136	3	1	58	1	0	0	0	0	1	0	0	0	15033	884	31	2	183	2	SPEF1	20	3759136	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	98990	3759136	59266384	1338	22713										
C20orf29	55317	broad.mit.edu	37	chr20	3802836	3802836	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acgggcctttgccgagtgctGtactcctgcgtcttcggtgc	13	13	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:3802836G>C	uc002wjs.1	+	2	250	c.72G>C	c.(70-72)CTG>CTC	p.L24L	C20orf29_uc002wjt.2_5'UTR|C20orf29_uc002wju.1_Silent_p.L24L	NM_018347	NP_060817	Q9NUS5	CT029_HUMAN	hypothetical protein LOC55317	24					double-strand break repair via homologous recombination		protein binding			skin(1)	1						GCCGAGTGCTGTACTCCTGCG	0.602													38	33	---	---	---	---	PASS	C	3802836	C	C	3802836	2	2	58	1	0	0	0	0	0	0	0	1	2108	1364	48	4		4	C20orf29	20	3802836	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	43700	3802836	59222684	1339	22714										
PROKR2	128674	broad.mit.edu	37	chr20	5283322	5283322	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accatccagaccaaggcgatCaggaaggaggccgtttgata	12	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:5283322C>A	uc010zqw.1	-	2	519	c.519G>T	c.(517-519)CTG>CTT	p.L173L	PROKR2_uc010zqx.1_Silent_p.L173L|PROKR2_uc010zqy.1_Silent_p.L173L	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	173	Helical; Name=4; (Potential).		L -> R (in KAL3).			integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						CCAAGGCGATCAGGAAGGAGG	0.488										HNSCC(71;0.22)			89	98	---	---	---	---	PASS	A	5283322	A	A	5283322	2	1	58	1	0	0	0	0	0	0	0	1	12553	813	29	2		2	PROKR2	20	5283322	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	1480486	5283322	57742198	1340	22715										
BMP2	650	broad.mit.edu	37	chr20	6750875	6750875	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgggccgcaggaagttcgcGgcggcgtcgtcgggccgccc	18	15	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:6750875G>T	uc002wmu.1	+	2	887	c.102G>T	c.(100-102)GCG>GCT	p.A34A		NM_001200	NP_001191	P12643	BMP2_HUMAN	bone morphogenetic protein 2 preproprotein	34					BMP signaling pathway involved in heart induction|bone mineralization involved in bone maturation|cardiac cell differentiation|cardiac epithelial to mesenchymal transition|cartilage development|growth|negative regulation of cell cycle|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|pathway-restricted SMAD protein phosphorylation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cartilage development|positive regulation of endothelial cell proliferation|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of phosphatase activity|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	activin receptor activity, type II|BMP receptor binding|cytokine activity|growth factor activity|phosphatase activator activity|protein heterodimerization activity|SMAD binding|transforming growth factor beta receptor binding			ovary(1)|breast(1)	2					Simvastatin(DB00641)	GGAAGTTCGCGGCGGCGTCGT	0.687													4	2	---	---	---	---	PASS	T	6750875	T	T	6750875	2	4	58	1	0	0	0	0	0	0	0	1	1459	1103	39	1		1	BMP2	20	6750875	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1467553	6750875	56274645	1341	22716										
CSTL1	128817	broad.mit.edu	37	chr20	23424651	23424651	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aatgacacgagcaattcttcCtgccccctgcaaagcaagaa	7	13	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:23424651C>A	uc002wte.2	+	3	546	c.300C>A	c.(298-300)TCC>TCA	p.S100S	CSTL1_uc010zsu.1_RNA|CSTL1_uc010zsv.1_RNA	NM_138283	NP_612140	Q9H114	CST1L_HUMAN	cystatin-like 1 precursor	100						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0993)|Lung NSC(19;0.235)					GCAATTCTTCCTGCCCCCTGC	0.468													13	22	---	---	---	---	PASS	A	23424651	A	A	23424651	2	1	58	1	0	0	0	0	0	0	0	1	3987	668	24	3		3	CSTL1	20	23424651	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	16673776	23424651	39600869	1342	22717										
CST11	140880	broad.mit.edu	37	chr20	23433221	23433221	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcgggaagtcatacactcacCtgcctctggactttaaggac	10	12	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:23433221C>A	uc002wtf.1	-	1	262	c.228G>T	c.(226-228)CAG>CAT	p.Q76H	CST11_uc002wtg.1_Missense_Mutation_p.Q76H	NM_130794	NP_570612	Q9H112	CST11_HUMAN	cystatin 11 isoform 1 precursor	76	Secondary area of contact (Potential).				defense response to bacterium	cytoplasm|nucleus	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					ATACACTCACCTGCCTCTGGA	0.527													48	34	---	---	---	---	PASS	A	23433221	A	A	23433221	3	1	58	1	0	0	0	0	1	0	0	0	3971	695	24	3	200	3	CST11	20	23433221	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	8570	23433221	39592299	1343	22718										
NANP	140838	broad.mit.edu	37	chr20	25596915	25596915	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgggtctgtctgtccccattCgttaatagaagtaggcggac	12	9	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:25596915C>A	uc002wuy.2	-	2	457	c.393G>T	c.(391-393)ACG>ACT	p.T131T		NM_152667	NP_689880	Q8TBE9	NANP_HUMAN	N-acetylneuraminic acid phosphatase	131	Substrate binding.				N-acetylneuraminate biosynthetic process		N-acylneuraminate-9-phosphatase activity|phosphoglycolate phosphatase activity				0						TGTCCCCATTCGTTAATAGAA	0.473													4	106	---	---	---	---	PASS	A	25596915	A	A	25596915	2	1	58	1	0	0	0	0	0	0	0	1	10154	871	31	2		2	NANP	20	25596915	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2163694	25596915	37428605	1344	22719										
REM1	28954	broad.mit.edu	37	chr20	30070204	30070204	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgagctccgcatccagctgCggcgcacacatcaggcagac	11	16	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:30070204C>A	uc002wwa.2	+	4	822	c.538C>A	c.(538-540)CGG>AGG	p.R180R		NM_014012	NP_054731	O75628	REM1_HUMAN	RAS-like GTP-binding protein REM	180					small GTPase mediated signal transduction	membrane	calmodulin binding|GTP binding|GTPase activity			lung(2)|pancreas(2)	4	all_cancers(5;0.000119)|Lung NSC(7;1.32e-05)|all_lung(7;2.14e-05)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			CATCCAGCTGCGGCGCACACA	0.607													63	42	---	---	---	---	PASS	A	30070204	A	A	30070204	2	1	58	1	0	0	0	0	0	0	0	1	13222	759	27	1		1	REM1	20	30070204	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	4473289	30070204	32955316	1345	22720										
PLUNC	51297	broad.mit.edu	37	chr20	31828181	31828181	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggaagcctgcaaatttctCtgcttgatgggtgaggccag	13	9	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:31828181C>A	uc002wyv.2	+	5	641	c.571C>A	c.(571-573)CTG>ATG	p.L191M	PLUNC_uc002wyt.3_Missense_Mutation_p.L191M|PLUNC_uc002wyu.3_Missense_Mutation_p.L191M	NM_130852	NP_570913	Q9NP55	PLUNC_HUMAN	palate, lung and nasal epithelium associated	191					innate immune response	extracellular region	lipid binding				0						GCAAATTTCTCTGCTTGATGG	0.517													115	128	---	---	---	---	PASS	A	31828181	A	A	31828181	3	1	58	1	0	0	0	0	1	0	0	0	12115	912	32	2	585	2	PLUNC	20	31828181	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1757977	31828181	31197339	1346	22721										
MYH7B	57644	broad.mit.edu	37	chr20	33585348	33585348	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggagcaggtggacagcctgCagcgggtgcggcagaagctg	20	9	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:33585348C>A	uc002xbi.1	+	30	3870	c.3778C>A	c.(3778-3780)CAG>AAG	p.Q1260K		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	1218	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			GGACAGCCTGCAGCGGGTGCG	0.706													7	3	---	---	---	---	PASS	A	33585348	A	A	33585348	3	1	58	1	0	0	0	0	1	0	0	0	10040	711	25	3	3896	3	MYH7B	20	33585348	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1757167	33585348	29440172	1347	22722										
RBL1	5933	broad.mit.edu	37	chr20	35635932	35635932	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctttcactggtccactggaaCagtcaggtgtttttgtagca	10	9	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:35635932C>G	uc002xgi.2	-	20	2832	c.2753G>C	c.(2752-2754)TGT>TCT	p.C918S	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.C918S	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	918	Domain B.|Pocket; binds T and E1A.				cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				TCCACTGGAACAGTCAGGTGT	0.294													36	44	---	---	---	---	PASS	G	35635932	G	G	35635932	3	3	58	1	0	0	0	0	1	0	0	0	13109	478	17	4	474	4	RBL1	20	35635932	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2050584	35635932	27389588	1348	22723										
IFT52	51098	broad.mit.edu	37	chr20	42242569	42242569	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cggttctgtctacaggttctGtctgcttcccacttaacaga	8	12	4	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:42242569G>C	uc002xkw.2	+	7	687	c.565G>C	c.(565-567)GTC>CTC	p.V189L	IFT52_uc010zwi.1_RNA|IFT52_uc002xky.2_Missense_Mutation_p.V189L|IFT52_uc002xkx.2_RNA|IFT52_uc010ggn.2_Missense_Mutation_p.V165L|IFT52_uc002xkz.2_Missense_Mutation_p.V189L	NM_016004	NP_057088	Q9Y366	IFT52_HUMAN	intraflagellar transport 52 homolog	189						intraflagellar transport particle B|microtubule-based flagellum	protein C-terminus binding			ovary(2)	2		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TACAGGTTCTGTCTGCTTCCC	0.388													43	40	---	---	---	---	PASS	C	42242569	C	C	42242569	3	2	58	1	0	0	0	0	1	0	0	0	7561	1377	48	4	587	4	IFT52	20	42242569	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6606637	42242569	20782951	1349	22724										
GDAP1L1	78997	broad.mit.edu	37	chr20	42885970	42885970	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agatcattgactatgtggagCgcaccttcacaggaggtacg	12	9	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:42885970C>A	uc002xlq.2	+	2	425	c.358C>A	c.(358-360)CGC>AGC	p.R120S	GDAP1L1_uc002xlp.1_Missense_Mutation_p.R120S|GDAP1L1_uc010zwl.1_Missense_Mutation_p.R120S|GDAP1L1_uc010zwm.1_Missense_Mutation_p.R120S|GDAP1L1_uc010zwn.1_Intron	NM_024034	NP_076939	Q96MZ0	GD1L1_HUMAN	ganglioside-induced differentiation-associated	120	GST N-terminal.									large_intestine(1)	1		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			CTATGTGGAGCGCACCTTCAC	0.607													24	22	---	---	---	---	PASS	A	42885970	A	A	42885970	3	1	58	1	0	0	0	0	1	0	0	0	6308	768	27	1	364	1	GDAP1L1	20	42885970	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	643401	42885970	20139550	1350	22725										
ZSWIM3	140831	broad.mit.edu	37	chr20	44506325	44506325	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggttcacctgtgaactgctGtggtacatgcatgttaggaa	12	7	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:44506325G>T	uc002xqd.2	+	2	1331	c.1128G>T	c.(1126-1128)CTG>CTT	p.L376L	ZSWIM3_uc010zxg.1_Silent_p.L370L	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	376							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				GTGAACTGCTGTGGTACATGC	0.532													41	29	---	---	---	---	PASS	T	44506325	T	T	44506325	2	4	58	1	0	0	0	0	0	0	0	1	18239	1364	48	3		3	ZSWIM3	20	44506325	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1620355	44506325	18519195	1351	22726										
MMP9	4318	broad.mit.edu	37	chr20	44645004	44645004	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atcctgcagtgccctgaggaCtagggctcccgtcctgcttt	11	14	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:44645004C>A	uc002xqz.2	+	13	2140	c.2121C>A	c.(2119-2121)GAC>GAA	p.D707E		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	707					collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	GCCCTGAGGACTAGGGCTCCC	0.577													20	27	---	---	---	---	PASS	A	44645004	A	A	44645004	3	1	58	1	0	0	0	0	1	0	0	0	9669	564	20	3	2171	3	MMP9	20	44645004	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	138679	44645004	18380516	1352	22727										
SLC12A5	57468	broad.mit.edu	37	chr20	44671797	44671797	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tctgtctccccacagagaacCtctggagctcctacctgacc	7	17	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:44671797C>A	uc010zxl.1	+	9	1217	c.1141C>A	c.(1141-1143)CTC>ATC	p.L381I	SLC12A5_uc010zxm.1_Intron|SLC12A5_uc002xrb.2_Missense_Mutation_p.L358I	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	381	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	CACAGAGAACCTCTGGAGCTC	0.607													92	76	---	---	---	---	PASS	A	44671797	A	A	44671797	3	1	58	1	0	0	0	0	1	0	0	0	14386	681	24	3	1231	3	SLC12A5	20	44671797	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	26793	44671797	18353723	1353	22728										
SLC12A5	57468	broad.mit.edu	37	chr20	44685005	44685005	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgcttcattcatccctcaggTgcagctgatccacgatcaga	8	14	4	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:44685005T>A	uc010zxl.1	+	23	3057	c.2981T>A	c.(2980-2982)GTG>GAG	p.V994E	SLC12A5_uc002xrb.2_Missense_Mutation_p.V971E	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	994	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	ATCCCTCAGGTGCAGCTGATC	0.632													19	11	---	---	---	---	PASS	A	44685005	A	A	44685005	3	1	58	1	0	0	0	0	1	0	0	0	14386	1710	59	5	3127	5	SLC12A5	20	44685005	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	13208	44685005	18340515	1354	22729										
EYA2	2139	broad.mit.edu	37	chr20	45702822	45702822	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccttcctaccccggcttccCccagagccagtacccccagt	6	21	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:45702822C>A	uc002xsm.2	+	7	883	c.509C>A	c.(508-510)CCC>CAC	p.P170H	EYA2_uc010ghp.2_Missense_Mutation_p.P170H|EYA2_uc002xsn.2_Missense_Mutation_p.P175H|EYA2_uc002xso.2_Missense_Mutation_p.P170H|EYA2_uc002xsp.2_Missense_Mutation_p.P170H|EYA2_uc002xsq.2_Missense_Mutation_p.P170H	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a	170					DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)				CCCGGCTTCCCCCAGAGCCAG	0.597													69	48	---	---	---	---	PASS	A	45702822	A	A	45702822	3	1	58	1	0	0	0	0	1	0	0	0	5329	623	22	3	531	3	EYA2	20	45702822	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1017817	45702822	17322698	1355	22730										
SULF2	55959	broad.mit.edu	37	chr20	46294641	46294641	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgtggtctttccaggcctgcAgggacttgtacaggtccagg	14	10	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:46294641A>G	uc002xto.2	-	13	2192	c.1862T>C	c.(1861-1863)CTG>CCG	p.L621P	SULF2_uc002xtr.2_Missense_Mutation_p.L621P|SULF2_uc002xtq.2_Missense_Mutation_p.L621P|SULF2_uc010zyd.1_5'Flank	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	621					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						CCAGGCCTGCAGGGACTTGTA	0.617													47	50	---	---	---	---	PASS	G	46294641	G	G	46294641	3	3	58	1	0	0	0	0	1	0	0	0	15370	188	7	5	786	5	SULF2	20	46294641	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	591819	46294641	16730879	1356	22731										
PREX1	57580	broad.mit.edu	37	chr20	47444245	47444245	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagatctcgttgaggacgcaGaggcggaggcgcagctggcg	18	9	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:47444245G>A	uc002xtw.1	-	1	176	c.153C>T	c.(151-153)CTC>CTT	p.L51L		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	51	DH.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			TGAGGACGCAGAGGCGGAGGC	0.413													14	6	---	---	---	---	PASS	A	47444245	A	A	47444245	2	1	58	1	0	0	0	0	0	0	0	1	12476	929	33	2		2	PREX1	20	47444245	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1149604	47444245	15581275	1357	22732										
FAM65C	140876	broad.mit.edu	37	chr20	49221208	49221208	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtatctctcccggaagctggGggtgctcgggggtgtccagt	17	10	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:49221208G>T	uc002xvm.2	-	12	1366	c.1048C>A	c.(1048-1050)CCC>ACC	p.P350T	FAM65C_uc010zyt.1_Missense_Mutation_p.P354T|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Missense_Mutation_p.P350T	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	350										ovary(2)	2						CGGAAGCTGGGGGTGCTCGGG	0.632													30	28	---	---	---	---	PASS	T	49221208	T	T	49221208	3	4	58	1	0	0	0	0	1	0	0	0	5601	1232	43	3	1836	3	FAM65C	20	49221208	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1776963	49221208	13804312	1358	22733										
SALL4	57167	broad.mit.edu	37	chr20	50401059	50401059	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agcatgctggtgtactggttCcacacaacagggtccacatt	10	11	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:50401059C>A	uc002xwh.3	-	4	3008	c.2907G>T	c.(2905-2907)TGG>TGT	p.W969C	SALL4_uc010gii.2_Missense_Mutation_p.W532C|SALL4_uc002xwi.3_Missense_Mutation_p.W192C	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	969					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TGTACTGGTTCCACACAACAG	0.532													63	69	---	---	---	---	PASS	A	50401059	A	A	50401059	3	1	58	1	0	0	0	0	1	0	0	0	13813	856	30	2	258	2	SALL4	20	50401059	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1179851	50401059	12624461	1359	22734										
ZFP64	55734	broad.mit.edu	37	chr20	50769287	50769287	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttggctgggctggaggggcaCctggaggtgtcccacagtga	18	9	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:50769287C>G	uc002xwl.2	-	6	1793	c.1444G>C	c.(1444-1446)GTG>CTG	p.V482L	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.V480L|ZFP64_uc002xwn.2_Missense_Mutation_p.V428L	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	482					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						TGGAGGGGCACCTGGAGGTGT	0.607													17	37	---	---	---	---	PASS	G	50769287	G	G	50769287	3	3	58	1	0	0	0	0	1	0	0	0	17649	507	18	4	1796	4	ZFP64	20	50769287	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	368228	50769287	12256233	1360	22735										
TSHZ2	128553	broad.mit.edu	37	chr20	51872902	51872902	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	accagcaaagcaaggtggagCaagagatctcccgggtatcg	13	10	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:51872902C>G	uc002xwo.2	+	2	3861	c.2905C>G	c.(2905-2907)CAA>GAA	p.Q969E		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	969					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CAAGGTGGAGCAAGAGATCTC	0.502													26	38	---	---	---	---	PASS	G	51872902	G	G	51872902	3	3	58	1	0	0	0	0	1	0	0	0	16621	711	25	4	2911	4	TSHZ2	20	51872902	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1103615	51872902	11152618	1361	22736										
RAE1	8480	broad.mit.edu	37	chr20	55943782	55943782	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tataccccatggctgtggtgGcaactgcagagaggggcctg	15	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:55943782G>C	uc002xyg.2	+	8	897	c.556G>C	c.(556-558)GCA>CCA	p.A186P	RAE1_uc010gis.1_Missense_Mutation_p.A139P|RAE1_uc010git.1_Missense_Mutation_p.A186P|RAE1_uc002xyh.2_Missense_Mutation_p.A186P|RAE1_uc002xyi.2_Missense_Mutation_p.A186P	NM_003610	NP_003601	P78406	RAE1L_HUMAN	RAE1 (RNA export 1, S.pombe) homolog	186	WD 3.				carbohydrate metabolic process|glucose transport|mRNA export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|cytoskeleton|nuclear outer membrane|nuclear pore	microtubule binding|RNA binding				0	Lung NSC(12;0.00263)|all_lung(29;0.00828)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;3.7e-14)|Epithelial(14;1.07e-09)|all cancers(14;1.11e-08)			GGCTGTGGTGGCAACTGCAGA	0.433													24	98	---	---	---	---	PASS	C	55943782	C	C	55943782	3	2	58	1	0	0	0	0	1	0	0	0	12998	1203	42	4	582	4	RAE1	20	55943782	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	4070880	55943782	7081738	1362	22737										
APCDD1L	164284	broad.mit.edu	37	chr20	57035882	57035882	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaggccagccctagaactagGggcagaagtgggaagggggc	18	8	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:57035882G>T	uc002xze.1	-	4	1656	c.1470C>A	c.(1468-1470)CCC>CCA	p.P490P	APCDD1L_uc010zzp.1_Silent_p.P501P	NM_153360	NP_699191	Q8NCL9	APCDL_HUMAN	adenomatosis polyposis coli down-regulated	490	Helical; (Potential).					integral to membrane				ovary(1)	1	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)			CTAGAACTAGGGGCAGAAGTG	0.617													39	48	---	---	---	---	PASS	T	57035882	T	T	57035882	2	4	58	1	0	0	0	0	0	0	0	1	766	1219	43	3		3	APCDD1L	20	57035882	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1092100	57035882	5989638	1363	22738										
TUBB1	81027	broad.mit.edu	37	chr20	57599252	57599252	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcgcaagctggcggtgaacaTggtccccttcccccgcctgc	12	17	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:57599252T>C	uc002yak.2	+	4	1039	c.770T>C	c.(769-771)ATG>ACG	p.M257T		NM_030773	NP_110400	Q9H4B7	TBB1_HUMAN	beta tubulin 1, class VI	257					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity			ovary(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)		Colchicine(DB01394)|Docetaxel(DB01248)|Paclitaxel(DB01229)|Vindesine(DB00309)	GCGGTGAACATGGTCCCCTTC	0.642													27	78	---	---	---	---	PASS	C	57599252	C	C	57599252	3	2	58	1	0	0	0	0	1	0	0	0	16750	1464	51	5	784	5	TUBB1	20	57599252	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	563370	57599252	5426268	1364	22739										
SLMO2	51012	broad.mit.edu	37	chr20	57611616	57611616	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acggtaattatggcttcttgTgtcaaaacagttctggaaca	9	7	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:57611616T>A	uc002yam.2	-	5	491	c.375A>T	c.(373-375)ACA>ACT	p.T125T	SLMO2_uc010zzv.1_Silent_p.T95T	NM_016045	NP_057129	Q9Y3B1	SLMO2_HUMAN	slowmo homolog 2	125	PRELI/MSF1.									skin(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)			TGGCTTCTTGTGTCAAAACAG	0.383													42	172	---	---	---	---	PASS	A	57611616	A	A	57611616	2	1	58	1	0	0	0	0	0	0	0	1	14751	1683	59	5		5	SLMO2	20	57611616	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	12364	57611616	5413904	1365	22740										
ZNF831	128611	broad.mit.edu	37	chr20	57767530	57767530	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agtctcggcccctcttcttcCactccgtccccactcagctc	5	21	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:57767530C>A	uc002yan.2	+	1	1456	c.1456C>A	c.(1456-1458)CAC>AAC	p.H486N		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	486						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CCTCTTCTTCCACTCCGTCCC	0.687													18	62	---	---	---	---	PASS	A	57767530	A	A	57767530	3	1	58	1	0	0	0	0	1	0	0	0	18182	594	21	3	1458	3	ZNF831	20	57767530	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	155914	57767530	5257990	1366	22741										
ZNF831	128611	broad.mit.edu	37	chr20	57768676	57768676	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atcccggggaggtgccagggGgctcaaaggagagtgccagg	19	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:57768676G>T	uc002yan.2	+	1	2602	c.2602G>T	c.(2602-2604)GGC>TGC	p.G868C		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	868						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGTGCCAGGGGGCTCAAAGGA	0.657													23	88	---	---	---	---	PASS	T	57768676	T	T	57768676	3	4	58	1	0	0	0	0	1	0	0	0	18182	1232	43	3	2604	3	ZNF831	20	57768676	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1146	57768676	5256844	1367	22742										
PHACTR3	116154	broad.mit.edu	37	chr20	58330353	58330353	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cccagcccggaagccccttgGccactgggacggaccaggtc	13	17	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:58330353G>A	uc002yau.2	+	4	942	c.475G>A	c.(475-477)GCC>ACC	p.A159T	PHACTR3_uc002yat.2_Missense_Mutation_p.A156T|PHACTR3_uc010zzw.1_Missense_Mutation_p.A118T|PHACTR3_uc002yav.2_Missense_Mutation_p.A118T|PHACTR3_uc002yaw.2_Missense_Mutation_p.A118T|PHACTR3_uc002yax.2_Missense_Mutation_p.A118T	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	159						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			AAGCCCCTTGGCCACTGGGAC	0.612													18	57	---	---	---	---	PASS	A	58330353	A	A	58330353	3	1	58	1	0	0	0	0	1	0	0	0	11811	1203	42	3	489	3	PHACTR3	20	58330353	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	561677	58330353	4695167	1368	22743										
PHACTR3	116154	broad.mit.edu	37	chr20	58342374	58342374	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agacctctggagagatccgtGggccagctccccagcccccc	11	18	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:58342374G>T	uc002yau.2	+	5	1142	c.675G>T	c.(673-675)GTG>GTT	p.V225V	PHACTR3_uc002yat.2_Silent_p.V222V|PHACTR3_uc010zzw.1_Silent_p.V184V|PHACTR3_uc002yav.2_Silent_p.V184V|PHACTR3_uc002yaw.2_Silent_p.V184V|PHACTR3_uc002yax.2_Intron	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	225	Pro-rich.					nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			AGAGATCCGTGGGCCAGCTCC	0.627													36	93	---	---	---	---	PASS	T	58342374	T	T	58342374	2	4	58	1	0	0	0	0	0	0	0	1	11811	1335	47	3		3	PHACTR3	20	58342374	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	12021	58342374	4683146	1369	22744										
CDH4	1002	broad.mit.edu	37	chr20	60318840	60318840	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cctcgtccccgcactctggaCacaaggtaaggtgtgaccgc	11	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:60318840C>A	uc002ybn.1	+	3	405	c.391C>A	c.(391-393)CAC>AAC	p.H131N	CDH4_uc002ybo.1_RNA|CDH4_uc002ybp.1_Missense_Mutation_p.H57N	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	131					adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GCACTCTGGACACAAGGTAAG	0.642													8	24	---	---	---	---	PASS	A	60318840	A	A	60318840	3	1	58	1	0	0	0	0	1	0	0	0	3112	478	17	3	401	3	CDH4	20	60318840	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1976466	60318840	2706680	1370	22745										
CDH4	1002	broad.mit.edu	37	chr20	60427941	60427941	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tacaacggctccgtggacgaGggctccaagccaggtgaggc	15	12	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:60427941G>A	uc002ybn.1	+	6	878	c.864G>A	c.(862-864)GAG>GAA	p.E288E	CDH4_uc002ybp.1_Silent_p.E214E	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	288	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			CCGTGGACGAGGGCTCCAAGC	0.592													93	339	---	---	---	---	PASS	A	60427941	A	A	60427941	2	1	58	1	0	0	0	0	0	0	0	1	3112	991	35	3		3	CDH4	20	60427941	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	109101	60427941	2597579	1371	22746										
DIDO1	11083	broad.mit.edu	37	chr20	61522319	61522319	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agccggcgcttacctggtccCtcaaagggcaagagtttgga	13	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:61522319C>A	uc002ydr.1	-	15	3798	c.3534G>T	c.(3532-3534)GAG>GAT	p.E1178D	DIDO1_uc002yds.1_Missense_Mutation_p.E1178D|DIDO1_uc002ydt.1_Missense_Mutation_p.E1178D|DIDO1_uc002ydu.1_Missense_Mutation_p.E1178D	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1178					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					TACCTGGTCCCTCAAAGGGCA	0.602													40	126	---	---	---	---	PASS	A	61522319	A	A	61522319	3	1	58	1	0	0	0	0	1	0	0	0	4522	680	24	3	3225	3	DIDO1	20	61522319	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1094378	61522319	1503201	1372	22747										
PRIC285	85441	broad.mit.edu	37	chr20	62192805	62192805	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gggcctgccggatccggtggTgcagggtgatgctcctgggg	20	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:62192805T>A	uc002yfm.2	-	14	7743	c.6851A>T	c.(6850-6852)CAC>CTC	p.H2284L	PRIC285_uc002yfl.1_Missense_Mutation_p.H1715L	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	2284					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			GATCCGGTGGTGCAGGGTGAT	0.637													103	177	---	---	---	---	PASS	A	62192805	A	A	62192805	3	1	58	1	0	0	0	0	1	0	0	0	12485	1696	59	5	1126	5	PRIC285	20	62192805	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	670486	62192805	832715	1373	22748										
PRIC285	85441	broad.mit.edu	37	chr20	62196727	62196727	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggatggggcccgaggaggCatcgtccagcgggatggctg	19	10	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr20:62196727C>T	uc002yfm.2	-	9	4340	c.3448G>A	c.(3448-3450)GCC>ACC	p.A1150T	PRIC285_uc002yfl.1_Missense_Mutation_p.A581T	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1150					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CCCGAGGAGGCATCGTCCAGC	0.687													4	11	---	---	---	---	PASS	T	62196727	T	T	62196727	3	4	58	1	0	0	0	0	1	0	0	0	12485	710	25	3	4549	3	PRIC285	20	62196727	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3922	62196727	828793	1374	22749										
USP25	29761	broad.mit.edu	37	chr21	17191131	17191131	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaaggagaaattgagtcttTacattcagagaattcaggaa	10	4	3	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:17191131T>C	uc002yjy.1	+	10	1263	c.1046T>C	c.(1045-1047)TTA>TCA	p.L349S	USP25_uc011aby.1_Missense_Mutation_p.L349S|USP25_uc002yjz.1_Missense_Mutation_p.L349S|USP25_uc010gla.1_Intron	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	349					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		ATTGAGTCTTTACATTCAGAG	0.403													47	238	---	---	---	---	PASS	C	17191131	C	C	17191131	3	2	58	1	0	0	0	0	1	0	0	0	17053	1764	61	5	1084	5	USP25	21	17191131	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08		17191131	30938764	1375	22750										
ADAMTS5	11096	broad.mit.edu	37	chr21	28305220	28305220	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agactgcaggagcggtagatGgccctcttccctgtgcagta	13	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:28305220G>T	uc002ymg.2	-	5	2562	c.1833C>A	c.(1831-1833)GCC>GCA	p.A611A		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	611	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						AGCGGTAGATGGCCCTCTTCC	0.522													30	17	---	---	---	---	PASS	T	28305220	T	T	28305220	2	4	58	1	0	0	0	0	0	0	0	1	269	1335	47	3		3	ADAMTS5	21	28305220	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	11114089	28305220	19824675	1376	22751										
KRTAP13-1	140258	broad.mit.edu	37	chr21	31768661	31768661	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgctaccgtcccagaacctCcttgctctgcagtccctgcc	7	19	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:31768661C>A	uc002yoa.2	+	1	270	c.257C>A	c.(256-258)TCC>TAC	p.S86Y		NM_181599	NP_853630	Q8IUC0	KR131_HUMAN	keratin associated protein 13-1	86	5 X 10 AA approximate repeats.					intermediate filament				ovary(1)	1						CCCAGAACCTCCTTGCTCTGC	0.602													51	38	---	---	---	---	PASS	A	31768661	A	A	31768661	3	1	58	1	0	0	0	0	1	0	0	0	8522	855	30	2	259	2	KRTAP13-1	21	31768661	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3463441	31768661	16361234	1377	22752										
KRTAP6-1	337966	broad.mit.edu	37	chr21	31986182	31986182	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccatagccacagaacccataGccaggggtgccatagtagtt	10	12	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:31986182G>T	uc002yop.2	-	1	42	c.42C>A	c.(40-42)GGC>GGA	p.G14G	KRTAP20-1_uc011ade.1_5'Flank	NM_181602	NP_853633	Q3LI64	KRA61_HUMAN	keratin associated protein 6-1	14						cytosol|intermediate filament					0						AGAACCCATAGCCAGGGGTGC	0.567													70	43	---	---	---	---	PASS	T	31986182	T	T	31986182	2	4	58	1	0	0	0	0	0	0	0	1	8569	958	34	3		3	KRTAP6-1	21	31986182	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	217521	31986182	16143713	1378	22753										
TIAM1	7074	broad.mit.edu	37	chr21	32639255	32639255	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atgcttttctccataaaactCgtgctctacatgttgacttt	5	10	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:32639255C>G	uc002yow.1	-	5	506	c.34G>C	c.(34-36)GAG>CAG	p.E12Q	TIAM1_uc011adk.1_Missense_Mutation_p.E12Q|TIAM1_uc011adl.1_Missense_Mutation_p.E12Q|TIAM1_uc002yox.1_Intron	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	12					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CCATAAAACTCGTGCTCTACA	0.552													35	31	---	---	---	---	PASS	G	32639255	G	G	32639255	3	3	58	1	0	0	0	0	1	0	0	0	15887	893	31	2	4841	2	TIAM1	21	32639255	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	653073	32639255	15490640	1379	22754										
HUNK	30811	broad.mit.edu	37	chr21	33331214	33331214	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttcacggtggagcctttcaGcctgagggctttgtaccaga	12	10	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:33331214G>T	uc002yph.2	+	5	1166	c.806G>T	c.(805-807)AGC>ATC	p.S269I		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	269	Protein kinase.				multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						GAGCCTTTCAGCCTGAGGGCT	0.522													121	64	---	---	---	---	PASS	T	33331214	T	T	33331214	3	4	58	1	0	0	0	0	1	0	0	0	7458	971	34	3	824	3	HUNK	21	33331214	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	691959	33331214	14798681	1380	22755										
C21orf63	59271	broad.mit.edu	37	chr21	33840109	33840109	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gacctacggcaggaggacccAggaaagggacatctgctcct	13	12	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:33840109A>T	uc002ypr.1	+	4	997	c.587A>T	c.(586-588)CAG>CTG	p.Q196L	C21orf63_uc002ypq.1_Missense_Mutation_p.Q196L|C21orf63_uc002yps.1_RNA|C21orf63_uc010glw.1_Missense_Mutation_p.Q196L|C21orf63_uc002ypt.1_RNA|C21orf63_uc002ypu.1_Missense_Mutation_p.Q101L	NM_058187	NP_478067	P58658	CU063_HUMAN	hypothetical protein LOC59271 precursor	196	SUEL-type lectin 2.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(2)|pancreas(1)	3						AGGAGGACCCAGGAAAGGGAC	0.428													42	29	---	---	---	---	PASS	T	33840109	T	T	33840109	3	4	58	1	0	0	0	0	1	0	0	0	2131	188	7	5	601	5	C21orf63	21	33840109	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	508895	33840109	14289786	1381	22756										
SLC5A3	6526	broad.mit.edu	37	chr21	35468733	35468733	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagttaatgattgtggggagGatatttgtggcatttatggt	15	1	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:35468733G>T	uc002yto.2	+	2	1748	c.1236G>T	c.(1234-1236)AGG>AGT	p.R412S	MRPS6_uc002ytp.2_Intron	NM_006933	NP_008864	P53794	SC5A3_HUMAN	solute carrier family 5 (inositol transporters),	412	Helical; (Potential).					integral to plasma membrane	myo-inositol:sodium symporter activity			ovary(2)	2						TTGTGGGGAGGATATTTGTGG	0.473													62	57	---	---	---	---	PASS	T	35468733	T	T	35468733	3	4	58	1	0	0	0	0	1	0	0	0	14666	1165	41	2	1238	2	SLC5A3	21	35468733	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1628624	35468733	12661162	1382	22757										
DSCAM	1826	broad.mit.edu	37	chr21	41385199	41385199	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggggcgcttcagggtccggCttttctgaggttccaagcat	14	10	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:41385199C>A	uc002yyq.1	-	33	6253	c.5801G>T	c.(5800-5802)AGC>ATC	p.S1934I	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1934	Cytoplasmic (Potential).			HRPGDLIHLPPYLRMDFLLNRGGPGTSRDLSLGQACLEPQK SRTLKRPTVLEPIPMEAASSASSTREGQSWQPGAVATLPQR EGAELGQAAKMSSSQESLLDSRGHLKGNNPYAKSYTLV -> IGQVTSYICLHTLEWTFC (in Ref. 1; AAC17966).	cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CAGGGTCCGGCTTTTCTGAGG	0.607													47	35	---	---	---	---	PASS	A	41385199	A	A	41385199	3	1	58	1	0	0	0	0	1	0	0	0	4768	797	28	3	241	3	DSCAM	21	41385199	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5916466	41385199	6744696	1383	22758										
DSCAM	1826	broad.mit.edu	37	chr21	41684139	41684139	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgaagtcaatattgtcaatgGtcaccccaaggctcccaggg	10	11	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:41684139G>A	uc002yyq.1	-	9	2383	c.1931C>T	c.(1930-1932)ACC>ATC	p.T644I	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	644	Extracellular (Potential).|Ig-like C2-type 7.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				ATTGTCAATGGTCACCCCAAG	0.557													48	50	---	---	---	---	PASS	A	41684139	A	A	41684139	3	1	58	1	0	0	0	0	1	0	0	0	4768	1261	44	3	4207	3	DSCAM	21	41684139	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	298940	41684139	6445756	1384	22759										
DSCAM	1826	broad.mit.edu	37	chr21	41711138	41711138	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgtcccggacctgggagctgGagatgttcaggtagctgacc	15	11	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:41711138G>T	uc002yyq.1	-	7	1867	c.1415C>A	c.(1414-1416)TCC>TAC	p.S472Y	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	472	Extracellular (Potential).|Ig-like C2-type 5.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CTGGGAGCTGGAGATGTTCAG	0.597													56	43	---	---	---	---	PASS	T	41711138	T	T	41711138	3	4	58	1	0	0	0	0	1	0	0	0	4768	1174	41	2	4731	2	DSCAM	21	41711138	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	26999	41711138	6418757	1385	22760										
DSCAM	1826	broad.mit.edu	37	chr21	41741060	41741060	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctggcgctgttgctctgcctCgtctctccggtgtatcgatg	12	13	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:41741060C>G	uc002yyq.1	-	4	1073	c.621G>C	c.(619-621)ACG>ACC	p.T207T	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	207	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TGCTCTGCCTCGTCTCTCCGG	0.448													70	45	---	---	---	---	PASS	G	41741060	G	G	41741060	2	3	58	1	0	0	0	0	0	0	0	1	4768	871	31	2		2	DSCAM	21	41741060	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	29922	41741060	6388835	1386	22761										
DNMT3L	29947	broad.mit.edu	37	chr21	45679433	45679433	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agggcatccaggaacttgtcCttggaaggagcaaagcaagg	14	8	0	0	rs35786892		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr21:45679433C>A	uc002zeg.1	-	5	716	c.232_splice	c.e5-1	p.D78_splice	DNMT3L_uc002zeh.1_Splice_Site_p.D78_splice	NM_175867	NP_787063	Q9UJW3	DNM3L_HUMAN	cytosine-5-methyltransferase 3-like protein						DNA methylation|negative regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|spermatogenesis	cytosol	enzyme activator activity|enzyme binding|metal ion binding			skin(2)	2				Colorectal(79;0.0165)|READ - Rectum adenocarcinoma(84;0.0781)		GGAACTTGTCCTTGGAAGGAG	0.587													69	41	---	---	---	---	PASS	A	45679433	A	A	45679433	5	1	58	1	0	0	0	0	0	0	1	0	4678	695	24	3	964	3	DNMT3L	21	45679433	Splice_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	3938373	45679433	2450462	1387	22762										
POTEH	23784	broad.mit.edu	37	chr22	16287481	16287481	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagtggcagcaccacttgccCatcttgctcctgagtgtctt	9	14	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:16287481C>A	uc010gqp.2	-	1	457	c.405G>T	c.(403-405)ATG>ATT	p.M135I	POTEH_uc002zlg.1_5'Flank|POTEH_uc002zlh.1_5'Flank|POTEH_uc002zlj.1_Intron	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	135										skin(1)	1						ACCACTTGCCCATCTTGCTCC	0.617													60	195	---	---	---	---	PASS	A	16287481	A	A	16287481	3	1	58	1	0	0	0	0	1	0	0	0	12267	594	21	3	1272	3	POTEH	22	16287481	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08		16287481	35017085	1388	22763										
GAB4	128954	broad.mit.edu	37	chr22	17446085	17446085	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cacctggtcccagaccagggCtctgtgacaggtggcttgaa	13	12	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:17446085C>A	uc002zlw.2	-	7	1470	c.1362G>T	c.(1360-1362)GAG>GAT	p.E454D		NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	454										large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				CAGACCAGGGCTCTGTGACAG	0.567													37	28	---	---	---	---	PASS	A	17446085	A	A	17446085	3	1	58	1	0	0	0	0	1	0	0	0	6151	796	28	3	378	3	GAB4	22	17446085	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1158604	17446085	33858481	1389	22764										
CECR5	27440	broad.mit.edu	37	chr22	17619154	17619154	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggctgttgctgccgtgtgccCccggcccctagttctggcgc	14	16	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:17619154C>A	uc002zmf.2	-	8	1057	c.1029G>T	c.(1027-1029)GGG>GGT	p.G343G	CECR5_uc002zmd.2_Silent_p.G154G|CECR5_uc002zme.2_Silent_p.G135G|CECR5_uc002zmg.2_Silent_p.G143G|CECR5_uc002zmh.2_Silent_p.G313G	NM_033070	NP_149061	Q9BXW7	CECR5_HUMAN	cat eye syndrome chromosome region, candidate 5	343							hydrolase activity				0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)				GCCGTGTGCCCCCGGCCCCTA	0.602													28	32	---	---	---	---	PASS	A	17619154	A	A	17619154	2	1	58	1	0	0	0	0	0	0	0	1	3207	610	22	3		3	CECR5	22	17619154	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	173069	17619154	33685412	1390	22765										
TXNRD2	10587	broad.mit.edu	37	chr22	19885649	19885649	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagccagcacactccagggcCacatctgtggggtgccagct	12	14	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:19885649C>A	uc011ahc.1	-	10	720	c.687G>T	c.(685-687)GTG>GTT	p.V229V	TXNRD2_uc002zql.1_5'UTR|TXNRD2_uc002zqm.1_RNA|TXNRD2_uc002zqn.1_RNA|TXNRD2_uc002zqo.1_RNA|TXNRD2_uc002zqp.1_RNA|TXNRD2_uc002zqr.1_Silent_p.V228V|TXNRD2_uc010grv.1_Silent_p.V229V|TXNRD2_uc002zqj.1_RNA|TXNRD2_uc002zqs.2_Silent_p.V197V	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor	229					cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					ACTCCAGGGCCACATCTGTGG	0.612													3	4	---	---	---	---	PASS	A	19885649	A	A	19885649	2	1	58	1	0	0	0	0	0	0	0	1	16805	581	21	3		3	TXNRD2	22	19885649	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2266495	19885649	31418917	1391	22766										
RTDR1	27156	broad.mit.edu	37	chr22	23406114	23406114	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgcacgggcggccttgctgcGgatgttctggttggcgctga	17	11	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:23406114G>T	uc002zwt.2	-	5	777	c.619C>A	c.(619-621)CGC>AGC	p.R207S		NM_014433	NP_055248	Q9UHP6	RTDR1_HUMAN	rhabdoid tumor deletion region protein 1	207							binding			ovary(1)	1	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.175)		GCCTTGCTGCGGATGTTCTGG	0.622													30	19	---	---	---	---	PASS	T	23406114	T	T	23406114	3	4	58	1	0	0	0	0	1	0	0	0	13719	1116	39	1	439	1	RTDR1	22	23406114	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	3520465	23406114	27898452	1392	22767										
SGSM1	129049	broad.mit.edu	37	chr22	25308718	25308718	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaacatgagatcgttgatccAggtatgacccagcatccatt	8	10	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:25308718A>C	uc003abg.2	+	23	3249	c.3092A>C	c.(3091-3093)CAG>CCG	p.Q1031P	SGSM1_uc003abh.2_Missense_Mutation_p.Q970P|SGSM1_uc010guu.1_Missense_Mutation_p.Q976P|SGSM1_uc003abj.2_Missense_Mutation_p.Q915P|SGSM1_uc003abi.1_Missense_Mutation_p.Q951P	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	1031	Rab-GAP TBC.					Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						TCGTTGATCCAGGTATGACCC	0.378													8	17	---	---	---	---	PASS	C	25308718	C	C	25308718	3	2	58	1	0	0	0	0	1	0	0	0	14222	202	7	5	3182	5	SGSM1	22	25308718	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	1902604	25308718	25995848	1393	22768										
SEZ6L	23544	broad.mit.edu	37	chr22	26706681	26706681	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aacaagtcagctcttctctaCgactcccttcaaaccgagag	6	14	4	1	rs147602140	by1000genomes	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:26706681C>A	uc003acb.2	+	7	1716	c.1560C>A	c.(1558-1560)TAC>TAA	p.Y520*	SEZ6L_uc003acc.2_Nonsense_Mutation_p.Y520*|SEZ6L_uc011akc.1_Nonsense_Mutation_p.Y520*|SEZ6L_uc003acd.2_Nonsense_Mutation_p.Y520*|SEZ6L_uc011akd.1_Nonsense_Mutation_p.Y520*|SEZ6L_uc003ace.2_Nonsense_Mutation_p.Y520*|SEZ6L_uc003acf.1_Nonsense_Mutation_p.Y293*|SEZ6L_uc010gvc.1_Nonsense_Mutation_p.Y293*	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	520	CUB 2.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CTCTTCTCTACGACTCCCTTC	0.597													87	72	---	---	---	---	PASS	A	26706681	A	A	26706681	4	1	58	1	0	0	0	0	0	1	0	0	14143	547	19	1	1586	1	SEZ6L	22	26706681	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1397963	26706681	24597885	1394	22769										
NF2	4771	broad.mit.edu	37	chr22	30070892	30070892	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggcggagcgaagagccaagCagaagctcctggagattgcc	15	10	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:30070892C>T	uc003age.3	+	13	1851	c.1408C>T	c.(1408-1410)CAG>TAG	p.Q470*	NF2_uc003afy.3_Nonsense_Mutation_p.Q470*|NF2_uc003afz.3_Nonsense_Mutation_p.Q387*|NF2_uc003agf.3_Nonsense_Mutation_p.Q470*|NF2_uc003agb.3_Nonsense_Mutation_p.Q393*|NF2_uc003agc.3_Nonsense_Mutation_p.Q432*|NF2_uc003agd.3_RNA|NF2_uc003agg.3_Nonsense_Mutation_p.Q470*|NF2_uc003aga.3_Nonsense_Mutation_p.Q428*|NF2_uc003agh.3_Nonsense_Mutation_p.Q429*|NF2_uc003agi.3_Nonsense_Mutation_p.Q387*|NF2_uc003agj.3_Intron|NF2_uc003agk.3_Nonsense_Mutation_p.Q432*|NF2_uc010gvp.2_Nonsense_Mutation_p.Q134*|NF2_uc011akq.1_Nonsense_Mutation_p.Q96*	NM_000268	NP_000259	P35240	MERL_HUMAN	neurofibromin 2 isoform 1	470					actin cytoskeleton organization|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of cell-matrix adhesion|negative regulation of DNA replication|negative regulation of tyrosine phosphorylation of Stat3 protein|negative regulation of tyrosine phosphorylation of Stat5 protein|positive regulation of stress fiber assembly|regulation of hippo signaling cascade|Schwann cell proliferation	cytoskeleton|early endosome|extrinsic to membrane|filopodium membrane|nucleolus|perinuclear region of cytoplasm|ruffle membrane	cytoskeletal protein binding|protein binding	p.?(2)|p.Q470L(1)|p.Q459fs*25(1)|p.Q470*(1)|p.Q470fs*15(1)|p.A464fs*24(1)		meninges(372)|soft_tissue(284)|central_nervous_system(20)|kidney(10)|pleura(9)|skin(7)|large_intestine(5)|breast(5)|urinary_tract(3)|thyroid(2)|endometrium(2)|ovary(2)|lung(2)|stomach(2)|bone(2)|pituitary(1)	728						AAGAGCCAAGCAGAAGCTCCT	0.607			D|Mis|N|F|S|O		meningioma|acoustic neuroma|renal 	meningioma|acoustic neuroma			Neurofibromatosis_type_2				4	5	---	---	---	---	PASS	T	30070892	T	T	30070892	4	4	58	1	0	0	0	0	0	1	0	0	10357	711	25	3	1458	3	NF2	22	30070892	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3364211	30070892	21233674	1395	22770										
OSM	5008	broad.mit.edu	37	chr22	30659938	30659938	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagggtctggtcctgcgcacCcccttcctcagggcctggtg	14	15	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:30659938C>A	uc003ahb.2	-	3	745	c.693G>T	c.(691-693)GGG>GGT	p.G231G		NM_020530	NP_065391	P13725	ONCM_HUMAN	oncostatin M precursor	231					cell proliferation|immune response|negative regulation of cell proliferation|negative regulation of hormone secretion|positive regulation of cell division|positive regulation of cell proliferation|positive regulation of MAPKKK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of transcription from RNA polymerase II promoter|regulation of growth	extracellular space|oncostatin-M receptor complex	cytokine activity|growth factor activity|oncostatin-M receptor binding			skin(1)	1			Epithelial(10;0.206)			TCCTGCGCACCCCCTTCCTCA	0.662													95	63	---	---	---	---	PASS	A	30659938	A	A	30659938	2	1	58	1	0	0	0	0	0	0	0	1	11291	610	22	3		3	OSM	22	30659938	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	589046	30659938	20644628	1396	22771										
PATZ1	23598	broad.mit.edu	37	chr22	31724897	31724897	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acatggacctttaagtaggaGgcagaggagaaacctaaaca	11	7	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:31724897G>C	uc003akq.2	-	4	2182	c.1521C>G	c.(1519-1521)GCC>GCG	p.A507A	PATZ1_uc003akp.2_Intron|PATZ1_uc003akr.2_Intron	NM_014323	NP_055138	Q9HBE1	PATZ1_HUMAN	POZ (BTB) and AT hook containing zinc finger 1	507	C2H2-type 6.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/PATZ1(2)	soft_tissue(2)	2						TTAAGTAGGAGGCAGAGGAGA	0.567													12	31	---	---	---	---	PASS	C	31724897	C	C	31724897	2	2	58	1	0	0	0	0	0	0	0	1	11476	987	35	4		4	PATZ1	22	31724897	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1064959	31724897	19579669	1397	22772										
C22orf42	150297	broad.mit.edu	37	chr22	32555175	32555175	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gttgaggcccccgctggggcCcaggcagcaagtcagtttgc	15	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:32555175C>A	uc003amd.2	-	1	69	c.28G>T	c.(28-30)GGC>TGC	p.G10C		NM_001010859	NP_001010859	Q6IC83	CV042_HUMAN	chromosome 22 open reading frame 42	10										ovary(1)|skin(1)	2						CCGCTGGGGCCCAGGCAGCAA	0.572													38	46	---	---	---	---	PASS	A	32555175	A	A	32555175	3	1	58	1	0	0	0	0	1	0	0	0	2149	623	22	3	763	3	C22orf42	22	32555175	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	830278	32555175	18749391	1398	22773										
LGALS2	3957	broad.mit.edu	37	chr22	37966599	37966599	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcaccttgacctctgaccctGggctgaagcacaggtgatct	10	13	3	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:37966599G>T	uc003ata.2	-	3	345	c.233C>A	c.(232-234)CCA>CAA	p.P78Q		NM_006498	NP_006489	P05162	LEG2_HUMAN	lectin, galactoside-binding, soluble, 2	78	Galectin.									breast(1)|skin(1)	2	Melanoma(58;0.0574)					CTCTGACCCTGGGCTGAAGCA	0.577													96	88	---	---	---	---	PASS	T	37966599	T	T	37966599	3	4	58	1	0	0	0	0	1	0	0	0	8742	1348	47	3	173	3	LGALS2	22	37966599	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5411424	37966599	13337967	1399	22774										
RANGAP1	5905	broad.mit.edu	37	chr22	41664101	41664102	+	Frame_Shift_Ins	INS	-	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagcggctagttcgcttaccINSagggctggtgggatctcggt							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:41664101_41664102insA	uc003azs.2	-	3	1769_1770	c.299_300insT	c.(298-300)CTGfs	p.L100fs	RANGAP1_uc003azt.2_Frame_Shift_Ins_p.L100fs|RANGAP1_uc003azu.2_Frame_Shift_Ins_p.L100fs|RANGAP1_uc011aoz.1_Frame_Shift_Ins_p.L90fs	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	100					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						GTTCGCTTACCAGGGCTGGTGG	0.564													4	2	---	---	---	---		A	41664102	A	A	41664101	7	5	58	1	0	1	1	0	0	0	0	0	13033	608	21	0	1515	0	RANGAP1	22	41664101	Frame_Shift_Ins	INS	-	TCGA-33-4566-01A-01D-1441-08	3697502	41664101	9640465	1400	22775										
CYP2D6	1565	broad.mit.edu	37	chr22	42526796	42526796	+	Translation_Start_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagtgcttctagccccatacCtgcctcactaccaaatgggc	7	16	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:42526796C>A	uc003bce.2	-	1	88	c.-2G>T	c.(-4-0)CAGGT>CATGT		uc003bcd.1_Intron|CYP2D6_uc010gyu.2_5'Flank|CYP2D6_uc003bcf.2_Translation_Start_Site	NM_000106	NP_000097	Q6NWU0	Q6NWU0_HUMAN	cytochrome P450, family 2, subfamily D,								electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen			breast(1)|skin(1)	2						AGCCCCATACCTGCCTCACTA	0.642													2	5	---	---	---	---	PASS	A	42526796	A	A	42526796	1	1	58	1	0	0	0	0	0	0	0	0	4169	696	24	3		3	CYP2D6	22	42526796	Translation_Start_Site	SNP	C	TCGA-33-4566-01A-01D-1441-08	862695	42526796	8777770	1401	22776										
ATXN10	25814	broad.mit.edu	37	chr22	46085626	46085626	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggactatcttccaaagagttCtggatatcctaaagaaatct	7	8	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:46085626C>A	uc003bgm.1	+	2	408	c.151C>A	c.(151-153)CTG>ATG	p.L51M	ATXN10_uc011aqt.1_Intron|ATXN10_uc003bgn.1_Translation_Start_Site	NM_013236	NP_037368	Q9UBB4	ATX10_HUMAN	ataxin 10	51					cell death|neuron projection development	dendrite|neuronal cell body|perinuclear region of cytoplasm				ovary(1)|kidney(1)	2		Ovarian(80;0.00973)|all_neural(38;0.0417)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0223)		CCAAAGAGTTCTGGATATCCT	0.388													63	45	---	---	---	---	PASS	A	46085626	A	A	46085626	3	1	58	1	0	0	0	0	1	0	0	0	1210	912	32	2	157	2	ATXN10	22	46085626	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3558830	46085626	5218940	1402	22777										
GTSE1	51512	broad.mit.edu	37	chr22	46704301	46704301	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcttggaattaaataatccgGttcccgaacagcctccgttg	9	11	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:46704301G>A	uc011aqy.1	+	4	435	c.223G>A	c.(223-225)GTT>ATT	p.V75I	GTSE1_uc011aqz.1_5'UTR	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	56					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		AAATAATCCGGTTCCCGAACA	0.463													134	109	---	---	---	---	PASS	A	46704301	A	A	46704301	3	1	58	1	0	0	0	0	1	0	0	0	6885	1261	44	3	233	3	GTSE1	22	46704301	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	618675	46704301	4600265	1403	22778										
TBC1D22A	25771	broad.mit.edu	37	chr22	47507500	47507500	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tagaagaaaaagattttcaaGtaagtaaatgtcttttcaaa	6	3	3	3	rs147421684		TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:47507500G>T	uc003bib.2	+	12	1560	c.1425_splice	c.e12+1	p.Q475_splice	TBC1D22A_uc010haf.2_Splice_Site_p.Q445_splice|TBC1D22A_uc003bic.2_Splice_Site_p.Q416_splice|TBC1D22A_uc003bie.2_Splice_Site_p.Q397_splice|TBC1D22A_uc003bid.2_Splice_Site|TBC1D22A_uc010hag.2_Splice_Site|TBC1D22A_uc003bif.2_Splice_Site_p.Q428_splice	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A							intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		AGATTTTCAAGTAAGTAAATG	0.373													26	27	---	---	---	---	PASS	T	47507500	T	T	47507500	5	4	58	1	0	0	0	0	0	0	1	0	15608	1043	36	3	1472	3	TBC1D22A	22	47507500	Splice_Site	SNP	G	TCGA-33-4566-01A-01D-1441-08	803199	47507500	3797066	1404	22779										
BRD1	23774	broad.mit.edu	37	chr22	50216964	50216964	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cactggatgcaggcacccacGcccttctgcttacagaggta	10	14	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:50216964G>C	uc003biv.2	-	1	1489	c.1002C>G	c.(1000-1002)GGC>GGG	p.G334G	BRD1_uc011arf.1_5'UTR|BRD1_uc011arg.1_Silent_p.G334G|BRD1_uc011arh.1_Silent_p.G334G|BRD1_uc003biu.3_Silent_p.G334G	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	334					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		AGGCACCCACGCCCTTCTGCT	0.562													86	76	---	---	---	---	PASS	C	50216964	C	C	50216964	2	2	58	1	0	0	0	0	0	0	0	1	1501	1074	38	4		4	BRD1	22	50216964	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	2709464	50216964	1087602	1405	22780										
TTLL8	164714	broad.mit.edu	37	chr22	50470358	50470358	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgggccaccttcatggcgtgGgcgatggccttcttcatgga	14	11	3	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:50470358G>T	uc011ark.1	-	11	1464	c.1464C>A	c.(1462-1464)GCC>GCA	p.A488A		NM_001080447	NP_001073916			tubulin tyrosine ligase-like family, member 8											ovary(2)	2		all_cancers(38;3.44e-07)|all_epithelial(38;2.44e-06)|all_lung(38;0.00141)|Breast(42;0.00519)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		READ - Rectum adenocarcinoma(2;0.000882)|Colorectal(2;0.00311)|BRCA - Breast invasive adenocarcinoma(115;0.226)		TCATGGCGTGGGCGATGGCCT	0.642													22	20	---	---	---	---	PASS	T	50470358	T	T	50470358	2	4	58	1	0	0	0	0	0	0	0	1	16730	1219	43	3		3	TTLL8	22	50470358	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	253394	50470358	834208	1406	22781										
MOV10L1	54456	broad.mit.edu	37	chr22	50547090	50547090	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agctctctgctcccaggtctGcatctctagcctctgtggaa	9	14	4	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:50547090G>C	uc003bjj.2	+	5	643	c.560G>C	c.(559-561)TGC>TCC	p.C187S	MOV10L1_uc003bjk.3_Missense_Mutation_p.C187S|MOV10L1_uc011arp.1_Missense_Mutation_p.C167S	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	187					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		TCCCAGGTCTGCATCTCTAGC	0.557													63	54	---	---	---	---	PASS	C	50547090	C	C	50547090	3	2	58	1	0	0	0	0	1	0	0	0	9719	1319	46	4	619	4	MOV10L1	22	50547090	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	76732	50547090	757476	1407	22782										
SHANK3	85358	broad.mit.edu	37	chr22	51160523	51160523	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caagcccaagctcaagtcccCgctggggaaggggccggtga	15	13	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chr22:51160523C>A	uc003bne.1	+	22	4310	c.4310C>A	c.(4309-4311)CCG>CAG	p.P1437Q	SHANK3_uc003bnf.1_Missense_Mutation_p.P884Q|SHANK3_uc010hbg.1_Missense_Mutation_p.P619Q	NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	1437										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		CTCAAGTCCCCGCTGGGGAAG	0.652													6	8	---	---	---	---	PASS	A	51160523	A	A	51160523	3	1	58	1	0	0	0	0	1	0	0	0	14266	652	23	1	4396	1	SHANK3	22	51160523	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	613433	51160523	144043	1408	22783										
CSF2RA	1438	broad.mit.edu	37	chrX	1404669	1404669	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acccagtgcccgctccttgcAgatctgcgaacagtggcacc	10	16	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:1404669A>T	uc010nct.2	+	5	399	c.77_splice	c.e5-2	p.D26_splice	CSF2RA_uc011mhb.1_Splice_Site_p.D26_splice|CSF2RA_uc004cpq.2_Splice_Site_p.D26_splice|CSF2RA_uc004cpn.2_Splice_Site_p.D26_splice|CSF2RA_uc004cpo.2_Splice_Site_p.D26_splice|CSF2RA_uc010ncu.2_Splice_Site|CSF2RA_uc011mhc.1_Intron|CSF2RA_uc004cpp.2_Splice_Site_p.D26_splice|CSF2RA_uc010ncv.2_Splice_Site_p.D26_splice|CSF2RA_uc004cpr.2_Splice_Site_p.D26_splice	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain							extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CGCTCCTTGCAGATCTGCGAA	0.323													17	43	---	---	---	---	PASS	T	1404669	T	T	1404669	5	4	58	1	0	0	0	0	0	0	1	0	3934	202	7	5	81	5	CSF2RA	23	1404669	Splice_Site	SNP	A	TCGA-33-4566-01A-01D-1441-08		1404669	153865891	1409	22784										
MXRA5	25878	broad.mit.edu	37	chrX	3236019	3236019	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agaacctcaaaccgttgtatCctggtattcggagtcataag	9	9	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:3236019C>A	uc004crg.3	-	6	5860	c.5703G>T	c.(5701-5703)AGG>AGT	p.R1901S		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1901	Ig-like C2-type 3.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				ACCGTTGTATCCTGGTATTCG	0.453													17	14	---	---	---	---	PASS	A	3236019	A	A	3236019	3	1	58	1	0	0	0	0	1	0	0	0	10003	854	30	2	2791	2	MXRA5	23	3236019	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1831350	3236019	152034541	1410	22785										
MXRA5	25878	broad.mit.edu	37	chrX	3240743	3240743	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaggtgtgcaaaggtgtcttCtttcatcttatcctcatctg	8	9	6	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:3240743C>A	uc004crg.3	-	5	3140	c.2983G>T	c.(2983-2985)GAA>TAA	p.E995*		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	995						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				AAGGTGTCTTCTTTCATCTTA	0.468													38	37	---	---	---	---	PASS	A	3240743	A	A	3240743	4	1	58	1	0	0	0	0	0	1	0	0	10003	922	32	2	5515	2	MXRA5	23	3240743	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4724	3240743	152029817	1411	22786										
NLGN4X	57502	broad.mit.edu	37	chrX	5810954	5810954	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaggctgcatccccgtcagTgtgtttggaatcatggtgat	12	8	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:5810954T>G	uc010ndh.2	-	6	2856	c.2355A>C	c.(2353-2355)ACA>ACC	p.T785T	NLGN4X_uc004crp.2_Silent_p.T805T|NLGN4X_uc004crq.2_Silent_p.T785T|NLGN4X_uc010ndi.2_Silent_p.T822T|NLGN4X_uc004crr.2_Silent_p.T785T|NLGN4X_uc010ndj.2_Silent_p.T785T	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	785	Cytoplasmic (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TCCCCGTCAGTGTGTTTGGAA	0.517													23	19	---	---	---	---	PASS	G	5810954	G	G	5810954	2	3	58	1	0	0	0	0	0	0	0	1	10464	1683	59	5		5	NLGN4X	23	5810954	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	2570211	5810954	149459606	1412	22787										
NLGN4X	57502	broad.mit.edu	37	chrX	5827147	5827147	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acacaggaggccccagccccCgagccaaagatggtcactct	10	16	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:5827147C>A	uc010ndh.2	-	4	1260	c.759G>T	c.(757-759)TCG>TCT	p.S253S	NLGN4X_uc004crp.2_Silent_p.S273S|NLGN4X_uc004crq.2_Silent_p.S253S|NLGN4X_uc010ndi.2_Silent_p.S290S|NLGN4X_uc004crr.2_Silent_p.S253S|NLGN4X_uc010ndj.2_Silent_p.S253S	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	253	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						CCCCAGCCCCCGAGCCAAAGA	0.582													14	30	---	---	---	---	PASS	A	5827147	A	A	5827147	2	1	58	1	0	0	0	0	0	0	0	1	10464	639	23	1		1	NLGN4X	23	5827147	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	16193	5827147	149443413	1413	22788										
FANCB	2187	broad.mit.edu	37	chrX	14861980	14861980	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agggtgactagttccttctcCaaagtaaatgccatattatc	7	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:14861980C>A	uc004cwg.1	-	10	2557	c.2289G>T	c.(2287-2289)TTG>TTT	p.L763F	FANCB_uc004cwh.1_Missense_Mutation_p.L763F	NM_001018113	NP_001018123	Q8NB91	FANCB_HUMAN	Fanconi anemia complementation group B	763					DNA repair	nucleoplasm				lung(1)	1	Hepatocellular(33;0.183)					GTTCCTTCTCCAAAGTAAATG	0.363								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				40	36	---	---	---	---	PASS	A	14861980	A	A	14861980	3	1	58	1	0	0	0	0	1	0	0	0	5663	593	21	3	294	3	FANCB	23	14861980	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	9034833	14861980	140408580	1414	22789										
PRDX4	10549	broad.mit.edu	37	chrX	23685870	23685870	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcgggtggacaagtgtacccGggagaggcatcccgggtatc	17	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:23685870G>T	uc004dam.2	+	1	226	c.183G>T	c.(181-183)CCG>CCT	p.P61P		NM_006406	NP_006397	Q13162	PRDX4_HUMAN	peroxiredoxin 4	61					cell redox homeostasis|I-kappaB phosphorylation		thioredoxin peroxidase activity			upper_aerodigestive_tract(1)	1						AAGTGTACCCGGGAGAGGCAT	0.617													14	16	---	---	---	---	PASS	T	23685870	T	T	23685870	2	4	58	1	0	0	0	0	0	0	0	1	12467	1103	39	1		1	PRDX4	23	23685870	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	8823890	23685870	131584690	1415	22790										
PDK3	5165	broad.mit.edu	37	chrX	24544341	24544341	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cgccagacaaacctattcagGtggtttatgtgccctcacat	8	12	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:24544341G>C	uc004dbg.2	+	7	929	c.700G>C	c.(700-702)GTG>CTG	p.V234L	PDK3_uc004dbh.2_Missense_Mutation_p.V234L	NM_005391	NP_005382	Q15120	PDK3_HUMAN	pyruvate dehydrogenase kinase 3 isoform 2	234	Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|protein binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						ACCTATTCAGGTGGTTTATGT	0.358													13	23	---	---	---	---	PASS	C	24544341	C	C	24544341	3	2	58	1	0	0	0	0	1	0	0	0	11677	1261	44	4	726	4	PDK3	23	24544341	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	858471	24544341	130726219	1416	22791										
MAGEB6	158809	broad.mit.edu	37	chrX	26212737	26212737	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgaaagaaatggattccagCggcgagtcctacacccttgt	10	10	0	2	rs143373947	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:26212737C>A	uc004dbr.2	+	2	923	c.774C>A	c.(772-774)AGC>AGA	p.S258R	MAGEB6_uc010ngc.1_Missense_Mutation_p.S38R	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	258	MAGE.									ovary(3)	3						TGGATTCCAGCGGCGAGTCCT	0.537													23	19	---	---	---	---	PASS	A	26212737	A	A	26212737	3	1	58	1	0	0	0	0	1	0	0	0	9179	767	27	1	776	1	MAGEB6	23	26212737	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1668396	26212737	129057823	1417	22792										
DMD	1756	broad.mit.edu	37	chrX	31947805	31947805	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	acttacaagcacgggtcctcCagtttcatttaattgtttga	7	9	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:31947805C>A	uc004dda.1	-	47	7064	c.6820G>T	c.(6820-6822)GGA>TGA	p.G2274*	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Nonsense_Mutation_p.G930*|DMD_uc004dcx.2_Nonsense_Mutation_p.G933*|DMD_uc004dcz.2_Nonsense_Mutation_p.G2151*|DMD_uc004dcy.1_Nonsense_Mutation_p.G2270*|DMD_uc004ddb.1_Nonsense_Mutation_p.G2266*|DMD_uc010ngn.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2274	Spectrin 16.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				ACGGGTCCTCCAGTTTCATTT	0.418													28	38	---	---	---	---	PASS	A	31947805	A	A	31947805	4	1	58	1	0	0	0	0	0	1	0	0	4580	603	21	3	4517	3	DMD	23	31947805	Nonsense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	5735068	31947805	123322755	1418	22793										
DDX3X	1654	broad.mit.edu	37	chrX	41204663	41204663	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tttttttctttcagatgctgGctcgtgatttcttagatgaa	8	6	3	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:41204663G>A	uc004dfe.2	+	12	2032	c.1177G>A	c.(1177-1179)GCT>ACT	p.A393T	DDX3X_uc004dff.2_Missense_Mutation_p.A393T|DDX3X_uc011mkq.1_Missense_Mutation_p.A377T|DDX3X_uc011mkr.1_Missense_Mutation_p.A393T|DDX3X_uc011mks.1_Intron|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	393	Necessary for interaction with XPO1.|Helicase ATP-binding.				interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						TCAGATGCTGGCTCGTGATTT	0.328										HNSCC(61;0.18)			26	21	---	---	---	---	PASS	A	41204663	A	A	41204663	3	1	58	1	0	0	0	0	1	0	0	0	4358	1203	42	3	1223	3	DDX3X	23	41204663	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	9256858	41204663	114065897	1419	22794										
NYX	60506	broad.mit.edu	37	chrX	41333780	41333780	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagggctccggacgtgtcacCgacgtgccgtgcgcctcccc	14	17	1	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:41333780C>A	uc004dfh.2	+	2	1504	c.1074C>A	c.(1072-1074)ACC>ACA	p.T358T	NYX_uc011mku.1_Silent_p.T353T	NM_022567	NP_072089	Q9GZU5	NYX_HUMAN	nyctalopin precursor	358	LRRCT.				response to stimulus|visual perception	intracellular|proteinaceous extracellular matrix				lung(2)	2						GACGTGTCACCGACGTGCCGT	0.701													6	5	---	---	---	---	PASS	A	41333780	A	A	41333780	2	1	58	1	0	0	0	0	0	0	0	1	10797	639	23	1		1	NYX	23	41333780	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	129117	41333780	113936780	1420	22795										
NDP	4693	broad.mit.edu	37	chrX	43809127	43809127	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tgccccctgagcatcgcagcCgcagtgccttcagcttggaa	11	15	1	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:43809127C>A	uc004dga.3	-	3	899	c.320G>T	c.(319-321)CGG>CTG	p.R107L		NM_000266	NP_000257	Q00604	NDP_HUMAN	norrin precursor	107	CTCK.				canonical Wnt receptor signaling pathway|cell proliferation|cell-cell signaling|nervous system development|positive regulation of transcription, DNA-dependent|sensory perception of sound|vacuole organization|visual perception	extracellular matrix|extracellular space	cell surface binding|frizzled binding|growth factor activity|protein homodimerization activity				0						GCATCGCAGCCGCAGTGCCTT	0.612											OREG0019744	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	2	---	---	---	---	PASS	A	43809127	A	A	43809127	3	1	58	1	0	0	0	0	1	0	0	0	10250	652	23	1	85	1	NDP	23	43809127	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2475347	43809127	111461433	1421	22796										
SLC38A5	92745	broad.mit.edu	37	chrX	48317372	48317372	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccagttggcaaacataaagcCtagactgacggccatgaaga	10	10	0	4			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:48317372C>A	uc010nid.2	-	17	1544	c.1366G>T	c.(1366-1368)GGC>TGC	p.G456C	SLC38A5_uc004djk.3_Missense_Mutation_p.G405C	NM_033518	NP_277053	Q8WUX1	S38A5_HUMAN	solute carrier family 38, member 5	456	Helical; (Potential).			G -> S (in Ref. 1; AAK61856).	cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane				ovary(3)	3						AACATAAAGCCTAGACTGACG	0.612													8	8	---	---	---	---	PASS	A	48317372	A	A	48317372	3	1	58	1	0	0	0	0	1	0	0	0	14607	681	24	3	56	3	SLC38A5	23	48317372	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	4508245	48317372	106953188	1422	22797										
ERAS	3266	broad.mit.edu	37	chrX	48687893	48687893	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gatggtgtgctgggcgtcttCgctctcgatgacccctcgtc	13	13	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:48687893C>A	uc004dky.1	+	1	611	c.360C>A	c.(358-360)TTC>TTA	p.F120L		NM_181532	NP_853510	Q7Z444	RASE_HUMAN	ES cell expressed Ras precursor	120					small GTPase mediated signal transduction	intracellular|plasma membrane	GTP binding|GTPase activity			lung(4)|urinary_tract(1)	5						TGGGCGTCTTCGCTCTCGATG	0.632													83	30	---	---	---	---	PASS	A	48687893	A	A	48687893	3	1	58	1	0	0	0	0	1	0	0	0	5205	883	31	2	362	2	ERAS	23	48687893	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	370521	48687893	106582667	1423	22798										
AKAP4	8852	broad.mit.edu	37	chrX	49958854	49958854	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agacgtaggttttgaggtctGttcatcaaataatctatgtt	9	5	4	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:49958854G>A	uc004dow.1	-	5	634	c.510C>T	c.(508-510)AAC>AAT	p.N170N	AKAP4_uc004dov.1_Silent_p.N161N|AKAP4_uc010njp.1_5'UTR|AKAP4_uc004dou.1_Silent_p.N161N	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	170					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					TTTGAGGTCTGTTCATCAAAT	0.433													58	51	---	---	---	---	PASS	A	49958854	A	A	49958854	2	1	58	1	0	0	0	0	0	0	0	1	453	1368	48	3		3	AKAP4	23	49958854	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1270961	49958854	105311706	1424	22799										
MSN	4478	broad.mit.edu	37	chrX	64951020	64951020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagtgggaggagcggatccaGgtgtggcatgaggaacaccg	18	8	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:64951020G>T	uc004dwf.2	+	5	717	c.519G>T	c.(517-519)CAG>CAT	p.Q173H		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	173	FERM.				leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						AGCGGATCCAGGTGTGGCATG	0.537			T	ALK	ALCL								7	6	---	---	---	---	PASS	T	64951020	T	T	64951020	3	4	58	1	0	0	0	0	1	0	0	0	9885	991	35	3	537	3	MSN	23	64951020	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	14992166	64951020	90319540	1425	22800										
FAM155B	27112	broad.mit.edu	37	chrX	68749658	68749658	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gtctctgggggctcccgcctCagccctagcaggatccggct	13	16	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:68749658C>G	uc004dxk.2	+	3	1326	c.1278C>G	c.(1276-1278)CTC>CTG	p.L426L		NM_015686	NP_056501	O75949	F155B_HUMAN	transmembrane protein 28	427						integral to membrane				ovary(1)|breast(1)	2						GCTCCCGCCTCAGCCCTAGCA	0.532													29	9	---	---	---	---	PASS	G	68749658	G	G	68749658	2	3	58	1	0	0	0	0	0	0	0	1	5466	813	29	2		2	FAM155B	23	68749658	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	3798638	68749658	86520902	1426	22801										
RGAG4	340526	broad.mit.edu	37	chrX	71350437	71350437	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atatttcgaactccagggagCgggataggcttgggaacgcg	15	8	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:71350437C>A	uc010nlh.1	-	1	1315	c.954G>T	c.(952-954)CCG>CCT	p.P318P	NHSL2_uc011mqa.1_Intron|RGAG4_uc004eaj.1_RNA	NM_001024455	NP_001019626	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	318										ovary(2)|skin(1)	3	Renal(35;0.156)					CTCCAGGGAGCGGGATAGGCT	0.473													82	47	---	---	---	---	PASS	A	71350437	A	A	71350437	2	1	58	1	0	0	0	0	0	0	0	1	13275	755	27	1		1	RGAG4	23	71350437	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	2600779	71350437	83920123	1427	22802										
ATP7A	538	broad.mit.edu	37	chrX	77284912	77284912	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaaatggcatactaataaaaGgtggagagccattggagatg	12	4	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:77284912G>T	uc004ecx.3	+	15	3242	c.3082G>T	c.(3082-3084)GGT>TGT	p.G1028C		NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	1028	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						ACTAATAAAAGGTGGAGAGCC	0.473													66	30	---	---	---	---	PASS	T	77284912	T	T	77284912	3	4	58	1	0	0	0	0	1	0	0	0	1190	1000	35	3	3136	3	ATP7A	23	77284912	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	5934475	77284912	77985648	1428	22803										
ZCCHC5	203430	broad.mit.edu	37	chrX	77913754	77913754	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggggctccttggcctctgagGactttcggagtagatcatac	13	10	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:77913754G>T	uc004edc.1	-	2	460	c.164C>A	c.(163-165)TCC>TAC	p.S55Y		NM_152694	NP_689907	Q8N8U3	ZCHC5_HUMAN	zinc finger, CCHC domain containing 5	55							nucleic acid binding|zinc ion binding			ovary(1)	1						GGCCTCTGAGGACTTTCGGAG	0.567													21	13	---	---	---	---	PASS	T	77913754	T	T	77913754	3	4	58	1	0	0	0	0	1	0	0	0	17588	1174	41	2	1267	2	ZCCHC5	23	77913754	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	628842	77913754	77356806	1429	22804										
NAP1L3	4675	broad.mit.edu	37	chrX	92927476	92927476	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cttttatgagtctctcttacTgcagcccttgccttagcctc	6	14	2	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:92927476T>A	uc004efq.2	-	1	1133	c.828A>T	c.(826-828)GCA>GCT	p.A276A	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	276					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						TCTCTCTTACTGCAGCCCTTG	0.448													94	45	---	---	---	---	PASS	A	92927476	A	A	92927476	2	1	58	1	0	0	0	0	0	0	0	1	10158	1567	55	5		5	NAP1L3	23	92927476	Silent	SNP	T	TCGA-33-4566-01A-01D-1441-08	15013722	92927476	62343084	1430	22805										
BTK	695	broad.mit.edu	37	chrX	100611135	100611135	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ctgctgagtctggaagcggtGgcgcatctccctcaggtagt	14	11	3	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:100611135G>C	uc004ehg.2	-	15	1664	c.1471C>G	c.(1471-1473)CAC>GAC	p.H491D	BTK_uc004ehf.2_Intron|BTK_uc010nnh.2_Intron|BTK_uc010nni.2_Intron|BTK_uc004ehe.2_Intron|BTK_uc010nnj.2_RNA|BTK_uc010nnk.2_Intron|BTK_uc010nnl.2_Intron|BTK_uc010nnm.2_Missense_Mutation_p.H61D|BTK_uc010nnn.2_Intron|BTK_uc010nno.2_Missense_Mutation_p.H525D|BTK_uc004ehh.1_Intron|BTK_uc004ehi.2_Missense_Mutation_p.H491D	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	491	Protein kinase.				calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding	p.H491Y(1)		lung(3)|central_nervous_system(2)|ovary(1)	6						TGGAAGCGGTGGCGCATCTCC	0.557									Agammaglobulinemia_X-linked				56	29	---	---	---	---	PASS	C	100611135	C	C	100611135	3	2	58	1	0	0	0	0	1	0	0	0	1557	1348	47	4	528	4	BTK	23	100611135	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	7683659	100611135	54659425	1431	22806										
ARMCX5	64860	broad.mit.edu	37	chrX	101857624	101857624	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gagcctagtgtagggtcctgGttctggcctgaagaagagac	15	8	1	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:101857624G>T	uc004ejg.2	+	6	1436	c.555G>T	c.(553-555)TGG>TGT	p.W185C	ARMCX5_uc004ejh.2_Missense_Mutation_p.W185C	NM_022838	NP_073749	Q6P1M9	ARMX5_HUMAN	armadillo repeat containing, X-linked 5	185							binding			ovary(1)	1						TAGGGTCCTGGTTCTGGCCTG	0.468													85	50	---	---	---	---	PASS	T	101857624	T	T	101857624	3	4	58	1	0	0	0	0	1	0	0	0	962	1270	44	3	557	3	ARMCX5	23	101857624	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1246489	101857624	53412936	1432	22807										
GPRASP1	9737	broad.mit.edu	37	chrX	101909360	101909360	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aaggaggagaccaatatgggGtcctggtgctgtcctaggcc	15	9	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:101909360G>C	uc004ejj.3	+	5	1320	c.519G>C	c.(517-519)GGG>GGC	p.G173G	GPRASP1_uc004eji.3_Silent_p.G173G|GPRASP1_uc010nod.2_Silent_p.G173G	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	173						cytoplasm	protein binding			ovary(1)|lung(1)	2						CCAATATGGGGTCCTGGTGCT	0.463													104	39	---	---	---	---	PASS	C	101909360	C	C	101909360	2	2	58	1	0	0	0	0	0	0	0	1	6722	1248	44	4		4	GPRASP1	23	101909360	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	51736	101909360	53361200	1433	22808										
H2BFWT	158983	broad.mit.edu	37	chrX	103268110	103268110	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttgggctcctgggtgatcagCtgttcctcagaggtcgtctc	13	11	3	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:103268110C>A	uc004elr.2	-	1	147	c.123G>T	c.(121-123)CAG>CAT	p.Q41H		NM_001002916	NP_001002916	Q7Z2G1	H2BWT_HUMAN	H2B histone family, member W, testis-specific	41					nucleosome assembly	nuclear membrane|nucleosome	DNA binding			ovary(1)	1						GGGTGATCAGCTGTTCCTCAG	0.627													38	54	---	---	---	---	PASS	A	103268110	A	A	103268110	3	1	58	1	0	0	0	0	1	0	0	0	6932	796	28	3	412	3	H2BFWT	23	103268110	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1358750	103268110	52002450	1434	22809										
CAPN6	827	broad.mit.edu	37	chrX	110491797	110491797	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	gcttgcgaaggaaactgaacCtgagctggacaggcacttca	12	10	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:110491797C>A	uc004epc.1	-	10	1652	c.1484G>T	c.(1483-1485)AGG>ATG	p.R495M	CAPN6_uc011msu.1_Missense_Mutation_p.R240M	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	495	Domain III.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						GAAACTGAACCTGAGCTGGAC	0.507													30	9	---	---	---	---	PASS	A	110491797	A	A	110491797	3	1	58	1	0	0	0	0	1	0	0	0	2630	695	24	3	457	3	CAPN6	23	110491797	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	7223687	110491797	44778763	1435	22810										
ZCCHC16	340595	broad.mit.edu	37	chrX	111698734	111698734	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agaaagggcctatacagctgCgagaaggccagctgcctctc	12	12	1	2	rs139116920	byFrequency	TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:111698734C>G	uc004epo.1	+	3	1219	c.778C>G	c.(778-780)CGA>GGA	p.R260G		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	260							nucleic acid binding|zinc ion binding			ovary(1)	1						TATACAGCTGCGAGAAGGCCA	0.552													73	55	---	---	---	---	PASS	G	111698734	G	G	111698734	3	3	58	1	0	0	0	0	1	0	0	0	17581	760	27	4	780	4	ZCCHC16	23	111698734	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1206937	111698734	43571826	1436	22811										
KIAA1210	57481	broad.mit.edu	37	chrX	118223502	118223502	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	cagctctatcgcccaggccaTacccttcactggattgttta	7	14	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:118223502T>A	uc004era.3	-	11	1691	c.1691A>T	c.(1690-1692)TAT>TTT	p.Y564F		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	564										ovary(4)|skin(1)	5						GCCCAGGCCATACCCTTCACT	0.478													104	54	---	---	---	---	PASS	A	118223502	A	A	118223502	3	1	58	1	0	0	0	0	1	0	0	0	8214	1406	49	5	3454	5	KIAA1210	23	118223502	Missense_Mutation	SNP	T	TCGA-33-4566-01A-01D-1441-08	6524768	118223502	37047058	1437	22812										
GLUD2	2747	broad.mit.edu	37	chrX	120182757	120182757	+	Frame_Shift_Del	DEL	G	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tcattgctgaaggtgccaatGggccaacaactccagaagct							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:120182757delG	uc004eto.2	+	1	1296	c.1219delG	c.(1219-1221)GGGfs	p.G407fs		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	407					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	AGGTGCCAATGGGCCAACAAC	0.468													78	153	---	---	---	---		-	120182757	-	-	120182757	7	5	58	1	0	1	0	1	0	0	0	0	6477	1348	47	0	1221	0	GLUD2	23	120182757	Frame_Shift_Del	DEL	G	TCGA-33-4566-01A-01D-1441-08	1959255	120182757	35087803	1438	22813										
ODZ1	10178	broad.mit.edu	37	chrX	123518504	123518504	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	agttatgacctgatttaaatCgtaattaattacactgaatt	5	5	0	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:123518504C>A	uc004euj.2	-	29	6320	c.6256G>T	c.(6256-6258)GAT>TAT	p.D2086Y	ODZ1_uc011muj.1_Missense_Mutation_p.D2092Y|ODZ1_uc010nqy.2_Missense_Mutation_p.D2093Y	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2086	YD 15.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TGATTTAAATCGTAATTAATT	0.363													77	39	---	---	---	---	PASS	A	123518504	A	A	123518504	3	1	58	1	0	0	0	0	1	0	0	0	10834	884	31	2	1933	2	ODZ1	23	123518504	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	3335747	123518504	31752056	1439	22814										
ODZ1	10178	broad.mit.edu	37	chrX	123870989	123870989	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	caggtgcaggcatgaggaggCggaggtggcggtgggagggg	25	5	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:123870989C>A	uc004euj.2	-	4	658	c.594G>T	c.(592-594)CCG>CCT	p.P198P	ODZ1_uc011muj.1_Silent_p.P198P|ODZ1_uc010nqy.2_Silent_p.P198P	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	198	Teneurin N-terminal.|Cytoplasmic (Potential).|Poly-Pro.				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CATGAGGAGGCGGAGGTGGCG	0.572													44	18	---	---	---	---	PASS	A	123870989	A	A	123870989	2	1	58	1	0	0	0	0	0	0	0	1	10834	755	27	1		1	ODZ1	23	123870989	Silent	SNP	C	TCGA-33-4566-01A-01D-1441-08	352485	123870989	31399571	1440	22815										
DCAF12L1	139170	broad.mit.edu	37	chrX	125686130	125686130	+	Silent	SNP	G	A	A													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttggagggattcagctcgatGgcatggatgccgcagccctg							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:125686130G>A	uc004eul.2	-	1	713	c.462C>T	c.(460-462)GCC>GCT	p.A154A		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	154	WD 1.									skin(3)|ovary(1)	4						TCAGCTCGATGGCATGGATGC	0.657													28	12	---	---	---	---	PASS	A	125686130	A	A	125686130	2	1	58	1	0	0	0	0	0	0	0	1	4264	1335	47	3		3	DCAF12L1	23	125686130	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	1815141	125686130	29584430	1441	22816	507	2								
DCAF12L1	139170	broad.mit.edu	37	chrX	125686131	125686131	+	Missense_Mutation	SNP	G	C	C													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggagggattcagctcgatgGcatggatgccgcagccctgt							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:125686131G>C	uc004eul.2	-	1	712	c.461C>G	c.(460-462)GCC>GGC	p.A154G		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	154	WD 1.									skin(3)|ovary(1)	4						CAGCTCGATGGCATGGATGCC	0.652													30	11	---	---	---	---	PASS	C	125686131	C	C	125686131	3	2	58	1	0	0	0	0	1	0	0	0	4264	1203	42	4	934	4	DCAF12L1	23	125686131	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1	125686131	29584429	1442	22817	507	2								
SMARCA1	6594	broad.mit.edu	37	chrX	128630823	128630823	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	atatccagcaagcgagtcatCtggctgaaaatgagaaccct	9	10	2	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:128630823C>A	uc004eun.3	-	12	1643	c.1530G>T	c.(1528-1530)CAG>CAT	p.Q510H	SMARCA1_uc004eup.3_Missense_Mutation_p.Q510H|SMARCA1_uc011muk.1_Missense_Mutation_p.Q510H|SMARCA1_uc011mul.1_Missense_Mutation_p.Q510H	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	510	Helicase C-terminal.				ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						AGCGAGTCATCTGGCTGAAAA	0.388													93	43	---	---	---	---	PASS	A	128630823	A	A	128630823	3	1	58	1	0	0	0	0	1	0	0	0	14768	912	32	2	1686	2	SMARCA1	23	128630823	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	2944692	128630823	26639737	1443	22818										
ZNF280C	55609	broad.mit.edu	37	chrX	129394414	129394414	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ttttggttgaaaaggtttgtCgtcatccatgaagttgcaag	11	5	1	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:129394414C>A	uc004evm.2	-	2	164	c.10G>T	c.(10-12)GAC>TAC	p.D4Y	ZNF280C_uc010nrf.1_Missense_Mutation_p.D4Y	NM_017666	NP_060136	Q8ND82	Z280C_HUMAN	zinc finger protein 280C	4					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)	3						AAAGGTTTGTCGTCATCCATG	0.343													3	110	---	---	---	---	PASS	A	129394414	A	A	129394414	3	1	58	1	0	0	0	0	1	0	0	0	17813	884	31	2	2275	2	ZNF280C	23	129394414	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	763591	129394414	25876146	1444	22819										
GPR112	139378	broad.mit.edu	37	chrX	135431464	135431464	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggttgaatttccagttctgGgaacaagaatgacatctagt	10	6	2	3			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:135431464G>T	uc004ezu.1	+	6	5890	c.5599G>T	c.(5599-5601)GGA>TGA	p.G1867*	GPR112_uc010nsb.1_Nonsense_Mutation_p.G1662*|GPR112_uc010nsc.1_Nonsense_Mutation_p.G1634*	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1867	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TCCAGTTCTGGGAACAAGAAT	0.423													82	36	---	---	---	---	PASS	T	135431464	T	T	135431464	4	4	58	1	0	0	0	0	0	1	0	0	6629	1233	43	3	5609	3	GPR112	23	135431464	Nonsense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6037050	135431464	19839096	1445	22820										
CDR1	1038	broad.mit.edu	37	chrX	139866314	139866314	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ccttgtcttccctcaaatccAtagcttccgaaaaatccagg	5	14	2	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:139866314A>G	uc004fbg.1	-	1	410	c.218T>C	c.(217-219)ATG>ACG	p.M73T	uc004fbf.1_RNA	NM_004065	NP_004056	P51861	CDR1_HUMAN	cerebellar degeneration-related protein 1,	73	23 X 6 AA approximate repeats.|12.										0	Acute lymphoblastic leukemia(192;7.65e-05)	Lung SC(4;0.051)				CCTCAAATCCATAGCTTCCGA	0.453													52	33	---	---	---	---	PASS	G	139866314	G	G	139866314	3	3	58	1	0	0	0	0	1	0	0	0	3171	217	8	5	574	5	CDR1	23	139866314	Missense_Mutation	SNP	A	TCGA-33-4566-01A-01D-1441-08	4434850	139866314	15404246	1446	22821										
MAGEC2	51438	broad.mit.edu	37	chrX	141291506	141291506	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggaaggaccctgtggaggacCctgtggaggactactgggaa	17	8	0	0			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:141291506C>A	uc004fbu.1	-	3	616	c.268G>T	c.(268-270)GGT>TGT	p.G90C		NM_016249	NP_057333	Q9UBF1	MAGC2_HUMAN	melanoma antigen family C, 2	90	Ser-rich.					cytoplasm|nucleus				breast(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					tgtggaggaccctgtggagga	0.418										HNSCC(46;0.14)			33	19	---	---	---	---	PASS	A	141291506	A	A	141291506	3	1	58	1	0	0	0	0	1	0	0	0	9181	623	22	3	857	3	MAGEC2	23	141291506	Missense_Mutation	SNP	C	TCGA-33-4566-01A-01D-1441-08	1425192	141291506	13979054	1447	22822										
SLITRK2	84631	broad.mit.edu	37	chrX	144906278	144906278	+	Frame_Shift_Del	DEL	T	-	-													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tccactataacttttgtaccTtacctaaaaggcagtttgcc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:144906278delT	uc004fcd.2	+	5	3325	c.2335delT	c.(2335-2337)TTAfs	p.L779fs	SLITRK2_uc010nsp.2_Frame_Shift_Del_p.L779fs|SLITRK2_uc010nso.2_Frame_Shift_Del_p.L779fs|SLITRK2_uc011mwq.1_Frame_Shift_Del_p.L779fs|SLITRK2_uc011mwr.1_Frame_Shift_Del_p.L779fs|SLITRK2_uc011mws.1_Frame_Shift_Del_p.L779fs|SLITRK2_uc004fcg.2_Frame_Shift_Del_p.L779fs|SLITRK2_uc011mwt.1_Frame_Shift_Del_p.L779fs|CXorf1_uc004fch.2_5'Flank	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	779	Cytoplasmic (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					CTTTTGTACCTTACCTAAAAG	0.458													76	113	---	---	---	---		-	144906278	-	-	144906278	7	5	58	1	0	1	0	1	0	0	0	0	14743	1606	56	0	2337	0	SLITRK2	23	144906278	Frame_Shift_Del	DEL	T	TCGA-33-4566-01A-01D-1441-08	3614772	144906278	10364282	1448	22823										
MAGEA4	4103	broad.mit.edu	37	chrX	151092212	151092212	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aagaagaggccctgggcctgGtgggtgcacaggctcctact	15	11	0	2			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:151092212G>T	uc004fez.2	+	3	232	c.76G>T	c.(76-78)GTG>TTG	p.V26L	MAGEA4_uc004ffa.2_Missense_Mutation_p.V26L|MAGEA4_uc004ffb.2_Missense_Mutation_p.V26L|MAGEA4_uc004ffc.2_Missense_Mutation_p.V26L|MAGEA4_uc004ffd.2_Missense_Mutation_p.V26L	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	26							protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCTGGGCCTGGTGGGTGCACA	0.617													42	13	---	---	---	---	PASS	T	151092212	T	T	151092212	3	4	58	1	0	0	0	0	1	0	0	0	9168	1261	44	3	78	3	MAGEA4	23	151092212	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	6185934	151092212	4178348	1449	22824										
PNCK	139728	broad.mit.edu	37	chrX	152937126	152937126	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	tggcatacaggaggttttcgGgctgtgacacacggacaccg	14	10	0	1			TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:152937126G>T	uc011myu.1	-	6	851	c.665C>A	c.(664-666)CCC>CAC	p.P222H	PNCK_uc011myt.1_Missense_Mutation_p.P156H|PNCK_uc004fia.2_Missense_Mutation_p.P151H|PNCK_uc004fhz.3_Missense_Mutation_p.P37H|PNCK_uc010nuh.2_3'UTR|PNCK_uc011myv.1_Missense_Mutation_p.P166H|PNCK_uc011myw.1_Missense_Mutation_p.P166H	NM_001039582	NP_001034671	Q6P2M8	KCC1B_HUMAN	pregnancy upregulated non-ubiquitously expressed	139	Protein kinase.					cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GAGGTTTTCGGGCTGTGACAC	0.597													70	38	---	---	---	---	PASS	T	152937126	T	T	152937126	3	4	58	1	0	0	0	0	1	0	0	0	12145	1246	43	3	639	3	PNCK	23	152937126	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1844914	152937126	2333434	1450	22825										
L1CAM	3897	broad.mit.edu	37	chrX	153130878	153130878	+	Silent	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	aggatgacactggtggtgttGgcgggcaccaccacatggtc							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:153130878G>T	uc004fjb.2	-	20	2733	c.2625C>A	c.(2623-2625)GCC>GCA	p.A875A	L1CAM_uc004fjc.2_Silent_p.A875A|L1CAM_uc010nuo.2_Silent_p.A870A	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	875	Extracellular (Potential).|Fibronectin type-III 3.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TGGTGGTGTTGGCGGGCACCA	0.602													81	30	---	---	---	---	PASS	T	153130878	T	T	153130878	2	4	58	1	0	0	0	0	0	0	0	1	8588	1335	47	3		3	L1CAM	23	153130878	Silent	SNP	G	TCGA-33-4566-01A-01D-1441-08	193752	153130878	2139682	1451	22826	508	2								
L1CAM	3897	broad.mit.edu	37	chrX	153130879	153130879	+	Missense_Mutation	SNP	G	T	T													0.0569219957835559	81	0.000102103201799059	1.56072692234789	1.43336063238855	1.66227572109925	0.0708815874253105	0.321693358314871	29	ggatgacactggtggtgttgGcgggcaccaccacatggtct							TCGA-33-4566-01A-01D-1441-08	TCGA-33-4566-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	ddd84ea3-dd5e-4f95-97c3-84c107c19cad	cf452c46-4f4d-40dd-b42f-e8e724a6109b	g.chrX:153130879G>T	uc004fjb.2	-	20	2732	c.2624C>A	c.(2623-2625)GCC>GAC	p.A875D	L1CAM_uc004fjc.2_Missense_Mutation_p.A875D|L1CAM_uc010nuo.2_Missense_Mutation_p.A870D	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	875	Extracellular (Potential).|Fibronectin type-III 3.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGTGGTGTTGGCGGGCACCAC	0.607													79	30	---	---	---	---	PASS	T	153130879	T	T	153130879	3	4	58	1	0	0	0	0	1	0	0	0	8588	1203	42	3	1185	3	L1CAM	23	153130879	Missense_Mutation	SNP	G	TCGA-33-4566-01A-01D-1441-08	1	153130879	2139681	1452	22827	508	2								
SPEN	23013	broad.mit.edu	37	chr1	16255242	16255242	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctcccctagttctcagtcttCagaaacggaccaagaaaatg	7	12	3	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:16255242C>T	uc001axk.1	+	11	2711	c.2507C>T	c.(2506-2508)TCA>TTA	p.S836L	SPEN_uc010obp.1_Missense_Mutation_p.S795L	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	836					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		TCTCAGTCTTCAGAAACGGAC	0.448													22	61	---	---	---	---	PASS	T	16255242	T	T	16255242	3	4	59	1	0	0	0	0	1	0	0	0	15037	838	29	2	2549	2	SPEN	1	16255242	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08		16255242	232995379	1	22828										
SDHB	6390	broad.mit.edu	37	chr1	17345379	17345379	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gtttagcatggaaacagttaAactgaagctttcttctcctt	7	8	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:17345379A>C	uc001bae.2	-	8	991	c.840T>G	c.(838-840)GTT>GTG	p.V280V		NM_003000	NP_002991	P21912	DHSB_HUMAN	succinate dehydrogenase complex, subunit B, iron	280					respiratory electron transport chain|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	2 iron, 2 sulfur cluster binding|3 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|protein binding|succinate dehydrogenase (ubiquinone) activity|ubiquinone binding			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0049)|COAD - Colon adenocarcinoma(227;1.18e-05)|BRCA - Breast invasive adenocarcinoma(304;2.41e-05)|Kidney(64;0.000188)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)	Succinic acid(DB00139)	GAAACAGTTAAACTGAAGCTT	0.333			Mis|N|F			paraganglioma|pheochromocytoma			Familial_Paragangliomas|Carney-Stratakis_syndrome|Cowden_syndrome				54	138	---	---	---	---	PASS	C	17345379	C	C	17345379	2	2	59	1	0	0	0	0	0	0	0	1	13965	1	1	5		5	SDHB	1	17345379	Silent	SNP	A	TCGA-33-4582-01A-01D-1441-08	1090137	17345379	231905242	2	22829										
PADI4	23569	broad.mit.edu	37	chr1	17668535	17668535	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aagcacaacatggacttctaCgtggaggccctcgctttccc	9	14	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:17668535C>T	uc001baj.2	+	7	778	c.750C>T	c.(748-750)TAC>TAT	p.Y250Y	PADI4_uc009vpc.2_Silent_p.Y250Y	NM_012387	NP_036519	Q9UM07	PADI4_HUMAN	peptidyl arginine deiminase, type IV	250					chromatin modification|peptidyl-citrulline biosynthetic process from peptidyl-arginine|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000338)|Lung NSC(340;0.00042)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00537)|BRCA - Breast invasive adenocarcinoma(304;8.54e-06)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(64;0.000223)|KIRC - Kidney renal clear cell carcinoma(64;0.00313)|STAD - Stomach adenocarcinoma(196;0.00707)|READ - Rectum adenocarcinoma(331;0.0689)|Lung(427;0.199)	L-Citrulline(DB00155)	TGGACTTCTACGTGGAGGCCC	0.607													15	50	---	---	---	---	PASS	T	17668535	T	T	17668535	2	4	59	1	0	0	0	0	0	0	0	1	11380	547	19	1		1	PADI4	1	17668535	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	323156	17668535	231582086	3	22830										
RPA2	6118	broad.mit.edu	37	chr1	28233712	28233712	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctgtgaaatctcaacattccCaattctgaacacttcatcaa	3	12	4	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:28233712C>A	uc001bpe.1	-	3	481	c.199G>T	c.(199-201)GGG>TGG	p.G67W	RPA2_uc001bpd.1_Missense_Mutation_p.G75W|RPA2_uc010ofp.1_5'UTR	NM_002946	NP_002937	P15927	RFA2_HUMAN	replication protein A2, 32kDa	67					cell cycle checkpoint|DNA recombinase assembly|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA gap filling|regulation of double-strand break repair via homologous recombination|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor A complex|PML body	protein phosphatase binding|single-stranded DNA binding			skin(1)	1		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00588)|all_lung(284;0.00645)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0429)|OV - Ovarian serous cystadenocarcinoma(117;3.62e-24)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;1.75e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00294)|STAD - Stomach adenocarcinoma(196;0.00308)|BRCA - Breast invasive adenocarcinoma(304;0.00613)|READ - Rectum adenocarcinoma(331;0.0649)		TCAACATTCCCAATTCTGAAC	0.353								Direct_reversal_of_damage|NER					41	156	---	---	---	---	PASS	A	28233712	A	A	28233712	3	1	59	1	0	0	0	0	1	0	0	0	13537	594	21	3	641	3	RPA2	1	28233712	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	10565177	28233712	221016909	4	22831										
COL16A1	1307	broad.mit.edu	37	chr1	32154546	32154546	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	agatgctgggcccctacaacCgagctgcaggacaagcaggg	14	12	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:32154546C>A	uc001btk.1	-	25	2048	c.1683G>T	c.(1681-1683)TCG>TCT	p.S561S	COL16A1_uc001btj.1_Silent_p.S390S|COL16A1_uc001btl.3_Silent_p.S561S	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	561	Nonhelical region 8 (NC8).				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		CCCCTACAACCGAGCTGCAGG	0.612													14	41	---	---	---	---	PASS	A	32154546	A	A	32154546	2	1	59	1	0	0	0	0	0	0	0	1	3673	639	23	1		1	COL16A1	1	32154546	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	3920834	32154546	217096075	5	22832										
BAI2	576	broad.mit.edu	37	chr1	32193848	32193848	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctggttgagctcgtggtagaGttctgaatgccgtttccggg	15	8	1	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:32193848G>C	uc001btn.2	-	31	4804	c.4450C>G	c.(4450-4452)CTC>GTC	p.L1484V	BAI2_uc001btm.2_Missense_Mutation_p.L478V|BAI2_uc001btp.1_Missense_Mutation_p.L478V|BAI2_uc010ogn.1_Missense_Mutation_p.L454V|BAI2_uc010ogo.1_Missense_Mutation_p.L1093V|BAI2_uc010ogp.1_Missense_Mutation_p.L1417V|BAI2_uc010ogq.1_Missense_Mutation_p.L1450V|BAI2_uc001bto.2_Missense_Mutation_p.L1483V	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	1484	Cytoplasmic (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)		TCGTGGTAGAGTTCTGAATGC	0.637													7	27	---	---	---	---	PASS	C	32193848	C	C	32193848	3	2	59	1	0	0	0	0	1	0	0	0	1299	1029	36	4	319	4	BAI2	1	32193848	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	39302	32193848	217056773	6	22833										
KLF17	128209	broad.mit.edu	37	chr1	44596261	44596261	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	atgagcttagacgacatatgCgggtacacaccagatatcga	10	9	0	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:44596261C>A	uc001clp.2	+	3	1061	c.1003C>A	c.(1003-1005)CGG>AGG	p.R335R		NM_173484	NP_775755	Q5JT82	KLF17_HUMAN	zinc finger protein 393	335	C2H2-type 2.				regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					ACGACATATGCGGGTACACAC	0.493													4	152	---	---	---	---	PASS	A	44596261	A	A	44596261	2	1	59	1	0	0	0	0	0	0	0	1	8345	759	27	1		1	KLF17	1	44596261	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	12402413	44596261	204654360	7	22834										
ANGPTL3	27329	broad.mit.edu	37	chr1	63068003	63068003	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gaatagatggatcacaaaacTtcaatgaaacgtgggagaac	10	6	2	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:63068003T>C	uc001das.1	+	5	934	c.883T>C	c.(883-885)TTC>CTC	p.F295L	DOCK7_uc001dan.2_Intron|DOCK7_uc001dao.2_Intron|DOCK7_uc001dap.2_Intron|DOCK7_uc001daq.2_Intron|DOCK7_uc009wah.1_Intron	NM_014495	NP_055310	Q9Y5C1	ANGL3_HUMAN	angiopoietin-like 3 precursor	295	Fibrinogen C-terminal.				acylglycerol homeostasis|artery morphogenesis|cell-matrix adhesion|cholesterol homeostasis|cholesterol metabolic process|fatty acid metabolic process|glycerol metabolic process|integrin-mediated signaling pathway|lipid storage|negative regulation of lipoprotein lipase activity|negative regulation of phospholipase activity|phospholipid catabolic process|phospholipid homeostasis|positive regulation of angiogenesis|positive regulation of cell migration|positive regulation of lipid catabolic process|triglyceride homeostasis	extracellular space	cell surface binding|growth factor activity|integrin binding|phospholipase inhibitor activity				0						ATCACAAAACTTCAATGAAAC	0.294													3	153	---	---	---	---	PASS	C	63068003	C	C	63068003	3	2	59	1	0	0	0	0	1	0	0	0	615	1609	56	5	901	5	ANGPTL3	1	63068003	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	18471742	63068003	186182618	8	22835										
LRRC7	57554	broad.mit.edu	37	chr1	70484480	70484480	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgactaactacatgtttcccCagcagcctcgtggtgatgaa	9	11	0	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:70484480C>A	uc001dep.2	+	13	1315	c.1285C>A	c.(1285-1287)CAG>AAG	p.Q429K	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	429						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CATGTTTCCCCAGCAGCCTCG	0.368													9	51	---	---	---	---	PASS	A	70484480	A	A	70484480	3	1	59	1	0	0	0	0	1	0	0	0	9020	595	21	3	1335	3	LRRC7	1	70484480	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	7416477	70484480	178766141	9	22836										
ADAMTSL4	54507	broad.mit.edu	37	chr1	150526192	150526192	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgctcagacagaggtggcccCcagaaccaggcctgcccccc	11	18	1	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:150526192C>A	uc001eux.2	+	6	961	c.725C>A	c.(724-726)CCC>CAC	p.P242H	ADAMTSL4_uc001euw.2_Missense_Mutation_p.P242H|ADAMTSL4_uc009wlw.2_Missense_Mutation_p.P242H|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.P242H	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	242					apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			GAGGTGGCCCCCAGAACCAGG	0.632													4	74	---	---	---	---	PASS	A	150526192	A	A	150526192	3	1	59	1	0	0	0	0	1	0	0	0	277	623	22	3	739	3	ADAMTSL4	1	150526192	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	80041712	150526192	98724429	10	22837										
CREB3L4	148327	broad.mit.edu	37	chr1	153941878	153941878	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	agctgccctttgatgctcatGcccacatcctgcccagagca	8	16	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:153941878G>T	uc001fdn.3	+	4	756	c.490G>T	c.(490-492)GCC>TCC	p.A164S	SLC39A1_uc001fdl.2_5'Flank|CREB3L4_uc010pef.1_Missense_Mutation_p.A17S|CREB3L4_uc001fdo.3_Missense_Mutation_p.A144S|CREB3L4_uc001fdm.1_Missense_Mutation_p.A164S|CREB3L4_uc001fdp.1_Missense_Mutation_p.A144S|CREB3L4_uc010peg.1_3'UTR|CREB3L4_uc001fdr.2_Missense_Mutation_p.A164S|CREB3L4_uc001fdq.2_Missense_Mutation_p.A144S	NM_130898	NP_570968	Q8TEY5	CR3L4_HUMAN	cAMP responsive element binding protein 3-like	164	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TGATGCTCATGCCCACATCCT	0.532													27	63	---	---	---	---	PASS	T	153941878	T	T	153941878	3	4	59	1	0	0	0	0	1	0	0	0	3859	1319	46	3	500	3	CREB3L4	1	153941878	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	3415686	153941878	95308743	11	22838										
FCRL1	115350	broad.mit.edu	37	chr1	157771861	157771861	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ccccagggtgatatcctcgtGataaaaccagtacaggatcg	10	11	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:157771861G>T	uc001frg.2	-	5	843	c.730C>A	c.(730-732)CAC>AAC	p.H244N	FCRL1_uc001frf.2_RNA|FCRL1_uc001frh.2_Missense_Mutation_p.H244N|FCRL1_uc001fri.2_Missense_Mutation_p.H244N|FCRL1_uc001frj.2_RNA	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	244	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			ATATCCTCGTGATAAAACCAG	0.582													8	55	---	---	---	---	PASS	T	157771861	T	T	157771861	3	4	59	1	0	0	0	0	1	0	0	0	5794	1290	45	2	653	2	FCRL1	1	157771861	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	3829983	157771861	91478760	12	22839										
METTL13	51603	broad.mit.edu	37	chr1	171756950	171756950	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	actgcagccccttgagcggtGactatgtcattgaggatgtg	13	9	1	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:171756950G>A	uc001ghz.2	+	4	1536	c.1189G>A	c.(1189-1191)GAC>AAC	p.D397N	METTL13_uc001gia.2_Missense_Mutation_p.D311N|METTL13_uc001gib.2_Missense_Mutation_p.D241N|METTL13_uc010pml.1_Missense_Mutation_p.D396N	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	397							methyltransferase activity|protein binding			kidney(1)	1						CTTGAGCGGTGACTATGTCAT	0.552													12	41	---	---	---	---	PASS	A	171756950	A	A	171756950	3	1	59	1	0	0	0	0	1	0	0	0	9497	1290	45	2	1203	2	METTL13	1	171756950	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	13985089	171756950	77493671	13	22840										
NPL	80896	broad.mit.edu	37	chr1	182775341	182775341	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gagcgtcgccaggttgcagaGgagtgggtgacaaaagggaa	18	6	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:182775341G>T	uc009wyb.2	+	5	344	c.204G>T	c.(202-204)GAG>GAT	p.E68D	NPL_uc010pnx.1_Translation_Start_Site|NPL_uc010pny.1_RNA|NPL_uc001gpo.1_Translation_Start_Site|NPL_uc009wyc.2_Missense_Mutation_p.E68D|NPL_uc001gpp.3_Missense_Mutation_p.E68D|NPL_uc001gpq.1_Missense_Mutation_p.E68D	NM_030769	NP_110396	Q9BXD5	NPL_HUMAN	N-acetylneuraminate pyruvate lyase	68					carbohydrate metabolic process	cytoplasm	N-acetylneuraminate lyase activity			ovary(1)|central_nervous_system(1)|skin(1)	3						AGGTTGCAGAGGAGTGGGTGA	0.522													8	30	---	---	---	---	PASS	T	182775341	T	T	182775341	3	4	59	1	0	0	0	0	1	0	0	0	10585	991	35	3	214	3	NPL	1	182775341	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	11018391	182775341	66475280	14	22841										
SYT2	127833	broad.mit.edu	37	chr1	202572184	202572184	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	agtttgcccaggttctctggCtctttctcctcctccccttc	6	17	3	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:202572184C>T	uc001gye.2	-	4	601	c.408G>A	c.(406-408)GAG>GAA	p.E136E	SYT2_uc010pqb.1_Silent_p.E136E|SYT2_uc009xaf.2_5'UTR	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	136	Phospholipid binding (By similarity).|Cytoplasmic (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	GGTTCTCTGGCTCTTTCTCCT	0.572													25	100	---	---	---	---	PASS	T	202572184	T	T	202572184	2	4	59	1	0	0	0	0	0	0	0	1	15471	796	28	3		3	SYT2	1	202572184	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	19796843	202572184	46678437	15	22842										
SYT2	127833	broad.mit.edu	37	chr1	202574736	202574736	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cactcacagggaatcttgttTatctcattgaataacttctc	5	10	4	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:202574736T>G	uc001gye.2	-	2	358	c.165A>C	c.(163-165)ATA>ATC	p.I55I	SYT2_uc010pqb.1_Silent_p.I55I|SYT2_uc009xaf.2_Intron	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	55	Vesicular (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	GAATCTTGTTTATCTCATTGA	0.537													19	64	---	---	---	---	PASS	G	202574736	G	G	202574736	2	3	59	1	0	0	0	0	0	0	0	1	15471	1744	61	5		5	SYT2	1	202574736	Silent	SNP	T	TCGA-33-4582-01A-01D-1441-08	2552	202574736	46675885	16	22843										
CNTN2	6900	broad.mit.edu	37	chr1	205033505	205033505	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cgtctgatccccgcggcccgCgggggagagatccttatccc	13	16	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:205033505C>A	uc001hbr.2	+	11	1565	c.1296C>A	c.(1294-1296)CGC>CGA	p.R432R	CNTN2_uc001hbq.1_Silent_p.R323R|CNTN2_uc001hbs.2_Silent_p.R220R	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	432	Ig-like C2-type 5.				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)			CCGCGGCCCGCGGGGGAGAGA	0.612													80	123	---	---	---	---	PASS	A	205033505	A	A	205033505	2	1	59	1	0	0	0	0	0	0	0	1	3641	755	27	1		1	CNTN2	1	205033505	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	2458769	205033505	44217116	17	22844										
PM20D1	148811	broad.mit.edu	37	chr1	205813990	205813990	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gatcttcgggggatgtacttCctgatcagcaggagctccaa	12	10	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:205813990C>A	uc001hdj.2	-	4	570	c.525G>T	c.(523-525)AGG>AGT	p.R175S	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	175						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			GGATGTACTTCCTGATCAGCA	0.493													22	65	---	---	---	---	PASS	A	205813990	A	A	205813990	3	1	59	1	0	0	0	0	1	0	0	0	12128	854	30	2	1023	2	PM20D1	1	205813990	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	780485	205813990	43436631	18	22845										
PLXNA2	5362	broad.mit.edu	37	chr1	208257880	208257880	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ggtgattggctttacctcccCgactggaatcaagatctcct	9	12	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:208257880C>T	uc001hgz.2	-	10	2901	c.2143G>A	c.(2143-2145)GGG>AGG	p.G715R		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	715	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		TTTACCTCCCCGACTGGAATC	0.572													16	101	---	---	---	---	PASS	T	208257880	T	T	208257880	3	4	59	1	0	0	0	0	1	0	0	0	12120	652	23	1	3633	1	PLXNA2	1	208257880	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	2443890	208257880	40992741	19	22846										
KCNH1	3756	broad.mit.edu	37	chr1	211093061	211093061	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttcccaaagcccacactggtGaggctggtcattgtgaaata	10	10	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:211093061G>A	uc001hib.2	-	7	1553	c.1383C>T	c.(1381-1383)CTC>CTT	p.L461L	KCNH1_uc001hic.2_Silent_p.L434L	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	461					myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		CCACACTGGTGAGGCTGGTCA	0.507													34	112	---	---	---	---	PASS	A	211093061	A	A	211093061	2	1	59	1	0	0	0	0	0	0	0	1	8031	1277	45	2		2	KCNH1	1	211093061	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	2835181	211093061	38157560	20	22847										
USH2A	7399	broad.mit.edu	37	chr1	215848418	215848418	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ccaggaaatcagcagtttttGgggattcatagaaacatagg	11	6	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:215848418G>A	uc001hku.1	-	63	13222	c.12835C>T	c.(12835-12837)CAA>TAA	p.Q4279*		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4279	Fibronectin type-III 28.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AGCAGTTTTTGGGgattcata	0.358										HNSCC(13;0.011)			15	84	---	---	---	---	PASS	A	215848418	A	A	215848418	4	1	59	1	0	0	0	0	0	1	0	0	17033	1357	47	3	2813	3	USH2A	1	215848418	Nonsense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	4755357	215848418	33402203	21	22848										
PARP1	142	broad.mit.edu	37	chr1	226567635	226567635	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gccctcaccttcctccttgaCctggcccttgctttttttgg	7	16	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:226567635C>T	uc001hqd.3	-	10	1702	c.1531G>A	c.(1531-1533)GTC>ATC	p.V511I		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	511	Automodification domain.				cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		TCCTCCTTGACCTGGCCCTTG	0.607								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					23	162	---	---	---	---	PASS	T	226567635	T	T	226567635	3	4	59	1	0	0	0	0	1	0	0	0	11454	507	18	3	1569	3	PARP1	1	226567635	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	10719217	226567635	22682986	22	22849										
KCNK1	3775	broad.mit.edu	37	chr1	233807193	233807193	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cgatcacagaccaggcagctGgcatgaaagaggaccagaag	13	10	1	4			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:233807193G>A	uc010pxo.1	+	3	1096	c.928G>A	c.(928-930)GGC>AGC	p.G310S	KCNK1_uc001hvw.2_RNA|KCNK1_uc001hvx.2_RNA	NM_002245	NP_002236	O00180	KCNK1_HUMAN	potassium channel, subfamily K, member 1	310	Cytoplasmic (Potential).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			central_nervous_system(1)	1		all_cancers(173;0.00217)|all_epithelial(177;0.121)|Prostate(94;0.122)|Acute lymphoblastic leukemia(190;0.175)			Ibutilide(DB00308)|Quinidine(DB00908)	CCAGGCAGCTGGCATGAAAGA	0.502													9	32	---	---	---	---	PASS	A	233807193	A	A	233807193	3	1	59	1	0	0	0	0	1	0	0	0	8058	1348	47	3	938	3	KCNK1	1	233807193	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	7239558	233807193	15443428	23	22850										
FH	2271	broad.mit.edu	37	chr1	241669322	241669322	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cctgtaagtgcagccactttTgcagcaaccttttctgcaaa	7	12	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:241669322T>C	uc001hyx.2	-	6	917	c.885A>G	c.(883-885)GCA>GCG	p.A295A		NM_000143	NP_000134	P07954	FUMH_HUMAN	fumarate hydratase precursor	295					fumarate metabolic process|tricarboxylic acid cycle	cell junction|mitochondrial matrix|tricarboxylic acid cycle enzyme complex	fumarate hydratase activity			lung(3)|ovary(1)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;2.37e-314)|all_epithelial(177;5.17e-286)|Breast(1374;1.06e-10)|Acute lymphoblastic leukemia(190;4.93e-10)|all_neural(198;0.00118)	OV - Ovarian serous cystadenocarcinoma(106;0.0214)	Colorectal(1306;2.33e-53)|COAD - Colon adenocarcinoma(196;1.05e-44)|KIRC - Kidney renal clear cell carcinoma(1967;0.000109)		CAGCCACTTTTGCAGCAACCT	0.413			Mis|N|F			lieomyomatosis|renal			Hereditary_Leiomyomatosis_and_Renal_Cell_Cancer				35	56	---	---	---	---	PASS	C	241669322	C	C	241669322	2	2	59	1	0	0	0	0	0	0	0	1	5875	1799	63	5		5	FH	1	241669322	Silent	SNP	T	TCGA-33-4582-01A-01D-1441-08	7862129	241669322	7581299	24	22851										
OR2T29	343563	broad.mit.edu	37	chr1	248722769	248722769	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tccaaccttccagtgtggttGgccatcctggtgatgttggc	12	11	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr1:248722769G>A	uc001ieo.1	-	1	6	c.6C>T	c.(4-6)GCC>GCT	p.A2A		NM_001004694	NP_001004694	Q8NH02	O2T29_HUMAN	olfactory receptor, family 2, subfamily T,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CAGTGTGGTTGGCCATCCTGG	0.473													8	37	---	---	---	---	PASS	A	248722769	A	A	248722769	2	1	59	1	0	0	0	0	0	0	0	1	11022	1335	47	3		3	OR2T29	1	248722769	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	7053447	248722769	527852	25	22852										
MYT1L	23040	broad.mit.edu	37	chr2	1906962	1906962	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	attcaaacgaggtcttggaaTatttctcgagctccttggcc	9	10	3	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:1906962T>G	uc002qxe.2	-	14	2749	c.1922A>C	c.(1921-1923)TAT>TCT	p.Y641S	MYT1L_uc002qxd.2_Missense_Mutation_p.Y639S|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	641					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		GGTCTTGGAATATTTCTCGAG	0.488													14	93	---	---	---	---	PASS	G	1906962	G	G	1906962	3	3	59	1	0	0	0	0	1	0	0	0	10107	1406	49	5	1686	5	MYT1L	2	1906962	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08		1906962	241292411	26	22853										
MYT1L	23040	broad.mit.edu	37	chr2	1926988	1926988	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	attattgttatcatccttttCtgtgtcttgcattattcgag	6	7	3	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:1926988C>G	uc002qxe.2	-	10	1380	c.553G>C	c.(553-555)GAA>CAA	p.E185Q	MYT1L_uc002qxd.2_Missense_Mutation_p.E185Q|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	185					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		TCATCCTTTTCTGTGTCTTGC	0.333													3	18	---	---	---	---	PASS	G	1926988	G	G	1926988	3	3	59	1	0	0	0	0	1	0	0	0	10107	922	32	2	3065	2	MYT1L	2	1926988	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	20026	1926988	241272385	27	22854										
DDX1	1653	broad.mit.edu	37	chr2	15760450	15760450	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctctgttccagatactgtacAccatgttgttgtcccagtaa	7	11	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:15760450A>T	uc002rce.2	+	17	1613	c.1325A>T	c.(1324-1326)CAC>CTC	p.H442L	DDX1_uc010yjq.1_Missense_Mutation_p.H350L	NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	442	Necessary for interaction with RELA.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		GATACTGTACACCATGTTGTT	0.378													20	86	---	---	---	---	PASS	T	15760450	T	T	15760450	3	4	59	1	0	0	0	0	1	0	0	0	4341	159	6	5	1391	5	DDX1	2	15760450	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	13833462	15760450	227438923	28	22855										
ASXL2	55252	broad.mit.edu	37	chr2	25966231	25966231	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttgtgttggtagctatgagcGctcccatccccctttcctct	8	14	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:25966231G>A	uc002rgs.2	-	12	3196	c.2975C>T	c.(2974-2976)GCG>GTG	p.A992V	ASXL2_uc002rgt.1_Intron	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	992					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGCTATGAGCGCTCCCATCCC	0.483													52	41	---	---	---	---	PASS	A	25966231	A	A	25966231	3	1	59	1	0	0	0	0	1	0	0	0	1067	1087	38	1	1336	1	ASXL2	2	25966231	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	10205781	25966231	217233142	29	22856										
C2orf16	84226	broad.mit.edu	37	chr2	27799449	27799449	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	atgtaaaacctatggagctgAcaccaggggcccaacagcaa	10	11	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:27799449A>C	uc002rkz.3	+	1	61	c.10A>C	c.(10-12)ACA>CCA	p.T4P		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	4										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					TATGGAGCTGACACCAGGGGC	0.433													6	38	---	---	---	---	PASS	C	27799449	C	C	27799449	3	2	59	1	0	0	0	0	1	0	0	0	2157	275	10	5	12	5	C2orf16	2	27799449	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	1833218	27799449	215399924	30	22857										
TRMT61B	55006	broad.mit.edu	37	chr2	29093054	29093054	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gaccgagctccctcgaagggCtcctgccccaggccgtgcag	13	17	0	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:29093054C>T	uc002rmm.2	-	1	122	c.90G>A	c.(88-90)GAG>GAA	p.E30E	TRMT61B_uc002rmn.2_Silent_p.E30E|TRMT61B_uc010ezk.2_RNA	NM_017910	NP_060380	Q9BVS5	TR61B_HUMAN	tRNA methyltransferase 61 homolog B	30							tRNA (adenine-N1-)-methyltransferase activity				0						CCTCGAAGGGCTCCTGCCCCA	0.617													4	36	---	---	---	---	PASS	T	29093054	T	T	29093054	2	4	59	1	0	0	0	0	0	0	0	1	16567	796	28	3		3	TRMT61B	2	29093054	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	1293605	29093054	214106319	31	22858										
BIRC6	57448	broad.mit.edu	37	chr2	32836642	32836642	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tatgtctcaccatgcagcagCtctcaaggtgagtaagcctc	9	12	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:32836642C>G	uc010ezu.2	+	73	14521	c.14387C>G	c.(14386-14388)GCT>GGT	p.A4796G		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4796					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)					CATGCAGCAGCTCTCAAGGTG	0.483													39	27	---	---	---	---	PASS	G	32836642	G	G	32836642	3	3	59	1	0	0	0	0	1	0	0	0	1438	797	28	4	14677	4	BIRC6	2	32836642	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	3743588	32836642	210362731	32	22859										
NRXN1	9378	broad.mit.edu	37	chr2	50573836	50573836	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	atcgcagacccaccgtgtccGcctcgcaaggatgccggtga	12	15	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:50573836G>T	uc010fbp.2	-	1	1059	c.252C>A	c.(250-252)GGC>GGA	p.G84G	NRXN1_uc002rxb.3_Intron|NRXN1_uc010fbq.2_Intron|NRXN1_uc002rxe.3_Intron|NRXN1_uc002rxc.1_Intron	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	84	Extracellular (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CACCGTGTCCGCCTCGCAAGG	0.572													17	65	---	---	---	---	PASS	T	50573836	T	T	50573836	2	4	59	1	0	0	0	0	0	0	0	1	10665	1074	38	1		1	NRXN1	2	50573836	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	17737194	50573836	192625537	33	22860										
NRXN1	9378	broad.mit.edu	37	chr2	51253554	51253554	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tatacaacagtattttccttGgtcattgtcatgtaacagca	6	8	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:51253554G>A	uc010fbq.2	-	3	2303	c.826C>T	c.(826-828)CAA>TAA	p.Q276*	NRXN1_uc002rxe.3_Intron|NRXN1_uc002rxd.1_Intron	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TATTTTCCTTGGTCATTGTCA	0.378													3	23	---	---	---	---	PASS	A	51253554	A	A	51253554	4	1	59	1	0	0	0	0	0	1	0	0	10665	1357	47	3	4168	3	NRXN1	2	51253554	Nonsense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	679718	51253554	191945819	34	22861										
VRK2	7444	broad.mit.edu	37	chr2	58366957	58366957	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tataaatgtccatactccaaAcagtcaaaaagtaagtaaca	4	8	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:58366957A>C	uc002rzo.2	+	14	1758	c.1013A>C	c.(1012-1014)AAC>ACC	p.N338T	VRK2_uc010fcb.2_Missense_Mutation_p.N338T|VRK2_uc002rzs.2_Missense_Mutation_p.N338T|VRK2_uc002rzr.2_Missense_Mutation_p.N338T|VRK2_uc010fcc.2_Missense_Mutation_p.N220T|VRK2_uc002rzv.2_Missense_Mutation_p.N338T|VRK2_uc010fcd.2_Missense_Mutation_p.N315T|VRK2_uc002rzp.2_Missense_Mutation_p.N338T|VRK2_uc010ypg.1_Missense_Mutation_p.N338T|VRK2_uc002rzq.2_Missense_Mutation_p.N338T|VRK2_uc002rzu.2_Missense_Mutation_p.N338T|VRK2_uc002rzt.2_Missense_Mutation_p.N220T	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	338						integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						CATACTCCAAACAGTCAAAAA	0.353													17	87	---	---	---	---	PASS	C	58366957	C	C	58366957	3	2	59	1	0	0	0	0	1	0	0	0	17217	43	2	5	1051	5	VRK2	2	58366957	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	7113403	58366957	184832416	35	22862										
PELI1	57162	broad.mit.edu	37	chr2	64331869	64331869	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gagtacaagcaatatgcacaGtgctgggcttcaccccattt	9	11	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:64331869G>C	uc002scs.3	-	2	4206	c.167C>G	c.(166-168)ACT>AGT	p.T56S	PELI1_uc002sct.3_Missense_Mutation_p.T56S|PELI1_uc002scu.1_RNA	NM_020651	NP_065702	Q96FA3	PELI1_HUMAN	pellino protein	56					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol				ovary(1)	1						AATATGCACAGTGCTGGGCTT	0.378													18	111	---	---	---	---	PASS	C	64331869	C	C	64331869	3	2	59	1	0	0	0	0	1	0	0	0	11721	1029	36	4	1109	4	PELI1	2	64331869	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	5964912	64331869	178867504	36	22863										
SLC4A5	57835	broad.mit.edu	37	chr2	74474421	74474421	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gaggcggaactccatgtagtCcaggccattgcctctggaag	13	11	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:74474421C>T	uc002sko.1	-	14	1803	c.1801G>A	c.(1801-1803)GAC>AAC	p.D601N	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Missense_Mutation_p.D601N|SLC4A5_uc010ffc.1_Missense_Mutation_p.D601N|SLC4A5_uc002skp.1_Missense_Mutation_p.D537N|SLC4A5_uc002sks.1_Missense_Mutation_p.D601N	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	601	Cytoplasmic (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						TCCATGTAGTCCAGGCCATTG	0.557													8	61	---	---	---	---	PASS	T	74474421	T	T	74474421	3	4	59	1	0	0	0	0	1	0	0	0	14657	855	30	2	1664	2	SLC4A5	2	74474421	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	10142552	74474421	168724952	37	22864										
ASTL	431705	broad.mit.edu	37	chr2	96799269	96799269	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gagcctccaggatgacctggCggctgggctcatctggaaga	15	11	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:96799269C>T	uc010yui.1	-	5	350	c.350G>A	c.(349-351)CGC>CAC	p.R117H		NM_001002036	NP_001002036	Q6HA08	ASTL_HUMAN	astacin-like metalloendopeptidase precursor	117					proteolysis		metalloendopeptidase activity|zinc ion binding				0						GATGACCTGGCGGCTGGGCTC	0.567													17	67	---	---	---	---	PASS	T	96799269	T	T	96799269	3	4	59	1	0	0	0	0	1	0	0	0	1063	768	27	1	964	1	ASTL	2	96799269	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	22324848	96799269	146400104	38	22865										
IL18RAP	8807	broad.mit.edu	37	chr2	103040576	103040576	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ataattctgggtcatatattTgtagacccaagatgattaag	8	5	2	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:103040576T>A	uc002tbx.2	+	4	860	c.376T>A	c.(376-378)TGT>AGT	p.C126S	IL18RAP_uc010fiz.2_Intron	NM_003853	NP_003844	O95256	I18RA_HUMAN	interleukin 18 receptor accessory protein	126	Extracellular (Potential).				cell surface receptor linked signaling pathway|inflammatory response|innate immune response	integral to membrane	transmembrane receptor activity			skin(3)|ovary(2)	5						GTCATATATTTGTAGACCCAA	0.353													12	109	---	---	---	---	PASS	A	103040576	A	A	103040576	3	1	59	1	0	0	0	0	1	0	0	0	7648	1812	63	5	382	5	IL18RAP	2	103040576	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	6241307	103040576	140158797	39	22866										
FOXD4L1	200350	broad.mit.edu	37	chr2	114257312	114257312	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cagcatccgccacaacctctCgctgaacgactgcttcgtca	7	17	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:114257312C>T	uc002tjw.3	+	1	652	c.479C>T	c.(478-480)TCG>TTG	p.S160L		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	160	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0						CACAACCTCTCGCTGAACGAC	0.647													8	229	---	---	---	---	PASS	T	114257312	T	T	114257312	3	4	59	1	0	0	0	0	1	0	0	0	6000	893	31	2	481	2	FOXD4L1	2	114257312	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	11216736	114257312	128942061	40	22867										
THSD7B	80731	broad.mit.edu	37	chr2	138030207	138030207	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	atgaggagagagagtgtgaaGatgtttccttgtgtcctgta	14	4	0	5			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:138030207G>A	uc002tva.1	+	10	2278	c.2278G>A	c.(2278-2280)GAT>AAT	p.D760N	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.D650N	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AGAGTGTGAAGATGTTTCCTT	0.388													15	25	---	---	---	---	PASS	A	138030207	A	A	138030207	3	1	59	1	0	0	0	0	1	0	0	0	15877	942	33	2	2316	2	THSD7B	2	138030207	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	23772895	138030207	105169166	41	22868										
LRP1B	53353	broad.mit.edu	37	chr2	141819824	141819824	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	actttggcgacattcccgtaGtcagtaaagaaaagttttct	8	8	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:141819824G>A	uc002tvj.1	-	8	2004	c.1032C>T	c.(1030-1032)GAC>GAT	p.D344D	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	344	Extracellular (Potential).|LDL-receptor class B 3.				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)		CATTCCCGTAGTCAGTAAAGA	0.443										TSP Lung(27;0.18)			4	45	---	---	---	---	PASS	A	141819824	A	A	141819824	2	1	59	1	0	0	0	0	0	0	0	1	8955	1020	36	3		3	LRP1B	2	141819824	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	3789617	141819824	101379549	42	22869										
TTC21B	79809	broad.mit.edu	37	chr2	166758329	166758329	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aatgttttgcaatctctgcaCaaatttcagctgctaaatgt	6	8	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:166758329C>G	uc002udk.2	-	20	2793	c.2660G>C	c.(2659-2661)TGT>TCT	p.C887S		NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	887	TPR 13.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						AATCTCTGCACAAATTTCAGC	0.408													46	52	---	---	---	---	PASS	G	166758329	G	G	166758329	3	3	59	1	0	0	0	0	1	0	0	0	16685	478	17	4	1330	4	TTC21B	2	166758329	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	24938505	166758329	76441044	43	22870										
SCN9A	6335	broad.mit.edu	37	chr2	167141004	167141004	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	atctattatcacctctggcaGaagctgtccattggggagca	10	10	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:167141004G>A	uc010fpl.2	-	12	2274	c.1933C>T	c.(1933-1935)CTG>TTG	p.L645L	uc002udp.2_Intron|SCN9A_uc002udr.1_Silent_p.L516L|SCN9A_uc002uds.1_Silent_p.L516L|SCN9A_uc002udt.1_Silent_p.L516L	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	645						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	ACCTCTGGCAGAAGCTGTCCA	0.542													8	27	---	---	---	---	PASS	A	167141004	A	A	167141004	2	1	59	1	0	0	0	0	0	0	0	1	13925	933	33	2		2	SCN9A	2	167141004	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	382675	167141004	76058369	44	22871										
ABCB11	8647	broad.mit.edu	37	chr2	169792886	169792886	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aaaggagaaggcaatgatcaTggccacagtgacgttagtga	13	6	1	4			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:169792886T>G	uc002ueo.1	-	22	2794	c.2668A>C	c.(2668-2670)ATG>CTG	p.M890L	ABCB11_uc010zda.1_Missense_Mutation_p.M332L|ABCB11_uc010zdb.1_Missense_Mutation_p.M366L	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	890	Helical; (Potential).|ABC transmembrane type-1 2.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	GCAATGATCATGGCCACAGTG	0.507													17	123	---	---	---	---	PASS	G	169792886	G	G	169792886	3	3	59	1	0	0	0	0	1	0	0	0	42	1464	51	5	1325	5	ABCB11	2	169792886	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	2651882	169792886	73406487	45	22872										
PPIG	9360	broad.mit.edu	37	chr2	170493661	170493661	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aggagagactcacggagctcAgagagagaagaaagtcaaag	14	6	3	4			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:170493661A>T	uc002uez.2	+	14	2113	c.1893A>T	c.(1891-1893)TCA>TCT	p.S631S	PPIG_uc010fpx.2_Silent_p.S616S|PPIG_uc010fpy.2_Silent_p.S624S|PPIG_uc002ufb.2_Silent_p.S631S|PPIG_uc002ufd.2_Silent_p.S628S	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G	631	Arg/Ser-rich (RS domain).				protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	CACGGAGCTCAGAGAGAGAAG	0.438													7	65	---	---	---	---	PASS	T	170493661	T	T	170493661	2	4	59	1	0	0	0	0	0	0	0	1	12324	175	7	5		5	PPIG	2	170493661	Silent	SNP	A	TCGA-33-4582-01A-01D-1441-08	700775	170493661	72705712	46	22873										
METTL8	79828	broad.mit.edu	37	chr2	172216968	172216968	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gactcgcacagctgagttttCttttactttttttctggctg	8	9	2	1	rs112550880		TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:172216968C>G	uc010zdo.1	-	3	340	c.199G>C	c.(199-201)GAA>CAA	p.E67Q	METTL8_uc002ugu.3_Missense_Mutation_p.E67Q|METTL8_uc002ugv.3_Missense_Mutation_p.E67Q|METTL8_uc002ugt.3_Missense_Mutation_p.E67Q|METTL8_uc002ugs.3_Missense_Mutation_p.E17Q|METTL8_uc010zdp.1_Missense_Mutation_p.E22Q	NM_024770	NP_079046	B3KW44	B3KW44_HUMAN	methyltransferase like 8	67							methyltransferase activity			ovary(1)	1						GCTGAGTTTTCTTTTACTTTT	0.418													17	83	---	---	---	---	PASS	G	172216968	G	G	172216968	3	3	59	1	0	0	0	0	1	0	0	0	9507	922	32	2	1056	2	METTL8	2	172216968	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	1723307	172216968	70982405	47	22874										
HOXD3	3232	broad.mit.edu	37	chr2	177036830	177036830	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gtccgggcctgtcttcaaccTgggccacctctcgcacccgt	10	18	3	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:177036830T>A	uc002ukt.1	+	3	1303	c.1127T>A	c.(1126-1128)CTG>CAG	p.L376Q		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	376					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		GTCTTCAACCTGGGCCACCTC	0.687													4	38	---	---	---	---	PASS	A	177036830	A	A	177036830	3	1	59	1	0	0	0	0	1	0	0	0	7323	1580	55	5	1133	5	HOXD3	2	177036830	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	4819862	177036830	66162543	48	22875										
TTN	7273	broad.mit.edu	37	chr2	179413936	179413936	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgagtcttgagatgccacttGcaggtccaactcctgcagca	10	12	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:179413936G>A	uc010zfg.1	-	288	84937	c.84713C>T	c.(84712-84714)GCA>GTA	p.A28238V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A21933V|TTN_uc010zfi.1_Missense_Mutation_p.A21866V|TTN_uc010zfj.1_Missense_Mutation_p.A21741V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29165							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)			GATGCCACTTGCAGGTCCAAC	0.468													35	52	---	---	---	---	PASS	A	179413936	A	A	179413936	3	1	59	1	0	0	0	0	1	0	0	0	16732	1319	46	3	15658	3	TTN	2	179413936	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	2377106	179413936	63785437	49	22876										
TTN	7273	broad.mit.edu	37	chr2	179471837	179471837	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	taacacggaacttatattctTgtccctcaagcagacctgtg	7	11	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:179471837T>C	uc010zfg.1	-	227	46012	c.45788A>G	c.(45787-45789)CAA>CGA	p.Q15263R	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q8958R|TTN_uc010zfi.1_Missense_Mutation_p.Q8891R|TTN_uc010zfj.1_Missense_Mutation_p.Q8766R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16190							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)			CTTATATTCTTGTCCCTCAAG	0.413													25	313	---	---	---	---	PASS	C	179471837	C	C	179471837	3	2	59	1	0	0	0	0	1	0	0	0	16732	1812	63	5	54541	5	TTN	2	179471837	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	57901	179471837	63727536	50	22877										
DNAH7	56171	broad.mit.edu	37	chr2	196765213	196765213	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	atcattgctactgtccgaaaGagagcctatgggtaggtaga	12	7	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr2:196765213G>T	uc002utj.3	-	28	4442	c.4341C>A	c.(4339-4341)CTC>CTA	p.L1447L		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1447	AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CTGTCCGAAAGAGAGCCTATG	0.303													22	110	---	---	---	---	PASS	T	196765213	T	T	196765213	2	4	59	1	0	0	0	0	0	0	0	1	4606	929	33	2		2	DNAH7	2	196765213	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	17293376	196765213	46434160	51	22878										
MYRIP	25924	broad.mit.edu	37	chr3	40286056	40286056	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctggcggatctggaggaccaGgtggccacggctgcagccca	16	13	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:40286056G>A	uc003cka.2	+	13	2355	c.2220G>A	c.(2218-2220)CAG>CAA	p.Q740Q	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Silent_p.Q675Q|MYRIP_uc010hhw.2_Silent_p.Q651Q|MYRIP_uc011ayz.1_Silent_p.Q553Q|uc003ckb.2_Intron	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	740	Actin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		TGGAGGACCAGGTGGCCACGG	0.607													10	41	---	---	---	---	PASS	A	40286056	A	A	40286056	2	1	59	1	0	0	0	0	0	0	0	1	10100	991	35	3		3	MYRIP	3	40286056	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08		40286056	157736374	52	22879										
NKTR	4820	broad.mit.edu	37	chr3	42680326	42680326	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aggaatcaaaagagaaaaaaGtttctgaaaacaatgaaacc	7	5	2	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:42680326G>C	uc003clo.2	+	13	3277	c.3130G>C	c.(3130-3132)GTT>CTT	p.V1044L	NKTR_uc003clm.1_Missense_Mutation_p.V791L|NKTR_uc003clp.2_Missense_Mutation_p.V791L|NKTR_uc011azp.1_Intron|NKTR_uc003clq.1_Missense_Mutation_p.V934L|NKTR_uc003clr.1_Missense_Mutation_p.V791L|NKTR_uc003cls.2_Missense_Mutation_p.V744L	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	1044					protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		AGAGAAAAAAGTTTCTGAAAA	0.373													9	84	---	---	---	---	PASS	C	42680326	C	C	42680326	3	2	59	1	0	0	0	0	1	0	0	0	10448	1029	36	4	3176	4	NKTR	3	42680326	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	2394270	42680326	155342104	53	22880										
VPRBP	9730	broad.mit.edu	37	chr3	51517747	51517747	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	attcatacctggtaaggataGgtaccatgtcctgcccactg	9	11	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:51517747G>C	uc003dbe.1	-	3	266	c.98C>G	c.(97-99)CCT>CGT	p.P33R	VPRBP_uc003dbg.1_Missense_Mutation_p.P33R	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	33					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		GGTAAGGATAGGTACCATGTC	0.398													36	108	---	---	---	---	PASS	C	51517747	C	C	51517747	3	2	59	1	0	0	0	0	1	0	0	0	17182	1000	35	4	4354	4	VPRBP	3	51517747	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	8837421	51517747	146504683	54	22881										
KCTD6	200845	broad.mit.edu	37	chr3	58486964	58486964	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ccttgattcagtgtctcaatGatcctaagcctttgtatccc	6	12	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:58486964G>A	uc003dkj.3	+	3	436	c.319G>A	c.(319-321)GAT>AAT	p.D107N	KCTD6_uc003dki.3_Missense_Mutation_p.D107N|KCTD6_uc003dkk.3_Missense_Mutation_p.D107N	NM_001128214	NP_001121686	Q8NC69	KCTD6_HUMAN	potassium channel tetramerisation domain	107						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000177)|Kidney(10;0.00229)|KIRC - Kidney renal clear cell carcinoma(10;0.00258)|OV - Ovarian serous cystadenocarcinoma(275;0.148)		GTGTCTCAATGATCCTAAGCC	0.413													31	102	---	---	---	---	PASS	A	58486964	A	A	58486964	3	1	59	1	0	0	0	0	1	0	0	0	8113	1290	45	2	325	2	KCTD6	3	58486964	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	6969217	58486964	139535466	55	22882										
CADPS	8618	broad.mit.edu	37	chr3	62477987	62477987	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tcagtacggagaaaatcattCagcagctgaaatagtggaaa	10	6	3	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:62477987C>T	uc003dll.2	-	20	3222	c.2862G>A	c.(2860-2862)CTG>CTA	p.L954L	CADPS_uc003dlk.1_Silent_p.L451L|CADPS_uc003dlm.2_Silent_p.L964L|CADPS_uc003dln.2_Silent_p.L924L	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	954	MHD1.|Interaction with DRD2.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		GAAAATCATTCAGCAGCTGAA	0.433													113	100	---	---	---	---	PASS	T	62477987	T	T	62477987	2	4	59	1	0	0	0	0	0	0	0	1	2570	813	29	2		2	CADPS	3	62477987	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	3991023	62477987	135544443	56	22883										
OR5AC2	81050	broad.mit.edu	37	chr3	97806143	97806143	+	Missense_Mutation	SNP	G	C	C													0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tctatctcatcaccatggtgGgcaaccttggactgatagtt							TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:97806143G>C	uc011bgs.1	+	1	127	c.127G>C	c.(127-129)GGC>CGC	p.G43R		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CACCATGGTGGGCAACCTTGG	0.448													53	369	---	---	---	---	PASS	C	97806143	C	C	97806143	3	2	59	1	0	0	0	0	1	0	0	0	11141	1232	43	4	129	4	OR5AC2	3	97806143	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	35328156	97806143	100216287	57	22884	509	2								
OR5AC2	81050	broad.mit.edu	37	chr3	97806144	97806144	+	Missense_Mutation	SNP	G	T	T													0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctatctcatcaccatggtggGcaaccttggactgatagttc							TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:97806144G>T	uc011bgs.1	+	1	128	c.128G>T	c.(127-129)GGC>GTC	p.G43V		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ACCATGGTGGGCAACCTTGGA	0.448													54	370	---	---	---	---	PASS	T	97806144	T	T	97806144	3	4	59	1	0	0	0	0	1	0	0	0	11141	1203	42	3	130	3	OR5AC2	3	97806144	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	1	97806144	100216286	58	22885	509	2								
OR5H2	79310	broad.mit.edu	37	chr3	98002381	98002381	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aattcaggtattcaccattgTgacagttcttaattcttaca	5	8	4	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:98002381T>C	uc003dsj.1	+	1	650	c.650T>C	c.(649-651)GTG>GCG	p.V217A		NM_001005482	NP_001005482	Q8NGV7	OR5H2_HUMAN	olfactory receptor, family 5, subfamily H,	217	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3						TTCACCATTGTGACAGTTCTT	0.363													56	112	---	---	---	---	PASS	C	98002381	C	C	98002381	3	2	59	1	0	0	0	0	1	0	0	0	11162	1696	59	5	652	5	OR5H2	3	98002381	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	196237	98002381	100020049	59	22886										
SENP7	57337	broad.mit.edu	37	chr3	101044876	101044876	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ggtctttattacatgacgagGaaaccacttctccaaatgaa	7	9	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:101044876G>T	uc003dut.2	-	24	3175	c.3064C>A	c.(3064-3066)CCT>ACT	p.P1022T	SENP7_uc003duu.2_Missense_Mutation_p.P957T|SENP7_uc003duv.2_Missense_Mutation_p.P989T|SENP7_uc003duw.2_Missense_Mutation_p.P956T|SENP7_uc003dux.2_Missense_Mutation_p.P858T|SENP7_uc003dus.2_Missense_Mutation_p.P210T	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	1022	Protease.				proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						ACATGACGAGGAAACCACTTC	0.363													15	125	---	---	---	---	PASS	T	101044876	T	T	101044876	3	4	59	1	0	0	0	0	1	0	0	0	14051	1174	41	2	92	2	SENP7	3	101044876	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	3042495	101044876	96977554	60	22887										
BBX	56987	broad.mit.edu	37	chr3	107492179	107492179	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gtgaaatcaagagagaagaaAatgtcaaaggagaaatcctc	10	5	2	5			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:107492179A>C	uc010hpr.2	+	11	1938	c.1611A>C	c.(1609-1611)AAA>AAC	p.K537N	BBX_uc003dwk.3_Missense_Mutation_p.K537N|BBX_uc003dwl.3_Intron|BBX_uc010hps.1_Missense_Mutation_p.K558N|BBX_uc003dwm.3_Missense_Mutation_p.K537N|BBX_uc003dwo.3_5'Flank	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	537	Lys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			GAGAGAAGAAAATGTCAAAGG	0.448													11	92	---	---	---	---	PASS	C	107492179	C	C	107492179	3	2	59	1	0	0	0	0	1	0	0	0	1343	11	1	5	1641	5	BBX	3	107492179	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	6447303	107492179	90530251	61	22888										
KIAA1524	57650	broad.mit.edu	37	chr3	108278663	108278663	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aatcagtctatcagcctgtgCaagggctagagcttttgttt	10	8	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:108278663C>T	uc003dxb.3	-	16	2223	c.1954G>A	c.(1954-1956)GCA>ACA	p.A652T		NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	652	Potential.					cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						TCAGCCTGTGCAAGGGCTAGA	0.353													12	93	---	---	---	---	PASS	T	108278663	T	T	108278663	3	4	59	1	0	0	0	0	1	0	0	0	8239	710	25	3	787	3	KIAA1524	3	108278663	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	786484	108278663	89743767	62	22889										
POLQ	10721	broad.mit.edu	37	chr3	121151797	121151797	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttcttctgccacttcatataGgagttcatcatggagttgaa	8	8	5	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:121151797G>A	uc003eee.3	-	29	7756	c.7627C>T	c.(7627-7629)CTA>TTA	p.L2543L	POLQ_uc003eed.2_Silent_p.L1715L	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	2543					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		ACTTCATATAGGAGTTCATCA	0.428								DNA_polymerases_(catalytic_subunits)					6	66	---	---	---	---	PASS	A	121151797	A	A	121151797	2	1	59	1	0	0	0	0	0	0	0	1	12208	991	35	3		3	POLQ	3	121151797	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	12873134	121151797	76870633	63	22890										
IFT122	55764	broad.mit.edu	37	chr3	129207101	129207101	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ccttgatgaaatcctgcagtCcgctcccatgtaccagtacc	7	15	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:129207101C>T	uc003emm.2	+	16	2059	c.1853C>T	c.(1852-1854)TCC>TTC	p.S618F	IFT122_uc003eml.2_Missense_Mutation_p.S669F|IFT122_uc003emn.2_Missense_Mutation_p.S559F|IFT122_uc003emo.2_Missense_Mutation_p.S507F|IFT122_uc003emp.2_Missense_Mutation_p.S468F|IFT122_uc010htc.2_Missense_Mutation_p.S610F|IFT122_uc011bky.1_Missense_Mutation_p.S409F|IFT122_uc003emq.2_Missense_Mutation_p.S458F|IFT122_uc003emr.2_Missense_Mutation_p.S409F|IFT122_uc011bla.1_Missense_Mutation_p.S409F|IFT122_uc010hte.2_5'UTR|IFT122_uc003ems.2_Missense_Mutation_p.S17F|IFT122_uc011bkx.1_Missense_Mutation_p.S458F|IFT122_uc011bkz.1_RNA|IFT122_uc010htd.1_Missense_Mutation_p.S97F	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	618					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						ATCCTGCAGTCCGCTCCCATG	0.488													26	88	---	---	---	---	PASS	T	129207101	T	T	129207101	3	4	59	1	0	0	0	0	1	0	0	0	7555	869	30	2	2072	2	IFT122	3	129207101	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	8055304	129207101	68815329	64	22891										
COL6A6	131873	broad.mit.edu	37	chr3	130287388	130287388	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tggttttttatgttgagaatTttgacattctgcagcgcatt	9	5	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:130287388T>A	uc010htl.2	+	5	2372	c.2341T>A	c.(2341-2343)TTT>ATT	p.F781I		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	781	Nonhelical region.|VWFA 4.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TGTTGAGAATTTTGACATTCT	0.463													25	109	---	---	---	---	PASS	A	130287388	A	A	130287388	3	1	59	1	0	0	0	0	1	0	0	0	3703	1841	64	5	2359	5	COL6A6	3	130287388	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	1080287	130287388	67735042	65	22892										
CP	1356	broad.mit.edu	37	chr3	148925286	148925286	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttgttagtcagtgcttgcccGtgaaagaaagctgcgtgcac	12	9	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:148925286G>A	uc003ewy.3	-	5	1153	c.900C>T	c.(898-900)CAC>CAT	p.H300H	CP_uc011bnr.1_RNA|CP_uc003ewx.3_Silent_p.H81H|CP_uc003ewz.2_Silent_p.H300H|CP_uc010hvf.1_Silent_p.H26H	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	300	F5/8 type A 1.|Plastocyanin-like 2.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	GTGCTTGCCCGTGAAAGAAAG	0.458													22	88	---	---	---	---	PASS	A	148925286	A	A	148925286	2	1	59	1	0	0	0	0	0	0	0	1	3787	1136	40	1		1	CP	3	148925286	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	18637898	148925286	49097144	66	22893										
PLCH1	23007	broad.mit.edu	37	chr3	155211982	155211982	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ccacaattgccatttgccttGaatttggctcggtttaactg	8	10	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:155211982G>A	uc011bok.1	-	16	2371	c.2094C>T	c.(2092-2094)TTC>TTT	p.F698F	PLCH1_uc011boj.1_Silent_p.F698F|PLCH1_uc011bol.1_Silent_p.F680F	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	698	PI-PLC Y-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CATTTGCCTTGAATTTGGCTC	0.408													22	80	---	---	---	---	PASS	A	155211982	A	A	155211982	2	1	59	1	0	0	0	0	0	0	0	1	12037	1281	45	2		2	PLCH1	3	155211982	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	6286696	155211982	42810448	67	22894										
SLC2A2	6514	broad.mit.edu	37	chr3	170732477	170732477	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgttgatagcttttcggtcaTccagtggaacacccaaaaca	8	10	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:170732477T>C	uc003fhe.1	-	3	461	c.152A>G	c.(151-153)GAT>GGT	p.D51G	SLC2A2_uc003fhf.1_5'UTR|SLC2A2_uc011bpu.1_Intron	NM_000340	NP_000331	P11168	GTR2_HUMAN	solute carrier family 2 (facilitated glucose	51	Extracellular (Potential).				carbohydrate metabolic process|cellular lipid metabolic process|endocrine pancreas development|energy reserve metabolic process|regulation of insulin secretion	integral to plasma membrane|membrane fraction	D-glucose transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2	all_cancers(22;1.41e-19)|all_lung(20;1.59e-15)|Lung NSC(18;7.08e-15)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;1.1e-14)|Lung(28;2.99e-14)			TTTTCGGTCATCCAGTGGAAC	0.358													31	145	---	---	---	---	PASS	C	170732477	C	C	170732477	3	2	59	1	0	0	0	0	1	0	0	0	14544	1435	50	5	1458	5	SLC2A2	3	170732477	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	15520495	170732477	27289953	68	22895										
PLD1	5337	broad.mit.edu	37	chr3	171330190	171330190	+	Nonsense_Mutation	SNP	C	A	A													0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	catttcactgtcacgctttcCcagcatgctgcggtcattta							TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:171330190C>A	uc003fhs.2	-	25	2877	c.2761G>T	c.(2761-2763)GGA>TGA	p.G921*	PLD1_uc003fht.2_Nonsense_Mutation_p.G883*|PLD1_uc003fhu.3_Nonsense_Mutation_p.G215*	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	921	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	TCACGCTTTCCCAGCATGCTG	0.423													15	98	---	---	---	---	PASS	A	171330190	A	A	171330190	4	1	59	1	0	0	0	0	0	1	0	0	12045	632	22	3	475	3	PLD1	3	171330190	Nonsense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	597713	171330190	26692240	69	22896	510	2								
PLD1	5337	broad.mit.edu	37	chr3	171330191	171330191	+	Silent	SNP	C	A	A													0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	atttcactgtcacgctttccCagcatgctgcggtcatttat							TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:171330191C>A	uc003fhs.2	-	25	2876	c.2760G>T	c.(2758-2760)CTG>CTT	p.L920L	PLD1_uc003fht.2_Silent_p.L882L|PLD1_uc003fhu.3_Silent_p.L214L	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	920	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	CACGCTTTCCCAGCATGCTGC	0.418													15	96	---	---	---	---	PASS	A	171330191	A	A	171330191	2	1	59	1	0	0	0	0	0	0	0	1	12045	581	21	3		3	PLD1	3	171330191	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	1	171330191	26692239	70	22897	510	2								
CCDC39	339829	broad.mit.edu	37	chr3	180334415	180334415	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttcatttcacgaagtttgatGtcttgttcttccattgtttc	6	8	4	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:180334415G>C	uc010hxe.2	-	18	2590	c.2475C>G	c.(2473-2475)GAC>GAG	p.D825E	CCDC39_uc003fkn.2_RNA|TTC14_uc003fkm.2_Intron	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	825	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			GAAGTTTGATGTCTTGTTCTT	0.303													4	37	---	---	---	---	PASS	C	180334415	C	C	180334415	3	2	59	1	0	0	0	0	1	0	0	0	2811	1368	48	4	362	4	CCDC39	3	180334415	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	9004224	180334415	17688015	71	22898										
C3orf59	151963	broad.mit.edu	37	chr3	192517160	192517160	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgtgatctacaatggtgcagCagtctttccatttactgatt	8	8	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr3:192517160C>T	uc011bsp.1	-	2	812	c.491G>A	c.(490-492)TGC>TAC	p.C164Y		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	164											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		AATGGTGCAGCAGTCTTTCCA	0.488													15	120	---	---	---	---	PASS	T	192517160	T	T	192517160	3	4	59	1	0	0	0	0	1	0	0	0	2237	710	25	3	988	3	C3orf59	3	192517160	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	12182745	192517160	5505270	72	22899										
ATP8A1	10396	broad.mit.edu	37	chr4	42581886	42581886	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttcgattccaaatggctgagCccacagaacagacaagagac	9	11	0	4			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr4:42581886C>G	uc003gwr.2	-	11	1176	c.944G>C	c.(943-945)GGC>GCC	p.G315A	ATP8A1_uc003gws.2_Missense_Mutation_p.G315A|ATP8A1_uc011byz.1_Missense_Mutation_p.G315A	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	315	Helical; (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	AATGGCTGAGCCCACAGAACA	0.363													10	37	---	---	---	---	PASS	G	42581886	G	G	42581886	3	3	59	1	0	0	0	0	1	0	0	0	1192	739	26	4	2658	4	ATP8A1	4	42581886	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08		42581886	148572390	73	22900										
RUFY3	22902	broad.mit.edu	37	chr4	71670132	71670132	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ggaagacggcagcctaacaaAggtaactgtgatgagaaacg	13	7	0	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr4:71670132A>C	uc003hfr.2	+	17	2313	c.1718A>C	c.(1717-1719)AAG>ACG	p.K573T	RUFY3_uc011cay.1_Missense_Mutation_p.K509T	NM_001037442	NP_001032519	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 1	Error:Variant_position_missing_in_Q7L099_after_alignment					negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			AGCCTAACAAAGGTAACTGTG	0.512													10	34	---	---	---	---	PASS	C	71670132	C	C	71670132	3	2	59	1	0	0	0	0	1	0	0	0	13740	86	3	5	2227	5	RUFY3	4	71670132	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	29088246	71670132	119484144	74	22901										
ARHGEF38	54848	broad.mit.edu	37	chr4	106534556	106534556	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttcagactgataggctggatGtggatagcttgtttagcaac	12	6	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr4:106534556G>T	uc003hxu.2	+	3	546	c.400G>T	c.(400-402)GTG>TTG	p.V134L		NM_017700	NP_060170	Q9NXL2	ARH38_HUMAN	hypothetical protein LOC54848	134	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|breast(1)	3						TAGGCTGGATGTGGATAGCTT	0.438													31	94	---	---	---	---	PASS	T	106534556	T	T	106534556	3	4	59	1	0	0	0	0	1	0	0	0	907	1377	48	3	410	3	ARHGEF38	4	106534556	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	34864424	106534556	84619720	75	22902										
RPL34	6164	broad.mit.edu	37	chr4	109543360	109543360	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgcccaggcagacttcgaggGgtaagtgtaccttttactgt	12	9	0	1	rs114737869	byFrequency	TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr4:109543360G>T	uc003hyz.2	+	3	209	c.165G>T	c.(163-165)GGG>GGT	p.G55G	LOC285456_uc003hyy.2_5'Flank|LOC285456_uc011cfl.1_5'Flank|RPL34_uc003hza.2_Silent_p.G55G	NM_000995	NP_000986	P49207	RL34_HUMAN	ribosomal protein L34	55					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000286)		GACTTCGAGGGGTAAGTGTAC	0.458													13	34	---	---	---	---	PASS	T	109543360	T	T	109543360	2	4	59	1	0	0	0	0	0	0	0	1	13583	1246	43	3		3	RPL34	4	109543360	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	3008804	109543360	81610916	76	22903										
ANK2	287	broad.mit.edu	37	chr4	114279464	114279464	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gacctccccaccgtgcaaacGggtgatatacctcctctctc	7	17	1	1	rs147826317		TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr4:114279464G>C	uc003ibe.3	+	38	9790	c.9690G>C	c.(9688-9690)ACG>ACC	p.T3230T	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Silent_p.T532T|ANK2_uc011cgb.1_Silent_p.T3245T	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3197					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CCGTGCAAACGGGTGATATAC	0.488													22	65	---	---	---	---	PASS	C	114279464	C	C	114279464	2	2	59	1	0	0	0	0	0	0	0	1	621	1103	39	4		4	ANK2	4	114279464	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	4736104	114279464	76874812	77	22904										
PRDM5	11107	broad.mit.edu	37	chr4	121698419	121698419	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	caatatggacagattttctcCttttctcctgtatgtgtcta	6	9	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr4:121698419C>A	uc003idn.2	-	13	1711	c.1461G>T	c.(1459-1461)AAG>AAT	p.K487N	PRDM5_uc003ido.2_Missense_Mutation_p.K456N|PRDM5_uc010ine.2_Missense_Mutation_p.K456N	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	487					histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						AGATTTTCTCCTTTTCTCCTG	0.378													39	82	---	---	---	---	PASS	A	121698419	A	A	121698419	3	1	59	1	0	0	0	0	1	0	0	0	12460	680	24	3	447	3	PRDM5	4	121698419	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	7418955	121698419	69455857	78	22905										
FAT1	2195	broad.mit.edu	37	chr4	187539071	187539071	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ggatcttttcaccatgatctGatgcaaccactttaatctgg	7	10	4	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr4:187539071G>A	uc003izf.2	-	10	8857	c.8669C>T	c.(8668-8670)TCA>TTA	p.S2890L		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2890	Extracellular (Potential).|Cadherin 26.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						ACCATGATCTGATGCAACCAC	0.428										HNSCC(5;0.00058)			15	26	---	---	---	---	PASS	A	187539071	A	A	187539071	3	1	59	1	0	0	0	0	1	0	0	0	5689	1294	45	2	5169	2	FAT1	4	187539071	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	65840652	187539071	3615205	79	22906										
SLC6A3	6531	broad.mit.edu	37	chr5	1406353	1406353	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gcacagccgccagtacaggcTgggccgctgcccggtcatct	13	16	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr5:1406353T>A	uc003jck.2	-	12	1670	c.1549A>T	c.(1549-1551)AGC>TGC	p.S517C		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	517					cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	CAGTACAGGCTGGGCCGCTGC	0.657													48	45	---	---	---	---	PASS	A	1406353	A	A	1406353	3	1	59	1	0	0	0	0	1	0	0	0	14685	1580	55	5	329	5	SLC6A3	5	1406353	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08		1406353	179508907	80	22907										
SEMA5A	9037	broad.mit.edu	37	chr5	9066614	9066614	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tcccacttccagcaaattcgGatcagccaggcgggctttgc	10	14	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr5:9066614G>C	uc003jek.2	-	17	2930	c.2218C>G	c.(2218-2220)CCG>GCG	p.P740A		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	740	TSP type-1 4.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						AGCAAATTCGGATCAGCCAGG	0.557													20	179	---	---	---	---	PASS	C	9066614	C	C	9066614	3	2	59	1	0	0	0	0	1	0	0	0	14037	1174	41	2	1034	2	SEMA5A	5	9066614	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	7660261	9066614	171848646	81	22908										
TAS2R1	50834	broad.mit.edu	37	chr5	9629815	9629815	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cagatgaagagtgggtgacgGacgctggcaaccttggcaca	15	9	0	4			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr5:9629815G>A	uc003jem.1	-	1	649	c.330C>T	c.(328-330)GTC>GTT	p.V110V		NM_019599	NP_062545	Q9NYW7	TA2R1_HUMAN	taste receptor T2R1	110	Cytoplasmic (Potential).				chemosensory behavior|sensory perception of taste	integral to membrane	taste receptor activity			ovary(3)	3						GTGGGTGACGGACGCTGGCAA	0.448													7	23	---	---	---	---	PASS	A	9629815	A	A	9629815	2	1	59	1	0	0	0	0	0	0	0	1	15562	1161	41	2		2	TAS2R1	5	9629815	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	563201	9629815	171285445	82	22909										
DNAH5	1767	broad.mit.edu	37	chr5	13841814	13841814	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cactgacctgagcagggaagGatgaaagaaattcagttagt	12	6	1	4			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr5:13841814G>A	uc003jfd.2	-	33	5513	c.5471C>T	c.(5470-5472)TCC>TTC	p.S1824F		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1824	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGCAGGGAAGGATGAAAGAAA	0.279									Kartagener_syndrome				9	71	---	---	---	---	PASS	A	13841814	A	A	13841814	3	1	59	1	0	0	0	0	1	0	0	0	4604	1174	41	2	8591	2	DNAH5	5	13841814	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	4211999	13841814	167073446	83	22910										
TARS	6897	broad.mit.edu	37	chr5	33455798	33455798	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttaagaaagaaactttactgGcaatgtttaaggtaaattga	8	3	0	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr5:33455798G>T	uc003jhy.2	+	6	977	c.682G>T	c.(682-684)GCA>TCA	p.A228S	TARS_uc011cob.1_Missense_Mutation_p.A216S|TARS_uc010iup.1_Missense_Mutation_p.A169S|TARS_uc011coc.1_Missense_Mutation_p.A249S|TARS_uc003jhz.2_Missense_Mutation_p.A124S|TARS_uc011cod.1_Missense_Mutation_p.A107S	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	228					threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)	AACTTTACTGGCAATGTTTAA	0.373													33	55	---	---	---	---	PASS	T	33455798	T	T	33455798	3	4	59	1	0	0	0	0	1	0	0	0	15556	1203	42	3	704	3	TARS	5	33455798	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	19613984	33455798	147459462	84	22911										
ADAMTS12	81792	broad.mit.edu	37	chr5	33630995	33630995	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aaactggccatctatgggtcGgcagtagagctcacaaggat	12	9	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr5:33630995G>A	uc003jia.1	-	13	2075	c.1912C>T	c.(1912-1914)CGA>TGA	p.R638*	ADAMTS12_uc010iuq.1_Intron	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	638	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TCTATGGGTCGGCAGTAGAGC	0.473										HNSCC(64;0.19)			5	76	---	---	---	---	PASS	A	33630995	A	A	33630995	4	1	59	1	0	0	0	0	0	1	0	0	257	1124	39	1	2920	1	ADAMTS12	5	33630995	Nonsense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	175197	33630995	147284265	85	22912										
SPEF2	79925	broad.mit.edu	37	chr5	35694425	35694425	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttttcagctggtccagtttcAgatgaagtattaccagaaac	8	8	2	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr5:35694425A>T	uc003jjo.2	+	13	2046	c.1935A>T	c.(1933-1935)TCA>TCT	p.S645S	SPEF2_uc003jjq.3_Silent_p.S645S|SPEF2_uc003jjp.1_Silent_p.S136S	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	645					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GTCCAGTTTCAGATGAAGTAT	0.343													6	43	---	---	---	---	PASS	T	35694425	T	T	35694425	2	4	59	1	0	0	0	0	0	0	0	1	15034	175	7	5		5	SPEF2	5	35694425	Silent	SNP	A	TCGA-33-4582-01A-01D-1441-08	2063430	35694425	145220835	86	22913										
MAP1B	4131	broad.mit.edu	37	chr5	71490073	71490073	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aaatcctgcttctggaagctCatccgacacttagaccgagt	8	12	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr5:71490073C>G	uc003kbw.3	+	5	1132	c.891C>G	c.(889-891)CTC>CTG	p.L297L	MAP1B_uc010iyw.1_Silent_p.L314L|MAP1B_uc010iyx.1_Silent_p.L171L|MAP1B_uc010iyy.1_Silent_p.L171L	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	297						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		TCTGGAAGCTCATCCGACACT	0.483													46	46	---	---	---	---	PASS	G	71490073	G	G	71490073	2	3	59	1	0	0	0	0	0	0	0	1	9228	813	29	2		2	MAP1B	5	71490073	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	35795648	71490073	109425187	87	22914										
FBN2	2201	broad.mit.edu	37	chr5	127648397	127648397	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gagagcagcagcatgaagagCgactgacgcccaccccgatc	12	14	0	4			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr5:127648397C>T	uc003kuu.2	-	37	5247	c.4808G>A	c.(4807-4809)CGC>CAC	p.R1603H		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1603	TB 6.				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)		GCATGAAGAGCGACTGACGCC	0.552													10	363	---	---	---	---	PASS	T	127648397	T	T	127648397	3	4	59	1	0	0	0	0	1	0	0	0	5703	768	27	1	4046	1	FBN2	5	127648397	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	56158324	127648397	53266863	88	22915										
PCDHA7	56141	broad.mit.edu	37	chr5	140215054	140215054	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tctctccctattccagaggaCgcccaaccaggtaccgtcat	7	16	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr5:140215054C>T	uc003lhq.2	+	1	1086	c.1086C>T	c.(1084-1086)GAC>GAT	p.D362D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.D362D	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	362	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCCAGAGGACGCCCAACCAG	0.517													27	83	---	---	---	---	PASS	T	140215054	T	T	140215054	2	4	59	1	0	0	0	0	0	0	0	1	11529	535	19	1		1	PCDHA7	5	140215054	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	12566657	140215054	40700206	89	22916										
NMUR2	56923	broad.mit.edu	37	chr5	151784573	151784573	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cgccgaggtccgcagaggaaGgccagatactcctcggtgct	14	13	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr5:151784573G>A	uc003luv.2	-	1	268	c.102C>T	c.(100-102)GCC>GCT	p.A34A		NM_020167	NP_064552	Q9GZQ4	NMUR2_HUMAN	neuromedin U receptor 2	34	Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|arachidonic acid secretion|calcium ion transport|central nervous system development|elevation of cytosolic calcium ion concentration|regulation of smooth muscle contraction	integral to membrane|plasma membrane	GTP binding|intracellular calcium activated chloride channel activity|neuromedin U receptor activity			ovary(3)|skin(2)|lung(1)|breast(1)|pancreas(1)	8		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)	Kidney(363;0.000106)|KIRC - Kidney renal clear cell carcinoma(527;0.000672)			CGCAGAGGAAGGCCAGATACT	0.527													15	38	---	---	---	---	PASS	A	151784573	A	A	151784573	2	1	59	1	0	0	0	0	0	0	0	1	10507	987	35	3		3	NMUR2	5	151784573	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	11569519	151784573	29130687	90	22917										
TRIM41	90933	broad.mit.edu	37	chr5	180660676	180660676	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	agcccccagaggtctggtccCctgacccgtgccaaccccat	9	19	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr5:180660676C>T	uc003mne.1	+	5	1898	c.1204C>T	c.(1204-1206)CCT>TCT	p.P402S	uc003mnb.1_5'Flank|TRIM41_uc003mnc.1_3'UTR|TRIM41_uc003mnd.1_Missense_Mutation_p.P402S|TRIM41_uc003mnf.1_RNA|TRIM41_uc003mng.1_5'UTR	NM_033549	NP_291027	Q8WV44	TRI41_HUMAN	tripartite motif-containing 41 isoform 1	402						cytoplasm|nucleus	ligase activity|protein binding|zinc ion binding				0	all_cancers(89;9.17e-06)|all_epithelial(37;1.19e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000209)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGTCTGGTCCCCTGACCCGTG	0.592													5	70	---	---	---	---	PASS	T	180660676	T	T	180660676	3	4	59	1	0	0	0	0	1	0	0	0	16513	623	22	3	1222	3	TRIM41	5	180660676	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	28876103	180660676	254584	91	22918										
ZKSCAN3	80317	broad.mit.edu	37	chr6	28327435	28327435	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gaccagatggagcttctggtCataaaggtggaggaagaaga	15	5	2	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr6:28327435C>T	uc003nle.3	+	2	288	c.72C>T	c.(70-72)GTC>GTT	p.V24V	ZKSCAN3_uc010jrc.2_Silent_p.V24V|ZKSCAN3_uc003nlf.3_Intron	NM_024493	NP_077819	Q9BRR0	ZKSC3_HUMAN	zinc finger with KRAB and SCAN domains 3	24					positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	chromatin binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						AGCTTCTGGTCATAAAGGTGG	0.572													100	59	---	---	---	---	PASS	T	28327435	T	T	28327435	2	4	59	1	0	0	0	0	0	0	0	1	17685	813	29	2		2	ZKSCAN3	6	28327435	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08		28327435	142787632	92	22919										
DAAM2	23500	broad.mit.edu	37	chr6	39869080	39869080	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgttctgtcccttgacagttCgccaaggccttgatgcactt	9	12	1	2	rs148294935	by1000genomes	TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr6:39869080C>A	uc003oow.2	+	24	2970	c.2814C>A	c.(2812-2814)TTC>TTA	p.F938L	DAAM2_uc003oox.2_Missense_Mutation_p.F937L	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	938	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CTTGACAGTTCGCCAAGGCCT	0.572													5	212	---	---	---	---	PASS	A	39869080	A	A	39869080	3	1	59	1	0	0	0	0	1	0	0	0	4216	883	31	2	2901	2	DAAM2	6	39869080	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	11541645	39869080	131245987	93	22920										
PKHD1	5314	broad.mit.edu	37	chr6	51640615	51640615	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tatactcttaccaattgttcCtgggtcaatatgaattccat	5	9	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr6:51640615C>A	uc003pah.1	-	54	8821	c.8545G>T	c.(8545-8547)GGA>TGA	p.G2849*	PKHD1_uc010jzn.1_Nonsense_Mutation_p.G832*|PKHD1_uc003pai.2_Nonsense_Mutation_p.G2849*	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2849	G8 2.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CCAATTGTTCCTGGGTCAATA	0.303													34	57	---	---	---	---	PASS	A	51640615	A	A	51640615	4	1	59	1	0	0	0	0	0	1	0	0	11971	690	24	3	3774	3	PKHD1	6	51640615	Nonsense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	11771535	51640615	119474452	94	22921										
C6orf165	154313	broad.mit.edu	37	chr6	88125496	88125496	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	acagagcatgtgctaaagaaGaattggaaagcctctaccgg	11	8	1	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr6:88125496G>T	uc003plv.2	+	5	468	c.376G>T	c.(376-378)GAA>TAA	p.E126*	C6orf165_uc003plw.2_5'UTR|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Nonsense_Mutation_p.E126*	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	126										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		TGCTAAAGAAGAATTGGAAAG	0.438													18	52	---	---	---	---	PASS	T	88125496	T	T	88125496	4	4	59	1	0	0	0	0	0	1	0	0	2341	943	33	2	390	2	C6orf165	6	88125496	Nonsense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	36484881	88125496	82989571	95	22922										
MDN1	23195	broad.mit.edu	37	chr6	90390407	90390407	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tttcctgagctttggcaagcGacgcagaagctccccttcca	9	14	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr6:90390407G>A	uc003pnn.1	-	74	12282	c.12166C>T	c.(12166-12168)CGC>TGC	p.R4056C		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4056					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)		TTTGGCAAGCGACGCAGAAGC	0.572													8	30	---	---	---	---	PASS	A	90390407	A	A	90390407	3	1	59	1	0	0	0	0	1	0	0	0	9415	1058	37	2	4740	2	MDN1	6	90390407	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	2264911	90390407	80724660	96	22923										
GRIK2	2898	broad.mit.edu	37	chr6	101847225	101847225	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aaactcctgctctgtttactGtggattggatattctcaagg	9	8	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr6:101847225G>A	uc003pqp.3	+	1	321	c.72G>A	c.(70-72)CTG>CTA	p.L24L	GRIK2_uc003pqn.2_Silent_p.L24L|GRIK2_uc003pqo.3_Silent_p.L24L|GRIK2_uc010kcw.2_Silent_p.L24L	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	24					glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	TCTGTTTACTGTGGATTGGAT	0.478													22	78	---	---	---	---	PASS	A	101847225	A	A	101847225	2	1	59	1	0	0	0	0	0	0	0	1	6774	1364	48	3		3	GRIK2	6	101847225	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	11456818	101847225	69267842	97	22924										
THEMIS	387357	broad.mit.edu	37	chr6	128150678	128150678	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aatcagggtaccataaaagtCtttaggaaatggattcgttg	10	5	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr6:128150678C>T	uc003qbi.2	-	4	971	c.652G>A	c.(652-654)GAC>AAC	p.D218N	THEMIS_uc010kfa.2_Missense_Mutation_p.D121N|THEMIS_uc011ebt.1_Missense_Mutation_p.D218N|THEMIS_uc010kfb.2_Missense_Mutation_p.D183N	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	218	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						CCATAAAAGTCTTTAGGAAAT	0.358													18	77	---	---	---	---	PASS	T	128150678	T	T	128150678	3	4	59	1	0	0	0	0	1	0	0	0	15857	913	32	2	1410	2	THEMIS	6	128150678	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	26303453	128150678	42964389	98	22925										
PHACTR2	9749	broad.mit.edu	37	chr6	144086522	144086522	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	agcaaagcagggacagtgggGaccaccaagggcaagagaaa	15	8	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr6:144086522G>T	uc003qjq.3	+	6	916	c.786G>T	c.(784-786)GGG>GGT	p.G262G	PHACTR2_uc010khh.2_Silent_p.G182G|PHACTR2_uc010khi.2_Silent_p.G273G|PHACTR2_uc003qjr.3_Silent_p.G193G	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3	262							actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		GGACAGTGGGGACCACCAAGG	0.507													16	56	---	---	---	---	PASS	T	144086522	T	T	144086522	2	4	59	1	0	0	0	0	0	0	0	1	11810	1161	41	2		2	PHACTR2	6	144086522	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	15935844	144086522	27028545	99	22926										
STXBP5	134957	broad.mit.edu	37	chr6	147637480	147637480	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ccctcagcccatccctcctcAgtctcatccatctaccagta	3	20	4	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr6:147637480A>T	uc003qlz.2	+	16	1900	c.1739A>T	c.(1738-1740)CAG>CTG	p.Q580L	STXBP5_uc010khz.1_Missense_Mutation_p.Q580L|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Missense_Mutation_p.Q251L	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	580	WD 9.				exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		ATCCCTCCTCAGTCTCATCCA	0.448													12	42	---	---	---	---	PASS	T	147637480	T	T	147637480	3	4	59	1	0	0	0	0	1	0	0	0	15355	188	7	5	1801	5	STXBP5	6	147637480	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	3550958	147637480	23477587	100	22927										
SYNE1	23345	broad.mit.edu	37	chr6	152777154	152777154	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	taagtgtcaaggttttcttaCagttttcttgacaagctaac	7	7	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr6:152777154C>T	uc010kiw.2	-	23	3196	c.2594G>A	c.(2593-2595)TGT>TAT	p.C865Y	SYNE1_uc003qot.3_Missense_Mutation_p.C872Y|SYNE1_uc003qou.3_Missense_Mutation_p.C865Y|SYNE1_uc010kjb.1_Missense_Mutation_p.C848Y|SYNE1_uc003qow.2_Missense_Mutation_p.C160Y|SYNE1_uc003qox.1_Missense_Mutation_p.C381Y|SYNE1_uc003qoz.2_Missense_Mutation_p.C297Y|SYNE1_uc003qoy.2_Missense_Mutation_p.C432Y	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	865	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)		GGTTTTCTTACAGTTTTCTTG	0.373										HNSCC(10;0.0054)			27	65	---	---	---	---	PASS	T	152777154	T	T	152777154	3	4	59	1	0	0	0	0	1	0	0	0	15442	478	17	3	24368	3	SYNE1	6	152777154	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	5139674	152777154	18337913	101	22928										
PNLDC1	154197	broad.mit.edu	37	chr6	160237602	160237602	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aaagtgcccccacgaagccgCgtatgatgccttcctctgtg	10	14	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr6:160237602C>T	uc003qsx.1	+	14	1226	c.1055C>T	c.(1054-1056)GCG>GTG	p.A352V	PNLDC1_uc003qsy.1_Missense_Mutation_p.A363V	NM_173516	NP_775787	Q8NA58	PNDC1_HUMAN	poly(A)-specific ribonuclease (PARN)-like domain	352	Cytoplasmic (Potential).					integral to membrane|nucleus	nucleic acid binding				0		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;1.55e-18)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		CACGAAGCCGCGTATGATGCC	0.408													19	71	---	---	---	---	PASS	T	160237602	T	T	160237602	3	4	59	1	0	0	0	0	1	0	0	0	12148	768	27	1	1105	1	PNLDC1	6	160237602	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	7460448	160237602	10877465	102	22929										
GET4	51608	broad.mit.edu	37	chr7	934986	934986	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tccagggaaccttctgaccaGcctcatgggctcctcagagc	10	15	3	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:934986G>C	uc003sjl.1	+	9	1003	c.911G>C	c.(910-912)AGC>ACC	p.S304T	GET4_uc003sjj.1_RNA	NM_015949	NP_057033	Q7L5D6	GET4_HUMAN	hypothetical protein LOC51608	304					tail-anchored membrane protein insertion into ER membrane|transport	BAT3 complex	protein binding				0						CTTCTGACCAGCCTCATGGGC	0.642													23	58	---	---	---	---	PASS	C	934986	C	C	934986	3	2	59	1	0	0	0	0	1	0	0	0	6336	971	34	4	945	4	GET4	7	934986	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08		934986	158203677	103	22930										
INTS1	26173	broad.mit.edu	37	chr7	1516229	1516229	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cggggtgcgctggtcccgccCctgccagatgcgaggaacat	15	14	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:1516229C>A	uc003skn.2	-	37	5229	c.5128G>T	c.(5128-5130)GGG>TGG	p.G1710W	INTS1_uc003skm.1_5'Flank	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	1710					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		TGGTCCCGCCCCTGCCAGATG	0.687													20	39	---	---	---	---	PASS	A	1516229	A	A	1516229	3	1	59	1	0	0	0	0	1	0	0	0	7775	623	22	3	1492	3	INTS1	7	1516229	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	581243	1516229	157622434	104	22931										
USP42	84132	broad.mit.edu	37	chr7	6189570	6189570	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tctagtaaagtaacaaaaccGatcccccgcagtgaatcctg	7	12	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:6189570G>A	uc011jwo.1	+	13	1866	c.1743G>A	c.(1741-1743)CCG>CCA	p.P581P	USP42_uc010kth.1_Silent_p.P514P|USP42_uc011jwp.1_Silent_p.P581P|USP42_uc011jwq.1_Silent_p.P388P|USP42_uc011jwr.1_Silent_p.P426P	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	581					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		TAACAAAACCGATCCCCCGCA	0.527													3	42	---	---	---	---	PASS	A	6189570	A	A	6189570	2	1	59	1	0	0	0	0	0	0	0	1	17070	1045	37	2		2	USP42	7	6189570	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	4673341	6189570	152949093	105	22932										
MACC1	346389	broad.mit.edu	37	chr7	20197949	20197949	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttgaatttgatcaaaatcttCcagggacagatgtgagtaac	9	6	2	4			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:20197949C>A	uc003sus.3	-	5	2344	c.2035G>T	c.(2035-2037)GAA>TAA	p.E679*	MACC1_uc010kug.2_Nonsense_Mutation_p.E679*	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	679					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						TCAAAATCTTCCAGGGACAGA	0.343													11	71	---	---	---	---	PASS	A	20197949	A	A	20197949	4	1	59	1	0	0	0	0	0	1	0	0	9143	864	30	2	535	2	MACC1	7	20197949	Nonsense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	14008379	20197949	138940714	106	22933										
FAM188B	84182	broad.mit.edu	37	chr7	30921895	30921895	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgcagccggggctcctgcgtGactggaggactgagaggctc	17	11	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:30921895G>T	uc003tbt.2	+	16	2148	c.2071G>T	c.(2071-2073)GAC>TAC	p.D691Y	FAM188B_uc010kwe.2_Missense_Mutation_p.D662Y|AQP1_uc011kac.1_Missense_Mutation_p.D37Y|FAM188B_uc003tbu.2_Missense_Mutation_p.D211Y	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	691											0						GCTCCTGCGTGACTGGAGGAC	0.612													17	44	---	---	---	---	PASS	T	30921895	T	T	30921895	3	4	59	1	0	0	0	0	1	0	0	0	5515	1290	45	2	2133	2	FAM188B	7	30921895	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	10723946	30921895	128216768	107	22934										
CCDC129	223075	broad.mit.edu	37	chr7	31611726	31611726	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ccaactgtagatctttgcatCagttttcagaaactcccatc	5	12	3	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:31611726C>T	uc003tcj.1	+	6	1312	c.319C>T	c.(319-321)CAG>TAG	p.Q107*	CCDC129_uc011kad.1_Nonsense_Mutation_p.Q117*|CCDC129_uc003tci.1_Nonsense_Mutation_p.Q106*|CCDC129_uc011kae.1_Nonsense_Mutation_p.Q133*|CCDC129_uc003tck.1_Nonsense_Mutation_p.Q15*	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	107											0						ATCTTTGCATCAGTTTTCAGA	0.403													4	25	---	---	---	---	PASS	T	31611726	T	T	31611726	4	4	59	1	0	0	0	0	0	1	0	0	2764	827	29	2	337	2	CCDC129	7	31611726	Nonsense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	689831	31611726	127526937	108	22935										
ZP3	7784	broad.mit.edu	37	chr7	76026960	76026960	+	Translation_Start_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgtccagcaggatgtgtccgGtgccatagccgaagaaggcg	15	10	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:76026960G>A	uc003ufc.3	+	1	120	c.-220G>A	c.(-222--218)CGGTG>CGATG		SRCRB4D_uc003ufb.2_Missense_Mutation_p.T248I	NM_007155	NP_009086	P21754	ZP3_HUMAN	zona pellucida glycoprotein 3 isoform 2						binding of sperm to zona pellucida|blastocyst formation|egg coat formation|humoral immune response mediated by circulating immunoglobulin|intracellular protein transport|negative regulation of binding of sperm to zona pellucida|negative regulation of transcription, DNA-dependent|oocyte development|phosphatidylinositol-mediated signaling|positive regulation of acrosomal vesicle exocytosis|positive regulation of acrosome reaction|positive regulation of antral ovarian follicle growth|positive regulation of calcium ion import|positive regulation of calcium ion transport via store-operated calcium channel activity|positive regulation of humoral immune response|positive regulation of interferon-gamma production|positive regulation of interleukin-4 production|positive regulation of leukocyte migration|positive regulation of ovarian follicle development|positive regulation of phosphatidylinositol biosynthetic process|positive regulation of protein kinase activity|positive regulation of protein kinase B signaling cascade|positive regulation of T cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of type IV hypersensitivity|protein kinase C signaling cascade	endoplasmic reticulum|extracellular space|Golgi apparatus|integral to membrane|multivesicular body|outer acrosomal membrane|perinuclear region of cytoplasm|plasma membrane|proteinaceous extracellular matrix	acrosin binding|manganese ion transmembrane transporter activity|receptor activity|sugar binding				0						GATGTGTCCGGTGCCATAGCC	0.701													8	12	---	---	---	---	PASS	A	76026960	A	A	76026960	1	1	59	1	0	0	0	0	0	0	0	0	18214	1261	44	3		3	ZP3	7	76026960	Translation_Start_Site	SNP	G	TCGA-33-4582-01A-01D-1441-08	44415234	76026960	83111703	109	22936										
LMTK2	22853	broad.mit.edu	37	chr7	97822522	97822522	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gccagcagggtgagtgtaggGagtagtctcccggaactggg	18	8	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:97822522G>T	uc003upd.1	+	11	3038	c.2745G>T	c.(2743-2745)GGG>GGT	p.G915G		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	915					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)					TGAGTGTAGGGAGTAGTCTCC	0.532													15	91	---	---	---	---	PASS	T	97822522	T	T	97822522	2	4	59	1	0	0	0	0	0	0	0	1	8859	1161	41	2		2	LMTK2	7	97822522	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	21795562	97822522	61316141	110	22937										
PTCD1	26024	broad.mit.edu	37	chr7	99023070	99023070	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cctgggctgtcctccttggcCgctgcctgctcactgggggc	14	16	1	0	rs141837479		TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:99023070C>A	uc003uqh.2	-	6	1216	c.1085G>T	c.(1084-1086)CGG>CTG	p.R362L	PTCD1_uc011kiw.1_Missense_Mutation_p.R411L	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	362										ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			CCTCCTTGGCCGCTGCCTGCT	0.647													29	75	---	---	---	---	PASS	A	99023070	A	A	99023070	3	1	59	1	0	0	0	0	1	0	0	0	12727	652	23	1	1029	1	PTCD1	7	99023070	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	1200548	99023070	60115593	111	22938										
ZNF394	84124	broad.mit.edu	37	chr7	99091835	99091835	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	atggaaactgtctccactgtCagacttgtgaggtttcagca	10	9	3	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:99091835C>A	uc003uqs.2	-	3	1164	c.1003G>T	c.(1003-1005)GAC>TAC	p.D335Y	ZNF394_uc003uqt.2_Missense_Mutation_p.D128Y	NM_032164	NP_115540	Q53GI3	ZN394_HUMAN	zinc finger protein 394	335					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					TCTCCACTGTCAGACTTGTGA	0.493													39	97	---	---	---	---	PASS	A	99091835	A	A	99091835	3	1	59	1	0	0	0	0	1	0	0	0	17877	826	29	2	686	2	ZNF394	7	99091835	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	68765	99091835	60046828	112	22939										
NAA38	51691	broad.mit.edu	37	chr7	117825716	117825716	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttcagttatcaggaactgttGccgttattacatcagatggg	10	7	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:117825716G>C	uc003vjg.2	+	2	232	c.40G>C	c.(40-42)GCC>CCC	p.A14P		NM_016200	NP_057284	O95777	NAA38_HUMAN	U6 snRNA-associated Sm-like protein LSm8	14					nuclear mRNA splicing, via spliceosome	nucleus|ribonucleoprotein complex	protein binding|U6 snRNA binding				0						AGGAACTGTTGCCGTTATTAC	0.343													8	118	---	---	---	---	PASS	C	117825716	C	C	117825716	3	2	59	1	0	0	0	0	1	0	0	0	10124	1319	46	4	46	4	NAA38	7	117825716	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	18733881	117825716	41312947	113	22940										
CADPS2	93664	broad.mit.edu	37	chr7	122111574	122111574	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tctcacaccataacgggcacAgtactcatctaacacaaaga	5	13	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:122111574A>G	uc010lkp.2	-	13	2204	c.2041T>C	c.(2041-2043)TGT>CGT	p.C681R	CADPS2_uc011knx.1_Missense_Mutation_p.C52R|CADPS2_uc003vkg.3_Missense_Mutation_p.C378R|CADPS2_uc010lkq.2_Missense_Mutation_p.C678R	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	681					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						TAACGGGCACAGTACTCATCT	0.418													2	18	---	---	---	---	PASS	G	122111574	G	G	122111574	3	3	59	1	0	0	0	0	1	0	0	0	2571	188	7	5	1961	5	CADPS2	7	122111574	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	4285858	122111574	37027089	114	22941										
OPN1SW	611	broad.mit.edu	37	chr7	128413738	128413738	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gcagtagatgatgggattgtAgatgcaagcactcttggaga	14	5	1	4			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:128413738A>C	uc003vnt.3	-	4	892	c.892T>G	c.(892-894)TAC>GAC	p.Y298D		NM_001708	NP_001699	P03999	OPSB_HUMAN	opsin 1 (cone pigments), short-wave-sensitive	298	Helical; Name=7; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0						ATGGGATTGTAGATGCAAGCA	0.458													11	41	---	---	---	---	PASS	C	128413738	C	C	128413738	3	2	59	1	0	0	0	0	1	0	0	0	10880	420	15	5	162	5	OPN1SW	7	128413738	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	6302164	128413738	30724925	115	22942										
WDR91	29062	broad.mit.edu	37	chr7	134881005	134881005	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	agggcctgccgaggatgcccGagtcagtggctccactggct	15	13	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:134881005G>T	uc003vsp.2	-	8	1197	c.1135C>A	c.(1135-1137)CGG>AGG	p.R379R	WDR91_uc010lmq.2_5'UTR|WDR91_uc010lmr.2_RNA	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91	379										breast(2)|ovary(1)|skin(1)	4						GAGGATGCCCGAGTCAGTGGC	0.622													3	40	---	---	---	---	PASS	T	134881005	T	T	134881005	2	4	59	1	0	0	0	0	0	0	0	1	17335	1057	37	2		2	WDR91	7	134881005	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	6467267	134881005	24257658	116	22943										
MGAM	8972	broad.mit.edu	37	chr7	141727446	141727446	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cccttccctcctactgggcgCttggatttcacctcagtcgt	8	16	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:141727446C>T	uc003vwy.2	+	10	1186	c.1132C>T	c.(1132-1134)CTT>TTT	p.L378F		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	378	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	CTACTGGGCGCTTGGATTTCA	0.443													10	65	---	---	---	---	PASS	T	141727446	T	T	141727446	3	4	59	1	0	0	0	0	1	0	0	0	9541	797	28	3	1166	3	MGAM	7	141727446	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	6846441	141727446	17411217	117	22944										
TMEM176B	28959	broad.mit.edu	37	chr7	150493564	150493564	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tttcagcagttgtgtcaaagCtgactcctggtggatgtgga	13	7	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr7:150493564C>T	uc003wht.3	-	2	260	c.94G>A	c.(94-96)GCT>ACT	p.A32T	TMEM176B_uc003whu.3_Missense_Mutation_p.A32T|TMEM176B_uc003whv.3_Missense_Mutation_p.A32T|TMEM176B_uc003whw.3_Missense_Mutation_p.A32T	NM_001101313	NP_001094783	Q3YBM2	T176B_HUMAN	transmembrane protein 176B isoform a	32					cell differentiation|organ morphogenesis	integral to membrane|nuclear membrane				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGTGTCAAAGCTGACTCCTGG	0.527													26	54	---	---	---	---	PASS	T	150493564	T	T	150493564	3	4	59	1	0	0	0	0	1	0	0	0	16090	797	28	3	742	3	TMEM176B	7	150493564	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	8766118	150493564	8645099	118	22945										
UNC5D	137970	broad.mit.edu	37	chr8	35606179	35606179	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttctgagcattggaatatccAtttaaagaagaggacacagc	9	7	1	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr8:35606179A>T	uc003xjr.1	+	12	2229	c.1901A>T	c.(1900-1902)CAT>CTT	p.H634L	UNC5D_uc003xjs.1_Missense_Mutation_p.H629L|UNC5D_uc003xju.1_Missense_Mutation_p.H210L	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	634	ZU5.|Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		TGGAATATCCATTTAAAGAAG	0.468													13	146	---	---	---	---	PASS	T	35606179	T	T	35606179	3	4	59	1	0	0	0	0	1	0	0	0	16992	217	8	5	1947	5	UNC5D	8	35606179	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08		35606179	110757843	119	22946										
ZNF703	80139	broad.mit.edu	37	chr8	37556171	37556171	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ggacagagactagcttcagcCtcggcgctgggataccagta	13	11	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr8:37556171C>A	uc003xjy.1	+	2	1949	c.1752C>A	c.(1750-1752)GCC>GCA	p.A584A		NM_025069	NP_079345	Q9H7S9	ZN703_HUMAN	zinc finger protein 703	584					adherens junction assembly|mammary gland epithelial cell differentiation|negative regulation of homotypic cell-cell adhesion|negative regulation of transcription, DNA-dependent|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of mammary gland epithelial cell proliferation|regulation of canonical Wnt receptor signaling pathway|regulation of cell cycle|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			breast(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(5;7.93e-25)|LUSC - Lung squamous cell carcinoma(8;1.05e-09)			TAGCTTCAGCCTCGGCGCTGG	0.507													5	52	---	---	---	---	PASS	A	37556171	A	A	37556171	2	1	59	1	0	0	0	0	0	0	0	1	18103	668	24	3		3	ZNF703	8	37556171	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	1949992	37556171	108807851	120	22947										
MYST3	7994	broad.mit.edu	37	chr8	41834699	41834699	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgttgaacttcaaggagacaTtgctatctctgcagaagtcc	9	9	2	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr8:41834699T>C	uc010lxb.2	-	8	1734	c.1190A>G	c.(1189-1191)AAT>AGT	p.N397S	MYST3_uc010lxc.2_Missense_Mutation_p.N397S|MYST3_uc003xon.3_Missense_Mutation_p.N397S|MYST3_uc010lxd.2_Missense_Mutation_p.N397S	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	397	Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			CAAGGAGACATTGCTATCTCT	0.453													8	188	---	---	---	---	PASS	C	41834699	C	C	41834699	3	2	59	1	0	0	0	0	1	0	0	0	10104	1493	52	5	4868	5	MYST3	8	41834699	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	4278528	41834699	104529323	121	22948										
PXDNL	137902	broad.mit.edu	37	chr8	52366245	52366245	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ccattgtccctggtccaagtGataagagggtgtgggtggcc	15	9	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr8:52366245G>T	uc003xqu.3	-	10	1184	c.1083C>A	c.(1081-1083)ATC>ATA	p.I361I		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	361	Ig-like C2-type 2.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TGGTCCAAGTGATAAGAGGGT	0.507													17	53	---	---	---	---	PASS	T	52366245	T	T	52366245	2	4	59	1	0	0	0	0	0	0	0	1	12848	1280	45	2		2	PXDNL	8	52366245	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	10531546	52366245	93997777	122	22949										
RB1CC1	9821	broad.mit.edu	37	chr8	53573547	53573547	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tcatataatctctttccatcTttgactaaagcaccagccca	3	13	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr8:53573547T>C	uc003xre.3	-	11	2124	c.1566A>G	c.(1564-1566)AAA>AAG	p.K522K	RB1CC1_uc003xrf.3_Silent_p.K522K	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	522					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				TCTTTCCATCTTTGACTAAAG	0.289													17	84	---	---	---	---	PASS	C	53573547	C	C	53573547	2	2	59	1	0	0	0	0	0	0	0	1	13099	1606	56	5		5	RB1CC1	8	53573547	Silent	SNP	T	TCGA-33-4582-01A-01D-1441-08	1207302	53573547	92790475	123	22950										
LYPLA1	10434	broad.mit.edu	37	chr8	54967634	54967634	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tcttacctgagaaaaccctcCcaaaataattctgttagaag	5	10	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr8:54967634C>G	uc003xry.2	-	6	540	c.346G>C	c.(346-348)GGA>CGA	p.G116R	LYPLA1_uc011ldx.1_Missense_Mutation_p.G111R|LYPLA1_uc003xrz.2_Missense_Mutation_p.G95R	NM_006330	NP_006321	O75608	LYPA1_HUMAN	lysophospholipase 1	116					fatty acid metabolic process|nitric oxide metabolic process|regulation of nitric-oxide synthase activity	cytosol	lysophospholipase activity|palmitoyl-(protein) hydrolase activity			central_nervous_system(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.11)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;8.48e-07)|Epithelial(17;9.29e-05)|all cancers(17;0.000689)			GAAAACCCTCCCAAAATAATT	0.328													4	72	---	---	---	---	PASS	G	54967634	G	G	54967634	3	3	59	1	0	0	0	0	1	0	0	0	9116	632	22	4	362	4	LYPLA1	8	54967634	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	1394087	54967634	91396388	124	22951										
CSPP1	79848	broad.mit.edu	37	chr8	68087623	68087623	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	agcagcaagccctgctaagaGagcagcagaagaggctgaac	13	10	0	4			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr8:68087623G>C	uc003xxi.2	+	26	3182	c.3151G>C	c.(3151-3153)GAG>CAG	p.E1051Q	ARFGEF1_uc003xxl.1_3'UTR|CSPP1_uc003xxj.2_Missense_Mutation_p.E1016Q|CSPP1_uc003xxk.2_Missense_Mutation_p.E671Q|CSPP1_uc010lyw.2_Missense_Mutation_p.E111Q	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	1051						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			CCTGCTAAGAGAGCAGCAGAA	0.418													23	79	---	---	---	---	PASS	C	68087623	C	C	68087623	3	2	59	1	0	0	0	0	1	0	0	0	3962	943	33	2	3253	2	CSPP1	8	68087623	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	13119989	68087623	78276399	125	22952										
RIMS2	9699	broad.mit.edu	37	chr8	104898313	104898313	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	agtcagtgagacctccaccaCcaaagcctcataaatcaaag	6	13	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr8:104898313C>A	uc003yls.2	+	2	1061	c.820C>A	c.(820-822)CCA>ACA	p.P274T	RIMS2_uc003ylp.2_Missense_Mutation_p.P496T|RIMS2_uc003ylw.2_Missense_Mutation_p.P304T|RIMS2_uc003ylq.2_Missense_Mutation_p.P304T|RIMS2_uc003ylr.2_Missense_Mutation_p.P304T	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	527					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			ACCTCCACCACCAAAGCCTCA	0.428										HNSCC(12;0.0054)			13	51	---	---	---	---	PASS	A	104898313	A	A	104898313	3	1	59	1	0	0	0	0	1	0	0	0	13368	507	18	3	1626	3	RIMS2	8	104898313	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	36810690	104898313	41465709	126	22953										
CSMD3	114788	broad.mit.edu	37	chr8	113314135	113314135	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	agatagctgttgagccatatGaagtttgagttccaatctta	9	6	1	4			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr8:113314135G>T	uc003ynu.2	-	53	8486	c.8327C>A	c.(8326-8328)TCA>TAA	p.S2776*	CSMD3_uc003yns.2_Nonsense_Mutation_p.S1978*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.S2736*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.S2607*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2776	Extracellular (Potential).|Sushi 17.					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						TGAGCCATATGAAGTTTGAGT	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			30	69	---	---	---	---	PASS	T	113314135	T	T	113314135	4	4	59	1	0	0	0	0	0	1	0	0	3946	1294	45	2	2872	2	CSMD3	8	113314135	Nonsense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	8415822	113314135	33049887	127	22954										
SLC30A8	169026	broad.mit.edu	37	chr8	118184797	118184797	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gccagccgggacagccaagtGgttcggagagaaattgctaa	14	9	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr8:118184797G>A	uc003yoh.2	+	8	1217	c.987G>A	c.(985-987)GTG>GTA	p.V329V	SLC30A8_uc010mcz.2_Silent_p.V280V|SLC30A8_uc011lia.1_Silent_p.V280V|SLC30A8_uc003yog.2_Silent_p.V280V	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	329	Cytoplasmic (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			ACAGCCAAGTGGTTCGGAGAG	0.507													21	107	---	---	---	---	PASS	A	118184797	A	A	118184797	2	1	59	1	0	0	0	0	0	0	0	1	14561	1335	47	3		3	SLC30A8	8	118184797	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	4870662	118184797	28179225	128	22955										
DMRTA1	63951	broad.mit.edu	37	chr9	22451172	22451172	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aggtctaatggtgtcattggGaaacaaagtatcgggtcatc	12	6	3	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr9:22451172G>T	uc003zpp.1	+	2	1002	c.777G>T	c.(775-777)GGG>GGT	p.G259G		NM_022160	NP_071443	Q5VZB9	DMRTA_HUMAN	DMRT-like family A1	259					cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|skin(1)	2		all_cancers(5;4.09e-243)|Acute lymphoblastic leukemia(3;8.25e-150)|all_hematologic(3;4.25e-147)|Esophageal squamous(3;2.32e-09)|Renal(3;1.71e-07)|Breast(3;2.07e-06)|Hepatocellular(5;0.00563)		GBM - Glioblastoma multiforme(1;5.12e-278)|Lung(24;8.2e-52)|LUSC - Lung squamous cell carcinoma(38;1.46e-37)|OV - Ovarian serous cystadenocarcinoma(39;0.0517)		GTGTCATTGGGAAACAAAGTA	0.438													21	52	---	---	---	---	PASS	T	22451172	T	T	22451172	2	4	59	1	0	0	0	0	0	0	0	1	4588	1161	41	2		2	DMRTA1	9	22451172	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08		22451172	118762259	129	22956										
COL15A1	1306	broad.mit.edu	37	chr9	101801014	101801014	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tcctgagctggtggggcctcCggttggtatctacagctgcc	14	12	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr9:101801014C>T	uc004azb.1	+	22	2680	c.2474C>T	c.(2473-2475)CCG>CTG	p.P825L		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	825	Triple-helical region 4 (COL4).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				GTGGGGCCTCCGGTTGGTATC	0.468													27	114	---	---	---	---	PASS	T	101801014	T	T	101801014	3	4	59	1	0	0	0	0	1	0	0	0	3672	666	23	1	2560	1	COL15A1	9	101801014	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	79349842	101801014	39412417	130	22957										
ASTN2	23245	broad.mit.edu	37	chr9	119858349	119858349	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgcggcggcgactgcggtacTgctccgtgtagaatgtcagc	15	11	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr9:119858349T>A	uc004bjs.1	-	5	1351	c.1250A>T	c.(1249-1251)CAG>CTG	p.Q417L	ASTN2_uc004bjr.1_Missense_Mutation_p.Q417L|ASTN2_uc004bjt.1_Missense_Mutation_p.Q366L	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	417	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						ACTGCGGTACTGCTCCGTGTA	0.512													9	47	---	---	---	---	PASS	A	119858349	A	A	119858349	3	1	59	1	0	0	0	0	1	0	0	0	1065	1580	55	5	3077	5	ASTN2	9	119858349	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	18057335	119858349	21355082	131	22958										
MASTL	84930	broad.mit.edu	37	chr10	27459686	27459686	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gcatcaaagaatcctcttttGaagaatcaaatattgaagat	6	6	3	5			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr10:27459686G>A	uc001itm.2	+	8	2437	c.1798G>A	c.(1798-1800)GAA>AAA	p.E600K	MASTL_uc001itl.2_Missense_Mutation_p.E600K|MASTL_uc009xkw.1_Missense_Mutation_p.E600K|MASTL_uc009xkx.1_RNA	NM_032844	NP_116233	Q96GX5	GWL_HUMAN	microtubule associated serine/threonine	600	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|mitosis|negative regulation of protein phosphatase type 2A activity|regulation of cell cycle|response to DNA damage stimulus	centrosome|cleavage furrow|nucleus	ATP binding|protein phosphatase 2A binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						ATCCTCTTTTGAAGAATCAAA	0.373													14	29	---	---	---	---	PASS	A	27459686	A	A	27459686	3	1	59	1	0	0	0	0	1	0	0	0	9328	1291	45	2	1828	2	MASTL	10	27459686	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08		27459686	108075061	132	22959										
BMS1	9790	broad.mit.edu	37	chr10	43285800	43285800	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cttatagatgccagctttggGtttgaaatggaaacgtttga	11	5	0	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr10:43285800G>T	uc001jaj.2	+	5	835	c.477G>T	c.(475-477)GGG>GGT	p.G159G		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	159					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						CCAGCTTTGGGTTTGAAATGG	0.358													30	108	---	---	---	---	PASS	T	43285800	T	T	43285800	2	4	59	1	0	0	0	0	0	0	0	1	1472	1248	44	3		3	BMS1	10	43285800	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	15826114	43285800	92248947	133	22960										
PCDH15	65217	broad.mit.edu	37	chr10	55582958	55582958	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tagaaatgtgaattttcttgCagacttcagtttgttgctct	8	6	3	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr10:55582958C>A	uc001jju.1	-	33	4923	c.4528G>T	c.(4528-4530)GCA>TCA	p.A1510S	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.A1507S|PCDH15_uc010qhw.1_Missense_Mutation_p.A1470S|PCDH15_uc010qhx.1_Missense_Mutation_p.A1441S|PCDH15_uc010qhy.1_Missense_Mutation_p.A1517S|PCDH15_uc010qhz.1_Missense_Mutation_p.A1512S|PCDH15_uc010qia.1_Missense_Mutation_p.A1490S|PCDH15_uc010qib.1_Missense_Mutation_p.A1487S	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1510	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AATTTTCTTGCAGACTTCAGT	0.373										HNSCC(58;0.16)			79	34	---	---	---	---	PASS	A	55582958	A	A	55582958	3	1	59	1	0	0	0	0	1	0	0	0	11511	710	25	3	2949	3	PCDH15	10	55582958	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	12297158	55582958	79951789	134	22961										
PCDH15	65217	broad.mit.edu	37	chr10	55663006	55663006	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aacataattccgcataccttCactctgagtacagaagtaaa	5	10	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr10:55663006C>A	uc001jju.1	-	26	3893	c.3498G>T	c.(3496-3498)GTG>GTT	p.V1166V	PCDH15_uc010qhq.1_Silent_p.V1171V|PCDH15_uc010qhr.1_Silent_p.V1166V|PCDH15_uc010qhs.1_Silent_p.V1178V|PCDH15_uc010qht.1_Silent_p.V1173V|PCDH15_uc010qhu.1_Silent_p.V1166V|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.V1166V|PCDH15_uc010qhw.1_Silent_p.V1129V|PCDH15_uc010qhx.1_Silent_p.V1095V|PCDH15_uc010qhy.1_Silent_p.V1171V|PCDH15_uc010qhz.1_Silent_p.V1166V|PCDH15_uc010qia.1_Silent_p.V1144V|PCDH15_uc010qib.1_Silent_p.V1144V	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1166	Cadherin 11.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CGCATACCTTCACTCTGAGTA	0.363										HNSCC(58;0.16)			35	30	---	---	---	---	PASS	A	55663006	A	A	55663006	2	1	59	1	0	0	0	0	0	0	0	1	11511	813	29	2		2	PCDH15	10	55663006	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	80048	55663006	79871741	135	22962										
PCDH15	65217	broad.mit.edu	37	chr10	55782681	55782681	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aaggatggtagtcccagctgGcaaattctcttcaacaagga	10	9	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr10:55782681G>T	uc001jju.1	-	19	2892	c.2497C>A	c.(2497-2499)CCA>ACA	p.P833T	PCDH15_uc010qhq.1_Missense_Mutation_p.P838T|PCDH15_uc010qhr.1_Missense_Mutation_p.P833T|PCDH15_uc010qhs.1_Missense_Mutation_p.P845T|PCDH15_uc010qht.1_Missense_Mutation_p.P840T|PCDH15_uc010qhu.1_Missense_Mutation_p.P833T|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.P833T|PCDH15_uc010qhw.1_Missense_Mutation_p.P796T|PCDH15_uc010qhx.1_Missense_Mutation_p.P762T|PCDH15_uc010qhy.1_Missense_Mutation_p.P838T|PCDH15_uc010qhz.1_Missense_Mutation_p.P833T|PCDH15_uc010qia.1_Missense_Mutation_p.P811T|PCDH15_uc010qib.1_Missense_Mutation_p.P811T|PCDH15_uc001jjw.2_Missense_Mutation_p.P833T	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	833	Extracellular (Potential).|Cadherin 8.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GTCCCAGCTGGCAAATTCTCT	0.358										HNSCC(58;0.16)			5	153	---	---	---	---	PASS	T	55782681	T	T	55782681	3	4	59	1	0	0	0	0	1	0	0	0	11511	1203	42	3	5049	3	PCDH15	10	55782681	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	119675	55782681	79752066	136	22963										
DDIT4	54541	broad.mit.edu	37	chr10	74034084	74034084	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gcgctcagcctgggggtcggCgacccgggaggaggggtttg	21	10	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr10:74034084C>T	uc001jsx.1	+	2	312	c.110C>T	c.(109-111)GCG>GTG	p.A37V		NM_019058	NP_061931	Q9NX09	DDIT4_HUMAN	RTP801	37					apoptosis					pancreas(1)	1						TGGGGGTCGGCGACCCGGGAG	0.687													31	24	---	---	---	---	PASS	T	74034084	T	T	74034084	3	4	59	1	0	0	0	0	1	0	0	0	4331	768	27	1	112	1	DDIT4	10	74034084	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	18251403	74034084	61500663	137	22964										
MYST4	23522	broad.mit.edu	37	chr10	76790711	76790711	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ccaatgcagaccccaccccaCggtaacatgatgtacacggc	8	16	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr10:76790711C>T	uc001jwn.1	+	18	6622	c.6129C>T	c.(6127-6129)CAC>CAT	p.H2043H	MYST4_uc001jwo.1_Silent_p.H1751H|MYST4_uc001jwp.1_Silent_p.H1860H	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	2043	Interaction with RUNX1 and RUNX2.|Met-rich.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					CCCCACCCCACGGTAACATGA	0.532			T	CREBBP	AML								15	39	---	---	---	---	PASS	T	76790711	T	T	76790711	2	4	59	1	0	0	0	0	0	0	0	1	10105	535	19	1		1	MYST4	10	76790711	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	2756627	76790711	58744036	138	22965										
LIPJ	142910	broad.mit.edu	37	chr10	90362337	90362337	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tttttttacccctcagagtcGtttggatgtgtatttttcac	7	8	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr10:90362337G>C	uc001kff.2	+	9	1042	c.728G>C	c.(727-729)CGT>CCT	p.R243P		NM_001010939	NP_001010939	Q5W064	LIPJ_HUMAN	lipase, family member J	243					lipid catabolic process		hydrolase activity			ovary(1)	1		all_cancers(4;2.79e-10)|Prostate(4;1.68e-15)|all_epithelial(4;1.43e-09)|Colorectal(252;0.0381)|Breast(4;0.141)|Melanoma(5;0.2)|all_hematologic(4;0.222)		Colorectal(12;1.02e-05)|COAD - Colon adenocarcinoma(12;1.54e-05)		CCTCAGAGTCGTTTGGATGTG	0.274													37	64	---	---	---	---	PASS	C	90362337	C	C	90362337	3	2	59	1	0	0	0	0	1	0	0	0	8826	1145	40	4	754	4	LIPJ	10	90362337	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	13571626	90362337	45172410	139	22966										
PIK3AP1	118788	broad.mit.edu	37	chr10	98411397	98411397	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tatcttcagagaaacgttccCagatgaaaggtctgaacaga	9	8	3	5			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr10:98411397C>T	uc001kmq.2	-	5	852	c.724G>A	c.(724-726)GGG>AGG	p.G242R	PIK3AP1_uc001kmp.2_Missense_Mutation_p.G64R	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	242	DBB.					cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		GAAACGTTCCCAGATGAAAGG	0.393													11	21	---	---	---	---	PASS	T	98411397	T	T	98411397	3	4	59	1	0	0	0	0	1	0	0	0	11908	594	21	3	1745	3	PIK3AP1	10	98411397	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	8049060	98411397	37123350	140	22967										
PNLIPRP2	5408	broad.mit.edu	37	chr10	118396324	118396324	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tttcccttgtccagctgaagGatgccccaaaatggggcact	10	12	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr10:118396324G>C	uc001lcq.2	+	12	991	c.968G>C	c.(967-969)GGA>GCA	p.G323A	PNLIPRP2_uc009xyv.1_RNA	NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2	322					galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		CCAGCTGAAGGATGCCCCAAA	0.408													8	4	---	---	---	---	PASS	C	118396324	C	C	118396324	3	2	59	1	0	0	0	0	1	0	0	0	12151	1174	41	2	1005	2	PNLIPRP2	10	118396324	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	19984927	118396324	17138423	141	22968										
C10orf119	79892	broad.mit.edu	37	chr10	121596523	121596523	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	acgttatgaggttgctcaggGctgtcacattatgaacacct	10	9	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr10:121596523G>T	uc001ler.2	-	13	1731	c.1433C>A	c.(1432-1434)GCC>GAC	p.A478D	C10orf119_uc001leq.1_Missense_Mutation_p.A303D|C10orf119_uc001les.1_Missense_Mutation_p.A303D	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	478					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)		GTTGCTCAGGGCTGTCACATT	0.428													4	80	---	---	---	---	PASS	T	121596523	T	T	121596523	3	4	59	1	0	0	0	0	1	0	0	0	1588	1203	42	3	511	3	C10orf119	10	121596523	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	3200199	121596523	13938224	142	22969										
PDE3B	5140	broad.mit.edu	37	chr11	14808182	14808182	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	atttcctggattttacccctGttctgaaatagaggacccag	8	10	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr11:14808182G>T	uc001mln.2	+	3	1582	c.1229G>T	c.(1228-1230)TGT>TTT	p.C410F	PDE3B_uc010rcr.1_Intron	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	410					cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						TTTTACCCCTGTTCTGAAATA	0.378													74	70	---	---	---	---	PASS	T	14808182	T	T	14808182	3	4	59	1	0	0	0	0	1	0	0	0	11638	1377	48	3	1239	3	PDE3B	11	14808182	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08		14808182	120198334	143	22970										
KIF18A	81930	broad.mit.edu	37	chr11	28058072	28058072	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ataggctgaagttctttgctAagagaatcattgagctgcac	10	7	2	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr11:28058072A>G	uc001msc.2	-	14	2270	c.2088T>C	c.(2086-2088)CTT>CTC	p.L696L		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	696					blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						GTTCTTTGCTAAGAGAATCAT	0.378													26	106	---	---	---	---	PASS	G	28058072	G	G	28058072	2	3	59	1	0	0	0	0	0	0	0	1	8280	349	13	5		5	KIF18A	11	28058072	Silent	SNP	A	TCGA-33-4582-01A-01D-1441-08	13249890	28058072	106948444	144	22971										
NUP160	23279	broad.mit.edu	37	chr11	47830025	47830025	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	taagataagagtaggggagcTgttcgatgtagtaggtcttg	15	3	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr11:47830025T>C	uc001ngm.2	-	18	2383	c.2298A>G	c.(2296-2298)ACA>ACG	p.T766T	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	766					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						GTAGGGGAGCTGTTCGATGTA	0.418													45	27	---	---	---	---	PASS	C	47830025	C	C	47830025	2	2	59	1	0	0	0	0	0	0	0	1	10757	1567	55	5		5	NUP160	11	47830025	Silent	SNP	T	TCGA-33-4582-01A-01D-1441-08	19771953	47830025	87176491	145	22972										
SLC15A3	51296	broad.mit.edu	37	chr11	60707042	60707042	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tggtgccgcgttgtacaggaCctccccaatctgctgggaca	12	13	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr11:60707042C>A	uc001nqn.2	-	6	1579	c.1345G>T	c.(1345-1347)GTC>TTC	p.V449F	SLC15A3_uc001nqo.2_Missense_Mutation_p.R392S	NM_016582	NP_057666	Q8IY34	S15A3_HUMAN	solute carrier family 15, member 3	449					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0						TTGTACAGGACCTCCCCAATC	0.567													8	40	---	---	---	---	PASS	A	60707042	A	A	60707042	3	1	59	1	0	0	0	0	1	0	0	0	14400	507	18	3	412	3	SLC15A3	11	60707042	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	12877017	60707042	74299474	146	22973										
RAB6A	5870	broad.mit.edu	37	chr11	73389000	73389000	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgaggcttttccagttttatGtcaatcactgaaacaaaagt	7	7	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr11:73389000G>A	uc001oue.2	-	8	1091	c.570C>T	c.(568-570)GAC>GAT	p.D190D	RAB6A_uc001ouf.2_Silent_p.D190D|RAB6A_uc009yts.2_Silent_p.D86D	NM_002869	NP_002860	P20340	RAB6A_HUMAN	RAB6A, member RAS oncogene family isoform a	190					minus-end-directed organelle transport along microtubule|peptidyl-cysteine methylation|protein targeting to Golgi|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic vesicle|cytosol|Golgi membrane|trans-Golgi network	GTP binding|GTPase activity|protein domain specific binding				0						CCAGTTTTATGTCAATCACTG	0.408													29	35	---	---	---	---	PASS	A	73389000	A	A	73389000	2	1	59	1	0	0	0	0	0	0	0	1	12951	1368	48	3		3	RAB6A	11	73389000	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	12681958	73389000	61617516	147	22974										
OMP	4975	broad.mit.edu	37	chr11	76814207	76814207	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	accccactgccatcttctggCgcaaggaggactcggatgcc	11	15	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr11:76814207C>T	uc010rsk.1	+	1	322	c.322C>T	c.(322-324)CGC>TGC	p.R108C	CAPN5_uc001oxx.2_Intron|CAPN5_uc009yup.2_Intron|CAPN5_uc009yuq.2_Intron|CAPN5_uc001oxy.2_Intron	NM_006189	NP_006180	P47874	OMP_HUMAN	olfactory marker protein	108					sensory perception of smell|synaptic transmission						0						CATCTTCTGGCGCAAGGAGGA	0.612													9	45	---	---	---	---	PASS	T	76814207	T	T	76814207	3	4	59	1	0	0	0	0	1	0	0	0	10867	768	27	1	324	1	OMP	11	76814207	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	3425207	76814207	58192309	148	22975										
FZD4	8322	broad.mit.edu	37	chr11	86662462	86662462	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aatcacacacgttgcaggaaCtgtgtacagtactgagaaca	9	9	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr11:86662462C>G	uc001pce.2	-	2	1642	c.1336G>C	c.(1336-1338)GTT>CTT	p.V446L	PRSS23_uc001pcc.1_RNA	NM_012193	NP_036325	Q9ULV1	FZD4_HUMAN	frizzled 4 precursor	446	Helical; Name=6; (Potential).				canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|negative regulation of cell-substrate adhesion|neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|progesterone secretion|regulation of vascular endothelial growth factor receptor signaling pathway|substrate adhesion-dependent cell spreading|vasculogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cell projection|cell surface|cytoplasm	cytokine binding|G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			large_intestine(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GTTGCAGGAACTGTGTACAGT	0.403													11	145	---	---	---	---	PASS	G	86662462	G	G	86662462	3	3	59	1	0	0	0	0	1	0	0	0	6132	565	20	4	281	4	FZD4	11	86662462	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	9848255	86662462	48344054	149	22976										
MMP12	4321	broad.mit.edu	37	chr11	102742661	102742661	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tcaacatcctcacggttcatGtcaggtgtgtaattattgat	8	8	4	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr11:102742661G>T	uc001phk.2	-	3	417	c.372C>A	c.(370-372)GAC>GAA	p.D124E		NM_002426	NP_002417	P39900	MMP12_HUMAN	matrix metalloproteinase 12 preproprotein	124		Calcium 1.			positive regulation of epithelial cell proliferation involved in wound healing|proteolysis|wound healing, spreading of epidermal cells	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)	CACGGTTCATGTCAGGTGTGT	0.388													6	39	---	---	---	---	PASS	T	102742661	T	T	102742661	3	4	59	1	0	0	0	0	1	0	0	0	9651	1368	48	3	1071	3	MMP12	11	102742661	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	16080199	102742661	32263855	150	22977										
EXPH5	23086	broad.mit.edu	37	chr11	108382994	108382994	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tctgaaaggactttggaacaTtcattcgctgactcaggaga	10	8	3	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr11:108382994T>C	uc001pkk.2	-	6	3351	c.3240A>G	c.(3238-3240)GAA>GAG	p.E1080E	EXPH5_uc010rvy.1_Silent_p.E892E|EXPH5_uc010rvz.1_Silent_p.E924E|EXPH5_uc010rwa.1_Silent_p.E1004E	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1080					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		CTTTGGAACATTCATTCGCTG	0.428													22	107	---	---	---	---	PASS	C	108382994	C	C	108382994	2	2	59	1	0	0	0	0	0	0	0	1	5322	1490	52	5		5	EXPH5	11	108382994	Silent	SNP	T	TCGA-33-4582-01A-01D-1441-08	5640333	108382994	26623522	151	22978										
CLDN25	644672	broad.mit.edu	37	chr11	113651059	113651059	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tttcctggctcttggtgggcTactcctcatcttctcggcct	9	14	4	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr11:113651059T>A	uc009yyw.1	+	1	542	c.542T>A	c.(541-543)CTA>CAA	p.L181Q		NM_001101389	NP_001094859	C9JDP6	CLD25_HUMAN	claudin 25	181	Helical; (Potential).					integral to membrane|tight junction	structural molecule activity				0						CTTGGTGGGCTACTCCTCATC	0.557													29	53	---	---	---	---	PASS	A	113651059	A	A	113651059	3	1	59	1	0	0	0	0	1	0	0	0	3485	1522	53	5	544	5	CLDN25	11	113651059	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	5268065	113651059	21355457	152	22979										
LEPREL2	10536	broad.mit.edu	37	chr12	6947151	6947151	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctacctcaacgatgacttccAgggtggggacctgttcttca	10	12	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr12:6947151A>G	uc001qra.1	+	15	1893	c.1859A>G	c.(1858-1860)CAG>CGG	p.Q620R	LEPREL2_uc001qqz.1_Missense_Mutation_p.Q427R|LEPREL2_uc001qrb.1_Missense_Mutation_p.Q427R|GNB3_uc001qrc.2_5'Flank|GNB3_uc001qrd.2_5'Flank|GNB3_uc009zfe.2_5'Flank	NM_014262	NP_055077	Q8IVL6	P3H3_HUMAN	leprecan-like 2 precursor	620	Fe2OG dioxygenase.				negative regulation of cell proliferation	endoplasmic reticulum	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity				0					L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GATGACTTCCAGGGTGGGGAC	0.627													7	13	---	---	---	---	PASS	G	6947151	G	G	6947151	3	3	59	1	0	0	0	0	1	0	0	0	8731	188	7	5	1908	5	LEPREL2	12	6947151	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08		6947151	126904744	153	22980										
CD163L1	283316	broad.mit.edu	37	chr12	7593778	7593778	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctgatgagaaagcaggaattCaggagcaggatgcaagttac	13	6	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr12:7593778C>T	uc001qsy.2	-	2	122	c.96G>A	c.(94-96)CTG>CTA	p.L32L	CD163L1_uc010sge.1_Silent_p.L32L	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	32						extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						AGCAGGAATTCAGGAGCAGGA	0.413													74	114	---	---	---	---	PASS	T	7593778	T	T	7593778	2	4	59	1	0	0	0	0	0	0	0	1	2968	813	29	2		2	CD163L1	12	7593778	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	646627	7593778	126258117	154	22981										
ARHGAP9	64333	broad.mit.edu	37	chr12	57867924	57867924	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tccggtgaccacatgaatgtCatcccactcagtactgtcca	7	14	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr12:57867924C>T	uc001sod.2	-	19	2282	c.2089G>A	c.(2089-2091)GAC>AAC	p.D697N	ARHGAP9_uc001sny.2_Intron|ARHGAP9_uc001snz.2_Missense_Mutation_p.D423N|ARHGAP9_uc001soa.2_Missense_Mutation_p.D296N|ARHGAP9_uc001sob.2_Missense_Mutation_p.D607N|ARHGAP9_uc001soc.2_Missense_Mutation_p.D607N|ARHGAP9_uc001soe.1_Missense_Mutation_p.D686N	NM_032496	NP_115885	Q9BRR9	RHG09_HUMAN	Rho GTPase activating protein 9 isoform 1	626	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			lung(1)	1			GBM - Glioblastoma multiforme(3;3.37e-34)			ACATGAATGTCATCCCACTCA	0.552													12	47	---	---	---	---	PASS	T	57867924	T	T	57867924	3	4	59	1	0	0	0	0	1	0	0	0	889	826	29	2	388	2	ARHGAP9	12	57867924	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	50274146	57867924	75983971	155	22982										
MDM2	4193	broad.mit.edu	37	chr12	69233474	69233474	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ccattgaaccttgtgtgattTgtcaaggtcgacctaaaaat	8	8	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr12:69233474T>A	uc001sui.2	+	11	1626	c.1339T>A	c.(1339-1341)TGT>AGT	p.C447S	MDM2_uc009zri.2_Missense_Mutation_p.C402S|MDM2_uc009zqx.2_Missense_Mutation_p.C392S|MDM2_uc009zqw.2_3'UTR|MDM2_uc001suk.2_Intron|MDM2_uc001sun.3_Missense_Mutation_p.C266S|MDM2_uc009zqz.2_Missense_Mutation_p.C394S|MDM2_uc009zra.2_Missense_Mutation_p.C245S|MDM2_uc001sum.1_Missense_Mutation_p.C75S|MDM2_uc009zrd.2_Missense_Mutation_p.C131S|MDM2_uc009zrc.2_Missense_Mutation_p.C131S|MDM2_uc009zre.2_Missense_Mutation_p.C188S|MDM2_uc009zrf.2_Missense_Mutation_p.C131S|MDM2_uc001suo.2_Missense_Mutation_p.C241S|MDM2_uc009zrg.2_Missense_Mutation_p.C163S|MDM2_uc009zrh.2_Missense_Mutation_p.C215S	NM_002392	NP_002383	Q00987	MDM2_HUMAN	mouse double minute 2 homolog isoform MDM2	441	Necessary for interaction with USP2.|RING-type.			C->G: Fails to interact with MDM4.	cellular response to hypoxia|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|establishment of protein localization|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein complex assembly|protein destabilization|protein localization to nucleus|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to antibiotic|synaptic transmission	cytosol|endocytic vesicle membrane|insoluble fraction|nucleolus|nucleoplasm|plasma membrane|protein complex	enzyme binding|identical protein binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|central_nervous_system(1)	3	all_cancers(1;8.46e-121)|all_epithelial(5;3.21e-36)|Lung NSC(4;2.16e-33)|all_lung(4;3.03e-31)|Glioma(1;1.9e-09)|Breast(13;1.59e-06)|all_neural(1;1.03e-05)|Melanoma(1;0.0171)|Renal(347;0.0684)		all cancers(2;8.67e-65)|GBM - Glioblastoma multiforme(2;8.89e-62)|BRCA - Breast invasive adenocarcinoma(5;2.43e-08)|Lung(24;1.5e-05)|LUAD - Lung adenocarcinoma(15;8.5e-05)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			TTGTGTGATTTGTCAAGGTCG	0.413			A		sarcoma|glioma|colorectal|other								25	178	---	---	---	---	PASS	A	69233474	A	A	69233474	3	1	59	1	0	0	0	0	1	0	0	0	9413	1812	63	5	1381	5	MDM2	12	69233474	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	11365550	69233474	64618421	156	22983										
PLXNC1	10154	broad.mit.edu	37	chr12	94690982	94690982	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cagatgtggagtactcggatGaccactgccatttggtgagt	13	8	0	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr12:94690982G>A	uc001tdc.2	+	25	4201	c.3952G>A	c.(3952-3954)GAC>AAC	p.D1318N	PLXNC1_uc010sut.1_Missense_Mutation_p.D365N|PLXNC1_uc009zsv.2_Missense_Mutation_p.D57N	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1318	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						GTACTCGGATGACCACTGCCA	0.493													21	143	---	---	---	---	PASS	A	94690982	A	A	94690982	3	1	59	1	0	0	0	0	1	0	0	0	12126	1290	45	2	4050	2	PLXNC1	12	94690982	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	25457508	94690982	39160913	157	22984										
GTF2H3	2967	broad.mit.edu	37	chr12	124130034	124130034	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aaatgcatagatgccgtgatGgtgctgggaaattcgcattt	12	6	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr12:124130034G>C	uc001ufo.1	+	3	152	c.126G>C	c.(124-126)ATG>ATC	p.M42I	GTF2H3_uc010tau.1_Missense_Mutation_p.M1I	NM_001516	NP_001507	Q13889	TF2H3_HUMAN	general transcription factor IIH, polypeptide 3,	42					mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	core TFIIH complex|holo TFIIH complex	damaged DNA binding|metal ion binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|translation factor activity, nucleic acid binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.1e-05)|Epithelial(86;0.000388)|all cancers(50;0.00362)		ATGCCGTGATGGTGCTGGGAA	0.363								NER					39	18	---	---	---	---	PASS	C	124130034	C	C	124130034	3	2	59	1	0	0	0	0	1	0	0	0	6864	1348	47	4	136	4	GTF2H3	12	124130034	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	29439052	124130034	9721861	158	22985										
TUBA3C	7278	broad.mit.edu	37	chr13	19751624	19751624	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgggtaaatggcaaattctaGcttggacttcttgccgtaat	10	7	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr13:19751624G>T	uc009zzj.2	-	4	548	c.499C>A	c.(499-501)CTA>ATA	p.L167I		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	167					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		GCAAATTCTAGCTTGGACTTC	0.577													23	115	---	---	---	---	PASS	T	19751624	T	T	19751624	3	4	59	1	0	0	0	0	1	0	0	0	16743	962	34	3	861	3	TUBA3C	13	19751624	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08		19751624	95418254	159	22986										
KCNRG	283518	broad.mit.edu	37	chr13	50589841	50589841	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tttgagaactcaccagctttTattacccactgaattttcag	5	10	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr13:50589841T>C	uc001vdu.2	+	1	452	c.212T>C	c.(211-213)TTA>TCA	p.L71S	DLEU2_uc001vdn.1_Intron|DLEU2_uc001vdo.1_Intron|KCNRG_uc001vdt.2_Missense_Mutation_p.L71S|TRIM13_uc001vdp.1_3'UTR|TRIM13_uc001vdq.1_3'UTR|TRIM13_uc001vdr.1_3'UTR|TRIM13_uc001vds.1_3'UTR	NM_173605	NP_775876	Q8N5I3	KCNRG_HUMAN	potassium channel regulator isoform 1	71	BTB.					voltage-gated potassium channel complex	identical protein binding|voltage-gated potassium channel activity				0		Acute lymphoblastic leukemia(7;3.41e-06)|Lung NSC(96;3.08e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.48e-10)|COAD - Colon adenocarcinoma(199;0.204)		CACCAGCTTTTATTACCCACT	0.383													15	109	---	---	---	---	PASS	C	50589841	C	C	50589841	3	2	59	1	0	0	0	0	1	0	0	0	8087	1764	61	5	214	5	KCNRG	13	50589841	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	30838217	50589841	64580037	160	22987										
FBXL3	26224	broad.mit.edu	37	chr13	77581289	77581289	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tcatgcagtttttaccaagtGggcatcatgtcgggaaacca	10	9	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr13:77581289G>C	uc001vkd.2	-	5	1649	c.1278C>G	c.(1276-1278)CCC>CCG	p.P426P		NM_012158	NP_036290	Q9UKT7	FBXL3_HUMAN	F-box and leucine-rich repeat protein 3	426					regulation of circadian rhythm|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.218)		GBM - Glioblastoma multiforme(99;0.0521)		TTTACCAAGTGGGCATCATGT	0.358													14	66	---	---	---	---	PASS	C	77581289	C	C	77581289	2	2	59	1	0	0	0	0	0	0	0	1	5720	1335	47	4		4	FBXL3	13	77581289	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	26991448	77581289	37588589	161	22988										
MYCBP2	23077	broad.mit.edu	37	chr13	77714292	77714292	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	actgtccttggccacaaattTtcgaacctgagaaaggcaaa	8	10	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr13:77714292T>G	uc001vkf.2	-	52	7385	c.7294A>C	c.(7294-7296)AAA>CAA	p.K2432Q	MYCBP2_uc010aev.2_Missense_Mutation_p.K1836Q	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2432					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GCCACAAATTTTCGAACCTGA	0.423													11	21	---	---	---	---	PASS	G	77714292	G	G	77714292	3	3	59	1	0	0	0	0	1	0	0	0	10018	1850	64	5	6760	5	MYCBP2	13	77714292	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	133003	77714292	37455586	162	22989										
OR4N5	390437	broad.mit.edu	37	chr14	20612106	20612106	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	caacttggccttactggatgCatcctactccttcattgtgg	8	12	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr14:20612106C>G	uc010tla.1	+	1	212	c.212C>G	c.(211-213)GCA>GGA	p.A71G		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	71	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)		TTACTGGATGCATCCTACTCC	0.473													43	223	---	---	---	---	PASS	G	20612106	G	G	20612106	3	3	59	1	0	0	0	0	1	0	0	0	11079	710	25	4	214	4	OR4N5	14	20612106	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08		20612106	86737434	163	22990										
SFTA3	253970	broad.mit.edu	37	chr14	36946257	36946257	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	actgttcctggacttggcacGcaaacagcgacacaggtggg	13	11	0	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr14:36946257G>A	uc001wtr.2	-	3	812	c.180C>T	c.(178-180)TGC>TGT	p.C60C	SFTA3_uc001wtq.2_RNA|SFTA3_uc001wts.2_RNA	NM_001101341	NP_001094811	P0C7M3	SFTA3_HUMAN	surfactant associated 3	60											0						GACTTGGCACGCAAACAGCGA	0.517													22	122	---	---	---	---	PASS	A	36946257	A	A	36946257	2	1	59	1	0	0	0	0	0	0	0	1	14188	1079	38	1		1	SFTA3	14	36946257	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	16334151	36946257	70403283	164	22991										
TRIM9	114088	broad.mit.edu	37	chr14	51446263	51446263	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cccttttgtgatccctccctCagttctgtaggaaaagagaa	8	11	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr14:51446263C>A	uc001wyx.3	-	9	2677	c.1912G>T	c.(1912-1914)GAG>TAG	p.E638*	TRIM9_uc001wyy.2_Nonsense_Mutation_p.E719*	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	638	B30.2/SPRY.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					ATCCCTCCCTCAGTTCTGTAG	0.393													114	242	---	---	---	---	PASS	A	51446263	A	A	51446263	4	1	59	1	0	0	0	0	0	1	0	0	16546	835	29	2	228	2	TRIM9	14	51446263	Nonsense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	14500006	51446263	55903277	165	22992										
ZFYVE26	23503	broad.mit.edu	37	chr14	68248188	68248188	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctgtccacaaactgtagggcCagccgacttctcagagatgc	10	13	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr14:68248188C>T	uc001xka.2	-	22	4570	c.4431G>A	c.(4429-4431)CTG>CTA	p.L1477L	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Silent_p.L1477L	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1477					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		ACTGTAGGGCCAGCCGACTTC	0.517													11	140	---	---	---	---	PASS	T	68248188	T	T	68248188	2	4	59	1	0	0	0	0	0	0	0	1	17665	581	21	3		3	ZFYVE26	14	68248188	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	16801925	68248188	39101352	166	22993										
ZFYVE1	53349	broad.mit.edu	37	chr14	73444717	73444717	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	accagtactgccgactacgaTagaccacgccacagttagga	9	13	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr14:73444717T>C	uc001xnm.2	-	8	2193	c.1553A>G	c.(1552-1554)TAT>TGT	p.Y518C	ZFYVE1_uc001xnl.2_Missense_Mutation_p.Y103C|ZFYVE1_uc010arj.2_Intron	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	518						endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		CCGACTACGATAGACCACGCC	0.493													23	83	---	---	---	---	PASS	C	73444717	C	C	73444717	3	2	59	1	0	0	0	0	1	0	0	0	17660	1406	49	5	800	5	ZFYVE1	14	73444717	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	5196529	73444717	33904823	167	22994										
KCNK10	54207	broad.mit.edu	37	chr14	88654343	88654343	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctttttggacagaacccgtaGccaatctccgatcatactga	7	12	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr14:88654343G>A	uc001xwo.2	-	6	1421	c.964C>T	c.(964-966)CTA>TTA	p.L322L	KCNK10_uc001xwm.2_Silent_p.L327L|KCNK10_uc001xwn.2_Silent_p.L327L	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	322	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						AGAACCCGTAGCCAATCTCCG	0.478													28	105	---	---	---	---	PASS	A	88654343	A	A	88654343	2	1	59	1	0	0	0	0	0	0	0	1	8059	962	34	3		3	KCNK10	14	88654343	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	15209626	88654343	18695197	168	22995										
HSP90AA1	3320	broad.mit.edu	37	chr14	102552662	102552662	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tctgcctgaaaggcgaacgtCtcaacctcctcctcctccat	6	17	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr14:102552662C>G	uc001yku.3	-	2	244	c.54G>C	c.(52-54)GAG>GAC	p.E18D	HSP90AA1_uc001ykv.3_Missense_Mutation_p.E140D|HSP90AA1_uc001ykw.1_5'UTR|HSP90AA1_uc001ykx.1_Missense_Mutation_p.E7D	NM_005348	NP_005339	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 2	18					axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	AGGCGAACGTCTCAACCTCCT	0.478													12	87	---	---	---	---	PASS	G	102552662	G	G	102552662	3	3	59	1	0	0	0	0	1	0	0	0	7401	912	32	2	2184	2	HSP90AA1	14	102552662	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	13898319	102552662	4796878	169	22996										
OCA2	4948	broad.mit.edu	37	chr15	28000605	28000605	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	agtgcaggacacaaccatcaTtgggaagcccagcctgaaat	10	11	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr15:28000605T>A	uc001zbh.3	-	24	2556	c.2446A>T	c.(2446-2448)ATG>TTG	p.M816L	OCA2_uc010ayv.2_Missense_Mutation_p.M792L	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	816	Extracellular (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		ACAACCATCATTGGGAAGCCC	0.438									Oculocutaneous_Albinism				12	52	---	---	---	---	PASS	A	28000605	A	A	28000605	3	1	59	1	0	0	0	0	1	0	0	0	10815	1493	52	5	74	5	OCA2	15	28000605	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08		28000605	74530787	170	22997										
FBN1	2200	broad.mit.edu	37	chr15	48748893	48748893	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctggacattcacatcggaagCtgccaaccatgttgatacac	8	12	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr15:48748893C>A	uc001zwx.1	-	44	5691	c.5363G>T	c.(5362-5364)AGC>ATC	p.S1788I	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1788	EGF-like 29; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		ACATCGGAAGCTGCCAACCAT	0.433													30	123	---	---	---	---	PASS	A	48748893	A	A	48748893	3	1	59	1	0	0	0	0	1	0	0	0	5702	797	28	3	3344	3	FBN1	15	48748893	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	20748288	48748893	53782499	171	22998										
WDR72	256764	broad.mit.edu	37	chr15	53907987	53907987	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	atctaaatctttatccactcCccatggcaaaaggcaagaca	5	12	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr15:53907987C>A	uc002acj.2	-	15	2458	c.2416G>T	c.(2416-2418)GGA>TGA	p.G806*	WDR72_uc010bfi.1_Nonsense_Mutation_p.G806*	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	806										lung(1)|skin(1)	2				all cancers(107;0.0511)		TTATCCACTCCCCATGGCAAA	0.358													114	234	---	---	---	---	PASS	A	53907987	A	A	53907987	4	1	59	1	0	0	0	0	0	1	0	0	17319	632	22	3	916	3	WDR72	15	53907987	Nonsense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	5159094	53907987	48623405	172	22999										
LRRC49	54839	broad.mit.edu	37	chr15	71341747	71341747	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	actttctcttttttttaacaGgaaataaaggaaaagaagaa	6	4	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr15:71341747G>A	uc002asw.2	+	16	2105	c.1858_splice	c.e16-1	p.E620_splice	LRRC49_uc002asu.2_Splice_Site_p.E610_splice|LRRC49_uc002asx.2_Splice_Site_p.E576_splice|LRRC49_uc010ukf.1_Splice_Site_p.E625_splice|LRRC49_uc002asy.2_Splice_Site_p.E326_splice|LRRC49_uc002asz.2_Splice_Site_p.E592_splice	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49							cytoplasm|microtubule				ovary(1)	1						TTTTTTAACAGGAAATAAAGG	0.294													9	35	---	---	---	---	PASS	A	71341747	A	A	71341747	5	1	59	1	0	0	0	0	0	0	1	0	9006	1014	35	3	1919	3	LRRC49	15	71341747	Splice_Site	SNP	G	TCGA-33-4582-01A-01D-1441-08	17433760	71341747	31189645	173	23000										
KIAA1024	23251	broad.mit.edu	37	chr15	79750711	79750711	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	caccatcacttataccaaccGtgtgggcctcaatgaggagg	10	12	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr15:79750711G>T	uc002bew.1	+	2	2297	c.2222G>T	c.(2221-2223)CGT>CTT	p.R741L	KIAA1024_uc010unk.1_Missense_Mutation_p.R741L	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	741						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						TATACCAACCGTGTGGGCCTC	0.463													3	79	---	---	---	---	PASS	T	79750711	T	T	79750711	3	4	59	1	0	0	0	0	1	0	0	0	8205	1145	40	1	2224	1	KIAA1024	15	79750711	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	8408964	79750711	22780681	174	23001										
NARFL	64428	broad.mit.edu	37	chr16	780537	780537	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgtgtgtacagctcctgaacCccaggcgcgtcctcgggcgc	13	15	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:780537C>T	uc002cjr.2	-	11	1323	c.1311G>A	c.(1309-1311)GGG>GGA	p.G437G	NARFL_uc002cjp.2_Silent_p.G335G|NARFL_uc002cjq.2_Silent_p.G335G|NARFL_uc002cjs.2_Silent_p.G219G	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	437					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				GCTCCTGAACCCCAGGCGCGT	0.667													12	64	---	---	---	---	PASS	T	780537	T	T	780537	2	4	59	1	0	0	0	0	0	0	0	1	10168	610	22	3		3	NARFL	16	780537	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08		780537	89574216	175	23002										
GRIN2A	2903	broad.mit.edu	37	chr16	9934909	9934909	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aagcttcttcagaatatcaaTgcagaaccccttgcagcatt	6	11	3	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:9934909T>A	uc002czo.3	-	6	1929	c.1381A>T	c.(1381-1383)ATT>TTT	p.I461F	GRIN2A_uc010uym.1_Missense_Mutation_p.I461F|GRIN2A_uc010uyn.1_Missense_Mutation_p.I304F|GRIN2A_uc002czr.3_Missense_Mutation_p.I461F	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	461	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AGAATATCAATGCAGAACCCC	0.333													34	147	---	---	---	---	PASS	A	9934909	A	A	9934909	3	1	59	1	0	0	0	0	1	0	0	0	6779	1464	51	5	3045	5	GRIN2A	16	9934909	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	9154372	9934909	80419844	176	23003										
RSL1D1	26156	broad.mit.edu	37	chr16	11945310	11945310	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gctgtcggggccgctggagtCgaggtggaggttccagtagc	19	9	0	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:11945310C>A	uc002dbp.1	-	1	133	c.60G>T	c.(58-60)TCG>TCT	p.S20S	RSL1D1_uc010buv.1_Silent_p.S20S|RSL1D1_uc010uyw.1_5'UTR|RSL1D1_uc010buw.2_RNA	NM_015659	NP_056474	O76021	RL1D1_HUMAN	ribosomal L1 domain containing 1	20					regulation of protein localization|translation	large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						CCGCTGGAGTCGAGGTGGAGG	0.612													3	62	---	---	---	---	PASS	A	11945310	A	A	11945310	2	1	59	1	0	0	0	0	0	0	0	1	13700	871	31	2		2	RSL1D1	16	11945310	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	2010401	11945310	78409443	177	23004										
ABCC6	368	broad.mit.edu	37	chr16	16284196	16284196	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tagagctggtgagccgtgccCgtgagtccttctgcctcatt	12	12	2	3	rs72653768		TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:16284196C>A	uc002den.3	-	12	1497	c.1460G>T	c.(1459-1461)CGG>CTG	p.R487L	ABCC6_uc010bvo.2_RNA|ABCC6_uc010uzz.1_Missense_Mutation_p.R499L	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	487	ABC transmembrane type-1 1.|Cytoplasmic (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		GAGCCGTGCCCGTGAGTCCTT	0.493													3	55	---	---	---	---	PASS	A	16284196	A	A	16284196	3	1	59	1	0	0	0	0	1	0	0	0	57	652	23	1	3131	1	ABCC6	16	16284196	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	4338886	16284196	74070557	178	23005										
C16orf88	400506	broad.mit.edu	37	chr16	19718381	19718381	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cagattctgctgcaggctgtCagccgccttcttgccgaggg	13	13	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:19718381C>T	uc002dgq.2	-	5	1243	c.1228G>A	c.(1228-1230)GAC>AAC	p.D410N		NM_001012991	NP_001013009	Q1ED39	CP088_HUMAN	hypothetical protein LOC400506	410	Interaction with ZFP106 (By similarity).					nucleolus					0						TGCAGGCTGTCAGCCGCCTTC	0.627													14	50	---	---	---	---	PASS	T	19718381	T	T	19718381	3	4	59	1	0	0	0	0	1	0	0	0	1841	826	29	2	152	2	C16orf88	16	19718381	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	3434185	19718381	70636372	179	23006										
ZNF267	10308	broad.mit.edu	37	chr16	31926937	31926937	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	atgccttactcaacatcagaCaactcatacaggagaaaaac	5	11	3	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:31926937C>G	uc002ecs.3	+	4	1576	c.1367C>G	c.(1366-1368)ACA>AGA	p.T456R		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	456	C2H2-type 5.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						CAACATCAGACAACTCATACA	0.338													17	120	---	---	---	---	PASS	G	31926937	G	G	31926937	3	3	59	1	0	0	0	0	1	0	0	0	17803	478	17	4	1381	4	ZNF267	16	31926937	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	12208556	31926937	58427816	180	23007										
TOX3	27324	broad.mit.edu	37	chr16	52473846	52473846	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ccagggtctgctgaacagaaCggatggtctgggcttctgct	14	10	3	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:52473846C>A	uc002egw.2	-	7	1193	c.1022G>T	c.(1021-1023)CGT>CTT	p.R341L	TOX3_uc010vgt.1_Missense_Mutation_p.R336L|TOX3_uc010vgu.1_Missense_Mutation_p.R341L	NM_001080430	NP_001073899	O15405	TOX3_HUMAN	TOX high mobility group box family member 3	341					apoptosis|negative regulation of neuron apoptosis|positive regulation of anti-apoptosis|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|estrogen response element binding|phosphoprotein binding|protein homodimerization activity				0						CTGAACAGAACGGATGGTCTG	0.458													10	51	---	---	---	---	PASS	A	52473846	A	A	52473846	3	1	59	1	0	0	0	0	1	0	0	0	16376	536	19	1	712	1	TOX3	16	52473846	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	20546909	52473846	37880907	181	23008										
CHD9	80205	broad.mit.edu	37	chr16	53338368	53338368	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tcttccagatcatcttcttcCtcatcatcctcttcttgctc	2	16	8	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:53338368C>T	uc002ehb.2	+	30	6614	c.6450C>T	c.(6448-6450)TCC>TCT	p.S2150S	CHD9_uc002egy.2_Silent_p.S2150S|CHD9_uc002ehc.2_Silent_p.S2150S|CHD9_uc002ehf.2_Silent_p.S1264S|CHD9_uc010cbw.2_Intron|CHD9_uc002ehg.1_Silent_p.S156S	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	2150	Ser-rich.				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)				CATCTTCTTCCTCATCATCCT	0.308													3	8	---	---	---	---	PASS	T	53338368	T	T	53338368	2	4	59	1	0	0	0	0	0	0	0	1	3332	668	24	3		3	CHD9	16	53338368	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	864522	53338368	37016385	182	23009										
LDHD	197257	broad.mit.edu	37	chr16	75148012	75148012	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gctgtgatgaggcccagcgtCccctcggagcccacgaagag	14	14	0	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:75148012C>G	uc002fdm.2	-	6	797	c.750G>C	c.(748-750)GGG>GGC	p.G250G	LDHD_uc002fdn.2_Silent_p.G227G	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	250	FAD-binding PCMH-type.						D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						GGCCCAGCGTCCCCTCGGAGC	0.662													71	52	---	---	---	---	PASS	G	75148012	G	G	75148012	2	3	59	1	0	0	0	0	0	0	0	1	8703	842	30	2		2	LDHD	16	75148012	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	21809644	75148012	15206741	183	23010										
CHST5	23563	broad.mit.edu	37	chr16	75563556	75563556	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gcccagcacgatgccgttgtCgcgtgccagtatcgggcccg	14	15	0	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:75563556C>T	uc002fei.2	-	3	2122	c.727G>A	c.(727-729)GAC>AAC	p.D243N	CHST5_uc002fej.1_Missense_Mutation_p.D249N	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	243	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						ATGCCGTTGTCGCGTGCCAGT	0.726													10	17	---	---	---	---	PASS	T	75563556	T	T	75563556	3	4	59	1	0	0	0	0	1	0	0	0	3407	884	31	2	512	2	CHST5	16	75563556	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	415544	75563556	14791197	184	23011										
CLEC3A	10143	broad.mit.edu	37	chr16	78056612	78056612	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cacatccagattaaaagccaGgaagcacagcaaacgtcgag	9	11	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:78056612G>T	uc002ffh.3	+	1	170	c.89G>T	c.(88-90)AGG>ATG	p.R30M		NM_005752	NP_005743	O75596	CLC3A_HUMAN	C-type lectin domain family 3 member A	30					skeletal system development	extracellular region	sugar binding				0						TTAAAAGCCAGGAAGCACAGC	0.483													3	51	---	---	---	---	PASS	T	78056612	T	T	78056612	3	4	59	1	0	0	0	0	1	0	0	0	3510	1000	35	3	91	3	CLEC3A	16	78056612	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	2493056	78056612	12298141	185	23012										
CDYL2	124359	broad.mit.edu	37	chr16	80638367	80638367	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tccagagctgcttgagcatgAggcattccttctcgttcacg	10	12	2	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:80638367A>G	uc002ffs.2	-	7	1544	c.1439T>C	c.(1438-1440)CTC>CCC	p.L480P		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	480						nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						CTTGAGCATGAGGCATTCCTT	0.532													40	102	---	---	---	---	PASS	G	80638367	G	G	80638367	3	3	59	1	0	0	0	0	1	0	0	0	3186	304	11	5	85	5	CDYL2	16	80638367	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	2581755	80638367	9716386	186	23013										
KLHL36	79786	broad.mit.edu	37	chr16	84691194	84691194	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gctcgctgctgcccaaggagGccaactgcgagggcttcatc	13	14	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr16:84691194G>A	uc002fig.2	+	3	922	c.781G>A	c.(781-783)GCC>ACC	p.A261T	KLHL36_uc010chl.2_Missense_Mutation_p.A260T	NM_024731	NP_079007	Q8N4N3	KLH36_HUMAN	kelch-like 36	261										skin(2)	2						GCCCAAGGAGGCCAACTGCGA	0.672													4	35	---	---	---	---	PASS	A	84691194	A	A	84691194	3	1	59	1	0	0	0	0	1	0	0	0	8389	1203	42	3	787	3	KLHL36	16	84691194	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	4052827	84691194	5663559	187	23014										
ITGAE	3682	broad.mit.edu	37	chr17	3664340	3664340	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctcctcgtcttcctcctcctCcttgtcttcctcctcctcct	2	22	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:3664340C>T	uc002fwo.3	-	6	664	c.565G>A	c.(565-567)GAG>AAG	p.E189K		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	189	Glu-rich (acidic).|Extracellular (Potential).|X-domain (extra domain).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		tcctcctcctccttgtcttcc	0.413													23	62	---	---	---	---	PASS	T	3664340	T	T	3664340	3	4	59	1	0	0	0	0	1	0	0	0	7885	864	30	2	3078	2	ITGAE	17	3664340	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08		3664340	77530870	188	23015										
TP53	7157	broad.mit.edu	37	chr17	7577106	7577106	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgtgcgccggtctctcccagGacaggcacaaacacgcacct	10	16	1	0	rs17849781		TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:7577106G>A	uc002gim.2	-	8	1026	c.832C>T	c.(832-834)CCT>TCT	p.P278S	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.P278S|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.P146S|TP53_uc010cng.1_Missense_Mutation_p.P146S|TP53_uc002gii.1_Missense_Mutation_p.P146S|TP53_uc010cnh.1_Missense_Mutation_p.P278S|TP53_uc010cni.1_Missense_Mutation_p.P278S|TP53_uc002gij.2_Missense_Mutation_p.P278S	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	278	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|P -> S (in LFS; germline mutation and in sporadic cancers; somatic mutation).|P -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|P -> H (in sporadic cancers; somatic mutation).|P -> R (in sporadic cancers; somatic mutation).|P -> T (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P278L(52)|p.P278S(48)|p.P278R(26)|p.P278T(21)|p.P278A(18)|p.P278H(11)|p.0?(7)|p.P278fs*67(5)|p.P278F(3)|p.P278fs*28(2)|p.?(2)|p.A276_R283delACPGRDRR(1)|p.A276fs*64(1)|p.V274_P278del(1)|p.P278P(1)|p.C277_P278insXXXXXXX(1)|p.F270_D281del12(1)|p.P278_G279insXXXXX(1)|p.C275_R283delCACPGRDRR(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.C275fs*67(1)|p.V272_K292del21(1)|p.C275fs*20(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)		TCTCTCCCAGGACAGGCACAA	0.552		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)			23	11	---	---	---	---	PASS	A	7577106	A	A	7577106	3	1	59	1	0	0	0	0	1	0	0	0	16378	1174	41	2	454	2	TP53	17	7577106	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	3912766	7577106	73618104	189	23016										
MYH13	8735	broad.mit.edu	37	chr17	10212956	10212956	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tccatcttcttctttagcctCagggcgtcgttccggctgcg	10	14	4	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:10212956C>A	uc002gmk.1	-	34	4938	c.4848G>T	c.(4846-4848)CTG>CTT	p.L1616L		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1616	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TCTTTAGCCTCAGGGCGTCGT	0.567													3	12	---	---	---	---	PASS	A	10212956	A	A	10212956	2	1	59	1	0	0	0	0	0	0	0	1	10032	813	29	2		2	MYH13	17	10212956	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	2635850	10212956	70982254	190	23017										
MYH4	4622	broad.mit.edu	37	chr17	10359839	10359839	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctgtctggaaagaagaacccTtctttttgccacctttcttt	6	11	3	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:10359839T>C	uc002gmn.2	-	17	2042	c.1931A>G	c.(1930-1932)AAG>AGG	p.K644R	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	644	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						AGAAGAACCCTTCTTTTTGCC	0.333													46	34	---	---	---	---	PASS	C	10359839	C	C	10359839	3	2	59	1	0	0	0	0	1	0	0	0	10037	1609	56	5	3984	5	MYH4	17	10359839	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	146883	10359839	70835371	191	23018										
MYH3	4621	broad.mit.edu	37	chr17	10543358	10543358	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttcttctcttggaccagagtCaccagtttttcctctagctc	6	13	4	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:10543358C>T	uc002gmq.1	-	21	2714	c.2637G>A	c.(2635-2637)GTG>GTA	p.V879V		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	879	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						GGACCAGAGTCACCAGTTTTT	0.403													25	63	---	---	---	---	PASS	T	10543358	T	T	10543358	2	4	59	1	0	0	0	0	0	0	0	1	10036	813	29	2		2	MYH3	17	10543358	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	183519	10543358	70651852	192	23019										
STAC2	342667	broad.mit.edu	37	chr17	37370535	37370535	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cagaaacttgtagagtgcaaCgtaggagtacatgggcccca	12	9	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:37370535C>G	uc002hrs.2	-	8	1111	c.892G>C	c.(892-894)GTT>CTT	p.V298L	STAC2_uc010cvt.2_Missense_Mutation_p.V156L	NM_198993	NP_945344	Q6ZMT1	STAC2_HUMAN	SH3 and cysteine rich domain 2	298	SH3.				intracellular signal transduction		metal ion binding			pancreas(1)	1						TAGAGTGCAACGTAGGAGTAC	0.607													60	87	---	---	---	---	PASS	G	37370535	G	G	37370535	3	3	59	1	0	0	0	0	1	0	0	0	15239	536	19	4	359	4	STAC2	17	37370535	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	26827177	37370535	43824675	193	23020										
C17orf37	84299	broad.mit.edu	37	chr17	37886012	37886012	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	atttatctctatctcaaaggCacctggtaagaaatcaacag	6	9	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:37886012C>A	uc002hsq.2	-	3	230	c.190G>T	c.(190-192)GCC>TCC	p.A64S		NM_032339	NP_115715	Q9BRT3	CQ037_HUMAN	hypothetical protein LOC84299	64					cell redox homeostasis	cytosol|membrane	selenium binding				0	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;3.72e-63)|all cancers(3;1.87e-56)|BRCA - Breast invasive adenocarcinoma(8;6.8e-45)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)			ATCTCAAAGGCACCTGGTAAG	0.483													36	155	---	---	---	---	PASS	A	37886012	A	A	37886012	3	1	59	1	0	0	0	0	1	0	0	0	1854	710	25	3	165	3	C17orf37	17	37886012	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	515477	37886012	43309198	194	23021										
JUP	3728	broad.mit.edu	37	chr17	39913763	39913763	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttcttgtcctcggagatgcgGaacaggacggcagcagcgta	14	10	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:39913763G>A	uc002hxq.2	-	12	2227	c.1950C>T	c.(1948-1950)TTC>TTT	p.F650F	JUP_uc010wfs.1_Intron|JUP_uc002hxr.2_Silent_p.F650F|JUP_uc002hxs.2_Silent_p.F650F	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	650					adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		CGGAGATGCGGAACAGGACGG	0.622													16	109	---	---	---	---	PASS	A	39913763	A	A	39913763	2	1	59	1	0	0	0	0	0	0	0	1	7972	1165	41	2		2	JUP	17	39913763	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	2027751	39913763	41281447	195	23022										
TBX21	30009	broad.mit.edu	37	chr17	45821586	45821586	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgtgctccagtccctccataAgtaccagccccggctgcata	8	16	0	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:45821586A>G	uc002ilv.1	+	4	1005	c.794A>G	c.(793-795)AAG>AGG	p.K265R		NM_013351	NP_037483	Q9UL17	TBX21_HUMAN	T-box 21	265	T-box.				lymphocyte migration|multicellular organismal development|positive regulation of transcription, DNA-dependent|response to virus	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						TCCCTCCATAAGTACCAGCCC	0.547													8	85	---	---	---	---	PASS	G	45821586	G	G	45821586	3	3	59	1	0	0	0	0	1	0	0	0	15654	72	3	5	808	5	TBX21	17	45821586	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	5907823	45821586	35373624	196	23023										
COPZ2	51226	broad.mit.edu	37	chr17	46105865	46105865	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	acactctgttcagtcaagccGccatcatctgcctgtaagga	8	13	5	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:46105865G>A	uc002imy.2	-	12	571	c.558C>T	c.(556-558)GGC>GGT	p.G186G		NM_016429	NP_057513	Q9P299	COPZ2_HUMAN	coatomer protein complex, subunit zeta 2	186					intracellular protein transport|vesicle-mediated transport	cis-Golgi network|COPI vesicle coat					0						CAGTCAAGCCGCCATCATCTG	0.592													5	8	---	---	---	---	PASS	A	46105865	A	A	46105865	2	1	59	1	0	0	0	0	0	0	0	1	3742	1074	38	1		1	COPZ2	17	46105865	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	284279	46105865	35089345	197	23024										
LUC7L3	51747	broad.mit.edu	37	chr17	48819091	48819091	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aattgatgtacttctgcaacAggtgagaattgtgtgcatta	10	5	1	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:48819091A>T	uc002isr.2	+	5	542	c.425A>T	c.(424-426)CAG>CTG	p.Q142L	LUC7L3_uc002isp.1_Missense_Mutation_p.Q66L|LUC7L3_uc010wmw.1_Missense_Mutation_p.Q66L|LUC7L3_uc002isq.2_Missense_Mutation_p.Q142L|LUC7L3_uc002iss.2_Missense_Mutation_p.Q142L	NM_006107	NP_006098	O95232	LC7L3_HUMAN	LUC7-like 3	142	Potential.				apoptosis|mRNA processing|response to stress|RNA splicing	focal adhesion|nuclear speck	DNA binding|mRNA binding|protein binding				0						CTTCTGCAACAGGTGAGAATT	0.323													9	57	---	---	---	---	PASS	T	48819091	T	T	48819091	3	4	59	1	0	0	0	0	1	0	0	0	9084	202	7	5	443	5	LUC7L3	17	48819091	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	2713226	48819091	32376119	198	23025										
C17orf82	388407	broad.mit.edu	37	chr17	59489450	59489450	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cccgcttcctccccctccttCgctgtccttggccccgaggt	8	21	0	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:59489450C>A	uc002izh.1	+	1	339	c.114C>A	c.(112-114)TTC>TTA	p.F38L		NM_203425	NP_982249	Q86X59	CQ082_HUMAN	hypothetical protein LOC388407	38											0						CCCCCTCCTTCGCTGTCCTTG	0.682											OREG0024630	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	29	---	---	---	---	PASS	A	59489450	A	A	59489450	3	1	59	1	0	0	0	0	1	0	0	0	1887	883	31	2	116	2	C17orf82	17	59489450	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	10670359	59489450	21705760	199	23026										
DNAI2	64446	broad.mit.edu	37	chr17	72308155	72308155	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgcccagatgtttgagcgtgAgacccggcgagagaagatcc	14	10	0	5			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:72308155A>T	uc002jkf.2	+	12	1607	c.1508A>T	c.(1507-1509)GAG>GTG	p.E503V	DNAI2_uc002jkg.2_RNA|DNAI2_uc010dfp.2_RNA|uc002jkh.1_5'Flank|DNAI2_uc002jki.2_RNA	NM_023036	NP_075462	Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate polypeptide 2	503					cilium assembly	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	microtubule motor activity			ovary(2)|central_nervous_system(1)	3						TTTGAGCGTGAGACCCGGCGA	0.652									Kartagener_syndrome				21	37	---	---	---	---	PASS	T	72308155	T	T	72308155	3	4	59	1	0	0	0	0	1	0	0	0	4610	304	11	5	1550	5	DNAI2	17	72308155	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	12818705	72308155	8887055	200	23027										
RNF157	114804	broad.mit.edu	37	chr17	74163102	74163102	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cagctcacctcctcttcggcCcactcggagggatccacggt	10	17	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:74163102C>A	uc002jqz.2	-	5	618	c.549G>T	c.(547-549)TGG>TGT	p.W183C	RNF157_uc002jra.2_Missense_Mutation_p.W183C	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	183							zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			CCTCTTCGGCCCACTCGGAGG	0.602													18	149	---	---	---	---	PASS	A	74163102	A	A	74163102	3	1	59	1	0	0	0	0	1	0	0	0	13454	624	22	3	1550	3	RNF157	17	74163102	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	1854947	74163102	7032108	201	23028										
AATK	9625	broad.mit.edu	37	chr17	79095253	79095253	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cctcgccaccagtagcaggcGtgggagagtcaggcagggca	16	12	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr17:79095253G>A	uc010dia.2	-	11	2563	c.2483C>T	c.(2482-2484)ACG>ATG	p.T828M	AATK_uc010dhz.2_RNA	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	828	Pro-rich.					integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			AGTAGCAGGCGTGGGAGAGTC	0.672													4	6	---	---	---	---	PASS	A	79095253	A	A	79095253	3	1	59	1	0	0	0	0	1	0	0	0	26	1145	40	1	1657	1	AATK	17	79095253	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	4932151	79095253	2099957	202	23029										
C18orf19	125228	broad.mit.edu	37	chr18	13671861	13671861	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gggtttgttacagtacccacCttaaacaaggcatatgctgt	9	9	0	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr18:13671861C>T	uc010dlh.2	-	4	1017	c.585G>A	c.(583-585)AAG>AAA	p.K195K	C18orf19_uc010dlg.2_Intron|C18orf19_uc010dli.2_Silent_p.K195K|C18orf19_uc002ksj.3_Silent_p.K195K|C18orf19_uc010dlj.2_Intron	NM_001098801	NP_001092271	Q96ND0	CR019_HUMAN	hypothetical protein LOC125228	195	DUF1279.					integral to membrane				breast(2)	2						CAGTACCCACCTTAAACAAGG	0.448													12	60	---	---	---	---	PASS	T	13671861	T	T	13671861	2	4	59	1	0	0	0	0	0	0	0	1	1896	695	24	3		3	C18orf19	18	13671861	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08		13671861	64405387	203	23030										
SLC39A6	25800	broad.mit.edu	37	chr18	33706701	33706701	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tcgtggtcatggtgtatatgGattcttttaatcttatctat	8	5	4	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr18:33706701G>T	uc010dmy.2	-	2	560	c.270C>A	c.(268-270)ATC>ATA	p.I90I	SLC39A6_uc002kzj.2_Intron	NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	90	Extracellular (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						ggtgTATATGGATTCTTTTAA	0.159													16	60	---	---	---	---	PASS	T	33706701	T	T	33706701	2	4	59	1	0	0	0	0	0	0	0	1	14622	1164	41	2		2	SLC39A6	18	33706701	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	20034840	33706701	44370547	204	23031										
CDH7	1005	broad.mit.edu	37	chr18	63430272	63430272	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ggaatacatgggttcagaccCcctctatgtaggaaaggtag	12	8	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr18:63430272C>G	uc002ljz.2	+	2	519	c.194C>G	c.(193-195)CCC>CGC	p.P65R	CDH7_uc002lka.2_Missense_Mutation_p.P65R|CDH7_uc002lkb.2_Missense_Mutation_p.P65R	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	65	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GGTTCAGACCCCCTCTATGTA	0.423													6	50	---	---	---	---	PASS	G	63430272	G	G	63430272	3	3	59	1	0	0	0	0	1	0	0	0	3115	623	22	4	196	4	CDH7	18	63430272	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	29723571	63430272	14646976	205	23032										
GALR1	2587	broad.mit.edu	37	chr18	74962661	74962661	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgggtgtgctgggcaacagcCtagtgatcaccgtgctggcg	16	10	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr18:74962661C>A	uc002lms.3	+	1	654	c.157C>A	c.(157-159)CTA>ATA	p.L53I		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	53	Helical; Name=1; (Potential).				digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		GGGCAACAGCCTAGTGATCAC	0.667													12	14	---	---	---	---	PASS	A	74962661	A	A	74962661	3	1	59	1	0	0	0	0	1	0	0	0	6227	680	24	3	159	3	GALR1	18	74962661	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	11532389	74962661	3114587	206	23033										
ODF3L2	284451	broad.mit.edu	37	chr19	463979	463979	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttgttcacggtgacctgctcTgggcagtgggcgccagggcc	16	12	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:463979T>A	uc002lor.2	-	4	971	c.735A>T	c.(733-735)CCA>CCT	p.P245P	SHC2_uc002loq.3_5'Flank|ODF3L2_uc010drp.2_Silent_p.P209P	NM_182577	NP_872383	Q3SX64	OD3L2_HUMAN	outer dense fiber of sperm tails 3-like 2	245	DUF1309 3.|Pro-rich.										0						TGACCTGCTCTGGGCAGTGGG	0.612													13	7	---	---	---	---	PASS	A	463979	A	A	463979	2	1	59	1	0	0	0	0	0	0	0	1	10832	1567	55	5		5	ODF3L2	19	463979	Silent	SNP	T	TCGA-33-4582-01A-01D-1441-08		463979	58665004	207	23034										
DAPK3	1613	broad.mit.edu	37	chr19	3964897	3964897	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cccggctcaccccacgccggCtggatgacaggcggcgcttc	13	18	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:3964897C>A	uc002lzc.1	-	2	248	c.155G>T	c.(154-156)AGC>ATC	p.S52I	DAPK3_uc002lzd.1_Missense_Mutation_p.S52I	NM_001348	NP_001339	O43293	DAPK3_HUMAN	death-associated protein kinase 3	52	Protein kinase.				apoptosis|chromatin modification|induction of apoptosis|intracellular protein kinase cascade	cytoplasm|PML body	ATP binding|leucine zipper domain binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|ovary(1)|large_intestine(1)	7		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCACGCCGGCTGGATGACAG	0.612													15	46	---	---	---	---	PASS	A	3964897	A	A	3964897	3	1	59	1	0	0	0	0	1	0	0	0	4237	797	28	3	1237	3	DAPK3	19	3964897	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	3500918	3964897	55164086	208	23035										
FUT6	2528	broad.mit.edu	37	chr19	5831879	5831879	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gtaccgggacagcgtctccaTcatggttccctggggcaggg	15	12	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:5831879T>A	uc002mdf.1	-	4	1226	c.700A>T	c.(700-702)ATG>TTG	p.M234L	FUT6_uc002mdg.1_Missense_Mutation_p.M234L|FUT6_uc002mdh.1_Missense_Mutation_p.M234L|FUT6_uc010dul.1_Missense_Mutation_p.M234L	NM_001040701	NP_001035791	P51993	FUT6_HUMAN	fucosyltransferase 6	234	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity|alpha(1,3)-fucosyltransferase activity				0						AGCGTCTCCATCATGGTTCCC	0.617													31	88	---	---	---	---	PASS	A	5831879	A	A	5831879	3	1	59	1	0	0	0	0	1	0	0	0	6108	1435	50	5	383	5	FUT6	19	5831879	Missense_Mutation	SNP	T	TCGA-33-4582-01A-01D-1441-08	1866982	5831879	53297104	209	23036										
ZNF846	162993	broad.mit.edu	37	chr19	9869345	9869345	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tcagaagttttctctccaatGtgagttatcatgtgagtcat	8	7	4	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:9869345G>A	uc002mmb.1	-	6	939	c.408C>T	c.(406-408)CAC>CAT	p.H136H	ZNF846_uc010xky.1_RNA|ZNF846_uc010xkz.1_RNA|ZNF846_uc010dww.2_Silent_p.H7H|ZNF846_uc002mmc.1_Silent_p.H7H	NM_001077624	NP_001071092	Q147U1	ZN846_HUMAN	zinc finger protein 846	136	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCTCTCCAATGTGAGTTATCA	0.378													44	100	---	---	---	---	PASS	A	9869345	A	A	9869345	2	1	59	1	0	0	0	0	0	0	0	1	18189	1368	48	3		3	ZNF846	19	9869345	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	4037466	9869345	49259638	210	23037										
CYP4F2	8529	broad.mit.edu	37	chr19	15989680	15989680	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tggtcaggcaggacgcggaaGcgcagcagcgtgagcgccag	18	11	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:15989680G>A	uc002nbs.1	-	13	1514	c.1464C>T	c.(1462-1464)CGC>CGT	p.R488R	CYP4F2_uc010xot.1_Silent_p.R339R	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	488					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						GGACGCGGAAGCGCAGCAGCG	0.682													18	16	---	---	---	---	PASS	A	15989680	A	A	15989680	2	1	59	1	0	0	0	0	0	0	0	1	4188	958	34	3		3	CYP4F2	19	15989680	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	6120335	15989680	43139303	211	23038										
AP1M1	8907	broad.mit.edu	37	chr19	16317171	16317171	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gtggttgccacatccaagaaGaacgcgtgcgtgtcgctggt	14	10	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:16317171G>A	uc002ndu.2	+	3	392	c.219G>A	c.(217-219)AAG>AAA	p.K73K	AP1M1_uc002ndv.2_Silent_p.K73K|AP1M1_uc010xpd.1_Silent_p.K73K	NM_032493	NP_115882	Q9BXS5	AP1M1_HUMAN	adaptor-related protein complex 1, mu 1 subunit	73					cellular membrane organization|endosome to melanosome transport|interspecies interaction between organisms|intracellular protein transport|melanosome organization|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding			ovary(3)|breast(1)	4						CATCCAAGAAGAACGCGTGCG	0.587													45	138	---	---	---	---	PASS	A	16317171	A	A	16317171	2	1	59	1	0	0	0	0	0	0	0	1	734	933	33	2		2	AP1M1	19	16317171	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	327491	16317171	42811812	212	23039										
ZNF506	440515	broad.mit.edu	37	chr19	19905475	19905475	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttattaagggctgaggaccaGttaaaagctttgccacattc	9	8	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:19905475G>C	uc010eci.2	-	4	1369	c.1221C>G	c.(1219-1221)AAC>AAG	p.N407K	ZNF506_uc002nog.2_Intron|ZNF506_uc002noh.3_Missense_Mutation_p.N375K	NM_001099269	NP_001092739	Q5JVG8	ZN506_HUMAN	zinc finger protein 506 isoform 1	407	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding				0						CTGAGGACCAGTTAAAAGCTT	0.358													9	57	---	---	---	---	PASS	C	19905475	C	C	19905475	3	2	59	1	0	0	0	0	1	0	0	0	17949	1020	36	4	117	4	ZNF506	19	19905475	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	3588304	19905475	39223508	213	23040										
POP4	10775	broad.mit.edu	37	chr19	30104871	30104871	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aattatcaccaaagaagaccGcctgaaaggtatgtaggtgt	10	7	1	3	rs61731483	byFrequency	TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:30104871G>A	uc002nsf.2	+	6	574	c.518G>A	c.(517-519)CGC>CAC	p.R173H	POP4_uc002nsg.2_Missense_Mutation_p.R92H	NM_006627	NP_006618	O95707	RPP29_HUMAN	processing of precursor 4	173					mRNA cleavage|rRNA processing|tRNA processing	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease P activity|RNA binding				0	Ovarian(5;0.000567)|Breast(6;0.0602)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0623)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.225)			AAAGAAGACCGCCTGAAAGGT	0.448													14	39	---	---	---	---	PASS	A	30104871	A	A	30104871	3	1	59	1	0	0	0	0	1	0	0	0	12252	1087	38	1	540	1	POP4	19	30104871	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	10199396	30104871	29024112	214	23041										
C19orf2	8725	broad.mit.edu	37	chr19	30498384	30498384	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tttttctaaatagcaaaacaCcgaattgctcataaaccgca	4	10	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:30498384C>G	uc002nsr.2	+	7	555	c.525C>G	c.(523-525)CAC>CAG	p.H175Q	C19orf2_uc002nsq.2_Missense_Mutation_p.H157Q|C19orf2_uc002nss.2_Missense_Mutation_p.H135Q|C19orf2_uc002nst.2_Missense_Mutation_p.H99Q	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	175					protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		TAGCAAAACACCGAATTGCTC	0.368													6	39	---	---	---	---	PASS	G	30498384	G	G	30498384	3	3	59	1	0	0	0	0	1	0	0	0	1911	506	18	4	551	4	C19orf2	19	30498384	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	393513	30498384	28630599	215	23042										
CA11	770	broad.mit.edu	37	chr19	49143530	49143530	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ggccggtgttgtacaaggttCcccggagctgtgggagaggc	18	9	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:49143530C>T	uc002pjz.1	-	4	855	c.293G>A	c.(292-294)GGA>GAA	p.G98E	SEC1_uc010xzv.1_Intron|SEC1_uc002pka.2_Intron|SEC1_uc010xzw.1_Intron|SEC1_uc010ema.2_Intron|DBP_uc002pjx.3_5'Flank|DBP_uc002pjy.2_5'Flank|DBP_uc010elz.1_5'Flank	NM_001217	NP_001208	O75493	CAH11_HUMAN	carbonic anhydrase XI precursor	98						extracellular region					0		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000103)|all cancers(93;0.000119)|GBM - Glioblastoma multiforme(486;0.00634)|Epithelial(262;0.016)		GTACAAGGTTCCCCGGAGCTG	0.552													31	65	---	---	---	---	PASS	T	49143530	T	T	49143530	3	4	59	1	0	0	0	0	1	0	0	0	2512	855	30	2	717	2	CA11	19	49143530	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	18645146	49143530	9985453	216	23043										
NUCB1	4924	broad.mit.edu	37	chr19	49422337	49422337	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gaggacgacatgcgggagatGgaggaggagcgactgcgcat	19	7	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:49422337G>T	uc002plb.3	+	9	939	c.867G>T	c.(865-867)ATG>ATT	p.M289I	NUCB1_uc002pla.2_Missense_Mutation_p.M289I|NUCB1_uc002plc.2_Missense_Mutation_p.M289I|NUCB1_uc002pld.2_5'UTR	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	289	Binds to GNAI2 and GNAI3 (By similarity).					ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		TGCGGGAGATGGAGGAGGAGC	0.612													9	35	---	---	---	---	PASS	T	49422337	T	T	49422337	3	4	59	1	0	0	0	0	1	0	0	0	10718	1348	47	3	897	3	NUCB1	19	49422337	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	278807	49422337	9706646	217	23044										
PTOV1	53635	broad.mit.edu	37	chr19	50358105	50358105	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tagggagaccgaccagtggcCgcagaagctgatcatgcagc	14	11	1	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:50358105C>T	uc002pqf.1	+	4	580	c.410C>T	c.(409-411)CCG>CTG	p.P137L	PTOV1_uc010ybf.1_Missense_Mutation_p.P105L|PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Missense_Mutation_p.P105L|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	137					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		GACCAGTGGCCGCAGAAGCTG	0.672													9	37	---	---	---	---	PASS	T	50358105	T	T	50358105	3	4	59	1	0	0	0	0	1	0	0	0	12769	652	23	1	424	1	PTOV1	19	50358105	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	935768	50358105	8770878	218	23045										
KLK15	55554	broad.mit.edu	37	chr19	51329905	51329905	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	attctgcgcctctgccctccGcgcctgcacacaccatggtg	9	18	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:51329905G>A	uc002ptl.2	-	4	621	c.590C>T	c.(589-591)GCG>GTG	p.A197V	KLK1_uc002ptk.1_5'Flank|KLK1_uc010ycg.1_5'Flank|KLK15_uc002ptm.2_Intron|KLK15_uc002ptn.2_Intron|KLK15_uc002pto.2_Missense_Mutation_p.A196V|KLK15_uc010ych.1_RNA|KLK15_uc010yci.1_Intron|KLK15_uc010eod.2_Intron	NM_017509	NP_059979	Q9H2R5	KLK15_HUMAN	kallikrein-related peptidase 15 isoform 4	197	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)|breast(1)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00758)|GBM - Glioblastoma multiforme(134;0.0143)		TCTGCCCTCCGCGCCTGCACA	0.587													33	82	---	---	---	---	PASS	A	51329905	A	A	51329905	3	1	59	1	0	0	0	0	1	0	0	0	8403	1087	38	1	188	1	KLK15	19	51329905	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	971800	51329905	7799078	219	23046										
SIGLEC8	27181	broad.mit.edu	37	chr19	51961567	51961567	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgcacttgcagcaagtaaccAtccccatattgtctgtctcc	6	14	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:51961567A>T	uc002pwt.2	-	1	142	c.75T>A	c.(73-75)GAT>GAA	p.D25E	SIGLEC8_uc010yda.1_Missense_Mutation_p.D25E|SIGLEC8_uc002pwu.2_RNA|SIGLEC8_uc010eox.2_Missense_Mutation_p.D25E	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	25	Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		GCAAGTAACCATCCCCATATT	0.512													24	105	---	---	---	---	PASS	T	51961567	T	T	51961567	3	4	59	1	0	0	0	0	1	0	0	0	14314	214	8	5	1452	5	SIGLEC8	19	51961567	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	631662	51961567	7167416	220	23047										
ZNF211	10520	broad.mit.edu	37	chr19	58152335	58152335	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	agaggcagcacattacagagGcacctttcagaagttatgtg	11	8	1	3			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr19:58152335G>A	uc002qpq.2	+	3	661	c.481G>A	c.(481-483)GCA>ACA	p.A161T	ZNF211_uc010yhb.1_Missense_Mutation_p.A165T|ZNF211_uc002qpp.2_Missense_Mutation_p.A174T|ZNF211_uc002qpr.2_Missense_Mutation_p.A225T|ZNF211_uc002qps.2_Missense_Mutation_p.A226T|ZNF211_uc002qpt.2_Missense_Mutation_p.A173T|ZNF211_uc010yhc.1_Missense_Mutation_p.A173T|ZNF211_uc010yhd.1_Missense_Mutation_p.A100T|ZNF211_uc010yhe.1_Missense_Mutation_p.A152T	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	161						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CATTACAGAGGCACCTTTCAG	0.463													25	87	---	---	---	---	PASS	A	58152335	A	A	58152335	3	1	59	1	0	0	0	0	1	0	0	0	17764	1203	42	3	534	3	ZNF211	19	58152335	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	6190768	58152335	976648	221	23048										
SSTR4	6754	broad.mit.edu	37	chr20	23016254	23016254	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gcccggggacgcgcgggcggCgggcatggtcgctatccagt	19	13	0	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr20:23016254C>T	uc002wsr.2	+	1	198	c.134C>T	c.(133-135)GCG>GTG	p.A45V		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	45	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					gcgcgggcggcgggcATGGTC	0.557													7	21	---	---	---	---	PASS	T	23016254	T	T	23016254	3	4	59	1	0	0	0	0	1	0	0	0	15199	768	27	1	136	1	SSTR4	20	23016254	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08		23016254	40009266	222	23049										
C20orf114	92747	broad.mit.edu	37	chr20	31876669	31876669	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tgggcagcctggtgaacaccGtcctgaagcacatcatctgg	12	12	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr20:31876669G>A	uc002wyw.1	+	3	399	c.238G>A	c.(238-240)GTC>ATC	p.V80I	C20orf114_uc010gej.1_Missense_Mutation_p.V80I	NM_033197	NP_149974	Q8TDL5	LPLC1_HUMAN	LPLUNC1 protein precursor	80						extracellular space	lipid binding			central_nervous_system(2)|skin(2)	4						GGTGAACACCGTCCTGAAGCA	0.627													11	32	---	---	---	---	PASS	A	31876669	A	A	31876669	3	1	59	1	0	0	0	0	1	0	0	0	2082	1145	40	1	244	1	C20orf114	20	31876669	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	8860415	31876669	31148851	223	23050										
C20orf114	92747	broad.mit.edu	37	chr20	31894731	31894731	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tttcaggcaaattaagatctGgggtcccagtgtcattggtg	12	7	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr20:31894731G>T	uc002wyw.1	+	15	1494	c.1333G>T	c.(1333-1335)GGG>TGG	p.G445W	C20orf114_uc002wyx.1_RNA	NM_033197	NP_149974	Q8TDL5	LPLC1_HUMAN	LPLUNC1 protein precursor	445						extracellular space	lipid binding			central_nervous_system(2)|skin(2)	4						ATTAAGATCTGGGGTCCCAGT	0.572													18	115	---	---	---	---	PASS	T	31894731	T	T	31894731	3	4	59	1	0	0	0	0	1	0	0	0	2082	1348	47	3	1387	3	C20orf114	20	31894731	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	18062	31894731	31130789	224	23051										
DSN1	79980	broad.mit.edu	37	chr20	35381248	35381248	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ggtgggttctgtagctgaagCttcaacagttttcgagctgg	14	7	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr20:35381248C>A	uc010gfr.2	-	11	1387	c.1014G>T	c.(1012-1014)AAG>AAT	p.K338N	DSN1_uc002xfz.2_Missense_Mutation_p.K338N|DSN1_uc002xfy.3_Missense_Mutation_p.K128N|DSN1_uc002xga.2_Missense_Mutation_p.K338N|DSN1_uc010zvs.1_Missense_Mutation_p.K231N|DSN1_uc002xgc.2_Missense_Mutation_p.K322N|DSN1_uc002xgb.2_Missense_Mutation_p.K322N	NM_001145316	NP_001138788	Q9H410	DSN1_HUMAN	DSN1, MIND kinetochore complex component,	338					cell division|chromosome segregation|mitotic prometaphase	cytosol|MIS12/MIND type complex|nucleus	protein binding			ovary(2)	2		Myeloproliferative disorder(115;0.00874)				GTAGCTGAAGCTTCAACAGTT	0.428													20	87	---	---	---	---	PASS	A	35381248	A	A	35381248	3	1	59	1	0	0	0	0	1	0	0	0	4780	796	28	3	60	3	DSN1	20	35381248	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	3486517	35381248	27644272	225	23052										
DHX35	60625	broad.mit.edu	37	chr20	37634944	37634944	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tcccaggcatcagctaatcaGcgagcaggacgtggtggtcg	14	11	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr20:37634944G>A	uc002xjh.2	+	12	1178	c.1167G>A	c.(1165-1167)CAG>CAA	p.Q389Q	DHX35_uc010zwa.1_Silent_p.Q234Q|DHX35_uc010zwb.1_Silent_p.Q234Q|DHX35_uc010zwc.1_Silent_p.Q358Q	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	389	Helicase C-terminal.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CAGCTAATCAGCGAGCAGGAC	0.493													146	84	---	---	---	---	PASS	A	37634944	A	A	37634944	2	1	59	1	0	0	0	0	0	0	0	1	4508	962	34	3		3	DHX35	20	37634944	Silent	SNP	G	TCGA-33-4582-01A-01D-1441-08	2253696	37634944	25390576	226	23053										
CSE1L	1434	broad.mit.edu	37	chr20	47682981	47682981	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gctgacagaaatggtgaatcGctttcagagtggagatttcc	12	7	1	5			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr20:47682981G>A	uc002xty.2	+	5	544	c.410G>A	c.(409-411)CGC>CAC	p.R137H	CSE1L_uc010zyg.1_Intron|CSE1L_uc010ghx.2_Missense_Mutation_p.R137H	NM_001316	NP_001307	P55060	XPO2_HUMAN	CSE1 chromosome segregation 1-like protein	137					apoptosis|cell proliferation|intracellular protein transport	cytoplasm|nucleus	importin-alpha export receptor activity			large_intestine(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000491)|Colorectal(8;0.198)			ATGGTGAATCGCTTTCAGAGT	0.353													91	43	---	---	---	---	PASS	A	47682981	A	A	47682981	3	1	59	1	0	0	0	0	1	0	0	0	3930	1087	38	1	424	1	CSE1L	20	47682981	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	10048037	47682981	15342539	227	23054										
CABLES2	81928	broad.mit.edu	37	chr20	60969244	60969244	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ctcctagctccacaccttctAgctcaaagaccatctcggaa	5	16	3	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr20:60969244A>G	uc002ycv.2	-	5	690	c.683T>C	c.(682-684)CTA>CCA	p.L228P		NM_031215	NP_112492	Q9BTV7	CABL2_HUMAN	Cdk5 and Abl enzyme substrate 2	228					cell cycle|cell division|regulation of cell cycle|regulation of cell division		cyclin-dependent protein kinase regulator activity			pancreas(1)	1	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			CACACCTTCTAGCTCAAAGAC	0.632													15	123	---	---	---	---	PASS	G	60969244	G	G	60969244	3	3	59	1	0	0	0	0	1	0	0	0	2530	420	15	5	777	5	CABLES2	20	60969244	Missense_Mutation	SNP	A	TCGA-33-4582-01A-01D-1441-08	13286263	60969244	2056276	228	23055										
ADAMTS1	9510	broad.mit.edu	37	chr21	28213384	28213384	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gaccaaggctggctgtggtcCaggttggaaagcattgacgc	15	9	0	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr21:28213384C>A	uc002ymf.2	-	4	1766	c.1311G>T	c.(1309-1311)CTG>CTT	p.L437L		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	437	Peptidase M12B.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		GGCTGTGGTCCAGGTTGGAAA	0.483													4	113	---	---	---	---	PASS	A	28213384	A	A	28213384	2	1	59	1	0	0	0	0	0	0	0	1	255	581	21	3		3	ADAMTS1	21	28213384	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08		28213384	19916511	229	23056										
BRWD1	54014	broad.mit.edu	37	chr21	40582738	40582738	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	ttcaaccaaatcaacaggttGtctaaatggttcagaatctt	6	8	5	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr21:40582738G>T	uc002yxk.1	-	35	4157	c.4018C>A	c.(4018-4020)CAA>AAA	p.Q1340K	BRWD1_uc010goc.1_5'UTR|BRWD1_uc002yxl.2_Missense_Mutation_p.Q1340K|BRWD1_uc010god.1_Intron	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1340	Bromo 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				TCAACAGGTTGTCTAAATGGT	0.363													3	48	---	---	---	---	PASS	T	40582738	T	T	40582738	3	4	59	1	0	0	0	0	1	0	0	0	1525	1386	48	3	3215	3	BRWD1	21	40582738	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	12369354	40582738	7547157	230	23057										
DIP2A	23181	broad.mit.edu	37	chr21	47965852	47965852	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	caggccattcaccaggacagGcctgctgggcttcatcgggc	13	14	2	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr21:47965852G>T	uc002zjo.2	+	20	2555	c.2372G>T	c.(2371-2373)GGC>GTC	p.G791V	DIP2A_uc011afy.1_Missense_Mutation_p.G727V|DIP2A_uc011afz.1_Missense_Mutation_p.G787V|DIP2A_uc002zjl.2_Missense_Mutation_p.G791V|DIP2A_uc002zjm.2_Missense_Mutation_p.G791V|DIP2A_uc010gql.2_Missense_Mutation_p.G748V|DIP2A_uc002zjn.2_Missense_Mutation_p.G791V|DIP2A_uc002zjq.2_Missense_Mutation_p.G183V	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	791					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		ACCAGGACAGGCCTGCTGGGC	0.602													4	79	---	---	---	---	PASS	T	47965852	T	T	47965852	3	4	59	1	0	0	0	0	1	0	0	0	4527	1203	42	3	2450	3	DIP2A	21	47965852	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	7383114	47965852	164043	231	23058										
DIP2A	23181	broad.mit.edu	37	chr21	47970521	47970521	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gttcctgccaacaccttgccCaaggctcctctcggagggat	10	15	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr21:47970521C>T	uc002zjo.2	+	23	2886	c.2703C>T	c.(2701-2703)CCC>CCT	p.P901P	DIP2A_uc011afy.1_Silent_p.P837P|DIP2A_uc011afz.1_Silent_p.P897P	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	901					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		ACACCTTGCCCAAGGCTCCTC	0.577													8	15	---	---	---	---	PASS	T	47970521	T	T	47970521	2	4	59	1	0	0	0	0	0	0	0	1	4527	581	21	3		3	DIP2A	21	47970521	Silent	SNP	C	TCGA-33-4582-01A-01D-1441-08	4669	47970521	159374	232	23059										
MYH9	4627	broad.mit.edu	37	chr22	36710337	36710337	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	agcttctcattggtgtaattGatgcacagctgctcaaacga	9	9	2	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr22:36710337G>C	uc003apg.2	-	13	1638	c.1407C>G	c.(1405-1407)ATC>ATG	p.I469M	MYH9_uc003aph.1_Missense_Mutation_p.I333M	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	469	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						TGGTGTAATTGATGCACAGCT	0.527			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				13	26	---	---	---	---	PASS	C	36710337	C	C	36710337	3	2	59	1	0	0	0	0	1	0	0	0	10042	1280	45	2	4591	2	MYH9	22	36710337	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08		36710337	14594229	233	23060										
TRIOBP	11078	broad.mit.edu	37	chr22	38121714	38121714	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	cccgcgcccctgagagtgaaCcgccccaccacgagcctccc	9	22	0	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr22:38121714C>T	uc003atr.2	+	7	3422	c.3151C>T	c.(3151-3153)CCG>TCG	p.P1051S	TRIOBP_uc003atu.2_Missense_Mutation_p.P879S|TRIOBP_uc003atq.1_Missense_Mutation_p.P1051S|TRIOBP_uc003ats.1_Missense_Mutation_p.P879S	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1051					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					TGAGAGTGAACCGCCCCACCA	0.667													19	120	---	---	---	---	PASS	T	38121714	T	T	38121714	3	4	59	1	0	0	0	0	1	0	0	0	16550	507	18	3	3169	3	TRIOBP	22	38121714	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	1411377	38121714	13182852	234	23061										
SMC1B	27127	broad.mit.edu	37	chr22	45802340	45802340	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tacatcttcatgacatcttaCctcttccttctctaattttg	2	12	5	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chr22:45802340C>A	uc003bgc.2	-	4	667	c.615_splice	c.e4+1	p.E205_splice	SMC1B_uc003bgd.2_Splice_Site_p.E205_splice|SMC1B_uc003bge.1_Splice_Site	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes						chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TGACATCTTACCTCTTCCTTC	0.343													5	44	---	---	---	---	PASS	A	45802340	A	A	45802340	5	1	59	1	0	0	0	0	0	0	1	0	14782	521	18	3	3179	3	SMC1B	22	45802340	Splice_Site	SNP	C	TCGA-33-4582-01A-01D-1441-08	7680626	45802340	5502226	235	23062										
NLGN4X	57502	broad.mit.edu	37	chrX	5821715	5821715	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gcccgaaggctatgtggtagGtggccggggtgatggtctgc	19	8	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chrX:5821715G>A	uc010ndh.2	-	5	1505	c.1004C>T	c.(1003-1005)ACC>ATC	p.T335I	NLGN4X_uc004crp.2_Missense_Mutation_p.T355I|NLGN4X_uc004crq.2_Missense_Mutation_p.T335I|NLGN4X_uc010ndi.2_Missense_Mutation_p.T372I|NLGN4X_uc004crr.2_Missense_Mutation_p.T335I|NLGN4X_uc010ndj.2_Missense_Mutation_p.T335I	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	335	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TATGTGGTAGGTGGCCGGGGT	0.582													20	59	---	---	---	---	PASS	A	5821715	A	A	5821715	3	1	59	1	0	0	0	0	1	0	0	0	10464	1261	44	3	1454	3	NLGN4X	23	5821715	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08		5821715	149448845	236	23063										
RAI2	10742	broad.mit.edu	37	chrX	17819468	17819468	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gctggtgggaccaggggggaCaagggggagctaaaaggctg	21	6	0	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chrX:17819468C>A	uc004cyf.2	-	3	1233	c.663G>T	c.(661-663)TTG>TTT	p.L221F	RAI2_uc004cyg.2_Missense_Mutation_p.L221F|RAI2_uc010nfa.2_Missense_Mutation_p.L221F|RAI2_uc004cyh.3_Missense_Mutation_p.L221F|RAI2_uc011miy.1_Missense_Mutation_p.L171F	NM_021785	NP_068557	Q9Y5P3	RAI2_HUMAN	retinoic acid induced 2	221	Pro-rich.				embryo development					ovary(1)|breast(1)	2	Hepatocellular(33;0.183)					CCAGGGGGGACAAGGGGGAGC	0.627													8	21	---	---	---	---	PASS	A	17819468	A	A	17819468	3	1	59	1	0	0	0	0	1	0	0	0	13009	477	17	3	933	3	RAI2	23	17819468	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	11997753	17819468	137451092	237	23064										
GK	2710	broad.mit.edu	37	chrX	30695509	30695509	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	aagctattggtgtcagcaacCagagggaaaccactgtagtc	11	9	1	1			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chrX:30695509C>T	uc004dch.3	+	4	456	c.277C>T	c.(277-279)CAG>TAG	p.Q93*	GK_uc010ngj.2_Nonsense_Mutation_p.Q93*|GK_uc004dci.3_Nonsense_Mutation_p.Q93*|GK_uc011mjz.1_5'UTR|GK_uc011mka.1_5'UTR|GK_uc010ngk.2_5'UTR	NM_203391	NP_976325	P32189	GLPK_HUMAN	glycerol kinase isoform a	93					glycerol-3-phosphate metabolic process|triglyceride biosynthetic process	cytosol|mitochondrial outer membrane	ATP binding|glycerol kinase activity			central_nervous_system(1)	1						TGTCAGCAACCAGAGGGAAAC	0.413													52	20	---	---	---	---	PASS	T	30695509	T	T	30695509	4	4	59	1	0	0	0	0	0	1	0	0	6420	595	21	3	291	3	GK	23	30695509	Nonsense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	12876041	30695509	124575051	238	23065										
CCNB3	85417	broad.mit.edu	37	chrX	50052552	50052552	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	tcgtccttgctaaagtctccAactgaggagtcaccttttga	8	11	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chrX:50052552A>T	uc004dox.3	+	6	1681	c.1383A>T	c.(1381-1383)CCA>CCT	p.P461P	CCNB3_uc004doy.2_Silent_p.P461P|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	461					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					TAAAGTCTCCAACTGAGGAGT	0.473													11	41	---	---	---	---	PASS	T	50052552	T	T	50052552	2	4	59	1	0	0	0	0	0	0	0	1	2914	117	5	5		5	CCNB3	23	50052552	Silent	SNP	A	TCGA-33-4582-01A-01D-1441-08	19357043	50052552	105218008	239	23066										
RLIM	51132	broad.mit.edu	37	chrX	73812015	73812015	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gggaattctgatggtactgaCataggttctcacacctgccc	10	11	2	2			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chrX:73812015C>A	uc004ebu.2	-	5	1425	c.1135G>T	c.(1135-1137)GTC>TTC	p.V379F	RLIM_uc004ebw.2_Missense_Mutation_p.V379F	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	379					random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						ATGGTACTGACATAGGTTCTC	0.428													14	22	---	---	---	---	PASS	A	73812015	A	A	73812015	3	1	59	1	0	0	0	0	1	0	0	0	13390	478	17	3	743	3	RLIM	23	73812015	Missense_Mutation	SNP	C	TCGA-33-4582-01A-01D-1441-08	23759463	73812015	81458545	240	23067										
DCAF12L1	139170	broad.mit.edu	37	chrX	125685917	125685917	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104602510460251	25	0.0817385853808568	1.39502981656577	1.31762816222728	1.42139741309866	0.0024089945773894	0.0355326700164936	0	gcaacagtgtcatcgaacttGtccgggtccatccgccacag	10	14	1	0			TCGA-33-4582-01A-01D-1441-08	TCGA-33-4582-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4cb06585-62f9-4aae-969a-2085b4d514c3	3f6485cb-b18f-452c-8516-da639240544c	g.chrX:125685917G>T	uc004eul.2	-	1	926	c.675C>A	c.(673-675)GAC>GAA	p.D225E		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	225	WD 2.									skin(3)|ovary(1)	4						CATCGAACTTGTCCGGGTCCA	0.642													13	9	---	---	---	---	PASS	T	125685917	T	T	125685917	3	4	59	1	0	0	0	0	1	0	0	0	4264	1368	48	3	720	3	DCAF12L1	23	125685917	Missense_Mutation	SNP	G	TCGA-33-4582-01A-01D-1441-08	51873902	125685917	29584643	241	23068										
PRAMEF6	440561	broad.mit.edu	37	chr1	13001318	13001318	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tggcattgaggaagcacccaCgggccatagcttcagaccaa	11	12	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:13001318C>A	uc001auq.2	-	3	451	c.365G>T	c.(364-366)CGT>CTT	p.R122L	PRAMEF5_uc001aur.2_Intron	NM_001010889	NP_001010889	Q5VXH4	PRAM6_HUMAN	PRAME family member 6	122											0	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GAAGCACCCACGGGCCATAGC	0.502													68	355	---	---	---	---	PASS	A	13001318	A	A	13001318	3	1	60	1	0	0	0	0	1	0	0	0	12438	536	19	1	1073	1	PRAMEF6	1	13001318	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08		13001318	236249303	1	23069										
KLHDC7A	127707	broad.mit.edu	37	chr1	18808058	18808058	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggcaggacagtaaaccccgtGagcatccaggactggggcaa	14	11	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:18808058G>A	uc001bax.2	+	1	635	c.583G>A	c.(583-585)GAG>AAG	p.E195K	KLHDC7A_uc009vpg.2_5'UTR	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	195						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		TAAACCCCGTGAGCATCCAGG	0.612													14	29	---	---	---	---	PASS	A	18808058	A	A	18808058	3	1	60	1	0	0	0	0	1	0	0	0	8360	1291	45	2	585	2	KLHDC7A	1	18808058	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	5806740	18808058	230442563	2	23070										
HSPG2	3339	broad.mit.edu	37	chr1	22211643	22211643	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cggggaggtgtcaccacctgGgggggcactgaggagaccag	19	10	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:22211643G>A	uc001bfj.2	-	11	1258	c.1218C>T	c.(1216-1218)CCC>CCT	p.P406P	HSPG2_uc009vqd.2_Silent_p.P406P	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	406	Ig-like C2-type 1.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TCACCACCTGGGGGGGCACTG	0.667													11	14	---	---	---	---	PASS	A	22211643	A	A	22211643	2	1	60	1	0	0	0	0	0	0	0	1	7430	1219	43	3		3	HSPG2	1	22211643	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	3403585	22211643	227038978	3	23071										
AHDC1	27245	broad.mit.edu	37	chr1	27874402	27874402	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cggtggccgcagctcttcctTgaagcccagtgtaggcgagc	14	13	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:27874402T>G	uc009vsy.2	-	6	5194	c.4225A>C	c.(4225-4227)AAG>CAG	p.K1409Q	AHDC1_uc009vsz.1_Missense_Mutation_p.K1409Q	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	1409							DNA binding			central_nervous_system(1)	1		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		AGCTCTTCCTTGAAGCCCAGT	0.672													58	42	---	---	---	---	PASS	G	27874402	G	G	27874402	3	3	60	1	0	0	0	0	1	0	0	0	412	1821	63	5	590	5	AHDC1	1	27874402	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	5662759	27874402	221376219	4	23072										
C1orf216	127703	broad.mit.edu	37	chr1	36181836	36181836	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atgaagttggagttgctgtcTggttggagctcgggctgaca	16	6	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:36181836T>A	uc001bzh.1	-	2	575	c.87A>T	c.(85-87)CCA>CCT	p.P29P		NM_152374	NP_689587	Q8TAB5	CA216_HUMAN	hypothetical protein LOC127703	29										skin(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.196)				AGTTGCTGTCTGGTTGGAGCT	0.572											OREG0013357	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	35	---	---	---	---	PASS	A	36181836	A	A	36181836	2	1	60	1	0	0	0	0	0	0	0	1	2031	1567	55	5		5	C1orf216	1	36181836	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	8307434	36181836	213068785	5	23073										
MACF1	23499	broad.mit.edu	37	chr1	39910348	39910348	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgtaggaactctattcccaGctgaaagccaaggaagagac	10	9	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:39910348G>A	uc010oiu.1	+	45	14906	c.14775G>A	c.(14773-14775)CAG>CAA	p.Q4925Q	MACF1_uc010ois.1_Silent_p.Q4423Q	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)			TCTATTCCCAGCTGAAAGCCA	0.443													3	47	---	---	---	---	PASS	A	39910348	A	A	39910348	2	1	60	1	0	0	0	0	0	0	0	1	9144	962	34	3		3	MACF1	1	39910348	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	3728512	39910348	209340273	6	23074										
PABPC4	8761	broad.mit.edu	37	chr1	40029580	40029580	+	Missense_Mutation	SNP	C	A	A													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaagtccatagccaagcggtCcgggcactcagaccctacaa							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:40029580C>A	uc010oiv.1	-	11	2318	c.1420G>T	c.(1420-1422)GAC>TAC	p.D474Y	PABPC4_uc001cdl.2_Missense_Mutation_p.D490Y|PABPC4_uc001cdm.2_Intron	NM_003819	NP_003810	Q13310	PABP4_HUMAN	poly A binding protein, cytoplasmic 4 isoform 2	474					blood coagulation|RNA catabolic process|RNA processing|translation	cytoplasm|ribonucleoprotein complex	nucleotide binding|poly(A) RNA binding|poly(U) RNA binding|protein binding				0	Lung NSC(20;1.55e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.89e-18)|Epithelial(16;6.17e-17)|all cancers(16;1.18e-15)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			GCCAAGCGGTCCGGGCACTCA	0.582													7	35	---	---	---	---	PASS	A	40029580	A	A	40029580	3	1	60	1	0	0	0	0	1	0	0	0	11366	855	30	2	534	2	PABPC4	1	40029580	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	119232	40029580	209221041	7	23075	511	3								
PABPC4	8761	broad.mit.edu	37	chr1	40029581	40029581	+	Silent	SNP	C	G	G													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aagtccatagccaagcggtcCgggcactcagaccctacaac							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:40029581C>G	uc010oiv.1	-	11	2317	c.1419G>C	c.(1417-1419)CCG>CCC	p.P473P	PABPC4_uc001cdl.2_Silent_p.P489P|PABPC4_uc001cdm.2_Intron	NM_003819	NP_003810	Q13310	PABP4_HUMAN	poly A binding protein, cytoplasmic 4 isoform 2	473					blood coagulation|RNA catabolic process|RNA processing|translation	cytoplasm|ribonucleoprotein complex	nucleotide binding|poly(A) RNA binding|poly(U) RNA binding|protein binding				0	Lung NSC(20;1.55e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.89e-18)|Epithelial(16;6.17e-17)|all cancers(16;1.18e-15)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CCAAGCGGTCCGGGCACTCAG	0.582													8	35	---	---	---	---	PASS	G	40029581	G	G	40029581	2	3	60	1	0	0	0	0	0	0	0	1	11366	639	23	4		4	PABPC4	1	40029581	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	1	40029581	209221040	8	23076	511	3								
PABPC4	8761	broad.mit.edu	37	chr1	40029582	40029582	+	Missense_Mutation	SNP	G	A	A													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agtccatagccaagcggtccGggcactcagaccctacaaca							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:40029582G>A	uc010oiv.1	-	11	2316	c.1418C>T	c.(1417-1419)CCG>CTG	p.P473L	PABPC4_uc001cdl.2_Missense_Mutation_p.P489L|PABPC4_uc001cdm.2_Intron	NM_003819	NP_003810	Q13310	PABP4_HUMAN	poly A binding protein, cytoplasmic 4 isoform 2	473					blood coagulation|RNA catabolic process|RNA processing|translation	cytoplasm|ribonucleoprotein complex	nucleotide binding|poly(A) RNA binding|poly(U) RNA binding|protein binding				0	Lung NSC(20;1.55e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.89e-18)|Epithelial(16;6.17e-17)|all cancers(16;1.18e-15)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CAAGCGGTCCGGGCACTCAGA	0.577													8	35	---	---	---	---	PASS	A	40029582	A	A	40029582	3	1	60	1	0	0	0	0	1	0	0	0	11366	1116	39	1	536	1	PABPC4	1	40029582	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1	40029582	209221039	9	23077	511	3								
FAM159A	348378	broad.mit.edu	37	chr1	53122665	53122665	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtgacattccaggcagccctGaggaagcctctgtacccaac	10	14	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:53122665G>T	uc001cuf.2	+	3	626	c.526G>T	c.(526-528)GAG>TAG	p.E176*	FAM159A_uc001cug.1_Intron|FAM159A_uc001cuh.2_Intron	NM_001042693	NP_001036158	Q6UWV7	F159A_HUMAN	hypothetical protein LOC348378	176						integral to membrane					0						AGGCAGCCCTGAGGAAGCCTC	0.527													129	142	---	---	---	---	PASS	T	53122665	T	T	53122665	4	4	60	1	0	0	0	0	0	1	0	0	5468	1291	45	2	536	2	FAM159A	1	53122665	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	13093083	53122665	196127956	10	23078										
CDCP2	200008	broad.mit.edu	37	chr1	54606960	54606960	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcactcttcattgccctccaCctggaagtccacgaacacca	6	17	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:54606960C>A	uc001cwv.1	-	3	1422	c.574G>T	c.(574-576)GTG>TTG	p.V192L		NM_201546	NP_963840	Q5VXM1	CDCP2_HUMAN	CUB domain containing protein 2 precursor	192	CUB 2.					extracellular region				ovary(1)	1						TTGCCCTCCACCTGGAAGTCC	0.637													34	37	---	---	---	---	PASS	A	54606960	A	A	54606960	3	1	60	1	0	0	0	0	1	0	0	0	3094	507	18	3	783	3	CDCP2	1	54606960	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1484295	54606960	194643661	11	23079										
PDE4B	5142	broad.mit.edu	37	chr1	66384311	66384311	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttattttgaatgtagcttgaGtaaatcctacagttcttcca	6	7	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:66384311G>T	uc001dcn.2	+	3	265	c.74G>T	c.(73-75)AGT>ATT	p.S25I	PDE4B_uc009war.2_Intron|PDE4B_uc001dco.2_Missense_Mutation_p.S25I	NM_001037341	NP_001032418	Q07343	PDE4B_HUMAN	phosphodiesterase 4B isoform 1	25					signal transduction	cytosol|insoluble fraction|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Adenosine monophosphate(DB00131)|Amrinone(DB01427)|Caffeine(DB00201)|Cilostazol(DB01166)|Dyphylline(DB00651)|Enprofylline(DB00824)|Papaverine(DB01113)|Pentoxifylline(DB00806)|Theophylline(DB00277)	TGTAGCTTGAGTAAATCCTAC	0.383													30	29	---	---	---	---	PASS	T	66384311	T	T	66384311	3	4	60	1	0	0	0	0	1	0	0	0	11640	1029	36	3	80	3	PDE4B	1	66384311	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	11777351	66384311	182866310	12	23080										
LRRIQ3	127255	broad.mit.edu	37	chr1	74507364	74507364	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcaatatcactaaatgttcgGagtttcataccagctctttg	6	9	4	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:74507364G>T	uc001dfy.3	-	7	1443	c.1251C>A	c.(1249-1251)CTC>CTA	p.L417L	LRRIQ3_uc001dfz.3_Intron	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	417										ovary(2)	2						TAAATGTTCGGAGTTTCATAC	0.368													45	47	---	---	---	---	PASS	T	74507364	T	T	74507364	2	4	60	1	0	0	0	0	0	0	0	1	9030	1161	41	2		2	LRRIQ3	1	74507364	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	8123053	74507364	174743257	13	23081										
LHX8	431707	broad.mit.edu	37	chr1	75606778	75606778	+	Missense_Mutation	SNP	C	A	A													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acaaagacattttctgcaaaCttgattatttcaggtatgct							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:75606778C>A	uc001dgo.2	+	5	1040	c.376C>A	c.(376-378)CTT>ATT	p.L126I	LHX8_uc001dgq.2_Missense_Mutation_p.L65I	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	126	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						TTTCTGCAAACTTGATTATTT	0.378													44	51	---	---	---	---	PASS	A	75606778	A	A	75606778	3	1	60	1	0	0	0	0	1	0	0	0	8776	565	20	3	390	3	LHX8	1	75606778	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1099414	75606778	173643843	14	23082	512	2								
LHX8	431707	broad.mit.edu	37	chr1	75606780	75606780	+	Silent	SNP	T	A	A													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaagacattttctgcaaactTgattatttcaggtatgctgt							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:75606780T>A	uc001dgo.2	+	5	1042	c.378T>A	c.(376-378)CTT>CTA	p.L126L	LHX8_uc001dgq.2_Silent_p.L65L	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	126	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						TCTGCAAACTTGATTATTTCA	0.368													43	52	---	---	---	---	PASS	A	75606780	A	A	75606780	2	1	60	1	0	0	0	0	0	0	0	1	8776	1799	63	5		5	LHX8	1	75606780	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	2	75606780	173643841	15	23083	512	2								
LPPR4	9890	broad.mit.edu	37	chr1	99772006	99772006	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acagccagccccgaatcatgCaagtcatagccatgtccaag	8	14	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:99772006C>A	uc001dse.2	+	7	1838	c.1732C>A	c.(1732-1734)CAA>AAA	p.Q578K	LPPR4_uc010oue.1_Missense_Mutation_p.Q520K	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	578							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		CCGAATCATGCAAGTCATAGC	0.547													37	23	---	---	---	---	PASS	A	99772006	A	A	99772006	3	1	60	1	0	0	0	0	1	0	0	0	8927	711	25	3	1758	3	LPPR4	1	99772006	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	24165226	99772006	149478615	16	23084										
COL11A1	1301	broad.mit.edu	37	chr1	103412503	103412503	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acctgctgacccacgttctcCtggtgagccctagtatacag	9	14	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:103412503C>A	uc001dul.2	-	42	3496	c.3178G>T	c.(3178-3180)GGA>TGA	p.G1060*	COL11A1_uc001duk.2_Nonsense_Mutation_p.G256*|COL11A1_uc001dum.2_Nonsense_Mutation_p.G1072*|COL11A1_uc001dun.2_Nonsense_Mutation_p.G1021*|COL11A1_uc009weh.2_Nonsense_Mutation_p.G944*	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1060	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCACGTTCTCCTGGTGAGCCC	0.468													14	13	---	---	---	---	PASS	A	103412503	A	A	103412503	4	1	60	1	0	0	0	0	0	1	0	0	3667	690	24	3	2346	3	COL11A1	1	103412503	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3640497	103412503	145838118	17	23085										
CELSR2	1952	broad.mit.edu	37	chr1	109795276	109795276	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acaccttccaaggaggcgacGatggagacggtgactttatt	12	9	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:109795276G>C	uc001dxa.3	+	1	2636	c.2575G>C	c.(2575-2577)GAT>CAT	p.D859H		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	859	Extracellular (Potential).|Cadherin 7.				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		AGGAGGCGACGATGGAGACGG	0.547													27	30	---	---	---	---	PASS	C	109795276	C	C	109795276	3	2	60	1	0	0	0	0	1	0	0	0	3222	1058	37	2	2577	2	CELSR2	1	109795276	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	6382773	109795276	139455345	18	23086										
CHI3L2	1117	broad.mit.edu	37	chr1	111784000	111784000	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cgcggctccaggatcaacagGttccctacgcagtcaagggg	13	13	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:111784000G>T	uc001eam.2	+	9	1041	c.970G>T	c.(970-972)GTT>TTT	p.V324F	CHI3L2_uc001ean.2_Missense_Mutation_p.V314F|CHI3L2_uc001eao.2_Missense_Mutation_p.V245F|CHI3L2_uc009wga.2_Intron	NM_004000	NP_003991	Q15782	CH3L2_HUMAN	chitinase 3-like 2 isoform a	324					chitin catabolic process	extracellular space	cation binding|chitinase activity			central_nervous_system(1)	1		all_cancers(81;1.89e-05)|all_epithelial(167;7.36e-06)|all_lung(203;0.00018)|Lung NSC(277;0.000359)		Lung(183;0.0171)|Colorectal(144;0.0387)|all cancers(265;0.0464)|LUSC - Lung squamous cell carcinoma(189;0.0872)|Epithelial(280;0.0994)|COAD - Colon adenocarcinoma(174;0.141)		GGATCAACAGGTTCCCTACGC	0.532													28	30	---	---	---	---	PASS	T	111784000	T	T	111784000	3	4	60	1	0	0	0	0	1	0	0	0	3341	1261	44	3	1004	3	CHI3L2	1	111784000	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1988724	111784000	137466621	19	23087										
HFE2	148738	broad.mit.edu	37	chr1	145415810	145415810	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caccagctcccccatggcgtTgggggccaacgctaccgcca	11	18	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:145415810T>C	uc001eni.2	+	3	954	c.629T>C	c.(628-630)TTG>TCG	p.L210S	NBPF10_uc001emp.3_Intron|HFE2_uc001enj.2_Intron|HFE2_uc001enk.2_Missense_Mutation_p.L97S|HFE2_uc001enl.2_Intron	NM_213653	NP_998818	Q6ZVN8	RGMC_HUMAN	hemojuvelin isoform a precursor	210					axon guidance	anchored to membrane				ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CCCATGGCGTTGGGGGCCAAC	0.572													126	142	---	---	---	---	PASS	C	145415810	C	C	145415810	3	2	60	1	0	0	0	0	1	0	0	0	7082	1821	63	5	635	5	HFE2	1	145415810	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	33631810	145415810	103834811	20	23088										
C1orf43	25912	broad.mit.edu	37	chr1	154187017	154187017	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atacttgatatcctgaacccTggagagtcgaatatcaatct	7	9	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:154187017T>A	uc001fei.2	-	3	592	c.202A>T	c.(202-204)AGG>TGG	p.R68W	C1orf43_uc001fef.1_5'Flank|C1orf43_uc001feg.2_Missense_Mutation_p.R34W|C1orf43_uc001feh.2_Missense_Mutation_p.R34W|C1orf43_uc001fej.2_Missense_Mutation_p.R68W|C1orf43_uc009wos.1_Missense_Mutation_p.R68W|C1orf43_uc001fek.2_Missense_Mutation_p.R68W|C1orf43_uc001fel.2_Missense_Mutation_p.R34W	NM_001098616	NP_001092086	Q9BWL3	CA043_HUMAN	hypothetical protein LOC25912 isoform 3	68						integral to membrane	coenzyme binding|oxidoreductase activity				0	all_lung(78;1.98e-30)|Lung NSC(65;2.87e-28)|Hepatocellular(266;0.0877)					TCCTGAACCCTGGAGAGTCGA	0.423													98	81	---	---	---	---	PASS	A	154187017	A	A	154187017	3	1	60	1	0	0	0	0	1	0	0	0	2040	1579	55	5	579	5	C1orf43	1	154187017	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	8771207	154187017	95063604	21	23089										
PKLR	5313	broad.mit.edu	37	chr1	155265282	155265282	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttggtgtccagggcgatggcCacgggccggtagctgagtgg	19	9	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:155265282C>A	uc001fkb.3	-	4	492	c.453G>T	c.(451-453)GTG>GTT	p.V151V	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Silent_p.V120V|PKLR_uc010pga.1_Silent_p.V87V	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	151					endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	GGGCGATGGCCACGGGCCGGT	0.692													21	13	---	---	---	---	PASS	A	155265282	A	A	155265282	2	1	60	1	0	0	0	0	0	0	0	1	11976	581	21	3		3	PKLR	1	155265282	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	1078265	155265282	93985339	22	23090										
ROBLD3	28956	broad.mit.edu	37	chr1	156027821	156027821	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccttctgctgtgtatgtatgCcaaggagaccgtgggctttg	13	9	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:156027821C>A	uc001fnb.3	+	3	448	c.284C>A	c.(283-285)GCC>GAC	p.A95D	ROBLD3_uc010pgy.1_Intron	NM_014017	NP_054736	Q9Y2Q5	LTOR2_HUMAN	roadblock domain-containing protein 3 isoform 1	95					cell growth|cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade	lysosomal membrane|Ragulator complex					0						TGTATGTATGCCAAGGAGACC	0.562													90	90	---	---	---	---	PASS	A	156027821	A	A	156027821	3	1	60	1	0	0	0	0	1	0	0	0	13512	739	26	3	294	3	ROBLD3	1	156027821	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	762539	156027821	93222800	23	23091										
NTRK1	4914	broad.mit.edu	37	chr1	156843688	156843688	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	accccttcggccaggcctccGcctccatcatggctgccttc	8	20	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:156843688G>T	uc001fqh.1	+	8	1170	c.1114G>T	c.(1114-1116)GCC>TCC	p.A372S	NTRK1_uc001fqf.1_Missense_Mutation_p.A342S|NTRK1_uc009wsi.1_Missense_Mutation_p.A77S|NTRK1_uc001fqi.1_Missense_Mutation_p.A372S|NTRK1_uc009wsk.1_Missense_Mutation_p.A372S	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	372	Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	CCAGGCCTCCGCCTCCATCAT	0.652			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			9	9	---	---	---	---	PASS	T	156843688	T	T	156843688	3	4	60	1	0	0	0	0	1	0	0	0	10706	1087	38	1	1274	1	NTRK1	1	156843688	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	815867	156843688	92406933	24	23092										
NTRK1	4914	broad.mit.edu	37	chr1	156845871	156845871	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgaccctgcaagccccctcaGgtgttcaccacatcaagcgc	8	17	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:156845871G>T	uc001fqh.1	+	13	1558	c.1502_splice	c.e13-1	p.C501_splice	NTRK1_uc001fqf.1_Splice_Site_p.C465_splice|NTRK1_uc009wsi.1_Splice_Site_p.C200_splice|NTRK1_uc001fqi.1_Splice_Site_p.C495_splice|NTRK1_uc009wsk.1_Missense_Mutation_p.G498C	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1						activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	AGCCCCCTCAGGTGTTCACCA	0.557			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			53	208	---	---	---	---	PASS	T	156845871	T	T	156845871	5	4	60	1	0	0	0	0	0	0	1	0	10706	1014	35	3	1681	3	NTRK1	1	156845871	Splice_Site	SNP	G	TCGA-33-4583-01A-01D-1441-08	2183	156845871	92404750	25	23093										
OR10X1	128367	broad.mit.edu	37	chr1	158549355	158549355	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agcacatctgtaagctacaaCctgtgactgaaatgcttctg	8	10	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:158549355C>T	uc010pin.1	-	1	335	c.335G>A	c.(334-336)GGT>GAT	p.G112D		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	112	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TAAGCTACAACCTGTGACTGA	0.488													22	75	---	---	---	---	PASS	T	158549355	T	T	158549355	3	4	60	1	0	0	0	0	1	0	0	0	10922	507	18	3	640	3	OR10X1	1	158549355	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1703484	158549355	90701266	26	23094										
OR6K3	391114	broad.mit.edu	37	chr1	158687440	158687440	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	catcacaatctcgggaagcaGgataaggaaaccgaagaggc	12	9	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:158687440G>C	uc010pip.1	-	1	514	c.514C>G	c.(514-516)CTG>GTG	p.L172V		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	172	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					TCGGGAAGCAGGATAAGGAAA	0.522													39	130	---	---	---	---	PASS	C	158687440	C	C	158687440	3	2	60	1	0	0	0	0	1	0	0	0	11203	991	35	4	483	4	OR6K3	1	158687440	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	138085	158687440	90563181	27	23095										
IFI16	3428	broad.mit.edu	37	chr1	158988388	158988388	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaactctgaagattgatattCttcacaaacaagcttcagga	6	8	4	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:158988388C>G	uc001ftf.1	+	6	1526	c.919C>G	c.(919-921)CTT>GTT	p.L307V	IFI16_uc001ftg.2_Missense_Mutation_p.L307V|IFI16_uc010pis.1_Missense_Mutation_p.L251V	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	307	HIN-200 1.				cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					GATTGATATTCTTCACAAACA	0.353													44	146	---	---	---	---	PASS	G	158988388	G	G	158988388	3	3	60	1	0	0	0	0	1	0	0	0	7511	913	32	2	933	2	IFI16	1	158988388	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	300948	158988388	90262233	28	23096										
SLAMF1	6504	broad.mit.edu	37	chr1	160607207	160607207	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agtgattttgccattgtgacGacaatgtggatgcttttgtt	11	5	0	2	rs35824111		TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:160607207G>T	uc001fwl.3	-	2	535	c.189C>A	c.(187-189)GTC>GTA	p.V63V	SLAMF1_uc010pjk.1_RNA|SLAMF1_uc010pjl.1_RNA|SLAMF1_uc010pjm.1_RNA|SLAMF1_uc001fwm.2_Silent_p.V63V	NM_003037	NP_003028	Q13291	SLAF1_HUMAN	signaling lymphocytic activation molecule family	63	Extracellular (Potential).				interspecies interaction between organisms|lymphocyte activation|positive regulation of cell proliferation	integral to membrane	antigen binding|transmembrane receptor activity			ovary(1)|breast(1)	2	all_cancers(52;4.94e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			CCATTGTGACGACAATGTGGA	0.463													33	119	---	---	---	---	PASS	T	160607207	T	T	160607207	2	4	60	1	0	0	0	0	0	0	0	1	14367	1045	37	2		2	SLAMF1	1	160607207	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	1618819	160607207	88643414	29	23097										
OLFML2B	25903	broad.mit.edu	37	chr1	161967994	161967994	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gaccagggtgcggtccgagcGttcaggtcgcttgtcacagc	15	12	2	0	rs34123330	byFrequency	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:161967994G>A	uc001gbu.2	-	6	1519	c.1095C>T	c.(1093-1095)AAC>AAT	p.N365N	OLFML2B_uc010pkq.1_Silent_p.N366N	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	365										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			CGGTCCGAGCGTTCAGGTCGC	0.612													74	305	---	---	---	---	PASS	A	161967994	A	A	161967994	2	1	60	1	0	0	0	0	0	0	0	1	10858	1136	40	1		1	OLFML2B	1	161967994	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	1360787	161967994	87282627	30	23098										
C1orf226	400793	broad.mit.edu	37	chr1	162351745	162351745	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aagctccaggccagccgctcCttcccccacttgtccaagcc	7	20	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:162351745C>T	uc001gby.2	+	1	226	c.54C>T	c.(52-54)TCC>TCT	p.S18S	C1orf226_uc010pkt.1_Silent_p.S61S	NM_001085375	NP_001078844	A1L170	CA226_HUMAN	hypothetical protein LOC400793 isoform 2	18										ovary(1)	1						CCAGCCGCTCCTTCCCCCACT	0.622													16	48	---	---	---	---	PASS	T	162351745	T	T	162351745	2	4	60	1	0	0	0	0	0	0	0	1	2032	668	24	3		3	C1orf226	1	162351745	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	383751	162351745	86898876	31	23099										
NUF2	83540	broad.mit.edu	37	chr1	163297351	163297351	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcgactggaacatttttacaTggtgagtttaagatgaggca	11	5	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:163297351T>A	uc001gcq.1	+	3	497	c.197T>A	c.(196-198)ATG>AAG	p.M66K	NUF2_uc001gcp.2_Missense_Mutation_p.M66K|NUF2_uc001gcr.1_Missense_Mutation_p.M66K|NUF2_uc009wvc.1_Missense_Mutation_p.M66K	NM_145697	NP_663735	Q9BZD4	NUF2_HUMAN	NUF2, NDC80 kinetochore complex component	66	Interaction with the N-terminus of NDC80.				cell division|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding			ovary(3)|skin(1)	4	all_hematologic(923;0.101)					CATTTTTACATGGTGAGTTTA	0.348													29	150	---	---	---	---	PASS	A	163297351	A	A	163297351	3	1	60	1	0	0	0	0	1	0	0	0	10747	1478	51	5	203	5	NUF2	1	163297351	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	945606	163297351	85953270	32	23100										
SLC9A11	284525	broad.mit.edu	37	chr1	173493188	173493188	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtcaggagttgggggtgggaTtgcctttggaaagttattta	16	3	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:173493188T>C	uc001giz.2	-	21	2983	c.2560A>G	c.(2560-2562)ATC>GTC	p.I854V	SLC9A11_uc009wwe.2_Missense_Mutation_p.I412V	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	854					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						GGGGGTGGGATTGCCTTTGGA	0.289													71	66	---	---	---	---	PASS	C	173493188	C	C	173493188	3	2	60	1	0	0	0	0	1	0	0	0	14711	1493	52	5	846	5	SLC9A11	1	173493188	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	10195837	173493188	75757433	33	23101										
TNN	63923	broad.mit.edu	37	chr1	175066586	175066586	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agcaaacctggtgactgaccGggtgactgagaataccgcca	12	11	0	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:175066586G>T	uc001gkl.1	+	8	1735	c.1622G>T	c.(1621-1623)CGG>CTG	p.R541L	TNN_uc010pmx.1_Intron	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	541	Fibronectin type-III 4.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GTGACTGACCGGGTGACTGAG	0.507													51	67	---	---	---	---	PASS	T	175066586	T	T	175066586	3	4	60	1	0	0	0	0	1	0	0	0	16320	1116	39	1	1648	1	TNN	1	175066586	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1573398	175066586	74184035	34	23102										
TNR	7143	broad.mit.edu	37	chr1	175335165	175335165	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gaggcaatcccagaggatggGgtaaaggtaattcggtagtg	16	5	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:175335165G>T	uc001gkp.1	-	9	2244	c.2163C>A	c.(2161-2163)ACC>ACA	p.T721T	TNR_uc009wwu.1_Silent_p.T721T	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	721	Fibronectin type-III 5.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CAGAGGATGGGGTAAAGGTAA	0.552													28	141	---	---	---	---	PASS	T	175335165	T	T	175335165	2	4	60	1	0	0	0	0	0	0	0	1	16335	1219	43	3		3	TNR	1	175335165	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	268579	175335165	73915456	35	23103										
SEC16B	89866	broad.mit.edu	37	chr1	177933402	177933402	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gggctgtctttacaagggttCctactgttagatctgcagca	11	9	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:177933402C>T	uc001gli.1	-	5	636	c.546G>A	c.(544-546)AGG>AGA	p.R182R	SEC16B_uc001glk.1_5'UTR|SEC16B_uc009wwz.1_5'UTR|SEC16B_uc001glj.1_Silent_p.R182R|SEC16B_uc001gll.3_Silent_p.R182R	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	182	Required for endoplasmic reticulum localization.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4						TACAAGGGTTCCTACTGTTAG	0.572													27	38	---	---	---	---	PASS	T	177933402	T	T	177933402	2	4	60	1	0	0	0	0	0	0	0	1	13987	854	30	2		2	SEC16B	1	177933402	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	2598237	177933402	71317219	36	23104										
CACNA1E	777	broad.mit.edu	37	chr1	181726098	181726098	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tagatgtgacagaggaagacCgaggcccaagccgcagcaac	13	11	0	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:181726098C>T	uc001gow.2	+	30	4330	c.4165C>T	c.(4165-4167)CGA>TGA	p.R1389*	CACNA1E_uc009wxs.2_Nonsense_Mutation_p.R1277*|CACNA1E_uc001gox.1_Nonsense_Mutation_p.R615*|CACNA1E_uc009wxt.2_Nonsense_Mutation_p.R615*	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1389	Extracellular (Potential).|III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						AGAGGAAGACCGAGGCCCAAG	0.478													8	222	---	---	---	---	PASS	T	181726098	T	T	181726098	4	4	60	1	0	0	0	0	0	1	0	0	2542	644	23	1	4283	1	CACNA1E	1	181726098	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3792696	181726098	67524523	37	23105										
CACNA1E	777	broad.mit.edu	37	chr1	181767480	181767480	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctctgtctctgacaccagcaCcccaagaagaagtcgtcggc	9	15	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:181767480C>A	uc001gow.2	+	47	6488	c.6323C>A	c.(6322-6324)ACC>AAC	p.T2108N	CACNA1E_uc009wxs.2_Missense_Mutation_p.T1996N|CACNA1E_uc009wxt.2_Missense_Mutation_p.T1377N	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	2151	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GACACCAGCACCCCAAGAAGA	0.592													104	121	---	---	---	---	PASS	A	181767480	A	A	181767480	3	1	60	1	0	0	0	0	1	0	0	0	2542	507	18	3	6509	3	CACNA1E	1	181767480	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	41382	181767480	67483141	38	23106										
C1orf26	54823	broad.mit.edu	37	chr1	185144061	185144061	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	catagattctaataattcgaAgactaagcaggaagaaagag	9	5	1	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:185144061A>T	uc001grg.3	+	5	896	c.782A>T	c.(781-783)AAG>ATG	p.K261M	C1orf26_uc001grh.3_Missense_Mutation_p.K261M	NM_001105518	NP_001098988	Q5T5J6	SWT1_HUMAN	hypothetical protein LOC54823	261											0						AATAATTCGAAGACTAAGCAG	0.353													110	108	---	---	---	---	PASS	T	185144061	T	T	185144061	3	4	60	1	0	0	0	0	1	0	0	0	2035	72	3	5	796	5	C1orf26	1	185144061	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	3376581	185144061	64106560	39	23107										
ASPM	259266	broad.mit.edu	37	chr1	197070783	197070783	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cagcctgaataaccacagcaGaatgccattgtctgatataa	7	10	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:197070783G>A	uc001gtu.2	-	18	7855	c.7598C>T	c.(7597-7599)TCT>TTT	p.S2533F	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Missense_Mutation_p.S381F	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2533	IQ 27.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						AACCACAGCAGAATGCCATTG	0.343													56	202	---	---	---	---	PASS	A	197070783	A	A	197070783	3	1	60	1	0	0	0	0	1	0	0	0	1056	942	33	2	2879	2	ASPM	1	197070783	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	11926722	197070783	52179838	40	23108										
ASPM	259266	broad.mit.edu	37	chr1	197072005	197072005	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgactgatgcattttaaacaTggctttaataaaagtggctg	9	5	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:197072005T>A	uc001gtu.2	-	18	6633	c.6376A>T	c.(6376-6378)ATG>TTG	p.M2126L	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2126	IQ 17.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						ATTTTAAACATGGCTTTAATA	0.323													57	244	---	---	---	---	PASS	A	197072005	A	A	197072005	3	1	60	1	0	0	0	0	1	0	0	0	1056	1464	51	5	4101	5	ASPM	1	197072005	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	1222	197072005	52178616	41	23109										
PTPRC	5788	broad.mit.edu	37	chr1	198704280	198704280	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agtgtgcagaatactggccgTcaatggaagagggcactcgg	15	8	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:198704280T>A	uc001gur.1	+	23	2476	c.2296T>A	c.(2296-2298)TCA>ACA	p.S766T	PTPRC_uc001gus.1_Missense_Mutation_p.S718T|PTPRC_uc001gut.1_Missense_Mutation_p.S605T|PTPRC_uc010ppg.1_Missense_Mutation_p.S702T	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	766	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						ATACTGGCCGTCAATGGAAGA	0.308													28	67	---	---	---	---	PASS	A	198704280	A	A	198704280	3	1	60	1	0	0	0	0	1	0	0	0	12797	1667	58	5	2393	5	PTPRC	1	198704280	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	1632275	198704280	50546341	42	23110										
CD34	947	broad.mit.edu	37	chr1	208084408	208084408	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atcctgggccctgcgcgcgcGcccctgcggaccagcatcct	12	19	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:208084408G>A	uc001hgw.1	-	1	276	c.18C>T	c.(16-18)GGC>GGT	p.G6G	CD34_uc001hgx.1_Silent_p.G6G|CD34_uc010psj.1_5'UTR	NM_001025109	NP_001020280	P28906	CD34_HUMAN	CD34 antigen isoform a	6					cell-cell adhesion|leukocyte migration|regulation of immune response	integral to membrane	carbohydrate binding			ovary(1)	1						CTGCGCGCGCGCCCCTGCGGA	0.617													6	8	---	---	---	---	PASS	A	208084408	A	A	208084408	2	1	60	1	0	0	0	0	0	0	0	1	3006	1074	38	1		1	CD34	1	208084408	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	9380128	208084408	41166213	43	23111										
KCNH1	3756	broad.mit.edu	37	chr1	211192446	211192446	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctggttttgaaggagacattAtaagggaccaagatggctgt	13	5	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:211192446A>T	uc001hib.2	-	6	881	c.711T>A	c.(709-711)TAT>TAA	p.Y237*	KCNH1_uc001hic.2_Nonsense_Mutation_p.Y237*	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	237	Helical; Name=Segment S1; (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		AGGAGACATTATAAGGGACCA	0.413													37	128	---	---	---	---	PASS	T	211192446	T	T	211192446	4	4	60	1	0	0	0	0	0	1	0	0	8031	456	16	5	2282	5	KCNH1	1	211192446	Nonsense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	3108038	211192446	38058175	44	23112										
KCNH1	3756	broad.mit.edu	37	chr1	211276913	211276913	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgccgcactttttcaatcgTgtctttatcagtcagctccc	6	13	4	0	rs148218711	by1000genomes	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:211276913T>A	uc001hib.2	-	3	405	c.235A>T	c.(235-237)ACG>TCG	p.T79S	KCNH1_uc001hic.2_Missense_Mutation_p.T79S	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	79	Cytoplasmic (Potential).|PAS.				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		TTTTCAATCGTGTCTTTATCA	0.308													60	68	---	---	---	---	PASS	A	211276913	A	A	211276913	3	1	60	1	0	0	0	0	1	0	0	0	8031	1696	59	5	2770	5	KCNH1	1	211276913	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	84467	211276913	37973708	45	23113										
CENPF	1063	broad.mit.edu	37	chr1	214817978	214817978	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cagaaagaacaccaaagcatGatgttcatcagatttgtgat	8	7	2	5			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:214817978G>T	uc001hkm.2	+	13	5239	c.5065G>T	c.(5065-5067)GAT>TAT	p.D1689Y		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	1785					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		ACCAAAGCATGATGTTCATCA	0.388													40	117	---	---	---	---	PASS	T	214817978	T	T	214817978	3	4	60	1	0	0	0	0	1	0	0	0	3231	1290	45	2	5111	2	CENPF	1	214817978	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	3541065	214817978	34432643	46	23114										
SNAP47	116841	broad.mit.edu	37	chr1	227954784	227954784	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gatacccaggaactaacccaGgtaagatgtccccagtgcca	9	13	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:227954784G>T	uc001hrf.2	+	4	1662	c.1248G>T	c.(1246-1248)CAG>CAT	p.Q416H	SNAP47_uc001hqz.2_Missense_Mutation_p.Q371H|SNAP47_uc001hra.2_Missense_Mutation_p.Q174H|SNAP47_uc001hrd.2_Missense_Mutation_p.Q416H|SNAP47_uc001hre.2_Missense_Mutation_p.Q174H	NM_053052	NP_444280	Q5SQN1	SNP47_HUMAN	synaptosomal-associated protein, 47kDa	416	t-SNARE coiled-coil homology 2.					endomembrane system|membrane|perinuclear region of cytoplasm				ovary(1)	1						AACTAACCCAGGTAAGATGTC	0.602													13	50	---	---	---	---	PASS	T	227954784	T	T	227954784	3	4	60	1	0	0	0	0	1	0	0	0	14832	1014	35	3	1262	3	SNAP47	1	227954784	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	13136806	227954784	21295837	47	23115										
OBSCN	84033	broad.mit.edu	37	chr1	228431117	228431117	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atgccggggactacagctgcGaggccaggggccagagggtc	18	11	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:228431117G>A	uc009xez.1	+	10	3207	c.3163G>A	c.(3163-3165)GAG>AAG	p.E1055K	OBSCN_uc001hsn.2_Missense_Mutation_p.E1055K	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1055	Ig-like 10.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CTACAGCTGCGAGGCCAGGGG	0.552													29	25	---	---	---	---	PASS	A	228431117	A	A	228431117	3	1	60	1	0	0	0	0	1	0	0	0	10812	1059	37	2	3197	2	OBSCN	1	228431117	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	476333	228431117	20819504	48	23116										
SIPA1L2	57568	broad.mit.edu	37	chr1	232600813	232600813	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttcaatgtcagcagactggcCgaagtcccgggctatcacgt	11	12	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:232600813C>A	uc001hvg.2	-	7	2751	c.2593G>T	c.(2593-2595)GGC>TGC	p.G865C	SIPA1L2_uc001hvf.2_5'Flank	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	865					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GCAGACTGGCCGAAGTCCCGG	0.478													64	63	---	---	---	---	PASS	A	232600813	A	A	232600813	3	1	60	1	0	0	0	0	1	0	0	0	14330	652	23	1	2635	1	SIPA1L2	1	232600813	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	4169696	232600813	16649808	49	23117										
ARID4B	51742	broad.mit.edu	37	chr1	235331886	235331886	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttgtgatgcgctggacattGacggttcagctaaagttaac	11	7	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:235331886G>C	uc001hwq.2	-	24	4391	c.3893C>G	c.(3892-3894)TCA>TGA	p.S1298*	ARID4B_uc001hwr.2_Nonsense_Mutation_p.S1212*|ARID4B_uc001hwp.2_RNA	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	1298	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			GCTGGACATTGACGGTTCAGC	0.463													50	64	---	---	---	---	PASS	C	235331886	C	C	235331886	4	2	60	1	0	0	0	0	0	1	0	0	920	1294	45	2	49	2	ARID4B	1	235331886	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2731073	235331886	13918735	50	23118										
LYST	1130	broad.mit.edu	37	chr1	235973326	235973326	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aacttacaaactttttctaaTaaagataacaaaacatgaca	2	7	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:235973326T>G	uc001hxj.2	-	5	967	c.792A>C	c.(790-792)TTA>TTC	p.L264F	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Missense_Mutation_p.L264F	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	264					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			CTTTTTCTAATAAAGATAACA	0.388									Chediak-Higashi_syndrome				60	56	---	---	---	---	PASS	G	235973326	G	G	235973326	3	3	60	1	0	0	0	0	1	0	0	0	9128	1403	49	5	10809	5	LYST	1	235973326	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	641440	235973326	13277295	51	23119										
RYR2	6262	broad.mit.edu	37	chr1	237617769	237617769	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tccgtaagcctaagtctgcaGgatctcattggctacttcca	8	12	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:237617769G>T	uc001hyl.1	+	15	1491	c.1371G>T	c.(1369-1371)CAG>CAT	p.Q457H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	457	Cytoplasmic (By similarity).				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)			TAAGTCTGCAGGATCTCATTG	0.463													53	63	---	---	---	---	PASS	T	237617769	T	T	237617769	3	4	60	1	0	0	0	0	1	0	0	0	13769	991	35	3	1429	3	RYR2	1	237617769	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1644443	237617769	11632852	52	23120										
MAP1LC3C	440738	broad.mit.edu	37	chr1	242161836	242161836	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cggatgatgctgaggaactgGgtcatggtcagctcctgcgg	16	9	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:242161836G>T	uc001hzk.2	-	3	276	c.201C>A	c.(199-201)ACC>ACA	p.T67T		NM_001004343	NP_001004343	Q9BXW4	MLP3C_HUMAN	microtubule-associated protein 1 light chain 3	67					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule	protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TGAGGAACTGGGTCATGGTCA	0.622											OREG0014354	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	85	75	---	---	---	---	PASS	T	242161836	T	T	242161836	2	4	60	1	0	0	0	0	0	0	0	1	9233	1219	43	3		3	MAP1LC3C	1	242161836	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	4544067	242161836	7088785	53	23121										
ZNF695	57116	broad.mit.edu	37	chr1	247150705	247150705	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tctcaccagtatgaattctcCtatgttcagtcagatgtgag	8	9	4	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:247150705C>A	uc009xgu.2	-	4	1257	c.1112G>T	c.(1111-1113)AGG>ATG	p.R371M	ZNF695_uc001ica.2_Intron|ZNF695_uc001icb.1_Intron|ZNF695_uc009xgt.1_Intron|ZNF695_uc001ibx.2_Intron|ZNF695_uc001iby.2_Intron	NM_020394	NP_065127	Q8IW36	ZN695_HUMAN	zinc finger protein SBZF3	371	C2H2-type 8.				regulation of transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			ATGAATTCTCCTATGTTCAGT	0.393													7	68	---	---	---	---	PASS	A	247150705	A	A	247150705	3	1	60	1	0	0	0	0	1	0	0	0	18095	681	24	3	439	3	ZNF695	1	247150705	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	4988869	247150705	2099916	54	23122										
NLRP3	114548	broad.mit.edu	37	chr1	247587425	247587425	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caccgtggtgttccagggggCggcagggattgggaaaacaa	17	8	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:247587425C>A	uc001icr.2	+	5	818	c.680C>A	c.(679-681)GCG>GAG	p.A227E	NLRP3_uc001ics.2_Missense_Mutation_p.A227E|NLRP3_uc001icu.2_Missense_Mutation_p.A227E|NLRP3_uc001icw.2_Missense_Mutation_p.A227E|NLRP3_uc001icv.2_Missense_Mutation_p.A227E|NLRP3_uc010pyw.1_Missense_Mutation_p.A225E|NLRP3_uc001ict.1_Missense_Mutation_p.A225E	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	227	ATP (Potential).|NACHT.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			TTCCAGGGGGCGGCAGGGATT	0.537													56	49	---	---	---	---	PASS	A	247587425	A	A	247587425	3	1	60	1	0	0	0	0	1	0	0	0	10478	768	27	1	690	1	NLRP3	1	247587425	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	436720	247587425	1663196	55	23123										
OR6F1	343169	broad.mit.edu	37	chr1	247875890	247875890	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agaaagaagtacatgggggtAtgcaactgatgggaggtgct	16	4	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:247875890A>G	uc001idj.1	-	1	168	c.168T>C	c.(166-168)CAT>CAC	p.H56H		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			ACATGGGGGTATGCAACTGAT	0.483													104	102	---	---	---	---	PASS	G	247875890	G	G	247875890	2	3	60	1	0	0	0	0	0	0	0	1	11201	446	16	5		5	OR6F1	1	247875890	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	288465	247875890	1374731	56	23124										
OR1C1	26188	broad.mit.edu	37	chr1	247921036	247921036	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agtagaggtgatcttcagaaCagtggagaagataagtccat	12	5	2	5			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:247921036C>G	uc010pza.1	-	1	673	c.673G>C	c.(673-675)GTT>CTT	p.V225L		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	225	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			ATCTTCAGAACAGTGGAGAAG	0.498													36	39	---	---	---	---	PASS	G	247921036	G	G	247921036	3	3	60	1	0	0	0	0	1	0	0	0	10952	478	17	4	273	4	OR1C1	1	247921036	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	45146	247921036	1329585	57	23125										
OR2T4	127074	broad.mit.edu	37	chr1	248524899	248524899	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctcatggacaacatcacctGgatggccagccacactggat	9	14	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:248524899G>A	uc001ieh.1	+	1	17	c.17G>A	c.(16-18)TGG>TAG	p.W6*		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AACATCACCTGGATGGCCAGC	0.473													28	87	---	---	---	---	PASS	A	248524899	A	A	248524899	4	1	60	1	0	0	0	0	0	1	0	0	11027	1357	47	3	19	3	OR2T4	1	248524899	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	603863	248524899	725722	58	23126										
OR2G6	391211	broad.mit.edu	37	chr1	248685150	248685150	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cttcctcagcaacctctcgtGtgtggacatctgctttacca	7	14	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr1:248685150G>T	uc001ien.1	+	1	203	c.203G>T	c.(202-204)TGT>TTT	p.C68F		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AACCTCTCGTGTGTGGACATC	0.507													95	75	---	---	---	---	PASS	T	248685150	T	T	248685150	3	4	60	1	0	0	0	0	1	0	0	0	11000	1377	48	3	205	3	OR2G6	1	248685150	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	160251	248685150	565471	59	23127										
ALLC	55821	broad.mit.edu	37	chr2	3730597	3730597	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aagccaggaaaccctgcttcCggccacaactattttcttgt	7	13	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:3730597C>A	uc010ewt.2	+	7	605	c.444C>A	c.(442-444)TCC>TCA	p.S148S		NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	167							allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)		ACCCTGCTTCCGGCCACAACT	0.433										HNSCC(21;0.051)			101	107	---	---	---	---	PASS	A	3730597	A	A	3730597	2	1	60	1	0	0	0	0	0	0	0	1	534	639	23	1		1	ALLC	2	3730597	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08		3730597	239468776	60	23128										
TRIB2	28951	broad.mit.edu	37	chr2	12863631	12863631	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgccatgacggggggctggtGctgcgggacctcaagctgcg	18	11	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:12863631G>T	uc002rbv.3	+	2	1952	c.516G>T	c.(514-516)GTG>GTT	p.V172V	TRIB2_uc010yjp.1_Silent_p.V36V	NM_021643	NP_067675	Q92519	TRIB2_HUMAN	tribbles homolog 2	172	Protein kinase.				negative regulation of fat cell differentiation|negative regulation of interleukin-10 biosynthetic process|negative regulation of protein kinase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|regulation of MAP kinase activity	cytoplasm|cytoskeleton|nucleus	ATP binding|protein kinase activity|protein kinase inhibitor activity|transcription factor binding|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			stomach(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GGGGGCTGGTGCTGCGGGACC	0.577													55	73	---	---	---	---	PASS	T	12863631	T	T	12863631	2	4	60	1	0	0	0	0	0	0	0	1	16480	1306	46	3		3	TRIB2	2	12863631	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	9133034	12863631	230335742	61	23129										
APOB	338	broad.mit.edu	37	chr2	21256232	21256232	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttcatcactgaggcctctcaGctcagtaaccagcttattga	7	12	4	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:21256232G>A	uc002red.2	-	9	1191	c.1063C>T	c.(1063-1065)CTG>TTG	p.L355L		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	355	Vitellogenin.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AGGCCTCTCAGCTCAGTAACC	0.428													63	67	---	---	---	---	PASS	A	21256232	A	A	21256232	2	1	60	1	0	0	0	0	0	0	0	1	785	962	34	3		3	APOB	2	21256232	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	8392601	21256232	221943141	62	23130										
ATAD2B	54454	broad.mit.edu	37	chr2	24046409	24046409	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caatcagggcggcttcagtgCacagggccttgatatcggct	13	11	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:24046409C>T	uc002rek.3	-	16	2144	c.1850G>A	c.(1849-1851)TGC>TAC	p.C617Y	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rej.3_5'UTR	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	617							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCTTCAGTGCACAGGGCCTT	0.463													13	74	---	---	---	---	PASS	T	24046409	T	T	24046409	3	4	60	1	0	0	0	0	1	0	0	0	1072	710	25	3	2578	3	ATAD2B	2	24046409	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2790177	24046409	219152964	63	23131										
TCF23	150921	broad.mit.edu	37	chr2	27373020	27373020	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agtcctgagaatgccgcgcgGgagcggagccgggtcaggac	18	11	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:27373020G>T	uc010ylg.1	+	2	252	c.252G>T	c.(250-252)CGG>CGT	p.R84R		NM_175769	NP_786951	Q7RTU1	TCF23_HUMAN	transcription factor 23	84	Basic motif (By similarity).				cell differentiation|muscle organ development|regulation of transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATGCCGCGCGGGAGCGGAGCC	0.657													40	60	---	---	---	---	PASS	T	27373020	T	T	27373020	2	4	60	1	0	0	0	0	0	0	0	1	15689	1219	43	3		3	TCF23	2	27373020	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	3326611	27373020	215826353	64	23132										
CAD	790	broad.mit.edu	37	chr2	27460931	27460931	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttctgctcccagcatttcgAgacatggccctcccacctcc	6	18	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:27460931A>T	uc002rji.2	+	30	4898	c.4736A>T	c.(4735-4737)GAG>GTG	p.E1579V	CAD_uc010eyw.2_Missense_Mutation_p.E1516V	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1579	DHOase (dihydroorotase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	CAGCATTTCGAGACATGGCCC	0.572													38	38	---	---	---	---	PASS	T	27460931	T	T	27460931	3	4	60	1	0	0	0	0	1	0	0	0	2565	304	11	5	4854	5	CAD	2	27460931	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	87911	27460931	215738442	65	23133										
C2orf16	84226	broad.mit.edu	37	chr2	27801261	27801261	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	taaaatctgaggagttagcaCcaggaccaattcctcaggtt	9	9	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:27801261C>A	uc002rkz.3	+	1	1873	c.1822C>A	c.(1822-1824)CCA>ACA	p.P608T		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	608										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					GGAGTTAGCACCAGGACCAAT	0.413													7	48	---	---	---	---	PASS	A	27801261	A	A	27801261	3	1	60	1	0	0	0	0	1	0	0	0	2157	507	18	3	1824	3	C2orf16	2	27801261	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	340330	27801261	215398112	66	23134										
TTC27	55622	broad.mit.edu	37	chr2	32961770	32961770	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gatttttctagcgccaacttGcaagtttgctctttgagttg	9	8	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:32961770G>A	uc002rom.2	+	12	1570	c.1339G>A	c.(1339-1341)GCA>ACA	p.A447T	TTC27_uc010ymx.1_Missense_Mutation_p.A397T|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	447	TPR 1.						protein binding			central_nervous_system(1)	1						GCGCCAACTTGCAAGTTTGCT	0.378													47	61	---	---	---	---	PASS	A	32961770	A	A	32961770	3	1	60	1	0	0	0	0	1	0	0	0	16692	1319	46	3	1385	3	TTC27	2	32961770	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	5160509	32961770	210237603	67	23135										
HEATR5B	54497	broad.mit.edu	37	chr2	37247018	37247018	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gctggtcttagagcagctccCacctagaaaaataaataaag	8	9	1	2	rs141463798	by1000genomes	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:37247018C>A	uc002rpp.1	-	26	4134	c.4038G>T	c.(4036-4038)GTG>GTT	p.V1346V		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1346							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				GAGCAGCTCCCACCTAGAAAA	0.234													32	39	---	---	---	---	PASS	A	37247018	A	A	37247018	2	1	60	1	0	0	0	0	0	0	0	1	7032	581	21	3		3	HEATR5B	2	37247018	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	4285248	37247018	205952355	68	23136										
NRXN1	9378	broad.mit.edu	37	chr2	51255264	51255264	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gaagctcatctcgctctcgcAgcaggcgttccacttgggga	12	13	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:51255264A>T	uc010fbq.2	-	2	1625	c.148T>A	c.(148-150)TGC>AGC	p.C50S	NRXN1_uc002rxe.3_Missense_Mutation_p.C50S|NRXN1_uc002rxd.1_Missense_Mutation_p.C50S	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TCGCTCTCGCAGCAGGCGTTC	0.667													5	7	---	---	---	---	PASS	T	51255264	T	T	51255264	3	4	60	1	0	0	0	0	1	0	0	0	10665	188	7	5	4850	5	NRXN1	2	51255264	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	14008246	51255264	191944109	69	23137										
CCDC85A	114800	broad.mit.edu	37	chr2	56599485	56599485	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gttccaaatataaggccagcCagaatagaaggcaacctcca	8	11	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:56599485C>A	uc002rzn.2	+	4	1826	c.1324C>A	c.(1324-1326)CAG>AAG	p.Q442K		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	442	Potential.									breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TAAGGCCAGCCAGAATAGAAG	0.468													5	4	---	---	---	---	PASS	A	56599485	A	A	56599485	3	1	60	1	0	0	0	0	1	0	0	0	2859	595	21	3	1338	3	CCDC85A	2	56599485	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	5344221	56599485	186599888	70	23138										
LOXL3	84695	broad.mit.edu	37	chr2	74761091	74761091	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgttggtaaagtcactctcTgctacttcaaagtttgggtt	9	7	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:74761091T>A	uc002smp.1	-	13	2178	c.2106A>T	c.(2104-2106)GCA>GCT	p.A702A	LOXL3_uc002smo.1_Silent_p.A341A|LOXL3_uc010ffm.1_Silent_p.A646A|LOXL3_uc002smq.1_Silent_p.A557A|LOXL3_uc010ffn.1_Silent_p.A557A	NM_032603	NP_115992	P58215	LOXL3_HUMAN	lysyl oxidase-like 3 precursor	702	Lysyl-oxidase like.					extracellular space|membrane	copper ion binding|protein-lysine 6-oxidase activity|scavenger receptor activity				0						AGTCACTCTCTGCTACTTCAA	0.438													29	125	---	---	---	---	PASS	A	74761091	A	A	74761091	2	1	60	1	0	0	0	0	0	0	0	1	8901	1567	55	5		5	LOXL3	2	74761091	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	18161606	74761091	168438282	71	23139										
MRPL19	9801	broad.mit.edu	37	chr2	75874310	75874310	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccgccgccgaaaccggtcatCgtggacaagcaccgccccgt	11	18	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:75874310C>T	uc002snl.2	+	2	211	c.186C>T	c.(184-186)ATC>ATT	p.I62I	MRPL19_uc002snm.1_Silent_p.I62I	NM_014763	NP_055578	P49406	RM19_HUMAN	mitochondrial ribosomal protein L19 precursor	62					translation	mitochondrion|nuclear membrane|ribosome	structural constituent of ribosome				0						AACCGGTCATCGTGGACAAGC	0.721													6	5	---	---	---	---	PASS	T	75874310	T	T	75874310	2	4	60	1	0	0	0	0	0	0	0	1	9784	874	31	2		2	MRPL19	2	75874310	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	1113219	75874310	167325063	72	23140										
ADRA2B	151	broad.mit.edu	37	chr2	96781414	96781414	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cttgcactgggggcgcccgcGcggctgggggccctggtcgc	19	15	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:96781414G>A	uc002svi.2	-	1	475	c.475C>T	c.(475-477)CGC>TGC	p.R159C		NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor	159	Extracellular (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	GGGCGCCCGCGCGGCTGGGGG	0.632													26	37	---	---	---	---	PASS	A	96781414	A	A	96781414	3	1	60	1	0	0	0	0	1	0	0	0	338	1087	38	1	872	1	ADRA2B	2	96781414	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	20907104	96781414	146417959	73	23141										
AFF3	3899	broad.mit.edu	37	chr2	100170906	100170906	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgacgatggtcgacggggaCagggcgctggcgttggagag	20	8	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:100170906C>A	uc002tag.2	-	23	3662	c.3426G>T	c.(3424-3426)CTG>CTT	p.L1142L	AFF3_uc002taf.2_Silent_p.L1167L	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	1142					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						TCGACGGGGACAGGGCGCTGG	0.652													71	38	---	---	---	---	PASS	A	100170906	A	A	100170906	2	1	60	1	0	0	0	0	0	0	0	1	358	465	17	3		3	AFF3	2	100170906	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	3389492	100170906	143028467	74	23142										
C2orf29	55571	broad.mit.edu	37	chr2	101881431	101881431	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gataaatcgatgtgtgttaaGaatagcactggtgtggagat	13	3	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:101881431G>T	uc002taw.3	+	4	1039	c.957G>T	c.(955-957)AAG>AAT	p.K319N		NM_017546	NP_060016	Q9UKZ1	CB029_HUMAN	hypothetical protein LOC55571	319					cell proliferation|nuclear-transcribed mRNA poly(A) tail shortening	cytosol				ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						TGTGTGTTAAGAATAGCACTG	0.483													4	127	---	---	---	---	PASS	T	101881431	T	T	101881431	3	4	60	1	0	0	0	0	1	0	0	0	2161	933	33	2	971	2	C2orf29	2	101881431	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1710525	101881431	141317942	75	23143										
ANAPC1	64682	broad.mit.edu	37	chr2	112604762	112604762	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tagtgatcctaaccatggagCcattactcagttcctagatg	8	10	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:112604762C>T	uc002thi.2	-	16	2052	c.1805G>A	c.(1804-1806)GGC>GAC	p.G602D		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	602					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						AACCATGGAGCCATTACTCAG	0.348													59	26	---	---	---	---	PASS	T	112604762	T	T	112604762	3	4	60	1	0	0	0	0	1	0	0	0	598	739	26	3	4161	3	ANAPC1	2	112604762	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	10723331	112604762	130594611	76	23144										
IL1B	3553	broad.mit.edu	37	chr2	113591131	113591131	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gccgccatccagagggcagaGgtccaggtcctggaaggagc	16	12	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:113591131G>T	uc002tii.1	-	4	208	c.121C>A	c.(121-123)CTC>ATC	p.L41I	IL1B_uc002tih.1_Missense_Mutation_p.L10I	NM_000576	NP_000567	P01584	IL1B_HUMAN	interleukin 1, beta proprotein	41					activation of MAPK activity|anti-apoptosis|apoptosis|cell-cell signaling|cellular response to drug|cellular response to mechanical stimulus|cytokine-mediated signaling pathway|embryo implantation|fever generation|negative regulation of adiponectin secretion|negative regulation of cell proliferation|negative regulation of glucose transport|negative regulation of insulin receptor signaling pathway|negative regulation of lipid catabolic process|negative regulation of MAP kinase activity|positive regulation of angiogenesis|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of cell adhesion molecule production|positive regulation of cell division|positive regulation of fever generation|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of heterotypic cell-cell adhesion|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of interferon-gamma production|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of lipid catabolic process|positive regulation of membrane protein ectodomain proteolysis|positive regulation of mitosis|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myosin light chain kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|positive regulation of protein export from nucleus|positive regulation of T cell proliferation|positive regulation vascular endothelial growth factor production|regulation of insulin secretion|sequestering of triglyceride|smooth muscle adaptation	cytosol|extracellular space	cytokine activity|growth factor activity|interleukin-1 receptor binding|protein domain specific binding			lung(3)|breast(1)	4					Anakinra(DB00026)|Minocycline(DB01017)|Procaterol(DB01366)	AGAGGGCAGAGGTCCAGGTCC	0.597													43	108	---	---	---	---	PASS	T	113591131	T	T	113591131	3	4	60	1	0	0	0	0	1	0	0	0	7651	1000	35	3	704	3	IL1B	2	113591131	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	986369	113591131	129608242	77	23145										
TMEM37	140738	broad.mit.edu	37	chr2	120194773	120194773	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttggcctggagttcctcatGgtgtcccagttgtgcgagga	14	9	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:120194773G>T	uc002tly.2	+	2	364	c.330G>T	c.(328-330)ATG>ATT	p.M110I		NM_183240	NP_899063	Q8WXS4	CCGL_HUMAN	transmembrane protein 37	110	Helical; (Potential).					integral to membrane	calcium channel activity|voltage-gated ion channel activity			breast(1)	1						AGTTCCTCATGGTGTCCCAGT	0.652													144	60	---	---	---	---	PASS	T	120194773	T	T	120194773	3	4	60	1	0	0	0	0	1	0	0	0	16155	1348	47	3	336	3	TMEM37	2	120194773	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	6603642	120194773	123004600	78	23146										
MYO7B	4648	broad.mit.edu	37	chr2	128324316	128324316	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tactacagccgccatatgggCgagctgcccccgcatgtctt	10	15	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:128324316C>T	uc002top.2	+	5	437	c.384C>T	c.(382-384)GGC>GGT	p.G128G		NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	128	Myosin head-like.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GCCATATGGGCGAGCTGCCCC	0.587													27	14	---	---	---	---	PASS	T	128324316	T	T	128324316	2	4	60	1	0	0	0	0	0	0	0	1	10083	755	27	1		1	MYO7B	2	128324316	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	8129543	128324316	114875057	79	23147										
SAP130	79595	broad.mit.edu	37	chr2	128775365	128775365	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcatggtgtgtcgacaacatCtgcacctgtggatagggcct	13	10	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:128775365C>A	uc002tpp.2	-	3	447	c.315G>T	c.(313-315)CAG>CAT	p.Q105H	SAP130_uc002tpo.2_5'Flank|SAP130_uc010fmd.2_Missense_Mutation_p.Q105H|SAP130_uc002tpq.1_Missense_Mutation_p.Q79H	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	105					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		TCGACAACATCTGCACCTGTG	0.587													130	48	---	---	---	---	PASS	A	128775365	A	A	128775365	3	1	60	1	0	0	0	0	1	0	0	0	13831	912	32	2	3012	2	SAP130	2	128775365	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	451049	128775365	114424008	80	23148										
LRP1B	53353	broad.mit.edu	37	chr2	141202228	141202228	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agtcccacactgaaatcggcCtggctgacatctaaattcag	8	12	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:141202228C>A	uc002tvj.1	-	64	11050	c.10078G>T	c.(10078-10080)GGC>TGC	p.G3360C		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3360	Extracellular (Potential).|LDL-receptor class A 22.				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)		TGAAATCGGCCTGGCTGACAT	0.423										TSP Lung(27;0.18)			73	32	---	---	---	---	PASS	A	141202228	A	A	141202228	3	1	60	1	0	0	0	0	1	0	0	0	8955	681	24	3	3833	3	LRP1B	2	141202228	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	12426863	141202228	101997145	81	23149										
LRP1B	53353	broad.mit.edu	37	chr2	141986915	141986915	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgaatttcatttccattgacTgagcttagagttgccatttt	7	7	1	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:141986915T>A	uc002tvj.1	-	6	1659	c.687A>T	c.(685-687)TCA>TCT	p.S229S	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	229	Extracellular (Potential).				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)		TTCCATTGACTGAGCTTAGAG	0.303										TSP Lung(27;0.18)			39	36	---	---	---	---	PASS	A	141986915	A	A	141986915	2	1	60	1	0	0	0	0	0	0	0	1	8955	1567	55	5		5	LRP1B	2	141986915	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	784687	141986915	101212458	82	23150										
KYNU	8942	broad.mit.edu	37	chr2	143787241	143787241	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctcagcaccagatttaagatGgataacagtaagtgtattta	8	6	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:143787241G>A	uc002tvl.2	+	11	1078	c.948G>A	c.(946-948)ATG>ATA	p.M316I	KYNU_uc010fnm.2_Missense_Mutation_p.M316I	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	316					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	GATTTAAGATGGATAACAGTA	0.279													40	88	---	---	---	---	PASS	A	143787241	A	A	143787241	3	1	60	1	0	0	0	0	1	0	0	0	8587	1348	47	3	1012	3	KYNU	2	143787241	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1800326	143787241	99412132	83	23151										
ZEB2	9839	broad.mit.edu	37	chr2	145157325	145157325	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aatttcttcagccttgcagtCcattttttgcctggaaacag	7	10	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:145157325C>A	uc002tvu.2	-	8	1909	c.1429G>T	c.(1429-1431)GAC>TAC	p.D477Y	ZEB2_uc002tvv.2_Missense_Mutation_p.D471Y|ZEB2_uc010zbm.1_Missense_Mutation_p.D448Y|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.D506Y	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	477	SMAD-MH2 binding domain (By similarity).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		GCCTTGCAGTCCATTTTTTGC	0.413													80	69	---	---	---	---	PASS	A	145157325	A	A	145157325	3	1	60	1	0	0	0	0	1	0	0	0	17621	855	30	2	2227	2	ZEB2	2	145157325	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1370084	145157325	98042048	84	23152										
SCN3A	6328	broad.mit.edu	37	chr2	165997167	165997167	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcatctattatcacctctggGggaagttgtccagtaggtga	11	8	4	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:165997167G>T	uc002ucx.2	-	13	2505	c.2013C>A	c.(2011-2013)CCC>CCA	p.P671P	SCN3A_uc002ucy.2_Intron|SCN3A_uc002ucz.2_Intron|SCN3A_uc002uda.1_Intron|SCN3A_uc002udb.1_Intron	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	671						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	TCACCTCTGGGGGAAGTTGTC	0.473													44	31	---	---	---	---	PASS	T	165997167	T	T	165997167	2	4	60	1	0	0	0	0	0	0	0	1	13918	1219	43	3		3	SCN3A	2	165997167	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	20839842	165997167	77202206	85	23153										
CSRNP3	80034	broad.mit.edu	37	chr2	166532979	166532980	+	Frame_Shift_Ins	INS	-	T	T													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agagctctgctgcgtgcctcINStggagtgaaaaagattgacg							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:166532979_166532980insT	uc002udf.2	+	6	942_943	c.566_567insT	c.(565-567)TCTfs	p.S189fs	CSRNP3_uc002udg.2_Frame_Shift_Ins_p.S189fs	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	189					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						CTGCGTGCCTCTGGAGTGAAAA	0.49													101	134	---	---	---	---		T	166532980	T	T	166532979	7	5	60	1	0	1	1	0	0	0	0	0	3965	913	32	0	576	0	CSRNP3	2	166532979	Frame_Shift_Ins	INS	-	TCGA-33-4583-01A-01D-1441-08	535812	166532979	76666394	86	23154										
TTC21B	79809	broad.mit.edu	37	chr2	166740350	166740350	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acaggtcttctgccatgtcaTattttgctgattgaatgtaa	8	7	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:166740350T>A	uc002udk.2	-	26	3771	c.3638A>T	c.(3637-3639)TAT>TTT	p.Y1213F	TTC21B_uc002udj.1_RNA	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	1213	TPR 17.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TGCCATGTCATATTTTGCTGA	0.373													69	34	---	---	---	---	PASS	A	166740350	A	A	166740350	3	1	60	1	0	0	0	0	1	0	0	0	16685	1406	49	5	328	5	TTC21B	2	166740350	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	207371	166740350	76459023	87	23155										
SCN7A	6332	broad.mit.edu	37	chr2	167279930	167279930	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctttctctgatccatatataTatcttcaaaagcctgtgggt	6	9	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:167279930T>C	uc002udu.1	-	18	2993	c.2866A>G	c.(2866-2868)ATA>GTA	p.I956V	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	956	Helical; Name=S1 of repeat III; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TCCATATATATATCTTCAAAA	0.284													14	9	---	---	---	---	PASS	C	167279930	C	C	167279930	3	2	60	1	0	0	0	0	1	0	0	0	13923	1406	49	5	2214	5	SCN7A	2	167279930	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	539580	167279930	75919443	88	23156										
XIRP2	129446	broad.mit.edu	37	chr2	168107333	168107333	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	taagaacgagctttctcagtCccctaaaaaggacagttatg	8	9	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:168107333C>A	uc002udx.2	+	8	9449	c.9431C>A	c.(9430-9432)TCC>TAC	p.S3144Y	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.S2969Y|XIRP2_uc010fpq.2_Missense_Mutation_p.S2922Y|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2969					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CTTTCTCAGTCCCCTAAAAAG	0.468													101	55	---	---	---	---	PASS	A	168107333	A	A	168107333	3	1	60	1	0	0	0	0	1	0	0	0	17427	855	30	2	9461	2	XIRP2	2	168107333	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	827403	168107333	75092040	89	23157										
NOSTRIN	115677	broad.mit.edu	37	chr2	169707637	169707637	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aagaattcaacttttatgcaAtaacttaaaccagtacagcc	4	9	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:169707637A>G	uc002ueg.2	+	9	678	c.674A>G	c.(673-675)AAT>AGT	p.N225S	NOSTRIN_uc002uef.2_Missense_Mutation_p.N282S|NOSTRIN_uc002uei.2_Missense_Mutation_p.N108S|NOSTRIN_uc010fpu.2_Missense_Mutation_p.N197S|NOSTRIN_uc002ueh.2_Missense_Mutation_p.N147S|NOSTRIN_uc002uej.2_Missense_Mutation_p.N108S	NM_001039724	NP_001034813	Q8IVI9	NOSTN_HUMAN	nitric oxide synthase trafficker isoform 2	225					endocytosis|nitric oxide metabolic process|regulation of nitric-oxide synthase activity	cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	protein binding				0						CTTTTATGCAATAACTTAAAC	0.398													73	52	---	---	---	---	PASS	G	169707637	G	G	169707637	3	3	60	1	0	0	0	0	1	0	0	0	10546	101	4	5	883	5	NOSTRIN	2	169707637	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	1600304	169707637	73491736	90	23158										
DFNB59	494513	broad.mit.edu	37	chr2	179325139	179325139	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gaaacggcaacatttgcactGctgtacaggttgagaaatat	10	7	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:179325139G>C	uc002umi.3	+	6	1088	c.732G>C	c.(730-732)CTG>CTC	p.L244L	DFNB59_uc002umj.3_Silent_p.L244L	NM_001042702	NP_001036167	Q0ZLH3	PJVK_HUMAN	deafness, autosomal recessive 59	244					sensory perception of sound						0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			CATTTGCACTGCTGTACAGGT	0.338													52	23	---	---	---	---	PASS	C	179325139	C	C	179325139	2	2	60	1	0	0	0	0	0	0	0	1	4456	1306	46	4		4	DFNB59	2	179325139	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	9617502	179325139	63874234	91	23159										
TTN	7273	broad.mit.edu	37	chr2	179411946	179411946	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gccaatgattttactgccacCatcgtggtagggttcttccc	9	12	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:179411946C>T	uc010zfg.1	-	289	86826	c.86602G>A	c.(86602-86604)GGT>AGT	p.G28868S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G22563S|TTN_uc010zfi.1_Missense_Mutation_p.G22496S|TTN_uc010zfj.1_Missense_Mutation_p.G22371S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29795							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)			TTACTGCCACCATCGTGGTAG	0.438													105	76	---	---	---	---	PASS	T	179411946	T	T	179411946	3	4	60	1	0	0	0	0	1	0	0	0	16732	594	21	3	13765	3	TTN	2	179411946	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	86807	179411946	63787427	92	23160										
TTN	7273	broad.mit.edu	37	chr2	179413505	179413505	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgtaggagtaggtctaccttGgtaggcaatgaagaggcgaa	15	5	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:179413505G>T	uc010zfg.1	-	288	85368	c.85144C>A	c.(85144-85146)CAA>AAA	p.Q28382K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q22077K|TTN_uc010zfi.1_Missense_Mutation_p.Q22010K|TTN_uc010zfj.1_Missense_Mutation_p.Q21885K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29309							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)			GGTCTACCTTGGTAGGCAATG	0.478													68	34	---	---	---	---	PASS	T	179413505	T	T	179413505	3	4	60	1	0	0	0	0	1	0	0	0	16732	1357	47	3	15227	3	TTN	2	179413505	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1559	179413505	63785868	93	23161										
TTN	7273	broad.mit.edu	37	chr2	179429564	179429564	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aataattttggtgcctccatCattcactggctcatgccatt	6	11	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:179429564C>T	uc010zfg.1	-	275	73815	c.73591G>A	c.(73591-73593)GAT>AAT	p.D24531N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D18226N|TTN_uc010zfi.1_Missense_Mutation_p.D18159N|TTN_uc010zfj.1_Missense_Mutation_p.D18034N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25458							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)			GTGCCTCCATCATTCACTGGC	0.393													18	39	---	---	---	---	PASS	T	179429564	T	T	179429564	3	4	60	1	0	0	0	0	1	0	0	0	16732	826	29	2	26832	2	TTN	2	179429564	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	16059	179429564	63769809	94	23162										
TTN	7273	broad.mit.edu	37	chr2	179442567	179442567	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccgtcatatttaggttcagtCcaaatgagagtcactgaatt	8	8	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:179442567C>G	uc010zfg.1	-	272	61106	c.60882G>C	c.(60880-60882)TGG>TGC	p.W20294C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.W13989C|TTN_uc010zfi.1_Missense_Mutation_p.W13922C|TTN_uc010zfj.1_Missense_Mutation_p.W13797C|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21221							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)			TAGGTTCAGTCCAAATGAGAG	0.373													48	32	---	---	---	---	PASS	G	179442567	G	G	179442567	3	3	60	1	0	0	0	0	1	0	0	0	16732	856	30	2	39553	2	TTN	2	179442567	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	13003	179442567	63756806	95	23163										
TTN	7273	broad.mit.edu	37	chr2	179466840	179466840	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccagctttacaaaccagacaGtcctgtgctccaatgtcaat	6	13	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:179466840G>T	uc010zfg.1	-	233	47678	c.47454C>A	c.(47452-47454)GAC>GAA	p.D15818E	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D9513E|TTN_uc010zfi.1_Missense_Mutation_p.D9446E|TTN_uc010zfj.1_Missense_Mutation_p.D9321E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16745							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)			AAACCAGACAGTCCTGTGCTC	0.393													71	31	---	---	---	---	PASS	T	179466840	T	T	179466840	3	4	60	1	0	0	0	0	1	0	0	0	16732	1020	36	3	52851	3	TTN	2	179466840	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	24273	179466840	63732533	96	23164										
COQ10B	80219	broad.mit.edu	37	chr2	198327404	198327404	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gaaattggatttccacctgtGttggagcgatatacatcagt	10	7	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:198327404G>T	uc002uuh.1	+	3	450	c.396G>T	c.(394-396)GTG>GTT	p.V132V	COQ10B_uc010fsl.1_Silent_p.V104V	NM_025147	NP_079423	Q9H8M1	CQ10B_HUMAN	coenzyme Q10 homolog B precursor	132						mitochondrial inner membrane					0			Epithelial(96;0.231)|OV - Ovarian serous cystadenocarcinoma(117;0.246)			TTCCACCTGTGTTGGAGCGAT	0.308													101	47	---	---	---	---	PASS	T	198327404	T	T	198327404	2	4	60	1	0	0	0	0	0	0	0	1	3744	1364	48	3		3	COQ10B	2	198327404	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	18860564	198327404	44871969	97	23165										
PARD3B	117583	broad.mit.edu	37	chr2	206023449	206023449	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtgtattcccctaacagaaaGgagaacctgactgctgtgca	10	10	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:206023449G>A	uc002var.1	+	11	1645	c.1438G>A	c.(1438-1440)GGA>AGA	p.G480R	PARD3B_uc010fub.1_Missense_Mutation_p.G480R|PARD3B_uc002vao.1_Missense_Mutation_p.G480R|PARD3B_uc002vap.1_Intron|PARD3B_uc002vaq.1_Missense_Mutation_p.G480R	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	480					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		CTAACAGAAAGGAGAACCTGA	0.478													129	105	---	---	---	---	PASS	A	206023449	A	A	206023449	3	1	60	1	0	0	0	0	1	0	0	0	11444	1001	35	3	1480	3	PARD3B	2	206023449	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	7696045	206023449	37175924	98	23166										
DYTN	391475	broad.mit.edu	37	chr2	207583001	207583001	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcaccttgtttatctggatcCatttcacaaatttcctggaa	5	10	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:207583001C>T	uc002vbr.1	-	1	120	c.3G>A	c.(1-3)ATG>ATA	p.M1I		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	1						plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		TATCTGGATCCATTTCACAAA	0.373													17	13	---	---	---	---	PASS	T	207583001	T	T	207583001	3	4	60	1	0	0	0	0	1	0	0	0	4861	594	21	3	1781	3	DYTN	2	207583001	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1559552	207583001	35616372	99	23167										
CXCR1	3577	broad.mit.edu	37	chr2	219029167	219029167	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agcaggaccaggttgtagggCagccagcaaagcaggaagat	15	8	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:219029167C>A	uc002vhc.2	-	2	887	c.768G>T	c.(766-768)CTG>CTT	p.L256L		NM_000634	NP_000625	P25024	CXCR1_HUMAN	interleukin 8 receptor alpha	256	Helical; Name=6; (Potential).				dendritic cell chemotaxis|inflammatory response	integral to membrane|plasma membrane	interleukin-8 receptor activity			lung(2)	2						GGTTGTAGGGCAGCCAGCAAA	0.597													13	196	---	---	---	---	PASS	A	219029167	A	A	219029167	2	1	60	1	0	0	0	0	0	0	0	1	4090	697	25	3		3	CXCR1	2	219029167	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	11446166	219029167	24170206	100	23168										
MRPL44	65080	broad.mit.edu	37	chr2	224822335	224822335	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gaaggagttagagcggcagcGccttctgcggtgcccgccgc	16	13	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:224822335G>T	uc002vnr.3	+	1	215	c.146G>T	c.(145-147)CGC>CTC	p.R49L		NM_022915	NP_075066	Q9H9J2	RM44_HUMAN	mitochondrial ribosomal protein L44 precursor	49					RNA processing	mitochondrion|ribosome	double-stranded RNA binding|protein binding|ribonuclease III activity			central_nervous_system(1)	1		all_lung(227;0.00679)|Lung NSC(271;0.00855)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;2.51e-10)|all cancers(144;7.89e-08)|Lung(261;0.00705)|LUSC - Lung squamous cell carcinoma(224;0.008)		GAGCGGCAGCGCCTTCTGCGG	0.697													13	8	---	---	---	---	PASS	T	224822335	T	T	224822335	3	4	60	1	0	0	0	0	1	0	0	0	9808	1087	38	1	148	1	MRPL44	2	224822335	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	5793168	224822335	18377038	101	23169										
DOCK10	55619	broad.mit.edu	37	chr2	225653789	225653789	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttttggtctaacctcattgtAtggtgtatcttgcattccag	8	8	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:225653789A>G	uc010fwz.1	-	48	5649	c.5410T>C	c.(5410-5412)TAC>CAC	p.Y1804H	DOCK10_uc002vob.2_Missense_Mutation_p.Y1798H|DOCK10_uc002voa.2_Missense_Mutation_p.Y460H|DOCK10_uc002voc.2_Missense_Mutation_p.Y625H	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1804	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		ACCTCATTGTATGGTGTATCT	0.403													14	23	---	---	---	---	PASS	G	225653789	G	G	225653789	3	3	60	1	0	0	0	0	1	0	0	0	4685	449	16	5	1186	5	DOCK10	2	225653789	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	831454	225653789	17545584	102	23170										
SPHKAP	80309	broad.mit.edu	37	chr2	228884816	228884816	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	attccattccacctgggtggCtccctttagctgtttacttt	7	12	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr2:228884816C>G	uc002vpq.2	-	7	801	c.754G>C	c.(754-756)GCC>CCC	p.A252P	SPHKAP_uc002vpp.2_Missense_Mutation_p.A252P|SPHKAP_uc010zlx.1_Missense_Mutation_p.A252P	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	252						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		ACCTGGGTGGCTCCCTTTAGC	0.378													226	110	---	---	---	---	PASS	G	228884816	G	G	228884816	3	3	60	1	0	0	0	0	1	0	0	0	15047	797	28	4	4372	4	SPHKAP	2	228884816	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3231027	228884816	14314557	103	23171										
XIRP1	165904	broad.mit.edu	37	chr3	39230709	39230709	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gagcccaggacctcagccagAtcctcggccacagcctcagc	10	18	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:39230709A>T	uc003cjk.1	-	2	449	c.228T>A	c.(226-228)GAT>GAA	p.D76E	XIRP1_uc003cji.2_Missense_Mutation_p.D76E|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	76							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CCTCAGCCAGATCCTCGGCCA	0.597													15	27	---	---	---	---	PASS	T	39230709	T	T	39230709	3	4	60	1	0	0	0	0	1	0	0	0	17426	330	12	5	5307	5	XIRP1	3	39230709	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08		39230709	158791721	104	23172										
TGM4	7047	broad.mit.edu	37	chr3	44932107	44932107	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgctcaggtcacagtggctGtcaccagttcccccaatgcc	9	15	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:44932107G>T	uc003coc.3	+	4	386	c.313G>T	c.(313-315)GTC>TTC	p.V105F	TGM4_uc003cob.2_RNA	NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)	105					peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	CACAGTGGCTGTCACCAGTTC	0.473													52	39	---	---	---	---	PASS	T	44932107	T	T	44932107	3	4	60	1	0	0	0	0	1	0	0	0	15829	1377	48	3	327	3	TGM4	3	44932107	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	5701398	44932107	153090323	105	23173										
LAMB2	3913	broad.mit.edu	37	chr3	49160961	49160961	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aagtgcaagcctatctcgctCcagaccacttagtgcatggt	9	12	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:49160961C>A	uc003cwe.2	-	25	4200	c.3901G>T	c.(3901-3903)GAG>TAG	p.E1301*	USP19_uc003cvz.3_5'Flank|USP19_uc011bcg.1_5'Flank|USP19_uc003cwb.2_5'Flank|USP19_uc003cwd.1_5'Flank|USP19_uc011bch.1_5'Flank|USP19_uc011bci.1_5'Flank	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1301	Domain II.|Potential.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CTATCTCGCTCCAGACCACTT	0.502													51	35	---	---	---	---	PASS	A	49160961	A	A	49160961	4	1	60	1	0	0	0	0	0	1	0	0	8611	864	30	2	1527	2	LAMB2	3	49160961	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	4228854	49160961	148861469	106	23174										
CCDC36	339834	broad.mit.edu	37	chr3	49293826	49293826	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gaaaccagttttatggcaggCccaggccctccctgctgcat	10	14	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:49293826C>A	uc003cwk.2	+	10	1283	c.896C>A	c.(895-897)GCC>GAC	p.A299D	CCDC36_uc011bck.1_Missense_Mutation_p.A299D	NM_178173	NP_835467	Q8IYA8	CCD36_HUMAN	coiled-coil domain containing 36	299										ovary(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(193;9.11e-05)|Kidney(197;0.00248)|KIRC - Kidney renal clear cell carcinoma(197;0.00262)		TTATGGCAGGCCCAGGCCCTC	0.522													16	16	---	---	---	---	PASS	A	49293826	A	A	49293826	3	1	60	1	0	0	0	0	1	0	0	0	2808	739	26	3	922	3	CCDC36	3	49293826	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	132865	49293826	148728604	107	23175										
IQCF1	132141	broad.mit.edu	37	chr3	51937094	51937094	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggttccttcgtcttttggggCtgcttctcctcctgcaatca	9	13	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:51937094C>A	uc003dbv.2	-	2	113	c.15G>T	c.(13-15)CAG>CAT	p.Q5H	IQCF1_uc003dbq.3_RNA	NM_152397	NP_689610	Q8N6M8	IQCF1_HUMAN	IQ motif containing F1	5										ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		TCTTTTGGGGCTGCTTCTCCT	0.537													144	120	---	---	---	---	PASS	A	51937094	A	A	51937094	3	1	60	1	0	0	0	0	1	0	0	0	7807	796	28	3	614	3	IQCF1	3	51937094	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2643268	51937094	146085336	108	23176										
TWF2	11344	broad.mit.edu	37	chr3	52263188	52263188	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcgtcgtagaggaactctgcCgtcagctctgccccatcgcc	10	16	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:52263188C>A	uc003ddd.2	-	9	1063	c.912G>T	c.(910-912)ACG>ACT	p.T304T	TLR9_uc003ddb.2_Intron|TLR9_uc003ddc.1_Intron|TWF2_uc010hmc.2_3'UTR	NM_007284	NP_009215	Q6IBS0	TWF2_HUMAN	twinfilin-like protein	304	ADF-H 2.					cytoskeleton|perinuclear region of cytoplasm	actin binding|ATP binding			stomach(1)|ovary(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;2.43e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GGAACTCTGCCGTCAGCTCTG	0.647													60	58	---	---	---	---	PASS	A	52263188	A	A	52263188	2	1	60	1	0	0	0	0	0	0	0	1	16779	639	23	1		1	TWF2	3	52263188	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	326094	52263188	145759242	109	23177										
PTPRG	5793	broad.mit.edu	37	chr3	62253411	62253411	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cccaaggacctttgaagtctAcatttgaagatttctggagg	10	8	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:62253411A>G	uc003dlb.2	+	19	3510	c.2791A>G	c.(2791-2793)ACA>GCA	p.T931A	PTPRG_uc003dlc.2_Missense_Mutation_p.T902A|PTPRG_uc011bfi.1_Missense_Mutation_p.T177A|uc010hno.2_Intron|uc003dld.3_Intron|uc010hnp.2_Intron|uc003dle.3_Intron	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	931	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				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)		TTTGAAGTCTACATTTGAAGA	0.398													63	84	---	---	---	---	PASS	G	62253411	G	G	62253411	3	3	60	1	0	0	0	0	1	0	0	0	12802	391	14	5	2865	5	PTPRG	3	62253411	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	9990223	62253411	135769019	110	23178										
MORC1	27136	broad.mit.edu	37	chr3	108690217	108690217	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cttccaattctgatggtagcTgatgctcaggaaaaaaatac	8	8	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:108690217T>A	uc003dxl.2	-	25	2597	c.2510A>T	c.(2509-2511)CAG>CTG	p.Q837L	MORC1_uc011bhn.1_Missense_Mutation_p.Q816L	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	837					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						TGATGGTAGCTGATGCTCAGG	0.403													39	35	---	---	---	---	PASS	A	108690217	A	A	108690217	3	1	60	1	0	0	0	0	1	0	0	0	9701	1580	55	5	460	5	MORC1	3	108690217	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	46436806	108690217	89332213	111	23179										
DRD3	1814	broad.mit.edu	37	chr3	113890804	113890804	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttctctgccccacaggtgtaGttcaggtggccactcagctg	11	13	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:113890804G>A	uc003ebd.2	-	3	459	c.36C>T	c.(34-36)AAC>AAT	p.N12N	DRD3_uc010hqn.1_Silent_p.N12N|DRD3_uc003ebb.1_Silent_p.N12N|DRD3_uc003ebc.1_Silent_p.N12N	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	12	Extracellular (Probable).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	CACAGGTGTAGTTCAGGTGGC	0.577													8	5	---	---	---	---	PASS	A	113890804	A	A	113890804	2	1	60	1	0	0	0	0	0	0	0	1	4758	1020	36	3		3	DRD3	3	113890804	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	5200587	113890804	84131626	112	23180										
CD80	941	broad.mit.edu	37	chr3	119276494	119276494	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acctgaacagaagtgagaaaGaccagccagcaccaagagct	10	11	0	5			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:119276494G>C	uc003ecq.2	-	2	477	c.82C>G	c.(82-84)CTT>GTT	p.L28V	CD80_uc010hqt.1_Missense_Mutation_p.L28V|CD80_uc010hqu.1_Missense_Mutation_p.L28V|CD80_uc003ecr.1_Missense_Mutation_p.L28V	NM_005191	NP_005182	P33681	CD80_HUMAN	CD80 antigen precursor	28					interspecies interaction between organisms|intracellular signal transduction|positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of signal transduction|positive regulation of T-helper 1 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation	intracellular	coreceptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2					Abatacept(DB01281)	AAGTGAGAAAGACCAGCCAGC	0.493													11	33	---	---	---	---	PASS	C	119276494	C	C	119276494	3	2	60	1	0	0	0	0	1	0	0	0	3038	942	33	2	804	2	CD80	3	119276494	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	5385690	119276494	78745936	113	23181										
CD80	941	broad.mit.edu	37	chr3	119276533	119276533	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgaaagaaattgaggtatgGacacttggatggtgatgttc	13	4	0	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:119276533G>A	uc003ecq.2	-	2	438	c.43C>T	c.(43-45)CCA>TCA	p.P15S	CD80_uc010hqt.1_Missense_Mutation_p.P15S|CD80_uc010hqu.1_Missense_Mutation_p.P15S|CD80_uc003ecr.1_Missense_Mutation_p.P15S	NM_005191	NP_005182	P33681	CD80_HUMAN	CD80 antigen precursor	15					interspecies interaction between organisms|intracellular signal transduction|positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of signal transduction|positive regulation of T-helper 1 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation	intracellular	coreceptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2					Abatacept(DB01281)	TTGAGGTATGGACACTTGGAT	0.478													12	35	---	---	---	---	PASS	A	119276533	A	A	119276533	3	1	60	1	0	0	0	0	1	0	0	0	3038	1174	41	2	843	2	CD80	3	119276533	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	39	119276533	78745897	114	23182										
HEG1	57493	broad.mit.edu	37	chr3	124720847	124720847	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgcagtgagatcaccaccgcGttggactccctataggcaaa	10	12	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:124720847G>A	uc003ehs.3	-	11	3434	c.3366C>T	c.(3364-3366)AAC>AAT	p.N1122N	HEG1_uc003ehr.3_Translation_Start_Site|HEG1_uc011bke.1_Silent_p.N1222N	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	1122	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						TCACCACCGCGTTGGACTCCC	0.483													7	25	---	---	---	---	PASS	A	124720847	A	A	124720847	2	1	60	1	0	0	0	0	0	0	0	1	7044	1136	40	1		1	HEG1	3	124720847	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	5444314	124720847	73301583	115	23183										
PLXNA1	5361	broad.mit.edu	37	chr3	126726697	126726697	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	actggtgcaaataccgccacGtgtgcacacacaacgtggct	10	13	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:126726697G>A	uc003ejg.2	+	8	1988	c.1984G>A	c.(1984-1986)GTG>ATG	p.V662M		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	685	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		ATACCGCCACGTGTGCACACA	0.627													27	52	---	---	---	---	PASS	A	126726697	A	A	126726697	3	1	60	1	0	0	0	0	1	0	0	0	12119	1145	40	1	2083	1	PLXNA1	3	126726697	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2005850	126726697	71295733	116	23184										
TMEM108	66000	broad.mit.edu	37	chr3	133099697	133099697	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gattcctcagggagcatccaCaaccccacaagctccaaccc	6	18	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:133099697C>T	uc003eph.2	+	4	1416	c.1142C>T	c.(1141-1143)ACA>ATA	p.T381I	TMEM108_uc003epi.2_Missense_Mutation_p.T381I|TMEM108_uc003epj.1_Missense_Mutation_p.T381I|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_Missense_Mutation_p.T332I	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	381	Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						GGAGCATCCACAACCCCACAA	0.622													51	89	---	---	---	---	PASS	T	133099697	T	T	133099697	3	4	60	1	0	0	0	0	1	0	0	0	16021	478	17	3	1148	3	TMEM108	3	133099697	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	6373000	133099697	64922733	117	23185										
PRR23B	389151	broad.mit.edu	37	chr3	138739091	138739091	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cagatgcgcagaattccagcTcgacgacgacgtcctccctg	10	15	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:138739091T>A	uc003esy.1	-	1	678	c.413A>T	c.(412-414)GAG>GTG	p.E138V		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	138										breast(1)	1						GAATTCCAGCTCGACGACGAC	0.657													53	80	---	---	---	---	PASS	A	138739091	A	A	138739091	3	1	60	1	0	0	0	0	1	0	0	0	12595	1551	54	5	388	5	PRR23B	3	138739091	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	5639394	138739091	59283339	118	23186										
CLSTN2	64084	broad.mit.edu	37	chr3	140281055	140281055	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttggtgatcggaggggactTggacccaaggcaggagtgct	17	7	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:140281055T>A	uc003etn.2	+	13	2307	c.2117T>A	c.(2116-2118)TTG>TAG	p.L706*		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	706	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						GGAGGGGACTTGGACCCAAGG	0.483										HNSCC(16;0.037)			45	90	---	---	---	---	PASS	A	140281055	A	A	140281055	4	1	60	1	0	0	0	0	0	1	0	0	3562	1821	63	5	2167	5	CLSTN2	3	140281055	Nonsense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	1541964	140281055	57741375	119	23187										
TRIM42	287015	broad.mit.edu	37	chr3	140397113	140397113	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgctgtccatgttgtacatgGcagagatgttgtcctcagtt	11	8	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:140397113G>A	uc003eto.1	+	1	233	c.42G>A	c.(40-42)TGG>TGA	p.W14*		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	14	Cys-rich.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						GTTGTACATGGCAGAGATGTT	0.512													134	194	---	---	---	---	PASS	A	140397113	A	A	140397113	4	1	60	1	0	0	0	0	0	1	0	0	16514	1212	42	3	44	3	TRIM42	3	140397113	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	116058	140397113	57625317	120	23188										
TRPC1	7220	broad.mit.edu	37	chr3	142455367	142455367	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgcagcttcttttggactacGgttgtcaggtacaaggctag	12	8	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:142455367G>A	uc003evc.2	+	2	455	c.319G>A	c.(319-321)GGT>AGT	p.G107S	TRPC1_uc003evb.2_Missense_Mutation_p.G107S	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	107	ANK 2.|Cytoplasmic (Potential).				axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						TTTGGACTACGGTTGTCAGGT	0.308													21	250	---	---	---	---	PASS	A	142455367	A	A	142455367	3	1	60	1	0	0	0	0	1	0	0	0	16575	1116	39	1	325	1	TRPC1	3	142455367	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2058254	142455367	55567063	121	23189										
SLC9A9	285195	broad.mit.edu	37	chr3	143297493	143297493	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcgaagattcccaggaaattCcccacagactggaagaatgc	10	11	0	3	rs141404629	byFrequency	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:143297493C>A	uc003evn.2	-	7	1010	c.828G>T	c.(826-828)GGG>GGT	p.G276G	SLC9A9_uc011bnk.1_Silent_p.G150G	NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	276					regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						CCAGGAAATTCCCCACAGACT	0.468													35	84	---	---	---	---	PASS	A	143297493	A	A	143297493	2	1	60	1	0	0	0	0	0	0	0	1	14721	842	30	2		2	SLC9A9	3	143297493	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	842126	143297493	54724937	122	23190										
MED12L	116931	broad.mit.edu	37	chr3	151094642	151094642	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tagaactccagctaatgatcAaacagtgcttgaaggaccct	8	10	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:151094642A>G	uc003eyp.2	+	27	4041	c.4003A>G	c.(4003-4005)AAA>GAA	p.K1335E	MED12L_uc011bnz.1_Missense_Mutation_p.K1195E|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.K498E	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1335					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)			GCTAATGATCAAACAGTGCTT	0.353													32	86	---	---	---	---	PASS	G	151094642	G	G	151094642	3	3	60	1	0	0	0	0	1	0	0	0	9429	131	5	5	4109	5	MED12L	3	151094642	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	7797149	151094642	46927788	123	23191										
PLCH1	23007	broad.mit.edu	37	chr3	155203429	155203429	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atcgcttccgtacataatggGaattgttttctgaagaactg	9	7	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:155203429G>T	uc011bok.1	-	22	2991	c.2714C>A	c.(2713-2715)TCC>TAC	p.S905Y	PLCH1_uc011boj.1_Missense_Mutation_p.S905Y|PLCH1_uc011bol.1_Missense_Mutation_p.S867Y	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	905					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TACATAATGGGAATTGTTTTC	0.458													24	72	---	---	---	---	PASS	T	155203429	T	T	155203429	3	4	60	1	0	0	0	0	1	0	0	0	12037	1174	41	2	2390	2	PLCH1	3	155203429	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	4108787	155203429	42819001	124	23192										
PLCH1	23007	broad.mit.edu	37	chr3	155311743	155311743	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aggatattggtcatgggtccTctgccttttggcaagggagt	14	7	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:155311743T>A	uc011bok.1	-	3	698	c.421A>T	c.(421-423)AGG>TGG	p.R141W	PLCH1_uc011boj.1_Missense_Mutation_p.R141W|PLCH1_uc011bol.1_Missense_Mutation_p.R123W	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	141					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TCATGGGTCCTCTGCCTTTTG	0.493													41	38	---	---	---	---	PASS	A	155311743	A	A	155311743	3	1	60	1	0	0	0	0	1	0	0	0	12037	1550	54	5	4759	5	PLCH1	3	155311743	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	108314	155311743	42710687	125	23193										
LRRIQ4	344657	broad.mit.edu	37	chr3	169540420	169540420	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgccagtgtagccaactgtcGgtgctcgatttatcccacaa	9	12	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:169540420G>C	uc003fgb.2	+	1	711	c.711G>C	c.(709-711)TCG>TCC	p.S237S		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	237	LRR 10.										0						GCCAACTGTCGGTGCTCGATT	0.572													46	76	---	---	---	---	PASS	C	169540420	C	C	169540420	2	2	60	1	0	0	0	0	0	0	0	1	9031	1103	39	4		4	LRRIQ4	3	169540420	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	14228677	169540420	28482010	126	23194										
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atcctctctctgaaatcactGagcaggagaaagattttcta	7	9	4	4	rs104886003		TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			24	62	---	---	---	---	PASS	A	178936091	A	A	178936091	3	1	60	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	9395671	178936091	19086339	127	23195										
USP13	8975	broad.mit.edu	37	chr3	179458136	179458136	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caagatgcccaggaattcttCttgcacctggtgaatctagt	9	10	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr3:179458136C>G	uc003fkh.2	+	11	1437	c.1356C>G	c.(1354-1356)TTC>TTG	p.F452L	USP13_uc003fkf.2_Missense_Mutation_p.F452L	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	452					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			AGGAATTCTTCTTGCACCTGG	0.542													48	103	---	---	---	---	PASS	G	179458136	G	G	179458136	3	3	60	1	0	0	0	0	1	0	0	0	17041	912	32	2	1398	2	USP13	3	179458136	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	522045	179458136	18564294	128	23196										
CPZ	8532	broad.mit.edu	37	chr4	8613819	8613819	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atgatggacaggtcggagaaTaggtgtggaggcaatttcct	15	5	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:8613819T>C	uc003glm.2	+	8	1419	c.1293T>C	c.(1291-1293)AAT>AAC	p.N431N	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Silent_p.N294N|CPZ_uc003glo.2_Silent_p.N420N|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	431					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						GGTCGGAGAATAGGTGTGGAG	0.502													20	18	---	---	---	---	PASS	C	8613819	C	C	8613819	2	2	60	1	0	0	0	0	0	0	0	1	3839	1403	49	5		5	CPZ	4	8613819	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08		8613819	182540457	129	23197										
SLIT2	9353	broad.mit.edu	37	chr4	20598065	20598065	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttctgtgagttttctccaccCatggtcctccctcgtaccag	7	15	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:20598065C>G	uc003gpr.1	+	32	3552	c.3348C>G	c.(3346-3348)CCC>CCG	p.P1116P	SLIT2_uc003gps.1_Silent_p.P1108P	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1116					apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TTTCTCCACCCATGGTCCTCC	0.393													31	35	---	---	---	---	PASS	G	20598065	G	G	20598065	2	3	60	1	0	0	0	0	0	0	0	1	14740	581	21	4		4	SLIT2	4	20598065	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	11984246	20598065	170556211	130	23198										
SHISA3	152573	broad.mit.edu	37	chr4	42403061	42403061	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcccctttctcatcgtcggcTccatcttcattgcgttcatc	5	16	4	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:42403061T>A	uc003gwp.2	+	2	528	c.310T>A	c.(310-312)TCC>ACC	p.S104T		NM_001080505	NP_001073974	A0PJX4	SHSA3_HUMAN	shisa homolog 3 precursor	104	Helical; (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|skin(1)	2						CATCGTCGGCTCCATCTTCAT	0.498													84	75	---	---	---	---	PASS	A	42403061	A	A	42403061	3	1	60	1	0	0	0	0	1	0	0	0	14281	1551	54	5	316	5	SHISA3	4	42403061	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	21804996	42403061	148751215	131	23199										
CWH43	80157	broad.mit.edu	37	chr4	49040053	49040053	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	catatttttacattttttagAgatgacctcgacaggaaact	6	7	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:49040053A>T	uc003gyv.2	+	13	1841	c.1659A>T	c.(1657-1659)GAA>GAT	p.E553D	CWH43_uc011bzl.1_Missense_Mutation_p.E526D	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	553					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						CATTTTTTAGAGATGACCTCG	0.348													97	79	---	---	---	---	PASS	T	49040053	T	T	49040053	3	4	60	1	0	0	0	0	1	0	0	0	4073	318	11	5	1709	5	CWH43	4	49040053	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	6636992	49040053	142114223	132	23200										
SLC4A4	8671	broad.mit.edu	37	chr4	72338609	72338609	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agaagatgatcaagcttgcaGattactaccccatcaactcc	6	12	2	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:72338609G>C	uc003hfy.2	+	14	1942	c.1825G>C	c.(1825-1827)GAT>CAT	p.D609H	SLC4A4_uc010iic.2_Missense_Mutation_p.D609H|SLC4A4_uc010iib.2_Missense_Mutation_p.D609H|SLC4A4_uc003hfz.2_Missense_Mutation_p.D609H|SLC4A4_uc003hgc.3_Missense_Mutation_p.D565H|SLC4A4_uc010iid.2_Intron|SLC4A4_uc003hga.2_Missense_Mutation_p.D487H|SLC4A4_uc003hgb.3_Missense_Mutation_p.D565H	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	609	Extracellular (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			CAAGCTTGCAGATTACTACCC	0.453													67	70	---	---	---	---	PASS	C	72338609	C	C	72338609	3	2	60	1	0	0	0	0	1	0	0	0	14656	942	33	2	1996	2	SLC4A4	4	72338609	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	23298556	72338609	118815667	133	23201										
SEC31A	22872	broad.mit.edu	37	chr4	83778278	83778278	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agcctgagtaattaaaccatCaatgtctgcaacaagaaaat	6	8	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:83778278C>T	uc003hnf.2	-	16	1872	c.1708G>A	c.(1708-1710)GAT>AAT	p.D570N	SEC31A_uc003hne.2_Missense_Mutation_p.D303N|SEC31A_uc011ccl.1_Missense_Mutation_p.D531N|SEC31A_uc003hnl.2_Missense_Mutation_p.D531N|SEC31A_uc003hng.2_Missense_Mutation_p.D570N|SEC31A_uc003hnh.2_Missense_Mutation_p.D570N|SEC31A_uc003hni.2_Missense_Mutation_p.D570N|SEC31A_uc003hnj.2_Missense_Mutation_p.D531N|SEC31A_uc011ccm.1_Missense_Mutation_p.D565N|SEC31A_uc011ccn.1_Missense_Mutation_p.D570N|SEC31A_uc003hnk.2_Missense_Mutation_p.D531N|SEC31A_uc003hnm.2_Missense_Mutation_p.D570N|SEC31A_uc003hnn.1_Missense_Mutation_p.D570N	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	570					COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				ATTAAACCATCAATGTCTGCA	0.343													20	19	---	---	---	---	PASS	T	83778278	T	T	83778278	3	4	60	1	0	0	0	0	1	0	0	0	13998	826	29	2	2002	2	SEC31A	4	83778278	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	11439669	83778278	107375998	134	23202										
PKD2	5311	broad.mit.edu	37	chr4	88973290	88973290	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acaatatagctgctgtcacaGtattttttgtctggattaag	8	6	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:88973290G>T	uc003hre.2	+	7	1762	c.1696G>T	c.(1696-1698)GTA>TTA	p.V566L	PKD2_uc011cdf.1_5'UTR|PKD2_uc011cdg.1_5'UTR|PKD2_uc011cdh.1_5'UTR	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	566	Helical; (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		TGCTGTCACAGTATTTTTTGT	0.308													47	45	---	---	---	---	PASS	T	88973290	T	T	88973290	3	4	60	1	0	0	0	0	1	0	0	0	11966	1029	36	3	1722	3	PKD2	4	88973290	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	5195012	88973290	102180986	135	23203										
PDHA2	5161	broad.mit.edu	37	chr4	96761453	96761453	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggaagagggtccccctgtcaCtacagtgctcactagggcgg	14	12	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:96761453C>A	uc003htr.3	+	1	215	c.152C>A	c.(151-153)ACT>AAT	p.T51N		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	51					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	CCCCCTGTCACTACAGTGCTC	0.478													17	22	---	---	---	---	PASS	A	96761453	A	A	96761453	3	1	60	1	0	0	0	0	1	0	0	0	11665	565	20	3	154	3	PDHA2	4	96761453	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	7788163	96761453	94392823	136	23204										
DAPP1	27071	broad.mit.edu	37	chr4	100784938	100784938	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttatttagtcaccagaaccAattcggatcctagacctaac	5	11	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:100784938A>G	uc003hvf.3	+	7	702	c.612A>G	c.(610-612)CCA>CCG	p.P204P	DAPP1_uc011cek.1_3'UTR|DAPP1_uc010ilh.2_Silent_p.P204P	NM_014395	NP_055210	Q9UN19	DAPP1_HUMAN	dual adaptor of phosphotyrosine and	204	PH.				signal transduction	cytoplasm|plasma membrane	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein tyrosine phosphatase activity				0				OV - Ovarian serous cystadenocarcinoma(123;7.04e-09)		CACCAGAACCAATTCGGATCC	0.323													9	6	---	---	---	---	PASS	G	100784938	G	G	100784938	2	3	60	1	0	0	0	0	0	0	0	1	4239	117	5	5		5	DAPP1	4	100784938	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	4023485	100784938	90369338	137	23205										
FBXW7	55294	broad.mit.edu	37	chr4	153244198	153244198	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aggtttcgaataaattcaccCgttttcaagtcccatagttt	6	9	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:153244198C>G	uc003ims.2	-	12	2108	c.1959G>C	c.(1957-1959)ACG>ACC	p.T653T	FBXW7_uc011cii.1_Silent_p.T653T|FBXW7_uc003imt.2_Silent_p.T653T|FBXW7_uc011cih.1_Silent_p.T477T|FBXW7_uc003imq.2_Silent_p.T573T|FBXW7_uc003imr.2_Silent_p.T535T	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	653	WD 7.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.T653fs*8(1)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TAAATTCACCCGTTTTCAAGT	0.463			Mis|N|D|F		colorectal|endometrial|T-ALL								53	67	---	---	---	---	PASS	G	153244198	G	G	153244198	2	3	60	1	0	0	0	0	0	0	0	1	5769	639	23	4		4	FBXW7	4	153244198	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	52459260	153244198	37910078	138	23206										
FGG	2266	broad.mit.edu	37	chr4	155530895	155530895	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cccgctctgtttagctccctTattggcaatgtcttgacaat	7	12	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:155530895T>A	uc003ioj.2	-	6	694	c.553A>T	c.(553-555)AAG>TAG	p.K185*	FGG_uc003iog.2_Nonsense_Mutation_p.K185*|FGG_uc003ioh.2_Nonsense_Mutation_p.K193*|FGG_uc010ipx.2_Nonsense_Mutation_p.K13*|FGG_uc010ipy.2_5'UTR|FGG_uc003ioi.2_5'UTR|FGG_uc003iok.2_Nonsense_Mutation_p.K193*	NM_021870	NP_068656	P02679	FIBG_HUMAN	fibrinogen, gamma chain isoform gamma-B	185	Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding				0	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	TTAGCTCCCTTATTGGCAATG	0.403													42	43	---	---	---	---	PASS	A	155530895	A	A	155530895	4	1	60	1	0	0	0	0	0	1	0	0	5870	1763	61	5	843	5	FGG	4	155530895	Nonsense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	2286697	155530895	35623381	139	23207										
FSTL5	56884	broad.mit.edu	37	chr4	162376272	162376272	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggcacattcccactggccagGgtaattacctaaagagaaca	9	11	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:162376272G>T	uc003iqh.2	-	15	2161	c.1725C>A	c.(1723-1725)ACC>ACA	p.T575T	FSTL5_uc003iqi.2_Silent_p.T574T|FSTL5_uc010iqv.2_Silent_p.T565T	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	575						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CACTGGCCAGGGTAATTACCT	0.408													24	20	---	---	---	---	PASS	T	162376272	T	T	162376272	2	4	60	1	0	0	0	0	0	0	0	1	6080	1219	43	3		3	FSTL5	4	162376272	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	6845377	162376272	28778004	140	23208										
SPOCK3	50859	broad.mit.edu	37	chr4	167833857	167833857	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcaggtggataatatgggacCcctccactgcctatggtcta	11	11	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:167833857C>A	uc003iri.1	-	6	538	c.397G>T	c.(397-399)GGT>TGT	p.G133C	SPOCK3_uc011cjp.1_Missense_Mutation_p.G130C|SPOCK3_uc011cjq.1_Missense_Mutation_p.G142C|SPOCK3_uc011cjr.1_Missense_Mutation_p.G13C|SPOCK3_uc003irj.1_Missense_Mutation_p.G130C|SPOCK3_uc011cjs.1_Missense_Mutation_p.G82C|SPOCK3_uc011cjt.1_Missense_Mutation_p.G41C|SPOCK3_uc011cju.1_Missense_Mutation_p.G26C|SPOCK3_uc011cjv.1_Intron|SPOCK3_uc003irk.3_Missense_Mutation_p.G130C|SPOCK3_uc011cjw.1_Intron	NM_016950	NP_058646	Q9BQ16	TICN3_HUMAN	testican 3 isoform 2	133	Kazal-like.				signal transduction	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase inhibitor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)		AATATGGGACCCCTCCACTGC	0.398													23	38	---	---	---	---	PASS	A	167833857	A	A	167833857	3	1	60	1	0	0	0	0	1	0	0	0	15080	623	22	3	941	3	SPOCK3	4	167833857	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	5457585	167833857	23320419	141	23209										
TRIML2	205860	broad.mit.edu	37	chr4	189012776	189012776	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aagagccttttcagagggggGaagacccagagagtccactc	13	10	1	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:189012776G>C	uc003izl.2	-	7	951	c.915C>G	c.(913-915)TTC>TTG	p.F305L	TRIML2_uc003izj.1_Missense_Mutation_p.F133L|TRIML2_uc003izk.1_Missense_Mutation_p.F113L|TRIML2_uc011cle.1_Missense_Mutation_p.F380L	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	305	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		TCAGAGGGGGGAAGACCCAGA	0.562													94	102	---	---	---	---	PASS	C	189012776	C	C	189012776	3	2	60	1	0	0	0	0	1	0	0	0	16548	1165	41	2	252	2	TRIML2	4	189012776	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	21178919	189012776	2141500	142	23210										
TRIML2	205860	broad.mit.edu	37	chr4	189012862	189012862	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tctggccgtgctgcccttcgCgtctgcagagccgtggtata	13	13	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr4:189012862C>T	uc003izl.2	-	7	865	c.829G>A	c.(829-831)GCG>ACG	p.A277T	TRIML2_uc003izj.1_Missense_Mutation_p.A105T|TRIML2_uc003izk.1_Missense_Mutation_p.A85T|TRIML2_uc011cle.1_Missense_Mutation_p.A352T	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	277	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		CTGCCCTTCGCGTCTGCAGAG	0.617													89	118	---	---	---	---	PASS	T	189012862	T	T	189012862	3	4	60	1	0	0	0	0	1	0	0	0	16548	768	27	1	338	1	TRIML2	4	189012862	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	86	189012862	2141414	143	23211										
SDHA	6389	broad.mit.edu	37	chr5	231090	231090	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggccttccttgccaggacctAgagtttgttcagttccaccc	9	14	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:231090A>C	uc003jao.3	+	7	985	c.870A>C	c.(868-870)CTA>CTC	p.L290L	SDHA_uc003jan.2_Silent_p.L290L|SDHA_uc011clv.1_Silent_p.L290L|SDHA_uc011clw.1_Silent_p.L242L|SDHA_uc003jap.3_Silent_p.L290L|SDHA_uc003jaq.3_Silent_p.L65L|SDHA_uc003jar.3_5'UTR	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	290					nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	GCCAGGACCTAGAGTTTGTTC	0.592									Familial_Paragangliomas				3	81	---	---	---	---	PASS	C	231090	C	C	231090	2	2	60	1	0	0	0	0	0	0	0	1	13963	407	15	5		5	SDHA	5	231090	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08		231090	180684170	144	23212										
EXOC3	11336	broad.mit.edu	37	chr5	453949	453949	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgacaagatgtggcttgtcCgccacctggaaattataagg	11	9	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:453949C>T	uc003jba.2	+	4	957	c.829C>T	c.(829-831)CGC>TGC	p.R277C		NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein	288					exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			GTGGCTTGTCCGCCACCTGGA	0.473													5	41	---	---	---	---	PASS	T	453949	T	T	453949	3	4	60	1	0	0	0	0	1	0	0	0	5303	652	23	1	839	1	EXOC3	5	453949	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	222859	453949	180461311	145	23213										
SLC12A7	10723	broad.mit.edu	37	chr5	1084028	1084028	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtaggccttgacgcaggcatCgaagctgcgccgtgacagcg	15	12	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:1084028C>G	uc003jbu.2	-	8	1027	c.961G>C	c.(961-963)GAT>CAT	p.D321H		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	321					potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	ACGCAGGCATCGAAGCTGCGC	0.672													17	52	---	---	---	---	PASS	G	1084028	G	G	1084028	3	3	60	1	0	0	0	0	1	0	0	0	14388	884	31	2	2358	2	SLC12A7	5	1084028	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	630079	1084028	179831232	146	23214										
KIAA0947	23379	broad.mit.edu	37	chr5	5462757	5462757	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acacaggcattcgagaggggGgagacgacactgaggtagag	17	7	0	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:5462757G>T	uc003jdm.3	+	13	3532	c.3310G>T	c.(3310-3312)GGA>TGA	p.G1104*		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1104										ovary(1)|central_nervous_system(1)	2						TCGAGAGGGGGGAGACGACAC	0.478													20	54	---	---	---	---	PASS	T	5462757	T	T	5462757	4	4	60	1	0	0	0	0	0	1	0	0	8202	1233	43	3	3360	3	KIAA0947	5	5462757	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	4378729	5462757	175452503	147	23215										
MARCH6	10299	broad.mit.edu	37	chr5	10405769	10405769	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgccaatatataggcatctcCgaagatttattttgtcagtg	8	7	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:10405769C>T	uc003jet.1	+	16	1615	c.1432C>T	c.(1432-1434)CGA>TGA	p.R478*	MARCH6_uc011cmu.1_Nonsense_Mutation_p.R430*|MARCH6_uc003jeu.1_Nonsense_Mutation_p.R176*|MARCH6_uc011cmv.1_Nonsense_Mutation_p.R373*	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	478	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						TAGGCATCTCCGAAGATTTAT	0.338													46	84	---	---	---	---	PASS	T	10405769	T	T	10405769	4	4	60	1	0	0	0	0	0	1	0	0	9305	644	23	1	1494	1	MARCH6	5	10405769	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	4943012	10405769	170509491	148	23216										
CTNND2	1501	broad.mit.edu	37	chr5	11411671	11411671	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cacctgtagaataatcctgtGggtcaagtattcctgattcc	8	10	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:11411671G>T	uc003jfa.1	-	5	561	c.416C>A	c.(415-417)CCA>CAA	p.P139Q	CTNND2_uc010itt.2_Missense_Mutation_p.P48Q|CTNND2_uc011cmy.1_Missense_Mutation_p.P48Q|CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	139					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						ATAATCCTGTGGGTCAAGTAT	0.378													40	96	---	---	---	---	PASS	T	11411671	T	T	11411671	3	4	60	1	0	0	0	0	1	0	0	0	4020	1348	47	3	3333	3	CTNND2	5	11411671	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1005902	11411671	169503589	149	23217										
CDH10	1008	broad.mit.edu	37	chr5	24492935	24492935	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctaaaatttaccttcattatCctgtactgtgaagtttggat	6	7	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:24492935C>A	uc003jgr.1	-	10	1947	c.1615G>T	c.(1615-1617)GAT>TAT	p.D539Y	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	539	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CCTTCATTATCCTGTACTGTG	0.338										HNSCC(23;0.051)			56	149	---	---	---	---	PASS	A	24492935	A	A	24492935	3	1	60	1	0	0	0	0	1	0	0	0	3096	855	30	2	763	2	CDH10	5	24492935	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	13081264	24492935	156422325	150	23218										
CDH10	1008	broad.mit.edu	37	chr5	24593447	24593447	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cacatccaaccacgtttttgAcgatggagaattttgccatc	7	11	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:24593447A>G	uc003jgr.1	-	2	485	c.153T>C	c.(151-153)CGT>CGC	p.R51R	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	51					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CACGTTTTTGACGATGGAGAA	0.393										HNSCC(23;0.051)			60	135	---	---	---	---	PASS	G	24593447	G	G	24593447	2	3	60	1	0	0	0	0	0	0	0	1	3096	262	10	5		5	CDH10	5	24593447	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	100512	24593447	156321813	151	23219										
CDH6	1004	broad.mit.edu	37	chr5	31317884	31317884	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acaacgactacccagttcaaAgcagcactgggacagtgact	9	12	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:31317884A>T	uc003jhe.1	+	11	2061	c.1735A>T	c.(1735-1737)AGC>TGC	p.S579C	CDH6_uc003jhd.1_Missense_Mutation_p.S579C	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	579	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						CCCAGTTCAAAGCAGCACTGG	0.542													20	51	---	---	---	---	PASS	T	31317884	T	T	31317884	3	4	60	1	0	0	0	0	1	0	0	0	3114	72	3	5	1773	5	CDH6	5	31317884	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	6724437	31317884	149597376	152	23220										
ZFR	51663	broad.mit.edu	37	chr5	32390512	32390512	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atgatgttgttcttcctccaTtctcctccagtacatgtcct	5	13	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:32390512T>C	uc003jhr.1	-	12	2091	c.2011A>G	c.(2011-2013)ATG>GTG	p.M671V	ZFR_uc011cny.1_5'Flank	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	671					multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		TCTTCCTCCATTCTCCTCCAG	0.463													40	73	---	---	---	---	PASS	C	32390512	C	C	32390512	3	2	60	1	0	0	0	0	1	0	0	0	17656	1493	52	5	1249	5	ZFR	5	32390512	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	1072628	32390512	148524748	153	23221										
ADAMTS12	81792	broad.mit.edu	37	chr5	33624345	33624345	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgtttattaccagatccttCcttctgcttaaacatctttc	3	11	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:33624345C>G	uc003jia.1	-	14	2297	c.2134G>C	c.(2134-2136)GAA>CAA	p.E712Q	ADAMTS12_uc010iuq.1_Intron	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	712	Spacer 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CCAGATCCTTCCTTCTGCTTA	0.448										HNSCC(64;0.19)			35	81	---	---	---	---	PASS	G	33624345	G	G	33624345	3	3	60	1	0	0	0	0	1	0	0	0	257	864	30	2	2694	2	ADAMTS12	5	33624345	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1233833	33624345	147290915	154	23222										
ADAMTS12	81792	broad.mit.edu	37	chr5	33637810	33637810	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggacgttgcacaagcgatagCgttttctttctccagtgcaa	10	10	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:33637810C>A	uc003jia.1	-	12	1923	c.1760G>T	c.(1759-1761)CGC>CTC	p.R587L	ADAMTS12_uc010iuq.1_Missense_Mutation_p.R587L	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	587	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CAAGCGATAGCGTTTTCTTTC	0.458										HNSCC(64;0.19)			25	62	---	---	---	---	PASS	A	33637810	A	A	33637810	3	1	60	1	0	0	0	0	1	0	0	0	257	768	27	1	3076	1	ADAMTS12	5	33637810	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	13465	33637810	147277450	155	23223										
AMACR	23600	broad.mit.edu	37	chr5	34005954	34005954	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctggcataaataagccttgGattttcccgctgcagaatct	8	11	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:34005954G>T	uc003jig.2	-	2	380	c.298C>A	c.(298-300)CCA>ACA	p.P100T	AMACR_uc003jih.2_Missense_Mutation_p.P100T|AMACR_uc003jii.2_Missense_Mutation_p.P100T|AMACR_uc003jij.2_Missense_Mutation_p.P100T|AMACR_uc003jil.1_Missense_Mutation_p.P100T|AMACR_uc003jik.1_Missense_Mutation_p.P100T	NM_014324	NP_055139	Q9UHK6	AMACR_HUMAN	alpha-methylacyl-CoA racemase isoform 1	100					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	mitochondrion|peroxisomal matrix	alpha-methylacyl-CoA racemase activity				0						ATAAGCCTTGGATTTTCCCGC	0.463													17	97	---	---	---	---	PASS	T	34005954	T	T	34005954	3	4	60	1	0	0	0	0	1	0	0	0	562	1174	41	2	1196	2	AMACR	5	34005954	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	368144	34005954	146909306	156	23224										
WDR70	55100	broad.mit.edu	37	chr5	37605225	37605225	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaaaagtgtgtttaaaccacGgacgatgcaaggcaaaaaag	10	6	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:37605225G>T	uc003jkv.2	+	10	1035	c.977G>T	c.(976-978)CGG>CTG	p.R326L	WDR70_uc010iva.1_Missense_Mutation_p.R326L	NM_018034	NP_060504	Q9NW82	WDR70_HUMAN	WD repeat domain 70	326										ovary(1)|central_nervous_system(1)	2	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TTTAAACCACGGACGATGCAA	0.393													22	38	---	---	---	---	PASS	T	37605225	T	T	37605225	3	4	60	1	0	0	0	0	1	0	0	0	17318	1116	39	1	1015	1	WDR70	5	37605225	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	3599271	37605225	143310035	157	23225										
HEATR7B2	133558	broad.mit.edu	37	chr5	41004890	41004890	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttttaccttgtgaggagcccCggatgctgtgttgccgagcc	13	11	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:41004890C>G	uc003jmj.3	-	36	4487	c.3997G>C	c.(3997-3999)GGG>CGG	p.G1333R	HEATR7B2_uc003jmi.3_Missense_Mutation_p.G888R	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1333							binding			ovary(6)|central_nervous_system(2)	8						TGAGGAGCCCCGGATGCTGTG	0.473													24	56	---	---	---	---	PASS	G	41004890	G	G	41004890	3	3	60	1	0	0	0	0	1	0	0	0	7035	652	23	4	788	4	HEATR7B2	5	41004890	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3399665	41004890	139910370	158	23226										
IL31RA	133396	broad.mit.edu	37	chr5	55185892	55185892	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agaatatgtcatagctctgcGatgtgcggtcaaggagtcaa	12	7	4	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:55185892G>T	uc003jql.2	+	6	766	c.701G>T	c.(700-702)CGA>CTA	p.R234L	IL31RA_uc003jqk.2_Missense_Mutation_p.R234L|IL31RA_uc011cqj.1_Missense_Mutation_p.R92L|IL31RA_uc003jqm.2_Missense_Mutation_p.R202L|IL31RA_uc003jqn.2_Missense_Mutation_p.R234L|IL31RA_uc010iwa.1_Missense_Mutation_p.R202L|IL31RA_uc003jqo.2_Missense_Mutation_p.R92L	NM_139017	NP_620586	Q8NI17	IL31R_HUMAN	gp130-like monocyte receptor	202	Extracellular (Potential).|Fibronectin type-III 2.				anti-apoptosis|defense response|homeostatic process|JAK-STAT cascade|macrophage differentiation|MAPKKK cascade|monocyte differentiation|negative regulation of macrophage activation|positive regulation of cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|plasma membrane	cytokine receptor activity|protein kinase binding|transcription coactivator activity			ovary(1)	1		Lung NSC(810;6.93e-05)|Prostate(74;0.00741)|Breast(144;0.0544)|Ovarian(174;0.223)				ATAGCTCTGCGATGTGCGGTC	0.478													33	75	---	---	---	---	PASS	T	55185892	T	T	55185892	3	4	60	1	0	0	0	0	1	0	0	0	7691	1058	37	2	723	2	IL31RA	5	55185892	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	14181002	55185892	125729368	159	23227										
SV2C	22987	broad.mit.edu	37	chr5	75594629	75594629	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgttgggcagattcatagggGtcaagttcaaatctgtaact	11	6	4	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:75594629G>T	uc003kei.1	+	10	1647	c.1513G>T	c.(1513-1515)GTC>TTC	p.V505F		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	505	Extracellular (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		ATTCATAGGGGTCAAGTTCAA	0.368													48	137	---	---	---	---	PASS	T	75594629	T	T	75594629	3	4	60	1	0	0	0	0	1	0	0	0	15416	1261	44	3	1547	3	SV2C	5	75594629	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	20408737	75594629	105320631	160	23228										
GPR98	84059	broad.mit.edu	37	chr5	90087132	90087132	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggtcaaagatggtgccacatAtaaagtggacgtggtgccaa	13	7	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:90087132A>G	uc003kju.2	+	70	14582	c.14486A>G	c.(14485-14487)TAT>TGT	p.Y4829C	GPR98_uc003kjt.2_Missense_Mutation_p.Y2535C|GPR98_uc003kjw.2_Missense_Mutation_p.Y490C	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	4829	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GGTGCCACATATAAAGTGGAC	0.453													8	12	---	---	---	---	PASS	G	90087132	G	G	90087132	3	3	60	1	0	0	0	0	1	0	0	0	6721	449	16	5	14764	5	GPR98	5	90087132	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	14492503	90087132	90828128	161	23229										
ANKRD32	84250	broad.mit.edu	37	chr5	94024292	94024292	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgtcaaagaaaataggacagCggccttgttttgactctcag	10	8	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:94024292C>T	uc003kkr.3	+	17	2283	c.2203C>T	c.(2203-2205)CGG>TGG	p.R735W	ANKRD32_uc003kks.2_Missense_Mutation_p.R99W	NM_032290	NP_115666	Q9BQI6	ANR32_HUMAN	ankyrin repeat domain 32	735										ovary(2)	2		all_cancers(142;1.51e-09)|all_epithelial(76;4.68e-12)|all_lung(232;5.94e-05)|Ovarian(174;0.000953)|Lung NSC(167;0.00105)|Colorectal(57;0.122)|Lung SC(612;0.152)		all cancers(79;3.88e-18)		AATAGGACAGCGGCCTTGTTT	0.408													51	99	---	---	---	---	PASS	T	94024292	T	T	94024292	3	4	60	1	0	0	0	0	1	0	0	0	660	759	27	1	2265	1	ANKRD32	5	94024292	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3937160	94024292	86890968	162	23230										
MAN2A1	4124	broad.mit.edu	37	chr5	109103254	109103254	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aggagtgaaacctcggtccgGctgggctattgatccctttg	13	10	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:109103254G>T	uc003kou.1	+	6	1817	c.854G>T	c.(853-855)GGC>GTC	p.G285V		NM_002372	NP_002363	Q16706	MA2A1_HUMAN	mannosidase, alpha, class 2A, member 1	285	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(142;8.66e-07)|all_epithelial(76;7.73e-09)|Prostate(80;0.000303)|Lung NSC(167;0.0186)|all_lung(232;0.0241)|Ovarian(225;0.0444)|Colorectal(57;0.0959)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;2.17e-10)|Epithelial(69;1.37e-09)|COAD - Colon adenocarcinoma(37;0.141)		CCTCGGTCCGGCTGGGCTATT	0.383													60	110	---	---	---	---	PASS	T	109103254	T	T	109103254	3	4	60	1	0	0	0	0	1	0	0	0	9214	1203	42	3	876	3	MAN2A1	5	109103254	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	15078962	109103254	71812006	163	23231										
ALDH7A1	501	broad.mit.edu	37	chr5	125894941	125894941	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gatatactcaccagtcgcctCgcagtggtacacctctggcc	9	15	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:125894941C>T	uc003ktx.2	-	11	1191	c.999G>A	c.(997-999)GCG>GCA	p.A333A	ALDH7A1_uc003ktv.2_5'UTR|ALDH7A1_uc003kty.2_RNA|ALDH7A1_uc011cxa.1_Silent_p.A360A	NM_001182	NP_001173	P49419	AL7A1_HUMAN	aldehyde dehydrogenase 7 family, member A1	333					cellular aldehyde metabolic process|lysine catabolic process|sensory perception of sound	cytosol|mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity|betaine-aldehyde dehydrogenase activity|L-aminoadipate-semialdehyde dehydrogenase activity			kidney(2)|ovary(1)	3		all_cancers(142;0.24)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0417)|OV - Ovarian serous cystadenocarcinoma(64;0.068)|all cancers(49;0.109)	NADH(DB00157)|Pyridoxine(DB00165)	CCAGTCGCCTCGCAGTGGTAC	0.478													23	63	---	---	---	---	PASS	T	125894941	T	T	125894941	2	4	60	1	0	0	0	0	0	0	0	1	504	871	31	2		2	ALDH7A1	5	125894941	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	16791687	125894941	55020319	164	23232										
ISOC1	51015	broad.mit.edu	37	chr5	128442721	128442721	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgttgctgatgccacctcatCaagaagcatgatggacagga	11	9	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:128442721C>G	uc003kva.2	+	4	734	c.716C>G	c.(715-717)TCA>TGA	p.S239*		NM_016048	NP_057132	Q96CN7	ISOC1_HUMAN	isochorismatase domain containing 1	239						peroxisome	catalytic activity				0		all_cancers(142;0.0813)|Prostate(80;0.0865)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.138)|OV - Ovarian serous cystadenocarcinoma(64;0.164)		GCCACCTCATCAAGAAGCATG	0.448													30	80	---	---	---	---	PASS	G	128442721	G	G	128442721	4	3	60	1	0	0	0	0	0	1	0	0	7862	838	29	2	730	2	ISOC1	5	128442721	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2547780	128442721	52472539	165	23233										
ADAMTS19	171019	broad.mit.edu	37	chr5	128844853	128844853	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ataacaggtcacccacaccgTgtatataggcagaaaaggtc	9	10	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:128844853T>A	uc003kvb.1	+	3	813	c.813T>A	c.(811-813)CGT>CGA	p.R271R	ADAMTS19_uc003kvc.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	271					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		ACCCACACCGTGTATATAGGC	0.413													43	60	---	---	---	---	PASS	A	128844853	A	A	128844853	2	1	60	1	0	0	0	0	0	0	0	1	264	1683	59	5		5	ADAMTS19	5	128844853	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	402132	128844853	52070407	166	23234										
CHSY3	337876	broad.mit.edu	37	chr5	129243813	129243813	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agatcgctaaacagcagtaaGcctctctacctgggacagac	9	12	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:129243813G>T	uc003kvd.2	+	2	846	c.846G>T	c.(844-846)AAG>AAT	p.K282N		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	282	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		ACAGCAGTAAGCCTCTCTACC	0.433													29	68	---	---	---	---	PASS	T	129243813	T	T	129243813	3	4	60	1	0	0	0	0	1	0	0	0	3413	962	34	3	852	3	CHSY3	5	129243813	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	398960	129243813	51671447	167	23235										
RAD50	10111	broad.mit.edu	37	chr5	131915105	131915105	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaggctgtgctaaataatgtCattttctgtcatcaagaaga	8	6	4	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:131915105C>T	uc003kxi.2	+	4	849	c.462C>T	c.(460-462)GTC>GTT	p.V154V	RAD50_uc003kxg.1_Silent_p.V55V|RAD50_uc003kxh.2_Silent_p.V15V	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	154					DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TAAATAATGTCATTTTCTGTC	0.398								Homologous_recombination					38	86	---	---	---	---	PASS	T	131915105	T	T	131915105	2	4	60	1	0	0	0	0	0	0	0	1	12984	813	29	2		2	RAD50	5	131915105	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	2671292	131915105	49000155	168	23236										
TXNDC15	79770	broad.mit.edu	37	chr5	134232099	134232099	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tggaaacactgaaaatcttcAtttttaatcagacaggtatg	7	6	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:134232099A>T	uc003lac.1	+	4	1529	c.871A>T	c.(871-873)ATT>TTT	p.I291F	TXNDC15_uc010jdy.1_RNA|TXNDC15_uc011cxv.1_RNA	NM_024715	NP_078991	Q96J42	TXD15_HUMAN	disulfide isomerase precursor	291	Extracellular (Potential).|Thioredoxin.				cell redox homeostasis	integral to membrane				ovary(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GAAAATCTTCATTTTTAATCA	0.393													64	144	---	---	---	---	PASS	T	134232099	T	T	134232099	3	4	60	1	0	0	0	0	1	0	0	0	16791	217	8	5	885	5	TXNDC15	5	134232099	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	2316994	134232099	46683161	169	23237										
TRPC7	57113	broad.mit.edu	37	chr5	135583364	135583364	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agagaagctcagcacgacggCtatcgcgtagagcccttccg	12	13	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:135583364C>A	uc003lbn.1	-	6	1639	c.1636G>T	c.(1636-1638)GCC>TCC	p.A546S	TRPC7_uc010jef.1_Missense_Mutation_p.A483S|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.A477S|TRPC7_uc010jei.1_Missense_Mutation_p.A422S|TRPC7_uc010jej.1_Missense_Mutation_p.A98S	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	547	Helical; (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AGCACGACGGCTATCGCGTAG	0.517													51	98	---	---	---	---	PASS	A	135583364	A	A	135583364	3	1	60	1	0	0	0	0	1	0	0	0	16581	797	28	3	973	3	TRPC7	5	135583364	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1351265	135583364	45331896	170	23238										
TRPC7	57113	broad.mit.edu	37	chr5	135651309	135651309	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgacttcatatttaatggcGagtttgatccggctcagact	9	8	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:135651309G>T	uc003lbn.1	-	2	939	c.936C>A	c.(934-936)CTC>CTA	p.L312L	TRPC7_uc010jef.1_Silent_p.L304L|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Intron|TRPC7_uc010jei.1_Intron|TRPC7_uc010jej.1_Intron	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	313	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ATTTAATGGCGAGTTTGATCC	0.512													9	43	---	---	---	---	PASS	T	135651309	T	T	135651309	2	4	60	1	0	0	0	0	0	0	0	1	16581	1045	37	2		2	TRPC7	5	135651309	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	67945	135651309	45263951	171	23239										
BRD8	10902	broad.mit.edu	37	chr5	137506041	137506041	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aggttcagcttaccctggtaTgcagcatctgtagccttcct	9	12	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:137506041T>C	uc003lcf.1	-	7	553	c.498A>G	c.(496-498)GCA>GCG	p.A166A	BRD8_uc003lcc.1_RNA|BRD8_uc003lcg.2_Silent_p.A166A|BRD8_uc003lci.2_Silent_p.A166A|BRD8_uc003lch.2_Silent_p.A26A|BRD8_uc011cym.1_Silent_p.A150A|BRD8_uc010jer.1_Silent_p.A135A|BRD8_uc011cyn.1_Silent_p.A125A|BRD8_uc010jes.1_Silent_p.A33A	NM_139199	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 2	166	Potential.				cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TACCCTGGTATGCAGCATCTG	0.418													61	95	---	---	---	---	PASS	C	137506041	C	C	137506041	2	2	60	1	0	0	0	0	0	0	0	1	1506	1451	51	5		5	BRD8	5	137506041	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	1854732	137506041	43409219	172	23240										
PCDHA6	56142	broad.mit.edu	37	chr5	140207706	140207706	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	accccggaggatagattgggAaagcaatgtctgctcctccc	11	12	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140207706A>T	uc003lho.2	+	1	57	c.30A>T	c.(28-30)GGA>GGT	p.G10G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.G10G|PCDHA6_uc011dab.1_Silent_p.G10G	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	10					homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATAGATTGGGAAAGCAATGTC	0.512													68	136	---	---	---	---	PASS	T	140207706	T	T	140207706	2	4	60	1	0	0	0	0	0	0	0	1	11528	233	9	5		5	PCDHA6	5	140207706	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	2701665	140207706	40707554	173	23241										
PCDHA11	56138	broad.mit.edu	37	chr5	140248759	140248759	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcttctcctcctcgaattctGggaggtggggagcggccagc	15	12	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140248759G>T	uc003lia.2	+	1	929	c.71G>T	c.(70-72)TGG>TTG	p.W24L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.W24L	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	24					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCGAATTCTGGGAGGTGGGG	0.597													57	108	---	---	---	---	PASS	T	140248759	T	T	140248759	3	4	60	1	0	0	0	0	1	0	0	0	11521	1357	47	3	73	3	PCDHA11	5	140248759	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	41053	140248759	40666501	174	23242										
PCDHAC1	56135	broad.mit.edu	37	chr5	140308655	140308655	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cgctctacagaggatctgagGtatggaagtaagatggtttc	13	6	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140308655G>T	uc003lih.2	+	1	2354	c.2178G>T	c.(2176-2178)AGG>AGT	p.R726S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.R726S	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	726	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGATCTGAGGTATGGAAGTA	0.473													43	93	---	---	---	---	PASS	T	140308655	T	T	140308655	3	4	60	1	0	0	0	0	1	0	0	0	11532	1252	44	3	2180	3	PCDHAC1	5	140308655	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	59896	140308655	40606605	175	23243										
PCDHB1	29930	broad.mit.edu	37	chr5	140432759	140432759	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atcttatacccactgcagaaCggcaccttgccctgcaatga	7	14	1	2	rs137984585	by1000genomes	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140432759C>G	uc003lik.1	+	1	1781	c.1704C>G	c.(1702-1704)AAC>AAG	p.N568K		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	568	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACTGCAGAACGGCACCTTGC	0.522													69	127	---	---	---	---	PASS	G	140432759	G	G	140432759	3	3	60	1	0	0	0	0	1	0	0	0	11534	535	19	4	1706	4	PCDHB1	5	140432759	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	124104	140432759	40482501	176	23244										
PCDHB2	56133	broad.mit.edu	37	chr5	140474456	140474456	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttttgctgggcatagctcagGctagttgccagcctaggcac	12	11	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140474456G>T	uc003lil.2	+	1	220	c.82G>T	c.(82-84)GCT>TCT	p.A28S	PCDHB2_uc003lim.1_Intron	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	28					calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CATAGCTCAGGCTAGTTGCCA	0.527													21	93	---	---	---	---	PASS	T	140474456	T	T	140474456	3	4	60	1	0	0	0	0	1	0	0	0	11542	1203	42	3	84	3	PCDHB2	5	140474456	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	41697	140474456	40440804	177	23245										
PCDHB4	56131	broad.mit.edu	37	chr5	140501785	140501785	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cagcccgggtgctgtctgacGatgacaagcagcgtttgcag	14	11	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140501785G>T	uc003lip.1	+	1	205	c.205G>T	c.(205-207)GAT>TAT	p.D69Y		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	69	Cadherin 1.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTGTCTGACGATGACAAGCA	0.572													29	84	---	---	---	---	PASS	T	140501785	T	T	140501785	3	4	60	1	0	0	0	0	1	0	0	0	11544	1058	37	2	207	2	PCDHB4	5	140501785	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	27329	140501785	40413475	178	23246										
PCDHB6	56130	broad.mit.edu	37	chr5	140532060	140532060	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggtggatgtgagcggcaccgGgaccctatcccagagctacc	14	13	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140532060G>T	uc003lir.2	+	1	2222	c.2222G>T	c.(2221-2223)GGG>GTG	p.G741V	PCDHB6_uc011dah.1_Missense_Mutation_p.G605V	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	741	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCGGCACCGGGACCCTATCC	0.612													89	182	---	---	---	---	PASS	T	140532060	T	T	140532060	3	4	60	1	0	0	0	0	1	0	0	0	11546	1232	43	3	2224	3	PCDHB6	5	140532060	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	30275	140532060	40383200	179	23247										
PCDHB7	56129	broad.mit.edu	37	chr5	140554197	140554197	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caaggtggtggcggtggacgGcgactcgggccagaacgcct	18	11	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140554197G>T	uc003lit.2	+	1	1955	c.1781G>T	c.(1780-1782)GGC>GTC	p.G594V		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	594	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCGGTGGACGGCGACTCGGGC	0.711													35	108	---	---	---	---	PASS	T	140554197	T	T	140554197	3	4	60	1	0	0	0	0	1	0	0	0	11547	1203	42	3	1783	3	PCDHB7	5	140554197	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	22137	140554197	40361063	180	23248										
PCDHB8	56128	broad.mit.edu	37	chr5	140559816	140559816	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agtgcctgagggcccctttcCagggcatctggtggacgtga	15	11	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140559816C>T	uc011dai.1	+	1	2387	c.2201C>T	c.(2200-2202)CCA>CTA	p.P734L	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	734	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCCCCTTTCCAGGGCATCTG	0.632													75	151	---	---	---	---	PASS	T	140559816	T	T	140559816	3	4	60	1	0	0	0	0	1	0	0	0	11548	594	21	3	2203	3	PCDHB8	5	140559816	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	5619	140559816	40355444	181	23249										
PCDHB16	57717	broad.mit.edu	37	chr5	140563670	140563670	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atcaacgcagacaacggccaCctgttcgccctcaggtcgct	9	16	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140563670C>T	uc003liv.2	+	1	2691	c.1536C>T	c.(1534-1536)CAC>CAT	p.H512H		NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	512	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACAACGGCCACCTGTTCGCCC	0.692													5	104	---	---	---	---	PASS	T	140563670	T	T	140563670	2	4	60	1	0	0	0	0	0	0	0	1	11541	506	18	3		3	PCDHB16	5	140563670	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	3854	140563670	40351590	182	23250										
PCDHB9	56127	broad.mit.edu	37	chr5	140568859	140568859	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctcctcgctcggccaccgcCacgctgcacgtgctcctggt	10	20	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140568859C>A	uc003liw.1	+	3	1968	c.1968C>A	c.(1966-1968)GCC>GCA	p.A656A		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	656	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGGCCACCGCCACGCTGCACG	0.706													29	77	---	---	---	---	PASS	A	140568859	A	A	140568859	2	1	60	1	0	0	0	0	0	0	0	1	11549	594	21	3		3	PCDHB9	5	140568859	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	5189	140568859	40346401	183	23251										
PCDHB10	56126	broad.mit.edu	37	chr5	140573661	140573661	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atcaacgcggacaacggccaCctgttcgccctcaggtcgct	10	16	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140573661C>T	uc003lix.2	+	1	1710	c.1536C>T	c.(1534-1536)CAC>CAT	p.H512H		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	512	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACAACGGCCACCTGTTCGCCC	0.701													58	220	---	---	---	---	PASS	T	140573661	T	T	140573661	2	4	60	1	0	0	0	0	0	0	0	1	11535	506	18	3		3	PCDHB10	5	140573661	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	4802	140573661	40341599	184	23252										
PCDHB14	56122	broad.mit.edu	37	chr5	140603986	140603986	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atatctggggaagttaatttGagatcacccctggattttga	10	6	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140603986G>C	uc003ljb.2	+	1	909	c.909G>C	c.(907-909)TTG>TTC	p.L303F	PCDHB14_uc011dal.1_Missense_Mutation_p.L150F	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	303	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAGTTAATTTGAGATCACCCC	0.353													34	85	---	---	---	---	PASS	C	140603986	C	C	140603986	3	2	60	1	0	0	0	0	1	0	0	0	11539	1281	45	2	911	2	PCDHB14	5	140603986	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	30325	140603986	40311274	185	23253										
PCDHGB4	8641	broad.mit.edu	37	chr5	140767870	140767870	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cacgcaaaattcctttgagcTgcaaataagtgagtctgcac	8	10	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140767870T>A	uc003lkc.1	+	1	419	c.419T>A	c.(418-420)CTG>CAG	p.L140Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.L140Q	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	140	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCTTTGAGCTGCAAATAAGT	0.438													38	51	---	---	---	---	PASS	A	140767870	A	A	140767870	3	1	60	1	0	0	0	0	1	0	0	0	11565	1580	55	5	421	5	PCDHGB4	5	140767870	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	163884	140767870	40147390	186	23254										
PCDHGB4	8641	broad.mit.edu	37	chr5	140768532	140768532	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttatggaggacgccgagctgGgaacacatattgctttgctc	12	9	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:140768532G>A	uc003lkc.1	+	1	1081	c.1081G>A	c.(1081-1083)GGA>AGA	p.G361R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.G361R	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	361	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCCGAGCTGGGAACACATAT	0.428													35	78	---	---	---	---	PASS	A	140768532	A	A	140768532	3	1	60	1	0	0	0	0	1	0	0	0	11565	1233	43	3	1083	3	PCDHGB4	5	140768532	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	662	140768532	40146728	187	23255										
CCDC69	26112	broad.mit.edu	37	chr5	150578600	150578600	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tccttccaggaccctttgctGctcatccagtctgtctcgaa	7	15	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:150578600G>A	uc003ltq.2	-	4	400	c.277C>T	c.(277-279)CAG>TAG	p.Q93*	CCDC69_uc010jhu.2_5'UTR|CCDC69_uc011dcq.1_RNA	NM_015621	NP_056436	A6NI79	CCD69_HUMAN	coiled-coil domain containing 69	93	Potential.									ovary(2)	2		Medulloblastoma(196;0.091)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACCCTTTGCTGCTCATCCAGT	0.577													73	152	---	---	---	---	PASS	A	150578600	A	A	150578600	4	1	60	1	0	0	0	0	0	1	0	0	2841	1328	46	3	637	3	CCDC69	5	150578600	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	9810068	150578600	30336660	188	23256										
HAVCR1	26762	broad.mit.edu	37	chr5	156479625	156479625	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctcgttcgaacagtcgtgacGgttggaacagttgtgacaat	12	8	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:156479625G>C	uc010jij.1	-	4	605	c.420C>G	c.(418-420)ACC>ACG	p.T140T	HAVCR1_uc011ddl.1_5'UTR|HAVCR1_uc003lwi.2_Silent_p.T140T|HAVCR1_uc011ddm.1_Silent_p.T140T	NM_001099414	NP_001092884	Q96D42	HAVR1_HUMAN	hepatitis A virus cellular receptor 1	140	Extracellular (Potential).|11 X 6 AA approximate tandem repeats of V-P-T-T-T-T].|Thr-rich.|1.				interspecies interaction between organisms	integral to membrane	receptor activity			ovary(1)|skin(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CAGTCGTGACGGTTGGAACAG	0.468													103	269	---	---	---	---	PASS	C	156479625	C	C	156479625	2	2	60	1	0	0	0	0	0	0	0	1	6973	1103	39	4		4	HAVCR1	5	156479625	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	5901025	156479625	24435635	189	23257										
KCNIP1	30820	broad.mit.edu	37	chr5	170148890	170148890	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccttcgacaccactcagacaGgctccgtgaagttcgaggta	10	13	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:170148890G>A	uc003mas.2	+	5	872	c.343G>A	c.(343-345)GGC>AGC	p.G115S	KCNIP1_uc003map.2_Missense_Mutation_p.G113S|KCNIP1_uc003mat.2_Missense_Mutation_p.G104S|KCNIP1_uc010jjp.2_Missense_Mutation_p.G76S|KCNIP1_uc010jjq.2_Missense_Mutation_p.G129S	NM_001034837	NP_001030009	Q9NZI2	KCIP1_HUMAN	Kv channel interacting protein 1 isoform 1	115	EF-hand 2.				detection of calcium ion|signal transduction|synaptic transmission	plasma membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0191)|all_lung(126;0.0297)	Medulloblastoma(196;0.0109)|all_neural(177;0.0177)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CACTCAGACAGGCTCCGTGAA	0.552													44	89	---	---	---	---	PASS	A	170148890	A	A	170148890	3	1	60	1	0	0	0	0	1	0	0	0	8039	1000	35	3	453	3	KCNIP1	5	170148890	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	13669265	170148890	10766370	190	23258										
DOK3	79930	broad.mit.edu	37	chr5	176931438	176931438	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tggacgtgggtggctcaggtCctggtggcatctcccgaagc	16	11	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:176931438C>A	uc003mhk.2	-	6	1042	c.1037G>T	c.(1036-1038)GGA>GTA	p.G346V	DOK3_uc003mhh.3_Intron|DOK3_uc003mhi.3_Intron|DOK3_uc003mhj.3_Intron|DOK3_uc003mhl.2_Missense_Mutation_p.G290V	NM_024872	NP_079148	Q7L591	DOK3_HUMAN	docking protein 3 isoform 1	346	Pro-rich.					cytoplasm|plasma membrane	insulin receptor binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	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)|Epithelial(233;0.191)			TGGCTCAGGTCCTGGTGGCAT	0.711													18	28	---	---	---	---	PASS	A	176931438	A	A	176931438	3	1	60	1	0	0	0	0	1	0	0	0	4698	855	30	2	809	2	DOK3	5	176931438	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	6782548	176931438	3983822	191	23259										
GRM6	2916	broad.mit.edu	37	chr5	178413315	178413315	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgcgggcggcacagaccgcgGccccaggctcagccaccatg	14	17	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr5:178413315G>T	uc003mjr.2	-	8	2119	c.1940C>A	c.(1939-1941)GCC>GAC	p.A647D	GRM6_uc003mjq.2_5'Flank|GRM6_uc010jla.1_Missense_Mutation_p.A230D|GRM6_uc003mjs.1_Missense_Mutation_p.A267D	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	647	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		ACAGACCGCGGCCCCAGGCTC	0.647													13	25	---	---	---	---	PASS	T	178413315	T	T	178413315	3	4	60	1	0	0	0	0	1	0	0	0	6801	1203	42	3	705	3	GRM6	5	178413315	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1481877	178413315	2501945	192	23260										
SYCP2L	221711	broad.mit.edu	37	chr6	10961551	10961551	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttattagactcaataaactaGagcgctttcaaaatttggtt	6	6	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:10961551G>C	uc003mzo.2	+	27	2565	c.2269G>C	c.(2269-2271)GAG>CAG	p.E757Q	SYCP2L_uc010jow.2_Missense_Mutation_p.E377Q	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	757						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			CAATAAACTAGAGCGCTTTCA	0.378													22	37	---	---	---	---	PASS	C	10961551	C	C	10961551	3	2	60	1	0	0	0	0	1	0	0	0	15430	943	33	2	2375	2	SYCP2L	6	10961551	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08		10961551	160153516	193	23261										
HIVEP1	3096	broad.mit.edu	37	chr6	12124109	12124109	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgaatgttcctggatgtcacCgggaaatgaggcgtactgca	13	8	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:12124109C>T	uc003nac.2	+	4	4260	c.4081C>T	c.(4081-4083)CGG>TGG	p.R1361W	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1361					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				TGGATGTCACCGGGAAATGAG	0.433													15	54	---	---	---	---	PASS	T	12124109	T	T	12124109	3	4	60	1	0	0	0	0	1	0	0	0	7186	643	23	1	4091	1	HIVEP1	6	12124109	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1162558	12124109	158990958	194	23262										
PRSS16	10279	broad.mit.edu	37	chr6	27215751	27215751	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gagcctggggccaggtgctgCagccctcccaaaagtggggt	16	12	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:27215751C>A	uc003nja.2	+	2	173	c.161C>A	c.(160-162)GCA>GAA	p.A54E	PRSS16_uc011dkt.1_RNA|PRSS16_uc003njb.2_Missense_Mutation_p.A54E|PRSS16_uc010jqq.1_5'Flank|PRSS16_uc010jqr.1_5'Flank|PRSS16_uc003njc.1_5'Flank	NM_005865	NP_005856	Q9NQE7	TSSP_HUMAN	protease, serine, 16 precursor	54					protein catabolic process|proteolysis	cytoplasmic membrane-bounded vesicle	serine-type peptidase activity			ovary(2)|central_nervous_system(2)|skin(1)	5						CCAGGTGCTGCAGCCCTCCCA	0.642													38	46	---	---	---	---	PASS	A	27215751	A	A	27215751	3	1	60	1	0	0	0	0	1	0	0	0	12616	710	25	3	167	3	PRSS16	6	27215751	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	15091642	27215751	143899316	195	23263										
HIST1H2AK	8330	broad.mit.edu	37	chr6	27805777	27805777	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttttcttaggcagcagcacgGcctggatattgggcaggaca	13	9	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:27805777G>A	uc003njs.2	-	1	341	c.341C>T	c.(340-342)GCC>GTC	p.A114V	HIST1H2BN_uc003njt.1_5'Flank|HIST1H2BN_uc003nju.1_5'Flank|HIST1H2BN_uc003njv.2_5'Flank	NM_003510	NP_003501	P0C0S8	H2A1_HUMAN	histone cluster 1, H2ak	114					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding			upper_aerodigestive_tract(1)	1						CAGCAGCACGGCCTGGATATT	0.577													75	68	---	---	---	---	PASS	A	27805777	A	A	27805777	3	1	60	1	0	0	0	0	1	0	0	0	7137	1203	42	3	55	3	HIST1H2AK	6	27805777	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	590026	27805777	143309290	196	23264										
HIST1H4L	8368	broad.mit.edu	37	chr6	27841217	27841217	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtgatgccctgaatgttgtcGcgcagaactttgcggtggcg	15	9	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:27841217G>A	uc003njz.2	-	1	73	c.72C>T	c.(70-72)CGC>CGT	p.R24R	HIST1H3I_uc003njy.2_5'Flank	NM_003546	NP_003537	P62805	H4_HUMAN	histone cluster 1, H4l	24					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)|breast(1)	2						GAATGTTGTCGCGCAGAACTT	0.483													24	47	---	---	---	---	PASS	A	27841217	A	A	27841217	2	1	60	1	0	0	0	0	0	0	0	1	7176	1074	38	1		1	HIST1H4L	6	27841217	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	35440	27841217	143273850	197	23265										
TRIM10	10107	broad.mit.edu	37	chr6	30121868	30121868	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gacagcgttggtgaaggtcaCccagcccacctcatagtcaa	10	13	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:30121868C>A	uc003npo.3	-	7	1400	c.1324G>T	c.(1324-1326)GTG>TTG	p.V442L	TRIM10_uc003npn.2_Intron	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	442	B30.2/SPRY.					cytoplasm	zinc ion binding				0						GTGAAGGTCACCCAGCCCACC	0.617													16	39	---	---	---	---	PASS	A	30121868	A	A	30121868	3	1	60	1	0	0	0	0	1	0	0	0	16483	507	18	3	213	3	TRIM10	6	30121868	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2280651	30121868	140993199	198	23266										
TRIM26	7726	broad.mit.edu	37	chr6	30166844	30166844	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acagatggagcaggtcacctCctcttccaggctccgtagtg	11	13	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:30166844C>T	uc003npr.2	-	3	246	c.37G>A	c.(37-39)GAG>AAG	p.E13K	TRIM26_uc003nps.2_Missense_Mutation_p.E13K|TRIM26_uc010jry.2_5'UTR|TRIM26_uc003npt.2_Missense_Mutation_p.E13K|TRIM26_uc003npu.1_Missense_Mutation_p.E13K	NM_003449	NP_003440	Q12899	TRI26_HUMAN	tripartite motif-containing 26	13							DNA binding|zinc ion binding			ovary(2)|lung(1)	3						CAGGTCACCTCCTCTTCCAGG	0.587													14	25	---	---	---	---	PASS	T	30166844	T	T	30166844	3	4	60	1	0	0	0	0	1	0	0	0	16497	864	30	2	1610	2	TRIM26	6	30166844	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	44976	30166844	140948223	199	23267										
BAT1	7919	broad.mit.edu	37	chr6	31498659	31498659	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcattctcatcggacacaaaTgtgatagccaagcccttggt	8	11	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:31498659T>A	uc003ntt.2	-	10	1798	c.1167A>T	c.(1165-1167)ACA>ACT	p.T389T	BAT1_uc003ntq.2_Silent_p.T122T|BAT1_uc003ntr.2_Silent_p.T196T|BAT1_uc003nts.2_Missense_Mutation_p.H397L|BAT1_uc011dnn.1_Silent_p.T311T|BAT1_uc003ntu.2_Silent_p.T389T|BAT1_uc003ntv.2_Silent_p.T389T	NM_004640	NP_004631	Q13838	DX39B_HUMAN	HLA-B associated transcript 1	389	Helicase C-terminal.				intronless viral mRNA export from host nucleus|RNA secondary structure unwinding|spliceosome assembly	nuclear speck|spliceosomal complex|transcription export complex	ATP binding|ATP-dependent protein binding|ATP-dependent RNA helicase activity|identical protein binding|U4 snRNA binding|U6 snRNA binding				0						CGGACACAAATGTGATAGCCA	0.527													22	42	---	---	---	---	PASS	A	31498659	A	A	31498659	2	1	60	1	0	0	0	0	0	0	0	1	1318	1451	51	5		5	BAT1	6	31498659	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	1331815	31498659	139616408	200	23268										
DDAH2	23564	broad.mit.edu	37	chr6	31695071	31695071	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gagctgagcccggcgccagcCttctccagttctgagcagga	13	14	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:31695071C>T	uc003nwp.2	-	6	1432	c.801G>A	c.(799-801)AAG>AAA	p.K267K	DDAH2_uc003nwq.2_Silent_p.K267K	NM_013974	NP_039268	O95865	DDAH2_HUMAN	dimethylarginine dimethylaminohydrolase 2	267					anti-apoptosis|arginine catabolic process|citrulline metabolic process|nitric oxide biosynthetic process|nitric oxide mediated signal transduction	cytoplasm	dimethylargininase activity|protein binding				0					L-Citrulline(DB00155)	CGGCGCCAGCCTTCTCCAGTT	0.622													72	106	---	---	---	---	PASS	T	31695071	T	T	31695071	2	4	60	1	0	0	0	0	0	0	0	1	4322	680	24	3		3	DDAH2	6	31695071	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	196412	31695071	139419996	201	23269										
CYP21A2	1589	broad.mit.edu	37	chr6	32007589	32007589	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agaagagggatcacatcgtgGagatgcagctgaggcagcac	15	8	1	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:32007589G>C	uc003nze.1	+	6	833	c.715G>C	c.(715-717)GAG>CAG	p.E239Q	CYP21A2_uc003nzf.1_Missense_Mutation_p.E209Q	NM_000500	NP_000491	P08686	CP21A_HUMAN	cytochrome P450, family 21, subfamily A,	238					glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|steroid 21-monooxygenase activity|steroid binding				0						TCACATCGTGGAGATGCAGCT	0.607													9	28	---	---	---	---	PASS	C	32007589	C	C	32007589	3	2	60	1	0	0	0	0	1	0	0	0	4153	1175	41	2	2258	2	CYP21A2	6	32007589	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	312518	32007589	139107478	202	23270										
PPARD	5467	broad.mit.edu	37	chr6	35392307	35392307	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcagcagcctcttcctcaacGaccaggttacccttctcaag	6	16	4	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:35392307G>C	uc003okm.2	+	7	1138	c.829G>C	c.(829-831)GAC>CAC	p.D277H	PPARD_uc003okl.2_Missense_Mutation_p.D277H|PPARD_uc003okn.2_Missense_Mutation_p.D277H|PPARD_uc011dtb.1_Missense_Mutation_p.D238H|PPARD_uc011dtc.1_Missense_Mutation_p.D179H	NM_006238	NP_006229	Q03181	PPARD_HUMAN	peroxisome proliferative activated receptor,	277	Ligand-binding.				apoptosis|axon ensheathment|cholesterol metabolic process|decidualization|embryo implantation|fatty acid beta-oxidation|fatty acid transport|generation of precursor metabolites and energy|glucose metabolic process|glucose transport|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fat cell differentiation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|linoleic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1					Icosapent(DB00159)|Sulindac(DB00605)|Treprostinil(DB00374)	CTTCCTCAACGACCAGGTTAC	0.602													6	40	---	---	---	---	PASS	C	35392307	C	C	35392307	3	2	60	1	0	0	0	0	1	0	0	0	12298	1058	37	2	864	2	PPARD	6	35392307	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	3384718	35392307	135722760	203	23271										
ABCC10	89845	broad.mit.edu	37	chr6	43414987	43414987	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tggtacttctctcccccaggGctggtgggcttgtcgctgtc	13	13	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:43414987G>T	uc003ouy.1	+	17	3761	c.3546G>T	c.(3544-3546)GGG>GGT	p.G1182G	ABCC10_uc003ouz.1_Silent_p.G1154G|ABCC10_uc010jyo.1_Silent_p.G288G	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	1182	ABC transmembrane type-1 2.|Helical; (Potential).					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CTCCCCCAGGGCTGGTGGGCT	0.617													42	165	---	---	---	---	PASS	T	43414987	T	T	43414987	2	4	60	1	0	0	0	0	0	0	0	1	50	1217	42	3		3	ABCC10	6	43414987	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	8022680	43414987	127700080	204	23272										
AARS2	57505	broad.mit.edu	37	chr6	44273518	44273518	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cagtgacaaggaccaggccaCttcagctttgagaaagaaag	11	9	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:44273518C>T	uc010jza.1	-	10	1309	c.1306G>A	c.(1306-1308)GTG>ATG	p.V436M	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	436					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	GACCAGGCCACTTCAGCTTTG	0.522													79	137	---	---	---	---	PASS	T	44273518	T	T	44273518	3	4	60	1	0	0	0	0	1	0	0	0	20	565	20	3	1703	3	AARS2	6	44273518	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	858531	44273518	126841549	205	23273										
CRISP3	10321	broad.mit.edu	37	chr6	49701449	49701449	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccaaccactgcgttgggagtCtttggccctacaccaaagtc	9	14	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:49701449C>A	uc003ozs.2	-	5	405	c.390G>T	c.(388-390)AAG>AAT	p.K130N		NM_006061	NP_006052	P54108	CRIS3_HUMAN	cysteine-rich secretory protein 3 precursor	130				K -> R (in Ref. 4; BAD97100).	innate immune response	proteinaceous extracellular matrix|specific granule				skin(2)	2	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			CGTTGGGAGTCTTTGGCCCTA	0.403													24	116	---	---	---	---	PASS	A	49701449	A	A	49701449	3	1	60	1	0	0	0	0	1	0	0	0	3881	912	32	2	363	2	CRISP3	6	49701449	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	5427931	49701449	121413618	206	23274										
PKHD1	5314	broad.mit.edu	37	chr6	51524709	51524709	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	accacttggtcagtctgtttGcagatgaatccttgcatcag	9	10	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:51524709G>T	uc003pah.1	-	61	10491	c.10215C>A	c.(10213-10215)TGC>TGA	p.C3405*		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3405	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CAGTCTGTTTGCAGATGAATC	0.353													25	47	---	---	---	---	PASS	T	51524709	T	T	51524709	4	4	60	1	0	0	0	0	0	1	0	0	11971	1311	46	3	2037	3	PKHD1	6	51524709	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1823260	51524709	119590358	207	23275										
COL19A1	1310	broad.mit.edu	37	chr6	70877932	70877932	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctaagggtattccatttaatGaacgaaacggcatgagcagt	10	7	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:70877932G>C	uc003pfc.1	+	38	2578	c.2461G>C	c.(2461-2463)GAA>CAA	p.E821Q		NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	821				GIPFNERN -> VSCSRLKI (in Ref. 6; AAA36358).	cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TCCATTTAATGAACGAAACGG	0.239													36	63	---	---	---	---	PASS	C	70877932	C	C	70877932	3	2	60	1	0	0	0	0	1	0	0	0	3676	1291	45	2	2607	2	COL19A1	6	70877932	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	19353223	70877932	100237135	208	23276										
MANEA	79694	broad.mit.edu	37	chr6	96053844	96053844	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atattcttcaaagtggttttGatggaatttacacatatttt	6	4	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:96053844G>T	uc003poo.1	+	5	1092	c.952G>T	c.(952-954)GAT>TAT	p.D318Y		NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	318	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		AAGTGGTTTTGATGGAATTTA	0.348													10	82	---	---	---	---	PASS	T	96053844	T	T	96053844	3	4	60	1	0	0	0	0	1	0	0	0	9221	1290	45	2	966	2	MANEA	6	96053844	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	25175912	96053844	75061223	209	23277										
POU3F2	5454	broad.mit.edu	37	chr6	99283327	99283327	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cggcttgctctactcgcagcCcagcttcacggtgaacggca	11	15	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:99283327C>A	uc003ppe.2	+	1	748	c.578C>A	c.(577-579)CCC>CAC	p.P193H		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	193					positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)		TACTCGCAGCCCAGCTTCACG	0.736													5	5	---	---	---	---	PASS	A	99283327	A	A	99283327	3	1	60	1	0	0	0	0	1	0	0	0	12275	623	22	3	580	3	POU3F2	6	99283327	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3229483	99283327	71831740	210	23278										
AKD1	221264	broad.mit.edu	37	chr6	109871492	109871492	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aatgcctctttctctccttcAttttatcttcaccctagaaa	2	13	5	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:109871492A>G	uc003ptn.2	-	25	2842	c.2765T>C	c.(2764-2766)ATG>ACG	p.M922T	AKD1_uc011eat.1_Missense_Mutation_p.M1T	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	922					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TCTCTCCTTCATTTTATCTTC	0.358													22	94	---	---	---	---	PASS	G	109871492	G	G	109871492	3	3	60	1	0	0	0	0	1	0	0	0	460	217	8	5	3038	5	AKD1	6	109871492	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	10588165	109871492	61243575	211	23279										
RFX6	222546	broad.mit.edu	37	chr6	117241612	117241612	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cactgaatctggtatctacaCtgaacgtaagtccattctct	6	11	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:117241612C>T	uc003pxm.2	+	12	1385	c.1322C>T	c.(1321-1323)ACT>ATT	p.T441I		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	441					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						GGTATCTACACTGAACGTAAG	0.269													47	89	---	---	---	---	PASS	T	117241612	T	T	117241612	3	4	60	1	0	0	0	0	1	0	0	0	13267	565	20	3	1368	3	RFX6	6	117241612	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	7370120	117241612	53873455	212	23280										
TRDN	10345	broad.mit.edu	37	chr6	123600211	123600211	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tataacatacgtggaggtttAggcttgacttctttgcctag	10	7	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:123600211A>T	uc003pzj.1	-	25	1549	c.1527T>A	c.(1525-1527)CCT>CCA	p.P509P	TRDN_uc010kem.1_Silent_p.P10P	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	509	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		GTGGAGGTTTAGGCTTGACTT	0.244													39	34	---	---	---	---	PASS	T	123600211	T	T	123600211	2	4	60	1	0	0	0	0	0	0	0	1	16465	407	15	5		5	TRDN	6	123600211	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	6358599	123600211	47514856	213	23281										
AKAP7	9465	broad.mit.edu	37	chr6	131481208	131481208	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttttcctctagtcactgatgAacctcaaataaatttgaaga	5	8	3	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:131481208A>T	uc003qck.2	+	3	194	c.161A>T	c.(160-162)GAA>GTA	p.E54V	AKAP7_uc011ebz.1_Missense_Mutation_p.E32V	NM_016377	NP_057461	O43687	AKA7A_HUMAN	A-kinase anchor protein 7 isoform gamma	Error:Variant_position_missing_in_O43687_after_alignment					intracellular signal transduction|ion transport	apical plasma membrane|intracellular|lateral plasma membrane	protein kinase A binding			ovary(2)	2	Breast(56;0.152)			GBM - Glioblastoma multiforme(226;0.0184)|OV - Ovarian serous cystadenocarcinoma(155;0.0345)		GTCACTGATGAACCTCAAATA	0.294													20	47	---	---	---	---	PASS	T	131481208	T	T	131481208	3	4	60	1	0	0	0	0	1	0	0	0	456	246	9	5	101	5	AKAP7	6	131481208	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	7880997	131481208	39633859	214	23282										
UTRN	7402	broad.mit.edu	37	chr6	144898392	144898392	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agaatgctcttcaggatagtAtcttggccagggaactcaaa	10	8	4	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:144898392A>G	uc003qkt.2	+	50	7539	c.7447A>G	c.(7447-7449)ATC>GTC	p.I2483V		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	2483	Spectrin 17.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TCAGGATAGTATCTTGGCCAG	0.493													20	26	---	---	---	---	PASS	G	144898392	G	G	144898392	3	3	60	1	0	0	0	0	1	0	0	0	17100	449	16	5	7645	5	UTRN	6	144898392	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	13417184	144898392	26216675	215	23283										
SHPRH	257218	broad.mit.edu	37	chr6	146275940	146275940	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gatgactccaccagaataccCttgtcacaaatactcatcgg	6	13	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:146275940C>A	uc003qlf.2	-	2	918	c.519G>T	c.(517-519)AAG>AAT	p.K173N	SHPRH_uc003qld.2_Missense_Mutation_p.K173N|SHPRH_uc003qle.2_Missense_Mutation_p.K173N|SHPRH_uc003qlg.1_Translation_Start_Site|SHPRH_uc003qlj.1_Missense_Mutation_p.K62N|SHPRH_uc003qlk.1_Missense_Mutation_p.K173N	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	173					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		CCAGAATACCCTTGTCACAAA	0.373													38	61	---	---	---	---	PASS	A	146275940	A	A	146275940	3	1	60	1	0	0	0	0	1	0	0	0	14291	680	24	3	4692	3	SHPRH	6	146275940	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1377548	146275940	24839127	216	23284										
TFB1M	51106	broad.mit.edu	37	chr6	155606408	155606408	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcttcctgtattggctgcaaGtctctagagagagacaaaaa	10	8	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:155606408G>A	uc003qqj.3	-	5	614	c.550C>T	c.(550-552)CTT>TTT	p.L184F	TFB1M_uc003qqk.2_Intron	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	184					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		TTGGCTGCAAGTCTCTAGAGA	0.408													5	26	---	---	---	---	PASS	A	155606408	A	A	155606408	3	1	60	1	0	0	0	0	1	0	0	0	15790	1029	36	3	502	3	TFB1M	6	155606408	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	9330468	155606408	15508659	217	23285										
LPA	4018	broad.mit.edu	37	chr6	161022046	161022046	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	catcgtgtcaggttgcagtaCtcccacctgacactgggatc	10	13	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:161022046C>T	uc003qtl.2	-	20	3150	c.3030G>A	c.(3028-3030)GAG>GAA	p.E1010E		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3518	Kringle 31.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	GGTTGCAGTACTCCCACCTGA	0.488													37	58	---	---	---	---	PASS	T	161022046	T	T	161022046	2	4	60	1	0	0	0	0	0	0	0	1	8903	564	20	3		3	LPA	6	161022046	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	5415638	161022046	10093021	218	23286										
LPA	4018	broad.mit.edu	37	chr6	161071443	161071443	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccaagcttggcaggtccttcCtgtgacagtggtggagtacg	14	10	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr6:161071443C>A	uc003qtl.2	-	3	256	c.136G>T	c.(136-138)GGA>TGA	p.G46*		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	2554	Kringle 23.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	CAGGTCCTTCCTGTGACAGTG	0.448													86	133	---	---	---	---	PASS	A	161071443	A	A	161071443	4	1	60	1	0	0	0	0	0	1	0	0	8903	690	24	3	6138	3	LPA	6	161071443	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	49397	161071443	10043624	219	23287										
SDK1	221935	broad.mit.edu	37	chr7	4188935	4188935	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agctcctggtgccccaggcaGaagtgaccgcacgcagcctc	12	16	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:4188935G>T	uc003smx.2	+	30	4604	c.4465G>T	c.(4465-4467)GAA>TAA	p.E1489*	SDK1_uc010kso.2_Nonsense_Mutation_p.E765*|SDK1_uc003smy.2_5'UTR	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1489	Fibronectin type-III 9.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GCCCCAGGCAGAAGTGACCGC	0.672													10	32	---	---	---	---	PASS	T	4188935	T	T	4188935	4	4	60	1	0	0	0	0	0	1	0	0	13968	943	33	2	4583	2	SDK1	7	4188935	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08		4188935	154949728	220	23288										
ETV1	2115	broad.mit.edu	37	chr7	13950876	13950876	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caacttaacttctgttctgcTgggatgagccaggaagcctt	10	10	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:13950876T>A	uc011jxq.1	-	10	1598	c.859A>T	c.(859-861)AGC>TGC	p.S287C	ETV1_uc011jxn.1_Missense_Mutation_p.S247C|ETV1_uc011jxo.1_Missense_Mutation_p.S184C|ETV1_uc011jxp.1_Missense_Mutation_p.S229C|ETV1_uc003ssw.3_Intron|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Missense_Mutation_p.S269C|ETV1_uc011jxs.1_Missense_Mutation_p.S269C|ETV1_uc010ktv.2_Missense_Mutation_p.S156C	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	287				Missing (in Ref. 5; AAC62435).	transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						TCTGTTCTGCTGGGATGAGCC	0.398			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								12	29	---	---	---	---	PASS	A	13950876	A	A	13950876	3	1	60	1	0	0	0	0	1	0	0	0	5277	1580	55	5	594	5	ETV1	7	13950876	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	9761941	13950876	145187787	221	23289										
ETV1	2115	broad.mit.edu	37	chr7	13971314	13971314	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tggtacataggacgtccttcCcttggcatcgtcggcaaagg	12	11	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:13971314C>T	uc011jxq.1	-	9	1354	c.615G>A	c.(613-615)AGG>AGA	p.R205R	ETV1_uc011jxn.1_Silent_p.R165R|ETV1_uc011jxo.1_Silent_p.R102R|ETV1_uc011jxp.1_Silent_p.R147R|ETV1_uc003ssw.3_Silent_p.R205R|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Silent_p.R187R|ETV1_uc011jxs.1_Silent_p.R187R|ETV1_uc010ktv.2_Silent_p.R74R	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	205					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						GACGTCCTTCCCTTGGCATCG	0.502			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								31	42	---	---	---	---	PASS	T	13971314	T	T	13971314	2	4	60	1	0	0	0	0	0	0	0	1	5277	622	22	3		3	ETV1	7	13971314	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	20438	13971314	145167349	222	23290										
IGF2BP3	10643	broad.mit.edu	37	chr7	23391040	23391040	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaatcacatggtttctgcttGgatacggatcctggagaccc	10	10	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:23391040G>T	uc003swg.2	-	6	833	c.567C>A	c.(565-567)TCC>TCA	p.S189S		NM_006547	NP_006538	O00425	IF2B3_HUMAN	insulin-like growth factor 2 mRNA binding	189					anatomical structure morphogenesis|negative regulation of translation|translation	cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			ovary(2)	2						GTTTCTGCTTGGATACGGATC	0.582													31	66	---	---	---	---	PASS	T	23391040	T	T	23391040	2	4	60	1	0	0	0	0	0	0	0	1	7575	1335	47	3		3	IGF2BP3	7	23391040	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	9419726	23391040	135747623	223	23291										
CREB5	9586	broad.mit.edu	37	chr7	28527826	28527826	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccaagatgaatttggagcagGagaggccgtttgtctgcagt	14	7	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:28527826G>C	uc003szq.2	+	2	427	c.37G>C	c.(37-39)GAG>CAG	p.E13Q	CREB5_uc003szo.2_Intron|CREB5_uc003szr.2_Missense_Mutation_p.E6Q	NM_182898	NP_878901	Q02930	CREB5_HUMAN	cAMP responsive element binding protein 5	13					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						TTTGGAGCAGGAGAGGCCGTT	0.512													34	78	---	---	---	---	PASS	C	28527826	C	C	28527826	3	2	60	1	0	0	0	0	1	0	0	0	3860	1175	41	2	43	2	CREB5	7	28527826	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	5136786	28527826	130610837	224	23292										
NOD1	10392	broad.mit.edu	37	chr7	30469038	30469038	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtaacgcatctgccagctggGcagtccccttagctgtgatc	11	13	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:30469038G>T	uc003tav.2	-	13	3264	c.2741C>A	c.(2740-2742)GCC>GAC	p.A914D		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	914	LRR 8.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						TGCCAGCTGGGCAGTCCCCTT	0.378													87	249	---	---	---	---	PASS	T	30469038	T	T	30469038	3	4	60	1	0	0	0	0	1	0	0	0	10516	1203	42	3	128	3	NOD1	7	30469038	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1941212	30469038	128669625	225	23293										
ADCYAP1R1	117	broad.mit.edu	37	chr7	31124405	31124405	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acggttggctacagcacatcCctcgtcaccctcaccactgc	7	18	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:31124405C>G	uc003tca.1	+	8	715	c.492C>G	c.(490-492)TCC>TCG	p.S164S	ADCYAP1R1_uc003tcb.1_Silent_p.S143S|ADCYAP1R1_uc003tcc.1_Silent_p.S164S|ADCYAP1R1_uc003tcd.1_Silent_p.S164S|ADCYAP1R1_uc003tce.1_Silent_p.S164S|ADCYAP1R1_uc003tcf.1_5'Flank	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	164	Helical; Name=1; (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						ACAGCACATCCCTCGTCACCC	0.562													43	85	---	---	---	---	PASS	G	31124405	G	G	31124405	2	3	60	1	0	0	0	0	0	0	0	1	303	610	22	4		4	ADCYAP1R1	7	31124405	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	655367	31124405	128014258	226	23294										
HECW1	23072	broad.mit.edu	37	chr7	43400557	43400557	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agcaaccacccccagtgtcaCggtcaaaaactcggcagctc	8	16	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:43400557C>A	uc003tid.1	+	6	1138	c.533C>A	c.(532-534)ACG>AAG	p.T178K	HECW1_uc011kbi.1_Missense_Mutation_p.T178K|HECW1_uc003tie.1_Missense_Mutation_p.T210K	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	178					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CCCAGTGTCACGGTCAAAAAC	0.428													34	77	---	---	---	---	PASS	A	43400557	A	A	43400557	3	1	60	1	0	0	0	0	1	0	0	0	7042	536	19	1	547	1	HECW1	7	43400557	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	12276152	43400557	115738106	227	23295										
NPC1L1	29881	broad.mit.edu	37	chr7	44576449	44576449	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cacttagcttacctttgtacCccccaatggcaaggaagggg	10	12	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:44576449C>A	uc003tlb.2	-	3	1729	c.1673G>T	c.(1672-1674)GGG>GTG	p.G558V	NPC1L1_uc003tlc.2_Missense_Mutation_p.G558V|NPC1L1_uc011kbw.1_Missense_Mutation_p.G558V|NPC1L1_uc003tld.2_Missense_Mutation_p.G558V	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	558	Extracellular (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	ACCTTTGTACCCCCCAATGGC	0.607													27	77	---	---	---	---	PASS	A	44576449	A	A	44576449	3	1	60	1	0	0	0	0	1	0	0	0	10571	623	22	3	2478	3	NPC1L1	7	44576449	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1175892	44576449	114562214	228	23296										
CCT6A	908	broad.mit.edu	37	chr7	56127249	56127249	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tatttcaggctgactcttgcTtgtggtggggtagccctgaa	13	8	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:56127249T>A	uc003trl.1	+	9	1145	c.981T>A	c.(979-981)GCT>GCA	p.A327A	PSPH_uc003trj.2_Intron|CCT6A_uc003trm.1_Silent_p.A282A|CCT6A_uc011kcu.1_Silent_p.A296A|SNORA15_uc003trn.1_5'Flank	NM_001762	NP_001753	P40227	TCPZ_HUMAN	chaperonin containing TCP1, subunit 6A isoform	327					'de novo' posttranslational protein folding	cytosol	ATP binding|unfolded protein binding			upper_aerodigestive_tract(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TGACTCTTGCTTGTGGTGGGG	0.388													35	67	---	---	---	---	PASS	A	56127249	A	A	56127249	2	1	60	1	0	0	0	0	0	0	0	1	2957	1596	56	5		5	CCT6A	7	56127249	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	11550800	56127249	103011414	229	23297										
CCL24	6369	broad.mit.edu	37	chr7	75442680	75442680	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agctggtagctgaccactcgGttctcaggaattctcttgga	11	10	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:75442680G>A	uc011kga.1	-	2	135	c.135C>T	c.(133-135)AAC>AAT	p.N45N		NM_002991	NP_002982	O00175	CCL24_HUMAN	small inducible cytokine A24 precursor	45					cell-cell signaling|chemotaxis|immune response|inflammatory response|positive regulation of actin filament polymerization|positive regulation of cell migration|positive regulation of endothelial cell proliferation|positive regulation of Rac GTPase activity|signal transduction	extracellular space	chemokine activity				0						TGACCACTCGGTTCTCAGGAA	0.557													24	77	---	---	---	---	PASS	A	75442680	A	A	75442680	2	1	60	1	0	0	0	0	0	0	0	1	2896	1252	44	3		3	CCL24	7	75442680	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	19315431	75442680	83695983	230	23298										
STYXL1	51657	broad.mit.edu	37	chr7	75651307	75651307	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cgggagaagatattcattatTtttcttaaaaaaaaaaacac	5	5	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:75651307T>C	uc003uej.3	-	4	342	c.169A>G	c.(169-171)AAT>GAT	p.N57D	STYXL1_uc011kgf.1_5'UTR|STYXL1_uc011kgg.1_5'UTR|STYXL1_uc003ueh.2_5'UTR|STYXL1_uc003uek.3_Intron|STYXL1_uc003uel.2_Missense_Mutation_p.N57D|STYXL1_uc003uem.2_Missense_Mutation_p.N57D|STYXL1_uc010ldg.1_RNA|STYXL1_uc010ldh.1_Missense_Mutation_p.N57D|STYXL1_uc003uen.1_Missense_Mutation_p.N57D	NM_016086	NP_057170	Q9Y6J8	STYL1_HUMAN	map kinase phosphatase-like protein MK-STYX	57	Rhodanese.				intracellular signal transduction|protein dephosphorylation	intracellular	protein binding|protein tyrosine/serine/threonine phosphatase activity				0						TATTCATTATTTTTCTTAAAA	0.468													39	56	---	---	---	---	PASS	C	75651307	C	C	75651307	3	2	60	1	0	0	0	0	1	0	0	0	15360	1841	64	5	796	5	STYXL1	7	75651307	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	208627	75651307	83487356	231	23299										
GNAT3	346562	broad.mit.edu	37	chr7	80141170	80141170	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgcatctcgctcagcatcctCctgaagctttttctccagtt	6	14	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:80141170C>T	uc011kgu.1	-	1	73	c.73G>A	c.(73-75)GAG>AAG	p.E25K	CD36_uc003uhc.2_Intron	NM_001102386	NP_001095856	A8MTJ3	GNAT3_HUMAN	guanine nucleotide binding protein, alpha	25					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction|sensory perception of sweet taste|sensory perception of umami taste	cytoplasm|heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						TCAGCATCCTCCTGAAGCTTT	0.388													9	27	---	---	---	---	PASS	T	80141170	T	T	80141170	3	4	60	1	0	0	0	0	1	0	0	0	6513	864	30	2	1021	2	GNAT3	7	80141170	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	4489863	80141170	78997493	232	23300										
GRM3	2913	broad.mit.edu	37	chr7	86415633	86415633	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atcagctacgcatccaccagCgccaaactcagtgataagtc	7	14	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:86415633C>T	uc003uid.2	+	3	1624	c.525C>T	c.(523-525)AGC>AGT	p.S175S	GRM3_uc010lef.2_Silent_p.S173S|GRM3_uc010leg.2_Silent_p.S47S|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	175	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	CATCCACCAGCGCCAAACTCA	0.552													76	149	---	---	---	---	PASS	T	86415633	T	T	86415633	2	4	60	1	0	0	0	0	0	0	0	1	6798	767	27	1		1	GRM3	7	86415633	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	6274463	86415633	72723030	233	23301										
DYNC1I1	1780	broad.mit.edu	37	chr7	95499272	95499272	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggaagtagtgtcctactcaaAggagacccagactcctcttg	10	11	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:95499272A>G	uc003uoc.3	+	6	780	c.503A>G	c.(502-504)AAG>AGG	p.K168R	DYNC1I1_uc003uod.3_Missense_Mutation_p.K151R|DYNC1I1_uc003uob.2_Missense_Mutation_p.K131R|DYNC1I1_uc003uoe.3_Missense_Mutation_p.K148R|DYNC1I1_uc010lfl.2_Missense_Mutation_p.K157R	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	168					vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			TCCTACTCAAAGGAGACCCAG	0.438													50	77	---	---	---	---	PASS	G	95499272	G	G	95499272	3	3	60	1	0	0	0	0	1	0	0	0	4842	72	3	5	521	5	DYNC1I1	7	95499272	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	9083639	95499272	63639391	234	23302										
C7orf51	222950	broad.mit.edu	37	chr7	100084641	100084641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctctcctgccactcggtggGcagcatggacagtgtcgggg	15	13	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:100084641G>T	uc003uvd.1	+	3	425	c.266G>T	c.(265-267)GGC>GTC	p.G89V	C7orf51_uc003uve.1_5'Flank	NM_173564	NP_775835	Q6ZVC0	CG051_HUMAN	hypothetical protein FLJ37538	89										skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CACTCGGTGGGCAGCATGGAC	0.711													9	20	---	---	---	---	PASS	T	100084641	T	T	100084641	3	4	60	1	0	0	0	0	1	0	0	0	2400	1203	42	3	272	3	C7orf51	7	100084641	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	4585369	100084641	59054022	235	23303										
MOSPD3	64598	broad.mit.edu	37	chr7	100211278	100211278	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agccagatccagcgcctcgcCcagggcctcctgctgggaca	12	17	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:100211278C>T	uc003uvq.2	+	4	662	c.460C>T	c.(460-462)CCA>TCA	p.P154S	MOSPD3_uc003uvr.2_Missense_Mutation_p.P154S|MOSPD3_uc003uvs.2_Missense_Mutation_p.P154S|MOSPD3_uc003uvt.2_Missense_Mutation_p.P144S	NM_001040097	NP_001035186	O75425	MSPD3_HUMAN	motile sperm domain containing 3 isoform a	154						integral to membrane	structural molecule activity			ovary(2)	2	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					AGCGCCTCGCCCAGGGCCTCC	0.622													26	64	---	---	---	---	PASS	T	100211278	T	T	100211278	3	4	60	1	0	0	0	0	1	0	0	0	9717	623	22	3	470	3	MOSPD3	7	100211278	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	126637	100211278	58927385	236	23304										
MUC17	140453	broad.mit.edu	37	chr7	100677337	100677337	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	accacactggtggccacttcTgcaatcagcaccctttcaac	6	16	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:100677337T>G	uc003uxp.1	+	3	2693	c.2640T>G	c.(2638-2640)TCT>TCG	p.S880S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	880	Extracellular (Potential).|12.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TGGCCACTTCTGCAATCAGCA	0.493													182	264	---	---	---	---	PASS	G	100677337	G	G	100677337	2	3	60	1	0	0	0	0	0	0	0	1	9974	1567	55	5		5	MUC17	7	100677337	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	466059	100677337	58461326	237	23305										
FBXL13	222235	broad.mit.edu	37	chr7	102517978	102517978	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaaagatgtttacaatatatCcaattccttgggcagtcaaa	6	7	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:102517978C>T	uc003vaq.2	-	16	1998	c.1571G>A	c.(1570-1572)GGA>GAA	p.G524E	FBXL13_uc010liq.1_Intron|FBXL13_uc010lir.1_Missense_Mutation_p.G524E|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Missense_Mutation_p.G524E	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	524	LRR 12.										0						TACAATATATCCAATTCCTTG	0.318													51	86	---	---	---	---	PASS	T	102517978	T	T	102517978	3	4	60	1	0	0	0	0	1	0	0	0	5709	855	30	2	656	2	FBXL13	7	102517978	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1840641	102517978	56620685	238	23306										
RELN	5649	broad.mit.edu	37	chr7	103137095	103137095	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttccattgctgatcacaaaaGgctgccaccagcgaagtcga	9	12	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:103137095G>A	uc003vca.2	-	56	9231	c.9071C>T	c.(9070-9072)CCT>CTT	p.P3024L	RELN_uc010liz.2_Missense_Mutation_p.P3024L	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3024					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		GATCACAAAAGGCTGCCACCA	0.478													31	92	---	---	---	---	PASS	A	103137095	A	A	103137095	3	1	60	1	0	0	0	0	1	0	0	0	13220	1000	35	3	1351	3	RELN	7	103137095	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	619117	103137095	56001568	239	23307										
RELN	5649	broad.mit.edu	37	chr7	103143641	103143641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgcacatgaatttgattctGggcaattttttcagacacct	7	9	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:103143641G>T	uc003vca.2	-	52	8471	c.8311C>A	c.(8311-8313)CAG>AAG	p.Q2771K	RELN_uc010liz.2_Missense_Mutation_p.Q2771K	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2771					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		ATTTGATTCTGGGCAATTTTT	0.388													26	59	---	---	---	---	PASS	T	103143641	T	T	103143641	3	4	60	1	0	0	0	0	1	0	0	0	13220	1357	47	3	2127	3	RELN	7	103143641	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	6546	103143641	55995022	240	23308										
RELN	5649	broad.mit.edu	37	chr7	103194108	103194108	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttagattcttaatacttacgGtgccccctttgaagaatatg	7	8	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:103194108G>C	uc003vca.2	-	39	6128	c.5968C>G	c.(5968-5970)CCT>GCT	p.P1990A	RELN_uc010liz.2_Missense_Mutation_p.P1990A	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1990					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		AATACTTACGGTGCCCCCTTT	0.378													16	45	---	---	---	---	PASS	C	103194108	C	C	103194108	3	2	60	1	0	0	0	0	1	0	0	0	13220	1275	44	4	4522	4	RELN	7	103194108	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	50467	103194108	55944555	241	23309										
RELN	5649	broad.mit.edu	37	chr7	103205999	103205999	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctcagcataacgaggttttcCtgaaaaaaaaaaatgtgtaa	7	6	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:103205999C>A	uc003vca.2	-	34	5097	c.4937_splice	c.e34-1	p.G1646_splice	RELN_uc010liz.2_Splice_Site_p.G1646_splice	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a						axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CGAGGTTTTCCTGAAAAAAAA	0.363													17	22	---	---	---	---	PASS	A	103205999	A	A	103205999	5	1	60	1	0	0	0	0	0	0	1	0	13220	695	24	3	5574	3	RELN	7	103205999	Splice_Site	SNP	C	TCGA-33-4583-01A-01D-1441-08	11891	103205999	55932664	242	23310										
RELN	5649	broad.mit.edu	37	chr7	103322621	103322621	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgaatatcttctgtggaaaGatctacatccctggtggtgg	11	7	3	2	rs144978163		TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:103322621G>A	uc003vca.2	-	11	1391	c.1231C>T	c.(1231-1233)CTT>TTT	p.L411F	RELN_uc010liz.2_Missense_Mutation_p.L411F	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	411					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TCTGTGGAAAGATCTACATCC	0.433													7	147	---	---	---	---	PASS	A	103322621	A	A	103322621	3	1	60	1	0	0	0	0	1	0	0	0	13220	942	33	2	9371	2	RELN	7	103322621	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	116622	103322621	55816042	243	23311										
SRPK2	6733	broad.mit.edu	37	chr7	104809643	104809643	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agacagtagagaagtgccccCatccaagctttctaataaca	7	11	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:104809643C>A	uc003vct.2	-	3	453	c.266G>T	c.(265-267)TGG>TTG	p.W89L	SRPK2_uc003vcu.2_Missense_Mutation_p.W89L|SRPK2_uc003vcv.2_Missense_Mutation_p.W100L|SRPK2_uc003vcw.1_Missense_Mutation_p.W89L	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	89	Protein kinase.|ATP (By similarity).				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						GAAGTGCCCCCATCCAAGCTT	0.393													43	77	---	---	---	---	PASS	A	104809643	A	A	104809643	3	1	60	1	0	0	0	0	1	0	0	0	15159	595	21	3	1852	3	SRPK2	7	104809643	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1487022	104809643	54329020	244	23312										
PRKAR2B	5577	broad.mit.edu	37	chr7	106786783	106786783	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gatatttatgtgaaatgtgaTggtgttggaagatgtgttgg	15	0	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:106786783T>C	uc003vdx.2	+	6	793	c.618T>C	c.(616-618)GAT>GAC	p.D206D		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	206	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						TGAAATGTGATGGTGTTGGAA	0.353													23	98	---	---	---	---	PASS	C	106786783	C	C	106786783	2	2	60	1	0	0	0	0	0	0	0	1	12506	1461	51	5		5	PRKAR2B	7	106786783	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	1977140	106786783	52351880	245	23313										
DLD	1738	broad.mit.edu	37	chr7	107545940	107545940	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcagaagttactccttttccTggaatcacggtatttatgct	7	9	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:107545940T>A	uc003vet.2	+	7	683	c.573T>A	c.(571-573)CCT>CCA	p.P191P	DLD_uc010ljm.1_RNA|DLD_uc011kmg.1_Intron|DLD_uc011kmh.1_Silent_p.P168P|DLD_uc011kmi.1_Silent_p.P92P	NM_000108	NP_000099	P09622	DLDH_HUMAN	dihydrolipoamide dehydrogenase precursor	191					branched chain family amino acid catabolic process|cell redox homeostasis|lysine catabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	dihydrolipoyl dehydrogenase activity			central_nervous_system(1)	1					NADH(DB00157)	CTCCTTTTCCTGGAATCACGG	0.348													32	118	---	---	---	---	PASS	A	107545940	A	A	107545940	2	1	60	1	0	0	0	0	0	0	0	1	4551	1567	55	5		5	DLD	7	107545940	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	759157	107545940	51592723	246	23314										
DOCK4	9732	broad.mit.edu	37	chr7	111430512	111430512	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgaggagcacttctgcctaCctgtttaaagttgccactcc	8	13	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:111430512C>T	uc003vfx.2	-	31	3584	c.3315_splice	c.e31+1	p.Q1105_splice	DOCK4_uc011kmm.1_5'Flank|DOCK4_uc003vfw.2_Splice_Site_p.Q546_splice|DOCK4_uc003vfy.2_Splice_Site_p.Q1141_splice	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4						cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				CTTCTGCCTACCTGTTTAAAG	0.468													17	32	---	---	---	---	PASS	T	111430512	T	T	111430512	5	4	60	1	0	0	0	0	0	0	1	0	4689	521	18	3	2672	3	DOCK4	7	111430512	Splice_Site	SNP	C	TCGA-33-4583-01A-01D-1441-08	3884572	111430512	47708151	247	23315										
CTTNBP2	83992	broad.mit.edu	37	chr7	117432076	117432076	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgtgctactggttggatctgGtgttgagccagtgcttggtc	15	7	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:117432076G>C	uc003vjf.2	-	4	1266	c.1174C>G	c.(1174-1176)CCA>GCA	p.P392A		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	392	Pro-rich.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GTTGGATCTGGTGTTGAGCCA	0.542													61	158	---	---	---	---	PASS	C	117432076	C	C	117432076	3	2	60	1	0	0	0	0	1	0	0	0	4045	1261	44	4	3897	4	CTTNBP2	7	117432076	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	6001564	117432076	41706587	248	23316										
FLNC	2318	broad.mit.edu	37	chr7	128494159	128494159	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gggagacaaagcgcgaggtgCgggtggaggagtccacccag	19	9	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:128494159C>A	uc003vnz.3	+	40	6825	c.6616C>A	c.(6616-6618)CGG>AGG	p.R2206R	FLNC_uc003voa.3_Silent_p.R2173R	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2206	Intradomain insert.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GCGCGAGGTGCGGGTGGAGGA	0.692													34	24	---	---	---	---	PASS	A	128494159	A	A	128494159	2	1	60	1	0	0	0	0	0	0	0	1	5935	759	27	1		1	FLNC	7	128494159	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	11062083	128494159	30644504	249	23317										
TSPAN33	340348	broad.mit.edu	37	chr7	128802338	128802338	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggctgcattgggtccctccgCgagaacatctgcctcctgca	11	15	1	1	rs142963022		TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:128802338C>A	uc003vop.1	+	3	493	c.264C>A	c.(262-264)CGC>CGA	p.R88R		NM_178562	NP_848657	Q86UF1	TSN33_HUMAN	tetraspanin 33	88	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						GGTCCCTCCGCGAGAACATCT	0.627													19	34	---	---	---	---	PASS	A	128802338	A	A	128802338	2	1	60	1	0	0	0	0	0	0	0	1	16645	755	27	1		1	TSPAN33	7	128802338	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	308179	128802338	30336325	250	23318										
WDR91	29062	broad.mit.edu	37	chr7	134890724	134890724	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atgttggagacataaggaggCaatttgtgttggaccaaggc	14	5	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:134890724C>A	uc003vsp.2	-	5	743	c.681G>T	c.(679-681)TTG>TTT	p.L227F	WDR91_uc010lmq.2_5'UTR|WDR91_uc010lmr.2_RNA	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91	227										breast(2)|ovary(1)|skin(1)	4						CATAAGGAGGCAATTTGTGTT	0.532													61	166	---	---	---	---	PASS	A	134890724	A	A	134890724	3	1	60	1	0	0	0	0	1	0	0	0	17335	709	25	3	1606	3	WDR91	7	134890724	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	6088386	134890724	24247939	251	23319										
TRIM24	8805	broad.mit.edu	37	chr7	138258362	138258362	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acggtccagtcaccaaattcAtcagtgccatctccaggcct	7	15	4	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:138258362A>G	uc003vuc.2	+	12	2204	c.1989A>G	c.(1987-1989)TCA>TCG	p.S663S	TRIM24_uc003vub.2_Silent_p.S629S	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	663					cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						CACCAAATTCATCAGTGCCAT	0.398													47	123	---	---	---	---	PASS	G	138258362	G	G	138258362	2	3	60	1	0	0	0	0	0	0	0	1	16495	204	8	5		5	TRIM24	7	138258362	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	3367638	138258362	20880301	252	23320										
TMEM213	155006	broad.mit.edu	37	chr7	138487700	138487700	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cgcacaggagtggacgagtaCggctggatcgcggcagctgt	17	10	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:138487700C>T	uc010lna.2	+	3	321	c.210C>T	c.(208-210)TAC>TAT	p.Y70Y	TMEM213_uc010lnb.2_Silent_p.Y69Y	NM_001085429	NP_001078898	A2RRL7	TM213_HUMAN	transmembrane protein 213	70	Extracellular (Potential).					integral to membrane					0						TGGACGAGTACGGCTGGATCG	0.622													25	40	---	---	---	---	PASS	T	138487700	T	T	138487700	2	4	60	1	0	0	0	0	0	0	0	1	16133	547	19	1		1	TMEM213	7	138487700	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	229338	138487700	20650963	253	23321										
TAS2R41	259287	broad.mit.edu	37	chr7	143175842	143175842	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcaacctcaagcttcgaagcGtgttctcgcagctcctgttg	10	13	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:143175842G>C	uc003wdc.1	+	1	877	c.877G>C	c.(877-879)GTG>CTG	p.V293L	uc003wda.2_Intron	NM_176883	NP_795364	P59536	T2R41_HUMAN	taste receptor, type 2, member 41	293	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			pancreas(1)|skin(1)	2	Melanoma(164;0.15)					GCTTCGAAGCGTGTTCTCGCA	0.512													21	43	---	---	---	---	PASS	C	143175842	C	C	143175842	3	2	60	1	0	0	0	0	1	0	0	0	15576	1145	40	4	879	4	TAS2R41	7	143175842	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	4688142	143175842	15962821	254	23322										
KRBA1	84626	broad.mit.edu	37	chr7	149420915	149420915	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggcccaggacaggcatcccaGtccctcaggagtggggaacc	14	14	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:149420915G>T	uc003wfz.2	+	8	1262	c.863G>T	c.(862-864)AGT>ATT	p.S288I	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_5'UTR	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	288										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AGGCATCCCAGTCCCTCAGGA	0.612													37	49	---	---	---	---	PASS	T	149420915	T	T	149420915	3	4	60	1	0	0	0	0	1	0	0	0	8439	1029	36	3	889	3	KRBA1	7	149420915	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	6245073	149420915	9717748	255	23323										
GIMAP6	474344	broad.mit.edu	37	chr7	150324891	150324891	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agtccttccagccaagactcCtcaccaggcacgtcctcaga	7	17	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:150324891C>A	uc003whn.2	-	3	1219	c.795G>T	c.(793-795)GAG>GAT	p.E265D	GIMAP6_uc003whm.2_Missense_Mutation_p.E185D	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	265							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCCAAGACTCCTCACCAGGCA	0.542													41	102	---	---	---	---	PASS	A	150324891	A	A	150324891	3	1	60	1	0	0	0	0	1	0	0	0	6383	680	24	3	87	3	GIMAP6	7	150324891	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	903976	150324891	8813772	256	23324										
RBM33	155435	broad.mit.edu	37	chr7	155530995	155530995	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gggattctgcactttagccaGcctgggtcggcaaccacacg	12	13	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:155530995G>T	uc010lqk.1	+	11	2003	c.1635G>T	c.(1633-1635)CAG>CAT	p.Q545H	RBM33_uc011kvv.1_Missense_Mutation_p.Q354H	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	545	Pro-rich.						nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		ACTTTAGCCAGCCTGGGTCGG	0.612													26	69	---	---	---	---	PASS	T	155530995	T	T	155530995	3	4	60	1	0	0	0	0	1	0	0	0	13130	962	34	3	1677	3	RBM33	7	155530995	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	5206104	155530995	3607668	257	23325										
MNX1	3110	broad.mit.edu	37	chr7	156798509	156798509	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccgcttcctgcgccgcctgcTctttggcctttttgctgcgt	10	16	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:156798509T>C	uc003wnd.1	-	3	1214	c.911A>G	c.(910-912)GAG>GGG	p.E304G	MNX1_uc003wmz.2_Intron|MNX1_uc003wna.2_Intron|MNX1_uc010lqq.1_Missense_Mutation_p.E97G|MNX1_uc003wnc.1_Missense_Mutation_p.E92G|MNX1_uc010lqr.1_RNA	NM_005515	NP_005506	P50219	MNX1_HUMAN	motor neuron and pancreas homeobox 1 isoform 1	304					humoral immune response|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGCCGCCTGCTCTTTGGCCTT	0.577									Currarino_syndrome				20	48	---	---	---	---	PASS	C	156798509	C	C	156798509	3	2	60	1	0	0	0	0	1	0	0	0	9679	1551	54	5	298	5	MNX1	7	156798509	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	1267514	156798509	2340154	258	23326										
VIPR2	7434	broad.mit.edu	37	chr7	158851172	158851172	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tactaatttctgctccttacCtgaagaggcacagaattatg	7	9	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr7:158851172C>A	uc003woh.2	-	5	641	c.455G>T	c.(454-456)AGG>ATG	p.R152M	VIPR2_uc010lqx.2_RNA|VIPR2_uc010lqy.2_RNA	NM_003382	NP_003373	P41587	VIPR2_HUMAN	vasoactive intestinal peptide receptor 2	152	Cytoplasmic (Potential).				cell-cell signaling	integral to plasma membrane				lung(1)|central_nervous_system(1)	2	Ovarian(565;0.152)	all_cancers(7;1.13e-11)|all_epithelial(9;0.000545)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)|STAD - Stomach adenocarcinoma(7;0.18)		TGCTCCTTACCTGAAGAGGCA	0.448													46	101	---	---	---	---	PASS	A	158851172	A	A	158851172	3	1	60	1	0	0	0	0	1	0	0	0	17167	695	24	3	897	3	VIPR2	7	158851172	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2052663	158851172	287491	259	23327										
SGK223	157285	broad.mit.edu	37	chr8	8175875	8175875	+	Frame_Shift_Del	DEL	C	-	-													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acagcgcctcctccgaggtgCccggctgctgcaccagctcg							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:8175875delC	uc003wsh.3	-	5	4010	c.4010delG	c.(4009-4011)GGCfs	p.G1337fs		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	1337							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						CTCCGAGGTGCCCGGCTGCTG	0.672													144	73	---	---	---	---		-	8175875	-	-	8175875	7	5	60	1	0	1	0	1	0	0	0	0	14210	739	26	0	202	0	SGK223	8	8175875	Frame_Shift_Del	DEL	C	TCGA-33-4583-01A-01D-1441-08		8175875	138188147	260	23328										
RP1L1	94137	broad.mit.edu	37	chr8	10466396	10466396	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctcaccctcgtccactccagGcccctggctcagccccggcc	8	23	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:10466396G>A	uc003wtc.2	-	4	5441	c.5212C>T	c.(5212-5214)CCT>TCT	p.P1738S		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1738					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TCCACTCCAGGCCCCTGGCTC	0.657													73	172	---	---	---	---	PASS	A	10466396	A	A	10466396	3	1	60	1	0	0	0	0	1	0	0	0	13533	1203	42	3	1994	3	RP1L1	8	10466396	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2290521	10466396	135897626	261	23329										
GATA4	2626	broad.mit.edu	37	chr8	11607694	11607694	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acgctgtggcgccgcaatgcGgagggcgagcctgtgtgcaa	17	11	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:11607694G>A	uc003wuc.2	+	4	1412	c.858G>A	c.(856-858)GCG>GCA	p.A286A	GATA4_uc003wub.1_Silent_p.A80A|GATA4_uc011kxc.1_Silent_p.A287A	NM_002052	NP_002043	P43694	GATA4_HUMAN	GATA binding protein 4	286	GATA-type 2.				atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)		GCCGCAATGCGGAGGGCGAGC	0.637													23	39	---	---	---	---	PASS	A	11607694	A	A	11607694	2	1	60	1	0	0	0	0	0	0	0	1	6256	1103	39	1		1	GATA4	8	11607694	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	1141298	11607694	134756328	262	23330										
LPL	4023	broad.mit.edu	37	chr8	19811777	19811777	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tccagaaaccagttgggcatGttgacatttacccgaatgga	10	9	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:19811777G>T	uc003wzk.3	+	5	1058	c.688G>T	c.(688-690)GTT>TTT	p.V230F		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor	230					fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	AGTTGGGCATGTTGACATTTA	0.453													50	112	---	---	---	---	PASS	T	19811777	T	T	19811777	3	4	60	1	0	0	0	0	1	0	0	0	8921	1377	48	3	706	3	LPL	8	19811777	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	8204083	19811777	126552245	263	23331										
SLC25A37	51312	broad.mit.edu	37	chr8	23423751	23423751	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caacgtcatgatcatgggtgCagggccggcccatgccatgt	13	12	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:23423751C>T	uc003xdo.2	+	2	494	c.341C>T	c.(340-342)GCA>GTA	p.A114V	SLC25A37_uc003xdn.1_Missense_Mutation_p.A114V|SLC25A37_uc003xdp.2_RNA|SLC25A37_uc010ltz.2_RNA|SLC25A37_uc003xdq.2_5'Flank	NM_016612	NP_057696	Q9NYZ2	MFRN1_HUMAN	solute carrier family 25, member 37	114	Solcar 1.|Helical; Name=2; (Potential).				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Prostate(55;0.114)		Colorectal(74;0.0198)|COAD - Colon adenocarcinoma(73;0.0751)		ATCATGGGTGCAGGGCCGGCC	0.512													20	44	---	---	---	---	PASS	T	23423751	T	T	23423751	3	4	60	1	0	0	0	0	1	0	0	0	14501	710	25	3	347	3	SLC25A37	8	23423751	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3611974	23423751	122940271	264	23332										
DOCK5	80005	broad.mit.edu	37	chr8	25222158	25222158	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcagggtttttctccgtgctAtaaatcagtttgctgaagtt	10	7	2	1	rs139275574	byFrequency	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:25222158A>G	uc003xeg.2	+	30	3198	c.3061A>G	c.(3061-3063)ATA>GTA	p.I1021V	DOCK5_uc010luf.1_RNA|DOCK5_uc003xeh.1_Missense_Mutation_p.I735V|DOCK5_uc003xei.2_Missense_Mutation_p.I591V|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1021						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		TCTCCGTGCTATAAATCAGTT	0.408													3	17	---	---	---	---	PASS	G	25222158	G	G	25222158	3	3	60	1	0	0	0	0	1	0	0	0	4690	449	16	5	3179	5	DOCK5	8	25222158	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	1798407	25222158	121141864	265	23333										
POTEA	340441	broad.mit.edu	37	chr8	43147760	43147760	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcggcaagaacaacatgggtGcttggagagaccacgacgac	14	10	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:43147760G>T	uc003xpz.1	+	1	176	c.133G>T	c.(133-135)GCT>TCT	p.A45S	POTEA_uc003xqa.1_Missense_Mutation_p.A45S	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	45										ovary(1)	1						CAACATGGGTGCTTGGAGAGA	0.597													42	85	---	---	---	---	PASS	T	43147760	T	T	43147760	3	4	60	1	0	0	0	0	1	0	0	0	12261	1319	46	3	135	3	POTEA	8	43147760	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	17925602	43147760	103216262	266	23334										
MOS	4342	broad.mit.edu	37	chr8	57025797	57025797	+	Frame_Shift_Del	DEL	C	-	-													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gccctctcctttcaggagctCcggggcgcggtgggtgtatg							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:57025797delC	uc011leb.1	-	1	745	c.745delG	c.(745-747)GAGfs	p.E249fs		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	249	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			TTCAGGAGCTCCGGGGCGCGG	0.537													72	43	---	---	---	---		-	57025797	-	-	57025797	7	5	60	1	0	1	0	1	0	0	0	0	9712	864	30	0	298	0	MOS	8	57025797	Frame_Shift_Del	DEL	C	TCGA-33-4583-01A-01D-1441-08	13878037	57025797	89338225	267	23335										
MYBL1	4603	broad.mit.edu	37	chr8	67509581	67509581	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcaccttcctggaagtagttTggcaatttctgcccaacgat	9	11	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:67509581T>C	uc003xwj.2	-	5	903	c.496A>G	c.(496-498)AAA>GAA	p.K166E	MYBL1_uc003xwl.2_Missense_Mutation_p.K166E|MYBL1_uc003xwk.2_Missense_Mutation_p.K166E	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog	166	HTH myb-type 3.|H-T-H motif (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			GGAAGTAGTTTGGCAATTTCT	0.383													12	9	---	---	---	---	PASS	C	67509581	C	C	67509581	3	2	60	1	0	0	0	0	1	0	0	0	10009	1821	63	5	1810	5	MYBL1	8	67509581	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	10483784	67509581	78854441	268	23336										
CSPP1	79848	broad.mit.edu	37	chr8	68007903	68007903	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgaagtaagtgaagaaatgGatgagaggtttagatatgaa	13	1	0	6			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:68007903G>T	uc003xxi.2	+	8	1022	c.991G>T	c.(991-993)GAT>TAT	p.D331Y	CSPP1_uc003xxg.1_Missense_Mutation_p.D323Y|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Missense_Mutation_p.D296Y|CSPP1_uc003xxk.2_Missense_Mutation_p.D2Y	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	331						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			TGAAGAAATGGATGAGAGGTT	0.328													31	67	---	---	---	---	PASS	T	68007903	T	T	68007903	3	4	60	1	0	0	0	0	1	0	0	0	3962	1174	41	2	1021	2	CSPP1	8	68007903	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	498322	68007903	78356119	269	23337										
SLC7A13	157724	broad.mit.edu	37	chr8	87242189	87242189	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agagcttggccagcaactacCcctgaccccagaaacaagga	9	14	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:87242189C>A	uc003ydq.1	-	1	416	c.318G>T	c.(316-318)GGG>GGT	p.G106G	SLC7A13_uc003ydr.1_Silent_p.G106G	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	106	Helical; Name=3; (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						CAGCAACTACCCCTGACCCCA	0.493													16	43	---	---	---	---	PASS	A	87242189	A	A	87242189	2	1	60	1	0	0	0	0	0	0	0	1	14695	610	22	3		3	SLC7A13	8	87242189	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	19234286	87242189	59121833	270	23338										
VPS13B	157680	broad.mit.edu	37	chr8	100871568	100871568	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tctggatattcttggcagccCtgcaagcctggtgagaagca	12	10	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:100871568C>G	uc003yiv.2	+	57	11090	c.10979C>G	c.(10978-10980)CCT>CGT	p.P3660R	VPS13B_uc003yiw.2_Missense_Mutation_p.P3635R	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3660					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CTTGGCAGCCCTGCAAGCCTG	0.567													29	56	---	---	---	---	PASS	G	100871568	G	G	100871568	3	3	60	1	0	0	0	0	1	0	0	0	17187	681	24	4	11395	4	VPS13B	8	100871568	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	13629379	100871568	45492454	271	23339										
RGS22	26166	broad.mit.edu	37	chr8	101074868	101074868	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agactgaatatttcttaaatGctcttcattccactgtgatc	5	9	3	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:101074868G>T	uc003yjb.1	-	9	1660	c.1465C>A	c.(1465-1467)CAT>AAT	p.H489N	RGS22_uc003yja.1_Missense_Mutation_p.H308N|RGS22_uc003yjc.1_Missense_Mutation_p.H477N|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	489					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			TTTCTTAAATGCTCTTCATTC	0.318													28	65	---	---	---	---	PASS	T	101074868	T	T	101074868	3	4	60	1	0	0	0	0	1	0	0	0	13305	1319	46	3	2405	3	RGS22	8	101074868	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	203300	101074868	45289154	272	23340										
TM7SF4	81501	broad.mit.edu	37	chr8	105361464	105361464	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctcgtcctgcttggcactggCctcttcatgaagcgattttt	9	12	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:105361464C>A	uc003ylx.1	+	2	733	c.684C>A	c.(682-684)GGC>GGA	p.G228G		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	228	Helical; (Potential).				osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			TTGGCACTGGCCTCTTCATGA	0.493													56	96	---	---	---	---	PASS	A	105361464	A	A	105361464	2	1	60	1	0	0	0	0	0	0	0	1	15973	726	26	3		3	TM7SF4	8	105361464	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	4286596	105361464	41002558	273	23341										
ANGPT1	284	broad.mit.edu	37	chr8	108264188	108264188	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agttttccatggttttgtccCgcagtatagaacattccatt	7	9	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:108264188C>A	uc003ymn.2	-	9	1860	c.1392G>T	c.(1390-1392)GCG>GCT	p.A464A	ANGPT1_uc011lhv.1_Silent_p.A264A|ANGPT1_uc003ymo.2_Silent_p.A463A	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	464	Fibrinogen C-terminal.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			GGTTTTGTCCCGCAGTATAGA	0.408													57	149	---	---	---	---	PASS	A	108264188	A	A	108264188	2	1	60	1	0	0	0	0	0	0	0	1	610	639	23	1		1	ANGPT1	8	108264188	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	2902724	108264188	38099834	274	23342										
CSMD3	114788	broad.mit.edu	37	chr8	113318247	113318247	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cacacataccaacacagcgaGgggtcttgttatgattgctc	9	11	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:113318247G>T	uc003ynu.2	-	51	8219	c.8060C>A	c.(8059-8061)CCT>CAT	p.P2687H	CSMD3_uc003yns.2_Missense_Mutation_p.P1889H|CSMD3_uc003ynt.2_Missense_Mutation_p.P2647H|CSMD3_uc011lhx.1_Missense_Mutation_p.P2583H	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2687	Extracellular (Potential).|Sushi 15.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AACACAGCGAGGGGTCTTGTT	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			49	136	---	---	---	---	PASS	T	113318247	T	T	113318247	3	4	60	1	0	0	0	0	1	0	0	0	3946	1000	35	3	3147	3	CSMD3	8	113318247	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	5054059	113318247	33045775	275	23343										
ENPP2	5168	broad.mit.edu	37	chr8	120592360	120592360	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgcaaccaccccttaccttcTgtagacccttttgtatgaag	6	13	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:120592360T>C	uc003yot.1	-	19	1862	c.1776A>G	c.(1774-1776)ACA>ACG	p.T592T	ENPP2_uc011lic.1_Silent_p.T105T|ENPP2_uc003yor.1_Silent_p.T227T|ENPP2_uc003yos.1_Silent_p.T644T|ENPP2_uc010mdd.1_Silent_p.T592T	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	592					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CCTTACCTTCTGTAGACCCTT	0.343													167	393	---	---	---	---	PASS	C	120592360	C	C	120592360	2	2	60	1	0	0	0	0	0	0	0	1	5130	1567	55	5		5	ENPP2	8	120592360	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	7274113	120592360	25771662	276	23344										
FBXO32	114907	broad.mit.edu	37	chr8	124553144	124553144	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agcgggtcccctcacctgctGaggtcgctcacgaaactgcc	11	16	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:124553144G>A	uc003yqr.2	-	1	303	c.111C>T	c.(109-111)CTC>CTT	p.L37L	FBXO32_uc010mdk.2_Silent_p.L37L	NM_058229	NP_478136	Q969P5	FBX32_HUMAN	F-box only protein 32 isoform 1	37										skin(3)|breast(2)|lung(1)	6	Lung NSC(37;1.13e-13)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			CTCACCTGCTGAGGTCGCTCA	0.687													11	20	---	---	---	---	PASS	A	124553144	A	A	124553144	2	1	60	1	0	0	0	0	0	0	0	1	5742	1277	45	2		2	FBXO32	8	124553144	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	3960784	124553144	21810878	277	23345										
TATDN1	83940	broad.mit.edu	37	chr8	125531058	125531058	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtaaaagaaatatgaggataCcatttgtttgtgccaaatgc	9	5	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:125531058C>A	uc003yrd.2	-	4	244	c.202_splice	c.e4+1	p.G68_splice	TATDN1_uc003yre.2_Splice_Site|TATDN1_uc010mdm.2_Splice_Site_p.G21_splice|TATDN1_uc003yrf.2_Splice_Site_p.G68_splice	NM_032026	NP_114415	Q6P1N9	TATD1_HUMAN	TatD DNase domain containing 1 isoform a							nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding				0	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			TATGAGGATACCATTTGTTTG	0.303													31	87	---	---	---	---	PASS	A	125531058	A	A	125531058	5	1	60	1	0	0	0	0	0	0	1	0	15588	521	18	3	726	3	TATDN1	8	125531058	Splice_Site	SNP	C	TCGA-33-4583-01A-01D-1441-08	977914	125531058	20832964	278	23346										
TATDN1	83940	broad.mit.edu	37	chr8	125531107	125531107	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttactgtcttgtagatttcCacctgtaatcataaactgaa	5	8	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:125531107C>A	uc003yrd.2	-	4	196	c.154G>T	c.(154-156)GGA>TGA	p.G52*	TATDN1_uc003yre.2_RNA|TATDN1_uc010mdm.2_Nonsense_Mutation_p.G5*|TATDN1_uc003yrf.2_Nonsense_Mutation_p.G52*	NM_032026	NP_114415	Q6P1N9	TATD1_HUMAN	TatD DNase domain containing 1 isoform a	52						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding				0	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			TGTAGATTTCCACCTGTAATC	0.303													34	80	---	---	---	---	PASS	A	125531107	A	A	125531107	4	1	60	1	0	0	0	0	0	1	0	0	15588	603	21	3	775	3	TATDN1	8	125531107	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	49	125531107	20832915	279	23347										
ADCY8	114	broad.mit.edu	37	chr8	131859754	131859754	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atcgacttgtcaaaatcacaCcacagctgcggattaaaaaa	6	10	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:131859754C>T	uc003ytd.3	-	11	2674	c.2418G>A	c.(2416-2418)TGG>TGA	p.W806*	ADCY8_uc010mds.2_Intron	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	806	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CAAAATCACACCACAGCTGCG	0.348										HNSCC(32;0.087)			10	27	---	---	---	---	PASS	T	131859754	T	T	131859754	4	4	60	1	0	0	0	0	0	1	0	0	300	508	18	3	1369	3	ADCY8	8	131859754	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	6328647	131859754	14504268	280	23348										
FAM135B	51059	broad.mit.edu	37	chr8	139323161	139323161	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aggtcactcggatctggtaaTacctaagaaaagagaagagg	12	6	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:139323161T>C	uc003yuy.2	-	3	251	c.80A>G	c.(79-81)TAT>TGT	p.Y27C	FAM135B_uc003yux.2_5'UTR|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	27										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)			GATCTGGTAATACCTAAGAAA	0.468										HNSCC(54;0.14)			35	67	---	---	---	---	PASS	C	139323161	C	C	139323161	3	2	60	1	0	0	0	0	1	0	0	0	5449	1406	49	5	4212	5	FAM135B	8	139323161	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	7463407	139323161	7040861	281	23349										
COL22A1	169044	broad.mit.edu	37	chr8	139614404	139614404	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caggcttcccagggacccccTgcaaggagaaagaaaggaca	12	12	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:139614404T>A	uc003yvd.2	-	60	4588	c.4141_splice	c.e60-1	p.G1381_splice	COL22A1_uc011ljo.1_Splice_Site_p.G661_splice	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1						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)			AGGGACCCCCTGCAAGGAGAA	0.572										HNSCC(7;0.00092)			22	58	---	---	---	---	PASS	A	139614404	A	A	139614404	5	1	60	1	0	0	0	0	0	0	1	0	3681	1594	55	5	765	5	COL22A1	8	139614404	Splice_Site	SNP	T	TCGA-33-4583-01A-01D-1441-08	291243	139614404	6749618	282	23350										
RHPN1	114822	broad.mit.edu	37	chr8	144463991	144463991	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccacaggcggctggcctgaaGgagggcgactacattgtgtc	15	11	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:144463991G>C	uc003yyb.2	+	14	1783	c.1650G>C	c.(1648-1650)AAG>AAC	p.K550N		NM_052924	NP_443156	Q8TCX5	RHPN1_HUMAN	rhophilin 1	575	PDZ.				signal transduction	intracellular				large_intestine(1)	1	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.156)			CTGGCCTGAAGGAGGGCGACT	0.677													6	18	---	---	---	---	PASS	C	144463991	C	C	144463991	3	2	60	1	0	0	0	0	1	0	0	0	13350	991	35	4	1704	4	RHPN1	8	144463991	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	4849587	144463991	1900031	283	23351										
CPSF1	29894	broad.mit.edu	37	chr8	145623947	145623947	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttcccggctcagaatcaggaAtccgtgtctgcggccgtcgt	12	13	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr8:145623947A>T	uc003zcj.2	-	18	1795	c.1720T>A	c.(1720-1722)TTC>ATC	p.F574I		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	574					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	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;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			AGAATCAGGAATCCGTGTCTG	0.682													9	222	---	---	---	---	PASS	T	145623947	T	T	145623947	3	4	60	1	0	0	0	0	1	0	0	0	3824	101	4	5	2695	5	CPSF1	8	145623947	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	1159956	145623947	740075	284	23352										
DOCK8	81704	broad.mit.edu	37	chr9	396932	396932	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cccttttagtaaaaccacagAaggtaactgtattttactct	5	9	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:396932A>G	uc003zgf.2	+	25	3230	c.3118A>G	c.(3118-3120)AAG>GAG	p.K1040E	DOCK8_uc010mgu.2_Missense_Mutation_p.K342E|DOCK8_uc010mgv.2_Missense_Mutation_p.K940E|DOCK8_uc010mgw.1_Missense_Mutation_p.K342E|DOCK8_uc003zgk.2_Missense_Mutation_p.K498E	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	1040					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		AAAACCACAGAAGGTAACtgt	0.239													89	31	---	---	---	---	PASS	G	396932	G	G	396932	3	3	60	1	0	0	0	0	1	0	0	0	4693	247	9	5	3216	5	DOCK8	9	396932	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08		396932	140816499	285	23353										
RCL1	10171	broad.mit.edu	37	chr9	4844532	4844532	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttgtatctccaggtctccgGgctttgggttgtcactggtt	12	9	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:4844532G>T	uc003zis.2	+	7	976	c.718G>T	c.(718-720)GGC>TGC	p.G240C	RCL1_uc003zit.2_Missense_Mutation_p.G82C|RCL1_uc010mhk.1_Missense_Mutation_p.G82C|RCL1_uc010mhl.1_Missense_Mutation_p.G54C	NM_005772	NP_005763	Q9Y2P8	RCL1_HUMAN	RNA terminal phosphate cyclase-like 1	240					ribosome biogenesis|RNA processing	nucleolus	RNA-3'-phosphate cyclase activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0206)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0244)		CAGGTCTCCGGGCTTTGGGTT	0.517													173	47	---	---	---	---	PASS	T	4844532	T	T	4844532	3	4	60	1	0	0	0	0	1	0	0	0	13178	1232	43	3	744	3	RCL1	9	4844532	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	4447600	4844532	136368899	286	23354										
DENND4C	55667	broad.mit.edu	37	chr9	19316473	19316473	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccaaaaagccgtgcaaaaatCtacttagcaccttaaagaaa	5	10	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:19316473C>T	uc003znq.2	+	7	871	c.838C>T	c.(838-840)CTA>TTA	p.L280L	DENND4C_uc011lnc.1_5'UTR	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	280						integral to membrane				ovary(1)|skin(1)	2						GTGCAAAAATCTACTTAGCAC	0.323													12	79	---	---	---	---	PASS	T	19316473	T	T	19316473	2	4	60	1	0	0	0	0	0	0	0	1	4435	912	32	2		2	DENND4C	9	19316473	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	14471941	19316473	121896958	287	23355										
FANCG	2189	broad.mit.edu	37	chr9	35076575	35076575	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttggaactgcatgggacattCaaggcctaaaagagaaagaa	11	6	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:35076575C>G	uc003zwb.1	-	8	1422	c.930G>C	c.(928-930)TTG>TTC	p.L310F	FANCG_uc003zwa.1_Missense_Mutation_p.L52F|FANCG_uc010mkj.1_Missense_Mutation_p.L52F|FANCG_uc011lot.1_Missense_Mutation_p.L310F	NM_004629	NP_004620	O15287	FANCG_HUMAN	Fanconi anemia, complementation group G	310					cell cycle checkpoint|DNA repair|mitochondrion organization	mitochondrion|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|large_intestine(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			ATGGGACATTCAAGGCCTAAA	0.443			Mis|N|F|S			AML|leukemia		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				14	114	---	---	---	---	PASS	G	35076575	G	G	35076575	3	3	60	1	0	0	0	0	1	0	0	0	5668	825	29	2	966	2	FANCG	9	35076575	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	15760102	35076575	106136856	288	23356										
RECK	8434	broad.mit.edu	37	chr9	36087893	36087893	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggagtcactgtacaccctccTccctctacaggcctcgatgg	9	16	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:36087893T>C	uc003zyv.2	+	9	926	c.840T>C	c.(838-840)CCT>CCC	p.P280P	RECK_uc003zyw.2_Silent_p.P152P|RECK_uc003zyx.2_RNA	NM_021111	NP_066934	O95980	RECK_HUMAN	RECK protein precursor	280	5 X Knot repeats.					anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)			TACACCCTCCTCCCTCTACAG	0.443													57	46	---	---	---	---	PASS	C	36087893	C	C	36087893	2	2	60	1	0	0	0	0	0	0	0	1	13200	1538	54	5		5	RECK	9	36087893	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	1011318	36087893	105125538	289	23357										
MELK	9833	broad.mit.edu	37	chr9	36665428	36665428	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcagaacacctgcaaataaaTtaaagaacaaagaaaatgta	6	6	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:36665428T>C	uc003zzn.2	+	14	1396	c.1258T>C	c.(1258-1260)TTA>CTA	p.L420L	MELK_uc011lpm.1_Silent_p.L289L|MELK_uc011lpn.1_Silent_p.L379L|MELK_uc011lpo.1_Silent_p.L226L|MELK_uc010mll.2_Silent_p.L388L|MELK_uc011lpp.1_Silent_p.L372L|MELK_uc010mlm.2_Silent_p.L349L|MELK_uc011lpq.1_Silent_p.L226L|MELK_uc011lpr.1_Silent_p.L349L|MELK_uc011lps.1_Silent_p.L340L	NM_014791	NP_055606	Q14680	MELK_HUMAN	maternal embryonic leucine zipper kinase	420						cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		Acute lymphoblastic leukemia(2;1.09e-08)|all_hematologic(2;8.15e-06)	STAD - Stomach adenocarcinoma(86;0.228)			TGCAAATAAATTAAAGAACAA	0.348													32	97	---	---	---	---	PASS	C	36665428	C	C	36665428	2	2	60	1	0	0	0	0	0	0	0	1	9470	1490	52	5		5	MELK	9	36665428	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	577535	36665428	104548003	290	23358										
ANKRD20A3	441425	broad.mit.edu	37	chr9	67951985	67951985	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctggatcttcgcatgaaaaAggaaacagaatagtcaatgg	10	7	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:67951985A>G	uc004aeu.2	+	9	1060	c.948A>G	c.(946-948)AAA>AAG	p.K316K	ANKRD20A3_uc010mnn.2_Silent_p.K315K	NM_001012419	NP_001012419	Q5VUR7	A20A3_HUMAN	ankyrin repeat domain 20 family, member A3	316											0						CGCATGAAAAAGGAAACAGAA	0.303													105	168	---	---	---	---	PASS	G	67951985	G	G	67951985	2	3	60	1	0	0	0	0	0	0	0	1	649	69	3	5		5	ANKRD20A3	9	67951985	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	31286557	67951985	73261446	291	23359										
VPS13A	23230	broad.mit.edu	37	chr9	79917921	79917921	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gttgaacgaaatttatgctgGgagtggtaccaggaagttcc	13	6	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:79917921G>T	uc004akr.2	+	34	4163	c.3903G>T	c.(3901-3903)TGG>TGT	p.W1301C	VPS13A_uc004akp.3_Missense_Mutation_p.W1301C|VPS13A_uc004akq.3_Missense_Mutation_p.W1301C|VPS13A_uc004aks.2_Missense_Mutation_p.W1262C|VPS13A_uc010mpo.1_5'UTR	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1301	TPR 5.				Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ATTTATGCTGGGAGTGGTACC	0.363													23	257	---	---	---	---	PASS	T	79917921	T	T	79917921	3	4	60	1	0	0	0	0	1	0	0	0	17186	1241	43	3	4037	3	VPS13A	9	79917921	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	11965936	79917921	61295510	292	23360										
PSAT1	29968	broad.mit.edu	37	chr9	80919698	80919698	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttttctgcaaggaggtgggtGcggccagttcagtgctgtcc	15	9	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:80919698G>A	uc004ala.2	+	4	307	c.239G>A	c.(238-240)TGC>TAC	p.C80Y	PSAT1_uc004alb.2_Missense_Mutation_p.C80Y	NM_058179	NP_478059	Q9Y617	SERC_HUMAN	phosphoserine aminotransferase 1 isoform 1	80	Pyridoxal phosphate binding (By similarity).				L-serine biosynthetic process|pyridoxine biosynthetic process		O-phospho-L-serine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)	GGAGGTGGGTGCGGCCAGTTC	0.483													18	215	---	---	---	---	PASS	A	80919698	A	A	80919698	3	1	60	1	0	0	0	0	1	0	0	0	12644	1319	46	3	253	3	PSAT1	9	80919698	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1001777	80919698	60293733	293	23361										
RASEF	158158	broad.mit.edu	37	chr9	85616037	85616037	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctcatccacataggaagagCgggatgacctggtaataaag	11	9	1	2	rs140659178	byFrequency	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:85616037C>A	uc004amo.1	-	10	1472	c.1211G>T	c.(1210-1212)CGC>CTC	p.R404L		NM_152573	NP_689786	Q8IZ41	RASEF_HUMAN	RAS and EF-hand domain containing	404					protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3						ATAGGAAGAGCGGGATGACCT	0.493													59	34	---	---	---	---	PASS	A	85616037	A	A	85616037	3	1	60	1	0	0	0	0	1	0	0	0	13068	768	27	1	1043	1	RASEF	9	85616037	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	4696339	85616037	55597394	294	23362										
TDRD7	23424	broad.mit.edu	37	chr9	100204011	100204011	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acacttataaaatggatgagGttcaaaatcgcataaaggaa	8	5	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:100204011G>A	uc004axj.2	+	6	934	c.709G>A	c.(709-711)GTT>ATT	p.V237I	TDRD7_uc011lux.1_Missense_Mutation_p.V163I	NM_014290	NP_055105	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	237	Lotus/OST-HTH 2.				lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)				AATGGATGAGGTTCAAAATCG	0.284													5	120	---	---	---	---	PASS	A	100204011	A	A	100204011	3	1	60	1	0	0	0	0	1	0	0	0	15732	1261	44	3	727	3	TDRD7	9	100204011	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	14587974	100204011	41009420	295	23363										
GRIN3A	116443	broad.mit.edu	37	chr9	104499756	104499756	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cactgctccatggcgaactaGgggaggagaagggcaaaagt	15	8	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:104499756G>T	uc004bbp.1	-	1	1107	c.506C>A	c.(505-507)CCT>CAT	p.P169H	GRIN3A_uc004bbq.1_Missense_Mutation_p.P169H	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	169	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	TGGCGAACTAGGGGAGGAGAA	0.602													50	25	---	---	---	---	PASS	T	104499756	T	T	104499756	3	4	60	1	0	0	0	0	1	0	0	0	6783	1000	35	3	2877	3	GRIN3A	9	104499756	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	4295745	104499756	36713675	296	23364										
SVEP1	79987	broad.mit.edu	37	chr9	113149732	113149732	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	attcaagtggagtttcacacCtggtctctaaaaacaagaat	7	8	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:113149732C>G	uc010mtz.2	-	42	10230	c.9893G>C	c.(9892-9894)AGG>ACG	p.R3298T	SVEP1_uc010mty.2_Missense_Mutation_p.R1224T	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	3298	Sushi 32.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						AGTTTCACACCTGGTCTCTAA	0.388													24	32	---	---	---	---	PASS	G	113149732	G	G	113149732	3	3	60	1	0	0	0	0	1	0	0	0	15417	681	24	4	850	4	SVEP1	9	113149732	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	8649976	113149732	28063699	297	23365										
HSDL2	84263	broad.mit.edu	37	chr9	115200823	115200823	+	Frame_Shift_Del	DEL	T	-	-													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	attttccaaaagccaaaaagTtttactggcaactttgtcat							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:115200823delT	uc004bga.1	+	7	804	c.711delT	c.(709-711)AGTfs	p.S237fs	HSDL2_uc011lwv.1_Frame_Shift_Del_p.S116fs|HSDL2_uc004bgb.1_Frame_Shift_Del_p.N71fs|HSDL2_uc004bgc.1_Frame_Shift_Del_p.S164fs|HSDL2_uc011lww.1_Frame_Shift_Del_p.S32fs	NM_032303	NP_115679	Q6YN16	HSDL2_HUMAN	hydroxysteroid dehydrogenase like 2	237						peroxisome	oxidoreductase activity|sterol binding				0						AGCCAAAAAGTTTTACTGGCA	0.343													58	78	---	---	---	---		-	115200823	-	-	115200823	7	5	60	1	0	1	0	1	0	0	0	0	7394	1722	60	0	737	0	HSDL2	9	115200823	Frame_Shift_Del	DEL	T	TCGA-33-4583-01A-01D-1441-08	2051091	115200823	26012608	298	23366										
COL27A1	85301	broad.mit.edu	37	chr9	117069976	117069976	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgggtggatccaaaccttgGctgctcctctgacaccatcg	10	14	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:117069976G>T	uc011lxl.1	+	59	5135	c.5135G>T	c.(5134-5136)GGC>GTC	p.G1712V	COL27A1_uc004bii.2_RNA|COL27A1_uc011lxn.1_Missense_Mutation_p.G27V	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1712	Fibrillar collagen NC1.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						CCAAACCTTGGCTGCTCCTCT	0.562													111	80	---	---	---	---	PASS	T	117069976	T	T	117069976	3	4	60	1	0	0	0	0	1	0	0	0	3685	1203	42	3	5369	3	COL27A1	9	117069976	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1869153	117069976	24143455	299	23367										
TLR4	7099	broad.mit.edu	37	chr9	120475243	120475243	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gacaaatctgctctagagggCctgtgcaatttgaccattga	10	9	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:120475243C>A	uc004bjz.2	+	3	1128	c.837C>A	c.(835-837)GGC>GGA	p.G279G	TLR4_uc004bka.2_Silent_p.G239G|TLR4_uc004bkb.2_Silent_p.G79G	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	279	Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						CTCTAGAGGGCCTGTGCAATT	0.363													156	68	---	---	---	---	PASS	A	120475243	A	A	120475243	2	1	60	1	0	0	0	0	0	0	0	1	15950	726	26	3		3	TLR4	9	120475243	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	3405267	120475243	20738188	300	23368										
OLFML2A	169611	broad.mit.edu	37	chr9	127563756	127563756	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtgtgcagaaaagctttgcaGacagaggcctcccaaaacct	10	11	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:127563756G>C	uc004bov.2	+	5	846	c.733G>C	c.(733-735)GAC>CAC	p.D245H	OLFML2A_uc010mwr.1_Missense_Mutation_p.D209H|OLFML2A_uc004bow.2_Missense_Mutation_p.D31H	NM_182487	NP_872293	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A precursor	245											0						AAGCTTTGCAGACAGAGGCCT	0.542													14	174	---	---	---	---	PASS	C	127563756	C	C	127563756	3	2	60	1	0	0	0	0	1	0	0	0	10857	942	33	2	751	2	OLFML2A	9	127563756	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	7088513	127563756	13649675	301	23369										
ZNF79	7633	broad.mit.edu	37	chr9	130207074	130207074	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aagccctacagatgtgccgcGtgtgggaaggccttcagcca	13	12	1	1	rs61747648	byFrequency	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:130207074G>T	uc004bqw.3	+	5	1509	c.1095G>T	c.(1093-1095)GCG>GCT	p.A365A	ZNF79_uc011maf.1_Silent_p.A341A|ZNF79_uc011mag.1_Silent_p.A341A	NM_007135	NP_009066	Q15937	ZNF79_HUMAN	zinc finger protein 79	365	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						GATGTGCCGCGTGTGGGAAGG	0.567													79	79	---	---	---	---	PASS	T	130207074	T	T	130207074	2	4	60	1	0	0	0	0	0	0	0	1	18158	1132	40	1		1	ZNF79	9	130207074	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	2643318	130207074	11006357	302	23370										
SH2D3C	10044	broad.mit.edu	37	chr9	130536708	130536708	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cagagtgaaggaccgagggaGgttggagagactcccaaagc	16	8	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:130536708G>T	uc004bsc.2	-	2	218	c.76C>A	c.(76-78)CTC>ATC	p.L26I	SH2D3C_uc004bsd.1_5'UTR	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a	26					JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						GACCGAGGGAGGTTGGAGAGA	0.488													8	72	---	---	---	---	PASS	T	130536708	T	T	130536708	3	4	60	1	0	0	0	0	1	0	0	0	14234	1000	35	3	2683	3	SH2D3C	9	130536708	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	329634	130536708	10676723	303	23371										
NTNG2	84628	broad.mit.edu	37	chr9	135114558	135114558	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgaatgtggtgacctgcgtCagctgcaagcacaacacgcg	12	12	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:135114558C>T	uc004cbh.2	+	6	1898	c.1122C>T	c.(1120-1122)GTC>GTT	p.V374V		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	374	Laminin EGF-like 2.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		TGACCTGCGTCAGCTGCAAGC	0.582													97	56	---	---	---	---	PASS	T	135114558	T	T	135114558	2	4	60	1	0	0	0	0	0	0	0	1	10705	813	29	2		2	NTNG2	9	135114558	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	4577850	135114558	6098873	304	23372										
GFI1B	8328	broad.mit.edu	37	chr9	135862758	135862758	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggaccaacctcaaacgagagCcggagctggagcaggaccag	14	12	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:135862758C>A	uc004ccg.2	+	3	341	c.190C>A	c.(190-192)CCG>ACG	p.P64T	GFI1B_uc010mzy.2_Missense_Mutation_p.P64T	NM_004188	NP_004179	Q5VTD9	GFI1B_HUMAN	growth factor independent 1B transcription	64					cell proliferation|chromatin modification|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;9.04e-07)|Epithelial(140;1.17e-05)		CAAACGAGAGCCGGAGCTGGA	0.617													15	94	---	---	---	---	PASS	A	135862758	A	A	135862758	3	1	60	1	0	0	0	0	1	0	0	0	6340	739	26	3	196	3	GFI1B	9	135862758	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	748200	135862758	5350673	305	23373										
C9orf116	138162	broad.mit.edu	37	chr9	138387325	138387325	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aactggggtggaagttgagcCggtcacaggaggtgatgcag	18	6	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:138387325C>T	uc004cft.1	-	3	423	c.359G>A	c.(358-360)CGG>CAG	p.R120Q	C9orf116_uc004cfs.1_3'UTR|C9orf116_uc004cfu.1_RNA	NM_001048265	NP_001041730	Q5BN46	CI116_HUMAN	hypothetical protein LOC138162 isoform 1	120											0				OV - Ovarian serous cystadenocarcinoma(145;7.39e-08)|Epithelial(140;5.19e-07)|all cancers(34;1.04e-05)		GAAGTTGAGCCGGTCACAGGA	0.547													10	189	---	---	---	---	PASS	T	138387325	T	T	138387325	3	4	60	1	0	0	0	0	1	0	0	0	2450	652	23	1	55	1	C9orf116	9	138387325	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2524567	138387325	2826106	306	23374										
NOTCH1	4851	broad.mit.edu	37	chr9	139401756	139401756	+	Splice_Site	SNP	C	A	A													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctccgtgcagcggcccttaCcctgagtgccccgtgggcag							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:139401756C>A	uc004chz.2	-	22	3643	c.3643_splice	c.e22+1	p.G1215_splice	NOTCH1_uc004cia.1_Splice_Site_p.G445_splice	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein						aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GCGGCCCTTACCCTGAGTGCC	0.692			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			44	31	---	---	---	---	PASS	A	139401756	A	A	139401756	5	1	60	1	0	0	0	0	0	0	1	0	10547	521	18	3	4075	3	NOTCH1	9	139401756	Splice_Site	SNP	C	TCGA-33-4583-01A-01D-1441-08	1014431	139401756	1811675	307	23375	513	2								
NOTCH1	4851	broad.mit.edu	37	chr9	139401757	139401757	+	Missense_Mutation	SNP	C	A	A													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctccgtgcagcggcccttacCctgagtgccccgtgggcagg							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr9:139401757C>A	uc004chz.2	-	22	3643	c.3643G>T	c.(3643-3645)GGT>TGT	p.G1215C	NOTCH1_uc004cia.1_Missense_Mutation_p.G445C	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1215	Extracellular (Potential).|EGF-like 31; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CGGCCCTTACCCTGAGTGCCC	0.692			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			44	31	---	---	---	---	PASS	A	139401757	A	A	139401757	3	1	60	1	0	0	0	0	1	0	0	0	10547	637	22	3	4076	3	NOTCH1	9	139401757	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1	139401757	1811674	308	23376	513	2								
SFMBT2	57713	broad.mit.edu	37	chr10	7409832	7409832	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcattcctggctggaagttgCtctgaatgctgatttcaacc	9	10	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr10:7409832C>A	uc009xio.1	-	4	306	c.215G>T	c.(214-216)AGC>ATC	p.S72I	SFMBT2_uc001ijn.1_Missense_Mutation_p.S72I|SFMBT2_uc010qay.1_Missense_Mutation_p.S72I|SFMBT2_uc001ijo.1_Missense_Mutation_p.S72I	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	72	MBT 1.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						CTGGAAGTTGCTCTGAATGCT	0.433													18	24	---	---	---	---	PASS	A	7409832	A	A	7409832	3	1	60	1	0	0	0	0	1	0	0	0	14158	797	28	3	2541	3	SFMBT2	10	7409832	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08		7409832	128124915	309	23377										
VIM	7431	broad.mit.edu	37	chr10	17275867	17275867	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gctgccctgcgtgacgtacgTcagcaatatgaaagtgtggc	13	10	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr10:17275867T>A	uc001iou.2	+	5	1232	c.819T>A	c.(817-819)CGT>CGA	p.R273R	VIM_uc001iov.1_Silent_p.R273R|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Silent_p.R273R|VIM_uc001ioy.1_Silent_p.R273R|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Silent_p.R273R|VIM_uc001ipc.1_Silent_p.R273R	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	273	Rod.|Coil 2.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						GTGACGTACGTCAGCAATATG	0.498													31	11	---	---	---	---	PASS	A	17275867	A	A	17275867	2	1	60	1	0	0	0	0	0	0	0	1	17163	1654	58	5		5	VIM	10	17275867	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	9866035	17275867	118258880	310	23378										
CACNB2	783	broad.mit.edu	37	chr10	18690925	18690925	+	Frame_Shift_Del	DEL	C	-	-													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aggaggaccgggaggcagtgCgcagagaagcggagcggcag							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr10:18690925delC	uc001ipr.2	+	3	346	c.286delC	c.(286-288)CGCfs	p.R96fs	CACNB2_uc009xjz.1_Frame_Shift_Del_p.R96fs|CACNB2_uc001ips.2_Frame_Shift_Del_p.R96fs|CACNB2_uc001ipt.2_Frame_Shift_Del_p.R96fs|CACNB2_uc010qcl.1_RNA|CACNB2_uc001ipu.2_Frame_Shift_Del_p.R68fs|CACNB2_uc001ipv.2_Frame_Shift_Del_p.R68fs|CACNB2_uc009xka.1_Frame_Shift_Del_p.R68fs|CACNB2_uc001ipw.2_Frame_Shift_Del_p.R41fs|CACNB2_uc001ipx.2_Frame_Shift_Del_p.R41fs|CACNB2_uc009xkb.1_Frame_Shift_Del_p.R42fs|CACNB2_uc010qcm.1_Frame_Shift_Del_p.R42fs|CACNB2_uc001ipz.2_Frame_Shift_Del_p.R42fs|CACNB2_uc001ipy.2_Frame_Shift_Del_p.R42fs|CACNB2_uc010qcn.1_Frame_Shift_Del_p.R48fs|CACNB2_uc010qco.1_Frame_Shift_Del_p.R48fs|CACNB2_uc001iqa.2_Frame_Shift_Del_p.R48fs	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	96					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GGAGGCAGTGCGCAGAGAAGC	0.532													28	30	---	---	---	---		-	18690925	-	-	18690925	7	5	60	1	0	1	0	1	0	0	0	0	2553	768	27	0	516	0	CACNB2	10	18690925	Frame_Shift_Del	DEL	C	TCGA-33-4583-01A-01D-1441-08	1415058	18690925	116843822	311	23379										
RASSF4	83937	broad.mit.edu	37	chr10	45467291	45467291	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agagcttccagctgagacacCgtgaggtgagcctgttgctc	13	11	0	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr10:45467291C>A	uc001jbo.2	+	3	267	c.133C>A	c.(133-135)CGT>AGT	p.R45S	RASSF4_uc001jbp.2_Missense_Mutation_p.R76S|RASSF4_uc009xmn.2_Intron|RASSF4_uc001jbq.2_5'UTR	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	45					cell cycle|signal transduction		protein binding			large_intestine(1)	1						GCTGAGACACCGTGAGGTGAG	0.323													40	19	---	---	---	---	PASS	A	45467291	A	A	45467291	3	1	60	1	0	0	0	0	1	0	0	0	13088	652	23	1	139	1	RASSF4	10	45467291	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	26776366	45467291	90067456	312	23380										
RHOBTB1	9886	broad.mit.edu	37	chr10	62652608	62652608	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcgattaacagcttccaggtCggcatagcggagatcaagct	11	10	1	1	rs141139124	by1000genomes	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr10:62652608C>A	uc001jli.2	-	6	880	c.442G>T	c.(442-444)GAC>TAC	p.D148Y	RHOBTB1_uc001jlh.2_Missense_Mutation_p.D148Y|RHOBTB1_uc001jlj.2_Missense_Mutation_p.D148Y|RHOBTB1_uc001jlk.2_Missense_Mutation_p.D148Y|RHOBTB1_uc009xpe.1_Intron	NM_014836	NP_055651	O94844	RHBT1_HUMAN	Rho-related BTB domain containing 1	148	Rho-like.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)					GCTTCCAGGTCGGCATAGCGG	0.502													57	27	---	---	---	---	PASS	A	62652608	A	A	62652608	3	1	60	1	0	0	0	0	1	0	0	0	13333	884	31	2	1676	2	RHOBTB1	10	62652608	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	17185317	62652608	72882139	313	23381										
NRG3	10718	broad.mit.edu	37	chr10	84745017	84745017	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcatcccttcagtgggtttaGaggaaacctgcctgcaaatg	10	10	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr10:84745017G>T	uc001kco.2	+	9	1774	c.1747G>T	c.(1747-1749)GAG>TAG	p.E583*	NRG3_uc010qlz.1_Nonsense_Mutation_p.E582*|NRG3_uc001kcp.2_Nonsense_Mutation_p.E386*|NRG3_uc001kcq.2_Nonsense_Mutation_p.E233*|NRG3_uc001kcr.2_Nonsense_Mutation_p.E257*	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	607	Cytoplasmic (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)		AGTGGGTTTAGAGGAAACCTG	0.458													130	88	---	---	---	---	PASS	T	84745017	T	T	84745017	4	4	60	1	0	0	0	0	0	1	0	0	10649	943	33	2	2025	2	NRG3	10	84745017	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	22092409	84745017	50789730	314	23382										
PTEN	5728	broad.mit.edu	37	chr10	89725055	89725055	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttctctaggtgaagctgtaCttcacaaaaacagtagagga	9	7	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr10:89725055C>G	uc001kfb.2	+	10	2069	c.1038C>G	c.(1036-1038)TAC>TAG	p.Y346*		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	346	C2 tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.R55fs*1(4)|p.N212fs*1(2)|p.Y27fs*1(2)|p.Y346*(1)|p.G165_*404del(1)|p.Y346fs*1(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TGAAGCTGTACTTCACAAAAA	0.318		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			29	10	---	---	---	---	PASS	G	89725055	G	G	89725055	4	3	60	1	0	0	0	0	0	1	0	0	12738	576	20	4	1072	4	PTEN	10	89725055	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	4980038	89725055	45809692	315	23383										
C10orf79	80217	broad.mit.edu	37	chr10	105893440	105893440	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agccttctgatttagatcttCcctttccatctccattttct	3	13	4	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr10:105893440C>G	uc001kxw.2	-	35	4650	c.4534G>C	c.(4534-4536)GAA>CAA	p.E1512Q	C10orf79_uc009xxq.2_Missense_Mutation_p.E791Q	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1512											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TTTAGATCTTCCCTTTCCATC	0.353													19	75	---	---	---	---	PASS	G	105893440	G	G	105893440	3	3	60	1	0	0	0	0	1	0	0	0	1618	864	30	2	479	2	C10orf79	10	105893440	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	16168385	105893440	29641307	316	23384										
C10orf137	26098	broad.mit.edu	37	chr10	127438068	127438068	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agctgtttcagctgctgaaaGatgctccctgcgaactgctt	10	11	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr10:127438068G>A	uc001liq.1	+	22	3504	c.3211G>A	c.(3211-3213)GAT>AAT	p.D1071N	C10orf137_uc001lio.1_Missense_Mutation_p.D1037N|C10orf137_uc001lip.1_Missense_Mutation_p.D775N|C10orf137_uc001lis.1_Missense_Mutation_p.D397N|C10orf137_uc001lit.1_5'UTR	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	1071					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GCTGCTGAAAGATGCTCCCTG	0.443													61	49	---	---	---	---	PASS	A	127438068	A	A	127438068	3	1	60	1	0	0	0	0	1	0	0	0	1594	942	33	2	3191	2	C10orf137	10	127438068	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	21544628	127438068	8096679	317	23385										
C11orf35	256329	broad.mit.edu	37	chr11	557899	557899	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctcacctccacactgccagtCtgggatcgtagcatgcggcc	10	16	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:557899C>G	uc001lpx.2	-	5	603	c.540G>C	c.(538-540)CAG>CAC	p.Q180H	uc001lpy.2_RNA|uc001lpz.2_5'Flank|RASSF7_uc001lqa.2_5'Flank	NM_173573	NP_775844	Q8IXW0	CK035_HUMAN	hypothetical protein LOC256329	180										pancreas(1)	1		all_cancers(49;2.16e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;7.18e-28)|Epithelial(43;6.93e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.97e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CACTGCCAGTCTGGGATCGTA	0.692													5	15	---	---	---	---	PASS	G	557899	G	G	557899	3	3	60	1	0	0	0	0	1	0	0	0	1638	912	32	2	1404	2	C11orf35	11	557899	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08		557899	134448617	318	23386										
KRTAP5-5	439915	broad.mit.edu	37	chr11	1651512	1651512	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctgtggggggtccaaggggGgctgtggttcttatggctgc	19	8	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:1651512G>T	uc001lty.2	+	1	480	c.442G>T	c.(442-444)GGC>TGC	p.G148C		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	148	8 X 4 AA repeats of C-C-X-P.					keratin filament				lung(1)	1		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GTCCAAGGGGGGCTGTGGTTC	0.677													16	26	---	---	---	---	PASS	T	1651512	T	T	1651512	3	4	60	1	0	0	0	0	1	0	0	0	8564	1232	43	3	444	3	KRTAP5-5	11	1651512	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1093613	1651512	133355004	319	23387										
RRM1	6240	broad.mit.edu	37	chr11	4154832	4154832	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgaaagatcttaccgagcggGgcctatggcatgaagagatg	14	7	1	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:4154832G>T	uc001lyw.3	+	17	2264	c.1945G>T	c.(1945-1947)GGC>TGC	p.G649C	RRM1_uc009yej.2_RNA|RRM1_uc009yei.2_Missense_Mutation_p.G609C|RRM1_uc010qyc.1_Missense_Mutation_p.G552C|RRM1_uc010qyd.1_Missense_Mutation_p.G311C	NM_001033	NP_001024	P23921	RIR1_HUMAN	ribonucleoside-diphosphate reductase M1 chain	649					deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion	cytosol|nucleoplasm|ribonucleoside-diphosphate reductase complex	ATP binding|ribonucleoside-diphosphate reductase activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00502)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0848)|LUSC - Lung squamous cell carcinoma(625;0.205)	Clofarabine(DB00631)|Fludarabine(DB01073)|Gemcitabine(DB00441)|Hydroxyurea(DB01005)	TACCGAGCGGGGCCTATGGCA	0.388													27	60	---	---	---	---	PASS	T	4154832	T	T	4154832	3	4	60	1	0	0	0	0	1	0	0	0	13681	1232	43	3	2011	3	RRM1	11	4154832	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2503320	4154832	130851684	320	23388										
OR51F1	256892	broad.mit.edu	37	chr11	4790700	4790700	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tactatagcacgtgtaatcaTcagaagacccatttgaatga	7	8	2	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:4790700T>A	uc010qyl.1	-	1	448	c.448A>T	c.(448-450)ATG>TTG	p.M150L		NM_001004752	NP_001004752	A6NLW9	A6NLW9_HUMAN	olfactory receptor, family 51, subfamily F,	150						integral to membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.87e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0045)|LUSC - Lung squamous cell carcinoma(625;0.192)		CGTGTAATCATCAGAAGACCC	0.428													39	61	---	---	---	---	PASS	A	4790700	A	A	4790700	3	1	60	1	0	0	0	0	1	0	0	0	11096	1435	50	5	493	5	OR51F1	11	4790700	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	635868	4790700	130215816	321	23389										
OR51G2	81282	broad.mit.edu	37	chr11	4936228	4936228	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtgcgcaggatcagagcataAgagaagaggatgagcagtga	16	5	1	5			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:4936228A>T	uc001lzr.1	-	1	666	c.666T>A	c.(664-666)TCT>TCA	p.S222S		NM_001005238	NP_001005238	Q8NGK0	O51G2_HUMAN	olfactory receptor, family 51, subfamily G,	222	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCAGAGCATAAGAGAAGAGGA	0.522													22	66	---	---	---	---	PASS	T	4936228	T	T	4936228	2	4	60	1	0	0	0	0	0	0	0	1	11099	59	3	5		5	OR51G2	11	4936228	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	145528	4936228	130070288	322	23390										
OR51V1	283111	broad.mit.edu	37	chr11	5221333	5221333	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtaactattgaatcggatgtCtgaacaggctaagcggagaa	12	6	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:5221333C>A	uc010qyz.1	-	1	598	c.598G>T	c.(598-600)GAC>TAC	p.D200Y		NM_001004760	NP_001004760	Q9H2C8	O51V1_HUMAN	olfactory receptor, family 51, subfamily V,	200	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.83e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AATCGGATGTCTGAACAGGCT	0.418													36	62	---	---	---	---	PASS	A	5221333	A	A	5221333	3	1	60	1	0	0	0	0	1	0	0	0	11107	913	32	2	370	2	OR51V1	11	5221333	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	285105	5221333	129785183	323	23391										
HBG1	3047	broad.mit.edu	37	chr11	5270650	5270650	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cacagtgcagttcactcagcTgggcaaaggtgcccttgaga	12	11	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:5270650T>C	uc001mah.1	-	2	316	c.263A>G	c.(262-264)CAG>CGG	p.Q88R	HBG2_uc001mai.1_Intron	NM_000559	NP_000550	P69891	HBG1_HUMAN	A-gamma globin	88					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity|protein binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTCACTCAGCTGGGCAAAGGT	0.522													5	55	---	---	---	---	PASS	C	5270650	C	C	5270650	3	2	60	1	0	0	0	0	1	0	0	0	6982	1580	55	5	188	5	HBG1	11	5270650	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	49317	5270650	129735866	324	23392										
HBG2	3048	broad.mit.edu	37	chr11	5275574	5275574	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cacagtgcagttcactcagcTgggcaaaggtgcccttgaga	12	11	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:5275574T>C	uc001mai.1	-	2	700	c.263A>G	c.(262-264)CAG>CGG	p.Q88R	HBG2_uc001mak.1_RNA|HBG2_uc001maj.1_Missense_Mutation_p.Q88R	NM_000559	NP_000550	P69892	HBG2_HUMAN	A-gamma globin	88					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTCACTCAGCTGGGCAAAGGT	0.512													26	158	---	---	---	---	PASS	C	5275574	C	C	5275574	3	2	60	1	0	0	0	0	1	0	0	0	6983	1580	55	5	188	5	HBG2	11	5275574	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	4924	5275574	129730942	325	23393										
OR56A3	390083	broad.mit.edu	37	chr11	5969255	5969255	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tctcctacaccttcattctgCgagctgtgctgagactcaag	8	13	4	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:5969255C>T	uc010qzt.1	+	1	679	c.679C>T	c.(679-681)CGA>TGA	p.R227*		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	227	Cytoplasmic (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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTTCATTCTGCGAGCTGTGCT	0.517													69	157	---	---	---	---	PASS	T	5969255	T	T	5969255	4	4	60	1	0	0	0	0	0	1	0	0	11134	760	27	1	681	1	OR56A3	11	5969255	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	693681	5969255	129037261	326	23394										
OR56A3	390083	broad.mit.edu	37	chr11	5969377	5969377	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtttttgtcctcacacatgtGgctaagaagaaagtctcccc	8	11	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:5969377G>T	uc010qzt.1	+	1	801	c.801G>T	c.(799-801)GTG>GTT	p.V267V		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	267	Extracellular (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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCACACATGTGGCTAAGAAGA	0.522													72	197	---	---	---	---	PASS	T	5969377	T	T	5969377	2	4	60	1	0	0	0	0	0	0	0	1	11134	1335	47	3		3	OR56A3	11	5969377	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	122	5969377	129037139	327	23395										
OR52L1	338751	broad.mit.edu	37	chr11	6007834	6007834	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aggcagacgatgtacccaatCtcgtgggcatgaaccaggag	13	10	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:6007834C>A	uc001mcd.2	-	1	382	c.327G>T	c.(325-327)GAG>GAT	p.E109D		NM_001005173	NP_001005173	Q8NGH7	O52L1_HUMAN	olfactory receptor, family 52, subfamily L,	109	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.98e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGTACCCAATCTCGTGGGCAT	0.542													18	27	---	---	---	---	PASS	A	6007834	A	A	6007834	3	1	60	1	0	0	0	0	1	0	0	0	11125	912	32	2	666	2	OR52L1	11	6007834	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	38457	6007834	128998682	328	23396										
DCHS1	8642	broad.mit.edu	37	chr11	6651098	6651098	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caccactgtcagtacgtgctCagctcgttgttcgcggtcca	10	14	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:6651098C>A	uc001mem.1	-	11	5250	c.4840G>T	c.(4840-4842)GAG>TAG	p.E1614*		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1614	Cadherin 15.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGTACGTGCTCAGCTCGTTGT	0.662													26	55	---	---	---	---	PASS	A	6651098	A	A	6651098	4	1	60	1	0	0	0	0	0	1	0	0	4287	835	29	2	5100	2	DCHS1	11	6651098	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	643264	6651098	128355418	329	23397										
OR10A3	26496	broad.mit.edu	37	chr11	7960523	7960523	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acacaagctctagtaccgggGgagtctcacagaagagatga	12	9	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:7960523G>A	uc010rbi.1	-	1	545	c.545C>T	c.(544-546)CCC>CTC	p.P182L		NM_001003745	NP_001003745	P58181	O10A3_HUMAN	olfactory receptor, family 10, subfamily A,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1				Epithelial(150;1.38e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TAGTACCGGGGGAGTCTCACA	0.438													44	70	---	---	---	---	PASS	A	7960523	A	A	7960523	3	1	60	1	0	0	0	0	1	0	0	0	10891	1232	43	3	402	3	OR10A3	11	7960523	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1309425	7960523	127045993	330	23398										
EIF4G2	1982	broad.mit.edu	37	chr11	10827516	10827516	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttgcggagttgtttgctgcGgagttgtcatctcgtctagt	13	7	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:10827516G>A	uc001mjc.2	-	4	603	c.186C>T	c.(184-186)TCC>TCT	p.S62S	EIF4G2_uc001mjb.2_5'UTR|EIF4G2_uc009ygf.2_5'UTR|EIF4G2_uc001mjd.2_Silent_p.S62S|EIF4G2_uc001mjf.1_5'UTR	NM_001418	NP_001409	P78344	IF4G2_HUMAN	eukaryotic translation initiation factor 4	62					cell cycle arrest|cell death|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		TGTTTGCTGCGGAGTTGTCAT	0.433													102	229	---	---	---	---	PASS	A	10827516	A	A	10827516	2	1	60	1	0	0	0	0	0	0	0	1	5037	1103	39	1		1	EIF4G2	11	10827516	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	2866993	10827516	124179000	331	23399										
KCNC1	3746	broad.mit.edu	37	chr11	17793277	17793277	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	accttctgcctggagacccaCgagcgcttcaaccccatcgt	8	17	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:17793277C>A	uc001mnk.3	+	2	691	c.636C>A	c.(634-636)CAC>CAA	p.H212Q	KCNC1_uc009yhc.1_Missense_Mutation_p.H212Q	NM_004976	NP_004967	P48547	KCNC1_HUMAN	Shaw-related voltage-gated potassium channel	212						voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)	1						TGGAGACCCACGAGCGCTTCA	0.577													48	106	---	---	---	---	PASS	A	17793277	A	A	17793277	3	1	60	1	0	0	0	0	1	0	0	0	8014	535	19	1	642	1	KCNC1	11	17793277	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	6965761	17793277	117213239	332	23400										
SLC1A2	6506	broad.mit.edu	37	chr11	35313909	35313909	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agaaggggtttttcctggtcActacaaagtaaatcaagggg	12	6	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:35313909A>C	uc001mwd.2	-	7	1608	c.1016T>G	c.(1015-1017)GTG>GGG	p.V339G	SLC1A2_uc001mwe.2_Missense_Mutation_p.V330G|SLC1A2_uc010rev.1_Missense_Mutation_p.V339G	NM_004171	NP_004162	P43004	EAA2_HUMAN	excitatory amino acid transporter 2	339	Helical; (Potential).				D-aspartate import|L-glutamate import|synaptic transmission	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|central_nervous_system(1)	3	all_lung(20;0.211)|all_epithelial(35;0.234)	all_hematologic(20;0.109)	STAD - Stomach adenocarcinoma(6;0.00731)		L-Glutamic Acid(DB00142)	TTTCCTGGTCACTACAAAGTA	0.473													72	166	---	---	---	---	PASS	C	35313909	C	C	35313909	3	2	60	1	0	0	0	0	1	0	0	0	14432	159	6	5	728	5	SLC1A2	11	35313909	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	17520632	35313909	99692607	333	23401										
RAG2	5897	broad.mit.edu	37	chr11	36615433	36615433	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctcattgtttggtgttttccCtccatggatgatgtattgat	9	7	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:36615433C>A	uc001mwv.3	-	2	474	c.286G>T	c.(286-288)GGG>TGG	p.G96W	C11orf74_uc010rfd.1_5'Flank|C11orf74_uc001mww.1_5'Flank|C11orf74_uc001mwx.1_5'Flank|C11orf74_uc001mwy.1_5'Flank|C11orf74_uc001mwz.1_5'Flank|C11orf74_uc010rfe.1_5'Flank	NM_000536	NP_000527	P55895	RAG2_HUMAN	recombination activating gene 2	96					chromatin modification|pre-B cell allelic exclusion|somatic diversification of immunoglobulins|T cell differentiation in thymus|V(D)J recombination	nucleus	chromatin binding|DNA binding|endonuclease activity|methylated histone residue binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|zinc ion binding			skin(3)|ovary(1)|pancreas(1)	5	all_lung(20;0.226)	all_hematologic(20;0.00756)				GGTGTTTTCCCTCCATGGATG	0.423									Familial_Hemophagocytic_Lymphohistiocytosis				51	139	---	---	---	---	PASS	A	36615433	A	A	36615433	3	1	60	1	0	0	0	0	1	0	0	0	13005	681	24	3	1301	3	RAG2	11	36615433	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1301524	36615433	98391083	334	23402										
TTC17	55761	broad.mit.edu	37	chr11	43411371	43411371	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttggagagcaaagacatcaGgtaaagaagttctctttcca	9	7	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:43411371G>T	uc001mxi.2	+	3	433	c.419G>T	c.(418-420)AGT>ATT	p.S140I	TTC17_uc001mxh.2_Missense_Mutation_p.S140I|TTC17_uc010rfj.1_Missense_Mutation_p.S83I	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	140							binding			ovary(5)	5						AAAGACATCAGGTAAAGAAGT	0.358													52	92	---	---	---	---	PASS	T	43411371	T	T	43411371	3	4	60	1	0	0	0	0	1	0	0	0	16681	1014	35	3	429	3	TTC17	11	43411371	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	6795938	43411371	91595145	335	23403										
MTCH2	23788	broad.mit.edu	37	chr11	47660338	47660338	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aacaacccgcgcctcccatcGatactggcaatgtgctgagc	9	15	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:47660338G>A	uc010rho.1	-	3	381	c.192C>T	c.(190-192)ATC>ATT	p.I64I	MTCH2_uc001nge.2_5'UTR|MTCH2_uc010rhp.1_5'UTR	NM_014342	NP_055157	Q9Y6C9	MTCH2_HUMAN	mitochondrial carrier 2	64	Solcar 1.				transport	integral to membrane|mitochondrial inner membrane					0						GCCTCCCATCGATACTGGCAA	0.433													21	78	---	---	---	---	PASS	A	47660338	A	A	47660338	2	1	60	1	0	0	0	0	0	0	0	1	9914	1048	37	2		2	MTCH2	11	47660338	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	4248967	47660338	87346178	336	23404										
OR4X2	119764	broad.mit.edu	37	chr11	48267239	48267239	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tctgctgattgttgccaatgGaggcaccctgtctgtgatca	11	10	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:48267239G>T	uc001ngs.1	+	1	584	c.584G>T	c.(583-585)GGA>GTA	p.G195V		NM_001004727	NP_001004727	Q8NGF9	OR4X2_HUMAN	olfactory receptor, family 4, subfamily X,	195	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTTGCCAATGGAGGCACCCTG	0.502													98	206	---	---	---	---	PASS	T	48267239	T	T	48267239	3	4	60	1	0	0	0	0	1	0	0	0	11085	1174	41	2	586	2	OR4X2	11	48267239	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	606901	48267239	86739277	337	23405										
OR4A47	403253	broad.mit.edu	37	chr11	48510770	48510770	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caatgggtgtgtgttgtgctGctggtagtgtcctgggttgg	18	5	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:48510770G>C	uc010rhx.1	+	1	426	c.426G>C	c.(424-426)CTG>CTC	p.L142L		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GTGTTGTGCTGCTGGTAGTGT	0.448													63	100	---	---	---	---	PASS	C	48510770	C	C	48510770	2	2	60	1	0	0	0	0	0	0	0	1	11042	1306	46	4		4	OR4A47	11	48510770	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	243531	48510770	86495746	338	23406										
OR4C13	283092	broad.mit.edu	37	chr11	49974765	49974765	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gagacctccagctactttacCcattgataaagcagttgctg	8	11	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:49974765C>A	uc010rhz.1	+	1	791	c.791C>A	c.(790-792)CCC>CAC	p.P264H		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						GCTACTTTACCCATTGATAAA	0.408													76	166	---	---	---	---	PASS	A	49974765	A	A	49974765	3	1	60	1	0	0	0	0	1	0	0	0	11047	623	22	3	793	3	OR4C13	11	49974765	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1463995	49974765	85031751	339	23407										
OR4A15	81328	broad.mit.edu	37	chr11	55135439	55135439	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acacctgagtccaacaccttCagaagaacacatgaaaaata	5	11	1	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:55135439C>T	uc010rif.1	+	1	80	c.80C>T	c.(79-81)TCA>TTA	p.S27L		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	27	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CCAACACCTTCAGAAGAACAC	0.388													34	52	---	---	---	---	PASS	T	55135439	T	T	55135439	3	4	60	1	0	0	0	0	1	0	0	0	11040	838	29	2	82	2	OR4A15	11	55135439	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	5160674	55135439	79871077	340	23408										
OR4A15	81328	broad.mit.edu	37	chr11	55135835	55135835	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggccatctgtaagcctcttcAtgaattgatcaccatgaatc	7	11	4	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:55135835A>G	uc010rif.1	+	1	476	c.476A>G	c.(475-477)CAT>CGT	p.H159R		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	159	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AAGCCTCTTCATGAATTGATC	0.413													18	308	---	---	---	---	PASS	G	55135835	G	G	55135835	3	3	60	1	0	0	0	0	1	0	0	0	11040	217	8	5	478	5	OR4A15	11	55135835	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	396	55135835	79870681	341	23409										
OR4C15	81309	broad.mit.edu	37	chr11	55321947	55321947	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atcttttccttgggaaacatGcaaaaccaaagctttgtaac	6	9	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:55321947G>T	uc010rig.1	+	1	165	c.165G>T	c.(163-165)ATG>ATT	p.M55I		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGGGAAACATGCAAAACCAAA	0.363										HNSCC(20;0.049)			70	171	---	---	---	---	PASS	T	55321947	T	T	55321947	3	4	60	1	0	0	0	0	1	0	0	0	11048	1319	46	3	167	3	OR4C15	11	55321947	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	186112	55321947	79684569	342	23410										
OR8K5	219453	broad.mit.edu	37	chr11	55927225	55927225	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	attctatttcctgtgcatttGagcaaagcataggtagcaaa	8	7	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:55927225G>C	uc010rja.1	-	1	569	c.569C>G	c.(568-570)TCA>TGA	p.S190*		NM_001004058	NP_001004058	Q8NH50	OR8K5_HUMAN	olfactory receptor, family 8, subfamily K,	190	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(21;0.00693)	Lung NSC(402;0.197)|all_epithelial(135;0.236)				CTGTGCATTTGAGCAAAGCAT	0.338													50	80	---	---	---	---	PASS	C	55927225	C	C	55927225	4	2	60	1	0	0	0	0	0	1	0	0	11245	1294	45	2	357	2	OR8K5	11	55927225	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	605278	55927225	79079291	343	23411										
OR9G4	283189	broad.mit.edu	37	chr11	56510514	56510514	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agcatgactgagatgaggtgGgaagcacaggtggagaatgc	17	5	0	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:56510514G>T	uc010rjo.1	-	1	774	c.774C>A	c.(772-774)TCC>TCA	p.S258S		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	258	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						AGATGAGGTGGGAAGCACAGG	0.468													45	90	---	---	---	---	PASS	T	56510514	T	T	56510514	2	4	60	1	0	0	0	0	0	0	0	1	11251	1219	43	3		3	OR9G4	11	56510514	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	583289	56510514	78496002	344	23412										
OR9I1	219954	broad.mit.edu	37	chr11	57886368	57886368	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgcaggcaagcttcagcagGggtgggaggtcacagaagaa	16	8	2	2	rs138832584		TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:57886368G>T	uc001nml.1	-	1	549	c.549C>A	c.(547-549)CCC>CCA	p.P183P	OR9Q1_uc001nmj.2_Intron	NM_001005211	NP_001005211	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Breast(21;0.0589)				GCTTCAGCAGGGGTGGGAGGT	0.483													28	50	---	---	---	---	PASS	T	57886368	T	T	57886368	2	4	60	1	0	0	0	0	0	0	0	1	11253	1219	43	3		3	OR9I1	11	57886368	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	1375854	57886368	77120148	345	23413										
OR5B2	390190	broad.mit.edu	37	chr11	58189970	58189970	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gagctgggctgcaagtagatGaagattactgtcccatagaa	12	7	0	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:58189970G>A	uc010rkg.1	-	1	765	c.765C>T	c.(763-765)TTC>TTT	p.F255F		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GCAAGTAGATGAAGATTACTG	0.488													20	60	---	---	---	---	PASS	A	58189970	A	A	58189970	2	1	60	1	0	0	0	0	0	0	0	1	11150	1281	45	2		2	OR5B2	11	58189970	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	303602	58189970	76816546	346	23414										
CD5	921	broad.mit.edu	37	chr11	60886821	60886821	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tatgaggcccaggacaagacCcaggacctggagaacttcct	11	12	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:60886821C>A	uc009ynk.2	+	5	682	c.579C>A	c.(577-579)ACC>ACA	p.T193T		NM_014207	NP_055022	P06127	CD5_HUMAN	CD5 molecule precursor	193	Extracellular (Potential).|SRCR 2.				cell proliferation|cell recognition	integral to plasma membrane	scavenger receptor activity			ovary(1)	1		all_lung(304;5.94e-05)|Lung NSC(402;7.26e-05)		BRCA - Breast invasive adenocarcinoma(625;0.000946)|Lung(977;0.0086)|LUSC - Lung squamous cell carcinoma(625;0.0528)		AGGACAAGACCCAGGACCTGG	0.622													38	97	---	---	---	---	PASS	A	60886821	A	A	60886821	2	1	60	1	0	0	0	0	0	0	0	1	3021	610	22	3		3	CD5	11	60886821	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	2696851	60886821	74119695	347	23415										
CD5	921	broad.mit.edu	37	chr11	60893276	60893276	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agcctgacaactcctccgacAgtgactatgatctgcatggg	10	12	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:60893276A>G	uc009ynk.2	+	10	1556	c.1453A>G	c.(1453-1455)AGT>GGT	p.S485G		NM_014207	NP_055022	P06127	CD5_HUMAN	CD5 molecule precursor	485	Cytoplasmic (Potential).				cell proliferation|cell recognition	integral to plasma membrane	scavenger receptor activity			ovary(1)	1		all_lung(304;5.94e-05)|Lung NSC(402;7.26e-05)		BRCA - Breast invasive adenocarcinoma(625;0.000946)|Lung(977;0.0086)|LUSC - Lung squamous cell carcinoma(625;0.0528)		CTCCTCCGACAGTGACTATGA	0.602													18	32	---	---	---	---	PASS	G	60893276	G	G	60893276	3	3	60	1	0	0	0	0	1	0	0	0	3021	188	7	5	1491	5	CD5	11	60893276	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	6455	60893276	74113240	348	23416										
AHNAK	79026	broad.mit.edu	37	chr11	62293633	62293633	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccatgaacatcaacatcaggTgcgtcaatgtccacttttgg	8	11	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:62293633T>A	uc001ntl.2	-	5	8556	c.8256A>T	c.(8254-8256)GCA>GCT	p.A2752A	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2752					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CAACATCAGGTGCGTCAATGT	0.498													118	197	---	---	---	---	PASS	A	62293633	A	A	62293633	2	1	60	1	0	0	0	0	0	0	0	1	414	1683	59	5		5	AHNAK	11	62293633	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	1400357	62293633	72712883	349	23417										
SLC3A2	6520	broad.mit.edu	37	chr11	62653041	62653041	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acccctgttttcagctacggGgatgagattggcctggatgc	13	10	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:62653041G>A	uc001nwd.2	+	10	1631	c.1407G>A	c.(1405-1407)GGG>GGA	p.G469G	SLC3A2_uc001nwb.2_Silent_p.G500G|SLC3A2_uc001nwc.2_Silent_p.G470G|SLC3A2_uc001nwe.2_Silent_p.G438G|SLC3A2_uc001nwf.2_Silent_p.G407G|SLC3A2_uc001nwg.2_Silent_p.G368G	NM_002394	NP_002385	P08195	4F2_HUMAN	solute carrier family 3, member 2 isoform c	469	Extracellular (Potential).				blood coagulation|carbohydrate metabolic process|cell growth|cellular nitrogen compound metabolic process|leucine import|leukocyte migration|tryptophan transport	apical plasma membrane|cell surface|integral to membrane|melanosome	calcium:sodium antiporter activity|catalytic activity|cation binding|neutral amino acid transmembrane transporter activity|protein binding				0						TCAGCTACGGGGATGAGATTG	0.527													142	373	---	---	---	---	PASS	A	62653041	A	A	62653041	2	1	60	1	0	0	0	0	0	0	0	1	14627	1219	43	3		3	SLC3A2	11	62653041	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	359408	62653041	72353475	350	23418										
PCNXL3	399909	broad.mit.edu	37	chr11	65384478	65384478	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cccagggggacagcaatccaCccaggtgggtggggtagggg	19	10	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:65384478C>A	uc001oey.2	+	2	337	c.337C>A	c.(337-339)CCC>ACC	p.P113T	MAP3K11_uc001oew.2_5'Flank	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	113						integral to membrane					0						CAGCAATCCACCCAGGTGGGT	0.617													9	15	---	---	---	---	PASS	A	65384478	A	A	65384478	3	1	60	1	0	0	0	0	1	0	0	0	11593	507	18	3	343	3	PCNXL3	11	65384478	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2731437	65384478	69622038	351	23419										
NDUFS8	4728	broad.mit.edu	37	chr11	67799650	67799650	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gaccacgcctatgctgctgcGggccctggcccaggctgcac	13	17	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:67799650G>A	uc001onc.2	+	2	139	c.32G>A	c.(31-33)CGG>CAG	p.R11Q	NDUFS8_uc010rpz.1_Missense_Mutation_p.R11Q|NDUFS8_uc009ysb.1_Intron|NDUFS8_uc009ysc.1_Missense_Mutation_p.R11Q	NM_002496	NP_002487	O00217	NDUS8_HUMAN	NADH dehydrogenase ubiquinone Fe-S 8 precursor	11					mitochondrial electron transport, NADH to ubiquinone|mitochondrial respiratory chain complex I assembly|response to oxidative stress|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity			skin(1)	1					NADH(DB00157)	ATGCTGCTGCGGGCCCTGGCC	0.607													26	269	---	---	---	---	PASS	A	67799650	A	A	67799650	3	1	60	1	0	0	0	0	1	0	0	0	10298	1116	39	1	34	1	NDUFS8	11	67799650	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2415172	67799650	67206866	352	23420										
PPFIA1	8500	broad.mit.edu	37	chr11	70172916	70172916	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acacaaaattgcaacgagatGtccgtgaagtgagcaataac	9	8	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:70172916G>A	uc001opo.2	+	7	1120	c.922G>A	c.(922-924)GTC>ATC	p.V308I	PPFIA1_uc001opn.1_Missense_Mutation_p.V308I|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	308	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			GCAACGAGATGTCCGTGAAGT	0.373													39	70	---	---	---	---	PASS	A	70172916	A	A	70172916	3	1	60	1	0	0	0	0	1	0	0	0	12309	1377	48	3	944	3	PPFIA1	11	70172916	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2373266	70172916	64833600	353	23421										
NUMA1	4926	broad.mit.edu	37	chr11	71730594	71730594	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gctctaggaagcgaatctccCtcttggcctggtggctaggt	13	11	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:71730594C>T	uc001orl.1	-	9	702	c.530G>A	c.(529-531)AGG>AAG	p.R177K	NUMA1_uc001ork.1_Missense_Mutation_p.R177K|NUMA1_uc001orm.1_Missense_Mutation_p.R177K|NUMA1_uc009ysx.1_Missense_Mutation_p.R177K|NUMA1_uc001oro.1_Missense_Mutation_p.R177K|NUMA1_uc009ysy.1_Missense_Mutation_p.R177K|NUMA1_uc001orp.2_Missense_Mutation_p.R177K|NUMA1_uc001orq.2_Missense_Mutation_p.R177K	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	177					G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						GCGAATCTCCCTCTTGGCCTG	0.522			T	RARA	APL								4	189	---	---	---	---	PASS	T	71730594	T	T	71730594	3	4	60	1	0	0	0	0	1	0	0	0	10750	681	24	3	5893	3	NUMA1	11	71730594	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1557678	71730594	63275922	354	23422										
DNAJB13	374407	broad.mit.edu	37	chr11	73670544	73670544	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gatgcccatccacagccatgAagagaggcatctacgacaag	10	12	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:73670544A>T	uc001ouo.2	+	3	929	c.178A>T	c.(178-180)AAG>TAG	p.K60*		NM_153614	NP_705842	P59910	DJB13_HUMAN	testis spermatogenesis apoptosis-related protein	60	J.				apoptosis|protein folding|spermatogenesis		heat shock protein binding|unfolded protein binding				0	Breast(11;7.42e-05)					CACAGCCATGAAGAGAGGCAT	0.547													26	48	---	---	---	---	PASS	T	73670544	T	T	73670544	4	4	60	1	0	0	0	0	0	1	0	0	4618	247	9	5	188	5	DNAJB13	11	73670544	Nonsense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	1939950	73670544	61335972	355	23423										
PGM2L1	283209	broad.mit.edu	37	chr11	74053659	74053659	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atggtaggtggttcataacaCaagaaataggaagtttttga	11	3	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:74053659C>G	uc001ovb.1	-	12	1775	c.1479G>C	c.(1477-1479)TTG>TTC	p.L493F		NM_173582	NP_775853	Q6PCE3	PGM2L_HUMAN	phosphoglucomutase 2-like 1	493					glucose 1-phosphate metabolic process	cytosol	glucose-1,6-bisphosphate synthase activity|phosphoglucomutase activity			ovary(1)	1	Breast(11;3.32e-06)					GTTCATAACACAAGAAATAGG	0.279													56	125	---	---	---	---	PASS	G	74053659	G	G	74053659	3	3	60	1	0	0	0	0	1	0	0	0	11799	477	17	4	401	4	PGM2L1	11	74053659	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	383115	74053659	60952857	356	23424										
PRKRIR	5612	broad.mit.edu	37	chr11	76063707	76063707	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tagagattttaggtattcttTgttttccttctcttcaaggg	8	6	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:76063707T>C	uc001oxh.1	-	5	487	c.487A>G	c.(487-489)AAA>GAA	p.K163E	PRKRIR_uc010rrz.1_5'UTR	NM_004705	NP_004696	O43422	P52K_HUMAN	protein-kinase, interferon-inducible double	163					negative regulation of cell proliferation|response to stress|signal transduction		DNA binding|metal ion binding|protein dimerization activity			ovary(2)|pancreas(1)	3						AGGTATTCTTTGTTTTCCTTC	0.408													21	52	---	---	---	---	PASS	C	76063707	C	C	76063707	3	2	60	1	0	0	0	0	1	0	0	0	12526	1821	63	5	1802	5	PRKRIR	11	76063707	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	2010048	76063707	58942809	357	23425										
PRKRIR	5612	broad.mit.edu	37	chr11	76063827	76063827	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atgtttttgttcctgctcagAagtttcatcaactggaaaac	7	8	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:76063827A>C	uc001oxh.1	-	5	367	c.367T>G	c.(367-369)TCT>GCT	p.S123A	PRKRIR_uc010rrz.1_5'UTR	NM_004705	NP_004696	O43422	P52K_HUMAN	protein-kinase, interferon-inducible double	123					negative regulation of cell proliferation|response to stress|signal transduction		DNA binding|metal ion binding|protein dimerization activity			ovary(2)|pancreas(1)	3						TCCTGCTCAGAAGTTTCATCA	0.338													11	35	---	---	---	---	PASS	C	76063827	C	C	76063827	3	2	60	1	0	0	0	0	1	0	0	0	12526	246	9	5	1922	5	PRKRIR	11	76063827	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	120	76063827	58942689	358	23426										
PCF11	51585	broad.mit.edu	37	chr11	82893032	82893032	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gttccaaagtgtacctgctgGaccagctggagcagttgagg	14	9	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:82893032G>C	uc001ozx.3	+	13	4649	c.4304G>C	c.(4303-4305)GGA>GCA	p.G1435A		NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	1435					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						GTACCTGCTGGACCAGCTGGA	0.428													10	30	---	---	---	---	PASS	C	82893032	C	C	82893032	3	2	60	1	0	0	0	0	1	0	0	0	11573	1174	41	2	4354	2	PCF11	11	82893032	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	6829205	82893032	52113484	359	23427										
DLG2	1740	broad.mit.edu	37	chr11	83173090	83173090	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttctagcttaattgctcgatCataggttttcttggcttgtt	8	7	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:83173090C>T	uc001paj.2	-	22	2764	c.2461G>A	c.(2461-2463)GAT>AAT	p.D821N	DLG2_uc001pai.2_Missense_Mutation_p.D700N|DLG2_uc010rsy.1_Missense_Mutation_p.D770N|DLG2_uc010rsz.1_Missense_Mutation_p.D817N|DLG2_uc010rta.1_Missense_Mutation_p.D803N|DLG2_uc001pak.2_Missense_Mutation_p.D926N|DLG2_uc010rtb.1_Missense_Mutation_p.D788N|DLG2_uc010rsw.1_Missense_Mutation_p.D285N|DLG2_uc010rsx.1_Missense_Mutation_p.D298N	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	821	Guanylate kinase-like.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				ATTGCTCGATCATAGGTTTTC	0.363													34	108	---	---	---	---	PASS	T	83173090	T	T	83173090	3	4	60	1	0	0	0	0	1	0	0	0	4555	826	29	2	159	2	DLG2	11	83173090	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	280058	83173090	51833426	360	23428										
MAML2	84441	broad.mit.edu	37	chr11	95712854	95712854	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttggccctaaggtaggtggcCgtggcatcatagggttgttt	15	7	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:95712854C>A	uc001pfw.1	-	5	4014	c.2729G>T	c.(2728-2730)CGG>CTG	p.R910L		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	910					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				GGTAGGTGGCCGTGGCATCAT	0.403			T	MECT1|CRTC3	salivary gland mucoepidermoid								59	103	---	---	---	---	PASS	A	95712854	A	A	95712854	3	1	60	1	0	0	0	0	1	0	0	0	9206	652	23	1	745	1	MAML2	11	95712854	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	12539764	95712854	39293662	361	23429										
KIAA1377	57562	broad.mit.edu	37	chr11	101834490	101834490	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gatgcgacattatattgcacCcaaagaagtcctgtttgtga	9	8	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:101834490C>T	uc001pgm.2	+	6	2994	c.2724C>T	c.(2722-2724)ACC>ACT	p.T908T	KIAA1377_uc001pgn.2_Silent_p.T864T|KIAA1377_uc010run.1_Silent_p.T709T|KIAA1377_uc009yxa.1_Silent_p.T709T	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	908							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		TATATTGCACCCAAAGAAGTC	0.418													75	143	---	---	---	---	PASS	T	101834490	T	T	101834490	2	4	60	1	0	0	0	0	0	0	0	1	8227	610	22	3		3	KIAA1377	11	101834490	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	6121636	101834490	33172026	362	23430										
KBTBD3	143879	broad.mit.edu	37	chr11	105924568	105924568	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtcgagcatcagggaagagtCcaccagaaccttgcacacac	10	13	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:105924568C>A	uc001pja.2	-	4	1488	c.848G>T	c.(847-849)GGA>GTA	p.G283V	KBTBD3_uc001pjb.2_Missense_Mutation_p.G283V|KBTBD3_uc009yxm.2_Missense_Mutation_p.G204V	NM_198439	NP_940841	Q8NAB2	KBTB3_HUMAN	BTB and kelch domain containing 3	279										ovary(1)|central_nervous_system(1)	2		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.43e-05)|Epithelial(105;0.00418)|all cancers(92;0.0299)		AGGGAAGAGTCCACCAGAACC	0.368													38	69	---	---	---	---	PASS	A	105924568	A	A	105924568	3	1	60	1	0	0	0	0	1	0	0	0	7994	855	30	2	994	2	KBTBD3	11	105924568	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	4090078	105924568	29081948	363	23431										
DRD2	1813	broad.mit.edu	37	chr11	113283468	113283468	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcggggctgtcgggagtgctGtggagaccatggtgggacgg	22	7	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:113283468G>T	uc001pnz.2	-	6	1269	c.948C>A	c.(946-948)CAC>CAA	p.H316Q	DRD2_uc010rwv.1_Missense_Mutation_p.H315Q|DRD2_uc001poa.3_Missense_Mutation_p.H316Q|DRD2_uc001pob.3_Missense_Mutation_p.H287Q	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	316	Cytoplasmic (By similarity).|Interaction with PPP1R9B (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		all_cancers(61;3.91e-16)|all_epithelial(67;2.95e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000977)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0494)		BRCA - Breast invasive adenocarcinoma(274;5.77e-06)|Epithelial(105;6.66e-05)|all cancers(92;0.000307)|OV - Ovarian serous cystadenocarcinoma(223;0.216)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	CGGGAGTGCTGTGGAGACCAT	0.617													15	62	---	---	---	---	PASS	T	113283468	T	T	113283468	3	4	60	1	0	0	0	0	1	0	0	0	4757	1368	48	3	391	3	DRD2	11	113283468	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	7358900	113283468	21723048	364	23432										
RBM7	10179	broad.mit.edu	37	chr11	114271399	114271399	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gggggcgacgctgagatgggGgcggcggcggcggaagcgga	25	8	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:114271399G>T	uc001pov.2	+	1	16	c.6G>T	c.(4-6)GGG>GGT	p.G2G	C11orf71_uc001pot.1_5'Flank|C11orf71_uc001pou.3_5'Flank|RBM7_uc001pow.2_Silent_p.G2G|RBM7_uc001pox.2_5'UTR	NM_016090	NP_057174	Q9Y580	RBM7_HUMAN	RNA binding motif protein 7	2					meiosis		nucleotide binding|protein binding|RNA binding			ovary(2)	2		all_cancers(61;5.06e-12)|all_epithelial(67;5.3e-06)|all_hematologic(158;7.68e-05)|Acute lymphoblastic leukemia(157;0.000966)|Melanoma(852;0.00153)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.0818)|Prostate(24;0.104)		BRCA - Breast invasive adenocarcinoma(274;2.56e-06)|Epithelial(105;4.17e-05)|all cancers(92;0.000348)		CTGAGATGGGGGCGGCGGCGG	0.637													12	51	---	---	---	---	PASS	T	114271399	T	T	114271399	2	4	60	1	0	0	0	0	0	0	0	1	13145	1219	43	3		3	RBM7	11	114271399	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	987931	114271399	20735117	365	23433										
TMPRSS13	84000	broad.mit.edu	37	chr11	117784529	117784529	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctggcaggtcttctctgagtAggagtcattccagttgctgc	12	10	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:117784529A>G	uc001prs.1	-	5	865	c.772T>C	c.(772-774)TAC>CAC	p.Y258H	TMPRSS13_uc009yzr.1_5'UTR|TMPRSS13_uc001prt.1_5'UTR|TMPRSS13_uc001pru.1_Missense_Mutation_p.Y258H	NM_001077263	NP_001070731	Q9BYE2	TMPSD_HUMAN	transmembrane protease, serine 13	253	Extracellular (Potential).|SRCR.				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			pancreas(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.00106)		TTCTCTGAGTAGGAGTCATTC	0.547													47	92	---	---	---	---	PASS	G	117784529	G	G	117784529	3	3	60	1	0	0	0	0	1	0	0	0	16242	420	15	5	967	5	TMPRSS13	11	117784529	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	3513130	117784529	17221987	366	23434										
SCN3B	55800	broad.mit.edu	37	chr11	123516382	123516382	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctcttcatgcaggagatgcaGcgcagcttcatggggttgcc	13	11	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:123516382G>A	uc001pza.1	-	3	539	c.132C>T	c.(130-132)CGC>CGT	p.R44R	SCN3B_uc001pzb.1_Silent_p.R44R	NM_001040151	NP_001035241	Q9NY72	SCN3B_HUMAN	voltage-gated sodium channel beta-3 subunit	44	Ig-like C2-type.|Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	voltage-gated sodium channel activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0227)		AGGAGATGCAGCGCAGCTTCA	0.582													75	114	---	---	---	---	PASS	A	123516382	A	A	123516382	2	1	60	1	0	0	0	0	0	0	0	1	13919	958	34	3		3	SCN3B	11	123516382	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	5731853	123516382	11490134	367	23435										
OR10G8	219869	broad.mit.edu	37	chr11	123900798	123900798	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtggctctctgcactctgctGtccaggccatattgactttc	9	13	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:123900798G>T	uc001pzp.1	+	1	469	c.469G>T	c.(469-471)GTC>TTC	p.V157F		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		GCACTCTGCTGTCCAGGCCAT	0.557													94	155	---	---	---	---	PASS	T	123900798	T	T	123900798	3	4	60	1	0	0	0	0	1	0	0	0	10903	1377	48	3	471	3	OR10G8	11	123900798	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	384416	123900798	11105718	368	23436										
OR8D2	283160	broad.mit.edu	37	chr11	124189919	124189919	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atgactgagaaaataatacaCtggagggtaaagttgagaac	11	4	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:124189919C>G	uc010sah.1	-	1	175	c.175G>C	c.(175-177)GTG>CTG	p.V59L		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	59	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0525)		AAATAATACACTGGAGGGTAA	0.433													30	78	---	---	---	---	PASS	G	124189919	G	G	124189919	3	3	60	1	0	0	0	0	1	0	0	0	11232	565	20	4	763	4	OR8D2	11	124189919	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	289121	124189919	10816597	369	23437										
OR8A1	390275	broad.mit.edu	37	chr11	124440378	124440378	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgacagtgatggcctacgaCcgctatgttgccatctgcca	10	13	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:124440378C>A	uc010san.1	+	1	414	c.414C>A	c.(412-414)GAC>GAA	p.D138E		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		TGGCCTACGACCGCTATGTTG	0.488													22	60	---	---	---	---	PASS	A	124440378	A	A	124440378	3	1	60	1	0	0	0	0	1	0	0	0	11225	506	18	3	416	3	OR8A1	11	124440378	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	250459	124440378	10566138	370	23438										
ROBO3	64221	broad.mit.edu	37	chr11	124748513	124748513	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gagtggtgcccgccaatgccTgagagaagtcacctgacgga	14	11	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:124748513T>C	uc001qbc.2	+	23	3546	c.3354T>C	c.(3352-3354)CCT>CCC	p.P1118P	ROBO3_uc001qbd.2_Silent_p.P43P|ROBO3_uc010sar.1_Silent_p.P167P|ROBO3_uc001qbe.2_Silent_p.P43P|ROBO3_uc001qbf.1_Silent_p.P2P	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	1118	Cytoplasmic (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		CGCCAATGCCTGAGAGAAGTC	0.607													11	20	---	---	---	---	PASS	C	124748513	C	C	124748513	2	2	60	1	0	0	0	0	0	0	0	1	13515	1567	55	5		5	ROBO3	11	124748513	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	308135	124748513	10258003	371	23439										
ETS1	2113	broad.mit.edu	37	chr11	128426297	128426297	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctggaaaccacagttcattcGaggatcttcataagtgttgc	9	9	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr11:128426297G>C	uc001qej.2	-	3	188	c.103C>G	c.(103-105)CGA>GGA	p.R35G		NM_001143820	NP_001137292	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	Error:Variant_position_missing_in_P14921_after_alignment					cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)		CAGTTCATTCGAGGATCTTCA	0.413													24	26	---	---	---	---	PASS	C	128426297	C	C	128426297	3	2	60	1	0	0	0	0	1	0	0	0	5275	1066	37	2	1472	2	ETS1	11	128426297	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	3677784	128426297	6580219	372	23440										
SLC6A13	6540	broad.mit.edu	37	chr12	330114	330114	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	accatccaagggcctgccccCtagcagtgagactctagctc	9	16	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:330114C>T	uc001qic.1	-	15	1862	c.1809G>A	c.(1807-1809)TAG>TAA	p.*603*	SLC6A13_uc009zdj.1_Silent_p.*593*|SLC6A13_uc010sdl.1_Silent_p.*511*	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	603					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			GGCCTGCCCCCTAGCAGTGAG	0.672													10	39	---	---	---	---	PASS	T	330114	T	T	330114	2	4	60	1	0	0	0	0	0	0	0	1	14676	692	24	3		3	SLC6A13	12	330114	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08		330114	133521781	373	23441										
LRTM2	654429	broad.mit.edu	37	chr12	1943621	1943621	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgctaagcccaagcccgggGctgagccggagccggagccc	15	16	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:1943621G>T	uc001qjt.2	+	5	1653	c.847G>T	c.(847-849)GCT>TCT	p.A283S	CACNA2D4_uc001qjp.2_Intron|CACNA2D4_uc009zds.1_Intron|CACNA2D4_uc009zdt.1_Intron|CACNA2D4_uc009zdr.1_Intron|LRTM2_uc001qju.2_Missense_Mutation_p.A283S|LRTM2_uc010sdx.1_Missense_Mutation_p.A283S|LRTM2_uc001qjv.2_Missense_Mutation_p.A45S	NM_001039029	NP_001034118	Q8N967	LRTM2_HUMAN	leucine-rich repeats and transmembrane domains 2	283	Extracellular (Potential).					integral to membrane				large_intestine(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000834)			CAAGCCCGGGGCTGAGCCGGA	0.672													7	37	---	---	---	---	PASS	T	1943621	T	T	1943621	3	4	60	1	0	0	0	0	1	0	0	0	9045	1203	42	3	857	3	LRTM2	12	1943621	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1613507	1943621	131908274	374	23442										
DCP1B	196513	broad.mit.edu	37	chr12	2058434	2058434	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cgggacggaggtgggttgtgCgaacaccatgggggacataa	18	7	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:2058434C>A	uc001qjx.1	-	8	1671	c.1591G>T	c.(1591-1593)GCA>TCA	p.A531S	DCP1B_uc010sdy.1_Missense_Mutation_p.A429S	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	531					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			GTGGGTTGTGCGAACACCATG	0.617													22	36	---	---	---	---	PASS	A	2058434	A	A	2058434	3	1	60	1	0	0	0	0	1	0	0	0	4299	768	27	1	270	1	DCP1B	12	2058434	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	114813	2058434	131793461	375	23443										
AKAP3	10566	broad.mit.edu	37	chr12	4736573	4736573	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaggctgaggttgccaatatCttcagggtactcaaaggaaa	11	7	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:4736573C>T	uc001qnb.3	-	4	1724	c.1495G>A	c.(1495-1497)GAT>AAT	p.D499N		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	499					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						TTGCCAATATCTTCAGGGTAC	0.473													20	18	---	---	---	---	PASS	T	4736573	T	T	4736573	3	4	60	1	0	0	0	0	1	0	0	0	452	913	32	2	1074	2	AKAP3	12	4736573	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2678139	4736573	129115322	376	23444										
KCNA6	3742	broad.mit.edu	37	chr12	4920559	4920559	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cgctggggtcctcaccattgCcctgcctgtgcccgtcatcg	11	17	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:4920559C>T	uc001qng.2	+	1	2218	c.1352C>T	c.(1351-1353)GCC>GTC	p.A451V		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	451	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						CTCACCATTGCCCTGCCTGTG	0.587										HNSCC(72;0.22)			12	70	---	---	---	---	PASS	T	4920559	T	T	4920559	3	4	60	1	0	0	0	0	1	0	0	0	8007	739	26	3	1354	3	KCNA6	12	4920559	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	183986	4920559	128931336	377	23445										
ATN1	1822	broad.mit.edu	37	chr12	7046110	7046110	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agccaggtgtcctacagccaAgcaggccccaatggccctcc	10	17	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:7046110A>G	uc001qrw.1	+	5	1917	c.1680A>G	c.(1678-1680)CAA>CAG	p.Q560Q	ATN1_uc001qrx.1_Silent_p.Q560Q	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	560	Involved in binding BAIAP2.				cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						CCTACAGCCAAGCAGGCCCCA	0.627													21	103	---	---	---	---	PASS	G	7046110	G	G	7046110	2	3	60	1	0	0	0	0	0	0	0	1	1111	69	3	5		5	ATN1	12	7046110	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	2125551	7046110	126805785	378	23446										
CLEC4E	26253	broad.mit.edu	37	chr12	8689780	8689780	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cagttctttaaacttaacgcCcaggaaatggtgtcagtaga	9	8	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:8689780C>A	uc001quo.1	-	4	468	c.303G>T	c.(301-303)TGG>TGT	p.W101C		NM_014358	NP_055173	Q9ULY5	CLC4E_HUMAN	C-type lectin domain family 4, member E	101	C-type lectin.|Extracellular (Potential).					integral to membrane	sugar binding			central_nervous_system(1)	1	Lung SC(5;0.184)					AACTTAACGCCCAGGAAATGG	0.458													34	52	---	---	---	---	PASS	A	8689780	A	A	8689780	3	1	60	1	0	0	0	0	1	0	0	0	3515	624	22	3	368	3	CLEC4E	12	8689780	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1643670	8689780	125162115	379	23447										
ATF7IP	55729	broad.mit.edu	37	chr12	14628839	14628839	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttcagtgtggaaaagccactGgcagtgattcaagtggtgtc	13	7	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:14628839G>A	uc001rbw.2	+	11	3036	c.2878G>A	c.(2878-2880)GGC>AGC	p.G960S	ATF7IP_uc001rbu.2_Missense_Mutation_p.G960S|ATF7IP_uc001rbv.1_Missense_Mutation_p.G959S|ATF7IP_uc001rbx.2_Missense_Mutation_p.G959S|ATF7IP_uc001rby.3_Missense_Mutation_p.G960S|ATF7IP_uc001rca.2_Missense_Mutation_p.G960S	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	960					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						AAAAGCCACTGGCAGTGATTC	0.358													18	34	---	---	---	---	PASS	A	14628839	A	A	14628839	3	1	60	1	0	0	0	0	1	0	0	0	1087	1348	47	3	2916	3	ATF7IP	12	14628839	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	5939059	14628839	119223056	380	23448										
DERA	51071	broad.mit.edu	37	chr12	16111227	16111227	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gttataaagccaaatacccaAtccgggaagatctcttaaaa	6	9	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:16111227A>G	uc001rde.2	+	3	367	c.235A>G	c.(235-237)ATC>GTC	p.I79V	DERA_uc010shx.1_5'UTR	NM_015954	NP_057038	Q9Y315	DEOC_HUMAN	deoxyribose-phosphate aldolase-like	79					deoxyribonucleoside catabolic process|deoxyribonucleotide catabolic process	cytoplasm	deoxyribose-phosphate aldolase activity|protein binding				0		Hepatocellular(102;0.121)				CAAATACCCAATCCGGGAAGA	0.353													5	21	---	---	---	---	PASS	G	16111227	G	G	16111227	3	3	60	1	0	0	0	0	1	0	0	0	4445	101	4	5	245	5	DERA	12	16111227	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	1482388	16111227	117740668	381	23449										
LRRK2	120892	broad.mit.edu	37	chr12	40703009	40703009	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gacaggctgaagttgatgccAtgaagccttggctcttcaat	11	9	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:40703009A>G	uc001rmg.3	+	30	4412	c.4291A>G	c.(4291-4293)ATG>GTG	p.M1431V	LRRK2_uc009zjw.2_Missense_Mutation_p.M269V|LRRK2_uc001rmi.2_Missense_Mutation_p.M264V	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1431	Roc.				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)				AGTTGATGCCATGAAGCCTTG	0.338													29	64	---	---	---	---	PASS	G	40703009	G	G	40703009	3	3	60	1	0	0	0	0	1	0	0	0	9033	217	8	5	4409	5	LRRK2	12	40703009	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	24591782	40703009	93148886	382	23450										
ADAMTS20	80070	broad.mit.edu	37	chr12	43793012	43793012	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaacacttcacggtactttcTacctttaccacaagaagctg	5	12	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:43793012T>C	uc010skx.1	-	29	4309	c.4309A>G	c.(4309-4311)AGA>GGA	p.R1437G		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1437	TSP type-1 11.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CGGTACTTTCTACCTTTACCA	0.343													4	19	---	---	---	---	PASS	C	43793012	C	C	43793012	3	2	60	1	0	0	0	0	1	0	0	0	266	1530	53	5	1466	5	ADAMTS20	12	43793012	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	3090003	43793012	90058883	383	23451										
ADAMTS20	80070	broad.mit.edu	37	chr12	43826171	43826171	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgcaattctctctcgtcactCgggacagttcttggcattca	8	12	5	0	rs137911452		TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:43826171C>A	uc010skx.1	-	21	3032	c.3032G>T	c.(3031-3033)CGA>CTA	p.R1011L	ADAMTS20_uc001rno.1_Missense_Mutation_p.R165L|ADAMTS20_uc001rnp.1_Missense_Mutation_p.R165L	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1011	TSP type-1 4.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TCTCGTCACTCGGGACAGTTC	0.438													29	60	---	---	---	---	PASS	A	43826171	A	A	43826171	3	1	60	1	0	0	0	0	1	0	0	0	266	884	31	2	2775	2	ADAMTS20	12	43826171	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	33159	43826171	90025724	384	23452										
ADAMTS20	80070	broad.mit.edu	37	chr12	43847811	43847811	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccccattcaccatttacaggAcgtgtttccgtttctttgtt	6	12	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:43847811A>G	uc010skx.1	-	12	1659	c.1659T>C	c.(1657-1659)CGT>CGC	p.R553R		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	553	Disintegrin.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CATTTACAGGACGTGTTTCCG	0.423													18	32	---	---	---	---	PASS	G	43847811	G	G	43847811	2	3	60	1	0	0	0	0	0	0	0	1	266	262	10	5		5	ADAMTS20	12	43847811	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	21640	43847811	90004084	385	23453										
COL2A1	1280	broad.mit.edu	37	chr12	48378344	48378344	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cttaccctcagaccaggagcAccaggcagtcccttctcacc	7	18	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:48378344A>T	uc001rqu.2	-	28	2053	c.1872T>A	c.(1870-1872)GGT>GGA	p.G624G	COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Silent_p.G555G	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	624	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	GACCAGGAGCACCAGGCAGTC	0.632													11	58	---	---	---	---	PASS	T	48378344	T	T	48378344	2	4	60	1	0	0	0	0	0	0	0	1	3687	146	6	5		5	COL2A1	12	48378344	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	4530533	48378344	85473551	386	23454										
C12orf10	60314	broad.mit.edu	37	chr12	53700773	53700773	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcccctgccagagccatggcGgggtcttcgggacgaggccc	16	15	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:53700773G>T	uc001scp.3	+	7	1023	c.971G>T	c.(970-972)CGG>CTG	p.R324L	C12orf10_uc009zmx.2_Missense_Mutation_p.R273L|C12orf10_uc001scq.3_Missense_Mutation_p.R209L	NM_021640	NP_067653	Q86UA3	Q86UA3_HUMAN	MYG1 protein precursor	324										ovary(2)	2						GAGCCATGGCGGGGTCTTCGG	0.622													88	170	---	---	---	---	PASS	T	53700773	T	T	53700773	3	4	60	1	0	0	0	0	1	0	0	0	1674	1116	39	1	997	1	C12orf10	12	53700773	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	5322429	53700773	80151122	387	23455										
NCKAP1L	3071	broad.mit.edu	37	chr12	54911595	54911595	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcctaaactttataggagcaTtgcagagctacttttcttgt	7	8	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:54911595T>C	uc001sgc.3	+	13	1290	c.1211T>C	c.(1210-1212)ATT>ACT	p.I404T	NCKAP1L_uc010sox.1_5'UTR|NCKAP1L_uc010soy.1_Missense_Mutation_p.I354T	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	404					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						TATAGGAGCATTGCAGAGCTA	0.403													54	93	---	---	---	---	PASS	C	54911595	C	C	54911595	3	2	60	1	0	0	0	0	1	0	0	0	10222	1493	52	5	1261	5	NCKAP1L	12	54911595	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	1210822	54911595	78940300	388	23456										
TMEM5	10329	broad.mit.edu	37	chr12	64202735	64202735	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tccctgctgttttagaaaaaGagaaaactataattttacaa	5	6	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:64202735G>C	uc001srq.1	+	6	1299	c.1195G>C	c.(1195-1197)GAG>CAG	p.E399Q	TMEM5_uc001srr.1_Missense_Mutation_p.E296Q|TMEM5_uc001srs.1_Missense_Mutation_p.E139Q	NM_014254	NP_055069	Q9Y2B1	TMEM5_HUMAN	transmembrane protein 5	399	Extracellular (Potential).					integral to plasma membrane					0		Myeloproliferative disorder(1001;0.0255)	BRCA - Breast invasive adenocarcinoma(9;0.0985)	GBM - Glioblastoma multiforme(28;9e-08)|BRCA - Breast invasive adenocarcinoma(357;0.000175)		TTTAGAAAAAGAGAAAACTAT	0.358													29	48	---	---	---	---	PASS	C	64202735	C	C	64202735	3	2	60	1	0	0	0	0	1	0	0	0	16171	943	33	2	1217	2	TMEM5	12	64202735	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	9291140	64202735	69649160	389	23457										
PTPRB	5787	broad.mit.edu	37	chr12	70990077	70990077	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgaagtcgtcttctctttaCtgactccaaacctagcagga	7	11	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:70990077C>T	uc001swb.3	-	3	386	c.356G>A	c.(355-357)AGT>AAT	p.S119N	PTPRB_uc010sto.1_Missense_Mutation_p.S119N|PTPRB_uc010stp.1_Missense_Mutation_p.S119N|PTPRB_uc001swc.3_Missense_Mutation_p.S337N|PTPRB_uc001swa.3_Missense_Mutation_p.S337N|PTPRB_uc001swd.3_Missense_Mutation_p.S336N|PTPRB_uc009zrr.1_Missense_Mutation_p.S216N|PTPRB_uc001swe.2_Missense_Mutation_p.S337N	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	119	Fibronectin type-III 2.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CTTCTCTTTACTGACTCCAAA	0.358													14	28	---	---	---	---	PASS	T	70990077	T	T	70990077	3	4	60	1	0	0	0	0	1	0	0	0	12796	565	20	3	5757	3	PTPRB	12	70990077	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	6787342	70990077	62861818	390	23458										
TBC1D15	64786	broad.mit.edu	37	chr12	72287057	72287057	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtcagaataagagtctttcaCagtcttttgaaaatcttctt	6	7	6	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:72287057C>G	uc001swu.2	+	6	685	c.676C>G	c.(676-678)CAG>GAG	p.Q226E	TBC1D15_uc009zrv.2_Missense_Mutation_p.Q105E|TBC1D15_uc010stt.1_Missense_Mutation_p.Q212E|TBC1D15_uc001swv.2_Missense_Mutation_p.Q226E|TBC1D15_uc001sww.2_5'UTR	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	204							protein binding|Rab GTPase activator activity				0						GAGTCTTTCACAGTCTTTTGA	0.303													17	68	---	---	---	---	PASS	G	72287057	G	G	72287057	3	3	60	1	0	0	0	0	1	0	0	0	15601	479	17	4	756	4	TBC1D15	12	72287057	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1296980	72287057	61564838	391	23459										
GLIPR1L2	144321	broad.mit.edu	37	chr12	75804329	75804329	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcctaaattttatggtattgGtgaaaatatgtgggtcggcc	11	5	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:75804329G>T	uc001sxr.1	+	2	358	c.350G>T	c.(349-351)GGT>GTT	p.G117V	GLIPR1L2_uc001sxp.1_Missense_Mutation_p.G117V|GLIPR1L2_uc001sxq.1_Missense_Mutation_p.G10V	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	117						integral to membrane				ovary(1)	1						TATGGTATTGGTGAAAATATG	0.348													52	95	---	---	---	---	PASS	T	75804329	T	T	75804329	3	4	60	1	0	0	0	0	1	0	0	0	6443	1261	44	3	356	3	GLIPR1L2	12	75804329	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	3517272	75804329	58047566	392	23460										
CCDC41	51134	broad.mit.edu	37	chr12	94769671	94769671	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaacaacttactttactggaCaatgtatttatttctcgttc	4	8	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:94769671C>A	uc001tdd.2	-	8	1510	c.924G>T	c.(922-924)TTG>TTT	p.L308F	CCDC41_uc001tde.2_Missense_Mutation_p.L308F|CCDC41_uc009zsw.1_RNA|CCDC41_uc001tdf.2_Missense_Mutation_p.L308F	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen	300	Potential.										0						CTTTACTGGACAATGTATTTA	0.249													14	31	---	---	---	---	PASS	A	94769671	A	A	94769671	3	1	60	1	0	0	0	0	1	0	0	0	2813	477	17	3	1221	3	CCDC41	12	94769671	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	18965342	94769671	39082224	393	23461										
DEPDC4	120863	broad.mit.edu	37	chr12	100660851	100660851	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cgctggctcctcccctggcaCcatagccccgccccacctga	8	22	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:100660851C>A	uc001thi.2	-	1	7	c.4G>T	c.(4-6)GTG>TTG	p.V2L	SCYL2_uc009ztw.1_5'Flank|SCYL2_uc001thm.1_5'Flank|SCYL2_uc001thn.2_5'Flank|DEPDC4_uc001thh.1_RNA|DEPDC4_uc001thj.1_Missense_Mutation_p.V2L|DEPDC4_uc009ztv.1_Missense_Mutation_p.V2L|DEPDC4_uc001thk.1_5'UTR|DEPDC4_uc001thl.1_RNA	NM_152317	NP_689530	Q8N2C3	DEPD4_HUMAN	DEP domain containing 4	2					intracellular signal transduction						0						TCCCCTGGCACCATAGCCCCG	0.652													15	58	---	---	---	---	PASS	A	100660851	A	A	100660851	3	1	60	1	0	0	0	0	1	0	0	0	4441	507	18	3	900	3	DEPDC4	12	100660851	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	5891180	100660851	33191044	394	23462										
STAB2	55576	broad.mit.edu	37	chr12	104077060	104077060	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acttcatgcttggaacaaacCgggaaatgtcatccattggt	9	9	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:104077060C>A	uc001tjw.2	+	26	3069	c.2883C>A	c.(2881-2883)ACC>ACA	p.T961T		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	961	Extracellular (Potential).|EGF-like 10.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						TGGAACAAACCGGGAAATGTC	0.333													28	75	---	---	---	---	PASS	A	104077060	A	A	104077060	2	1	60	1	0	0	0	0	0	0	0	1	15237	639	23	1		1	STAB2	12	104077060	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	3416209	104077060	29774835	395	23463										
ACACB	32	broad.mit.edu	37	chr12	109644571	109644571	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acactgcccatcctcggagaGaaactgcaccaggtcttcca	8	15	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:109644571G>A	uc001tob.2	+	20	3089	c.2970G>A	c.(2968-2970)GAG>GAA	p.E990E	ACACB_uc001toc.2_Silent_p.E990E	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	990					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	TCCTCGGAGAGAAACTGCACC	0.527													16	241	---	---	---	---	PASS	A	109644571	A	A	109644571	2	1	60	1	0	0	0	0	0	0	0	1	107	933	33	2		2	ACACB	12	109644571	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	5567511	109644571	24207324	396	23464										
ACAD10	80724	broad.mit.edu	37	chr12	112182553	112182553	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gggttccgggttttcaaagaGatgcccttcacaaatccgtt	10	10	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:112182553G>C	uc001tsq.2	+	13	2021	c.1821G>C	c.(1819-1821)GAG>GAC	p.E607D	ACAD10_uc001tsp.2_Missense_Mutation_p.E607D|ACAD10_uc009zvx.2_Missense_Mutation_p.E638D|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	607							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						TTTTCAAAGAGATGCCCTTCA	0.537													33	69	---	---	---	---	PASS	C	112182553	C	C	112182553	3	2	60	1	0	0	0	0	1	0	0	0	108	933	33	2	1964	2	ACAD10	12	112182553	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2537982	112182553	21669342	397	23465										
TAOK3	51347	broad.mit.edu	37	chr12	118639252	118639252	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggacacgtagtggccggtctCgtcgaacaaagtcatgctga	13	10	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:118639252C>A	uc001twx.2	-	12	1131	c.836G>T	c.(835-837)CGA>CTA	p.R279L	TAOK3_uc001tww.2_Missense_Mutation_p.R109L|TAOK3_uc001twy.3_Missense_Mutation_p.R279L	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	279					MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGGCCGGTCTCGTCGAACAAA	0.393													25	45	---	---	---	---	PASS	A	118639252	A	A	118639252	3	1	60	1	0	0	0	0	1	0	0	0	15546	884	31	2	1900	2	TAOK3	12	118639252	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	6456699	118639252	15212643	398	23466										
ANAPC5	51433	broad.mit.edu	37	chr12	121789999	121789999	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	catgaggctgacggcgccctCgcctgtgcggctcatctcgt	13	15	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:121789999C>A	uc001uag.2	-	1	267	c.145G>T	c.(145-147)GAG>TAG	p.E49*	ANAPC5_uc001uah.2_Intron	NM_016237	NP_057321	Q9UJX4	APC5_HUMAN	anaphase-promoting complex subunit 5 isoform a	49					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding|ubiquitin-protein ligase activity			skin(3)|breast(2)|kidney(1)	6	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ACGGCGCCCTCGCCTGTGCGG	0.617													18	32	---	---	---	---	PASS	A	121789999	A	A	121789999	4	1	60	1	0	0	0	0	0	1	0	0	605	893	31	2	2190	2	ANAPC5	12	121789999	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3150747	121789999	12061896	399	23467										
KDM2B	84678	broad.mit.edu	37	chr12	121958890	121958890	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gagtctacaggggtgtagacGgcatggatccaacctggggt	16	8	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:121958890G>A	uc001uat.2	-	9	1049	c.945C>T	c.(943-945)GCC>GCT	p.A315A	KDM2B_uc001uas.2_Silent_p.A284A|KDM2B_uc001uau.2_Silent_p.A198A|KDM2B_uc001uav.3_Intron	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	315	JmjC.				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						GGGTGTAGACGGCATGGATCC	0.617													12	38	---	---	---	---	PASS	A	121958890	A	A	121958890	2	1	60	1	0	0	0	0	0	0	0	1	8125	1103	39	1		1	KDM2B	12	121958890	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	168891	121958890	11893005	400	23468										
NCOR2	9612	broad.mit.edu	37	chr12	124812033	124812033	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gggcaggctggcactggcatTcagagggttaaaagcattgg	16	7	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:124812033T>C	uc010tay.1	-	47	7291	c.7135A>G	c.(7135-7137)AAT>GAT	p.N2379D	NCOR2_uc010taz.1_Intron|NCOR2_uc010tax.1_Intron	NM_006312	NP_006303	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 1	2380					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GCACTGGCATTCAGAGGGTTA	0.602													30	62	---	---	---	---	PASS	C	124812033	C	C	124812033	3	2	60	1	0	0	0	0	1	0	0	0	10236	1783	62	5	451	5	NCOR2	12	124812033	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	2853143	124812033	9039862	401	23469										
EP400	57634	broad.mit.edu	37	chr12	132549312	132549312	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cgcagccaacagcccaagtgCaagtgcagacctcgcagccg	11	16	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr12:132549312C>T	uc001ujn.2	+	47	8469	c.8434C>T	c.(8434-8436)CAA>TAA	p.Q2812*	EP400_uc001ujl.2_Nonsense_Mutation_p.Q2811*|EP400_uc001ujm.2_Nonsense_Mutation_p.Q2731*|EP400_uc001ujp.2_Nonsense_Mutation_p.Q29*	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2848					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		AGCCCAAGTGCAAGTGCAGAC	0.677													19	34	---	---	---	---	PASS	T	132549312	T	T	132549312	4	4	60	1	0	0	0	0	0	1	0	0	5149	711	25	3	8617	3	EP400	12	132549312	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	7737279	132549312	1302583	402	23470										
MTUS2	23281	broad.mit.edu	37	chr13	29608252	29608252	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gccaccagtctctacagttcCgatccttcaggtaaccgatc	7	15	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:29608252C>A	uc001usl.3	+	2	2524	c.2466C>A	c.(2464-2466)TCC>TCA	p.S822S		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	812	Sufficient for interaction with KIF2C.|Localization to the growing distal tip of microtubules.|Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						TCTACAGTTCCGATCCTTCAG	0.463													12	24	---	---	---	---	PASS	A	29608252	A	A	29608252	2	1	60	1	0	0	0	0	0	0	0	1	9966	639	23	1		1	MTUS2	13	29608252	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08		29608252	85561626	403	23471										
BRCA2	675	broad.mit.edu	37	chr13	32920973	32920973	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgtttcctaggcacaataaAagatcgaagattgtttatgc	8	6	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:32920973A>G	uc001uub.1	+	13	7174	c.6947A>G	c.(6946-6948)AAA>AGA	p.K2316R		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2316					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		GGCACAATAAAAGATCGAAGA	0.269			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			10	51	---	---	---	---	PASS	G	32920973	G	G	32920973	3	3	60	1	0	0	0	0	1	0	0	0	1499	14	1	5	6993	5	BRCA2	13	32920973	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	3312721	32920973	82248905	404	23472										
BRCA2	675	broad.mit.edu	37	chr13	32944672	32944672	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tggttgtgttgatgtaattaTtcaaagagcataccctatac	8	6	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:32944672T>C	uc001uub.1	+	19	8692	c.8465T>C	c.(8464-8466)ATT>ACT	p.I2822T		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2822					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		GATGTAATTATTCAAAGAGCA	0.303			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			46	67	---	---	---	---	PASS	C	32944672	C	C	32944672	3	2	60	1	0	0	0	0	1	0	0	0	1499	1493	52	5	8535	5	BRCA2	13	32944672	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	23699	32944672	82225206	405	23473										
ENOX1	55068	broad.mit.edu	37	chr13	43934079	43934079	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tccgaattgctgtaatatcaCcgcactgttcaaagacttct	6	11	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:43934079C>T	uc001uza.3	-	7	797	c.497G>A	c.(496-498)GGT>GAT	p.G166D	ENOX1_uc001uzb.3_Missense_Mutation_p.G166D|ENOX1_uc001uzc.3_Missense_Mutation_p.G166D|ENOX1_uc010tfm.1_Translation_Start_Site	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	166	RRM.				electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		TGTAATATCACCGCACTGTTC	0.408													17	86	---	---	---	---	PASS	T	43934079	T	T	43934079	3	4	60	1	0	0	0	0	1	0	0	0	5126	507	18	3	1478	3	ENOX1	13	43934079	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	10989407	43934079	71235799	406	23474										
KLHL1	57626	broad.mit.edu	37	chr13	70413282	70413282	+	Missense_Mutation	SNP	G	T	T													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaataatgcatgattttctaGgtcagccaatatctgtgaat							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:70413282G>T	uc001vip.2	-	6	2034	c.1240C>A	c.(1240-1242)CTA>ATA	p.L414I	KLHL1_uc010thm.1_Missense_Mutation_p.L353I	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	414					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		TGATTTTCTAGGTCAGCCAAT	0.308													40	75	---	---	---	---	PASS	T	70413282	T	T	70413282	3	4	60	1	0	0	0	0	1	0	0	0	8365	991	35	3	1030	3	KLHL1	13	70413282	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	26479203	70413282	44756596	407	23475	514	2								
KLHL1	57626	broad.mit.edu	37	chr13	70413283	70413283	+	Missense_Mutation	SNP	G	T	T													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aataatgcatgattttctagGtcagccaatatctgtgaata							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:70413283G>T	uc001vip.2	-	6	2033	c.1239C>A	c.(1237-1239)GAC>GAA	p.D413E	KLHL1_uc010thm.1_Missense_Mutation_p.D352E	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	413					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		GATTTTCTAGGTCAGCCAATA	0.308													42	75	---	---	---	---	PASS	T	70413283	T	T	70413283	3	4	60	1	0	0	0	0	1	0	0	0	8365	1252	44	3	1031	3	KLHL1	13	70413283	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1	70413283	44756595	408	23476	514	2								
KLHL1	57626	broad.mit.edu	37	chr13	70514187	70514187	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cttaccattgtgtagctgtgGgccaccttcattaactcaat	7	11	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:70514187G>T	uc001vip.2	-	4	1793	c.999C>A	c.(997-999)GCC>GCA	p.A333A	KLHL1_uc010thm.1_Silent_p.A272A	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	333					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		TGTAGCTGTGGGCCACCTTCA	0.403													6	31	---	---	---	---	PASS	T	70514187	T	T	70514187	2	4	60	1	0	0	0	0	0	0	0	1	8365	1219	43	3		3	KLHL1	13	70514187	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	100904	70514187	44655691	409	23477										
CLN5	1203	broad.mit.edu	37	chr13	77570191	77570191	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtgtaatcaaggcgctgcctGcttttttgagggaattgatg	13	6	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:77570191G>T	uc001vkc.2	+	3	669	c.641G>T	c.(640-642)TGC>TTC	p.C214F		NM_006493	NP_006484	O75503	CLN5_HUMAN	ceroid-lipofuscinosis, neuronal 5	165					brain development|cell death|lysosomal lumen acidification|neuron maturation|protein catabolic process	endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.205)		GBM - Glioblastoma multiforme(99;0.0503)		GGCGCTGCCTGCTTTTTTGAG	0.403													24	167	---	---	---	---	PASS	T	77570191	T	T	77570191	3	4	60	1	0	0	0	0	1	0	0	0	3544	1319	46	3	651	3	CLN5	13	77570191	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	7056004	77570191	37599687	410	23478										
SCEL	8796	broad.mit.edu	37	chr13	78173468	78173468	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atcaatacatttaaaggaatCaaggtcttgatagtctcttc	6	7	4	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:78173468C>A	uc001vki.2	+	14	972	c.802C>A	c.(802-804)CAA>AAA	p.Q268K	SCEL_uc001vkj.2_Missense_Mutation_p.Q248K|SCEL_uc010thx.1_Missense_Mutation_p.Q246K	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	268	2.|16 X approximate tandem repeats.				embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		TTAAAGGAATCAAGGTCTTGA	0.343													19	33	---	---	---	---	PASS	A	78173468	A	A	78173468	3	1	60	1	0	0	0	0	1	0	0	0	13888	827	29	2	852	2	SCEL	13	78173468	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	603277	78173468	36996410	411	23479										
SLAIN1	122060	broad.mit.edu	37	chr13	78334967	78334967	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcattttctcttctagttccAtcaccgggacagcttcaaca	5	13	5	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:78334967A>T	uc010thy.1	+	6	970	c.927A>T	c.(925-927)CCA>CCT	p.P309P	SLAIN1_uc001vkk.1_Silent_p.P232P|SLAIN1_uc001vkl.1_Silent_p.P188P|SLAIN1_uc010thz.1_Silent_p.P187P|SLAIN1_uc010aex.1_Silent_p.P74P|SLAIN1_uc010aey.1_Silent_p.P74P|SLAIN1_uc001vkm.2_Silent_p.P188P	NM_144595	NP_653196	Q8ND83	SLAI1_HUMAN	SLAIN motif family, member 1 B	451										ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0853)		TTCTAGTTCCATCACCGGGAC	0.473													64	80	---	---	---	---	PASS	T	78334967	T	T	78334967	2	4	60	1	0	0	0	0	0	0	0	1	14365	204	8	5		5	SLAIN1	13	78334967	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	161499	78334967	36834911	412	23480										
POU4F1	5457	broad.mit.edu	37	chr13	79176554	79176554	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggacgtgcacggcacgctgtTcatcgtgtggtacgtggcgt	16	10	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:79176554T>C	uc001vkv.2	-	2	490	c.256A>G	c.(256-258)AAC>GAC	p.N86D	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	86					axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		GGCACGCTGTTCATCGTGTGG	0.592													4	8	---	---	---	---	PASS	C	79176554	C	C	79176554	3	2	60	1	0	0	0	0	1	0	0	0	12278	1783	62	5	1007	5	POU4F1	13	79176554	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	841587	79176554	35993324	413	23481										
SLITRK5	26050	broad.mit.edu	37	chr13	88327907	88327907	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccaatctaccacctcttgttGtccggaaaccttttgaaccg	6	14	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:88327907G>T	uc001vln.2	+	2	483	c.264G>T	c.(262-264)TTG>TTT	p.L88F	SLITRK5_uc010tic.1_Intron	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	88	LRR 1.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					ACCTCTTGTTGTCCGGAAACC	0.453													36	221	---	---	---	---	PASS	T	88327907	T	T	88327907	3	4	60	1	0	0	0	0	1	0	0	0	14746	1368	48	3	266	3	SLITRK5	13	88327907	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	9151353	88327907	26841971	414	23482										
GPC5	2262	broad.mit.edu	37	chr13	92101100	92101100	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tatcagattgcggctcgccaGgatatgcagcagtttcttca	10	10	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:92101100G>C	uc010tif.1	+	2	615	c.249G>C	c.(247-249)CAG>CAC	p.Q83H		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	83						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				CGGCTCGCCAGGATATGCAGC	0.438													7	66	---	---	---	---	PASS	C	92101100	C	C	92101100	3	2	60	1	0	0	0	0	1	0	0	0	6601	991	35	4	255	4	GPC5	13	92101100	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	3773193	92101100	23068778	415	23483										
TMTC4	84899	broad.mit.edu	37	chr13	101294518	101294518	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggccactgctcccagaaagaTactcagcagcacccagaagg	10	14	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:101294518T>C	uc001vou.2	-	6	791	c.631A>G	c.(631-633)ATC>GTC	p.I211V	TMTC4_uc001vot.2_Missense_Mutation_p.I230V|TMTC4_uc010tja.1_Missense_Mutation_p.I100V|TMTC4_uc001vow.1_5'UTR	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	211	Helical; (Potential).					integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CCCAGAAAGATACTCAGCAGC	0.507													19	148	---	---	---	---	PASS	C	101294518	C	C	101294518	3	2	60	1	0	0	0	0	1	0	0	0	16260	1406	49	5	1646	5	TMTC4	13	101294518	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	9193418	101294518	13875360	416	23484										
ERCC5	2073	broad.mit.edu	37	chr13	103519152	103519152	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aacttttttaataaaaacaaGtttgtagaatattatcaata	3	3	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:103519152G>T	uc001vpw.2	+	11	2933	c.2490G>T	c.(2488-2490)AAG>AAT	p.K830N	ERCC5_uc001vpu.1_Missense_Mutation_p.K1284N|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Missense_Mutation_p.K662N	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	830	I-domain.				negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					ATAAAAACAAGTTTGTAGAAT	0.373			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				14	32	---	---	---	---	PASS	T	103519152	T	T	103519152	3	4	60	1	0	0	0	0	1	0	0	0	5216	1020	36	3	2532	3	ERCC5	13	103519152	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2224634	103519152	11650726	417	23485										
COL4A2	1284	broad.mit.edu	37	chr13	111098175	111098175	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aagcaaatatctttcttgcaGggaagccgaggcctggatgg	13	8	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr13:111098175G>T	uc001vqx.2	+	17	1247	c.958_splice	c.e17-1	p.G320_splice		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein						angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			CTTTCTTGCAGGGAAGCCGAG	0.393													76	80	---	---	---	---	PASS	T	111098175	T	T	111098175	5	4	60	1	0	0	0	0	0	0	1	0	3690	1014	35	3	1019	3	COL4A2	13	111098175	Splice_Site	SNP	G	TCGA-33-4583-01A-01D-1441-08	7579023	111098175	4071703	418	23486										
OR4K1	79544	broad.mit.edu	37	chr14	20404190	20404190	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgtagctatggcatatgacaGatttatagccatatgtaagc	9	6	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:20404190G>C	uc001vwj.1	+	1	365	c.365G>C	c.(364-366)AGA>ACA	p.R122T		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		GCATATGACAGATTTATAGCC	0.443													41	88	---	---	---	---	PASS	C	20404190	C	C	20404190	3	2	60	1	0	0	0	0	1	0	0	0	11067	942	33	2	367	2	OR4K1	14	20404190	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08		20404190	86945350	419	23487										
OR4K15	81127	broad.mit.edu	37	chr14	20444145	20444145	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atatgcaaacctctccactaCatgacagtcatgagccgtcg	7	13	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:20444145C>A	uc010tkx.1	+	1	468	c.468C>A	c.(466-468)TAC>TAA	p.Y156*		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	156	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CTCTCCACTACATGACAGTCA	0.458													66	117	---	---	---	---	PASS	A	20444145	A	A	20444145	4	1	60	1	0	0	0	0	0	1	0	0	11070	489	17	3	470	3	OR4K15	14	20444145	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	39955	20444145	86905395	420	23488										
OR4K14	122740	broad.mit.edu	37	chr14	20482683	20482683	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agcacgctgtctgatagcgaGgaggatcacggtgtaggaga	16	7	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:20482683G>T	uc010tky.1	-	1	670	c.670C>A	c.(670-672)CTC>ATC	p.L224I		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	224	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		CTGATAGCGAGGAGGATCACG	0.493													8	34	---	---	---	---	PASS	T	20482683	T	T	20482683	3	4	60	1	0	0	0	0	1	0	0	0	11069	1000	35	3	265	3	OR4K14	14	20482683	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	38538	20482683	86866857	421	23489										
HEATR5A	25938	broad.mit.edu	37	chr14	31774224	31774224	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tagcttttactcctgggctaCctgtcaatttagggtttaat	8	8	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:31774224C>T	uc001wrf.3	-	26	4324	c.4247G>A	c.(4246-4248)GGT>GAT	p.G1416D	HEATR5A_uc010ami.2_Missense_Mutation_p.G1314D	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	1703							binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		TCCTGGGCTACCTGTCAATTT	0.438													36	68	---	---	---	---	PASS	T	31774224	T	T	31774224	3	4	60	1	0	0	0	0	1	0	0	0	7031	507	18	3	1034	3	HEATR5A	14	31774224	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	11291541	31774224	75575316	422	23490										
RALGAPA1	253959	broad.mit.edu	37	chr14	36096989	36096989	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttggactctcaaagagttcaGgagaaagttcagtactttca	9	7	4	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:36096989G>A	uc001wti.2	-	33	5037	c.4646C>T	c.(4645-4647)CCT>CTT	p.P1549L	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Missense_Mutation_p.P1549L|RALGAPA1_uc010tpv.1_Missense_Mutation_p.P1562L|RALGAPA1_uc010tpw.1_Missense_Mutation_p.P1596L	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1549	Minimal domain that binds to TCF3/E12 (By similarity).				activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						AAAGAGTTCAGGAGAAAGTTC	0.308													28	43	---	---	---	---	PASS	A	36096989	A	A	36096989	3	1	60	1	0	0	0	0	1	0	0	0	13013	1000	35	3	1649	3	RALGAPA1	14	36096989	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	4322765	36096989	71252551	423	23491										
LRFN5	145581	broad.mit.edu	37	chr14	42356450	42356450	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atgtgacatcaaataaattgCagaagctaccacctgaccct	6	11	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:42356450C>G	uc001wvm.2	+	3	1820	c.622C>G	c.(622-624)CAG>GAG	p.Q208E	LRFN5_uc010ana.2_Missense_Mutation_p.Q208E	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	208	Extracellular (Potential).|LRR 7.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AAATAAATTGCAGAAGCTACC	0.428										HNSCC(30;0.082)			31	66	---	---	---	---	PASS	G	42356450	G	G	42356450	3	3	60	1	0	0	0	0	1	0	0	0	8941	711	25	4	624	4	LRFN5	14	42356450	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	6259461	42356450	64993090	424	23492										
FANCM	57697	broad.mit.edu	37	chr14	45658089	45658089	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaggccaatcaagtgaagaaGaagtttgtgttgattttaac	10	4	1	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:45658089G>T	uc001wwd.3	+	20	4963	c.4864G>T	c.(4864-4866)GAA>TAA	p.E1622*	FANCM_uc010anf.2_Nonsense_Mutation_p.E1596*|FANCM_uc001wwe.3_Nonsense_Mutation_p.E1158*|FANCM_uc010ang.2_Nonsense_Mutation_p.E836*	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1622					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						AAGTGAAGAAGAAGTTTGTGT	0.323								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				39	59	---	---	---	---	PASS	T	45658089	T	T	45658089	4	4	60	1	0	0	0	0	0	1	0	0	5671	943	33	2	4942	2	FANCM	14	45658089	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	3301639	45658089	61691451	425	23493										
MGAT2	4247	broad.mit.edu	37	chr14	50088626	50088626	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aattggggtgcatcaatgctGagtatcccgactccttcggc	11	11	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:50088626G>T	uc001wwr.2	+	1	1138	c.640G>T	c.(640-642)GAG>TAG	p.E214*	SDCCAG1_uc010anj.1_Intron|RPL36AL_uc001wwq.1_5'Flank	NM_002408	NP_002399	Q10469	MGAT2_HUMAN	mannosyl (alpha-1,6-)-glycoprotein	214	Lumenal (Potential).				oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	alpha-1,6-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity				0	all_epithelial(31;0.0021)|Breast(41;0.0124)					CATCAATGCTGAGTATCCCGA	0.483													61	85	---	---	---	---	PASS	T	50088626	T	T	50088626	4	4	60	1	0	0	0	0	0	1	0	0	9543	1291	45	2	642	2	MGAT2	14	50088626	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	4430537	50088626	57260914	426	23494										
NIN	51199	broad.mit.edu	37	chr14	51259444	51259444	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccttacctcactgcagtcacCggctgggatgtgtgaaggcc	12	13	2	1	rs143800977	byFrequency	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:51259444C>G	uc001wym.2	-	5	612	c.421G>C	c.(421-423)GGT>CGT	p.G141R	NIN_uc001wyi.2_Missense_Mutation_p.G141R|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.G141R|NIN_uc010tqp.1_Missense_Mutation_p.G147R|NIN_uc001wyo.2_Missense_Mutation_p.G141R|NIN_uc001wyp.1_Missense_Mutation_p.G103R	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	141					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CTGCAGTCACCGGCTGGGATG	0.582			T	PDGFRB	MPD								21	32	---	---	---	---	PASS	G	51259444	G	G	51259444	3	3	60	1	0	0	0	0	1	0	0	0	10417	652	23	4	6236	4	NIN	14	51259444	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1170818	51259444	56090096	427	23495										
PYGL	5836	broad.mit.edu	37	chr14	51398409	51398409	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acctgccatccatctcggatCttctgattgaaaatcccata	5	13	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:51398409C>A	uc001wyu.2	-	4	637	c.510G>T	c.(508-510)AAG>AAT	p.K170N	PYGL_uc010tqq.1_Missense_Mutation_p.K136N|PYGL_uc001wyv.2_5'UTR|PYGL_uc001wyw.3_Missense_Mutation_p.K170N	NM_002863	NP_002854	P06737	PYGL_HUMAN	liver glycogen phosphorylase isoform 1	170					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding			skin(1)	1	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	CATCTCGGATCTTCTGATTGA	0.423													17	130	---	---	---	---	PASS	A	51398409	A	A	51398409	3	1	60	1	0	0	0	0	1	0	0	0	12861	912	32	2	2101	2	PYGL	14	51398409	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	138965	51398409	55951131	428	23496										
C14orf37	145407	broad.mit.edu	37	chr14	58471896	58471896	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccagcatcccagacatgtaaCcagcctgcatagaaaaggaa	8	12	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:58471896C>A	uc001xdc.2	-	7	2237	c.2126G>T	c.(2125-2127)GGT>GTT	p.G709V	C14orf37_uc010tro.1_Missense_Mutation_p.G747V|C14orf37_uc001xdd.2_Missense_Mutation_p.G709V	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	709	Extracellular (Potential).					integral to membrane	binding				0						AGACATGTAACCAGCCTGCAT	0.507													32	56	---	---	---	---	PASS	A	58471896	A	A	58471896	3	1	60	1	0	0	0	0	1	0	0	0	1771	507	18	3	206	3	C14orf37	14	58471896	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	7073487	58471896	48877644	429	23497										
RTN1	6252	broad.mit.edu	37	chr14	60193708	60193708	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcccagggccctttgtggccGcaggactttggttggaactc	14	12	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:60193708G>T	uc001xen.1	-	3	1903	c.1694C>A	c.(1693-1695)GCG>GAG	p.A565E	RTN1_uc001xem.1_Missense_Mutation_p.A145E	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	565					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		CTTTGTGGCCGCAGGACTTTG	0.617													4	9	---	---	---	---	PASS	T	60193708	T	T	60193708	3	4	60	1	0	0	0	0	1	0	0	0	13725	1087	38	1	729	1	RTN1	14	60193708	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1721812	60193708	47155832	430	23498										
SIX1	6495	broad.mit.edu	37	chr14	61115903	61115903	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agccaaacgacggcagcatcGacatggctggggcctgccgg	15	13	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:61115903G>T	uc001xfb.3	-	1	253	c.5C>A	c.(4-6)TCG>TAG	p.S2*		NM_005982	NP_005973	Q15475	SIX1_HUMAN	SIX homeobox 1	2					branching involved in ureteric bud morphogenesis|embryonic cranial skeleton morphogenesis|epithelial cell differentiation|inner ear morphogenesis|mesonephric tubule formation|metanephric mesenchyme development|myoblast migration|negative regulation of neuron apoptosis|organ induction|pattern specification process|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|protein localization to nucleus|regulation of branch elongation involved in ureteric bud branching|regulation of neuron differentiation|skeletal muscle tissue development|thymus development|thyroid gland development	nucleolus|transcription factor complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.0201)		CGGCAGCATCGACATGGCTGG	0.726													7	34	---	---	---	---	PASS	T	61115903	T	T	61115903	4	4	60	1	0	0	0	0	0	1	0	0	14346	1059	37	2	857	2	SIX1	14	61115903	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	922195	61115903	46233637	431	23499										
PLEKHH1	57475	broad.mit.edu	37	chr14	68038551	68038551	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cagctctcaggcgagtttccGaatctcggtcccctcctctg	9	16	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:68038551G>T	uc001xjl.1	+	10	1659	c.1517G>T	c.(1516-1518)CGA>CTA	p.R506L	PLEKHH1_uc010tsw.1_Missense_Mutation_p.R74L|PLEKHH1_uc001xjm.1_Missense_Mutation_p.R21L|PLEKHH1_uc001xjn.1_Missense_Mutation_p.R21L	NM_020715	NP_065766	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H	506						cytoskeleton	binding				0				all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)		GCGAGTTTCCGAATCTCGGTC	0.602													12	39	---	---	---	---	PASS	T	68038551	T	T	68038551	3	4	60	1	0	0	0	0	1	0	0	0	12076	1058	37	2	1551	2	PLEKHH1	14	68038551	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	6922648	68038551	39310989	432	23500										
DCAF5	8816	broad.mit.edu	37	chr14	69529207	69529207	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcagcaccatgaaggctccgTtgaccaccctaccaatgcca	7	16	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:69529207T>C	uc001xkp.2	-	8	1187	c.968A>G	c.(967-969)AAC>AGC	p.N323S	DCAF5_uc001xkq.2_Missense_Mutation_p.N322S	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	323						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						GAAGGCTCCGTTGACCACCCT	0.418													41	45	---	---	---	---	PASS	C	69529207	C	C	69529207	3	2	60	1	0	0	0	0	1	0	0	0	4273	1725	60	5	1868	5	DCAF5	14	69529207	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	1490656	69529207	37820333	433	23501										
ADAM20	8748	broad.mit.edu	37	chr14	70989980	70989980	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttcatagcagaaggcattcaCattacaggagatcccgtcct	8	11	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:70989980C>A	uc001xme.2	-	2	1890	c.1645G>T	c.(1645-1647)GTG>TTG	p.V549L		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	499	Cys-rich.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		AAGGCATTCACATTACAGGAG	0.438													41	153	---	---	---	---	PASS	A	70989980	A	A	70989980	3	1	60	1	0	0	0	0	1	0	0	0	242	478	17	3	689	3	ADAM20	14	70989980	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1460773	70989980	36359560	434	23502										
C14orf169	79697	broad.mit.edu	37	chr14	73957825	73957825	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cggtcctggccctgcccttgAggtccaggaagatacgaaag	13	12	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:73957825A>T	uc001xok.1	+	1	182	c.103A>T	c.(103-105)AGG>TGG	p.R35W	HEATR4_uc010tua.1_Intron	NM_024644	NP_078920	Q9H6W3	NO66_HUMAN	chromosome 14 open reading frame 169	35					negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K4 specific)|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0				BRCA - Breast invasive adenocarcinoma(234;0.0033)|OV - Ovarian serous cystadenocarcinoma(108;0.215)		CCTGCCCTTGAGGTCCAGGAA	0.672													21	36	---	---	---	---	PASS	T	73957825	T	T	73957825	3	4	60	1	0	0	0	0	1	0	0	0	1758	295	11	5	105	5	C14orf169	14	73957825	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	2967845	73957825	33391715	435	23503										
MARK3	4140	broad.mit.edu	37	chr14	103915265	103915265	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttttttttagctcttcagaGaagtaagaataatgaagatt	7	3	2	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:103915265G>T	uc001ymz.3	+	4	973	c.307G>T	c.(307-309)GAA>TAA	p.E103*	MARK3_uc001ymx.3_Nonsense_Mutation_p.E103*|MARK3_uc001ymw.3_Nonsense_Mutation_p.E103*|MARK3_uc001yna.3_Nonsense_Mutation_p.E103*|MARK3_uc001ymy.3_Nonsense_Mutation_p.E103*|MARK3_uc010awp.2_Nonsense_Mutation_p.E103*	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	103	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			GCTCTTCAGAGAAGTAAGAAT	0.254													26	136	---	---	---	---	PASS	T	103915265	T	T	103915265	4	4	60	1	0	0	0	0	0	1	0	0	9314	943	33	2	321	2	MARK3	14	103915265	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	29957440	103915265	3434275	436	23504										
TMEM179	388021	broad.mit.edu	37	chr14	105070804	105070804	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccttgcagaggaagaagagcGtgcgccaggcgtgcgcggcg	18	11	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr14:105070804G>T	uc001yox.1	-	1	294	c.275C>A	c.(274-276)ACG>AAG	p.T92K		NM_207379	NP_997262	Q6ZVK1	T179A_HUMAN	transmembrane protein 179	92	Helical; (Potential).					integral to membrane					0			all cancers(16;0.00276)|OV - Ovarian serous cystadenocarcinoma(23;0.0262)|Epithelial(46;0.058)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.129)		GAAGAAGAGCGTGCGCCAGGC	0.751													3	5	---	---	---	---	PASS	T	105070804	T	T	105070804	3	4	60	1	0	0	0	0	1	0	0	0	16093	1145	40	1	330	1	TMEM179	14	105070804	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1155539	105070804	2278736	437	23505										
UBE3A	7337	broad.mit.edu	37	chr15	25616127	25616127	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtcagctcgctggactcaggGatgggctcttcatcatcttc	11	12	6	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:25616127G>A	uc001zaq.2	-	4	1203	c.1203C>T	c.(1201-1203)ATC>ATT	p.I401I	uc001zae.2_Intron|UBE3A_uc001zar.2_Silent_p.I378I|UBE3A_uc001zas.2_Silent_p.I398I|UBE3A_uc001zat.2_Silent_p.I378I	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	401	E6-binding.				brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		TGGACTCAGGGATGGGCTCTT	0.458													27	60	---	---	---	---	PASS	A	25616127	A	A	25616127	2	1	60	1	0	0	0	0	0	0	0	1	16876	1164	41	2		2	UBE3A	15	25616127	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08		25616127	76915265	438	23506										
ATP10A	57194	broad.mit.edu	37	chr15	25924723	25924723	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gggaagacaggggggtcaccCtgccggtgctggcagctctc	17	12	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:25924723C>A	uc010ayu.2	-	21	4371	c.4265G>T	c.(4264-4266)AGG>ATG	p.R1422M		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1422	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GGGGGTCACCCTGCCGGTGCT	0.632													36	51	---	---	---	---	PASS	A	25924723	A	A	25924723	3	1	60	1	0	0	0	0	1	0	0	0	1116	681	24	3	238	3	ATP10A	15	25924723	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	308596	25924723	76606669	439	23507										
OCA2	4948	broad.mit.edu	37	chr15	28196993	28196993	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	catgaagataacaaatcccaAcactgtcaggcatttggcga	8	10	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:28196993A>C	uc001zbh.3	-	18	1998	c.1888T>G	c.(1888-1890)TTG>GTG	p.L630V	OCA2_uc010ayv.2_Missense_Mutation_p.L606V	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	630	Helical; (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		ACAAATCCCAACACTGTCAGG	0.433									Oculocutaneous_Albinism				10	40	---	---	---	---	PASS	C	28196993	C	C	28196993	3	2	60	1	0	0	0	0	1	0	0	0	10815	40	2	5	656	5	OCA2	15	28196993	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	2272270	28196993	74334399	440	23508										
HERC2	8924	broad.mit.edu	37	chr15	28389936	28389936	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcgcagctcgctggaccagtCggaccactctcggcctgcgg	14	16	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:28389936C>G	uc001zbj.2	-	72	11129	c.11023G>C	c.(11023-11025)GAC>CAC	p.D3675H		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3675					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CTGGACCAGTCGGACCACTCT	0.557													20	69	---	---	---	---	PASS	G	28389936	G	G	28389936	3	3	60	1	0	0	0	0	1	0	0	0	7058	884	31	2	3569	2	HERC2	15	28389936	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	192943	28389936	74141456	441	23509										
TJP1	7082	broad.mit.edu	37	chr15	30000937	30000937	+	Frame_Shift_Del	DEL	T	-	-													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgaagacaagtcaggtttaTgtgcagtttcacttggcaga							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:30000937delT	uc001zcr.2	-	25	5151	c.4676delA	c.(4675-4677)CATfs	p.H1559fs	TJP1_uc010azl.2_Frame_Shift_Del_p.H1547fs|TJP1_uc001zcq.2_Frame_Shift_Del_p.H1483fs|TJP1_uc001zcs.2_Frame_Shift_Del_p.H1479fs	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	1559					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		GTCAGGTTTATGTGCAGTTTC	0.418													227	105	---	---	---	---		-	30000937	-	-	30000937	7	5	60	1	0	1	0	1	0	0	0	0	15926	1464	51	0	586	0	TJP1	15	30000937	Frame_Shift_Del	DEL	T	TCGA-33-4583-01A-01D-1441-08	1611001	30000937	72530455	442	23510										
MTMR10	54893	broad.mit.edu	37	chr15	31234047	31234047	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcacagtttccacagttttaTgtgtgttccagagacacgtg	10	9	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:31234047T>C	uc001zfh.1	-	16	2058	c.1960A>G	c.(1960-1962)ATA>GTA	p.I654V	MTMR15_uc001zff.2_3'UTR|MTMR15_uc001zfe.2_3'UTR|MTMR10_uc010ubk.1_Missense_Mutation_p.I68V|MTMR10_uc001zfg.1_Missense_Mutation_p.I235V|MTMR10_uc010azx.1_Missense_Mutation_p.I406V|MTMR10_uc001zfi.1_3'UTR	NM_017762	NP_060232	Q9NXD2	MTMRA_HUMAN	myotubularin related protein 10	654	Myotubularin phosphatase.						phosphatase activity			ovary(1)	1		all_lung(180;2.81e-11)		all cancers(64;7.26e-15)|Epithelial(43;7.2e-11)|GBM - Glioblastoma multiforme(186;0.000158)|BRCA - Breast invasive adenocarcinoma(123;0.00426)|Lung(196;0.174)		CACAGTTTTATGTGTGTTCCA	0.532													46	98	---	---	---	---	PASS	C	31234047	C	C	31234047	3	2	60	1	0	0	0	0	1	0	0	0	9939	1464	51	5	377	5	MTMR10	15	31234047	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	1233110	31234047	71297345	443	23511										
TRPM1	4308	broad.mit.edu	37	chr15	31294039	31294039	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aacagactagcattcagtttCtgtggaagctttctctttct	7	9	4	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:31294039C>T	uc001zfm.2	-	27	4926	c.4798G>A	c.(4798-4800)GAA>AAA	p.E1600K	TRPM1_uc010azy.2_Missense_Mutation_p.E1507K|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1600	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		CATTCAGTTTCTGTGGAAGCT	0.358													26	75	---	---	---	---	PASS	T	31294039	T	T	31294039	3	4	60	1	0	0	0	0	1	0	0	0	16582	922	32	2	17	2	TRPM1	15	31294039	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	59992	31294039	71237353	444	23512										
RYR3	6263	broad.mit.edu	37	chr15	34049697	34049697	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttctcctcccgctggttgacCagtacttcaccagtcattgc	7	15	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:34049697C>A	uc001zhi.2	+	60	8675	c.8605C>A	c.(8605-8607)CAG>AAG	p.Q2869K	RYR3_uc010bar.2_Missense_Mutation_p.Q2869K	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2869	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GCTGGTTGACCAGTACTTCAC	0.468													5	11	---	---	---	---	PASS	A	34049697	A	A	34049697	3	1	60	1	0	0	0	0	1	0	0	0	13770	595	21	3	8843	3	RYR3	15	34049697	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2755658	34049697	68481695	445	23513										
RYR3	6263	broad.mit.edu	37	chr15	34102748	34102748	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgtattccatccagacctcCctcatcgtggctgcactcaa	6	15	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:34102748C>T	uc001zhi.2	+	71	10165	c.10095C>T	c.(10093-10095)TCC>TCT	p.S3365S	RYR3_uc010bar.2_Silent_p.S3360S	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3365					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TCCAGACCTCCCTCATCGTGG	0.517													19	45	---	---	---	---	PASS	T	34102748	T	T	34102748	2	4	60	1	0	0	0	0	0	0	0	1	13770	610	22	3		3	RYR3	15	34102748	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	53051	34102748	68428644	446	23514										
VPS18	57617	broad.mit.edu	37	chr15	41192320	41192320	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggaggccgatttctgctttcGccagcgtcgctacctggaga	13	12	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:41192320G>T	uc001zne.2	+	4	1643	c.1304G>T	c.(1303-1305)CGC>CTC	p.R435L		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	435					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		TTCTGCTTTCGCCAGCGTCGC	0.607													75	137	---	---	---	---	PASS	T	41192320	T	T	41192320	3	4	60	1	0	0	0	0	1	0	0	0	17191	1087	38	1	1318	1	VPS18	15	41192320	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	7089572	41192320	61339072	447	23515										
LCMT2	9836	broad.mit.edu	37	chr15	43621185	43621185	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agtacaggttccaccacgctTcgacccccatacacaaacaa	5	16	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:43621185T>A	uc001zrg.2	-	1	1707	c.1503A>T	c.(1501-1503)CGA>CGT	p.R501R	LCMT2_uc010udn.1_Silent_p.R80R|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	501					tRNA processing		methyltransferase activity|protein binding				0		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.1e-07)	L-Leucine(DB00149)	CCACCACGCTTCGACCCCCAT	0.512													99	146	---	---	---	---	PASS	A	43621185	A	A	43621185	2	1	60	1	0	0	0	0	0	0	0	1	8679	1770	62	5		5	LCMT2	15	43621185	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	2428865	43621185	58910207	448	23516										
SPG11	80208	broad.mit.edu	37	chr15	44876661	44876661	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgcttgaaattgaatttttCttaaaattctcatggcattt	5	5	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:44876661C>G	uc001ztx.2	-	30	5248	c.5217G>C	c.(5215-5217)AAG>AAC	p.K1739N	SPG11_uc010bdw.2_Missense_Mutation_p.K28N|SPG11_uc010ueh.1_Missense_Mutation_p.K1739N|SPG11_uc010uei.1_Missense_Mutation_p.K1739N|SPG11_uc001zty.1_Missense_Mutation_p.K468N	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	1739	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		TTGAATTTTTCTTAAAATTCT	0.433													5	92	---	---	---	---	PASS	G	44876661	G	G	44876661	3	3	60	1	0	0	0	0	1	0	0	0	15040	912	32	2	2158	2	SPG11	15	44876661	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1255476	44876661	57654731	449	23517										
DUOXA2	405753	broad.mit.edu	37	chr15	45409295	45409295	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccactccccggcagggtggcGttctgcttctggctcctctc	11	17	3	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:45409295G>A	uc001zuo.2	+	5	841	c.561G>A	c.(559-561)GCG>GCA	p.A187A	DUOX2_uc010bea.2_5'Flank|DUOX2_uc001zun.2_5'Flank|DUOXA2_uc010beb.2_RNA	NM_207581	NP_997464	Q1HG44	DOXA2_HUMAN	dual oxidase activator 2	187	Helical; (Potential).				protein transport	endoplasmic reticulum membrane|integral to membrane					0		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;2.88e-18)|GBM - Glioblastoma multiforme(94;3.95e-07)|COAD - Colon adenocarcinoma(120;0.0652)|Colorectal(133;0.0659)		GCAGGGTGGCGTTCTGCTTCT	0.692													9	39	---	---	---	---	PASS	A	45409295	A	A	45409295	2	1	60	1	0	0	0	0	0	0	0	1	4803	1132	40	1		1	DUOXA2	15	45409295	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	532634	45409295	57122097	450	23518										
SLC12A1	6557	broad.mit.edu	37	chr15	48543965	48543965	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctatgtgacttgtaagaagcCaggtaagataatgactgtct	10	6	1	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:48543965C>A	uc001zwn.3	+	15	2156	c.1940C>A	c.(1939-1941)CCA>CAA	p.P647Q	SLC12A1_uc010uew.1_Missense_Mutation_p.P453Q|SLC12A1_uc010bem.2_Missense_Mutation_p.P647Q|SLC12A1_uc001zwq.3_Missense_Mutation_p.P418Q|SLC12A1_uc001zwr.3_Missense_Mutation_p.P374Q	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	647					potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	TGTAAGAAGCCAGGTAAGATA	0.313													16	47	---	---	---	---	PASS	A	48543965	A	A	48543965	3	1	60	1	0	0	0	0	1	0	0	0	14382	594	21	3	2094	3	SLC12A1	15	48543965	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3134670	48543965	53987427	451	23519										
SHC4	399694	broad.mit.edu	37	chr15	49254801	49254801	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aggtgcagtcccggacctacTtaaactggtttctggggaag	13	9	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:49254801T>C	uc001zxb.1	-	1	841	c.412A>G	c.(412-414)AGT>GGT	p.S138G		NM_203349	NP_976224	Q6S5L8	SHC4_HUMAN	rai-like protein	138	CH2.				intracellular signal transduction	cell junction|postsynaptic membrane				ovary(3)|pancreas(2)	5		all_lung(180;0.00466)		all cancers(107;9.4e-08)|GBM - Glioblastoma multiforme(94;5.94e-07)		CCGGACCTACTTAAACTGGTT	0.627													25	39	---	---	---	---	PASS	C	49254801	C	C	49254801	3	2	60	1	0	0	0	0	1	0	0	0	14273	1609	56	5	1528	5	SHC4	15	49254801	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	710836	49254801	53276591	452	23520										
ATP8B4	79895	broad.mit.edu	37	chr15	50271996	50271996	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agaataattcccaagcatatCagaaacccaaaaatctgaaa	4	9	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:50271996C>A	uc001zxu.2	-	12	994	c.852G>T	c.(850-852)CTG>CTT	p.L284L	ATP8B4_uc010ber.2_Silent_p.L157L|ATP8B4_uc010ufd.1_Silent_p.L157L|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	284	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		CCAAGCATATCAGAAACCCAA	0.353													41	69	---	---	---	---	PASS	A	50271996	A	A	50271996	2	1	60	1	0	0	0	0	0	0	0	1	1197	813	29	2		2	ATP8B4	15	50271996	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	1017195	50271996	52259396	453	23521										
HDC	3067	broad.mit.edu	37	chr15	50549686	50549686	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agtgctctggaagtcccagcAtttttgccaaccagtccatg	9	12	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:50549686A>C	uc001zxz.2	-	4	483	c.377T>G	c.(376-378)ATG>AGG	p.M126R	HDC_uc010uff.1_Missense_Mutation_p.M126R|HDC_uc010bet.1_Intron|HDC_uc010beu.1_Missense_Mutation_p.M126R	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	126					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	AAGTCCCAGCATTTTTGCCAA	0.582													53	111	---	---	---	---	PASS	C	50549686	C	C	50549686	3	2	60	1	0	0	0	0	1	0	0	0	7015	217	8	5	1647	5	HDC	15	50549686	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	277690	50549686	51981706	454	23522										
DMXL2	23312	broad.mit.edu	37	chr15	51830482	51830482	+	Missense_Mutation	SNP	C	A	A													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctcatcttctctatctgcatCatcattttcatgatctacct							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:51830482C>A	uc002abf.2	-	10	1498	c.1273G>T	c.(1273-1275)GAT>TAT	p.D425Y	DMXL2_uc010ufy.1_Missense_Mutation_p.D425Y|DMXL2_uc010bfa.2_Missense_Mutation_p.D425Y	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	425						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		CTATCTGCATCATCATTTTCA	0.338													62	109	---	---	---	---	PASS	A	51830482	A	A	51830482	3	1	60	1	0	0	0	0	1	0	0	0	4595	826	29	2	7976	2	DMXL2	15	51830482	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1280796	51830482	50700910	455	23523	515	2								
DMXL2	23312	broad.mit.edu	37	chr15	51830483	51830483	+	Missense_Mutation	SNP	A	C	C													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcatcttctctatctgcatcAtcattttcatgatctacctg							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:51830483A>C	uc002abf.2	-	10	1497	c.1272T>G	c.(1270-1272)GAT>GAG	p.D424E	DMXL2_uc010ufy.1_Missense_Mutation_p.D424E|DMXL2_uc010bfa.2_Missense_Mutation_p.D424E	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	424						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		TATCTGCATCATCATTTTCAT	0.338													61	106	---	---	---	---	PASS	C	51830483	C	C	51830483	3	2	60	1	0	0	0	0	1	0	0	0	4595	214	8	5	7977	5	DMXL2	15	51830483	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	1	51830483	50700909	456	23524	515	2								
RORA	6095	broad.mit.edu	37	chr15	60919521	60919521	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aatgacccatgattgaccacGgcactcttgcctcagtctct	7	14	3	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:60919521G>A	uc002agv.2	-	1	209	c.53C>T	c.(52-54)CCG>CTG	p.P18L	RORA_uc002agw.2_Missense_Mutation_p.P18L|RORA_uc002agx.2_Intron	NM_134260	NP_599022	P35398	RORA_HUMAN	RAR-related orphan receptor A isoform b	18	Modulating.		P -> S (in a colorectal cancer sample; somatic mutation).		positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding	p.P18S(1)		large_intestine(1)|ovary(1)	2						GATTGACCACGGCACTCTTGC	0.488													31	186	---	---	---	---	PASS	A	60919521	A	A	60919521	3	1	60	1	0	0	0	0	1	0	0	0	13528	1116	39	1	1838	1	RORA	15	60919521	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	9089038	60919521	41611871	457	23525										
UACA	55075	broad.mit.edu	37	chr15	70976770	70976770	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgcaaccatattcgcaaccTagcatgagggcagttctaaa	8	11	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:70976770T>A	uc002asr.2	-	8	722	c.618A>T	c.(616-618)CTA>CTT	p.L206L	UACA_uc010uke.1_Intron|UACA_uc002asq.2_Silent_p.L193L|UACA_uc010bin.1_Silent_p.L192L	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	206	ANK 6.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						ATTCGCAACCTAGCATGAGGG	0.393													73	148	---	---	---	---	PASS	A	70976770	A	A	70976770	2	1	60	1	0	0	0	0	0	0	0	1	16821	1509	53	5		5	UACA	15	70976770	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	10057249	70976770	31554622	458	23526										
SGK269	79834	broad.mit.edu	37	chr15	77450849	77450849	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggacatttgcacttacctaaGttgctgtatgttgcactaca	8	9	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:77450849G>A	uc002bcm.2	-	4	3635	c.3327C>T	c.(3325-3327)AAC>AAT	p.N1109N	SGK269_uc002bcn.2_Silent_p.N1109N	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	1109					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		ACTTACCTAAGTTGCTGTATG	0.398													51	87	---	---	---	---	PASS	A	77450849	A	A	77450849	2	1	60	1	0	0	0	0	0	0	0	1	14211	1020	36	3		3	SGK269	15	77450849	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	6474079	77450849	25080543	459	23527										
ACSBG1	23205	broad.mit.edu	37	chr15	78466839	78466839	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cgatgggcacagggggcacaTtctccccaccagctgtgatg	13	13	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:78466839T>C	uc002bdh.2	-	12	1786	c.1730A>G	c.(1729-1731)AAT>AGT	p.N577S	ACSBG1_uc010umw.1_Missense_Mutation_p.N573S|ACSBG1_uc010umx.1_Missense_Mutation_p.N335S	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	577					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						AGGGGGCACATTCTCCCCACC	0.597													24	47	---	---	---	---	PASS	C	78466839	C	C	78466839	3	2	60	1	0	0	0	0	1	0	0	0	173	1493	52	5	456	5	ACSBG1	15	78466839	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	1015990	78466839	24064553	460	23528										
TMC3	342125	broad.mit.edu	37	chr15	81627216	81627216	+	Frame_Shift_Del	DEL	G	-	-													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcaaaatgggccacgttgccGttgttttggggtgtgcccga							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:81627216delG	uc002bgo.1	-	21	2304	c.2304delC	c.(2302-2304)AACfs	p.N768fs	TMC3_uc010blr.1_RNA	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	768	Cytoplasmic (Potential).					integral to membrane				ovary(1)|liver(1)	2						CCACGTTGCCGTTGTTTTGGG	0.592													97	45	---	---	---	---		-	81627216	-	-	81627216	7	5	60	1	0	1	0	1	0	0	0	0	15983	1136	40	0	1006	0	TMC3	15	81627216	Frame_Shift_Del	DEL	G	TCGA-33-4583-01A-01D-1441-08	3160377	81627216	20904176	461	23529										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84558881	84558881	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gttatcagctcaattctgctGaatgtgtggatatccgcttg	10	8	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:84558881G>T	uc002bjz.3	+	11	1317	c.1093G>T	c.(1093-1095)GAA>TAA	p.E365*	ADAMTSL3_uc010bmt.1_Nonsense_Mutation_p.E365*|ADAMTSL3_uc010bmu.1_Nonsense_Mutation_p.E365*	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	365						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)			CAATTCTGCTGAATGTGTGGA	0.393													59	121	---	---	---	---	PASS	T	84558881	T	T	84558881	4	4	60	1	0	0	0	0	0	1	0	0	276	1291	45	2	1131	2	ADAMTSL3	15	84558881	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2931665	84558881	17972511	462	23530										
ALPK3	57538	broad.mit.edu	37	chr15	85360218	85360218	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tctagcccaagctggccagcGgttgacctggctcccctggc	12	16	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:85360218G>C	uc002ble.2	+	1	308	c.141G>C	c.(139-141)GCG>GCC	p.A47A		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	47					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GCTGGCCAGCGGTTGACCTGG	0.701													12	31	---	---	---	---	PASS	C	85360218	C	C	85360218	2	2	60	1	0	0	0	0	0	0	0	1	546	1103	39	4		4	ALPK3	15	85360218	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	801337	85360218	17171174	463	23531										
PDE8A	5151	broad.mit.edu	37	chr15	85619149	85619149	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tattgttggtgtagtacgcaGgtaaactttcatttttttaa	8	4	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:85619149G>T	uc002blh.2	+	4	680	c.491G>T	c.(490-492)AGG>ATG	p.R164M	PDE8A_uc002bli.2_Missense_Mutation_p.R164M|PDE8A_uc010bnc.2_Translation_Start_Site|PDE8A_uc010bnd.2_Translation_Start_Site|PDE8A_uc002blj.2_Translation_Start_Site|PDE8A_uc002blk.2_Translation_Start_Site	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	164					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			GTAGTACGCAGGTAAACTTTC	0.328													98	240	---	---	---	---	PASS	T	85619149	T	T	85619149	3	4	60	1	0	0	0	0	1	0	0	0	11653	1014	35	3	505	3	PDE8A	15	85619149	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	258931	85619149	16912243	464	23532										
KIF7	374654	broad.mit.edu	37	chr15	90176085	90176085	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggcgcttgctctccagccccGtcttctcctgcatcagggcc	10	18	4	0	rs141463861	byFrequency	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr15:90176085G>A	uc002bof.2	-	14	2938	c.2861C>T	c.(2860-2862)ACG>ATG	p.T954M	KIF7_uc010upw.1_Missense_Mutation_p.T440M	NM_198525	NP_940927	Q2M1P5	KIF7_HUMAN	kinesin family member 7	954	Potential.				microtubule-based movement|negative regulation of smoothened signaling pathway|positive regulation of smoothened signaling pathway	cilium	ATP binding|microtubule motor activity|protein binding			ovary(2)|lung(1)	3	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			CTCCAGCCCCGTCTTCTCCTG	0.652													11	16	---	---	---	---	PASS	A	90176085	A	A	90176085	3	1	60	1	0	0	0	0	1	0	0	0	8309	1145	40	1	1194	1	KIF7	15	90176085	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	4556936	90176085	12355307	465	23533										
MSLN	10232	broad.mit.edu	37	chr16	814992	814992	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tggacctgctcccgagggggGctcccgagcgacagcggctg	17	14	0	0	rs34729817		TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:814992G>T	uc002cjw.1	+	7	517	c.466G>T	c.(466-468)GCT>TCT	p.A156S	MSLN_uc002cjt.1_Missense_Mutation_p.A156S|MSLN_uc002cju.1_Missense_Mutation_p.A156S|MSLN_uc010brd.1_Missense_Mutation_p.A155S|MSLN_uc002cjv.1_Missense_Mutation_p.A156S|MSLN_uc002cjx.1_Missense_Mutation_p.A156S|MSLN_uc002cjy.1_5'Flank	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein	156					cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)				CCCGAGGGGGGCTCCCGAGCG	0.692													12	19	---	---	---	---	PASS	T	814992	T	T	814992	3	4	60	1	0	0	0	0	1	0	0	0	9881	1203	42	3	488	3	MSLN	16	814992	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08		814992	89539761	466	23534										
C1QTNF8	390664	broad.mit.edu	37	chr16	1144031	1144031	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctgccggcccgacctcggaCgccggcctcacccttctcac	9	22	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:1144031C>T	uc010uuw.1	-	4	503	c.229G>A	c.(229-231)GTC>ATC	p.V77I		NM_207419	NP_997302	P60827	C1QT8_HUMAN	C1q and tumor necrosis factor related protein 8	77	Collagen-like.					collagen				skin(1)	1		Hepatocellular(780;0.00369)				CGACCTCGGACGCCGGCCTCA	0.766													9	12	---	---	---	---	PASS	T	1144031	T	T	1144031	3	4	60	1	0	0	0	0	1	0	0	0	1969	536	19	1	533	1	C1QTNF8	16	1144031	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	329039	1144031	89210722	467	23535										
ZNF434	54925	broad.mit.edu	37	chr16	3434703	3434703	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcattcatttcctcataaaaGatacaaggctcaggcacacg	7	11	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:3434703G>C	uc002cuz.2	-	5	1156	c.354C>G	c.(352-354)ATC>ATG	p.I118M	ZNF434_uc002cux.3_Missense_Mutation_p.I329M|ZNF434_uc010uwx.1_Missense_Mutation_p.I41M|ZNF434_uc002cuy.3_Missense_Mutation_p.I41M|ZNF434_uc010uwy.1_Missense_Mutation_p.I41M|ZNF434_uc010uwz.1_Missense_Mutation_p.I329M|ZNF434_uc010uxa.1_Missense_Mutation_p.I118M	NM_017810	NP_060280	Q9NX65	ZN434_HUMAN	zinc finger protein 434	118					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CCTCATAAAAGATACAAGGCT	0.517													98	207	---	---	---	---	PASS	C	3434703	C	C	3434703	3	2	60	1	0	0	0	0	1	0	0	0	17905	932	33	2	1111	2	ZNF434	16	3434703	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2290672	3434703	86920050	468	23536										
CORO7	79585	broad.mit.edu	37	chr16	4415002	4415002	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggggcgaggaagcaaggcttAcctgggctcagcgccggctg	18	11	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:4415002A>T	uc002cwh.3	-	11	1018	c.898_splice	c.e11+1	p.V300_splice	CORO7_uc002cwe.2_Splice_Site|CORO7_uc002cwf.2_Splice_Site_p.V300_splice|CORO7_uc002cwg.3_Splice_Site_p.V80_splice|CORO7_uc010uxh.1_Splice_Site_p.V282_splice|CORO7_uc010uxi.1_Splice_Site_p.V215_splice|CORO7_uc002cwi.1_Splice_Site_p.V80_splice|CORO7_uc010uxj.1_Splice_Site|CORO7_uc010btp.1_Splice_Site_p.V80_splice	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7							cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						AGCAAGGCTTACCTGGGCTCA	0.622													5	10	---	---	---	---	PASS	T	4415002	T	T	4415002	5	4	60	1	0	0	0	0	0	0	1	0	3759	405	14	5	1949	5	CORO7	16	4415002	Splice_Site	SNP	A	TCGA-33-4583-01A-01D-1441-08	980299	4415002	85939751	469	23537										
ANKS3	124401	broad.mit.edu	37	chr16	4752157	4752157	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccgctcattgatgggggaggTgacatcccggcagcagaggc	16	11	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:4752157T>C	uc002cxj.1	-	9	1250	c.955A>G	c.(955-957)ACC>GCC	p.T319A	ANKS3_uc010uxr.1_5'Flank|ANKS3_uc002cxh.1_5'Flank|ANKS3_uc002cxi.1_Missense_Mutation_p.T246A|ANKS3_uc002cxk.2_Missense_Mutation_p.T190A|ANKS3_uc002cxl.2_Missense_Mutation_p.T146A|ANKS3_uc010uxs.1_Missense_Mutation_p.T246A|ANKS3_uc002cxm.2_Missense_Mutation_p.T113A	NM_133450	NP_597707	Q6ZW76	ANKS3_HUMAN	ankyrin repeat and sterile alpha motif domain	319											0						ATGGGGGAGGTGACATCCCGG	0.572													15	26	---	---	---	---	PASS	C	4752157	C	C	4752157	3	2	60	1	0	0	0	0	1	0	0	0	690	1696	59	5	1051	5	ANKS3	16	4752157	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	337155	4752157	85602596	470	23538										
ZP2	7783	broad.mit.edu	37	chr16	21210929	21210929	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acacagggcaggtcacagaaCacagtggggagtcaggggag	17	8	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:21210929C>A	uc002dii.2	-	16	1889	c.1889G>T	c.(1888-1890)TGT>TTT	p.C630F	ZP2_uc010bwn.1_Missense_Mutation_p.C660F	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	630	Extracellular (Potential).|ZP.				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		GGTCACAGAACACAGTGGGGA	0.448													18	45	---	---	---	---	PASS	A	21210929	A	A	21210929	3	1	60	1	0	0	0	0	1	0	0	0	18213	478	17	3	364	3	ZP2	16	21210929	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	16458772	21210929	69143824	471	23539										
NFATC2IP	84901	broad.mit.edu	37	chr16	28970373	28970373	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcccaacagctccagctccgGgtgcagggaaaggagaaaca	12	12	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:28970373G>T	uc002dru.2	+	7	1068	c.1053G>T	c.(1051-1053)CGG>CGT	p.R351R	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Silent_p.R72R|NFATC2IP_uc002drv.2_Silent_p.R70R|NFATC2IP_uc010vdh.1_Silent_p.R59R	NM_032815	NP_116204	Q8NCF5	NF2IP_HUMAN	nuclear factor of activated T-cells,	351	Ubiquitin-like.					cytoplasm|nucleus				ovary(1)	1						TCCAGCTCCGGGTGCAGGGAA	0.587													22	96	---	---	---	---	PASS	T	28970373	T	T	28970373	2	4	60	1	0	0	0	0	0	0	0	1	10363	1219	43	3		3	NFATC2IP	16	28970373	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	7759444	28970373	61384380	472	23540										
SETD1A	9739	broad.mit.edu	37	chr16	30990907	30990907	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctgacccctgcccggcgcgGgctgcctgccctgcctgctg	13	20	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:30990907G>A	uc002ead.1	+	14	4486	c.3800G>A	c.(3799-3801)GGG>GAG	p.G1267E		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1267					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						GCCCGGCGCGGGCTGCCTGCC	0.706													14	17	---	---	---	---	PASS	A	30990907	A	A	30990907	3	1	60	1	0	0	0	0	1	0	0	0	14130	1232	43	3	3850	3	SETD1A	16	30990907	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2020534	30990907	59363846	473	23541										
PRSS36	146547	broad.mit.edu	37	chr16	31151700	31151700	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gatagaggcagtcacagattCgttgtgtcaagatggagaca	13	6	2	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:31151700C>T	uc002ebd.2	-	14	2263	c.2204G>A	c.(2203-2205)CGA>CAA	p.R735Q	PRSS36_uc010vff.1_Missense_Mutation_p.R510Q|PRSS36_uc010vfg.1_Missense_Mutation_p.R730Q|PRSS36_uc010vfh.1_Intron	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	735	Peptidase S1 3.				proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						GTCACAGATTCGTTGTGTCAA	0.597													11	90	---	---	---	---	PASS	T	31151700	T	T	31151700	3	4	60	1	0	0	0	0	1	0	0	0	12625	884	31	2	371	2	PRSS36	16	31151700	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	160793	31151700	59203053	474	23542										
PRSS36	146547	broad.mit.edu	37	chr16	31154774	31154774	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cccagggccaggcccctggcCgcggggccttcccgcactct	13	20	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:31154774C>A	uc002ebd.2	-	8	1048	c.989G>T	c.(988-990)CGG>CTG	p.R330L	PRSS36_uc010vff.1_Missense_Mutation_p.R105L|PRSS36_uc010vfg.1_Missense_Mutation_p.R330L|PRSS36_uc010vfh.1_Missense_Mutation_p.R330L	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	330	Peptidase S1 2.				proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						GGCCCCTGGCCGCGGGGCCTT	0.667													29	76	---	---	---	---	PASS	A	31154774	A	A	31154774	3	1	60	1	0	0	0	0	1	0	0	0	12625	652	23	1	1610	1	PRSS36	16	31154774	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3074	31154774	59199979	475	23543										
VPS35	55737	broad.mit.edu	37	chr16	46695755	46695755	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttttttaggcactccattaCcctcttgcctccgtgaagct	6	13	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:46695755C>A	uc002eef.3	-	16	2185	c.2086G>T	c.(2086-2088)GTA>TTA	p.V696L	VPS35_uc002eed.2_3'UTR|VPS35_uc002eee.2_Missense_Mutation_p.V657L	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	696					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				CACTCCATTACCCTCTTGCCT	0.398													24	124	---	---	---	---	PASS	A	46695755	A	A	46695755	3	1	60	1	0	0	0	0	1	0	0	0	17200	507	18	3	312	3	VPS35	16	46695755	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	15540981	46695755	43658998	476	23544										
PHKB	5257	broad.mit.edu	37	chr16	47622893	47622893	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gaagttctttttagccagacActtgataaagtggttagaaa	9	5	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:47622893A>G	uc002eev.3	+	10	1000	c.948A>G	c.(946-948)ACA>ACG	p.T316T	PHKB_uc002eeu.3_Silent_p.T309T	NM_000293	NP_000284	Q93100	KPBB_HUMAN	phosphorylase kinase, beta isoform a	316					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				TTAGCCAGACACTTGATAAAG	0.403													16	61	---	---	---	---	PASS	G	47622893	G	G	47622893	2	3	60	1	0	0	0	0	0	0	0	1	11845	146	6	5		5	PHKB	16	47622893	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	927138	47622893	42731860	477	23545										
NOD2	64127	broad.mit.edu	37	chr16	50744941	50744941	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctccttgaccaccctgaccgTgtcctgttaacctttgatgg	8	14	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:50744941T>A	uc002egm.1	+	4	1224	c.1119T>A	c.(1117-1119)CGT>CGA	p.R373R	NOD2_uc010cbk.1_Silent_p.R346R|NOD2_uc002egl.1_Silent_p.R151R|NOD2_uc010cbl.1_Silent_p.R151R|NOD2_uc010cbm.1_Silent_p.R151R|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	373	NACHT.		R -> C (associated with Crohn disease).		activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				ACCCTGACCGTGTCCTGTTAA	0.542													17	81	---	---	---	---	PASS	A	50744941	A	A	50744941	2	1	60	1	0	0	0	0	0	0	0	1	10517	1683	59	5		5	NOD2	16	50744941	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	3122048	50744941	39609812	478	23546										
CHST5	23563	broad.mit.edu	37	chr16	75563610	75563610	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcgcagcacggcccgcgggtCgcgcaccaggtgcacgatgc	16	16	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:75563610C>A	uc002fei.2	-	3	2068	c.673G>T	c.(673-675)GAC>TAC	p.D225Y	CHST5_uc002fej.1_Missense_Mutation_p.D231Y	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	225	Lumenal (Potential).|PAPS (By similarity).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						GCCCGCGGGTCGCGCACCAGG	0.701													14	46	---	---	---	---	PASS	A	75563610	A	A	75563610	3	1	60	1	0	0	0	0	1	0	0	0	3407	884	31	2	566	2	CHST5	16	75563610	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	24818669	75563610	14791143	479	23547										
MON1B	22879	broad.mit.edu	37	chr16	77225393	77225393	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggatgtgcagatggaggtcgGaggagacactgctgccccgg	18	9	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:77225393G>A	uc002fez.2	+	2	341	c.11G>A	c.(10-12)GGA>GAA	p.G4E	MON1B_uc010vnf.1_Missense_Mutation_p.G4E|MON1B_uc010vng.1_Intron|MON1B_uc002ffa.2_5'Flank	NM_014940	NP_055755	Q7L1V2	MON1B_HUMAN	MON1 homolog B	4							protein binding				0						ATGGAGGTCGGAGGAGACACT	0.512													3	26	---	---	---	---	PASS	A	77225393	A	A	77225393	3	1	60	1	0	0	0	0	1	0	0	0	9699	1174	41	2	13	2	MON1B	16	77225393	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1661783	77225393	13129360	480	23548										
PKD1L2	114780	broad.mit.edu	37	chr16	81199487	81199487	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gggggtggccagcatggctgGaaggccccctggcagttttc	17	11	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:81199487G>A	uc002fgh.1	-	19	3175	c.3175C>T	c.(3175-3177)CCA>TCA	p.P1059S	PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	1059	REJ.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AGCATGGCTGGAAGGCCCCCT	0.562													12	13	---	---	---	---	PASS	A	81199487	A	A	81199487	3	1	60	1	0	0	0	0	1	0	0	0	11965	1174	41	2	4303	2	PKD1L2	16	81199487	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	3974094	81199487	9155266	481	23549										
FBXO31	79791	broad.mit.edu	37	chr16	87367544	87367544	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctggagctcacgcccacggGcagcacgaacggctgcccct	12	18	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:87367544G>A	uc002fjw.2	-	8	1389	c.1345C>T	c.(1345-1347)CCC>TCC	p.P449S	FBXO31_uc010vot.1_Missense_Mutation_p.P277S|FBXO31_uc002fjv.2_Missense_Mutation_p.P341S	NM_024735	NP_079011	Q5XUX0	FBX31_HUMAN	F-box protein 31	449					cell cycle|cyclin catabolic process|mitotic cell cycle G1/S transition DNA damage checkpoint|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	SCF ubiquitin ligase complex	cyclin binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0272)		ACGCCCACGGGCAGCACGAAC	0.672													10	58	---	---	---	---	PASS	A	87367544	A	A	87367544	3	1	60	1	0	0	0	0	1	0	0	0	5741	1203	42	3	282	3	FBXO31	16	87367544	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	6168057	87367544	2987209	482	23550										
GALNS	2588	broad.mit.edu	37	chr16	88908314	88908314	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gggcagcctaccgtttctggCatgggcgttggtggtgtaga	17	8	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:88908314C>A	uc002fly.3	-	3	399	c.310G>T	c.(310-312)GCC>TCC	p.A104S	GALNS_uc010cid.2_Missense_Mutation_p.A110S|GALNS_uc002flz.3_5'UTR	NM_000512	NP_000503	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfate sulfatase	104						lysosome	metal ion binding|N-acetylgalactosamine-4-sulfatase activity|N-acetylgalactosamine-6-sulfatase activity			large_intestine(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0496)	Hyaluronidase(DB00070)	CCGTTTCTGGCATGGGCGTTG	0.632													5	25	---	---	---	---	PASS	A	88908314	A	A	88908314	3	1	60	1	0	0	0	0	1	0	0	0	6206	710	25	3	1306	3	GALNS	16	88908314	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1540770	88908314	1446439	483	23551										
SPIRE2	84501	broad.mit.edu	37	chr16	89927144	89927144	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	accccctactcagcaaccggGgctcctcgggggacagaccc	11	18	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr16:89927144G>A	uc002foz.1	+	10	1568	c.1516G>A	c.(1516-1518)GGC>AGC	p.G506S	SPIRE2_uc010ciw.1_Missense_Mutation_p.G506S|SPIRE2_uc002fpa.1_Missense_Mutation_p.G458S|SPIRE2_uc010cix.1_Missense_Mutation_p.G373S	NM_032451	NP_115827	Q8WWL2	SPIR2_HUMAN	spire homolog 2	506					transport	cytoplasm|cytoskeleton	actin binding			central_nervous_system(1)	1		Lung NSC(15;5.15e-06)|all_lung(18;8.38e-06)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0286)		CAGCAACCGGGGCTCCTCGGG	0.677											OREG0024056	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	9	---	---	---	---	PASS	A	89927144	A	A	89927144	3	1	60	1	0	0	0	0	1	0	0	0	15071	1232	43	3	1554	3	SPIRE2	16	89927144	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1018830	89927144	427609	484	23552										
KIAA0664	23277	broad.mit.edu	37	chr17	2601427	2601427	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccacctcctcgtcacggtcgTtgagcacctggtgccgcagg	12	16	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:2601427T>C	uc002fuy.1	-	10	1696	c.1610A>G	c.(1609-1611)AAC>AGC	p.N537S	KIAA0664_uc002fux.1_Missense_Mutation_p.N469S	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	537							binding			breast(2)	2						GTCACGGTCGTTGAGCACCTG	0.642													4	6	---	---	---	---	PASS	C	2601427	C	C	2601427	3	2	60	1	0	0	0	0	1	0	0	0	8189	1725	60	5	2387	5	KIAA0664	17	2601427	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08		2601427	78593783	485	23553										
P2RX1	5023	broad.mit.edu	37	chr17	3807227	3807227	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aggtcagagtgttaccgcggGatgtcgtcatccacctccac	11	13	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:3807227G>T	uc002fww.2	-	5	960	c.519C>A	c.(517-519)ATC>ATA	p.I173I		NM_002558	NP_002549	P51575	P2RX1_HUMAN	purinergic receptor P2X1	173	Extracellular (Potential).				platelet activation	integral to plasma membrane	calcium channel activity|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity			ovary(1)|skin(1)	2				LUAD - Lung adenocarcinoma(2;1.9e-05)|Lung(3;0.0173)		GTTACCGCGGGATGTCGTCAT	0.572													10	70	---	---	---	---	PASS	T	3807227	T	T	3807227	2	4	60	1	0	0	0	0	0	0	0	1	11339	1164	41	2		2	P2RX1	17	3807227	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	1205800	3807227	77387983	486	23554										
PITPNM3	83394	broad.mit.edu	37	chr17	6374626	6374626	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tccagaagtggcgggctgtcCcgggagctgccctccaggaa	15	13	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:6374626C>A	uc002gdd.3	-	12	1630	c.1479G>T	c.(1477-1479)CGG>CGT	p.R493R	PITPNM3_uc010cln.2_Silent_p.R457R|PITPNM3_uc010clm.2_5'UTR|PITPNM3_uc002gdc.3_Silent_p.R84R	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	493	DDHD.				phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		GCGGGCTGTCCCGGGAGCTGC	0.662													8	12	---	---	---	---	PASS	A	6374626	A	A	6374626	2	1	60	1	0	0	0	0	0	0	0	1	11952	610	22	3		3	PITPNM3	17	6374626	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	2567399	6374626	74820584	487	23555										
TEKT1	83659	broad.mit.edu	37	chr17	6733599	6733599	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgcgaccaggcgttctgatcGggacctttgagcgtctgctc	13	12	2	2	rs143066578		TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:6733599G>C	uc002gdt.2	-	2	207	c.97C>G	c.(97-99)CGA>GGA	p.R33G	TEKT1_uc010vth.1_5'UTR	NM_053285	NP_444515	Q969V4	TEKT1_HUMAN	tektin 1	33	Potential.				microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule		p.R33*(1)		ovary(1)|skin(1)	2		Myeloproliferative disorder(207;0.0255)				CGTTCTGATCGGGACCTTTGA	0.468													22	55	---	---	---	---	PASS	C	6733599	C	C	6733599	3	2	60	1	0	0	0	0	1	0	0	0	15749	1124	39	4	1187	4	TEKT1	17	6733599	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	358973	6733599	74461611	488	23556										
TP53	7157	broad.mit.edu	37	chr17	7577536	7577536	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gatgatggtgaggatgggccTccggttcatgccgcccatgc	15	11	1	2	rs67185453		TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:7577536T>A	uc002gim.2	-	7	939	c.745A>T	c.(745-747)AGG>TGG	p.R249W	TP53_uc002gig.1_Missense_Mutation_p.R249W|TP53_uc002gih.2_Missense_Mutation_p.R249W|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R117W|TP53_uc010cng.1_Missense_Mutation_p.R117W|TP53_uc002gii.1_Missense_Mutation_p.R117W|TP53_uc010cnh.1_Missense_Mutation_p.R249W|TP53_uc010cni.1_Missense_Mutation_p.R249W|TP53_uc002gij.2_Missense_Mutation_p.R249W|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R156W|TP53_uc002gio.2_Missense_Mutation_p.R117W	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	249	|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> W (in sporadic cancers; somatic mutation).|RP -> SA (in a sporadic cancer; somatic mutation).|RP -> SS (in sporadic cancers; somatic mutation).|R -> T (in sporadic cancers; somatic mutation).|R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> I (in a sporadic cancer; somatic mutation).|R -> M (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R249S(303)|p.R249M(25)|p.R249G(24)|p.R249W(23)|p.R249T(16)|p.R249K(14)|p.0?(7)|p.R249R(6)|p.R249fs*96(6)|p.M246_P250delMNRRP(2)|p.R249fs*14(2)|p.N247_P250delNRRP(1)|p.R249fs*15(1)|p.R249_I251delRPI(1)|p.R249_P250delRP(1)|p.R249_P250insR(1)|p.N247_R248delNR(1)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.R249_T256delRPILTIIT(1)|p.R249_P250>SS(1)|p.G245fs*14(1)|p.R249fs*19(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		AGGATGGGCCTCCGGTTCATG	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			15	64	---	---	---	---	PASS	A	7577536	A	A	7577536	3	1	60	1	0	0	0	0	1	0	0	0	16378	1550	54	5	545	5	TP53	17	7577536	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	843937	7577536	73617674	489	23557										
TP53	7157	broad.mit.edu	37	chr17	7578457	7578457	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcttgtagatggccatggcgCggacgcgggtgccgggcggg	21	10	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:7578457C>A	uc002gim.2	-	5	667	c.473G>T	c.(472-474)CGC>CTC	p.R158L	TP53_uc002gig.1_Missense_Mutation_p.R158L|TP53_uc002gih.2_Missense_Mutation_p.R158L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R26L|TP53_uc010cng.1_Missense_Mutation_p.R26L|TP53_uc002gii.1_Missense_Mutation_p.R26L|TP53_uc010cnh.1_Missense_Mutation_p.R158L|TP53_uc010cni.1_Missense_Mutation_p.R158L|TP53_uc002gij.2_Missense_Mutation_p.R158L|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R65L|TP53_uc002gio.2_Missense_Mutation_p.R26L|TP53_uc010vug.1_Missense_Mutation_p.R119L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	158	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> F (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> Y (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.R158H(58)|p.R158L(55)|p.R158C(17)|p.R158G(10)|p.R158P(9)|p.0?(7)|p.R158R(6)|p.R158fs*12(5)|p.R158_A159insX(4)|p.R158_A159delRA(2)|p.R156_I162delRVRAMAI(2)|p.V157fs*9(2)|p.P153fs*22(2)|p.R158fs*11(2)|p.V157fs*22(2)|p.V157_C176del20(1)|p.R156_A161delRVRAMA(1)|p.R158F(1)|p.P151_V173del23(1)|p.R158fs*24(1)|p.R65L(1)|p.R156_R158delRVR(1)|p.R156fs*18(1)|p.R156_A161del(1)|p.R158_A159insXX(1)|p.V157_M160delVRAM(1)|p.V157_R158delVR(1)|p.S149fs*72(1)|p.A159fs*21(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.R156fs*20(1)|p.V157_I162delVRAMAI(1)|p.R26L(1)|p.V157fs*21(1)|p.R158fs*8(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)		GGCCATGGCGCGGACGCGGGT	0.627		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)			27	49	---	---	---	---	PASS	A	7578457	A	A	7578457	3	1	60	1	0	0	0	0	1	0	0	0	16378	768	27	1	825	1	TP53	17	7578457	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	921	7578457	73616753	490	23558										
PFAS	5198	broad.mit.edu	37	chr17	8161517	8161517	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcaaggaggccccagagccaGgtaagagcctgccacctttc	12	14	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:8161517G>T	uc002gkr.2	+	11	1477	c.1336G>T	c.(1336-1338)GGC>TGC	p.G446C	PFAS_uc010vuv.1_Missense_Mutation_p.G22C	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	446					'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CCCAGAGCCAGGTAAGAGCCT	0.562													46	59	---	---	---	---	PASS	T	8161517	T	T	8161517	3	4	60	1	0	0	0	0	1	0	0	0	11754	1014	35	3	1374	3	PFAS	17	8161517	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	583060	8161517	73033693	491	23559										
NDEL1	81565	broad.mit.edu	37	chr17	8351896	8351896	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tagtttcactggaagactttGaacaaaggctaaaccaggcc	9	9	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:8351896G>T	uc002glj.2	+	5	615	c.418G>T	c.(418-420)GAA>TAA	p.E140*	NDEL1_uc002gli.2_Nonsense_Mutation_p.E140*	NM_030808	NP_110435	Q9GZM8	NDEL1_HUMAN	nudE nuclear distribution gene E homolog (A.	140	Interaction with KATNB1 (By similarity).|Potential.|Self-association (By similarity).				chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|microtubule|spindle					0						GGAAGACTTTGAACAAAGGCT	0.333													18	65	---	---	---	---	PASS	T	8351896	T	T	8351896	4	4	60	1	0	0	0	0	0	1	0	0	10244	1291	45	2	432	2	NDEL1	17	8351896	Nonsense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	190379	8351896	72843314	492	23560										
WDR16	146845	broad.mit.edu	37	chr17	9480081	9480081	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gacgccgtgatcggcttcaaTggtgaggcctccagcatctt	12	12	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:9480081T>G	uc002gly.2	+	1	138	c.69T>G	c.(67-69)AAT>AAG	p.N23K	STX8_uc002glx.2_5'Flank|WDR16_uc002glz.2_Missense_Mutation_p.N23K|WDR16_uc010coc.2_5'UTR	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	23						cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						TCGGCTTCAATGGTGAGGCCT	0.537											OREG0024167	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	41	---	---	---	---	PASS	G	9480081	G	G	9480081	3	3	60	1	0	0	0	0	1	0	0	0	17273	1478	51	5	71	5	WDR16	17	9480081	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	1128185	9480081	71715129	493	23561										
GAS7	8522	broad.mit.edu	37	chr17	9830031	9830031	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggtggtcgcacttcttcatgTctttcttgaagttctcacgg	10	10	5	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:9830031T>A	uc002gmg.1	-	10	1102	c.941A>T	c.(940-942)GAC>GTC	p.D314V	GAS7_uc010vvc.1_Missense_Mutation_p.D128V|GAS7_uc002gmh.1_Missense_Mutation_p.D174V|GAS7_uc010vvd.1_Missense_Mutation_p.D266V|GAS7_uc002gmi.2_Missense_Mutation_p.D250V|GAS7_uc002gmj.1_Missense_Mutation_p.D254V|GAS7_uc010coh.1_Missense_Mutation_p.D254V	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	314	Potential.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						CTTCTTCATGTCTTTCTTGAA	0.592			T	MLL	AML*								43	69	---	---	---	---	PASS	A	9830031	A	A	9830031	3	1	60	1	0	0	0	0	1	0	0	0	6250	1667	58	5	509	5	GAS7	17	9830031	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	349950	9830031	71365179	494	23562										
MYH4	4622	broad.mit.edu	37	chr17	10356533	10356533	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgttgactttgtcctcctccAtctgcaggtcatccagggtc	9	13	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:10356533A>G	uc002gmn.2	-	24	3158	c.3047T>C	c.(3046-3048)ATG>ACG	p.M1016T	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1016	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						GTCCTCCTCCATCTGCAGGTC	0.493													55	76	---	---	---	---	PASS	G	10356533	G	G	10356533	3	3	60	1	0	0	0	0	1	0	0	0	10037	217	8	5	2840	5	MYH4	17	10356533	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	526502	10356533	70838677	495	23563										
MYOCD	93649	broad.mit.edu	37	chr17	12656550	12656550	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgtgaaaagcccacagcacAtcagtttgcccccatcaccc	6	17	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:12656550A>G	uc002gnn.2	+	10	2244	c.1945A>G	c.(1945-1947)ATC>GTC	p.I649V	MYOCD_uc002gno.2_Missense_Mutation_p.I649V|MYOCD_uc002gnp.1_Missense_Mutation_p.I553V|MYOCD_uc002gnq.2_Missense_Mutation_p.I368V	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	649					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CCCACAGCACATCAGTTTGCC	0.582													37	142	---	---	---	---	PASS	G	12656550	G	G	12656550	3	3	60	1	0	0	0	0	1	0	0	0	10087	217	8	5	1983	5	MYOCD	17	12656550	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	2300017	12656550	68538660	496	23564										
TBC1D26	353149	broad.mit.edu	37	chr17	15641352	15641352	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cgtaccaacaagtggcaaaaGatgcttgcagactggacaaa	10	9	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:15641352G>T	uc010cov.2	+	6	490	c.240G>T	c.(238-240)AAG>AAT	p.K80N	TBC1D26_uc010cou.1_Missense_Mutation_p.K80N|TBC1D26_uc002gpb.3_RNA	NM_178571	NP_848666	Q86UD7	TBC26_HUMAN	TBC1 domain family, member 26	80						intracellular	Rab GTPase activator activity				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(1115;0.0222)|BRCA - Breast invasive adenocarcinoma(8;0.078)		AGTGGCAAAAGATGCTTGCAG	0.542													18	114	---	---	---	---	PASS	T	15641352	T	T	15641352	3	4	60	1	0	0	0	0	1	0	0	0	15613	933	33	2	254	2	TBC1D26	17	15641352	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2984802	15641352	65553858	497	23565										
MYO15A	51168	broad.mit.edu	37	chr17	18039048	18039048	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gatgcacaggaggtggcctcAgtggtgagtgcccgagagat	17	8	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:18039048A>C	uc010vxh.1	+	12	4844	c.4506A>C	c.(4504-4506)TCA>TCC	p.S1502S		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1502	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					AGGTGGCCTCAGTGGTGAGTG	0.488													12	34	---	---	---	---	PASS	C	18039048	C	C	18039048	2	2	60	1	0	0	0	0	0	0	0	1	10063	175	7	5		5	MYO15A	17	18039048	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	2397696	18039048	63156162	498	23566										
MYO15A	51168	broad.mit.edu	37	chr17	18070961	18070961	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgccggccagccggcccagcGagcagctgctgcagcaggtg	16	15	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:18070961G>A	uc010vxh.1	+	61	10344	c.10006G>A	c.(10006-10008)GAG>AAG	p.E3336K	MYO15A_uc010vxi.1_Missense_Mutation_p.E600K|MYO15A_uc010vxk.1_Missense_Mutation_p.E29K|MYO15A_uc010vxl.1_Missense_Mutation_p.E325K|MYO15A_uc002gsl.2_Missense_Mutation_p.E343K|MYO15A_uc010vxm.1_Intron|MYO15A_uc010cpv.2_RNA	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	3336	Tail.|FERM.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCGGCCCAGCGAGCAGCTGCT	0.662													18	21	---	---	---	---	PASS	A	18070961	A	A	18070961	3	1	60	1	0	0	0	0	1	0	0	0	10063	1059	37	2	10244	2	MYO15A	17	18070961	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	31913	18070961	63124249	499	23567										
TOP3A	7156	broad.mit.edu	37	chr17	18178286	18178286	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcctgtccaggacggggctcCagaagtccctgtcgggagag	15	12	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:18178286C>G	uc002gsx.1	-	19	3065	c.2836G>C	c.(2836-2838)GGA>CGA	p.G946R	TOP3A_uc010cpz.1_Missense_Mutation_p.G398R|TOP3A_uc010vxr.1_Missense_Mutation_p.G476R|TOP3A_uc002gsw.1_Missense_Mutation_p.G398R|TOP3A_uc010vxs.1_Missense_Mutation_p.G844R	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	946					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						GACGGGGCTCCAGAAGTCCCT	0.502													50	67	---	---	---	---	PASS	G	18178286	G	G	18178286	3	3	60	1	0	0	0	0	1	0	0	0	16364	603	21	4	173	4	TOP3A	17	18178286	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	107325	18178286	63016924	500	23568										
FNDC8	54752	broad.mit.edu	37	chr17	33456482	33456482	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggcaagcagccggtcagtttCtaccagctcctgttacagga	11	12	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:33456482C>T	uc002hix.2	+	3	709	c.627C>T	c.(625-627)TTC>TTT	p.F209F		NM_017559	NP_060029	Q8TC99	FNDC8_HUMAN	fibronectin type III domain containing 8	209	Fibronectin type-III.									ovary(2)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.022)		CGGTCAGTTTCTACCAGCTCC	0.537													39	55	---	---	---	---	PASS	T	33456482	T	T	33456482	2	4	60	1	0	0	0	0	0	0	0	1	5974	912	32	2		2	FNDC8	17	33456482	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	15278196	33456482	47738728	501	23569										
TAF15	8148	broad.mit.edu	37	chr17	34171708	34171708	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gctatggtggggacagaggaGgcggctatggaggagaccga	20	6	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:34171708G>C	uc002hkd.2	+	15	1491	c.1405G>C	c.(1405-1407)GGC>CGC	p.G469R	TAF15_uc002hkc.2_Missense_Mutation_p.G466R	NM_139215	NP_631961	Q92804	RBP56_HUMAN	TBP-associated factor 15 isoform 1	469	Arg/Gly-rich.|21 X approximate tandem repeats of D-R- [S,G](0,3)-G-G-Y-G-G.|8.				positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding|zinc ion binding		TAF15/NR4A3(33)	bone(33)|lung(1)|skin(1)	35		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		ggacagaggaggcggctatgg	0			T	TEC|CHN1|ZNF384	extraskeletal myxoid chondrosarcomas|ALL								3	9	---	---	---	---	PASS	C	34171708	C	C	34171708	3	2	60	1	0	0	0	0	1	0	0	0	15515	1000	35	4	1463	4	TAF15	17	34171708	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	715226	34171708	47023502	502	23570										
SRCIN1	80725	broad.mit.edu	37	chr17	36714569	36714569	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctcctgccgccgcgccgcctCcgacacgcgcatgctcagct	10	21	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:36714569C>A	uc002hqd.2	-	11	2320	c.2095G>T	c.(2095-2097)GAG>TAG	p.E699*	SRCIN1_uc002hqf.1_Nonsense_Mutation_p.E571*|SRCIN1_uc002hqe.2_Nonsense_Mutation_p.E553*|SRCIN1_uc002hqg.2_Nonsense_Mutation_p.E5*	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	571					exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						CGCGCCGCCTCCGACACGCGC	0.682											OREG0024362	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	18	---	---	---	---	PASS	A	36714569	A	A	36714569	4	1	60	1	0	0	0	0	0	1	0	0	15135	864	30	2	1492	2	SRCIN1	17	36714569	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2542861	36714569	44480641	503	23571										
CDC27	996	broad.mit.edu	37	chr17	45235617	45235617	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agaccagaggaaaggatttaAactaaggctcttttggtaac	10	6	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:45235617A>C	uc002ild.3	-	5	557	c.430T>G	c.(430-432)TTA>GTA	p.L144V	CDC27_uc002ile.3_Missense_Mutation_p.L144V|CDC27_uc002ilf.3_Missense_Mutation_p.L144V|CDC27_uc010wkp.1_Missense_Mutation_p.L83V|CDC27_uc010wkq.1_RNA	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2	144	TPR 2.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5						AAAGGATTTAAACTAAGGCTC	0.433													12	35	---	---	---	---	PASS	C	45235617	C	C	45235617	3	2	60	1	0	0	0	0	1	0	0	0	3066	11	1	5	2122	5	CDC27	17	45235617	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	8521048	45235617	35959593	504	23572										
NPEPPS	9520	broad.mit.edu	37	chr17	45668243	45668243	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cttagataacagccatcctaTtgaagtgagccatactttct	6	10	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:45668243T>C	uc002ilr.3	+	10	1479	c.1256T>C	c.(1255-1257)ATT>ACT	p.I419T	NPEPPS_uc010wkt.1_Missense_Mutation_p.I415T|NPEPPS_uc010wku.1_Missense_Mutation_p.I383T|NPEPPS_uc010wkv.1_5'UTR	NM_006310	NP_006301	P55786	PSA_HUMAN	aminopeptidase puromycin sensitive	419					proteolysis	cytosol|nucleus	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0						AGCCATCCTATTGAAGTGAGC	0.398													16	159	---	---	---	---	PASS	C	45668243	C	C	45668243	3	2	60	1	0	0	0	0	1	0	0	0	10575	1493	52	5	1294	5	NPEPPS	17	45668243	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	432626	45668243	35526967	505	23573										
NGFR	4804	broad.mit.edu	37	chr17	47587857	47587857	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcacccaggagcctgaggcaCctccagaacaagacctcata	9	15	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:47587857C>A	uc002ioz.3	+	4	777	c.652C>A	c.(652-654)CCT>ACT	p.P218T		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	218	Ser/Thr-rich.|Extracellular (Potential).				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					GCCTGAGGCACCTCCAGAACA	0.642													4	108	---	---	---	---	PASS	A	47587857	A	A	47587857	3	1	60	1	0	0	0	0	1	0	0	0	10396	507	18	3	666	3	NGFR	17	47587857	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1919614	47587857	33607353	506	23574										
DLX3	1747	broad.mit.edu	37	chr17	48069069	48069069	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gggcagctgactgcgggcagGggccggagtggagtgggaag	23	7	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:48069069G>T	uc002ipy.2	-	3	902	c.676C>A	c.(676-678)CCT>ACT	p.P226T		NM_005220	NP_005211	O60479	DLX3_HUMAN	distal-less homeobox 3	226						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CTGCGGGCAGGGGCCGGAGTG	0.642													15	24	---	---	---	---	PASS	T	48069069	T	T	48069069	3	4	60	1	0	0	0	0	1	0	0	0	4572	1232	43	3	191	3	DLX3	17	48069069	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	481212	48069069	33126141	507	23575										
CACNA1G	8913	broad.mit.edu	37	chr17	48649240	48649240	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtggcttctgcccccacaggCatgcgcatccttgtcacgtt	10	15	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:48649240C>A	uc002irk.1	+	5	960	c.588C>A	c.(586-588)AGC>AGA	p.S196R	CACNA1G_uc002iri.1_Missense_Mutation_p.S196R|CACNA1G_uc002irj.1_Missense_Mutation_p.S196R|CACNA1G_uc002irl.1_Missense_Mutation_p.S196R|CACNA1G_uc002irm.1_Missense_Mutation_p.S196R|CACNA1G_uc002irn.1_Missense_Mutation_p.S196R|CACNA1G_uc002iro.1_Missense_Mutation_p.S196R|CACNA1G_uc002irp.1_Missense_Mutation_p.S196R|CACNA1G_uc002irq.1_Missense_Mutation_p.S196R|CACNA1G_uc002irr.1_Missense_Mutation_p.S196R|CACNA1G_uc002irs.1_Missense_Mutation_p.S196R|CACNA1G_uc002irt.1_Missense_Mutation_p.S196R|CACNA1G_uc002irv.1_Missense_Mutation_p.S196R|CACNA1G_uc002irw.1_Missense_Mutation_p.S196R|CACNA1G_uc002iru.1_Missense_Mutation_p.S196R|CACNA1G_uc002irx.1_Missense_Mutation_p.S109R|CACNA1G_uc002iry.1_Missense_Mutation_p.S109R|CACNA1G_uc002irz.1_Missense_Mutation_p.S109R|CACNA1G_uc002isa.1_Missense_Mutation_p.S109R|CACNA1G_uc002isb.1_Missense_Mutation_p.S109R|CACNA1G_uc002isc.1_Missense_Mutation_p.S109R|CACNA1G_uc002isd.1_Missense_Mutation_p.S109R|CACNA1G_uc002ise.1_Missense_Mutation_p.S109R|CACNA1G_uc002isf.1_Missense_Mutation_p.S109R|CACNA1G_uc002isg.1_Missense_Mutation_p.S109R|CACNA1G_uc002ish.1_Missense_Mutation_p.S109R|CACNA1G_uc002isi.1_Missense_Mutation_p.S109R	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	196	I.|Cytoplasmic (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	CCCCCACAGGCATGCGCATCC	0.662													14	48	---	---	---	---	PASS	A	48649240	A	A	48649240	3	1	60	1	0	0	0	0	1	0	0	0	2544	724	25	3	606	3	CACNA1G	17	48649240	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	580171	48649240	32545970	508	23576										
WFIKKN2	124857	broad.mit.edu	37	chr17	48917537	48917537	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cggaacgtggctggggtcctGagggctgatttcccgctgtc	16	11	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:48917537G>A	uc002isv.3	+	2	1582	c.888G>A	c.(886-888)CTG>CTA	p.L296L	WFIKKN2_uc010dbu.2_Silent_p.L203L	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	296	Ig-like C2-type.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			CTGGGGTCCTGAGGGCTGATT	0.637													8	51	---	---	---	---	PASS	A	48917537	A	A	48917537	2	1	60	1	0	0	0	0	0	0	0	1	17356	1277	45	2		2	WFIKKN2	17	48917537	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	268297	48917537	32277673	509	23577										
OR4D2	124538	broad.mit.edu	37	chr17	56247867	56247867	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	catgacccccatgctcaaccCcatgatctataccctgagga	6	16	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:56247867C>T	uc010wnp.1	+	1	851	c.851C>T	c.(850-852)CCC>CTC	p.P284L		NM_001004707	NP_001004707	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						ATGCTCAACCCCATGATCTAT	0.517													29	143	---	---	---	---	PASS	T	56247867	T	T	56247867	3	4	60	1	0	0	0	0	1	0	0	0	11056	623	22	3	853	3	OR4D2	17	56247867	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	7330330	56247867	24947343	510	23578										
LPO	4025	broad.mit.edu	37	chr17	56343621	56343621	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acaagcttttccagccaactCacaggatccatggctttgac	7	13	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:56343621C>G	uc002ivt.2	+	11	1943	c.1627C>G	c.(1627-1629)CAC>GAC	p.H543D	LPO_uc010wns.1_Missense_Mutation_p.H484D|LPO_uc010dcp.2_Missense_Mutation_p.H460D|LPO_uc010dcq.2_Missense_Mutation_p.H214D|LPO_uc010dcr.2_Missense_Mutation_p.H106D	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	543					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						CCAGCCAACTCACAGGATCCA	0.542													13	51	---	---	---	---	PASS	G	56343621	G	G	56343621	3	3	60	1	0	0	0	0	1	0	0	0	8922	826	29	2	1665	2	LPO	17	56343621	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	95754	56343621	24851589	511	23579										
CLTC	1213	broad.mit.edu	37	chr17	57733350	57733350	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgttactgcacctcatgaaGccacagctggaataattgga	9	9	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:57733350G>T	uc002ixq.1	+	6	1374	c.931G>T	c.(931-933)GCC>TCC	p.A311S	CLTC_uc002ixp.2_Missense_Mutation_p.A311S|CLTC_uc002ixr.1_Missense_Mutation_p.A315S	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	311	Globular terminal domain.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					ACCTCATGAAGCCACAGCTGG	0.378			T	ALK|TFE3	ALCL|renal 								25	96	---	---	---	---	PASS	T	57733350	T	T	57733350	3	4	60	1	0	0	0	0	1	0	0	0	3566	971	34	3	953	3	CLTC	17	57733350	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1389729	57733350	23461860	512	23580										
GNA13	10672	broad.mit.edu	37	chr17	63010558	63010558	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttttggacgtctcttaagcaGtggggatccccttcaaattc	9	10	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:63010558G>A	uc002jfc.2	-	4	1160	c.951C>T	c.(949-951)CAC>CAT	p.H317H	GNA13_uc010wqh.1_Silent_p.H222H	NM_006572	NP_006563	Q14344	GNA13_HUMAN	guanine nucleotide binding protein (G protein),	317					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase D activity|cellular component movement|platelet activation|Rho protein signal transduction	brush border membrane|heterotrimeric G-protein complex|melanosome	D5 dopamine receptor binding|G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|signal transducer activity|type 1 angiotensin receptor binding				0						CTCTTAAGCAGTGGGGATCCC	0.448													42	64	---	---	---	---	PASS	A	63010558	A	A	63010558	2	1	60	1	0	0	0	0	0	0	0	1	6501	1020	36	3		3	GNA13	17	63010558	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	5277208	63010558	18184652	513	23581										
AMZ2	51321	broad.mit.edu	37	chr17	66251840	66251840	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctcaacatgattgtcttgcaGactttaacccatgagatcgg	8	10	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:66251840G>T	uc002jgs.1	+	7	868	c.751_splice	c.e7-1	p.T251_splice	AMZ2_uc002jgr.1_Splice_Site_p.T251_splice|AMZ2_uc002jgt.1_Splice_Site_p.T251_splice|AMZ2_uc002jgu.1_Splice_Site_p.T251_splice|AMZ2_uc002jgv.1_Splice_Site_p.T251_splice|AMZ2_uc002jgw.1_Splice_Site_p.T193_splice|AMZ2_uc002jgy.1_Splice_Site_p.T251_splice	NM_001033572	NP_001028744	Q86W34	AMZ2_HUMAN	archaemetzincins-2 isoform 1								metallopeptidase activity|zinc ion binding				0	all_cancers(12;1.12e-09)		BRCA - Breast invasive adenocarcinoma(8;3.17e-08)|LUSC - Lung squamous cell carcinoma(166;0.24)			TTGTCTTGCAGACTTTAACCC	0.468													58	95	---	---	---	---	PASS	T	66251840	T	T	66251840	5	4	60	1	0	0	0	0	0	0	1	0	597	956	33	2	768	2	AMZ2	17	66251840	Splice_Site	SNP	G	TCGA-33-4583-01A-01D-1441-08	3241282	66251840	14943370	514	23582										
ABCA8	10351	broad.mit.edu	37	chr17	66928541	66928541	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgaggaaaatgaaataatgcAggaaaaaaggtacaaatcag	10	3	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr17:66928541A>T	uc002jhp.2	-	6	864	c.685T>A	c.(685-687)TGC>AGC	p.C229S	ABCA8_uc002jhq.2_Missense_Mutation_p.C229S|ABCA8_uc010wqq.1_Missense_Mutation_p.C229S|ABCA8_uc010wqr.1_Missense_Mutation_p.C168S|ABCA8_uc002jhr.2_Missense_Mutation_p.C229S|ABCA8_uc002jhs.2_Missense_Mutation_p.C229S|ABCA8_uc002jht.2_Missense_Mutation_p.C229S	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	229	Helical; (Potential).					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					GAAATAATGCAGGAAAAAAGG	0.383													14	79	---	---	---	---	PASS	T	66928541	T	T	66928541	3	4	60	1	0	0	0	0	1	0	0	0	38	188	7	5	4192	5	ABCA8	17	66928541	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	676701	66928541	14266669	515	23583										
CETN1	1068	broad.mit.edu	37	chr18	580553	580553	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tggacggaagtgggaccatcGacgcgaaggagctgaaggtg	18	7	0	1	rs116290875	by1000genomes	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr18:580553G>T	uc002kko.1	+	1	187	c.145G>T	c.(145-147)GAC>TAC	p.D49Y		NM_004066	NP_004057	Q12798	CETN1_HUMAN	centrin 1	49	1 (Probable).|EF-hand 1.				cell division|mitosis	spindle pole	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding			upper_aerodigestive_tract(1)|ovary(1)	2						TGGGACCATCGACGCGAAGGA	0.557													9	46	---	---	---	---	PASS	T	580553	T	T	580553	3	4	60	1	0	0	0	0	1	0	0	0	3274	1058	37	2	147	2	CETN1	18	580553	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08		580553	77496695	516	23584										
YES1	7525	broad.mit.edu	37	chr18	724498	724498	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caagaaggactgaatatattCaaatgttggtctttcatcag	8	6	4	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr18:724498C>T	uc002kky.2	-	12	1779	c.1558G>A	c.(1558-1560)GAA>AAA	p.E520K	YES1_uc002kkz.2_Missense_Mutation_p.E520K	NM_005433	NP_005424	P07947	YES_HUMAN	viral oncogene yes-1 homolog 1	520	Protein kinase.				blood coagulation|leukocyte migration|regulation of vascular permeability|T cell costimulation	cytosol|plasma membrane	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|ovary(1)	3					Dasatinib(DB01254)	TGAATATATTCAAATGTTGGT	0.438													13	86	---	---	---	---	PASS	T	724498	T	T	724498	3	4	60	1	0	0	0	0	1	0	0	0	17471	835	29	2	77	2	YES1	18	724498	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	143945	724498	77352750	517	23585										
LAMA3	3909	broad.mit.edu	37	chr18	21478918	21478918	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcaatttatttttcatatagGctcaagtaaattccagaaaa	4	6	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr18:21478918G>T	uc002kuq.2	+	46	5811	c.5725G>T	c.(5725-5727)GCT>TCT	p.A1909S	LAMA3_uc002kur.2_Missense_Mutation_p.A1909S|LAMA3_uc002kus.3_Missense_Mutation_p.A300S|LAMA3_uc002kut.3_Missense_Mutation_p.A300S	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1909	Domain II and I.|Potential.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTTCATATAGGCTCAAGTAAA	0.313													8	33	---	---	---	---	PASS	T	21478918	T	T	21478918	3	4	60	1	0	0	0	0	1	0	0	0	8607	1217	42	3	6082	3	LAMA3	18	21478918	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	20754420	21478918	56598330	518	23586										
NOL4	8715	broad.mit.edu	37	chr18	31802995	31802995	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gagcacttgcttggcgccgcCgcctcccccgcggacctcgt	12	19	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr18:31802995C>A	uc010dmi.2	-	1	452	c.223G>T	c.(223-225)GGC>TGC	p.G75C	NOL4_uc002kxr.3_5'Flank|NOL4_uc010xbt.1_5'Flank|NOL4_uc010dmh.2_5'Flank|NOL4_uc010xbu.1_Missense_Mutation_p.G75C|NOL4_uc002kxt.3_Missense_Mutation_p.G75C	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	75						nucleolus	RNA binding			ovary(3)	3						TTGGCGCCGCCGCCTCCCCCG	0.632													37	33	---	---	---	---	PASS	A	31802995	A	A	31802995	3	1	60	1	0	0	0	0	1	0	0	0	10524	652	23	1	1737	1	NOL4	18	31802995	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	10324077	31802995	46274253	519	23587										
WDR7	23335	broad.mit.edu	37	chr18	54398666	54398666	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcagttgagattctaaacgcTtgtgatgaagctgttcctgc	11	8	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr18:54398666T>C	uc002lgk.1	+	14	2038	c.1827T>C	c.(1825-1827)GCT>GCC	p.A609A	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Silent_p.A609A	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	609										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		TTCTAAACGCTTGTGATGAAG	0.388													8	47	---	---	---	---	PASS	C	54398666	C	C	54398666	2	2	60	1	0	0	0	0	0	0	0	1	17317	1596	56	5		5	WDR7	18	54398666	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	22595671	54398666	23678582	520	23588										
SERPINB4	6318	broad.mit.edu	37	chr18	61304959	61304959	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cagactaattgcatctatggGgatgagaatctgccatagaa	10	7	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr18:61304959G>T	uc002ljf.2	-	8	1253	c.1167C>A	c.(1165-1167)TCC>TCA	p.S389S	SERPINB4_uc002lje.2_Silent_p.S368S|SERPINB4_uc002ljg.2_Silent_p.S389S	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	389					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						GCATCTATGGGGATGAGAATC	0.398													64	63	---	---	---	---	PASS	T	61304959	T	T	61304959	2	4	60	1	0	0	0	0	0	0	0	1	14103	1219	43	3		3	SERPINB4	18	61304959	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	6906293	61304959	16772289	521	23589										
DOK6	220164	broad.mit.edu	37	chr18	67231765	67231765	+	Missense_Mutation	SNP	A	C	C													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttttcaagaaggcttctagcAaaggacccagaaggttagaa							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr18:67231765A>C	uc002lkl.2	+	2	299	c.109A>C	c.(109-111)AAA>CAA	p.K37Q		NM_152721	NP_689934	Q6PKX4	DOK6_HUMAN	docking protein 6	37	PH.						insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)				GGCTTCTAGCAAAGGACCCAG	0.388													25	26	---	---	---	---	PASS	C	67231765	C	C	67231765	3	2	60	1	0	0	0	0	1	0	0	0	4701	131	5	5	115	5	DOK6	18	67231765	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	5926806	67231765	10845483	522	23590	516	2								
DOK6	220164	broad.mit.edu	37	chr18	67231767	67231767	+	Missense_Mutation	SNP	A	T	T													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttcaagaaggcttctagcaaAggacccagaaggttagaaaa							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr18:67231767A>T	uc002lkl.2	+	2	301	c.111A>T	c.(109-111)AAA>AAT	p.K37N		NM_152721	NP_689934	Q6PKX4	DOK6_HUMAN	docking protein 6	37	PH.						insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)				CTTCTAGCAAAGGACCCAGAA	0.388													26	27	---	---	---	---	PASS	T	67231767	T	T	67231767	3	4	60	1	0	0	0	0	1	0	0	0	4701	69	3	5	117	5	DOK6	18	67231767	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	2	67231767	10845481	523	23591	516	2								
PRSSL1	400668	broad.mit.edu	37	chr19	694935	694935	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctggagtggggggtcacctCgtggcccccgatgatctggg	17	12	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:694935C>G	uc002lpl.1	-	2	146	c.115G>C	c.(115-117)GAG>CAG	p.E39Q	PRSSL1_uc010xfs.1_Missense_Mutation_p.E38Q	NM_214710	NP_999875	Q6UWY2	PRS57_HUMAN	protease, serine-like 1 precursor	39	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGGTCACCTCGTGGCCCCCG	0.706													11	9	---	---	---	---	PASS	G	694935	G	G	694935	3	3	60	1	0	0	0	0	1	0	0	0	12636	893	31	2	752	2	PRSSL1	19	694935	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08		694935	58434048	524	23592										
THOP1	7064	broad.mit.edu	37	chr19	2810340	2810340	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agcgggacccacgtggagcgGgactttgtggaggcgccgtc	18	11	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:2810340G>T	uc002lwj.2	+	10	1649	c.1494G>T	c.(1492-1494)CGG>CGT	p.R498R	THOP1_uc010xgz.1_Silent_p.R377R|THOP1_uc002lwk.2_Silent_p.R9R	NM_003249	NP_003240	P52888	THOP1_HUMAN	thimet oligopeptidase 1	498					proteolysis	cytoplasm	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGTGGAGCGGGACTTTGTGG	0.692													5	21	---	---	---	---	PASS	T	2810340	T	T	2810340	2	4	60	1	0	0	0	0	0	0	0	1	15868	1219	43	3		3	THOP1	19	2810340	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	2115405	2810340	56318643	525	23593										
PLIN4	729359	broad.mit.edu	37	chr19	4513257	4513257	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgcccctgtgagcccagtggAcacagcatctttggtgccgg	13	13	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:4513257A>G	uc002mar.1	-	3	673	c.673T>C	c.(673-675)TCC>CCC	p.S225P	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	225	27 X 33 AA approximate tandem repeat.|4.					lipid particle|plasma membrane					0						AGCCCAGTGGACACAGCATCT	0.577													7	246	---	---	---	---	PASS	G	4513257	G	G	4513257	3	3	60	1	0	0	0	0	1	0	0	0	12092	275	10	5	3416	5	PLIN4	19	4513257	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	1702917	4513257	54615726	526	23594										
CD209	30835	broad.mit.edu	37	chr19	7810768	7810768	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cccactgcagccttcagccgGgtcagctcctggtagatctc	10	16	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:7810768G>C	uc002mht.2	-	4	451	c.384C>G	c.(382-384)ACC>ACG	p.T128T	CD209_uc010xju.1_Intron|CD209_uc010dvp.2_Silent_p.T104T|CD209_uc002mhr.2_Silent_p.T104T|CD209_uc002mhs.2_Silent_p.T104T|CD209_uc002mhu.2_Silent_p.T128T|CD209_uc010dvq.2_Silent_p.T128T|CD209_uc002mhq.2_Silent_p.T128T|CD209_uc002mhv.2_Silent_p.T104T|CD209_uc002mhx.2_Silent_p.T84T|CD209_uc002mhw.2_Silent_p.T84T|CD209_uc010dvr.2_Intron	NM_021155	NP_066978	Q9NNX6	CD209_HUMAN	CD209 molecule isoform 1	128	Extracellular (Probable).|2.|7 X approximate tandem repeats.				cell-cell recognition|endocytosis|heterophilic cell-cell adhesion|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to membrane|plasma membrane	mannose binding|metal ion binding|peptide antigen binding|receptor activity|virion binding			skin(1)	1						CCTTCAGCCGGGTCAGCTCCT	0.572													72	153	---	---	---	---	PASS	C	7810768	C	C	7810768	2	2	60	1	0	0	0	0	0	0	0	1	2984	1219	43	4		4	CD209	19	7810768	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	3297511	7810768	51318215	527	23595										
PRAM1	84106	broad.mit.edu	37	chr19	8563166	8563166	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccagcggccgagcgggtcctCcgtagatctgtggggtagag	17	11	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:8563166C>A	uc002mkd.2	-	3	1460	c.1440G>T	c.(1438-1440)CGG>CGT	p.R480R	PRAM1_uc002mkc.2_Silent_p.R480R	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	528							lipid binding|protein binding				0						AGCGGGTCCTCCGTAGATCTG	0.682													13	17	---	---	---	---	PASS	A	8563166	A	A	8563166	2	1	60	1	0	0	0	0	0	0	0	1	12423	842	30	2		2	PRAM1	19	8563166	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	752398	8563166	50565817	528	23596										
OR2Z1	284383	broad.mit.edu	37	chr19	8841616	8841616	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ttgacattggctgtcccatgGtcaccatccccaagatggca	9	13	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:8841616G>T	uc010xkg.1	+	1	226	c.226G>T	c.(226-228)GTC>TTC	p.V76F		NM_001004699	NP_001004699	Q8NG97	OR2Z1_HUMAN	olfactory receptor, family 2, subfamily Z,	76	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2						CTGTCCCATGGTCACCATCCC	0.542													44	85	---	---	---	---	PASS	T	8841616	T	T	8841616	3	4	60	1	0	0	0	0	1	0	0	0	11036	1261	44	3	228	3	OR2Z1	19	8841616	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	278450	8841616	50287367	529	23597										
MUC16	94025	broad.mit.edu	37	chr19	9005596	9005596	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tccctatccagggtgtagggTcccagctcagtgatgctgtg	13	11	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:9005596T>C	uc002mkp.2	-	46	40014	c.39810A>G	c.(39808-39810)GGA>GGG	p.G13270G	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.G87G|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13272	SEA 8.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGGTGTAGGGTCCCAGCTCAG	0.552													83	141	---	---	---	---	PASS	C	9005596	C	C	9005596	2	2	60	1	0	0	0	0	0	0	0	1	9973	1654	58	5		5	MUC16	19	9005596	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	163980	9005596	50123387	530	23598										
MUC16	94025	broad.mit.edu	37	chr19	9056214	9056214	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaggaacttgataagcacttGtcactgttcccagctcaacg	8	11	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:9056214G>C	uc002mkp.2	-	3	31436	c.31232C>G	c.(31231-31233)ACA>AGA	p.T10411R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10413	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATAAGCACTTGTCACTGTTCC	0.483													98	208	---	---	---	---	PASS	C	9056214	C	C	9056214	3	2	60	1	0	0	0	0	1	0	0	0	9973	1377	48	4	12619	4	MUC16	19	9056214	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	50618	9056214	50072769	531	23599										
MUC16	94025	broad.mit.edu	37	chr19	9056609	9056609	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atggcctctgatagagaaggCatcactgtgccagtggaaat	12	8	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:9056609C>A	uc002mkp.2	-	3	31041	c.30837G>T	c.(30835-30837)ATG>ATT	p.M10279I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10281	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATAGAGAAGGCATCACTGTGC	0.483													47	75	---	---	---	---	PASS	A	9056609	A	A	9056609	3	1	60	1	0	0	0	0	1	0	0	0	9973	710	25	3	13014	3	MUC16	19	9056609	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	395	9056609	50072374	532	23600										
OR7G2	390882	broad.mit.edu	37	chr19	9213749	9213749	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gagaggaagaagtacatgggGgtgtggaggtgagagtcaga	20	2	1	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:9213749G>T	uc010xkk.1	-	1	234	c.234C>A	c.(232-234)ACC>ACA	p.T78T		NM_001005193	NP_001005193	Q8NG99	OR7G2_HUMAN	olfactory receptor, family 7, subfamily G,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AGTACATGGGGGTGTGGAGGT	0.502													42	84	---	---	---	---	PASS	T	9213749	T	T	9213749	2	4	60	1	0	0	0	0	0	0	0	1	11223	1219	43	3		3	OR7G2	19	9213749	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	157140	9213749	49915234	533	23601										
ZNF560	147741	broad.mit.edu	37	chr19	9584931	9584931	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	catctctgtataagtttctcTgaactgggtccagtaaaatc	7	9	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:9584931T>A	uc002mlp.1	-	4	311	c.101A>T	c.(100-102)CAG>CTG	p.Q34L	ZNF560_uc010dwr.1_5'UTR	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	34	KRAB 1.				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						TAAGTTTCTCTGAACTGGGTC	0.438													48	98	---	---	---	---	PASS	A	9584931	A	A	9584931	3	1	60	1	0	0	0	0	1	0	0	0	17988	1580	55	5	2299	5	ZNF560	19	9584931	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	371182	9584931	49544052	534	23602										
DNMT1	1786	broad.mit.edu	37	chr19	10251546	10251546	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcttgatctctatctctggcTcgctcggctcacaggcttgg	11	13	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:10251546T>C	uc002mng.2	-	31	3566	c.3386A>G	c.(3385-3387)GAG>GGG	p.E1129G	DNMT1_uc002mne.2_5'Flank|DNMT1_uc002mnf.2_Missense_Mutation_p.E53G|DNMT1_uc010xlc.1_Missense_Mutation_p.E1145G|DNMT1_uc002mnh.2_Missense_Mutation_p.E1024G|DNMT1_uc010xld.1_Missense_Mutation_p.E1129G	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	1129	Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	TATCTCTGGCTCGCTCGGCTC	0.617													64	126	---	---	---	---	PASS	C	10251546	C	C	10251546	3	2	60	1	0	0	0	0	1	0	0	0	4675	1551	54	5	1504	5	DNMT1	19	10251546	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	666615	10251546	48877437	535	23603										
ICAM5	7087	broad.mit.edu	37	chr19	10404741	10404741	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cccaggtttgaggagccgagCtgccccagcaattggacatg	13	12	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:10404741C>A	uc002mnu.3	+	8	1802	c.1737C>A	c.(1735-1737)AGC>AGA	p.S579R	ICAM5_uc002mnv.3_Missense_Mutation_p.S454R	NM_003259	NP_003250	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5 precursor	579	Extracellular (Potential).|Ig-like C2-type 7.				cell-cell adhesion	integral to plasma membrane				breast(3)	3			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			AGGAGCCGAGCTGCCCCAGCA	0.627													4	98	---	---	---	---	PASS	A	10404741	A	A	10404741	3	1	60	1	0	0	0	0	1	0	0	0	7483	796	28	3	1767	3	ICAM5	19	10404741	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	153195	10404741	48724242	536	23604										
ZNF653	115950	broad.mit.edu	37	chr19	11598248	11598248	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cagtccactgccggggacacCgctgcctgctgccatgttga	12	15	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:11598248C>A	uc002mrz.1	-	4	1083	c.1030G>T	c.(1030-1032)GGT>TGT	p.G344C		NM_138783	NP_620138	Q96CK0	ZN653_HUMAN	zinc finger protein 653	344					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCGGGGACACCGCTGCCTGCT	0.657													29	48	---	---	---	---	PASS	A	11598248	A	A	11598248	3	1	60	1	0	0	0	0	1	0	0	0	18063	652	23	1	841	1	ZNF653	19	11598248	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1193507	11598248	47530735	537	23605										
MAN2B1	4125	broad.mit.edu	37	chr19	12768923	12768923	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tagggtcccacgttggccgcCaggcccaccagcgcctccag	12	18	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:12768923C>G	uc002mub.2	-	10	1339	c.1263G>C	c.(1261-1263)CTG>CTC	p.L421L	MAN2B1_uc010dyv.1_Silent_p.L420L	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	421					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						CGTTGGCCGCCAGGCCCACCA	0.667													32	49	---	---	---	---	PASS	G	12768923	G	G	12768923	2	3	60	1	0	0	0	0	0	0	0	1	9216	581	21	4		4	MAN2B1	19	12768923	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	1170675	12768923	46360060	538	23606										
MAST1	22983	broad.mit.edu	37	chr19	12963199	12963199	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caacacccctgagcaagacgAtctctctgaggtaaggctgg	11	12	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:12963199A>T	uc002mvm.2	+	10	1195	c.1067A>T	c.(1066-1068)GAT>GTT	p.D356V	MAST1_uc002mvk.2_Missense_Mutation_p.D352V	NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	356					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						GAGCAAGACGATCTCTCTGAG	0.323													19	66	---	---	---	---	PASS	T	12963199	T	T	12963199	3	4	60	1	0	0	0	0	1	0	0	0	9324	333	12	5	1105	5	MAST1	19	12963199	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	194276	12963199	46165784	539	23607										
WIZ	58525	broad.mit.edu	37	chr19	15536511	15536511	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcgcgcgtgactcgacaggcCcttgcggttctcgaagaact	13	13	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:15536511C>A	uc002nbc.2	-	5	1695	c.1672G>T	c.(1672-1674)GGC>TGC	p.G558C	WIZ_uc002nba.3_Missense_Mutation_p.G425C|WIZ_uc002nbb.3_Missense_Mutation_p.G384C	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	1241	C2H2-type 9.					nucleus	zinc ion binding				0						CTCGACAGGCCCTTGCGGTTC	0.597													22	27	---	---	---	---	PASS	A	15536511	A	A	15536511	3	1	60	1	0	0	0	0	1	0	0	0	17372	623	22	3	1250	3	WIZ	19	15536511	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2573312	15536511	43592472	540	23608										
EPS15L1	58513	broad.mit.edu	37	chr19	16535895	16535895	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cccgctgagggctccgtaccTgtgtttgcttgaggctgtgc	14	12	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:16535895T>C	uc002ndz.1	-	9	797	c.791A>G	c.(790-792)CAG>CGG	p.Q264R	EPS15L1_uc002ndx.2_Missense_Mutation_p.Q264R|EPS15L1_uc002ndy.2_RNA|EPS15L1_uc010xpe.1_Missense_Mutation_p.Q154R|EPS15L1_uc010xpf.1_Missense_Mutation_p.Q167R|EPS15L1_uc002nea.1_Missense_Mutation_p.Q264R|EPS15L1_uc010eah.1_Missense_Mutation_p.Q264R|EPS15L1_uc002neb.1_Missense_Mutation_p.Q110R|EPS15L1_uc002nec.1_Missense_Mutation_p.Q264R	NM_021235	NP_067058	Q9UBC2	EP15R_HUMAN	epidermal growth factor receptor pathway	264					endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|nucleus|plasma membrane	calcium ion binding			ovary(3)|skin(2)	5						GCTCCGTACCTGTGTTTGCTT	0.602													3	115	---	---	---	---	PASS	C	16535895	C	C	16535895	3	2	60	1	0	0	0	0	1	0	0	0	5193	1594	55	5	1863	5	EPS15L1	19	16535895	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	999384	16535895	42593088	541	23609										
UNC13A	23025	broad.mit.edu	37	chr19	17720813	17720813	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggatttggtcgcaaacttgcGtttcttgtcgctgagctggg	14	8	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:17720813G>T	uc002nhd.2	-	42	5011	c.5011C>A	c.(5011-5013)CGC>AGC	p.R1671S		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1583	C2 3.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						GCAAACTTGCGTTTCTTGTCG	0.522													65	121	---	---	---	---	PASS	T	17720813	T	T	17720813	3	4	60	1	0	0	0	0	1	0	0	0	16981	1145	40	1	372	1	UNC13A	19	17720813	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1184918	17720813	41408170	542	23610										
C19orf50	79036	broad.mit.edu	37	chr19	18679273	18679273	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cccatcccacccagcaccacGaccaccattgccacctcaga	4	22	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:18679273G>T	uc002njo.2	+	5	505	c.363G>T	c.(361-363)ACG>ACT	p.T121T	C19orf50_uc002njp.2_RNA|C19orf50_uc002njq.2_Silent_p.T121T	NM_024069	NP_076974	Q9BQD3	CS050_HUMAN	hypothetical protein LOC79036	121							protein binding				0						CCAGCACCACGACCACCATTG	0.612													155	357	---	---	---	---	PASS	T	18679273	T	T	18679273	2	4	60	1	0	0	0	0	0	0	0	1	1932	1045	37	2		2	C19orf50	19	18679273	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	958460	18679273	40449710	543	23611										
ZNF626	199777	broad.mit.edu	37	chr19	20807398	20807398	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gttgaaggctttgccacattCttcacatttgtagggtctct	9	9	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:20807398C>T	uc002npb.1	-	4	1435	c.1285G>A	c.(1285-1287)GAA>AAA	p.E429K	ZNF626_uc002npc.1_Missense_Mutation_p.E353K	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	429	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TTGCCACATTCTTCACATTTG	0.383													12	101	---	---	---	---	PASS	T	20807398	T	T	20807398	3	4	60	1	0	0	0	0	1	0	0	0	18047	922	32	2	305	2	ZNF626	19	20807398	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2128125	20807398	38321585	544	23612										
ZNF493	284443	broad.mit.edu	37	chr19	21607137	21607137	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agcttttaatcggtcctcacAccttactacacataagagaa	5	11	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:21607137A>T	uc002npx.2	+	2	1572	c.1292A>T	c.(1291-1293)CAC>CTC	p.H431L	ZNF493_uc002npw.2_Missense_Mutation_p.H559L|ZNF493_uc002npy.2_Missense_Mutation_p.H431L	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	431	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CGGTCCTCACACCTTACTACA	0.358													7	34	---	---	---	---	PASS	T	21607137	T	T	21607137	3	4	60	1	0	0	0	0	1	0	0	0	17941	159	6	5	1753	5	ZNF493	19	21607137	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	799739	21607137	37521846	545	23613										
ZNF208	7757	broad.mit.edu	37	chr19	22154701	22154701	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcatgagttgccttatgttcAgtaaggcttgagggccagct	13	8	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:22154701A>C	uc002nqp.2	-	6	2900	c.2751T>G	c.(2749-2751)ACT>ACG	p.T917T	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				CCTTATGTTCAGTAAGGCTTG	0.443													49	127	---	---	---	---	PASS	C	22154701	C	C	22154701	2	2	60	1	0	0	0	0	0	0	0	1	17763	175	7	5		5	ZNF208	19	22154701	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	547564	22154701	36974282	546	23614										
ZNF257	113835	broad.mit.edu	37	chr19	22271571	22271571	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acataagatgattcatactgGagagaaacccttccaatgtg	8	8	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:22271571G>C	uc010ecx.2	+	4	1188	c.1019G>C	c.(1018-1020)GGA>GCA	p.G340A	ZNF257_uc010ecy.2_Missense_Mutation_p.G308A	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	340					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				ATTCATACTGGAGAGAAACCC	0.403													20	45	---	---	---	---	PASS	C	22271571	C	C	22271571	3	2	60	1	0	0	0	0	1	0	0	0	17797	1174	41	2	1033	2	ZNF257	19	22271571	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	116870	22271571	36857412	547	23615										
PLEKHF1	79156	broad.mit.edu	37	chr19	30164860	30164860	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccaggccgagtgctgctgggCgagggcgtgctgaccaaaga	17	11	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:30164860C>T	uc002nsh.3	+	2	216	c.114C>T	c.(112-114)GGC>GGT	p.G38G	PLEKHF1_uc002nsi.3_Silent_p.G123G	NM_024310	NP_077286	Q96S99	PKHF1_HUMAN	apoptosis-inducing protein D	38	PH.				apoptosis	lysosome|nucleus|perinuclear region of cytoplasm	metal ion binding				0	Ovarian(5;0.000567)|Breast(6;0.0602)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0623)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.225)			TGCTGCTGGGCGAGGGCGTGC	0.637													27	48	---	---	---	---	PASS	T	30164860	T	T	30164860	2	4	60	1	0	0	0	0	0	0	0	1	12066	755	27	1		1	PLEKHF1	19	30164860	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	7893289	30164860	28964123	548	23616										
SBSN	374897	broad.mit.edu	37	chr19	36017690	36017690	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcctggtcagcagcatggttGaccccttggccaagtttctc	11	13	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:36017690G>T	uc002oae.1	-	2	535	c.465C>A	c.(463-465)GTC>GTA	p.V155V	SBSN_uc002oad.1_Silent_p.V498V	NM_198538	NP_940940	Q6UWP8	SBSN_HUMAN	suprabasin isoform 2 precursor	155	Ala/Gly/His-rich.					extracellular region				ovary(1)	1	all_lung(56;1.62e-08)|Lung NSC(56;2.47e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CAGCATGGTTGACCCCTTGGC	0.597													32	70	---	---	---	---	PASS	T	36017690	T	T	36017690	2	4	60	1	0	0	0	0	0	0	0	1	13864	1277	45	2		2	SBSN	19	36017690	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	5852830	36017690	23111293	549	23617										
MLL4	9757	broad.mit.edu	37	chr19	36223758	36223758	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tggggctgcaggggacagggCccggcctcctgaggacctgc	18	13	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:36223758C>T	uc010eei.2	+	29	6308	c.6308C>T	c.(6307-6309)GCC>GTC	p.A2103V		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2103					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGGGACAGGGCCCGGCCTCCT	0.657													5	12	---	---	---	---	PASS	T	36223758	T	T	36223758	3	4	60	1	0	0	0	0	1	0	0	0	9623	739	26	3	6418	3	MLL4	19	36223758	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	206068	36223758	22905225	550	23618										
RYR1	6261	broad.mit.edu	37	chr19	38993304	38993304	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	taccgtgtaccgcctgtctcGgggtcgttcgctcaccaagg	12	14	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:38993304G>T	uc002oit.2	+	48	7902	c.7772G>T	c.(7771-7773)CGG>CTG	p.R2591L	RYR1_uc002oiu.2_Missense_Mutation_p.R2591L|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2591	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CGCCTGTCTCGGGGTCGTTCG	0.577													17	46	---	---	---	---	PASS	T	38993304	T	T	38993304	3	4	60	1	0	0	0	0	1	0	0	0	13768	1116	39	1	7962	1	RYR1	19	38993304	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2769546	38993304	20135679	551	23619										
MAP4K1	11184	broad.mit.edu	37	chr19	39096258	39096258	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tggatgggggaggcccaggaCgggggctgtttggtgggggc	24	6	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:39096258C>T	uc002oix.1	-	18	1421	c.1313G>A	c.(1312-1314)CGT>CAT	p.R438H	MAP4K1_uc002oiw.1_Missense_Mutation_p.R25H|MAP4K1_uc002oiy.1_Missense_Mutation_p.R438H|MAP4K1_uc010xug.1_Missense_Mutation_p.R100H	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	438					activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			AGGCCCAGGACGGGGGCTGTT	0.687													9	9	---	---	---	---	PASS	T	39096258	T	T	39096258	3	4	60	1	0	0	0	0	1	0	0	0	9259	536	19	1	1310	1	MAP4K1	19	39096258	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	102954	39096258	20032725	552	23620										
FCGBP	8857	broad.mit.edu	37	chr19	40392476	40392476	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccctggggatccaccagcttGtggcaagaggacagtggccc	14	13	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:40392476G>C	uc002omp.3	-	16	8036	c.8028C>G	c.(8026-8028)CAC>CAG	p.H2676Q		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	2676	VWFD 6.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CCACCAGCTTGTGGCAAGAGG	0.577													4	21	---	---	---	---	PASS	C	40392476	C	C	40392476	3	2	60	1	0	0	0	0	1	0	0	0	5778	1368	48	4	8273	4	FCGBP	19	40392476	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	1296218	40392476	18736507	553	23621										
PGLYRP1	8993	broad.mit.edu	37	chr19	46526126	46526126	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caccacatagcgtaagggcaGgctcaggtgctgggcgcact	14	12	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:46526126G>A	uc002pdx.1	-	1	198	c.154C>T	c.(154-156)CTG>TTG	p.L52L		NM_005091	NP_005082	O75594	PGRP1_HUMAN	peptidoglycan recognition protein 1 precursor	52					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)		CGTAAGGGCAGGCTCAGGTGC	0.662													8	21	---	---	---	---	PASS	A	46526126	A	A	46526126	2	1	60	1	0	0	0	0	0	0	0	1	11793	991	35	3		3	PGLYRP1	19	46526126	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	6133650	46526126	12602857	554	23622										
SLC6A16	28968	broad.mit.edu	37	chr19	49812653	49812653	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gatgaaacaggggagcagtaCcaagacatagattacctgaa	11	7	0	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:49812653C>A	uc002pmz.2	-	6	1126	c.892G>T	c.(892-894)GTA>TTA	p.V298L	SLC6A16_uc002pna.2_Missense_Mutation_p.V298L|hsa-mir-4324|MI0015854_5'Flank	NM_014037	NP_054756	Q9GZN6	S6A16_HUMAN	solute carrier family 6, member 16	298	Helical; Name=5; (Potential).					integral to membrane|intracellular	neurotransmitter:sodium symporter activity			skin(2)|ovary(1)|kidney(1)	4		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00099)|GBM - Glioblastoma multiforme(486;0.0336)		GGGAGCAGTACCAAGACATAG	0.478													16	32	---	---	---	---	PASS	A	49812653	A	A	49812653	3	1	60	1	0	0	0	0	1	0	0	0	14679	507	18	3	1346	3	SLC6A16	19	49812653	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3286527	49812653	9316330	555	23623										
SIGLEC10	89790	broad.mit.edu	37	chr19	51917030	51917030	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgctgtgccgggagaacctgGgcctcggggtttctgtctga	16	10	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:51917030G>A	uc002pwo.2	-	10	2373	c.1757C>T	c.(1756-1758)CCC>CTC	p.P586L	SIGLEC10_uc002pwp.2_Missense_Mutation_p.P528L|SIGLEC10_uc002pwq.2_Missense_Mutation_p.P433L|SIGLEC10_uc002pwr.2_Missense_Mutation_p.P491L|SIGLEC10_uc010ycy.1_Missense_Mutation_p.P401L|SIGLEC10_uc010ycz.1_Missense_Mutation_p.P443L|SIGLEC10_uc010eow.2_Missense_Mutation_p.P303L|SIGLEC10_uc002pws.1_Missense_Mutation_p.P327L	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	586	Cytoplasmic (Potential).				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GGAGAACCTGGGCCTCGGGGT	0.542													50	110	---	---	---	---	PASS	A	51917030	A	A	51917030	3	1	60	1	0	0	0	0	1	0	0	0	14306	1232	43	3	344	3	SIGLEC10	19	51917030	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2104377	51917030	7211953	556	23624										
SIGLEC6	946	broad.mit.edu	37	chr19	52034754	52034754	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggcccctccagctggaatctCcgctcctgagccagggcccc	11	19	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:52034754C>G	uc002pwy.2	-	2	249	c.87G>C	c.(85-87)CGG>CGC	p.R29R	SIGLEC6_uc002pwz.2_Silent_p.R29R|SIGLEC6_uc002pxa.2_Silent_p.R29R|SIGLEC6_uc010ydb.1_Intron|SIGLEC6_uc010ydc.1_Silent_p.R18R|SIGLEC6_uc010eoz.1_Silent_p.R18R|SIGLEC6_uc010epb.1_Intron|SIGLEC6_uc010epa.1_Silent_p.R18R	NM_001245	NP_001236	O43699	SIGL6_HUMAN	sialic acid binding Ig-like lectin 6 isoform 1	29	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell-cell signaling	cytoplasm|extracellular region|integral to plasma membrane|membrane fraction|nucleus				ovary(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00115)|OV - Ovarian serous cystadenocarcinoma(262;0.0165)		GCTGGAATCTCCGCTCCTGAG	0.657													27	67	---	---	---	---	PASS	G	52034754	G	G	52034754	2	3	60	1	0	0	0	0	0	0	0	1	14312	842	30	2		2	SIGLEC6	19	52034754	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	117724	52034754	7094229	557	23625										
FPR1	2357	broad.mit.edu	37	chr19	52249292	52249292	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cggtcagggccctctccagaCtggcgggaagggcgtggatc	17	12	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:52249292C>T	uc002pxq.2	-	2	1051	c.956G>A	c.(955-957)AGT>AAT	p.S319N		NM_002029	NP_002020	P21462	FPR1_HUMAN	formyl peptide receptor 1	319	Cytoplasmic (Potential).				activation of MAPK activity|cellular component movement|chemotaxis|G-protein signaling, coupled to cAMP nucleotide second messenger|nitric oxide mediated signal transduction	endosome|integral to membrane|plasma membrane	N-formyl peptide receptor activity			ovary(1)|lung(1)|skin(1)	3		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00106)|OV - Ovarian serous cystadenocarcinoma(262;0.018)	Nedocromil(DB00716)	CCTCTCCAGACTGGCGGGAAG	0.562													56	99	---	---	---	---	PASS	T	52249292	T	T	52249292	3	4	60	1	0	0	0	0	1	0	0	0	6038	565	20	3	100	3	FPR1	19	52249292	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	214538	52249292	6879691	558	23626										
ZNF665	79788	broad.mit.edu	37	chr19	53678739	53678739	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aattctccaacatgacgtccCtgtacaaagtcttctgagca	6	12	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:53678739C>A	uc010eqm.1	-	3	201	c.101G>T	c.(100-102)AGG>ATG	p.R34M		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	Error:Variant_position_missing_in_Q9H7R5_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		CATGACGTCCCTGTACAAAGT	0.453													44	113	---	---	---	---	PASS	A	53678739	A	A	53678739	3	1	60	1	0	0	0	0	1	0	0	0	18070	681	24	3	1943	3	ZNF665	19	53678739	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1429447	53678739	5450244	559	23627										
DPRX	503834	broad.mit.edu	37	chr19	54140174	54140174	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tctaccccattttggaatccCaagtttgcgctccaagcttc	6	14	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:54140174C>A	uc002qcf.1	+	3	559	c.508C>A	c.(508-510)CAA>AAA	p.Q170K		NM_001012728	NP_001012746	A6NFQ7	DPRX_HUMAN	divergent-paired related homeobox	170						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.013)		TTTGGAATCCCAAGTTTGCGC	0.443													43	129	---	---	---	---	PASS	A	54140174	A	A	54140174	3	1	60	1	0	0	0	0	1	0	0	0	4738	595	21	3	518	3	DPRX	19	54140174	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	461435	54140174	4988809	560	23628										
PRKCG	5582	broad.mit.edu	37	chr19	54401275	54401275	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcccctagtcccaccgacccCaagcgctgcttcttcggggc	9	19	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:54401275C>A	uc002qcq.1	+	10	1284	c.1002C>A	c.(1000-1002)CCC>CCA	p.P334P	PRKCG_uc010yef.1_Missense_Mutation_p.P305Q|PRKCG_uc010yeg.1_Silent_p.P334P|PRKCG_uc010yeh.1_Silent_p.P221P	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	334					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)		CCACCGACCCCAAGCGCTGCT	0.473													29	74	---	---	---	---	PASS	A	54401275	A	A	54401275	2	1	60	1	0	0	0	0	0	0	0	1	12512	581	21	3		3	PRKCG	19	54401275	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	261101	54401275	4727708	561	23629										
LILRB1	10859	broad.mit.edu	37	chr19	55146609	55146609	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggctgtggggccagagcccaCagacagaggcctgcagtgga	17	11	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:55146609C>A	uc002qgj.2	+	12	1878	c.1538C>A	c.(1537-1539)ACA>AAA	p.T513K	LILRB1_uc010erp.1_Missense_Mutation_p.T128K|LILRB1_uc002qgl.2_Missense_Mutation_p.T513K|LILRB1_uc002qgk.2_Missense_Mutation_p.T514K|LILRB1_uc002qgm.2_Missense_Mutation_p.T514K|LILRB1_uc010erq.2_Missense_Mutation_p.T497K|LILRB1_uc010err.2_Intron	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	513	Cytoplasmic (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		CCAGAGCCCACAGACAGAGGC	0.612										HNSCC(37;0.09)			11	34	---	---	---	---	PASS	A	55146609	A	A	55146609	3	1	60	1	0	0	0	0	1	0	0	0	8790	478	17	3	1579	3	LILRB1	19	55146609	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	745334	55146609	3982374	562	23630										
C19orf51	352909	broad.mit.edu	37	chr19	55670582	55670582	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgcagaggctgggtcaggcCctcaagggctgggttgctgg	18	10	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:55670582C>A	uc002qji.1	-	12	1508	c.1474G>T	c.(1474-1476)GGC>TGC	p.G492C	TNNI3_uc002qjg.3_5'Flank|TNNI3_uc010yft.1_5'Flank|C19orf51_uc002qjh.1_Missense_Mutation_p.G307C|C19orf51_uc002qjj.1_Missense_Mutation_p.G539C|C19orf51_uc002qjk.1_Missense_Mutation_p.G438C|C19orf51_uc002qjl.1_Missense_Mutation_p.G559C			Q8N9W5	CS051_HUMAN	RecName: Full=UPF0470 protein C19orf51;	492											0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		TGGGTCAGGCCCTCAAGGGCT	0.632													8	35	---	---	---	---	PASS	A	55670582	A	A	55670582	3	1	60	1	0	0	0	0	1	0	0	0	1933	623	22	3	155	3	C19orf51	19	55670582	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	523973	55670582	3458401	563	23631										
NLRP11	204801	broad.mit.edu	37	chr19	56321514	56321514	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atagtttttccagatgctctCtctcccatcaggaacacatt	5	12	3	1	rs143277549	byFrequency	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:56321514C>G	uc010ygf.1	-	5	1173	c.462G>C	c.(460-462)GAG>GAC	p.E154D	NLRP11_uc002qlz.2_Missense_Mutation_p.E55D|NLRP11_uc002qmb.2_Missense_Mutation_p.E55D|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	154	ATP (Potential).|NACHT.						ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		CAGATGCTCTCTCTCCCATCA	0.423													24	63	---	---	---	---	PASS	G	56321514	G	G	56321514	3	3	60	1	0	0	0	0	1	0	0	0	10473	912	32	2	2671	2	NLRP11	19	56321514	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	650932	56321514	2807469	564	23632										
NLRP4	147945	broad.mit.edu	37	chr19	56370413	56370413	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agggacaggtggattccttgGcgatattttactgtctcttt	11	7	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:56370413G>C	uc002qmd.3	+	3	2076	c.1654G>C	c.(1654-1656)GCG>CCG	p.A552P	NLRP4_uc002qmf.2_Missense_Mutation_p.A477P|NLRP4_uc010etf.2_Missense_Mutation_p.A383P	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	552							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)		GGATTCCTTGGCGATATTTTA	0.468													37	73	---	---	---	---	PASS	C	56370413	C	C	56370413	3	2	60	1	0	0	0	0	1	0	0	0	10479	1203	42	4	1660	4	NLRP4	19	56370413	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	48899	56370413	2758570	565	23633										
NLRP5	126206	broad.mit.edu	37	chr19	56538652	56538652	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gctccggtgacggagatcatGtcccgaccagaaaggctgtt	13	11	1	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:56538652G>A	uc002qmj.2	+	7	1053	c.1053G>A	c.(1051-1053)ATG>ATA	p.M351I	NLRP5_uc002qmi.2_Missense_Mutation_p.M332I	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	351	NACHT.					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)		CGGAGATCATGTCCCGACCAG	0.547													12	31	---	---	---	---	PASS	A	56538652	A	A	56538652	3	1	60	1	0	0	0	0	1	0	0	0	10480	1377	48	3	1079	3	NLRP5	19	56538652	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	168239	56538652	2590331	566	23634										
PEG3	5178	broad.mit.edu	37	chr19	57328278	57328278	+	Missense_Mutation	SNP	C	A	A													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cactcttattgaaggtctctCcacagtccttacattcaaaa							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:57328278C>A	uc002qnu.2	-	7	1883	c.1532G>T	c.(1531-1533)GGA>GTA	p.G511V	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.G482V|PEG3_uc002qnv.2_Missense_Mutation_p.G511V|PEG3_uc002qnw.2_Missense_Mutation_p.G387V|PEG3_uc002qnx.2_Missense_Mutation_p.G385V|PEG3_uc010etr.2_Missense_Mutation_p.G511V	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	511	C2H2-type 2.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GAAGGTCTCTCCACAGTCCTT	0.448													63	141	---	---	---	---	PASS	A	57328278	A	A	57328278	3	1	60	1	0	0	0	0	1	0	0	0	11720	855	30	2	3238	2	PEG3	19	57328278	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	789626	57328278	1800705	567	23635	517	2								
PEG3	5178	broad.mit.edu	37	chr19	57328279	57328279	+	Nonsense_Mutation	SNP	C	A	A													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	actcttattgaaggtctctcCacagtccttacattcaaaac							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:57328279C>A	uc002qnu.2	-	7	1882	c.1531G>T	c.(1531-1533)GGA>TGA	p.G511*	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Nonsense_Mutation_p.G482*|PEG3_uc002qnv.2_Nonsense_Mutation_p.G511*|PEG3_uc002qnw.2_Nonsense_Mutation_p.G387*|PEG3_uc002qnx.2_Nonsense_Mutation_p.G385*|PEG3_uc010etr.2_Nonsense_Mutation_p.G511*	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	511	C2H2-type 2.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		AAGGTCTCTCCACAGTCCTTA	0.448													61	141	---	---	---	---	PASS	A	57328279	A	A	57328279	4	1	60	1	0	0	0	0	0	1	0	0	11720	603	21	3	3239	3	PEG3	19	57328279	Nonsense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1	57328279	1800704	568	23636	517	2								
ZNF304	57343	broad.mit.edu	37	chr19	57867773	57867773	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agggatggacttaccagataGctctggccttttccagcacc	10	12	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:57867773G>C	uc010ygw.1	+	3	924	c.536G>C	c.(535-537)AGC>ACC	p.S179T	ZNF304_uc010etw.2_Missense_Mutation_p.S226T|ZNF304_uc010etx.2_Missense_Mutation_p.S137T	NM_020657	NP_065708	Q9HCX3	ZN304_HUMAN	zinc finger protein 304	179					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0265)		TTACCAGATAGCTCTGGCCTT	0.517													27	68	---	---	---	---	PASS	C	57867773	C	C	57867773	3	2	60	1	0	0	0	0	1	0	0	0	17830	971	34	4	546	4	ZNF304	19	57867773	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	539494	57867773	1261210	569	23637										
ZIK1	284307	broad.mit.edu	37	chr19	58100030	58100030	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	actttgcccttgtagcctcaCtgggtaaggccctaatacca	8	13	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:58100030C>T	uc002qpg.2	+	3	293	c.196C>T	c.(196-198)CTG>TTG	p.L66L	ZNF547_uc002qpm.3_Intron|ZIK1_uc002qph.2_Silent_p.L11L|ZIK1_uc002qpi.2_Silent_p.L53L|ZIK1_uc002qpj.2_Intron	NM_001010879	NP_001010879	Q3SY52	ZIK1_HUMAN	zinc finger protein interacting with K protein	66	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TGTAGCCTCACTGGGTAAGGC	0.502													27	71	---	---	---	---	PASS	T	58100030	T	T	58100030	2	4	60	1	0	0	0	0	0	0	0	1	17680	564	20	3		3	ZIK1	19	58100030	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	232257	58100030	1028953	570	23638										
SLC27A5	10998	broad.mit.edu	37	chr19	59021301	59021301	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaccacatcatcagctgtggCcccagataaggacagcatct	8	13	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr19:59021301C>A	uc002qtc.2	-	3	1080	c.970G>T	c.(970-972)GCC>TCC	p.A324S		NM_012254	NP_036386	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid	324	Cytoplasmic (Probable).				bile acid and bile salt transport|bile acid biosynthetic process|very long-chain fatty acid metabolic process	endoplasmic reticulum membrane|integral to membrane	ATP binding|cholate-CoA ligase activity|long-chain fatty acid-CoA ligase activity				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.181)		TCAGCTGTGGCCCCAGATAAG	0.577													32	53	---	---	---	---	PASS	A	59021301	A	A	59021301	3	1	60	1	0	0	0	0	1	0	0	0	14529	739	26	3	1134	3	SLC27A5	19	59021301	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	921271	59021301	107682	571	23639										
ZNF343	79175	broad.mit.edu	37	chr20	2464715	2464715	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcgcccgcactcactgcacaCataaggcttctccatcgagt	7	16	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:2464715C>A	uc002wge.1	-	6	1380	c.892G>T	c.(892-894)GTG>TTG	p.V298L	ZNF343_uc010gao.1_Missense_Mutation_p.V298L|ZNF343_uc002wgd.1_Missense_Mutation_p.V208L	NM_024325	NP_077301	Q6P1L6	ZN343_HUMAN	zinc finger protein 343	298	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TCACTGCACACATAAGGCTTC	0.488													34	63	---	---	---	---	PASS	A	2464715	A	A	2464715	3	1	60	1	0	0	0	0	1	0	0	0	17855	478	17	3	911	3	ZNF343	20	2464715	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08		2464715	60560805	572	23640										
C20orf194	25943	broad.mit.edu	37	chr20	3274874	3274874	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	catcacaggctcctggctaaTgctgctgatggcgaaatgct	11	11	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:3274874T>A	uc002wii.2	-	25	2200	c.2149A>T	c.(2149-2151)ATT>TTT	p.I717F	C20orf194_uc002wij.3_Missense_Mutation_p.I456F|C20orf194_uc002wik.2_Missense_Mutation_p.I391F	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	717											0						TCCTGGCTAATGCTGCTGATG	0.463													7	41	---	---	---	---	PASS	A	3274874	A	A	3274874	3	1	60	1	0	0	0	0	1	0	0	0	2099	1464	51	5	1436	5	C20orf194	20	3274874	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	810159	3274874	59750646	573	23641										
SIGLEC1	6614	broad.mit.edu	37	chr20	3673596	3673596	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	accctcatccctgggctgtgGccctcgcagctccaggcgca	11	18	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:3673596G>T	uc002wja.2	-	14	3691	c.3691C>A	c.(3691-3693)CCA>ACA	p.P1231T	SIGLEC1_uc002wjb.1_5'UTR|SIGLEC1_uc002wiz.3_Missense_Mutation_p.P1231T	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1231	Ig-like C2-type 12.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						CTGGGCTGTGGCCCTCGCAGC	0.716													30	31	---	---	---	---	PASS	T	3673596	T	T	3673596	3	4	60	1	0	0	0	0	1	0	0	0	14305	1203	42	3	1470	3	SIGLEC1	20	3673596	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	398722	3673596	59351924	574	23642										
SLC23A2	9962	broad.mit.edu	37	chr20	4850594	4850594	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggggtggggcacaggacagcCgtgcacaggcgtagtagtca	18	9	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:4850594C>A	uc002wlg.1	-	12	1583	c.1208G>T	c.(1207-1209)CGG>CTG	p.R403L	SLC23A2_uc010zqr.1_Missense_Mutation_p.R288L|SLC23A2_uc002wlh.1_Missense_Mutation_p.R403L|SLC23A2_uc002wli.2_Missense_Mutation_p.R402L	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	403					L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						ACAGGACAGCCGTGCACAGGC	0.577													54	61	---	---	---	---	PASS	A	4850594	A	A	4850594	3	1	60	1	0	0	0	0	1	0	0	0	14463	652	23	1	768	1	SLC23A2	20	4850594	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	1176998	4850594	58174926	575	23643										
ANKRD5	63926	broad.mit.edu	37	chr20	10032359	10032359	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctgtggactccacttcatttTgcatgccatgcaggccaaca	8	13	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:10032359T>C	uc002wno.2	+	8	2085	c.1692T>C	c.(1690-1692)TTT>TTC	p.F564F	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Silent_p.F564F|ANKRD5_uc010gbz.2_Silent_p.F375F	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	564	ANK 6.						calcium ion binding			ovary(1)|breast(1)	2						CACTTCATTTTGCATGCCATG	0.373													19	103	---	---	---	---	PASS	C	10032359	C	C	10032359	2	2	60	1	0	0	0	0	0	0	0	1	676	1809	63	5		5	ANKRD5	20	10032359	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	5181765	10032359	52993161	576	23644										
SPTLC3	55304	broad.mit.edu	37	chr20	13055143	13055143	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggccagcaccaggcatgaaaTgggtatgtacattcactgtt	11	9	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:13055143T>C	uc002wod.1	+	4	894	c.605T>C	c.(604-606)ATG>ACG	p.M202T		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	202					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	AGGCATGAAATGGGTATGTAC	0.423													9	189	---	---	---	---	PASS	C	13055143	C	C	13055143	3	2	60	1	0	0	0	0	1	0	0	0	15124	1464	51	5	619	5	SPTLC3	20	13055143	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	3022784	13055143	49970377	577	23645										
SEL1L2	80343	broad.mit.edu	37	chr20	13830172	13830172	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caacaaaatcagcccaggaaCaatgaggccaatcacaaata	6	11	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:13830172C>A	uc010gcf.2	-	20	2108	c.2026G>T	c.(2026-2028)GTT>TTT	p.V676F	SEL1L2_uc002woq.3_Missense_Mutation_p.V537F|SEL1L2_uc010zrl.1_Missense_Mutation_p.V563F|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	676	Helical; (Potential).					integral to membrane	binding			ovary(2)	2						AGCCCAGGAACAATGAGGCCA	0.483													11	75	---	---	---	---	PASS	A	13830172	A	A	13830172	3	1	60	1	0	0	0	0	1	0	0	0	14011	478	17	3	44	3	SEL1L2	20	13830172	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	775029	13830172	49195348	578	23646										
MACROD2	140733	broad.mit.edu	37	chr20	14066307	14066307	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcccaggtgaagaaaagtttGactgaaaaagtttctctcta	8	7	2	4			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:14066307G>T	uc002wou.2	+	3	468	c.204G>T	c.(202-204)TTG>TTT	p.L68F	MACROD2_uc002wot.2_Missense_Mutation_p.L68F	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	68	Macro.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				AGAAAAGTTTGACTGAAAAAG	0.313													19	27	---	---	---	---	PASS	T	14066307	T	T	14066307	3	4	60	1	0	0	0	0	1	0	0	0	9146	1281	45	2	214	2	MACROD2	20	14066307	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	236135	14066307	48959213	579	23647										
SEC23B	10483	broad.mit.edu	37	chr20	18505080	18505080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttttctttgcccaaagcgaGgtgctcagtcccctctgatc	8	13	3	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:18505080G>T	uc002wqz.1	+	5	813	c.370G>T	c.(370-372)GGT>TGT	p.G124C	SEC23B_uc002wra.1_Missense_Mutation_p.G124C|SEC23B_uc002wrb.1_Missense_Mutation_p.G124C|SEC23B_uc010zsb.1_Intron|SEC23B_uc002wrc.1_Missense_Mutation_p.G124C	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	124					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						CCCAAAGCGAGGTGCTCAGTC	0.418													23	105	---	---	---	---	PASS	T	18505080	T	T	18505080	3	4	60	1	0	0	0	0	1	0	0	0	13992	1000	35	3	384	3	SEC23B	20	18505080	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	4438773	18505080	44520440	580	23648										
ACSS1	84532	broad.mit.edu	37	chr20	25003611	25003611	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggcatagagcaggtagcctgCctgggtatggacgatgccct	15	10	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:25003611C>T	uc002wub.2	-	5	1803	c.925G>A	c.(925-927)GCA>ACA	p.A309T	ACSS1_uc002wuc.2_Missense_Mutation_p.A309T|ACSS1_uc010gdc.2_Intron|ACSS1_uc002wud.1_RNA|ACSS1_uc002wua.2_Missense_Mutation_p.A226T	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	309					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	AGGTAGCCTGCCTGGGTATGG	0.637													11	39	---	---	---	---	PASS	T	25003611	T	T	25003611	3	4	60	1	0	0	0	0	1	0	0	0	188	739	26	3	1184	3	ACSS1	20	25003611	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	6498531	25003611	38021909	581	23649										
C20orf186	149954	broad.mit.edu	37	chr20	31673913	31673913	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccgcacgggttatcctcggcTggtcattgagcgatgtgaca	13	11	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:31673913T>A	uc010zue.1	+	5	884	c.869T>A	c.(868-870)CTG>CAG	p.L290Q		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	290						cytoplasm|extracellular region	lipid binding				0						TATCCTCGGCTGGTCATTGAG	0.582													92	98	---	---	---	---	PASS	A	31673913	A	A	31673913	3	1	60	1	0	0	0	0	1	0	0	0	2098	1580	55	5	887	5	C20orf186	20	31673913	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	6670302	31673913	31351607	582	23650										
CBFA2T2	9139	broad.mit.edu	37	chr20	32078086	32078086	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gctcggcgatggtaggcgtcCctggagcggccgccttccag	16	14	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:32078086C>T	uc002wze.1	+	1	159	c.13C>T	c.(13-15)CCT>TCT	p.P5S	CBFA2T2_uc010zug.1_5'UTR	NM_001032999	NP_001028171	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit	Error:Variant_position_missing_in_O43439_after_alignment						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2						GGTAGGCGTCCCTGGAGCGGC	0.662													6	5	---	---	---	---	PASS	T	32078086	T	T	32078086	3	4	60	1	0	0	0	0	1	0	0	0	2697	623	22	3	15	3	CBFA2T2	20	32078086	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	404173	32078086	30947434	583	23651										
SPINLW1	57119	broad.mit.edu	37	chr20	44171468	44171468	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccaccaatgaagaaaataagCcaggcaggggccagtttctt	10	10	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:44171468C>G	uc002xou.2	-	3	294	c.262G>C	c.(262-264)GCT>CCT	p.A88P	SPINLW1_uc010zxc.1_Missense_Mutation_p.A88P|SPINLW1_uc002xot.2_Missense_Mutation_p.A72P|SPINLW1_uc002xov.1_3'UTR	NM_020398	NP_065131	O95925	EPPI_HUMAN	serine peptidase inhibitor-like, with Kunitz and	88	BPTI/Kunitz inhibitor.					extracellular region	serine-type endopeptidase inhibitor activity			pancreas(1)	1		Myeloproliferative disorder(115;0.0122)				AGAAAATAAGCCAGGCAGGGG	0.428													41	44	---	---	---	---	PASS	G	44171468	G	G	44171468	3	3	60	1	0	0	0	0	1	0	0	0	15066	739	26	4	147	4	SPINLW1	20	44171468	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	12093382	44171468	18854052	584	23652										
C20orf165	128497	broad.mit.edu	37	chr20	44515306	44515306	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	atgaaagcttgagcggcccaGatcaggtcctcttcccgaac	10	13	2	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:44515306G>T	uc002xqf.2	-	2	543	c.534C>A	c.(532-534)ATC>ATA	p.I178I		NM_080608	NP_542175	Q9BR10	CT165_HUMAN	chromosome 20 open reading frame 165	178						integral to membrane					0		Myeloproliferative disorder(115;0.0122)				GAGCGGCCCAGATCAGGTCCT	0.642													45	41	---	---	---	---	PASS	T	44515306	T	T	44515306	2	4	60	1	0	0	0	0	0	0	0	1	2094	932	33	2		2	C20orf165	20	44515306	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	343838	44515306	18510214	585	23653										
GNAS	2778	broad.mit.edu	37	chr20	57415389	57415389	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cgctccggcgcccaggtattCcctgagtcccccgaatcgga	11	17	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:57415389C>T	uc002xzt.2	+	1	595	c.228C>T	c.(226-228)TTC>TTT	p.F76F	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	76					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CCCAGGTATTCCCTGAGTCCC	0.662			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			63	64	---	---	---	---	PASS	T	57415389	T	T	57415389	2	4	60	1	0	0	0	0	0	0	0	1	6510	854	30	2		2	GNAS	20	57415389	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	12900083	57415389	5610131	586	23654										
PHACTR3	116154	broad.mit.edu	37	chr20	58318262	58318262	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aaactggccaccctgggcagGatcttcaaaccctggaaatg	10	12	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:58318262G>T	uc002yau.2	+	2	686	c.219G>T	c.(217-219)AGG>AGT	p.R73S	PHACTR3_uc002yat.2_Missense_Mutation_p.R70S|PHACTR3_uc010zzw.1_Missense_Mutation_p.R32S|PHACTR3_uc002yav.2_Missense_Mutation_p.R32S|PHACTR3_uc002yaw.2_Missense_Mutation_p.R32S|PHACTR3_uc002yax.2_Missense_Mutation_p.R32S	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	73						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			CCCTGGGCAGGATCTTCAAAC	0.557													42	35	---	---	---	---	PASS	T	58318262	T	T	58318262	3	4	60	1	0	0	0	0	1	0	0	0	11811	1165	41	2	225	2	PHACTR3	20	58318262	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	902873	58318262	4707258	587	23655										
LAMA5	3911	broad.mit.edu	37	chr20	60884880	60884880	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ctccagccggagcacattccCgcttttcatcactgggagaa	9	14	2	1	rs77106948	byFrequency	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr20:60884880C>T	uc002ycq.2	-	79	10907	c.10840G>A	c.(10840-10842)GGG>AGG	p.G3614R		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3614	Laminin G-like 5.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGCACATTCCCGCTTTTCATC	0.672													15	23	---	---	---	---	PASS	T	60884880	T	T	60884880	3	4	60	1	0	0	0	0	1	0	0	0	8609	652	23	1	255	1	LAMA5	20	60884880	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2566618	60884880	2140640	588	23656										
GRIK1	2897	broad.mit.edu	37	chr21	31062053	31062053	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtgtgagtcccatacctgtgCtgtcttcatacaccactgtc	8	13	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr21:31062053C>A	uc002yno.1	-	3	1003	c.539G>T	c.(538-540)AGC>ATC	p.S180I	GRIK1_uc002ynn.2_Missense_Mutation_p.S180I|GRIK1_uc011acs.1_Missense_Mutation_p.S180I|GRIK1_uc011act.1_Missense_Mutation_p.S124I|GRIK1_uc010glq.1_Intron|GRIK1_uc002ynr.2_Missense_Mutation_p.S180I	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	180	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	CATACCTGTGCTGTCTTCATA	0.448													95	227	---	---	---	---	PASS	A	31062053	A	A	31062053	3	1	60	1	0	0	0	0	1	0	0	0	6773	797	28	3	2437	3	GRIK1	21	31062053	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08		31062053	17067842	589	23657										
KRTAP13-2	337959	broad.mit.edu	37	chr21	31744209	31744209	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcgatccatagcccagggagCggcagctgctggatccaaag	13	12	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr21:31744209C>G	uc002ynz.3	-	1	349	c.323G>C	c.(322-324)CGC>CCC	p.R108P		NM_181621	NP_853652	Q52LG2	KR132_HUMAN	keratin associated protein 13-2	108						intermediate filament					0						GCCCAGGGAGCGGCAGCTGCT	0.607													32	34	---	---	---	---	PASS	G	31744209	G	G	31744209	3	3	60	1	0	0	0	0	1	0	0	0	8523	768	27	4	208	4	KRTAP13-2	21	31744209	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	682156	31744209	16385686	590	23658										
KRTAP10-12	386685	broad.mit.edu	37	chr21	46117425	46117425	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcctccccctgccagcaggcCtgctgcgtgcccgtctgctg	11	19	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr21:46117425C>A	uc002zfw.1	+	1	339	c.309C>A	c.(307-309)GCC>GCA	p.A103A	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198699	NP_941972	P60413	KR10C_HUMAN	keratin associated protein 10-12	103	19 X 5 AA repeats of C-C-X(3).					keratin filament					0						GCCAGCAGGCCTGCTGCGTGC	0.647													76	117	---	---	---	---	PASS	A	46117425	A	A	46117425	2	1	60	1	0	0	0	0	0	0	0	1	8508	668	24	3		3	KRTAP10-12	21	46117425	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	14373216	46117425	2012470	591	23659										
CECR5	27440	broad.mit.edu	37	chr22	17619552	17619552	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gctgggtttgcccatcaggcCctcgtatctcagctccttgc	10	15	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr22:17619552C>A	uc002zmf.2	-	7	851	c.823G>T	c.(823-825)GGC>TGC	p.G275C	CECR5_uc002zmd.2_Missense_Mutation_p.G86C|CECR5_uc002zme.2_Missense_Mutation_p.G67C|CECR5_uc002zmg.2_Intron|CECR5_uc002zmh.2_Missense_Mutation_p.G245C	NM_033070	NP_149061	Q9BXW7	CECR5_HUMAN	cat eye syndrome chromosome region, candidate 5	275							hydrolase activity				0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)				CCCATCAGGCCCTCGTATCTC	0.602													120	147	---	---	---	---	PASS	A	17619552	A	A	17619552	3	1	60	1	0	0	0	0	1	0	0	0	3207	623	22	3	456	3	CECR5	22	17619552	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08		17619552	33685014	592	23660										
PI4KA	5297	broad.mit.edu	37	chr22	21075678	21075678	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gctgggatttagacgctgccCacagaatatactcccgcaca	9	13	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr22:21075678C>A	uc002zsz.3	-	43	5081	c.4850G>T	c.(4849-4851)TGG>TTG	p.W1617L	PI4KA_uc010gsp.2_Missense_Mutation_p.W10L|PI4KA_uc002zsy.3_Missense_Mutation_p.W427L	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1617					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			AGACGCTGCCCACAGAATATA	0.537													55	73	---	---	---	---	PASS	A	21075678	A	A	21075678	3	1	60	1	0	0	0	0	1	0	0	0	11873	595	21	3	1336	3	PI4KA	22	21075678	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3456126	21075678	30228888	593	23661										
PI4KA	5297	broad.mit.edu	37	chr22	21096529	21096529	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gtcctaccggcacttccactCcatccttgccagccagcagc	7	19	0	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr22:21096529C>A	uc002zsz.3	-	32	3785	c.3554G>T	c.(3553-3555)GGA>GTA	p.G1185V		NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1185					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			CACTTCCACTCCATCCTTGCC	0.537											OREG0026324	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	85	75	---	---	---	---	PASS	A	21096529	A	A	21096529	3	1	60	1	0	0	0	0	1	0	0	0	11873	855	30	2	2676	2	PI4KA	22	21096529	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	20851	21096529	30208037	594	23662										
CABIN1	23523	broad.mit.edu	37	chr22	24487755	24487755	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcccgctaccccaagaagatCcactaccacaacccacctga	5	19	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr22:24487755C>A	uc002zzi.1	+	24	3871	c.3744C>A	c.(3742-3744)ATC>ATA	p.I1248I	CABIN1_uc002zzj.1_Silent_p.I1198I|CABIN1_uc002zzl.1_Silent_p.I1248I	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1248					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CCAAGAAGATCCACTACCACA	0.627													48	72	---	---	---	---	PASS	A	24487755	A	A	24487755	2	1	60	1	0	0	0	0	0	0	0	1	2528	845	30	2		2	CABIN1	22	24487755	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	3391226	24487755	26816811	595	23663										
MYO18B	84700	broad.mit.edu	37	chr22	26423607	26423607	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gacggggaggaaagacgacgAtgttgcgagcataatgaaga	16	5	0	3			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr22:26423607A>T	uc003abz.1	+	43	7917	c.7667A>T	c.(7666-7668)GAT>GTT	p.D2556V	MYO18B_uc003aca.1_Missense_Mutation_p.D2437V|MYO18B_uc010guy.1_Missense_Mutation_p.D2438V|MYO18B_uc010guz.1_Missense_Mutation_p.D2436V|MYO18B_uc011aka.1_Missense_Mutation_p.D1710V|MYO18B_uc011akb.1_Missense_Mutation_p.D2069V|MYO18B_uc010gva.1_Missense_Mutation_p.D539V|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2556						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						AAAGACGACGATGTTGCGAGC	0.552													16	9	---	---	---	---	PASS	T	26423607	T	T	26423607	3	4	60	1	0	0	0	0	1	0	0	0	10066	333	12	5	7833	5	MYO18B	22	26423607	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	1935852	26423607	24880959	596	23664										
MTMR3	8897	broad.mit.edu	37	chr22	30398972	30398972	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctggaagcgcatccctgccGtcatctacaggtaagttaaa	9	12	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr22:30398972G>T	uc003agv.3	+	9	989	c.661G>T	c.(661-663)GTC>TTC	p.V221F	MTMR3_uc003agu.3_Missense_Mutation_p.V221F|MTMR3_uc003agw.3_Missense_Mutation_p.V221F	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	221	Myotubularin phosphatase.		V -> L (in a breast cancer sample; somatic mutation).		phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity	p.V221L(1)		breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			CATCCCTGCCGTCATCTACAG	0.532													21	22	---	---	---	---	PASS	T	30398972	T	T	30398972	3	4	60	1	0	0	0	0	1	0	0	0	9945	1145	40	1	687	1	MTMR3	22	30398972	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	3975365	30398972	20905594	597	23665										
LARGE	9215	broad.mit.edu	37	chr22	34046499	34046499	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gcgatgggatggggctcggcCctgggccaggctgagctgcc	19	12	0	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr22:34046499C>A	uc003and.3	-	4	841	c.262G>T	c.(262-264)GGC>TGC	p.G88C	LARGE_uc003ane.3_Missense_Mutation_p.G88C|LARGE_uc010gwp.2_Missense_Mutation_p.G88C|LARGE_uc011ame.1_Missense_Mutation_p.G20C|LARGE_uc011amf.1_Missense_Mutation_p.G88C	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	88	Lumenal (Potential).|Potential.				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				GGGGCTCGGCCCTGGGCCAGG	0.697													8	68	---	---	---	---	PASS	A	34046499	A	A	34046499	3	1	60	1	0	0	0	0	1	0	0	0	8627	623	22	3	2060	3	LARGE	22	34046499	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	3647527	34046499	17258067	598	23666										
RBM9	23543	broad.mit.edu	37	chr22	36155936	36155936	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttggaatctaacgcttaccCtggataggcggggatggctg	14	8	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr22:36155936C>A	uc003aon.3	-	10	1220	c.1108G>T	c.(1108-1110)GGT>TGT	p.G370C	RBM9_uc003aog.3_Missense_Mutation_p.G276C|RBM9_uc003aol.3_Missense_Mutation_p.G295C|RBM9_uc003aoj.3_Missense_Mutation_p.G299C|RBM9_uc003aok.3_Missense_Mutation_p.G296W|RBM9_uc003aoh.3_Missense_Mutation_p.G299W|RBM9_uc003aom.3_Missense_Mutation_p.G277C|RBM9_uc010gwu.2_Missense_Mutation_p.G275C|RBM9_uc003aoo.3_Missense_Mutation_p.G369C	NM_001082578	NP_001076047	O43251	RFOX2_HUMAN	RNA binding motif protein 9 isoform 5	309	Ala-rich.				estrogen receptor signaling pathway|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of cell proliferation|RNA splicing	cytoplasm|nucleus	nucleotide binding|RNA binding|transcription corepressor activity|transcription factor binding				0						AACGCTTACCCTGGATAGGCG	0.507													26	44	---	---	---	---	PASS	A	36155936	A	A	36155936	3	1	60	1	0	0	0	0	1	0	0	0	13147	695	24	3	277	3	RBM9	22	36155936	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	2109437	36155936	15148630	599	23667										
MYH9	4627	broad.mit.edu	37	chr22	36702581	36702581	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cagtgcggaacatgcccttcCgcgtcttgaaggccccgggc	13	15	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr22:36702581C>T	uc003apg.2	-	16	2147	c.1916G>A	c.(1915-1917)CGG>CAG	p.R639Q	MYH9_uc003aph.1_Missense_Mutation_p.R503Q	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	639	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CATGCCCTTCCGCGTCTTGAA	0.617			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				16	26	---	---	---	---	PASS	T	36702581	T	T	36702581	3	4	60	1	0	0	0	0	1	0	0	0	10042	652	23	1	4070	1	MYH9	22	36702581	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	546645	36702581	14601985	600	23668										
FAM118A	55007	broad.mit.edu	37	chr22	45731235	45731235	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttctttctccttcagatgcTgatcgcgtggacagcaccac	8	13	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr22:45731235T>A	uc003bfz.3	+	8	1558	c.942T>A	c.(940-942)GCT>GCA	p.A314A	FAM118A_uc003bga.3_Silent_p.A314A|FAM118A_uc011aqr.1_Silent_p.A132A	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	314						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		CTTCAGATGCTGATCGCGTGG	0.517													29	73	---	---	---	---	PASS	A	45731235	A	A	45731235	2	1	60	1	0	0	0	0	0	0	0	1	5411	1567	55	5		5	FAM118A	22	45731235	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	9028654	45731235	5573331	601	23669										
ATXN10	25814	broad.mit.edu	37	chr22	46088935	46088935	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tctgtttcgtgaactgcgagTggaacaggaatctctgttga	12	7	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr22:46088935T>C	uc003bgm.1	+	3	625	c.368T>C	c.(367-369)GTG>GCG	p.V123A	ATXN10_uc011aqt.1_Missense_Mutation_p.V59A|ATXN10_uc003bgn.1_5'UTR	NM_013236	NP_037368	Q9UBB4	ATX10_HUMAN	ataxin 10	123					cell death|neuron projection development	dendrite|neuronal cell body|perinuclear region of cytoplasm				ovary(1)|kidney(1)	2		Ovarian(80;0.00973)|all_neural(38;0.0417)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0223)		GAACTGCGAGTGGAACAGGAA	0.313													4	62	---	---	---	---	PASS	C	46088935	C	C	46088935	3	2	60	1	0	0	0	0	1	0	0	0	1210	1696	59	5	378	5	ATXN10	22	46088935	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	357700	46088935	5215631	602	23670										
BRD1	23774	broad.mit.edu	37	chr22	50191604	50191604	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cgcagcctcaccgcggctctAtagaacacggtgtccctggc	11	16	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chr22:50191604A>G	uc003biv.2	-	5	2434	c.1947T>C	c.(1945-1947)TAT>TAC	p.Y649Y	BRD1_uc011arf.1_Silent_p.Y244Y|BRD1_uc011arg.1_Silent_p.Y698Y|BRD1_uc011arh.1_Silent_p.Y649Y|BRD1_uc003biu.3_Silent_p.Y649Y	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	649	Bromo.				histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CCGCGGCTCTATAGAACACGG	0.537													38	26	---	---	---	---	PASS	G	50191604	G	G	50191604	2	3	60	1	0	0	0	0	0	0	0	1	1501	456	16	5		5	BRD1	22	50191604	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	4102669	50191604	1112962	603	23671										
PRKX	5613	broad.mit.edu	37	chrX	3544547	3544547	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acgggttgtcatcaaaaaacGgaggaaacctgttagaaaaa	10	6	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:3544547G>A	uc010nde.2	-	5	1095	c.728C>T	c.(727-729)CCG>CTG	p.P243L		NM_005044	NP_005035	P51817	PRKX_HUMAN	protein kinase, X-linked	243	Protein kinase.						ATP binding|cAMP-dependent protein kinase activity			skin(2)|lung(1)	3		all_lung(23;0.000396)|Lung NSC(23;0.00123)				ATCAAAAAACGGAGGAAACCT	0.373													28	8	---	---	---	---	PASS	A	3544547	A	A	3544547	3	1	60	1	0	0	0	0	1	0	0	0	12527	1116	39	1	364	1	PRKX	23	3544547	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08		3544547	151726013	604	23672										
NLGN4X	57502	broad.mit.edu	37	chrX	5811062	5811062	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	caggtgagcctcagtgtgtcGtgtgcctgcagcgactcaca	13	12	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:5811062G>A	uc010ndh.2	-	6	2748	c.2247C>T	c.(2245-2247)CAC>CAT	p.H749H	NLGN4X_uc004crp.2_Silent_p.H769H|NLGN4X_uc004crq.2_Silent_p.H749H|NLGN4X_uc010ndi.2_Silent_p.H786H|NLGN4X_uc004crr.2_Silent_p.H749H|NLGN4X_uc010ndj.2_Silent_p.H749H	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	749	Cytoplasmic (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TCAGTGTGTCGTGTGCCTGCA	0.547													14	51	---	---	---	---	PASS	A	5811062	A	A	5811062	2	1	60	1	0	0	0	0	0	0	0	1	10464	1136	40	1		1	NLGN4X	23	5811062	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	2266515	5811062	149459498	605	23673										
PPEF1	5475	broad.mit.edu	37	chrX	18845392	18845392	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	accttctcctatattcttttAggcctgatctccgtggaaga	7	11	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:18845392A>T	uc004cyq.2	+	19	2232	c.1751_splice	c.e19-2	p.G584_splice	PPEF1_uc004cyp.2_Splice_Site_p.G556_splice|PPEF1_uc004cyr.2_Splice_Site_p.G522_splice|PPEF1_uc004cys.2_Splice_Site_p.G584_splice|PPEF1_uc011mja.1_Splice_Site_p.G519_splice|PPEF1_uc011mjb.1_Splice_Site_p.G528_splice	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding						detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)					ATATTCTTTTAGGCCTGATCT	0.418													38	18	---	---	---	---	PASS	T	18845392	T	T	18845392	5	4	60	1	0	0	0	0	0	0	1	0	12307	434	15	5	1811	5	PPEF1	23	18845392	Splice_Site	SNP	A	TCGA-33-4583-01A-01D-1441-08	13034330	18845392	136425168	606	23674										
IL1RAPL1	11141	broad.mit.edu	37	chrX	29301304	29301304	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gttccggccaacattgctacAggacagtggtctctacgcct	10	13	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:29301304A>C	uc004dby.2	+	3	840	c.332A>C	c.(331-333)CAG>CCG	p.Q111P		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	111	Ig-like C2-type 1.|Extracellular (Potential).				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						ACATTGCTACAGGACAGTGGT	0.438													27	26	---	---	---	---	PASS	C	29301304	C	C	29301304	3	2	60	1	0	0	0	0	1	0	0	0	7661	188	7	5	338	5	IL1RAPL1	23	29301304	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	10455912	29301304	125969256	607	23675										
MAGEB4	4115	broad.mit.edu	37	chrX	30261139	30261139	+	Frame_Shift_Del	DEL	C	-	-													0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ggccaaggtgaatgacaccaCccccaataacttcccactgc							TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:30261139delC	uc004dcb.2	+	1	971	c.887delC	c.(886-888)ACCfs	p.T296fs	MAGEB1_uc004dcc.2_5'Flank|MAGEB1_uc004dcd.2_5'Flank	NM_002367	NP_002358	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	296	MAGE.									ovary(1)	1						AATGACACCACCCCCAATAAC	0.532													29	38	---	---	---	---		-	30261139	-	-	30261139	7	5	60	1	0	1	0	1	0	0	0	0	9178	507	18	0	889	0	MAGEB4	23	30261139	Frame_Shift_Del	DEL	C	TCGA-33-4583-01A-01D-1441-08	959835	30261139	125009421	608	23676										
WAS	7454	broad.mit.edu	37	chrX	48542368	48542368	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tttgagatgcttggacgaaaAtgcttggtgagctggggatc	15	5	0	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:48542368A>G	uc004dkm.3	+	1	183	c.126A>G	c.(124-126)AAA>AAG	p.K42K		NM_000377	NP_000368	P42768	WASP_HUMAN	Wiskott-Aldrich syndrome protein	42	WH1.				blood coagulation|defense response|epidermis development|immune response|T cell receptor signaling pathway	actin cytoskeleton|cytosol	identical protein binding|small GTPase regulator activity			ovary(1)	1		all_lung(315;1.27e-10)				TTGGACGAAAATGCTTGGTGA	0.473			Mis|N|F|S			lymphoma			Wiskott-Aldrich_syndrome				43	26	---	---	---	---	PASS	G	48542368	G	G	48542368	2	3	60	1	0	0	0	0	0	0	0	1	17248	98	4	5		5	WAS	23	48542368	Silent	SNP	A	TCGA-33-4583-01A-01D-1441-08	18281229	48542368	106728192	609	23677										
GAGE10	643832	broad.mit.edu	37	chrX	49161385	49161385	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcggtctagaccaagactctAtgtagagccccctgaaatga	9	11	2	5			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:49161385A>T	uc010nir.1	+	2	163	c.47A>T	c.(46-48)TAT>TTT	p.Y16F		NM_001098413	NP_001091883	A6NGK3	GAG10_HUMAN	G antigen 10	16											0	Ovarian(276;0.236)					CCAAGACTCTATGTAGAGCCC	0.433													146	70	---	---	---	---	PASS	T	49161385	T	T	49161385	3	4	60	1	0	0	0	0	1	0	0	0	6187	449	16	5	49	5	GAGE10	23	49161385	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	619017	49161385	106109175	610	23678										
FAAH2	158584	broad.mit.edu	37	chrX	57313335	57313335	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tctcataggcttagtaggccGagcagctttagtcttagggg	13	8	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:57313335G>T	uc004dvc.2	+	1	226	c.77G>T	c.(76-78)CGA>CTA	p.R26L		NM_174912	NP_777572	Q6GMR7	FAAH2_HUMAN	fatty acid amide hydrolase 2	26	Helical; (Potential).					integral to membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|hydrolase activity			ovary(3)	3						TTAGTAGGCCGAGCAGCTTTA	0.572										HNSCC(52;0.14)			9	12	---	---	---	---	PASS	T	57313335	T	T	57313335	3	4	60	1	0	0	0	0	1	0	0	0	5354	1058	37	2	79	2	FAAH2	23	57313335	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	8151950	57313335	97957225	611	23679										
ZC4H2	55906	broad.mit.edu	37	chrX	64137693	64137693	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgcttccgtttcggctttttGgggttccgggaccgactctt	12	11	1	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:64137693G>T	uc004dvu.2	-	5	733	c.645C>A	c.(643-645)CCC>CCA	p.P215P	ZC4H2_uc004dvv.2_Silent_p.P192P|ZC4H2_uc011mov.1_Silent_p.P192P|ZC4H2_uc011mow.1_Missense_Mutation_p.P161Q|ZC4H2_uc004dvw.1_3'UTR	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	215							metal ion binding|protein binding			ovary(1)	1						TCGGCTTTTTGGGGTTCCGGG	0.502													19	9	---	---	---	---	PASS	T	64137693	T	T	64137693	2	4	60	1	0	0	0	0	0	0	0	1	17575	1348	47	3		3	ZC4H2	23	64137693	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	6824358	64137693	91132867	612	23680										
NHSL2	340527	broad.mit.edu	37	chrX	71359733	71359733	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	acctaccactgacctcttcaCccaacctggatctgtctggg	7	16	4	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:71359733C>T	uc011mqa.1	+	6	2335	c.2335C>T	c.(2335-2337)CCC>TCC	p.P779S	NHSL2_uc004eak.1_Missense_Mutation_p.P413S|NHSL2_uc010nli.2_Missense_Mutation_p.P548S	NM_001013627	NP_001013649	Q5HYW2	NHSL2_HUMAN	NHS-like 2	779											0	Renal(35;0.156)					GACCTCTTCACCCAACCTGGA	0.507													27	20	---	---	---	---	PASS	T	71359733	T	T	71359733	3	4	60	1	0	0	0	0	1	0	0	0	10412	507	18	3	2357	3	NHSL2	23	71359733	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	7222040	71359733	83910827	613	23681										
POF1B	79983	broad.mit.edu	37	chrX	84563147	84563147	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tactgtcatatcattttgaaGatgtccaagctcctcccgta	6	11	2	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:84563147G>A	uc004eer.2	-	10	1179	c.1033C>T	c.(1033-1035)CTT>TTT	p.L345F	POF1B_uc004ees.2_Missense_Mutation_p.L345F	NM_024921	NP_079197	Q8WVV4	POF1B_HUMAN	premature ovarian failure, 1B	345	Potential.						actin binding				0						TCATTTTGAAGATGTCCAAGC	0.368													25	11	---	---	---	---	PASS	A	84563147	A	A	84563147	3	1	60	1	0	0	0	0	1	0	0	0	12182	942	33	2	768	2	POF1B	23	84563147	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	13203414	84563147	70707413	614	23682										
PCDH19	57526	broad.mit.edu	37	chrX	99661673	99661673	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	ccgtggtcgtgagccaccacGataagctcataggaggactt	12	11	1	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:99661673G>A	uc010nmz.2	-	1	3599	c.1923C>T	c.(1921-1923)ATC>ATT	p.I641I	PCDH19_uc004efw.3_Silent_p.I641I|PCDH19_uc004efx.3_Silent_p.I641I	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	641	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						GAGCCACCACGATAAGCTCAT	0.572													20	13	---	---	---	---	PASS	A	99661673	A	A	99661673	2	1	60	1	0	0	0	0	0	0	0	1	11514	1048	37	2		2	PCDH19	23	99661673	Silent	SNP	G	TCGA-33-4583-01A-01D-1441-08	15098526	99661673	55608887	615	23683										
GPRASP1	9737	broad.mit.edu	37	chrX	101909538	101909538	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tgcacatggccaatcaagagGctaataccatgtctaggtcc	9	11	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:101909538G>T	uc004ejj.3	+	5	1498	c.697G>T	c.(697-699)GCT>TCT	p.A233S	GPRASP1_uc004eji.3_Missense_Mutation_p.A233S|GPRASP1_uc010nod.2_Missense_Mutation_p.A233S	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	233						cytoplasm	protein binding			ovary(1)|lung(1)	2						CAATCAAGAGGCTAATACCAT	0.463													107	62	---	---	---	---	PASS	T	101909538	T	T	101909538	3	4	60	1	0	0	0	0	1	0	0	0	6722	1203	42	3	699	3	GPRASP1	23	101909538	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	2247865	101909538	53361022	616	23684										
SERPINA7	6906	broad.mit.edu	37	chrX	105279351	105279351	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	gaactgtcttctgtcttggaTggatcaaaaggatttgccca	10	8	4	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:105279351T>C	uc004eme.1	-	2	664	c.648A>G	c.(646-648)CCA>CCG	p.P216P	SERPINA7_uc010npd.2_Silent_p.P216P|SERPINA7_uc010npe.1_Silent_p.P216P	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	216					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	CTGTCTTGGATGGATCAAAAG	0.403													60	39	---	---	---	---	PASS	C	105279351	C	C	105279351	2	2	60	1	0	0	0	0	0	0	0	1	14094	1451	51	5		5	SERPINA7	23	105279351	Silent	SNP	T	TCGA-33-4583-01A-01D-1441-08	3369813	105279351	49991209	617	23685										
DOCK11	139818	broad.mit.edu	37	chrX	117700047	117700047	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tctggctgctgaaactgagcAggaaatggaggaatggttga	15	5	1	3	rs150521474	byFrequency	TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:117700047A>T	uc004eqp.2	+	8	836	c.773A>T	c.(772-774)CAG>CTG	p.Q258L	DOCK11_uc004eqq.2_Missense_Mutation_p.Q24L	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	258	PH.				blood coagulation	cytosol	GTP binding			ovary(3)	3						GAAACTGAGCAGGAAATGGAG	0.398													90	45	---	---	---	---	PASS	T	117700047	T	T	117700047	3	4	60	1	0	0	0	0	1	0	0	0	4686	188	7	5	803	5	DOCK11	23	117700047	Missense_Mutation	SNP	A	TCGA-33-4583-01A-01D-1441-08	12420696	117700047	37570513	618	23686										
OCRL	4952	broad.mit.edu	37	chrX	128709967	128709967	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cctgccatttttctttcatcCctaaacttaatgacagccag	4	13	2	1			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:128709967C>T	uc004euq.2	+	17	1972	c.1807C>T	c.(1807-1809)CCT>TCT	p.P603S	OCRL_uc004eur.2_Missense_Mutation_p.P603S	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	603					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TTCTTTCATCCCTAAACTTAA	0.453													62	31	---	---	---	---	PASS	T	128709967	T	T	128709967	3	4	60	1	0	0	0	0	1	0	0	0	10823	623	22	3	1873	3	OCRL	23	128709967	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	11009920	128709967	26560593	619	23687										
GPR112	139378	broad.mit.edu	37	chrX	135429395	135429395	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aactcaaccaatatctcaagTagaggagacttctacctatg	6	10	3	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:135429395T>C	uc004ezu.1	+	6	3821	c.3530T>C	c.(3529-3531)GTA>GCA	p.V1177A	GPR112_uc010nsb.1_Missense_Mutation_p.V972A|GPR112_uc010nsc.1_Missense_Mutation_p.V944A	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1177	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					ATATCTCAAGTAGAGGAGACT	0.493													98	36	---	---	---	---	PASS	C	135429395	C	C	135429395	3	2	60	1	0	0	0	0	1	0	0	0	6629	1638	57	5	3540	5	GPR112	23	135429395	Missense_Mutation	SNP	T	TCGA-33-4583-01A-01D-1441-08	6719428	135429395	19841165	620	23688										
MAGEC3	139081	broad.mit.edu	37	chrX	140967084	140967084	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	agcagagggaggaaccccagGactggccactcaacgagaag	14	11	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:140967084G>T	uc011mwp.1	+	3	382	c.382G>T	c.(382-384)GAC>TAC	p.D128Y		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	128										skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGAACCCCAGGACTGGCCACT	0.547													5	9	---	---	---	---	PASS	T	140967084	T	T	140967084	3	4	60	1	0	0	0	0	1	0	0	0	9182	1174	41	2	392	2	MAGEC3	23	140967084	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	5537689	140967084	14303476	621	23689										
MAGEC1	9947	broad.mit.edu	37	chrX	140994995	140994995	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	tcctcagagccctcctcaggGggaggactccatgtctcctc	10	16	3	1	rs111723844		TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:140994995G>T	uc004fbt.2	+	4	2091	c.1805G>T	c.(1804-1806)GGG>GTG	p.G602V	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	602							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CCTCCTCAGGGGGAGGACTCC	0.587										HNSCC(15;0.026)			185	116	---	---	---	---	PASS	T	140994995	T	T	140994995	3	4	60	1	0	0	0	0	1	0	0	0	9180	1232	43	3	1811	3	MAGEC1	23	140994995	Missense_Mutation	SNP	G	TCGA-33-4583-01A-01D-1441-08	27911	140994995	14275565	622	23690										
PNCK	139728	broad.mit.edu	37	chrX	152936760	152936760	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	aggatgtaggagatgacgccCagggcccacacatctacggc	13	12	1	2			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:152936760C>A	uc011myu.1	-	7	1029	c.843G>T	c.(841-843)CTG>CTT	p.L281L	PNCK_uc011myt.1_Silent_p.L215L|PNCK_uc004fia.2_Silent_p.L233L|PNCK_uc004fhz.3_Silent_p.L96L|PNCK_uc010nuh.2_3'UTR|PNCK_uc011myv.1_3'UTR|PNCK_uc011myw.1_3'UTR	NM_001039582	NP_001034671	Q6P2M8	KCC1B_HUMAN	pregnancy upregulated non-ubiquitously expressed	198	Protein kinase.					cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGATGACGCCCAGGGCCCACA	0.632													37	10	---	---	---	---	PASS	A	152936760	A	A	152936760	2	1	60	1	0	0	0	0	0	0	0	1	12145	581	21	3		3	PNCK	23	152936760	Silent	SNP	C	TCGA-33-4583-01A-01D-1441-08	11941765	152936760	2333800	623	23691										
IRAK1	3654	broad.mit.edu	37	chrX	153279680	153279680	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	42	0.00555092515804051	1.55174014452971	2.16545747682386	1.23384339686655	0.851914527340792	1	15	cttgcagtgtgctctgggtgCttctcaaagccactccagcc	10	14	2	0			TCGA-33-4583-01A-01D-1441-08	TCGA-33-4583-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb901997-6e46-436f-ad34-74aadc344245	e6b22358-9fe1-4637-b84f-828bacd3320d	g.chrX:153279680C>A	uc004fjs.1	-	11	1431	c.1352G>T	c.(1351-1353)AGC>ATC	p.S451I	IRAK1_uc004fjr.1_Missense_Mutation_p.S451I|IRAK1_uc004fjt.1_Intron|IRAK1_uc010nur.2_Intron|IRAK1_uc004fju.2_Missense_Mutation_p.S477I	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	451	Protein kinase.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|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|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCTCTGGGTGCTTCTCAAAGC	0.597													81	42	---	---	---	---	PASS	A	153279680	A	A	153279680	3	1	60	1	0	0	0	0	1	0	0	0	7821	797	28	3	802	3	IRAK1	23	153279680	Missense_Mutation	SNP	C	TCGA-33-4583-01A-01D-1441-08	342920	153279680	1990880	624	23692										
PLA2G2F	64600	broad.mit.edu	37	chr1	20474835	20474835	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccaactgcagcatctatgaaCcgccccctgaggaggtcacc	9	16	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:20474835C>G	uc009vpp.1	+	5	675	c.577C>G	c.(577-579)CCG>GCG	p.P193A		NM_022819	NP_073730	Q9BZM2	PA2GF_HUMAN	phospholipase A2, group IIF	150					lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|phospholipase A2 activity			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000247)|Lung NSC(340;0.000285)|Breast(348;0.000812)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;8.01e-05)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.000524)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)		CATCTATGAACCGCCCCCTGA	0.622													31	41	---	---	---	---	PASS	G	20474835	G	G	20474835	3	3	61	1	0	0	0	0	1	0	0	0	11999	507	18	4	595	4	PLA2G2F	1	20474835	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08		20474835	228775786	1	23693										
BAI2	576	broad.mit.edu	37	chr1	32201435	32201435	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aacgggcacataccaggacaAtgacggctgcagggcccaca	12	13	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:32201435A>G	uc001btn.2	-	23	3614	c.3260T>C	c.(3259-3261)ATT>ACT	p.I1087T	BAI2_uc001btm.2_5'Flank|BAI2_uc001btp.1_5'UTR|BAI2_uc010ogn.1_Missense_Mutation_p.I90T|BAI2_uc010ogo.1_Missense_Mutation_p.I729T|BAI2_uc010ogp.1_Missense_Mutation_p.I1020T|BAI2_uc010ogq.1_Missense_Mutation_p.I1087T|BAI2_uc001bto.2_Missense_Mutation_p.I1087T	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	1087	Helical; Name=5; (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)		TACCAGGACAATGACGGCTGC	0.637													6	5	---	---	---	---	PASS	G	32201435	G	G	32201435	3	3	61	1	0	0	0	0	1	0	0	0	1299	101	4	5	1541	5	BAI2	1	32201435	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	11726600	32201435	217049186	2	23694										
ZSWIM5	57643	broad.mit.edu	37	chr1	45501739	45501739	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agtaagatgcattgtttttgCagtgtttgcactagctcatc	9	7	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:45501739C>T	uc001cnd.2	-	9	2355	c.2127G>A	c.(2125-2127)CTG>CTA	p.L709L		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	709							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					ATTGTTTTTGCAGTGTTTGCA	0.512													39	49	---	---	---	---	PASS	T	45501739	T	T	45501739	2	4	61	1	0	0	0	0	0	0	0	1	18241	697	25	3		3	ZSWIM5	1	45501739	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	13300304	45501739	203748882	3	23695										
LEPR	3953	broad.mit.edu	37	chr1	66102055	66102055	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aacagatcttgaaaagggttCtgtttgtattagtgaccagt	10	5	2	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:66102055C>G	uc001dci.2	+	20	3057	c.2855C>G	c.(2854-2856)TCT>TGT	p.S952C	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	952	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)		GAAAAGGGTTCTGTTTGTATT	0.398													53	71	---	---	---	---	PASS	G	66102055	G	G	66102055	3	3	61	1	0	0	0	0	1	0	0	0	8728	913	32	2	3155	2	LEPR	1	66102055	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	20600316	66102055	183148566	4	23696										
MCOLN3	55283	broad.mit.edu	37	chr1	85510898	85510898	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gagcccagaacttctcacagGgattcatgaaaaaaaatttg	8	8	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:85510898G>T	uc001dkp.2	-	2	239	c.146C>A	c.(145-147)CCC>CAC	p.P49H	MCOLN3_uc001dkq.2_Missense_Mutation_p.P49H|MCOLN3_uc001dkr.2_Missense_Mutation_p.P49H|MCOLN3_uc001dks.3_5'UTR	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	49						integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		CTTCTCACAGGGATTCATGAA	0.398													30	46	---	---	---	---	PASS	T	85510898	T	T	85510898	3	4	61	1	0	0	0	0	1	0	0	0	9397	1232	43	3	1563	3	MCOLN3	1	85510898	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	19408843	85510898	163739723	5	23697										
COL11A1	1301	broad.mit.edu	37	chr1	103364528	103364528	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tttcaccttgtcttccctctGcacctgcagctccaggagga	8	15	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:103364528G>T	uc001dul.2	-	55	4427	c.4109C>A	c.(4108-4110)GCA>GAA	p.A1370E	COL11A1_uc001duk.2_Missense_Mutation_p.A566E|COL11A1_uc001dum.2_Missense_Mutation_p.A1382E|COL11A1_uc001dun.2_Missense_Mutation_p.A1331E|COL11A1_uc009weh.2_Missense_Mutation_p.A1254E	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1370	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TCTTCCCTCTGCACCTGCAGC	0.264													34	65	---	---	---	---	PASS	T	103364528	T	T	103364528	3	4	61	1	0	0	0	0	1	0	0	0	3667	1319	46	3	1363	3	COL11A1	1	103364528	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	17853630	103364528	145886093	6	23698										
AKNAD1	254268	broad.mit.edu	37	chr1	109380322	109380322	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aatttgaagatttcaccttcCacttttctaagtaaacataa	3	8	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:109380322C>A	uc001dwa.2	-	7	1655	c.1386G>T	c.(1384-1386)GTG>GTT	p.V462V	AKNAD1_uc010ovb.1_Silent_p.V169V|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	462	Potential.									ovary(3)	3						TTTCACCTTCCACTTTTCTAA	0.358													50	65	---	---	---	---	PASS	A	109380322	A	A	109380322	2	1	61	1	0	0	0	0	0	0	0	1	464	581	21	3		3	AKNAD1	1	109380322	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	6015794	109380322	139870299	7	23699										
PEX11B	8799	broad.mit.edu	37	chr1	145522773	145522773	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccccacttctgctagacgtgGtcagaaatgcctgtgatctc	9	13	3	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:145522773G>C	uc001eny.1	+	4	652	c.634G>C	c.(634-636)GTC>CTC	p.V212L	NBPF10_uc001emp.3_Intron|PEX11B_uc010oyu.1_Missense_Mutation_p.V198L|ITGA10_uc001enz.1_5'Flank|ITGA10_uc001eoa.2_5'Flank|ITGA10_uc010oyv.1_5'Flank|ITGA10_uc009wiw.2_5'Flank	NM_003846	NP_003837	O96011	PX11B_HUMAN	peroxisomal biogenesis factor 11 beta	212	Interaction with PEX19 and peroxisome targeting.				peroxisome fission|signal transduction	integral to peroxisomal membrane	protein binding				0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GCTAGACGTGGTCAGAAATGC	0.577													46	140	---	---	---	---	PASS	C	145522773	C	C	145522773	3	2	61	1	0	0	0	0	1	0	0	0	11738	1261	44	4	666	4	PEX11B	1	145522773	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	36142451	145522773	103727848	8	23700										
NBPF14	25832	broad.mit.edu	37	chr1	148004764	148004764	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcctgcaagacttcaggctcTtccacttccatcagcatgct	6	15	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:148004764T>C	uc001eqq.2	-	22	2567	c.2550A>G	c.(2548-2550)GAA>GAG	p.E850E	LOC200030_uc010ozz.1_Intron|LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqf.2_Intron|LOC200030_uc001eqg.2_Intron|FLJ39739_uc001eqo.1_Intron|NBPF14_uc010pab.1_Silent_p.E198E|NBPF14_uc010pac.1_Silent_p.E423E	NM_015383	NP_056198	Q5TI25	NBPFE_HUMAN	hypothetical protein LOC25832	850	NBPF 10.					cytoplasm				ovary(1)	1	all_hematologic(923;0.032)					CTTCAGGCTCTTCCACTTCCA	0.453													78	71	---	---	---	---	PASS	C	148004764	C	C	148004764	2	2	61	1	0	0	0	0	0	0	0	1	10194	1606	56	5		5	NBPF14	1	148004764	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	2481991	148004764	101245857	9	23701										
FLG	2312	broad.mit.edu	37	chr1	152284056	152284056	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccccctgaccagtcacgtgcGgactcttggtggctctgctg	12	15	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:152284056G>A	uc001ezu.1	-	3	3342	c.3306C>T	c.(3304-3306)TCC>TCT	p.S1102S	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1102	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGTCACGTGCGGACTCTTGGT	0.577									Ichthyosis				275	395	---	---	---	---	PASS	A	152284056	A	A	152284056	2	1	61	1	0	0	0	0	0	0	0	1	5922	1103	39	1		1	FLG	1	152284056	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	4279292	152284056	96966565	10	23702										
NUP210L	91181	broad.mit.edu	37	chr1	154090312	154090312	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtggttactatgaccactgtTtcattagaagaagtccaggt	10	7	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:154090312T>A	uc001fdw.2	-	12	1581	c.1509A>T	c.(1507-1509)GAA>GAT	p.E503D	NUP210L_uc009woq.2_5'UTR|NUP210L_uc010peh.1_Missense_Mutation_p.E503D	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	503						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TGACCACTGTTTCATTAGAAG	0.413													47	139	---	---	---	---	PASS	A	154090312	A	A	154090312	3	1	61	1	0	0	0	0	1	0	0	0	10761	1838	64	5	4273	5	NUP210L	1	154090312	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	1806256	154090312	95160309	11	23703										
AQP10	89872	broad.mit.edu	37	chr1	154295502	154295502	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccctggccatgtgcatcgttGgacgcctcccctgggtcaag	12	15	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:154295502G>T	uc001feu.2	+	3	317	c.277G>T	c.(277-279)GGA>TGA	p.G93*	AQP10_uc001fev.2_Nonsense_Mutation_p.G93*|ATP8B2_uc001few.2_5'Flank	NM_080429	NP_536354	Q96PS8	AQP10_HUMAN	aquaporin 10	93	Cytoplasmic (Potential).				response to toxin|transmembrane transport|water transport	integral to membrane|plasma membrane	transporter activity			central_nervous_system(1)	1	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GTGCATCGTTGGACGCCTCCC	0.458													109	152	---	---	---	---	PASS	T	154295502	T	T	154295502	4	4	61	1	0	0	0	0	0	1	0	0	822	1349	47	3	287	3	AQP10	1	154295502	Nonsense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	205190	154295502	94955119	12	23704										
DCST2	127579	broad.mit.edu	37	chr1	154999173	154999173	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agccagtaccttccacggttAgagacaccaacacaggacct	8	14	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:154999173A>T	uc001fgm.2	-	9	1441	c.1361T>A	c.(1360-1362)CTA>CAA	p.L454Q	DCST2_uc009wpb.2_RNA	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	454	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TTCCACGGTTAGAGACACCAA	0.502													30	44	---	---	---	---	PASS	T	154999173	T	T	154999173	3	4	61	1	0	0	0	0	1	0	0	0	4303	420	15	5	988	5	DCST2	1	154999173	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	703671	154999173	94251448	13	23705										
OR10R2	343406	broad.mit.edu	37	chr1	158450135	158450135	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctgcattaccccactcttatGagctggcaggtgtgtggaaa	11	10	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:158450135G>A	uc010pik.1	+	1	468	c.468G>A	c.(466-468)ATG>ATA	p.M156I	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	156	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					CCACTCTTATGAGCTGGCAGG	0.473													8	261	---	---	---	---	PASS	A	158450135	A	A	158450135	3	1	61	1	0	0	0	0	1	0	0	0	10917	1290	45	2	470	2	OR10R2	1	158450135	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	3450962	158450135	90800486	14	23706										
FCRL6	343413	broad.mit.edu	37	chr1	159785346	159785346	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gacagttctatcatctgtgcGgaggtgagatgcctgcagcc	13	10	3	1	rs146819836		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:159785346G>A	uc001fud.3	+	10	1242	c.1200G>A	c.(1198-1200)GCG>GCA	p.A400A	FCRL6_uc001fuc.2_Missense_Mutation_p.G406R|FCRL6_uc009wsz.1_Missense_Mutation_p.G304R|FCRL6_uc009wta.2_Missense_Mutation_p.G390R	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	400	Cytoplasmic (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					TCATCTGTGCGGAGGTGAGAT	0.522													78	97	---	---	---	---	PASS	A	159785346	A	A	159785346	2	1	61	1	0	0	0	0	0	0	0	1	5799	1103	39	1		1	FCRL6	1	159785346	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	1335211	159785346	89465275	15	23707										
ATP1A2	477	broad.mit.edu	37	chr1	160093036	160093036	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agcgggctcaggacgttctgGctcgagatgggcccaacgcc	15	13	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:160093036G>T	uc001fvc.2	+	4	343	c.211G>T	c.(211-213)GCT>TCT	p.A71S	ATP1A2_uc001fvb.2_Missense_Mutation_p.A71S|ATP1A2_uc010piz.1_5'Flank	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	71	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GGACGTTCTGGCTCGAGATGG	0.637													101	105	---	---	---	---	PASS	T	160093036	T	T	160093036	3	4	61	1	0	0	0	0	1	0	0	0	1129	1203	42	3	225	3	ATP1A2	1	160093036	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	307690	160093036	89157585	16	23708										
C1orf111	284680	broad.mit.edu	37	chr1	162344289	162344289	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cctctgggaagtcataggccTccagctggctctctttgtct	10	13	4	0	rs151080283		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:162344289T>G	uc001gbx.2	-	3	399	c.335A>C	c.(334-336)GAG>GCG	p.E112A		NM_182581	NP_872387	Q5T0L3	CA111_HUMAN	hypothetical protein LOC284680	112										ovary(1)	1	all_hematologic(112;0.15)		BRCA - Breast invasive adenocarcinoma(70;0.0938)			GTCATAGGCCTCCAGCTGGCT	0.572													179	218	---	---	---	---	PASS	G	162344289	G	G	162344289	3	3	61	1	0	0	0	0	1	0	0	0	1984	1551	54	5	454	5	C1orf111	1	162344289	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	2251253	162344289	86906332	17	23709										
F5	2153	broad.mit.edu	37	chr1	169511813	169511813	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgtgacatctggctgtagagGatcctctatagggtcttcag	12	8	4	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:169511813G>T	uc001ggg.1	-	13	2660	c.2515C>A	c.(2515-2517)CCT>ACT	p.P839T		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	839	B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	GGCTGTAGAGGATCCTCTATA	0.468													143	211	---	---	---	---	PASS	T	169511813	T	T	169511813	3	4	61	1	0	0	0	0	1	0	0	0	5348	1174	41	2	4211	2	F5	1	169511813	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	7167524	169511813	79738808	18	23710										
TNR	7143	broad.mit.edu	37	chr1	175348687	175348687	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	caagagataggtcttactcaCctgtcagggtggccctggtg	13	10	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:175348687C>A	uc001gkp.1	-	7	2044	c.1963_splice	c.e7+1	p.D655_splice	TNR_uc009wwu.1_Splice_Site_p.D655_splice	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor						axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GTCTTACTCACCTGTCAGGGT	0.537													51	62	---	---	---	---	PASS	A	175348687	A	A	175348687	5	1	61	1	0	0	0	0	0	0	1	0	16335	521	18	3	2172	3	TNR	1	175348687	Splice_Site	SNP	C	TCGA-33-4586-01A-01D-1441-08	5836874	175348687	73901934	19	23711										
PAPPA2	60676	broad.mit.edu	37	chr1	176640161	176640161	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgcagctgaacagtactcacTtcctcaacatctactttgcc	5	14	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:176640161T>A	uc001gkz.2	+	4	3211	c.2047T>A	c.(2047-2049)TTC>ATC	p.F683I	PAPPA2_uc001gky.1_Missense_Mutation_p.F683I|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	683	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CAGTACTCACTTCCTCAACAT	0.512													165	232	---	---	---	---	PASS	A	176640161	A	A	176640161	3	1	61	1	0	0	0	0	1	0	0	0	11433	1609	56	5	2057	5	PAPPA2	1	176640161	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	1291474	176640161	72610460	20	23712										
ASTN1	460	broad.mit.edu	37	chr1	176927505	176927505	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cctccacagcatcctccatcAcagtcatgtccgtcttgcac	5	18	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:176927505A>T	uc001glc.2	-	10	1924	c.1712T>A	c.(1711-1713)GTG>GAG	p.V571E	ASTN1_uc001glb.1_Missense_Mutation_p.V571E|ASTN1_uc001gld.1_Missense_Mutation_p.V571E|ASTN1_uc009wwx.1_Missense_Mutation_p.V571E	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	579					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						ATCCTCCATCACAGTCATGTC	0.532													35	51	---	---	---	---	PASS	T	176927505	T	T	176927505	3	4	61	1	0	0	0	0	1	0	0	0	1064	159	6	5	2232	5	ASTN1	1	176927505	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	287344	176927505	72323116	21	23713										
ASTN1	460	broad.mit.edu	37	chr1	177001749	177001749	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcatagccgtccaggataggTgtctcccggatgctcagggt	13	11	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:177001749T>G	uc001glc.2	-	3	920	c.708A>C	c.(706-708)ACA>ACC	p.T236T	ASTN1_uc001glb.1_Silent_p.T236T|ASTN1_uc001gld.1_Silent_p.T236T|ASTN1_uc009wwx.1_Silent_p.T236T|ASTN1_uc001gle.3_RNA	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	236					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						CCAGGATAGGTGTCTCCCGGA	0.617													33	115	---	---	---	---	PASS	G	177001749	G	G	177001749	2	3	61	1	0	0	0	0	0	0	0	1	1064	1683	59	5		5	ASTN1	1	177001749	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	74244	177001749	72248872	22	23714										
FAM5B	57795	broad.mit.edu	37	chr1	177225213	177225213	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aaatctgattaaaaagtacgGcactcatttcttactttctg	5	8	4	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:177225213G>T	uc001glf.2	+	3	740	c.428G>T	c.(427-429)GGC>GTC	p.G143V	FAM5B_uc010pna.1_5'UTR|FAM5B_uc001glg.2_5'Flank	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	143						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						AAAAAGTACGGCACTCATTTC	0.448											OREG0014006	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	63	71	---	---	---	---	PASS	T	177225213	T	T	177225213	3	4	61	1	0	0	0	0	1	0	0	0	5593	1203	42	3	434	3	FAM5B	1	177225213	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	223464	177225213	72025408	23	23715										
KCNT2	343450	broad.mit.edu	37	chr1	196434448	196434448	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gaagataaggcatagtaatgTagatattaaaatcaaaactt	7	3	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:196434448T>C	uc001gtd.1	-	8	673	c.613A>G	c.(613-615)ACA>GCA	p.T205A	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.T205A|KCNT2_uc001gtf.1_Missense_Mutation_p.T205A|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.T205A|KCNT2_uc009wyv.1_Missense_Mutation_p.T180A	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	205	Helical; Name=Segment S5; (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						CATAGTAATGTAGATATTAAA	0.264													43	157	---	---	---	---	PASS	C	196434448	C	C	196434448	3	2	61	1	0	0	0	0	1	0	0	0	8092	1638	57	5	2878	5	KCNT2	1	196434448	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	19209235	196434448	52816173	24	23716										
CRB1	23418	broad.mit.edu	37	chr1	197403908	197403908	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	caatgggaatattaccagagAactcaccaatatcacatttg	6	9	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:197403908A>G	uc001gtz.2	+	9	3050	c.2915A>G	c.(2914-2916)GAA>GGA	p.E972G	CRB1_uc010poz.1_Missense_Mutation_p.E948G|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.E860G|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.E453G|CRB1_uc001gub.1_Missense_Mutation_p.E621G	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	972	Extracellular (Potential).|Laminin G-like 3.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						ATTACCAGAGAACTCACCAAT	0.323													74	131	---	---	---	---	PASS	G	197403908	G	G	197403908	3	3	61	1	0	0	0	0	1	0	0	0	3848	246	9	5	2949	5	CRB1	1	197403908	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	969460	197403908	51846713	25	23717										
LHX9	56956	broad.mit.edu	37	chr1	197898178	197898178	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	attcagaaggaaccttttgcGgcaggagaatgggggtgttg	16	5	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:197898178G>T	uc001guk.1	+	5	1420	c.983G>T	c.(982-984)CGG>CTG	p.R328L	LHX9_uc001gui.1_Missense_Mutation_p.R319L|LHX9_uc001guj.1_Intron	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	328					motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						AACCTTTTGCGGCAGGAGAAT	0.507													49	48	---	---	---	---	PASS	T	197898178	T	T	197898178	3	4	61	1	0	0	0	0	1	0	0	0	8777	1116	39	1	1033	1	LHX9	1	197898178	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	494270	197898178	51352443	26	23718										
USH2A	7399	broad.mit.edu	37	chr1	216465515	216465515	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	caggaatttatttgctacttAcctgtagtgttatgctcaca	7	8	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:216465515A>T	uc001hku.1	-	10	2227	c.1840_splice	c.e10+1	p.G614_splice	USH2A_uc001hkv.2_Splice_Site_p.G614_splice	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B						maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTTGCTACTTACCTGTAGTGT	0.383										HNSCC(13;0.011)			53	182	---	---	---	---	PASS	T	216465515	T	T	216465515	5	4	61	1	0	0	0	0	0	0	1	0	17033	405	14	5	14032	5	USH2A	1	216465515	Splice_Site	SNP	A	TCGA-33-4586-01A-01D-1441-08	18567337	216465515	32785106	27	23719										
ESRRG	2104	broad.mit.edu	37	chr1	216850647	216850647	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcagaagggtagagaggtggCgagtcaagtccgttctgatg	17	6	2	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:216850647C>A	uc001hkw.1	-	2	409	c.243G>T	c.(241-243)TCG>TCT	p.S81S	ESRRG_uc001hky.1_Silent_p.S58S|ESRRG_uc009xdp.1_Silent_p.S58S|ESRRG_uc001hkz.1_Silent_p.S58S|ESRRG_uc010puc.1_Silent_p.S58S|ESRRG_uc001hla.1_Silent_p.S58S|ESRRG_uc001hlb.1_Silent_p.S58S|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Silent_p.S58S|ESRRG_uc001hld.1_Silent_p.S58S|ESRRG_uc001hkx.1_Silent_p.S86S|ESRRG_uc009xdo.1_Silent_p.S58S|ESRRG_uc001hle.1_Silent_p.S58S	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	81					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding	p.S81L(1)		ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	AGAGAGGTGGCGAGTCAAGTC	0.562													66	105	---	---	---	---	PASS	A	216850647	A	A	216850647	2	1	61	1	0	0	0	0	0	0	0	1	5262	755	27	1		1	ESRRG	1	216850647	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	385132	216850647	32399974	28	23720										
TARBP1	6894	broad.mit.edu	37	chr1	234563324	234563324	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aataatagcatcttttacctTtgatcacgcctaaacacagt	4	10	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:234563324T>C	uc001hwd.2	-	18	3249	c.3249A>G	c.(3247-3249)CAA>CAG	p.Q1083Q		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	1083					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			TCTTTTACCTTTGATCACGCC	0.338													13	54	---	---	---	---	PASS	C	234563324	C	C	234563324	2	2	61	1	0	0	0	0	0	0	0	1	15552	1838	64	5		5	TARBP1	1	234563324	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	17712677	234563324	14687297	29	23721										
RYR2	6262	broad.mit.edu	37	chr1	237617780	237617780	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aagtctgcaggatctcattgGctacttccaccccccagatg	8	14	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:237617780G>T	uc001hyl.1	+	15	1502	c.1382G>T	c.(1381-1383)GGC>GTC	p.G461V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	461	Cytoplasmic (By similarity).				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)			GATCTCATTGGCTACTTCCAC	0.483													29	90	---	---	---	---	PASS	T	237617780	T	T	237617780	3	4	61	1	0	0	0	0	1	0	0	0	13769	1203	42	3	1440	3	RYR2	1	237617780	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	3054456	237617780	11632841	30	23722										
RYR2	6262	broad.mit.edu	37	chr1	237632428	237632428	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aaatcgtaaaaactgtgctcAattttctggctccctcgact	6	11	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:237632428A>C	uc001hyl.1	+	17	1769	c.1649A>C	c.(1648-1650)CAA>CCA	p.Q550P		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	550	Cytoplasmic (By similarity).				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)			AACTGTGCTCAATTTTCTGGC	0.383													33	90	---	---	---	---	PASS	C	237632428	C	C	237632428	3	2	61	1	0	0	0	0	1	0	0	0	13769	130	5	5	1715	5	RYR2	1	237632428	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	14648	237632428	11618193	31	23723										
RYR2	6262	broad.mit.edu	37	chr1	237753131	237753131	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gccttggagtggctcaagtgGgtaggatgaactttggaaag	16	5	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:237753131G>T	uc001hyl.1	+	30	3757	c.3637G>T	c.(3637-3639)GGT>TGT	p.G1213C		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1213	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)			GGCTCAAGTGGGTAGGATGAA	0.393													15	54	---	---	---	---	PASS	T	237753131	T	T	237753131	3	4	61	1	0	0	0	0	1	0	0	0	13769	1232	43	3	3755	3	RYR2	1	237753131	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	120703	237753131	11497490	32	23724										
CHRM3	1131	broad.mit.edu	37	chr1	240071955	240071955	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agctggggatggtggacttgGagaggaaagccgacaagctg	18	6	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:240071955G>T	uc001hyp.2	+	5	1983	c.1204G>T	c.(1204-1206)GAG>TAG	p.E402*		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	402	Cytoplasmic (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	GGTGGACTTGGAGAGGAAAGC	0.572													11	23	---	---	---	---	PASS	T	240071955	T	T	240071955	4	4	61	1	0	0	0	0	0	1	0	0	3378	1175	41	2	1206	2	CHRM3	1	240071955	Nonsense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	2318824	240071955	9178666	33	23725										
FMN2	56776	broad.mit.edu	37	chr1	240256749	240256749	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccccaggatcaagaggcggcCggaaccctccctgagccgag	13	16	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:240256749C>A	uc010pyd.1	+	1	1565	c.1340C>A	c.(1339-1341)CCG>CAG	p.P447Q	FMN2_uc010pye.1_Missense_Mutation_p.P447Q	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	447					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AAGAGGCGGCCGGAACCCTCC	0.687													38	65	---	---	---	---	PASS	A	240256749	A	A	240256749	3	1	61	1	0	0	0	0	1	0	0	0	5950	652	23	1	1342	1	FMN2	1	240256749	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	184794	240256749	8993872	34	23726										
RGS7	6000	broad.mit.edu	37	chr1	241099906	241099906	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tctaataaacttacttgaaaCcggtaaaaggtgccatcatc	6	9	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:241099906C>G	uc001hyv.2	-	5	657	c.327G>C	c.(325-327)CGG>CGC	p.R109R	RGS7_uc010pyh.1_Silent_p.R83R|RGS7_uc010pyj.1_Silent_p.R25R|RGS7_uc001hyu.2_Silent_p.R109R|RGS7_uc009xgn.1_Intron|RGS7_uc001hyw.2_Silent_p.R109R	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	109	DEP.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			TTACTTGAAACCGGTAAAAGG	0.393													20	129	---	---	---	---	PASS	G	241099906	G	G	241099906	2	3	61	1	0	0	0	0	0	0	0	1	13310	494	18	4		4	RGS7	1	241099906	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	843157	241099906	8150715	35	23727										
NLRP3	114548	broad.mit.edu	37	chr1	247582221	247582221	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gaagggctgcatccccctccCgaggggtcagacagagaagg	15	12	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:247582221C>A	uc001icr.2	+	3	263	c.125C>A	c.(124-126)CCG>CAG	p.P42Q	NLRP3_uc001ics.2_Missense_Mutation_p.P42Q|NLRP3_uc001icu.2_Missense_Mutation_p.P42Q|NLRP3_uc001icw.2_Missense_Mutation_p.P42Q|NLRP3_uc001icv.2_Missense_Mutation_p.P42Q|NLRP3_uc010pyw.1_Missense_Mutation_p.P40Q|NLRP3_uc001ict.1_Missense_Mutation_p.P40Q	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	42	DAPIN.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			ATCCCCCTCCCGAGGGGTCAG	0.557													28	29	---	---	---	---	PASS	A	247582221	A	A	247582221	3	1	61	1	0	0	0	0	1	0	0	0	10478	652	23	1	127	1	NLRP3	1	247582221	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	6482315	247582221	1668400	36	23728										
OR2W5	441932	broad.mit.edu	37	chr1	247655125	247655125	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gctgaggatgaagtcagcagCagggcgaaagaaagccttcc	14	9	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:247655125C>A	uc001icz.1	+	1	696	c.696C>A	c.(694-696)AGC>AGA	p.S232R		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	232					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			AAGTCAGCAGCAGGGCGAAAG	0.582													99	148	---	---	---	---	PASS	A	247655125	A	A	247655125	3	1	61	1	0	0	0	0	1	0	0	0	11034	709	25	3	698	3	OR2W5	1	247655125	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	72904	247655125	1595496	37	23729										
OR6F1	343169	broad.mit.edu	37	chr1	247875325	247875325	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccaaatgagcaccacggtgaGatgcgaggagcacgtggaga	15	9	0	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:247875325G>T	uc001idj.1	-	1	733	c.733C>A	c.(733-735)CTC>ATC	p.L245I		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			ACCACGGTGAGATGCGAGGAG	0.532													92	105	---	---	---	---	PASS	T	247875325	T	T	247875325	3	4	61	1	0	0	0	0	1	0	0	0	11201	942	33	2	197	2	OR6F1	1	247875325	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	220200	247875325	1375296	38	23730										
OR2AK2	391191	broad.mit.edu	37	chr1	248129572	248129572	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctgagaaataaggaagtgacGggggcagtgaggagactgtt	17	4	0	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:248129572G>T	uc010pzd.1	+	1	939	c.939G>T	c.(937-939)ACG>ACT	p.T313T	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	313	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			AGGAAGTGACGGGGGCAGTGA	0.433													53	90	---	---	---	---	PASS	T	248129572	T	T	248129572	2	4	61	1	0	0	0	0	0	0	0	1	10986	1103	39	1		1	OR2AK2	1	248129572	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	254247	248129572	1121049	39	23731										
OR2L2	26246	broad.mit.edu	37	chr1	248202388	248202388	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccaacagaggacaagattctGgctgttttctacaccatcct	7	12	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:248202388G>T	uc001idw.2	+	1	915	c.819G>T	c.(817-819)CTG>CTT	p.L273L	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	273	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			ACAAGATTCTGGCTGTTTTCT	0.493													78	99	---	---	---	---	PASS	T	248202388	T	T	248202388	2	4	61	1	0	0	0	0	0	0	0	1	11007	1335	47	3		3	OR2L2	1	248202388	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	72816	248202388	1048233	40	23732										
OR2T4	127074	broad.mit.edu	37	chr1	248525408	248525408	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	accatagggtgtgtctcttcCtgtcatcaggctgctggttc	11	11	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:248525408C>A	uc001ieh.1	+	1	526	c.526C>A	c.(526-528)CTG>ATG	p.L176M		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	176	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GTGTCTCTTCCTGTCATCAGG	0.532													85	294	---	---	---	---	PASS	A	248525408	A	A	248525408	3	1	61	1	0	0	0	0	1	0	0	0	11027	680	24	3	528	3	OR2T4	1	248525408	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	323020	248525408	725213	41	23733										
OR2T4	127074	broad.mit.edu	37	chr1	248525824	248525824	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtcttctataccatcctcacTccagtggtgaaccctttaat	5	13	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:248525824T>A	uc001ieh.1	+	1	942	c.942T>A	c.(940-942)ACT>ACA	p.T314T		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	314	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCATCCTCACTCCAGTGGTGA	0.468													75	230	---	---	---	---	PASS	A	248525824	A	A	248525824	2	1	61	1	0	0	0	0	0	0	0	1	11027	1538	54	5		5	OR2T4	1	248525824	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	416	248525824	724797	42	23734										
OR2T34	127068	broad.mit.edu	37	chr1	248737519	248737519	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggagtctcacagaaaaaactCaggattttcctagactggca	9	9	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:248737519C>A	uc001iep.1	-	1	540	c.540G>T	c.(538-540)CTG>CTT	p.L180L		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AGAAAAAACTCAGGATTTTCC	0.512													31	160	---	---	---	---	PASS	A	248737519	A	A	248737519	2	1	61	1	0	0	0	0	0	0	0	1	11025	813	29	2		2	OR2T34	1	248737519	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	211695	248737519	513102	43	23735										
GREB1	9687	broad.mit.edu	37	chr2	11767094	11767094	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggaatttggtgcagacagagGgatgtcccggaagccggagg	18	7	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:11767094G>A	uc002rbk.1	+	25	4613	c.4313G>A	c.(4312-4314)GGG>GAG	p.G1438E	GREB1_uc002rbp.1_Missense_Mutation_p.G436E	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1438						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)		GCAGACAGAGGGATGTCCCGG	0.517													24	54	---	---	---	---	PASS	A	11767094	A	A	11767094	3	1	61	1	0	0	0	0	1	0	0	0	6760	1232	43	3	4515	3	GREB1	2	11767094	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08		11767094	231432279	44	23736										
LPIN1	23175	broad.mit.edu	37	chr2	11927241	11927241	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgtcatatcaacagtttgtgGacaaccccgctattatcgat	7	10	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:11927241G>A	uc010yjn.1	+	11	1757	c.1483G>A	c.(1483-1485)GAC>AAC	p.D495N	LPIN1_uc010yjm.1_Missense_Mutation_p.D580N|LPIN1_uc002rbt.2_Missense_Mutation_p.D495N|LPIN1_uc010yjo.1_5'UTR	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	495					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		ACAGTTTGTGGACAACCCCGC	0.408													47	108	---	---	---	---	PASS	A	11927241	A	A	11927241	3	1	61	1	0	0	0	0	1	0	0	0	8918	1174	41	2	1517	2	LPIN1	2	11927241	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	160147	11927241	231272132	45	23737										
PREB	10113	broad.mit.edu	37	chr2	27355472	27355472	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccacccaaagtcttcacaccTgcaggcctggtagcggtaag	10	14	2	0	rs142871408		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:27355472T>G	uc002rix.1	-	5	1004	c.751A>C	c.(751-753)AGG>CGG	p.R251R	PREB_uc002riy.1_Silent_p.R179R|PREB_uc002riz.1_RNA|PREB_uc002rja.1_Missense_Mutation_p.S251R	NM_013388	NP_037520	Q9HCU5	PREB_HUMAN	prolactin regulatory element binding protein	251	Cytoplasmic (Potential).				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|nucleus	DNA binding|guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCTTCACACCTGCAGGCCTGG	0.567													8	51	---	---	---	---	PASS	G	27355472	G	G	27355472	2	3	61	1	0	0	0	0	0	0	0	1	12470	1594	55	5		5	PREB	2	27355472	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	15428231	27355472	215843901	46	23738										
UCN	7349	broad.mit.edu	37	chr2	27530406	27530406	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccatcacttgcccaccgagtCgaatatgatgcggttctgct	9	13	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:27530406C>A	uc002rjp.1	-	2	474	c.358G>T	c.(358-360)GAC>TAC	p.D120Y		NM_003353	NP_003344	P55089	UCN1_HUMAN	urocortin preproprotein	120						extracellular region	neuropeptide hormone activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCACCGAGTCGAATATGATG	0.647													13	46	---	---	---	---	PASS	A	27530406	A	A	27530406	3	1	61	1	0	0	0	0	1	0	0	0	16924	884	31	2	20	2	UCN	2	27530406	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	174934	27530406	215668967	47	23739										
STRN	6801	broad.mit.edu	37	chr2	37121150	37121150	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtatctcgatcttcaccgctGtcaggcaatgcttttttcct	7	12	4	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:37121150G>C	uc002rpn.2	-	7	831	c.822C>G	c.(820-822)GAC>GAG	p.D274E	STRN_uc010ezx.2_Missense_Mutation_p.D274E	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	274					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)				CTTCACCGCTGTCAGGCAATG	0.353													30	143	---	---	---	---	PASS	C	37121150	C	C	37121150	3	2	61	1	0	0	0	0	1	0	0	0	15328	1368	48	4	1568	4	STRN	2	37121150	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	9590744	37121150	206078223	48	23740										
SIX3	6496	broad.mit.edu	37	chr2	45169617	45169617	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccccggggcgtgcgaggccaTcaacaaacacgagtcgatcc	12	15	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:45169617T>C	uc002run.1	+	1	581	c.374T>C	c.(373-375)ATC>ACC	p.I125T		NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3	125					visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TGCGAGGCCATCAACAAACAC	0.672													8	15	---	---	---	---	PASS	C	45169617	C	C	45169617	3	2	61	1	0	0	0	0	1	0	0	0	14348	1435	50	5	376	5	SIX3	2	45169617	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	8048467	45169617	198029756	49	23741										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48873622	48873622	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	taaagtcaatgtaccaattaTggtgacagagacttctggaa	9	6	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:48873622T>C	uc010yol.1	+	5	2437	c.2390T>C	c.(2389-2391)ATG>ACG	p.M797T	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.M844T|GTF2A1L_uc002rws.1_Missense_Mutation_p.M140T|GTF2A1L_uc010yom.1_Missense_Mutation_p.M106T|GTF2A1L_uc002rwt.2_Missense_Mutation_p.M140T	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	797					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GTACCAATTATGGTGACAGAG	0.353													27	90	---	---	---	---	PASS	C	48873622	C	C	48873622	3	2	61	1	0	0	0	0	1	0	0	0	15316	1464	51	5	2557	5	STON1-GTF2A1L	2	48873622	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	3704005	48873622	194325751	50	23742										
C2orf86	51057	broad.mit.edu	37	chr2	63631375	63631375	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	taagcggtcttcagccaacaGttggatgttaataggggata	12	6	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:63631375G>A	uc002sch.2	-	10	1689	c.1243C>T	c.(1243-1245)CTG>TTG	p.L415L	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Silent_p.L256L|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Silent_p.L223L|C2orf86_uc002sci.1_Silent_p.L391L|C2orf86_uc010fcr.1_Silent_p.L305L	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	415					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						TCAGCCAACAGTTGGATGTTA	0.453													18	99	---	---	---	---	PASS	A	63631375	A	A	63631375	2	1	61	1	0	0	0	0	0	0	0	1	2201	1020	36	3		3	C2orf86	2	63631375	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	14757753	63631375	179567998	51	23743										
TACR1	6869	broad.mit.edu	37	chr2	75276594	75276594	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggaggagaagctgaagctctCtgtcatggtcttggagtcac	14	8	4	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:75276594C>A	uc002sng.2	-	5	1774	c.1189G>T	c.(1189-1191)GAG>TAG	p.E397*		NM_001058	NP_001049	P25103	NK1R_HUMAN	tachykinin receptor 1 isoform long	397	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|detection of abiotic stimulus|mechanosensory behavior	integral to plasma membrane	protein binding			ovary(1)	1					Aprepitant(DB00673)|Ketamine(DB01221)|Vapreotide(DB04894)	CTGAAGCTCTCTGTCATGGTC	0.607													10	82	---	---	---	---	PASS	A	75276594	A	A	75276594	4	1	61	1	0	0	0	0	0	1	0	0	15502	922	32	2	38	2	TACR1	2	75276594	Nonsense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	11645219	75276594	167922779	52	23744										
REG3A	5068	broad.mit.edu	37	chr2	79385494	79385494	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atccagacgtatgagtagctGttaccaatgctcttcaccag	8	11	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:79385494G>C	uc002sod.1	-	3	546	c.291C>G	c.(289-291)AAC>AAG	p.N97K	REG3A_uc002soe.1_Missense_Mutation_p.N97K|REG3A_uc002sof.1_Missense_Mutation_p.N97K	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	97	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						ATGAGTAGCTGTTACCAATGC	0.572													15	62	---	---	---	---	PASS	C	79385494	C	C	79385494	3	2	61	1	0	0	0	0	1	0	0	0	13212	1368	48	4	248	4	REG3A	2	79385494	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	4108900	79385494	163813879	53	23745										
REG3A	5068	broad.mit.edu	37	chr2	79385570	79385570	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cagacaccaggtttccagagGgccgcttctggcaggccagc	13	14	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:79385570G>T	uc002sod.1	-	3	470	c.215C>A	c.(214-216)CCC>CAC	p.P72H	REG3A_uc002soe.1_Missense_Mutation_p.P72H|REG3A_uc002sof.1_Missense_Mutation_p.P72H	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	72	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						GTTTCCAGAGGGCCGCTTCTG	0.582													11	64	---	---	---	---	PASS	T	79385570	T	T	79385570	3	4	61	1	0	0	0	0	1	0	0	0	13212	1232	43	3	324	3	REG3A	2	79385570	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	76	79385570	163813803	54	23746										
RMND5A	64795	broad.mit.edu	37	chr2	86947815	86947815	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atcagtgcgtgacggtggagCgcgagctggagaaggtgctg	19	7	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:86947815C>T	uc010ytm.1	+	1	402	c.25C>T	c.(25-27)CGC>TGC	p.R9C	RMND5A_uc002srs.3_5'UTR|VPS24_uc010ytl.1_Intron|RMND5A_uc002srr.2_Missense_Mutation_p.R9C	NM_022780	NP_073617	Q9H871	RMD5A_HUMAN	required for meiotic nuclear division 5 homolog	9										ovary(1)|skin(1)	2						GACGGTGGAGCGCGAGCTGGA	0.716													4	4	---	---	---	---	PASS	T	86947815	T	T	86947815	3	4	61	1	0	0	0	0	1	0	0	0	13397	768	27	1	27	1	RMND5A	2	86947815	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	7562245	86947815	156251558	55	23747										
ZNF514	84874	broad.mit.edu	37	chr2	95815218	95815218	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtaaggtttctctccagtatGaaatctgtaatgcacaatga	8	7	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:95815218G>A	uc002sue.1	-	5	1386	c.1012C>T	c.(1012-1014)CAT>TAT	p.H338Y	ZNF514_uc002sud.1_Missense_Mutation_p.H411Y	NM_032788	NP_116177	Q96K75	ZN514_HUMAN	zinc finger protein 514	338	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTCCAGTATGAAATCTGTAA	0.438													32	53	---	---	---	---	PASS	A	95815218	A	A	95815218	3	1	61	1	0	0	0	0	1	0	0	0	17956	1290	45	2	194	2	ZNF514	2	95815218	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	8867403	95815218	147384155	56	23748										
LOC285033	285033	broad.mit.edu	37	chr2	96906157	96906157	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cgaattcaaaaactcctcatGgaagcatctgtttttgtcat	6	9	4	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:96906157G>T	uc002svp.1	+	1	181	c.96G>T	c.(94-96)ATG>ATT	p.M32I	LOC285033_uc002svn.2_RNA|LOC285033_uc002svo.2_Intron	NM_001037228	NP_001032305	Q3KRF4	Q3KRF4_HUMAN	hypothetical protein LOC285033	32											0						AACTCCTCATGGAAGCATCTG	0.443													28	65	---	---	---	---	PASS	T	96906157	T	T	96906157	3	4	61	1	0	0	0	0	1	0	0	0	8873	1348	47	3	98	3	LOC285033	2	96906157	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	1090939	96906157	146293216	57	23749										
SNRNP200	23020	broad.mit.edu	37	chr2	96961333	96961333	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gatctgagtggcactgatctCttctttgcacagctggtggt	12	9	3	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:96961333C>T	uc002svu.2	-	14	1821	c.1735G>A	c.(1735-1737)GAG>AAG	p.E579K		NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	579	Helicase ATP-binding 1.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						GCACTGATCTCTTCTTTGCAC	0.567													33	52	---	---	---	---	PASS	T	96961333	T	T	96961333	3	4	61	1	0	0	0	0	1	0	0	0	14852	922	32	2	4803	2	SNRNP200	2	96961333	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	55176	96961333	146238040	58	23750										
ZAP70	7535	broad.mit.edu	37	chr2	98351892	98351892	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggagatggctgggggcgggcCgctgcacaagttcctggtcg	19	10	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:98351892C>A	uc002syd.1	+	10	1469	c.1262C>A	c.(1261-1263)CCG>CAG	p.P421Q	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Missense_Mutation_p.P311Q|ZAP70_uc002syf.1_Missense_Mutation_p.P114Q	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	421	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						GGGGGCGGGCCGCTGCACAAG	0.682													35	63	---	---	---	---	PASS	A	98351892	A	A	98351892	3	1	61	1	0	0	0	0	1	0	0	0	17511	652	23	1	1292	1	ZAP70	2	98351892	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	1390559	98351892	144847481	59	23751										
SLC9A4	389015	broad.mit.edu	37	chr2	103142801	103142801	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gacacaagggctgctgggttCtcaggtaagctgcccacctg	13	12	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:103142801C>A	uc002tbz.3	+	11	2491	c.2034C>A	c.(2032-2034)TTC>TTA	p.F678L		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	678	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						CTGCTGGGTTCTCAGGTAAGC	0.388													12	139	---	---	---	---	PASS	A	103142801	A	A	103142801	3	1	61	1	0	0	0	0	1	0	0	0	14716	912	32	2	2076	2	SLC9A4	2	103142801	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	4790909	103142801	140056572	60	23752										
POTEE	445582	broad.mit.edu	37	chr2	132020969	132020969	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gaaaaagacgtcttgcatgaAaatagtacgttgcgggaaga	12	5	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:132020969A>T	uc002tsn.2	+	15	1993	c.1941A>T	c.(1939-1941)GAA>GAT	p.E647D	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.E247D|POTEE_uc002tsl.2_Missense_Mutation_p.E229D|POTEE_uc010fmy.1_Missense_Mutation_p.E111D	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	647	Potential.						ATP binding				0						TCTTGCATGAAAATAGTACGT	0.353													14	30	---	---	---	---	PASS	T	132020969	T	T	132020969	3	4	61	1	0	0	0	0	1	0	0	0	12264	11	1	5	1999	5	POTEE	2	132020969	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	28878168	132020969	111178404	61	23753										
ZRANB3	84083	broad.mit.edu	37	chr2	135988481	135988481	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aaaatgatcgaatatcatgcTgtttttctttttcgaactag	6	6	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:135988481T>C	uc002tum.2	-	13	1673	c.1556A>G	c.(1555-1557)CAG>CGG	p.Q519R	ZRANB3_uc002tuk.2_Missense_Mutation_p.Q62R|ZRANB3_uc002tul.2_Missense_Mutation_p.Q519R	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	519						intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		AATATCATGCTGTTTTTCTTT	0.323													31	33	---	---	---	---	PASS	C	135988481	C	C	135988481	3	2	61	1	0	0	0	0	1	0	0	0	18221	1580	55	5	1719	5	ZRANB3	2	135988481	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	3967512	135988481	107210892	62	23754										
THSD7B	80731	broad.mit.edu	37	chr2	138169316	138169316	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttcttccagaaggcagaaggGagcctcaccgaggactgcgg	14	11	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:138169316G>A	uc002tva.1	+	13	2740	c.2740G>A	c.(2740-2742)GAG>AAG	p.E914K	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.E804K	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AGGCAGAAGGGAGCCTCACCG	0.478													23	140	---	---	---	---	PASS	A	138169316	A	A	138169316	3	1	61	1	0	0	0	0	1	0	0	0	15877	1175	41	2	2790	2	THSD7B	2	138169316	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	2180835	138169316	105030057	63	23755										
RIF1	55183	broad.mit.edu	37	chr2	152314451	152314451	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gccacttttgccaaagtgatGatgttggtttatcctgaaga	10	7	0	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:152314451G>A	uc002txm.2	+	24	2959	c.2829G>A	c.(2827-2829)ATG>ATA	p.M943I	RIF1_uc002txl.2_Missense_Mutation_p.M943I|RIF1_uc002txn.2_Missense_Mutation_p.M943I|RIF1_uc002txo.2_Missense_Mutation_p.M943I	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	943					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		CCAAAGTGATGATGTTGGTTT	0.323													18	58	---	---	---	---	PASS	A	152314451	A	A	152314451	3	1	61	1	0	0	0	0	1	0	0	0	13359	1290	45	2	2919	2	RIF1	2	152314451	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	14145135	152314451	90884922	64	23756										
RBMS1	5937	broad.mit.edu	37	chr2	161223842	161223842	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gctactgctgctactgttgtTattactgctggtggtgctgg	13	8	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:161223842T>C	uc002ubo.2	-	2	580	c.136A>G	c.(136-138)AAC>GAC	p.N46D	RBMS1_uc002ubj.2_Missense_Mutation_p.N13D|RBMS1_uc002ubk.2_Missense_Mutation_p.N13D|RBMS1_uc002ubl.2_Missense_Mutation_p.N44D|RBMS1_uc002ubn.2_Missense_Mutation_p.N46D|RBMS1_uc002ubi.3_Missense_Mutation_p.N46D|RBMS1_uc002ubm.2_Missense_Mutation_p.N13D|RBMS1_uc002ubp.2_Missense_Mutation_p.N46D|RBMS1_uc010fox.2_Missense_Mutation_p.N46D	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	46					DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						ctactgttgttattactgctg	0.443													34	48	---	---	---	---	PASS	C	161223842	C	C	161223842	3	2	61	1	0	0	0	0	1	0	0	0	13148	1754	61	5	1132	5	RBMS1	2	161223842	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	8909391	161223842	81975531	65	23757										
SCN2A	6326	broad.mit.edu	37	chr2	166183402	166183402	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aataagaaagagacggtccaGttcttatcatgtttccatgg	9	7	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:166183402G>T	uc002udc.2	+	13	2347	c.2057G>T	c.(2056-2058)AGT>ATT	p.S686I	SCN2A_uc002udd.2_Missense_Mutation_p.S686I|SCN2A_uc002ude.2_Missense_Mutation_p.S686I	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	686					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	AGACGGTCCAGTTCTTATCAT	0.378													24	160	---	---	---	---	PASS	T	166183402	T	T	166183402	3	4	61	1	0	0	0	0	1	0	0	0	13916	1029	36	3	2199	3	SCN2A	2	166183402	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	4959560	166183402	77015971	66	23758										
LRP2	4036	broad.mit.edu	37	chr2	170011089	170011089	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttcgaattcggacattgtcaGgcagtagcaacaaaggagag	12	7	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:170011089G>A	uc002ues.2	-	66	12389	c.12176C>T	c.(12175-12177)CCT>CTT	p.P4059L		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4059	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GACATTGTCAGGCAGTAGCAA	0.353													38	46	---	---	---	---	PASS	A	170011089	A	A	170011089	3	1	61	1	0	0	0	0	1	0	0	0	8956	1000	35	3	1847	3	LRP2	2	170011089	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	3827687	170011089	73188284	67	23759										
LRP2	4036	broad.mit.edu	37	chr2	170022552	170022552	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggaaacggtttggtgaattaCagggaacatccactgaaagg	13	6	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:170022552C>T	uc002ues.2	-	62	11861	c.11648G>A	c.(11647-11649)TGT>TAT	p.C3883Y		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3883	LDL-receptor class A 35.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TGGTGAATTACAGGGAACATC	0.408													48	60	---	---	---	---	PASS	T	170022552	T	T	170022552	3	4	61	1	0	0	0	0	1	0	0	0	8956	478	17	3	2391	3	LRP2	2	170022552	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	11463	170022552	73176821	68	23760										
MYO3B	140469	broad.mit.edu	37	chr2	171509592	171509592	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcagcccacccttcctttttTtcttcatcctcaaaaggaga	4	14	4	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:171509592T>C	uc002ufy.2	+	35	4130	c.3987T>C	c.(3985-3987)TTT>TTC	p.F1329F	MYO3B_uc002ufz.2_Silent_p.F1302F|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA|uc002ugc.1_Intron	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	1329					response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						CTTCCTTTTTTTCTTCATCCT	0.418													15	163	---	---	---	---	PASS	C	171509592	C	C	171509592	2	2	61	1	0	0	0	0	0	0	0	1	10077	1838	64	5		5	MYO3B	2	171509592	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	1487040	171509592	71689781	69	23761										
NFE2L2	4780	broad.mit.edu	37	chr2	178098960	178098960	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttctcgacttactccaagatCtatatcttgcctccaaagta	4	12	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:178098960C>A	uc002ulh.3	-	2	640	c.85G>T	c.(85-87)GAT>TAT	p.D29Y	NFE2L2_uc002ulg.3_Missense_Mutation_p.D13Y|NFE2L2_uc010zfa.1_Missense_Mutation_p.D13Y|NFE2L2_uc002uli.3_Missense_Mutation_p.D13Y|NFE2L2_uc010fra.2_Missense_Mutation_p.D13Y|NFE2L2_uc010frb.2_Missense_Mutation_p.D13Y	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	29					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			ACTCCAAGATCTATATCTTGC	0.363			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			22	44	---	---	---	---	PASS	A	178098960	A	A	178098960	3	1	61	1	0	0	0	0	1	0	0	0	10368	913	32	2	1748	2	NFE2L2	2	178098960	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	6589368	178098960	65100413	70	23762										
TTN	7273	broad.mit.edu	37	chr2	179402140	179402140	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gctggactttgtatttcccaGcatgagtcttacgttggaca	10	9	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:179402140G>T	uc010zfg.1	-	304	92314	c.92090C>A	c.(92089-92091)GCT>GAT	p.A30697D	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A24392D|TTN_uc010zfi.1_Missense_Mutation_p.A24325D|TTN_uc010zfj.1_Missense_Mutation_p.A24200D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31624							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)			GTATTTCCCAGCATGAGTCTT	0.353													18	31	---	---	---	---	PASS	T	179402140	T	T	179402140	3	4	61	1	0	0	0	0	1	0	0	0	16732	971	34	3	8217	3	TTN	2	179402140	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	1303180	179402140	63797233	71	23763										
TTN	7273	broad.mit.edu	37	chr2	179614327	179614327	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gctgatctctggaatattttCcataaatttcaccaatattt	4	8	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:179614327C>A	uc002unb.2	-	46	13024	c.12800G>T	c.(12799-12801)GGA>GTA	p.G4267V	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			GGAATATTTTCCATAAATTTC	0.388													22	98	---	---	---	---	PASS	A	179614327	A	A	179614327	3	1	61	1	0	0	0	0	1	0	0	0	16732	855	30	2	97497	2	TTN	2	179614327	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	212187	179614327	63585046	72	23764										
TTN	7273	broad.mit.edu	37	chr2	179644883	179644883	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgaacaaatgcagtcacttgTgtctgataaagcatttcttg	8	7	3	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:179644883T>C	uc010zfg.1	-	22	3797	c.3573A>G	c.(3571-3573)ACA>ACG	p.T1191T	TTN_uc010zfh.1_Silent_p.T1145T|TTN_uc010zfi.1_Silent_p.T1145T|TTN_uc010zfj.1_Silent_p.T1145T|TTN_uc002unb.2_Silent_p.T1191T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1191							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)			CAGTCACTTGTGTCTGATAAA	0.303													16	99	---	---	---	---	PASS	C	179644883	C	C	179644883	2	2	61	1	0	0	0	0	0	0	0	1	16732	1683	59	5		5	TTN	2	179644883	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	30556	179644883	63554490	73	23765										
CCDC141	285025	broad.mit.edu	37	chr2	179720202	179720202	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	caaaaggacattaactttatCacttggataatttaagaaag	6	5	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:179720202C>A	uc002unf.1	-	9	1264	c.1207G>T	c.(1207-1209)GAT>TAT	p.D403Y		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	403							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			TTAACTTTATCACTTGGATAA	0.308													34	60	---	---	---	---	PASS	A	179720202	A	A	179720202	3	1	61	1	0	0	0	0	1	0	0	0	2775	826	29	2	1440	2	CCDC141	2	179720202	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	75319	179720202	63479171	74	23766										
CWC22	57703	broad.mit.edu	37	chr2	180815461	180815461	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atgctcccgcagttcatcccTaatttaaaatataatctgtt	4	10	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:180815461T>C	uc010frh.1	-	19	2220	c.1920_splice	c.e19-1	p.T640_splice	CWC22_uc002uno.2_Splice_Site_p.T162_splice|CWC22_uc002unp.2_Splice_Site_p.T640_splice	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog							catalytic step 2 spliceosome	protein binding|RNA binding				0						AGTTCATCCCTAATTTAAAAT	0.343													17	76	---	---	---	---	PASS	C	180815461	C	C	180815461	5	2	61	1	0	0	0	0	0	0	1	0	4068	1536	53	5	816	5	CWC22	2	180815461	Splice_Site	SNP	T	TCGA-33-4586-01A-01D-1441-08	1095259	180815461	62383912	75	23767										
DNAH7	56171	broad.mit.edu	37	chr2	196851843	196851843	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttagctagaagtttcccacaAataatatctgctcgcttcac	5	11	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:196851843A>G	uc002utj.3	-	14	1802	c.1701T>C	c.(1699-1701)ATT>ATC	p.I567I		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	567	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GTTTCCCACAAATAATATCTG	0.328													48	72	---	---	---	---	PASS	G	196851843	G	G	196851843	2	3	61	1	0	0	0	0	0	0	0	1	4606	10	1	5		5	DNAH7	2	196851843	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	16036382	196851843	46347530	76	23768										
PLCL1	5334	broad.mit.edu	37	chr2	198950673	198950673	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tggggatgagtttatagggcAatatacgataccatttgaat	11	4	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:198950673A>T	uc010fsp.2	+	2	2723	c.2432A>T	c.(2431-2433)CAA>CTA	p.Q811L	PLCL1_uc002uuv.3_Missense_Mutation_p.Q732L	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	811	C2.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TTTATAGGGCAATATACGATA	0.438													60	76	---	---	---	---	PASS	T	198950673	T	T	198950673	3	4	61	1	0	0	0	0	1	0	0	0	12039	130	5	5	2438	5	PLCL1	2	198950673	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	2098830	198950673	44248700	77	23769										
FN1	2335	broad.mit.edu	37	chr2	216272842	216272842	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttagctgacctgtgatgggaGcctggggtctgctccagcga	15	10	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:216272842G>T	uc002vfa.2	-	17	2773	c.2507C>A	c.(2506-2508)GCT>GAT	p.A836D	FN1_uc002vfb.2_Missense_Mutation_p.A836D|FN1_uc002vfc.2_Missense_Mutation_p.A836D|FN1_uc002vfd.2_Missense_Mutation_p.A836D|FN1_uc002vfe.2_Missense_Mutation_p.A836D|FN1_uc002vff.2_Missense_Mutation_p.A836D|FN1_uc002vfg.2_Missense_Mutation_p.A836D|FN1_uc002vfh.2_Missense_Mutation_p.A836D|FN1_uc002vfi.2_Missense_Mutation_p.A836D|FN1_uc002vfj.2_Missense_Mutation_p.A836D	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	836	Fibronectin type-III 3.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGTGATGGGAGCCTGGGGTCT	0.532													20	169	---	---	---	---	PASS	T	216272842	T	T	216272842	3	4	61	1	0	0	0	0	1	0	0	0	5962	971	34	3	5046	3	FN1	2	216272842	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	17322169	216272842	26926531	78	23770										
FN1	2335	broad.mit.edu	37	chr2	216293051	216293051	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gatgtccttgtgtcctgatcGttgcatctatctgtgtcaca	9	10	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:216293051G>A	uc002vfa.2	-	6	962	c.696C>T	c.(694-696)AAC>AAT	p.N232N	FN1_uc002vfb.2_Silent_p.N232N|FN1_uc002vfc.2_Silent_p.N232N|FN1_uc002vfd.2_Silent_p.N232N|FN1_uc002vfe.2_Silent_p.N232N|FN1_uc002vff.2_Silent_p.N232N|FN1_uc002vfg.2_Silent_p.N232N|FN1_uc002vfh.2_Silent_p.N232N|FN1_uc002vfi.2_Silent_p.N232N|FN1_uc002vfj.2_Silent_p.N232N|FN1_uc002vfl.2_Silent_p.N232N	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	232	Fibrin- and heparin-binding 1.|Fibronectin type-I 5.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGTCCTGATCGTTGCATCTAT	0.468													41	45	---	---	---	---	PASS	A	216293051	A	A	216293051	2	1	61	1	0	0	0	0	0	0	0	1	5962	1136	40	1		1	FN1	2	216293051	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	20209	216293051	26906322	79	23771										
FAM124B	79843	broad.mit.edu	37	chr2	225266253	225266253	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cgcgaaatagcctatcctctCccgggctttcgtgcaggaag	11	13	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:225266253C>T	uc002vnx.2	-	1	459	c.233G>A	c.(232-234)GGA>GAA	p.G78E	FAM124B_uc002vnw.2_Missense_Mutation_p.G78E	NM_001122779	NP_001116251	Q9H5Z6	F124B_HUMAN	hypothetical protein LOC79843 isoform a	78							protein binding			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0126)|Lung NSC(271;0.0161)|all_hematologic(139;0.138)		Epithelial(121;4.4e-10)|all cancers(144;2.02e-07)|Lung(261;0.00766)|LUSC - Lung squamous cell carcinoma(224;0.00825)		CCTATCCTCTCCCGGGCTTTC	0.562													25	40	---	---	---	---	PASS	T	225266253	T	T	225266253	3	4	61	1	0	0	0	0	1	0	0	0	5426	855	30	2	1233	2	FAM124B	2	225266253	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	8973202	225266253	17933120	80	23772										
COL4A4	1286	broad.mit.edu	37	chr2	227895295	227895295	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aggtcaacactcccagggagGcctggaggcccaggtgctcc	14	14	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:227895295G>T	uc010zlt.1	-	41	4491	c.3837C>A	c.(3835-3837)GGC>GGA	p.G1279G		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1279	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		TCCCAGGGAGGCCTGGAGGCC	0.552													11	89	---	---	---	---	PASS	T	227895295	T	T	227895295	2	4	61	1	0	0	0	0	0	0	0	1	3693	1190	42	3		3	COL4A4	2	227895295	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	2629042	227895295	15304078	81	23773										
UGT1A9	54600	broad.mit.edu	37	chr2	234581152	234581152	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgctcctctttcctatgtccCcagaattctcttagggttct	6	13	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:234581152C>T	uc002vus.2	+	1	609	c.572C>T	c.(571-573)CCC>CTC	p.P191L	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Missense_Mutation_p.P191L	NM_021027	NP_066307	O60656	UD19_HUMAN	UDP glycosyltransferase 1 family, polypeptide A9	191					drug metabolic process|flavone metabolic process|negative regulation of fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding			ovary(3)|breast(1)|skin(1)	5		Breast(86;0.000766)|all_lung(227;0.00269)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0331)|Lung NSC(271;0.0459)|Lung SC(224;0.128)		Epithelial(121;1.26e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000436)|Lung(119;0.00347)|LUSC - Lung squamous cell carcinoma(224;0.00757)	Entacapone(DB00494)|Etodolac(DB00749)|Indomethacin(DB00328)|Irinotecan(DB00762)|Mycophenolic acid(DB01024)|Oxyphenonium(DB00219)|Propofol(DB00818)|Sorafenib(DB00398)	TCCTATGTCCCCAGAATTCTC	0.483													33	243	---	---	---	---	PASS	T	234581152	T	T	234581152	3	4	61	1	0	0	0	0	1	0	0	0	16949	623	22	3	574	3	UGT1A9	2	234581152	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	6685857	234581152	8618221	82	23774										
NUP210	23225	broad.mit.edu	37	chr3	13401854	13401854	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggggcaaagagagccaggccGatgctgtcagtgtcctcagc	15	11	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:13401854G>A	uc003bxv.1	-	15	2153	c.2070C>T	c.(2068-2070)ATC>ATT	p.I690I	NUP210_uc003bxx.2_Silent_p.I362I	NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	690	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)					GAGCCAGGCCGATGCTGTCAG	0.572													10	33	---	---	---	---	PASS	A	13401854	A	A	13401854	2	1	61	1	0	0	0	0	0	0	0	1	10760	1048	37	2		2	NUP210	3	13401854	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08		13401854	184620576	83	23775										
ZNF620	253639	broad.mit.edu	37	chr3	40552985	40552985	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cagtgacctttgaggatgtgGctgtgtacttcacccagaat	11	9	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:40552985G>A	uc003ckk.2	+	3	198	c.49G>A	c.(49-51)GCT>ACT	p.A17T	ZNF620_uc003ckl.2_Intron	NM_175888	NP_787084	Q6ZNG0	ZN620_HUMAN	zinc finger protein 620	17	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		TGAGGATGTGGCTGTGTACTT	0.517													5	149	---	---	---	---	PASS	A	40552985	A	A	40552985	3	1	61	1	0	0	0	0	1	0	0	0	18041	1203	42	3	55	3	ZNF620	3	40552985	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	27151131	40552985	157469445	84	23776										
FYCO1	79443	broad.mit.edu	37	chr3	46010092	46010092	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gctcccgtagctgcttctccCgcacctccaactggtccagc	8	19	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:46010092C>A	uc003cpb.3	-	8	940	c.734G>T	c.(733-735)CGG>CTG	p.R245L	FYCO1_uc011bal.1_Missense_Mutation_p.R245L	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	245	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		CTGCTTCTCCCGCACCTCCAA	0.577													26	37	---	---	---	---	PASS	A	46010092	A	A	46010092	3	1	61	1	0	0	0	0	1	0	0	0	6125	652	23	1	3746	1	FYCO1	3	46010092	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	5457107	46010092	152012338	85	23777										
TRAIP	10293	broad.mit.edu	37	chr3	49881319	49881319	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgcgttcttccagcgtatccCgcagagtgtcgatgatgacc	11	12	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:49881319C>T	uc003cxs.1	-	5	429	c.323G>A	c.(322-324)CGG>CAG	p.R108Q	TRAIP_uc010hla.1_Missense_Mutation_p.R108Q|TRAIP_uc011bcx.1_Missense_Mutation_p.R108Q	NM_005879	NP_005870	Q9BWF2	TRAIP_HUMAN	TRAF interacting protein	108	Potential.				cell proliferation|induction of apoptosis	perinuclear region of cytoplasm	protein binding|zinc ion binding			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CAGCGTATCCCGCAGAGTGTC	0.562													48	75	---	---	---	---	PASS	T	49881319	T	T	49881319	3	4	61	1	0	0	0	0	1	0	0	0	16445	652	23	1	1130	1	TRAIP	3	49881319	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	3871227	49881319	148141111	86	23778										
FEZF2	55079	broad.mit.edu	37	chr3	62357341	62357341	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gattatagtgagcgttaaacAcctatggaaagacatggggg	13	5	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:62357341A>T	uc003dlh.2	-	2	1061	c.854T>A	c.(853-855)GTG>GAG	p.V285E	FEZF2_uc003dli.2_Missense_Mutation_p.V285E	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	285	C2H2-type 1.				transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		AGCGTTAAACACCTATGGAAA	0.617													16	41	---	---	---	---	PASS	T	62357341	T	T	62357341	3	4	61	1	0	0	0	0	1	0	0	0	5826	173	6	5	537	5	FEZF2	3	62357341	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	12476022	62357341	135665089	87	23779										
CADPS	8618	broad.mit.edu	37	chr3	62522216	62522216	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aagttacaggggttggaagaGataaattcatccatgccatg	11	6	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:62522216G>C	uc003dll.2	-	12	2367	c.2007C>G	c.(2005-2007)ATC>ATG	p.I669M	CADPS_uc003dlk.1_Missense_Mutation_p.I173M|CADPS_uc003dlm.2_Missense_Mutation_p.I669M|CADPS_uc003dln.2_Missense_Mutation_p.I669M	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	669					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		GGTTGGAAGAGATAAATTCAT	0.398													66	99	---	---	---	---	PASS	C	62522216	C	C	62522216	3	2	61	1	0	0	0	0	1	0	0	0	2570	932	33	2	2203	2	CADPS	3	62522216	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	164875	62522216	135500214	88	23780										
PDZRN3	23024	broad.mit.edu	37	chr3	73673863	73673863	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cagggcagcacgcagccggcGcagaagacgtggccgcacgg	17	14	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:73673863G>C	uc003dpl.1	-	1	210	c.114C>G	c.(112-114)TGC>TGG	p.C38W		NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	38	RING-type; degenerate.						ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		CGCAGCCGGCGCAGAAGACGT	0.716													3	1	---	---	---	---	PASS	C	73673863	C	C	73673863	3	2	61	1	0	0	0	0	1	0	0	0	11709	1079	38	4	3126	4	PDZRN3	3	73673863	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	11151647	73673863	124348567	89	23781										
ZNF654	55279	broad.mit.edu	37	chr3	88189750	88189750	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgtagtagtagtgatatagtCaatggacacagtgaaataga	11	3	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:88189750C>T	uc003dqv.2	+	1	1489	c.1290C>T	c.(1288-1290)GTC>GTT	p.V430V	CGGBP1_uc003dqu.2_Intron	NM_018293	NP_060763	Q8IZM8	ZN654_HUMAN	zinc finger protein 654	430					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(201;0.0283)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		GTGATATAGTCAATGGACACA	0.348													17	191	---	---	---	---	PASS	T	88189750	T	T	88189750	2	4	61	1	0	0	0	0	0	0	0	1	18064	813	29	2		2	ZNF654	3	88189750	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	14515887	88189750	109832680	90	23782			1	27		3	3	66	C		3.772058e-07
ZNF654	55279	broad.mit.edu	37	chr3	88189791	88189791	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcaaacacctttagtttcatCagatcctgctttgaaaattg	6	9	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:88189791C>G	uc003dqv.2	+	1	1530	c.1331C>G	c.(1330-1332)TCA>TGA	p.S444*	CGGBP1_uc003dqu.2_Intron	NM_018293	NP_060763	Q8IZM8	ZN654_HUMAN	zinc finger protein 654	444					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(201;0.0283)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		TTAGTTTCATCAGATCCTGCT	0.373													16	196	---	---	---	---	PASS	G	88189791	G	G	88189791	4	3	61	1	0	0	0	0	0	1	0	0	18064	838	29	2	1333	2	ZNF654	3	88189791	Nonsense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	41	88189791	109832639	91	23783			1	27		3	3	66	C		3.772058e-07
ZNF654	55279	broad.mit.edu	37	chr3	88189815	88189815	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcctgctttgaaaattgataCaaacagaatcaggacagaaa	7	7	1	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:88189815C>G	uc003dqv.2	+	1	1554	c.1355C>G	c.(1354-1356)ACA>AGA	p.T452R	CGGBP1_uc003dqu.2_Intron	NM_018293	NP_060763	Q8IZM8	ZN654_HUMAN	zinc finger protein 654	452					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(201;0.0283)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		AAAATTGATACAAACAGAATC	0.378													20	202	---	---	---	---	PASS	G	88189815	G	G	88189815	3	3	61	1	0	0	0	0	1	0	0	0	18064	478	17	4	1357	4	ZNF654	3	88189815	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	24	88189815	109832615	92	23784			1	27		3	3	66	C		3.772058e-07
NSUN3	63899	broad.mit.edu	37	chr3	93803157	93803157	+	Missense_Mutation	SNP	T	A	A													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aagacaccaaattggaaaccTgaaaaaatattatctcctaa							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:93803157T>A	uc003drl.1	+	3	445	c.329T>A	c.(328-330)CTG>CAG	p.L110Q		NM_022072	NP_071355	Q9H649	NSUN3_HUMAN	NOL1/NOP2/Sun domain family, member 3	110							methyltransferase activity			skin(1)	1						ATTGGAAACCTGAAAAAATAT	0.458													32	206	---	---	---	---	PASS	A	93803157	A	A	93803157	3	1	61	1	0	0	0	0	1	0	0	0	10679	1580	55	5	339	5	NSUN3	3	93803157	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	5613342	93803157	104219273	93	23785	518	2								
NSUN3	63899	broad.mit.edu	37	chr3	93803158	93803158	+	Silent	SNP	G	A	A													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agacaccaaattggaaacctGaaaaaatattatctcctaaa							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:93803158G>A	uc003drl.1	+	3	446	c.330G>A	c.(328-330)CTG>CTA	p.L110L		NM_022072	NP_071355	Q9H649	NSUN3_HUMAN	NOL1/NOP2/Sun domain family, member 3	110							methyltransferase activity			skin(1)	1						TTGGAAACCTGAAAAAATATT	0.458													32	209	---	---	---	---	PASS	A	93803158	A	A	93803158	2	1	61	1	0	0	0	0	0	0	0	1	10679	1277	45	2		2	NSUN3	3	93803158	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	1	93803158	104219272	94	23786	518	2								
OR5H15	403274	broad.mit.edu	37	chr3	97887807	97887807	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctgaataacttcttagctaaGagtaagatgatatctctctc	6	8	3	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:97887807G>T	uc011bgu.1	+	1	264	c.264G>T	c.(262-264)AAG>AAT	p.K88N		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TCTTAGCTAAGAGTAAGATGA	0.378													61	206	---	---	---	---	PASS	T	97887807	T	T	97887807	3	4	61	1	0	0	0	0	1	0	0	0	11161	933	33	2	266	2	OR5H15	3	97887807	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	4084649	97887807	100134623	95	23787										
DZIP3	9666	broad.mit.edu	37	chr3	108391468	108391468	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgaaaacatacgtaagcaaaCtgaacgcagaaactagcaga	8	8	0	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:108391468C>A	uc003dxd.2	+	23	2976	c.2554C>A	c.(2554-2556)CTG>ATG	p.L852M	DZIP3_uc003dxf.1_Missense_Mutation_p.L852M|DZIP3_uc011bhm.1_Missense_Mutation_p.L303M	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	852	Potential.				protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CGTAAGCAAACTGAACGCAGA	0.398													24	82	---	---	---	---	PASS	A	108391468	A	A	108391468	3	1	61	1	0	0	0	0	1	0	0	0	4865	564	20	3	2640	3	DZIP3	3	108391468	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	10503661	108391468	89630962	96	23788										
CD96	10225	broad.mit.edu	37	chr3	111319669	111319669	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tagtaataaaccagcccaatCagacaacttgaccatttggt	6	10	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:111319669C>G	uc003dxw.2	+	8	1213	c.1043C>G	c.(1042-1044)TCA>TGA	p.S348*	CD96_uc003dxv.2_Nonsense_Mutation_p.S332*|CD96_uc003dxx.2_Nonsense_Mutation_p.S332*|CD96_uc010hpy.1_Nonsense_Mutation_p.S332*	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor	348	Extracellular (Potential).|Ig-like C2-type.				cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						CCAGCCCAATCAGACAACTTG	0.383									Opitz_Trigonocephaly_syndrome				25	145	---	---	---	---	PASS	G	111319669	G	G	111319669	4	3	61	1	0	0	0	0	0	1	0	0	3048	838	29	2	1073	2	CD96	3	111319669	Nonsense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	2928201	111319669	86702761	97	23789										
SEMA5B	54437	broad.mit.edu	37	chr3	122632465	122632465	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccacagttgctgctgcacttGctccaggagccccaggaagc	11	15	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:122632465G>T	uc003efz.1	-	16	2500	c.2196C>A	c.(2194-2196)AGC>AGA	p.S732R	SEMA5B_uc011bju.1_Missense_Mutation_p.S674R|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.S732R|SEMA5B_uc010hro.1_Missense_Mutation_p.S674R|SEMA5B_uc003efy.1_5'Flank	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	732	Extracellular (Potential).|TSP type-1 2.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		TGCTGCACTTGCTCCAGGAGC	0.677													10	31	---	---	---	---	PASS	T	122632465	T	T	122632465	3	4	61	1	0	0	0	0	1	0	0	0	14038	1310	46	3	1291	3	SEMA5B	3	122632465	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	11312796	122632465	75389965	98	23790										
MYLK	4638	broad.mit.edu	37	chr3	123452795	123452795	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tggttccggctgaactcttgCggcctgcagggtgatggagc	16	10	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:123452795C>G	uc003ego.2	-	10	1330	c.1048G>C	c.(1048-1050)GCA>CCA	p.A350P	MYLK_uc011bjw.1_Missense_Mutation_p.A350P|MYLK_uc003egp.2_Missense_Mutation_p.A350P|MYLK_uc003egq.2_Missense_Mutation_p.A350P|MYLK_uc003egr.2_Missense_Mutation_p.A350P|MYLK_uc003egs.2_Missense_Mutation_p.A174P	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	350					aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		TGAACTCTTGCGGCCTGCAGG	0.632													59	217	---	---	---	---	PASS	G	123452795	G	G	123452795	3	3	61	1	0	0	0	0	1	0	0	0	10056	768	27	4	4796	4	MYLK	3	123452795	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	820330	123452795	74569635	99	23791										
SLCO2A1	6578	broad.mit.edu	37	chr3	133692604	133692604	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aagagacctccgatgccaatCagacgtggacggtgcacccg	12	13	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:133692604C>A	uc003eqa.3	-	3	574	c.300G>T	c.(298-300)CTG>CTT	p.L100L	SLCO2A1_uc003eqb.3_Silent_p.L100L|SLCO2A1_uc011blv.1_Silent_p.L100L|SLCO2A1_uc010htw.1_5'UTR	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	100	Helical; Name=3; (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						CGATGCCAATCAGACGTGGAC	0.567													7	39	---	---	---	---	PASS	A	133692604	A	A	133692604	2	1	61	1	0	0	0	0	0	0	0	1	14726	813	29	2		2	SLCO2A1	3	133692604	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	10239809	133692604	64329826	100	23792										
TRIM42	287015	broad.mit.edu	37	chr3	140401468	140401468	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccacagcctgtgcgagaagtGcctgcggcagctgcagaagc	14	13	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:140401468G>A	uc003eto.1	+	2	697	c.506G>A	c.(505-507)TGC>TAC	p.C169Y		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	169	RING-type.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						TGCGAGAAGTGCCTGCGGCAG	0.607													28	113	---	---	---	---	PASS	A	140401468	A	A	140401468	3	1	61	1	0	0	0	0	1	0	0	0	16514	1319	46	3	512	3	TRIM42	3	140401468	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	6708864	140401468	57620962	101	23793										
ATR	545	broad.mit.edu	37	chr3	142188344	142188344	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tatggagctaaatagtttgtAtgctctgtgataaccttgtt	9	5	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:142188344A>T	uc003eux.3	-	38	6509	c.6387T>A	c.(6385-6387)CAT>CAA	p.H2129Q	ATR_uc003euy.1_Missense_Mutation_p.H15Q	NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	2129	FAT.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						AATAGTTTGTATGCTCTGTGA	0.348								Other_conserved_DNA_damage_response_genes					85	92	---	---	---	---	PASS	T	142188344	T	T	142188344	3	4	61	1	0	0	0	0	1	0	0	0	1204	446	16	5	1587	5	ATR	3	142188344	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	1786876	142188344	55834086	102	23794										
CPB1	1360	broad.mit.edu	37	chr3	148562331	148562331	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	acaagttagacttttatgtcCtgcctgtgctcaatattgat	7	8	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:148562331C>A	uc003ewl.2	+	7	666	c.643C>A	c.(643-645)CTG>ATG	p.L215M		NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein	215					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			CTTTTATGTCCTGCCTGTGCT	0.423													26	94	---	---	---	---	PASS	A	148562331	A	A	148562331	3	1	61	1	0	0	0	0	1	0	0	0	3796	680	24	3	669	3	CPB1	3	148562331	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	6373987	148562331	49460099	103	23795										
OTOL1	131149	broad.mit.edu	37	chr3	161220152	161220152	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atacccaggaaaaccgggagCacaaggtagagcatgaaatg	12	8	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:161220152C>A	uc011bpb.1	+	3	512	c.512C>A	c.(511-513)GCA>GAA	p.A171E		NM_001080440	NP_001073909	A6NHN0	OTOL1_HUMAN	otolin-1 precursor	171	Collagen-like 1.					collagen					0						AAACCGGGAGCACAAGGTAGA	0.423													27	34	---	---	---	---	PASS	A	161220152	A	A	161220152	3	1	61	1	0	0	0	0	1	0	0	0	11304	710	25	3	522	3	OTOL1	3	161220152	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	12657821	161220152	36802278	104	23796										
SI	6476	broad.mit.edu	37	chr3	164712177	164712177	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cagcaaaagtttcattccagGaagcgggatcttgtctctga	10	9	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:164712177G>T	uc003fei.2	-	41	4771	c.4709C>A	c.(4708-4710)TCC>TAC	p.S1570Y		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1570	Sucrase.|Lumenal.				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)	TTCATTCCAGGAAGCGGGATC	0.299										HNSCC(35;0.089)			99	132	---	---	---	---	PASS	T	164712177	T	T	164712177	3	4	61	1	0	0	0	0	1	0	0	0	14297	1174	41	2	806	2	SI	3	164712177	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	3492025	164712177	33310253	105	23797										
ZBBX	79740	broad.mit.edu	37	chr3	167016230	167016230	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttataggcttacttctgcagGctatttcttgtaacaactaa	6	8	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:167016230G>T	uc003fep.2	-	18	2065	c.1742C>A	c.(1741-1743)GCC>GAC	p.A581D	ZBBX_uc011bpc.1_Missense_Mutation_p.A581D|ZBBX_uc003feq.2_Missense_Mutation_p.A552D	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	581						intracellular	zinc ion binding			ovary(2)	2						ACTTCTGCAGGCTATTTCTTG	0.289													43	247	---	---	---	---	PASS	T	167016230	T	T	167016230	3	4	61	1	0	0	0	0	1	0	0	0	17513	1203	42	3	676	3	ZBBX	3	167016230	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	2304053	167016230	31006200	106	23798										
ARPM1	84517	broad.mit.edu	37	chr3	169485281	169485281	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	taaattctgcagcagtgatcCacatgtcctggaaggcagac	10	10	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:169485281C>T	uc003ffs.1	-	2	1433	c.1058G>A	c.(1057-1059)TGG>TAG	p.W353*	TERC_uc003ffr.1_5'Flank	NM_032487	NP_115876	Q9BYD9	ARPM1_HUMAN	actin related protein M1	353						cytoplasm|cytoskeleton					0	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;5.01e-59)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			AGCAGTGATCCACATGTCCTG	0.418													9	171	---	---	---	---	PASS	T	169485281	T	T	169485281	4	4	61	1	0	0	0	0	0	1	0	0	976	595	21	3	64	3	ARPM1	3	169485281	Nonsense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	2469051	169485281	28537149	107	23799										
FNDC3B	64778	broad.mit.edu	37	chr3	171965446	171965446	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tccctccctatctgactcacCatccacattttattcataac	1	16	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:171965446C>T	uc003fhy.2	+	5	560	c.388C>T	c.(388-390)CAT>TAT	p.H130Y	FNDC3B_uc003fhz.3_Missense_Mutation_p.H130Y|FNDC3B_uc003fia.2_Missense_Mutation_p.H61Y	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	130						endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		TCTGACTCACCATCCACATTT	0.542													291	190	---	---	---	---	PASS	T	171965446	T	T	171965446	3	4	61	1	0	0	0	0	1	0	0	0	5970	594	21	3	402	3	FNDC3B	3	171965446	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	2480165	171965446	26056984	108	23800										
MFN1	55669	broad.mit.edu	37	chr3	179096548	179096548	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcccttgtacatcgatttttGggccctagaaatgctcaaag	8	10	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:179096548G>A	uc003fjs.2	+	14	1734	c.1608G>A	c.(1606-1608)TTG>TTA	p.L536L	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Silent_p.L564L|MFN1_uc010hxc.2_Intron	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	536	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			ATCGATTTTTGGGCCCTAGAA	0.363													13	207	---	---	---	---	PASS	A	179096548	A	A	179096548	2	1	61	1	0	0	0	0	0	0	0	1	9523	1339	47	3		3	MFN1	3	179096548	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	7131102	179096548	18925882	109	23801										
FETUB	26998	broad.mit.edu	37	chr3	186370293	186370293	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccagggagaaaccctggataTttccttcctcttcctggagc	9	13	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:186370293T>A	uc010hyq.2	+	8	1283	c.1022T>A	c.(1021-1023)ATT>AAT	p.I341N	FETUB_uc011brz.1_Missense_Mutation_p.I193N|FETUB_uc003fqn.2_Missense_Mutation_p.I341N|FETUB_uc003fqo.2_Missense_Mutation_p.I236N|FETUB_uc010hyr.2_Missense_Mutation_p.I304N|FETUB_uc010hys.2_Missense_Mutation_p.I193N|FETUB_uc003fqp.3_Missense_Mutation_p.I276N	NM_014375	NP_055190	Q9UGM5	FETUB_HUMAN	fetuin B precursor	341						extracellular space	cysteine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0479)		ACCCTGGATATTTCCTTCCTC	0.542													47	268	---	---	---	---	PASS	A	186370293	A	A	186370293	3	1	61	1	0	0	0	0	1	0	0	0	5821	1493	52	5	1048	5	FETUB	3	186370293	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	7273745	186370293	11652137	110	23802										
HRG	3273	broad.mit.edu	37	chr3	186383826	186383826	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggatggtttaacaaaatgaaGgcactcattgcagcactgct	10	8	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:186383826G>T	uc003fqq.2	+	1	29	c.6G>T	c.(4-6)AAG>AAT	p.K2N		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	2					fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		ACAAAATGAAGGCACTCATTG	0.443													14	94	---	---	---	---	PASS	T	186383826	T	T	186383826	3	4	61	1	0	0	0	0	1	0	0	0	7354	991	35	3	8	3	HRG	3	186383826	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	13533	186383826	11638604	111	23803										
UTS2D	257313	broad.mit.edu	37	chr3	190995924	190995924	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agccagcaatagttcctcacGatttgtatattttttatctg	6	8	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:190995924G>T	uc003fsu.2	-	6	926	c.139C>A	c.(139-141)CGT>AGT	p.R47S		NM_198152	NP_937795	Q765I0	UTS2B_HUMAN	urotensin 2 domain containing precursor	47						extracellular region	hormone activity				0	all_cancers(143;1.77e-09)|Ovarian(172;0.103)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000214)		AGTTCCTCACGATTTGTATAT	0.284													11	70	---	---	---	---	PASS	T	190995924	T	T	190995924	3	4	61	1	0	0	0	0	1	0	0	0	17102	1058	37	2	236	2	UTS2D	3	190995924	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	4612098	190995924	7026506	112	23804										
MUC20	200958	broad.mit.edu	37	chr3	195453110	195453110	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agacaccaagttacgtcaaaGtctcaggagcagctccggtc	10	12	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:195453110G>A	uc010hzo.2	+	3	1249	c.1123G>A	c.(1123-1125)GTC>ATC	p.V375I	MUC20_uc010hzp.2_Missense_Mutation_p.V340I|MUC20_uc011bte.1_RNA	NM_152673	NP_689886	Q8N307	MUC20_HUMAN	mucin 20 isoform L	546	Involved in oligomerization.				protein homooligomerization	apical plasma membrane|basal plasma membrane|extracellular region|microvillus membrane					0	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.191)	Epithelial(36;1e-21)|all cancers(36;9.02e-20)|OV - Ovarian serous cystadenocarcinoma(49;1.6e-18)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;1.66e-05)		TTACGTCAAAGTCTCAGGAGC	0.572													10	80	---	---	---	---	PASS	A	195453110	A	A	195453110	3	1	61	1	0	0	0	0	1	0	0	0	9976	1029	36	3	1133	3	MUC20	3	195453110	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	4457186	195453110	2569320	113	23805										
PIGG	54872	broad.mit.edu	37	chr4	517400	517400	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aacaccctgtgtctagctctGagccaagaaacctacagaaa	7	12	2	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:517400G>T	uc003gak.3	+	9	1903	c.1767G>T	c.(1765-1767)CTG>CTT	p.L589L	PIGG_uc003gaj.3_Silent_p.L581L|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Silent_p.L456L|PIGG_uc003gal.3_Silent_p.L500L	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	589					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						GTCTAGCTCTGAGCCAAGAAA	0.607													62	61	---	---	---	---	PASS	T	517400	T	T	517400	2	4	61	1	0	0	0	0	0	0	0	1	11888	1277	45	2		2	PIGG	4	517400	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08		517400	190636876	114	23806										
SLIT2	9353	broad.mit.edu	37	chr4	20541128	20541128	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcataggactcagttctgtgCgtttgctttctttgtatgat	9	7	4	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:20541128C>T	uc003gpr.1	+	19	2101	c.1897C>T	c.(1897-1899)CGT>TGT	p.R633C	SLIT2_uc003gps.1_Missense_Mutation_p.R625C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	633	LRR 16.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CAGTTCTGTGCGTTTGCTTTC	0.388													23	93	---	---	---	---	PASS	T	20541128	T	T	20541128	3	4	61	1	0	0	0	0	1	0	0	0	14740	768	27	1	1971	1	SLIT2	4	20541128	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	20023728	20541128	170613148	115	23807										
KCNIP4	80333	broad.mit.edu	37	chr4	21305467	21305467	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atcagcccaaactgttccaaTaatttaacaaaaagcacaat	3	10	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:21305467T>G	uc003gqf.1	-	1	63	c.63A>C	c.(61-63)TTA>TTC	p.L21F	KCNIP4_uc003gqg.1_Intron|KCNIP4_uc003gqh.1_Intron|KCNIP4_uc003gqi.1_Intron	NM_147183	NP_671712	Q6PIL6	KCIP4_HUMAN	Kv channel interacting protein 4 isoform 4	Error:Variant_position_missing_in_Q6PIL6_after_alignment						plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)				ACTGTTCCAATAATTTAACAA	0.403													33	38	---	---	---	---	PASS	G	21305467	G	G	21305467	3	3	61	1	0	0	0	0	1	0	0	0	8042	1403	49	5	766	5	KCNIP4	4	21305467	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	764339	21305467	169848809	116	23808										
GABRG1	2565	broad.mit.edu	37	chr4	46099312	46099312	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgaatttttggggccaagacCcaggttttgttcaccgttaa	10	8	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:46099312C>A	uc003gxb.2	-	2	311	c.159G>T	c.(157-159)TGG>TGT	p.W53C		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	53	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		GGGCCAAGACCCAGGTTTTGT	0.363													80	126	---	---	---	---	PASS	A	46099312	A	A	46099312	3	1	61	1	0	0	0	0	1	0	0	0	6171	624	22	3	1270	3	GABRG1	4	46099312	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	24793845	46099312	145054964	117	23809										
PDGFRA	5156	broad.mit.edu	37	chr4	55141131	55141131	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gggagtttccaagagatggaCtagtgcttggtaagttccat	13	6	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:55141131C>A	uc003han.3	+	12	2108	c.1777C>A	c.(1777-1779)CTA>ATA	p.L593I	PDGFRA_uc003haa.2_Missense_Mutation_p.L353I|PDGFRA_uc010igq.1_Missense_Mutation_p.L487I|PDGFRA_uc003ham.2_RNA|PDGFRA_uc003hao.1_5'Flank	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	593	Protein kinase.|Cytoplasmic (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity	p.L593L(1)		soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	AAGAGATGGACTAGTGCTTGG	0.453			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			34	41	---	---	---	---	PASS	A	55141131	A	A	55141131	3	1	61	1	0	0	0	0	1	0	0	0	11661	564	20	3	1819	3	PDGFRA	4	55141131	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	9041819	55141131	136013145	118	23810										
CEP135	9662	broad.mit.edu	37	chr4	56820422	56820422	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aaatgtgcacgtgaaacagcTgatctgaaatttctgaataa	8	6	2	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:56820422T>A	uc003hbi.2	+	4	579	c.345T>A	c.(343-345)GCT>GCA	p.A115A	CEP135_uc003hbh.1_Silent_p.A115A|CEP135_uc010igz.1_5'UTR	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	115	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					GTGAAACAGCTGATCTGAAAT	0.313													36	53	---	---	---	---	PASS	A	56820422	A	A	56820422	2	1	61	1	0	0	0	0	0	0	0	1	3247	1567	55	5		5	CEP135	4	56820422	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	1679291	56820422	134333854	119	23811										
SMR3A	26952	broad.mit.edu	37	chr4	71232593	71232593	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcaatcacactctcttcctcCtccttatggcccaggttatc	4	16	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:71232593C>T	uc003hfg.1	+	3	368	c.287C>T	c.(286-288)CCT>CTT	p.P96L	SMR3B_uc011cas.1_Intron	NM_012390	NP_036522	Q99954	SMR3A_HUMAN	submaxillary gland androgen regulated protein 3	96	Pro-rich.					extracellular region					0		all_hematologic(202;0.196)				TCTCTTCCTCCTCCTTATGGC	0.537													4	100	---	---	---	---	PASS	T	71232593	T	T	71232593	3	4	61	1	0	0	0	0	1	0	0	0	14811	681	24	3	293	3	SMR3A	4	71232593	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	14412171	71232593	119921683	120	23812										
SHROOM3	57619	broad.mit.edu	37	chr4	77660963	77660963	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtccccagtggagaagaaacCagaagctacagccaagtatg	11	10	0	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:77660963C>T	uc011cbx.1	+	5	2590	c.1637C>T	c.(1636-1638)CCA>CTA	p.P546L	SHROOM3_uc011cbz.1_Missense_Mutation_p.P370L|SHROOM3_uc003hkf.1_Missense_Mutation_p.P421L|SHROOM3_uc003hkg.2_Missense_Mutation_p.P324L	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	546					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			GAGAAGAAACCAGAAGCTACA	0.512													53	102	---	---	---	---	PASS	T	77660963	T	T	77660963	3	4	61	1	0	0	0	0	1	0	0	0	14295	594	21	3	1655	3	SHROOM3	4	77660963	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	6428370	77660963	113493313	121	23813										
UNC5C	8633	broad.mit.edu	37	chr4	96166286	96166286	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	actccgtccaggtggaccagCcaccgttgactgaaaggagg	13	12	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:96166286C>A	uc003htp.1	-	6	939	c.785G>T	c.(784-786)GGC>GTC	p.G262V	UNC5C_uc010ilc.1_Missense_Mutation_p.G262V|UNC5C_uc003htq.2_Missense_Mutation_p.G262V	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	262	Extracellular (Potential).|TSP type-1 1.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		GGTGGACCAGCCACCGTTGAC	0.483													15	12	---	---	---	---	PASS	A	96166286	A	A	96166286	3	1	61	1	0	0	0	0	1	0	0	0	16990	739	26	3	2054	3	UNC5C	4	96166286	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	18505323	96166286	94987990	122	23814										
CISD2	493856	broad.mit.edu	37	chr4	103790340	103790340	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	attaccgggttcgctaggctCacaggtaatcctcccccatc	8	15	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:103790340C>G	uc003hwt.3	+	1	206	c.99C>G	c.(97-99)CTC>CTG	p.L33L	UBE2D3_uc003hwq.2_5'Flank|UBE2D3_uc003hwr.2_5'Flank	NM_001008388	NP_001008389	Q8N5K1	CISD2_HUMAN	CDGSH iron sulfur domain 2	33	Lumenal (Potential).				multicellular organismal aging|regulation of autophagy	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane|protein complex	2 iron, 2 sulfur cluster binding|metal ion binding|protein homodimerization activity				0				OV - Ovarian serous cystadenocarcinoma(123;1.97e-08)		TCGCTAGGCTCACAGGTAATC	0.612													9	9	---	---	---	---	PASS	G	103790340	G	G	103790340	2	3	61	1	0	0	0	0	0	0	0	1	3436	813	29	2		2	CISD2	4	103790340	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	7624054	103790340	87363936	123	23815										
MAD2L1	4085	broad.mit.edu	37	chr4	120982076	120982076	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcaccgtagctgtgatctgtCtgatcactgaacggatttca	9	10	5	3	rs78047690		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:120982076C>T	uc003idl.2	-	4	522	c.398G>A	c.(397-399)AGA>AAA	p.R133K	MAD2L1_uc003idm.2_3'UTR	NM_002358	NP_002349	Q13257	MD2L1_HUMAN	MAD2-like 1	133	HORMA.			R->A: Prevents aggregation and promotes formation of monomeric protein that slowly interconverts between the open and closed conformation.	anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of apoptosis|negative regulation of mitotic anaphase-promoting complex activity|positive regulation of mitotic cell cycle spindle assembly checkpoint	condensed chromosome kinetochore|cytosol|nucleus|perinuclear region of cytoplasm	protein homodimerization activity				0						TGTGATCTGTCTGATCACTGA	0.353													3	57	---	---	---	---	PASS	T	120982076	T	T	120982076	3	4	61	1	0	0	0	0	1	0	0	0	9148	913	32	2	227	2	MAD2L1	4	120982076	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	17191736	120982076	70172200	124	23816										
PRDM5	11107	broad.mit.edu	37	chr4	121738064	121738064	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcctttagactgcttttcgcTgtgcactgaagaacactaaa	7	10	0	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:121738064T>A	uc003idn.2	-	6	916	c.666A>T	c.(664-666)ACA>ACT	p.T222T	PRDM5_uc003ido.2_Intron|PRDM5_uc010ine.2_Intron|PRDM5_uc010inf.2_Intron	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	222					histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						TGCTTTTCGCTGTGCACTGAA	0.368													73	94	---	---	---	---	PASS	A	121738064	A	A	121738064	2	1	61	1	0	0	0	0	0	0	0	1	12460	1567	55	5		5	PRDM5	4	121738064	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	755988	121738064	69416212	125	23817										
KIAA1109	84162	broad.mit.edu	37	chr4	123268745	123268745	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tttcccctgaatcatcaagaAaagcttactgcaagacctgg	7	11	2	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:123268745A>G	uc003ieh.2	+	74	12985	c.12940A>G	c.(12940-12942)AAA>GAA	p.K4314E	KIAA1109_uc003iem.2_Missense_Mutation_p.K670E	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4314					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ATCATCAAGAAAAGCTTACTG	0.458													6	51	---	---	---	---	PASS	G	123268745	G	G	123268745	3	3	61	1	0	0	0	0	1	0	0	0	8208	15	1	5	13234	5	KIAA1109	4	123268745	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	1530681	123268745	67885531	126	23818										
IL2	3558	broad.mit.edu	37	chr4	123374898	123374898	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	actattacgttgatattgctGattaagtccctgggtcttaa	8	7	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:123374898G>T	uc003ier.2	-	3	373	c.318C>A	c.(316-318)ATC>ATA	p.I106I		NM_000586	NP_000577	P60568	IL2_HUMAN	interleukin 2 precursor	106					anti-apoptosis|cell adhesion|cell-cell signaling|immune response|natural killer cell activation|negative regulation of B cell apoptosis|positive regulation of activated T cell proliferation|positive regulation of B cell proliferation|positive regulation of cell growth|positive regulation of interleukin-17 production|positive regulation of tyrosine phosphorylation of Stat5 protein|T cell differentiation	extracellular space	cytokine activity|growth factor activity|interleukin-2 receptor binding|kinase activator activity			skin(1)	1				LUSC - Lung squamous cell carcinoma(721;0.185)		TGATATTGCTGATTAAGTCCC	0.358			T	TNFRSF17	intestinal T-cell lymphoma								44	87	---	---	---	---	PASS	T	123374898	T	T	123374898	2	4	61	1	0	0	0	0	0	0	0	1	7666	1280	45	2		2	IL2	4	123374898	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	106153	123374898	67779378	127	23819										
PCDH10	57575	broad.mit.edu	37	chr4	134076121	134076121	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gctctaaggacagtggtcatGgagacagtgaacagggagat	15	6	2	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:134076121G>C	uc003iha.2	+	3	3566	c.2740G>C	c.(2740-2742)GGA>CGA	p.G914R		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	914	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CAGTGGTCATGGAGACAGTGA	0.413													27	43	---	---	---	---	PASS	C	134076121	C	C	134076121	3	2	61	1	0	0	0	0	1	0	0	0	11507	1349	47	4	2810	4	PCDH10	4	134076121	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	10701223	134076121	57078155	128	23820										
NR3C2	4306	broad.mit.edu	37	chr4	149356359	149356359	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctccactaaagtattgacagGaggaaaggaactcaggtgtt	11	7	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:149356359G>C	uc003ilj.3	-	2	1988	c.1654C>G	c.(1654-1656)CCT>GCT	p.P552A	NR3C2_uc003ilk.3_Missense_Mutation_p.P552A|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	552	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	GTATTGACAGGAGGAAAGGAA	0.448													8	89	---	---	---	---	PASS	C	149356359	C	C	149356359	3	2	61	1	0	0	0	0	1	0	0	0	10631	1174	41	2	1332	2	NR3C2	4	149356359	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	15280238	149356359	41797917	129	23821										
LRAT	9227	broad.mit.edu	37	chr4	155670218	155670218	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gggattggcgtctatagtctGtacgggcttggtatcataca	13	7	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:155670218G>T	uc003iom.1	+	2	950	c.623G>T	c.(622-624)TGT>TTT	p.C208F	LRAT_uc003ion.1_Missense_Mutation_p.C208F	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	208	Helical; (Potential).			C->A: Does not affect activity.	response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)	TCTATAGTCTGTACGGGCTTG	0.408													70	104	---	---	---	---	PASS	T	155670218	T	T	155670218	3	4	61	1	0	0	0	0	1	0	0	0	8930	1377	48	3	629	3	LRAT	4	155670218	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	6313859	155670218	35484058	130	23822										
GALNT7	51809	broad.mit.edu	37	chr4	174090001	174090001	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aggaagatgaggctgaagatTgggttcatcttacgcagttt	13	5	2	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:174090001T>A	uc003isz.3	+	1	98	c.15T>A	c.(13-15)ATT>ATA	p.I5I	uc003isy.1_Intron	NM_017423	NP_059119	Q86SF2	GALT7_HUMAN	polypeptide N-acetylgalactosaminyltransferase 7	5	Cytoplasmic (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			central_nervous_system(1)	1		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;1.87e-18)|Epithelial(43;3.44e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-09)|STAD - Stomach adenocarcinoma(60;0.0019)|GBM - Glioblastoma multiforme(59;0.0119)|LUSC - Lung squamous cell carcinoma(193;0.0199)		GGCTGAAGATTGGGTTCATCT	0.438													7	14	---	---	---	---	PASS	A	174090001	A	A	174090001	2	1	61	1	0	0	0	0	0	0	0	1	6218	1800	63	5		5	GALNT7	4	174090001	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	18419783	174090001	17064275	131	23823										
DNAH5	1767	broad.mit.edu	37	chr5	13759076	13759076	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccaggagatggcgattctctTgcaccaccaagttggcctgc	11	13	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:13759076T>A	uc003jfd.2	-	61	10340	c.10298A>T	c.(10297-10299)CAA>CTA	p.Q3433L	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3433	Stalk (By similarity).|Potential.				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GCGATTCTCTTGCACCACCAA	0.542									Kartagener_syndrome				33	254	---	---	---	---	PASS	A	13759076	A	A	13759076	3	1	61	1	0	0	0	0	1	0	0	0	4604	1812	63	5	3652	5	DNAH5	5	13759076	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08		13759076	167156184	132	23824										
CDH9	1007	broad.mit.edu	37	chr5	26881271	26881271	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcggtcactatcatcaccccCatacatatcggcaagttttt	5	13	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:26881271C>G	uc003jgs.1	-	12	2513	c.2344G>C	c.(2344-2346)GGG>CGG	p.G782R	CDH9_uc011cnv.1_Missense_Mutation_p.G375R	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	782	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TCATCACCCCCATACATATCG	0.408													44	217	---	---	---	---	PASS	G	26881271	G	G	26881271	3	3	61	1	0	0	0	0	1	0	0	0	3117	594	21	4	29	4	CDH9	5	26881271	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	13122195	26881271	154033989	133	23825										
RXFP3	51289	broad.mit.edu	37	chr5	33937196	33937196	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggctggcgcaagtcctctatCaacctcttcgtcaccaacct	7	16	4	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:33937196C>A	uc003jic.1	+	1	708	c.351C>A	c.(349-351)ATC>ATA	p.I117I		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	117	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						AGTCCTCTATCAACCTCTTCG	0.592													21	133	---	---	---	---	PASS	A	33937196	A	A	33937196	2	1	61	1	0	0	0	0	0	0	0	1	13761	816	29	2		2	RXFP3	5	33937196	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	7055925	33937196	146978064	134	23826										
EGFLAM	133584	broad.mit.edu	37	chr5	38407059	38407059	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cagcatctctccctgtgaccAcggtggctccccagcccatt	8	18	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:38407059A>C	uc003jlc.1	+	8	1282	c.958A>C	c.(958-960)ACG>CCG	p.T320P	EGFLAM_uc003jlb.1_Missense_Mutation_p.T320P|EGFLAM_uc003jle.1_Missense_Mutation_p.T86P|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	320						cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					CCCTGTGACCACGGTGGCTCC	0.478													13	199	---	---	---	---	PASS	C	38407059	C	C	38407059	3	2	61	1	0	0	0	0	1	0	0	0	4966	159	6	5	1002	5	EGFLAM	5	38407059	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	4469863	38407059	142508201	135	23827										
ZNF131	7690	broad.mit.edu	37	chr5	43139363	43139363	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agccaatgatgtatggaaagCagcagagtttctacaaatgc	10	7	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:43139363C>T	uc011cpw.1	+	4	359	c.323C>T	c.(322-324)GCA>GTA	p.A108V	ZNF131_uc010ivl.1_Missense_Mutation_p.A108V|ZNF131_uc003jnj.3_5'UTR|ZNF131_uc003jnk.2_Missense_Mutation_p.A108V|ZNF131_uc003jnn.3_Intron|ZNF131_uc003jnl.1_Intron|ZNF131_uc010ivm.1_RNA	NM_003432	NP_003423	P52739	ZN131_HUMAN	zinc finger protein 131	108						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GTATGGAAAGCAGCAGAGTTT	0.358													31	145	---	---	---	---	PASS	T	43139363	T	T	43139363	3	4	61	1	0	0	0	0	1	0	0	0	17718	710	25	3	333	3	ZNF131	5	43139363	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	4732304	43139363	137775897	136	23828										
HCN1	348980	broad.mit.edu	37	chr5	45262584	45262584	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gggctctgtacaggagggctGcagaccgcggtggtgtagga	19	8	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:45262584G>T	uc003jok.2	-	8	2137	c.2112C>A	c.(2110-2112)TGC>TGA	p.C704*		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	704	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CAGGAGGGCTGCAGACCGCGG	0.567													14	33	---	---	---	---	PASS	T	45262584	T	T	45262584	4	4	61	1	0	0	0	0	0	1	0	0	6996	1311	46	3	564	3	HCN1	5	45262584	Nonsense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	2123221	45262584	135652676	137	23829										
MAP3K1	4214	broad.mit.edu	37	chr5	56168787	56168787	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cttactcattatggaactcaGcaaatccctcctgcttacaa	4	13	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:56168787G>T	uc003jqw.3	+	9	2142	c.1641G>T	c.(1639-1641)CAG>CAT	p.Q547H		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	547					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		ATGGAACTCAGCAAATCCCTC	0.403													21	31	---	---	---	---	PASS	T	56168787	T	T	56168787	3	4	61	1	0	0	0	0	1	0	0	0	9243	962	34	3	1675	3	MAP3K1	5	56168787	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	10906203	56168787	124746473	138	23830										
IQGAP2	10788	broad.mit.edu	37	chr5	75991401	75991403	+	In_Frame_Del	DEL	GAA	-	-													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cctcttgagcagaagaagagGaaaatccagaggaatcttcg							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:75991401_75991403delGAA	uc003kek.2	+	32	4338_4340	c.4116_4118delGAA	c.(4114-4119)AGGAAA>AGA	p.K1373del	IQGAP2_uc011csv.1_In_Frame_Del_p.K869del|IQGAP2_uc003kel.2_In_Frame_Del_p.K869del|IQGAP2_uc010izw.1_In_Frame_Del_p.K74del	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	1373					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		AGAAGAAGAGGAAAATCCAGAGG	0.438													59	30	---	---	---	---		-	75991403	-	-	75991401	7	5	61	1	0	1	0	1	0	0	0	0	7815	1165	41	0	4242	0	IQGAP2	5	75991401	In_Frame_Del	DEL	GAA	TCGA-33-4586-01A-01D-1441-08	19822614	75991401	104923859	139	23831										
SLCO6A1	133482	broad.mit.edu	37	chr5	101724397	101724397	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ataagtatcacttacatattCctaccaataagaaagccatt	3	9	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:101724397C>G	uc003knn.2	-	12	2184	c.2012G>C	c.(2011-2013)GGA>GCA	p.G671A	SLCO6A1_uc003kno.2_Missense_Mutation_p.G418A|SLCO6A1_uc003knp.2_Missense_Mutation_p.G671A|SLCO6A1_uc003knq.2_Missense_Mutation_p.G609A	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	671	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		CTTACATATTCCTACCAATAA	0.269													21	41	---	---	---	---	PASS	G	101724397	G	G	101724397	3	3	61	1	0	0	0	0	1	0	0	0	14732	855	30	2	155	2	SLCO6A1	5	101724397	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	25732996	101724397	79190863	140	23832										
FAM170A	340069	broad.mit.edu	37	chr5	118970249	118970249	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	caccatggctcagctgacagGcaacatggaatcagagagca	11	11	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:118970249G>T	uc003ksm.2	+	3	1016	c.806G>T	c.(805-807)GGC>GTC	p.G269V	FAM170A_uc003ksl.2_Intron|FAM170A_uc003ksn.2_Missense_Mutation_p.G269V|FAM170A_uc003kso.2_Missense_Mutation_p.G222V	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	269						intracellular	zinc ion binding			skin(1)	1						CAGCTGACAGGCAACATGGAA	0.343													83	89	---	---	---	---	PASS	T	118970249	T	T	118970249	3	4	61	1	0	0	0	0	1	0	0	0	5489	1203	42	3	816	3	FAM170A	5	118970249	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	17245852	118970249	61945011	141	23833										
SNCAIP	9627	broad.mit.edu	37	chr5	121759012	121759012	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tttctggcaaagcctgctctAcaggaagttctgagagctca	10	10	4	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:121759012A>G	uc003ksw.1	+	4	786	c.580A>G	c.(580-582)ACA>GCA	p.T194A	SNCAIP_uc011cwl.1_Intron|SNCAIP_uc010jct.2_Missense_Mutation_p.T194A|SNCAIP_uc003ksx.1_Missense_Mutation_p.T241A|SNCAIP_uc003ksy.1_Intron|SNCAIP_uc003ksz.1_Intron|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Intron|SNCAIP_uc003kta.1_Intron|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Intron|SNCAIP_uc010jcx.1_Missense_Mutation_p.T194A	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	194					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		AGCCTGCTCTACAGGAAGTTC	0.458													30	140	---	---	---	---	PASS	G	121759012	G	G	121759012	3	3	61	1	0	0	0	0	1	0	0	0	14841	391	14	5	590	5	SNCAIP	5	121759012	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	2788763	121759012	59156248	142	23834										
MYOT	9499	broad.mit.edu	37	chr5	137206399	137206399	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccaaaacccatgtggctccaGattgcagcctcctggaccag	9	15	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:137206399G>T	uc011cye.1	+	2	76	c.59G>T	c.(58-60)AGA>ATA	p.R20I	MYOT_uc003lbv.2_Missense_Mutation_p.R20I|MYOT_uc011cyg.1_Intron|MYOT_uc011cyh.1_Intron	NM_001135940	NP_001129412	Q9UBF9	MYOTI_HUMAN	myotilin isoform b	20					muscle contraction	actin cytoskeleton|sarcolemma|sarcomere	actin binding|structural constituent of muscle			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TGTGGCTCCAGATTGCAGCCT	0.448													65	100	---	---	---	---	PASS	T	137206399	T	T	137206399	3	4	61	1	0	0	0	0	1	0	0	0	10094	942	33	2	61	2	MYOT	5	137206399	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	15447387	137206399	43708861	143	23835										
PCDHGA9	56107	broad.mit.edu	37	chr5	140783125	140783125	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctggagcgcgccctggacagGgaggaggcaactgcccacca	15	14	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:140783125G>T	uc003lkh.1	+	1	606	c.606G>T	c.(604-606)AGG>AGT	p.R202S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.R202S	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	202	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTGGACAGGGAGGAGGCAA	0.622													7	10	---	---	---	---	PASS	T	140783125	T	T	140783125	3	4	61	1	0	0	0	0	1	0	0	0	11561	1223	43	3	608	3	PCDHGA9	5	140783125	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	3576726	140783125	40132135	144	23836										
HDAC3	8841	broad.mit.edu	37	chr5	141005610	141005610	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aagctcctcactaatggcctCttctaccagcagcgatgtct	7	14	4	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:141005610C>A	uc003llf.2	-	12	1015	c.949G>T	c.(949-951)GAG>TAG	p.E317*	HDAC3_uc003lle.1_Nonsense_Mutation_p.E260*	NM_003883	NP_003874	O15379	HDAC3_HUMAN	histone deacetylase 3	317					anti-apoptosis|cellular lipid metabolic process|negative regulation of cell cycle|negative regulation of JNK cascade|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|spindle assembly|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|spindle microtubule|transcriptional repressor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription corepressor activity|transcription factor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Vorinostat(DB02546)	CTAATGGCCTCTTCTACCAGC	0.532													10	83	---	---	---	---	PASS	A	141005610	A	A	141005610	4	1	61	1	0	0	0	0	0	1	0	0	7008	922	32	2	353	2	HDAC3	5	141005610	Nonsense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	222485	141005610	39909650	145	23837										
HTR4	3360	broad.mit.edu	37	chr5	147902862	147902862	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttaatgcgatgcgcagagggGtcatcttgttcctatagacc	11	9	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:147902862G>T	uc003lpn.2	-	5	565	c.401C>A	c.(400-402)ACC>AAC	p.T134N	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Missense_Mutation_p.T134N|HTR4_uc003lpj.1_Missense_Mutation_p.T134N|HTR4_uc003lpk.2_Missense_Mutation_p.T134N|HTR4_uc011dby.1_Missense_Mutation_p.T134N|HTR4_uc003lpl.2_Missense_Mutation_p.T134N|HTR4_uc003lpm.2_Missense_Mutation_p.T134N|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Missense_Mutation_p.T134N	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	134	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	GCGCAGAGGGGTCATCTTGTT	0.498													19	30	---	---	---	---	PASS	T	147902862	T	T	147902862	3	4	61	1	0	0	0	0	1	0	0	0	7449	1261	44	3	1073	3	HTR4	5	147902862	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	6897252	147902862	33012398	146	23838										
ITK	3702	broad.mit.edu	37	chr5	156607999	156607999	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gaactggatcatgaacaactTtatcctcctggaagaacagc	8	10	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:156607999T>C	uc003lwo.1	+	1	93	c.11T>C	c.(10-12)TTT>TCT	p.F4S		NM_005546	NP_005537	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase	4	PH.				cellular defense response|intracellular signal transduction|T cell receptor signaling pathway	cytosol|plasma membrane	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(12)|ovary(8)|skin(4)|stomach(1)|central_nervous_system(1)	26	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ATGAACAACTTTATCCTCCTG	0.443			T	SYK	peripheral T-cell lymphoma								31	48	---	---	---	---	PASS	C	156607999	C	C	156607999	3	2	61	1	0	0	0	0	1	0	0	0	7909	1841	64	5	13	5	ITK	5	156607999	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	8705137	156607999	24307261	147	23839										
SCGN	10590	broad.mit.edu	37	chr6	25669792	25669792	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tttatatcagctgctgagctCcgcgtgagtgtcactgggtg	13	9	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:25669792C>A	uc003nfb.2	+	5	593	c.390C>A	c.(388-390)CTC>CTA	p.L130L	SCGN_uc010jpz.2_Missense_Mutation_p.S40Y	NM_006998	NP_008929	O76038	SEGN_HUMAN	secretagogin precursor	130	EF-hand 3.					extracellular region|transport vesicle membrane	calcium ion binding			ovary(2)|pancreas(1)	3						CTGCTGAGCTCCGCGTGAGTG	0.413													23	101	---	---	---	---	PASS	A	25669792	A	A	25669792	2	1	61	1	0	0	0	0	0	0	0	1	13903	842	30	2		2	SCGN	6	25669792	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08		25669792	145445275	148	23840										
SLC17A4	10050	broad.mit.edu	37	chr6	25778227	25778227	+	Missense_Mutation	SNP	G	A	A													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccatctctcctactgctgctGgatttttcatcagtcaggtg							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:25778227G>A	uc003nfe.2	+	11	1461	c.1342G>A	c.(1342-1344)GGA>AGA	p.G448R	SLC17A4_uc011djx.1_Missense_Mutation_p.G218R|SLC17A4_uc003nfg.2_Missense_Mutation_p.G385R|SLC17A4_uc010jqa.2_Nonsense_Mutation_p.W67*	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),	448	Helical; (Potential).				phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						TACTGCTGCTGGATTTTTCAT	0.418													18	86	---	---	---	---	PASS	A	25778227	A	A	25778227	3	1	61	1	0	0	0	0	1	0	0	0	14419	1349	47	3	1380	3	SLC17A4	6	25778227	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	108435	25778227	145336840	149	23841	519	2								
SLC17A4	10050	broad.mit.edu	37	chr6	25778228	25778228	+	Missense_Mutation	SNP	G	T	T													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	catctctcctactgctgctgGatttttcatcagtcaggtga							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:25778228G>T	uc003nfe.2	+	11	1462	c.1343G>T	c.(1342-1344)GGA>GTA	p.G448V	SLC17A4_uc011djx.1_Missense_Mutation_p.G218V|SLC17A4_uc003nfg.2_Missense_Mutation_p.G385V|SLC17A4_uc010jqa.2_Missense_Mutation_p.W67C	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),	448	Helical; (Potential).				phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						ACTGCTGCTGGATTTTTCATC	0.418													18	86	---	---	---	---	PASS	T	25778228	T	T	25778228	3	4	61	1	0	0	0	0	1	0	0	0	14419	1174	41	2	1381	2	SLC17A4	6	25778228	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	1	25778228	145336839	150	23842	519	2								
TRIM38	10475	broad.mit.edu	37	chr6	25983845	25983845	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tttcccgaaggcttccttctCtgatactctccggccctatt	6	15	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:25983845C>G	uc003nfm.2	+	8	1763	c.1328C>G	c.(1327-1329)TCT>TGT	p.S443C	TRIM38_uc003nfn.2_Missense_Mutation_p.S425C|TRIM38_uc010jqd.2_Missense_Mutation_p.S79C	NM_006355	NP_006346	O00635	TRI38_HUMAN	tripartite motif-containing 38	443	B30.2/SPRY.				positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular	signal transducer activity|zinc ion binding				0						GCTTCCTTCTCTGATACTCTC	0.463													32	65	---	---	---	---	PASS	G	25983845	G	G	25983845	3	3	61	1	0	0	0	0	1	0	0	0	16509	913	32	2	1350	2	TRIM38	6	25983845	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	205617	25983845	145131222	151	23843										
HFE	3077	broad.mit.edu	37	chr6	26093020	26093020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcaccatgaagtggctgaagGataagcagccaatggatgcc	12	9	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:26093020G>T	uc003nfx.1	+	4	884	c.724G>T	c.(724-726)GAT>TAT	p.D242Y	HFE_uc003nfy.1_Missense_Mutation_p.D219Y|HFE_uc010jqe.1_Missense_Mutation_p.D239Y|HFE_uc003nfz.1_Missense_Mutation_p.D154Y|HFE_uc003ngd.1_Missense_Mutation_p.D140Y|HFE_uc003nga.1_Missense_Mutation_p.D228Y|HFE_uc003ngb.1_Missense_Mutation_p.D136Y|HFE_uc003ngc.1_Missense_Mutation_p.D150Y|HFE_uc003nge.1_Missense_Mutation_p.D62Y|HFE_uc003ngf.1_Intron	NM_000410	NP_000401	Q30201	HFE_HUMAN	hemochromatosis protein isoform 1 precursor	242	Alpha-3.|Ig-like C1-type.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|cellular iron ion homeostasis|immune response|iron ion transport|protein complex assembly|receptor-mediated endocytosis	apical part of cell|basal part of cell|cytoplasmic vesicle|early endosome|integral to plasma membrane|MHC class I protein complex|perinuclear region of cytoplasm|recycling endosome	protein binding				0						GTGGCTGAAGGATAAGCAGCC	0.527									Hemochromatosis				25	59	---	---	---	---	PASS	T	26093020	T	T	26093020	3	4	61	1	0	0	0	0	1	0	0	0	7081	1174	41	2	738	2	HFE	6	26093020	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	109175	26093020	145022047	152	23844										
SCAND3	114821	broad.mit.edu	37	chr6	28542454	28542454	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttgtctggtgaaaatggtgtCcctgatggctttagcatttt	11	6	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:28542454C>A	uc003nlo.2	-	3	2646	c.2028G>T	c.(2026-2028)GGG>GGT	p.G676G		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	676					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AAAATGGTGTCCCTGATGGCT	0.408													79	173	---	---	---	---	PASS	A	28542454	A	A	28542454	2	1	61	1	0	0	0	0	0	0	0	1	13876	842	30	2		2	SCAND3	6	28542454	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	2449434	28542454	142572613	153	23845										
ZFP57	346171	broad.mit.edu	37	chr6	29640952	29640952	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aaaagcccctggatggacctCtggcttctggcgatgggtgt	14	10	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:29640952C>T	uc011dlw.1	-	4	1087	c.936G>A	c.(934-936)CAG>CAA	p.Q312Q	ZFP57_uc003nnl.3_Silent_p.Q292Q	NM_001109809	NP_001103279	Q9NU63	ZFP57_HUMAN	zinc finger protein 57 homolog	228					DNA methylation involved in embryo development|regulation of gene expression by genetic imprinting|transcription, DNA-dependent		DNA binding|zinc ion binding			ovary(3)|skin(2)	5						GGATGGACCTCTGGCTTCTGG	0.542													23	151	---	---	---	---	PASS	T	29640952	T	T	29640952	2	4	61	1	0	0	0	0	0	0	0	1	17648	912	32	2		2	ZFP57	6	29640952	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	1098498	29640952	141474115	154	23846										
TRIM39	56658	broad.mit.edu	37	chr6	30309598	30309598	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cgggatctccctgacacaccAaggcgtttcaccttctaccc	7	17	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:30309598A>T	uc010jrz.2	+	9	1431	c.1119A>T	c.(1117-1119)CCA>CCT	p.P373P	TRIM39_uc003npz.2_Silent_p.P343P|TRIM39_uc003nqb.2_Silent_p.P343P|TRIM39_uc003nqc.2_Silent_p.P343P|TRIM39_uc010jsa.1_Silent_p.P343P	NM_021253	NP_067076	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 1	373	B30.2/SPRY.				apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						CTGACACACCAAGGCGTTTCA	0.577													18	29	---	---	---	---	PASS	T	30309598	T	T	30309598	2	4	61	1	0	0	0	0	0	0	0	1	16510	117	5	5		5	TRIM39	6	30309598	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	668646	30309598	140805469	155	23847										
HLA-DOA	3111	broad.mit.edu	37	chr6	32975108	32975108	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cccaatgcctgaggagtggcGcatccaggccccagtgctcc	12	16	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:32975108G>T	uc003ocr.2	-	3	669	c.593C>A	c.(592-594)GCG>GAG	p.A198E	HLA-DOA_uc010juj.2_Missense_Mutation_p.A168E|HLA-DOA_uc010jui.2_Missense_Mutation_p.A198E	NM_002119	NP_002110	P06340	DOA_HUMAN	major histocompatibility complex, class II, DO	198	Extracellular (Potential).|Alpha-2.|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	endosome membrane|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0						GAGGAGTGGCGCATCCAGGCC	0.592													52	97	---	---	---	---	PASS	T	32975108	T	T	32975108	3	4	61	1	0	0	0	0	1	0	0	0	7200	1087	38	1	171	1	HLA-DOA	6	32975108	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	2665510	32975108	138139959	156	23848										
COL11A2	1302	broad.mit.edu	37	chr6	33135240	33135240	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccctcagaccatcagggccaGgtttccctgctgggcctgca	11	16	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:33135240G>T	uc003ocx.1	-	56	4313	c.4085C>A	c.(4084-4086)CCT>CAT	p.P1362H	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Missense_Mutation_p.P1276H|COL11A2_uc003ocz.1_Missense_Mutation_p.P1255H	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1362	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						ATCAGGGCCAGGTTTCCCTGC	0.647													13	42	---	---	---	---	PASS	T	33135240	T	T	33135240	3	4	61	1	0	0	0	0	1	0	0	0	3668	1000	35	3	1169	3	COL11A2	6	33135240	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	160132	33135240	137979827	157	23849										
DNAH8	1769	broad.mit.edu	37	chr6	38818172	38818172	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	acatgagcagttggaagtatGtcagaagtcactcacagggt	12	7	3	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:38818172G>A	uc003ooe.1	+	36	5294	c.4694G>A	c.(4693-4695)TGT>TAT	p.C1565Y		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTGGAAGTATGTCAGAAGTCA	0.363													14	89	---	---	---	---	PASS	A	38818172	A	A	38818172	3	1	61	1	0	0	0	0	1	0	0	0	4607	1377	48	3	4828	3	DNAH8	6	38818172	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	5682932	38818172	132296895	158	23850										
ABCC10	89845	broad.mit.edu	37	chr6	43400087	43400087	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctggccctgtgggtgttggcAcattcccctcatggccactc	11	15	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:43400087A>G	uc003ouy.1	+	3	584	c.369A>G	c.(367-369)GCA>GCG	p.A123A	ABCC10_uc003ouz.1_Silent_p.A80A	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	123						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			GGGTGTTGGCACATTCCCCTC	0.662													11	45	---	---	---	---	PASS	G	43400087	G	G	43400087	2	3	61	1	0	0	0	0	0	0	0	1	50	146	6	5		5	ABCC10	6	43400087	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	4581915	43400087	127714980	159	23851										
MUT	4594	broad.mit.edu	37	chr6	49403260	49403260	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gttcaggaactagggttttaTgaccagcagcgagggtgctt	14	7	1	1	rs147094927		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:49403260T>C	uc003ozg.3	-	12	2288	c.2033A>G	c.(2032-2034)CAT>CGT	p.H678R		NM_000255	NP_000246	P22033	MUTA_HUMAN	methylmalonyl Coenzyme A mutase precursor	678	B12-binding.		H -> R (in MMAM; mut-).		fatty acid beta-oxidation	mitochondrial matrix	cobalamin binding|metal ion binding|methylmalonyl-CoA mutase activity				0	Lung NSC(77;0.0376)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TAGGGTTTTATGACCAGCAGC	0.483													11	53	---	---	---	---	PASS	C	49403260	C	C	49403260	3	2	61	1	0	0	0	0	1	0	0	0	9991	1464	51	5	227	5	MUT	6	49403260	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	6003173	49403260	121711807	160	23852										
CRISP1	167	broad.mit.edu	37	chr6	49806193	49806193	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cttgggcaggcttcacatggGacgcctgtcttataaggttc	12	10	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:49806193G>A	uc003ozw.2	-	7	658	c.579C>T	c.(577-579)GTC>GTT	p.V193V	CRISP1_uc003ozx.2_Intron	NM_001131	NP_001122	P54107	CRIS1_HUMAN	acidic epididymal glycoprotein-like 1 isoform 1	193					fusion of sperm to egg plasma membrane	extracellular space					0	Lung NSC(77;0.0358)					CTTCACATGGGACGCCTGTCT	0.363													59	104	---	---	---	---	PASS	A	49806193	A	A	49806193	2	1	61	1	0	0	0	0	0	0	0	1	3879	1161	41	2		2	CRISP1	6	49806193	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	402933	49806193	121308874	161	23853										
GSTA5	221357	broad.mit.edu	37	chr6	52701091	52701091	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atttgctggcaatgtagttaAgaatggctctggtctgcacc	11	8	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:52701091A>G	uc003pba.1	-	4	285	c.215T>C	c.(214-216)CTT>CCT	p.L72P		NM_153699	NP_714543	Q7RTV2	GSTA5_HUMAN	glutathione S-transferase alpha 5	72	GST N-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.0912)				Glutathione(DB00143)	AATGTAGTTAAGAATGGCTCT	0.428													99	154	---	---	---	---	PASS	G	52701091	G	G	52701091	3	3	61	1	0	0	0	0	1	0	0	0	6834	72	3	5	469	5	GSTA5	6	52701091	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	2894898	52701091	118413976	162	23854										
GFRAL	389400	broad.mit.edu	37	chr6	55216328	55216328	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgtgcagtgaacatggttccAccccctacttgcctcagtgt	9	13	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:55216328A>G	uc003pcm.1	+	5	734	c.648A>G	c.(646-648)CCA>CCG	p.P216P		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	216	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			ACATGGTTCCACCCCCTACTT	0.438													11	69	---	---	---	---	PASS	G	55216328	G	G	55216328	2	3	61	1	0	0	0	0	0	0	0	1	6351	146	6	5		5	GFRAL	6	55216328	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	2515237	55216328	115898739	163	23855										
IMPG1	3617	broad.mit.edu	37	chr6	76712684	76712684	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtctcaagctggggttcaacAggaggaagttctggactcaa	13	8	4	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:76712684A>G	uc003pik.1	-	12	1372	c.1242T>C	c.(1240-1242)CCT>CCC	p.P414P		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	414					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				GGGGTTCAACAGGAGGAAGTT	0.438													12	36	---	---	---	---	PASS	G	76712684	G	G	76712684	2	3	61	1	0	0	0	0	0	0	0	1	7728	175	7	5		5	IMPG1	6	76712684	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	21496356	76712684	94402383	164	23856										
LAMA4	3910	broad.mit.edu	37	chr6	112508764	112508764	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cgatggagagcgctgctaacCgcagtgcatcagtcaggtcc	13	12	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:112508764C>T	uc003pvu.2	-	8	1163	c.854G>A	c.(853-855)CGG>CAG	p.R285Q	LAMA4_uc003pvv.2_Missense_Mutation_p.R278Q|LAMA4_uc003pvt.2_Missense_Mutation_p.R278Q	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	285	Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CGCTGCTAACCGCAGTGCATC	0.537													6	35	---	---	---	---	PASS	T	112508764	T	T	112508764	3	4	61	1	0	0	0	0	1	0	0	0	8608	652	23	1	4745	1	LAMA4	6	112508764	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	35796080	112508764	58606303	165	23857										
RFX6	222546	broad.mit.edu	37	chr6	117237460	117237460	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttgatattttctgtgtttgtGactcaattctttataaggta	7	4	3	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:117237460G>T	uc003pxm.2	+	9	1018	c.955G>T	c.(955-957)GAC>TAC	p.D319Y		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	319					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						CTGTGTTTGTGACTCAATTCT	0.348													52	97	---	---	---	---	PASS	T	117237460	T	T	117237460	3	4	61	1	0	0	0	0	1	0	0	0	13267	1290	45	2	989	2	RFX6	6	117237460	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	4728696	117237460	53877607	166	23858										
ROS1	6098	broad.mit.edu	37	chr6	117710802	117710802	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcaaaggggatgcgaggtagGatgagatgggaagcagagcc	19	5	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:117710802G>A	uc003pxp.1	-	12	1669	c.1470C>T	c.(1468-1470)ATC>ATT	p.I490I	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	490	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TGCGAGGTAGGATGAGATGGG	0.433			T	GOPC|ROS1	glioblastoma|NSCLC								5	58	---	---	---	---	PASS	A	117710802	A	A	117710802	2	1	61	1	0	0	0	0	0	0	0	1	13531	1164	41	2		2	ROS1	6	117710802	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	473342	117710802	53404265	167	23859										
MAN1A1	4121	broad.mit.edu	37	chr6	119669750	119669750	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cggcgccttgtcacgcagctGgtcctgggccaccttcttct	11	16	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:119669750G>T	uc003pym.1	-	2	923	c.481C>A	c.(481-483)CAG>AAG	p.Q161K	MAN1A1_uc010kei.1_Missense_Mutation_p.Q161K	NM_005907	NP_005898	P33908	MA1A1_HUMAN	mannosidase, alpha, class 1A, member 1	161	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_epithelial(87;0.173)		OV - Ovarian serous cystadenocarcinoma(136;0.0612)|GBM - Glioblastoma multiforme(226;0.0702)|all cancers(137;0.115)		TCACGCAGCTGGTCCTGGGCC	0.667													34	81	---	---	---	---	PASS	T	119669750	T	T	119669750	3	4	61	1	0	0	0	0	1	0	0	0	9210	1357	47	3	1528	3	MAN1A1	6	119669750	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	1958948	119669750	51445317	168	23860										
THEMIS	387357	broad.mit.edu	37	chr6	128176332	128176332	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccaaacatttcataaatagaGcctaaaaggaaagaaaagtt	6	6	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:128176332G>C	uc003qbi.2	-	3	412	c.93C>G	c.(91-93)GGC>GGG	p.G31G	THEMIS_uc010kfa.2_5'UTR|THEMIS_uc011ebt.1_Silent_p.G31G|THEMIS_uc010kfb.2_5'UTR	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	31	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						CATAAATAGAGCCTAAAAGGA	0.284													21	33	---	---	---	---	PASS	C	128176332	C	C	128176332	2	2	61	1	0	0	0	0	0	0	0	1	15857	985	34	4		4	THEMIS	6	128176332	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	8506582	128176332	42938735	169	23861										
LAMA2	3908	broad.mit.edu	37	chr6	129777610	129777610	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tggatgcaaatgcaatgctgTttgttggtggcctgactggg	15	6	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:129777610T>C	uc003qbn.2	+	47	6943	c.6838T>C	c.(6838-6840)TTT>CTT	p.F2280L	LAMA2_uc003qbo.2_Missense_Mutation_p.F2280L	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2280	Laminin G-like 1.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TGCAATGCTGTTTGTTGGTGG	0.463													103	179	---	---	---	---	PASS	C	129777610	C	C	129777610	3	2	61	1	0	0	0	0	1	0	0	0	8606	1725	60	5	7028	5	LAMA2	6	129777610	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	1601278	129777610	41337457	170	23862										
TAAR9	134860	broad.mit.edu	37	chr6	132859838	132859838	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atacattgctgttactgatcCtctgacctatccaaccaagt	5	12	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:132859838C>T	uc011eci.1	+	2	412	c.410C>T	c.(409-411)CCT>CTT	p.P137L		NM_175057	NP_778227	Q96RI9	TAAR9_HUMAN	trace amine associated receptor 9	137	Cytoplasmic (Potential).					plasma membrane	G-protein coupled receptor activity				0	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.0042)|GBM - Glioblastoma multiforme(226;0.00816)		GTTACTGATCCTCTGACCTAT	0.363													35	58	---	---	---	---	PASS	T	132859838	T	T	132859838	3	4	61	1	0	0	0	0	1	0	0	0	15491	681	24	3	412	3	TAAR9	6	132859838	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	3082228	132859838	38255229	171	23863										
KIAA1244	57221	broad.mit.edu	37	chr6	138655785	138655785	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gagcctcccatcttcaagggCgacccgttcttcatcctgcc	8	17	4	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:138655785C>T	uc003qhu.2	+	33	5802	c.5802C>T	c.(5800-5802)GGC>GGT	p.G1934G		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1934					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		TCTTCAAGGGCGACCCGTTCT	0.562													4	46	---	---	---	---	PASS	T	138655785	T	T	138655785	2	4	61	1	0	0	0	0	0	0	0	1	8217	755	27	1		1	KIAA1244	6	138655785	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	5795947	138655785	32459282	172	23864										
TIAM2	26230	broad.mit.edu	37	chr6	155504519	155504519	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	acaaaagcaaccctgtgtacAtcctggtcagacagtgacct	8	12	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:155504519A>C	uc003qqb.2	+	16	4222	c.2949A>C	c.(2947-2949)ACA>ACC	p.T983T	TIAM2_uc003qqe.2_Silent_p.T983T|TIAM2_uc010kjj.2_Silent_p.T516T|TIAM2_uc003qqf.2_Silent_p.T359T|TIAM2_uc011efl.1_Silent_p.T319T|TIAM2_uc003qqg.2_Silent_p.T295T	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	983					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CCCTGTGTACATCCTGGTCAG	0.527													35	67	---	---	---	---	PASS	C	155504519	C	C	155504519	2	2	61	1	0	0	0	0	0	0	0	1	15888	204	8	5		5	TIAM2	6	155504519	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	16848734	155504519	15610548	173	23865										
C6orf118	168090	broad.mit.edu	37	chr6	165715433	165715433	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttcaggtacctgaacagcggGgtgtcctgggcctcactggg	15	11	2	1	rs34717417	byFrequency	TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:165715433G>T	uc003qum.3	-	2	414	c.378C>A	c.(376-378)ACC>ACA	p.T126T	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	126											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		TGAACAGCGGGGTGTCCTGGG	0.622													16	125	---	---	---	---	PASS	T	165715433	T	T	165715433	2	4	61	1	0	0	0	0	0	0	0	1	2323	1219	43	3		3	C6orf118	6	165715433	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	10210914	165715433	5399634	174	23866										
THBS2	7058	broad.mit.edu	37	chr6	169641892	169641892	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctcgctgagctggttcacgaGgacgtggagccccgagagct	15	12	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:169641892G>A	uc003qwt.2	-	6	1104	c.856C>T	c.(856-858)CTC>TTC	p.L286F		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	286					cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		TGGTTCACGAGGACGTGGAGC	0.672													29	77	---	---	---	---	PASS	A	169641892	A	A	169641892	3	1	61	1	0	0	0	0	1	0	0	0	15851	1000	35	3	2734	3	THBS2	6	169641892	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	3926459	169641892	1473175	175	23867										
ZFAND2A	90637	broad.mit.edu	37	chr7	1195151	1195151	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aatgtgatcaccaaccaccaCgtctggtatctggccctttt	7	13	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:1195151C>G	uc003skc.2	-	4	521	c.220G>C	c.(220-222)GTG>CTG	p.V74L	ZFAND2A_uc003skd.3_Missense_Mutation_p.V74L	NM_182491	NP_872297	Q8N6M9	ZFN2A_HUMAN	zinc finger, AN1-type domain 2A	74						cytoplasm|nucleus	zinc ion binding			ovary(1)	1		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.82e-15)		CCAACCACCACGTCTGGTATC	0.483													52	91	---	---	---	---	PASS	G	1195151	G	G	1195151	3	3	61	1	0	0	0	0	1	0	0	0	17624	536	19	4	225	4	ZFAND2A	7	1195151	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08		1195151	157943512	176	23868										
CRHR2	1395	broad.mit.edu	37	chr7	30706895	30706895	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tagttgatctttgaggcccaCgtcccattctccaagcattc	7	13	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:30706895C>G	uc003tbn.2	-	3	508	c.264G>C	c.(262-264)ACG>ACC	p.T88T	CRHR2_uc010kvw.1_Silent_p.T88T|CRHR2_uc010kvx.1_Silent_p.T88T|CRHR2_uc010kvy.1_Intron|CRHR2_uc003tbo.2_Silent_p.T74T|CRHR2_uc003tbp.2_Silent_p.T115T	NM_001883	NP_001874	Q13324	CRFR2_HUMAN	corticotropin releasing hormone receptor 2	88	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(2)|ovary(1)|skin(1)	4						TTGAGGCCCACGTCCCATTCT	0.537													36	84	---	---	---	---	PASS	G	30706895	G	G	30706895	2	3	61	1	0	0	0	0	0	0	0	1	3872	523	19	4		4	CRHR2	7	30706895	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	29511744	30706895	128431768	177	23869										
CCDC129	223075	broad.mit.edu	37	chr7	31618018	31618018	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agcttgtctcatcttgcaggCaaaggaccagactcatttga	9	10	3	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:31618018C>A	uc003tcj.1	+	8	2133	c.1140C>A	c.(1138-1140)GGC>GGA	p.G380G	CCDC129_uc011kad.1_Silent_p.G390G|CCDC129_uc003tci.1_Intron|CCDC129_uc011kae.1_Silent_p.G406G|CCDC129_uc003tck.1_Silent_p.G288G	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	380											0						ATCTTGCAGGCAAAGGACCAG	0.483													14	35	---	---	---	---	PASS	A	31618018	A	A	31618018	2	1	61	1	0	0	0	0	0	0	0	1	2764	697	25	3		3	CCDC129	7	31618018	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	911123	31618018	127520645	178	23870										
CCDC129	223075	broad.mit.edu	37	chr7	31682532	31682532	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gccatggaggggccaccagaGctgtatatcccagacatggc	13	12	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:31682532G>T	uc003tcj.1	+	11	2541	c.1548G>T	c.(1546-1548)GAG>GAT	p.E516D	CCDC129_uc011kad.1_Missense_Mutation_p.E526D|CCDC129_uc003tci.1_Missense_Mutation_p.E367D|CCDC129_uc011kae.1_Missense_Mutation_p.E542D|CCDC129_uc003tck.1_Missense_Mutation_p.E424D	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	516											0						GGCCACCAGAGCTGTATATCC	0.542													6	126	---	---	---	---	PASS	T	31682532	T	T	31682532	3	4	61	1	0	0	0	0	1	0	0	0	2764	962	34	3	1586	3	CCDC129	7	31682532	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	64514	31682532	127456131	179	23871										
CCDC129	223075	broad.mit.edu	37	chr7	31683037	31683037	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agtcaaggtctggtactttgGgtcagatactacctgggaca	12	8	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:31683037G>A	uc003tcj.1	+	11	3046	c.2053G>A	c.(2053-2055)GGT>AGT	p.G685S	CCDC129_uc011kad.1_Missense_Mutation_p.G695S|CCDC129_uc003tci.1_Missense_Mutation_p.G536S|CCDC129_uc011kae.1_Missense_Mutation_p.G711S|CCDC129_uc003tck.1_Missense_Mutation_p.G593S	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	685											0						TGGTACTTTGGGTCAGATACT	0.498													27	50	---	---	---	---	PASS	A	31683037	A	A	31683037	3	1	61	1	0	0	0	0	1	0	0	0	2764	1232	43	3	2091	3	CCDC129	7	31683037	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	505	31683037	127455626	180	23872										
KBTBD2	25948	broad.mit.edu	37	chr7	32909082	32909082	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggatggatagagtttccccaCagtgcatcgaaaatctctcc	9	11	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:32909082C>A	uc003tdb.2	-	4	2406	c.1747G>T	c.(1747-1749)GTG>TTG	p.V583L	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	583											0			GBM - Glioblastoma multiforme(11;0.0499)			AGTTTCCCCACAGTGCATCGA	0.483													26	110	---	---	---	---	PASS	A	32909082	A	A	32909082	3	1	61	1	0	0	0	0	1	0	0	0	7993	478	17	3	128	3	KBTBD2	7	32909082	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	1226045	32909082	126229581	181	23873										
DPY19L1	23333	broad.mit.edu	37	chr7	35009140	35009140	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcttcctctataaagttttgTagcccttgaaaagataaaat	6	7	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:35009140T>C	uc003tem.3	-	9	845	c.700A>G	c.(700-702)ACA>GCA	p.T234A		NM_015283	NP_056098	Q2PZI1	D19L1_HUMAN	dpy-19-like 1	234						integral to membrane					0						TAAAGTTTTGTAGCCCTTGAA	0.353													24	22	---	---	---	---	PASS	C	35009140	C	C	35009140	3	2	61	1	0	0	0	0	1	0	0	0	4740	1638	57	5	1383	5	DPY19L1	7	35009140	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	2100058	35009140	124129523	182	23874										
PGAM2	5224	broad.mit.edu	37	chr7	44104495	44104495	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcaatgagcactcgcttgccGgccttgatctggggaacaat	12	11	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:44104495G>A	uc003tjs.2	-	2	566	c.531C>T	c.(529-531)GCC>GCT	p.A177A		NM_000290	NP_000281	P15259	PGAM2_HUMAN	phosphoglycerate mutase 2	177					gluconeogenesis|glycolysis|striated muscle contraction	cytosol	2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity				0						CTCGCTTGCCGGCCTTGATCT	0.647													12	22	---	---	---	---	PASS	A	44104495	A	A	44104495	2	1	61	1	0	0	0	0	0	0	0	1	11774	1103	39	1		1	PGAM2	7	44104495	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	9095355	44104495	115034168	183	23875										
MYO1G	64005	broad.mit.edu	37	chr7	45004657	45004657	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctggggcatgtctgaaggggGgatgttcttcaccagctgcc	15	10	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:45004657G>A	uc003tmh.2	-	18	2557	c.2413C>T	c.(2413-2415)CCC>TCC	p.P805S	MYO1G_uc003tmf.2_Missense_Mutation_p.P248S|MYO1G_uc003tmg.2_Missense_Mutation_p.P567S|MYO1G_uc010kym.2_Missense_Mutation_p.P690S	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	805						myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						TCTGAAGGGGGGATGTTCTTC	0.662													26	82	---	---	---	---	PASS	A	45004657	A	A	45004657	3	1	61	1	0	0	0	0	1	0	0	0	10074	1232	43	3	663	3	MYO1G	7	45004657	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	900162	45004657	114134006	184	23876										
CCM2	83605	broad.mit.edu	37	chr7	45113071	45113071	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tttcgcagctgcttccctgaAtctgtggatgtgggtggtgc	14	9	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:45113071A>G	uc003tmo.2	+	8	962	c.816A>G	c.(814-816)GAA>GAG	p.E272E	CCM2_uc003tmn.2_RNA|CCM2_uc003tmp.2_Silent_p.E214E|CCM2_uc003tmq.2_RNA|CCM2_uc003tmr.2_Silent_p.E181E|CCM2_uc003tms.2_Silent_p.E293E	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2	272					endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						GCTTCCCTGAATCTGTGGATG	0.587									Familial_Cerebral_Cavernous_Angioma				5	37	---	---	---	---	PASS	G	45113071	G	G	45113071	2	3	61	1	0	0	0	0	0	0	0	1	2908	98	4	5		5	CCM2	7	45113071	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	108414	45113071	114025592	185	23877										
IKZF1	10320	broad.mit.edu	37	chr7	50467916	50467916	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	caaggccaagttggtgccctCggagcgcgaggcgtccccga	15	14	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:50467916C>A	uc003tow.3	+	9	1319	c.1151C>A	c.(1150-1152)TCG>TAG	p.S384*	IKZF1_uc003tox.3_Nonsense_Mutation_p.S342*|IKZF1_uc003toy.3_Nonsense_Mutation_p.S342*|IKZF1_uc011kck.1_Nonsense_Mutation_p.S297*|IKZF1_uc003toz.3_Nonsense_Mutation_p.S354*|IKZF1_uc010kyx.2_Nonsense_Mutation_p.S124*|IKZF1_uc003tpa.3_Nonsense_Mutation_p.S126*	NM_006060	NP_006051	Q13422	IKZF1_HUMAN	zinc finger protein, subfamily 1A, 1 (Ikaros)	384					cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding			haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				TTGGTGCCCTCGGAGCGCGAG	0.667			D		ALL								6	5	---	---	---	---	PASS	A	50467916	A	A	50467916	4	1	61	1	0	0	0	0	0	1	0	0	7614	893	31	2	1177	2	IKZF1	7	50467916	Nonsense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	5354845	50467916	108670747	186	23878										
TYW1	55253	broad.mit.edu	37	chr7	66703398	66703398	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atcaaaaacgttcagcgcaaAggattatatggccagaactc	8	9	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:66703398A>G	uc003tvn.2	+	16	2230	c.2081A>G	c.(2080-2082)AAG>AGG	p.K694R	TYW1_uc010lai.2_RNA|TYW1_uc011kef.1_Missense_Mutation_p.K308R|PMS2L4_uc003tvo.2_Intron	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	694					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				TTCAGCGCAAAGGATTATATG	0.438													22	61	---	---	---	---	PASS	G	66703398	G	G	66703398	3	3	61	1	0	0	0	0	1	0	0	0	16815	72	3	5	2143	5	TYW1	7	66703398	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	16235482	66703398	92435265	187	23879										
GRM3	2913	broad.mit.edu	37	chr7	86394893	86394893	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atcccacttctcattgcaggGgtcattggtggctcttatag	10	10	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:86394893G>T	uc003uid.2	+	2	1531	c.432G>T	c.(430-432)GGG>GGT	p.G144G	GRM3_uc010lef.2_Silent_p.G142G|GRM3_uc010leg.2_Intron|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	144	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TCATTGCAGGGGTCATTGGTG	0.423													13	103	---	---	---	---	PASS	T	86394893	T	T	86394893	2	4	61	1	0	0	0	0	0	0	0	1	6798	1219	43	3		3	GRM3	7	86394893	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	19691495	86394893	72743770	188	23880										
ABCB4	5244	broad.mit.edu	37	chr7	87069537	87069537	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtggtaatttcatgataaacTcataggcgttggcctctttg	10	7	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:87069537T>A	uc003uiv.1	-	13	1614	c.1538A>T	c.(1537-1539)GAG>GTG	p.E513V	ABCB4_uc003uiw.1_Missense_Mutation_p.E513V|ABCB4_uc003uix.1_Missense_Mutation_p.E513V	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	513	ABC transporter 1.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CATGATAAACTCATAGGCGTT	0.373													35	88	---	---	---	---	PASS	A	87069537	A	A	87069537	3	1	61	1	0	0	0	0	1	0	0	0	43	1551	54	5	2386	5	ABCB4	7	87069537	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	674644	87069537	72069126	189	23881										
PEX1	5189	broad.mit.edu	37	chr7	92120632	92120632	+	Frame_Shift_Del	DEL	C	-	-													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gttctgattcataagagcttCcaaagtagagccggtacata							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:92120632delC	uc003uly.2	-	21	3488	c.3392delG	c.(3391-3393)GGAfs	p.G1131fs	PEX1_uc011khr.1_Frame_Shift_Del_p.G923fs|PEX1_uc010ley.2_Frame_Shift_Del_p.G1074fs|PEX1_uc011khs.1_Frame_Shift_Del_p.G809fs	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	1131					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			ATAAGAGCTTCCAAAGTAGAG	0.383													121	54	---	---	---	---		-	92120632	-	-	92120632	7	5	61	1	0	1	0	1	0	0	0	0	11735	855	30	0	475	0	PEX1	7	92120632	Frame_Shift_Del	DEL	C	TCGA-33-4586-01A-01D-1441-08	5051095	92120632	67018031	190	23882										
MUC17	140453	broad.mit.edu	37	chr7	100682917	100682917	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	acaactgctgaaggtaccagCatgcgaatctcaactcctag	8	12	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:100682917C>T	uc003uxp.1	+	3	8273	c.8220C>T	c.(8218-8220)AGC>AGT	p.S2740S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2740	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|44.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AAGGTACCAGCATGCGAATCT	0.498													87	244	---	---	---	---	PASS	T	100682917	T	T	100682917	2	4	61	1	0	0	0	0	0	0	0	1	9974	709	25	3		3	MUC17	7	100682917	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	8562285	100682917	58455746	191	23883										
ARF5	381	broad.mit.edu	37	chr7	127231092	127231092	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	acatgcccaacgccatgcccGtgagcgagctgactgacaag	11	14	0	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:127231092G>T	uc003vmb.1	+	5	442	c.406G>T	c.(406-408)GTG>TTG	p.V136L	FSCN3_uc003vmc.1_5'Flank|FSCN3_uc011kog.1_5'Flank|FSCN3_uc011koh.1_5'Flank|FSCN3_uc003vmd.1_5'Flank|FSCN3_uc010llc.1_5'Flank	NM_001662	NP_001653	P84085	ARF5_HUMAN	ADP-ribosylation factor 5	136					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	Golgi apparatus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1						CGCCATGCCCGTGAGCGAGCT	0.612													62	251	---	---	---	---	PASS	T	127231092	T	T	127231092	3	4	61	1	0	0	0	0	1	0	0	0	847	1145	40	1	424	1	ARF5	7	127231092	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	26548175	127231092	31907571	192	23884										
FAM131B	9715	broad.mit.edu	37	chr7	143053859	143053859	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aggtccactgcgcctaccccCggagcccagtcagtgtctcc	10	18	2	0	rs144329877	by1000genomes	TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:143053859C>A	uc003wct.2	-	6	2489	c.783G>T	c.(781-783)CCG>CCT	p.P261P	FAM131B_uc010loz.2_Silent_p.P229P|FAM131B_uc003wcu.3_Silent_p.P261P|FAM131B_uc010lpa.2_Silent_p.P289P	NM_014690	NP_055505	Q86XD5	F131B_HUMAN	hypothetical protein LOC9715 isoform b	261											0	Melanoma(164;0.205)					CGCCTACCCCCGGAGCCCAGT	0.622													143	123	---	---	---	---	PASS	A	143053859	A	A	143053859	2	1	61	1	0	0	0	0	0	0	0	1	5440	639	23	1		1	FAM131B	7	143053859	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	15822767	143053859	16084804	193	23885										
NOBOX	135935	broad.mit.edu	37	chr7	144098589	144098589	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgagatggtgcaggagggtgGcagttcctcactctgagtgt	16	7	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:144098589G>T	uc011kue.1	-	4	394	c.394C>A	c.(394-396)CCA>ACA	p.P132T		NM_001080413	NP_001073882	O60393	NOBOX_HUMAN	NOBOX oogenesis homeobox	132					cell differentiation|oogenesis	nucleus	sequence-specific DNA binding			ovary(1)	1	Melanoma(164;0.14)					CAGGAGGGTGGCAGTTCCTCA	0.657													18	77	---	---	---	---	PASS	T	144098589	T	T	144098589	3	4	61	1	0	0	0	0	1	0	0	0	10512	1203	42	3	1613	3	NOBOX	7	144098589	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	1044730	144098589	15040074	194	23886										
CNTNAP2	26047	broad.mit.edu	37	chr7	146818117	146818117	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggccacacatcagtgatgacAggaagtttgctggatgacca	12	9	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:146818117A>G	uc003weu.1	+	6	1317	c.801A>G	c.(799-801)ACA>ACG	p.T267T		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	267	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CAGTGATGACAGGAAGTTTGC	0.517										HNSCC(39;0.1)			72	72	---	---	---	---	PASS	G	146818117	G	G	146818117	2	3	61	1	0	0	0	0	0	0	0	1	3647	175	7	5		5	CNTNAP2	7	146818117	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	2719528	146818117	12320546	195	23887										
CNTNAP2	26047	broad.mit.edu	37	chr7	147844663	147844663	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggtcaccaacccctctcaacGatgaccagtggcaccgggtc	10	16	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:147844663G>A	uc003weu.1	+	17	3151	c.2635G>A	c.(2635-2637)GAT>AAT	p.D879N		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	879	Laminin G-like 3.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CCCTCTCAACGATGACCAGTG	0.562										HNSCC(39;0.1)			106	123	---	---	---	---	PASS	A	147844663	A	A	147844663	3	1	61	1	0	0	0	0	1	0	0	0	3647	1058	37	2	2701	2	CNTNAP2	7	147844663	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	1026546	147844663	11294000	196	23888										
GIMAP1	170575	broad.mit.edu	37	chr7	150417936	150417936	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggctgggcctggccctgctgCtggggggcgcgctcctgttc	18	14	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:150417936C>T	uc003whq.2	+	3	931	c.844C>T	c.(844-846)CTG>TTG	p.L282L	GIMAP1_uc003whp.2_Silent_p.L290L	NM_130759	NP_570115	Q8WWP7	GIMA1_HUMAN	GTPase, IMAP family member 1	282	Helical; Anchor for type IV membrane protein; (Potential).					endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGCCCTGCTGCTGGGGGGCGC	0.697													4	23	---	---	---	---	PASS	T	150417936	T	T	150417936	2	4	61	1	0	0	0	0	0	0	0	1	6379	796	28	3		3	GIMAP1	7	150417936	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	2573273	150417936	8720727	197	23889										
TMEM176A	55365	broad.mit.edu	37	chr7	150499388	150499388	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	caccctcctcgtcacctcggGagctgccatctggacagggg	12	16	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:150499388G>T	uc003whx.1	+	3	338	c.260G>T	c.(259-261)GGA>GTA	p.G87V	TMEM176B_uc003whu.3_5'Flank|TMEM176B_uc003whv.3_5'Flank|TMEM176B_uc003whw.3_5'Flank	NM_018487	NP_060957	Q96HP8	T176A_HUMAN	hepatocellular carcinoma-associated antigen 112	87	Helical; (Potential).					integral to membrane				ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GTCACCTCGGGAGCTGCCATC	0.562													41	48	---	---	---	---	PASS	T	150499388	T	T	150499388	3	4	61	1	0	0	0	0	1	0	0	0	16089	1174	41	2	266	2	TMEM176A	7	150499388	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	81452	150499388	8639275	198	23890										
C8orf79	57604	broad.mit.edu	37	chr8	12879025	12879025	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aacacagaagtttgggccagTagcactgtaacagtccagcc	10	11	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:12879025T>C	uc010lsq.2	+	5	1329	c.837T>C	c.(835-837)AGT>AGC	p.S279S	C8orf79_uc011kxw.1_Intron|C8orf79_uc003wwj.3_Silent_p.S192S|C8orf79_uc010lsr.2_Silent_p.S153S	NM_020844	NP_065895	Q9P272	K1456_HUMAN	hypothetical protein LOC57604 isoform 1	279							methyltransferase activity				0						TTTGGGCCAGTAGCACTGTAA	0.423													27	45	---	---	---	---	PASS	C	12879025	C	C	12879025	2	2	61	1	0	0	0	0	0	0	0	1	2438	1635	57	5		5	C8orf79	8	12879025	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08		12879025	133484997	199	23891										
STC1	6781	broad.mit.edu	37	chr8	23709836	23709836	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtgtcacaggtggagttttcCaggcatgcaaaagccccgca	12	11	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:23709836C>A	uc003xdw.1	-	2	464	c.180G>T	c.(178-180)CTG>CTT	p.L60L		NM_003155	NP_003146	P52823	STC1_HUMAN	stanniocalcin 1 precursor	60					cell surface receptor linked signaling pathway|cell-cell signaling|cellular calcium ion homeostasis		hormone activity			skin(3)|upper_aerodigestive_tract(1)	4		Prostate(55;0.055)|Breast(100;0.116)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		TGGAGTTTTCCAGGCATGCAA	0.478													45	61	---	---	---	---	PASS	A	23709836	A	A	23709836	2	1	61	1	0	0	0	0	0	0	0	1	15274	581	21	3		3	STC1	8	23709836	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	10830811	23709836	122654186	200	23892										
ADAM7	8756	broad.mit.edu	37	chr8	24342837	24342837	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aggaatttcttatccaggggGtatgtgcctgccctattatt	10	8	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:24342837G>C	uc003xeb.2	+	10	1036	c.923G>C	c.(922-924)GGT>GCT	p.G308A	ADAM7_uc003xec.2_Missense_Mutation_p.G80A	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	308	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		TATCCAGGGGGTATGTGCCTG	0.353													51	92	---	---	---	---	PASS	C	24342837	C	C	24342837	3	2	61	1	0	0	0	0	1	0	0	0	251	1261	44	4	961	4	ADAM7	8	24342837	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	633001	24342837	122021185	201	23893										
TEX15	56154	broad.mit.edu	37	chr8	30705226	30705226	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tctttatagtctctctgaatGttctctaatgacactggttc	6	9	4	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:30705226G>A	uc003xil.2	-	1	1308	c.1308C>T	c.(1306-1308)AAC>AAT	p.N436N		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	436										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		CTCTCTGAATGTTCTCTAATG	0.348													57	129	---	---	---	---	PASS	A	30705226	A	A	30705226	2	1	61	1	0	0	0	0	0	0	0	1	15776	1368	48	3		3	TEX15	8	30705226	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	6362389	30705226	115658796	202	23894										
WRN	7486	broad.mit.edu	37	chr8	31024623	31024623	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atggcaattgagatccttaaAcatggtcctgacagcggact	10	9	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:31024623A>G	uc003xio.3	+	34	4856	c.4068A>G	c.(4066-4068)AAA>AAG	p.K1356K	WRN_uc010lvk.2_Silent_p.K823K	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	1356					base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		AGATCCTTAAACATGGTCCTG	0.388			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				20	29	---	---	---	---	PASS	G	31024623	G	G	31024623	2	3	61	1	0	0	0	0	0	0	0	1	17399	40	2	5		5	WRN	8	31024623	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	319397	31024623	115339399	203	23895										
KCNU1	157855	broad.mit.edu	37	chr8	36698064	36698064	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	caacgtctctctgatgacttTgctggaatgagctttcctga	9	10	2	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:36698064T>C	uc010lvw.2	+	15	1689	c.1602T>C	c.(1600-1602)TTT>TTC	p.F534F	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	534	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		CTGATGACTTTGCTGGAATGA	0.343													14	19	---	---	---	---	PASS	C	36698064	C	C	36698064	2	2	61	1	0	0	0	0	0	0	0	1	8093	1809	63	5		5	KCNU1	8	36698064	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	5673441	36698064	109665958	204	23896										
ADAM2	2515	broad.mit.edu	37	chr8	39606830	39606830	+	Splice_Site	DEL	C	-	-													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgatttattattaatacttaCcagggagtctggctggtata					rs73676913	byFrequency	TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:39606830delC	uc003xnj.2	-	18	2089	c.2014_splice	c.e18+1	p.E672_splice	ADAM2_uc003xnk.2_Splice_Site_p.E653_splice|ADAM2_uc011lck.1_Splice_Site_p.E609_splice|ADAM2_uc003xnl.2_Splice_Site_p.E516_splice	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein						cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		ttaataCTTACCAGGGAGTCT	0.294													72	37	---	---	---	---		-	39606830	-	-	39606830	8	5	61	1	0	1	0	1	0	0	1	0	241	521	18	0	204	0	ADAM2	8	39606830	Splice_Site	DEL	C	TCGA-33-4586-01A-01D-1441-08	2908766	39606830	106757192	205	23897										
MYST3	7994	broad.mit.edu	37	chr8	41834527	41834527	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtctgttctaaactcttaccTgtgggccaatctgaagtgct	9	10	4	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:41834527T>A	uc010lxb.2	-	8	1906	c.1362A>T	c.(1360-1362)ACA>ACT	p.T454T	MYST3_uc010lxc.2_Silent_p.T454T|MYST3_uc003xon.3_Silent_p.T454T|MYST3_uc010lxd.2_Silent_p.T454T	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	454	Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			AACTCTTACCTGTGGGCCAAT	0.388													35	92	---	---	---	---	PASS	A	41834527	A	A	41834527	2	1	61	1	0	0	0	0	0	0	0	1	10104	1594	55	5		5	MYST3	8	41834527	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	2227697	41834527	104529495	206	23898										
SGK196	84197	broad.mit.edu	37	chr8	42977586	42977586	+	Frame_Shift_Del	DEL	G	-	-													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gggtcatgtgcgactccaacGacctgccgaagacactgtcc							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:42977586delG	uc003xpw.2	+	5	878	c.619delG	c.(619-621)GACfs	p.D207fs		NM_032237	NP_115613	Q9H5K3	SG196_HUMAN	protein kinase-like protein SgK196	207	Protein kinase.					integral to membrane	ATP binding|protein kinase activity				0						CGACTCCAACGACCTGCCGAA	0.552													49	32	---	---	---	---		-	42977586	-	-	42977586	7	5	61	1	0	1	0	1	0	0	0	0	14208	1058	37	0	625	0	SGK196	8	42977586	Frame_Shift_Del	DEL	G	TCGA-33-4586-01A-01D-1441-08	1143059	42977586	103386436	207	23899										
ST18	9705	broad.mit.edu	37	chr8	53030927	53030927	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aagtttcatcatatctgcttCaattttaaggttggattcat	6	6	5	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:53030927C>T	uc003xqz.2	-	19	2986	c.2830G>A	c.(2830-2832)GAA>AAA	p.E944K	ST18_uc011ldq.1_Missense_Mutation_p.E591K|ST18_uc011ldr.1_Missense_Mutation_p.E909K|ST18_uc011lds.1_Missense_Mutation_p.E849K|ST18_uc003xra.2_Missense_Mutation_p.E944K	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	944	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				ATATCTGCTTCAATTTTAAGG	0.308													29	45	---	---	---	---	PASS	T	53030927	T	T	53030927	3	4	61	1	0	0	0	0	1	0	0	0	15211	835	29	2	325	2	ST18	8	53030927	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	10053341	53030927	93333095	208	23900										
ZFHX4	79776	broad.mit.edu	37	chr8	77765162	77765162	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttctccatcttctccagaaaCgccgcccccgccacctcctc	4	22	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:77765162C>G	uc003yav.2	+	10	6257	c.5870C>G	c.(5869-5871)ACG>AGG	p.T1957R	ZFHX4_uc003yau.1_Missense_Mutation_p.T2002R|ZFHX4_uc003yaw.1_Missense_Mutation_p.T1957R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1957	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCTCCAGAAACGccgcccccg	0.318										HNSCC(33;0.089)			5	8	---	---	---	---	PASS	G	77765162	G	G	77765162	3	3	61	1	0	0	0	0	1	0	0	0	17632	536	19	4	6039	4	ZFHX4	8	77765162	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	24734235	77765162	68598860	209	23901										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885555	88885555	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccaaatgactgctggtgtccCgtcaccacgttggtcaacag	10	13	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:88885555C>G	uc003ydz.2	-	1	742	c.645G>C	c.(643-645)ACG>ACC	p.T215T		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	215										ovary(1)	1						GCTGGTGTCCCGTCACCACGT	0.542													54	132	---	---	---	---	PASS	G	88885555	G	G	88885555	2	3	61	1	0	0	0	0	0	0	0	1	4272	639	23	4		4	DCAF4L2	8	88885555	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	11120393	88885555	57478467	210	23902										
RUNX1T1	862	broad.mit.edu	37	chr8	93017503	93017503	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttgcgcagtggaggagctcaCgctgcagcaggggcaagttg	17	9	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:93017503C>A	uc003yfd.2	-	5	665	c.581G>T	c.(580-582)CGT>CTT	p.R194L	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R167L|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R157L|RUNX1T1_uc010mao.2_Missense_Mutation_p.R167L|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R205L|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R157L|RUNX1T1_uc003yff.1_Missense_Mutation_p.R157L	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	194	TAFH.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GAGGAGCTCACGCTGCAGCAG	0.547													26	55	---	---	---	---	PASS	A	93017503	A	A	93017503	3	1	61	1	0	0	0	0	1	0	0	0	13747	536	19	1	1261	1	RUNX1T1	8	93017503	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	4131948	93017503	53346519	211	23903										
FZD6	8323	broad.mit.edu	37	chr8	104330981	104330981	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aaaattaattgacacttttgGgatccgatggcctgaggagc	11	7	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:104330981G>T	uc003ylh.2	+	3	625	c.341G>T	c.(340-342)GGG>GTG	p.G114V	FZD6_uc003yli.2_Missense_Mutation_p.G114V|FZD6_uc003ylj.2_Missense_Mutation_p.G114V|FZD6_uc011lhn.1_Missense_Mutation_p.G80V|FZD6_uc011lho.1_Intron|FZD6_uc011lhp.1_Missense_Mutation_p.G59V	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	114	FZ.|Extracellular (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			GACACTTTTGGGATCCGATGG	0.378													5	124	---	---	---	---	PASS	T	104330981	T	T	104330981	3	4	61	1	0	0	0	0	1	0	0	0	6134	1232	43	3	347	3	FZD6	8	104330981	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	11313478	104330981	42033041	212	23904										
PKHD1L1	93035	broad.mit.edu	37	chr8	110457003	110457003	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atcagggaaactgtcactttGactgtctacaacctgggcac	9	11	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:110457003G>T	uc003yne.2	+	38	5009	c.4905G>T	c.(4903-4905)TTG>TTT	p.L1635F		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1635	Extracellular (Potential).|IPT/TIG 8.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CTGTCACTTTGACTGTCTACA	0.423										HNSCC(38;0.096)			133	257	---	---	---	---	PASS	T	110457003	T	T	110457003	3	4	61	1	0	0	0	0	1	0	0	0	11972	1281	45	2	5055	2	PKHD1L1	8	110457003	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	6126022	110457003	35907019	213	23905										
MED30	90390	broad.mit.edu	37	chr8	118533154	118533154	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gccgcgtcggggatggcgccCgggcccttcgccgggcccca	17	18	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:118533154C>T	uc003yoj.2	+	1	190	c.39C>T	c.(37-39)CCC>CCT	p.P13P	MED30_uc011lib.1_Silent_p.P13P	NM_080651	NP_542382	Q96HR3	MED30_HUMAN	TRAP/Mediator complex component TRAP25	13					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding				0	all_cancers(13;3.41e-25)|Lung NSC(37;3.02e-05)|Ovarian(258;0.00163)		STAD - Stomach adenocarcinoma(47;0.0266)			GGATGGCGCCCGGGCCCTTCG	0.716													8	14	---	---	---	---	PASS	T	118533154	T	T	118533154	2	4	61	1	0	0	0	0	0	0	0	1	9448	639	23	1		1	MED30	8	118533154	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	8076151	118533154	27830868	214	23906										
KCNQ3	3786	broad.mit.edu	37	chr8	133142111	133142111	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atcggaatacctgttgtcctCcttcttctctgcttcagctg	7	13	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:133142111C>A	uc003ytj.2	-	15	2242	c.2017G>T	c.(2017-2019)GAG>TAG	p.E673*	KCNQ3_uc010mdt.2_Nonsense_Mutation_p.E661*	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	673					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			CTGTTGTCCTCCTTCTTCTCT	0.527													53	136	---	---	---	---	PASS	A	133142111	A	A	133142111	4	1	61	1	0	0	0	0	0	1	0	0	8084	864	30	2	605	2	KCNQ3	8	133142111	Nonsense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	14608957	133142111	13221911	215	23907										
FAM135B	51059	broad.mit.edu	37	chr8	139189639	139189639	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tttttggtgctccatgtaaaAgaaggcctcagaaaaccttc	8	9	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:139189639A>T	uc003yuy.2	-	11	1225	c.1054T>A	c.(1054-1056)TTT>ATT	p.F352I	FAM135B_uc003yux.2_Missense_Mutation_p.F253I|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	352										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)			TCCATGTAAAAGAAGGCCTCA	0.403										HNSCC(54;0.14)			18	41	---	---	---	---	PASS	T	139189639	T	T	139189639	3	4	61	1	0	0	0	0	1	0	0	0	5449	72	3	5	3206	5	FAM135B	8	139189639	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	6047528	139189639	7174383	216	23908										
COL22A1	169044	broad.mit.edu	37	chr8	139674290	139674290	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tacgtcccggccggctgggcCctgggggccagggaatccag	17	14	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:139674290C>A	uc003yvd.2	-	43	3670	c.3223G>T	c.(3223-3225)GGC>TGC	p.G1075C	COL22A1_uc011ljo.1_Missense_Mutation_p.G355C	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1075	Pro-rich.|Gly-rich.|Collagen-like 9.				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)			CCGGCTGGGCCCTGGGGGCCA	0.552										HNSCC(7;0.00092)			38	104	---	---	---	---	PASS	A	139674290	A	A	139674290	3	1	61	1	0	0	0	0	1	0	0	0	3681	623	22	3	1749	3	COL22A1	8	139674290	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	484651	139674290	6689732	217	23909										
EPPK1	83481	broad.mit.edu	37	chr8	144945978	144945978	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccgagtgctgtacttgatgaAtgggggtccctggggctccc	15	11	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:144945978A>G	uc003zaa.1	-	1	1457	c.1444T>C	c.(1444-1446)TTC>CTC	p.F482L		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	482						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TACTTGATGAATGGGGGTCCC	0.677													12	35	---	---	---	---	PASS	G	144945978	G	G	144945978	3	3	61	1	0	0	0	0	1	0	0	0	5190	101	4	5	5822	5	EPPK1	8	144945978	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	5271688	144945978	1418044	218	23910										
KANK1	23189	broad.mit.edu	37	chr9	745225	745225	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tggccccacccaccgaggttCatttgattgattgtatgcaa	9	11	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:745225C>T	uc003zgl.1	+	16	4698	c.4049C>T	c.(4048-4050)TCA>TTA	p.S1350L	KANK1_uc003zgn.1_Missense_Mutation_p.S1350L|KANK1_uc003zgs.1_Missense_Mutation_p.S1192L|KANK1_uc010mgx.1_Missense_Mutation_p.S328L|KANK1_uc010mgy.1_Missense_Mutation_p.S262L|KANK1_uc003zgt.1_3'UTR	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	1350					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		CACCGAGGTTCATTTGATTGA	0.453													202	119	---	---	---	---	PASS	T	745225	T	T	745225	3	4	61	1	0	0	0	0	1	0	0	0	7976	838	29	2	4091	2	KANK1	9	745225	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08		745225	140468206	219	23911										
PTPRD	5789	broad.mit.edu	37	chr9	8527345	8527345	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cttcagaactaagcacttacCaatagattctggagatttaa	6	8	2	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:8527345C>A	uc003zkk.2	-	15	1261	c.550G>T	c.(550-552)GGT>TGT	p.G184C	PTPRD_uc003zkp.2_Missense_Mutation_p.G184C|PTPRD_uc003zkq.2_Missense_Mutation_p.G184C|PTPRD_uc003zkr.2_Nonsense_Mutation_p.G184*|PTPRD_uc003zks.2_Nonsense_Mutation_p.G184*|PTPRD_uc003zkl.2_Missense_Mutation_p.G184C|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Missense_Mutation_p.G184C|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	184	Extracellular (Potential).|Ig-like C2-type 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		AAGCACTTACCAATAGATTCT	0.289										TSP Lung(15;0.13)			11	101	---	---	---	---	PASS	A	8527345	A	A	8527345	3	1	61	1	0	0	0	0	1	0	0	0	12799	608	21	3	5380	3	PTPRD	9	8527345	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	7782120	8527345	132686086	220	23912										
MLLT3	4300	broad.mit.edu	37	chr9	20414001	20414001	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gaaatgggcggccttttactAggagccttcttatcttgtcc	10	10	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:20414001A>C	uc003zoe.2	-	5	1102	c.843T>G	c.(841-843)CCT>CCG	p.P281P	MLLT3_uc011lne.1_Silent_p.P249P|MLLT3_uc011lnf.1_Silent_p.P278P|MLLT3_uc003zof.2_Silent_p.P82P	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	281					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		GCCTTTTACTAGGAGCCTTCT	0.418			T	MLL	ALL								205	186	---	---	---	---	PASS	C	20414001	C	C	20414001	2	2	61	1	0	0	0	0	0	0	0	1	9628	407	15	5		5	MLLT3	9	20414001	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	11886656	20414001	120799430	221	23913										
ELAVL2	1993	broad.mit.edu	37	chr9	23762131	23762131	+	Silent	SNP	T	C	C													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aagttggtcttgctgtcttcTgtgttcccagagtcaactgg							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:23762131T>C	uc003zpu.2	-	2	377	c.102A>G	c.(100-102)ACA>ACG	p.T34T	ELAVL2_uc003zps.2_Silent_p.T34T|ELAVL2_uc003zpt.2_Silent_p.T34T|ELAVL2_uc003zpv.2_Silent_p.T34T|ELAVL2_uc003zpw.2_Silent_p.T34T	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	34					regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		TGCTGTCTTCTGTGTTCCCAG	0.443													229	159	---	---	---	---	PASS	C	23762131	C	C	23762131	2	2	61	1	0	0	0	0	0	0	0	1	5050	1567	55	5		5	ELAVL2	9	23762131	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	3348130	23762131	117451300	222	23914	520	2								
ELAVL2	1993	broad.mit.edu	37	chr9	23762132	23762132	+	Missense_Mutation	SNP	G	T	T													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agttggtcttgctgtcttctGtgttcccagagtcaactggt							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:23762132G>T	uc003zpu.2	-	2	376	c.101C>A	c.(100-102)ACA>AAA	p.T34K	ELAVL2_uc003zps.2_Missense_Mutation_p.T34K|ELAVL2_uc003zpt.2_Missense_Mutation_p.T34K|ELAVL2_uc003zpv.2_Missense_Mutation_p.T34K|ELAVL2_uc003zpw.2_Missense_Mutation_p.T34K	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	34					regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		GCTGTCTTCTGTGTTCCCAGA	0.443													232	159	---	---	---	---	PASS	T	23762132	T	T	23762132	3	4	61	1	0	0	0	0	1	0	0	0	5050	1377	48	3	1002	3	ELAVL2	9	23762132	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	1	23762132	117451299	223	23915	520	2								
C9orf79	286234	broad.mit.edu	37	chr9	90502802	90502802	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcctgtgccttccaggccgcCacatggacatgctcactgcc	10	17	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:90502802C>A	uc004app.3	+	4	3435	c.3400C>A	c.(3400-3402)CAC>AAC	p.H1134N		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	1134						integral to membrane				ovary(3)	3						TCCAGGCCGCCACATGGACAT	0.652													18	64	---	---	---	---	PASS	A	90502802	A	A	90502802	3	1	61	1	0	0	0	0	1	0	0	0	2497	594	21	3	3414	3	C9orf79	9	90502802	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	66740670	90502802	50710629	224	23916										
RGS3	5998	broad.mit.edu	37	chr9	116357881	116357881	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gatccgttctcctcacagacGggttagcagtgttccaagcc	10	13	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:116357881G>T	uc004bhq.2	+	25	3456	c.3247G>T	c.(3247-3249)GGG>TGG	p.G1083W	RGS3_uc004bhs.2_Missense_Mutation_p.G973W|RGS3_uc004bht.2_Missense_Mutation_p.G802W|RGS3_uc010muy.2_Missense_Mutation_p.G476W|RGS3_uc004bhv.2_Missense_Mutation_p.G404W|RGS3_uc004bhw.2_Missense_Mutation_p.G53W|RGS3_uc011lxh.1_Missense_Mutation_p.G393W|RGS3_uc004bhx.2_Missense_Mutation_p.G404W|RGS3_uc004bhz.2_Missense_Mutation_p.G425W|RGS3_uc004bia.2_Missense_Mutation_p.G196W	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	1083	RGS.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						CCTCACAGACGGGTTAGCAGT	0.522													53	45	---	---	---	---	PASS	T	116357881	T	T	116357881	3	4	61	1	0	0	0	0	1	0	0	0	13306	1116	39	1	4017	1	RGS3	9	116357881	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	25855079	116357881	24855550	225	23917										
COL27A1	85301	broad.mit.edu	37	chr9	117051248	117051248	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	caggccagcagggccaacccGtgagtggtgcttcgtgtccc	14	14	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:117051248G>A	uc011lxl.1	+	44	4152	c.4152_splice	c.e44+1	p.P1384_splice	COL27A1_uc004bii.2_Splice_Site	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor						cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GGGCCAACCCGTGAGTGGTGC	0.617													23	54	---	---	---	---	PASS	A	117051248	A	A	117051248	5	1	61	1	0	0	0	0	0	0	1	0	3685	1159	40	1	4327	1	COL27A1	9	117051248	Splice_Site	SNP	G	TCGA-33-4586-01A-01D-1441-08	693367	117051248	24162183	226	23918										
ORM1	5004	broad.mit.edu	37	chr9	117094113	117094113	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gctccccctgcagctgacaaGccagagacgaccaaggagca	11	15	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:117094113G>T	uc011lxo.1	+	5	555	c.444G>T	c.(442-444)AAG>AAT	p.K148N	ORM2_uc004bil.2_Missense_Mutation_p.K148N	NM_000607	NP_000598	P02763	A1AG1_HUMAN	orosomucoid 1 precursor	148					acute-phase response|regulation of immune system process|transport	extracellular space	protein binding				0		Myeloproliferative disorder(63;0.163)			Acenocoumarol(DB01418)|Alfentanil(DB00802)|Aprindine(DB01429)|Disopyramide(DB00280)|Penbutolol(DB01359)|Phenprocoumon(DB00946)|Quinidine(DB00908)|Tamsulosin(DB00706)	CAGCTGACAAGCCAGAGACGA	0.612													15	44	---	---	---	---	PASS	T	117094113	T	T	117094113	3	4	61	1	0	0	0	0	1	0	0	0	11267	962	34	3		3	ORM1	9	117094113	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	42865	117094113	24119318	227	23919										
TNC	3371	broad.mit.edu	37	chr9	117793909	117793909	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcttggctgtgtagtgggtgGatgggctcaggtctgccagg	18	7	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:117793909G>T	uc004bjj.3	-	23	6205	c.5843C>A	c.(5842-5844)TCC>TAC	p.S1948Y	TNC_uc010mvf.2_Missense_Mutation_p.S1675Y	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1948	Fibronectin type-III 15.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GTAGTGGGTGGATGGGCTCAG	0.512													99	67	---	---	---	---	PASS	T	117793909	T	T	117793909	3	4	61	1	0	0	0	0	1	0	0	0	16267	1174	41	2	786	2	TNC	9	117793909	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	699796	117793909	23419522	228	23920										
DBC1	1620	broad.mit.edu	37	chr9	122004458	122004458	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tccctgacttcctgtcgaggCgacttttgtccatatacatg	8	12	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:122004458C>A	uc004bkc.2	-	4	902	c.446G>T	c.(445-447)CGC>CTC	p.R149L	DBC1_uc004bkd.2_Missense_Mutation_p.R149L	NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	149	MACPF.				cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						CCTGTCGAGGCGACTTTTGTC	0.493													35	38	---	---	---	---	PASS	A	122004458	A	A	122004458	3	1	61	1	0	0	0	0	1	0	0	0	4247	768	27	1	1859	1	DBC1	9	122004458	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	4210549	122004458	19208973	229	23921										
MRPL41	64975	broad.mit.edu	37	chr9	140446840	140446840	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tggcgcctgccatcgaaaagGacttcaaggacggtaccttc	11	12	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:140446840G>T	uc004cnh.3	+	2	437	c.307G>T	c.(307-309)GAC>TAC	p.D103Y	PNPLA7_uc010ncj.1_5'Flank|PNPLA7_uc004cnf.2_5'Flank	NM_032477	NP_115866	Q8IXM3	RM41_HUMAN	mitochondrial ribosomal protein L41	103					apoptosis|cell cycle|translation	mitochondrial large ribosomal subunit	structural constituent of ribosome				0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000415)|Epithelial(140;0.00106)		CATCGAAAAGGACTTCAAGGA	0.612													31	21	---	---	---	---	PASS	T	140446840	T	T	140446840	3	4	61	1	0	0	0	0	1	0	0	0	9805	1174	41	2	309	2	MRPL41	9	140446840	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	18442382	140446840	766591	230	23922										
ITIH2	3698	broad.mit.edu	37	chr10	7762836	7762836	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	taggtagatgtgtgggttatCgaaccacagggactgagatt	14	5	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:7762836C>G	uc001ijs.2	+	7	810	c.648C>G	c.(646-648)ATC>ATG	p.I216M		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	216					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						TGTGGGTTATCGAACCACAGG	0.393													31	56	---	---	---	---	PASS	G	7762836	G	G	7762836	3	3	61	1	0	0	0	0	1	0	0	0	7904	874	31	2	674	2	ITIH2	10	7762836	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08		7762836	127771911	231	23923										
USP6NL	9712	broad.mit.edu	37	chr10	11505306	11505306	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agtggagccccgcttcccgtCctcagcatccagggccttca	10	17	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:11505306C>A	uc001ikt.3	-	15	1942	c.1621G>T	c.(1621-1623)GAC>TAC	p.D541Y	USP6NL_uc001iks.1_Missense_Mutation_p.D558Y	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	541						intracellular	Rab GTPase activator activity				0						CGCTTCCCGTCCTCAGCATCC	0.667													35	73	---	---	---	---	PASS	A	11505306	A	A	11505306	3	1	61	1	0	0	0	0	1	0	0	0	17084	855	30	2	869	2	USP6NL	10	11505306	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	3742470	11505306	124029441	232	23924										
ZNF239	8187	broad.mit.edu	37	chr10	44053146	44053146	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	accatttaacaatggcgaggCcagttcttgtccatcagaca	8	11	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:44053146C>A	uc001jaw.3	-	2	1035	c.382G>T	c.(382-384)GCC>TCC	p.A128S	ZNF239_uc001jax.3_Missense_Mutation_p.A128S|ZNF239_uc009xmj.2_Missense_Mutation_p.A128S|ZNF239_uc009xmk.2_Missense_Mutation_p.A128S	NM_005674	NP_005665	Q16600	ZN239_HUMAN	zinc finger protein 239	128					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|RNA binding|zinc ion binding				0						AATGGCGAGGCCAGTTCTTGT	0.418													52	84	---	---	---	---	PASS	A	44053146	A	A	44053146	3	1	61	1	0	0	0	0	1	0	0	0	17788	739	26	3	998	3	ZNF239	10	44053146	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	32547840	44053146	91481601	233	23925										
GPRIN2	9721	broad.mit.edu	37	chr10	46999982	46999982	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atgtgttcccagaggtaactCtggggtccagcctggaggag	15	9	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:46999982C>G	uc001jec.2	+	3	1237	c.1102C>G	c.(1102-1104)CTG>GTG	p.L368V	GPRIN2_uc010qfq.1_Missense_Mutation_p.L131V	NM_014696	NP_055511	O60269	GRIN2_HUMAN	G protein-regulated inducer of neurite outgrowth	368											0						AGAGGTAACTCTGGGGTCCAG	0.667													23	46	---	---	---	---	PASS	G	46999982	G	G	46999982	3	3	61	1	0	0	0	0	1	0	0	0	6730	912	32	2	1104	2	GPRIN2	10	46999982	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	2946836	46999982	88534765	234	23926										
PRKG1	5592	broad.mit.edu	37	chr10	53893617	53893617	+	Frame_Shift_Del	DEL	C	-	-													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tagggaagatgtgagaacagCaaacgtaattgctgcagaag							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:53893617delC	uc001jjm.2	+	8	1102	c.908delC	c.(907-909)GCAfs	p.A303fs	PRKG1_uc001jjo.2_Frame_Shift_Del_p.A318fs|PRKG1_uc009xow.1_Frame_Shift_Del_p.A21fs	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	303	cGMP 2.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		GTGAGAACAGCAAACGTAATT	0.338													40	28	---	---	---	---		-	53893617	-	-	53893617	7	5	61	1	0	1	0	1	0	0	0	0	12522	710	25	0	1253	0	PRKG1	10	53893617	Frame_Shift_Del	DEL	C	TCGA-33-4586-01A-01D-1441-08	6893635	53893617	81641130	235	23927										
DUPD1	338599	broad.mit.edu	37	chr10	76797658	76797658	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	accgtcgcctctgctgcaccAgctgcttgtccagctcccgg	10	18	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:76797658A>T	uc001jwq.1	-	3	599	c.599T>A	c.(598-600)CTG>CAG	p.L200Q		NM_001003892	NP_001003892	Q68J44	DUPD1_HUMAN	dual specificity phosphatase and pro isomerase	200	Tyrosine-protein phosphatase.					cytoplasm	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)	2	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					CTGCTGCACCAGCTGCTTGTC	0.657													43	47	---	---	---	---	PASS	T	76797658	T	T	76797658	3	4	61	1	0	0	0	0	1	0	0	0	4804	188	7	5	67	5	DUPD1	10	76797658	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	22904041	76797658	58737089	236	23928										
GRID1	2894	broad.mit.edu	37	chr10	87489309	87489309	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agagtcaatccttggaggcgGctgcccatgggcctctcttg	13	12	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:87489309G>A	uc001kdl.1	-	9	1397	c.1296C>T	c.(1294-1296)AGC>AGT	p.S432S	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Silent_p.S3S	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	432	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CTTGGAGGCGGCTGCCCATGG	0.517										Multiple Myeloma(13;0.14)			3	42	---	---	---	---	PASS	A	87489309	A	A	87489309	2	1	61	1	0	0	0	0	0	0	0	1	6771	1194	42	3		3	GRID1	10	87489309	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	10691651	87489309	48045438	237	23929										
HSPA12A	259217	broad.mit.edu	37	chr10	118434309	118434309	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gggttagtaatttaagaagtCgatcccaactttgacactct	8	8	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:118434309C>T	uc001lct.2	-	12	2116	c.2011G>A	c.(2011-2013)GAC>AAC	p.D671N	HSPA12A_uc001lcu.2_Missense_Mutation_p.D588N	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	671							ATP binding			ovary(1)	1				all cancers(201;0.0158)		TTTAAGAAGTCGATCCCAACT	0.522													28	43	---	---	---	---	PASS	T	118434309	T	T	118434309	3	4	61	1	0	0	0	0	1	0	0	0	7404	884	31	2	20	2	HSPA12A	10	118434309	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	30945000	118434309	17100438	238	23930										
DMBT1	1755	broad.mit.edu	37	chr10	124358454	124358454	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgggctgtggctgggccatgTcagccccaggaaatgcccgg	16	12	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:124358454T>A	uc001lgk.1	+	26	3227	c.3121T>A	c.(3121-3123)TCA>ACA	p.S1041T	DMBT1_uc001lgl.1_Missense_Mutation_p.S1031T|DMBT1_uc001lgm.1_Missense_Mutation_p.S542T|DMBT1_uc009xzz.1_Missense_Mutation_p.S1041T|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yab.1_Missense_Mutation_p.S2T	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1041	SRCR 8.				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)				CTGGGCCATGTCAGCCCCAGG	0.607													93	139	---	---	---	---	PASS	A	124358454	A	A	124358454	3	1	61	1	0	0	0	0	1	0	0	0	4577	1667	58	5	3223	5	DMBT1	10	124358454	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	5924145	124358454	11176293	239	23931										
IKZF5	64376	broad.mit.edu	37	chr10	124754084	124754084	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	taccattttatgcttgcgccTtcgatgatgggacaagttac	9	9	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:124754084T>C	uc001lha.2	-	5	771	c.472A>G	c.(472-474)AGG>GGG	p.R158G	IKZF5_uc001lgz.2_5'UTR	NM_022466	NP_071911	Q9H5V7	IKZF5_HUMAN	zinc finger protein, subfamily 1A, 5	158	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_neural(114;0.169)|Colorectal(57;0.178)|Glioma(114;0.222)		Colorectal(40;0.0701)|COAD - Colon adenocarcinoma(40;0.0754)		TGCTTGCGCCTTCGATGATGG	0.423													46	52	---	---	---	---	PASS	C	124754084	C	C	124754084	3	2	61	1	0	0	0	0	1	0	0	0	7618	1608	56	5	791	5	IKZF5	10	124754084	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	395630	124754084	10780663	240	23932										
FAM53B	9679	broad.mit.edu	37	chr10	126370538	126370538	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtggtggagtcctgcctggtCgcagggtgaggagagcacgt	19	8	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:126370538C>A	uc001lhv.1	-	4	1067	c.544G>T	c.(544-546)GAC>TAC	p.D182Y	FAM53B_uc001lhu.1_Missense_Mutation_p.D182Y|FAM53B_uc001lhw.2_Missense_Mutation_p.D182Y	NM_014661	NP_055476	Q14153	FA53B_HUMAN	hypothetical protein LOC9679	182										ovary(1)|pancreas(1)	2		all_lung(145;0.0191)|Lung NSC(174;0.0301)|Colorectal(57;0.106)|all_neural(114;0.117)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.15)		CCTGCCTGGTCGCAGGGTGAG	0.662													25	33	---	---	---	---	PASS	A	126370538	A	A	126370538	3	1	61	1	0	0	0	0	1	0	0	0	5580	884	31	2	732	2	FAM53B	10	126370538	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	1616454	126370538	9164209	241	23933										
DCHS1	8642	broad.mit.edu	37	chr11	6655498	6655498	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agcacccaaggaataggagaGgaggccaaatgggccactat	13	9	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:6655498G>T	uc001mem.1	-	3	2247	c.1837C>A	c.(1837-1839)CTC>ATC	p.L613I		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	613	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAATAGGAGAGGAGGCCAAAT	0.602													18	81	---	---	---	---	PASS	T	6655498	T	T	6655498	3	4	61	1	0	0	0	0	1	0	0	0	4287	1000	35	3	8135	3	DCHS1	11	6655498	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08		6655498	128351018	242	23934										
OR10A4	283297	broad.mit.edu	37	chr11	6898035	6898035	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcatcctggtcactatagctGactctgcactacaaagtcct	6	13	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:6898035G>T	uc010rat.1	+	1	157	c.157G>T	c.(157-159)GAC>TAC	p.D53Y		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	53	Cytoplasmic (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)		CACTATAGCTGACTCTGCACT	0.458													77	173	---	---	---	---	PASS	T	6898035	T	T	6898035	3	4	61	1	0	0	0	0	1	0	0	0	10892	1290	45	2	159	2	OR10A4	11	6898035	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	242537	6898035	128108481	243	23935										
INSC	387755	broad.mit.edu	37	chr11	15197542	15197542	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gaccgctgggcacgggtgcaCagcatgagcgtgcgtctgac	16	12	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:15197542C>T	uc001mly.2	+	3	499	c.453C>T	c.(451-453)CAC>CAT	p.H151H	INSC_uc001mlz.2_Silent_p.H104H|INSC_uc001mma.2_Silent_p.H104H|INSC_uc010rcs.1_Silent_p.H104H|INSC_uc001mmb.2_Silent_p.H104H|INSC_uc001mmc.2_Silent_p.H104H	NM_001031853	NP_001027024	Q1MX18	INSC_HUMAN	inscuteable isoform a	151					cell differentiation|nervous system development	cytoplasm	binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)	5						CACGGGTGCACAGCATGAGCG	0.632													10	5	---	---	---	---	PASS	T	15197542	T	T	15197542	2	4	61	1	0	0	0	0	0	0	0	1	7764	477	17	3		3	INSC	11	15197542	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	8299507	15197542	119808974	244	23936										
MYOD1	4654	broad.mit.edu	37	chr11	17742502	17742502	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cggcggaactgctacgaaggCgcctactacaacgaggcgcc	13	14	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:17742502C>T	uc001mni.2	+	2	904	c.684C>T	c.(682-684)GGC>GGT	p.G228G		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	228					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						GCTACGAAGGCGCCTACTACA	0.537													8	10	---	---	---	---	PASS	T	17742502	T	T	17742502	2	4	61	1	0	0	0	0	0	0	0	1	10088	755	27	1		1	MYOD1	11	17742502	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	2544960	17742502	117264014	245	23937										
NAV2	89797	broad.mit.edu	37	chr11	20070399	20070399	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	taacctagactccccgtcagGcagtggcgtcctgagcagtg	12	13	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:20070399G>C	uc010rdm.1	+	16	4458	c.4097G>C	c.(4096-4098)GGC>GCC	p.G1366A	NAV2_uc001mpp.2_Missense_Mutation_p.G1279A|NAV2_uc001mpr.3_Missense_Mutation_p.G1343A|NAV2_uc001mpt.2_Missense_Mutation_p.G429A|NAV2_uc009yhx.2_Missense_Mutation_p.G429A|NAV2_uc009yhy.1_Missense_Mutation_p.G342A|NAV2_uc009yhz.2_Missense_Mutation_p.G25A	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1366	Ser-rich.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						TCCCCGTCAGGCAGTGGCGTC	0.567													34	100	---	---	---	---	PASS	C	20070399	C	C	20070399	3	2	61	1	0	0	0	0	1	0	0	0	10184	1203	42	4	4195	4	NAV2	11	20070399	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	2327897	20070399	114936117	246	23938										
ANO5	203859	broad.mit.edu	37	chr11	22283735	22283735	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cttgaaaatgttcctgtttcAgtttgtaaatttttactcat	5	6	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:22283735A>G	uc001mqi.2	+	16	2008	c.1691A>G	c.(1690-1692)CAG>CGG	p.Q564R	ANO5_uc001mqj.2_Missense_Mutation_p.Q563R	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	564	Helical; (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						TTCCTGTTTCAGTTTGTAAAT	0.333													33	139	---	---	---	---	PASS	G	22283735	G	G	22283735	3	3	61	1	0	0	0	0	1	0	0	0	700	188	7	5	1753	5	ANO5	11	22283735	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	2213336	22283735	112722781	247	23939										
GAS2	2620	broad.mit.edu	37	chr11	22770670	22770670	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cagggtctttttaaaggtatGgtgtggagcctcctggtttg	14	6	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:22770670G>C	uc009yie.2	+	6	784	c.478G>C	c.(478-480)GGT>CGT	p.G160R	GAS2_uc001mqm.2_Missense_Mutation_p.G160R|GAS2_uc001mqn.2_RNA|GAS2_uc001mqo.2_Missense_Mutation_p.G160R	NM_001143830	NP_001137302	O43903	GAS2_HUMAN	growth arrest-specific 2	160					cell cycle arrest|cellular component disassembly involved in apoptosis|regulation of cell shape	actin filament|cytosol|membrane				ovary(1)|skin(1)	2						TTAAAGGTATGGTGTGGAGCC	0.383													24	57	---	---	---	---	PASS	C	22770670	C	C	22770670	3	2	61	1	0	0	0	0	1	0	0	0	6245	1348	47	4	496	4	GAS2	11	22770670	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	486935	22770670	112235846	248	23940										
MAPK8IP1	9479	broad.mit.edu	37	chr11	45923535	45923535	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tttgttccctgcacaggacaCactgaataataattctctgg	7	10	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:45923535C>A	uc001nbr.2	+	4	697	c.527C>A	c.(526-528)ACA>AAA	p.T176K		NM_005456	NP_005447	Q9UQF2	JIP1_HUMAN	mitogen-activated protein kinase 8 interacting	176	JNK-binding domain (JBD).|Minimal inhibitory domain (MID).				vesicle-mediated transport	nucleus|perinuclear region of cytoplasm	kinesin binding|MAP-kinase scaffold activity|protein kinase inhibitor activity			ovary(2)|breast(1)|skin(1)	4				GBM - Glioblastoma multiforme(35;0.231)		GCACAGGACACACTGAATAAT	0.572													54	264	---	---	---	---	PASS	A	45923535	A	A	45923535	3	1	61	1	0	0	0	0	1	0	0	0	9284	478	17	3	541	3	MAPK8IP1	11	45923535	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	23152865	45923535	89082981	249	23941										
CELF1	10658	broad.mit.edu	37	chr11	47496998	47496998	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggatacccgagtaggcctgaGtgagggcctccatggtgctc	15	11	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:47496998G>C	uc001nfl.2	-	10	1089	c.1079C>G	c.(1078-1080)ACT>AGT	p.T360S	CELF1_uc001nfm.2_Missense_Mutation_p.T357S|CELF1_uc001nfn.2_Missense_Mutation_p.T356S|CELF1_uc001nfo.1_Missense_Mutation_p.T386S|CELF1_uc010rhm.1_Missense_Mutation_p.T359S|CELF1_uc001nfp.2_Missense_Mutation_p.T388S|CELF1_uc001nfq.1_Missense_Mutation_p.T360S|CELF1_uc001nfr.1_Missense_Mutation_p.T360S	NM_001025596	NP_001020767	Q92879	CELF1_HUMAN	CUG triplet repeat, RNA-binding protein 1	360					embryo development|mRNA splice site selection|regulation of RNA splicing|RNA interference	cytoplasm|nucleus|ribonucleoprotein complex	BRE binding|mRNA binding|nucleotide binding|translation repressor activity, nucleic acid binding			central_nervous_system(2)|ovary(1)	3						GTAGGCCTGAGTGAGGGCCTC	0.552													27	110	---	---	---	---	PASS	C	47496998	C	C	47496998	3	2	61	1	0	0	0	0	1	0	0	0	3215	1029	36	4	393	4	CELF1	11	47496998	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	1573463	47496998	87509518	250	23942										
OR5L2	26338	broad.mit.edu	37	chr11	55595083	55595083	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgtggccatctgtaacccccTgctgtacatggtgaccatgt	10	12	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:55595083T>C	uc001nhy.1	+	1	389	c.389T>C	c.(388-390)CTG>CCG	p.L130P		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				TGTAACCCCCTGCTGTACATG	0.527										HNSCC(27;0.073)			76	162	---	---	---	---	PASS	C	55595083	C	C	55595083	3	2	61	1	0	0	0	0	1	0	0	0	11171	1580	55	5	391	5	OR5L2	11	55595083	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	8098085	55595083	79411433	251	23943										
OR5D16	390144	broad.mit.edu	37	chr11	55606825	55606825	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	actcttatctcagccagttgCttcttttcactgttgccact	5	13	4	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:55606825C>T	uc010rio.1	+	1	598	c.598C>T	c.(598-600)CTT>TTT	p.L200F		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	200	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				CAGCCAGTTGCTTCTTTTCAC	0.388													41	72	---	---	---	---	PASS	T	55606825	T	T	55606825	3	4	61	1	0	0	0	0	1	0	0	0	11156	797	28	3	600	3	OR5D16	11	55606825	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	11742	55606825	79399691	252	23944										
OR5W2	390148	broad.mit.edu	37	chr11	55681359	55681359	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgtagagagagctttgaaccTcccctcagcagagtgtatct	10	10	2	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:55681359T>C	uc010rir.1	-	1	700	c.700A>G	c.(700-702)AGG>GGG	p.R234G		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCTTTGAACCTCCCCTCAGCA	0.418													24	58	---	---	---	---	PASS	C	55681359	C	C	55681359	3	2	61	1	0	0	0	0	1	0	0	0	11185	1550	54	5	234	5	OR5W2	11	55681359	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	74534	55681359	79325157	253	23945										
OR8H3	390152	broad.mit.edu	37	chr11	55890198	55890198	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgaatgttatcttctctcctCaatggcctatgatcgctatg	7	10	3	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:55890198C>T	uc001nii.1	+	1	350	c.350C>T	c.(349-351)TCA>TTA	p.S117L		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CTTCTCTCCTCAATGGCCTAT	0.473													133	243	---	---	---	---	PASS	T	55890198	T	T	55890198	3	4	61	1	0	0	0	0	1	0	0	0	11239	838	29	2	352	2	OR8H3	11	55890198	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	208839	55890198	79116318	254	23946										
OR5T3	390154	broad.mit.edu	37	chr11	56020497	56020497	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttctctacatgtggctctcaCctaactggagtgacaattta	7	10	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:56020497C>A	uc010rjd.1	+	1	822	c.822C>A	c.(820-822)CAC>CAA	p.H274Q		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	274	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					GTGGCTCTCACCTAACTGGAG	0.408													41	192	---	---	---	---	PASS	A	56020497	A	A	56020497	3	1	61	1	0	0	0	0	1	0	0	0	11183	506	18	3	824	3	OR5T3	11	56020497	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	130299	56020497	78986019	255	23947										
OR8H1	219469	broad.mit.edu	37	chr11	56058198	56058198	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gatcataggccattgatgagAgaagaaaacattcagcagct	10	7	2	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:56058198A>T	uc010rje.1	-	1	341	c.341T>A	c.(340-342)CTC>CAC	p.L114H		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	114	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					CATTGATGAGAGAAGAAAACA	0.458													37	185	---	---	---	---	PASS	T	56058198	T	T	56058198	3	4	61	1	0	0	0	0	1	0	0	0	11237	304	11	5	596	5	OR8H1	11	56058198	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	37701	56058198	78948318	256	23948										
OR5M8	219484	broad.mit.edu	37	chr11	56258324	56258324	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgggtccgcacagtagaagtGattaatttcattggggccac	12	8	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:56258324G>C	uc001nix.1	-	1	523	c.523C>G	c.(523-525)CAC>GAC	p.H175D		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					CAGTAGAAGTGATTAATTTCA	0.488													41	75	---	---	---	---	PASS	C	56258324	C	C	56258324	3	2	61	1	0	0	0	0	1	0	0	0	11176	1290	45	2	416	2	OR5M8	11	56258324	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	200126	56258324	78748192	257	23949										
OR5B3	441608	broad.mit.edu	37	chr11	58170159	58170159	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gatgccgactgcaatgaaatGagaggcacaggtggacaaag	14	7	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:58170159G>T	uc010rkf.1	-	1	724	c.724C>A	c.(724-726)CAT>AAT	p.H242N		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GCAATGAAATGAGAGGCACAG	0.433													27	42	---	---	---	---	PASS	T	58170159	T	T	58170159	3	4	61	1	0	0	0	0	1	0	0	0	11152	1290	45	2	222	2	OR5B3	11	58170159	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	1911835	58170159	76836357	258	23950										
NRXN2	9379	broad.mit.edu	37	chr11	64453274	64453274	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aggttgacgtagtcggccgaCttgcctgtatgcagcatcag	13	10	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:64453274C>G	uc001oar.2	-	7	1435	c.996G>C	c.(994-996)AAG>AAC	p.K332N	NRXN2_uc001oas.2_Missense_Mutation_p.K308N|NRXN2_uc001oaq.2_Missense_Mutation_p.K6N	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						AGTCGGCCGACTTGCCTGTAT	0.592													38	98	---	---	---	---	PASS	G	64453274	G	G	64453274	3	3	61	1	0	0	0	0	1	0	0	0	10666	564	20	4	4483	4	NRXN2	11	64453274	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	6283115	64453274	70553242	259	23951										
PDE2A	5138	broad.mit.edu	37	chr11	72290644	72290644	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atggcgatggcctgagcaaaGtggtgcctctggggggagag	19	7	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:72290644G>A	uc010rrc.1	-	26	2433	c.2190C>T	c.(2188-2190)CAC>CAT	p.H730H	PDE2A_uc001oso.2_Silent_p.H709H|PDE2A_uc010rra.1_Silent_p.H723H|PDE2A_uc001osn.2_Silent_p.H474H|PDE2A_uc010rrb.1_Silent_p.H721H|PDE2A_uc010rrd.1_Silent_p.H615H	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	730	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	CCTGAGCAAAGTGGTGCCTCT	0.502													6	11	---	---	---	---	PASS	A	72290644	A	A	72290644	2	1	61	1	0	0	0	0	0	0	0	1	11636	1020	36	3		3	PDE2A	11	72290644	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	7837370	72290644	62715872	260	23952										
C2CD3	26005	broad.mit.edu	37	chr11	73789655	73789655	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttctctatctccacgatgcgTgaaggaaatcgaaagctcca	8	11	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:73789655T>C	uc001ouu.2	-	23	4335	c.4108A>G	c.(4108-4110)ACG>GCG	p.T1370A	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1370						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					CCACGATGCGTGAAGGAAATC	0.507													23	91	---	---	---	---	PASS	C	73789655	C	C	73789655	3	2	61	1	0	0	0	0	1	0	0	0	2154	1696	59	5	1819	5	C2CD3	11	73789655	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	1499011	73789655	61216861	261	23953										
GRM5	2915	broad.mit.edu	37	chr11	88780906	88780906	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	actttgtccacagtaggctgGtgatgaacagaaaagagagc	12	7	0	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:88780906G>T	uc001pcq.2	-	1	335	c.135C>A	c.(133-135)CAC>CAA	p.H45Q	GRM5_uc009yvm.2_Missense_Mutation_p.H45Q|GRM5_uc009yvn.1_Missense_Mutation_p.H45Q	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	45	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CAGTAGGCTGGTGATGAACAG	0.527													11	48	---	---	---	---	PASS	T	88780906	T	T	88780906	3	4	61	1	0	0	0	0	1	0	0	0	6800	1252	44	3	3539	3	GRM5	11	88780906	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	14991251	88780906	46225610	262	23954										
CNTN5	53942	broad.mit.edu	37	chr11	100211382	100211382	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgcaaccaccaagaaatcccGtaagtgacctgggctttttg	9	11	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:100211382G>A	uc001pga.2	+	22	3256	c.2917_splice	c.e22+1	p.P973_splice	CNTN5_uc001pgb.2_Splice_Site_p.P899_splice|CNTN5_uc010ruk.1_Splice_Site_p.P244_splice	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long						cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		AAGAAATCCCGTAAGTGACCT	0.443													14	19	---	---	---	---	PASS	A	100211382	A	A	100211382	5	1	61	1	0	0	0	0	0	0	1	0	3644	1159	40	1	2996	1	CNTN5	11	100211382	Splice_Site	SNP	G	TCGA-33-4586-01A-01D-1441-08	11430476	100211382	34795134	263	23955										
PGR	5241	broad.mit.edu	37	chr11	100909920	100909920	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	attgtgcagcaataacttcaGacatcatttctggaaattca	6	8	4	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:100909920G>A	uc001pgh.2	-	8	3472	c.2729C>T	c.(2728-2730)TCT>TTT	p.S910F	PGR_uc001pgg.2_Missense_Mutation_p.S291F|PGR_uc001pgi.2_Missense_Mutation_p.S808F|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	910	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	AATAACTTCAGACATCATTTC	0.368													10	81	---	---	---	---	PASS	A	100909920	A	A	100909920	3	1	61	1	0	0	0	0	1	0	0	0	11805	942	33	2	76	2	PGR	11	100909920	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	698538	100909920	34096596	264	23956										
SIDT2	51092	broad.mit.edu	37	chr11	117050006	117050006	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gctctgggcttgcccttcttGgtgctcttggtggcctcggt	14	12	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:117050006G>C	uc001pqh.1	+	1	68	c.27G>C	c.(25-27)TTG>TTC	p.L9F	SIDT2_uc010rxe.1_Missense_Mutation_p.L9F|SIDT2_uc001pqg.2_Missense_Mutation_p.L9F|SIDT2_uc001pqi.1_Missense_Mutation_p.L9F	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	9						integral to membrane|lysosomal membrane					0	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;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		TGCCCTTCTTGGTGCTCTTGG	0.522													6	95	---	---	---	---	PASS	C	117050006	C	C	117050006	3	2	61	1	0	0	0	0	1	0	0	0	14303	1339	47	4	29	4	SIDT2	11	117050006	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	16140086	117050006	17956510	265	23957										
AMICA1	120425	broad.mit.edu	37	chr11	118074380	118074380	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtaacgaaatacaatctcctCctagaagtgaaagacaaaaa	6	8	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:118074380C>A	uc001psk.2	-	6	709	c.535G>T	c.(535-537)GAG>TAG	p.E179*	AMICA1_uc001psg.2_5'UTR|AMICA1_uc001psh.2_Nonsense_Mutation_p.E140*|AMICA1_uc009yzw.1_RNA|AMICA1_uc001psi.2_Nonsense_Mutation_p.E169*|AMICA1_uc001psj.2_Nonsense_Mutation_p.E168*|AMICA1_uc010rxw.1_Nonsense_Mutation_p.E140*|AMICA1_uc010rxx.1_Nonsense_Mutation_p.E179*|AMICA1_uc001psl.1_Nonsense_Mutation_p.E135*	NM_001098526	NP_001091996	Q86YT9	JAML1_HUMAN	adhesion molecule, interacts with CXADR antigen	179	Ig-like V-type 2.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	cell junction|integral to membrane				ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		ACAATCTCCTCCTAGAAGTGA	0.512													32	76	---	---	---	---	PASS	A	118074380	A	A	118074380	4	1	61	1	0	0	0	0	0	1	0	0	574	869	30	2	669	2	AMICA1	11	118074380	Nonsense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	1024374	118074380	16932136	266	23958										
ATP5L	10632	broad.mit.edu	37	chr11	118272382	118272382	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gactctccattccagaaccaTggcccaatttgtccgtaacc	6	15	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:118272382T>C	uc001psx.2	+	1	279	c.2T>C	c.(1-3)ATG>ACG	p.M1T		NM_006476	NP_006467	O75964	ATP5L_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	1					ATP catabolic process|respiratory electron transport chain	mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity|protein binding				0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)		TCCAGAACCATGGCCCAATTT	0.672													9	35	---	---	---	---	PASS	C	118272382	C	C	118272382	3	2	61	1	0	0	0	0	1	0	0	0	1160	1464	51	5	4	5	ATP5L	11	118272382	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	198002	118272382	16734134	267	23959										
CRTAM	56253	broad.mit.edu	37	chr11	122720898	122720898	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggctgaccccctcagggttcAccatttttttaaatgagtat	8	10	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:122720898A>G	uc001pyj.2	+	2	169	c.169A>G	c.(169-171)ACC>GCC	p.T57A		NM_019604	NP_062550	O95727	CRTAM_HUMAN	class-I MHC-restricted T cell associated	57	Ig-like V-type.|Extracellular (Potential).				cell recognition|detection of tumor cell|positive regulation of cytokine secretion|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	integral to membrane|plasma membrane	receptor binding			ovary(1)	1		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.28e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		CTCAGGGTTCACCATTTTTTT	0.483													17	71	---	---	---	---	PASS	G	122720898	G	G	122720898	3	3	61	1	0	0	0	0	1	0	0	0	3897	159	6	5	175	5	CRTAM	11	122720898	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	4448516	122720898	12285618	268	23960										
GNB3	2784	broad.mit.edu	37	chr12	6954923	6954923	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctattcgctggctacgacgaCttcaactgcaatgtctggga	10	11	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:6954923C>T	uc001qrd.2	+	10	1278	c.873C>T	c.(871-873)GAC>GAT	p.D291D	GNB3_uc001qrc.2_Silent_p.D247D|GNB3_uc009zfe.2_Silent_p.D290D|CDCA3_uc001qre.2_3'UTR|uc001qrf.1_RNA	NM_002075	NP_002066	P16520	GBB3_HUMAN	guanine nucleotide-binding protein, beta-3	291	WD 6.				cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of blood pressure|synaptic transmission	plasma membrane	GTPase activity|GTPase binding|signal transducer activity				0						GCTACGACGACTTCAACTGCA	0.607													96	188	---	---	---	---	PASS	T	6954923	T	T	6954923	2	4	61	1	0	0	0	0	0	0	0	1	6519	564	20	3		3	GNB3	12	6954923	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08		6954923	126896972	269	23961										
CLEC4A	50856	broad.mit.edu	37	chr12	8281903	8281903	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cttcttgaaaaaaagactacAaaagagctggttcatacaac	6	8	2	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:8281903A>G	uc001qtz.1	+	3	490	c.243A>G	c.(241-243)ACA>ACG	p.T81T	CLEC4A_uc009zga.1_Silent_p.T42T|CLEC4A_uc001qub.1_Intron|CLEC4A_uc001quc.1_Intron|CLEC4A_uc009zgb.1_Intron	NM_016184	NP_057268	Q9UMR7	CLC4A_HUMAN	C-type lectin domain family 4, member A isoform	81	Extracellular (Potential).				cell adhesion|cell surface receptor linked signaling pathway|innate immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0				Kidney(36;0.0915)		AAAAGACTACAAAAGAGCTGG	0.328													20	62	---	---	---	---	PASS	G	8281903	G	G	8281903	2	3	61	1	0	0	0	0	0	0	0	1	3512	117	5	5		5	CLEC4A	12	8281903	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	1326980	8281903	125569992	270	23962										
PZP	5858	broad.mit.edu	37	chr12	9313702	9313702	+	Silent	SNP	C	G	G													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttcaaggacaactgctcagaCacattagcacctttagaaac							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:9313702C>G	uc001qvl.2	-	23	2828	c.2799G>C	c.(2797-2799)GTG>GTC	p.V933V	PZP_uc009zgl.2_Silent_p.V719V|PZP_uc010sgo.1_RNA|PZP_uc009zgm.1_Missense_Mutation_p.C165S	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						ACTGCTCAGACACATTAGCAC	0.333													27	95	---	---	---	---	PASS	G	9313702	G	G	9313702	2	3	61	1	0	0	0	0	0	0	0	1	12869	465	17	4		4	PZP	12	9313702	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	1031799	9313702	124538193	271	23963	521	2								
PZP	5858	broad.mit.edu	37	chr12	9313712	9313712	+	Missense_Mutation	SNP	C	A	A													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	actgctcagacacattagcaCctttagaaacagacagccca							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:9313712C>A	uc001qvl.2	-	23	2818	c.2789G>T	c.(2788-2790)GGT>GTT	p.G930V	PZP_uc009zgl.2_Missense_Mutation_p.G716V|PZP_uc010sgo.1_RNA|PZP_uc009zgm.1_Missense_Mutation_p.V162L	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						CACATTAGCACCTTTAGAAAC	0.318													25	93	---	---	---	---	PASS	A	9313712	A	A	9313712	3	1	61	1	0	0	0	0	1	0	0	0	12869	521	18	3	1715	3	PZP	12	9313712	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	10	9313712	124538183	272	23964	521	2								
LST-3TM12	338821	broad.mit.edu	37	chr12	21196447	21196447	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgcatgtgctaaaaactaatGataaaaggaatcaaatagct	7	5	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:21196447G>A	uc010sin.1	+	6	766	c.766G>A	c.(766-768)GAT>AAT	p.D256N	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Missense_Mutation_p.D303N	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	256						membrane	transporter activity				0						AAAAACTAATGATAAAAGGAA	0.294													6	63	---	---	---	---	PASS	A	21196447	A	A	21196447	3	1	61	1	0	0	0	0	1	0	0	0	9066	1290	45	2	788	2	LST-3TM12	12	21196447	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	11882735	21196447	112655448	273	23965										
BHLHE41	79365	broad.mit.edu	37	chr12	26275803	26275803	+	Frame_Shift_Del	DEL	G	-	-													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tggatgacgggcacgcagtaGgcgaggggctccagcttctg							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:26275803delG	uc001rhb.2	-	5	936	c.645delC	c.(643-645)GCCfs	p.A215fs		NM_030762	NP_110389	Q9C0J9	BHE41_HUMAN	basic helix-loop-helix domain containing, class	215					cell differentiation|cell proliferation|organ morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GCACGCAGTAGGCGAGGGGCT	0.746													5	3	---	---	---	---		-	26275803	-	-	26275803	7	5	61	1	0	1	0	1	0	0	0	0	1424	987	35	0	807	0	BHLHE41	12	26275803	Frame_Shift_Del	DEL	G	TCGA-33-4586-01A-01D-1441-08	5079356	26275803	107576092	274	23966										
CAPRIN2	65981	broad.mit.edu	37	chr12	30868013	30868013	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tctgggaaacacattcgtctGtgctgggtaaaaggcaaggc	13	8	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:30868013G>A	uc001rji.1	-	15	3281	c.2530C>T	c.(2530-2532)CAG>TAG	p.Q844*	CAPRIN2_uc001rjf.1_Nonsense_Mutation_p.Q640*|CAPRIN2_uc001rjg.1_Nonsense_Mutation_p.Q511*|CAPRIN2_uc001rjh.1_Nonsense_Mutation_p.Q794*|CAPRIN2_uc001rjj.1_Nonsense_Mutation_p.Q510*|CAPRIN2_uc001rjk.3_Nonsense_Mutation_p.Q843*|CAPRIN2_uc001rjl.3_Nonsense_Mutation_p.Q788*|CAPRIN2_uc001rjm.1_3'UTR	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	844					negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					ACATTCGTCTGTGCTGGGTAA	0.423													60	123	---	---	---	---	PASS	A	30868013	A	A	30868013	4	1	61	1	0	0	0	0	0	1	0	0	2636	1386	48	3	869	3	CAPRIN2	12	30868013	Nonsense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	4592210	30868013	102983882	275	23967										
C12orf35	55196	broad.mit.edu	37	chr12	32134684	32134684	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aggcagacctcagctgtaccAtcacagcagtatgccacgca	9	14	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:32134684A>G	uc001rks.2	+	4	1209	c.795A>G	c.(793-795)CCA>CCG	p.P265P		NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	265										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			CAGCTGTACCATCACAGCAGT	0.388													64	118	---	---	---	---	PASS	G	32134684	G	G	32134684	2	3	61	1	0	0	0	0	0	0	0	1	1682	204	8	5		5	C12orf35	12	32134684	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	1266671	32134684	101717211	276	23968										
CNTN1	1272	broad.mit.edu	37	chr12	41419027	41419027	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccagccaagagtactcggccAggctcgagaaccttctgcca	10	15	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:41419027A>G	uc001rmm.1	+	21	2712	c.2599A>G	c.(2599-2601)AGG>GGG	p.R867G	CNTN1_uc001rmn.1_Missense_Mutation_p.R856G	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	867	Fibronectin type-III 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				GTACTCGGCCAGGCTCGAGAA	0.493													111	270	---	---	---	---	PASS	G	41419027	G	G	41419027	3	3	61	1	0	0	0	0	1	0	0	0	3640	179	7	5	2677	5	CNTN1	12	41419027	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	9284343	41419027	92432868	277	23969										
PDZRN4	29951	broad.mit.edu	37	chr12	41966513	41966513	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cgaaatcatggagagtatgaCctgtattactcaagcagcac	9	9	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:41966513C>T	uc010skn.1	+	10	1403	c.1335C>T	c.(1333-1335)GAC>GAT	p.D445D	PDZRN4_uc001rmq.3_Silent_p.D386D|PDZRN4_uc009zjz.2_Silent_p.D384D|PDZRN4_uc001rmr.2_Silent_p.D271D	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	644							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				GAGAGTATGACCTGTATTACT	0.448													38	77	---	---	---	---	PASS	T	41966513	T	T	41966513	2	4	61	1	0	0	0	0	0	0	0	1	11710	506	18	3		3	PDZRN4	12	41966513	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	547486	41966513	91885382	278	23970										
ADAMTS20	80070	broad.mit.edu	37	chr12	43822469	43822469	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cccctgcttgccactctccaCaaggggtaaaacagtcccat	7	16	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:43822469C>G	uc010skx.1	-	25	3623	c.3623G>C	c.(3622-3624)TGT>TCT	p.C1208S	ADAMTS20_uc001rno.1_Missense_Mutation_p.C326S|ADAMTS20_uc001rnp.1_Missense_Mutation_p.C362S	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1208	TSP type-1 8.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CCACTCTCCACAAGGGGTAAA	0.358													19	49	---	---	---	---	PASS	G	43822469	G	G	43822469	3	3	61	1	0	0	0	0	1	0	0	0	266	478	17	4	2168	4	ADAMTS20	12	43822469	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	1855956	43822469	90029426	279	23971										
ADAMTS20	80070	broad.mit.edu	37	chr12	43944852	43944852	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggttcccaagtgcacctcggTgtagccggcggccagaaagg	15	12	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:43944852T>A	uc010skx.1	-	2	313	c.313A>T	c.(313-315)ACC>TCC	p.T105S		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	105						proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TGCACCTCGGTGTAGCCGGCG	0.662													11	27	---	---	---	---	PASS	A	43944852	A	A	43944852	3	1	61	1	0	0	0	0	1	0	0	0	266	1696	59	5	5570	5	ADAMTS20	12	43944852	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	122383	43944852	89907043	280	23972										
HOXC5	3222	broad.mit.edu	37	chr12	54427303	54427303	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggcagcccgccggactgagcCagccaccggccccgccacag	13	20	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:54427303C>A	uc001sew.2	+	1	472	c.397C>A	c.(397-399)CAG>AAG	p.Q133K	HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron|MIR615_hsa-mir-615|MI0003628_5'Flank	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	133					regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CGGACTGAGCCAGCCACCGGC	0.632													5	4	---	---	---	---	PASS	A	54427303	A	A	54427303	3	1	61	1	0	0	0	0	1	0	0	0	7314	595	21	3	399	3	HOXC5	12	54427303	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	10482451	54427303	79424592	281	23973										
SLC26A10	65012	broad.mit.edu	37	chr12	58017644	58017644	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aggcctcttctcctgcacagTggtcctgtcggtgctgctgt	12	13	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:58017644T>A	uc001spe.2	+	8	1390	c.1079T>A	c.(1078-1080)GTG>GAG	p.V360E	SLC26A10_uc001spf.2_RNA|SLC26A10_uc009zpz.1_5'Flank	NM_133489	NP_597996	Q8NG04	S2610_HUMAN	solute carrier family 26, member 10	360	Helical; (Potential).					integral to membrane	antiporter activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(17;0.122)					TCCTGCACAGTGGTCCTGTCG	0.567													37	103	---	---	---	---	PASS	A	58017644	A	A	58017644	3	1	61	1	0	0	0	0	1	0	0	0	14515	1696	59	5	1109	5	SLC26A10	12	58017644	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	3590341	58017644	75834251	282	23974										
AGAP2	116986	broad.mit.edu	37	chr12	58135772	58135772	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tctctgccagcttcctgaggCggtttagagcctgcttggcc	12	13	1	2	rs145881416		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:58135772C>T	uc001spr.2	-	1	169	c.83G>A	c.(82-84)CGC>CAC	p.R28H		NM_014770	NP_055585	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-S	Error:Variant_position_missing_in_Q99490_after_alignment					axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						CTTCCTGAGGCGGTTTAGAGC	0.567													6	172	---	---	---	---	PASS	T	58135772	T	T	58135772	3	4	61	1	0	0	0	0	1	0	0	0	368	768	27	1	3735	1	AGAP2	12	58135772	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	118128	58135772	75716123	283	23975										
LEMD3	23592	broad.mit.edu	37	chr12	65632464	65632464	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aataggtgtgttggttttggCcctgaggaagaattgacaaa	13	4	0	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:65632464C>T	uc001ssl.1	+	6	1797	c.1791C>T	c.(1789-1791)GGC>GGT	p.G597G	LEMD3_uc009zqo.1_Silent_p.G596G	NM_014319	NP_055134	Q9Y2U8	MAN1_HUMAN	LEM domain containing 3	597					negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway	integral to nuclear inner membrane|membrane fraction	DNA binding|nucleotide binding|protein binding			central_nervous_system(3)|ovary(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0104)		TTGGTTTTGGCCCTGAGGAAG	0.368													35	102	---	---	---	---	PASS	T	65632464	T	T	65632464	2	4	61	1	0	0	0	0	0	0	0	1	8721	726	26	3		3	LEMD3	12	65632464	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	7496692	65632464	68219431	284	23976										
MDM1	56890	broad.mit.edu	37	chr12	68716991	68716991	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	actgagttacctttgaatggTggaacaaactggcttttatt	9	6	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:68716991T>A	uc001stz.2	-	5	799	c.663A>T	c.(661-663)CCA>CCT	p.P221P	MDM1_uc010stc.1_Silent_p.P176P|MDM1_uc009zqv.1_5'UTR	NM_017440	NP_059136	Q8TC05	MDM1_HUMAN	mouse Mdm1 nuclear protein homolog isoform 1	221						nucleus				ovary(3)|skin(2)	5			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000174)		CTTTGAATGGTGGAACAAACT	0.299													49	146	---	---	---	---	PASS	A	68716991	A	A	68716991	2	1	61	1	0	0	0	0	0	0	0	1	9412	1683	59	5		5	MDM1	12	68716991	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	3084527	68716991	65134904	285	23977										
RAB3IP	117177	broad.mit.edu	37	chr12	70206564	70206564	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcattatttcacagaaaatgTgctctcactggccagagtaa	7	9	3	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:70206564T>C	uc001svp.2	+	9	1632	c.1185T>C	c.(1183-1185)TGT>TGC	p.C395C	RAB3IP_uc001svm.2_Silent_p.C379C|RAB3IP_uc001svn.2_Intron|RAB3IP_uc001svo.2_RNA|RAB3IP_uc001svq.2_Intron|RAB3IP_uc001svr.2_Intron|RAB3IP_uc001svs.2_RNA|RAB3IP_uc001svt.2_Silent_p.C173C	NM_175623	NP_783322	Q96QF0	RAB3I_HUMAN	RAB3A interacting protein isoform alpha 2	395					cilium assembly|Golgi to plasma membrane transport|protein localization to organelle|protein transport	actin cortical patch|centrosome|cytosol|lamellipodium|microtubule basal body|nucleus	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Esophageal squamous(21;0.187)		Lung(24;0.000381)|OV - Ovarian serous cystadenocarcinoma(12;0.00168)|STAD - Stomach adenocarcinoma(21;0.00694)			ACAGAAAATGTGCTCTCACTG	0.318													31	65	---	---	---	---	PASS	C	70206564	C	C	70206564	2	2	61	1	0	0	0	0	0	0	0	1	12938	1702	59	5		5	RAB3IP	12	70206564	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	1489573	70206564	63645331	286	23978										
TPH2	121278	broad.mit.edu	37	chr12	72372760	72372760	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggcttcacggtgaggccggtGgctggatacctgagcccacg	16	12	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:72372760G>A	uc009zrw.1	+	7	975	c.834G>A	c.(832-834)GTG>GTA	p.V278V	TPH2_uc001swy.2_Silent_p.V188V	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	278					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	TGAGGCCGGTGGCTGGATACC	0.532													49	107	---	---	---	---	PASS	A	72372760	A	A	72372760	2	1	61	1	0	0	0	0	0	0	0	1	16399	1335	47	3		3	TPH2	12	72372760	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	2166196	72372760	61479135	287	23979										
TRHDE	29953	broad.mit.edu	37	chr12	72969167	72969167	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcaattaatccggaatcatgAggtacactccagatttgctt	7	9	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:72969167A>T	uc001sxa.2	+	11	2159	c.2129A>T	c.(2128-2130)GAG>GTG	p.E710V		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	710	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						CGGAATCATGAGGTACACTCC	0.353													30	84	---	---	---	---	PASS	T	72969167	T	T	72969167	3	4	61	1	0	0	0	0	1	0	0	0	16476	318	11	5	2171	5	TRHDE	12	72969167	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	596407	72969167	60882728	288	23980										
CEP290	80184	broad.mit.edu	37	chr12	88505121	88505121	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gactagtttctttttcaagaTggtctatctggaaaaaaaaa	7	5	4	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:88505121T>C	uc001tar.2	-	22	2569	c.2225A>G	c.(2224-2226)CAT>CGT	p.H742R	CEP290_uc001tat.2_Missense_Mutation_p.H535R|CEP290_uc009zsl.1_RNA	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	742	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						TTTTTCAAGATGGTCTATCTG	0.368													6	17	---	---	---	---	PASS	C	88505121	C	C	88505121	3	2	61	1	0	0	0	0	1	0	0	0	3253	1464	51	5	5346	5	CEP290	12	88505121	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	15535954	88505121	45346774	289	23981										
C12orf63	374467	broad.mit.edu	37	chr12	97112245	97112245	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atattcaaaggatgatggaaGttcattttataatcttacaa	6	4	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:97112245G>T	uc001tet.1	+	16	2102	c.2024G>T	c.(2023-2025)AGT>ATT	p.S675I		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	675										skin(6)|ovary(1)	7						GATGATGGAAGTTCATTTTAT	0.269													25	96	---	---	---	---	PASS	T	97112245	T	T	97112245	3	4	61	1	0	0	0	0	1	0	0	0	1706	1029	36	3	2082	3	C12orf63	12	97112245	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	8607124	97112245	36739650	290	23982										
C12orf63	374467	broad.mit.edu	37	chr12	97133762	97133762	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tagtattttctacacttacaCttctccaggattcaaaactt	3	10	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:97133762C>T	uc001tet.1	+	18	2347	c.2269C>T	c.(2269-2271)CTT>TTT	p.L757F		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	757										skin(6)|ovary(1)	7						TACACTTACACTTCTCCAGGA	0.308													19	53	---	---	---	---	PASS	T	97133762	T	T	97133762	3	4	61	1	0	0	0	0	1	0	0	0	1706	565	20	3	2335	3	C12orf63	12	97133762	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	21517	97133762	36718133	291	23983										
STAB2	55576	broad.mit.edu	37	chr12	104056738	104056738	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cctccattgtcccgattctgCcccatcgatgtgatgaaaca	7	14	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:104056738C>T	uc001tjw.2	+	18	2170	c.1984C>T	c.(1984-1986)CCC>TCC	p.P662S		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	662	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CCCGATTCTGCCCCATCGATG	0.453													37	121	---	---	---	---	PASS	T	104056738	T	T	104056738	3	4	61	1	0	0	0	0	1	0	0	0	15237	739	26	3	2054	3	STAB2	12	104056738	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	6922976	104056738	29795157	292	23984										
DAO	1610	broad.mit.edu	37	chr12	109292474	109292474	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggacccagacagttactcttGgaggcatcttccagttggga	12	10	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:109292474G>T	uc001tnr.3	+	9	868	c.715G>T	c.(715-717)GGA>TGA	p.G239*	DAO_uc001tnq.3_Nonsense_Mutation_p.G173*|DAO_uc009zvb.2_RNA|DAO_uc001tns.3_RNA	NM_001917	NP_001908	P14920	OXDA_HUMAN	D-amino-acid oxidase	239					glyoxylate metabolic process	peroxisomal matrix	binding|D-amino-acid oxidase activity			ovary(1)|skin(1)	2						AGTTACTCTTGGAGGCATCTT	0.468													29	87	---	---	---	---	PASS	T	109292474	T	T	109292474	4	4	61	1	0	0	0	0	0	1	0	0	4231	1349	47	3	745	3	DAO	12	109292474	Nonsense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	5235736	109292474	24559421	293	23985										
ACACB	32	broad.mit.edu	37	chr12	109650737	109650737	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agagcatcgtgcagttggtcCagaggtgaatcctgggtctc	14	9	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:109650737C>T	uc001tob.2	+	22	3465	c.3346C>T	c.(3346-3348)CAG>TAG	p.Q1116*	ACACB_uc001toc.2_Nonsense_Mutation_p.Q1116*	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1116					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GCAGTTGGTCCAGAGGTGAAT	0.552													30	101	---	---	---	---	PASS	T	109650737	T	T	109650737	4	4	61	1	0	0	0	0	0	1	0	0	107	595	21	3	3428	3	ACACB	12	109650737	Nonsense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	358263	109650737	24201158	294	23986										
KSR2	283455	broad.mit.edu	37	chr12	117977639	117977639	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gaggagggcgtggaggacgtCgtggaggaggggttgctgct	23	5	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:117977639C>G	uc001two.2	-	10	1540	c.1485G>C	c.(1483-1485)ACG>ACC	p.T495T		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	524	Pro-rich.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGGAGGACGTCGTGGAGGAGG	0.642													12	34	---	---	---	---	PASS	G	117977639	G	G	117977639	2	3	61	1	0	0	0	0	0	0	0	1	8582	871	31	2		2	KSR2	12	117977639	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	8326902	117977639	15874256	295	23987										
BRI3BP	140707	broad.mit.edu	37	chr12	125509875	125509875	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccagcaaccccagcaaccccAgcgtggaggagaagctggag	13	14	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:125509875A>T	uc001uha.1	+	3	798	c.655A>T	c.(655-657)AGC>TGC	p.S219C		NM_080626	NP_542193	Q8WY22	BRI3B_HUMAN	BRI3-binding protein	219	Potential.					integral to membrane|mitochondrial outer membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.35e-05)|Epithelial(86;0.000426)|all cancers(50;0.00576)		cagcaaccccagcGTGGAGGA	0.547													12	28	---	---	---	---	PASS	T	125509875	T	T	125509875	3	4	61	1	0	0	0	0	1	0	0	0	1513	188	7	5	665	5	BRI3BP	12	125509875	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	7532236	125509875	8342020	296	23988										
TMEM132D	121256	broad.mit.edu	37	chr12	130184571	130184571	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cgatgtcactgtggcctgtcCggatcccattgcttctcctc	9	15	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:130184571C>A	uc009zyl.1	-	2	1080	c.752G>T	c.(751-753)CGG>CTG	p.R251L		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	251	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GTGGCCTGTCCGGATCCCATT	0.617													33	97	---	---	---	---	PASS	A	130184571	A	A	130184571	3	1	61	1	0	0	0	0	1	0	0	0	16044	652	23	1	2579	1	TMEM132D	12	130184571	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	4674696	130184571	3667324	297	23989										
EP400	57634	broad.mit.edu	37	chr12	132562020	132562020	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cagatgatccctgcagtgacCgcgactgcccaggtggttca	12	13	1	3	rs149254036	byFrequency	TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:132562020C>T	uc001ujn.2	+	52	9209	c.9174C>T	c.(9172-9174)ACC>ACT	p.T3058T	EP400_uc001ujl.2_Silent_p.T3057T|EP400_uc001ujm.2_Silent_p.T2977T|EP400_uc001ujp.2_Silent_p.T268T|EP400_uc010tbo.1_Missense_Mutation_p.R125C	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	3094					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CTGCAGTGACCGCGACTGCCC	0.652													33	69	---	---	---	---	PASS	T	132562020	T	T	132562020	2	4	61	1	0	0	0	0	0	0	0	1	5149	639	23	1		1	EP400	12	132562020	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	2377449	132562020	1289875	298	23990										
POLE	5426	broad.mit.edu	37	chr12	133201511	133201511	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctgggtgtggatggtgagggCgaagtctcccgcgcagctgc	18	10	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:133201511C>A	uc001uks.1	-	48	6771	c.6727G>T	c.(6727-6729)GCC>TCC	p.A2243S	POLE_uc001ukq.1_Missense_Mutation_p.A453S|POLE_uc001ukr.1_Missense_Mutation_p.A1047S|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	2243					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		ATGGTGAGGGCGAAGTCTCCC	0.657								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					11	38	---	---	---	---	PASS	A	133201511	A	A	133201511	3	1	61	1	0	0	0	0	1	0	0	0	12196	768	27	1	141	1	POLE	12	133201511	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	639491	133201511	650384	299	23991										
FRY	10129	broad.mit.edu	37	chr13	32835816	32835816	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctctggacagcctggataagTgtgatatgcagattctggag	13	7	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr13:32835816T>A	uc001utx.2	+	52	7976	c.7480T>A	c.(7480-7482)TGT>AGT	p.C2494S	FRY_uc010tdw.1_RNA|FRY_uc001uty.2_Missense_Mutation_p.C49S|FRY_uc001utz.2_Missense_Mutation_p.C19S|FRY_uc010tdx.1_5'Flank	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2494					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CCTGGATAAGTGTGATATGCA	0.493													36	25	---	---	---	---	PASS	A	32835816	A	A	32835816	3	1	61	1	0	0	0	0	1	0	0	0	6063	1696	59	5	7686	5	FRY	13	32835816	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08		32835816	82334062	300	23992										
N4BP2L2	10443	broad.mit.edu	37	chr13	33096393	33096393	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aactggagatcttccctgatCgatagcttgttttgctgaaa	9	8	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr13:33096393C>A	uc001uuk.3	-	4	1577	c.1399G>T	c.(1399-1401)GAT>TAT	p.D467Y	N4BP2L2_uc001uuj.2_5'UTR|N4BP2L2_uc010abe.1_Missense_Mutation_p.D38Y|N4BP2L2_uc010tdz.1_Missense_Mutation_p.D23Y	NM_014887	NP_055702	Q92802	N42L2_HUMAN	phosphonoformate immuno-associated protein 5	467											0		Lung SC(185;0.0262)		all cancers(112;9.5e-07)|Epithelial(112;5.07e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00196)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.243)		CTTCCCTGATCGATAGCTTGT	0.259													59	92	---	---	---	---	PASS	A	33096393	A	A	33096393	3	1	61	1	0	0	0	0	1	0	0	0	10112	884	31	2	2225	2	N4BP2L2	13	33096393	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	260577	33096393	82073485	301	23993										
TNFSF11	8600	broad.mit.edu	37	chr13	43180990	43180990	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	catcgaggtctccaacccctCcttactggatccggatcagg	9	15	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr13:43180990C>T	uc001uyu.2	+	5	1039	c.890C>T	c.(889-891)TCC>TTC	p.S297F	TNFSF11_uc001uyt.2_Missense_Mutation_p.S224F	NM_003701	NP_003692	O14788	TNF11_HUMAN	tumor necrosis factor ligand superfamily, member	297	Extracellular (Potential).				immune response|monocyte chemotaxis|osteoclast differentiation|positive regulation of bone resorption|positive regulation of corticotropin-releasing hormone secretion|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of homotypic cell-cell adhesion|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell activation	cytoplasm|extracellular space|integral to plasma membrane	cytokine activity|receptor activity|tumor necrosis factor receptor binding				0		Lung NSC(96;1.11e-05)|Breast(139;0.00868)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000249)|GBM - Glioblastoma multiforme(144;0.00119)|BRCA - Breast invasive adenocarcinoma(63;0.073)		TCCAACCCCTCCTTACTGGAT	0.423													69	83	---	---	---	---	PASS	T	43180990	T	T	43180990	3	4	61	1	0	0	0	0	1	0	0	0	16299	855	30	2	908	2	TNFSF11	13	43180990	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	10084597	43180990	71988888	302	23994										
KLHL1	57626	broad.mit.edu	37	chr13	70681734	70681734	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gttgcaggcagcctccccccGccgggccgccggtggaagga	16	16	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr13:70681734G>T	uc001vip.2	-	1	892	c.98C>A	c.(97-99)GCG>GAG	p.A33E	KLHL1_uc010thm.1_Missense_Mutation_p.A33E|ATXN8OS_uc010aej.1_RNA	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	33					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		GCCTCCCCCCGCCGGGCCGCC	0.622													10	15	---	---	---	---	PASS	T	70681734	T	T	70681734	3	4	61	1	0	0	0	0	1	0	0	0	8365	1087	38	1	2192	1	KLHL1	13	70681734	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	27500744	70681734	44488144	303	23995										
ITGBL1	9358	broad.mit.edu	37	chr13	102367951	102367951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtggaaactgtgaatgctggGatggatggaatggaaatgca	16	3	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr13:102367951G>T	uc001vpb.2	+	11	1651	c.1432G>T	c.(1432-1434)GAT>TAT	p.D478Y	ITGBL1_uc010agb.2_Missense_Mutation_p.D429Y|ITGBL1_uc001vpc.3_Missense_Mutation_p.D337Y	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	478	X.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TGAATGCTGGGATGGATGGAA	0.368													68	102	---	---	---	---	PASS	T	102367951	T	T	102367951	3	4	61	1	0	0	0	0	1	0	0	0	7902	1174	41	2	1474	2	ITGBL1	13	102367951	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	31686217	102367951	12801927	304	23996										
OR4K5	79317	broad.mit.edu	37	chr14	20389542	20389542	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccttgcatcttcatctatgtGtggccctttaccatctctcc	5	15	4	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:20389542G>A	uc010tkw.1	+	1	777	c.777G>A	c.(775-777)GTG>GTA	p.V259V		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	259	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCATCTATGTGTGGCCCTTTA	0.413													8	467	---	---	---	---	PASS	A	20389542	A	A	20389542	2	1	61	1	0	0	0	0	0	0	0	1	11073	1364	48	3		3	OR4K5	14	20389542	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08		20389542	86959998	305	23997										
OR4K14	122740	broad.mit.edu	37	chr14	20483236	20483236	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aaaatgagaaggttacccagCataatggccacatagacccc	8	11	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:20483236C>A	uc010tky.1	-	1	117	c.117G>T	c.(115-117)ATG>ATT	p.M39I		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		GGTTACCCAGCATAATGGCCA	0.433													19	48	---	---	---	---	PASS	A	20483236	A	A	20483236	3	1	61	1	0	0	0	0	1	0	0	0	11069	710	25	3	818	3	OR4K14	14	20483236	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	93694	20483236	86866304	306	23998										
OR11G2	390439	broad.mit.edu	37	chr14	20665548	20665548	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aatctgattccccatctatgTttgcaccgtcattcagtaat	5	11	4	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:20665548T>C	uc010tlb.1	+	1	54	c.54T>C	c.(52-54)TGT>TGC	p.C18C		NM_001005503	NP_001005503	Q8NGC1	O11G2_HUMAN	olfactory receptor, family 11, subfamily G,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.76e-07)|all cancers(55;5.61e-06)	GBM - Glioblastoma multiforme(265;0.0144)		CCCATCTATGTTTGCACCGTC	0.353													23	38	---	---	---	---	PASS	C	20665548	C	C	20665548	2	2	61	1	0	0	0	0	0	0	0	1	10925	1731	60	5		5	OR11G2	14	20665548	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	182312	20665548	86683992	307	23999										
OR11H6	122748	broad.mit.edu	37	chr14	20692683	20692683	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggtgtctctattctatggaaCccttatggtgatgtatgtga	11	6	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:20692683C>A	uc010tlc.1	+	1	815	c.815C>A	c.(814-816)ACC>AAC	p.T272N		NM_001004480	NP_001004480	Q8NGC7	O11H6_HUMAN	olfactory receptor, family 11, subfamily H,	272	Helical; Name=6; (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)		TTCTATGGAACCCTTATGGTG	0.473													63	105	---	---	---	---	PASS	A	20692683	A	A	20692683	3	1	61	1	0	0	0	0	1	0	0	0	10929	507	18	3	817	3	OR11H6	14	20692683	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	27135	20692683	86656857	308	24000										
MYH6	4624	broad.mit.edu	37	chr14	23853813	23853813	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttgagggcgatctgctcggcCtcgtccagccggtgctgcag	15	13	1	1	rs139597048		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:23853813C>T	uc001wjv.2	-	36	5470	c.5403G>A	c.(5401-5403)GAG>GAA	p.E1801E		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1801	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TCTGCTCGGCCTCGTCCAGCC	0.632													4	95	---	---	---	---	PASS	T	23853813	T	T	23853813	2	4	61	1	0	0	0	0	0	0	0	1	10038	680	24	3		3	MYH6	14	23853813	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	3161130	23853813	83495727	309	24001										
MYH7	4625	broad.mit.edu	37	chr14	23884402	23884402	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgcaggtccttaatggtctgTtccatgttcttcttcatgcg	9	10	4	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:23884402T>C	uc001wjx.2	-	37	5467	c.5361A>G	c.(5359-5361)GAA>GAG	p.E1787E		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1787	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TAATGGTCTGTTCCATGTTCT	0.622													46	131	---	---	---	---	PASS	C	23884402	C	C	23884402	2	2	61	1	0	0	0	0	0	0	0	1	10039	1722	60	5		5	MYH7	14	23884402	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	30589	23884402	83465138	310	24002										
LRRC16B	90668	broad.mit.edu	37	chr14	24524987	24524987	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gagctggtgctggacaacgcCgggcttaagacgtgaggcca	16	10	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:24524987C>T	uc001wlj.2	+	10	916	c.759C>T	c.(757-759)GCC>GCT	p.A253A		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	253	LRR 1.									ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		TGGACAACGCCGGGCTTAAGA	0.448													40	61	---	---	---	---	PASS	T	24524987	T	T	24524987	2	4	61	1	0	0	0	0	0	0	0	1	8972	639	23	1		1	LRRC16B	14	24524987	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	640585	24524987	82824553	311	24003										
STRN3	29966	broad.mit.edu	37	chr14	31381003	31381003	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atgtgggccctaaatgtgtaGataggctctacatctaaaga	10	7	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:31381003G>C	uc001wqu.2	-	12	1794	c.1578C>G	c.(1576-1578)ATC>ATG	p.I526M	STRN3_uc001wqv.2_Missense_Mutation_p.I442M|STRN3_uc010tpj.1_RNA	NM_001083893	NP_001077362	Q13033	STRN3_HUMAN	nuclear autoantigen isoform 1	526					negative regulation of estrogen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|response to estradiol stimulus	cytoplasm|dendrite|Golgi apparatus|neuronal cell body|nucleoplasm|nucleus|plasma membrane|protein complex	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.0124)		TAAATGTGTAGATAGGCTCTA	0.333													13	56	---	---	---	---	PASS	C	31381003	C	C	31381003	3	2	61	1	0	0	0	0	1	0	0	0	15329	932	33	2	843	2	STRN3	14	31381003	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	6856016	31381003	75968537	312	24004										
HECTD1	25831	broad.mit.edu	37	chr14	31609180	31609180	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctagtacagctattaactttCgaattaacgcaactgctggt	7	9	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:31609180C>T	uc001wrc.1	-	19	3386	c.2897G>A	c.(2896-2898)CGA>CAA	p.R966Q	HECTD1_uc001wrd.1_Missense_Mutation_p.R481Q	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	966					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		TATTAACTTTCGAATTAACGC	0.338													3	79	---	---	---	---	PASS	T	31609180	T	T	31609180	3	4	61	1	0	0	0	0	1	0	0	0	7039	884	31	2	5035	2	HECTD1	14	31609180	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	228177	31609180	75740360	313	24005										
C14orf115	55237	broad.mit.edu	37	chr14	74824956	74824956	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gggaatgccacaggtgaggaCcctcccgcccccggggagct	15	15	0	1	rs45500395	byFrequency	TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:74824956C>T	uc001xpw.3	+	2	1661	c.1470C>T	c.(1468-1470)GAC>GAT	p.D490D		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	490					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		CAGGTGAGGACCCTCCCGCCC	0.662													31	29	---	---	---	---	PASS	T	74824956	T	T	74824956	2	4	61	1	0	0	0	0	0	0	0	1	1740	506	18	3		3	C14orf115	14	74824956	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	43215776	74824956	32524584	314	24006										
DIO2	1734	broad.mit.edu	37	chr14	80677661	80677661	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cctctgaggtcagcatgcgcCgccactctccgcgagtggac	12	16	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:80677661C>A	uc010tvq.1	-	2	557	c.155G>T	c.(154-156)CGG>CTG	p.R52L	uc001xuw.1_5'Flank|DIO2_uc010tvp.1_Missense_Mutation_p.R52L|DIO2_uc001xut.2_RNA|DIO2_uc010asx.2_Missense_Mutation_p.R52L|DIO2_uc010tvr.1_Missense_Mutation_p.R52L|DIO2_uc010asy.2_Missense_Mutation_p.R52L	NM_000793	NP_000784	Q92813	IOD2_HUMAN	deiodinase, iodothyronine, type II isoform a	52					hormone biosynthetic process|selenocysteine incorporation|thyroid hormone generation	integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|ubiquitin protein ligase binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0281)		CAGCATGCGCCGCCACTCTCC	0.587													15	7	---	---	---	---	PASS	A	80677661	A	A	80677661	3	1	61	1	0	0	0	0	1	0	0	0	4525	652	23	1	786	1	DIO2	14	80677661	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	5852705	80677661	26671879	315	24007										
EML5	161436	broad.mit.edu	37	chr14	89163203	89163203	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agccttacctgagaaatcaaCggcactaacaccatactggt	7	12	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:89163203C>A	uc001xxg.2	-	16	2518	c.2332G>T	c.(2332-2334)GTT>TTT	p.V778F	EML5_uc001xxh.1_5'UTR	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	778	WD 12.					cytoplasm|microtubule				ovary(3)	3						GAGAAATCAACGGCACTAACA	0.393													12	20	---	---	---	---	PASS	A	89163203	A	A	89163203	3	1	61	1	0	0	0	0	1	0	0	0	5100	536	19	1	3717	1	EML5	14	89163203	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	8485542	89163203	18186337	316	24008										
CATSPERB	79820	broad.mit.edu	37	chr14	92139233	92139233	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgttatagaagaggtaaactCcagtaccacgctcttggtca	9	9	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:92139233C>A	uc001xzs.1	-	13	1246	c.1106G>T	c.(1105-1107)GGA>GTA	p.G369V	CATSPERB_uc010aub.1_5'Flank	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	369					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				GAGGTAAACTCCAGTACCACG	0.353													96	128	---	---	---	---	PASS	A	92139233	A	A	92139233	3	1	61	1	0	0	0	0	1	0	0	0	2691	855	30	2	2304	2	CATSPERB	14	92139233	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	2976030	92139233	15210307	317	24009										
CATSPERB	79820	broad.mit.edu	37	chr14	92185772	92185772	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcactcttacctgtgctttgTgtgatgttttctctaggaat	8	8	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:92185772T>A	uc001xzs.1	-	5	500	c.360A>T	c.(358-360)ACA>ACT	p.T120T		NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	120					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				CTGTGCTTTGTGTGATGTTTT	0.303													32	50	---	---	---	---	PASS	A	92185772	A	A	92185772	2	1	61	1	0	0	0	0	0	0	0	1	2691	1683	59	5		5	CATSPERB	14	92185772	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	46539	92185772	15163768	318	24010										
RIN3	79890	broad.mit.edu	37	chr14	93107667	93107667	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cttgagaccatcgccaacctGggtctgggtgagtcttctcc	11	13	3	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:93107667G>T	uc001yap.2	+	5	677	c.525G>T	c.(523-525)CTG>CTT	p.L175L	RIN3_uc010auk.2_5'UTR|RIN3_uc001yaq.2_Silent_p.L100L	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	175					endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				TCGCCAACCTGGGTCTGGGTG	0.637													30	28	---	---	---	---	PASS	T	93107667	T	T	93107667	2	4	61	1	0	0	0	0	0	0	0	1	13373	1335	47	3		3	RIN3	14	93107667	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	921895	93107667	14241873	319	24011										
MARK3	4140	broad.mit.edu	37	chr14	103931944	103931944	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aacattaaaatagcagatttCggttttagcaatgaatttac	6	5	0	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:103931944C>T	uc001ymz.3	+	8	1257	c.591C>T	c.(589-591)TTC>TTT	p.F197F	MARK3_uc001ymx.3_Silent_p.F197F|MARK3_uc001ymw.3_Silent_p.F197F|MARK3_uc001yna.3_Silent_p.F197F|MARK3_uc001ymy.3_Intron|MARK3_uc010awp.2_Silent_p.F220F|MARK3_uc010tyb.1_Silent_p.F8F	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	197	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			TAGCAGATTTCGGTTTTAGCA	0.388													19	116	---	---	---	---	PASS	T	103931944	T	T	103931944	2	4	61	1	0	0	0	0	0	0	0	1	9314	883	31	2		2	MARK3	14	103931944	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	10824277	103931944	3417596	320	24012										
TUBGCP5	114791	broad.mit.edu	37	chr15	22841050	22841050	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	acattttagaaaagaaagatGatttcgactggggaaaatac	9	4	0	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:22841050G>T	uc001yur.3	+	5	548	c.418G>T	c.(418-420)GAT>TAT	p.D140Y	TUBGCP5_uc001yuq.2_Missense_Mutation_p.D140Y	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	140					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		AAAGAAAGATGATTTCGACTG	0.328													17	31	---	---	---	---	PASS	T	22841050	T	T	22841050	3	4	61	1	0	0	0	0	1	0	0	0	16766	1290	45	2	436	2	TUBGCP5	15	22841050	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08		22841050	79690342	321	24013										
C15orf2	23742	broad.mit.edu	37	chr15	24922681	24922681	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttccacgtcagtcatttccaCtgtcacaacaaacgcatctg	5	14	4	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:24922681C>A	uc001ywo.2	+	1	2141	c.1667C>A	c.(1666-1668)ACT>AAT	p.T556N		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	556					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GTCATTTCCACTGTCACAACA	0.493													53	77	---	---	---	---	PASS	A	24922681	A	A	24922681	3	1	61	1	0	0	0	0	1	0	0	0	1784	565	20	3	1669	3	C15orf2	15	24922681	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	2081631	24922681	77608711	322	24014										
ATP10A	57194	broad.mit.edu	37	chr15	25924963	25924963	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcacagaggtcttgactgtcCtccctgatgagtgctcggtt	12	11	1	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:25924963C>A	uc010ayu.2	-	21	4131	c.4025G>T	c.(4024-4026)AGG>ATG	p.R1342M		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1342	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CTTGACTGTCCTCCCTGATGA	0.627													40	70	---	---	---	---	PASS	A	25924963	A	A	25924963	3	1	61	1	0	0	0	0	1	0	0	0	1116	681	24	3	478	3	ATP10A	15	25924963	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	1002282	25924963	76606429	323	24015										
APBA2	321	broad.mit.edu	37	chr15	29346393	29346393	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggcatcacctactacatccgCtactgccctgaggacgacag	9	15	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:29346393C>T	uc001zck.2	+	3	513	c.306C>T	c.(304-306)CGC>CGT	p.R102R	APBA2_uc010azj.2_Silent_p.R102R|APBA2_uc010uat.1_Silent_p.R102R|APBA2_uc001zcl.2_Silent_p.R102R|APBA2_uc010uas.1_Silent_p.R102R	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	102					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)		ACTACATCCGCTACTGCCCTG	0.597													54	57	---	---	---	---	PASS	T	29346393	T	T	29346393	2	4	61	1	0	0	0	0	0	0	0	1	757	784	28	3		3	APBA2	15	29346393	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	3421430	29346393	73184999	324	24016										
SCG5	6447	broad.mit.edu	37	chr15	32935913	32935913	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cgggtctcagaagcagatatCcagaggctgcttcatggtgt	13	9	2	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:32935913C>G	uc001zha.2	+	2	237	c.120C>G	c.(118-120)ATC>ATG	p.I40M	SCG5_uc001zgz.2_Missense_Mutation_p.I40M	NM_001144757	NP_001138229	P05408	7B2_HUMAN	secretogranin V isoform 1	40					intracellular protein transport|neuropeptide signaling pathway|peptide hormone processing|regulation of hormone secretion	extracellular region|stored secretory granule	enzyme inhibitor activity|GTP binding|unfolded protein binding				0		all_lung(180;7.32e-08)		all cancers(64;6.48e-17)|Epithelial(43;1.23e-11)|GBM - Glioblastoma multiforme(186;1.39e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0212)		AAGCAGATATCCAGAGGCTGC	0.562													48	65	---	---	---	---	PASS	G	32935913	G	G	32935913	3	3	61	1	0	0	0	0	1	0	0	0	13893	845	30	2	122	2	SCG5	15	32935913	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	3589520	32935913	69595479	325	24017										
GJD2	57369	broad.mit.edu	37	chr15	35044940	35044940	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cattccacctccttgatgcaGgggtagcggttacactcata	9	12	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:35044940G>T	uc001zis.1	-	2	705	c.705C>A	c.(703-705)CCC>CCA	p.P235P	uc001zit.1_5'Flank	NM_020660	NP_065711	Q9UKL4	CXD2_HUMAN	gap junction protein, delta 2, 36kDa	235	Extracellular (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_lung(180;9.67e-07)		all cancers(64;2.75e-18)|GBM - Glioblastoma multiforme(113;1.9e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		CCTTGATGCAGGGGTAGCGGT	0.478													22	35	---	---	---	---	PASS	T	35044940	T	T	35044940	2	4	61	1	0	0	0	0	0	0	0	1	6417	987	35	3		3	GJD2	15	35044940	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	2109027	35044940	67486452	326	24018										
ITGA11	22801	broad.mit.edu	37	chr15	68618991	68618991	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctggtggggctgccagcttaCcaggacatggaagttgatcc	14	10	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:68618991C>A	uc002ari.2	-	17	2298	c.2211_splice	c.e17+1	p.L737_splice	ITGA11_uc010bib.2_Splice_Site_p.L737_splice	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor						cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	TGCCAGCTTACCAGGACATGG	0.632													4	9	---	---	---	---	PASS	A	68618991	A	A	68618991	5	1	61	1	0	0	0	0	0	0	1	0	7874	521	18	3	1410	3	ITGA11	15	68618991	Splice_Site	SNP	C	TCGA-33-4586-01A-01D-1441-08	33574051	68618991	33912401	327	24019										
CORO2B	10391	broad.mit.edu	37	chr15	69011811	69011811	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cctcaaaaatggtatttaagGctcccatcaaagaaaagaag	7	8	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:69011811G>T	uc002arj.3	+	11	1260	c.1231G>T	c.(1231-1233)GCT>TCT	p.A411S	CORO2B_uc010bic.2_Missense_Mutation_p.A406S|CORO2B_uc002ark.2_Missense_Mutation_p.A178S	NM_006091	NP_006082	Q9UQ03	COR2B_HUMAN	coronin, actin binding protein, 2B	411					actin cytoskeleton organization	actin cytoskeleton|cytoplasm|membrane	actin filament binding			ovary(3)|skin(2)|large_intestine(1)	6						GGTATTTAAGGCTCCCATCAA	0.408													52	105	---	---	---	---	PASS	T	69011811	T	T	69011811	3	4	61	1	0	0	0	0	1	0	0	0	3757	1203	42	3	1273	3	CORO2B	15	69011811	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	392820	69011811	33519581	328	24020										
CYP1A2	1544	broad.mit.edu	37	chr15	75047333	75047333	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctggagttcagcgtgccgccGggcgtgaaagtcgacctgac	15	12	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:75047333G>A	uc002ayr.1	+	7	1519	c.1455G>A	c.(1453-1455)CCG>CCA	p.P485P		NM_000761	NP_000752	P05177	CP1A2_HUMAN	cytochrome P450, family 1, subfamily A,	485					alkaloid metabolic process|exogenous drug catabolic process|methylation|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative deethylation|oxidative demethylation|steroid catabolic process|toxin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|demethylase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding			ovary(3)|breast(1)	4					Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Aciclovir(DB00787)|Alosetron(DB00969)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Anagrelide(DB00261)|Azelastine(DB00972)|Bortezomib(DB00188)|Caffeine(DB00201)|Carmustine(DB00262)|Chlordiazepoxide(DB00475)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Ciprofloxacin(DB00537)|Clomipramine(DB01242)|Clotrimazole(DB00257)|Clozapine(DB00363)|Conjugated Estrogens(DB00286)|Cyclobenzaprine(DB00924)|Dacarbazine(DB00851)|Desloratadine(DB00967)|Diazepam(DB00829)|Dibucaine(DB00527)|Diclofenac(DB00586)|Duloxetine(DB00476)|Enoxacin(DB00467)|Esomeprazole(DB00736)|Estradiol(DB00783)|Estrone(DB00655)|Fluorouracil(DB00544)|Flutamide(DB00499)|Fluvoxamine(DB00176)|Frovatriptan(DB00998)|Grepafloxacin(DB00365)|Haloperidol(DB00502)|Hesperetin(DB01094)|Imipramine(DB00458)|Ketoconazole(DB01026)|Leflunomide(DB01097)|Levobupivacaine(DB01002)|Levofloxacin(DB01137)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Melatonin(DB01065)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mirtazapine(DB00370)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ofloxacin(DB01165)|Olanzapine(DB00334)|Ondansetron(DB00904)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Pefloxacin(DB00487)|Pimozide(DB01100)|Propafenone(DB01182)|Propranolol(DB00571)|Quinidine(DB00908)|Ramelteon(DB00980)|Ranitidine(DB00863)|Rasagiline(DB01367)|Rifampin(DB01045)|Riluzole(DB00740)|Rofecoxib(DB00533)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Tacrine(DB00382)|Telithromycin(DB00976)|Terfenadine(DB00342)|Theophylline(DB00277)|Thiabendazole(DB00730)|Tizanidine(DB00697)|Tolbutamide(DB01124)|Verapamil(DB00661)|Warfarin(DB00682)|Zileuton(DB00744)|Zolmitriptan(DB00315)	GCGTGCCGCCGGGCGTGAAAG	0.612													40	49	---	---	---	---	PASS	A	75047333	A	A	75047333	2	1	61	1	0	0	0	0	0	0	0	1	4150	1103	39	1		1	CYP1A2	15	75047333	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	6035522	75047333	27484059	329	24021										
CIB2	10518	broad.mit.edu	37	chr15	78398097	78398097	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcacctgaggaagtcaggggCcttggcaatcatgtcctcga	13	11	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:78398097C>A	uc002bdb.1	-	5	847	c.526G>T	c.(526-528)GCC>TCC	p.A176S	CIB2_uc002bdc.1_Missense_Mutation_p.A133S|CIB2_uc010ums.1_Missense_Mutation_p.A176S	NM_006383	NP_006374	O75838	CIB2_HUMAN	DNA-dependent protein kinase catalytic	176	EF-hand 3.						calcium ion binding				0						AAGTCAGGGGCCTTGGCAATC	0.627													6	49	---	---	---	---	PASS	A	78398097	A	A	78398097	3	1	61	1	0	0	0	0	1	0	0	0	3421	739	26	3	45	3	CIB2	15	78398097	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	3350764	78398097	24133295	330	24022										
TMED3	23423	broad.mit.edu	37	chr15	79603747	79603747	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gagcagggcgtgaagttctcCctggattaccaggtgaggcc	15	10	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:79603747C>G	uc002beu.2	+	1	257	c.156C>G	c.(154-156)TCC>TCG	p.S52S	TMED3_uc010unj.1_Silent_p.S52S|TMED3_uc002bev.2_RNA	NM_007364	NP_031390	Q9Y3Q3	TMED3_HUMAN	transmembrane emp24 domain containing 3	52	Lumenal (Potential).|GOLD.				protein transport	ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane				ovary(1)|skin(1)	2						TGAAGTTCTCCCTGGATTACC	0.692													9	14	---	---	---	---	PASS	G	79603747	G	G	79603747	2	3	61	1	0	0	0	0	0	0	0	1	16002	610	22	4		4	TMED3	15	79603747	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	1205650	79603747	22927645	331	24023										
TMC3	342125	broad.mit.edu	37	chr15	81625008	81625008	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agggggctgtgggtattggaAattccgggatcgtggctttc	17	6	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:81625008A>T	uc002bgo.1	-	22	3055	c.3055T>A	c.(3055-3057)TTC>ATC	p.F1019I	TMC3_uc010blr.1_RNA	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	1019	Cytoplasmic (Potential).					integral to membrane				ovary(1)|liver(1)	2						GGGTATTGGAAATTCCGGGAT	0.582													7	55	---	---	---	---	PASS	T	81625008	T	T	81625008	3	4	61	1	0	0	0	0	1	0	0	0	15983	14	1	5	251	5	TMC3	15	81625008	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	2021261	81625008	20906384	332	24024										
IGFALS	3483	broad.mit.edu	37	chr16	1842028	1842028	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	caggctgcgcagctggttccGctccaggtgcaggtggcaca	15	13	0	0	rs141901437		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:1842028G>T	uc002cmy.2	-	2	472	c.391C>A	c.(391-393)CGG>AGG	p.R131R	IGFALS_uc010uvn.1_Silent_p.R169R|IGFALS_uc010uvo.1_5'UTR	NM_004970	NP_004961	P35858	ALS_HUMAN	insulin-like growth factor binding protein, acid	131	LRR 3.				cell adhesion|signal transduction	soluble fraction	insulin-like growth factor binding				0						AGCTGGTTCCGCTCCAGGTGC	0.692													8	13	---	---	---	---	PASS	T	1842028	T	T	1842028	2	4	61	1	0	0	0	0	0	0	0	1	7577	1086	38	1		1	IGFALS	16	1842028	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08		1842028	88512725	333	24025										
CLDN9	9080	broad.mit.edu	37	chr16	3063914	3063914	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cggggggctcctctgctgcaCgtgccccccgccccaggtcg	14	19	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:3063914C>T	uc010uwo.1	+	1	1458	c.551C>T	c.(550-552)ACG>ATG	p.T184M		NM_020982	NP_066192	O95484	CLD9_HUMAN	claudin 9	184	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CTCTGCTGCACGTGCCCCCCG	0.721													8	20	---	---	---	---	PASS	T	3063914	T	T	3063914	3	4	61	1	0	0	0	0	1	0	0	0	3492	536	19	1	553	1	CLDN9	16	3063914	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	1221886	3063914	87290839	334	24026										
IL32	9235	broad.mit.edu	37	chr16	3119200	3119200	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aaggagaaggtggtggccctGgtccatgcagtgcaggccct	16	10	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:3119200G>T	uc002cto.2	+	6	760	c.549G>T	c.(547-549)CTG>CTT	p.L183L	IL32_uc002ctk.2_Intron|IL32_uc010uwp.1_Silent_p.L117L|IL32_uc010btb.2_Silent_p.L127L|IL32_uc002ctl.2_Silent_p.L137L|IL32_uc002ctm.2_Silent_p.L137L|IL32_uc002ctn.2_Silent_p.L137L|IL32_uc002cts.3_Silent_p.L137L|IL32_uc002ctp.2_Silent_p.L117L|IL32_uc002ctq.2_Silent_p.L183L|IL32_uc002ctr.2_Silent_p.L117L|IL32_uc002ctt.2_Silent_p.L137L|IL32_uc010uwr.1_Silent_p.L97L|IL32_uc002ctu.2_Silent_p.L128L	NM_004221	NP_004212	P24001	IL32_HUMAN	interleukin 32 isoform B	183					cell adhesion|defense response|immune response	extracellular space	cytokine activity			pancreas(1)	1						TGGTGGCCCTGGTCCATGCAG	0.592													15	69	---	---	---	---	PASS	T	3119200	T	T	3119200	2	4	61	1	0	0	0	0	0	0	0	1	7692	1335	47	3		3	IL32	16	3119200	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	55286	3119200	87235553	335	24027										
ZNF75A	7627	broad.mit.edu	37	chr16	3367431	3367431	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctcaaacttatggatcgtcaCaagaaagattgtgcaagaga	9	7	2	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:3367431C>G	uc002cut.3	+	6	979	c.453C>G	c.(451-453)CAC>CAG	p.H151Q	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						TGGATCGTCACAAGAAAGATT	0.398													3	74	---	---	---	---	PASS	G	3367431	G	G	3367431	3	3	61	1	0	0	0	0	1	0	0	0	18130	477	17	4	463	4	ZNF75A	16	3367431	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	248231	3367431	86987322	336	24028										
ACSM2A	123876	broad.mit.edu	37	chr16	20471499	20471499	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggtactcagatgtccagccgCactctctacattaatagtag	8	11	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:20471499C>A	uc010bwe.2	+	3	302	c.63C>A	c.(61-63)CGC>CGA	p.R21R	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Intron|ACSM2A_uc002dhf.3_Silent_p.R21R|ACSM2A_uc002dhg.3_Silent_p.R21R|ACSM2A_uc010vay.1_Intron	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	21					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						TGTCCAGCCGCACTCTCTACA	0.507													26	52	---	---	---	---	PASS	A	20471499	A	A	20471499	2	1	61	1	0	0	0	0	0	0	0	1	183	697	25	3		3	ACSM2A	16	20471499	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	17104068	20471499	69883254	337	24029										
ACSM2B	348158	broad.mit.edu	37	chr16	20559758	20559758	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	acatccggtaaacaatagggGcacccatcatactcttgatt	7	11	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:20559758G>T	uc002dhj.3	-	8	1142	c.932C>A	c.(931-933)GCC>GAC	p.A311D	ACSM2B_uc002dhk.3_Missense_Mutation_p.A311D|ACSM2B_uc010bwf.1_Missense_Mutation_p.A311D	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	311					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						AACAATAGGGGCACCCATCAT	0.507													33	106	---	---	---	---	PASS	T	20559758	T	T	20559758	3	4	61	1	0	0	0	0	1	0	0	0	184	1203	42	3	833	3	ACSM2B	16	20559758	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	88259	20559758	69794995	338	24030										
ZKSCAN2	342357	broad.mit.edu	37	chr16	25255346	25255346	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgcccgagagttaatcagggCatccatctccttgtagaacg	10	11	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:25255346C>A	uc002dod.3	-	6	2148	c.1741G>T	c.(1741-1743)GCC>TCC	p.A581S	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.A377S	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	581					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		TTAATCAGGGCATCCATCTCC	0.527													40	107	---	---	---	---	PASS	A	25255346	A	A	25255346	3	1	61	1	0	0	0	0	1	0	0	0	17684	710	25	3	1170	3	ZKSCAN2	16	25255346	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	4695588	25255346	65099407	339	24031										
GDPD3	79153	broad.mit.edu	37	chr16	30119569	30119569	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctccaagtgtcggatcagacTcttcctcatgatcagcctgg	9	13	4	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:30119569T>C	uc002dwp.2	-	9	863	c.784A>G	c.(784-786)AGT>GGT	p.S262G	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|GDPD3_uc002dwq.2_Missense_Mutation_p.S200G	NM_024307	NP_077283	Q7L5L3	GDPD3_HUMAN	glycerophosphodiester phosphodiesterase domain	262	GDPD.|Cytoplasmic (Potential).				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0						CGGATCAGACTCTTCCTCATG	0.542													26	60	---	---	---	---	PASS	C	30119569	C	C	30119569	3	2	61	1	0	0	0	0	1	0	0	0	6325	1551	54	5	180	5	GDPD3	16	30119569	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	4864223	30119569	60235184	340	24032										
TBC1D10B	26000	broad.mit.edu	37	chr16	30369819	30369819	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccgatactgcagctccccccGcgtttcccgccacttcttga	7	19	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:30369819G>A	uc002dxu.2	-	9	1891	c.1873C>T	c.(1873-1875)CGG>TGG	p.R625W	TBC1D10B_uc002dxt.2_Missense_Mutation_p.R50W	NM_015527	NP_056342	Q4KMP7	TB10B_HUMAN	TBC1 domain family, member 10B	625						cytoplasm	Rab GTPase activator activity				0			Colorectal(24;0.193)			AGCTCCCCCCGCGTTTCCCGC	0.652													5	4	---	---	---	---	PASS	A	30369819	A	A	30369819	3	1	61	1	0	0	0	0	1	0	0	0	15596	1086	38	1	557	1	TBC1D10B	16	30369819	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	250250	30369819	59984934	341	24033										
ZNF764	92595	broad.mit.edu	37	chr16	30567040	30567041	+	Frame_Shift_Del	DEL	CA	-	-													0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtgaaggcccggccacactcCagacagcggtggggccgctc							TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:30567040_30567041delCA	uc002dyq.2	-	3	782_783	c.701_702delTG	c.(700-702)CTGfs	p.L234fs	ZNF764_uc002dyr.1_Frame_Shift_Del_p.L233fs	NM_033410	NP_219363	Q96H86	ZN764_HUMAN	zinc finger protein 764	234	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGCCACACTCCAGACAGCGGTG	0.688													14	7	---	---	---	---		-	30567041	-	-	30567040	7	5	61	1	0	1	0	1	0	0	0	0	18135	581	21	0	528	0	ZNF764	16	30567040	Frame_Shift_Del	DEL	CA	TCGA-33-4586-01A-01D-1441-08	197221	30567040	59787713	342	24034										
FANCA	2175	broad.mit.edu	37	chr16	89882355	89882355	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctgattcctttaatttctgtGccctttcaggattatatttt	5	8	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:89882355G>T	uc002fou.1	-	2	161	c.119C>A	c.(118-120)GCA>GAA	p.A40E	FANCA_uc010vpn.1_Missense_Mutation_p.A40E|FANCA_uc002fov.1_Missense_Mutation_p.A23E|FANCA_uc002fow.1_Missense_Mutation_p.A40E|FANCA_uc002fox.1_Missense_Mutation_p.A40E|FANCA_uc010ciu.1_Missense_Mutation_p.A40E|FANCA_uc002foy.2_Missense_Mutation_p.A40E	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	40					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		TAATTTCTGTGCCCTTTCAGG	0.542			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				7	113	---	---	---	---	PASS	T	89882355	T	T	89882355	3	4	61	1	0	0	0	0	1	0	0	0	5662	1319	46	3	4421	3	FANCA	16	89882355	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	59315315	89882355	472398	343	24035										
TRPV3	162514	broad.mit.edu	37	chr17	3417929	3417929	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtcttcgttaaggaaggagaCgtgcgtcttccattcagtcc	11	10	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:3417929C>T	uc002fvt.1	-	17	2558	c.2236G>A	c.(2236-2238)GTC>ATC	p.V746I	SPATA22_uc010vrg.1_5'Flank|TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Missense_Mutation_p.V730I|TRPV3_uc010vri.1_Missense_Mutation_p.V701I|TRPV3_uc010vrj.1_Missense_Mutation_p.V730I|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Missense_Mutation_p.V730I|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Missense_Mutation_p.V746I|TRPV3_uc002fvu.2_Missense_Mutation_p.V746I	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	746	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	AGGAAGGAGACGTGCGTCTTC	0.453													16	22	---	---	---	---	PASS	T	3417929	T	T	3417929	3	4	61	1	0	0	0	0	1	0	0	0	16594	536	19	1	144	1	TRPV3	17	3417929	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08		3417929	77777281	344	24036										
TP53	7157	broad.mit.edu	37	chr17	7577538	7577538	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgatggtgaggatgggcctcCggttcatgccgcccatgcag	15	11	1	2	rs11540652		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:7577538C>T	uc002gim.2	-	7	937	c.743G>A	c.(742-744)CGG>CAG	p.R248Q	TP53_uc002gig.1_Missense_Mutation_p.R248Q|TP53_uc002gih.2_Missense_Mutation_p.R248Q|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R116Q|TP53_uc010cng.1_Missense_Mutation_p.R116Q|TP53_uc002gii.1_Missense_Mutation_p.R116Q|TP53_uc010cnh.1_Missense_Mutation_p.R248Q|TP53_uc010cni.1_Missense_Mutation_p.R248Q|TP53_uc002gij.2_Missense_Mutation_p.R248Q|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R155Q|TP53_uc002gio.2_Missense_Mutation_p.R116Q	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	248	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		R -> W (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|NR -> KW (in sporadic cancers; somatic mutation).|R -> C (in a sporadic cancer; somatic mutation).|NR -> IP (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R248Q(523)|p.R248W(443)|p.R248L(63)|p.R248P(12)|p.R248G(11)|p.R248R(10)|p.0?(7)|p.R155Q(4)|p.N247_R248delNR(2)|p.N247_R248>KW(2)|p.M246_P250delMNRRP(2)|p.R248fs*97(2)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.N247_P250delNRRP(1)|p.R249fs*96(1)|p.R248C(1)|p.G245fs*14(1)|p.N247_R248>IP(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)		GATGGGCCTCCGGTTCATGCC	0.572	R248Q(KASUMI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HS683_CENTRAL_NERVOUS_SYSTEM)|R248Q(NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HCC1143_BREAST)|R248Q(BL41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SKUT1_SOFT_TISSUE)|R248Q(HSC4_UPPER_AERODIGESTIVE_TRACT)|R248Q(HEC1A_ENDOMETRIUM)|R248Q(SF295_CENTRAL_NERVOUS_SYSTEM)|R248Q(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(WSUDLCL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIN87_STOMACH)|R248Q(P12ICHIKAWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(RT112_URINARY_TRACT)|R248Q(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PANC0203_PANCREAS)|R248Q(EM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(CI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(MOLM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NIHOVCAR3_OVARY)|R248Q(CA46_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SW1463_LARGE_INTESTINE)|R248Q(HCC70_BREAST)|R248Q(KYSE150_OESOPHAGUS)|R248Q(NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIH211_LUNG)|R248Q(KYO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PC14_LUNG)	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)			25	31	---	---	---	---	PASS	T	7577538	T	T	7577538	3	4	61	1	0	0	0	0	1	0	0	0	16378	652	23	1	547	1	TP53	17	7577538	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	4159609	7577538	73617672	345	24037										
MYH8	4626	broad.mit.edu	37	chr17	10304656	10304656	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgttgactttgtcctcctctGcctgcaggtcatccagggtc	10	13	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:10304656G>T	uc002gmm.2	-	24	3139	c.3044C>A	c.(3043-3045)GCA>GAA	p.A1015E	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1015	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GTCCTCCTCTGCCTGCAGGTC	0.458									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				86	112	---	---	---	---	PASS	T	10304656	T	T	10304656	3	4	61	1	0	0	0	0	1	0	0	0	10041	1319	46	3	2837	3	MYH8	17	10304656	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	2727118	10304656	70890554	346	24038										
DNAH9	1770	broad.mit.edu	37	chr17	11687649	11687649	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtgtttgtcctctccttcccGggggcagatgccctgtcctc	11	15	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:11687649G>T	uc002gne.2	+	41	7922	c.7854G>T	c.(7852-7854)CCG>CCT	p.P2618P	DNAH9_uc010coo.2_Silent_p.P1912P	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2618	AAA 3 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TCTCCTTCCCGGGGGCAGATG	0.532													138	163	---	---	---	---	PASS	T	11687649	T	T	11687649	2	4	61	1	0	0	0	0	0	0	0	1	4608	1103	39	1		1	DNAH9	17	11687649	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	1382993	11687649	69507561	347	24039										
TRIM16L	147166	broad.mit.edu	37	chr17	18638308	18638308	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccctacccggacctccccagCaggttcctgcactggcggca	10	19	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:18638308C>T	uc002gug.1	+	10	1269	c.582C>T	c.(580-582)AGC>AGT	p.S194S	TRIM16L_uc010vyf.1_Silent_p.S248S|TRIM16L_uc002guh.1_Silent_p.S194S|TRIM16L_uc010cqg.1_Silent_p.S296S|TRIM16L_uc002gui.1_Silent_p.S194S|TRIM16L_uc010vyg.1_Silent_p.S194S|TRIM16L_uc010vyh.1_Missense_Mutation_p.A107V	NM_001037330	NP_001032407	Q309B1	TR16L_HUMAN	tripartite motif-containing 16-like	194	B30.2/SPRY.					cytoplasm					0						ACCTCCCCAGCAGGTTCCTGC	0.612													15	18	---	---	---	---	PASS	T	18638308	T	T	18638308	2	4	61	1	0	0	0	0	0	0	0	1	16489	709	25	3		3	TRIM16L	17	18638308	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	6950659	18638308	62556902	348	24040										
AMAC1	146861	broad.mit.edu	37	chr17	33520841	33520841	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agtcctaggatgcagcccaaCagtccacaccagtcgtagcc	9	15	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:33520841C>A	uc002hjd.2	-	1	572	c.486G>T	c.(484-486)CTG>CTT	p.L162L		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	162	DUF6 1.|Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		TGCAGCCCAACAGTCCACACC	0.592													58	164	---	---	---	---	PASS	A	33520841	A	A	33520841	2	1	61	1	0	0	0	0	0	0	0	1	559	465	17	3		3	AMAC1	17	33520841	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	14882533	33520841	47674369	349	24041										
TBC1D3B	414059	broad.mit.edu	37	chr17	34493456	34493456	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtgggagcatactgctgttcGtccctagctctgaagggggt	15	9	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:34493456G>T	uc002hky.2	-	14	1719	c.1569C>A	c.(1567-1569)GAC>GAA	p.D523E		NM_001001417	NP_001001417	Q8IZP1	TBC3A_HUMAN	TBC1 domain family, member 3B	523						intracellular	Rab GTPase activator activity				0		Breast(25;0.102)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		actgctgttcgTCCCTAGCTC	0.448													60	53	---	---	---	---	PASS	T	34493456	T	T	34493456	3	4	61	1	0	0	0	0	1	0	0	0	15617	1136	40	1	84	1	TBC1D3B	17	34493456	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	972615	34493456	46701754	350	24042										
HNF1B	6928	broad.mit.edu	37	chr17	36093605	36093605	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cttgctggggttcttttgccGatcgtaggcctggtacaaga	13	9	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:36093605G>T	uc002hok.3	-	3	975	c.754C>A	c.(754-756)CGG>AGG	p.R252R	HNF1B_uc010wdi.1_Silent_p.R226R|HNF1B_uc010cve.1_Silent_p.R60R	NM_000458	NP_000449	P35680	HNF1B_HUMAN	hepatocyte nuclear factor 1-beta isoform 1	252	Homeobox; HNF1-type.				endocrine pancreas development|genitalia development|kidney development|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric nephron tubule development|regulation of pronephros size	nucleus	DNA binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			TTCTTTTGCCGATCGTAGGCC	0.572									Hereditary_Prostate_Cancer				82	177	---	---	---	---	PASS	T	36093605	T	T	36093605	2	4	61	1	0	0	0	0	0	0	0	1	7252	1057	37	2		2	HNF1B	17	36093605	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	1600149	36093605	45101605	351	24043										
KRT23	25984	broad.mit.edu	37	chr17	39087664	39087664	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctgccatcctggcattgtcaAtgagaagaataatctgagca	9	9	2	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:39087664A>T	uc002hvm.1	-	3	1029	c.440T>A	c.(439-441)ATT>AAT	p.I147N	KRT23_uc010wfl.1_Missense_Mutation_p.I10N|KRT23_uc010cxf.1_Translation_Start_Site|KRT23_uc010cxg.2_Missense_Mutation_p.I147N|KRT23_uc002hvn.1_Missense_Mutation_p.I147N	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	147	Rod.|Coil 1B.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				GGCATTGTCAATGAGAAGAAT	0.408													39	86	---	---	---	---	PASS	T	39087664	T	T	39087664	3	4	61	1	0	0	0	0	1	0	0	0	8460	101	4	5	856	5	KRT23	17	39087664	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	2994059	39087664	42107546	352	24044										
TBX21	30009	broad.mit.edu	37	chr17	45822456	45822456	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	taccctcccaagatgggcccGgccagctggttccgccctat	10	17	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:45822456G>A	uc002ilv.1	+	6	1543	c.1332G>A	c.(1330-1332)CCG>CCA	p.P444P		NM_013351	NP_037483	Q9UL17	TBX21_HUMAN	T-box 21	444					lymphocyte migration|multicellular organismal development|positive regulation of transcription, DNA-dependent|response to virus	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						AGATGGGCCCGGCCAGCTGGT	0.692													22	46	---	---	---	---	PASS	A	45822456	A	A	45822456	2	1	61	1	0	0	0	0	0	0	0	1	15654	1103	39	1		1	TBX21	17	45822456	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	6734792	45822456	35372754	353	24045										
KIF2B	84643	broad.mit.edu	37	chr17	51901693	51901693	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcagtgttccagatcatcctGaagtcaggacggataatgca	11	9	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:51901693G>T	uc002iua.2	+	1	1455	c.1299G>T	c.(1297-1299)CTG>CTT	p.L433L	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	433	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						AGATCATCCTGAAGTCAGGAC	0.512													13	65	---	---	---	---	PASS	T	51901693	T	T	51901693	2	4	61	1	0	0	0	0	0	0	0	1	8298	1277	45	2		2	KIF2B	17	51901693	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	6079237	51901693	29293517	354	24046										
AKAP1	8165	broad.mit.edu	37	chr17	55183423	55183423	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gggagagggcaagagagacaGgtggggccgaagggactggt	22	5	0	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:55183423G>T	uc002iux.2	+	2	829	c.598G>T	c.(598-600)GGT>TGT	p.G200C	AKAP1_uc010wnl.1_Missense_Mutation_p.G200C|AKAP1_uc002iuy.2_RNA|AKAP1_uc010dcm.2_Missense_Mutation_p.G200C	NM_003488	NP_003479	Q92667	AKAP1_HUMAN	A-kinase anchor protein 1 precursor	200					blood coagulation	cytosol|integral to membrane|mitochondrial outer membrane	protein binding|RNA binding			ovary(1)	1	Breast(9;5.46e-08)					AAGAGAGACAGGTGGGGCCGA	0.592													37	83	---	---	---	---	PASS	T	55183423	T	T	55183423	3	4	61	1	0	0	0	0	1	0	0	0	445	1000	35	3	600	3	AKAP1	17	55183423	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	3281730	55183423	26011787	355	24047										
USP32	84669	broad.mit.edu	37	chr17	58256732	58256732	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttgtgcatagtctatcccctGctgctcatagaaaagaatgt	8	9	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:58256732G>A	uc002iyo.1	-	34	4985	c.4699C>T	c.(4699-4701)CAG>TAG	p.Q1567*	USP32_uc002iyn.1_Nonsense_Mutation_p.Q1237*	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	1567					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			TCTATCCCCTGCTGCTCATAG	0.413													57	113	---	---	---	---	PASS	A	58256732	A	A	58256732	4	1	61	1	0	0	0	0	0	1	0	0	17060	1328	46	3	119	3	USP32	17	58256732	Nonsense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	3073309	58256732	22938478	356	24048										
BPTF	2186	broad.mit.edu	37	chr17	65850849	65850849	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tatgatagaagtcggaggaaAtactggttcttgaaccgaag	12	5	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:65850849A>T	uc002jgf.2	+	2	1468	c.1407A>T	c.(1405-1407)AAA>AAT	p.K469N	BPTF_uc002jge.2_Missense_Mutation_p.K469N|BPTF_uc010wqm.1_Missense_Mutation_p.K469N	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	469					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			GTCGGAGGAAATACTGGTTCT	0.358													16	40	---	---	---	---	PASS	T	65850849	T	T	65850849	3	4	61	1	0	0	0	0	1	0	0	0	1495	98	4	5	1413	5	BPTF	17	65850849	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	7594117	65850849	15344361	357	24049										
GPRC5C	55890	broad.mit.edu	37	chr17	72436491	72436491	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggcggccctcagggcaacagCagcgcaggctgggccgtggc	18	14	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:72436491C>T	uc002jks.2	+	1	615	c.576C>T	c.(574-576)AGC>AGT	p.S192S	GPRC5C_uc002jkp.2_Silent_p.S237S|GPRC5C_uc002jkq.2_Intron|GPRC5C_uc002jkr.2_Silent_p.S204S|GPRC5C_uc002jkt.2_Silent_p.S192S|GPRC5C_uc002jku.2_5'Flank	NM_018653	NP_061123	Q9NQ84	GPC5C_HUMAN	G protein-coupled receptor family C, group 5,	192	Extracellular (Potential).					cytoplasmic vesicle membrane|integral to plasma membrane	G-protein coupled receptor activity|protein binding			ovary(2)|prostate(1)|central_nervous_system(1)|pancreas(1)	5						AGGGCAACAGCAGCGCAGGCT	0.622													20	28	---	---	---	---	PASS	T	72436491	T	T	72436491	2	4	61	1	0	0	0	0	0	0	0	1	6726	709	25	3		3	GPRC5C	17	72436491	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	6585642	72436491	8758719	358	24050										
GRIN2C	2905	broad.mit.edu	37	chr17	72843596	72843596	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggtggtgccccgcgggttctCgatgggcactgagttgttga	17	9	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:72843596C>T	uc002jlt.1	-	9	2008	c.1852G>A	c.(1852-1854)GAG>AAG	p.E618K	GRIN2C_uc010wrh.1_RNA|GRIN2C_uc002jlu.1_Missense_Mutation_p.E618K	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	618	Cytoplasmic (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	CGCGGGTTCTCGATGGGCACT	0.627													4	65	---	---	---	---	PASS	T	72843596	T	T	72843596	3	4	61	1	0	0	0	0	1	0	0	0	6781	893	31	2	1869	2	GRIN2C	17	72843596	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	407105	72843596	8351614	359	24051										
RNF213	57674	broad.mit.edu	37	chr17	78320176	78320176	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atcacaccgagagagatcccGtcctctggtcgttgatgctg	11	12	2	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:78320176G>T	uc002jyh.1	+	4	2483	c.2260G>T	c.(2260-2262)GTC>TTC	p.V754F		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)			GAGAGATCCCGTCCTCTGGTC	0.522													5	66	---	---	---	---	PASS	T	78320176	T	T	78320176	3	4	61	1	0	0	0	0	1	0	0	0	13477	1145	40	1	8470	1	RNF213	17	78320176	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	5476580	78320176	2875034	360	24052										
APCDD1	147495	broad.mit.edu	37	chr18	10487919	10487919	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cgccgagggcagaggacctcGcagaagacagtggaagcagc	16	11	0	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr18:10487919G>T	uc002kom.3	+	5	1783	c.1429G>T	c.(1429-1431)GCA>TCA	p.A477S		NM_153000	NP_694545	Q8J025	APCD1_HUMAN	adenomatosis polyposis coli down-regulated 1	477	Extracellular (Potential).				hair follicle development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to plasma membrane	Wnt-protein binding				0				READ - Rectum adenocarcinoma(15;0.08)		AGAGGACCTCGCAGAAGACAG	0.647													41	87	---	---	---	---	PASS	T	10487919	T	T	10487919	3	4	61	1	0	0	0	0	1	0	0	0	765	1087	38	1	1447	1	APCDD1	18	10487919	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08		10487919	67589329	361	24053										
DTNA	1837	broad.mit.edu	37	chr18	32374114	32374114	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tagaggctgtgctctccactAttttttaccagctcaacaaa	6	11	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr18:32374114A>G	uc010dmn.1	+	3	263	c.262A>G	c.(262-264)ATT>GTT	p.I88V	DTNA_uc002kxu.2_Missense_Mutation_p.I88V|DTNA_uc010xbx.1_Missense_Mutation_p.I88V|DTNA_uc002kxv.3_Missense_Mutation_p.I88V|DTNA_uc002kxw.2_Missense_Mutation_p.I88V|DTNA_uc002kxx.2_Missense_Mutation_p.I88V|DTNA_uc010dmj.2_Missense_Mutation_p.I88V|DTNA_uc002kxz.2_Missense_Mutation_p.I88V|DTNA_uc002kxy.2_Missense_Mutation_p.I88V|DTNA_uc010dmk.1_RNA|DTNA_uc010dml.2_Missense_Mutation_p.I88V|DTNA_uc002kyb.3_Missense_Mutation_p.I88V|DTNA_uc010dmm.2_Missense_Mutation_p.I88V	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	88	Interaction with MAGEE1 (By similarity).				neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						GCTCTCCACTATTTTTTACCA	0.488													34	100	---	---	---	---	PASS	G	32374114	G	G	32374114	3	3	61	1	0	0	0	0	1	0	0	0	4788	449	16	5	272	5	DTNA	18	32374114	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	21886195	32374114	45703134	362	24054										
CELF4	56853	broad.mit.edu	37	chr18	34839211	34839211	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggcagatggtagatgaacagGttacagccctcgggccctgc	14	11	0	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr18:34839211G>T	uc002lae.2	-	11	1662	c.1266C>A	c.(1264-1266)AAC>AAA	p.N422K	CELF4_uc010dnd.1_Missense_Mutation_p.N420K|CELF4_uc002lag.2_Intron|CELF4_uc002laf.2_Missense_Mutation_p.N416K|CELF4_uc002lai.2_Missense_Mutation_p.N406K	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	422	RRM 3.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						AGATGAACAGGTTACAGCCCT	0.348													18	49	---	---	---	---	PASS	T	34839211	T	T	34839211	3	4	61	1	0	0	0	0	1	0	0	0	3218	1252	44	3	202	3	CELF4	18	34839211	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	2465097	34839211	43238037	363	24055										
SLC14A1	6563	broad.mit.edu	37	chr18	43316432	43316432	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tttttttagcccaattttctCaagtgcattgaattccatgc	5	9	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr18:43316432C>A	uc010xcn.1	+	7	801	c.482C>A	c.(481-483)TCA>TAA	p.S161*	SLC14A1_uc010dnk.2_Nonsense_Mutation_p.S217*|SLC14A1_uc002lbf.3_Nonsense_Mutation_p.S161*|SLC14A1_uc002lbg.3_Intron|SLC14A1_uc010xco.1_Nonsense_Mutation_p.S56*|SLC14A1_uc002lbh.3_Nonsense_Mutation_p.S53*|SLC14A1_uc002lbi.3_Nonsense_Mutation_p.S29*|SLC14A1_uc002lbj.3_Nonsense_Mutation_p.S217*|SLC14A1_uc002lbk.3_Nonsense_Mutation_p.S161*	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	161	Helical; (Potential).					integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						CCAATTTTCTCAAGTGCATTG	0.468													51	137	---	---	---	---	PASS	A	43316432	A	A	43316432	4	1	61	1	0	0	0	0	0	1	0	0	14396	838	29	2	668	2	SLC14A1	18	43316432	Nonsense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	8477221	43316432	34760816	364	24056										
DSEL	92126	broad.mit.edu	37	chr18	65181475	65181475	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	acaatgctaaaggaggcagaTtgttaccataaatttcattc	7	7	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr18:65181475T>G	uc002lke.1	-	2	1625	c.401A>C	c.(400-402)AAT>ACT	p.N134T		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	124						integral to membrane	isomerase activity|sulfotransferase activity	p.N134N(1)		ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				AGGAGGCAGATTGTTACCATA	0.418													43	98	---	---	---	---	PASS	G	65181475	G	G	65181475	3	3	61	1	0	0	0	0	1	0	0	0	4775	1493	52	5	3271	5	DSEL	18	65181475	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	21865043	65181475	12895773	365	24057										
CTDP1	9150	broad.mit.edu	37	chr18	77470345	77470345	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgtcctgttttcttttccaaGgctttttagaccccgagaag	8	10	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr18:77470345G>T	uc002lnh.1	+	6	920	c.773_splice	c.e6-1	p.G258_splice	CTDP1_uc002lni.1_Splice_Site_p.G258_splice|CTDP1_uc010drd.1_Splice_Site_p.G258_splice	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,						positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		TCTTTTCCAAGGCTTTTTAGA	0.403													93	242	---	---	---	---	PASS	T	77470345	T	T	77470345	5	4	61	1	0	0	0	0	0	0	1	0	4002	1014	35	3	794	3	CTDP1	18	77470345	Splice_Site	SNP	G	TCGA-33-4586-01A-01D-1441-08	12288870	77470345	606903	366	24058										
MARCH2	51257	broad.mit.edu	37	chr19	8491529	8491529	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cggatctgccatgagggagcGaacggggagtgcttgctgtc	17	9	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:8491529G>T	uc002mjv.2	+	4	654	c.213G>T	c.(211-213)GCG>GCT	p.A71A	MARCH2_uc002mjw.2_Silent_p.A71A|MARCH2_uc002mjx.2_Silent_p.A71A	NM_016496	NP_057580	Q9P0N8	MARH2_HUMAN	membrane-associated ring finger (C3HC4) 2	71	RING-CH-type.				endocytosis	cytoplasmic vesicle|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						ATGAGGGAGCGAACGGGGAGT	0.562													32	163	---	---	---	---	PASS	T	8491529	T	T	8491529	2	4	61	1	0	0	0	0	0	0	0	1	9301	1045	37	2		2	MARCH2	19	8491529	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08		8491529	50637454	367	24059										
MYO1F	4542	broad.mit.edu	37	chr19	8586456	8586456	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgggaaaaggccctcctggcCgtgaagccggcccttccacc	12	16	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:8586456C>T	uc002mkg.2	-	28	3367	c.3253G>A	c.(3253-3255)GGC>AGC	p.G1085S		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	1085	SH3.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						CCCTCCTGGCCGTGAAGCCGG	0.622													6	128	---	---	---	---	PASS	T	8586456	T	T	8586456	3	4	61	1	0	0	0	0	1	0	0	0	10073	652	23	1	47	1	MYO1F	19	8586456	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	94927	8586456	50542527	368	24060										
MUC16	94025	broad.mit.edu	37	chr19	8993514	8993514	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcggtgggtgcagatggcatCcactccggtggcttccccat	14	13	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:8993514C>A	uc002mkp.2	-	66	41779	c.41575G>T	c.(41575-41577)GAT>TAT	p.D13859Y	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.D676Y|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13862	Extracellular (Potential).|SEA 12.			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						CAGATGGCATCCACTCCGGTG	0.582													23	57	---	---	---	---	PASS	A	8993514	A	A	8993514	3	1	61	1	0	0	0	0	1	0	0	0	9973	855	30	2	2024	2	MUC16	19	8993514	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	407058	8993514	50135469	369	24061										
MUC16	94025	broad.mit.edu	37	chr19	9020773	9020773	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctaaggtctcacctgagagaGgtcagtctgcagccagagta	12	10	3	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:9020773G>A	uc002mkp.2	-	20	37533	c.37329C>T	c.(37327-37329)ACC>ACT	p.T12443T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12445	Extracellular (Potential).|SEA 3.				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						ACCTGAGAGAGGTCAGTCTGC	0.537													67	95	---	---	---	---	PASS	A	9020773	A	A	9020773	2	1	61	1	0	0	0	0	0	0	0	1	9973	987	35	3		3	MUC16	19	9020773	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	27259	9020773	50108210	370	24062										
MUC16	94025	broad.mit.edu	37	chr19	9058508	9058508	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atgggagaggtagacagcctGgtgacaacttcatcggagat	14	7	1	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:9058508G>C	uc002mkp.2	-	3	29142	c.28938C>G	c.(28936-28938)ACC>ACG	p.T9646T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9648	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TAGACAGCCTGGTGACAACTT	0.502													17	88	---	---	---	---	PASS	C	9058508	C	C	9058508	2	2	61	1	0	0	0	0	0	0	0	1	9973	1335	47	4		4	MUC16	19	9058508	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	37735	9058508	50070475	371	24063										
MUC16	94025	broad.mit.edu	37	chr19	9085067	9085067	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aggggagggggaaaaggagaCagtgggaatactctcagccc	17	7	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:9085067C>G	uc002mkp.2	-	1	6952	c.6748G>C	c.(6748-6750)GTC>CTC	p.V2250L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2250	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAAAAGGAGACAGTGGGAATA	0.458													14	70	---	---	---	---	PASS	G	9085067	G	G	9085067	3	3	61	1	0	0	0	0	1	0	0	0	9973	478	17	4	37111	4	MUC16	19	9085067	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	26559	9085067	50043916	372	24064										
DCAF15	90379	broad.mit.edu	37	chr19	14065389	14065389	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cgctacgtcctctcctacacCagcagcagtggggatgacga	11	14	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:14065389C>G	uc002mxt.2	+	3	288	c.282C>G	c.(280-282)ACC>ACG	p.T94T	PODNL1_uc010xnj.1_5'Flank|PODNL1_uc002mxs.2_5'Flank	NM_138353	NP_612362	Q66K64	DCA15_HUMAN	DDB1 and CUL4 associated factor 15	94										central_nervous_system(1)	1						TCTCCTACACCAGCAGCAGTG	0.582													55	74	---	---	---	---	PASS	G	14065389	G	G	14065389	2	3	61	1	0	0	0	0	0	0	0	1	4267	581	21	4		4	DCAF15	19	14065389	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	4980322	14065389	45063594	373	24065										
RFX1	5989	broad.mit.edu	37	chr19	14080949	14080949	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtgctccgtggcagactcacGccctcagccgtctcatagtt	10	15	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:14080949G>A	uc002mxv.2	-	10	1625	c.1353C>T	c.(1351-1353)GGC>GGT	p.G451G	RFX1_uc010dzi.2_Silent_p.G451G	NM_002918	NP_002909	P22670	RFX1_HUMAN	regulatory factor X1	451	RFX-type winged-helix.				immune response	nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			lung(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			GCAGACTCACGCCCTCAGCCG	0.622													11	49	---	---	---	---	PASS	A	14080949	A	A	14080949	2	1	61	1	0	0	0	0	0	0	0	1	13262	1074	38	1		1	RFX1	19	14080949	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	15560	14080949	45048034	374	24066										
NOTCH3	4854	broad.mit.edu	37	chr19	15281167	15281167	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcccagcgcgtcctggcccaCgggttcccgccggcccttgt	13	19	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:15281167C>A	uc002nan.2	-	27	5165	c.5089G>T	c.(5089-5091)GTG>TTG	p.V1697L		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1697	Cytoplasmic (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			TCCTGGCCCACGGGTTCCCGC	0.667													11	61	---	---	---	---	PASS	A	15281167	A	A	15281167	3	1	61	1	0	0	0	0	1	0	0	0	10550	536	19	1	1904	1	NOTCH3	19	15281167	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	1200218	15281167	43847816	375	24067										
ZNF536	9745	broad.mit.edu	37	chr19	30934517	30934517	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gtgtcttcggcggagccggaAgctgagccccacctgagtgg	16	12	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:30934517A>T	uc002nsu.1	+	2	186	c.48A>T	c.(46-48)GAA>GAT	p.E16D	ZNF536_uc010edd.1_Missense_Mutation_p.E16D	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	16					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CGGAGCCGGAAGCTGAGCCCC	0.627													54	154	---	---	---	---	PASS	T	30934517	T	T	30934517	3	4	61	1	0	0	0	0	1	0	0	0	17971	69	3	5	50	5	ZNF536	19	30934517	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	15653350	30934517	28194466	376	24068										
TSHZ3	57616	broad.mit.edu	37	chr19	31770074	31770074	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcggaacttgctggcccccgTgaagatggagccatagagct	14	11	0	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:31770074T>A	uc002nsy.3	-	2	690	c.625A>T	c.(625-627)ACG>TCG	p.T209S		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	209					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CTGGCCCCCGTGAAGATGGAG	0.627													28	118	---	---	---	---	PASS	A	31770074	A	A	31770074	3	1	61	1	0	0	0	0	1	0	0	0	16622	1696	59	5	2624	5	TSHZ3	19	31770074	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	835557	31770074	27358909	377	24069										
SLC7A10	56301	broad.mit.edu	37	chr19	33703209	33703209	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cccactcactttcgggcgtcAaccatctcctcggtgacata	7	16	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:33703209A>T	uc002num.2	-	5	924	c.777T>A	c.(775-777)GTT>GTA	p.V259V	SLC7A10_uc002nul.2_5'Flank|SLC7A10_uc010xrq.1_Silent_p.V232V	NM_019849	NP_062823	Q9NS82	AAA1_HUMAN	solute carrier family 7, member 10	259					blood coagulation|cellular nitrogen compound metabolic process|ion transport|leukocyte migration	integral to plasma membrane	L-serine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(110;0.137)					TTCGGGCGTCAACCATCTCCT	0.662													15	15	---	---	---	---	PASS	T	33703209	T	T	33703209	2	4	61	1	0	0	0	0	0	0	0	1	14693	117	5	5		5	SLC7A10	19	33703209	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08	1933135	33703209	25425774	378	24070										
GPI	2821	broad.mit.edu	37	chr19	34869911	34869911	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttctccaggcggccaaggatGtgagtgggctatagggcctt	15	9	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:34869911G>A	uc002nvg.1	+	7	808	c.705_splice	c.e7+1	p.D235_splice	GPI_uc002nvf.2_Splice_Site_p.D274_splice|GPI_uc010xrv.1_Splice_Site_p.D246_splice|GPI_uc010xrw.1_Splice_Site_p.D207_splice|GPI_uc010edl.1_Splice_Site_p.D235_splice	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase						angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					GGCCAAGGATGTGAGTGGGCT	0.582													79	93	---	---	---	---	PASS	A	34869911	A	A	34869911	5	1	61	1	0	0	0	0	0	0	1	0	6611	1391	48	3	853	3	GPI	19	34869911	Splice_Site	SNP	G	TCGA-33-4586-01A-01D-1441-08	1166702	34869911	24259072	379	24071										
KIRREL2	84063	broad.mit.edu	37	chr19	36353460	36353460	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccacaactctccttatggtcAtcactggggtggccctctgc	9	15	4	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:36353460A>T	uc002ocb.3	+	12	1788	c.1576A>T	c.(1576-1578)ATC>TTC	p.I526F	KIRREL2_uc002obz.3_Missense_Mutation_p.I526F|KIRREL2_uc002oca.3_Missense_Mutation_p.I476F|KIRREL2_uc002occ.3_Missense_Mutation_p.I473F|KIRREL2_uc002ocd.3_Intron	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	526	Helical; (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCTTATGGTCATCACTGGGGT	0.682													93	102	---	---	---	---	PASS	T	36353460	T	T	36353460	3	4	61	1	0	0	0	0	1	0	0	0	8325	217	8	5	1622	5	KIRREL2	19	36353460	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	1483549	36353460	22775523	380	24072										
BCKDHA	593	broad.mit.edu	37	chr19	41903744	41903744	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttagccaagatggcggtagcGatcgctgcagcgagggtctg	16	9	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:41903744G>T	uc002oqq.2	+	1	41	c.12G>T	c.(10-12)GCG>GCT	p.A4A	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Intron|EXOSC5_uc002oqo.2_5'Flank|BCKDHA_uc002oqp.1_5'UTR|BCKDHA_uc002oqr.2_Silent_p.A4A|BCKDHA_uc010xvz.1_Silent_p.A4A	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	4					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						TGGCGGTAGCGATCGCTGCAG	0.622													13	28	---	---	---	---	PASS	T	41903744	T	T	41903744	2	4	61	1	0	0	0	0	0	0	0	1	1359	1045	37	2		2	BCKDHA	19	41903744	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	5550284	41903744	17225239	381	24073										
CEACAM21	90273	broad.mit.edu	37	chr19	42092216	42092216	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	atggaccctctgacagctccAtctcctaggtaagactgtcc	8	14	2	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:42092216A>G	uc002ore.3	+	6	970	c.874A>G	c.(874-876)ATC>GTC	p.I292V	CEACAM21_uc002orc.1_RNA|CEACAM21_uc002ord.1_Intron|CEACAM21_uc002orf.2_RNA|CEACAM21_uc002org.3_Missense_Mutation_p.I291V	NM_001098506	NP_001091976	Q3KPI0	CEA21_HUMAN	carcinoembryonic antigen-related cell adhesion	292	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						TGACAGCTCCATCTCCTAGGT	0.597													9	6	---	---	---	---	PASS	G	42092216	G	G	42092216	3	3	61	1	0	0	0	0	1	0	0	0	3192	217	8	5	896	5	CEACAM21	19	42092216	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	188472	42092216	17036767	382	24074										
FBXO46	23403	broad.mit.edu	37	chr19	46216747	46216747	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gaagggcaggaggctcccacGgtccatgctgggggatgatg	18	9	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:46216747G>A	uc002pcy.2	-	2	132	c.7C>T	c.(7-9)CGT>TGT	p.R3C	FBXO46_uc002pcz.2_Missense_Mutation_p.R3C	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	3							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		AGGCTCCCACGGTCCATGCTG	0.647													6	14	---	---	---	---	PASS	A	46216747	A	A	46216747	3	1	61	1	0	0	0	0	1	0	0	0	5755	1116	39	1	1808	1	FBXO46	19	46216747	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	4124531	46216747	12912236	383	24075										
LRRC4B	94030	broad.mit.edu	37	chr19	51021727	51021727	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aagcgtgccgtcatgcaggaCggagatgcgcacgcggtagg	17	10	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:51021727C>T	uc002pss.2	-	3	1380	c.1243G>A	c.(1243-1245)GTC>ATC	p.V415I		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	415	Extracellular (Potential).|Ig-like C2-type.					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		TCATGCAGGACGGAGATGCGC	0.637													20	71	---	---	---	---	PASS	T	51021727	T	T	51021727	3	4	61	1	0	0	0	0	1	0	0	0	9007	536	19	1	902	1	LRRC4B	19	51021727	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	4804980	51021727	8107256	384	24076										
ZNF350	59348	broad.mit.edu	37	chr19	52468196	52468196	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cacaaggtttctgtcctgtgCaaatcctctgttatctcctg	7	12	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:52468196C>A	uc002pyd.2	-	5	1738	c.1510G>T	c.(1510-1512)GCA>TCA	p.A504S	uc002pyb.2_Intron|uc002pyc.2_Intron	NM_021632	NP_067645	Q9GZX5	ZN350_HUMAN	zinc finger protein 350	504					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix|transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			breast(1)	1		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0179)		CTGTCCTGTGCAAATCCTCTG	0.453													26	88	---	---	---	---	PASS	A	52468196	A	A	52468196	3	1	61	1	0	0	0	0	1	0	0	0	17860	710	25	3	92	3	ZNF350	19	52468196	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	1446469	52468196	6660787	385	24077										
PRKCG	5582	broad.mit.edu	37	chr19	54403943	54403943	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tttggcatgtgtaaggagaaCgtcttccccgggacgacaac	12	10	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:54403943C>A	uc002qcq.1	+	14	1797	c.1515C>A	c.(1513-1515)AAC>AAA	p.N505K	PRKCG_uc010yeg.1_Missense_Mutation_p.N505K|PRKCG_uc010yeh.1_Missense_Mutation_p.N392K	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	505	Protein kinase.				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)		GTAAGGAGAACGTCTTCCCCG	0.587													138	433	---	---	---	---	PASS	A	54403943	A	A	54403943	3	1	61	1	0	0	0	0	1	0	0	0	12512	535	19	1	1569	1	PRKCG	19	54403943	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	1935747	54403943	4725040	386	24078										
LILRA6	79168	broad.mit.edu	37	chr19	54744980	54744980	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gacagggccctgcagggtcaGgagggagggcttcctagaca	17	10	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:54744980G>T	uc002qeu.1	-	5	806	c.682C>A	c.(682-684)CTG>ATG	p.L228M	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Missense_Mutation_p.L228M|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Missense_Mutation_p.L228M|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Missense_Mutation_p.L228M|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Missense_Mutation_p.L228M|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Missense_Mutation_p.L228M|LILRA6_uc010yeq.1_Missense_Mutation_p.L228M|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Missense_Mutation_p.L89M	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	228	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TGCAGGGTCAGGAGGGAGGGC	0.637													14	48	---	---	---	---	PASS	T	54744980	T	T	54744980	3	4	61	1	0	0	0	0	1	0	0	0	8789	991	35	3	779	3	LILRA6	19	54744980	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	341037	54744980	4384003	387	24079										
LENG8	114823	broad.mit.edu	37	chr19	54969376	54969376	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gggcgagtttactgcctaccGaatcctctactacatcttca	7	13	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:54969376G>A	uc002qfv.1	+	13	2030	c.1886G>A	c.(1885-1887)CGA>CAA	p.R629Q	LENG8_uc002qfw.2_Missense_Mutation_p.R666Q			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	629							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		ACTGCCTACCGAATCCTCTAC	0.567													72	85	---	---	---	---	PASS	A	54969376	A	A	54969376	3	1	61	1	0	0	0	0	1	0	0	0	8724	1058	37	2	2047	2	LENG8	19	54969376	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	224396	54969376	4159607	388	24080										
ZNF549	256051	broad.mit.edu	37	chr19	58050032	58050032	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	accagaaagttcacactggcGaaaagccctgtgagtgcagt	11	10	1	2	rs140955096		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:58050032G>T	uc002qpb.1	+	4	1909	c.1660G>T	c.(1660-1662)GAA>TAA	p.E554*	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF549_uc002qpa.1_Nonsense_Mutation_p.E541*	NM_153263	NP_694995	Q6P9A3	ZN549_HUMAN	zinc finger protein 549	554					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TCACACTGGCGAAAAGCCCTG	0.448													34	102	---	---	---	---	PASS	T	58050032	T	T	58050032	4	4	61	1	0	0	0	0	0	1	0	0	17978	1059	37	2	1631	2	ZNF549	19	58050032	Nonsense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	3080656	58050032	1078951	389	24081										
PRND	23627	broad.mit.edu	37	chr20	4705465	4705465	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ggcagttccccgatggcatcCactacaacggctgctctgag	11	14	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr20:4705465C>G	uc002wkz.2	+	2	339	c.268C>G	c.(268-270)CAC>GAC	p.H90D		NM_012409	NP_036541	Q9UKY0	PRND_HUMAN	prion-like protein doppel preproprotein	90	Globular.				protein homooligomerization	anchored to membrane|plasma membrane					0						CGATGGCATCCACTACAACGG	0.592													18	9	---	---	---	---	PASS	G	4705465	G	G	4705465	3	3	61	1	0	0	0	0	1	0	0	0	12543	594	21	4	270	4	PRND	20	4705465	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08		4705465	58320055	390	24082										
RRBP1	6238	broad.mit.edu	37	chr20	17594839	17594839	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gaggaaactcagacagaggtGccctcctttgagctgctgcc	12	12	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr20:17594839G>A	uc002wpv.1	-	26	3276	c.2922C>T	c.(2920-2922)GGC>GGT	p.G974G	RRBP1_uc010zrp.1_Silent_p.G147G|RRBP1_uc002wpt.1_Silent_p.G343G|RRBP1_uc002wpu.2_Silent_p.G748G|RRBP1_uc002wpw.1_Silent_p.G974G|RRBP1_uc010gcl.1_Silent_p.G748G	NM_001042576	NP_001036041	Q9P2E9	RRBP1_HUMAN	ribosome binding protein 1	1407	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						AGACAGAGGTGCCCTCCTTTG	0.532													16	61	---	---	---	---	PASS	A	17594839	A	A	17594839	2	1	61	1	0	0	0	0	0	0	0	1	13678	1306	46	3		3	RRBP1	20	17594839	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	12889374	17594839	45430681	391	24083										
SPAG4	6676	broad.mit.edu	37	chr20	34203979	34203979	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcctcgcgcaagcacacgccCaactttttcagcgagaacag	8	15	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr20:34203979C>A	uc002xdb.1	+	1	171	c.54C>A	c.(52-54)CCC>CCA	p.P18P	SPAG4_uc010zvi.1_5'UTR	NM_003116	NP_003107	Q9NPE6	SPAG4_HUMAN	sperm associated antigen 4	18					spermatogenesis	cilium|flagellar axoneme|integral to membrane	structural molecule activity				0	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			AGCACACGCCCAACTTTTTCA	0.672													15	20	---	---	---	---	PASS	A	34203979	A	A	34203979	2	1	61	1	0	0	0	0	0	0	0	1	14980	581	21	3		3	SPAG4	20	34203979	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	16609140	34203979	28821541	392	24084										
SLA2	84174	broad.mit.edu	37	chr20	35242818	35242818	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	acacagggctccttgagtagGcagcagatgtcatccgccag	12	12	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr20:35242818G>T	uc002xfv.2	-	7	917	c.555C>A	c.(553-555)TGC>TGA	p.C185*	SLA2_uc002xfu.2_Intron	NM_032214	NP_115590	Q9H6Q3	SLAP2_HUMAN	Src-like-adaptor 2 isoform a	185	SH2.				antigen receptor-mediated signaling pathway|B cell mediated immunity|intracellular receptor mediated signaling pathway|negative regulation of B cell activation|negative regulation of calcium-mediated signaling|negative regulation of transcription from RNA polymerase II promoter|T cell activation	cytoplasmic membrane-bounded vesicle|endosome membrane|plasma membrane	protein N-terminus binding|SH3/SH2 adaptor activity				0	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				CCTTGAGTAGGCAGCAGATGT	0.592													50	66	---	---	---	---	PASS	T	35242818	T	T	35242818	4	4	61	1	0	0	0	0	0	1	0	0	14364	1195	42	3	238	3	SLA2	20	35242818	Nonsense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	1038839	35242818	27782702	393	24085										
DIDO1	11083	broad.mit.edu	37	chr20	61513191	61513191	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctcttcctctagagccttatCttttgagaactgaccgaact	6	12	3	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr20:61513191C>A	uc002ydr.1	-	16	4381	c.4117G>T	c.(4117-4119)GAT>TAT	p.D1373Y	DIDO1_uc002yds.1_Missense_Mutation_p.D1373Y	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1373					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					AGAGCCTTATCTTTTGAGAAC	0.607													81	87	---	---	---	---	PASS	A	61513191	A	A	61513191	3	1	61	1	0	0	0	0	1	0	0	0	4522	913	32	2	2609	2	DIDO1	20	61513191	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	26270373	61513191	1512329	394	24086										
ADAMTS5	11096	broad.mit.edu	37	chr21	28338313	28338313	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gactaccgtccactgtgcccCgatagaagcagtggctccgg	12	14	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr21:28338313C>T	uc002ymg.2	-	1	1127	c.398G>A	c.(397-399)CGG>CAG	p.R133Q		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	133					proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CACTGTGCCCCGATAGAAGCA	0.652													5	17	---	---	---	---	PASS	T	28338313	T	T	28338313	3	4	61	1	0	0	0	0	1	0	0	0	269	652	23	1	2426	1	ADAMTS5	21	28338313	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08		28338313	19791582	395	24087										
KRTAP26-1	388818	broad.mit.edu	37	chr21	31692350	31692350	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cgagcagtagttggggcaagAcatagtgaggttgtgagagc	17	5	0	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr21:31692350A>C	uc002ynw.2	-	1	258	c.4T>G	c.(4-6)TCT>GCT	p.S2A		NM_203405	NP_981950	Q6PEX3	KR261_HUMAN	keratin associated protein 26-1	2						intermediate filament				ovary(1)	1						TTGGGGCAAGACATAGTGAGG	0.507													5	14	---	---	---	---	PASS	C	31692350	C	C	31692350	3	2	61	1	0	0	0	0	1	0	0	0	8543	275	10	5	632	5	KRTAP26-1	21	31692350	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	3354037	31692350	16437545	396	24088										
DOPEY2	9980	broad.mit.edu	37	chr21	37618123	37618123	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	caacctcatctccaacctccTcgctcgccaccaggaggccc	6	21	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr21:37618123T>G	uc002yvg.2	+	19	3924	c.3845T>G	c.(3844-3846)CTC>CGC	p.L1282R	DOPEY2_uc011aeb.1_Missense_Mutation_p.L1231R|DOPEY2_uc002yvh.2_Missense_Mutation_p.L133R	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	1282					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						TCCAACCTCCTCGCTCGCCAC	0.592													48	38	---	---	---	---	PASS	G	37618123	G	G	37618123	3	3	61	1	0	0	0	0	1	0	0	0	4708	1551	54	5	3915	5	DOPEY2	21	37618123	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	5925773	37618123	10511772	397	24089										
DYRK1A	1859	broad.mit.edu	37	chr21	38862669	38862669	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agaacttagtatcattcactGtgatctaaaacctgaaaata	5	7	3	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr21:38862669G>A	uc002ywk.2	+	6	932	c.857G>A	c.(856-858)TGT>TAT	p.C286Y	DYRK1A_uc002ywi.2_Missense_Mutation_p.C286Y|DYRK1A_uc002ywj.2_Missense_Mutation_p.C277Y|DYRK1A_uc002ywl.2_Missense_Mutation_p.C286Y|DYRK1A_uc002ywm.2_Missense_Mutation_p.C286Y|DYRK1A_uc011aei.1_Missense_Mutation_p.C47Y	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	286	Protein kinase.				nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						ATCATTCACTGTGATCTAAAA	0.438													47	49	---	---	---	---	PASS	A	38862669	A	A	38862669	3	1	61	1	0	0	0	0	1	0	0	0	4854	1377	48	3	879	3	DYRK1A	21	38862669	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	1244546	38862669	9267226	398	24090										
RIPK4	54101	broad.mit.edu	37	chr21	43161625	43161625	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aggtggccctgccaggcagcGtagtgcagtggcagccaggc	17	12	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr21:43161625G>T	uc002yzn.1	-	8	1776	c.1728C>A	c.(1726-1728)TAC>TAA	p.Y576*		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	576						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						GCCAGGCAGCGTAGTGCAGTG	0.672													30	40	---	---	---	---	PASS	T	43161625	T	T	43161625	4	4	61	1	0	0	0	0	0	1	0	0	13383	1140	40	1	630	1	RIPK4	21	43161625	Nonsense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	4298956	43161625	4968270	399	24091										
APOL5	80831	broad.mit.edu	37	chr22	36124888	36124888	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aggatgcttggccaccagccAgccccaccagcaccagcaag	10	17	0	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr22:36124888A>T	uc003aof.2	+	4	1245	c.1245A>T	c.(1243-1245)CCA>CCT	p.P415P		NM_030642	NP_085145	Q9BWW9	APOL5_HUMAN	apolipoprotein L5	415					lipid metabolic process|lipid transport|lipoprotein metabolic process	cytoplasm|extracellular region	high-density lipoprotein particle binding|lipid binding|protein binding				0						GCCACCAGCCAGCCCCACCAG	0.627													11	33	---	---	---	---	PASS	T	36124888	T	T	36124888	2	4	61	1	0	0	0	0	0	0	0	1	809	175	7	5		5	APOL5	22	36124888	Silent	SNP	A	TCGA-33-4586-01A-01D-1441-08		36124888	15179678	400	24092										
ELFN2	114794	broad.mit.edu	37	chr22	37769709	37769709	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	caggtcttgcgggtcacggcCgcgtcggcgctcagctggcg	17	14	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr22:37769709C>A	uc003asq.3	-	3	2652	c.1866G>T	c.(1864-1866)GCG>GCT	p.A622A		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	622	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					GGGTCACGGCCGCGTCGGCGC	0.687													5	11	---	---	---	---	PASS	A	37769709	A	A	37769709	2	1	61	1	0	0	0	0	0	0	0	1	5058	639	23	1		1	ELFN2	22	37769709	Silent	SNP	C	TCGA-33-4586-01A-01D-1441-08	1644821	37769709	13534857	401	24093										
CBX6	23466	broad.mit.edu	37	chr22	39262445	39262445	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gccgtgggaggtgccgggccGgcagcagctgtgacctcagg	19	12	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr22:39262445G>A	uc003awl.2	-	5	1071	c.1008C>T	c.(1006-1008)GCC>GCT	p.A336A		NM_014292	NP_055107	O95503	CBX6_HUMAN	chromobox homolog 6	336					chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	PcG protein complex					0	Melanoma(58;0.04)					GTGCCGGGCCGGCAGCAGCTG	0.746													7	9	---	---	---	---	PASS	A	39262445	A	A	39262445	2	1	61	1	0	0	0	0	0	0	0	1	2722	1103	39	1		1	CBX6	22	39262445	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	1492736	39262445	12042121	402	24094										
SHOX	6473	broad.mit.edu	37	chrX	601563	601563	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gcttctccccaaggtttggtTccagaaccggagagccaagt	11	12	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:601563T>A	uc004cph.1	+	4	1185	c.494T>A	c.(493-495)TTC>TAC	p.F165Y	SHOX_uc004cpi.2_Missense_Mutation_p.F165Y	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	165	Homeobox.				skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AAGGTTTGGTTCCAGAACCGG	0.582													39	58	---	---	---	---	PASS	A	601563	A	A	601563	3	1	61	1	0	0	0	0	1	0	0	0	14288	1783	62	5	504	5	SHOX	23	601563	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08		601563	154668997	403	24095										
ASMT	438	broad.mit.edu	37	chrX	1742166	1742166	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctcctgctggacatctgtgtGtccctgaagctgctgaaagt	11	11	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:1742166G>T	uc004cqd.2	+	3	349	c.204G>T	c.(202-204)GTG>GTT	p.V68V	ASMT_uc010ncy.2_Silent_p.V68V|ASMT_uc004cqe.2_Silent_p.V68V	NM_004043	NP_004034	P46597	HIOM_HUMAN	acetylserotonin O-methyltransferase	68					melatonin biosynthetic process|translation	cytosol	acetylserotonin O-methyltransferase activity|S-methyltransferase activity			skin(1)	1		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ACATCTGTGTGTCCCTGAAGC	0.607													13	24	---	---	---	---	PASS	T	1742166	T	T	1742166	2	4	61	1	0	0	0	0	0	0	0	1	1045	1364	48	3		3	ASMT	23	1742166	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	1140603	1742166	153528394	404	24096										
SHROOM2	357	broad.mit.edu	37	chrX	9905279	9905279	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	agccgccagagcctggcatgCcccgccgagccacctgccct	11	20	0	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:9905279C>A	uc004csu.1	+	7	3783	c.3693C>A	c.(3691-3693)TGC>TGA	p.C1231*	SHROOM2_uc004csv.2_Nonsense_Mutation_p.C66*|SHROOM2_uc011mic.1_Nonsense_Mutation_p.C66*|SHROOM2_uc004csw.1_Nonsense_Mutation_p.C66*	NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	1231					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				GCCTGGCATGCCCCGCCGAGC	0.612													3	7	---	---	---	---	PASS	A	9905279	A	A	9905279	4	1	61	1	0	0	0	0	0	1	0	0	14294	747	26	3	3719	3	SHROOM2	23	9905279	Nonsense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	8163113	9905279	145365281	405	24097										
BCOR	54880	broad.mit.edu	37	chrX	39933802	39933802	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aggccgaaggtgtcgagagcCtcatgggtgatgccaaggac	16	9	1	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:39933802C>A	uc004den.3	-	4	1089	c.797G>T	c.(796-798)AGG>ATG	p.R266M	BCOR_uc004dep.3_Missense_Mutation_p.R266M|BCOR_uc004deo.3_Missense_Mutation_p.R266M|BCOR_uc004dem.3_Missense_Mutation_p.R266M|BCOR_uc004deq.3_Missense_Mutation_p.R266M	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	266					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						TGTCGAGAGCCTCATGGGTGA	0.607													6	4	---	---	---	---	PASS	A	39933802	A	A	39933802	3	1	61	1	0	0	0	0	1	0	0	0	1386	681	24	3	4518	3	BCOR	23	39933802	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	30028523	39933802	115336758	406	24098										
KDM6A	7403	broad.mit.edu	37	chrX	44970626	44970626	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ctaccttacttttattttcaGgctcctccattaccatccgc	3	15	1	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:44970626G>A	uc004dge.3	+	29	4552	c.4177_splice	c.e29-1	p.A1393_splice	KDM6A_uc011mkz.1_Splice_Site_p.A1445_splice|KDM6A_uc011mla.1_Splice_Site_p.A1348_splice|KDM6A_uc011mlb.1_Splice_Site_p.A1400_splice|KDM6A_uc011mlc.1_Splice_Site_p.A1097_splice|KDM6A_uc011mld.1_Splice_Site_p.A1032_splice	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide						histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						TTTATTTTCAGGCTCCTCCAT	0.378			D|N|F|S		renal|oesophageal SCC|MM								41	28	---	---	---	---	PASS	A	44970626	A	A	44970626	5	1	61	1	0	0	0	0	0	0	1	0	8137	1014	35	3	4290	3	KDM6A	23	44970626	Splice_Site	SNP	G	TCGA-33-4586-01A-01D-1441-08	5036824	44970626	110299934	407	24099										
SSX7	280658	broad.mit.edu	37	chrX	52677351	52677351	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcagaggtacttggttttccTggagggcacaggtgtttccc	13	9	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:52677351T>G	uc004dqx.1	-	6	585	c.426A>C	c.(424-426)CCA>CCC	p.P142P		NM_173358	NP_775494	Q7RTT5	SSX7_HUMAN	synovial sarcoma, X breakpoint 7	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding			skin(1)	1	Ovarian(276;0.236)					TTGGTTTTCCTGGAGGGCACA	0.493													92	67	---	---	---	---	PASS	G	52677351	G	G	52677351	2	3	61	1	0	0	0	0	0	0	0	1	15208	1567	55	5		5	SSX7	23	52677351	Silent	SNP	T	TCGA-33-4586-01A-01D-1441-08	7706725	52677351	102593209	408	24100										
WNK3	65267	broad.mit.edu	37	chrX	54337675	54337675	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gctggagacccttcaacatcTctgcttcttccttgaatctt	6	13	4	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:54337675T>C	uc004dtd.1	-	3	1026	c.587A>G	c.(586-588)GAG>GGG	p.E196G	WNK3_uc004dtc.1_Missense_Mutation_p.E196G	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	196	Protein kinase.				intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						CTTCAACATCTCTGCTTCTTC	0.363													26	29	---	---	---	---	PASS	C	54337675	C	C	54337675	3	2	61	1	0	0	0	0	1	0	0	0	17376	1551	54	5	4903	5	WNK3	23	54337675	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	1660324	54337675	100932885	409	24101										
SPIN4	139886	broad.mit.edu	37	chrX	62570236	62570236	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aacaggatctttctcgtaggTgatgtaaaaccaagtatcca	8	8	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:62570236T>A	uc004dvf.2	-	1	983	c.463A>T	c.(463-465)ACC>TCC	p.T155S		NM_001012968	NP_001012986	Q56A73	SPIN4_HUMAN	spindlin family, member 4	155					gamete generation					ovary(1)|lung(1)	2						TTCTCGTAGGTGATGTAAAAC	0.453													66	50	---	---	---	---	PASS	A	62570236	A	A	62570236	3	1	61	1	0	0	0	0	1	0	0	0	15055	1696	59	5	290	5	SPIN4	23	62570236	Missense_Mutation	SNP	T	TCGA-33-4586-01A-01D-1441-08	8232561	62570236	92700324	410	24102										
MSN	4478	broad.mit.edu	37	chrX	64959616	64959616	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	cacttcggagctggccaatgCcagagatgagtccaagaaga	12	10	0	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:64959616C>A	uc004dwf.2	+	13	1793	c.1595C>A	c.(1594-1596)GCC>GAC	p.A532D		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	532					leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						CTGGCCAATGCCAGAGATGAG	0.527			T	ALK	ALCL								47	40	---	---	---	---	PASS	A	64959616	A	A	64959616	3	1	61	1	0	0	0	0	1	0	0	0	9885	739	26	3	1645	3	MSN	23	64959616	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	2389380	64959616	90310944	411	24103										
DACH2	117154	broad.mit.edu	37	chrX	86068252	86068252	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	attagagaaaaccttgaaagAcaacttgcagttgagcttca	8	7	1	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:86068252A>C	uc004eew.2	+	9	1679	c.1509A>C	c.(1507-1509)AGA>AGC	p.R503S	DACH2_uc004eex.2_Missense_Mutation_p.R490S|DACH2_uc010nmq.2_Missense_Mutation_p.R369S|DACH2_uc011mra.1_Missense_Mutation_p.R336S|DACH2_uc010nmr.2_Missense_Mutation_p.R284S|DACH2_uc004eey.2_Missense_Mutation_p.R196S|DACH2_uc004eez.2_Missense_Mutation_p.R186S	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	503	Potential.|DACHbox-C.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						ACCTTGAAAGACAACTTGCAG	0.373													12	7	---	---	---	---	PASS	C	86068252	C	C	86068252	3	2	61	1	0	0	0	0	1	0	0	0	4221	272	10	5	1543	5	DACH2	23	86068252	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	21108636	86068252	69202308	412	24104										
DIAPH2	1730	broad.mit.edu	37	chrX	96173512	96173512	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tcttttttctctacagtctaGataaacttttaggggctata	6	7	3	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:96173512G>T	uc004efu.3	+	9	1270	c.874G>T	c.(874-876)GAT>TAT	p.D292Y	DIAPH2_uc004eft.3_Missense_Mutation_p.D292Y|DIAPH2_uc004efs.2_Missense_Mutation_p.D299Y	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	292	GBD/FH3.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						CTACAGTCTAGATAAACTTTT	0.368													20	12	---	---	---	---	PASS	T	96173512	T	T	96173512	3	4	61	1	0	0	0	0	1	0	0	0	4519	942	33	2	908	2	DIAPH2	23	96173512	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	10105260	96173512	59097048	413	24105										
ZMAT1	84460	broad.mit.edu	37	chrX	101139358	101139358	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgctcacacattcttgatctGggtccagaatcaaccatttc	6	12	4	2			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:101139358G>T	uc004eim.2	-	2	4026	c.528C>A	c.(526-528)CCC>CCA	p.P176P	ZMAT1_uc011mrl.1_Silent_p.P347P|ZMAT1_uc004ein.2_Silent_p.P176P|ZMAT1_uc011mrm.1_Silent_p.P176P	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	176						nucleus	zinc ion binding			ovary(1)	1						TTCTTGATCTGGGTCCAGAAT	0.448													78	60	---	---	---	---	PASS	T	101139358	T	T	101139358	2	4	61	1	0	0	0	0	0	0	0	1	17688	1335	47	3		3	ZMAT1	23	101139358	Silent	SNP	G	TCGA-33-4586-01A-01D-1441-08	4965846	101139358	54131202	414	24106										
RGAG1	57529	broad.mit.edu	37	chrX	109695278	109695278	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	aacttctggagcaatgcccaCaggctctatgaaagccgtgg	11	11	2	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:109695278C>T	uc004eor.1	+	3	1679	c.1433C>T	c.(1432-1434)ACA>ATA	p.T478I	RGAG1_uc011msr.1_Missense_Mutation_p.T478I	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	478										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GCAATGCCCACAGGCTCTATG	0.512													66	47	---	---	---	---	PASS	T	109695278	T	T	109695278	3	4	61	1	0	0	0	0	1	0	0	0	13274	478	17	3	1435	3	RGAG1	23	109695278	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	8555920	109695278	45575282	415	24107										
DCAF12L1	139170	broad.mit.edu	37	chrX	125685379	125685379	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	gagccagcctctgccacaggCaagcctgagcttcctccttg	10	16	1	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:125685379C>A	uc004eul.2	-	1	1464	c.1213G>T	c.(1213-1215)GCC>TCC	p.A405S		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	405										skin(3)|ovary(1)	4						CTGCCACAGGCAAGCCTGAGC	0.557													21	26	---	---	---	---	PASS	A	125685379	A	A	125685379	3	1	61	1	0	0	0	0	1	0	0	0	4264	710	25	3	182	3	DCAF12L1	23	125685379	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	15990101	125685379	29585181	416	24108										
OR13H1	347468	broad.mit.edu	37	chrX	130678730	130678730	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tatggctatcataaggattcGctcactccagggcaggctca	10	11	3	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:130678730G>A	uc011muw.1	+	1	683	c.683G>A	c.(682-684)CGC>CAC	p.R228H	IGSF1_uc004ewf.2_Intron	NM_001004486	NP_001004486	Q8NG92	O13H1_HUMAN	olfactory receptor, family 13, subfamily H,	228	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Acute lymphoblastic leukemia(192;0.000636)					ATAAGGATTCGCTCACTCCAG	0.468													98	66	---	---	---	---	PASS	A	130678730	A	A	130678730	3	1	61	1	0	0	0	0	1	0	0	0	10943	1087	38	1	685	1	OR13H1	23	130678730	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	4993351	130678730	24591830	417	24109										
SAGE1	55511	broad.mit.edu	37	chrX	134994064	134994064	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ccatggcaaagaaaattaatGatgatataaaatatcaatta	5	4	1	3			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:134994064G>A	uc004ezh.2	+	18	2640	c.2473G>A	c.(2473-2475)GAT>AAT	p.D825N	SAGE1_uc010nry.1_Missense_Mutation_p.D794N|SAGE1_uc011mvv.1_Missense_Mutation_p.D449N	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	825										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GAAAATTAATGATGATATAAA	0.378													35	31	---	---	---	---	PASS	A	134994064	A	A	134994064	3	1	61	1	0	0	0	0	1	0	0	0	13809	1290	45	2	2539	2	SAGE1	23	134994064	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	4315334	134994064	20276496	418	24110										
GPR112	139378	broad.mit.edu	37	chrX	135431138	135431138	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	ttcacctactcatgcagataGtctccatacttccttcaata	3	13	4	1			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:135431138G>T	uc004ezu.1	+	6	5564	c.5273G>T	c.(5272-5274)AGT>ATT	p.S1758I	GPR112_uc010nsb.1_Missense_Mutation_p.S1553I|GPR112_uc010nsc.1_Missense_Mutation_p.S1525I	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1758	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					CATGCAGATAGTCTCCATACT	0.408													75	64	---	---	---	---	PASS	T	135431138	T	T	135431138	3	4	61	1	0	0	0	0	1	0	0	0	6629	1029	36	3	5283	3	GPR112	23	135431138	Missense_Mutation	SNP	G	TCGA-33-4586-01A-01D-1441-08	437074	135431138	19839422	419	24111										
UBE2NL	389898	broad.mit.edu	37	chrX	142967473	142967473	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tggaaagaataagtttagatAttttgaaagataagtggtcc	10	2	0	4			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:142967473A>T	uc004fca.2	+	1	301	c.271A>T	c.(271-273)ATT>TTT	p.I91F		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	91							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					AAGTTTAGATATTTTGAAAGA	0.408													38	33	---	---	---	---	PASS	T	142967473	T	T	142967473	3	4	61	1	0	0	0	0	1	0	0	0	16864	449	16	5	273	5	UBE2NL	23	142967473	Missense_Mutation	SNP	A	TCGA-33-4586-01A-01D-1441-08	7536335	142967473	12303087	420	24112										
FATE1	89885	broad.mit.edu	37	chrX	150891115	150891115	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052757793764988	22	0.422544569088431	1.09910610633852	1.56301452784504	0.911758474576271	0.46072997099277	0.81842946137857	0	tgcagctgtatgcagtcaacCggcgtctgcgcgccctggag	14	13	2	0			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:150891115C>T	uc004fex.2	+	5	520	c.436C>T	c.(436-438)CGG>TGG	p.R146W		NM_033085	NP_149076	Q969F0	FATE1_HUMAN	fetal and adult testis expressed transcript	146						endoplasmic reticulum|integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TGCAGTCAACCGGCGTCTGCG	0.617													37	50	---	---	---	---	PASS	T	150891115	T	T	150891115	3	4	61	1	0	0	0	0	1	0	0	0	5693	643	23	1	454	1	FATE1	23	150891115	Missense_Mutation	SNP	C	TCGA-33-4586-01A-01D-1441-08	7923642	150891115	4379445	421	24113										
CHD5	26038	broad.mit.edu	37	chr1	6202587	6202587	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agagaagcgcagccagttgaGgccctccagctggtacgggt	15	11	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:6202587G>A	uc001amb.1	-	14	2222	c.2122C>T	c.(2122-2124)CTC>TTC	p.L708F	CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	708					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		AGCCAGTTGAGGCCCTCCAGC	0.617													28	69	---	---	---	---	PASS	A	6202587	A	A	6202587	3	1	62	1	0	0	0	0	1	0	0	0	3328	1000	35	3	3854	3	CHD5	1	6202587	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08		6202587	243048034	1	24114										
PRAMEF2	65122	broad.mit.edu	37	chr1	12919947	12919947	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aagctttattgttacctgaaGgagatgaagactctttgcaa	9	6	1	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:12919947G>A	uc001aum.1	+	3	774	c.687G>A	c.(685-687)AAG>AAA	p.K229K		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	229											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GTTACCTGAAGGAGATGAAGA	0.403													29	231	---	---	---	---	PASS	A	12919947	A	A	12919947	2	1	62	1	0	0	0	0	0	0	0	1	12435	991	35	3		3	PRAMEF2	1	12919947	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	6717360	12919947	236330674	2	24115										
PADI1	29943	broad.mit.edu	37	chr1	17567205	17567205	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtgacatcgtggacattcccCagctcttcttcctgaaaaac	7	13	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:17567205C>A	uc001bah.1	+	15	1800	c.1708C>A	c.(1708-1710)CAG>AAG	p.Q570K	PADI1_uc010oco.1_Missense_Mutation_p.Q127K|PADI1_uc010ocp.1_Intron|PADI1_uc010ocq.1_Missense_Mutation_p.Q41K|PADI1_uc009vpb.1_Intron	NM_013358	NP_037490	Q9ULC6	PADI1_HUMAN	peptidylarginine deiminase type I	570					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity				0		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00522)|BRCA - Breast invasive adenocarcinoma(304;1.3e-05)|COAD - Colon adenocarcinoma(227;1.31e-05)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(196;0.0069)|READ - Rectum adenocarcinoma(331;0.0681)|Lung(427;0.197)	L-Citrulline(DB00155)	GGACATTCCCCAGCTCTTCTT	0.587													24	130	---	---	---	---	PASS	A	17567205	A	A	17567205	3	1	62	1	0	0	0	0	1	0	0	0	11377	595	21	3	1766	3	PADI1	1	17567205	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	4647258	17567205	231683416	3	24116										
PINK1	65018	broad.mit.edu	37	chr1	20976998	20976998	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gaacatattctagccctgaaGaatctgaagttagacaagat	8	7	2	5			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:20976998G>A	uc001bdm.2	+	8	1654	c.1560G>A	c.(1558-1560)AAG>AAA	p.K520K	PINK1_uc001bdn.2_Silent_p.K213K	NM_032409	NP_115785	Q9BXM7	PINK1_HUMAN	PTEN induced putative kinase 1 precursor	520	Cytoplasmic (Potential).				cell death|intracellular protein kinase cascade|mitochondrion degradation|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of release of cytochrome c from mitochondria|regulation of protein complex assembly|regulation of protein ubiquitination|response to stress	cytosol|integral to membrane|mitochondrial outer membrane	ATP binding|C3HC4-type RING finger domain binding|calcium-dependent protein kinase activity|magnesium ion binding|protein serine/threonine kinase activity|ubiquitin protein ligase binding			ovary(2)|central_nervous_system(1)	3		all_lung(284;2.72e-05)|Lung NSC(340;2.94e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.21e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000146)|Kidney(64;0.000182)|GBM - Glioblastoma multiforme(114;0.000497)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TAGCCCTGAAGAATCTGAAGT	0.498													27	33	---	---	---	---	PASS	A	20976998	A	A	20976998	2	1	62	1	0	0	0	0	0	0	0	1	11932	933	33	2		2	PINK1	1	20976998	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	3409793	20976998	228273623	4	24117										
ZNF436	80818	broad.mit.edu	37	chr1	23693646	23693646	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gagatacatggccatatcttCaaacgtcacaggtgcctgaa	9	10	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:23693646C>G	uc001bgt.2	-	2	430	c.49G>C	c.(49-51)GAA>CAA	p.E17Q	ZNF436_uc001bgu.2_Missense_Mutation_p.E17Q|C1orf213_uc001bgv.2_5'Flank|C1orf213_uc001bgw.2_5'Flank	NM_030634	NP_085137	Q9C0F3	ZN436_HUMAN	zinc finger protein 436	17	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;5.97e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000977)|KIRC - Kidney renal clear cell carcinoma(1967;0.00336)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		GCCATATCTTCAAACGTCACA	0.423													19	117	---	---	---	---	PASS	G	23693646	G	G	23693646	3	3	62	1	0	0	0	0	1	0	0	0	17906	835	29	2	1371	2	ZNF436	1	23693646	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2716648	23693646	225556975	5	24118										
NIPAL3	57185	broad.mit.edu	37	chr1	24766703	24766703	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttggcgatcttcgggcacctCgtggtcagcattgcacttaa	11	11	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:24766703C>T	uc001bjh.2	+	3	542	c.135C>T	c.(133-135)CTC>CTT	p.L45L	NIPAL3_uc010oek.1_Silent_p.L45L|NIPAL3_uc001bjg.2_Silent_p.L45L|NIPAL3_uc009vrc.2_5'UTR	NM_020448	NP_065181	Q6P499	NPAL3_HUMAN	NIPA-like domain containing 3	45	Helical; (Potential).					integral to membrane					0						TCGGGCACCTCGTGGTCAGCA	0.542													22	49	---	---	---	---	PASS	T	24766703	T	T	24766703	2	4	62	1	0	0	0	0	0	0	0	1	10426	871	31	2		2	NIPAL3	1	24766703	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	1073057	24766703	224483918	6	24119										
FAM76A	199870	broad.mit.edu	37	chr1	28081796	28081796	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gaagtggctaccctgaagaaGatgttgcatcaaaaggatca	11	7	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:28081796G>C	uc001boq.2	+	7	792	c.690G>C	c.(688-690)AAG>AAC	p.K230N	FAM76A_uc009vtb.2_Missense_Mutation_p.K230N|FAM76A_uc001bor.2_Missense_Mutation_p.K264N|FAM76A_uc001bos.2_Missense_Mutation_p.K235N|FAM76A_uc001bot.2_Missense_Mutation_p.K201N|FAM76A_uc010ofm.1_Missense_Mutation_p.K150N	NM_152660	NP_689873	Q8TAV0	FA76A_HUMAN	hypothetical protein LOC199870 isoform 3	230	Potential.										0		Colorectal(325;0.000147)|all_lung(284;0.00181)|Lung NSC(340;0.00278)|Renal(390;0.00357)|Breast(348;0.0115)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0429)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-24)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;1.75e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00253)|KIRC - Kidney renal clear cell carcinoma(1967;0.00292)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)		CCCTGAAGAAGATGTTGCATC	0.438													27	79	---	---	---	---	PASS	C	28081796	C	C	28081796	3	2	62	1	0	0	0	0	1	0	0	0	5624	933	33	2	822	2	FAM76A	1	28081796	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3315093	28081796	221168825	7	24120										
COL16A1	1307	broad.mit.edu	37	chr1	32165448	32165448	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cacgggggccgcccccaggcGcaggatgagaggccccttgg	17	15	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:32165448G>A	uc001btk.1	-	4	597	c.232C>T	c.(232-234)CGC>TGC	p.R78C	COL16A1_uc001btj.1_5'Flank|COL16A1_uc001btl.3_Missense_Mutation_p.R78C	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	78	TSP N-terminal.				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		GCCCCCAGGCGCAGGATGAGA	0.592													15	89	---	---	---	---	PASS	A	32165448	A	A	32165448	3	1	62	1	0	0	0	0	1	0	0	0	3673	1087	38	1	4854	1	COL16A1	1	32165448	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	4083652	32165448	217085173	8	24121										
KIAA0754	643314	broad.mit.edu	37	chr1	39878590	39878590	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttccacatgaggacatcctaGttgcttcaatagtctcctta	6	11	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:39878590G>A	uc009vvt.1	+	1	3415	c.2653G>A	c.(2653-2655)GTT>ATT	p.V885I	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc010oiu.1_Intron	NM_015038	NP_055853	O94854	K0754_HUMAN	hypothetical protein LOC643314	749											0	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	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)			GGACATCCTAGTTGCTTCAAT	0.547													4	9	---	---	---	---	PASS	A	39878590	A	A	39878590	3	1	62	1	0	0	0	0	1	0	0	0	8192	1029	36	3	2655	3	KIAA0754	1	39878590	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	7713142	39878590	209372031	9	24122										
ZMPSTE24	10269	broad.mit.edu	37	chr1	40723960	40723960	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggccatggggatgtgggcatCgctggacgctttgtgggaga	19	7	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:40723960C>G	uc001cfg.2	+	1	228	c.17C>G	c.(16-18)TCG>TGG	p.S6W	uc001cff.2_5'Flank	NM_005857	NP_005848	O75844	FACE1_HUMAN	zinc metallopeptidase STE24	6						endoplasmic reticulum membrane|Golgi membrane|integral to membrane	metal ion binding|metalloexopeptidase activity				0	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;6.3e-18)			ATGTGGGCATCGCTGGACGCT	0.632													28	75	---	---	---	---	PASS	G	40723960	G	G	40723960	3	3	62	1	0	0	0	0	1	0	0	0	17695	893	31	2	19	2	ZMPSTE24	1	40723960	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	845370	40723960	208526661	10	24123										
LEPRE1	64175	broad.mit.edu	37	chr1	43228017	43228017	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atggggttgagtctcaagatCcttgaagtcggcctccttca	11	10	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:43228017C>G	uc001chv.2	-	2	708	c.595G>C	c.(595-597)GAT>CAT	p.D199H	LEPRE1_uc001chw.2_Missense_Mutation_p.D199H|LEPRE1_uc001chx.3_Missense_Mutation_p.D199H|LEPRE1_uc001chy.3_Missense_Mutation_p.D199H	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	199					negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GTCTCAAGATCCTTGAAGTCG	0.338													39	213	---	---	---	---	PASS	G	43228017	G	G	43228017	3	3	62	1	0	0	0	0	1	0	0	0	8729	855	30	2	1690	2	LEPRE1	1	43228017	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2504057	43228017	206022604	11	24124										
PTCH2	8643	broad.mit.edu	37	chr1	45292238	45292238	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	accagcaggatgcagacggcCagcaggaagcagcgccgcag	15	13	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:45292238C>A	uc010olf.1	-	18	2910	c.2898G>T	c.(2896-2898)CTG>CTT	p.L966L	PTCH2_uc010olg.1_Silent_p.L664L	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	966	Helical; (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					TGCAGACGGCCAGCAGGAAGC	0.657									Basal_Cell_Nevus_syndrome				5	32	---	---	---	---	PASS	A	45292238	A	A	45292238	2	1	62	1	0	0	0	0	0	0	0	1	12731	581	21	3		3	PTCH2	1	45292238	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	2064221	45292238	203958383	12	24125										
ZCCHC11	23318	broad.mit.edu	37	chr1	52962837	52962837	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aggtggcagagaacgaagctCactttcttcttgtttttcct	9	9	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:52962837C>T	uc001ctx.2	-	5	1252	c.1018G>A	c.(1018-1020)GAG>AAG	p.E340K	ZCCHC11_uc001cty.2_Missense_Mutation_p.E340K|ZCCHC11_uc001ctz.2_Missense_Mutation_p.E340K|ZCCHC11_uc009vze.1_Missense_Mutation_p.E340K|ZCCHC11_uc009vzf.1_Missense_Mutation_p.E99K|ZCCHC11_uc001cub.2_Missense_Mutation_p.E340K|ZCCHC11_uc001cuc.2_Intron	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	340					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						GAACGAAGCTCACTTTCTTCT	0.279													9	23	---	---	---	---	PASS	T	52962837	T	T	52962837	3	4	62	1	0	0	0	0	1	0	0	0	17577	835	29	2	4023	2	ZCCHC11	1	52962837	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	7670599	52962837	196287784	13	24126										
USP24	23358	broad.mit.edu	37	chr1	55544314	55544314	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agcctgtcagctcccgcaaaGcaaacattacctggtgggaa	10	12	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:55544314G>C	uc001cyg.3	-	58	6731	c.6731C>G	c.(6730-6732)GCT>GGT	p.A2244G		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	2404					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						CTCCCGCAAAGCAAACATTAC	0.438													4	22	---	---	---	---	PASS	C	55544314	C	C	55544314	3	2	62	1	0	0	0	0	1	0	0	0	17052	971	34	4	683	4	USP24	1	55544314	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2581477	55544314	193706307	14	24127										
CYP2J2	1573	broad.mit.edu	37	chr1	60373569	60373569	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gctgcagatgaggttttcttCatggaaacttgaagtaggat	12	5	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:60373569C>T	uc001czq.2	-	6	897	c.892G>A	c.(892-894)GAA>AAA	p.E298K		NM_000775	NP_000766	P51589	CP2J2_HUMAN	cytochrome P450, family 2, subfamily J,	298					epoxygenase P450 pathway|linoleic acid metabolic process|regulation of heart contraction|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	arachidonic acid 11,12-epoxygenase activity|arachidonic acid 14,15-epoxygenase activity|aromatase activity|electron carrier activity|heme binding|linoleic acid epoxygenase activity			ovary(1)	1	all_cancers(7;0.000396)					AGGTTTTCTTCATGGAAACTT	0.453													28	75	---	---	---	---	PASS	T	60373569	T	T	60373569	3	4	62	1	0	0	0	0	1	0	0	0	4172	835	29	2	632	2	CYP2J2	1	60373569	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	4829255	60373569	188877052	15	24128										
CACHD1	57685	broad.mit.edu	37	chr1	65120429	65120429	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcatccctgtcttggcacatAaacaagctgagagaaactgg	9	10	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:65120429A>C	uc001dbo.1	+	12	1677	c.1572A>C	c.(1570-1572)ATA>ATC	p.I524I	CACHD1_uc001dbp.1_Silent_p.I279I|CACHD1_uc001dbq.1_Silent_p.I279I	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	575	Extracellular (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						CTTGGCACATAAACAAGCTGA	0.458													35	148	---	---	---	---	PASS	C	65120429	C	C	65120429	2	2	62	1	0	0	0	0	0	0	0	1	2537	352	13	5		5	CACHD1	1	65120429	Silent	SNP	A	TCGA-33-6737-01A-11D-1817-08	4746860	65120429	184130192	16	24129										
RAVER2	55225	broad.mit.edu	37	chr1	65270690	65270690	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtagaaacccggcttacttgGagagcccccagctgtggtac	12	12	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:65270690G>C	uc001dbs.1	+	8	1352	c.1274G>C	c.(1273-1275)GGA>GCA	p.G425A	RAVER2_uc001dbt.1_Missense_Mutation_p.G317A|RAVER2_uc010opb.1_Intron	NM_018211	NP_060681	Q9HCJ3	RAVR2_HUMAN	ribonucleoprotein, PTB-binding 2	438						cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)	1						GGCTTACTTGGAGAGCCCCCA	0.418													58	88	---	---	---	---	PASS	C	65270690	C	C	65270690	3	2	62	1	0	0	0	0	1	0	0	0	13095	1174	41	2	1304	2	RAVER2	1	65270690	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	150261	65270690	183979931	17	24130										
IFI44L	10964	broad.mit.edu	37	chr1	79107177	79107177	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccaatattttgatggttggaAattatgcttcagatttggaa	9	4	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:79107177A>T	uc010oro.1	+	8	1386	c.1207A>T	c.(1207-1209)AAC>TAC	p.N403Y	IFI44L_uc010orp.1_Missense_Mutation_p.N140Y|IFI44L_uc010orq.1_Missense_Mutation_p.N140Y	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	403						cytoplasm					0						GATGGTTGGAAATTATGCTTC	0.373													29	76	---	---	---	---	PASS	T	79107177	T	T	79107177	3	4	62	1	0	0	0	0	1	0	0	0	7518	14	1	5	1233	5	IFI44L	1	79107177	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	13836487	79107177	170143444	18	24131										
ZNF644	84146	broad.mit.edu	37	chr1	91405187	91405187	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttttggatgatcctactacaGagtctttcatgaaagtcttt	7	7	3	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:91405187G>C	uc001dnw.2	-	3	1866	c.1724C>G	c.(1723-1725)TCT>TGT	p.S575C	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.S575C	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	575					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		TCCTACTACAGAGTCTTTCAT	0.398													33	93	---	---	---	---	PASS	C	91405187	C	C	91405187	3	2	62	1	0	0	0	0	1	0	0	0	18057	942	33	2	2275	2	ZNF644	1	91405187	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	12298010	91405187	157845434	19	24132										
LPPR4	9890	broad.mit.edu	37	chr1	99771996	99771996	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aacagaagcaacagccagccCcgaatcatgcaagtcatagc	8	13	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:99771996C>A	uc001dse.2	+	7	1828	c.1722C>A	c.(1720-1722)CCC>CCA	p.P574P	LPPR4_uc010oue.1_Silent_p.P516P	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	574							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		ACAGCCAGCCCCGAATCATGC	0.547													25	54	---	---	---	---	PASS	A	99771996	A	A	99771996	2	1	62	1	0	0	0	0	0	0	0	1	8927	610	22	3		3	LPPR4	1	99771996	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	8366809	99771996	149478625	20	24133										
COL11A1	1301	broad.mit.edu	37	chr1	103463882	103463882	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttacaggaggcccatcagcaCcaggaagtccagcaagtcct	10	13	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:103463882C>G	uc001dul.2	-	25	2498	c.2180G>C	c.(2179-2181)GGT>GCT	p.G727A	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Missense_Mutation_p.G739A|COL11A1_uc001dun.2_Missense_Mutation_p.G688A|COL11A1_uc009weh.2_Missense_Mutation_p.G611A	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	727	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCCATCAGCACCAGGAAGTCC	0.294													15	24	---	---	---	---	PASS	G	103463882	G	G	103463882	3	3	62	1	0	0	0	0	1	0	0	0	3667	507	18	4	3412	4	COL11A1	1	103463882	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	3691886	103463882	145786739	21	24134										
NTNG1	22854	broad.mit.edu	37	chr1	107937858	107937858	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtgagcacaacactacaggtCcagactgtgggaaatgcaag	12	9	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:107937858C>G	uc001dvh.3	+	4	1688	c.970C>G	c.(970-972)CCA>GCA	p.P324A	NTNG1_uc001dvf.3_Missense_Mutation_p.P324A|NTNG1_uc010out.1_Missense_Mutation_p.P324A|NTNG1_uc001dvc.3_Missense_Mutation_p.P324A|NTNG1_uc001dvi.2_5'UTR|NTNG1_uc001dve.2_RNA|NTNG1_uc009wek.2_RNA|NTNG1_uc001dvg.2_RNA|NTNG1_uc009wem.2_5'UTR|NTNG1_uc001dvd.1_Missense_Mutation_p.P324A	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	324	Laminin EGF-like 1.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		CACTACAGGTCCAGACTGTGG	0.493													65	101	---	---	---	---	PASS	G	107937858	G	G	107937858	3	3	62	1	0	0	0	0	1	0	0	0	10704	855	30	2	980	2	NTNG1	1	107937858	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	4473976	107937858	141312763	22	24135										
AMPD1	270	broad.mit.edu	37	chr1	115218197	115218197	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtttgcatacatgtagtaggCatagtaagtgtaagatggat	12	3	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:115218197C>G	uc001efe.1	-	12	1717	c.1633G>C	c.(1633-1635)GCC>CCC	p.A545P	AMPD1_uc001eff.1_Missense_Mutation_p.A541P	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	545					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	ATGTAGTAGGCATAGTAAGTG	0.473													5	175	---	---	---	---	PASS	G	115218197	G	G	115218197	3	3	62	1	0	0	0	0	1	0	0	0	585	710	25	4	630	4	AMPD1	1	115218197	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	7280339	115218197	134032424	23	24136										
CD101	9398	broad.mit.edu	37	chr1	117561160	117561160	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tctgccatctctcacccactGaggatagccgtcactttacc	6	16	4	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:117561160G>A	uc010oxb.1	+	6	2053	c.1995G>A	c.(1993-1995)CTG>CTA	p.L665L	CD101_uc009whd.2_Silent_p.L665L|CD101_uc010oxc.1_Silent_p.L665L|CD101_uc010oxd.1_Silent_p.L603L	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	665	Ig-like C2-type 6.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CTCACCCACTGAGGATAGCCG	0.423													29	57	---	---	---	---	PASS	A	117561160	A	A	117561160	2	1	62	1	0	0	0	0	0	0	0	1	2962	1277	45	2		2	CD101	1	117561160	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	2342963	117561160	131689461	24	24137										
MAN1A2	10905	broad.mit.edu	37	chr1	117944986	117944986	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agccactgccaccagtccctAttcccaaccttgtaggaata	6	15	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:117944986A>G	uc001ehd.1	+	2	1202	c.481A>G	c.(481-483)ATT>GTT	p.I161V	MAN1A2_uc009whg.1_Intron	NM_006699	NP_006690	O60476	MA1A2_HUMAN	mannosidase, alpha, class 1A, member 2	161	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity				0	Lung SC(450;0.225)	all_cancers(81;7.9e-06)|all_epithelial(167;7.39e-07)|all_lung(203;2.84e-06)|Lung NSC(69;1.99e-05)		Lung(183;0.0688)|Kidney(133;0.114)|LUSC - Lung squamous cell carcinoma(189;0.223)|KIRC - Kidney renal clear cell carcinoma(1967;0.237)|Colorectal(144;0.243)		ACCAGTCCCTATTCCCAACCT	0.383													21	34	---	---	---	---	PASS	G	117944986	G	G	117944986	3	3	62	1	0	0	0	0	1	0	0	0	9211	449	16	5	487	5	MAN1A2	1	117944986	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	383826	117944986	131305635	25	24138										
PLEKHO1	51177	broad.mit.edu	37	chr1	150131509	150131509	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gaaaggccaaggacccccctCggtctccgccggattctgag	12	15	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:150131509C>T	uc001ett.2	+	6	1299	c.1021C>T	c.(1021-1023)CGG>TGG	p.R341W	PLEKHO1_uc001etr.2_Missense_Mutation_p.R169W|PLEKHO1_uc001ets.2_Missense_Mutation_p.R158W|PLEKHO1_uc001etu.2_Missense_Mutation_p.R169W	NM_016274	NP_057358	Q53GL0	PKHO1_HUMAN	pleckstrin homology domain containing, family O	341	Negative regulator of AP-1 activity.					cytoplasm|nucleus|plasma membrane				lung(1)	1	Lung NSC(24;7.78e-28)|Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGACCCCCCTCGGTCTCCGCC	0.602													26	62	---	---	---	---	PASS	T	150131509	T	T	150131509	3	4	62	1	0	0	0	0	1	0	0	0	12084	875	31	2	1043	2	PLEKHO1	1	150131509	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	32186523	150131509	99119112	26	24139										
APH1A	51107	broad.mit.edu	37	chr1	150239862	150239862	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aagacaccactgatgataccGaaggagagaccagaaactgg	11	9	0	5			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:150239862G>A	uc001ety.1	-	4	697	c.375C>T	c.(373-375)TTC>TTT	p.F125F	APH1A_uc010pbx.1_Silent_p.F55F|APH1A_uc001etz.1_Silent_p.F125F|APH1A_uc001eua.1_Silent_p.F125F|APH1A_uc010pby.1_Silent_p.F68F|APH1A_uc001eub.1_Silent_p.F9F|APH1A_uc010pbz.1_Silent_p.F9F	NM_001077628	NP_001071096	Q96BI3	APH1A_HUMAN	anterior pharynx defective 1 homolog A isoform	125	Helical; Name=4; (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to plasma membrane	protein binding			ovary(1)|lung(1)	2	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGATGATACCGAAGGAGAGAC	0.493													19	62	---	---	---	---	PASS	A	150239862	A	A	150239862	2	1	62	1	0	0	0	0	0	0	0	1	771	1049	37	2		2	APH1A	1	150239862	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	108353	150239862	99010759	27	24140										
TCHH	7062	broad.mit.edu	37	chr1	152081138	152081138	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtgcagctgctgttcctcctCgaggaattttctctctggtt	10	11	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:152081138C>G	uc001ezp.2	-	2	4555	c.4555G>C	c.(4555-4557)GAG>CAG	p.E1519Q	TCHH_uc009wne.1_Missense_Mutation_p.E1519Q	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1519	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTTCCTCCTCGAGGAATTTT	0.587													39	99	---	---	---	---	PASS	G	152081138	G	G	152081138	3	3	62	1	0	0	0	0	1	0	0	0	15697	893	31	2	1280	2	TCHH	1	152081138	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1841276	152081138	97169483	28	24141										
FLG	2312	broad.mit.edu	37	chr1	152282605	152282605	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tggatccctggcgcctgcttGtcttggaccccgctgattct	11	14	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:152282605G>T	uc001ezu.1	-	3	4793	c.4757C>A	c.(4756-4758)ACA>AAA	p.T1586K		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1586	Ser-rich.|Filaggrin 9.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCGCCTGCTTGTCTTGGACCC	0.592									Ichthyosis				90	214	---	---	---	---	PASS	T	152282605	T	T	152282605	3	4	62	1	0	0	0	0	1	0	0	0	5922	1377	48	3	7432	3	FLG	1	152282605	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	201467	152282605	96968016	29	24142										
IVL	3713	broad.mit.edu	37	chr1	152882380	152882380	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccatcaggagcaaatgaaacAgccaactccactgcctcccc	6	17	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:152882380A>T	uc001fau.2	+	2	153	c.107A>T	c.(106-108)CAG>CTG	p.Q36L		NM_005547	NP_005538	P07476	INVO_HUMAN	involucrin	36					isopeptide cross-linking via N6-(L-isoglutamyl)-L-lysine|keratinization|response to UV-B	cornified envelope|cytoplasm	protein binding, bridging|structural molecule activity			ovary(3)	3	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			CAAATGAAACAGCCAACTCCA	0.557													33	72	---	---	---	---	PASS	T	152882380	T	T	152882380	3	4	62	1	0	0	0	0	1	0	0	0	7929	188	7	5	109	5	IVL	1	152882380	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	599775	152882380	96368241	30	24143										
S100A7	6278	broad.mit.edu	37	chr1	153431478	153431478	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	attatggacctctcagcttgAgtgttgctcatctttgcttt	8	9	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:153431478A>T	uc001fbv.1	-	2	83	c.12T>A	c.(10-12)ACT>ACA	p.T4T		NM_002963	NP_002954	P31151	S10A7_HUMAN	S100 calcium binding protein A7	4					angiogenesis|defense response to Gram-negative bacterium|innate immune response|keratinocyte differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of granulocyte chemotaxis|positive regulation of monocyte chemotaxis|positive regulation of T cell chemotaxis|response to lipopolysaccharide|response to reactive oxygen species|sequestering of metal ion	cytosol|endoplasmic reticulum|extracellular region|focal adhesion|nucleus	calcium ion binding|RAGE receptor binding|zinc ion binding			skin(1)	1	all_lung(78;2.4e-33)|Lung NSC(65;8.13e-32)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			TCTCAGCTTGAGTGTTGCTCA	0.418													46	129	---	---	---	---	PASS	T	153431478	T	T	153431478	2	4	62	1	0	0	0	0	0	0	0	1	13783	291	11	5		5	S100A7	1	153431478	Silent	SNP	A	TCGA-33-6737-01A-11D-1817-08	549098	153431478	95819143	31	24144										
NUP210L	91181	broad.mit.edu	37	chr1	153994764	153994764	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgtcagccctctgttcacagCctgggccatgtaagtatagt	10	11	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:153994764C>G	uc001fdw.2	-	32	4426	c.4354G>C	c.(4354-4356)GCT>CCT	p.A1452P	NUP210L_uc009woq.2_Missense_Mutation_p.A361P|NUP210L_uc010peh.1_Missense_Mutation_p.A1452P	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	1452						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			CTGTTCACAGCCTGGGCCATG	0.453													24	106	---	---	---	---	PASS	G	153994764	G	G	153994764	3	3	62	1	0	0	0	0	1	0	0	0	10761	739	26	4	1348	4	NUP210L	1	153994764	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	563286	153994764	95255857	32	24145										
DCST2	127579	broad.mit.edu	37	chr1	155003036	155003036	+	Silent	SNP	G	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	acctgggacaggctccgagaGgcattgagatccacagagaa							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:155003036G>A	uc001fgm.2	-	6	971	c.891C>T	c.(889-891)GCC>GCT	p.A297A	DCST2_uc009wpb.2_RNA	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	297	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			GGCTCCGAGAGGCATTGAGAT	0.602													10	49	---	---	---	---	PASS	A	155003036	A	A	155003036	2	1	62	1	0	0	0	0	0	0	0	1	4303	987	35	3		3	DCST2	1	155003036	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	1008272	155003036	94247585	33	24146	522	2								
DCST2	127579	broad.mit.edu	37	chr1	155003037	155003037	+	Missense_Mutation	SNP	G	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cctgggacaggctccgagagGcattgagatccacagagaag							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:155003037G>A	uc001fgm.2	-	6	970	c.890C>T	c.(889-891)GCC>GTC	p.A297V	DCST2_uc009wpb.2_RNA	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	297	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			GCTCCGAGAGGCATTGAGATC	0.597													10	49	---	---	---	---	PASS	A	155003037	A	A	155003037	3	1	62	1	0	0	0	0	1	0	0	0	4303	1203	42	3	1471	3	DCST2	1	155003037	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1	155003037	94247584	34	24147	522	2								
ASH1L	55870	broad.mit.edu	37	chr1	155385650	155385650	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cacaggctgcaaggtactttCaggttcagaaggtttagctg	12	8	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:155385650C>G	uc009wqq.2	-	6	6373	c.5893G>C	c.(5893-5895)GAA>CAA	p.E1965Q	ASH1L_uc001fkt.2_Missense_Mutation_p.E1965Q	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1965					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			AAGGTACTTTCAGGTTCAGAA	0.433													28	120	---	---	---	---	PASS	G	155385650	G	G	155385650	3	3	62	1	0	0	0	0	1	0	0	0	1041	835	29	2	3093	2	ASH1L	1	155385650	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	382613	155385650	93864971	35	24148										
YY1AP1	55249	broad.mit.edu	37	chr1	155657867	155657867	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aatcgttctactcaccgtgtCggaggccgagagcgatgaga	13	10	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:155657867C>T	uc001fln.2	-	2	197	c.173G>A	c.(172-174)CGA>CAA	p.R58Q	YY1AP1_uc010pgi.1_Missense_Mutation_p.R130Q|YY1AP1_uc001flh.2_Missense_Mutation_p.R130Q|YY1AP1_uc009wqt.2_5'UTR|YY1AP1_uc001flk.2_5'UTR|YY1AP1_uc001fll.2_Intron|YY1AP1_uc009wqv.2_5'UTR|YY1AP1_uc001flm.2_5'UTR|YY1AP1_uc001fli.2_5'UTR|YY1AP1_uc009wqu.2_5'UTR|YY1AP1_uc001flj.2_5'UTR|YY1AP1_uc009wqw.2_5'UTR|YY1AP1_uc001flo.2_Intron|YY1AP1_uc001flp.2_Intron|YY1AP1_uc010pgj.1_Missense_Mutation_p.R58Q|YY1AP1_uc009wqx.2_Missense_Mutation_p.R130Q|YY1AP1_uc010pgk.1_Missense_Mutation_p.R130Q|DAP3_uc001flq.2_5'Flank|DAP3_uc001flr.2_5'Flank|DAP3_uc001fls.2_5'Flank|DAP3_uc010pgl.1_5'Flank|DAP3_uc001flt.2_5'Flank|DAP3_uc001flu.2_5'Flank|DAP3_uc010pgm.1_5'Flank	NM_139118	NP_620829	Q9H869	YYAP1_HUMAN	YY1-associated protein isoform 2	58					regulation of cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					CTCACCGTGTCGGAGGCCGAG	0.627													29	47	---	---	---	---	PASS	T	155657867	T	T	155657867	3	4	62	1	0	0	0	0	1	0	0	0	17505	884	31	2	2317	2	YY1AP1	1	155657867	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	272217	155657867	93592754	36	24149										
RHBG	57127	broad.mit.edu	37	chr1	156347189	156347189	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agcgtgggcttcaccttcctCctggccgcctttgccctgca	10	17	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:156347189C>T	uc010pho.1	+	2	323	c.285C>T	c.(283-285)CTC>CTT	p.L95L	RHBG_uc010phm.1_Intron|RHBG_uc010phn.1_RNA|RHBG_uc001fos.2_Silent_p.L26L|RHBG_uc009wrz.2_Silent_p.L26L|RHBG_uc001for.2_Silent_p.L65L	NM_020407	NP_065140	Q9H310	RHBG_HUMAN	Rhesus blood group, B glycoprotein	95	Helical; (Potential).				transepithelial ammonium transport	anchored to plasma membrane|basolateral plasma membrane|cytoplasmic vesicle membrane|integral to plasma membrane|spectrin-associated cytoskeleton	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			ovary(2)	2	Hepatocellular(266;0.158)					TCACCTTCCTCCTGGCCGCCT	0.622													46	84	---	---	---	---	PASS	T	156347189	T	T	156347189	2	4	62	1	0	0	0	0	0	0	0	1	13324	842	30	2		2	RHBG	1	156347189	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	689322	156347189	92903432	37	24150										
TTC24	164118	broad.mit.edu	37	chr1	156552193	156552193	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcggcaactatcaggaagctCgggagtttcaccagaaggct	12	10	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:156552193C>T	uc009wsc.1	+	1	177	c.37C>T	c.(37-39)CGG>TGG	p.R13W		NM_001105669	NP_001099139	A2A3L6	TTC24_HUMAN	tetratricopeptide repeat domain 24	293	TPR 6.						binding			pancreas(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCAGGAAGCTCGGGAGTTTCA	0.622													18	17	---	---	---	---	PASS	T	156552193	T	T	156552193	3	4	62	1	0	0	0	0	1	0	0	0	16689	875	31	2	883	2	TTC24	1	156552193	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	205004	156552193	92698428	38	24151										
FCER1A	2205	broad.mit.edu	37	chr1	159273818	159273818	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gggaacaatttctttgaagtCagttccaccaaatggttcca	8	9	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:159273818C>T	uc001ftq.2	+	4	276	c.177C>T	c.(175-177)GTC>GTT	p.V59V		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	59	Extracellular (Potential).|Ig-like 1.					integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	TCTTTGAAGTCAGTTCCACCA	0.378													13	70	---	---	---	---	PASS	T	159273818	T	T	159273818	2	4	62	1	0	0	0	0	0	0	0	1	5774	813	29	2		2	FCER1A	1	159273818	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	2721625	159273818	89976803	39	24152										
ADCY10	55811	broad.mit.edu	37	chr1	167844384	167844384	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cctacccagcaaagggtaatCctcctttctgttgcagatga	8	12	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:167844384C>T	uc001ger.2	-	13	1745	c.1447G>A	c.(1447-1449)GAT>AAT	p.D483N	ADCY10_uc009wvk.2_Missense_Mutation_p.D391N|ADCY10_uc010plj.1_Missense_Mutation_p.D330N|ADCY10_uc009wvl.2_Missense_Mutation_p.D482N	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	483					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						AAAGGGTAATCCTCCTTTCTG	0.299													14	66	---	---	---	---	PASS	T	167844384	T	T	167844384	3	4	62	1	0	0	0	0	1	0	0	0	293	855	30	2	3469	2	ADCY10	1	167844384	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	8570566	167844384	81406237	40	24153										
F5	2153	broad.mit.edu	37	chr1	169505854	169505854	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agtgctgtcgaggtactttcGaaaaactactttcttatatg	8	7	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:169505854G>C	uc001ggg.1	-	14	5006	c.4861C>G	c.(4861-4863)CGA>GGA	p.R1621G		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1621	F5/8 type A 3.|Plastocyanin-like 5.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	AGGTACTTTCGAAAAACTACT	0.368													12	72	---	---	---	---	PASS	C	169505854	C	C	169505854	3	2	62	1	0	0	0	0	1	0	0	0	5348	1066	37	2	1861	2	F5	1	169505854	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1661470	169505854	79744767	41	24154										
SELE	6401	broad.mit.edu	37	chr1	169699685	169699685	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atagagcaggaagaattgtaGctgaagtttcccagtgggtg	14	5	0	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:169699685G>T	uc001ggm.3	-	5	760	c.603C>A	c.(601-603)AGC>AGA	p.S201R	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	201	Sushi 1.|Extracellular (Potential).				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					AAGAATTGTAGCTGAAGTTTC	0.493													31	57	---	---	---	---	PASS	T	169699685	T	T	169699685	3	4	62	1	0	0	0	0	1	0	0	0	14013	962	34	3	1265	3	SELE	1	169699685	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	193831	169699685	79550936	42	24155										
TNR	7143	broad.mit.edu	37	chr1	175293559	175293559	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggcagttcttataccaccatGctcccttgtacgacatggca	8	13	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:175293559G>T	uc001gkp.1	-	20	3971	c.3890C>A	c.(3889-3891)GCA>GAA	p.A1297E	TNR_uc009wwu.1_Missense_Mutation_p.A1297E	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1297	Fibrinogen C-terminal.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ATACCACCATGCTCCCTTGTA	0.532													26	77	---	---	---	---	PASS	T	175293559	T	T	175293559	3	4	62	1	0	0	0	0	1	0	0	0	16335	1319	46	3	194	3	TNR	1	175293559	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	5593874	175293559	73957062	43	24156										
LAMC2	3918	broad.mit.edu	37	chr1	183192282	183192282	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tttcacagccaaatttcttgGgaatcaacaggtgagctatg	9	8	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:183192282G>T	uc001gqa.2	+	7	1090	c.776G>T	c.(775-777)GGG>GTG	p.G259V	LAMC2_uc001gpz.3_Missense_Mutation_p.G259V|LAMC2_uc010poa.1_Intron	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	259	Laminin IV type A.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						AAATTTCTTGGGAATCAACAG	0.463													17	43	---	---	---	---	PASS	T	183192282	T	T	183192282	3	4	62	1	0	0	0	0	1	0	0	0	8615	1232	43	3	802	3	LAMC2	1	183192282	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	7898723	183192282	66058339	44	24157										
PTPRC	5788	broad.mit.edu	37	chr1	198687416	198687416	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaagatcttcaatattcaacAgactacacttttaaggtaaa	4	7	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:198687416A>G	uc001gur.1	+	14	1818	c.1638A>G	c.(1636-1638)ACA>ACG	p.T546T	PTPRC_uc001gus.1_Silent_p.T498T|PTPRC_uc001gut.1_Silent_p.T385T|PTPRC_uc009wzf.1_Silent_p.T434T|PTPRC_uc010ppg.1_Silent_p.T482T	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	546	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						AATATTCAACAGACTACACTT	0.323													10	17	---	---	---	---	PASS	G	198687416	G	G	198687416	2	3	62	1	0	0	0	0	0	0	0	1	12797	175	7	5		5	PTPRC	1	198687416	Silent	SNP	A	TCGA-33-6737-01A-11D-1817-08	15495134	198687416	50563205	45	24158										
CACNA1S	779	broad.mit.edu	37	chr1	201027567	201027567	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgaggatgacatcaatgatgCtgccaatgacaatcaggaag	11	7	2	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:201027567C>T	uc001gvv.2	-	28	3805	c.3578G>A	c.(3577-3579)AGC>AAC	p.S1193N		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1193	IV.|Helical; Name=S3 of repeat IV; (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	ATCAATGATGCTGCCAATGAC	0.483													21	56	---	---	---	---	PASS	T	201027567	T	T	201027567	3	4	62	1	0	0	0	0	1	0	0	0	2547	797	28	3	2111	3	CACNA1S	1	201027567	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2340151	201027567	48223054	46	24159										
PPP2R5A	5525	broad.mit.edu	37	chr1	212515550	212515550	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttggtatatgaattcttcttGagatttttggagagccctga	10	5	2	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:212515550G>C	uc001hjb.2	+	4	1075	c.501G>C	c.(499-501)TTG>TTC	p.L167F	PPP2R5A_uc010ptd.1_Missense_Mutation_p.L108F	NM_006243	NP_006234	Q15172	2A5A_HUMAN	protein phosphatase 2, regulatory subunit B	167					negative regulation of establishment of protein localization in plasma membrane|negative regulation of lipid kinase activity|positive regulation of protein dephosphorylation|signal transduction	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex	kinase binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0125)|all cancers(67;0.029)|Epithelial(68;0.154)|GBM - Glioblastoma multiforme(131;0.155)		AATTCTTCTTGAGATTTTTGG	0.343													40	85	---	---	---	---	PASS	C	212515550	C	C	212515550	3	2	62	1	0	0	0	0	1	0	0	0	12392	1281	45	2	515	2	PPP2R5A	1	212515550	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	11487983	212515550	36735071	47	24160										
USH2A	7399	broad.mit.edu	37	chr1	215821941	215821941	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtccttgaggccagcgtcccGatttgtggagaggacagtcc	14	11	0	2	rs139847770	byFrequency	TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:215821941G>A	uc001hku.1	-	66	14898	c.14511C>T	c.(14509-14511)ATC>ATT	p.I4837I		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4837	Extracellular (Potential).|Fibronectin type-III 34.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CCAGCGTCCCGATTTGTGGAG	0.572										HNSCC(13;0.011)			33	55	---	---	---	---	PASS	A	215821941	A	A	215821941	2	1	62	1	0	0	0	0	0	0	0	1	17033	1048	37	2		2	USH2A	1	215821941	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	3306391	215821941	33428680	48	24161										
USH2A	7399	broad.mit.edu	37	chr1	215916599	215916599	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gggtggattgatgatgaccaAcggagaaggccagaggtgtt	17	5	0	5			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:215916599A>G	uc001hku.1	-	59	11855	c.11468T>C	c.(11467-11469)GTT>GCT	p.V3823A		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3823	Fibronectin type-III 23.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATGATGACCAACGGAGAAGGC	0.428										HNSCC(13;0.011)			29	107	---	---	---	---	PASS	G	215916599	G	G	215916599	3	3	62	1	0	0	0	0	1	0	0	0	17033	43	2	5	4196	5	USH2A	1	215916599	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	94658	215916599	33334022	49	24162										
USH2A	7399	broad.mit.edu	37	chr1	216420520	216420520	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gctcacatccaacatcattaAagcttcggagaaatttaaat	5	9	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:216420520A>C	uc001hku.1	-	13	2603	c.2216T>G	c.(2215-2217)TTT>TGT	p.F739C	USH2A_uc001hkv.2_Missense_Mutation_p.F739C	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	739	Laminin EGF-like 4.|Extracellular (Potential).		F -> L (in RP39; uncertain pathogenicity).		maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AACATCATTAAAGCTTCGGAG	0.393										HNSCC(13;0.011)			3	158	---	---	---	---	PASS	C	216420520	C	C	216420520	3	2	62	1	0	0	0	0	1	0	0	0	17033	14	1	5	13646	5	USH2A	1	216420520	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	503921	216420520	32830101	50	24163										
RRP15	51018	broad.mit.edu	37	chr1	218480911	218480911	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaagatttcatcagtgttttGagagggatggatggaagtac	13	3	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:218480911G>T	uc001hlj.2	+	4	672	c.642G>T	c.(640-642)TTG>TTT	p.L214F		NM_016052	NP_057136	Q9Y3B9	RRP15_HUMAN	ribosomal RNA processing 15 homolog	214						mitochondrion|nucleolus	protein binding				0				all cancers(67;0.0315)|OV - Ovarian serous cystadenocarcinoma(81;0.0411)|GBM - Glioblastoma multiforme(131;0.06)|Epithelial(68;0.248)		TCAGTGTTTTGAGAGGGATGG	0.368													7	38	---	---	---	---	PASS	T	218480911	T	T	218480911	3	4	62	1	0	0	0	0	1	0	0	0	13687	1281	45	2	656	2	RRP15	1	218480911	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2060391	218480911	30769710	51	24164										
SLC30A10	55532	broad.mit.edu	37	chr1	220091807	220091807	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gaccacaaccacggaccccaGggcatctcccatcacatgca	7	18	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:220091807G>A	uc001hlw.2	-	3	959	c.748C>T	c.(748-750)CTG>TTG	p.L250L	SLC30A10_uc001hlu.1_RNA|SLC30A10_uc001hlv.2_Silent_p.L5L|SLC30A10_uc001hlx.2_Silent_p.L25L	NM_018713	NP_061183	Q6XR72	ZNT10_HUMAN	solute carrier family 30 (zinc transporter),	250	Helical; (Potential).				zinc ion transport	integral to membrane|plasma membrane	cation transmembrane transporter activity				0				GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.209)		ACGGACCCCAGGGCATCTCCC	0.527													19	84	---	---	---	---	PASS	A	220091807	A	A	220091807	2	1	62	1	0	0	0	0	0	0	0	1	14554	991	35	3		3	SLC30A10	1	220091807	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	1610896	220091807	29158814	52	24165										
SIPA1L2	57568	broad.mit.edu	37	chr1	232650395	232650395	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtcacagcggaaaaattcagGgaacccaaaagggaccattg	11	9	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:232650395G>T	uc001hvg.2	-	1	849	c.691C>A	c.(691-693)CCT>ACT	p.P231T		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	231					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				AAAAATTCAGGGAACCCAAAA	0.458													48	95	---	---	---	---	PASS	T	232650395	T	T	232650395	3	4	62	1	0	0	0	0	1	0	0	0	14330	1232	43	3	4561	3	SIPA1L2	1	232650395	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	12558588	232650395	16600226	53	24166										
CHRM3	1131	broad.mit.edu	37	chr1	240072470	240072470	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aagaggcgcaagcagcagtaCcagcagagacagtcggtcat	13	10	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:240072470C>G	uc001hyp.2	+	5	2498	c.1719C>G	c.(1717-1719)TAC>TAG	p.Y573*		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	573	Cytoplasmic (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	AGCAGCAGTACCAGCAGAGAC	0.493													17	61	---	---	---	---	PASS	G	240072470	G	G	240072470	4	3	62	1	0	0	0	0	0	1	0	0	3378	518	18	4	1721	4	CHRM3	1	240072470	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	7422075	240072470	9178151	54	24167										
OR2W5	441932	broad.mit.edu	37	chr1	247655152	247655152	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaagaaagccttccacacctGctcttctcacctcacagtgg	6	15	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:247655152G>C	uc001icz.1	+	1	723	c.723G>C	c.(721-723)CTG>CTC	p.L241L		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	241					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TTCCACACCTGCTCTTCTCAC	0.562													44	77	---	---	---	---	PASS	C	247655152	C	C	247655152	2	2	62	1	0	0	0	0	0	0	0	1	11034	1306	46	4		4	OR2W5	1	247655152	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	7582682	247655152	1595469	55	24168										
OR2G3	81469	broad.mit.edu	37	chr1	247769620	247769620	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcagcacctgctcctcccacCttacagtggtgattatattc	6	14	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:247769620C>A	uc010pyz.1	+	1	733	c.733C>A	c.(733-735)CTT>ATT	p.L245I		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			CTCCTCCCACCTTACAGTGGT	0.478													33	34	---	---	---	---	PASS	A	247769620	A	A	247769620	3	1	62	1	0	0	0	0	1	0	0	0	10999	681	24	3	735	3	OR2G3	1	247769620	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	114468	247769620	1481001	56	24169										
OR14A16	284532	broad.mit.edu	37	chr1	247978591	247978591	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcaatcagacccccatacagCcaagacacagtggctctttg	8	14	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:247978591C>A	uc001idm.1	-	1	441	c.441G>T	c.(439-441)TGG>TGT	p.W147C		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	147	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCCCATACAGCCAAGACACAG	0.512													39	87	---	---	---	---	PASS	A	247978591	A	A	247978591	3	1	62	1	0	0	0	0	1	0	0	0	10945	740	26	3	492	3	OR14A16	1	247978591	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	208971	247978591	1272030	57	24170										
OR2T6	254879	broad.mit.edu	37	chr1	248551196	248551196	+	Missense_Mutation	SNP	C	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggggaccatctctttcatcgCctgcactgctcagtgctttc							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:248551196C>A	uc001iei.1	+	1	287	c.287C>A	c.(286-288)GCC>GAC	p.A96D		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCTTTCATCGCCTGCACTGCT	0.532													41	82	---	---	---	---	PASS	A	248551196	A	A	248551196	3	1	62	1	0	0	0	0	1	0	0	0	11029	739	26	3	289	3	OR2T6	1	248551196	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	572605	248551196	699425	58	24171	523	2								
OR2T6	254879	broad.mit.edu	37	chr1	248551197	248551197	+	Silent	SNP	C	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gggaccatctctttcatcgcCtgcactgctcagtgctttct							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr1:248551197C>A	uc001iei.1	+	1	288	c.288C>A	c.(286-288)GCC>GCA	p.A96A		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTTTCATCGCCTGCACTGCTC	0.532													41	83	---	---	---	---	PASS	A	248551197	A	A	248551197	2	1	62	1	0	0	0	0	0	0	0	1	11029	668	24	3		3	OR2T6	1	248551197	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	1	248551197	699424	59	24172	523	2								
RSAD2	91543	broad.mit.edu	37	chr2	7018277	7018277	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgcttttgcttaaggaagctGgtgagtacatggtcctagac	12	7	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:7018277G>A	uc002qyp.1	+	1	482	c.346G>A	c.(346-348)GGT>AGT	p.G116S		NM_080657	NP_542388	Q8WXG1	RSAD2_HUMAN	radical S-adenosyl methionine domain containing	116					defense response to virus	endoplasmic reticulum membrane|Golgi apparatus	catalytic activity|iron-sulfur cluster binding|metal ion binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			OV - Ovarian serous cystadenocarcinoma(76;0.191)		TAAGGAAGCTGGTGAGTACAT	0.512													4	32	---	---	---	---	PASS	A	7018277	A	A	7018277	3	1	62	1	0	0	0	0	1	0	0	0	13695	1362	47	3	348	3	RSAD2	2	7018277	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08		7018277	236181096	60	24173										
NTSR2	23620	broad.mit.edu	37	chr2	11798693	11798693	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcgggggtaaccgcttcatgGggtggtgctctccacacagg	15	11	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:11798693G>T	uc002rbq.3	-	4	1219	c.1145C>A	c.(1144-1146)CCC>CAC	p.P382H		NM_012344	NP_036476	O95665	NTR2_HUMAN	neurotensin receptor 2	382	Cytoplasmic (Potential).				sensory perception	integral to plasma membrane					0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.129)|OV - Ovarian serous cystadenocarcinoma(76;0.24)	Levocabastine(DB01106)	CCGCTTCATGGGGTGGTGCTC	0.567													11	86	---	---	---	---	PASS	T	11798693	T	T	11798693	3	4	62	1	0	0	0	0	1	0	0	0	10711	1232	43	3	91	3	NTSR2	2	11798693	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	4780416	11798693	231400680	61	24174										
MSGN1	343930	broad.mit.edu	37	chr2	17998202	17998202	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gagaagctcaggatgaggacCttggcagatgccctgcacac	13	11	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:17998202C>A	uc010yjt.1	+	1	417	c.417C>A	c.(415-417)ACC>ACA	p.T139T		NM_001105569	NP_001099039	A6NI15	MSGN1_HUMAN	mesogenin 1	139	Helix-loop-helix motif.				cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GGATGAGGACCTTGGCAGATG	0.602													10	44	---	---	---	---	PASS	A	17998202	A	A	17998202	2	1	62	1	0	0	0	0	0	0	0	1	9869	668	24	3		3	MSGN1	2	17998202	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	6199509	17998202	225201171	62	24175										
APOB	338	broad.mit.edu	37	chr2	21250815	21250815	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcccttctattttggctgagGctgggtcaagtgatggaaga	13	7	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:21250815G>A	uc002red.2	-	14	2080	c.1952C>T	c.(1951-1953)GCC>GTC	p.A651V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	651	Vitellogenin.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTTGGCTGAGGCTGGGTCAAG	0.398													24	127	---	---	---	---	PASS	A	21250815	A	A	21250815	3	1	62	1	0	0	0	0	1	0	0	0	785	1203	42	3	11803	3	APOB	2	21250815	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3252613	21250815	221948558	63	24176										
DNMT3A	1788	broad.mit.edu	37	chr2	25463181	25463181	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctggctatacctcgagaaatCgcgagatgtccctcttgtca	9	12	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:25463181C>T	uc002rgc.2	-	19	2569	c.2312G>A	c.(2311-2313)CGA>CAA	p.R771Q	DNMT3A_uc002rgd.2_Missense_Mutation_p.R771Q|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Missense_Mutation_p.R582Q	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	771					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding	p.R771L(1)		haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTCGAGAAATCGCGAGATGTC	0.542			Mis|F|N|S		AML								7	133	---	---	---	---	PASS	T	25463181	T	T	25463181	3	4	62	1	0	0	0	0	1	0	0	0	4676	884	31	2	446	2	DNMT3A	2	25463181	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	4212366	25463181	217736192	64	24177										
ASXL2	55252	broad.mit.edu	37	chr2	25965964	25965964	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	actgtgagggcggcacaactGagagaagattctgcctccga	13	10	1	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:25965964G>A	uc002rgs.2	-	12	3463	c.3242C>T	c.(3241-3243)TCA>TTA	p.S1081L	ASXL2_uc002rgt.1_Intron	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1081					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGGCACAACTGAGAGAAGATT	0.502													24	109	---	---	---	---	PASS	A	25965964	A	A	25965964	3	1	62	1	0	0	0	0	1	0	0	0	1067	1294	45	2	1069	2	ASXL2	2	25965964	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	502783	25965964	217233409	65	24178										
GPR113	165082	broad.mit.edu	37	chr2	26534385	26534385	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtggggctggcactggccacCtgtgcctggcacccttcttt	13	14	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:26534385C>T	uc002rhe.3	-	11	2211	c.2211G>A	c.(2209-2211)CAG>CAA	p.Q737Q	GPR113_uc010yky.1_Silent_p.Q668Q|GPR113_uc002rhb.1_Silent_p.Q340Q|GPR113_uc010eyk.1_Silent_p.Q538Q|GPR113_uc002rhc.1_Silent_p.Q340Q|GPR113_uc002rhd.1_RNA	NM_001145168	NP_001138640	Q8IZF5	GP113_HUMAN	G-protein coupled receptor 113 isoform 1	737	GPS.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CACTGGCCACCTGTGCCTGGC	0.607													20	109	---	---	---	---	PASS	T	26534385	T	T	26534385	2	4	62	1	0	0	0	0	0	0	0	1	6630	680	24	3		3	GPR113	2	26534385	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	568421	26534385	216664988	66	24179										
OTOF	9381	broad.mit.edu	37	chr2	26706386	26706386	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cacgaggtccttgttttcacCgatgaaagccttctttacat	7	11	2	1	rs146086924		TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:26706386C>T	uc002rhk.2	-	13	1463	c.1336G>A	c.(1336-1338)GGT>AGT	p.G446S		NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	446	Cytoplasmic (Potential).|C2 2.				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTGTTTTCACCGATGAAAGCC	0.552													13	61	---	---	---	---	PASS	T	26706386	T	T	26706386	3	4	62	1	0	0	0	0	1	0	0	0	11303	652	23	1	5122	1	OTOF	2	26706386	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	172001	26706386	216492987	67	24180										
PLB1	151056	broad.mit.edu	37	chr2	28754978	28754978	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gttgcccttttattcagcaaCttgactttcaatttgactgg	7	9	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:28754978C>A	uc002rmb.1	+	9	472	c.472C>A	c.(472-474)CTT>ATT	p.L158I	PLB1_uc010ezj.1_Missense_Mutation_p.L158I	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	158	4 X 308-326 AA approximate repeats.|Extracellular (Potential).|1.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					TATTCAGCAACTTGACTTTCA	0.408													31	236	---	---	---	---	PASS	A	28754978	A	A	28754978	3	1	62	1	0	0	0	0	1	0	0	0	12024	565	20	3	506	3	PLB1	2	28754978	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2048592	28754978	214444395	68	24181										
LTBP1	4052	broad.mit.edu	37	chr2	33623585	33623585	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccgttgaataccgccttgaaTttagagaaagacagtgacct	9	9	0	5			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:33623585T>C	uc002ros.2	+	34	5142	c.5142T>C	c.(5140-5142)AAT>AAC	p.N1714N	LTBP1_uc002rot.2_Silent_p.N1388N|LTBP1_uc002rou.2_Silent_p.N1387N|LTBP1_uc002rov.2_Silent_p.N1334N|LTBP1_uc010ymz.1_Silent_p.N1345N|LTBP1_uc010yna.1_Silent_p.N1292N|LTBP1_uc010ynb.1_Silent_p.N611N	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1713					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CCGCCTTGAATTTAGAGAAAG	0.433													35	66	---	---	---	---	PASS	C	33623585	C	C	33623585	2	2	62	1	0	0	0	0	0	0	0	1	9073	1490	52	5		5	LTBP1	2	33623585	Silent	SNP	T	TCGA-33-6737-01A-11D-1817-08	4868607	33623585	209575788	69	24182										
NRXN1	9378	broad.mit.edu	37	chr2	50723113	50723113	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtgtcaatctttacagtgtgGaggttgctggtgtcccttga	13	7	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:50723113G>T	uc010fbq.2	-	15	4597	c.3120C>A	c.(3118-3120)CTC>CTA	p.L1040L	NRXN1_uc002rxb.3_Silent_p.L672L|NRXN1_uc002rxe.3_Silent_p.L1000L|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TTACAGTGTGGAGGTTGCTGG	0.448													4	45	---	---	---	---	PASS	T	50723113	T	T	50723113	2	4	62	1	0	0	0	0	0	0	0	1	10665	1161	41	2		2	NRXN1	2	50723113	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	17099528	50723113	192476260	70	24183										
ERLEC1	27248	broad.mit.edu	37	chr2	54014354	54014354	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agcggcggcggaggatggagGaaggaggcggcggcgtacgg	24	7	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:54014354G>A	uc002rxl.2	+	1	287	c.7G>A	c.(7-9)GAA>AAA	p.E3K	ASB3_uc002rxg.1_5'Flank|ASB3_uc002rxh.1_5'Flank|ASB3_uc002rxi.3_Intron|ASB3_uc010yoo.1_5'Flank|ERLEC1_uc002rxm.2_Missense_Mutation_p.E3K|ERLEC1_uc002rxn.2_Missense_Mutation_p.E3K	NM_015701	NP_056516	Q96DZ1	ERLEC_HUMAN	erlectin isoform 1	3					ER-associated protein catabolic process	endoplasmic reticulum lumen	glycoprotein binding|protein binding			ovary(2)	2						GAGGATGGAGGAAGGAGGCGG	0.592													4	26	---	---	---	---	PASS	A	54014354	A	A	54014354	3	1	62	1	0	0	0	0	1	0	0	0	5231	1175	41	2	9	2	ERLEC1	2	54014354	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3291241	54014354	189185019	71	24184										
C2orf86	51057	broad.mit.edu	37	chr2	63631244	63631244	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctgaggaagaggagatcataGatatcactaccttcaccctt	8	10	3	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:63631244G>C	uc002sch.2	-	10	1820	c.1374C>G	c.(1372-1374)ATC>ATG	p.I458M	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Missense_Mutation_p.I299M|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Missense_Mutation_p.I266M|C2orf86_uc002sci.1_Missense_Mutation_p.I434M|C2orf86_uc010fcr.1_Missense_Mutation_p.I348M	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	458					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						GGAGATCATAGATATCACTAC	0.393													32	134	---	---	---	---	PASS	C	63631244	C	C	63631244	3	2	62	1	0	0	0	0	1	0	0	0	2201	932	33	2	902	2	C2orf86	2	63631244	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	9616890	63631244	179568129	72	24185										
UGP2	7360	broad.mit.edu	37	chr2	64112851	64112851	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cagtttctacaactctggatTgcttgatacctttataggag	8	8	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:64112851T>A	uc002scm.2	+	6	1010	c.704T>A	c.(703-705)TTG>TAG	p.L235*	UGP2_uc002scl.2_Nonsense_Mutation_p.L224*|UGP2_uc010ypx.1_Nonsense_Mutation_p.L244*	NM_006759	NP_006750	Q16851	UGPA_HUMAN	UDP-glucose pyrophosphorylase 2 isoform a	235					glycogen biosynthetic process|phosphorylation|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	metal ion binding|protein binding|UTP:glucose-1-phosphate uridylyltransferase activity				0						AACTCTGGATTGCTTGATACC	0.403													49	176	---	---	---	---	PASS	A	64112851	A	A	64112851	4	1	62	1	0	0	0	0	0	1	0	0	16940	1821	63	5	726	5	UGP2	2	64112851	Nonsense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	481607	64112851	179086522	73	24186										
PCYOX1	51449	broad.mit.edu	37	chr2	70486688	70486688	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctgcacatgaaacgttttgtCaaagacctgggtatgtaatt	9	7	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:70486688C>G	uc002sgn.3	+	2	375	c.309C>G	c.(307-309)GTC>GTG	p.V103V	PCYOX1_uc010fdo.2_Silent_p.V26V|PCYOX1_uc010yqu.1_Intron	NM_016297	NP_057381	Q9UHG3	PCYOX_HUMAN	prenylcysteine oxidase 1 precursor	103					prenylated protein catabolic process	lysosome|very-low-density lipoprotein particle	prenylcysteine oxidase activity			central_nervous_system(1)	1						AACGTTTTGTCAAAGACCTGG	0.473													48	177	---	---	---	---	PASS	G	70486688	G	G	70486688	2	3	62	1	0	0	0	0	0	0	0	1	11608	813	29	2		2	PCYOX1	2	70486688	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	6373837	70486688	172712685	74	24187										
DYSF	8291	broad.mit.edu	37	chr2	71780187	71780187	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cctgtttgcggccttctactCagccaccatgctgcaggatg	10	14	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:71780187C>G	uc002sie.2	+	20	2175	c.1799C>G	c.(1798-1800)TCA>TGA	p.S600*	DYSF_uc010feg.2_Nonsense_Mutation_p.S631*|DYSF_uc010feh.2_Nonsense_Mutation_p.S586*|DYSF_uc002sig.3_Nonsense_Mutation_p.S586*|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Nonsense_Mutation_p.S600*|DYSF_uc010fef.2_Nonsense_Mutation_p.S617*|DYSF_uc010fei.2_Nonsense_Mutation_p.S617*|DYSF_uc010fek.2_Nonsense_Mutation_p.S618*|DYSF_uc010fej.2_Nonsense_Mutation_p.S587*|DYSF_uc010fel.2_Nonsense_Mutation_p.S587*|DYSF_uc010feo.2_Nonsense_Mutation_p.S632*|DYSF_uc010fem.2_Nonsense_Mutation_p.S601*|DYSF_uc010fen.2_Nonsense_Mutation_p.S618*|DYSF_uc002sif.2_Nonsense_Mutation_p.S601*	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	600	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GCCTTCTACTCAGCCACCATG	0.567													20	48	---	---	---	---	PASS	G	71780187	G	G	71780187	4	3	62	1	0	0	0	0	0	1	0	0	4859	838	29	2	2069	2	DYSF	2	71780187	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1293499	71780187	171419186	75	24188										
GCC2	9648	broad.mit.edu	37	chr2	109109244	109109244	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	taagaatgaaccgaccacaaGaagtatgtatgtacacatgg	9	7	0	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:109109244G>T	uc002tec.2	+	19	4599	c.4445G>T	c.(4444-4446)AGA>ATA	p.R1482I	GCC2_uc002ted.2_Missense_Mutation_p.R1381I	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	1482	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						CCGACCACAAGAAGTATGTAT	0.368													16	35	---	---	---	---	PASS	T	109109244	T	T	109109244	3	4	62	1	0	0	0	0	1	0	0	0	6286	942	33	2	4519	2	GCC2	2	109109244	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	37329057	109109244	134090129	76	24189										
POTEF	728378	broad.mit.edu	37	chr2	130872872	130872872	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gttttactacttctgaattcCcattggcagaggccagatgt	9	9	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:130872872C>T	uc010fmh.2	-	4	951	c.551G>A	c.(550-552)GGG>GAG	p.G184E		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	184	ANK 1.					cell cortex	ATP binding			skin(3)|ovary(2)	5						TTCTGAATTCCCATTGGCAGA	0.423													23	149	---	---	---	---	PASS	T	130872872	T	T	130872872	3	4	62	1	0	0	0	0	1	0	0	0	12265	623	22	3	2732	3	POTEF	2	130872872	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	21763628	130872872	112326501	77	24190										
FAM123C	205147	broad.mit.edu	37	chr2	131520908	131520908	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gacagctacagtggggacgcCctctacgagctcttccacga	11	14	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:131520908C>G	uc002trw.2	+	2	1453	c.1263C>G	c.(1261-1263)GCC>GCG	p.A421A	FAM123C_uc010fmv.2_Silent_p.A421A|FAM123C_uc010fms.1_Silent_p.A421A|FAM123C_uc010fmt.1_Silent_p.A421A|FAM123C_uc010fmu.1_Silent_p.A421A	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	421										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GTGGGGACGCCCTCTACGAGC	0.632													15	62	---	---	---	---	PASS	G	131520908	G	G	131520908	2	3	62	1	0	0	0	0	0	0	0	1	5424	610	22	4		4	FAM123C	2	131520908	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	648036	131520908	111678465	78	24191										
LCT	3938	broad.mit.edu	37	chr2	136548373	136548373	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tttaaccagttcaggatcctCctgaagccaaaaggcgtcat	8	11	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:136548373C>G	uc002tuu.1	-	15	5201	c.5190G>C	c.(5188-5190)AGG>AGC	p.R1730S		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1730	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TCAGGATCCTCCTGAAGCCAA	0.483													19	83	---	---	---	---	PASS	G	136548373	G	G	136548373	3	3	62	1	0	0	0	0	1	0	0	0	8693	854	30	2	605	2	LCT	2	136548373	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	5027465	136548373	106651000	79	24192										
LRP1B	53353	broad.mit.edu	37	chr2	141598560	141598560	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgaggttttcaaagagccatCtagccttgccacattaattt	7	9	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:141598560C>T	uc002tvj.1	-	30	6013	c.5041G>A	c.(5041-5043)GAT>AAT	p.D1681N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1681	Extracellular (Potential).|LDL-receptor class B 15.				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)		AAAGAGCCATCTAGCCTTGCC	0.398										TSP Lung(27;0.18)			6	78	---	---	---	---	PASS	T	141598560	T	T	141598560	3	4	62	1	0	0	0	0	1	0	0	0	8955	913	32	2	9006	2	LRP1B	2	141598560	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	5050187	141598560	101600813	80	24193										
PKP4	8502	broad.mit.edu	37	chr2	159522953	159522953	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atatatccgggcggccgtccGaaaagaaaaggggctcccca	12	12	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:159522953G>A	uc002tzv.2	+	16	2866	c.2606G>A	c.(2605-2607)CGA>CAA	p.R869Q	PKP4_uc002tzu.2_Missense_Mutation_p.R869Q|PKP4_uc002tzw.2_Missense_Mutation_p.R869Q|PKP4_uc002tzx.2_Missense_Mutation_p.R526Q|PKP4_uc002uaa.2_Missense_Mutation_p.R721Q|uc002uab.1_Intron|PKP4_uc002uac.2_Missense_Mutation_p.R50Q|PKP4_uc002uad.2_RNA|PKP4_uc002uae.1_5'Flank	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	869	ARM 8.				cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						GCGGCCGTCCGAAAAGAAAAG	0.443										HNSCC(62;0.18)			26	142	---	---	---	---	PASS	A	159522953	A	A	159522953	3	1	62	1	0	0	0	0	1	0	0	0	11987	1058	37	2	2664	2	PKP4	2	159522953	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	17924393	159522953	83676420	81	24194										
SCN1A	6323	broad.mit.edu	37	chr2	166908383	166908383	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	catttattcctcaggttgccCatgaacagctgcagcccaat	7	13	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:166908383C>T	uc010zcz.1	-	6	828	c.810G>A	c.(808-810)ATG>ATA	p.M270I	SCN1A_uc002udo.3_Missense_Mutation_p.M139I|SCN1A_uc010fpk.2_Missense_Mutation_p.M139I	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	270	Helical; Name=S5 of repeat I; (By similarity).|I.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TCAGGTTGCCCATGAACAGCT	0.433													15	89	---	---	---	---	PASS	T	166908383	T	T	166908383	3	4	62	1	0	0	0	0	1	0	0	0	13914	594	21	3	5303	3	SCN1A	2	166908383	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	7385430	166908383	76290990	82	24195										
XIRP2	129446	broad.mit.edu	37	chr2	168106459	168106459	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ataaatcagcaccaaaggtcGtcaagcaaaaggttatcgat	8	8	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:168106459G>C	uc002udx.2	+	8	8575	c.8557G>C	c.(8557-8559)GTC>CTC	p.V2853L	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.V2678L|XIRP2_uc010fpq.2_Missense_Mutation_p.V2631L|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.V199L	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2678					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ACCAAAGGTCGTCAAGCAAAA	0.353													23	108	---	---	---	---	PASS	C	168106459	C	C	168106459	3	2	62	1	0	0	0	0	1	0	0	0	17427	1145	40	4	8587	4	XIRP2	2	168106459	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1198076	168106459	75092914	83	24196										
DYNC1I2	1781	broad.mit.edu	37	chr2	172582502	172582502	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gaatttttaagtttctttgaCcattctacaagaattgtaga	6	5	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:172582502C>G	uc002uha.1	+	9	846	c.681C>G	c.(679-681)GAC>GAG	p.D227E	DYNC1I2_uc002uhc.2_Missense_Mutation_p.D201E|DYNC1I2_uc002uhb.1_Missense_Mutation_p.D201E|DYNC1I2_uc010zds.1_Missense_Mutation_p.D219E|DYNC1I2_uc002uhd.1_Missense_Mutation_p.D221E|DYNC1I2_uc002uhe.1_Missense_Mutation_p.D227E|DYNC1I2_uc002uhf.1_Missense_Mutation_p.D201E|DYNC1I2_uc010zdt.1_Missense_Mutation_p.D219E|DYNC1I2_uc002uhg.1_Missense_Mutation_p.D142E|DYNC1I2_uc010zdu.1_5'Flank	NM_001378	NP_001369	Q13409	DC1I2_HUMAN	dynein, cytoplasmic 1, intermediate chain 2	227					G2/M transition of mitotic cell cycle|interspecies interaction between organisms|microtubule-based movement|transport	centrosome|cytosol|dynein complex|microtubule|vesicle	microtubule motor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.198)			GTTTCTTTGACCATTCTACAA	0.353													9	41	---	---	---	---	PASS	G	172582502	G	G	172582502	3	3	62	1	0	0	0	0	1	0	0	0	4843	506	18	4	711	4	DYNC1I2	2	172582502	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	4476043	172582502	70616871	84	24197										
SLC25A12	8604	broad.mit.edu	37	chr2	172669850	172669850	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctgggatttgcttactcaccCctgtagagtccaaagaagcc	9	12	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:172669850C>A	uc002uhh.2	-	11	1259	c.1170G>T	c.(1168-1170)AGG>AGT	p.R390S	SLC25A12_uc010fqh.2_Missense_Mutation_p.R283S	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12	390	Solcar 1.				gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)		L-Aspartic Acid(DB00128)	CTTACTCACCCCTGTAGAGTC	0.433													17	77	---	---	---	---	PASS	A	172669850	A	A	172669850	3	1	62	1	0	0	0	0	1	0	0	0	14474	637	22	3	898	3	SLC25A12	2	172669850	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	87348	172669850	70529523	85	24198										
DLX2	1746	broad.mit.edu	37	chr2	172965551	172965551	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agtcccaggaggccggcgctGagactggcggcgaagcacaa	16	12	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:172965551G>T	uc002uhn.2	-	3	919	c.707C>A	c.(706-708)TCA>TAA	p.S236*		NM_004405	NP_004396	Q07687	DLX2_HUMAN	distal-less homeobox 2	236						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.216)			GGCCGGCGCTGAGACTGGCGG	0.701													12	18	---	---	---	---	PASS	T	172965551	T	T	172965551	4	4	62	1	0	0	0	0	0	1	0	0	4571	1294	45	2	283	2	DLX2	2	172965551	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	295701	172965551	70233822	86	24199										
ITGA6	3655	broad.mit.edu	37	chr2	173338886	173338886	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggagccgtggttttgctgaaGagagacatgaagtctgcaca	14	7	1	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:173338886G>C	uc002uhp.1	+	6	1082	c.879G>C	c.(877-879)AAG>AAC	p.K293N	ITGA6_uc010fqk.1_Missense_Mutation_p.K179N|ITGA6_uc010zdy.1_Missense_Mutation_p.K174N|ITGA6_uc002uho.1_Missense_Mutation_p.K293N|ITGA6_uc010fqm.1_5'Flank	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a	332	FG-GAP 4.|Extracellular (Potential).				blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			TTTTGCTGAAGAGAGACATGA	0.478													25	57	---	---	---	---	PASS	C	173338886	C	C	173338886	3	2	62	1	0	0	0	0	1	0	0	0	7880	933	33	2	901	2	ITGA6	2	173338886	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	373335	173338886	69860487	87	24200										
COL3A1	1281	broad.mit.edu	37	chr2	189867042	189867042	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agggtgagagaggtgaaactGgccctccaggacctgctggt	16	9	0	3	rs121912920		TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:189867042G>T	uc002uqj.1	+	35	2527	c.2410G>T	c.(2410-2412)GGC>TGC	p.G804C		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	804	Triple-helical region.		G -> S (in EDS3).		axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	AGGTGAAACTGGCCCTCCAGG	0.438													24	38	---	---	---	---	PASS	T	189867042	T	T	189867042	3	4	62	1	0	0	0	0	1	0	0	0	3688	1348	47	3	2548	3	COL3A1	2	189867042	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	16528156	189867042	53332331	88	24201										
PMS1	5378	broad.mit.edu	37	chr2	190742031	190742031	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtctatccagacaattacccAtgtacttatcaaaagaggac	6	10	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:190742031A>T	uc002urh.3	+	13	3197	c.2668A>T	c.(2668-2670)ATG>TTG	p.M890L	PMS1_uc002urk.3_Missense_Mutation_p.M851L|PMS1_uc002uri.3_Missense_Mutation_p.M728L|PMS1_uc010zgc.1_Missense_Mutation_p.M714L|PMS1_uc010zgd.1_Missense_Mutation_p.M714L|PMS1_uc002urj.2_RNA|PMS1_uc010frz.2_Missense_Mutation_p.M206L|PMS1_uc002url.2_Missense_Mutation_p.M513L|PMS1_uc002urm.2_RNA	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	890					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			ACAATTACCCATGTACTTATC	0.403			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					4	60	---	---	---	---	PASS	T	190742031	T	T	190742031	3	4	62	1	0	0	0	0	1	0	0	0	12142	217	8	5	2714	5	PMS1	2	190742031	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	874989	190742031	52457342	89	24202										
DNAH7	56171	broad.mit.edu	37	chr2	196788444	196788444	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cacaagtgctcccagagttaCgcgattctgcatggacaatt	9	11	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:196788444C>A	uc002utj.3	-	23	3801	c.3700G>T	c.(3700-3702)GTA>TTA	p.V1234L		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1234	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CCCAGAGTTACGCGATTCTGC	0.398													14	63	---	---	---	---	PASS	A	196788444	A	A	196788444	3	1	62	1	0	0	0	0	1	0	0	0	4606	536	19	1	8546	1	DNAH7	2	196788444	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	6046413	196788444	46410929	90	24203										
ABCA12	26154	broad.mit.edu	37	chr2	215851337	215851337	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccttcataaaagttcagattGaggttatcaacagcaacttt	6	8	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:215851337G>C	uc002vew.2	-	28	4312	c.4092C>G	c.(4090-4092)CTC>CTG	p.L1364L	ABCA12_uc002vev.2_Silent_p.L1046L|ABCA12_uc010zjn.1_Silent_p.L291L	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1364	ABC transporter 1.				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		AGTTCAGATTGAGGTTATCAA	0.428													14	69	---	---	---	---	PASS	C	215851337	C	C	215851337	2	2	62	1	0	0	0	0	0	0	0	1	30	1277	45	2		2	ABCA12	2	215851337	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	19062893	215851337	27348036	91	24204										
RNF25	64320	broad.mit.edu	37	chr2	219532650	219532650	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cttacctcaatgagttcataCagcatggcagtgcccagccc	8	14	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:219532650C>T	uc002vit.2	-	5	430	c.342G>A	c.(340-342)CTG>CTA	p.L114L	RNF25_uc010fvw.2_Silent_p.L2L	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	114	RWD.				positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGAGTTCATACAGCATGGCAG	0.502													83	102	---	---	---	---	PASS	T	219532650	T	T	219532650	2	4	62	1	0	0	0	0	0	0	0	1	13485	465	17	3		3	RNF25	2	219532650	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	3681313	219532650	23666723	92	24205										
FAM134A	79137	broad.mit.edu	37	chr2	220047133	220047133	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccattctcccacctgttcccCaggactcaccccagcccctg	5	22	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:220047133C>T	uc002vjw.3	+	9	1550	c.1414C>T	c.(1414-1416)CAG>TAG	p.Q472*	FAM134A_uc010fwc.2_Nonsense_Mutation_p.Q265*|FAM134A_uc002vjx.2_Intron	NM_024293	NP_077269	Q8NC44	F134A_HUMAN	hypothetical protein LOC79137	472						endoplasmic reticulum|integral to membrane				ovary(1)|central_nervous_system(1)	2		Renal(207;0.0915)		Epithelial(149;8.92e-07)|all cancers(144;0.000151)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACCTGTTCCCCAGGACTCACC	0.622													45	58	---	---	---	---	PASS	T	220047133	T	T	220047133	4	4	62	1	0	0	0	0	0	1	0	0	5445	595	21	3	1448	3	FAM134A	2	220047133	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	514483	220047133	23152240	93	24206										
CUL3	8452	broad.mit.edu	37	chr2	225449700	225449700	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atcttggtgtccttccggctGcccgtgcctttgctcagatt	10	13	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:225449700G>A	uc002vny.2	-	1	411	c.27C>T	c.(25-27)GGC>GGT	p.G9G	CUL3_uc010zls.1_Silent_p.G9G	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	9					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CCTTCCGGCTGCCCGTGCCTT	0.602													4	14	---	---	---	---	PASS	A	225449700	A	A	225449700	2	1	62	1	0	0	0	0	0	0	0	1	4056	1306	46	3		3	CUL3	2	225449700	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	5402567	225449700	17749673	94	24207										
SNED1	25992	broad.mit.edu	37	chr2	241988480	241988480	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	acatgaacacacagtgcccaGatgggggctactgcatggag	13	10	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:241988480G>A	uc002wah.1	+	11	1546	c.1546G>A	c.(1546-1548)GAT>AAT	p.D516N		NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	516	Follistatin-like 2.				cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		ACAGTGCCCAGATGGGGGCTA	0.587													5	16	---	---	---	---	PASS	A	241988480	A	A	241988480	3	1	62	1	0	0	0	0	1	0	0	0	14845	942	33	2	1588	2	SNED1	2	241988480	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	16538780	241988480	1210893	95	24208										
PASK	23178	broad.mit.edu	37	chr2	242075391	242075391	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gctggccaggtctgggagctGtaatgagctgttgtacgcaa	15	8	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:242075391G>T	uc002wao.1	-	8	1293	c.1201C>A	c.(1201-1203)CAG>AAG	p.Q401K	PASK_uc010zol.1_Missense_Mutation_p.Q215K|PASK_uc010zom.1_Missense_Mutation_p.Q366K|PASK_uc010fzl.1_Missense_Mutation_p.Q401K|PASK_uc010zon.1_Missense_Mutation_p.Q182K|PASK_uc002wap.2_5'Flank|PASK_uc002waq.2_Missense_Mutation_p.Q401K	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	401	PAS 2.				regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		TCTGGGAGCTGTAATGAGCTG	0.557													64	109	---	---	---	---	PASS	T	242075391	T	T	242075391	3	4	62	1	0	0	0	0	1	0	0	0	11472	1386	48	3	2814	3	PASK	2	242075391	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	86911	242075391	1123982	96	24209										
ANO7	50636	broad.mit.edu	37	chr2	242135205	242135205	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cagaacagacatgcacaggaCctggcgggagacttttctgg	13	10	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr2:242135205C>A	uc002wax.2	+	4	519	c.416C>A	c.(415-417)ACC>AAC	p.T139N	ANO7_uc002waw.2_Missense_Mutation_p.T138N	NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	139	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						ATGCACAGGACCTGGCGGGAG	0.607													10	55	---	---	---	---	PASS	A	242135205	A	A	242135205	3	1	62	1	0	0	0	0	1	0	0	0	702	507	18	3	430	3	ANO7	2	242135205	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	59814	242135205	1064168	97	24210										
WNT7A	7476	broad.mit.edu	37	chr3	13896073	13896073	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	caagttcatgagagtccgggCattctgcttgatctcccggg	12	11	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:13896073C>A	uc003bye.1	-	3	831	c.526G>T	c.(526-528)GCC>TCC	p.A176S		NM_004625	NP_004616	O00755	WNT7A_HUMAN	wingless-type MMTV integration site family,	176					activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3						AGAGTCCGGGCATTCTGCTTG	0.582													54	232	---	---	---	---	PASS	A	13896073	A	A	13896073	3	1	62	1	0	0	0	0	1	0	0	0	17391	710	25	3	531	3	WNT7A	3	13896073	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08		13896073	184126357	98	24211										
STT3B	201595	broad.mit.edu	37	chr3	31677540	31677540	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	taagaaaggcaagaaaatatCtaagaagactgtttaaatgc	8	4	1	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:31677540C>T	uc011axe.1	+	16	2465	c.2465C>T	c.(2464-2466)TCT>TTT	p.S822F		NM_178862	NP_849193	Q8TCJ2	STT3B_HUMAN	source of immunodominant MHC-associated	822				S -> F (in Ref. 3; AAH15880).	protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding				0						AAGAAAATATCTAAGAAGACT	0.368													13	48	---	---	---	---	PASS	T	31677540	T	T	31677540	3	4	62	1	0	0	0	0	1	0	0	0	15333	913	32	2	2527	2	STT3B	3	31677540	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	17781467	31677540	166344890	99	24212										
PRSS42	339906	broad.mit.edu	37	chr3	46874683	46874683	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccgatctcccatcttgacacTgtaatggaaacggctgtgga	10	11	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:46874683T>G	uc011bap.1	-	3	385	c.385A>C	c.(385-387)AGT>CGT	p.S129R	PRSS42_uc003cqj.2_Missense_Mutation_p.S25R	NM_182702	NP_874361	Q7Z5A4	PRS42_HUMAN	testis serine protease 2 precursor	129	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			pancreas(1)	1						ATCTTGACACTGTAATGGAAA	0.448													5	39	---	---	---	---	PASS	G	46874683	G	G	46874683	3	3	62	1	0	0	0	0	1	0	0	0	12628	1580	55	5	507	5	PRSS42	3	46874683	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	15197143	46874683	151147747	100	24213										
COL7A1	1294	broad.mit.edu	37	chr3	48605026	48605026	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccttgggaccgatcaggcccTccttgccaggggcccccgac	12	18	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:48605026T>A	uc003ctz.2	-	108	8028	c.8027A>T	c.(8026-8028)GAG>GTG	p.E2676V		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2676	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GATCAGGCCCTCCTTGCCAGG	0.637													20	58	---	---	---	---	PASS	A	48605026	A	A	48605026	3	1	62	1	0	0	0	0	1	0	0	0	3704	1551	54	5	851	5	COL7A1	3	48605026	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	1730343	48605026	149417404	101	24214										
ACTR8	93973	broad.mit.edu	37	chr3	53914030	53914030	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcccttgttgtttgtgtcttCgggcaatgacgtgaggaatg	14	7	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:53914030C>T	uc003dhd.2	-	2	289	c.230G>A	c.(229-231)CGA>CAA	p.R77Q	ACTR8_uc003dhb.2_5'Flank|ACTR8_uc003dhc.2_5'UTR	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	77					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		TTTGTGTCTTCGGGCAATGAC	0.478													30	72	---	---	---	---	PASS	T	53914030	T	T	53914030	3	4	62	1	0	0	0	0	1	0	0	0	217	884	31	2	1692	2	ACTR8	3	53914030	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	5309004	53914030	144108400	102	24215										
CCDC66	285331	broad.mit.edu	37	chr3	56651142	56651142	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tttgcaacttttttttagatGacttaaatataggaatattc	5	4	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:56651142G>A	uc003dhz.2	+	14	1933	c.1846G>A	c.(1846-1848)GAC>AAC	p.D616N	CCDC66_uc003dhy.2_Missense_Mutation_p.D252N|CCDC66_uc003dhu.2_Missense_Mutation_p.D582N|CCDC66_uc003dhx.2_RNA|CCDC66_uc003dia.2_5'UTR	NM_001141947	NP_001135419	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66 isoform 1	616										breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		TTTTTTAGATGACTTAAATAT	0.274													7	17	---	---	---	---	PASS	A	56651142	A	A	56651142	3	1	62	1	0	0	0	0	1	0	0	0	2838	1290	45	2	1900	2	CCDC66	3	56651142	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2737112	56651142	141371288	103	24216										
CADPS	8618	broad.mit.edu	37	chr3	62388831	62388831	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cggtccgtcaaccaggtgcaGatcacgttcatggagctgtt	12	11	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:62388831G>A	uc003dll.2	-	29	4167	c.3807C>T	c.(3805-3807)ATC>ATT	p.I1269I	CADPS_uc003dlj.1_Silent_p.I224I|CADPS_uc003dlk.1_Silent_p.I717I|CADPS_uc003dlm.2_Silent_p.I1230I|CADPS_uc003dln.2_Silent_p.I1190I	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	1269	Mediates targeting and association with DCVs (By similarity).				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		ACCAGGTGCAGATCACGTTCA	0.408													13	42	---	---	---	---	PASS	A	62388831	A	A	62388831	2	1	62	1	0	0	0	0	0	0	0	1	2570	932	33	2		2	CADPS	3	62388831	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	5737689	62388831	135633599	104	24217										
SYNPR	132204	broad.mit.edu	37	chr3	63601157	63601157	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcctttaccaatcagatttaAcagagtagcatttgcattct	5	9	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:63601157A>G	uc003dlq.2	+	5	1167	c.798A>G	c.(796-798)TAA>TAG	p.*266*	SYNPR_uc003dlp.2_Silent_p.*286*|SYNPR_uc011bfk.1_RNA|SYNPR_uc011bfl.1_RNA|SYNPR_uc010hnt.2_Silent_p.*275*|SYNPR_uc011bfm.1_RNA	NM_144642	NP_653243	Q8TBG9	SYNPR_HUMAN	synaptoporin isoform 2	266						cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	transporter activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000918)|KIRC - Kidney renal clear cell carcinoma(15;0.0658)|Kidney(15;0.0904)		ATCAGATTTAACAGAGTAGCA	0.453													8	43	---	---	---	---	PASS	G	63601157	G	G	63601157	2	3	62	1	0	0	0	0	0	0	0	1	15456	50	2	5		5	SYNPR	3	63601157	Silent	SNP	A	TCGA-33-6737-01A-11D-1817-08	1212326	63601157	134421273	105	24218										
PRICKLE2	166336	broad.mit.edu	37	chr3	64184592	64184592	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttctccatctccagcggcatCactgtcaccatgtgctcctc	6	17	4	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:64184592C>A	uc003dmf.2	-	2	598	c.12G>T	c.(10-12)GTG>GTT	p.V4V		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	4						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)		CCAGCGGCATCACTGTCACCA	0.483													16	75	---	---	---	---	PASS	A	64184592	A	A	64184592	2	1	62	1	0	0	0	0	0	0	0	1	12487	813	29	2		2	PRICKLE2	3	64184592	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	583435	64184592	133837838	106	24219										
OR5K4	403278	broad.mit.edu	37	chr3	98073316	98073316	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atatcttttcaataccaattCaaatctttaccattgctact	1	10	4	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:98073316C>G	uc011bgv.1	+	1	619	c.619C>G	c.(619-621)CAA>GAA	p.Q207E		NM_001005517	NP_001005517	A6NMS3	OR5K4_HUMAN	olfactory receptor, family 5, subfamily K,	207	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						AATACCAATTCAAATCTTTAC	0.333													7	52	---	---	---	---	PASS	G	98073316	G	G	98073316	3	3	62	1	0	0	0	0	1	0	0	0	11169	827	29	2	621	2	OR5K4	3	98073316	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	33888724	98073316	99949114	107	24220										
GPR15	2838	broad.mit.edu	37	chr3	98251486	98251486	+	Silent	SNP	C	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctggtggccttaattttcacCttttttgtccctttgttgag							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:98251486C>A	uc011bgy.1	+	1	609	c.609C>A	c.(607-609)ACC>ACA	p.T203T		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	203	Helical; Name=5; (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		TAATTTTCACCTTTTTTGTCC	0.448													37	78	---	---	---	---	PASS	A	98251486	A	A	98251486	2	1	62	1	0	0	0	0	0	0	0	1	6655	668	24	3		3	GPR15	3	98251486	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	178170	98251486	99770944	108	24221	524	2								
GPR15	2838	broad.mit.edu	37	chr3	98251494	98251494	+	Missense_Mutation	SNP	T	G	G													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cttaattttcaccttttttgTccctttgttgagcattgtga							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:98251494T>G	uc011bgy.1	+	1	617	c.617T>G	c.(616-618)GTC>GGC	p.V206G		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	206	Helical; Name=5; (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		ACCTTTTTTGTCCCTTTGTTG	0.433													35	74	---	---	---	---	PASS	G	98251494	G	G	98251494	3	3	62	1	0	0	0	0	1	0	0	0	6655	1667	58	5	619	5	GPR15	3	98251494	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	8	98251494	99770936	109	24222	524	2								
CPOX	1371	broad.mit.edu	37	chr3	98304461	98304461	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaaaagataccaccaatgccCcgccgttctccacgatgggc	8	15	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:98304461C>A	uc003dsx.2	-	5	1089	c.996G>T	c.(994-996)CGG>CGT	p.R332R		NM_000097	NP_000088	P36551	HEM6_HUMAN	coproporphyrinogen oxidase precursor	332						mitochondrial intermembrane space	coproporphyrinogen oxidase activity|protein homodimerization activity				0						CACCAATGCCCCGCCGTTCTC	0.468													4	132	---	---	---	---	PASS	A	98304461	A	A	98304461	2	1	62	1	0	0	0	0	0	0	0	1	3821	610	22	3		3	CPOX	3	98304461	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	52967	98304461	99717969	110	24223										
TBC1D23	55773	broad.mit.edu	37	chr3	100000667	100000667	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgccagaacagaacactattCacaaagattgcctgcagttt	7	10	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:100000667C>T	uc003dtt.2	+	3	424	c.247C>T	c.(247-249)CAC>TAC	p.H83Y	TBC1D23_uc003dts.2_Missense_Mutation_p.H83Y	NM_018309	NP_060779	Q9NUY8	TBC23_HUMAN	TBC1 domain family, member 23	83	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2						GAACACTATTCACAAAGATTG	0.353													15	72	---	---	---	---	PASS	T	100000667	T	T	100000667	3	4	62	1	0	0	0	0	1	0	0	0	15610	826	29	2	257	2	TBC1D23	3	100000667	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1696206	100000667	98021763	111	24224										
NFKBIZ	64332	broad.mit.edu	37	chr3	101574241	101574241	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgtttttaaaatctgcaggcGattcagaagggagcagtggg	14	5	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:101574241G>A	uc003dvp.2	+	8	1708	c.1593G>A	c.(1591-1593)GCG>GCA	p.A531A	NFKBIZ_uc003dvo.2_Silent_p.A431A|NFKBIZ_uc010hpo.2_Silent_p.A431A|NFKBIZ_uc003dvq.2_Silent_p.A409A	NM_031419	NP_113607	Q9BYH8	IKBZ_HUMAN	nuclear factor of kappa light polypeptide gene	531	Interaction with NFKB1/p50 (By similarity).|ANK 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(2)	2						ATCTGCAGGCGATTCAGAAGG	0.373													28	57	---	---	---	---	PASS	A	101574241	A	A	101574241	2	1	62	1	0	0	0	0	0	0	0	1	10383	1045	37	2		2	NFKBIZ	3	101574241	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	1573574	101574241	96448189	112	24225										
DZIP3	9666	broad.mit.edu	37	chr3	108409675	108409675	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	caacaggggacatgtccaacGtgcagactccacgttttgct	10	12	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:108409675G>A	uc003dxd.2	+	32	3980	c.3558G>A	c.(3556-3558)ACG>ACA	p.T1186T	DZIP3_uc003dxf.1_Silent_p.T1186T|DZIP3_uc011bhm.1_Silent_p.T637T	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	1186	RING-type; atypical.				protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CATGTCCAACGTGCAGACTCC	0.502													30	92	---	---	---	---	PASS	A	108409675	A	A	108409675	2	1	62	1	0	0	0	0	0	0	0	1	4865	1132	40	1		1	DZIP3	3	108409675	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	6835434	108409675	89612755	113	24226										
MORC1	27136	broad.mit.edu	37	chr3	108723703	108723703	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccttcagttggttgagctctCcagacagtggtaatattagc	10	9	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:108723703C>G	uc003dxl.2	-	20	2133	c.2046G>C	c.(2044-2046)TGG>TGC	p.W682C	MORC1_uc011bhn.1_Missense_Mutation_p.W661C	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	682					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						GTTGAGCTCTCCAGACAGTGG	0.368													63	332	---	---	---	---	PASS	G	108723703	G	G	108723703	3	3	62	1	0	0	0	0	1	0	0	0	9701	856	30	2	944	2	MORC1	3	108723703	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	314028	108723703	89298727	114	24227										
C3orf30	152405	broad.mit.edu	37	chr3	118865623	118865623	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agcttccgagcagatggaccGcagaatgtctggcgaggctg	15	10	1	2	rs139845696	byFrequency	TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:118865623G>A	uc003ecb.1	+	1	627	c.587G>A	c.(586-588)CGC>CAC	p.R196H	IGSF11_uc003eby.2_5'Flank|IGSF11_uc003ebz.2_5'Flank|IGSF11_uc010hqs.2_5'Flank|C3orf30_uc011biw.1_Missense_Mutation_p.R196H	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	196										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		CAGATGGACCGCAGAATGTCT	0.517													29	113	---	---	---	---	PASS	A	118865623	A	A	118865623	3	1	62	1	0	0	0	0	1	0	0	0	2220	1087	38	1	589	1	C3orf30	3	118865623	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	10141920	118865623	79156807	115	24228										
GOLGB1	2804	broad.mit.edu	37	chr3	121414880	121414880	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tttcttttagtgcttcttttCgggaaataagggcagcttgc	10	7	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:121414880C>A	uc003eei.3	-	13	4601	c.4475G>T	c.(4474-4476)CGA>CTA	p.R1492L	GOLGB1_uc010hrc.2_Missense_Mutation_p.R1497L|GOLGB1_uc003eej.3_Missense_Mutation_p.R1458L|GOLGB1_uc011bjm.1_Missense_Mutation_p.R1378L|GOLGB1_uc010hrd.1_Missense_Mutation_p.R1456L	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1492	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TGCTTCTTTTCGGGAAATAAG	0.418													56	287	---	---	---	---	PASS	A	121414880	A	A	121414880	3	1	62	1	0	0	0	0	1	0	0	0	6565	884	31	2	5344	2	GOLGB1	3	121414880	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2549257	121414880	76607550	116	24229										
PLXNA1	5361	broad.mit.edu	37	chr3	126747835	126747835	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tccagctccctcctcccccaGagtggcgccagggccgcatg	11	19	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:126747835G>C	uc003ejg.2	+	25	4605	c.4601_splice	c.e25-1	p.E1534_splice	PLXNA1_uc003ejh.2_Splice_Site_p.E202_splice	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1						axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TCCTCCCCCAGAGTGGCGCCA	0.642													8	26	---	---	---	---	PASS	C	126747835	C	C	126747835	5	2	62	1	0	0	0	0	0	0	1	0	12119	956	33	2	4767	2	PLXNA1	3	126747835	Splice_Site	SNP	G	TCGA-33-6737-01A-11D-1817-08	5332955	126747835	71274595	117	24230										
RUVBL1	8607	broad.mit.edu	37	chr3	127806642	127806642	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccgtgaggggatgtgatgtcCtcagtgcctctgtaaggggc	16	9	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:127806642C>A	uc003ekh.2	-	9	1130	c.1026G>T	c.(1024-1026)GAG>GAT	p.E342D	RUVBL1_uc003eke.2_Intron|RUVBL1_uc003ekf.2_Missense_Mutation_p.E282D|RUVBL1_uc010hss.2_Missense_Mutation_p.E342D	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1	342					cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		ATGTGATGTCCTCAGTGCCTC	0.488													4	73	---	---	---	---	PASS	A	127806642	A	A	127806642	3	1	62	1	0	0	0	0	1	0	0	0	13752	680	24	3	356	3	RUVBL1	3	127806642	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1058807	127806642	70215788	118	24231										
ACPL2	92370	broad.mit.edu	37	chr3	140998308	140998308	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctgtatgtcattcccaaaacAaagcgaccagaaattgactg	7	10	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:140998308A>T	uc003etu.2	+	6	626	c.327A>T	c.(325-327)ACA>ACT	p.T109T	ACPL2_uc003etv.2_Silent_p.T109T|ACPL2_uc011bna.1_Silent_p.T71T|ACPL2_uc011bnb.1_Silent_p.T92T	NM_152282	NP_689495	Q8TE99	ACPL2_HUMAN	acid phosphatase-like 2 precursor	109						extracellular region	acid phosphatase activity			skin(1)	1						TTCCCAAAACAAAGCGACCAG	0.448											OREG0015847	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	44	79	---	---	---	---	PASS	T	140998308	T	T	140998308	2	4	62	1	0	0	0	0	0	0	0	1	166	117	5	5		5	ACPL2	3	140998308	Silent	SNP	A	TCGA-33-6737-01A-11D-1817-08	13191666	140998308	57024122	119	24232										
SLITRK3	22865	broad.mit.edu	37	chr3	164907140	164907140	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaggctgcaggctggatttcCcggatgacattgaactcaaa	11	9	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:164907140C>T	uc003fej.3	-	2	1923	c.1479G>A	c.(1477-1479)CGG>CGA	p.R493R	SLITRK3_uc003fek.2_Silent_p.R493R	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	493	LRR 10.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GCTGGATTTCCCGGATGACAT	0.488										HNSCC(40;0.11)			5	57	---	---	---	---	PASS	T	164907140	T	T	164907140	2	4	62	1	0	0	0	0	0	0	0	1	14744	610	22	3		3	SLITRK3	3	164907140	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	23908832	164907140	33115290	120	24233										
ARPM1	84517	broad.mit.edu	37	chr3	169487114	169487114	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gggagaaggaggtacctgatGaacagcgagctcctccagtc	14	10	0	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:169487114G>T	uc003ffs.1	-	1	570	c.195C>A	c.(193-195)TTC>TTA	p.F65L		NM_032487	NP_115876	Q9BYD9	ARPM1_HUMAN	actin related protein M1	65						cytoplasm|cytoskeleton					0	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;5.01e-59)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			GGTACCTGATGAACAGCGAGC	0.478													8	19	---	---	---	---	PASS	T	169487114	T	T	169487114	3	4	62	1	0	0	0	0	1	0	0	0	976	1281	45	2	931	2	ARPM1	3	169487114	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	4579974	169487114	28535316	121	24234										
USP13	8975	broad.mit.edu	37	chr3	179448430	179448430	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gttaggacatggccttctctCaggccagtattcaaagcctc	9	12	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:179448430C>T	uc003fkh.2	+	10	1268	c.1187C>T	c.(1186-1188)TCA>TTA	p.S396L	USP13_uc003fkf.2_Missense_Mutation_p.S396L	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	396					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			GGCCTTCTCTCAGGCCAGTAT	0.418													23	43	---	---	---	---	PASS	T	179448430	T	T	179448430	3	4	62	1	0	0	0	0	1	0	0	0	17041	838	29	2	1225	2	USP13	3	179448430	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	9961316	179448430	18574000	122	24235										
LAMP3	27074	broad.mit.edu	37	chr3	182871557	182871557	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agaacctgataaattccagtCttgactgacgatggctgagg	11	8	1	5			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:182871557C>G	uc003flh.3	-	2	896	c.672G>C	c.(670-672)AAG>AAC	p.K224N		NM_014398	NP_055213	Q9UQV4	LAMP3_HUMAN	lysosomal-associated membrane protein 3	224	Lumenal (Potential).				cell proliferation	integral to membrane|lysosomal membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;9.14e-14)|Ovarian(172;0.0355)		all cancers(12;2.91e-44)|Epithelial(37;5.52e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;4.16e-21)			AAATTCCAGTCTTGACTGACG	0.547													28	107	---	---	---	---	PASS	G	182871557	G	G	182871557	3	3	62	1	0	0	0	0	1	0	0	0	8619	912	32	2	598	2	LAMP3	3	182871557	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	3423127	182871557	15150873	123	24236										
C3orf43	255798	broad.mit.edu	37	chr3	196236461	196236461	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	caaagccttactatgatgttCgaatttctgcatcaggttat	7	8	2	1	rs79673145	by1000genomes	TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr3:196236461C>T	uc003fws.2	-	2	287	c.130G>A	c.(130-132)GAA>AAA	p.E44K	C3orf43_uc003fwr.2_Missense_Mutation_p.E36K	NM_001077657	NP_001071125	Q147U7	CC043_HUMAN	hypothetical protein LOC255798	44						integral to membrane				ovary(1)	1	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;2.13e-23)|all cancers(36;2e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00298)		CTATGATGTTCGAATTTCTGC	0.438													28	64	---	---	---	---	PASS	T	196236461	T	T	196236461	3	4	62	1	0	0	0	0	1	0	0	0	2230	893	31	2	522	2	C3orf43	3	196236461	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	13364904	196236461	1785969	124	24237										
ZNF595	152687	broad.mit.edu	37	chr4	59383	59383	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctgaagagtggaaatgtctgGaccctgcccagcagaatttg	12	9	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:59383G>C	uc003fzv.1	+	2	220	c.64G>C	c.(64-66)GAC>CAC	p.D22H	ZNF595_uc003fzu.1_RNA|ZNF718_uc003fzt.3_Missense_Mutation_p.D22H|ZNF595_uc010iay.1_RNA|ZNF595_uc011bus.1_5'UTR|ZNF595_uc011but.1_Intron	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	22					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		GAAATGTCTGGACCCTGCCCA	0.413													36	491	---	---	---	---	PASS	C	59383	C	C	59383	3	2	62	1	0	0	0	0	1	0	0	0	18022	1174	41	2	70	2	ZNF595	4	59383	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08		59383	191094893	125	24238										
TBC1D14	57533	broad.mit.edu	37	chr4	6995917	6995917	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tttctttgtcctaggaatatGaagacaaggctggaagacct	10	7	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:6995917G>A	uc011bwg.1	+	4	929	c.850G>A	c.(850-852)GAA>AAA	p.E284K	TBC1D14_uc003gjs.3_Missense_Mutation_p.E284K|TBC1D14_uc010idh.2_Missense_Mutation_p.E4K	NM_001113361	NP_001106832	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14 isoform a	284						intracellular	Rab GTPase activator activity			ovary(1)|pancreas(1)	2						ctaggaatatgaagacaaggc	0.284													17	59	---	---	---	---	PASS	A	6995917	A	A	6995917	3	1	62	1	0	0	0	0	1	0	0	0	15600	1291	45	2	867	2	TBC1D14	4	6995917	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	6936534	6995917	184158359	126	24239										
DEFB131	644414	broad.mit.edu	37	chr4	9452086	9452086	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tttgtcttctctttttaaagCcagaagcttcatttctaatg	5	8	4	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:9452086C>G	uc011bwt.1	+	2	59	c.59C>G	c.(58-60)GCC>GGC	p.A20G		NM_001040448	NP_001035538	P59861	DB131_HUMAN	defensin, beta 131 precursor	20				A -> G (in Ref. 1; AAQ09523).	defense response to bacterium	extracellular region					0						CTTTTTAAAGCCAGAAGCTTC	0.284													5	32	---	---	---	---	PASS	G	9452086	G	G	9452086	3	3	62	1	0	0	0	0	1	0	0	0	4416	753	26	4	65	4	DEFB131	4	9452086	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2456169	9452086	181702190	127	24240										
CLRN2	645104	broad.mit.edu	37	chr4	17517048	17517048	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtcaacgccacagacagagaGctggtcaagttcattgggga	13	9	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:17517048G>T	uc003gpg.1	+	1	261	c.159G>T	c.(157-159)GAG>GAT	p.E53D		NM_001079827	NP_001073296	A0PK11	CLRN2_HUMAN	clarin 2	53						integral to membrane					0						CAGACAGAGAGCTGGTCAAGT	0.552													11	47	---	---	---	---	PASS	T	17517048	T	T	17517048	3	4	62	1	0	0	0	0	1	0	0	0	3558	962	34	3	161	3	CLRN2	4	17517048	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	8064962	17517048	173637228	128	24241										
PPARGC1A	10891	broad.mit.edu	37	chr4	23815388	23815388	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gggaacacgacctgtgtcgaGaaaaggaccttgaacgagag	14	8	0	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:23815388G>A	uc003gqs.2	-	8	1838	c.1718C>T	c.(1717-1719)TCT>TTT	p.S573F	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	573	Arg/Ser-rich.				androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				CCTGTGTCGAGAAAAGGACCT	0.448													15	41	---	---	---	---	PASS	A	23815388	A	A	23815388	3	1	62	1	0	0	0	0	1	0	0	0	12300	942	33	2	702	2	PPARGC1A	4	23815388	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	6298340	23815388	167338888	129	24242										
KIAA1211	57482	broad.mit.edu	37	chr4	57182826	57182826	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgccactcagcaagagaaacCttctcaaacacccgaggccg	8	15	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:57182826C>A	uc003hbk.2	+	8	3549	c.3158C>A	c.(3157-3159)CCT>CAT	p.P1053H	KIAA1211_uc010iha.2_Missense_Mutation_p.P1046H|KIAA1211_uc011bzz.1_Missense_Mutation_p.P963H|KIAA1211_uc003hbm.1_Missense_Mutation_p.P939H	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	1053										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					CAAGAGAAACCTTCTCAAACA	0.468													14	29	---	---	---	---	PASS	A	57182826	A	A	57182826	3	1	62	1	0	0	0	0	1	0	0	0	8215	681	24	3	3176	3	KIAA1211	4	57182826	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	33367438	57182826	133971450	130	24243										
TECRL	253017	broad.mit.edu	37	chr4	65188436	65188436	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	actgacttgttgacctaggtCtgtagcatacagtgtgacaa	10	8	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:65188436C>G	uc003hcv.2	-	4	515	c.406G>C	c.(406-408)GAC>CAC	p.D136H	TECRL_uc003hcw.2_Missense_Mutation_p.D136H	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	136					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						TGACCTAGGTCTGTAGCATAC	0.308													16	64	---	---	---	---	PASS	G	65188436	G	G	65188436	3	3	62	1	0	0	0	0	1	0	0	0	15743	913	32	2	721	2	TECRL	4	65188436	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	8005610	65188436	125965840	131	24244										
EPHA5	2044	broad.mit.edu	37	chr4	66213899	66213899	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctattgcttctggggcagtcCatctgattggaatttttcct	9	9	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:66213899C>A	uc003hcy.2	-	15	2724	c.2531G>T	c.(2530-2532)TGG>TTG	p.W844L	EPHA5_uc003hcx.2_Missense_Mutation_p.W776L|EPHA5_uc003hcz.2_Missense_Mutation_p.W822L|EPHA5_uc011cah.1_Missense_Mutation_p.W845L|EPHA5_uc011cai.1_Missense_Mutation_p.W823L|EPHA5_uc003hda.2_Missense_Mutation_p.W845L	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	844	Cytoplasmic (Potential).|Protein kinase.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TGGGGCAGTCCATCTGATTGG	0.393										TSP Lung(17;0.13)			11	62	---	---	---	---	PASS	A	66213899	A	A	66213899	3	1	62	1	0	0	0	0	1	0	0	0	5170	595	21	3	598	3	EPHA5	4	66213899	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1025463	66213899	124940377	132	24245										
YTHDC1	91746	broad.mit.edu	37	chr4	69199062	69199062	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgcagagcttccacttctatCaaaaacaattggagatatgc	7	9	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:69199062C>G	uc003hdx.2	-	5	1290	c.937G>C	c.(937-939)GAT>CAT	p.D313H	YTHDC1_uc003hdy.2_Missense_Mutation_p.D313H	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	313										upper_aerodigestive_tract(1)|ovary(1)	2						CCACTTCTATCAAAAACAATT	0.343													64	178	---	---	---	---	PASS	G	69199062	G	G	69199062	3	3	62	1	0	0	0	0	1	0	0	0	17493	826	29	2	1298	2	YTHDC1	4	69199062	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2985163	69199062	121955214	133	24246										
AFF1	4299	broad.mit.edu	37	chr4	88029336	88029336	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cacagtcccttccagaaccaGtggcatcagcacattccagc	7	16	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:88029336G>C	uc003hqj.3	+	10	1788	c.1381G>C	c.(1381-1383)GTG>CTG	p.V461L	AFF1_uc011ccz.1_Missense_Mutation_p.V468L|AFF1_uc003hqk.3_Missense_Mutation_p.V461L|AFF1_uc011cda.1_Missense_Mutation_p.V99L	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	461						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		TCCAGAACCAGTGGCATCAGC	0.483													4	88	---	---	---	---	PASS	C	88029336	C	C	88029336	3	2	62	1	0	0	0	0	1	0	0	0	356	1029	36	4	1461	4	AFF1	4	88029336	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	18830274	88029336	103124940	134	24247										
EGF	1950	broad.mit.edu	37	chr4	110915914	110915914	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	actccaccccctcacctcagGgaagatgaccaccactattc	5	18	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:110915914G>A	uc003hzy.3	+	20	3335	c.2883G>A	c.(2881-2883)AGG>AGA	p.R961R	EGF_uc011cfu.1_Silent_p.R919R|EGF_uc011cfv.1_Silent_p.R920R|EGF_uc010imk.2_Silent_p.R109R	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	961	Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	CTCACCTCAGGGAAGATGACC	0.433													15	64	---	---	---	---	PASS	A	110915914	A	A	110915914	2	1	62	1	0	0	0	0	0	0	0	1	4962	1223	43	3		3	EGF	4	110915914	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	22886578	110915914	80238362	135	24248										
KIAA1109	84162	broad.mit.edu	37	chr4	123113471	123113471	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agacttgcctccatgttgggGactggatatagtttgtggta	13	6	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:123113471G>T	uc003ieh.2	+	9	1034	c.989G>T	c.(988-990)GGA>GTA	p.G330V	KIAA1109_uc003iei.1_Missense_Mutation_p.G84V	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	330					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CCATGTTGGGGACTGGATATA	0.373													19	61	---	---	---	---	PASS	T	123113471	T	T	123113471	3	4	62	1	0	0	0	0	1	0	0	0	8208	1174	41	2	1023	2	KIAA1109	4	123113471	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	12197557	123113471	68040805	136	24249										
MMAA	166785	broad.mit.edu	37	chr4	146567233	146567233	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctagaggaactttaggaggcGtgacaaggaccacaaatgaa	12	7	0	3	rs150376474		TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:146567233G>C	uc003ikh.3	+	4	743	c.658G>C	c.(658-660)GTG>CTG	p.V220L	MMAA_uc003ikg.2_Missense_Mutation_p.V220L|MMAA_uc003iki.1_RNA|MMAA_uc010iow.2_RNA	NM_172250	NP_758454	Q8IVH4	MMAA_HUMAN	methylmalonic aciduria type A precursor	220						mitochondrion	GTP binding|nucleoside-triphosphatase activity			ovary(1)	1	all_hematologic(180;0.151)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTTAGGAGGCGTGACAAGGAC	0.393													21	81	---	---	---	---	PASS	C	146567233	C	C	146567233	3	2	62	1	0	0	0	0	1	0	0	0	9639	1145	40	4	668	4	MMAA	4	146567233	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	23453762	146567233	44587043	137	24250										
LRBA	987	broad.mit.edu	37	chr4	151752973	151752973	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gaaaatgcaaacttaccagaGagtgatacattctcattttc	6	8	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:151752973G>C	uc010ipj.2	-	29	5199	c.4725C>G	c.(4723-4725)CTC>CTG	p.L1575L	LRBA_uc003ilt.3_Silent_p.L234L|LRBA_uc003ilu.3_Silent_p.L1575L	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1575						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					ACTTACCAGAGAGTGATACAT	0.328													8	30	---	---	---	---	PASS	C	151752973	C	C	151752973	2	2	62	1	0	0	0	0	0	0	0	1	8931	929	33	2		2	LRBA	4	151752973	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	5185740	151752973	39401303	138	24251										
FHDC1	85462	broad.mit.edu	37	chr4	153896268	153896268	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctcaggcctcggggggccagGaggaggcccccaacccaccc	14	18	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:153896268G>A	uc003inf.2	+	11	1900	c.1825G>A	c.(1825-1827)GAG>AAG	p.E609K		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	609					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					GGGGGGCCAGGAGGAGGCCCC	0.697													34	121	---	---	---	---	PASS	A	153896268	A	A	153896268	3	1	62	1	0	0	0	0	1	0	0	0	5876	1175	41	2	1867	2	FHDC1	4	153896268	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2143295	153896268	37258008	139	24252										
RAPGEF2	9693	broad.mit.edu	37	chr4	160235907	160235907	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaggacccaattgaccggacAgatgatgacattggtaagct	11	8	0	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:160235907A>T	uc003iqg.3	+	3	667	c.357A>T	c.(355-357)ACA>ACT	p.T119T		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	119					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		TTGACCGGACAGATGATGACA	0.423													26	79	---	---	---	---	PASS	T	160235907	T	T	160235907	2	4	62	1	0	0	0	0	0	0	0	1	13044	175	7	5		5	RAPGEF2	4	160235907	Silent	SNP	A	TCGA-33-6737-01A-11D-1817-08	6339639	160235907	30918369	140	24253										
FSTL5	56884	broad.mit.edu	37	chr4	162463830	162463830	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cctgactctctggatacaccCggatgactggaggaactaaa	10	11	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:162463830C>A	uc003iqh.2	-	9	1467	c.1031G>T	c.(1030-1032)CGG>CTG	p.R344L	FSTL5_uc003iqi.2_Missense_Mutation_p.R343L|FSTL5_uc010iqv.2_Missense_Mutation_p.R343L	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	344	Ig-like 2.					extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TGGATACACCCGGATGACTGG	0.403													10	61	---	---	---	---	PASS	A	162463830	A	A	162463830	3	1	62	1	0	0	0	0	1	0	0	0	6080	652	23	1	1544	1	FSTL5	4	162463830	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2227923	162463830	28690446	141	24254										
TLL1	7092	broad.mit.edu	37	chr4	166978409	166978409	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aacactctgggcagttaccaGtgtgcctgtgagcctggcta	12	11	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:166978409G>T	uc003irh.1	+	14	2441	c.1794G>T	c.(1792-1794)CAG>CAT	p.Q598H	TLL1_uc011cjn.1_Missense_Mutation_p.Q621H|TLL1_uc011cjo.1_Missense_Mutation_p.Q422H	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	598	EGF-like 1; calcium-binding (Potential).				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		GCAGTTACCAGTGTGCCTGTG	0.517													9	46	---	---	---	---	PASS	T	166978409	T	T	166978409	3	4	62	1	0	0	0	0	1	0	0	0	15942	1020	36	3	1848	3	TLL1	4	166978409	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	4514579	166978409	24175867	142	24255										
DDX60	55601	broad.mit.edu	37	chr4	169190038	169190038	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	caggattacttatggtagctGaaagagccaaaaagggacat	11	6	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:169190038G>A	uc003irp.2	-	20	3045	c.2753C>T	c.(2752-2754)TCA>TTA	p.S918L		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	918	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		TATGGTAGCTGAAAGAGCCAA	0.348													11	74	---	---	---	---	PASS	A	169190038	A	A	169190038	3	1	62	1	0	0	0	0	1	0	0	0	4378	1294	45	2	2461	2	DDX60	4	169190038	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2211629	169190038	21964238	143	24256										
MORF4	10934	broad.mit.edu	37	chr4	174537601	174537601	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tctttactttaacttcaactCtgttcatgaatgtttcctca	3	10	5	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:174537601C>G	uc011cke.1	-	1	194	c.194G>C	c.(193-195)AGA>ACA	p.R65T		NM_006792	NP_006783			mortality factor 4												0		Prostate(90;0.00201)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0765)|all_hematologic(60;0.107)		all cancers(43;1.88e-18)|Epithelial(43;1.19e-16)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		AACTTCAACTCTGTTCATGAA	0.443													27	109	---	---	---	---	PASS	G	174537601	G	G	174537601	3	3	62	1	0	0	0	0	1	0	0	0	9705	913	32	2	516	2	MORF4	4	174537601	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	5347563	174537601	16616675	144	24257										
STOX2	56977	broad.mit.edu	37	chr4	184931924	184931924	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cttctgataggcaggtccccCactcctccagggagcctgtg	11	15	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:184931924C>A	uc003ivz.1	+	3	3368	c.1933C>A	c.(1933-1935)CAC>AAC	p.H645N	STOX2_uc003iwa.1_Missense_Mutation_p.H334N	NM_020225	NP_064610	Q9P2F5	STOX2_HUMAN	storkhead box 2	645					embryo development|maternal placenta development						0		all_lung(41;1.89e-12)|Lung NSC(41;3.48e-12)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|all_hematologic(60;0.027)|Prostate(90;0.0283)		all cancers(43;2.85e-26)|Epithelial(43;2.27e-22)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-10)|Colorectal(24;8.23e-06)|GBM - Glioblastoma multiforme(59;1.64e-05)|STAD - Stomach adenocarcinoma(60;3.6e-05)|COAD - Colon adenocarcinoma(29;4.37e-05)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.227)		GCAGGTCCCCCACTCCTCCAG	0.612													3	17	---	---	---	---	PASS	A	184931924	A	A	184931924	3	1	62	1	0	0	0	0	1	0	0	0	15319	594	21	3	1943	3	STOX2	4	184931924	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	10394323	184931924	6222352	145	24258										
ENPP6	133121	broad.mit.edu	37	chr4	185045395	185045395	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tatattctaggcagtaggtgGgtctgacacccagaatctca	10	9	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:185045395G>T	uc003iwc.2	-	3	594	c.452C>A	c.(451-453)CCC>CAC	p.P151H		NM_153343	NP_699174	Q6UWR7	ENPP6_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	151	Extracellular (Potential).				lipid catabolic process	extracellular region|integral to membrane|plasma membrane				central_nervous_system(1)	1		all_lung(41;7.99e-12)|Lung NSC(41;1.46e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;4.98e-27)|Epithelial(43;3.15e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.09e-12)|Colorectal(24;3.78e-05)|STAD - Stomach adenocarcinoma(60;4.5e-05)|COAD - Colon adenocarcinoma(29;0.000154)|GBM - Glioblastoma multiforme(59;0.000167)|BRCA - Breast invasive adenocarcinoma(30;0.000378)|LUSC - Lung squamous cell carcinoma(40;0.0151)		GCAGTAGGTGGGTCTGACACC	0.418													33	132	---	---	---	---	PASS	T	185045395	T	T	185045395	3	4	62	1	0	0	0	0	1	0	0	0	5134	1232	43	3	894	3	ENPP6	4	185045395	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	113471	185045395	6108881	146	24259										
TLR3	7098	broad.mit.edu	37	chr4	187005962	187005962	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgaactggccagttcagaaaGaacggataggtgcctttcgt	12	8	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:187005962G>C	uc003iyq.2	+	5	2751	c.2650G>C	c.(2650-2652)GAA>CAA	p.E884Q	TLR3_uc011ckz.1_Missense_Mutation_p.E607Q|TLR3_uc003iyr.2_Missense_Mutation_p.E607Q	NM_003265	NP_003256	O15455	TLR3_HUMAN	toll-like receptor 3 precursor	884	Cytoplasmic (Potential).|TIR.				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|defense response to bacterium|defense response to virus|detection of virus|hyperosmotic response|I-kappaB phosphorylation|inflammatory response|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of osteoclast differentiation|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|toll-like receptor 3 signaling pathway	endoplasmic reticulum membrane|endosome membrane|integral to plasma membrane	double-stranded RNA binding|transmembrane receptor activity			ovary(2)|prostate(1)|lung(1)|breast(1)	5		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		AGTTCAGAAAGAACGGATAGG	0.363													19	73	---	---	---	---	PASS	C	187005962	C	C	187005962	3	2	62	1	0	0	0	0	1	0	0	0	15949	943	33	2	2664	2	TLR3	4	187005962	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1960567	187005962	4148314	147	24260										
FAT1	2195	broad.mit.edu	37	chr4	187629005	187629005	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctggcagccactgttatgttGatatataatggtgtggcaaa	11	6	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr4:187629005G>C	uc003izf.2	-	2	2165	c.1977C>G	c.(1975-1977)ATC>ATG	p.I659M	FAT1_uc010iso.1_Missense_Mutation_p.I659M	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	659	Extracellular (Potential).|Cadherin 5.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTGTTATGTTGATATATAATG	0.443										HNSCC(5;0.00058)			18	61	---	---	---	---	PASS	C	187629005	C	C	187629005	3	2	62	1	0	0	0	0	1	0	0	0	5689	1280	45	2	11893	2	FAT1	4	187629005	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	623043	187629005	3525271	148	24261										
CTNND2	1501	broad.mit.edu	37	chr5	11098820	11098820	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	acagcatctggatcccttttGgtggttcagcacagtctgga	11	10	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:11098820G>T	uc003jfa.1	-	15	2649	c.2504C>A	c.(2503-2505)CCA>CAA	p.P835Q	CTNND2_uc010itt.2_Missense_Mutation_p.P744Q|CTNND2_uc011cmy.1_Missense_Mutation_p.P498Q|CTNND2_uc011cmz.1_Missense_Mutation_p.P402Q|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.P402Q	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	835	ARM 7.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GATCCCTTTTGGTGGTTCAGC	0.507													23	70	---	---	---	---	PASS	T	11098820	T	T	11098820	3	4	62	1	0	0	0	0	1	0	0	0	4020	1348	47	3	1205	3	CTNND2	5	11098820	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08		11098820	169816440	149	24262										
ZNF366	167465	broad.mit.edu	37	chr5	71739897	71739897	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atcctcgggtgtgcagagctGctggctctggggggccaggc	18	11	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:71739897G>C	uc003kce.1	-	5	2107	c.1921C>G	c.(1921-1923)CAG>GAG	p.Q641E		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	641					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		GTGCAGAGCTGCTGGCTCTGG	0.652													47	205	---	---	---	---	PASS	C	71739897	C	C	71739897	3	2	62	1	0	0	0	0	1	0	0	0	17867	1328	46	4	317	4	ZNF366	5	71739897	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	60641077	71739897	109175363	150	24263										
UTP15	84135	broad.mit.edu	37	chr5	72873704	72873704	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gaagatgagacaatagttgtAggaatgaccaatggaatact	11	4	0	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:72873704A>G	uc003kcw.1	+	9	1141	c.918A>G	c.(916-918)GTA>GTG	p.V306V	UTP15_uc011cso.1_Silent_p.V287V|UTP15_uc011csp.1_Silent_p.V116V|UTP15_uc010ize.1_Silent_p.V306V	NM_032175	NP_115551	Q8TED0	UTP15_HUMAN	UTP15, U3 small nucleolar ribonucleoprotein,	306	WD 7.				rRNA processing	cytoplasm|nucleolus					0		Lung NSC(167;0.00405)|Ovarian(174;0.0129)		OV - Ovarian serous cystadenocarcinoma(47;7.76e-55)		CAATAGTTGTAGGAATGACCA	0.323													12	59	---	---	---	---	PASS	G	72873704	G	G	72873704	2	3	62	1	0	0	0	0	0	0	0	1	17094	407	15	5		5	UTP15	5	72873704	Silent	SNP	A	TCGA-33-6737-01A-11D-1817-08	1133807	72873704	108041556	151	24264										
ZCCHC9	84240	broad.mit.edu	37	chr5	80604814	80604814	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgtggagaaatggggcacctGtctagatcttgtcctgataa	12	7	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:80604814G>A	uc003khj.2	+	4	718	c.585G>A	c.(583-585)CTG>CTA	p.L195L	RNU5E_uc011cto.1_Intron|ZCCHC9_uc003khk.3_Silent_p.L195L|ZCCHC9_uc003khi.2_Silent_p.L195L	NM_001131035	NP_001124507	Q8N567	ZCHC9_HUMAN	zinc finger, CCHC domain containing 9	195	CCHC-type 3.						nucleic acid binding|zinc ion binding			ovary(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;8.18e-45)|Epithelial(54;2.72e-39)|all cancers(79;7.33e-34)		TGGGGCACCTGTCTAGATCTT	0.393													20	84	---	---	---	---	PASS	A	80604814	A	A	80604814	2	1	62	1	0	0	0	0	0	0	0	1	17592	1364	48	3		3	ZCCHC9	5	80604814	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	7731110	80604814	100310446	152	24265										
POLR3G	10622	broad.mit.edu	37	chr5	89781457	89781457	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctgttggatttagcaaaggtGaaaagttacctgatgtagtg	12	4	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:89781457G>A	uc003kjq.2	+	2	273	c.73G>A	c.(73-75)GAA>AAA	p.E25K	POLR3G_uc011cuc.1_Missense_Mutation_p.E25K	NM_006467	NP_006458	O15318	RPC7_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	25					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|regulation of transcription from RNA polymerase III promoter|response to virus	DNA-directed RNA polymerase III complex	DNA-directed RNA polymerase activity				0		all_cancers(142;5.03e-09)|all_epithelial(76;1.23e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;2.74e-31)|Epithelial(54;8.2e-26)|all cancers(79;3.86e-22)		TAGCAAAGGTGAAAAGTTACC	0.388													26	77	---	---	---	---	PASS	A	89781457	A	A	89781457	3	1	62	1	0	0	0	0	1	0	0	0	12234	1291	45	2	75	2	POLR3G	5	89781457	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	9176643	89781457	91133803	153	24266										
KCNN2	3781	broad.mit.edu	37	chr5	113822800	113822800	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	acatggctaatttacaaaaaTacaaagctagtgaaaaagat	6	5	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:113822800T>A	uc003kqo.2	+	6	1765	c.1308T>A	c.(1306-1308)AAT>AAA	p.N436K	KCNN2_uc003kqp.2_Missense_Mutation_p.N88K|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	436	Calmodulin-binding (By similarity).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		TTTACAAAAATACAAAGCTAG	0.328													14	61	---	---	---	---	PASS	A	113822800	A	A	113822800	3	1	62	1	0	0	0	0	1	0	0	0	8079	1403	49	5	1330	5	KCNN2	5	113822800	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	24041343	113822800	67092460	154	24267										
ALDH7A1	501	broad.mit.edu	37	chr5	125930765	125930765	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcgcggagccccagctctttCagccacgcatactggggctg	12	15	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:125930765C>T	uc003ktx.2	-	1	318	c.126G>A	c.(124-126)CTG>CTA	p.L42L	ALDH7A1_uc003kty.2_RNA|ALDH7A1_uc011cxa.1_Silent_p.L69L|ALDH7A1_uc003ktz.2_Silent_p.L69L	NM_001182	NP_001173	P49419	AL7A1_HUMAN	aldehyde dehydrogenase 7 family, member A1	42					cellular aldehyde metabolic process|lysine catabolic process|sensory perception of sound	cytosol|mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity|betaine-aldehyde dehydrogenase activity|L-aminoadipate-semialdehyde dehydrogenase activity			kidney(2)|ovary(1)	3		all_cancers(142;0.24)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0417)|OV - Ovarian serous cystadenocarcinoma(64;0.068)|all cancers(49;0.109)	NADH(DB00157)|Pyridoxine(DB00165)	CCAGCTCTTTCAGCCACGCAT	0.612													4	9	---	---	---	---	PASS	T	125930765	T	T	125930765	2	4	62	1	0	0	0	0	0	0	0	1	504	813	29	2		2	ALDH7A1	5	125930765	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	12107965	125930765	54984495	155	24268										
FBN2	2201	broad.mit.edu	37	chr5	127638692	127638692	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atcattattatgagtgagttCaaaccctgggtagcacagac	9	8	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:127638692C>G	uc003kuu.2	-	46	6329	c.5890G>C	c.(5890-5892)GAA>CAA	p.E1964Q		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1964	EGF-like 32; calcium-binding.				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)		TGAGTGAGTTCAAACCCTGGG	0.378													25	110	---	---	---	---	PASS	G	127638692	G	G	127638692	3	3	62	1	0	0	0	0	1	0	0	0	5703	835	29	2	2928	2	FBN2	5	127638692	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1707927	127638692	53276568	156	24269										
IRF1	3659	broad.mit.edu	37	chr5	131822653	131822653	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agtccttggataccttttctCtggttcttggtgagaggtgg	13	7	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:131822653C>G	uc003kxa.2	-	4	591	c.357G>C	c.(355-357)CAG>CAC	p.Q119H	IRF1_uc003kxd.2_RNA|IRF1_uc003kxb.2_Missense_Mutation_p.Q119H|IRF1_uc010jdt.1_Missense_Mutation_p.Q119H	NM_002198	NP_002189	P10914	IRF1_HUMAN	interferon regulatory factor 1	119					blood coagulation|cellular response to mechanical stimulus|interferon-gamma-mediated signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleoplasm					0		all_cancers(142;0.026)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	LUAD - Lung adenocarcinoma(142;0.247)		TACCTTTTCTCTGGTTCTTGG	0.582													38	120	---	---	---	---	PASS	G	131822653	G	G	131822653	3	3	62	1	0	0	0	0	1	0	0	0	7827	912	32	2	648	2	IRF1	5	131822653	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	4183961	131822653	49092607	157	24270										
PPP2CA	5515	broad.mit.edu	37	chr5	133534875	133534875	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaaatcgttactacattccgGtcatggcaccagttatatcc	6	11	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:133534875G>A	uc003kze.2	-	6	1157	c.759C>T	c.(757-759)GAC>GAT	p.D253D		NM_002715	NP_002706	P67775	PP2AA_HUMAN	protein phosphatase 2, catalytic subunit, alpha	253					ceramide metabolic process|inactivation of MAPK activity|induction of apoptosis|meiosis|negative regulation of cell growth|negative regulation of epithelial to mesenchymal transition|negative regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of protein serine/threonine kinase activity|protein dephosphorylation|regulation of cell adhesion|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction|spindle pole	metal ion binding|phosphoprotein phosphatase activity			ovary(2)|lung(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Vitamin E(DB00163)	CTACATTCCGGTCATGGCACC	0.368													20	50	---	---	---	---	PASS	A	133534875	A	A	133534875	2	1	62	1	0	0	0	0	0	0	0	1	12380	1252	44	3		3	PPP2CA	5	133534875	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	1712222	133534875	47380385	158	24271										
TGFBI	7045	broad.mit.edu	37	chr5	135388806	135388806	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgagctactcatcccagactCaggtaggccaggcctccggg	12	14	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:135388806C>G	uc003lbf.3	+	8	1285	c.1124C>G	c.(1123-1125)TCA>TGA	p.S375*	TGFBI_uc003lbg.3_Nonsense_Mutation_p.S108*|TGFBI_uc003lbh.3_Nonsense_Mutation_p.S201*|TGFBI_uc011cyb.1_Nonsense_Mutation_p.S201*|TGFBI_uc010jed.2_Nonsense_Mutation_p.S108*	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	375	FAS1 3.				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)			ATCCCAGACTCAGGTAGGCCA	0.567													6	29	---	---	---	---	PASS	G	135388806	G	G	135388806	4	3	62	1	0	0	0	0	0	1	0	0	15817	838	29	2	1154	2	TGFBI	5	135388806	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1853931	135388806	45526454	159	24272										
SPOCK1	6695	broad.mit.edu	37	chr5	136328224	136328224	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gatgactctgttcgcatcctCgtggagagctccaaaccaat	9	12	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:136328224C>T	uc003lbo.2	-	6	846	c.655G>A	c.(655-657)GAG>AAG	p.E219K	SPOCK1_uc003lbp.2_Missense_Mutation_p.E219K	NM_004598	NP_004589	Q08629	TICN1_HUMAN	sparc/osteonectin, cwcv and kazal-like domains	219					cell adhesion|cell proliferation|cellular component movement|nervous system development|signal transduction	proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TTCGCATCCTCGTGGAGAGCT	0.478													23	63	---	---	---	---	PASS	T	136328224	T	T	136328224	3	4	62	1	0	0	0	0	1	0	0	0	15078	893	31	2	684	2	SPOCK1	5	136328224	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	939418	136328224	44587036	160	24273										
UBE2D2	7322	broad.mit.edu	37	chr5	138994186	138994186	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttcagtgttccattggcaagCtacaataatggggccagtaa	10	8	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:138994186C>T	uc003ler.2	+	3	730	c.104C>T	c.(103-105)GCT>GTT	p.A35V	UBE2D2_uc003leq.2_Missense_Mutation_p.A6V	NM_003339	NP_003330	P62837	UB2D2_HUMAN	ubiquitin-conjugating enzyme E2D 2 isoform 1	35					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process		ATP binding|protein binding|ubiquitin-protein ligase activity			central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CATTGGCAAGCTACAATAATG	0.313													18	80	---	---	---	---	PASS	T	138994186	T	T	138994186	3	4	62	1	0	0	0	0	1	0	0	0	16846	797	28	3	114	3	UBE2D2	5	138994186	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2665962	138994186	41921074	161	24274										
PCDHGB6	56100	broad.mit.edu	37	chr5	140788511	140788511	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttttcagcagagacgaatatAgaattagtcttagtgaaaat	8	4	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:140788511A>T	uc003lkj.1	+	1	742	c.742A>T	c.(742-744)AGA>TGA	p.R248*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Nonsense_Mutation_p.R248*	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	248	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGACGAATATAGAATTAGTCT	0.493													4	20	---	---	---	---	PASS	T	140788511	T	T	140788511	4	4	62	1	0	0	0	0	0	1	0	0	11567	412	15	5	744	5	PCDHGB6	5	140788511	Nonsense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	1794325	140788511	40126749	162	24275										
DIAPH1	1729	broad.mit.edu	37	chr5	140958124	140958124	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaacgcatcagttcacttctGatgtgaactcggaagtcaag	9	9	4	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:140958124G>A	uc003llb.3	-	10	1143	c.1002C>T	c.(1000-1002)ATC>ATT	p.I334I	DIAPH1_uc003llc.3_Silent_p.I325I	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	334	GBD/FH3.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTCACTTCTGATGTGAACTC	0.448													36	118	---	---	---	---	PASS	A	140958124	A	A	140958124	2	1	62	1	0	0	0	0	0	0	0	1	4518	1280	45	2		2	DIAPH1	5	140958124	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	169613	140958124	39957136	163	24276										
JAKMIP2	9832	broad.mit.edu	37	chr5	147051264	147051264	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggacttctcttgatgcagctCtatctgaatgtctgtgagct	10	9	4	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:147051264C>G	uc003loq.1	-	2	488	c.106G>C	c.(106-108)GAG>CAG	p.E36Q	JAKMIP2_uc011dbx.1_Intron|JAKMIP2_uc003lor.1_Missense_Mutation_p.E36Q|JAKMIP2_uc010jgo.1_Missense_Mutation_p.E36Q	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	36	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGATGCAGCTCTATCTGAATG	0.547													14	32	---	---	---	---	PASS	G	147051264	G	G	147051264	3	3	62	1	0	0	0	0	1	0	0	0	7941	922	32	2	2406	2	JAKMIP2	5	147051264	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	6093140	147051264	33863996	164	24277										
SLC36A2	153201	broad.mit.edu	37	chr5	150726878	150726878	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gttatgcccttggtcttcttCaagcctgctgactctgaagg	10	11	4	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:150726878C>T	uc003lty.2	-	1	274	c.144G>A	c.(142-144)TTG>TTA	p.L48L	GM2A_uc011dcs.1_Intron|SLC36A2_uc003ltz.2_RNA|SLC36A2_uc003lua.2_5'UTR|SLC36A2_uc010jhv.2_Silent_p.L48L|SLC36A2_uc011dct.1_Silent_p.L48L	NM_181776	NP_861441	Q495M3	S36A2_HUMAN	solute carrier family 36, member 2	48	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	cytoplasm|integral to membrane|plasma membrane	glycine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGGTCTTCTTCAAGCCTGCTG	0.473													42	154	---	---	---	---	PASS	T	150726878	T	T	150726878	2	4	62	1	0	0	0	0	0	0	0	1	14594	825	29	2		2	SLC36A2	5	150726878	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	3675614	150726878	30188382	165	24278										
FAT2	2196	broad.mit.edu	37	chr5	150907667	150907667	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ataggtaatgtcactatttaGgggtccatcttcatcagtcg	9	8	4	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:150907667G>T	uc003lue.3	-	15	10067	c.10054C>A	c.(10054-10056)CTA>ATA	p.L3352I	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.L45I	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3352	Cadherin 30.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCACTATTTAGGGGTCCATCT	0.542													17	86	---	---	---	---	PASS	T	150907667	T	T	150907667	3	4	62	1	0	0	0	0	1	0	0	0	5690	991	35	3	3031	3	FAT2	5	150907667	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	180789	150907667	30007593	166	24279										
IL12B	3593	broad.mit.edu	37	chr5	158747368	158747368	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttcatacttgagcttgtgaaCggcatccaccatgacctcaa	7	12	2	3	rs79446920	by1000genomes	TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:158747368C>A	uc003lxr.1	-	5	685	c.643G>T	c.(643-645)GTT>TTT	p.V215F		NM_002187	NP_002178	P29460	IL12B_HUMAN	interleukin 12B precursor	215					cell cycle arrest|cell migration|defense response to Gram-negative bacterium|interferon-gamma biosynthetic process|natural killer cell activation|negative regulation of interleukin-10 production|negative regulation of interleukin-17 production|negative regulation of smooth muscle cell proliferation|positive regulation of activated T cell proliferation|positive regulation of activation of JAK2 kinase activity|positive regulation of cell adhesion|positive regulation of defense response to virus by host|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-17 production|positive regulation of memory T cell differentiation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|positive regulation of natural killer cell proliferation|positive regulation of NF-kappaB import into nucleus|positive regulation of NK T cell activation|positive regulation of NK T cell proliferation|positive regulation of osteoclast differentiation|positive regulation of smooth muscle cell apoptosis|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat4 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|regulation of tyrosine phosphorylation of Stat1 protein|response to UV-B|sexual reproduction|T-helper 1 type immune response|T-helper cell differentiation	interleukin-12 complex|interleukin-23 complex|membrane	cytokine activity|cytokine receptor activity|interleukin-12 receptor binding|protein heterodimerization activity				0	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)			AGCTTGTGAACGGCATCCACC	0.473													25	102	---	---	---	---	PASS	A	158747368	A	A	158747368	3	1	62	1	0	0	0	0	1	0	0	0	7625	536	19	1	355	1	IL12B	5	158747368	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	7839701	158747368	22167892	167	24280										
C5orf41	153222	broad.mit.edu	37	chr5	172513617	172513617	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aacagttcggatccagatttCatgtatgaactggtaagcaa	9	7	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:172513617C>T	uc003mch.2	+	3	427	c.123C>T	c.(121-123)TTC>TTT	p.F41F	C5orf41_uc003mcg.2_Silent_p.F41F|C5orf41_uc003mcf.2_Silent_p.F41F|C5orf41_uc011dfd.1_Silent_p.F41F	NM_153607	NP_705835	Q8IUR6	CE041_HUMAN	luman-recruiting factor	41							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			ATCCAGATTTCATGTATGAAC	0.403													25	96	---	---	---	---	PASS	T	172513617	T	T	172513617	2	4	62	1	0	0	0	0	0	0	0	1	2300	825	29	2		2	C5orf41	5	172513617	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	13766249	172513617	8401643	168	24281										
DDX41	51428	broad.mit.edu	37	chr5	176943821	176943821	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcttcctccggcaggcacctCgtcggtgcgagcccgctgca	13	17	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:176943821C>A	uc003mho.2	-	2	64	c.43G>T	c.(43-45)GAG>TAG	p.E15*	DDX41_uc003mhm.2_5'Flank|DDX41_uc003mhn.2_5'UTR|DDX41_uc003mhp.2_5'UTR|DDX41_uc003mhq.1_5'UTR	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	15					apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			GCAGGCACCTCGTCGGTGCGA	0.687													9	25	---	---	---	---	PASS	A	176943821	A	A	176943821	4	1	62	1	0	0	0	0	0	1	0	0	4361	893	31	2	1889	2	DDX41	5	176943821	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	4430204	176943821	3971439	169	24282										
MGAT1	4245	broad.mit.edu	37	chr5	180219415	180219415	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcgcccagcggtagtggcgcGcgatcttgtagtagccctgg	16	12	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr5:180219415G>A	uc003mmg.3	-	2	1052	c.557C>T	c.(556-558)GCG>GTG	p.A186V	MGAT1_uc010jlf.2_Missense_Mutation_p.A186V|MGAT1_uc010jlg.2_Missense_Mutation_p.A186V|MGAT1_uc003mmh.3_Missense_Mutation_p.A186V|MGAT1_uc010jlh.2_Missense_Mutation_p.A186V|MGAT1_uc003mmi.3_Missense_Mutation_p.A186V	NM_002406	NP_002397	P26572	MGAT1_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	186	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(1)	1	all_cancers(89;1.11e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.0027)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00356)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTAGTGGCGCGCGATCTTGTA	0.687													20	46	---	---	---	---	PASS	A	180219415	A	A	180219415	3	1	62	1	0	0	0	0	1	0	0	0	9542	1087	38	1	784	1	MGAT1	5	180219415	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3275594	180219415	695845	170	24283										
IRF4	3662	broad.mit.edu	37	chr6	401436	401436	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtttgcagactgccggctgcAcatctgcctgtactaccggg	12	13	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:401436A>C	uc003msz.3	+	7	871	c.758A>C	c.(757-759)CAC>CCC	p.H253P	IRF4_uc010jne.1_Missense_Mutation_p.H253P|IRF4_uc003mta.3_RNA|IRF4_uc003mtb.3_Missense_Mutation_p.H252P|IRF4_uc003mtc.1_Missense_Mutation_p.H83P	NM_002460	NP_002451	Q15306	IRF4_HUMAN	interferon regulatory factor 4	253					interferon-gamma-mediated signaling pathway|positive regulation of interleukin-10 biosynthetic process|positive regulation of interleukin-13 biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of transcription, DNA-dependent|regulation of T-helper cell differentiation|T cell activation|type I interferon-mediated signaling pathway	cytoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1		Breast(5;0.0155)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.03)|BRCA - Breast invasive adenocarcinoma(62;0.0702)		TGCCGGCTGCACATCTGCCTG	0.607			T	IGH@	MM 								13	27	---	---	---	---	PASS	C	401436	C	C	401436	3	2	62	1	0	0	0	0	1	0	0	0	7832	159	6	5	780	5	IRF4	6	401436	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08		401436	170713631	171	24284										
ERVFRDE1	405754	broad.mit.edu	37	chr6	11105243	11105243	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aggtttctggcggatatcagGgaaatcttgctttactgttg	12	6	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:11105243G>T	uc003mzt.2	-	2	671	c.301C>A	c.(301-303)CCT>ACT	p.P101T	LOC221710_uc003mzr.2_Intron|LOC221710_uc011dio.1_Intron	NM_207582	NP_997465	P60508	EFRD1_HUMAN	syncytin 2	101	Extracellular (Potential).					integral to membrane|plasma membrane|virion					0						CGGATATCAGGGAAATCTTGC	0.418													26	135	---	---	---	---	PASS	T	11105243	T	T	11105243	3	4	62	1	0	0	0	0	1	0	0	0	5246	1232	43	3	1319	3	ERVFRDE1	6	11105243	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	10703807	11105243	160009824	172	24285										
NEDD9	4739	broad.mit.edu	37	chr6	11185539	11185539	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gttgccatgactatggtcttGagctgctcgcagagctggtt	13	9	1	3	rs145403433		TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:11185539G>C	uc003mzv.2	-	7	2528	c.2361C>G	c.(2359-2361)CTC>CTG	p.L787L	NEDD9_uc010joz.2_Silent_p.L787L|NEDD9_uc003mzw.3_Silent_p.L641L	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	787					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			CTATGGTCTTGAGCTGCTCGC	0.542													64	120	---	---	---	---	PASS	C	11185539	C	C	11185539	2	2	62	1	0	0	0	0	0	0	0	1	10313	1277	45	2		2	NEDD9	6	11185539	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	80296	11185539	159929528	173	24286										
HIVEP1	3096	broad.mit.edu	37	chr6	12124483	12124483	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcaaatactttgcactctcaGactcaggttaaggatctgca	8	10	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:12124483G>A	uc003nac.2	+	4	4634	c.4455G>A	c.(4453-4455)CAG>CAA	p.Q1485Q	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1485					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				TGCACTCTCAGACTCAGGTTA	0.423													12	78	---	---	---	---	PASS	A	12124483	A	A	12124483	2	1	62	1	0	0	0	0	0	0	0	1	7186	933	33	2		2	HIVEP1	6	12124483	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	938944	12124483	158990584	174	24287										
HIST1H2BF	8343	broad.mit.edu	37	chr6	26199929	26199929	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cgtgtacaaggtgctaaagcAggtccaccccgacaccggca	11	14	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:26199929A>T	uc003ngx.2	+	1	143	c.143A>T	c.(142-144)CAG>CTG	p.Q48L	HIST1H3D_uc003ngv.2_5'Flank|HIST1H2AD_uc003ngw.2_5'Flank	NM_003522	NP_003513	P62807	H2B1C_HUMAN	histone cluster 1, H2bf	48					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0		all_hematologic(11;0.196)				GTGCTAAAGCAGGTCCACCCC	0.567													46	257	---	---	---	---	PASS	T	26199929	T	T	26199929	3	4	62	1	0	0	0	0	1	0	0	0	7145	188	7	5	145	5	HIST1H2BF	6	26199929	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	14075446	26199929	144915138	175	24288										
AGPAT1	10554	broad.mit.edu	37	chr6	32138256	32138256	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atgacactgatggcatccccCgtgcgcttccggtcgatgaa	11	13	0	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:32138256C>T	uc003oae.2	-	4	774	c.456G>A	c.(454-456)ACG>ACA	p.T152T	PPT2_uc003nzy.1_RNA|AGPAT1_uc011dpj.1_RNA|AGPAT1_uc011dpk.1_Silent_p.T116T|AGPAT1_uc003oaf.2_Silent_p.T152T|AGPAT1_uc003oag.2_Intron|AGPAT1_uc003oah.2_Silent_p.T152T|AGPAT1_uc003oai.1_Silent_p.T152T|AGPAT1_uc011dpl.1_Silent_p.T40T	NM_006411	NP_006402	Q99943	PLCA_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 1	152					energy reserve metabolic process|phosphatidic acid biosynthetic process|positive regulation of cellular metabolic process|positive regulation of cytokine production|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			central_nervous_system(1)	1						TGGCATCCCCCGTGCGCTTCC	0.627													36	65	---	---	---	---	PASS	T	32138256	T	T	32138256	2	4	62	1	0	0	0	0	0	0	0	1	386	639	23	1		1	AGPAT1	6	32138256	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	5938327	32138256	138976811	176	24289										
UHRF1BP1	54887	broad.mit.edu	37	chr6	34835144	34835144	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcacccagtggagaagacctCatctttcacccggtcagcag	9	14	5	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:34835144C>T	uc003oju.3	+	16	3789	c.3555C>T	c.(3553-3555)CTC>CTT	p.L1185L	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	1185										ovary(3)	3						GAGAAGACCTCATCTTTCACC	0.493													24	138	---	---	---	---	PASS	T	34835144	T	T	34835144	2	4	62	1	0	0	0	0	0	0	0	1	16965	813	29	2		2	UHRF1BP1	6	34835144	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	2696888	34835144	136279923	177	24290										
PNPLA1	285848	broad.mit.edu	37	chr6	36260877	36260877	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcgtcccggtgtactgtggcCtcatccccccgacttaccgc	9	18	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:36260877C>T	uc010jwf.2	+	3	478	c.478C>T	c.(478-480)CTC>TTC	p.L160F	PNPLA1_uc003olw.1_Missense_Mutation_p.L65F|PNPLA1_uc010jwe.1_Missense_Mutation_p.L65F	NM_001145717	NP_001139189	Q8N8W4	PLPL1_HUMAN	patatin-like phospholipase domain containing 1	160	Patatin.				lipid catabolic process		hydrolase activity			large_intestine(1)|pancreas(1)|breast(1)|skin(1)	4						GTACTGTGGCCTCATCCCCCC	0.652													57	80	---	---	---	---	PASS	T	36260877	T	T	36260877	3	4	62	1	0	0	0	0	1	0	0	0	12164	681	24	3	488	3	PNPLA1	6	36260877	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1425733	36260877	134854190	178	24291										
DNAH8	1769	broad.mit.edu	37	chr6	38813505	38813505	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcgggagaaattatcactttGatggaggatagtttaatggt	12	3	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:38813505G>C	uc003ooe.1	+	34	4950	c.4350G>C	c.(4348-4350)TTG>TTC	p.L1450F		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTATCACTTTGATGGAGGATA	0.363													34	62	---	---	---	---	PASS	C	38813505	C	C	38813505	3	2	62	1	0	0	0	0	1	0	0	0	4607	1281	45	2	4476	2	DNAH8	6	38813505	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2552628	38813505	132301562	179	24292										
FOXP4	116113	broad.mit.edu	37	chr6	41545800	41545800	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agggaacaatgacagcaaacAgtctgcctctgctgtgcagg	12	10	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:41545800A>T	uc003oql.2	+	3	739	c.281A>T	c.(280-282)CAG>CTG	p.Q94L	FOXP4_uc003oqm.2_Missense_Mutation_p.Q94L|FOXP4_uc003oqn.2_Missense_Mutation_p.Q94L	NM_001012426	NP_001012426	Q8IVH2	FOXP4_HUMAN	forkhead box P4 isoform 1	94	Gln-rich.				embryonic foregut morphogenesis|heart development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|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			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					GACAGCAAACAGTCTGCCTCT	0.642													10	18	---	---	---	---	PASS	T	41545800	T	T	41545800	3	4	62	1	0	0	0	0	1	0	0	0	6029	188	7	5	287	5	FOXP4	6	41545800	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	2732295	41545800	129569267	180	24293										
PTK7	5754	broad.mit.edu	37	chr6	43114398	43114398	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggatttccaagagcaaggatGaaaaattgaagtcacagccc	10	8	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:43114398G>A	uc003oub.1	+	17	2881	c.2683G>A	c.(2683-2685)GAA>AAA	p.E895K	PTK7_uc003ouc.1_Missense_Mutation_p.E839K|PTK7_uc003oud.1_Missense_Mutation_p.E855K|PTK7_uc003oue.1_Missense_Mutation_p.E765K|PTK7_uc003ouf.1_RNA|PTK7_uc003oug.1_RNA|PTK7_uc011dve.1_Missense_Mutation_p.E903K|PTK7_uc010jyj.1_Missense_Mutation_p.E221K	NM_002821	NP_002812	Q13308	PTK7_HUMAN	PTK7 protein tyrosine kinase 7 isoform a	895	Cytoplasmic (Potential).|Protein kinase; inactive.|Interaction with CTNNB1.				actin cytoskeleton reorganization|canonical Wnt receptor signaling pathway|cell adhesion|cell migration	cell-cell junction|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			ovary(2)|large_intestine(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00784)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			GAGCAAGGATGAAAAATTGAA	0.552													16	85	---	---	---	---	PASS	A	43114398	A	A	43114398	3	1	62	1	0	0	0	0	1	0	0	0	12765	1291	45	2	2749	2	PTK7	6	43114398	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1568598	43114398	128000669	181	24294										
PKHD1	5314	broad.mit.edu	37	chr6	51889423	51889423	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcttgaggtgaacaccagggCagatgaggcccaccctctga	12	12	2	5			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:51889423C>A	uc003pah.1	-	32	5461	c.5185G>T	c.(5185-5187)GCC>TCC	p.A1729S	PKHD1_uc003pai.2_Missense_Mutation_p.A1729S	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1729	IPT/TIG 12; atypical.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AACACCAGGGCAGATGAGGCC	0.502													54	115	---	---	---	---	PASS	A	51889423	A	A	51889423	3	1	62	1	0	0	0	0	1	0	0	0	11971	710	25	3	7222	3	PKHD1	6	51889423	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	8775025	51889423	119225644	182	24295										
C6orf142	90523	broad.mit.edu	37	chr6	54025350	54025350	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agctcaggcagcaaactgaaGagctctgtgctaccattgat	10	10	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:54025350G>T	uc003pcg.3	+	6	900	c.787G>T	c.(787-789)GAG>TAG	p.E263*	C6orf142_uc003pcf.2_Nonsense_Mutation_p.E787*|C6orf142_uc003pch.3_Intron|C6orf142_uc011dxa.1_Nonsense_Mutation_p.E798*	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523	263						nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					GCAAACTGAAGAGCTCTGTGC	0.408													14	55	---	---	---	---	PASS	T	54025350	T	T	54025350	4	4	62	1	0	0	0	0	0	1	0	0	2333	943	33	2	809	2	C6orf142	6	54025350	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2135927	54025350	117089717	183	24296										
DST	667	broad.mit.edu	37	chr6	56374593	56374593	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cttgatcttctcaacctctgCagagatagagggtggctgcc	11	11	3	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:56374593C>A	uc003pdf.2	-	68	12530	c.12502G>T	c.(12502-12504)GCA>TCA	p.A4168S	DST_uc003pcz.3_Missense_Mutation_p.A3990S|DST_uc011dxj.1_Missense_Mutation_p.A4019S|DST_uc011dxk.1_Missense_Mutation_p.A4030S|DST_uc003pcy.3_Missense_Mutation_p.A3664S	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6076	Spectrin 12.				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)			TCAACCTCTGCAGAGATAGAG	0.458													30	46	---	---	---	---	PASS	A	56374593	A	A	56374593	3	1	62	1	0	0	0	0	1	0	0	0	4783	710	25	3	4645	3	DST	6	56374593	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2349243	56374593	114740474	184	24297										
DST	667	broad.mit.edu	37	chr6	56382353	56382353	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgctcaagcctgatgtcaccCagagacatcaattttttttc	6	11	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:56382353C>A	uc003pdf.2	-	64	11866	c.11838G>T	c.(11836-11838)CTG>CTT	p.L3946L	DST_uc003pcz.3_Silent_p.L3768L|DST_uc011dxj.1_Silent_p.L3797L|DST_uc011dxk.1_Silent_p.L3808L|DST_uc003pcy.3_Silent_p.L3442L	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5854	Spectrin 10.				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)			TGATGTCACCCAGAGACATCA	0.383													5	35	---	---	---	---	PASS	A	56382353	A	A	56382353	2	1	62	1	0	0	0	0	0	0	0	1	4783	581	21	3		3	DST	6	56382353	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	7760	56382353	114732714	185	24298										
PHIP	55023	broad.mit.edu	37	chr6	79650830	79650830	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gaaggaagtacttcatctctGatgggatgcacattattttg	10	6	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:79650830G>C	uc003pir.2	-	40	5272	c.5046C>G	c.(5044-5046)ATC>ATG	p.I1682M	PHIP_uc003piq.2_Missense_Mutation_p.I706M|PHIP_uc011dyp.1_Missense_Mutation_p.I1681M|IRAK1BP1_uc010kbg.1_Intron|PHIP_uc003pio.3_Missense_Mutation_p.I568M	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1682					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)		CTTCATCTCTGATGGGATGCA	0.363													23	134	---	---	---	---	PASS	C	79650830	C	C	79650830	3	2	62	1	0	0	0	0	1	0	0	0	11842	1280	45	2	423	2	PHIP	6	79650830	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	23268477	79650830	91464237	186	24299										
UBE2CBP	90025	broad.mit.edu	37	chr6	83732255	83732255	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gagctgcaccagacactgggCgatcacgctctggacaaacc	11	14	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:83732255C>T	uc003pjp.2	-	7	871	c.763G>A	c.(763-765)GCC>ACC	p.A255T	UBE2CBP_uc011dyx.1_RNA|UBE2CBP_uc003pjq.2_Missense_Mutation_p.A45T	NM_198920	NP_944602	Q7Z6J8	UB2CB_HUMAN	ubiquitin-conjugating enzyme E2C binding	255	Interaction with UBE2C.					cytoplasm	ligase activity			ovary(1)	1		all_cancers(76;0.000374)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0548)		BRCA - Breast invasive adenocarcinoma(397;0.0944)		AGACACTGGGCGATCACGCTC	0.373													6	31	---	---	---	---	PASS	T	83732255	T	T	83732255	3	4	62	1	0	0	0	0	1	0	0	0	16844	768	27	1	422	1	UBE2CBP	6	83732255	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	4081425	83732255	87382812	187	24300										
REV3L	5980	broad.mit.edu	37	chr6	111634624	111634624	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcatcaaatactgggtccttCtgatccagtgtttcatacat	7	10	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:111634624C>T	uc003puy.3	-	28	8858	c.8535G>A	c.(8533-8535)CAG>CAA	p.Q2845Q	REV3L_uc003pux.3_Silent_p.Q2767Q|REV3L_uc003puz.3_Silent_p.Q2767Q|REV3L_uc003pva.1_RNA	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2845					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		CTGGGTCCTTCTGATCCAGTG	0.358								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					18	53	---	---	---	---	PASS	T	111634624	T	T	111634624	2	4	62	1	0	0	0	0	0	0	0	1	13240	912	32	2		2	REV3L	6	111634624	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	27902369	111634624	59480443	188	24301										
LAMA4	3910	broad.mit.edu	37	chr6	112452258	112452258	+	Missense_Mutation	SNP	C	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aactttgattccctttacatCcatgatgacagtaccattat							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:112452258C>A	uc003pvu.2	-	29	4189	c.3880G>T	c.(3880-3882)GAT>TAT	p.D1294Y	LAMA4_uc003pvv.2_Missense_Mutation_p.D1287Y|LAMA4_uc003pvt.2_Missense_Mutation_p.D1287Y	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1294	Laminin G-like 3.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CCCTTTACATCCATGATGACA	0.458													30	62	---	---	---	---	PASS	A	112452258	A	A	112452258	3	1	62	1	0	0	0	0	1	0	0	0	8608	855	30	2	1635	2	LAMA4	6	112452258	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	817634	112452258	58662809	189	24302	525	2								
LAMA4	3910	broad.mit.edu	37	chr6	112452259	112452259	+	Missense_Mutation	SNP	C	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	actttgattccctttacatcCatgatgacagtaccattatc							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:112452259C>A	uc003pvu.2	-	29	4188	c.3879G>T	c.(3877-3879)ATG>ATT	p.M1293I	LAMA4_uc003pvv.2_Missense_Mutation_p.M1286I|LAMA4_uc003pvt.2_Missense_Mutation_p.M1286I	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1293	Laminin G-like 3.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding	p.M1286I(1)		ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CCTTTACATCCATGATGACAG	0.453													30	63	---	---	---	---	PASS	A	112452259	A	A	112452259	3	1	62	1	0	0	0	0	1	0	0	0	8608	594	21	3	1636	3	LAMA4	6	112452259	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1	112452259	58662808	190	24303	525	2								
PKIB	5570	broad.mit.edu	37	chr6	123046281	123046281	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tttttttttcagatgcaaaaGagaaagatgaaaaaacaaca	6	4	1	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:123046281G>C	uc003pyz.2	+	7	639	c.178G>C	c.(178-180)GAG>CAG	p.E60Q	PKIB_uc003pza.2_Missense_Mutation_p.E60Q|PKIB_uc003pzb.2_Missense_Mutation_p.E60Q|PKIB_uc003pzc.2_Missense_Mutation_p.E67Q|PKIB_uc011ebq.1_Missense_Mutation_p.E60Q	NM_181794	NP_861459	Q9C010	IPKB_HUMAN	cAMP-dependent protein kinase inhibitor beta	60							cAMP-dependent protein kinase inhibitor activity				0				GBM - Glioblastoma multiforme(226;0.164)		AGATGCAAAAGAGAAAGATGA	0.299													9	31	---	---	---	---	PASS	C	123046281	C	C	123046281	3	2	62	1	0	0	0	0	1	0	0	0	11974	943	33	2	184	2	PKIB	6	123046281	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	10594022	123046281	48068786	191	24304										
TMEM200A	114801	broad.mit.edu	37	chr6	130762297	130762297	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agagttctgggcatcttatgCcccctttgctctctgacagc	9	13	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:130762297C>A	uc003qca.2	+	3	1601	c.730C>A	c.(730-732)CCC>ACC	p.P244T	TMEM200A_uc010kfh.2_Missense_Mutation_p.P244T|TMEM200A_uc010kfi.2_Missense_Mutation_p.P244T|TMEM200A_uc003qcb.2_Missense_Mutation_p.P244T	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	244	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		GCATCTTATGCCCCCTTTGCT	0.483													32	55	---	---	---	---	PASS	A	130762297	A	A	130762297	3	1	62	1	0	0	0	0	1	0	0	0	16120	739	26	3	732	3	TMEM200A	6	130762297	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	7716016	130762297	40352770	192	24305										
PLEKHG1	57480	broad.mit.edu	37	chr6	151121854	151121854	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaacatggactcttcctgcaGgtccgtggctgtgctaacag	11	11	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:151121854G>A	uc003qny.1	+	7	942	c.630_splice	c.e7-1	p.R210_splice	PLEKHG1_uc011eel.1_Splice_Site_p.R250_splice|PLEKHG1_uc011eem.1_Splice_Site_p.R269_splice|PLEKHG1_uc003qnz.2_Splice_Site_p.R210_splice	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G						regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		TCTTCCTGCAGGTCCGTGGCT	0.433													22	63	---	---	---	---	PASS	A	151121854	A	A	151121854	5	1	62	1	0	0	0	0	0	0	1	0	12068	1014	35	3	647	3	PLEKHG1	6	151121854	Splice_Site	SNP	G	TCGA-33-6737-01A-11D-1817-08	20359557	151121854	19993213	193	24306										
MTRF1L	54516	broad.mit.edu	37	chr6	153311084	153311084	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcataatcggcgtattccttCaatgactgtacaagttcatc	6	10	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:153311084C>T	uc003qpi.3	-	7	1194	c.1089G>A	c.(1087-1089)TTG>TTA	p.L363L	MTRF1L_uc003qpl.3_3'UTR|MTRF1L_uc011efa.1_Silent_p.L327L|MTRF1L_uc003qpj.3_Silent_p.L221L|MTRF1L_uc003qpk.3_3'UTR	NM_019041	NP_061914	Q9UGC7	RF1ML_HUMAN	mitochondrial translational release factor	363						mitochondrion	translation release factor activity, codon specific				0		Ovarian(120;0.125)		OV - Ovarian serous cystadenocarcinoma(155;4.24e-10)|BRCA - Breast invasive adenocarcinoma(81;0.0888)		CGTATTCCTTCAATGACTGTA	0.333													33	133	---	---	---	---	PASS	T	153311084	T	T	153311084	2	4	62	1	0	0	0	0	0	0	0	1	9960	825	29	2		2	MTRF1L	6	153311084	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	2189230	153311084	17803983	194	24307										
MAS1	4142	broad.mit.edu	37	chr6	160328255	160328255	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtattttcatcttgtctatcGactatgctttagattatgag	7	6	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:160328255G>T	uc003qsz.2	+	1	282	c.268G>T	c.(268-270)GAC>TAC	p.D90Y		NM_002377	NP_002368	P04201	MAS_HUMAN	MAS1 oncogene	90	Extracellular (Potential).				anatomical structure morphogenesis|cell proliferation|protein kinase C signaling cascade	integral to plasma membrane	angiotensin type II receptor activity			ovary(2)|lung(2)	4		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.44e-18)|BRCA - Breast invasive adenocarcinoma(81;5.6e-06)		CTTGTCTATCGACTATGCTTT	0.433													44	159	---	---	---	---	PASS	T	160328255	T	T	160328255	3	4	62	1	0	0	0	0	1	0	0	0	9320	1058	37	2	270	2	MAS1	6	160328255	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	7017171	160328255	10786812	195	24308										
QKI	9444	broad.mit.edu	37	chr6	163899889	163899889	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcagaaaccggatgtaaaatCatggtccgaggcaaaggctc	12	9	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:163899889C>T	uc003qui.2	+	3	914	c.363C>T	c.(361-363)ATC>ATT	p.I121I	QKI_uc003que.2_Silent_p.I121I|QKI_uc003quf.2_Silent_p.I121I|QKI_uc003qug.2_Silent_p.I121I|QKI_uc003quh.2_Silent_p.I121I|QKI_uc003quj.2_Silent_p.I121I	NM_006775	NP_006766	Q96PU8	QKI_HUMAN	quaking homolog, KH domain RNA binding isoform	121	KH.				mRNA processing|mRNA transport|regulation of translation|RNA splicing	cytoplasm|nucleus|plasma membrane	RNA binding|SH3 domain binding			large_intestine(1)|ovary(1)	2		Breast(66;5e-05)|Prostate(117;0.0235)|all_neural(5;0.0416)|Ovarian(120;0.0448)|Glioma(2;0.203)		all cancers(1;4.4e-46)|OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|GBM - Glioblastoma multiforme(1;2.94e-19)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|Kidney(3;0.000199)|KIRC - Kidney renal clear cell carcinoma(3;0.000234)		GATGTAAAATCATGGTCCGAG	0.363													24	92	---	---	---	---	PASS	T	163899889	T	T	163899889	2	4	62	1	0	0	0	0	0	0	0	1	12873	816	29	2		2	QKI	6	163899889	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	3571634	163899889	7215178	196	24309										
C6orf118	168090	broad.mit.edu	37	chr6	165715275	165715275	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	acagcaccttcaagtcgggcAgccggagttcttccctcctg	10	15	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:165715275A>T	uc003qum.3	-	2	572	c.536T>A	c.(535-537)CTG>CAG	p.L179Q	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	179											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		CAAGTCGGGCAGCCGGAGTTC	0.642													6	41	---	---	---	---	PASS	T	165715275	T	T	165715275	3	4	62	1	0	0	0	0	1	0	0	0	2323	188	7	5	905	5	C6orf118	6	165715275	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	1815386	165715275	5399792	197	24310										
TTLL2	83887	broad.mit.edu	37	chr6	167753644	167753644	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cttcaggggccctcttgaagCcgctggtttttcgcgttgac	12	12	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:167753644C>A	uc003qvs.1	+	3	344	c.256C>A	c.(256-258)CCG>ACG	p.P86T	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	86	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CCTCTTGAAGCCGCTGGTTTT	0.507													17	53	---	---	---	---	PASS	A	167753644	A	A	167753644	3	1	62	1	0	0	0	0	1	0	0	0	16724	739	26	3	266	3	TTLL2	6	167753644	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2038369	167753644	3361423	198	24311										
DLL1	28514	broad.mit.edu	37	chr6	170594017	170594017	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcccccttaccattagaacaGggtgaagagctgcagtagtc	11	11	0	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr6:170594017G>T	uc003qxm.2	-	8	1709	c.1239C>A	c.(1237-1239)CCC>CCA	p.P413P		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	413	Extracellular (Potential).|EGF-like 6.				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		CATTAGAACAGGGTGAAGAGC	0.547													13	47	---	---	---	---	PASS	T	170594017	T	T	170594017	2	4	62	1	0	0	0	0	0	0	0	1	4566	987	35	3		3	DLL1	6	170594017	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	2840373	170594017	521050	199	24312										
CARD11	84433	broad.mit.edu	37	chr7	2946460	2946460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gaactcctcctccgtctcagGtcggggcagcagctttctgg	12	14	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:2946460G>T	uc003smv.2	-	25	3681	c.3277C>A	c.(3277-3279)CCT>ACT	p.P1093T		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	1093	Guanylate kinase-like.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		TCCGTCTCAGGTCGGGGCAGC	0.682			Mis		DLBCL								7	18	---	---	---	---	PASS	T	2946460	T	T	2946460	3	4	62	1	0	0	0	0	1	0	0	0	2645	1261	44	3	191	3	CARD11	7	2946460	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08		2946460	156192203	200	24313										
HDAC9	9734	broad.mit.edu	37	chr7	18869172	18869172	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agatattgattgtagatctgGtatgtattcctggccagagc	11	6	1	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:18869172G>T	uc003suh.2	+	18	2498	c.2457_splice	c.e18+1	p.L819_splice	HDAC9_uc003sue.2_Splice_Site_p.L819_splice|HDAC9_uc011jyd.1_Splice_Site_p.L819_splice|HDAC9_uc003sui.2_Splice_Site_p.L822_splice|HDAC9_uc003suj.2_Splice_Site_p.L778_splice|HDAC9_uc003suk.2_Splice_Site_p.L67_splice	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1						B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	TGTAGATCTGGTATGTATTCC	0.388													22	48	---	---	---	---	PASS	T	18869172	T	T	18869172	5	4	62	1	0	0	0	0	0	0	1	0	7014	1275	44	3	2588	3	HDAC9	7	18869172	Splice_Site	SNP	G	TCGA-33-6737-01A-11D-1817-08	15922712	18869172	140269491	201	24314										
ITGB8	3696	broad.mit.edu	37	chr7	20441706	20441706	+	Missense_Mutation	SNP	G	T	T													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tatggaaaatactgtgaaaaGgatgacttttcttgtccata							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:20441706G>T	uc003suu.2	+	10	2349	c.1644G>T	c.(1642-1644)AAG>AAT	p.K548N	ITGB8_uc011jyh.1_Missense_Mutation_p.K413N	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	548	Cysteine-rich tandem repeats.|II.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						ACTGTGAAAAGGATGACTTTT	0.388													33	70	---	---	---	---	PASS	T	20441706	T	T	20441706	3	4	62	1	0	0	0	0	1	0	0	0	7901	991	35	3	1682	3	ITGB8	7	20441706	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1572534	20441706	138696957	202	24315	526	2								
ITGB8	3696	broad.mit.edu	37	chr7	20441707	20441707	+	Missense_Mutation	SNP	G	T	T													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atggaaaatactgtgaaaagGatgacttttcttgtccatat							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:20441707G>T	uc003suu.2	+	10	2350	c.1645G>T	c.(1645-1647)GAT>TAT	p.D549Y	ITGB8_uc011jyh.1_Missense_Mutation_p.D414Y	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	549	Cysteine-rich tandem repeats.|II.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						CTGTGAAAAGGATGACTTTTC	0.388													34	70	---	---	---	---	PASS	T	20441707	T	T	20441707	3	4	62	1	0	0	0	0	1	0	0	0	7901	1174	41	2	1683	2	ITGB8	7	20441707	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1	20441707	138696956	203	24316	526	2								
DNAH11	8701	broad.mit.edu	37	chr7	21765525	21765525	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	caatctttgattattatgtgGaccacaaaactaagaaatta	5	6	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:21765525G>A	uc003svc.2	+	46	7415	c.7384G>A	c.(7384-7386)GAC>AAC	p.D2462N		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2462					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TTATTATGTGGACCACAAAAC	0.423									Kartagener_syndrome				4	14	---	---	---	---	PASS	A	21765525	A	A	21765525	3	1	62	1	0	0	0	0	1	0	0	0	4599	1174	41	2	7563	2	DNAH11	7	21765525	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1323818	21765525	137373138	204	24317										
HOXA2	3199	broad.mit.edu	37	chr7	27142065	27142065	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaaagatgtcaggcactcagCgagcgacggctggctattga	13	9	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:27142065C>A	uc003syh.2	-	1	330	c.55G>T	c.(55-57)GCT>TCT	p.A19S		NM_006735	NP_006726	O43364	HXA2_HUMAN	homeobox A2	19						nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						AGGCACTCAGCGAGCGACGGC	0.478													17	152	---	---	---	---	PASS	A	27142065	A	A	27142065	3	1	62	1	0	0	0	0	1	0	0	0	7292	768	27	1	1083	1	HOXA2	7	27142065	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	5376540	27142065	131996598	205	24318										
AVL9	23080	broad.mit.edu	37	chr7	32598723	32598723	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tggcaggaaaccatggagaaGatgctgccatgaagactgag	14	7	0	5			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:32598723G>C	uc003tcv.1	+	10	1008	c.862G>C	c.(862-864)GAT>CAT	p.D288H	AVL9_uc011kai.1_Missense_Mutation_p.D288H|AVL9_uc010kwj.1_Missense_Mutation_p.D129H	NM_015060	NP_055875	Q8NBF6	AVL9_HUMAN	AVL9 homolog (S. cerevisiase)	288						integral to membrane					0						CCATGGAGAAGATGCTGCCAT	0.453													15	22	---	---	---	---	PASS	C	32598723	C	C	32598723	3	2	62	1	0	0	0	0	1	0	0	0	1228	942	33	2	900	2	AVL9	7	32598723	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	5456658	32598723	126539940	206	24319										
KBTBD2	25948	broad.mit.edu	37	chr7	32909154	32909154	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctgccgcagagaccaccggtCaagttccaggtcatattggt	11	12	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:32909154C>G	uc003tdb.2	-	4	2334	c.1675G>C	c.(1675-1677)GAC>CAC	p.D559H	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	559	Kelch 5.										0			GBM - Glioblastoma multiforme(11;0.0499)			GACCACCGGTCAAGTTCCAGG	0.463													48	105	---	---	---	---	PASS	G	32909154	G	G	32909154	3	3	62	1	0	0	0	0	1	0	0	0	7993	826	29	2	200	2	KBTBD2	7	32909154	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	310431	32909154	126229509	207	24320										
KIAA0895	23366	broad.mit.edu	37	chr7	36396527	36396527	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttacctgcttaagaaatcggTcagatgcgtggctatgctta	10	8	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:36396527T>A	uc003tfd.2	-	3	902	c.851A>T	c.(850-852)GAC>GTC	p.D284V	KIAA0895_uc003tfc.2_Missense_Mutation_p.D271V|KIAA0895_uc011kaw.1_Missense_Mutation_p.D133V|KIAA0895_uc003tfb.2_Missense_Mutation_p.D233V|KIAA0895_uc011kax.1_Missense_Mutation_p.D233V|KIAA0895_uc003tfe.2_Missense_Mutation_p.D271V|KIAA0895_uc011kay.1_Missense_Mutation_p.D233V	NM_001100425	NP_001093895	Q8NCT3	K0895_HUMAN	hypothetical protein LOC23366 isoform 1	284											0						AAGAAATCGGTCAGATGCGTG	0.358													12	51	---	---	---	---	PASS	A	36396527	A	A	36396527	3	1	62	1	0	0	0	0	1	0	0	0	8197	1667	58	5	731	5	KIAA0895	7	36396527	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	3487373	36396527	122742136	208	24321										
GLI3	2737	broad.mit.edu	37	chr7	42005006	42005006	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agtgctctgggccaccgtagGggttgctgttctccccgagg	15	12	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:42005006G>C	uc011kbh.1	-	15	3756	c.3665C>G	c.(3664-3666)CCC>CGC	p.P1222R	GLI3_uc011kbg.1_Missense_Mutation_p.P1163R	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1222					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GCCACCGTAGGGGTTGCTGTT	0.637									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				11	79	---	---	---	---	PASS	C	42005006	C	C	42005006	3	2	62	1	0	0	0	0	1	0	0	0	6439	1232	43	4	1081	4	GLI3	7	42005006	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	5608479	42005006	117133657	209	24322										
ABCA13	154664	broad.mit.edu	37	chr7	48411966	48411966	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcatgctgagctacctcttgAgtgcatttttcagccaagct	8	11	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:48411966A>T	uc003toq.2	+	33	11030	c.11005A>T	c.(11005-11007)AGT>TGT	p.S3669C	ABCA13_uc010kys.1_Missense_Mutation_p.S743C|ABCA13_uc003tos.1_Missense_Mutation_p.S495C	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3669					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CTACCTCTTGAGTGCATTTTT	0.433													53	235	---	---	---	---	PASS	T	48411966	T	T	48411966	3	4	62	1	0	0	0	0	1	0	0	0	31	304	11	5	10964	5	ABCA13	7	48411966	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	6406960	48411966	110726697	210	24323										
DMTF1	9988	broad.mit.edu	37	chr7	86823350	86823350	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttatggtcagaacagaagaaGaaatctctgacaccgacctt	8	9	2	5			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:86823350G>A	uc003uih.2	+	16	2286	c.1960G>A	c.(1960-1962)GAA>AAA	p.E654K	DMTF1_uc003uii.2_Missense_Mutation_p.E388K|DMTF1_uc003uij.2_Missense_Mutation_p.E388K|DMTF1_uc011khb.1_Missense_Mutation_p.E566K|DMTF1_uc003uik.2_RNA|DMTF1_uc003uil.2_Missense_Mutation_p.E654K|DMTF1_uc003uin.2_Missense_Mutation_p.E388K	NM_001142327	NP_001135799	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	654	Interaction with CCND1, CCND2 and CCND3 (By similarity).|Required for transcriptional activation (By similarity).				cell cycle	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(14;0.0058)					AACAGAAGAAGAAATCTCTGA	0.388													19	89	---	---	---	---	PASS	A	86823350	A	A	86823350	3	1	62	1	0	0	0	0	1	0	0	0	4592	943	33	2	2014	2	DMTF1	7	86823350	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	38411384	86823350	72315313	211	24324										
FZD1	8321	broad.mit.edu	37	chr7	90895882	90895882	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tctacgagcaggccttccggGaccagtgggaacgcagctgg	15	12	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:90895882G>T	uc003ula.2	+	1	2100	c.1687G>T	c.(1687-1689)GAC>TAC	p.D563Y		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	563	Extracellular (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			GGCCTTCCGGGACCAGTGGGA	0.662													15	51	---	---	---	---	PASS	T	90895882	T	T	90895882	3	4	62	1	0	0	0	0	1	0	0	0	6128	1174	41	2	1689	2	FZD1	7	90895882	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	4072532	90895882	68242781	212	24325										
PPP1R3A	5506	broad.mit.edu	37	chr7	113519333	113519333	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctcctaaagcgctgccttcaCtagtcaaatgatgatgctct	7	12	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:113519333C>A	uc010ljy.1	-	4	1845	c.1814G>T	c.(1813-1815)AGT>ATT	p.S605I		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	605					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						GCTGCCTTCACTAGTCAAATG	0.418													23	141	---	---	---	---	PASS	A	113519333	A	A	113519333	3	1	62	1	0	0	0	0	1	0	0	0	12371	565	20	3	1558	3	PPP1R3A	7	113519333	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	22623451	113519333	45619330	213	24326										
AASS	10157	broad.mit.edu	37	chr7	121738539	121738539	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgttttgccaccaagaagccCagcttctcttcttgtttaca	6	12	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:121738539C>A	uc003vka.2	-	14	1716	c.1620G>T	c.(1618-1620)CTG>CTT	p.L540L	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Silent_p.L540L|AASS_uc011knw.1_Silent_p.L28L	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	540	Saccharopine dehydrogenase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	CCAAGAAGCCCAGCTTCTCTT	0.338													25	42	---	---	---	---	PASS	A	121738539	A	A	121738539	2	1	62	1	0	0	0	0	0	0	0	1	24	581	21	3		3	AASS	7	121738539	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	8219206	121738539	37400124	214	24327										
KIAA1549	57670	broad.mit.edu	37	chr7	138579246	138579246	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gttgttgctctgggattccgGagacggcctcttcaccctgt	12	12	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:138579246G>A	uc011kql.1	-	10	3923	c.3874C>T	c.(3874-3876)CCG>TCG	p.P1292S	KIAA1549_uc011kqi.1_Missense_Mutation_p.P76S|KIAA1549_uc003vuk.3_Missense_Mutation_p.P1242S|KIAA1549_uc011kqj.1_Missense_Mutation_p.P1292S|KIAA1549_uc011kqk.1_Missense_Mutation_p.P76S	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1292						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TGGGATTCCGGAGACGGCCTC	0.493			O	BRAF	pilocytic astrocytoma								17	66	---	---	---	---	PASS	A	138579246	A	A	138579246	3	1	62	1	0	0	0	0	1	0	0	0	8244	1174	41	2	2022	2	KIAA1549	7	138579246	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	16840707	138579246	20559417	215	24328										
TBXAS1	6916	broad.mit.edu	37	chr7	139529251	139529251	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	catggtgacggtggccctgtCagtggctctcttggccctcc	13	14	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:139529251C>T	uc011kqv.1	+	1	229	c.65C>T	c.(64-66)TCA>TTA	p.S22L	TBXAS1_uc003vvh.2_Missense_Mutation_p.S22L|TBXAS1_uc010lne.2_Intron|TBXAS1_uc011kqu.1_Missense_Mutation_p.S22L|TBXAS1_uc003vvi.2_Missense_Mutation_p.S22L|TBXAS1_uc003vvj.2_Missense_Mutation_p.S22L|TBXAS1_uc011kqw.1_5'UTR|TBXAS1_uc011kqx.1_Missense_Mutation_p.S22L	NM_001130966	NP_001124438	P24557	THAS_HUMAN	thromboxane A synthase 1, platelet isoform	21	Helical; (Potential).				hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|thromboxane-A synthase activity			ovary(2)|breast(1)	3	Melanoma(164;0.0142)					GTGGCCCTGTCAGTGGCTCTC	0.577													10	36	---	---	---	---	PASS	T	139529251	T	T	139529251	3	4	62	1	0	0	0	0	1	0	0	0	15661	838	29	2	67	2	TBXAS1	7	139529251	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	950005	139529251	19609412	216	24329										
BRAF	673	broad.mit.edu	37	chr7	140481411	140481411	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgtagactgttccaaatgatCcagatccaattctttgtccc	6	11	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:140481411C>A	uc003vwc.3	-	11	1458	c.1397G>T	c.(1396-1398)GGA>GTA	p.G466V		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	466	ATP (By similarity).|Protein kinase.		G -> V (in LNCR).|G -> A (in melanoma).|G -> E (in melanoma).		activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.G466V(12)|p.G466E(5)|p.G466A(3)|p.G466R(2)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCCAAATGATCCAGATCCAAT	0.378	G466V(NCIH1666_LUNG)|G466V(CAL12T_LUNG)	61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				31	80	---	---	---	---	PASS	A	140481411	A	A	140481411	3	1	62	1	0	0	0	0	1	0	0	0	1496	855	30	2	935	2	BRAF	7	140481411	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	952160	140481411	18657252	217	24330										
OR9A4	130075	broad.mit.edu	37	chr7	141618739	141618739	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcttccctggctctgaagaaCtacatcatatcctttttgct	6	12	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:141618739C>A	uc003vwu.1	+	1	64	c.64C>A	c.(64-66)CTA>ATA	p.L22I		NM_001001656	NP_001001656	Q8NGU2	OR9A4_HUMAN	olfactory receptor, family 9, subfamily A,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.0171)					CTCTGAAGAACTACATCATAT	0.378													71	169	---	---	---	---	PASS	A	141618739	A	A	141618739	3	1	62	1	0	0	0	0	1	0	0	0	11249	564	20	3	66	3	OR9A4	7	141618739	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1137328	141618739	17519924	218	24331										
CLCN1	1180	broad.mit.edu	37	chr7	143039210	143039210	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcaagaagctaccctacttgCctgaccttggctggaaccag	9	13	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:143039210C>G	uc003wcr.1	+	15	1858	c.1771C>G	c.(1771-1773)CCT>GCT	p.P591A	CLCN1_uc011ktc.1_Missense_Mutation_p.P203A	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	591	Cytoplasmic (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					ACCCTACTTGCCTGACCTTGG	0.552													12	74	---	---	---	---	PASS	G	143039210	G	G	143039210	3	3	62	1	0	0	0	0	1	0	0	0	3462	739	26	4	1829	4	CLCN1	7	143039210	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1420471	143039210	16099453	219	24332										
ARHGEF5	7984	broad.mit.edu	37	chr7	144060783	144060783	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aagagaatagggcggactctCaggacgaaaagagtcaaacc	12	8	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:144060783C>G	uc003wel.2	+	2	1139	c.1021C>G	c.(1021-1023)CAG>GAG	p.Q341E	ARHGEF5_uc003wek.2_Missense_Mutation_p.Q341E	NM_005435	NP_005426	Q12774	ARHG5_HUMAN	rho guanine nucleotide exchange factor 5	341					intracellular signal transduction|regulation of Rho protein signal transduction	intracellular	GTP binding|protein binding|Rho guanyl-nucleotide exchange factor activity			skin(2)	2	Melanoma(164;0.14)					GGCGGACTCTCAGGACGAAAA	0.517													50	71	---	---	---	---	PASS	G	144060783	G	G	144060783	3	3	62	1	0	0	0	0	1	0	0	0	909	827	29	2	1023	2	ARHGEF5	7	144060783	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1021573	144060783	15077880	220	24333										
EZH2	2146	broad.mit.edu	37	chr7	148515176	148515176	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tggggtctttatccgctcagCggtgagagcagcagcaaact	13	10	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:148515176C>T	uc003wfd.1	-	10	1184	c.1018G>A	c.(1018-1020)GCT>ACT	p.A340T	EZH2_uc011kug.1_Missense_Mutation_p.A331T|EZH2_uc003wfb.1_Missense_Mutation_p.A345T|EZH2_uc003wfc.1_Missense_Mutation_p.A301T|EZH2_uc011kuh.1_Missense_Mutation_p.A331T|EZH2_uc011kui.1_Missense_Mutation_p.A340T|EZH2_uc011kuj.1_RNA	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	340	Interaction with DNMT1, DNMT3A and DNMT3B.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding	p.A345T(1)		haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			ATCCGCTCAGCGGTGAGAGCA	0.488			Mis		DLBCL								4	161	---	---	---	---	PASS	T	148515176	T	T	148515176	3	4	62	1	0	0	0	0	1	0	0	0	5334	768	27	1	1266	1	EZH2	7	148515176	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	4454393	148515176	10623487	221	24334										
SSPO	23145	broad.mit.edu	37	chr7	149502658	149502658	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccaggaggagccctgcagccCccctgtatgcccaggtattc	11	16	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:149502658C>T	uc010lpk.2	+	58	8471	c.8471C>T	c.(8470-8472)CCC>CTC	p.P2824L		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2824	TSP type-1 7.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCCTGCAGCCCCCCTGTATGC	0.667													9	44	---	---	---	---	PASS	T	149502658	T	T	149502658	3	4	62	1	0	0	0	0	1	0	0	0	15188	623	22	3	8693	3	SSPO	7	149502658	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	987482	149502658	9636005	222	24335										
GIMAP1	170575	broad.mit.edu	37	chr7	150417443	150417443	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggaccccacgcgctgctcctGgtgacccagttgggtcggtt	14	14	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:150417443G>T	uc003whq.2	+	3	438	c.351G>T	c.(349-351)CTG>CTT	p.L117L	GIMAP1_uc003whp.2_Silent_p.L125L	NM_130759	NP_570115	Q8WWP7	GIMA1_HUMAN	GTPase, IMAP family member 1	117	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGCTGCTCCTGGTGACCCAGT	0.617													15	52	---	---	---	---	PASS	T	150417443	T	T	150417443	2	4	62	1	0	0	0	0	0	0	0	1	6379	1335	47	3		3	GIMAP1	7	150417443	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	914785	150417443	8721220	223	24336										
MLL3	58508	broad.mit.edu	37	chr7	151932935	151932935	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	acagctccgattccacttttCagctttgacctgcctcggcc	7	16	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:151932935C>T	uc003wla.2	-	16	2955	c.2736G>A	c.(2734-2736)CTG>CTA	p.L912L	MLL3_uc003wkz.2_5'UTR	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	912					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTCCACTTTTCAGCTTTGACC	0.488			N		medulloblastoma								19	94	---	---	---	---	PASS	T	151932935	T	T	151932935	2	4	62	1	0	0	0	0	0	0	0	1	9622	813	29	2		2	MLL3	7	151932935	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	1515492	151932935	7205728	224	24337										
HTR5A	3361	broad.mit.edu	37	chr7	154862998	154862998	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttgctgcacggccagcatctGgaacgtgacggccatagccc	12	14	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr7:154862998G>A	uc003wlu.1	+	1	453	c.389G>A	c.(388-390)TGG>TAG	p.W130*	uc011kvt.1_Nonsense_Mutation_p.Q6*|uc003wlt.2_Nonsense_Mutation_p.Q6*	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	130	Helical; Name=3; (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		GCCAGCATCTGGAACGTGACG	0.647													11	41	---	---	---	---	PASS	A	154862998	A	A	154862998	4	1	62	1	0	0	0	0	0	1	0	0	7450	1357	47	3	391	3	HTR5A	7	154862998	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2930063	154862998	4275665	225	24338										
CSMD1	64478	broad.mit.edu	37	chr8	2815331	2815331	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaaaaaccgtgcttccaaccTagagaggaaatccaatacta	6	10	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:2815331T>A	uc011kwk.1	-	63	10096	c.9706_splice	c.e63-1	p.V3236_splice	CSMD1_uc011kwj.1_Splice_Site_p.V2565_splice|CSMD1_uc010lrg.2_Splice_Site_p.V1127_splice	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor							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)		GCTTCCAACCTAGAGAGGAAA	0.458													5	4	---	---	---	---	PASS	A	2815331	A	A	2815331	5	1	62	1	0	0	0	0	0	0	1	0	3944	1536	53	5	1025	5	CSMD1	8	2815331	Splice_Site	SNP	T	TCGA-33-6737-01A-11D-1817-08		2815331	143548691	226	24339										
PRSS55	203074	broad.mit.edu	37	chr8	10383125	10383125	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttctcagtgttgctgctcctGtccctggtcacgggaactca	10	13	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:10383125G>A	uc003wta.2	+	1	45	c.30G>A	c.(28-30)CTG>CTA	p.L10L	uc010lru.2_Intron	NM_198464	NP_940866	Q6UWB4	PRS55_HUMAN	hypothetical protein LOC203074 precursor	10					proteolysis	integral to membrane	serine-type endopeptidase activity			ovary(1)	1						TGCTGCTCCTGTCCCTGGTCA	0.672													15	65	---	---	---	---	PASS	A	10383125	A	A	10383125	2	1	62	1	0	0	0	0	0	0	0	1	12634	1364	48	3		3	PRSS55	8	10383125	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	7567794	10383125	135980897	227	24340										
RP1L1	94137	broad.mit.edu	37	chr8	10468421	10468421	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cctgcagcctgctggggcctCtctgtctgctccggcctctg	12	17	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:10468421C>A	uc003wtc.2	-	4	3416	c.3187G>T	c.(3187-3189)GAG>TAG	p.E1063*		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1063					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GCTGGGGCCTCTCTGTCTGCT	0.677													9	10	---	---	---	---	PASS	A	10468421	A	A	10468421	4	1	62	1	0	0	0	0	0	1	0	0	13533	922	32	2	4019	2	RP1L1	8	10468421	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	85296	10468421	135895601	228	24341										
KIAA1967	57805	broad.mit.edu	37	chr8	22465539	22465539	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gagccacctgaacagatttcCtgcccggggccctcatggac	11	15	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:22465539C>A	uc003xch.2	+	7	682	c.545C>A	c.(544-546)CCT>CAT	p.P182H	KIAA1967_uc003xci.2_Missense_Mutation_p.P182H|KIAA1967_uc003xcj.1_Translation_Start_Site	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	182					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		AACAGATTTCCTGCCCGGGGC	0.448													5	242	---	---	---	---	PASS	A	22465539	A	A	22465539	3	1	62	1	0	0	0	0	1	0	0	0	8265	681	24	3	567	3	KIAA1967	8	22465539	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	11997118	22465539	123898483	229	24342										
KCTD9	54793	broad.mit.edu	37	chr8	25303650	25303650	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaaggtgaaggttacctgatCaaagcaatatcatcaatcag	8	7	4	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:25303650C>G	uc003xeo.2	-	2	323	c.165G>C	c.(163-165)TTG>TTC	p.L55F	PPP2R2A_uc003xek.2_Intron	NM_017634	NP_060104	Q7L273	KCTD9_HUMAN	potassium channel tetramerisation domain	55	KHA.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		GTTACCTGATCAAAGCAATAT	0.403													12	44	---	---	---	---	PASS	G	25303650	G	G	25303650	3	3	62	1	0	0	0	0	1	0	0	0	8116	825	29	2	1048	2	KCTD9	8	25303650	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2838111	25303650	121060372	230	24343										
KCTD9	54793	broad.mit.edu	37	chr8	25303661	25303661	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttacctgatcaaagcaatatCatcaatcagtccacctttcc	3	13	4	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:25303661C>T	uc003xeo.2	-	2	312	c.154G>A	c.(154-156)GAT>AAT	p.D52N	PPP2R2A_uc003xek.2_Intron	NM_017634	NP_060104	Q7L273	KCTD9_HUMAN	potassium channel tetramerisation domain	52	KHA.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		AAAGCAATATCATCAATCAGT	0.403													11	53	---	---	---	---	PASS	T	25303661	T	T	25303661	3	4	62	1	0	0	0	0	1	0	0	0	8116	826	29	2	1059	2	KCTD9	8	25303661	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	11	25303661	121060361	231	24344										
HMBOX1	79618	broad.mit.edu	37	chr8	28827693	28827693	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccttggaaactttggaccgtCttgatcaagagcatagtgac	10	9	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:28827693C>G	uc003xhd.3	+	3	499	c.157C>G	c.(157-159)CTT>GTT	p.L53V	HMBOX1_uc010lvd.2_Missense_Mutation_p.L53V|HMBOX1_uc003xhc.3_Missense_Mutation_p.L53V|HMBOX1_uc010lve.2_RNA|HMBOX1_uc003xhe.2_Missense_Mutation_p.L53V|HMBOX1_uc011lay.1_Missense_Mutation_p.L53V|HMBOX1_uc003xhf.2_Missense_Mutation_p.L41V|HMBOX1_uc003xhg.2_Missense_Mutation_p.L41V	NM_001135726	NP_001129198	Q6NT76	HMBX1_HUMAN	homeobox containing 1	53					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(32;0.0192)		KIRC - Kidney renal clear cell carcinoma(542;0.135)|Kidney(114;0.161)		TTTGGACCGTCTTGATCAAGA	0.443													36	103	---	---	---	---	PASS	G	28827693	G	G	28827693	3	3	62	1	0	0	0	0	1	0	0	0	7218	913	32	2	163	2	HMBOX1	8	28827693	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	3524032	28827693	117536329	232	24345										
WRN	7486	broad.mit.edu	37	chr8	30921849	30921849	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggtgggatttgacatggagtGgccaccattatacaatagag	13	6	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:30921849G>T	uc003xio.3	+	4	1042	c.254G>T	c.(253-255)TGG>TTG	p.W85L		NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	85	Interaction with WRNIP1 (By similarity).|3'-5' exonuclease.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		GACATGGAGTGGCCACCATTA	0.328			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				54	114	---	---	---	---	PASS	T	30921849	T	T	30921849	3	4	62	1	0	0	0	0	1	0	0	0	17399	1357	47	3	264	3	WRN	8	30921849	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2094156	30921849	115442173	233	24346										
IDO2	169355	broad.mit.edu	37	chr8	39806779	39806779	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tggctttcttcttccagattCtctggtaaggatagagcctt	9	9	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:39806779C>G	uc010lwy.1	+	2	376	c.134C>G	c.(133-135)TCT>TGT	p.S45C	IDO2_uc003xno.1_RNA	NM_194294	NP_919270	Q6ZQW0	I23O2_HUMAN	indoleamine-pyrrole 2,3 dioxygenase-like 1	32					tryptophan catabolic process to kynurenine	cytosol	heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			ovary(2)	2						CTTCCAGATTCTCTGGTAAGG	0.383													8	13	---	---	---	---	PASS	G	39806779	G	G	39806779	3	3	62	1	0	0	0	0	1	0	0	0	7502	913	32	2	140	2	IDO2	8	39806779	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	8884930	39806779	106557243	234	24347										
PXDNL	137902	broad.mit.edu	37	chr8	52384806	52384806	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tccgcccggcaggtgaagtaGacggtatttcctgatggtac	13	10	0	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:52384806G>A	uc003xqu.3	-	8	854	c.753C>T	c.(751-753)GTC>GTT	p.V251V		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	251	Ig-like C2-type 1.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				AGGTGAAGTAGACGGTATTTC	0.438													50	176	---	---	---	---	PASS	A	52384806	A	A	52384806	2	1	62	1	0	0	0	0	0	0	0	1	12848	929	33	2		2	PXDNL	8	52384806	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	12578027	52384806	93979216	235	24348										
CYP7A1	1581	broad.mit.edu	37	chr8	59410849	59410849	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	attttccgtggcacaacaccTtatggtatgacaagggattt	9	8	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:59410849T>A	uc003xtm.3	-	2	323	c.260A>T	c.(259-261)AAG>ATG	p.K87M		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	87					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				GCACAACACCTTATGGTATGA	0.353									Neonatal_Giant_Cell_Hepatitis				82	86	---	---	---	---	PASS	A	59410849	A	A	59410849	3	1	62	1	0	0	0	0	1	0	0	0	4196	1609	56	5	1274	5	CYP7A1	8	59410849	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	7026043	59410849	86953173	236	24349										
PREX2	80243	broad.mit.edu	37	chr8	69021791	69021791	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tagaaacccaagacatctatCagaaactgctgggcaaactt	7	10	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:69021791C>G	uc003xxv.1	+	25	3106	c.3079C>G	c.(3079-3081)CAG>GAG	p.Q1027E	PREX2_uc011lez.1_Missense_Mutation_p.Q962E	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1027					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						AGACATCTATCAGAAACTGCT	0.453													48	148	---	---	---	---	PASS	G	69021791	G	G	69021791	3	3	62	1	0	0	0	0	1	0	0	0	12477	827	29	2	3406	2	PREX2	8	69021791	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	9610942	69021791	77342231	237	24350										
ZFHX4	79776	broad.mit.edu	37	chr8	77763549	77763549	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cagctatatgcctccttgccCgtgaatggagaactgtgggc	12	11	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:77763549C>T	uc003yav.2	+	10	4644	c.4257C>T	c.(4255-4257)CCC>CCT	p.P1419P	ZFHX4_uc003yau.1_Silent_p.P1464P|ZFHX4_uc003yaw.1_Silent_p.P1419P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1419						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCTCCTTGCCCGTGAATGGAG	0.507										HNSCC(33;0.089)			12	32	---	---	---	---	PASS	T	77763549	T	T	77763549	2	4	62	1	0	0	0	0	0	0	0	1	17632	639	23	1		1	ZFHX4	8	77763549	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	8741758	77763549	68600473	238	24351										
ZFHX4	79776	broad.mit.edu	37	chr8	77765673	77765673	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tctggcctctcccaaaaagtTatcaaacactggtttagaaa	6	10	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:77765673T>G	uc003yav.2	+	10	6768	c.6381T>G	c.(6379-6381)GTT>GTG	p.V2127V	ZFHX4_uc003yau.1_Silent_p.V2172V|ZFHX4_uc003yaw.1_Silent_p.V2127V	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2127	Homeobox 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCCAAAAAGTTATCAAACACT	0.363										HNSCC(33;0.089)			99	122	---	---	---	---	PASS	G	77765673	G	G	77765673	2	3	62	1	0	0	0	0	0	0	0	1	17632	1741	61	5		5	ZFHX4	8	77765673	Silent	SNP	T	TCGA-33-6737-01A-11D-1817-08	2124	77765673	68598349	239	24352										
E2F5	1875	broad.mit.edu	37	chr8	86121488	86121488	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctaagcccgtggtttttcctGttcccccacctgatgacctc	7	16	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:86121488G>A	uc003ycz.3	+	6	764	c.727G>A	c.(727-729)GTT>ATT	p.V243I	E2F5_uc003yda.3_Missense_Mutation_p.V243I|E2F5_uc010mab.2_Missense_Mutation_p.V82I|E2F5_uc003ydb.3_Missense_Mutation_p.V62I	NM_001951	NP_001942	Q15329	E2F5_HUMAN	E2F transcription factor 5 isoform 1	243					G1 phase of mitotic cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1						GGTTTTTCCTGTTCCCCCACC	0.458													13	100	---	---	---	---	PASS	A	86121488	A	A	86121488	3	1	62	1	0	0	0	0	1	0	0	0	4870	1377	48	3	749	3	E2F5	8	86121488	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	8355815	86121488	60242534	240	24353										
MMP16	4325	broad.mit.edu	37	chr8	89339329	89339329	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cattgaaatactgctccgttCcgcagactgtagcacataaa	7	11	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:89339329C>T	uc003yeb.3	-	1	389	c.107G>A	c.(106-108)GGA>GAA	p.G36E	MMP16_uc003yec.2_Missense_Mutation_p.G36E	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	36					collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						CTGCTCCGTTCCGCAGACTGT	0.502													6	148	---	---	---	---	PASS	T	89339329	T	T	89339329	3	4	62	1	0	0	0	0	1	0	0	0	9655	855	30	2	1912	2	MMP16	8	89339329	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	3217841	89339329	57024693	241	24354										
RBM12B	389677	broad.mit.edu	37	chr8	94746677	94746677	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	caccttaagtcctcctcaggGggttgcctgaagtcctcctc	9	15	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:94746677G>A	uc003yfz.2	-	3	2155	c.1962C>T	c.(1960-1962)CCC>CCT	p.P654P		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	654							nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			CCTCCTCAGGGGGTTGCCTGA	0.642													55	221	---	---	---	---	PASS	A	94746677	A	A	94746677	2	1	62	1	0	0	0	0	0	0	0	1	13114	1219	43	3		3	RBM12B	8	94746677	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	5407348	94746677	51617345	242	24355										
VPS13B	157680	broad.mit.edu	37	chr8	100568799	100568799	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggcatcaactaaaaccagagAaggaaagtgtctcaggaggg	13	7	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:100568799A>T	uc003yiv.2	+	31	5053	c.4942A>T	c.(4942-4944)AAG>TAG	p.K1648*	VPS13B_uc003yiw.2_Nonsense_Mutation_p.K1623*	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1648					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AAAACCAGAGAAGGAAAGTGT	0.438													9	89	---	---	---	---	PASS	T	100568799	T	T	100568799	4	4	62	1	0	0	0	0	0	1	0	0	17187	247	9	5	5254	5	VPS13B	8	100568799	Nonsense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	5822122	100568799	45795223	243	24356										
LRP12	29967	broad.mit.edu	37	chr8	105502956	105502956	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cgtttttcagtgttacttctAagcaagtgtctggtatctgg	10	7	4	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:105502956A>T	uc003yma.2	-	7	2620	c.2525T>A	c.(2524-2526)TTA>TAA	p.L842*	LRP12_uc003ymb.2_Nonsense_Mutation_p.L823*|LRP12_uc003ylz.2_Nonsense_Mutation_p.L248*	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	842	Cytoplasmic (Potential).				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)			TGTTACTTCTAAGCAAGTGTC	0.433													39	134	---	---	---	---	PASS	T	105502956	T	T	105502956	4	4	62	1	0	0	0	0	0	1	0	0	8954	372	13	5	58	5	LRP12	8	105502956	Nonsense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	4934157	105502956	40861066	244	24357										
PKHD1L1	93035	broad.mit.edu	37	chr8	110497275	110497275	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cacttgaatttttctaaggaGggagaagagattgtgataac	11	4	1	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:110497275G>T	uc003yne.2	+	58	9683	c.9579G>T	c.(9577-9579)GAG>GAT	p.E3193D		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3193	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTTCTAAGGAGGGAGAAGAGA	0.279										HNSCC(38;0.096)			10	62	---	---	---	---	PASS	T	110497275	T	T	110497275	3	4	62	1	0	0	0	0	1	0	0	0	11972	991	35	3	9809	3	PKHD1L1	8	110497275	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	4994319	110497275	35866747	245	24358										
CSMD3	114788	broad.mit.edu	37	chr8	113518987	113518987	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccagtcacagtctctgctatGcggatatggatgagggaagt	13	8	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:113518987G>A	uc003ynu.2	-	29	4987	c.4828C>T	c.(4828-4830)CAT>TAT	p.H1610Y	CSMD3_uc003yns.2_Missense_Mutation_p.H882Y|CSMD3_uc003ynt.2_Missense_Mutation_p.H1570Y|CSMD3_uc011lhx.1_Missense_Mutation_p.H1506Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1610	Extracellular (Potential).|CUB 9.					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						TCTCTGCTATGCGGATATGGA	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			27	87	---	---	---	---	PASS	A	113518987	A	A	113518987	3	1	62	1	0	0	0	0	1	0	0	0	3946	1319	46	3	6467	3	CSMD3	8	113518987	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3021712	113518987	32845035	246	24359										
CSMD3	114788	broad.mit.edu	37	chr8	114448937	114448937	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gacaccgtcaataaaaagacGaggttccaaaacgtaaatcc	7	10	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:114448937G>C	uc003ynu.2	-	1	306	c.147C>G	c.(145-147)CTC>CTG	p.L49L	CSMD3_uc011lhx.1_Silent_p.L49L|CSMD3_uc010mcx.1_Silent_p.L49L|CSMD3_uc003ynx.3_Silent_p.L49L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	49	Helical; (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						ATAAAAAGACGAGGTTCCAAA	0.507										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			94	285	---	---	---	---	PASS	C	114448937	C	C	114448937	2	2	62	1	0	0	0	0	0	0	0	1	3946	1045	37	2		2	CSMD3	8	114448937	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	929950	114448937	31915085	247	24360										
ZHX2	22882	broad.mit.edu	37	chr8	123964740	123964740	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gaagaggtggaggaggcccgGaagaagatgttcaacggcac	17	7	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:123964740G>A	uc003ypk.1	+	3	1557	c.990G>A	c.(988-990)CGG>CGA	p.R330R		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	330	Required for interaction with NFYA.|Required for homodimerization.|Required for repressor activity.|Required for nuclear localization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			AGGAGGCCCGGAAGAAGATGT	0.597													42	120	---	---	---	---	PASS	A	123964740	A	A	123964740	2	1	62	1	0	0	0	0	0	0	0	1	17673	1161	41	2		2	ZHX2	8	123964740	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	9515803	123964740	22399282	248	24361										
FAM83A	84985	broad.mit.edu	37	chr8	124219473	124219473	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aggcggtggagctgtttgacGaggagttccgccacctctac	14	11	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:124219473G>A	uc003ypv.2	+	5	2864	c.850G>A	c.(850-852)GAG>AAG	p.E284K	FAM83A_uc003ypw.2_Missense_Mutation_p.E284K|FAM83A_uc003ypy.2_Missense_Mutation_p.E228K|FAM83A_uc003ypx.2_Missense_Mutation_p.E284K|FAM83A_uc003ypz.2_Missense_Mutation_p.E284K	NM_032899	NP_116288	Q86UY5	FA83A_HUMAN	hypothetical protein LOC84985 isoform a	284										ovary(3)|skin(1)	4	Lung NSC(37;1.55e-09)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			GCTGTTTGACGAGGAGTTCCG	0.572													4	53	---	---	---	---	PASS	A	124219473	A	A	124219473	3	1	62	1	0	0	0	0	1	0	0	0	5633	1059	37	2	864	2	FAM83A	8	124219473	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	254733	124219473	22144549	249	24362										
ATAD2	29028	broad.mit.edu	37	chr8	124408548	124408548	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggtccaaggagcccgtggccGaggccgcggagtggttgtgc	19	11	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:124408548G>T	uc003yqh.3	-	1	158	c.50C>A	c.(49-51)TCG>TAG	p.S17*	ATAD2_uc011lii.1_5'UTR|ATAD2_uc003yqi.3_Intron|ATAD2_uc003yqj.2_Nonsense_Mutation_p.S17*	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	17					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			GCCCGTGGCCGAGGCCGCGGA	0.682													8	45	---	---	---	---	PASS	T	124408548	T	T	124408548	4	4	62	1	0	0	0	0	0	1	0	0	1071	1059	37	2	4234	2	ATAD2	8	124408548	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	189075	124408548	21955474	250	24363										
ASAP1	50807	broad.mit.edu	37	chr8	131130450	131130450	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	caaatggagagatgtctgatCtgcagttcggacggcaaggt	14	7	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:131130450C>A	uc003yta.1	-	19	1865	c.1837G>T	c.(1837-1839)GAT>TAT	p.D613Y	ASAP1_uc003ysz.1_Missense_Mutation_p.D424Y|ASAP1_uc011liw.1_Missense_Mutation_p.D606Y	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	613	ANK 1.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						GATGTCTGATCTGCAGTTCGG	0.403													31	102	---	---	---	---	PASS	A	131130450	A	A	131130450	3	1	62	1	0	0	0	0	1	0	0	0	1010	913	32	2	1596	2	ASAP1	8	131130450	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	6721902	131130450	15233572	251	24364										
CYP11B2	1585	broad.mit.edu	37	chr8	143996481	143996481	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccttctatggtgtagtggaaGatgctgggctggacgtccag	15	8	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:143996481G>C	uc003yxk.1	-	3	579	c.576C>G	c.(574-576)ATC>ATG	p.I192M		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	192					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	TGTAGTGGAAGATGCTGGGCT	0.637									Familial_Hyperaldosteronism_type_I				9	48	---	---	---	---	PASS	C	143996481	C	C	143996481	3	2	62	1	0	0	0	0	1	0	0	0	4146	932	33	2	963	2	CYP11B2	8	143996481	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	12866031	143996481	2367541	252	24365										
TIGD5	84948	broad.mit.edu	37	chr8	144681126	144681126	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cgccgaagctgcctgcagcaGaaggccgtgctgctggtggc	16	13	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:144681126G>T	uc003yyx.1	+	1	906	c.906G>T	c.(904-906)CAG>CAT	p.Q302H	EEF1D_uc011lki.1_5'Flank|EEF1D_uc011lkj.1_5'Flank|EEF1D_uc003yyr.2_5'Flank|EEF1D_uc003yyt.2_5'Flank|EEF1D_uc011lkk.1_5'Flank|EEF1D_uc003yys.2_5'Flank|EEF1D_uc003yyv.2_5'Flank|EEF1D_uc003yyu.2_5'Flank|EEF1D_uc011lkl.1_5'Flank	NM_032862	NP_116251	Q53EQ6	TIGD5_HUMAN	tigger transposable element derived 5	351					regulation of transcription, DNA-dependent	chromosome, centromeric region	DNA binding				0	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)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			GCCTGCAGCAGAAGGCCGTGC	0.706													5	11	---	---	---	---	PASS	T	144681126	T	T	144681126	3	4	62	1	0	0	0	0	1	0	0	0	15896	933	33	2	1055	2	TIGD5	8	144681126	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	684645	144681126	1682896	253	24366			1	28		3	3	690	G		6.434547e-05
TIGD5	84948	broad.mit.edu	37	chr8	144681439	144681439	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgcgcagcttcatgctcaagGacatgctctacctggctggc	11	13	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:144681439G>C	uc003yyx.1	+	1	1219	c.1219G>C	c.(1219-1221)GAC>CAC	p.D407H	EEF1D_uc011lki.1_5'Flank|EEF1D_uc011lkj.1_5'Flank|EEF1D_uc003yyr.2_5'Flank|EEF1D_uc003yyt.2_5'Flank|EEF1D_uc011lkk.1_5'Flank|EEF1D_uc003yys.2_5'Flank|EEF1D_uc003yyv.2_5'Flank|EEF1D_uc003yyu.2_5'Flank|EEF1D_uc011lkl.1_5'Flank	NM_032862	NP_116251	Q53EQ6	TIGD5_HUMAN	tigger transposable element derived 5	456					regulation of transcription, DNA-dependent	chromosome, centromeric region	DNA binding				0	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)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			CATGCTCAAGGACATGCTCTA	0.677													7	36	---	---	---	---	PASS	C	144681439	C	C	144681439	3	2	62	1	0	0	0	0	1	0	0	0	15896	1174	41	2	1368	2	TIGD5	8	144681439	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	313	144681439	1682583	254	24367			1	28		3	3	690	G		6.434547e-05
TIGD5	84948	broad.mit.edu	37	chr8	144681815	144681815	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggaggaggccaccgactatgGagggacctcagtgccgactg	16	11	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:144681815G>T	uc003yyx.1	+	1	1595	c.1595G>T	c.(1594-1596)GGA>GTA	p.G532V	EEF1D_uc011lki.1_5'Flank|EEF1D_uc011lkj.1_5'Flank|EEF1D_uc003yyr.2_5'Flank|EEF1D_uc003yyt.2_5'Flank|EEF1D_uc011lkk.1_5'Flank|EEF1D_uc003yys.2_5'Flank|EEF1D_uc003yyv.2_5'Flank|EEF1D_uc003yyu.2_5'Flank|EEF1D_uc011lkl.1_5'Flank	NM_032862	NP_116251	Q53EQ6	TIGD5_HUMAN	tigger transposable element derived 5	581					regulation of transcription, DNA-dependent	chromosome, centromeric region	DNA binding				0	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)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			ACCGACTATGGAGGGACCTCA	0.716													6	40	---	---	---	---	PASS	T	144681815	T	T	144681815	3	4	62	1	0	0	0	0	1	0	0	0	15896	1174	41	2	1744	2	TIGD5	8	144681815	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	376	144681815	1682207	255	24368			1	28		3	3	690	G		6.434547e-05
PLEC	5339	broad.mit.edu	37	chr8	144996741	144996741	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttctcacgctccagctcagcGatggcctcccgcaggcgctc	10	18	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:144996741G>A	uc003zaf.1	-	31	7937	c.7767C>T	c.(7765-7767)ATC>ATT	p.I2589I	PLEC_uc003zab.1_Silent_p.I2452I|PLEC_uc003zac.1_Silent_p.I2456I|PLEC_uc003zad.2_Silent_p.I2452I|PLEC_uc003zae.1_Silent_p.I2420I|PLEC_uc003zag.1_Silent_p.I2430I|PLEC_uc003zah.2_Silent_p.I2438I|PLEC_uc003zaj.2_Silent_p.I2479I	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2589	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						CCAGCTCAGCGATGGCCTCCC	0.642													10	57	---	---	---	---	PASS	A	144996741	A	A	144996741	2	1	62	1	0	0	0	0	0	0	0	1	12052	1048	37	2		2	PLEC	8	144996741	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	314926	144996741	1367281	256	24369										
PLEC	5339	broad.mit.edu	37	chr8	145049349	145049349	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggccctgcgcagttacctgcGatgcgaatgaccgcccgctc	12	16	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:145049349G>A	uc003zaj.2	-	2	238	c.189C>T	c.(187-189)ATC>ATT	p.I63I	PLEC_uc003zah.2_5'Flank	NM_000445	NP_000436	Q15149	PLEC_HUMAN	plectin isoform 1c	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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						AGTTACCTGCGATGCGAATGA	0.687											OREG0019050	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	119	---	---	---	---	PASS	A	145049349	A	A	145049349	2	1	62	1	0	0	0	0	0	0	0	1	12052	1048	37	2		2	PLEC	8	145049349	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	52608	145049349	1314673	257	24370										
KIFC2	90990	broad.mit.edu	37	chr8	145693754	145693754	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agctccagggccggcttcagGaggcccaagacaccacagaa	12	14	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:145693754G>T	uc003zcz.2	+	8	918	c.853G>T	c.(853-855)GAG>TAG	p.E285*	CYHR1_uc003zcw.2_5'Flank|CYHR1_uc003zcx.2_5'Flank|CYHR1_uc003zcy.2_5'Flank	NM_145754	NP_665697	Q96AC6	KIFC2_HUMAN	kinesin family member C2	285	Potential.|Gln-rich.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CCGGCTTCAGGAGGCCCAAGA	0.667													16	88	---	---	---	---	PASS	T	145693754	T	T	145693754	4	4	62	1	0	0	0	0	0	1	0	0	8313	1175	41	2	883	2	KIFC2	8	145693754	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	644405	145693754	670268	258	24371										
MFSD3	113655	broad.mit.edu	37	chr8	145736103	145736103	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggacgctggcacaatcttgaGaggtgaggggctggccttga	17	8	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr8:145736103G>A	uc003zdi.1	+	3	1118	c.953G>A	c.(952-954)AGA>AAA	p.R318K		NM_138431	NP_612440	Q96ES6	MFSD3_HUMAN	major facilitator superfamily domain containing	318	Leu-rich.				transmembrane transport	integral to membrane				central_nervous_system(2)	2	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			ACAATCTTGAGAGGTGAGGGG	0.652													21	150	---	---	---	---	PASS	A	145736103	A	A	145736103	3	1	62	1	0	0	0	0	1	0	0	0	9532	942	33	2	963	2	MFSD3	8	145736103	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	42349	145736103	627919	259	24372										
ERMP1	79956	broad.mit.edu	37	chr9	5833008	5833008	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggtgccgcctcacagcagccGactcagaaccccactccatg	9	18	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr9:5833008G>A	uc003zjm.1	-	1	74	c.20C>T	c.(19-21)TCG>TTG	p.S7L	ERMP1_uc011lme.1_RNA|ERMP1_uc010mhs.1_5'UTR|ERMP1_uc003zjn.1_Missense_Mutation_p.S7L	NM_024896	NP_079172	Q7Z2K6	ERMP1_HUMAN	aminopeptidase Fxna	7	Cytoplasmic (Potential).				proteolysis	endoplasmic reticulum membrane|integral to membrane	metal ion binding|metallopeptidase activity			ovary(1)	1		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00115)|Lung(218;0.111)		CACAGCAGCCGACTCAGAACC	0.627													8	6	---	---	---	---	PASS	A	5833008	A	A	5833008	3	1	62	1	0	0	0	0	1	0	0	0	5236	1059	37	2	2754	2	ERMP1	9	5833008	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08		5833008	135380423	260	24373										
FRMD3	257019	broad.mit.edu	37	chr9	86004554	86004554	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtccacatagcgaatgccaaAgtagtccttctccagcaggc	9	13	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr9:86004554A>G	uc004ams.1	-	2	419	c.217T>C	c.(217-219)TTT>CTT	p.F73L	FRMD3_uc004amr.1_Missense_Mutation_p.F59L	NM_174938	NP_777598	A2A2Y4	FRMD3_HUMAN	FERM domain containing 3	73	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2						CGAATGCCAAAGTAGTCCTTC	0.498													19	72	---	---	---	---	PASS	G	86004554	G	G	86004554	3	3	62	1	0	0	0	0	1	0	0	0	6050	72	3	5	1628	5	FRMD3	9	86004554	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	80171546	86004554	55208877	261	24374										
RMI1	80010	broad.mit.edu	37	chr9	86616459	86616459	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctcttattgaaaccagaaaaCgtgaaagtgttaggaggtga	11	5	1	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr9:86616459C>T	uc004anq.3	+	3	966	c.558C>T	c.(556-558)AAC>AAT	p.N186N	RMI1_uc004anr.3_Silent_p.N186N|RMI1_uc004anp.3_Silent_p.N186N|RMI1_uc004ans.3_Silent_p.N186N	NM_024945	NP_079221	Q9H9A7	RMI1_HUMAN	RMI1, RecQ mediated genome instability 1,	186					DNA replication	nucleus					0						AACCAGAAAACGTGAAAGTGT	0.353													29	55	---	---	---	---	PASS	T	86616459	T	T	86616459	2	4	62	1	0	0	0	0	0	0	0	1	13395	535	19	1		1	RMI1	9	86616459	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	611905	86616459	54596972	262	24375										
PPP3R2	5535	broad.mit.edu	37	chr9	104357169	104357169	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	catcattgtcaaagtgggagCacatctccgccgggtaactg	11	11	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr9:104357169C>G	uc004bbr.2	-	1	115	c.44G>C	c.(43-45)TGC>TCC	p.C15S	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_RNA	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	12							calcium ion binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	AAAGTGGGAGCACATCTCCGC	0.562													32	46	---	---	---	---	PASS	G	104357169	G	G	104357169	3	3	62	1	0	0	0	0	1	0	0	0	12401	710	25	4	481	4	PPP3R2	9	104357169	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	17740710	104357169	36856262	263	24376										
KIAA1958	158405	broad.mit.edu	37	chr9	115421863	115421863	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gatgacagccctatcactctCctgtccactgtggtcaagta	8	13	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr9:115421863C>G	uc004bgf.1	+	4	1840	c.1665C>G	c.(1663-1665)CTC>CTG	p.L555L	KIAA1958_uc011lwx.1_Silent_p.L583L	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	555										skin(1)	1						CTATCACTCTCCTGTCCACTG	0.567													8	16	---	---	---	---	PASS	G	115421863	G	G	115421863	2	3	62	1	0	0	0	0	0	0	0	1	8264	842	30	2		2	KIAA1958	9	115421863	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	11064694	115421863	25791568	264	24377										
FKBP15	23307	broad.mit.edu	37	chr9	115940912	115940912	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cccccacctagcacatacctGagagctttgcctgcactttg	7	16	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr9:115940912G>C	uc004bgs.2	-	20	2202	c.2084C>G	c.(2083-2085)TCA>TGA	p.S695*	FKBP15_uc010muu.1_Nonsense_Mutation_p.S759*|FKBP15_uc004bgr.2_Nonsense_Mutation_p.S132*|FKBP15_uc011lxc.1_Nonsense_Mutation_p.S276*|FKBP15_uc011lxd.1_Nonsense_Mutation_p.S627*|FKBP15_uc010mut.1_Nonsense_Mutation_p.S563*	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	695	Potential.				endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						GCACATACCTGAGAGCTTTGC	0.463													4	7	---	---	---	---	PASS	C	115940912	C	C	115940912	4	2	62	1	0	0	0	0	0	1	0	0	5905	1294	45	2	1611	2	FKBP15	9	115940912	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	519049	115940912	25272519	265	24378										
QRFP	347148	broad.mit.edu	37	chr9	133768899	133768899	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gccaggttccctaacgggccGctggtcttctcccccgcagc	11	18	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr9:133768899G>T	uc011mcb.1	-	1	327	c.327C>A	c.(325-327)AGC>AGA	p.S109R		NM_198180	NP_937823	P83859	OX26_HUMAN	RF(Arg-Phe)amide family 26 amino acid peptide	109					locomotory behavior|neuropeptide signaling pathway|positive regulation of blood pressure|regulation of feeding behavior	extracellular region	neuropeptide hormone activity|orexigenic neuropeptide QRFP receptor binding				0	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.17e-05)|Epithelial(140;0.000267)		CTAACGGGCCGCTGGTCTTCT	0.647													48	58	---	---	---	---	PASS	T	133768899	T	T	133768899	3	4	62	1	0	0	0	0	1	0	0	0	12877	1078	38	1	86	1	QRFP	9	133768899	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	17827987	133768899	7444532	266	24379										
GFI1B	8328	broad.mit.edu	37	chr9	135866411	135866411	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aggtggacctgcggcggcacCgcgagagccagcacaatctc	14	14	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr9:135866411C>T	uc004ccg.2	+	7	1118	c.967C>T	c.(967-969)CGC>TGC	p.R323C	GFI1B_uc010mzy.2_Missense_Mutation_p.R277C	NM_004188	NP_004179	Q5VTD9	GFI1B_HUMAN	growth factor independent 1B transcription	323	C2H2-type 6.|Mediates interaction with GATA1.|Interaction with ARIH2.				cell proliferation|chromatin modification|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;9.04e-07)|Epithelial(140;1.17e-05)		GCGGCGGCACCGCGAGAGCCA	0.652													17	23	---	---	---	---	PASS	T	135866411	T	T	135866411	3	4	62	1	0	0	0	0	1	0	0	0	6340	652	23	1	989	1	GFI1B	9	135866411	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2097512	135866411	5347020	267	24380										
ABCA2	20	broad.mit.edu	37	chr9	139909531	139909531	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcggggcccgacctggggggCtggatgccagccctggctct	18	14	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr9:139909531C>A	uc011mem.1	-	24	3861	c.3713G>T	c.(3712-3714)AGC>ATC	p.S1238I	ABCA2_uc011mel.1_Missense_Mutation_p.S1239I|ABCA2_uc004ckl.1_Missense_Mutation_p.S1169I|ABCA2_uc004ckm.1_Missense_Mutation_p.S1269I|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1238					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		ACCTGGGGGGCTGGATGCCAG	0.652													17	91	---	---	---	---	PASS	A	139909531	A	A	139909531	3	1	62	1	0	0	0	0	1	0	0	0	32	797	28	3	3694	3	ABCA2	9	139909531	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	4043120	139909531	1303900	268	24381										
TUBB8	347688	broad.mit.edu	37	chr10	93743	93743	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atctatgcaaaaggtctcatCtgcgttttctatgagctggt	9	8	4	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:93743C>G	uc001ifi.2	-	4	589	c.589G>C	c.(589-591)GAT>CAT	p.D197H	TUBB8_uc009xhe.2_Missense_Mutation_p.D160H|TUBB8_uc010pzs.1_Missense_Mutation_p.D125H	NM_177987	NP_817124	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 isoform 1	197					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		all_cancers(4;0.00131)|all_lung(4;0.000777)|Lung NSC(4;0.0043)|all_epithelial(10;0.0154)|Colorectal(49;0.235)		Epithelial(11;0.00341)|all cancers(11;0.00922)|OV - Ovarian serous cystadenocarcinoma(14;0.0508)|Lung(33;0.132)		AAGGTCTCATCTGCGTTTTCT	0.522													71	159	---	---	---	---	PASS	G	93743	G	G	93743	3	3	62	1	0	0	0	0	1	0	0	0	16758	913	32	2	749	2	TUBB8	10	93743	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08		93743	135441004	269	24382										
ZMYND11	10771	broad.mit.edu	37	chr10	282786	282786	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttttttcaatagagcattaaGaagaagaatacaaacaaaca	5	5	1	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:282786G>C	uc010pzt.1	+	5	875	c.447G>C	c.(445-447)AAG>AAC	p.K149N	ZMYND11_uc001ifk.2_Missense_Mutation_p.K149N|ZMYND11_uc010pzu.1_Missense_Mutation_p.K149N|ZMYND11_uc010pzv.1_Missense_Mutation_p.K95N|ZMYND11_uc010pzw.1_Missense_Mutation_p.K95N|ZMYND11_uc001ifm.2_Missense_Mutation_p.K95N|ZMYND11_uc010pzx.1_Missense_Mutation_p.K149N|ZMYND11_uc001ifn.2_Missense_Mutation_p.K95N|ZMYND11_uc009xhg.2_Missense_Mutation_p.K132N|ZMYND11_uc009xhh.2_Missense_Mutation_p.K49N|ZMYND11_uc010pzy.1_Missense_Mutation_p.K49N	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	109					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)		AGAGCATTAAGAAGAAGAATA	0.338													8	48	---	---	---	---	PASS	C	282786	C	C	282786	3	2	62	1	0	0	0	0	1	0	0	0	17703	933	33	2	461	2	ZMYND11	10	282786	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	189043	282786	135251961	270	24383										
IDI2	91734	broad.mit.edu	37	chr10	1065705	1065705	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaggtaacaaatttcatgctCtccccaaattctgtctgatt	5	10	4	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:1065705C>G	uc001ifv.1	-	5	501	c.436G>C	c.(436-438)GAG>CAG	p.E146Q	C10orf110_uc010qaf.1_5'Flank|C10orf110_uc001ifx.3_5'Flank|C10orf110_uc001ifw.3_5'Flank|C10orf110_uc001ify.3_5'Flank	NM_033261	NP_150286	Q9BXS1	IDI2_HUMAN	isopentenyl-diphosphate delta isomerase 2	146	Nudix hydrolase.	Magnesium (By similarity).			carotenoid biosynthetic process|cholesterol biosynthetic process	cytosol|peroxisome	hydrolase activity|isopentenyl-diphosphate delta-isomerase activity|metal ion binding				0		Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.143)	Epithelial(11;0.067)|OV - Ovarian serous cystadenocarcinoma(14;0.169)|all cancers(11;0.192)		ATTTCATGCTCTCCCCAAATT	0.438													29	74	---	---	---	---	PASS	G	1065705	G	G	1065705	3	3	62	1	0	0	0	0	1	0	0	0	7500	922	32	2	251	2	IDI2	10	1065705	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	782919	1065705	134469042	271	24384										
FAM171A1	221061	broad.mit.edu	37	chr10	15255181	15255181	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcgggggtacagaccgtggtCccacattcgctaccactctg	11	14	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:15255181C>A	uc001iob.2	-	8	2413	c.2406G>T	c.(2404-2406)GGG>GGT	p.G802G		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	802	Cytoplasmic (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						AGACCGTGGTCCCACATTCGC	0.622													22	37	---	---	---	---	PASS	A	15255181	A	A	15255181	2	1	62	1	0	0	0	0	0	0	0	1	5490	842	30	2		2	FAM171A1	10	15255181	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	14189476	15255181	120279566	272	24385										
CUBN	8029	broad.mit.edu	37	chr10	17024625	17024625	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttggagaatgaatctctccaCtgggagcctggaaaatccca	10	10	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:17024625C>A	uc001ioo.2	-	31	4605	c.4553G>T	c.(4552-4554)AGT>ATT	p.S1518I		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1518	CUB 10.				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)	AATCTCTCCACTGGGAGCCTG	0.443													19	38	---	---	---	---	PASS	A	17024625	A	A	17024625	3	1	62	1	0	0	0	0	1	0	0	0	4051	565	20	3	6466	3	CUBN	10	17024625	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1769444	17024625	118510122	273	24386										
ANKRD30A	91074	broad.mit.edu	37	chr10	37508275	37508275	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgtacaagaccatgatcaaaTtgtgacatcaagaaaaagtc	7	7	2	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:37508275T>A	uc001iza.1	+	34	3566	c.3467T>A	c.(3466-3468)ATT>AAT	p.I1156N		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1212						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						CATGATCAAATTGTGACATCA	0.363													17	64	---	---	---	---	PASS	A	37508275	A	A	37508275	3	1	62	1	0	0	0	0	1	0	0	0	658	1493	52	5	3601	5	ANKRD30A	10	37508275	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	20483650	37508275	98026472	274	24387										
ZNF37A	7587	broad.mit.edu	37	chr10	38407496	38407496	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cttttggatgtaatgaatgtGggaaaaccttccgtcagaag	11	6	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:38407496G>T	uc001izk.2	+	8	2236	c.1417G>T	c.(1417-1419)GGG>TGG	p.G473W	ZNF37A_uc001izl.2_Missense_Mutation_p.G473W|ZNF37A_uc001izm.2_Missense_Mutation_p.G473W	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	473	C2H2-type 10.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						TAATGAATGTGGGAAAACCTT	0.398													17	51	---	---	---	---	PASS	T	38407496	T	T	38407496	3	4	62	1	0	0	0	0	1	0	0	0	17869	1348	47	3	1431	3	ZNF37A	10	38407496	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	899221	38407496	97127251	275	24388										
PCDH15	65217	broad.mit.edu	37	chr10	55591249	55591249	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtcctccttccccataatacGgctgaaagtctttattgata	6	11	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:55591249G>T	uc001jju.1	-	30	4423	c.4028C>A	c.(4027-4029)CCG>CAG	p.P1343Q	PCDH15_uc010qhq.1_Missense_Mutation_p.P1348Q|PCDH15_uc010qhr.1_Missense_Mutation_p.P1343Q|PCDH15_uc010qhs.1_Missense_Mutation_p.P1355Q|PCDH15_uc010qht.1_Missense_Mutation_p.P1350Q|PCDH15_uc010qhu.1_Missense_Mutation_p.P1343Q|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.P1343Q|PCDH15_uc010qhw.1_Missense_Mutation_p.P1306Q|PCDH15_uc010qhx.1_Missense_Mutation_p.P1272Q|PCDH15_uc010qhy.1_Missense_Mutation_p.P1348Q|PCDH15_uc010qhz.1_Missense_Mutation_p.P1343Q|PCDH15_uc010qia.1_Missense_Mutation_p.P1321Q|PCDH15_uc010qib.1_Missense_Mutation_p.P1321Q	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1343	Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CCCATAATACGGCTGAAAGTC	0.398										HNSCC(58;0.16)			12	67	---	---	---	---	PASS	T	55591249	T	T	55591249	3	4	62	1	0	0	0	0	1	0	0	0	11511	1116	39	1	3474	1	PCDH15	10	55591249	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	17183753	55591249	79943498	276	24389										
PCDH15	65217	broad.mit.edu	37	chr10	55600180	55600180	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttctagggaaaaggcatctcCatgccggcgagctccaatgg	12	11	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:55600180C>A	uc001jju.1	-	29	4278	c.3883G>T	c.(3883-3885)GGA>TGA	p.G1295*	PCDH15_uc010qhq.1_Nonsense_Mutation_p.G1300*|PCDH15_uc010qhr.1_Nonsense_Mutation_p.G1295*|PCDH15_uc010qhs.1_Nonsense_Mutation_p.G1307*|PCDH15_uc010qht.1_Nonsense_Mutation_p.G1302*|PCDH15_uc010qhu.1_Nonsense_Mutation_p.G1295*|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Nonsense_Mutation_p.G1295*|PCDH15_uc010qhw.1_Nonsense_Mutation_p.G1258*|PCDH15_uc010qhx.1_Nonsense_Mutation_p.G1224*|PCDH15_uc010qhy.1_Nonsense_Mutation_p.G1300*|PCDH15_uc010qhz.1_Nonsense_Mutation_p.G1295*|PCDH15_uc010qia.1_Nonsense_Mutation_p.G1273*|PCDH15_uc010qib.1_Nonsense_Mutation_p.G1273*	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1295	Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AAGGCATCTCCATGCCGGCGA	0.438										HNSCC(58;0.16)			28	74	---	---	---	---	PASS	A	55600180	A	A	55600180	4	1	62	1	0	0	0	0	0	1	0	0	11511	603	21	3	3623	3	PCDH15	10	55600180	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	8931	55600180	79934567	277	24390										
CTNNA3	29119	broad.mit.edu	37	chr10	68526066	68526066	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atgaaatatcgcagcatattCttttatttccttttcccggc	5	10	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:68526066C>G	uc009xpn.1	-	9	1360	c.1237G>C	c.(1237-1239)GAA>CAA	p.E413Q	CTNNA3_uc001jmw.2_Missense_Mutation_p.E413Q|CTNNA3_uc001jmx.3_Missense_Mutation_p.E413Q	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	413					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						GCAGCATATTCTTTTATTTCC	0.433													50	129	---	---	---	---	PASS	G	68526066	G	G	68526066	3	3	62	1	0	0	0	0	1	0	0	0	4014	922	32	2	1490	2	CTNNA3	10	68526066	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	12925886	68526066	67008681	278	24391										
COL13A1	1305	broad.mit.edu	37	chr10	71664711	71664711	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cttacctgggcctcctggacCaaaggtgagtgtccttctgg	12	12	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:71664711C>A	uc001jpr.1	+	15	1447	c.911C>A	c.(910-912)CCA>CAA	p.P304Q	COL13A1_uc001jqj.1_Missense_Mutation_p.P304Q|COL13A1_uc001jps.1_Missense_Mutation_p.P275Q|COL13A1_uc001jpt.1_Missense_Mutation_p.P263Q|COL13A1_uc001jpu.1_Missense_Mutation_p.P285Q|COL13A1_uc001jpv.1_Missense_Mutation_p.P304Q|COL13A1_uc001jpx.1_Missense_Mutation_p.P282Q|COL13A1_uc001jpw.1_Missense_Mutation_p.P251Q|COL13A1_uc001jpy.1_Missense_Mutation_p.P242Q|COL13A1_uc001jpz.1_Missense_Mutation_p.P247Q|COL13A1_uc001jqa.1_Missense_Mutation_p.P244Q|COL13A1_uc001jqc.1_Missense_Mutation_p.P304Q|COL13A1_uc001jqb.1_Missense_Mutation_p.P253Q|COL13A1_uc001jql.2_Missense_Mutation_p.P304Q|COL13A1_uc001jqd.1_Missense_Mutation_p.P292Q|COL13A1_uc001jqe.1_Missense_Mutation_p.P287Q|COL13A1_uc001jqf.1_Missense_Mutation_p.P285Q|COL13A1_uc001jqg.1_Missense_Mutation_p.P282Q|COL13A1_uc001jqh.1_Missense_Mutation_p.P304Q|COL13A1_uc001jqi.1_Missense_Mutation_p.P304Q|COL13A1_uc010qjf.1_Missense_Mutation_p.P94Q|COL13A1_uc001jqk.1_Missense_Mutation_p.P142Q	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	304	Extracellular (Potential).|Triple-helical region 2 (COL2).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	CCTCCTGGACCAAAGGTGAGT	0.493													3	7	---	---	---	---	PASS	A	71664711	A	A	71664711	3	1	62	1	0	0	0	0	1	0	0	0	3670	594	21	3	973	3	COL13A1	10	71664711	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	3138645	71664711	63870036	279	24392										
COL13A1	1305	broad.mit.edu	37	chr10	71682537	71682537	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccctccagggctccctgggcCcccagggccaaaggtgagtg	14	16	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:71682537C>A	uc001jpr.1	+	21	1720	c.1184C>A	c.(1183-1185)CCC>CAC	p.P395H	COL13A1_uc001jqj.1_Missense_Mutation_p.P395H|COL13A1_uc001jps.1_Missense_Mutation_p.P366H|COL13A1_uc001jpt.1_Missense_Mutation_p.P354H|COL13A1_uc001jpu.1_Missense_Mutation_p.P376H|COL13A1_uc001jpv.1_Missense_Mutation_p.P395H|COL13A1_uc001jpx.1_Missense_Mutation_p.P373H|COL13A1_uc001jpw.1_Missense_Mutation_p.P342H|COL13A1_uc001jpy.1_Missense_Mutation_p.P333H|COL13A1_uc001jpz.1_Missense_Mutation_p.P338H|COL13A1_uc001jqa.1_Missense_Mutation_p.P335H|COL13A1_uc001jqc.1_Missense_Mutation_p.P395H|COL13A1_uc001jqb.1_Missense_Mutation_p.P344H|COL13A1_uc001jql.2_Missense_Mutation_p.P395H|COL13A1_uc001jqd.1_Missense_Mutation_p.P383H|COL13A1_uc001jqe.1_Missense_Mutation_p.P378H|COL13A1_uc001jqf.1_Missense_Mutation_p.P376H|COL13A1_uc001jqg.1_Missense_Mutation_p.P373H|COL13A1_uc001jqh.1_Missense_Mutation_p.P395H|COL13A1_uc001jqi.1_Missense_Mutation_p.P395H|COL13A1_uc010qjf.1_Missense_Mutation_p.P185H|COL13A1_uc001jqk.1_Missense_Mutation_p.P233H	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	395	Extracellular (Potential).|Triple-helical region 2 (COL2).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	CTCCCTGGGCCCCCAGGGCCA	0.617													6	14	---	---	---	---	PASS	A	71682537	A	A	71682537	3	1	62	1	0	0	0	0	1	0	0	0	3670	623	22	3	1270	3	COL13A1	10	71682537	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	17826	71682537	63852210	280	24393										
USP54	159195	broad.mit.edu	37	chr10	75276616	75276616	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tggtctatccccaccctccaGagaggattgttgctttgccc	9	14	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:75276616G>A	uc001juo.2	-	18	3585	c.3568C>T	c.(3568-3570)CTG>TTG	p.L1190L	USP54_uc010qkk.1_Silent_p.L372L|USP54_uc001juk.2_Silent_p.L278L|USP54_uc001jul.2_Silent_p.L278L|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	1190					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					CCACCCTCCAGAGAGGATTGT	0.502													113	251	---	---	---	---	PASS	A	75276616	A	A	75276616	2	1	62	1	0	0	0	0	0	0	0	1	17082	933	33	2		2	USP54	10	75276616	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	3594079	75276616	60258131	281	24394										
GLUD1	2746	broad.mit.edu	37	chr10	88817471	88817471	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tatcctgtcttggaactctgCcgtgggtacaatgggaatag	12	8	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:88817471C>T	uc001keh.2	-	11	1568	c.1471G>A	c.(1471-1473)GCA>ACA	p.A491T	GLUD1_uc001keg.2_Missense_Mutation_p.A324T|GLUD1_uc010qmp.1_Missense_Mutation_p.A358T	NM_005271	NP_005262	P00367	DHE3_HUMAN	glutamate dehydrogenase 1 precursor	491					glutamate biosynthetic process|glutamate catabolic process|positive regulation of insulin secretion	mitochondrial matrix	ADP binding|ATP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|identical protein binding|leucine binding|NAD+ binding				0					L-Glutamic Acid(DB00142)|NADH(DB00157)	TGGAACTCTGCCGTGGGTACA	0.428													4	132	---	---	---	---	PASS	T	88817471	T	T	88817471	3	4	62	1	0	0	0	0	1	0	0	0	6476	739	26	3	217	3	GLUD1	10	88817471	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	13540855	88817471	46717276	282	24395										
KIF20B	9585	broad.mit.edu	37	chr10	91497625	91497625	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aacatagatttgctcaatctCagggatctgtcaaatggttc	8	8	4	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:91497625C>G	uc001kgs.1	+	20	3099	c.3027C>G	c.(3025-3027)CTC>CTG	p.L1009L	KIF20B_uc001kgr.1_Silent_p.L969L|KIF20B_uc001kgt.1_Silent_p.L220L|KIF20B_uc009xtw.1_RNA	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	1009					cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						TGCTCAATCTCAGGGATCTGT	0.323													15	88	---	---	---	---	PASS	G	91497625	G	G	91497625	2	3	62	1	0	0	0	0	0	0	0	1	8287	813	29	2		2	KIF20B	10	91497625	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	2680154	91497625	44037122	283	24396										
TNKS2	80351	broad.mit.edu	37	chr10	93608302	93608302	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcctttctgcagccagcagtCttgacaacttatctgggagt	10	11	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:93608302C>G	uc001khp.2	+	19	2818	c.2521C>G	c.(2521-2523)CTT>GTT	p.L841V		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	841					positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				AGCCAGCAGTCTTGACAACTT	0.493													19	86	---	---	---	---	PASS	G	93608302	G	G	93608302	3	3	62	1	0	0	0	0	1	0	0	0	16318	913	32	2	2595	2	TNKS2	10	93608302	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2110677	93608302	41926445	284	24397										
PKD2L1	9033	broad.mit.edu	37	chr10	102054753	102054753	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gggtcccgaaaagcaggtagCcgagttgggcataggcgaag	17	8	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:102054753C>A	uc001kqx.1	-	8	1867	c.1484G>T	c.(1483-1485)GGC>GTC	p.G495V	PKD2L1_uc009xwm.1_Missense_Mutation_p.G448V	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	495	Helical; (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		AAGCAGGTAGCCGAGTTGGGC	0.562													14	58	---	---	---	---	PASS	A	102054753	A	A	102054753	3	1	62	1	0	0	0	0	1	0	0	0	11967	739	26	3	969	3	PKD2L1	10	102054753	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	8446451	102054753	33479994	285	24398										
PSD	5662	broad.mit.edu	37	chr10	104172152	104172152	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctttacttcttgcccaggtgCcgggccacatcggccttcct	9	16	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:104172152C>T	uc001kvg.1	-	6	2261	c.1734G>A	c.(1732-1734)CGG>CGA	p.R578R	PSD_uc001kvh.1_Silent_p.R199R|PSD_uc009xxd.1_Silent_p.R578R	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	578	SEC7.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		TGCCCAGGTGCCGGGCCACAT	0.597													11	28	---	---	---	---	PASS	T	104172152	T	T	104172152	2	4	62	1	0	0	0	0	0	0	0	1	12646	726	26	3		3	PSD	10	104172152	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	2117399	104172152	31362595	286	24399										
SORCS1	114815	broad.mit.edu	37	chr10	108923810	108923810	+	Nonsense_Mutation	SNP	T	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaacgtggtgctggtcagtcTcagctcctccatccggaagc							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:108923810T>A	uc001kym.2	-	1	483	c.475A>T	c.(475-477)AGA>TGA	p.R159*	SORCS1_uc001kyl.2_Nonsense_Mutation_p.R159*|SORCS1_uc009xxs.2_Nonsense_Mutation_p.R159*|SORCS1_uc001kyn.1_Nonsense_Mutation_p.R159*|SORCS1_uc001kyo.2_Nonsense_Mutation_p.R159*	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	159	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CTGGTCAGTCTCAGCTCCTCC	0.632													12	63	---	---	---	---	PASS	A	108923810	A	A	108923810	4	1	62	1	0	0	0	0	0	1	0	0	14930	1559	54	5	3369	5	SORCS1	10	108923810	Nonsense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	4751658	108923810	26610937	287	24400	527	2								
SORCS1	114815	broad.mit.edu	37	chr10	108923811	108923811	+	Silent	SNP	C	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aacgtggtgctggtcagtctCagctcctccatccggaagcg							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:108923811C>A	uc001kym.2	-	1	482	c.474G>T	c.(472-474)CTG>CTT	p.L158L	SORCS1_uc001kyl.2_Silent_p.L158L|SORCS1_uc009xxs.2_Silent_p.L158L|SORCS1_uc001kyn.1_Silent_p.L158L|SORCS1_uc001kyo.2_Silent_p.L158L	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	158	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TGGTCAGTCTCAGCTCCTCCA	0.637													12	64	---	---	---	---	PASS	A	108923811	A	A	108923811	2	1	62	1	0	0	0	0	0	0	0	1	14930	813	29	2		2	SORCS1	10	108923811	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	1	108923811	26610936	288	24401	527	2								
SMC3	9126	broad.mit.edu	37	chr10	112361435	112361435	+	Silent	SNP	G	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaaacagaagctggaattaaGgagcttcagaagagtatgga							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:112361435G>A	uc001kze.2	+	24	2811	c.2685G>A	c.(2683-2685)AAG>AAA	p.K895K		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	895	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)		CTGGAATTAAGGAGCTTCAGA	0.353													20	147	---	---	---	---	PASS	A	112361435	A	A	112361435	2	1	62	1	0	0	0	0	0	0	0	1	14784	991	35	3		3	SMC3	10	112361435	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	3437624	112361435	23173312	289	24402	528	2								
SMC3	9126	broad.mit.edu	37	chr10	112361436	112361436	+	Missense_Mutation	SNP	G	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaacagaagctggaattaagGagcttcagaagagtatggag							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:112361436G>A	uc001kze.2	+	24	2812	c.2686G>A	c.(2686-2688)GAG>AAG	p.E896K		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	896	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)		TGGAATTAAGGAGCTTCAGAA	0.353													20	146	---	---	---	---	PASS	A	112361436	A	A	112361436	3	1	62	1	0	0	0	0	1	0	0	0	14784	1175	41	2	2780	2	SMC3	10	112361436	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1	112361436	23173311	290	24403	528	2								
HABP2	3026	broad.mit.edu	37	chr10	115341888	115341888	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctcactgctgcccactgcacCgagtaggtgccgctgggagc	13	15	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:115341888C>A	uc001lai.3	+	9	1195	c.1092C>A	c.(1090-1092)ACC>ACA	p.T364T	HABP2_uc010qrz.1_Intron	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	364	Peptidase S1.				cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		CCCACTGCACCGAGTAGGTGC	0.637													3	19	---	---	---	---	PASS	A	115341888	A	A	115341888	2	1	62	1	0	0	0	0	0	0	0	1	6938	639	23	1		1	HABP2	10	115341888	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	2980452	115341888	20192859	291	24404										
ATRNL1	26033	broad.mit.edu	37	chr10	117093882	117093882	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aggaaagcagtgtcaagattGtatgccaggttattatggag	13	4	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:117093882G>T	uc001lcg.2	+	19	3514	c.3128G>T	c.(3127-3129)TGT>TTT	p.C1043F	ATRNL1_uc010qsm.1_Intron|ATRNL1_uc010qsn.1_Intron	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	1043	Laminin EGF-like 1.|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)		TGTCAAGATTGTATGCCAGGT	0.368													10	51	---	---	---	---	PASS	T	117093882	T	T	117093882	3	4	62	1	0	0	0	0	1	0	0	0	1207	1377	48	3	3202	3	ATRNL1	10	117093882	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1751994	117093882	18440865	292	24405										
PNLIPRP3	119548	broad.mit.edu	37	chr10	118231286	118231286	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttccttatatctaggttggaGgcacaaattgtctgttaaac	8	7	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:118231286G>A	uc001lcl.3	+	10	1168	c.1067G>A	c.(1066-1068)AGG>AAG	p.R356K		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	356	PLAT.				lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		CTAGGTTGGAGGCACAAATTG	0.413													31	166	---	---	---	---	PASS	A	118231286	A	A	118231286	3	1	62	1	0	0	0	0	1	0	0	0	12152	1000	35	3	1105	3	PNLIPRP3	10	118231286	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1137404	118231286	17303461	293	24406										
SLC18A2	6571	broad.mit.edu	37	chr10	119012937	119012937	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tatccaattcccatatttgcGggattctgcatcatgtttgt	7	9	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr10:119012937G>C	uc001ldd.1	+	4	523	c.492G>C	c.(490-492)GCG>GCC	p.A164A	SLC18A2_uc009xyy.1_5'UTR	NM_003054	NP_003045	Q05940	VMAT2_HUMAN	solute carrier family 18 (vesicular monoamine),	164	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted monoamine transport vesicle membrane|integral to plasma membrane|membrane fraction	monoamine transmembrane transporter activity				0		Colorectal(252;0.19)		all cancers(201;0.029)	Alseroxylon(DB00386)|Reserpine(DB00206)|Tetrabenazine(DB04844)	CCATATTTGCGGGATTCTGCA	0.433													19	136	---	---	---	---	PASS	C	119012937	C	C	119012937	2	2	62	1	0	0	0	0	0	0	0	1	14426	1103	39	4		4	SLC18A2	10	119012937	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	781651	119012937	16521810	294	24407										
LRDD	55367	broad.mit.edu	37	chr11	803520	803520	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gccagatgggccaggccactCagaccagcgggcaggttggt	16	12	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:803520C>T	uc001lro.1	-	3	505	c.363G>A	c.(361-363)CTG>CTA	p.L121L	LRDD_uc009yck.1_5'Flank|LRDD_uc001lrk.1_Silent_p.L121L|LRDD_uc001lrl.1_5'UTR|LRDD_uc001lrm.1_5'UTR|LRDD_uc001lrn.1_5'UTR|LRDD_uc001lrp.1_5'UTR	NM_145886	NP_665893	Q9HB75	PIDD_HUMAN	leucine rich repeat and death domain containing	121					apoptosis|signal transduction	cytoplasm|nucleus	death receptor binding				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCAGGCCACTCAGACCAGCGG	0.677													8	27	---	---	---	---	PASS	T	803520	T	T	803520	2	4	62	1	0	0	0	0	0	0	0	1	8936	813	29	2		2	LRDD	11	803520	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08		803520	134202996	295	24408										
CHID1	66005	broad.mit.edu	37	chr11	884148	884148	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgctcaaactccttgtgcgtGaacatgcccagctggtcggt	11	12	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:884148G>A	uc001lsl.2	-	9	884	c.723C>T	c.(721-723)TTC>TTT	p.F241F	CHID1_uc010qwu.1_Silent_p.F271F|CHID1_uc010qwv.1_Silent_p.F302F|CHID1_uc001lsn.2_Silent_p.F266F|CHID1_uc001lsm.2_Silent_p.F241F|CHID1_uc001lso.2_Silent_p.F241F|CHID1_uc001lsp.2_Silent_p.F210F|CHID1_uc010qww.1_Silent_p.F241F|uc001lsq.1_5'Flank|uc001lsr.1_5'Flank	NM_023947	NP_076436	Q9BWS9	CHID1_HUMAN	chitinase domain containing 1 isoform a	241					chitin catabolic process|innate immune response	extracellular region|lysosome	cation binding|chitinase activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.48e-25)|Epithelial(43;3.75e-24)|BRCA - Breast invasive adenocarcinoma(625;4.65e-05)|Lung(200;0.0624)|LUSC - Lung squamous cell carcinoma(625;0.0735)		CCTTGTGCGTGAACATGCCCA	0.612													9	30	---	---	---	---	PASS	A	884148	A	A	884148	2	1	62	1	0	0	0	0	0	0	0	1	3345	1281	45	2		2	CHID1	11	884148	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	80628	884148	134122368	296	24409										
MUC2	4583	broad.mit.edu	37	chr11	1087495	1087495	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtgcacgactcgtgctcctgTgacacgggtggggactgtga	16	10	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:1087495T>A	uc001lsx.1	+	24	3273	c.3246T>A	c.(3244-3246)TGT>TGA	p.C1082*		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	1082						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	CGTGCTCCTGTGACACGGGTG	0.657													6	37	---	---	---	---	PASS	A	1087495	A	A	1087495	4	1	62	1	0	0	0	0	0	1	0	0	9975	1702	59	5	3340	5	MUC2	11	1087495	Nonsense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	203347	1087495	133919021	297	24410										
OR52B4	143496	broad.mit.edu	37	chr11	4389100	4389100	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtcacacaaattttcttgatCagagcatttgtaagaatggt	8	6	3	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:4389100C>A	uc010qye.1	-	1	426	c.426G>T	c.(424-426)CTG>CTT	p.L142L		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0249)|all_neural(188;0.0577)		Epithelial(150;1.57e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0826)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTTTCTTGATCAGAGCATTTG	0.383													20	63	---	---	---	---	PASS	A	4389100	A	A	4389100	2	1	62	1	0	0	0	0	0	0	0	1	11112	813	29	2		2	OR52B4	11	4389100	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	3301605	4389100	130617416	298	24411										
TPP1	1200	broad.mit.edu	37	chr11	6635806	6635806	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gagtagagtcttcagcaaagCtgggaagttgggtgttcccc	14	8	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:6635806C>A	uc001mel.1	-	13	1724	c.1663G>T	c.(1663-1665)GCT>TCT	p.A555S	TAF10_uc001mej.1_5'Flank|TPP1_uc001mek.1_Missense_Mutation_p.A312S	NM_000391	NP_000382	O14773	TPP1_HUMAN	tripeptidyl-peptidase I preproprotein	555					bone resorption|cell death|lipid metabolic process|lysosome organization|nervous system development|neuromuscular process controlling balance|peptide catabolic process|protein catabolic process|proteolysis	lysosome|melanosome|soluble fraction	metal ion binding|peptide binding|protein binding|serine-type endopeptidase activity|tripeptidyl-peptidase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;3.45e-09)|BRCA - Breast invasive adenocarcinoma(625;0.131)		TTCAGCAAAGCTGGGAAGTTG	0.562													18	77	---	---	---	---	PASS	A	6635806	A	A	6635806	3	1	62	1	0	0	0	0	1	0	0	0	16408	797	28	3	32	3	TPP1	11	6635806	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2246706	6635806	128370710	299	24412										
SERGEF	26297	broad.mit.edu	37	chr11	18029510	18029510	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtgacaactgcagagtggccCcctcctcctgtgatcctcct	9	16	0	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:18029510C>T	uc001mnm.2	-	2	254	c.174G>A	c.(172-174)GGG>GGA	p.G58G	SERGEF_uc009yhd.2_RNA|SERGEF_uc001mnn.2_Silent_p.G58G|SERGEF_uc010rcz.1_5'UTR|SERGEF_uc001mno.1_5'UTR	NM_012139	NP_036271	Q9UGK8	SRGEF_HUMAN	deafness locus associated putative guanine	58	RCC1 1.				negative regulation of protein secretion|signal transduction	cytoplasm|nucleus	protein binding|Ran guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1						CAGAGTGGCCCCCTCCTCCTG	0.468													23	62	---	---	---	---	PASS	T	18029510	T	T	18029510	2	4	62	1	0	0	0	0	0	0	0	1	14077	610	22	3		3	SERGEF	11	18029510	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	11393704	18029510	116977006	300	24413										
SAAL1	113174	broad.mit.edu	37	chr11	18111804	18111804	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctttcaacccaaacactggcCacttctgcctgggaaaggca	8	14	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:18111804C>A	uc001mnq.2	-	6	557	c.507G>T	c.(505-507)GTG>GTT	p.V169V	SAAL1_uc001mnr.2_Silent_p.V169V|SAAL1_uc001mns.2_RNA|SAAL1_uc009yhf.2_Silent_p.V169V	NM_138421	NP_612430	Q96ER3	SAAL1_HUMAN	serum amyloid A-like 1	169					acute-phase response	extracellular region	binding				0						AAACACTGGCCACTTCTGCCT	0.373													7	44	---	---	---	---	PASS	A	18111804	A	A	18111804	2	1	62	1	0	0	0	0	0	0	0	1	13801	581	21	3		3	SAAL1	11	18111804	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	82294	18111804	116894712	301	24414										
MRGPRX2	117194	broad.mit.edu	37	chr11	19077955	19077955	+	Translation_Start_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggtggttggatccatgctcaGaaaacctccactggtgcccc	11	13	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:19077955G>T	uc001mph.2	-	2	83	c.-5C>A	c.(-7--3)TTCTG>TTATG			NM_054030	NP_473371	Q96LB1	MRGX2_HUMAN	MAS-related GPR, member X2						sensory perception of pain|sleep	plasma membrane	G-protein coupled receptor activity|neuropeptide binding			ovary(1)	1						TCCATGCTCAGAAAACCTCCA	0.413													37	188	---	---	---	---	PASS	T	19077955	T	T	19077955	1	4	62	1	0	0	0	0	0	0	0	0	9767	957	33	2		2	MRGPRX2	11	19077955	Translation_Start_Site	SNP	G	TCGA-33-6737-01A-11D-1817-08	966151	19077955	115928561	302	24415										
NAV2	89797	broad.mit.edu	37	chr11	20124928	20124928	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tctgggagagatcttcaatgGgctgctcaactgcaagtacc	11	10	4	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:20124928G>T	uc001mpr.3	+	33	6915	c.6554G>T	c.(6553-6555)GGG>GTG	p.G2185V	NAV2_uc001mpp.2_Missense_Mutation_p.G2118V|NAV2_uc009yhx.2_Missense_Mutation_p.G1246V|NAV2_uc009yhz.2_Missense_Mutation_p.G827V|NAV2_uc001mpu.2_Missense_Mutation_p.G620V|NAV2_uc001mpv.2_5'Flank	NM_182964	NP_892009	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 1	2241						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						ATCTTCAATGGGCTGCTCAAC	0.557													18	94	---	---	---	---	PASS	T	20124928	T	T	20124928	3	4	62	1	0	0	0	0	1	0	0	0	10184	1232	43	3	6793	3	NAV2	11	20124928	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1046973	20124928	114881588	303	24416										
ANO5	203859	broad.mit.edu	37	chr11	22294421	22294421	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aatattgtagagattcgagtGgatgcctggaaacttaccac	10	7	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:22294421G>T	uc001mqi.2	+	19	2438	c.2121G>T	c.(2119-2121)GTG>GTT	p.V707V	ANO5_uc001mqj.2_Silent_p.V706V	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	707	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						AGATTCGAGTGGATGCCTGGA	0.393													14	58	---	---	---	---	PASS	T	22294421	T	T	22294421	2	4	62	1	0	0	0	0	0	0	0	1	700	1335	47	3		3	ANO5	11	22294421	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	2169493	22294421	112712095	304	24417										
CCDC73	493860	broad.mit.edu	37	chr11	32635290	32635290	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcctccagctgtccttcactGaacatttttcctgaaacaat	4	13	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:32635290G>A	uc001mtv.2	-	16	2618	c.2574C>T	c.(2572-2574)TTC>TTT	p.F858F		NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	858										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					GTCCTTCACTGAACATTTTTC	0.358													29	132	---	---	---	---	PASS	A	32635290	A	A	32635290	2	1	62	1	0	0	0	0	0	0	0	1	2846	1281	45	2		2	CCDC73	11	32635290	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	10340869	32635290	102371226	305	24418										
CD44	960	broad.mit.edu	37	chr11	35226076	35226076	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cagtccaggcaactcctagtAgtacaacggaagaaacagct	9	11	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:35226076A>G	uc001mvu.2	+	10	1605	c.1171A>G	c.(1171-1173)AGT>GGT	p.S391G	CD44_uc001mvv.2_Missense_Mutation_p.S348G|CD44_uc001mvw.2_Intron|CD44_uc001mvx.2_Intron|CD44_uc001mvy.2_Intron|CD44_uc001mwc.3_Intron|CD44_uc010rer.1_Intron|CD44_uc009ykh.2_Intron|CD44_uc010res.1_Intron|CD44_uc010ret.1_Intron|CD44_uc010reu.1_Intron	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	391	Extracellular (Potential).|Stem.				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	all_cancers(35;0.212)|all_lung(20;0.0874)|all_epithelial(35;0.112)	all_hematologic(20;0.107)	STAD - Stomach adenocarcinoma(6;0.00731)		Hyaluronidase(DB00070)	AACTCCTAGTAGTACAACGGA	0.443													35	56	---	---	---	---	PASS	G	35226076	G	G	35226076	3	3	62	1	0	0	0	0	1	0	0	0	3017	420	15	5	1209	5	CD44	11	35226076	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	2590786	35226076	99780440	306	24419										
RAG1	5896	broad.mit.edu	37	chr11	36595984	36595984	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaaatataatcaccacatctCaagtcacaaggaatcaaaag	4	9	4	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:36595984C>G	uc001mwu.3	+	2	1254	c.1130C>G	c.(1129-1131)TCA>TGA	p.S377*	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	377	RAG1-type.				histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				CACCACATCTCAAGTCACAAG	0.468									Familial_Hemophagocytic_Lymphohistiocytosis				16	60	---	---	---	---	PASS	G	36595984	G	G	36595984	4	3	62	1	0	0	0	0	0	1	0	0	13003	838	29	2	1132	2	RAG1	11	36595984	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1369908	36595984	98410532	307	24420										
API5	8539	broad.mit.edu	37	chr11	43357478	43357478	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cttcagcaggaccaaaaagaGatgccaggcagatttataac	9	9	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:43357478G>C	uc010rfh.1	+	13	1599	c.1426G>C	c.(1426-1428)GAT>CAT	p.D476H	API5_uc010rfg.1_Missense_Mutation_p.D465H|API5_uc001mxf.2_Missense_Mutation_p.D476H|API5_uc010rfi.1_Missense_Mutation_p.D422H|API5_uc001mxg.2_Missense_Mutation_p.D350H	NM_001142930	NP_001136402	Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5 isoform a	476					anti-apoptosis|apoptosis	cytoplasm|spliceosomal complex	fibroblast growth factor binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						ACCAAAAAGAGATGCCAGGCA	0.423													14	52	---	---	---	---	PASS	C	43357478	C	C	43357478	3	2	62	1	0	0	0	0	1	0	0	0	773	942	33	2	1476	2	API5	11	43357478	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	6761494	43357478	91649038	308	24421										
SYT13	57586	broad.mit.edu	37	chr11	45265766	45265766	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccagcacttccagctccacaCtggaggcctgcagcaggtcg	11	16	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:45265766C>G	uc001myq.2	-	6	1244	c.1118G>C	c.(1117-1119)AGT>ACT	p.S373T	SYT13_uc009yku.1_Missense_Mutation_p.S229T	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	373	C2 2.|Cytoplasmic (Potential).					transport vesicle				ovary(1)	1						CAGCTCCACACTGGAGGCCTG	0.597													18	30	---	---	---	---	PASS	G	45265766	G	G	45265766	3	3	62	1	0	0	0	0	1	0	0	0	15466	565	20	4	166	4	SYT13	11	45265766	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1908288	45265766	89740750	309	24422										
CKAP5	9793	broad.mit.edu	37	chr11	46772716	46772716	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttatcagacttgctcccagtCtggtccatactgtgcttcat	7	12	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:46772716C>G	uc001ndi.1	-	40	5522	c.5412G>C	c.(5410-5412)CAG>CAC	p.Q1804H	CKAP5_uc009ylg.1_Missense_Mutation_p.Q1697H|CKAP5_uc001ndj.1_Missense_Mutation_p.Q1744H|CKAP5_uc001ndh.1_Missense_Mutation_p.Q733H	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	1804					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						TGCTCCCAGTCTGGTCCATAC	0.507													22	79	---	---	---	---	PASS	G	46772716	G	G	46772716	3	3	62	1	0	0	0	0	1	0	0	0	3445	912	32	2	706	2	CKAP5	11	46772716	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1506950	46772716	88233800	310	24423										
LRP4	4038	broad.mit.edu	37	chr11	46898789	46898789	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aatggcaatggtgttcttcaTggtaatgttgattggtacca	11	5	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:46898789T>C	uc001ndn.3	-	23	3384	c.3238A>G	c.(3238-3240)ATG>GTG	p.M1080V		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1080	Extracellular (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		GTGTTCTTCATGGTAATGTTG	0.498													20	115	---	---	---	---	PASS	C	46898789	C	C	46898789	3	2	62	1	0	0	0	0	1	0	0	0	8959	1464	51	5	2543	5	LRP4	11	46898789	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	126073	46898789	88107727	311	24424										
NUP160	23279	broad.mit.edu	37	chr11	47809787	47809787	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggaagcttaaaagtctgacaGagtgatatggcagtgtcaaa	12	5	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:47809787G>C	uc001ngm.2	-	31	3778	c.3693C>G	c.(3691-3693)CTC>CTG	p.L1231L	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	1231					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						AAGTCTGACAGAGTGATATGG	0.378													8	32	---	---	---	---	PASS	C	47809787	C	C	47809787	2	2	62	1	0	0	0	0	0	0	0	1	10757	929	33	2		2	NUP160	11	47809787	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	910998	47809787	87196729	312	24425										
OR4A16	81327	broad.mit.edu	37	chr11	55110996	55110996	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	catagaacacttacttggtgGtgcagaggtcttccttttgg	11	8	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:55110996G>T	uc010rie.1	+	1	320	c.320G>T	c.(319-321)GGT>GTT	p.G107V		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	107	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						TTACTTGGTGGTGCAGAGGTC	0.448													18	283	---	---	---	---	PASS	T	55110996	T	T	55110996	3	4	62	1	0	0	0	0	1	0	0	0	11041	1261	44	3	322	3	OR4A16	11	55110996	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	7301209	55110996	79895520	313	24426										
OR5L1	219437	broad.mit.edu	37	chr11	55579266	55579266	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tacttgttttgcacttgtgtGgtcactgaggtcttcctgct	10	9	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:55579266G>T	uc001nhw.1	+	1	324	c.324G>T	c.(322-324)GTG>GTT	p.V108V		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				GCACTTGTGTGGTCACTGAGG	0.468													30	156	---	---	---	---	PASS	T	55579266	T	T	55579266	2	4	62	1	0	0	0	0	0	0	0	1	11170	1335	47	3		3	OR5L1	11	55579266	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	468270	55579266	79427250	314	24427										
OR5F1	338674	broad.mit.edu	37	chr11	55761313	55761313	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgattcagggagtagctggaActaggtctcaggtaagtata	13	5	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:55761313A>T	uc010riv.1	-	1	789	c.789T>A	c.(787-789)AGT>AGA	p.S263R		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	263	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					AGTAGCTGGAACTAGGTCTCA	0.507													23	112	---	---	---	---	PASS	T	55761313	T	T	55761313	3	4	62	1	0	0	0	0	1	0	0	0	11158	40	2	5	158	5	OR5F1	11	55761313	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	182047	55761313	79245203	315	24428										
OR9G9	504191	broad.mit.edu	37	chr11	56468503	56468503	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tctgccccgcagtgctcatcCtggcctcctacctctttatc	6	18	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:56468503C>A	uc010rjn.1	+	1	640	c.640C>A	c.(640-642)CTG>ATG	p.L214M		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGTGCTCATCCTGGCCTCCTA	0.552													13	235	---	---	---	---	PASS	A	56468503	A	A	56468503	3	1	62	1	0	0	0	0	1	0	0	0	11252	680	24	3	642	3	OR9G9	11	56468503	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	707190	56468503	78538013	316	24429										
YPEL4	219539	broad.mit.edu	37	chr11	57413795	57413795	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tccagcccagtgtggttttgCagctctcacagaaaatgtca	9	11	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:57413795C>T	uc001nkv.3	-	4	713	c.269G>A	c.(268-270)TGC>TAC	p.C90Y	uc001nkt.1_Intron|YPEL4_uc009ymk.2_RNA	NM_145008	NP_659445	Q96NS1	YPEL4_HUMAN	yippee-like 4	90						nucleolus					0						TGTGGTTTTGCAGCTCTCACA	0.557													4	96	---	---	---	---	PASS	T	57413795	T	T	57413795	3	4	62	1	0	0	0	0	1	0	0	0	17489	710	25	3	122	3	YPEL4	11	57413795	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	945292	57413795	77592721	317	24430										
MEN1	4221	broad.mit.edu	37	chr11	64577259	64577259	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggctggagacacccccttctCgaggatagagggacaggtcg	15	11	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:64577259C>A	uc001obj.2	-	2	396	c.323G>T	c.(322-324)CGA>CTA	p.R108L	MEN1_uc001obk.2_Missense_Mutation_p.R108L|MEN1_uc001obl.2_Missense_Mutation_p.R108L|MEN1_uc001obm.2_Missense_Mutation_p.R108L|MEN1_uc001obn.2_Missense_Mutation_p.R108L|MEN1_uc001obo.2_Missense_Mutation_p.R108L|MEN1_uc001obp.2_Missense_Mutation_p.R108L|MEN1_uc001obq.2_Missense_Mutation_p.R108L|MEN1_uc001obr.2_Missense_Mutation_p.R108L	NM_130800	NP_570712	O00255	MEN1_HUMAN	menin isoform 1	108					DNA repair|histone lysine methylation|MAPKKK cascade|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of JNK cascade|negative regulation of osteoblast differentiation|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of telomerase activity|negative regulation of transcription from RNA polymerase II promoter|osteoblast development|positive regulation of protein binding|positive regulation of transforming growth factor beta receptor signaling pathway|response to gamma radiation|response to UV|transcription, DNA-dependent	chromatin|cleavage furrow|cytosol|histone methyltransferase complex|nuclear matrix|soluble fraction	double-stranded DNA binding|four-way junction DNA binding|protein binding, bridging|protein N-terminus binding|R-SMAD binding|transcription regulatory region DNA binding|Y-form DNA binding	p.R108*(2)		parathyroid(105)|pancreas(64)|gastrointestinal_tract_(site_indeterminate)(15)|small_intestine(13)|lung(9)|pituitary(7)|NS(7)|adrenal_gland(5)|soft_tissue(4)|central_nervous_system(4)|thymus(2)|stomach(1)|retroperitoneum(1)|skin(1)	238						ACCCCCTTCTCGAGGATAGAG	0.612			D|Mis|N|F|S		parathyroid tumors|Pancreatic neuroendocrine tumors	parathyroid adenoma|pituitary adenoma|pancreatic islet cell|carcinoid			Hyperparathyroidism_Familial_Isolated|Multiple_Endocrine_Neoplasia_type_1				51	28	---	---	---	---	PASS	A	64577259	A	A	64577259	3	1	62	1	0	0	0	0	1	0	0	0	9472	884	31	2	1560	2	MEN1	11	64577259	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	7163464	64577259	70429257	318	24431										
C11orf24	53838	broad.mit.edu	37	chr11	68029630	68029630	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cgggctctggggttgtgtttGagggcatgggtgtggattta	19	4	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:68029630G>C	uc001onr.3	-	4	1275	c.833C>G	c.(832-834)TCA>TGA	p.S278*	C11orf24_uc001ons.2_Nonsense_Mutation_p.S278*	NM_022338	NP_071733	Q96F05	CK024_HUMAN	hypothetical protein LOC53838 precursor	278	Extracellular (Potential).|Pro-rich.					integral to membrane					0						GGTTGTGTTTGAGGGCATGGG	0.597													61	55	---	---	---	---	PASS	C	68029630	C	C	68029630	4	2	62	1	0	0	0	0	0	1	0	0	1635	1294	45	2	520	2	C11orf24	11	68029630	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3452371	68029630	66976886	319	24432										
TPCN2	219931	broad.mit.edu	37	chr11	68851475	68851475	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aacatgcgtgcgtttggcggGatcctggtggtgagtcccag	16	9	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:68851475G>A	uc001oos.2	+	19	1868	c.1752G>A	c.(1750-1752)GGG>GGA	p.G584G	TPCN2_uc010rqg.1_Intron|TPCN2_uc001oot.2_RNA	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	584	Helical; Name=S5 of repeat II; (Potential).				cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CGTTTGGCGGGATCCTGGTGG	0.657													28	48	---	---	---	---	PASS	A	68851475	A	A	68851475	2	1	62	1	0	0	0	0	0	0	0	1	16393	1161	41	2		2	TPCN2	11	68851475	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	821845	68851475	66155041	320	24433										
NOX4	50507	broad.mit.edu	37	chr11	89165992	89165992	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgtgatcatgaggaatagcaCcaccaccatgcagacccctg	9	13	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:89165992C>A	uc001pct.2	-	7	747	c.508G>T	c.(508-510)GTG>TTG	p.V170L	NOX4_uc009yvr.2_Missense_Mutation_p.V145L|NOX4_uc001pcu.2_Missense_Mutation_p.V96L|NOX4_uc001pcw.2_Intron|NOX4_uc001pcx.2_Intron|NOX4_uc001pcv.2_Missense_Mutation_p.V170L|NOX4_uc009yvo.2_RNA|NOX4_uc010rtu.1_Missense_Mutation_p.V4L|NOX4_uc009yvp.2_Missense_Mutation_p.V170L|NOX4_uc010rtv.1_Missense_Mutation_p.V146L|NOX4_uc009yvq.2_Missense_Mutation_p.V146L|NOX4_uc009yvs.1_RNA	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	170	Ferric oxidoreductase.|Helical; (Potential).				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				AGGAATAGCACCACCACCATG	0.338													13	10	---	---	---	---	PASS	A	89165992	A	A	89165992	3	1	62	1	0	0	0	0	1	0	0	0	10558	507	18	3	1276	3	NOX4	11	89165992	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	20314517	89165992	45840524	321	24434										
FAT3	120114	broad.mit.edu	37	chr11	92533301	92533301	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gatagtggcttcccatcactGagcagtgaggttctcgttca	11	10	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:92533301G>A	uc001pdj.3	+	9	7139	c.7122G>A	c.(7120-7122)CTG>CTA	p.L2374L		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2374	Cadherin 21.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCCCATCACTGAGCAGTGAGG	0.423										TCGA Ovarian(4;0.039)			23	192	---	---	---	---	PASS	A	92533301	A	A	92533301	2	1	62	1	0	0	0	0	0	0	0	1	5691	1277	45	2		2	FAT3	11	92533301	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	3367309	92533301	42473215	322	24435										
CNTN5	53942	broad.mit.edu	37	chr11	99690344	99690344	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aagaattaagaagagttcatCttcatctctctttggttcca	6	8	5	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:99690344C>G	uc001pga.2	+	4	464	c.125C>G	c.(124-126)TCT>TGT	p.S42C	CNTN5_uc009ywv.1_Missense_Mutation_p.S42C|CNTN5_uc001pfz.2_Missense_Mutation_p.S42C|CNTN5_uc001pgb.2_Intron	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	42					cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		AAGAGTTCATCTTCATCTCTC	0.403													11	178	---	---	---	---	PASS	G	99690344	G	G	99690344	3	3	62	1	0	0	0	0	1	0	0	0	3644	913	32	2	131	2	CNTN5	11	99690344	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	7157043	99690344	35316172	323	24436										
CNTN5	53942	broad.mit.edu	37	chr11	99944898	99944898	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcagctcccacttttgcactGaatcaactgaagaaaacaat	5	11	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:99944898G>T	uc001pga.2	+	13	1791	c.1452G>T	c.(1450-1452)CTG>CTT	p.L484L	CNTN5_uc009ywv.1_Silent_p.L484L|CNTN5_uc001pfz.2_Silent_p.L484L|CNTN5_uc001pgb.2_Silent_p.L410L	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	484	Ig-like C2-type 5.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CTTTTGCACTGAATCAACTGA	0.373													31	23	---	---	---	---	PASS	T	99944898	T	T	99944898	2	4	62	1	0	0	0	0	0	0	0	1	3644	1277	45	2		2	CNTN5	11	99944898	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	254554	99944898	35061618	324	24437										
MMP13	4322	broad.mit.edu	37	chr11	102825188	102825188	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aataaatgtgcatcattaccCttaattccaaaagagatcat	4	8	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:102825188C>A	uc001phl.2	-	3	538	c.510G>T	c.(508-510)AAG>AAT	p.K170N		NM_002427	NP_002418	P45452	MMP13_HUMAN	matrix metalloproteinase 13 preproprotein	170					collagen catabolic process|proteolysis	extracellular space	metalloendopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.0144)		CATCATTACCCTTAATTCCAA	0.294													18	17	---	---	---	---	PASS	A	102825188	A	A	102825188	3	1	62	1	0	0	0	0	1	0	0	0	9652	695	24	3	937	3	MMP13	11	102825188	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2880290	102825188	32181328	325	24438										
NPAT	4863	broad.mit.edu	37	chr11	108043625	108043625	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aggaagagagtgactgttttCtacaggagtgccttctggag	14	6	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:108043625C>T	uc001pjz.3	-	13	2188	c.2086G>A	c.(2086-2088)GAA>AAA	p.E696K	NPAT_uc010rvv.1_5'Flank|NPAT_uc001pka.2_Missense_Mutation_p.E491K	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	696					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		TGACTGTTTTCTACAGGAGTG	0.418													38	32	---	---	---	---	PASS	T	108043625	T	T	108043625	3	4	62	1	0	0	0	0	1	0	0	0	10566	922	32	2	2221	2	NPAT	11	108043625	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	5218437	108043625	26962891	326	24439										
EXPH5	23086	broad.mit.edu	37	chr11	108381581	108381581	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcatcttcagccttcctgctCtctgtcatatttgcctcctg	5	15	5	0	rs146274272		TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:108381581C>G	uc001pkk.2	-	6	4764	c.4653G>C	c.(4651-4653)GAG>GAC	p.E1551D	EXPH5_uc010rvy.1_Missense_Mutation_p.E1363D|EXPH5_uc010rvz.1_Missense_Mutation_p.E1395D|EXPH5_uc010rwa.1_Missense_Mutation_p.E1475D	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1551					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		CCTTCCTGCTCTCTGTCATAT	0.433													21	82	---	---	---	---	PASS	G	108381581	G	G	108381581	3	3	62	1	0	0	0	0	1	0	0	0	5322	912	32	2	1320	2	EXPH5	11	108381581	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	337956	108381581	26624935	327	24440										
SIK3	23387	broad.mit.edu	37	chr11	116719898	116719898	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggcccggggcctgtggtgctCatggacggaggggcgtgctg	21	10	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:116719898C>A	uc001ppy.2	-	21	3475	c.3439G>T	c.(3439-3441)GAG>TAG	p.E1147*	SIK3_uc001ppz.2_Nonsense_Mutation_p.E986*|SIK3_uc001pqa.2_Nonsense_Mutation_p.E1087*|SIK3_uc001ppw.2_Nonsense_Mutation_p.E504*|SIK3_uc001ppx.2_Nonsense_Mutation_p.E525*	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	1147						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						CTGTGGTGCTCATGGACGGAG	0.597													20	54	---	---	---	---	PASS	A	116719898	A	A	116719898	4	1	62	1	0	0	0	0	0	1	0	0	14319	835	29	2	364	2	SIK3	11	116719898	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	8338317	116719898	18286618	328	24441										
OR10G4	390264	broad.mit.edu	37	chr11	123886831	123886831	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tctgtgacgcaccgcccatcCtgaaactggcctgtgcagac	10	15	1	3	rs149568158		TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:123886831C>G	uc010sac.1	+	1	550	c.550C>G	c.(550-552)CTG>GTG	p.L184V		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	184	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.L184L(1)		skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		ACCGCCCATCCTGAAACTGGC	0.532													167	100	---	---	---	---	PASS	G	123886831	G	G	123886831	3	3	62	1	0	0	0	0	1	0	0	0	10901	680	24	4	552	4	OR10G4	11	123886831	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	7166933	123886831	11119685	329	24442										
OR10G7	390265	broad.mit.edu	37	chr11	123909463	123909463	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctgccgcttggggacaccaaGgtcatcagcattttgggcac	12	12	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr11:123909463G>A	uc001pzq.1	-	1	246	c.246C>T	c.(244-246)ACC>ACT	p.T82T		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	82	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		GGGACACCAAGGTCATCAGCA	0.532													136	106	---	---	---	---	PASS	A	123909463	A	A	123909463	2	1	62	1	0	0	0	0	0	0	0	1	10902	987	35	3		3	OR10G7	11	123909463	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	22632	123909463	11097053	330	24443										
VWF	7450	broad.mit.edu	37	chr12	6103190	6103190	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cttgtggcattcagcaaacaGtggtaagaggaggacctggc	14	8	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:6103190G>C	uc001qnn.1	-	37	6686	c.6436C>G	c.(6436-6438)CTG>GTG	p.L2146V	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2146	VWFD 4.				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)	TCAGCAAACAGTGGTAAGAGG	0.602													10	62	---	---	---	---	PASS	C	6103190	C	C	6103190	3	2	62	1	0	0	0	0	1	0	0	0	17243	1020	36	4	2069	4	VWF	12	6103190	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08		6103190	127748705	331	24444										
USP5	8078	broad.mit.edu	37	chr12	6965209	6965209	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggcggatttgaccttagcgaGgagaagtttgaattagacga	14	5	0	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:6965209G>A	uc001qri.3	+	4	392	c.333G>A	c.(331-333)GAG>GAA	p.E111E	USP5_uc001qrh.3_Silent_p.E111E	NM_001098536	NP_001092006	P45974	UBP5_HUMAN	ubiquitin specific peptidase 5 isoform 1	111					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process	lysosome	cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			lung(2)|breast(1)|skin(1)	4						ACCTTAGCGAGGAGAAGTTTG	0.512													67	174	---	---	---	---	PASS	A	6965209	A	A	6965209	2	1	62	1	0	0	0	0	0	0	0	1	17078	991	35	3		3	USP5	12	6965209	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	862019	6965209	126886686	332	24445										
SLC2A14	144195	broad.mit.edu	37	chr12	7982360	7982360	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agtatgagaagttctagagtAcctgggccaccagaattcca	10	9	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:7982360A>T	uc001qtk.2	-	10	1375	c.582_splice	c.e10+1	p.Q194_splice	SLC2A14_uc001qtl.2_Splice_Site_p.Q171_splice|SLC2A14_uc001qtm.2_Splice_Site_p.Q171_splice|SLC2A14_uc010sgg.1_Splice_Site_p.Q85_splice|SLC2A14_uc001qtn.2_Splice_Site_p.Q194_splice|SLC2A14_uc001qto.2_Intron|SLC2A14_uc010sgh.1_Splice_Site_p.Q209_splice	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14						cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		GTTCTAGAGTACCTGGGCCAC	0.368													21	56	---	---	---	---	PASS	T	7982360	T	T	7982360	5	4	62	1	0	0	0	0	0	0	1	0	14543	405	14	5	1006	5	SLC2A14	12	7982360	Splice_Site	SNP	A	TCGA-33-6737-01A-11D-1817-08	1017151	7982360	125869535	333	24446										
A2M	2	broad.mit.edu	37	chr12	9242563	9242563	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aggaactgaaggcacctcagTcccacacagctcttgagact	9	13	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:9242563T>C	uc001qvk.1	-	21	2766	c.2653A>G	c.(2653-2655)ACT>GCT	p.T885A	A2M_uc009zgk.1_Missense_Mutation_p.T735A	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	885					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GGCACCTCAGTCCCACACAGC	0.428													28	192	---	---	---	---	PASS	C	9242563	C	C	9242563	3	2	62	1	0	0	0	0	1	0	0	0	4	1667	58	5	1835	5	A2M	12	9242563	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	1260203	9242563	124609332	334	24447										
STYK1	55359	broad.mit.edu	37	chr12	10786662	10786662	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aggatgaccccaagaaggatGaggaagatagtaaccaacaa	11	7	0	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:10786662G>A	uc001qys.2	-	4	635	c.114C>T	c.(112-114)CTC>CTT	p.L38L		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	38	Helical; (Potential).					integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						CAAGAAGGATGAGGAAGATAG	0.463										HNSCC(73;0.22)			106	235	---	---	---	---	PASS	A	10786662	A	A	10786662	2	1	62	1	0	0	0	0	0	0	0	1	15358	1277	45	2		2	STYK1	12	10786662	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	1544099	10786662	123065233	335	24448										
KCNJ8	3764	broad.mit.edu	37	chr12	21919488	21919488	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gccaaagggcattcctctgtCatcatcctccctccaaaccc	5	18	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:21919488C>T	uc001rff.2	-	3	782	c.444G>A	c.(442-444)ATG>ATA	p.M148I		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	148	Extracellular (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	ATTCCTCTGTCATCATCCTCC	0.418													26	47	---	---	---	---	PASS	T	21919488	T	T	21919488	3	4	62	1	0	0	0	0	1	0	0	0	8056	826	29	2	834	2	KCNJ8	12	21919488	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	11132826	21919488	111932407	336	24449										
ST8SIA1	6489	broad.mit.edu	37	chr12	22354968	22354968	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tctggaccacagaaggttctGaaacctattgaagaaaaaaa	8	7	2	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:22354968G>C	uc001rfo.3	-	5	1071	c.589C>G	c.(589-591)CAG>GAG	p.Q197E	ST8SIA1_uc009zix.2_Missense_Mutation_p.Q54E	NM_003034	NP_003025	Q92185	SIA8A_HUMAN	alpha-2,8-sialyltransferase 1	197	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(3)	3						AGAAGGTTCTGAAACCTATTG	0.378													9	56	---	---	---	---	PASS	C	22354968	C	C	22354968	3	2	62	1	0	0	0	0	1	0	0	0	15230	1299	45	2	485	2	ST8SIA1	12	22354968	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	435480	22354968	111496927	337	24450										
LRMP	4033	broad.mit.edu	37	chr12	25259900	25259900	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	taaagatgactcagagccatCtggagaagaaacagtagaaa	10	6	2	6			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:25259900C>T	uc001rgh.2	+	20	2206	c.1172C>T	c.(1171-1173)TCT>TTT	p.S391F	LRMP_uc010sja.1_Missense_Mutation_p.S391F|LRMP_uc010sjb.1_Missense_Mutation_p.S338F|LRMP_uc001rgi.2_RNA|LRMP_uc010sjc.1_Missense_Mutation_p.S391F|LRMP_uc010sjd.1_Missense_Mutation_p.S338F	NM_006152	NP_006143	Q12912	LRMP_HUMAN	lymphoid-restricted membrane protein	447	Cytoplasmic (Potential).				vesicle fusion|vesicle targeting	endoplasmic reticulum membrane|integral to plasma membrane				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Colorectal(261;0.11)					TCAGAGCCATCTGGAGAAGAA	0.308													9	21	---	---	---	---	PASS	T	25259900	T	T	25259900	3	4	62	1	0	0	0	0	1	0	0	0	8950	913	32	2	1234	2	LRMP	12	25259900	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2904932	25259900	108591995	338	24451										
TMTC1	83857	broad.mit.edu	37	chr12	29670466	29670466	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgtaatacagtgctcccaaaGgtgacaatatctcagctttg	8	9	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:29670466G>T	uc001rjb.2	-	14	2213	c.1739C>A	c.(1738-1740)CCT>CAT	p.P580H	TMTC1_uc001riz.2_Missense_Mutation_p.P337H|TMTC1_uc001rja.2_Missense_Mutation_p.P424H|TMTC1_uc001riy.2_Missense_Mutation_p.P33H	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	688	TPR 7.					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					TGCTCCCAAAGGTGACAATAT	0.468													38	150	---	---	---	---	PASS	T	29670466	T	T	29670466	3	4	62	1	0	0	0	0	1	0	0	0	16257	1000	35	3	605	3	TMTC1	12	29670466	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	4410566	29670466	104181429	339	24452										
TMTC1	83857	broad.mit.edu	37	chr12	29904607	29904607	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccagcccagtacctcatcatGgaccacacagctcgtgggga	10	15	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:29904607G>T	uc001rjb.2	-	5	1080	c.606C>A	c.(604-606)TCC>TCA	p.S202S	TMTC1_uc001rjc.1_Silent_p.S202S	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	310						integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					acctcatcatggaccacacag	0.368													28	81	---	---	---	---	PASS	T	29904607	T	T	29904607	2	4	62	1	0	0	0	0	0	0	0	1	16257	1335	47	3		3	TMTC1	12	29904607	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	234141	29904607	103947288	340	24453										
TMTC1	83857	broad.mit.edu	37	chr12	29904660	29904660	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	actgctcttgggttctggtgGcagtggagagtggcagccac	16	9	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:29904660G>T	uc001rjb.2	-	5	1027	c.553C>A	c.(553-555)CCA>ACA	p.P185T	TMTC1_uc001rjc.1_Missense_Mutation_p.P185T	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	293						integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					GGTTCTGGTGGCAGTGGAGAG	0.418													29	67	---	---	---	---	PASS	T	29904660	T	T	29904660	3	4	62	1	0	0	0	0	1	0	0	0	16257	1203	42	3	1827	3	TMTC1	12	29904660	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	53	29904660	103947235	341	24454										
DENND5B	160518	broad.mit.edu	37	chr12	31604942	31604942	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtcctgggcagtctgaatgaCaaatgcttcgtaatctgcaa	10	9	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:31604942C>A	uc001rki.1	-	5	1747	c.1561G>T	c.(1561-1563)GTC>TTC	p.V521F	DENND5B_uc001rkh.1_Missense_Mutation_p.V556F|DENND5B_uc009zjq.1_Intron|DENND5B_uc001rkj.2_Missense_Mutation_p.V543F|DENND5B_uc001rkk.1_Missense_Mutation_p.V443F	NM_144973	NP_659410	Q6ZUT9	DEN5B_HUMAN	DENN/MADD domain containing 5B	521	dDENN.					integral to membrane				ovary(1)|central_nervous_system(1)	2						GTCTGAATGACAAATGCTTCG	0.443													43	73	---	---	---	---	PASS	A	31604942	A	A	31604942	3	1	62	1	0	0	0	0	1	0	0	0	4437	478	17	3	2331	3	DENND5B	12	31604942	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1700282	31604942	102246953	342	24455										
KIF21A	55605	broad.mit.edu	37	chr12	39752079	39752079	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgattgaccatcaccttattCttgatatttctagctcgatt	5	9	3	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:39752079C>G	uc001rly.2	-	8	1262	c.1116G>C	c.(1114-1116)AAG>AAC	p.K372N	KIF21A_uc001rlx.2_Missense_Mutation_p.K372N|KIF21A_uc001rlz.2_Missense_Mutation_p.K372N|KIF21A_uc010skl.1_Missense_Mutation_p.K372N|KIF21A_uc001rma.1_Missense_Mutation_p.K380N	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	372	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TCACCTTATTCTTGATATTTC	0.423													89	226	---	---	---	---	PASS	G	39752079	G	G	39752079	3	3	62	1	0	0	0	0	1	0	0	0	8288	912	32	2	4032	2	KIF21A	12	39752079	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	8147137	39752079	94099816	343	24456										
LRRK2	120892	broad.mit.edu	37	chr12	40618961	40618961	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtggcagctgtcaggggtgcGaagaggacgaggaaactctg	18	7	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:40618961G>A	uc001rmg.3	+	1	149	c.28G>A	c.(28-30)GAA>AAA	p.E10K		NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	10					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)				TCAGGGGTGCGAAGAGGACGA	0.582													13	45	---	---	---	---	PASS	A	40618961	A	A	40618961	3	1	62	1	0	0	0	0	1	0	0	0	9033	1059	37	2	30	2	LRRK2	12	40618961	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	866882	40618961	93232934	344	24457										
CCNT1	904	broad.mit.edu	37	chr12	49087619	49087619	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cactgggattctcattttgaGagctgttttgtcagcctttt	9	8	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:49087619G>C	uc001rse.1	-	9	1701	c.1378C>G	c.(1378-1380)CTC>GTC	p.L460V	LOC144438_uc001rsd.3_5'Flank|CCNT1_uc009zkz.1_Missense_Mutation_p.L175V	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	460					cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						CTCATTTTGAGAGCTGTTTTG	0.443													36	92	---	---	---	---	PASS	C	49087619	C	C	49087619	3	2	62	1	0	0	0	0	1	0	0	0	2934	942	33	2	806	2	CCNT1	12	49087619	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	8468658	49087619	84764276	345	24458										
WNT10B	7480	broad.mit.edu	37	chr12	49360170	49360170	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcagacggggctggaaggctCcagaattgcggttgtgggta	18	7	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:49360170C>A	uc001rss.2	-	5	1224	c.878G>T	c.(877-879)GGA>GTA	p.G293V	WNT10B_uc001rst.2_3'UTR	NM_003394	NP_003385	O00744	WN10B_HUMAN	wingless-type MMTV integration site family,	293					axis specification|bone trabecula formation|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|chondrocyte differentiation|female gonad development|hemopoietic stem cell proliferation|midbrain-hindbrain boundary development|myoblast cell differentiation involved in skeletal muscle regeneration|negative regulation of epithelial cell proliferation|negative regulation of fat cell differentiation|neuron differentiation|positive regulation of anagen|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cell proliferation|positive regulation of epithelial cell differentiation|positive regulation of osteoblast differentiation|protein stabilization|regulation of skeletal muscle tissue development|skeletal muscle fiber development|smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			skin(4)|lung(3)	7						CTGGAAGGCTCCAGAATTGCG	0.637													43	108	---	---	---	---	PASS	A	49360170	A	A	49360170	3	1	62	1	0	0	0	0	1	0	0	0	17380	855	30	2	295	2	WNT10B	12	49360170	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	272551	49360170	84491725	346	24459										
KRT6C	286887	broad.mit.edu	37	chr12	52863615	52863615	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tccagcttgttcttagcatcCttgagtgccatctccccacg	7	15	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:52863615C>A	uc001sal.3	-	7	1311	c.1263G>T	c.(1261-1263)AAG>AAT	p.K421N		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C	421	Rod.|Coil 2.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)		TCTTAGCATCCTTGAGTGCCA	0.577													18	68	---	---	---	---	PASS	A	52863615	A	A	52863615	3	1	62	1	0	0	0	0	1	0	0	0	8482	680	24	3	443	3	KRT6C	12	52863615	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	3503445	52863615	80988280	347	24460										
KRT76	51350	broad.mit.edu	37	chr12	53170983	53170983	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cccccagagcgggccacacaGctcatcctgctgctgccgga	11	18	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:53170983G>T	uc001sax.2	-	1	147	c.93C>A	c.(91-93)AGC>AGA	p.S31R		NM_015848	NP_056932	Q01546	K22O_HUMAN	keratin 76	31	Head.				cytoskeleton organization	keratin filament	structural molecule activity			breast(1)|skin(1)	2						GGGCCACACAGCTCATCCTGC	0.607													44	75	---	---	---	---	PASS	T	53170983	T	T	53170983	3	4	62	1	0	0	0	0	1	0	0	0	8489	962	34	3	1859	3	KRT76	12	53170983	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	307368	53170983	80680912	348	24461										
ITGB7	3695	broad.mit.edu	37	chr12	53589169	53589169	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcccctcacattataagcatCcatgatgagctgtaccacgt	7	13	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:53589169C>T	uc009zmv.2	-	8	1221	c.1150G>A	c.(1150-1152)GAT>AAT	p.D384N	ITGB7_uc001scc.2_Missense_Mutation_p.D384N|ITGB7_uc010snz.1_RNA	NM_000889	NP_000880	P26010	ITB7_HUMAN	integrin, beta 7 precursor	384	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|regulation of immune response	integrin complex	identical protein binding|metal ion binding|receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|breast(1)	8						TTATAAGCATCCATGATGAGC	0.552													21	86	---	---	---	---	PASS	T	53589169	T	T	53589169	3	4	62	1	0	0	0	0	1	0	0	0	7900	855	30	2	1278	2	ITGB7	12	53589169	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	418186	53589169	80262726	349	24462										
AMHR2	269	broad.mit.edu	37	chr12	53818661	53818661	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gagccctgggactcctggctCccagggtccccaggctgccc	13	18	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:53818661C>G	uc001scx.1	+	3	479	c.401C>G	c.(400-402)TCC>TGC	p.S134C	AMHR2_uc009zmy.1_Missense_Mutation_p.S134C	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	134	Extracellular (Potential).				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	ACTCCTGGCTCCCAGGGTCCC	0.632									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				45	136	---	---	---	---	PASS	G	53818661	G	G	53818661	3	3	62	1	0	0	0	0	1	0	0	0	573	855	30	2	411	2	AMHR2	12	53818661	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	229492	53818661	80033234	350	24463										
HNRNPA1	3178	broad.mit.edu	37	chr12	54676268	54676268	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tagtgcttcatccagccaaaGaggtatgcttgttgcttaat	9	8	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:54676268G>C	uc001sfl.2	+	5	685	c.581G>C	c.(580-582)AGA>ACA	p.R194T	CBX5_uc001sfk.3_5'Flank|CBX5_uc001sfi.3_5'Flank|HNRNPA1_uc001sfm.2_Missense_Mutation_p.R194T|HNRNPA1_uc009zng.2_Missense_Mutation_p.R194T|HNRNPA1_uc009znh.2_Missense_Mutation_p.R194T|HNRNPA1_uc009zni.2_Missense_Mutation_p.R194T|HNRNPA1_uc001sfn.2_Missense_Mutation_p.R194T|HNRNPA1_uc001sfo.3_RNA|HNRNPA1_uc001sfp.1_Missense_Mutation_p.R149T|HNRNPA1_uc009znj.1_Missense_Mutation_p.R149T	NM_031157	NP_112420	P09651	ROA1_HUMAN	heterogeneous nuclear ribonucleoprotein A1	194					interspecies interaction between organisms|mRNA transport|nuclear import	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	nucleotide binding|protein binding|single-stranded DNA binding			skin(2)|ovary(1)	3						TCCAGCCAAAGAGGTATGCTT	0.368													8	42	---	---	---	---	PASS	C	54676268	C	C	54676268	3	2	62	1	0	0	0	0	1	0	0	0	7257	942	33	2	599	2	HNRNPA1	12	54676268	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	857607	54676268	79175627	351	24464										
OR6C65	403282	broad.mit.edu	37	chr12	55794865	55794865	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	attcttcccctatgctgctgAttgcttgcacagacacacag	7	13	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:55794865A>G	uc010spl.1	+	1	553	c.553A>G	c.(553-555)ATT>GTT	p.I185V		NM_001005518	NP_001005518	A6NJZ3	O6C65_HUMAN	olfactory receptor, family 6, subfamily C,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TATGCTGCTGATTGCTTGCAC	0.443													121	292	---	---	---	---	PASS	G	55794865	G	G	55794865	3	3	62	1	0	0	0	0	1	0	0	0	11195	333	12	5	555	5	OR6C65	12	55794865	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	1118597	55794865	78057030	352	24465										
GLI1	2735	broad.mit.edu	37	chr12	57857555	57857555	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cccctccccagtcagggggcCcccagtgtggggacagaagg	15	15	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:57857555C>A	uc001snx.2	+	2	159	c.81C>A	c.(79-81)GCC>GCA	p.A27A	GLI1_uc009zpp.2_Intron|GLI1_uc009zpq.2_Intron|GLI1_uc009zpr.1_Intron	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	27					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			GTCAGGGGGCCCCCAGTGTGG	0.607													21	39	---	---	---	---	PASS	A	57857555	A	A	57857555	2	1	62	1	0	0	0	0	0	0	0	1	6437	610	22	3		3	GLI1	12	57857555	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	2062690	57857555	75994340	353	24466										
PTPRB	5787	broad.mit.edu	37	chr12	70981033	70981033	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atgtttgacacgaagctggaGgacagccagggggactgagg	17	7	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:70981033G>T	uc001swb.3	-	7	1441	c.1411C>A	c.(1411-1413)CTC>ATC	p.L471I	PTPRB_uc010sto.1_Missense_Mutation_p.L471I|PTPRB_uc010stp.1_Missense_Mutation_p.L381I|PTPRB_uc001swc.3_Missense_Mutation_p.L689I|PTPRB_uc001swa.3_Missense_Mutation_p.L689I|PTPRB_uc001swd.3_Missense_Mutation_p.L688I|PTPRB_uc009zrr.1_Missense_Mutation_p.L568I	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	471	Fibronectin type-III 6.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CGAAGCTGGAGGACAGCCAGG	0.468													12	58	---	---	---	---	PASS	T	70981033	T	T	70981033	3	4	62	1	0	0	0	0	1	0	0	0	12796	1000	35	3	4686	3	PTPRB	12	70981033	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	13123478	70981033	62870862	354	24467										
NAV3	89795	broad.mit.edu	37	chr12	78362332	78362332	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaacttaaaagccattctagGgctgtttttcagtttatctc	6	8	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:78362332G>A	uc001syp.2	+	5	694	c.521G>A	c.(520-522)GGG>GAG	p.G174E	NAV3_uc001syo.2_Missense_Mutation_p.G174E	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	174	CH.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GCCATTCTAGGGCTGTTTTTC	0.348										HNSCC(70;0.22)			24	73	---	---	---	---	PASS	A	78362332	A	A	78362332	3	1	62	1	0	0	0	0	1	0	0	0	10185	1232	43	3	539	3	NAV3	12	78362332	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	7381299	78362332	55489563	355	24468										
MYF6	4618	broad.mit.edu	37	chr12	81101810	81101810	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gccaccctgcgcgaaaggagGaggctaaagaaaatcaacga	12	10	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:81101810G>A	uc001szf.1	+	1	365	c.312G>A	c.(310-312)AGG>AGA	p.R104R		NM_002469	NP_002460	P23409	MYF6_HUMAN	myogenic factor 6	104	Basic motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						GCGAAAGGAGGAGGCTAAAGA	0.607													30	67	---	---	---	---	PASS	A	81101810	A	A	81101810	2	1	62	1	0	0	0	0	0	0	0	1	10028	1165	41	2		2	MYF6	12	81101810	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	2739478	81101810	52750085	356	24469										
RASSF9	9182	broad.mit.edu	37	chr12	86199572	86199572	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atgcagtaatcactgggcttCcccagaagaaatcgtttctc	8	11	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:86199572C>T	uc001taf.1	-	2	555	c.216G>A	c.(214-216)GGG>GGA	p.G72G		NM_005447	NP_005438	O75901	RASF9_HUMAN	Ras association (RalGDS/AF-6) domain family	72	Ras-associating.				endosome transport|protein targeting|signal transduction	cytosol|endosome|trans-Golgi network transport vesicle membrane	protein binding|transporter activity			ovary(1)	1						CACTGGGCTTCCCCAGAAGAA	0.498													32	199	---	---	---	---	PASS	T	86199572	T	T	86199572	2	4	62	1	0	0	0	0	0	0	0	1	13093	842	30	2		2	RASSF9	12	86199572	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	5097762	86199572	47652323	357	24470										
TMCC3	57458	broad.mit.edu	37	chr12	94965215	94965215	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcaggaaccagtggcttcatCttggtattatcatcctttct	8	10	4	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:94965215C>G	uc001tdj.2	-	4	1548	c.1430G>C	c.(1429-1431)AGA>ACA	p.R477T	TMCC3_uc001tdi.2_Missense_Mutation_p.R446T	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	477						integral to membrane				ovary(1)|skin(1)	2						GTGGCTTCATCTTGGTATTAT	0.388													20	63	---	---	---	---	PASS	G	94965215	G	G	94965215	3	3	62	1	0	0	0	0	1	0	0	0	15991	913	32	2	7	2	TMCC3	12	94965215	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	8765643	94965215	38886680	358	24471										
VEZT	55591	broad.mit.edu	37	chr12	95611648	95611648	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgacaccggagtttgacgaaGaggtggtttttgaggtaaga	15	4	0	5			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:95611648G>C	uc001tdz.2	+	1	127	c.22G>C	c.(22-24)GAG>CAG	p.E8Q	FGD6_uc001tdp.3_5'Flank|FGD6_uc009zsx.2_5'Flank|VEZT_uc009zsy.1_5'UTR|VEZT_uc001tdr.2_5'UTR|VEZT_uc001tds.2_5'UTR|VEZT_uc001tdt.2_5'UTR|VEZT_uc009zsz.1_Missense_Mutation_p.E8Q|VEZT_uc001tdv.2_5'UTR|VEZT_uc001tdw.1_5'Flank	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	8						acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						GTTTGACGAAGAGGTGGTTTT	0.582													33	79	---	---	---	---	PASS	C	95611648	C	C	95611648	3	2	62	1	0	0	0	0	1	0	0	0	17153	943	33	2	24	2	VEZT	12	95611648	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	646433	95611648	38240247	359	24472										
SNRPF	6636	broad.mit.edu	37	chr12	96259141	96259141	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	acatagatggagctttgtctGgacatctgggtgaagtttta	12	5	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:96259141G>A	uc001tej.2	+	3	312	c.169G>A	c.(169-171)GGA>AGA	p.G57R		NM_003095	NP_003086	P62306	RUXF_HUMAN	small nuclear ribonucleoprotein polypeptide F	57					histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	protein binding|RNA binding				0						AGCTTTGTCTGGACATCTGGG	0.328													41	115	---	---	---	---	PASS	A	96259141	A	A	96259141	3	1	62	1	0	0	0	0	1	0	0	0	14868	1349	47	3	179	3	SNRPF	12	96259141	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	647493	96259141	37592754	360	24473										
ANO4	121601	broad.mit.edu	37	chr12	101436227	101436227	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttttgtatggcgtcaccactCtggatcacagccaagtcagg	10	11	4	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:101436227C>G	uc010svm.1	+	12	1707	c.1135C>G	c.(1135-1137)CTG>GTG	p.L379V	ANO4_uc001thw.2_Missense_Mutation_p.L344V|ANO4_uc001thx.2_Missense_Mutation_p.L379V	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	379	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						CGTCACCACTCTGGATCACAG	0.483										HNSCC(74;0.22)			28	98	---	---	---	---	PASS	G	101436227	G	G	101436227	3	3	62	1	0	0	0	0	1	0	0	0	699	912	32	2	1068	2	ANO4	12	101436227	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	5177086	101436227	32415668	361	24474										
KIAA1033	23325	broad.mit.edu	37	chr12	105543464	105543464	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tttatgtatgatgaacacatCaaatccagattgattaaaga	6	5	1	5			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:105543464C>G	uc001tld.2	+	25	2673	c.2586C>G	c.(2584-2586)ATC>ATG	p.I862M	KIAA1033_uc010swr.1_Missense_Mutation_p.I863M|KIAA1033_uc010sws.1_Missense_Mutation_p.I674M	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	862					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						ATGAACACATCAAATCCAGAT	0.254													60	156	---	---	---	---	PASS	G	105543464	G	G	105543464	3	3	62	1	0	0	0	0	1	0	0	0	8206	816	29	2	2684	2	KIAA1033	12	105543464	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	4107237	105543464	28308431	362	24475										
RIC8B	55188	broad.mit.edu	37	chr12	107279770	107279770	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	accagtactctgtcatcgaaGagaccagctctgacacagac	8	13	3	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:107279770G>C	uc001tlx.2	+	9	1665	c.1540G>C	c.(1540-1542)GAG>CAG	p.E514Q	RIC8B_uc001tly.2_3'UTR|RIC8B_uc001tlz.2_RNA|RIC8B_uc009zur.2_RNA	NM_018157	NP_060627	Q9NVN3	RIC8B_HUMAN	resistance to inhibitors of cholinesterase 8	514					regulation of G-protein coupled receptor protein signaling pathway	cell cortex|cytosol|plasma membrane	G-protein alpha-subunit binding|guanyl-nucleotide exchange factor activity			ovary(1)	1						TGTCATCGAAGAGACCAGCTC	0.433													31	142	---	---	---	---	PASS	C	107279770	C	C	107279770	3	2	62	1	0	0	0	0	1	0	0	0	13356	943	33	2	1574	2	RIC8B	12	107279770	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1736306	107279770	26572125	363	24476										
FOXN4	121643	broad.mit.edu	37	chr12	109724503	109724503	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gctgtagatctcgctcacagGcaggctgcctgtcttgctgt	12	12	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:109724503G>A	uc001toe.3	-	7	748	c.643C>T	c.(643-645)CCT>TCT	p.P215S	FOXN4_uc009zvg.2_Missense_Mutation_p.P12S|FOXN4_uc001tof.3_Missense_Mutation_p.P35S	NM_213596	NP_998761	Q96NZ1	FOXN4_HUMAN	forkhead box N4	215	Fork-head.				axon extension|embryo development|organ development|pattern specification process|regulation of heart contraction|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(1)|lung(1)	2						TCGCTCACAGGCAGGCTGCCT	0.483													7	22	---	---	---	---	PASS	A	109724503	A	A	109724503	3	1	62	1	0	0	0	0	1	0	0	0	6022	1203	42	3	926	3	FOXN4	12	109724503	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2444733	109724503	24127392	364	24477										
TCTN1	79600	broad.mit.edu	37	chr12	111066671	111066671	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttttacattgaatgctgaatCatatgtttccttcacaacca	4	9	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:111066671C>T	uc009zvs.2	+	4	680	c.572C>T	c.(571-573)TCA>TTA	p.S191L	TCTN1_uc010syb.1_Missense_Mutation_p.S191L|TCTN1_uc009zvr.1_RNA|TCTN1_uc001trl.2_RNA|TCTN1_uc001trm.2_Missense_Mutation_p.S131L|TCTN1_uc010syc.1_RNA|TCTN1_uc001tro.2_RNA|TCTN1_uc001trp.3_Missense_Mutation_p.S191L|TCTN1_uc001trn.3_Missense_Mutation_p.S191L|TCTN1_uc001tri.2_Missense_Mutation_p.S135L|TCTN1_uc001trj.1_Missense_Mutation_p.S135L|TCTN1_uc001trk.3_RNA|HVCN1_uc001trq.1_Intron	NM_001082537	NP_001076006	Q2MV58	TECT1_HUMAN	tectonic family member 1 isoform 2	191					multicellular organismal development	extracellular region					0						AATGCTGAATCATATGTTTCC	0.333													28	52	---	---	---	---	PASS	T	111066671	T	T	111066671	3	4	62	1	0	0	0	0	1	0	0	0	15719	838	29	2	686	2	TCTN1	12	111066671	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1342168	111066671	22785224	365	24478										
C12orf51	283450	broad.mit.edu	37	chr12	112617177	112617177	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atatctccgtcagaacctctCtggctccgggcaccagcttc	8	16	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:112617177C>G	uc009zwc.2	-	56	9764	c.9746G>C	c.(9745-9747)AGA>ACA	p.R3249T		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CAGAACCTCTCTGGCTCCGGG	0.537													7	19	---	---	---	---	PASS	G	112617177	G	G	112617177	3	3	62	1	0	0	0	0	1	0	0	0	1696	913	32	2	2300	2	C12orf51	12	112617177	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1550506	112617177	21234718	366	24479										
RPH3A	22895	broad.mit.edu	37	chr12	113325651	113325651	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gccacaatgaatttattggtGagaccagattctccctcaag	8	10	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:113325651G>A	uc010syl.1	+	17	1848	c.1486G>A	c.(1486-1488)GAG>AAG	p.E496K	RPH3A_uc001ttz.2_Missense_Mutation_p.E496K|RPH3A_uc001tty.2_Missense_Mutation_p.E492K|RPH3A_uc009zwe.1_Missense_Mutation_p.E492K|RPH3A_uc010sym.1_Missense_Mutation_p.E447K|RPH3A_uc001tua.2_Missense_Mutation_p.E256K	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	496	C2 1.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		ATTTATTGGTGAGACCAGATT	0.458													31	223	---	---	---	---	PASS	A	113325651	A	A	113325651	3	1	62	1	0	0	0	0	1	0	0	0	13551	1291	45	2	1544	2	RPH3A	12	113325651	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	708474	113325651	20526244	367	24480										
DDX54	79039	broad.mit.edu	37	chr12	113617062	113617062	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cgctcgaacattgggaggagGaagcaggctgtcttgccact	14	10	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:113617062G>T	uc001tup.2	-	4	478	c.450C>A	c.(448-450)TTC>TTA	p.F150L	DDX54_uc001tuq.3_Missense_Mutation_p.F150L	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	150	Helicase ATP-binding.				estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						TTGGGAGGAGGAAGCAGGCTG	0.657													12	32	---	---	---	---	PASS	T	113617062	T	T	113617062	3	4	62	1	0	0	0	0	1	0	0	0	4372	1165	41	2	2266	2	DDX54	12	113617062	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	291411	113617062	20234833	368	24481										
TBX3	6926	broad.mit.edu	37	chr12	115110029	115110029	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	caccgagctggaggctgccgCagaggaggcggccgccgctg	18	14	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:115110029C>T	uc001tvt.1	-	8	2813	c.1849G>A	c.(1849-1851)GCG>ACG	p.A617T	TBX3_uc001tvu.1_Missense_Mutation_p.A597T	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	617	Transcription repression.			SAAASSSVHRHPF -> LRQPQLRCTAPL (in Ref. 1).	anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		GAGGCTGCCGCAGAGGAGGCG	0.667													5	7	---	---	---	---	PASS	T	115110029	T	T	115110029	3	4	62	1	0	0	0	0	1	0	0	0	15656	710	25	3	386	3	TBX3	12	115110029	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1492967	115110029	18741866	369	24482										
PXN	5829	broad.mit.edu	37	chr12	120660757	120660757	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttgctgcccagggacgtgctCattacggtgggtgaaggctc	15	10	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:120660757C>T	uc001txt.2	-	4	533	c.402G>A	c.(400-402)ATG>ATA	p.M134I	PXN_uc001txv.2_Missense_Mutation_p.M1I|PXN_uc001txx.2_Missense_Mutation_p.M1I|PXN_uc001txy.2_Missense_Mutation_p.M134I|PXN_uc001txz.2_RNA|uc001tya.2_5'Flank	NM_001080855	NP_001074324	P49023	PAXI_HUMAN	paxillin isoform 1	134					cell junction assembly|cell-matrix adhesion|cellular response to reactive oxygen species|epidermal growth factor receptor signaling pathway|growth hormone receptor signaling pathway|muscle contraction|signal complex assembly	cytoplasm|focal adhesion|lamellipodium|microtubule associated complex	beta-catenin binding|vinculin binding|zinc ion binding			ovary(1)|breast(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GGGACGTGCTCATTACGGTGG	0.547													21	70	---	---	---	---	PASS	T	120660757	T	T	120660757	3	4	62	1	0	0	0	0	1	0	0	0	12852	826	29	2	1409	2	PXN	12	120660757	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	5550728	120660757	13191138	370	24483										
ZCCHC8	55596	broad.mit.edu	37	chr12	122958049	122958049	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgctaagtcaagccattattCagaggcctttttgtttttct	7	8	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:122958049C>G	uc001ucn.2	-	14	2250	c.2119G>C	c.(2119-2121)GAA>CAA	p.E707Q	ZCCHC8_uc001ucl.2_Missense_Mutation_p.E318Q|ZCCHC8_uc001ucm.2_Missense_Mutation_p.E469Q|ZCCHC8_uc009zxp.2_Missense_Mutation_p.E469Q|ZCCHC8_uc009zxq.2_Missense_Mutation_p.E469Q	NM_017612	NP_060082	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	707						catalytic step 2 spliceosome	nucleic acid binding|protein binding|zinc ion binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.25e-05)|Epithelial(86;0.000113)|BRCA - Breast invasive adenocarcinoma(302;0.202)		AGCCATTATTCAGAGGCCTTT	0.368													13	54	---	---	---	---	PASS	G	122958049	G	G	122958049	3	3	62	1	0	0	0	0	1	0	0	0	17591	835	29	2	8	2	ZCCHC8	12	122958049	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2297292	122958049	10893846	371	24484										
MPHOSPH9	10198	broad.mit.edu	37	chr12	123687559	123687559	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tctgtcatcaagggcattcgGaaggccgtgaggttgaatcc	13	9	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr12:123687559G>A	uc001uel.2	-	6	1044	c.937C>T	c.(937-939)CCG>TCG	p.P313S	MPHOSPH9_uc010tal.1_Intron|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Intron	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	313					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		AGGGCATTCGGAAGGCCGTGA	0.458													75	169	---	---	---	---	PASS	A	123687559	A	A	123687559	3	1	62	1	0	0	0	0	1	0	0	0	9728	1174	41	2	2218	2	MPHOSPH9	12	123687559	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	729510	123687559	10164336	372	24485										
N4BP2L1	90634	broad.mit.edu	37	chr13	33002142	33002142	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtcccccgcgggggcggccgGggcggccgctgccgctgctg	20	17	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr13:33002142G>A	uc001uuc.2	-	1	174	c.78C>T	c.(76-78)CCC>CCT	p.P26P	N4BP2L1_uc001uud.2_Silent_p.P26P|N4BP2L1_uc010tdy.1_Silent_p.P26P|N4BP2L1_uc001uuf.2_Silent_p.P26P	NM_052818	NP_438169	Q5TBK1	N42L1_HUMAN	NEDD4 binding protein 2-like 1 isoform 1	26					cell killing		ATP binding			ovary(1)	1		Lung SC(185;0.0262)		all cancers(112;6.3e-06)|Epithelial(112;3.51e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00607)|BRCA - Breast invasive adenocarcinoma(63;0.0171)		ggggcggccggggcggccgct	0.468													5	6	---	---	---	---	PASS	A	33002142	A	A	33002142	2	1	62	1	0	0	0	0	0	0	0	1	10111	1219	43	3		3	N4BP2L1	13	33002142	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08		33002142	82167736	373	24486										
MAB21L1	4081	broad.mit.edu	37	chr13	36049686	36049686	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgacctccgccacccggttgGgtcccggccaggggatgtgg	16	14	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr13:36049686G>T	uc001uvc.2	-	1	1147	c.590C>A	c.(589-591)CCC>CAC	p.P197H	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	197					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		CACCCGGTTGGGTCCCGGCCA	0.642													28	47	---	---	---	---	PASS	T	36049686	T	T	36049686	3	4	62	1	0	0	0	0	1	0	0	0	9141	1232	43	3	493	3	MAB21L1	13	36049686	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3047544	36049686	79120192	374	24487										
LRCH1	23143	broad.mit.edu	37	chr13	47127780	47127780	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aacctgagcgccaggaaattGaaggaatttccccgtaccgc	10	12	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr13:47127780G>C	uc001vbj.2	+	1	485	c.249G>C	c.(247-249)TTG>TTC	p.L83F	LRCH1_uc010acp.2_Missense_Mutation_p.L83F|LRCH1_uc001vbk.2_Missense_Mutation_p.L83F|LRCH1_uc001vbl.3_Missense_Mutation_p.L83F	NM_015116	NP_055931	Q9Y2L9	LRCH1_HUMAN	leucine-rich repeats and calponin homology (CH)	83										ovary(1)|central_nervous_system(1)	2		all_lung(13;5.61e-07)|Lung NSC(96;0.000117)|Breast(56;0.000141)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000123)		CCAGGAAATTGAAGGAATTTC	0.692													5	8	---	---	---	---	PASS	C	47127780	C	C	47127780	3	2	62	1	0	0	0	0	1	0	0	0	8932	1281	45	2	251	2	LRCH1	13	47127780	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	11078094	47127780	68042098	375	24488										
OR4K14	122740	broad.mit.edu	37	chr14	20482684	20482684	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcacgctgtctgatagcgagGaggatcacggtgtaggagat	16	7	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:20482684G>T	uc010tky.1	-	1	669	c.669C>A	c.(667-669)CTC>CTA	p.L223L		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	223	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		TGATAGCGAGGAGGATCACGG	0.498													11	39	---	---	---	---	PASS	T	20482684	T	T	20482684	2	4	62	1	0	0	0	0	0	0	0	1	11069	1161	41	2		2	OR4K14	14	20482684	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08		20482684	86866856	376	24489										
JPH4	84502	broad.mit.edu	37	chr14	24040504	24040504	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggtcccctccaggaggcagtGggctccggcaggcagggggt	19	12	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:24040504G>A	uc001wkq.2	-	6	2354	c.1436C>T	c.(1435-1437)CCA>CTA	p.P479L	JPH4_uc010tnr.1_Missense_Mutation_p.P144L|JPH4_uc001wkr.2_Missense_Mutation_p.P479L	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	479	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		AGGAGGCAGTGGGCTCCGGCA	0.667													28	73	---	---	---	---	PASS	A	24040504	A	A	24040504	3	1	62	1	0	0	0	0	1	0	0	0	7963	1348	47	3	458	3	JPH4	14	24040504	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3557820	24040504	83309036	377	24490										
TGM1	7051	broad.mit.edu	37	chr14	24724586	24724586	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtaccttctgggtgcttataGaggtaggtgatgtcctcccg	13	9	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:24724586G>C	uc001wod.2	-	11	1753	c.1629C>G	c.(1627-1629)CTC>CTG	p.L543L	TGM1_uc010tog.1_Silent_p.L101L	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	543					cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	GGTGCTTATAGAGGTAGGTGA	0.542													16	31	---	---	---	---	PASS	C	24724586	C	C	24724586	2	2	62	1	0	0	0	0	0	0	0	1	15826	929	33	2		2	TGM1	14	24724586	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	684082	24724586	82624954	378	24491										
AKAP6	9472	broad.mit.edu	37	chr14	33293734	33293734	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cccaaacttccagtggctgtGcagaaaacttagagtttact	8	10	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:33293734G>T	uc001wrq.2	+	13	6885	c.6715G>T	c.(6715-6717)GCA>TCA	p.A2239S		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	2239					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CAGTGGCTGTGCAGAAAACTT	0.448													13	53	---	---	---	---	PASS	T	33293734	T	T	33293734	3	4	62	1	0	0	0	0	1	0	0	0	455	1319	46	3	6761	3	AKAP6	14	33293734	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	8569148	33293734	74055806	379	24492										
PAX9	5083	broad.mit.edu	37	chr14	37132112	37132112	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cattttgcagagccagccttCggggaggtgaaccagctggg	15	10	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:37132112C>T	uc001wty.3	+	3	732	c.15C>T	c.(13-15)TTC>TTT	p.F5F		NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	5	Paired.				multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		AGCCAGCCTTCGGGGAGGTGA	0.662													32	76	---	---	---	---	PASS	T	37132112	T	T	37132112	2	4	62	1	0	0	0	0	0	0	0	1	11486	883	31	2		2	PAX9	14	37132112	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	3838378	37132112	70217428	380	24493										
MIPOL1	145282	broad.mit.edu	37	chr14	37717107	37717107	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aatacaaatggagaactggtCaaaaggtaaggacttttaag	10	4	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:37717107C>G	uc001wuc.2	+	4	517	c.14C>G	c.(13-15)TCA>TGA	p.S5*	MIPOL1_uc010amr.2_RNA|MIPOL1_uc001wub.3_5'UTR|MIPOL1_uc001wud.2_Nonsense_Mutation_p.S5*|MIPOL1_uc010ams.2_Nonsense_Mutation_p.S5*|MIPOL1_uc001wue.2_5'UTR|MIPOL1_uc010amt.2_Intron	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	5										ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		GAGAACTGGTCAAAAGGTAAG	0.373													14	37	---	---	---	---	PASS	G	37717107	G	G	37717107	4	3	62	1	0	0	0	0	0	1	0	0	9593	838	29	2	16	2	MIPOL1	14	37717107	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	584995	37717107	69632433	381	24494										
KLHL28	54813	broad.mit.edu	37	chr14	45414864	45414864	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccctgtataggcatactccaCaatggcctggagagcagttt	10	11	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:45414864C>A	uc001wvq.2	-	2	514	c.268G>T	c.(268-270)GTG>TTG	p.V90L	KLHL28_uc001wvr.2_Missense_Mutation_p.V90L|KLHL28_uc001wvt.3_Missense_Mutation_p.V90L	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	90	BTB.									ovary(1)	1						GCATACTCCACAATGGCCTGG	0.428													25	56	---	---	---	---	PASS	A	45414864	A	A	45414864	3	1	62	1	0	0	0	0	1	0	0	0	8382	478	17	3	1463	3	KLHL28	14	45414864	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	7697757	45414864	61934676	382	24495										
KTN1	3895	broad.mit.edu	37	chr14	56138564	56138564	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agaaaataaatggaaagttaAggtcgatgaatcacacaaga	9	4	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:56138564A>C	uc001xcb.2	+	38	3802	c.3500A>C	c.(3499-3501)AAG>ACG	p.K1167T	KTN1_uc001xce.2_Missense_Mutation_p.K1138T|KTN1_uc001xcc.2_Missense_Mutation_p.K1167T|KTN1_uc001xcd.2_Missense_Mutation_p.K1144T|KTN1_uc010trb.1_Missense_Mutation_p.K1167T|KTN1_uc001xcf.1_Missense_Mutation_p.K1144T|KTN1_uc010aoq.2_Missense_Mutation_p.K433T|KTN1_uc010trc.1_Missense_Mutation_p.K172T|KTN1_uc001xcg.2_Missense_Mutation_p.K128T	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	1167	Lumenal (Potential).|Potential.				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						TGGAAAGTTAAGGTCGATGAA	0.249			T	RET	papillary thryoid								24	69	---	---	---	---	PASS	C	56138564	C	C	56138564	3	2	62	1	0	0	0	0	1	0	0	0	8585	72	3	5	3642	5	KTN1	14	56138564	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	10723700	56138564	51210976	383	24496										
KIAA0586	9786	broad.mit.edu	37	chr14	58915116	58915116	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcagcctgttagtatgccctCctccagagcagtggaaaagt	10	11	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:58915116C>T	uc001xdv.3	+	7	1139	c.866C>T	c.(865-867)TCC>TTC	p.S289F	KIAA0586_uc010trr.1_Missense_Mutation_p.S330F|KIAA0586_uc001xdt.3_Missense_Mutation_p.S245F|KIAA0586_uc001xdu.3_Missense_Mutation_p.S274F|KIAA0586_uc010trs.1_Missense_Mutation_p.S204F|KIAA0586_uc010trt.1_Missense_Mutation_p.S149F|KIAA0586_uc010tru.1_Missense_Mutation_p.S149F	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	289										ovary(1)	1						AGTATGCCCTCCTCCAGAGCA	0.338													43	101	---	---	---	---	PASS	T	58915116	T	T	58915116	3	4	62	1	0	0	0	0	1	0	0	0	8186	855	30	2	892	2	KIAA0586	14	58915116	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2776552	58915116	48434424	384	24497										
PPM1A	5494	broad.mit.edu	37	chr14	60749451	60749451	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tttttagacaagccaaagatGgaaaagcataatgcccaggg	10	7	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:60749451G>A	uc010apn.2	+	3	432	c.30G>A	c.(28-30)ATG>ATA	p.M10I	PPM1A_uc001xew.3_Missense_Mutation_p.M83I|PPM1A_uc001xex.3_Missense_Mutation_p.M10I|PPM1A_uc001xey.3_Missense_Mutation_p.M10I	NM_021003	NP_066283	P35813	PPM1A_HUMAN	protein phosphatase 1A isoform 1	10					cell cycle arrest|insulin receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein dephosphorylation|Wnt receptor signaling pathway	cytosol|nucleus|protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein serine/threonine phosphatase activity|signal transducer activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.046)		AGCCAAAGATGGAAAAGCATA	0.443													76	171	---	---	---	---	PASS	A	60749451	A	A	60749451	3	1	62	1	0	0	0	0	1	0	0	0	12335	1348	47	3	255	3	PPM1A	14	60749451	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1834335	60749451	46600089	385	24498										
SYNE2	23224	broad.mit.edu	37	chr14	64444689	64444689	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttgaaaataaggatgaaaatCacttgccattggtaccacct	7	8	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:64444689C>T	uc001xgm.2	+	13	1590	c.1360C>T	c.(1360-1362)CAC>TAC	p.H454Y	SYNE2_uc001xgl.2_Missense_Mutation_p.H454Y	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	454	Cytoplasmic (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)		GGATGAAAATCACTTGCCATT	0.378													18	46	---	---	---	---	PASS	T	64444689	T	T	64444689	3	4	62	1	0	0	0	0	1	0	0	0	15443	826	29	2	1406	2	SYNE2	14	64444689	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	3695238	64444689	42904851	386	24499										
SYNE2	23224	broad.mit.edu	37	chr14	64676674	64676674	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atgcaggcctttcagcggcaGattcatgagcggctcactca	11	12	4	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:64676674G>C	uc001xgm.2	+	103	18785	c.18555G>C	c.(18553-18555)CAG>CAC	p.Q6185H	SYNE2_uc001xgl.2_Missense_Mutation_p.Q6185H|SYNE2_uc010apy.2_Missense_Mutation_p.Q2570H|SYNE2_uc001xgn.2_Missense_Mutation_p.Q1147H|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.Q155H|SYNE2_uc001xgq.2_Missense_Mutation_p.Q550H|SYNE2_uc001xgr.2_5'UTR	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6185	Spectrin 7.|Cytoplasmic (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)		TTCAGCGGCAGATTCATGAGC	0.617													29	60	---	---	---	---	PASS	C	64676674	C	C	64676674	3	2	62	1	0	0	0	0	1	0	0	0	15443	933	33	2	18961	2	SYNE2	14	64676674	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	231985	64676674	42672866	387	24500										
PCNX	22990	broad.mit.edu	37	chr14	71413810	71413810	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agctgaacaaggcaactgttCaaccaggagaaaagacagca	10	9	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:71413810C>A	uc001xmo.2	+	2	778	c.332C>A	c.(331-333)TCA>TAA	p.S111*	PCNX_uc001xmn.3_Nonsense_Mutation_p.S111*|PCNX_uc010are.1_Nonsense_Mutation_p.S111*	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	111						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)		GGCAACTGTTCAACCAGGAGA	0.403													12	22	---	---	---	---	PASS	A	71413810	A	A	71413810	4	1	62	1	0	0	0	0	0	1	0	0	11591	838	29	2	338	2	PCNX	14	71413810	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	6737136	71413810	35935730	388	24501										
JDP2	122953	broad.mit.edu	37	chr14	75936092	75936092	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcctgatgctgaaccgacacCgccccacctgcatcgtccgg	9	18	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:75936092C>T	uc010asj.2	+	4	473	c.406C>T	c.(406-408)CGC>TGC	p.R136C	JDP2_uc010tvb.1_Missense_Mutation_p.R136C|JDP2_uc010tvc.1_Missense_Mutation_p.R136C|JDP2_uc001xrq.2_Missense_Mutation_p.R147C	NM_001135047	NP_001128519	Q8WYK2	JDP2_HUMAN	Jun dimerization protein 2 isoform a	136						nucleus	sequence-specific DNA binding				0				BRCA - Breast invasive adenocarcinoma(234;0.0296)		GAACCGACACCGCCCCACCTG	0.592													15	52	---	---	---	---	PASS	T	75936092	T	T	75936092	3	4	62	1	0	0	0	0	1	0	0	0	7947	652	23	1	453	1	JDP2	14	75936092	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	4522282	75936092	31413448	389	24502										
DYNC1H1	1778	broad.mit.edu	37	chr14	102478379	102478379	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cccaaggccatcagcaaagaCcacctctacggaaccctgga	8	16	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:102478379C>T	uc001yks.2	+	33	6950	c.6786C>T	c.(6784-6786)GAC>GAT	p.D2262D		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2262	AAA 2 (By similarity).				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						TCAGCAAAGACCACCTCTACG	0.547													14	61	---	---	---	---	PASS	T	102478379	T	T	102478379	2	4	62	1	0	0	0	0	0	0	0	1	4841	506	18	3		3	DYNC1H1	14	102478379	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	26542287	102478379	4871161	390	24503										
PPP1R13B	23368	broad.mit.edu	37	chr14	104208264	104208264	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcctgggagactgtggccttGaccctttatcagccaggaaa	11	11	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr14:104208264G>C	uc001yof.1	-	11	1968	c.1685C>G	c.(1684-1686)TCA>TGA	p.S562*	PPP1R13B_uc010awv.1_RNA|PPP1R13B_uc001yog.1_Nonsense_Mutation_p.S429*	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	562	Pro-rich.				apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				CTGTGGCCTTGACCCTTTATC	0.552													54	97	---	---	---	---	PASS	C	104208264	C	C	104208264	4	2	62	1	0	0	0	0	0	1	0	0	12357	1294	45	2	1615	2	PPP1R13B	14	104208264	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1729885	104208264	3141276	391	24504										
MKRN3	7681	broad.mit.edu	37	chr15	23811409	23811409	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	caggaagtggcggaagccccCccggctgcatcctccctttc	11	17	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:23811409C>A	uc001ywh.3	+	1	956	c.480C>A	c.(478-480)CCC>CCA	p.P160P	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Silent_p.P160P	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	160						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		CGGAAGCCCCCCCGGCTGCAT	0.647													16	32	---	---	---	---	PASS	A	23811409	A	A	23811409	2	1	62	1	0	0	0	0	0	0	0	1	9608	610	22	3		3	MKRN3	15	23811409	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08		23811409	78719983	392	24505										
GABRB3	2562	broad.mit.edu	37	chr15	26825604	26825604	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtcatccgtggtgtagccatCtgccaagagagaagcaggga	14	9	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:26825604C>T	uc001zaz.2	-	6	687	c.545_splice	c.e6-1	p.Y182_splice	GABRB3_uc010uae.1_Splice_Site_p.Y97_splice|GABRB3_uc001zba.2_Splice_Site_p.Y182_splice|GABRB3_uc001zbb.2_Splice_Site_p.Y238_splice	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta						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)	GTGTAGCCATCTGCCAAGAGA	0.493													32	44	---	---	---	---	PASS	T	26825604	T	T	26825604	5	4	62	1	0	0	0	0	0	0	1	0	6168	927	32	2	893	2	GABRB3	15	26825604	Splice_Site	SNP	C	TCGA-33-6737-01A-11D-1817-08	3014195	26825604	75705788	393	24506										
GABRG3	2567	broad.mit.edu	37	chr15	27772743	27772743	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcaactactattccagctgtAgaaaaccaaccaccacgaag	5	13	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:27772743A>T	uc001zbg.1	+	8	1196	c.1030A>T	c.(1030-1032)AGA>TGA	p.R344*		NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	344	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		TTCCAGCTGTAGAAAACCAAC	0.517													9	15	---	---	---	---	PASS	T	27772743	T	T	27772743	4	4	62	1	0	0	0	0	0	1	0	0	6173	412	15	5	1060	5	GABRG3	15	27772743	Nonsense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	947139	27772743	74758649	394	24507										
CAPN3	825	broad.mit.edu	37	chr15	42681211	42681211	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gaggggtggcagagttttttGagatcagggatgctcctagt	16	5	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:42681211G>A	uc001zpn.1	+	5	1024	c.718G>A	c.(718-720)GAG>AAG	p.E240K	CAPN3_uc001zpk.1_Missense_Mutation_p.E13K|CAPN3_uc001zpl.1_Missense_Mutation_p.E153K|CAPN3_uc010udf.1_Missense_Mutation_p.E153K|CAPN3_uc010udg.1_Missense_Mutation_p.E153K|CAPN3_uc001zpo.1_Missense_Mutation_p.E240K|CAPN3_uc001zpp.1_Missense_Mutation_p.E240K	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	240	Calpain catalytic.				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)		AGAGTTTTTTGAGATCAGGGA	0.522													61	69	---	---	---	---	PASS	A	42681211	A	A	42681211	3	1	62	1	0	0	0	0	1	0	0	0	2628	1291	45	2	788	2	CAPN3	15	42681211	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	14908468	42681211	59850181	395	24508										
UBR1	197131	broad.mit.edu	37	chr15	43262764	43262764	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaagaaagaagatgcggaatGagcctcttcactgtcttctt	9	8	4	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:43262764G>A	uc001zqq.2	-	40	4477	c.4411C>T	c.(4411-4413)CAT>TAT	p.H1471Y		NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	1471					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)		GATGCGGAATGAGCCTCTTCA	0.358													33	123	---	---	---	---	PASS	A	43262764	A	A	43262764	3	1	62	1	0	0	0	0	1	0	0	0	16898	1290	45	2	870	2	UBR1	15	43262764	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	581553	43262764	59268628	396	24509										
UBR1	197131	broad.mit.edu	37	chr15	43262791	43262791	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttcactgtcttcttgaacctGagcaaggggtaggcctgaaa	11	9	3	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:43262791G>C	uc001zqq.2	-	40	4450	c.4384C>G	c.(4384-4386)CAG>GAG	p.Q1462E		NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	1462					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)		TCTTGAACCTGAGCAAGGGGT	0.353													28	101	---	---	---	---	PASS	C	43262791	C	C	43262791	3	2	62	1	0	0	0	0	1	0	0	0	16898	1299	45	2	897	2	UBR1	15	43262791	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	27	43262791	59268601	397	24510										
UBR1	197131	broad.mit.edu	37	chr15	43313514	43313514	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtccttctggccttctaactGgggaattcctttgagttttt	9	9	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:43313514G>A	uc001zqq.2	-	27	2965	c.2899C>T	c.(2899-2901)CAG>TAG	p.Q967*	UBR1_uc010udk.1_Nonsense_Mutation_p.Q967*	NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	967					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)		CCTTCTAACTGGGGAATTCCT	0.313													70	70	---	---	---	---	PASS	A	43313514	A	A	43313514	4	1	62	1	0	0	0	0	0	1	0	0	16898	1357	47	3	2434	3	UBR1	15	43313514	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	50723	43313514	59217878	398	24511										
KIAA1370	56204	broad.mit.edu	37	chr15	52901085	52901085	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtcattttttttggaatcatCagactgaagattgccaaaga	8	6	3	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:52901085C>G	uc002acg.3	-	6	2179	c.2026G>C	c.(2026-2028)GAT>CAT	p.D676H	KIAA1370_uc002ach.3_RNA|KIAA1370_uc010bfg.1_Missense_Mutation_p.D588H|KIAA1370_uc010ugf.1_Missense_Mutation_p.D683H	NM_019600	NP_062546	Q32MH5	K1370_HUMAN	hypothetical protein LOC56204	676											0				all cancers(107;0.0803)		TTGGAATCATCAGACTGAAGA	0.274													10	50	---	---	---	---	PASS	G	52901085	G	G	52901085	3	3	62	1	0	0	0	0	1	0	0	0	8226	826	29	2	1236	2	KIAA1370	15	52901085	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	9587571	52901085	49630307	399	24512										
MNS1	55329	broad.mit.edu	37	chr15	56748594	56748594	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttagagaaaccaagatacctGttttctcttacttgttgcct	6	9	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:56748594G>T	uc002adr.2	-	3	516	c.351C>A	c.(349-351)AAC>AAA	p.N117K	MNS1_uc010bfo.2_Intron	NM_018365	NP_060835	Q8NEH6	MNS1_HUMAN	meiosis-specific nuclear structural 1	117	Potential.|Glu-rich.				meiosis					ovary(1)	1				all cancers(107;0.0196)|GBM - Glioblastoma multiforme(80;0.101)		CAAGATACCTGTTTTCTCTTA	0.323													11	44	---	---	---	---	PASS	T	56748594	T	T	56748594	3	4	62	1	0	0	0	0	1	0	0	0	9677	1368	48	3	1168	3	MNS1	15	56748594	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3847509	56748594	45782798	400	24513										
HERC1	8925	broad.mit.edu	37	chr15	64010802	64010802	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccgtgatgatgaccttgtttGaataagttcaaggttcttgc	10	7	2	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:64010802G>A	uc002amp.2	-	21	4097	c.3949C>T	c.(3949-3951)CAA>TAA	p.Q1317*	HERC1_uc010uil.1_Intron	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	1317					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						GACCTTGTTTGAATAAGTTCA	0.358													5	12	---	---	---	---	PASS	A	64010802	A	A	64010802	4	1	62	1	0	0	0	0	0	1	0	0	7057	1299	45	2	10868	2	HERC1	15	64010802	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	7262208	64010802	38520590	401	24514										
SPG21	51324	broad.mit.edu	37	chr15	65273231	65273231	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccggtaaccccatccagtcaGagccaaaatctgccggaaaa	8	14	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:65273231G>C	uc002aod.2	-	3	289	c.196C>G	c.(196-198)CTG>GTG	p.L66V	SPG21_uc002aoe.2_Missense_Mutation_p.L66V|SPG21_uc010bhb.2_Missense_Mutation_p.L66V|SPG21_uc010bhc.2_5'UTR	NM_001127889	NP_001121361	Q9NZD8	SPG21_HUMAN	spastic paraplegia 21 isoform a	66					cell death	cytosol|endosome membrane|trans-Golgi network transport vesicle	CD4 receptor binding				0						CATCCAGTCAGAGCCAAAATC	0.463													15	49	---	---	---	---	PASS	C	65273231	C	C	65273231	3	2	62	1	0	0	0	0	1	0	0	0	15042	933	33	2	758	2	SPG21	15	65273231	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1262429	65273231	37258161	402	24515										
ISL2	64843	broad.mit.edu	37	chr15	76633489	76633489	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccgcagagccttcagggactGactgggacgcccctggtggc	15	14	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:76633489G>A	uc002bbw.1	+	5	888	c.810G>A	c.(808-810)CTG>CTA	p.L270L		NM_145805	NP_665804	Q96A47	ISL2_HUMAN	ISL LIM homeobox 2	270						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTCAGGGACTGACTGGGACGC	0.647													21	19	---	---	---	---	PASS	A	76633489	A	A	76633489	2	1	62	1	0	0	0	0	0	0	0	1	7857	1277	45	2		2	ISL2	15	76633489	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	11360258	76633489	25897903	403	24516										
IL16	3603	broad.mit.edu	37	chr15	81585375	81585375	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cacaccccacccacctgtggCcaggtaagaggatgggtcca	11	15	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:81585375C>T	uc002bgh.3	+	12	2275	c.1899C>T	c.(1897-1899)GGC>GGT	p.G633G	IL16_uc002bgc.2_RNA|IL16_uc010blq.1_Intron|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Silent_p.G675G|IL16_uc002bgg.2_Silent_p.G633G|IL16_uc002bgi.1_5'UTR|IL16_uc002bgj.2_Silent_p.G127G|IL16_uc002bgk.2_5'Flank	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	633					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						CCACCTGTGGCCAGGTAAGAG	0.498													7	46	---	---	---	---	PASS	T	81585375	T	T	81585375	2	4	62	1	0	0	0	0	0	0	0	1	7633	726	26	3		3	IL16	15	81585375	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	4951886	81585375	20946017	404	24517										
C15orf40	123207	broad.mit.edu	37	chr15	83679055	83679055	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggtgacgcatcctttaggatCaactgccacaggacctaagg	11	11	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:83679055C>T	uc010uoo.1	-	2	206	c.172G>A	c.(172-174)GAT>AAT	p.D58N	C15orf40_uc010uon.1_Missense_Mutation_p.D58N|C15orf40_uc002bjm.2_Missense_Mutation_p.D58N|C15orf40_uc010uop.1_Missense_Mutation_p.D58N|C15orf40_uc010uoq.1_RNA|C15orf40_uc010uor.1_Missense_Mutation_p.D58N	NM_001160115	NP_001153587	Q8WUR7	CO040_HUMAN	hypothetical protein LOC123207 isoform d	31										skin(1)	1						CCTTTAGGATCAACTGCCACA	0.463													25	148	---	---	---	---	PASS	T	83679055	T	T	83679055	3	4	62	1	0	0	0	0	1	0	0	0	1794	826	29	2	773	2	C15orf40	15	83679055	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2093680	83679055	18852337	405	24518										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84558983	84558983	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aactgaaggaatgcagcatgGatccctgcccatcaaggttt	10	10	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:84558983G>C	uc002bjz.3	+	11	1419	c.1195G>C	c.(1195-1197)GAT>CAT	p.D399H	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.D399H|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.D399H	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	399						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)			ATGCAGCATGGATCCCTGCCC	0.413													15	56	---	---	---	---	PASS	C	84558983	C	C	84558983	3	2	62	1	0	0	0	0	1	0	0	0	276	1174	41	2	1233	2	ADAMTSL3	15	84558983	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	879928	84558983	17972409	406	24519										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84611357	84611357	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttctgttttaggtggcatgtGggctcttgggggccctgctc	15	9	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:84611357G>A	uc002bjz.3	+	18	2351	c.2127G>A	c.(2125-2127)GTG>GTA	p.V709V	ADAMTSL3_uc010bmt.1_Silent_p.V709V|ADAMTSL3_uc010bmu.1_Silent_p.V709V	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	709	TSP type-1 5.					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)			GGTGGCATGTGGGCTCTTGGG	0.547													11	87	---	---	---	---	PASS	A	84611357	A	A	84611357	2	1	62	1	0	0	0	0	0	0	0	1	276	1335	47	3		3	ADAMTSL3	15	84611357	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	52374	84611357	17920035	407	24520										
ANPEP	290	broad.mit.edu	37	chr15	90334279	90334279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctgatgatggtagaggtggcGtcctgcttccggattaagtc	14	8	0	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr15:90334279G>T	uc002bop.3	-	19	2866	c.2574C>A	c.(2572-2574)GAC>GAA	p.D858E		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	858	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	TAGAGGTGGCGTCCTGCTTCC	0.512													22	96	---	---	---	---	PASS	T	90334279	T	T	90334279	3	4	62	1	0	0	0	0	1	0	0	0	710	1136	40	1	341	1	ANPEP	15	90334279	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	5722922	90334279	12197113	408	24521										
CASKIN1	57524	broad.mit.edu	37	chr16	2233646	2233646	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctgggatgcaggtggccttaCgggtttgtgctcaggcagcc	16	10	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr16:2233646C>A	uc010bsg.1	-	16	1661	c.1629_splice	c.e16+1	p.P543_splice		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1						signal transduction	cytoplasm				skin(2)	2						GGTGGCCTTACGGGTTTGTGC	0.577													18	22	---	---	---	---	PASS	A	2233646	A	A	2233646	5	1	62	1	0	0	0	0	0	0	1	0	2666	550	19	1	2685	1	CASKIN1	16	2233646	Splice_Site	SNP	C	TCGA-33-6737-01A-11D-1817-08		2233646	88121107	409	24522										
VWA3A	146177	broad.mit.edu	37	chr16	22143039	22143039	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcttcactgggggcatccccGaccaggacatggtgggtagg	15	11	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr16:22143039G>T	uc010vbq.1	+	19	1957	c.1861G>T	c.(1861-1863)GAC>TAC	p.D621Y	VWA3A_uc010bxd.2_RNA|VWA3A_uc010bxc.2_Missense_Mutation_p.D629Y	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	621	VWFA 1.					extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		GGGCATCCCCGACCAGGACAT	0.562													16	16	---	---	---	---	PASS	T	22143039	T	T	22143039	3	4	62	1	0	0	0	0	1	0	0	0	17237	1058	37	2	1935	2	VWA3A	16	22143039	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	19909393	22143039	68211714	410	24523										
ATXN2L	11273	broad.mit.edu	37	chr16	28844802	28844802	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaccctaatgctaaggagttCaatcctacaaagcctctgct	6	12	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr16:28844802C>G	uc002drc.2	+	15	2166	c.1998C>G	c.(1996-1998)TTC>TTG	p.F666L	uc010vct.1_Intron|ATXN2L_uc002drb.2_Missense_Mutation_p.F666L|ATXN2L_uc002dqy.2_Missense_Mutation_p.F666L|ATXN2L_uc002dra.2_Missense_Mutation_p.F666L|ATXN2L_uc002dqz.2_Missense_Mutation_p.F666L|ATXN2L_uc010vdb.1_Missense_Mutation_p.F672L|ATXN2L_uc002dre.2_Missense_Mutation_p.F666L|ATXN2L_uc002drf.2_Missense_Mutation_p.F75L|ATXN2L_uc002drg.2_5'Flank	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	666						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						CTAAGGAGTTCAATCCTACAA	0.473													21	20	---	---	---	---	PASS	G	28844802	G	G	28844802	3	3	62	1	0	0	0	0	1	0	0	0	1212	825	29	2	2056	2	ATXN2L	16	28844802	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	6701763	28844802	61509951	411	24524										
ADCY7	113	broad.mit.edu	37	chr16	50326585	50326585	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccaaacccctgtctacccgcAgctgctggccaacgcagtca	8	18	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr16:50326585A>T	uc002egd.1	+	4	806	c.538_splice	c.e4-2	p.L180_splice	ADCY7_uc002egb.1_Splice_Site_p.L180_splice|ADCY7_uc002egc.1_Splice_Site_p.L180_splice	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7						activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	GTCTACCCGCAGCTGCTGGCC	0.602													37	48	---	---	---	---	PASS	T	50326585	T	T	50326585	5	4	62	1	0	0	0	0	0	0	1	0	299	202	7	5	550	5	ADCY7	16	50326585	Splice_Site	SNP	A	TCGA-33-6737-01A-11D-1817-08	21481783	50326585	40028168	412	24525										
COG4	25839	broad.mit.edu	37	chr16	70524265	70524265	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cttcagagtggagatgttttCactgcagacttccacgttgt	10	9	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr16:70524265C>T	uc002ezc.2	-	13	1689	c.1678G>A	c.(1678-1680)GAA>AAA	p.E560K	COG4_uc002eza.2_5'UTR|COG4_uc002ezb.2_Intron|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Intron|COG4_uc002eze.2_Missense_Mutation_p.E254K	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	556					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)				GAGATGTTTTCACTGCAGACT	0.507													30	46	---	---	---	---	PASS	T	70524265	T	T	70524265	3	4	62	1	0	0	0	0	1	0	0	0	3660	835	29	2	719	2	COG4	16	70524265	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	20197680	70524265	19830488	413	24526										
HYDIN	54768	broad.mit.edu	37	chr16	71218891	71218891	+	Frame_Shift_Del	DEL	A	-	-													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttcaggaactctgagggtgtAagctagaatgtaaaacaata							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr16:71218891delA	uc002ezr.2	-	3	266	c.138delT	c.(136-138)CTTfs	p.L46fs	HYDIN_uc010cfz.1_5'UTR|HYDIN_uc002ezv.2_Frame_Shift_Del_p.L46fs|HYDIN_uc010vmc.1_Frame_Shift_Del_p.L63fs|HYDIN_uc010vmd.1_Frame_Shift_Del_p.L73fs|HYDIN_uc002ezw.3_Frame_Shift_Del_p.L63fs	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	46										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CTGAGGGTGTAAGCTAGAATG	0.393													29	18	---	---	---	---		-	71218891	-	-	71218891	7	5	62	1	0	1	0	1	0	0	0	0	7467	349	13	0	15572	0	HYDIN	16	71218891	Frame_Shift_Del	DEL	A	TCGA-33-6737-01A-11D-1817-08	694626	71218891	19135862	414	24527										
MAF	4094	broad.mit.edu	37	chr16	79633671	79633671	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	atgagacggccgcactggctGatgatgcggtcggtctccac	14	12	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr16:79633671G>A	uc002ffn.2	-	1	952	c.129C>T	c.(127-129)ATC>ATT	p.I43I	MAF_uc002ffm.2_Silent_p.I43I	NM_001031804	NP_001026974	O75444	MAF_HUMAN	v-maf musculoaponeurotic fibrosarcoma oncogene	43					transcription from RNA polymerase II promoter	chromatin|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_epithelial(2;0.139)|Lung NSC(2;0.186)|Melanoma(2;0.211)		UCEC - Uterine corpus endometrioid carcinoma (2;0.0178)		CGCACTGGCTGATGATGCGGT	0.622			T	IGH@	MM								23	29	---	---	---	---	PASS	A	79633671	A	A	79633671	2	1	62	1	0	0	0	0	0	0	0	1	9155	1280	45	2		2	MAF	16	79633671	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	8414780	79633671	10721082	415	24528										
RNMTL1	55178	broad.mit.edu	37	chr17	685696	685696	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	caggcttgggaccttgacgcGaggcgctgggtccgggcgct	18	12	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:685696G>T	uc002frw.2	+	1	184	c.78G>T	c.(76-78)GCG>GCT	p.A26A	GLOD4_uc002fru.2_5'Flank|GLOD4_uc010vqc.1_5'Flank|GLOD4_uc002frv.2_5'Flank	NM_018146	NP_060616	Q9HC36	RMTL1_HUMAN	RNA methyltransferase like 1	26					RNA processing		protein binding|RNA binding|RNA methyltransferase activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0219)		ACCTTGACGCGAGGCGCTGGG	0.677													23	34	---	---	---	---	PASS	T	685696	T	T	685696	2	4	62	1	0	0	0	0	0	0	0	1	13507	1045	37	2		2	RNMTL1	17	685696	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08		685696	80509514	416	24529										
OR3A1	4994	broad.mit.edu	37	chr17	3195848	3195848	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggatgaactcagcaatgactGttccattggccccagattct	9	11	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:3195848G>T	uc002fvh.1	-	1	29	c.29C>A	c.(28-30)ACA>AAA	p.T10K		NM_002550	NP_002541	P47881	OR3A1_HUMAN	olfactory receptor, family 3, subfamily A,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(2)|central_nervous_system(1)	3						AGCAATGACTGTTCCATTGGC	0.502													23	55	---	---	---	---	PASS	T	3195848	T	T	3195848	3	4	62	1	0	0	0	0	1	0	0	0	11037	1377	48	3	922	3	OR3A1	17	3195848	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2510152	3195848	77999362	417	24530										
NLRP1	22861	broad.mit.edu	37	chr17	5421084	5421084	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	acctggtttcaccaaggcctCccacaccagagtctcatctt	6	16	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:5421084C>T	uc002gci.2	-	15	4594	c.4039G>A	c.(4039-4041)GAG>AAG	p.E1347K	NLRP1_uc002gcg.1_Missense_Mutation_p.E1351K|NLRP1_uc002gck.2_Missense_Mutation_p.E1303K|NLRP1_uc002gcj.2_Missense_Mutation_p.E1317K|NLRP1_uc002gcl.2_Missense_Mutation_p.E1273K|NLRP1_uc002gch.3_Missense_Mutation_p.E1303K	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1347					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				ACCAAGGCCTCCCACACCAGA	0.448													17	136	---	---	---	---	PASS	T	5421084	T	T	5421084	3	4	62	1	0	0	0	0	1	0	0	0	10471	864	30	2	457	2	NLRP1	17	5421084	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2225236	5421084	75774126	418	24531										
TP53	7157	broad.mit.edu	37	chr17	7577088	7577088	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcggagattctcttcctctgTgcgccggtctctcccaggac	11	15	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:7577088T>G	uc002gim.2	-	8	1044	c.850A>C	c.(850-852)ACA>CCA	p.T284P	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.T284P|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.T152P|TP53_uc010cng.1_Missense_Mutation_p.T152P|TP53_uc002gii.1_Missense_Mutation_p.T152P|TP53_uc010cnh.1_Missense_Mutation_p.T284P|TP53_uc010cni.1_Missense_Mutation_p.T284P|TP53_uc002gij.2_Missense_Mutation_p.T284P	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	284	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		T -> A (in sporadic cancers; somatic mutation).|T -> K (in sporadic cancers; somatic mutation).|T -> P (in sporadic cancers; somatic mutation).|T -> I (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.T284P(7)|p.T284fs*61(3)|p.T284T(3)|p.T284A(3)|p.?(2)|p.T284fs*21(2)|p.T284fs*62(2)|p.R283fs*16(2)|p.C275fs*20(1)|p.R282_E287delRRTEEE(1)|p.L265_K305del41(1)|p.T284fs*57(1)|p.T284_G293del10(1)|p.T284I(1)|p.G279fs*59(1)|p.R283fs*56(1)|p.R283_T284>T(1)|p.S269fs*21(1)|p.V272_K292del21(1)|p.R283fs*59(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)		TCTTCCTCTGTGCGCCGGTCT	0.562		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			9	44	---	---	---	---	PASS	G	7577088	G	G	7577088	3	3	62	1	0	0	0	0	1	0	0	0	16378	1696	59	5	436	5	TP53	17	7577088	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	2156004	7577088	73618122	419	24532										
TP53	7157	broad.mit.edu	37	chr17	7579355	7579355	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcccagaatgcaagaagcccAgacggaaaccgtagctgccc	10	14	0	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:7579355A>T	uc002gim.2	-	4	526	c.332T>A	c.(331-333)CTG>CAG	p.L111Q	TP53_uc002gig.1_Missense_Mutation_p.L111Q|TP53_uc002gih.2_Missense_Mutation_p.L111Q|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Missense_Mutation_p.L111Q|TP53_uc010cni.1_Missense_Mutation_p.L111Q|TP53_uc002gij.2_Missense_Mutation_p.L111Q|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Missense_Mutation_p.L72Q|TP53_uc010cnk.1_Missense_Mutation_p.L126Q	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	111	|Interaction with HIPK1 (By similarity).		L -> Q (in sporadic cancers; somatic mutation).|L -> P (in sporadic cancers; somatic mutation).|L -> M (in a sporadic cancer; somatic mutation).|L -> R (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.L111P(6)|p.L111Q(4)|p.L111R(4)|p.G59fs*23(3)|p.V73fs*9(1)|p.G105_T125del21(1)|p.G112_V122delGFLHSGTAKSV(1)|p.Y107fs*44(1)|p.L111L(1)|p.L111M(1)|p.L111fs*10(1)|p.Y103_G112>C(1)|p.P13fs*18(1)|p.S33fs*23(1)|p.Y103_L111>L(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)		CAAGAAGCCCAGACGGAAACC	0.617		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)			23	48	---	---	---	---	PASS	T	7579355	T	T	7579355	3	4	62	1	0	0	0	0	1	0	0	0	16378	188	7	5	970	5	TP53	17	7579355	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	2267	7579355	73615855	420	24533										
EFNB3	1949	broad.mit.edu	37	chr17	7612580	7612580	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gggcagcaggggggctggcgCtgctcttgctgggcgtggca	21	10	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:7612580C>T	uc002gis.2	+	5	1106	c.709C>T	c.(709-711)CTG>TTG	p.L237L		NM_001406	NP_001397	Q15768	EFNB3_HUMAN	ephrin-B3 precursor	237	Helical; (Potential).				cell-cell signaling|interspecies interaction between organisms	integral to plasma membrane	ephrin receptor binding|transmembrane-ephrin receptor activity			ovary(1)	1		all_cancers(10;1.14e-06)|Prostate(122;0.081)				GGGGCTGGCGCTGCTCTTGCT	0.716													9	22	---	---	---	---	PASS	T	7612580	T	T	7612580	2	4	62	1	0	0	0	0	0	0	0	1	4957	796	28	3		3	EFNB3	17	7612580	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	33225	7612580	73582630	421	24534										
DNAH2	146754	broad.mit.edu	37	chr17	7643162	7643162	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cacggaacttgctggagattGaggacatctttcataaaaat	9	7	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:7643162G>T	uc002giu.1	+	8	1296	c.1282G>T	c.(1282-1284)GAG>TAG	p.E428*	DNAH2_uc002git.2_Nonsense_Mutation_p.E510*|DNAH2_uc010vuk.1_Nonsense_Mutation_p.E428*	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	428	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GCTGGAGATTGAGGACATCTT	0.527													7	45	---	---	---	---	PASS	T	7643162	T	T	7643162	4	4	62	1	0	0	0	0	0	1	0	0	4602	1291	45	2	1312	2	DNAH2	17	7643162	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	30582	7643162	73552048	422	24535										
NTN1	9423	broad.mit.edu	37	chr17	9066153	9066153	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtaactgcaacctgcatgccCggcgctgccgcttcaacatg	10	15	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:9066153C>T	uc002glw.3	+	3	1149	c.1042C>T	c.(1042-1044)CGG>TGG	p.R348W		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	348	Laminin EGF-like 2.				apoptosis|axon guidance		protein binding				0						CCTGCATGCCCGGCGCTGCCG	0.642													51	82	---	---	---	---	PASS	T	9066153	T	T	9066153	3	4	62	1	0	0	0	0	1	0	0	0	10700	643	23	1	1048	1	NTN1	17	9066153	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1422991	9066153	72129057	423	24536										
MYH4	4622	broad.mit.edu	37	chr17	10356989	10356989	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgtggcatgtttctccttctCaaccttggccagtgtcagct	9	12	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:10356989C>G	uc002gmn.2	-	23	3016	c.2905G>C	c.(2905-2907)GAG>CAG	p.E969Q	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	969	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TTCTCCTTCTCAACCTTGGCC	0.378													44	224	---	---	---	---	PASS	G	10356989	G	G	10356989	3	3	62	1	0	0	0	0	1	0	0	0	10037	835	29	2	2986	2	MYH4	17	10356989	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1290836	10356989	70838221	424	24537										
MYH1	4619	broad.mit.edu	37	chr17	10399469	10399469	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	catccaggtggagctgggtaTcctgtggaacaaaccgtcat	12	10	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:10399469T>A	uc002gmo.2	-	35	5061	c.4967A>T	c.(4966-4968)GAT>GTT	p.D1656V	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1656	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity	p.D1656Y(1)		ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						GAGCTGGGTATCCTGTGGAAC	0.547													38	52	---	---	---	---	PASS	A	10399469	A	A	10399469	3	1	62	1	0	0	0	0	1	0	0	0	10029	1449	50	5	876	5	MYH1	17	10399469	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	42480	10399469	70795741	425	24538										
MYOCD	93649	broad.mit.edu	37	chr17	12656532	12656532	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agcattcaccgctgggggctGtgaaaagcccacagcacatc	11	13	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:12656532G>A	uc002gnn.2	+	10	2226	c.1927G>A	c.(1927-1929)GTG>ATG	p.V643M	MYOCD_uc002gno.2_Missense_Mutation_p.V643M|MYOCD_uc002gnp.1_Missense_Mutation_p.V547M|MYOCD_uc002gnq.2_Missense_Mutation_p.V362M	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	643					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		GCTGGGGGCTGTGAAAAGCCC	0.557													31	122	---	---	---	---	PASS	A	12656532	A	A	12656532	3	1	62	1	0	0	0	0	1	0	0	0	10087	1377	48	3	1965	3	MYOCD	17	12656532	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2257063	12656532	68538678	426	24539										
FLII	2314	broad.mit.edu	37	chr17	18148479	18148479	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agggccttgcagaaggcgctCcaggcgtggaagcagcgggt	18	10	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:18148479C>G	uc002gsr.1	-	30	3834	c.3783G>C	c.(3781-3783)TGG>TGC	p.W1261C	FLII_uc002gsq.1_Missense_Mutation_p.W1132C|FLII_uc010cpy.1_Missense_Mutation_p.W1250C|FLII_uc010vxn.1_Missense_Mutation_p.W1230C|FLII_uc010vxo.1_Missense_Mutation_p.W1206C	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	1261					multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					AGAAGGCGCTCCAGGCGTGGA	0.637													40	163	---	---	---	---	PASS	G	18148479	G	G	18148479	3	3	62	1	0	0	0	0	1	0	0	0	5925	856	30	2	30	2	FLII	17	18148479	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	5491947	18148479	63046731	427	24540										
FLII	2314	broad.mit.edu	37	chr17	18148904	18148904	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tagcaacatgatgtcatcatCtgccaggtcatcttggcaaa	8	10	5	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:18148904C>T	uc002gsr.1	-	28	3625	c.3574G>A	c.(3574-3576)GAT>AAT	p.D1192N	FLII_uc002gsq.1_Missense_Mutation_p.D1063N|FLII_uc010cpy.1_Missense_Mutation_p.D1181N|FLII_uc010vxn.1_Missense_Mutation_p.D1161N|FLII_uc010vxo.1_Missense_Mutation_p.D1137N	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	1192	Gelsolin-like 5.				multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					ATGTCATCATCTGCCAGGTCA	0.512													31	136	---	---	---	---	PASS	T	18148904	T	T	18148904	3	4	62	1	0	0	0	0	1	0	0	0	5925	913	32	2	247	2	FLII	17	18148904	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	425	18148904	63046306	428	24541										
MFAP4	4239	broad.mit.edu	37	chr17	19288704	19288704	+	Missense_Mutation	SNP	C	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tccatcagcacggccgaagcCcagcttgtagtcattccagc							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:19288704C>A	uc002gvt.2	-	4	329	c.304G>T	c.(304-306)GGC>TGC	p.G102C	MFAP4_uc002gvr.2_Intron|MFAP4_uc002gvs.2_Missense_Mutation_p.G126C	NM_002404	NP_002395	P55083	MFAP4_HUMAN	microfibrillar-associated protein 4 precursor	102	Fibrinogen C-terminal.				cell adhesion|signal transduction	microfibril	receptor binding				0	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					CGGCCGAAGCCCAGCTTGTAG	0.577													31	59	---	---	---	---	PASS	A	19288704	A	A	19288704	3	1	62	1	0	0	0	0	1	0	0	0	9517	623	22	3	475	3	MFAP4	17	19288704	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1139800	19288704	61906506	429	24542	529	2								
MFAP4	4239	broad.mit.edu	37	chr17	19288705	19288705	+	Silent	SNP	C	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccatcagcacggccgaagccCagcttgtagtcattccagcc							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:19288705C>A	uc002gvt.2	-	4	328	c.303G>T	c.(301-303)CTG>CTT	p.L101L	MFAP4_uc002gvr.2_Intron|MFAP4_uc002gvs.2_Silent_p.L125L	NM_002404	NP_002395	P55083	MFAP4_HUMAN	microfibrillar-associated protein 4 precursor	101	Fibrinogen C-terminal.				cell adhesion|signal transduction	microfibril	receptor binding				0	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					GGCCGAAGCCCAGCTTGTAGT	0.582													31	58	---	---	---	---	PASS	A	19288705	A	A	19288705	2	1	62	1	0	0	0	0	0	0	0	1	9517	581	21	3		3	MFAP4	17	19288705	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	1	19288705	61906505	430	24543	529	2								
SUPT6H	6830	broad.mit.edu	37	chr17	27002030	27002030	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aaatgtcagatgacgaggacGatgacgaggaggaatatggc	15	5	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:27002030G>T	uc002hby.2	+	5	478	c.388G>T	c.(388-390)GAT>TAT	p.D130Y	SUPT6H_uc010crt.2_Missense_Mutation_p.D130Y	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	130	Asp/Glu-rich.				chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					TGACGAGGACGATGACGAGGA	0.498													3	63	---	---	---	---	PASS	T	27002030	T	T	27002030	3	4	62	1	0	0	0	0	1	0	0	0	15397	1058	37	2	402	2	SUPT6H	17	27002030	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	7713325	27002030	54193180	431	24544										
IKZF3	22806	broad.mit.edu	37	chr17	37922313	37922313	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agttcgtaagagcggggaacCtccttcagaagtggcatccc	12	11	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:37922313C>A	uc002hsu.2	-	8	1322	c.1260G>T	c.(1258-1260)GAG>GAT	p.E420D	IKZF3_uc002htd.2_Missense_Mutation_p.E386D|IKZF3_uc010cwd.2_Missense_Mutation_p.E277D|IKZF3_uc002hsv.2_Missense_Mutation_p.E347D|IKZF3_uc010cwe.2_Missense_Mutation_p.E286D|IKZF3_uc010cwf.2_Missense_Mutation_p.E238D|IKZF3_uc010cwg.2_Missense_Mutation_p.E199D|IKZF3_uc002hsw.2_Missense_Mutation_p.E381D|IKZF3_uc002hsx.2_Missense_Mutation_p.E364D|IKZF3_uc002hsy.2_Missense_Mutation_p.E381D|IKZF3_uc002hsz.2_Missense_Mutation_p.E325D|IKZF3_uc002hta.2_Missense_Mutation_p.E342D|IKZF3_uc002htb.2_RNA|IKZF3_uc010cwh.2_Missense_Mutation_p.E333D|IKZF3_uc002htc.2_Missense_Mutation_p.E173D|IKZF3_uc010wel.1_Missense_Mutation_p.E173D	NM_012481	NP_036613	Q9UKT9	IKZF3_HUMAN	aiolos isoform 1	420					B cell activation|mesoderm development|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)|kidney(2)|skin(2)	6	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			AGCGGGGAACCTCCTTCAGAA	0.542													53	114	---	---	---	---	PASS	A	37922313	A	A	37922313	3	1	62	1	0	0	0	0	1	0	0	0	7616	680	24	3	273	3	IKZF3	17	37922313	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	10920283	37922313	43272897	432	24545										
CDC6	990	broad.mit.edu	37	chr17	38449707	38449707	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tatttgcatttttttttccaGaaggaactgaaaggctttaa	7	5	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:38449707G>A	uc002huj.1	+	5	871	c.661_splice	c.e5-1	p.K221_splice		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein						cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						TTTTTTTCCAGAAGGAACTGA	0.403													17	45	---	---	---	---	PASS	A	38449707	A	A	38449707	5	1	62	1	0	0	0	0	0	0	1	0	3083	956	33	2	674	2	CDC6	17	38449707	Splice_Site	SNP	G	TCGA-33-6737-01A-11D-1817-08	527394	38449707	42745503	433	24546										
CDC6	990	broad.mit.edu	37	chr17	38449807	38449807	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctcaggagatttgtcaggaaGaggtatccaggccagctggg	15	8	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:38449807G>A	uc002huj.1	+	5	970	c.760G>A	c.(760-762)GAG>AAG	p.E254K		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	254					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						TTGTCAGGAAGAGGTATCCAG	0.453													36	67	---	---	---	---	PASS	A	38449807	A	A	38449807	3	1	62	1	0	0	0	0	1	0	0	0	3083	943	33	2	774	2	CDC6	17	38449807	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	100	38449807	42745403	434	24547										
CDC6	990	broad.mit.edu	37	chr17	38453016	38453016	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctattctcaaaccactgtctGaatgtaagtagtttatctcc	5	10	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:38453016G>A	uc002huj.1	+	9	1456	c.1246G>A	c.(1246-1248)GAA>AAA	p.E416K		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	416					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						ACCACTGTCTGAATGTAAGTA	0.328													29	43	---	---	---	---	PASS	A	38453016	A	A	38453016	3	1	62	1	0	0	0	0	1	0	0	0	3083	1291	45	2	1276	2	CDC6	17	38453016	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3209	38453016	42742194	435	24548										
KLHL11	55175	broad.mit.edu	37	chr17	40021343	40021343	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cgaagcacagggtaatgtcgCagaagaggccctggcgccgc	15	12	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:40021343C>T	uc002hyf.1	-	1	287	c.281G>A	c.(280-282)TGC>TAC	p.C94Y		NM_018143	NP_060613	Q9NVR0	KLH11_HUMAN	kelch-like 11 precursor	94	BTB.					extracellular region					0		Breast(137;0.00156)				GGTAATGTCGCAGAAGAGGCC	0.687													10	20	---	---	---	---	PASS	T	40021343	T	T	40021343	3	4	62	1	0	0	0	0	1	0	0	0	8367	710	25	3	1853	3	KLHL11	17	40021343	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1568327	40021343	41173867	436	24549										
RUNDC1	146923	broad.mit.edu	37	chr17	41143266	41143266	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttatggctcctattgcttgtTtgctgccagccttctcctcg	8	13	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:41143266T>G	uc002ici.1	+	5	1387	c.1375T>G	c.(1375-1377)TTG>GTG	p.L459V	RUNDC1_uc010whi.1_Missense_Mutation_p.L229V	NM_173079	NP_775102	Q96C34	RUND1_HUMAN	RUN domain containing 1	459	RUN.										0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		TATTGCTTGTTTGCTGCCAGC	0.577													8	45	---	---	---	---	PASS	G	41143266	G	G	41143266	3	3	62	1	0	0	0	0	1	0	0	0	13742	1838	64	5	1393	5	RUNDC1	17	41143266	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	1121923	41143266	40051944	437	24550										
COL1A1	1277	broad.mit.edu	37	chr17	48266583	48266583	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cctctctgaccaggcaggccGaccacaccacgctgtccagc	9	19	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:48266583G>A	uc002iqm.2	-	40	3009	c.2883C>T	c.(2881-2883)GTC>GTT	p.V961V		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	961	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	CAGGCAGGCCGACCACACCAC	0.622			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						9	27	---	---	---	---	PASS	A	48266583	A	A	48266583	2	1	62	1	0	0	0	0	0	0	0	1	3677	1045	37	2		2	COL1A1	17	48266583	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	7123317	48266583	32928627	438	24551										
KIF2B	84643	broad.mit.edu	37	chr17	51901867	51901867	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttgggtcagaacaagcctcaCaccccattcagagccagcaa	8	14	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:51901867C>T	uc002iua.2	+	1	1629	c.1473C>T	c.(1471-1473)CAC>CAT	p.H491H	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	491					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						ACAAGCCTCACACCCCATTCA	0.527													28	40	---	---	---	---	PASS	T	51901867	T	T	51901867	2	4	62	1	0	0	0	0	0	0	0	1	8298	477	17	3		3	KIF2B	17	51901867	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	3635284	51901867	29293343	439	24552										
TANC2	26115	broad.mit.edu	37	chr17	61432487	61432487	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tatgaagttcccaacccagtCttcctttgaccgggtgatgc	9	12	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:61432487C>T	uc002jal.3	+	12	2119	c.2096C>T	c.(2095-2097)TCT>TTT	p.S699F	TANC2_uc010wpe.1_Missense_Mutation_p.S609F|TANC2_uc002jam.1_Missense_Mutation_p.S66F	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	699							binding			ovary(2)	2						CCAACCCAGTCTTCCTTTGAC	0.478													15	96	---	---	---	---	PASS	T	61432487	T	T	61432487	3	4	62	1	0	0	0	0	1	0	0	0	15542	913	32	2	2142	2	TANC2	17	61432487	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	9530620	61432487	19762723	440	24553										
SCN4A	6329	broad.mit.edu	37	chr17	62022729	62022729	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtcacactcaccacctgcagGagggagaggtagcccagacc	12	14	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:62022729G>C	uc002jds.1	-	19	3788	c.3711C>G	c.(3709-3711)CTC>CTG	p.L1237L		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1237	III.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	CCACCTGCAGGAGGGAGAGGT	0.617													13	47	---	---	---	---	PASS	C	62022729	C	C	62022729	2	2	62	1	0	0	0	0	0	0	0	1	13920	1161	41	2		2	SCN4A	17	62022729	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	590242	62022729	19172481	441	24554										
SDK2	54549	broad.mit.edu	37	chr17	71394258	71394258	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcagggggtgcctgcagggtCtggatctttctagaaggctg	16	8	4	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:71394258C>A	uc010dfm.2	-	24	3270	c.3270G>T	c.(3268-3270)CAG>CAT	p.Q1090H	SDK2_uc002jjt.3_Missense_Mutation_p.Q249H|SDK2_uc010dfn.2_Missense_Mutation_p.Q769H	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1090	Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						CCTGCAGGGTCTGGATCTTTC	0.622													13	52	---	---	---	---	PASS	A	71394258	A	A	71394258	3	1	62	1	0	0	0	0	1	0	0	0	13969	912	32	2	3336	2	SDK2	17	71394258	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	9371529	71394258	9800952	442	24555										
RECQL5	9400	broad.mit.edu	37	chr17	73658595	73658595	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgtccaagagccttaaggcaGaagtccttcaggttcccata	9	11	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:73658595G>T	uc010dgl.2	-	4	891	c.735C>A	c.(733-735)TTC>TTA	p.F245L	RECQL5_uc010dgk.2_Missense_Mutation_p.F218L|RECQL5_uc002jpb.1_Missense_Mutation_p.F245L|RECQL5_uc002joz.3_Missense_Mutation_p.F245L|RECQL5_uc002jpa.3_Missense_Mutation_p.F245L	NM_004259	NP_004250	O94762	RECQ5_HUMAN	RecQ protein-like 5 isoform 1	245	Helicase C-terminal.				DNA recombination|DNA repair	cytoplasm|nuclear membrane|nucleolus|nucleoplasm	ATP binding|ATP-dependent helicase activity|DNA helicase activity|nucleic acid binding			kidney(3)	3	all_cancers(13;2.73e-08)|Breast(9;6.04e-09)|all_epithelial(9;6.79e-09)		all cancers(21;1.15e-06)|Epithelial(20;2.19e-06)|Lung(188;0.101)|LUSC - Lung squamous cell carcinoma(166;0.112)			CCTTAAGGCAGAAGTCCTTCA	0.522								Other_identified_genes_with_known_or_suspected_DNA_repair_function					65	349	---	---	---	---	PASS	T	73658595	T	T	73658595	3	4	62	1	0	0	0	0	1	0	0	0	13203	933	33	2	2395	2	RECQL5	17	73658595	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2264337	73658595	7536615	443	24556										
LGALS3BP	3959	broad.mit.edu	37	chr17	76967757	76967757	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gggaaggaggaggtgctcttCgagctgttggtgtccagggc	19	7	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr17:76967757C>A	uc002jwh.2	-	6	1838	c.1659G>T	c.(1657-1659)TCG>TCT	p.S553S	LGALS3BP_uc002jwi.2_Silent_p.S359S|LGALS3BP_uc010dhr.2_Silent_p.S359S	NM_005567	NP_005558	Q08380	LG3BP_HUMAN	galectin 3 binding protein	553					cell adhesion|cellular defense response	extracellular space|membrane|proteinaceous extracellular matrix	protein binding|scavenger receptor activity			central_nervous_system(3)|ovary(1)	4			BRCA - Breast invasive adenocarcinoma(99;0.0677)|OV - Ovarian serous cystadenocarcinoma(97;0.139)			AGGTGCTCTTCGAGCTGTTGG	0.612											OREG0024787	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	47	---	---	---	---	PASS	A	76967757	A	A	76967757	2	1	62	1	0	0	0	0	0	0	0	1	8744	871	31	2		2	LGALS3BP	17	76967757	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	3309162	76967757	4227453	444	24557										
ZNF519	162655	broad.mit.edu	37	chr18	14105322	14105322	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aagctttgccacattccttaCacttgaaaggtttctctcca	5	12	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr18:14105322C>A	uc002kst.1	-	3	1370	c.1217G>T	c.(1216-1218)TGT>TTT	p.C406F	ZNF519_uc002ksq.1_Intron|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_Intron	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	406	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACATTCCTTACACTTGAAAGG	0.393													43	117	---	---	---	---	PASS	A	14105322	A	A	14105322	3	1	62	1	0	0	0	0	1	0	0	0	17961	478	17	3	409	3	ZNF519	18	14105322	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08		14105322	63971926	445	24558										
SMAD4	4089	broad.mit.edu	37	chr18	48584787	48584787	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	accaccaaaacggccatcttCagcaccacccgcctatgccg	6	19	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr18:48584787C>T	uc010xdp.1	+	7	1403	c.865C>T	c.(865-867)CAG>TAG	p.Q289*	SMAD4_uc002lfb.3_Nonsense_Mutation_p.Q134*	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	289	SAD.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		CGGCCATCTTCAGCACCACCC	0.463									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				28	43	---	---	---	---	PASS	T	48584787	T	T	48584787	4	4	62	1	0	0	0	0	0	1	0	0	14760	827	29	2	887	2	SMAD4	18	48584787	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	34479465	48584787	29492461	446	24559										
WDR7	23335	broad.mit.edu	37	chr18	54423878	54423878	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aataaagacaaacctaacagAcccggacatacatgtgctat	6	10	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr18:54423878A>T	uc002lgk.1	+	15	2265	c.2054A>T	c.(2053-2055)GAC>GTC	p.D685V	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.D685V	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	685										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		AACCTAACAGACCCGGACATA	0.348													41	43	---	---	---	---	PASS	T	54423878	T	T	54423878	3	4	62	1	0	0	0	0	1	0	0	0	17317	275	10	5	2108	5	WDR7	18	54423878	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	5839091	54423878	23653370	447	24560										
KIAA1468	57614	broad.mit.edu	37	chr18	59925844	59925844	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cttacgctgcgtggactacaGaacttggaaatttacagtct	9	9	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr18:59925844G>C	uc002lil.2	+	15	2352	c.2137G>C	c.(2137-2139)GAA>CAA	p.E713Q	KIAA1468_uc002lik.1_Missense_Mutation_p.E713Q|KIAA1468_uc010xel.1_Missense_Mutation_p.E713Q|KIAA1468_uc002lim.2_Missense_Mutation_p.E357Q	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	713							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				GTGGACTACAGAACTTGGAAA	0.373													34	37	---	---	---	---	PASS	C	59925844	C	C	59925844	3	2	62	1	0	0	0	0	1	0	0	0	8236	943	33	2	2195	2	KIAA1468	18	59925844	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	5501966	59925844	18151404	448	24561										
TMPRSS9	360200	broad.mit.edu	37	chr19	2413846	2413846	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	acgtgactggatcctggaggCcaccaccaaagccagcatgc	11	14	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:2413846C>T	uc010xgx.1	+	9	1301	c.1301C>T	c.(1300-1302)GCC>GTC	p.A434V	TMPRSS9_uc002lvv.1_Missense_Mutation_p.A468V	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	434	Extracellular (Potential).|Peptidase S1 1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATCCTGGAGGCCACCACCAAA	0.672													11	12	---	---	---	---	PASS	T	2413846	T	T	2413846	3	4	62	1	0	0	0	0	1	0	0	0	16250	739	26	3	1335	3	TMPRSS9	19	2413846	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08		2413846	56715137	449	24562										
PNPLA6	10908	broad.mit.edu	37	chr19	7620514	7620514	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggctgctcgcacatcggagtActaaaggcattagaggaggc	14	9	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:7620514A>G	uc010xjq.1	+	26	3183	c.2988A>G	c.(2986-2988)GTA>GTG	p.V996V	PNPLA6_uc002mgq.1_Silent_p.V948V|PNPLA6_uc010xjp.1_Silent_p.V921V|PNPLA6_uc002mgr.1_Silent_p.V948V|PNPLA6_uc002mgs.2_Silent_p.V986V|PNPLA6_uc002mgt.1_RNA	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	987	Patatin.|Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						ACATCGGAGTACTAAAGGCAT	0.667													11	26	---	---	---	---	PASS	G	7620514	G	G	7620514	2	3	62	1	0	0	0	0	0	0	0	1	12169	378	14	5		5	PNPLA6	19	7620514	Silent	SNP	A	TCGA-33-6737-01A-11D-1817-08	5206668	7620514	51508469	450	24563										
FBN3	84467	broad.mit.edu	37	chr19	8186173	8186173	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttcatcagcatgaagccactCtcgtagccgggaaaacactc	8	13	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:8186173C>G	uc002mjf.2	-	24	3201	c.3180G>C	c.(3178-3180)GAG>GAC	p.E1060D		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1060	EGF-like 13; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						TGAAGCCACTCTCGTAGCCGG	0.627													21	32	---	---	---	---	PASS	G	8186173	G	G	8186173	3	3	62	1	0	0	0	0	1	0	0	0	5704	912	32	2	5409	2	FBN3	19	8186173	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	565659	8186173	50942810	451	24564										
MUC16	94025	broad.mit.edu	37	chr19	8976368	8976368	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctgtatgtccagcccggggcCcacagggtcagggtggtagg	17	11	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:8976368C>A	uc002mkp.2	-	75	42664	c.42460G>T	c.(42460-42462)GGC>TGC	p.G14154C	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.G954C|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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						AGCCCGGGGCCCACAGGGTCA	0.597													10	17	---	---	---	---	PASS	A	8976368	A	A	8976368	3	1	62	1	0	0	0	0	1	0	0	0	9973	623	22	3	1103	3	MUC16	19	8976368	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	790195	8976368	50152615	452	24565										
MUC16	94025	broad.mit.edu	37	chr19	8976594	8976594	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtctcacctgagggagatcaGttggcaacccaagtagaagg	13	9	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:8976594G>A	uc002mkp.2	-	74	42586	c.42382C>T	c.(42382-42384)CTG>TTG	p.L14128L	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.L928L|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	14159	SEA 14.|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						AGGGAGATCAGTTGGCAACCC	0.567													8	14	---	---	---	---	PASS	A	8976594	A	A	8976594	2	1	62	1	0	0	0	0	0	0	0	1	9973	1020	36	3		3	MUC16	19	8976594	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	226	8976594	50152389	453	24566										
MUC16	94025	broad.mit.edu	37	chr19	9067184	9067184	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctggaggatgtagttggtgtGtccaaggtaaatgtgccctg	15	6	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:9067184G>T	uc002mkp.2	-	3	20466	c.20262C>A	c.(20260-20262)GAC>GAA	p.D6754E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6756	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TAGTTGGTGTGTCCAAGGTAA	0.483													102	119	---	---	---	---	PASS	T	9067184	T	T	9067184	3	4	62	1	0	0	0	0	1	0	0	0	9973	1368	48	3	23589	3	MUC16	19	9067184	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	90590	9067184	50061799	454	24567										
OR1M1	125963	broad.mit.edu	37	chr19	9203994	9203994	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	agaaaagccagagcaggagaCgcttctcttttccctgttct	9	11	2	3	rs61738474	byFrequency	TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:9203994C>A	uc010xkj.1	+	1	74	c.74C>A	c.(73-75)ACG>AAG	p.T25K		NM_001004456	NP_001004456	Q8NGA1	OR1M1_HUMAN	olfactory receptor, family 1, subfamily M,	25	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3						GAGCAGGAGACGCTTCTCTTT	0.522													33	28	---	---	---	---	PASS	A	9203994	A	A	9203994	3	1	62	1	0	0	0	0	1	0	0	0	10968	536	19	1	76	1	OR1M1	19	9203994	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	136810	9203994	49924989	455	24568										
SMARCA4	6597	broad.mit.edu	37	chr19	11130342	11130342	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	acgtcttgctgacgacgtacGagtacatcatcaaagacaag	9	10	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:11130342G>A	uc002mqf.3	+	18	2865	c.2581G>A	c.(2581-2583)GAG>AAG	p.E861K	SMARCA4_uc010dxp.2_Missense_Mutation_p.E861K|SMARCA4_uc010dxo.2_Missense_Mutation_p.E861K|SMARCA4_uc002mqg.1_Missense_Mutation_p.E861K|SMARCA4_uc010dxq.2_Missense_Mutation_p.E861K|SMARCA4_uc010dxr.2_Missense_Mutation_p.E861K|SMARCA4_uc002mqj.3_Missense_Mutation_p.E861K|SMARCA4_uc010dxs.2_Missense_Mutation_p.E861K|SMARCA4_uc010dxt.1_Missense_Mutation_p.E81K|SMARCA4_uc002mqh.3_5'UTR|SMARCA4_uc002mqi.1_5'Flank	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	861	Helicase ATP-binding.				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GACGACGTACGAGTACATCAT	0.597			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				5	23	---	---	---	---	PASS	A	11130342	A	A	11130342	3	1	62	1	0	0	0	0	1	0	0	0	14770	1059	37	2	2647	2	SMARCA4	19	11130342	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1926348	11130342	47998641	456	24569										
CD97	976	broad.mit.edu	37	chr19	14518791	14518791	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tactcagaattcacctccacCacgtctggcactggccacaa	6	16	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:14518791C>A	uc002myl.2	+	19	2571	c.2448C>A	c.(2446-2448)ACC>ACA	p.T816T	CD97_uc002mym.2_Silent_p.T767T|CD97_uc002myn.2_Silent_p.T723T	NM_078481	NP_510966	P48960	CD97_HUMAN	CD97 antigen isoform 1 precursor	816	Cytoplasmic (Potential).				cell adhesion|cell-cell signaling|cellular component movement|immune response|inflammatory response|neuropeptide signaling pathway	extracellular space|integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(3)|breast(1)	4						TCACCTCCACCACGTCTGGCA	0.657													7	21	---	---	---	---	PASS	A	14518791	A	A	14518791	2	1	62	1	0	0	0	0	0	0	0	1	3049	581	21	3		3	CD97	19	14518791	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	3388449	14518791	44610192	457	24570										
PIK3R2	5296	broad.mit.edu	37	chr19	18271322	18271322	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccgagcagttctccccacctGatgtggctccccctcttctg	8	18	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:18271322G>T	uc002nia.1	+	3	876	c.364G>T	c.(364-366)GAT>TAT	p.D122Y	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	122	Rho-GAP.				fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						CTCCCCACCTGATGTGGCTCC	0.567													4	26	---	---	---	---	PASS	T	18271322	T	T	18271322	3	4	62	1	0	0	0	0	1	0	0	0	11919	1290	45	2	370	2	PIK3R2	19	18271322	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3752531	18271322	40857661	458	24571										
DPF1	8193	broad.mit.edu	37	chr19	38713015	38713015	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	accgatcttgtactcgcaggGcctgagtctggggtcctcca	12	13	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:38713015G>T	uc002ohl.2	-	3	388	c.361C>A	c.(361-363)CCC>ACC	p.P121T	DPF1_uc002ohm.2_Missense_Mutation_p.P121T|DPF1_uc002ohn.2_Missense_Mutation_p.P39T|DPF1_uc010xtu.1_Missense_Mutation_p.P95T|DPF1_uc010xtv.1_Missense_Mutation_p.P95T|DPF1_uc010xtw.1_Missense_Mutation_p.P95T	NM_004647	NP_004638	Q92782	DPF1_HUMAN	D4, zinc and double PHD fingers family 1 isoform	121					induction of apoptosis|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nBAF complex	zinc ion binding				0	all_cancers(60;1.24e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TACTCGCAGGGCCTGAGTCTG	0.612													113	86	---	---	---	---	PASS	T	38713015	T	T	38713015	3	4	62	1	0	0	0	0	1	0	0	0	4716	1203	42	3	953	3	DPF1	19	38713015	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	20441693	38713015	20415968	459	24572										
LGALS4	3960	broad.mit.edu	37	chr19	39299479	39299479	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctcctcgctgccccacttccCgccctgcaacgtgttgaaga	8	18	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:39299479C>T	uc002ojg.2	-	3	458	c.244G>A	c.(244-246)GGG>AGG	p.G82R	LGALS4_uc010xuj.1_Missense_Mutation_p.G82R	NM_006149	NP_006140	P56470	LEG4_HUMAN	galectin-4	82	Galectin 1.				cell adhesion	cytosol|plasma membrane	sugar binding			ovary(1)|skin(1)	2	all_cancers(60;1.02e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			CCCCACTTCCCGCCCTGCAAC	0.582													17	100	---	---	---	---	PASS	T	39299479	T	T	39299479	3	4	62	1	0	0	0	0	1	0	0	0	8745	652	23	1	759	1	LGALS4	19	39299479	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	586464	39299479	19829504	460	24573										
CNTD2	79935	broad.mit.edu	37	chr19	40730462	40730462	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccacgcccagcagctgcaggCgatgtagacgcacgcggcca	13	16	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:40730462C>A	uc010xvi.1	-	3	495	c.446G>T	c.(445-447)CGC>CTC	p.R149L	CNTD2_uc002ond.2_RNA	NM_024877	NP_079153	Q9H8S5	CNTD2_HUMAN	cyclin N-terminal domain containing 2 isoform 2	149					regulation of cyclin-dependent protein kinase activity		protein kinase binding				0						CAGCTGCAGGCGATGTAGACG	0.612													141	72	---	---	---	---	PASS	A	40730462	A	A	40730462	3	1	62	1	0	0	0	0	1	0	0	0	3636	768	27	1	489	1	CNTD2	19	40730462	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1430983	40730462	18398521	461	24574										
PSG7	5676	broad.mit.edu	37	chr19	43430769	43430769	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	catttagccaccaaatgtagGtgtagttctcactcttaggt	8	9	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:43430769G>T	uc002ovl.3	-	5	911	c.809C>A	c.(808-810)ACC>AAC	p.T270N	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_RNA|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Missense_Mutation_p.T148N	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	270	Ig-like C2-type 2.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				CCAAATGTAGGTGTAGTTCTC	0.488													342	201	---	---	---	---	PASS	T	43430769	T	T	43430769	3	4	62	1	0	0	0	0	1	0	0	0	12660	1261	44	3	462	3	PSG7	19	43430769	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2700307	43430769	15698214	462	24575										
CD177	57126	broad.mit.edu	37	chr19	43859925	43859925	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgttatgatggcctcctcagGctcaggggaggtaagcctgg	15	9	2	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:43859925G>T	uc002owi.2	+	4	534	c.492G>T	c.(490-492)AGG>AGT	p.R164S	CD177_uc010eis.2_RNA|CD177_uc002owj.2_RNA	NM_020406	NP_065139	Q8N6Q3	CD177_HUMAN	CD177 molecule precursor	164	UPAR/Ly6 1.				blood coagulation|leukocyte migration	anchored to membrane|plasma membrane				central_nervous_system(1)	1		Prostate(69;0.00682)				GCCTCCTCAGGCTCAGGGGAG	0.582													30	119	---	---	---	---	PASS	T	43859925	T	T	43859925	3	4	62	1	0	0	0	0	1	0	0	0	2971	1194	42	3	506	3	CD177	19	43859925	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	429156	43859925	15269058	463	24576										
TEX101	83639	broad.mit.edu	37	chr19	43922079	43922079	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccaacctgtgtggctttgggGacctgtttcagtgctccttc	11	12	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:43922079G>T	uc010xwo.1	+	5	636	c.441G>T	c.(439-441)GGG>GGT	p.G147G	TEX101_uc002owk.2_Silent_p.G165G	NM_001130011	NP_001123483	Q9BY14	TX101_HUMAN	testis expressed 101 isoform 2	147						anchored to membrane|plasma membrane				ovary(1)	1		Prostate(69;0.0199)				TGGCTTTGGGGACCTGTTTCA	0.493													11	278	---	---	---	---	PASS	T	43922079	T	T	43922079	2	4	62	1	0	0	0	0	0	0	0	1	15770	1161	41	2		2	TEX101	19	43922079	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	62154	43922079	15206904	464	24577										
PLAUR	5329	broad.mit.edu	37	chr19	44169569	44169569	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gggtcctgttggtcttctctGagtgggtacagcttttctcc	12	10	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:44169569G>C	uc002oxf.1	-	3	439	c.209C>G	c.(208-210)TCA>TGA	p.S70*	PLAUR_uc002oxd.1_Nonsense_Mutation_p.S70*|PLAUR_uc002oxe.1_Nonsense_Mutation_p.S65*|PLAUR_uc002oxg.1_Nonsense_Mutation_p.S70*	NM_002659	NP_002650	Q03405	UPAR_HUMAN	plasminogen activator, urokinase receptor	70	UPAR/Ly6 1.				attachment of GPI anchor to protein|blood coagulation|C-terminal protein lipidation|cellular component movement|chemotaxis|fibrinolysis|regulation of proteolysis	anchored to membrane|cell surface|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|extrinsic to membrane|integral to membrane|plasma membrane	enzyme binding|U-plasminogen activator receptor activity			ovary(1)	1		Prostate(69;0.0153)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Streptokinase(DB00086)|Tenecteplase(DB00031)|Urokinase(DB00013)	GGTCTTCTCTGAGTGGGTACA	0.542													75	43	---	---	---	---	PASS	C	44169569	C	C	44169569	4	2	62	1	0	0	0	0	0	1	0	0	12023	1294	45	2	914	2	PLAUR	19	44169569	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	247490	44169569	14959414	465	24578										
SULT2A1	6822	broad.mit.edu	37	chr19	48386955	48386955	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tctcactctctacccagggtGatcgctcccagatgggcaca	9	15	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:48386955G>T	uc002phr.2	-	2	364	c.224C>A	c.(223-225)TCA>TAA	p.S75*		NM_003167	NP_003158	Q06520	ST2A1_HUMAN	bile-salt sulfotransferase 2A1	75					3'-phosphoadenosine 5'-phosphosulfate metabolic process|bile acid catabolic process|cellular lipid metabolic process|digestion|sulfation|xenobiotic metabolic process	cytosol	bile-salt sulfotransferase activity			ovary(1)|pancreas(1)	2		all_cancers(25;3.02e-09)|all_lung(116;6.48e-07)|all_epithelial(76;7.35e-07)|Lung NSC(112;1.56e-06)|all_neural(266;0.0146)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000254)|all cancers(93;0.000545)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.0552)		TACCCAGGGTGATCGCTCCCA	0.517													56	26	---	---	---	---	PASS	T	48386955	T	T	48386955	4	4	62	1	0	0	0	0	0	1	0	0	15378	1294	45	2	653	2	SULT2A1	19	48386955	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	4217386	48386955	10742028	466	24579										
LIG1	3978	broad.mit.edu	37	chr19	48654549	48654549	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cccgtcttctccttccttctCtgtggccacttcagcctctg	6	18	5	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:48654549C>G	uc002pia.1	-	7	634	c.514G>C	c.(514-516)GAG>CAG	p.E172Q	LIG1_uc010xze.1_5'UTR|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Intron|LIG1_uc010xzg.1_Missense_Mutation_p.E141Q|LIG1_uc010xzh.1_RNA	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	172					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	CCTTCCTTCTCTGTGGCCACT	0.562								NER					30	171	---	---	---	---	PASS	G	48654549	G	G	48654549	3	3	62	1	0	0	0	0	1	0	0	0	8781	922	32	2	2333	2	LIG1	19	48654549	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	267594	48654549	10474434	467	24580										
TULP2	7288	broad.mit.edu	37	chr19	49392767	49392767	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtgattgtgcattttcctacCttttggaaggccaagttttc	9	8	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:49392767C>G	uc002pkz.2	-	7	787	c.636G>C	c.(634-636)AAG>AAC	p.K212N		NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	212					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		ATTTTCCTACCTTTTGGAAGG	0.493													103	67	---	---	---	---	PASS	G	49392767	G	G	49392767	3	3	62	1	0	0	0	0	1	0	0	0	16771	695	24	4	954	4	TULP2	19	49392767	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	738218	49392767	9736216	468	24581										
SLC6A16	28968	broad.mit.edu	37	chr19	49814440	49814440	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctggcctgagcctctgcaacCcgggctgctgaaacttgggc	13	14	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:49814440C>T	uc002pmz.2	-	2	399	c.165G>A	c.(163-165)CGG>CGA	p.R55R	SLC6A16_uc002pna.2_Silent_p.R55R|hsa-mir-4324|MI0015854_5'Flank	NM_014037	NP_054756	Q9GZN6	S6A16_HUMAN	solute carrier family 6, member 16	55	Cytoplasmic (Potential).					integral to membrane|intracellular	neurotransmitter:sodium symporter activity			skin(2)|ovary(1)|kidney(1)	4		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00099)|GBM - Glioblastoma multiforme(486;0.0336)		CCTCTGCAACCCGGGCTGCTG	0.547													36	23	---	---	---	---	PASS	T	49814440	T	T	49814440	2	4	62	1	0	0	0	0	0	0	0	1	14679	610	22	3		3	SLC6A16	19	49814440	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	421673	49814440	9314543	469	24582										
POLD1	5424	broad.mit.edu	37	chr19	50905612	50905612	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cttcgcgccctacgaggccaAcgtcgactttgagatccggt	11	14	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:50905612A>T	uc002psb.3	+	6	796	c.740A>T	c.(739-741)AAC>ATC	p.N247I	POLD1_uc002psc.3_Missense_Mutation_p.N247I|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Missense_Mutation_p.N247I	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	247					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		TACGAGGCCAACGTCGACTTT	0.711								DNA_polymerases_(catalytic_subunits)					40	29	---	---	---	---	PASS	T	50905612	T	T	50905612	3	4	62	1	0	0	0	0	1	0	0	0	12190	43	2	5	758	5	POLD1	19	50905612	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	1091172	50905612	8223371	470	24583										
ZNF665	79788	broad.mit.edu	37	chr19	53678738	53678738	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	taattctccaacatgacgtcCctgtacaaagtcttctgagc	6	12	3	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:53678738C>A	uc010eqm.1	-	3	202	c.102G>T	c.(100-102)AGG>AGT	p.R34S		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	Error:Variant_position_missing_in_Q9H7R5_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		ACATGACGTCCCTGTACAAAG	0.453													129	61	---	---	---	---	PASS	A	53678738	A	A	53678738	3	1	62	1	0	0	0	0	1	0	0	0	18070	622	22	3	1942	3	ZNF665	19	53678738	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2773126	53678738	5450245	471	24584										
CACNG7	59284	broad.mit.edu	37	chr19	54418653	54418653	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gccacccccttccccatggtCagcctcttcctcgtgttcac	6	20	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:54418653C>G	uc002qcr.1	+	3	333	c.318C>G	c.(316-318)GTC>GTG	p.V106V	CACNG7_uc010era.1_Silent_p.V106V	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	106	Helical; (Potential).				regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	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;0.0711)		TCCCCATGGTCAGCCTCTTCC	0.602													47	30	---	---	---	---	PASS	G	54418653	G	G	54418653	2	3	62	1	0	0	0	0	0	0	0	1	2562	813	29	2		2	CACNG7	19	54418653	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	739915	54418653	4710330	472	24585										
ZNF579	163033	broad.mit.edu	37	chr19	56089972	56089972	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccccctccggccccttggctGagttccgtgcacccgaggcc	11	20	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:56089972G>C	uc002qlh.2	-	2	1087	c.1034C>G	c.(1033-1035)TCA>TGA	p.S345*		NM_152600	NP_689813	Q8NAF0	ZN579_HUMAN	zinc finger protein 579	345	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.106)		CCCCTTGGCTGAGTTCCGTGC	0.667													19	7	---	---	---	---	PASS	C	56089972	C	C	56089972	4	2	62	1	0	0	0	0	0	1	0	0	18008	1294	45	2	658	2	ZNF579	19	56089972	Nonsense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1671319	56089972	3039011	473	24586										
ZNF579	163033	broad.mit.edu	37	chr19	56090271	56090271	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cgcagacacgggtgcgccttGagctcgcccttggtggcgaa	15	13	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:56090271G>C	uc002qlh.2	-	2	788	c.735C>G	c.(733-735)CTC>CTG	p.L245L		NM_152600	NP_689813	Q8NAF0	ZN579_HUMAN	zinc finger protein 579	245					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.106)		GGTGCGCCTTGAGCTCGCCCT	0.701													9	4	---	---	---	---	PASS	C	56090271	C	C	56090271	2	2	62	1	0	0	0	0	0	0	0	1	18008	1277	45	2		2	ZNF579	19	56090271	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	299	56090271	3038712	474	24587										
ZSCAN4	201516	broad.mit.edu	37	chr19	58190226	58190226	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	accgccatatgaggactcatGagaaaattaccctgccaagt	8	11	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:58190226G>A	uc002qpu.2	+	5	1952	c.1255G>A	c.(1255-1257)GAG>AAG	p.E419K		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	419					telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GAGGACTCATGAGAAAATTAC	0.418													98	57	---	---	---	---	PASS	A	58190226	A	A	58190226	3	1	62	1	0	0	0	0	1	0	0	0	18234	1291	45	2	1265	2	ZSCAN4	19	58190226	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2099955	58190226	938757	475	24588										
ZSCAN1	284312	broad.mit.edu	37	chr19	58565154	58565154	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcgcgaggaagggccctttcCgtgccccgagtgtggcaagg	16	12	0	0	rs143175520		TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:58565154C>A	uc002qrc.1	+	6	1209	c.962C>A	c.(961-963)CCG>CAG	p.P321Q		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	321	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		GGGCCCTTTCCGTGCCCCGAG	0.632													53	31	---	---	---	---	PASS	A	58565154	A	A	58565154	3	1	62	1	0	0	0	0	1	0	0	0	18223	652	23	1	976	1	ZSCAN1	19	58565154	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	374928	58565154	563829	476	24589										
ZNF324B	388569	broad.mit.edu	37	chr19	58967450	58967450	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gtgtggccgccgcttctgccGcaactcgcacctgatccagc	11	17	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:58967450G>A	uc002qsv.1	+	4	1246	c.1139G>A	c.(1138-1140)CGC>CAC	p.R380H	ZNF324B_uc002qsu.1_Missense_Mutation_p.R370H|ZNF324B_uc010euq.1_Missense_Mutation_p.R380H	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	380	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		CGCTTCTGCCGCAACTCGCAC	0.652													3	51	---	---	---	---	PASS	A	58967450	A	A	58967450	3	1	62	1	0	0	0	0	1	0	0	0	17842	1087	38	1	1149	1	ZNF324B	19	58967450	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	402296	58967450	161533	477	24590										
UBE2M	9040	broad.mit.edu	37	chr19	59068153	59068153	+	Frame_Shift_Del	DEL	C	-	-													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gatcatgcgggtaaccctggCccacctggctccaggaaaag							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:59068153delC	uc002qtl.3	-	4	843	c.248delG	c.(247-249)GGCfs	p.G83fs	CHMP2A_uc002qti.2_5'Flank|CHMP2A_uc002qtj.2_5'Flank|CHMP2A_uc002qtk.2_5'Flank|LOC100131691_uc002qtm.2_5'Flank	NM_003969	NP_003960	P61081	UBC12_HUMAN	ubiquitin-conjugating enzyme E2M	83					protein neddylation		ATP binding|NEDD8 ligase activity|protein binding|ribosomal S6-glutamic acid ligase activity|ubiquitin-protein ligase activity			ovary(1)|pancreas(1)	2		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0434)|all cancers(4;1.39e-13)|Epithelial(4;1.01e-10)|OV - Ovarian serous cystadenocarcinoma(4;2.34e-09)|GBM - Glioblastoma multiforme(193;0.0102)|Lung(386;0.179)		GTAACCCTGGCCCACCTGGCT	0.597													66	60	---	---	---	---		-	59068153	-	-	59068153	7	5	62	1	0	1	0	1	0	0	0	0	16862	739	26	0	315	0	UBE2M	19	59068153	Frame_Shift_Del	DEL	C	TCGA-33-6737-01A-11D-1817-08	100703	59068153	60830	478	24591										
MZF1	7593	broad.mit.edu	37	chr19	59073609	59073609	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctcagggcatgcgtagggccGttcacccgtgtggatgcgcc	15	13	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr19:59073609G>A	uc002qto.2	-	6	2596	c.2035C>T	c.(2035-2037)CGG>TGG	p.R679W	LOC100131691_uc002qtm.2_Intron|MZF1_uc002qtn.2_Missense_Mutation_p.R679W	NM_198055	NP_932172	P28698	MZF1_HUMAN	zinc finger protein 42 isoform 2	679					viral reproduction	nucleus	protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0443)|all cancers(4;7.92e-14)|Epithelial(4;5.57e-11)|OV - Ovarian serous cystadenocarcinoma(4;1.13e-09)|GBM - Glioblastoma multiforme(193;0.0108)|Lung(386;0.182)		GCGTAGGGCCGTTCACCCGTG	0.692													3	29	---	---	---	---	PASS	A	59073609	A	A	59073609	3	1	62	1	0	0	0	0	1	0	0	0	10108	1144	40	1	173	1	MZF1	19	59073609	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	5456	59073609	55374	479	24592										
SIRPG	55423	broad.mit.edu	37	chr20	1617104	1617104	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gaaactcactgtatgctcagGtgtggtcctcgccgcagggc	13	12	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:1617104G>T	uc002wfm.1	-	3	543	c.478C>A	c.(478-480)CCT>ACT	p.P160T	SIRPG_uc002wfn.1_Missense_Mutation_p.P160T|SIRPG_uc002wfo.1_Intron|uc002wfp.1_Intron	NM_018556	NP_061026	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma isoform 1	160	Extracellular (Potential).|Ig-like C1-type 1.				blood coagulation|cell adhesion|cell junction assembly|cell-cell signaling|intracellular signal transduction|leukocyte migration|negative regulation of cell proliferation|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to membrane|intracellular|plasma membrane	protein binding			ovary(1)	1						GTATGCTCAGGTGTGGTCCTC	0.512													31	69	---	---	---	---	PASS	T	1617104	T	T	1617104	3	4	62	1	0	0	0	0	1	0	0	0	14336	1261	44	3	697	3	SIRPG	20	1617104	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08		1617104	61408416	480	24593										
HSPA12B	116835	broad.mit.edu	37	chr20	3732708	3732708	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcgcctcccggccgccgcgaGatccgcgccgccatgcagtt	13	19	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:3732708G>C	uc002wjd.2	+	13	2059	c.1956G>C	c.(1954-1956)GAG>GAC	p.E652D	HSPA12B_uc010zqi.1_Missense_Mutation_p.E651D|HSPA12B_uc002wje.2_Missense_Mutation_p.E565D|HSPA12B_uc010zqj.1_Missense_Mutation_p.E486D	NM_052970	NP_443202	Q96MM6	HS12B_HUMAN	heat shock 70kD protein 12B	652							ATP binding				0						GCCGCCGCGAGATCCGCGCCG	0.692													3	14	---	---	---	---	PASS	C	3732708	C	C	3732708	3	2	62	1	0	0	0	0	1	0	0	0	7405	933	33	2	2002	2	HSPA12B	20	3732708	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2115604	3732708	59292812	481	24594										
RIN2	54453	broad.mit.edu	37	chr20	19956105	19956105	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	catggcgccccccatcaagtCcaaaaagaaaaggagcagct	9	13	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:19956105C>T	uc002wro.1	+	7	1472	c.1436C>T	c.(1435-1437)TCC>TTC	p.S479F	RIN2_uc010gcu.1_Intron|RIN2_uc010gcv.1_Missense_Mutation_p.S273F	NM_018993	NP_061866	Q8WYP3	RIN2_HUMAN	Ras and Rab interactor 2	479					endocytosis|small GTPase mediated signal transduction	cytoplasm	GTPase activator activity|Rab guanyl-nucleotide exchange factor activity			lung(4)|ovary(1)	5						CCCATCAAGTCCAAAAAGAAA	0.592													9	60	---	---	---	---	PASS	T	19956105	T	T	19956105	3	4	62	1	0	0	0	0	1	0	0	0	13372	855	30	2	1462	2	RIN2	20	19956105	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	16223397	19956105	43069415	482	24595										
NKX2-2	4821	broad.mit.edu	37	chr20	21493106	21493106	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgagtcctgagggggcgcccCggcagccagaccgtgcactg	16	14	0	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:21493106C>A	uc002wsi.2	-	2	634	c.277G>T	c.(277-279)GGG>TGG	p.G93W		NM_002509	NP_002500	O95096	NKX22_HUMAN	NK2 transcription factor related, locus 2	93					brain development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	chromatin binding|core promoter proximal region DNA binding|transcription coactivator activity			pancreas(1)|skin(1)	2						GGGGGCGCCCCGGCAGCCAGA	0.726													5	19	---	---	---	---	PASS	A	21493106	A	A	21493106	3	1	62	1	0	0	0	0	1	0	0	0	10450	652	23	1	548	1	NKX2-2	20	21493106	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1537001	21493106	41532414	483	24596										
TRPC4AP	26133	broad.mit.edu	37	chr20	33593507	33593507	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ctttcatgtacctttcatatCcacctggttttcaaatcggt	5	11	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:33593507C>G	uc002xbk.2	-	16	1961	c.1927G>C	c.(1927-1929)GAT>CAT	p.D643H	TRPC4AP_uc002xbj.2_RNA|TRPC4AP_uc010zuq.1_Missense_Mutation_p.D234H|TRPC4AP_uc002xbl.2_Missense_Mutation_p.D635H|TRPC4AP_uc010zur.1_Missense_Mutation_p.D604H	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	643					protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			CCTTTCATATCCACCTGGTTT	0.517													33	60	---	---	---	---	PASS	G	33593507	G	G	33593507	3	3	62	1	0	0	0	0	1	0	0	0	16578	855	30	2	482	2	TRPC4AP	20	33593507	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	12100401	33593507	29432013	484	24597										
UQCC	55245	broad.mit.edu	37	chr20	33969754	33969754	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttcaaaggtcccgtgaatccCatggcttctattatctttgt	7	10	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:33969754C>A	uc002xcd.2	-	4	367	c.300G>T	c.(298-300)ATG>ATT	p.M100I	UQCC_uc010zuy.1_Missense_Mutation_p.M1I|UQCC_uc010zuz.1_Intron|UQCC_uc010zva.1_Intron|UQCC_uc002xce.2_Missense_Mutation_p.M100I|UQCC_uc002xcg.2_5'UTR|UQCC_uc010gfb.2_Missense_Mutation_p.M100I|UQCC_uc010zvb.1_Intron|UQCC_uc002xcf.2_Intron|GDF5_uc010gfc.1_Intron|UQCC_uc002xci.1_Missense_Mutation_p.M54I|UQCC_uc010gfd.1_Missense_Mutation_p.M86I	NM_018244	NP_060714	Q9NVA1	UQCC_HUMAN	basic FGF-repressed Zic binding protein isoform	100						cytoplasmic membrane-bounded vesicle				breast(1)	1			BRCA - Breast invasive adenocarcinoma(18;0.00252)			CCGTGAATCCCATGGCTTCTA	0.378													74	178	---	---	---	---	PASS	A	33969754	A	A	33969754	3	1	62	1	0	0	0	0	1	0	0	0	17012	594	21	3	627	3	UQCC	20	33969754	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	376247	33969754	29055766	485	24598										
TGM2	7052	broad.mit.edu	37	chr20	36766704	36766704	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gctctggcccacacggatccGcatggccatccctgtctcct	9	18	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:36766704G>A	uc002xhr.2	-	10	1526	c.1426C>T	c.(1426-1428)CGG>TGG	p.R476W	TGM2_uc010zvx.1_Missense_Mutation_p.R395W|TGM2_uc010zvy.1_Missense_Mutation_p.R416W|TGM2_uc002xhs.1_Missense_Mutation_p.R452W|TGM2_uc002xht.2_Missense_Mutation_p.R476W	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	476					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)	ACACGGATCCGCATGGCCATC	0.587													15	73	---	---	---	---	PASS	A	36766704	A	A	36766704	3	1	62	1	0	0	0	0	1	0	0	0	15827	1086	38	1	685	1	TGM2	20	36766704	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2796950	36766704	26258816	486	24599										
RALGAPB	57148	broad.mit.edu	37	chr20	37126041	37126041	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cgactatgcttacaggtcctGagagccattcagaaactggc	10	11	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:37126041G>A	uc002xiw.2	+	4	692	c.435G>A	c.(433-435)CTG>CTA	p.L145L	RALGAPB_uc010zvz.1_Silent_p.L145L|RALGAPB_uc002xix.2_Silent_p.L145L|RALGAPB_uc002xiy.1_Silent_p.L145L|RALGAPB_uc002xiz.2_Intron	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	145					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						TACAGGTCCTGAGAGCCATTC	0.483													16	85	---	---	---	---	PASS	A	37126041	A	A	37126041	2	1	62	1	0	0	0	0	0	0	0	1	13015	1277	45	2		2	RALGAPB	20	37126041	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	359337	37126041	25899479	487	24600										
PLCG1	5335	broad.mit.edu	37	chr20	39802170	39802170	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	accaagcagaagacagagttTgtgggtcagtctgtcttccc	11	10	3	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:39802170T>C	uc002xjp.1	+	28	3511	c.3390T>C	c.(3388-3390)TTT>TTC	p.F1130F	PLCG1_uc002xjo.1_Silent_p.F1130F|PLCG1_uc010zwe.1_Silent_p.F756F	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	1130	C2.				activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				AGACAGAGTTTGTGGGTCAGT	0.562											OREG0025953	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	52	---	---	---	---	PASS	C	39802170	C	C	39802170	2	2	62	1	0	0	0	0	0	0	0	1	12035	1809	63	5		5	PLCG1	20	39802170	Silent	SNP	T	TCGA-33-6737-01A-11D-1817-08	2676129	39802170	23223350	488	24601										
PTPRT	11122	broad.mit.edu	37	chr20	40713430	40713430	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tggaggggggcgtgtcccggTaggcaggccagccaatgtac	18	10	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:40713430T>C	uc002xkg.2	-	29	4212	c.4028A>G	c.(4027-4029)TAC>TGC	p.Y1343C	PTPRT_uc010ggj.2_Missense_Mutation_p.Y1362C|PTPRT_uc010ggi.2_Missense_Mutation_p.Y546C	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1343	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CGTGTCCCGGTAGGCAGGCCA	0.592													9	34	---	---	---	---	PASS	C	40713430	C	C	40713430	3	2	62	1	0	0	0	0	1	0	0	0	12812	1638	57	5	309	5	PTPRT	20	40713430	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	911260	40713430	22312090	489	24602										
SULF2	55959	broad.mit.edu	37	chr20	46295089	46295089	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cccaccatccttgtcatcttGgtcctcaggggcccctggcc	9	18	3	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:46295089G>T	uc002xto.2	-	12	2050	c.1720C>A	c.(1720-1722)CAA>AAA	p.Q574K	SULF2_uc002xtr.2_Missense_Mutation_p.Q574K|SULF2_uc002xtq.2_Missense_Mutation_p.Q574K|SULF2_uc010zyd.1_5'Flank	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	574					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						TTGTCATCTTGGTCCTCAGGG	0.632													37	79	---	---	---	---	PASS	T	46295089	T	T	46295089	3	4	62	1	0	0	0	0	1	0	0	0	15370	1357	47	3	932	3	SULF2	20	46295089	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	5581659	46295089	16730431	490	24603										
B4GALT5	9334	broad.mit.edu	37	chr20	48259098	48259098	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gggaggtgctcgtggcggttCcggaaggggataaggatcgc	20	7	0	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:48259098C>T	uc002xuu.3	-	5	707	c.513G>A	c.(511-513)CGG>CGA	p.R171R		NM_004776	NP_004767	O43286	B4GT5_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	171	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	galactosyltransferase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;2.51e-06)			CGTGGCGGTTCCGGAAGGGGA	0.522													25	66	---	---	---	---	PASS	T	48259098	T	T	48259098	2	4	62	1	0	0	0	0	0	0	0	1	1274	842	30	2		2	B4GALT5	20	48259098	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	1964009	48259098	14766422	491	24604										
DPM1	8813	broad.mit.edu	37	chr20	49552786	49552786	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tattaatttctctagaacttCttttcggtataatctgtaag	5	6	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:49552786C>G	uc002xvw.1	-	8	577	c.577G>C	c.(577-579)GAA>CAA	p.E193Q	DPM1_uc002xvv.1_Missense_Mutation_p.E123Q|DPM1_uc002xvx.1_RNA	NM_003859	NP_003850	O60762	DPM1_HUMAN	dolichyl-phosphate mannosyltransferase 1	193					C-terminal protein lipidation|dolichol metabolic process|dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|protein N-linked glycosylation via asparagine|protein O-linked mannosylation	dolichol-phosphate-mannose synthase complex|endoplasmic reticulum membrane|membrane fraction	dolichyl-phosphate beta-D-mannosyltransferase activity|dolichyl-phosphate-mannose-protein mannosyltransferase activity|protein binding			ovary(1)	1						TCTAGAACTTCTTTTCGGTAT	0.333													22	32	---	---	---	---	PASS	G	49552786	G	G	49552786	3	3	62	1	0	0	0	0	1	0	0	0	4724	922	32	2	213	2	DPM1	20	49552786	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1293688	49552786	13472734	492	24605										
BCAS1	8537	broad.mit.edu	37	chr20	52570115	52570115	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcttcctgcttgttgctcttCtgcttgttcatctcggctgc	9	13	4	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:52570115C>T	uc002xws.2	-	11	1874	c.1536G>A	c.(1534-1536)CAG>CAA	p.Q512Q	BCAS1_uc010zza.1_Silent_p.Q178Q|BCAS1_uc010zzb.1_Silent_p.Q438Q|BCAS1_uc010gim.2_Silent_p.Q368Q|BCAS1_uc002xwt.2_Silent_p.Q498Q|BCAS1_uc010gil.1_Silent_p.Q434Q	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	512						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			TGTTGCTCTTCTGCTTGTTCA	0.547													20	97	---	---	---	---	PASS	T	52570115	T	T	52570115	2	4	62	1	0	0	0	0	0	0	0	1	1350	912	32	2		2	BCAS1	20	52570115	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	3017329	52570115	10455405	493	24606										
ZNF831	128611	broad.mit.edu	37	chr20	57768531	57768531	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcaggggaggacaagctcccCtcagagaggaagaagctgaa	14	9	2	3	rs57571629	by1000genomes	TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:57768531C>G	uc002yan.2	+	1	2457	c.2457C>G	c.(2455-2457)CCC>CCG	p.P819P		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	819						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					ACAAGCTCCCCTCAGAGAGGA	0.637													14	44	---	---	---	---	PASS	G	57768531	G	G	57768531	2	3	62	1	0	0	0	0	0	0	0	1	18182	668	24	4		4	ZNF831	20	57768531	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	5198416	57768531	5256989	494	24607										
PHACTR3	116154	broad.mit.edu	37	chr20	58318184	58318184	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gagatggaccaaacgcccccGgcgcgtcctgaatatctggt	12	13	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:58318184G>T	uc002yau.2	+	2	608	c.141G>T	c.(139-141)CCG>CCT	p.P47P	PHACTR3_uc002yat.2_Silent_p.P44P|PHACTR3_uc010zzw.1_Silent_p.P6P|PHACTR3_uc002yav.2_Silent_p.P6P|PHACTR3_uc002yaw.2_Silent_p.P6P|PHACTR3_uc002yax.2_Silent_p.P6P	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	47						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			AAACGCCCCCGGCGCGTCCTG	0.572													23	118	---	---	---	---	PASS	T	58318184	T	T	58318184	2	4	62	1	0	0	0	0	0	0	0	1	11811	1103	39	1		1	PHACTR3	20	58318184	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	549653	58318184	4707336	495	24608										
COL20A1	57642	broad.mit.edu	37	chr20	61939981	61939981	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	caaggtggtgattctggtgaCggacggcaagtcccaggacg	16	9	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr20:61939981C>T	uc011aau.1	+	8	963	c.863C>T	c.(862-864)ACG>ATG	p.T288M	COL20A1_uc011aav.1_Missense_Mutation_p.T109M	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	288	VWFA.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					ATTCTGGTGACGGACGGCAAG	0.667													6	18	---	---	---	---	PASS	T	61939981	T	T	61939981	3	4	62	1	0	0	0	0	1	0	0	0	3679	536	19	1	889	1	COL20A1	20	61939981	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	3621797	61939981	1085539	496	24609										
BTG3	10950	broad.mit.edu	37	chr21	18977217	18977217	+	Missense_Mutation	SNP	T	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggtccacccagagagtgagcTcctttggcaagcccaggtca							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr21:18977217T>A	uc002ykk.2	-	3	532	c.272A>T	c.(271-273)GAG>GTG	p.E91V	BTG3_uc002ykl.2_Missense_Mutation_p.E91V	NM_006806	NP_006797	Q14201	BTG3_HUMAN	B-cell translocation gene 3 isoform b	91					negative regulation of cell proliferation|negative regulation of mitotic cell cycle	cytoplasm					0				Epithelial(23;0.000283)|all cancers(11;0.0012)|Lung(58;0.0191)|OV - Ovarian serous cystadenocarcinoma(11;0.0206)|COAD - Colon adenocarcinoma(22;0.0315)|LUSC - Lung squamous cell carcinoma(23;0.0703)|Colorectal(24;0.0971)		GAGAGTGAGCTCCTTTGGCAA	0.453													27	30	---	---	---	---	PASS	A	18977217	A	A	18977217	3	1	62	1	0	0	0	0	1	0	0	0	1555	1551	54	5	634	5	BTG3	21	18977217	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08		18977217	29152678	497	24610	530	2								
BTG3	10950	broad.mit.edu	37	chr21	18977219	18977219	+	Missense_Mutation	SNP	C	A	A													0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tccacccagagagtgagctcCtttggcaagcccaggtcact							TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr21:18977219C>A	uc002ykk.2	-	3	530	c.270G>T	c.(268-270)AAG>AAT	p.K90N	BTG3_uc002ykl.2_Missense_Mutation_p.K90N	NM_006806	NP_006797	Q14201	BTG3_HUMAN	B-cell translocation gene 3 isoform b	90					negative regulation of cell proliferation|negative regulation of mitotic cell cycle	cytoplasm					0				Epithelial(23;0.000283)|all cancers(11;0.0012)|Lung(58;0.0191)|OV - Ovarian serous cystadenocarcinoma(11;0.0206)|COAD - Colon adenocarcinoma(22;0.0315)|LUSC - Lung squamous cell carcinoma(23;0.0703)|Colorectal(24;0.0971)		GAGTGAGCTCCTTTGGCAAGC	0.453													28	28	---	---	---	---	PASS	A	18977219	A	A	18977219	3	1	62	1	0	0	0	0	1	0	0	0	1555	680	24	3	636	3	BTG3	21	18977219	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2	18977219	29152676	498	24611	530	2								
GRIK1	2897	broad.mit.edu	37	chr21	31015280	31015280	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cacagcatcgtacatcagagCcgcttcagtctgtggaggaa	11	11	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr21:31015280C>G	uc002yno.1	-	7	1428	c.964G>C	c.(964-966)GCT>CCT	p.A322P	GRIK1_uc002ynn.2_Missense_Mutation_p.A322P|GRIK1_uc011acs.1_Missense_Mutation_p.A322P|GRIK1_uc011act.1_Missense_Mutation_p.A266P|GRIK1_uc010glq.1_Missense_Mutation_p.A180P|GRIK1_uc002ynr.2_Missense_Mutation_p.A322P	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	322	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	TACATCAGAGCCGCTTCAGTC	0.517													54	55	---	---	---	---	PASS	G	31015280	G	G	31015280	3	3	62	1	0	0	0	0	1	0	0	0	6773	739	26	4	1996	4	GRIK1	21	31015280	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	12038061	31015280	17114615	499	24612										
MRPS6	64968	broad.mit.edu	37	chr21	35514721	35514721	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	attgcaggtatttcttggtgGatttttatgcacccaccgca	9	9	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr21:35514721G>T	uc002ytp.2	+	3	377	c.199G>T	c.(199-201)GAT>TAT	p.D67Y		NM_032476	NP_115865	P82932	RT06_HUMAN	mitochondrial ribosomal protein S6	67					translation	mitochondrion|small ribosomal subunit	rRNA binding|structural constituent of ribosome			skin(1)	1						TTTCTTGGTGGATTTTTATGC	0.383													40	38	---	---	---	---	PASS	T	35514721	T	T	35514721	3	4	62	1	0	0	0	0	1	0	0	0	9847	1174	41	2	209	2	MRPS6	21	35514721	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	4499441	35514721	12615174	500	24613										
DSCAM	1826	broad.mit.edu	37	chr21	41414427	41414427	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggtcagactgtccgtgtactCatttgtccctgccgtcaact	9	13	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr21:41414427C>A	uc002yyq.1	-	32	6009	c.5557G>T	c.(5557-5559)GAG>TAG	p.E1853*	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1853	Cytoplasmic (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TCCGTGTACTCATTTGTCCCT	0.537													82	73	---	---	---	---	PASS	A	41414427	A	A	41414427	4	1	62	1	0	0	0	0	0	1	0	0	4768	835	29	2	489	2	DSCAM	21	41414427	Nonsense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	5899706	41414427	6715468	501	24614										
PRDM15	63977	broad.mit.edu	37	chr21	43256623	43256623	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttgctgctgttctggaagatCttgctgcagatattgcactg	11	8	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr21:43256623C>A	uc002yzq.1	-	16	2346	c.2235G>T	c.(2233-2235)AAG>AAT	p.K745N	PRDM15_uc002yzo.2_Missense_Mutation_p.K416N|PRDM15_uc002yzp.2_Missense_Mutation_p.K416N|PRDM15_uc002yzr.1_Missense_Mutation_p.K416N	NM_022115	NP_071398	P57071	PRD15_HUMAN	PR domain containing 15 isoform 1	745	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTGGAAGATCTTGCTGCAGA	0.468													69	66	---	---	---	---	PASS	A	43256623	A	A	43256623	3	1	62	1	0	0	0	0	1	0	0	0	12456	912	32	2	2352	2	PRDM15	21	43256623	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	1842196	43256623	4873272	502	24615										
PWP2	5822	broad.mit.edu	37	chr21	45547881	45547881	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tggacacccgcgtgctctttGacccgtttgagctggacacc	11	14	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr21:45547881G>A	uc002zeb.2	+	18	2299	c.2209G>A	c.(2209-2211)GAC>AAC	p.D737N		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	737	WD 14.					cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		CGTGCTCTTTGACCCGTTTGA	0.627													30	37	---	---	---	---	PASS	A	45547881	A	A	45547881	3	1	62	1	0	0	0	0	1	0	0	0	12844	1290	45	2	2279	2	PWP2	21	45547881	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	2291258	45547881	2582014	503	24616										
KRTAP12-4	386684	broad.mit.edu	37	chr21	46074512	46074512	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	aggccattgggcagcccgaaGagtggctggtgtggcacatg	17	9	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr21:46074512G>C	uc002zfs.1	-	1	65	c.20C>G	c.(19-21)TCT>TGT	p.S7C	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198698	NP_941971	P60329	KR124_HUMAN	keratin associated protein 12-4	7						keratin filament				ovary(1)	1						GCAGCCCGAAGAGTGGCTGGT	0.662													11	7	---	---	---	---	PASS	C	46074512	C	C	46074512	3	2	62	1	0	0	0	0	1	0	0	0	8521	942	33	2	322	2	KRTAP12-4	21	46074512	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	526631	46074512	2055383	504	24617										
DIP2A	23181	broad.mit.edu	37	chr21	47952109	47952109	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tttatgggtgtctcctggcaGagctggttcctgtccccata	11	11	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr21:47952109G>C	uc002zjo.2	+	10	1447	c.1264G>C	c.(1264-1266)GAG>CAG	p.E422Q	DIP2A_uc011afy.1_Missense_Mutation_p.E358Q|DIP2A_uc011afz.1_Missense_Mutation_p.E418Q|DIP2A_uc002zjl.2_Missense_Mutation_p.E422Q|DIP2A_uc002zjm.2_Missense_Mutation_p.E422Q|DIP2A_uc010gql.2_Missense_Mutation_p.E379Q|DIP2A_uc002zjn.2_Missense_Mutation_p.E422Q|DIP2A_uc002zjp.1_Missense_Mutation_p.E167Q	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	422					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		TCTCCTGGCAGAGCTGGTTCC	0.478													23	29	---	---	---	---	PASS	C	47952109	C	C	47952109	3	2	62	1	0	0	0	0	1	0	0	0	4527	943	33	2	1302	2	DIP2A	21	47952109	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	1877597	47952109	177786	505	24618										
DGCR8	54487	broad.mit.edu	37	chr22	20079140	20079140	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttactttatcagtgcaagatGcacccacaaagaaaggtata	7	8	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr22:20079140G>A	uc002zri.2	+	6	1839	c.1489G>A	c.(1489-1491)GCA>ACA	p.A497T	DGCR8_uc010grz.2_Missense_Mutation_p.A497T|DGCR8_uc002zrj.2_Missense_Mutation_p.A140T	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	497	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)					AGTGCAAGATGCACCCACAAA	0.463													100	91	---	---	---	---	PASS	A	20079140	A	A	20079140	3	1	62	1	0	0	0	0	1	0	0	0	4464	1319	46	3	1507	3	DGCR8	22	20079140	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08		20079140	31225426	506	24619										
TRMT2A	27037	broad.mit.edu	37	chr22	20100675	20100675	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ggtgggtccaggatggccacGaggtgctgggaggccagtct	19	9	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr22:20100675G>A	uc002zrk.1	-	11	1730	c.1515C>T	c.(1513-1515)CTC>CTT	p.L505L	TRMT2A_uc002zrl.1_Silent_p.L505L|TRMT2A_uc002zrm.1_Silent_p.L327L|TRMT2A_uc002zrn.1_Silent_p.L523L	NM_182984	NP_892029	Q8IZ69	TRM2A_HUMAN	HpaII tiny fragments locus 9C	505					RNA processing		nucleotide binding|RNA binding|RNA methyltransferase activity			breast(1)	1						GGATGGCCACGAGGTGCTGGG	0.612													36	49	---	---	---	---	PASS	A	20100675	A	A	20100675	2	1	62	1	0	0	0	0	0	0	0	1	16562	1045	37	2		2	TRMT2A	22	20100675	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	21535	20100675	31203891	507	24620										
PRAME	23532	broad.mit.edu	37	chr22	22890745	22890745	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cgatgaggtgctgcaggagaCtctgcaaggcagatatggag	16	7	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr22:22890745C>G	uc002zwf.2	-	5	1430	c.1274G>C	c.(1273-1275)AGT>ACT	p.S425T	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Missense_Mutation_p.S409T|PRAME_uc010gtr.2_Missense_Mutation_p.S425T|PRAME_uc002zwg.2_Missense_Mutation_p.S425T|PRAME_uc002zwh.2_Missense_Mutation_p.S425T|PRAME_uc002zwi.2_Missense_Mutation_p.S425T|PRAME_uc002zwj.2_Missense_Mutation_p.S425T|PRAME_uc002zwk.2_Missense_Mutation_p.S425T	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	425	LRR 4.|Mediates interaction with RARA.				apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		CTGCAGGAGACTCTGCAAGGC	0.557													9	53	---	---	---	---	PASS	G	22890745	G	G	22890745	3	3	62	1	0	0	0	0	1	0	0	0	12424	565	20	4	259	4	PRAME	22	22890745	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	2790070	22890745	28413821	508	24621										
SEZ6L	23544	broad.mit.edu	37	chr22	26769434	26769434	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cagttaatcaagacagttttGaacatgctttagaaggtgag	10	5	1	4			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr22:26769434G>A	uc003acb.2	+	14	2968	c.2812G>A	c.(2812-2814)GAA>AAA	p.E938K	SEZ6L_uc003acc.2_Missense_Mutation_p.E938K|SEZ6L_uc011akc.1_Intron|SEZ6L_uc003acd.2_Intron|SEZ6L_uc011akd.1_Intron|SEZ6L_uc003ace.2_Intron|SEZ6L_uc003acf.1_Missense_Mutation_p.E711K|SEZ6L_uc010gvc.1_Intron|SEZ6L_uc011ake.1_Intron	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	938	Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						AGACAGTTTTGAACATGCTTT	0.323													33	48	---	---	---	---	PASS	A	26769434	A	A	26769434	3	1	62	1	0	0	0	0	1	0	0	0	14143	1291	45	2	2866	2	SEZ6L	22	26769434	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3878689	26769434	24535132	509	24622										
RFPL3	10738	broad.mit.edu	37	chr22	32756478	32756478	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gagaatctgttcactgcaaaGggaagatccagctgaccaca	10	10	2	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr22:32756478G>T	uc003amj.2	+	2	818	c.613G>T	c.(613-615)GGG>TGG	p.G205W	RFPL3_uc010gwn.2_Missense_Mutation_p.G176W|RFPL3S_uc003amk.2_RNA|RFPL3S_uc003aml.2_RNA	NM_001098535	NP_001092005	O75679	RFPL3_HUMAN	ret finger protein-like 3 isoform 1	205	B30.2/SPRY.						zinc ion binding			ovary(1)	1						TCACTGCAAAGGGAAGATCCA	0.567													41	60	---	---	---	---	PASS	T	32756478	T	T	32756478	3	4	62	1	0	0	0	0	1	0	0	0	13255	1000	35	3	619	3	RFPL3	22	32756478	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	5987044	32756478	18548088	510	24623										
CELSR1	9620	broad.mit.edu	37	chr22	46932349	46932349	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcggaaacttcaggctccctCtgccgctcgtgccccgccgg	11	18	2	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chr22:46932349C>G	uc003bhw.1	-	1	719	c.719G>C	c.(718-720)AGA>ACA	p.R240T		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	240	Extracellular (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CAGGCTCCCTCTGCCGCTCGT	0.537													9	14	---	---	---	---	PASS	G	46932349	G	G	46932349	3	3	62	1	0	0	0	0	1	0	0	0	3221	913	32	2	8465	2	CELSR1	22	46932349	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	14175871	46932349	4372217	511	24624										
MXRA5	25878	broad.mit.edu	37	chrX	3235316	3235316	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgcacgctgcacgttcagctGcaccgtcctgcgcgcggagc	13	16	1	0			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chrX:3235316G>T	uc004crg.3	-	6	6563	c.6406C>A	c.(6406-6408)CAG>AAG	p.Q2136K		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2136	Ig-like C2-type 5.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				ACGTTCAGCTGCACCGTCCTG	0.687													9	3	---	---	---	---	PASS	T	3235316	T	T	3235316	3	4	62	1	0	0	0	0	1	0	0	0	10003	1328	46	3	2088	3	MXRA5	23	3235316	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08		3235316	152035244	512	24625										
DMD	1756	broad.mit.edu	37	chrX	32591903	32591903	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccatttgagaaggatgtcttGtaaaagaacccagcggtctt	10	8	2	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chrX:32591903G>T	uc004dda.1	-	14	1907	c.1663C>A	c.(1663-1665)CAA>AAA	p.Q555K	DMD_uc004dcz.2_Missense_Mutation_p.Q432K|DMD_uc004dcy.1_Missense_Mutation_p.Q551K|DMD_uc004ddb.1_Missense_Mutation_p.Q547K|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.Q547K|DMD_uc010ngp.1_Nonsense_Mutation_p.Y74*|DMD_uc010ngq.1_RNA	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	555	Spectrin 2.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AGGATGTCTTGTAAAAGAACC	0.433													17	25	---	---	---	---	PASS	T	32591903	T	T	32591903	3	4	62	1	0	0	0	0	1	0	0	0	4580	1386	48	3	9901	3	DMD	23	32591903	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	29356587	32591903	122678657	513	24626										
FAM47A	158724	broad.mit.edu	37	chrX	34149269	34149269	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	cagtcttggaaggctccgcgTggagactggacccccgacga	14	13	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chrX:34149269T>C	uc004ddg.2	-	1	1160	c.1127A>G	c.(1126-1128)CAC>CGC	p.H376R		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	376										ovary(4)|central_nervous_system(1)	5						AGGCTCCGCGTGGAGACTGGA	0.637													11	25	---	---	---	---	PASS	C	34149269	C	C	34149269	3	2	62	1	0	0	0	0	1	0	0	0	5569	1696	59	5	1252	5	FAM47A	23	34149269	Missense_Mutation	SNP	T	TCGA-33-6737-01A-11D-1817-08	1557366	34149269	121121291	514	24627										
FAM47A	158724	broad.mit.edu	37	chrX	34149330	34149330	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gagacgggacactccagtctCggaaggctccgagcggagac	15	12	1	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chrX:34149330C>T	uc004ddg.2	-	1	1099	c.1066G>A	c.(1066-1068)GAG>AAG	p.E356K		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	356										ovary(4)|central_nervous_system(1)	5						ACTCCAGTCTCGGAAGGCTCC	0.657													9	21	---	---	---	---	PASS	T	34149330	T	T	34149330	3	4	62	1	0	0	0	0	1	0	0	0	5569	893	31	2	1313	2	FAM47A	23	34149330	Missense_Mutation	SNP	C	TCGA-33-6737-01A-11D-1817-08	61	34149330	121121230	515	24628										
XK	7504	broad.mit.edu	37	chrX	37587032	37587032	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tcttcctgtggaggagctttGagattgccactcgagttgta	12	8	1	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chrX:37587032G>A	uc004ddq.2	+	3	734	c.652G>A	c.(652-654)GAG>AAG	p.E218K		NM_021083	NP_066569	P51811	XK_HUMAN	membrane transport protein XK	218	Helical; (Potential).				amino acid transport	integral to membrane	protein binding|transporter activity				0		all_lung(315;0.175)				GAGGAGCTTTGAGATTGCCAC	0.458													27	17	---	---	---	---	PASS	A	37587032	A	A	37587032	3	1	62	1	0	0	0	0	1	0	0	0	17428	1291	45	2	662	2	XK	23	37587032	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	3437702	37587032	117683528	516	24629										
GPRASP2	114928	broad.mit.edu	37	chrX	101970929	101970929	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	acagtgatagggtcaaacaaGaacccaggtttgaggaggaa	13	6	1	3			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chrX:101970929G>C	uc004ejk.2	+	4	2466	c.1132G>C	c.(1132-1134)GAA>CAA	p.E378Q	GPRASP2_uc004ejl.2_Missense_Mutation_p.E378Q|GPRASP2_uc004ejm.2_Missense_Mutation_p.E378Q|GPRASP2_uc011mrp.1_5'Flank	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	378						cytoplasm	protein binding			ovary(1)	1						GGTCAAACAAGAACCCAGGTT	0.478													43	25	---	---	---	---	PASS	C	101970929	C	C	101970929	3	2	62	1	0	0	0	0	1	0	0	0	6723	943	33	2	1134	2	GPRASP2	23	101970929	Missense_Mutation	SNP	G	TCGA-33-6737-01A-11D-1817-08	64383897	101970929	53299631	517	24630										
TEX13B	56156	broad.mit.edu	37	chrX	107225187	107225187	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ttgacctcgctgggcacctcGctgtcctccaggatggccct	11	16	0	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chrX:107225187G>A	uc004enn.1	-	2	264	c.171C>T	c.(169-171)AGC>AGT	p.S57S		NM_031273	NP_112563	Q9BXU2	TX13B_HUMAN	testis expressed 13B	57										ovary(1)	1						TGGGCACCTCGCTGTCCTCCA	0.602													63	43	---	---	---	---	PASS	A	107225187	A	A	107225187	2	1	62	1	0	0	0	0	0	0	0	1	15774	1078	38	1		1	TEX13B	23	107225187	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	5254258	107225187	48045373	518	24631										
ODZ1	10178	broad.mit.edu	37	chrX	123870953	123870953	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	tgaagagagtccgctgcaggGggtggcttcctggcacaggt	17	9	0	2			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chrX:123870953G>T	uc004euj.2	-	4	694	c.630C>A	c.(628-630)CCC>CCA	p.P210P	ODZ1_uc011muj.1_Silent_p.P210P|ODZ1_uc010nqy.2_Silent_p.P210P	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	210	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CCGCTGCAGGGGGTGGCTTCC	0.622													45	41	---	---	---	---	PASS	T	123870953	T	T	123870953	2	4	62	1	0	0	0	0	0	0	0	1	10834	1219	43	3		3	ODZ1	23	123870953	Silent	SNP	G	TCGA-33-6737-01A-11D-1817-08	16645766	123870953	31399607	519	24632										
BCORL1	63035	broad.mit.edu	37	chrX	129147552	129147552	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	ccaccgtcagtgcccacgctCatctctgactcgaaccccct	6	20	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chrX:129147552C>T	uc004evb.1	+	4	918	c.804C>T	c.(802-804)CTC>CTT	p.L268L	BCORL1_uc010nrd.1_Silent_p.L170L	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	268	Pro-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						TGCCCACGCTCATCTCTGACT	0.592													67	49	---	---	---	---	PASS	T	129147552	T	T	129147552	2	4	62	1	0	0	0	0	0	0	0	1	1387	813	29	2		2	BCORL1	23	129147552	Silent	SNP	C	TCGA-33-6737-01A-11D-1817-08	5276599	129147552	26123008	520	24633										
MAMLD1	10046	broad.mit.edu	37	chrX	149639719	149639719	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.29296875	150	1.09019467388905e-44	3.45337820615288	4.63848106044717	2.62313665851168	0.101988854641122	0.392435375466926	107	gcagcaaccccagcgttttcAgcgatcagtggcctcagatt	10	13	3	1			TCGA-33-6737-01A-11D-1817-08	TCGA-33-6737-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b21ce38-16c6-4c68-9104-fa11f1b619b1	bf4fc6aa-29ff-4b3e-bbcc-163c874bff8f	g.chrX:149639719A>G	uc004fee.1	+	3	1950	c.1874A>G	c.(1873-1875)CAG>CGG	p.Q625R	MAMLD1_uc011mxt.1_Missense_Mutation_p.Q587R|MAMLD1_uc011mxu.1_Missense_Mutation_p.Q600R|MAMLD1_uc011mxv.1_Missense_Mutation_p.Q600R|MAMLD1_uc011mxw.1_Missense_Mutation_p.Q552R	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	625					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					CAGCGTTTTCAGCGATCAGTG	0.388													4	100	---	---	---	---	PASS	G	149639719	G	G	149639719	3	3	62	1	0	0	0	0	1	0	0	0	9208	188	7	5	1884	5	MAMLD1	23	149639719	Missense_Mutation	SNP	A	TCGA-33-6737-01A-11D-1817-08	20492167	149639719	5630841	521	24634										
ESPN	83715	broad.mit.edu	37	chr1	6512048	6512048	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cagctggacgtggaggctctCatccccacgcacgatgagca	12	14	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:6512048C>T	uc001amy.2	+	10	2385	c.2217C>T	c.(2215-2217)CTC>CTT	p.L739L	ESPN_uc001amz.2_Silent_p.L173L	NM_031475	NP_113663	B1AK53	ESPN_HUMAN	espin	739					sensory perception of sound	brush border|cytoplasm|filamentous actin|stereocilium	actin filament binding|SH3 domain binding				0	Ovarian(185;0.0386)|all_lung(157;0.154)	all_cancers(23;3.6e-37)|all_epithelial(116;2.56e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|all_hematologic(16;6.92e-06)|Colorectal(325;4.47e-05)|Acute lymphoblastic leukemia(12;4.92e-05)|Breast(487;7.61e-05)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)		Epithelial(90;1.82e-35)|GBM - Glioblastoma multiforme(13;3e-28)|Kidney(185;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(229;5.63e-08)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;1.41e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000109)|STAD - Stomach adenocarcinoma(132;0.00167)|Lung(427;0.0108)|LUSC - Lung squamous cell carcinoma(448;0.0253)|READ - Rectum adenocarcinoma(331;0.0419)		TGGAGGCTCTCATCCCCACGC	0.657													7	12	---	---	---	---	PASS	T	6512048	T	T	6512048	2	4	63	1	0	0	0	0	0	0	0	1	5254	813	29	2		2	ESPN	1	6512048	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08		6512048	242738573	1	24635										
CLSTN1	22883	broad.mit.edu	37	chr1	9804684	9804684	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cggggatggcagcagctcggCagtgcccgcggccgcacctg	17	15	0	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:9804684C>T	uc001aqh.2	-	8	1762	c.1003G>A	c.(1003-1005)GCC>ACC	p.A335T	CLSTN1_uc001aqi.2_Missense_Mutation_p.A325T|CLSTN1_uc010oag.1_Missense_Mutation_p.A335T	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	335	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		AGCAGCTCGGCAGTGCCCGCG	0.637													6	7	---	---	---	---	PASS	T	9804684	T	T	9804684	3	4	63	1	0	0	0	0	1	0	0	0	3561	710	25	3	1990	3	CLSTN1	1	9804684	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	3292636	9804684	239445937	2	24636										
VPS13D	55187	broad.mit.edu	37	chr1	12520422	12520422	+	Silent	SNP	G	A	A													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tcagaaacagcccaggcggtGagagacacagccacactcag							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:12520422G>A	uc001atv.2	+	67	12774	c.12633G>A	c.(12631-12633)GTG>GTA	p.V4211V	VPS13D_uc001atw.2_Silent_p.V4186V|VPS13D_uc001atx.2_Silent_p.V3398V|VPS13D_uc009vnl.2_RNA|VPS13D_uc010obd.1_Silent_p.V209V	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	4210					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		CCCAGGCGGTGAGAGACACAG	0.547													22	40	---	---	---	---	PASS	A	12520422	A	A	12520422	2	1	63	1	0	0	0	0	0	0	0	1	17189	1277	45	2		2	VPS13D	1	12520422	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	2715738	12520422	236730199	3	24637	531	2								
VPS13D	55187	broad.mit.edu	37	chr1	12520424	12520424	+	Missense_Mutation	SNP	G	A	A													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agaaacagcccaggcggtgaGagacacagccacactcagcg							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:12520424G>A	uc001atv.2	+	67	12776	c.12635G>A	c.(12634-12636)AGA>AAA	p.R4212K	VPS13D_uc001atw.2_Missense_Mutation_p.R4187K|VPS13D_uc001atx.2_Missense_Mutation_p.R3399K|VPS13D_uc009vnl.2_RNA|VPS13D_uc010obd.1_Missense_Mutation_p.R210K	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	4211					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		CAGGCGGTGAGAGACACAGCC	0.547													25	40	---	---	---	---	PASS	A	12520424	A	A	12520424	3	1	63	1	0	0	0	0	1	0	0	0	17189	942	33	2	12897	2	VPS13D	1	12520424	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	2	12520424	236730197	4	24638	531	2								
FBXO42	54455	broad.mit.edu	37	chr1	16577801	16577801	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttactactggaagcgggtttCagatcccaattcagatctat	8	9	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:16577801C>G	uc001ayg.2	-	10	1734	c.1518G>C	c.(1516-1518)CTG>CTC	p.L506L	FBXO42_uc001aye.3_Silent_p.L224L|FBXO42_uc001ayf.2_Silent_p.L413L	NM_018994	NP_061867	Q6P3S6	FBX42_HUMAN	F-box protein 42	506										upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00475)|all_lung(284;0.00671)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0193)|Colorectal(212;3.16e-07)|COAD - Colon adenocarcinoma(227;1.46e-05)|BRCA - Breast invasive adenocarcinoma(304;4.37e-05)|Kidney(64;0.000246)|KIRC - Kidney renal clear cell carcinoma(64;0.00336)|STAD - Stomach adenocarcinoma(313;0.0139)|READ - Rectum adenocarcinoma(331;0.0693)		AAGCGGGTTTCAGATCCCAAT	0.478													82	97	---	---	---	---	PASS	G	16577801	G	G	16577801	2	3	63	1	0	0	0	0	0	0	0	1	5751	813	29	2		2	FBXO42	1	16577801	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	4057377	16577801	232672820	5	24639										
LEPRE1	64175	broad.mit.edu	37	chr1	43213039	43213039	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ccatgtgggttttcagtgccTgaagagaatcccacggctct	11	11	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:43213039T>A	uc001chv.2	-	14	2072	c.1959A>T	c.(1957-1959)TCA>TCT	p.S653S	LEPRE1_uc001chw.2_Silent_p.S653S|LEPRE1_uc001chx.3_Silent_p.S653S	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	653	Fe2OG dioxygenase.				negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	TTTCAGTGCCTGAAGAGAATC	0.597											OREG0013422	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	49	59	---	---	---	---	PASS	A	43213039	A	A	43213039	2	1	63	1	0	0	0	0	0	0	0	1	8729	1567	55	5		5	LEPRE1	1	43213039	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	26635238	43213039	206037582	6	24640										
KANK4	163782	broad.mit.edu	37	chr1	62739201	62739201	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gggggagtctttctgtcgctGccccacagaaagcctcctgc	12	14	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:62739201G>T	uc001dah.3	-	3	1952	c.1575C>A	c.(1573-1575)GGC>GGA	p.G525G	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	525										ovary(3)|skin(2)|lung(1)	6						TTCTGTCGCTGCCCCACAGAA	0.602													52	46	---	---	---	---	PASS	T	62739201	T	T	62739201	2	4	63	1	0	0	0	0	0	0	0	1	7979	1306	46	3		3	KANK4	1	62739201	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	19526162	62739201	186511420	7	24641										
LRRC40	55631	broad.mit.edu	37	chr1	70639152	70639152	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gaacattttaaagtacctttGatcttgcttcgtagatattt	6	6	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:70639152G>T	uc001der.1	-	9	1159	c.1107C>A	c.(1105-1107)ATC>ATA	p.I369I		NM_017768	NP_060238	Q9H9A6	LRC40_HUMAN	leucine rich repeat containing 40	369										ovary(1)	1						AAGTACCTTTGATCTTGCTTC	0.313													20	42	---	---	---	---	PASS	T	70639152	T	T	70639152	2	4	63	1	0	0	0	0	0	0	0	1	8998	1280	45	2		2	LRRC40	1	70639152	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	7899951	70639152	178611469	8	24642										
FLG	2312	broad.mit.edu	37	chr1	152284369	152284369	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	attgtctggagctgtctgcaGagtgcccgtgaccggctctg	14	11	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:152284369G>T	uc001ezu.1	-	3	3029	c.2993C>A	c.(2992-2994)TCT>TAT	p.S998Y	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	998	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTGTCTGCAGAGTGCCCGTG	0.562									Ichthyosis				234	470	---	---	---	---	PASS	T	152284369	T	T	152284369	3	4	63	1	0	0	0	0	1	0	0	0	5922	942	33	2	9196	2	FLG	1	152284369	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	81645217	152284369	96966252	9	24643										
PBXIP1	57326	broad.mit.edu	37	chr1	154919185	154919185	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	actccagagcccgctggaagGcttcgccctgctgcagagcc	12	16	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:154919185G>A	uc001ffr.2	-	10	1024	c.965C>T	c.(964-966)GCC>GTC	p.A322V	PBXIP1_uc001ffs.2_Missense_Mutation_p.A293V|PBXIP1_uc010pep.1_Missense_Mutation_p.A167V	NM_020524	NP_065385	Q96AQ6	PBIP1_HUMAN	pre-B-cell leukemia homeobox interacting protein	322	Potential.				cell differentiation|multicellular organismal development|negative regulation of transcription, DNA-dependent	cytosol|microtubule|nucleus	protein binding|transcription corepressor activity			large_intestine(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CCGCTGGAAGGCTTCGCCCTG	0.662													20	77	---	---	---	---	PASS	A	154919185	A	A	154919185	3	1	63	1	0	0	0	0	1	0	0	0	11496	1203	42	3	1238	3	PBXIP1	1	154919185	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	2634816	154919185	94331436	10	24644										
RXFP4	339403	broad.mit.edu	37	chr1	155911970	155911970	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cacccacctctcactcttctGggcccgaatagccaccctgg	7	19	3	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:155911970G>C	uc010pgs.1	+	1	491	c.470G>C	c.(469-471)TGG>TCG	p.W157S		NM_181885	NP_871001	Q8TDU9	RL3R2_HUMAN	relaxin 3 receptor 2	157	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	angiotensin type II receptor activity				0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					TCACTCTTCTGGGCCCGAATA	0.652													17	51	---	---	---	---	PASS	C	155911970	C	C	155911970	3	2	63	1	0	0	0	0	1	0	0	0	13762	1357	47	4	472	4	RXFP4	1	155911970	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	992785	155911970	93338651	11	24645										
NES	10763	broad.mit.edu	37	chr1	156646867	156646867	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcgttggtcaacgagggcccGcagggccgccagctcgtcgt	16	14	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:156646867G>C	uc001fpq.2	-	1	323	c.190C>G	c.(190-192)CGG>GGG	p.R64G		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	64	Coil 1B.|Rod.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					ACGAGGGCCCGCAGGGCCGCC	0.721													6	10	---	---	---	---	PASS	C	156646867	C	C	156646867	3	2	63	1	0	0	0	0	1	0	0	0	10337	1086	38	4	4691	4	NES	1	156646867	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	734897	156646867	92603754	12	24646										
CD1D	912	broad.mit.edu	37	chr1	158152847	158152847	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	atgctgacgagacatggtatCtccgagcaaccctggatgtg	12	10	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:158152847C>T	uc001frr.2	+	5	1286	c.787C>T	c.(787-789)CTC>TTC	p.L263F	CD1D_uc009wss.2_Intron	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	263	Ig-like.|Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					GACATGGTATCTCCGAGCAAC	0.617													47	114	---	---	---	---	PASS	T	158152847	T	T	158152847	3	4	63	1	0	0	0	0	1	0	0	0	2977	913	32	2	801	2	CD1D	1	158152847	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	1505980	158152847	91097774	13	24647										
IGSF9	57549	broad.mit.edu	37	chr1	159898366	159898366	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aagcgggggccagtccccatCcacattcatctctcggaaga	10	14	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:159898366C>G	uc001fur.2	-	19	3010	c.2812G>C	c.(2812-2814)GAT>CAT	p.D938H	IGSF9_uc001fuq.2_Missense_Mutation_p.D922H|IGSF9_uc001fup.2_Missense_Mutation_p.D84H	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	938	Pro-rich.|Cytoplasmic (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			CAGTCCCCATCCACATTCATC	0.637													3	7	---	---	---	---	PASS	G	159898366	G	G	159898366	3	3	63	1	0	0	0	0	1	0	0	0	7605	855	30	2	739	2	IGSF9	1	159898366	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	1745519	159898366	89352255	14	24648										
POU2F1	5451	broad.mit.edu	37	chr1	167382320	167382320	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggtgctctcagcccagctctAatgagcaacagtacactggc	10	13	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:167382320A>G	uc001gec.2	+	16	2052	c.1890A>G	c.(1888-1890)CTA>CTG	p.L630L	POU2F1_uc001ged.2_Silent_p.L628L|POU2F1_uc001gee.2_Silent_p.L630L|POU2F1_uc010plh.1_Silent_p.L567L|POU2F1_uc001gef.2_Silent_p.L642L|POU2F1_uc001geg.2_Silent_p.L528L	NM_002697	NP_002688	P14859	PO2F1_HUMAN	POU class 2 homeobox 1	630					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|skin(2)|breast(1)	5						GCCCAGCTCTAATGAGCAACA	0.413													73	157	---	---	---	---	PASS	G	167382320	G	G	167382320	2	3	63	1	0	0	0	0	0	0	0	1	12271	349	13	5		5	POU2F1	1	167382320	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	7483954	167382320	81868301	15	24649										
KIFAP3	22920	broad.mit.edu	37	chr1	169993564	169993564	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agctttgtaagttaccatatCatttttattctccataaaaa	3	7	2	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:169993564C>T	uc001ggv.2	-	9	1286	c.1015G>A	c.(1015-1017)GAT>AAT	p.D339N	KIFAP3_uc010plx.1_Missense_Mutation_p.D41N	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	339	ARM 1.				blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GTTACCATATCATTTTTATTC	0.313													4	98	---	---	---	---	PASS	T	169993564	T	T	169993564	3	4	63	1	0	0	0	0	1	0	0	0	8311	826	29	2	1411	2	KIFAP3	1	169993564	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	2611244	169993564	79257057	16	24650										
ANGPTL1	9068	broad.mit.edu	37	chr1	178834180	178834180	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggcattaaatctctgggataAcctggatccctctgaatctc	8	11	3	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:178834180A>T	uc001gma.2	-	3	1208	c.732T>A	c.(730-732)GGT>GGA	p.G244G	RALGPS2_uc001gly.1_Intron|RALGPS2_uc001glz.2_Intron|RALGPS2_uc010pnb.1_Intron|ANGPTL1_uc001gmb.2_Silent_p.G244G|ANGPTL1_uc010pnc.1_Silent_p.G166G	NM_004673	NP_004664	O95841	ANGL1_HUMAN	angiopoietin-like 1 precursor	244						extracellular space	receptor binding				0						CTCTGGGATAACCTGGATCCC	0.488													63	146	---	---	---	---	PASS	T	178834180	T	T	178834180	2	4	63	1	0	0	0	0	0	0	0	1	613	30	2	5		5	ANGPTL1	1	178834180	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	8840616	178834180	70416441	17	24651										
LAMC1	3915	broad.mit.edu	37	chr1	182992985	182992985	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgagtgcacggacgagggcgGgcggccgcagcgctgcatgc	19	13	0	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:182992985G>T	uc001gpy.3	+	1	391	c.134G>T	c.(133-135)GGG>GTG	p.G45V	LAMC1_uc001gpx.2_Missense_Mutation_p.G45V	NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	45					axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GACGAGGGCGGGCGGCCGCAG	0.468													10	26	---	---	---	---	PASS	T	182992985	T	T	182992985	3	4	63	1	0	0	0	0	1	0	0	0	8614	1232	43	3	136	3	LAMC1	1	182992985	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	4158805	182992985	66257636	18	24652										
RGL1	23179	broad.mit.edu	37	chr1	183861272	183861272	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cagaccataataaccatttgAccagccgagaactactgatg	7	11	0	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:183861272A>T	uc001gqo.2	+	9	1274	c.1117A>T	c.(1117-1119)ACC>TCC	p.T373S	RGL1_uc010pof.1_Missense_Mutation_p.T178S|RGL1_uc001gqm.2_Missense_Mutation_p.T408S|RGL1_uc010pog.1_Missense_Mutation_p.T371S|RGL1_uc010poh.1_Missense_Mutation_p.T371S|RGL1_uc010poi.1_Missense_Mutation_p.T373S	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	373	Ras-GEF.				cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						TAACCATTTGACCAGCCGAGA	0.413													31	63	---	---	---	---	PASS	T	183861272	T	T	183861272	3	4	63	1	0	0	0	0	1	0	0	0	13276	275	10	5	1256	5	RGL1	1	183861272	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	868287	183861272	65389349	19	24653										
FAM5C	339479	broad.mit.edu	37	chr1	190067631	190067631	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gttaatgtccagttataacaCtgcaggggtaggtccaactt	10	8	0	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:190067631C>A	uc001gse.1	-	8	2050	c.1818G>T	c.(1816-1818)CAG>CAT	p.Q606H	FAM5C_uc010pot.1_Missense_Mutation_p.Q504H	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	606						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					AGTTATAACACTGCAGGGGTA	0.473													167	429	---	---	---	---	PASS	A	190067631	A	A	190067631	3	1	63	1	0	0	0	0	1	0	0	0	5594	564	20	3	486	3	FAM5C	1	190067631	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	6206359	190067631	59182990	20	24654										
DENND1B	163486	broad.mit.edu	37	chr1	197480035	197480035	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgtcttgcccaagattccacTctgcttggtcaccagaacca	7	15	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:197480035T>C	uc010ppe.1	-	22	2161	c.1823A>G	c.(1822-1824)GAG>GGG	p.E608G	DENND1B_uc010ppf.1_RNA	NM_001142795	NP_001136267	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 1	Error:Variant_position_missing_in_Q6P3S1_after_alignment						clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						AAGATTCCACTCTGCTTGGTC	0.448													40	77	---	---	---	---	PASS	C	197480035	C	C	197480035	3	2	63	1	0	0	0	0	1	0	0	0	4427	1551	54	5	448	5	DENND1B	1	197480035	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	7412404	197480035	51770586	21	24655										
PRELP	5549	broad.mit.edu	37	chr1	203455842	203455842	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctttttccgtagaaatcaacGgaacccagatttgccccaac	6	13	1	2	rs147252422		TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:203455842G>A	uc001gzs.2	+	3	1182	c.982G>A	c.(982-984)GGA>AGA	p.G328R	PRELP_uc001gzt.2_Missense_Mutation_p.G328R	NM_002725	NP_002716	P51888	PRELP_HUMAN	proline arginine-rich end leucine-rich repeat	328	LRR 11.				skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent			ovary(1)|central_nervous_system(1)|pancreas(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.109)			AGAAATCAACGGAACCCAGAT	0.562													21	75	---	---	---	---	PASS	A	203455842	A	A	203455842	3	1	63	1	0	0	0	0	1	0	0	0	12473	1117	39	1	988	1	PRELP	1	203455842	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	5975807	203455842	45794779	22	24656										
USH2A	7399	broad.mit.edu	37	chr1	216219838	216219838	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	catccatgtataaacagtacTgagttataataccatttgcc	5	9	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:216219838T>A	uc001hku.1	-	32	6647	c.6260A>T	c.(6259-6261)CAG>CTG	p.Q2087L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2087	Extracellular (Potential).|Fibronectin type-III 7.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TAAACAGTACTGAGTTATAAT	0.458										HNSCC(13;0.011)			47	134	---	---	---	---	PASS	A	216219838	A	A	216219838	3	1	63	1	0	0	0	0	1	0	0	0	17033	1580	55	5	9512	5	USH2A	1	216219838	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	12763996	216219838	33030783	23	24657										
FMN2	56776	broad.mit.edu	37	chr1	240371017	240371017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	caggcataccccttcctcccCctcttcccggagcaggaata	7	18	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:240371017C>A	uc010pyd.1	+	5	3130	c.2905C>A	c.(2905-2907)CCT>ACT	p.P969T	FMN2_uc010pye.1_Missense_Mutation_p.P973T	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	969	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CCTTCCTCCCCCTCTTCCCGG	0.711													24	35	---	---	---	---	PASS	A	240371017	A	A	240371017	3	1	63	1	0	0	0	0	1	0	0	0	5950	623	22	3	2923	3	FMN2	1	240371017	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	24151179	240371017	8879604	24	24658										
OR2W5	441932	broad.mit.edu	37	chr1	247655202	247655202	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tctacggaaccatcatctacGtgtacctgaagccggccaac	8	14	3	1	rs118113848	by1000genomes	TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:247655202G>T	uc001icz.1	+	1	773	c.773G>T	c.(772-774)CGT>CTT	p.R258L		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	258					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CATCATCTACGTGTACCTGAA	0.532													68	134	---	---	---	---	PASS	T	247655202	T	T	247655202	3	4	63	1	0	0	0	0	1	0	0	0	11034	1145	40	1	775	1	OR2W5	1	247655202	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	7284185	247655202	1595419	25	24659										
OR2M7	391196	broad.mit.edu	37	chr1	248487855	248487855	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gaagtcagagttgaaggtctGattctcccatgccatgatga	11	8	3	5			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:248487855G>C	uc010pzk.1	-	1	16	c.16C>G	c.(16-18)CAG>GAG	p.Q6E		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTGAAGGTCTGATTCTCCCAT	0.443													111	252	---	---	---	---	PASS	C	248487855	C	C	248487855	3	2	63	1	0	0	0	0	1	0	0	0	11014	1299	45	2	925	2	OR2M7	1	248487855	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	832653	248487855	762766	26	24660										
OR2T10	127069	broad.mit.edu	37	chr1	248756807	248756807	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggaccgagatggtcttgtctTtggccagctggttcaccagc	13	11	3	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr1:248756807T>A	uc010pzn.1	-	1	263	c.263A>T	c.(262-264)AAA>ATA	p.K88I		NM_001004693	NP_001004693	Q8NGZ9	O2T10_HUMAN	olfactory receptor, family 2, subfamily T,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGTCTTGTCTTTGGCCAGCTG	0.502													33	85	---	---	---	---	PASS	A	248756807	A	A	248756807	3	1	63	1	0	0	0	0	1	0	0	0	11017	1841	64	5	678	5	OR2T10	1	248756807	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	268952	248756807	493814	27	24661										
TSSC1	7260	broad.mit.edu	37	chr2	3200790	3200790	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gggacgctgagctggccagcTgggagtgtcacgatgttttc	16	9	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:3200790T>A	uc002qxj.2	-	6	710	c.517_splice	c.e6-1	p.L173_splice	TSSC1_uc002qxi.2_Splice_Site	NM_003310	NP_003301	Q53HC9	TSSC1_HUMAN	tumor suppressing subtransferable candidate 1								protein binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.212)		OV - Ovarian serous cystadenocarcinoma(76;0.00877)|Epithelial(75;0.0283)|all cancers(51;0.0464)		GCTGGCCAGCTGGGAGTGTCA	0.368													25	55	---	---	---	---	PASS	A	3200790	A	A	3200790	5	1	63	1	0	0	0	0	0	0	1	0	16663	1594	55	5	664	5	TSSC1	2	3200790	Splice_Site	SNP	T	TCGA-34-2596-01A-01D-1522-08		3200790	239998583	28	24662										
DNMT3A	1788	broad.mit.edu	37	chr2	25457255	25457255	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgccaagcggctcatgttggAgacgtcagtatagtggactg	14	9	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:25457255A>G	uc002rgc.2	-	23	2889	c.2632T>C	c.(2632-2634)TCC>CCC	p.S878P	DNMT3A_uc002rgd.2_Missense_Mutation_p.S878P|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Missense_Mutation_p.S689P	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	878					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTCATGTTGGAGACGTCAGTA	0.607			Mis|F|N|S		AML								31	62	---	---	---	---	PASS	G	25457255	G	G	25457255	3	3	63	1	0	0	0	0	1	0	0	0	4676	304	11	5	110	5	DNMT3A	2	25457255	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	22256465	25457255	217742118	29	24663										
C2orf16	84226	broad.mit.edu	37	chr2	27800362	27800362	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cactggatttgcagagagatCcccaaggctctgtcctcaaa	9	12	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:27800362C>G	uc002rkz.3	+	1	974	c.923C>G	c.(922-924)TCC>TGC	p.S308C		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	308										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					GCAGAGAGATCCCCAAGGCTC	0.453													48	108	---	---	---	---	PASS	G	27800362	G	G	27800362	3	3	63	1	0	0	0	0	1	0	0	0	2157	855	30	2	925	2	C2orf16	2	27800362	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	2343107	27800362	215399011	30	24664										
XDH	7498	broad.mit.edu	37	chr2	31637530	31637530	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aaaaccaatttgtctgctgtCattgtcacaggttggggtcc	10	9	3	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:31637530C>G	uc002rnv.1	-	1	82	c.3G>C	c.(1-3)ATG>ATC	p.M1I		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	1					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	TGTCTGCTGTCATTGTCACAG	0.502													60	169	---	---	---	---	PASS	G	31637530	G	G	31637530	3	3	63	1	0	0	0	0	1	0	0	0	17423	826	29	2	4142	2	XDH	2	31637530	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	3837168	31637530	211561843	31	24665										
SOCS5	9655	broad.mit.edu	37	chr2	46985978	46985978	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gataatgattcttgtgttacCccaggaacaagacttgcacg	9	9	1	2	rs17853110		TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:46985978C>A	uc002rvf.2	+	2	473	c.309C>A	c.(307-309)ACC>ACA	p.T103T	SOCS5_uc010yoe.1_Silent_p.T72T|SOCS5_uc002rvg.2_Silent_p.T103T	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	103					cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			CTTGTGTTACCCCAGGAACAA	0.418													68	96	---	---	---	---	PASS	A	46985978	A	A	46985978	2	1	63	1	0	0	0	0	0	0	0	1	14917	610	22	3		3	SOCS5	2	46985978	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	15348448	46985978	196213395	32	24666										
FOXN2	3344	broad.mit.edu	37	chr2	48573599	48573599	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agtgagggtcttccaattgtTagtccattgtatgacataga	10	6	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:48573599T>C	uc002rwh.1	+	3	561	c.246T>C	c.(244-246)GTT>GTC	p.V82V		NM_002158	NP_002149	P32314	FOXN2_HUMAN	T-cell leukemia virus enhancer factor	82					embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0272)|LUSC - Lung squamous cell carcinoma(58;0.036)			TTCCAATTGTTAGTCCATTGT	0.443													111	139	---	---	---	---	PASS	C	48573599	C	C	48573599	2	2	63	1	0	0	0	0	0	0	0	1	6020	1741	61	5		5	FOXN2	2	48573599	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	1587621	48573599	194625774	33	24667										
EHBP1	23301	broad.mit.edu	37	chr2	63176065	63176065	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tcaaactctagacatcggtaGtaacttggagaaagaaaaat	8	6	2	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:63176065G>T	uc002sby.2	+	14	2671	c.2189G>T	c.(2188-2190)AGT>ATT	p.S730I	EHBP1_uc010fcp.2_Missense_Mutation_p.S695I|EHBP1_uc002sbz.2_Missense_Mutation_p.S695I|EHBP1_uc002scb.2_Missense_Mutation_p.S695I	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	730						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			GACATCGGTAGTAACTTGGAG	0.348									Hereditary_Prostate_Cancer				39	142	---	---	---	---	PASS	T	63176065	T	T	63176065	3	4	63	1	0	0	0	0	1	0	0	0	4975	1029	36	3	2239	3	EHBP1	2	63176065	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	14602466	63176065	180023308	34	24668										
WDR54	84058	broad.mit.edu	37	chr2	74652601	74652601	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggaagctgagcagaaacccaGagagtggctacattgaggta	14	7	0	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:74652601G>A	uc002slb.2	+	9	916	c.856G>A	c.(856-858)GAG>AAG	p.E286K		NM_032118	NP_115494	Q9H977	WDR54_HUMAN	WD repeat domain 54	286	WD 4.										0						CAGAAACCCAGAGAGTGGCTA	0.602													107	106	---	---	---	---	PASS	A	74652601	A	A	74652601	3	1	63	1	0	0	0	0	1	0	0	0	17303	943	33	2	886	2	WDR54	2	74652601	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	11476536	74652601	168546772	35	24669										
LRRTM1	347730	broad.mit.edu	37	chr2	80530563	80530564	+	Frame_Shift_Ins	INS	-	T	T													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cggaaggtggtgttgggcagINSttgggtgatctggttggaac							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:80530563_80530564insT	uc002sok.1	-	2	651_652	c.381_382insA	c.(379-384)CAACTGfs	p.Q127fs	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	127_128	LRR 2.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GTGTTGGGCAGTTGGGTGATCT	0.604										HNSCC(69;0.2)			181	132	---	---	---	---		T	80530564	T	T	80530563	7	5	63	1	0	1	1	0	0	0	0	0	9039	1020	36	0	1190	0	LRRTM1	2	80530563	Frame_Shift_Ins	INS	-	TCGA-34-2596-01A-01D-1522-08	5877962	80530563	162668810	36	24670										
UXS1	80146	broad.mit.edu	37	chr2	106710576	106710576	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	actcgagttctttacggaagTagtgaattgctttgtttaaa	9	5	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:106710576T>A	uc002tdm.2	-	15	1267	c.1169A>T	c.(1168-1170)TAC>TTC	p.Y390F	UXS1_uc002tdk.2_Missense_Mutation_p.Y188F|UXS1_uc002tdl.2_Missense_Mutation_p.Y222F|UXS1_uc002tdn.2_Missense_Mutation_p.Y395F|UXS1_uc002tdo.2_Missense_Mutation_p.Y333F	NM_025076	NP_079352	Q8NBZ7	UXS1_HUMAN	UDP-glucuronate decarboxylase 1	390	Lumenal (Potential).				cellular metabolic process	Golgi cisterna membrane|integral to membrane	coenzyme binding|UDP-glucuronate decarboxylase activity			ovary(2)	2						TTTACGGAAGTAGTGAATTGC	0.473													8	99	---	---	---	---	PASS	A	106710576	A	A	106710576	3	1	63	1	0	0	0	0	1	0	0	0	17106	1638	57	5	97	5	UXS1	2	106710576	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	26180013	106710576	136488797	37	24671										
ST6GAL2	84620	broad.mit.edu	37	chr2	107450571	107450571	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tcataaccacgtgtaggagcAgagttaaatctcaaaaccgc	8	10	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:107450571A>G	uc002tdq.2	-	3	1094	c.975T>C	c.(973-975)TCT>TCC	p.S325S	ST6GAL2_uc002tdr.2_Silent_p.S325S|ST6GAL2_uc002tds.3_Silent_p.S325S	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	325	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						GTGTAGGAGCAGAGTTAAATC	0.373													10	188	---	---	---	---	PASS	G	107450571	G	G	107450571	2	3	63	1	0	0	0	0	0	0	0	1	15221	175	7	5		5	ST6GAL2	2	107450571	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	739995	107450571	135748802	38	24672										
PAX8	7849	broad.mit.edu	37	chr2	113993073	113993073	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gacttgctgcagatccaaaaAggcggagctagataaagagg	13	7	0	3	rs3188996	by1000genomes	TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:113993073A>T	uc010yxt.1	-	9	1151	c.985T>A	c.(985-987)TTT>ATT	p.F329I	PAX8_uc010yxu.1_Silent_p.P302P|PAX8_uc010yxv.1_Intron|PAX8_uc002tjm.2_Intron|PAX8_uc002tjn.2_Intron|uc002tjp.2_5'Flank|LOC654433_uc002tjq.3_5'Flank|LOC654433_uc010fks.2_5'Flank|LOC654433_uc010fkt.2_5'Flank|LOC654433_uc002tjr.3_5'Flank	NM_003466	NP_003457	Q06710	PAX8_HUMAN	paired box 8 isoform PAX8A	329					branching involved in ureteric bud morphogenesis|cellular response to gonadotropin stimulus|central nervous system development|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|metanephric collecting duct development|metanephric comma-shaped body morphogenesis|metanephric distal convoluted tubule development|metanephric nephron tubule formation|metanephric S-shaped body morphogenesis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|otic vesicle development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric field specification|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of thyroid-stimulating hormone secretion|thyroid gland development|transcription, DNA-dependent	nucleoplasm	protein binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid-stimulating hormone receptor activity			ovary(1)|lung(1)	2						AGATCCAAAAAGGCGGAGCTA	0.612			T	PPARG	follicular thyroid		Thyroid dysgenesis 						3	25	---	---	---	---	PASS	T	113993073	T	T	113993073	3	4	63	1	0	0	0	0	1	0	0	0	11485	72	3	5	383	5	PAX8	2	113993073	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	6542502	113993073	129206300	39	24673										
MYO7B	4648	broad.mit.edu	37	chr2	128384551	128384551	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	atccaggatcccccctcaggCcccatacactcagaagcaag	7	17	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:128384551C>A	uc002top.2	+	31	4192	c.4139C>A	c.(4138-4140)GCC>GAC	p.A1380D	MYO7B_uc002toq.1_Missense_Mutation_p.A233D|MYO7B_uc002tor.1_Missense_Mutation_p.A233D	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	1380	FERM 1.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		CCCCCTCAGGCCCCATACACT	0.597													10	14	---	---	---	---	PASS	A	128384551	A	A	128384551	3	1	63	1	0	0	0	0	1	0	0	0	10083	753	26	3	4257	3	MYO7B	2	128384551	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	14391478	128384551	114814822	40	24674										
NCKAP5	344148	broad.mit.edu	37	chr2	133540268	133540268	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agtccctcagactttggaggGatcctcaaaggcaacttact	9	11	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:133540268G>A	uc002ttp.2	-	14	4490	c.4116C>T	c.(4114-4116)ATC>ATT	p.I1372I	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1372							protein binding				0						ACTTTGGAGGGATCCTCAAAG	0.627													36	57	---	---	---	---	PASS	A	133540268	A	A	133540268	2	1	63	1	0	0	0	0	0	0	0	1	10223	1164	41	2		2	NCKAP5	2	133540268	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	5155717	133540268	109659105	41	24675										
LRP1B	53353	broad.mit.edu	37	chr2	141625807	141625807	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttcaatgcgaggaaaatttgCatcccagtctgtccagaaaa	8	9	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:141625807C>A	uc002tvj.1	-	26	5167	c.4195G>T	c.(4195-4197)GCA>TCA	p.A1399S	LRP1B_uc010fnl.1_Missense_Mutation_p.A581S	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1399	Extracellular (Potential).|LDL-receptor class B 11.				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)		GGAAAATTTGCATCCCAGTCT	0.294										TSP Lung(27;0.18)			6	108	---	---	---	---	PASS	A	141625807	A	A	141625807	3	1	63	1	0	0	0	0	1	0	0	0	8955	710	25	3	9868	3	LRP1B	2	141625807	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	8085539	141625807	101573566	42	24676										
SLC4A10	57282	broad.mit.edu	37	chr2	162719517	162719517	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aacaggattcccattgttcgTtcctttgctgatattggcaa	8	9	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:162719517T>C	uc002ubx.3	+	6	895	c.711T>C	c.(709-711)CGT>CGC	p.R237R	SLC4A10_uc010fpa.1_Silent_p.R249R|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Silent_p.R237R|SLC4A10_uc010zcs.1_Silent_p.R248R	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	237	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						CCATTGTTCGTTCCTTTGCTG	0.383													28	42	---	---	---	---	PASS	C	162719517	C	C	162719517	2	2	63	1	0	0	0	0	0	0	0	1	14651	1712	60	5		5	SLC4A10	2	162719517	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	21093710	162719517	80479856	43	24677										
KBTBD10	10324	broad.mit.edu	37	chr2	170366566	170366566	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aatcatcaaatacctgtactCtgccagtattgatctcaatg	5	10	4	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:170366566C>T	uc002ueu.1	+	1	355	c.278C>T	c.(277-279)TCT>TTT	p.S93F	KBTBD10_uc010zdh.1_Intron	NM_006063	NP_006054	O60662	KBTBA_HUMAN	kelch repeat and BTB (POZ) domain containing 10	93	BTB.				striated muscle contraction	centrosome|nucleolus|plasma membrane|pseudopodium|ruffle					0						TACCTGTACTCTGCCAGTATT	0.393													8	258	---	---	---	---	PASS	T	170366566	T	T	170366566	3	4	63	1	0	0	0	0	1	0	0	0	7990	913	32	2	280	2	KBTBD10	2	170366566	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	7647049	170366566	72832807	44	24678										
KLHL23	151230	broad.mit.edu	37	chr2	170592599	170592599	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gtttgccaatgctcaatgccAggtattaccactgtgcagtc	9	11	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:170592599A>T	uc002ufh.1	+	4	1413	c.1075A>T	c.(1075-1077)AGG>TGG	p.R359W	KLHL23_uc002ufi.1_Missense_Mutation_p.R359W	NM_144711	NP_653312	Q8NBE8	KLH23_HUMAN	kelch-like 23	359	Kelch 2.										0						GCTCAATGCCAGGTATTACCA	0.473													115	173	---	---	---	---	PASS	T	170592599	T	T	170592599	3	4	63	1	0	0	0	0	1	0	0	0	8378	179	7	5	1077	5	KLHL23	2	170592599	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	226033	170592599	72606774	45	24679										
NFE2L2	4780	broad.mit.edu	37	chr2	178098959	178098959	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cttctcgacttactccaagaTctatatcttgcctccaaagt	4	13	3	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:178098959T>C	uc002ulh.3	-	2	641	c.86A>G	c.(85-87)GAT>GGT	p.D29G	NFE2L2_uc002ulg.3_Missense_Mutation_p.D13G|NFE2L2_uc010zfa.1_Missense_Mutation_p.D13G|NFE2L2_uc002uli.3_Missense_Mutation_p.D13G|NFE2L2_uc010fra.2_Missense_Mutation_p.D13G|NFE2L2_uc010frb.2_Missense_Mutation_p.D13G	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	29					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			TACTCCAAGATCTATATCTTG	0.368			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			28	84	---	---	---	---	PASS	C	178098959	C	C	178098959	3	2	63	1	0	0	0	0	1	0	0	0	10368	1435	50	5	1747	5	NFE2L2	2	178098959	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	7506360	178098959	65100414	46	24680										
TTN	7273	broad.mit.edu	37	chr2	179400809	179400809	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tctgtgacacttgcaatgatGagctggtggtagccaccctt	11	10	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:179400809G>T	uc010zfg.1	-	306	93185	c.92961C>A	c.(92959-92961)CTC>CTA	p.L30987L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.L24682L|TTN_uc010zfi.1_Silent_p.L24615L|TTN_uc010zfj.1_Silent_p.L24490L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31914							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)			TTGCAATGATGAGCTGGTGGT	0.443													57	96	---	---	---	---	PASS	T	179400809	T	T	179400809	2	4	63	1	0	0	0	0	0	0	0	1	16732	1277	45	2		2	TTN	2	179400809	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	1301850	179400809	63798564	47	24681										
TTN	7273	broad.mit.edu	37	chr2	179414546	179414546	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ccaccacagagtcatcttctCcccagtaatattggtgaatc	6	13	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:179414546C>A	uc010zfg.1	-	287	84423	c.84199G>T	c.(84199-84201)GAG>TAG	p.E28067*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.E21762*|TTN_uc010zfi.1_Nonsense_Mutation_p.E21695*|TTN_uc010zfj.1_Nonsense_Mutation_p.E21570*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28994							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)			GTCATCTTCTCCCCAGTAATA	0.428													65	168	---	---	---	---	PASS	A	179414546	A	A	179414546	4	1	63	1	0	0	0	0	0	1	0	0	16732	864	30	2	16176	2	TTN	2	179414546	Nonsense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	13737	179414546	63784827	48	24682										
TTN	7273	broad.mit.edu	37	chr2	179428441	179428441	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctgagacttcaggtgttgagGgaggacctggtggcttataa	15	6	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:179428441G>C	uc010zfg.1	-	275	74938	c.74714C>G	c.(74713-74715)CCC>CGC	p.P24905R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P18600R|TTN_uc010zfi.1_Missense_Mutation_p.P18533R|TTN_uc010zfj.1_Missense_Mutation_p.P18408R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25832							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)			AGGTGTTGAGGGAGGACCTGG	0.478													10	286	---	---	---	---	PASS	C	179428441	C	C	179428441	3	2	63	1	0	0	0	0	1	0	0	0	16732	1232	43	4	25709	4	TTN	2	179428441	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	13895	179428441	63770932	49	24683										
TTN	7273	broad.mit.edu	37	chr2	179441390	179441390	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctttgcacctgagatcggaaActggtgtttttattgctctc	9	9	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:179441390A>T	uc010zfg.1	-	274	62101	c.61877T>A	c.(61876-61878)GTT>GAT	p.V20626D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V14321D|TTN_uc010zfi.1_Missense_Mutation_p.V14254D|TTN_uc010zfj.1_Missense_Mutation_p.V14129D|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21553							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)			GAGATCGGAAACTGGTGTTTT	0.468													162	386	---	---	---	---	PASS	T	179441390	T	T	179441390	3	4	63	1	0	0	0	0	1	0	0	0	16732	43	2	5	38550	5	TTN	2	179441390	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	12949	179441390	63757983	50	24684										
TTN	7273	broad.mit.edu	37	chr2	179463280	179463280	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tttatattcaacgatgtatcCagttactttggatccaccat	5	9	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:179463280C>T	uc010zfg.1	-	241	49584	c.49360G>A	c.(49360-49362)GGA>AGA	p.G16454R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G10149R|TTN_uc010zfi.1_Missense_Mutation_p.G10082R|TTN_uc010zfj.1_Missense_Mutation_p.G9957R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17381							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)			ACGATGTATCCAGTTACTTTG	0.403													28	70	---	---	---	---	PASS	T	179463280	T	T	179463280	3	4	63	1	0	0	0	0	1	0	0	0	16732	603	21	3	50913	3	TTN	2	179463280	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	21890	179463280	63736093	51	24685										
TTN	7273	broad.mit.edu	37	chr2	179468995	179468995	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	atttattcactgccctgactCggaactcatactgaccattg	6	12	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:179468995C>T	uc010zfg.1	-	231	46939	c.46715G>A	c.(46714-46716)CGA>CAA	p.R15572Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R9267Q|TTN_uc010zfi.1_Missense_Mutation_p.R9200Q|TTN_uc010zfj.1_Missense_Mutation_p.R9075Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16499							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)			TGCCCTGACTCGGAACTCATA	0.368													33	72	---	---	---	---	PASS	T	179468995	T	T	179468995	3	4	63	1	0	0	0	0	1	0	0	0	16732	884	31	2	53598	2	TTN	2	179468995	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	5715	179468995	63730378	52	24686										
TTN	7273	broad.mit.edu	37	chr2	179582750	179582750	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aatactctcccacatcactgTgatccactttgttgattact	4	12	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:179582750T>C	uc010zfg.1	-	83	21475	c.21251A>G	c.(21250-21252)CAC>CGC	p.H7084R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.H3745R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8011							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.M7084I(1)		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)			CACATCACTGTGATCCACTTT	0.408													90	189	---	---	---	---	PASS	C	179582750	C	C	179582750	3	2	63	1	0	0	0	0	1	0	0	0	16732	1696	59	5	79654	5	TTN	2	179582750	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	113755	179582750	63616623	53	24687										
TTN	7273	broad.mit.edu	37	chr2	179610863	179610863	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cacgtatttaatattatctgGctcaatacacatatattctt	3	8	3	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:179610863G>T	uc002unb.2	-	46	16488	c.16264C>A	c.(16264-16266)CCA>ACA	p.P5422T	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	8930							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)			ATATTATCTGGCTCAATACAC	0.368													78	216	---	---	---	---	PASS	T	179610863	T	T	179610863	3	4	63	1	0	0	0	0	1	0	0	0	16732	1203	42	3	94033	3	TTN	2	179610863	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	28113	179610863	63588510	54	24688										
TTN	7273	broad.mit.edu	37	chr2	179664562	179664562	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agaaaaataccttttcaattCgggtttgtcttgattctgag	8	6	3	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:179664562C>G	uc002und.2	-	5	884	c.659G>C	c.(658-660)CGA>CCA	p.R220P	TTN_uc010zfg.1_Missense_Mutation_p.R220P|TTN_uc010zfh.1_Missense_Mutation_p.R220P|TTN_uc010zfi.1_Missense_Mutation_p.R220P|TTN_uc010zfj.1_Missense_Mutation_p.R220P|TTN_uc002unb.2_Missense_Mutation_p.R220P			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	220							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)			CTTTTCAATTCGGGTTTGTCT	0.403													48	128	---	---	---	---	PASS	G	179664562	G	G	179664562	3	3	63	1	0	0	0	0	1	0	0	0	16732	884	31	2	110761	2	TTN	2	179664562	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	53699	179664562	63534811	55	24689										
ZNF804A	91752	broad.mit.edu	37	chr2	185801730	185801730	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgatattctctccagtagttGtgattctggaaaaaatgaga	9	5	2	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:185801730G>A	uc002uph.2	+	4	2201	c.1607G>A	c.(1606-1608)TGT>TAT	p.C536Y		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	536						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TCCAGTAGTTGTGATTCTGGA	0.333													28	101	---	---	---	---	PASS	A	185801730	A	A	185801730	3	1	63	1	0	0	0	0	1	0	0	0	18167	1377	48	3	1621	3	ZNF804A	2	185801730	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	6137168	185801730	57397643	56	24690										
ZNF804A	91752	broad.mit.edu	37	chr2	185802102	185802102	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tcagttacttgataaaaggcCcaaatcagaatccatatcct	5	10	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:185802102C>G	uc002uph.2	+	4	2573	c.1979C>G	c.(1978-1980)CCC>CGC	p.P660R		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	660						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						GATAAAAGGCCCAAATCAGAA	0.333													69	143	---	---	---	---	PASS	G	185802102	G	G	185802102	3	3	63	1	0	0	0	0	1	0	0	0	18167	623	22	4	1993	4	ZNF804A	2	185802102	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	372	185802102	57397271	57	24691										
DNAH7	56171	broad.mit.edu	37	chr2	196651817	196651817	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctcataaggaatattccaccCtaggggtccaaatttccgtc	7	12	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:196651817C>A	uc002utj.3	-	58	10896	c.10795G>T	c.(10795-10797)GGG>TGG	p.G3599W	DNAH7_uc002uti.3_Missense_Mutation_p.G82W	NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3599	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						ATATTCCACCCTAGGGGTCCA	0.403													88	144	---	---	---	---	PASS	A	196651817	A	A	196651817	3	1	63	1	0	0	0	0	1	0	0	0	4606	681	24	3	1311	3	DNAH7	2	196651817	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	10849715	196651817	46547556	58	24692										
BMPR2	659	broad.mit.edu	37	chr2	203379617	203379617	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tcctgttcttataggagaccGtaaacaaggtcttcacagta	8	9	3	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:203379617G>A	uc002uzf.3	+	5	1684	c.536G>A	c.(535-537)CGT>CAT	p.R179H	BMPR2_uc010ftr.2_Missense_Mutation_p.R179H	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	179	Cytoplasmic (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity	p.R179H(1)		ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						ATAGGAGACCGTAAACAAGGT	0.348													58	124	---	---	---	---	PASS	A	203379617	A	A	203379617	3	1	63	1	0	0	0	0	1	0	0	0	1471	1145	40	1	554	1	BMPR2	2	203379617	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	6727800	203379617	39819756	59	24693										
COL4A3	1285	broad.mit.edu	37	chr2	228137730	228137730	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggctcccctgggtccccaggAcctgcaggaccagctggacc	13	17	0	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:228137730A>T	uc002vom.1	+	26	1986	c.1824A>T	c.(1822-1824)GGA>GGT	p.G608G	COL4A3_uc002von.1_Silent_p.G608G|COL4A3_uc002voo.1_Silent_p.G608G|COL4A3_uc002vop.1_Silent_p.G608G|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	608	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)		GGTCCCCAGGACCTGCAGGAC	0.622													33	103	---	---	---	---	PASS	T	228137730	T	T	228137730	2	4	63	1	0	0	0	0	0	0	0	1	3691	262	10	5		5	COL4A3	2	228137730	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	24758113	228137730	15061643	60	24694										
TRIP12	9320	broad.mit.edu	37	chr2	230650556	230650556	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgcctgtttcagcagctcctCtcggttcacagtacgctaca	8	15	3	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr2:230650556C>G	uc002vpw.1	-	33	4895	c.4786G>C	c.(4786-4788)GAG>CAG	p.E1596Q	TRIP12_uc002vpx.1_Missense_Mutation_p.E1644Q|TRIP12_uc002vpy.1_Missense_Mutation_p.E1326Q	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1596					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)		AGCAGCTCCTCTCGGTTCACA	0.458													53	105	---	---	---	---	PASS	G	230650556	G	G	230650556	3	3	63	1	0	0	0	0	1	0	0	0	16553	922	32	2	1228	2	TRIP12	2	230650556	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	2512826	230650556	12548817	61	24695										
CNTN4	152330	broad.mit.edu	37	chr3	2908505	2908505	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tcgccgctttgtttctcaagAgactgggaatctgtatattg	10	8	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:2908505A>T	uc003bpc.2	+	7	745	c.524A>T	c.(523-525)GAG>GTG	p.E175V	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Missense_Mutation_p.E175V	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	175	Ig-like C2-type 2.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		GTTTCTCAAGAGACTGGGAAT	0.403													112	127	---	---	---	---	PASS	T	2908505	T	T	2908505	3	4	63	1	0	0	0	0	1	0	0	0	3643	304	11	5	542	5	CNTN4	3	2908505	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08		2908505	195113925	62	24696										
TRANK1	9881	broad.mit.edu	37	chr3	36898648	36898648	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcaaggatgattttcttcttGatgaccttggtcattacctt	8	8	3	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:36898648G>A	uc003cgj.2	-	3	1085	c.783C>T	c.(781-783)ATC>ATT	p.I261I		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	811					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TTTTCTTCTTGATGACCTTGG	0.507													139	145	---	---	---	---	PASS	A	36898648	A	A	36898648	2	1	63	1	0	0	0	0	0	0	0	1	16451	1280	45	2		2	TRANK1	3	36898648	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	33990143	36898648	161123782	63	24697										
PLCD1	5333	broad.mit.edu	37	chr3	38053094	38053094	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gttgagctccttcaggaagtTctgcagctccttgaagctca	10	11	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:38053094T>C	uc003chn.2	-	4	623	c.499A>G	c.(499-501)AAC>GAC	p.N167D	PLCD1_uc003chm.2_Missense_Mutation_p.N188D	NM_006225	NP_006216	P51178	PLCD1_HUMAN	phospholipase C, delta 1 isoform 2	167	EF-hand 1.				intracellular signal transduction|lipid catabolic process|phospholipid metabolic process	cytoplasm	calcium ion binding|GTPase activating protein binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		TTCAGGAAGTTCTGCAGCTCC	0.542													12	45	---	---	---	---	PASS	C	38053094	C	C	38053094	3	2	63	1	0	0	0	0	1	0	0	0	12031	1783	62	5	1819	5	PLCD1	3	38053094	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	1154446	38053094	159969336	64	24698										
MYRIP	25924	broad.mit.edu	37	chr3	40285962	40285962	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cctggcagcaggcactgtgtAtggactggagacccagctga	14	11	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:40285962A>G	uc003cka.2	+	13	2261	c.2126A>G	c.(2125-2127)TAT>TGT	p.Y709C	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Missense_Mutation_p.Y644C|MYRIP_uc010hhw.2_Missense_Mutation_p.Y620C|MYRIP_uc011ayz.1_Missense_Mutation_p.Y522C|uc003ckb.2_Intron	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	709	Actin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		GGCACTGTGTATGGACTGGAG	0.582													46	34	---	---	---	---	PASS	G	40285962	G	G	40285962	3	3	63	1	0	0	0	0	1	0	0	0	10100	449	16	5	2172	5	MYRIP	3	40285962	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	2232868	40285962	157736468	65	24699										
HYAL3	8372	broad.mit.edu	37	chr3	50332669	50332669	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cccaatccagcactgctgggCcagcaaagccaggtctcagg	11	15	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:50332669C>A	uc003czd.1	-	2	638	c.365G>T	c.(364-366)GGC>GTC	p.G122V	HYAL3_uc003czc.1_Missense_Mutation_p.G122V|HYAL3_uc003cze.1_Intron|HYAL3_uc003czf.1_Intron|HYAL3_uc003czg.1_Missense_Mutation_p.G122V	NM_003549	NP_003540	O43820	HYAL3_HUMAN	hyaluronoglucosaminidase 3 precursor	122					carbohydrate metabolic process	extracellular region|lysosome	hyalurononglucosaminidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CACTGCTGGGCCAGCAAAGCC	0.647													70	77	---	---	---	---	PASS	A	50332669	A	A	50332669	3	1	63	1	0	0	0	0	1	0	0	0	7465	739	26	3	900	3	HYAL3	3	50332669	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	10046707	50332669	147689761	66	24700										
DPPA2	151871	broad.mit.edu	37	chr3	109026913	109026913	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aaaaaggcctcaacagaaacAggaatggaacatgaattcaa	8	7	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:109026913A>C	uc003dxo.2	-	6	871	c.624T>G	c.(622-624)CCT>CCG	p.P208P		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	208						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						CAACAGAAACAGGAATGGAAC	0.448													66	81	---	---	---	---	PASS	C	109026913	C	C	109026913	2	2	63	1	0	0	0	0	0	0	0	1	4734	175	7	5		5	DPPA2	3	109026913	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	58694244	109026913	88995517	67	24701										
DPPA2	151871	broad.mit.edu	37	chr3	109028125	109028125	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aagggaagggctggtattttGcatctagctttttgtggagc	14	5	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:109028125G>T	uc003dxo.2	-	4	481	c.234C>A	c.(232-234)TGC>TGA	p.C78*		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	78						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						CTGGTATTTTGCATCTAGCTT	0.418													81	247	---	---	---	---	PASS	T	109028125	T	T	109028125	4	4	63	1	0	0	0	0	0	1	0	0	4734	1311	46	3	682	3	DPPA2	3	109028125	Nonsense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	1212	109028125	88994305	68	24702										
GOLGB1	2804	broad.mit.edu	37	chr3	121415351	121415351	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	actgaaatacctcttctgatTttttagtaagctcacttgtt	5	8	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:121415351T>A	uc003eei.3	-	13	4130	c.4004A>T	c.(4003-4005)AAA>ATA	p.K1335I	GOLGB1_uc010hrc.2_Missense_Mutation_p.K1340I|GOLGB1_uc003eej.3_Missense_Mutation_p.K1301I|GOLGB1_uc011bjm.1_Missense_Mutation_p.K1221I|GOLGB1_uc010hrd.1_Missense_Mutation_p.K1299I	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1335	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CTCTTCTGATTTTTTAGTAAG	0.388													223	314	---	---	---	---	PASS	A	121415351	A	A	121415351	3	1	63	1	0	0	0	0	1	0	0	0	6565	1841	64	5	5815	5	GOLGB1	3	121415351	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	12387226	121415351	76607079	69	24703										
IQCB1	9657	broad.mit.edu	37	chr3	121515990	121515990	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cttctacttcctgatagaccAttgggcttaaaaggccaaca	7	11	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:121515990A>G	uc010hre.1	-	9	1066	c.851T>C	c.(850-852)ATG>ACG	p.M284T	IQCB1_uc003eek.2_Intron|IQCB1_uc010hrf.1_RNA	NM_001023570	NP_001018864	Q15051	IQCB1_HUMAN	IQ motif containing B1 isoform a	284					cilium assembly|maintenance of organ identity|photoreceptor cell maintenance	centrosome|photoreceptor connecting cilium	calmodulin binding				0				GBM - Glioblastoma multiforme(114;0.0983)		CTGATAGACCATTGGGCTTAA	0.358													140	250	---	---	---	---	PASS	G	121515990	G	G	121515990	3	3	63	1	0	0	0	0	1	0	0	0	7803	217	8	5	973	5	IQCB1	3	121515990	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	100639	121515990	76506440	70	24704										
PDIA5	10954	broad.mit.edu	37	chr3	122880801	122880801	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctagggaaaaagaaggaagaGttataattcctgcctcagaa	10	6	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:122880801G>T	uc003egc.1	+	17	1610	c.1554G>T	c.(1552-1554)GAG>GAT	p.E518D	PDIA5_uc003egd.1_RNA	NM_006810	NP_006801	Q14554	PDIA5_HUMAN	protein disulfide isomerase A5 precursor	518	Prevents secretion from ER (Potential).				cell redox homeostasis|glycerol ether metabolic process|protein folding|response to stress	endoplasmic reticulum lumen	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0427)		AGAAGGAAGAGTTATAATTCC	0.398													26	181	---	---	---	---	PASS	T	122880801	T	T	122880801	3	4	63	1	0	0	0	0	1	0	0	0	11671	1020	36	3	1620	3	PDIA5	3	122880801	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	1364811	122880801	75141629	71	24705										
UROC1	131669	broad.mit.edu	37	chr3	126236546	126236546	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggggcaggccagagcacagcGcctggaggctagacatgtgt	17	10	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:126236546G>T	uc003eiz.1	-	1	49	c.17C>A	c.(16-18)GCG>GAG	p.A6E	UROC1_uc010hsi.1_Missense_Mutation_p.A6E	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	6					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		AGAGCACAGCGCCTGGAGGCT	0.682													4	18	---	---	---	---	PASS	T	126236546	T	T	126236546	3	4	63	1	0	0	0	0	1	0	0	0	17025	1087	38	1	2277	1	UROC1	3	126236546	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	3355745	126236546	71785884	72	24706										
TMCC1	23023	broad.mit.edu	37	chr3	129547191	129547191	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcctccaggatcagggtcctCaaataactgttcactgcccg	9	14	3	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:129547191C>T	uc003emz.3	-	4	532	c.31G>A	c.(31-33)GAG>AAG	p.E11K	TMCC1_uc010htg.2_Intron	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	11						integral to membrane				skin(1)	1						TCAGGGTCCTCAAATAACTGT	0.398													85	362	---	---	---	---	PASS	T	129547191	T	T	129547191	3	4	63	1	0	0	0	0	1	0	0	0	15989	835	29	2	1946	2	TMCC1	3	129547191	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	3310645	129547191	68475239	73	24707										
DNAJC13	23317	broad.mit.edu	37	chr3	132211375	132211375	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ataatcaactatccacaactCgaaaatgaactattttgtaa	3	8	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:132211375C>T	uc003eor.2	+	33	3806	c.3741C>T	c.(3739-3741)CTC>CTT	p.L1247L		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1247							heat shock protein binding			ovary(1)|breast(1)	2						ATCCACAACTCGAAAATGAAC	0.403													231	515	---	---	---	---	PASS	T	132211375	T	T	132211375	2	4	63	1	0	0	0	0	0	0	0	1	4632	871	31	2		2	DNAJC13	3	132211375	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	2664184	132211375	65811055	74	24708										
BFSP2	8419	broad.mit.edu	37	chr3	133119036	133119036	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cacggtcatcatcctccctgGagagccccccagcctccagg	9	19	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:133119036G>A	uc003epn.1	+	1	247	c.109G>A	c.(109-111)GAG>AAG	p.E37K		NM_003571	NP_003562	Q13515	BFSP2_HUMAN	phakinin	37	Head.				response to stimulus|visual perception	cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens				0						ATCCTCCCTGGAGAGCCCCCC	0.652													29	161	---	---	---	---	PASS	A	133119036	A	A	133119036	3	1	63	1	0	0	0	0	1	0	0	0	1416	1175	41	2	111	2	BFSP2	3	133119036	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	907661	133119036	64903394	75	24709										
DBR1	51163	broad.mit.edu	37	chr3	137892435	137892435	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tttcccccaatgaagagcgtGagaactggagcctttttctc	9	11	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:137892435G>A	uc003erv.2	-	2	367	c.231C>T	c.(229-231)CTC>CTT	p.L77L	DBR1_uc003eru.2_Silent_p.L26L	NM_016216	NP_057300	Q9UK59	DBR1_HUMAN	debranching enzyme homolog 1	77						nucleus	metal ion binding|RNA lariat debranching enzyme activity				0						TGAAGAGCGTGAGAACTGGAG	0.408													122	446	---	---	---	---	PASS	A	137892435	A	A	137892435	2	1	63	1	0	0	0	0	0	0	0	1	4257	1277	45	2		2	DBR1	3	137892435	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	4773399	137892435	60129995	76	24710										
TXNDC6	347736	broad.mit.edu	37	chr3	138023787	138023787	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttcgccaggtagtgaccacgTcctcgaagccctcagtcctg	10	15	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:138023787T>A	uc003esg.2	-	9	747	c.719A>T	c.(718-720)GAC>GTC	p.D240V	TXNDC6_uc003esd.1_Intron|TXNDC6_uc010huf.1_Missense_Mutation_p.D155V|TXNDC6_uc003ese.1_Missense_Mutation_p.D179V	NM_178130	NP_835231	Q86XW9	TXND6_HUMAN	thioredoxin domain containing 6	240	NDK.				cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|UTP biosynthetic process	cytoplasm|cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			breast(3)|ovary(1)|pancreas(1)	5						AGTGACCACGTCCTCGAAGCC	0.587													166	316	---	---	---	---	PASS	A	138023787	A	A	138023787	3	1	63	1	0	0	0	0	1	0	0	0	16797	1667	58	5	267	5	TXNDC6	3	138023787	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	131352	138023787	59998643	77	24711										
PLCH1	23007	broad.mit.edu	37	chr3	155206555	155206555	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aaagctatttctggcatgtgTactgtaaatgtcagtgtttc	9	6	2	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:155206555T>A	uc011bok.1	-	19	2674	c.2397A>T	c.(2395-2397)GTA>GTT	p.V799V	PLCH1_uc011boj.1_Silent_p.V799V|PLCH1_uc011bol.1_Silent_p.V781V	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	799	C2.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CTGGCATGTGTACTGTAAATG	0.428													30	147	---	---	---	---	PASS	A	155206555	A	A	155206555	2	1	63	1	0	0	0	0	0	0	0	1	12037	1625	57	5		5	PLCH1	3	155206555	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	17182768	155206555	42815875	78	24712										
VEPH1	79674	broad.mit.edu	37	chr3	157081367	157081367	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ataatatttgggtatgaaacTgaagactcccccagctgtga	9	8	0	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:157081367T>A	uc003fbj.1	-	9	1838	c.1521A>T	c.(1519-1521)TCA>TCT	p.S507S	VEPH1_uc003fbk.1_Silent_p.S507S|VEPH1_uc010hvu.1_Silent_p.S507S	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	507						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			GGTATGAAACTGAAGACTCCC	0.428													99	553	---	---	---	---	PASS	A	157081367	A	A	157081367	2	1	63	1	0	0	0	0	0	0	0	1	17151	1567	55	5		5	VEPH1	3	157081367	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	1874812	157081367	40941063	79	24713										
WDR49	151790	broad.mit.edu	37	chr3	167293742	167293742	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttgtaaagaacacaagtgacTgctttctcatggcttttcac	7	9	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:167293742T>A	uc003fev.1	-	4	756	c.450A>T	c.(448-450)GCA>GCT	p.A150A	WDR49_uc003feu.1_5'Flank|WDR49_uc011bpd.1_Silent_p.A203A|WDR49_uc003few.1_Silent_p.A491A	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	150	WD 3.									large_intestine(1)|ovary(1)|skin(1)	3						CACAAGTGACTGCTTTCTCAT	0.403													203	346	---	---	---	---	PASS	A	167293742	A	A	167293742	2	1	63	1	0	0	0	0	0	0	0	1	17299	1567	55	5		5	WDR49	3	167293742	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	10212375	167293742	30728688	80	24714										
PRKCI	5584	broad.mit.edu	37	chr3	170009717	170009717	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttgctcctgaaattttaagaGgagaagattatggtaataaa	9	3	0	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:170009717G>A	uc003fgs.2	+	13	1517	c.1279G>A	c.(1279-1281)GGA>AGA	p.G427R	PRKCI_uc003fgt.2_5'UTR	NM_002740	NP_002731	P41743	KPCI_HUMAN	protein kinase C, iota	427	Protein kinase.				anti-apoptosis|cellular membrane organization|cellular response to insulin stimulus|establishment or maintenance of epithelial cell apical/basal polarity|intracellular signal transduction|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|protein targeting to membrane|secretion|tight junction assembly|vesicle-mediated transport	cytosol|endosome|nucleus|polarisome	ATP binding|phospholipid binding|protein binding|protein kinase C activity|zinc ion binding			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			AATTTTAAGAGGAGAAGATTA	0.343													65	117	---	---	---	---	PASS	A	170009717	A	A	170009717	3	1	63	1	0	0	0	0	1	0	0	0	12514	1001	35	3	1329	3	PRKCI	3	170009717	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	2715975	170009717	28012713	81	24715										
CLCN2	1181	broad.mit.edu	37	chr3	184075201	184075201	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gaagatgaaggcactgaaggTggcagcgaagaagccccgcc	15	10	0	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:184075201T>A	uc003foi.2	-	8	971	c.847A>T	c.(847-849)ACC>TCC	p.T283S	CLCN2_uc003foh.2_5'Flank|CLCN2_uc010hya.1_Missense_Mutation_p.T283S|CLCN2_uc011brl.1_Missense_Mutation_p.T283S|CLCN2_uc011brm.1_Missense_Mutation_p.T239S|CLCN2_uc011brn.1_Missense_Mutation_p.T283S	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	283	Helical; (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	GCACTGAAGGTGGCAGCGAAG	0.627													48	201	---	---	---	---	PASS	A	184075201	A	A	184075201	3	1	63	1	0	0	0	0	1	0	0	0	3463	1696	59	5	1917	5	CLCN2	3	184075201	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	14065484	184075201	13947229	82	24716										
KNG1	3827	broad.mit.edu	37	chr3	186459738	186459738	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aaagaatggaaagcacaatgGttggaaaacagagcatttgg	12	4	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:186459738G>T	uc011bsa.1	+	10	1765	c.1553G>T	c.(1552-1554)GGT>GTT	p.G518V	KNG1_uc003fqr.2_Intron	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	518					blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	AAGCACAATGGTTGGAAAACA	0.463													29	113	---	---	---	---	PASS	T	186459738	T	T	186459738	3	4	63	1	0	0	0	0	1	0	0	0	8427	1261	44	3	1591	3	KNG1	3	186459738	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	2384537	186459738	11562692	83	24717										
OPA1	4976	broad.mit.edu	37	chr3	193333491	193333491	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tcagtggaaagatatgatacCggaccttagtgaatataaat	9	5	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:193333491C>T	uc003ftm.2	+	3	614	c.380C>T	c.(379-381)CCG>CTG	p.P127L	OPA1_uc003ftg.2_Missense_Mutation_p.P127L|OPA1_uc003fth.2_Missense_Mutation_p.P127L|OPA1_uc003fti.2_Missense_Mutation_p.P127L|OPA1_uc003ftj.2_Missense_Mutation_p.P127L|OPA1_uc003ftk.2_Missense_Mutation_p.P127L|OPA1_uc003ftl.2_Missense_Mutation_p.P127L|OPA1_uc003ftn.2_Missense_Mutation_p.P127L	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1	127	Mitochondrial intermembrane (By similarity).				apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		GATATGATACCGGACCTTAGT	0.308													104	591	---	---	---	---	PASS	T	193333491	T	T	193333491	3	4	63	1	0	0	0	0	1	0	0	0	10871	652	23	1	390	1	OPA1	3	193333491	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	6873753	193333491	4688939	84	24718										
LRRC33	375387	broad.mit.edu	37	chr3	196387697	196387697	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgtcggagctgcacctggctCcggggctggccagctgcctg	16	14	0	0	rs150316796		TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr3:196387697C>G	uc003fwv.2	+	3	1287	c.1183C>G	c.(1183-1185)CCG>GCG	p.P395A		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	395	Extracellular (Potential).|LRR 13.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		GCACCTGGCTCCGGGGCTGGC	0.652													34	116	---	---	---	---	PASS	G	196387697	G	G	196387697	3	3	63	1	0	0	0	0	1	0	0	0	8988	855	30	2	1189	2	LRRC33	3	196387697	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	3054206	196387697	1634733	85	24719										
ACOX3	8310	broad.mit.edu	37	chr4	8372694	8372694	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gtcaggaggagcgatcacgtCtaccagggcaactgcatcgt	13	11	3	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr4:8372694C>G	uc010idk.2	-	17	2069	c.1924G>C	c.(1924-1926)GAC>CAC	p.D642H	ACOX3_uc003glc.3_Missense_Mutation_p.D642H|ACOX3_uc003gld.3_Missense_Mutation_p.R619T	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	642					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						GCGATCACGTCTACCAGGGCA	0.572													31	58	---	---	---	---	PASS	G	8372694	G	G	8372694	3	3	63	1	0	0	0	0	1	0	0	0	160	913	32	2	186	2	ACOX3	4	8372694	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08		8372694	182781582	86	24720										
LPHN3	23284	broad.mit.edu	37	chr4	62453084	62453084	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggcaggactgatgacaaaatTtgtgactctgaccctgctca	10	10	2	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr4:62453084T>C	uc010ihh.2	+	2	368	c.195T>C	c.(193-195)ATT>ATC	p.I65I	LPHN3_uc003hcq.3_Silent_p.I65I|LPHN3_uc010ihg.1_Silent_p.I133I	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	65	SUEL-type lectin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						ATGACAAAATTTGTGACTCTG	0.418													27	46	---	---	---	---	PASS	C	62453084	C	C	62453084	2	2	63	1	0	0	0	0	0	0	0	1	8917	1829	64	5		5	LPHN3	4	62453084	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	54080390	62453084	128701192	87	24721										
EGF	1950	broad.mit.edu	37	chr4	110897250	110897250	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttggccgtctggttatagccAgctctgatctaatctggccc	10	12	4	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr4:110897250A>T	uc003hzy.3	+	13	2364	c.1912A>T	c.(1912-1914)AGC>TGC	p.S638C	EGF_uc011cfu.1_Missense_Mutation_p.S596C|EGF_uc011cfv.1_Missense_Mutation_p.S638C	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	638	Extracellular (Potential).|LDL-receptor class B 8.				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	GGTTATAGCCAGCTCTGATCT	0.443													110	135	---	---	---	---	PASS	T	110897250	T	T	110897250	3	4	63	1	0	0	0	0	1	0	0	0	4962	188	7	5	1962	5	EGF	4	110897250	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	48444166	110897250	80257026	88	24722										
ENPEP	2028	broad.mit.edu	37	chr4	111441213	111441213	+	Frame_Shift_Del	DEL	G	-	-													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgcaaaaacttctgatttttGggcagcactggaagaggtaa							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr4:111441213delG	uc003iab.3	+	9	1901	c.1559delG	c.(1558-1560)TGGfs	p.W520fs		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	520	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	TCTGATTTTTGGGCAGCACTG	0.323													69	30	---	---	---	---		-	111441213	-	-	111441213	7	5	63	1	0	1	0	1	0	0	0	0	5128	1357	47	0	1593	0	ENPEP	4	111441213	Frame_Shift_Del	DEL	G	TCGA-34-2596-01A-01D-1522-08	543963	111441213	79713063	89	24723										
GALNTL6	442117	broad.mit.edu	37	chr4	173730674	173730674	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctcccactgcgaggtcaatgTgaactggctgcccccactcc	9	17	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr4:173730674T>A	uc003isv.2	+	6	1452	c.716T>A	c.(715-717)GTG>GAG	p.V239E		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	239	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						GAGGTCAATGTGAACTGGCTG	0.542													28	34	---	---	---	---	PASS	A	173730674	A	A	173730674	3	1	63	1	0	0	0	0	1	0	0	0	6225	1696	59	5	734	5	GALNTL6	4	173730674	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	62289461	173730674	17423602	90	24724										
CEP72	55722	broad.mit.edu	37	chr5	635485	635485	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tttatttacaatattttaatAgaatccagacatctgttgag	5	5	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:635485A>G	uc003jbf.2	+	6	764	c.692_splice	c.e6-2	p.E231_splice	CEP72_uc011clz.1_Splice_Site	NM_018140	NP_060610	Q9P209	CEP72_HUMAN	centrosomal protein 72 kDa						G2/M transition of mitotic cell cycle|gamma-tubulin complex localization|spindle organization	centrosome|cytosol				ovary(1)	1			Epithelial(17;0.000339)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|Lung(60;0.0863)			ATATTTTAATAGAATCCAGAC	0.393													13	26	---	---	---	---	PASS	G	635485	G	G	635485	5	3	63	1	0	0	0	0	0	0	1	0	3260	434	15	5	712	5	CEP72	5	635485	Splice_Site	SNP	A	TCGA-34-2596-01A-01D-1522-08		635485	180279775	91	24725										
NUP155	9631	broad.mit.edu	37	chr5	37307492	37307492	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cttgaggatcttttttctctGcagccgtaagagaaagttcc	9	9	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:37307492G>A	uc003jku.1	-	25	2928	c.2810C>T	c.(2809-2811)GCA>GTA	p.A937V	NUP155_uc003jkt.1_Missense_Mutation_p.A878V|NUP155_uc010iuz.1_Missense_Mutation_p.A873V	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	937					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TTTTTTCTCTGCAGCCGTAAG	0.398													47	95	---	---	---	---	PASS	A	37307492	A	A	37307492	3	1	63	1	0	0	0	0	1	0	0	0	10756	1319	46	3	1409	3	NUP155	5	37307492	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	36672007	37307492	143607768	92	24726										
C6	729	broad.mit.edu	37	chr5	41160404	41160404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcatactcttgcaaagctttCctgaggttgttccgttttgt	9	9	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:41160404C>A	uc003jmk.2	-	11	1734	c.1524G>T	c.(1522-1524)AGG>AGT	p.R508S	C6_uc003jml.1_Missense_Mutation_p.R508S	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	508	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				GCAAAGCTTTCCTGAGGTTGT	0.522													53	128	---	---	---	---	PASS	A	41160404	A	A	41160404	3	1	63	1	0	0	0	0	1	0	0	0	2315	854	30	2	1312	2	C6	5	41160404	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	3852912	41160404	139754856	93	24727										
ZNF131	7690	broad.mit.edu	37	chr5	43175067	43175067	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcagatttggaccacgtgacCccagaaatcatgaaccaaga	9	11	1	5			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:43175067C>A	uc011cpw.1	+	7	1740	c.1704C>A	c.(1702-1704)ACC>ACA	p.T568T	ZNF131_uc003jnj.3_Silent_p.T289T|ZNF131_uc003jnk.2_Silent_p.T534T|ZNF131_uc003jnn.3_Silent_p.T289T|ZNF131_uc003jnl.1_Intron|ZNF131_uc010ivm.1_Intron	NM_003432	NP_003423	P52739	ZN131_HUMAN	zinc finger protein 131	568						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ACCACGTGACCCCAGAAATCA	0.483													30	91	---	---	---	---	PASS	A	43175067	A	A	43175067	2	1	63	1	0	0	0	0	0	0	0	1	17718	610	22	3		3	ZNF131	5	43175067	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	2014663	43175067	137740193	94	24728										
MAN2A1	4124	broad.mit.edu	37	chr5	109106207	109106207	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggttgtccctggggagtcccCccagaaacaatacatcctgg	11	13	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:109106207C>T	uc003kou.1	+	7	2124	c.1161C>T	c.(1159-1161)CCC>CCT	p.P387P		NM_002372	NP_002363	Q16706	MA2A1_HUMAN	mannosidase, alpha, class 2A, member 1	387	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(142;8.66e-07)|all_epithelial(76;7.73e-09)|Prostate(80;0.000303)|Lung NSC(167;0.0186)|all_lung(232;0.0241)|Ovarian(225;0.0444)|Colorectal(57;0.0959)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;2.17e-10)|Epithelial(69;1.37e-09)|COAD - Colon adenocarcinoma(37;0.141)		GGGGAGTCCCCCCAGAAACAA	0.433													58	80	---	---	---	---	PASS	T	109106207	T	T	109106207	2	4	63	1	0	0	0	0	0	0	0	1	9214	610	22	3		3	MAN2A1	5	109106207	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	65931140	109106207	71809053	95	24729										
CXCL14	9547	broad.mit.edu	37	chr5	134910301	134910301	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgttgtaccacttgatgaagCgcttggtgctctgcagcttg	12	10	1	2	rs139612389		TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:134910301C>T	uc003lay.2	-	3	746	c.281G>A	c.(280-282)CGC>CAC	p.R94H		NM_004887	NP_004878	O95715	CXL14_HUMAN	small inducible cytokine B14 precursor	94					cell-cell signaling|chemotaxis|immune response|signal transduction	extracellular space|Golgi apparatus	chemokine activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CTTGATGAAGCGCTTGGTGCT	0.572													26	45	---	---	---	---	PASS	T	134910301	T	T	134910301	3	4	63	1	0	0	0	0	1	0	0	0	4082	768	27	1	62	1	CXCL14	5	134910301	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	25804094	134910301	46004959	96	24730										
PCDHB12	56124	broad.mit.edu	37	chr5	140590646	140590646	+	Frame_Shift_Del	DEL	G	-	-													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggagcagggcggccccggtcGgtcgctgctcggtgcctgag							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:140590646delG	uc003liz.2	+	1	2356	c.2167delG	c.(2167-2169)GGTfs	p.G723fs	PCDHB12_uc011dak.1_Frame_Shift_Del_p.G386fs|PCDHB13_uc003lja.1_5'Flank	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	723	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCCCCGGTCGGTCGCTGCTC	0.662													106	58	---	---	---	---		-	140590646	-	-	140590646	7	5	63	1	0	1	0	1	0	0	0	0	11537	1116	39	0	2169	0	PCDHB12	5	140590646	Frame_Shift_Del	DEL	G	TCGA-34-2596-01A-01D-1522-08	5680345	140590646	40324614	97	24731										
PCDHGA8	9708	broad.mit.edu	37	chr5	140774454	140774454	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	acgattcgagccttacactcTatctcgtggtggcagtggct	11	11	2	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:140774454T>C	uc003lkd.1	+	1	2972	c.2074T>C	c.(2074-2076)TAT>CAT	p.Y692H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.Y692H	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	692	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTTACACTCTATCTCGTGGT	0.612													9	13	---	---	---	---	PASS	C	140774454	C	C	140774454	3	2	63	1	0	0	0	0	1	0	0	0	11560	1522	53	5	2076	5	PCDHGA8	5	140774454	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	183808	140774454	40140806	98	24732										
PRELID2	153768	broad.mit.edu	37	chr5	145199571	145199571	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctctttctgtagatgaccccTgttgattcatctaaaaaaga	6	9	4	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:145199571T>C	uc003lnp.1	-	3	197	c.144A>G	c.(142-144)ACA>ACG	p.T48T	PRELID2_uc003lnq.1_Silent_p.T48T|PRELID2_uc003lno.1_Silent_p.T19T|PRELID2_uc003lnr.1_Silent_p.T48T	NM_182960	NP_892005	Q8N945	PRLD2_HUMAN	PRELI domain containing 2 isoform a	48	PRELI/MSF1.										0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGATGACCCCTGTTGATTCAT	0.313													93	100	---	---	---	---	PASS	C	145199571	C	C	145199571	2	2	63	1	0	0	0	0	0	0	0	1	12472	1567	55	5		5	PRELID2	5	145199571	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	4425117	145199571	35715689	99	24733										
SH3RF2	153769	broad.mit.edu	37	chr5	145439657	145439657	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cagtgaggcctggatccactCcgcggccagctccctcatta	10	16	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:145439657C>T	uc003lnt.2	+	9	2022	c.1784C>T	c.(1783-1785)TCC>TTC	p.S595F	SH3RF2_uc011dbl.1_Missense_Mutation_p.S595F|SH3RF2_uc011dbm.1_Missense_Mutation_p.S80F|SH3RF2_uc003lnu.2_Missense_Mutation_p.S86F|SH3RF2_uc011dbn.1_Missense_Mutation_p.S86F|SH3RF2_uc011dbo.1_Missense_Mutation_p.S52F	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	595							ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGGATCCACTCCGCGGCCAGC	0.627													31	30	---	---	---	---	PASS	T	145439657	T	T	145439657	3	4	63	1	0	0	0	0	1	0	0	0	14259	855	30	2	1814	2	SH3RF2	5	145439657	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	240086	145439657	35475603	100	24734										
GPR151	134391	broad.mit.edu	37	chr5	145895656	145895656	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	atgctgctggagttagagtcTgcaaaggcagctgccagcat	13	9	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:145895656T>C	uc003lod.1	-	1	21	c.21A>G	c.(19-21)GCA>GCG	p.A7A		NM_194251	NP_919227	Q8TDV0	GP151_HUMAN	G protein-coupled receptor 151	7	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGTTAGAGTCTGCAAAGGCAG	0.488													60	70	---	---	---	---	PASS	C	145895656	C	C	145895656	2	2	63	1	0	0	0	0	0	0	0	1	6657	1567	55	5		5	GPR151	5	145895656	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	455999	145895656	35019604	101	24735										
C5orf41	153222	broad.mit.edu	37	chr5	172539351	172539351	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcccagtatgaagctaataaAgtgaaattatggggcctcaa	10	7	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:172539351A>T	uc003mch.2	+	7	1954	c.1650A>T	c.(1648-1650)AAA>AAT	p.K550N	C5orf41_uc011dfd.1_Missense_Mutation_p.K550N	NM_153607	NP_705835	Q8IUR6	CE041_HUMAN	luman-recruiting factor	550							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AAGCTAATAAAGTGAAATTAT	0.338													42	84	---	---	---	---	PASS	T	172539351	T	T	172539351	3	4	63	1	0	0	0	0	1	0	0	0	2300	69	3	5	1704	5	C5orf41	5	172539351	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	26643695	172539351	8375909	102	24736										
GRM6	2916	broad.mit.edu	37	chr5	178418943	178418943	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctcggaggccagcgtggacaCatagttccatcccagtgccc	11	15	0	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:178418943C>A	uc003mjr.2	-	2	825	c.646G>T	c.(646-648)GTG>TTG	p.V216L	GRM6_uc010jla.1_5'Flank|GRM6_uc003mjs.1_5'Flank	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	216	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		AGCGTGGACACATAGTTCCAT	0.627													21	25	---	---	---	---	PASS	A	178418943	A	A	178418943	3	1	63	1	0	0	0	0	1	0	0	0	6801	478	17	3	2023	3	GRM6	5	178418943	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	5879592	178418943	2496317	103	24737										
RASGEF1C	255426	broad.mit.edu	37	chr5	179554659	179554659	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aaaggcctggacaaactcctCaggcccgatgtgccgcagcc	11	15	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr5:179554659C>G	uc003mlq.2	-	5	961	c.664G>C	c.(664-666)GAG>CAG	p.E222Q	RASGEF1C_uc003mlr.2_Missense_Mutation_p.E222Q|RASGEF1C_uc003mlp.3_Missense_Mutation_p.E71Q	NM_175062	NP_778232	Q8N431	RGF1C_HUMAN	RasGEF domain family, member 1C	222	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(89;3.44e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0242)|Medulloblastoma(196;0.00498)|all_neural(177;0.0137)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACAAACTCCTCAGGCCCGATG	0.612													13	16	---	---	---	---	PASS	G	179554659	G	G	179554659	3	3	63	1	0	0	0	0	1	0	0	0	13071	835	29	2	772	2	RASGEF1C	5	179554659	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	1135716	179554659	1360601	104	24738										
TAPBP	6892	broad.mit.edu	37	chr6	33281012	33281012	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	acctgttgccatggtgatgaGaacaggctcctgctgaggct	13	10	0	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr6:33281012G>C	uc003odx.1	-	3	622	c.451C>G	c.(451-453)CTC>GTC	p.L151V	TAPBP_uc010jus.1_Missense_Mutation_p.L151V|TAPBP_uc003ody.2_Missense_Mutation_p.L151V|TAPBP_uc003odz.2_Missense_Mutation_p.L151V|TAPBP_uc010jut.1_Intron|TAPBP_uc011drc.1_Missense_Mutation_p.L151V	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	151	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1						ATGGTGATGAGAACAGGCTCC	0.473													34	74	---	---	---	---	PASS	C	33281012	C	C	33281012	3	2	63	1	0	0	0	0	1	0	0	0	15549	942	33	2	1099	2	TAPBP	6	33281012	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08		33281012	137834055	105	24739										
SPDEF	25803	broad.mit.edu	37	chr6	34508830	34508830	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgagcgctggcggaactgctCctccgacatggcgcacagct	13	15	0	0	rs138933709		TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr6:34508830C>A	uc003ojq.1	-	3	980	c.565G>T	c.(565-567)GAG>TAG	p.E189*	SPDEF_uc011dsq.1_Nonsense_Mutation_p.E189*	NM_012391	NP_036523	O95238	SPDEF_HUMAN	SAM pointed domain containing ets transcription	189	PNT.				negative regulation of survival gene product expression|negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(3)|ovary(1)|central_nervous_system(1)	5						CGGAACTGCTCCTCCGACATG	0.662													13	9	---	---	---	---	PASS	A	34508830	A	A	34508830	4	1	63	1	0	0	0	0	0	1	0	0	15025	864	30	2	458	2	SPDEF	6	34508830	Nonsense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	1227818	34508830	136606237	106	24740										
SLC22A7	10864	broad.mit.edu	37	chr6	43267162	43267162	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgagcagaaaggtctgaacaGagctgcgtccactttcttct	10	10	3	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr6:43267162G>C	uc003out.2	+	3	533	c.434G>C	c.(433-435)AGA>ACA	p.R145T	SLC22A7_uc010jyl.1_Missense_Mutation_p.R143T|SLC22A7_uc003ous.2_Missense_Mutation_p.R143T	NM_153320	NP_696961	Q9Y694	S22A7_HUMAN	solute carrier family 22 member 7 isoform b	145						basolateral plasma membrane|integral to plasma membrane|membrane fraction	anion:anion antiporter activity|sodium-independent organic anion transmembrane transporter activity				0			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00998)|OV - Ovarian serous cystadenocarcinoma(102;0.0305)			GGTCTGAACAGAGCTGCGTCC	0.572													28	51	---	---	---	---	PASS	C	43267162	C	C	43267162	3	2	63	1	0	0	0	0	1	0	0	0	14459	942	33	2	440	2	SLC22A7	6	43267162	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	8758332	43267162	127847905	107	24741										
LGSN	51557	broad.mit.edu	37	chr6	63990303	63990303	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	acagctgttgtcattgtatcCccatgttgtaggcacactct	8	11	2	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr6:63990303C>G	uc003peh.2	-	4	1187	c.1153G>C	c.(1153-1155)GGA>CGA	p.G385R	LGSN_uc003pei.2_3'UTR	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	385					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	TCATTGTATCCCCATGTTGTA	0.463													103	178	---	---	---	---	PASS	G	63990303	G	G	63990303	3	3	63	1	0	0	0	0	1	0	0	0	8759	632	22	4	380	4	LGSN	6	63990303	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	20723141	63990303	107124764	108	24742										
COL19A1	1310	broad.mit.edu	37	chr6	70852701	70852701	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ccatgggacccagaggaccgCcaggagatgttgtatgtata	13	9	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr6:70852701C>A	uc003pfc.1	+	23	1732	c.1615C>A	c.(1615-1617)CCA>ACA	p.P539T	COL19A1_uc010kam.1_Missense_Mutation_p.P435T	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	539	Triple-helical region 3 (COL3).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CAGAGGACCGCCAGGAGATGT	0.358													56	50	---	---	---	---	PASS	A	70852701	A	A	70852701	3	1	63	1	0	0	0	0	1	0	0	0	3676	739	26	3	1701	3	COL19A1	6	70852701	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	6862398	70852701	100262366	109	24743										
EPHA7	2045	broad.mit.edu	37	chr6	93967179	93967179	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gtggatcactttggtacttaCcctgagaaatgcatctaggg	11	8	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr6:93967179C>A	uc003poe.2	-	12	2413	c.2172_splice	c.e12+1	p.R724_splice	EPHA7_uc003pof.2_Splice_Site_p.R719_splice|EPHA7_uc011eac.1_Splice_Site_p.R720_splice	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor							integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		TTGGTACTTACCCTGAGAAAT	0.318													35	45	---	---	---	---	PASS	A	93967179	A	A	93967179	5	1	63	1	0	0	0	0	0	0	1	0	5172	521	18	3	847	3	EPHA7	6	93967179	Splice_Site	SNP	C	TCGA-34-2596-01A-01D-1522-08	23114478	93967179	77147888	110	24744										
FNDC1	84624	broad.mit.edu	37	chr6	159653353	159653353	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gtagataagcctggcttttcCctggccacgcagccccgccc	10	17	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr6:159653353C>T	uc010kjv.2	+	11	2009	c.1809C>T	c.(1807-1809)TCC>TCT	p.S603S	FNDC1_uc010kjw.1_Silent_p.S488S	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	603						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		CTGGCTTTTCCCTGGCCACGC	0.701													15	13	---	---	---	---	PASS	T	159653353	T	T	159653353	2	4	63	1	0	0	0	0	0	0	0	1	5968	610	22	3		3	FNDC1	6	159653353	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	65686174	159653353	11461714	111	24745										
SLC22A2	6582	broad.mit.edu	37	chr6	160679418	160679418	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggcgtctcgtacacccagccGtcccggcaggggcccagtgg	15	16	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr6:160679418G>A	uc003qtf.2	-	1	542	c.372C>T	c.(370-372)GAC>GAT	p.D124D	SLC22A2_uc003qte.1_Silent_p.D124D|SLC22A2_uc003qth.1_Silent_p.D124D	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	124	Extracellular (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		ACACCCAGCCGTCCCGGCAGG	0.627													39	71	---	---	---	---	PASS	A	160679418	A	A	160679418	2	1	63	1	0	0	0	0	0	0	0	1	14450	1136	40	1		1	SLC22A2	6	160679418	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	1026065	160679418	10435649	112	24746										
THBS2	7058	broad.mit.edu	37	chr6	169648567	169648567	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgtacatccggctcttttccGcctgcaggtgctcgtagaag	11	13	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr6:169648567G>T	uc003qwt.2	-	4	802	c.554C>A	c.(553-555)GCG>GAG	p.A185E		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	185	TSP N-terminal.|Heparin-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		GCTCTTTTCCGCCTGCAGGTG	0.617													88	90	---	---	---	---	PASS	T	169648567	T	T	169648567	3	4	63	1	0	0	0	0	1	0	0	0	15851	1087	38	1	3044	1	THBS2	6	169648567	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	8969149	169648567	1466500	113	24747										
DLL1	28514	broad.mit.edu	37	chr6	170597490	170597490	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cggtaggagtacttgaggtcCgtgcggccgctgctgtgcag	17	10	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr6:170597490C>T	uc003qxm.2	-	4	977	c.507G>A	c.(505-507)ACG>ACA	p.T169T	DLL1_uc011ehc.1_Silent_p.T169T	NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	169	Extracellular (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		ACTTGAGGTCCGTGCGGCCGC	0.627													31	36	---	---	---	---	PASS	T	170597490	T	T	170597490	2	4	63	1	0	0	0	0	0	0	0	1	4566	639	23	1		1	DLL1	6	170597490	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	948923	170597490	517577	114	24748										
HDAC9	9734	broad.mit.edu	37	chr7	18767272	18767272	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgctggctgcggttggcatgGatggattagagaaacaccgt	15	8	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:18767272G>C	uc003suh.2	+	12	1833	c.1792G>C	c.(1792-1794)GAT>CAT	p.D598H	HDAC9_uc003sue.2_Missense_Mutation_p.D598H|HDAC9_uc011jyd.1_Missense_Mutation_p.D598H|HDAC9_uc003sui.2_Missense_Mutation_p.D601H|HDAC9_uc003suj.2_Missense_Mutation_p.D557H|HDAC9_uc003sua.1_Missense_Mutation_p.D576H|HDAC9_uc010kue.1_Missense_Mutation_p.D253H	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	598					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	GGTTGGCATGGATGGATTAGA	0.582													9	27	---	---	---	---	PASS	C	18767272	C	C	18767272	3	2	63	1	0	0	0	0	1	0	0	0	7014	1174	41	2	1898	2	HDAC9	7	18767272	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08		18767272	140371391	115	24749										
DNAH11	8701	broad.mit.edu	37	chr7	21747435	21747435	+	Missense_Mutation	SNP	G	C	C													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tttcatacatcatgctacccGagaatggaaagatggcaagt							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:21747435G>C	uc003svc.2	+	41	6717	c.6686G>C	c.(6685-6687)CGA>CCA	p.R2229P		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2229	AAA 2 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CATGCTACCCGAGAATGGAAA	0.373									Kartagener_syndrome				18	75	---	---	---	---	PASS	C	21747435	C	C	21747435	3	2	63	1	0	0	0	0	1	0	0	0	4599	1058	37	2	6845	2	DNAH11	7	21747435	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	2980163	21747435	137391228	116	24750	532	2								
DNAH11	8701	broad.mit.edu	37	chr7	21747436	21747436	+	Silent	SNP	A	T	T													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttcatacatcatgctacccgAgaatggaaagatggcaagta							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:21747436A>T	uc003svc.2	+	41	6718	c.6687A>T	c.(6685-6687)CGA>CGT	p.R2229R		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2229	AAA 2 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						ATGCTACCCGAGAATGGAAAG	0.373									Kartagener_syndrome				18	74	---	---	---	---	PASS	T	21747436	T	T	21747436	2	4	63	1	0	0	0	0	0	0	0	1	4599	291	11	5		5	DNAH11	7	21747436	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	1	21747436	137391227	117	24751	532	2								
KLHL7	55975	broad.mit.edu	37	chr7	23205516	23205516	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agacagccttgctgcatgtgCtgcagaaggcaaaatttata	10	8	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:23205516C>T	uc003svs.3	+	8	1429	c.1136C>T	c.(1135-1137)GCT>GTT	p.A379V	KLHL7_uc003svr.3_Missense_Mutation_p.A357V|KLHL7_uc011jys.1_Missense_Mutation_p.A303V|KLHL7_uc011jyt.1_Missense_Mutation_p.A154V|KLHL7_uc003svt.2_Missense_Mutation_p.A331V|KLHL7_uc011jyv.1_Missense_Mutation_p.A154V	NM_001031710	NP_001026880	Q8IXQ5	KLHL7_HUMAN	kelch-like 7 isoform 1	379	Kelch 2.					Golgi apparatus|nucleolus|plasma membrane					0						GCTGCATGTGCTGCAGAAGGC	0.438													90	112	---	---	---	---	PASS	T	23205516	T	T	23205516	3	4	63	1	0	0	0	0	1	0	0	0	8394	797	28	3	1229	3	KLHL7	7	23205516	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	1458080	23205516	135933147	118	24752										
CCM2	83605	broad.mit.edu	37	chr7	45113885	45113885	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcagctgcgcaccaagctgtCatcacaggagatccagcagt	11	13	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:45113885C>T	uc003tmo.2	+	9	1078	c.932C>T	c.(931-933)TCA>TTA	p.S311L	CCM2_uc003tmn.2_RNA|CCM2_uc003tmp.2_Missense_Mutation_p.S253L|CCM2_uc003tmq.2_RNA|CCM2_uc003tmr.2_Missense_Mutation_p.S220L|CCM2_uc003tms.2_Missense_Mutation_p.S332L	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2	311					endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						ACCAAGCTGTCATCACAGGAG	0.607									Familial_Cerebral_Cavernous_Angioma				29	53	---	---	---	---	PASS	T	45113885	T	T	45113885	3	4	63	1	0	0	0	0	1	0	0	0	2908	838	29	2	1063	2	CCM2	7	45113885	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	21908369	45113885	114024778	119	24753										
DDC	1644	broad.mit.edu	37	chr7	50530953	50530953	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tccctctctgctcgcagcacGtcggccgccagctctttgat	9	17	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:50530953G>T	uc003tpf.3	-	14	1505	c.1419C>A	c.(1417-1419)GAC>GAA	p.D473E	DDC_uc010kza.2_Missense_Mutation_p.D388E|DDC_uc003tpg.3_Missense_Mutation_p.D473E	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	473					cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	CTCGCAGCACGTCGGCCGCCA	0.597													12	22	---	---	---	---	PASS	T	50530953	T	T	50530953	3	4	63	1	0	0	0	0	1	0	0	0	4325	1136	40	1	27	1	DDC	7	50530953	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	5417068	50530953	108607710	120	24754										
SEC61G	23480	broad.mit.edu	37	chr7	54823501	54823501	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttattaataggaatatggatCaatttcacaaagaagccaat	6	5	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:54823501C>G	uc003tqf.2	-	3	259	c.168G>C	c.(166-168)TTG>TTC	p.L56F	SEC61G_uc003tqg.2_Missense_Mutation_p.L56F	NM_001012456	NP_001012474	P60059	SC61G_HUMAN	Sec61 gamma subunit	56	Helical; (Potential).				protein targeting to ER	endoplasmic reticulum membrane|integral to membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity			lung(1)	1	Esophageal squamous(2;7.55e-08)|Breast(14;0.0654)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)			GAATATGGATCAATTTCACAA	0.323													5	178	---	---	---	---	PASS	G	54823501	G	G	54823501	3	3	63	1	0	0	0	0	1	0	0	0	14003	825	29	2	46	2	SEC61G	7	54823501	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	4292548	54823501	104315162	121	24755										
ZNF804B	219578	broad.mit.edu	37	chr7	88964016	88964016	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctttcagtgcaaatgatttgGaaatgaaaaatcctaaagtg	8	5	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:88964016G>T	uc011khi.1	+	4	2258	c.1720G>T	c.(1720-1722)GAA>TAA	p.E574*		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	574						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AAATGATTTGGAAATGAAAAA	0.353										HNSCC(36;0.09)			41	112	---	---	---	---	PASS	T	88964016	T	T	88964016	4	4	63	1	0	0	0	0	0	1	0	0	18168	1175	41	2	1734	2	ZNF804B	7	88964016	Nonsense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	34140515	88964016	70174647	122	24756										
CALCR	799	broad.mit.edu	37	chr7	93106944	93106944	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cagccggtgtgtcatcccagCacagccatccatcccaggtg	10	16	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:93106944C>T	uc003umv.1	-	5	557	c.296G>A	c.(295-297)TGC>TAC	p.C99Y	CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.C81Y|CALCR_uc003umw.2_Missense_Mutation_p.C81Y	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	81	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	GTCATCCCAGCACAGCCATCC	0.413													26	64	---	---	---	---	PASS	T	93106944	T	T	93106944	3	4	63	1	0	0	0	0	1	0	0	0	2579	710	25	3	1274	3	CALCR	7	93106944	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	4142928	93106944	66031719	123	24757										
EPO	2056	broad.mit.edu	37	chr7	100319236	100319236	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctgtcgctccctctgggcctCccagtcctgggcgccccacc	10	21	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:100319236C>G	uc003uwi.2	+	2	250	c.69C>G	c.(67-69)CTC>CTG	p.L23L	EPO_uc011kkc.1_Silent_p.L23L	NM_000799	NP_000790	P01588	EPO_HUMAN	erythropoietin precursor	23					blood circulation|cellular hyperosmotic response|erythrocyte maturation|negative regulation of apoptosis|negative regulation of ion transmembrane transporter activity|negative regulation of sodium ion transport|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of Stat5 protein|signal transduction	extracellular space	erythropoietin receptor binding|eukaryotic cell surface binding|hormone activity			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Darbepoetin alfa(DB00012)|Epoetin alfa(DB00016)	CTCTGGGCCTCCCAGTCCTGG	0.632													12	44	---	---	---	---	PASS	G	100319236	G	G	100319236	2	3	63	1	0	0	0	0	0	0	0	1	5188	842	30	2		2	EPO	7	100319236	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	7212292	100319236	58819427	124	24758										
RELN	5649	broad.mit.edu	37	chr7	103206705	103206705	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aatatcagagcagtatccatAgagagacagtcaatatcaac	7	8	3	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:103206705A>G	uc003vca.2	-	33	5062	c.4902T>C	c.(4900-4902)TCT>TCC	p.S1634S	RELN_uc010liz.2_Silent_p.S1634S	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1634					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CAGTATCCATAGAGAGACAGT	0.358													7	132	---	---	---	---	PASS	G	103206705	G	G	103206705	2	3	63	1	0	0	0	0	0	0	0	1	13220	407	15	5		5	RELN	7	103206705	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	2887469	103206705	55931958	125	24759										
ZNF277	11179	broad.mit.edu	37	chr7	111936011	111936011	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	attaattccactgctccattTggtaagtgtacatcttggct	7	9	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:111936011T>C	uc003vge.2	+	3	510	c.381T>C	c.(379-381)TTT>TTC	p.F127F	ZNF277_uc003vgd.2_Silent_p.F127F|ZNF277_uc003vgf.2_Silent_p.F49F|ZNF277_uc003vgg.2_5'UTR	NM_021994	NP_068834	Q9NRM2	ZN277_HUMAN	zinc finger protein (C2H2 type) 277	127						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(2)	4						CTGCTCCATTTGGTAAGTGTA	0.313													5	218	---	---	---	---	PASS	C	111936011	C	C	111936011	2	2	63	1	0	0	0	0	0	0	0	1	17809	1826	63	5		5	ZNF277	7	111936011	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	8729306	111936011	47202652	126	24760										
TRIM24	8805	broad.mit.edu	37	chr7	138252398	138252398	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggctcaacaagccataaaacAggtatatatctaccttcttt	5	10	3	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:138252398A>C	uc003vuc.2	+	10	1918	c.1703A>C	c.(1702-1704)CAG>CCG	p.Q568P	TRIM24_uc003vub.2_Missense_Mutation_p.Q534P	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	568					cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						GCCATAAAACAGGTATATATC	0.383													23	92	---	---	---	---	PASS	C	138252398	C	C	138252398	3	2	63	1	0	0	0	0	1	0	0	0	16495	202	7	5	1741	5	TRIM24	7	138252398	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	26316387	138252398	20886265	127	24761										
BRAF	673	broad.mit.edu	37	chr7	140494110	140494110	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcaatgctggatacttacatCaatattgacaggttctattg	8	7	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:140494110C>G	uc003vwc.3	-	8	1199	c.1138G>C	c.(1138-1140)GAT>CAT	p.D380H		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	380		Breakpoint for translocation to form KIAA1549-BRAF fusion protein.			activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	ATACTTACATCAATATTGACA	0.348		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				276	149	---	---	---	---	PASS	G	140494110	G	G	140494110	3	3	63	1	0	0	0	0	1	0	0	0	1496	826	29	2	1206	2	BRAF	7	140494110	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	2241712	140494110	18644553	128	24762										
SSBP1	6742	broad.mit.edu	37	chr7	141443496	141443496	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aggggatagtgaagtttaccAactgggtgagtacaaaagac	13	5	0	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:141443496A>T	uc003vwo.1	+	4	299	c.221A>T	c.(220-222)CAA>CTA	p.Q74L	SSBP1_uc011kri.1_Missense_Mutation_p.Q74L|SSBP1_uc010lnp.1_Missense_Mutation_p.Q74L	NM_003143	NP_003134	Q04837	SSBP_HUMAN	single-stranded DNA binding protein 1 precursor	74	SSB.				DNA replication|positive regulation of helicase activity	mitochondrial nucleoid	single-stranded DNA binding			ovary(1)	1	Melanoma(164;0.0171)					GAAGTTTACCAACTGGGTGAG	0.358													50	146	---	---	---	---	PASS	T	141443496	T	T	141443496	3	4	63	1	0	0	0	0	1	0	0	0	15178	130	5	5	231	5	SSBP1	7	141443496	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	949386	141443496	17695167	129	24763										
OR2A25	392138	broad.mit.edu	37	chr7	143771480	143771480	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctggactccagactccacacCcccatgtacttcttcctctc	4	19	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:143771480C>A	uc011ktx.1	+	1	168	c.168C>A	c.(166-168)ACC>ACA	p.T56T		NM_001004488	NP_001004488	A4D2G3	O2A25_HUMAN	olfactory receptor, family 2, subfamily A,	56	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					GACTCCACACCCCCATGTACT	0.572													92	108	---	---	---	---	PASS	A	143771480	A	A	143771480	2	1	63	1	0	0	0	0	0	0	0	1	10978	610	22	3		3	OR2A25	7	143771480	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	2327984	143771480	15367183	130	24764										
NOS3	4846	broad.mit.edu	37	chr7	150698697	150698697	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aggaagaagacctttaaagaAgtggccaagtgggtcccctg	13	8	0	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:150698697A>G	uc003wif.2	+	12	1790	c.1494A>G	c.(1492-1494)GAA>GAG	p.E498E	NOS3_uc011kuy.1_Silent_p.E292E|NOS3_uc011kuz.1_Silent_p.E498E|NOS3_uc011kva.1_Silent_p.E498E|NOS3_uc011kvb.1_Silent_p.E498E	NM_000603	NP_000594	P29474	NOS3_HUMAN	nitric oxide synthase 3 isoform 1	498	Calmodulin-binding (Potential).				anti-apoptosis|arginine catabolic process|blood vessel remodeling|endothelial cell migration|mitochondrion organization|negative regulation of muscle hyperplasia|negative regulation of platelet activation|nitric oxide biosynthetic process|platelet activation|positive regulation of angiogenesis|positive regulation of guanylate cyclase activity|positive regulation of vasodilation|regulation of blood vessel size|regulation of nitric-oxide synthase activity|regulation of systemic arterial blood pressure by endothelin|response to fluid shear stress|response to heat|smooth muscle hyperplasia	caveola|cytoskeleton|cytosol|Golgi membrane	actin monomer binding|arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			central_nervous_system(5)|large_intestine(2)|skin(1)	8	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	L-Arginine(DB00125)|L-Citrulline(DB00155)|Rosuvastatin(DB01098)|Tetrahydrobiopterin(DB00360)	CCTTTAAAGAAGTGGCCAAGT	0.652													92	157	---	---	---	---	PASS	G	150698697	G	G	150698697	2	3	63	1	0	0	0	0	0	0	0	1	10544	69	3	5		5	NOS3	7	150698697	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	6927217	150698697	8439966	131	24765										
WDR60	55112	broad.mit.edu	37	chr7	158704301	158704302	+	Frame_Shift_Ins	INS	-	T	T													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tttcatttactttctctctcINSttggatctaccaccagtaaa							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr7:158704301_158704302insT	uc003woe.3	+	12	1679_1680	c.1521_1522insT	c.(1519-1524)CTCTTGfs	p.L507fs	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Frame_Shift_Ins_p.L139fs	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	507_508										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		CTTTCTCTCTCTTGGATCTACC	0.322													77	55	---	---	---	---		T	158704302	T	T	158704301	7	5	63	1	0	1	1	0	0	0	0	0	17308	900	32	0	1567	0	WDR60	7	158704301	Frame_Shift_Ins	INS	-	TCGA-34-2596-01A-01D-1522-08	8005604	158704301	434362	132	24766										
KIF13B	23303	broad.mit.edu	37	chr8	28988108	28988108	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttgcagaaatcacttctacaGggcagtattcaccattctca	6	11	4	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr8:28988108G>T	uc003xhh.3	-	24	3076	c.3017C>A	c.(3016-3018)CCT>CAT	p.P1006H	uc003xhi.1_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1006					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		CACTTCTACAGGGCAGTATTC	0.423													4	147	---	---	---	---	PASS	T	28988108	T	T	28988108	3	4	63	1	0	0	0	0	1	0	0	0	8275	1000	35	3	2531	3	KIF13B	8	28988108	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08		28988108	117375914	133	24767										
ADAM9	8754	broad.mit.edu	37	chr8	38961179	38961179	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gggaaacttaattcctgcccGtcctgctcctgcacctcctt	7	16	0	0	rs147636313		TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr8:38961179G>A	uc003xmr.2	+	22	2498	c.2420G>A	c.(2419-2421)CGT>CAT	p.R807H	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_RNA|ADAM9_uc010lwr.2_RNA|ADAM9_uc003xms.2_RNA	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	807	Cytoplasmic (Potential).			Missing (in Ref. 2; no nucleotide entry).	activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			ATTCCTGCCCGTCCTGCTCCT	0.413													63	167	---	---	---	---	PASS	A	38961179	A	A	38961179	3	1	63	1	0	0	0	0	1	0	0	0	253	1145	40	1	2506	1	ADAM9	8	38961179	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	9973071	38961179	107402843	134	24768										
VCPIP1	80124	broad.mit.edu	37	chr8	67547090	67547090	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	atttcctgcaatttttttcgCtgggcctcaaccaaatcagg	7	11	2	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr8:67547090C>T	uc003xwn.2	-	3	3574	c.3315G>A	c.(3313-3315)CAG>CAA	p.Q1105Q		NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	1105					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			ATTTTTTTCGCTGGGCCTCAA	0.448													79	159	---	---	---	---	PASS	T	67547090	T	T	67547090	2	4	63	1	0	0	0	0	0	0	0	1	17138	796	28	3		3	VCPIP1	8	67547090	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	28585911	67547090	78816932	135	24769										
ARFGEF1	10565	broad.mit.edu	37	chr8	68140281	68140281	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gttgtaatatgatatttctaCtattttttgtagactaaaca	5	4	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr8:68140281C>G	uc003xxo.1	-	25	3898	c.3508G>C	c.(3508-3510)GTA>CTA	p.V1170L	ARFGEF1_uc003xxl.1_Missense_Mutation_p.V624L|ARFGEF1_uc003xxn.1_Missense_Mutation_p.V153L	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	1170					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GATATTTCTACTATTTTTTGT	0.328													20	159	---	---	---	---	PASS	G	68140281	G	G	68140281	3	3	63	1	0	0	0	0	1	0	0	0	852	565	20	4	2101	4	ARFGEF1	8	68140281	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	593191	68140281	78223741	136	24770										
KCNB2	9312	broad.mit.edu	37	chr8	73480279	73480279	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cttccattttaaatttctacCggaccgggaaactccatatg	6	11	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr8:73480279C>T	uc003xzb.2	+	2	898	c.310C>T	c.(310-312)CGG>TGG	p.R104W		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	104	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			AAATTTCTACCGGACCGGGAA	0.463													48	108	---	---	---	---	PASS	T	73480279	T	T	73480279	3	4	63	1	0	0	0	0	1	0	0	0	8013	643	23	1	312	1	KCNB2	8	73480279	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	5339998	73480279	72883743	137	24771										
PSKH2	85481	broad.mit.edu	37	chr8	87076470	87076470	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttcgactcttcacctggatgAtagtataagaggttttcagg	10	7	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr8:87076470A>G	uc011lfy.1	-	2	576	c.576T>C	c.(574-576)TAT>TAC	p.Y192Y		NM_033126	NP_149117	Q96QS6	KPSH2_HUMAN	protein serine kinase H2	192	Protein kinase.						ATP binding|protein serine/threonine kinase activity			stomach(2)|lung(2)|ovary(1)	5			STAD - Stomach adenocarcinoma(118;0.129)			CACCTGGATGATAGTATAAGA	0.433													14	146	---	---	---	---	PASS	G	87076470	G	G	87076470	2	3	63	1	0	0	0	0	0	0	0	1	12665	340	12	5		5	PSKH2	8	87076470	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	13596191	87076470	59287552	138	24772										
VPS13B	157680	broad.mit.edu	37	chr8	100779175	100779175	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agaattgtcttgaacagcagTcaaaatggagctgatgacca	10	7	2	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr8:100779175T>C	uc003yiv.2	+	40	7410	c.7299T>C	c.(7297-7299)AGT>AGC	p.S2433S	VPS13B_uc003yiw.2_Silent_p.S2408S	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2433					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TGAACAGCAGTCAAAATGGAG	0.353													37	64	---	---	---	---	PASS	C	100779175	C	C	100779175	2	2	63	1	0	0	0	0	0	0	0	1	17187	1664	58	5		5	VPS13B	8	100779175	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	13702705	100779175	45584847	139	24773										
RGS22	26166	broad.mit.edu	37	chr8	101105711	101105711	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tcattaaagtagtctacaagGaaatcatctgttgccagaga	8	7	4	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr8:101105711G>C	uc003yjb.1	-	3	276	c.81C>G	c.(79-81)TTC>TTG	p.F27L	RGS22_uc003yja.1_5'UTR|RGS22_uc003yjc.1_Missense_Mutation_p.F27L|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	27					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			AGTCTACAAGGAAATCATCTG	0.264													47	64	---	---	---	---	PASS	C	101105711	C	C	101105711	3	2	63	1	0	0	0	0	1	0	0	0	13305	1165	41	2	3813	2	RGS22	8	101105711	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	326536	101105711	45258311	140	24774										
TM7SF4	81501	broad.mit.edu	37	chr8	105361290	105361290	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cttgtttcttggaaccagacCctggcagtctctcttttcag	8	12	4	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr8:105361290C>A	uc003ylx.1	+	2	559	c.510C>A	c.(508-510)ACC>ACA	p.T170T		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	170					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GGAACCAGACCCTGGCAGTCT	0.453													79	129	---	---	---	---	PASS	A	105361290	A	A	105361290	2	1	63	1	0	0	0	0	0	0	0	1	15973	610	22	3		3	TM7SF4	8	105361290	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	4255579	105361290	41002732	141	24775										
NDRG1	10397	broad.mit.edu	37	chr8	134254284	134254284	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	actgtatcccatgccctgcaCgaagtacttgaaggcctcag	9	13	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr8:134254284C>T	uc003yuh.2	-	15	1511	c.925G>A	c.(925-927)GTG>ATG	p.V309M	NDRG1_uc003yue.1_Missense_Mutation_p.V24M|NDRG1_uc003yuf.1_Missense_Mutation_p.V120M|NDRG1_uc003yug.2_Missense_Mutation_p.V309M|NDRG1_uc010mee.2_Missense_Mutation_p.V228M|NDRG1_uc010mef.2_Missense_Mutation_p.V243M|NDRG1_uc011ljh.1_Missense_Mutation_p.V137M|NDRG1_uc011lji.1_Missense_Mutation_p.V56M|NDRG1_uc003yui.1_5'Flank	NM_001135242	NP_001128714	Q92597	NDRG1_HUMAN	N-myc downstream regulated 1	309					cellular response to hypoxia|response to metal ion	cytoplasm|microtubule cytoskeleton|nucleus|plasma membrane	protein binding			ovary(4)	4	all_epithelial(106;4.26e-24)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			ATGCCCTGCACGAAGTACTTG	0.587													20	39	---	---	---	---	PASS	T	134254284	T	T	134254284	3	4	63	1	0	0	0	0	1	0	0	0	10251	536	19	1	267	1	NDRG1	8	134254284	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	28892994	134254284	12109738	142	24776										
ZFAT	57623	broad.mit.edu	37	chr8	135490822	135490822	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ccgaggcctccccgccctgcGtgtagacagtcaccgtctca	10	18	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr8:135490822G>A	uc003yup.2	-	16	3810	c.3635C>T	c.(3634-3636)ACG>ATG	p.T1212M	ZFAT_uc011ljj.1_Missense_Mutation_p.T331M|ZFAT_uc003yun.2_Missense_Mutation_p.T1200M|ZFAT_uc003yuo.2_Missense_Mutation_p.T1200M|ZFAT_uc010meh.2_Missense_Mutation_p.T1114M|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.T1200M|ZFAT_uc010mej.2_Missense_Mutation_p.T1150M	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	1212					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			CCCGCCCTGCGTGTAGACAGT	0.652													2	2	---	---	---	---	PASS	A	135490822	A	A	135490822	3	1	63	1	0	0	0	0	1	0	0	0	17629	1145	40	1	100	1	ZFAT	8	135490822	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	1236538	135490822	10873200	143	24777										
FAM135B	51059	broad.mit.edu	37	chr8	139158241	139158241	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aggaagtccagttttcctccAgggagccccagttctatgaa	10	11	1	1	rs143974870		TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr8:139158241A>T	uc003yuy.2	-	15	3672	c.3501T>A	c.(3499-3501)CCT>CCA	p.P1167P	FAM135B_uc003yux.2_Silent_p.P1068P|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Silent_p.P729P|FAM135B_uc003yvb.2_Missense_Mutation_p.W695R	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1167										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)			GTTTTCCTCCAGGGAGCCCCA	0.448										HNSCC(54;0.14)			14	109	---	---	---	---	PASS	T	139158241	T	T	139158241	2	4	63	1	0	0	0	0	0	0	0	1	5449	175	7	5		5	FAM135B	8	139158241	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	3667419	139158241	7205781	144	24778										
CDKN2A	1029	broad.mit.edu	37	chr9	21971036	21971036	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gggcagacggccccaggcatCgcgcacgtccagccgcgccc	14	19	0	1	rs121913381		TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:21971036C>A	uc003zpk.2	-	2	534	c.322G>T	c.(322-324)GAT>TAT	p.D108Y	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.R163L	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	108			D -> Y (in a head and neck tumor).|D -> H (in a bladder tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.D108Y(14)|p.?(13)|p.D108H(9)|p.D108N(5)|p.H83fs*2(2)|p.D105fs*8(1)|p.A68fs*3(1)|p.R107fs*33(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCCCAGGCATCGCGCACGTCC	0.741		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			15	16	---	---	---	---	PASS	A	21971036	A	A	21971036	3	1	63	1	0	0	0	0	1	0	0	0	3161	884	31	2	156	2	CDKN2A	9	21971036	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08		21971036	119242395	145	24779										
TRPM3	80036	broad.mit.edu	37	chr9	73236184	73236184	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	attcccagcagtttcaaggcTttgggctgttaaaaaaaacg	9	8	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:73236184T>C	uc004aid.2	-	14	2023	c.1779A>G	c.(1777-1779)AAA>AAG	p.K593K	TRPM3_uc004ahu.2_Silent_p.K423K|TRPM3_uc004ahv.2_Intron|TRPM3_uc004ahw.2_Silent_p.K465K|TRPM3_uc004ahx.2_Silent_p.K452K|TRPM3_uc004ahy.2_Intron|TRPM3_uc004ahz.2_Intron|TRPM3_uc004aia.2_Silent_p.K440K|TRPM3_uc004aib.2_Intron|TRPM3_uc004aic.2_Silent_p.K593K	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	618	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GTTTCAAGGCTTTGGGCTGTT	0.264													23	63	---	---	---	---	PASS	C	73236184	C	C	73236184	2	2	63	1	0	0	0	0	0	0	0	1	16584	1606	56	5		5	TRPM3	9	73236184	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	51265148	73236184	67977247	146	24780										
PRUNE2	158471	broad.mit.edu	37	chr9	79320513	79320513	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttgccacattttcaatccttGggattcttctgtcaactggt	7	10	4	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:79320513G>C	uc010mpk.2	-	8	6801	c.6677C>G	c.(6676-6678)CCA>CGA	p.P2226R	PRUNE2_uc004akj.3_5'Flank|PRUNE2_uc010mpl.1_5'Flank	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	2226					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TTCAATCCTTGGGATTCTTCT	0.423													57	130	---	---	---	---	PASS	C	79320513	C	C	79320513	3	2	63	1	0	0	0	0	1	0	0	0	12641	1348	47	4	2637	4	PRUNE2	9	79320513	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	6084329	79320513	61892918	147	24781										
C9orf79	286234	broad.mit.edu	37	chr9	90501062	90501062	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	catcttaccctacatcccagGagaggacacagtctgtcatc	7	14	3	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:90501062G>A	uc004app.3	+	4	1695	c.1660G>A	c.(1660-1662)GAG>AAG	p.E554K	C9orf79_uc004apo.1_Missense_Mutation_p.E366K	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	554						integral to membrane				ovary(3)	3						TACATCCCAGGAGAGGACACA	0.438													106	192	---	---	---	---	PASS	A	90501062	A	A	90501062	3	1	63	1	0	0	0	0	1	0	0	0	2497	1175	41	2	1674	2	C9orf79	9	90501062	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	11180549	90501062	50712369	148	24782										
DIRAS2	54769	broad.mit.edu	37	chr9	93375779	93375779	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	catgatggggatgctctccaCgtcccctttgatctcgcaga	10	13	2	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:93375779C>A	uc004aqx.1	-	2	442	c.331G>T	c.(331-333)GTG>TTG	p.V111L		NM_017594	NP_060064	Q96HU8	DIRA2_HUMAN	Di-Ras2	111					small GTPase mediated signal transduction	intracellular|plasma membrane	GTP binding|GTPase activity				0						ATGCTCTCCACGTCCCCTTTG	0.592													55	129	---	---	---	---	PASS	A	93375779	A	A	93375779	3	1	63	1	0	0	0	0	1	0	0	0	4531	536	19	1	272	1	DIRAS2	9	93375779	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	2874717	93375779	47837652	149	24783										
IARS	3376	broad.mit.edu	37	chr9	95050532	95050532	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gtccatagtgaggcagtccaGttgcaaaaggaggaccatca	12	9	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:95050532G>A	uc004art.1	-	3	409	c.152C>T	c.(151-153)ACT>ATT	p.T51I	IARS_uc004ars.1_5'UTR|IARS_uc004aru.3_Missense_Mutation_p.T51I|IARS_uc010mqr.2_Intron|IARS_uc010mqt.2_Silent_p.L7L	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	51	HIGH region.				isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	AGGCAGTCCAGTTGCAAAAGG	0.348													51	101	---	---	---	---	PASS	A	95050532	A	A	95050532	3	1	63	1	0	0	0	0	1	0	0	0	7473	1029	36	3	3764	3	IARS	9	95050532	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	1674753	95050532	46162899	150	24784										
COL15A1	1306	broad.mit.edu	37	chr9	101824556	101824556	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctgatccccattcctgccgaCagccctccaccccctgcgct	6	22	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:101824556C>A	uc004azb.1	+	38	3767	c.3561C>A	c.(3559-3561)GAC>GAA	p.D1187E		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1187	Nonhelical region 10 (NC10).			Missing (in Ref. 2; AAC78500).	angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				TTCCTGCCGACAGCCCTCCAC	0.433													42	109	---	---	---	---	PASS	A	101824556	A	A	101824556	3	1	63	1	0	0	0	0	1	0	0	0	3672	477	17	3	3711	3	COL15A1	9	101824556	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	6774024	101824556	39388875	151	24785										
KIAA0368	23392	broad.mit.edu	37	chr9	114184296	114184296	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	catcatagataaagcttcttGaatagcaagtcgagtctcag	8	8	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:114184296G>C	uc004bfe.1	-	16	1894	c.1894C>G	c.(1894-1896)CAA>GAA	p.Q632E	KIAA0368_uc010muc.1_Missense_Mutation_p.Q454E	NM_001080398	NP_001073867			KIAA0368 protein												0						AAAGCTTCTTGAATAGCAAGT	0.433													34	68	---	---	---	---	PASS	C	114184296	C	C	114184296	3	2	63	1	0	0	0	0	1	0	0	0	8171	1299	45	2	4303	2	KIAA0368	9	114184296	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	12359740	114184296	27029135	152	24786										
PAPPA	5069	broad.mit.edu	37	chr9	118997697	118997697	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gaatgtcttctgtgatgtccCactgaccatcagactctggg	10	11	4	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:118997697C>G	uc004bjn.2	+	7	2894	c.2513C>G	c.(2512-2514)CCA>CGA	p.P838R	PAPPA_uc011lxp.1_Missense_Mutation_p.P533R|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	838					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						TGTGATGTCCCACTGACCATC	0.532													16	41	---	---	---	---	PASS	G	118997697	G	G	118997697	3	3	63	1	0	0	0	0	1	0	0	0	11432	594	21	4	2539	4	PAPPA	9	118997697	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	4813401	118997697	22215734	153	24787										
OR1L4	254973	broad.mit.edu	37	chr9	125487040	125487040	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgttctatgggagtgtcatcTatgtctattttaggcctctg	10	7	5	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:125487040T>C	uc004bmu.1	+	1	772	c.772T>C	c.(772-774)TAT>CAT	p.Y258H		NM_001005235	NP_001005235	Q8NGR5	OR1L4_HUMAN	olfactory receptor, family 1, subfamily L,	258	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GAGTGTCATCTATGTCTATTT	0.517													66	161	---	---	---	---	PASS	C	125487040	C	C	125487040	3	2	63	1	0	0	0	0	1	0	0	0	10965	1522	53	5	774	5	OR1L4	9	125487040	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	6489343	125487040	15726391	154	24788										
STRBP	55342	broad.mit.edu	37	chr9	125898705	125898705	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cttccaccagtctctgagatGagttcatacttgagacctct	7	12	3	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:125898705G>A	uc004bns.2	-	15	2017	c.1587C>T	c.(1585-1587)CTC>CTT	p.L529L	STRBP_uc004bnt.2_Silent_p.L347L|STRBP_uc004bnu.2_Silent_p.L515L|STRBP_uc004bnv.2_Silent_p.L529L|STRBP_uc004bnr.2_Silent_p.L88L	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	529	DRBM 2.				multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2						TCTCTGAGATGAGTTCATACT	0.443													5	198	---	---	---	---	PASS	A	125898705	A	A	125898705	2	1	63	1	0	0	0	0	0	0	0	1	15326	1277	45	2		2	STRBP	9	125898705	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	411665	125898705	15314726	155	24789										
FAM78A	286336	broad.mit.edu	37	chr9	134136488	134136488	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gtgttggtggccaccagccaGgtggtgaagctctggtcccg	16	11	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:134136488G>C	uc004cak.2	-	2	913	c.573C>G	c.(571-573)ACC>ACG	p.T191T	FAM78A_uc004caj.2_Silent_p.T188T	NM_033387	NP_203745	Q5JUQ0	FA78A_HUMAN	hypothetical protein LOC286336	191										ovary(1)	1	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.15e-05)|Epithelial(140;0.000267)		CCACCAGCCAGGTGGTGAAGC	0.602													33	110	---	---	---	---	PASS	C	134136488	C	C	134136488	2	2	63	1	0	0	0	0	0	0	0	1	5626	987	35	4		4	FAM78A	9	134136488	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	8237783	134136488	7076943	156	24790										
SETX	23064	broad.mit.edu	37	chr9	135202804	135202804	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctcctgtacaattataatctGacctatcagattctggtaca	5	10	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr9:135202804G>A	uc004cbk.2	-	10	4364	c.4181C>T	c.(4180-4182)TCA>TTA	p.S1394L	SETX_uc004cbj.2_Missense_Mutation_p.S1013L|SETX_uc010mzt.2_Missense_Mutation_p.S1013L	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1394					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		ATTATAATCTGACCTATCAGA	0.363													118	208	---	---	---	---	PASS	A	135202804	A	A	135202804	3	1	63	1	0	0	0	0	1	0	0	0	14141	1294	45	2	3920	2	SETX	9	135202804	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	1066316	135202804	6010627	157	24791										
ANKRD26	22852	broad.mit.edu	37	chr10	27324214	27324214	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agaatctcattgttatctttTaggttagacacatcaaaatt	5	6	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr10:27324214T>C	uc001ith.2	-	24	3334	c.3162A>G	c.(3160-3162)CTA>CTG	p.L1054L	ANKRD26_uc001itg.2_Silent_p.L741L|ANKRD26_uc009xku.1_Silent_p.L1055L	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1054	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TGTTATCTTTTAGGTTAGACA	0.353													60	75	---	---	---	---	PASS	C	27324214	C	C	27324214	2	2	63	1	0	0	0	0	0	0	0	1	654	1741	61	5		5	ANKRD26	10	27324214	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08		27324214	108210533	158	24792										
C10orf27	219793	broad.mit.edu	37	chr10	72535011	72535011	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gtctgtttccaggatccgacAcaggagctccaggacctgtg	12	12	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr10:72535011A>G	uc001jrj.1	-	8	1096	c.706T>C	c.(706-708)TGT>CGT	p.C236R	C10orf27_uc010qjm.1_Missense_Mutation_p.C237R|C10orf27_uc009xqh.1_Intron|C10orf27_uc010qjn.1_Missense_Mutation_p.C235R|C10orf27_uc009xqi.1_RNA	NM_152710	NP_689923	Q96M53	SPATL_HUMAN	stromal protein associated with thymii and lymph	236					cell differentiation|multicellular organismal development|spermatogenesis	cytosol				skin(1)	1						AGGATCCGACACAGGAGCTCC	0.592													10	30	---	---	---	---	PASS	G	72535011	G	G	72535011	3	3	63	1	0	0	0	0	1	0	0	0	1600	159	6	5	365	5	C10orf27	10	72535011	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	45210797	72535011	62999736	159	24793										
CDH23	64072	broad.mit.edu	37	chr10	73571742	73571742	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cttcatcgacatcatggacaTgcctaacaccaacaagtact	5	13	2	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr10:73571742T>C	uc001jrx.3	+	64	9727	c.9350T>C	c.(9349-9351)ATG>ACG	p.M3117T	CDH23_uc001jsg.3_Missense_Mutation_p.M877T|CDH23_uc001jsh.3_Missense_Mutation_p.M877T|CDH23_uc001jsi.3_Missense_Mutation_p.M877T|CDH23_uc001jsj.3_5'UTR|CDH23_uc010qjr.1_5'UTR	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	3117	Cytoplasmic (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						ATCATGGACATGCCTAACACC	0.632											OREG0020259	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	55	---	---	---	---	PASS	C	73571742	C	C	73571742	3	2	63	1	0	0	0	0	1	0	0	0	3108	1464	51	5	9953	5	CDH23	10	73571742	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	1036731	73571742	61963005	160	24794										
NPS	594857	broad.mit.edu	37	chr10	129350870	129350871	+	Frame_Shift_Ins	INS	-	A	A													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	atggagttggcacagggatgINSaaaaaaacttcctttcaaag							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr10:129350870_129350871insA	uc001ljx.1	+	3	257_258	c.237_238insA	c.(235-240)ATGAAAfs	p.M79fs		NM_001030013	NP_001025184	P0C0P6	NPS_HUMAN	neuropeptide S precursor	79_80					neuropeptide signaling pathway	extracellular region					0						GCACAGGGATGAAAAAAACTTC	0.411													174	121	---	---	---	---		A	129350871	A	A	129350870	7	5	63	1	0	1	1	0	0	0	0	0	10599	1290	45	0	247	0	NPS	10	129350870	Frame_Shift_Ins	INS	-	TCGA-34-2596-01A-01D-1522-08	55779128	129350870	6183877	161	24795										
VENTX	27287	broad.mit.edu	37	chr10	135051452	135051452	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cctccccacctcgtggcccgCagcagctctccagctttggc	9	20	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr10:135051452C>T	uc010quy.1	+	1	45	c.34C>T	c.(34-36)CAG>TAG	p.Q12*		NM_014468	NP_055283	O95231	VENTX_HUMAN	VENT homeobox	12					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(35;4.15e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.8e-06)|Epithelial(32;9.31e-06)|all cancers(32;1.19e-05)		TCGTGGCCCGCAGCAGCTCTC	0.726													4	8	---	---	---	---	PASS	T	135051452	T	T	135051452	4	4	63	1	0	0	0	0	0	1	0	0	17150	711	25	3	36	3	VENTX	10	135051452	Nonsense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	5700582	135051452	483295	162	24796										
FRG2B	441581	broad.mit.edu	37	chr10	135440236	135440236	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggagatcggggtcttcatttCcctttcccatgttgaagctc	10	11	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr10:135440236C>A	uc010qvg.1	-	1	64	c.11G>T	c.(10-12)GGA>GTA	p.G4V		NM_001080998	NP_001074467	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	4						nucleus					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		GTCTTCATTTCCCTTTCCCAT	0.522													17	391	---	---	---	---	PASS	A	135440236	A	A	135440236	3	1	63	1	0	0	0	0	1	0	0	0	6047	855	30	2	840	2	FRG2B	10	135440236	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	388784	135440236	94511	163	24797										
IRF7	3665	broad.mit.edu	37	chr11	612717	612717	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctgttggcgctggacaggcaGaggctgaggctgctgctatc	16	10	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:612717G>A	uc001lqh.2	-	11	1810	c.1440C>T	c.(1438-1440)CTC>CTT	p.L480L	IRF7_uc009ycb.2_Silent_p.L374L|IRF7_uc010qwf.1_Silent_p.L479L|IRF7_uc001lqf.2_Silent_p.L187L|IRF7_uc010qwg.1_Silent_p.L187L|IRF7_uc001lqg.2_Silent_p.L493L|IRF7_uc001lqi.2_Silent_p.L451L|IRF7_uc010qwh.1_Silent_p.L187L	NM_001572	NP_001563	Q92985	IRF7_HUMAN	interferon regulatory factor 7 isoform a	480					interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of interferon-alpha production|positive regulation of transcription from RNA polymerase II promoter|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|endosome membrane|nucleoplasm|plasma membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(49;1.69e-08)|all_epithelial(84;1.65e-05)|Breast(177;0.000231)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;7.68e-28)|Epithelial(43;7.44e-27)|OV - Ovarian serous cystadenocarcinoma(40;3.53e-21)|BRCA - Breast invasive adenocarcinoma(625;6.96e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGGACAGGCAGAGGCTGAGGC	0.602													38	20	---	---	---	---	PASS	A	612717	A	A	612717	2	1	63	1	0	0	0	0	0	0	0	1	7835	929	33	2		2	IRF7	11	612717	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08		612717	134393799	164	24798										
USH1C	10083	broad.mit.edu	37	chr11	17552819	17552819	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cttcggggtgcagacggtccAgacgcacctccttcagcttc	11	15	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:17552819A>G	uc001mnf.2	-	4	378	c.269T>C	c.(268-270)CTG>CCG	p.L90P	USH1C_uc001mne.2_Missense_Mutation_p.L90P|USH1C_uc009yhb.2_Missense_Mutation_p.L90P|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_Missense_Mutation_p.L54P	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	90	PDZ 1.				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						CAGACGGTCCAGACGCACCTC	0.647													14	21	---	---	---	---	PASS	G	17552819	G	G	17552819	3	3	63	1	0	0	0	0	1	0	0	0	17031	188	7	5	2604	5	USH1C	11	17552819	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	16940102	17552819	117453697	165	24799										
WT1	7490	broad.mit.edu	37	chr11	32456334	32456334	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcctggccggatgacgcctgGctgggcggaggaggaccgaa	19	11	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:32456334G>C	uc001mtn.1	-	1	754	c.558C>G	c.(556-558)AGC>AGG	p.S186R	WT1_uc001mto.1_Missense_Mutation_p.S186R|WT1_uc001mtp.1_Missense_Mutation_p.S186R|WT1_uc001mtq.1_Missense_Mutation_p.S186R|WT1_uc009yjs.1_RNA|WIT1_uc010rec.1_5'Flank|WIT1_uc010red.1_5'Flank|WIT1_uc010ree.1_5'Flank	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D	118					adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding	p.P117fs*95(1)|p.G186fs*34(1)	EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			ATGACGCCTGGCTGGGCGGAG	0.652			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				9	13	---	---	---	---	PASS	C	32456334	C	C	32456334	3	2	63	1	0	0	0	0	1	0	0	0	17405	1194	42	4	1035	4	WT1	11	32456334	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	14903515	32456334	102550182	166	24800										
SYT13	57586	broad.mit.edu	37	chr11	45274136	45274136	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gagctcctcctccgccagggGgagcaccaggccctcctccc	11	20	0	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:45274136G>T	uc001myq.2	-	4	808	c.682C>A	c.(682-684)CCC>ACC	p.P228T	SYT13_uc009yku.1_Missense_Mutation_p.P84T	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	228	Cytoplasmic (Potential).|C2 1.					transport vesicle				ovary(1)	1						TCCGCCAGGGGGAGCACCAGG	0.682											OREG0020928	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	29	---	---	---	---	PASS	T	45274136	T	T	45274136	3	4	63	1	0	0	0	0	1	0	0	0	15466	1232	43	3	610	3	SYT13	11	45274136	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	12817802	45274136	89732380	167	24801										
KIAA0652	9776	broad.mit.edu	37	chr11	46690953	46690953	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gactctgtcttgtttttgaaGaaaccagctttttctaaaga	7	7	3	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:46690953G>C	uc009yld.2	+	17	2032	c.1348_splice	c.e17-1	p.K450_splice	KIAA0652_uc001nda.2_Splice_Site_p.K483_splice|KIAA0652_uc001ndb.2_Splice_Site_p.K450_splice|KIAA0652_uc001ncz.2_Splice_Site_p.K413_splice|KIAA0652_uc001ndc.2_Splice_Site_p.K413_splice|KIAA0652_uc010rgv.1_Splice_Site_p.K334_splice	NM_001142673	NP_001136145	O75143	ATG13_HUMAN	autophagy-related protein 13 isoform 1						autophagic vacuole assembly	cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding				0				GBM - Glioblastoma multiforme(35;0.226)		TGTTTTTGAAGAAACCAGCTT	0.428													82	127	---	---	---	---	PASS	C	46690953	C	C	46690953	5	2	63	1	0	0	0	0	0	0	1	0	8188	956	33	2	1405	2	KIAA0652	11	46690953	Splice_Site	SNP	G	TCGA-34-2596-01A-01D-1522-08	1416817	46690953	88315563	168	24802										
OR5D13	390142	broad.mit.edu	37	chr11	55541774	55541774	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	acagtggcgattccaatgctGaacccattgatctacagcct	8	12	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:55541774G>T	uc010ril.1	+	1	861	c.861G>T	c.(859-861)CTG>CTT	p.L287L		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	287	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				TTCCAATGCTGAACCCATTGA	0.358													32	47	---	---	---	---	PASS	T	55541774	T	T	55541774	2	4	63	1	0	0	0	0	0	0	0	1	11154	1277	45	2		2	OR5D13	11	55541774	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	8850821	55541774	79464742	169	24803										
OR8J3	81168	broad.mit.edu	37	chr11	55904776	55904776	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gggacaccagcaggaggcagAgccgccgagacaccaccacc	13	16	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:55904776A>C	uc010riz.1	-	1	419	c.419T>G	c.(418-420)CTC>CGC	p.L140R		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					CAGGAGGCAGAGCCGCCGAGA	0.468													44	71	---	---	---	---	PASS	C	55904776	C	C	55904776	3	2	63	1	0	0	0	0	1	0	0	0	11242	304	11	5	530	5	OR8J3	11	55904776	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	363002	55904776	79101740	170	24804										
DLG2	1740	broad.mit.edu	37	chr11	83673942	83673942	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tctgacctggtgtagtcgtcGtcaacaagcatgtgctttgg	12	9	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:83673942G>T	uc001paj.2	-	9	1314	c.1011C>A	c.(1009-1011)GAC>GAA	p.D337E	DLG2_uc001pai.2_Missense_Mutation_p.D286E|DLG2_uc010rsy.1_Missense_Mutation_p.D304E|DLG2_uc010rsz.1_Missense_Mutation_p.D337E|DLG2_uc010rta.1_Missense_Mutation_p.D337E|DLG2_uc001pak.2_Missense_Mutation_p.D442E|DLG2_uc010rtb.1_Missense_Mutation_p.D304E|DLG2_uc001pal.1_Missense_Mutation_p.D337E|DLG2_uc001pam.1_Missense_Mutation_p.D376E	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	337						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				TGTAGTCGTCGTCAACAAGCA	0.423													75	161	---	---	---	---	PASS	T	83673942	T	T	83673942	3	4	63	1	0	0	0	0	1	0	0	0	4555	1136	40	1	1711	1	DLG2	11	83673942	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	27769166	83673942	51332574	171	24805										
ZC3H12C	85463	broad.mit.edu	37	chr11	110035605	110035605	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgttgaatgcatactcaaatCtgagtctctcaggcccacga	8	11	4	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:110035605C>A	uc009yxw.2	+	6	1846	c.1795C>A	c.(1795-1797)CTG>ATG	p.L599M	ZC3H12C_uc010rwc.1_Missense_Mutation_p.L600M|ZC3H12C_uc010rwd.1_Missense_Mutation_p.L600M|ZC3H12C_uc001pkr.3_Missense_Mutation_p.L568M	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	599							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)		ATACTCAAATCTGAGTCTCTC	0.438													27	37	---	---	---	---	PASS	A	110035605	A	A	110035605	3	1	63	1	0	0	0	0	1	0	0	0	17560	912	32	2	1817	2	ZC3H12C	11	110035605	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	26361663	110035605	24970911	172	24806										
APOA5	116519	broad.mit.edu	37	chr11	116661365	116661365	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gctcaccaggctctcggcgtAtgggtggaagagctctttga	14	10	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:116661365A>G	uc001ppr.2	-	3	588	c.580T>C	c.(580-582)TAC>CAC	p.Y194H	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Missense_Mutation_p.Y194H|APOA5_uc009yzf.2_Missense_Mutation_p.Y194H|APOA5_uc009yzg.2_Missense_Mutation_p.Y220H	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	194					acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		CTCTCGGCGTATGGGTGGAAG	0.706													6	12	---	---	---	---	PASS	G	116661365	G	G	116661365	3	3	63	1	0	0	0	0	1	0	0	0	784	449	16	5	524	5	APOA5	11	116661365	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	6625760	116661365	18345151	173	24807										
IL10RA	3587	broad.mit.edu	37	chr11	117863985	117863985	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cagttggcagtgtgaacctaGagatccacaatggcttcatc	10	10	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:117863985G>A	uc001prv.2	+	4	474	c.397G>A	c.(397-399)GAG>AAG	p.E133K	IL10RA_uc010rxl.1_Missense_Mutation_p.E113K|IL10RA_uc010rxm.1_Missense_Mutation_p.E113K|IL10RA_uc010rxn.1_5'UTR|IL10RA_uc001prw.2_5'UTR	NM_001558	NP_001549	Q13651	I10R1_HUMAN	interleukin 10 receptor, alpha precursor	133	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-10 receptor activity			ovary(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)|Epithelial(105;0.00108)		TGTGAACCTAGAGATCCACAA	0.552													35	53	---	---	---	---	PASS	A	117863985	A	A	117863985	3	1	63	1	0	0	0	0	1	0	0	0	7620	943	33	2	411	2	IL10RA	11	117863985	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	1202620	117863985	17142531	174	24808										
OR4D5	219875	broad.mit.edu	37	chr11	123810461	123810461	+	Frame_Shift_Del	DEL	G	-	-													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gtgggaaaccttcttattgtGgtcatagtgacctccgaccc							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:123810461delG	uc001pzk.1	+	1	138	c.138delG	c.(136-138)GTGfs	p.V46fs		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	46	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		TTCTTATTGTGGTCATAGTGA	0.448													119	97	---	---	---	---		-	123810461	-	-	123810461	7	5	63	1	0	1	0	1	0	0	0	0	11057	1335	47	0	140	0	OR4D5	11	123810461	Frame_Shift_Del	DEL	G	TCGA-34-2596-01A-01D-1522-08	5946476	123810461	11196055	175	24809										
OR8B2	26595	broad.mit.edu	37	chr11	124252357	124252357	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cctcagtgcaactttgacatCcttgttcctcaaactgtaga	6	12	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:124252357C>T	uc010sai.1	-	1	883	c.883G>A	c.(883-885)GAT>AAT	p.D295N		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	295	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		ACTTTGACATCCTTGTTCCTC	0.368													67	128	---	---	---	---	PASS	T	124252357	T	T	124252357	3	4	63	1	0	0	0	0	1	0	0	0	11227	855	30	2	61	2	OR8B2	11	124252357	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	441896	124252357	10754159	176	24810										
OR8B4	283162	broad.mit.edu	37	chr11	124294406	124294407	+	Frame_Shift_Ins	INS	-	G	G													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gttgcagatggccacatagcINSgatcataggccattgatacc							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr11:124294406_124294407insG	uc010sak.1	-	1	361_362	c.361_362insC	c.(361-363)CGCfs	p.R121fs		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		GGCCACATAGCGATCATAGGCC	0.455													62	65	---	---	---	---		G	124294407	G	G	124294406	7	5	63	1	0	1	1	0	0	0	0	0	11229	768	27	0	569	0	OR8B4	11	124294406	Frame_Shift_Ins	INS	-	TCGA-34-2596-01A-01D-1522-08	42049	124294406	10712110	177	24811										
PEX5	5830	broad.mit.edu	37	chr12	7361113	7361113	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcgctggctgtgagcttcacCaacgagtccctgcagcgaca	12	14	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:7361113C>T	uc009zfu.1	+	14	1822	c.1242C>T	c.(1240-1242)ACC>ACT	p.T414T	PEX5_uc001qsw.2_Silent_p.T414T|PEX5_uc010sgc.1_Silent_p.T429T|PEX5_uc001qsu.2_Silent_p.T377T|PEX5_uc010sgd.1_Silent_p.T435T|PEX5_uc001qsv.2_Silent_p.T406T	NM_001131026	NP_001124498	P50542	PEX5_HUMAN	peroxisomal biogenesis factor 5 isoform d	414	TPR 3.				protein import into peroxisome matrix, translocation|protein targeting to peroxisome|protein tetramerization|protein transport	cytosol|peroxisomal matrix|peroxisomal membrane	peroxisome matrix targeting signal-1 binding|protein C-terminus binding|protein N-terminus binding			ovary(1)	1						TGAGCTTCACCAACGAGTCCC	0.557													12	61	---	---	---	---	PASS	T	7361113	T	T	7361113	2	4	63	1	0	0	0	0	0	0	0	1	11748	581	21	3		3	PEX5	12	7361113	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08		7361113	126490782	178	24812										
PZP	5858	broad.mit.edu	37	chr12	9304846	9304846	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gttggtttcaggggaataaaAccagataccatctttacatc	8	8	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:9304846A>G	uc001qvl.2	-	32	4211	c.4182T>C	c.(4180-4182)GGT>GGC	p.G1394G	PZP_uc009zgl.2_Silent_p.G1180G	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						GGGGAATAAAACCAGATACCA	0.358													52	136	---	---	---	---	PASS	G	9304846	G	G	9304846	2	3	63	1	0	0	0	0	0	0	0	1	12869	30	2	5		5	PZP	12	9304846	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	1943733	9304846	124547049	179	24813										
SLCO1C1	53919	broad.mit.edu	37	chr12	20854375	20854375	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cttcactggtgggagttattGatggtagttttgaaattggt	13	3	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:20854375G>T	uc001rej.3	+	4	608	c.253G>T	c.(253-255)GAT>TAT	p.D85Y	SLCO1C1_uc010sii.1_Missense_Mutation_p.D85Y|SLCO1C1_uc010sij.1_Missense_Mutation_p.D85Y|SLCO1C1_uc009zip.2_Intron|SLCO1C1_uc001rei.2_Missense_Mutation_p.D85Y|SLCO1C1_uc010sik.1_Intron	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	85	Helical; Name=2; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					GGGAGTTATTGATGGTAGTTT	0.403													75	196	---	---	---	---	PASS	T	20854375	T	T	20854375	3	4	63	1	0	0	0	0	1	0	0	0	14725	1290	45	2	259	2	SLCO1C1	12	20854375	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	11549529	20854375	112997520	180	24814										
ARID2	196528	broad.mit.edu	37	chr12	46246297	46246297	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttcagatgtgcctcagcaacGcccaagtgtagttgtctcac	9	12	3	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:46246297G>A	uc001ros.1	+	15	4391	c.4391G>A	c.(4390-4392)CGC>CAC	p.R1464H	ARID2_uc001ror.2_Missense_Mutation_p.R1464H|ARID2_uc009zkg.1_Missense_Mutation_p.R920H|ARID2_uc009zkh.1_Missense_Mutation_p.R1091H|ARID2_uc001rou.1_Missense_Mutation_p.R798H	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1464					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		CCTCAGCAACGCCCAAGTGTA	0.438													78	294	---	---	---	---	PASS	A	46246297	A	A	46246297	3	1	63	1	0	0	0	0	1	0	0	0	915	1087	38	1	4449	1	ARID2	12	46246297	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	25391922	46246297	87605598	181	24815										
MLL2	8085	broad.mit.edu	37	chr12	49416382	49416382	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ccagctcatacctgctcttcGtagattttctcccgccggtt	7	15	3	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:49416382G>T	uc001rta.3	-	51	16329	c.16329C>A	c.(16327-16329)TAC>TAA	p.Y5443*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5443	SET.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CCTGCTCTTCGTAGATTTTCT	0.537			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			119	295	---	---	---	---	PASS	T	49416382	T	T	49416382	4	4	63	1	0	0	0	0	0	1	0	0	9621	1140	40	1	300	1	MLL2	12	49416382	Nonsense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	3170085	49416382	84435513	182	24816										
OR9K2	441639	broad.mit.edu	37	chr12	55523991	55523991	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tggcggccatggcttatgacCgctttattgccatctgcaac	10	12	1	1	rs149479525	byFrequency	TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:55523991C>G	uc010spe.1	+	1	439	c.439C>G	c.(439-441)CGC>GGC	p.R147G		NM_001005243	NP_001005243	Q8NGE7	OR9K2_HUMAN	olfactory receptor, family 9, subfamily K,	147	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						GGCTTATGACCGCTTTATTGC	0.498													54	142	---	---	---	---	PASS	G	55523991	G	G	55523991	3	3	63	1	0	0	0	0	1	0	0	0	11254	652	23	4	441	4	OR9K2	12	55523991	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	6107609	55523991	78327904	183	24817										
MIP	4284	broad.mit.edu	37	chr12	56848367	56848367	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gaactcagcgaatatggcccTccaaaaggaggctgatcgca	11	11	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:56848367T>C	uc001slh.2	-	1	63	c.31A>G	c.(31-33)AGG>GGG	p.R11G		NM_012064	NP_036196	P30301	MIP_HUMAN	major intrinsic protein of lens fiber	11	Helical; (By similarity).				response to stimulus|visual perception	gap junction|integral to plasma membrane	structural constituent of eye lens			skin(1)	1						AATATGGCCCTCCAAAAGGAG	0.602													3	121	---	---	---	---	PASS	C	56848367	C	C	56848367	3	2	63	1	0	0	0	0	1	0	0	0	9591	1550	54	5	776	5	MIP	12	56848367	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	1324376	56848367	77003528	184	24818										
FAM19A2	338811	broad.mit.edu	37	chr12	62148664	62148664	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aagtcacaccatccacacatGatggagcagctcgcgtggtg	11	12	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:62148664G>C	uc001sqw.2	-	3	1761	c.248C>G	c.(247-249)TCA>TGA	p.S83*	FAM19A2_uc001sqv.2_RNA|FAM19A2_uc001sqx.2_Nonsense_Mutation_p.S83*|FAM19A2_uc001sqy.2_RNA	NM_178539	NP_848634	Q8N3H0	F19A2_HUMAN	family with sequence similarity 19 (chemokine	83						cytoplasm				ovary(1)	1			GBM - Glioblastoma multiforme(1;0.00484)	GBM - Glioblastoma multiforme(3;0.02)		ATCCACACATGATGGAGCAGC	0.493													6	109	---	---	---	---	PASS	C	62148664	C	C	62148664	4	2	63	1	0	0	0	0	0	1	0	0	5532	1294	45	2	159	2	FAM19A2	12	62148664	Nonsense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	5300297	62148664	71703231	185	24819										
AVPR1A	552	broad.mit.edu	37	chr12	63544086	63544086	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggcgtgctcagcacgaagctCagcacccaggcggccgcgat	14	15	2	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:63544086C>A	uc001sro.1	-	1	2505	c.531G>T	c.(529-531)CTG>CTT	p.L177L		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	177	Helical; Name=4; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	GCACGAAGCTCAGCACCCAGG	0.642													45	106	---	---	---	---	PASS	A	63544086	A	A	63544086	2	1	63	1	0	0	0	0	0	0	0	1	1231	813	29	2		2	AVPR1A	12	63544086	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	1395422	63544086	70307809	186	24820										
CNOT2	4848	broad.mit.edu	37	chr12	70723272	70723272	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aaatcgcagcttatcacaagGcactcagttaccgagccacg	8	13	2	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:70723272G>A	uc001svv.2	+	5	887	c.308G>A	c.(307-309)GGC>GAC	p.G103D	CNOT2_uc009zro.2_Missense_Mutation_p.G103D|CNOT2_uc009zrp.2_Missense_Mutation_p.G83D|CNOT2_uc009zrq.2_Missense_Mutation_p.G103D	NM_014515	NP_055330	Q9NZN8	CNOT2_HUMAN	CCR4-NOT transcription complex, subunit 2	103					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	protein binding|RNA polymerase II transcription cofactor activity				0	Renal(347;0.236)		GBM - Glioblastoma multiforme(1;4.77e-09)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			TTATCACAAGGCACTCAGTTA	0.458													42	97	---	---	---	---	PASS	A	70723272	A	A	70723272	3	1	63	1	0	0	0	0	1	0	0	0	3619	1203	42	3	322	3	CNOT2	12	70723272	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	7179186	70723272	63128623	187	24821										
KCNC2	3747	broad.mit.edu	37	chr12	75444795	75444795	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gatgacagcccactgagtccCacctctaagtagaaaggtag	10	11	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:75444795C>A	uc001sxg.1	-	3	1534	c.990G>T	c.(988-990)GTG>GTT	p.V330V	KCNC2_uc009zry.2_Silent_p.V330V|KCNC2_uc001sxe.2_Silent_p.V330V|KCNC2_uc001sxf.2_Silent_p.V330V|KCNC2_uc010stw.1_Silent_p.V330V	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	330	Helical; Name=Segment S3; (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						CACTGAGTCCCACCTCTAAGT	0.428													56	122	---	---	---	---	PASS	A	75444795	A	A	75444795	2	1	63	1	0	0	0	0	0	0	0	1	8015	581	21	3		3	KCNC2	12	75444795	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	4721523	75444795	58407100	188	24822										
C12orf50	160419	broad.mit.edu	37	chr12	88379738	88379738	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gacagtcctgacagcatctcTttgaacgtggatataggatg	11	8	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:88379738T>C	uc001tam.1	-	11	1183	c.1015A>G	c.(1015-1017)AGA>GGA	p.R339G	C12orf50_uc001tan.2_Missense_Mutation_p.R354G	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	339										skin(2)|ovary(1)	3						ACAGCATCTCTTTGAACGTGG	0.473													94	217	---	---	---	---	PASS	C	88379738	C	C	88379738	3	2	63	1	0	0	0	0	1	0	0	0	1695	1617	56	5	241	5	C12orf50	12	88379738	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	12934943	88379738	45472157	189	24823										
MYBPC1	4604	broad.mit.edu	37	chr12	102046455	102046455	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	acattttccttgtttccttaGgatccacaagttagtgatag	7	8	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:102046455G>T	uc001tii.2	+	15	1554	c.1452_splice	c.e15-1	p.R484_splice	MYBPC1_uc001tig.2_Splice_Site_p.R509_splice|MYBPC1_uc010svq.1_Splice_Site_p.R471_splice|MYBPC1_uc001tih.2_Splice_Site_p.R509_splice|MYBPC1_uc001tij.2_Splice_Site_p.R484_splice|MYBPC1_uc010svr.1_Splice_Site_p.R484_splice|MYBPC1_uc010svs.1_Splice_Site_p.R484_splice|MYBPC1_uc010svt.1_Splice_Site_p.R472_splice|MYBPC1_uc010svu.1_Splice_Site_p.R465_splice|MYBPC1_uc001tik.2_Splice_Site_p.R458_splice	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3						cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						TGTTTCCTTAGGATCCACAAG	0.373													67	214	---	---	---	---	PASS	T	102046455	T	T	102046455	5	4	63	1	0	0	0	0	0	0	1	0	10011	1014	35	3	1592	3	MYBPC1	12	102046455	Splice_Site	SNP	G	TCGA-34-2596-01A-01D-1522-08	13666717	102046455	31805440	190	24824										
MYBPC1	4604	broad.mit.edu	37	chr12	102061515	102061515	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttttacggacttcagctgagGactggatagttgcaaacaaa	10	7	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:102061515G>T	uc001tii.2	+	22	2443	c.2341G>T	c.(2341-2343)GAC>TAC	p.D781Y	MYBPC1_uc001tig.2_Missense_Mutation_p.D788Y|MYBPC1_uc010svq.1_Missense_Mutation_p.D750Y|MYBPC1_uc001tih.2_Missense_Mutation_p.D788Y|MYBPC1_uc001tij.2_Missense_Mutation_p.D763Y|MYBPC1_uc010svr.1_Missense_Mutation_p.D763Y|MYBPC1_uc010svs.1_Missense_Mutation_p.D781Y|MYBPC1_uc010svt.1_Missense_Mutation_p.D751Y|MYBPC1_uc010svu.1_Missense_Mutation_p.D744Y|MYBPC1_uc001tik.2_Missense_Mutation_p.D737Y|MYBPC1_uc001til.2_5'UTR|MYBPC1_uc001tim.2_5'UTR	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	781	Fibronectin type-III 2.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						TTCAGCTGAGGACTGGATAGT	0.383													26	92	---	---	---	---	PASS	T	102061515	T	T	102061515	3	4	63	1	0	0	0	0	1	0	0	0	10011	1174	41	2	2510	2	MYBPC1	12	102061515	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	15060	102061515	31790380	191	24825										
C12orf48	55010	broad.mit.edu	37	chr12	102559614	102559614	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggattgtctaattttattaaTttcattgacaaattagatga	6	3	2	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:102559614T>A	uc001tjf.2	+	6	886	c.774T>A	c.(772-774)AAT>AAA	p.N258K	C12orf48_uc001tjg.2_Missense_Mutation_p.N177K|C12orf48_uc010swa.1_Missense_Mutation_p.N335K|C12orf48_uc001tjh.2_Missense_Mutation_p.N177K|C12orf48_uc010swb.1_Missense_Mutation_p.N144K|C12orf48_uc009zuc.2_Intron|C12orf48_uc001tjj.2_5'UTR|C12orf48_uc001tjk.2_Missense_Mutation_p.N258K|C12orf48_uc009zud.2_Missense_Mutation_p.N258K	NM_017915	NP_060385	Q9NWS1	PR1BP_HUMAN	hypothetical protein LOC55010	258					response to DNA damage stimulus	cytoplasm|nucleus	DNA binding				0						ATTTTATTAATTTCATTGACA	0.308													55	184	---	---	---	---	PASS	A	102559614	A	A	102559614	3	1	63	1	0	0	0	0	1	0	0	0	1692	1490	52	5	545	5	C12orf48	12	102559614	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	498099	102559614	31292281	192	24826										
STAB2	55576	broad.mit.edu	37	chr12	104014315	104014315	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgaaggcatggaaggaaatgGaacctgctcctgccaagtaa	12	8	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:104014315G>C	uc001tjw.2	+	4	587	c.401G>C	c.(400-402)GGA>GCA	p.G134A		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	134	Extracellular (Potential).|EGF-like 1.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GAAGGAAATGGAACCTGCTCC	0.458													5	20	---	---	---	---	PASS	C	104014315	C	C	104014315	3	2	63	1	0	0	0	0	1	0	0	0	15237	1174	41	2	415	2	STAB2	12	104014315	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	1454701	104014315	29837580	193	24827										
HSP90B1	7184	broad.mit.edu	37	chr12	104341167	104341167	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cagagcaagacgaagatgaaGaaatggatgtgggaacagat	14	4	0	6			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:104341167G>C	uc001tkb.1	+	17	2446	c.2341G>C	c.(2341-2343)GAA>CAA	p.E781Q	HSP90B1_uc010swg.1_Missense_Mutation_p.E446Q|HSP90B1_uc009zui.1_Missense_Mutation_p.K317N	NM_003299	NP_003290	P14625	ENPL_HUMAN	heat shock protein 90kDa beta, member 1	781					actin rod assembly|anti-apoptosis|cellular response to ATP|ER-associated protein catabolic process|protein folding|protein transport|regulation of phosphoprotein phosphatase activity|response to hypoxia|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|melanosome|microsome|midbody|perinuclear region of cytoplasm	ATP binding|calcium ion binding|low-density lipoprotein particle receptor binding|protein phosphatase binding|RNA binding|unfolded protein binding|virion binding			ovary(2)|skin(1)	3					Rifabutin(DB00615)	cgaagatgaagaaatggatgt	0.189													51	115	---	---	---	---	PASS	C	104341167	C	C	104341167	3	2	63	1	0	0	0	0	1	0	0	0	7403	943	33	2	2407	2	HSP90B1	12	104341167	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	326852	104341167	29510728	194	24828										
USP30	84749	broad.mit.edu	37	chr12	109520716	109520716	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cacggcacgcctctgaagcgGcatgagcacgtgcagttcaa	12	13	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:109520716G>A	uc010sxi.1	+	11	1121	c.1017G>A	c.(1015-1017)CGG>CGA	p.R339R	USP30_uc001tnu.3_Silent_p.R308R|USP30_uc001tnw.3_Silent_p.R56R	NM_032663	NP_116052	Q70CQ3	UBP30_HUMAN	ubiquitin specific peptidase 30	339	Cytoplasmic (Potential).				ubiquitin-dependent protein catabolic process	integral to membrane|mitochondrial outer membrane	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(1)	1						CTCTGAAGCGGCATGAGCACG	0.532													4	85	---	---	---	---	PASS	A	109520716	A	A	109520716	2	1	63	1	0	0	0	0	0	0	0	1	17058	1190	42	3		3	USP30	12	109520716	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	5179549	109520716	24331179	195	24829										
DDX54	79039	broad.mit.edu	37	chr12	113601994	113601994	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctgccgcccctgctgtccctGctggaagcgggcgatggcct	14	16	0	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:113601994G>A	uc001tup.2	-	15	1844	c.1816C>T	c.(1816-1818)CAG>TAG	p.Q606*	DDX54_uc001tuq.3_Nonsense_Mutation_p.Q606*	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	606	Interaction with nuclear receptors.				estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						TGCTGTCCCTGCTGGAAGCGG	0.577													5	6	---	---	---	---	PASS	A	113601994	A	A	113601994	4	1	63	1	0	0	0	0	0	1	0	0	4372	1328	46	3	856	3	DDX54	12	113601994	Nonsense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	4081278	113601994	20249901	196	24830										
WDR66	144406	broad.mit.edu	37	chr12	122413512	122413512	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	catcgacacaatggagaccaGaaaggtgtcagaacacattt	9	9	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:122413512G>C	uc009zxk.2	+	19	3069	c.2927G>C	c.(2926-2928)AGA>ACA	p.R976T		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	976							calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		ATGGAGACCAGAAAGGTGTCA	0.438													50	97	---	---	---	---	PASS	C	122413512	C	C	122413512	3	2	63	1	0	0	0	0	1	0	0	0	17314	942	33	2	3056	2	WDR66	12	122413512	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	8811518	122413512	11438383	197	24831										
TMEM132B	114795	broad.mit.edu	37	chr12	125834677	125834677	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgggagaacaatatccactcGggcctggagagcccccagca	12	13	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:125834677G>T	uc001uhe.1	+	2	740	c.732G>T	c.(730-732)TCG>TCT	p.S244S		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	244	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		ATATCCACTCGGGCCTGGAGA	0.592													51	91	---	---	---	---	PASS	T	125834677	T	T	125834677	2	4	63	1	0	0	0	0	0	0	0	1	16043	1103	39	1		1	TMEM132B	12	125834677	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	3421165	125834677	8017218	198	24832										
TMEM132D	121256	broad.mit.edu	37	chr12	129558880	129558880	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cctcgaagggaacctgtttgTgtctgtattttaatgcaaag	10	7	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:129558880T>C	uc009zyl.1	-	9	3168	c.2840A>G	c.(2839-2841)CAC>CGC	p.H947R	TMEM132D_uc001uia.2_Missense_Mutation_p.H485R	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	947	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		AACCTGTTTGTGTCTGTATTT	0.443													76	179	---	---	---	---	PASS	C	129558880	C	C	129558880	3	2	63	1	0	0	0	0	1	0	0	0	16044	1696	59	5	463	5	TMEM132D	12	129558880	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	3724203	129558880	4293015	199	24833										
TMEM132D	121256	broad.mit.edu	37	chr12	129559570	129559570	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ccaagggcgtgactgagccaTcactgaactggacccagcaa	11	13	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr12:129559570T>C	uc009zyl.1	-	9	2478	c.2150A>G	c.(2149-2151)GAT>GGT	p.D717G	TMEM132D_uc001uia.2_Missense_Mutation_p.D255G	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	717	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GACTGAGCCATCACTGAACTG	0.458													40	104	---	---	---	---	PASS	C	129559570	C	C	129559570	3	2	63	1	0	0	0	0	1	0	0	0	16044	1435	50	5	1153	5	TMEM132D	12	129559570	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	690	129559570	4292325	200	24834										
SHISA2	387914	broad.mit.edu	37	chr13	26621149	26621149	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gctgccaccagggaccccaaGatgataaaggcgacaaacac	10	13	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr13:26621149G>C	uc001uqm.1	-	2	475	c.390C>G	c.(388-390)ATC>ATG	p.I130M		NM_001007538	NP_001007539	Q6UWI4	SHSA2_HUMAN	shisa homolog 2 precursor	130	Helical; (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2						GGGACCCCAAGATGATAAAGG	0.547													21	28	---	---	---	---	PASS	C	26621149	C	C	26621149	3	2	63	1	0	0	0	0	1	0	0	0	14280	932	33	2	501	2	SHISA2	13	26621149	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08		26621149	88548729	201	24835										
BRCA2	675	broad.mit.edu	37	chr13	32911360	32911360	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gttcttgcagaggagaacaaAaatagtgtaaagcagcatat	10	5	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr13:32911360A>G	uc001uub.1	+	11	3095	c.2868A>G	c.(2866-2868)AAA>AAG	p.K956K		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	956	Interaction with NPM1.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AGGAGAACAAAAATAGTGTAA	0.313			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			3	119	---	---	---	---	PASS	G	32911360	G	G	32911360	2	3	63	1	0	0	0	0	0	0	0	1	1499	11	1	5		5	BRCA2	13	32911360	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	6290211	32911360	82258518	202	24836										
AKAP11	11215	broad.mit.edu	37	chr13	42877380	42877380	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctggatatgaagaagataatGagtgtcacgttacaccagaa	10	6	1	5			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr13:42877380G>T	uc001uys.1	+	8	4673	c.4498G>T	c.(4498-4500)GAG>TAG	p.E1500*		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	1500					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		AGAAGATAATGAGTGTCACGT	0.403													82	130	---	---	---	---	PASS	T	42877380	T	T	42877380	4	4	63	1	0	0	0	0	0	1	0	0	447	1291	45	2	4520	2	AKAP11	13	42877380	Nonsense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	9966020	42877380	72292498	203	24837										
DCT	1638	broad.mit.edu	37	chr13	95095744	95095744	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gtctgaggttaaaaagagttCttcattagtcactggaggga	12	5	4	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr13:95095744C>A	uc001vlv.3	-	7	1754	c.1327G>T	c.(1327-1329)GAA>TAA	p.E443*	DCT_uc010afh.2_Nonsense_Mutation_p.E476*	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	443	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		AAAAAGAGTTCTTCATTAGTC	0.453													34	48	---	---	---	---	PASS	A	95095744	A	A	95095744	4	1	63	1	0	0	0	0	0	1	0	0	4304	922	32	2	240	2	DCT	13	95095744	Nonsense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	52218364	95095744	20074134	204	24838										
ARGLU1	55082	broad.mit.edu	37	chr13	107220071	107220071	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cccggtcccgctcgcgccggGacacggccgtgttggtggag	17	15	0	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr13:107220071G>A	uc001vqk.3	-	1	444	c.197C>T	c.(196-198)TCC>TTC	p.S66F		NM_018011	NP_060481	Q9NWB6	ARGL1_HUMAN	arginine and glutamate rich 1	66	Arg-rich.										0	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					CTCGCGCCGGGACACGGCCGT	0.697													15	13	---	---	---	---	PASS	A	107220071	A	A	107220071	3	1	63	1	0	0	0	0	1	0	0	0	860	1174	41	2	640	2	ARGLU1	13	107220071	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	12124327	107220071	7949807	205	24839										
ABHD13	84945	broad.mit.edu	37	chr13	108882380	108882380	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gactctcagatcaattaattCcaccagtaatgatgaaacaa	5	9	2	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr13:108882380C>T	uc001vqq.2	+	2	1079	c.814C>T	c.(814-816)CCA>TCA	p.P272S		NM_032859	NP_116248	Q7L211	ABHDD_HUMAN	abhydrolase domain containing 13	272						integral to membrane	hydrolase activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					TCAATTAATTCCACCAGTAAT	0.388													14	178	---	---	---	---	PASS	T	108882380	T	T	108882380	3	4	63	1	0	0	0	0	1	0	0	0	78	855	30	2	816	2	ABHD13	13	108882380	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	1662309	108882380	6287498	206	24840										
ZNF828	283489	broad.mit.edu	37	chr13	115091304	115091304	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agcaggttgatgtggaatccAttgattttagcaaagagaac	11	5	0	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr13:115091304A>G	uc010ahb.2	+	3	2316	c.1987A>G	c.(1987-1989)ATT>GTT	p.I663V	ZNF828_uc001vuv.2_Missense_Mutation_p.I663V|ZNF828_uc010tko.1_Missense_Mutation_p.I663V	NM_001164144	NP_001157616	Q96JM3	ZN828_HUMAN	zinc finger protein 828	663	Mediates localization to the chromosome and the spindle and negatively regulates chromosome alignment.				attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|protein localization to kinetochore|protein localization to microtubule|sister chromatid biorientation	condensed chromosome kinetochore|cytoplasm|nucleus|spindle	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_epithelial(44;0.122)|all_lung(25;0.123)	BRCA - Breast invasive adenocarcinoma(86;0.104)	OV - Ovarian serous cystadenocarcinoma(48;0.193)|Epithelial(10;0.197)		TGTGGAATCCATTGATTTTAG	0.383													32	54	---	---	---	---	PASS	G	115091304	G	G	115091304	3	3	63	1	0	0	0	0	1	0	0	0	18178	217	8	5	1989	5	ZNF828	13	115091304	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	6208924	115091304	78574	207	24841										
OR4K2	390431	broad.mit.edu	37	chr14	20344457	20344457	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcaataagtctaccatgtctGaatttgttttgctggggctc	10	8	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr14:20344457G>A	uc001vwh.1	+	1	31	c.31G>A	c.(31-33)GAA>AAA	p.E11K		NM_001005501	NP_001005501	Q8NGD2	OR4K2_HUMAN	olfactory receptor, family 4, subfamily K,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TACCATGTCTGAATTTGTTTT	0.363													8	303	---	---	---	---	PASS	A	20344457	A	A	20344457	3	1	63	1	0	0	0	0	1	0	0	0	11072	1291	45	2	33	2	OR4K2	14	20344457	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08		20344457	87005083	208	24842										
OR4K15	81127	broad.mit.edu	37	chr14	20443871	20443871	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttatctagcaattctgttggGcaactttctcatcatcctca	5	11	5	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr14:20443871G>T	uc010tkx.1	+	1	194	c.194G>T	c.(193-195)GGC>GTC	p.G65V		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	65	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATTCTGTTGGGCAACTTTCTC	0.448													96	164	---	---	---	---	PASS	T	20443871	T	T	20443871	3	4	63	1	0	0	0	0	1	0	0	0	11070	1203	42	3	196	3	OR4K15	14	20443871	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	99414	20443871	86905669	209	24843										
OR4K14	122740	broad.mit.edu	37	chr14	20483304	20483304	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aagatgtcgtgaagtgcagaGtccatgcaacacaaattctg	10	8	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr14:20483304G>C	uc010tky.1	-	1	49	c.49C>G	c.(49-51)CTC>GTC	p.L17V		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		GAAGTGCAGAGTCCATGCAAC	0.348													3	95	---	---	---	---	PASS	C	20483304	C	C	20483304	3	2	63	1	0	0	0	0	1	0	0	0	11069	1029	36	4	886	4	OR4K14	14	20483304	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	39433	20483304	86866236	210	24844										
KCNH5	27133	broad.mit.edu	37	chr14	63174751	63174751	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgggctcccatattattcttGagtcgcagccacccttttcc	7	14	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr14:63174751G>C	uc001xfx.2	-	11	2493	c.2442C>G	c.(2440-2442)CTC>CTG	p.L814L	KCNH5_uc001xfy.2_3'UTR	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	814	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		TATTATTCTTGAGTCGCAGCC	0.468													9	234	---	---	---	---	PASS	C	63174751	C	C	63174751	2	2	63	1	0	0	0	0	0	0	0	1	8035	1277	45	2		2	KCNH5	14	63174751	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	42691447	63174751	44174789	211	24845										
RIN3	79890	broad.mit.edu	37	chr14	93118824	93118824	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggcctcgaccctcccagctcCcttagagaacgctgagctct	9	17	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr14:93118824C>T	uc001yap.2	+	6	1582	c.1430C>T	c.(1429-1431)CCC>CTC	p.P477L	RIN3_uc010auk.2_Missense_Mutation_p.P139L|RIN3_uc001yaq.2_Missense_Mutation_p.P402L|RIN3_uc001yar.1_Missense_Mutation_p.P139L|RIN3_uc001yas.1_Missense_Mutation_p.P139L	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	477	Pro-rich.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				CTCCCAGCTCCCTTAGAGAAC	0.632													45	81	---	---	---	---	PASS	T	93118824	T	T	93118824	3	4	63	1	0	0	0	0	1	0	0	0	13373	623	22	3	1452	3	RIN3	14	93118824	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	29944073	93118824	14230716	212	24846										
MTMR15	22909	broad.mit.edu	37	chr15	31197396	31197396	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agataaggatgaagaatttgCcggttctagtccacagagtt	11	6	1	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:31197396C>T	uc001zff.2	+	2	821	c.530C>T	c.(529-531)GCC>GTC	p.A177V	MTMR15_uc001zfc.3_Missense_Mutation_p.A177V|MTMR15_uc010azw.2_Missense_Mutation_p.A177V|MTMR15_uc001zfd.3_Missense_Mutation_p.A177V|MTMR15_uc001zfe.2_5'UTR	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a	177					double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		GAAGAATTTGCCGGTTCTAGT	0.373								Direct_reversal_of_damage|Editing_and_processing_nucleases					5	129	---	---	---	---	PASS	T	31197396	T	T	31197396	3	4	63	1	0	0	0	0	1	0	0	0	9943	739	26	3	532	3	MTMR15	15	31197396	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08		31197396	71333996	213	24847										
RYR3	6263	broad.mit.edu	37	chr15	33858998	33858998	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gccttattcagccagtttgtCaggtatgttagctcctttcc	8	11	2	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:33858998C>A	uc001zhi.2	+	12	1336	c.1266C>A	c.(1264-1266)GTC>GTA	p.V422V	RYR3_uc010bar.2_Silent_p.V422V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	422	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GCCAGTTTGTCAGGTATGTTA	0.507													49	122	---	---	---	---	PASS	A	33858998	A	A	33858998	2	1	63	1	0	0	0	0	0	0	0	1	13770	813	29	2		2	RYR3	15	33858998	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	2661602	33858998	68672394	214	24848										
RYR3	6263	broad.mit.edu	37	chr15	34018666	34018666	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ccccacagaagacctggttgGgatcatcagcatccccttga	9	14	2	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:34018666G>T	uc001zhi.2	+	46	7062	c.6992G>T	c.(6991-6993)GGG>GTG	p.G2331V	RYR3_uc010bar.2_Missense_Mutation_p.G2331V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2331	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GACCTGGTTGGGATCATCAGC	0.587													10	16	---	---	---	---	PASS	T	34018666	T	T	34018666	3	4	63	1	0	0	0	0	1	0	0	0	13770	1232	43	3	7174	3	RYR3	15	34018666	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	159668	34018666	68512726	215	24849										
RYR3	6263	broad.mit.edu	37	chr15	34130643	34130643	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tctgtgaagaggaatgtcacCgacttcctgaagagagcaac	11	9	2	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:34130643C>T	uc001zhi.2	+	89	12532	c.12462C>T	c.(12460-12462)ACC>ACT	p.T4154T	RYR3_uc010bar.2_Silent_p.T4149T	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4154					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGAATGTCACCGACTTCCTGA	0.507													7	142	---	---	---	---	PASS	T	34130643	T	T	34130643	2	4	63	1	0	0	0	0	0	0	0	1	13770	639	23	1		1	RYR3	15	34130643	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	111977	34130643	68400749	216	24850										
SPTBN5	51332	broad.mit.edu	37	chr15	42172460	42172460	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aactggagctccccacaggaActgcagaaaccgaacagggc	11	13	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:42172460A>C	uc001zos.2	-	14	2937	c.2604T>G	c.(2602-2604)AGT>AGG	p.S868R		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	903	Spectrin 7.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		CCCCACAGGAACTGCAGAAAC	0.647													3	9	---	---	---	---	PASS	C	42172460	C	C	42172460	3	2	63	1	0	0	0	0	1	0	0	0	15121	40	2	5	8535	5	SPTBN5	15	42172460	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	8041817	42172460	60358932	217	24851										
PLA2G4F	255189	broad.mit.edu	37	chr15	42434795	42434795	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cacaatgggggagcgggggtCctcagccttggcaaacagat	15	10	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:42434795C>T	uc001zoz.2	-	19	2323	c.2260G>A	c.(2260-2262)GAC>AAC	p.D754N	PLA2G4F_uc010bcq.2_Missense_Mutation_p.D51N|PLA2G4F_uc001zoy.2_Missense_Mutation_p.D386N|PLA2G4F_uc010bcr.2_Missense_Mutation_p.D505N|PLA2G4F_uc001zpa.2_Missense_Mutation_p.D505N|PLA2G4F_uc010bcs.2_Missense_Mutation_p.D541N	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	754	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		GAGCGGGGGTCCTCAGCCTTG	0.627													40	89	---	---	---	---	PASS	T	42434795	T	T	42434795	3	4	63	1	0	0	0	0	1	0	0	0	12006	855	30	2	297	2	PLA2G4F	15	42434795	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	262335	42434795	60096597	218	24852										
WDR72	256764	broad.mit.edu	37	chr15	54006673	54006673	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gaaagatcccatactttgagCtcaccagctactgataccac	6	13	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:54006673C>A	uc002acj.2	-	6	591	c.549G>T	c.(547-549)GAG>GAT	p.E183D	WDR72_uc010bfi.1_Missense_Mutation_p.E183D	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	183	WD 3.			E -> G (in Ref. 1; CAD97880).						lung(1)|skin(1)	2				all cancers(107;0.0511)		ATACTTTGAGCTCACCAGCTA	0.348													31	45	---	---	---	---	PASS	A	54006673	A	A	54006673	3	1	63	1	0	0	0	0	1	0	0	0	17319	796	28	3	2819	3	WDR72	15	54006673	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	11571878	54006673	48524719	219	24853										
LCTL	197021	broad.mit.edu	37	chr15	66853529	66853529	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gaggggccctgcttacccgaGgatcactgaacgtgatccag	13	12	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:66853529G>T	uc002aqc.2	-	5	737	c.605C>A	c.(604-606)CCT>CAT	p.P202H	LCTL_uc002aqd.3_Missense_Mutation_p.P29H|LCTL_uc010bhw.2_5'UTR	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	202	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						GCTTACCCGAGGATCACTGAA	0.552													4	148	---	---	---	---	PASS	T	66853529	T	T	66853529	3	4	63	1	0	0	0	0	1	0	0	0	8694	1000	35	3	1134	3	LCTL	15	66853529	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	12846856	66853529	35677863	220	24854										
FBXO22	26263	broad.mit.edu	37	chr15	76222290	76222290	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ataattgctgtaaggtgggaGccagtaattatctgcagcaa	11	6	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:76222290G>A	uc002bbk.2	+	6	799	c.694G>A	c.(694-696)GCC>ACC	p.A232T	FBXO22_uc002bbj.1_Missense_Mutation_p.A232T|FBXO22_uc002bbl.2_Missense_Mutation_p.A128T	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	232					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0						TAAGGTGGGAGCCAGTAATTA	0.433													98	222	---	---	---	---	PASS	A	76222290	A	A	76222290	3	1	63	1	0	0	0	0	1	0	0	0	5734	971	34	3	716	3	FBXO22	15	76222290	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	9368761	76222290	26309102	221	24855										
TBC1D2B	23102	broad.mit.edu	37	chr15	78293997	78293997	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgcgagtgaagtagcggagaTacttaaatatagacatcgaa	11	5	0	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:78293997T>C	uc002bcy.3	-	12	2660	c.2660A>G	c.(2659-2661)TAT>TGT	p.Y887C	TBC1D2B_uc010bla.2_Missense_Mutation_p.Y887C	NM_144572	NP_653173	Q9UPU7	TBD2B_HUMAN	TBC1 domain family, member 2B isoform a	887						intracellular	protein binding|Rab GTPase activator activity			ovary(1)|large_intestine(1)|breast(1)	3						GTAGCGGAGATACTTAAATAT	0.443													15	18	---	---	---	---	PASS	C	78293997	C	C	78293997	3	2	63	1	0	0	0	0	1	0	0	0	15616	1406	49	5	239	5	TBC1D2B	15	78293997	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	2071707	78293997	24237395	222	24856										
RASGRF1	5923	broad.mit.edu	37	chr15	79298747	79298747	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttttgctgaagcgaatgtcaAcatcatcacaatataaggag	8	7	3	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:79298747A>T	uc002beq.2	-	15	2270	c.1895T>A	c.(1894-1896)GTT>GAT	p.V632D	RASGRF1_uc002bep.2_Missense_Mutation_p.V619D|RASGRF1_uc010blm.1_Missense_Mutation_p.V541D|RASGRF1_uc002ber.3_Missense_Mutation_p.V619D|RASGRF1_uc010unh.1_Missense_Mutation_p.V27D	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	632					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						GCGAATGTCAACATCATCACA	0.562													28	84	---	---	---	---	PASS	T	79298747	T	T	79298747	3	4	63	1	0	0	0	0	1	0	0	0	13072	43	2	5	1982	5	RASGRF1	15	79298747	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	1004750	79298747	23232645	223	24857										
FURIN	5045	broad.mit.edu	37	chr15	91425048	91425048	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gaggagtgcccgtctgactcAgaagaggacgagggccgggg	19	9	2	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:91425048A>T	uc002bpu.1	+	16	2541	c.2325A>T	c.(2323-2325)TCA>TCT	p.S775S	FES_uc010uqj.1_5'Flank|FES_uc010uqk.1_5'Flank|FES_uc002bpw.2_5'Flank|FES_uc002bpv.2_5'Flank	NM_002569	NP_002560	P09958	FURIN_HUMAN	furin preproprotein	775	Trans Golgi network signal.				cell proliferation|negative regulation of low-density lipoprotein particle receptor catabolic process|negative regulation of transforming growth factor-beta1 production|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|Notch signaling pathway|peptide biosynthetic process|peptidyl-glutamic acid carboxylation|post-translational protein modification|secretion by cell|signal peptide processing|transforming growth factor beta receptor signaling pathway|viral assembly, maturation, egress, and release	cell surface|Golgi lumen|Golgi membrane|integral to membrane|membrane raft|plasma membrane|trans-Golgi network|trans-Golgi network transport vesicle	metal ion binding|nerve growth factor binding|peptide binding|protease binding|serine-type endopeptidase activity|serine-type endopeptidase inhibitor activity			central_nervous_system(4)|lung(2)|breast(1)	7	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			CGTCTGACTCAGAAGAGGACG	0.622													41	65	---	---	---	---	PASS	T	91425048	T	T	91425048	2	4	63	1	0	0	0	0	0	0	0	1	6099	175	7	5		5	FURIN	15	91425048	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	12126301	91425048	11106344	224	24858										
UNC45A	55898	broad.mit.edu	37	chr15	91489919	91489919	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tcctgcctcctgcagggcccAtgtgacgctggcaaccgggc	13	16	0	1	rs12911432	byFrequency	TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:91489919A>T	uc002bqg.2	+	10	1615	c.1275A>T	c.(1273-1275)CCA>CCT	p.P425P	UNC45A_uc002bqd.2_Silent_p.P410P|UNC45A_uc010uqr.1_5'Flank|UNC45A_uc002bqi.2_5'Flank	NM_018671	NP_061141	Q9H3U1	UN45A_HUMAN	smooth muscle cell associated protein-1 isoform	425					cell differentiation|muscle organ development	nucleus|perinuclear region of cytoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			TGCAGGGCCCATGTGACGCTG	0.657													14	39	---	---	---	---	PASS	T	91489919	T	T	91489919	2	4	63	1	0	0	0	0	0	0	0	1	16985	204	8	5		5	UNC45A	15	91489919	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	64871	91489919	11041473	225	24859										
ADAMTS17	170691	broad.mit.edu	37	chr15	100871133	100871133	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctgctcaggtctctgggcctCagcagaagggctgggggtca	16	11	4	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr15:100871133C>T	uc002bvv.1	-	3	656	c.577G>A	c.(577-579)GAG>AAG	p.E193K	ADAMTS17_uc002bvx.1_5'UTR	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	193					proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		CTCTGGGCCTCAGCAGAAGGG	0.577													46	136	---	---	---	---	PASS	T	100871133	T	T	100871133	3	4	63	1	0	0	0	0	1	0	0	0	262	835	29	2	2790	2	ADAMTS17	15	100871133	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	9381214	100871133	1660259	226	24860										
BAIAP3	8938	broad.mit.edu	37	chr16	1396058	1396058	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gacactcagccaggggcggcCggtgaagcagtgagcgaggc	18	11	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr16:1396058C>A	uc002clk.1	+	24	2385	c.2385C>A	c.(2383-2385)GCC>GCA	p.A795A	BAIAP3_uc002clj.2_Silent_p.A777A|BAIAP3_uc010uuz.1_Silent_p.A760A|BAIAP3_uc010uva.1_Silent_p.A732A|BAIAP3_uc010uvc.1_Silent_p.A724A	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	795					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				CAGGGGCGGCCGGTGAAGCAG	0.677													4	7	---	---	---	---	PASS	A	1396058	A	A	1396058	2	1	63	1	0	0	0	0	0	0	0	1	1304	639	23	1		1	BAIAP3	16	1396058	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08		1396058	88958695	227	24861										
UNKL	64718	broad.mit.edu	37	chr16	1417165	1417165	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttcggcaggggaatggtgccGatgtccccacagccccgcag	14	14	0	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr16:1417165G>A	uc002cln.2	-	5	858	c.471C>T	c.(469-471)ATC>ATT	p.I157I	UNKL_uc010brn.1_Intron|UNKL_uc002clo.2_Silent_p.I154I|UNKL_uc002clp.2_Intron	NM_023076	NP_075564	Q9H9P5	UNKL_HUMAN	unkempt homolog (Drosophila)-like isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						cytoplasm|nucleus	ligase activity|nucleic acid binding|zinc ion binding				0		Hepatocellular(780;0.0893)				GAATGGTGCCGATGTCCCCAC	0.687													4	3	---	---	---	---	PASS	A	1417165	A	A	1417165	2	1	63	1	0	0	0	0	0	0	0	1	16998	1048	37	2		2	UNKL	16	1417165	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	21107	1417165	88937588	228	24862										
CORO7	79585	broad.mit.edu	37	chr16	4411466	4411466	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgggcaggcggccaggcttcCgtagctgtgggaggtgcccc	18	13	0	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr16:4411466C>T	uc002cwh.3	-	17	1703	c.1583G>A	c.(1582-1584)CGG>CAG	p.R528Q	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Missense_Mutation_p.R528Q|CORO7_uc002cwg.3_Missense_Mutation_p.R308Q|CORO7_uc010uxh.1_Missense_Mutation_p.R510Q|CORO7_uc010uxi.1_Missense_Mutation_p.R443Q|CORO7_uc002cwi.1_Missense_Mutation_p.R308Q|CORO7_uc010uxj.1_RNA	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	528						cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						GCCAGGCTTCCGTAGCTGTGG	0.682													29	25	---	---	---	---	PASS	T	4411466	T	T	4411466	3	4	63	1	0	0	0	0	1	0	0	0	3759	652	23	1	1242	1	CORO7	16	4411466	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	2994301	4411466	85943287	229	24863										
GRIN2A	2903	broad.mit.edu	37	chr16	9857192	9857192	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gatgccgttgacctcaaggaCgaccgaagatagctgtcatt	11	10	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr16:9857192C>G	uc002czo.3	-	13	4757	c.4209G>C	c.(4207-4209)TCG>TCC	p.S1403S	GRIN2A_uc010uym.1_Silent_p.S1403S|GRIN2A_uc010uyn.1_3'UTR|GRIN2A_uc002czr.3_3'UTR	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1403	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ACCTCAAGGACGACCGAAGAT	0.512													40	35	---	---	---	---	PASS	G	9857192	G	G	9857192	2	3	63	1	0	0	0	0	0	0	0	1	6779	523	19	4		4	GRIN2A	16	9857192	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	5445726	9857192	80497561	230	24864										
XYLT1	64131	broad.mit.edu	37	chr16	17294508	17294508	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	actgcacgttcttgttggctTtacctggggaaaatccaaga	10	9	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr16:17294508T>G	uc002dfa.2	-	4	1002	c.917A>C	c.(916-918)AAA>ACA	p.K306T		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	306	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						CTTGTTGGCTTTACCTGGGGA	0.547													82	89	---	---	---	---	PASS	G	17294508	G	G	17294508	3	3	63	1	0	0	0	0	1	0	0	0	17460	1841	64	5	1998	5	XYLT1	16	17294508	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	7437316	17294508	73060245	231	24865										
EEF2K	29904	broad.mit.edu	37	chr16	22262526	22262526	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tggaagggcgcctccaactaCgtggcgaagcgctacatcga	13	12	0	0	rs55959085	byFrequency	TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr16:22262526C>T	uc002dki.2	+	6	986	c.501C>T	c.(499-501)TAC>TAT	p.Y167Y	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	167	Alpha-type protein kinase.				insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		CCTCCAACTACGTGGCGAAGC	0.592													55	122	---	---	---	---	PASS	T	22262526	T	T	22262526	2	4	63	1	0	0	0	0	0	0	0	1	4930	547	19	1		1	EEF2K	16	22262526	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	4968018	22262526	68092227	232	24866										
GTF3C1	2975	broad.mit.edu	37	chr16	27497348	27497348	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aggacattgctggcaatgcgGcacagcacaagcagcccatc	11	13	0	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr16:27497348G>A	uc002dov.1	-	24	3868	c.3828C>T	c.(3826-3828)TGC>TGT	p.C1276C	GTF3C1_uc002dou.2_Silent_p.C1276C	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1276						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TGGCAATGCGGCACAGCACAA	0.632													4	161	---	---	---	---	PASS	A	27497348	A	A	27497348	2	1	63	1	0	0	0	0	0	0	0	1	6872	1195	42	3		3	GTF3C1	16	27497348	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	5234822	27497348	62857405	233	24867										
TRIM72	493829	broad.mit.edu	37	chr16	31235551	31235551	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tctgcgcacccgagcctggtGgtgtcttcctctggccgccg	13	16	3	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr16:31235551G>T	uc002ebn.1	+	7	1138	c.909G>T	c.(907-909)GTG>GTT	p.V303V	uc002ebp.1_5'Flank	NM_001008274	NP_001008275	Q6ZMU5	TRI72_HUMAN	tripartite motif-containing 72	303	B30.2/SPRY.				exocytosis|muscle organ development|muscle system process|plasma membrane repair|protein homooligomerization	cytoplasmic vesicle membrane|sarcolemma	phosphatidylserine binding|zinc ion binding				0						CGAGCCTGGTGGTGTCTTCCT	0.687													7	14	---	---	---	---	PASS	T	31235551	T	T	31235551	2	4	63	1	0	0	0	0	0	0	0	1	16542	1335	47	3		3	TRIM72	16	31235551	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	3738203	31235551	59119202	234	24868										
CBLN1	869	broad.mit.edu	37	chr16	49315138	49315138	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgaagtagatgatcatggtgCgattactcatctcggacggc	12	9	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr16:49315138C>T	uc002efq.2	-	1	578	c.239G>A	c.(238-240)CGC>CAC	p.R80H		NM_004352	NP_004343	P23435	CBLN1_HUMAN	cerebellin 1 precursor	80	C1q.|Necessary for interaction with CBLN3, and homotrimerization (By similarity).				nervous system development|synaptic transmission	cell junction|extracellular region|synapse					0		all_cancers(37;0.0766)|all_lung(18;0.24)				GATCATGGTGCGATTACTCAT	0.607													25	42	---	---	---	---	PASS	T	49315138	T	T	49315138	3	4	63	1	0	0	0	0	1	0	0	0	2704	768	27	1	354	1	CBLN1	16	49315138	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	18079587	49315138	41039615	235	24869										
FAM65A	79567	broad.mit.edu	37	chr16	67579917	67579917	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	actcgagtggctggctgcctGgccctaggctgcatcaaggt	14	12	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr16:67579917G>A	uc010vjp.1	+	20	3609	c.3513G>A	c.(3511-3513)CTG>CTA	p.L1171L	FAM65A_uc002eth.2_Silent_p.L1151L|FAM65A_uc010cej.2_Silent_p.L1154L|FAM65A_uc010vjq.1_Silent_p.L1165L|FAM65A_uc002etk.2_Silent_p.L1149L	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	1155						cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		CTGGCTGCCTGGCCCTAGGCT	0.652													9	94	---	---	---	---	PASS	A	67579917	A	A	67579917	2	1	63	1	0	0	0	0	0	0	0	1	5599	1335	47	3		3	FAM65A	16	67579917	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	18264779	67579917	22774836	236	24870										
FOXC2	2303	broad.mit.edu	37	chr16	86602312	86602312	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgggagatgttcaactcccaCcggctggggattgagaactc	13	11	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr16:86602312C>T	uc002fjq.2	+	1	1456	c.1371C>T	c.(1369-1371)CAC>CAT	p.H457H		NM_005251	NP_005242	Q99958	FOXC2_HUMAN	forkhead box C2	457					anti-apoptosis|artery morphogenesis|blood vessel remodeling|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|embryonic viscerocranium morphogenesis|insulin receptor signaling pathway|lymphangiogenesis|metanephros development|negative regulation of transcription from RNA polymerase II promoter|neural crest cell fate commitment|Notch signaling pathway|ossification|paraxial mesodermal cell fate commitment|patterning of blood vessels|positive regulation of cell adhesion mediated by integrin|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of vascular wound healing|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|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 factor binding|transcription regulatory region DNA binding				0						TCAACTCCCACCGGCTGGGGA	0.637									Late-onset_Hereditary_Lymphedema				17	28	---	---	---	---	PASS	T	86602312	T	T	86602312	2	4	63	1	0	0	0	0	0	0	0	1	5995	506	18	3		3	FOXC2	16	86602312	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	19022395	86602312	3752441	237	24871										
ANKRD11	29123	broad.mit.edu	37	chr16	89350274	89350274	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tctcgcttctcccgggcccgGctgtcccgcctcctctcctt	8	21	3	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr16:89350274G>C	uc002fmx.1	-	9	3137	c.2676C>G	c.(2674-2676)AGC>AGG	p.S892R	ANKRD11_uc002fmy.1_Missense_Mutation_p.S892R|ANKRD11_uc002fnc.1_Missense_Mutation_p.S892R|ANKRD11_uc002fnb.1_Missense_Mutation_p.S849R	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	892	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CCCGGGCCCGGCTGTCCCGCC	0.547													51	61	---	---	---	---	PASS	C	89350274	C	C	89350274	3	2	63	1	0	0	0	0	1	0	0	0	639	1194	42	4	5335	4	ANKRD11	16	89350274	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	2747962	89350274	1004479	238	24872										
GLTPD2	388323	broad.mit.edu	37	chr17	4692356	4692356	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcggcactggttcagccactCaattcctctcgctatcttcg	8	15	4	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:4692356C>T	uc002fza.1	+	1	103	c.50C>T	c.(49-51)TCA>TTA	p.S17L	VMO1_uc002fyx.2_5'Flank|VMO1_uc010vsh.1_5'Flank|VMO1_uc010vsi.1_5'Flank|VMO1_uc002fyy.2_5'Flank|uc002fyz.2_3'UTR	NM_001014985	NP_001014985			glycolipid transfer protein domain containing 2												0						TTCAGCCACTCAATTCCTCTC	0.662													5	31	---	---	---	---	PASS	T	4692356	T	T	4692356	3	4	63	1	0	0	0	0	1	0	0	0	6473	838	29	2	52	2	GLTPD2	17	4692356	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08		4692356	76502854	239	24873										
TP53	7157	broad.mit.edu	37	chr17	7577025	7577025	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tcctgcttgcttacctcgctTagtgctccctgggggcagct	11	14	0	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:7577025T>A	uc002gim.2	-	8	1107	c.913A>T	c.(913-915)AAG>TAG	p.K305*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.K305*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.K173*|TP53_uc010cng.1_Nonsense_Mutation_p.K173*|TP53_uc002gii.1_Nonsense_Mutation_p.K173*|TP53_uc010cnh.1_Nonsense_Mutation_p.K305*|TP53_uc010cni.1_Nonsense_Mutation_p.K305*|TP53_uc002gij.2_Nonsense_Mutation_p.K305*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	305	Bipartite nuclear localization signal.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.		K -> E (in a sporadic cancer; somatic mutation).|K -> R (in sporadic cancers; somatic mutation).|K -> T (in a sporadic cancer; somatic mutation).|K -> N (in sporadic cancers; somatic mutation; loss of nuclear localization).|K -> M (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.K305*(15)|p.0?(7)|p.?(3)|p.K305N(3)|p.K305R(2)|p.K305K(1)|p.L265_K305del41(1)|p.K305E(1)|p.K305fs*1(1)|p.K305fs*32(1)|p.K305T(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)		TTACCTCGCTTAGTGCTCCCT	0.562		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			108	66	---	---	---	---	PASS	A	7577025	A	A	7577025	4	1	63	1	0	0	0	0	0	1	0	0	16378	1763	61	5	373	5	TP53	17	7577025	Nonsense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	2884669	7577025	73618185	240	24874										
TRAPPC1	58485	broad.mit.edu	37	chr17	7834841	7834841	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tacatgtctagcggggacatCttgctgacaaacgagcggat	12	9	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:7834841C>T	uc002gjo.1	-	2	269	c.153G>A	c.(151-153)AAG>AAA	p.K51K	KCNAB3_uc002gjm.1_5'Flank|KCNAB3_uc010vul.1_5'Flank|CNTROB_uc002gjp.2_5'Flank|CNTROB_uc002gjq.2_5'Flank|CNTROB_uc002gjr.2_5'Flank	NM_021210	NP_067033	Q9Y5R8	TPPC1_HUMAN	trafficking protein particle complex 1	51					ER to Golgi vesicle-mediated transport	endoplasmic reticulum					0		Prostate(122;0.173)				GCGGGGACATCTTGCTGACAA	0.542													26	63	---	---	---	---	PASS	T	7834841	T	T	7834841	2	4	63	1	0	0	0	0	0	0	0	1	16453	912	32	2		2	TRAPPC1	17	7834841	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	257816	7834841	73360369	241	24875										
DNAH9	1770	broad.mit.edu	37	chr17	11666769	11666769	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctttgcaggtttaagaagatCattcccatcccagagcagag	9	10	1	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:11666769C>A	uc002gne.2	+	36	7076	c.7008C>A	c.(7006-7008)ATC>ATA	p.I2336I	DNAH9_uc010coo.2_Silent_p.I1630I	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2336					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TTAAGAAGATCATTCCCATCC	0.498													5	259	---	---	---	---	PASS	A	11666769	A	A	11666769	2	1	63	1	0	0	0	0	0	0	0	1	4608	816	29	2		2	DNAH9	17	11666769	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	3831928	11666769	69528441	242	24876										
ACCN1	40	broad.mit.edu	37	chr17	32483431	32483431	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cactgcccacagcacacgccGgatggtcagcggcccataca	10	17	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:32483431G>A	uc002hhu.2	-	1	395	c.121C>T	c.(121-123)CGG>TGG	p.R41W		NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	41	Helical; (Potential).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	AGCACACGCCGGATGGTCAGC	0.602													4	69	---	---	---	---	PASS	A	32483431	A	A	32483431	3	1	63	1	0	0	0	0	1	0	0	0	128	1115	39	1	2169	1	ACCN1	17	32483431	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	20816662	32483431	48711779	243	24877										
KRT24	192666	broad.mit.edu	37	chr17	38857508	38857508	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tttccgcaggccattgatgtCagcctccacgctctgccgga	10	15	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:38857508C>T	uc002hvd.2	-	3	796	c.739G>A	c.(739-741)GAC>AAC	p.D247N		NM_019016	NP_061889	Q2M2I5	K1C24_HUMAN	keratin 24	247	Rod.|Coil 1B.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.00526)				CCATTGATGTCAGCCTCCACG	0.547													31	72	---	---	---	---	PASS	T	38857508	T	T	38857508	3	4	63	1	0	0	0	0	1	0	0	0	8461	826	29	2	862	2	KRT24	17	38857508	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	6374077	38857508	42337702	244	24878										
KIAA1267	284058	broad.mit.edu	37	chr17	44109491	44109491	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgcggagtgtcccgagccacAggggtgaggggtgctgagtg	20	9	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:44109491A>G	uc002ikb.2	-	13	3097	c.3012T>C	c.(3010-3012)CCT>CCC	p.P1004P	KIAA1267_uc002ikc.2_Silent_p.P1004P|KIAA1267_uc002ikd.2_Silent_p.P1004P|KIAA1267_uc010dav.2_Silent_p.P1003P|KIAA1267_uc010wkb.1_Silent_p.P335P|KIAA1267_uc010wkc.1_Silent_p.P272P	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	1004						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				CCCGAGCCACAGGGGTGAGGG	0.592													3	118	---	---	---	---	PASS	G	44109491	G	G	44109491	2	3	63	1	0	0	0	0	0	0	0	1	8219	175	7	5		5	KIAA1267	17	44109491	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	5251983	44109491	37085719	245	24879										
LPO	4025	broad.mit.edu	37	chr17	56320361	56320361	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	atgagggtccttctccatctCccagccctcctggcttccct	7	18	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:56320361C>G	uc002ivt.2	+	2	337	c.21C>G	c.(19-21)CTC>CTG	p.L7L	LPO_uc010dco.2_Silent_p.L7L|LPO_uc010wnr.1_Silent_p.L7L|LPO_uc010wns.1_5'UTR|LPO_uc010dcp.2_Silent_p.L7L	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	7					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						TTCTCCATCTCCCAGCCCTCC	0.468													83	235	---	---	---	---	PASS	G	56320361	G	G	56320361	2	3	63	1	0	0	0	0	0	0	0	1	8922	842	30	2		2	LPO	17	56320361	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	12210870	56320361	24874849	246	24880										
HEATR6	63897	broad.mit.edu	37	chr17	58128309	58128309	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agggctctgggtaaaggaccGttcagcatcatagtccagaa	12	9	3	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:58128309G>T	uc002iyk.1	-	15	2336	c.2319C>A	c.(2317-2319)AAC>AAA	p.N773K	HEATR6_uc010ddk.1_Missense_Mutation_p.N312K|HEATR6_uc010wos.1_Intron	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	773							binding			ovary(1)|skin(1)	2	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			GTAAAGGACCGTTCAGCATCA	0.537													18	59	---	---	---	---	PASS	T	58128309	T	T	58128309	3	4	63	1	0	0	0	0	1	0	0	0	7033	1136	40	1	1250	1	HEATR6	17	58128309	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	1807948	58128309	23066901	247	24881										
ABCA9	10350	broad.mit.edu	37	chr17	67028385	67028385	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ccaaaaacaggatttcaggaAaaacaagggagaacatcgat	9	7	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:67028385A>G	uc002jhu.2	-	10	1452	c.1309T>C	c.(1309-1311)TTC>CTC	p.F437L	ABCA9_uc010dez.2_Missense_Mutation_p.F437L	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	437					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					GATTTCAGGAAAAACAAGGGA	0.423													37	80	---	---	---	---	PASS	G	67028385	G	G	67028385	3	3	63	1	0	0	0	0	1	0	0	0	39	14	1	5	3685	5	ABCA9	17	67028385	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	8900076	67028385	14166825	248	24882										
ABCA6	23460	broad.mit.edu	37	chr17	67109871	67109871	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgtccaattccaataatattCgttgtacctatatgagaaaa	5	7	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:67109871C>A	uc002jhw.1	-	14	1965	c.1790G>T	c.(1789-1791)CGA>CTA	p.R597L	ABCA6_uc002jhx.1_Missense_Mutation_p.R50L	NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	597	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					CAATAATATTCGTTGTACCTA	0.224													3	98	---	---	---	---	PASS	A	67109871	A	A	67109871	3	1	63	1	0	0	0	0	1	0	0	0	36	884	31	2	3167	2	ABCA6	17	67109871	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	81486	67109871	14085339	249	24883										
TSEN54	283989	broad.mit.edu	37	chr17	73517590	73517590	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agaggagcagctccagccctCggtaactcccacatcacggt	10	15	1	1	rs147165460		TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:73517590C>A	uc002jof.1	+	7	655	c.622C>A	c.(622-624)CGG>AGG	p.R208R	TSEN54_uc002joe.1_3'UTR	NM_207346	NP_997229	Q7Z6J9	SEN54_HUMAN	tRNA splicing endonuclease 54 homolog	208					mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	nucleolus				ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			CTCCAGCCCTCGGTAACTCCC	0.587													6	67	---	---	---	---	PASS	A	73517590	A	A	73517590	2	1	63	1	0	0	0	0	0	0	0	1	16611	898	31	2		2	TSEN54	17	73517590	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	6407719	73517590	7677620	250	24884										
EVPL	2125	broad.mit.edu	37	chr17	74013980	74013980	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cctgtgggttggccaggtctGagccagatggagctgggggc	19	9	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:74013980G>C	uc002jqi.2	-	14	1778	c.1550C>G	c.(1549-1551)TCA>TGA	p.S517*	EVPL_uc010wss.1_Nonsense_Mutation_p.S539*|EVPL_uc010wst.1_5'UTR	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	517	Globular 1.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						GGCCAGGTCTGAGCCAGATGG	0.657													24	57	---	---	---	---	PASS	C	74013980	C	C	74013980	4	2	63	1	0	0	0	0	0	1	0	0	5292	1294	45	2	4587	2	EVPL	17	74013980	Nonsense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	496390	74013980	7181230	251	24885										
TBCD	6904	broad.mit.edu	37	chr17	80828142	80828142	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gctgacctacgacgagaagcGgggtgcctgcagcgtgggca	17	11	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr17:80828142G>T	uc002kfz.2	+	14	1491	c.1361G>T	c.(1360-1362)CGG>CTG	p.R454L	TBCD_uc002kfx.1_Missense_Mutation_p.R437L|TBCD_uc002kfy.1_Missense_Mutation_p.R454L	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	454					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			GACGAGAAGCGGGGTGCCTGC	0.632													23	58	---	---	---	---	PASS	T	80828142	T	T	80828142	3	4	63	1	0	0	0	0	1	0	0	0	15630	1116	39	1	1415	1	TBCD	17	80828142	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	6814162	80828142	367068	252	24886										
COLEC12	81035	broad.mit.edu	37	chr18	346755	346755	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgacctgtgaatgagttgagCtggctgttcatatcctccag	11	9	1	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr18:346755C>A	uc002kkm.2	-	5	1082	c.867G>T	c.(865-867)CAG>CAT	p.Q289H		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	289	Potential.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				ATGAGTTGAGCTGGCTGTTCA	0.507													106	70	---	---	---	---	PASS	A	346755	A	A	346755	3	1	63	1	0	0	0	0	1	0	0	0	3712	796	28	3	1385	3	COLEC12	18	346755	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08		346755	77730493	253	24887										
EPB41L3	23136	broad.mit.edu	37	chr18	5395077	5395077	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	acacactacctggtcatggtCaatgtctgcatcccccgtga	8	14	3	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr18:5395077C>T	uc002kmt.1	-	21	3228	c.3142G>A	c.(3142-3144)GAC>AAC	p.D1048N	EPB41L3_uc010wzh.1_Missense_Mutation_p.D879N|EPB41L3_uc002kmu.1_Missense_Mutation_p.D826N|EPB41L3_uc010dkq.1_Missense_Mutation_p.D717N|EPB41L3_uc002kms.1_Missense_Mutation_p.D283N|EPB41L3_uc010wze.1_Missense_Mutation_p.D353N|EPB41L3_uc010wzf.1_Missense_Mutation_p.D345N|EPB41L3_uc010wzg.1_Missense_Mutation_p.D320N|EPB41L3_uc010dkr.2_Missense_Mutation_p.D440N	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	1048	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TGGTCATGGTCAATGTCTGCA	0.448													77	57	---	---	---	---	PASS	T	5395077	T	T	5395077	3	4	63	1	0	0	0	0	1	0	0	0	5154	826	29	2	129	2	EPB41L3	18	5395077	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	5048322	5395077	72682171	254	24888										
KLHL14	57565	broad.mit.edu	37	chr18	30321982	30321982	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ccaggaggcagccctccaacCaataacagcattttcttgtt	7	13	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr18:30321982C>A	uc002kxm.1	-	3	1366	c.978G>T	c.(976-978)TTG>TTT	p.L326F	KLHL14_uc010dmd.1_5'UTR	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	326	Kelch 1.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						GCCCTCCAACCAATAACAGCA	0.433													56	35	---	---	---	---	PASS	A	30321982	A	A	30321982	3	1	63	1	0	0	0	0	1	0	0	0	8370	593	21	3	936	3	KLHL14	18	30321982	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	24926905	30321982	47755266	255	24889										
ZNF532	55205	broad.mit.edu	37	chr18	56585940	56585940	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gtgctgaagagtttgatgacGacgagaagattgaggtggat	16	3	0	7			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr18:56585940G>C	uc002lho.2	+	4	968	c.421G>C	c.(421-423)GAC>CAC	p.D141H	ZNF532_uc002lhp.2_Missense_Mutation_p.D139H|ZNF532_uc010xeg.1_Missense_Mutation_p.D139H|ZNF532_uc002lhr.2_Missense_Mutation_p.D139H|ZNF532_uc002lhs.2_Missense_Mutation_p.D139H	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	141					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						GTTTGATGACGACGAGAAGAT	0.532													106	83	---	---	---	---	PASS	C	56585940	C	C	56585940	3	2	63	1	0	0	0	0	1	0	0	0	17969	1058	37	2	423	2	ZNF532	18	56585940	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	26263958	56585940	21491308	256	24890										
ZNF557	79230	broad.mit.edu	37	chr19	7082904	7082904	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aataggagaggaatcatcttGgagcaacactcaacgaatgt	10	7	3	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:7082904G>C	uc002mgb.2	+	8	906	c.421G>C	c.(421-423)GGA>CGA	p.G141R	ZNF557_uc002mga.2_Missense_Mutation_p.G148R|ZNF557_uc002mgc.2_Missense_Mutation_p.G148R	NM_001044388	NP_001037853	Q8N988	ZN557_HUMAN	zinc finger protein 557 isoform b	141					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2				Lung(535;0.179)		GAATCATCTTGGAGCAACACT	0.373													39	104	---	---	---	---	PASS	C	7082904	C	C	7082904	3	2	63	1	0	0	0	0	1	0	0	0	17985	1349	47	4	464	4	ZNF557	19	7082904	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08		7082904	52046079	257	24891										
ACTL9	284382	broad.mit.edu	37	chr19	8808393	8808393	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggttgcccgccaggtccagaCgctccgtggcgtggagcagg	17	13	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:8808393C>T	uc002mkl.2	-	1	780	c.659G>A	c.(658-660)CGT>CAT	p.R220H		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	220						cytoplasm|cytoskeleton		p.R220H(1)		large_intestine(2)|pancreas(1)	3						CAGGTCCAGACGCTCCGTGGC	0.682													27	53	---	---	---	---	PASS	T	8808393	T	T	8808393	3	4	63	1	0	0	0	0	1	0	0	0	203	536	19	1	595	1	ACTL9	19	8808393	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	1725489	8808393	50320590	258	24892										
MUC16	94025	broad.mit.edu	37	chr19	9048969	9048969	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tggaatagttgtactgatcaCtgccctagaactggtgacca	10	9	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:9048969C>A	uc002mkp.2	-	5	32866	c.32662G>T	c.(32662-32664)GTG>TTG	p.V10888L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10890	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTACTGATCACTGCCCTAGAA	0.498													62	129	---	---	---	---	PASS	A	9048969	A	A	9048969	3	1	63	1	0	0	0	0	1	0	0	0	9973	565	20	3	11181	3	MUC16	19	9048969	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	240576	9048969	50080014	259	24893										
MUC16	94025	broad.mit.edu	37	chr19	9071041	9071041	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gttagtctgagagatattagGagttgatgtggaaacacttg	13	3	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:9071041G>A	uc002mkp.2	-	3	16609	c.16405C>T	c.(16405-16407)CCT>TCT	p.P5469S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5471	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAGATATTAGGAGTTGATGTG	0.502													67	187	---	---	---	---	PASS	A	9071041	A	A	9071041	3	1	63	1	0	0	0	0	1	0	0	0	9973	1174	41	2	27446	2	MUC16	19	9071041	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	22072	9071041	50057942	260	24894										
ZNF878	729747	broad.mit.edu	37	chr19	12155941	12155941	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctccaggagttttcttcttcAgtgtgtcatctggaacctgt	9	10	5	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:12155941A>G	uc002mta.1	-	5	416	c.416T>C	c.(415-417)CTG>CCG	p.L139P		NM_001080404	NP_001073873	C9JN71	ZN878_HUMAN	zinc finger protein 878	92					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						TTTCTTCTTCAGTGTGTCATC	0.423													22	35	---	---	---	---	PASS	G	12155941	G	G	12155941	3	3	63	1	0	0	0	0	1	0	0	0	18193	188	7	5	1324	5	ZNF878	19	12155941	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	3084900	12155941	46973042	261	24895										
EPS15L1	58513	broad.mit.edu	37	chr19	16514640	16514640	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgctccagctgggtttcctcCtgctgcaatcggttcagctc	10	14	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:16514640C>T	uc002ndz.1	-	15	1536	c.1530G>A	c.(1528-1530)CAG>CAA	p.Q510Q	EPS15L1_uc002ndx.2_Silent_p.Q510Q|EPS15L1_uc002ndy.2_RNA|EPS15L1_uc010xpe.1_Silent_p.Q400Q|EPS15L1_uc010xpf.1_Silent_p.Q413Q|EPS15L1_uc002nea.1_Silent_p.Q510Q|EPS15L1_uc010eah.1_Silent_p.Q510Q|EPS15L1_uc002neb.1_Silent_p.Q356Q|EPS15L1_uc002nec.1_Silent_p.Q510Q	NM_021235	NP_067058	Q9UBC2	EP15R_HUMAN	epidermal growth factor receptor pathway	510					endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|nucleus|plasma membrane	calcium ion binding			ovary(3)|skin(2)	5						GGGTTTCCTCCTGCTGCAATC	0.512													46	129	---	---	---	---	PASS	T	16514640	T	T	16514640	2	4	63	1	0	0	0	0	0	0	0	1	5193	680	24	3		3	EPS15L1	19	16514640	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	4358699	16514640	42614343	262	24896										
ZNF99	7652	broad.mit.edu	37	chr19	22940575	22940575	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gttgaggactggctaaaagcTttgccacattcttcacattt	8	9	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:22940575T>C	uc010xrh.1	-	5	1863	c.1863A>G	c.(1861-1863)AAA>AAG	p.K621K		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)				GGCTAAAAGCTTTGCCACATT	0.378													3	161	---	---	---	---	PASS	C	22940575	C	C	22940575	2	2	63	1	0	0	0	0	0	0	0	1	18201	1606	56	5		5	ZNF99	19	22940575	Silent	SNP	T	TCGA-34-2596-01A-01D-1522-08	6425935	22940575	36188408	263	24897										
CD22	933	broad.mit.edu	37	chr19	35823511	35823511	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tttgagcaccctgaaaccctCtacgcctgggagggggcctg	13	13	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:35823511C>T	uc010edt.2	+	3	173	c.96C>T	c.(94-96)CTC>CTT	p.L32L	CD22_uc010xst.1_5'UTR|CD22_uc010edu.2_Silent_p.L32L|CD22_uc010edv.2_Silent_p.L32L|CD22_uc002nzb.3_Silent_p.L32L	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	32	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)	CTGAAACCCTCTACGCCTGGG	0.502													33	97	---	---	---	---	PASS	T	35823511	T	T	35823511	2	4	63	1	0	0	0	0	0	0	0	1	2985	900	32	2		2	CD22	19	35823511	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	12882936	35823511	23305472	264	24898										
ATP4A	495	broad.mit.edu	37	chr19	36050967	36050967	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgtgttcaccaccaggccctGcacggtgcctgcaggggggc	15	15	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:36050967G>T	uc002oal.1	-	7	825	c.796C>A	c.(796-798)CAG>AAG	p.Q266K	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	266	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	ACCAGGCCCTGCACGGTGCCT	0.652													23	53	---	---	---	---	PASS	T	36050967	T	T	36050967	3	4	63	1	0	0	0	0	1	0	0	0	1145	1328	46	3	2375	3	ATP4A	19	36050967	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	227456	36050967	23078016	265	24899										
NPHS1	4868	broad.mit.edu	37	chr19	36322217	36322217	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ccgtggagctctgagtgtccCgctctcctgtccactggctc	11	16	2	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:36322217C>A	uc002oby.2	-	26	3368	c.3368G>T	c.(3367-3369)CGG>CTG	p.R1123L	NPHS1_uc010eem.1_RNA	NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	1123	Cytoplasmic (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTGAGTGTCCCGCTCTCCTGT	0.612													38	96	---	---	---	---	PASS	A	36322217	A	A	36322217	3	1	63	1	0	0	0	0	1	0	0	0	10582	652	23	1	373	1	NPHS1	19	36322217	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	271250	36322217	22806766	266	24900										
C19orf46	163183	broad.mit.edu	37	chr19	36499208	36499208	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aggctcattgccccttggccCaccctggaagtgctcaggag	12	14	2	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:36499208C>T	uc002ocq.1	-	2	279	c.190G>A	c.(190-192)GGG>AGG	p.G64R	C19orf46_uc002ocr.1_Missense_Mutation_p.G64R|C19orf46_uc002ocs.1_Missense_Mutation_p.G64R|C19orf46_uc010een.1_Intron	NM_001039876	NP_001034965	Q8N205	SYNE4_HUMAN	hypothetical protein LOC163183	64	Cytoplasmic (Potential).				establishment of epithelial cell apical/basal polarity	integral to nuclear outer membrane	actin binding			ovary(1)	1	all_lung(56;1.35e-06)|Lung NSC(56;2.15e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CCCCTTGGCCCACCCTGGAAG	0.657													14	55	---	---	---	---	PASS	T	36499208	T	T	36499208	3	4	63	1	0	0	0	0	1	0	0	0	1929	594	21	3	1052	3	C19orf46	19	36499208	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	176991	36499208	22629775	267	24901										
HNRNPL	3191	broad.mit.edu	37	chr19	39329235	39329235	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	atgatggctggctgcttggaGacactgcagcaaggaagaaa	14	7	0	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:39329235G>A	uc010xul.1	-	10	1370	c.1359C>T	c.(1357-1359)GTC>GTT	p.V453V	HNRNPL_uc010ege.1_Intron|HNRNPL_uc002ojj.1_Silent_p.V109V|HNRNPL_uc002ojo.1_Silent_p.V31V|HNRNPL_uc002ojk.2_Silent_p.V109V|HNRNPL_uc002ojl.2_Silent_p.V109V|HNRNPL_uc010xum.1_Silent_p.V320V	NM_001533	NP_001524	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	453	RRM 3.				nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			GCTGCTTGGAGACACTGCAGC	0.537													15	36	---	---	---	---	PASS	A	39329235	A	A	39329235	2	1	63	1	0	0	0	0	0	0	0	1	7270	929	33	2		2	HNRNPL	19	39329235	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	2830027	39329235	19799748	268	24902										
LRFN1	57622	broad.mit.edu	37	chr19	39805491	39805491	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agatccaggtcctccacggtGgacaggaaggcgtcaaaggc	14	11	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:39805491G>A	uc002okw.2	-	1	486	c.486C>T	c.(484-486)TCC>TCT	p.S162S		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	162	Extracellular (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane				ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			CCTCCACGGTGGACAGGAAGG	0.652													5	13	---	---	---	---	PASS	A	39805491	A	A	39805491	2	1	63	1	0	0	0	0	0	0	0	1	8937	1335	47	3		3	LRFN1	19	39805491	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	476256	39805491	19323492	269	24903										
SAMD4B	55095	broad.mit.edu	37	chr19	39847546	39847546	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ccggcaccatgatgttccgaGaccaggtgggcatcctcgct	12	14	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:39847546G>A	uc002olb.2	+	5	1048	c.13G>A	c.(13-15)GAC>AAC	p.D5N	SAMD4B_uc002ola.2_Missense_Mutation_p.D5N	NM_018028	NP_060498	Q5PRF9	SMAG2_HUMAN	sterile alpha motif domain containing 4B	5							protein binding				0	all_cancers(60;2.5e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			GATGTTCCGAGACCAGGTGGG	0.657													5	31	---	---	---	---	PASS	A	39847546	A	A	39847546	3	1	63	1	0	0	0	0	1	0	0	0	13822	942	33	2	15	2	SAMD4B	19	39847546	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	42055	39847546	19281437	270	24904										
LTBP4	8425	broad.mit.edu	37	chr19	41120238	41120238	+	Missense_Mutation	SNP	G	C	C													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cagacgtggacgaatgtcgcGagcgaggcccagccctgtgc							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:41120238G>C	uc002ooh.1	+	22	2899	c.2899G>C	c.(2899-2901)GAG>CAG	p.E967Q	LTBP4_uc002oog.1_Missense_Mutation_p.E930Q|LTBP4_uc002ooi.1_Missense_Mutation_p.E900Q|LTBP4_uc002ooj.1_5'UTR|LTBP4_uc002ook.1_Missense_Mutation_p.E187Q|LTBP4_uc002ool.1_Missense_Mutation_p.E65Q|LTBP4_uc002oom.1_RNA|LTBP4_uc010xvp.1_5'UTR	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	967	Cys-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CGAATGTCGCGAGCGAGGCCC	0.587													18	42	---	---	---	---	PASS	C	41120238	C	C	41120238	3	2	63	1	0	0	0	0	1	0	0	0	9076	1059	37	2	3278	2	LTBP4	19	41120238	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	1272692	41120238	18008745	271	24905	533	2								
LTBP4	8425	broad.mit.edu	37	chr19	41120242	41120242	+	Missense_Mutation	SNP	G	T	T													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cgtggacgaatgtcgcgagcGaggcccagccctgtgcgggt							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:41120242G>T	uc002ooh.1	+	22	2903	c.2903G>T	c.(2902-2904)CGA>CTA	p.R968L	LTBP4_uc002oog.1_Missense_Mutation_p.R931L|LTBP4_uc002ooi.1_Missense_Mutation_p.R901L|LTBP4_uc002ooj.1_5'UTR|LTBP4_uc002ook.1_Missense_Mutation_p.R188L|LTBP4_uc002ool.1_Missense_Mutation_p.R66L|LTBP4_uc002oom.1_RNA|LTBP4_uc010xvp.1_5'UTR	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	968	Cys-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TGTCGCGAGCGAGGCCCAGCC	0.607													18	40	---	---	---	---	PASS	T	41120242	T	T	41120242	3	4	63	1	0	0	0	0	1	0	0	0	9076	1058	37	2	3282	2	LTBP4	19	41120242	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	4	41120242	18008741	272	24906	533	2								
LTBP4	8425	broad.mit.edu	37	chr19	41120337	41120337	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctgggtaccacgcgggccccGagggcacctgtgacggtgag	17	13	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:41120337G>A	uc002ooh.1	+	22	2998	c.2998G>A	c.(2998-3000)GAG>AAG	p.E1000K	LTBP4_uc002oog.1_Missense_Mutation_p.E963K|LTBP4_uc002ooi.1_Missense_Mutation_p.E933K|LTBP4_uc002ooj.1_5'UTR|LTBP4_uc002ook.1_Missense_Mutation_p.E220K|LTBP4_uc002ool.1_Missense_Mutation_p.E98K|LTBP4_uc002oom.1_RNA|LTBP4_uc010xvp.1_5'UTR	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1000	Cys-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CGCGGGCCCCGAGGGCACCTG	0.716													5	17	---	---	---	---	PASS	A	41120337	A	A	41120337	3	1	63	1	0	0	0	0	1	0	0	0	9076	1059	37	2	3377	2	LTBP4	19	41120337	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	95	41120337	18008646	273	24907										
CYP2A13	1553	broad.mit.edu	37	chr19	41596057	41596057	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cggcatcgaggaacgcatccAggaggaggcgggcttcctca	15	12	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:41596057A>T	uc002opt.2	+	3	458	c.449A>T	c.(448-450)CAG>CTG	p.Q150L		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	150					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	GAACGCATCCAGGAGGAGGCG	0.692													18	75	---	---	---	---	PASS	T	41596057	T	T	41596057	3	4	63	1	0	0	0	0	1	0	0	0	4161	188	7	5	459	5	CYP2A13	19	41596057	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	475720	41596057	17532926	274	24908										
ERF	2077	broad.mit.edu	37	chr19	42752689	42752689	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gagctcacccgccttggggtGaggggccccccagcctcccc	13	19	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:42752689G>C	uc002ote.3	-	4	1733	c.1575C>G	c.(1573-1575)CTC>CTG	p.L525L	ERF_uc002otd.3_Silent_p.L256L	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	525					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				GCCTTGGGGTGAGGGGCCCCC	0.711													13	45	---	---	---	---	PASS	C	42752689	C	C	42752689	2	2	63	1	0	0	0	0	0	0	0	1	5221	1277	45	2		2	ERF	19	42752689	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	1156632	42752689	16376294	275	24909										
ZNF229	7772	broad.mit.edu	37	chr19	44933863	44933863	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gtgcaccccttgatgaataaGaagaaccgatttatacctga	8	9	0	5			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:44933863G>C	uc002oze.1	-	6	1527	c.1093C>G	c.(1093-1095)CTT>GTT	p.L365V	ZNF229_uc010ejk.1_Missense_Mutation_p.L19V|ZNF229_uc010ejl.1_Missense_Mutation_p.L359V	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	365	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				TGATGAATAAGAAGAACCGAT	0.493													69	219	---	---	---	---	PASS	C	44933863	C	C	44933863	3	2	63	1	0	0	0	0	1	0	0	0	17779	942	33	2	1388	2	ZNF229	19	44933863	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	2181174	44933863	14195120	276	24910										
SYMPK	8189	broad.mit.edu	37	chr19	46328447	46328447	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	accggctgctcaatgaccctCagcaccgtccgcttgatgtc	9	16	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:46328447C>T	uc002pdn.2	-	18	2717	c.2472G>A	c.(2470-2472)CTG>CTA	p.L824L	SYMPK_uc002pdo.1_Silent_p.L824L|SYMPK_uc002pdp.1_Silent_p.L824L	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	824					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		CAATGACCCTCAGCACCGTCC	0.647													42	70	---	---	---	---	PASS	T	46328447	T	T	46328447	2	4	63	1	0	0	0	0	0	0	0	1	15436	813	29	2		2	SYMPK	19	46328447	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	1394584	46328447	12800536	277	24911										
SIGLEC10	89790	broad.mit.edu	37	chr19	51920496	51920496	+	Silent	SNP	C	A	A													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ccagtgagctggaatcggccCcgggtgctcatttccacctc							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:51920496C>A	uc002pwo.2	-	2	877	c.261G>T	c.(259-261)CGG>CGT	p.R87R	SIGLEC10_uc002pwp.2_Silent_p.R87R|SIGLEC10_uc002pwq.2_Silent_p.R87R|SIGLEC10_uc002pwr.2_Silent_p.R87R|SIGLEC10_uc010ycy.1_Silent_p.R87R|SIGLEC10_uc010ycz.1_Silent_p.R87R|SIGLEC10_uc010eow.2_Intron|SIGLEC10_uc002pws.1_Silent_p.R71R	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	87	Extracellular (Potential).|Ig-like V-type.				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GGAATCGGCCCCGGGTGCTCA	0.577													34	105	---	---	---	---	PASS	A	51920496	A	A	51920496	2	1	63	1	0	0	0	0	0	0	0	1	14306	610	22	3		3	SIGLEC10	19	51920496	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	5592049	51920496	7208487	278	24912	534	2								
SIGLEC10	89790	broad.mit.edu	37	chr19	51920497	51920497	+	Missense_Mutation	SNP	C	A	A													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cagtgagctggaatcggcccCgggtgctcatttccacctct							TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:51920497C>A	uc002pwo.2	-	2	876	c.260G>T	c.(259-261)CGG>CTG	p.R87L	SIGLEC10_uc002pwp.2_Missense_Mutation_p.R87L|SIGLEC10_uc002pwq.2_Missense_Mutation_p.R87L|SIGLEC10_uc002pwr.2_Missense_Mutation_p.R87L|SIGLEC10_uc010ycy.1_Missense_Mutation_p.R87L|SIGLEC10_uc010ycz.1_Missense_Mutation_p.R87L|SIGLEC10_uc010eow.2_Intron|SIGLEC10_uc002pws.1_Missense_Mutation_p.R71L	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	87	Extracellular (Potential).|Ig-like V-type.				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GAATCGGCCCCGGGTGCTCAT	0.572													35	105	---	---	---	---	PASS	A	51920497	A	A	51920497	3	1	63	1	0	0	0	0	1	0	0	0	14306	652	23	1	1873	1	SIGLEC10	19	51920497	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	1	51920497	7208486	279	24913	534	2								
ZNF616	90317	broad.mit.edu	37	chr19	52618244	52618244	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggaaaacaaccgcccaaaggCtttgccacattcaatacatt	6	12	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:52618244C>A	uc002pym.2	-	4	2456	c.2173G>T	c.(2173-2175)GCC>TCC	p.A725S	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	725	C2H2-type 20.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		CGCCCAAAGGCTTTGCCACAT	0.393													5	275	---	---	---	---	PASS	A	52618244	A	A	52618244	3	1	63	1	0	0	0	0	1	0	0	0	18038	797	28	3	176	3	ZNF616	19	52618244	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	697747	52618244	6510739	280	24914										
ZNF761	388561	broad.mit.edu	37	chr19	53959386	53959386	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	atcccttacctgccatcgtaGacttcattctggagagaaac	7	12	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:53959386G>C	uc010eqp.2	+	7	2083	c.1625G>C	c.(1624-1626)AGA>ACA	p.R542T	ZNF761_uc010ydy.1_Missense_Mutation_p.R488T|ZNF761_uc002qbt.1_Missense_Mutation_p.R488T	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	542	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		TGCCATCGTAGACTTCATTCT	0.448													6	180	---	---	---	---	PASS	C	53959386	C	C	53959386	3	2	63	1	0	0	0	0	1	0	0	0	18133	942	33	2	1636	2	ZNF761	19	53959386	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	1341142	53959386	5169597	281	24915										
HSPBP1	23640	broad.mit.edu	37	chr19	55785929	55785929	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gccgcccgccaccgcagtccCgcagcccccgcctccaggta	10	23	0	0	rs141770023	byFrequency	TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:55785929C>A	uc002qjx.2	-	3	725	c.615G>T	c.(613-615)GCG>GCT	p.A205A	HSPBP1_uc002qjy.2_Silent_p.A159A|HSPBP1_uc002qkb.2_Silent_p.A159A|HSPBP1_uc002qka.2_Silent_p.A159A|HSPBP1_uc002qkd.2_Silent_p.A159A|HSPBP1_uc002qkc.2_Silent_p.A159A	NM_012267	NP_036399	Q9NZL4	HPBP1_HUMAN	hsp70-interacting protein	162	ARM 1.				positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding		enzyme inhibitor activity|protein binding				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		ACCGCAGTCCCGCAGCCCCCG	0.662													8	20	---	---	---	---	PASS	A	55785929	A	A	55785929	2	1	63	1	0	0	0	0	0	0	0	1	7426	639	23	1		1	HSPBP1	19	55785929	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	1826543	55785929	3343054	282	24916										
ZNF787	126208	broad.mit.edu	37	chr19	56600255	56600255	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggtcttgccgcagtcggcgcAggcgttgggccgctcgccgg	18	14	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:56600255A>T	uc010eth.1	-	3	405	c.286T>A	c.(286-288)TGC>AGC	p.C96S		NM_001002836	NP_001002836	Q6DD87	ZN787_HUMAN	zinc finger protein 787	96	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0559)		CAGTCGGCGCAGGCGTTGGGC	0.627													5	14	---	---	---	---	PASS	T	56600255	T	T	56600255	3	4	63	1	0	0	0	0	1	0	0	0	18156	188	7	5	869	5	ZNF787	19	56600255	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	814326	56600255	2528728	283	24917										
VN1R1	57191	broad.mit.edu	37	chr19	57966810	57966810	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gactcatggcatgacaaccaGattaggaaagagtgttttcc	10	8	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr19:57966810G>T	uc002qos.1	-	1	1045	c.1045C>A	c.(1045-1047)CTG>ATG	p.L349M	ZNF547_uc002qpm.3_Intron	NM_020633	NP_065684	Q9GZP7	VN1R1_HUMAN	vomeronasal 1 receptor 1	349	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)|Breast(46;0.222)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)|Lung(386;0.171)		ATGACAACCAGATTAGGAAAG	0.378													31	67	---	---	---	---	PASS	T	57966810	T	T	57966810	3	4	63	1	0	0	0	0	1	0	0	0	17175	933	33	2	20	2	VN1R1	19	57966810	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	1366555	57966810	1162173	284	24918										
PLCB4	5332	broad.mit.edu	37	chr20	9438113	9438113	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cagaaatcaaaattcagacgCtgacatcagatcacaaatct	5	10	5	4			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr20:9438113C>G	uc002wnf.2	+	32	3149	c.3013C>G	c.(3013-3015)CTG>GTG	p.L1005V	PLCB4_uc010gbw.1_Missense_Mutation_p.L1005V|PLCB4_uc010gbx.2_Missense_Mutation_p.L1017V|PLCB4_uc002wne.2_Missense_Mutation_p.L1005V|PLCB4_uc002wnh.2_Missense_Mutation_p.L852V	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	1005					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						AATTCAGACGCTGACATCAGA	0.348													40	129	---	---	---	---	PASS	G	9438113	G	G	9438113	3	3	63	1	0	0	0	0	1	0	0	0	12030	796	28	4	3171	4	PLCB4	20	9438113	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08		9438113	53587407	285	24919										
SEL1L2	80343	broad.mit.edu	37	chr20	13869147	13869147	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cctattccataagaagacaaAaatcctaatgcctaaagcac	4	11	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr20:13869147A>C	uc010gcf.2	-	6	643	c.561T>G	c.(559-561)TTT>TTG	p.F187L	SEL1L2_uc002woq.3_Missense_Mutation_p.F48L|SEL1L2_uc010zrl.1_Missense_Mutation_p.F187L|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	187	Extracellular (Potential).|Sel1-like 3.					integral to membrane	binding			ovary(2)	2						AAGAAGACAAAAATCCTAATG	0.284													16	48	---	---	---	---	PASS	C	13869147	C	C	13869147	3	2	63	1	0	0	0	0	1	0	0	0	14011	11	1	5	1565	5	SEL1L2	20	13869147	Missense_Mutation	SNP	A	TCGA-34-2596-01A-01D-1522-08	4431034	13869147	49156373	286	24920										
KIF16B	55614	broad.mit.edu	37	chr20	16492131	16492131	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aggttttagatgacttccgcCgaagtagatctctcacacgt	9	10	2	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr20:16492131C>A	uc002wpg.1	-	6	646	c.488G>T	c.(487-489)CGG>CTG	p.R163L	KIF16B_uc010gch.1_Missense_Mutation_p.R163L|KIF16B_uc010gci.1_Missense_Mutation_p.R163L|KIF16B_uc010gcj.1_Missense_Mutation_p.R163L	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	163	Kinesin-motor.				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			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						TGACTTCCGCCGAAGTAGATC	0.333													57	129	---	---	---	---	PASS	A	16492131	A	A	16492131	3	1	63	1	0	0	0	0	1	0	0	0	8278	652	23	1	3549	1	KIF16B	20	16492131	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	2622984	16492131	46533389	287	24921										
DSTN	11034	broad.mit.edu	37	chr20	17587741	17587741	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tcaatcgggcttgtattgctGaaaagttaggtggatcctta	11	6	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr20:17587741G>A	uc002wpr.2	+	4	703	c.448G>A	c.(448-450)GAA>AAA	p.E150K	DSTN_uc002wpq.2_Missense_Mutation_p.E133K|DSTN_uc010gck.2_Missense_Mutation_p.E133K	NM_006870	NP_006861	P60981	DEST_HUMAN	destrin isoform a	150	ADF-H.				actin filament severing|actin polymerization or depolymerization		actin binding			large_intestine(1)|skin(1)	2						TTGTATTGCTGAAAAGTTAGG	0.373													5	228	---	---	---	---	PASS	A	17587741	A	A	17587741	3	1	63	1	0	0	0	0	1	0	0	0	4784	1291	45	2	462	2	DSTN	20	17587741	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	1095610	17587741	45437779	288	24922										
COMMD7	149951	broad.mit.edu	37	chr20	31291229	31291229	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ctgactcgctccatctcgtgCaggaagctgtagaactgagg	12	11	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr20:31291229C>A	uc002wya.3	-	9	1175	c.558G>T	c.(556-558)CTG>CTT	p.L186L	COMMD7_uc010ged.2_Silent_p.L185L|COMMD7_uc002wyb.2_3'UTR	NM_053041	NP_444269	Q86VX2	COMD7_HUMAN	COMM domain containing 7 isoform 1	186	COMM.				negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|tumor necrosis factor-mediated signaling pathway		NF-kappaB binding			breast(1)	1						CCATCTCGTGCAGGAAGCTGT	0.493													21	71	---	---	---	---	PASS	A	31291229	A	A	31291229	2	1	63	1	0	0	0	0	0	0	0	1	3721	697	25	3		3	COMMD7	20	31291229	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	13703488	31291229	31734291	289	24923										
SUN5	140732	broad.mit.edu	37	chr20	31577456	31577456	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	cagggcaaagtctggcttttCgatgtaatctccgtgtatca	10	9	3	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr20:31577456C>A	uc002wyi.2	-	9	676	c.583G>T	c.(583-585)GAA>TAA	p.E195*		NM_080675	NP_542406	Q8TC36	SUN5_HUMAN	sperm associated antigen 4-like	195					spermatogenesis					skin(1)	1						TCTGGCTTTTCGATGTAATCT	0.488													16	61	---	---	---	---	PASS	A	31577456	A	A	31577456	4	1	63	1	0	0	0	0	0	1	0	0	15391	893	31	2	576	2	SUN5	20	31577456	Nonsense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	286227	31577456	31448064	290	24924										
IFT52	51098	broad.mit.edu	37	chr20	42271136	42271136	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	taggtactgaagaagacctgGaattttatgtcaggaagtgt	12	4	1	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr20:42271136G>A	uc002xkw.2	+	13	1260	c.1138G>A	c.(1138-1140)GAA>AAA	p.E380K	IFT52_uc002xky.2_Missense_Mutation_p.E380K|IFT52_uc002xkx.2_RNA|IFT52_uc010ggn.2_Missense_Mutation_p.E356K|IFT52_uc002xkz.2_Intron	NM_016004	NP_057088	Q9Y366	IFT52_HUMAN	intraflagellar transport 52 homolog	380						intraflagellar transport particle B|microtubule-based flagellum	protein C-terminus binding			ovary(2)	2		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AGAAGACCTGGAATTTTATGT	0.413													37	115	---	---	---	---	PASS	A	42271136	A	A	42271136	3	1	63	1	0	0	0	0	1	0	0	0	7561	1175	41	2	1184	2	IFT52	20	42271136	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	10693680	42271136	20754384	291	24925										
CTSA	5476	broad.mit.edu	37	chr20	44521454	44521454	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttttcctgaccggggagagcTatgctggcatctacatcccc	10	13	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr20:44521454T>G	uc002xqj.3	+	6	1009	c.535T>G	c.(535-537)TAT>GAT	p.Y179D	NEURL2_uc002xqg.1_5'Flank|CTSA_uc002xqh.2_Missense_Mutation_p.Y197D|CTSA_uc002xqi.2_RNA|CTSA_uc010zxi.1_Missense_Mutation_p.Y180D|CTSA_uc002xqk.3_Missense_Mutation_p.Y179D	NM_001127695	NP_001121167	P10619	PPGB_HUMAN	cathepsin A isoform b precursor	179					intracellular protein transport|proteolysis	endoplasmic reticulum|lysosome|nucleus	enzyme activator activity|protein binding|serine-type carboxypeptidase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CGGGGAGAGCTATGCTGGCAT	0.562													35	69	---	---	---	---	PASS	G	44521454	G	G	44521454	3	3	63	1	0	0	0	0	1	0	0	0	4029	1522	53	5	611	5	CTSA	20	44521454	Missense_Mutation	SNP	T	TCGA-34-2596-01A-01D-1522-08	2250318	44521454	18504066	292	24926										
STX16	8675	broad.mit.edu	37	chr20	57251323	57251323	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	atcattgtgctcattgttgtCctcgttggcgtgaagtctcg	11	9	3	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr20:57251323C>G	uc002xzi.2	+	9	1689	c.954C>G	c.(952-954)GTC>GTG	p.V318V	STX16_uc010zzq.1_Silent_p.V132V|STX16_uc002xzk.2_Silent_p.V301V|STX16_uc002xzm.2_Silent_p.V314V|STX16_uc002xzj.2_Silent_p.V297V|STX16_uc002xzl.2_Silent_p.V132V	NM_001001433	NP_001001433	O14662	STX16_HUMAN	syntaxin 16 isoform a	318	Helical; Anchor for type IV membrane protein; (Potential).				intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|microsome|SNARE complex	SNAP receptor activity			ovary(1)	1	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;3.73e-09)|Epithelial(14;8.54e-06)|all cancers(14;6.89e-05)			TCATTGTTGTCCTCGTTGGCG	0.493													64	109	---	---	---	---	PASS	G	57251323	G	G	57251323	2	3	63	1	0	0	0	0	0	0	0	1	15338	842	30	2		2	STX16	20	57251323	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	12729869	57251323	5774197	293	24927										
COL20A1	57642	broad.mit.edu	37	chr20	61936824	61936824	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	acccctaaggccacagtgggGggcctgagcccctccaaggg	14	15	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr20:61936824G>T	uc011aau.1	+	4	349	c.249G>T	c.(247-249)GGG>GGT	p.G83G	COL20A1_uc011aav.1_5'Flank	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	83	Fibronectin type-III 1.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CCACAGTGGGGGGCCTGAGCC	0.612													3	20	---	---	---	---	PASS	T	61936824	T	T	61936824	2	4	63	1	0	0	0	0	0	0	0	1	3679	1219	43	3		3	COL20A1	20	61936824	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08	4685501	61936824	1088696	294	24928										
DSCAM	1826	broad.mit.edu	37	chr21	42064818	42064818	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gaggggataatgcacttgaaGaccgcaacattgcctctcat	10	10	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr21:42064818G>T	uc002yyq.1	-	3	878	c.426C>A	c.(424-426)GTC>GTA	p.V142V	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	142	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TGCACTTGAAGACCGCAACAT	0.522													72	62	---	---	---	---	PASS	T	42064818	T	T	42064818	2	4	63	1	0	0	0	0	0	0	0	1	4768	929	33	2		2	DSCAM	21	42064818	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08		42064818	6065077	295	24929										
TOP3B	8940	broad.mit.edu	37	chr22	22316909	22316909	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	gcccacagggaaggcatcacCccgctggcaagtgggcaggc	15	14	1	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr22:22316909C>A	uc002zvs.2	-	13	1852	c.1417G>T	c.(1417-1419)GGT>TGT	p.G473C	TOP3B_uc010gtm.1_Missense_Mutation_p.G18C|TOP3B_uc002zvr.2_Missense_Mutation_p.G198C|TOP3B_uc010gtl.2_Missense_Mutation_p.G473C|TOP3B_uc002zvt.3_Missense_Mutation_p.G473C	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	473					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		AAGGCATCACCCCGCTGGCAA	0.642													29	68	---	---	---	---	PASS	A	22316909	A	A	22316909	3	1	63	1	0	0	0	0	1	0	0	0	16365	623	22	3	1195	3	TOP3B	22	22316909	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08		22316909	28987657	296	24930										
CYTSA	23384	broad.mit.edu	37	chr22	24718188	24718188	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aacacagtacaagtgaggaaCtccaggcaaccctgcaagag	10	11	0	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr22:24718188C>T	uc002zzw.2	+	5	1547	c.1240C>T	c.(1240-1242)CTC>TTC	p.L414F	CYTSA_uc002zzv.3_Missense_Mutation_p.L414F|CYTSA_uc011ajq.1_Missense_Mutation_p.L414F	NM_015330	NP_056145	Q69YQ0	CYTSA_HUMAN	cytospin A	414	Potential.				cell cycle|cell division						0						AAGTGAGGAACTCCAGGCAAC	0.502													52	88	---	---	---	---	PASS	T	24718188	T	T	24718188	3	4	63	1	0	0	0	0	1	0	0	0	4209	565	20	3	1250	3	CYTSA	22	24718188	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	2401279	24718188	26586378	297	24931										
PATZ1	23598	broad.mit.edu	37	chr22	31722878	31722878	+	Nonstop_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tggggacacagcagctgcctCatttcccttcaggccccatg	10	15	2	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr22:31722878C>G	uc003akq.2	-	5	2724	c.2063G>C	c.(2062-2064)TGA>TCA	p.*688S	PATZ1_uc003akp.2_3'UTR|PATZ1_uc003akr.2_Nonstop_Mutation_p.*642S	NM_014323	NP_055138	Q9HBE1	PATZ1_HUMAN	POZ (BTB) and AT hook containing zinc finger 1	688					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/PATZ1(2)	soft_tissue(2)	2						GCAGCTGCCTCATTTCCCTTC	0.527													25	47	---	---	---	---	PASS	G	31722878	G	G	31722878	4	3	63	1	0	0	0	0	0	0	0	0	11476	837	29	2	4	2	PATZ1	22	31722878	Nonstop_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	7004690	31722878	19581688	298	24932										
ATF4	468	broad.mit.edu	37	chr22	39917481	39917481	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tgagcttcctgagcagcgagGtgttggtgggggacttgatg	18	6	0	3			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr22:39917481G>C	uc003axz.2	+	2	311	c.31G>C	c.(31-33)GTG>CTG	p.V11L	ATF4_uc011aol.1_5'UTR|ATF4_uc003aya.2_Missense_Mutation_p.V11L	NM_182810	NP_877962	P18848	ATF4_HUMAN	activating transcription factor 4	11					cellular amino acid metabolic process|gluconeogenesis|positive regulation of transcription from RNA polymerase II promoter|response to endoplasmic reticulum stress|transcription from RNA polymerase II promoter	cytoplasm|plasma membrane	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Melanoma(58;0.04)					GAGCAGCGAGGTGTTGGTGGG	0.527													38	177	---	---	---	---	PASS	C	39917481	C	C	39917481	3	2	63	1	0	0	0	0	1	0	0	0	1082	1261	44	4	33	4	ATF4	22	39917481	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	8194603	39917481	11387085	299	24933										
TCF20	6942	broad.mit.edu	37	chr22	42607698	42607698	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	accttttttgactggacattCctggaggaccgctgcttttg	10	10	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chr22:42607698C>T	uc003bcj.1	-	1	3748	c.3614G>A	c.(3613-3615)GGA>GAA	p.G1205E	TCF20_uc003bck.1_Missense_Mutation_p.G1205E|TCF20_uc003bnt.2_Missense_Mutation_p.G1205E	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	1205					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						ACTGGACATTCCTGGAGGACC	0.493													48	75	---	---	---	---	PASS	T	42607698	T	T	42607698	3	4	63	1	0	0	0	0	1	0	0	0	15687	855	30	2	2306	2	TCF20	22	42607698	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	2690217	42607698	8696868	300	24934										
DMD	1756	broad.mit.edu	37	chrX	31196890	31196890	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aatttgttttttagtaccttGgcaaagtctcgaacatcttc	6	8	2	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chrX:31196890G>A	uc004dda.1	-	70	10363	c.10119C>T	c.(10117-10119)GCC>GCT	p.A3373A	DMD_uc004dcq.1_Silent_p.A644A|DMD_uc004dcr.1_Silent_p.A913A|DMD_uc004dcs.1_Silent_p.A913A|DMD_uc004dct.1_Silent_p.A913A|DMD_uc004dcu.1_Silent_p.A913A|DMD_uc004dcv.1_Silent_p.A913A|DMD_uc004dcw.2_Silent_p.A2029A|DMD_uc004dcx.2_Silent_p.A2032A|DMD_uc004dcz.2_Silent_p.A3250A|DMD_uc004dcy.1_Silent_p.A3369A|DMD_uc004ddb.1_Silent_p.A3365A|DMD_uc004dcm.1_Silent_p.A305A|DMD_uc004dcn.1_Silent_p.A305A|DMD_uc004dco.1_Silent_p.A305A|DMD_uc004dcp.1_Silent_p.A305A|DMD_uc011mkb.1_Silent_p.A305A|DMD_uc010ngm.2_Silent_p.A305A	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3373	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTAGTACCTTGGCAAAGTCTC	0.438													67	42	---	---	---	---	PASS	A	31196890	A	A	31196890	2	1	63	1	0	0	0	0	0	0	0	1	4580	1335	47	3		3	DMD	23	31196890	Silent	SNP	G	TCGA-34-2596-01A-01D-1522-08		31196890	124073670	301	24935										
EFHC2	80258	broad.mit.edu	37	chrX	44109544	44109544	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	atcatcacacaagaagtaatGcaggatgagttctctacggt	9	8	3	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chrX:44109544G>A	uc004dgb.3	-	6	844	c.754C>T	c.(754-756)CAT>TAT	p.H252Y		NM_025184	NP_079460	Q5JST6	EFHC2_HUMAN	EF-hand domain (C-terminal) containing 2	252	DM10 2.						calcium ion binding			breast(3)|ovary(2)|central_nervous_system(1)	6						AAGAAGTAATGCAGGATGAGT	0.443													24	22	---	---	---	---	PASS	A	44109544	A	A	44109544	3	1	63	1	0	0	0	0	1	0	0	0	4947	1319	46	3	1539	3	EFHC2	23	44109544	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	12912654	44109544	111161016	302	24936										
CACNA1F	778	broad.mit.edu	37	chrX	49075166	49075166	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agctacggcagaaggagccgCggtgcaggaaggccccaaac	15	12	0	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chrX:49075166C>T	uc004dnb.2	-	23	2857	c.2795G>A	c.(2794-2796)CGC>CAC	p.R932H	CACNA1F_uc010nip.2_Missense_Mutation_p.R921H	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	932	III.|Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	GAAGGAGCCGCGGTGCAGGAA	0.587													4	4	---	---	---	---	PASS	T	49075166	T	T	49075166	3	4	63	1	0	0	0	0	1	0	0	0	2543	768	27	1	3242	1	CACNA1F	23	49075166	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	4965622	49075166	106195394	303	24937										
CCNB3	85417	broad.mit.edu	37	chrX	50054016	50054016	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ttgtccttcaaggagccattAgccttacaagagagtcccac	8	12	1	1			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chrX:50054016A>G	uc004dox.3	+	6	3145	c.2847A>G	c.(2845-2847)TTA>TTG	p.L949L	CCNB3_uc004doy.2_Silent_p.L949L|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	949					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					AGGAGCCATTAGCCTTACAAG	0.483													3	134	---	---	---	---	PASS	G	50054016	G	G	50054016	2	3	63	1	0	0	0	0	0	0	0	1	2914	417	15	5		5	CCNB3	23	50054016	Silent	SNP	A	TCGA-34-2596-01A-01D-1522-08	978850	50054016	105216544	304	24938										
GNL3L	54552	broad.mit.edu	37	chrX	54565513	54565513	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	ggttccaagggccacaagaaGataagttggccctaccctca	10	12	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chrX:54565513G>C	uc004dth.1	+	3	199	c.60G>C	c.(58-60)AAG>AAC	p.K20N	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	20	Required for nucleolar localization.			KK->AA: Loss of nuclear location; when associated with 9-A-A-10. Loss of nuclear location; when associated with 34-A-A-35.	ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						GCCACAAGAAGATAAGTTGGC	0.433													10	7	---	---	---	---	PASS	C	54565513	C	C	54565513	3	2	63	1	0	0	0	0	1	0	0	0	6538	933	33	2	66	2	GNL3L	23	54565513	Missense_Mutation	SNP	G	TCGA-34-2596-01A-01D-1522-08	4511497	54565513	100705047	305	24939										
MORF4L2	9643	broad.mit.edu	37	chrX	102931645	102931645	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	tttcaacagtggggtctgccCgggcccttttcttccgaggg	13	12	3	0			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chrX:102931645C>A	uc004ekw.2	-	4	1543	c.311G>T	c.(310-312)CGG>CTG	p.R104L	MORF4L2_uc004ela.2_Missense_Mutation_p.R104L|MORF4L2_uc004ekx.2_Missense_Mutation_p.R104L|MORF4L2_uc004elb.2_Missense_Mutation_p.R104L|MORF4L2_uc004eky.2_Missense_Mutation_p.R104L|MORF4L2_uc010nos.2_Missense_Mutation_p.R104L|MORF4L2_uc004ekz.2_Missense_Mutation_p.R104L|MORF4L2_uc011mry.1_Missense_Mutation_p.R104L|MORF4L2_uc011mrz.1_Missense_Mutation_p.R104L|MORF4L2_uc004elc.2_Missense_Mutation_p.R104L|MORF4L2_uc004elf.2_Missense_Mutation_p.R104L|MORF4L2_uc004ele.2_Missense_Mutation_p.R104L|MORF4L2_uc011msa.1_Missense_Mutation_p.R104L|MORF4L2_uc011msb.1_Missense_Mutation_p.R104L|MORF4L2_uc011msc.1_Missense_Mutation_p.R104L|MORF4L2_uc011msd.1_Missense_Mutation_p.R104L|MORF4L2_uc004eld.2_Missense_Mutation_p.R104L	NM_012286	NP_036418	Q15014	MO4L2_HUMAN	mortality factor 4 like 2	104					chromatin modification|DNA repair|regulation of cell growth|transcription, DNA-dependent	nucleolus	protein binding				0						GGGGTCTGCCCGGGCCCTTTT	0.507													134	70	---	---	---	---	PASS	A	102931645	A	A	102931645	3	1	63	1	0	0	0	0	1	0	0	0	9707	652	23	1	559	1	MORF4L2	23	102931645	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	48366132	102931645	52338915	306	24940										
GPR112	139378	broad.mit.edu	37	chrX	135428802	135428802	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	atatcagaaaccagtttctcCactacccctacagacaggac	5	14	2	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chrX:135428802C>T	uc004ezu.1	+	6	3228	c.2937C>T	c.(2935-2937)TCC>TCT	p.S979S	GPR112_uc010nsb.1_Silent_p.S774S|GPR112_uc010nsc.1_Silent_p.S746S	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	979	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					CCAGTTTCTCCACTACCCCTA	0.512													162	94	---	---	---	---	PASS	T	135428802	T	T	135428802	2	4	63	1	0	0	0	0	0	0	0	1	6629	581	21	3		3	GPR112	23	135428802	Silent	SNP	C	TCGA-34-2596-01A-01D-1522-08	32497157	135428802	19841758	307	24941										
FATE1	89885	broad.mit.edu	37	chrX	150891157	150891157	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	aacagggcgccacctggcgcCacagggagaccctgatcatc	12	15	1	2			TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chrX:150891157C>A	uc004fex.2	+	5	562	c.478C>A	c.(478-480)CAC>AAC	p.H160N		NM_033085	NP_149076	Q969F0	FATE1_HUMAN	fetal and adult testis expressed transcript	160						endoplasmic reticulum|integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CACCTGGCGCCACAGGGAGAC	0.647													46	24	---	---	---	---	PASS	A	150891157	A	A	150891157	3	1	63	1	0	0	0	0	1	0	0	0	5693	594	21	3	496	3	FATE1	23	150891157	Missense_Mutation	SNP	C	TCGA-34-2596-01A-01D-1522-08	15462355	150891157	4379403	308	24942										
IL9R	3581	broad.mit.edu	37	chrX	155239822	155239827	+	In_Frame_Del	DEL	CAACAA	-	-													0.154098360655738	47	1.42323669194927e-08	2.43787506477442	3.22812492932582	1.97462514417532	1	1	28	agcagcagcagcagcagcagCaacaacaacaactactgtgc					rs150178903	byFrequency	TCGA-34-2596-01A-01D-1522-08	TCGA-34-2596-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	66e35f68-f4db-46ee-876e-e770ea616ef3	8e493b75-0f2c-45b3-a829-88633e8fc3f2	g.chrX:155239822_155239827delCAACAA	uc004fnv.1	+	9	1493_1498	c.1314_1319delCAACAA	c.(1312-1320)AGCAACAAC>AGC	p.NN441del	IL9R_uc004fnu.1_3'UTR	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor	441_442	Poly-Asn.|Cytoplasmic (Potential).				cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					gcagcagcagcaacaacaacaACTAC	0.519													4	2	---	---	---	---		-	155239827	-	-	155239822	7	5	63	1	0	1	0	1	0	0	0	0	7708	709	25	0	1348	0	IL9R	23	155239822	In_Frame_Del	DEL	CAACAA	TCGA-34-2596-01A-01D-1522-08	4348665	155239822	30738	309	24943										
RERE	473	broad.mit.edu	37	chr1	8418817	8418817	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cgacatgacgtggggccgggCgtactcgctcagagtccgaa	15	12	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:8418817C>T	uc001ape.2	-	21	4588	c.3778G>A	c.(3778-3780)GCC>ACC	p.A1260T	RERE_uc001apf.2_Missense_Mutation_p.A1260T|RERE_uc001apd.2_Missense_Mutation_p.A706T	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1260					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		TGGGGCCGGGCGTACTCGCTC	0.652													10	68	---	---	---	---	PASS	T	8418817	T	T	8418817	3	4	64	1	0	0	0	0	1	0	0	0	13231	768	27	1	938	1	RERE	1	8418817	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08		8418817	240831804	1	24944										
SERINC2	347735	broad.mit.edu	37	chr1	31898722	31898722	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctggaaccagcggtggctggGcaaggccgaggagtgcgatt	18	9	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:31898722G>A	uc010ogh.1	+	5	785	c.584G>A	c.(583-585)GGC>GAC	p.G195D	SERINC2_uc010ogg.1_Missense_Mutation_p.G192D|SERINC2_uc009vtw.1_Silent_p.G164G|SERINC2_uc001bst.2_Missense_Mutation_p.G191D|SERINC2_uc001bsu.2_Missense_Mutation_p.G136D|SERINC2_uc001bsv.2_Missense_Mutation_p.G136D	NM_178865	NP_849196	Q96SA4	SERC2_HUMAN	tumor differentially expressed 2-like	191						integral to membrane					0		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0629)|Breast(348;0.0707)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0541)|READ - Rectum adenocarcinoma(331;0.151)		CGGTGGCTGGGCAAGGCCGAG	0.652													4	79	---	---	---	---	PASS	A	31898722	A	A	31898722	3	1	64	1	0	0	0	0	1	0	0	0	14080	1203	42	3	590	3	SERINC2	1	31898722	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	23479905	31898722	217351899	2	24945										
KPNA6	23633	broad.mit.edu	37	chr1	32628049	32628049	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cttgctgggccctttcttatCtgtctgatggccccaatgag	10	12	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:32628049C>G	uc001bug.2	+	9	923	c.835C>G	c.(835-837)CTG>GTG	p.L279V	KPNA6_uc001buh.2_Missense_Mutation_p.L54V|KPNA6_uc010ogx.1_Missense_Mutation_p.L276V|KPNA6_uc010ogy.1_Missense_Mutation_p.L284V|KPNA6_uc009vtz.2_Missense_Mutation_p.L174V	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6	279	ARM 5.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				CCTTTCTTATCTGTCTGATGG	0.542													6	203	---	---	---	---	PASS	G	32628049	G	G	32628049	3	3	64	1	0	0	0	0	1	0	0	0	8434	912	32	2	869	2	KPNA6	1	32628049	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	729327	32628049	216622572	3	24946										
LCK	3932	broad.mit.edu	37	chr1	32742336	32742336	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agcggctggttcggctctacGctgtggtcacccaggagccc	14	14	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:32742336G>A	uc001bux.2	+	9	1051	c.913G>A	c.(913-915)GCT>ACT	p.A305T	LCK_uc001buy.2_Missense_Mutation_p.A305T|LCK_uc001buz.2_Missense_Mutation_p.A305T|LCK_uc010ohc.1_Missense_Mutation_p.A349T|LCK_uc001bva.2_Missense_Mutation_p.A312T	NM_005356	NP_005347	P06239	LCK_HUMAN	lymphocyte-specific protein tyrosine kinase	305	Protein kinase.				activation of caspase activity|cellular zinc ion homeostasis|induction of apoptosis|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of T cell receptor signaling pathway|regulation of defense response to virus by virus|release of sequestered calcium ion into cytosol|response to drug|T cell costimulation|T cell differentiation|T cell receptor signaling pathway|viral reproduction	cytosol|Golgi apparatus|membrane raft|pericentriolar material|plasma membrane	ATP binding|ATPase binding|CD4 receptor binding|CD8 receptor binding|glycoprotein binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein kinase binding|protein serine/threonine phosphatase activity|SH2 domain binding			lung(3)|central_nervous_system(2)|ovary(1)	6		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)			Dasatinib(DB01254)	TCGGCTCTACGCTGTGGTCAC	0.602			T	TRB@	T-ALL								18	13	---	---	---	---	PASS	A	32742336	A	A	32742336	3	1	64	1	0	0	0	0	1	0	0	0	8676	1087	38	1	943	1	LCK	1	32742336	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	114287	32742336	216508285	4	24947										
CSMD2	114784	broad.mit.edu	37	chr1	34128589	34128589	+	Missense_Mutation	SNP	C	A	A													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atgcaggtccttgggcagggCcgggccactcagctccttca							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:34128589C>A	uc001bxn.1	-	26	4065	c.4036G>T	c.(4036-4038)GCC>TCC	p.A1346S	CSMD2_uc001bxm.1_Missense_Mutation_p.A1386S|CSMD2_uc001bxo.1_Missense_Mutation_p.A259S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1346	CUB 8.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TTGGGCAGGGCCGGGCCACTC	0.577													107	209	---	---	---	---	PASS	A	34128589	A	A	34128589	3	1	64	1	0	0	0	0	1	0	0	0	3945	739	26	3	6603	3	CSMD2	1	34128589	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1386253	34128589	215122032	5	24948	535	2								
CSMD2	114784	broad.mit.edu	37	chr1	34128590	34128590	+	Silent	SNP	C	T	T													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgcaggtccttgggcagggcCgggccactcagctccttcag					rs115110975	byFrequency	TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:34128590C>T	uc001bxn.1	-	26	4064	c.4035G>A	c.(4033-4035)CCG>CCA	p.P1345P	CSMD2_uc001bxm.1_Silent_p.P1385P|CSMD2_uc001bxo.1_Silent_p.P258P	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1345	CUB 8.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TGGGCAGGGCCGGGCCACTCA	0.572													109	205	---	---	---	---	PASS	T	34128590	T	T	34128590	2	4	64	1	0	0	0	0	0	0	0	1	3945	639	23	1		1	CSMD2	1	34128590	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	1	34128590	215122031	6	24949	535	2								
GRIK3	2899	broad.mit.edu	37	chr1	37324736	37324736	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atgaagttcatgaagcggccGccaaagcgccaggccttgtg	13	11	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:37324736G>A	uc001caz.2	-	7	1212	c.1077C>T	c.(1075-1077)GGC>GGT	p.G359G	GRIK3_uc001cba.1_Silent_p.G359G	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	359	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	TGAAGCGGCCGCCAAAGCGCC	0.567													189	107	---	---	---	---	PASS	A	37324736	A	A	37324736	2	1	64	1	0	0	0	0	0	0	0	1	6775	1074	38	1		1	GRIK3	1	37324736	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	3196146	37324736	211925885	7	24950										
FHL3	2275	broad.mit.edu	37	chr1	38463723	38463723	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgtcgggcacaaaagaacggGagcccagtggctgttcacag	14	10	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:38463723G>A	uc001ccj.2	-	4	500	c.413C>T	c.(412-414)TCC>TTC	p.S138F	FHL3_uc001cck.2_Missense_Mutation_p.S138F|FHL3_uc001ccl.2_Missense_Mutation_p.S138F|FHL3_uc001ccm.2_Missense_Mutation_p.S30F|FHL3_uc009vvl.1_Missense_Mutation_p.S138F	NM_004468	NP_004459	Q13643	FHL3_HUMAN	four and a half LIM domains 3	138	LIM zinc-binding 2.				muscle organ development		zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				AAAAGAACGGGAGCCCAGTGG	0.617													28	209	---	---	---	---	PASS	A	38463723	A	A	38463723	3	1	64	1	0	0	0	0	1	0	0	0	5880	1174	41	2	441	2	FHL3	1	38463723	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1138987	38463723	210786898	8	24951										
ZMYND12	84217	broad.mit.edu	37	chr1	42898856	42898856	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tagtaaaacatgaccaggatCttcagaacaaagatggtttt	8	6	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:42898856C>G	uc001chj.2	-	7	1203	c.933G>C	c.(931-933)AAG>AAC	p.K311N	ZMYND12_uc010ojt.1_Missense_Mutation_p.K201N	NM_032257	NP_115633	Q9H0C1	ZMY12_HUMAN	zinc finger, MYND-type containing 12 isoform 1	311						intracellular	zinc ion binding			ovary(1)	1	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGACCAGGATCTTCAGAACAA	0.393													11	769	---	---	---	---	PASS	G	42898856	G	G	42898856	3	3	64	1	0	0	0	0	1	0	0	0	17704	912	32	2	172	2	ZMYND12	1	42898856	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	4435133	42898856	206351765	9	24952										
KDM4A	9682	broad.mit.edu	37	chr1	44126006	44126006	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atagtgagtttgaagagctcGagcggaaatactggaaaaat	12	4	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:44126006G>T	uc001cjx.2	+	4	518	c.352G>T	c.(352-354)GAG>TAG	p.E118*	KDM4A_uc010oki.1_Nonsense_Mutation_p.E118*	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	118					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1						TGAAGAGCTCGAGCGGAAAta	0.284													79	131	---	---	---	---	PASS	T	44126006	T	T	44126006	4	4	64	1	0	0	0	0	0	1	0	0	8128	1059	37	2	362	2	KDM4A	1	44126006	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1227150	44126006	205124615	10	24953										
TESK2	10420	broad.mit.edu	37	chr1	45887417	45887417	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctaaggatgttgggatgggaGagtctattcatgagctgtac	14	5	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:45887417G>C	uc001cns.1	-	3	727	c.324C>G	c.(322-324)CTC>CTG	p.L108L	TESK2_uc009vxr.1_Silent_p.L108L|TESK2_uc010olo.1_Silent_p.L25L|TESK2_uc009vxs.1_5'UTR|TESK2_uc010olp.1_Silent_p.L108L	NM_007170	NP_009101	Q96S53	TESK2_HUMAN	testis-specific protein kinase 2	108	Protein kinase.				actin cytoskeleton organization|focal adhesion assembly|spermatogenesis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(2)|pancreas(1)	5	Acute lymphoblastic leukemia(166;0.155)					TGGGATGGGAGAGTCTATTCA	0.428													20	645	---	---	---	---	PASS	C	45887417	C	C	45887417	2	2	64	1	0	0	0	0	0	0	0	1	15765	929	33	2		2	TESK2	1	45887417	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	1761411	45887417	203363204	11	24954										
TCTEX1D1	200132	broad.mit.edu	37	chr1	67243017	67243017	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	attggacaactgaacaggcaGagcatacttattggaagcag	11	7	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:67243017G>A	uc001dcv.2	+	5	551	c.420G>A	c.(418-420)CAG>CAA	p.Q140Q	TCTEX1D1_uc009wau.2_RNA|TCTEX1D1_uc009wav.2_RNA	NM_152665	NP_689878	Q8N7M0	TC1D1_HUMAN	Tctex1 domain containing 1	140											0						TGAACAGGCAGAGCATACTTA	0.368													148	103	---	---	---	---	PASS	A	67243017	A	A	67243017	2	1	64	1	0	0	0	0	0	0	0	1	15716	933	33	2		2	TCTEX1D1	1	67243017	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	21355600	67243017	182007604	12	24955										
SERBP1	26135	broad.mit.edu	37	chr1	67895808	67895808	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccgcgttggagttggtctggGccgcggcctgagctgcgctc	17	13	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:67895808G>C	uc001ddv.2	-	1	316	c.176C>G	c.(175-177)GCC>GGC	p.A59G	SERBP1_uc001ddx.2_Missense_Mutation_p.A59G|SERBP1_uc001ddy.2_Missense_Mutation_p.A59G|SERBP1_uc001ddw.2_Missense_Mutation_p.A59G	NM_001018067	NP_001018077	Q8NC51	PAIRB_HUMAN	SERPINE1 mRNA binding protein 1 isoform 1	59					regulation of mRNA stability	nucleus|perinuclear region of cytoplasm	mRNA 3'-UTR binding|protein binding			skin(1)	1						GTTGGTCTGGGCCGCGGCCTG	0.647													65	13	---	---	---	---	PASS	C	67895808	C	C	67895808	3	2	64	1	0	0	0	0	1	0	0	0	14075	1203	42	4	1082	4	SERBP1	1	67895808	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	652791	67895808	181354813	13	24956										
DIRAS3	9077	broad.mit.edu	37	chr1	68512891	68512891	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tctctgatcttcctgtggggCttgaaggcgcggaggataag	15	8	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:68512891C>A	uc001ded.2	-	2	385	c.90G>T	c.(88-90)AAG>AAT	p.K30N	uc001deb.1_Intron|uc001dec.1_Intron	NM_004675	NP_004666	O95661	DIRA3_HUMAN	DIRAS family, GTP-binding RAS-like 3	30					regulation of cyclin-dependent protein kinase activity|regulation of gene expression by genetic imprinting|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						TCCTGTGGGGCTTGAAGGCGC	0.602													4	49	---	---	---	---	PASS	A	68512891	A	A	68512891	3	1	64	1	0	0	0	0	1	0	0	0	4532	796	28	3	603	3	DIRAS3	1	68512891	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	617083	68512891	180737730	14	24957										
PTBP2	58155	broad.mit.edu	37	chr1	97243153	97243153	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atttccagcgtgctcaggcaGttcttcaagctgtgacagct	10	11	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:97243153G>T	uc001drq.2	+	6	691	c.445G>T	c.(445-447)GTT>TTT	p.V149F	PTBP2_uc001drn.2_Missense_Mutation_p.V149F|PTBP2_uc001dro.2_Missense_Mutation_p.V149F|PTBP2_uc010otz.1_Missense_Mutation_p.V160F|PTBP2_uc001drp.2_RNA|PTBP2_uc009wdw.2_Missense_Mutation_p.V97F|PTBP2_uc001drr.2_Missense_Mutation_p.V149F|PTBP2_uc010oua.1_Missense_Mutation_p.V157F|PTBP2_uc001dru.2_RNA	NM_021190	NP_067013	Q9UKA9	PTBP2_HUMAN	polypyrimidine tract binding protein 2	149							nucleotide binding				0		all_epithelial(167;2.95e-05)|all_lung(203;0.000396)|Lung NSC(277;0.00171)		all cancers(265;0.0582)|Epithelial(280;0.0716)|Colorectal(170;0.0879)|KIRC - Kidney renal clear cell carcinoma(1967;0.202)		TGCTCAGGCAGTTCTTCAAGC	0.443													43	12	---	---	---	---	PASS	T	97243153	T	T	97243153	3	4	64	1	0	0	0	0	1	0	0	0	12726	1029	36	3	467	3	PTBP2	1	97243153	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	28730262	97243153	152007468	15	24958										
SNX7	51375	broad.mit.edu	37	chr1	99150477	99150477	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acatgaactccttcagccctAtgatgccaacatccccttta	4	15	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:99150477A>G	uc010ouc.1	+	2	269	c.217A>G	c.(217-219)ATG>GTG	p.M73V	SNX7_uc001dsa.2_Missense_Mutation_p.M9V|SNX7_uc010oud.1_Missense_Mutation_p.M73V	NM_015976	NP_057060	Q9UNH6	SNX7_HUMAN	sorting nexin 7 isoform a	9					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		all_epithelial(167;7.64e-07)|all_lung(203;0.0006)|Lung NSC(277;0.00137)		Epithelial(280;0.0521)|all cancers(265;0.0687)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.207)|Colorectal(170;0.234)		CTTCAGCCCTATGATGCCAAC	0.338													102	17	---	---	---	---	PASS	G	99150477	G	G	99150477	3	3	64	1	0	0	0	0	1	0	0	0	14907	449	16	5	223	5	SNX7	1	99150477	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	1907324	99150477	150100144	16	24959										
CHIA	27159	broad.mit.edu	37	chr1	111855005	111855005	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	taccaagctttcaatggcctGaaaaataagtaggatgaggg	11	6	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:111855005G>A	uc001eas.2	+	4	352	c.249G>A	c.(247-249)CTG>CTA	p.L83L	CHIA_uc001ear.2_Intron|CHIA_uc001eaq.2_Intron|CHIA_uc009wgc.2_Intron|CHIA_uc001eat.2_Intron|CHIA_uc001eav.2_Intron|CHIA_uc001eau.2_Intron|CHIA_uc009wgd.2_Intron	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	83					apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		TCAATGGCCTGAAAAATAAGT	0.368													10	89	---	---	---	---	PASS	A	111855005	A	A	111855005	2	1	64	1	0	0	0	0	0	0	0	1	3342	1277	45	2		2	CHIA	1	111855005	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	12704528	111855005	137395616	17	24960										
GPR89B	51463	broad.mit.edu	37	chr1	147408773	147408773	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggatttgggtggcttttcttCatgcgccaattgtttaaaga	11	6	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:147408773C>T	uc001epv.3	+	2	219	c.75C>T	c.(73-75)TTC>TTT	p.F25F	GPR89B_uc010ozs.1_Silent_p.F25F|GPR89B_uc010ozt.1_5'UTR|GPR89B_uc010ozu.1_5'UTR|GPR89B_uc001epw.3_5'UTR|GPR89B_uc010ozv.1_5'UTR	NM_016334	NP_057418	B7ZAQ6	GPHRA_HUMAN	G protein-coupled receptor 89B	25	Helical; (Potential).				intracellular pH reduction|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein transport	Golgi cisterna membrane|Golgi-associated vesicle membrane|integral to membrane	signal transducer activity|voltage-gated anion channel activity				0	all_hematologic(923;0.0276)					GGCTTTTCTTCATGCGCCAAT	0.299													10	280	---	---	---	---	PASS	T	147408773	T	T	147408773	2	4	64	1	0	0	0	0	0	0	0	1	6719	825	29	2		2	GPR89B	1	147408773	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	35553768	147408773	101841848	18	24961										
CTSK	1513	broad.mit.edu	37	chr1	150772182	150772182	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgggttgtacatacaactctCttcctggaagaaacaagatt	8	8	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:150772182C>A	uc001evp.1	-	6	746	c.622G>T	c.(622-624)GAG>TAG	p.E208*	CTSK_uc001evq.1_Nonsense_Mutation_p.E119*	NM_000396	NP_000387	P43235	CATK_HUMAN	cathepsin K preproprotein	208					proteolysis	lysosome	cysteine-type endopeptidase activity|protein binding			skin(1)	1	all_cancers(9;2.32e-51)|all_epithelial(9;3.89e-42)|all_lung(15;4.59e-35)|Lung NSC(24;1.7e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Colorectal(459;0.171)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0485)|BRCA - Breast invasive adenocarcinoma(12;0.00606)|LUSC - Lung squamous cell carcinoma(543;0.211)			ATACAACTCTCTTCCTGGAAG	0.468													68	184	---	---	---	---	PASS	A	150772182	A	A	150772182	4	1	64	1	0	0	0	0	0	1	0	0	4037	922	32	2	379	2	CTSK	1	150772182	Nonsense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	3363409	150772182	98478439	19	24962										
SETDB1	9869	broad.mit.edu	37	chr1	150931785	150931785	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctggggtatccgctgcttggAtgacattgccaaaggctctt	12	10	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:150931785A>G	uc001evu.2	+	15	2652	c.2462A>G	c.(2461-2463)GAT>GGT	p.D821G	SETDB1_uc001evv.2_Missense_Mutation_p.D821G|SETDB1_uc009wmg.1_Missense_Mutation_p.D821G	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	821	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			CGCTGCTTGGATGACATTGCC	0.458													105	173	---	---	---	---	PASS	G	150931785	G	G	150931785	3	3	64	1	0	0	0	0	1	0	0	0	14138	333	12	5	2516	5	SETDB1	1	150931785	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	159603	150931785	98318836	20	24963										
HRNR	388697	broad.mit.edu	37	chr1	152188316	152188316	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cgtggcccaaagactgacggGagccagacccatgctgacca	12	14	0	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:152188316G>C	uc001ezt.1	-	3	5865	c.5789C>G	c.(5788-5790)TCC>TGC	p.S1930C		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1930	21.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGACTGACGGGAGCCAGACCC	0.577													58	720	---	---	---	---	PASS	C	152188316	C	C	152188316	3	2	64	1	0	0	0	0	1	0	0	0	7359	1174	41	2	2767	2	HRNR	1	152188316	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1256531	152188316	97062305	21	24964										
FLG2	388698	broad.mit.edu	37	chr1	152324336	152324336	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgagatccagcttgaccgtGagtgtgtcctgaatgtgtgt	14	7	0	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:152324336G>C	uc001ezw.3	-	3	5999	c.5926C>G	c.(5926-5928)CAC>GAC	p.H1976D	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1976							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTTGACCGTGAGTGTGTCCT	0.527													201	499	---	---	---	---	PASS	C	152324336	C	C	152324336	3	2	64	1	0	0	0	0	1	0	0	0	5923	1290	45	2	1253	2	FLG2	1	152324336	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	136020	152324336	96926285	22	24965										
FLG2	388698	broad.mit.edu	37	chr1	152326177	152326177	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tttgttcttgtgagtgtggtCtatgtgagacccctgagtgc	13	7	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:152326177C>T	uc001ezw.3	-	3	4158	c.4085G>A	c.(4084-4086)AGA>AAA	p.R1362K	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1362							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGAGTGTGGTCTATGTGAGAC	0.468													166	238	---	---	---	---	PASS	T	152326177	T	T	152326177	3	4	64	1	0	0	0	0	1	0	0	0	5923	913	32	2	3094	2	FLG2	1	152326177	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1841	152326177	96924444	23	24966										
LELP1	149018	broad.mit.edu	37	chr1	153177281	153177281	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgtgagtccaaatgccagcCcagctgtttaaagaagctgc	11	10	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:153177281C>A	uc001fbl.2	+	2	208	c.98C>A	c.(97-99)CCC>CAC	p.P33H		NM_001010857	NP_001010857	Q5T871	LELP1_HUMAN	late cornified envelope-like proline-rich 1	33	Cys/Pro-rich.									ovary(1)	1	all_lung(78;3.51e-31)|Lung NSC(65;1.34e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			AAATGCCAGCCCAGCTGTTTA	0.502													125	129	---	---	---	---	PASS	A	153177281	A	A	153177281	3	1	64	1	0	0	0	0	1	0	0	0	8718	623	22	3	100	3	LELP1	1	153177281	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	851104	153177281	96073340	24	24967										
GON4L	54856	broad.mit.edu	37	chr1	155792234	155792234	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tggtaccctttttcttttttCtccttttctcactttcttca	2	12	5	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:155792234C>T	uc001flz.2	-	4	828	c.731G>A	c.(730-732)AGA>AAA	p.R244K	GON4L_uc001fly.1_Missense_Mutation_p.R244K|GON4L_uc009wrh.1_Missense_Mutation_p.R244K|GON4L_uc001fma.1_Missense_Mutation_p.R244K|GON4L_uc001fmc.2_Missense_Mutation_p.R244K|GON4L_uc001fmd.3_Missense_Mutation_p.R244K|GON4L_uc009wri.2_5'UTR|GON4L_uc001fme.2_Missense_Mutation_p.R72K|GON4L_uc001fmf.2_5'Flank	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	244					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TTTCTTTTTTCTCCTTTTCTC	0.428													130	128	---	---	---	---	PASS	T	155792234	T	T	155792234	3	4	64	1	0	0	0	0	1	0	0	0	6572	913	32	2	6224	2	GON4L	1	155792234	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2614953	155792234	93458387	25	24968										
LMNA	4000	broad.mit.edu	37	chr1	156084925	156084925	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tctgaagaggtggtcagccgCgaggtgtccggcatcaaggc	16	10	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:156084925C>A	uc001fni.2	+	1	465	c.216C>A	c.(214-216)CGC>CGA	p.R72R	LMNA_uc001fnf.1_Silent_p.R72R|LMNA_uc001fng.2_Silent_p.R72R|LMNA_uc001fnh.2_Silent_p.R72R|LMNA_uc009wro.1_Silent_p.R72R	NM_170707	NP_733821	P02545	LMNA_HUMAN	lamin A/C isoform 1 precursor	72	Interaction with MLIP.|Linker 1.|Rod.				cellular component disassembly involved in apoptosis|cellular response to hypoxia|establishment or maintenance of microtubule cytoskeleton polarity|muscle organ development|positive regulation of cell aging|regulation of apoptosis|regulation of cell migration	cytoplasm|lamin filament|nuclear envelope|nuclear envelope|perinuclear region of cytoplasm	protein binding|structural molecule activity|structural molecule activity			ovary(2)	2	Hepatocellular(266;0.158)					TGGTCAGCCGCGAGGTGTCCG	0.657									Werner_syndrome|Hutchinson-Gilford_Progeria_Syndrome				12	14	---	---	---	---	PASS	A	156084925	A	A	156084925	2	1	64	1	0	0	0	0	0	0	0	1	8848	755	27	1		1	LMNA	1	156084925	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	292691	156084925	93165696	26	24969										
FCRL4	83417	broad.mit.edu	37	chr1	157548273	157548273	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caaagacgtaccttcctcttCttctcccagctgagtagtct	6	14	4	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:157548273C>T	uc001fqw.2	-	10	1556	c.1420G>A	c.(1420-1422)GAA>AAA	p.E474K	FCRL4_uc010phy.1_RNA	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	474	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				CCTTCCTCTTCTTCTCCCAGC	0.313													19	179	---	---	---	---	PASS	T	157548273	T	T	157548273	3	4	64	1	0	0	0	0	1	0	0	0	5797	922	32	2	139	2	FCRL4	1	157548273	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1463348	157548273	91702348	27	24970										
CD1B	910	broad.mit.edu	37	chr1	158299295	158299295	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agcattgggcaggatgtcccCtagctgagtgccctgctgct	13	12	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:158299295C>A	uc001frx.2	-	4	859	c.751G>T	c.(751-753)GGG>TGG	p.G251W	CD1B_uc001frw.2_Intron	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	251	Extracellular (Potential).|Ig-like.				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					AGGATGTCCCCTAGCTGAGTG	0.607													123	154	---	---	---	---	PASS	A	158299295	A	A	158299295	3	1	64	1	0	0	0	0	1	0	0	0	2975	681	24	3	262	3	CD1B	1	158299295	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	751022	158299295	90951326	28	24971										
OR10R2	343406	broad.mit.edu	37	chr1	158449987	158449987	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gatgctcatcaatctactttCtgtggccaggacaatctcct	7	12	5	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:158449987C>T	uc010pik.1	+	1	320	c.320C>T	c.(319-321)TCT>TTT	p.S107F	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	107	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					AATCTACTTTCTGTGGCCAGG	0.443													32	648	---	---	---	---	PASS	T	158449987	T	T	158449987	3	4	64	1	0	0	0	0	1	0	0	0	10917	913	32	2	322	2	OR10R2	1	158449987	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	150692	158449987	90800634	29	24972										
OR10J1	26476	broad.mit.edu	37	chr1	159409591	159409591	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggaaccaatccatgaaaagaGagaactttactctcatcact	6	10	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:159409591G>A	uc010piv.1	+	1	43	c.43G>A	c.(43-45)GAG>AAG	p.E15K	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	15	Extracellular (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)					CATGAAAAGAGAGAACTTTAC	0.383													15	327	---	---	---	---	PASS	A	159409591	A	A	159409591	3	1	64	1	0	0	0	0	1	0	0	0	10910	943	33	2	45	2	OR10J1	1	159409591	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	959604	159409591	89841030	30	24973										
VANGL2	57216	broad.mit.edu	37	chr1	160394055	160394055	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caccttgaattctgcatcacGcatgacatgacgcccaaggt	8	13	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:160394055G>C	uc001fwb.1	+	8	1586	c.1287G>C	c.(1285-1287)ACG>ACC	p.T429T	VANGL2_uc001fwc.1_Silent_p.T429T	NM_020335	NP_065068	Q9ULK5	VANG2_HUMAN	vang-like 2	429	Cytoplasmic (Potential).				apical protein localization|heart looping|nonmotile primary cilium assembly	apical plasma membrane|integral to membrane				ovary(1)	1	all_cancers(52;1.08e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCTGCATCACGCATGACATGA	0.562													37	46	---	---	---	---	PASS	C	160394055	C	C	160394055	2	2	64	1	0	0	0	0	0	0	0	1	17117	1074	38	4		4	VANGL2	1	160394055	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	984464	160394055	88856566	31	24974										
DDR2	4921	broad.mit.edu	37	chr1	162745571	162745571	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tacatggagaatggagatctCaatcagtttctttcccgcca	8	10	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:162745571C>T	uc001gcf.2	+	16	2451	c.1986C>T	c.(1984-1986)CTC>CTT	p.L662L	DDR2_uc001gcg.2_Silent_p.L662L	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	662	Cytoplasmic (Potential).|Protein kinase.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			ATGGAGATCTCAATCAGTTTC	0.488													48	253	---	---	---	---	PASS	T	162745571	T	T	162745571	2	4	64	1	0	0	0	0	0	0	0	1	4337	813	29	2		2	DDR2	1	162745571	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	2351516	162745571	86505050	32	24975										
C1orf125	126859	broad.mit.edu	37	chr1	179502981	179502981	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaaaatatcttgaagcaatgGctgtaattgaacatatgcag	8	5	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:179502981G>T	uc001gmo.2	+	24	2894	c.2767G>T	c.(2767-2769)GCT>TCT	p.A923S	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.A849S|C1orf125_uc009wxh.2_RNA	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	923	Glu-rich.										0						TGAAGCAATGGCTGTAATTGA	0.388													94	108	---	---	---	---	PASS	T	179502981	T	T	179502981	3	4	64	1	0	0	0	0	1	0	0	0	1993	1203	42	3	2857	3	C1orf125	1	179502981	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	16757410	179502981	69747640	33	24976										
FAM163A	148753	broad.mit.edu	37	chr1	179783283	179783283	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cctggccaggctctgggcgtGaggccttcaccaatccaagg	13	14	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:179783283G>A	uc009wxj.2	+	6	922	c.463G>A	c.(463-465)GAG>AAG	p.E155K	FAM163A_uc001gnj.2_Missense_Mutation_p.E155K|FAM163A_uc009wxk.2_Missense_Mutation_p.E155K	NM_173509	NP_775780	Q96GL9	F163A_HUMAN	hypothetical protein LOC148753	155						integral to membrane				ovary(1)	1						CTCTGGGCGTGAGGCCTTCAC	0.612													10	234	---	---	---	---	PASS	A	179783283	A	A	179783283	3	1	64	1	0	0	0	0	1	0	0	0	5476	1291	45	2	469	2	FAM163A	1	179783283	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	280302	179783283	69467338	34	24977										
TOR1AIP2	163590	broad.mit.edu	37	chr1	179820126	179820126	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cttccttagggagggccacaGagctgctccctaagtgtgca	12	12	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:179820126G>C	uc001gnk.2	-	4	795	c.407C>G	c.(406-408)TCT>TGT	p.S136C	TOR1AIP2_uc001gnl.2_Missense_Mutation_p.S136C	NM_145034	NP_659471	Q8NFQ8	TOIP2_HUMAN	torsin A interacting protein 2	136						endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1						GAGGGCCACAGAGCTGCTCCC	0.542													6	246	---	---	---	---	PASS	C	179820126	C	C	179820126	3	2	64	1	0	0	0	0	1	0	0	0	16370	942	33	2	1017	2	TOR1AIP2	1	179820126	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	36843	179820126	69430495	35	24978										
RNASEL	6041	broad.mit.edu	37	chr1	182544681	182544681	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctggaaatgtcttctgaaaaTacagggaagggtctccaatt	10	7	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:182544681T>C	uc001gpj.1	-	6	2239	c.2072A>G	c.(2071-2073)TAT>TGT	p.Y691C	RNASEL_uc009wxz.1_Missense_Mutation_p.Y691C	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	691	KEN.				mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						CTTCTGAAAATACAGGGAAGG	0.393									Hereditary_Prostate_Cancer				78	107	---	---	---	---	PASS	C	182544681	C	C	182544681	3	2	64	1	0	0	0	0	1	0	0	0	13416	1406	49	5	157	5	RNASEL	1	182544681	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	2724555	182544681	66705940	36	24979										
CFHR2	3080	broad.mit.edu	37	chr1	196928158	196928158	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aacaaaatctcattcatttcGagcaatgtgtcagaatggga	8	7	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:196928158G>A	uc001gtq.1	+	5	838	c.761G>A	c.(760-762)CGA>CAA	p.R254Q	CFHR2_uc001gtr.1_Missense_Mutation_p.R130Q	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	254	Sushi 4.					extracellular region				skin(2)|ovary(1)	3						CATTCATTTCGAGCAATGTGT	0.323													69	72	---	---	---	---	PASS	A	196928158	A	A	196928158	3	1	64	1	0	0	0	0	1	0	0	0	3285	1058	37	2	779	2	CFHR2	1	196928158	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	14383477	196928158	52322463	37	24980										
ASPM	259266	broad.mit.edu	37	chr1	197072279	197072279	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tttattctttttctcactttCataccacgataagctgactg	4	10	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:197072279C>A	uc001gtu.2	-	18	6359	c.6102G>T	c.(6100-6102)ATG>ATT	p.M2034I	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2034	IQ 14.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TTCTCACTTTCATACCACGAT	0.328													55	387	---	---	---	---	PASS	A	197072279	A	A	197072279	3	1	64	1	0	0	0	0	1	0	0	0	1056	826	29	2	4375	2	ASPM	1	197072279	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	144121	197072279	52178342	38	24981										
PTPRC	5788	broad.mit.edu	37	chr1	198717314	198717314	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	taaaagtaaaaacaggaattCtaatgtcatcccatgtatgt	6	6	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:198717314C>T	uc001gur.1	+	27	3098	c.2918C>T	c.(2917-2919)TCT>TTT	p.S973F	PTPRC_uc001gus.1_Missense_Mutation_p.S925F|PTPRC_uc001gut.1_Missense_Mutation_p.S812F	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	973	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						AACAGGAATTCTAATGTCATC	0.294													13	65	---	---	---	---	PASS	T	198717314	T	T	198717314	3	4	64	1	0	0	0	0	1	0	0	0	12797	913	32	2	3031	2	PTPRC	1	198717314	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1645035	198717314	50533307	39	24982										
RNPEP	6051	broad.mit.edu	37	chr1	201958560	201958560	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgctagcacctgggagaagaGaggtccaaataagttcttct	11	8	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:201958560G>A	uc001gxd.2	+	3	667	c.638G>A	c.(637-639)AGA>AAA	p.R213K	RNPEP_uc001gxe.2_Intron|RNPEP_uc001gxf.2_Missense_Mutation_p.R82K	NM_020216	NP_064601	Q9H4A4	AMPB_HUMAN	arginyl aminopeptidase	213					leukotriene biosynthetic process		epoxide hydrolase activity|zinc ion binding			upper_aerodigestive_tract(1)	1				KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|Colorectal(1306;0.005)		TGGGAGAAGAGAGGTCCAAAT	0.498													11	231	---	---	---	---	PASS	A	201958560	A	A	201958560	3	1	64	1	0	0	0	0	1	0	0	0	13509	942	33	2	648	2	RNPEP	1	201958560	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3241246	201958560	47292061	40	24983										
PLEKHA6	22874	broad.mit.edu	37	chr1	204210871	204210871	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgcctggtgggcacaaggctGatgtctctgggggtgtccag	17	9	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:204210871G>T	uc001hau.2	-	16	2561	c.2244C>A	c.(2242-2244)ATC>ATA	p.I748I	PLEKHA6_uc009xau.1_RNA	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	748										ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			GCACAAGGCTGATGTCTCTGG	0.532													32	206	---	---	---	---	PASS	T	204210871	T	T	204210871	2	4	64	1	0	0	0	0	0	0	0	1	12060	1280	45	2		2	PLEKHA6	1	204210871	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	2252311	204210871	45039750	41	24984										
CNTN2	6900	broad.mit.edu	37	chr1	205033472	205033472	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctcgcccctgacttcaggctGaatcccgtgaggcgtctgat	11	14	2	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:205033472G>T	uc001hbr.2	+	11	1532	c.1263G>T	c.(1261-1263)CTG>CTT	p.L421L	CNTN2_uc001hbq.1_Silent_p.L312L|CNTN2_uc001hbs.2_Silent_p.L209L	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	421	Ig-like C2-type 5.				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)			ACTTCAGGCTGAATCCCGTGA	0.597													224	267	---	---	---	---	PASS	T	205033472	T	T	205033472	2	4	64	1	0	0	0	0	0	0	0	1	3641	1277	45	2		2	CNTN2	1	205033472	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	822601	205033472	44217149	42	24985										
USH2A	7399	broad.mit.edu	37	chr1	215914767	215914767	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tttggtttttcaggtggcatCcacttaatctctatgcaagc	8	9	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:215914767C>A	uc001hku.1	-	60	12048	c.11661G>T	c.(11659-11661)TGG>TGT	p.W3887C		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3887	Fibronectin type-III 24.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CAGGTGGCATCCACTTAATCT	0.383										HNSCC(13;0.011)			101	199	---	---	---	---	PASS	A	215914767	A	A	215914767	3	1	64	1	0	0	0	0	1	0	0	0	17033	856	30	2	3999	2	USH2A	1	215914767	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	10881295	215914767	33335854	43	24986										
OBSCN	84033	broad.mit.edu	37	chr1	228506760	228506760	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaggaggacggccgctcgcaGcgcctgccacaggaggcaga	17	13	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:228506760G>T	uc009xez.1	+	54	14351	c.14307G>T	c.(14305-14307)CAG>CAT	p.Q4769H	OBSCN_uc001hsn.2_Missense_Mutation_p.Q4769H	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4769					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCCGCTCGCAGCGCCTGCCAC	0.647													8	8	---	---	---	---	PASS	T	228506760	T	T	228506760	3	4	64	1	0	0	0	0	1	0	0	0	10812	962	34	3	14517	3	OBSCN	1	228506760	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	12591993	228506760	20743861	44	24987										
AGT	183	broad.mit.edu	37	chr1	230838998	230838998	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agggtcacctccaagacctcAggcttgttaagctgttgggt	12	10	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:230838998A>T	uc001hty.3	-	5	1855	c.1347T>A	c.(1345-1347)CCT>CCA	p.P449P	AGT_uc009xfe.2_3'UTR|AGT_uc009xff.2_Silent_p.P421P	NM_000029	NP_000020	P01019	ANGT_HUMAN	angiotensinogen preproprotein	449					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|blood vessel remodeling|cell-cell signaling|cellular lipid metabolic process|G-protein signaling, coupled to cGMP nucleotide second messenger|kidney development|low-density lipoprotein particle remodeling|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of activation of JAK2 kinase activity|positive regulation of apoptosis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of cardiac muscle hypertrophy|positive regulation of cholesterol esterification|positive regulation of cytokine production|positive regulation of endothelial cell migration|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription, DNA-dependent|regulation of proteolysis|regulation of renal output by angiotensin|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|response to muscle activity involved in regulation of muscle adaptation	extracellular space|soluble fraction	acetyltransferase activator activity|growth factor activity|hormone activity|serine-type endopeptidase inhibitor activity|type 1 angiotensin receptor binding|type 2 angiotensin receptor binding				0	Breast(184;0.0735)|Ovarian(103;0.183)	all_cancers(173;4.64e-23)|all_epithelial(177;3.61e-18)|Breast(1374;0.00093)|all_neural(198;0.0604)|Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;4.4e-06)|Colorectal(1306;5.46e-06)|COAD - Colon adenocarcinoma(196;0.000256)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)	Aliskiren(DB01258)|Atorvastatin(DB01076)|Cilazapril(DB01340)|Irbesartan(DB01029)|Lisinopril(DB00722)|Ouabain(DB01092)|Simvastatin(DB00641)	CCAAGACCTCAGGCTTGTTAA	0.547													65	123	---	---	---	---	PASS	T	230838998	T	T	230838998	2	4	64	1	0	0	0	0	0	0	0	1	399	175	7	5		5	AGT	1	230838998	Silent	SNP	A	TCGA-34-2600-01A-01D-1522-08	2332238	230838998	18411623	45	24988										
TRIM67	440730	broad.mit.edu	37	chr1	231349681	231349681	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acagccttcagccacgtggaCggggtcttcatgccagccct	11	15	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:231349681C>T	uc009xfn.1	+	9	2286	c.2244C>T	c.(2242-2244)GAC>GAT	p.D748D		NM_001004342	NP_001004342	Q6ZTA4	TRI67_HUMAN	tripartite motif-containing 67	748	B30.2/SPRY.					cytoplasm|cytoskeleton	zinc ion binding			ovary(2)|breast(1)|kidney(1)	4	Breast(184;0.0871)	all_cancers(173;0.189)|Prostate(94;0.167)				GCCACGTGGACGGGGTCTTCA	0.637													5	84	---	---	---	---	PASS	T	231349681	T	T	231349681	2	4	64	1	0	0	0	0	0	0	0	1	16537	535	19	1		1	TRIM67	1	231349681	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	510683	231349681	17900940	46	24989										
C1orf131	128061	broad.mit.edu	37	chr1	231374720	231374720	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggaggaactgcagcagcaagGatctctggtcctgtgggggt	17	8	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:231374720G>A	uc001hun.1	-	2	370	c.333C>T	c.(331-333)ATC>ATT	p.I111I	C1orf131_uc001hul.2_Silent_p.I111I|C1orf131_uc001hum.2_Silent_p.I111I|C1orf131_uc010pwd.1_Silent_p.I111I|C1orf131_uc001huo.1_Silent_p.I111I|GNPAT_uc009xfo.1_5'Flank|GNPAT_uc001hup.3_5'Flank|GNPAT_uc009xfp.2_5'Flank	NM_152379	NP_689592	Q8NDD1	CA131_HUMAN	hypothetical protein LOC128061	111										central_nervous_system(1)|skin(1)	2	Breast(184;0.0871)	all_cancers(173;0.2)|Prostate(94;0.183)				CAGCAGCAAGGATCTCTGGTC	0.478													65	114	---	---	---	---	PASS	A	231374720	A	A	231374720	2	1	64	1	0	0	0	0	0	0	0	1	1998	1164	41	2		2	C1orf131	1	231374720	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	25039	231374720	17875901	47	24990										
SIPA1L2	57568	broad.mit.edu	37	chr1	232539917	232539917	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agccccagttcttcatctgaGtcaagacctgaaataagatt	7	10	4	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:232539917G>T	uc001hvg.2	-	18	4928	c.4770C>A	c.(4768-4770)GAC>GAA	p.D1590E	SIPA1L2_uc001hvf.2_Intron	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1590					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				CTTCATCTGAGTCAAGACCTG	0.458													3	77	---	---	---	---	PASS	T	232539917	T	T	232539917	3	4	64	1	0	0	0	0	1	0	0	0	14330	1020	36	3	414	3	SIPA1L2	1	232539917	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1165197	232539917	16710704	48	24991										
ARID4B	51742	broad.mit.edu	37	chr1	235345964	235345964	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgttttcttctagcaaagatGaactgttctgttcctccttt	6	9	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:235345964G>A	uc001hwq.2	-	20	2768	c.2270C>T	c.(2269-2271)TCA>TTA	p.S757L	ARID4B_uc001hwr.2_Missense_Mutation_p.S671L|ARID4B_uc001hws.3_Missense_Mutation_p.S671L|ARID4B_uc001hwp.2_RNA|ARID4B_uc001hwt.3_Missense_Mutation_p.S438L	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	757					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			TAGCAAAGATGAACTGTTCTG	0.343													12	196	---	---	---	---	PASS	A	235345964	A	A	235345964	3	1	64	1	0	0	0	0	1	0	0	0	920	1294	45	2	1688	2	ARID4B	1	235345964	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2806047	235345964	13904657	49	24992										
AHCTF1	25909	broad.mit.edu	37	chr1	247076562	247076562	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcaacttcattttgattgcaTgacaagtcatccaaacatag	5	9	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:247076562T>C	uc001ibu.1	-	3	535	c.528A>G	c.(526-528)TCA>TCG	p.S176S	AHCTF1_uc001ibv.1_Silent_p.S185S	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	176	Necessary for cytoplasmic localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			TTTGATTGCATGACAAGTCAT	0.398													64	85	---	---	---	---	PASS	C	247076562	C	C	247076562	2	2	64	1	0	0	0	0	0	0	0	1	408	1451	51	5		5	AHCTF1	1	247076562	Silent	SNP	T	TCGA-34-2600-01A-01D-1522-08	11730598	247076562	2174059	50	24993										
OR2T8	343172	broad.mit.edu	37	chr1	248085040	248085040	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aggcctttgccacctgctctTcacatgtggctgtggtggga	13	11	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:248085040T>A	uc010pzc.1	+	1	721	c.721T>A	c.(721-723)TCA>ACA	p.S241T		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CACCTGCTCTTCACATGTGGC	0.527													33	25	---	---	---	---	PASS	A	248085040	A	A	248085040	3	1	64	1	0	0	0	0	1	0	0	0	11030	1783	62	5	723	5	OR2T8	1	248085040	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	1008478	248085040	1165581	51	24994										
OR2M5	127059	broad.mit.edu	37	chr1	248308530	248308530	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agccccacccacaccttcctCttctttctggtcctggccat	5	19	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:248308530C>T	uc010pze.1	+	1	81	c.81C>T	c.(79-81)CTC>CTT	p.L27L		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	27	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			ACACCTTCCTCTTCTTTCTGG	0.493													18	647	---	---	---	---	PASS	T	248308530	T	T	248308530	2	4	64	1	0	0	0	0	0	0	0	1	11013	900	32	2		2	OR2M5	1	248308530	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	223490	248308530	942091	52	24995										
OR2T33	391195	broad.mit.edu	37	chr1	248436396	248436396	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcccaccacagccacatgtgAagagcaggtggcaaaggcct	11	13	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:248436396A>T	uc010pzi.1	-	1	721	c.721T>A	c.(721-723)TCA>ACA	p.S241T		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GCCACATGTGAAGAGCAGGTG	0.517													4	66	---	---	---	---	PASS	T	248436396	T	T	248436396	3	4	64	1	0	0	0	0	1	0	0	0	11024	246	9	5	244	5	OR2T33	1	248436396	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	127866	248436396	814225	53	24996										
OR2G6	391211	broad.mit.edu	37	chr1	248685458	248685458	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgcagctgcccctctgtggtCatcgcacactggatcatatt	9	13	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:248685458C>A	uc001ien.1	+	1	511	c.511C>A	c.(511-513)CAT>AAT	p.H171N		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	171	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCTCTGTGGTCATCGCACACT	0.562													78	73	---	---	---	---	PASS	A	248685458	A	A	248685458	3	1	64	1	0	0	0	0	1	0	0	0	11000	826	29	2	513	2	OR2G6	1	248685458	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	249062	248685458	565163	54	24997										
OR2G6	391211	broad.mit.edu	37	chr1	248685821	248685821	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	taaaccccattatctacactCtgagaaacaaagatgtgaaa	5	9	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr1:248685821C>T	uc001ien.1	+	1	874	c.874C>T	c.(874-876)CTG>TTG	p.L292L		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	292	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TATCTACACTCTGAGAAACAA	0.443													17	177	---	---	---	---	PASS	T	248685821	T	T	248685821	2	4	64	1	0	0	0	0	0	0	0	1	11000	912	32	2		2	OR2G6	1	248685821	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	363	248685821	564800	55	24998										
MYT1L	23040	broad.mit.edu	37	chr2	1843124	1843124	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgatgtggccctggccgtcGcacccggggaccggacacct	15	15	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:1843124G>T	uc002qxe.2	-	21	3704	c.2877C>A	c.(2875-2877)TGC>TGA	p.C959*	MYT1L_uc002qxd.2_Nonsense_Mutation_p.C957*|MYT1L_uc010ewk.2_5'UTR	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	959	C2HC-type 5.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CCTGGCCGTCGCACCCGGGGA	0.622													57	51	---	---	---	---	PASS	T	1843124	T	T	1843124	4	4	64	1	0	0	0	0	0	1	0	0	10107	1079	38	1	703	1	MYT1L	2	1843124	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08		1843124	241356249	56	24999										
MYT1L	23040	broad.mit.edu	37	chr2	1893048	1893048	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctcgtcctcgtctatcctccGgggtttcattttggtgtagt	10	11	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:1893048G>T	uc002qxe.2	-	16	3312	c.2485C>A	c.(2485-2487)CGG>AGG	p.R829R	MYT1L_uc002qxd.2_Silent_p.R827R|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	829					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		TCTATCCTCCGGGGTTTCATT	0.532													86	61	---	---	---	---	PASS	T	1893048	T	T	1893048	2	4	64	1	0	0	0	0	0	0	0	1	10107	1115	39	1		1	MYT1L	2	1893048	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	49924	1893048	241306325	57	25000										
RNF144A	9781	broad.mit.edu	37	chr2	7154603	7154603	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agtgcctgaaacagtatgttGagctcttgatcaaagaagga	11	6	2	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:7154603G>A	uc002qys.2	+	4	596	c.154G>A	c.(154-156)GAG>AAG	p.E52K	RNF144A_uc002qyt.2_Intron	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	52	RING-type 1; atypical.					Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		ACAGTATGTTGAGCTCTTGAT	0.423													15	171	---	---	---	---	PASS	A	7154603	A	A	7154603	3	1	64	1	0	0	0	0	1	0	0	0	13445	1291	45	2	160	2	RNF144A	2	7154603	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	5261555	7154603	236044770	58	25001										
KCNF1	3754	broad.mit.edu	37	chr2	11053771	11053771	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgcccatccaccccatcatcAacaactttgtcaggtactac	4	16	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:11053771A>T	uc002rax.2	+	1	1709	c.1219A>T	c.(1219-1221)AAC>TAC	p.N407Y		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	407	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		CCCCATCATCAACAACTTTGT	0.612													26	60	---	---	---	---	PASS	T	11053771	T	T	11053771	3	4	64	1	0	0	0	0	1	0	0	0	8026	130	5	5	1221	5	KCNF1	2	11053771	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	3899168	11053771	232145602	59	25002										
PQLC3	130814	broad.mit.edu	37	chr2	11300791	11300791	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atctttcattttaacgggaaCgtgaagcaggccactcctta	8	10	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:11300791C>A	uc002rbc.2	+	3	400	c.267C>A	c.(265-267)AAC>AAA	p.N89K	PQLC3_uc010yjk.1_Missense_Mutation_p.N89K	NM_152391	NP_689604	Q8N755	PQLC3_HUMAN	PQ loop repeat containing 3 precursor	89						integral to membrane					0	all_hematologic(175;0.0797)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.0978)|OV - Ovarian serous cystadenocarcinoma(76;0.132)		TTAACGGGAACGTGAAGCAGG	0.512													94	84	---	---	---	---	PASS	A	11300791	A	A	11300791	3	1	64	1	0	0	0	0	1	0	0	0	12420	535	19	1	277	1	PQLC3	2	11300791	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	247020	11300791	231898582	60	25003										
APOB	338	broad.mit.edu	37	chr2	21231921	21231921	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctggaaggtagctttctgaaGagcctgaagactgacttcaa	11	8	2	5			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:21231921G>C	uc002red.2	-	26	7947	c.7819C>G	c.(7819-7821)CTT>GTT	p.L2607V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2607					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GCTTTCTGAAGAGCCTGAAGA	0.413													63	135	---	---	---	---	PASS	C	21231921	C	C	21231921	3	2	64	1	0	0	0	0	1	0	0	0	785	942	33	2	5888	2	APOB	2	21231921	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	9931130	21231921	221967452	61	25004										
APOB	338	broad.mit.edu	37	chr2	21239320	21239320	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gccttctttaccttaggtggCccatgagggcgacctcagta	11	12	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:21239320C>T	uc002red.2	-	21	3451	c.3323G>A	c.(3322-3324)GGC>GAC	p.G1108D		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1108					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CCTTAGGTGGCCCATGAGGGC	0.478													72	36	---	---	---	---	PASS	T	21239320	T	T	21239320	3	4	64	1	0	0	0	0	1	0	0	0	785	739	26	3	10404	3	APOB	2	21239320	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	7399	21239320	221960053	62	25005										
SLC4A1AP	22950	broad.mit.edu	37	chr2	27900642	27900642	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tctcaggattctttagatgcGttcatgtcagaaatgaaatc	8	7	4	3	rs116617546	by1000genomes	TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:27900642G>A	uc002rlk.3	+	8	1896	c.1614G>A	c.(1612-1614)GCG>GCA	p.A538A		NM_018158	NP_060628	Q9BWU0	NADAP_HUMAN	solute carrier family 4 (anion exchanger),	538						cytoplasm|nucleus	double-stranded RNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)					CTTTAGATGCGTTCATGTCAG	0.373													58	138	---	---	---	---	PASS	A	27900642	A	A	27900642	2	1	64	1	0	0	0	0	0	0	0	1	14653	1132	40	1		1	SLC4A1AP	2	27900642	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	6661322	27900642	215298731	63	25006										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48848036	48848036	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agatgtaattgaaggagttcGgaatctatttgctgaagaag	12	3	1	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:48848036G>A	uc010yol.1	+	3	2227	c.2180G>A	c.(2179-2181)CGG>CAG	p.R727Q	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.R727Q|GTF2A1L_uc002rws.1_Missense_Mutation_p.R23Q|GTF2A1L_uc010yom.1_Intron|GTF2A1L_uc002rwt.2_Missense_Mutation_p.R23Q	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	727					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GAAGGAGTTCGGAATCTATTT	0.289													59	52	---	---	---	---	PASS	A	48848036	A	A	48848036	3	1	64	1	0	0	0	0	1	0	0	0	15316	1116	39	1	2190	1	STON1-GTF2A1L	2	48848036	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	20947394	48848036	194351337	64	25007										
USP34	9736	broad.mit.edu	37	chr2	61622326	61622326	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtaaacacttacattcatatCacagaatgcccctaatatgt	4	10	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:61622326C>T	uc002sbe.2	-	4	617	c.595G>A	c.(595-597)GAT>AAT	p.D199N		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	199					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ACATTCATATCACAGAATGCC	0.229													13	72	---	---	---	---	PASS	T	61622326	T	T	61622326	3	4	64	1	0	0	0	0	1	0	0	0	17062	826	29	2	10353	2	USP34	2	61622326	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	12774290	61622326	181577047	65	25008										
FAM161A	84140	broad.mit.edu	37	chr2	62081029	62081029	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctgagccactttctcctcctCttcgtcctccaagatcgcct	5	18	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:62081029C>G	uc010ypo.1	-	1	250	c.148G>C	c.(148-150)GAG>CAG	p.E50Q	FAM161A_uc002sbm.3_Missense_Mutation_p.E50Q|FAM161A_uc002sbn.3_5'UTR|FAM161A_uc010fcm.1_RNA|FAM161A_uc010fcn.1_5'UTR	NM_032180	NP_115556	Q3B820	F161A_HUMAN	hypothetical protein LOC84140	50	Poly-Glu.				response to stimulus|visual perception	centrosome				large_intestine(2)|ovary(1)	3						TTCTCCTCCTCTTCGTCCTCC	0.657													3	47	---	---	---	---	PASS	G	62081029	G	G	62081029	3	3	64	1	0	0	0	0	1	0	0	0	5472	922	32	2	1858	2	FAM161A	2	62081029	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	458703	62081029	181118344	66	25009										
EHBP1	23301	broad.mit.edu	37	chr2	63101542	63101542	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ataatttggtaaatcctgttCaagaactagaaactgaaagg	8	5	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:63101542C>T	uc002sby.2	+	11	1647	c.1165C>T	c.(1165-1167)CAA>TAA	p.Q389*	EHBP1_uc010fcp.2_Nonsense_Mutation_p.Q354*|EHBP1_uc002sbz.2_Nonsense_Mutation_p.Q354*|EHBP1_uc002scb.2_Nonsense_Mutation_p.Q354*	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	389						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			AAATCCTGTTCAAGAACTAGA	0.378									Hereditary_Prostate_Cancer				21	177	---	---	---	---	PASS	T	63101542	T	T	63101542	4	4	64	1	0	0	0	0	0	1	0	0	4975	827	29	2	1203	2	EHBP1	2	63101542	Nonsense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1020513	63101542	180097831	67	25010										
EHBP1	23301	broad.mit.edu	37	chr2	63101595	63101595	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaggccccggctccaccagtCctctcaccaaaaacaggagt	8	16	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:63101595C>T	uc002sby.2	+	11	1700	c.1218C>T	c.(1216-1218)GTC>GTT	p.V406V	EHBP1_uc010fcp.2_Silent_p.V371V|EHBP1_uc002sbz.2_Silent_p.V371V|EHBP1_uc002scb.2_Silent_p.V371V	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	406						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			CTCCACCAGTCCTCTCACCAA	0.388									Hereditary_Prostate_Cancer				25	239	---	---	---	---	PASS	T	63101595	T	T	63101595	2	4	64	1	0	0	0	0	0	0	0	1	4975	842	30	2		2	EHBP1	2	63101595	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	53	63101595	180097778	68	25011										
VPS54	51542	broad.mit.edu	37	chr2	64148355	64148355	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gctacctttgctcttgacatGagaaatttgacagctcgatc	8	10	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:64148355G>A	uc002scq.2	-	13	2017	c.1854C>T	c.(1852-1854)CTC>CTT	p.L618L	VPS54_uc002scp.2_Silent_p.L606L|VPS54_uc002scn.2_5'Flank|VPS54_uc002sco.2_Silent_p.L103L|VPS54_uc010fct.2_Silent_p.L465L	NM_016516	NP_057600	Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 isoform 1	618					protein transport|retrograde transport, endosome to Golgi						0						CTCTTGACATGAGAAATTTGA	0.338													5	148	---	---	---	---	PASS	A	64148355	A	A	64148355	2	1	64	1	0	0	0	0	0	0	0	1	17213	1277	45	2		2	VPS54	2	64148355	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	1046760	64148355	179051018	69	25012										
FBXO41	150726	broad.mit.edu	37	chr2	73491644	73491644	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcccactgcctccctcggggCgggctgcagaataccagggg	15	15	0	1	rs61733550	by1000genomes	TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:73491644C>A	uc002sjb.1	-	6	1751	c.1751G>T	c.(1750-1752)CGC>CTC	p.R584L		NM_001080410	NP_001073879	Q8TF61	FBX41_HUMAN	F-box protein 41	523	F-box.					intracellular	protein binding|zinc ion binding			breast(2)|pancreas(1)	3						TCCCTCGGGGCGGGCTGCAGA	0.637													15	47	---	---	---	---	PASS	A	73491644	A	A	73491644	3	1	64	1	0	0	0	0	1	0	0	0	5750	768	27	1	1091	1	FBXO41	2	73491644	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	9343289	73491644	169707729	70	25013										
ALMS1	7840	broad.mit.edu	37	chr2	73827841	73827841	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaacggtgccaaaaaacacaCtcgagatgttgggataactt	10	8	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:73827841C>T	uc002sje.1	+	20	11819	c.11708C>T	c.(11707-11709)ACT>ATT	p.T3903I	ALMS1_uc002sjf.1_Missense_Mutation_p.T3859I|ALMS1_uc002sjh.1_Missense_Mutation_p.T3289I	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3901					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AAAAAACACACTCGAGATGTT	0.448													27	81	---	---	---	---	PASS	T	73827841	T	T	73827841	3	4	64	1	0	0	0	0	1	0	0	0	535	565	20	3	11772	3	ALMS1	2	73827841	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	336197	73827841	169371532	71	25014										
C2orf78	388960	broad.mit.edu	37	chr2	74042728	74042728	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tccccccgatcttcagttccTtacaagatcttgaccaacct	4	16	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:74042728T>G	uc002sjr.1	+	3	1499	c.1378T>G	c.(1378-1380)TTA>GTA	p.L460V		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	460										ovary(2)	2						CTTCAGTTCCTTACAAGATCT	0.448													62	36	---	---	---	---	PASS	G	74042728	G	G	74042728	3	3	64	1	0	0	0	0	1	0	0	0	2195	1606	56	5	1388	5	C2orf78	2	74042728	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	214887	74042728	169156645	72	25015										
ACTG2	72	broad.mit.edu	37	chr2	74141894	74141894	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gatggccacagcagcttcctCttcctccctggagaagagct	10	14	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:74141894C>A	uc002sjw.2	+	7	823	c.701C>A	c.(700-702)TCT>TAT	p.S234Y	ACTG2_uc010fey.2_Missense_Mutation_p.S234Y|ACTG2_uc010yrn.1_Missense_Mutation_p.S191Y	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	234					muscle contraction	cytoskeleton|cytosol	ATP binding				0						GCAGCTTCCTCTTCCTCCCTG	0.537													29	104	---	---	---	---	PASS	A	74141894	A	A	74141894	3	1	64	1	0	0	0	0	1	0	0	0	197	913	32	2	723	2	ACTG2	2	74141894	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	99166	74141894	169057479	73	25016										
REG1B	5968	broad.mit.edu	37	chr2	79313940	79313940	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gctgctctcctcactcacatCtgcatcaacccaggtctcag	6	17	6	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:79313940C>G	uc002sny.2	-	3	293	c.181G>C	c.(181-183)GAT>CAT	p.D61H	REG1B_uc010ffv.1_Missense_Mutation_p.D61H|REG1B_uc010ffw.2_Missense_Mutation_p.D61H	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	61	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						TCACTCACATCTGCATCAACC	0.507													8	261	---	---	---	---	PASS	G	79313940	G	G	79313940	3	3	64	1	0	0	0	0	1	0	0	0	13211	913	32	2	335	2	REG1B	2	79313940	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	5172046	79313940	163885433	74	25017										
POLR1A	25885	broad.mit.edu	37	chr2	86267661	86267661	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cacagtgagcgctgccacttCagctgcagcaaggtcctcaa	10	14	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:86267661C>G	uc002sqs.2	-	25	3973	c.3594G>C	c.(3592-3594)CTG>CTC	p.L1198L	POLR1A_uc010ytb.1_Silent_p.L564L|POLR1A_uc002sqt.1_Silent_p.L221L	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	1198					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						GCTGCCACTTCAGCTGCAGCA	0.647													4	64	---	---	---	---	PASS	G	86267661	G	G	86267661	2	3	64	1	0	0	0	0	0	0	0	1	12209	813	29	2		2	POLR1A	2	86267661	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	6953721	86267661	156931712	75	25018										
ZAP70	7535	broad.mit.edu	37	chr2	98341707	98341707	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tctggggcgcagaccgacggCaagttcctgtatgtggggcc	16	11	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:98341707C>A	uc002syd.1	+	4	762	c.555C>A	c.(553-555)GGC>GGA	p.G185G	ZAP70_uc010yvf.1_Silent_p.G185G|ZAP70_uc002sye.1_Silent_p.G75G	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	185	SH2 2.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						AGACCGACGGCAAGTTCCTGT	0.642													31	41	---	---	---	---	PASS	A	98341707	A	A	98341707	2	1	64	1	0	0	0	0	0	0	0	1	17511	697	25	3		3	ZAP70	2	98341707	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	12074046	98341707	144857666	76	25019										
ZAP70	7535	broad.mit.edu	37	chr2	98351769	98351769	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gggcacggagaaggcagacaCggaagagatgatgcgcgagg	19	7	0	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:98351769C>A	uc002syd.1	+	10	1346	c.1139C>A	c.(1138-1140)ACG>AAG	p.T380K	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Missense_Mutation_p.T270K|ZAP70_uc002syf.1_Missense_Mutation_p.T73K	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	380	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						AAGGCAGACACGGAAGAGATG	0.662													63	167	---	---	---	---	PASS	A	98351769	A	A	98351769	3	1	64	1	0	0	0	0	1	0	0	0	17511	536	19	1	1169	1	ZAP70	2	98351769	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	10062	98351769	144847604	77	25020										
MRPL30	51263	broad.mit.edu	37	chr2	99811647	99811647	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttgaaagtagttaagcatttGataaggtttgttgtttcttc	9	3	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:99811647G>C	uc002szu.2	+	5	510	c.348G>C	c.(346-348)TTG>TTC	p.L116F	MRPL30_uc002szl.1_RNA|MRPL30_uc002szr.2_Missense_Mutation_p.L116F|MRPL30_uc002szt.1_RNA|MRPL30_uc002szv.2_Missense_Mutation_p.L116F	NM_145213	NP_660214	Q8TCC3	RM30_HUMAN	RecName: Full=39S ribosomal protein L30, mitochondrial;          Short=L30mt; AltName: Full=MRP-L30; AltName: Full=MRP-L28; Flags: Precursor;	116					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1						TTAAGCATTTGATAAGGTTTG	0.318													15	181	---	---	---	---	PASS	C	99811647	C	C	99811647	3	2	64	1	0	0	0	0	1	0	0	0	9794	1281	45	2	362	2	MRPL30	2	99811647	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1459878	99811647	143387726	78	25021										
LYG2	254773	broad.mit.edu	37	chr2	99863224	99863224	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cccatagcagccgtggtacaGgcgtggatgtaggtgaggct	16	9	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:99863224G>A	uc002szw.1	-	3	216	c.103C>T	c.(103-105)CTG>TTG	p.L35L	MRPL30_uc002szl.1_Intron|LYG2_uc010fip.1_Silent_p.L35L|LYG2_uc002szx.1_Silent_p.L35L	NM_175735	NP_783862	Q86SG7	LYG2_HUMAN	lysozyme G-like 2 precursor	35					cell wall macromolecule catabolic process|peptidoglycan catabolic process	extracellular region	lysozyme activity			ovary(1)	1						CCGTGGTACAGGCGTGGATGT	0.517													112	86	---	---	---	---	PASS	A	99863224	A	A	99863224	2	1	64	1	0	0	0	0	0	0	0	1	9105	991	35	3		3	LYG2	2	99863224	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	51577	99863224	143336149	79	25022										
SULT1C3	442038	broad.mit.edu	37	chr2	108881303	108881303	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cccaaagcgggaaattgagaAgatactgaagttcctggaaa	11	7	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:108881303A>C	uc010ywo.1	+	6	644	c.644A>C	c.(643-645)AAG>ACG	p.K215T		NM_001008743	NP_001008743	Q6IMI6	ST1C3_HUMAN	sulfotransferase family, cytosolic, 1C, member	215	PAPS.					cytoplasm	alcohol sulfotransferase activity			skin(1)	1						GAAATTGAGAAGATACTGAAG	0.403													64	43	---	---	---	---	PASS	C	108881303	C	C	108881303	3	2	64	1	0	0	0	0	1	0	0	0	15375	72	3	5	666	5	SULT1C3	2	108881303	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	9018079	108881303	134318070	80	25023										
DPP10	57628	broad.mit.edu	37	chr2	116594282	116594282	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctacataatgttcatggcttGaaagaagaaaatatattaat	6	4	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:116594282G>A	uc002tla.1	+	24	2599	c.2142G>A	c.(2140-2142)TTG>TTA	p.L714L	DPP10_uc002tlb.1_Silent_p.L664L|DPP10_uc002tlc.1_Silent_p.L710L|DPP10_uc002tle.2_Silent_p.L718L|DPP10_uc002tlf.1_Silent_p.L707L	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	714	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TTCATGGCTTGAAAGAAGAAA	0.318													25	186	---	---	---	---	PASS	A	116594282	A	A	116594282	2	1	64	1	0	0	0	0	0	0	0	1	4727	1281	45	2		2	DPP10	2	116594282	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	7712979	116594282	126605091	81	25024										
MYO7B	4648	broad.mit.edu	37	chr2	128394204	128394204	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcatccaccccaagaccaagGtagctgctgggcctccggag	11	15	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:128394204G>A	uc002top.2	+	45	6182	c.6129_splice	c.e45+1	p.K2043_splice	MYO7B_uc002tos.1_Splice_Site_p.K153_splice|MYO7B_uc002tot.2_Splice_Site_p.K153_splice	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB							apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		CAAGACCAAGGTAGCTGCTGG	0.642													7	15	---	---	---	---	PASS	A	128394204	A	A	128394204	5	1	64	1	0	0	0	0	0	0	1	0	10083	1275	44	3	6304	3	MYO7B	2	128394204	Splice_Site	SNP	G	TCGA-34-2600-01A-01D-1522-08	11799922	128394204	114805169	82	25025										
LIMS2	55679	broad.mit.edu	37	chr2	128398512	128398512	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtaggccaggcccttcttctCatagtgccggtgccccagga	12	14	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:128398512C>A	uc002tpa.2	-	7	878	c.712G>T	c.(712-714)GAG>TAG	p.E238*	LIMS2_uc002tou.2_Nonsense_Mutation_p.E46*|LIMS2_uc002tov.2_Nonsense_Mutation_p.E86*|LIMS2_uc002tow.2_Nonsense_Mutation_p.E86*|LIMS2_uc002tox.2_Nonsense_Mutation_p.E262*|LIMS2_uc010fmb.2_Nonsense_Mutation_p.E148*|LIMS2_uc002toy.2_Nonsense_Mutation_p.E233*|LIMS2_uc010yzm.1_Nonsense_Mutation_p.E260*|LIMS2_uc002toz.2_Nonsense_Mutation_p.E233*|LIMS2_uc002tpb.2_Nonsense_Mutation_p.E233*	NM_001161403	NP_001154875	Q7Z4I7	LIMS2_HUMAN	LIM and senescent cell antigen-like domains 2	238	LIM zinc-binding 4.				cell junction assembly	cytosol|focal adhesion|nucleus	zinc ion binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0681)		CCCTTCTTCTCATAGTGCCGG	0.622													7	158	---	---	---	---	PASS	A	128398512	A	A	128398512	4	1	64	1	0	0	0	0	0	1	0	0	8804	835	29	2	329	2	LIMS2	2	128398512	Nonsense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	4308	128398512	114800861	83	25026										
FAM123C	205147	broad.mit.edu	37	chr2	131521044	131521044	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcagcttccgagtgggggccGaggagaacttggccccagca	16	12	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:131521044G>C	uc002trw.2	+	2	1589	c.1399G>C	c.(1399-1401)GAG>CAG	p.E467Q	FAM123C_uc010fmv.2_Missense_Mutation_p.E467Q|FAM123C_uc010fms.1_Missense_Mutation_p.E467Q|FAM123C_uc010fmt.1_Missense_Mutation_p.E467Q|FAM123C_uc010fmu.1_Missense_Mutation_p.E467Q	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	467										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		AGTGGGGGCCGAGGAGAACTT	0.637													16	50	---	---	---	---	PASS	C	131521044	C	C	131521044	3	2	64	1	0	0	0	0	1	0	0	0	5424	1059	37	2	1401	2	FAM123C	2	131521044	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3122532	131521044	111678329	84	25027										
ARHGAP15	55843	broad.mit.edu	37	chr2	144381754	144381754	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaggacatccacgttgtcacCggagcactgaagatgttttt	11	9	1	2	rs149563619		TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:144381754C>A	uc002tvm.3	+	12	1207	c.1056C>A	c.(1054-1056)ACC>ACA	p.T352T	ARHGAP15_uc002tvn.2_Silent_p.T118T	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	352	Rho-GAP.				regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		ACGTTGTCACCGGAGCACTGA	0.473													41	37	---	---	---	---	PASS	A	144381754	A	A	144381754	2	1	64	1	0	0	0	0	0	0	0	1	866	639	23	1		1	ARHGAP15	2	144381754	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	12860710	144381754	98817619	85	25028										
GTDC1	79712	broad.mit.edu	37	chr2	144710406	144710406	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acacccacagtacacagcttCcaacctagaaaaattttaga	4	12	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:144710406C>T	uc002tvp.2	-	10	1414	c.1135G>A	c.(1135-1137)GAA>AAA	p.E379K	GTDC1_uc002tvo.2_Nonsense_Mutation_p.W330*|GTDC1_uc002tvq.2_Missense_Mutation_p.E261K|GTDC1_uc002tvr.2_Missense_Mutation_p.E294K|GTDC1_uc010fnn.2_Missense_Mutation_p.E379K|GTDC1_uc002tvs.2_Missense_Mutation_p.E347K|GTDC1_uc010fno.2_Missense_Mutation_p.E250K	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	379					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		TACACAGCTTCCAACCTAGAA	0.353													11	208	---	---	---	---	PASS	T	144710406	T	T	144710406	3	4	64	1	0	0	0	0	1	0	0	0	6851	864	30	2	253	2	GTDC1	2	144710406	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	328652	144710406	98488967	86	25029										
NEB	4703	broad.mit.edu	37	chr2	152553725	152553725	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gttatggtctgagggaagaaGcctttgcctctgtcttcttc	11	9	4	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:152553725G>A	uc010fnx.2	-	16	1598	c.1407C>T	c.(1405-1407)GGC>GGT	p.G469G	NEB_uc010fny.1_Silent_p.G23G	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	469					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GAGGGAAGAAGCCTTTGCCTC	0.383													50	117	---	---	---	---	PASS	A	152553725	A	A	152553725	2	1	64	1	0	0	0	0	0	0	0	1	10302	958	34	3		3	NEB	2	152553725	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	7843319	152553725	90645648	87	25030										
COBLL1	22837	broad.mit.edu	37	chr2	165551453	165551453	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cagaggactaaccatggcatCatcaggtgagctcacagaac	10	11	3	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:165551453C>T	uc010zcw.1	-	15	2888	c.2764G>A	c.(2764-2766)GAT>AAT	p.D922N	COBLL1_uc002ucp.2_Missense_Mutation_p.D855N|COBLL1_uc002ucq.2_Missense_Mutation_p.D817N|COBLL1_uc010zcx.1_Missense_Mutation_p.D863N|COBLL1_uc002ucn.2_Missense_Mutation_p.D283N|COBLL1_uc002uco.2_Missense_Mutation_p.D586N	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	893										ovary(2)|pancreas(1)	3						ACCATGGCATCATCAGGTGAG	0.453													11	186	---	---	---	---	PASS	T	165551453	T	T	165551453	3	4	64	1	0	0	0	0	1	0	0	0	3654	826	29	2	949	2	COBLL1	2	165551453	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	12997728	165551453	77647920	88	25031										
SCN2A	6326	broad.mit.edu	37	chr2	166165188	166165188	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tctctcaggtatacctttacAggaatttatacttttgaatc	5	8	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:166165188A>G	uc002udc.2	+	5	779	c.489A>G	c.(487-489)ACA>ACG	p.T163T	SCN2A_uc002udd.2_Silent_p.T163T|SCN2A_uc002ude.2_Silent_p.T163T	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	163	I.|Helical; Name=S2 of repeat I; (Potential).				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ATACCTTTACAGGAATTTATA	0.308													54	167	---	---	---	---	PASS	G	166165188	G	G	166165188	2	3	64	1	0	0	0	0	0	0	0	1	13916	175	7	5		5	SCN2A	2	166165188	Silent	SNP	A	TCGA-34-2600-01A-01D-1522-08	613735	166165188	77034185	89	25032										
XIRP2	129446	broad.mit.edu	37	chr2	168106414	168106414	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aagaagagagattaataactGaaagaaaacacgaacatctg	8	5	1	5			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:168106414G>T	uc002udx.2	+	8	8530	c.8512G>T	c.(8512-8514)GAA>TAA	p.E2838*	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Nonsense_Mutation_p.E2663*|XIRP2_uc010fpq.2_Nonsense_Mutation_p.E2616*|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Nonsense_Mutation_p.E184*	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2663					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ATTAATAACTGAAAGAAAACA	0.383													8	181	---	---	---	---	PASS	T	168106414	T	T	168106414	4	4	64	1	0	0	0	0	0	1	0	0	17427	1291	45	2	8542	2	XIRP2	2	168106414	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1941226	168106414	75092959	90	25033										
LRP2	4036	broad.mit.edu	37	chr2	170151127	170151127	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tactgcagttgatttcatctGaggagtccctgcaatcaact	8	10	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:170151127G>A	uc002ues.2	-	5	734	c.521C>T	c.(520-522)TCA>TTA	p.S174L	LRP2_uc010zdf.1_Missense_Mutation_p.S174L	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	174	LDL-receptor class A 4.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GATTTCATCTGAGGAGTCCCT	0.308													5	83	---	---	---	---	PASS	A	170151127	A	A	170151127	3	1	64	1	0	0	0	0	1	0	0	0	8956	1294	45	2	13746	2	LRP2	2	170151127	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2044713	170151127	73048246	91	25034										
WIPF1	7456	broad.mit.edu	37	chr2	175440079	175440079	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcctccaccaaagccaccacCaccgcctccagcaccagctc	5	23	0	0	rs140541247		TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:175440079C>A	uc002uiy.2	-	5	543	c.211G>T	c.(211-213)GGT>TGT	p.G71C	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Missense_Mutation_p.G71C|WIPF1_uc010fqt.1_Missense_Mutation_p.G71C|WIPF1_uc002ujc.1_Missense_Mutation_p.G71C|WIPF1_uc002uiz.2_Missense_Mutation_p.G71C|WIPF1_uc002ujb.1_Missense_Mutation_p.G71C|WIPF1_uc010zep.1_Missense_Mutation_p.G71C	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	71	Gly-rich.				actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						aagccaccaccaccgcctcca	0.274													53	162	---	---	---	---	PASS	A	175440079	A	A	175440079	3	1	64	1	0	0	0	0	1	0	0	0	17364	594	21	3	1320	3	WIPF1	2	175440079	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	5288952	175440079	67759294	92	25035										
TTN	7273	broad.mit.edu	37	chr2	179398902	179398902	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgacatgtcctccttcttcaCcaactgcatgcattatctgc	5	14	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:179398902C>A	uc010zfg.1	-	307	94960	c.94736G>T	c.(94735-94737)GGT>GTT	p.G31579V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G25274V|TTN_uc010zfi.1_Missense_Mutation_p.G25207V|TTN_uc010zfj.1_Missense_Mutation_p.G25082V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32506							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)			TCCTTCTTCACCAACTGCATG	0.438													50	153	---	---	---	---	PASS	A	179398902	A	A	179398902	3	1	64	1	0	0	0	0	1	0	0	0	16732	507	18	3	5559	3	TTN	2	179398902	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	3958823	179398902	63800471	93	25036										
TTN	7273	broad.mit.edu	37	chr2	179404670	179404670	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gataccttcttggtatctttCatcaagttcataatcaggat	6	8	6	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:179404670C>T	uc010zfg.1	-	301	90642	c.90418G>A	c.(90418-90420)GAA>AAA	p.E30140K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E23835K|TTN_uc010zfi.1_Missense_Mutation_p.E23768K|TTN_uc010zfj.1_Missense_Mutation_p.E23643K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31067							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)			TGGTATCTTTCATCAAGTTCA	0.383													5	205	---	---	---	---	PASS	T	179404670	T	T	179404670	3	4	64	1	0	0	0	0	1	0	0	0	16732	835	29	2	9901	2	TTN	2	179404670	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	5768	179404670	63794703	94	25037										
TTN	7273	broad.mit.edu	37	chr2	179404840	179404840	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcctggtacctcagcaggctCaccaggtccaccagcattac	8	16	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:179404840C>A	uc010zfg.1	-	300	90573	c.90349G>T	c.(90349-90351)GAG>TAG	p.E30117*	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.E23812*|TTN_uc010zfi.1_Nonsense_Mutation_p.E23745*|TTN_uc010zfj.1_Nonsense_Mutation_p.E23620*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31044							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)			TCAGCAGGCTCACCAGGTCCA	0.458													11	365	---	---	---	---	PASS	A	179404840	A	A	179404840	4	1	64	1	0	0	0	0	0	1	0	0	16732	835	29	2	9974	2	TTN	2	179404840	Nonsense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	170	179404840	63794533	95	25038										
TTN	7273	broad.mit.edu	37	chr2	179416881	179416881	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctcctcctccattatcttcaGgtacatcccatgacaggatg	6	14	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:179416881G>A	uc010zfg.1	-	284	83266	c.83042C>T	c.(83041-83043)CCT>CTT	p.P27681L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P21376L|TTN_uc010zfi.1_Missense_Mutation_p.P21309L|TTN_uc010zfj.1_Missense_Mutation_p.P21184L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28608							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)			ATTATCTTCAGGTACATCCCA	0.458													186	149	---	---	---	---	PASS	A	179416881	A	A	179416881	3	1	64	1	0	0	0	0	1	0	0	0	16732	1000	35	3	17345	3	TTN	2	179416881	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	12041	179416881	63782492	96	25039										
TTN	7273	broad.mit.edu	37	chr2	179464429	179464429	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttgttgacatgggtgtcataGagaacaggttctttgttatc	11	5	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:179464429G>C	uc010zfg.1	-	238	48719	c.48495C>G	c.(48493-48495)CTC>CTG	p.L16165L	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.L9860L|TTN_uc010zfi.1_Silent_p.L9793L|TTN_uc010zfj.1_Silent_p.L9668L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17092							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)			GGGTGTCATAGAGAACAGGTT	0.438													29	285	---	---	---	---	PASS	C	179464429	C	C	179464429	2	2	64	1	0	0	0	0	0	0	0	1	16732	929	33	2		2	TTN	2	179464429	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	47548	179464429	63734944	97	25040										
TTN	7273	broad.mit.edu	37	chr2	179477935	179477935	+	Frame_Shift_Del	DEL	C	-	-													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cagttgatttgcttggttttCcaggtccagcaagattttca							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:179477935delC	uc010zfg.1	-	213	42121	c.41897delG	c.(41896-41898)GGAfs	p.G13966fs	uc002ump.1_Intron|TTN_uc010zfh.1_Frame_Shift_Del_p.G7661fs|TTN_uc010zfi.1_Frame_Shift_Del_p.G7594fs|TTN_uc010zfj.1_Frame_Shift_Del_p.G7469fs	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14893							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)			GCTTGGTTTTCCAGGTCCAGC	0.338													45	53	---	---	---	---		-	179477935	-	-	179477935	7	5	64	1	0	1	0	1	0	0	0	0	16732	855	30	0	58488	0	TTN	2	179477935	Frame_Shift_Del	DEL	C	TCGA-34-2600-01A-01D-1522-08	13506	179477935	63721438	98	25041										
TTN	7273	broad.mit.edu	37	chr2	179514921	179514921	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tggaacctctggttcctcctCttctgcaacaggaactggct	9	13	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:179514921C>G	uc010zfg.1	-	164	32709	c.32485G>C	c.(32485-32487)GAG>CAG	p.E10829Q	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc010fre.1_Intron|TTN_uc002umw.1_RNA|TTN_uc002umx.1_5'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11756							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)			GGTTCCTCCTCTTCTGCAACA	0.383													3	19	---	---	---	---	PASS	G	179514921	G	G	179514921	3	3	64	1	0	0	0	0	1	0	0	0	16732	922	32	2	68096	2	TTN	2	179514921	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	36986	179514921	63684452	99	25042										
DNAJC10	54431	broad.mit.edu	37	chr2	183623921	183623921	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tatccacagatctaacacctCagactttcagtgaaaaagtt	5	10	3	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:183623921C>G	uc002uow.1	+	21	2447	c.2032C>G	c.(2032-2034)CAG>GAG	p.Q678E	DNAJC10_uc002uox.1_RNA|DNAJC10_uc002uoy.1_RNA|DNAJC10_uc002uoz.1_Missense_Mutation_p.Q632E|DNAJC10_uc010fro.1_RNA	NM_018981	NP_061854	Q8IXB1	DJC10_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 10	678	Thioredoxin 4.				apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|ER-associated protein catabolic process|glycerol ether metabolic process|negative regulation of protein phosphorylation|protein folding|response to endoplasmic reticulum stress	endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|extracellular region	ATPase activator activity|ATPase binding|chaperone binding|electron carrier activity|heat shock protein binding|misfolded protein binding|protein disulfide oxidoreductase activity|unfolded protein binding			ovary(1)|large_intestine(1)|breast(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			TCTAACACCTCAGACTTTCAG	0.343													3	134	---	---	---	---	PASS	G	183623921	G	G	183623921	3	3	64	1	0	0	0	0	1	0	0	0	4629	827	29	2	2106	2	DNAJC10	2	183623921	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	4109000	183623921	59575452	100	25043										
COL3A1	1281	broad.mit.edu	37	chr2	189861890	189861890	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	taccgaccacttcttctttaGggtgctcctggtaagaatgg	10	10	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:189861890G>T	uc002uqj.1	+	25	1879	c.1762_splice	c.e25-1	p.G588_splice		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein						axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	TTCTTCTTTAGGGTGCTCCTG	0.363													42	140	---	---	---	---	PASS	T	189861890	T	T	189861890	5	4	64	1	0	0	0	0	0	0	1	0	3688	1014	35	3	1859	3	COL3A1	2	189861890	Splice_Site	SNP	G	TCGA-34-2600-01A-01D-1522-08	6237969	189861890	53337483	101	25044										
PMS1	5378	broad.mit.edu	37	chr2	190708783	190708783	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgaacaatatggaatcctttCagtaccactctgaagaatct	6	9	3	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:190708783C>G	uc002urh.3	+	6	1205	c.676C>G	c.(676-678)CAG>GAG	p.Q226E	PMS1_uc010zga.1_Intron|PMS1_uc010zgb.1_Missense_Mutation_p.Q165E|PMS1_uc002urk.3_Intron|PMS1_uc002uri.3_Missense_Mutation_p.Q226E|PMS1_uc010zgc.1_Missense_Mutation_p.Q50E|PMS1_uc010zgd.1_Missense_Mutation_p.Q50E|PMS1_uc002urj.2_Intron|PMS1_uc010fry.1_Intron|PMS1_uc010frz.2_Intron|PMS1_uc002url.2_Intron|PMS1_uc002urm.2_RNA	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	226					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			GGAATCCTTTCAGTACCACTC	0.408			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					4	180	---	---	---	---	PASS	G	190708783	G	G	190708783	3	3	64	1	0	0	0	0	1	0	0	0	12142	827	29	2	694	2	PMS1	2	190708783	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	846893	190708783	52490590	102	25045										
SGOL2	151246	broad.mit.edu	37	chr2	201399838	201399838	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaaagatgctattgcaaaaaGaagtagagaaactgaatttt	8	3	0	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:201399838G>C	uc002uvw.2	+	3	366	c.253G>C	c.(253-255)GAA>CAA	p.E85Q	SGOL2_uc002uvv.3_Missense_Mutation_p.E85Q|SGOL2_uc010zhd.1_Missense_Mutation_p.E85Q|SGOL2_uc010zhe.1_Missense_Mutation_p.E85Q	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	85	Potential.				cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						ATTGCAAAAAGAAGTAGAGAA	0.303													13	125	---	---	---	---	PASS	C	201399838	C	C	201399838	3	2	64	1	0	0	0	0	1	0	0	0	14217	943	33	2	259	2	SGOL2	2	201399838	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	10691055	201399838	41799535	103	25046										
SGOL2	151246	broad.mit.edu	37	chr2	201438273	201438273	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ataaaagaaggagagtgtcaGgttaaaaaggtaaataaaat	10	1	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:201438273G>C	uc002uvw.2	+	7	3317	c.3204G>C	c.(3202-3204)CAG>CAC	p.Q1068H	SGOL2_uc010zhd.1_Missense_Mutation_p.Q1068H|SGOL2_uc010zhe.1_Missense_Mutation_p.Q1068H	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	1068					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						GAGAGTGTCAGGTTAAAAAGG	0.363													143	97	---	---	---	---	PASS	C	201438273	C	C	201438273	3	2	64	1	0	0	0	0	1	0	0	0	14217	991	35	4	3226	4	SGOL2	2	201438273	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	38435	201438273	41761100	104	25047										
NIF3L1	60491	broad.mit.edu	37	chr2	201756805	201756805	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttgcatccctctcgtttgctGagagttgggacaatgttgga	12	8	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:201756805G>A	uc002uwm.2	+	2	230	c.139G>A	c.(139-141)GAG>AAG	p.E47K	PPIL3_uc002uwh.2_5'Flank|PPIL3_uc002uwi.2_5'Flank|PPIL3_uc002uwj.2_5'Flank|PPIL3_uc002uwk.2_5'Flank|NIF3L1_uc002uwl.2_Missense_Mutation_p.E20K|NIF3L1_uc002uwn.2_Missense_Mutation_p.E20K|NIF3L1_uc002uwo.2_Missense_Mutation_p.E47K|NIF3L1_uc002uwp.2_Missense_Mutation_p.E47K|NIF3L1_uc002uwq.2_Missense_Mutation_p.E47K	NM_001136039	NP_001129511	Q9GZT8	NIF3L_HUMAN	NIF3 NGG1 interacting factor 3-like 1 isoform 1	47					positive regulation of transcription, DNA-dependent		transcription factor binding			skin(1)	1						CTCGTTTGCTGAGAGTTGGGA	0.468													8	203	---	---	---	---	PASS	A	201756805	A	A	201756805	3	1	64	1	0	0	0	0	1	0	0	0	10416	1291	45	2	141	2	NIF3L1	2	201756805	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	318532	201756805	41442568	105	25048										
ALS2CR11	151254	broad.mit.edu	37	chr2	202483662	202483662	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgccctcctggttcttgttCttaggcagggccgtcgtgcc	13	13	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:202483662C>G	uc002uye.2	-	1	240	c.192G>C	c.(190-192)AAG>AAC	p.K64N	ALS2CR11_uc002uyf.2_Missense_Mutation_p.K64N|ALS2CR11_uc010fti.2_Missense_Mutation_p.K64N	NM_152525	NP_689738	Q53TS8	AL2SA_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	64										large_intestine(1)|ovary(1)|skin(1)	3						GGTTCTTGTTCTTAGGCAGGG	0.652													22	67	---	---	---	---	PASS	G	202483662	G	G	202483662	3	3	64	1	0	0	0	0	1	0	0	0	552	912	32	2	5481	2	ALS2CR11	2	202483662	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	726857	202483662	40715711	106	25049										
MAP2	4133	broad.mit.edu	37	chr2	210559381	210559381	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agtgcagatgctgaggttgcCaggaggaaatcagtcccatc	13	9	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:210559381C>T	uc002vde.1	+	7	2735	c.2487C>T	c.(2485-2487)GCC>GCT	p.A829A	MAP2_uc002vdc.1_Silent_p.A829A|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.A825A	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	829					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)	CTGAGGTTGCCAGGAGGAAAT	0.488													118	68	---	---	---	---	PASS	T	210559381	T	T	210559381	2	4	64	1	0	0	0	0	0	0	0	1	9235	581	21	3		3	MAP2	2	210559381	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	8075719	210559381	32639992	107	25050										
TMBIM1	64114	broad.mit.edu	37	chr2	219143270	219143270	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cagcaggcaaggatcaggtaGgtgacaacgaagacagcact	13	9	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:219143270G>A	uc002vho.1	-	7	1167	c.441C>T	c.(439-441)ACC>ACT	p.T147T	PNKD_uc002vhn.2_Intron|TMBIM1_uc002vhp.1_Silent_p.T147T|TMBIM1_uc010zjz.1_5'UTR|TMBIM1_uc010zka.1_Silent_p.T36T	NM_022152	NP_071435	Q969X1	TMBI1_HUMAN	transmembrane BAX inhibitor motif containing 1	147	Helical; (Potential).					integral to membrane					0		Renal(207;0.0474)		Epithelial(149;8.56e-07)|all cancers(144;0.000154)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGATCAGGTAGGTGACAACGA	0.577													4	142	---	---	---	---	PASS	A	219143270	A	A	219143270	2	1	64	1	0	0	0	0	0	0	0	1	15978	987	35	3		3	TMBIM1	2	219143270	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	8583889	219143270	24056103	108	25051										
CTDSP1	58190	broad.mit.edu	37	chr2	219267953	219267953	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atgacccacctcctgctcccAgtacgcagacccagtagctg	8	17	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:219267953A>T	uc002vhy.2	+	6	808	c.472_splice	c.e6-2	p.Y158_splice	CTDSP1_uc002vhx.2_Splice_Site_p.Y157_splice|CTDSP1_uc002vhz.2_Splice_Site_p.Y17_splice	NM_021198	NP_067021	Q9GZU7	CTDS1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,						protein dephosphorylation|regulation of transcription from RNA polymerase II promoter	nucleus	CTD phosphatase activity|metal ion binding|protein binding			ovary(1)	1		Renal(207;0.0915)		Epithelial(149;9.96e-07)|all cancers(144;0.00017)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCCTGCTCCCAGTACGCAGAC	0.662													38	99	---	---	---	---	PASS	T	219267953	T	T	219267953	5	4	64	1	0	0	0	0	0	0	1	0	4003	202	7	5	492	5	CTDSP1	2	219267953	Splice_Site	SNP	A	TCGA-34-2600-01A-01D-1522-08	124683	219267953	23931420	109	25052										
DGKD	8527	broad.mit.edu	37	chr2	234371381	234371381	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctgtctgggaagatggccctGgtaagctggtgccccaggga	16	10	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:234371381G>C	uc002vui.1	+	26	3198	c.3186G>C	c.(3184-3186)CTG>CTC	p.L1062L	DGKD_uc002vuj.1_Silent_p.L1018L|DGKD_uc010fyi.1_RNA	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	1062					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	AGATGGCCCTGGTAAGCTGGT	0.587													7	179	---	---	---	---	PASS	C	234371381	C	C	234371381	2	2	64	1	0	0	0	0	0	0	0	1	4467	1362	47	4		4	DGKD	2	234371381	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	15103428	234371381	8827992	110	25053										
UGT1A10	54575	broad.mit.edu	37	chr2	234545802	234545802	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agagagtatggaaccacatcGtgcacttggaggaccattta	11	8	0	1	rs139087628	byFrequency	TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:234545802G>A	uc002vur.2	+	1	680	c.634G>A	c.(634-636)GTG>ATG	p.V212M	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Missense_Mutation_p.V212M	NM_019075	NP_061948	Q9HAW8	UD110_HUMAN	UDP glycosyltransferase 1 family, polypeptide	212					flavone metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding			ovary(2)|skin(1)	3		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;1.96e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000468)|Lung(119;0.00381)|LUSC - Lung squamous cell carcinoma(224;0.008)		GAACCACATCGTGCACTTGGA	0.453													28	466	---	---	---	---	PASS	A	234545802	A	A	234545802	3	1	64	1	0	0	0	0	1	0	0	0	16942	1145	40	1	636	1	UGT1A10	2	234545802	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	174421	234545802	8653571	111	25054										
FARP2	9855	broad.mit.edu	37	chr2	242371175	242371175	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaagatttcttatcaaacttCatccagaggttcatgtaagt	6	7	4	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr2:242371175C>T	uc002wbi.1	+	9	970	c.853C>T	c.(853-855)CAT>TAT	p.H285Y	FARP2_uc010zoq.1_Missense_Mutation_p.H285Y|FARP2_uc010zor.1_Missense_Mutation_p.H285Y	NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	285	FERM.				axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		TATCAAACTTCATCCAGAGGT	0.254													17	145	---	---	---	---	PASS	T	242371175	T	T	242371175	3	4	64	1	0	0	0	0	1	0	0	0	5677	826	29	2	883	2	FARP2	2	242371175	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	7825373	242371175	828198	112	25055										
SRGAP3	9901	broad.mit.edu	37	chr3	9057404	9057404	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttcattttgatcgtccacaaGggggtcttcacctgagtgga	11	9	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:9057404G>C	uc003brf.1	-	15	2366	c.1690C>G	c.(1690-1692)CTT>GTT	p.L564V	SRGAP3_uc003brg.1_Missense_Mutation_p.L540V|SRGAP3_uc003bri.1_RNA	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	564	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		TCGTCCACAAGGGGGTCTTCA	0.468			T	RAF1	pilocytic astrocytoma								5	113	---	---	---	---	PASS	C	9057404	C	C	9057404	3	2	64	1	0	0	0	0	1	0	0	0	15146	1000	35	4	1641	4	SRGAP3	3	9057404	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08		9057404	188965026	113	25056										
MTMR14	64419	broad.mit.edu	37	chr3	9739394	9739394	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tctctctcctctctgccccaGatcagtggaccatcccctgc	6	19	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:9739394G>A	uc003brz.2	+	18	1738	c.1614_splice	c.e18-1	p.R538_splice	MTMR14_uc003bsa.2_Intron|MTMR14_uc003bsb.2_Intron|MTMR14_uc011ath.1_Splice_Site|MTMR14_uc010hcl.2_Intron|MTMR14_uc003bsc.2_Splice_Site	NM_001077525	NP_001070993	Q8NCE2	MTMRE_HUMAN	jumpy isoform 2							perinuclear region of cytoplasm|ruffle	phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(99;0.227)					CTCTGCCCCAGATCAGTGGAC	0.617													17	151	---	---	---	---	PASS	A	9739394	A	A	9739394	5	1	64	1	0	0	0	0	0	0	1	0	9942	956	33	2	1683	2	MTMR14	3	9739394	Splice_Site	SNP	G	TCGA-34-2600-01A-01D-1522-08	681990	9739394	188283036	114	25057										
TTLL3	26140	broad.mit.edu	37	chr3	9877137	9877137	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gggtcaagagtggatggggcGaggccgtgtaccccagggtc	19	9	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:9877137G>A	uc003btg.2	+	13	2499	c.2283G>A	c.(2281-2283)GCG>GCA	p.A761A	ARPC4_uc003btc.1_Intron	NM_001025930	NP_001021100	Q9Y4R7	TTLL3_HUMAN	tubulin tyrosine ligase-like family, member 3	761					axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)					TGGATGGGGCGAGGCCGTGTA	0.562													5	159	---	---	---	---	PASS	A	9877137	A	A	9877137	2	1	64	1	0	0	0	0	0	0	0	1	16725	1045	37	2		2	TTLL3	3	9877137	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	137743	9877137	188145293	115	25058										
GRIP2	80852	broad.mit.edu	37	chr3	14547271	14547271	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctcctggggggtcgtgccccGggctgctgcctgtggtgtat	17	12	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:14547271G>A	uc011avi.1	-	21	2719	c.2719C>T	c.(2719-2721)CGG>TGG	p.R907W	GRIP2_uc010heh.2_RNA|GRIP2_uc011avh.1_Missense_Mutation_p.R438W	NM_001080423	NP_001073892	Q9C0E4	GRIP2_HUMAN	glutamate receptor interacting protein 2	809					synaptic transmission	cytosol|plasma membrane	protein binding			pancreas(1)	1						GTCGTGCCCCGGGCTGCTGCC	0.692													3	1	---	---	---	---	PASS	A	14547271	A	A	14547271	3	1	64	1	0	0	0	0	1	0	0	0	6788	1115	39	1	725	1	GRIP2	3	14547271	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	4670134	14547271	183475159	116	25059										
SLC25A38	54977	broad.mit.edu	37	chr3	39431976	39431976	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcgcacggagagtcttttggGcctttggaaagggatgtccc	14	9	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:39431976G>T	uc003cjo.2	+	3	655	c.254G>T	c.(253-255)GGC>GTC	p.G85V		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	85	Solcar 1.				erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		AGTCTTTTGGGCCTTTGGAAA	0.483													5	80	---	---	---	---	PASS	T	39431976	T	T	39431976	3	4	64	1	0	0	0	0	1	0	0	0	14502	1203	42	3	264	3	SLC25A38	3	39431976	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	24884705	39431976	158590454	117	25060										
SETD2	29072	broad.mit.edu	37	chr3	47084181	47084181	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caagagattatttgtcacaaCcatttcagactacaaagaaa	5	8	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:47084181C>A	uc003cqs.2	-	17	7161	c.7108G>T	c.(7108-7110)GTT>TTT	p.V2370F	SETD2_uc003cqv.2_Missense_Mutation_p.V2437F|SETD2_uc003cqr.2_5'UTR	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	2370					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		TTTGTCACAACCATTTCAGAC	0.418			N|F|S|Mis		clear cell renal carcinoma								116	29	---	---	---	---	PASS	A	47084181	A	A	47084181	3	1	64	1	0	0	0	0	1	0	0	0	14131	507	18	3	606	3	SETD2	3	47084181	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	7652205	47084181	150938249	118	25061										
DOCK3	1795	broad.mit.edu	37	chr3	51246264	51246264	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	catcatccgaaagtccagtgCcaagtactctgcccccagcg	8	16	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:51246264C>T	uc011bds.1	+	13	1120	c.1097C>T	c.(1096-1098)GCC>GTC	p.A366V		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	366						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		AAGTCCAGTGCCAAGTACTCT	0.458													15	3	---	---	---	---	PASS	T	51246264	T	T	51246264	3	4	64	1	0	0	0	0	1	0	0	0	4688	739	26	3	1147	3	DOCK3	3	51246264	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	4162083	51246264	146776166	119	25062										
ACOX2	8309	broad.mit.edu	37	chr3	58514545	58514545	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggcaggaagctgaagtcttgGttcagaatggcagtgtagga	16	5	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:58514545G>A	uc003dkl.2	-	9	1306	c.1131C>T	c.(1129-1131)AAC>AAT	p.N377N		NM_003500	NP_003491	Q99424	ACOX2_HUMAN	acyl-Coenzyme A oxidase 2	377					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3alpha,7alpha,12alpha-trihydroxy-5beta-cholestanoyl-CoA 24-hydroxylase activity|acyl-CoA dehydrogenase activity|pristanoyl-CoA oxidase activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000194)|Kidney(10;0.00255)|KIRC - Kidney renal clear cell carcinoma(10;0.00268)|OV - Ovarian serous cystadenocarcinoma(275;0.156)		TGAAGTCTTGGTTCAGAATGG	0.567													50	13	---	---	---	---	PASS	A	58514545	A	A	58514545	2	1	64	1	0	0	0	0	0	0	0	1	159	1252	44	3		3	ACOX2	3	58514545	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	7268281	58514545	139507885	120	25063										
FEZF2	55079	broad.mit.edu	37	chr3	62357936	62357936	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcttggggtgagcagccaggGcggcgggggcctgcgcattg	21	10	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:62357936G>A	uc003dlh.2	-	1	815	c.608C>T	c.(607-609)GCC>GTC	p.A203V	FEZF2_uc003dli.2_Missense_Mutation_p.A203V	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	203					transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		AGCAGCCAGGGCGGCGGGGGC	0.657													6	2	---	---	---	---	PASS	A	62357936	A	A	62357936	3	1	64	1	0	0	0	0	1	0	0	0	5826	1203	42	3	787	3	FEZF2	3	62357936	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3843391	62357936	135664494	121	25064										
CNTN3	5067	broad.mit.edu	37	chr3	74414822	74414822	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcctccacggctatttccacAtcctttatgagttgaaccca	5	14	0	2	rs143146733		TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:74414822A>G	uc003dpm.1	-	8	1058	c.978T>C	c.(976-978)GAT>GAC	p.D326D		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	326	Ig-like C2-type 4.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		CTATTTCCACATCCTTTATGA	0.423													7	315	---	---	---	---	PASS	G	74414822	G	G	74414822	2	3	64	1	0	0	0	0	0	0	0	1	3642	214	8	5		5	CNTN3	3	74414822	Silent	SNP	A	TCGA-34-2600-01A-01D-1522-08	12056886	74414822	123607608	122	25065										
MINA	84864	broad.mit.edu	37	chr3	97677949	97677949	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctttcctcggcctccacgctGtactctcgtgccaggggcac	10	17	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:97677949G>C	uc003drz.1	-	4	1133	c.627C>G	c.(625-627)TAC>TAG	p.Y209*	MINA_uc003dsa.1_Nonsense_Mutation_p.Y209*|MINA_uc003dsb.1_Nonsense_Mutation_p.Y209*|MINA_uc003dsc.1_Nonsense_Mutation_p.Y209*|MINA_uc010hpa.1_RNA|MINA_uc010hpb.1_RNA	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	209	JmjC.				ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1						CCTCCACGCTGTACTCTCGTG	0.572													5	131	---	---	---	---	PASS	C	97677949	C	C	97677949	4	2	64	1	0	0	0	0	0	1	0	0	9586	1372	48	4	798	4	MINA	3	97677949	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	23263127	97677949	100344481	123	25066										
OR5H1	26341	broad.mit.edu	37	chr3	97852476	97852476	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaaaaaacatgttaaggtttCatactaatatcctttctcta	3	7	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:97852476C>G	uc011bgt.1	+	1	935	c.935C>G	c.(934-936)TCA>TGA	p.S312*		NM_001005338	NP_001005338	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						GTTAAGGTTTCATACTAATAT	0.299													8	211	---	---	---	---	PASS	G	97852476	G	G	97852476	4	3	64	1	0	0	0	0	0	1	0	0	11159	838	29	2	937	2	OR5H1	3	97852476	Nonsense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	174527	97852476	100169954	124	25067										
SENP7	57337	broad.mit.edu	37	chr3	101117745	101117745	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cttgtgagggtttagattttGataagattctaggctgccat	11	5	1	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:101117745G>C	uc003dut.2	-	6	748	c.637C>G	c.(637-639)CAA>GAA	p.Q213E	SENP7_uc003duu.2_Intron|SENP7_uc003duv.2_Missense_Mutation_p.Q180E|SENP7_uc003duw.2_Missense_Mutation_p.Q147E|SENP7_uc003dux.2_Intron	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	213					proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						TTTAGATTTTGATAAGATTCT	0.353													5	374	---	---	---	---	PASS	C	101117745	C	C	101117745	3	2	64	1	0	0	0	0	1	0	0	0	14051	1299	45	2	2591	2	SENP7	3	101117745	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3265269	101117745	96904685	125	25068										
ZPLD1	131368	broad.mit.edu	37	chr3	102187820	102187820	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaatttagctgtgacaaggaCcctcagaccaccgtcattga	8	11	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:102187820C>A	uc003dvs.1	+	15	1656	c.774C>A	c.(772-774)GAC>GAA	p.D258E	ZPLD1_uc003dvt.1_Missense_Mutation_p.D274E|ZPLD1_uc011bhg.1_Missense_Mutation_p.D258E	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	258	ZP.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						GTGACAAGGACCCTCAGACCA	0.438													111	96	---	---	---	---	PASS	A	102187820	A	A	102187820	3	1	64	1	0	0	0	0	1	0	0	0	18218	506	18	3	852	3	ZPLD1	3	102187820	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1070075	102187820	95834610	126	25069										
WDR52	55779	broad.mit.edu	37	chr3	113146061	113146061	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gctttgcaaatcaccatactGaaatgaactcaaacttcctt	4	11	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:113146061G>A	uc003eae.1	-	3	272	c.226C>T	c.(226-228)CAG>TAG	p.Q76*		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	76										central_nervous_system(1)	1						TCACCATACTGAAATGAACTC	0.363													13	333	---	---	---	---	PASS	A	113146061	A	A	113146061	4	1	64	1	0	0	0	0	0	1	0	0	17301	1299	45	2	5485	2	WDR52	3	113146061	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	10958241	113146061	84876369	127	25070										
IGSF11	152404	broad.mit.edu	37	chr3	118623503	118623503	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgacatacaaaccttatttcAttaggaatttcttcttcttc	3	9	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:118623503A>C	uc003ebw.2	-	6	1093	c.846T>G	c.(844-846)AAT>AAG	p.N282K	IGSF11_uc011biv.1_Missense_Mutation_p.N254K|IGSF11_uc003ebx.2_Missense_Mutation_p.N258K|IGSF11_uc003eby.2_Missense_Mutation_p.N281K|IGSF11_uc003ebz.2_Missense_Mutation_p.N257K|IGSF11_uc010hqs.2_Missense_Mutation_p.N281K	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	282	Cytoplasmic (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						ACCTTATTTCATTAGGAATTT	0.308													116	402	---	---	---	---	PASS	C	118623503	C	C	118623503	3	2	64	1	0	0	0	0	1	0	0	0	7598	214	8	5	457	5	IGSF11	3	118623503	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	5477442	118623503	79398927	128	25071										
IQCB1	9657	broad.mit.edu	37	chr3	121508986	121508986	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tctcatggctctctgtctttGaagttgcaattgtaatttga	8	7	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:121508986G>A	uc010hre.1	-	11	1278	c.1063C>T	c.(1063-1065)CAA>TAA	p.Q355*	IQCB1_uc003eek.2_Nonsense_Mutation_p.Q222*|IQCB1_uc010hrf.1_RNA	NM_001023570	NP_001018864	Q15051	IQCB1_HUMAN	IQ motif containing B1 isoform a	355	Potential.				cilium assembly|maintenance of organ identity|photoreceptor cell maintenance	centrosome|photoreceptor connecting cilium	calmodulin binding				0				GBM - Glioblastoma multiforme(114;0.0983)		CTCTGTCTTTGAAGTTGCAAT	0.398													17	900	---	---	---	---	PASS	A	121508986	A	A	121508986	4	1	64	1	0	0	0	0	0	1	0	0	7803	1299	45	2	753	2	IQCB1	3	121508986	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2885483	121508986	76513444	129	25072										
KALRN	8997	broad.mit.edu	37	chr3	124149620	124149620	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agcagttccaactggccatcGaggtaacacccaaatctggc	9	13	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:124149620G>A	uc003ehg.2	+	16	2948	c.2821G>A	c.(2821-2823)GAG>AAG	p.E941K	KALRN_uc010hrv.1_Missense_Mutation_p.E941K|KALRN_uc003ehf.1_Missense_Mutation_p.E941K|KALRN_uc011bjy.1_Missense_Mutation_p.E941K|KALRN_uc003ehh.1_Missense_Mutation_p.E287K	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	941	Spectrin 4.				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						ACTGGCCATCGAGGTAACACC	0.572													5	116	---	---	---	---	PASS	A	124149620	A	A	124149620	3	1	64	1	0	0	0	0	1	0	0	0	7975	1059	37	2	2883	2	KALRN	3	124149620	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2640634	124149620	73872810	130	25073										
KALRN	8997	broad.mit.edu	37	chr3	124390654	124390654	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cccaaagggctccagctataAcccacctctgcctcccctga	6	19	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:124390654A>G	uc003ehg.2	+	48	6975	c.6848A>G	c.(6847-6849)AAC>AGC	p.N2283S	KALRN_uc003ehi.2_Missense_Mutation_p.N624S|KALRN_uc003ehk.2_Missense_Mutation_p.N586S|KALRN_uc011bjz.1_Missense_Mutation_p.N375S	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2282					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						TCCAGCTATAACCCACCTCTG	0.582													6	521	---	---	---	---	PASS	G	124390654	G	G	124390654	3	3	64	1	0	0	0	0	1	0	0	0	7975	43	2	5	7194	5	KALRN	3	124390654	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	241034	124390654	73631776	131	25074										
PLXNA1	5361	broad.mit.edu	37	chr3	126708574	126708574	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tccagtcctgctaccgtggtGagggcaagctctccctgccg	12	15	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:126708574G>A	uc003ejg.2	+	1	1073	c.1069G>A	c.(1069-1071)GAG>AAG	p.E357K		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	380	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CTACCGTGGTGAGGGCAAGCT	0.632													19	221	---	---	---	---	PASS	A	126708574	A	A	126708574	3	1	64	1	0	0	0	0	1	0	0	0	12119	1291	45	2	1140	2	PLXNA1	3	126708574	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2317920	126708574	71313856	132	25075										
PLXNA1	5361	broad.mit.edu	37	chr3	126724013	126724013	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gacttcacggaatctgagagCgtcctggaggatggccggat	15	9	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:126724013C>T	uc003ejg.2	+	6	1759	c.1755C>T	c.(1753-1755)AGC>AGT	p.S585S		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	608	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		AATCTGAGAGCGTCCTGGAGG	0.672													13	78	---	---	---	---	PASS	T	126724013	T	T	126724013	2	4	64	1	0	0	0	0	0	0	0	1	12119	767	27	1		1	PLXNA1	3	126724013	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	15439	126724013	71298417	133	25076										
RAB43	339122	broad.mit.edu	37	chr3	128853006	128853006	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgccagccgagcctctctctCtgctttccacttttccacta	5	17	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:128853006C>T	uc003elo.1	-	9	785	c.574G>A	c.(574-576)GAG>AAG	p.E192K	ISY1_uc010hsz.1_Intron|ISY1_uc003elp.1_Missense_Mutation_p.E192K|ISY1_uc010hta.1_Missense_Mutation_p.E214K	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						GCCTCTCTCTCTGCTTTCCAC	0.398													9	348	---	---	---	---	PASS	T	128853006	T	T	128853006	3	4	64	1	0	0	0	0	1	0	0	0	12945	922	32	2		2	RAB43	3	128853006	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2128993	128853006	69169424	134	25077										
COL6A6	131873	broad.mit.edu	37	chr3	130368158	130368158	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtcaacttctcagagaaattGaaactattccttatgagaga	7	7	2	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:130368158G>A	uc010htl.2	+	32	5516	c.5485G>A	c.(5485-5487)GAA>AAA	p.E1829K	COL6A6_uc003eni.3_Intron	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1829	VWFA 8.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CAGAGAAATTGAAACTATTCC	0.527													6	35	---	---	---	---	PASS	A	130368158	A	A	130368158	3	1	64	1	0	0	0	0	1	0	0	0	3703	1291	45	2	5611	2	COL6A6	3	130368158	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1515152	130368158	67654272	135	25078										
ATP2C1	27032	broad.mit.edu	37	chr3	130686258	130686258	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gggccttaattgctcttgcaAtgaaggtacgtacctaaatt	9	8	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:130686258A>G	uc003enl.2	+	16	1525	c.1303A>G	c.(1303-1305)ATG>GTG	p.M435V	ATP2C1_uc011blg.1_Missense_Mutation_p.M469V|ATP2C1_uc011blh.1_Missense_Mutation_p.M430V|ATP2C1_uc011bli.1_Missense_Mutation_p.M469V|ATP2C1_uc003enk.2_Missense_Mutation_p.M419V|ATP2C1_uc003enm.2_Missense_Mutation_p.M435V|ATP2C1_uc003enn.2_Missense_Mutation_p.M419V|ATP2C1_uc003eno.2_Missense_Mutation_p.M435V|ATP2C1_uc003enp.2_Missense_Mutation_p.M435V|ATP2C1_uc003enq.2_Missense_Mutation_p.M435V|ATP2C1_uc003enr.2_Missense_Mutation_p.M435V|ATP2C1_uc003ens.2_Missense_Mutation_p.M435V|ATP2C1_uc003ent.2_Missense_Mutation_p.M435V|ATP2C1_uc003enu.2_Missense_Mutation_p.M113V	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	435	Cytoplasmic (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	TGCTCTTGCAATGAAGGTACG	0.398									Hailey-Hailey_disease				5	284	---	---	---	---	PASS	G	130686258	G	G	130686258	3	3	64	1	0	0	0	0	1	0	0	0	1143	101	4	5	1361	5	ATP2C1	3	130686258	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	318100	130686258	67336172	136	25079										
DNAJC13	23317	broad.mit.edu	37	chr3	132193846	132193846	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gagaagaactgaaagatactCttgaatctgaaatgagagca	10	5	2	7			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:132193846C>G	uc003eor.2	+	22	2427	c.2362C>G	c.(2362-2364)CTT>GTT	p.L788V		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	788							heat shock protein binding			ovary(1)|breast(1)	2						GAAAGATACTCTTGAATCTGA	0.368													12	574	---	---	---	---	PASS	G	132193846	G	G	132193846	3	3	64	1	0	0	0	0	1	0	0	0	4632	913	32	2	2444	2	DNAJC13	3	132193846	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1507588	132193846	65828584	137	25080										
COPB2	9276	broad.mit.edu	37	chr3	139102235	139102235	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atccacactcttaactcgatCagatctagcagttagctttc	5	12	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:139102235C>G	uc003etf.3	-	2	176	c.46G>C	c.(46-48)GAT>CAT	p.D16H	COPB2_uc011bmv.1_5'UTR|COPB2_uc010hui.2_5'UTR|COPB2_uc011bmw.1_Missense_Mutation_p.D16H|COPB2_uc003etg.2_Missense_Mutation_p.D16H	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	16	WD 1.				COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						TTAACTCGATCAGATCTAGCA	0.368													8	246	---	---	---	---	PASS	G	139102235	G	G	139102235	3	3	64	1	0	0	0	0	1	0	0	0	3729	826	29	2	2758	2	COPB2	3	139102235	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	6908389	139102235	58920195	138	25081										
CLSTN2	64084	broad.mit.edu	37	chr3	140122575	140122575	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tccgtgccaagagccccattGactgtgagttgcagaaggag	13	10	0	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:140122575G>A	uc003etn.2	+	3	527	c.337G>A	c.(337-339)GAC>AAC	p.D113N	CLSTN2_uc003etm.2_Missense_Mutation_p.D113N	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	113	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						GAGCCCCATTGACTGTGAGTT	0.557										HNSCC(16;0.037)			13	540	---	---	---	---	PASS	A	140122575	A	A	140122575	3	1	64	1	0	0	0	0	1	0	0	0	3562	1290	45	2	347	2	CLSTN2	3	140122575	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1020340	140122575	57899855	139	25082										
TRPC1	7220	broad.mit.edu	37	chr3	142499869	142499869	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctatcaaatataaccagaaaGaggtatgaggctttctgtaa	8	6	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:142499869G>T	uc003evc.2	+	6	1094	c.958G>T	c.(958-960)GAG>TAG	p.E320*	TRPC1_uc003evb.2_Nonsense_Mutation_p.E286*	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	320	Cytoplasmic (Potential).				axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						TAACCAGAAAGAGGTATGAGG	0.229													53	155	---	---	---	---	PASS	T	142499869	T	T	142499869	4	4	64	1	0	0	0	0	0	1	0	0	16575	943	33	2	874	2	TRPC1	3	142499869	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2377294	142499869	55522561	140	25083										
AADAC	13	broad.mit.edu	37	chr3	151545748	151545748	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tggctgatgacaacaaattaCgtggcttacccctgacctat	8	11	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:151545748C>T	uc003eze.2	+	5	1078	c.988C>T	c.(988-990)CGT>TGT	p.R330C		NM_001086	NP_001077	P22760	AAAD_HUMAN	arylacetamide deacetylase	330	Lumenal (Potential).				positive regulation of triglyceride catabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	carboxylesterase activity|deacetylase activity|serine hydrolase activity|triglyceride lipase activity			skin(2)	2		Myeloproliferative disorder(1037;0.0255)|all_neural(597;0.112)	LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			CAACAAATTACGTGGCTTACC	0.448													11	375	---	---	---	---	PASS	T	151545748	T	T	151545748	3	4	64	1	0	0	0	0	1	0	0	0	10	536	19	1	1006	1	AADAC	3	151545748	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	9045879	151545748	46476682	141	25084										
SGEF	26084	broad.mit.edu	37	chr3	153905615	153905615	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtctaccaacaacgaacactAcaaaaattgttgtaagcaat	5	9	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:153905615A>G	uc011bog.1	+	7	1840	c.1629A>G	c.(1627-1629)CTA>CTG	p.L543L	SGEF_uc011boh.1_Silent_p.L543L	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	543	DH.				regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			AACGAACACTACAAAAATTGT	0.323													48	42	---	---	---	---	PASS	G	153905615	G	G	153905615	2	3	64	1	0	0	0	0	0	0	0	1	14205	378	14	5		5	SGEF	3	153905615	Silent	SNP	A	TCGA-34-2600-01A-01D-1522-08	2359867	153905615	44116815	142	25085										
GPR149	344758	broad.mit.edu	37	chr3	154055876	154055876	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acgtggatgaagaatcttctGagtttggttcatggccaaca	11	7	3	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:154055876G>C	uc003faa.2	-	4	1908	c.1808C>G	c.(1807-1809)TCA>TGA	p.S603*		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	603	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			AGAATCTTCTGAGTTTGGTTC	0.413													8	683	---	---	---	---	PASS	C	154055876	C	C	154055876	4	2	64	1	0	0	0	0	0	1	0	0	6654	1294	45	2	391	2	GPR149	3	154055876	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	150261	154055876	43966554	143	25086										
PLCH1	23007	broad.mit.edu	37	chr3	155203419	155203419	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tctccaatggatcgcttccgTacataatgggaattgttttc	8	9	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:155203419T>G	uc011bok.1	-	22	3001	c.2724A>C	c.(2722-2724)GTA>GTC	p.V908V	PLCH1_uc011boj.1_Silent_p.V908V|PLCH1_uc011bol.1_Silent_p.V870V	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	908					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			ATCGCTTCCGTACATAATGGG	0.463													56	201	---	---	---	---	PASS	G	155203419	G	G	155203419	2	3	64	1	0	0	0	0	0	0	0	1	12037	1625	57	5		5	PLCH1	3	155203419	Silent	SNP	T	TCGA-34-2600-01A-01D-1522-08	1147543	155203419	42819011	144	25087										
PLCH1	23007	broad.mit.edu	37	chr3	155212304	155212304	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgataacacatttcctgtggTtcctggcagtttttaatcga	8	8	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:155212304T>A	uc011bok.1	-	15	2138	c.1861A>T	c.(1861-1863)ACC>TCC	p.T621S	PLCH1_uc011boj.1_Missense_Mutation_p.T621S|PLCH1_uc011bol.1_Missense_Mutation_p.T603S	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	621	PI-PLC Y-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TTTCCTGTGGTTCCTGGCAGT	0.368													8	334	---	---	---	---	PASS	A	155212304	A	A	155212304	3	1	64	1	0	0	0	0	1	0	0	0	12037	1725	60	5	3271	5	PLCH1	3	155212304	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	8885	155212304	42810126	145	25088										
SI	6476	broad.mit.edu	37	chr3	164712082	164712082	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gataacagtgccaccattagCatgaatttcatgcatttgtg	8	8	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:164712082C>A	uc003fei.2	-	41	4866	c.4804G>T	c.(4804-4806)GCT>TCT	p.A1602S		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1602	Sucrase.|Lumenal.				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)	CCACCATTAGCATGAATTTCA	0.348										HNSCC(35;0.089)			73	277	---	---	---	---	PASS	A	164712082	A	A	164712082	3	1	64	1	0	0	0	0	1	0	0	0	14297	710	25	3	711	3	SI	3	164712082	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	9499778	164712082	33310348	146	25089										
SLITRK3	22865	broad.mit.edu	37	chr3	164907470	164907470	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acagtcaagccaaggtcattGatgtgcaaattacaggtaca	9	8	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:164907470G>C	uc003fej.3	-	2	1593	c.1149C>G	c.(1147-1149)ATC>ATG	p.I383M	SLITRK3_uc003fek.2_Missense_Mutation_p.I383M	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	383	LRRNT.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						CAAGGTCATTGATGTGCAAAT	0.448										HNSCC(40;0.11)			7	620	---	---	---	---	PASS	C	164907470	C	C	164907470	3	2	64	1	0	0	0	0	1	0	0	0	14744	1280	45	2	1788	2	SLITRK3	3	164907470	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	195388	164907470	33114960	147	25090										
GOLIM4	27333	broad.mit.edu	37	chr3	167750308	167750308	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agaagcgggtgacttcatacCtcagcacgcgcgtgcccttc	11	14	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:167750308C>T	uc003ffe.2	-	9	1520	c.1176G>A	c.(1174-1176)GAG>GAA	p.E392E	GOLIM4_uc011bpe.1_Silent_p.E392E|GOLIM4_uc011bpf.1_Silent_p.E364E|GOLIM4_uc011bpg.1_Silent_p.E364E	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	392	Glu-rich.|Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						GACTTCATACCTCAGCACGCG	0.473													41	823	---	---	---	---	PASS	T	167750308	T	T	167750308	2	4	64	1	0	0	0	0	0	0	0	1	6566	695	24	3		3	GOLIM4	3	167750308	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	2842838	167750308	30272122	148	25091										
TNIK	23043	broad.mit.edu	37	chr3	170843937	170843937	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttttacagctaccagatgtgGgatctaagcatcaaaacaac	7	9	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:170843937G>A	uc003fhh.2	-	17	2122	c.1777C>T	c.(1777-1779)CCA>TCA	p.P593S	TNIK_uc003fhi.2_Missense_Mutation_p.P538S|TNIK_uc003fhj.2_Missense_Mutation_p.P564S|TNIK_uc003fhk.2_Missense_Mutation_p.P593S|TNIK_uc003fhl.2_Missense_Mutation_p.P509S|TNIK_uc003fhm.2_Missense_Mutation_p.P538S|TNIK_uc003fhn.2_Missense_Mutation_p.P564S|TNIK_uc003fho.2_Missense_Mutation_p.P509S	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	593	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			ACCAGATGTGGGATCTAAGCA	0.468													53	200	---	---	---	---	PASS	A	170843937	A	A	170843937	3	1	64	1	0	0	0	0	1	0	0	0	16310	1232	43	3	2373	3	TNIK	3	170843937	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3093629	170843937	27178493	149	25092										
NAALADL2	254827	broad.mit.edu	37	chr3	175184923	175184923	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccgaactattgttttctgttCttggggaggaacagcttttg	11	7	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:175184923C>T	uc003fit.2	+	8	1571	c.1484C>T	c.(1483-1485)TCT>TTT	p.S495F	NAALADL2_uc003fiu.1_Missense_Mutation_p.S488F|NAALADL2_uc010hwy.1_Missense_Mutation_p.S269F|NAALADL2_uc010hwz.1_Missense_Mutation_p.S89F	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	495	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		GTTTTCTGTTCTTGGGGAGGA	0.403													34	271	---	---	---	---	PASS	T	175184923	T	T	175184923	3	4	64	1	0	0	0	0	1	0	0	0	10130	913	32	2	1514	2	NAALADL2	3	175184923	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	4340986	175184923	22837507	150	25093										
PEX5L	51555	broad.mit.edu	37	chr3	179527318	179527318	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggagatcccttcttgcttttCacaaggtatttgtactttgg	9	8	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:179527318C>T	uc003fki.1	-	12	1423	c.1293G>A	c.(1291-1293)GTG>GTA	p.V431V	PEX5L_uc011bqd.1_Silent_p.V388V|PEX5L_uc011bqe.1_Silent_p.V239V|PEX5L_uc011bqf.1_Silent_p.V323V|PEX5L_uc003fkj.1_Silent_p.V396V|PEX5L_uc010hxd.1_Silent_p.V429V|PEX5L_uc011bqg.1_Silent_p.V407V|PEX5L_uc011bqh.1_Silent_p.V372V	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	431					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			TCTTGCTTTTCACAAGGTATT	0.468													21	530	---	---	---	---	PASS	T	179527318	T	T	179527318	2	4	64	1	0	0	0	0	0	0	0	1	11749	813	29	2		2	PEX5L	3	179527318	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	4342395	179527318	18495112	151	25094										
EPHB3	2049	broad.mit.edu	37	chr3	184294688	184294688	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aatgaaacctcactgatcctCgagtggagtgagccccggga	12	11	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:184294688C>T	uc003foz.2	+	5	1508	c.1071C>T	c.(1069-1071)CTC>CTT	p.L357L		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	357	Fibronectin type-III 1.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			CACTGATCCTCGAGTGGAGTG	0.597													12	504	---	---	---	---	PASS	T	184294688	T	T	184294688	2	4	64	1	0	0	0	0	0	0	0	1	5176	871	31	2		2	EPHB3	3	184294688	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	4767370	184294688	13727742	152	25095										
VPS8	23355	broad.mit.edu	37	chr3	184603931	184603931	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcatagttgattactgccttCtgctgcagcgaaagtgagta	10	8	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:184603931C>A	uc003fpb.1	+	21	1933	c.1762C>A	c.(1762-1764)CTG>ATG	p.L588M	VPS8_uc010hyd.1_Intron|VPS8_uc010hye.1_Missense_Mutation_p.L17M	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	590							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TTACTGCCTTCTGCTGCAGCG	0.433													9	68	---	---	---	---	PASS	A	184603931	A	A	184603931	3	1	64	1	0	0	0	0	1	0	0	0	17215	912	32	2	1846	2	VPS8	3	184603931	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	309243	184603931	13418499	153	25096										
KNG1	3827	broad.mit.edu	37	chr3	186435504	186435504	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caaccagtttgtattgtaccGcataactgaagccactaaga	7	10	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:186435504G>T	uc011bsa.1	+	1	385	c.173G>T	c.(172-174)CGC>CTC	p.R58L	KNG1_uc003fqr.2_Missense_Mutation_p.R58L	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	58	Cystatin 1.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	GTATTGTACCGCATAACTGAA	0.403													47	201	---	---	---	---	PASS	T	186435504	T	T	186435504	3	4	64	1	0	0	0	0	1	0	0	0	8427	1087	38	1	175	1	KNG1	3	186435504	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1831573	186435504	11586926	154	25097										
FGF12	2257	broad.mit.edu	37	chr3	192078314	192078314	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aataaccttgtcacaatcccTttgagctggggttctgcaaa	8	10	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:192078314T>C	uc003fsx.2	-	2	1039	c.213A>G	c.(211-213)AAA>AAG	p.K71K	FGF12_uc003fsy.2_Silent_p.K9K	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	71					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		TCACAATCCCTTTGAGCTGGG	0.393													58	257	---	---	---	---	PASS	C	192078314	C	C	192078314	2	2	64	1	0	0	0	0	0	0	0	1	5841	1606	56	5		5	FGF12	3	192078314	Silent	SNP	T	TCGA-34-2600-01A-01D-1522-08	5642810	192078314	5944116	155	25098										
GP5	2814	broad.mit.edu	37	chr3	194118872	194118872	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcgtgaggttggtgggcaggCctagcgcggagatgcgcgcc	20	10	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:194118872C>A	uc003ftv.1	-	2	171	c.140G>T	c.(139-141)GGC>GTC	p.G47V		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	47	LRRNT.|Extracellular (Potential).				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		GGTGGGCAGGCCTAGCGCGGA	0.697													155	50	---	---	---	---	PASS	A	194118872	A	A	194118872	3	1	64	1	0	0	0	0	1	0	0	0	6583	739	26	3	1546	3	GP5	3	194118872	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2040558	194118872	3903558	156	25099										
MUC4	4585	broad.mit.edu	37	chr3	195474071	195474071	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggcaaggcctcagctgagttCaggaaataggagaacctggc	14	9	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:195474071C>A	uc011bto.1	-	26	16291	c.15831G>T	c.(15829-15831)CTG>CTT	p.L5277L	MUC4_uc010hzq.2_Silent_p.L262L|MUC4_uc003fuz.2_Silent_p.L1003L|MUC4_uc003fva.2_Silent_p.L885L|MUC4_uc003fvb.2_Silent_p.L921L|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Silent_p.L921L|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Silent_p.L885L|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Silent_p.L969L|MUC4_uc011bti.1_Silent_p.L969L|MUC4_uc011btj.1_Silent_p.L1146L|MUC4_uc011btk.1_Silent_p.L885L|MUC4_uc011btl.1_Silent_p.L914L|MUC4_uc011btm.1_Silent_p.L1094L|MUC4_uc011btn.1_Silent_p.L885L|MUC4_uc003fvo.2_Silent_p.L1169L|MUC4_uc003fvp.2_Silent_p.L1118L	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	2162					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		CAGCTGAGTTCAGGAAATAGG	0.602													26	334	---	---	---	---	PASS	A	195474071	A	A	195474071	2	1	64	1	0	0	0	0	0	0	0	1	9978	813	29	2		2	MUC4	3	195474071	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	1355199	195474071	2548359	157	25100										
PIGZ	80235	broad.mit.edu	37	chr3	196674967	196674967	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gccacaaacaccgctgctgtGagggctgccccagggagcag	14	14	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr3:196674967G>A	uc003fxh.2	-	3	948	c.801C>T	c.(799-801)CTC>CTT	p.L267L		NM_025163	NP_079439	Q86VD9	PIGZ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	267	Helical; (Potential).				GPI anchor biosynthetic process	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			ovary(3)	3	all_cancers(143;1.05e-08)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.29e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00603)		CCGCTGCTGTGAGGGCTGCCC	0.607													9	184	---	---	---	---	PASS	A	196674967	A	A	196674967	2	1	64	1	0	0	0	0	0	0	0	1	11905	1277	45	2		2	PIGZ	3	196674967	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	1200896	196674967	1347463	158	25101										
ZNF595	152687	broad.mit.edu	37	chr4	59405	59405	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccctgcccagcagaatttgtAtagagatgtgatgttggaga	12	7	0	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:59405A>G	uc003fzv.1	+	2	242	c.86A>G	c.(85-87)TAT>TGT	p.Y29C	ZNF595_uc003fzu.1_RNA|ZNF718_uc003fzt.3_Missense_Mutation_p.Y29C|ZNF595_uc010iay.1_RNA|ZNF595_uc011bus.1_5'UTR|ZNF595_uc011but.1_Intron	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	29					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		CAGAATTTGTATAGAGATGTG	0.413													61	698	---	---	---	---	PASS	G	59405	G	G	59405	3	3	64	1	0	0	0	0	1	0	0	0	18022	449	16	5	92	5	ZNF595	4	59405	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08		59405	191094871	159	25102										
FGFR3	2261	broad.mit.edu	37	chr4	1803568	1803568	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atctgcccccacagagcgctCcccgcaccggcccatcctgc	8	22	1	1	rs121913483		TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:1803568C>G	uc003gdr.3	+	7	1002	c.746C>G	c.(745-747)TCC>TGC	p.S249C	FGFR3_uc003gdu.2_Missense_Mutation_p.S249C|FGFR3_uc003gds.3_Missense_Mutation_p.S249C|FGFR3_uc003gdq.3_Missense_Mutation_p.S249C|FGFR3_uc010icb.1_Missense_Mutation_p.S91C|FGFR3_uc003gdt.1_Missense_Mutation_p.S91C	NM_000142	NP_000133	P22607	FGFR3_HUMAN	fibroblast growth factor receptor 3 isoform 1	249	Extracellular (Potential).		S -> C (in KERSEB, bladder cancer, cervical cancer and TD1).		bone maturation|cell growth|insulin receptor signaling pathway|JAK-STAT cascade|MAPKKK cascade|negative regulation of developmental growth|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|identical protein binding	p.S249C(1368)|p.R248_S249insC(2)|p.S249T(1)|p.R248_S249del(1)		urinary_tract(2177)|skin(314)|upper_aerodigestive_tract(57)|haematopoietic_and_lymphoid_tissue(24)|prostate(9)|cervix(6)|central_nervous_system(4)|large_intestine(3)|lung(3)|testis(2)|pancreas(1)	2600		Breast(71;0.212)|all_epithelial(65;0.241)	all cancers(2;0.000145)|OV - Ovarian serous cystadenocarcinoma(23;0.0019)|Epithelial(3;0.00221)|GBM - Glioblastoma multiforme(2;0.234)		Palifermin(DB00039)	ACAGAGCGCTCCCCGCACCGG	0.562		1	Mis|T	IGH@|ETV6	bladder|MM|T-cell lymphoma		Hypochondroplasia|Thanatophoric dysplasia		Muenke_syndrome|Saethre-Chotzen_syndrome				3	4	---	---	---	---	PASS	G	1803568	G	G	1803568	3	3	64	1	0	0	0	0	1	0	0	0	5867	855	30	2	768	2	FGFR3	4	1803568	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1744163	1803568	189350708	160	25103										
CCDC96	257236	broad.mit.edu	37	chr4	7043300	7043300	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgtctttttgcacgcgttctCcatgtccatgaagtgcagct	9	11	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:7043300C>G	uc003gjv.2	-	1	1429	c.1366G>C	c.(1366-1368)GAG>CAG	p.E456Q	TADA2B_uc003gjw.3_5'Flank|TADA2B_uc010idi.2_5'Flank	NM_153376	NP_699207	Q2M329	CCD96_HUMAN	coiled-coil domain containing 96	456											0						CACGCGTTCTCCATGTCCATG	0.522													329	75	---	---	---	---	PASS	G	7043300	G	G	7043300	3	3	64	1	0	0	0	0	1	0	0	0	2874	864	30	2	305	2	CCDC96	4	7043300	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	5239732	7043300	184110976	161	25104										
GPR125	166647	broad.mit.edu	37	chr4	22390389	22390389	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgaatcctgatgatttatttCgccattttcattggctgcca	7	9	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:22390389C>T	uc003gqm.1	-	19	3170	c.2905G>A	c.(2905-2907)GAA>AAA	p.E969K	GPR125_uc010ieo.1_Missense_Mutation_p.E825K|GPR125_uc003gql.1_Missense_Mutation_p.E96K	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	969	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				TGATTTATTTCGCCATTTTCA	0.438													105	19	---	---	---	---	PASS	T	22390389	T	T	22390389	3	4	64	1	0	0	0	0	1	0	0	0	6639	893	31	2	1064	2	GPR125	4	22390389	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	15347089	22390389	168763887	162	25105										
GABRA4	2557	broad.mit.edu	37	chr4	46930618	46930618	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgaatgggtttggactggaaGctaagtaagaccgaggtgtg	16	4	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:46930618G>T	uc003gxg.2	-	9	1428	c.1289C>A	c.(1288-1290)GCT>GAT	p.A430D		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	430	Cytoplasmic (Probable).				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			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TGGACTGGAAGCTAAGTAAGA	0.453													74	34	---	---	---	---	PASS	T	46930618	T	T	46930618	3	4	64	1	0	0	0	0	1	0	0	0	6163	971	34	3	379	3	GABRA4	4	46930618	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	24540229	46930618	144223658	163	25106										
COMMD8	54951	broad.mit.edu	37	chr4	47462166	47462166	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgcagagaagttacctcttCatcaggtaagtttttaccaa	8	8	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:47462166C>T	uc003gxi.2	-	2	225	c.217G>A	c.(217-219)GAA>AAA	p.E73K		NM_017845	NP_060315	Q9NX08	COMD8_HUMAN	COMM domain containing 8	73							protein binding				0						GTTACCTCTTCATCAGGTAAG	0.343													39	104	---	---	---	---	PASS	T	47462166	T	T	47462166	3	4	64	1	0	0	0	0	1	0	0	0	3722	835	29	2	350	2	COMMD8	4	47462166	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	531548	47462166	143692110	164	25107										
ATP10D	57205	broad.mit.edu	37	chr4	47538513	47538513	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttttcaatgttcccgagcctGatggacatatcatatcacca	6	11	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:47538513G>A	uc003gxk.1	+	8	1239	c.1075G>A	c.(1075-1077)GAT>AAT	p.D359N	ATP10D_uc003gxl.1_5'UTR|ATP10D_uc003gxj.3_Missense_Mutation_p.D359N	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	359	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						TCCCGAGCCTGATGGACATAT	0.343													19	337	---	---	---	---	PASS	A	47538513	A	A	47538513	3	1	64	1	0	0	0	0	1	0	0	0	1118	1290	45	2	1101	2	ATP10D	4	47538513	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	76347	47538513	143615763	165	25108										
PDGFRA	5156	broad.mit.edu	37	chr4	55152092	55152092	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgactttggcctggccagaGacatcatgcatgattcgaac	11	10	1	3	rs121913262		TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:55152092G>C	uc003han.3	+	18	2855	c.2524G>C	c.(2524-2526)GAC>CAC	p.D842H	PDGFRA_uc003haa.2_Missense_Mutation_p.D602H	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	842	Protein kinase.|Cytoplasmic (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity	p.D842V(309)|p.D842_H845del(38)|p.D842Y(6)|p.D842_M844del(5)|p.D842_D846>H(4)|p.D842_D846>E(3)|p.D842_D846del(2)|p.D842I(2)|p.D842del(2)|p.D842_D846>A(2)|p.D842F(1)|p.D842_S847>EA(1)|p.R841_D842>KN(1)|p.D842_S847>RV(1)|p.D842*(1)|p.R841_D842del(1)|p.D842_D846>S(1)|p.D842_H845>A(1)|p.D842_D846>G(1)|p.D842_H845>Y(1)|p.D842_D846>N(1)|p.D842_H845>V(1)		soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	CCTGGCCAGAGACATCATGCA	0.493			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			6	193	---	---	---	---	PASS	C	55152092	C	C	55152092	3	2	64	1	0	0	0	0	1	0	0	0	11661	942	33	2	2590	2	PDGFRA	4	55152092	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	7613579	55152092	136002184	166	25109										
POLR2B	5431	broad.mit.edu	37	chr4	57876647	57876647	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ataatacgttgtggggaatgGtgtgtcctgccgagacccca	13	9	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:57876647G>T	uc003hcl.1	+	11	1568	c.1525G>T	c.(1525-1527)GTG>TTG	p.V509L	POLR2B_uc011cae.1_Missense_Mutation_p.V502L|POLR2B_uc011caf.1_Missense_Mutation_p.V434L|POLR2B_uc003hcm.1_Missense_Mutation_p.V2L	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	509					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					GTGGGGAATGGTGTGTCCTGC	0.413													100	22	---	---	---	---	PASS	T	57876647	T	T	57876647	3	4	64	1	0	0	0	0	1	0	0	0	12215	1261	44	3	1567	3	POLR2B	4	57876647	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2724555	57876647	133277629	167	25110										
TMPRSS11F	389208	broad.mit.edu	37	chr4	68930597	68930597	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaataattttcctcacatttCgtttcactgcgggtggtgtt	9	8	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:68930597C>T	uc003hdt.1	-	8	870	c.821G>A	c.(820-822)CGA>CAA	p.R274Q	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron|SYT14L_uc010ihn.2_5'Flank	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	274	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						CCTCACATTTCGTTTCACTGC	0.343													34	45	---	---	---	---	PASS	T	68930597	T	T	68930597	3	4	64	1	0	0	0	0	1	0	0	0	16240	884	31	2	507	2	TMPRSS11F	4	68930597	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	11053950	68930597	122223679	168	25111										
HNRNPD	3184	broad.mit.edu	37	chr4	83278594	83278594	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	catggggagctctatggattCcacctggtattaaaaaacaa	9	8	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:83278594C>A	uc003hmm.1	-	5	943	c.625G>T	c.(625-627)GAA>TAA	p.E209*	HNRNPD_uc003hml.1_RNA|HNRNPD_uc003hmn.1_Nonsense_Mutation_p.E190*|HNRNPD_uc003hmo.1_Nonsense_Mutation_p.E209*|HNRNPD_uc003hmp.1_Nonsense_Mutation_p.E190*|HNRNPD_uc010ijr.1_Nonsense_Mutation_p.E190*|HNRNPD_uc011cci.1_Nonsense_Mutation_p.E55*	NM_031370	NP_112738	Q14103	HNRPD_HUMAN	heterogeneous nuclear ribonucleoprotein D	209	RRM 2.				nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent|RNA catabolic process|transcription, DNA-dependent	cytosol|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|telomeric DNA binding				0						TCTATGGATTCCACCTGGTAT	0.358													43	10	---	---	---	---	PASS	A	83278594	A	A	83278594	4	1	64	1	0	0	0	0	0	1	0	0	7264	864	30	2	458	2	HNRNPD	4	83278594	Nonsense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	14347997	83278594	107875682	169	25112										
CENPE	1062	broad.mit.edu	37	chr4	104116309	104116309	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aattaaaggtttcattttttGagtgccacagagtaaatctg	8	5	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:104116309G>C	uc003hxb.1	-	5	529	c.439C>G	c.(439-441)CAA>GAA	p.Q147E	CENPE_uc003hxc.1_Missense_Mutation_p.Q147E	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	147	Kinesin-motor.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TTCATTTTTTGAGTGCCACAG	0.308													5	94	---	---	---	---	PASS	C	104116309	C	C	104116309	3	2	64	1	0	0	0	0	1	0	0	0	3230	1299	45	2	7846	2	CENPE	4	104116309	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	20837715	104116309	87037967	170	25113										
TBCK	93627	broad.mit.edu	37	chr4	107173142	107173142	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aattccctgtgcaattacctCaggggccaagtacgagggat	11	10	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:107173142C>A	uc010ilv.2	-	6	843	c.478G>T	c.(478-480)GAG>TAG	p.E160*	TBCK_uc003hye.2_Nonsense_Mutation_p.E160*|TBCK_uc003hyc.2_Nonsense_Mutation_p.E97*|TBCK_uc003hyd.2_5'UTR|TBCK_uc003hyf.2_Nonsense_Mutation_p.E160*	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like	160	Protein kinase.					intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						GCAATTACCTCAGGGGCCAAG	0.378													33	67	---	---	---	---	PASS	A	107173142	A	A	107173142	4	1	64	1	0	0	0	0	0	1	0	0	15633	835	29	2	2287	2	TBCK	4	107173142	Nonsense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	3056833	107173142	83981134	171	25114										
ENPEP	2028	broad.mit.edu	37	chr4	111471004	111471004	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaaaaagaaaaactgctgtaTggattagcatcagtgaagaa	10	4	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:111471004T>C	uc003iab.3	+	17	2805	c.2463T>C	c.(2461-2463)TAT>TAC	p.Y821Y		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	821	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	AACTGCTGTATGGATTAGCAT	0.353													80	14	---	---	---	---	PASS	C	111471004	C	C	111471004	2	2	64	1	0	0	0	0	0	0	0	1	5128	1471	51	5		5	ENPEP	4	111471004	Silent	SNP	T	TCGA-34-2600-01A-01D-1522-08	4297862	111471004	79683272	172	25115										
ANXA5	308	broad.mit.edu	37	chr4	122589678	122589678	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcttatagtccccagatgtaTctccctgaaaccaaatgtat	5	11	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:122589678T>A	uc003idu.3	-	12	978	c.908A>T	c.(907-909)GAT>GTT	p.D303V	ANXA5_uc003idv.3_Missense_Mutation_p.D303V|ANXA5_uc003idw.3_RNA|ANXA5_uc010inm.2_Missense_Mutation_p.D259V|ANXA5_uc010inn.2_Missense_Mutation_p.D243V|ANXA5_uc010ino.2_Missense_Mutation_p.D203V	NM_001154	NP_001145	P08758	ANXA5_HUMAN	annexin 5	303	Annexin 4.				anti-apoptosis|blood coagulation|negative regulation of coagulation|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity			ovary(1)	1						CCCAGATGTATCTCCCTGAAA	0.428													65	16	---	---	---	---	PASS	A	122589678	A	A	122589678	3	1	64	1	0	0	0	0	1	0	0	0	721	1435	50	5	58	5	ANXA5	4	122589678	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	11118674	122589678	68564598	173	25116										
WDR17	116966	broad.mit.edu	37	chr4	177052713	177052713	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttctatttttagtttcagtcCaatctccaaccaaaaatcat	2	10	4	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:177052713C>A	uc003iuj.2	+	8	1150	c.994C>A	c.(994-996)CAA>AAA	p.Q332K	WDR17_uc003iuk.2_Missense_Mutation_p.Q308K|WDR17_uc003ium.3_Missense_Mutation_p.Q308K|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	332										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		AGTTTCAGTCCAATCTCCAAC	0.343													5	149	---	---	---	---	PASS	A	177052713	A	A	177052713	3	1	64	1	0	0	0	0	1	0	0	0	17274	595	21	3	1020	3	WDR17	4	177052713	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	54463035	177052713	14101563	174	25117										
TRIML1	339976	broad.mit.edu	37	chr4	189067993	189067993	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cagcggagataacgctggacCcagccacagctaatgcctat	10	13	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr4:189067993C>A	uc003izm.1	+	6	989	c.874C>A	c.(874-876)CCA>ACA	p.P292T	TRIML1_uc003izn.1_Missense_Mutation_p.P16T	NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	292	B30.2/SPRY.				multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		AACGCTGGACCCAGCCACAGC	0.478													133	46	---	---	---	---	PASS	A	189067993	A	A	189067993	3	1	64	1	0	0	0	0	1	0	0	0	16547	623	22	3	896	3	TRIML1	4	189067993	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	12015280	189067993	2086283	175	25118										
BRD9	65980	broad.mit.edu	37	chr5	889243	889243	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atatccaggagcaattgcatCcgtgacaggaaaagcaaaaa	9	8	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:889243C>A	uc003jbq.2	-	5	666	c.499G>T	c.(499-501)GAT>TAT	p.D167Y	BRD9_uc003jbl.2_Missense_Mutation_p.D51Y|BRD9_uc003jbm.2_RNA|BRD9_uc003jbn.2_RNA|BRD9_uc011cmb.1_Missense_Mutation_p.D114Y|BRD9_uc003jbo.2_Missense_Mutation_p.D51Y|BRD9_uc011cmc.1_RNA	NM_023924	NP_076413	Q9H8M2	BRD9_HUMAN	bromodomain containing 9 isoform 1	167	Bromo.						nucleic acid binding				0			Epithelial(17;0.00202)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00815)|Lung(60;0.185)			GCAATTGCATCCGTGACAGGA	0.348													28	58	---	---	---	---	PASS	A	889243	A	A	889243	3	1	64	1	0	0	0	0	1	0	0	0	1507	855	30	2	1342	2	BRD9	5	889243	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08		889243	180026017	176	25119										
DNAH5	1767	broad.mit.edu	37	chr5	13776760	13776760	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggaattcttttttcatgactGatgccaggtcgctattaatt	8	7	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:13776760G>C	uc003jfd.2	-	55	9203	c.9161C>G	c.(9160-9162)TCA>TGA	p.S3054*		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3054	AAA 4 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTTCATGACTGATGCCAGGTC	0.428									Kartagener_syndrome				76	178	---	---	---	---	PASS	C	13776760	C	C	13776760	4	2	64	1	0	0	0	0	0	1	0	0	4604	1294	45	2	4813	2	DNAH5	5	13776760	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	12887517	13776760	167138500	177	25120										
ZNF622	90441	broad.mit.edu	37	chr5	16463253	16463253	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctgcaaattccaaagcagcaTcgccatctgtgaagagctta	8	11	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:16463253T>A	uc003jfq.2	-	3	1133	c.1013A>T	c.(1012-1014)GAT>GTT	p.D338V		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	338						cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						CAAAGCAGCATCGCCATCTGT	0.378													104	351	---	---	---	---	PASS	A	16463253	A	A	16463253	3	1	64	1	0	0	0	0	1	0	0	0	18043	1435	50	5	436	5	ZNF622	5	16463253	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	2686493	16463253	164452007	178	25121										
CDH18	1016	broad.mit.edu	37	chr5	19612689	19612689	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tggcttctctgtccatgttaTgtaaggccgttctaataact	8	9	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:19612689T>A	uc003jgc.2	-	5	1042	c.665A>T	c.(664-666)CAT>CTT	p.H222L	CDH18_uc003jgd.2_Missense_Mutation_p.H222L|CDH18_uc011cnm.1_Missense_Mutation_p.H222L	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	222	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					GTCCATGTTATGTAAGGCCGT	0.363													33	102	---	---	---	---	PASS	A	19612689	A	A	19612689	3	1	64	1	0	0	0	0	1	0	0	0	3103	1464	51	5	1739	5	CDH18	5	19612689	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	3149436	19612689	161302571	179	25122										
CDH9	1007	broad.mit.edu	37	chr5	26915914	26915914	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gagatttttcttctctgtctAgtttctttgcagcatgaatg	8	7	4	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:26915914A>T	uc003jgs.1	-	3	516	c.347T>A	c.(346-348)CTA>CAA	p.L116Q	CDH9_uc010iug.2_Missense_Mutation_p.L116Q	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	116	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TTCTCTGTCTAGTTTCTTTGC	0.383													162	293	---	---	---	---	PASS	T	26915914	T	T	26915914	3	4	64	1	0	0	0	0	1	0	0	0	3117	420	15	5	2062	5	CDH9	5	26915914	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	7303225	26915914	153999346	180	25123										
C6	729	broad.mit.edu	37	chr5	41203217	41203217	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgctctgggttccagaattgCaagtttttgagcagctggtc	12	8	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:41203217C>T	uc003jmk.2	-	2	326	c.116G>A	c.(115-117)TGC>TAC	p.C39Y	C6_uc003jml.1_Missense_Mutation_p.C39Y	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	39	TSP type-1 1.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TCCAGAATTGCAAGTTTTTGA	0.493													169	296	---	---	---	---	PASS	T	41203217	T	T	41203217	3	4	64	1	0	0	0	0	1	0	0	0	2315	710	25	3	2756	3	C6	5	41203217	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	14287303	41203217	139712043	181	25124										
HCN1	348980	broad.mit.edu	37	chr5	45353289	45353289	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgttcatagtaatcatgtatCttctgacgcatatcagctgg	8	8	5	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:45353289C>T	uc003jok.2	-	5	1315	c.1290G>A	c.(1288-1290)AAG>AAA	p.K430K		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	430	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						AATCATGTATCTTCTGACGCA	0.323													39	268	---	---	---	---	PASS	T	45353289	T	T	45353289	2	4	64	1	0	0	0	0	0	0	0	1	6996	912	32	2		2	HCN1	5	45353289	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	4150072	45353289	135561971	182	25125										
MIER3	166968	broad.mit.edu	37	chr5	56233465	56233465	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agtcacagatggcgtcagatCatccgcagaagactgagttt	11	9	3	5			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:56233465C>T	uc003jrd.1	-	5	401	c.376G>A	c.(376-378)GAT>AAT	p.D126N	MIER3_uc003jqz.1_Missense_Mutation_p.D63N|MIER3_uc003jra.1_Missense_Mutation_p.D126N|MIER3_uc003jrb.1_5'UTR|MIER3_uc003jrc.1_Missense_Mutation_p.D131N	NM_152622	NP_689835	Q7Z3K6	MIER3_HUMAN	mesoderm induction early response 1, family	126					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Lung NSC(810;4.65e-05)|Prostate(74;0.0253)|Breast(144;0.0503)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;1.24e-37)		GGCGTCAGATCATCCGCAGAA	0.418													81	19	---	---	---	---	PASS	T	56233465	T	T	56233465	3	4	64	1	0	0	0	0	1	0	0	0	9582	826	29	2	1309	2	MIER3	5	56233465	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	10880176	56233465	124681795	183	25126										
BDP1	55814	broad.mit.edu	37	chr5	70837343	70837343	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gccatattccttctagcctaGataatgtaaatcacaaaatt	4	9	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:70837343G>C	uc003kbp.1	+	29	6348	c.6085G>C	c.(6085-6087)GAT>CAT	p.D2029H	BDP1_uc003kbo.2_Missense_Mutation_p.D2029H|BDP1_uc003kbq.1_RNA|BDP1_uc003kbr.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	2029					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		TTCTAGCCTAGATAATGTAAA	0.308													4	189	---	---	---	---	PASS	C	70837343	C	C	70837343	3	2	64	1	0	0	0	0	1	0	0	0	1395	942	33	2	6199	2	BDP1	5	70837343	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	14603878	70837343	110077917	184	25127										
FAM169A	26049	broad.mit.edu	37	chr5	74077738	74077738	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaactcccaagatgtgctttCtttcttggaagtagggacaa	10	8	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:74077738C>T	uc003kdm.2	-	13	1603	c.1560G>A	c.(1558-1560)AAG>AAA	p.K520K	FAM169A_uc010izm.2_Silent_p.K460K|FAM169A_uc003kdl.2_Silent_p.K338K	NM_015566	NP_056381	Q9Y6X4	F169A_HUMAN	hypothetical protein LOC26049	520											0						GATGTGCTTTCTTTCTTGGAA	0.423													150	31	---	---	---	---	PASS	T	74077738	T	T	74077738	2	4	64	1	0	0	0	0	0	0	0	1	5487	912	32	2		2	FAM169A	5	74077738	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	3240395	74077738	106837522	185	25128										
MCTP1	79772	broad.mit.edu	37	chr5	94253660	94253660	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcagaagcccaggacaggaaGagctggcctgccgcacgtct	14	13	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:94253660G>C	uc003kkx.2	-	8	1291	c.1291C>G	c.(1291-1293)CTT>GTT	p.L431V	MCTP1_uc003kkv.2_Missense_Mutation_p.L210V|MCTP1_uc003kkw.2_Intron|MCTP1_uc003kkz.2_Missense_Mutation_p.L92V|MCTP1_uc003kku.2_Intron	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L	431					calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		AGGACAGGAAGAGCTGGCCTG	0.433													29	65	---	---	---	---	PASS	C	94253660	C	C	94253660	3	2	64	1	0	0	0	0	1	0	0	0	9400	942	33	2	1772	2	MCTP1	5	94253660	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	20175922	94253660	86661600	186	25129										
C5orf30	90355	broad.mit.edu	37	chr5	102611747	102611747	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gctccagcacaccctgctccCcgatgcggaggaccgtgtca	11	17	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:102611747C>T	uc003kog.1	+	3	396	c.127C>T	c.(127-129)CCG>TCG	p.P43S	C5orf30_uc003koh.1_Missense_Mutation_p.P43S	NM_033211	NP_149988	Q96GV9	CE030_HUMAN	hypothetical protein LOC90355	43											0		all_cancers(142;2.22e-05)|all_epithelial(76;9.54e-08)|Prostate(80;0.0174)|Colorectal(57;0.0551)|Ovarian(225;0.11)|Lung NSC(167;0.136)|all_lung(232;0.18)		Epithelial(69;2.84e-14)|COAD - Colon adenocarcinoma(37;0.00762)		ACCCTGCTCCCCGATGCGGAG	0.592													69	11	---	---	---	---	PASS	T	102611747	T	T	102611747	3	4	64	1	0	0	0	0	1	0	0	0	2290	623	22	3	129	3	C5orf30	5	102611747	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	8358087	102611747	78303513	187	25130										
CAMK4	814	broad.mit.edu	37	chr5	110820052	110820052	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggaactagaggagggcctagCagaggagaagctgaagactg	17	6	0	5			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:110820052C>G	uc011cvj.1	+	12	1409	c.1310C>G	c.(1309-1311)GCA>GGA	p.A437G	CAMK4_uc003kpf.2_Missense_Mutation_p.A437G|CAMK4_uc010jbv.2_Missense_Mutation_p.A240G|CAMK4_uc003kpg.2_Missense_Mutation_p.A128G	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	437					activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		GAGGGCCTAGCAGAGGAGAAG	0.537													5	51	---	---	---	---	PASS	G	110820052	G	G	110820052	3	3	64	1	0	0	0	0	1	0	0	0	2605	710	25	4	1352	4	CAMK4	5	110820052	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	8208305	110820052	70095208	188	25131										
STARD4	134429	broad.mit.edu	37	chr5	110842061	110842061	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	attcttctgagggttttctcCaaacagttacatctttctag	6	9	5	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:110842061C>A	uc003kph.1	-	3	206	c.122G>T	c.(121-123)TGG>TTG	p.W41L	STARD4_uc010jbw.1_5'UTR|STARD4_uc010jbx.1_5'UTR|STARD4_uc003kpi.1_RNA|STARD4_uc003kpj.2_Missense_Mutation_p.W41L	NM_139164	NP_631903	Q96DR4	STAR4_HUMAN	StAR-related lipid transfer (START) domain	41	START.				lipid transport		lipid binding			ovary(1)	1		all_cancers(142;0.00259)|all_epithelial(76;8.32e-05)|Prostate(80;0.0115)|Colorectal(10;0.0959)|Ovarian(225;0.156)|all_lung(232;0.18)|Lung NSC(167;0.248)		OV - Ovarian serous cystadenocarcinoma(64;4.91e-09)|Epithelial(69;1.39e-08)|all cancers(49;2.34e-06)|COAD - Colon adenocarcinoma(37;0.049)|Colorectal(14;0.138)		GGGTTTTCTCCAAACAGTTAC	0.284													27	6	---	---	---	---	PASS	A	110842061	A	A	110842061	3	1	64	1	0	0	0	0	1	0	0	0	15258	595	21	3	511	3	STARD4	5	110842061	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	22009	110842061	70073199	189	25132										
HSD17B4	3295	broad.mit.edu	37	chr5	118862906	118862906	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaggaaacagaattcattttCaaaccaaggtatgaattttg	7	5	2	2	rs138507337		TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:118862906C>G	uc003ksj.2	+	20	1882	c.1759C>G	c.(1759-1761)CAA>GAA	p.Q587E	HSD17B4_uc011cwg.1_Missense_Mutation_p.Q563E|HSD17B4_uc011cwh.1_Missense_Mutation_p.Q569E|HSD17B4_uc011cwi.1_Missense_Mutation_p.Q612E|HSD17B4_uc003ksk.3_Missense_Mutation_p.Q440E|HSD17B4_uc011cwj.1_Missense_Mutation_p.Q440E|HSD17B4_uc010jcn.1_Missense_Mutation_p.Q325E|HSD17B4_uc010jco.1_Missense_Mutation_p.F55L	NM_000414	NP_000405	P51659	DHB4_HUMAN	hydroxysteroid (17-beta) dehydrogenase 4	587	MaoC-like.|Enoyl-CoA hydratase 2.				bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3-hydroxyacyl-CoA dehydrogenase activity|3alpha,7alpha,12alpha-trihydroxy-5beta-cholest-24-enoyl-CoA hydratase activity|estradiol 17-beta-dehydrogenase activity|isomerase activity|long-chain-enoyl-CoA hydratase activity|protein binding|sterol binding|sterol transporter activity			ovary(1)|pancreas(1)	2		all_cancers(142;0.0206)|Prostate(80;0.0322)		OV - Ovarian serous cystadenocarcinoma(64;0.000247)|Epithelial(69;0.000849)|all cancers(49;0.0122)	NADH(DB00157)	AATTCATTTTCAAACCAAGGT	0.348													4	67	---	---	---	---	PASS	G	118862906	G	G	118862906	3	3	64	1	0	0	0	0	1	0	0	0	7386	827	29	2	1837	2	HSD17B4	5	118862906	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	8020845	118862906	62052354	190	25133										
ACSL6	23305	broad.mit.edu	37	chr5	131290009	131290009	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcttagcttttagtgttggtGtcagcaagccattttgaact	9	7	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:131290009G>T	uc010jdo.1	-	21	2095	c.2012C>A	c.(2011-2013)ACA>AAA	p.T671K	ACSL6_uc003kvv.1_Intron|ACSL6_uc003kvx.1_Missense_Mutation_p.T696K|ACSL6_uc003kvy.1_Missense_Mutation_p.T696K|ACSL6_uc003kwb.2_Missense_Mutation_p.T661K|ACSL6_uc003kvz.1_Missense_Mutation_p.T596K|ACSL6_uc003kwa.1_Missense_Mutation_p.T682K|ACSL6_uc003kvw.1_Missense_Mutation_p.T317K|ACSL6_uc010jdn.1_Missense_Mutation_p.T686K	NM_015256	NP_056071	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6	671	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TAGTGTTGGTGTCAGCAAGCC	0.368													61	11	---	---	---	---	PASS	T	131290009	T	T	131290009	3	4	64	1	0	0	0	0	1	0	0	0	181	1377	48	3	85	3	ACSL6	5	131290009	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	12427103	131290009	49625251	191	25134										
SAR1B	51128	broad.mit.edu	37	chr5	133945269	133945269	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tatttaacttacatcaagttCttcttttgactctaacagcc	3	10	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:133945269C>T	uc003kzq.2	-	6	587	c.340G>A	c.(340-342)GAA>AAA	p.E114K	SAR1B_uc003kzr.2_Missense_Mutation_p.E114K	NM_001033503	NP_001028675	Q9Y6B6	SAR1B_HUMAN	SAR1a gene homolog 2	114					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi cisterna membrane	GTP binding|GTPase activity|metal ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ACATCAAGTTCTTCTTTTGAC	0.398													31	62	---	---	---	---	PASS	T	133945269	T	T	133945269	3	4	64	1	0	0	0	0	1	0	0	0	13840	922	32	2	268	2	SAR1B	5	133945269	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2655260	133945269	46969991	192	25135										
PCDHB4	56131	broad.mit.edu	37	chr5	140502023	140502023	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	actagaaaatagccagccggGtactctatttccgttgctaa	8	10	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:140502023G>T	uc003lip.1	+	1	443	c.443G>T	c.(442-444)GGT>GTT	p.G148V		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	148	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCCAGCCGGGTACTCTATTT	0.393													78	23	---	---	---	---	PASS	T	140502023	T	T	140502023	3	4	64	1	0	0	0	0	1	0	0	0	11544	1261	44	3	445	3	PCDHB4	5	140502023	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	6556754	140502023	40413237	193	25136										
PCDHB8	56128	broad.mit.edu	37	chr5	140558009	140558009	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tagacataaacgaccactctCcagtatttctggacaaacaa	5	11	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:140558009C>G	uc011dai.1	+	1	580	c.394C>G	c.(394-396)CCA>GCA	p.P132A	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	132	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGACCACTCTCCAGTATTTCT	0.453													51	152	---	---	---	---	PASS	G	140558009	G	G	140558009	3	3	64	1	0	0	0	0	1	0	0	0	11548	855	30	2	396	2	PCDHB8	5	140558009	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	55986	140558009	40357251	194	25137										
PCDHGA8	9708	broad.mit.edu	37	chr5	140774072	140774072	+	Frame_Shift_Del	DEL	C	-	-													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aacgcgcccgagatcctgtaCcccgccctccccacagacgg							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:140774072delC	uc003lkd.1	+	1	2590	c.1692delC	c.(1690-1692)TACfs	p.Y564fs	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Frame_Shift_Del_p.Y564fs	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	564	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGATCCTGTACCCCGCCCTCC	0.657													42	140	---	---	---	---		-	140774072	-	-	140774072	7	5	64	1	0	1	0	1	0	0	0	0	11560	518	18	0	1694	0	PCDHGA8	5	140774072	Frame_Shift_Del	DEL	C	TCGA-34-2600-01A-01D-1522-08	216063	140774072	40141188	195	25138										
PCDHGC5	56097	broad.mit.edu	37	chr5	140870417	140870417	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcagattgtggtgggggttcGagactccggctctcccccat	14	12	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:140870417G>C	uc003lla.1	+	1	1610	c.1610G>C	c.(1609-1611)CGA>CCA	p.R537P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc003lky.1_Intron|PCDHGC5_uc011dbc.1_Missense_Mutation_p.R537P	NM_018929	NP_061752	Q9Y5F6	PCDGM_HUMAN	protocadherin gamma subfamily C, 5 isoform 1	537	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGGGGTTCGAGACTCCGGC	0.537													32	46	---	---	---	---	PASS	C	140870417	C	C	140870417	3	2	64	1	0	0	0	0	1	0	0	0	11571	1058	37	2	1612	2	PCDHGC5	5	140870417	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	96345	140870417	40044843	196	25139										
PCDHGC5	56097	broad.mit.edu	37	chr5	140871060	140871060	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tccagccccaacctgcaggtGagctcggacggcacgctcaa	11	16	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:140871060G>C	uc003lla.1	+	1	2253	c.2253G>C	c.(2251-2253)GTG>GTC	p.V751V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc003lky.1_Intron|PCDHGC5_uc011dbc.1_Silent_p.V751V	NM_018929	NP_061752	Q9Y5F6	PCDGM_HUMAN	protocadherin gamma subfamily C, 5 isoform 1	751	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCTGCAGGTGAGCTCGGACG	0.652													4	80	---	---	---	---	PASS	C	140871060	C	C	140871060	2	2	64	1	0	0	0	0	0	0	0	1	11571	1277	45	2		2	PCDHGC5	5	140871060	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	643	140871060	40044200	197	25140										
PPARGC1B	133522	broad.mit.edu	37	chr5	149109981	149109981	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcaactatctcgctgacacgCaggtacggccggctggggct	13	13	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:149109981C>G	uc003lrc.2	+	1	118	c.76C>G	c.(76-78)CAG>GAG	p.Q26E	PPARGC1B_uc003lrb.1_Missense_Mutation_p.Q26E|PPARGC1B_uc003lrd.2_Missense_Mutation_p.Q26E|MIR378_hsa-mir-378|MI0000786_5'Flank	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	26	Abolishes DNA transcriptional activity when missing.				estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CGCTGACACGCAGGTACGGCC	0.731													2	1	---	---	---	---	PASS	G	149109981	G	G	149109981	3	3	64	1	0	0	0	0	1	0	0	0	12301	711	25	4	78	4	PPARGC1B	5	149109981	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	8238921	149109981	31805279	198	25141										
IL12B	3593	broad.mit.edu	37	chr5	158749482	158749482	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgaaacgtccagaataattCttggcctcgcatcttagaaa	8	9	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:158749482C>A	uc003lxr.1	-	4	444	c.402G>T	c.(400-402)AAG>AAT	p.K134N		NM_002187	NP_002178	P29460	IL12B_HUMAN	interleukin 12B precursor	134					cell cycle arrest|cell migration|defense response to Gram-negative bacterium|interferon-gamma biosynthetic process|natural killer cell activation|negative regulation of interleukin-10 production|negative regulation of interleukin-17 production|negative regulation of smooth muscle cell proliferation|positive regulation of activated T cell proliferation|positive regulation of activation of JAK2 kinase activity|positive regulation of cell adhesion|positive regulation of defense response to virus by host|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-17 production|positive regulation of memory T cell differentiation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|positive regulation of natural killer cell proliferation|positive regulation of NF-kappaB import into nucleus|positive regulation of NK T cell activation|positive regulation of NK T cell proliferation|positive regulation of osteoclast differentiation|positive regulation of smooth muscle cell apoptosis|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat4 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|regulation of tyrosine phosphorylation of Stat1 protein|response to UV-B|sexual reproduction|T-helper 1 type immune response|T-helper cell differentiation	interleukin-12 complex|interleukin-23 complex|membrane	cytokine activity|cytokine receptor activity|interleukin-12 receptor binding|protein heterodimerization activity				0	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)			CAGAATAATTCTTGGCCTCGC	0.393													8	91	---	---	---	---	PASS	A	158749482	A	A	158749482	3	1	64	1	0	0	0	0	1	0	0	0	7625	912	32	2	600	2	IL12B	5	158749482	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	9639501	158749482	22165778	199	25142										
GABRA6	2559	broad.mit.edu	37	chr5	161128738	161128738	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttgtgtactgggtagtttatCtttccaaagatacaatggaa	9	5	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr5:161128738C>G	uc003lyu.2	+	9	1659	c.1321C>G	c.(1321-1323)CTT>GTT	p.L441V	GABRA6_uc003lyv.2_Missense_Mutation_p.L212V	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	441	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GGTAGTTTATCTTTCCAAAGA	0.418										TCGA Ovarian(5;0.080)			10	134	---	---	---	---	PASS	G	161128738	G	G	161128738	3	3	64	1	0	0	0	0	1	0	0	0	6165	913	32	2	1355	2	GABRA6	5	161128738	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2379256	161128738	19786522	200	25143										
GFOD1	54438	broad.mit.edu	37	chr6	13486973	13486973	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcatcaatgcggctagtgtaGaaggggacactcatctcctt	10	10	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:13486973G>C	uc003nat.1	-	1	815	c.150C>G	c.(148-150)TTC>TTG	p.F50L	GFOD1_uc003nas.1_5'Flank|C6orf114_uc003nav.2_5'Flank	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	50						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			GGCTAGTGTAGAAGGGGACAC	0.607													13	59	---	---	---	---	PASS	C	13486973	C	C	13486973	3	2	64	1	0	0	0	0	1	0	0	0	6343	933	33	2	1030	2	GFOD1	6	13486973	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08		13486973	157628094	201	25144										
ALDH5A1	7915	broad.mit.edu	37	chr6	24505163	24505163	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tggcagccggctgtactgtcGtggtgaagcctgccgaagac	15	11	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:24505163G>T	uc003neg.2	+	4	704	c.676G>T	c.(676-678)GTG>TTG	p.V226L	ALDH5A1_uc003nef.2_Missense_Mutation_p.V226L	NM_001080	NP_001071	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5A1 isoform 2 precursor	226					acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)	CTGTACTGTCGTGGTGAAGCC	0.582													7	135	---	---	---	---	PASS	T	24505163	T	T	24505163	3	4	64	1	0	0	0	0	1	0	0	0	502	1145	40	1	690	1	ALDH5A1	6	24505163	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	11018190	24505163	146609904	202	25145										
HIST1H2BF	8343	broad.mit.edu	37	chr6	26200015	26200015	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcttcgagcgcatcgctggcGaggcttcccgcctggcgcat	13	15	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:26200015G>A	uc003ngx.2	+	1	229	c.229G>A	c.(229-231)GAG>AAG	p.E77K	HIST1H3D_uc003ngv.2_5'Flank|HIST1H2AD_uc003ngw.2_5'Flank	NM_003522	NP_003513	P62807	H2B1C_HUMAN	histone cluster 1, H2bf	77					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0		all_hematologic(11;0.196)				CATCGCTGGCGAGGCTTCCCG	0.612													31	215	---	---	---	---	PASS	A	26200015	A	A	26200015	3	1	64	1	0	0	0	0	1	0	0	0	7145	1059	37	2	231	2	HIST1H2BF	6	26200015	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1694852	26200015	144915052	203	25146										
ZNF184	7738	broad.mit.edu	37	chr6	27419815	27419815	+	Missense_Mutation	SNP	C	A	A													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agagataactgaaagcctttCcacattcactgcattcaaag							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:27419815C>A	uc003njj.2	-	5	2334	c.1523G>T	c.(1522-1524)GGA>GTA	p.G508V	ZNF184_uc010jqv.2_Missense_Mutation_p.G508V|ZNF184_uc003nji.2_Missense_Mutation_p.G508V	NM_007149	NP_009080	Q99676	ZN184_HUMAN	zinc finger protein 184	508	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GAAAGCCTTTCCACATTCACT	0.393													111	17	---	---	---	---	PASS	A	27419815	A	A	27419815	3	1	64	1	0	0	0	0	1	0	0	0	17748	855	30	2	736	2	ZNF184	6	27419815	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1219800	27419815	143695252	204	25147	536	2								
ZNF184	7738	broad.mit.edu	37	chr6	27419816	27419816	+	Missense_Mutation	SNP	C	T	T													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gagataactgaaagcctttcCacattcactgcattcaaagg							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:27419816C>T	uc003njj.2	-	5	2333	c.1522G>A	c.(1522-1524)GGA>AGA	p.G508R	ZNF184_uc010jqv.2_Missense_Mutation_p.G508R|ZNF184_uc003nji.2_Missense_Mutation_p.G508R	NM_007149	NP_009080	Q99676	ZN184_HUMAN	zinc finger protein 184	508	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAAGCCTTTCCACATTCACTG	0.393													113	16	---	---	---	---	PASS	T	27419816	T	T	27419816	3	4	64	1	0	0	0	0	1	0	0	0	17748	603	21	3	737	3	ZNF184	6	27419816	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1	27419816	143695251	205	25148	536	2								
ZNF192	7745	broad.mit.edu	37	chr6	28121333	28121333	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcgggccttattctgcaccaGagaatccacagtggagagag	13	10	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:28121333G>C	uc003nkn.1	+	6	1459	c.1275G>C	c.(1273-1275)CAG>CAC	p.Q425H	ZNF192_uc010jqx.1_Missense_Mutation_p.Q425H|ZNF192_uc010jqy.1_Missense_Mutation_p.Q238H|ZNF192_uc011dkz.1_Missense_Mutation_p.Q238H	NM_006298	NP_006289	Q15776	ZN192_HUMAN	zinc finger protein 192	425	C2H2-type 4.				viral reproduction	cytoplasm|nucleolus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTCTGCACCAGAGAATCCACA	0.502													23	126	---	---	---	---	PASS	C	28121333	C	C	28121333	3	2	64	1	0	0	0	0	1	0	0	0	17753	933	33	2	1293	2	ZNF192	6	28121333	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	701517	28121333	142993734	206	25149										
PGBD1	84547	broad.mit.edu	37	chr6	28251600	28251600	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctaagctcaacatgtatgaaGctttgccaggccctgctcct	8	13	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:28251600G>T	uc003nky.2	+	2	380	c.10G>T	c.(10-12)GCT>TCT	p.A4S	PGBD1_uc003nkz.2_Missense_Mutation_p.A4S	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	4					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						CATGTATGAAGCTTTGCCAGG	0.468													7	198	---	---	---	---	PASS	T	28251600	T	T	28251600	3	4	64	1	0	0	0	0	1	0	0	0	11780	971	34	3	12	3	PGBD1	6	28251600	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	130267	28251600	142863467	207	25150										
MOG	4340	broad.mit.edu	37	chr6	29627371	29627371	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggaatgtaaggttctcagatGaaggaggtttcacctgcttc	12	7	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:29627371G>A	uc003nnf.2	+	2	542	c.364G>A	c.(364-366)GAA>AAA	p.E122K	MOG_uc003qzk.1_Missense_Mutation_p.E122K|MOG_uc010kle.1_Intron|MOG_uc010klf.1_Intron|MOG_uc003nmy.1_Missense_Mutation_p.E122K|MOG_uc003nmz.2_Missense_Mutation_p.E122K|MOG_uc011dlt.1_Missense_Mutation_p.E52K|MOG_uc003nna.2_Intron|MOG_uc011dlu.1_Intron|MOG_uc011dlv.1_Intron|MOG_uc003nnd.2_Missense_Mutation_p.E122K|MOG_uc003nne.2_Missense_Mutation_p.E122K|MOG_uc003nng.2_Missense_Mutation_p.E122K|MOG_uc003nnh.2_Missense_Mutation_p.E122K|MOG_uc003nni.2_Missense_Mutation_p.E122K|MOG_uc003nnj.2_Missense_Mutation_p.E122K|MOG_uc003nnk.2_Missense_Mutation_p.E122K	NM_206809	NP_996532	Q16653	MOG_HUMAN	myelin oligodendrocyte glycoprotein isoform	122	Ig-like V-type.|Extracellular (Potential).				cell adhesion|central nervous system development|positive regulation of MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)	1						GTTCTCAGATGAAGGAGGTTT	0.468													13	76	---	---	---	---	PASS	A	29627371	A	A	29627371	3	1	64	1	0	0	0	0	1	0	0	0	9693	1291	45	2	370	2	MOG	6	29627371	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1375771	29627371	141487696	208	25151										
TRIM39	56658	broad.mit.edu	37	chr6	30297303	30297303	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cttcccttgtcctgtctgtcGaaagacatcccgctaccgca	7	16	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:30297303G>A	uc010jrz.2	+	3	521	c.209G>A	c.(208-210)CGA>CAA	p.R70Q	HCG18_uc003npx.2_5'Flank|HCG18_uc003npy.2_5'Flank|TRIM39_uc003npz.2_Missense_Mutation_p.R70Q|TRIM39_uc003nqb.2_Missense_Mutation_p.R70Q|TRIM39_uc003nqc.2_Missense_Mutation_p.R70Q|TRIM39_uc010jsa.1_Missense_Mutation_p.R70Q	NM_021253	NP_067076	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 1	70	RING-type.				apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						CCTGTCTGTCGAAAGACATCC	0.552													35	126	---	---	---	---	PASS	A	30297303	A	A	30297303	3	1	64	1	0	0	0	0	1	0	0	0	16510	1058	37	2	211	2	TRIM39	6	30297303	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	669932	30297303	140817764	209	25152										
SLC44A4	80736	broad.mit.edu	37	chr6	31833700	31833700	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gggaaggtagggatgtcctgGggcttgtggaaggcccagta	19	6	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:31833700G>C	uc010jti.2	-	14	1503	c.1437C>G	c.(1435-1437)CCC>CCG	p.P479P	NEU1_uc003nxq.3_5'Flank|NEU1_uc010jtg.2_5'Flank|NEU1_uc003nxr.3_5'Flank|NEU1_uc010jth.2_5'Flank|NEU1_uc003nxs.3_5'Flank	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	479	Cytoplasmic (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	GGATGTCCTGGGGCTTGTGGA	0.632													11	70	---	---	---	---	PASS	C	31833700	C	C	31833700	2	2	64	1	0	0	0	0	0	0	0	1	14638	1219	43	4		4	SLC44A4	6	31833700	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	1536397	31833700	139281367	210	25153										
BRPF3	27154	broad.mit.edu	37	chr6	36175169	36175169	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccggcatgacttggagcgggCgcggctgctgattgagctga	17	10	0	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:36175169C>T	uc003olv.3	+	4	1909	c.1685C>T	c.(1684-1686)GCG>GTG	p.A562V	BRPF3_uc010jwb.2_Missense_Mutation_p.A562V|BRPF3_uc011dtj.1_RNA|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Missense_Mutation_p.A562V	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	562					histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						TTGGAGCGGGCGCGGCTGCTG	0.562													4	52	---	---	---	---	PASS	T	36175169	T	T	36175169	3	4	64	1	0	0	0	0	1	0	0	0	1521	768	27	1	1695	1	BRPF3	6	36175169	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	4341469	36175169	134939898	211	25154										
KIF6	221458	broad.mit.edu	37	chr6	39353422	39353422	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggctacttgctgtatatgccGctgggtgatttcttccttca	10	10	2	1	rs139112928		TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:39353422G>A	uc003oot.2	-	16	1932	c.1837C>T	c.(1837-1839)CGG>TGG	p.R613W	KIF6_uc003oos.2_Missense_Mutation_p.R64W|KIF6_uc010jwz.1_5'UTR|KIF6_uc010jxa.1_Missense_Mutation_p.R404W|KIF6_uc011dua.1_Intron|KIF6_uc010jxb.1_Missense_Mutation_p.R557W	NM_145027	NP_659464	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	613	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3						TGTATATGCCGCTGGGTGATT	0.468													4	130	---	---	---	---	PASS	A	39353422	A	A	39353422	3	1	64	1	0	0	0	0	1	0	0	0	8308	1086	38	1	639	1	KIF6	6	39353422	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3178253	39353422	131761645	212	25155										
RHAG	6005	broad.mit.edu	37	chr6	49582568	49582568	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atccacagaaagagagtcccTgtagtgaaccaaaagagggg	12	8	0	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:49582568T>C	uc003ozk.3	-	5	703	c.641_splice	c.e5-1	p.G214_splice	RHAG_uc010jzl.2_Splice_Site_p.G214_splice|RHAG_uc010jzm.2_Splice_Site_p.G214_splice	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein						carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					AGAGAGTCCCTGTAGTGAACC	0.388													82	8	---	---	---	---	PASS	C	49582568	C	C	49582568	5	2	64	1	0	0	0	0	0	0	1	0	13315	1594	55	5	614	5	RHAG	6	49582568	Splice_Site	SNP	T	TCGA-34-2600-01A-01D-1522-08	10229146	49582568	121532499	213	25156										
DEFB110	245913	broad.mit.edu	37	chr6	49989594	49989594	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cacaaatatttgcatattacCtggtaaaattgtgacccaaa	5	8	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:49989594C>G	uc003pac.2	-	1	101	c.55G>C	c.(55-57)GCC>CCC	p.A19P	DEFB110_uc011dwr.1_Missense_Mutation_p.A19P	NM_001037497	NP_001032586	Q30KQ9	DB110_HUMAN	beta-defensin 110 isoform a	19					defense response to bacterium	extracellular region				ovary(1)	1	Lung NSC(77;0.042)					TGCATATTACCTGGTAAAATT	0.299													41	16	---	---	---	---	PASS	G	49989594	G	G	49989594	3	3	64	1	0	0	0	0	1	0	0	0	4400	695	24	4	292	4	DEFB110	6	49989594	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	407026	49989594	121125473	214	25157										
PKHD1	5314	broad.mit.edu	37	chr6	51695669	51695669	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttttactcactgggtaaaatGagaacgtcatccccagggcc	9	11	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:51695669G>A	uc003pah.1	-	52	8568	c.8292C>T	c.(8290-8292)CTC>CTT	p.L2764L	PKHD1_uc010jzn.1_Silent_p.L747L|PKHD1_uc003pai.2_Silent_p.L2764L	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2764	G8 2.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TGGGTAAAATGAGAACGTCAT	0.433													42	130	---	---	---	---	PASS	A	51695669	A	A	51695669	2	1	64	1	0	0	0	0	0	0	0	1	11971	1277	45	2		2	PKHD1	6	51695669	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	1706075	51695669	119419398	215	25158										
PAQR8	85315	broad.mit.edu	37	chr6	52268234	52268234	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcctctttcagaaacacaacGaggtggtcaacgtctggacc	10	12	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:52268234G>A	uc003pao.3	+	2	397	c.223G>A	c.(223-225)GAG>AAG	p.E75K		NM_133367	NP_588608	Q8TEZ7	MPRB_HUMAN	progestin and adipoQ receptor family member	75	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding				0	Lung NSC(77;0.0875)					GAAACACAACGAGGTGGTCAA	0.617													9	123	---	---	---	---	PASS	A	52268234	A	A	52268234	3	1	64	1	0	0	0	0	1	0	0	0	11441	1059	37	2	225	2	PAQR8	6	52268234	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	572565	52268234	118846833	216	25159										
RIMS1	22999	broad.mit.edu	37	chr6	73000470	73000470	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggggaaaacatcctgctcgcTcaaggtcgagtgagcactct	12	11	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:73000470T>C	uc003pga.2	+	25	3720	c.3643T>C	c.(3643-3645)TCA>CCA	p.S1215P	RIMS1_uc011dyb.1_Intron|RIMS1_uc003pgc.2_Intron|RIMS1_uc010kaq.2_Intron|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Intron|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Intron|RIMS1_uc003pge.2_Intron|RIMS1_uc011dye.1_Intron|RIMS1_uc011dyf.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1215					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)				TCCTGCTCGCTCAAGGTCGAG	0.527													10	68	---	---	---	---	PASS	C	73000470	C	C	73000470	3	2	64	1	0	0	0	0	1	0	0	0	13367	1551	54	5	3904	5	RIMS1	6	73000470	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	20732236	73000470	98114597	217	25160										
CD109	135228	broad.mit.edu	37	chr6	74492445	74492445	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acatgtccgaaagcattttcCagagacttggatttggctag	10	8	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:74492445C>T	uc003php.2	+	18	2497	c.2072C>T	c.(2071-2073)CCA>CTA	p.P691L	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Missense_Mutation_p.P691L|CD109_uc010kba.2_Missense_Mutation_p.P614L	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	691	Bait region (approximate) (By similarity).					anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						AAGCATTTTCCAGAGACTTGG	0.363													15	213	---	---	---	---	PASS	T	74492445	T	T	74492445	3	4	64	1	0	0	0	0	1	0	0	0	2963	594	21	3	2142	3	CD109	6	74492445	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1491975	74492445	96622622	218	25161										
MYO6	4646	broad.mit.edu	37	chr6	76576653	76576653	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttgatttatttttcagacccAgtttgtggagaaaaataatg	8	4	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:76576653A>T	uc003pih.1	+	18	2054	c.1775A>T	c.(1774-1776)CAG>CTG	p.Q592L	MYO6_uc003pig.1_Missense_Mutation_p.Q592L|MYO6_uc003pii.1_Missense_Mutation_p.Q592L	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	592	Myosin head-like.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		TTTCAGACCCAGTTTGTGGAG	0.264													65	6	---	---	---	---	PASS	T	76576653	T	T	76576653	3	4	64	1	0	0	0	0	1	0	0	0	10081	188	7	5	1841	5	MYO6	6	76576653	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	2084208	76576653	94538414	219	25162										
SNAP91	9892	broad.mit.edu	37	chr6	84333044	84333044	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgaggtcaggaatgtcaccTttatcaataccaacttgctg	9	9	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:84333044T>A	uc011dze.1	-	9	1100	c.783A>T	c.(781-783)AAA>AAT	p.K261N	SNAP91_uc003pkb.2_Missense_Mutation_p.K226N|SNAP91_uc003pkc.2_Missense_Mutation_p.K261N|SNAP91_uc003pkd.2_Intron|SNAP91_uc003pka.2_Missense_Mutation_p.K261N|SNAP91_uc011dzf.1_Missense_Mutation_p.K142N	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	261					clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		GAATGTCACCTTTATCAATAC	0.328													8	22	---	---	---	---	PASS	A	84333044	A	A	84333044	3	1	64	1	0	0	0	0	1	0	0	0	14833	1606	56	5	2020	5	SNAP91	6	84333044	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	7756391	84333044	86782023	220	25163										
MDN1	23195	broad.mit.edu	37	chr6	90368550	90368550	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctcctgtggactctgactttCgttctggtcggtctcggtct	11	12	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:90368550C>T	uc003pnn.1	-	89	14916	c.14800G>A	c.(14800-14802)GAA>AAA	p.E4934K		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4934					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)		CTCTGACTTTCGTTCTGGTCG	0.483													8	403	---	---	---	---	PASS	T	90368550	T	T	90368550	3	4	64	1	0	0	0	0	1	0	0	0	9415	893	31	2	2046	2	MDN1	6	90368550	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	6035506	90368550	80746517	221	25164										
PRDM13	59336	broad.mit.edu	37	chr6	100061957	100061957	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	accaccgcttattacccgctCaaattgcacttcggcgggct	8	15	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:100061957C>G	uc003pqg.1	+	4	1707	c.1446C>G	c.(1444-1446)CTC>CTG	p.L482L		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	482					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		ATTACCCGCTCAAATTGCACT	0.652													22	3	---	---	---	---	PASS	G	100061957	G	G	100061957	2	3	64	1	0	0	0	0	0	0	0	1	12454	813	29	2		2	PRDM13	6	100061957	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	9693407	100061957	71053110	222	25165										
AKD1	221264	broad.mit.edu	37	chr6	109871331	109871331	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agccacataatcctcaggatGctccaaaaacttttctttag	5	11	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:109871331G>A	uc003ptn.2	-	25	3003	c.2926C>T	c.(2926-2928)CAT>TAT	p.H976Y	AKD1_uc011eat.1_Missense_Mutation_p.H55Y	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	976					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TCCTCAGGATGCTCCAAAAAC	0.403													186	29	---	---	---	---	PASS	A	109871331	A	A	109871331	3	1	64	1	0	0	0	0	1	0	0	0	460	1319	46	3	2877	3	AKD1	6	109871331	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	9809374	109871331	61243736	223	25166										
ROS1	6098	broad.mit.edu	37	chr6	117678018	117678018	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	attcggtgcaaggtgtgactGataatactgtagtagaacat	11	5	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:117678018G>A	uc003pxp.1	-	25	4114	c.3915C>T	c.(3913-3915)ATC>ATT	p.I1305I	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1305	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		AGGTGTGACTGATAATACTGT	0.383			T	GOPC|ROS1	glioblastoma|NSCLC								5	149	---	---	---	---	PASS	A	117678018	A	A	117678018	2	1	64	1	0	0	0	0	0	0	0	1	13531	1280	45	2		2	ROS1	6	117678018	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	7806687	117678018	53437049	224	25167										
MCM9	254394	broad.mit.edu	37	chr6	119245043	119245043	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acgaagacaagcctgagaggCaagtgaatttagaggaatca	12	6	1	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:119245043C>T	uc003pyh.2	-	3	817	c.554G>A	c.(553-555)TGC>TAC	p.C185Y		NM_153255	NP_694987	Q9NXL9	MCM9_HUMAN	minichromosome maintenance complex component 9	185					DNA replication		ATP binding|DNA binding|nucleoside-triphosphatase activity			ovary(1)	1		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0676)|OV - Ovarian serous cystadenocarcinoma(136;0.194)		GCCTGAGAGGCAAGTGAATTT	0.423													6	118	---	---	---	---	PASS	T	119245043	T	T	119245043	3	4	64	1	0	0	0	0	1	0	0	0	9394	710	25	3	641	3	MCM9	6	119245043	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1567025	119245043	51870024	225	25168										
CLVS2	134829	broad.mit.edu	37	chr6	123384862	123384862	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cagtactaaaacgcatggatAaaaatgaggaagaaaacatg	9	5	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:123384862A>T	uc003pzi.1	+	6	1809	c.940A>T	c.(940-942)AAA>TAA	p.K314*		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	314					lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						ACGCATGGATAAAAATGAGGA	0.383													105	13	---	---	---	---	PASS	T	123384862	T	T	123384862	4	4	64	1	0	0	0	0	0	1	0	0	3572	363	13	5	958	5	CLVS2	6	123384862	Nonsense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	4139819	123384862	47730205	226	25169										
EYA4	2070	broad.mit.edu	37	chr6	133783758	133783758	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cacattcaattttctgaacaGatttgggtgtgatgttgcca	9	7	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:133783758G>C	uc003qec.3	+	9	1039	c.581_splice	c.e9-1	p.D194_splice	EYA4_uc011ecq.1_Splice_Site_p.D140_splice|EYA4_uc011ecr.1_Splice_Site_p.D140_splice|EYA4_uc003qed.3_Splice_Site_p.D194_splice|EYA4_uc003qee.3_Splice_Site_p.D171_splice|EYA4_uc011ecs.1_Splice_Site_p.D194_splice|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a						anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		TTTCTGAACAGATTTGGGTGT	0.423													24	78	---	---	---	---	PASS	C	133783758	C	C	133783758	5	2	64	1	0	0	0	0	0	0	1	0	5331	956	33	2	610	2	EYA4	6	133783758	Splice_Site	SNP	G	TCGA-34-2600-01A-01D-1522-08	10398896	133783758	37331309	227	25170										
BCLAF1	9774	broad.mit.edu	37	chr6	136597180	136597180	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctttacctgctcaggtgactGagtttctttctttactgtta	7	9	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:136597180G>C	uc003qgx.1	-	5	1736	c.1483C>G	c.(1483-1485)CAG>GAG	p.Q495E	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Missense_Mutation_p.Q493E|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.Q493E	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	495					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TCAGGTGACTGAGTTTCTTTC	0.393													13	487	---	---	---	---	PASS	C	136597180	C	C	136597180	3	2	64	1	0	0	0	0	1	0	0	0	1383	1299	45	2	1315	2	BCLAF1	6	136597180	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2813422	136597180	34517887	228	25171										
BCLAF1	9774	broad.mit.edu	37	chr6	136599579	136599579	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gagatttgctatatggggatGaagaacgagaagaggatgat	15	2	0	6			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:136599579G>A	uc003qgx.1	-	4	693	c.440C>T	c.(439-441)TCA>TTA	p.S147L	BCLAF1_uc003qgw.1_Missense_Mutation_p.S147L|BCLAF1_uc003qgy.1_Missense_Mutation_p.S145L|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.S145L	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	147	Poly-Ser.				induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		ATATGGGGATGAAGAACGAGA	0.433													15	482	---	---	---	---	PASS	A	136599579	A	A	136599579	3	1	64	1	0	0	0	0	1	0	0	0	1383	1294	45	2	2362	2	BCLAF1	6	136599579	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2399	136599579	34515488	229	25172										
KATNA1	11104	broad.mit.edu	37	chr6	149919436	149919436	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaagtccctcggcgactacaGatggagtctatctcatcaat	9	11	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:149919436G>A	uc003qmr.1	-	7	984	c.939C>T	c.(937-939)ATC>ATT	p.I313I	KATNA1_uc003qms.2_Silent_p.I313I|KATNA1_uc003qmt.2_Silent_p.I237I|KATNA1_uc011eed.1_Silent_p.I237I	NM_007044	NP_008975	O75449	KTNA1_HUMAN	katanin p60 subunit A 1	313					cell division|interphase of mitotic cell cycle|mitosis	microtubule|microtubule organizing center|spindle pole	ATP binding|microtubule binding|microtubule-severing ATPase activity|protein heterodimerization activity			skin(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;2.95e-12)|GBM - Glioblastoma multiforme(68;0.173)		GGCGACTACAGATGGAGTCTA	0.413													5	161	---	---	---	---	PASS	A	149919436	A	A	149919436	2	1	64	1	0	0	0	0	0	0	0	1	7984	932	33	2		2	KATNA1	6	149919436	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	13319857	149919436	21195631	230	25173										
NOX3	50508	broad.mit.edu	37	chr6	155732410	155732410	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaagtgagttttcccctgctCactcatccgtgtttccaggg	9	12	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:155732410C>T	uc003qqm.2	-	11	1496	c.1393G>A	c.(1393-1395)GAG>AAG	p.E465K		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	465	Cytoplasmic (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		TTCCCCTGCTCACTCATCCGT	0.403													30	102	---	---	---	---	PASS	T	155732410	T	T	155732410	3	4	64	1	0	0	0	0	1	0	0	0	10557	835	29	2	325	2	NOX3	6	155732410	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	5812974	155732410	15382657	231	25174										
LPA	4018	broad.mit.edu	37	chr6	160969650	160969650	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tggtaaaacaccaagggcctGtatcggcatctggattcctg	11	10	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:160969650G>T	uc003qtl.2	-	32	5135	c.5015C>A	c.(5014-5016)ACA>AAA	p.T1672K		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4180	Kringle 37.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	CCAAGGGCCTGTATCGGCATC	0.522													113	15	---	---	---	---	PASS	T	160969650	T	T	160969650	3	4	64	1	0	0	0	0	1	0	0	0	8903	1377	48	3	1143	3	LPA	6	160969650	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	5237240	160969650	10145417	232	25175										
THBS2	7058	broad.mit.edu	37	chr6	169632236	169632236	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtggcccaggtagatgcactCcgcgtgcttgtggcagttgt	15	10	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr6:169632236C>A	uc003qwt.2	-	14	2238	c.1990G>T	c.(1990-1992)GAG>TAG	p.E664*		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	664	EGF-like 3.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		TAGATGCACTCCGCGTGCTTG	0.622													21	103	---	---	---	---	PASS	A	169632236	A	A	169632236	4	1	64	1	0	0	0	0	0	1	0	0	15851	864	30	2	1568	2	THBS2	6	169632236	Nonsense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	8662586	169632236	1482831	233	25176										
MICALL2	79778	broad.mit.edu	37	chr7	1481960	1481960	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cgggggcaacgcggatgcctGagaggtactgctcgtgctca	16	11	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:1481960G>C	uc003skj.3	-	7	1726	c.1579C>G	c.(1579-1581)CAG>GAG	p.Q527E	MICALL2_uc003ski.3_Missense_Mutation_p.Q14E	NM_182924	NP_891554	Q8IY33	MILK2_HUMAN	MICAL-like 2 isoform 1	527						cytoplasm|cytoskeleton	zinc ion binding			central_nervous_system(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;6.01e-15)		GCGGATGCCTGAGAGGTACTG	0.667													5	151	---	---	---	---	PASS	C	1481960	C	C	1481960	3	2	64	1	0	0	0	0	1	0	0	0	9574	1299	45	2	1179	2	MICALL2	7	1481960	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08		1481960	157656703	234	25177										
DNAH11	8701	broad.mit.edu	37	chr7	21658823	21658823	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttgtggacaaggcggtgaaaGagctggggactgagaaggta	18	4	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:21658823G>C	uc003svc.2	+	24	4406	c.4375G>C	c.(4375-4377)GAG>CAG	p.E1459Q		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1459	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GGCGGTGAAAGAGCTGGGGAC	0.443									Kartagener_syndrome				30	17	---	---	---	---	PASS	C	21658823	C	C	21658823	3	2	64	1	0	0	0	0	1	0	0	0	4599	943	33	2	4469	2	DNAH11	7	21658823	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	20176863	21658823	137479840	235	25178										
NPC1L1	29881	broad.mit.edu	37	chr7	44561319	44561319	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccccacactcactgacggtcGaggggcagaacttgtcctta	10	14	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:44561319G>A	uc003tlb.2	-	12	3001	c.2945C>T	c.(2944-2946)TCG>TTG	p.S982L	NPC1L1_uc003tlc.2_Missense_Mutation_p.S982L|NPC1L1_uc011kbw.1_Missense_Mutation_p.S936L|NPC1L1_uc003tla.2_5'Flank	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	982	Cytoplasmic (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	ACTGACGGTCGAGGGGCAGAA	0.587													53	50	---	---	---	---	PASS	A	44561319	A	A	44561319	3	1	64	1	0	0	0	0	1	0	0	0	10571	1059	37	2	1170	2	NPC1L1	7	44561319	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	22902496	44561319	114577344	236	25179										
OGDH	4967	broad.mit.edu	37	chr7	44737357	44737357	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cagaatggcatcgtgttgctGctgccccatggcatggaggg	15	10	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:44737357G>T	uc003tln.2	+	17	2443	c.2334G>T	c.(2332-2334)CTG>CTT	p.L778L	OGDH_uc011kbx.1_Silent_p.L774L|OGDH_uc011kby.1_Silent_p.L628L|OGDH_uc003tlp.2_Silent_p.L789L|OGDH_uc011kbz.1_Silent_p.L573L	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	778					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	TCGTGTTGCTGCTGCCCCATG	0.602													74	12	---	---	---	---	PASS	T	44737357	T	T	44737357	2	4	64	1	0	0	0	0	0	0	0	1	10839	1306	46	3		3	OGDH	7	44737357	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	176038	44737357	114401306	237	25180										
PSPH	5723	broad.mit.edu	37	chr7	56079530	56079530	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttatccttgacttgttgcctGatcacatttcctccaaatcc	4	13	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:56079530G>A	uc003trg.2	-	7	966	c.603C>T	c.(601-603)ATC>ATT	p.I201I	PSPH_uc003trh.2_Silent_p.I201I|PSPH_uc003tri.2_Silent_p.I201I|PSPH_uc003trj.2_Silent_p.I230I	NM_004577	NP_004568	P78330	SERB_HUMAN	phosphoserine phosphatase	201					L-serine biosynthetic process	cytoplasm	calcium ion binding|magnesium ion binding|phosphoserine phosphatase activity|protein homodimerization activity			ovary(1)|skin(1)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CTTGTTGCCTGATCACATTTC	0.328													11	149	---	---	---	---	PASS	A	56079530	A	A	56079530	2	1	64	1	0	0	0	0	0	0	0	1	12717	1280	45	2		2	PSPH	7	56079530	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	11342173	56079530	103059133	238	25181										
ASL	435	broad.mit.edu	37	chr7	65557787	65557787	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gggcgacgtgatctgcgtgtGggactacgggcacagtgtgg	19	8	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:65557787G>C	uc003tuo.2	+	17	1394	c.1283G>C	c.(1282-1284)TGG>TCG	p.W428S	ASL_uc003tup.2_Missense_Mutation_p.W428S|ASL_uc003tur.2_Missense_Mutation_p.W402S|ASL_uc003tuq.2_Missense_Mutation_p.W408S	NM_000048	NP_000039	P04424	ARLY_HUMAN	argininosuccinate lyase isoform 1	428					arginine biosynthetic process via ornithine|arginine catabolic process|urea cycle	cytosol	argininosuccinate lyase activity			breast(2)	2					L-Arginine(DB00125)	ATCTGCGTGTGGGACTACGGG	0.692													7	220	---	---	---	---	PASS	C	65557787	C	C	65557787	3	2	64	1	0	0	0	0	1	0	0	0	1044	1357	47	4	1345	4	ASL	7	65557787	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	9478257	65557787	93580876	239	25182										
RABGEF1	27342	broad.mit.edu	37	chr7	66240357	66240357	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaagaaattcttcagtgcatCttccagggtcggatcaaaga	10	8	4	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:66240357C>T	uc011kee.1	+	3	529	c.365C>T	c.(364-366)TCT>TTT	p.S122F	RABGEF1_uc003tvf.2_5'UTR|RABGEF1_uc003tvg.2_5'UTR|RABGEF1_uc010lag.2_Missense_Mutation_p.S108F|RABGEF1_uc003tvh.2_Missense_Mutation_p.S108F|RABGEF1_uc003tvi.2_5'UTR	NM_014504	NP_055319	Q9UJ41	RABX5_HUMAN	RAB guanine nucleotide exchange factor (GEF) 1	286					endocytosis|protein transport	early endosome|recycling endosome	DNA binding|protein binding|zinc ion binding			ovary(1)	1						TTCAGTGCATCTTCCAGGGTC	0.458													61	104	---	---	---	---	PASS	T	66240357	T	T	66240357	3	4	64	1	0	0	0	0	1	0	0	0	12966	913	32	2	329	2	RABGEF1	7	66240357	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	682570	66240357	92898306	240	25183										
WBSCR17	64409	broad.mit.edu	37	chr7	71135073	71135073	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccagaaatgagaagatacaaTaataccgttgcttacgggga	10	7	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:71135073T>C	uc003tvy.2	+	8	1383	c.1383T>C	c.(1381-1383)AAT>AAC	p.N461N	WBSCR17_uc003tvz.2_Silent_p.N160N	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	461	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				GAAGATACAATAATACCGTTG	0.433													133	370	---	---	---	---	PASS	C	71135073	C	C	71135073	2	2	64	1	0	0	0	0	0	0	0	1	17261	1403	49	5		5	WBSCR17	7	71135073	Silent	SNP	T	TCGA-34-2600-01A-01D-1522-08	4894716	71135073	88003590	241	25184										
HIP1	3092	broad.mit.edu	37	chr7	75171274	75171274	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tggcgtttgatctgtgtcagCgtcatgcttgagaagtccat	12	8	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:75171274C>A	uc003uds.1	-	29	2957	c.2916G>T	c.(2914-2916)ACG>ACT	p.T972T	HIP1_uc011kfz.1_Silent_p.T798T	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	972	I/LWEQ.				activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						TCTGTGTCAGCGTCATGCTTG	0.468			T	PDGFRB	CMML								205	117	---	---	---	---	PASS	A	75171274	A	A	75171274	2	1	64	1	0	0	0	0	0	0	0	1	7114	755	27	1		1	HIP1	7	75171274	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	4036201	75171274	83967389	242	25185										
CACNA2D1	781	broad.mit.edu	37	chr7	82072711	82072711	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aagggaacggctcctccgacGaggggccgatgagcaaagat	15	10	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:82072711G>T	uc003uhr.1	-	1	321	c.65C>A	c.(64-66)TCG>TAG	p.S22*		NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	22						voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	CTCCTCCGACGAGGGGCCGAT	0.483													4	15	---	---	---	---	PASS	T	82072711	T	T	82072711	4	4	64	1	0	0	0	0	0	1	0	0	2548	1059	37	2	3366	2	CACNA2D1	7	82072711	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	6901437	82072711	77065952	243	25186										
PCLO	27445	broad.mit.edu	37	chr7	82579207	82579207	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aatctgcttctgtttgacatCctaaactgccccctttgtaa	5	12	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:82579207C>T	uc003uhx.2	-	6	10986	c.10697G>A	c.(10696-10698)GGA>GAA	p.G3566E	PCLO_uc003uhv.2_Missense_Mutation_p.G3566E|PCLO_uc010lec.2_Missense_Mutation_p.G531E	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3497					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TGTTTGACATCCTAAACTGCC	0.443													5	172	---	---	---	---	PASS	T	82579207	T	T	82579207	3	4	64	1	0	0	0	0	1	0	0	0	11583	855	30	2	4828	2	PCLO	7	82579207	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	506496	82579207	76559456	244	25187										
ZNF804B	219578	broad.mit.edu	37	chr7	88963696	88963696	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acttctgctctttacaaaaaCagaaccctgtatctcttatg	4	11	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:88963696C>G	uc011khi.1	+	4	1938	c.1400C>G	c.(1399-1401)ACA>AGA	p.T467R		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	467						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TTTACAAAAACAGAACCCTGT	0.418										HNSCC(36;0.09)			7	133	---	---	---	---	PASS	G	88963696	G	G	88963696	3	3	64	1	0	0	0	0	1	0	0	0	18168	478	17	4	1414	4	ZNF804B	7	88963696	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	6384489	88963696	70174967	245	25188										
PEX1	5189	broad.mit.edu	37	chr7	92146608	92146608	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acccagactttcccaagatgGagaacttctacatttttggt	7	10	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:92146608G>C	uc003uly.2	-	5	1317	c.1221C>G	c.(1219-1221)CTC>CTG	p.L407L	PEX1_uc011khr.1_Silent_p.L199L|PEX1_uc010ley.2_Silent_p.L407L|PEX1_uc011khs.1_Intron|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	407					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			TCCCAAGATGGAGAACTTCTA	0.328													42	288	---	---	---	---	PASS	C	92146608	C	C	92146608	2	2	64	1	0	0	0	0	0	0	0	1	11735	1161	41	2		2	PEX1	7	92146608	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	3182912	92146608	66992055	246	25189										
C7orf64	84060	broad.mit.edu	37	chr7	92166182	92166182	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	taggtaatttcatctgtgccAaagcctccagaggacaagcc	9	11	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:92166182A>T	uc003ulz.2	+	5	1076	c.1035A>T	c.(1033-1035)CCA>CCT	p.P345P	C7orf64_uc003uma.2_3'UTR|MGC16142_uc011khv.1_5'Flank	NM_032120	NP_115496	Q5RL73	CG064_HUMAN	hypothetical protein LOC84060	345							nucleotide binding			ovary(2)	2						CATCTGTGCCAAAGCCTCCAG	0.328													15	12	---	---	---	---	PASS	T	92166182	T	T	92166182	2	4	64	1	0	0	0	0	0	0	0	1	2410	117	5	5		5	C7orf64	7	92166182	Silent	SNP	A	TCGA-34-2600-01A-01D-1522-08	19574	92166182	66972481	247	25190										
PTCD1	26024	broad.mit.edu	37	chr7	99032607	99032607	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agagagggtcccaaaactctCctcctcctcctcgtcttctt	6	16	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:99032607C>T	uc003uqh.2	-	2	390	c.259G>A	c.(259-261)GAG>AAG	p.E87K	PTCD1_uc011kiw.1_Missense_Mutation_p.E136K	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	87										ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			CCAAAACTCTCCTCCTCCTCC	0.602													13	233	---	---	---	---	PASS	T	99032607	T	T	99032607	3	4	64	1	0	0	0	0	1	0	0	0	12727	864	30	2	1871	2	PTCD1	7	99032607	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	6866425	99032607	60106056	248	25191										
CNPY4	245812	broad.mit.edu	37	chr7	99720141	99720141	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aggccttagagaatttatgtGagcggatcctggactatagt	12	6	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:99720141G>C	uc003uto.2	+	3	386	c.283G>C	c.(283-285)GAG>CAG	p.E95Q	TAF6_uc011kji.1_5'Flank	NM_152755	NP_689968	Q8N129	CNPY4_HUMAN	canopy 4 homolog precursor	95						extracellular region					0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GAATTTATGTGAGCGGATCCT	0.537													5	310	---	---	---	---	PASS	C	99720141	C	C	99720141	3	2	64	1	0	0	0	0	1	0	0	0	3630	1291	45	2	293	2	CNPY4	7	99720141	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	687534	99720141	59418522	249	25192										
MUC17	140453	broad.mit.edu	37	chr7	100684579	100684579	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtcagcaccacaacggtggcCagttctgaaacgagcaccct	10	14	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:100684579C>G	uc003uxp.1	+	3	9935	c.9882C>G	c.(9880-9882)GCC>GCG	p.A3294A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3294	Extracellular (Potential).|Ser-rich.|53.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CAACGGTGGCCAGTTCTGAAA	0.512													243	302	---	---	---	---	PASS	G	100684579	G	G	100684579	2	3	64	1	0	0	0	0	0	0	0	1	9974	581	21	4		4	MUC17	7	100684579	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	964438	100684579	58454084	250	25193										
MUC17	140453	broad.mit.edu	37	chr7	100686484	100686484	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	accatatctgtatcagtgatCacagaaggaagcacacctgg	9	10	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:100686484C>G	uc003uxp.1	+	3	11840	c.11787C>G	c.(11785-11787)ATC>ATG	p.I3929M	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3929	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TATCAGTGATCACAGAAGGAA	0.478													68	187	---	---	---	---	PASS	G	100686484	G	G	100686484	3	3	64	1	0	0	0	0	1	0	0	0	9974	816	29	2	11797	2	MUC17	7	100686484	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1905	100686484	58452179	251	25194										
CUX1	1523	broad.mit.edu	37	chr7	101837153	101837153	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccatggagtttgcaccgtccGagggcgctgggacacaggta	15	11	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:101837153G>A	uc003uyx.3	+	13	1146	c.1108G>A	c.(1108-1110)GAG>AAG	p.E370K	CUX1_uc003uys.3_Missense_Mutation_p.E381K|CUX1_uc003uyt.2_Missense_Mutation_p.E381K|CUX1_uc011kkn.1_Missense_Mutation_p.E342K|CUX1_uc003uyw.2_Missense_Mutation_p.E335K|CUX1_uc003uyv.2_Missense_Mutation_p.E365K|CUX1_uc003uyu.2_Missense_Mutation_p.E379K	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	370					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						TGCACCGTCCGAGGGCGCTGG	0.448													17	53	---	---	---	---	PASS	A	101837153	A	A	101837153	3	1	64	1	0	0	0	0	1	0	0	0	4064	1059	37	2	1225	2	CUX1	7	101837153	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1150669	101837153	57301510	252	25195										
CTTNBP2	83992	broad.mit.edu	37	chr7	117432529	117432529	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccggttcagcttggcacgaaGctgttcccgctcagtgtcaa	11	13	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:117432529G>C	uc003vjf.2	-	4	813	c.721C>G	c.(721-723)CTT>GTT	p.L241V		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	241	Potential.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		TTGGCACGAAGCTGTTCCCGC	0.463													29	80	---	---	---	---	PASS	C	117432529	C	C	117432529	3	2	64	1	0	0	0	0	1	0	0	0	4045	971	34	4	4350	4	CTTNBP2	7	117432529	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	15595376	117432529	41706134	253	25196										
IQUB	154865	broad.mit.edu	37	chr7	123109393	123109393	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggtgaactgcgtatccatctCaattgttttgccattagggg	11	8	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:123109393C>G	uc003vkn.2	-	9	2033	c.1456G>C	c.(1456-1458)GAG>CAG	p.E486Q	IQUB_uc003vko.2_Missense_Mutation_p.E486Q|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Missense_Mutation_p.E486Q	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	486										ovary(3)|large_intestine(1)	4						GTATCCATCTCAATTGTTTTG	0.343													4	242	---	---	---	---	PASS	G	123109393	G	G	123109393	3	3	64	1	0	0	0	0	1	0	0	0	7820	835	29	2	939	2	IQUB	7	123109393	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	5676864	123109393	36029270	254	25197										
GPR37	2861	broad.mit.edu	37	chr7	124386653	124386653	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaaaggcgagagttcgagttCcgtggtgtactcgttgtcat	14	7	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:124386653C>T	uc003vli.2	-	2	2419	c.1768G>A	c.(1768-1770)GAA>AAA	p.E590K		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	590	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						AGTTCGAGTTCCGTGGTGTAC	0.498													44	201	---	---	---	---	PASS	T	124386653	T	T	124386653	3	4	64	1	0	0	0	0	1	0	0	0	6691	864	30	2	77	2	GPR37	7	124386653	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1277260	124386653	34752010	255	25198										
GPR37	2861	broad.mit.edu	37	chr7	124404585	124404585	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gacccttctcttcctcctctGagatctgaaggaagagctgg	10	12	3	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:124404585G>C	uc003vli.2	-	1	1097	c.446C>G	c.(445-447)TCA>TGA	p.S149*		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	149	Extracellular (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						TTCCTCCTCTGAGATCTGAAG	0.607													11	314	---	---	---	---	PASS	C	124404585	C	C	124404585	4	2	64	1	0	0	0	0	0	1	0	0	6691	1294	45	2	1403	2	GPR37	7	124404585	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	17932	124404585	34734078	256	25199										
GRM8	2918	broad.mit.edu	37	chr7	126173442	126173442	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggtttgttttggtcagaaggGctgcatagctgaaacacatg	13	6	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:126173442G>T	uc003vlr.2	-	8	2305	c.1994C>A	c.(1993-1995)GCC>GAC	p.A665D	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.A665D|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	665	Helical; Name=3; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	GGTCAGAAGGGCTGCATAGCT	0.458										HNSCC(24;0.065)			25	93	---	---	---	---	PASS	T	126173442	T	T	126173442	3	4	64	1	0	0	0	0	1	0	0	0	6803	1203	42	3	794	3	GRM8	7	126173442	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1768857	126173442	32965221	257	25200										
GCC1	79571	broad.mit.edu	37	chr7	127222464	127222464	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggctcattggccgctgcaagTtgtaatgcttgggtcaggct	14	9	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:127222464T>C	uc003vma.2	-	2	2350	c.1932A>G	c.(1930-1932)CAA>CAG	p.Q644Q		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	644	Potential.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						CCGCTGCAAGTTGTAATGCTT	0.587													94	58	---	---	---	---	PASS	C	127222464	C	C	127222464	2	2	64	1	0	0	0	0	0	0	0	1	6285	1722	60	5		5	GCC1	7	127222464	Silent	SNP	T	TCGA-34-2600-01A-01D-1522-08	1049022	127222464	31916199	258	25201										
PLXNA4	91584	broad.mit.edu	37	chr7	131870090	131870090	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cattctggctcaatccgcacGatggtggggtcttccacata	10	12	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:131870090G>A	uc003vra.3	-	16	3355	c.3126C>T	c.(3124-3126)ATC>ATT	p.I1042I		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1042	Extracellular (Potential).|IPT/TIG 3.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CAATCCGCACGATGGTGGGGT	0.547													15	165	---	---	---	---	PASS	A	131870090	A	A	131870090	2	1	64	1	0	0	0	0	0	0	0	1	12122	1048	37	2		2	PLXNA4	7	131870090	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	4647626	131870090	27268573	259	25202										
KIAA1549	57670	broad.mit.edu	37	chr7	138603329	138603329	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgaatgcaagggctgcgtgcGatgcagtcacagtggggtat	16	7	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:138603329G>A	uc011kql.1	-	2	1092	c.1043C>T	c.(1042-1044)TCG>TTG	p.S348L	KIAA1549_uc003vuk.3_Missense_Mutation_p.S298L|KIAA1549_uc011kqj.1_Missense_Mutation_p.S348L	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	348						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GGCTGCGTGCGATGCAGTCAC	0.493			O	BRAF	pilocytic astrocytoma								8	334	---	---	---	---	PASS	A	138603329	A	A	138603329	3	1	64	1	0	0	0	0	1	0	0	0	8244	1059	37	2	4885	2	KIAA1549	7	138603329	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	6733239	138603329	20535334	260	25203										
EPHB6	2051	broad.mit.edu	37	chr7	142563239	142563239	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgcctcctcagcctgcccacGggggctctataagtcttctg	10	15	4	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:142563239G>A	uc011kst.1	+	8	1743	c.956G>A	c.(955-957)CGG>CAG	p.R319Q	EPHB6_uc011ksu.1_Missense_Mutation_p.R319Q|EPHB6_uc003wbs.2_Missense_Mutation_p.R27Q|EPHB6_uc003wbt.2_5'UTR|EPHB6_uc003wbu.2_Missense_Mutation_p.R27Q|EPHB6_uc003wbv.2_5'Flank	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	319	Extracellular (Potential).|Cys-rich.					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					GCCTGCCCACGGGGGCTCTAT	0.657													9	59	---	---	---	---	PASS	A	142563239	A	A	142563239	3	1	64	1	0	0	0	0	1	0	0	0	5178	1116	39	1	970	1	EPHB6	7	142563239	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3959910	142563239	16575424	261	25204										
OR2F1	26211	broad.mit.edu	37	chr7	143657394	143657394	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccctggccttgggtgggattGagtttgttctcctggcggtg	16	9	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:143657394G>C	uc003wds.1	+	1	375	c.331G>C	c.(331-333)GAG>CAG	p.E111Q		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	111	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					GGGTGGGATTGAGTTTGTTCT	0.537													19	267	---	---	---	---	PASS	C	143657394	C	C	143657394	3	2	64	1	0	0	0	0	1	0	0	0	10996	1291	45	2	333	2	OR2F1	7	143657394	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1094155	143657394	15481269	262	25205										
GIMAP6	474344	broad.mit.edu	37	chr7	150325056	150325056	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tccatgagctctcgcagttgGgcctcctgctcctccccctg	9	18	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:150325056G>A	uc003whn.2	-	3	1054	c.630C>T	c.(628-630)GCC>GCT	p.A210A	GIMAP6_uc003whm.2_Silent_p.A130A	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	210							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTCGCAGTTGGGCCTCCTGCT	0.532													216	104	---	---	---	---	PASS	A	150325056	A	A	150325056	2	1	64	1	0	0	0	0	0	0	0	1	6383	1219	43	3		3	GIMAP6	7	150325056	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	6667662	150325056	8813607	263	25206										
MLL3	58508	broad.mit.edu	37	chr7	151879574	151879574	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agactgcaccagaagatgctGagaaccaaattgctgttgtt	10	8	0	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:151879574G>A	uc003wla.2	-	36	5590	c.5371C>T	c.(5371-5373)CAG>TAG	p.Q1791*	MLL3_uc003wkz.2_Nonsense_Mutation_p.Q852*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1791	Gln-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		AGAAGATGCTGAGAACCAAAT	0.398			N		medulloblastoma								218	140	---	---	---	---	PASS	A	151879574	A	A	151879574	4	1	64	1	0	0	0	0	0	1	0	0	9622	1299	45	2	9460	2	MLL3	7	151879574	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1554518	151879574	7259089	264	25207										
PAXIP1	22976	broad.mit.edu	37	chr7	154754061	154754061	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	catggctttcctcctggtggGaaggccactgggaagtgaag	15	9	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:154754061G>A	uc003wlp.2	-	10	2140	c.2097C>T	c.(2095-2097)TTC>TTT	p.F699F	PAXIP1_uc003wlq.1_Silent_p.F665F|PAXIP1_uc011kvs.1_Silent_p.F663F	NM_007349	NP_031375	Q6ZW49	PAXI1_HUMAN	PAX interacting protein 1	699	Interaction with TP53BP1.				DNA damage response, signal transduction by p53 class mediator|DNA recombination|DNA repair|histone H3-K4 methylation|positive regulation of histone acetylation|positive regulation of histone H3-K36 methylation|positive regulation of histone H3-K4 methylation|positive regulation of isotype switching|positive regulation of protein ubiquitination|positive regulation of transcription initiation from RNA polymerase II promoter|response to ionizing radiation|transcription, DNA-dependent	histone methyltransferase complex|nuclear matrix				lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0296)	UCEC - Uterine corpus endometrioid carcinoma (81;0.178)		CTCCTGGTGGGAAGGCCACTG	0.468													28	114	---	---	---	---	PASS	A	154754061	A	A	154754061	2	1	64	1	0	0	0	0	0	0	0	1	11487	1165	41	2		2	PAXIP1	7	154754061	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	2874487	154754061	4384602	265	25208										
NOM1	64434	broad.mit.edu	37	chr7	156746852	156746852	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agctggaggaactgtacatgGcccacagcagaaaggacatg	13	9	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:156746852G>A	uc003wmy.2	+	3	1183	c.1168G>A	c.(1168-1170)GCC>ACC	p.A390T		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	390	MIF4G.				RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		ACTGTACATGGCCCACAGCAG	0.527													67	43	---	---	---	---	PASS	A	156746852	A	A	156746852	3	1	64	1	0	0	0	0	1	0	0	0	10530	1203	42	3	1178	3	NOM1	7	156746852	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1992791	156746852	2391811	266	25209										
PTPRN2	5799	broad.mit.edu	37	chr7	157361643	157361643	+	Silent	SNP	C	T	T													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atcaggacgtaggtgccgctCcggcctgcaccgtcactgcc							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:157361643C>T	uc003wno.2	-	21	2974	c.2853G>A	c.(2851-2853)CGG>CGA	p.R951R	PTPRN2_uc003wnp.2_Silent_p.R934R|PTPRN2_uc003wnq.2_Silent_p.R922R|PTPRN2_uc003wnr.2_Silent_p.R913R|PTPRN2_uc011kwa.1_Silent_p.R974R|PTPRN2_uc003wnn.2_RNA	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	951	Substrate binding (By similarity).|Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		AGGTGCCGCTCCGGCCTGCAC	0.557													4	138	---	---	---	---	PASS	T	157361643	T	T	157361643	2	4	64	1	0	0	0	0	0	0	0	1	12808	842	30	2		2	PTPRN2	7	157361643	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	614791	157361643	1777020	267	25210	537	2								
PTPRN2	5799	broad.mit.edu	37	chr7	157361644	157361644	+	Missense_Mutation	SNP	C	T	T													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcaggacgtaggtgccgctcCggcctgcaccgtcactgcca							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr7:157361644C>T	uc003wno.2	-	21	2973	c.2852G>A	c.(2851-2853)CGG>CAG	p.R951Q	PTPRN2_uc003wnp.2_Missense_Mutation_p.R934Q|PTPRN2_uc003wnq.2_Missense_Mutation_p.R922Q|PTPRN2_uc003wnr.2_Missense_Mutation_p.R913Q|PTPRN2_uc011kwa.1_Missense_Mutation_p.R974Q|PTPRN2_uc003wnn.2_RNA	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	951	Substrate binding (By similarity).|Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		GGTGCCGCTCCGGCCTGCACC	0.557													4	135	---	---	---	---	PASS	T	157361644	T	T	157361644	3	4	64	1	0	0	0	0	1	0	0	0	12808	652	23	1	207	1	PTPRN2	7	157361644	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1	157361644	1777019	268	25211	537	2								
PIWIL2	55124	broad.mit.edu	37	chr8	22141783	22141783	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tatcaatatcatgtgactttCaggtattcacagctttcctt	5	9	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:22141783C>T	uc003xbn.2	+	6	889	c.741C>T	c.(739-741)TTC>TTT	p.F247F	PIWIL2_uc011kzf.1_Silent_p.F247F|PIWIL2_uc010ltv.2_Silent_p.F247F	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2	247					DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		ATGTGACTTTCAGGTATTCAC	0.383													11	53	---	---	---	---	PASS	T	22141783	T	T	22141783	2	4	64	1	0	0	0	0	0	0	0	1	11958	825	29	2		2	PIWIL2	8	22141783	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08		22141783	124222239	269	25212										
TEX15	56154	broad.mit.edu	37	chr8	30704639	30704639	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctaacaaaccaaaatctggaCtttcagaagaacaagtttct	5	9	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:30704639C>A	uc003xil.2	-	1	1895	c.1895G>T	c.(1894-1896)AGT>ATT	p.S632I		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	632										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		AAAATCTGGACTTTCAGAAGA	0.323													61	75	---	---	---	---	PASS	A	30704639	A	A	30704639	3	1	64	1	0	0	0	0	1	0	0	0	15776	565	20	3	6490	3	TEX15	8	30704639	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	8562856	30704639	115659383	270	25213										
ADAM18	8749	broad.mit.edu	37	chr8	39537690	39537690	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cactggttcctccatgagatCagatggaacagacaatgcct	9	11	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:39537690C>G	uc003xni.2	+	16	1766	c.1766C>G	c.(1765-1767)TCA>TGA	p.S589*	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Nonsense_Mutation_p.S565*	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	589	Cys-rich.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TCCATGAGATCAGATGGAACA	0.368													24	46	---	---	---	---	PASS	G	39537690	G	G	39537690	4	3	64	1	0	0	0	0	0	1	0	0	239	838	29	2	1828	2	ADAM18	8	39537690	Nonsense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	8833051	39537690	106826332	271	25214										
MYST3	7994	broad.mit.edu	37	chr8	41798403	41798403	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgagaattggtggcgagcttGaccgagggctttccggctcc	15	10	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:41798403G>C	uc010lxb.2	-	16	3540	c.2996C>G	c.(2995-2997)TCA>TGA	p.S999*	MYST3_uc010lxc.2_Nonsense_Mutation_p.S999*|MYST3_uc003xon.3_Nonsense_Mutation_p.S999*	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	999					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			TGGCGAGCTTGACCGAGGGCT	0.557													11	269	---	---	---	---	PASS	C	41798403	C	C	41798403	4	2	64	1	0	0	0	0	0	1	0	0	10104	1294	45	2	3030	2	MYST3	8	41798403	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2260713	41798403	104565619	272	25215										
BHLHE22	27319	broad.mit.edu	37	chr8	65493498	65493498	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgtccctggcgccgccgcctCgggaacgcccggcgtcctcc	13	20	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:65493498C>T	uc003xvi.2	+	1	685	c.151C>T	c.(151-153)CGG>TGG	p.R51W	LOC401463_uc003xvh.2_Intron	NM_152414	NP_689627	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix domain containing, class	51					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						GCCGCCGCCTCGGGAACGCCC	0.711													10	9	---	---	---	---	PASS	T	65493498	T	T	65493498	3	4	64	1	0	0	0	0	1	0	0	0	1421	875	31	2	153	2	BHLHE22	8	65493498	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	23695095	65493498	80870524	273	25216										
ZFHX4	79776	broad.mit.edu	37	chr8	77768512	77768512	+	Missense_Mutation	SNP	C	T	T													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgaacggtccatcctccttgCcgggatttccacaaaattca					rs61729535	by1000genomes	TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:77768512C>T	uc003yav.2	+	10	9607	c.9220C>T	c.(9220-9222)CCG>TCG	p.P3074S	ZFHX4_uc003yau.1_Missense_Mutation_p.P3119S|ZFHX4_uc003yaw.1_Missense_Mutation_p.P3074S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3074	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATCCTCCTTGCCGGGATTTCC	0.512										HNSCC(33;0.089)			27	59	---	---	---	---	PASS	T	77768512	T	T	77768512	3	4	64	1	0	0	0	0	1	0	0	0	17632	739	26	3	9389	3	ZFHX4	8	77768512	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	12275014	77768512	68595510	274	25217	538	2								
ZFHX4	79776	broad.mit.edu	37	chr8	77768513	77768513	+	Missense_Mutation	SNP	C	T	T													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaacggtccatcctccttgcCgggatttccacaaaattcaa							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:77768513C>T	uc003yav.2	+	10	9608	c.9221C>T	c.(9220-9222)CCG>CTG	p.P3074L	ZFHX4_uc003yau.1_Missense_Mutation_p.P3119L|ZFHX4_uc003yaw.1_Missense_Mutation_p.P3074L	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3074	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCCTCCTTGCCGGGATTTCCA	0.512										HNSCC(33;0.089)			26	58	---	---	---	---	PASS	T	77768513	T	T	77768513	3	4	64	1	0	0	0	0	1	0	0	0	17632	652	23	1	9390	1	ZFHX4	8	77768513	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1	77768513	68595509	275	25218	538	2								
CCNE2	9134	broad.mit.edu	37	chr8	95895093	95895093	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtactggaactctaatgaatCaatggctagaatacacagat	8	7	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:95895093C>T	uc003yhc.2	-	10	968	c.859G>A	c.(859-861)GAT>AAT	p.D287N	CCNE2_uc003yhd.2_Missense_Mutation_p.D287N	NM_057749	NP_477097	O96020	CCNE2_HUMAN	cyclin E2	287					cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	cytosol|nucleoplasm	protein kinase binding				0	Breast(36;8.75e-07)					TCTAATGAATCAATGGCTAGA	0.373													142	123	---	---	---	---	PASS	T	95895093	T	T	95895093	3	4	64	1	0	0	0	0	1	0	0	0	2921	826	29	2	367	2	CCNE2	8	95895093	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	18126580	95895093	50468929	276	25219										
RGS22	26166	broad.mit.edu	37	chr8	101052292	101052292	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atgtcagatcctcccaaggcAccaacatctgacacggtttt	7	13	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:101052292A>C	uc003yjb.1	-	13	2157	c.1962T>G	c.(1960-1962)GGT>GGG	p.G654G	RGS22_uc003yja.1_Silent_p.G473G|RGS22_uc003yjc.1_Silent_p.G642G|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	654					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			CTCCCAAGGCACCAACATCTG	0.358													65	41	---	---	---	---	PASS	C	101052292	C	C	101052292	2	2	64	1	0	0	0	0	0	0	0	1	13305	146	6	5		5	RGS22	8	101052292	Silent	SNP	A	TCGA-34-2600-01A-01D-1522-08	5157199	101052292	45311730	277	25220										
PKHD1L1	93035	broad.mit.edu	37	chr8	110451174	110451174	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	taattttggaaatgaactcaCacaaaacatggcggtgtatg	9	6	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:110451174C>G	uc003yne.2	+	32	3913	c.3809C>G	c.(3808-3810)ACA>AGA	p.T1270R		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1270	Extracellular (Potential).|IPT/TIG 6.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			AATGAACTCACACAAAACATG	0.343										HNSCC(38;0.096)			77	37	---	---	---	---	PASS	G	110451174	G	G	110451174	3	3	64	1	0	0	0	0	1	0	0	0	11972	478	17	4	3935	4	PKHD1L1	8	110451174	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	9398882	110451174	35912848	278	25221										
KLHL38	340359	broad.mit.edu	37	chr8	124658160	124658160	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcccgcccgtcacgtagagtTtgtttcccatcactgtggcc	10	15	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:124658160T>G	uc003yqs.1	-	3	1589	c.1565A>C	c.(1564-1566)AAA>ACA	p.K522T		NM_001081675	NP_001075144	Q2WGJ6	KLH38_HUMAN	kelch-like 38	522											0						CACGTAGAGTTTGTTTCCCAT	0.557													56	76	---	---	---	---	PASS	G	124658160	G	G	124658160	3	3	64	1	0	0	0	0	1	0	0	0	8390	1841	64	5	184	5	KLHL38	8	124658160	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	14206986	124658160	21705862	279	25222										
ADCY8	114	broad.mit.edu	37	chr8	131848603	131848603	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agcagggcatagatggcaatCatgatcagcagcactgccag	12	10	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:131848603C>T	uc003ytd.3	-	12	2851	c.2595G>A	c.(2593-2595)ATG>ATA	p.M865I	ADCY8_uc010mds.2_Missense_Mutation_p.M734I	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	865	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			AGATGGCAATCATGATCAGCA	0.547										HNSCC(32;0.087)			68	64	---	---	---	---	PASS	T	131848603	T	T	131848603	3	4	64	1	0	0	0	0	1	0	0	0	300	826	29	2	1188	2	ADCY8	8	131848603	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	7190443	131848603	14515419	280	25223										
FAM135B	51059	broad.mit.edu	37	chr8	139144901	139144901	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaagagttctgaatccagcaCagcgatgtgagcggctcggc	14	10	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:139144901C>G	uc003yuy.2	-	20	4327	c.4156G>C	c.(4156-4158)GTG>CTG	p.V1386L	FAM135B_uc003yux.2_Missense_Mutation_p.V1287L|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1386										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)			GAATCCAGCACAGCGATGTGA	0.522										HNSCC(54;0.14)			89	170	---	---	---	---	PASS	G	139144901	G	G	139144901	3	3	64	1	0	0	0	0	1	0	0	0	5449	478	17	4	68	4	FAM135B	8	139144901	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	7296298	139144901	7219121	281	25224										
FAM135B	51059	broad.mit.edu	37	chr8	139163465	139163465	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cctctcactgacttcctcatCcaacgtgctggaatgggtag	9	13	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:139163465C>T	uc003yuy.2	-	13	3424	c.3253G>A	c.(3253-3255)GAT>AAT	p.D1085N	FAM135B_uc003yux.2_Missense_Mutation_p.D986N|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.D647N|FAM135B_uc003yvb.2_Missense_Mutation_p.D647N	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1085										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)			ACTTCCTCATCCAACGTGCTG	0.478										HNSCC(54;0.14)			33	50	---	---	---	---	PASS	T	139163465	T	T	139163465	3	4	64	1	0	0	0	0	1	0	0	0	5449	855	30	2	999	2	FAM135B	8	139163465	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	18564	139163465	7200557	282	25225										
FAM135B	51059	broad.mit.edu	37	chr8	139165256	139165256	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	catgtccatatgattttgtgTggccacattctcacctggct	8	11	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:139165256T>A	uc003yuy.2	-	13	1633	c.1462A>T	c.(1462-1464)ACA>TCA	p.T488S	FAM135B_uc003yux.2_Missense_Mutation_p.T389S|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.T50S|FAM135B_uc003yvb.2_Missense_Mutation_p.T50S	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	488										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)			TGATTTTGTGTGGCCACATTC	0.408										HNSCC(54;0.14)			14	65	---	---	---	---	PASS	A	139165256	A	A	139165256	3	1	64	1	0	0	0	0	1	0	0	0	5449	1696	59	5	2790	5	FAM135B	8	139165256	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	1791	139165256	7198766	283	25226										
PTK2	5747	broad.mit.edu	37	chr8	141828991	141828991	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atacttacaccaagagcacaCttgaagcattccttatcaaa	4	11	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:141828991C>A	uc003yvu.2	-	9	1007	c.777G>T	c.(775-777)AAG>AAT	p.K259N	PTK2_uc003yvq.2_5'UTR|PTK2_uc003yvr.2_Missense_Mutation_p.K158N|PTK2_uc003yvs.2_Missense_Mutation_p.K259N|PTK2_uc003yvt.2_Missense_Mutation_p.K281N|PTK2_uc003yvv.2_Missense_Mutation_p.K146N|PTK2_uc011ljr.1_Missense_Mutation_p.K259N	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	259	FERM.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			CAAGAGCACACTTGAAGCATT	0.333													35	173	---	---	---	---	PASS	A	141828991	A	A	141828991	3	1	64	1	0	0	0	0	1	0	0	0	12762	564	20	3	2477	3	PTK2	8	141828991	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2663735	141828991	4535031	284	25227										
EPPK1	83481	broad.mit.edu	37	chr8	144946539	144946539	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaagctcttcttgtggccttCgggcagcaggacaaccccgg	12	13	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:144946539C>T	uc003zaa.1	-	1	896	c.883G>A	c.(883-885)GAA>AAA	p.E295K		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	295	Plectin 6.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TTGTGGCCTTCGGGCAGCAGG	0.692													10	51	---	---	---	---	PASS	T	144946539	T	T	144946539	3	4	64	1	0	0	0	0	1	0	0	0	5190	893	31	2	6383	2	EPPK1	8	144946539	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	3117548	144946539	1417483	285	25228										
OPLAH	26873	broad.mit.edu	37	chr8	145112502	145112502	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccacagcctccagggctttgCgggaggcctcaggggaaagt	15	12	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:145112502C>T	uc003zar.3	-	10	1353	c.1271G>A	c.(1270-1272)CGC>CAC	p.R424H	OPLAH_uc003zas.1_5'Flank|OPLAH_uc003zat.1_3'UTR	NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	424							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	CAGGGCTTTGCGGGAGGCCTC	0.652													3	23	---	---	---	---	PASS	T	145112502	T	T	145112502	3	4	64	1	0	0	0	0	1	0	0	0	10876	768	27	1	2669	1	OPLAH	8	145112502	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	165963	145112502	1251520	286	25229										
GPAA1	8733	broad.mit.edu	37	chr8	145138688	145138688	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agcaccgagtcgcttgtgctCaccgtgccctgtggctctga	12	14	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:145138688C>G	uc003zax.2	+	4	548	c.438C>G	c.(436-438)CTC>CTG	p.L146L	GPAA1_uc003zav.1_Silent_p.L24L|GPAA1_uc003zaw.1_Silent_p.L86L	NM_003801	NP_003792	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment	146	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein complex assembly|protein retention in ER lumen	GPI-anchor transamidase complex	tubulin binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CGCTTGTGCTCACCGTGCCCT	0.672													17	25	---	---	---	---	PASS	G	145138688	G	G	145138688	2	3	64	1	0	0	0	0	0	0	0	1	6587	813	29	2		2	GPAA1	8	145138688	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	26186	145138688	1225334	287	25230										
NFKBIL2	4796	broad.mit.edu	37	chr8	145664053	145664053	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caccttgctccccttccgccGgcccaggtggccctgaagct	10	19	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr8:145664053G>T	uc011llg.1	-	12	1561	c.1546C>A	c.(1546-1548)CGG>AGG	p.R516R	uc011llh.1_Intron	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	516				R -> P (in Ref. 1; AAA85819).	cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CCCTTCCGCCGGCCCAGGTGG	0.706													18	25	---	---	---	---	PASS	T	145664053	T	T	145664053	2	4	64	1	0	0	0	0	0	0	0	1	10382	1115	39	1		1	NFKBIL2	8	145664053	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	525365	145664053	699969	288	25231										
DNAJB5	25822	broad.mit.edu	37	chr9	34996540	34996540	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cagaaccactgtaccctcggCgcaaggtgcaggacccccca	10	17	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:34996540C>A	uc003zvt.2	+	3	628	c.490C>A	c.(490-492)CGC>AGC	p.R164S	DNAJB5_uc003zvs.2_Missense_Mutation_p.R198S|DNAJB5_uc011los.1_Missense_Mutation_p.R236S	NM_012266	NP_036398	O75953	DNJB5_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 5	164					protein folding|response to unfolded protein		heat shock protein binding|unfolded protein binding				0			LUSC - Lung squamous cell carcinoma(32;0.00575)			GTACCCTCGGCGCAAGGTGCA	0.607													85	16	---	---	---	---	PASS	A	34996540	A	A	34996540	3	1	64	1	0	0	0	0	1	0	0	0	4623	768	27	1	716	1	DNAJB5	9	34996540	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08		34996540	106216891	289	25232										
TESK1	7016	broad.mit.edu	37	chr9	35608409	35608409	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cagctggaacccagcacccgTgcccccttcaccgaaattac	7	18	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:35608409T>A	uc003zxa.2	+	9	1239	c.903T>A	c.(901-903)CGT>CGA	p.R301R	TESK1_uc003zwz.1_RNA|TESK1_uc010mks.2_Silent_p.R141R	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	301	Protein kinase.				cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CCAGCACCCGTGCCCCCTTCA	0.597													42	69	---	---	---	---	PASS	A	35608409	A	A	35608409	2	1	64	1	0	0	0	0	0	0	0	1	15764	1683	59	5		5	TESK1	9	35608409	Silent	SNP	T	TCGA-34-2600-01A-01D-1522-08	611869	35608409	105605022	290	25233										
ALDH1B1	219	broad.mit.edu	37	chr9	38396569	38396569	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cctgatccagaaagcagctgGcgattccaacctcaagagag	10	12	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:38396569G>A	uc004aay.2	+	2	936	c.824G>A	c.(823-825)GGC>GAC	p.G275D		NM_000692	NP_000683	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1B1 precursor	275					carbohydrate metabolic process	mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity			skin(1)	1				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)	NADH(DB00157)	AAAGCAGCTGGCGATTCCAAC	0.617													161	57	---	---	---	---	PASS	A	38396569	A	A	38396569	3	1	64	1	0	0	0	0	1	0	0	0	493	1203	42	3	826	3	ALDH1B1	9	38396569	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2788160	38396569	102816862	291	25234										
TMEM2	23670	broad.mit.edu	37	chr9	74340563	74340563	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgagttctggttttgccaaGagctgcaatccactggattc	11	9	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:74340563G>C	uc011lsa.1	-	11	2652	c.2112C>G	c.(2110-2112)CTC>CTG	p.L704L	TMEM2_uc010mos.2_Silent_p.L641L|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	704						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		GTTTTGCCAAGAGCTGCAATC	0.368													60	118	---	---	---	---	PASS	C	74340563	C	C	74340563	2	2	64	1	0	0	0	0	0	0	0	1	16118	929	33	2		2	TMEM2	9	74340563	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	35943994	74340563	66872868	292	25235										
ANXA1	301	broad.mit.edu	37	chr9	75782448	75782448	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcaaaccagctttctttgcaGagaagcttcatcaagccatg	8	11	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:75782448G>T	uc004ajf.1	+	11	912	c.838G>T	c.(838-840)GAG>TAG	p.E280*	ANXA1_uc004aje.1_Nonsense_Mutation_p.E280*|ANXA1_uc004ajg.1_Nonsense_Mutation_p.E280*	NM_000700	NP_000691	P04083	ANXA1_HUMAN	annexin I	280					alpha-beta T cell differentiation|anti-apoptosis|cell surface receptor linked signaling pathway|cellular component movement|inflammatory response|keratinocyte differentiation|lipid metabolic process|peptide cross-linking|positive regulation of vesicle fusion	basolateral plasma membrane|cilium|cornified envelope|cytoplasm|extracellular region|nucleus	calcium ion binding|calcium-dependent phospholipid binding|phospholipase A2 inhibitor activity|protein binding, bridging|receptor binding|structural molecule activity			breast(1)|central_nervous_system(1)	2		all_epithelial(88;2.54e-11)		OV - Ovarian serous cystadenocarcinoma(323;2.82e-06)|GBM - Glioblastoma multiforme(74;0.0325)	Alclometasone(DB00240)|Amcinonide(DB00288)|Beclomethasone(DB00394)|Betamethasone(DB00443)|Clobetasol(DB01013)|Clocortolone(DB00838)|Desonide(DB01260)|Desoximetasone(DB00547)|Dexamethasone(DB01234)|Diflorasone(DB00223)|Flumethasone Pivalate(DB00663)|Halobetasol Propionate(DB00596)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol Etabonate(DB00873)|Methylprednisolone(DB00959)|Mometasone(DB00764)|Prednicarbate(DB01130)|Prednisone(DB00635)|Rimexolone(DB00896)|Triamcinolone(DB00620)	TTTCTTTGCAGAGAAGCTTCA	0.338													63	64	---	---	---	---	PASS	T	75782448	T	T	75782448	4	4	64	1	0	0	0	0	0	1	0	0	714	943	33	2	876	2	ANXA1	9	75782448	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1441885	75782448	65430983	293	25236										
PTCH1	5727	broad.mit.edu	37	chr9	98232122	98232122	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aacagcagaaaatatccagtCtcctgtcctcgcgtcgatat	7	12	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:98232122C>G	uc004avk.3	-	13	2008	c.1820G>C	c.(1819-1821)AGA>ACA	p.R607T	PTCH1_uc010mro.2_Missense_Mutation_p.R456T|PTCH1_uc010mrp.2_Missense_Mutation_p.R456T|PTCH1_uc010mrq.2_Missense_Mutation_p.R456T|PTCH1_uc004avl.3_Missense_Mutation_p.R456T|PTCH1_uc010mrr.2_Missense_Mutation_p.R541T|PTCH1_uc004avm.3_Missense_Mutation_p.R606T|PTCH1_uc010mrs.1_Missense_Mutation_p.R275T	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	607	Cytoplasmic (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				AATATCCAGTCTCCTGTCCTC	0.463									Basal_Cell_Nevus_syndrome				6	182	---	---	---	---	PASS	G	98232122	G	G	98232122	3	3	64	1	0	0	0	0	1	0	0	0	12730	913	32	2	2567	2	PTCH1	9	98232122	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	22449674	98232122	42981309	294	25237										
COL15A1	1306	broad.mit.edu	37	chr9	101830921	101830921	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atattccaatatactcctttGatggtcgagacataatgaca	6	8	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:101830921G>C	uc004azb.1	+	41	4128	c.3922G>C	c.(3922-3924)GAT>CAT	p.D1308H		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1308	Nonhelical region 10 (NC10).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				ATACTCCTTTGATGGTCGAGA	0.393													58	64	---	---	---	---	PASS	C	101830921	C	C	101830921	3	2	64	1	0	0	0	0	1	0	0	0	3672	1290	45	2	4084	2	COL15A1	9	101830921	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3598799	101830921	39382510	295	25238										
OR13C5	138799	broad.mit.edu	37	chr9	107360818	107360818	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tctaagactgtagattaaagGattcatcatgggagtcatca	9	6	5	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:107360818G>T	uc011lvp.1	-	1	877	c.877C>A	c.(877-879)CCT>ACT	p.P293T		NM_001004482	NP_001004482	Q8NGS8	O13C5_HUMAN	olfactory receptor, family 13, subfamily C,	293	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4						TAGATTAAAGGATTCATCATG	0.368													9	127	---	---	---	---	PASS	T	107360818	T	T	107360818	3	4	64	1	0	0	0	0	1	0	0	0	10937	1174	41	2	81	2	OR13C5	9	107360818	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	5529897	107360818	33852613	296	25239										
OR13C5	138799	broad.mit.edu	37	chr9	107361117	107361117	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcaggatgaactcattgcctGagatgtcagcacaggccagt	12	10	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:107361117G>C	uc011lvp.1	-	1	578	c.578C>G	c.(577-579)TCA>TGA	p.S193*		NM_001004482	NP_001004482	Q8NGS8	O13C5_HUMAN	olfactory receptor, family 13, subfamily C,	193	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CTCATTGCCTGAGATGTCAGC	0.388													12	184	---	---	---	---	PASS	C	107361117	C	C	107361117	4	2	64	1	0	0	0	0	0	1	0	0	10937	1294	45	2	380	2	OR13C5	9	107361117	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	299	107361117	33852314	297	25240										
MUSK	4593	broad.mit.edu	37	chr9	113563031	113563031	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgtgggcctatggcgtggtCctctgggagatcttctccta	14	10	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:113563031C>A	uc004bey.2	+	14	2471	c.2373C>A	c.(2371-2373)GTC>GTA	p.V791V	MUSK_uc004bez.1_Silent_p.V371V	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	791	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						ATGGCGTGGTCCTCTGGGAGA	0.522													4	67	---	---	---	---	PASS	A	113563031	A	A	113563031	2	1	64	1	0	0	0	0	0	0	0	1	9989	842	30	2		2	MUSK	9	113563031	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	6201914	113563031	27650400	298	25241										
MUSK	4593	broad.mit.edu	37	chr9	113563049	113563049	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtcctctgggagatcttctcCtatggcctgcagccctacta	9	14	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:113563049C>A	uc004bey.2	+	14	2489	c.2391C>A	c.(2389-2391)TCC>TCA	p.S797S	MUSK_uc004bez.1_Silent_p.S377S	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	797	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						AGATCTTCTCCTATGGCCTGC	0.547													4	68	---	---	---	---	PASS	A	113563049	A	A	113563049	2	1	64	1	0	0	0	0	0	0	0	1	9989	668	24	3		3	MUSK	9	113563049	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	18	113563049	27650382	299	25242										
ZNF483	158399	broad.mit.edu	37	chr9	114305440	114305440	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tagacatcggggatttcactCtgcagagtaatcctggaact	10	9	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:114305440C>T	uc004bff.2	+	6	2449	c.2225C>T	c.(2224-2226)TCT>TTT	p.S742F	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	742					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						GGATTTCACTCTGCAGAGTAA	0.378													5	105	---	---	---	---	PASS	T	114305440	T	T	114305440	3	4	64	1	0	0	0	0	1	0	0	0	17933	913	32	2	2243	2	ZNF483	9	114305440	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	742391	114305440	26907991	300	25243										
RGS3	5998	broad.mit.edu	37	chr9	116346524	116346524	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cggcgccggacgcacagcgaGggcagcctgctgcaggagcc	17	15	0	0	rs149039905		TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:116346524G>T	uc004bhq.2	+	21	3041	c.2832G>T	c.(2830-2832)GAG>GAT	p.E944D	RGS3_uc004bhs.2_Missense_Mutation_p.E834D|RGS3_uc004bht.2_Missense_Mutation_p.E663D|RGS3_uc010muy.2_Intron|RGS3_uc004bhv.2_Missense_Mutation_p.E265D|RGS3_uc010muz.1_Missense_Mutation_p.E283D|RGS3_uc004bhw.2_Intron|RGS3_uc011lxh.1_Missense_Mutation_p.E254D|RGS3_uc004bhx.2_Missense_Mutation_p.E265D|RGS3_uc004bhy.1_Missense_Mutation_p.E254D|RGS3_uc004bhz.2_Missense_Mutation_p.E286D	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	944					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						CGCACAGCGAGGGCAGCCTGC	0.697													15	45	---	---	---	---	PASS	T	116346524	T	T	116346524	3	4	64	1	0	0	0	0	1	0	0	0	13306	991	35	3	3163	3	RGS3	9	116346524	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2041084	116346524	24866907	301	25244										
ASTN2	23245	broad.mit.edu	37	chr9	119249649	119249649	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acatcttacttgtagagaccGtcgggctccagacacttgaa	9	11	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:119249649G>T	uc004bjs.1	-	20	3587	c.3486C>A	c.(3484-3486)GAC>GAA	p.D1162E	ASTN2_uc004bjr.1_Missense_Mutation_p.D1158E|ASTN2_uc004bjt.1_Missense_Mutation_p.D1111E|ASTN2_uc004bjp.1_Missense_Mutation_p.D255E|ASTN2_uc004bjq.1_Missense_Mutation_p.D214E|ASTN2_uc011lxr.1_Missense_Mutation_p.D214E|ASTN2_uc011lxs.1_Missense_Mutation_p.D214E|ASTN2_uc011lxt.1_Missense_Mutation_p.D214E|ASTN2_uc004bjo.1_5'UTR	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	1162	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TGTAGAGACCGTCGGGCTCCA	0.507													61	63	---	---	---	---	PASS	T	119249649	T	T	119249649	3	4	64	1	0	0	0	0	1	0	0	0	1065	1136	40	1	590	1	ASTN2	9	119249649	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2903125	119249649	21963782	302	25245										
TRIM32	22954	broad.mit.edu	37	chr9	119460298	119460298	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttgatacagctgggctcagcGaggctgtggggctgctcatg	16	9	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr9:119460298G>T	uc004bjx.2	+	2	435	c.277G>T	c.(277-279)GAG>TAG	p.E93*	ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjs.1_Intron|ASTN2_uc004bjt.1_Intron|TRIM32_uc004bjw.2_Nonsense_Mutation_p.E93*	NM_001099679	NP_001093149	Q13049	TRI32_HUMAN	tripartite motif-containing 32	93					fat cell differentiation|innate immune response|negative regulation of apoptosis|negative regulation of fibroblast proliferation|positive regulation of cell cycle|positive regulation of cell growth|positive regulation of cell migration|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein catabolic process|positive regulation of proteolysis|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to tumor necrosis factor|response to UV	nucleus	myosin binding|protein self-association|RNA binding|Tat protein binding|transcription coactivator activity|translation initiation factor binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(2)|kidney(1)	3						TGGGCTCAGCGAGGCTGTGGG	0.587									Bardet-Biedl_syndrome				5	107	---	---	---	---	PASS	T	119460298	T	T	119460298	4	4	64	1	0	0	0	0	0	1	0	0	16503	1059	37	2	279	2	TRIM32	9	119460298	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	210649	119460298	21753133	303	25246										
ITIH2	3698	broad.mit.edu	37	chr10	7763616	7763616	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcaccgttctttctaggcgcAcgtctccttcaagcccacgg	8	16	5	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:7763616A>T	uc001ijs.2	+	8	905	c.743A>T	c.(742-744)CAC>CTC	p.H248L		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	248					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						TTCTAGGCGCACGTCTCCTTC	0.582													71	70	---	---	---	---	PASS	T	7763616	T	T	7763616	3	4	64	1	0	0	0	0	1	0	0	0	7904	159	6	5	773	5	ITIH2	10	7763616	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08		7763616	127771131	304	25247										
SVIL	6840	broad.mit.edu	37	chr10	29811396	29811396	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaaggccctcccctgtcggcGttttgatctctccagcagca	10	15	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:29811396G>A	uc001iut.1	-	16	4085	c.3332C>T	c.(3331-3333)ACG>ATG	p.T1111M	SVIL_uc010qdw.1_Missense_Mutation_p.T9M|SVIL_uc001iuu.1_Missense_Mutation_p.T685M	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1111					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				CCCTGTCGGCGTTTTGATCTC	0.517													11	129	---	---	---	---	PASS	A	29811396	A	A	29811396	3	1	64	1	0	0	0	0	1	0	0	0	15418	1145	40	1	3404	1	SVIL	10	29811396	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	22047780	29811396	105723351	305	25248										
KIAA1462	57608	broad.mit.edu	37	chr10	30317688	30317688	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggctgcattcctccatgagcCggctcttgagcagtgacagg	13	12	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:30317688C>G	uc001iux.2	-	2	1448	c.1389G>C	c.(1387-1389)CCG>CCC	p.P463P	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Silent_p.P325P|KIAA1462_uc009xle.1_Silent_p.P463P	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	463										ovary(4)	4						CTCCATGAGCCGGCTCTTGAG	0.512													47	159	---	---	---	---	PASS	G	30317688	G	G	30317688	2	3	64	1	0	0	0	0	0	0	0	1	8234	639	23	4		4	KIAA1462	10	30317688	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	506292	30317688	105217059	306	25249										
ZEB1	6935	broad.mit.edu	37	chr10	31810369	31810369	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aatggttccagaagtagtacAccatccccatcacctctaaa	5	13	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:31810369A>G	uc001ivs.3	+	7	2169	c.2106A>G	c.(2104-2106)ACA>ACG	p.T702T	ZEB1_uc001ivr.3_Silent_p.T484T|ZEB1_uc010qee.1_Silent_p.T484T|ZEB1_uc010qef.1_Silent_p.T484T|ZEB1_uc009xlj.1_Silent_p.T628T|ZEB1_uc010qeg.1_Silent_p.T561T|ZEB1_uc009xlk.1_Silent_p.T484T|ZEB1_uc001ivt.3_Silent_p.T484T|ZEB1_uc001ivu.3_Silent_p.T703T|ZEB1_uc001ivv.3_Silent_p.T682T|ZEB1_uc010qeh.1_Silent_p.T635T|ZEB1_uc009xlo.1_Silent_p.T685T|ZEB1_uc009xlp.2_Silent_p.T686T	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	702					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				GAAGTAGTACACCATCCCCAT	0.463													98	62	---	---	---	---	PASS	G	31810369	G	G	31810369	2	3	64	1	0	0	0	0	0	0	0	1	17620	146	6	5		5	ZEB1	10	31810369	Silent	SNP	A	TCGA-34-2600-01A-01D-1522-08	1492681	31810369	103724378	307	25250										
GJD4	219770	broad.mit.edu	37	chr10	35897272	35897272	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggaggggagggggctggcagCcccaggcgtacatccagggt	20	10	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:35897272C>G	uc001iyy.1	+	2	989	c.831C>G	c.(829-831)AGC>AGG	p.S277R		NM_153368	NP_699199	Q96KN9	CXD4_HUMAN	connexin40.1	277	Cytoplasmic (Potential).				cell communication	connexon complex|integral to membrane				large_intestine(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						GGGCTGGCAGCCCCAGGCGTA	0.706													2	1	---	---	---	---	PASS	G	35897272	G	G	35897272	3	3	64	1	0	0	0	0	1	0	0	0	6419	738	26	4	837	4	GJD4	10	35897272	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	4086903	35897272	99637475	308	25251										
BMS1	9790	broad.mit.edu	37	chr10	43317572	43317572	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gataaatccataaaaattgtGaagaaattaaagctaactgg	7	4	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:43317572G>A	uc001jaj.2	+	19	3430	c.3072G>A	c.(3070-3072)GTG>GTA	p.V1024V		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	1024					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						TAAAAATTGTGAAGAAATTAA	0.294													40	124	---	---	---	---	PASS	A	43317572	A	A	43317572	2	1	64	1	0	0	0	0	0	0	0	1	1472	1277	45	2		2	BMS1	10	43317572	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	7420300	43317572	92217175	309	25252										
CCDC6	8030	broad.mit.edu	37	chr10	61564231	61564231	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgtgtaagggatcgggctgGacacagtgcgaggtcttaat	16	6	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:61564231G>T	uc001jks.3	-	7	1688	c.1052C>A	c.(1051-1053)TCC>TAC	p.S351Y		NM_005436	NP_005427	Q16204	CCDC6_HUMAN	coiled-coil domain containing 6	351						cytoplasm|cytoskeleton	SH3 domain binding|structural constituent of cytoskeleton			ovary(3)|breast(1)	4				Kidney(211;0.0597)		GATCGGGCTGGACACAGTGCG	0.453													60	60	---	---	---	---	PASS	T	61564231	T	T	61564231	3	4	64	1	0	0	0	0	1	0	0	0	2830	1174	41	2	384	2	CCDC6	10	61564231	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	18246659	61564231	73970516	310	25253										
COL13A1	1305	broad.mit.edu	37	chr10	71658503	71658503	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gctccacccccggtcataaaAaggcggacgttccaggtaga	11	13	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:71658503A>C	uc001jpr.1	+	13	1301	c.765A>C	c.(763-765)AAA>AAC	p.K255N	COL13A1_uc001jqj.1_Missense_Mutation_p.K255N|COL13A1_uc001jps.1_Missense_Mutation_p.K226N|COL13A1_uc001jpt.1_Intron|COL13A1_uc001jpu.1_Missense_Mutation_p.K236N|COL13A1_uc001jpv.1_Missense_Mutation_p.K255N|COL13A1_uc001jpx.1_Intron|COL13A1_uc001jpw.1_Intron|COL13A1_uc001jpy.1_Intron|COL13A1_uc001jpz.1_Missense_Mutation_p.K198N|COL13A1_uc001jqa.1_Intron|COL13A1_uc001jqc.1_Missense_Mutation_p.K255N|COL13A1_uc001jqb.1_Intron|COL13A1_uc001jql.2_Missense_Mutation_p.K255N|COL13A1_uc001jqd.1_Missense_Mutation_p.K243N|COL13A1_uc001jqe.1_Missense_Mutation_p.K238N|COL13A1_uc001jqf.1_Missense_Mutation_p.K236N|COL13A1_uc001jqg.1_Intron|COL13A1_uc001jqh.1_Missense_Mutation_p.K255N|COL13A1_uc001jqi.1_Missense_Mutation_p.K255N|COL13A1_uc010qjf.1_Missense_Mutation_p.K45N|COL13A1_uc001jqk.1_Intron	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	255	Extracellular (Potential).|Nonhelical region 2 (NC2).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	CGGTCATAAAAAGGCGGACGT	0.587													11	14	---	---	---	---	PASS	C	71658503	C	C	71658503	3	2	64	1	0	0	0	0	1	0	0	0	3670	11	1	5	819	5	COL13A1	10	71658503	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	10094272	71658503	63876244	311	25254										
CBARA1	10367	broad.mit.edu	37	chr10	74322751	74322751	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gttacaaacatccccttcatCtttattcttccctttatcac	1	14	4	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:74322751C>G	uc001jtb.1	-	3	365	c.232G>C	c.(232-234)GAT>CAT	p.D78H		NM_006077	NP_006068	Q9BPX6	MICU1_HUMAN	calcium binding atopy-related autoantigen 1	78					calcium ion import|defense response|elevation of mitochondrial calcium ion concentration	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			ovary(1)	1						TCCCCTTCATCTTTATTCTTC	0.403													15	47	---	---	---	---	PASS	G	74322751	G	G	74322751	3	3	64	1	0	0	0	0	1	0	0	0	2696	913	32	2	1244	2	CBARA1	10	74322751	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2664248	74322751	61211996	312	25255										
PLCE1	51196	broad.mit.edu	37	chr10	96033438	96033438	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cttcttaaaaacaagaagctAaaagcccatcagacgccagt	6	11	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:96033438A>G	uc001kjk.2	+	19	5260	c.4626A>G	c.(4624-4626)CTA>CTG	p.L1542L	PLCE1_uc010qnx.1_Silent_p.L1526L|PLCE1_uc001kjm.2_Silent_p.L1234L	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1542					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				ACAAGAAGCTAAAAGCCCATC	0.383													32	104	---	---	---	---	PASS	G	96033438	G	G	96033438	2	3	64	1	0	0	0	0	0	0	0	1	12034	349	13	5		5	PLCE1	10	96033438	Silent	SNP	A	TCGA-34-2600-01A-01D-1522-08	21710687	96033438	39501309	313	25256										
ALDH18A1	5832	broad.mit.edu	37	chr10	97393298	97393298	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agctggggggacaacagcatCatttgtgttgacaatgggga	15	6	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:97393298C>T	uc001kkz.2	-	6	909	c.667G>A	c.(667-669)GAT>AAT	p.D223N	ALDH18A1_uc001kky.2_Missense_Mutation_p.D223N|ALDH18A1_uc010qog.1_Missense_Mutation_p.D112N|ALDH18A1_uc010qoh.1_Missense_Mutation_p.D11N	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	223	Glutamate 5-kinase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)	ACAACAGCATCATTTGTGTTG	0.468													4	161	---	---	---	---	PASS	T	97393298	T	T	97393298	3	4	64	1	0	0	0	0	1	0	0	0	489	826	29	2	1772	2	ALDH18A1	10	97393298	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1359860	97393298	38141449	314	25257										
GOT1	2805	broad.mit.edu	37	chr10	101190260	101190260	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcctccctgaagtcggcagtGagcttgaagaccaggacagg	13	11	0	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:101190260G>T	uc001kpr.2	-	1	271	c.63C>A	c.(61-63)CTC>CTA	p.L21L	GOT1_uc009xwh.2_RNA|GOT1_uc009xwi.2_Silent_p.L21L	NM_002079	NP_002070	P17174	AATC_HUMAN	aspartate aminotransferase 1	21					aspartate catabolic process|cellular response to insulin stimulus|gluconeogenesis|response to glucocorticoid stimulus	cytosol	L-aspartate:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding				0		Ovarian(717;0.028)|Colorectal(252;0.234)		Epithelial(162;4.76e-10)|all cancers(201;3.84e-08)	L-Aspartic Acid(DB00128)|L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AGTCGGCAGTGAGCTTGAAGA	0.597													12	141	---	---	---	---	PASS	T	101190260	T	T	101190260	2	4	64	1	0	0	0	0	0	0	0	1	6579	1277	45	2		2	GOT1	10	101190260	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	3796962	101190260	34344487	315	25258										
NOLC1	9221	broad.mit.edu	37	chr10	103920360	103920360	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggcggtggccagaagcttctGacgagaaaggctgacagcag	16	9	1	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:103920360G>C	uc001kuo.2	+	10	1486	c.1251G>C	c.(1249-1251)CTG>CTC	p.L417L	NOLC1_uc001kup.2_Silent_p.L427L|NOLC1_uc001kuq.2_Silent_p.L418L|NOLC1_uc009xxb.1_Silent_p.L136L|NOLC1_uc001kur.2_Silent_p.L136L	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	417	Nuclear localization signal (Potential).|11 X 12 AA approximate repeats of an acidic serine cluster.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		AGAAGCTTCTGACGAGAAAGG	0.562													21	50	---	---	---	---	PASS	C	103920360	C	C	103920360	2	2	64	1	0	0	0	0	0	0	0	1	10529	1277	45	2		2	NOLC1	10	103920360	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	2730100	103920360	31614387	316	25259										
NOLC1	9221	broad.mit.edu	37	chr10	103921374	103921374	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcagagactcctcaggccaaGaagataaagcttcagacccc	9	13	2	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:103921374G>A	uc001kuo.2	+	11	2038	c.1803G>A	c.(1801-1803)AAG>AAA	p.K601K	NOLC1_uc001kup.2_Silent_p.K611K|NOLC1_uc001kuq.2_Silent_p.K602K|NOLC1_uc009xxb.1_Silent_p.K320K|NOLC1_uc001kur.2_Silent_p.K320K	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	601	Nuclear localization signal (Potential).				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		CTCAGGCCAAGAAGATAAAGC	0.388													20	58	---	---	---	---	PASS	A	103921374	A	A	103921374	2	1	64	1	0	0	0	0	0	0	0	1	10529	933	33	2		2	NOLC1	10	103921374	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	1014	103921374	31613373	317	25260										
NOLC1	9221	broad.mit.edu	37	chr10	103921912	103921912	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gagcgagccaatcaggttttGaagttcaccaaaggcaagtc	11	9	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:103921912G>A	uc001kuo.2	+	13	2221	c.1986G>A	c.(1984-1986)TTG>TTA	p.L662L	NOLC1_uc001kup.2_Silent_p.L672L|NOLC1_uc001kuq.2_Silent_p.L663L|NOLC1_uc009xxb.1_Silent_p.L381L|NOLC1_uc001kur.2_Silent_p.L381L	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	662					mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		ATCAGGTTTTGAAGTTCACCA	0.532													104	327	---	---	---	---	PASS	A	103921912	A	A	103921912	2	1	64	1	0	0	0	0	0	0	0	1	10529	1281	45	2		2	NOLC1	10	103921912	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	538	103921912	31612835	318	25261										
SH3PXD2A	9644	broad.mit.edu	37	chr10	105363329	105363329	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gctcctcatacttgagcttcCgcggggagtcctggctctca	11	14	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:105363329C>T	uc001kxj.1	-	14	1702	c.1562G>A	c.(1561-1563)CGG>CAG	p.R521Q	SH3PXD2A_uc010qqr.1_Intron|SH3PXD2A_uc010qqs.1_Missense_Mutation_p.R356Q|SH3PXD2A_uc010qqt.1_Missense_Mutation_p.R398Q|SH3PXD2A_uc009xxn.1_Missense_Mutation_p.R356Q|SH3PXD2A_uc010qqu.1_Missense_Mutation_p.R464Q	NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	549					cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)		CTTGAGCTTCCGCGGGGAGTC	0.667													24	125	---	---	---	---	PASS	T	105363329	T	T	105363329	3	4	64	1	0	0	0	0	1	0	0	0	14256	652	23	1	1759	1	SH3PXD2A	10	105363329	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1441417	105363329	30171418	319	25262										
OBFC1	79991	broad.mit.edu	37	chr10	105677328	105677328	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gagggaaggggtctcctcttCacaccggctggatccaggct	14	12	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:105677328C>A	uc001kxl.2	-	1	100	c.25G>T	c.(25-27)GAA>TAA	p.E9*	OBFC1_uc001kxm.2_Nonsense_Mutation_p.E9*|OBFC1_uc001kxn.2_RNA	NM_024928	NP_079204	Q9H668	STN1_HUMAN	oligonucleotide/oligosaccharide-binding fold	9					positive regulation of DNA replication|telomere maintenance via telomere lengthening		protein binding|single-stranded telomeric DNA binding			ovary(1)	1		Colorectal(252;0.178)		Epithelial(162;3.39e-10)|all cancers(201;1.32e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0151)		GTCTCCTCTTCACACCGGCTG	0.527													86	70	---	---	---	---	PASS	A	105677328	A	A	105677328	4	1	64	1	0	0	0	0	0	1	0	0	10807	835	29	2	1117	2	OBFC1	10	105677328	Nonsense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	313999	105677328	29857419	320	25263										
TCERG1L	256536	broad.mit.edu	37	chr10	132965127	132965127	+	Missense_Mutation	SNP	C	T	T													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gggcaggagggcgggccactCggccccgctctgtccttgta							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:132965127C>T	uc001lkp.2	-	5	964	c.878G>A	c.(877-879)CGA>CAA	p.R293Q	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	293										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		GCGGGCCACTCGGCCCCGCTC	0.512													16	53	---	---	---	---	PASS	T	132965127	T	T	132965127	3	4	64	1	0	0	0	0	1	0	0	0	15683	884	31	2	914	2	TCERG1L	10	132965127	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	27287799	132965127	2569620	321	25264	539	2								
TCERG1L	256536	broad.mit.edu	37	chr10	132965137	132965137	+	Missense_Mutation	SNP	C	T	T													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcgggccactcggccccgctCtgtccttgtatctgttgggc							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr10:132965137C>T	uc001lkp.2	-	5	954	c.868G>A	c.(868-870)GAG>AAG	p.E290K	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	290										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		CGGCCCCGCTCTGTCCTTGTA	0.527													16	53	---	---	---	---	PASS	T	132965137	T	T	132965137	3	4	64	1	0	0	0	0	1	0	0	0	15683	922	32	2	924	2	TCERG1L	10	132965137	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	10	132965137	2569610	322	25265	539	2								
HRAS	3265	broad.mit.edu	37	chr11	533875	533875	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	catggcgctgtactcctcctGgccggcggtatccaggatgt	13	13	0	0	rs28933406		TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:533875G>T	uc001lpv.2	-	3	369	c.181C>A	c.(181-183)CAG>AAG	p.Q61K	HRAS_uc010qvw.1_Missense_Mutation_p.Q61K|HRAS_uc010qvx.1_Missense_Mutation_p.Q61K|HRAS_uc010qvy.1_RNA	NM_005343	NP_005334	P01112	RASH_HUMAN	v-Ha-ras Harvey rat sarcoma viral oncogene	61	GTP.		Q -> L (in melanoma; strongly reduced GTP hydrolysis in the presence of RAF1; increases transformation of cultured cell lines).	Q->V: Strongly increased transformation of cultured cell lines.|Q->I: Moderately increased transformation of cultured cell lines.	activation of MAPKK activity|axon guidance|blood coagulation|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|Ras protein signal transduction|synaptic transmission	cytosol|Golgi membrane|plasma membrane	GTP binding|GTPase activity|protein C-terminus binding	p.Q61R(112)|p.Q61L(91)|p.Q61K(39)|p.Q61H(20)|p.Q61P(3)|p.Q61Q(1)|p.Q61E(1)		urinary_tract(174)|thyroid(155)|skin(126)|upper_aerodigestive_tract(112)|soft_tissue(37)|prostate(29)|salivary_gland(24)|cervix(23)|stomach(14)|pituitary(10)|lung(9)|haematopoietic_and_lymphoid_tissue(9)|breast(6)|testis(5)|endometrium(4)|bone(3)|large_intestine(2)|oesophagus(2)|penis(2)|kidney(1)|adrenal_gland(1)|thymus(1)	749		all_cancers(49;4.37e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;7.63e-28)|Epithelial(43;7.29e-27)|OV - Ovarian serous cystadenocarcinoma(40;7.15e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Sulindac(DB00605)	TACTCCTCCTGGCCGGCGGTA	0.597		6	Mis		infrequent sarcomas|rare other types	rhadomyosarcoma|ganglioneuroblastoma|bladder			Costello_syndrome	HNSCC(11;0.0054)			25	72	---	---	---	---	PASS	T	533875	T	T	533875	3	4	64	1	0	0	0	0	1	0	0	0	7348	1357	47	3	467	3	HRAS	11	533875	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08		533875	134472641	323	25266										
MUC6	4588	broad.mit.edu	37	chr11	1017189	1017189	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaatggtgcctgttggcattGagtggatggaggcagaagtg	18	4	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:1017189G>C	uc001lsw.2	-	31	5663	c.5612C>G	c.(5611-5613)TCA>TGA	p.S1871*		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1871	Thr-rich.|2.|Approximate repeats.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGTTGGCATTGAGTGGATGGA	0.572													18	438	---	---	---	---	PASS	C	1017189	C	C	1017189	4	2	64	1	0	0	0	0	0	1	0	0	9980	1294	45	2	1719	2	MUC6	11	1017189	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	483314	1017189	133989327	324	25267										
MUC2	4583	broad.mit.edu	37	chr11	1104220	1104220	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cgggctccccaccggcacctCccgccgggcccggcgctccc	12	24	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:1104220C>T	uc001lsx.1	+	52	15524	c.15497C>T	c.(15496-15498)TCC>TTC	p.S5166F		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	5166						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	ACCGGCACCTCCCGCCGGGCC	0.706													3	13	---	---	---	---	PASS	T	1104220	T	T	1104220	3	4	64	1	0	0	0	0	1	0	0	0	9975	855	30	2	8597	2	MUC2	11	1104220	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	87031	1104220	133902296	325	25268										
MRPL23	6150	broad.mit.edu	37	chr11	1977643	1977643	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cggcgtccccagctggttcgGgctgtgacggggtggccagc	18	13	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:1977643G>T	uc001lux.2	+	5	546	c.455G>T	c.(454-456)GGG>GTG	p.G152V		NM_021134	NP_066957	Q16540	RM23_HUMAN	mitochondrial ribosomal protein L23	152					translation	mitochondrial large ribosomal subunit	nucleotide binding|RNA binding|structural constituent of ribosome			large_intestine(2)|ovary(1)	3		all_epithelial(84;6.24e-05)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.0026)|Lung(200;0.0171)|LUSC - Lung squamous cell carcinoma(625;0.0842)		AGCTGGTTCGGGCTGTGACGG	0.736													32	3	---	---	---	---	PASS	T	1977643	T	T	1977643	3	4	64	1	0	0	0	0	1	0	0	0	9789	1232	43	3	473	3	MRPL23	11	1977643	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	873423	1977643	133028873	326	25269										
OR51I1	390063	broad.mit.edu	37	chr11	5462615	5462615	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cagagtgagaatgctgaggtTacctacaatggagatcatgt	12	6	1	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:5462615T>A	uc010qze.1	-	1	130	c.130A>T	c.(130-132)AAC>TAC	p.N44Y	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,	44	Helical; Name=1; (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)		ATGCTGAGGTTACCTACAATG	0.512													90	14	---	---	---	---	PASS	A	5462615	A	A	5462615	3	1	64	1	0	0	0	0	1	0	0	0	11100	1754	61	5	818	5	OR51I1	11	5462615	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	3484972	5462615	129543901	327	25270										
OR52N4	390072	broad.mit.edu	37	chr11	5776473	5776473	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tactttcctcaccaagctccTgccctactgcagaggcaata	6	15	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:5776473T>A	uc001mbu.2	+	1	551	c.503T>A	c.(502-504)CTG>CAG	p.L168Q	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005175	NP_001005175	Q8NGI2	O52N4_HUMAN	olfactory receptor, family 52, subfamily N,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;1.87e-10)|LUSC - Lung squamous cell carcinoma(625;0.114)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.197)		ACCAAGCTCCTGCCCTACTGC	0.463													165	23	---	---	---	---	PASS	A	5776473	A	A	5776473	3	1	64	1	0	0	0	0	1	0	0	0	11129	1580	55	5	505	5	OR52N4	11	5776473	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	313858	5776473	129230043	328	25271										
OR52N5	390075	broad.mit.edu	37	chr11	5799007	5799007	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agaagaagataaagattagcCacaatgatgtgaagagaagg	12	3	0	7			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:5799007C>A	uc010qzn.1	-	1	858	c.858G>T	c.(856-858)GTG>GTT	p.V286V	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001922	NP_001001922	Q8NH56	O52N5_HUMAN	olfactory receptor, family 52, subfamily N,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		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)		AAAGATTAGCCACAATGATGT	0.418													81	14	---	---	---	---	PASS	A	5799007	A	A	5799007	2	1	64	1	0	0	0	0	0	0	0	1	11130	581	21	3		3	OR52N5	11	5799007	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	22534	5799007	129207509	329	25272										
C11orf58	10944	broad.mit.edu	37	chr11	16760341	16760341	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caaggatgagtgctgccagaGagtctcacccgcatggggtg	15	10	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:16760341G>C	uc001mmk.2	+	1	194	c.16G>C	c.(16-18)GAG>CAG	p.E6Q	C11orf58_uc010rct.1_5'UTR|SOX6_uc001mmh.1_5'Flank	NM_014267	NP_055082	O00193	SMAP_HUMAN	small acidic protein isoform a	6											0						TGCTGCCAGAGAGTCTCACCC	0.577													9	47	---	---	---	---	PASS	C	16760341	C	C	16760341	3	2	64	1	0	0	0	0	1	0	0	0	1651	943	33	2	18	2	C11orf58	11	16760341	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	10961334	16760341	118246175	330	25273										
NAV2	89797	broad.mit.edu	37	chr11	20065530	20065530	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agagtctctgtccacagactGatgctgagaagcactcacag	10	11	2	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:20065530G>A	uc010rdm.1	+	14	3341	c.2980G>A	c.(2980-2982)GAT>AAT	p.D994N	NAV2_uc001mpp.2_Missense_Mutation_p.D907N|NAV2_uc001mpr.3_Missense_Mutation_p.D971N|NAV2_uc001mpt.2_Missense_Mutation_p.D57N|NAV2_uc009yhx.2_Missense_Mutation_p.D57N|NAV2_uc009yhy.1_5'UTR	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	994						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						TCCACAGACTGATGCTGAGAA	0.507													89	21	---	---	---	---	PASS	A	20065530	A	A	20065530	3	1	64	1	0	0	0	0	1	0	0	0	10184	1290	45	2	3070	2	NAV2	11	20065530	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3305189	20065530	114940986	331	25274										
OR4A15	81328	broad.mit.edu	37	chr11	55136358	55136358	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aggaaactttggagtaaaaaAgtaagcttagctgggaaatg	12	3	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:55136358A>T	uc010rif.1	+	1	999	c.999A>T	c.(997-999)AAA>AAT	p.K333N		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	333	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GGAGTAAAAAAGTAAGCTTAG	0.368													155	29	---	---	---	---	PASS	T	55136358	T	T	55136358	3	4	64	1	0	0	0	0	1	0	0	0	11040	69	3	5	1001	5	OR4A15	11	55136358	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	35070828	55136358	79870158	332	25275										
OR5F1	338674	broad.mit.edu	37	chr11	55761942	55761942	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atacatgggtgtgtgaagctGggaatcgatcctgattaaga	13	5	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:55761942G>A	uc010riv.1	-	1	160	c.160C>T	c.(160-162)CAG>TAG	p.Q54*		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					GTGTGAAGCTGGGAATCGATC	0.418													59	15	---	---	---	---	PASS	A	55761942	A	A	55761942	4	1	64	1	0	0	0	0	0	1	0	0	11158	1357	47	3	787	3	OR5F1	11	55761942	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	625584	55761942	79244574	333	25276										
BEST1	7439	broad.mit.edu	37	chr11	61730176	61730176	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaaaagttttgaattgctctCagagagcgatggggccttga	13	6	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:61730176C>T	uc001nss.2	+	10	2130	c.1550C>T	c.(1549-1551)TCA>TTA	p.S517L	BEST1_uc010rlq.1_3'UTR|BEST1_uc010rlr.1_3'UTR|BEST1_uc010rls.1_Missense_Mutation_p.S145L|BEST1_uc001nsr.2_Missense_Mutation_p.S457L|BEST1_uc009ynt.2_RNA|BEST1_uc010rlt.1_Missense_Mutation_p.S457L|BEST1_uc001nst.2_Missense_Mutation_p.S430L|BEST1_uc010rlu.1_3'UTR|BEST1_uc010rlv.1_Missense_Mutation_p.S411L	NM_004183	NP_004174	O76090	BEST1_HUMAN	bestrophin 1 isoform 1	517	Cytoplasmic (Potential).				response to stimulus|transepithelial chloride transport|visual perception	basolateral plasma membrane|chloride channel complex|cytosol|membrane fraction	chloride channel activity			central_nervous_system(1)	1						GAATTGCTCTCAGAGAGCGAT	0.478													6	75	---	---	---	---	PASS	T	61730176	T	T	61730176	3	4	64	1	0	0	0	0	1	0	0	0	1404	838	29	2	1584	2	BEST1	11	61730176	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	5968234	61730176	73276340	334	25277										
GPR137	56834	broad.mit.edu	37	chr11	64056748	64056748	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gccaagtttgtctgccgcttCttgcccaggatcctgggggt	13	12	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:64056748C>G	uc001nzg.1	+	8	1473	c.1165C>G	c.(1165-1167)CTT>GTT	p.L389V	GPR137_uc010rni.1_Missense_Mutation_p.L447V|GPR137_uc001nzf.2_3'UTR|GPR137_uc001nzi.2_3'UTR|GPR137_uc010rnj.1_3'UTR|KCNK4_uc009ypl.1_5'Flank|KCNK4_uc001nzj.1_5'Flank|KCNK4_uc001nzk.1_5'Flank|KCNK4_uc010rnk.1_5'Flank|KCNK4_uc001nzl.1_5'Flank|KCNK4_uc001nzm.3_5'Flank|KCNK4_uc001nzn.1_5'Flank	NM_020155	NP_064540	Q96N19	G137A_HUMAN	G protein-coupled receptor 137	389	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(1)	1						TCTGCCGCTTCTTGCCCAGGA	0.652													27	173	---	---	---	---	PASS	G	64056748	G	G	64056748	3	3	64	1	0	0	0	0	1	0	0	0	6645	913	32	2	1479	2	GPR137	11	64056748	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2326572	64056748	70949768	335	25278										
CPT1A	1374	broad.mit.edu	37	chr11	68575083	68575083	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcacgccgctgaccacgttcTtcgtctggctggacatgcag	12	14	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:68575083T>G	uc001oog.3	-	4	475	c.305A>C	c.(304-306)AAG>ACG	p.K102T	CPT1A_uc001oof.3_Missense_Mutation_p.K102T|CPT1A_uc009ysj.2_Missense_Mutation_p.K102T	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	102	Mitochondrial intermembrane (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	GACCACGTTCTTCGTCTGGCT	0.632													33	9	---	---	---	---	PASS	G	68575083	G	G	68575083	3	3	64	1	0	0	0	0	1	0	0	0	3831	1609	56	5	2120	5	CPT1A	11	68575083	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	4518335	68575083	66431433	336	25279										
HEPHL1	341208	broad.mit.edu	37	chr11	93803539	93803539	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tggttttcctctgttctgcaGctggtatgctggggcaatac	12	9	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:93803539G>T	uc001pep.2	+	6	1221	c.1064_splice	c.e6-1	p.A355_splice	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor						copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				CTGTTCTGCAGCTGGTATGCT	0.303													10	1	---	---	---	---	PASS	T	93803539	T	T	93803539	5	4	64	1	0	0	0	0	0	0	1	0	7055	985	34	3	1085	3	HEPHL1	11	93803539	Splice_Site	SNP	G	TCGA-34-2600-01A-01D-1522-08	25228456	93803539	41202977	337	25280										
CADM1	23705	broad.mit.edu	37	chr11	115102104	115102104	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgttccctttgaaccacctGatagtcgtggctggcttgct	11	11	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:115102104G>A	uc001ppi.3	-	4	660	c.531C>T	c.(529-531)ATC>ATT	p.I177I	CADM1_uc001ppf.3_Silent_p.I177I|CADM1_uc001ppk.3_Silent_p.I177I|CADM1_uc001ppj.3_Silent_p.I177I|CADM1_uc001ppl.2_Silent_p.I177I	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	177	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		TGAACCACCTGATAGTCGTGG	0.463													35	87	---	---	---	---	PASS	A	115102104	A	A	115102104	2	1	64	1	0	0	0	0	0	0	0	1	2566	1280	45	2		2	CADM1	11	115102104	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	21298565	115102104	19904412	338	25281										
SIDT2	51092	broad.mit.edu	37	chr11	117062730	117062730	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttcttctctgtgctgggcgtGgtgagggcctgacctgctct	14	11	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:117062730G>C	uc001pqh.1	+	19	1913	c.1872G>C	c.(1870-1872)GTG>GTC	p.V624V	SIDT2_uc010rxe.1_Silent_p.V624V|SIDT2_uc001pqg.2_Silent_p.V645V|SIDT2_uc001pqi.1_Silent_p.V621V|SIDT2_uc001pqj.1_5'Flank	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	624	Helical; (Potential).					integral to membrane|lysosomal membrane					0	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;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		TGCTGGGCGTGGTGAGGGCCT	0.592													82	29	---	---	---	---	PASS	C	117062730	C	C	117062730	2	2	64	1	0	0	0	0	0	0	0	1	14303	1362	47	4		4	SIDT2	11	117062730	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	1960626	117062730	17943786	339	25282										
OR8B4	283162	broad.mit.edu	37	chr11	124294657	124294657	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cccaagttgcccaccacagtGaacacatagatccctaagaa	6	14	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:124294657G>A	uc010sak.1	-	1	111	c.111C>T	c.(109-111)TTC>TTT	p.F37F		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	37	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		CCACCACAGTGAACACATAGA	0.448													9	72	---	---	---	---	PASS	A	124294657	A	A	124294657	2	1	64	1	0	0	0	0	0	0	0	1	11229	1281	45	2		2	OR8B4	11	124294657	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	7231927	124294657	10711859	340	25283										
OR8B12	219858	broad.mit.edu	37	chr11	124413109	124413109	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cccagcaaaccccatcccatAggcacccaacaaaaggagca	6	17	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr11:124413109A>G	uc010sam.1	-	1	442	c.442T>C	c.(442-444)TAT>CAT	p.Y148H		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		CCCATCCCATAGGCACCCAAC	0.517													47	15	---	---	---	---	PASS	G	124413109	G	G	124413109	3	3	64	1	0	0	0	0	1	0	0	0	11226	420	15	5	492	5	OR8B12	11	124413109	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	118452	124413109	10593407	341	25284										
B4GALNT3	283358	broad.mit.edu	37	chr12	667770	667770	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	actgtgtggagggaaagatgGcctttgcccccatggtgatg	15	8	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:667770G>T	uc001qii.1	+	18	2704	c.2704G>T	c.(2704-2706)GCC>TCC	p.A902S	B4GALNT3_uc001qik.1_Missense_Mutation_p.A451S	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	902	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			GGGAAAGATGGCCTTTGCCCC	0.597													4	119	---	---	---	---	PASS	T	667770	T	T	667770	3	4	64	1	0	0	0	0	1	0	0	0	1268	1203	42	3	2774	3	B4GALNT3	12	667770	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08		667770	133184125	342	25285										
DUSP16	80824	broad.mit.edu	37	chr12	12653560	12653560	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agaaatgcaggtagggactaGagtggattttccttcacaga	12	6	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:12653560G>C	uc001rao.1	-	4	1056	c.424C>G	c.(424-426)CTA>GTA	p.L142V	DUSP16_uc001ran.1_Intron	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	142					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		GTAGGGACTAGAGTGGATTTT	0.443													13	62	---	---	---	---	PASS	C	12653560	C	C	12653560	3	2	64	1	0	0	0	0	1	0	0	0	4816	933	33	2	1589	2	DUSP16	12	12653560	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	11985790	12653560	121198335	343	25286										
GRIN2B	2904	broad.mit.edu	37	chr12	14019133	14019133	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gggagaacagcactccgctcTgggcttcatcttcaactcgt	10	13	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:14019133T>C	uc001rbt.2	-	2	189	c.10A>G	c.(10-12)AGA>GGA	p.R4G		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	4					response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CACTCCGCTCTGGGCTTCATC	0.517													47	20	---	---	---	---	PASS	C	14019133	C	C	14019133	3	2	64	1	0	0	0	0	1	0	0	0	6780	1588	55	5	4492	5	GRIN2B	12	14019133	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	1365573	14019133	119832762	344	25287										
PTPRO	5800	broad.mit.edu	37	chr12	15747918	15747918	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgcaactgatgtggatgaaGaagaagcagcagttctgcat	13	6	1	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:15747918G>A	uc001rcv.1	+	26	3768	c.3594G>A	c.(3592-3594)AAG>AAA	p.K1198K	PTPRO_uc001rcw.1_Silent_p.K1170K|PTPRO_uc001rcx.1_Silent_p.K387K|PTPRO_uc001rcy.1_Silent_p.K387K|PTPRO_uc001rcz.1_Silent_p.K359K|PTPRO_uc001rda.1_Silent_p.K359K	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	1198	Cytoplasmic (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)				TGTGGATGAAGAAGAAGCAGC	0.423													23	63	---	---	---	---	PASS	A	15747918	A	A	15747918	2	1	64	1	0	0	0	0	0	0	0	1	12809	933	33	2		2	PTPRO	12	15747918	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	1728785	15747918	118103977	345	25288										
PDE3A	5139	broad.mit.edu	37	chr12	20783030	20783030	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgccccagacctatcccctCaaatcctgactccacctgtt	5	18	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:20783030C>G	uc001reh.1	+	6	1751	c.1729C>G	c.(1729-1731)CAA>GAA	p.Q577E		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	577					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	CCTATCCCCTCAAATCCTGAC	0.423													86	235	---	---	---	---	PASS	G	20783030	G	G	20783030	3	3	64	1	0	0	0	0	1	0	0	0	11637	827	29	2	1751	2	PDE3A	12	20783030	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	5035112	20783030	113068865	346	25289										
LST-3TM12	338821	broad.mit.edu	37	chr12	21205082	21205082	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cactttcttattgcaactcaGagtgcaattgtgatgaaagt	8	7	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:21205082G>T	uc010sin.1	+	9	1243	c.1243G>T	c.(1243-1245)GAG>TAG	p.E415*	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Nonsense_Mutation_p.E462*	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	415						membrane	transporter activity				0						TTGCAACTCAGAGTGCAATTG	0.333													41	152	---	---	---	---	PASS	T	21205082	T	T	21205082	4	4	64	1	0	0	0	0	0	1	0	0	9066	943	33	2	1277	2	LST-3TM12	12	21205082	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	422052	21205082	112646813	347	25290										
IPO8	10526	broad.mit.edu	37	chr12	30806004	30806004	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caggttaaactgtatgccagGgaaagaatttcttcatagaa	9	6	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:30806004G>A	uc001rjd.2	-	18	2141	c.1971C>T	c.(1969-1971)TCC>TCT	p.S657S	IPO8_uc001rje.1_Silent_p.S146S|IPO8_uc010sjt.1_Silent_p.S452S	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	657					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					TGTATGCCAGGGAAAGAATTT	0.363													29	73	---	---	---	---	PASS	A	30806004	A	A	30806004	2	1	64	1	0	0	0	0	0	0	0	1	7798	1219	43	3		3	IPO8	12	30806004	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	9600922	30806004	103045891	348	25291										
OR8S1	341568	broad.mit.edu	37	chr12	48919625	48919625	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtcacctctcttttgttgatCtctgcttctcttcagtcatt	5	12	6	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:48919625C>G	uc010slu.1	+	1	211	c.211C>G	c.(211-213)CTC>GTC	p.L71V		NM_001005203	NP_001005203	Q8NH09	OR8S1_HUMAN	olfactory receptor, family 8, subfamily S,	71	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TTTTGTTGATCTCTGCTTCTC	0.473													19	141	---	---	---	---	PASS	G	48919625	G	G	48919625	3	3	64	1	0	0	0	0	1	0	0	0	11246	913	32	2	213	2	OR8S1	12	48919625	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	18113621	48919625	84932270	349	25292										
PRPF40B	25766	broad.mit.edu	37	chr12	50028964	50028964	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aggaggagaaggaggaggccCggctaagggccaaagaggcc	19	8	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:50028964C>A	uc001rur.1	+	12	1082	c.1018C>A	c.(1018-1020)CGG>AGG	p.R340R	PRPF40B_uc001rup.1_Silent_p.R362R|PRPF40B_uc001ruq.1_Silent_p.R334R|PRPF40B_uc001rus.1_Silent_p.R283R	NM_001031698	NP_001026868	Q6NWY9	PR40B_HUMAN	Huntingtin interacting protein C isoform 1	340					mRNA processing|RNA splicing	nuclear speck				skin(2)|ovary(1)|pancreas(1)|kidney(1)	5						GGAGGAGGCCCGGCTAAGGGC	0.597													33	79	---	---	---	---	PASS	A	50028964	A	A	50028964	2	1	64	1	0	0	0	0	0	0	0	1	12572	643	23	1		1	PRPF40B	12	50028964	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	1109339	50028964	83822931	350	25293										
ACVRL1	94	broad.mit.edu	37	chr12	52307358	52307358	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctcagccacccaacctccttCggagcagccgggaacagatg	10	16	1	1	rs143872998		TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:52307358C>T	uc001rzj.2	+	4	612	c.329C>T	c.(328-330)TCG>TTG	p.S110L	ACVRL1_uc001rzk.2_Missense_Mutation_p.S110L|ACVRL1_uc010snm.1_Intron	NM_000020	NP_000011	P37023	ACVL1_HUMAN	activin A receptor type II-like 1 precursor	110	Extracellular (Potential).				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|blood vessel maturation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of endothelial cell migration|negative regulation of focal adhesion assembly|positive regulation of BMP signaling pathway|positive regulation of transcription, DNA-dependent|regulation of blood pressure|regulation of blood vessel endothelial cell migration|regulation of DNA replication|regulation of endothelial cell proliferation|transforming growth factor beta receptor signaling pathway|wound healing, spreading of epidermal cells	cell surface|integral to plasma membrane	activin binding|activin receptor activity, type I|ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0991)	Adenosine triphosphate(DB00171)	CAACCTCCTTCGGAGCAGCCG	0.672									Hereditary_Hemorrhagic_Telangiectasia				3	35	---	---	---	---	PASS	T	52307358	T	T	52307358	3	4	64	1	0	0	0	0	1	0	0	0	225	893	31	2	339	2	ACVRL1	12	52307358	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2278394	52307358	81544537	351	25294										
TMEM5	10329	broad.mit.edu	37	chr12	64202821	64202821	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttcaagacagagcttaaaatGaaatttactaatattttaga	5	4	1	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:64202821G>A	uc001srq.1	+	6	1385	c.1281G>A	c.(1279-1281)ATG>ATA	p.M427I	TMEM5_uc001srr.1_Missense_Mutation_p.M324I|TMEM5_uc001srs.1_Missense_Mutation_p.M167I	NM_014254	NP_055069	Q9Y2B1	TMEM5_HUMAN	transmembrane protein 5	427	Extracellular (Potential).					integral to plasma membrane					0		Myeloproliferative disorder(1001;0.0255)	BRCA - Breast invasive adenocarcinoma(9;0.0985)	GBM - Glioblastoma multiforme(28;9e-08)|BRCA - Breast invasive adenocarcinoma(357;0.000175)		AGCTTAAAATGAAATTTACTA	0.239													4	53	---	---	---	---	PASS	A	64202821	A	A	64202821	3	1	64	1	0	0	0	0	1	0	0	0	16171	1290	45	2	1303	2	TMEM5	12	64202821	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	11895463	64202821	69649074	352	25295										
LEMD3	23592	broad.mit.edu	37	chr12	65633915	65633915	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtaaattttatttatttttaGatgttttacgaagtcataat	5	2	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:65633915G>C	uc001ssl.1	+	8	2030	c.2024_splice	c.e8-1	p.D675_splice	LEMD3_uc009zqo.1_Splice_Site_p.D674_splice	NM_014319	NP_055134	Q9Y2U8	MAN1_HUMAN	LEM domain containing 3						negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway	integral to nuclear inner membrane|membrane fraction	DNA binding|nucleotide binding|protein binding			central_nervous_system(3)|ovary(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0104)		TTTATTTTTAGATGTTTTACG	0.313													3	120	---	---	---	---	PASS	C	65633915	C	C	65633915	5	2	64	1	0	0	0	0	0	0	1	0	8721	956	33	2	2053	2	LEMD3	12	65633915	Splice_Site	SNP	G	TCGA-34-2600-01A-01D-1522-08	1431094	65633915	68217980	353	25296										
HELB	92797	broad.mit.edu	37	chr12	66698709	66698709	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcaaaaacatatctgtgctcTctttcttaaagagtgtgagg	8	7	4	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:66698709T>C	uc001sti.2	+	2	414	c.386T>C	c.(385-387)CTC>CCC	p.L129P	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	129					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		ATCTGTGCTCTCTTTCTTAAA	0.353													37	118	---	---	---	---	PASS	C	66698709	C	C	66698709	3	2	64	1	0	0	0	0	1	0	0	0	7045	1551	54	5	392	5	HELB	12	66698709	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	1064794	66698709	67153186	354	25297										
HELB	92797	broad.mit.edu	37	chr12	66703903	66703903	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caaaacctgagaattcaagcGatgatgcattgaatgagagc	10	7	1	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:66703903G>T	uc001sti.2	+	4	1223	c.1195G>T	c.(1195-1197)GAT>TAT	p.D399Y	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	399					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		GAATTCAAGCGATGATGCATT	0.413													173	151	---	---	---	---	PASS	T	66703903	T	T	66703903	3	4	64	1	0	0	0	0	1	0	0	0	7045	1058	37	2	1209	2	HELB	12	66703903	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	5194	66703903	67147992	355	25298										
CAND1	55832	broad.mit.edu	37	chr12	67700370	67700370	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccacggcttaaggggtacttGatatcaggtaggtatctaga	12	7	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:67700370G>C	uc001stn.2	+	10	3359	c.2922G>C	c.(2920-2922)TTG>TTC	p.L974F	CAND1_uc001sto.2_Missense_Mutation_p.L484F	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	974	HEAT 23.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		AGGGGTACTTGATATCAGGTA	0.363													9	155	---	---	---	---	PASS	C	67700370	C	C	67700370	3	2	64	1	0	0	0	0	1	0	0	0	2615	1281	45	2	2960	2	CAND1	12	67700370	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	996467	67700370	66151525	356	25299										
CAND1	55832	broad.mit.edu	37	chr12	67703954	67703954	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agaaatgggtccatttaaacAtacggttgatgatggtctgg	12	5	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:67703954A>T	uc001stn.2	+	13	3655	c.3218A>T	c.(3217-3219)CAT>CTT	p.H1073L	CAND1_uc001sto.2_Missense_Mutation_p.H583L	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	1073	HEAT 25.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		CCATTTAAACATACGGTTGAT	0.343													157	118	---	---	---	---	PASS	T	67703954	T	T	67703954	3	4	64	1	0	0	0	0	1	0	0	0	2615	217	8	5	3268	5	CAND1	12	67703954	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	3584	67703954	66147941	357	25300										
NAV3	89795	broad.mit.edu	37	chr12	78401170	78401170	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atggtgctgtccaactccctCaacagcagcaacatagccac	7	15	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:78401170C>G	uc001syp.2	+	8	2025	c.1852C>G	c.(1852-1854)CAA>GAA	p.Q618E	NAV3_uc001syo.2_Missense_Mutation_p.Q618E	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	618	Poly-Gln.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CCAACTCCCTCAACAGCAGCA	0.502										HNSCC(70;0.22)			37	158	---	---	---	---	PASS	G	78401170	G	G	78401170	3	3	64	1	0	0	0	0	1	0	0	0	10185	827	29	2	1882	2	NAV3	12	78401170	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	10697216	78401170	55450725	358	25301										
PPFIA2	8499	broad.mit.edu	37	chr12	81839428	81839428	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cctgagggagactgggcttgCcgttttaccaccgtcattct	11	12	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:81839428C>G	uc001szo.1	-	6	638	c.477G>C	c.(475-477)CGG>CGC	p.R159R	PPFIA2_uc010sue.1_Silent_p.R59R|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	85										ovary(3)|lung(2)|pancreas(1)	6						ACTGGGCTTGCCGTTTTACCA	0.428													29	61	---	---	---	---	PASS	G	81839428	G	G	81839428	2	3	64	1	0	0	0	0	0	0	0	1	12310	726	26	4		4	PPFIA2	12	81839428	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	3438258	81839428	52012467	359	25302										
SLC25A3	5250	broad.mit.edu	37	chr12	98992432	98992432	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cccagccaggttatgccaacActttgagggatgcagctccc	10	14	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:98992432A>T	uc001tfo.2	+	5	715	c.595A>T	c.(595-597)ACT>TCT	p.T199S	SLC25A3_uc001tfm.2_Missense_Mutation_p.T198S|SLC25A3_uc001tfn.2_Missense_Mutation_p.T198S|SLC25A3_uc001tfp.2_Missense_Mutation_p.T198S|SLC25A3_uc001tfq.2_Missense_Mutation_p.T68S|SLC25A3_uc001tfr.2_Missense_Mutation_p.T199S|SLC25A3_uc001tfs.2_Missense_Mutation_p.T155S|SLC25A3_uc009ztn.2_Missense_Mutation_p.T198S|SLC25A3_uc001tft.2_Missense_Mutation_p.T198S|SNORA53_uc001tfu.1_5'Flank	NM_005888	NP_005879	Q00325	MPCP_HUMAN	solute carrier family 25 member 3 isoform a	199	Solcar 2.|Mitochondrial matrix (Potential).				generation of precursor metabolites and energy	integral to plasma membrane|mitochondrial inner membrane	phosphate carrier activity|symporter activity				0		Lung NSC(355;4.08e-05)|Breast(359;0.00191)|Colorectal(145;0.00205)|Myeloproliferative disorder(1001;0.0255)		GBM - Glioblastoma multiforme(134;1.36e-23)|BRCA - Breast invasive adenocarcinoma(302;0.000115)		TTATGCCAACACTTTGAGGGA	0.413													28	79	---	---	---	---	PASS	T	98992432	T	T	98992432	3	4	64	1	0	0	0	0	1	0	0	0	14493	159	6	5	735	5	SLC25A3	12	98992432	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	17153004	98992432	34859463	360	25303										
SLC25A3	5250	broad.mit.edu	37	chr12	98994961	98994961	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tttttcagctggagtcttttGtgcaattgtttctcaccctg	8	9	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:98994961G>C	uc001tfo.2	+	7	950	c.830G>C	c.(829-831)TGT>TCT	p.C277S	SLC25A3_uc001tfm.2_Missense_Mutation_p.C276S|SLC25A3_uc001tfn.2_Missense_Mutation_p.C276S|SLC25A3_uc001tfp.2_Missense_Mutation_p.C276S|SLC25A3_uc001tfq.2_Missense_Mutation_p.C146S|SLC25A3_uc001tfr.2_Missense_Mutation_p.C277S|SLC25A3_uc001tfs.2_Missense_Mutation_p.C233S|SLC25A3_uc009ztn.2_Intron|SLC25A3_uc001tft.2_Missense_Mutation_p.C276S	NM_005888	NP_005879	Q00325	MPCP_HUMAN	solute carrier family 25 member 3 isoform a	277	Solcar 3.|Helical; Name=5; (Potential).				generation of precursor metabolites and energy	integral to plasma membrane|mitochondrial inner membrane	phosphate carrier activity|symporter activity				0		Lung NSC(355;4.08e-05)|Breast(359;0.00191)|Colorectal(145;0.00205)|Myeloproliferative disorder(1001;0.0255)		GBM - Glioblastoma multiforme(134;1.36e-23)|BRCA - Breast invasive adenocarcinoma(302;0.000115)		GGAGTCTTTTGTGCAATTGTT	0.348													4	94	---	---	---	---	PASS	C	98994961	C	C	98994961	3	2	64	1	0	0	0	0	1	0	0	0	14493	1377	48	4	978	4	SLC25A3	12	98994961	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2529	98994961	34856934	361	25304										
SCYL2	55681	broad.mit.edu	37	chr12	100732613	100732613	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcccactttgccaaacttcaAtgctttgagtgttcctcctg	6	13	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:100732613A>G	uc001thn.2	+	18	2503	c.2453A>G	c.(2452-2454)AAT>AGT	p.N818S		NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein	818	Necessary for interaction with AP2 complex and clathrin, interaction with clathrin is necessary for its targeting to the TGN and endosomal membranes.				endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						CCAAACTTCAATGCTTTGAGT	0.463													210	181	---	---	---	---	PASS	G	100732613	G	G	100732613	3	3	64	1	0	0	0	0	1	0	0	0	13948	101	4	5	2519	5	SCYL2	12	100732613	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	1737652	100732613	33119282	362	25305										
STAB2	55576	broad.mit.edu	37	chr12	104100623	104100623	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caatgccagccctgcccaggGaatgcccagaatgtctgctt	10	14	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:104100623G>A	uc001tjw.2	+	38	4236	c.4050G>A	c.(4048-4050)GGG>GGA	p.G1350G		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1350	Extracellular (Potential).|Laminin EGF-like 1.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CCTGCCCAGGGAATGCCCAGA	0.557													45	47	---	---	---	---	PASS	A	104100623	A	A	104100623	2	1	64	1	0	0	0	0	0	0	0	1	15237	1161	41	2		2	STAB2	12	104100623	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	3368010	104100623	29751272	363	25306										
MYO1H	283446	broad.mit.edu	37	chr12	109853332	109853332	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtctatttctgtctcgtagcCgtaagctggctggtccaaag	11	10	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:109853332C>A	uc010sxn.1	+	14	1456	c.1456C>A	c.(1456-1458)CGT>AGT	p.R486S		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						GTCTCGTAGCCGTAAGCTGGC	0.353													7	11	---	---	---	---	PASS	A	109853332	A	A	109853332	3	1	64	1	0	0	0	0	1	0	0	0	10075	666	23	1	1510	1	MYO1H	12	109853332	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	5752709	109853332	23998563	364	25307										
RASAL1	8437	broad.mit.edu	37	chr12	113552694	113552694	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atcacaggcttcaggacctcGtgcaggtagggcatgcccac	12	13	2	0	rs140563833	byFrequency	TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:113552694G>T	uc001tum.1	-	13	1385	c.1092C>A	c.(1090-1092)CAC>CAA	p.H364Q	RASAL1_uc010syp.1_Missense_Mutation_p.H364Q|RASAL1_uc001tul.2_Missense_Mutation_p.H364Q|RASAL1_uc001tun.1_Missense_Mutation_p.H364Q|RASAL1_uc010syq.1_Missense_Mutation_p.H364Q|RASAL1_uc001tuo.3_Missense_Mutation_p.H364Q|RASAL1_uc010syr.1_Missense_Mutation_p.H364Q	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	364	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						TCAGGACCTCGTGCAGGTAGG	0.662													106	258	---	---	---	---	PASS	T	113552694	T	T	113552694	3	4	64	1	0	0	0	0	1	0	0	0	13063	1136	40	1	1362	1	RASAL1	12	113552694	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3699362	113552694	20299201	365	25308										
TBX5	6910	broad.mit.edu	37	chr12	114837386	114837386	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tccatgagaagaatgtacttCgttttgggattaaggcccgt	11	7	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:114837386C>T	uc001tvo.2	-	4	789	c.294G>A	c.(292-294)ACG>ACA	p.T98T	TBX5_uc001tvp.2_Silent_p.T98T|TBX5_uc001tvq.2_Silent_p.T48T|TBX5_uc010syv.1_Silent_p.T98T	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	98	T-box.				cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		GAATGTACTTCGTTTTGGGAT	0.517													12	263	---	---	---	---	PASS	T	114837386	T	T	114837386	2	4	64	1	0	0	0	0	0	0	0	1	15658	871	31	2		2	TBX5	12	114837386	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	1284692	114837386	19014509	366	25309										
LRRC43	254050	broad.mit.edu	37	chr12	122669262	122669262	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agaattggccatccggaaccCgctgacgatcacagacacct	9	14	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:122669262C>T	uc009zxm.2	+	2	372	c.347C>T	c.(346-348)CCG>CTG	p.P116L	LRRC43_uc001ubw.3_5'UTR|LRRC43_uc009zxl.1_RNA	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	116											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		ATCCGGAACCCGCTGACGATC	0.582													4	34	---	---	---	---	PASS	T	122669262	T	T	122669262	3	4	64	1	0	0	0	0	1	0	0	0	9001	652	23	1	353	1	LRRC43	12	122669262	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	7831876	122669262	11182633	367	25310										
EP400	57634	broad.mit.edu	37	chr12	132502177	132502177	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	accctgggctcgtcgagcccCggcacccaggctcttcctac	10	19	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr12:132502177C>T	uc001ujn.2	+	19	4056	c.4021C>T	c.(4021-4023)CGG>TGG	p.R1341W	EP400_uc001ujl.2_Missense_Mutation_p.R1340W|EP400_uc001ujm.2_Missense_Mutation_p.R1341W	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1377					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CGTCGAGCCCCGGCACCCAGG	0.607													7	79	---	---	---	---	PASS	T	132502177	T	T	132502177	3	4	64	1	0	0	0	0	1	0	0	0	5149	643	23	1	4092	1	EP400	12	132502177	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	9832915	132502177	1349718	368	25311										
CENPJ	55835	broad.mit.edu	37	chr13	25458175	25458175	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggaaataagtttttaacagtCtggtcaggaaacgtgatttc	10	5	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr13:25458175C>G	uc001upt.3	-	16	4003	c.3750G>C	c.(3748-3750)CAG>CAC	p.Q1250H	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	1250					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		TTTTAACAGTCTGGTCAGGAA	0.333													13	181	---	---	---	---	PASS	G	25458175	G	G	25458175	3	3	64	1	0	0	0	0	1	0	0	0	3234	912	32	2	274	2	CENPJ	13	25458175	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08		25458175	89711703	369	25312										
FLT3	2322	broad.mit.edu	37	chr13	28610129	28610129	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atggtaatgggtatccatccGagaaacaggacgcctgactt	11	9	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr13:28610129G>A	uc001urw.2	-	11	1443	c.1361C>T	c.(1360-1362)TCG>TTG	p.S454L	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Missense_Mutation_p.S454L	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	454	Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	GTATCCATCCGAGAAACAGGA	0.398			Mis|O		AML|ALL								91	293	---	---	---	---	PASS	A	28610129	A	A	28610129	3	1	64	1	0	0	0	0	1	0	0	0	5942	1059	37	2	1676	2	FLT3	13	28610129	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3151954	28610129	86559749	370	25313										
PDS5B	23047	broad.mit.edu	37	chr13	33327663	33327663	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggagtatctgaagcagcatgCagctgttagtggtaagcata	13	6	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr13:33327663C>T	uc010abf.2	+	25	3088	c.2930C>T	c.(2929-2931)GCA>GTA	p.A977V	PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	977					cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		AAGCAGCATGCAGCTGTTAGT	0.368													4	71	---	---	---	---	PASS	T	33327663	T	T	33327663	3	4	64	1	0	0	0	0	1	0	0	0	11692	710	25	3	3024	3	PDS5B	13	33327663	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	4717534	33327663	81842215	371	25314										
CSNK1A1L	122011	broad.mit.edu	37	chr13	37678790	37678790	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcctaaggattccatgtcatCtcggcggctctgctcaatac	9	13	4	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr13:37678790C>T	uc001uwm.1	-	1	1012	c.604G>A	c.(604-606)GAT>AAT	p.D202N		NM_145203	NP_660204	Q8N752	KC1AL_HUMAN	casein kinase 1, alpha 1-like	202	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)	1		Lung NSC(96;7.97e-05)|Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.109)		all cancers(112;3.58e-07)|Epithelial(112;1.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00695)|BRCA - Breast invasive adenocarcinoma(63;0.0117)|GBM - Glioblastoma multiforme(144;0.0407)		TCCATGTCATCTCGGCGGCTC	0.438													29	163	---	---	---	---	PASS	T	37678790	T	T	37678790	3	4	64	1	0	0	0	0	1	0	0	0	3951	913	32	2	413	2	CSNK1A1L	13	37678790	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	4351127	37678790	77491088	372	25315										
KBTBD7	84078	broad.mit.edu	37	chr13	41766967	41766967	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaaccactatgagttcaaagGaatagaaggaatgagggaca	12	5	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr13:41766967G>C	uc001uxw.1	-	1	1736	c.1427C>G	c.(1426-1428)TCC>TGC	p.S476C	uc001uxv.1_Intron	NM_032138	NP_115514	Q8WVZ9	KBTB7_HUMAN	kelch repeat and BTB (POZ) domain containing 7	476	Kelch 2.						protein binding			ovary(1)	1		Lung NSC(96;0.000105)|Breast(139;0.00715)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.21e-09)|Epithelial(112;6.99e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000196)|GBM - Glioblastoma multiforme(144;0.000857)|BRCA - Breast invasive adenocarcinoma(63;0.0669)		GAGTTCAAAGGAATAGAAGGA	0.448													6	103	---	---	---	---	PASS	C	41766967	C	C	41766967	3	2	64	1	0	0	0	0	1	0	0	0	7998	1174	41	2	631	2	KBTBD7	13	41766967	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	4088177	41766967	73402911	373	25316										
KBTBD7	84078	broad.mit.edu	37	chr13	41767240	41767240	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctggggacacacagacagctGaggaggtgacagtcttagtg	15	8	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr13:41767240G>T	uc001uxw.1	-	1	1463	c.1154C>A	c.(1153-1155)TCA>TAA	p.S385*	uc001uxv.1_Intron	NM_032138	NP_115514	Q8WVZ9	KBTB7_HUMAN	kelch repeat and BTB (POZ) domain containing 7	385							protein binding			ovary(1)	1		Lung NSC(96;0.000105)|Breast(139;0.00715)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.21e-09)|Epithelial(112;6.99e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000196)|GBM - Glioblastoma multiforme(144;0.000857)|BRCA - Breast invasive adenocarcinoma(63;0.0669)		ACAGACAGCTGAGGAGGTGAC	0.502													12	180	---	---	---	---	PASS	T	41767240	T	T	41767240	4	4	64	1	0	0	0	0	0	1	0	0	7998	1294	45	2	904	2	KBTBD7	13	41767240	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	273	41767240	73402638	374	25317										
KIAA0564	23078	broad.mit.edu	37	chr13	42407528	42407528	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tttgcaatacagcaagcgtgCccgcattcacccggtgaatg	10	12	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr13:42407528C>A	uc001uyj.2	-	13	1635	c.1565G>T	c.(1564-1566)GGC>GTC	p.G522V	KIAA0564_uc001uyk.2_Missense_Mutation_p.G522V	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	522						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		AGCAAGCGTGCCCGCATTCAC	0.517													43	39	---	---	---	---	PASS	A	42407528	A	A	42407528	3	1	64	1	0	0	0	0	1	0	0	0	8185	739	26	3	4288	3	KIAA0564	13	42407528	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	640288	42407528	72762350	375	25318										
CYSLTR2	57105	broad.mit.edu	37	chr13	49281675	49281675	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agaatcggggctgcgggtttCtcacaggaaggcactgacca	14	10	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr13:49281675C>G	uc010acx.1	+	6	1405	c.722C>G	c.(721-723)TCT>TGT	p.S241C	CYSLTR2_uc010acy.1_Missense_Mutation_p.S241C|CYSLTR2_uc010acz.1_Missense_Mutation_p.S241C|CYSLTR2_uc010ada.1_Missense_Mutation_p.S241C|CYSLTR2_uc010adb.1_Missense_Mutation_p.S241C|CYSLTR2_uc010adc.1_Missense_Mutation_p.S241C|CYSLTR2_uc010add.1_Missense_Mutation_p.S241C|CYSLTR2_uc010acw.1_Missense_Mutation_p.S241C|CYSLTR2_uc001vck.2_Missense_Mutation_p.S241C	NM_020377	NP_065110	Q9NS75	CLTR2_HUMAN	cysteinyl leukotriene receptor 2	241	Cytoplasmic (Potential).				immune response	integral to membrane|plasma membrane				lung(2)	2		all_cancers(8;1.66e-53)|all_epithelial(8;1.96e-19)|all_lung(13;9.94e-09)|all_hematologic(8;7.13e-07)|Lung NSC(96;1.72e-06)|Breast(56;1.53e-05)|Acute lymphoblastic leukemia(8;6.86e-05)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0416)|Lung SC(185;0.0787)		GBM - Glioblastoma multiforme(99;1.19e-09)	Nedocromil(DB00716)	CTGCGGGTTTCTCACAGGAAG	0.512													5	126	---	---	---	---	PASS	G	49281675	G	G	49281675	3	3	64	1	0	0	0	0	1	0	0	0	4202	913	32	2	724	2	CYSLTR2	13	49281675	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	6874147	49281675	65888203	376	25319										
PCDH17	27253	broad.mit.edu	37	chr13	58299156	58299156	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccctggctgaagcaagcagtCagtacttgcccactgacagt	10	13	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr13:58299156C>T	uc001vhq.1	+	4	4100	c.3208C>T	c.(3208-3210)CAG>TAG	p.Q1070*	PCDH17_uc010aec.1_Nonsense_Mutation_p.Q1069*|PCDH17_uc001vhr.1_Nonsense_Mutation_p.Q159*	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	1070	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		AGCAAGCAGTCAGTACTTGCC	0.532													47	130	---	---	---	---	PASS	T	58299156	T	T	58299156	4	4	64	1	0	0	0	0	0	1	0	0	11512	827	29	2	3222	2	PCDH17	13	58299156	Nonsense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	9017481	58299156	56870722	377	25320										
RAB20	55647	broad.mit.edu	37	chr13	111176244	111176244	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgtacttgaggatctttttaTaaagggccaccgcatcctcc	8	11	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr13:111176244T>A	uc001vqy.2	-	2	678	c.473A>T	c.(472-474)TAT>TTT	p.Y158F		NM_017817	NP_060287	Q9NX57	RAB20_HUMAN	RAB20, member RAS oncogene family	158					protein transport|small GTPase mediated signal transduction	Golgi apparatus	GTP binding				0	all_cancers(4;1.54e-11)|all_epithelial(4;1.22e-06)|all_lung(23;1e-05)|Lung NSC(43;0.000453)|Colorectal(4;0.00323)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.197)			GATCTTTTTATAAAGGGCCAC	0.567													4	73	---	---	---	---	PASS	A	111176244	A	A	111176244	3	1	64	1	0	0	0	0	1	0	0	0	12907	1406	49	5	235	5	RAB20	13	111176244	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	52877088	111176244	3993634	378	25321										
ARHGAP5	394	broad.mit.edu	37	chr14	32624153	32624153	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggatcctcttggtattatatGagtaggaagtgattgcaaac	11	5	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr14:32624153G>A	uc001wrl.2	+	7	4747	c.4508G>A	c.(4507-4509)TGA>TAA	p.*1503*	ARHGAP5_uc001wrm.2_Silent_p.*1502*|ARHGAP5_uc001wrn.2_Silent_p.*1503*|ARHGAP5_uc001wro.2_Silent_p.*242*|ARHGAP5_uc001wrp.2_Silent_p.*238*	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	1503					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		GGTATTATATGAGTAGGAAGT	0.423													27	46	---	---	---	---	PASS	A	32624153	A	A	32624153	2	1	64	1	0	0	0	0	0	0	0	1	886	1285	45	2		2	ARHGAP5	14	32624153	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08		32624153	74725387	379	25322										
BAZ1A	11177	broad.mit.edu	37	chr14	35272070	35272070	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctgtacttacttgactaataTgtattcgtttgggaggtctc	9	7	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr14:35272070T>C	uc001wsk.2	-	7	1419	c.851A>G	c.(850-852)CAT>CGT	p.H284R	BAZ1A_uc001wsl.2_Missense_Mutation_p.H284R|BAZ1A_uc001wsm.1_Missense_Mutation_p.H284R	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	284					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		TTGACTAATATGTATTCGTTT	0.363													62	15	---	---	---	---	PASS	C	35272070	C	C	35272070	3	2	64	1	0	0	0	0	1	0	0	0	1329	1464	51	5	3903	5	BAZ1A	14	35272070	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	2647917	35272070	72077470	380	25323										
RALGAPA1	253959	broad.mit.edu	37	chr14	36140706	36140706	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgaggtgagcagtgtttgatGattgtattgacaatatcctt	11	4	0	5			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr14:36140706G>A	uc001wti.2	-	25	3964	c.3573C>T	c.(3571-3573)ATC>ATT	p.I1191I	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Silent_p.I1191I|RALGAPA1_uc010tpv.1_Silent_p.I1204I|RALGAPA1_uc010tpw.1_Silent_p.I1238I	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1191					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						AGTGTTTGATGATTGTATTGA	0.333													16	35	---	---	---	---	PASS	A	36140706	A	A	36140706	2	1	64	1	0	0	0	0	0	0	0	1	13013	1280	45	2		2	RALGAPA1	14	36140706	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	868636	36140706	71208834	381	25324										
FSCB	84075	broad.mit.edu	37	chr14	44975031	44975031	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgggagccttttgtgctgagGgagaccgaatttcaccaaga	13	8	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr14:44975031G>A	uc001wvn.2	-	1	1469	c.1160C>T	c.(1159-1161)CCC>CTC	p.P387L		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	387	Pro-rich.					cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		TTGTGCTGAGGGAGACCGAAT	0.527													121	33	---	---	---	---	PASS	A	44975031	A	A	44975031	3	1	64	1	0	0	0	0	1	0	0	0	6066	1232	43	3	1321	3	FSCB	14	44975031	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	8834325	44975031	62374509	382	25325										
KTN1	3895	broad.mit.edu	37	chr14	56146352	56146352	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cacagttacagcagttgcttCaggcggtaaaccaacagctc	9	12	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr14:56146352C>A	uc001xcb.2	+	44	4320	c.4018C>A	c.(4018-4020)CAG>AAG	p.Q1340K	KTN1_uc001xce.2_Missense_Mutation_p.Q1283K|KTN1_uc001xcc.2_Missense_Mutation_p.Q1340K|KTN1_uc001xcd.2_Missense_Mutation_p.Q1289K|KTN1_uc010trb.1_Missense_Mutation_p.Q1312K|KTN1_uc001xcf.1_Missense_Mutation_p.Q1289K|KTN1_uc010aoq.2_Missense_Mutation_p.Q578K|KTN1_uc010trc.1_Missense_Mutation_p.Q317K|KTN1_uc001xcg.2_Missense_Mutation_p.Q273K	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	1340	Lumenal (Potential).|Potential.				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						GCAGTTGCTTCAGGCGGTAAA	0.403			T	RET	papillary thryoid								4	116	---	---	---	---	PASS	A	56146352	A	A	56146352	3	1	64	1	0	0	0	0	1	0	0	0	8585	827	29	2	4184	2	KTN1	14	56146352	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	11171321	56146352	51203188	383	25326										
ADAM21	8747	broad.mit.edu	37	chr14	70925515	70925515	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cagtgtgaacaagacgcctgTtgtctgttgaactgcactct	10	10	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr14:70925515T>A	uc001xmd.2	+	1	1299	c.1299T>A	c.(1297-1299)TGT>TGA	p.C433*		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	433	Disintegrin.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		AAGACGCCTGTTGTCTGTTGA	0.502													100	13	---	---	---	---	PASS	A	70925515	A	A	70925515	4	1	64	1	0	0	0	0	0	1	0	0	243	1731	60	5	1301	5	ADAM21	14	70925515	Nonsense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	14779163	70925515	36424025	384	25327										
ATP10A	57194	broad.mit.edu	37	chr15	25928476	25928476	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agagctgcgggttggtcagcAgcacattggctggcacatcc	14	11	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:25928476A>T	uc010ayu.2	-	17	3555	c.3449T>A	c.(3448-3450)CTG>CAG	p.L1150Q		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1150	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GTTGGTCAGCAGCACATTGGC	0.562													21	18	---	---	---	---	PASS	T	25928476	T	T	25928476	3	4	64	1	0	0	0	0	1	0	0	0	1116	188	7	5	1070	5	ATP10A	15	25928476	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08		25928476	76602916	385	25328										
SLC12A6	9990	broad.mit.edu	37	chr15	34528946	34528946	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttttggatagccgcatgtgcCggagcatctgggacctttgt	13	9	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:34528946C>T	uc001zhw.2	-	22	3169	c.3005G>A	c.(3004-3006)CGG>CAG	p.R1002Q	SLC12A6_uc001zhv.2_Missense_Mutation_p.R951Q|SLC12A6_uc001zhx.2_Missense_Mutation_p.R987Q|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.R943Q|SLC12A6_uc001zib.2_Missense_Mutation_p.R993Q|SLC12A6_uc001zic.2_Missense_Mutation_p.R1002Q|SLC12A6_uc010bau.2_Missense_Mutation_p.R1002Q|SLC12A6_uc001zid.2_Missense_Mutation_p.R943Q|SLC12A6_uc001zht.2_RNA|SLC12A6_uc001zhu.2_Missense_Mutation_p.R814Q	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	1002	Cytoplasmic (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	CCGCATGTGCCGGAGCATCTG	0.458													27	116	---	---	---	---	PASS	T	34528946	T	T	34528946	3	4	64	1	0	0	0	0	1	0	0	0	14387	652	23	1	463	1	SLC12A6	15	34528946	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	8600470	34528946	68002446	386	25329										
CASC5	57082	broad.mit.edu	37	chr15	40916355	40916355	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgcaactgctgtttgtggatCcagtgataattattcctgtt	9	7	0	1	rs143600140	by1000genomes	TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:40916355C>T	uc010bbs.1	+	11	4132	c.3971C>T	c.(3970-3972)TCC>TTC	p.S1324F	CASC5_uc010ucq.1_Missense_Mutation_p.S1148F|CASC5_uc001zme.2_Missense_Mutation_p.S1298F|CASC5_uc010bbt.1_Missense_Mutation_p.S1298F	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	1324					acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		GTTTGTGGATCCAGTGATAAT	0.358													10	166	---	---	---	---	PASS	T	40916355	T	T	40916355	3	4	64	1	0	0	0	0	1	0	0	0	2663	855	30	2	4009	2	CASC5	15	40916355	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	6387409	40916355	61615037	387	25330										
ZFP106	64397	broad.mit.edu	37	chr15	42742027	42742027	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tacttgctgaatgacctgttCccagttgacatttctccgag	8	11	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:42742027C>T	uc001zpw.2	-	2	2709	c.2374G>A	c.(2374-2376)GAA>AAA	p.E792K	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Missense_Mutation_p.E575K|ZFP106_uc001zpy.1_Missense_Mutation_p.E815K	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	792						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		ATGACCTGTTCCCAGTTGACA	0.468													22	273	---	---	---	---	PASS	T	42742027	T	T	42742027	3	4	64	1	0	0	0	0	1	0	0	0	17634	864	30	2	3349	2	ZFP106	15	42742027	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1825672	42742027	59789365	388	25331										
MFAP1	4236	broad.mit.edu	37	chr15	44109429	44109429	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cacaatcacagacattacctCtcttccacatcttcactaat	1	15	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:44109429C>G	uc001zth.1	-	2	481	c.297G>C	c.(295-297)GAG>GAC	p.E99D		NM_005926	NP_005917	P55081	MFAP1_HUMAN	microfibrillar-associated protein 1	99						microfibril				skin(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.33e-07)		GACATTACCTCTCTTCCACAT	0.348													48	37	---	---	---	---	PASS	G	44109429	G	G	44109429	3	3	64	1	0	0	0	0	1	0	0	0	9513	912	32	2	1054	2	MFAP1	15	44109429	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1367402	44109429	58421963	389	25332										
MFAP1	4236	broad.mit.edu	37	chr15	44109440	44109440	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acattacctctcttccacatCttcactaatacggttctgta	3	13	4	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:44109440C>G	uc001zth.1	-	2	470	c.286G>C	c.(286-288)GAT>CAT	p.D96H		NM_005926	NP_005917	P55081	MFAP1_HUMAN	microfibrillar-associated protein 1	96						microfibril				skin(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.33e-07)		TCTTCCACATCTTCACTAATA	0.363													64	44	---	---	---	---	PASS	G	44109440	G	G	44109440	3	3	64	1	0	0	0	0	1	0	0	0	9513	913	32	2	1065	2	MFAP1	15	44109440	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	11	44109440	58421952	390	25333										
DUOXA2	405753	broad.mit.edu	37	chr15	45410045	45410045	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggggctcacctcttatcctcGgcgacccactgcacaagcag	10	16	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:45410045G>A	uc001zuo.2	+	6	1181	c.901G>A	c.(901-903)GGC>AGC	p.G301S	DUOXA2_uc010beb.2_RNA|DUOXA1_uc010uem.1_Intron|DUOXA1_uc001zup.2_Intron|DUOXA1_uc010bec.2_Intron	NM_207581	NP_997464	Q1HG44	DOXA2_HUMAN	dual oxidase activator 2	301	Cytoplasmic (Potential).				protein transport	endoplasmic reticulum membrane|integral to membrane					0		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;2.88e-18)|GBM - Glioblastoma multiforme(94;3.95e-07)|COAD - Colon adenocarcinoma(120;0.0652)|Colorectal(133;0.0659)		TCTTATCCTCGGCGACCCACT	0.597											OREG0023102	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	131	---	---	---	---	PASS	A	45410045	A	A	45410045	3	1	64	1	0	0	0	0	1	0	0	0	4803	1116	39	1	923	1	DUOXA2	15	45410045	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1300605	45410045	57121347	391	25334										
DMXL2	23312	broad.mit.edu	37	chr15	51839475	51839475	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acgaaaaacctgtcacagctCggggatgtgccaagtaaaca	10	10	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:51839475C>T	uc002abf.2	-	7	923	c.698G>A	c.(697-699)CGA>CAA	p.R233Q	DMXL2_uc010ufy.1_Missense_Mutation_p.R233Q|DMXL2_uc010bfa.2_Missense_Mutation_p.R233Q	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	233	WD 3.					cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		TGTCACAGCTCGGGGATGTGC	0.383													20	89	---	---	---	---	PASS	T	51839475	T	T	51839475	3	4	64	1	0	0	0	0	1	0	0	0	4595	884	31	2	8563	2	DMXL2	15	51839475	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	6429430	51839475	50691917	392	25335										
LEO1	123169	broad.mit.edu	37	chr15	52244057	52244057	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ataccttaatcatttctgtgCgttggcattcaggatcacga	8	9	4	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:52244057C>T	uc002abo.2	-	9	1611	c.1595G>A	c.(1594-1596)CGC>CAC	p.R532H	LEO1_uc010bfd.2_Missense_Mutation_p.R472H	NM_138792	NP_620147	Q8WVC0	LEO1_HUMAN	Leo1, Paf1/RNA polymerase II complex component,	532					histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding				0				all cancers(107;0.00264)		CATTTCTGTGCGTTGGCATTC	0.418													97	34	---	---	---	---	PASS	T	52244057	T	T	52244057	3	4	64	1	0	0	0	0	1	0	0	0	8726	768	27	1	421	1	LEO1	15	52244057	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	404582	52244057	50287335	393	25336										
TLN2	83660	broad.mit.edu	37	chr15	62994319	62994319	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atgatgaggtgggcagcgggGaggacttgctcagagctgcc	18	8	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:62994319G>A	uc002alb.3	+	15	1825	c.1825G>A	c.(1825-1827)GAG>AAG	p.E609K		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	609					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GGGCAGCGGGGAGGACTTGCT	0.577													4	97	---	---	---	---	PASS	A	62994319	A	A	62994319	3	1	64	1	0	0	0	0	1	0	0	0	15945	1175	41	2	1883	2	TLN2	15	62994319	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	10750262	62994319	39537073	394	25337										
CA12	771	broad.mit.edu	37	chr15	63632566	63632566	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aagggggtgtggtcagggacCcccggtagcggtaatattca	16	8	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:63632566C>A	uc002amc.2	-	7	824	c.668G>T	c.(667-669)GGG>GTG	p.G223V	CA12_uc002amd.2_Missense_Mutation_p.G223V|CA12_uc002ame.2_Missense_Mutation_p.G163V	NM_001218	NP_001209	O43570	CAH12_HUMAN	carbonic anhydrase XII isoform 1 precursor	223	Extracellular (Potential).				one-carbon metabolic process	integral to membrane	carbonate dehydratase activity|zinc ion binding			ovary(1)	1					Acetazolamide(DB00819)	GGTCAGGGACCCCCGGTAGCG	0.562													77	72	---	---	---	---	PASS	A	63632566	A	A	63632566	3	1	64	1	0	0	0	0	1	0	0	0	2513	623	22	3	416	3	CA12	15	63632566	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	638247	63632566	38898826	395	25338										
HERC1	8925	broad.mit.edu	37	chr15	63908646	63908646	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tacctcatggaaactctcctCggtaatcccactgtcttcaa	5	14	4	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:63908646C>T	uc002amp.2	-	75	14072	c.13924G>A	c.(13924-13926)GAG>AAG	p.E4642K		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	4642	HECT.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						AAACTCTCCTCGGTAATCCCA	0.463													8	179	---	---	---	---	PASS	T	63908646	T	T	63908646	3	4	64	1	0	0	0	0	1	0	0	0	7057	893	31	2	677	2	HERC1	15	63908646	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	276080	63908646	38622746	396	25339										
PARP16	54956	broad.mit.edu	37	chr15	65555514	65555514	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cttggtttggcacttgacgtCcggatggtcaatgacctcac	11	11	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:65555514C>G	uc002aoo.2	-	4	918	c.664G>C	c.(664-666)GAC>CAC	p.D222H	PARP16_uc002aop.2_Missense_Mutation_p.D107H|PARP16_uc002aoq.2_Missense_Mutation_p.D222H	NM_017851	NP_060321	Q8N5Y8	PAR16_HUMAN	poly (ADP-ribose) polymerase family, member 16	222	PARP catalytic.					integral to membrane	NAD+ ADP-ribosyltransferase activity			lung(2)	2						CACTTGACGTCCGGATGGTCA	0.602													27	37	---	---	---	---	PASS	G	65555514	G	G	65555514	3	3	64	1	0	0	0	0	1	0	0	0	11460	855	30	2	319	2	PARP16	15	65555514	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1646868	65555514	36975878	397	25340										
SMAD3	4088	broad.mit.edu	37	chr15	67479716	67479716	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttggcaggatgcaacctgaaGatcttcaacaaccaggagtt	10	9	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:67479716G>C	uc002aqj.2	+	8	1321	c.1023G>C	c.(1021-1023)AAG>AAC	p.K341N	SMAD3_uc010ujr.1_Missense_Mutation_p.K236N|SMAD3_uc010ujs.1_Missense_Mutation_p.K297N|SMAD3_uc010ujt.1_Missense_Mutation_p.K146N	NM_005902	NP_005893	P84022	SMAD3_HUMAN	mothers against decapentaplegic homolog 3	341	MH2.			K->R: No effect on acetylation. Completely abolishes acetylation and 97% reduction in transcriptional activity; when associated with R-333; R-378 and R- 409.	activation of caspase activity|cell cycle arrest|cell-cell junction organization|evasion of host defenses by virus|immune response|induction of apoptosis|negative regulation of cell growth|negative regulation of mitotic cell cycle|negative regulation of protein catabolic process|negative regulation of protein phosphorylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|protein stabilization|regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|transport|wound healing	cytosol|nuclear inner membrane|receptor complex	beta-catenin binding|co-SMAD binding|metal ion binding|protein homodimerization activity|protein kinase binding|R-SMAD binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor binding|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|ubiquitin protein ligase binding			large_intestine(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5				Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(7;0.125)		GCAACCTGAAGATCTTCAACA	0.572													8	214	---	---	---	---	PASS	C	67479716	C	C	67479716	3	2	64	1	0	0	0	0	1	0	0	0	14759	933	33	2	1131	2	SMAD3	15	67479716	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1924202	67479716	35051676	398	25341										
ADAMTS7	11173	broad.mit.edu	37	chr15	79059849	79059849	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gctctgctcatccagccccaCgctgcggatgcagagcacgg	12	16	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:79059849C>T	uc002bej.3	-	18	2942	c.2731G>A	c.(2731-2733)GTG>ATG	p.V911M	ADAMTS7_uc010und.1_Intron	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	911	TSP type-1 3.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						TCCAGCCCCACGCTGCGGATG	0.706													3	25	---	---	---	---	PASS	T	79059849	T	T	79059849	3	4	64	1	0	0	0	0	1	0	0	0	271	536	19	1	2357	1	ADAMTS7	15	79059849	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	11580133	79059849	23471543	399	25342										
NTRK3	4916	broad.mit.edu	37	chr15	88678596	88678596	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcagtgctccaggcgcagctCaggctcctccaggctcacca	11	17	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:88678596C>G	uc002bme.1	-	9	1102	c.940G>C	c.(940-942)GAG>CAG	p.E314Q	NTRK3_uc002bmh.2_Missense_Mutation_p.E314Q|NTRK3_uc002bmf.1_Missense_Mutation_p.E314Q|NTRK3_uc010upl.1_Missense_Mutation_p.E216Q|NTRK3_uc010bnh.1_Missense_Mutation_p.E314Q|NTRK3_uc002bmg.2_Missense_Mutation_p.E314Q	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	314	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)			AGGCGCAGCTCAGGCTCCTCC	0.612			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			14	70	---	---	---	---	PASS	G	88678596	G	G	88678596	3	3	64	1	0	0	0	0	1	0	0	0	10708	835	29	2	1885	2	NTRK3	15	88678596	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	9618747	88678596	13852796	400	25343										
PCSK6	5046	broad.mit.edu	37	chr15	101872072	101872072	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	attacctgtgtaatcttcctCatcttcaggaacttccacct	4	13	4	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr15:101872072C>T	uc002bwy.2	-	15	2337	c.2023G>A	c.(2023-2025)GAG>AAG	p.E675K	PCSK6_uc010bpd.2_Missense_Mutation_p.E471K|PCSK6_uc010bpe.2_Missense_Mutation_p.E675K|PCSK6_uc002bxa.2_Missense_Mutation_p.E675K|PCSK6_uc002bxb.2_Missense_Mutation_p.E675K	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	675					glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TAATCTTCCTCATCTTCAGGA	0.562													6	86	---	---	---	---	PASS	T	101872072	T	T	101872072	3	4	64	1	0	0	0	0	1	0	0	0	11604	835	29	2	1151	2	PCSK6	15	101872072	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	13193476	101872072	659320	401	25344										
DECR2	26063	broad.mit.edu	37	chr16	461361	461361	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agccttctgctgccctccagGtggccctcaggccagcctga	11	17	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:461361G>A	uc002chb.2	+	8	768	c.662G>A	c.(661-663)GGT>GAT	p.G221D	DECR2_uc002chc.2_Missense_Mutation_p.G137D|DECR2_uc010bqv.2_Missense_Mutation_p.G137D|DECR2_uc002chd.2_Missense_Mutation_p.G137D|DECR2_uc002che.1_RNA	NM_020664	NP_065715	Q9NUI1	DECR2_HUMAN	2,4-dienoyl CoA reductase 2	221						peroxisome	2,4-dienoyl-CoA reductase (NADPH) activity|binding				0		Hepatocellular(16;0.00015)				TGCCCTCCAGGTGGCCCTCAG	0.667													16	64	---	---	---	---	PASS	A	461361	A	A	461361	3	1	64	1	0	0	0	0	1	0	0	0	4383	1275	44	3	692	3	DECR2	16	461361	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08		461361	89893392	402	25345										
SOLH	6650	broad.mit.edu	37	chr16	601555	601555	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggggccgtttctcctggaacGgcagctggtccgacgagtgg	17	11	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:601555G>A	uc002chi.2	+	9	2599	c.2236G>A	c.(2236-2238)GGC>AGC	p.G746S	SOLH_uc002chj.2_5'Flank	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	746	Calpain catalytic.				proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				CTCCTGGAACGGCAGCTGGTC	0.667													19	64	---	---	---	---	PASS	A	601555	A	A	601555	3	1	64	1	0	0	0	0	1	0	0	0	14925	1116	39	1	2258	1	SOLH	16	601555	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	140194	601555	89753198	403	25346										
IFT140	9742	broad.mit.edu	37	chr16	1570317	1570317	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaacgtgattttctccgtgtCtccggatttgagcagcgccc	11	12	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:1570317C>T	uc002cmb.2	-	28	4050	c.3688G>A	c.(3688-3690)GAC>AAC	p.D1230N	IFT140_uc002clz.2_Missense_Mutation_p.D843N	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	1230										ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				TTCTCCGTGTCTCCGGATTTG	0.612													10	158	---	---	---	---	PASS	T	1570317	T	T	1570317	3	4	64	1	0	0	0	0	1	0	0	0	7556	913	32	2	716	2	IFT140	16	1570317	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	968762	1570317	88784436	404	25347										
SPSB3	90864	broad.mit.edu	37	chr16	1828177	1828177	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaggtcatcttgatctcccaGaagtgctggccctcccccag	10	15	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:1828177G>T	uc002cmr.2	-	3	483	c.450C>A	c.(448-450)TTC>TTA	p.F150L	SPSB3_uc002cms.2_Missense_Mutation_p.F22L|SPSB3_uc002cmt.2_Missense_Mutation_p.F22L|SPSB3_uc002cmu.2_Missense_Mutation_p.F150L|SPSB3_uc002cmv.2_Missense_Mutation_p.F22L|SPSB3_uc010uvm.1_3'UTR	NM_080861	NP_543137	Q6PJ21	SPSB3_HUMAN	splA/ryanodine receptor domain and SOCS box	150	B30.2/SPRY.				intracellular signal transduction						0						TGATCTCCCAGAAGTGCTGGC	0.637													10	36	---	---	---	---	PASS	T	1828177	T	T	1828177	3	4	64	1	0	0	0	0	1	0	0	0	15113	933	33	2	633	2	SPSB3	16	1828177	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	257860	1828177	88526576	405	25348										
CREBBP	1387	broad.mit.edu	37	chr16	3830746	3830746	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tacgtacagtttatgcactaGatggctccgcaggtcctgag	11	10	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:3830746G>A	uc002cvv.2	-	8	2014	c.1810C>T	c.(1810-1812)CTA>TTA	p.L604L	CREBBP_uc002cvw.2_Silent_p.L566L	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	604	KIX.				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)		TTATGCACTAGATGGCTCCGC	0.483			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				3	67	---	---	---	---	PASS	A	3830746	A	A	3830746	2	1	64	1	0	0	0	0	0	0	0	1	3861	933	33	2		2	CREBBP	16	3830746	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	2002569	3830746	86524007	406	25349										
CREBBP	1387	broad.mit.edu	37	chr16	3832751	3832751	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tggttgctggccaggaacctGaggctgcagctgcgtctggg	17	10	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:3832751G>A	uc002cvv.2	-	6	1711	c.1507C>T	c.(1507-1509)CAG>TAG	p.Q503*	CREBBP_uc002cvw.2_Nonsense_Mutation_p.Q465*	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	503					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)		CCAGGAACCTGAGGCTGCAGC	0.557			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				32	68	---	---	---	---	PASS	A	3832751	A	A	3832751	4	1	64	1	0	0	0	0	0	1	0	0	3861	1299	45	2	5925	2	CREBBP	16	3832751	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2005	3832751	86522002	407	25350										
CORO7	79585	broad.mit.edu	37	chr16	4414874	4414874	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gacggccagcgcctgccgggGcacaagggcagccccacgca	15	17	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:4414874G>C	uc002cwh.3	-	12	1066	c.946C>G	c.(946-948)CCC>GCC	p.P316A	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Missense_Mutation_p.P316A|CORO7_uc002cwg.3_Missense_Mutation_p.P96A|CORO7_uc010uxh.1_Missense_Mutation_p.P298A|CORO7_uc010uxi.1_Missense_Mutation_p.P231A|CORO7_uc002cwi.1_Missense_Mutation_p.P96A|CORO7_uc010uxj.1_RNA|CORO7_uc010btp.1_Missense_Mutation_p.P96A	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	316						cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						GCCTGCCGGGGCACAAGGGCA	0.657													5	11	---	---	---	---	PASS	C	4414874	C	C	4414874	3	2	64	1	0	0	0	0	1	0	0	0	3759	1203	42	4	1899	4	CORO7	16	4414874	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	582123	4414874	85939879	408	25351										
TMEM186	25880	broad.mit.edu	37	chr16	8889886	8889886	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcgtccatagcgcagggtgaCgtagaaggtctgtttcccac	13	11	1	2	rs145887653	byFrequency	TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:8889886C>A	uc002cze.2	-	2	599	c.565G>T	c.(565-567)GTC>TTC	p.V189F	PMM2_uc002czf.3_5'Flank|PMM2_uc010uyf.1_5'Flank|PMM2_uc010uyg.1_5'Flank|PMM2_uc010uyh.1_5'Flank|PMM2_uc010buj.2_5'Flank|PMM2_uc010uyi.1_5'Flank|PMM2_uc010uye.1_5'Flank	NM_015421	NP_056236	Q96B77	TM186_HUMAN	transmembrane protein 186	189						integral to membrane|mitochondrion				ovary(1)	1						CGCAGGGTGACGTAGAAGGTC	0.547													70	140	---	---	---	---	PASS	A	8889886	A	A	8889886	3	1	64	1	0	0	0	0	1	0	0	0	16105	536	19	1	80	1	TMEM186	16	8889886	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	4475012	8889886	81464867	409	25352										
USP7	7874	broad.mit.edu	37	chr16	8996252	8996252	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atttactgttttattgccgtCggcttcattatctaacattg	6	8	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:8996252C>T	uc002czl.2	-	17	2126	c.1927G>A	c.(1927-1929)GAC>AAC	p.D643N	USP7_uc010uyk.1_Missense_Mutation_p.D544N|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.D544N|USP7_uc002czk.2_Missense_Mutation_p.D627N|USP7_uc010uyl.1_RNA	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	643	Interaction with ICP0/VMW110.				interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TTATTGCCGTCGGCTTCATTA	0.413													6	67	---	---	---	---	PASS	T	8996252	T	T	8996252	3	4	64	1	0	0	0	0	1	0	0	0	17085	884	31	2	1441	2	USP7	16	8996252	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	106366	8996252	81358501	410	25353										
PALB2	79728	broad.mit.edu	37	chr16	23641137	23641137	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atgtggttttgctgggctgcCtgaactgtcgaattgtttag	13	6	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:23641137C>T	uc002dlx.1	-	5	2538	c.2338G>A	c.(2338-2340)GGC>AGC	p.G780S		NM_024675	NP_078951	Q86YC2	PALB2_HUMAN	partner and localizer of BRCA2	780					double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)		GCTGGGCTGCCTGAACTGTCG	0.512			F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				26	59	---	---	---	---	PASS	T	23641137	T	T	23641137	3	4	64	1	0	0	0	0	1	0	0	0	11406	681	24	3	1258	3	PALB2	16	23641137	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	14644885	23641137	66713616	411	25354										
KIF22	3835	broad.mit.edu	37	chr16	29810585	29810585	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acctttgttcttacccccagGtggaccagcgggaacgtttg	11	12	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:29810585G>C	uc002dts.3	+	6	784	c.760G>C	c.(760-762)GTG>CTG	p.V254L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|KIF22_uc010vdv.1_Missense_Mutation_p.V186L|KIF22_uc010vdw.1_Missense_Mutation_p.V186L|KIF22_uc010bzf.2_Missense_Mutation_p.V186L	NM_007317	NP_015556	Q14807	KIF22_HUMAN	kinesin family member 22	254	Kinesin-motor.				blood coagulation|DNA repair|microtubule-based movement|mitosis	cytosol|kinetochore|microtubule|nucleus	ATP binding|DNA binding|microtubule motor activity|protein binding				0						TTACCCCCAGGTGGACCAGCG	0.602													11	28	---	---	---	---	PASS	C	29810585	C	C	29810585	3	2	64	1	0	0	0	0	1	0	0	0	8290	1275	44	4	782	4	KIF22	16	29810585	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	6169448	29810585	60544168	412	25355										
FAM57B	83723	broad.mit.edu	37	chr16	30038040	30038040	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cgtgctgcccggggctctggCcgctccgtcgtcccctccat	12	19	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:30038040C>A	uc002dvt.2	-	3	672	c.334G>T	c.(334-336)GCC>TCC	p.A112S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|FAM57B_uc002dvu.2_Missense_Mutation_p.A62S	NM_031478	NP_113666	Q71RH2	FA57B_HUMAN	hypothetical protein LOC83723	112	TLC.					endoplasmic reticulum|integral to membrane					0						GGGGCTCTGGCCGCTCCGTCG	0.612													14	25	---	---	---	---	PASS	A	30038040	A	A	30038040	3	1	64	1	0	0	0	0	1	0	0	0	5589	739	26	3	502	3	FAM57B	16	30038040	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	227455	30038040	60316713	413	25356										
ZNF646	9726	broad.mit.edu	37	chr16	31088519	31088519	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctcgactgcatgcccagtatCggccttaccactgtccccac	7	18	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:31088519C>T	uc002eap.2	+	2	1163	c.874C>T	c.(874-876)CGG>TGG	p.R292W		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	292					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						TGCCCAGTATCGGCCTTACCA	0.607													4	67	---	---	---	---	PASS	T	31088519	T	T	31088519	3	4	64	1	0	0	0	0	1	0	0	0	18059	875	31	2	876	2	ZNF646	16	31088519	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1050479	31088519	59266234	414	25357										
ZNF423	23090	broad.mit.edu	37	chr16	49670780	49670780	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgcacctgcaggtcagcctcCttgcggaagtcccagttgca	11	14	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:49670780C>A	uc002efs.2	-	5	2581	c.2283G>T	c.(2281-2283)AAG>AAT	p.K761N	ZNF423_uc010vgn.1_Missense_Mutation_p.K644N	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	761	C2H2-type 18.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GGTCAGCCTCCTTGCGGAAGT	0.597													41	41	---	---	---	---	PASS	A	49670780	A	A	49670780	3	1	64	1	0	0	0	0	1	0	0	0	17895	680	24	3	1591	3	ZNF423	16	49670780	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	18582261	49670780	40683973	415	25358										
HEATR3	55027	broad.mit.edu	37	chr16	50112783	50112783	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttattcaaatgaaagaggctGaaacgcaaaggttaaaaact	8	5	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:50112783G>C	uc002efw.2	+	7	1057	c.895G>C	c.(895-897)GAA>CAA	p.E299Q	HEATR3_uc002efx.2_Missense_Mutation_p.E213Q	NM_182922	NP_891552	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3	299							binding			ovary(1)|skin(1)	2						GAAAGAGGCTGAAACGCAAAG	0.368													20	72	---	---	---	---	PASS	C	50112783	C	C	50112783	3	2	64	1	0	0	0	0	1	0	0	0	7029	1291	45	2	921	2	HEATR3	16	50112783	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	442003	50112783	40241970	416	25359										
TOX3	27324	broad.mit.edu	37	chr16	52473751	52473751	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gagggattgctggagagtctGaggtgatgctgacactgttc	16	6	1	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:52473751G>C	uc002egw.2	-	7	1288	c.1117C>G	c.(1117-1119)CAG>GAG	p.Q373E	TOX3_uc010vgt.1_Missense_Mutation_p.Q368E|TOX3_uc010vgu.1_Missense_Mutation_p.Q373E	NM_001080430	NP_001073899	O15405	TOX3_HUMAN	TOX high mobility group box family member 3	373					apoptosis|negative regulation of neuron apoptosis|positive regulation of anti-apoptosis|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|estrogen response element binding|phosphoprotein binding|protein homodimerization activity				0						TGGAGAGTCTGAGGTGATGCT	0.512													101	204	---	---	---	---	PASS	C	52473751	C	C	52473751	3	2	64	1	0	0	0	0	1	0	0	0	16376	1299	45	2	617	2	TOX3	16	52473751	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2360968	52473751	37881002	417	25360										
CBFB	865	broad.mit.edu	37	chr16	67116119	67116119	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttcatgtattctgacagcagGaggatgcattagcacaacag	10	8	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:67116119G>T	uc002era.2	+	5	664	c.403G>T	c.(403-405)GAG>TAG	p.E135*	CBFB_uc002erb.2_Nonsense_Mutation_p.E135*|CBFB_uc010vja.1_Intron	NM_001755	NP_001746	Q13951	PEBB_HUMAN	core-binding factor, beta subunit isoform 2	135					transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			breast(2)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00189)|Epithelial(162;0.00755)|all cancers(182;0.066)		CTGACAGCAGGAGGATGCATT	0.348			T	MYH11	AML								15	31	---	---	---	---	PASS	T	67116119	T	T	67116119	4	4	64	1	0	0	0	0	0	1	0	0	2699	1175	41	2	421	2	CBFB	16	67116119	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	14642368	67116119	23238634	418	25361										
CBFB	865	broad.mit.edu	37	chr16	67116183	67116183	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gacacgcgaatttgaagataGagacaggtctcatcgggagg	14	7	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:67116183G>C	uc002era.2	+	5	728	c.467G>C	c.(466-468)AGA>ACA	p.R156T	CBFB_uc002erb.2_Missense_Mutation_p.R156T|CBFB_uc010vja.1_Intron	NM_001755	NP_001746	Q13951	PEBB_HUMAN	core-binding factor, beta subunit isoform 2	156					transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			breast(2)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00189)|Epithelial(162;0.00755)|all cancers(182;0.066)		TTTGAAGATAGAGACAGGTCT	0.458			T	MYH11	AML								23	73	---	---	---	---	PASS	C	67116183	C	C	67116183	3	2	64	1	0	0	0	0	1	0	0	0	2699	942	33	2	485	2	CBFB	16	67116183	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	64	67116183	23238570	419	25362										
VAC14	55697	broad.mit.edu	37	chr16	70820221	70820221	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gggacagggtctggatcacaTgcttgatttgcacggtattg	14	7	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:70820221T>A	uc002ezm.2	-	2	410	c.152A>T	c.(151-153)CAT>CTT	p.H51L	VAC14_uc010cfw.2_Intron|VAC14_uc002ezn.2_5'UTR	NM_018052	NP_060522	Q08AM6	VAC14_HUMAN	Vac14 homolog	51					interspecies interaction between organisms	endoplasmic reticulum|endosome membrane|microsome	protein binding|receptor activity			pancreas(1)|skin(1)	2		Ovarian(137;0.0699)				CTGGATCACATGCTTGATTTG	0.632													39	81	---	---	---	---	PASS	A	70820221	A	A	70820221	3	1	64	1	0	0	0	0	1	0	0	0	17108	1464	51	5	2268	5	VAC14	16	70820221	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	3704038	70820221	19534532	420	25363										
C16orf46	123775	broad.mit.edu	37	chr16	81094912	81094912	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aacatgctttcgggtgatcaCaggagatcttggctccttgg	12	9	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:81094912C>A	uc002fgc.3	-	4	1301	c.1042G>T	c.(1042-1044)GTG>TTG	p.V348L	C16orf46_uc010chf.2_Missense_Mutation_p.V348L|C16orf46_uc010vno.1_Missense_Mutation_p.V75L	NM_152337	NP_689550	Q6P387	CP046_HUMAN	chromosome 16 open reading frame 46 isoform 2	348											0						CGGGTGATCACAGGAGATCTT	0.522													80	140	---	---	---	---	PASS	A	81094912	A	A	81094912	3	1	64	1	0	0	0	0	1	0	0	0	1815	478	17	3	177	3	C16orf46	16	81094912	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	10274691	81094912	9259841	421	25364										
PKD1L2	114780	broad.mit.edu	37	chr16	81204638	81204638	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctctgcacgtcctccaagccGgtggtgactgcagacagtga	12	13	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:81204638G>C	uc002fgh.1	-	17	2820	c.2820C>G	c.(2818-2820)ACC>ACG	p.T940T	PKD1L2_uc002fgg.1_RNA|PKD1L2_uc002fgi.2_Silent_p.T255T|PKD1L2_uc002fgj.2_Silent_p.T940T	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	940	REJ.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCTCCAAGCCGGTGGTGACTG	0.592													28	28	---	---	---	---	PASS	C	81204638	C	C	81204638	2	2	64	1	0	0	0	0	0	0	0	1	11965	1103	39	4		4	PKD1L2	16	81204638	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	109726	81204638	9150115	422	25365										
SLC38A8	146167	broad.mit.edu	37	chr16	84063148	84063148	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cactgaacacagaggtccagGaggcagggctgtaaacagac	13	10	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr16:84063148G>C	uc002fhg.1	-	5	641	c.641C>G	c.(640-642)TCC>TGC	p.S214C		NM_001080442	NP_001073911	A6NNN8	S38A8_HUMAN	solute carrier family 38, member 8	214					amino acid transport|sodium ion transport	integral to membrane					0						AGAGGTCCAGGAGGCAGGGCT	0.502													11	54	---	---	---	---	PASS	C	84063148	C	C	84063148	3	2	64	1	0	0	0	0	1	0	0	0	14610	1174	41	2	690	2	SLC38A8	16	84063148	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2858510	84063148	6291605	423	25366										
ABR	29	broad.mit.edu	37	chr17	1028614	1028614	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gacatggtgggcgactcatcGatgtacggcatggtctctga	14	9	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:1028614G>T	uc002fsd.2	-	2	260	c.150C>A	c.(148-150)ATC>ATA	p.I50I	ABR_uc002fse.2_Silent_p.I4I|ABR_uc010cjq.1_Silent_p.I62I	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	50					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		GCGACTCATCGATGTACGGCA	0.667													3	114	---	---	---	---	PASS	T	1028614	T	T	1028614	2	4	64	1	0	0	0	0	0	0	0	1	99	1048	37	2		2	ABR	17	1028614	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08		1028614	80166596	424	25367										
USP6	9098	broad.mit.edu	37	chr17	5073990	5073990	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gctggctgacgccttgagccGagggcatatgcgggggggca	19	10	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:5073990G>A	uc002gau.1	+	36	5964	c.3734G>A	c.(3733-3735)CGA>CAA	p.R1245Q	USP6_uc002gav.1_Missense_Mutation_p.R1245Q|USP6_uc010ckz.1_Missense_Mutation_p.R928Q	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	1245					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						GCCTTGAGCCGAGGGCATATG	0.537			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								22	27	---	---	---	---	PASS	A	5073990	A	A	5073990	3	1	64	1	0	0	0	0	1	0	0	0	17083	1058	37	2	3840	2	USP6	17	5073990	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	4045376	5073990	76121220	425	25368										
NLGN2	57555	broad.mit.edu	37	chr17	7319158	7319158	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaaccctgctggcgctctttActgaccaccaatgggtggca	10	13	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:7319158A>G	uc002ggt.1	+	6	1439	c.1366A>G	c.(1366-1368)ACT>GCT	p.T456A		NM_020795	NP_065846	Q8NFZ4	NLGN2_HUMAN	neuroligin 2 precursor	456	Extracellular (Potential).				cell-cell junction maintenance|neuron cell-cell adhesion|positive regulation of synaptogenesis|regulation of inhibitory postsynaptic membrane potential|synapse assembly	cell surface|integral to plasma membrane|postsynaptic membrane	neurexin binding|receptor activity			central_nervous_system(1)	1		Prostate(122;0.157)				GGCGCTCTTTACTGACCACCA	0.577													58	12	---	---	---	---	PASS	G	7319158	G	G	7319158	3	3	64	1	0	0	0	0	1	0	0	0	10462	391	14	5	1388	5	NLGN2	17	7319158	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	2245168	7319158	73876052	426	25369										
TP53	7157	broad.mit.edu	37	chr17	7577141	7577141	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcacctcaaagctgttccgtCccagtagattaccactactc	6	15	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:7577141C>A	uc002gim.2	-	8	991	c.797G>T	c.(796-798)GGA>GTA	p.G266V	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.G266V|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G134V|TP53_uc010cng.1_Missense_Mutation_p.G134V|TP53_uc002gii.1_Missense_Mutation_p.G134V|TP53_uc010cnh.1_Missense_Mutation_p.G266V|TP53_uc010cni.1_Missense_Mutation_p.G266V|TP53_uc002gij.2_Missense_Mutation_p.G266V	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	266	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		G -> R (in sporadic cancers; somatic mutation).|G -> V (in sporadic cancers; somatic mutation).|G -> E (in sporadic cancers; somatic mutation).|G -> A (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G266E(45)|p.G266R(42)|p.G266V(32)|p.G266*(12)|p.0?(7)|p.G266fs*79(5)|p.?(3)|p.G262_F270delGNLLGRNSF(2)|p.G266A(2)|p.G266G(2)|p.G266_E271delGRNSFE(2)|p.G262_S269delGNLLGRNS(2)|p.G266fs*4(1)|p.G266T(1)|p.L265_K305del41(1)|p.E258fs*71(1)|p.G266fs*9(1)|p.L265_R267delLGR(1)|p.G266_N268delGRN(1)|p.G262fs*2(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)		GCTGTTCCGTCCCAGTAGATT	0.517		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)			18	7	---	---	---	---	PASS	A	7577141	A	A	7577141	3	1	64	1	0	0	0	0	1	0	0	0	16378	855	30	2	489	2	TP53	17	7577141	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	257983	7577141	73618069	427	25370										
WRAP53	55135	broad.mit.edu	37	chr17	7592030	7592030	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cttcagaccaggacccagctCcagcccatccttctccccac	5	21	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:7592030C>G	uc010vuh.1	+	2	219	c.64C>G	c.(64-66)CCA>GCA	p.P22A	WRAP53_uc010vui.1_Missense_Mutation_p.P22A|WRAP53_uc002gip.2_Missense_Mutation_p.P22A|WRAP53_uc002gir.2_Missense_Mutation_p.P22A|WRAP53_uc002giq.2_RNA|WRAP53_uc010cnl.2_Missense_Mutation_p.P22A|TP53_uc010cnh.1_5'Flank|TP53_uc010cni.1_5'Flank|TP53_uc002gim.2_5'Flank|TP53_uc002gij.2_5'Flank|TP53_uc002gin.2_5'Flank|TP53_uc002gio.2_5'Flank|TP53_uc010vug.1_5'Flank|TP53_uc010cnk.1_5'Flank	NM_001143990	NP_001137462	Q9BUR4	WAP53_HUMAN	WD repeat domain 79 isoform 2	22	Pro-rich.				positive regulation of telomerase activity|telomere formation via telomerase	Cajal body|cytoplasm|telomerase holoenzyme complex	protein binding|RNA binding				0						GGACCCAGCTCCAGCCCATCC	0.587													4	76	---	---	---	---	PASS	G	7592030	G	G	7592030	3	3	64	1	0	0	0	0	1	0	0	0	17397	855	30	2	66	2	WRAP53	17	7592030	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	14889	7592030	73603180	428	25371										
MYH2	4620	broad.mit.edu	37	chr17	10432298	10432298	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcttccagcctctcgctgatCtcctccagctcccgggagag	9	17	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:10432298C>A	uc010coi.2	-	27	3581	c.3453G>T	c.(3451-3453)GAG>GAT	p.E1151D	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.E1151D|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1151	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TCTCGCTGATCTCCTCCAGCT	0.622													96	18	---	---	---	---	PASS	A	10432298	A	A	10432298	3	1	64	1	0	0	0	0	1	0	0	0	10035	912	32	2	2428	2	MYH2	17	10432298	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2840268	10432298	70762912	429	25372										
C17orf48	56985	broad.mit.edu	37	chr17	10608831	10608831	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cacaatccaaatacggaactGaatagtcctcaaggtgaatt	7	9	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:10608831G>C	uc002gmt.2	+	2	663	c.588G>C	c.(586-588)CTG>CTC	p.L196L	C17orf48_uc002gmu.2_RNA|C17orf48_uc002gmv.2_RNA|C17orf48_uc010vvg.1_Silent_p.L196L	NM_020233	NP_064618	Q3LIE5	ADPRM_HUMAN	ADP-ribose/CDP-alcohol pyrophosphatase	196							ADP-ribose diphosphatase activity|CDP-glycerol diphosphatase activity|metal ion binding				0						ATACGGAACTGAATAGTCCTC	0.383													5	121	---	---	---	---	PASS	C	10608831	C	C	10608831	2	2	64	1	0	0	0	0	0	0	0	1	1859	1277	45	2		2	C17orf48	17	10608831	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	176533	10608831	70586379	430	25373										
DNAH9	1770	broad.mit.edu	37	chr17	11550450	11550450	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cagagaagtcacagtacaatCtttcccaaccacttctaaaa	4	12	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:11550450C>G	uc002gne.2	+	12	2100	c.2032C>G	c.(2032-2034)CTT>GTT	p.L678V		NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	678	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		ACAGTACAATCTTTCCCAACC	0.483													10	167	---	---	---	---	PASS	G	11550450	G	G	11550450	3	3	64	1	0	0	0	0	1	0	0	0	4608	913	32	2	2078	2	DNAH9	17	11550450	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	941619	11550450	69644760	431	25374										
ULK2	9706	broad.mit.edu	37	chr17	19770651	19770651	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cggcgctcacctggcggtgcCgcccccggaagaccacggcg	15	18	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:19770651C>A	uc002gwm.3	-	1	589	c.80G>T	c.(79-81)CGG>CTG	p.R27L	ULK2_uc002gwn.2_Missense_Mutation_p.R27L	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	27	Protein kinase.				signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					CTGGCGGTGCCGCCCCCGGAA	0.577													10	2	---	---	---	---	PASS	A	19770651	A	A	19770651	3	1	64	1	0	0	0	0	1	0	0	0	16973	652	23	1	3138	1	ULK2	17	19770651	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	8220201	19770651	61424559	432	25375										
SDF2	6388	broad.mit.edu	37	chr17	26976155	26976155	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	taggtcgaccatattgttctCctgtgacagacagcagtacc	9	11	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:26976155C>A	uc002hbw.2	-	3	527	c.488G>T	c.(487-489)GGA>GTA	p.G163V	SDF2_uc002hbx.2_RNA	NM_006923	NP_008854	Q99470	SDF2_HUMAN	stromal cell-derived factor 2 precursor	163	MIR 3.				protein glycosylation	extracellular space|membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity				0	Lung NSC(42;0.00431)					ATATTGTTCTCCTGTGACAGA	0.512													14	116	---	---	---	---	PASS	A	26976155	A	A	26976155	3	1	64	1	0	0	0	0	1	0	0	0	13960	855	30	2	151	2	SDF2	17	26976155	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	7205504	26976155	54219055	433	25376										
RAB34	83871	broad.mit.edu	37	chr17	27042849	27042849	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaagggaatgcccagcacctCaaatcgttccatctcgaagt	9	12	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:27042849C>G	uc002hce.2	-	4	907	c.283G>C	c.(283-285)GAG>CAG	p.E95Q	RAB34_uc002hcg.2_Missense_Mutation_p.E95Q|RAB34_uc002hcf.2_Missense_Mutation_p.E96Q|RAB34_uc010was.1_Missense_Mutation_p.E152Q|RAB34_uc010wat.1_Missense_Mutation_p.E152Q|RAB34_uc002hch.2_Missense_Mutation_p.E95Q|RAB34_uc010wau.1_Missense_Mutation_p.E73Q|RAB34_uc010wav.1_Missense_Mutation_p.E153Q	NM_031934	NP_114140	Q9BZG1	RAB34_HUMAN	Ras-related protein RAB34 isoform 1	95					protein transport|small GTPase mediated signal transduction	Golgi apparatus	GTP binding				0	Lung NSC(42;0.00431)					CCCAGCACCTCAAATCGTTCC	0.517													7	171	---	---	---	---	PASS	G	27042849	G	G	27042849	3	3	64	1	0	0	0	0	1	0	0	0	12924	835	29	2	588	2	RAB34	17	27042849	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	66694	27042849	54152361	434	25377										
RPL23A	6147	broad.mit.edu	37	chr17	27047813	27047813	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtccacagccacaaaaagaaGaagatccgcacgtcacccac	7	15	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:27047813G>A	uc002hci.2	+	2	138	c.114G>A	c.(112-114)AAG>AAA	p.K38K	RAB34_uc002hce.2_5'Flank|RAB34_uc002hcg.2_5'Flank|RAB34_uc002hcf.2_5'Flank|RAB34_uc010was.1_5'Flank|RAB34_uc010wat.1_5'Flank|RAB34_uc002hch.2_5'Flank|RAB34_uc010wau.1_5'Flank|RAB34_uc010wav.1_5'Flank|RPL23A_uc002hck.1_RNA|SNORD4A_uc002hcl.2_5'Flank|SNORD42A_uc002hcm.1_5'Flank|SNORD4B_uc002hcn.1_5'Flank	NM_000984	NP_000975	P62750	RL23A_HUMAN	ribosomal protein L23a	38					cell proliferation|endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleus	nucleotide binding|protein binding|rRNA binding|structural constituent of ribosome			ovary(1)	1	Lung NSC(42;0.00431)					ACAAAAAGAAGAAGATCCGCA	0.552											OREG0024282	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	58	---	---	---	---	PASS	A	27047813	A	A	27047813	2	1	64	1	0	0	0	0	0	0	0	1	13571	933	33	2		2	RPL23A	17	27047813	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	4964	27047813	54147397	435	25378										
EFCAB5	374786	broad.mit.edu	37	chr17	28296329	28296329	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atgtctggttaccagaggttGatgaaagaagtcacagaaga	12	5	2	6			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:28296329G>A	uc002het.2	+	4	903	c.711G>A	c.(709-711)TTG>TTA	p.L237L	EFCAB5_uc010wbi.1_Intron|EFCAB5_uc010wbj.1_Silent_p.L181L|EFCAB5_uc010wbk.1_Intron|EFCAB5_uc010csd.2_RNA|EFCAB5_uc010cse.2_Silent_p.L116L|EFCAB5_uc010csf.2_Silent_p.L116L	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	237							calcium ion binding			ovary(1)|skin(1)	2						ACCAGAGGTTGATGAAAGAAG	0.363													9	23	---	---	---	---	PASS	A	28296329	A	A	28296329	2	1	64	1	0	0	0	0	0	0	0	1	4938	1281	45	2		2	EFCAB5	17	28296329	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	1248516	28296329	52898881	436	25379										
ERBB2	2064	broad.mit.edu	37	chr17	37883158	37883158	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgggggacctggtggatgctGaggagtatctggtaccccag	17	8	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:37883158G>C	uc002hso.2	+	25	3299	c.3061G>C	c.(3061-3063)GAG>CAG	p.E1021Q	ERBB2_uc002hsm.2_Missense_Mutation_p.E991Q|ERBB2_uc010cwa.2_Missense_Mutation_p.E1006Q|ERBB2_uc002hsp.2_Missense_Mutation_p.E824Q|ERBB2_uc010cwb.2_Missense_Mutation_p.E1021Q|ERBB2_uc010wek.1_Missense_Mutation_p.E745Q	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	1021	Cytoplasmic (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	GGTGGATGCTGAGGAGTATCT	0.627		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			52	148	---	---	---	---	PASS	C	37883158	C	C	37883158	3	2	64	1	0	0	0	0	1	0	0	0	5206	1291	45	2	3159	2	ERBB2	17	37883158	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	9586829	37883158	43312052	437	25380										
PSMD3	5709	broad.mit.edu	37	chr17	38142963	38142963	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgaacagcaagcgctacaaaGaggtatccaggatgcagtga	12	8	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:38142963G>C	uc002htn.1	+	3	711	c.547G>C	c.(547-549)GAG>CAG	p.E183Q	PSMD3_uc010wen.1_RNA|PSMD3_uc010weo.1_Missense_Mutation_p.E84Q	NM_002809	NP_002800	O43242	PSMD3_HUMAN	proteasome 26S non-ATPase subunit 3	183					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	enzyme regulator activity|protein binding			ovary(1)|pancreas(1)	2	Colorectal(19;0.000442)					GCGCTACAAAGAGGTATCCAG	0.522													124	26	---	---	---	---	PASS	C	38142963	C	C	38142963	3	2	64	1	0	0	0	0	1	0	0	0	12699	943	33	2	557	2	PSMD3	17	38142963	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	259805	38142963	43052247	438	25381										
WIPF2	147179	broad.mit.edu	37	chr17	38421251	38421251	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccactaatgagtcagcccctGagctgccacagagacacaat	8	14	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:38421251G>C	uc002hug.1	+	5	1063	c.823G>C	c.(823-825)GAG>CAG	p.E275Q	WIPF2_uc002huh.1_Missense_Mutation_p.E125Q|WIPF2_uc010cww.1_Missense_Mutation_p.E125Q|WIPF2_uc002hui.1_Missense_Mutation_p.E275Q|WIPF2_uc010cwx.1_Intron|WIPF2_uc010cwy.1_Missense_Mutation_p.E275Q	NM_133264	NP_573571	Q8TF74	WIPF2_HUMAN	WIRE protein	275						cytoplasm|cytoskeleton	actin binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						GTCAGCCCCTGAGCTGCCACA	0.607										HNSCC(43;0.11)			11	117	---	---	---	---	PASS	C	38421251	C	C	38421251	3	2	64	1	0	0	0	0	1	0	0	0	17365	1291	45	2	837	2	WIPF2	17	38421251	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	278288	38421251	42773959	439	25382										
BRCA1	672	broad.mit.edu	37	chr17	41243518	41243518	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcccgttcctctttcttcatCatctgaaaccaattccttgt	4	14	5	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:41243518C>T	uc002icq.2	-	10	4262	c.4030G>A	c.(4030-4032)GAT>AAT	p.D1344N	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.D1273N|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.D1297N|BRCA1_uc002ict.2_Missense_Mutation_p.D1344N|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.D1344N|BRCA1_uc002ide.1_Missense_Mutation_p.D1175N|BRCA1_uc010cyy.1_Missense_Mutation_p.D1344N|BRCA1_uc010whs.1_Missense_Mutation_p.D1344N|BRCA1_uc010cyz.2_Missense_Mutation_p.D1297N|BRCA1_uc010cza.2_Missense_Mutation_p.D1318N|BRCA1_uc010wht.1_Missense_Mutation_p.D1048N	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	1344					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		CTTTCTTCATCATCTGAAACC	0.428			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			6	173	---	---	---	---	PASS	T	41243518	T	T	41243518	3	4	64	1	0	0	0	0	1	0	0	0	1498	826	29	2	1687	2	BRCA1	17	41243518	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2822267	41243518	39951692	440	25383										
BRCA1	672	broad.mit.edu	37	chr17	41244205	41244205	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	attaacagtctgaactacttCttcatattcttgctttttta	3	8	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:41244205C>G	uc002icq.2	-	10	3575	c.3343G>C	c.(3343-3345)GAA>CAA	p.E1115Q	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.E1044Q|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.E1068Q|BRCA1_uc002ict.2_Missense_Mutation_p.E1115Q|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.E1115Q|BRCA1_uc002ide.1_Missense_Mutation_p.E946Q|BRCA1_uc010cyy.1_Missense_Mutation_p.E1115Q|BRCA1_uc010whs.1_Missense_Mutation_p.E1115Q|BRCA1_uc010cyz.2_Missense_Mutation_p.E1068Q|BRCA1_uc010cza.2_Missense_Mutation_p.E1089Q|BRCA1_uc010wht.1_Missense_Mutation_p.E819Q	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	1115					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TGAACTACTTCTTCATATTCT	0.363			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			9	177	---	---	---	---	PASS	G	41244205	G	G	41244205	3	3	64	1	0	0	0	0	1	0	0	0	1498	922	32	2	2374	2	BRCA1	17	41244205	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	687	41244205	39951005	441	25384										
BRCA1	672	broad.mit.edu	37	chr17	41244844	41244844	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttcttccttttgttcacattCaaaagtgacttttggacttt	5	8	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:41244844C>G	uc002icq.2	-	10	2936	c.2704G>C	c.(2704-2706)GAA>CAA	p.E902Q	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.E831Q|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.E855Q|BRCA1_uc002ict.2_Missense_Mutation_p.E902Q|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.E902Q|BRCA1_uc002ide.1_Missense_Mutation_p.E733Q|BRCA1_uc010cyy.1_Missense_Mutation_p.E902Q|BRCA1_uc010whs.1_Missense_Mutation_p.E902Q|BRCA1_uc010cyz.2_Missense_Mutation_p.E855Q|BRCA1_uc010cza.2_Missense_Mutation_p.E876Q|BRCA1_uc010wht.1_Missense_Mutation_p.E606Q	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	902					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TGTTCACATTCAAAAGTGACT	0.398			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			6	150	---	---	---	---	PASS	G	41244844	G	G	41244844	3	3	64	1	0	0	0	0	1	0	0	0	1498	835	29	2	3013	2	BRCA1	17	41244844	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	639	41244844	39950366	442	25385										
GJC1	10052	broad.mit.edu	37	chr17	42882559	42882559	+	Missense_Mutation	SNP	G	C	C													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgaggacaaggaagtctgctGcacacataaaacgggtggac							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:42882559G>C	uc002ihj.2	-	2	1138	c.627C>G	c.(625-627)TGC>TGG	p.C209W	GJC1_uc002ihk.2_Missense_Mutation_p.C209W|GJC1_uc002ihl.2_Missense_Mutation_p.C209W|GJC1_uc010czx.2_Missense_Mutation_p.C209W|GJC1_uc010czy.1_Missense_Mutation_p.C70W	NM_005497	NP_005488	P36383	CXG1_HUMAN	connexin 45	209	Extracellular (Potential).				cellular membrane organization|gap junction assembly|muscle contraction|synaptic transmission|transport	connexon complex|integral to membrane					0		Prostate(33;0.0959)				GAAGTCTGCTGCACACATAAA	0.453													153	31	---	---	---	---	PASS	C	42882559	C	C	42882559	3	2	64	1	0	0	0	0	1	0	0	0	6414	1311	46	4	567	4	GJC1	17	42882559	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1637715	42882559	38312651	443	25386	540	2								
GJC1	10052	broad.mit.edu	37	chr17	42882560	42882560	+	Missense_Mutation	SNP	C	T	T													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaggacaaggaagtctgctgCacacataaaacgggtggact							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:42882560C>T	uc002ihj.2	-	2	1137	c.626G>A	c.(625-627)TGC>TAC	p.C209Y	GJC1_uc002ihk.2_Missense_Mutation_p.C209Y|GJC1_uc002ihl.2_Missense_Mutation_p.C209Y|GJC1_uc010czx.2_Missense_Mutation_p.C209Y|GJC1_uc010czy.1_Missense_Mutation_p.C70Y	NM_005497	NP_005488	P36383	CXG1_HUMAN	connexin 45	209	Extracellular (Potential).				cellular membrane organization|gap junction assembly|muscle contraction|synaptic transmission|transport	connexon complex|integral to membrane					0		Prostate(33;0.0959)				AAGTCTGCTGCACACATAAAA	0.448													155	31	---	---	---	---	PASS	T	42882560	T	T	42882560	3	4	64	1	0	0	0	0	1	0	0	0	6414	710	25	3	568	3	GJC1	17	42882560	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1	42882560	38312650	444	25387	540	2								
ST6GALNAC1	55808	broad.mit.edu	37	chr17	74623625	74623625	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaaagagtttctggagccacAgcgacttggaggctttgatc	13	8	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:74623625A>G	uc002jsh.2	-	3	1046	c.872T>C	c.(871-873)CTG>CCG	p.L291P	ST6GALNAC1_uc002jsi.2_Missense_Mutation_p.L159P|ST6GALNAC1_uc002jsj.2_RNA	NM_018414	NP_060884	Q9NSC7	SIA7A_HUMAN	sialyltransferase 7A	291	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity				0						CTGGAGCCACAGCGACTTGGA	0.557													75	13	---	---	---	---	PASS	G	74623625	G	G	74623625	3	3	64	1	0	0	0	0	1	0	0	0	15222	188	7	5	958	5	ST6GALNAC1	17	74623625	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	31741065	74623625	6571585	445	25388										
NPTX1	4884	broad.mit.edu	37	chr17	78449473	78449473	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gatcttgctctgcagcagatCcttgaggctgttggtctggc	13	10	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:78449473C>G	uc002jyp.1	-	2	648	c.490G>C	c.(490-492)GAT>CAT	p.D164H		NM_002522	NP_002513	Q15818	NPTX1_HUMAN	neuronal pentraxin I precursor	164					central nervous system development|synaptic transmission|transport	transport vesicle	metal ion binding				0	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0487)			TGCAGCAGATCCTTGAGGCTG	0.652													4	35	---	---	---	---	PASS	G	78449473	G	G	78449473	3	3	64	1	0	0	0	0	1	0	0	0	10602	855	30	2	824	2	NPTX1	17	78449473	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	3825848	78449473	2745737	446	25389										
C17orf90	339229	broad.mit.edu	37	chr17	79632239	79632239	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agcagggatggctcagcctcCgcacctggtgtgcagccgga	15	13	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr17:79632239C>T	uc002kba.2	-	2	447	c.436G>A	c.(436-438)GGA>AGA	p.G146R	C17orf90_uc002kbb.2_3'UTR|CCDC137_uc002kbc.3_5'Flank|CCDC137_uc002kbd.2_5'Flank	NM_001039842	NP_001034931	Q5BKU9	CQ090_HUMAN	hypothetical protein LOC339229	146											0	all_neural(118;0.0878)|all_lung(278;0.23)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GCTCAGCCTCCGCACCTGGTG	0.662													42	3	---	---	---	---	PASS	T	79632239	T	T	79632239	3	4	64	1	0	0	0	0	1	0	0	0	1891	661	23	1	11	1	C17orf90	17	79632239	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1182766	79632239	1562971	447	25390										
NAPG	8774	broad.mit.edu	37	chr18	10532793	10532793	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcccatgaaaataatagggcGtatctttttcaacttttaaa	6	7	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr18:10532793G>A	uc002kon.2	+	3	436	c.209_splice	c.e3+1	p.A70_splice	NAPG_uc010wzr.1_Splice_Site|NAPG_uc002koo.2_Intron	NM_003826	NP_003817	Q99747	SNAG_HUMAN	N-ethylmaleimide-sensitive factor attachment						cellular membrane fusion|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein complex assembly|protein stabilization	membrane|membrane fraction|mitochondrion	protein binding				0						ATAATAGGGCGTATCTTTTTC	0.328													9	11	---	---	---	---	PASS	A	10532793	A	A	10532793	5	1	64	1	0	0	0	0	0	0	1	0	10164	1159	40	1	220	1	NAPG	18	10532793	Splice_Site	SNP	G	TCGA-34-2600-01A-01D-1522-08		10532793	67544455	448	25391										
LAMA3	3909	broad.mit.edu	37	chr18	21330896	21330896	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttttaggttgtggtgtccttGataaacggtcgtccaggtgc	13	7	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr18:21330896G>C	uc002kuq.2	+	5	785	c.699G>C	c.(697-699)TTG>TTC	p.L233F	LAMA3_uc010dlv.1_Missense_Mutation_p.L233F|LAMA3_uc002kur.2_Missense_Mutation_p.L233F	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	233	Laminin N-terminal.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGGTGTCCTTGATAAACGGTC	0.398													5	202	---	---	---	---	PASS	C	21330896	C	C	21330896	3	2	64	1	0	0	0	0	1	0	0	0	8607	1281	45	2	717	2	LAMA3	18	21330896	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	10798103	21330896	56746352	449	25392										
DSC1	1823	broad.mit.edu	37	chr18	28725645	28725645	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tatggagaaatgctttggatGatctgggatttgttgtaaga	13	2	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr18:28725645G>A	uc002kwn.2	-	7	1130	c.868C>T	c.(868-870)CAT>TAT	p.H290Y	DSC1_uc002kwm.2_Missense_Mutation_p.H290Y	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	290	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			TGCTTTGGATGATCTGGGATT	0.408													5	269	---	---	---	---	PASS	A	28725645	A	A	28725645	3	1	64	1	0	0	0	0	1	0	0	0	4765	1290	45	2	1896	2	DSC1	18	28725645	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	7394749	28725645	49351603	450	25393										
DSG4	147409	broad.mit.edu	37	chr18	28992992	28992992	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tctgcttaaacacagaaattGaaccatttccttcacaccag	4	12	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr18:28992992G>T	uc002kwq.2	+	16	2692	c.2557G>T	c.(2557-2559)GAA>TAA	p.E853*	DSG4_uc002kwr.2_Nonsense_Mutation_p.E872*	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	853	Cytoplasmic (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			CACAGAAATTGAACCATTTCC	0.403													166	116	---	---	---	---	PASS	T	28992992	T	T	28992992	4	4	64	1	0	0	0	0	0	1	0	0	4779	1291	45	2	2740	2	DSG4	18	28992992	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	267347	28992992	49084256	451	25394										
DSG3	1830	broad.mit.edu	37	chr18	29049058	29049058	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttctttctctacagctacctCggccctcctcagagcccagg	7	17	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr18:29049058C>G	uc002kws.2	+	12	1752	c.1643C>G	c.(1642-1644)TCG>TGG	p.S548W		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	548	Extracellular (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			ACAGCTACCTCGGCCCTCCTC	0.373													4	307	---	---	---	---	PASS	G	29049058	G	G	29049058	3	3	64	1	0	0	0	0	1	0	0	0	4778	893	31	2	1689	2	DSG3	18	29049058	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	56066	29049058	49028190	452	25395										
MYO5B	4645	broad.mit.edu	37	chr18	47581668	47581668	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tccagtctgagctgtaggctCttgtctccttctttgtagtc	9	11	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr18:47581668C>A	uc002leb.2	-	2	396	c.108G>T	c.(106-108)AAG>AAT	p.K36N	MYO5B_uc002lec.1_Missense_Mutation_p.K35N	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	36	Myosin head-like.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		GCTGTAGGCTCTTGTCTCCTT	0.557													74	50	---	---	---	---	PASS	A	47581668	A	A	47581668	3	1	64	1	0	0	0	0	1	0	0	0	10079	912	32	2	5594	2	MYO5B	18	47581668	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	18532610	47581668	30495580	453	25396										
FECH	2235	broad.mit.edu	37	chr18	55221509	55221509	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tacctccttggctaaaacttGagagtactcgatgtccagct	8	11	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr18:55221509G>C	uc002lgq.3	-	9	1177	c.1060C>G	c.(1060-1062)CAA>GAA	p.Q354E	FECH_uc002lgp.3_Missense_Mutation_p.Q360E|FECH_uc002lgr.3_Missense_Mutation_p.Q212E	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor	354					generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding	p.L354L(1)		central_nervous_system(1)	1		Colorectal(73;0.227)				GCTAAAACTTGAGAGTACTCG	0.413													15	615	---	---	---	---	PASS	C	55221509	C	C	55221509	3	2	64	1	0	0	0	0	1	0	0	0	5808	1299	45	2	223	2	FECH	18	55221509	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	7639841	55221509	22855739	454	25397										
CBLN2	147381	broad.mit.edu	37	chr18	70205928	70205928	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acactttgaccacgtggaagCtgaagctataaatccctttt	7	10	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr18:70205928C>G	uc002lku.2	-	3	672	c.437G>C	c.(436-438)AGC>ACC	p.S146T	CBLN2_uc002lkv.2_Missense_Mutation_p.S146T	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	146	C1q.					integral to membrane					0		Esophageal squamous(42;0.131)				CACGTGGAAGCTGAAGCTATA	0.398													145	149	---	---	---	---	PASS	G	70205928	G	G	70205928	3	3	64	1	0	0	0	0	1	0	0	0	2705	797	28	4	245	4	CBLN2	18	70205928	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	14984419	70205928	7871320	455	25398										
ZNF236	7776	broad.mit.edu	37	chr18	74622035	74622035	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	catcctcagatgggtttgtgGctccacaggaccctctgcga	11	13	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr18:74622035G>T	uc002lmi.2	+	15	2755	c.2557G>T	c.(2557-2559)GCT>TCT	p.A853S	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	853					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TGGGTTTGTGGCTCCACAGGA	0.517													115	125	---	---	---	---	PASS	T	74622035	T	T	74622035	3	4	64	1	0	0	0	0	1	0	0	0	17786	1203	42	3	2615	3	ZNF236	18	74622035	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	4416107	74622035	3455213	456	25399										
SALL3	27164	broad.mit.edu	37	chr18	76753675	76753675	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggccctcgcccgcctccagcGagtgcgcctccttgtcccca	10	21	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr18:76753675G>A	uc002lmt.2	+	2	1684	c.1684G>A	c.(1684-1686)GAG>AAG	p.E562K	SALL3_uc010dra.2_Missense_Mutation_p.E169K	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	562					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CGCCTCCAGCGAGTGCGCCTC	0.741													3	10	---	---	---	---	PASS	A	76753675	A	A	76753675	3	1	64	1	0	0	0	0	1	0	0	0	13812	1059	37	2	1690	2	SALL3	18	76753675	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2131640	76753675	1323573	457	25400										
PARD6G	84552	broad.mit.edu	37	chr18	77960632	77960632	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cctgagcaggggatttgcacTagaaaccgccttgcagaagt	12	10	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr18:77960632T>C	uc002lny.2	-	2	422	c.256A>G	c.(256-258)AGT>GGT	p.S86G	PARD6G_uc010xfp.1_Missense_Mutation_p.S86G	NM_032510	NP_115899	Q9BYG4	PAR6G_HUMAN	PAR-6 gamma protein	86	OPR.				cell cycle|cell division|tight junction assembly	cytosol|tight junction	protein binding				0		all_cancers(4;5.63e-22)|all_epithelial(4;5.86e-15)|all_lung(4;1.32e-05)|Ovarian(4;1.33e-05)|Lung NSC(4;2.77e-05)|Esophageal squamous(42;0.0157)|all_hematologic(56;0.13)|Melanoma(33;0.144)		Epithelial(2;1.48e-13)|all cancers(1;5.77e-13)|OV - Ovarian serous cystadenocarcinoma(15;2.74e-10)|BRCA - Breast invasive adenocarcinoma(31;0.00166)|STAD - Stomach adenocarcinoma(84;0.18)|Lung(128;0.23)		GGATTTGCACTAGAAACCGCC	0.463													72	112	---	---	---	---	PASS	C	77960632	C	C	77960632	3	2	64	1	0	0	0	0	1	0	0	0	11447	1522	53	5	882	5	PARD6G	18	77960632	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	1206957	77960632	116616	458	25401										
MKNK2	2872	broad.mit.edu	37	chr19	2041127	2041127	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcttggagatgaggtctttgGcagcgcaggagatgtgggcc	18	7	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:2041127G>C	uc002lus.2	-	12	1267	c.1022C>G	c.(1021-1023)GCC>GGC	p.A341G	MKNK2_uc002luq.1_Missense_Mutation_p.A85G|MKNK2_uc010xgu.1_Missense_Mutation_p.A180G|MKNK2_uc010xgv.1_Missense_Mutation_p.A210G|MKNK2_uc002lur.2_Missense_Mutation_p.A341G|MKNK2_uc002lut.1_Missense_Mutation_p.A85G	NM_199054	NP_951009	Q9HBH9	MKNK2_HUMAN	MAP kinase-interacting serine/threonine kinase 2	341	Protein kinase.				cell surface receptor linked signaling pathway|intracellular protein kinase cascade|regulation of translation		ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(1)|breast(1)	2		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAGGTCTTTGGCAGCGCAGGA	0.607													4	170	---	---	---	---	PASS	C	2041127	C	C	2041127	3	2	64	1	0	0	0	0	1	0	0	0	9605	1203	42	4	482	4	MKNK2	19	2041127	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08		2041127	57087856	459	25402										
ZNF554	115196	broad.mit.edu	37	chr19	2834362	2834362	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atctgagaactcatactggaGagaagccctacgggtgcggt	13	9	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:2834362G>C	uc002lwm.2	+	5	1327	c.1129G>C	c.(1129-1131)GAG>CAG	p.E377Q	ZNF554_uc002lwl.2_Missense_Mutation_p.E326Q	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	377					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCATACTGGAGAGAAGCCCTA	0.552													6	117	---	---	---	---	PASS	C	2834362	C	C	2834362	3	2	64	1	0	0	0	0	1	0	0	0	17982	943	33	2	1147	2	ZNF554	19	2834362	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	793235	2834362	56294621	460	25403										
TMIGD2	126259	broad.mit.edu	37	chr19	4298232	4298232	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccacttaacacggagccgttCccaggctgtggcctggtcca	11	15	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:4298232C>T	uc002lzx.1	-	2	203	c.157G>A	c.(157-159)GAA>AAA	p.E53K	TMIGD2_uc010dtv.1_Missense_Mutation_p.E53K	NM_144615	NP_653216	Q96BF3	TMIG2_HUMAN	transmembrane and immunoglobulin domain	53	Extracellular (Potential).|Ig-like.					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGAGCCGTTCCCAGGCTGTG	0.657													4	69	---	---	---	---	PASS	T	4298232	T	T	4298232	3	4	64	1	0	0	0	0	1	0	0	0	16228	864	30	2	707	2	TMIGD2	19	4298232	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1463870	4298232	54830751	461	25404										
DPP9	91039	broad.mit.edu	37	chr19	4704166	4704166	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaagccgttcttgccgccgtCgcggcagtggaagaggctgt	16	11	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:4704166C>A	uc002mba.2	-	6	835	c.577G>T	c.(577-579)GAC>TAC	p.D193Y	DPP9_uc002mbb.2_Missense_Mutation_p.D193Y|DPP9_uc002mbc.2_Missense_Mutation_p.D193Y	NM_139159	NP_631898	Q86TI2	DPP9_HUMAN	dipeptidylpeptidase 9	164					proteolysis	cytosol|membrane	aminopeptidase activity|serine-type peptidase activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00884)		TTGCCGCCGTCGCGGCAGTGG	0.672													9	19	---	---	---	---	PASS	A	4704166	A	A	4704166	3	1	64	1	0	0	0	0	1	0	0	0	4733	884	31	2	2169	2	DPP9	19	4704166	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	405934	4704166	54424817	462	25405										
C3	718	broad.mit.edu	37	chr19	6696668	6696668	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttgttcattctgattccttcCggctacgcagtgttagaggt	10	9	2	2	rs149209011	byFrequency	TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:6696668C>T	uc002mfm.2	-	22	2861	c.2799G>A	c.(2797-2799)CCG>CCA	p.P933P		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	933					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TGATTCCTTCCGGCTACGCAG	0.577													5	253	---	---	---	---	PASS	T	6696668	T	T	6696668	2	4	64	1	0	0	0	0	0	0	0	1	2204	639	23	1		1	C3	19	6696668	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	1992502	6696668	52432315	463	25406										
XAB2	56949	broad.mit.edu	37	chr19	7685290	7685290	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggtgtcctcattgccatgccGgacctcaaagtccttccacg	9	15	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:7685290G>A	uc002mgx.2	-	16	2163	c.2137C>T	c.(2137-2139)CGG>TGG	p.R713W		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	713	HAT 14.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						TTGCCATGCCGGACCTCAAAG	0.637								Direct_reversal_of_damage|NER					76	45	---	---	---	---	PASS	A	7685290	A	A	7685290	3	1	64	1	0	0	0	0	1	0	0	0	17415	1115	39	1	446	1	XAB2	19	7685290	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	988622	7685290	51443693	464	25407										
MUC16	94025	broad.mit.edu	37	chr19	9020767	9020767	+	Silent	SNP	G	A	A													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gatcttctaaggtctcacctGagagaggtcagtctgcagcc							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:9020767G>A	uc002mkp.2	-	20	37539	c.37335C>T	c.(37333-37335)CTC>CTT	p.L12445L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12447	Extracellular (Potential).|SEA 3.				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						GGTCTCACCTGAGAGAGGTCA	0.547													8	102	---	---	---	---	PASS	A	9020767	A	A	9020767	2	1	64	1	0	0	0	0	0	0	0	1	9973	1277	45	2		2	MUC16	19	9020767	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	1335477	9020767	50108216	465	25408	541	2								
MUC16	94025	broad.mit.edu	37	chr19	9020769	9020769	+	Missense_Mutation	SNP	G	A	A													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcttctaaggtctcacctgaGagaggtcagtctgcagccag							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:9020769G>A	uc002mkp.2	-	20	37537	c.37333C>T	c.(37333-37335)CTC>TTC	p.L12445F		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12447	Extracellular (Potential).|SEA 3.				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						TCTCACCTGAGAGAGGTCAGT	0.537													8	104	---	---	---	---	PASS	A	9020769	A	A	9020769	3	1	64	1	0	0	0	0	1	0	0	0	9973	942	33	2	6450	2	MUC16	19	9020769	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2	9020769	50108214	466	25409	541	2								
MUC16	94025	broad.mit.edu	37	chr19	9066654	9066654	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tctcagaggaaacagacattGatgtggaaacagttgtatgc	11	6	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:9066654G>A	uc002mkp.2	-	3	20996	c.20792C>T	c.(20791-20793)TCA>TTA	p.S6931L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6933	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AACAGACATTGATGTGGAAAC	0.458													128	331	---	---	---	---	PASS	A	9066654	A	A	9066654	3	1	64	1	0	0	0	0	1	0	0	0	9973	1294	45	2	23059	2	MUC16	19	9066654	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	45885	9066654	50062329	467	25410										
ZNF846	162993	broad.mit.edu	37	chr19	9868197	9868197	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttagatgtttagcaagtgctGaagattgagtgaagtttttc	11	3	0	5			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:9868197G>A	uc002mmb.1	-	6	2087	c.1556C>T	c.(1555-1557)TCA>TTA	p.S519L	ZNF846_uc010xky.1_Intron|ZNF846_uc010xkz.1_Intron|ZNF846_uc010dww.2_Intron|ZNF846_uc002mmc.1_Missense_Mutation_p.S390L	NM_001077624	NP_001071092	Q147U1	ZN846_HUMAN	zinc finger protein 846	519	C2H2-type 14; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGCAAGTGCTGAAGATTGAGT	0.368													18	263	---	---	---	---	PASS	A	9868197	A	A	9868197	3	1	64	1	0	0	0	0	1	0	0	0	18189	1294	45	2	49	2	ZNF846	19	9868197	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	801543	9868197	49260786	468	25411										
ZNF823	55552	broad.mit.edu	37	chr19	11833621	11833621	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	attcatacgctttctctcccGtgtggattctttcatgtctt	6	11	5	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:11833621G>A	uc002msm.2	-	4	854	c.728C>T	c.(727-729)ACG>ATG	p.T243M	ZNF823_uc010xmd.1_Missense_Mutation_p.T61M|ZNF823_uc010dyi.1_Missense_Mutation_p.T199M	NM_001080493	NP_001073962	P16415	ZN823_HUMAN	ZFP-36 for a zinc finger protein	243					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TTTCTCTCCCGTGTGGATTCT	0.418										HNSCC(68;0.2)			11	177	---	---	---	---	PASS	A	11833621	A	A	11833621	3	1	64	1	0	0	0	0	1	0	0	0	18176	1145	40	1	1108	1	ZNF823	19	11833621	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1965424	11833621	47295362	469	25412										
ZNF441	126068	broad.mit.edu	37	chr19	11892259	11892259	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaactatgtgggaaaggcttCaggtcttccagttacattca	9	8	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:11892259C>T	uc010dyj.2	+	4	1814	c.1620C>T	c.(1618-1620)TTC>TTT	p.F540F	ZNF441_uc002msn.3_Silent_p.F496F	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	540	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGAAAGGCTTCAGGTCTTCCA	0.423													59	38	---	---	---	---	PASS	T	11892259	T	T	11892259	2	4	64	1	0	0	0	0	0	0	0	1	17911	825	29	2		2	ZNF441	19	11892259	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	58638	11892259	47236724	470	25413										
ZNF564	163050	broad.mit.edu	37	chr19	12639413	12639413	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccaggtttctaaaggtttccCgcatcacatctctgtagagt	8	11	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:12639413C>G	uc002mty.2	-	2	311	c.101G>C	c.(100-102)CGG>CCG	p.R34P	ZNF709_uc002mtx.3_Intron	NM_144976	NP_659413	Q8TBZ8	ZN564_HUMAN	zinc finger protein 564	34	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAAGGTTTCCCGCATCACATC	0.438													72	106	---	---	---	---	PASS	G	12639413	G	G	12639413	3	3	64	1	0	0	0	0	1	0	0	0	17992	652	23	4	1572	4	ZNF564	19	12639413	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	747154	12639413	46489570	471	25414										
NOTCH3	4854	broad.mit.edu	37	chr19	15281270	15281270	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cgcttgcgccgggccaccatGacacccaggacgagaatgac	12	15	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:15281270G>C	uc002nan.2	-	27	5062	c.4986C>G	c.(4984-4986)GTC>GTG	p.V1662V		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1662	Helical; (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			GGGCCACCATGACACCCAGGA	0.662													13	43	---	---	---	---	PASS	C	15281270	C	C	15281270	2	2	64	1	0	0	0	0	0	0	0	1	10550	1277	45	2		2	NOTCH3	19	15281270	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	2641857	15281270	43847713	472	25415										
FAM125A	93343	broad.mit.edu	37	chr19	17531169	17531169	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gccagctttggcaagagcttCgcgcagaaatctggctactt	11	11	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:17531169C>T	uc002ngo.1	+	2	171	c.138C>T	c.(136-138)TTC>TTT	p.F46F	FAM125A_uc002ngn.1_Silent_p.F46F|FAM125A_uc002ngp.1_5'UTR|FAM125A_uc002ngq.1_5'Flank	NM_138401	NP_612410	Q96EY5	F125A_HUMAN	family with sequence similarity 125, member A	46	MABP.				protein transport	late endosome membrane|microtubule organizing center|nucleus	SH3 domain binding				0						GCAAGAGCTTCGCGCAGAAAT	0.647													7	73	---	---	---	---	PASS	T	17531169	T	T	17531169	2	4	64	1	0	0	0	0	0	0	0	1	5427	883	31	2		2	FAM125A	19	17531169	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	2249899	17531169	41597814	473	25416										
SF4	57794	broad.mit.edu	37	chr19	19413072	19413072	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tccctggcagggccccccttAcctgaatgcctggttctcac	9	17	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:19413072A>T	uc002nmh.2	-	7	889	c.887_splice	c.e7+1	p.S296_splice	SF4_uc002nmf.2_Intron|SF4_uc002nmg.2_Splice_Site|SF4_uc002nmi.2_Splice_Site_p.S86_splice|SF4_uc002nmj.2_Splice_Site_p.S86_splice|SF4_uc010xqr.1_Splice_Site|SF4_uc010xqs.1_Splice_Site	NM_172231	NP_757386	Q8IWZ8	SUGP1_HUMAN	splicing factor 4						nuclear mRNA splicing, via spliceosome	nucleoplasm|spliceosomal complex	RNA binding				0						GGCCCCCCTTACCTGAATGCC	0.617													66	172	---	---	---	---	PASS	T	19413072	T	T	19413072	5	4	64	1	0	0	0	0	0	0	1	0	14155	405	14	5	1080	5	SF4	19	19413072	Splice_Site	SNP	A	TCGA-34-2600-01A-01D-1522-08	1881903	19413072	39715911	474	25417										
ATP13A1	57130	broad.mit.edu	37	chr19	19766937	19766937	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccccgaagatgacgtgcagcCgggaatcagcctggaggtcc	14	13	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:19766937C>A	uc002nnh.3	-	8	1167	c.1139G>T	c.(1138-1140)CGG>CTG	p.R380L	ATP13A1_uc002nnf.3_5'Flank|ATP13A1_uc002nng.2_Missense_Mutation_p.R262L	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	380	Extracellular (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(3)|large_intestine(2)|central_nervous_system(1)	6						GACGTGCAGCCGGGAATCAGC	0.642													36	102	---	---	---	---	PASS	A	19766937	A	A	19766937	3	1	64	1	0	0	0	0	1	0	0	0	1123	652	23	1	2551	1	ATP13A1	19	19766937	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	353865	19766937	39362046	475	25418										
ZNF682	91120	broad.mit.edu	37	chr19	20133841	20133841	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttggctatggtctcatgtctCttcacattccagggctcctg	9	12	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:20133841C>A	uc002noq.2	-	3	321	c.198G>T	c.(196-198)AAG>AAT	p.K66N	ZNF682_uc002noo.2_Missense_Mutation_p.K34N|ZNF682_uc002nop.2_Missense_Mutation_p.K34N|ZNF682_uc010eck.2_Intron	NM_033196	NP_149973	O95780	ZN682_HUMAN	zinc finger protein 682 isoform 1	66	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						TCTCATGTCTCTTCACATTCC	0.443													8	213	---	---	---	---	PASS	A	20133841	A	A	20133841	3	1	64	1	0	0	0	0	1	0	0	0	18086	912	32	2	1306	2	ZNF682	19	20133841	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	366904	20133841	38995142	476	25419										
ZNF43	7594	broad.mit.edu	37	chr19	21990638	21990638	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgccacattcttcacatttgTagggttgctctccagtatga	8	10	3	1	rs145094878		TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:21990638T>G	uc002nqj.2	-	4	2331	c.2201A>C	c.(2200-2202)TAC>TCC	p.Y734S	ZNF43_uc010ecv.2_Missense_Mutation_p.Y728S|ZNF43_uc002nql.2_Missense_Mutation_p.Y728S|ZNF43_uc002nqm.2_Missense_Mutation_p.Y728S|ZNF43_uc002nqk.2_Missense_Mutation_p.Y664S	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	734	C2H2-type 21.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		TTCACATTTGTAGGGTTGCTC	0.353													69	93	---	---	---	---	PASS	G	21990638	G	G	21990638	3	3	64	1	0	0	0	0	1	0	0	0	17900	1638	57	5	232	5	ZNF43	19	21990638	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	1856797	21990638	37138345	477	25420										
ZNF676	163223	broad.mit.edu	37	chr19	22363501	22363501	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaaagctttcccgcattcttCacatttgtagggtttctctc	6	11	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:22363501C>T	uc002nqs.1	-	3	1336	c.1018G>A	c.(1018-1020)GAA>AAA	p.E340K		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	340	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CCGCATTCTTCACATTTGTAG	0.418													6	307	---	---	---	---	PASS	T	22363501	T	T	22363501	3	4	64	1	0	0	0	0	1	0	0	0	18080	835	29	2	752	2	ZNF676	19	22363501	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	372863	22363501	36765482	478	25421										
C19orf12	83636	broad.mit.edu	37	chr19	30199261	30199261	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgcttgacagccgccttcatCttcctctccccagaaaggga	8	15	3	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:30199261C>T	uc002nsk.2	-	2	491	c.60G>A	c.(58-60)AAG>AAA	p.K20K	C19orf12_uc002nsj.2_Silent_p.K31K|C19orf12_uc002nsl.2_Intron|C19orf12_uc002nsm.2_RNA	NM_031448	NP_113636	Q9NSK7	CS012_HUMAN	hypothetical protein LOC83636 isoform 2	20						integral to membrane					0	Ovarian(5;0.000567)|Breast(6;0.0203)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0435)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.183)			CCGCCTTCATCTTCCTCTCCC	0.617													12	201	---	---	---	---	PASS	T	30199261	T	T	30199261	2	4	64	1	0	0	0	0	0	0	0	1	1909	912	32	2		2	C19orf12	19	30199261	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	7835760	30199261	28929722	479	25422										
ZNF536	9745	broad.mit.edu	37	chr19	30936591	30936591	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gaggcggcctctcccagaccGggagtgcccaggaggacagc	16	14	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:30936591G>T	uc002nsu.1	+	2	2260	c.2122G>T	c.(2122-2124)GGG>TGG	p.G708W	ZNF536_uc010edd.1_Missense_Mutation_p.G708W	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	708					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CTCCCAGACCGGGAGTGCCCA	0.677													18	22	---	---	---	---	PASS	T	30936591	T	T	30936591	3	4	64	1	0	0	0	0	1	0	0	0	17971	1116	39	1	2124	1	ZNF536	19	30936591	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	737330	30936591	28192392	480	25423										
ZNF181	339318	broad.mit.edu	37	chr19	35231986	35231986	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttccccagacttgtaatagaGagaaaatctatacatgcagt	7	8	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:35231986G>C	uc002nvu.3	+	4	1163	c.700G>C	c.(700-702)GAG>CAG	p.E234Q	ZNF181_uc010xsa.1_Missense_Mutation_p.E233Q|ZNF181_uc010xsb.1_Missense_Mutation_p.E233Q|ZNF181_uc010xsc.1_Missense_Mutation_p.E169Q	NM_001029997	NP_001025168	Q2M3W8	ZN181_HUMAN	zinc finger protein 181 isoform 1	234					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			TTGTAATAGAGAGAAAATCTA	0.428													21	480	---	---	---	---	PASS	C	35231986	C	C	35231986	3	2	64	1	0	0	0	0	1	0	0	0	17746	943	33	2	714	2	ZNF181	19	35231986	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	4295395	35231986	23896997	481	25424										
ZNF420	147923	broad.mit.edu	37	chr19	37619207	37619207	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcactccttacacgacaccaGaggattcatactggtgagaa	8	11	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:37619207G>C	uc002ofl.2	+	5	1529	c.1314G>C	c.(1312-1314)CAG>CAC	p.Q438H		NM_144689	NP_653290	Q8TAQ5	ZN420_HUMAN	zinc finger protein 420	438	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CACGACACCAGAGGATTCATA	0.418													35	133	---	---	---	---	PASS	C	37619207	C	C	37619207	3	2	64	1	0	0	0	0	1	0	0	0	17894	933	33	2	1324	2	ZNF420	19	37619207	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2387221	37619207	21509776	482	25425										
ZNF420	147923	broad.mit.edu	37	chr19	37619795	37619795	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcacatctttctcggcatcaGagaattcatactggtgagaa	8	9	5	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:37619795G>C	uc002ofl.2	+	5	2117	c.1902G>C	c.(1900-1902)CAG>CAC	p.Q634H		NM_144689	NP_653290	Q8TAQ5	ZN420_HUMAN	zinc finger protein 420	634	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTCGGCATCAGAGAATTCATA	0.418													33	144	---	---	---	---	PASS	C	37619795	C	C	37619795	3	2	64	1	0	0	0	0	1	0	0	0	17894	933	33	2	1912	2	ZNF420	19	37619795	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	588	37619795	21509188	483	25426										
SIPA1L3	23094	broad.mit.edu	37	chr19	38652941	38652941	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caggctctcagccatagccgGaagcagcgggaacaagcacc	12	14	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:38652941G>A	uc002ohk.2	+	14	4219	c.3710G>A	c.(3709-3711)GGA>GAA	p.G1237E		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1237					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GCCATAGCCGGAAGCAGCGGG	0.612													10	81	---	---	---	---	PASS	A	38652941	A	A	38652941	3	1	64	1	0	0	0	0	1	0	0	0	14331	1174	41	2	3756	2	SIPA1L3	19	38652941	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1033146	38652941	20476042	484	25427										
RYR1	6261	broad.mit.edu	37	chr19	38990398	38990398	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggctgccatcgaagaggccaTccgcatctccgaggaccctg	12	15	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:38990398T>A	uc002oit.2	+	44	7281	c.7151T>A	c.(7150-7152)ATC>AAC	p.I2384N	RYR1_uc002oiu.2_Missense_Mutation_p.I2384N|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2384	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GAAGAGGCCATCCGCATCTCC	0.692													20	15	---	---	---	---	PASS	A	38990398	A	A	38990398	3	1	64	1	0	0	0	0	1	0	0	0	13768	1435	50	5	7325	5	RYR1	19	38990398	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	337457	38990398	20138585	485	25428										
CRX	1406	broad.mit.edu	37	chr19	48339523	48339523	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cccccaggaagcagcggcggGagcgcaccaccttcacccgg	13	18	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:48339523G>A	uc002phq.3	+	3	328	c.124G>A	c.(124-126)GAG>AAG	p.E42K	CRX_uc010elm.1_RNA	NM_000554	NP_000545	O43186	CRX_HUMAN	cone-rod homeobox protein	42	Homeobox.				organ morphogenesis|response to stimulus|visual perception		leucine zipper domain binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2		all_cancers(25;2.76e-09)|all_epithelial(76;7.01e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000266)|all cancers(93;0.000788)|Epithelial(262;0.0226)|GBM - Glioblastoma multiforme(486;0.0521)		GCAGCGGCGGGAGCGCACCAC	0.652													22	113	---	---	---	---	PASS	A	48339523	A	A	48339523	3	1	64	1	0	0	0	0	1	0	0	0	3902	1175	41	2	130	2	CRX	19	48339523	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	9349125	48339523	10789460	486	25429										
CABP5	56344	broad.mit.edu	37	chr19	48537475	48537475	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cgccccgtcaatgtcaccttCaaagtcaactgtgccgtctc	7	16	5	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:48537475C>G	uc002phu.1	-	5	618	c.493G>C	c.(493-495)GAA>CAA	p.E165Q		NM_019855	NP_062829	Q9NP86	CABP5_HUMAN	calcium binding protein 5	165	EF-hand 4.|3 (Potential).				signal transduction	cytoplasm	calcium ion binding			skin(1)	1		all_cancers(25;1.86e-08)|all_lung(116;1.14e-06)|all_epithelial(76;1.16e-06)|Lung NSC(112;2.54e-06)|all_neural(266;0.0138)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;4.09e-05)|all cancers(93;0.000322)|Epithelial(262;0.01)|GBM - Glioblastoma multiforme(486;0.058)		ATGTCACCTTCAAAGTCAACT	0.597													5	78	---	---	---	---	PASS	G	48537475	G	G	48537475	3	3	64	1	0	0	0	0	1	0	0	0	2534	835	29	2	36	2	CABP5	19	48537475	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	197952	48537475	10591508	487	25430										
KLK3	354	broad.mit.edu	37	chr19	51361393	51361393	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccgctctacgatatgagcctCctgaagaatcgattcctcag	8	13	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:51361393C>G	uc002pts.1	+	3	356	c.315C>G	c.(313-315)CTC>CTG	p.L105L	KLK3_uc010ycj.1_Silent_p.L105L|KLK3_uc002ptr.1_Intron|KLK3_uc010eof.1_Intron	NM_001030047	NP_001025218	P07288	KLK3_HUMAN	prostate specific antigen isoform 3	105	Peptidase S1.				negative regulation of angiogenesis|proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00763)|GBM - Glioblastoma multiforme(134;0.0144)		ATATGAGCCTCCTGAAGAATC	0.572													24	51	---	---	---	---	PASS	G	51361393	G	G	51361393	2	3	64	1	0	0	0	0	0	0	0	1	8405	842	30	2		2	KLK3	19	51361393	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	2823918	51361393	7767590	488	25431										
SIGLEC14	100049587	broad.mit.edu	37	chr19	52147258	52147258	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gactggccctcctggatgggCaccgacatgccattgctcag	12	14	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:52147258C>A	uc002pxf.3	-	5	906	c.786G>T	c.(784-786)GTG>GTT	p.V262V		NM_001098612	NP_001092082	Q08ET2	SIG14_HUMAN	sialic acid binding Ig-like lectin 14 precursor	262	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to membrane|plasma membrane	protein binding|sugar binding			ovary(1)	1		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000965)|OV - Ovarian serous cystadenocarcinoma(262;0.0195)		CCTGGATGGGCACCGACATGC	0.607													22	40	---	---	---	---	PASS	A	52147258	A	A	52147258	2	1	64	1	0	0	0	0	0	0	0	1	14309	697	25	3		3	SIGLEC14	19	52147258	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	785865	52147258	6981725	489	25432										
ZNF577	84765	broad.mit.edu	37	chr19	52376027	52376027	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgtgttcacagtcttttgctCttgtatgagttcgctcatgt	9	8	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:52376027C>G	uc010yde.1	-	7	1607	c.1216G>C	c.(1216-1218)GAG>CAG	p.E406Q	ZNF577_uc010ydd.1_Intron|ZNF577_uc002pxx.3_Missense_Mutation_p.E347Q|ZNF577_uc002pxv.2_Missense_Mutation_p.E399Q|ZNF577_uc002pxw.2_Missense_Mutation_p.E340Q	NM_032679	NP_116068	Q9BSK1	ZN577_HUMAN	zinc finger protein 577 isoform a	406					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		GTCTTTTGCTCTTGTATGAGT	0.443													9	350	---	---	---	---	PASS	G	52376027	G	G	52376027	3	3	64	1	0	0	0	0	1	0	0	0	18006	922	32	2	245	2	ZNF577	19	52376027	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	228769	52376027	6752956	490	25433										
ZNF614	80110	broad.mit.edu	37	chr19	52519616	52519616	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gctgatgtataacgagagtgCgtttgacagtgaagcctttt	12	6	0	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:52519616C>T	uc002pyj.2	-	5	1637	c.1235G>A	c.(1234-1236)CGC>CAC	p.R412H	ZNF614_uc002pyi.3_Intron|ZNF614_uc010epj.2_Missense_Mutation_p.R115H	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	412	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		AACGAGAGTGCGTTTGACAGT	0.423													82	549	---	---	---	---	PASS	T	52519616	T	T	52519616	3	4	64	1	0	0	0	0	1	0	0	0	18036	768	27	1	526	1	ZNF614	19	52519616	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	143589	52519616	6609367	491	25434										
ZNF836	162962	broad.mit.edu	37	chr19	52659761	52659761	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aactttgactaaaggactttCcacatatgttgcatttgtat	6	7	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:52659761C>T	uc010ydi.1	-	5	1549	c.1175G>A	c.(1174-1176)GGA>GAA	p.G392E	ZNF836_uc010ydj.1_Missense_Mutation_p.G392E	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	392	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAAGGACTTTCCACATATGTT	0.398													5	147	---	---	---	---	PASS	T	52659761	T	T	52659761	3	4	64	1	0	0	0	0	1	0	0	0	18184	855	30	2	1637	2	ZNF836	19	52659761	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	140145	52659761	6469222	492	25435										
ZNF28	7576	broad.mit.edu	37	chr19	53303166	53303166	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acgagggatgacatctgactGaaggtcttgccacactcatt	10	10	3	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:53303166G>A	uc002qad.2	-	4	2052	c.1932C>T	c.(1930-1932)TTC>TTT	p.F644F	ZNF28_uc002qac.2_Silent_p.F591F|ZNF28_uc010eqe.2_Silent_p.F590F	NM_006969	NP_008900	P17035	ZNF28_HUMAN	zinc finger protein 28	644	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)		ACATCTGACTGAAGGTCTTGC	0.433													19	600	---	---	---	---	PASS	A	53303166	A	A	53303166	2	1	64	1	0	0	0	0	0	0	0	1	17810	1281	45	2		2	ZNF28	19	53303166	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	643405	53303166	5825817	493	25436										
ZNF816A	125893	broad.mit.edu	37	chr19	53454623	53454623	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cttcggtctgtactaccagtCaactttttgatttttgtcat	6	9	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:53454623C>T	uc002qal.1	-	5	706	c.405G>A	c.(403-405)TTG>TTA	p.L135L	ZNF321_uc010eqj.2_Intron|ZNF321_uc002qak.1_Intron|ZNF816A_uc002qam.1_Silent_p.L119L	NM_001031665	NP_001026835	Q0VGE8	ZN816_HUMAN	zinc finger protein 816A	135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0313)		TACTACCAGTCAACTTTTTGA	0.413													29	682	---	---	---	---	PASS	T	53454623	T	T	53454623	2	4	64	1	0	0	0	0	0	0	0	1	18174	825	29	2		2	ZNF816A	19	53454623	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	151457	53454623	5674360	494	25437										
ZNF415	55786	broad.mit.edu	37	chr19	53612472	53612472	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	actgaaacttctgtcacattCattacatttgtatggtttct	5	8	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:53612472C>T	uc002qax.2	-	7	1319	c.970G>A	c.(970-972)GAA>AAA	p.E324K	ZNF415_uc002qat.2_Missense_Mutation_p.E288K|ZNF415_uc002qaw.2_Missense_Mutation_p.E276K|ZNF415_uc010yds.1_Missense_Mutation_p.E276K|ZNF415_uc010ydt.1_Missense_Mutation_p.E276K|ZNF415_uc002qau.2_Missense_Mutation_p.E263K|ZNF415_uc002qav.2_Missense_Mutation_p.E288K|ZNF415_uc002qba.2_Missense_Mutation_p.E46K|ZNF415_uc002qay.2_Missense_Mutation_p.E263K|ZNF415_uc002qaz.2_Missense_Mutation_p.E324K	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	324	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		CTGTCACATTCATTACATTTG	0.408													6	200	---	---	---	---	PASS	T	53612472	T	T	53612472	3	4	64	1	0	0	0	0	1	0	0	0	17889	835	29	2	845	2	ZNF415	19	53612472	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	157849	53612472	5516511	495	25438										
ZNF765	91661	broad.mit.edu	37	chr19	53911332	53911332	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccacgatgcttccttggtttCaacagcccaaagaatttctt	6	12	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:53911332C>T	uc010ydx.1	+	6	851	c.524C>T	c.(523-525)TCA>TTA	p.S175L	ZNF765_uc002qbm.2_Missense_Mutation_p.S175L|ZNF765_uc002qbn.2_Intron	NM_001040185	NP_001035275	Q7L2R6	ZN765_HUMAN	zinc finger protein 765	175					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00379)		TCCTTGGTTTCAACAGCCCAA	0.368													10	236	---	---	---	---	PASS	T	53911332	T	T	53911332	3	4	64	1	0	0	0	0	1	0	0	0	18136	838	29	2	534	2	ZNF765	19	53911332	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	298860	53911332	5217651	496	25439										
TMC4	147798	broad.mit.edu	37	chr19	54664048	54664048	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cgtgggctgcgggggtcaaaGagccggtttggtggaggtca	20	7	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:54664048G>C	uc010erf.2	-	15	2266	c.2134C>G	c.(2134-2136)CTT>GTT	p.L712V	LENG1_uc002qdm.2_5'Flank|TMC4_uc002qdn.2_Missense_Mutation_p.L426V|TMC4_uc002qdo.2_Missense_Mutation_p.L706V	NM_001145303	NP_001138775	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 1	712	Cytoplasmic (Potential).					integral to membrane				pancreas(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GGGGGTCAAAGAGCCGGTTTG	0.458													38	304	---	---	---	---	PASS	C	54664048	C	C	54664048	3	2	64	1	0	0	0	0	1	0	0	0	15984	942	33	2	8	2	TMC4	19	54664048	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	752716	54664048	4464935	497	25440										
LILRB1	10859	broad.mit.edu	37	chr19	55143120	55143120	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccacaggagcttgtgaagaaGggccagttccccatcccatc	10	14	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:55143120G>A	uc002qgj.2	+	5	580	c.240G>A	c.(238-240)AAG>AAA	p.K80K	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Silent_p.K80K|LILRB1_uc002qgk.2_Silent_p.K80K|LILRB1_uc002qgm.2_Silent_p.K80K|LILRB1_uc010erq.2_Silent_p.K80K|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	80	Ig-like C2-type 1.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		TTGTGAAGAAGGGCCAGTTCC	0.562										HNSCC(37;0.09)			143	139	---	---	---	---	PASS	A	55143120	A	A	55143120	2	1	64	1	0	0	0	0	0	0	0	1	8790	991	35	3		3	LILRB1	19	55143120	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	479072	55143120	3985863	498	25441										
PEG3	5178	broad.mit.edu	37	chr19	57326411	57326411	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tactcccgactgtcaaccagGcacttcctgctgtggacttt	8	14	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:57326411G>T	uc002qnu.2	-	7	3750	c.3399C>A	c.(3397-3399)TGC>TGA	p.C1133*	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Nonsense_Mutation_p.C1104*|PEG3_uc002qnv.2_Nonsense_Mutation_p.C1133*|PEG3_uc002qnw.2_Nonsense_Mutation_p.C1009*|PEG3_uc002qnx.2_Nonsense_Mutation_p.C1007*|PEG3_uc010etr.2_Nonsense_Mutation_p.C1133*	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1133					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TGTCAACCAGGCACTTCCTGC	0.478													202	206	---	---	---	---	PASS	T	57326411	T	T	57326411	4	4	64	1	0	0	0	0	0	1	0	0	11720	1195	42	3	1371	3	PEG3	19	57326411	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2183291	57326411	1802572	499	25442										
USP29	57663	broad.mit.edu	37	chr19	57640100	57640100	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tggagccagaagactgggatGactaagctgaaagaagctct	13	7	1	5			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:57640100G>C	uc002qny.2	+	4	413	c.57G>C	c.(55-57)ATG>ATC	p.M19I		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	19					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AGACTGGGATGACTAAGCTGA	0.348													64	83	---	---	---	---	PASS	C	57640100	C	C	57640100	3	2	64	1	0	0	0	0	1	0	0	0	17056	1290	45	2	59	2	USP29	19	57640100	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	313689	57640100	1488883	500	25443										
ZNF547	284306	broad.mit.edu	37	chr19	57883207	57883207	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cccaggaggagtgggggcatCtcgatgaggctcagagattg	17	8	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr19:57883207C>G	uc002qol.2	+	3	275	c.82C>G	c.(82-84)CTC>GTC	p.L28V	ZNF547_uc010ygx.1_Missense_Mutation_p.L28V	NM_173631	NP_775902	Q8IVP9	ZN547_HUMAN	zinc finger protein 547	28	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GTGGGGGCATCTCGATGAGGC	0.498													31	729	---	---	---	---	PASS	G	57883207	G	G	57883207	3	3	64	1	0	0	0	0	1	0	0	0	17976	913	32	2	88	2	ZNF547	19	57883207	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	243107	57883207	1245776	501	25444										
TMC2	117532	broad.mit.edu	37	chr20	2618178	2618178	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caaagccacagccagagattCagaggacacacctaaaagca	8	12	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:2618178C>T	uc002wgf.1	+	19	2459	c.2444C>T	c.(2443-2445)TCA>TTA	p.S815L	TMC2_uc002wgg.1_Missense_Mutation_p.S799L	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	815	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						GCCAGAGATTCAGAGGACACA	0.433													9	136	---	---	---	---	PASS	T	2618178	T	T	2618178	3	4	64	1	0	0	0	0	1	0	0	0	15982	838	29	2	2518	2	TMC2	20	2618178	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08		2618178	60407342	502	25445										
SLC4A11	83959	broad.mit.edu	37	chr20	3211589	3211589	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agcccctcaccgatggccccGtctgtgttctcgtcattgag	10	15	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:3211589G>A	uc002wig.2	-	9	1254	c.1206C>T	c.(1204-1206)GAC>GAT	p.D402D	SLC4A11_uc010zqe.1_Silent_p.D429D|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Silent_p.D386D	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	402	Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						CGATGGCCCCGTCTGTGTTCT	0.662													74	74	---	---	---	---	PASS	A	3211589	A	A	3211589	2	1	64	1	0	0	0	0	0	0	0	1	14652	1136	40	1		1	SLC4A11	20	3211589	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	593411	3211589	59813931	503	25446										
MCM8	84515	broad.mit.edu	37	chr20	5966673	5966673	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggctatccacagaagctgctCgagttcttcaagatttttac	8	10	2	2	rs140773345	by1000genomes	TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:5966673C>T	uc002wmi.2	+	16	2436	c.2059C>T	c.(2059-2061)CGA>TGA	p.R687*	MCM8_uc002wmj.2_Nonsense_Mutation_p.R671*|MCM8_uc002wmk.2_Nonsense_Mutation_p.R727*|MCM8_uc002wml.2_Nonsense_Mutation_p.R687*|MCM8_uc010gbp.2_Nonsense_Mutation_p.R640*|MCM8_uc002wmm.2_Nonsense_Mutation_p.R225*	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	687					cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						AGAAGCTGCTCGAGTTCTTCA	0.468													9	263	---	---	---	---	PASS	T	5966673	T	T	5966673	4	4	64	1	0	0	0	0	0	1	0	0	9393	876	31	2	2117	2	MCM8	20	5966673	Nonsense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2755084	5966673	57058847	504	25447										
PAK7	57144	broad.mit.edu	37	chr20	9520232	9520232	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gagggctccctcaccaacatCaagtctaggaatccccggag	10	14	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:9520232C>T	uc002wnl.2	-	11	2582	c.2037G>A	c.(2035-2037)TTG>TTA	p.L679L	PAK7_uc002wnk.2_Silent_p.L679L|PAK7_uc002wnj.2_Silent_p.L679L|PAK7_uc010gby.1_Silent_p.L592L	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	679	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			TCACCAACATCAAGTCTAGGA	0.502													71	443	---	---	---	---	PASS	T	9520232	T	T	9520232	2	4	64	1	0	0	0	0	0	0	0	1	11405	825	29	2		2	PAK7	20	9520232	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	3553559	9520232	53505288	505	25448										
PAK7	57144	broad.mit.edu	37	chr20	9546564	9546564	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttgaaaagcagttctcgtctCtgttgcttccggaggtccat	10	10	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:9546564C>T	uc002wnl.2	-	6	2003	c.1458G>A	c.(1456-1458)CAG>CAA	p.Q486Q	PAK7_uc002wnk.2_Silent_p.Q486Q|PAK7_uc002wnj.2_Silent_p.Q486Q|PAK7_uc010gby.1_Silent_p.Q486Q	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	486	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			GTTCTCGTCTCTGTTGCTTCC	0.438													11	641	---	---	---	---	PASS	T	9546564	T	T	9546564	2	4	64	1	0	0	0	0	0	0	0	1	11405	912	32	2		2	PAK7	20	9546564	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	26332	9546564	53478956	506	25449										
SPTLC3	55304	broad.mit.edu	37	chr20	13107262	13107262	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcgtggattatttacgggttCactcgcatagtgctgtttat	10	7	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:13107262C>T	uc002wod.1	+	9	1466	c.1177C>T	c.(1177-1179)CAC>TAC	p.H393Y		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	393					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	TTTACGGGTTCACTCGCATAG	0.438													12	707	---	---	---	---	PASS	T	13107262	T	T	13107262	3	4	64	1	0	0	0	0	1	0	0	0	15124	826	29	2	1211	2	SPTLC3	20	13107262	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	3560698	13107262	49918258	507	25450										
MACROD2	140733	broad.mit.edu	37	chr20	16025218	16025218	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttttttttctggtgacagttGaaatgaatagtcaggttgac	10	4	2	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:16025218G>A	uc002wou.2	+	17	1498	c.1234G>A	c.(1234-1236)GAA>AAA	p.E412K	MACROD2_uc002wot.2_Intron|MACROD2_uc002woz.2_Missense_Mutation_p.E177K|MACROD2_uc002wpb.2_Intron|MACROD2_uc002wpd.2_Missense_Mutation_p.E63K	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	412											0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				GGTGACAGTTGAAATGAATAG	0.333													6	127	---	---	---	---	PASS	A	16025218	A	A	16025218	3	1	64	1	0	0	0	0	1	0	0	0	9146	1291	45	2	1300	2	MACROD2	20	16025218	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2917956	16025218	47000302	508	25451										
ASXL1	171023	broad.mit.edu	37	chr20	31019263	31019263	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttccagcagcagctcctcttCctcctgcctgaagtagacag	8	15	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:31019263C>T	uc002wxs.2	+	8	1284	c.858C>T	c.(856-858)TTC>TTT	p.F286F	ASXL1_uc010geb.2_Silent_p.F177F	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	286	LXXLL motif.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						AGCTCCTCTTCCTCCTGCCTG	0.512			F|N|Mis		MDS|CMML								96	311	---	---	---	---	PASS	T	31019263	T	T	31019263	2	4	64	1	0	0	0	0	0	0	0	1	1066	854	30	2		2	ASXL1	20	31019263	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	14994045	31019263	32006257	509	25452										
ASXL1	171023	broad.mit.edu	37	chr20	31022586	31022586	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctggaaagtgtacgtcagatCtacagcgaacacaactactg	9	10	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:31022586C>T	uc002wxs.2	+	12	2497	c.2071C>T	c.(2071-2073)CTA>TTA	p.L691L	ASXL1_uc010geb.2_Silent_p.L582L	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	691					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						TACGTCAGATCTACAGCGAAC	0.607			F|N|Mis		MDS|CMML								9	73	---	---	---	---	PASS	T	31022586	T	T	31022586	2	4	64	1	0	0	0	0	0	0	0	1	1066	912	32	2		2	ASXL1	20	31022586	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	3323	31022586	32002934	510	25453										
ASXL1	171023	broad.mit.edu	37	chr20	31023203	31023203	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctcgtttctaacagttctttGcattggatacccatcccatc	5	13	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:31023203G>A	uc002wxs.2	+	12	3114	c.2688G>A	c.(2686-2688)TTG>TTA	p.L896L	ASXL1_uc010geb.2_Silent_p.L787L	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	896					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						ACAGTTCTTTGCATTGGATAC	0.463			F|N|Mis		MDS|CMML								8	397	---	---	---	---	PASS	A	31023203	A	A	31023203	2	1	64	1	0	0	0	0	0	0	0	1	1066	1310	46	3		3	ASXL1	20	31023203	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	617	31023203	32002317	511	25454										
PXMP4	11264	broad.mit.edu	37	chr20	32298406	32298406	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccaaacaccaggatacccccGaggaaggccgccaggaatgc	11	15	0	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:32298406G>A	uc002wzv.2	-	3	453	c.330C>T	c.(328-330)CTC>CTT	p.L110L	PXMP4_uc002wzw.2_Intron|PXMP4_uc010zuh.1_Missense_Mutation_p.S117L	NM_007238	NP_009169	Q9Y6I8	PXMP4_HUMAN	peroxisomal membrane protein 4 isoform a	110	Helical; (Potential).					integral to membrane|membrane fraction|mitochondrial inner membrane|peroxisomal membrane	protein transporter activity				0						GGATACCCCCGAGGAAGGCCG	0.557													37	241	---	---	---	---	PASS	A	32298406	A	A	32298406	2	1	64	1	0	0	0	0	0	0	0	1	12851	1045	37	2		2	PXMP4	20	32298406	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	1275203	32298406	30727114	512	25455										
NFS1	9054	broad.mit.edu	37	chr20	34260741	34260741	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgtgtagtccacttcctcctCtgtagtgaagcggccaattc	9	12	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:34260741C>G	uc002xdw.1	-	12	1310	c.1246G>C	c.(1246-1248)GAG>CAG	p.E416Q	CPNE1_uc002xdn.1_RNA|CPNE1_uc002xdo.1_RNA|CPNE1_uc002xdp.1_RNA|NFS1_uc002xdt.1_Missense_Mutation_p.E356Q|NFS1_uc002xdu.1_Missense_Mutation_p.E356Q|NFS1_uc002xdv.1_RNA|NFS1_uc010zvk.1_Missense_Mutation_p.E214Q|NFS1_uc010zvl.1_Missense_Mutation_p.E365Q	NM_021100	NP_066923	Q9Y697	NFS1_HUMAN	NFS1 nitrogen fixation 1 precursor	416					cysteine metabolic process|iron incorporation into metallo-sulfur cluster|Mo-molybdopterin cofactor biosynthetic process|protein complex assembly|water-soluble vitamin metabolic process	cytosol|mitochondrial matrix|nucleus	cysteine desulfurase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.0886)		L-Alanine(DB00160)|L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	ACTTCCTCCTCTGTAGTGAAG	0.458													9	219	---	---	---	---	PASS	G	34260741	G	G	34260741	3	3	64	1	0	0	0	0	1	0	0	0	10385	922	32	2	135	2	NFS1	20	34260741	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1962335	34260741	28764779	513	25456										
PPP1R16B	26051	broad.mit.edu	37	chr20	37546855	37546855	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atttcctaccaagatcccacGaggtgaactggacatgcctg	9	12	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:37546855G>A	uc002xje.2	+	11	1439	c.1250G>A	c.(1249-1251)CGA>CAA	p.R417Q	PPP1R16B_uc010ggc.2_Missense_Mutation_p.R375Q	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	417					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AAGATCCCACGAGGTGAACTG	0.572													11	261	---	---	---	---	PASS	A	37546855	A	A	37546855	3	1	64	1	0	0	0	0	1	0	0	0	12366	1058	37	2	1288	2	PPP1R16B	20	37546855	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3286114	37546855	25478665	514	25457										
L3MBTL	26013	broad.mit.edu	37	chr20	42169587	42169587	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccaccaggcaagaatagtcaGagtgacccatgtatctggga	11	10	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:42169587G>C	uc010zwh.1	+	22	2388	c.2342G>C	c.(2341-2343)AGA>ACA	p.R781T	L3MBTL_uc002xkl.2_Missense_Mutation_p.R713T|L3MBTL_uc002xkm.2_3'UTR|L3MBTL_uc010ggl.2_3'UTR|L3MBTL_uc002xkn.1_Intron|L3MBTL_uc002xko.2_3'UTR|L3MBTL_uc002xkp.2_Missense_Mutation_p.R101T|SGK2_uc002xkq.1_Intron	NM_015478	NP_056293	Q9Y468	LMBL1_HUMAN	l(3)mbt-like isoform I	Error:Variant_position_missing_in_Q9Y468_after_alignment					chromatin modification|hemopoiesis|negative regulation of transcription, DNA-dependent|regulation of megakaryocyte differentiation|regulation of mitosis	chromatin|condensed chromosome|nucleoplasm	identical protein binding|methylated histone residue binding|nucleosomal histone binding|SAM domain binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AGAATAGTCAGAGTGACCCAT	0.572													4	37	---	---	---	---	PASS	C	42169587	C	C	42169587	3	2	64	1	0	0	0	0	1	0	0	0	8591	942	33	2	2305	2	L3MBTL	20	42169587	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	4622732	42169587	20855933	515	25458										
MATN4	8785	broad.mit.edu	37	chr20	43927019	43927019	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggaccgcctgcttcacctcgGctgcggtgccgtagcgaccc	13	17	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:43927019G>T	uc002xnn.2	-	7	1404	c.1217C>A	c.(1216-1218)GCC>GAC	p.A406D	MATN4_uc002xno.2_Missense_Mutation_p.A365D|MATN4_uc002xnp.2_Missense_Mutation_p.A324D|MATN4_uc010zwr.1_Missense_Mutation_p.A354D|MATN4_uc002xnr.1_Missense_Mutation_p.A406D	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	447	VWFA 2.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				CTTCACCTCGGCTGCGGTGCC	0.677													12	27	---	---	---	---	PASS	T	43927019	T	T	43927019	3	4	64	1	0	0	0	0	1	0	0	0	9336	1203	42	3	544	3	MATN4	20	43927019	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1757432	43927019	19098501	516	25459										
PCIF1	63935	broad.mit.edu	37	chr20	44576331	44576331	+	Frame_Shift_Del	DEL	G	-	-													0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcttcctcatcgtcctcctcGgaggccaaggaccgggactc							TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:44576331delG	uc002xqs.2	+	17	2366	c.2052delG	c.(2050-2052)TCGfs	p.S684fs	PCIF1_uc002xqt.2_3'UTR|PCIF1_uc002xqu.2_Frame_Shift_Del_p.S153fs	NM_022104	NP_071387	Q9H4Z3	PCIF1_HUMAN	phosphorylated CTD interacting factor 1	684	Poly-Ser.|Nuclear localization signal (Potential).					nucleus				skin(1)	1						CGTCCTCCTCGGAGGCCAAGG	0.672													17	59	---	---	---	---		-	44576331	-	-	44576331	7	5	64	1	0	1	0	1	0	0	0	0	11580	1103	39	0	2110	0	PCIF1	20	44576331	Frame_Shift_Del	DEL	G	TCGA-34-2600-01A-01D-1522-08	649312	44576331	18449189	517	25460										
ZNF831	128611	broad.mit.edu	37	chr20	57769516	57769516	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agggtgtgcccccaggctggCcagagctggccttgtcttcc	14	14	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:57769516C>G	uc002yan.2	+	1	3442	c.3442C>G	c.(3442-3444)CCA>GCA	p.P1148A		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1148						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CCCAGGCTGGCCAGAGCTGGC	0.677													65	21	---	---	---	---	PASS	G	57769516	G	G	57769516	3	3	64	1	0	0	0	0	1	0	0	0	18182	739	26	4	3444	4	ZNF831	20	57769516	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	13193185	57769516	5256004	518	25461										
NPBWR2	2832	broad.mit.edu	37	chr20	62737588	62737588	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tgctcgggccacgggaagctCagcccacagcttgggacctg	14	14	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr20:62737588C>G	uc011abt.1	-	1	597	c.597G>C	c.(595-597)CTG>CTC	p.L199L		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	199	Extracellular (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					ACGGGAAGCTCAGCCCACAGC	0.622													10	34	---	---	---	---	PASS	G	62737588	G	G	62737588	2	3	64	1	0	0	0	0	0	0	0	1	10569	813	29	2		2	NPBWR2	20	62737588	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	4968072	62737588	287932	519	25462										
TMPRSS15	5651	broad.mit.edu	37	chr21	19653497	19653497	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcagatttgatttcatatgcAggcctaggattgctgtccac	9	9	2	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr21:19653497A>T	uc002ykw.2	-	22	2559	c.2528T>A	c.(2527-2529)CTG>CAG	p.L843Q		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	843	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TTTCATATGCAGGCCTAGGAT	0.403													116	216	---	---	---	---	PASS	T	19653497	T	T	19653497	3	4	64	1	0	0	0	0	1	0	0	0	16243	188	7	5	547	5	TMPRSS15	21	19653497	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08		19653497	28476398	520	25463										
HLCS	3141	broad.mit.edu	37	chr21	38309032	38309032	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccaacaccttccctccctgaGaaagataggccatgaacttc	6	15	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr21:38309032G>A	uc010gnb.2	-	4	1914	c.713C>T	c.(712-714)TCT>TTT	p.S238F	HLCS_uc002yvs.2_Missense_Mutation_p.S238F|HLCS_uc010gnc.1_Missense_Mutation_p.S385F	NM_000411	NP_000402	P50747	BPL1_HUMAN	holocarboxylase synthetase	238					cell proliferation|histone biotinylation|response to biotin	chromatin|cytosol|mitochondrion|nuclear lamina|nuclear matrix	ATP binding|biotin binding|biotin-[acetyl-CoA-carboxylase] ligase activity|biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity|biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity|biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity|enzyme binding			ovary(2)|breast(1)|kidney(1)|liver(1)	5		Myeloproliferative disorder(46;0.0422)			Biotin(DB00121)	CCCTCCCTGAGAAAGATAGGC	0.532													5	70	---	---	---	---	PASS	A	38309032	A	A	38309032	3	1	64	1	0	0	0	0	1	0	0	0	7213	942	33	2	1499	2	HLCS	21	38309032	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	18655535	38309032	9820863	521	25464										
PEX26	55670	broad.mit.edu	37	chr22	18562701	18562701	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aggccctggcagaaatggatCggtggcaagaagtcctctcc	13	11	1	2	rs62641228		TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr22:18562701C>T	uc002znp.3	+	3	501	c.292C>T	c.(292-294)CGG>TGG	p.R98W	TUBA8_uc002znr.2_5'UTR|PEX26_uc002znq.3_Missense_Mutation_p.R98W|uc002zns.2_5'Flank|PEX26_uc002znt.2_Missense_Mutation_p.R98W	NM_017929	NP_060399	Q7Z412	PEX26_HUMAN	peroxisome biogenesis factor 26	98	Cytoplasmic (Potential).		R -> W (in NALD; affects the interaction with PEX6).		protein import into peroxisome matrix|protein import into peroxisome membrane	integral to peroxisomal membrane	protein C-terminus binding|protein complex binding			skin(1)	1						AGAAATGGATCGGTGGCAAGA	0.517													9	164	---	---	---	---	PASS	T	18562701	T	T	18562701	3	4	64	1	0	0	0	0	1	0	0	0	11746	875	31	2	298	2	PEX26	22	18562701	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08		18562701	32741865	522	25465										
CYTSA	23384	broad.mit.edu	37	chr22	24765209	24765209	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agaaaggaaagaccctctctCagcattggccagagaatatg	10	9	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr22:24765209C>T	uc002zzw.2	+	14	3315	c.3008C>T	c.(3007-3009)TCA>TTA	p.S1003L	CYTSA_uc002zzv.3_Missense_Mutation_p.S1003L|CYTSA_uc011ajq.1_Missense_Mutation_p.S1003L	NM_015330	NP_056145	Q69YQ0	CYTSA_HUMAN	cytospin A	1003					cell cycle|cell division						0						GACCCTCTCTCAGCATTGGCC	0.378													20	92	---	---	---	---	PASS	T	24765209	T	T	24765209	3	4	64	1	0	0	0	0	1	0	0	0	4209	838	29	2	3054	2	CYTSA	22	24765209	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	6202508	24765209	26539357	523	25466										
SF3A1	10291	broad.mit.edu	37	chr22	30730595	30730595	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cctcttgtctacttcttcctCccgcctctctccttgagggc	6	18	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr22:30730595C>T	uc003ahl.2	-	16	2502	c.2370G>A	c.(2368-2370)GGG>GGA	p.G790G		NM_005877	NP_005868	Q15459	SF3A1_HUMAN	splicing factor 3a, subunit 1, 120kDa isoform 1	790	Ubiquitin-like.				nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|U2-type spliceosomal complex	protein binding|RNA binding			ovary(3)|large_intestine(1)|pancreas(1)	5						ACTTCTTCCTCCCGCCTCTCT	0.562													5	193	---	---	---	---	PASS	T	30730595	T	T	30730595	2	4	64	1	0	0	0	0	0	0	0	1	14146	842	30	2		2	SF3A1	22	30730595	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	5965386	30730595	20573971	524	25467										
MAFF	23764	broad.mit.edu	37	chr22	38609893	38609893	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cccctatccagcaaagctctAaaggtgaggaggcagcctct	10	13	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr22:38609893A>G	uc011anp.1	+	2	371	c.33A>G	c.(31-33)CTA>CTG	p.L11L	MAFF_uc003avc.2_Silent_p.L11L|MAFF_uc011anq.1_Intron|MAFF_uc011anr.1_Silent_p.L11L|MAFF_uc003avd.2_Missense_Mutation_p.K61E	NM_001161572	NP_001155044	Q9ULX9	MAFF_HUMAN	transcription factor MAFF isoform a	11					blood coagulation|parturition|transcription from RNA polymerase II promoter	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Melanoma(58;0.045)					GCAAAGCTCTAAAGGTGAGGA	0.547													44	65	---	---	---	---	PASS	G	38609893	G	G	38609893	2	3	64	1	0	0	0	0	0	0	0	1	9159	349	13	5		5	MAFF	22	38609893	Silent	SNP	A	TCGA-34-2600-01A-01D-1522-08	7879298	38609893	12694673	525	25468										
TOMM22	56993	broad.mit.edu	37	chr22	39078929	39078929	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gggaccacttcctttatgatCctggttcttcccgttgtctt	8	12	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr22:39078929C>G	uc003awe.2	+	3	312	c.282C>G	c.(280-282)ATC>ATG	p.I94M	uc003awd.2_5'Flank	NM_020243	NP_064628	Q9NS69	TOM22_HUMAN	mitochondrial import receptor Tom22	94	TMD; necessary for mitochondrion outer membrane localization and integration in the TOM complex (By similarity).|Helical; (Potential).				protein import into mitochondrial outer membrane	integral to membrane|integral to membrane of membrane fraction|mitochondrial outer membrane translocase complex	protein binding|protein transmembrane transporter activity|receptor activity				0	Melanoma(58;0.04)					CCTTTATGATCCTGGTTCTTC	0.522													55	327	---	---	---	---	PASS	G	39078929	G	G	39078929	3	3	64	1	0	0	0	0	1	0	0	0	16353	845	30	2	292	2	TOMM22	22	39078929	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	469036	39078929	12225637	526	25469										
XRCC6	2547	broad.mit.edu	37	chr22	42042981	42042981	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaggctctcaagcctcctccAataaagctctatcgggaaac	7	13	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr22:42042981A>C	uc003bao.1	+	7	925	c.855A>C	c.(853-855)CCA>CCC	p.P285P	XRCC6_uc003bap.1_Silent_p.P244P|XRCC6_uc011apc.1_Silent_p.P235P|XRCC6_uc003baq.1_Silent_p.P285P|XRCC6_uc003bar.1_Silent_p.P285P|XRCC6_uc003bas.1_Silent_p.P235P	NM_001469	NP_001460	P12956	XRCC6_HUMAN	ATP-dependent DNA helicase II, 70 kDa subunit	285	Ku.				DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5						AGCCTCCTCCAATAAAGCTCT	0.438								Direct_reversal_of_damage|NHEJ					142	237	---	---	---	---	PASS	C	42042981	C	C	42042981	2	2	64	1	0	0	0	0	0	0	0	1	17454	117	5	5		5	XRCC6	22	42042981	Silent	SNP	A	TCGA-34-2600-01A-01D-1522-08	2964052	42042981	9261585	527	25470										
EFCAB6	64800	broad.mit.edu	37	chr22	43933266	43933266	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tctgaacgaacccaggaaatCggaggcgttgatgtccccct	11	12	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr22:43933266C>A	uc003bdy.1	-	29	4254	c.4039G>T	c.(4039-4041)GAT>TAT	p.D1347Y	EFCAB6_uc003bdz.1_Missense_Mutation_p.D1195Y|EFCAB6_uc010gzi.1_Missense_Mutation_p.D1195Y	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1347	Interaction with PARK7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CCCAGGAAATCGGAGGCGTTG	0.577													110	120	---	---	---	---	PASS	A	43933266	A	A	43933266	3	1	64	1	0	0	0	0	1	0	0	0	4939	884	31	2	482	2	EFCAB6	22	43933266	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1890285	43933266	7371300	528	25471										
GRAMD4	23151	broad.mit.edu	37	chr22	47059980	47059980	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cctctctgccttatccgactGgtactccgtctacacgtctg	7	16	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr22:47059980G>A	uc003bhx.2	+	7	722	c.683G>A	c.(682-684)TGG>TAG	p.W228*	GRAMD4_uc010had.2_Nonsense_Mutation_p.W167*	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	228					apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		TTATCCGACTGGTACTCCGTC	0.592													7	164	---	---	---	---	PASS	A	47059980	A	A	47059980	4	1	64	1	0	0	0	0	0	1	0	0	6752	1357	47	3	709	3	GRAMD4	22	47059980	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3126714	47059980	4244586	529	25472										
KLHDC7B	113730	broad.mit.edu	37	chr22	50987715	50987715	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccaaggccgtctgctccaacGaggtcttctgctacaaccct	8	16	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chr22:50987715G>A	uc003bmi.2	+	1	1254	c.1120G>A	c.(1120-1122)GAG>AAG	p.E374K		NM_138433	NP_612442	Q96G42	KLD7B_HUMAN	kelch domain containing 7B	374	Kelch 2.									central_nervous_system(1)	1		all_cancers(38;1.53e-10)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		OV - Ovarian serous cystadenocarcinoma(4;7.49e-69)|all cancers(3;9.79e-66)|Epithelial(4;1.3e-63)|GBM - Glioblastoma multiforme(4;0.000399)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CTGCTCCAACGAGGTCTTCTG	0.662													7	119	---	---	---	---	PASS	A	50987715	A	A	50987715	3	1	64	1	0	0	0	0	1	0	0	0	8361	1059	37	2	1122	2	KLHDC7B	22	50987715	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	3927735	50987715	316851	530	25473										
SH3KBP1	30011	broad.mit.edu	37	chrX	19713856	19713856	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	accttcccaccatccttcctCtacctgcagagatacaaaca	3	17	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:19713856C>T	uc004czm.2	-	5	710	c.394G>A	c.(394-396)GAG>AAG	p.E132K	SH3KBP1_uc004czl.2_Missense_Mutation_p.E95K	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	132	SH3 2.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						CATCCTTCCTCTACCTGCAGA	0.473													10	350	---	---	---	---	PASS	T	19713856	T	T	19713856	3	4	64	1	0	0	0	0	1	0	0	0	14255	922	32	2	1675	2	SH3KBP1	23	19713856	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08		19713856	135556704	531	25474										
SH3KBP1	30011	broad.mit.edu	37	chrX	19764486	19764486	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aagacagcaaagagtttccaCtgggcacttcgtgcaggggc	13	10	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:19764486C>A	uc004czm.2	-	3	552	c.236G>T	c.(235-237)AGT>ATT	p.S79I	SH3KBP1_uc004czl.2_Missense_Mutation_p.S42I	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	79					apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						AGAGTTTCCACTGGGCACTTC	0.428													439	172	---	---	---	---	PASS	A	19764486	A	A	19764486	3	1	64	1	0	0	0	0	1	0	0	0	14255	565	20	3	1841	3	SH3KBP1	23	19764486	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	50630	19764486	135506074	532	25475										
CNKSR2	22866	broad.mit.edu	37	chrX	21608737	21608737	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaatcaaagaagaaaaacaaAggtaagaaaaggaaatgaaa	8	2	1	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:21608737A>C	uc004czx.1	+	14	1692	c.1656A>C	c.(1654-1656)AAA>AAC	p.K552N	CNKSR2_uc004czw.2_Missense_Mutation_p.K552N|CNKSR2_uc011mjn.1_Missense_Mutation_p.K503N|CNKSR2_uc011mjo.1_Missense_Mutation_p.K522N|CNKSR2_uc004czy.2_Missense_Mutation_p.K144N	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	552					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						AGAAAAACAAAGGTAAGAAAA	0.403													67	26	---	---	---	---	PASS	C	21608737	C	C	21608737	3	2	64	1	0	0	0	0	1	0	0	0	3607	86	3	5	1710	5	CNKSR2	23	21608737	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	1844251	21608737	133661823	533	25476										
MBTPS2	51360	broad.mit.edu	37	chrX	21896174	21896174	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctttagcatacaaacgactaGatggttcaactgaatgctgt	8	8	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:21896174G>C	uc004dae.2	+	8	1182	c.985G>C	c.(985-987)GAT>CAT	p.D329H	MBTPS2_uc010nfr.2_Intron	NM_015884	NP_056968	O43462	MBTP2_HUMAN	membrane-bound transcription factor peptidase,	329	Cys-rich.|Lumenal (Probable).				cholesterol metabolic process|proteolysis	Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity			ovary(1)	1						CAAACGACTAGATGGTTCAAC	0.323													10	299	---	---	---	---	PASS	C	21896174	C	C	21896174	3	2	64	1	0	0	0	0	1	0	0	0	9362	942	33	2	1015	2	MBTPS2	23	21896174	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	287437	21896174	133374386	534	25477										
MBTPS2	51360	broad.mit.edu	37	chrX	21896718	21896718	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aagtttctgtataataccttCtttggaaactcacactcgct	5	10	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:21896718C>T	uc004dae.2	+	9	1366	c.1169C>T	c.(1168-1170)TCT>TTT	p.S390F	MBTPS2_uc010nfr.2_5'UTR	NM_015884	NP_056968	O43462	MBTP2_HUMAN	membrane-bound transcription factor peptidase,	390	Lumenal (Probable).				cholesterol metabolic process|proteolysis	Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity			ovary(1)	1						ATAATACCTTCTTTGGAAACT	0.388													177	355	---	---	---	---	PASS	T	21896718	T	T	21896718	3	4	64	1	0	0	0	0	1	0	0	0	9362	913	32	2	1203	2	MBTPS2	23	21896718	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	544	21896718	133373842	535	25478										
SMS	6611	broad.mit.edu	37	chrX	21995302	21995302	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcaccttatcaaaatataaaAattctacactcgaagcagtt	3	9	3	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:21995302A>T	uc004dag.2	+	5	554	c.453A>T	c.(451-453)AAA>AAT	p.K151N	SMS_uc011mjq.1_Missense_Mutation_p.K55N|SMS_uc004daf.1_Missense_Mutation_p.K98N|SMS_uc010nfs.2_5'Flank|SMS_uc010nft.2_5'Flank	NM_004595	NP_004586	P52788	SPSY_HUMAN	spermine synthase	151					methionine metabolic process|spermine biosynthetic process	cytosol	spermidine synthase activity|spermine synthase activity			ovary(1)	1					Spermine(DB00127)	AAAATATAAAAATTCTACACT	0.443													15	349	---	---	---	---	PASS	T	21995302	T	T	21995302	3	4	64	1	0	0	0	0	1	0	0	0	14813	11	1	5	471	5	SMS	23	21995302	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	98584	21995302	133275258	536	25479										
IL1RAPL1	11141	broad.mit.edu	37	chrX	29972810	29972810	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agatttaatcccaactggaaGtaagttaatgttttcatttg	7	5	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:29972810G>T	uc004dby.2	+	10	1880	c.1372_splice	c.e10+1	p.T458_splice		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1						innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						CCAACTGGAAGTAAGTTAATG	0.328													68	170	---	---	---	---	PASS	T	29972810	T	T	29972810	5	4	64	1	0	0	0	0	0	0	1	0	7661	1043	36	3	1407	3	IL1RAPL1	23	29972810	Splice_Site	SNP	G	TCGA-34-2600-01A-01D-1522-08	7977508	29972810	125297750	537	25480										
NR0B1	190	broad.mit.edu	37	chrX	30326750	30326750	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gactcttgagcgccaccggcCgcagcgcaccagaggaggtg	15	14	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:30326750C>A	uc004dcf.3	-	1	746	c.731G>T	c.(730-732)CGG>CTG	p.R244L		NM_000475	NP_000466	P51843	NR0B1_HUMAN	nuclear receptor subfamily 0, group B, member 1	244	4; truncated.|4 X 67 AA tandem repeats.				adrenal gland development|hypothalamus development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of steroid hormone receptor signaling pathway|pituitary gland development|protein localization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid biosynthetic process	cytoplasm|membrane fraction|nucleoplasm|nucleus|polysomal ribosome	AF-2 domain binding|DNA hairpin binding|ligand-regulated transcription factor activity|protein domain specific binding|protein homodimerization activity|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|steroid hormone receptor binding|transcription corepressor activity|transcription factor binding			ovary(1)|lung(1)	2					Dexamethasone(DB01234)|Tretinoin(DB00755)	CGCCACCGGCCGCAGCGCACC	0.672											OREG0019719	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	12	---	---	---	---	PASS	A	30326750	A	A	30326750	3	1	64	1	0	0	0	0	1	0	0	0	10613	652	23	1	689	1	NR0B1	23	30326750	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	353940	30326750	124943810	538	25481										
DGKK	139189	broad.mit.edu	37	chrX	50130570	50130570	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	actttcaaaatcacagacacTattgcagtgttgttctgttt	6	8	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:50130570T>C	uc010njr.1	-	14	2160	c.2100A>G	c.(2098-2100)ATA>ATG	p.I700M		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	700					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					TCACAGACACTATTGCAGTGT	0.388													13	43	---	---	---	---	PASS	C	50130570	C	C	50130570	3	2	64	1	0	0	0	0	1	0	0	0	4472	1512	53	5	1774	5	DGKK	23	50130570	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	19803820	50130570	105139990	539	25482										
HUWE1	10075	broad.mit.edu	37	chrX	53587154	53587154	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atctctgtaactcacctctgCagtataagaggagggttggg	12	8	3	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:53587154C>A	uc004dsp.2	-	56	8133	c.7731G>T	c.(7729-7731)CTG>CTT	p.L2577L	HUWE1_uc004dsn.2_Silent_p.L1401L|uc004dss.2_5'Flank|MIRLET7F2_hsa-let-7f-2|MI0000068_5'Flank	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2577					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CTCACCTCTGCAGTATAAGAG	0.498													6	13	---	---	---	---	PASS	A	53587154	A	A	53587154	2	1	64	1	0	0	0	0	0	0	0	1	7461	697	25	3		3	HUWE1	23	53587154	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	3456584	53587154	101683406	540	25483										
FGD1	2245	broad.mit.edu	37	chrX	54482795	54482795	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccttcagcagcttatgcattCgctcctggcaaaagacaggg	10	12	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:54482795C>T	uc004dtg.2	-	10	2434	c.1700G>A	c.(1699-1701)CGA>CAA	p.R567Q	FGD1_uc011moi.1_Missense_Mutation_p.R325Q	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	567					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CTTATGCATTCGCTCCTGGCA	0.547													31	64	---	---	---	---	PASS	T	54482795	T	T	54482795	3	4	64	1	0	0	0	0	1	0	0	0	5832	884	31	2	1221	2	FGD1	23	54482795	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	895641	54482795	100787765	541	25484										
ARHGEF9	23229	broad.mit.edu	37	chrX	62944454	62944454	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	catccctcctcatcgtcgatCtggccccaccaccaatcctt	4	20	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:62944454C>A	uc004dvl.2	-	2	986	c.147G>T	c.(145-147)CAG>CAT	p.Q49H	ARHGEF9_uc004dvj.1_Intron|ARHGEF9_uc004dvk.1_5'UTR|ARHGEF9_uc011mos.1_Missense_Mutation_p.Q28H|ARHGEF9_uc004dvm.1_Missense_Mutation_p.Q28H|ARHGEF9_uc011mot.1_Intron|ARHGEF9_uc004dvn.2_Missense_Mutation_p.Q56H	NM_015185	NP_056000	O43307	ARHG9_HUMAN	Cdc42 guanine exchange factor 9	49	SH3.				apoptosis|induction of apoptosis by extracellular signals|ion transmembrane transport|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(5)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	8						CATCGTCGATCTGGCCCCACC	0.537													54	36	---	---	---	---	PASS	A	62944454	A	A	62944454	3	1	64	1	0	0	0	0	1	0	0	0	912	912	32	2	1439	2	ARHGEF9	23	62944454	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	8461659	62944454	92326106	542	25485										
MSN	4478	broad.mit.edu	37	chrX	64949369	64949369	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gtgccaagttctaccctgagGatgtgtccgaggaattgatt	12	8	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:64949369G>C	uc004dwf.2	+	4	460	c.262G>C	c.(262-264)GAT>CAT	p.D88H		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	88	FERM.				leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton	p.D88A(1)	MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						CTACCCTGAGGATGTGTCCGA	0.502			T	ALK	ALCL								132	109	---	---	---	---	PASS	C	64949369	C	C	64949369	3	2	64	1	0	0	0	0	1	0	0	0	9885	1174	41	2	276	2	MSN	23	64949369	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2004915	64949369	90321191	543	25486										
VSIG4	11326	broad.mit.edu	37	chrX	65252493	65252493	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccaaatataactgatgggagGagaaccccgagcctggcatt	11	10	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:65252493G>A	uc004dwh.2	-	3	638	c.511C>T	c.(511-513)CCT>TCT	p.P171S	VSIG4_uc004dwi.2_Intron|VSIG4_uc010nkq.1_Missense_Mutation_p.P171S|VSIG4_uc004dwj.2_Missense_Mutation_p.P171S|VSIG4_uc011moy.1_Intron|VSIG4_uc004dwk.2_Missense_Mutation_p.P171S|VSIG4_uc004dwl.2_Missense_Mutation_p.P67S	NM_007268	NP_009199	Q9Y279	VSIG4_HUMAN	V-set and immunoglobulin domain containing 4	171	Ig-like 2.|Extracellular (Potential).				complement activation, alternative pathway	integral to membrane	protein binding				0						CTGATGGGAGGAGAACCCCGA	0.502													4	99	---	---	---	---	PASS	A	65252493	A	A	65252493	3	1	64	1	0	0	0	0	1	0	0	0	17222	1174	41	2	716	2	VSIG4	23	65252493	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	303124	65252493	90018067	544	25487										
FAM155B	27112	broad.mit.edu	37	chrX	68725502	68725502	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caacctgaccaaagccgcccCcgccgccggctctcggccgg	11	21	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:68725502C>A	uc004dxk.2	+	1	425	c.377C>A	c.(376-378)CCC>CAC	p.P126H		NM_015686	NP_056501	O75949	F155B_HUMAN	transmembrane protein 28	126						integral to membrane				ovary(1)|breast(1)	2						AAAGCCGCCCCCGCCGCCGGC	0.557													3	14	---	---	---	---	PASS	A	68725502	A	A	68725502	3	1	64	1	0	0	0	0	1	0	0	0	5466	623	22	3	379	3	FAM155B	23	68725502	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	3473009	68725502	86545058	545	25488										
IGBP1	3476	broad.mit.edu	37	chrX	69353813	69353813	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccaagatggctgctgaggacGagttacagctgccgcggctc	14	12	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:69353813G>A	uc004dxv.2	+	1	515	c.16G>A	c.(16-18)GAG>AAG	p.E6K	IGBP1_uc004dxw.2_Missense_Mutation_p.E6K	NM_001551	NP_001542	P78318	IGBP1_HUMAN	immunoglobulin binding protein 1	6					B cell activation|negative regulation of caspase activity|negative regulation of stress-activated MAPK cascade|negative regulation of transcription from RNA polymerase II promoter|regulation of microtubule-based movement|response to interleukin-1|response to tumor necrosis factor|signal transduction	cytoplasm	protein phosphatase type 2A regulator activity	p.E6V(1)		kidney(1)|pancreas(1)	2						TGCTGAGGACGAGTTACAGCT	0.552											OREG0019849	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	39	---	---	---	---	PASS	A	69353813	A	A	69353813	3	1	64	1	0	0	0	0	1	0	0	0	7567	1059	37	2	18	2	IGBP1	23	69353813	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	628311	69353813	85916747	546	25489										
TEX11	56159	broad.mit.edu	37	chrX	69871348	69871348	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aatcttgaatatataaaattGagtgaaaacgttcctagggt	8	4	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:69871348G>A	uc004dyl.2	-	18	1642	c.1480C>T	c.(1480-1482)CAA>TAA	p.Q494*	TEX11_uc004dyk.2_Nonsense_Mutation_p.Q169*|TEX11_uc004dym.2_Nonsense_Mutation_p.Q479*	NM_001003811	NP_001003811	Q8IYF3	TEX11_HUMAN	testis expressed sequence 11 isoform 1	494							protein binding			ovary(3)|breast(1)|skin(1)	5	Renal(35;0.156)					ATATAAAATTGAGTGAAAACG	0.343													6	107	---	---	---	---	PASS	A	69871348	A	A	69871348	4	1	64	1	0	0	0	0	0	1	0	0	15771	1299	45	2	1398	2	TEX11	23	69871348	Nonsense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	517535	69871348	85399212	547	25490										
ARMCX5	64860	broad.mit.edu	37	chrX	101857187	101857187	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaacccaggccgaggcagtgGctgaggcagaactgaaaaca	13	10	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:101857187G>A	uc004ejg.2	+	6	999	c.118G>A	c.(118-120)GCT>ACT	p.A40T	ARMCX5_uc004ejh.2_Missense_Mutation_p.A40T	NM_022838	NP_073749	Q6P1M9	ARMX5_HUMAN	armadillo repeat containing, X-linked 5	40							binding			ovary(1)	1						CGAGGCAGTGGCTGAGGCAGA	0.542													47	19	---	---	---	---	PASS	A	101857187	A	A	101857187	3	1	64	1	0	0	0	0	1	0	0	0	962	1203	42	3	120	3	ARMCX5	23	101857187	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	31985839	101857187	53413373	548	25491										
GPRASP1	9737	broad.mit.edu	37	chrX	101912007	101912007	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctgttcagttcaagcctggtCcatggggtagggtcggcttc	14	10	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:101912007C>T	uc004ejj.3	+	5	3967	c.3166C>T	c.(3166-3168)CCA>TCA	p.P1056S	GPRASP1_uc004eji.3_Missense_Mutation_p.P1056S|GPRASP1_uc010nod.2_Missense_Mutation_p.P1056S	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	1056	OPRD1-binding.					cytoplasm	protein binding			ovary(1)|lung(1)	2						CAAGCCTGGTCCATGGGGTAG	0.522													79	336	---	---	---	---	PASS	T	101912007	T	T	101912007	3	4	64	1	0	0	0	0	1	0	0	0	6722	855	30	2	3168	2	GPRASP1	23	101912007	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	54820	101912007	53358553	549	25492										
IL1RAPL2	26280	broad.mit.edu	37	chrX	104984616	104984616	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agttgtggaagctgacctggCgaattatacctgccatgttg	12	8	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:104984616C>A	uc004elz.1	+	8	1736	c.980C>A	c.(979-981)GCG>GAG	p.A327E		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	327	Ig-like C2-type 3.|Extracellular (Potential).				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						GCTGACCTGGCGAATTATACC	0.388													60	52	---	---	---	---	PASS	A	104984616	A	A	104984616	3	1	64	1	0	0	0	0	1	0	0	0	7662	768	27	1	1006	1	IL1RAPL2	23	104984616	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	3072609	104984616	50285944	550	25493										
MUM1L1	139221	broad.mit.edu	37	chrX	105450780	105450780	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	atttgattgtaaagagaaacAaatgctagtggacaaagcca	9	5	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:105450780A>C	uc004emf.1	+	4	2004	c.1355A>C	c.(1354-1356)CAA>CCA	p.Q452P	MUM1L1_uc004emg.1_Missense_Mutation_p.Q452P	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	452	PWWP.									ovary(2)|pancreas(1)|skin(1)	4						AAAGAGAAACAAATGCTAGTG	0.353													33	108	---	---	---	---	PASS	C	105450780	C	C	105450780	3	2	64	1	0	0	0	0	1	0	0	0	9986	130	5	5	1357	5	MUM1L1	23	105450780	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	466164	105450780	49819780	551	25494										
LONRF3	79836	broad.mit.edu	37	chrX	118109537	118109537	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggtggaggcggcactgctcaAgtacaacgaggcagttaagt	15	8	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:118109537A>T	uc004eqw.2	+	1	825	c.794A>T	c.(793-795)AAG>ATG	p.K265M	LONRF3_uc004eqx.2_Missense_Mutation_p.K265M|LONRF3_uc004eqy.2_RNA|LONRF3_uc004eqz.2_5'Flank	NM_001031855	NP_001027026	Q496Y0	LONF3_HUMAN	LON peptidase N-terminal domain and ring finger	265	TPR 2.				proteolysis		ATP-dependent peptidase activity|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)	2						GCACTGCTCAAGTACAACGAG	0.667													7	4	---	---	---	---	PASS	T	118109537	T	T	118109537	3	4	64	1	0	0	0	0	1	0	0	0	8896	72	3	5	796	5	LONRF3	23	118109537	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	12658757	118109537	37161023	552	25495										
KIAA1210	57481	broad.mit.edu	37	chrX	118243104	118243104	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acttgctgatctttcaggctCaggacccaacatgaagatgc	9	11	3	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:118243104C>T	uc004era.3	-	5	712	c.712G>A	c.(712-714)GAG>AAG	p.E238K		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	238										ovary(4)|skin(1)	5						CTTTCAGGCTCAGGACCCAAC	0.488													5	45	---	---	---	---	PASS	T	118243104	T	T	118243104	3	4	64	1	0	0	0	0	1	0	0	0	8214	835	29	2	4457	2	KIAA1210	23	118243104	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	133567	118243104	37027456	553	25496										
SLC25A5	292	broad.mit.edu	37	chrX	118604025	118604025	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tacaaatctgatgggattaaGggcctgtaccaaggctttaa	10	7	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:118604025G>C	uc004erh.3	+	2	629	c.513G>C	c.(511-513)AAG>AAC	p.K171N	LOC100303728_uc004ere.1_5'Flank|LOC100303728_uc004erg.1_5'Flank	NM_001152	NP_001143	P05141	ADT2_HUMAN	adenine nucleotide translocator 2	171	Solcar 2.				chromosome segregation|energy reserve metabolic process|interspecies interaction between organisms|regulation of insulin secretion|viral reproduction	integral to plasma membrane|mitochondrial inner membrane|mitochondrial nucleoid|MMXD complex	adenine transmembrane transporter activity|protein binding			ovary(1)	1					Clodronate(DB00720)	ATGGGATTAAGGGCCTGTACC	0.502													276	222	---	---	---	---	PASS	C	118604025	C	C	118604025	3	2	64	1	0	0	0	0	1	0	0	0	14512	991	35	4	519	4	SLC25A5	23	118604025	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	360921	118604025	36666535	554	25497										
UPF3B	65109	broad.mit.edu	37	chrX	118985785	118985785	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctcaggcataggttgaagatGttcctgaagctgctccttgg	12	9	1	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:118985785G>A	uc004erz.1	-	2	285	c.208C>T	c.(208-210)CAT>TAT	p.H70Y	UPF3B_uc004esa.1_Missense_Mutation_p.H70Y	NM_080632	NP_542199	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B	70	Necessary for interaction with UPF2.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|termination of RNA polymerase II transcription	cytosol|exon-exon junction complex|nucleoplasm	mRNA binding|nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(2)|kidney(1)	3						GGTTGAAGATGTTCCTGAAGC	0.328													14	49	---	---	---	---	PASS	A	118985785	A	A	118985785	3	1	64	1	0	0	0	0	1	0	0	0	17003	1377	48	3	1283	3	UPF3B	23	118985785	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	381760	118985785	36284775	555	25498										
RNF113A	7737	broad.mit.edu	37	chrX	119004853	119004853	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gttttcatcctcatagacacCatagcgaccctcatcaagct	5	14	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:119004853C>T	uc004esb.2	-	1	939	c.724G>A	c.(724-726)GGT>AGT	p.G242S	NDUFA1_uc004esc.3_5'Flank	NM_006978	NP_008909	O15541	R113A_HUMAN	ring finger protein 113A	242							nucleic acid binding|zinc ion binding			breast(2)	2						TCATAGACACCATAGCGACCC	0.488													13	258	---	---	---	---	PASS	T	119004853	T	T	119004853	3	4	64	1	0	0	0	0	1	0	0	0	13427	594	21	3	311	3	RNF113A	23	119004853	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	19068	119004853	36265707	556	25499										
ATP1B4	23439	broad.mit.edu	37	chrX	119509334	119509334	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agaaggcctgccaatttaagCgctccttcctaaagaactgc	8	12	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:119509334C>A	uc004esr.2	+	5	754	c.670C>A	c.(670-672)CGC>AGC	p.R224S	ATP1B4_uc004esq.2_Missense_Mutation_p.R220S|ATP1B4_uc011mtx.1_Missense_Mutation_p.R189S|ATP1B4_uc011mty.1_Missense_Mutation_p.R181S	NM_001142447	NP_001135919	Q9UN42	AT1B4_HUMAN	ATPase, (Na+)/K+ transporting, beta 4	224	Perinuclear space (Potential).				ATP biosynthetic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to plasma membrane|nuclear inner membrane	sodium:potassium-exchanging ATPase activity			ovary(1)|skin(1)	2						CCAATTTAAGCGCTCCTTCCT	0.483													174	107	---	---	---	---	PASS	A	119509334	A	A	119509334	3	1	64	1	0	0	0	0	1	0	0	0	1135	768	27	1	688	1	ATP1B4	23	119509334	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	504481	119509334	35761226	557	25500										
GLUD2	2747	broad.mit.edu	37	chrX	120183012	120183012	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttcccattgtacccacggcaGagttccaagacagtatatcg	8	12	0	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:120183012G>A	uc004eto.2	+	1	1551	c.1474G>A	c.(1474-1476)GAG>AAG	p.E492K		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	492					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	ACCCACGGCAGAGTTCCAAGA	0.453													11	215	---	---	---	---	PASS	A	120183012	A	A	120183012	3	1	64	1	0	0	0	0	1	0	0	0	6477	943	33	2	1476	2	GLUD2	23	120183012	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	673678	120183012	35087548	558	25501										
THOC2	57187	broad.mit.edu	37	chrX	122840735	122840735	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tcactaagaacattagatgcCtgttcatgctttagatttcc	6	9	2	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:122840735C>T	uc004etu.2	-	3	227	c.195G>A	c.(193-195)CAG>CAA	p.Q65Q	THOC2_uc011muh.1_5'UTR|THOC2_uc011mui.1_5'UTR	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	65					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						CATTAGATGCCTGTTCATGCT	0.299													24	31	---	---	---	---	PASS	T	122840735	T	T	122840735	2	4	64	1	0	0	0	0	0	0	0	1	15862	680	24	3		3	THOC2	23	122840735	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	2657723	122840735	32429825	559	25502										
STAG2	10735	broad.mit.edu	37	chrX	123224561	123224561	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttacggcctgaggatagcttCatgagtgtttatccaatgca	10	8	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:123224561C>T	uc004etz.3	+	30	3753	c.3414C>T	c.(3412-3414)TTC>TTT	p.F1138F	STAG2_uc004eua.2_Silent_p.F1138F|STAG2_uc004eub.2_Silent_p.F1138F|STAG2_uc004euc.2_Silent_p.F1138F|STAG2_uc004eud.2_Silent_p.F1138F|STAG2_uc004eue.2_Silent_p.F1138F	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	1138					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						AGGATAGCTTCATGAGTGTTT	0.383													7	201	---	---	---	---	PASS	T	123224561	T	T	123224561	2	4	64	1	0	0	0	0	0	0	0	1	15242	825	29	2		2	STAG2	23	123224561	Silent	SNP	C	TCGA-34-2600-01A-01D-1522-08	383826	123224561	32045999	560	25503										
IGSF1	3547	broad.mit.edu	37	chrX	130416701	130416701	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	cgagcaagtagccaggtcttGgggaaagtgtctaggatgag	16	6	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:130416701G>T	uc004ewd.2	-	7	1201	c.963C>A	c.(961-963)CCC>CCA	p.P321P	IGSF1_uc004ewe.3_Silent_p.P310P|IGSF1_uc004ewf.2_Silent_p.P301P	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	321	Ig-like C2-type 4.|Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GCCAGGTCTTGGGGAAAGTGT	0.507													67	75	---	---	---	---	PASS	T	130416701	T	T	130416701	2	4	64	1	0	0	0	0	0	0	0	1	7596	1335	47	3		3	IGSF1	23	130416701	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	7192140	130416701	24853859	561	25504										
GPC3	2719	broad.mit.edu	37	chrX	132834024	132834024	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	taataagcagatctatattgGcgttgttgagaatgggcaca	11	5	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:132834024G>T	uc004exe.1	-	4	1255	c.1065C>A	c.(1063-1065)CGC>CGA	p.R355R	GPC3_uc004exd.1_Silent_p.R227R|GPC3_uc010nrn.1_Silent_p.R378R|GPC3_uc011mvh.1_Silent_p.R339R|GPC3_uc010nro.1_Silent_p.R301R|GPC3_uc010nrp.1_Silent_p.R227R	NM_004484	NP_004475	P51654	GPC3_HUMAN	glypican 3 isoform 2 precursor	355						extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding|peptidyl-dipeptidase inhibitor activity			lung(2)|prostate(1)|breast(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					ATCTATATTGGCGTTGTTGAG	0.323			T|D|Mis|N|F|S			Wilms tumour			Simpson-Golabi-Behmel_syndrome				132	216	---	---	---	---	PASS	T	132834024	T	T	132834024	2	4	64	1	0	0	0	0	0	0	0	1	6599	1190	42	3		3	GPC3	23	132834024	Silent	SNP	G	TCGA-34-2600-01A-01D-1522-08	2417323	132834024	22436536	562	25505										
GPR112	139378	broad.mit.edu	37	chrX	135428578	135428578	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ataataaaactgcaacaactGaggtgagagaaagttggctt	10	5	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:135428578G>C	uc004ezu.1	+	6	3004	c.2713G>C	c.(2713-2715)GAG>CAG	p.E905Q	GPR112_uc010nsb.1_Missense_Mutation_p.E700Q|GPR112_uc010nsc.1_Missense_Mutation_p.E672Q	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	905	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TGCAACAACTGAGGTGAGAGA	0.378													22	467	---	---	---	---	PASS	C	135428578	C	C	135428578	3	2	64	1	0	0	0	0	1	0	0	0	6629	1291	45	2	2723	2	GPR112	23	135428578	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	2594554	135428578	19841982	563	25506										
RBMX	27316	broad.mit.edu	37	chrX	135956578	135956578	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttccaccataagatggcgggGgccctcgtgtaggtggagca	15	10	0	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:135956578G>T	uc004fae.1	-	9	1109	c.899C>A	c.(898-900)CCC>CAC	p.P300H	RBMX_uc004fac.1_5'Flank|RBMX_uc011mwf.1_Intron|RBMX_uc004fad.1_3'UTR|RBMX_uc011mwg.1_Missense_Mutation_p.P261H|RBMX_uc004faf.1_Missense_Mutation_p.P161H|RBMX_uc010nsf.1_Missense_Mutation_p.P261H|RBMX_uc004fag.1_Missense_Mutation_p.P172H	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	300						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					AGATGGCGGGGGCCCTCGTGT	0.463													96	187	---	---	---	---	PASS	T	135956578	T	T	135956578	3	4	64	1	0	0	0	0	1	0	0	0	13151	1232	43	3	335	3	RBMX	23	135956578	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	528000	135956578	19313982	564	25507										
RBMX	27316	broad.mit.edu	37	chrX	135961272	135961272	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ttgttggtttcacggtctttCatcaagagtactaaaaagta	8	6	4	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:135961272C>T	uc004fae.1	-	3	330	c.120G>A	c.(118-120)ATG>ATA	p.M40I	RBMX_uc011mwf.1_Missense_Mutation_p.M40I|RBMX_uc004fad.1_Missense_Mutation_p.M40I|RBMX_uc011mwg.1_Missense_Mutation_p.M1I|RBMX_uc004faf.1_5'UTR|RBMX_uc010nsf.1_Missense_Mutation_p.M1I|RBMX_uc004fag.1_Intron	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	40	RRM.					catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					CACGGTCTTTCATCAAGAGTA	0.378													71	354	---	---	---	---	PASS	T	135961272	T	T	135961272	3	4	64	1	0	0	0	0	1	0	0	0	13151	826	29	2	1138	2	RBMX	23	135961272	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	4694	135961272	19309288	565	25508										
MCF2	4168	broad.mit.edu	37	chrX	138670585	138670585	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	tagccacgtcatcttcacatCtacattagaagcctaaagat	5	11	4	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:138670585C>G	uc004fau.2	-	21	2677	c.2383G>C	c.(2383-2385)GAT>CAT	p.D795H	MCF2_uc004fav.2_Missense_Mutation_p.D811H|MCF2_uc011mwl.1_Missense_Mutation_p.D772H|MCF2_uc010nsh.1_Missense_Mutation_p.D795H|MCF2_uc011mwm.1_Missense_Mutation_p.D756H|MCF2_uc011mwn.1_Missense_Mutation_p.D940H|MCF2_uc004faw.2_Missense_Mutation_p.D855H|MCF2_uc011mwo.1_Missense_Mutation_p.D871H	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	795	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					ATCTTCACATCTACATTAGAA	0.338													19	87	---	---	---	---	PASS	G	138670585	G	G	138670585	3	3	64	1	0	0	0	0	1	0	0	0	9378	913	32	2	442	2	MCF2	23	138670585	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2709313	138670585	16599975	566	25509										
ATP11C	286410	broad.mit.edu	37	chrX	138869371	138869371	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggttctctactctcatatatCcatttcgatttcctaaaaat	3	10	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:138869371C>A	uc004faz.2	-	15	1661	c.1562G>T	c.(1561-1563)GGA>GTA	p.G521V	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Missense_Mutation_p.G521V	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	521	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					TCTCATATATCCATTTCGATT	0.284													4	115	---	---	---	---	PASS	A	138869371	A	A	138869371	3	1	64	1	0	0	0	0	1	0	0	0	1121	855	30	2	1963	2	ATP11C	23	138869371	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	198786	138869371	16401189	567	25510										
CDR1	1038	broad.mit.edu	37	chrX	139866206	139866206	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ctatagcttccaaaaaatccGggtcttccaggaaatccgtg	8	11	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:139866206G>A	uc004fbg.1	-	1	518	c.326C>T	c.(325-327)CCG>CTG	p.P109L	uc004fbf.1_RNA	NM_004065	NP_004056	P51861	CDR1_HUMAN	cerebellar degeneration-related protein 1,	109	18.|23 X 6 AA approximate repeats.										0	Acute lymphoblastic leukemia(192;7.65e-05)	Lung SC(4;0.051)				CAAAAAATCCGGGTCTTCCAG	0.448													108	236	---	---	---	---	PASS	A	139866206	A	A	139866206	3	1	64	1	0	0	0	0	1	0	0	0	3171	1116	39	1	466	1	CDR1	23	139866206	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	996835	139866206	15404354	568	25511										
FMR1NB	158521	broad.mit.edu	37	chrX	147106426	147106426	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	aaggcaggacaacagagttgTaacgggtttgaagaaacaaa	12	5	0	3			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:147106426T>C	uc004fcm.2	+	5	748	c.674T>C	c.(673-675)GTA>GCA	p.V225A		NM_152578	NP_689791	Q8N0W7	FMR1N_HUMAN	fragile X mental retardation 1 neighbor	225	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					AACAGAGTTGTAACGGGTTTG	0.413													131	102	---	---	---	---	PASS	C	147106426	C	C	147106426	3	2	64	1	0	0	0	0	1	0	0	0	5961	1638	57	5	692	5	FMR1NB	23	147106426	Missense_Mutation	SNP	T	TCGA-34-2600-01A-01D-1522-08	7240220	147106426	8164134	569	25512										
MAGEA11	4110	broad.mit.edu	37	chrX	148796226	148796226	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	acagtggtcccaggatctgcCaagagtccaggtgagaaacc	12	11	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:148796226C>G	uc004fdq.2	+	3	284	c.182C>G	c.(181-183)CCA>CGA	p.P61R	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Missense_Mutation_p.P32R	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	61						cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CAGGATCTGCCAAGAGTCCAG	0.547													14	53	---	---	---	---	PASS	G	148796226	G	G	148796226	3	3	64	1	0	0	0	0	1	0	0	0	9165	594	21	4	201	4	MAGEA11	23	148796226	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1689800	148796226	6474334	570	25513										
CD99L2	83692	broad.mit.edu	37	chrX	149999760	149999760	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ggttaaaatcatcaaagtccCcagatcctaaaaattaaaaa	4	8	2	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:149999760C>T	uc004fel.2	-	2	192	c.74G>A	c.(73-75)GGG>GAG	p.G25E	CD99L2_uc004fem.2_Missense_Mutation_p.G25E|CD99L2_uc004fen.2_Missense_Mutation_p.G25E|CD99L2_uc004feo.2_RNA|CD99L2_uc011myb.1_Missense_Mutation_p.G25E	NM_031462	NP_113650	Q8TCZ2	C99L2_HUMAN	CD99 antigen-like 2 isoform E3'-E4'-E3-E4	25					cell adhesion	cell junction|integral to membrane				large_intestine(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ATCAAAGTCCCCAGATCCtaa	0.279													50	161	---	---	---	---	PASS	T	149999760	T	T	149999760	3	4	64	1	0	0	0	0	1	0	0	0	3051	623	22	3	754	3	CD99L2	23	149999760	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	1203534	149999760	5270800	571	25514										
PNMA5	114824	broad.mit.edu	37	chrX	152158903	152158903	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcctggagtctggttttcagCcttgggatacgtggcctggc	15	10	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:152158903C>T	uc010ntw.2	-	3	1579	c.1240G>A	c.(1240-1242)GCT>ACT	p.A414T	PNMA5_uc004fha.3_Missense_Mutation_p.A414T|PNMA5_uc010ntx.2_Missense_Mutation_p.A414T|PNMA5_uc004fgy.3_Missense_Mutation_p.A414T	NM_001103151	NP_001096621	Q96PV4	PNMA5_HUMAN	paraneoplastic antigen like 5	414					apoptosis					ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TGGTTTTCAGCCTTGGGATAC	0.612													7	257	---	---	---	---	PASS	T	152158903	T	T	152158903	3	4	64	1	0	0	0	0	1	0	0	0	12156	739	26	3	110	3	PNMA5	23	152158903	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	2159143	152158903	3111657	572	25515										
ZNF275	10838	broad.mit.edu	37	chrX	152613051	152613051	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccactgcggcaagctcttccGaaggagctcggagctcacca	11	15	2	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:152613051G>A	uc004fhg.1	+	4	1085	c.908G>A	c.(907-909)CGA>CAA	p.R303Q	ZNF275_uc011mym.1_Missense_Mutation_p.R303Q|ZNF275_uc011myn.1_Missense_Mutation_p.R240Q			A6NFS0	A6NFS0_HUMAN	SubName: Full=cDNA FLJ16723 fis, clone UTERU3004418, highly similar to Zinc finger protein 275; SubName: Full=Putative uncharacterized protein ZNF275;	303						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AAGCTCTTCCGAAGGAGCTCG	0.682													6	15	---	---	---	---	PASS	A	152613051	A	A	152613051	3	1	64	1	0	0	0	0	1	0	0	0	17807	1058	37	2	918	2	ZNF275	23	152613051	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	454148	152613051	2657509	573	25516										
PLXNB3	5365	broad.mit.edu	37	chrX	153043732	153043732	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	gcaggattccccagtgaacaAactgctctacgcccgggaga	11	13	1	2			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:153043732A>C	uc004fii.2	+	33	5600	c.5426A>C	c.(5425-5427)AAA>ACA	p.K1809T	PLXNB3_uc010nuk.2_Missense_Mutation_p.K1832T|PLXNB3_uc011mzd.1_Missense_Mutation_p.K1448T|SRPK3_uc004fik.2_5'UTR|SRPK3_uc010nul.2_5'Flank|SRPK3_uc004fin.2_5'Flank|SRPK3_uc004fil.2_5'Flank|SRPK3_uc004fim.2_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1809	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CCAGTGAACAAACTGCTCTAC	0.652													27	74	---	---	---	---	PASS	C	153043732	C	C	153043732	3	2	64	1	0	0	0	0	1	0	0	0	12125	14	1	5	5670	5	PLXNB3	23	153043732	Missense_Mutation	SNP	A	TCGA-34-2600-01A-01D-1522-08	430681	153043732	2226828	574	25517										
IDH3G	3421	broad.mit.edu	37	chrX	153053286	153053286	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	ccccatgcacacctcatgctCcaggctgctgtactcgccct	7	19	1	0			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:153053286C>G	uc004fip.2	-	7	718	c.532G>C	c.(532-534)GAG>CAG	p.E178Q	IDH3G_uc004fio.2_Missense_Mutation_p.E120Q|IDH3G_uc004fiq.2_Missense_Mutation_p.E178Q|IDH3G_uc010num.2_Missense_Mutation_p.E120Q|IDH3G_uc004fir.2_Missense_Mutation_p.E120Q|IDH3G_uc004fit.1_Missense_Mutation_p.E178Q|IDH3G_uc004fis.2_Missense_Mutation_p.E120Q|IDH3G_uc004fiu.2_5'Flank	NM_004135	NP_004126	P51553	IDH3G_HUMAN	isocitrate dehydrogenase 3 (NAD+) gamma isoform	178					carbohydrate metabolic process|isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleolus	ATP binding|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	ACCTCATGCTCCAGGCTGCTG	0.592													8	287	---	---	---	---	PASS	G	153053286	G	G	153053286	3	3	64	1	0	0	0	0	1	0	0	0	7498	864	30	2	740	2	IDH3G	23	153053286	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	9554	153053286	2217274	575	25518										
FUNDC2	65991	broad.mit.edu	37	chrX	154280053	154280053	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	agagcaatcagatacctactGaggtcaggagcaaagctgag	12	8	2	4			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:154280053G>C	uc004fmw.2	+	4	619	c.469G>C	c.(469-471)GAG>CAG	p.E157Q		NM_023934	NP_076423	Q9BWH2	FUND2_HUMAN	FUN14 domain containing 2	157						mitochondrion					0	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GATACCTACTGAGGTCAGGAG	0.463													3	126	---	---	---	---	PASS	C	154280053	C	C	154280053	3	2	64	1	0	0	0	0	1	0	0	0	6098	1291	45	2	483	2	FUNDC2	23	154280053	Missense_Mutation	SNP	G	TCGA-34-2600-01A-01D-1522-08	1226767	154280053	990507	576	25519										
RAB39B	116442	broad.mit.edu	37	chrX	154493444	154493444	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343859649122807	196	1.74648117707107e-60	3.52625881825986	4.43260848740301	2.94765166340509	0.774366934292522	1	140	caccaagcgggagaaaaaatCcacccccacggtggggtcag	12	13	1	1			TCGA-34-2600-01A-01D-1522-08	TCGA-34-2600-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	167e0f4e-e7d3-4942-885a-cf06419bbe6d	2eceada6-384b-4388-adad-1307037333a1	g.chrX:154493444C>A	uc004fne.2	-	1	409	c.130G>T	c.(130-132)GAT>TAT	p.D44Y		NM_171998	NP_741995	Q96DA2	RB39B_HUMAN	RAB39B, member RAS oncogene family	44	Effector region (By similarity).				protein transport|small GTPase mediated signal transduction|synapse organization|vesicle-mediated transport	Golgi apparatus|plasma membrane	GTP binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GAGAAAAAATCCACCCCCACG	0.597													69	144	---	---	---	---	PASS	A	154493444	A	A	154493444	3	1	64	1	0	0	0	0	1	0	0	0	12930	855	30	2	519	2	RAB39B	23	154493444	Missense_Mutation	SNP	C	TCGA-34-2600-01A-01D-1522-08	213391	154493444	777116	577	25520										
MXRA8	54587	broad.mit.edu	37	chr1	1290419	1290419	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cacctgttgagcctcctccaCgtgccggtcggtccacacgt	10	17	0	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:1290419C>T	uc001aew.2	-	5	623	c.592G>A	c.(592-594)GTG>ATG	p.V198M	MXRA8_uc001aex.3_Missense_Mutation_p.V198M|MXRA8_uc001aey.3_Missense_Mutation_p.V198M|MXRA8_uc010nyl.1_Missense_Mutation_p.V198M|MXRA8_uc001aez.2_Missense_Mutation_p.V97M|MXRA8_uc001afa.2_Missense_Mutation_p.V189M	NM_032348	NP_115724	Q9BRK3	MXRA8_HUMAN	matrix-remodelling associated 8 precursor	198	Ig-like V-type 2.|Extracellular (Potential).					integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		GCCTCCTCCACGTGCCGGTCG	0.726													3	21	---	---	---	---	PASS	T	1290419	T	T	1290419	3	4	65	1	0	0	0	0	1	0	0	0	10005	536	19	1	760	1	MXRA8	1	1290419	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		1290419	247960202	1	25521										
C1orf174	339448	broad.mit.edu	37	chr1	3806599	3806599	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	atttttctgaactctcgtctGctcattgaaggacaagatga	8	8	4	4			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:3806599G>A	uc001alf.2	-	4	764	c.657C>T	c.(655-657)AGC>AGT	p.S219S	C1orf174_uc009vls.2_RNA	NM_207356	NP_997239	Q8IYL3	CA174_HUMAN	hypothetical protein LOC339448	219											0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;5.09e-25)|all_epithelial(116;9.35e-17)|all_lung(118;1.09e-06)|Lung NSC(185;0.000139)|all_neural(13;0.00287)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0219)|all_hematologic(16;0.027)|Colorectal(325;0.0276)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;1.55e-39)|OV - Ovarian serous cystadenocarcinoma(86;5.99e-23)|GBM - Glioblastoma multiforme(42;2.22e-17)|Colorectal(212;1.08e-05)|COAD - Colon adenocarcinoma(227;5.49e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000365)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.19)		ACTCTCGTCTGCTCATTGAAG	0.373													17	107	---	---	---	---	PASS	A	3806599	A	A	3806599	2	1	65	1	0	0	0	0	0	0	0	1	2015	1310	46	3		3	C1orf174	1	3806599	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	2516180	3806599	245444022	2	25522										
NPHP4	261734	broad.mit.edu	37	chr1	6007263	6007263	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tctgggaggcggaggcggctTctcaaaaccagagcttggct	15	10	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:6007263T>A	uc001alq.1	-	9	1286	c.1020A>T	c.(1018-1020)AGA>AGT	p.R340S	NPHP4_uc001als.1_RNA|NPHP4_uc009vlt.1_RNA|NPHP4_uc001alt.1_RNA	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	340					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		GGAGGCGGCTTCTCAAAACCA	0.597													12	93	---	---	---	---	PASS	A	6007263	A	A	6007263	3	1	65	1	0	0	0	0	1	0	0	0	10581	1780	62	5	3348	5	NPHP4	1	6007263	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	2200664	6007263	243243358	3	25523										
KIF1B	23095	broad.mit.edu	37	chr1	10434995	10434995	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	acattttgttgtcgtccgtcGgccttatgtcttcatctata	7	10	3	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:10434995G>T	uc001aqx.3	+	47	5382	c.5180G>T	c.(5179-5181)CGG>CTG	p.R1727L	KIF1B_uc001aqw.3_Missense_Mutation_p.R1681L|KIF1B_uc001aqy.2_Missense_Mutation_p.R1701L|KIF1B_uc001aqz.2_Missense_Mutation_p.R1727L|KIF1B_uc001ara.2_Missense_Mutation_p.R1687L|KIF1B_uc001arb.2_Missense_Mutation_p.R1713L	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1727	PH.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		GTCGTCCGTCGGCCTTATGTC	0.463													13	172	---	---	---	---	PASS	T	10434995	T	T	10434995	3	4	65	1	0	0	0	0	1	0	0	0	8284	1116	39	1	6705	1	KIF1B	1	10434995	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	4427732	10434995	238815626	4	25524										
CCDC21	64793	broad.mit.edu	37	chr1	26595018	26595018	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aataatttgaaaaagaaatgCcagaaggaatcagagcagaa	9	4	1	5			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:26595018C>T	uc001bls.1	+	8	1517	c.1386C>T	c.(1384-1386)TGC>TGT	p.C462C	CCDC21_uc001blr.2_Silent_p.C462C|CCDC21_uc010ofa.1_Silent_p.C411C|CCDC21_uc001blt.1_5'Flank	NM_022778	NP_073615	Q6P2H3	CEP85_HUMAN	coiled-coil domain containing 21	462	Potential.					centrosome|nucleolus|spindle pole					0		all_cancers(24;7e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.6e-26)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;9.48e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00155)|GBM - Glioblastoma multiforme(114;0.00917)|READ - Rectum adenocarcinoma(331;0.0649)		AAAAGAAATGCCAGAAGGAAT	0.453													4	78	---	---	---	---	PASS	T	26595018	T	T	26595018	2	4	65	1	0	0	0	0	0	0	0	1	2796	747	26	3		3	CCDC21	1	26595018	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	16160023	26595018	222655603	5	25525										
GRIK3	2899	broad.mit.edu	37	chr1	37271748	37271748	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cccttggagtcaatgaggccCccgatctgggtgaggttgca	14	11	2	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:37271748C>A	uc001caz.2	-	14	2406	c.2271G>T	c.(2269-2271)GGG>GGT	p.G757G	GRIK3_uc001cba.1_Silent_p.G757G	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	757	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	CAATGAGGCCCCCGATCTGGG	0.662													8	100	---	---	---	---	PASS	A	37271748	A	A	37271748	2	1	65	1	0	0	0	0	0	0	0	1	6775	610	22	3		3	GRIK3	1	37271748	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	10676730	37271748	211978873	6	25526										
SYDE2	84144	broad.mit.edu	37	chr1	85648044	85648044	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gggaagaacaacagttccatGacaacaaactcgattttttc	7	9	0	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:85648044G>A	uc009wcm.2	-	3	2330	c.2281C>T	c.(2281-2283)CAT>TAT	p.H761Y	SYDE2_uc001dku.3_Missense_Mutation_p.H761Y	NM_032184	NP_115560	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2	761	C2.				activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|central_nervous_system(1)	2				all cancers(265;0.0126)|Epithelial(280;0.0336)		ACAGTTCCATGACAACAAACT	0.373													5	87	---	---	---	---	PASS	A	85648044	A	A	85648044	3	1	65	1	0	0	0	0	1	0	0	0	15433	1290	45	2	1323	2	SYDE2	1	85648044	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	48376296	85648044	163602577	7	25527										
AMY2B	280	broad.mit.edu	37	chr1	104114878	104114878	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	actagatgtaacaatgttggGgtaagtgaattctagtttcc	10	5	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:104114878G>T	uc001duq.2	+	4	931	c.315G>T	c.(313-315)GGG>GGT	p.G105G	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Silent_p.G105G	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	105					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		ACAATGTTGGGGTAAGTGAAT	0.333													23	228	---	---	---	---	PASS	T	104114878	T	T	104114878	2	4	65	1	0	0	0	0	0	0	0	1	595	1246	43	3		3	AMY2B	1	104114878	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	18466834	104114878	145135743	8	25528										
FNDC7	163479	broad.mit.edu	37	chr1	109265069	109265069	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tatactgtgatggctttgagCgactcttcagagctgacctg	11	9	2	4			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:109265069C>T	uc001dvx.2	+	5	711	c.711C>T	c.(709-711)AGC>AGT	p.S237S	FNDC7_uc010ova.1_Silent_p.S4S	NM_001144937	NP_001138409	Q5VTL7	FNDC7_HUMAN	fibronectin type III domain containing 7	238	Fibronectin type-III 3.					extracellular region				ovary(1)|skin(1)	2		all_lung(203;0.00439)|Lung NSC(277;0.00683)|all_epithelial(167;0.00728)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.173)|all cancers(265;0.244)		TGGCTTTGAGCGACTCTTCAG	0.458													14	94	---	---	---	---	PASS	T	109265069	T	T	109265069	2	4	65	1	0	0	0	0	0	0	0	1	5973	767	27	1		1	FNDC7	1	109265069	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	5150191	109265069	139985552	9	25529										
TCHHL1	126637	broad.mit.edu	37	chr1	152057765	152057765	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ggtactggtatagtggactgGaatagactgcacccctctcc	11	11	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:152057765G>A	uc001ezo.1	-	3	2458	c.2393C>T	c.(2392-2394)TCC>TTC	p.S798F		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	798							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			TAGTGGACTGGAATAGACTGC	0.488													55	299	---	---	---	---	PASS	A	152057765	A	A	152057765	3	1	65	1	0	0	0	0	1	0	0	0	15698	1174	41	2	325	2	TCHHL1	1	152057765	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	42792696	152057765	97192856	10	25530										
HRNR	388697	broad.mit.edu	37	chr1	152187673	152187673	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gatccgtgtcgttcacccctAgatgactgtcctgatctaga	9	12	2	4			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:152187673A>G	uc001ezt.1	-	3	6508	c.6432T>C	c.(6430-6432)TCT>TCC	p.S2144S		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2144					keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTTCACCCCTAGATGACTGTC	0.582													9	747	---	---	---	---	PASS	G	152187673	G	G	152187673	2	3	65	1	0	0	0	0	0	0	0	1	7359	407	15	5		5	HRNR	1	152187673	Silent	SNP	A	TCGA-34-2608-01A-02D-1522-08	129908	152187673	97062948	11	25531										
IQGAP3	128239	broad.mit.edu	37	chr1	156497786	156497786	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tccatgtccacacccaggaaCttggcatttacttcaaactt	5	13	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:156497786C>A	uc001fpf.2	-	37	4815	c.4740G>T	c.(4738-4740)AAG>AAT	p.K1580N		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1580					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CACCCAGGAACTTGGCATTTA	0.517													10	102	---	---	---	---	PASS	A	156497786	A	A	156497786	3	1	65	1	0	0	0	0	1	0	0	0	7816	564	20	3	163	3	IQGAP3	1	156497786	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	4310113	156497786	92752835	12	25532										
PEAR1	375033	broad.mit.edu	37	chr1	156875138	156875138	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ttgtataccggaccgtgtacCgtcaggtggtgaagacggac	14	9	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:156875138C>A	uc001fqj.1	+	4	345	c.229C>A	c.(229-231)CGT>AGT	p.R77S	PEAR1_uc009wsl.1_5'Flank|PEAR1_uc001fqk.1_5'Flank	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	77	EMI.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GACCGTGTACCGTCAGGTGGT	0.657													5	38	---	---	---	---	PASS	A	156875138	A	A	156875138	3	1	65	1	0	0	0	0	1	0	0	0	11712	652	23	1	239	1	PEAR1	1	156875138	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	377352	156875138	92375483	13	25533										
F5	2153	broad.mit.edu	37	chr1	169541473	169541473	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tcttaccttctgataatttaCtgtacctaattccttgagga	5	9	2	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:169541473C>G	uc001ggg.1	-	3	504	c.359G>C	c.(358-360)AGT>ACT	p.S120T	F5_uc010plr.1_RNA	NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	120	F5/8 type A 1.|Plastocyanin-like 1.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TGATAATTTACTGTACCTAAT	0.333													8	67	---	---	---	---	PASS	G	169541473	G	G	169541473	3	3	65	1	0	0	0	0	1	0	0	0	5348	565	20	4	6407	4	F5	1	169541473	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	12666335	169541473	79709148	14	25534										
TOR1AIP1	26092	broad.mit.edu	37	chr1	179858470	179858470	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	agtgaagatcttgtaatcagGttacgtcgaccccctctaag	9	10	3	2	rs146164995	byFrequency	TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:179858470G>C	uc001gnq.2	+	3	794	c.576G>C	c.(574-576)AGG>AGC	p.R192S	TOR1AIP1_uc001gnp.1_Missense_Mutation_p.R193S	NM_015602	NP_056417	Q5JTV8	TOIP1_HUMAN	lamina-associated polypeptide 1B	192	Nuclear (Potential).					integral to membrane|nuclear inner membrane				breast(1)|central_nervous_system(1)	2						TTGTAATCAGGTTACGTCGAC	0.308													6	253	---	---	---	---	PASS	C	179858470	C	C	179858470	3	2	65	1	0	0	0	0	1	0	0	0	16369	1252	44	4	586	4	TOR1AIP1	1	179858470	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	10316997	179858470	69392151	15	25535										
ATP2B4	493	broad.mit.edu	37	chr1	203691776	203691776	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tttcaggcatctaccgcaacAttatcttctgctctgtagtc	6	12	5	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:203691776A>G	uc001gzw.2	+	18	3867	c.2983A>G	c.(2983-2985)ATT>GTT	p.I995V	ATP2B4_uc001gzv.2_Missense_Mutation_p.I995V|ATP2B4_uc009xaq.2_Missense_Mutation_p.I995V|ATP2B4_uc001gzx.2_Missense_Mutation_p.I26V|ATP2B4_uc009xar.2_Missense_Mutation_p.I26V	NM_001684	NP_001675	P23634	AT2B4_HUMAN	plasma membrane calcium ATPase 4 isoform 4b	995	Helical; (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|skin(1)	3	all_cancers(21;0.071)|all_epithelial(62;0.228)		BRCA - Breast invasive adenocarcinoma(75;0.109)			CTACCGCAACATTATCTTCTG	0.463													19	123	---	---	---	---	PASS	G	203691776	G	G	203691776	3	3	65	1	0	0	0	0	1	0	0	0	1142	217	8	5	3049	5	ATP2B4	1	203691776	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08	23833306	203691776	45558845	16	25536										
PCNXL2	80003	broad.mit.edu	37	chr1	233137365	233137365	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cagcaaatacccactcgtcaCgtgctgttattctgaagtca	7	12	3	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:233137365C>A	uc001hvl.2	-	29	5250	c.5015G>T	c.(5014-5016)CGT>CTT	p.R1672L	PCNXL2_uc001hvk.1_Missense_Mutation_p.R324L|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1672						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				CCACTCGTCACGTGCTGTTAT	0.418													3	17	---	---	---	---	PASS	A	233137365	A	A	233137365	3	1	65	1	0	0	0	0	1	0	0	0	11592	536	19	1	1422	1	PCNXL2	1	233137365	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	29445589	233137365	16113256	17	25537										
RYR2	6262	broad.mit.edu	37	chr1	237666632	237666632	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gacatggagaattcaaatttCttcctccacctgggtatgct	8	10	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:237666632C>T	uc001hyl.1	+	22	2560	c.2440C>T	c.(2440-2442)CTT>TTT	p.L814F		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	814	Cytoplasmic (By similarity).				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)			ATTCAAATTTCTTCCTCCACC	0.413													5	49	---	---	---	---	PASS	T	237666632	T	T	237666632	3	4	65	1	0	0	0	0	1	0	0	0	13769	913	32	2	2526	2	RYR2	1	237666632	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	4529267	237666632	11583989	18	25538										
OR2M4	26245	broad.mit.edu	37	chr1	248402321	248402321	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	acaccttccttttttctctgGtcctgggcatcttctcactg	6	14	3	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr1:248402321G>T	uc010pzh.1	+	1	91	c.91G>T	c.(91-93)GTC>TTC	p.V31F		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	31	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TTTTTCTCTGGTCCTGGGCAT	0.473													32	240	---	---	---	---	PASS	T	248402321	T	T	248402321	3	4	65	1	0	0	0	0	1	0	0	0	11012	1261	44	3	93	3	OR2M4	1	248402321	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	10735689	248402321	848300	19	25539										
NBAS	51594	broad.mit.edu	37	chr2	15470749	15470749	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ggtcgaaggtaagttaaagaCttcttccaccactgcccatc	8	12	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:15470749C>A	uc002rcc.1	-	36	4346	c.4320G>T	c.(4318-4320)AAG>AAT	p.K1440N	NBAS_uc010exl.1_Missense_Mutation_p.K512N|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1440										ovary(2)|liver(1)|skin(1)	4						AAGTTAAAGACTTCTTCCACC	0.453													10	94	---	---	---	---	PASS	A	15470749	A	A	15470749	3	1	65	1	0	0	0	0	1	0	0	0	10186	564	20	3	2863	3	NBAS	2	15470749	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		15470749	227728624	20	25540										
XDH	7498	broad.mit.edu	37	chr2	31624177	31624177	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	agcagatgggggccaggcagGcattggcagaaaagtggcta	17	7	0	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:31624177G>T	uc002rnv.1	-	4	294	c.215C>A	c.(214-216)GCC>GAC	p.A72D		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	72	2Fe-2S ferredoxin-type.				purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	GGCCAGGCAGGCATTGGCAGA	0.507													14	77	---	---	---	---	PASS	T	31624177	T	T	31624177	3	4	65	1	0	0	0	0	1	0	0	0	17423	1203	42	3	3918	3	XDH	2	31624177	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	16153428	31624177	211575196	21	25541										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48808989	48808989	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gttgccagctgtttcaaaacCaaaaaagaactacgaggagc	9	9	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:48808989C>A	uc010yol.1	+	1	1264	c.1217C>A	c.(1216-1218)CCA>CAA	p.P406Q	STON1_uc002rwo.3_Missense_Mutation_p.P406Q|STON1_uc010fbm.2_Missense_Mutation_p.P406Q|STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.P406Q|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Missense_Mutation_p.P406Q	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	406					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GTTTCAAAACCAAAAAAGAAC	0.423													25	160	---	---	---	---	PASS	A	48808989	A	A	48808989	3	1	65	1	0	0	0	0	1	0	0	0	15316	594	21	3	1219	3	STON1-GTF2A1L	2	48808989	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	17184812	48808989	194390384	22	25542										
FSHR	2492	broad.mit.edu	37	chr2	49381457	49381457	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aatctctgtcaccttgctctCttggcagagaaaaaccctgt	7	12	3	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:49381457C>T	uc002rww.2	-	1	174	c.100G>A	c.(100-102)GAG>AAG	p.E34K	FSHR_uc002rwx.2_Missense_Mutation_p.E34K|FSHR_uc010fbn.2_Missense_Mutation_p.E34K|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	34	LRRNT.|Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	ACCTTGCTCTCTTGGCAGAGA	0.522									Gonadal_Dysgenesis_46_XX				6	90	---	---	---	---	PASS	T	49381457	T	T	49381457	3	4	65	1	0	0	0	0	1	0	0	0	6073	922	32	2	2027	2	FSHR	2	49381457	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	572468	49381457	193817916	23	25543										
TMEM131	23505	broad.mit.edu	37	chr2	98409416	98409416	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tgctccacagaaccccctacTgtgaccggggtcacagctga	10	15	1	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:98409416T>A	uc002syh.3	-	31	3806	c.3577A>T	c.(3577-3579)AGT>TGT	p.S1193C		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1193						integral to membrane				ovary(4)|central_nervous_system(2)	6						AACCCCCTACTGTGACCGGGG	0.498													5	24	---	---	---	---	PASS	A	98409416	A	A	98409416	3	1	65	1	0	0	0	0	1	0	0	0	16041	1580	55	5	2118	5	TMEM131	2	98409416	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	49027959	98409416	144789957	24	25544										
IL1R2	7850	broad.mit.edu	37	chr2	102626181	102626181	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tggcataaaaatgactctgcTaggacggtcccaggagaaga	12	8	1	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:102626181T>C	uc002tbm.2	+	3	454	c.225T>C	c.(223-225)GCT>GCC	p.A75A	IL1R2_uc002tbn.2_Silent_p.A75A|IL1R2_uc002tbo.1_Silent_p.A75A	NM_004633	NP_004624	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II precursor	75	Extracellular (Potential).|Ig-like C2-type 1.				immune response	integral to membrane|plasma membrane	interleukin-1, Type II, blocking receptor activity			ovary(1)|breast(1)	2					Anakinra(DB00026)	ATGACTCTGCTAGGACGGTCC	0.607													55	387	---	---	---	---	PASS	C	102626181	C	C	102626181	2	2	65	1	0	0	0	0	0	0	0	1	7659	1509	53	5		5	IL1R2	2	102626181	Silent	SNP	T	TCGA-34-2608-01A-02D-1522-08	4216765	102626181	140573192	25	25545										
GPR45	11250	broad.mit.edu	37	chr2	105859092	105859092	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	caacaggtcagcgtggacttGagcttcaagaccaaggcctt	11	11	2	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:105859092G>A	uc002tco.1	+	1	893	c.777G>A	c.(775-777)TTG>TTA	p.L259L		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	259	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						GCGTGGACTTGAGCTTCAAGA	0.642													42	258	---	---	---	---	PASS	A	105859092	A	A	105859092	2	1	65	1	0	0	0	0	0	0	0	1	6696	1281	45	2		2	GPR45	2	105859092	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	3232911	105859092	137340281	26	25546										
SCN7A	6332	broad.mit.edu	37	chr2	167322348	167322348	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ggtttcattttcattctcttGgggccatcgaaaacatttat	7	8	3	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:167322348G>A	uc002udu.1	-	7	941	c.814C>T	c.(814-816)CAA>TAA	p.Q272*	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	272					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TCATTCTCTTGGGGCCATCGA	0.378													23	213	---	---	---	---	PASS	A	167322348	A	A	167322348	4	1	65	1	0	0	0	0	0	1	0	0	13923	1357	47	3	4310	3	SCN7A	2	167322348	Nonsense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	61463256	167322348	75877025	27	25547										
LRP2	4036	broad.mit.edu	37	chr2	170058365	170058365	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cacaggtgaaggctgtcggtGagcaggtgtgaagtgctaag	17	6	0	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:170058365G>T	uc002ues.2	-	44	8438	c.8225C>A	c.(8224-8226)TCA>TAA	p.S2742*		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2742	Extracellular (Potential).|LDL-receptor class A 17.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GGCTGTCGGTGAGCAGGTGTG	0.413													13	112	---	---	---	---	PASS	T	170058365	T	T	170058365	4	4	65	1	0	0	0	0	0	1	0	0	8956	1294	45	2	5886	2	LRP2	2	170058365	Nonsense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	2736017	170058365	73141008	28	25548										
NFE2L2	4780	broad.mit.edu	37	chr2	178098966	178098966	+	Missense_Mutation	SNP	C	G	G													0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	acttactccaagatctatatCttgcctccaaagtatgtcaa							TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:178098966C>G	uc002ulh.3	-	2	634	c.79G>C	c.(79-81)GAT>CAT	p.D27H	NFE2L2_uc002ulg.3_Missense_Mutation_p.D11H|NFE2L2_uc010zfa.1_Missense_Mutation_p.D11H|NFE2L2_uc002uli.3_Missense_Mutation_p.D11H|NFE2L2_uc010fra.2_Missense_Mutation_p.D11H|NFE2L2_uc010frb.2_Missense_Mutation_p.D11H	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	27					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			AGATCTATATCTTGCCTCCAA	0.353			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			10	101	---	---	---	---	PASS	G	178098966	G	G	178098966	3	3	65	1	0	0	0	0	1	0	0	0	10368	913	32	2	1754	2	NFE2L2	2	178098966	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	8040601	178098966	65100407	29	25549	542	2								
NFE2L2	4780	broad.mit.edu	37	chr2	178098973	178098973	+	Missense_Mutation	SNP	C	G	G													0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccaagatctatatcttgcctCcaaagtatgtcaatcaaatc							TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:178098973C>G	uc002ulh.3	-	2	627	c.72G>C	c.(70-72)TGG>TGC	p.W24C	NFE2L2_uc002ulg.3_Missense_Mutation_p.W8C|NFE2L2_uc010zfa.1_Missense_Mutation_p.W8C|NFE2L2_uc002uli.3_Missense_Mutation_p.W8C|NFE2L2_uc010fra.2_Missense_Mutation_p.W8C|NFE2L2_uc010frb.2_Missense_Mutation_p.W8C	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	24					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			TATCTTGCCTCCAAAGTATGT	0.348			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			10	101	---	---	---	---	PASS	G	178098973	G	G	178098973	3	3	65	1	0	0	0	0	1	0	0	0	10368	856	30	2	1761	2	NFE2L2	2	178098973	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	7	178098973	65100400	30	25550	542	2								
TTN	7273	broad.mit.edu	37	chr2	179424877	179424877	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tagttgtcttgcctgagtccAcaattttgggtttggatgga	12	6	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:179424877A>G	uc010zfg.1	-	275	78502	c.78278T>C	c.(78277-78279)GTG>GCG	p.V26093A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V19788A|TTN_uc010zfi.1_Missense_Mutation_p.V19721A|TTN_uc010zfj.1_Missense_Mutation_p.V19596A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27020							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)			GCCTGAGTCCACAATTTTGGG	0.448													21	178	---	---	---	---	PASS	G	179424877	G	G	179424877	3	3	65	1	0	0	0	0	1	0	0	0	16732	159	6	5	22145	5	TTN	2	179424877	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08	1325904	179424877	63774496	31	25551										
TTN	7273	broad.mit.edu	37	chr2	179606351	179606351	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ggctatgatcatcaccgtcaAaaacaaatttgtagtcagca	7	9	4	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:179606351A>G	uc010zfh.1	-	46	11320	c.11096T>C	c.(11095-11097)TTT>TCT	p.F3699S	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.F3632S|TTN_uc010zfj.1_Missense_Mutation_p.F3507S|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			ATCACCGTCAAAAACAAATTT	0.403													29	178	---	---	---	---	PASS	G	179606351	G	G	179606351	3	3	65	1	0	0	0	0	1	0	0	0	16732	14	1	5	93180	5	TTN	2	179606351	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08	181474	179606351	63593022	32	25552										
TTN	7273	broad.mit.edu	37	chr2	179621470	179621470	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aggaatctgccactgcctggGacttggcggactctcttaca	11	12	2	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:179621470G>A	uc010zfh.1	-	44	10444	c.10220C>T	c.(10219-10221)TCC>TTC	p.S3407F	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CACTGCCTGGGACTTGGCGGA	0.383													16	118	---	---	---	---	PASS	A	179621470	A	A	179621470	3	1	65	1	0	0	0	0	1	0	0	0	16732	1174	41	2	100523	2	TTN	2	179621470	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	15119	179621470	63577903	33	25553										
DNAH7	56171	broad.mit.edu	37	chr2	196688978	196688978	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	acattcattttatatactggCctttactgatgtttcaggaa	6	7	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:196688978C>T	uc002utj.3	-	49	9392	c.9291_splice	c.e49+1	p.K3097_splice		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TATATACTGGCCTTTACTGAT	0.358													19	145	---	---	---	---	PASS	T	196688978	T	T	196688978	5	4	65	1	0	0	0	0	0	0	1	0	4606	753	26	3	2850	3	DNAH7	2	196688978	Splice_Site	SNP	C	TCGA-34-2608-01A-02D-1522-08	17067508	196688978	46510395	34	25554										
MYL1	4632	broad.mit.edu	37	chr2	211163151	211163151	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	attgatgggttaccttcattGctggggtttcccagaacttt	10	8	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:211163151G>T	uc002vec.2	-	3	426	c.297C>A	c.(295-297)AGC>AGA	p.S99R	MYL1_uc002veb.2_Missense_Mutation_p.S55R	NM_079420	NP_524144	P05976	MYL1_HUMAN	fast skeletal myosin alkali light chain 1	99					muscle filament sliding|muscle organ development	cytosol|muscle myosin complex|sarcomere	calcium ion binding|structural constituent of muscle			ovary(1)	1				Epithelial(149;0.00573)|Lung(261;0.0422)|LUSC - Lung squamous cell carcinoma(261;0.0444)|all cancers(144;0.057)		TACCTTCATTGCTGGGGTTTC	0.383													21	194	---	---	---	---	PASS	T	211163151	T	T	211163151	3	4	65	1	0	0	0	0	1	0	0	0	10043	1310	46	3	303	3	MYL1	2	211163151	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	14474173	211163151	32036222	35	25555										
TRIP12	9320	broad.mit.edu	37	chr2	230678590	230678590	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tagatgcatattttacctgaTgtgttagcctttgggttagc	10	6	0	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr2:230678590T>C	uc002vpw.1	-	12	1947	c.1838A>G	c.(1837-1839)CAT>CGT	p.H613R	TRIP12_uc002vpx.1_Missense_Mutation_p.H661R|TRIP12_uc002vpy.1_Missense_Mutation_p.H316R|TRIP12_uc010zlz.1_Intron|TRIP12_uc010fxh.1_Missense_Mutation_p.H619R	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	613					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)		TTTTACCTGATGTGTTAGCCT	0.279													12	86	---	---	---	---	PASS	C	230678590	C	C	230678590	3	2	65	1	0	0	0	0	1	0	0	0	16553	1464	51	5	4260	5	TRIP12	2	230678590	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	19515439	230678590	12520783	36	25556										
TTLL3	26140	broad.mit.edu	37	chr3	9859359	9859359	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gtctcaatctccggaatttgCcgtggtttgatgaggttgat	12	7	2	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr3:9859359C>T	uc003btg.2	+	5	562	c.346C>T	c.(346-348)CCG>TCG	p.P116S	ARPC4_uc003btc.1_Intron|TTLL3_uc003btd.3_Missense_Mutation_p.P116S|TTLL3_uc003btf.3_5'UTR|TTLL3_uc010hco.1_Missense_Mutation_p.P52S|TTLL3_uc003bth.3_5'UTR|TTLL3_uc011atj.1_Missense_Mutation_p.P52S|TTLL3_uc003btj.3_5'UTR|TTLL3_uc003bti.3_5'UTR	NM_001025930	NP_001021100	Q9Y4R7	TTLL3_HUMAN	tubulin tyrosine ligase-like family, member 3	116					axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)					CCGGAATTTGCCGTGGTTTGA	0.547													5	321	---	---	---	---	PASS	T	9859359	T	T	9859359	3	4	65	1	0	0	0	0	1	0	0	0	16725	739	26	3	360	3	TTLL3	3	9859359	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		9859359	188163071	37	25557										
KCNH8	131096	broad.mit.edu	37	chr3	19295336	19295336	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	atagaaaagtcactggaggaGaaaacagaattcaaaggaga	11	4	2	4			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr3:19295336G>A	uc003cbk.1	+	2	462	c.267G>A	c.(265-267)GAG>GAA	p.E89E	KCNH8_uc011awe.1_Silent_p.E89E|KCNH8_uc010hex.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	89	Cytoplasmic (Potential).|PAS.					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						CACTGGAGGAGAAAACAGAAT	0.418													24	224	---	---	---	---	PASS	A	19295336	A	A	19295336	2	1	65	1	0	0	0	0	0	0	0	1	8038	933	33	2		2	KCNH8	3	19295336	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	9435977	19295336	178727094	38	25558										
SACM1L	22908	broad.mit.edu	37	chr3	45781107	45781107	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tatcatggttgttgccttttCaatgtgcattatctgtttgc	8	7	3	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr3:45781107C>T	uc003cos.2	+	19	1802	c.1598C>T	c.(1597-1599)TCA>TTA	p.S533L	SACM1L_uc011bag.1_Missense_Mutation_p.S430L|SACM1L_uc011bah.1_Missense_Mutation_p.S467L|SACM1L_uc003cot.2_Missense_Mutation_p.S176L	NM_014016	NP_054735	Q9NTJ5	SAC1_HUMAN	suppressor of actin 1	533	Helical; (Potential).					Golgi apparatus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0102)|KIRC - Kidney renal clear cell carcinoma(197;0.0234)|Kidney(197;0.0277)		GTTGCCTTTTCAATGTGCATT	0.353													44	318	---	---	---	---	PASS	T	45781107	T	T	45781107	3	4	65	1	0	0	0	0	1	0	0	0	13803	838	29	2	1672	2	SACM1L	3	45781107	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	26485771	45781107	152241323	39	25559										
HYAL3	8372	broad.mit.edu	37	chr3	50332932	50332932	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tgtgctgagggtacattccaCagcacagagaaggggcgttc	14	9	0	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr3:50332932C>T	uc003czd.1	-	2	375	c.102G>A	c.(100-102)CTG>CTA	p.L34L	HYAL3_uc003czc.1_Silent_p.L34L|HYAL3_uc003cze.1_Intron|HYAL3_uc003czf.1_Intron|HYAL3_uc003czg.1_Silent_p.L34L	NM_003549	NP_003540	O43820	HYAL3_HUMAN	hyaluronoglucosaminidase 3 precursor	34					carbohydrate metabolic process	extracellular region|lysosome	hyalurononglucosaminidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GTACATTCCACAGCACAGAGA	0.627													20	90	---	---	---	---	PASS	T	50332932	T	T	50332932	2	4	65	1	0	0	0	0	0	0	0	1	7465	465	17	3		3	HYAL3	3	50332932	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	4551825	50332932	147689498	40	25560										
MYH15	22989	broad.mit.edu	37	chr3	108147461	108147461	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ttctacctggccctcgagctCagccaggctgtctgcatgtc	10	15	3	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr3:108147461C>G	uc003dxa.1	-	28	3697	c.3640G>C	c.(3640-3642)GAG>CAG	p.E1214Q		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1214	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CCCTCGAGCTCAGCCAGGCTG	0.493													32	226	---	---	---	---	PASS	G	108147461	G	G	108147461	3	3	65	1	0	0	0	0	1	0	0	0	10034	835	29	2	2260	2	MYH15	3	108147461	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	57814529	108147461	89874969	41	25561										
KIAA1524	57650	broad.mit.edu	37	chr3	108276190	108276190	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ctttctgattcaacttgctgCgccttcagcaacacactaag	6	13	3	1	rs62638702	byFrequency	TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr3:108276190C>A	uc003dxb.3	-	17	2354	c.2085G>T	c.(2083-2085)GCG>GCT	p.A695A		NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	695	Potential.					cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						CAACTTGCTGCGCCTTCAGCA	0.388													3	162	---	---	---	---	PASS	A	108276190	A	A	108276190	2	1	65	1	0	0	0	0	0	0	0	1	8239	755	27	1		1	KIAA1524	3	108276190	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	128729	108276190	89746240	42	25562										
DPPA4	55211	broad.mit.edu	37	chr3	109052761	109052761	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tttctttggttctctttgctGatgttcctggcaaagcaatt	8	8	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr3:109052761G>T	uc003dxq.3	-	2	189	c.134C>A	c.(133-135)TCA>TAA	p.S45*	DPPA4_uc011bho.1_Nonsense_Mutation_p.S45*|DPPA4_uc011bhp.1_Nonsense_Mutation_p.S45*	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	45						nucleus	protein binding			upper_aerodigestive_tract(1)	1						TCTCTTTGCTGATGTTCCTGG	0.458													36	231	---	---	---	---	PASS	T	109052761	T	T	109052761	4	4	65	1	0	0	0	0	0	1	0	0	4736	1294	45	2	804	2	DPPA4	3	109052761	Nonsense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	776571	109052761	88969669	43	25563										
KLF15	28999	broad.mit.edu	37	chr3	126062578	126062578	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ttcagggcgctttcagttcaCggagcgcacggagcggctgc	15	12	3	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr3:126062578C>T	uc011bkk.1	-	3	1425	c.1243G>A	c.(1243-1245)GTG>ATG	p.V415M		NM_014079	NP_054798	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	415						nucleus	DNA binding|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(114;0.147)		TTTCAGTTCACGGAGCGCACG	0.597													9	106	---	---	---	---	PASS	T	126062578	T	T	126062578	3	4	65	1	0	0	0	0	1	0	0	0	8343	536	19	1	11	1	KLF15	3	126062578	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	17009817	126062578	71959852	44	25564										
RAB6B	51560	broad.mit.edu	37	chr3	133560150	133560150	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tgtgatgtcgtacaccaccaCagccaccgtggagtcccgga	11	14	0	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr3:133560150C>T	uc003epy.2	-	4	649	c.268G>A	c.(268-270)GTG>ATG	p.V90M	RAB6B_uc011blu.1_Missense_Mutation_p.V77M	NM_016577	NP_057661	Q9NRW1	RAB6B_HUMAN	RAB6B, member RAS oncogene family	90					protein transport|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|Golgi membrane	GTP binding|GTPase activity|protein binding			pancreas(1)	1						TACACCACCACAGCCACCGTG	0.637													43	122	---	---	---	---	PASS	T	133560150	T	T	133560150	3	4	65	1	0	0	0	0	1	0	0	0	12952	478	17	3	378	3	RAB6B	3	133560150	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	7497572	133560150	64462280	45	25565										
STAG1	10274	broad.mit.edu	37	chr3	136221539	136221539	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccaatcattttatttctctcGgcttcatattgtctctgggt	6	10	4	0	rs113504457	byFrequency	TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr3:136221539G>A	uc003era.1	-	8	1051	c.759C>T	c.(757-759)GCC>GCT	p.A253A	STAG1_uc003erb.1_Silent_p.A253A|STAG1_uc003erc.1_Silent_p.A27A|STAG1_uc010hua.1_Silent_p.A116A|STAG1_uc003erd.2_Silent_p.A156A	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	253					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						TATTTCTCTCGGCTTCATATT	0.383													17	264	---	---	---	---	PASS	A	136221539	A	A	136221539	2	1	65	1	0	0	0	0	0	0	0	1	15241	1103	39	1		1	STAG1	3	136221539	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	2661389	136221539	61800891	46	25566										
WDR1	9948	broad.mit.edu	37	chr4	10080565	10080565	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ggggtgcactgccacaacttCgggctcgtagccggggttgt	16	11	0	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr4:10080565C>A	uc003gmf.2	-	12	1628	c.1345G>T	c.(1345-1347)GAA>TAA	p.E449*	WDR1_uc003gmg.2_Nonsense_Mutation_p.E309*|WDR1_uc010idm.2_RNA|hsa-mir-3138|MI0014161_5'Flank	NM_017491	NP_059830	O75083	WDR1_HUMAN	WD repeat-containing protein 1 isoform 1	449	WD 8.				platelet activation|platelet degranulation|sensory perception of sound	cytoskeleton|cytosol|extracellular region	actin binding			ovary(2)|pancreas(1)	3				STAD - Stomach adenocarcinoma(129;0.000703)|Colorectal(103;0.0057)|LUSC - Lung squamous cell carcinoma(721;0.0232)		GCCACAACTTCGGGCTCGTAG	0.612													7	79	---	---	---	---	PASS	A	10080565	A	A	10080565	4	1	65	1	0	0	0	0	0	1	0	0	17269	893	31	2	491	2	WDR1	4	10080565	Nonsense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		10080565	181073711	47	25567										
GPR125	166647	broad.mit.edu	37	chr4	22414850	22414850	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gagtagcactgaatcgtagtGatattttcatctgaatagag	10	5	2	4			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr4:22414850G>A	uc003gqm.1	-	14	2452	c.2187C>T	c.(2185-2187)ATC>ATT	p.I729I	GPR125_uc010ieo.1_Silent_p.I585I	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	729	Extracellular (Potential).|GPS.				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				GAATCGTAGTGATATTTTCAT	0.413													27	391	---	---	---	---	PASS	A	22414850	A	A	22414850	2	1	65	1	0	0	0	0	0	0	0	1	6639	1280	45	2		2	GPR125	4	22414850	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	12334285	22414850	168739426	48	25568										
EPHA5	2044	broad.mit.edu	37	chr4	66270100	66270100	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ttcctctcttaccttccactGaggaggacgccgataaccac	7	15	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr4:66270100G>A	uc003hcy.2	-	8	1975	c.1782C>T	c.(1780-1782)CTC>CTT	p.L594L	EPHA5_uc003hcx.2_Silent_p.L526L|EPHA5_uc003hcz.2_Silent_p.L594L|EPHA5_uc011cah.1_Silent_p.L595L|EPHA5_uc011cai.1_Silent_p.L595L|EPHA5_uc003hda.2_Silent_p.L595L	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	594	Helical; (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						ACCTTCCACTGAGGAGGACGC	0.488										TSP Lung(17;0.13)			18	97	---	---	---	---	PASS	A	66270100	A	A	66270100	2	1	65	1	0	0	0	0	0	0	0	1	5170	1277	45	2		2	EPHA5	4	66270100	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	43855250	66270100	124884176	49	25569										
UGT2B7	7364	broad.mit.edu	37	chr4	69974002	69974002	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aacacaatgtcgagtacagaCttgctgaatgcattgaagag	10	7	0	4			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr4:69974002C>A	uc003heg.3	+	5	1318	c.1272C>A	c.(1270-1272)GAC>GAA	p.D424E	UGT2B7_uc010ihq.2_Intron	NM_001074	NP_001065	P16662	UD2B7_HUMAN	UDP glucuronosyltransferase 2B7 precursor	424					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|skin(1)	2						CGAGTACAGACTTGCTGAATG	0.413													9	290	---	---	---	---	PASS	A	69974002	A	A	69974002	3	1	65	1	0	0	0	0	1	0	0	0	16959	564	20	3	1290	3	UGT2B7	4	69974002	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	3703902	69974002	121180274	50	25570										
HERC5	51191	broad.mit.edu	37	chr4	89425483	89425483	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tttataaaatgtgcgacgaaGacattatcaaattattccac	5	7	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr4:89425483G>C	uc003hrt.2	+	21	2836	c.2683G>C	c.(2683-2685)GAC>CAC	p.D895H	HERC5_uc011cdm.1_Missense_Mutation_p.D533H	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	895	HECT.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		GTGCGACGAAGACATTATCAA	0.338													11	182	---	---	---	---	PASS	C	89425483	C	C	89425483	3	2	65	1	0	0	0	0	1	0	0	0	7061	942	33	2	2765	2	HERC5	4	89425483	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	19451481	89425483	101728793	51	25571										
ARHGEF38	54848	broad.mit.edu	37	chr4	106510544	106510544	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gaaaaggattatctcaatgaTctagagctgtgtgttaggga	12	4	2	2	rs146153509		TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr4:106510544T>C	uc003hxu.2	+	2	482	c.336T>C	c.(334-336)GAT>GAC	p.D112D		NM_017700	NP_060170	Q9NXL2	ARH38_HUMAN	hypothetical protein LOC54848	112	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|breast(1)	3						ATCTCAATGATCTAGAGCTGT	0.378													27	183	---	---	---	---	PASS	C	106510544	C	C	106510544	2	2	65	1	0	0	0	0	0	0	0	1	907	1432	50	5		5	ARHGEF38	4	106510544	Silent	SNP	T	TCGA-34-2608-01A-02D-1522-08	17085061	106510544	84643732	52	25572										
SLC25A31	83447	broad.mit.edu	37	chr4	128685437	128685437	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	caaacctggcttctggtggaGctgctggggcaacatcctta	12	11	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr4:128685437G>T	uc003ifl.2	+	3	546	c.400G>T	c.(400-402)GCT>TCT	p.A134S		NM_031291	NP_112581	Q9H0C2	ADT4_HUMAN	solute carrier family 25 (mitochondrial carrier;	134	Helical; Name=3; (Potential).|Solcar 2.				transmembrane transport	cilium|flagellum|integral to membrane|mitochondrial inner membrane	binding|transporter activity				0						TTCTGGTGGAGCTGCTGGGGC	0.378													4	160	---	---	---	---	PASS	T	128685437	T	T	128685437	3	4	65	1	0	0	0	0	1	0	0	0	14495	971	34	3	410	3	SLC25A31	4	128685437	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	22174893	128685437	62468839	53	25573										
PCDH10	57575	broad.mit.edu	37	chr4	134084389	134084389	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ctctggagaggaaggagctgGatggactgctgactaatacg	15	7	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr4:134084389G>A	uc003iha.2	+	4	3881	c.3055G>A	c.(3055-3057)GAT>AAT	p.D1019N		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	1019	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GAAGGAGCTGGATGGACTGCT	0.498													42	331	---	---	---	---	PASS	A	134084389	A	A	134084389	3	1	65	1	0	0	0	0	1	0	0	0	11507	1174	41	2	3129	2	PCDH10	4	134084389	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	5398952	134084389	57069887	54	25574										
INPP4B	8821	broad.mit.edu	37	chr4	143350346	143350346	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	caaggatgaattccaactgcGgttcatttggagtcttctgg	11	8	3	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr4:143350346G>T	uc003iix.3	-	6	711	c.116C>A	c.(115-117)CCG>CAG	p.P39Q	INPP4B_uc003iiw.3_Missense_Mutation_p.P39Q|INPP4B_uc011chm.1_RNA|INPP4B_uc011cho.1_RNA|INPP4B_uc003iiz.2_RNA	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	39	C2.				signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					TTCCAACTGCGGTTCATTTGG	0.274													5	35	---	---	---	---	PASS	T	143350346	T	T	143350346	3	4	65	1	0	0	0	0	1	0	0	0	7753	1116	39	1	2746	1	INPP4B	4	143350346	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	9265957	143350346	47803930	55	25575										
DDX60L	91351	broad.mit.edu	37	chr4	169300557	169300557	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ttatggaaaaggcctctcttGagaaaatttacaaaaacaag	7	6	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr4:169300557G>A	uc003irq.3	-	32	4541	c.4320C>T	c.(4318-4320)CTC>CTT	p.L1440L		NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	1440							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		GGCCTCTCTTGAGAAAATTTA	0.353													6	121	---	---	---	---	PASS	A	169300557	A	A	169300557	2	1	65	1	0	0	0	0	0	0	0	1	4379	1277	45	2		2	DDX60L	4	169300557	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	25950211	169300557	21853719	56	25576										
ZFP42	132625	broad.mit.edu	37	chr4	188924186	188924186	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tcagactgttacatagaatgCgtcataaggggtgagttttc	11	6	2	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr4:188924186C>A	uc003izg.1	+	3	470	c.225C>A	c.(223-225)TGC>TGA	p.C75*	ZFP42_uc003izh.1_Nonsense_Mutation_p.C75*|ZFP42_uc003izi.1_Nonsense_Mutation_p.C75*	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	75					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		ACATAGAATGCGTCATAAGGG	0.483													10	112	---	---	---	---	PASS	A	188924186	A	A	188924186	4	1	65	1	0	0	0	0	0	1	0	0	17647	776	27	1	227	1	ZFP42	4	188924186	Nonsense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	19623629	188924186	2230090	57	25577										
ROPN1L	83853	broad.mit.edu	37	chr5	10465045	10465045	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aaagcattgaaaactctgaaGatgtaggccattaatacaga	8	6	1	4			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr5:10465045G>T	uc003jex.3	+	5	950	c.679G>T	c.(679-681)GAT>TAT	p.D227Y		NM_031916	NP_114122	Q96C74	ROP1L_HUMAN	ropporin 1-like	227					ciliary or flagellar motility|signal transduction	cytoplasm|motile cilium	cAMP-dependent protein kinase regulator activity|protein binding			ovary(1)	1						AAACTCTGAAGATGTAGGCCA	0.363													28	176	---	---	---	---	PASS	T	10465045	T	T	10465045	3	4	65	1	0	0	0	0	1	0	0	0	13525	942	33	2	697	2	ROPN1L	5	10465045	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08		10465045	170450215	58	25578										
HTR1A	3350	broad.mit.edu	37	chr5	63257020	63257020	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccgagcggtcttccggggtgCgccagcccagcatgggcggg	18	14	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr5:63257020C>A	uc011cqt.1	-	1	527	c.527G>T	c.(526-528)CGC>CTC	p.R176L		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	176	Helical; Name=4; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TTCCGGGGTGCGCCAGCCCAG	0.597													42	195	---	---	---	---	PASS	A	63257020	A	A	63257020	3	1	65	1	0	0	0	0	1	0	0	0	7436	768	27	1	744	1	HTR1A	5	63257020	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	52791975	63257020	117658240	59	25579										
CAST	831	broad.mit.edu	37	chr5	96083050	96083050	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	attttaatttcatttacaggAtaaagatggaaaaccactat	5	5	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr5:96083050A>G	uc003klz.1	+	16	1199	c.1037A>G	c.(1036-1038)GAT>GGT	p.D346G	CAST_uc003klt.2_Missense_Mutation_p.D333G|CAST_uc003klu.2_Missense_Mutation_p.D429G|CAST_uc003klv.2_Missense_Mutation_p.D407G|CAST_uc003klw.2_Missense_Mutation_p.D410G|CAST_uc003klx.2_Missense_Mutation_p.D388G|CAST_uc003kly.2_Missense_Mutation_p.D394G|CAST_uc011cuo.1_Missense_Mutation_p.D392G|CAST_uc011cuq.1_Missense_Mutation_p.D194G|CAST_uc011cur.1_Missense_Mutation_p.D332G|CAST_uc011cus.1_Missense_Mutation_p.D333G|CAST_uc003kma.1_Missense_Mutation_p.D305G|CAST_uc011cut.1_Missense_Mutation_p.D274G|CAST_uc003kmb.2_Missense_Mutation_p.D292G|CAST_uc003kmc.2_Missense_Mutation_p.D346G|CAST_uc003kmd.2_Missense_Mutation_p.D324G|CAST_uc003kme.2_Missense_Mutation_p.D305G|CAST_uc003kmf.2_Missense_Mutation_p.D311G|CAST_uc003kmh.2_Missense_Mutation_p.D61G|CAST_uc010jbj.2_Missense_Mutation_p.D61G|CAST_uc010jbk.2_Missense_Mutation_p.D61G|CAST_uc010jbl.1_Missense_Mutation_p.D69G|CAST_uc003kmi.2_RNA|CAST_uc003kmj.2_Missense_Mutation_p.D69G	NM_001042443	NP_001035908	P20810	ICAL_HUMAN	calpastatin isoform i	346	Inhibitory domain 2.						calcium-dependent cysteine-type endopeptidase inhibitor activity|protein binding			central_nervous_system(3)|ovary(1)|kidney(1)	5		all_cancers(142;5.27e-07)|all_epithelial(76;8.21e-10)|all_lung(232;0.000396)|Lung NSC(167;0.000539)|Ovarian(225;0.024)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;6.85e-15)		CATTTACAGGATAAAGATGGA	0.313													18	80	---	---	---	---	PASS	G	96083050	G	G	96083050	3	3	65	1	0	0	0	0	1	0	0	0	2684	347	12	5	1480	5	CAST	5	96083050	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08	32826030	96083050	84832210	60	25580										
PCDHA1	56147	broad.mit.edu	37	chr5	140167125	140167125	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cagcgccctggatcgcgagaGcctgtcggtctatgagctgg	15	12	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr5:140167125G>A	uc003lhb.2	+	1	1250	c.1250G>A	c.(1249-1251)AGC>AAC	p.S417N	PCDHA1_uc003lha.2_Missense_Mutation_p.S417N|PCDHA1_uc003lgz.2_Missense_Mutation_p.S417N	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	417	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATCGCGAGAGCCTGTCGGTC	0.627													11	189	---	---	---	---	PASS	A	140167125	A	A	140167125	3	1	65	1	0	0	0	0	1	0	0	0	11519	971	34	3	1252	3	PCDHA1	5	140167125	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	44084075	140167125	40748135	61	25581										
DOCK2	1794	broad.mit.edu	37	chr5	169111316	169111316	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ggggaagatgctgagctcttCatgtctctctacgaccccaa	10	12	4	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr5:169111316C>T	uc003maf.2	+	8	803	c.723C>T	c.(721-723)TTC>TTT	p.F241F	DOCK2_uc011der.1_RNA	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	241					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTGAGCTCTTCATGTCTCTCT	0.483													5	243	---	---	---	---	PASS	T	169111316	T	T	169111316	2	4	65	1	0	0	0	0	0	0	0	1	4687	825	29	2		2	DOCK2	5	169111316	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	28944191	169111316	11803944	62	25582										
RPL26L1	51121	broad.mit.edu	37	chr5	172396424	172396424	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cactcccaacaggtggttatCaccaggctaaaactggacaa	8	12	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr5:172396424C>T	uc003mcc.2	+	4	360	c.318C>T	c.(316-318)ATC>ATT	p.I106I		NM_016093	NP_057177	Q9UNX3	RL26L_HUMAN	ribosomal protein L26-like 1	106					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|large ribosomal subunit	structural constituent of ribosome				0	Renal(175;0.000159)|Lung NSC(126;0.00344)|all_lung(126;0.00594)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AGGTGGTTATCACCAGGCTAA	0.398													25	157	---	---	---	---	PASS	T	172396424	T	T	172396424	2	4	65	1	0	0	0	0	0	0	0	1	13574	816	29	2		2	RPL26L1	5	172396424	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	3285108	172396424	8518836	63	25583										
F13A1	2162	broad.mit.edu	37	chr6	6305716	6305716	+	Missense_Mutation	SNP	C	A	A													0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cttgtcagtgtggtggtccaCcttgttagtgtcccatctct							TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr6:6305716C>A	uc003mwv.2	-	3	310	c.187G>T	c.(187-189)GTG>TTG	p.V63L	F13A1_uc011dib.1_Intron	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	63					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	TGGTGGTCCACCTTGTTAGTG	0.433													15	165	---	---	---	---	PASS	A	6305716	A	A	6305716	3	1	65	1	0	0	0	0	1	0	0	0	5340	507	18	3	2063	3	F13A1	6	6305716	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		6305716	164809351	64	25584	543	2								
F13A1	2162	broad.mit.edu	37	chr6	6305717	6305717	+	Missense_Mutation	SNP	C	A	A													0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ttgtcagtgtggtggtccacCttgttagtgtcccatctctc							TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr6:6305717C>A	uc003mwv.2	-	3	309	c.186G>T	c.(184-186)AAG>AAT	p.K62N	F13A1_uc011dib.1_Intron	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	62					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	GGTGGTCCACCTTGTTAGTGT	0.428													16	165	---	---	---	---	PASS	A	6305717	A	A	6305717	3	1	65	1	0	0	0	0	1	0	0	0	5340	680	24	3	2064	3	F13A1	6	6305717	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	1	6305717	164809350	65	25585	543	2								
RUNX2	860	broad.mit.edu	37	chr6	45480107	45480107	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tcttccacacggggcactggGcttcctgccatcaccgatgt	10	15	2	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr6:45480107G>A	uc011dvx.1	+	7	1194	c.984G>A	c.(982-984)GGG>GGA	p.G328G	RUNX2_uc011dvy.1_Silent_p.G328G|RUNX2_uc003oxt.2_Silent_p.G314G	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	328	Pro/Ser/Thr-rich.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						GGGGCACTGGGCTTCCTGCCA	0.597													12	135	---	---	---	---	PASS	A	45480107	A	A	45480107	2	1	65	1	0	0	0	0	0	0	0	1	13748	1190	42	3		3	RUNX2	6	45480107	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	39174390	45480107	125634960	66	25586										
C6orf138	442213	broad.mit.edu	37	chr6	47846506	47846506	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gcccagctcaattgaggtgaCgctaagaattagccagaagt	11	9	1	4			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr6:47846506C>T	uc011dwm.1	-	3	2108	c.2023G>A	c.(2023-2025)GTC>ATC	p.V675I	C6orf138_uc011dwn.1_Missense_Mutation_p.V439I	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	692	Helical; (Potential).					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						ATTGAGGTGACGCTAAGAATT	0.453													11	63	---	---	---	---	PASS	T	47846506	T	T	47846506	3	4	65	1	0	0	0	0	1	0	0	0	2332	536	19	1	470	1	C6orf138	6	47846506	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	2366399	47846506	123268561	67	25587										
PKHD1	5314	broad.mit.edu	37	chr6	51944713	51944713	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cccaccttgaaagtacagctAtctcgtggtcctggatttgg	10	11	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr6:51944713A>C	uc003pah.1	-	5	651	c.375T>G	c.(373-375)GAT>GAG	p.D125E	PKHD1_uc003pai.2_Missense_Mutation_p.D125E	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	125	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AAGTACAGCTATCTCGTGGTC	0.473													43	397	---	---	---	---	PASS	C	51944713	C	C	51944713	3	2	65	1	0	0	0	0	1	0	0	0	11971	446	16	5	12140	5	PKHD1	6	51944713	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08	4098207	51944713	119170354	68	25588										
LGSN	51557	broad.mit.edu	37	chr6	63995564	63995564	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gttgcttcaaatcgtacaaaCtggaggcgatttttggccat	10	8	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr6:63995564C>G	uc003peh.2	-	3	292	c.258G>C	c.(256-258)CAG>CAC	p.Q86H	LGSN_uc003pei.2_Missense_Mutation_p.Q86H|LGSN_uc003pej.1_3'UTR	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	86					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	ATCGTACAAACTGGAGGCGAT	0.443													14	98	---	---	---	---	PASS	G	63995564	G	G	63995564	3	3	65	1	0	0	0	0	1	0	0	0	8759	564	20	4	1279	4	LGSN	6	63995564	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	12050851	63995564	107119503	69	25589										
COL12A1	1303	broad.mit.edu	37	chr6	75799856	75799856	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	agggggtccctgcatccctgGtgtgcccgggaagcctggcc	16	14	0	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr6:75799856G>C	uc003phs.2	-	63	9077	c.8911C>G	c.(8911-8913)CCA>GCA	p.P2971A	COL12A1_uc003pht.2_Missense_Mutation_p.P1807A	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2971	Triple-helical region (COL1) with 2 imperfections.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TGCATCCCTGGTGTGCCCGGG	0.627													35	312	---	---	---	---	PASS	C	75799856	C	C	75799856	3	2	65	1	0	0	0	0	1	0	0	0	3669	1261	44	4	296	4	COL12A1	6	75799856	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	11804292	75799856	95315211	70	25590										
FBXO30	84085	broad.mit.edu	37	chr6	146126628	146126628	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	agttactttgttttgaatcaCcatgtaaattctgattctgg	7	6	3	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr6:146126628C>T	uc003qla.2	-	2	1113	c.914G>A	c.(913-915)GGT>GAT	p.G305D	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	305							ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		TTTTGAATCACCATGTAAATT	0.403													13	263	---	---	---	---	PASS	T	146126628	T	T	146126628	3	4	65	1	0	0	0	0	1	0	0	0	5740	507	18	3	1331	3	FBXO30	6	146126628	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	70326772	146126628	24988439	71	25591										
NOX3	50508	broad.mit.edu	37	chr6	155750042	155750042	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cgctgaaaaagtcctcctggGgggcagaggtaagggtgaag	17	7	0	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr6:155750042G>T	uc003qqm.2	-	9	1134	c.1031C>A	c.(1030-1032)CCC>CAC	p.P344H		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	344	Extracellular (Potential).|FAD-binding FR-type.						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		GTCCTCCTGGGGGGCAGAGGT	0.607													16	160	---	---	---	---	PASS	T	155750042	T	T	155750042	3	4	65	1	0	0	0	0	1	0	0	0	10557	1232	43	3	695	3	NOX3	6	155750042	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	9623414	155750042	15365025	72	25592										
PARK2	5071	broad.mit.edu	37	chr6	162475185	162475185	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	catccggtttggaattaaaaCatcatcccagcaagatggac	8	10	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr6:162475185C>T	uc003qtx.3	-	5	690	c.556G>A	c.(556-558)GTT>ATT	p.V186I	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_5'UTR|PARK2_uc003qtw.3_5'UTR|PARK2_uc003qty.3_Intron|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Missense_Mutation_p.V186I	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	186					aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GGAATTAAAACATCATCCCAG	0.398													10	132	---	---	---	---	PASS	T	162475185	T	T	162475185	3	4	65	1	0	0	0	0	1	0	0	0	11449	478	17	3	873	3	PARK2	6	162475185	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	6725143	162475185	8639882	73	25593										
MICALL2	79778	broad.mit.edu	37	chr7	1478561	1478561	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccagggggctccggccgaagCcagttgtcacaaacgtcgag	14	13	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr7:1478561C>A	uc003skj.3	-	10	2184	c.2037G>T	c.(2035-2037)TGG>TGT	p.W679C	MICALL2_uc003skh.3_5'UTR|MICALL2_uc003ski.3_Missense_Mutation_p.W166C	NM_182924	NP_891554	Q8IY33	MILK2_HUMAN	MICAL-like 2 isoform 1	679						cytoplasm|cytoskeleton	zinc ion binding			central_nervous_system(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;6.01e-15)		CCGGCCGAAGCCAGTTGTCAC	0.677													11	56	---	---	---	---	PASS	A	1478561	A	A	1478561	3	1	65	1	0	0	0	0	1	0	0	0	9574	740	26	3	709	3	MICALL2	7	1478561	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		1478561	157660102	74	25594										
MMD2	221938	broad.mit.edu	37	chr7	4947058	4947058	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccttggtctgcagggtgctgGgcagatagaggtacctccag	15	10	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr7:4947058G>A	uc003sno.3	-	7	978	c.782C>T	c.(781-783)CCC>CTC	p.P261L	MMD2_uc003snl.1_Intron|MMD2_uc003snn.3_Missense_Mutation_p.P237L|MMD2_uc010ksq.2_3'UTR	NM_001100600	NP_001094070	Q8IY49	PAQRA_HUMAN	monocyte to macrophage	261	Extracellular (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.097)|OV - Ovarian serous cystadenocarcinoma(56;3.4e-14)		CAGGGTGCTGGGCAGATAGAG	0.537													26	174	---	---	---	---	PASS	A	4947058	A	A	4947058	3	1	65	1	0	0	0	0	1	0	0	0	9644	1232	43	3	34	3	MMD2	7	4947058	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	3468497	4947058	154191605	75	25595										
GRB10	2887	broad.mit.edu	37	chr7	50660793	50660793	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aacgtctgcccgtcgtcctcGcactggagagacacaagaac	10	14	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr7:50660793G>A	uc003tpi.2	-	16	1672	c.1641C>T	c.(1639-1641)TGC>TGT	p.C547C	GRB10_uc003tph.3_Silent_p.C489C|GRB10_uc003tpj.2_Silent_p.C501C|GRB10_uc003tpk.2_Silent_p.C547C|GRB10_uc010kzb.2_Silent_p.C489C|GRB10_uc003tpl.2_Silent_p.C541C|GRB10_uc003tpm.2_Silent_p.C489C|GRB10_uc003tpn.2_Silent_p.C489C	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	547	SH2.				insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					CGTCGTCCTCGCACTGGAGAG	0.552									Russell-Silver_syndrome				13	101	---	---	---	---	PASS	A	50660793	A	A	50660793	2	1	65	1	0	0	0	0	0	0	0	1	6756	1079	38	1		1	GRB10	7	50660793	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	45713735	50660793	108477870	76	25596										
MGC26647	219557	broad.mit.edu	37	chr7	88424009	88424009	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gcagcaatcctgtcactgctTctcctaggtgatgtttcaaa	8	11	3	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr7:88424009T>C	uc003ujv.2	-	2	430	c.248A>G	c.(247-249)GAA>GGA	p.E83G	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	83											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			TGTCACTGCTTCTCCTAGGTG	0.403													3	153	---	---	---	---	PASS	C	88424009	C	C	88424009	3	2	65	1	0	0	0	0	1	0	0	0	9550	1783	62	5	517	5	MGC26647	7	88424009	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	37763216	88424009	70714654	77	25597										
ALKBH4	54784	broad.mit.edu	37	chr7	102098423	102098423	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cgaaagttgactttggggccAtagtcctgaaggatgaagac	13	7	0	4			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr7:102098423A>G	uc003uzl.2	-	3	332	c.327T>C	c.(325-327)TAT>TAC	p.Y109Y	ALKBH4_uc003uzm.2_Silent_p.Y36Y	NM_017621	NP_060091	Q9NXW9	ALKB4_HUMAN	alkB, alkylation repair homolog 4	109						cytoplasm|nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CTTTGGGGCCATAGTCCTGAA	0.453													7	68	---	---	---	---	PASS	G	102098423	G	G	102098423	2	3	65	1	0	0	0	0	0	0	0	1	529	224	8	5		5	ALKBH4	7	102098423	Silent	SNP	A	TCGA-34-2608-01A-02D-1522-08	13674414	102098423	57040240	78	25598										
ARF5	381	broad.mit.edu	37	chr7	127231094	127231094	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	atgcccaacgccatgcccgtGagcgagctgactgacaagct	11	14	0	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr7:127231094G>T	uc003vmb.1	+	5	444	c.408G>T	c.(406-408)GTG>GTT	p.V136V	FSCN3_uc003vmc.1_5'Flank|FSCN3_uc011kog.1_5'Flank|FSCN3_uc011koh.1_5'Flank|FSCN3_uc003vmd.1_5'Flank|FSCN3_uc010llc.1_5'Flank	NM_001662	NP_001653	P84085	ARF5_HUMAN	ADP-ribosylation factor 5	136					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	Golgi apparatus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1						CCATGCCCGTGAGCGAGCTGA	0.607													30	221	---	---	---	---	PASS	T	127231094	T	T	127231094	2	4	65	1	0	0	0	0	0	0	0	1	847	1277	45	2		2	ARF5	7	127231094	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	25132671	127231094	31907569	79	25599										
CALD1	800	broad.mit.edu	37	chr7	134617824	134617824	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cattcctggagcgcctggctCggcgtgaggaaagacgccaa	14	12	0	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr7:134617824C>A	uc003vrz.2	+	5	763	c.304C>A	c.(304-306)CGG>AGG	p.R102R	CALD1_uc003vry.2_Silent_p.R102R|CALD1_uc003vsa.2_Silent_p.R102R|CALD1_uc003vsb.2_Silent_p.R102R|CALD1_uc010lmm.2_Silent_p.R102R|CALD1_uc011kpt.1_Intron|CALD1_uc003vsc.2_Silent_p.R96R|CALD1_uc003vsd.2_Silent_p.R96R|CALD1_uc011kpu.1_Silent_p.R107R|CALD1_uc011kpv.1_5'UTR|CALD1_uc003vse.2_5'UTR	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	102	Myosin and calmodulin-binding (By similarity).				cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						GCGCCTGGCTCGGCGTGAGGA	0.562													9	70	---	---	---	---	PASS	A	134617824	A	A	134617824	2	1	65	1	0	0	0	0	0	0	0	1	2581	875	31	2		2	CALD1	7	134617824	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	7386730	134617824	24520839	80	25600										
MYOM2	9172	broad.mit.edu	37	chr8	2044123	2044123	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ttatgggattacgctcctcaActgtgacggccactccatga	9	12	1	2	rs62478391	byFrequency	TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr8:2044123A>T	uc003wpx.3	+	18	2300	c.2162A>T	c.(2161-2163)AAC>ATC	p.N721I	MYOM2_uc011kwi.1_Missense_Mutation_p.N146I	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	721	Fibronectin type-III 4.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		ACGCTCCTCAACTGTGACGGC	0.602													17	146	---	---	---	---	PASS	T	2044123	T	T	2044123	3	4	65	1	0	0	0	0	1	0	0	0	10092	43	2	5	2228	5	MYOM2	8	2044123	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08		2044123	144319899	81	25601										
CSMD1	64478	broad.mit.edu	37	chr8	2820848	2820848	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tgcagctgtaacttatgctgGagccccagcggaaatcactt	10	11	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr8:2820848G>T	uc011kwk.1	-	60	9743	c.9353C>A	c.(9352-9354)TCC>TAC	p.S3118Y	CSMD1_uc011kwj.1_Missense_Mutation_p.S2447Y|CSMD1_uc010lrg.2_Missense_Mutation_p.S1009Y	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3118	Sushi 25.|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)		ACTTATGCTGGAGCCCCAGCG	0.552													25	244	---	---	---	---	PASS	T	2820848	T	T	2820848	3	4	65	1	0	0	0	0	1	0	0	0	3944	1174	41	2	1388	2	CSMD1	8	2820848	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	776725	2820848	143543174	82	25602										
CSGALNACT1	55790	broad.mit.edu	37	chr8	19315990	19315990	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	accctttttgctagaggcacGataacattgataagcgtgtt	9	8	0	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr8:19315990G>A	uc011kyn.1	-	5	1862	c.798C>T	c.(796-798)ATC>ATT	p.I266I	CSGALNACT1_uc011kyo.1_Silent_p.I266I|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Silent_p.I265I|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	266	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		CTAGAGGCACGATAACATTGA	0.438													87	652	---	---	---	---	PASS	A	19315990	A	A	19315990	2	1	65	1	0	0	0	0	0	0	0	1	3938	1048	37	2		2	CSGALNACT1	8	19315990	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	16495142	19315990	127048032	83	25603										
RP1	6101	broad.mit.edu	37	chr8	55538745	55538745	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	attaaatactactcaaaattCcaaggttcaaggacttttaa	4	7	2	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr8:55538745C>G	uc003xsd.1	+	4	2451	c.2303C>G	c.(2302-2304)TCC>TGC	p.S768C	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	768					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			ACTCAAAATTCCAAGGTTCAA	0.289													7	87	---	---	---	---	PASS	G	55538745	G	G	55538745	3	3	65	1	0	0	0	0	1	0	0	0	13532	855	30	2	2313	2	RP1	8	55538745	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	36222755	55538745	90825277	84	25604										
RDH10	157506	broad.mit.edu	37	chr8	74209560	74209560	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aggaggttggcgaagtctcaGtcctggtcaataatgctggt	14	7	2	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr8:74209560G>A	uc003xzi.2	+	2	681	c.421G>A	c.(421-423)GTC>ATC	p.V141I	RDH10_uc003xzj.2_5'UTR	NM_172037	NP_742034	Q8IZV5	RDH10_HUMAN	retinol dehydrogenase 10	141					retinal metabolic process|retinol metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|microsome	binding|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity				0	Breast(64;0.0954)		Epithelial(68;0.0105)|all cancers(69;0.0465)|BRCA - Breast invasive adenocarcinoma(89;0.0608)			CGAAGTCTCAGTCCTGGTCAA	0.507													9	211	---	---	---	---	PASS	A	74209560	A	A	74209560	3	1	65	1	0	0	0	0	1	0	0	0	13189	1029	36	3	427	3	RDH10	8	74209560	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	18670815	74209560	72154462	85	25605										
CSMD3	114788	broad.mit.edu	37	chr8	113651048	113651048	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aagatctgaaccagtcaggcGtgccagtggttgggtaaaac	13	8	2	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr8:113651048G>T	uc003ynu.2	-	21	3562	c.3403C>A	c.(3403-3405)CGC>AGC	p.R1135S	CSMD3_uc003yns.2_Missense_Mutation_p.R407S|CSMD3_uc003ynt.2_Missense_Mutation_p.R1095S|CSMD3_uc011lhx.1_Missense_Mutation_p.R1031S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1135	Extracellular (Potential).|CUB 6.					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						CCAGTCAGGCGTGCCAGTGGT	0.408										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			25	118	---	---	---	---	PASS	T	113651048	T	T	113651048	3	4	65	1	0	0	0	0	1	0	0	0	3946	1145	40	1	7924	1	CSMD3	8	113651048	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	39441488	113651048	32712974	86	25606										
TAF1L	138474	broad.mit.edu	37	chr9	32635064	32635064	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	agacacacaggtaatagcatCttggtccttatccttcttca	6	11	3	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr9:32635064C>T	uc003zrg.1	-	1	604	c.514G>A	c.(514-516)GAT>AAT	p.D172N	uc003zrh.1_Intron	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	172					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		GTAATAGCATCTTGGTCCTTA	0.458													5	126	---	---	---	---	PASS	T	32635064	T	T	32635064	3	4	65	1	0	0	0	0	1	0	0	0	15520	913	32	2	4970	2	TAF1L	9	32635064	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		32635064	108578367	87	25607										
C9orf23	138716	broad.mit.edu	37	chr9	34610935	34610935	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccagggggtcccggctgagcAgcacccacactgcaggcaca	13	16	0	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr9:34610935A>T	uc003zuu.2	-	2	640	c.359T>A	c.(358-360)CTG>CAG	p.L120Q	C9orf23_uc003zuv.2_Missense_Mutation_p.L120Q	NM_148179	NP_680545	Q8N5L8	CI023_HUMAN	hypothetical protein LOC138716	120							nucleic acid binding				0	all_epithelial(49;0.0863)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.0385)		CCGGCTGAGCAGCACCCACAC	0.652													13	67	---	---	---	---	PASS	T	34610935	T	T	34610935	3	4	65	1	0	0	0	0	1	0	0	0	2474	188	7	5	136	5	C9orf23	9	34610935	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08	1975871	34610935	106602496	88	25608										
OR1L4	254973	broad.mit.edu	37	chr9	125486388	125486388	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	atcatgtacctactcactgcGgtggggaatgtgctcatcat	10	10	4	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr9:125486388G>A	uc004bmu.1	+	1	120	c.120G>A	c.(118-120)GCG>GCA	p.A40A		NM_001005235	NP_001005235	Q8NGR5	OR1L4_HUMAN	olfactory receptor, family 1, subfamily L,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TACTCACTGCGGTGGGGAATG	0.517													13	225	---	---	---	---	PASS	A	125486388	A	A	125486388	2	1	65	1	0	0	0	0	0	0	0	1	10965	1103	39	1		1	OR1L4	9	125486388	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	90875453	125486388	15727043	89	25609										
ZBTB43	23099	broad.mit.edu	37	chr9	129595397	129595397	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	agcaactcgtccacagagcaTgaccgcctgagcacggaaat	10	13	0	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr9:129595397T>G	uc004bql.2	+	3	882	c.609T>G	c.(607-609)CAT>CAG	p.H203Q	ZBTB43_uc010mxf.2_Missense_Mutation_p.H203Q	NM_014007	NP_054726	O43298	ZBT43_HUMAN	zinc finger and BTB domain containing 43	203					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCACAGAGCATGACCGCCTGA	0.592													9	43	---	---	---	---	PASS	G	129595397	G	G	129595397	3	3	65	1	0	0	0	0	1	0	0	0	17541	1461	51	5	611	5	ZBTB43	9	129595397	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	4109009	129595397	11618034	90	25610										
EXD3	54932	broad.mit.edu	37	chr9	140243631	140243631	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cgtgcccctggtctctctctGtgcctgggcctccggctccc	11	19	2	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr9:140243631G>A	uc004cmp.2	-	16	1957	c.1761C>T	c.(1759-1761)CAC>CAT	p.H587H	C9orf167_uc011mew.1_Intron|EXD3_uc010ncf.1_Silent_p.H267H|EXD3_uc004cmq.1_RNA	NM_017820	NP_060290	Q8N9H8	MUT7_HUMAN	exonuclease 3'-5' domain containing 3	587					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						GTCTCTCTCTGTGCCTGGGCC	0.697													3	14	---	---	---	---	PASS	A	140243631	A	A	140243631	2	1	65	1	0	0	0	0	0	0	0	1	5299	1368	48	3		3	EXD3	9	140243631	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	10648234	140243631	969800	91	25611										
CUBN	8029	broad.mit.edu	37	chr10	17032472	17032472	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	acctgttggggaacccggggCtgctgaaggagcctgtggcc	17	11	0	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr10:17032472C>A	uc001ioo.2	-	29	4263	c.4211G>T	c.(4210-4212)AGC>ATC	p.S1404I		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1404	CUB 9.				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)	GAACCCGGGGCTGCTGAAGGA	0.512													13	116	---	---	---	---	PASS	A	17032472	A	A	17032472	3	1	65	1	0	0	0	0	1	0	0	0	4051	797	28	3	6816	3	CUBN	10	17032472	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		17032472	118502275	92	25612										
GPR158	57512	broad.mit.edu	37	chr10	25887797	25887797	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ggagagccaaggccagtccaTtttggaagatgagaagcttt	13	7	0	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr10:25887797T>C	uc001isj.2	+	11	3302	c.3242T>C	c.(3241-3243)ATT>ACT	p.I1081T	GPR158_uc001isk.2_Missense_Mutation_p.I456T	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1081	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GGCCAGTCCATTTTGGAAGAT	0.502													40	247	---	---	---	---	PASS	C	25887797	C	C	25887797	3	2	65	1	0	0	0	0	1	0	0	0	6663	1493	52	5	3284	5	GPR158	10	25887797	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	8855325	25887797	109646950	93	25613										
MYO3A	53904	broad.mit.edu	37	chr10	26310458	26310458	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gcatgtgaacagcaattggaTaccacttatgacgccagatg	10	9	0	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr10:26310458T>A	uc001isn.2	+	8	972	c.612T>A	c.(610-612)GAT>GAA	p.D204E	MYO3A_uc009xko.1_Missense_Mutation_p.D204E|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Missense_Mutation_p.D204E|MYO3A_uc001ism.2_Missense_Mutation_p.D204E	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	204	Protein kinase.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						AGCAATTGGATACCACTTATG	0.433													6	241	---	---	---	---	PASS	A	26310458	A	A	26310458	3	1	65	1	0	0	0	0	1	0	0	0	10076	1403	49	5	634	5	MYO3A	10	26310458	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	422661	26310458	109224289	94	25614										
ZNF438	220929	broad.mit.edu	37	chr10	31138498	31138498	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aagagatcaactgaactgcaTtgccaagaatggttggtgat	11	6	1	4			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr10:31138498T>C	uc010qdz.1	-	7	1271	c.836A>G	c.(835-837)AAT>AGT	p.N279S	ZNF438_uc001ivn.2_Missense_Mutation_p.N230S|ZNF438_uc010qdy.1_Missense_Mutation_p.N269S|ZNF438_uc001ivo.3_Intron|ZNF438_uc009xlg.2_Missense_Mutation_p.N279S|ZNF438_uc001ivp.3_Missense_Mutation_p.N269S|ZNF438_uc010qea.1_Missense_Mutation_p.N279S|ZNF438_uc010qeb.1_Missense_Mutation_p.N279S|ZNF438_uc010qec.1_Intron	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	279					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				CTGAACTGCATTGCCAAGAAT	0.388													17	477	---	---	---	---	PASS	C	31138498	C	C	31138498	3	2	65	1	0	0	0	0	1	0	0	0	17907	1493	52	5	1658	5	ZNF438	10	31138498	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	4828040	31138498	104396249	95	25615										
NRP1	8829	broad.mit.edu	37	chr10	33502318	33502318	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	agtccccagccctcaccttcGccttgcgtttgctgtcatcc	7	18	2	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr10:33502318G>A	uc001iwx.3	-	9	2133	c.1610C>T	c.(1609-1611)GCG>GTG	p.A537V	NRP1_uc001iwv.3_Missense_Mutation_p.A537V|NRP1_uc009xlz.2_Missense_Mutation_p.A537V|NRP1_uc001iww.3_Missense_Mutation_p.A356V|NRP1_uc001iwy.3_Missense_Mutation_p.A537V|NRP1_uc001iwz.2_Missense_Mutation_p.A537V|NRP1_uc001ixa.2_Missense_Mutation_p.A537V|NRP1_uc001ixb.1_Missense_Mutation_p.A537V|NRP1_uc001ixc.1_Missense_Mutation_p.A537V	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	537	Extracellular (Potential).|F5/8 type C 2.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	CCTCACCTTCGCCTTGCGTTT	0.522													8	376	---	---	---	---	PASS	A	33502318	A	A	33502318	3	1	65	1	0	0	0	0	1	0	0	0	10660	1087	38	1	1208	1	NRP1	10	33502318	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	2363820	33502318	102032429	96	25616										
CTNNA3	29119	broad.mit.edu	37	chr10	68280441	68280441	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ttcagtgaggacatgtatatGattctcccatgtacgcttgt	9	8	2	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr10:68280441G>C	uc009xpn.1	-	11	1588	c.1465C>G	c.(1465-1467)CAT>GAT	p.H489D	CTNNA3_uc001jmw.2_Missense_Mutation_p.H489D|CTNNA3_uc001jmx.3_Missense_Mutation_p.H489D	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	489					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						ACATGTATATGATTCTCCCAT	0.358													38	198	---	---	---	---	PASS	C	68280441	C	C	68280441	3	2	65	1	0	0	0	0	1	0	0	0	4014	1290	45	2	1254	2	CTNNA3	10	68280441	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	34778123	68280441	67254306	97	25617										
PPP1R3C	5507	broad.mit.edu	37	chr10	93390049	93390049	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	atagacacagtctacgtcagTgtagtttttccaagaatcga	8	8	2	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr10:93390049T>C	uc001kho.2	-	2	721	c.589A>G	c.(589-591)ACT>GCT	p.T197A		NM_005398	NP_005389	Q9UQK1	PPR3C_HUMAN	protein phosphatase 1, regulatory (inhibitor)	197	Interaction with EPM2A.|CBM21.						protein serine/threonine phosphatase activity			breast(1)	1		Colorectal(252;0.235)				TCTACGTCAGTGTAGTTTTTC	0.408													30	172	---	---	---	---	PASS	C	93390049	C	C	93390049	3	2	65	1	0	0	0	0	1	0	0	0	12373	1696	59	5	368	5	PPP1R3C	10	93390049	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	25109608	93390049	42144698	98	25618										
XPNPEP1	7511	broad.mit.edu	37	chr10	111667494	111667494	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	atgtaggcctggatcggttcGgtcacatactcagagttcct	11	10	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr10:111667494G>A	uc001kyp.1	-	3	212	c.72C>T	c.(70-72)ACC>ACT	p.T24T	XPNPEP1_uc009xxt.1_Silent_p.T67T|XPNPEP1_uc001kyq.1_5'UTR|XPNPEP1_uc010qrb.1_Silent_p.T67T	NM_020383	NP_065116	Q9NQW7	XPP1_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 1,	24					bradykinin catabolic process|proteolysis		manganese ion binding|metalloaminopeptidase activity|protein homodimerization activity			ovary(3)|pancreas(1)	4		Breast(234;0.174)		Epithelial(162;1.64e-05)|all cancers(201;0.000564)|BRCA - Breast invasive adenocarcinoma(275;0.0721)		GGATCGGTTCGGTCACATACT	0.522													20	211	---	---	---	---	PASS	A	111667494	A	A	111667494	2	1	65	1	0	0	0	0	0	0	0	1	17439	1103	39	1		1	XPNPEP1	10	111667494	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	18277445	111667494	23867253	99	25619										
SMPD1	6609	broad.mit.edu	37	chr11	6412896	6412896	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cagccccaggtgcccctgtcAgccgcatcctcttcctcact	7	20	3	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:6412896A>G	uc001mcw.2	+	2	775	c.601A>G	c.(601-603)AGC>GGC	p.S201G	SMPD1_uc001mcv.1_Intron|SMPD1_uc009yex.2_RNA|SMPD1_uc001mcx.2_Missense_Mutation_p.S201G|SMPD1_uc009yew.2_Missense_Mutation_p.S200G	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	199					cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)	TGCCCCTGTCAGCCGCATCCT	0.627													3	21	---	---	---	---	PASS	G	6412896	G	G	6412896	3	3	65	1	0	0	0	0	1	0	0	0	14804	188	7	5	607	5	SMPD1	11	6412896	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08		6412896	128593620	100	25620										
RASSF10	644943	broad.mit.edu	37	chr11	13032263	13032263	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gagcccgacggtggccccgaCggcgagctgctgctggagca	17	14	0	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:13032263C>T	uc001mkn.1	+	2	1464	c.1464C>T	c.(1462-1464)GAC>GAT	p.D488D		NM_001080521	NP_001073990	A6NK89	RASFA_HUMAN	Ras association (RalGDS/AF-6) domain family	380					signal transduction						0				Epithelial(150;0.00399)		GTGGCCCCGACGGCGAGCTGC	0.672													2	1	---	---	---	---	PASS	T	13032263	T	T	13032263	2	4	65	1	0	0	0	0	0	0	0	1	13085	535	19	1		1	RASSF10	11	13032263	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	6619367	13032263	121974253	101	25621										
RCN1	5954	broad.mit.edu	37	chr11	32118819	32118819	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aaagtctggaaggattatgaTagggacaaggatgataaaat	12	2	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:32118819T>C	uc010reb.1	+	2	650	c.384T>C	c.(382-384)GAT>GAC	p.D128D	RCN1_uc010rea.1_Silent_p.D77D|RCN1_uc001mtk.2_5'UTR	NM_002901	NP_002892	Q15293	RCN1_HUMAN	reticulocalbin 1 precursor	128	EF-hand 2.|2; possibly ancestral (Potential).					endoplasmic reticulum lumen	calcium ion binding			large_intestine(1)	1	Lung SC(675;0.225)					AGGATTATGATAGGGACAAGG	0.458													9	46	---	---	---	---	PASS	C	32118819	C	C	32118819	2	2	65	1	0	0	0	0	0	0	0	1	13179	1403	49	5		5	RCN1	11	32118819	Silent	SNP	T	TCGA-34-2608-01A-02D-1522-08	19086556	32118819	102887697	102	25622										
NR1H3	10062	broad.mit.edu	37	chr11	47290247	47290247	+	Nonstop_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	atctgggatgtgcacgaatgActgttctgtccccatatttt	9	9	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:47290247A>T	uc009ylm.2	+	10	1565	c.1344A>T	c.(1342-1344)TGA>TGT	p.*448C	MADD_uc001neq.2_5'Flank|MADD_uc001ner.1_5'Flank|MADD_uc001nev.1_5'Flank|MADD_uc001nes.1_5'Flank|MADD_uc001net.1_5'Flank|MADD_uc009yln.1_5'Flank|MADD_uc001neu.1_5'Flank|MADD_uc001nex.2_5'Flank|MADD_uc001nez.2_5'Flank|MADD_uc001new.2_5'Flank|NR1H3_uc010rhk.1_Nonstop_Mutation_p.*454C|NR1H3_uc001nek.2_Nonstop_Mutation_p.*403C|NR1H3_uc001nej.2_Nonstop_Mutation_p.*388C|NR1H3_uc001nel.2_Nonstop_Mutation_p.*467C|NR1H3_uc001nen.3_Nonstop_Mutation_p.*388C|NR1H3_uc001nem.2_Nonstop_Mutation_p.*448C|NR1H3_uc001nep.2_Nonstop_Mutation_p.*297C	NM_005693	NP_005684	Q13133	NR1H3_HUMAN	nuclear receptor subfamily 1, group H, member 3	448					apoptotic cell clearance|cellular response to lipopolysaccharide|cholesterol homeostasis|negative regulation of cholesterol storage|negative regulation of inflammatory response|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of macrophage activation|negative regulation of pancreatic juice secretion|negative regulation of pinocytosis|negative regulation of secretion of lysosomal enzymes|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of cholesterol homeostasis|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor biosynthetic process|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of circadian rhythm|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to progesterone stimulus|triglyceride homeostasis	nuclear chromatin|nucleoplasm	cholesterol binding|steroid hormone receptor activity|sterol response element binding|transcription coactivator activity|zinc ion binding			ovary(2)|lung(1)	3						TGCACGAATGACTGTTCTGTC	0.547													10	94	---	---	---	---	PASS	T	47290247	T	T	47290247	4	4	65	1	0	0	0	0	0	0	0	0	10618	288	10	5	1378	5	NR1H3	11	47290247	Nonstop_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08	15171428	47290247	87716269	103	25623										
OR4A16	81327	broad.mit.edu	37	chr11	55111021	55111021	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gaggtcttccttttggtggtGatggcctatgatcgctatgt	13	7	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:55111021G>T	uc010rie.1	+	1	345	c.345G>T	c.(343-345)GTG>GTT	p.V115V		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						TTTTGGTGGTGATGGCCTATG	0.458													12	481	---	---	---	---	PASS	T	55111021	T	T	55111021	2	4	65	1	0	0	0	0	0	0	0	1	11041	1277	45	2		2	OR4A16	11	55111021	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	7820774	55111021	79895495	104	25624										
OR4C16	219428	broad.mit.edu	37	chr11	55339883	55339883	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	agacaactatctccttcagcGagtgcatgatccaagtcttt	7	11	3	2	rs150706012	by1000genomes	TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:55339883G>A	uc010rih.1	+	1	280	c.280G>A	c.(280-282)GAG>AAG	p.E94K		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				CTCCTTCAGCGAGTGCATGAT	0.458													44	358	---	---	---	---	PASS	A	55339883	A	A	55339883	3	1	65	1	0	0	0	0	1	0	0	0	11049	1059	37	2	282	2	OR4C16	11	55339883	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	228862	55339883	79666633	105	25625										
OR10Q1	219960	broad.mit.edu	37	chr11	57995510	57995510	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gacaaaggtgtagaccaacgCgatttggctgtcctcatcct	10	11	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:57995510C>T	uc010rkd.1	-	1	838	c.838G>A	c.(838-840)GCG>ACG	p.A280T		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	280	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				TAGACCAACGCGATTTGGCTG	0.547													12	126	---	---	---	---	PASS	T	57995510	T	T	57995510	3	4	65	1	0	0	0	0	1	0	0	0	10916	768	27	1	125	1	OR10Q1	11	57995510	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	2655627	57995510	77011006	106	25626										
OR10Q1	219960	broad.mit.edu	37	chr11	57995829	57995829	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ttgatttcctggtggtggccGcaaaagggcagggtgaagat	16	6	0	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:57995829G>A	uc010rkd.1	-	1	519	c.519C>T	c.(517-519)TGC>TGT	p.C173C		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	173	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				GGTGGTGGCCGCAAAAGGGCA	0.652													4	59	---	---	---	---	PASS	A	57995829	A	A	57995829	2	1	65	1	0	0	0	0	0	0	0	1	10916	1079	38	1		1	OR10Q1	11	57995829	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	319	57995829	77010687	107	25627										
ZFP91	80829	broad.mit.edu	37	chr11	58384221	58384221	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	atatctgtgaatattgtgctCgggccttcaagagttcccac	9	10	2	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:58384221C>G	uc001nmx.3	+	10	1303	c.1135C>G	c.(1135-1137)CGG>GGG	p.R379G	ZFP91_uc001nmy.3_Missense_Mutation_p.R378G|ZFP91-CNTF_uc010rkm.1_RNA	NM_053023	NP_444251	Q96JP5	ZFP91_HUMAN	zinc finger protein 91	379	C2H2-type 3.				activation of NF-kappaB-inducing kinase activity|protein K63-linked ubiquitination	nucleus	nucleic acid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				ATATTGTGCTCGGGCCTTCAA	0.403													5	88	---	---	---	---	PASS	G	58384221	G	G	58384221	3	3	65	1	0	0	0	0	1	0	0	0	17652	875	31	2	1173	2	ZFP91	11	58384221	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	388392	58384221	76622295	108	25628										
PYGM	5837	broad.mit.edu	37	chr11	64517934	64517934	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gcctcttctgccatctccacAttggccccgtccatggtgcc	8	18	3	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:64517934A>G	uc001oax.3	-	17	2908	c.2091T>C	c.(2089-2091)AAT>AAC	p.N697N	PYGM_uc001oay.3_Silent_p.N609N	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	697					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	CCATCTCCACATTGGCCCCGT	0.567													36	187	---	---	---	---	PASS	G	64517934	G	G	64517934	2	3	65	1	0	0	0	0	0	0	0	1	12862	214	8	5		5	PYGM	11	64517934	Silent	SNP	A	TCGA-34-2608-01A-02D-1522-08	6133713	64517934	70488582	109	25629										
CDC42BPG	55561	broad.mit.edu	37	chr11	64606676	64606676	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	atctcaggggagatatagtcCggcgtccctactgccactga	11	12	1	2	rs149531322		TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:64606676C>T	uc001obs.3	-	7	705	c.705G>A	c.(703-705)CCG>CCA	p.P235P		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	235	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						AGATATAGTCCGGCGTCCCTA	0.617													12	148	---	---	---	---	PASS	T	64606676	T	T	64606676	2	4	65	1	0	0	0	0	0	0	0	1	3074	639	23	1		1	CDC42BPG	11	64606676	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	88742	64606676	70399840	110	25630										
NPAS4	266743	broad.mit.edu	37	chr11	66189957	66189957	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cagggtgacagcatctacgaCatcattgacccagctgacca	9	13	2	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:66189957C>A	uc001ohx.1	+	3	539	c.363C>A	c.(361-363)GAC>GAA	p.D121E	NPAS4_uc010rpc.1_5'UTR	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	121	PAS 1.				transcription, DNA-dependent		DNA binding|signal transducer activity				0						GCATCTACGACATCATTGACC	0.557													22	171	---	---	---	---	PASS	A	66189957	A	A	66189957	3	1	65	1	0	0	0	0	1	0	0	0	10565	477	17	3	373	3	NPAS4	11	66189957	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	1583281	66189957	68816559	111	25631										
CCND1	595	broad.mit.edu	37	chr11	69458669	69458669	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tgaccccgcacgatttcattGaacacttcctctccaaaatg	5	14	2	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:69458669G>A	uc001opa.2	+	3	693	c.484G>A	c.(484-486)GAA>AAA	p.E162K		NM_053056	NP_444284	P24385	CCND1_HUMAN	cyclin D1	162					cell division|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|mitotic cell cycle G1/S transition DNA damage checkpoint|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation|response to drug|response to UV-A|S phase of mitotic cell cycle	cyclin-dependent protein kinase holoenzyme complex|cytosol|membrane|nucleoplasm	protein kinase binding			ovary(1)|lung(1)	2	all_cancers(3;2.01e-114)|all_epithelial(3;3.59e-122)|Breast(3;5.4e-34)|all_lung(4;1.99e-21)|Lung NSC(4;4.65e-21)|Hepatocellular(3;8.22e-16)|Melanoma(5;1.89e-05)|Ovarian(3;0.0348)		Epithelial(3;7.2e-57)|all cancers(3;7.75e-51)|BRCA - Breast invasive adenocarcinoma(2;4.9e-48)|Lung(3;1.13e-16)|LUSC - Lung squamous cell carcinoma(11;3.74e-15)|STAD - Stomach adenocarcinoma(18;0.0278)|LUAD - Lung adenocarcinoma(13;0.0537)		Arsenic trioxide(DB01169)	CGATTTCATTGAACACTTCCT	0.572			T	IGH@|FSTL3	CLL|B-ALL|breast					Multiple Myeloma(6;0.086)			10	72	---	---	---	---	PASS	A	69458669	A	A	69458669	3	1	65	1	0	0	0	0	1	0	0	0	2916	1291	45	2	494	2	CCND1	11	69458669	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	3268712	69458669	65547847	112	25632										
FAT3	120114	broad.mit.edu	37	chr11	92614037	92614037	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tctgcaattgtaaagctgggCtcactggagtcacgtaagtg	12	8	3	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:92614037C>A	uc001pdj.3	+	22	12285	c.12268C>A	c.(12268-12270)CTC>ATC	p.L4090I	FAT3_uc001pdi.3_Missense_Mutation_p.L530I	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4090	EGF-like 3.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TAAAGCTGGGCTCACTGGAGT	0.418										TCGA Ovarian(4;0.039)			61	377	---	---	---	---	PASS	A	92614037	A	A	92614037	3	1	65	1	0	0	0	0	1	0	0	0	5691	797	28	3	12354	3	FAT3	11	92614037	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	23155368	92614037	42392479	113	25633										
APOA5	116519	broad.mit.edu	37	chr11	116661354	116661354	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cgcccgatgccgctcaccagGctctcggcgtatgggtggaa	14	14	2	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:116661354G>A	uc001ppr.2	-	3	599	c.591C>T	c.(589-591)AGC>AGT	p.S197S	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Silent_p.S197S|APOA5_uc009yzf.2_Silent_p.S197S|APOA5_uc009yzg.2_Silent_p.S223S	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	197					acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		CGCTCACCAGGCTCTCGGCGT	0.711													5	28	---	---	---	---	PASS	A	116661354	A	A	116661354	2	1	65	1	0	0	0	0	0	0	0	1	784	1194	42	3		3	APOA5	11	116661354	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	24047317	116661354	18345162	114	25634										
SRPR	6734	broad.mit.edu	37	chr11	126134415	126134415	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gccgtgtccaccagcaccacGtcaaagccttggttacgtgc	10	15	1	0	rs149426729		TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr11:126134415G>T	uc001qdh.2	-	12	1596	c.1545C>A	c.(1543-1545)GAC>GAA	p.D515E	SRPR_uc010sbm.1_Missense_Mutation_p.D487E	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	515					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		CCAGCACCACGTCAAAGCCTT	0.507													3	84	---	---	---	---	PASS	T	126134415	T	T	126134415	3	4	65	1	0	0	0	0	1	0	0	0	15161	1136	40	1	383	1	SRPR	11	126134415	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	9473061	126134415	8872101	115	25635										
CACNA2D4	93589	broad.mit.edu	37	chr12	1902853	1902853	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ttggggcagtagcccccaggCacacacaggcagcaggagta	14	12	0	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr12:1902853C>T	uc001qjp.2	-	38	3613	c.3382G>A	c.(3382-3384)GCC>ACC	p.A1128T	CACNA2D4_uc001qjo.2_Silent_p.V272V	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	1128	Helical; (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		AGCCCCCAGGCACACACAGGC	0.637													4	64	---	---	---	---	PASS	T	1902853	T	T	1902853	3	4	65	1	0	0	0	0	1	0	0	0	2551	710	25	3	35	3	CACNA2D4	12	1902853	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		1902853	131949042	116	25636										
CLSTN3	9746	broad.mit.edu	37	chr12	7303566	7303566	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	accgggttgcccaccccagcCacgtgctcagctcccagcag	10	19	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr12:7303566C>G	uc001qsr.2	+	16	2712	c.2434C>G	c.(2434-2436)CAC>GAC	p.H812D	CLSTN3_uc001qss.2_Missense_Mutation_p.H824D	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	812	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						CCACCCCAGCCACGTGCTCAG	0.632													13	78	---	---	---	---	PASS	G	7303566	G	G	7303566	3	3	65	1	0	0	0	0	1	0	0	0	3563	594	21	4	2496	4	CLSTN3	12	7303566	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	5400713	7303566	126548329	117	25637										
CLEC9A	283420	broad.mit.edu	37	chr12	10217439	10217439	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tttggcaagatggctcctctCcttctcctggcctgtaagtc	9	13	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr12:10217439C>T	uc001qxa.2	+	8	1193	c.580C>T	c.(580-582)CCT>TCT	p.P194S		NM_207345	NP_997228	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	194	Extracellular (Potential).|C-type lectin.				positive regulation of cytokine secretion|receptor-mediated endocytosis	cell surface|integral to membrane	receptor activity|sugar binding			ovary(1)	1						TGGCTCCTCTCCTTCTCCTGG	0.453													17	158	---	---	---	---	PASS	T	10217439	T	T	10217439	3	4	65	1	0	0	0	0	1	0	0	0	3522	855	30	2	598	2	CLEC9A	12	10217439	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	2913873	10217439	123634456	118	25638										
NELL2	4753	broad.mit.edu	37	chr12	45209854	45209854	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	caaaatagtaaattcatgttTatttctcagcttctgaaaaa	4	6	3	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr12:45209854T>C	uc001rog.2	-	3	845	c.250A>G	c.(250-252)AAA>GAA	p.K84E	NELL2_uc001rof.3_Missense_Mutation_p.K83E|NELL2_uc001roh.2_Missense_Mutation_p.K84E|NELL2_uc009zkd.2_Missense_Mutation_p.K83E|NELL2_uc010skz.1_Missense_Mutation_p.K134E|NELL2_uc010sla.1_Missense_Mutation_p.K107E|NELL2_uc001roi.1_Missense_Mutation_p.K84E|NELL2_uc010slb.1_Missense_Mutation_p.K83E|NELL2_uc001roj.2_Missense_Mutation_p.K84E	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	84	TSP N-terminal.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		AATTCATGTTTATTTCTCAGC	0.353													44	264	---	---	---	---	PASS	C	45209854	C	C	45209854	3	2	65	1	0	0	0	0	1	0	0	0	10334	1763	61	5	2272	5	NELL2	12	45209854	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	34992415	45209854	88642041	119	25639										
DDN	23109	broad.mit.edu	37	chr12	49391375	49391375	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cggcgggtcgccttccaaccCtccagggtctccggtcctgc	12	18	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr12:49391375C>T	uc001rsv.1	-	2	1302	c.1284G>A	c.(1282-1284)GAG>GAA	p.E428E	uc001rsw.2_5'Flank	NM_015086	NP_055901	O94850	DEND_HUMAN	dendrin	428	Interaction with CD2AP and NPHS1 (By similarity).|Interaction with ACTN1.					dendritic spine membrane|endoplasmic reticulum membrane|nucleus|perikaryon				large_intestine(1)	1						CCTTCCAACCCTCCAGGGTCT	0.667													23	101	---	---	---	---	PASS	T	49391375	T	T	49391375	2	4	65	1	0	0	0	0	0	0	0	1	4333	680	24	3		3	DDN	12	49391375	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	4181521	49391375	84460520	120	25640										
DCN	1634	broad.mit.edu	37	chr12	91546946	91546946	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gttgccatcaagatgtaattCcgtaagggaaggaggaagac	13	6	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr12:91546946C>T	uc001tbs.2	-	5	767	c.673G>A	c.(673-675)GAA>AAA	p.E225K	DCN_uc001tbo.2_Missense_Mutation_p.E116K|DCN_uc001tbp.2_Missense_Mutation_p.E78K|DCN_uc001tbq.2_Intron|DCN_uc001tbr.2_Intron|DCN_uc001tbt.2_Missense_Mutation_p.E225K|DCN_uc001tbu.2_Missense_Mutation_p.E225K	NM_133503	NP_598010	P07585	PGS2_HUMAN	decorin isoform a preproprotein	225	LRR 7.				organ morphogenesis	extracellular space				central_nervous_system(2)|ovary(1)|lung(1)	4						AGATGTAATTCCGTAAGGGAA	0.343													11	147	---	---	---	---	PASS	T	91546946	T	T	91546946	3	4	65	1	0	0	0	0	1	0	0	0	4297	864	30	2	418	2	DCN	12	91546946	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	42155571	91546946	42304949	121	25641										
SLC5A8	160728	broad.mit.edu	37	chr12	101603402	101603402	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccaaaacggtagacctcggaGggggtgcccaggacagtgac	15	11	0	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr12:101603402G>T	uc001thz.3	-	1	615	c.225C>A	c.(223-225)CCC>CCA	p.P75P		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	75	Extracellular (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						AGACCTCGGAGGGGGTGCCCA	0.592													8	62	---	---	---	---	PASS	T	101603402	T	T	101603402	2	4	65	1	0	0	0	0	0	0	0	1	14671	987	35	3		3	SLC5A8	12	101603402	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	10056456	101603402	32248493	122	25642										
POLR3B	55703	broad.mit.edu	37	chr12	106890610	106890610	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tacggcactgcgtttggaggCagtaaagtgaaggatgtgtg	16	5	0	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr12:106890610C>T	uc001tlp.2	+	25	3120	c.2898C>T	c.(2896-2898)GGC>GGT	p.G966G	POLR3B_uc001tlq.2_Silent_p.G908G	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	966					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						CGTTTGGAGGCAGTAAAGTGA	0.522													11	99	---	---	---	---	PASS	T	106890610	T	T	106890610	2	4	65	1	0	0	0	0	0	0	0	1	12229	697	25	3		3	POLR3B	12	106890610	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	5287208	106890610	26961285	123	25643										
UBE3B	89910	broad.mit.edu	37	chr12	109921676	109921676	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tcttttctaggagagagattGatgacttttttaaagcagat	9	4	2	5			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr12:109921676G>A	uc001top.2	+	4	775	c.172G>A	c.(172-174)GAT>AAT	p.D58N	UBE3B_uc001toq.2_Missense_Mutation_p.D58N|UBE3B_uc001tol.1_Missense_Mutation_p.D58N|UBE3B_uc001tom.2_Missense_Mutation_p.D58N|UBE3B_uc001ton.2_Missense_Mutation_p.D58N|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.D58N|UBE3B_uc001tor.2_Missense_Mutation_p.D58N	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	58	IQ.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						GAGAGAGATTGATGACTTTTT	0.353													26	203	---	---	---	---	PASS	A	109921676	A	A	109921676	3	1	65	1	0	0	0	0	1	0	0	0	16877	1290	45	2	178	2	UBE3B	12	109921676	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	3031066	109921676	23930219	124	25644										
TMEM132D	121256	broad.mit.edu	37	chr12	129559349	129559349	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aaatttaactttgatgtttgCcgttccaacagctaacacac	5	10	0	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr12:129559349C>T	uc009zyl.1	-	9	2699	c.2371G>A	c.(2371-2373)GCA>ACA	p.A791T	TMEM132D_uc001uia.2_Missense_Mutation_p.A329T	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	791	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TTGATGTTTGCCGTTCCAACA	0.478													5	240	---	---	---	---	PASS	T	129559349	T	T	129559349	3	4	65	1	0	0	0	0	1	0	0	0	16044	739	26	3	932	3	TMEM132D	12	129559349	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	19637673	129559349	4292546	125	25645										
PABPC3	5042	broad.mit.edu	37	chr13	25671432	25671432	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccacaaagccattgtatgtaGctttagctcagcgcaaagaa	8	10	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr13:25671432G>T	uc001upy.2	+	1	1157	c.1096G>T	c.(1096-1098)GCT>TCT	p.A366S		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	366	RRM 4.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		ATTGTATGTAGCTTTAGCTCA	0.483													14	119	---	---	---	---	PASS	T	25671432	T	T	25671432	3	4	65	1	0	0	0	0	1	0	0	0	11365	971	34	3	1098	3	PABPC3	13	25671432	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08		25671432	89498446	126	25646										
FAM123A	219287	broad.mit.edu	37	chr13	25744058	25744058	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccttccctccaggaagggttGctggacttccgtccgggtca	12	14	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr13:25744058G>T	uc001uqb.2	-	1	1800	c.1700C>A	c.(1699-1701)GCA>GAA	p.A567E	FAM123A_uc001uqa.2_Missense_Mutation_p.A448E|FAM123A_uc001uqc.2_Missense_Mutation_p.A448E	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	567										ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		AGGAAGGGTTGCTGGACTTCC	0.617													8	140	---	---	---	---	PASS	T	25744058	T	T	25744058	3	4	65	1	0	0	0	0	1	0	0	0	5422	1319	46	3	319	3	FAM123A	13	25744058	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	72626	25744058	89425820	127	25647										
FLT1	2321	broad.mit.edu	37	chr13	28919626	28919626	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ggttaataggagccagaagaGagtcgcagccacacaggtgc	14	9	0	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr13:28919626G>T	uc001usb.3	-	16	2596	c.2311C>A	c.(2311-2313)CTC>ATC	p.L771I	FLT1_uc001usa.3_5'UTR	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	771	Helical; (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)	AGCCAGAAGAGAGTCGCAGCC	0.413													5	60	---	---	---	---	PASS	T	28919626	T	T	28919626	3	4	65	1	0	0	0	0	1	0	0	0	5941	942	33	2	1765	2	FLT1	13	28919626	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	3175568	28919626	86250252	128	25648										
C13orf36	400120	broad.mit.edu	37	chr13	37269448	37269448	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ctccagttcctcctacccagAgtatccaagcgacgctggaa	8	15	0	1	rs17853664		TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr13:37269448A>T	uc001uvt.3	+	2	679	c.233A>T	c.(232-234)GAG>GTG	p.E78V		NM_203451	NP_982276	A2A2V5	CM036_HUMAN	hypothetical protein LOC400120	78				E -> G (in Ref. 3; AAH36540).		integral to membrane				skin(1)	1						TCCTACCCAGAGTATCCAAGC	0.453													12	207	---	---	---	---	PASS	T	37269448	T	T	37269448	3	4	65	1	0	0	0	0	1	0	0	0	1730	304	11	5	235	5	C13orf36	13	37269448	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08	8349822	37269448	77900430	129	25649										
ENOX1	55068	broad.mit.edu	37	chr13	43934113	43934113	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gacttcttgaataatttcctCagtagcattttctggtaatc	6	8	3	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr13:43934113C>T	uc001uza.3	-	7	763	c.463G>A	c.(463-465)GAG>AAG	p.E155K	ENOX1_uc001uzb.3_Missense_Mutation_p.E155K|ENOX1_uc001uzc.3_Missense_Mutation_p.E155K|ENOX1_uc010tfm.1_5'UTR	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	155	RRM.				electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		ATAATTTCCTCAGTAGCATTT	0.403													6	160	---	---	---	---	PASS	T	43934113	T	T	43934113	3	4	65	1	0	0	0	0	1	0	0	0	5126	835	29	2	1512	2	ENOX1	13	43934113	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	6664665	43934113	71235765	130	25650										
PCDH17	27253	broad.mit.edu	37	chr13	58209085	58209085	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	catgtacttcgactaccagaCccgcctgcccctcagctcgc	7	19	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr13:58209085C>A	uc001vhq.1	+	1	3297	c.2405C>A	c.(2404-2406)ACC>AAC	p.T802N	PCDH17_uc010aec.1_Missense_Mutation_p.T802N	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	802	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GACTACCAGACCCGCCTGCCC	0.642													3	27	---	---	---	---	PASS	A	58209085	A	A	58209085	3	1	65	1	0	0	0	0	1	0	0	0	11512	507	18	3	2407	3	PCDH17	13	58209085	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	14274972	58209085	56960793	131	25651										
DIAPH3	81624	broad.mit.edu	37	chr13	60590068	60590068	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tgcgtattcatcagggctttTagacactgtatgactttatg	9	7	2	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr13:60590068T>C	uc001vht.2	-	7	969	c.750A>G	c.(748-750)CTA>CTG	p.L250L	DIAPH3_uc001vhu.2_5'Flank|DIAPH3_uc001vhw.1_Silent_p.L239L|DIAPH3_uc010aed.1_Silent_p.L204L|DIAPH3_uc010aee.1_Silent_p.L180L|uc001vhx.2_Intron|uc001vhy.2_Intron	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	250	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		TCAGGGCTTTTAGACACTGTA	0.308													4	93	---	---	---	---	PASS	C	60590068	C	C	60590068	2	2	65	1	0	0	0	0	0	0	0	1	4520	1741	61	5		5	DIAPH3	13	60590068	Silent	SNP	T	TCGA-34-2608-01A-02D-1522-08	2380983	60590068	54579810	132	25652										
SLC39A2	29986	broad.mit.edu	37	chr14	21469520	21469520	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tagctctcatgtcccccctgGgcctagccgtagggctggct	12	15	1	0	rs143106894		TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr14:21469520G>T	uc001vyr.2	+	4	899	c.712G>T	c.(712-714)GGC>TGC	p.G238C	SLC39A2_uc001vys.2_Missense_Mutation_p.G139C	NM_014579	NP_055394	Q9NP94	S39A2_HUMAN	solute carrier family 39 (zinc transporter),	238	Helical; (Potential).					cytoplasmic membrane-bounded vesicle|integral to plasma membrane	zinc ion transmembrane transporter activity			ovary(2)|central_nervous_system(1)	3	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0187)		GTCCCCCCTGGGCCTAGCCGT	0.567													26	144	---	---	---	---	PASS	T	21469520	T	T	21469520	3	4	65	1	0	0	0	0	1	0	0	0	14618	1232	43	3	726	3	SLC39A2	14	21469520	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08		21469520	85880020	133	25653										
FUT8	2530	broad.mit.edu	37	chr14	66028290	66028290	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gaaaatctgaaaatgcggccAtggactggttcctggcgttg	13	8	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr14:66028290A>G	uc001xin.2	+	3	1206	c.9A>G	c.(7-9)CCA>CCG	p.P3P	FUT8_uc001xio.2_Silent_p.P3P|FUT8_uc010tsp.1_Intron|FUT8_uc001xir.3_RNA|FUT8_uc001xip.2_Silent_p.P3P|FUT8_uc001xiq.2_Intron	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a	3	Cytoplasmic (Potential).				in utero embryonic development|L-fucose catabolic process|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in Golgi|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	glycoprotein 6-alpha-L-fucosyltransferase activity|SH3 domain binding			ovary(1)	1				all cancers(60;0.00109)|OV - Ovarian serous cystadenocarcinoma(108;0.00242)|BRCA - Breast invasive adenocarcinoma(234;0.0114)		AAATGCGGCCATGGACTGGTT	0.443													31	245	---	---	---	---	PASS	G	66028290	G	G	66028290	2	3	65	1	0	0	0	0	0	0	0	1	6110	204	8	5		5	FUT8	14	66028290	Silent	SNP	A	TCGA-34-2608-01A-02D-1522-08	44558770	66028290	41321250	134	25654										
ZNF410	57862	broad.mit.edu	37	chr14	74390097	74390097	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	catttttctgttgcttcacaGaggtgcttgctgaaggatcc	10	9	2	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr14:74390097G>C	uc001xoz.1	+	11	1453	c.1271_splice	c.e11-1	p.E424_splice	ZNF410_uc001xoy.1_Splice_Site|ZNF410_uc010tuf.1_Splice_Site|ZNF410_uc010tug.1_Splice_Site_p.E155_splice|ZNF410_uc010tuh.1_Splice_Site_p.E351_splice|ZNF410_uc010tui.1_Splice_Site|ZNF410_uc010arz.1_Splice_Site_p.E441_splice|ZNF410_uc001xpa.1_Splice_Site_p.E228_splice|ZNF410_uc001xpb.1_Splice_Site_p.E377_splice|ZNF410_uc001xpc.1_Splice_Site_p.E371_splice|ZNF410_uc010tuj.1_Splice_Site_p.E228_splice	NM_021188	NP_067011	Q86VK4	ZN410_HUMAN	zinc finger protein 410						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00369)		TTGCTTCACAGAGGTGCTTGC	0.438													10	147	---	---	---	---	PASS	C	74390097	C	C	74390097	5	2	65	1	0	0	0	0	0	0	1	0	17887	956	33	2	1308	2	ZNF410	14	74390097	Splice_Site	SNP	G	TCGA-34-2608-01A-02D-1522-08	8361807	74390097	32959443	135	25655										
C14orf166B	145497	broad.mit.edu	37	chr14	77302627	77302627	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gtcttgagcctggtggagatGctacaagagaactactacct	11	9	1	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr14:77302627G>A	uc001xsx.2	+	4	582	c.468G>A	c.(466-468)ATG>ATA	p.M156I	C14orf166B_uc010asn.1_5'UTR|C14orf166B_uc001xsw.2_RNA|C14orf166B_uc010aso.1_RNA|C14orf166B_uc010tvg.1_RNA|C14orf166B_uc010tvh.1_RNA	NM_194287	NP_919263	Q0VAA2	CN16B_HUMAN	hypothetical protein LOC145497	156											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0306)		TGGTGGAGATGCTACAAGAGA	0.552													10	43	---	---	---	---	PASS	A	77302627	A	A	77302627	3	1	65	1	0	0	0	0	1	0	0	0	1757	1319	46	3	482	3	C14orf166B	14	77302627	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	2912530	77302627	30046913	136	25656										
KIF26A	26153	broad.mit.edu	37	chr14	104641909	104641909	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gaccagagagaggacagcagCgcttggcctgagctgctggt	16	10	0	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr14:104641909C>T	uc001yos.3	+	12	2784	c.2784C>T	c.(2782-2784)AGC>AGT	p.S928S		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	928					blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		AGGACAGCAGCGCTTGGCCTG	0.657													7	34	---	---	---	---	PASS	T	104641909	T	T	104641909	2	4	65	1	0	0	0	0	0	0	0	1	8294	767	27	1		1	KIF26A	14	104641909	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	27339282	104641909	2707631	137	25657										
RYR3	6263	broad.mit.edu	37	chr15	33993204	33993204	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cgtcgatgaggggatccaccCcgctggatgtggcagcttcc	14	13	0	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr15:33993204C>A	uc001zhi.2	+	42	6476	c.6406C>A	c.(6406-6408)CCG>ACG	p.P2136T	RYR3_uc010bar.2_Missense_Mutation_p.P2136T	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2136	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGGATCCACCCCGCTGGATGT	0.572											OREG0023030	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	13	---	---	---	---	PASS	A	33993204	A	A	33993204	3	1	65	1	0	0	0	0	1	0	0	0	13770	623	22	3	6572	3	RYR3	15	33993204	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		33993204	68538188	138	25658										
SLC12A6	9990	broad.mit.edu	37	chr15	34531356	34531356	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tctgcctccattaggtgcttTatggtctgaaagagacacag	10	9	2	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr15:34531356T>C	uc001zhw.2	-	19	2606	c.2442A>G	c.(2440-2442)ATA>ATG	p.I814M	SLC12A6_uc001zhv.2_Missense_Mutation_p.I763M|SLC12A6_uc001zhx.2_Missense_Mutation_p.I799M|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.I755M|SLC12A6_uc001zib.2_Missense_Mutation_p.I805M|SLC12A6_uc001zic.2_Missense_Mutation_p.I814M|SLC12A6_uc010bau.2_Missense_Mutation_p.I814M|SLC12A6_uc001zid.2_Missense_Mutation_p.I755M|SLC12A6_uc001zht.2_RNA|SLC12A6_uc001zhu.2_Missense_Mutation_p.I626M	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	814					angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	TTAGGTGCTTTATGGTCTGAA	0.498													38	237	---	---	---	---	PASS	C	34531356	C	C	34531356	3	2	65	1	0	0	0	0	1	0	0	0	14387	1744	61	5	1038	5	SLC12A6	15	34531356	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	538152	34531356	68000036	139	25659										
WDR72	256764	broad.mit.edu	37	chr15	53907738	53907738	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	caaagaatcacaattattttCcaatcctcttggaattccaa	3	10	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr15:53907738C>A	uc002acj.2	-	15	2707	c.2665G>T	c.(2665-2667)GAA>TAA	p.E889*	WDR72_uc010bfi.1_Nonsense_Mutation_p.E889*	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	889										lung(1)|skin(1)	2				all cancers(107;0.0511)		CAATTATTTTCCAATCCTCTT	0.328													12	125	---	---	---	---	PASS	A	53907738	A	A	53907738	4	1	65	1	0	0	0	0	0	1	0	0	17319	864	30	2	667	2	WDR72	15	53907738	Nonsense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	19376382	53907738	48623654	140	25660										
TLN2	83660	broad.mit.edu	37	chr15	63046061	63046061	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cagtttgccagggctaaccaGgccatccagatggcatgcca	11	13	0	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr15:63046061G>T	uc002alb.3	+	33	4422	c.4422G>T	c.(4420-4422)CAG>CAT	p.Q1474H	TLN2_uc002alc.3_Translation_Start_Site	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1474					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GGGCTAACCAGGCCATCCAGA	0.567													17	135	---	---	---	---	PASS	T	63046061	T	T	63046061	3	4	65	1	0	0	0	0	1	0	0	0	15945	991	35	3	4552	3	TLN2	15	63046061	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	9138323	63046061	39485331	141	25661										
IREB2	3658	broad.mit.edu	37	chr15	78783002	78783002	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	caggctattgaaaatgcccaTgtcttattatatttgggaga	9	6	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr15:78783002T>C	uc002bdr.2	+	18	2385	c.2223T>C	c.(2221-2223)CAT>CAC	p.H741H	IREB2_uc010unb.1_Silent_p.H491H	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	741							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		AAAATGCCCATGTCTTATTAT	0.383													70	359	---	---	---	---	PASS	C	78783002	C	C	78783002	2	2	65	1	0	0	0	0	0	0	0	1	7826	1461	51	5		5	IREB2	15	78783002	Silent	SNP	T	TCGA-34-2608-01A-02D-1522-08	15736941	78783002	23748390	142	25662										
TMC3	342125	broad.mit.edu	37	chr15	81637158	81637158	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tgtggactctgagtgtggagGctagtcttgttggcctttat	14	6	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr15:81637158G>T	uc002bgo.1	-	13	1467	c.1467C>A	c.(1465-1467)AGC>AGA	p.S489R	TMC3_uc010blr.1_RNA|TMC3_uc002bgp.2_Missense_Mutation_p.S489R	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	489	Cytoplasmic (Potential).					integral to membrane				ovary(1)|liver(1)	2						GAGTGTGGAGGCTAGTCTTGT	0.413													13	64	---	---	---	---	PASS	T	81637158	T	T	81637158	3	4	65	1	0	0	0	0	1	0	0	0	15983	1194	42	3	1875	3	TMC3	15	81637158	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	2854156	81637158	20894234	143	25663										
C15orf42	90381	broad.mit.edu	37	chr15	90168052	90168052	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gaagtcttctctgtctcaccCtgggattcccccatctcctc	6	17	4	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr15:90168052C>A	uc002boe.2	+	20	4511	c.4511C>A	c.(4510-4512)CCT>CAT	p.P1504H	C15orf42_uc010upv.1_RNA	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1504					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			CTGTCTCACCCTGGGATTCCC	0.552													4	176	---	---	---	---	PASS	A	90168052	A	A	90168052	3	1	65	1	0	0	0	0	1	0	0	0	1796	681	24	3	4589	3	C15orf42	15	90168052	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	8530894	90168052	12363340	144	25664										
PIGQ	9091	broad.mit.edu	37	chr16	632882	632882	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccgctgcccttgtccttccaGataaacccactgccctacag	6	18	0	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr16:632882G>T	uc002cho.2	+	10	1634	c.1532_splice	c.e10-1	p.D511_splice	PIGQ_uc010bqw.2_Splice_Site_p.I532_splice|PIGQ_uc002chn.2_Splice_Site_p.I532_splice|PIGQ_uc010uui.1_Splice_Site|PIGQ_uc002chp.2_Splice_Site_p.D81_splice|uc010uuj.1_3'UTR	NM_148920	NP_683721	Q9BRB3	PIGQ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,						C-terminal protein lipidation|carbohydrate metabolic process|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity			central_nervous_system(1)	1		Hepatocellular(780;0.00335)				TGTCCTTCCAGATAAACCCAC	0.667													35	252	---	---	---	---	PASS	T	632882	T	T	632882	5	4	65	1	0	0	0	0	0	0	1	0	11896	956	33	2	1631	2	PIGQ	16	632882	Splice_Site	SNP	G	TCGA-34-2608-01A-02D-1522-08		632882	89721871	145	25665										
PDPK1	5170	broad.mit.edu	37	chr16	2636802	2636802	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aacatagagcagtacattcaCgatctggactcgaactcctt	7	11	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr16:2636802C>T	uc002cqs.2	+	11	1395	c.1251C>T	c.(1249-1251)CAC>CAT	p.H417H	PDPK1_uc002cqt.2_Silent_p.H290H|PDPK1_uc010bsn.2_Silent_p.H417H|PDPK1_uc002cqu.2_Silent_p.H390H	NM_002613	NP_002604	O15530	PDPK1_HUMAN	3-phosphoinositide dependent protein kinase-1	417					actin cytoskeleton organization|activation of protein kinase B activity|insulin receptor signaling pathway|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|peptidyl-threonine phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|synaptic transmission|T cell costimulation|T cell receptor signaling pathway	cytosol|nucleoplasm|plasma membrane	3-phosphoinositide-dependent protein kinase activity|ATP binding			central_nervous_system(2)|ovary(1)	3		Ovarian(90;0.17)			Celecoxib(DB00482)	AGTACATTCACGATCTGGACT	0.542													17	273	---	---	---	---	PASS	T	2636802	T	T	2636802	2	4	65	1	0	0	0	0	0	0	0	1	11687	535	19	1		1	PDPK1	16	2636802	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	2003920	2636802	87717951	146	25666										
ANKS3	124401	broad.mit.edu	37	chr16	4747368	4747368	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cggtcctccagggctcccgaGagctcggggaggctcatggc	16	14	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr16:4747368G>A	uc002cxj.1	-	16	2155	c.1860C>T	c.(1858-1860)CTC>CTT	p.L620L	ANKS3_uc010uxr.1_Silent_p.L143L|ANKS3_uc002cxh.1_RNA|ANKS3_uc002cxi.1_Silent_p.L547L|ANKS3_uc002cxk.2_Silent_p.L491L|ANKS3_uc002cxl.2_Silent_p.L447L|ANKS3_uc010uxs.1_Silent_p.L547L	NM_133450	NP_597707	Q6ZW76	ANKS3_HUMAN	ankyrin repeat and sterile alpha motif domain	620											0						GGGCTCCCGAGAGCTCGGGGA	0.652													15	111	---	---	---	---	PASS	A	4747368	A	A	4747368	2	1	65	1	0	0	0	0	0	0	0	1	690	929	33	2		2	ANKS3	16	4747368	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	2110566	4747368	85607385	147	25667										
A2BP1	54715	broad.mit.edu	37	chr16	7726840	7726840	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tgccgctgcctacagtgacaGgtaagggtcatccttcttgt	11	11	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr16:7726840G>T	uc002cys.2	+	14	1983	c.995G>T	c.(994-996)AGT>ATT	p.S332I	A2BP1_uc002cyt.2_Missense_Mutation_p.S305I|A2BP1_uc010uxz.1_Missense_Mutation_p.S375I|A2BP1_uc010uya.1_Missense_Mutation_p.R289I|A2BP1_uc010uyb.1_Missense_Mutation_p.S332I|A2BP1_uc002cyw.2_Missense_Mutation_p.R353I|A2BP1_uc002cyy.2_Missense_Mutation_p.S353I|A2BP1_uc002cyx.2_Missense_Mutation_p.S353I|A2BP1_uc010uyc.1_Missense_Mutation_p.S326I	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	332					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		TACAGTGACAGGTAAGGGTCA	0.478													5	124	---	---	---	---	PASS	T	7726840	T	T	7726840	3	4	65	1	0	0	0	0	1	0	0	0	3	1014	35	3	1175	3	A2BP1	16	7726840	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	2979472	7726840	82627913	148	25668										
PAPD5	64282	broad.mit.edu	37	chr16	50258853	50258853	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gaagttgccacatatagagaTtggatatcaaagcagtgggg	13	5	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr16:50258853T>A	uc010vgo.1	+	10	1550	c.1515T>A	c.(1513-1515)GAT>GAA	p.D505E	PAPD5_uc010cbi.2_RNA|PAPD5_uc002efz.2_Missense_Mutation_p.D296E|PAPD5_uc002ega.2_Missense_Mutation_p.D296E	NM_001040284	NP_001035374	Q8NDF8	PAPD5_HUMAN	PAP associated domain containing 5 isoform a	426					cell division|DNA replication|histone mRNA catabolic process|mitosis	cytoplasm|nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding				0		all_cancers(37;0.0452)		BRCA - Breast invasive adenocarcinoma(181;0.0843)|GBM - Glioblastoma multiforme(240;0.231)		CATATAGAGATTGGATATCAA	0.383													28	246	---	---	---	---	PASS	A	50258853	A	A	50258853	3	1	65	1	0	0	0	0	1	0	0	0	11425	1490	52	5	1553	5	PAPD5	16	50258853	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	42532013	50258853	40095900	149	25669										
CDH8	1006	broad.mit.edu	37	chr16	61858915	61858915	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cagtgcaggaaattaacttaCtctgtgcaaattttggagga	10	6	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr16:61858915C>T	uc002eog.1	-	5	1087	c.835_splice	c.e5+1	p.S279_splice	CDH8_uc002eoh.2_Splice_Site_p.S48_splice	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		AATTAACTTACTCTGTGCAAA	0.353													8	100	---	---	---	---	PASS	T	61858915	T	T	61858915	5	4	65	1	0	0	0	0	0	0	1	0	3116	579	20	3	1595	3	CDH8	16	61858915	Splice_Site	SNP	C	TCGA-34-2608-01A-02D-1522-08	11600062	61858915	28495838	150	25670										
FHOD1	29109	broad.mit.edu	37	chr16	67281231	67281231	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gaaagttggcacatgcgaagGggtcggtgtcttccaggtac	15	8	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr16:67281231G>C	uc002esl.2	-	1	195	c.83C>G	c.(82-84)CCC>CGC	p.P28R	FHOD1_uc010ced.2_5'UTR|FHOD1_uc010vjh.1_5'UTR|SLC9A5_uc002esm.2_5'Flank|SLC9A5_uc010cee.2_5'Flank|SLC9A5_uc010vji.1_5'Flank	NM_013241	NP_037373	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	28					actin cytoskeleton organization	cytoplasm|cytoskeleton|nucleus	actin binding			breast(2)|ovary(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		ACATGCGAAGGGGTCGGTGTC	0.716													4	47	---	---	---	---	PASS	C	67281231	C	C	67281231	3	2	65	1	0	0	0	0	1	0	0	0	5882	1232	43	4	3499	4	FHOD1	16	67281231	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	5422316	67281231	23073522	151	25671										
ATMIN	23300	broad.mit.edu	37	chr16	81077572	81077572	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tttccagtcaggtggggtctCcagagaaactcaaaccagtg	11	10	3	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr16:81077572C>G	uc002ffz.1	+	4	1487	c.1469C>G	c.(1468-1470)TCC>TGC	p.S490C	ATMIN_uc002fga.2_Missense_Mutation_p.S332C|ATMIN_uc010vnn.1_Missense_Mutation_p.S261C|ATMIN_uc002fgb.1_Missense_Mutation_p.S332C	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	490					response to DNA damage stimulus	nucleus	zinc ion binding				0						GGTGGGGTCTCCAGAGAAACT	0.458													31	185	---	---	---	---	PASS	G	81077572	G	G	81077572	3	3	65	1	0	0	0	0	1	0	0	0	1110	855	30	2	1483	2	ATMIN	16	81077572	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	13796341	81077572	9277181	152	25672										
TP53	7157	broad.mit.edu	37	chr17	7578457	7578457	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gcttgtagatggccatggcgCggacgcgggtgccgggcggg	21	10	0	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr17:7578457C>A	uc002gim.2	-	5	667	c.473G>T	c.(472-474)CGC>CTC	p.R158L	TP53_uc002gig.1_Missense_Mutation_p.R158L|TP53_uc002gih.2_Missense_Mutation_p.R158L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R26L|TP53_uc010cng.1_Missense_Mutation_p.R26L|TP53_uc002gii.1_Missense_Mutation_p.R26L|TP53_uc010cnh.1_Missense_Mutation_p.R158L|TP53_uc010cni.1_Missense_Mutation_p.R158L|TP53_uc002gij.2_Missense_Mutation_p.R158L|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R65L|TP53_uc002gio.2_Missense_Mutation_p.R26L|TP53_uc010vug.1_Missense_Mutation_p.R119L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	158	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> F (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> Y (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.R158H(58)|p.R158L(55)|p.R158C(17)|p.R158G(10)|p.R158P(9)|p.0?(7)|p.R158R(6)|p.R158fs*12(5)|p.R158_A159insX(4)|p.R158_A159delRA(2)|p.R156_I162delRVRAMAI(2)|p.V157fs*9(2)|p.P153fs*22(2)|p.R158fs*11(2)|p.V157fs*22(2)|p.V157_C176del20(1)|p.R156_A161delRVRAMA(1)|p.R158F(1)|p.P151_V173del23(1)|p.R158fs*24(1)|p.R65L(1)|p.R156_R158delRVR(1)|p.R156fs*18(1)|p.R156_A161del(1)|p.R158_A159insXX(1)|p.V157_M160delVRAM(1)|p.V157_R158delVR(1)|p.S149fs*72(1)|p.A159fs*21(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.R156fs*20(1)|p.V157_I162delVRAMAI(1)|p.R26L(1)|p.V157fs*21(1)|p.R158fs*8(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)		GGCCATGGCGCGGACGCGGGT	0.627		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)			12	93	---	---	---	---	PASS	A	7578457	A	A	7578457	3	1	65	1	0	0	0	0	1	0	0	0	16378	768	27	1	825	1	TP53	17	7578457	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		7578457	73616753	153	25673										
SSH2	85464	broad.mit.edu	37	chr17	27959688	27959688	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccctgagtctttggctagttCaggctgggctgtgcaggagt	15	9	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr17:27959688C>G	uc002heo.1	-	15	2443	c.2443G>C	c.(2443-2445)GAA>CAA	p.E815Q	SSH2_uc010wbh.1_Missense_Mutation_p.E842Q	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	815					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TTGGCTAGTTCAGGCTGGGCT	0.537													34	232	---	---	---	---	PASS	G	27959688	G	G	27959688	3	3	65	1	0	0	0	0	1	0	0	0	15184	835	29	2	1832	2	SSH2	17	27959688	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	20381231	27959688	53235522	154	25674										
LIG3	3980	broad.mit.edu	37	chr17	33310101	33310101	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	agaactgtgcctattccgaaAacatcactggcgtgatgtaa	9	9	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr17:33310101A>G	uc002hik.1	+	2	185	c.77A>G	c.(76-78)AAA>AGA	p.K26R	LIG3_uc002hii.2_Missense_Mutation_p.K26R|LIG3_uc002hij.2_Missense_Mutation_p.K26R|LIG3_uc010cth.1_Missense_Mutation_p.K35R	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	26					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	CTATTCCGAAAACATCACTGG	0.458								Other_BER_factors					17	120	---	---	---	---	PASS	G	33310101	G	G	33310101	3	3	65	1	0	0	0	0	1	0	0	0	8782	14	1	5	79	5	LIG3	17	33310101	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08	5350413	33310101	47885109	155	25675										
PEX12	5193	broad.mit.edu	37	chr17	33904306	33904306	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gggaagaagggggatgaataGaatattcatcctcttctctc	11	7	3	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr17:33904306G>C	uc002hjp.2	-	2	1047	c.431C>G	c.(430-432)TCT>TGT	p.S144C		NM_000286	NP_000277	O00623	PEX12_HUMAN	peroxisomal biogenesis factor 12	144	Cytoplasmic (Potential).				protein import into peroxisome matrix	integral to peroxisomal membrane	protein C-terminus binding|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GGGATGAATAGAATATTCATC	0.453													14	249	---	---	---	---	PASS	C	33904306	C	C	33904306	3	2	65	1	0	0	0	0	1	0	0	0	11740	942	33	2	656	2	PEX12	17	33904306	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	594205	33904306	47290904	156	25676										
KRT28	162605	broad.mit.edu	37	chr17	38953217	38953217	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccagggtctgcagggtgcgcCtcatctcggtgagctggctc	15	13	3	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr17:38953217C>A	uc002hvh.1	-	5	995	c.929G>T	c.(928-930)AGG>ATG	p.R310M		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	310	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				CAGGGTGCGCCTCATCTCGGT	0.622													25	139	---	---	---	---	PASS	A	38953217	A	A	38953217	3	1	65	1	0	0	0	0	1	0	0	0	8465	681	24	3	481	3	KRT28	17	38953217	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	5048911	38953217	42241993	157	25677										
DHX8	1659	broad.mit.edu	37	chr17	41570101	41570101	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gccgagatcgaaaccgagatCgagacagagatagggaacga	14	8	0	4			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr17:41570101C>T	uc002idu.1	+	6	629	c.556C>T	c.(556-558)CGA>TGA	p.R186*	DHX8_uc010wif.1_Nonsense_Mutation_p.R95*|DHX8_uc010wig.1_Nonsense_Mutation_p.R186*	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	186	Arg/Ser-rich (RS domain).					catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding	p.R186Q(1)		ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		aaaccgagatcgagacagaga	0.209													15	117	---	---	---	---	PASS	T	41570101	T	T	41570101	4	4	65	1	0	0	0	0	0	1	0	0	4515	876	31	2	578	2	DHX8	17	41570101	Nonsense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	2616884	41570101	39625109	158	25678										
TBX21	30009	broad.mit.edu	37	chr17	45822501	45822501	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	actctgcccatggaacccggCcctggaggctcagagggacg	14	14	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr17:45822501C>A	uc002ilv.1	+	6	1588	c.1377C>A	c.(1375-1377)GGC>GGA	p.G459G		NM_013351	NP_037483	Q9UL17	TBX21_HUMAN	T-box 21	459					lymphocyte migration|multicellular organismal development|positive regulation of transcription, DNA-dependent|response to virus	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						TGGAACCCGGCCCTGGAGGCT	0.672													7	49	---	---	---	---	PASS	A	45822501	A	A	45822501	2	1	65	1	0	0	0	0	0	0	0	1	15654	726	26	3		3	TBX21	17	45822501	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	4252400	45822501	35372709	159	25679										
SFRS1	6426	broad.mit.edu	37	chr17	56083173	56083173	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ataacctacctcatgagatcTaaacttagtgttatccagtt	5	9	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr17:56083173T>C	uc002ivi.2	-	3	750	c.541A>G	c.(541-543)AGA>GGA	p.R181G	SFRS1_uc002ivj.2_Missense_Mutation_p.R181G	NM_006924	NP_008855	Q07955	SRSF1_HUMAN	splicing factor, arginine/serine-rich 1 isoform	181	RRM 2.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA 5'-splice site recognition|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytoplasm|nuclear speck	nucleotide binding|RNA binding				0		Colorectal(1115;0.0691)		LUAD - Lung adenocarcinoma(1115;0.247)		TCATGAGATCTAAACTTAGTG	0.398													20	163	---	---	---	---	PASS	C	56083173	C	C	56083173	3	2	65	1	0	0	0	0	1	0	0	0	14165	1530	53	5	267	5	SFRS1	17	56083173	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	10260672	56083173	25112037	160	25680										
FADS6	283985	broad.mit.edu	37	chr17	72874468	72874468	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ggcccggcctcattacagccCcacaagctcagtgatgggtg	12	14	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr17:72874468C>T	uc002jmd.1	-	6	1057	c.1045G>A	c.(1045-1047)GGG>AGG	p.G349R	FADS6_uc010wrn.1_Missense_Mutation_p.G203R	NM_178128	NP_835229	Q8N9I5	FADS6_HUMAN	fatty acid desaturase domain family, member 6	355					fatty acid biosynthetic process	integral to membrane	oxidoreductase activity				0	all_lung(278;0.172)|Lung NSC(278;0.207)					CATTACAGCCCCACAAGCTCA	0.647													6	18	---	---	---	---	PASS	T	72874468	T	T	72874468	3	4	65	1	0	0	0	0	1	0	0	0	5368	623	22	3	11	3	FADS6	17	72874468	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	16791295	72874468	8320742	161	25681										
NOTUM	147111	broad.mit.edu	37	chr17	79911086	79911086	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ctgtcatggaggctcctgtcCcagcagtgcagtgctcgggg	15	12	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr17:79911086C>T	uc010wvg.1	-	11	1514	c.1242G>A	c.(1240-1242)TGG>TGA	p.W414*		NM_178493	NP_848588	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog precursor	414						extracellular region	hydrolase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			GGCTCCTGTCCCAGCAGTGCA	0.672													3	31	---	---	---	---	PASS	T	79911086	T	T	79911086	4	4	65	1	0	0	0	0	0	1	0	0	10552	624	22	3	252	3	NOTUM	17	79911086	Nonsense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	7036618	79911086	1284124	162	25682										
PTPRM	5797	broad.mit.edu	37	chr18	7888314	7888314	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ctggaatatatctggagaccCaacacgtacatggaacaggg	11	9	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr18:7888314C>G	uc002knn.3	+	3	910	c.407C>G	c.(406-408)CCA>CGA	p.P136R	PTPRM_uc010dkv.2_Missense_Mutation_p.P136R	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	136	MAM.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				TCTGGAGACCCAACACGTACA	0.438													11	191	---	---	---	---	PASS	G	7888314	G	G	7888314	3	3	65	1	0	0	0	0	1	0	0	0	12806	594	21	4	417	4	PTPRM	18	7888314	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		7888314	70188934	163	25683										
DCC	1630	broad.mit.edu	37	chr18	50432441	50432441	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gaggttcctttcacagacagAatctgtcacagccttcatgg	9	11	4	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr18:50432441A>T	uc002lfe.1	+	3	1027	c.440A>T	c.(439-441)GAA>GTA	p.E147V	DCC_uc010xdr.1_5'UTR	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	147	Extracellular (Potential).|Ig-like C2-type 2.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TCACAGACAGAATCTGTCACA	0.423													12	117	---	---	---	---	PASS	T	50432441	T	T	50432441	3	4	65	1	0	0	0	0	1	0	0	0	4282	246	9	5	450	5	DCC	18	50432441	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08	42544127	50432441	27644807	164	25684										
LMAN1	3998	broad.mit.edu	37	chr18	57000330	57000330	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gaaacaaagttaccatatttCgctgcactaagttatctatg	6	8	1	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr18:57000330C>T	uc002lhz.2	-	11	1399	c.1367G>A	c.(1366-1368)CGA>CAA	p.R456Q		NM_005570	NP_005561	P49257	LMAN1_HUMAN	lectin, mannose-binding, 1 precursor	456	Lumenal (Potential).				blood coagulation|ER to Golgi vesicle-mediated transport|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	mannose binding|metal ion binding|unfolded protein binding			skin(1)	1		Colorectal(73;0.0946)			Antihemophilic Factor(DB00025)	TACCATATTTCGCTGCACTAA	0.383													5	104	---	---	---	---	PASS	T	57000330	T	T	57000330	3	4	65	1	0	0	0	0	1	0	0	0	8836	884	31	2	177	2	LMAN1	18	57000330	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	6567889	57000330	21076918	165	25685										
SHC2	25759	broad.mit.edu	37	chr19	425173	425173	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tgggtgttgacatacaggtgCtcctcgtggtccggggggcc	17	10	0	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr19:425173C>T	uc002loq.3	-	10	1233	c.1233G>A	c.(1231-1233)GAG>GAA	p.E411E	SHC2_uc002lop.3_Silent_p.E152E	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	411	CH1.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CATACAGGTGCTCCTCGTGGT	0.687													12	58	---	---	---	---	PASS	T	425173	T	T	425173	2	4	65	1	0	0	0	0	0	0	0	1	14271	796	28	3		3	SHC2	19	425173	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08		425173	58703810	166	25686										
CYP4F8	11283	broad.mit.edu	37	chr19	15726540	15726540	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ggcccgcatcctggcctggaCctatgccttctatcacaacg	9	16	2	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr19:15726540C>T	uc002nbi.2	+	2	177	c.113C>T	c.(112-114)ACC>ATC	p.T38I	CYP4F8_uc010xoi.1_Missense_Mutation_p.T38I|CYP4F8_uc010xoj.1_5'UTR	NM_007253	NP_009184	P98187	CP4F8_HUMAN	cytochrome P450, family 4, subfamily F,	38					prostaglandin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	alkane 1-monooxygenase activity|aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			large_intestine(1)	1						CTGGCCTGGACCTATGCCTTC	0.677													7	47	---	---	---	---	PASS	T	15726540	T	T	15726540	3	4	65	1	0	0	0	0	1	0	0	0	4191	507	18	3	115	3	CYP4F8	19	15726540	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	15301367	15726540	43402443	167	25687										
ZNF493	284443	broad.mit.edu	37	chr19	21606161	21606161	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gacacaggagagttcatactGgagagaaatcctacaaatat	9	7	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr19:21606161G>A	uc002npx.2	+	2	596	c.316G>A	c.(316-318)GGA>AGA	p.G106R	ZNF493_uc002npw.2_Missense_Mutation_p.G234R|ZNF493_uc002npy.2_Missense_Mutation_p.G106R	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	106					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGTTCATACTGGAGAGAAATC	0.363													6	125	---	---	---	---	PASS	A	21606161	A	A	21606161	3	1	65	1	0	0	0	0	1	0	0	0	17941	1349	47	3	777	3	ZNF493	19	21606161	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	5879621	21606161	37522822	168	25688										
ZNF676	163223	broad.mit.edu	37	chr19	22379425	22379425	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ggaagaccaggtttctgtagTtctctaacatcacattccta	7	10	3	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr19:22379425T>A	uc002nqs.1	-	1	329	c.11A>T	c.(10-12)AAC>ATC	p.N4I		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	4	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				GTTTCTGTAGTTCTCTAACAT	0.343													49	331	---	---	---	---	PASS	A	22379425	A	A	22379425	3	1	65	1	0	0	0	0	1	0	0	0	18080	1725	60	5	1767	5	ZNF676	19	22379425	Missense_Mutation	SNP	T	TCGA-34-2608-01A-02D-1522-08	773264	22379425	36749558	169	25689										
ZNF181	339318	broad.mit.edu	37	chr19	35232076	35232076	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gaattcatacaggagagaagCcctatgaatgtcgtgaatgt	11	6	1	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr19:35232076C>G	uc002nvu.3	+	4	1253	c.790C>G	c.(790-792)CCC>GCC	p.P264A	ZNF181_uc010xsa.1_Missense_Mutation_p.P263A|ZNF181_uc010xsb.1_Missense_Mutation_p.P263A|ZNF181_uc010xsc.1_Missense_Mutation_p.P199A	NM_001029997	NP_001025168	Q2M3W8	ZN181_HUMAN	zinc finger protein 181 isoform 1	264					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			AGGAGAGAAGCCCTATGAATG	0.418													10	245	---	---	---	---	PASS	G	35232076	G	G	35232076	3	3	65	1	0	0	0	0	1	0	0	0	17746	739	26	4	804	4	ZNF181	19	35232076	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	12852651	35232076	23896907	170	25690										
GALP	85569	broad.mit.edu	37	chr19	56688488	56688488	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cctgccttcgatggctcctcCctccgtccccctggtcctcc	7	22	0	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr19:56688488C>A	uc002qmo.1	+	2	93	c.11C>A	c.(10-12)CCC>CAC	p.P4H	GALP_uc010eti.2_Missense_Mutation_p.P4H	NM_033106	NP_149097	Q9UBC7	GALP_HUMAN	galanin-like peptide isoform 1 precursor	4					neuropeptide signaling pathway	extracellular region	hormone activity				0		Colorectal(82;0.000147)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0507)		ATGGCTCCTCCCTCCGTCCCC	0.642													4	36	---	---	---	---	PASS	A	56688488	A	A	56688488	3	1	65	1	0	0	0	0	1	0	0	0	6226	623	22	3	13	3	GALP	19	56688488	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	21456412	56688488	2440495	171	25691										
STK35	140901	broad.mit.edu	37	chr20	2097910	2097910	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ccccaaaaacgcaggacttcCatgtctgaggggatcaagca	10	12	2	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr20:2097910C>A	uc010gak.2	+	3	1491	c.1491C>A	c.(1489-1491)TCC>TCA	p.S497S	STK35_uc010zpu.1_Intron|STK35_uc002wfw.3_Silent_p.S364S	NM_080836	NP_543026	Q8TDR2	STK35_HUMAN	serine/threonine kinase 35	497	Protein kinase.					cytoplasm|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						GCAGGACTTCCATGTCTGAGG	0.507													37	113	---	---	---	---	PASS	A	2097910	A	A	2097910	2	1	65	1	0	0	0	0	0	0	0	1	15300	581	21	3		3	STK35	20	2097910	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08		2097910	60927610	172	25692										
TMC2	117532	broad.mit.edu	37	chr20	2616614	2616614	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tcagtttccaaaagcctttcCcgagctaatgcccagctgag	8	13	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr20:2616614C>G	uc002wgf.1	+	18	2364	c.2349C>G	c.(2347-2349)TCC>TCG	p.S783S	TMC2_uc002wgg.1_Silent_p.S767S	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	783	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						AAAGCCTTTCCCGAGCTAATG	0.458													22	76	---	---	---	---	PASS	G	2616614	G	G	2616614	2	3	65	1	0	0	0	0	0	0	0	1	15982	610	22	4		4	TMC2	20	2616614	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	518704	2616614	60408906	173	25693										
ZNF341	84905	broad.mit.edu	37	chr20	32328784	32328784	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gtccctgatccgacaggccaGagtgtcaatgcgccccctgc	11	16	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr20:32328784G>C	uc002wzy.2	+	2	128	c.108G>C	c.(106-108)CAG>CAC	p.Q36H	ZNF341_uc002wzx.2_Missense_Mutation_p.Q36H|ZNF341_uc010geq.2_Missense_Mutation_p.R12T|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	36					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CGACAGGCCAGAGTGTCAATG	0.547													18	86	---	---	---	---	PASS	C	32328784	C	C	32328784	3	2	65	1	0	0	0	0	1	0	0	0	17854	933	33	2	114	2	ZNF341	20	32328784	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	29712170	32328784	30696736	174	25694										
KCNG1	3755	broad.mit.edu	37	chr20	49626384	49626384	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tgcaggtagcggcgcttgcaGcagccgtccaggtggtcctc	15	13	0	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr20:49626384G>A	uc002xwa.3	-	2	787	c.492C>T	c.(490-492)TGC>TGT	p.C164C	KCNG1_uc002xwb.2_Silent_p.C164C	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	164	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						GGCGCTTGCAGCAGCCGTCCA	0.682													10	83	---	---	---	---	PASS	A	49626384	A	A	49626384	2	1	65	1	0	0	0	0	0	0	0	1	8027	963	34	3		3	KCNG1	20	49626384	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08	17297600	49626384	13399136	175	25695										
CTCFL	140690	broad.mit.edu	37	chr20	56098952	56098952	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cacctgcaccccttcttgctGctgtatgctcagcaagctca	7	16	3	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr20:56098952G>A	uc010gix.1	-	1	972	c.310C>T	c.(310-312)CAG>TAG	p.Q104*	CTCFL_uc010giw.1_Nonsense_Mutation_p.Q104*|CTCFL_uc002xym.2_Nonsense_Mutation_p.Q104*|CTCFL_uc010giz.1_Intron|CTCFL_uc010giy.1_Intron|CTCFL_uc010gja.1_Nonsense_Mutation_p.Q104*|CTCFL_uc010gjb.1_Nonsense_Mutation_p.Q104*|CTCFL_uc010gjc.1_Nonsense_Mutation_p.Q104*|CTCFL_uc010gjd.1_Nonsense_Mutation_p.Q104*|CTCFL_uc010gje.2_Nonsense_Mutation_p.Q104*|CTCFL_uc010gjf.2_Intron|CTCFL_uc010gjg.2_Intron|CTCFL_uc010gjh.1_Nonsense_Mutation_p.Q104*|CTCFL_uc010gji.1_Intron|CTCFL_uc010gjj.1_Nonsense_Mutation_p.Q104*|CTCFL_uc010gjk.1_Nonsense_Mutation_p.Q104*|CTCFL_uc010gjl.1_Nonsense_Mutation_p.Q104*	NM_080618	NP_542185	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor-like protein	104					cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			CCTTCTTGCTGCTGTATGCTC	0.597													34	158	---	---	---	---	PASS	A	56098952	A	A	56098952	4	1	65	1	0	0	0	0	0	1	0	0	4001	1328	46	3	1721	3	CTCFL	20	56098952	Nonsense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	6472568	56098952	6926568	176	25696										
ZNF831	128611	broad.mit.edu	37	chr20	57829371	57829371	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	agacagcaaagtcacagaagAgggcagagcacagaccctct	11	11	2	5			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr20:57829371A>C	uc002yan.2	+	5	4607	c.4607A>C	c.(4606-4608)GAG>GCG	p.E1536A		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1536						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GTCACAGAAGAGGGCAGAGCA	0.493													15	45	---	---	---	---	PASS	C	57829371	C	C	57829371	3	2	65	1	0	0	0	0	1	0	0	0	18182	304	11	5	4625	5	ZNF831	20	57829371	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08	1730419	57829371	5196149	177	25697										
ZNF295	49854	broad.mit.edu	37	chr21	43412303	43412303	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	cgccttaacttaatgatcagGgccttcttaatttctctctc	5	12	4	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr21:43412303G>T	uc002zab.3	-	3	2116	c.1902C>A	c.(1900-1902)GCC>GCA	p.A634A	ZNF295_uc002yzz.3_Intron|ZNF295_uc002yzy.3_Silent_p.A634A|ZNF295_uc002zaa.3_Silent_p.A634A	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	634					negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						TAATGATCAGGGCCTTCTTAA	0.453													13	173	---	---	---	---	PASS	T	43412303	T	T	43412303	2	4	65	1	0	0	0	0	0	0	0	1	17824	1219	43	3		3	ZNF295	21	43412303	Silent	SNP	G	TCGA-34-2608-01A-02D-1522-08		43412303	4717592	178	25698										
UMODL1	89766	broad.mit.edu	37	chr21	43519180	43519180	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gctcaggagcgccaggacacAgagccaggcactggcagtgg	16	12	1	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr21:43519180A>T	uc002zaf.1	+	7	1076	c.1076A>T	c.(1075-1077)CAG>CTG	p.Q359L	UMODL1_uc002zad.1_Missense_Mutation_p.Q287L|UMODL1_uc002zae.1_Missense_Mutation_p.Q287L|UMODL1_uc002zag.1_Missense_Mutation_p.Q359L|UMODL1_uc010gow.1_Missense_Mutation_p.Q151L|UMODL1_uc002zai.1_Missense_Mutation_p.Q10L|UMODL1_uc010gox.1_RNA|UMODL1_uc010goy.1_Missense_Mutation_p.Q10L|UMODL1_uc002zaj.1_RNA|UMODL1_uc010goz.1_Missense_Mutation_p.Q104L	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	359	Extracellular (Potential).|Fibronectin type-III 1.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						GCCAGGACACAGAGCCAGGCA	0.587													13	127	---	---	---	---	PASS	T	43519180	T	T	43519180	3	4	65	1	0	0	0	0	1	0	0	0	16977	188	7	5	1102	5	UMODL1	21	43519180	Missense_Mutation	SNP	A	TCGA-34-2608-01A-02D-1522-08	106877	43519180	4610715	179	25699										
UMODL1	89766	broad.mit.edu	37	chr21	43522280	43522280	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tcactgtctgtctcagatgcCcaggtatttgaagtcacaat	8	10	4	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr21:43522280C>T	uc002zaf.1	+	8	1191	c.1191C>T	c.(1189-1191)GCC>GCT	p.A397A	UMODL1_uc002zad.1_Silent_p.A325A|UMODL1_uc002zae.1_Silent_p.A325A|UMODL1_uc002zag.1_Silent_p.A397A|UMODL1_uc010gow.1_Silent_p.A189A|UMODL1_uc002zai.1_Silent_p.A48A|UMODL1_uc010gox.1_RNA|UMODL1_uc010goy.1_Silent_p.A48A|UMODL1_uc002zaj.1_RNA|UMODL1_uc010goz.1_Silent_p.A142A|C21orf128_uc002zak.2_3'UTR	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	397	Extracellular (Potential).|SEA 1.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						TCTCAGATGCCCAGGTATTTG	0.428													9	93	---	---	---	---	PASS	T	43522280	T	T	43522280	2	4	65	1	0	0	0	0	0	0	0	1	16977	610	22	3		3	UMODL1	21	43522280	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08	3100	43522280	4607615	180	25700										
SGSM1	129049	broad.mit.edu	37	chr22	25240894	25240894	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tcatggaggaggctgtgacaCgcaagtttgtccacgaagac	13	9	1	2			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr22:25240894C>T	uc003abg.2	+	3	251	c.94C>T	c.(94-96)CGC>TGC	p.R32C	SGSM1_uc003abh.2_Missense_Mutation_p.R32C|SGSM1_uc010guu.1_Missense_Mutation_p.R32C|SGSM1_uc003abj.2_Missense_Mutation_p.R32C|SGSM1_uc003abi.1_Missense_Mutation_p.R7C|SGSM1_uc003abf.2_Missense_Mutation_p.R32C	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	32						Golgi apparatus	Rab GTPase activator activity	p.R32H(1)		ovary(2)|central_nervous_system(2)|pancreas(1)	5						GGCTGTGACACGCAAGTTTGT	0.567													7	67	---	---	---	---	PASS	T	25240894	T	T	25240894	3	4	65	1	0	0	0	0	1	0	0	0	14222	536	19	1	104	1	SGSM1	22	25240894	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08		25240894	26063672	181	25701										
TOM1	10043	broad.mit.edu	37	chr22	35741772	35741772	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	tcgagcagtggctgtccactGacgtggtatgttggggccca	15	10	0	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chr22:35741772G>T	uc003ann.2	+	13	1404	c.1279G>T	c.(1279-1281)GAC>TAC	p.D427Y	TOM1_uc011ami.1_Missense_Mutation_p.D394Y|TOM1_uc011amj.1_Missense_Mutation_p.D270Y|TOM1_uc003ans.2_Missense_Mutation_p.D270Y|TOM1_uc011amk.1_Missense_Mutation_p.D389Y|TOM1_uc003anp.2_Missense_Mutation_p.D427Y|TOM1_uc011aml.1_Missense_Mutation_p.D382Y|TOM1_uc003ano.2_RNA|TOM1_uc003anq.2_Missense_Mutation_p.D421Y|TOM1_uc003anr.2_Missense_Mutation_p.D270Y	NM_005488	NP_005479	O60784	TOM1_HUMAN	target of myb1 isoform 1	427					endocytosis|endosome transport|intracellular protein transport	cytosol|early endosome|membrane	protein binding			ovary(1)	1						GCTGTCCACTGACGTGGTATG	0.572													16	91	---	---	---	---	PASS	T	35741772	T	T	35741772	3	4	65	1	0	0	0	0	1	0	0	0	16348	1290	45	2	1329	2	TOM1	22	35741772	Missense_Mutation	SNP	G	TCGA-34-2608-01A-02D-1522-08	10500878	35741772	15562794	182	25702										
IL3RA	3563	broad.mit.edu	37	chrX	1464294	1464294	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	aacagaaatgtgaccgatatCgagtgtgttaaagacgccga	11	7	0	3			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chrX:1464294C>T	uc004cps.2	+	3	499	c.150C>T	c.(148-150)ATC>ATT	p.I50I	IL3RA_uc011mhd.1_Intron	NM_002183	NP_002174	P26951	IL3RA_HUMAN	interleukin 3 receptor, alpha precursor	50	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-3 receptor activity			skin(2)|lung(1)	3		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	TGACCGATATCGAGTGTGTTA	0.343													20	317	---	---	---	---	PASS	T	1464294	T	T	1464294	2	4	65	1	0	0	0	0	0	0	0	1	7695	874	31	2		2	IL3RA	23	1464294	Silent	SNP	C	TCGA-34-2608-01A-02D-1522-08		1464294	153806266	183	25703										
KDM5C	8242	broad.mit.edu	37	chrX	53241055	53241055	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	gtattcccgggtagcctgctCaaagccaaaggcttctgggg	13	11	2	0			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chrX:53241055C>G	uc004drz.2	-	9	1689	c.1156G>C	c.(1156-1158)GAG>CAG	p.E386Q	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.E319Q|KDM5C_uc004dsa.2_Missense_Mutation_p.E385Q	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	386					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						GTAGCCTGCTCAAAGCCAAAG	0.522			N|F|S		clear cell renal carcinoma								7	23	---	---	---	---	PASS	G	53241055	G	G	53241055	3	3	65	1	0	0	0	0	1	0	0	0	8135	835	29	2	3696	2	KDM5C	23	53241055	Missense_Mutation	SNP	C	TCGA-34-2608-01A-02D-1522-08	51776761	53241055	102029505	184	25704										
TRPC5	7224	broad.mit.edu	37	chrX	111078161	111078161	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.131147540983607	24	0.00336180324857831	1.88603834728598	2.86049149338374	1.61154450331478	0.0696786155660074	0.321693358314871	11	ctactcacggcaataagctgAtaggagttgttcatcatagc	9	9	3	1			TCGA-34-2608-01A-02D-1522-08	TCGA-34-2608-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3c90209b-b6f6-40b2-a374-6cd37d6d3895	ca1f5f6f-bef8-49af-8bd0-c8beb0c4c53b	g.chrX:111078161A>G	uc004epl.1	-	7	2803	c.1884T>C	c.(1882-1884)TAT>TAC	p.Y628Y	TRPC5_uc004epm.1_Silent_p.Y628Y	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	628	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						CAATAAGCTGATAGGAGTTGT	0.433													71	197	---	---	---	---	PASS	G	111078161	G	G	111078161	2	3	65	1	0	0	0	0	0	0	0	1	16579	340	12	5		5	TRPC5	23	111078161	Silent	SNP	A	TCGA-34-2608-01A-02D-1522-08	57837106	111078161	44192399	185	25705										
VPS13D	55187	broad.mit.edu	37	chr1	12463963	12463963	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tactactttgaaaatctcaaAatcagcattcctcagatcaa	3	10	4	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:12463963A>T	uc001atv.2	+	63	12108	c.11967A>T	c.(11965-11967)AAA>AAT	p.K3989N	VPS13D_uc001atw.2_Missense_Mutation_p.K3964N|VPS13D_uc001atx.2_Missense_Mutation_p.K3176N|VPS13D_uc009vnl.2_RNA	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3988					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AAAATCTCAAAATCAGCATTC	0.388													46	24	---	---	---	---	PASS	T	12463963	T	T	12463963	3	4	66	1	0	0	0	0	1	0	0	0	17189	11	1	5	12213	5	VPS13D	1	12463963	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08		12463963	236786658	1	25706										
PADI3	51702	broad.mit.edu	37	chr1	17603149	17603149	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgagctttgtccctgccccCgatgggaaggtaagaacttc	11	12	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:17603149C>G	uc001bai.2	+	12	1483	c.1443C>G	c.(1441-1443)CCC>CCG	p.P481P		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	481					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	TCCCTGCCCCCGATGGGAAGG	0.597													59	22	---	---	---	---	PASS	G	17603149	G	G	17603149	2	3	66	1	0	0	0	0	0	0	0	1	11379	639	23	4		4	PADI3	1	17603149	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	5139186	17603149	231647472	2	25707										
USP48	84196	broad.mit.edu	37	chr1	22079070	22079070	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgctgttgaacaatattgcgCacatctggattcttttgttt	8	7	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:22079070C>T	uc001bfb.2	-	5	853	c.615G>A	c.(613-615)GTG>GTA	p.V205V	USP48_uc010odq.1_Silent_p.V205V|USP48_uc009vqc.2_Silent_p.V205V|USP48_uc001bfc.2_Silent_p.V205V|USP48_uc001bfe.1_Silent_p.V205V|USP48_uc001bff.2_Silent_p.V205V	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	205					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		CAATATTGCGCACATCTGGAT	0.338													25	12	---	---	---	---	PASS	T	22079070	T	T	22079070	2	4	66	1	0	0	0	0	0	0	0	1	17076	697	25	3		3	USP48	1	22079070	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	4475921	22079070	227171551	3	25708										
CELA3A	10136	broad.mit.edu	37	chr1	22329556	22329556	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgttgtccatggtgaggatgCggtcccctacagctggccct	13	13	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:22329556C>T	uc001bfl.2	+	2	123	c.104C>T	c.(103-105)GCG>GTG	p.A35V	CELA3B_uc009vqf.2_Intron	NM_005747	NP_005738	P09093	CEL3A_HUMAN	elastase 3A, pancreatic preproprotein	35	Peptidase S1.				cholesterol metabolic process|digestion|proteolysis		serine-type endopeptidase activity			haematopoietic_and_lymphoid_tissue(1)	1						GGTGAGGATGCGGTCCCCTAC	0.612													4	96	---	---	---	---	PASS	T	22329556	T	T	22329556	3	4	66	1	0	0	0	0	1	0	0	0	3213	768	27	1	110	1	CELA3A	1	22329556	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	250486	22329556	226921065	4	25709										
MAN1C1	57134	broad.mit.edu	37	chr1	25944443	25944443	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctcctctcgcctcaagcgccTcttcctggccccccggaccc	7	23	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:25944443T>A	uc001bkm.2	+	1	485	c.155T>A	c.(154-156)CTC>CAC	p.L52H	MAN1C1_uc009vry.1_5'UTR	NM_020379	NP_065112	Q9NR34	MA1C1_HUMAN	mannosidase, alpha, class 1C, member 1	52	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(1)	1		Colorectal(325;3.78e-05)|Lung NSC(340;0.000181)|all_lung(284;0.000245)|Renal(390;0.000714)|Ovarian(437;0.00159)|Breast(348;0.0156)|Myeloproliferative disorder(586;0.0257)|all_neural(195;0.0515)|Esophageal squamous(538;0.232)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0574)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.15e-07)|COAD - Colon adenocarcinoma(152;4.31e-06)|STAD - Stomach adenocarcinoma(196;0.00125)|BRCA - Breast invasive adenocarcinoma(304;0.00141)|KIRC - Kidney renal clear cell carcinoma(1967;0.00146)|GBM - Glioblastoma multiforme(114;0.0149)|READ - Rectum adenocarcinoma(331;0.0803)		CTCAAGCGCCTCTTCCTGGCC	0.662													10	38	---	---	---	---	PASS	A	25944443	A	A	25944443	3	1	66	1	0	0	0	0	1	0	0	0	9213	1551	54	5	157	5	MAN1C1	1	25944443	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	3614887	25944443	223306178	5	25710										
KIAA1522	57648	broad.mit.edu	37	chr1	33237497	33237497	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caccccagcactggggccatCggccccccagaaaccactgc	9	20	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:33237497C>T	uc001bvv.2	+	6	2676	c.2540C>T	c.(2539-2541)TCG>TTG	p.S847L	KIAA1522_uc001bvu.1_Missense_Mutation_p.S906L|KIAA1522_uc010ohm.1_Missense_Mutation_p.S858L|KIAA1522_uc010ohn.1_Intron	NM_020888	NP_065939	Q9P206	K1522_HUMAN	hypothetical protein LOC57648	847	Pro-rich.										0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				CTGGGGCCATCGGCCCCCCAG	0.721													16	10	---	---	---	---	PASS	T	33237497	T	T	33237497	3	4	66	1	0	0	0	0	1	0	0	0	8238	893	31	2	2739	2	KIAA1522	1	33237497	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	7293054	33237497	216013124	6	25711										
CSMD2	114784	broad.mit.edu	37	chr1	34033226	34033226	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggtcttgcccgaccagtgatGatcctgctggcagatgcgca	13	12	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:34033226G>T	uc001bxn.1	-	54	8307	c.8278C>A	c.(8278-8280)CAT>AAT	p.H2760N	CSMD2_uc001bxm.1_Missense_Mutation_p.H2783N	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2760	Sushi 18.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GACCAGTGATGATCCTGCTGG	0.542													44	15	---	---	---	---	PASS	T	34033226	T	T	34033226	3	4	66	1	0	0	0	0	1	0	0	0	3945	1290	45	2	2249	2	CSMD2	1	34033226	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	795729	34033226	215217395	7	25712										
CSF3R	1441	broad.mit.edu	37	chr1	36932199	36932199	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccctgggcttgtggggctgCccagcagctgcccataaagg	15	13	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:36932199C>T	uc001caw.1	-	17	2448	c.2270G>A	c.(2269-2271)GGC>GAC	p.G757D	MRPS15_uc001cas.2_5'Flank|CSF3R_uc001cat.1_Missense_Mutation_p.G319D|CSF3R_uc009vvc.1_Missense_Mutation_p.G286D|CSF3R_uc001cau.1_Missense_Mutation_p.G157D|CSF3R_uc001cav.1_Intron|CSF3R_uc001cax.1_Missense_Mutation_p.G784D|CSF3R_uc001cay.1_Missense_Mutation_p.A726T	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	757	Cytoplasmic (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	TGTGGGGCTGCCCAGCAGCTG	0.637													17	10	---	---	---	---	PASS	T	36932199	T	T	36932199	3	4	66	1	0	0	0	0	1	0	0	0	3937	739	26	3	353	3	CSF3R	1	36932199	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2898973	36932199	212318422	8	25713										
SLC5A9	200010	broad.mit.edu	37	chr1	48708225	48708225	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agatatccgagaggccagccGgggagtgccctgcaggaggt	17	10	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:48708225G>T	uc001cro.2	+	13	1826	c.1774G>T	c.(1774-1776)GGG>TGG	p.G592W	SLC5A9_uc001crn.2_Missense_Mutation_p.G617W|SLC5A9_uc010omt.1_Missense_Mutation_p.G606W|SLC5A9_uc001crp.2_Missense_Mutation_p.G259W|SLC5A9_uc010omu.1_Missense_Mutation_p.G259W|SLC5A9_uc009vyt.1_RNA	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	592	Cytoplasmic (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						GAGGCCAGCCGGGGAGTGCCC	0.657													37	18	---	---	---	---	PASS	T	48708225	T	T	48708225	3	4	66	1	0	0	0	0	1	0	0	0	14672	1116	39	1	1903	1	SLC5A9	1	48708225	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	11776026	48708225	200542396	9	25714										
KANK4	163782	broad.mit.edu	37	chr1	62739203	62739203	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gggagtctttctgtcgctgcCccacagaaagcctcctgctc	10	15	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:62739203C>A	uc001dah.3	-	3	1950	c.1573G>T	c.(1573-1575)GGC>TGC	p.G525C	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	525										ovary(3)|skin(2)|lung(1)	6						CTGTCGCTGCCCCACAGAAAG	0.602													41	19	---	---	---	---	PASS	A	62739203	A	A	62739203	3	1	66	1	0	0	0	0	1	0	0	0	7979	623	22	3	1446	3	KANK4	1	62739203	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	14030978	62739203	186511418	10	25715										
LEPR	3953	broad.mit.edu	37	chr1	66075935	66075935	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aattttggagaataattaatGgagatactatgaaaaaggag	10	1	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:66075935G>C	uc001dci.2	+	14	2153	c.1951G>C	c.(1951-1953)GGA>CGA	p.G651R	LEPR_uc001dcg.2_Missense_Mutation_p.G651R|LEPR_uc001dch.2_Missense_Mutation_p.G651R|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Missense_Mutation_p.G651R|LEPR_uc001dck.2_Missense_Mutation_p.G651R	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	651	Extracellular (Potential).|Fibronectin type-III 3.				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)		AATAATTAATGGAGATACTAT	0.269													32	17	---	---	---	---	PASS	C	66075935	C	C	66075935	3	2	66	1	0	0	0	0	1	0	0	0	8728	1349	47	4	1997	4	LEPR	1	66075935	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	3336732	66075935	183174686	11	25716										
SGIP1	84251	broad.mit.edu	37	chr1	67147875	67147875	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgctcaatttagaagaagtcCagaagaaagtcgctgagcag	11	8	1	5			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:67147875C>A	uc001dcr.2	+	15	1355	c.1138C>A	c.(1138-1140)CAG>AAG	p.Q380K	SGIP1_uc010opd.1_Intron|SGIP1_uc001dcs.2_Intron|SGIP1_uc001dct.2_Intron|SGIP1_uc009wat.2_Missense_Mutation_p.Q147K	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	380	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						AGAAGAAGTCCAGAAGAAAGT	0.537													111	61	---	---	---	---	PASS	A	67147875	A	A	67147875	3	1	66	1	0	0	0	0	1	0	0	0	14206	595	21	3	1196	3	SGIP1	1	67147875	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1071940	67147875	182102746	12	25717										
NEGR1	257194	broad.mit.edu	37	chr1	71873131	71873132	+	Frame_Shift_Ins	INS	-	T	T													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tttatgggtctttgaatttaINSttgtagaatggcattcttca							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:71873131_71873132insT	uc001dfw.2	-	7	1162_1163	c.1062_1063insA	c.(1060-1065)CAATAAfs	p.Q354fs	NEGR1_uc001dfv.2_Frame_Shift_Ins_p.Q226fs|NEGR1_uc010oqs.1_Frame_Shift_Ins_p.Q310fs	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	354_355					cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		CTTTGAATTTATTGTAGAATGG	0.421													13	25	---	---	---	---		T	71873132	T	T	71873131	7	5	66	1	0	1	1	0	0	0	0	0	10317	462	16	0	5	0	NEGR1	1	71873131	Frame_Shift_Ins	INS	-	TCGA-34-5231-01A-21D-1817-08	4725256	71873131	177377490	13	25718										
COL24A1	255631	broad.mit.edu	37	chr1	86203190	86203190	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gggtcaatccagtattttccTaataatttatagtaaaacat	5	6	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:86203190T>A	uc001dlj.2	-	58	4715	c.4673_splice	c.e58-1	p.G1558_splice	COL24A1_uc001dli.2_Splice_Site_p.G673_splice|COL24A1_uc010osd.1_Splice_Site_p.G858_splice|COL24A1_uc001dlk.2_Splice_Site|COL24A1_uc010ose.1_Splice_Site|COL24A1_uc010osf.1_Intron	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor						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)		AGTATTTTCCTAATAATTTAT	0.274													4	6	---	---	---	---	PASS	A	86203190	A	A	86203190	5	1	66	1	0	0	0	0	0	0	1	0	3683	1536	53	5	485	5	COL24A1	1	86203190	Splice_Site	SNP	T	TCGA-34-5231-01A-21D-1817-08	14330059	86203190	163047431	14	25719										
GBP4	115361	broad.mit.edu	37	chr1	89652768	89652768	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acctgtgactgcaggaagttCtggaggacctcgtttgcctg	13	10	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:89652768C>T	uc001dnb.2	-	9	1544	c.1428G>A	c.(1426-1428)CAG>CAA	p.Q476Q		NM_052941	NP_443173	Q96PP9	GBP4_HUMAN	guanylate binding protein 4	476						cytoplasm	GTP binding|GTPase activity				0				all cancers(265;0.00723)|Epithelial(280;0.0291)		GCAGGAAGTTCTGGAGGACCT	0.502													57	24	---	---	---	---	PASS	T	89652768	T	T	89652768	2	4	66	1	0	0	0	0	0	0	0	1	6276	912	32	2		2	GBP4	1	89652768	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	3449578	89652768	159597853	15	25720										
GFI1	2672	broad.mit.edu	37	chr1	92946204	92946204	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agccgccgcccagcagcaggCgggtgcacagcagctccgac	14	17	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:92946204C>A	uc001dou.3	-	4	904	c.740G>T	c.(739-741)CGC>CTC	p.R247L	GFI1_uc001dov.3_Missense_Mutation_p.R247L|GFI1_uc001dow.3_Missense_Mutation_p.R247L	NM_001127215	NP_001120687	Q99684	GFI1_HUMAN	growth factor independent 1	247					negative regulation of calcidiol 1-monooxygenase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1/S phase of mitotic cell cycle|transcription, DNA-dependent|viral reproduction	nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)	1		all_lung(203;0.00292)|Lung NSC(277;0.0115)|all_neural(321;0.185)|Glioma(108;0.203)		OV - Ovarian serous cystadenocarcinoma(397;9.04e-07)|Epithelial(280;1.17e-05)|all cancers(265;5.61e-05)|GBM - Glioblastoma multiforme(16;0.0191)		CAGCAGCAGGCGGGTGCACAG	0.706													8	5	---	---	---	---	PASS	A	92946204	A	A	92946204	3	1	66	1	0	0	0	0	1	0	0	0	6339	768	27	1	544	1	GFI1	1	92946204	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3293436	92946204	156304417	16	25721										
COL11A1	1301	broad.mit.edu	37	chr1	103404590	103404590	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agtaagaagtaggaaactcaCattttctcccttgtcaccct	6	11	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:103404590C>A	uc001dul.2	-	44	3756	c.3438_splice	c.e44+1	p.N1146_splice	COL11A1_uc001duk.2_Splice_Site_p.N342_splice|COL11A1_uc001dum.2_Splice_Site_p.N1158_splice|COL11A1_uc001dun.2_Splice_Site_p.N1107_splice|COL11A1_uc009weh.2_Splice_Site_p.N1030_splice	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A						collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		AGGAAACTCACATTTTCTCCC	0.343													52	34	---	---	---	---	PASS	A	103404590	A	A	103404590	5	1	66	1	0	0	0	0	0	0	1	0	3667	492	17	3	2077	3	COL11A1	1	103404590	Splice_Site	SNP	C	TCGA-34-5231-01A-21D-1817-08	10458386	103404590	145846031	17	25722										
RSBN1	54665	broad.mit.edu	37	chr1	114354958	114354958	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgcatcgcgcaagcgccgccCgcgcactgcccgctgggcat	13	19	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:114354958C>T	uc001edq.2	-	1	113	c.77G>A	c.(76-78)CGG>CAG	p.R26Q	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	26						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AAGCGCCGCCCGCGCACTGCC	0.652													34	9	---	---	---	---	PASS	T	114354958	T	T	114354958	3	4	66	1	0	0	0	0	1	0	0	0	13696	652	23	1	2359	1	RSBN1	1	114354958	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	10950368	114354958	134895663	18	25723										
HSD3B1	3283	broad.mit.edu	37	chr1	120050171	120050171	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggatcatccgcctcttggtGaaggagaaggagctgaagga	15	7	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:120050171G>A	uc001ehv.1	+	2	217	c.72G>A	c.(70-72)GTG>GTA	p.V24V	HSD3B1_uc001ehw.2_Silent_p.V26V	NM_000862	NP_000853	P14060	3BHS1_HUMAN	3 beta-hydroxysteroid dehydrogenase 1	24					androgen biosynthetic process|estrogen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.219)	all_lung(203;3.16e-06)|Lung NSC(69;2.19e-05)|all_epithelial(167;0.000624)		Lung(183;0.0106)|LUSC - Lung squamous cell carcinoma(189;0.0554)	NADH(DB00157)|Trilostane(DB01108)	GCCTCTTGGTGAAGGAGAAGG	0.522													60	29	---	---	---	---	PASS	A	120050171	A	A	120050171	2	1	66	1	0	0	0	0	0	0	0	1	7390	1277	45	2		2	HSD3B1	1	120050171	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	5695213	120050171	129200450	19	25724										
NOTCH2	4853	broad.mit.edu	37	chr1	120612002	120612002	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagcagcgcccacagcagagCggggcgcagggcgggcatct	17	14	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:120612002C>G	uc001eik.2	-	1	275	c.19G>C	c.(19-21)GCT>CCT	p.A7P	NOTCH2_uc001eil.2_Missense_Mutation_p.A7P|NOTCH2_uc001eim.3_5'UTR	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	7					anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		CACAGCAGAGCGGGGCGCAGG	0.667			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				3	15	---	---	---	---	PASS	G	120612002	G	G	120612002	3	3	66	1	0	0	0	0	1	0	0	0	10548	768	27	4	7532	4	NOTCH2	1	120612002	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	561831	120612002	128638619	20	25725										
FCGR1B	2210	broad.mit.edu	37	chr1	120927180	120927180	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tccggtgcaccccttcctgcAgctgttcttctttttgttcc	7	15	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:120927180A>T	uc001eip.2	-	5	850	c.800T>A	c.(799-801)CTG>CAG	p.L267Q	FCGR1B_uc001eiq.2_Missense_Mutation_p.L175Q|FCGR1B_uc010oxl.1_RNA	NM_001017986	NP_001017986	Q92637	FCGRB_HUMAN	Fc fragment of IgG, high affinity Ib, receptor	267	Cytoplasmic (Potential).				interferon-gamma-mediated signaling pathway	integral to membrane|plasma membrane	IgG binding|immunoglobulin receptor activity				0	all_neural(166;0.181)	all_lung(203;7.27e-05)|Lung NSC(69;0.000389)|all_epithelial(167;0.068)		Lung(183;0.0327)|LUSC - Lung squamous cell carcinoma(189;0.19)		CCCTTCCTGCAGCTGTTCTTC	0.537													29	19	---	---	---	---	PASS	T	120927180	T	T	120927180	3	4	66	1	0	0	0	0	1	0	0	0	5780	188	7	5	46	5	FCGR1B	1	120927180	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	315178	120927180	128323441	21	25726										
LCE2B	26239	broad.mit.edu	37	chr1	152659444	152659444	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtgcccagctccatgttcccCtgcagtctcttcttgctgtg	9	15	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:152659444C>T	uc001fai.2	+	2	179	c.125C>T	c.(124-126)CCT>CTT	p.P42L		NM_014357	NP_055172	O14633	LCE2B_HUMAN	late cornified envelope 2B	42	Pro-rich.|Cys-rich.				keratinization					ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCATGTTCCCCTGCAGTCTCT	0.627													111	176	---	---	---	---	PASS	T	152659444	T	T	152659444	3	4	66	1	0	0	0	0	1	0	0	0	8666	681	24	3	127	3	LCE2B	1	152659444	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	31732264	152659444	96591177	22	25727										
LCE4A	199834	broad.mit.edu	37	chr1	152681816	152681816	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcagtggccagcagtctgggGgttctggctgctgctctgga	17	10	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:152681816G>T	uc001fak.2	+	1	294	c.265G>T	c.(265-267)GGT>TGT	p.G89C		NM_178356	NP_848133	Q5TA78	LCE4A_HUMAN	late cornified envelope 4A	89	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.116)			GCAGTCTGGGGGTTCTGGCTG	0.597													25	47	---	---	---	---	PASS	T	152681816	T	T	152681816	3	4	66	1	0	0	0	0	1	0	0	0	8674	1232	43	3	267	3	LCE4A	1	152681816	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	22372	152681816	96568805	23	25728										
NPR1	4881	broad.mit.edu	37	chr1	153661941	153661941	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccttccaggtggtgaccctgCtcaatgacctgtacacttgc	9	14	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:153661941C>G	uc001fcs.3	+	18	3122	c.2701C>G	c.(2701-2703)CTC>GTC	p.L901V	NPR1_uc010pdz.1_Missense_Mutation_p.L647V|NPR1_uc010pea.1_Missense_Mutation_p.L379V	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	901	Guanylate cyclase.|Cytoplasmic (Potential).				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	GGTGACCCTGCTCAATGACCT	0.537													55	137	---	---	---	---	PASS	G	153661941	G	G	153661941	3	3	66	1	0	0	0	0	1	0	0	0	10594	797	28	4	2771	4	NPR1	1	153661941	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	980125	153661941	95588680	24	25729										
AQP10	89872	broad.mit.edu	37	chr1	154296240	154296240	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgcccgggacctgggcccacGtctcttcacctacgtggctg	12	16	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:154296240G>A	uc001feu.2	+	5	705	c.665G>A	c.(664-666)CGT>CAT	p.R222H	AQP10_uc001fev.2_Missense_Mutation_p.R222H|ATP8B2_uc001few.2_5'Flank	NM_080429	NP_536354	Q96PS8	AQP10_HUMAN	aquaporin 10	222	Extracellular (Potential).				response to toxin|transmembrane transport|water transport	integral to membrane|plasma membrane	transporter activity			central_nervous_system(1)	1	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CTGGGCCCACGTCTCTTCACC	0.627													11	52	---	---	---	---	PASS	A	154296240	A	A	154296240	3	1	66	1	0	0	0	0	1	0	0	0	822	1145	40	1	683	1	AQP10	1	154296240	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	634299	154296240	94954381	25	25730										
KCNN3	3782	broad.mit.edu	37	chr1	154841808	154841808	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tccggggggttgctagggctGaaaagctggaggggttggcc	20	7	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:154841808G>A	uc001ffp.2	-	1	947	c.633C>T	c.(631-633)TTC>TTT	p.F211F	KCNN3_uc009wox.1_Silent_p.F211F	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	216						integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			TGCTAGGGCTGAAAAGCTGGA	0.637													36	63	---	---	---	---	PASS	A	154841808	A	A	154841808	2	1	66	1	0	0	0	0	0	0	0	1	8080	1281	45	2		2	KCNN3	1	154841808	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	545568	154841808	94408813	26	25731										
SEMA4A	64218	broad.mit.edu	37	chr1	156144709	156144709	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgaccctgaacctgttcgcaAcctgcagctggcccccaccc	8	19	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:156144709A>G	uc001fnl.2	+	12	1516	c.1412A>G	c.(1411-1413)AAC>AGC	p.N471S	SEMA4A_uc009wrq.2_Missense_Mutation_p.N471S|SEMA4A_uc001fnm.2_Missense_Mutation_p.N471S|SEMA4A_uc001fnn.2_Missense_Mutation_p.N339S|SEMA4A_uc001fno.2_Missense_Mutation_p.N471S	NM_022367	NP_071762	Q9H3S1	SEM4A_HUMAN	semaphorin B precursor	471	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					CCTGTTCGCAACCTGCAGCTG	0.622													29	73	---	---	---	---	PASS	G	156144709	G	G	156144709	3	3	66	1	0	0	0	0	1	0	0	0	14031	43	2	5	1454	5	SEMA4A	1	156144709	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	1302901	156144709	93105912	27	25732										
BCAN	63827	broad.mit.edu	37	chr1	156616841	156616841	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcgtggcactgcctgcgtacCcagcgtcgctcaccgacgtc	12	17	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:156616841C>T	uc001fpp.2	+	3	676	c.340C>T	c.(340-342)CCA>TCA	p.P114S	BCAN_uc001fpo.2_Missense_Mutation_p.P114S	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	114	Ig-like V-type.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCCTGCGTACCCAGCGTCGCT	0.672													14	28	---	---	---	---	PASS	T	156616841	T	T	156616841	3	4	66	1	0	0	0	0	1	0	0	0	1345	623	22	3	346	3	BCAN	1	156616841	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	472132	156616841	92633780	28	25733										
FCRL1	115350	broad.mit.edu	37	chr1	157772365	157772365	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gatgtctcctgtgcccatagCaactgagcagatgaggacca	11	11	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:157772365C>A	uc001frg.2	-	4	522	c.409G>T	c.(409-411)GCT>TCT	p.A137S	FCRL1_uc001frf.2_5'Flank|FCRL1_uc001frh.2_Missense_Mutation_p.A137S|FCRL1_uc001fri.2_Missense_Mutation_p.A137S|FCRL1_uc001frj.2_Intron	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	137	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GTGCCCATAGCAACTGAGCAG	0.542													40	57	---	---	---	---	PASS	A	157772365	A	A	157772365	3	1	66	1	0	0	0	0	1	0	0	0	5794	710	25	3	978	3	FCRL1	1	157772365	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1155524	157772365	91478256	29	25734										
CD5L	922	broad.mit.edu	37	chr1	157803197	157803197	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ataccacctggtcctcctttTctccccagttgtcatcacag	5	16	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:157803197T>C	uc001frk.3	-	5	967	c.824A>G	c.(823-825)GAA>GGA	p.E275G		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	275	SRCR 3.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GTCCTCCTTTTCTCCCCAGTT	0.572													90	122	---	---	---	---	PASS	C	157803197	C	C	157803197	3	2	66	1	0	0	0	0	1	0	0	0	3027	1783	62	5	227	5	CD5L	1	157803197	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	30832	157803197	91447424	30	25735										
CD1B	910	broad.mit.edu	37	chr1	158298786	158298786	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttattgccaaaacaattgagCcaatggaggtggggtttcct	11	7	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:158298786C>G	uc001frx.2	-	5	1013	c.905G>C	c.(904-906)GGC>GCC	p.G302A	CD1B_uc001frw.2_Missense_Mutation_p.G140A	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	302	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					AACAATTGAGCCAATGGAGGT	0.458													29	51	---	---	---	---	PASS	G	158298786	G	G	158298786	3	3	66	1	0	0	0	0	1	0	0	0	2975	739	26	4	104	4	CD1B	1	158298786	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	495589	158298786	90951835	31	25736										
OR6K6	128371	broad.mit.edu	37	chr1	158724842	158724842	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atgttcattgtcatccaggtGggcatggccctgcacacccc	10	14	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:158724842G>T	uc001fsw.1	+	1	237	c.237G>T	c.(235-237)GTG>GTT	p.V79V		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	79	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					TCATCCAGGTGGGCATGGCCC	0.483													90	152	---	---	---	---	PASS	T	158724842	T	T	158724842	2	4	66	1	0	0	0	0	0	0	0	1	11204	1335	47	3		3	OR6K6	1	158724842	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	426056	158724842	90525779	32	25737										
IGSF8	93185	broad.mit.edu	37	chr1	160062359	160062359	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgtcctctggtcgctccaccCaccagctggcggccagccgc	11	20	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:160062359C>A	uc001fva.2	-	5	1484	c.1439G>T	c.(1438-1440)TGG>TTG	p.W480L	IGSF8_uc001fuz.2_Missense_Mutation_p.W480L|IGSF8_uc009wtf.2_Missense_Mutation_p.W480L	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	480	Ig-like C2-type 4.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			TCGCTCCACCCACCAGCTGGC	0.687													16	22	---	---	---	---	PASS	A	160062359	A	A	160062359	3	1	66	1	0	0	0	0	1	0	0	0	7604	595	21	3	410	3	IGSF8	1	160062359	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1337517	160062359	89188262	33	25738										
DCAF8	50717	broad.mit.edu	37	chr1	160207000	160207000	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagataagaacgtacagggaGagtctggttccagtgccaac	12	9	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:160207000G>C	uc001fvo.2	-	6	1196	c.884C>G	c.(883-885)TCT>TGT	p.S295C	DCAF8_uc001fvn.2_Missense_Mutation_p.S295C|DCAF8_uc009wth.2_Missense_Mutation_p.S295C|DCAF8_uc010pjb.1_Missense_Mutation_p.S295C|DCAF8_uc010pjc.1_Missense_Mutation_p.S449C|uc010pjd.1_5'Flank	NM_015726	NP_056541	Q5TAQ9	DCAF8_HUMAN	DDB1 and CUL4 associated factor 8	295	WD 3.					CUL4 RING ubiquitin ligase complex	protein binding			skin(2)	2						CGTACAGGGAGAGTCTGGTTC	0.313													5	9	---	---	---	---	PASS	C	160207000	C	C	160207000	3	2	66	1	0	0	0	0	1	0	0	0	4276	942	33	2	945	2	DCAF8	1	160207000	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	144641	160207000	89043621	34	25739										
USP21	27005	broad.mit.edu	37	chr1	161130911	161130911	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcacttctctccgccgcctaGggggctttcctggaccccct	10	18	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:161130911G>T	uc010pke.1	+	3	858	c.481G>T	c.(481-483)GGG>TGG	p.G161W	USP21_uc010pkc.1_Missense_Mutation_p.G161W|USP21_uc010pkd.1_Missense_Mutation_p.G161W|USP21_uc010pkf.1_Missense_Mutation_p.G161W	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	161					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CCGCCGCCTAGGGGGCTTTCC	0.642													27	43	---	---	---	---	PASS	T	161130911	T	T	161130911	3	4	66	1	0	0	0	0	1	0	0	0	17050	1000	35	3	483	3	USP21	1	161130911	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	923911	161130911	88119710	35	25740										
FCGR3B	2215	broad.mit.edu	37	chr1	161600845	161600845	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccagggagatcctgacttacCtagaagtagcagagcagttg	12	9	0	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:161600845C>T	uc009wul.2	-	1	314	c.40G>A	c.(40-42)GTT>ATT	p.V14I		NM_000570	NP_000561	O75015	FCG3B_HUMAN	low affinity immunoglobulin gamma Fc region	14					immune response	anchored to membrane|extracellular region|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCTGACTTACCTAGAAGTAGC	0.532													23	45	---	---	---	---	PASS	T	161600845	T	T	161600845	3	4	66	1	0	0	0	0	1	0	0	0	5785	695	24	3	681	3	FCGR3B	1	161600845	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	469934	161600845	87649776	36	25741										
TADA1	117143	broad.mit.edu	37	chr1	166829463	166829463	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agctactacactattcttcaGgtatggctgcggggtcacgt	11	10	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:166829463G>A	uc001gdw.2	-	6	836	c.652C>T	c.(652-654)CTG>TTG	p.L218L	TADA1_uc001gdv.2_Silent_p.L76L	NM_053053	NP_444281	Q96BN2	TADA1_HUMAN	transcriptional adaptor 1-like	218					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(1)	1						CTATTCTTCAGGTATGGCTGC	0.373													23	51	---	---	---	---	PASS	A	166829463	A	A	166829463	2	1	66	1	0	0	0	0	0	0	0	1	15506	991	35	3		3	TADA1	1	166829463	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	5228618	166829463	82421158	37	25742										
DUSP27	92235	broad.mit.edu	37	chr1	167095787	167095787	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgcgcagactcgatgtcctcGgagagcacctgggacgcatg	14	13	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:167095787G>T	uc001geb.1	+	5	1419	c.1419G>T	c.(1417-1419)TCG>TCT	p.S473S		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	473					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						CGATGTCCTCGGAGAGCACCT	0.647													15	27	---	---	---	---	PASS	T	167095787	T	T	167095787	2	4	66	1	0	0	0	0	0	0	0	1	4824	1103	39	1		1	DUSP27	1	167095787	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	266324	167095787	82154834	38	25743										
SELP	6403	broad.mit.edu	37	chr1	169562848	169562848	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctctttcctatttaccttttTgtctgaaacgctttcttagc	4	11	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:169562848T>C	uc001ggi.3	-	14	2467	c.2402A>G	c.(2401-2403)CAA>CGA	p.Q801R	SELP_uc001ggh.2_Intron|SELP_uc009wvr.2_Missense_Mutation_p.Q800R	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	801	Cytoplasmic (Potential).				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	TTTACCTTTTTGTCTGAAACG	0.423													28	57	---	---	---	---	PASS	C	169562848	C	C	169562848	3	2	66	1	0	0	0	0	1	0	0	0	14019	1812	63	5	102	5	SELP	1	169562848	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	2467061	169562848	79687773	39	25744										
RABGAP1L	9910	broad.mit.edu	37	chr1	174274239	174274239	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tagtggagggggtccaatgtCaccccaggatgatgaagcag	15	8	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:174274239C>T	uc001gjx.2	+	11	1634	c.1439C>T	c.(1438-1440)TCA>TTA	p.S480L	RABGAP1L_uc009wwq.1_Missense_Mutation_p.S492L|RABGAP1L_uc001gjw.2_Missense_Mutation_p.S443L|RABGAP1L_uc001gjy.2_Missense_Mutation_p.S148L|RABGAP1L_uc001gjz.2_Missense_Mutation_p.S127L	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	480					regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						GGTCCAATGTCACCCCAGGAT	0.468													39	29	---	---	---	---	PASS	T	174274239	T	T	174274239	3	4	66	1	0	0	0	0	1	0	0	0	12965	838	29	2	1477	2	RABGAP1L	1	174274239	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4711391	174274239	74976382	40	25745										
PAPPA2	60676	broad.mit.edu	37	chr1	176564578	176564578	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctatgatgggggtgactgccGcctgcagggccgctgctact	15	12	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:176564578G>A	uc001gkz.2	+	3	3002	c.1838G>A	c.(1837-1839)CGC>CAC	p.R613H	PAPPA2_uc001gky.1_Missense_Mutation_p.R613H|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	613	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GGTGACTGCCGCCTGCAGGGC	0.587													43	57	---	---	---	---	PASS	A	176564578	A	A	176564578	3	1	66	1	0	0	0	0	1	0	0	0	11433	1087	38	1	1844	1	PAPPA2	1	176564578	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2290339	176564578	72686043	41	25746										
PAPPA2	60676	broad.mit.edu	37	chr1	176762746	176762746	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cccccagtgaccccgtgatgCtacctgagaatatcactgct	8	15	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:176762746C>A	uc001gkz.2	+	20	6235	c.5071C>A	c.(5071-5073)CTA>ATA	p.L1691I	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1691	Sushi 5.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CCCCGTGATGCTACCTGAGAA	0.483													63	100	---	---	---	---	PASS	A	176762746	A	A	176762746	3	1	66	1	0	0	0	0	1	0	0	0	11433	796	28	3	5198	3	PAPPA2	1	176762746	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	198168	176762746	72487875	42	25747										
ASTN1	460	broad.mit.edu	37	chr1	176857303	176857303	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgatgacatctccagtccctGagcaccagagagagctcatg	10	13	2	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:176857303G>T	uc001glc.2	-	18	3190	c.2978C>A	c.(2977-2979)TCA>TAA	p.S993*	ASTN1_uc001glb.1_Nonsense_Mutation_p.S993*|ASTN1_uc001gld.1_Nonsense_Mutation_p.S993*	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	1001					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						TCCAGTCCCTGAGCACCAGAG	0.537													38	44	---	---	---	---	PASS	T	176857303	T	T	176857303	4	4	66	1	0	0	0	0	0	1	0	0	1064	1294	45	2	934	2	ASTN1	1	176857303	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	94557	176857303	72393318	43	25748										
SOAT1	6646	broad.mit.edu	37	chr1	179306981	179306981	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctcttctcagggatttgagAgcacctccagaacaaggaaa	9	11	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:179306981A>T	uc001gml.2	+	5	402	c.339A>T	c.(337-339)AGA>AGT	p.R113S	SOAT1_uc010pni.1_Missense_Mutation_p.R48S|SOAT1_uc001gmm.2_Missense_Mutation_p.R55S|SOAT1_uc010pnj.1_5'UTR|SOAT1_uc010pnk.1_Missense_Mutation_p.R48S	NM_003101	NP_003092	P35610	SOAT1_HUMAN	sterol O-acyltransferase 1	113					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|cholesterol storage|macrophage derived foam cell differentiation|positive regulation of amyloid precursor protein biosynthetic process|very-low-density lipoprotein particle assembly	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			central_nervous_system(1)|skin(1)	2					Ezetimibe(DB00973)|Hesperetin(DB01094)	GGGATTTGAGAGCACCTCCAG	0.303													30	33	---	---	---	---	PASS	T	179306981	T	T	179306981	3	4	66	1	0	0	0	0	1	0	0	0	14910	301	11	5	353	5	SOAT1	1	179306981	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	2449678	179306981	69943640	44	25749										
CEP350	9857	broad.mit.edu	37	chr1	180003020	180003020	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctcatcagataagggaagatCtcagaaaactccaacttctc	6	11	4	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:180003020C>G	uc001gnt.2	+	16	4132	c.3749C>G	c.(3748-3750)TCT>TGT	p.S1250C	CEP350_uc009wxl.2_Missense_Mutation_p.S1249C|CEP350_uc001gnu.2_Missense_Mutation_p.S1083C	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1250	Ser-rich.					centrosome|nucleus|spindle				ovary(4)	4						AAGGGAAGATCTCAGAAAACT	0.378													43	89	---	---	---	---	PASS	G	180003020	G	G	180003020	3	3	66	1	0	0	0	0	1	0	0	0	3254	913	32	2	3807	2	CEP350	1	180003020	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	696039	180003020	69247601	45	25750										
PTGS2	5743	broad.mit.edu	37	chr1	186645691	186645691	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgcatactctgttgtgttccCgcagccagattgtggcatac	10	12	1	1	rs148160346		TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:186645691C>A	uc001gsb.2	-	7	1015	c.878G>T	c.(877-879)CGG>CTG	p.R293L	PTGS2_uc009wyo.2_Missense_Mutation_p.R140L	NM_000963	NP_000954	P35354	PGH2_HUMAN	prostaglandin-endoperoxide synthase 2 precursor	293					cellular component movement|cyclooxygenase pathway|hormone biosynthetic process|positive regulation of brown fat cell differentiation|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of fever generation|positive regulation of fibroblast growth factor production|positive regulation of nitric oxide biosynthetic process|positive regulation of platelet-derived growth factor production|positive regulation of prostaglandin biosynthetic process|positive regulation of transforming growth factor-beta production|positive regulation vascular endothelial growth factor production|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|microsome|neuron projection|nucleus	enzyme binding|heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|central_nervous_system(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Carprofen(DB00821)|Celecoxib(DB00482)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Epoprostenol(DB01240)|Etodolac(DB00749)|Etoricoxib(DB01628)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ginseng(DB01404)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lenalidomide(DB00480)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mesalazine(DB00244)|Nabumetone(DB00461)|Naproxen(DB00788)|Oxaprozin(DB00991)|Phenylbutazone(DB00812)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Thalidomide(DB01041)|Tiaprofenic acid(DB01600)|Tolmetin(DB00500)|Valdecoxib(DB00580)	GTTGTGTTCCCGCAGCCAGAT	0.502													40	84	---	---	---	---	PASS	A	186645691	A	A	186645691	3	1	66	1	0	0	0	0	1	0	0	0	12756	652	23	1	952	1	PTGS2	1	186645691	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	6642671	186645691	62604930	46	25751										
RGS21	431704	broad.mit.edu	37	chr1	192316463	192316463	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atgctgtttctacaggtcacCaactgcggaaacaatgacat	8	10	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:192316463C>A	uc001gsh.2	+	3	206	c.32C>A	c.(31-33)CCA>CAA	p.P11Q		NM_001039152	NP_001034241	Q2M5E4	RGS21_HUMAN	regulator of G-protein signaling 21	11					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|skin(1)	2						TACAGGTCACCAACTGCGGAA	0.313													72	158	---	---	---	---	PASS	A	192316463	A	A	192316463	3	1	66	1	0	0	0	0	1	0	0	0	13304	594	21	3	38	3	RGS21	1	192316463	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	5670772	192316463	56934158	47	25752										
UCHL5	51377	broad.mit.edu	37	chr1	193028383	193028383	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggcaccactccccggcattgCccgtcatggccctggccaca	10	19	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:193028383C>A	uc001gsm.2	-	1	139	c.8G>T	c.(7-9)GGC>GTC	p.G3V	UCHL5_uc001gsn.2_RNA|UCHL5_uc001gso.2_Missense_Mutation_p.G3V|UCHL5_uc010pov.1_RNA|UCHL5_uc001gsp.2_Missense_Mutation_p.G3V|UCHL5_uc001gsq.2_Missense_Mutation_p.G3V|UCHL5_uc010pow.1_Intron|UCHL5_uc010pox.1_5'UTR|UCHL5_uc001gsr.1_3'UTR|TROVE2_uc001gst.1_5'Flank|TROVE2_uc001gss.2_5'Flank|TROVE2_uc001gsu.1_5'Flank|TROVE2_uc001gsv.1_5'Flank|TROVE2_uc001gsw.2_5'Flank|TROVE2_uc009wyp.2_5'Flank|TROVE2_uc009wyq.2_5'Flank	NM_015984	NP_057068	Q9Y5K5	UCHL5_HUMAN	ubiquitin carboxyl-terminal hydrolase L5	3					DNA recombination|DNA repair|protein deubiquitination|regulation of proteasomal protein catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytosol|Ino80 complex|proteasome complex	endopeptidase inhibitor activity|omega peptidase activity|proteasome binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|ovary(1)	3						CCCGGCATTGCCCGTCATGGC	0.672													10	32	---	---	---	---	PASS	A	193028383	A	A	193028383	3	1	66	1	0	0	0	0	1	0	0	0	16919	739	26	3	1025	3	UCHL5	1	193028383	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	711920	193028383	56222238	48	25753										
CFH	3075	broad.mit.edu	37	chr1	196642292	196642292	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aatccattaaggaaatgtcaGagtaagtacttaatacattt	6	5	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:196642292G>A	uc001gtj.3	+	2	483	c.243G>A	c.(241-243)CAG>CAA	p.Q81Q	CFH_uc001gti.3_Silent_p.Q81Q|CFH_uc009wyw.2_Silent_p.Q81Q|CFH_uc009wyx.2_Silent_p.Q81Q	NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	81	Sushi 1.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						GGAAATGTCAGAGTAAGTACT	0.318													24	52	---	---	---	---	PASS	A	196642292	A	A	196642292	2	1	66	1	0	0	0	0	0	0	0	1	3283	956	33	2		2	CFH	1	196642292	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	3613909	196642292	52608329	49	25754										
RABIF	5877	broad.mit.edu	37	chr1	202850137	202850137	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaactcgttccaaggccacaTagaaactgttcttgtcatct	6	11	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:202850137T>A	uc001gyl.2	-	2	378	c.341A>T	c.(340-342)TAT>TTT	p.Y114F		NM_002871	NP_002862	P47224	MSS4_HUMAN	RAB-interacting factor	114					cellular membrane fusion|protein transport|small GTPase mediated signal transduction		guanyl-nucleotide exchange factor activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)			CAAGGCCACATAGAAACTGTT	0.493													64	76	---	---	---	---	PASS	A	202850137	A	A	202850137	3	1	66	1	0	0	0	0	1	0	0	0	12969	1406	49	5	34	5	RABIF	1	202850137	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	6207845	202850137	46400484	50	25755										
PPP1R15B	84919	broad.mit.edu	37	chr1	204379712	204379712	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggacatccctgccacgaggcCggaatgagttctgcactcag	12	13	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:204379712C>A	uc001hav.3	-	1	1233	c.828G>T	c.(826-828)CCG>CCT	p.P276P		NM_032833	NP_116222	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	276					regulation of translation					ovary(1)|pancreas(1)	2	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			GCCACGAGGCCGGAATGAGTT	0.542													93	126	---	---	---	---	PASS	A	204379712	A	A	204379712	2	1	66	1	0	0	0	0	0	0	0	1	12364	639	23	1		1	PPP1R15B	1	204379712	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	1529575	204379712	44870909	51	25756										
NFASC	23114	broad.mit.edu	37	chr1	204949567	204949567	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caacatggagatcacgtggaCggtaagaggccctcccagcc	12	13	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:204949567C>T	uc001hbj.2	+	20	2574	c.2246C>T	c.(2245-2247)ACG>ATG	p.T749M	NFASC_uc010pra.1_Missense_Mutation_p.T745M|NFASC_uc001hbi.2_Missense_Mutation_p.T745M|NFASC_uc010prb.1_Missense_Mutation_p.T760M|NFASC_uc010prc.1_Missense_Mutation_p.T316M|NFASC_uc001hbk.1_Missense_Mutation_p.T555M|NFASC_uc001hbl.1_5'Flank	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	749	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			ATCACGTGGACGGTAAGAGGC	0.612													9	21	---	---	---	---	PASS	T	204949567	T	T	204949567	3	4	66	1	0	0	0	0	1	0	0	0	10359	550	19	1	2400	1	NFASC	1	204949567	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	569855	204949567	44301054	52	25757										
DSTYK	25778	broad.mit.edu	37	chr1	205116794	205116794	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atgcccaagagaggcctcttCaaggggtcgccatcccaaca	10	14	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:205116794C>T	uc001hbw.2	-	13	2746	c.2682G>A	c.(2680-2682)TTG>TTA	p.L894L	DSTYK_uc001hbx.2_Silent_p.L849L	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	894	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						GAGGCCTCTTCAAGGGGTCGC	0.537													85	156	---	---	---	---	PASS	T	205116794	T	T	205116794	2	4	66	1	0	0	0	0	0	0	0	1	4785	825	29	2		2	DSTYK	1	205116794	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	167227	205116794	44133827	53	25758										
DSTYK	25778	broad.mit.edu	37	chr1	205116822	205116822	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgccatcccaacaggcttccAtcaactgccagcactcctca	5	19	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:205116822A>G	uc001hbw.2	-	13	2718	c.2654T>C	c.(2653-2655)ATG>ACG	p.M885T	DSTYK_uc001hbx.2_Missense_Mutation_p.M840T	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	885	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						ACAGGCTTCCATCAACTGCCA	0.552													69	152	---	---	---	---	PASS	G	205116822	G	G	205116822	3	3	66	1	0	0	0	0	1	0	0	0	4785	217	8	5	139	5	DSTYK	1	205116822	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	28	205116822	44133799	54	25759										
CR2	1380	broad.mit.edu	37	chr1	207648284	207648284	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtgaccaaggattctatctCctgggagagaaaaaattgca	10	7	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:207648284C>T	uc001hfw.2	+	13	2356	c.2262C>T	c.(2260-2262)CTC>CTT	p.L754L	CR2_uc001hfv.2_Silent_p.L813L|CR2_uc009xch.2_Silent_p.L754L	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	754	Sushi 12.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						GATTCTATCTCCTGGGAGAGA	0.463													70	101	---	---	---	---	PASS	T	207648284	T	T	207648284	2	4	66	1	0	0	0	0	0	0	0	1	3842	842	30	2		2	CR2	1	207648284	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	2531462	207648284	41602337	55	25760										
IRF6	3664	broad.mit.edu	37	chr1	209968732	209968732	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcttcatccacatcattatcCttctcatcccagggagcaga	5	14	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:209968732C>A	uc001hhq.1	-	5	674	c.411G>T	c.(409-411)AAG>AAT	p.K137N	IRF6_uc010psm.1_Missense_Mutation_p.K42N|IRF6_uc009xct.1_Missense_Mutation_p.K137N	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	137					cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		CATCATTATCCTTCTCATCCC	0.542										HNSCC(57;0.16)			44	54	---	---	---	---	PASS	A	209968732	A	A	209968732	3	1	66	1	0	0	0	0	1	0	0	0	7834	680	24	3	1012	3	IRF6	1	209968732	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2320448	209968732	39281889	56	25761										
TRAF5	7188	broad.mit.edu	37	chr1	211533358	211533358	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gagcatttgagtgcatcctgTcagtttcgaaaggaaaaatg	11	6	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:211533358T>A	uc001hih.2	+	5	543	c.483T>A	c.(481-483)TGT>TGA	p.C161*	TRAF5_uc001hii.2_Nonsense_Mutation_p.C161*|TRAF5_uc010psx.1_Nonsense_Mutation_p.C172*|TRAF5_uc010psy.1_Intron|TRAF5_uc001hij.2_Nonsense_Mutation_p.C161*	NM_004619	NP_004610	O00463	TRAF5_HUMAN	TNF receptor-associated factor 5	161	TRAF-type 1.				apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis	CD40 receptor complex|centrosome|internal side of plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|breast(2)|ovary(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00946)|all cancers(67;0.0808)|Epithelial(68;0.144)		GTGCATCCTGTCAGTTTCGAA	0.423													47	73	---	---	---	---	PASS	A	211533358	A	A	211533358	4	1	66	1	0	0	0	0	0	1	0	0	16441	1673	58	5	497	5	TRAF5	1	211533358	Nonsense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	1564626	211533358	37717263	57	25762										
LPGAT1	9926	broad.mit.edu	37	chr1	212002483	212002483	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccttcgatataccagaaccgCttactgtccagcactcgaag	7	14	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:212002483C>T	uc001hiu.2	-	2	969	c.156G>A	c.(154-156)AAG>AAA	p.K52K	LPGAT1_uc001hiv.2_Silent_p.K52K	NM_014873	NP_055688	Q92604	LGAT1_HUMAN	lysophosphatidylglycerol acyltransferase 1	52					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.00773)|all cancers(67;0.0765)|Epithelial(68;0.114)		ACCAGAACCGCTTACTGTCCA	0.438													58	90	---	---	---	---	PASS	T	212002483	T	T	212002483	2	4	66	1	0	0	0	0	0	0	0	1	8914	796	28	3		3	LPGAT1	1	212002483	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	469125	212002483	37248138	58	25763										
CENPF	1063	broad.mit.edu	37	chr1	214811305	214811305	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aactcaagaacatcaaacagTgtttaaatcagagccagaat	6	8	3	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:214811305T>G	uc001hkm.2	+	11	1717	c.1543T>G	c.(1543-1545)TGT>GGT	p.C515G		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	515	Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		CATCAAACAGTGTTTAAATCA	0.408													49	72	---	---	---	---	PASS	G	214811305	G	G	214811305	3	3	66	1	0	0	0	0	1	0	0	0	3231	1696	59	5	1581	5	CENPF	1	214811305	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	2808822	214811305	34439316	59	25764										
KCTD3	51133	broad.mit.edu	37	chr1	215792322	215792322	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggatgggctcaagaccaaggCgctacttgttcacaggccat	12	11	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:215792322C>T	uc001hks.2	+	16	1951	c.1657C>T	c.(1657-1659)CGC>TGC	p.R553C	KCTD3_uc001hkt.2_Missense_Mutation_p.R553C|KCTD3_uc010pub.1_Missense_Mutation_p.R451C|KCTD3_uc009xdn.2_Missense_Mutation_p.R277C	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	553	WD 5.					voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		AAGACCAAGGCGCTACTTGTT	0.443													17	120	---	---	---	---	PASS	T	215792322	T	T	215792322	3	4	66	1	0	0	0	0	1	0	0	0	8110	768	27	1	1719	1	KCTD3	1	215792322	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	981017	215792322	33458299	60	25765										
USH2A	7399	broad.mit.edu	37	chr1	216051223	216051223	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tacgtctcagaagctcatatCtaaagcaaaagacaagcagg	8	9	3	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:216051223C>T	uc001hku.1	-	43	8946	c.8559_splice	c.e43-1	p.R2853_splice		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B						maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AAGCTCATATCTAAAGCAAAA	0.418										HNSCC(13;0.011)			43	92	---	---	---	---	PASS	T	216051223	T	T	216051223	5	4	66	1	0	0	0	0	0	0	1	0	17033	927	32	2	7170	2	USH2A	1	216051223	Splice_Site	SNP	C	TCGA-34-5231-01A-21D-1817-08	258901	216051223	33199398	61	25766										
MIA3	375056	broad.mit.edu	37	chr1	222791476	222791476	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gctgcggcgcctgggctgctCgtctggctgctcgtgctccg	16	15	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:222791476C>T	uc001hnl.2	+	1	33	c.24C>T	c.(22-24)CTC>CTT	p.L8L		NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	8					exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		CTGGGCTGCTCGTCTGGCTGC	0.667													6	9	---	---	---	---	PASS	T	222791476	T	T	222791476	2	4	66	1	0	0	0	0	0	0	0	1	9565	871	31	2		2	MIA3	1	222791476	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	6740253	222791476	26459145	62	25767										
MIA3	375056	broad.mit.edu	37	chr1	222803650	222803650	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acctcatctattttgtcaggTacaagcactccacagcagag	7	12	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:222803650T>C	uc001hnl.2	+	4	3097	c.3088T>C	c.(3088-3090)TAC>CAC	p.Y1030H	MIA3_uc009xea.1_Missense_Mutation_p.Y866H	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	1030	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		TTTTGTCAGGTACAAGCACTC	0.478													38	209	---	---	---	---	PASS	C	222803650	C	C	222803650	3	2	66	1	0	0	0	0	1	0	0	0	9565	1638	57	5	3102	5	MIA3	1	222803650	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	12174	222803650	26446971	63	25768										
WNT3A	89780	broad.mit.edu	37	chr1	228238464	228238464	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccatctgtggctgcagcagcCgccaccagggctcaccaggc	12	17	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:228238464C>T	uc001hrq.1	+	3	499	c.421C>T	c.(421-423)CGC>TGC	p.R141C	WNT3A_uc001hrp.1_Missense_Mutation_p.R141C	NM_033131	NP_149122	P56704	WNT3A_HUMAN	wingless-type MMTV integration site family,	141					axis specification|cell proliferation in forebrain|cell-cell signaling|cellular response to retinoic acid|convergent extension|dermatome development|dorsal/ventral neural tube patterning|embryonic pattern specification|extracellular matrix organization|hemopoietic stem cell proliferation|hippocampus development|inner ear morphogenesis|mammary gland development|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of neuron projection development|notochord development|palate development|paraxial mesodermal cell fate commitment|positive regulation of catenin import into nucleus|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of receptor internalization|positive regulation of transcription from RNA polymerase II promoter|signalosome assembly|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuroblast division|Wnt receptor signaling pathway, calcium modulating pathway	cell surface|early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled-2 binding|receptor agonist activity|signal transducer activity|transcription coactivator activity			ovary(1)	1		Prostate(94;0.0405)				CTGCAGCAGCCGCCACCAGGG	0.652													33	102	---	---	---	---	PASS	T	228238464	T	T	228238464	3	4	66	1	0	0	0	0	1	0	0	0	17386	652	23	1	431	1	WNT3A	1	228238464	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	5434814	228238464	21012157	64	25769										
AGT	183	broad.mit.edu	37	chr1	230845930	230845930	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gagagccaggccctgcacaaAcggctgcttcaggtgcaggc	14	13	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:230845930A>G	uc001hty.3	-	2	1175	c.667T>C	c.(667-669)TTT>CTT	p.F223L	AGT_uc009xfe.2_Missense_Mutation_p.F223L|AGT_uc009xff.2_Missense_Mutation_p.F195L	NM_000029	NP_000020	P01019	ANGT_HUMAN	angiotensinogen preproprotein	223					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|blood vessel remodeling|cell-cell signaling|cellular lipid metabolic process|G-protein signaling, coupled to cGMP nucleotide second messenger|kidney development|low-density lipoprotein particle remodeling|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of activation of JAK2 kinase activity|positive regulation of apoptosis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of cardiac muscle hypertrophy|positive regulation of cholesterol esterification|positive regulation of cytokine production|positive regulation of endothelial cell migration|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription, DNA-dependent|regulation of proteolysis|regulation of renal output by angiotensin|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|response to muscle activity involved in regulation of muscle adaptation	extracellular space|soluble fraction	acetyltransferase activator activity|growth factor activity|hormone activity|serine-type endopeptidase inhibitor activity|type 1 angiotensin receptor binding|type 2 angiotensin receptor binding				0	Breast(184;0.0735)|Ovarian(103;0.183)	all_cancers(173;4.64e-23)|all_epithelial(177;3.61e-18)|Breast(1374;0.00093)|all_neural(198;0.0604)|Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;4.4e-06)|Colorectal(1306;5.46e-06)|COAD - Colon adenocarcinoma(196;0.000256)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)	Aliskiren(DB01258)|Atorvastatin(DB01076)|Cilazapril(DB01340)|Irbesartan(DB01029)|Lisinopril(DB00722)|Ouabain(DB01092)|Simvastatin(DB00641)	CCCTGCACAAACGGCTGCTTC	0.612													31	87	---	---	---	---	PASS	G	230845930	G	G	230845930	3	3	66	1	0	0	0	0	1	0	0	0	399	43	2	5	806	5	AGT	1	230845930	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	2607466	230845930	18404691	65	25770										
ARID4B	51742	broad.mit.edu	37	chr1	235377193	235377193	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atttttccctcgtccataccGcacttggactttcatgcctg	6	14	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:235377193G>A	uc001hwq.2	-	17	2230	c.1732C>T	c.(1732-1734)CGG>TGG	p.R578W	ARID4B_uc001hwr.2_Intron|ARID4B_uc001hws.3_Intron|ARID4B_uc001hwt.3_Missense_Mutation_p.R259W	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	578					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			CGTCCATACCGCACTTGGACT	0.343													7	324	---	---	---	---	PASS	A	235377193	A	A	235377193	3	1	66	1	0	0	0	0	1	0	0	0	920	1086	38	1	2238	1	ARID4B	1	235377193	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4531263	235377193	13873428	66	25771										
TBCE	6905	broad.mit.edu	37	chr1	235602204	235602204	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gactcagcgaagaattcctcAcagcccatcccagataccag	7	15	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:235602204A>T	uc001hwz.1	+	13	1360	c.1237A>T	c.(1237-1239)ACA>TCA	p.T413S	TBCE_uc001hxa.1_Missense_Mutation_p.T413S|TBCE_uc010pxr.1_Missense_Mutation_p.T464S|TBCE_uc001hxb.1_Missense_Mutation_p.T300S	NM_003193	NP_003184	Q15813	TBCE_HUMAN	beta-tubulin cofactor E	413					'de novo' posttranslational protein folding|post-chaperonin tubulin folding pathway	cytoplasm|microtubule|nucleus|plasma membrane	chaperone binding				0	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00192)|Prostate(94;0.0294)|all_epithelial(177;0.155)|Lung SC(1967;0.238)	OV - Ovarian serous cystadenocarcinoma(106;2.56e-05)			AGAATTCCTCACAGCCCATCC	0.488													101	76	---	---	---	---	PASS	T	235602204	T	T	235602204	3	4	66	1	0	0	0	0	1	0	0	0	15631	159	6	5	1283	5	TBCE	1	235602204	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	225011	235602204	13648417	67	25772										
RYR2	6262	broad.mit.edu	37	chr1	237580424	237580424	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctagagacgctaagagttgcGtaagtagaacttctaaacac	9	8	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:237580424G>A	uc001hyl.1	+	11	968	c.848_splice	c.e11+1	p.A283_splice		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor						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)			TAAGAGTTGCGTAAGTAGAAC	0.448													53	34	---	---	---	---	PASS	A	237580424	A	A	237580424	5	1	66	1	0	0	0	0	0	0	1	0	13769	1159	40	1	891	1	RYR2	1	237580424	Splice_Site	SNP	G	TCGA-34-5231-01A-21D-1817-08	1978220	237580424	11670197	68	25773										
RYR2	6262	broad.mit.edu	37	chr1	237777346	237777346	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctcccttctacagatctgttGacatcttagagttgacagag	8	10	3	5			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:237777346G>T	uc001hyl.1	+	37	5038	c.4918G>T	c.(4918-4920)GAC>TAC	p.D1640Y		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1640	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CAGATCTGTTGACATCTTAGA	0.428													26	78	---	---	---	---	PASS	T	237777346	T	T	237777346	3	4	66	1	0	0	0	0	1	0	0	0	13769	1290	45	2	5064	2	RYR2	1	237777346	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	196922	237777346	11473275	69	25774										
RYR2	6262	broad.mit.edu	37	chr1	237796898	237796898	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaaatcacctttcccaagatGgtggccaactgttgccgttt	9	11	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:237796898G>T	uc001hyl.1	+	43	6696	c.6576G>T	c.(6574-6576)ATG>ATT	p.M2192I		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2192	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTCCCAAGATGGTGGCCAACT	0.388													103	337	---	---	---	---	PASS	T	237796898	T	T	237796898	3	4	66	1	0	0	0	0	1	0	0	0	13769	1348	47	3	6746	3	RYR2	1	237796898	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	19552	237796898	11453723	70	25775										
RGS7	6000	broad.mit.edu	37	chr1	240978014	240978014	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acagacactttgaaatactcAcctgtcagcgacttttgaca	6	11	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:240978014A>T	uc001hyv.2	-	12	1175	c.845_splice	c.e12+1	p.S282_splice	RGS7_uc010pyh.1_Splice_Site_p.S256_splice|RGS7_uc010pyj.1_Splice_Site_p.S198_splice|RGS7_uc001hyu.2_Splice_Site_p.S282_splice|RGS7_uc009xgn.1_Splice_Site_p.S229_splice|RGS7_uc001hyw.2_Splice_Site_p.S282_splice|RGS7_uc001hyt.2_Splice_Site_p.S114_splice	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7						G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			TGAAATACTCACCTGTCAGCG	0.323													32	114	---	---	---	---	PASS	T	240978014	T	T	240978014	5	4	66	1	0	0	0	0	0	0	1	0	13310	173	6	5	644	5	RGS7	1	240978014	Splice_Site	SNP	A	TCGA-34-5231-01A-21D-1817-08	3181116	240978014	8272607	71	25776										
NLRP3	114548	broad.mit.edu	37	chr1	247588866	247588866	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttgatatggtgcagtgtgtCctcccaagctcctctcatgc	9	13	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:247588866C>A	uc001icr.2	+	5	2259	c.2121C>A	c.(2119-2121)GTC>GTA	p.V707V	NLRP3_uc001ics.2_Silent_p.V707V|NLRP3_uc001icu.2_Silent_p.V707V|NLRP3_uc001icw.2_Silent_p.V707V|NLRP3_uc001icv.2_Silent_p.V707V|NLRP3_uc010pyw.1_Silent_p.V705V|NLRP3_uc001ict.1_Silent_p.V705V	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	707					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			TGCAGTGTGTCCTCCCAAGCT	0.562													63	43	---	---	---	---	PASS	A	247588866	A	A	247588866	2	1	66	1	0	0	0	0	0	0	0	1	10478	842	30	2		2	NLRP3	1	247588866	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	6610852	247588866	1661755	72	25777										
OR11L1	391189	broad.mit.edu	37	chr1	248004713	248004713	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagaagtccaacctggaaatCatcagggaaggcagaaagcc	11	10	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:248004713C>T	uc001idn.1	-	1	486	c.486G>A	c.(484-486)ATG>ATA	p.M162I		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	162	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			ACCTGGAAATCATCAGGGAAG	0.557													58	131	---	---	---	---	PASS	T	248004713	T	T	248004713	3	4	66	1	0	0	0	0	1	0	0	0	10930	826	29	2	486	2	OR11L1	1	248004713	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	415847	248004713	1245908	73	25778										
OR2L2	26246	broad.mit.edu	37	chr1	248201836	248201836	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gattttctgtatggaaacaaGtctatctccttcactggatg	8	8	4	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:248201836G>T	uc001idw.2	+	1	363	c.267G>T	c.(265-267)AAG>AAT	p.K89N	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			atggaaacaagtctatctcct	0.303													78	259	---	---	---	---	PASS	T	248201836	T	T	248201836	3	4	66	1	0	0	0	0	1	0	0	0	11007	1020	36	3	269	3	OR2L2	1	248201836	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	197123	248201836	1048785	74	25779										
OR2M3	127062	broad.mit.edu	37	chr1	248367125	248367125	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttggtggtgggaatgtactaTggagcagctttgttcatgta	14	4	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:248367125T>A	uc010pzg.1	+	1	756	c.756T>A	c.(754-756)TAT>TAA	p.Y252*		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	252	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GAATGTACTATGGAGCAGCTT	0.493													234	162	---	---	---	---	PASS	A	248367125	A	A	248367125	4	1	66	1	0	0	0	0	0	1	0	0	11011	1471	51	5	758	5	OR2M3	1	248367125	Nonsense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	165289	248367125	883496	75	25780										
OR2T6	254879	broad.mit.edu	37	chr1	248550956	248550956	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagaggctttaccctcatggGgctcttcactcacaataaat	7	12	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:248550956G>C	uc001iei.1	+	1	47	c.47G>C	c.(46-48)GGG>GCG	p.G16A		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ACCCTCATGGGGCTCTTCACT	0.423													27	117	---	---	---	---	PASS	C	248550956	C	C	248550956	3	2	66	1	0	0	0	0	1	0	0	0	11029	1232	43	4	49	4	OR2T6	1	248550956	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	183831	248550956	699665	76	25781										
OR2T11	127077	broad.mit.edu	37	chr1	248790217	248790217	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agttttgggacagtggtacaGatgaaaagggtgtccatgat	14	4	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:248790217G>T	uc001ier.1	-	1	213	c.213C>A	c.(211-213)ATC>ATA	p.I71I		NM_001001964	NP_001001964	Q8NH01	O2T11_HUMAN	olfactory receptor, family 2, subfamily T,	71	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CAGTGGTACAGATGAAAAGGG	0.473													64	55	---	---	---	---	PASS	T	248790217	T	T	248790217	2	4	66	1	0	0	0	0	0	0	0	1	11018	932	33	2		2	OR2T11	1	248790217	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	239261	248790217	460404	77	25782										
OR14I1	401994	broad.mit.edu	37	chr1	248845215	248845215	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcctgatgtcatcacggctcTgtattggagggggtggcaaa	14	8	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr1:248845215T>C	uc001ieu.1	-	1	391	c.391A>G	c.(391-393)AGA>GGA	p.R131G		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATCACGGCTCTGTATTGGAGG	0.512													28	65	---	---	---	---	PASS	C	248845215	C	C	248845215	3	2	66	1	0	0	0	0	1	0	0	0	10947	1588	55	5	548	5	OR14I1	1	248845215	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	54998	248845215	405406	78	25783										
PXDN	7837	broad.mit.edu	37	chr2	1639256	1639256	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	attcgcccccggcatccacgCactctgtggtactgagccgt	10	16	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:1639256C>G	uc002qxa.2	-	22	4308	c.4244G>C	c.(4243-4245)TGC>TCC	p.C1415S		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1415	VWFC.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GGCATCCACGCACTCTGTGGT	0.468													9	15	---	---	---	---	PASS	G	1639256	G	G	1639256	3	3	66	1	0	0	0	0	1	0	0	0	12847	710	25	4	203	4	PXDN	2	1639256	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08		1639256	241560117	79	25784										
COLEC11	78989	broad.mit.edu	37	chr2	3691114	3691114	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctcagctgaccagcgagctcAagttcatcaagaatggtatg	10	10	4	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:3691114A>T	uc002qya.2	+	6	557	c.409A>T	c.(409-411)AAG>TAG	p.K137*	COLEC11_uc002qxz.2_Nonsense_Mutation_p.K134*|COLEC11_uc002qyb.2_Nonsense_Mutation_p.K113*|COLEC11_uc002qyc.2_Nonsense_Mutation_p.K113*|COLEC11_uc010ewo.2_Nonsense_Mutation_p.K89*|COLEC11_uc010ewp.2_Nonsense_Mutation_p.K111*|COLEC11_uc010ewq.2_Nonsense_Mutation_p.K87*|COLEC11_uc010ewr.2_Nonsense_Mutation_p.K87*|COLEC11_uc010ews.2_Nonsense_Mutation_p.K63*	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	137	Potential.					collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		CAGCGAGCTCAAGTTCATCAA	0.682													19	77	---	---	---	---	PASS	T	3691114	T	T	3691114	4	4	66	1	0	0	0	0	0	1	0	0	3711	131	5	5	510	5	COLEC11	2	3691114	Nonsense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	2051858	3691114	239508259	80	25785										
LPIN1	23175	broad.mit.edu	37	chr2	11925077	11925077	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccggtcagccaaccagtcccCgcagtcggtgggcagctcgg	14	16	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:11925077C>T	uc010yjn.1	+	10	1590	c.1316C>T	c.(1315-1317)CCG>CTG	p.P439L	LPIN1_uc010yjm.1_Missense_Mutation_p.P524L|LPIN1_uc002rbt.2_Missense_Mutation_p.P439L|LPIN1_uc010yjo.1_5'Flank	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	439					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		AACCAGTCCCCGCAGTCGGTG	0.667											OREG0014445	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	34	---	---	---	---	PASS	T	11925077	T	T	11925077	3	4	66	1	0	0	0	0	1	0	0	0	8918	652	23	1	1346	1	LPIN1	2	11925077	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	8233963	11925077	231274296	81	25786										
APOB	338	broad.mit.edu	37	chr2	21228501	21228501	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaatgggacatggaacgtagGcatgacaagaactgaattta	11	5	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:21228501G>C	uc002red.2	-	26	11367	c.11239C>G	c.(11239-11241)CCT>GCT	p.P3747A		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3747					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TGGAACGTAGGCATGACAAGA	0.383													29	130	---	---	---	---	PASS	C	21228501	C	C	21228501	3	2	66	1	0	0	0	0	1	0	0	0	785	1203	42	4	2468	4	APOB	2	21228501	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	9303424	21228501	221970872	82	25787										
NLRC4	58484	broad.mit.edu	37	chr2	32475784	32475784	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggctccgaatgaagtcactTgcagccacacctttatgttt	8	11	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:32475784T>C	uc002roi.2	-	4	1395	c.1149A>G	c.(1147-1149)GCA>GCG	p.A383A	NLRC4_uc002roj.1_Silent_p.A383A|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	383	NACHT.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TGAAGTCACTTGCAGCCACAC	0.468													22	55	---	---	---	---	PASS	C	32475784	C	C	32475784	2	2	66	1	0	0	0	0	0	0	0	1	10469	1799	63	5		5	NLRC4	2	32475784	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	11247283	32475784	210723589	83	25788										
LTBP1	4052	broad.mit.edu	37	chr2	33335712	33335712	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagacccaggaatacgtgctCaagcccaagtactttccagc	8	14	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:33335712C>G	uc002ros.2	+	4	927	c.927C>G	c.(925-927)CTC>CTG	p.L309L		NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	309					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				AATACGTGCTCAAGCCCAAGT	0.463													57	116	---	---	---	---	PASS	G	33335712	G	G	33335712	2	3	66	1	0	0	0	0	0	0	0	1	9073	813	29	2		2	LTBP1	2	33335712	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	859928	33335712	209863661	84	25789										
RASGRP3	25780	broad.mit.edu	37	chr2	33749499	33749499	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttgatgcatttttattgcagAagctccttcagctcaaaaat	6	8	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:33749499A>T	uc002rox.2	+	10	1318	c.691A>T	c.(691-693)AAG>TAG	p.K231*	RASGRP3_uc010ync.1_Nonsense_Mutation_p.K231*|RASGRP3_uc002roy.2_Nonsense_Mutation_p.K231*	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	231	Ras-GEF.				MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					TTTATTGCAGAAGCTCCTTCA	0.353													4	18	---	---	---	---	PASS	T	33749499	T	T	33749499	4	4	66	1	0	0	0	0	0	1	0	0	13076	260	9	5	717	5	RASGRP3	2	33749499	Nonsense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	413787	33749499	209449874	85	25790										
SLC8A1	6546	broad.mit.edu	37	chr2	40656664	40656664	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtaaaacagaagtctcctatCcgctacccaagcgaacacaa	6	13	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:40656664C>T	uc002rrx.2	-	1	781	c.757G>A	c.(757-759)GAT>AAT	p.D253N	SLC8A1_uc002rry.2_Missense_Mutation_p.D253N|SLC8A1_uc002rrz.2_Missense_Mutation_p.D253N|SLC8A1_uc002rsa.2_Missense_Mutation_p.D253N|SLC8A1_uc002rsd.3_Missense_Mutation_p.D253N|SLC8A1_uc002rsb.1_Missense_Mutation_p.D253N|SLC8A1_uc010fan.1_Missense_Mutation_p.D253N|SLC8A1_uc002rsc.1_Missense_Mutation_p.D253N	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	253	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	AGTCTCCTATCCGCTACCCAA	0.443													17	119	---	---	---	---	PASS	T	40656664	T	T	40656664	3	4	66	1	0	0	0	0	1	0	0	0	14706	855	30	2	2312	2	SLC8A1	2	40656664	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	6907165	40656664	202542709	86	25791										
THADA	63892	broad.mit.edu	37	chr2	43732779	43732779	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acctgggggactgtactctgTatgtcatctgtaggcccagc	12	11	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:43732779T>C	uc002rsw.3	-	24	3955	c.3603A>G	c.(3601-3603)ATA>ATG	p.I1201M	THADA_uc010far.2_Missense_Mutation_p.I470M|THADA_uc002rsx.3_Missense_Mutation_p.I1201M|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Missense_Mutation_p.I910M|THADA_uc010fat.1_Missense_Mutation_p.I348M|THADA_uc002rta.2_Missense_Mutation_p.I911M	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1201							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				CTGTACTCTGTATGTCATCTG	0.323													7	12	---	---	---	---	PASS	C	43732779	C	C	43732779	3	2	66	1	0	0	0	0	1	0	0	0	15837	1628	57	5	2318	5	THADA	2	43732779	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	3076115	43732779	199466594	87	25792										
PLEKHH2	130271	broad.mit.edu	37	chr2	43968112	43968112	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agctcttggcactctgcgttGggctcttccttccccatcat	8	15	4	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:43968112G>C	uc010yny.1	+	21	3234	c.3151G>C	c.(3151-3153)GGG>CGG	p.G1051R	PLEKHH2_uc002rtf.3_Missense_Mutation_p.G1050R	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	1051	MyTH4.|Helical; (Potential).					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				ACTCTGCGTTGGGCTCTTCCT	0.542													20	107	---	---	---	---	PASS	C	43968112	C	C	43968112	3	2	66	1	0	0	0	0	1	0	0	0	12077	1348	47	4	3229	4	PLEKHH2	2	43968112	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	235333	43968112	199231261	88	25793										
NRXN1	9378	broad.mit.edu	37	chr2	50149181	50149181	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acagccccattggactgtgcTgagttactgatgtagtttcg	11	9	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:50149181T>C	uc010fbp.2	-	6	2037	c.1230A>G	c.(1228-1230)TCA>TCG	p.S410S	NRXN1_uc002rxb.3_Silent_p.S1144S|NRXN1_uc010fbq.2_Silent_p.S1515S|NRXN1_uc002rxe.3_Silent_p.S1445S|NRXN1_uc010yon.1_Silent_p.S110S|NRXN1_uc002rxa.3_Silent_p.S107S	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	410	Cytoplasmic (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TGGACTGTGCTGAGTTACTGA	0.438													23	117	---	---	---	---	PASS	C	50149181	C	C	50149181	2	2	66	1	0	0	0	0	0	0	0	1	10665	1567	55	5		5	NRXN1	2	50149181	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	6181069	50149181	193050192	89	25794										
SPTBN1	6711	broad.mit.edu	37	chr2	54853176	54853176	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgtgtgcaggctgtggtagcCgtggccagggagctcgaggc	19	10	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:54853176C>T	uc002rxu.2	+	12	1698	c.1449C>T	c.(1447-1449)GCC>GCT	p.A483A	SPTBN1_uc002rxv.1_Silent_p.A483A|SPTBN1_uc002rxx.2_Silent_p.A470A	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	483	Spectrin 2.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			CTGTGGTAGCCGTGGCCAGGG	0.567													56	90	---	---	---	---	PASS	T	54853176	T	T	54853176	2	4	66	1	0	0	0	0	0	0	0	1	15118	639	23	1		1	SPTBN1	2	54853176	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	4703995	54853176	188346197	90	25795										
GKN2	200504	broad.mit.edu	37	chr2	69173521	69173521	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccaagcaggaaccaatccacGtctttgatcagagactccag	8	13	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:69173521G>T	uc002sfa.2	-	5	496	c.387C>A	c.(385-387)GAC>GAA	p.D129E	GKN2_uc002sfb.3_Missense_Mutation_p.D129E	NM_182536	NP_872342	Q86XP6	GKN2_HUMAN	trefoil factor interactions(z) 1 precursor	129	BRICHOS.					extracellular region					0						ACCAATCCACGTCTTTGATCA	0.448													110	173	---	---	---	---	PASS	T	69173521	T	T	69173521	3	4	66	1	0	0	0	0	1	0	0	0	6425	1136	40	1	175	1	GKN2	2	69173521	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	14320345	69173521	174025852	91	25796										
REG3G	130120	broad.mit.edu	37	chr2	79254998	79254998	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtgatgaattactttgcatgGgagaaaaatccctccaccat	8	9	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:79254998G>A	uc002snw.2	+	5	484	c.399G>A	c.(397-399)TGG>TGA	p.W133*	REG3G_uc002snx.2_Nonsense_Mutation_p.W133*|REG3G_uc010ffu.2_Nonsense_Mutation_p.W87*	NM_198448	NP_940850	Q6UW15	REG3G_HUMAN	regenerating islet-derived 3 gamma precursor	133	C-type lectin.				acute-phase response	extracellular region	sugar binding				0						ACTTTGCATGGGAGAAAAATC	0.498													128	99	---	---	---	---	PASS	A	79254998	A	A	79254998	4	1	66	1	0	0	0	0	0	1	0	0	13213	1241	43	3	413	3	REG3G	2	79254998	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	10081477	79254998	163944375	92	25797										
LRRTM1	347730	broad.mit.edu	37	chr2	80529841	80529841	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agcaggtggccgctggtgggCtcggccccatcctcgcacag	15	15	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:80529841C>G	uc002sok.1	-	2	1374	c.1104G>C	c.(1102-1104)GAG>GAC	p.E368D	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	368	Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						CGCTGGTGGGCTCGGCCCCAT	0.716										HNSCC(69;0.2)			11	10	---	---	---	---	PASS	G	80529841	G	G	80529841	3	3	66	1	0	0	0	0	1	0	0	0	9039	796	28	4	468	4	LRRTM1	2	80529841	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1274843	80529841	162669532	93	25798										
LRRTM1	347730	broad.mit.edu	37	chr2	80530675	80530675	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tccagatagagccacgtgagCtgcattaaccccgtgaactg	10	12	0	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:80530675C>T	uc002sok.1	-	2	540	c.270G>A	c.(268-270)CAG>CAA	p.Q90Q	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	90	LRR 1.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GCCACGTGAGCTGCATTAACC	0.612										HNSCC(69;0.2)			30	117	---	---	---	---	PASS	T	80530675	T	T	80530675	2	4	66	1	0	0	0	0	0	0	0	1	9039	796	28	3		3	LRRTM1	2	80530675	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	834	80530675	162668698	94	25799										
FAHD2A	51011	broad.mit.edu	37	chr2	96071537	96071537	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gagcagggagaggccaccctCtcagtggcaagaaggtaagt	15	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:96071537C>T	uc002sur.2	+	2	410	c.231C>T	c.(229-231)CTC>CTT	p.L77L	FAHD2A_uc002sus.2_Silent_p.L77L	NM_016044	NP_057128	Q96GK7	FAH2A_HUMAN	fumarylacetoacetate hydrolase domain containing	77							hydrolase activity|metal ion binding			ovary(1)	1						AGGCCACCCTCTCAGTGGCAA	0.597													10	11	---	---	---	---	PASS	T	96071537	T	T	96071537	2	4	66	1	0	0	0	0	0	0	0	1	5373	900	32	2		2	FAHD2A	2	96071537	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	15540862	96071537	147127836	95	25800										
MITD1	129531	broad.mit.edu	37	chr2	99787034	99787034	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atgtattgaagaagagtattGaacttccaacagcactccgt	8	8	0	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:99787034G>C	uc002szs.1	-	5	607	c.559C>G	c.(559-561)CAA>GAA	p.Q187E	MRPL30_uc002szl.1_Intron|MRPL30_uc002szr.2_Intron	NM_138798	NP_620153	Q8WV92	MITD1_HUMAN	MIT, microtubule interacting and transport,	187					protein transport	late endosome membrane				large_intestine(1)|ovary(1)	2						GAAGAGTATTGAACTTCCAAC	0.328													83	241	---	---	---	---	PASS	C	99787034	C	C	99787034	3	2	66	1	0	0	0	0	1	0	0	0	9595	1299	45	2	202	2	MITD1	2	99787034	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	3715497	99787034	143412339	96	25801										
MRPS9	64965	broad.mit.edu	37	chr2	105687796	105687796	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tattgcttaccttttcccaaGtggtttgtttgagaaacgag	9	7	0	1	rs147264055	by1000genomes	TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:105687796G>A	uc002tcn.3	+	3	409	c.341G>A	c.(340-342)AGT>AAT	p.S114N		NM_182640	NP_872578	P82933	RT09_HUMAN	mitochondrial ribosomal protein S9 precursor	114					DNA damage response, detection of DNA damage|translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0						CTTTTCCCAAGTGGTTTGTTT	0.219													32	26	---	---	---	---	PASS	A	105687796	A	A	105687796	3	1	66	1	0	0	0	0	1	0	0	0	9849	1029	36	3	351	3	MRPS9	2	105687796	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	5900762	105687796	137511577	97	25802										
SEPT10	151011	broad.mit.edu	37	chr2	110325422	110325422	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcgttgaccttagcaatagtGtcatcatccgttgggaactg	11	9	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:110325422G>T	uc002tew.2	-	6	1111	c.732C>A	c.(730-732)GAC>GAA	p.D244E	SEPT10_uc010ywu.1_Missense_Mutation_p.D77E|SEPT10_uc002tex.2_Missense_Mutation_p.D221E|SEPT10_uc002tey.2_Missense_Mutation_p.D244E|SEPT10_uc010ywv.1_Missense_Mutation_p.D110E|SEPT10_uc002tev.1_Missense_Mutation_p.D51E|SEPT10_uc010fjo.2_RNA|SEPT10_uc002tez.1_Missense_Mutation_p.D19E	NM_144710	NP_653311	Q9P0V9	SEP10_HUMAN	septin 10 isoform 1	244					cell cycle|cell division	septin complex	GTP binding				0						TAGCAATAGTGTCATCATCCG	0.368													22	88	---	---	---	---	PASS	T	110325422	T	T	110325422	3	4	66	1	0	0	0	0	1	0	0	0	14060	1368	48	3	656	3	SEPT10	2	110325422	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4637626	110325422	132873951	98	25803										
UGGT1	56886	broad.mit.edu	37	chr2	128886667	128886667	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgcatagattgggaatagaaGgcctttctctgcataatgtt	10	6	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:128886667G>T	uc002tps.2	+	13	1469	c.1291G>T	c.(1291-1293)GGC>TGC	p.G431C	UGGT1_uc010fme.1_Missense_Mutation_p.G306C|UGGT1_uc002tpr.2_Missense_Mutation_p.G407C	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	431					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						GGGAATAGAAGGCCTTTCTCT	0.438													30	95	---	---	---	---	PASS	T	128886667	T	T	128886667	3	4	66	1	0	0	0	0	1	0	0	0	16938	1000	35	3	1341	3	UGGT1	2	128886667	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	18561245	128886667	114312706	99	25804										
POTEE	445582	broad.mit.edu	37	chr2	132020950	132020950	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttctcttagttgtaagaaagAaaaagacgtcttgcatgaaa	8	5	2	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:132020950A>C	uc002tsn.2	+	15	1974	c.1922A>C	c.(1921-1923)GAA>GCA	p.E641A	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.E241A|POTEE_uc002tsl.2_Missense_Mutation_p.E223A|POTEE_uc010fmy.1_Missense_Mutation_p.E105A	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	641							ATP binding				0						TGTAAGAAAGAAAAAGACGTC	0.348													29	18	---	---	---	---	PASS	C	132020950	C	C	132020950	3	2	66	1	0	0	0	0	1	0	0	0	12264	246	9	5	1980	5	POTEE	2	132020950	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	3134283	132020950	111178423	100	25805										
NCKAP5	344148	broad.mit.edu	37	chr2	133540003	133540003	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gggggcttctgaactcacagCatcagtcgcggttgcagagg	15	10	3	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:133540003C>A	uc002ttp.2	-	14	4755	c.4381G>T	c.(4381-4383)GCT>TCT	p.A1461S	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1461							protein binding				0						GAACTCACAGCATCAGTCGCG	0.502													10	53	---	---	---	---	PASS	A	133540003	A	A	133540003	3	1	66	1	0	0	0	0	1	0	0	0	10223	710	25	3	1376	3	NCKAP5	2	133540003	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1519053	133540003	109659370	101	25806										
YSK4	80122	broad.mit.edu	37	chr2	135745090	135745090	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttctgggagtttatcaatgGggtcatcaaagactacactg	10	8	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:135745090G>T	uc002tue.1	-	7	1383	c.1352C>A	c.(1351-1353)CCC>CAC	p.P451H	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Missense_Mutation_p.P338H|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Missense_Mutation_p.P179H|YSK4_uc002tui.3_Missense_Mutation_p.P468H	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	451							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TTTATCAATGGGGTCATCAAA	0.358													72	59	---	---	---	---	PASS	T	135745090	T	T	135745090	3	4	66	1	0	0	0	0	1	0	0	0	17492	1232	43	3	2650	3	YSK4	2	135745090	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2205087	135745090	107454283	102	25807										
THSD7B	80731	broad.mit.edu	37	chr2	138421125	138421125	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgatatttttaaaggatggtCtcttcaaccacttgatccag	7	8	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:138421125C>A	uc002tva.1	+	25	4544	c.4544C>A	c.(4543-4545)TCT>TAT	p.S1515Y	THSD7B_uc010zbj.1_RNA	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AAAGGATGGTCTCTTCAACCA	0.358													7	8	---	---	---	---	PASS	A	138421125	A	A	138421125	3	1	66	1	0	0	0	0	1	0	0	0	15877	913	32	2	4641	2	THSD7B	2	138421125	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2676035	138421125	104778248	103	25808										
TANC1	85461	broad.mit.edu	37	chr2	159954259	159954259	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctatagggtgagcttggccAaaggtgtctcgatgtctctg	13	9	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:159954259A>G	uc002uag.2	+	4	446	c.172A>G	c.(172-174)AAA>GAA	p.K58E	TANC1_uc010fol.1_Missense_Mutation_p.K58E|TANC1_uc010zcm.1_Missense_Mutation_p.K58E|TANC1_uc010fom.1_Missense_Mutation_p.K58E	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	58						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						GAGCTTGGCCAAAGGTGTCTC	0.522													102	100	---	---	---	---	PASS	G	159954259	G	G	159954259	3	3	66	1	0	0	0	0	1	0	0	0	15541	131	5	5	178	5	TANC1	2	159954259	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	21533134	159954259	83245114	104	25809										
SLC4A10	57282	broad.mit.edu	37	chr2	162735758	162735758	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttgtcaggttgtctccagctGtattgcttcaaggactggct	11	9	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:162735758G>A	uc002ubx.3	+	9	1250	c.1066G>A	c.(1066-1068)GTA>ATA	p.V356I	SLC4A10_uc010fpa.1_Missense_Mutation_p.V368I|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.V326I|SLC4A10_uc010zcs.1_Missense_Mutation_p.V337I	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	356	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						GTCTCCAGCTGTATTGCTTCA	0.413													77	76	---	---	---	---	PASS	A	162735758	A	A	162735758	3	1	66	1	0	0	0	0	1	0	0	0	14651	1377	48	3	1185	3	SLC4A10	2	162735758	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2781499	162735758	80463615	105	25810										
SLC4A10	57282	broad.mit.edu	37	chr2	162760591	162760591	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttcagagatgctttcagccTgcagtgcttagcatcttttc	8	11	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:162760591T>A	uc002ubx.3	+	13	1704	c.1520T>A	c.(1519-1521)CTG>CAG	p.L507Q	SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.L477Q|SLC4A10_uc010zcs.1_Missense_Mutation_p.L488Q	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	507	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						GCTTTCAGCCTGCAGTGCTTA	0.443													4	18	---	---	---	---	PASS	A	162760591	A	A	162760591	3	1	66	1	0	0	0	0	1	0	0	0	14651	1580	55	5	1655	5	SLC4A10	2	162760591	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	24833	162760591	80438782	106	25811										
GCG	2641	broad.mit.edu	37	chr2	163003945	163003945	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttgctgtagtcactggtgaAtgtgccctgtgaatggcgct	13	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:163003945A>C	uc002ucc.2	-	3	271	c.172T>G	c.(172-174)TTC>GTC	p.F58V		NM_002054	NP_002045	P01275	GLUC_HUMAN	glucagon preproprotein	58					cell proliferation|cellular response to glucagon stimulus|energy reserve metabolic process|feeding behavior|regulation of insulin secretion	plasma membrane|soluble fraction	hormone activity				0					Exenatide(DB01276)|Phentolamine(DB00692)	TCACTGGTGAATGTGCCCTGT	0.498													142	156	---	---	---	---	PASS	C	163003945	C	C	163003945	3	2	66	1	0	0	0	0	1	0	0	0	6290	101	4	5	386	5	GCG	2	163003945	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	243354	163003945	80195428	107	25812										
FAP	2191	broad.mit.edu	37	chr2	163051246	163051246	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	catcatgaagggtggaaatgGggatgcctgggcctgtgggc	18	7	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:163051246G>A	uc002ucd.2	-	17	1623	c.1415C>T	c.(1414-1416)CCC>CTC	p.P472L	FAP_uc010fpc.2_Missense_Mutation_p.P21L|FAP_uc010zct.1_Missense_Mutation_p.P447L|FAP_uc010fpd.2_5'UTR	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	472	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						GGTGGAAATGGGGATGCCTGG	0.443													17	47	---	---	---	---	PASS	A	163051246	A	A	163051246	3	1	66	1	0	0	0	0	1	0	0	0	5673	1232	43	3	907	3	FAP	2	163051246	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	47301	163051246	80148127	108	25813										
GCA	25801	broad.mit.edu	37	chr2	163216741	163216741	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tattagtttttgcagggcacTatggcaatttgaatgcttag	10	5	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:163216741T>C	uc002ucg.2	+	8	818	c.642T>C	c.(640-642)ACT>ACC	p.T214T	GCA_uc010zcu.1_Silent_p.T195T	NM_012198	NP_036330	P28676	GRAN_HUMAN	grancalcin, EF-hand calcium binding protein	214					cellular membrane fusion	cytoplasm|plasma membrane	calcium ion binding|protein homodimerization activity				0						TGCAGGGCACTATGGCAATTT	0.274													32	43	---	---	---	---	PASS	C	163216741	C	C	163216741	2	2	66	1	0	0	0	0	0	0	0	1	6283	1509	53	5		5	GCA	2	163216741	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	165495	163216741	79982632	109	25814										
SCN3A	6328	broad.mit.edu	37	chr2	166020188	166020188	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaatgttctcaacgctgagaCattgcccaggtccacaaact	8	12	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:166020188C>T	uc002ucx.2	-	7	1126	c.634G>A	c.(634-636)GTC>ATC	p.V212I	SCN3A_uc002ucy.2_Missense_Mutation_p.V212I|SCN3A_uc002ucz.2_Intron|SCN3A_uc002uda.1_Missense_Mutation_p.V81I|SCN3A_uc002udb.1_Intron	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	212						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	AACGCTGAGACATTGCCCAGG	0.418													16	63	---	---	---	---	PASS	T	166020188	T	T	166020188	3	4	66	1	0	0	0	0	1	0	0	0	13918	478	17	3	5456	3	SCN3A	2	166020188	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2803447	166020188	77179185	110	25815										
SCN2A	6326	broad.mit.edu	37	chr2	166172106	166172106	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agtgaaaaagagctgaaaaaCagaagaaagaaaaagaaaca	9	3	0	7			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:166172106C>G	uc002udc.2	+	11	1799	c.1509C>G	c.(1507-1509)AAC>AAG	p.N503K	SCN2A_uc002udd.2_Missense_Mutation_p.N503K|SCN2A_uc002ude.2_Missense_Mutation_p.N503K	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	503					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	AGCTGAaaaacagaagaaaga	0.299													14	63	---	---	---	---	PASS	G	166172106	G	G	166172106	3	3	66	1	0	0	0	0	1	0	0	0	13916	477	17	4	1643	4	SCN2A	2	166172106	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	151918	166172106	77027267	111	25816										
SCN1A	6323	broad.mit.edu	37	chr2	166848358	166848358	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcaaacttctcccaaacctcAtagaacatctcaaagtcatc	2	14	5	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:166848358A>G	uc010zcz.1	-	26	5412	c.5394T>C	c.(5392-5394)TAT>TAC	p.Y1798Y		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1809	IV.		Missing (in SMEI).			voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CCCAAACCTCATAGAACATCT	0.458													34	118	---	---	---	---	PASS	G	166848358	G	G	166848358	2	3	66	1	0	0	0	0	0	0	0	1	13914	224	8	5		5	SCN1A	2	166848358	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	676252	166848358	76351015	112	25817										
LRP2	4036	broad.mit.edu	37	chr2	170042516	170042516	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccactgattgaagggtcatgGcattcattaatgcctgtagg	11	8	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:170042516G>A	uc002ues.2	-	50	9555	c.9342C>T	c.(9340-9342)TGC>TGT	p.C3114C		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3114	EGF-like 11.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AAGGGTCATGGCATTCATTAA	0.408													35	39	---	---	---	---	PASS	A	170042516	A	A	170042516	2	1	66	1	0	0	0	0	0	0	0	1	8956	1195	42	3		3	LRP2	2	170042516	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	3194158	170042516	73156857	113	25818										
TTN	7273	broad.mit.edu	37	chr2	179500826	179500826	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atgacgcctggcacaattcgGccaggtttctccaccacaat	8	14	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:179500826G>T	uc010zfg.1	-	175	33992	c.33768C>A	c.(33766-33768)GGC>GGA	p.G11256G	TTN_uc010zfh.1_Silent_p.G4951G|TTN_uc010zfi.1_Silent_p.G4884G|TTN_uc010zfj.1_Silent_p.G4759G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12183							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)			GCACAATTCGGCCAGGTTTCT	0.512													16	63	---	---	---	---	PASS	T	179500826	T	T	179500826	2	4	66	1	0	0	0	0	0	0	0	1	16732	1190	42	3		3	TTN	2	179500826	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	9458310	179500826	63698547	114	25819										
TTN	7273	broad.mit.edu	37	chr2	179600527	179600527	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtggcttatcaatgatgatCaactctgcttggcagatgtc	10	8	3	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:179600527C>G	uc010zfg.1	-	47	11138	c.10914G>C	c.(10912-10914)TTG>TTC	p.L3638F	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.L299F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4565							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)			CAATGATGATCAACTCTGCTT	0.398													19	45	---	---	---	---	PASS	G	179600527	G	G	179600527	3	3	66	1	0	0	0	0	1	0	0	0	16732	825	29	2	90135	2	TTN	2	179600527	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	99701	179600527	63598846	115	25820										
TTN	7273	broad.mit.edu	37	chr2	179605786	179605786	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agtgcttcaactgcgggaccCtttaagggtgtctgtggaaa	13	8	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:179605786C>T	uc010zfh.1	-	46	11885	c.11661G>A	c.(11659-11661)AAG>AAA	p.K3887K	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Silent_p.K3820K|TTN_uc010zfj.1_Silent_p.K3695K|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	3827							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)			CTGCGGGACCCTTTAAGGGTG	0.463													71	234	---	---	---	---	PASS	T	179605786	T	T	179605786	2	4	66	1	0	0	0	0	0	0	0	1	16732	680	24	3		3	TTN	2	179605786	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	5259	179605786	63593587	116	25821										
TTN	7273	broad.mit.edu	37	chr2	179635938	179635938	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acaaatcctatgttacttgcCttcaactttgagtttggcag	7	9	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:179635938C>A	uc010zfg.1	-	34	8340	c.8116G>T	c.(8116-8118)GCT>TCT	p.A2706S	TTN_uc010zfh.1_Missense_Mutation_p.A2660S|TTN_uc010zfi.1_Missense_Mutation_p.A2660S|TTN_uc010zfj.1_Missense_Mutation_p.A2660S|TTN_uc002unb.2_Missense_Mutation_p.A2706S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2706							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)			TGTTACTTGCCTTCAACTTTG	0.358													10	49	---	---	---	---	PASS	A	179635938	A	A	179635938	3	1	66	1	0	0	0	0	1	0	0	0	16732	695	24	3	103188	3	TTN	2	179635938	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	30152	179635938	63563435	117	25822										
TTN	7273	broad.mit.edu	37	chr2	179648829	179648829	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tccgtgcagtacttcaaagcGctcttcacggacggtggtgc	12	12	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:179648829G>C	uc010zfg.1	-	16	2967	c.2743C>G	c.(2743-2745)CGC>GGC	p.R915G	TTN_uc010zfh.1_Missense_Mutation_p.R869G|TTN_uc010zfi.1_Missense_Mutation_p.R869G|TTN_uc010zfj.1_Missense_Mutation_p.R869G|TTN_uc002unb.2_Missense_Mutation_p.R915G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	915							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)			ACTTCAAAGCGCTCTTCACGG	0.552													47	64	---	---	---	---	PASS	C	179648829	C	C	179648829	3	2	66	1	0	0	0	0	1	0	0	0	16732	1087	38	4	108633	4	TTN	2	179648829	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	12891	179648829	63550544	118	25823										
DUSP19	142679	broad.mit.edu	37	chr2	183943829	183943829	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agtgggggtggttgtggttaTgtgcaggaccttagctcgga	18	5	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:183943829T>C	uc002upd.2	+	1	543	c.168T>C	c.(166-168)TAT>TAC	p.Y56Y	DUSP19_uc010frp.2_Silent_p.Y56Y|DUSP19_uc010zfr.1_RNA|DUSP19_uc002upe.2_Silent_p.Y56Y	NM_080876	NP_543152	Q8WTR2	DUS19_HUMAN	dual specificity phosphatase 19 isoform 1	56					JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|positive regulation of JNK cascade|positive regulation of JUN kinase activity	cytoplasm	JUN kinase phosphatase activity|MAP-kinase scaffold activity|mitogen-activated protein kinase kinase kinase binding|protein kinase activator activity|protein kinase inhibitor activity|protein tyrosine phosphatase activity			ovary(4)|pancreas(1)	5						GTTGTGGTTATGTGCAGGACC	0.453													46	50	---	---	---	---	PASS	C	183943829	C	C	183943829	2	2	66	1	0	0	0	0	0	0	0	1	4818	1471	51	5		5	DUSP19	2	183943829	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	4295000	183943829	59255544	119	25824										
ZNF804A	91752	broad.mit.edu	37	chr2	185803426	185803426	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtaaccactatccatcacacTgttttgcagcagcacgctgc	7	14	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:185803426T>A	uc002uph.2	+	4	3897	c.3303T>A	c.(3301-3303)ACT>ACA	p.T1101T		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	1101						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TCCATCACACTGTTTtgcagc	0.373													25	88	---	---	---	---	PASS	A	185803426	A	A	185803426	2	1	66	1	0	0	0	0	0	0	0	1	18167	1567	55	5		5	ZNF804A	2	185803426	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	1859597	185803426	57395947	120	25825										
PLCL1	5334	broad.mit.edu	37	chr2	198950611	198950611	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttccaagtaaacctacctgaGctggccatgatccgttttgt	8	11	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:198950611G>C	uc010fsp.2	+	2	2661	c.2370G>C	c.(2368-2370)GAG>GAC	p.E790D	PLCL1_uc002uuv.3_Missense_Mutation_p.E711D	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	790	C2.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	ACCTACCTGAGCTGGCCATGA	0.393													69	67	---	---	---	---	PASS	C	198950611	C	C	198950611	3	2	66	1	0	0	0	0	1	0	0	0	12039	962	34	4	2376	4	PLCL1	2	198950611	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	13147185	198950611	44248762	121	25826										
CLK1	1195	broad.mit.edu	37	chr2	201722523	201722523	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaaccattttctttaatgaaGtcgtaagtactaagtcccaa	5	8	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:201722523G>C	uc002uwe.2	-	7	931	c.750C>G	c.(748-750)GAC>GAG	p.D250E	CLK1_uc002uwd.2_Missense_Mutation_p.D73E|CLK1_uc010zhi.1_Missense_Mutation_p.D292E|CLK1_uc002uwf.2_Missense_Mutation_p.D24E|CLK1_uc002uwg.2_Missense_Mutation_p.D99E|CLK1_uc010fsv.2_RNA	NM_004071	NP_004062	P49759	CLK1_HUMAN	CDC-like kinase 1 isoform 1	250	Protein kinase.				cell proliferation	nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			pancreas(2)	2						CTTTAATGAAGTCGTAAGTAC	0.368													21	48	---	---	---	---	PASS	C	201722523	C	C	201722523	3	2	66	1	0	0	0	0	1	0	0	0	3536	1020	36	4	732	4	CLK1	2	201722523	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2771912	201722523	41476850	122	25827										
MPP4	58538	broad.mit.edu	37	chr2	202550668	202550668	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgttggtttttcactaaacAaacaatcctcattgcttcct	4	11	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:202550668A>T	uc002uyk.3	-	6	674	c.466T>A	c.(466-468)TGT>AGT	p.C156S	MPP4_uc010ftj.2_Missense_Mutation_p.C156S|MPP4_uc010zhq.1_Missense_Mutation_p.C156S|MPP4_uc010zhr.1_Missense_Mutation_p.C156S|MPP4_uc010zhs.1_Intron|MPP4_uc002uyj.3_Intron|MPP4_uc010zht.1_Missense_Mutation_p.C129S|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.C156S|MPP4_uc002uym.1_Intron|MPP4_uc002uyn.2_Intron	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	156	PDZ.					cytoplasm	protein binding				0						TTCACTAAACAAACAATCCTC	0.413													34	114	---	---	---	---	PASS	T	202550668	T	T	202550668	3	4	66	1	0	0	0	0	1	0	0	0	9736	130	5	5	1515	5	MPP4	2	202550668	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	828145	202550668	40648705	123	25828										
SUMO1	7341	broad.mit.edu	37	chr2	203084829	203084829	+	Frame_Shift_Del	DEL	C	-	-													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctcagttgaaggttttgcctCctgaaagaaaattaaatttc							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:203084829delC	uc002uyz.1	-	2	161	c.13delG	c.(13-15)GAGfs	p.E5fs	SUMO1_uc002uza.1_Intron	NM_001005781	NP_001005781	P63165	SUMO1_HUMAN	SMT3 suppressor of mif two 3 homolog 1 isoform a	5					DNA repair|interferon-gamma-mediated signaling pathway|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|palate development|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein complex assembly|protein sumoylation|regulation of interferon-gamma-mediated signaling pathway|regulation of protein localization	cytoplasm|nuclear membrane|nuclear pore|nuclear speck	ubiquitin protein ligase binding				0						GGTTTTGCCTCCTGAAAGAAA	0.338													127	130	---	---	---	---		-	203084829	-	-	203084829	7	5	66	1	0	1	0	1	0	0	0	0	15384	869	30	0	308	0	SUMO1	2	203084829	Frame_Shift_Del	DEL	C	TCGA-34-5231-01A-21D-1817-08	534161	203084829	40114544	124	25829										
NOP58	51602	broad.mit.edu	37	chr2	203167649	203167649	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acttaccctattcagttgaaGaagaggaagaagaaaaagtg	10	5	1	5			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:203167649G>A	uc002uzb.2	+	14	1558	c.1408G>A	c.(1408-1410)GAA>AAA	p.E470K		NM_015934	NP_057018	Q9Y2X3	NOP58_HUMAN	NOP58 ribonucleoprotein homolog	470	Lys-rich.				cell growth|rRNA processing|snRNP protein import into nucleus	box C/D snoRNP complex|Cajal body|cytoplasm|pre-snoRNP complex	protein binding|snoRNA binding				0						TTCAGTTgaagaagaggaaga	0.244													49	51	---	---	---	---	PASS	A	203167649	A	A	203167649	3	1	66	1	0	0	0	0	1	0	0	0	10540	943	33	2	1462	2	NOP58	2	203167649	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	82820	203167649	40031724	125	25830										
NBEAL1	65065	broad.mit.edu	37	chr2	204066306	204066306	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gttcttttgctcccgggctaGagatcacttctaagctattt	8	10	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:204066306G>C	uc002uzt.3	+	49	7525	c.7192G>C	c.(7192-7194)GAG>CAG	p.E2398Q	NBEAL1_uc002uzs.3_Missense_Mutation_p.E1039Q	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	2398							binding			ovary(1)|skin(1)	2						TCCCGGGCTAGAGATCACTTC	0.383													34	108	---	---	---	---	PASS	C	204066306	C	C	204066306	3	2	66	1	0	0	0	0	1	0	0	0	10188	943	33	2	7382	2	NBEAL1	2	204066306	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	898657	204066306	39133067	126	25831										
C2orf80	389073	broad.mit.edu	37	chr2	209045987	209045987	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaaatcatagcttctcgttcTctacgatttggatatatggg	8	7	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:209045987T>C	uc002vcr.2	-	5	421	c.249A>G	c.(247-249)AGA>AGG	p.R83R		NM_001099334	NP_001092804	Q0P641	CB080_HUMAN	hypothetical protein LOC389073	83										skin(1)	1						CTTCTCGTTCTCTACGATTTG	0.353													20	71	---	---	---	---	PASS	C	209045987	C	C	209045987	2	2	66	1	0	0	0	0	0	0	0	1	2197	1548	54	5		5	C2orf80	2	209045987	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	4979681	209045987	34153386	127	25832										
ERBB4	2066	broad.mit.edu	37	chr2	212426717	212426717	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctccaacaggcagccatgggGcataagttgagtaaccagct	11	11	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:212426717G>A	uc002veg.1	-	20	2496	c.2398C>T	c.(2398-2400)CCC>TCC	p.P800S	ERBB4_uc002veh.1_Missense_Mutation_p.P800S|ERBB4_uc010zji.1_Missense_Mutation_p.P790S|ERBB4_uc010zjj.1_Missense_Mutation_p.P790S|ERBB4_uc010fut.1_Missense_Mutation_p.P800S	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	800	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CAGCCATGGGGCATAAGTTGA	0.507										TSP Lung(8;0.080)			45	70	---	---	---	---	PASS	A	212426717	A	A	212426717	3	1	66	1	0	0	0	0	1	0	0	0	5209	1203	42	3	1564	3	ERBB4	2	212426717	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	3380730	212426717	30772656	128	25833										
SPAG16	79582	broad.mit.edu	37	chr2	215274882	215274882	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggtcgagttttagctcaggCaagtggcaatggtgttatcc	13	7	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:215274882C>A	uc002veq.2	+	16	1831	c.1739C>A	c.(1738-1740)GCA>GAA	p.A580E	SPAG16_uc002ver.2_Missense_Mutation_p.A526E|SPAG16_uc010zjk.1_Missense_Mutation_p.A486E|VWC2L_uc002vet.2_5'Flank|VWC2L_uc010zjl.1_5'Flank	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	580	WD 6.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		TTAGCTCAGGCAAGTGGCAAT	0.423													17	55	---	---	---	---	PASS	A	215274882	A	A	215274882	3	1	66	1	0	0	0	0	1	0	0	0	14978	710	25	3	1817	3	SPAG16	2	215274882	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2848165	215274882	27924491	129	25834										
VWC2L	402117	broad.mit.edu	37	chr2	215440412	215440412	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcaggtccaaactgctttgcAggaacgacgataattccagc	9	11	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:215440412A>T	uc002vet.2	+	4	667	c.537A>T	c.(535-537)GCA>GCT	p.A179A	VWC2L_uc010zjl.1_Missense_Mutation_p.Q136L	NM_001080500	NP_001073969	B2RUY7	VWC2L_HUMAN	von Willebrand factor C domain-containing	179						extracellular region					0						ACTGCTTTGCAGGAACGACGA	0.478													40	91	---	---	---	---	PASS	T	215440412	T	T	215440412	2	4	66	1	0	0	0	0	0	0	0	1	17241	175	7	5		5	VWC2L	2	215440412	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	165530	215440412	27758961	130	25835										
FN1	2335	broad.mit.edu	37	chr2	216289835	216289835	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acctgtctcttggcagctgaCtccgttgcccaggcacgtgc	11	15	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:216289835C>T	uc002vfa.2	-	7	1284	c.1018G>A	c.(1018-1020)GTC>ATC	p.V340I	FN1_uc002vfb.2_Missense_Mutation_p.V340I|FN1_uc002vfc.2_Missense_Mutation_p.V340I|FN1_uc002vfd.2_Missense_Mutation_p.V340I|FN1_uc002vfe.2_Missense_Mutation_p.V340I|FN1_uc002vff.2_Missense_Mutation_p.V340I|FN1_uc002vfg.2_Missense_Mutation_p.V340I|FN1_uc002vfh.2_Missense_Mutation_p.V340I|FN1_uc002vfi.2_Missense_Mutation_p.V340I|FN1_uc002vfj.2_Missense_Mutation_p.V340I|FN1_uc002vfl.2_Missense_Mutation_p.V340I	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	340	Fibronectin type-I 6.|Collagen-binding.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGGCAGCTGACTCCGTTGCCC	0.423													79	154	---	---	---	---	PASS	T	216289835	T	T	216289835	3	4	66	1	0	0	0	0	1	0	0	0	5962	565	20	3	6608	3	FN1	2	216289835	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	849423	216289835	26909538	131	25836										
IRS1	3667	broad.mit.edu	37	chr2	227663167	227663167	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgctcggcctcgctgtccgcCgcgatggcaaagtgctcgtc	13	15	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:227663167C>A	uc002voh.3	-	1	340	c.288G>T	c.(286-288)GCG>GCT	p.A96A		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	96	PH.|Mediates interaction with PHIP (By similarity).				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		CGCTGTCCGCCGCGATGGCAA	0.637											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	72	---	---	---	---	PASS	A	227663167	A	A	227663167	2	1	66	1	0	0	0	0	0	0	0	1	7840	639	23	1		1	IRS1	2	227663167	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	11373332	227663167	15536206	132	25837										
COL4A3	1285	broad.mit.edu	37	chr2	228115904	228115904	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggcctgttggcccacctggtCctccgggattctttgtgagt	13	12	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:228115904C>A	uc002vom.1	+	10	757	c.595C>A	c.(595-597)CCT>ACT	p.P199T	COL4A3_uc002von.1_Missense_Mutation_p.P199T|COL4A3_uc002voo.1_Missense_Mutation_p.P199T|COL4A3_uc002vop.1_Missense_Mutation_p.P199T|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	199	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)		CCCACCTGGTCCTCCGGGATT	0.358													23	60	---	---	---	---	PASS	A	228115904	A	A	228115904	3	1	66	1	0	0	0	0	1	0	0	0	3691	855	30	2	633	2	COL4A3	2	228115904	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	452737	228115904	15083469	133	25838										
CAPN10	11132	broad.mit.edu	37	chr2	241534701	241534701	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgggcaagcactaccaggctGtgggtctgcacctctggaag	14	12	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:241534701G>T	uc002vzk.1	+	7	1442	c.1258G>T	c.(1258-1260)GTG>TTG	p.V420L	CAPN10_uc010zoh.1_Missense_Mutation_p.V420L|CAPN10_uc002vzl.1_Missense_Mutation_p.V420L|CAPN10_uc002vzm.1_Intron|CAPN10_uc002vzn.1_Missense_Mutation_p.V292L|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_RNA|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	420	Domain III 1.				actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		CTACCAGGCTGTGGGTCTGCA	0.662													8	18	---	---	---	---	PASS	T	241534701	T	T	241534701	3	4	66	1	0	0	0	0	1	0	0	0	2623	1377	48	3	1284	3	CAPN10	2	241534701	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	13418797	241534701	1664672	134	25839										
FARP2	9855	broad.mit.edu	37	chr2	242396180	242396180	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggcctttccacgaagagtcCtcagccttctccctccagcc	7	18	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr2:242396180C>A	uc002wbi.1	+	14	1547	c.1430C>A	c.(1429-1431)CCT>CAT	p.P477H	FARP2_uc010zoq.1_Missense_Mutation_p.P477H|FARP2_uc010zor.1_Missense_Mutation_p.P477H	NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	477	Pro-rich.				axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		ACGAAGAGTCCTCAGCCTTCT	0.597													4	129	---	---	---	---	PASS	A	242396180	A	A	242396180	3	1	66	1	0	0	0	0	1	0	0	0	5677	681	24	3	1480	3	FARP2	2	242396180	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	861479	242396180	803193	135	25840										
NGLY1	55768	broad.mit.edu	37	chr3	25792627	25792627	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctctcgataacttttcttgtGatttcctttttagttcttgg	6	8	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:25792627G>A	uc003cdl.2	-	4	728	c.620C>T	c.(619-621)TCA>TTA	p.S207L	NGLY1_uc010hfg.2_Missense_Mutation_p.S207L|NGLY1_uc003cdm.2_Missense_Mutation_p.S207L|NGLY1_uc011awo.1_Missense_Mutation_p.S165L|NGLY1_uc003cdk.2_RNA	NM_018297	NP_060767	Q96IV0	NGLY1_HUMAN	N-glycanase 1 isoform 1	207					glycoprotein catabolic process	cytoplasm	metal ion binding|peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase activity|protein binding			breast(1)	1						CTTTTCTTGTGATTTCCTTTT	0.348													21	8	---	---	---	---	PASS	A	25792627	A	A	25792627	3	1	66	1	0	0	0	0	1	0	0	0	10398	1294	45	2	1476	2	NGLY1	3	25792627	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08		25792627	172229803	136	25841										
CMTM7	112616	broad.mit.edu	37	chr3	32483427	32483427	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtggtcaccatttgcgacttGataatgatcctcgcctttta	8	10	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:32483427G>C	uc003cey.1	+	2	491	c.255G>C	c.(253-255)TTG>TTC	p.L85F	CMTM7_uc003cez.1_Missense_Mutation_p.L85F	NM_138410	NP_612419	Q96FZ5	CKLF7_HUMAN	CKLF-like MARVEL transmembrane domain containing	85	Helical; (Potential).|MARVEL.				chemotaxis	extracellular space|integral to membrane	cytokine activity				0						TTTGCGACTTGATAATGATCC	0.562													65	40	---	---	---	---	PASS	C	32483427	C	C	32483427	3	2	66	1	0	0	0	0	1	0	0	0	3588	1281	45	2	261	2	CMTM7	3	32483427	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	6690800	32483427	165539003	137	25842										
SCN5A	6331	broad.mit.edu	37	chr3	38601752	38601752	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cactggctcttgttgttcacGatggtgtagttcaaaggcaa	11	8	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:38601752G>T	uc003cio.2	-	23	4325	c.4131C>A	c.(4129-4131)ATC>ATA	p.I1377I	SCN5A_uc003cin.2_Silent_p.I1376I|SCN5A_uc003cil.3_Silent_p.I1377I|SCN5A_uc010hhi.2_Silent_p.I1377I|SCN5A_uc010hhk.2_Silent_p.I1376I|SCN5A_uc011ayr.1_Silent_p.I1323I|SCN5A_uc010hhj.1_Silent_p.I987I	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1377					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	TGTTGTTCACGATGGTGTAGT	0.522													19	12	---	---	---	---	PASS	T	38601752	T	T	38601752	2	4	66	1	0	0	0	0	0	0	0	1	13922	1048	37	2		2	SCN5A	3	38601752	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	6118325	38601752	159420678	138	25843										
SCN11A	11280	broad.mit.edu	37	chr3	38888607	38888607	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acgcaaaggctcaggcaaggCatcagcaaagtcagaaaggg	13	9	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:38888607C>T	uc011ays.1	-	26	5153	c.4954G>A	c.(4954-4956)GCC>ACC	p.A1652T		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1652					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	TCAGGCAAGGCATCAGCAAAG	0.418													50	26	---	---	---	---	PASS	T	38888607	T	T	38888607	3	4	66	1	0	0	0	0	1	0	0	0	13913	710	25	3	425	3	SCN11A	3	38888607	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	286855	38888607	159133823	139	25844										
ZNF619	285267	broad.mit.edu	37	chr3	40529090	40529090	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcagttctgattcagcatcaGagaatccacactggggagaa	10	9	4	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:40529090G>T	uc011azb.1	+	6	1487	c.1209G>T	c.(1207-1209)CAG>CAT	p.Q403H	ZNF619_uc010hhz.2_Missense_Mutation_p.Q354H|ZNF619_uc003ckj.2_Missense_Mutation_p.Q347H|ZNF619_uc011azc.1_Missense_Mutation_p.Q363H|ZNF619_uc011azd.1_Missense_Mutation_p.Q319H|ZNF619_uc011aza.1_Missense_Mutation_p.Q305H	NM_001145082	NP_001138554	E9PCD9	E9PCD9_HUMAN	zinc finger protein 619 isoform 1	403					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		TTCAGCATCAGAGAATCCACA	0.468													27	23	---	---	---	---	PASS	T	40529090	T	T	40529090	3	4	66	1	0	0	0	0	1	0	0	0	18040	933	33	2	1249	2	ZNF619	3	40529090	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1640483	40529090	157493340	140	25845										
SMARCC1	6599	broad.mit.edu	37	chr3	47704056	47704056	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acatgttccgacactttgttCcaatcatccttgtacatctc	4	13	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:47704056C>G	uc003crq.2	-	20	2044	c.1926G>C	c.(1924-1926)TGG>TGC	p.W642C	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Missense_Mutation_p.W533C	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	642	SANT.				chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		ACACTTTGTTCCAATCATCCT	0.398													43	14	---	---	---	---	PASS	G	47704056	G	G	47704056	3	3	66	1	0	0	0	0	1	0	0	0	14775	856	30	2	1427	2	SMARCC1	3	47704056	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	7174966	47704056	150318374	141	25846										
ATRIP	84126	broad.mit.edu	37	chr3	48501837	48501837	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcgtgagctctggggtagagAccaaccctgaggactcagtg	15	10	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:48501837A>G	uc003ctf.1	+	8	1416	c.1384A>G	c.(1384-1386)ACC>GCC	p.T462A	ATRIP_uc011bbj.1_Missense_Mutation_p.T335A|ATRIP_uc003ctg.1_Missense_Mutation_p.T462A|TREX1_uc010hjy.2_Intron	NM_130384	NP_569055	Q8WXE1	ATRIP_HUMAN	ATR interacting protein isoform 1	462					DNA damage checkpoint|DNA repair|DNA replication	nucleoplasm	protein binding|protein serine/threonine kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TGGGGTAGAGACCAACCCTGA	0.587								Other_conserved_DNA_damage_response_genes					41	22	---	---	---	---	PASS	G	48501837	G	G	48501837	3	3	66	1	0	0	0	0	1	0	0	0	1205	275	10	5	1414	5	ATRIP	3	48501837	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	797781	48501837	149520593	142	25847										
CELSR3	1951	broad.mit.edu	37	chr3	48678785	48678785	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tggcgctgggcccggcccagAgaagtctcatccccactggt	13	15	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:48678785A>G	uc003cul.2	-	33	9278	c.8997T>C	c.(8995-8997)TCT>TCC	p.S2999S	CELSR3_uc003cuf.1_Silent_p.S3097S|CELSR3_uc010hkf.2_Silent_p.S289S|CELSR3_uc010hkg.2_Silent_p.S982S	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	2999	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CCCGGCCCAGAGAAGTCTCAT	0.647													65	33	---	---	---	---	PASS	G	48678785	G	G	48678785	2	3	66	1	0	0	0	0	0	0	0	1	3223	291	11	5		5	CELSR3	3	48678785	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	176948	48678785	149343645	143	25848										
CELSR3	1951	broad.mit.edu	37	chr3	48696418	48696418	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tctggttgactaccagcagcTgcagctcattgccacgctca	9	14	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:48696418T>A	uc003cul.2	-	1	3931	c.3650A>T	c.(3649-3651)CAG>CTG	p.Q1217L	CELSR3_uc003cuf.1_Missense_Mutation_p.Q1287L	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1217	Extracellular (Potential).|Cadherin 9.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TACCAGCAGCTGCAGCTCATT	0.572													25	9	---	---	---	---	PASS	A	48696418	A	A	48696418	3	1	66	1	0	0	0	0	1	0	0	0	3223	1580	55	5	6428	5	CELSR3	3	48696418	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	17633	48696418	149326012	144	25849										
CACNA1D	776	broad.mit.edu	37	chr3	53752342	53752342	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccacagctagcatgcccaccAgcgagactgagtctgtgaac	10	14	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:53752342A>T	uc003dgv.3	+	10	1568	c.1405A>T	c.(1405-1407)AGC>TGC	p.S469C	CACNA1D_uc003dgu.3_Missense_Mutation_p.S469C|CACNA1D_uc003dgy.3_Missense_Mutation_p.S469C|CACNA1D_uc003dgw.3_Missense_Mutation_p.S116C	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	469	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	CATGCCCACCAGCGAGACTGA	0.627													43	20	---	---	---	---	PASS	T	53752342	T	T	53752342	3	4	66	1	0	0	0	0	1	0	0	0	2541	188	7	5	1551	5	CACNA1D	3	53752342	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	5055924	53752342	144270088	145	25850										
ADAMTS9	56999	broad.mit.edu	37	chr3	64627625	64627625	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccccaggatccatctgtcacGgggacatccatttctttggg	10	13	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:64627625G>A	uc003dmg.2	-	12	1787	c.1755C>T	c.(1753-1755)CCC>CCT	p.P585P	ADAMTS9_uc011bfo.1_Silent_p.P557P|ADAMTS9_uc003dmh.1_Silent_p.P414P|ADAMTS9_uc003dmk.1_Silent_p.P585P	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	585	Disintegrin.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CATCTGTCACGGGGACATCCA	0.493													90	33	---	---	---	---	PASS	A	64627625	A	A	64627625	2	1	66	1	0	0	0	0	0	0	0	1	273	1103	39	1		1	ADAMTS9	3	64627625	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	10875283	64627625	133394805	146	25851										
CNTN3	5067	broad.mit.edu	37	chr3	74344369	74344369	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggctatttgcagagacttgaGatggggccactgtaggctct	14	8	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:74344369G>T	uc003dpm.1	-	18	2500	c.2420C>A	c.(2419-2421)TCT>TAT	p.S807Y		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	807	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		AGAGACTTGAGATGGGGCCAC	0.368													34	26	---	---	---	---	PASS	T	74344369	T	T	74344369	3	4	66	1	0	0	0	0	1	0	0	0	3642	942	33	2	686	2	CNTN3	3	74344369	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	9716744	74344369	123678061	147	25852										
CADM2	253559	broad.mit.edu	37	chr3	85961688	85961688	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agccatgcaggtgctagaaaTacactgtaagtaaacactac	8	9	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:85961688T>C	uc003dqj.2	+	5	1294	c.668T>C	c.(667-669)ATA>ACA	p.I223T	CADM2_uc003dqk.2_Missense_Mutation_p.I232T|CADM2_uc003dql.2_Missense_Mutation_p.I225T	NM_153184	NP_694854	Q8N3J6	CADM2_HUMAN	immunoglobulin superfamily, member 4D	223	Extracellular (Potential).				adherens junction organization|cell junction assembly	integral to membrane|plasma membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4		Lung NSC(201;0.0148)		LUSC - Lung squamous cell carcinoma(29;0.000815)|Lung(72;0.00304)|BRCA - Breast invasive adenocarcinoma(55;0.156)|Epithelial(33;0.157)		GTGCTAGAAATACACTGTAAG	0.458													28	18	---	---	---	---	PASS	C	85961688	C	C	85961688	3	2	66	1	0	0	0	0	1	0	0	0	2567	1406	49	5	757	5	CADM2	3	85961688	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	11617319	85961688	112060742	148	25853										
EPHA3	2042	broad.mit.edu	37	chr3	89498461	89498461	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agcgatgtatggagttatggGattgttctctgggaggtgat	16	3	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:89498461G>T	uc003dqy.2	+	14	2658	c.2433G>T	c.(2431-2433)GGG>GGT	p.G811G	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	811	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		GGAGTTATGGGATTGTTCTCT	0.448										TSP Lung(6;0.00050)			61	35	---	---	---	---	PASS	T	89498461	T	T	89498461	2	4	66	1	0	0	0	0	0	0	0	1	5168	1161	41	2		2	EPHA3	3	89498461	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	3536773	89498461	108523969	149	25854										
TBC1D23	55773	broad.mit.edu	37	chr3	100018091	100018091	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tttccgttttaggaaggagtCcggttctttgtggtggattg	14	5	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:100018091C>T	uc003dtt.2	+	10	1185	c.1008C>T	c.(1006-1008)GTC>GTT	p.V336V	TBC1D23_uc003dts.2_Silent_p.V336V	NM_018309	NP_060779	Q9NUY8	TBC23_HUMAN	TBC1 domain family, member 23	336	Rhodanese.					intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2						AGGAAGGAGTCCGGTTCTTTG	0.398													33	33	---	---	---	---	PASS	T	100018091	T	T	100018091	2	4	66	1	0	0	0	0	0	0	0	1	15610	842	30	2		2	TBC1D23	3	100018091	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	10519630	100018091	98004339	150	25855										
CBLB	868	broad.mit.edu	37	chr3	105439079	105439079	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acaacgacagaaagggcagcCctgaccatccgactcctaaa	8	14	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:105439079C>A	uc003dwc.2	-	10	1541	c.1219G>T	c.(1219-1221)GGC>TGC	p.G407C	CBLB_uc011bhi.1_Missense_Mutation_p.G429C|CBLB_uc003dwd.1_Missense_Mutation_p.G407C|CBLB_uc003dwe.1_Missense_Mutation_p.G407C|CBLB_uc011bhj.1_RNA	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	407	RING-type.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						AAAGGGCAGCCCTGACCATCC	0.408			Mis S		AML								18	16	---	---	---	---	PASS	A	105439079	A	A	105439079	3	1	66	1	0	0	0	0	1	0	0	0	2701	623	22	3	1769	3	CBLB	3	105439079	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	5420988	105439079	92583351	151	25856										
RETNLB	84666	broad.mit.edu	37	chr3	108475364	108475364	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gagttactcaccagcagggcAggaggacggtctgccttggc	15	11	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:108475364A>T	uc003dxh.2	-	2	297	c.199T>A	c.(199-201)TGC>AGC	p.C67S		NM_032579	NP_115968	Q9BQ08	RETNB_HUMAN	resistin like beta precursor	67					cell proliferation	extracellular region	hormone activity			skin(1)	1						CCAGCAGGGCAGGAGGACGGT	0.547													13	60	---	---	---	---	PASS	T	108475364	T	T	108475364	3	4	66	1	0	0	0	0	1	0	0	0	13237	188	7	5	144	5	RETNLB	3	108475364	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	3036285	108475364	89547066	152	25857										
DPPA4	55211	broad.mit.edu	37	chr3	109049497	109049497	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtattaactccctcaaggaGagcagtggaattttccaggg	11	8	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:109049497G>T	uc003dxq.3	-	5	608	c.553C>A	c.(553-555)CTC>ATC	p.L185I	DPPA4_uc011bho.1_Intron|DPPA4_uc011bhp.1_Missense_Mutation_p.L185I	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	185						nucleus	protein binding			upper_aerodigestive_tract(1)	1						CCCTCAAGGAGAGCAGTGGAA	0.572													29	90	---	---	---	---	PASS	T	109049497	T	T	109049497	3	4	66	1	0	0	0	0	1	0	0	0	4736	942	33	2	373	2	DPPA4	3	109049497	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	574133	109049497	88972933	153	25858										
KTELC1	56983	broad.mit.edu	37	chr3	119198946	119198946	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgcttggacattttgggaaGggggacctgctgtttggcca	15	8	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:119198946G>A	uc003ecm.2	+	5	589	c.505G>A	c.(505-507)GGG>AGG	p.G169R	KTELC1_uc011biz.1_RNA|KTELC1_uc011bja.1_Missense_Mutation_p.G10R	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	169						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		ATTTTGGGAAGGGGGACCTGC	0.433													39	49	---	---	---	---	PASS	A	119198946	A	A	119198946	3	1	66	1	0	0	0	0	1	0	0	0	8583	1000	35	3	523	3	KTELC1	3	119198946	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	10149449	119198946	78823484	154	25859										
HGD	3081	broad.mit.edu	37	chr3	120363167	120363167	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccaacccttttactttaccTgtttggcagcaaacagcttg	7	12	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:120363167T>A	uc003edw.2	-	10	1143	c.773A>T	c.(772-774)CAG>CTG	p.Q258L	HGD_uc003edv.2_Missense_Mutation_p.Q117L	NM_000187	NP_000178	Q93099	HGD_HUMAN	homogentisate 1,2-dioxygenase	258					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	homogentisate 1,2-dioxygenase activity|metal ion binding				0				GBM - Glioblastoma multiforme(114;0.158)		TTACTTTACCTGTTTGGCAGC	0.338													58	171	---	---	---	---	PASS	A	120363167	A	A	120363167	3	1	66	1	0	0	0	0	1	0	0	0	7084	1594	55	5	584	5	HGD	3	120363167	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	1164221	120363167	77659263	155	25860										
FBXO40	51725	broad.mit.edu	37	chr3	121341801	121341801	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtctcaatggctggttccagCatcgatgccccctcgcctac	9	16	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:121341801C>A	uc003eeg.2	+	3	1735	c.1525C>A	c.(1525-1527)CAT>AAT	p.H509N		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	509					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		CTGGTTCCAGCATCGATGCCC	0.483													19	25	---	---	---	---	PASS	A	121341801	A	A	121341801	3	1	66	1	0	0	0	0	1	0	0	0	5749	710	25	3	1531	3	FBXO40	3	121341801	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	978634	121341801	76680629	156	25861										
KALRN	8997	broad.mit.edu	37	chr3	124369677	124369677	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tctagaaggaagctcataccGggggagcttgaaagaccctg	13	9	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:124369677G>T	uc003ehg.2	+	38	5811	c.5684G>T	c.(5683-5685)CGG>CTG	p.R1895L	KALRN_uc003ehi.2_Missense_Mutation_p.R236L|KALRN_uc003ehk.2_Missense_Mutation_p.R198L|KALRN_uc011bjz.1_5'UTR|KALRN_uc003ehj.2_Missense_Mutation_p.R166L	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1894					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						AGCTCATACCGGGGGAGCTTG	0.507													25	70	---	---	---	---	PASS	T	124369677	T	T	124369677	3	4	66	1	0	0	0	0	1	0	0	0	7975	1116	39	1	5990	1	KALRN	3	124369677	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	3027876	124369677	73652753	157	25862										
COL6A6	131873	broad.mit.edu	37	chr3	130290070	130290070	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgccacggcaaaggccttgcGggacaaaggcattcttgtcc	12	12	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:130290070G>C	uc010htl.2	+	6	2841	c.2810G>C	c.(2809-2811)CGG>CCG	p.R937P		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	937	VWFA 5.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						AAGGCCTTGCGGGACAAAGGC	0.557													38	34	---	---	---	---	PASS	C	130290070	C	C	130290070	3	2	66	1	0	0	0	0	1	0	0	0	3703	1116	39	4	2832	4	COL6A6	3	130290070	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	5920393	130290070	67732360	158	25863										
DNAJC13	23317	broad.mit.edu	37	chr3	132241716	132241716	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctaccaagcgttttcatggaTgctatgagagacaatcctga	9	9	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:132241716T>C	uc003eor.2	+	49	5783	c.5718T>C	c.(5716-5718)GAT>GAC	p.D1906D		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1906							heat shock protein binding			ovary(1)|breast(1)	2						TTTTCATGGATGCTATGAGAG	0.348													26	30	---	---	---	---	PASS	C	132241716	C	C	132241716	2	2	66	1	0	0	0	0	0	0	0	1	4632	1461	51	5		5	DNAJC13	3	132241716	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	1951646	132241716	65780714	159	25864										
EPHB1	2047	broad.mit.edu	37	chr3	134825429	134825429	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgagcggactttgaccctccAgaagtggcatgcactagtaa	11	11	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:134825429A>T	uc003eqt.2	+	4	1165	c.945A>T	c.(943-945)CCA>CCT	p.P315P	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_Missense_Mutation_p.Q204L|EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	315	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						TTGACCCTCCAGAAGTGGCAT	0.587													27	33	---	---	---	---	PASS	T	134825429	T	T	134825429	2	4	66	1	0	0	0	0	0	0	0	1	5174	175	7	5		5	EPHB1	3	134825429	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	2583713	134825429	63197001	160	25865										
ZIC1	7545	broad.mit.edu	37	chr3	147128212	147128212	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gggactttctgttccgcaacCggggttttggcgacgcggcg	16	11	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:147128212C>A	uc003ewe.2	+	1	1032	c.313C>A	c.(313-315)CGG>AGG	p.R105R		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	105					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GTTCCGCAACCGGGGTTTTGG	0.711													18	47	---	---	---	---	PASS	A	147128212	A	A	147128212	2	1	66	1	0	0	0	0	0	0	0	1	17675	643	23	1		1	ZIC1	3	147128212	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	12302783	147128212	50894218	161	25866										
CPA3	1359	broad.mit.edu	37	chr3	148597673	148597673	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttctgccagtggtttgtctaTcaggtaagtgaatcagaaga	11	6	4	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:148597673T>C	uc003ewm.2	+	6	625	c.573T>C	c.(571-573)TAT>TAC	p.Y191Y		NM_001870	NP_001861	P15088	CBPA3_HUMAN	carboxypeptidase A3 precursor	191					proteolysis	stored secretory granule|transport vesicle	metallocarboxypeptidase activity|zinc ion binding			breast(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			GGTTTGTCTATCAGGTAAGTG	0.453													41	82	---	---	---	---	PASS	C	148597673	C	C	148597673	2	2	66	1	0	0	0	0	0	0	0	1	3791	1442	50	5		5	CPA3	3	148597673	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	1469461	148597673	49424757	162	25867										
TSC22D2	9819	broad.mit.edu	37	chr3	150128173	150128173	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctccgcagccgggccctgcaGtgggcgcccccgcggcgcag	16	19	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:150128173G>A	uc003exv.2	+	1	1386	c.1036G>A	c.(1036-1038)GTG>ATG	p.V346M	TSC22D2_uc003exw.2_RNA|TSC22D2_uc003exx.2_Missense_Mutation_p.V346M	NM_014779	NP_055594	O75157	T22D2_HUMAN	TSC22 domain family, member 2	346							sequence-specific DNA binding transcription factor activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GGGCCCTGCAGTGGGCGCCCC	0.721													5	19	---	---	---	---	PASS	A	150128173	A	A	150128173	3	1	66	1	0	0	0	0	1	0	0	0	16605	1029	36	3	1038	3	TSC22D2	3	150128173	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1530500	150128173	47894257	163	25868										
FAM194A	131831	broad.mit.edu	37	chr3	150384672	150384672	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gatgcggactccaatataacGgttcaaagccagaaagacag	10	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:150384672G>T	uc003eyg.2	-	13	1687	c.1630C>A	c.(1630-1632)CGT>AGT	p.R544S	FAM194A_uc003eyh.2_Missense_Mutation_p.R398S	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	544										skin(2)|ovary(1)	3						CCAATATAACGGTTCAAAGCC	0.413													53	91	---	---	---	---	PASS	T	150384672	T	T	150384672	3	4	66	1	0	0	0	0	1	0	0	0	5526	1116	39	1	369	1	FAM194A	3	150384672	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	256499	150384672	47637758	164	25869										
MED12L	116931	broad.mit.edu	37	chr3	151075017	151075017	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acagttactaaatgaactgaGtgttgtggaagctgaactgc	11	6	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:151075017G>T	uc003eyp.2	+	18	2611	c.2573G>T	c.(2572-2574)AGT>ATT	p.S858I	MED12L_uc011bnz.1_Missense_Mutation_p.S718I|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.S22I	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	858					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)			AATGAACTGAGTGTTGTGGAA	0.398													16	73	---	---	---	---	PASS	T	151075017	T	T	151075017	3	4	66	1	0	0	0	0	1	0	0	0	9429	1029	36	3	2643	3	MED12L	3	151075017	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	690345	151075017	46947413	165	25870										
MME	4311	broad.mit.edu	37	chr3	154866431	154866431	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aagaagctccgagaaaaggtGgacaaagatgagtgcgtata	13	5	0	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:154866431G>T	uc010hvr.1	+	16	1801	c.1590G>T	c.(1588-1590)GTG>GTT	p.V530V	MME_uc003fab.1_Silent_p.V530V|MME_uc003fac.1_Silent_p.V530V|MME_uc003fad.1_Silent_p.V530V|MME_uc003fae.1_Silent_p.V530V	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	530	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	GAGAAAAGGTGGACAAAGATG	0.358													30	192	---	---	---	---	PASS	T	154866431	T	T	154866431	2	4	66	1	0	0	0	0	0	0	0	1	9645	1335	47	3		3	MME	3	154866431	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	3791414	154866431	43155999	166	25871										
VEPH1	79674	broad.mit.edu	37	chr3	157098948	157098948	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagaagctcttgctcacctgCcacttccagccttggtattt	7	14	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:157098948C>G	uc003fbj.1	-	7	1441	c.1124G>C	c.(1123-1125)GGC>GCC	p.G375A	VEPH1_uc003fbk.1_Missense_Mutation_p.G375A|VEPH1_uc010hvu.1_Missense_Mutation_p.G375A	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	375						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			TGCTCACCTGCCACTTCCAGC	0.517													34	159	---	---	---	---	PASS	G	157098948	G	G	157098948	3	3	66	1	0	0	0	0	1	0	0	0	17151	739	26	4	1409	4	VEPH1	3	157098948	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2232517	157098948	40923482	167	25872										
RSRC1	51319	broad.mit.edu	37	chr3	157839991	157839991	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gagcagttcttcagatagtaGaacatacagccgaaagaaag	10	7	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:157839991G>T	uc003fbt.2	+	2	209	c.98G>T	c.(97-99)AGA>ATA	p.R33I	RSRC1_uc011bou.1_Missense_Mutation_p.R33I|RSRC1_uc003fbu.1_Missense_Mutation_p.R33I|RSRC1_uc003fbv.2_Missense_Mutation_p.R33I	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	33	Arg/Ser-rich.				nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			TCAGATAGTAGAACATACAGC	0.433													10	48	---	---	---	---	PASS	T	157839991	T	T	157839991	3	4	66	1	0	0	0	0	1	0	0	0	13714	942	33	2	100	2	RSRC1	3	157839991	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	741043	157839991	40182439	168	25873										
GFM1	85476	broad.mit.edu	37	chr3	158408930	158408930	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tactatgtttgttttcaggtCcctctaaatgatatgtttgg	8	6	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:158408930C>T	uc003fce.2	+	17	2180	c.2073C>T	c.(2071-2073)GTC>GTT	p.V691V	GFM1_uc003fcf.2_RNA|GFM1_uc003fcg.2_Silent_p.V622V	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor	691					mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			GTTTTCAGGTCCCTCTAAATG	0.338													12	86	---	---	---	---	PASS	T	158408930	T	T	158408930	2	4	66	1	0	0	0	0	0	0	0	1	6341	842	30	2		2	GFM1	3	158408930	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	568939	158408930	39613500	169	25874										
SI	6476	broad.mit.edu	37	chr3	164700133	164700133	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctttcccccatacatgaagGgatccaagcctcgtttcact	6	15	1	1	rs147742320		TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:164700133G>T	uc003fei.2	-	47	5375	c.5313C>A	c.(5311-5313)TCC>TCA	p.S1771S		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1771	Sucrase.|Lumenal.				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	p.S1771S(1)		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)	ATACATGAAGGGATCCAAGCC	0.348										HNSCC(35;0.089)			27	65	---	---	---	---	PASS	T	164700133	T	T	164700133	2	4	66	1	0	0	0	0	0	0	0	1	14297	1219	43	3		3	SI	3	164700133	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	6291203	164700133	33322297	170	25875										
SI	6476	broad.mit.edu	37	chr3	164700156	164700156	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tccaagcctcgtttcactttTatttatgtaacctctcttca	3	12	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:164700156T>A	uc003fei.2	-	47	5352	c.5290A>T	c.(5290-5292)AAA>TAA	p.K1764*		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1764	Sucrase.|Lumenal.				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)	GTTTCACTTTTATTTATGTAA	0.338										HNSCC(35;0.089)			21	52	---	---	---	---	PASS	A	164700156	A	A	164700156	4	1	66	1	0	0	0	0	0	1	0	0	14297	1763	61	5	201	5	SI	3	164700156	Nonsense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	23	164700156	33322274	171	25876										
SI	6476	broad.mit.edu	37	chr3	164792437	164792437	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cacgagtagtagctggagttGaagtagaatcactaatttct	10	6	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:164792437G>A	uc003fei.2	-	3	199	c.137C>T	c.(136-138)TCA>TTA	p.S46L		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	46	Ser/Thr-rich.|Lumenal.				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)	AGCTGGAGTTGAAGTAGAATC	0.318										HNSCC(35;0.089)			25	179	---	---	---	---	PASS	A	164792437	A	A	164792437	3	1	66	1	0	0	0	0	1	0	0	0	14297	1294	45	2	5530	2	SI	3	164792437	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	92281	164792437	33229993	172	25877										
ZBBX	79740	broad.mit.edu	37	chr3	167031801	167031801	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ataagtagagctgtttctcaGacaaagatttaagaagtctc	8	6	2	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:167031801G>T	uc003fep.2	-	16	1701	c.1378C>A	c.(1378-1380)CTG>ATG	p.L460M	ZBBX_uc011bpc.1_Missense_Mutation_p.L460M|ZBBX_uc003feq.2_Missense_Mutation_p.L431M	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	460						intracellular	zinc ion binding			ovary(2)	2						CTGTTTCTCAGACAAAGATTT	0.313													116	103	---	---	---	---	PASS	T	167031801	T	T	167031801	3	4	66	1	0	0	0	0	1	0	0	0	17513	933	33	2	1048	2	ZBBX	3	167031801	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2239364	167031801	30990629	173	25878										
PHC3	80012	broad.mit.edu	37	chr3	169890469	169890469	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaaggtactgagcagctgagCtggggggccgatgcaatgcc	17	9	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:169890469C>T	uc010hws.1	-	3	240	c.176G>A	c.(175-177)AGC>AAC	p.S59N	PHC3_uc003fgl.2_Missense_Mutation_p.S71N|PHC3_uc011bpq.1_Missense_Mutation_p.S71N|PHC3_uc011bpr.1_Missense_Mutation_p.S71N|PHC3_uc003fgm.2_Missense_Mutation_p.S71N|PHC3_uc003fgo.1_Missense_Mutation_p.S55N|PHC3_uc003fgp.3_Missense_Mutation_p.S67N|PHC3_uc003fgq.3_Missense_Mutation_p.S71N	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	59					multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			AGCAGCTGAGCTGGGGGGCCG	0.448													67	198	---	---	---	---	PASS	T	169890469	T	T	169890469	3	4	66	1	0	0	0	0	1	0	0	0	11818	797	28	3	2827	3	PHC3	3	169890469	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2858668	169890469	28131961	174	25879										
MFN1	55669	broad.mit.edu	37	chr3	179096536	179096536	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgggctggtcttcccttgtAcatcgatttttgggccctag	11	11	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:179096536A>G	uc003fjs.2	+	14	1722	c.1596A>G	c.(1594-1596)GTA>GTG	p.V532V	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Silent_p.V560V|MFN1_uc010hxc.2_Intron	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	532	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			CTTCCCTTGTACATCGATTTT	0.373													32	273	---	---	---	---	PASS	G	179096536	G	G	179096536	2	3	66	1	0	0	0	0	0	0	0	1	9523	378	14	5		5	MFN1	3	179096536	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	9206067	179096536	18925894	175	25880										
MCF2L2	23101	broad.mit.edu	37	chr3	183014925	183014925	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tacagcttgggaagccaagaGgtagattcctgcctcacacc	10	12	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:183014925G>T	uc003fli.1	-	12	1426	c.1336C>A	c.(1336-1338)CTC>ATC	p.L446I	MCF2L2_uc003flj.1_Missense_Mutation_p.L446I|MCF2L2_uc011bqr.1_Intron|uc003fln.1_RNA|uc003flo.2_5'Flank	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	446					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			GAAGCCAAGAGGTAGATTCCT	0.532													40	296	---	---	---	---	PASS	T	183014925	T	T	183014925	3	4	66	1	0	0	0	0	1	0	0	0	9380	1000	35	3	2084	3	MCF2L2	3	183014925	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	3918389	183014925	15007505	176	25881										
ABCC5	10057	broad.mit.edu	37	chr3	183667579	183667579	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctttattgtaggcgtggatGgtggcaaggccctgtatgct	14	8	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:183667579G>A	uc003fmg.2	-	22	3354	c.3189C>T	c.(3187-3189)ACC>ACT	p.T1063T	ABCC5_uc011bqt.1_Silent_p.T591T|ABCC5_uc010hxl.2_Intron	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	1063	ABC transmembrane type-1 2.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			AGGCGTGGATGGTGGCAAGGC	0.552													123	199	---	---	---	---	PASS	A	183667579	A	A	183667579	2	1	66	1	0	0	0	0	0	0	0	1	56	1335	47	3		3	ABCC5	3	183667579	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	652654	183667579	14354851	177	25882										
ABCC5	10057	broad.mit.edu	37	chr3	183669786	183669786	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcgttccctcgagtcacagtGgtgttctgtttgaagccaaa	10	10	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr3:183669786G>A	uc003fmg.2	-	19	2838	c.2673C>T	c.(2671-2673)ACC>ACT	p.T891T	ABCC5_uc011bqt.1_Silent_p.T419T|ABCC5_uc010hxl.2_Silent_p.T891T	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	891	ABC transmembrane type-1 2.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GAGTCACAGTGGTGTTCTGTT	0.547													126	222	---	---	---	---	PASS	A	183669786	A	A	183669786	2	1	66	1	0	0	0	0	0	0	0	1	56	1335	47	3		3	ABCC5	3	183669786	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	2207	183669786	14352644	178	25883										
GBA3	57733	broad.mit.edu	37	chr4	22749310	22749310	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtgtctctatcactttttgcGgtctggttggaaccagcaga	11	9	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:22749310G>T	uc003gqp.3	+	3	769	c.678G>T	c.(676-678)GCG>GCT	p.A226A	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Silent_p.A227A	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	226					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						CACTTTTTGCGGTCTGGTTGG	0.428													107	43	---	---	---	---	PASS	T	22749310	T	T	22749310	2	4	66	1	0	0	0	0	0	0	0	1	6268	1103	39	1		1	GBA3	4	22749310	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08		22749310	168404966	179	25884										
GABRA2	2555	broad.mit.edu	37	chr4	46307694	46307694	+	Missense_Mutation	SNP	C	A	A													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaatcagatgcattgtaagtCcaaatataagtgacctctga							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:46307694C>A	uc003gxc.3	-	6	1267	c.594G>T	c.(592-594)TGG>TGT	p.W198C	GABRA2_uc010igc.2_Missense_Mutation_p.W198C|GABRA2_uc011bzc.1_Missense_Mutation_p.W143C|GABRA2_uc003gxe.2_Missense_Mutation_p.W198C	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	198	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CATTGTAAGTCCAAATATAAG	0.358													13	16	---	---	---	---	PASS	A	46307694	A	A	46307694	3	1	66	1	0	0	0	0	1	0	0	0	6161	856	30	2	777	2	GABRA2	4	46307694	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	23558384	46307694	144846582	180	25885	544	2								
GABRA2	2555	broad.mit.edu	37	chr4	46307695	46307695	+	Missense_Mutation	SNP	C	A	A													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aatcagatgcattgtaagtcCaaatataagtgacctctgaa							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:46307695C>A	uc003gxc.3	-	6	1266	c.593G>T	c.(592-594)TGG>TTG	p.W198L	GABRA2_uc010igc.2_Missense_Mutation_p.W198L|GABRA2_uc011bzc.1_Missense_Mutation_p.W143L|GABRA2_uc003gxe.2_Missense_Mutation_p.W198L	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	198	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ATTGTAAGTCCAAATATAAGT	0.363													13	16	---	---	---	---	PASS	A	46307695	A	A	46307695	3	1	66	1	0	0	0	0	1	0	0	0	6161	595	21	3	778	3	GABRA2	4	46307695	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1	46307695	144846581	181	25886	544	2								
LRRC66	339977	broad.mit.edu	37	chr4	52864046	52864046	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cactagatggggaaattctaGagctatgatcatcattggta	10	6	3	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:52864046G>A	uc003gzi.2	-	3	737	c.724C>T	c.(724-726)CTA>TTA	p.L242L		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	242						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						GGAAATTCTAGAGCTATGATC	0.393													89	78	---	---	---	---	PASS	A	52864046	A	A	52864046	2	1	66	1	0	0	0	0	0	0	0	1	9018	933	33	2		2	LRRC66	4	52864046	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	6556351	52864046	138290230	182	25887										
KIAA1211	57482	broad.mit.edu	37	chr4	57181005	57181005	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggacaaagagaacactccgAggagccaggtatttgcgagg	14	8	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:57181005A>G	uc003hbk.2	+	8	1728	c.1337A>G	c.(1336-1338)GAG>GGG	p.E446G	KIAA1211_uc010iha.2_Missense_Mutation_p.E439G|KIAA1211_uc011bzz.1_Missense_Mutation_p.E356G|KIAA1211_uc003hbm.1_Missense_Mutation_p.E332G	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	446	Glu-rich.									ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					GAACACTCCGAGGAGCCAGGT	0.617													7	33	---	---	---	---	PASS	G	57181005	G	G	57181005	3	3	66	1	0	0	0	0	1	0	0	0	8215	304	11	5	1355	5	KIAA1211	4	57181005	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	4316959	57181005	133973271	183	25888										
EPHA5	2044	broad.mit.edu	37	chr4	66280001	66280001	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acagtaattaaaatgacttaCacactggggtggtttcaaac	8	7	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:66280001C>G	uc003hcy.2	-	7	1880	c.1687_splice	c.e7+1	p.F563_splice	EPHA5_uc003hcx.2_Splice_Site_p.S494_splice|EPHA5_uc003hcz.2_Splice_Site_p.F563_splice|EPHA5_uc011cah.1_Splice_Site_p.S563_splice|EPHA5_uc011cai.1_Splice_Site_p.S563_splice|EPHA5_uc003hda.2_Splice_Site_p.S563_splice	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor						cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						AAATGACTTACACACTGGGGT	0.443										TSP Lung(17;0.13)			26	30	---	---	---	---	PASS	G	66280001	G	G	66280001	5	3	66	1	0	0	0	0	0	0	1	0	5170	492	17	4	1473	4	EPHA5	4	66280001	Splice_Site	SNP	C	TCGA-34-5231-01A-21D-1817-08	9098996	66280001	124874275	184	25889										
UGT2B4	7363	broad.mit.edu	37	chr4	70355265	70355265	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acaacaccattttctccagaGctctggacaaactcttccat	4	14	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:70355265G>T	uc003hek.3	-	3	941	c.894C>A	c.(892-894)AGC>AGA	p.S298R	UGT2B4_uc011cap.1_Missense_Mutation_p.S162R|UGT2B4_uc003hel.3_Missense_Mutation_p.S298R	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	298					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						TTTCTCCAGAGCTCTGGACAA	0.398													77	83	---	---	---	---	PASS	T	70355265	T	T	70355265	3	4	66	1	0	0	0	0	1	0	0	0	16958	962	34	3	708	3	UGT2B4	4	70355265	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4075264	70355265	120799011	185	25890										
UGT2B4	7363	broad.mit.edu	37	chr4	70361031	70361031	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gggaacagaagtcctccactAtgcttttcaattgcgtagcc	9	11	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:70361031A>G	uc003hek.3	-	1	596	c.549T>C	c.(547-549)CAT>CAC	p.H183H	UGT2B4_uc011cap.1_Silent_p.H47H|UGT2B4_uc003hel.3_Silent_p.H183H	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	183					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						GTCCTCCACTATGCTTTTCAA	0.443													18	61	---	---	---	---	PASS	G	70361031	G	G	70361031	2	3	66	1	0	0	0	0	0	0	0	1	16958	446	16	5		5	UGT2B4	4	70361031	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	5766	70361031	120793245	186	25891										
ADAMTS3	9508	broad.mit.edu	37	chr4	73156630	73156630	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcactctgttacagggccggCggctctcgggacggtcaccc	14	15	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:73156630C>G	uc003hgk.1	-	20	2910	c.2873G>C	c.(2872-2874)CGC>CCC	p.R958P		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	958	TSP type-1 3.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			ACAGGGCCGGCGGCTCTCGGG	0.567													19	39	---	---	---	---	PASS	G	73156630	G	G	73156630	3	3	66	1	0	0	0	0	1	0	0	0	267	768	27	4	756	4	ADAMTS3	4	73156630	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2795599	73156630	117997646	187	25892										
ANKRD17	26057	broad.mit.edu	37	chr4	73987360	73987360	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttaatctcagctcctgcattTagtaatattttgatgatgtt	6	6	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:73987360T>G	uc003hgp.2	-	19	3726	c.3609A>C	c.(3607-3609)CTA>CTC	p.L1203L	ANKRD17_uc003hgo.2_Silent_p.L1090L|ANKRD17_uc003hgq.2_Silent_p.L952L|ANKRD17_uc003hgr.2_Silent_p.L1202L|ANKRD17_uc011cbd.1_Silent_p.L768L	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1203	ANK 19.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CTCCTGCATTTAGTAATATTT	0.383													49	54	---	---	---	---	PASS	G	73987360	G	G	73987360	2	3	66	1	0	0	0	0	0	0	0	1	646	1741	61	5		5	ANKRD17	4	73987360	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	830730	73987360	117166916	188	25893										
AFM	173	broad.mit.edu	37	chr4	74364930	74364930	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gctttcactacttgctgtacGctaagtgaagagtttgcctg	10	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:74364930G>T	uc003hhb.2	+	11	1420	c.1389G>T	c.(1387-1389)ACG>ACT	p.T463T		NM_001133	NP_001124	P43652	AFAM_HUMAN	afamin precursor	463	Albumin 3.				vitamin transport		vitamin E binding			ovary(2)|central_nervous_system(1)	3	Breast(15;0.00102)		Epithelial(6;5.69e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|all cancers(17;0.000555)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CTTGCTGTACGCTAAGTGAAG	0.408													14	41	---	---	---	---	PASS	T	74364930	T	T	74364930	2	4	66	1	0	0	0	0	0	0	0	1	361	1074	38	1		1	AFM	4	74364930	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	377570	74364930	116789346	189	25894										
THAP9	79725	broad.mit.edu	37	chr4	83839358	83839358	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tctttgacatttcaattgctCgaaggaaagacttggcgctt	9	8	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:83839358C>T	uc003hnt.2	+	5	2112	c.1993C>T	c.(1993-1995)CGA>TGA	p.R665*	THAP9_uc003hns.1_Nonsense_Mutation_p.R521*|THAP9_uc003hnu.1_RNA|THAP9_uc003hnv.2_Nonsense_Mutation_p.R382*	NM_024672	NP_078948	Q9H5L6	THAP9_HUMAN	THAP domain containing 9	665							DNA binding|metal ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	5		Hepatocellular(203;0.114)				TTCAATTGCTCGAAGGAAAGA	0.398													17	75	---	---	---	---	PASS	T	83839358	T	T	83839358	4	4	66	1	0	0	0	0	0	1	0	0	15848	876	31	2	2011	2	THAP9	4	83839358	Nonsense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	9474428	83839358	107314918	190	25895										
HELQ	113510	broad.mit.edu	37	chr4	84376793	84376793	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atacaccccaagcttggacgGttccttttggggagagacac	11	11	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:84376793G>A	uc003hom.2	-	1	233	c.54C>T	c.(52-54)AAC>AAT	p.N18N	HELQ_uc010ikb.2_Silent_p.N18N|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA|HELQ_uc003hon.1_5'UTR|HELQ_uc003hoo.1_Silent_p.N18N|HELQ_uc003hop.1_5'UTR|HELQ_uc003hoq.1_Silent_p.N18N|MRPS18C_uc003hor.3_5'Flank|MRPS18C_uc011ccu.1_5'Flank	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	18							ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						AGCTTGGACGGTTCCTTTTGG	0.602								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function			OREG0016254	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	139	---	---	---	---	PASS	A	84376793	A	A	84376793	2	1	66	1	0	0	0	0	0	0	0	1	7047	1252	44	3		3	HELQ	4	84376793	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	537435	84376793	106777483	191	25896										
WDFY3	23001	broad.mit.edu	37	chr4	85598396	85598396	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttcctgcaatggtgtcgtctTtctgtgagtgaaaacctcac	9	10	3	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:85598396T>G	uc003hpd.2	-	67	10821	c.10413A>C	c.(10411-10413)GAA>GAC	p.E3471D	WDFY3_uc003hpc.2_Missense_Mutation_p.E226D	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	3471	FYVE-type.					cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		GGTGTCGTCTTTCTGTGAGTG	0.473													14	72	---	---	---	---	PASS	G	85598396	G	G	85598396	3	3	66	1	0	0	0	0	1	0	0	0	17267	1838	64	5	175	5	WDFY3	4	85598396	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	1221603	85598396	105555880	192	25897										
HSD17B13	345275	broad.mit.edu	37	chr4	88235003	88235003	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tggatttttggtgaacccagTattcacaaaaactgggcaga	10	7	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:88235003T>A	uc003hqo.2	-	5	730	c.667A>T	c.(667-669)ACT>TCT	p.T223S	HSD17B13_uc010ikk.2_Missense_Mutation_p.T187S	NM_178135	NP_835236	Q7Z5P4	DHB13_HUMAN	hydroxysteroid (17-beta) dehydrogenase 13	223						extracellular region	binding|oxidoreductase activity				0		Acute lymphoblastic leukemia(40;0.244)|all_hematologic(202;0.248)		OV - Ovarian serous cystadenocarcinoma(123;0.000308)		GTGAACCCAGTATTCACAAAA	0.388													21	39	---	---	---	---	PASS	A	88235003	A	A	88235003	3	1	66	1	0	0	0	0	1	0	0	0	7382	1638	57	5	247	5	HSD17B13	4	88235003	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	2636607	88235003	102919273	193	25898										
PKD2	5311	broad.mit.edu	37	chr4	88989126	88989126	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccctcgaagcctggatgactCtgaggaggatgacgatgaag	14	9	1	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:88989126C>T	uc003hre.2	+	13	2501	c.2435C>T	c.(2434-2436)TCT>TTT	p.S812F	PKD2_uc011cdf.1_Missense_Mutation_p.S230F|PKD2_uc011cdg.1_Missense_Mutation_p.S138F|PKD2_uc011cdh.1_Missense_Mutation_p.S35F	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	812	Linker.|Cytoplasmic (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		CTGGATGACTCTGAGGAGGAT	0.488													11	50	---	---	---	---	PASS	T	88989126	T	T	88989126	3	4	66	1	0	0	0	0	1	0	0	0	11966	913	32	2	2485	2	PKD2	4	88989126	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	754123	88989126	102165150	194	25899										
MMRN1	22915	broad.mit.edu	37	chr4	90874208	90874208	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	attttttgcatctcatacgtAtggaatgactatacctggtc	7	8	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:90874208A>G	uc003hst.2	+	8	3397	c.3326A>G	c.(3325-3327)TAT>TGT	p.Y1109C	MMRN1_uc010iku.2_Missense_Mutation_p.Y412C|MMRN1_uc011cds.1_Missense_Mutation_p.Y851C	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	1109	C1q.				cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		TCTCATACGTATGGAATGACT	0.353													28	86	---	---	---	---	PASS	G	90874208	G	G	90874208	3	3	66	1	0	0	0	0	1	0	0	0	9670	449	16	5	3356	5	MMRN1	4	90874208	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	1885082	90874208	100280068	195	25900										
NDST3	9348	broad.mit.edu	37	chr4	118975630	118975630	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tttccatatatggaaatcttGcagtaaaagattgttgtatt	7	4	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:118975630G>A	uc003ibx.2	+	2	968	c.565G>A	c.(565-567)GCA>ACA	p.A189T	NDST3_uc011cgf.1_Missense_Mutation_p.A189T|NDST3_uc003ibw.2_Missense_Mutation_p.A189T	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	189	Lumenal (Potential).|Heparan sulfate N-deacetylase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						TGGAAATCTTGCAGTAAAAGA	0.378													22	87	---	---	---	---	PASS	A	118975630	A	A	118975630	3	1	66	1	0	0	0	0	1	0	0	0	10257	1319	46	3	567	3	NDST3	4	118975630	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	28101422	118975630	72178646	196	25901										
PDE5A	8654	broad.mit.edu	37	chr4	120528376	120528376	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caagggacaagagcaagattCggtgtggcctctgatacctt	12	9	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:120528376C>T	uc003idh.2	-	2	384	c.229G>A	c.(229-231)GAA>AAA	p.E77K	PDE5A_uc003idf.2_Missense_Mutation_p.E35K|PDE5A_uc003idg.2_Missense_Mutation_p.E25K	NM_001083	NP_001074	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 1	77					platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)	GAGCAAGATTCGGTGTGGCCT	0.517													14	52	---	---	---	---	PASS	T	120528376	T	T	120528376	3	4	66	1	0	0	0	0	1	0	0	0	11644	893	31	2	2478	2	PDE5A	4	120528376	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1552746	120528376	70625900	197	25902										
BBS7	55212	broad.mit.edu	37	chr4	122774121	122774121	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atgaacttacctgatcaaatCgtagaacaggttcatttgca	7	8	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:122774121C>A	uc003ied.2	-	8	1013	c.839G>T	c.(838-840)CGA>CTA	p.R280L	BBS7_uc003iee.1_Missense_Mutation_p.R280L	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	280					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						CTGATCAAATCGTAGAACAGG	0.308									Bardet-Biedl_syndrome				15	19	---	---	---	---	PASS	A	122774121	A	A	122774121	3	1	66	1	0	0	0	0	1	0	0	0	1341	884	31	2	1361	2	BBS7	4	122774121	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2245745	122774121	68380155	198	25903										
KIAA1109	84162	broad.mit.edu	37	chr4	123178522	123178522	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	taaaggagttagcttacataGaccagctcagcctctgaaac	8	10	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:123178522G>C	uc003ieh.2	+	39	6536	c.6491G>C	c.(6490-6492)AGA>ACA	p.R2164T	KIAA1109_uc003iel.1_Missense_Mutation_p.R99T|KIAA1109_uc003iek.2_Missense_Mutation_p.R783T	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2164					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGCTTACATAGACCAGCTCAG	0.448													60	80	---	---	---	---	PASS	C	123178522	C	C	123178522	3	2	66	1	0	0	0	0	1	0	0	0	8208	942	33	2	6645	2	KIAA1109	4	123178522	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	404401	123178522	67975754	199	25904										
FAT4	79633	broad.mit.edu	37	chr4	126389770	126389770	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aacaactatatttatgtcaaAtttgccacgattaaaagtca	4	7	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:126389770A>G	uc003ifj.3	+	11	12003	c.12003A>G	c.(12001-12003)AAA>AAG	p.K4001K	FAT4_uc011cgp.1_Silent_p.K2264K|FAT4_uc003ifi.1_Silent_p.K1479K	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4001	Laminin G-like 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TTTATGTCAAATTTGCCACGA	0.403													24	33	---	---	---	---	PASS	G	126389770	G	G	126389770	2	3	66	1	0	0	0	0	0	0	0	1	5692	98	4	5		5	FAT4	4	126389770	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	3211248	126389770	64764506	200	25905										
PHF17	79960	broad.mit.edu	37	chr4	129776951	129776951	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgtgctctgtggatccctgAggtacgtgtggttctttttt	12	8	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:129776951A>C	uc003igk.2	+	7	1143	c.863A>C	c.(862-864)GAG>GCG	p.E288A	PHF17_uc003igj.2_Missense_Mutation_p.E288A|PHF17_uc003igl.2_Missense_Mutation_p.E276A|PHF17_uc011cgy.1_Missense_Mutation_p.E288A|PHF17_uc003igm.2_Missense_Mutation_p.E288A	NM_199320	NP_955352	Q6IE81	JADE1_HUMAN	PHD finger protein 17 long isoform	288					apoptosis|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell growth|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	histone acetyltransferase complex|mitochondrion	protein binding|zinc ion binding				0						TGGATCCCTGAGGTACGTGTG	0.318													15	25	---	---	---	---	PASS	C	129776951	C	C	129776951	3	2	66	1	0	0	0	0	1	0	0	0	11828	318	11	5	885	5	PHF17	4	129776951	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	3387181	129776951	61377325	201	25906										
MAP9	79884	broad.mit.edu	37	chr4	156289766	156289766	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caaggttttcagagaatgctTttttctcagcttctaattgt	7	7	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:156289766T>A	uc003ios.2	-	5	944	c.680A>T	c.(679-681)AAA>ATA	p.K227I	MAP9_uc011cin.1_Missense_Mutation_p.K226I|MAP9_uc010iqa.1_RNA|MAP9_uc003iot.1_Missense_Mutation_p.K226I|MAP9_uc010iqb.1_Missense_Mutation_p.K154I	NM_001039580	NP_001034669	Q49MG5	MAP9_HUMAN	aster-associated protein	227					cell division|mitosis	cytoplasm|microtubule|spindle				ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.143)		AGAGAATGCTTTTTTCTCAGC	0.373													23	77	---	---	---	---	PASS	A	156289766	A	A	156289766	3	1	66	1	0	0	0	0	1	0	0	0	9270	1841	64	5	1303	5	MAP9	4	156289766	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	26512815	156289766	34864510	202	25907										
GUCY1B3	2983	broad.mit.edu	37	chr4	156715238	156715238	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atatacagagttctcccccaGgtaaaatgacagcatacttc	6	11	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:156715238G>T	uc003ipc.2	+	6	893	c.726G>T	c.(724-726)CAG>CAT	p.Q242H	GUCY1B3_uc011cio.1_Missense_Mutation_p.Q264H|GUCY1B3_uc011cip.1_Missense_Mutation_p.Q222H|GUCY1B3_uc003ipd.2_Missense_Mutation_p.Q170H|GUCY1B3_uc010iqf.2_Missense_Mutation_p.Q242H|GUCY1B3_uc010iqg.2_Missense_Mutation_p.Q170H|GUCY1B3_uc011ciq.1_Missense_Mutation_p.Q170H	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	242					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		TTCTCCCCCAGGTAAAATGAC	0.423													16	16	---	---	---	---	PASS	T	156715238	T	T	156715238	3	4	66	1	0	0	0	0	1	0	0	0	6895	1014	35	3	748	3	GUCY1B3	4	156715238	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	425472	156715238	34439038	203	25908										
NPY5R	4889	broad.mit.edu	37	chr4	164271902	164271902	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcaaaccatggctactttctGatagctactgtctggacact	8	11	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:164271902G>C	uc003iqn.2	+	4	659	c.477G>C	c.(475-477)CTG>CTC	p.L159L		NM_006174	NP_006165	Q15761	NPY5R_HUMAN	neuropeptide Y receptor Y5	159	Helical; Name=4; (Potential).				cardiac left ventricle morphogenesis|outflow tract morphogenesis	integral to plasma membrane				lung(6)|skin(1)	7	all_hematologic(180;0.166)	Prostate(90;0.109)				GCTACTTTCTGATAGCTACTG	0.368													58	159	---	---	---	---	PASS	C	164271902	C	C	164271902	2	2	66	1	0	0	0	0	0	0	0	1	10610	1277	45	2		2	NPY5R	4	164271902	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	7556664	164271902	26882374	204	25909										
TKTL2	84076	broad.mit.edu	37	chr4	164393427	164393427	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caatctcaaaattttcttgtGgggtataaataactgcagtt	7	6	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:164393427G>C	uc003iqp.3	-	1	1621	c.1460C>G	c.(1459-1461)CCA>CGA	p.P487R		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	487						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				ATTTTCTTGTGGGGTATAAAT	0.463													44	113	---	---	---	---	PASS	C	164393427	C	C	164393427	3	2	66	1	0	0	0	0	1	0	0	0	15933	1348	47	4	424	4	TKTL2	4	164393427	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	121525	164393427	26760849	205	25910										
DDX60	55601	broad.mit.edu	37	chr4	169158919	169158919	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tctgggttgcttgaaggacaGcaatgaatgctttagcactg	12	7	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:169158919G>A	uc003irp.2	-	31	4484	c.4192C>T	c.(4192-4194)CTG>TTG	p.L1398L		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	1398							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		TTGAAGGACAGCAATGAATGC	0.348													42	41	---	---	---	---	PASS	A	169158919	A	A	169158919	2	1	66	1	0	0	0	0	0	0	0	1	4378	962	34	3		3	DDX60	4	169158919	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	4765492	169158919	21995357	206	25911										
WDR17	116966	broad.mit.edu	37	chr4	177100702	177100702	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaatccattctcacctttagGgactggaatacgactcaatc	7	11	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:177100702G>T	uc003iuj.2	+	31	4097	c.3941G>T	c.(3940-3942)GGG>GTG	p.G1314V	WDR17_uc003iuk.2_Missense_Mutation_p.G1290V|WDR17_uc003ium.3_Missense_Mutation_p.G1275V|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.G525V	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	1314										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TCACCTTTAGGGACTGGAATA	0.388													40	61	---	---	---	---	PASS	T	177100702	T	T	177100702	3	4	66	1	0	0	0	0	1	0	0	0	17274	1232	43	3	4059	3	WDR17	4	177100702	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	7941783	177100702	14053574	207	25912										
TRIML2	205860	broad.mit.edu	37	chr4	189020207	189020207	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	accttgagcaatgccaaggtGccttccccacactttttctc	6	15	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr4:189020207G>A	uc003izl.2	-	4	489	c.453C>T	c.(451-453)GGC>GGT	p.G151G	TRIML2_uc003izj.1_5'UTR|TRIML2_uc003izk.1_5'UTR|TRIML2_uc011cle.1_Silent_p.G201G|TRIML2_uc011clf.1_Silent_p.G201G	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	151							ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		ATGCCAAGGTGCCTTCCCCAC	0.458													18	62	---	---	---	---	PASS	A	189020207	A	A	189020207	2	1	66	1	0	0	0	0	0	0	0	1	16548	1306	46	3		3	TRIML2	4	189020207	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	11919505	189020207	2134069	208	25913										
SLC9A3	6550	broad.mit.edu	37	chr5	482234	482234	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcccggtgctcgctcctcttCaccttcagccactgcaccag	7	19	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:482234C>A	uc003jbe.2	-	8	1507	c.1395G>T	c.(1393-1395)GTG>GTT	p.V465V	SLC9A3_uc011clx.1_Silent_p.V456V	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	465	Cytoplasmic (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CGCTCCTCTTCACCTTCAGCC	0.706													6	15	---	---	---	---	PASS	A	482234	A	A	482234	2	1	66	1	0	0	0	0	0	0	0	1	14713	813	29	2		2	SLC9A3	5	482234	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08		482234	180433026	209	25914										
ADCY2	108	broad.mit.edu	37	chr5	7520856	7520856	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttctctgcccgtaggtatcGttcttcctcttcatcatctt	5	14	6	0	rs139006667		TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:7520856G>T	uc003jdz.1	+	3	481	c.414G>T	c.(412-414)TCG>TCT	p.S138S		NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	138	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CGTAGGTATCGTTCTTCCTCT	0.498													9	45	---	---	---	---	PASS	T	7520856	T	T	7520856	2	4	66	1	0	0	0	0	0	0	0	1	294	1132	40	1		1	ADCY2	5	7520856	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	7038622	7520856	173394404	210	25915										
ADCY2	108	broad.mit.edu	37	chr5	7743796	7743796	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggtagaacgtccgtcctgggCatctcctttggggctgcgtt	14	11	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:7743796C>A	uc003jdz.1	+	15	1954	c.1887C>A	c.(1885-1887)GGC>GGA	p.G629G	ADCY2_uc011cmo.1_Silent_p.G449G	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	629	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CCGTCCTGGGCATCTCCTTTG	0.488													102	190	---	---	---	---	PASS	A	7743796	A	A	7743796	2	1	66	1	0	0	0	0	0	0	0	1	294	697	25	3		3	ADCY2	5	7743796	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	222940	7743796	173171464	211	25916										
CTNND2	1501	broad.mit.edu	37	chr5	11364830	11364831	+	Frame_Shift_Del	DEL	GG	-	-													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtgctcgtgcggtaggtgccGgtgtgtgctggcggcagagg					rs138883759	by1000genomes	TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:11364830_11364831delGG	uc003jfa.1	-	8	1494_1495	c.1349_1350delCC	c.(1348-1350)ACCfs	p.T450fs	CTNND2_uc010itt.2_Frame_Shift_Del_p.T359fs|CTNND2_uc011cmy.1_Frame_Shift_Del_p.T113fs|CTNND2_uc011cmz.1_Frame_Shift_Del_p.T17fs|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Frame_Shift_Del_p.T17fs	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	450					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GGTAGGTGCCGGTGTGTGCTGG	0.604													23	12	---	---	---	---		-	11364831	-	-	11364830	7	5	66	1	0	1	0	1	0	0	0	0	4020	1103	39	0	2387	0	CTNND2	5	11364830	Frame_Shift_Del	DEL	GG	TCGA-34-5231-01A-21D-1817-08	3621034	11364830	169550430	212	25917										
DNAH5	1767	broad.mit.edu	37	chr5	13770908	13770908	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttttctccatatatgaacttAtagccctgaataaaggagag	7	7	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:13770908A>T	uc003jfd.2	-	56	9597	c.9555T>A	c.(9553-9555)TAT>TAA	p.Y3185*	DNAH5_uc003jfc.2_5'Flank	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3185	Stalk (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					ATATGAACTTATAGCCCTGAA	0.423									Kartagener_syndrome				18	41	---	---	---	---	PASS	T	13770908	T	T	13770908	4	4	66	1	0	0	0	0	0	1	0	0	4604	456	16	5	4415	5	DNAH5	5	13770908	Nonsense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	2406078	13770908	167144352	213	25918										
PRDM9	56979	broad.mit.edu	37	chr5	23509588	23509588	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acttcctctaggtcaaagatGccttcaaagacatttccata	5	11	3	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:23509588G>T	uc003jgo.2	+	3	261	c.79G>T	c.(79-81)GCC>TCC	p.A27S		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	27	KRAB-related.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						GGTCAAAGATGCCTTCAAAGA	0.438										HNSCC(3;0.000094)			30	138	---	---	---	---	PASS	T	23509588	T	T	23509588	3	4	66	1	0	0	0	0	1	0	0	0	12463	1319	46	3	85	3	PRDM9	5	23509588	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	9738680	23509588	157405672	214	25919										
RXFP3	51289	broad.mit.edu	37	chr5	33937291	33937291	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgctcttgacttcaaatggcCcttcggcaaggccatgtgta	10	12	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:33937291C>A	uc003jic.1	+	1	803	c.446C>A	c.(445-447)CCC>CAC	p.P149H		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	149	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						TTCAAATGGCCCTTCGGCAAG	0.547													31	81	---	---	---	---	PASS	A	33937291	A	A	33937291	3	1	66	1	0	0	0	0	1	0	0	0	13761	623	22	3	448	3	RXFP3	5	33937291	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	10427703	33937291	146977969	215	25920										
OSMR	9180	broad.mit.edu	37	chr5	38881806	38881806	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaataaagagtttggtggacGatgccaagttccctgagcca	12	8	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:38881806G>A	uc003jln.1	+	4	725	c.358G>A	c.(358-360)GAT>AAT	p.D120N	OSMR_uc003jlm.1_Missense_Mutation_p.D120N	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	120	Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					TTTGGTGGACGATGCCAAGTT	0.473													41	72	---	---	---	---	PASS	A	38881806	A	A	38881806	3	1	66	1	0	0	0	0	1	0	0	0	11292	1058	37	2	368	2	OSMR	5	38881806	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4944515	38881806	142033454	216	25921										
NNT	23530	broad.mit.edu	37	chr5	43659318	43659318	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggggtgctgacatgcccgtcGttatcactgtgctgaacagc	13	11	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:43659318G>T	uc003joe.2	+	17	2755	c.2500G>T	c.(2500-2502)GTT>TTT	p.V834F	NNT_uc003jof.2_Missense_Mutation_p.V834F	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	834	Helical; (Potential).				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	CATGCCCGTCGTTATCACTGT	0.473													70	107	---	---	---	---	PASS	T	43659318	T	T	43659318	3	4	66	1	0	0	0	0	1	0	0	0	10510	1145	40	1	2562	1	NNT	5	43659318	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4777512	43659318	137255942	217	25922										
HCN1	348980	broad.mit.edu	37	chr5	45262680	45262680	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgcaggttgctgtgagacagGctggtcgctgtgtacaccgg	16	9	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:45262680G>T	uc003jok.2	-	8	2041	c.2016C>A	c.(2014-2016)AGC>AGA	p.S672R		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	672	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TGTGAGACAGGCTGGTCGCTG	0.587													17	34	---	---	---	---	PASS	T	45262680	T	T	45262680	3	4	66	1	0	0	0	0	1	0	0	0	6996	1194	42	3	660	3	HCN1	5	45262680	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1603362	45262680	135652580	218	25923										
HCN1	348980	broad.mit.edu	37	chr5	45461983	45461983	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agacacccagcaatctggtgGgaagtcctgcagtagtggta	13	9	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:45461983G>T	uc003jok.2	-	3	1001	c.976C>A	c.(976-978)CCA>ACA	p.P326T		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	326	Extracellular (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CAATCTGGTGGGAAGTCCTGC	0.408													6	24	---	---	---	---	PASS	T	45461983	T	T	45461983	3	4	66	1	0	0	0	0	1	0	0	0	6996	1232	43	3	1720	3	HCN1	5	45461983	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	199303	45461983	135453277	219	25924										
KIF2A	3796	broad.mit.edu	37	chr5	61648442	61648442	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttcagcacgtgcacggcccaGtcaatttcctgaacagtctt	8	13	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:61648442G>T	uc003jsy.3	+	5	673	c.362G>T	c.(361-363)AGT>ATT	p.S121I	KIF2A_uc003jsz.3_Missense_Mutation_p.S121I|KIF2A_uc010iwp.2_Missense_Mutation_p.S121I|KIF2A_uc003jsx.3_Missense_Mutation_p.S101I|KIF2A_uc010iwq.2_5'UTR	NM_004520	NP_004511	O00139	KIF2A_HUMAN	kinesin heavy chain member 2 isoform 1	121	Globular (Potential).				blood coagulation|cell differentiation|cell division|microtubule-based movement|mitotic prometaphase|mitotic spindle organization|nervous system development	centrosome|cytosol|microtubule|spindle pole	ATP binding|microtubule motor activity|protein binding				0		Lung NSC(810;8.94e-06)|Prostate(74;0.0132)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.14)		GCACGGCCCAGTCAATTTCCT	0.378													7	13	---	---	---	---	PASS	T	61648442	T	T	61648442	3	4	66	1	0	0	0	0	1	0	0	0	8297	1029	36	3	380	3	KIF2A	5	61648442	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	16186459	61648442	119266818	220	25925										
HTR1A	3350	broad.mit.edu	37	chr5	63256827	63256827	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcgggagatgctccatggcgGgtgtccgctccggtcttctc	15	13	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:63256827G>A	uc011cqt.1	-	1	720	c.720C>T	c.(718-720)ACC>ACT	p.T240T		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	240	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	CTCCATGGCGGGTGTCCGCTC	0.632													30	45	---	---	---	---	PASS	A	63256827	A	A	63256827	2	1	66	1	0	0	0	0	0	0	0	1	7436	1219	43	3		3	HTR1A	5	63256827	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	1608385	63256827	117658433	221	25926										
MAST4	375449	broad.mit.edu	37	chr5	66460076	66460076	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggccaacatcgattacctccGaaagaaaatgtcacttgagg	9	10	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:66460076G>T	uc003jut.1	+	28	4570	c.4502G>T	c.(4501-4503)CGA>CTA	p.R1501L	MAST4_uc003juw.2_Missense_Mutation_p.R1429L|MAST4_uc003jux.2_5'Flank	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1693						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)		GATTACCTCCGAAAGAAAATG	0.547													9	11	---	---	---	---	PASS	T	66460076	T	T	66460076	3	4	66	1	0	0	0	0	1	0	0	0	9327	1058	37	2	5313	2	MAST4	5	66460076	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	3203249	66460076	114455184	222	25927										
TAF9	6880	broad.mit.edu	37	chr5	68661401	68661401	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tagcatggcttgaataaattTttgcatcatctagaattgtg	8	5	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:68661401T>G	uc003jwc.1	-	2	496	c.164A>C	c.(163-165)AAA>ACA	p.K55T	TAF9_uc003jwa.2_Intron|TAF9_uc003jwb.2_Intron|TAF9_uc003jwd.1_Missense_Mutation_p.K55T|TAF9_uc003jwe.1_Missense_Mutation_p.K55T|TAF9_uc003jwf.1_Missense_Mutation_p.K55T	NM_003187	NP_003178	Q16594	TAF9_HUMAN	TAF9 RNA polymerase II, TATA box binding	55					histone H3 acetylation|negative regulation of apoptosis|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of cell growth|positive regulation of response to cytokine stimulus|positive regulation of transcription from RNA polymerase II promoter|response to interleukin-1|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	MLL1 complex|PCAF complex|pre-snoRNP complex|STAGA complex|transcription factor TFIID complex|transcription factor TFTC complex	activating transcription factor binding|C2H2 zinc finger domain binding|p53 binding|transcription coactivator activity|transcription regulatory region DNA binding				0		Lung NSC(167;7.26e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.1e-56)|Epithelial(20;9.54e-53)|all cancers(19;2.2e-48)|Lung(70;0.0176)		TGAATAAATTTTTGCATCATC	0.428													30	64	---	---	---	---	PASS	G	68661401	G	G	68661401	3	3	66	1	0	0	0	0	1	0	0	0	15532	1841	64	5	1044	5	TAF9	5	68661401	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	2201325	68661401	112253859	223	25928										
GTF2H2	2966	broad.mit.edu	37	chr5	70338049	70338049	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtagctcacagtactttgccCgacactgtgggcagaaatag	11	10	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:70338049C>A	uc003kav.3	-	13	1094	c.884G>T	c.(883-885)CGG>CTG	p.R295L	NAIP_uc003kat.1_Intron|GTF2H2_uc003kau.3_Missense_Mutation_p.R295L|GTF2H2_uc011crt.1_Missense_Mutation_p.R238L	NM_001515	NP_001506	Q13888	TF2H2_HUMAN	general transcription factor IIH, polypeptide 2,	295	C4-type.				G-protein coupled receptor internalization|mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of viral transcription|protein phosphorylation|response to UV|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	protein N-terminus binding|sequence-specific DNA binding transcription factor activity|translation factor activity, nucleic acid binding|zinc ion binding				0		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		GTACTTTGCCCGACACTGTGG	0.393								NER					50	23	---	---	---	---	PASS	A	70338049	A	A	70338049	3	1	66	1	0	0	0	0	1	0	0	0	6861	652	23	1	319	1	GTF2H2	5	70338049	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1676648	70338049	110577211	224	25929										
ZFYVE16	9765	broad.mit.edu	37	chr5	79743890	79743890	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	attctactacagtggaaaagCcaaacaatgagacaggagat	9	7	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:79743890C>T	uc003kgr.3	+	8	3072	c.2770C>T	c.(2770-2772)CCA>TCA	p.P924S	ZFYVE16_uc003kgp.2_Missense_Mutation_p.P924S|ZFYVE16_uc003kgq.3_Missense_Mutation_p.P924S|ZFYVE16_uc003kgs.3_Missense_Mutation_p.P924S|ZFYVE16_uc003kgt.3_Intron	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	924					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		AGTGGAAAAGCCAAACAATGA	0.328													7	26	---	---	---	---	PASS	T	79743890	T	T	79743890	3	4	66	1	0	0	0	0	1	0	0	0	17661	739	26	3	2792	3	ZFYVE16	5	79743890	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	9405841	79743890	101171370	225	25930										
VCAN	1462	broad.mit.edu	37	chr5	82833026	82833026	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agtgtgcaaatgctactgatGtgacaaccaccccatctgtg	9	11	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:82833026G>A	uc003kii.3	+	8	4560	c.4204G>A	c.(4204-4206)GTG>ATG	p.V1402M	VCAN_uc003kij.3_Missense_Mutation_p.V415M|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.V66M	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1402	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TGCTACTGATGTGACAACCAC	0.408													13	25	---	---	---	---	PASS	A	82833026	A	A	82833026	3	1	66	1	0	0	0	0	1	0	0	0	17135	1377	48	3	4230	3	VCAN	5	82833026	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	3089136	82833026	98082234	226	25931										
VCAN	1462	broad.mit.edu	37	chr5	82836960	82836960	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgaaggaataaaagctgaagCaaaagccctggatgacatgt	11	6	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:82836960C>T	uc003kii.3	+	8	8494	c.8138C>T	c.(8137-8139)GCA>GTA	p.A2713V	VCAN_uc003kij.3_Missense_Mutation_p.A1726V|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.A1377V	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2713	GAG-beta.			IKAEA -> EFREV (in Ref. 7; AAA36437).	cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		AAAGCTGAAGCAAAAGCCCTG	0.418													23	27	---	---	---	---	PASS	T	82836960	T	T	82836960	3	4	66	1	0	0	0	0	1	0	0	0	17135	710	25	3	8164	3	VCAN	5	82836960	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3934	82836960	98078300	227	25932										
VCAN	1462	broad.mit.edu	37	chr5	82841364	82841364	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgaatatggtaggacctgatCgctgcaaaatgaacccgtgc	11	9	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:82841364C>A	uc003kii.3	+	9	9630	c.9274C>A	c.(9274-9276)CGC>AGC	p.R3092S	VCAN_uc003kij.3_Missense_Mutation_p.R2105S|VCAN_uc010jau.2_Missense_Mutation_p.R1338S|VCAN_uc003kik.3_Missense_Mutation_p.R351S|VCAN_uc003kil.3_Missense_Mutation_p.R1756S	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3092	EGF-like 1.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		AGGACCTGATCGCTGCAAAAT	0.458													41	138	---	---	---	---	PASS	A	82841364	A	A	82841364	3	1	66	1	0	0	0	0	1	0	0	0	17135	884	31	2	9304	2	VCAN	5	82841364	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4404	82841364	98073896	228	25933										
MEF2C	4208	broad.mit.edu	37	chr5	88047822	88047822	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgttgtggctggacactggGatggagactggcatctcgaa	15	8	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:88047822G>A	uc003kjj.2	-	5	1114	c.441C>T	c.(439-441)ATC>ATT	p.I147I	MEF2C_uc003kji.2_Silent_p.I147I|MEF2C_uc003kjk.2_Silent_p.I147I|MEF2C_uc003kjm.2_Silent_p.I145I|MEF2C_uc003kjl.2_Silent_p.I165I	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	147	Ser-rich.				apoptosis|B cell proliferation|innate immune response|learning or memory|muscle cell differentiation|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|neuron development|positive regulation of muscle cell differentiation|positive regulation of survival gene product expression|positive regulation of transcription from RNA polymerase II promoter|regulation of germinal center formation|regulation of megakaryocyte differentiation|regulation of synaptic activity|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	nuclear speck	activating transcription factor binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(3)|breast(2)|ovary(1)|large_intestine(1)	7		all_cancers(142;6.67e-05)|all_epithelial(76;7.77e-07)|Lung NSC(167;0.00566)|all_lung(232;0.00732)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;1.04e-33)|Epithelial(54;1.6e-28)|all cancers(79;2.9e-25)		TGGACACTGGGATGGAGACTG	0.478										HNSCC(66;0.2)			20	58	---	---	---	---	PASS	A	88047822	A	A	88047822	2	1	66	1	0	0	0	0	0	0	0	1	9457	1164	41	2		2	MEF2C	5	88047822	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	5206458	88047822	92867438	229	25934										
SLCO4C1	353189	broad.mit.edu	37	chr5	101582983	101582983	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tagacacagttataggagtaCcggccataaaggtaaaaata	9	6	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:101582983C>G	uc003knm.2	-	10	2071	c.1784G>C	c.(1783-1785)GGT>GCT	p.G595A		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	595	Helical; Name=10; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		TATAGGAGTACCGGCCATAAA	0.378													15	45	---	---	---	---	PASS	G	101582983	G	G	101582983	3	3	66	1	0	0	0	0	1	0	0	0	14730	507	18	4	406	4	SLCO4C1	5	101582983	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	13535161	101582983	79332277	230	25935										
SLCO4C1	353189	broad.mit.edu	37	chr5	101627153	101627153	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcaaatgcaagccatctcggCttatgtcctctttcaccaaa	6	13	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:101627153C>T	uc003knm.2	-	2	800	c.513G>A	c.(511-513)AAG>AAA	p.K171K		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	171	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		GCCATCTCGGCTTATGTCCTC	0.388													10	33	---	---	---	---	PASS	T	101627153	T	T	101627153	2	4	66	1	0	0	0	0	0	0	0	1	14730	796	28	3		3	SLCO4C1	5	101627153	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	44170	101627153	79288107	231	25936										
KCNN2	3781	broad.mit.edu	37	chr5	113740526	113740526	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tatctcattatggataattgCcgcatggactgtccgagctt	9	9	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:113740526C>G	uc003kqo.2	+	3	1431	c.974C>G	c.(973-975)GCC>GGC	p.A325G		NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	325	Helical; Name=Segment S5; (Potential).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		TGGATAATTGCCGCATGGACT	0.323													44	82	---	---	---	---	PASS	G	113740526	G	G	113740526	3	3	66	1	0	0	0	0	1	0	0	0	8079	739	26	4	984	4	KCNN2	5	113740526	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	12113373	113740526	67174734	232	25937										
TRIM36	55521	broad.mit.edu	37	chr5	114462205	114462205	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	catcagatgtttcaactacaTgtcctcttggtattccagat	6	10	3	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:114462205T>C	uc003kqs.2	-	10	2691	c.2182A>G	c.(2182-2184)ATG>GTG	p.M728V	TRIM36_uc011cwc.1_Missense_Mutation_p.M716V|TRIM36_uc003kqt.2_Missense_Mutation_p.M573V	NM_018700	NP_061170	Q9NQ86	TRI36_HUMAN	tripartite motif-containing 36 isoform 1	728						acrosomal vesicle|cytoskeleton	ligase activity|zinc ion binding			ovary(4)|lung(2)|breast(2)	8		all_cancers(142;0.00133)|all_epithelial(76;2.41e-05)|Prostate(80;0.00955)|Ovarian(225;0.0443)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;3.62e-08)|Epithelial(69;7.69e-08)|all cancers(49;9.33e-06)		TTCAACTACATGTCCTCTTGG	0.398													14	19	---	---	---	---	PASS	C	114462205	C	C	114462205	3	2	66	1	0	0	0	0	1	0	0	0	16507	1464	51	5	8	5	TRIM36	5	114462205	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	721679	114462205	66453055	233	25938										
DMXL1	1657	broad.mit.edu	37	chr5	118479539	118479539	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttttttaaaaaaaacagaaaTatgttggtgaagtctttaac	6	3	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:118479539T>A	uc003ksd.2	+	14	2561	c.2380T>A	c.(2380-2382)TAT>AAT	p.Y794N	DMXL1_uc010jcl.1_Missense_Mutation_p.Y794N	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	794										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		aaaaCAGAAATATGTTGGTGA	0.264													41	71	---	---	---	---	PASS	A	118479539	A	A	118479539	3	1	66	1	0	0	0	0	1	0	0	0	4594	1406	49	5	2434	5	DMXL1	5	118479539	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	4017334	118479539	62435721	234	25939										
PRR16	51334	broad.mit.edu	37	chr5	120021726	120021726	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gacagctccaaaacggacacGctgaatagtagctcaagtgg	11	10	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:120021726G>T	uc003ksq.2	+	2	400	c.237G>T	c.(235-237)ACG>ACT	p.T79T	PRR16_uc003ksp.2_Silent_p.T56T|PRR16_uc003ksr.2_Silent_p.T9T	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16	79										pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		AAACGGACACGCTGAATAGTA	0.507													23	61	---	---	---	---	PASS	T	120021726	T	T	120021726	2	4	66	1	0	0	0	0	0	0	0	1	12589	1074	38	1		1	PRR16	5	120021726	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	1542187	120021726	60893534	235	25940										
FBN2	2201	broad.mit.edu	37	chr5	127863628	127863628	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtggtcatctgcacaggtccCaccattcatgcatctcacac	7	15	4	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:127863628C>A	uc003kuu.2	-	4	908	c.469G>T	c.(469-471)GGG>TGG	p.G157W	FBN2_uc003kuv.2_Missense_Mutation_p.G124W|FBN2_uc003kuw.3_Missense_Mutation_p.G157W|FBN2_uc003kux.1_Missense_Mutation_p.G157W	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	157	EGF-like 2.				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)		GCACAGGTCCCACCATTCATG	0.373													24	45	---	---	---	---	PASS	A	127863628	A	A	127863628	3	1	66	1	0	0	0	0	1	0	0	0	5703	594	21	3	8517	3	FBN2	5	127863628	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	7841902	127863628	53051632	236	25941										
UBE2D2	7322	broad.mit.edu	37	chr5	138994297	138994297	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aacagaatgacagtccctatCagggtggagtatttttcttg	10	7	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:138994297C>G	uc003ler.2	+	4	762	c.136C>G	c.(136-138)CAG>GAG	p.Q46E	UBE2D2_uc003leq.2_Missense_Mutation_p.Q17E	NM_003339	NP_003330	P62837	UB2D2_HUMAN	ubiquitin-conjugating enzyme E2D 2 isoform 1	46					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process		ATP binding|protein binding|ubiquitin-protein ligase activity			central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CAGTCCCTATCAGGGTGGAGT	0.338													28	57	---	---	---	---	PASS	G	138994297	G	G	138994297	3	3	66	1	0	0	0	0	1	0	0	0	16846	827	29	2	150	2	UBE2D2	5	138994297	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	11130669	138994297	41920963	237	25942										
PCDHA7	56141	broad.mit.edu	37	chr5	140215250	140215250	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atgagctggtggttaccgcgCgggacgggggctcgccttct	17	11	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:140215250C>T	uc003lhq.2	+	1	1282	c.1282C>T	c.(1282-1284)CGG>TGG	p.R428W	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.R428W	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	428	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTTACCGCGCGGGACGGGGG	0.617													47	88	---	---	---	---	PASS	T	140215250	T	T	140215250	3	4	66	1	0	0	0	0	1	0	0	0	11529	759	27	1	1284	1	PCDHA7	5	140215250	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1220953	140215250	40700010	238	25943										
PCDHA7	56141	broad.mit.edu	37	chr5	140216091	140216091	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	catcgccatctgcgcggtgtCcagtctgttggtgcttaccc	11	14	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:140216091C>G	uc003lhq.2	+	1	2123	c.2123C>G	c.(2122-2124)TCC>TGC	p.S708C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.S708C	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	708	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCGCGGTGTCCAGTCTGTTG	0.612													17	46	---	---	---	---	PASS	G	140216091	G	G	140216091	3	3	66	1	0	0	0	0	1	0	0	0	11529	855	30	2	2125	2	PCDHA7	5	140216091	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	841	140216091	40699169	239	25944										
PCDHA11	56138	broad.mit.edu	37	chr5	140250819	140250819	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcgtggtgtccagcctcctgGtactcacgctgctgctgtat	12	13	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:140250819G>C	uc003lia.2	+	1	2989	c.2131G>C	c.(2131-2133)GTA>CTA	p.V711L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.V711L	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	711	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCCTCCTGGTACTCACGCT	0.682													14	27	---	---	---	---	PASS	C	140250819	C	C	140250819	3	2	66	1	0	0	0	0	1	0	0	0	11521	1261	44	4	2133	4	PCDHA11	5	140250819	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	34728	140250819	40664441	240	25945										
PCDHAC2	56134	broad.mit.edu	37	chr5	140346559	140346559	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcgcgctggggcttgagctgCggcgcttggggccgggttgc	21	11	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:140346559C>A	uc003lii.2	+	1	448	c.208C>A	c.(208-210)CGG>AGG	p.R70R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Silent_p.R70R	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	70	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTTGAGCTGCGGCGCTTGGG	0.692													5	11	---	---	---	---	PASS	A	140346559	A	A	140346559	2	1	66	1	0	0	0	0	0	0	0	1	11533	759	27	1		1	PCDHAC2	5	140346559	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	95740	140346559	40568701	241	25946										
PCDHB6	56130	broad.mit.edu	37	chr5	140530565	140530565	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acaacgtccccgagtttgctCaggagctctatgaagcacaa	9	12	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:140530565C>G	uc003lir.2	+	1	727	c.727C>G	c.(727-729)CAG>GAG	p.Q243E	PCDHB6_uc011dah.1_Missense_Mutation_p.Q107E	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	243	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGAGTTTGCTCAGGAGCTCTA	0.552													7	17	---	---	---	---	PASS	G	140530565	G	G	140530565	3	3	66	1	0	0	0	0	1	0	0	0	11546	827	29	2	729	2	PCDHB6	5	140530565	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	184006	140530565	40384695	242	25947										
PCDHB8	56128	broad.mit.edu	37	chr5	140559017	140559017	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tccgcgagaacaacagccccGccctgcacatcggcagcgtc	10	18	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:140559017G>A	uc011dai.1	+	1	1588	c.1402G>A	c.(1402-1404)GCC>ACC	p.A468T	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	468	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAACAGCCCCGCCCTGCACAT	0.637													34	241	---	---	---	---	PASS	A	140559017	A	A	140559017	3	1	66	1	0	0	0	0	1	0	0	0	11548	1087	38	1	1404	1	PCDHB8	5	140559017	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	28452	140559017	40356243	243	25948										
PCDHB11	56125	broad.mit.edu	37	chr5	140581299	140581299	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caaggacaatggcgagcctcCgcgctcggccaccgccacgc	12	18	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:140581299C>T	uc003liy.2	+	1	1952	c.1952C>T	c.(1951-1953)CCG>CTG	p.P651L	PCDHB11_uc011daj.1_Missense_Mutation_p.P286L	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	651	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCGAGCCTCCGCGCTCGGCC	0.721													7	36	---	---	---	---	PASS	T	140581299	T	T	140581299	3	4	66	1	0	0	0	0	1	0	0	0	11536	652	23	1	1954	1	PCDHB11	5	140581299	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	22282	140581299	40333961	244	25949										
PCDHGA4	56111	broad.mit.edu	37	chr5	140736526	140736526	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gctccgcagattccggctacCtggtgaccaaagtggtggca	13	12	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:140736526C>T	uc003ljq.1	+	1	1759	c.1759C>T	c.(1759-1761)CTG>TTG	p.L587L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Silent_p.L587L	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	587	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCCGGCTACCTGGTGACCAA	0.592													41	82	---	---	---	---	PASS	T	140736526	T	T	140736526	2	4	66	1	0	0	0	0	0	0	0	1	11556	680	24	3		3	PCDHGA4	5	140736526	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	155227	140736526	40178734	245	25950										
PCDHGA5	56110	broad.mit.edu	37	chr5	140745690	140745690	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggtagcggtggacaaagattCaggccagaacgcctggctgt	15	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:140745690C>T	uc003lju.1	+	1	1793	c.1793C>T	c.(1792-1794)TCA>TTA	p.S598L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.S598L	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	598	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACAAAGATTCAGGCCAGAAC	0.672													30	51	---	---	---	---	PASS	T	140745690	T	T	140745690	3	4	66	1	0	0	0	0	1	0	0	0	11557	838	29	2	1795	2	PCDHGA5	5	140745690	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	9164	140745690	40169570	246	25951										
PCDHGA8	9708	broad.mit.edu	37	chr5	140772974	140772974	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccagagctggtgctggagcgCgccctggacagggaggaaga	18	10	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:140772974C>T	uc003lkd.1	+	1	1492	c.594C>T	c.(592-594)CGC>CGT	p.R198R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Silent_p.R198R	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	198	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTGGAGCGCGCCCTGGACA	0.632													14	36	---	---	---	---	PASS	T	140772974	T	T	140772974	2	4	66	1	0	0	0	0	0	0	0	1	11560	755	27	1		1	PCDHGA8	5	140772974	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	27284	140772974	40142286	247	25952										
PCDHGA8	9708	broad.mit.edu	37	chr5	140774332	140774332	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggccgtccaggaccatggccAgccccctctctccgccactg	10	20	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:140774332A>T	uc003lkd.1	+	1	2850	c.1952A>T	c.(1951-1953)CAG>CTG	p.Q651L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.Q651L	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	651	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACCATGGCCAGCCCCCTCTC	0.677													6	29	---	---	---	---	PASS	T	140774332	T	T	140774332	3	4	66	1	0	0	0	0	1	0	0	0	11560	188	7	5	1954	5	PCDHGA8	5	140774332	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	1358	140774332	40140928	248	25953										
DPYSL3	1809	broad.mit.edu	37	chr5	146795384	146795384	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccatcagcccactctctccaTttctcataggcctcagtcag	5	17	5	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:146795384T>G	uc003lon.1	-	4	476	c.366A>C	c.(364-366)AAA>AAC	p.K122N	DPYSL3_uc003loo.2_Missense_Mutation_p.K236N	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	122					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTCTCTCCATTTCTCATAGG	0.537													41	105	---	---	---	---	PASS	G	146795384	G	G	146795384	3	3	66	1	0	0	0	0	1	0	0	0	4748	1490	52	5	1390	5	DPYSL3	5	146795384	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	6021052	146795384	34119876	249	25954										
ZNF300	91975	broad.mit.edu	37	chr5	150275503	150275503	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cacatttgtagggtttctcaCcagtgtgaattcttttatgt	8	7	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:150275503C>A	uc003lsy.1	-	6	1565	c.1298G>T	c.(1297-1299)GGT>GTT	p.G433V	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	433					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGGTTTCTCACCAGTGTGAAT	0.433													13	42	---	---	---	---	PASS	A	150275503	A	A	150275503	3	1	66	1	0	0	0	0	1	0	0	0	17828	507	18	3	520	3	ZNF300	5	150275503	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3480119	150275503	30639757	250	25955										
FAT2	2196	broad.mit.edu	37	chr5	150911198	150911198	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gctcgttcccgctgaccacgCggtagccggtcttctctgcg	12	16	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:150911198C>A	uc003lue.3	-	13	9774	c.9761G>T	c.(9760-9762)CGC>CTC	p.R3254L	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_5'UTR	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3254	Extracellular (Potential).|Cadherin 29.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCTGACCACGCGGTAGCCGGT	0.672													8	18	---	---	---	---	PASS	A	150911198	A	A	150911198	3	1	66	1	0	0	0	0	1	0	0	0	5690	768	27	1	3332	1	FAT2	5	150911198	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	635695	150911198	30004062	251	25956										
KIF4B	285643	broad.mit.edu	37	chr5	154396295	154396295	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagtgaaaaggaacaacagcTggtgagcacactgcagtgtc	12	9	0	2	rs148448511	by1000genomes	TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:154396295T>C	uc010jih.1	+	1	3036	c.2876T>C	c.(2875-2877)CTG>CCG	p.L959P		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	959	Interaction with PRC1 (By similarity).|Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			GAACAACAGCTGGTGAGCACA	0.473													14	51	---	---	---	---	PASS	C	154396295	C	C	154396295	3	2	66	1	0	0	0	0	1	0	0	0	8304	1580	55	5	2878	5	KIF4B	5	154396295	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	3485097	154396295	26518965	252	25957										
SGCD	6444	broad.mit.edu	37	chr5	155935659	155935659	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaaaaggtctaaagctagaaGgagactctgaattcttacaa	8	6	3	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:155935659G>A	uc003lwd.3	+	3	714	c.238G>A	c.(238-240)GGA>AGA	p.G80R	SGCD_uc003lwa.1_Missense_Mutation_p.G81R|SGCD_uc003lwb.2_Missense_Mutation_p.G81R|SGCD_uc003lwc.3_Missense_Mutation_p.G81R	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	80	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AAAGCTAGAAGGAGACTCTGA	0.403													18	25	---	---	---	---	PASS	A	155935659	A	A	155935659	3	1	66	1	0	0	0	0	1	0	0	0	14201	1001	35	3	251	3	SGCD	5	155935659	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1539364	155935659	24979601	253	25958										
HAVCR1	26762	broad.mit.edu	37	chr5	156456809	156456809	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgcttggacttccttttcaaCtgcattttgcaaagctttaa	6	9	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:156456809C>A	uc010jij.1	-	9	1215	c.1030G>T	c.(1030-1032)GTT>TTT	p.V344F	HAVCR1_uc011ddl.1_Missense_Mutation_p.Q163H|HAVCR1_uc003lwi.2_Missense_Mutation_p.V344F	NM_001099414	NP_001092884	Q96D42	HAVR1_HUMAN	hepatitis A virus cellular receptor 1	339	Cytoplasmic (Potential).				interspecies interaction between organisms	integral to membrane	receptor activity			ovary(1)|skin(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TCCTTTTCAACTGCATTTTGC	0.388													11	25	---	---	---	---	PASS	A	156456809	A	A	156456809	3	1	66	1	0	0	0	0	1	0	0	0	6973	565	20	3	68	3	HAVCR1	5	156456809	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	521150	156456809	24458451	254	25959										
GABRG2	2566	broad.mit.edu	37	chr5	161576271	161576271	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggcaccttgcattattttgtCagcaaccggaaaccaagcaa	8	11	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:161576271C>T	uc003lyz.3	+	8	1438	c.1080C>T	c.(1078-1080)GTC>GTT	p.V360V	GABRG2_uc010jjc.2_Silent_p.V400V|GABRG2_uc003lyy.3_Silent_p.V360V|GABRG2_uc011dej.1_Silent_p.V265V	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	360	Cytoplasmic (Probable).				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)		ATTATTTTGTCAGCAACCGGA	0.393													23	52	---	---	---	---	PASS	T	161576271	T	T	161576271	2	4	66	1	0	0	0	0	0	0	0	1	6172	813	29	2		2	GABRG2	5	161576271	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	5119462	161576271	19338989	255	25960										
DOCK2	1794	broad.mit.edu	37	chr5	169127139	169127139	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggattcccagagatcatcatGccaggtgagacacagctgct	11	11	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:169127139G>T	uc003maf.2	+	13	1334	c.1254G>T	c.(1252-1254)ATG>ATT	p.M418I	DOCK2_uc011der.1_RNA|DOCK2_uc010jjl.1_5'Flank	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	418					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGATCATCATGCCAGGTGAGA	0.517													37	89	---	---	---	---	PASS	T	169127139	T	T	169127139	3	4	66	1	0	0	0	0	1	0	0	0	4687	1319	46	3	1304	3	DOCK2	5	169127139	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	7550868	169127139	11788121	256	25961										
C5orf25	375484	broad.mit.edu	37	chr5	175749343	175749343	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctcagcccccaaatggaaatCaaacgtcttcaggaacagga	8	12	4	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:175749343C>A	uc003mds.3	+	8	2307	c.1900C>A	c.(1900-1902)CAA>AAA	p.Q634K	C5orf25_uc003mdt.3_Missense_Mutation_p.Q219K|C5orf25_uc003mdr.3_RNA|C5orf25_uc003mdv.2_Missense_Mutation_p.Q95K			Q8NDZ2	CE025_HUMAN	RecName: Full=Uncharacterized protein C5orf25;	634											0	all_cancers(89;0.00381)|Renal(175;0.000269)|Lung NSC(126;0.0122)|all_lung(126;0.0193)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.119)		AAATGGAAATCAAACGTCTTC	0.458													5	10	---	---	---	---	PASS	A	175749343	A	A	175749343	3	1	66	1	0	0	0	0	1	0	0	0	2288	827	29	2	673	2	C5orf25	5	175749343	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	6622204	175749343	5165917	257	25962										
NSD1	64324	broad.mit.edu	37	chr5	176638020	176638020	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tctcttacagatccttaggtGaggatgtcagtgactctgga	11	8	3	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:176638020G>T	uc003mfr.3	+	5	2758	c.2620G>T	c.(2620-2622)GAG>TAG	p.E874*	NSD1_uc003mft.3_Nonsense_Mutation_p.E605*|NSD1_uc003mfs.1_Nonsense_Mutation_p.E771*|NSD1_uc011dfx.1_Nonsense_Mutation_p.E522*	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	874					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		ATCCTTAGGTGAGGATGTCAG	0.393			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			59	22	---	---	---	---	PASS	T	176638020	T	T	176638020	4	4	66	1	0	0	0	0	0	1	0	0	10669	1291	45	2	2634	2	NSD1	5	176638020	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	888677	176638020	4277240	258	25963										
MGAT4B	11282	broad.mit.edu	37	chr5	179227526	179227526	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caaaggactctcggaggcggGagaagtcagggtagaagtgg	18	6	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:179227526G>C	uc003mks.2	-	6	1046	c.677C>G	c.(676-678)TCC>TGC	p.S226C	MGAT4B_uc003mkp.2_Missense_Mutation_p.S81C|MGAT4B_uc003mkq.2_Missense_Mutation_p.S81C|MGAT4B_uc003mkr.2_Missense_Mutation_p.S241C|MIR1229_hsa-mir-1229|MI0006319_5'Flank	NM_014275	NP_055090	Q9UQ53	MGT4B_HUMAN	alpha-1,3-mannosyl-glycoprotein	226	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding				0	all_cancers(89;0.000201)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0525)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCGGAGGCGGGAGAAGTCAGG	0.607													5	21	---	---	---	---	PASS	C	179227526	C	C	179227526	3	2	66	1	0	0	0	0	1	0	0	0	9546	1174	41	2	1009	2	MGAT4B	5	179227526	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2589506	179227526	1687734	259	25964										
MGAT1	4245	broad.mit.edu	37	chr5	180219177	180219177	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aacagcagccagcccaggccAgggaaaaagtcggtgcggta	14	11	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr5:180219177A>T	uc003mmg.3	-	2	1290	c.795T>A	c.(793-795)CCT>CCA	p.P265P	MGAT1_uc010jlf.2_Silent_p.P265P|MGAT1_uc010jlg.2_Silent_p.P265P|MGAT1_uc003mmh.3_Silent_p.P265P|MGAT1_uc010jlh.2_Silent_p.P265P|MGAT1_uc003mmi.3_Silent_p.P265P	NM_002406	NP_002397	P26572	MGAT1_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	265	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(1)	1	all_cancers(89;1.11e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.0027)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00356)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGCCCAGGCCAGGGAAAAAGT	0.667													13	39	---	---	---	---	PASS	T	180219177	T	T	180219177	2	4	66	1	0	0	0	0	0	0	0	1	9542	175	7	5		5	MGAT1	5	180219177	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	991651	180219177	696083	260	25965										
JARID2	3720	broad.mit.edu	37	chr6	15507459	15507459	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	actcacggcagtggattcccAgtaggaaaatcagaaccctt	9	11	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:15507459A>C	uc003nbj.2	+	10	2878	c.2634A>C	c.(2632-2634)CCA>CCC	p.P878P	JARID2_uc011div.1_Silent_p.P706P|JARID2_uc011diw.1_Silent_p.P840P	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	878	GSGFP motif.				central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				GTGGATTCCCAGTAGGAAAAT	0.552													11	39	---	---	---	---	PASS	C	15507459	C	C	15507459	2	2	66	1	0	0	0	0	0	0	0	1	7945	175	7	5		5	JARID2	6	15507459	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08		15507459	155607608	261	25966										
JARID2	3720	broad.mit.edu	37	chr6	15517446	15517446	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tggagtgtgctctgcgccacGtggagaaacagaagtcctgc	14	10	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:15517446G>C	uc003nbj.2	+	17	3749	c.3505G>C	c.(3505-3507)GTG>CTG	p.V1169L	JARID2_uc011div.1_Missense_Mutation_p.V997L	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	1169					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				TCTGCGCCACGTGGAGAAACA	0.607													45	49	---	---	---	---	PASS	C	15517446	C	C	15517446	3	2	66	1	0	0	0	0	1	0	0	0	7945	1145	40	4	3571	4	JARID2	6	15517446	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	9987	15517446	155597621	262	25967										
HFE	3077	broad.mit.edu	37	chr6	26091106	26091106	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tacctcttcatgggtgcctcAgagcaggaccttggtctttc	10	12	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:26091106A>G	uc003nfx.1	+	2	274	c.114A>G	c.(112-114)TCA>TCG	p.S38S	HFE_uc003nfy.1_Intron|HFE_uc010jqe.1_Silent_p.S38S|HFE_uc003nfz.1_Intron|HFE_uc003ngd.1_Intron|HFE_uc003nga.1_Silent_p.S38S|HFE_uc003ngb.1_Silent_p.S38S|HFE_uc003ngc.1_Silent_p.S38S|HFE_uc003nge.1_Intron|HFE_uc003ngf.1_Intron	NM_000410	NP_000401	Q30201	HFE_HUMAN	hemochromatosis protein isoform 1 precursor	38	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I|cellular iron ion homeostasis|immune response|iron ion transport|protein complex assembly|receptor-mediated endocytosis	apical part of cell|basal part of cell|cytoplasmic vesicle|early endosome|integral to plasma membrane|MHC class I protein complex|perinuclear region of cytoplasm|recycling endosome	protein binding				0						TGGGTGCCTCAGAGCAGGACC	0.537									Hemochromatosis				101	81	---	---	---	---	PASS	G	26091106	G	G	26091106	2	3	66	1	0	0	0	0	0	0	0	1	7081	175	7	5		5	HFE	6	26091106	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	10573660	26091106	145023961	263	25968										
HIST1H2AE	3012	broad.mit.edu	37	chr6	26217562	26217562	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccgtattgctgcctaagaaGacggagagccaccataaggc	12	11	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:26217562G>C	uc003nha.1	+	1	415	c.360G>C	c.(358-360)AAG>AAC	p.K120N	HIST1H2BG_uc003ngz.2_5'Flank	NM_021052	NP_066390	P04908	H2A1B_HUMAN	histone cluster 1, H2ae	120					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2		all_hematologic(11;0.196)				TGCCTAAGAAGACGGAGAGCC	0.542													12	49	---	---	---	---	PASS	C	26217562	C	C	26217562	3	2	66	1	0	0	0	0	1	0	0	0	7132	933	33	2	362	2	HIST1H2AE	6	26217562	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	126456	26217562	144897505	264	25969										
OR2B2	81697	broad.mit.edu	37	chr6	27879955	27879955	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtttgaaatccacatgtgacAcaagaattattgtcagattg	8	6	1	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:27879955A>T	uc011dkw.1	-	1	143	c.143T>A	c.(142-144)GTG>GAG	p.V48E		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	48	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CACATGTGACACAAGAATTAT	0.388													14	47	---	---	---	---	PASS	T	27879955	T	T	27879955	3	4	66	1	0	0	0	0	1	0	0	0	10989	159	6	5	934	5	OR2B2	6	27879955	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	1662393	27879955	143235112	265	25970										
OR2B6	26212	broad.mit.edu	37	chr6	27925692	27925692	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgcttttattgtccgagcagTattgaggatacagtctgctg	11	7	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:27925692T>C	uc011dkx.1	+	1	674	c.674T>C	c.(673-675)GTA>GCA	p.V225A		NM_012367	NP_036499	P58173	OR2B6_HUMAN	olfactory receptor, family 2, subfamily B,	225	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GTCCGAGCAGTATTGAGGATA	0.423													36	133	---	---	---	---	PASS	C	27925692	C	C	27925692	3	2	66	1	0	0	0	0	1	0	0	0	10991	1638	57	5	676	5	OR2B6	6	27925692	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	45737	27925692	143189375	266	25971										
ZNF323	64288	broad.mit.edu	37	chr6	28294095	28294095	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	attctgaatgaaggctttgcCacactcacgacactgatagc	8	11	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:28294095C>A	uc003nla.2	-	4	1469	c.1069G>T	c.(1069-1071)GGC>TGC	p.G357C	ZNF323_uc003nld.2_Missense_Mutation_p.G357C|ZNF323_uc010jra.2_Missense_Mutation_p.G357C|ZNF323_uc003nlb.2_Missense_Mutation_p.G198C|ZNF323_uc010jrb.2_Missense_Mutation_p.G198C|ZNF323_uc003nlc.2_Missense_Mutation_p.G357C	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	357	C2H2-type 5.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						AAGGCTTTGCCACACTCACGA	0.488													49	172	---	---	---	---	PASS	A	28294095	A	A	28294095	3	1	66	1	0	0	0	0	1	0	0	0	17840	594	21	3	155	3	ZNF323	6	28294095	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	368403	28294095	142820972	267	25972										
BAT2	7916	broad.mit.edu	37	chr6	31598561	31598561	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgcgccaggctgcggatgaGgatgacaaggggatgaggtg	19	7	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:31598561G>A	uc003nvb.3	+	15	2697	c.2448G>A	c.(2446-2448)GAG>GAA	p.E816E	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Silent_p.E816E	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	816	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						CTGCGGATGAGGATGACAAGG	0.562													23	19	---	---	---	---	PASS	A	31598561	A	A	31598561	2	1	66	1	0	0	0	0	0	0	0	1	1319	991	35	3		3	BAT2	6	31598561	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	3304466	31598561	139516506	268	25973										
C6orf25	80739	broad.mit.edu	37	chr6	31692838	31692838	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgatgcctccaccatctatgCagttgtagtttgaagggaag	11	8	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:31692838C>T	uc011doc.1	+	6	713	c.713C>T	c.(712-714)GCA>GTA	p.A238V	C6orf25_uc003nwk.2_3'UTR|C6orf25_uc011dod.1_Missense_Mutation_p.A194V|C6orf25_uc011doe.1_Missense_Mutation_p.A214V|C6orf25_uc003nwo.2_3'UTR|C6orf25_uc003nwn.2_3'UTR	NM_138272	NP_612116	O95866	G6B_HUMAN	G6B protein isoform G6b-B precursor	238	Cytoplasmic (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	heparin binding|receptor activity				0						ACCATCTATGCAGTTGTAGTT	0.592													25	35	---	---	---	---	PASS	T	31692838	T	T	31692838	3	4	66	1	0	0	0	0	1	0	0	0	2360	710	25	3	783	3	C6orf25	6	31692838	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	94277	31692838	139422229	269	25974										
DAXX	1616	broad.mit.edu	37	chr6	33288803	33288803	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgcgctgctctatgacacggCcggtcagtgaagagcagtct	13	11	3	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:33288803C>T	uc003oec.2	-	3	953	c.749G>A	c.(748-750)GGC>GAC	p.G250D	DAXX_uc011drd.1_Missense_Mutation_p.G175D|DAXX_uc011dre.1_Missense_Mutation_p.G262D|DAXX_uc003oed.2_Missense_Mutation_p.G250D|DAXX_uc010juw.2_Missense_Mutation_p.G175D	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	250					activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						TATGACACGGCCGGTCAGTGA	0.587			Mis|F|N		Pancreatic neuroendocrine tumors								47	53	---	---	---	---	PASS	T	33288803	T	T	33288803	3	4	66	1	0	0	0	0	1	0	0	0	4243	739	26	3	1497	3	DAXX	6	33288803	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1595965	33288803	137826264	270	25975										
GRM4	2914	broad.mit.edu	37	chr6	34008008	34008008	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaccttgtactcggcagaatCgttgcgcagctggtattggt	13	9	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:34008008C>T	uc003oir.3	-	7	1623	c.1453G>A	c.(1453-1455)GAT>AAT	p.D485N	GRM4_uc011dsn.1_Missense_Mutation_p.D438N|GRM4_uc010jvh.2_Missense_Mutation_p.D485N|GRM4_uc010jvi.2_Missense_Mutation_p.D177N|GRM4_uc003oio.2_Missense_Mutation_p.D177N|GRM4_uc003oip.2_RNA|GRM4_uc011dsl.1_Missense_Mutation_p.D345N|GRM4_uc003oiq.2_Missense_Mutation_p.D352N|GRM4_uc011dsm.1_Missense_Mutation_p.D316N	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	485	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	TCGGCAGAATCGTTGCGCAGC	0.577													43	134	---	---	---	---	PASS	T	34008008	T	T	34008008	3	4	66	1	0	0	0	0	1	0	0	0	6799	884	31	2	1301	2	GRM4	6	34008008	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	719205	34008008	137107059	271	25976										
PKHD1	5314	broad.mit.edu	37	chr6	51611545	51611545	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtaatgaaggaaagtagaaCttgtttttatcttttatctt	7	3	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:51611545C>A	uc003pah.1	-	59	10248	c.9972G>T	c.(9970-9972)AAG>AAT	p.K3324N	PKHD1_uc010jzn.1_Missense_Mutation_p.K1307N|PKHD1_uc003pai.2_Missense_Mutation_p.K3324N	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3324	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GAAAGTAGAACTTGTTTTTAT	0.343													8	60	---	---	---	---	PASS	A	51611545	A	A	51611545	3	1	66	1	0	0	0	0	1	0	0	0	11971	564	20	3	2327	3	PKHD1	6	51611545	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	17603537	51611545	119503522	272	25977										
IL17F	112744	broad.mit.edu	37	chr6	52103568	52103568	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggagcggctctcgatgttacGtgacatggaaacgcgctggt	15	9	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:52103568G>A	uc003pam.1	-	2	285	c.214C>T	c.(214-216)CGT>TGT	p.R72C	IL17F_uc003pal.1_Missense_Mutation_p.R18C	NM_052872	NP_443104	Q96PD4	IL17F_HUMAN	interleukin 17F precursor	72					cartilage development|inflammatory response|lymphotoxin A biosynthetic process|negative regulation of angiogenesis|proteoglycan metabolic process|regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|regulation of interleukin-2 biosynthetic process|regulation of interleukin-6 biosynthetic process|regulation of interleukin-8 biosynthetic process|regulation of transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|cytokine binding|protein homodimerization activity			ovary(1)	1	Lung NSC(77;0.116)					TCGATGTTACGTGACATGGAA	0.433													33	46	---	---	---	---	PASS	A	52103568	A	A	52103568	3	1	66	1	0	0	0	0	1	0	0	0	7638	1145	40	1	285	1	IL17F	6	52103568	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	492023	52103568	119011499	273	25978										
LRRC1	55227	broad.mit.edu	37	chr6	53778682	53778682	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gctgcagcctcactgtgttcTgtgtacgtgacaacagacta	10	11	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:53778682T>C	uc003pcd.1	+	11	1298	c.1021T>C	c.(1021-1023)TGT>CGT	p.C341R		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	341	LRR 15.					cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		CACTGTGTTCTGTGTACGTGA	0.483													29	68	---	---	---	---	PASS	C	53778682	C	C	53778682	3	2	66	1	0	0	0	0	1	0	0	0	8966	1580	55	5	1063	5	LRRC1	6	53778682	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	1675114	53778682	117336385	274	25979										
HCRTR2	3062	broad.mit.edu	37	chr6	55128572	55128572	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tacatggcaccactgtgtctCatggtgttggcttatctgca	10	10	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:55128572C>G	uc003pcl.2	+	4	1029	c.714C>G	c.(712-714)CTC>CTG	p.L238L	HCRTR2_uc010jzv.2_RNA|HCRTR2_uc010jzw.1_Silent_p.L173L	NM_001526	NP_001517	O43614	OX2R_HUMAN	orexin receptor 2	238	Helical; Name=5; (Potential).				feeding behavior	integral to plasma membrane	neuropeptide receptor activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|breast(1)	6	Lung NSC(77;0.107)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			CACTGTGTCTCATGGTGTTGG	0.383													10	45	---	---	---	---	PASS	G	55128572	G	G	55128572	2	3	66	1	0	0	0	0	0	0	0	1	7002	813	29	2		2	HCRTR2	6	55128572	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	1349890	55128572	115986495	275	25980										
GFRAL	389400	broad.mit.edu	37	chr6	55196607	55196607	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgtgatgcaaatggatgtaaAcatgcttggagagtaatgga	13	4	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:55196607A>T	uc003pcm.1	+	2	203	c.117A>T	c.(115-117)AAA>AAT	p.K39N		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	39	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			ATGGATGTAAACATGCTTGGA	0.338													14	24	---	---	---	---	PASS	T	55196607	T	T	55196607	3	4	66	1	0	0	0	0	1	0	0	0	6351	40	2	5	123	5	GFRAL	6	55196607	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	68035	55196607	115918460	276	25981										
BAI3	577	broad.mit.edu	37	chr6	69703760	69703760	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aactcagagaaaaaatttctAtgcaggcgatcttctgatgt	8	7	4	2	rs142372047		TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:69703760A>C	uc003pev.3	+	11	2283	c.1835A>C	c.(1834-1836)TAT>TCT	p.Y612S	BAI3_uc010kak.2_Missense_Mutation_p.Y612S	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	612	Extracellular (Potential).				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)				AAAAATTTCTATGCAGGCGAT	0.458													103	48	---	---	---	---	PASS	C	69703760	C	C	69703760	3	2	66	1	0	0	0	0	1	0	0	0	1300	449	16	5	1869	5	BAI3	6	69703760	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	14507153	69703760	101411307	277	25982										
COL19A1	1310	broad.mit.edu	37	chr6	70610162	70610162	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggagacagcttttctctaagAcgtgcattttgtgaaagtga	11	6	1	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:70610162A>G	uc003pfc.1	+	4	315	c.198A>G	c.(196-198)AGA>AGG	p.R66R		NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	66	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TTTCTCTAAGACGTGCATTTT	0.269													10	50	---	---	---	---	PASS	G	70610162	G	G	70610162	2	3	66	1	0	0	0	0	0	0	0	1	3676	272	10	5		5	COL19A1	6	70610162	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	906402	70610162	100504905	278	25983										
COL19A1	1310	broad.mit.edu	37	chr6	70778330	70778330	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	catagggttccctggggataCaaggcccccaaggtccacct	11	14	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:70778330C>T	uc003pfc.1	+	15	1303	c.1186C>T	c.(1186-1188)CAA>TAA	p.Q396*	COL19A1_uc010kam.1_Nonsense_Mutation_p.Q292*	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	396	Triple-helical region 2 (COL2).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CCTGGGGATACAAGGCCCCCA	0.423													12	59	---	---	---	---	PASS	T	70778330	T	T	70778330	4	4	66	1	0	0	0	0	0	1	0	0	3676	479	17	3	1240	3	COL19A1	6	70778330	Nonsense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	168168	70778330	100336737	279	25984										
COL9A1	1297	broad.mit.edu	37	chr6	70978539	70978539	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	taggcctggatatcctgagcGacctggtggacaggcattgg	15	9	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:70978539G>C	uc003pfg.3	-	17	1414	c.1255C>G	c.(1255-1257)CGC>GGC	p.R419G	COL9A1_uc003pfe.3_5'UTR|COL9A1_uc003pff.3_Missense_Mutation_p.R176G	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	419	Triple-helical region (COL2).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						TATCCTGAGCGACCTGGTGGA	0.458													9	66	---	---	---	---	PASS	C	70978539	C	C	70978539	3	2	66	1	0	0	0	0	1	0	0	0	3707	1058	37	2	1598	2	COL9A1	6	70978539	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	200209	70978539	100136528	280	25985										
AKD1	221264	broad.mit.edu	37	chr6	109854575	109854575	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaatatcttgatcatcaactTgtataaaaacagctgcatct	4	8	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:109854575T>A	uc003ptn.2	-	28	3526	c.3449A>T	c.(3448-3450)CAA>CTA	p.Q1150L	AKD1_uc011eat.1_Missense_Mutation_p.Q229L	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1150					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						ATCATCAACTTGTATAAAAAC	0.373													45	20	---	---	---	---	PASS	A	109854575	A	A	109854575	3	1	66	1	0	0	0	0	1	0	0	0	460	1812	63	5	2342	5	AKD1	6	109854575	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	38876036	109854575	61260492	281	25986										
KIAA1919	91749	broad.mit.edu	37	chr6	111583574	111583574	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtgccttgggatatttgagtGgctctgtgattggtggattt	15	4	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:111583574G>T	uc003puv.3	+	2	564	c.142G>T	c.(142-144)GGC>TGC	p.G48C		NM_153369	NP_699200	Q5TF39	NAGT1_HUMAN	sodium-dependent glucose transporter 1	48	Helical; (Potential).				carbohydrate transport|sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(3)	3		all_cancers(87;2.35e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.055)|all cancers(137;0.0871)|Epithelial(106;0.0884)		ATATTTGAGTGGCTCTGTGAT	0.373													113	51	---	---	---	---	PASS	T	111583574	T	T	111583574	3	4	66	1	0	0	0	0	1	0	0	0	8262	1348	47	3	148	3	KIAA1919	6	111583574	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1728999	111583574	59531493	282	25987										
C6orf97	80129	broad.mit.edu	37	chr6	151859392	151859392	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cacgctgcaatcaaggagaaCcaggaattaaagaagaaagt	10	7	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:151859392C>A	uc003qol.2	+	3	488	c.399C>A	c.(397-399)AAC>AAA	p.N133K		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	133	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		TCAAGGAGAACCAGGAATTAA	0.358													28	9	---	---	---	---	PASS	A	151859392	A	A	151859392	3	1	66	1	0	0	0	0	1	0	0	0	2374	506	18	3	409	3	C6orf97	6	151859392	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	40275818	151859392	19255675	283	25988										
SYNE1	23345	broad.mit.edu	37	chr6	152706908	152706908	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaatggagccaatctgtgaaCtcgtggaccgcatctaaata	10	9	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:152706908C>G	uc010kiw.2	-	55	9155	c.8553G>C	c.(8551-8553)GAG>GAC	p.E2851D	SYNE1_uc003qot.3_Missense_Mutation_p.E2858D|SYNE1_uc003qou.3_Missense_Mutation_p.E2851D|SYNE1_uc010kjb.1_Missense_Mutation_p.E2834D	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2851	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)		AATCTGTGAACTCGTGGACCG	0.393										HNSCC(10;0.0054)			69	53	---	---	---	---	PASS	G	152706908	G	G	152706908	3	3	66	1	0	0	0	0	1	0	0	0	15442	564	20	4	18281	4	SYNE1	6	152706908	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	847516	152706908	18408159	284	25989										
SLC22A1	6580	broad.mit.edu	37	chr6	160551239	160551239	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgttggctactttgcagacaGgtatgtaaaggccagtccag	12	8	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr6:160551239G>T	uc003qtc.2	+	2	620	c.515G>T	c.(514-516)AGG>ATG	p.R172M	SLC22A1_uc003qtd.2_Missense_Mutation_p.R172M	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	172	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		TTTGCAGACAGGTATGTAAAG	0.353													74	30	---	---	---	---	PASS	T	160551239	T	T	160551239	3	4	66	1	0	0	0	0	1	0	0	0	14440	1014	35	3	521	3	SLC22A1	6	160551239	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	7844331	160551239	10563828	285	25990										
ADAP1	11033	broad.mit.edu	37	chr7	943784	943784	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttcccgtcctcatggtagatGaagatgttacgggtgctgtt	12	8	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:943784G>A	uc003sjo.3	-	6	803	c.627C>T	c.(625-627)TTC>TTT	p.F209F	ADAP1_uc003sjm.3_Silent_p.F35F|ADAP1_uc011jvs.1_Silent_p.F114F|ADAP1_uc003sjn.3_Silent_p.F137F|ADAP1_uc010ksc.2_Silent_p.F137F	NM_006869	NP_006860	O75689	ADAP1_HUMAN	centaurin, alpha 1	209	PH 1.				cell surface receptor linked signaling pathway|regulation of ARF GTPase activity	cytoplasm|nucleus|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|protein binding|zinc ion binding			upper_aerodigestive_tract(1)	1						CATGGTAGATGAAGATGTTAC	0.662													92	16	---	---	---	---	PASS	A	943784	A	A	943784	2	1	66	1	0	0	0	0	0	0	0	1	279	1281	45	2		2	ADAP1	7	943784	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08		943784	158194879	286	25991										
SCIN	85477	broad.mit.edu	37	chr7	12684270	12684270	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acctcaccactactggaaacCcaggctgaagaccatccacc	6	17	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:12684270C>G	uc003ssn.3	+	13	2031	c.1821C>G	c.(1819-1821)ACC>ACG	p.T607T	SCIN_uc010ktt.2_RNA|SCIN_uc003sso.3_Silent_p.T360T	NM_001112706	NP_001106177	Q9Y6U3	ADSV_HUMAN	scinderin isoform 1	607	Ca(2+)-dependent actin binding.				actin filament capping|actin filament severing|actin nucleation|calcium ion-dependent exocytosis|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of megakaryocyte differentiation|positive regulation of secretion|regulation of chondrocyte differentiation	cell cortex|cytoskeleton	1-phosphatidylinositol binding|actin filament binding|calcium ion binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		TACTGGAAACCCAGGCTGAAG	0.428													28	5	---	---	---	---	PASS	G	12684270	G	G	12684270	2	3	66	1	0	0	0	0	0	0	0	1	13905	610	22	4		4	SCIN	7	12684270	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	11740486	12684270	146454393	287	25992										
PRPS1L1	221823	broad.mit.edu	37	chr7	18067020	18067020	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctgaatttgagaagcatgtAggtccatggtgatgatatga	12	5	0	5			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:18067020A>G	uc003stz.2	-	1	467	c.386T>C	c.(385-387)CTA>CCA	p.L129P		NM_175886	NP_787082	P21108	PRPS3_HUMAN	phosphoribosyl pyrophosphate synthetase 1-like	129					nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			ovary(1)	1	Lung NSC(10;0.0385)|all_lung(11;0.0736)					AGAAGCATGTAGGTCCATGGT	0.463													86	101	---	---	---	---	PASS	G	18067020	G	G	18067020	3	3	66	1	0	0	0	0	1	0	0	0	12579	420	15	5	574	5	PRPS1L1	7	18067020	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	5382750	18067020	141071643	288	25993										
FERD3L	222894	broad.mit.edu	37	chr7	19184887	19184887	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cccaaggagaccccgggtgcGaagtcgcagaggagagggcg	18	11	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:19184887G>A	uc003suo.1	-	1	158	c.99C>T	c.(97-99)TTC>TTT	p.F33F	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	33					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						CCCCGGGTGCGAAGTCGCAGA	0.582													97	16	---	---	---	---	PASS	A	19184887	A	A	19184887	2	1	66	1	0	0	0	0	0	0	0	1	5816	1049	37	2		2	FERD3L	7	19184887	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	1117867	19184887	139953776	289	25994										
DNAH11	8701	broad.mit.edu	37	chr7	21784505	21784505	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagggtatagatagtcacatGctgcttcaacagcccctcat	8	12	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:21784505G>A	uc003svc.2	+	52	8386	c.8355G>A	c.(8353-8355)ATG>ATA	p.M2785I		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2785					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						ATAGTCACATGCTGCTTCAAC	0.478									Kartagener_syndrome				24	6	---	---	---	---	PASS	A	21784505	A	A	21784505	3	1	66	1	0	0	0	0	1	0	0	0	4599	1319	46	3	8558	3	DNAH11	7	21784505	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2599618	21784505	137354158	290	25995										
NOD1	10392	broad.mit.edu	37	chr7	30492415	30492415	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtagcagcatggacttgccCaccccagcatcacccaggat	9	15	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:30492415C>T	uc003tav.2	-	6	1141	c.618G>A	c.(616-618)GTG>GTA	p.V206V	NOD1_uc010kvs.2_Intron	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	206	NACHT.|ATP (Potential).				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						TGGACTTGCCCACCCCAGCAT	0.622													49	101	---	---	---	---	PASS	T	30492415	T	T	30492415	2	4	66	1	0	0	0	0	0	0	0	1	10516	581	21	3		3	NOD1	7	30492415	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	8707910	30492415	128646248	291	25996										
DPY19L1	23333	broad.mit.edu	37	chr7	35051053	35051053	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ataaatccggtaccaactggCcaaaattacctattttaaaa	4	9	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:35051053C>A	uc003tem.3	-	5	485	c.340G>T	c.(340-342)GCC>TCC	p.A114S		NM_015283	NP_056098	Q2PZI1	D19L1_HUMAN	dpy-19-like 1	114						integral to membrane					0						TACCAACTGGCCAAAATTACC	0.323													25	32	---	---	---	---	PASS	A	35051053	A	A	35051053	3	1	66	1	0	0	0	0	1	0	0	0	4740	739	26	3	1759	3	DPY19L1	7	35051053	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4558638	35051053	124087610	292	25997										
WBSCR22	114049	broad.mit.edu	37	chr7	73105283	73105283	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggctctgtaatgctaacaagAagtctgaaaaccctgccaag	9	10	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:73105283A>T	uc003tyt.2	+	6	458	c.400A>T	c.(400-402)AAG>TAG	p.K134*	WBSCR22_uc010lbi.1_Intron|WBSCR22_uc003tyu.2_Nonsense_Mutation_p.K134*|WBSCR22_uc003tyv.2_Nonsense_Mutation_p.K96*|WBSCR22_uc003tyw.1_Intron	NM_017528	NP_059998	O43709	WBS22_HUMAN	Williams Beuren syndrome chromosome region 22	134						nucleus	methyltransferase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				TGCTAACAAGAAGTCTGAAAA	0.478													66	125	---	---	---	---	PASS	T	73105283	T	T	73105283	4	4	66	1	0	0	0	0	0	1	0	0	17262	247	9	5	422	5	WBSCR22	7	73105283	Nonsense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	38054230	73105283	86033380	293	25998										
CLIP2	7461	broad.mit.edu	37	chr7	73790773	73790773	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaccgccatgcacgtgaaggAgaaggaggccctgcgagaga	16	10	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:73790773A>G	uc003uam.2	+	10	2369	c.2042A>G	c.(2041-2043)GAG>GGG	p.E681G	CLIP2_uc003uan.2_Missense_Mutation_p.E646G|CLIP2_uc003uao.2_Missense_Mutation_p.E75G	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	681	Potential.					microtubule associated complex				skin(3)	3						CACGTGAAGGAGAAGGAGGCC	0.647													32	33	---	---	---	---	PASS	G	73790773	G	G	73790773	3	3	66	1	0	0	0	0	1	0	0	0	3533	304	11	5	2076	5	CLIP2	7	73790773	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	685490	73790773	85347890	294	25999										
GNAI1	2770	broad.mit.edu	37	chr7	79846737	79846737	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtgccacagatactaagaaTgtgcagtttgtttttgatgc	10	6	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:79846737T>A	uc003uhb.1	+	8	1330	c.993T>A	c.(991-993)AAT>AAA	p.N331K	GNAI1_uc011kgt.1_Missense_Mutation_p.N279K	NM_002069	NP_002060	P63096	GNAI1_HUMAN	guanine nucleotide binding protein (G protein),	331					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody|nucleus	G-protein beta/gamma-subunit complex binding|GTP binding|metabotropic serotonin receptor binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						ATACTAAGAATGTGCAGTTTG	0.338													31	39	---	---	---	---	PASS	A	79846737	A	A	79846737	3	1	66	1	0	0	0	0	1	0	0	0	6504	1461	51	5	1023	5	GNAI1	7	79846737	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	6055964	79846737	79291926	295	26000										
SEMA3E	9723	broad.mit.edu	37	chr7	83029392	83029392	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccatcctcagcttccactcGatctactgctatttgtttca	5	14	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:83029392G>T	uc003uhy.1	-	11	1784	c.1318C>A	c.(1318-1320)CGA>AGA	p.R440R		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	440	Sema.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				GCTTCCACTCGATCTACTGCT	0.368													61	144	---	---	---	---	PASS	T	83029392	T	T	83029392	2	4	66	1	0	0	0	0	0	0	0	1	14028	1066	37	2		2	SEMA3E	7	83029392	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	3182655	83029392	76109271	296	26001										
DBF4	10926	broad.mit.edu	37	chr7	87537254	87537254	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgaatttgataaaagaactGaatttattacacaagaagaa	6	4	0	6			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:87537254G>C	uc003ujf.1	+	12	2305	c.1801G>C	c.(1801-1803)GAA>CAA	p.E601Q	DBF4_uc003ujh.1_Missense_Mutation_p.E341Q|DBF4_uc003ujg.1_Missense_Mutation_p.E377Q|DBF4_uc011khf.1_Missense_Mutation_p.E368Q	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	601					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				TAAAAGAACTGAATTTATTAC	0.303													34	68	---	---	---	---	PASS	C	87537254	C	C	87537254	3	2	66	1	0	0	0	0	1	0	0	0	4248	1291	45	2	1847	2	DBF4	7	87537254	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4507862	87537254	71601409	297	26002										
STEAP1	26872	broad.mit.edu	37	chr7	89791272	89791272	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tggattgagcatgatgtttgGagaatggagatttatgtgtc	14	2	0	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:89791272G>A	uc003ujx.2	+	4	842	c.642G>A	c.(640-642)TGG>TGA	p.W214*	STEAP1_uc010lem.2_Nonsense_Mutation_p.W214*	NM_012449	NP_036581	Q9UHE8	STEA1_HUMAN	six transmembrane epithelial antigen of the	214	Ferric oxidoreductase.				electron transport chain|ion transport|iron ion homeostasis	cell-cell junction|endosome membrane|integral to plasma membrane	channel activity|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	all_hematologic(106;0.112)					ATGATGTTTGGAGAATGGAGA	0.398													43	80	---	---	---	---	PASS	A	89791272	A	A	89791272	4	1	66	1	0	0	0	0	0	1	0	0	15276	1183	41	2	652	2	STEAP1	7	89791272	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2254018	89791272	69347391	298	26003										
SAMD9L	219285	broad.mit.edu	37	chr7	92763529	92763529	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atctttccatcgttgataaaTatgtgagtttacagagatac	7	6	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:92763529T>C	uc003umh.1	-	5	2972	c.1756A>G	c.(1756-1758)ATT>GTT	p.I586V	SAMD9L_uc003umj.1_Missense_Mutation_p.I586V|SAMD9L_uc003umi.1_Missense_Mutation_p.I586V|SAMD9L_uc010lfb.1_Missense_Mutation_p.I586V|SAMD9L_uc003umk.1_Missense_Mutation_p.I586V|SAMD9L_uc010lfc.1_Missense_Mutation_p.I586V|SAMD9L_uc010lfd.1_Missense_Mutation_p.I586V|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	586										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			CGTTGATAAATATGTGAGTTT	0.358													61	89	---	---	---	---	PASS	C	92763529	C	C	92763529	3	2	66	1	0	0	0	0	1	0	0	0	13827	1406	49	5	3002	5	SAMD9L	7	92763529	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	2972257	92763529	66375134	299	26004										
CALCR	799	broad.mit.edu	37	chr7	93073056	93073056	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	actggtggaaaaaatgcaaaAtcttgcagctcacctgtcag	9	9	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:93073056A>G	uc003umv.1	-	10	1025	c.764T>C	c.(763-765)ATT>ACT	p.I255T	CALCR_uc011kia.1_Missense_Mutation_p.I35T|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.I221T|CALCR_uc003umw.2_Missense_Mutation_p.I221T	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	237	Helical; Name=3; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	AAAATGCAAAATCTTGCAGCT	0.433													39	58	---	---	---	---	PASS	G	93073056	G	G	93073056	3	3	66	1	0	0	0	0	1	0	0	0	2579	101	4	5	786	5	CALCR	7	93073056	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	309527	93073056	66065607	300	26005										
CALCR	799	broad.mit.edu	37	chr7	93106913	93106913	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	taatctgggcagaactgataGgacaatactccagccggtgt	11	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:93106913G>T	uc003umv.1	-	5	588	c.327C>A	c.(325-327)TCC>TCA	p.S109S	CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Silent_p.S91S|CALCR_uc003umw.2_Silent_p.S91S	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	91	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	AGAACTGATAGGACAATACTC	0.423													18	38	---	---	---	---	PASS	T	93106913	T	T	93106913	2	4	66	1	0	0	0	0	0	0	0	1	2579	987	35	3		3	CALCR	7	93106913	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	33857	93106913	66031750	301	26006										
SLC25A13	10165	broad.mit.edu	37	chr7	95750514	95750514	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgatcttcctatgggcctcCaccaatagcctttgaggtag	9	12	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:95750514C>A	uc003uof.3	-	18	2208	c.2017G>T	c.(2017-2019)GGA>TGA	p.G673*	SLC25A13_uc003uog.3_Nonsense_Mutation_p.G674*|SLC25A13_uc011kik.1_Nonsense_Mutation_p.G565*	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	673					ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	TATGGGCCTCCACCAATAGCC	0.453													52	85	---	---	---	---	PASS	A	95750514	A	A	95750514	4	1	66	1	0	0	0	0	0	1	0	0	14475	603	21	3	14	3	SLC25A13	7	95750514	Nonsense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2643601	95750514	63388149	302	26007										
TECPR1	25851	broad.mit.edu	37	chr7	97860328	97860328	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caggtctgggctgggctcgcTcacgaagatgtcccccttgc	13	14	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:97860328T>C	uc003upg.2	-	15	2432	c.2227A>G	c.(2227-2229)AGC>GGC	p.S743G	TECPR1_uc003uph.1_Missense_Mutation_p.S673G	NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	743	TECPR 5.					integral to membrane	protein binding			pancreas(1)	1						CTGGGCTCGCTCACGAAGATG	0.697													21	41	---	---	---	---	PASS	C	97860328	C	C	97860328	3	2	66	1	0	0	0	0	1	0	0	0	15740	1551	54	5	1318	5	TECPR1	7	97860328	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	2109814	97860328	61278335	303	26008										
TRIM4	89122	broad.mit.edu	37	chr7	99489826	99489826	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtggaatgactaaagatgctAatggactcaaccaaaaaaat	8	6	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:99489826A>T	uc003usd.2	-	7	1593	c.1463T>A	c.(1462-1464)TTA>TAA	p.L488*	TRIM4_uc003use.2_Nonsense_Mutation_p.L462*|TRIM4_uc011kjc.1_Nonsense_Mutation_p.L318*	NM_033017	NP_148977	Q9C037	TRIM4_HUMAN	tripartite motif protein TRIM4 isoform alpha	488	B30.2/SPRY.				protein trimerization	cytoplasm|plasma membrane	zinc ion binding			ovary(1)|kidney(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)	Ovarian(593;0.238)				TAAAGATGCTAATGGACTCAA	0.502													32	48	---	---	---	---	PASS	T	99489826	T	T	99489826	4	4	66	1	0	0	0	0	0	1	0	0	16511	372	13	5	43	5	TRIM4	7	99489826	Nonsense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	1629498	99489826	59648837	304	26009										
ZAN	7455	broad.mit.edu	37	chr7	100389666	100389666	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caagtgtccgaatgtagcccGgagcagctggcgagcaacag	14	11	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:100389666G>A	uc003uwj.2	+	42	7773	c.7608G>A	c.(7606-7608)CCG>CCA	p.P2536P	ZAN_uc003uwk.2_Silent_p.P2536P|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.R529Q	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2536	VWFD 4.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AATGTAGCCCGGAGCAGCTGG	0.682													29	32	---	---	---	---	PASS	A	100389666	A	A	100389666	2	1	66	1	0	0	0	0	0	0	0	1	17510	1103	39	1		1	ZAN	7	100389666	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	899840	100389666	58748997	305	26010										
MUC17	140453	broad.mit.edu	37	chr7	100679504	100679504	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cccctattgactccaaaactCaggtgaccgcttctactgaa	6	14	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:100679504C>G	uc003uxp.1	+	3	4860	c.4807C>G	c.(4807-4809)CAG>GAG	p.Q1603E	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1603	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|25.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CTCCAAAACTCAGGTGACCGC	0.468													126	200	---	---	---	---	PASS	G	100679504	G	G	100679504	3	3	66	1	0	0	0	0	1	0	0	0	9974	827	29	2	4817	2	MUC17	7	100679504	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	289838	100679504	58459159	306	26011										
AP1S1	1174	broad.mit.edu	37	chr7	100800704	100800704	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccatcgagggccaagacaatGagctcatcacactggagctg	11	12	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:100800704G>C	uc003uxv.3	+	3	339	c.229G>C	c.(229-231)GAG>CAG	p.E77Q		NM_001283	NP_001274	P61966	AP1S1_HUMAN	adaptor-related protein complex 1, sigma 1	77					intracellular protein transport|post-Golgi vesicle-mediated transport|receptor-mediated endocytosis|regulation of defense response to virus by virus|response to virus|viral reproduction	AP-1 adaptor complex|coated pit|cytosol|lysosomal membrane	protein binding|protein transporter activity				0	Lung NSC(181;0.168)|all_lung(186;0.215)					CCAAGACAATGAGCTCATCAC	0.537													6	12	---	---	---	---	PASS	C	100800704	C	C	100800704	3	2	66	1	0	0	0	0	1	0	0	0	736	1291	45	2	239	2	AP1S1	7	100800704	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	121200	100800704	58337959	307	26012										
PIK3CG	5294	broad.mit.edu	37	chr7	106508547	106508547	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agttcacgcgccgtggcttgGtgaccccgcgcatggcggag	16	13	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:106508547G>T	uc003vdv.3	+	2	626	c.541G>T	c.(541-543)GTG>TTG	p.V181L	PIK3CG_uc003vdu.2_Missense_Mutation_p.V181L|PIK3CG_uc003vdw.2_Missense_Mutation_p.V181L	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	181					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						CCGTGGCTTGGTGACCCCGCG	0.652													32	52	---	---	---	---	PASS	T	106508547	T	T	106508547	3	4	66	1	0	0	0	0	1	0	0	0	11916	1261	44	3	543	3	PIK3CG	7	106508547	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	5707843	106508547	52630116	308	26013										
GPR37	2861	broad.mit.edu	37	chr7	124386619	124386619	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aagcaaaagtggacatttcaCggcgtatggtactgaaaggc	12	7	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:124386619C>G	uc003vli.2	-	2	2453	c.1802G>C	c.(1801-1803)CGT>CCT	p.R601P		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	601	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						GGACATTTCACGGCGTATGGT	0.438													91	120	---	---	---	---	PASS	G	124386619	G	G	124386619	3	3	66	1	0	0	0	0	1	0	0	0	6691	536	19	4	43	4	GPR37	7	124386619	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	17878072	124386619	34752044	309	26014										
FSCN3	29999	broad.mit.edu	37	chr7	127240279	127240279	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tccttctggtcaataacatcCtttggcacctttcgcccttg	6	14	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:127240279C>T	uc003vmd.1	+	6	1542	c.1323C>T	c.(1321-1323)TCC>TCT	p.S441S	FSCN3_uc011koh.1_Missense_Mutation_p.L306F|FSCN3_uc010llc.1_Missense_Mutation_p.L440F	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	441						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						CAATAACATCCTTTGGCACCT	0.557													36	59	---	---	---	---	PASS	T	127240279	T	T	127240279	2	4	66	1	0	0	0	0	0	0	0	1	6069	668	24	3		3	FSCN3	7	127240279	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	2853660	127240279	31898384	310	26015										
FLNC	2318	broad.mit.edu	37	chr7	128496854	128496854	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggcgtccactccatcgatgtCaagttcaacggtgcccacat	9	14	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:128496854C>A	uc003vnz.3	+	45	7649	c.7440C>A	c.(7438-7440)GTC>GTA	p.V2480V	FLNC_uc003voa.3_Silent_p.V2447V	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2480	Filamin 22.|Interaction with INPPL1.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CCATCGATGTCAAGTTCAACG	0.597													30	53	---	---	---	---	PASS	A	128496854	A	A	128496854	2	1	66	1	0	0	0	0	0	0	0	1	5935	813	29	2		2	FLNC	7	128496854	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	1256575	128496854	30641809	311	26016										
PLXNA4	91584	broad.mit.edu	37	chr7	131895861	131895861	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ataggcttgatcacctccacGggcaccaggatcttgtccac	9	14	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:131895861G>C	uc003vra.3	-	10	2368	c.2139C>G	c.(2137-2139)CCC>CCG	p.P713P		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	713	Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TCACCTCCACGGGCACCAGGA	0.617													5	8	---	---	---	---	PASS	C	131895861	C	C	131895861	2	2	66	1	0	0	0	0	0	0	0	1	12122	1103	39	4		4	PLXNA4	7	131895861	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	3399007	131895861	27242802	312	26017										
DGKI	9162	broad.mit.edu	37	chr7	137076045	137076045	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggtaagcagccaagtctgggTccccagcctgctgtgctctt	12	13	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:137076045T>G	uc003vtt.2	-	34	3120	c.3119A>C	c.(3118-3120)GAC>GCC	p.D1040A	DGKI_uc003vtu.2_Missense_Mutation_p.D709A	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	1040					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						CAAGTCTGGGTCCCCAGCCTG	0.473													22	117	---	---	---	---	PASS	G	137076045	G	G	137076045	3	3	66	1	0	0	0	0	1	0	0	0	4471	1667	58	5	82	5	DGKI	7	137076045	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	5180184	137076045	22062618	313	26018										
KIAA1549	57670	broad.mit.edu	37	chr7	138554322	138554322	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aacacggagggcacgctggcCgtggggtccaggatcttgtc	16	11	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:138554322C>A	uc011kql.1	-	14	4786	c.4737G>T	c.(4735-4737)ACG>ACT	p.T1579T	KIAA1549_uc011kqi.1_Silent_p.T363T|KIAA1549_uc003vuk.3_Silent_p.T1529T|KIAA1549_uc011kqj.1_Silent_p.T1579T|KIAA1549_uc011kqk.1_Silent_p.T363T	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1579						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GCACGCTGGCCGTGGGGTCCA	0.677			O	BRAF	pilocytic astrocytoma								6	9	---	---	---	---	PASS	A	138554322	A	A	138554322	2	1	66	1	0	0	0	0	0	0	0	1	8244	639	23	1		1	KIAA1549	7	138554322	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	1478277	138554322	20584341	314	26019										
KIAA1549	57670	broad.mit.edu	37	chr7	138601769	138601769	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctctgtgggtgtgagtgatGggcccacgacggtcagctct	15	11	3	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:138601769G>A	uc011kql.1	-	2	2652	c.2603C>T	c.(2602-2604)CCA>CTA	p.P868L	KIAA1549_uc003vuk.3_Missense_Mutation_p.P818L|KIAA1549_uc011kqj.1_Missense_Mutation_p.P868L	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	868						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TGTGAGTGATGGGCCCACGAC	0.602			O	BRAF	pilocytic astrocytoma								7	25	---	---	---	---	PASS	A	138601769	A	A	138601769	3	1	66	1	0	0	0	0	1	0	0	0	8244	1348	47	3	3325	3	KIAA1549	7	138601769	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	47447	138601769	20536894	315	26020										
UBN2	254048	broad.mit.edu	37	chr7	138964076	138964076	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tatcttagggcaaagaaaaaGgtgattcctgcacctaaacc	8	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:138964076G>T	uc011kqr.1	+	13	2037	c.2037G>T	c.(2035-2037)AAG>AAT	p.K679N		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	679										ovary(1)|skin(1)	2						CAAAGAAAAAGGTGATTCCTG	0.284													36	79	---	---	---	---	PASS	T	138964076	T	T	138964076	3	4	66	1	0	0	0	0	1	0	0	0	16890	991	35	3	2087	3	UBN2	7	138964076	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	362307	138964076	20174587	316	26021										
BRAF	673	broad.mit.edu	37	chr7	140449220	140449220	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttctgatgacttctggtgccTgttagaacatacaaagaaaa	8	7	2	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:140449220T>C	uc003vwc.3	-	16	1922	c.1861_splice	c.e16-1	p.A621_splice		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf						activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TTCTGGTGCCTGTTAGAACAT	0.328		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				27	67	---	---	---	---	PASS	C	140449220	C	C	140449220	5	2	66	1	0	0	0	0	0	0	1	0	1496	1594	55	5	453	5	BRAF	7	140449220	Splice_Site	SNP	T	TCGA-34-5231-01A-21D-1817-08	1485144	140449220	18689443	317	26022										
TRPV6	55503	broad.mit.edu	37	chr7	142574226	142574226	+	Missense_Mutation	SNP	C	A	A													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctggtgattgggcacgaggtCcaggggctgcaggtggtccc							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:142574226C>A	uc003wbx.1	-	6	913	c.697G>T	c.(697-699)GAC>TAC	p.D233Y	TRPV6_uc003wbw.1_Missense_Mutation_p.D19Y|TRPV6_uc010lou.1_Missense_Mutation_p.D104Y	NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	233	Cytoplasmic (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					GGCACGAGGTCCAGGGGCTGC	0.567													44	58	---	---	---	---	PASS	A	142574226	A	A	142574226	3	1	66	1	0	0	0	0	1	0	0	0	16597	855	30	2	1520	2	TRPV6	7	142574226	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2125006	142574226	16564437	318	26023	545	2								
TRPV6	55503	broad.mit.edu	37	chr7	142574227	142574227	+	Silent	SNP	C	G	G													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tggtgattgggcacgaggtcCaggggctgcaggtggtcccc							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:142574227C>G	uc003wbx.1	-	6	912	c.696G>C	c.(694-696)CTG>CTC	p.L232L	TRPV6_uc003wbw.1_Silent_p.L18L|TRPV6_uc010lou.1_Silent_p.L103L	NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	232	Cytoplasmic (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					GCACGAGGTCCAGGGGCTGCA	0.567													45	58	---	---	---	---	PASS	G	142574227	G	G	142574227	2	3	66	1	0	0	0	0	0	0	0	1	16597	581	21	4		4	TRPV6	7	142574227	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	1	142574227	16564436	319	26024	545	2								
OR2A14	135941	broad.mit.edu	37	chr7	143826539	143826539	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttttgctcacgtagagtgtCtgattttggtggtgatgtcc	12	7	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:143826539C>T	uc011kua.1	+	1	334	c.334C>T	c.(334-336)CTG>TTG	p.L112L		NM_001001659	NP_001001659	Q96R47	O2A14_HUMAN	olfactory receptor, family 2, subfamily A,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					CGTAGAGTGTCTGATTTTGGT	0.463													110	144	---	---	---	---	PASS	T	143826539	T	T	143826539	2	4	66	1	0	0	0	0	0	0	0	1	10976	912	32	2		2	OR2A14	7	143826539	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	1252312	143826539	15312124	320	26025										
CNTNAP2	26047	broad.mit.edu	37	chr7	146805352	146805352	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	actttaagacgtctgaaagtGaaggagtaatcctgcacgga	11	7	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:146805352G>C	uc003weu.1	+	5	1180	c.664G>C	c.(664-666)GAA>CAA	p.E222Q		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	222	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GTCTGAAAGTGAAGGAGTAAT	0.398										HNSCC(39;0.1)			39	65	---	---	---	---	PASS	C	146805352	C	C	146805352	3	2	66	1	0	0	0	0	1	0	0	0	3647	1291	45	2	682	2	CNTNAP2	7	146805352	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2978813	146805352	12333311	321	26026										
CNTNAP2	26047	broad.mit.edu	37	chr7	147259265	147259265	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctgtgaagcctacaaacacCtaggacagacatcaaattat	6	11	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:147259265C>A	uc003weu.1	+	12	2329	c.1813C>A	c.(1813-1815)CTA>ATA	p.L605I		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	605	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CTACAAACACCTAGGACAGAC	0.438										HNSCC(39;0.1)			33	49	---	---	---	---	PASS	A	147259265	A	A	147259265	3	1	66	1	0	0	0	0	1	0	0	0	3647	680	24	3	1859	3	CNTNAP2	7	147259265	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	453913	147259265	11879398	322	26027										
CNTNAP2	26047	broad.mit.edu	37	chr7	147600754	147600754	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagaaatgtgcctgcggcatCgaacgcaactgcacagatcc	10	13	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:147600754C>A	uc003weu.1	+	14	2712	c.2196C>A	c.(2194-2196)ATC>ATA	p.I732I		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	732	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding	p.I732I(1)		ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CCTGCGGCATCGAACGCAACT	0.572										HNSCC(39;0.1)			19	26	---	---	---	---	PASS	A	147600754	A	A	147600754	2	1	66	1	0	0	0	0	0	0	0	1	3647	874	31	2		2	CNTNAP2	7	147600754	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	341489	147600754	11537909	323	26028										
GIMAP8	155038	broad.mit.edu	37	chr7	150174193	150174193	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttgacagaaaccctgaacatTgtccttgtggggagaagcgg	13	8	0	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:150174193T>A	uc003whj.2	+	5	1653	c.1323T>A	c.(1321-1323)ATT>ATA	p.I441I		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	441						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		CCCTGAACATTGTCCTTGTGG	0.517													43	76	---	---	---	---	PASS	A	150174193	A	A	150174193	2	1	66	1	0	0	0	0	0	0	0	1	6385	1800	63	5		5	GIMAP8	7	150174193	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	2573439	150174193	8964470	324	26029										
MLL3	58508	broad.mit.edu	37	chr7	151874731	151874731	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcgcatggggtctgtgtgtcTagggcccggaaagtctggcc	16	10	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:151874731T>A	uc003wla.2	-	38	8026	c.7807A>T	c.(7807-7809)AGA>TGA	p.R2603*	MLL3_uc003wkz.2_Nonsense_Mutation_p.R1664*|MLL3_uc003wky.2_Nonsense_Mutation_p.R112*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2603	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TCTGTGTGTCTAGGGCCCGGA	0.552			N		medulloblastoma								72	108	---	---	---	---	PASS	A	151874731	A	A	151874731	4	1	66	1	0	0	0	0	0	1	0	0	9622	1530	53	5	7016	5	MLL3	7	151874731	Nonsense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	1700538	151874731	7263932	325	26030										
MLL3	58508	broad.mit.edu	37	chr7	151878026	151878026	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaaagagtcagactgagatcTtggagtcattggagactgat	12	5	3	5			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:151878026T>A	uc003wla.2	-	36	7138	c.6919A>T	c.(6919-6921)AGA>TGA	p.R2307*	MLL3_uc003wkz.2_Nonsense_Mutation_p.R1368*|MLL3_uc003wky.2_5'Flank	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2307					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GACTGAGATCTTGGAGTCATT	0.517			N		medulloblastoma								49	82	---	---	---	---	PASS	A	151878026	A	A	151878026	4	1	66	1	0	0	0	0	0	1	0	0	9622	1617	56	5	7912	5	MLL3	7	151878026	Nonsense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	3295	151878026	7260637	326	26031										
DPP6	1804	broad.mit.edu	37	chr7	154684082	154684082	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cattactttaccagctccagCctcaaacagcatctgtaccg	5	15	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:154684082C>A	uc003wlk.2	+	26	2619	c.2490C>A	c.(2488-2490)AGC>AGA	p.S830R	DPP6_uc003wli.2_Missense_Mutation_p.S766R|DPP6_uc003wlm.2_Missense_Mutation_p.S768R|DPP6_uc011kvq.1_Missense_Mutation_p.S723R	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	830	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CCAGCTCCAGCCTCAAACAGC	0.532													44	54	---	---	---	---	PASS	A	154684082	A	A	154684082	3	1	66	1	0	0	0	0	1	0	0	0	4730	738	26	3	2708	3	DPP6	7	154684082	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2806056	154684082	4454581	327	26032										
NOM1	64434	broad.mit.edu	37	chr7	156742848	156742848	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcccctagtcgggacccctcGcctcccaggaagccgcggcc	12	20	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:156742848G>T	uc003wmy.2	+	1	432	c.417G>T	c.(415-417)TCG>TCT	p.S139S		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	139	Necessary for nucleolar localization and for targeting PPP1CA to the nucleolus.				RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		GGGACCCCTCGCCTCCCAGGA	0.751													8	8	---	---	---	---	PASS	T	156742848	T	T	156742848	2	4	66	1	0	0	0	0	0	0	0	1	10530	1074	38	1		1	NOM1	7	156742848	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	2058766	156742848	2395815	328	26033										
UBE3C	9690	broad.mit.edu	37	chr7	156976589	156976589	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaggggccctctctgaggaaGggctgctggtgtatttgcgg	17	8	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:156976589G>C	uc010lqs.2	+	9	1321	c.1009G>C	c.(1009-1011)GGG>CGG	p.G337R	UBE3C_uc003wnf.2_Missense_Mutation_p.G294R|UBE3C_uc003wng.2_Missense_Mutation_p.G337R	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	337					protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		CTCTGAGGAAGGGCTGCTGGT	0.468													103	145	---	---	---	---	PASS	C	156976589	C	C	156976589	3	2	66	1	0	0	0	0	1	0	0	0	16878	1000	35	4	1043	4	UBE3C	7	156976589	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	233741	156976589	2162074	329	26034										
PTPRN2	5799	broad.mit.edu	37	chr7	157903597	157903597	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagccgccttccttcctcggGgcgcagggggctgcggatga	16	14	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr7:157903597G>A	uc003wno.2	-	10	1688	c.1567C>T	c.(1567-1569)CCC>TCC	p.P523S	PTPRN2_uc003wnp.2_Missense_Mutation_p.P506S|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Missense_Mutation_p.P485S|PTPRN2_uc011kwa.1_Missense_Mutation_p.P546S	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	523	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CCTTCCTCGGGGCGCAGGGGG	0.677													4	2	---	---	---	---	PASS	A	157903597	A	A	157903597	3	1	66	1	0	0	0	0	1	0	0	0	12808	1232	43	3	1536	3	PTPRN2	7	157903597	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	927008	157903597	1235066	330	26035										
MYOM2	9172	broad.mit.edu	37	chr8	2057233	2057233	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atgagatttttgataaggggCgggttcgcttctggctccag	14	7	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:2057233C>A	uc003wpx.3	+	25	3229	c.3091C>A	c.(3091-3093)CGG>AGG	p.R1031R	MYOM2_uc011kwi.1_Silent_p.R456R	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1031					muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		TGATAAGGGGCGGGTTCGCTT	0.443													3	60	---	---	---	---	PASS	A	2057233	A	A	2057233	2	1	66	1	0	0	0	0	0	0	0	1	10092	759	27	1		1	MYOM2	8	2057233	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08		2057233	144306789	331	26036										
CSMD1	64478	broad.mit.edu	37	chr8	2855586	2855586	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgttgctccgacactgggctCgagacacgccctgcagcaaa	11	15	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:2855586C>A	uc011kwk.1	-	54	8717	c.8327G>T	c.(8326-8328)CGA>CTA	p.R2776L	CSMD1_uc011kwj.1_Missense_Mutation_p.R2105L|CSMD1_uc010lrg.2_Missense_Mutation_p.R786L	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2776	Extracellular (Potential).|Sushi 19.					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)		ACACTGGGCTCGAGACACGCC	0.552													26	17	---	---	---	---	PASS	A	2855586	A	A	2855586	3	1	66	1	0	0	0	0	1	0	0	0	3944	884	31	2	2438	2	CSMD1	8	2855586	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	798353	2855586	143508436	332	26037										
AMAC1L2	83650	broad.mit.edu	37	chr8	11189423	11189423	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccttggtctccttcacatgtGtgggctatgcggtcaccaag	11	12	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:11189423G>T	uc003wtp.1	+	1	929	c.808G>T	c.(808-810)GTG>TTG	p.V270L		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	270	Helical; (Potential).					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		CTTCACATGTGTGGGCTATGC	0.587													92	77	---	---	---	---	PASS	T	11189423	T	T	11189423	3	4	66	1	0	0	0	0	1	0	0	0	560	1377	48	3	810	3	AMAC1L2	8	11189423	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	8333837	11189423	135174599	333	26038										
INTS10	55174	broad.mit.edu	37	chr8	19700402	19700402	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtaccagcaaggctatcatGccatactgcctccatttaat	6	12	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:19700402G>A	uc003wzj.2	+	14	1814	c.1683G>A	c.(1681-1683)ATG>ATA	p.M561I		NM_018142	NP_060612	Q9NVR2	INT10_HUMAN	integrator complex subunit 10	561					snRNA processing	integrator complex	protein binding			ovary(1)	1				Colorectal(111;0.057)|COAD - Colon adenocarcinoma(73;0.215)		AGGCTATCATGCCATACTGCC	0.353													55	40	---	---	---	---	PASS	A	19700402	A	A	19700402	3	1	66	1	0	0	0	0	1	0	0	0	7776	1319	46	3	1737	3	INTS10	8	19700402	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	8510979	19700402	126663620	334	26039										
SLC18A1	6570	broad.mit.edu	37	chr8	20008219	20008219	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caccaaagaggttggtgccaAtgaggtaggacacactggca	13	9	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:20008219A>G	uc011kyq.1	-	12	1523	c.1052T>C	c.(1051-1053)ATT>ACT	p.I351T	SLC18A1_uc003wzl.2_Missense_Mutation_p.I138T|SLC18A1_uc003wzm.2_Missense_Mutation_p.I351T|SLC18A1_uc011kyr.1_Missense_Mutation_p.I351T|SLC18A1_uc003wzn.2_Missense_Mutation_p.I319T|SLC18A1_uc010ltf.2_RNA|SLC18A1_uc003wzo.2_Missense_Mutation_p.I319T	NM_001135691	NP_001129163	P54219	VMAT1_HUMAN	solute carrier family 18 (vesicular monoamine),	351	Helical; (Potential).				neurotransmitter transport	clathrin sculpted monoamine transport vesicle membrane|integral to membrane|membrane fraction	drug transmembrane transporter activity|monoamine transmembrane transporter activity			ovary(2)	2				Colorectal(74;0.0747)		GTTGGTGCCAATGAGGTAGGA	0.498													54	35	---	---	---	---	PASS	G	20008219	G	G	20008219	3	3	66	1	0	0	0	0	1	0	0	0	14425	101	4	5	549	5	SLC18A1	8	20008219	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	307817	20008219	126355803	335	26040										
EBF2	64641	broad.mit.edu	37	chr8	25766020	25766020	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctcatgtcccttgggtttccTgctgttttcaaacaattctg	7	11	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:25766020T>A	uc003xes.1	-	7	620	c.603A>T	c.(601-603)GCA>GCT	p.A201A	PPP2R2A_uc003xek.2_Intron	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	201	Interaction with DNA (By similarity).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		TTGGGTTTCCTGCTGTTTTCA	0.368													19	10	---	---	---	---	PASS	A	25766020	A	A	25766020	2	1	66	1	0	0	0	0	0	0	0	1	4881	1567	55	5		5	EBF2	8	25766020	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	5757801	25766020	120598002	336	26041										
KIF13B	23303	broad.mit.edu	37	chr8	29053708	29053708	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaaccaaatctcttaccttcGgctggcccctgagctcccaa	6	16	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:29053708G>A	uc003xhh.3	-	3	217	c.158C>T	c.(157-159)CCG>CTG	p.P53L	KIF13B_uc003xhj.2_Intron|KIF13B_uc010lvf.1_5'UTR|KIF13B_uc003xhk.2_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	53	Kinesin-motor.				microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		TCTTACCTTCGGCTGGCCCCT	0.318													3	6	---	---	---	---	PASS	A	29053708	A	A	29053708	3	1	66	1	0	0	0	0	1	0	0	0	8275	1116	39	1	5474	1	KIF13B	8	29053708	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	3287688	29053708	117310314	337	26042										
ADAM18	8749	broad.mit.edu	37	chr8	39495194	39495194	+	Silent	SNP	C	A	A													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aacgggactatctcatcctaCggccccatgacatagcatac							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:39495194C>A	uc003xni.2	+	9	799	c.799C>A	c.(799-801)CGG>AGG	p.R267R	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Silent_p.R243R	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	267	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TCTCATCCTACGGCCCCATGA	0.343													21	191	---	---	---	---	PASS	A	39495194	A	A	39495194	2	1	66	1	0	0	0	0	0	0	0	1	239	527	19	1		1	ADAM18	8	39495194	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	10441486	39495194	106868828	338	26043	546	2								
ADAM18	8749	broad.mit.edu	37	chr8	39495196	39495196	+	Silent	SNP	G	A	A													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgggactatctcatcctacgGccccatgacatagcatactt							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:39495196G>A	uc003xni.2	+	9	801	c.801G>A	c.(799-801)CGG>CGA	p.R267R	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Silent_p.R243R	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	267	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TCATCCTACGGCCCCATGACA	0.348													21	189	---	---	---	---	PASS	A	39495196	A	A	39495196	2	1	66	1	0	0	0	0	0	0	0	1	239	1190	42	3		3	ADAM18	8	39495196	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	2	39495196	106868826	339	26044	546	2								
CHRNB3	1142	broad.mit.edu	37	chr8	42587211	42587211	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtctttcctaacagttcttgTgttctatttaccttcggatg	7	9	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:42587211T>A	uc003xpi.1	+	5	889	c.761T>A	c.(760-762)GTG>GAG	p.V254E		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	254	Helical; (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			ACAGTTCTTGTGTTCTATTTA	0.428													23	134	---	---	---	---	PASS	A	42587211	A	A	42587211	3	1	66	1	0	0	0	0	1	0	0	0	3392	1696	59	5	779	5	CHRNB3	8	42587211	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	3092015	42587211	103776811	340	26045										
RP1	6101	broad.mit.edu	37	chr8	55534029	55534029	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tggcgacccgaagacgaggcGtgcggttcttctgagcagga	16	10	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:55534029G>A	uc003xsd.1	+	2	651	c.503G>A	c.(502-504)CGT>CAT	p.R168H	RP1_uc011ldy.1_Missense_Mutation_p.R168H	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	168	Doublecortin 2.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			AAGACGAGGCGTGCGGTTCTT	0.652													96	69	---	---	---	---	PASS	A	55534029	A	A	55534029	3	1	66	1	0	0	0	0	1	0	0	0	13532	1145	40	1	505	1	RP1	8	55534029	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	12946818	55534029	90829993	341	26046										
RP1	6101	broad.mit.edu	37	chr8	55540535	55540535	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caactgaagagttagaaagaGgtgatgacattcagaaagat	11	4	1	8			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:55540535G>T	uc003xsd.1	+	4	4241	c.4093G>T	c.(4093-4095)GGT>TGT	p.G1365C	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1365					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GTTAGAAAGAGGTGATGACAT	0.328													56	36	---	---	---	---	PASS	T	55540535	T	T	55540535	3	4	66	1	0	0	0	0	1	0	0	0	13532	1000	35	3	4103	3	RP1	8	55540535	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	6506	55540535	90823487	342	26047										
MOS	4342	broad.mit.edu	37	chr8	57025720	57025720	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cccgaatacggcgcctgcttGgtagtcatttgccagagagt	12	11	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:57025720G>A	uc011leb.1	-	1	822	c.822C>T	c.(820-822)ACC>ACT	p.T274T		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	274	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			GCGCCTGCTTGGTAGTCATTT	0.622													14	61	---	---	---	---	PASS	A	57025720	A	A	57025720	2	1	66	1	0	0	0	0	0	0	0	1	9712	1335	47	3		3	MOS	8	57025720	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	1485185	57025720	89338302	343	26048			1	29		3	3	487	N	G_C	6.71873e-05
MOS	4342	broad.mit.edu	37	chr8	57025733	57025733	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctgcttggtagtcatttgcCagagagtgatggcaaaggaa	13	7	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:57025733C>G	uc011leb.1	-	1	809	c.809G>C	c.(808-810)TGG>TCG	p.W270S		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	270	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			AGTCATTTGCCAGAGAGTGAT	0.617													16	67	---	---	---	---	PASS	G	57025733	G	G	57025733	3	3	66	1	0	0	0	0	1	0	0	0	9712	595	21	4	234	4	MOS	8	57025733	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	13	57025733	89338289	344	26049			1	29		3	3	487	N	G_C	6.71873e-05
MOS	4342	broad.mit.edu	37	chr8	57026206	57026206	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgcacgatgttatcgtggcgCagccttgctacgttgagctc	12	12	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:57026206C>A	uc011leb.1	-	1	336	c.336G>T	c.(334-336)CTG>CTT	p.L112L		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	112	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			TATCGTGGCGCAGCCTTGCTA	0.592													41	146	---	---	---	---	PASS	A	57026206	A	A	57026206	2	1	66	1	0	0	0	0	0	0	0	1	9712	697	25	3		3	MOS	8	57026206	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	473	57026206	89337816	345	26050			1	29		3	3	487	N	G_C	6.71873e-05
CYP7A1	1581	broad.mit.edu	37	chr8	59410832	59410832	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttttttccaatcaaaatattTtccgtggcacaacaccttat	3	10	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:59410832T>A	uc003xtm.3	-	2	340	c.277A>T	c.(277-279)AAA>TAA	p.K93*		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	93					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				TCAAAATATTTTCCGTGGCAC	0.343									Neonatal_Giant_Cell_Hepatitis				87	49	---	---	---	---	PASS	A	59410832	A	A	59410832	4	1	66	1	0	0	0	0	0	1	0	0	4196	1850	64	5	1257	5	CYP7A1	8	59410832	Nonsense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	2384626	59410832	86953190	346	26051										
NSMAF	8439	broad.mit.edu	37	chr8	59514042	59514042	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaagtacataacccggggaaGagtagtgactcccatacatg	10	9	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:59514042G>C	uc003xtt.2	-	15	1392	c.1178C>G	c.(1177-1179)TCT>TGT	p.S393C	NSMAF_uc011lee.1_Missense_Mutation_p.S424C|NSMAF_uc003xtu.2_Missense_Mutation_p.S393C	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	393	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)				ACCCGGGGAAGAGTAGTGACT	0.343													10	43	---	---	---	---	PASS	C	59514042	C	C	59514042	3	2	66	1	0	0	0	0	1	0	0	0	10674	942	33	2	1643	2	NSMAF	8	59514042	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	103210	59514042	86849980	347	26052										
CHD7	55636	broad.mit.edu	37	chr8	61757513	61757513	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	accatctgcagaaccatcctGgtgtactgtcttaatcatta	6	11	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:61757513G>C	uc003xue.2	+	22	5418	c.4941G>C	c.(4939-4941)CTG>CTC	p.L1647L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1647					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)			GAACCATCCTGGTGTACTGTC	0.488													44	153	---	---	---	---	PASS	C	61757513	C	C	61757513	2	2	66	1	0	0	0	0	0	0	0	1	3330	1335	47	4		4	CHD7	8	61757513	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	2243471	61757513	84606509	348	26053										
TTPA	7274	broad.mit.edu	37	chr8	63978502	63978502	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttcttggctacggatggagtGatttgaaaagcatgagaaaa	12	4	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:63978502G>C	uc003xux.1	-	3	545	c.513C>G	c.(511-513)ATC>ATG	p.I171M		NM_000370	NP_000361	P49638	TTPA_HUMAN	tocopherol (alpha) transfer protein	171	CRAL-TRIO.				lipid metabolic process		transporter activity|vitamin E binding				0	Breast(64;0.0716)	all_cancers(86;0.145)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.123)			Vitamin E(DB00163)	CGGATGGAGTGATTTGAAAAG	0.373													19	60	---	---	---	---	PASS	C	63978502	C	C	63978502	3	2	66	1	0	0	0	0	1	0	0	0	16733	1280	45	2	335	2	TTPA	8	63978502	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2220989	63978502	82385520	349	26054										
C8orf34	116328	broad.mit.edu	37	chr8	69358584	69358584	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aatccaaaggaacaagaaggGatttcagaagctatgataaa	9	5	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:69358584G>T	uc010lyz.2	+	3	287	c.238G>T	c.(238-240)GAT>TAT	p.D80Y	C8orf34_uc010lyx.1_Missense_Mutation_p.D80Y|C8orf34_uc010lyy.1_Missense_Mutation_p.D80Y|C8orf34_uc003xyb.2_Missense_Mutation_p.D55Y	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	80					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)			AACAAGAAGGGATTTCAGAAG	0.338													28	115	---	---	---	---	PASS	T	69358584	T	T	69358584	3	4	66	1	0	0	0	0	1	0	0	0	2422	1174	41	2	169	2	C8orf34	8	69358584	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	5380082	69358584	77005438	350	26055										
SULF1	23213	broad.mit.edu	37	chr8	70515555	70515555	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cccagaaaagccaggtaacaGgtgtgtcattgttcctcctc	9	12	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:70515555G>T	uc010lza.1	+	11	1907	c.1190G>T	c.(1189-1191)AGG>ATG	p.R397M	SULF1_uc003xyd.2_Missense_Mutation_p.R397M|SULF1_uc003xye.2_Missense_Mutation_p.R397M|SULF1_uc003xyf.2_Missense_Mutation_p.R397M|SULF1_uc003xyg.2_Missense_Mutation_p.R397M|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	397					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			CCAGGTAACAGGTGTGTCATT	0.562													20	121	---	---	---	---	PASS	T	70515555	T	T	70515555	3	4	66	1	0	0	0	0	1	0	0	0	15369	1014	35	3	1216	3	SULF1	8	70515555	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1156971	70515555	75848467	351	26056										
ZFHX4	79776	broad.mit.edu	37	chr8	77767035	77767035	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctctatgaaaaatacttgctGgattccaatcctaccagaaa	5	10	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:77767035G>A	uc003yav.2	+	10	8130	c.7743G>A	c.(7741-7743)CTG>CTA	p.L2581L	ZFHX4_uc003yau.1_Silent_p.L2626L|ZFHX4_uc003yaw.1_Silent_p.L2581L	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2581	Homeobox 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AATACTTGCTGGATTCCAATC	0.483										HNSCC(33;0.089)			34	26	---	---	---	---	PASS	A	77767035	A	A	77767035	2	1	66	1	0	0	0	0	0	0	0	1	17632	1335	47	3		3	ZFHX4	8	77767035	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	7251480	77767035	68596987	352	26057										
ZFHX4	79776	broad.mit.edu	37	chr8	77767965	77767965	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aagcgttttcgaacgcaaatGagcaatcttcaactcaaggt	8	9	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:77767965G>A	uc003yav.2	+	10	9060	c.8673G>A	c.(8671-8673)ATG>ATA	p.M2891I	ZFHX4_uc003yau.1_Missense_Mutation_p.M2936I|ZFHX4_uc003yaw.1_Missense_Mutation_p.M2891I	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2891	Homeobox 4.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GAACGCAAATGAGCAATCTTC	0.473										HNSCC(33;0.089)			10	66	---	---	---	---	PASS	A	77767965	A	A	77767965	3	1	66	1	0	0	0	0	1	0	0	0	17632	1290	45	2	8842	2	ZFHX4	8	77767965	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	930	77767965	68596057	353	26058										
PSKH2	85481	broad.mit.edu	37	chr8	87081736	87081736	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcctctgcgccgcctgggccGccgcctcgggcccaggcccc	13	22	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:87081736G>C	uc011lfy.1	-	1	116	c.116C>G	c.(115-117)GCG>GGG	p.A39G		NM_033126	NP_149117	Q96QS6	KPSH2_HUMAN	protein serine kinase H2	39							ATP binding|protein serine/threonine kinase activity			stomach(2)|lung(2)|ovary(1)	5			STAD - Stomach adenocarcinoma(118;0.129)			CGCCTGGGCCGCCGCCTCGGG	0.701													8	26	---	---	---	---	PASS	C	87081736	C	C	87081736	3	2	66	1	0	0	0	0	1	0	0	0	12665	1087	38	4	1051	4	PSKH2	8	87081736	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	9313771	87081736	59282286	354	26059										
SLC7A13	157724	broad.mit.edu	37	chr8	87226736	87226736	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccaatcttattttaaaatgtAttaaaggtatgtaaaatagt	5	3	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:87226736A>G	uc003ydq.1	-	4	1417	c.1319T>C	c.(1318-1320)ATA>ACA	p.I440T	SLC7A13_uc003ydr.1_3'UTR	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	440	Helical; Name=12; (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						TTTAAAATGTATTAAAGGTAT	0.358													12	41	---	---	---	---	PASS	G	87226736	G	G	87226736	3	3	66	1	0	0	0	0	1	0	0	0	14695	449	16	5	97	5	SLC7A13	8	87226736	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	145000	87226736	59137286	355	26060										
CNGB3	54714	broad.mit.edu	37	chr8	87591433	87591433	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaagattggcaaacccgtggGccaccacattggcagttcga	11	11	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:87591433G>A	uc003ydx.2	-	16	1875	c.1829C>T	c.(1828-1830)GCC>GTC	p.A610V	CNGB3_uc010maj.2_Missense_Mutation_p.A467V	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	610	Cytoplasmic (Potential).|cGMP (By similarity).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						AAACCCGTGGGCCACCACATT	0.458													145	308	---	---	---	---	PASS	A	87591433	A	A	87591433	3	1	66	1	0	0	0	0	1	0	0	0	3601	1203	42	3	612	3	CNGB3	8	87591433	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	364697	87591433	58772589	356	26061										
RUNX1T1	862	broad.mit.edu	37	chr8	93017356	93017356	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctctcacctgtctggagttCgcctcttcccgttttcgttc	7	16	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:93017356C>A	uc003yfd.2	-	5	812	c.728G>T	c.(727-729)CGA>CTA	p.R243L	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R216L|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R206L|RUNX1T1_uc010mao.2_Missense_Mutation_p.R216L|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R254L|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R206L|RUNX1T1_uc003yff.1_Missense_Mutation_p.R206L	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	243					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GTCTGGAGTTCGCCTCTTCCC	0.522													43	129	---	---	---	---	PASS	A	93017356	A	A	93017356	3	1	66	1	0	0	0	0	1	0	0	0	13747	884	31	2	1114	2	RUNX1T1	8	93017356	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	5425923	93017356	53346666	357	26062										
KIAA1429	25962	broad.mit.edu	37	chr8	95501056	95501056	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tccaagtcccccacgacctcTagaagcacggtcccgaggac	9	17	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:95501056T>G	uc003ygo.1	-	24	5330	c.5317A>C	c.(5317-5319)AGA>CGA	p.R1773R	KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1773					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			CCACGACCTCTAGAAGCACGG	0.468													30	67	---	---	---	---	PASS	G	95501056	G	G	95501056	2	3	66	1	0	0	0	0	0	0	0	1	8231	1530	53	5		5	KIAA1429	8	95501056	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	2483700	95501056	50862966	358	26063										
ZFPM2	23414	broad.mit.edu	37	chr8	106456566	106456566	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggggacacacagtcagagaaAccggggcaacctggagttga	15	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:106456566A>C	uc003ymd.2	+	3	281	c.258A>C	c.(256-258)AAA>AAC	p.K86N		NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	86					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AGTCAGAGAAACCGGGGCAAC	0.443													16	6	---	---	---	---	PASS	C	106456566	C	C	106456566	3	2	66	1	0	0	0	0	1	0	0	0	17655	40	2	5	268	5	ZFPM2	8	106456566	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	10955510	106456566	39907456	359	26064										
PKHD1L1	93035	broad.mit.edu	37	chr8	110498988	110498988	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agattaccccggttggtctgAggactcttttggagcacgcg	13	10	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:110498988A>G	uc003yne.2	+	59	9922	c.9818A>G	c.(9817-9819)GAG>GGG	p.E3273G		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3273	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GGTTGGTCTGAGGACTCTTTT	0.418										HNSCC(38;0.096)			67	210	---	---	---	---	PASS	G	110498988	G	G	110498988	3	3	66	1	0	0	0	0	1	0	0	0	11972	304	11	5	10052	5	PKHD1L1	8	110498988	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	4042422	110498988	35865034	360	26065										
CSMD3	114788	broad.mit.edu	37	chr8	113353710	113353710	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttattatttctcttaccttgGtatacaatatgaaacccttg	4	8	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:113353710G>C	uc003ynu.2	-	42	6807	c.6648C>G	c.(6646-6648)TAC>TAG	p.Y2216*	CSMD3_uc003yns.2_Nonsense_Mutation_p.Y1418*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.Y2176*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.Y2112*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2216	Extracellular (Potential).|CUB 12.					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						TCTTACCTTGGTATACAATAT	0.294										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			32	15	---	---	---	---	PASS	C	113353710	C	C	113353710	4	2	66	1	0	0	0	0	0	1	0	0	3946	1256	44	4	4595	4	CSMD3	8	113353710	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2854722	113353710	33010312	361	26066										
CSMD3	114788	broad.mit.edu	37	chr8	113562923	113562923	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaaactgaattgcaaatccaGatttgctaatataaaaatcc	4	7	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:113562923G>T	uc003ynu.2	-	27	4700	c.4541C>A	c.(4540-4542)TCT>TAT	p.S1514Y	CSMD3_uc003yns.2_Missense_Mutation_p.S786Y|CSMD3_uc003ynt.2_Missense_Mutation_p.S1474Y|CSMD3_uc011lhx.1_Missense_Mutation_p.S1410Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1514	Extracellular (Potential).|CUB 8.					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						TGCAAATCCAGATTTGCTAAT	0.303										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			54	15	---	---	---	---	PASS	T	113562923	T	T	113562923	3	4	66	1	0	0	0	0	1	0	0	0	3946	942	33	2	6762	2	CSMD3	8	113562923	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	209213	113562923	32801099	362	26067										
COL14A1	7373	broad.mit.edu	37	chr8	121293237	121293237	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gggtttctatggagcctggtAccttcaatgtgtttccatgt	11	8	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:121293237A>T	uc003yox.2	+	31	4028	c.3763A>T	c.(3763-3765)ACC>TCC	p.T1255S	COL14A1_uc003yoz.2_Missense_Mutation_p.T220S	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	1255	Nonhelical region (NC4).|TSP N-terminal.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			GGAGCCTGGTACCTTCAATGT	0.358													19	66	---	---	---	---	PASS	T	121293237	T	T	121293237	3	4	66	1	0	0	0	0	1	0	0	0	3671	391	14	5	3881	5	COL14A1	8	121293237	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	7730314	121293237	25070785	363	26068										
TOP1MT	116447	broad.mit.edu	37	chr8	144406793	144406793	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccggcggctcggggatcttCgagtccctgcagcagaacaa	14	13	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:144406793C>T	uc003yxz.2	-	6	697	c.678G>A	c.(676-678)TCG>TCA	p.S226S	TOP1MT_uc011lkd.1_Silent_p.S128S|TOP1MT_uc011lke.1_Silent_p.S128S|TOP1MT_uc010mfb.2_Silent_p.S128S|TOP1MT_uc011lkf.1_Silent_p.S21S|TOP1MT_uc010mfd.1_Silent_p.S21S	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	226					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	CGGGGATCTTCGAGTCCCTGC	0.587													40	230	---	---	---	---	PASS	T	144406793	T	T	144406793	2	4	66	1	0	0	0	0	0	0	0	1	16361	871	31	2		2	TOP1MT	8	144406793	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	23113556	144406793	1957229	364	26069										
PLEC	5339	broad.mit.edu	37	chr8	144994835	144994835	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caacagggccacggccatgtCggatggcagcaggtctttct	13	12	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:144994835C>A	uc003zaf.1	-	32	9735	c.9565G>T	c.(9565-9567)GAC>TAC	p.D3189Y	PLEC_uc003zab.1_Missense_Mutation_p.D3052Y|PLEC_uc003zac.1_Missense_Mutation_p.D3056Y|PLEC_uc003zad.2_Missense_Mutation_p.D3052Y|PLEC_uc003zae.1_Missense_Mutation_p.D3020Y|PLEC_uc003zag.1_Missense_Mutation_p.D3030Y|PLEC_uc003zah.2_Missense_Mutation_p.D3038Y|PLEC_uc003zaj.2_Missense_Mutation_p.D3079Y	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3189	Globular 2.|Plectin 7.				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						ACGGCCATGTCGGATGGCAGC	0.667													16	86	---	---	---	---	PASS	A	144994835	A	A	144994835	3	1	66	1	0	0	0	0	1	0	0	0	12052	884	31	2	4493	2	PLEC	8	144994835	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	588042	144994835	1369187	365	26070										
PLEC	5339	broad.mit.edu	37	chr8	144996841	144996841	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctgggtggcgagctccgtgCggtgcagcttctcaccgatc	14	14	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:144996841C>A	uc003zaf.1	-	31	7837	c.7667G>T	c.(7666-7668)CGC>CTC	p.R2556L	PLEC_uc003zab.1_Missense_Mutation_p.R2419L|PLEC_uc003zac.1_Missense_Mutation_p.R2423L|PLEC_uc003zad.2_Missense_Mutation_p.R2419L|PLEC_uc003zae.1_Missense_Mutation_p.R2387L|PLEC_uc003zag.1_Missense_Mutation_p.R2397L|PLEC_uc003zah.2_Missense_Mutation_p.R2405L|PLEC_uc003zaj.2_Missense_Mutation_p.R2446L	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2556	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						GAGCTCCGTGCGGTGCAGCTT	0.672													13	50	---	---	---	---	PASS	A	144996841	A	A	144996841	3	1	66	1	0	0	0	0	1	0	0	0	12052	768	27	1	6395	1	PLEC	8	144996841	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2006	144996841	1367181	366	26071										
GPR172A	79581	broad.mit.edu	37	chr8	145584561	145584561	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cggccggcattgctggcagcCggcgtggccatccaggtggg	18	13	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr8:145584561C>T	uc003zcc.1	+	5	1381	c.1224C>T	c.(1222-1224)GCC>GCT	p.A408A	FBXL6_uc003zbz.2_5'Flank|FBXL6_uc003zca.2_5'Flank|FBXL6_uc003zcb.2_5'Flank|FBXL6_uc010mfx.2_5'Flank|GPR172A_uc003zcd.1_Silent_p.A408A|GPR172A_uc003zce.1_Silent_p.A408A|GPR172A_uc010mfy.1_Silent_p.A408A|GPR172A_uc003zcf.1_Silent_p.A408A|GPR172A_uc011llc.1_Silent_p.A320A	NM_024531	NP_078807	Q9HAB3	RFT3_HUMAN	G protein-coupled receptor 172A precursor	408	Helical; (Potential).					integral to plasma membrane	receptor activity|riboflavin 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;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			TGCTGGCAGCCGGCGTGGCCA	0.642													29	114	---	---	---	---	PASS	T	145584561	T	T	145584561	2	4	66	1	0	0	0	0	0	0	0	1	6669	639	23	1		1	GPR172A	8	145584561	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	587720	145584561	779461	367	26072										
KIAA2026	158358	broad.mit.edu	37	chr9	5920586	5920586	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caattcagtttgaggtttatTtgtgtttacatttgttggca	9	4	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr9:5920586T>C	uc003zjq.3	-	8	5626	c.5410A>G	c.(5410-5412)AAT>GAT	p.N1804D	KIAA2026_uc010mht.2_Missense_Mutation_p.N979D	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	1804										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		TGAGGTTTATTTGTGTTTACA	0.383													276	142	---	---	---	---	PASS	C	5920586	C	C	5920586	3	2	66	1	0	0	0	0	1	0	0	0	8270	1841	64	5	905	5	KIAA2026	9	5920586	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08		5920586	135292845	368	26073										
FREM1	158326	broad.mit.edu	37	chr9	14851542	14851542	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aataaacacggccatgaatgCagcctttggaatctgattcg	9	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr9:14851542C>T	uc003zlm.2	-	6	1482	c.892G>A	c.(892-894)GCA>ACA	p.A298T	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	298	CSPG 1.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GCCATGAATGCAGCCTTTGGA	0.438													59	37	---	---	---	---	PASS	T	14851542	T	T	14851542	3	4	66	1	0	0	0	0	1	0	0	0	6044	710	25	3	5825	3	FREM1	9	14851542	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	8930956	14851542	126361889	369	26074										
CDKN2A	1029	broad.mit.edu	37	chr9	21971006	21971006	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcgatggcccagctcctcagCcaggtccacgggcagacggc	14	16	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr9:21971006C>G	uc003zpk.2	-	2	564	c.352G>C	c.(352-354)GCT>CCT	p.A118P	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.G173A	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	118	ANK 4.		A -> T (in CMM2).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(13)|p.A118fs*10(1)|p.A118V(1)|p.A118fs*27(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		AGCTCCTCAGCCAGGTCCACG	0.731		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			31	14	---	---	---	---	PASS	G	21971006	G	G	21971006	3	3	66	1	0	0	0	0	1	0	0	0	3161	739	26	4	126	4	CDKN2A	9	21971006	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	7119464	21971006	119242425	370	26075										
VPS13A	23230	broad.mit.edu	37	chr9	79952371	79952371	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agtgtattcagaagatggttGggatttaccatacataatgc	10	5	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr9:79952371G>T	uc004akr.2	+	47	6556	c.6296G>T	c.(6295-6297)TGG>TTG	p.W2099L	VPS13A_uc004akp.3_Missense_Mutation_p.W2099L|VPS13A_uc004akq.3_Missense_Mutation_p.W2099L|VPS13A_uc004aks.2_Missense_Mutation_p.W2060L|VPS13A_uc004akt.2_Missense_Mutation_p.W439L	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2099					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GAAGATGGTTGGGATTTACCA	0.328													42	17	---	---	---	---	PASS	T	79952371	T	T	79952371	3	4	66	1	0	0	0	0	1	0	0	0	17186	1357	47	3	6482	3	VPS13A	9	79952371	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	57981365	79952371	61261060	371	26076										
GNA14	9630	broad.mit.edu	37	chr9	80144079	80144079	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgttttggtaaaccagcttcGtgaacccctttctgtcttcg	8	11	2	1	rs45466295	byFrequency	TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr9:80144079G>A	uc004aku.2	-	2	738	c.215C>T	c.(214-216)ACG>ATG	p.T72M		NM_004297	NP_004288	O95837	GNA14_HUMAN	G alpha 14	72					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(2)	2						AACCAGCTTCGTGAACCCCTT	0.448													97	207	---	---	---	---	PASS	A	80144079	A	A	80144079	3	1	66	1	0	0	0	0	1	0	0	0	6502	1145	40	1	876	1	GNA14	9	80144079	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	191708	80144079	61069352	372	26077										
GABBR2	9568	broad.mit.edu	37	chr9	101056152	101056152	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgtagctggggattttgatCgaggtgattttttaaaatgg	13	3	0	2	rs79773606		TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr9:101056152C>T	uc004ays.2	-	18	2731	c.2575G>A	c.(2575-2577)GAT>AAT	p.D859N		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	859	Cytoplasmic (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	GGATTTTGATCGAGGTGATTT	0.383													51	40	---	---	---	---	PASS	T	101056152	T	T	101056152	3	4	66	1	0	0	0	0	1	0	0	0	6156	884	31	2	258	2	GABBR2	9	101056152	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	20912073	101056152	40157279	373	26078										
TNC	3371	broad.mit.edu	37	chr9	117853048	117853048	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtgctcctgaaagctttcgcTgggctctgaaggcggtgcca	14	11	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr9:117853048T>A	uc004bjj.3	-	2	612	c.250A>T	c.(250-252)AGC>TGC	p.S84C	TNC_uc010mvf.2_Missense_Mutation_p.S84C	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	84					cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						AAGCTTTCGCTGGGCTCTGAA	0.582													129	81	---	---	---	---	PASS	A	117853048	A	A	117853048	3	1	66	1	0	0	0	0	1	0	0	0	16267	1580	55	5	6463	5	TNC	9	117853048	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	16796896	117853048	23360383	374	26079										
PKN3	29941	broad.mit.edu	37	chr9	131479170	131479170	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggtgacctcatgatgcagatCcacgaggatgtcttccccga	11	12	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr9:131479170C>A	uc004bvw.2	+	16	2346	c.1953C>A	c.(1951-1953)ATC>ATA	p.I651I	PKN3_uc010myh.2_Silent_p.I651I|PKN3_uc011mbk.1_Silent_p.I201I	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	651	Protein kinase.				signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4						TGATGCAGATCCACGAGGATG	0.597													57	34	---	---	---	---	PASS	A	131479170	A	A	131479170	2	1	66	1	0	0	0	0	0	0	0	1	11981	845	30	2		2	PKN3	9	131479170	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	13626122	131479170	9734261	375	26080										
UBAC1	10422	broad.mit.edu	37	chr9	138830184	138830184	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gctcctccggagagggcttcCggtcccccagcagccactcg	12	18	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr9:138830184C>T	uc004cgt.2	-	9	1204	c.986G>A	c.(985-987)CGG>CAG	p.R329Q	UBAC1_uc004cgs.1_Missense_Mutation_p.R329Q|UBAC1_uc004cgu.2_RNA	NM_016172	NP_057256	Q9BSL1	UBAC1_HUMAN	ubiquitin associated domain containing 1	329						Golgi apparatus|plasma membrane	protein binding			skin(2)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.1e-06)|Epithelial(140;7.79e-06)		AGAGGGCTTCCGGTCCCCCAG	0.622													23	9	---	---	---	---	PASS	T	138830184	T	T	138830184	3	4	66	1	0	0	0	0	1	0	0	0	16831	652	23	1	239	1	UBAC1	9	138830184	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	7351014	138830184	2383247	376	26081										
PMPCA	23203	broad.mit.edu	37	chr9	139311657	139311657	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtggcccagtacactgggggGattgccaaggtgaagtagcg	17	8	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr9:139311657G>A	uc004chl.2	+	7	893	c.888G>A	c.(886-888)GGG>GGA	p.G296G	PMPCA_uc010nbl.2_Silent_p.G196G|PMPCA_uc011mdz.1_Silent_p.G165G|PMPCA_uc004chm.1_Silent_p.G46G|PMPCA_uc004chn.1_5'Flank	NM_015160	NP_055975	Q10713	MPPA_HUMAN	peptidase (mitochondrial processing) alpha	296					proteolysis	mitochondrial inner membrane|mitochondrial matrix	metalloendopeptidase activity|zinc ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;9.3e-06)|Epithelial(140;1.15e-05)		ACACTGGGGGGATTGCCAAGG	0.612													24	10	---	---	---	---	PASS	A	139311657	A	A	139311657	2	1	66	1	0	0	0	0	0	0	0	1	12140	1161	41	2		2	PMPCA	9	139311657	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	481473	139311657	1901774	377	26082										
GPR158	57512	broad.mit.edu	37	chr10	25887462	25887462	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctgcggaggagccaagaaaGcctcagaaatctgggattat	12	9	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:25887462G>A	uc001isj.2	+	11	2967	c.2907G>A	c.(2905-2907)AAG>AAA	p.K969K	GPR158_uc001isk.2_Silent_p.K344K	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	969	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						AGCCAAGAAAGCCTCAGAAAT	0.453													86	30	---	---	---	---	PASS	A	25887462	A	A	25887462	2	1	66	1	0	0	0	0	0	0	0	1	6663	962	34	3		3	GPR158	10	25887462	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08		25887462	109647285	378	26083										
BMS1	9790	broad.mit.edu	37	chr10	43316033	43316033	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atattttctgtagggtggagGaggtttcagaccatcccact	11	8	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:43316033G>T	uc001jaj.2	+	17	3205	c.2847G>T	c.(2845-2847)AGG>AGT	p.R949S		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	949					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						TAGGGTGGAGGAGGTTTCAGA	0.458													19	57	---	---	---	---	PASS	T	43316033	T	T	43316033	3	4	66	1	0	0	0	0	1	0	0	0	1472	1165	41	2	2909	2	BMS1	10	43316033	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	17428571	43316033	92218714	379	26084										
CHAT	1103	broad.mit.edu	37	chr10	50856650	50856650	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cactgagcatctgctcaagcAcgtgtgagtctggatcccag	11	12	3	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:50856650A>T	uc001jhz.2	+	9	1532	c.1379A>T	c.(1378-1380)CAC>CTC	p.H460L	CHAT_uc001jhv.1_Missense_Mutation_p.H342L|CHAT_uc001jhx.1_Missense_Mutation_p.H342L|CHAT_uc001jhy.1_Missense_Mutation_p.H342L|CHAT_uc001jia.2_Missense_Mutation_p.H342L|CHAT_uc010qgs.1_Missense_Mutation_p.H342L	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	460					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	CTGCTCAAGCACGTGTGAGTC	0.577													17	6	---	---	---	---	PASS	T	50856650	T	T	50856650	3	4	66	1	0	0	0	0	1	0	0	0	3313	159	6	5	1457	5	CHAT	10	50856650	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	7540617	50856650	84678097	380	26085										
OGDHL	55753	broad.mit.edu	37	chr10	50947856	50947856	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccagaggaccagggcattggGgctggccatggcatagccca	15	12	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:50947856G>T	uc001jie.2	-	17	2312	c.2170C>A	c.(2170-2172)CCC>ACC	p.P724T	OGDHL_uc009xog.2_Missense_Mutation_p.P751T|OGDHL_uc010qgt.1_Missense_Mutation_p.P667T|OGDHL_uc010qgu.1_Missense_Mutation_p.P515T	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	724					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						AGGGCATTGGGGCTGGCCATG	0.572													22	34	---	---	---	---	PASS	T	50947856	T	T	50947856	3	4	66	1	0	0	0	0	1	0	0	0	10840	1232	43	3	890	3	OGDHL	10	50947856	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	91206	50947856	84586891	381	26086										
DKK1	22943	broad.mit.edu	37	chr10	54074370	54074370	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgcggggcacccaggctctgCagtcagcgccgcgccgggaa	16	15	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:54074370C>A	uc001jjr.2	+	1	330	c.176C>A	c.(175-177)GCA>GAA	p.A59E	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	59					negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						CCAGGCTCTGCAGTCAGCGCC	0.632											OREG0020191	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	50	---	---	---	---	PASS	A	54074370	A	A	54074370	3	1	66	1	0	0	0	0	1	0	0	0	4544	710	25	3	178	3	DKK1	10	54074370	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3126514	54074370	81460377	382	26087										
PCDH15	65217	broad.mit.edu	37	chr10	55568769	55568769	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttctttttgttcttcttgtgGctcctctttcctacccttga	5	12	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:55568769G>T	uc010qhs.1	-	37	5451	c.5056C>A	c.(5056-5058)CCA>ACA	p.P1686T	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qht.1_Missense_Mutation_p.P1679T|PCDH15_uc010qhu.1_3'UTR	NM_001142769	NP_001136241	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				tcttcttgtggctcctcttTC	0.328										HNSCC(58;0.16)			5	4	---	---	---	---	PASS	T	55568769	T	T	55568769	3	4	66	1	0	0	0	0	1	0	0	0	11511	1203	42	3	875	3	PCDH15	10	55568769	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1494399	55568769	79965978	383	26088										
PCDH15	65217	broad.mit.edu	37	chr10	55892724	55892724	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaagcgaggagggctttgatTatttggtggaagcacttcaa	14	5	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:55892724T>A	uc001jju.1	-	15	2223	c.1828A>T	c.(1828-1830)AAT>TAT	p.N610Y	PCDH15_uc010qhq.1_Missense_Mutation_p.N615Y|PCDH15_uc010qhr.1_Missense_Mutation_p.N610Y|PCDH15_uc010qhs.1_Missense_Mutation_p.N622Y|PCDH15_uc010qht.1_Missense_Mutation_p.N617Y|PCDH15_uc010qhu.1_Missense_Mutation_p.N610Y|PCDH15_uc001jjv.1_Missense_Mutation_p.N588Y|PCDH15_uc010qhv.1_Missense_Mutation_p.N610Y|PCDH15_uc010qhw.1_Missense_Mutation_p.N573Y|PCDH15_uc010qhx.1_Intron|PCDH15_uc010qhy.1_Missense_Mutation_p.N615Y|PCDH15_uc010qhz.1_Missense_Mutation_p.N610Y|PCDH15_uc010qia.1_Missense_Mutation_p.N588Y|PCDH15_uc010qib.1_Missense_Mutation_p.N588Y|PCDH15_uc001jjw.2_Missense_Mutation_p.N610Y	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	610	Cadherin 5.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GGGCTTTGATTATTTGGTGGA	0.408										HNSCC(58;0.16)			18	43	---	---	---	---	PASS	A	55892724	A	A	55892724	3	1	66	1	0	0	0	0	1	0	0	0	11511	1754	61	5	5734	5	PCDH15	10	55892724	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	323955	55892724	79642023	384	26089										
FAM13C	220965	broad.mit.edu	37	chr10	61012727	61012727	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaggttgttggcttccctgtGgacggtcttcatcagagtcc	12	10	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:61012727G>A	uc001jkn.2	-	13	1498	c.1364C>T	c.(1363-1365)CCA>CTA	p.P455L	FAM13C_uc001jko.2_Missense_Mutation_p.P357L|FAM13C_uc010qid.1_Missense_Mutation_p.P371L|FAM13C_uc010qie.1_Missense_Mutation_p.P372L|FAM13C_uc010qif.1_Missense_Mutation_p.P477L	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	455										ovary(2)	2						GCTTCCCTGTGGACGGTCTTC	0.483													27	100	---	---	---	---	PASS	A	61012727	A	A	61012727	3	1	66	1	0	0	0	0	1	0	0	0	5454	1348	47	3	405	3	FAM13C	10	61012727	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	5120003	61012727	74522020	385	26090										
RHOBTB1	9886	broad.mit.edu	37	chr10	62648181	62648181	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtcccgtataaagaaactgGagcagggtccgaaaagggcc	13	9	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:62648181G>C	uc001jli.2	-	7	1683	c.1245C>G	c.(1243-1245)CTC>CTG	p.L415L	RHOBTB1_uc001jlh.2_Silent_p.L415L|RHOBTB1_uc001jlj.2_Silent_p.L415L|RHOBTB1_uc001jlk.2_Silent_p.L415L|RHOBTB1_uc009xpe.1_Silent_p.L353L|RHOBTB1_uc001jll.2_Silent_p.L165L	NM_014836	NP_055651	O94844	RHBT1_HUMAN	Rho-related BTB domain containing 1	415	BTB 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)					AAAGAAACTGGAGCAGGGTCC	0.527													28	57	---	---	---	---	PASS	C	62648181	C	C	62648181	2	2	66	1	0	0	0	0	0	0	0	1	13333	1161	41	2		2	RHOBTB1	10	62648181	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	1635454	62648181	72886566	386	26091										
JMJD1C	221037	broad.mit.edu	37	chr10	64960338	64960338	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gacacttttgtaaattaggcCctatctcacagcaggagtca	8	10	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:64960338C>A	uc001jmn.2	-	11	5474	c.5174G>T	c.(5173-5175)GGG>GTG	p.G1725V	JMJD1C_uc001jml.2_Missense_Mutation_p.G1506V|JMJD1C_uc001jmm.2_Missense_Mutation_p.G1437V|JMJD1C_uc010qiq.1_Missense_Mutation_p.G1543V|JMJD1C_uc009xpi.2_Missense_Mutation_p.G1543V|JMJD1C_uc009xpj.1_Intron|JMJD1C_uc009xpk.1_Intron	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1725					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TAAATTAGGCCCTATCTCACA	0.403													23	27	---	---	---	---	PASS	A	64960338	A	A	64960338	3	1	66	1	0	0	0	0	1	0	0	0	7950	623	22	3	2512	3	JMJD1C	10	64960338	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2312157	64960338	70574409	387	26092										
CTNNA3	29119	broad.mit.edu	37	chr10	69407234	69407234	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tttggacctgcagatcctgaGgatcgatattcaatgtgatt	10	7	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:69407234G>T	uc009xpn.1	-	2	161	c.38C>A	c.(37-39)CCT>CAT	p.P13H	CTNNA3_uc001jmw.2_Missense_Mutation_p.P13H|CTNNA3_uc001jmx.3_Missense_Mutation_p.P13H|CTNNA3_uc009xpo.1_5'UTR|CTNNA3_uc001jna.2_Missense_Mutation_p.P25H	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	13					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						CAGATCCTGAGGATCGATATT	0.383													43	145	---	---	---	---	PASS	T	69407234	T	T	69407234	3	4	66	1	0	0	0	0	1	0	0	0	4014	1000	35	3	2717	3	CTNNA3	10	69407234	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4446896	69407234	66127513	388	26093										
NODAL	4838	broad.mit.edu	37	chr10	72195571	72195571	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agctgtctgaagcctgctctGtgtcgggctttggctggtgg	16	9	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:72195571G>T	uc001jrc.2	-	2	404	c.362C>A	c.(361-363)ACA>AAA	p.T121K		NM_018055	NP_060525	Q96S42	NODAL_HUMAN	nodal precursor	121					growth	extracellular space	cytokine activity|growth factor activity			large_intestine(1)|kidney(1)	2						AGCCTGCTCTGTGTCGGGCTT	0.567													37	47	---	---	---	---	PASS	T	72195571	T	T	72195571	3	4	66	1	0	0	0	0	1	0	0	0	10518	1377	48	3	689	3	NODAL	10	72195571	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2788337	72195571	63339176	389	26094										
AP3M1	26985	broad.mit.edu	37	chr10	75886051	75886051	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caattgttatatcaaatctgCcgcaagaactgttctcctta	5	10	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:75886051C>A	uc001jwf.2	-	7	1296	c.866G>T	c.(865-867)GGC>GTC	p.G289V	AP3M1_uc001jwg.2_Missense_Mutation_p.G289V|AP3M1_uc001jwh.2_Missense_Mutation_p.G289V|AP3M1_uc010qla.1_Missense_Mutation_p.G235V	NM_207012	NP_996895	Q9Y2T2	AP3M1_HUMAN	adaptor-related protein complex 3, mu 1 subunit	289	MHD.				protein targeting to lysosome|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus|lysosome	protein binding				0	Prostate(51;0.0112)					ATCAAATCTGCCGCAAGAACT	0.373													11	53	---	---	---	---	PASS	A	75886051	A	A	75886051	3	1	66	1	0	0	0	0	1	0	0	0	747	739	26	3	402	3	AP3M1	10	75886051	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3690480	75886051	59648696	390	26095										
LRIT1	26103	broad.mit.edu	37	chr10	85992085	85992085	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cacgccacatacttggtcttGggcaacagcccagtgatggt	11	12	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:85992085G>T	uc001kcz.1	-	4	1492	c.1470C>A	c.(1468-1470)CCC>CCA	p.P490P		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	490	Fibronectin type-III.|Lumenal (Potential).					integral to endoplasmic reticulum membrane					0						ACTTGGTCTTGGGCAACAGCC	0.572													14	12	---	---	---	---	PASS	T	85992085	T	T	85992085	2	4	66	1	0	0	0	0	0	0	0	1	8947	1335	47	3		3	LRIT1	10	85992085	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	10106034	85992085	49542662	391	26096										
KIF20B	9585	broad.mit.edu	37	chr10	91465176	91465176	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgatctgtctcatgaattttCcttagttgctccaaatactg	6	9	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:91465176C>T	uc001kgs.1	+	2	197	c.125C>T	c.(124-126)TCC>TTC	p.S42F	KIF20B_uc001kgr.1_Missense_Mutation_p.S42F	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	42					cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						CATGAATTTTCCTTAGTTGCT	0.323													43	42	---	---	---	---	PASS	T	91465176	T	T	91465176	3	4	66	1	0	0	0	0	1	0	0	0	8287	855	30	2	127	2	KIF20B	10	91465176	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	5473091	91465176	44069571	392	26097										
PCGF5	84333	broad.mit.edu	37	chr10	93008287	93008287	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acaatacattagaggaaattAtatttaagctggtccctgga	8	6	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:93008287A>G	uc001khh.2	+	4	482	c.235A>G	c.(235-237)ATA>GTA	p.I79V	PCGF5_uc010qnk.1_Missense_Mutation_p.I79V|PCGF5_uc001khi.2_Missense_Mutation_p.I79V	NM_032373	NP_115749	Q86SE9	PCGF5_HUMAN	polycomb group ring finger 5	79					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|PcG protein complex	zinc ion binding			lung(1)	1						AGAGGAAATTATATTTAAGCT	0.358													78	76	---	---	---	---	PASS	G	93008287	G	G	93008287	3	3	66	1	0	0	0	0	1	0	0	0	11577	449	16	5	245	5	PCGF5	10	93008287	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	1543111	93008287	42526460	393	26098										
CYP26C1	340665	broad.mit.edu	37	chr10	94824182	94824182	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	catcggcacctggagggggcCatttctgagaagcttcacga	13	11	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:94824182C>T	uc010qns.1	+	4	750	c.750C>T	c.(748-750)GCC>GCT	p.A250A	CYP26C1_uc009xud.2_Intron	NM_183374	NP_899230	Q6V0L0	CP26C_HUMAN	cytochrome P450, family 26, subfamily C,	250					anterior/posterior pattern formation|central nervous system development|negative regulation of retinoic acid receptor signaling pathway|neural crest cell development|organelle fusion|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			central_nervous_system(1)	1		Colorectal(252;0.122)				TGGAGGGGGCCATTTCTGAGA	0.612													28	40	---	---	---	---	PASS	T	94824182	T	T	94824182	2	4	66	1	0	0	0	0	0	0	0	1	4157	581	21	3		3	CYP26C1	10	94824182	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	1815895	94824182	40710565	394	26099										
PLCE1	51196	broad.mit.edu	37	chr10	95790939	95790939	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caaaagcacatactgtcagaCgaagtggggagacttctcat	10	9	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:95790939C>A	uc001kjk.2	+	2	770	c.136C>A	c.(136-138)CGA>AGA	p.R46R	PLCE1_uc010qnx.1_Silent_p.R46R	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	46					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				TACTGTCAGACGAAGTGGGGA	0.433													28	32	---	---	---	---	PASS	A	95790939	A	A	95790939	2	1	66	1	0	0	0	0	0	0	0	1	12034	528	19	1		1	PLCE1	10	95790939	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	966757	95790939	39743808	395	26100										
POLL	27343	broad.mit.edu	37	chr10	103339394	103339394	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttttggccagggctcgcatgGagcggttgaagtgtgcagag	17	7	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:103339394G>C	uc001ktg.1	-	8	2310	c.1544C>G	c.(1543-1545)TCC>TGC	p.S515C	DPCD_uc010qpz.1_Intron|POLL_uc001ktd.1_Missense_Mutation_p.S188C|POLL_uc001kte.1_Missense_Mutation_p.S207C|POLL_uc001kth.1_Missense_Mutation_p.S240C|POLL_uc001kti.1_Missense_Mutation_p.S515C|POLL_uc001ktj.1_Missense_Mutation_p.S515C|POLL_uc001ktf.2_Missense_Mutation_p.S423C|POLL_uc001ktk.1_Missense_Mutation_p.S254C|POLL_uc010qqa.1_Missense_Mutation_p.S254C|POLL_uc010qqb.1_RNA|POLL_uc001ktm.2_Missense_Mutation_p.S515C|POLL_uc001ktl.2_Missense_Mutation_p.S427C|POLL_uc010qqc.1_Missense_Mutation_p.S207C	NM_013274	NP_037406	Q9UGP5	DPOLL_HUMAN	DNA-directed DNA polymerase lambda	515					DNA replication|nucleotide-excision repair|somatic hypermutation of immunoglobulin genes	nucleus	DNA binding|DNA-directed DNA polymerase activity|lyase activity|metal ion binding				0		Colorectal(252;0.234)		Epithelial(162;1.55e-08)|all cancers(201;6.64e-07)		GGCTCGCATGGAGCGGTTGAA	0.632								DNA_polymerases_(catalytic_subunits)					49	65	---	---	---	---	PASS	C	103339394	C	C	103339394	3	2	66	1	0	0	0	0	1	0	0	0	12205	1174	41	2	187	2	POLL	10	103339394	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	7548455	103339394	32195353	396	26101										
NRAP	4892	broad.mit.edu	37	chr10	115389450	115389450	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtagtccaggtcactggcgAgagtttgggccttcttagca	13	9	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:115389450A>G	uc001laj.2	-	19	2101	c.1937T>C	c.(1936-1938)CTC>CCC	p.L646P	NRAP_uc009xyb.2_5'Flank|NRAP_uc001lak.2_Missense_Mutation_p.L611P|NRAP_uc001lal.3_Missense_Mutation_p.L646P	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	646	Nebulin 15.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		GTCACTGGCGAGAGTTTGGGC	0.483													22	80	---	---	---	---	PASS	G	115389450	G	G	115389450	3	3	66	1	0	0	0	0	1	0	0	0	10638	304	11	5	3351	5	NRAP	10	115389450	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	12050056	115389450	20145297	397	26102										
PNLIP	5406	broad.mit.edu	37	chr10	118318738	118318738	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgatagatatcctgggaaaAcaaatgatgtgggccagaaa	11	6	0	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:118318738A>G	uc001lcm.2	+	10	1046	c.1003A>G	c.(1003-1005)ACA>GCA	p.T335A		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	335					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	TCCTGGGAAAACAAATGATGT	0.378													25	37	---	---	---	---	PASS	G	118318738	G	G	118318738	3	3	66	1	0	0	0	0	1	0	0	0	12149	43	2	5	1037	5	PNLIP	10	118318738	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	2929288	118318738	17216009	398	26103										
HMX3	340784	broad.mit.edu	37	chr10	124896747	124896747	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcaaaaaggaaggcgaagcgGcgccaggcgcggccggggcg	20	11	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:124896747G>A	uc010quc.1	+	2	574	c.574G>A	c.(574-576)GCG>ACG	p.A192T		NM_001105574	NP_001099044	A6NHT5	HMX3_HUMAN	H6 family homeobox 3	192					cell differentiation	nucleus	sequence-specific DNA binding transcription factor activity				0		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.122)|COAD - Colon adenocarcinoma(40;0.141)		AGGCGAAGCGGCGCCAGGCGC	0.662													7	4	---	---	---	---	PASS	A	124896747	A	A	124896747	3	1	66	1	0	0	0	0	1	0	0	0	7248	1203	42	3	580	3	HMX3	10	124896747	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	6578009	124896747	10638000	399	26104										
STK32C	282974	broad.mit.edu	37	chr10	134121179	134121179	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgaaacagggggcgcggctgCgagcggacatcgcccgagtc	17	12	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:134121179C>A	uc001lle.1	-	1	299	c.159G>T	c.(157-159)TCG>TCT	p.S53S	STK32C_uc001lld.1_5'Flank|STK32C_uc010quu.1_Intron|STK32C_uc009ybc.1_Intron|STK32C_uc009ybd.1_Intron	NM_173575	NP_775846	Q86UX6	ST32C_HUMAN	serine/threonine kinase 32C	53							ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|breast(1)	5		all_cancers(35;2.72e-11)|all_epithelial(44;2.33e-08)|Lung NSC(174;0.000855)|all_lung(145;0.00146)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.112)|Melanoma(40;0.124)|Glioma(114;0.203)		Epithelial(32;3.99e-05)|all cancers(32;5.58e-05)|OV - Ovarian serous cystadenocarcinoma(35;9.96e-05)|BRCA - Breast invasive adenocarcinoma(275;0.222)		GGCGCGGCTGCGAGCGGACAT	0.398													31	45	---	---	---	---	PASS	A	134121179	A	A	134121179	2	1	66	1	0	0	0	0	0	0	0	1	15298	755	27	1		1	STK32C	10	134121179	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	9224432	134121179	1413568	400	26105										
C10orf91	170393	broad.mit.edu	37	chr10	134258757	134258757	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggtataaagcagctgaaatgTggagtttcctcccaggagct	12	8	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr10:134258757T>A	uc001llm.2	+	1	44	c.4T>A	c.(4-6)TGG>AGG	p.W2R		NM_173541	NP_775812	Q5T1B1	CJ091_HUMAN	hypothetical protein LOC170393	2										ovary(1)	1		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;6.95e-05)|Epithelial(32;0.000142)|all cancers(32;0.000162)		AGCTGAAATGTGGAGTTTCCT	0.622													3	6	---	---	---	---	PASS	A	134258757	A	A	134258757	3	1	66	1	0	0	0	0	1	0	0	0	1624	1696	59	5	6	5	C10orf91	10	134258757	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	137578	134258757	1275990	401	26106										
MUC2	4583	broad.mit.edu	37	chr11	1082714	1082714	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gctggcgggagcatgtctgcAgtgagtgccgtccccgtggg	18	11	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:1082714A>T	uc001lsx.1	+	15	1990	c.1963A>T	c.(1963-1965)AAC>TAC	p.N655Y		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	655						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	GCATGTCTGCAGTGAGTGCCG	0.697													15	15	---	---	---	---	PASS	T	1082714	T	T	1082714	3	4	66	1	0	0	0	0	1	0	0	0	9975	202	7	5	2021	5	MUC2	11	1082714	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08		1082714	133923802	402	26107										
MUC5B	727897	broad.mit.edu	37	chr11	1281295	1281295	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccccacagcctgcatcctgcCcagatgtgtccagctgcagg	10	17	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:1281295C>G	uc009ycr.1	+	68	18040	c.17914C>G	c.(17914-17916)CCA>GCA	p.P5972A	MUC5B_uc001ltb.2_Missense_Mutation_p.P5638A	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5635					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		TGCATCCTGCCCAGATGTGTC	0.617													34	10	---	---	---	---	PASS	G	1281295	G	G	1281295	3	3	66	1	0	0	0	0	1	0	0	0	9979	623	22	4	17094	4	MUC5B	11	1281295	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	198581	1281295	133725221	403	26108										
DUSP8	1850	broad.mit.edu	37	chr11	1578659	1578659	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagcggggccccggcggcagGactgggcggaggctccggcg	21	14	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:1578659G>C	uc001lts.2	-	7	1095	c.967C>G	c.(967-969)CCT>GCT	p.P323A		NM_004420	NP_004411	Q13202	DUS8_HUMAN	dual specificity phosphatase 8	323	Tyrosine-protein phosphatase.|Pro-rich.				inactivation of MAPK activity	cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		all_epithelial(84;0.000134)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000621)|Lung(200;0.0687)|LUSC - Lung squamous cell carcinoma(625;0.0825)		CCGGCGGCAGGACTGGGCGGA	0.711													12	8	---	---	---	---	PASS	C	1578659	C	C	1578659	3	2	66	1	0	0	0	0	1	0	0	0	4831	1174	41	2	914	2	DUSP8	11	1578659	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	297364	1578659	133427857	404	26109										
OR51F2	119694	broad.mit.edu	37	chr11	4843409	4843409	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	catcagtgctgtttccatctTctacctccctctcatcagtt	4	15	5	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:4843409T>G	uc010qyn.1	+	1	794	c.794T>G	c.(793-795)TTC>TGC	p.F265C		NM_001004753	NP_001004753	Q8NH61	O51F2_HUMAN	olfactory receptor, family 51, subfamily F,	265	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		GTTTCCATCTTCTACCTCCCT	0.478													46	35	---	---	---	---	PASS	G	4843409	G	G	4843409	3	3	66	1	0	0	0	0	1	0	0	0	11097	1783	62	5	796	5	OR51F2	11	4843409	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	3264750	4843409	130163107	405	26110										
OR51T1	401665	broad.mit.edu	37	chr11	4903564	4903564	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acagacaggatggtcctggtGatagggctggtcatctgcat	14	8	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:4903564G>A	uc010qyp.1	+	1	516	c.516G>A	c.(514-516)GTG>GTA	p.V172V		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		TGGTCCTGGTGATAGGGCTGG	0.507													93	51	---	---	---	---	PASS	A	4903564	A	A	4903564	2	1	66	1	0	0	0	0	0	0	0	1	11106	1277	45	2		2	OR51T1	11	4903564	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	60155	4903564	130102952	406	26111										
OR51L1	119682	broad.mit.edu	37	chr11	5020636	5020636	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccaccatcctcaccaacagtGtaattggcaaaattggtttg	7	11	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:5020636G>T	uc010qyu.1	+	1	424	c.424G>T	c.(424-426)GTA>TTA	p.V142L		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		CACCAACAGTGTAATTGGCAA	0.493													126	65	---	---	---	---	PASS	T	5020636	T	T	5020636	3	4	66	1	0	0	0	0	1	0	0	0	11102	1377	48	3	426	3	OR51L1	11	5020636	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	117072	5020636	129985880	407	26112										
OR51M1	390059	broad.mit.edu	37	chr11	5411314	5411314	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctggtgctcatcgcactgtCctatggactcatcctgcaca	8	15	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:5411314C>A	uc010qzc.1	+	1	686	c.686C>A	c.(685-687)TCC>TAC	p.S229Y	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,	229						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)		ATCGCACTGTCCTATGGACTC	0.537													41	24	---	---	---	---	PASS	A	5411314	A	A	5411314	3	1	66	1	0	0	0	0	1	0	0	0	11103	855	30	2	688	2	OR51M1	11	5411314	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	390678	5411314	129595202	408	26113										
UBQLN3	50613	broad.mit.edu	37	chr11	5530345	5530345	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttggctggtcagggaagccAcgataggccaagcccagcct	13	13	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:5530345A>G	uc001may.1	-	2	530	c.444T>C	c.(442-444)CGT>CGC	p.R148R	HBG2_uc001mak.1_Intron	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	148										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAGGGAAGCCACGATAGGCCA	0.582													29	17	---	---	---	---	PASS	G	5530345	G	G	5530345	2	3	66	1	0	0	0	0	0	0	0	1	16895	146	6	5		5	UBQLN3	11	5530345	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	119031	5530345	129476171	409	26114										
UBQLNL	143630	broad.mit.edu	37	chr11	5537581	5537581	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agtcttcactatcactcgagTggcacttgaagagatatttt	8	8	3	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:5537581T>A	uc001maz.3	-	1	376	c.91A>T	c.(91-93)ACT>TCT	p.T31S	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	31	Ubiquitin-like.									large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		ATCACTCGAGTGGCACTTGAA	0.483													50	30	---	---	---	---	PASS	A	5537581	A	A	5537581	3	1	66	1	0	0	0	0	1	0	0	0	16897	1696	59	5	1340	5	UBQLNL	11	5537581	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	7236	5537581	129468935	410	26115										
OR10A6	390093	broad.mit.edu	37	chr11	7950101	7950101	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggcatttcctatcagggtcaCcagataaataaccaggaaag	9	9	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:7950101C>A	uc010rbh.1	-	1	109	c.109G>T	c.(109-111)GTG>TTG	p.V37L		NM_001004461	NP_001004461	Q8NH74	O10A6_HUMAN	olfactory receptor, family 10, subfamily A,	37	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2				Epithelial(150;1.38e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ATCAGGGTCACCAGATAAATA	0.458													55	44	---	---	---	---	PASS	A	7950101	A	A	7950101	3	1	66	1	0	0	0	0	1	0	0	0	10894	507	18	3	838	3	OR10A6	11	7950101	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2412520	7950101	127056415	411	26116										
C11orf16	56673	broad.mit.edu	37	chr11	8948685	8948685	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgggcctgcgacaagaggagCctcgaattccacaagcagga	13	11	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:8948685C>G	uc001mhb.3	-	4	485	c.361G>C	c.(361-363)GCT>CCT	p.A121P	C11orf16_uc001mhc.3_Missense_Mutation_p.A121P	NM_020643	NP_065694	Q9NQ32	CK016_HUMAN	hypothetical protein LOC56673	121										upper_aerodigestive_tract(1)|pancreas(1)	2				Epithelial(150;4.11e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0234)		ACAAGAGGAGCCTCGAATTCC	0.522													12	14	---	---	---	---	PASS	G	8948685	G	G	8948685	3	3	66	1	0	0	0	0	1	0	0	0	1631	739	26	4	1054	4	C11orf16	11	8948685	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	998584	8948685	126057831	412	26117										
GAS2	2620	broad.mit.edu	37	chr11	22747905	22747905	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctccttttttgccagagacaAtacagcaaatttcttatcct	4	11	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:22747905A>G	uc009yie.2	+	4	641	c.335A>G	c.(334-336)AAT>AGT	p.N112S	GAS2_uc001mqm.2_Missense_Mutation_p.N112S|GAS2_uc001mqn.2_RNA|GAS2_uc001mqo.2_Missense_Mutation_p.N112S	NM_001143830	NP_001137302	O43903	GAS2_HUMAN	growth arrest-specific 2	112	CH.				cell cycle arrest|cellular component disassembly involved in apoptosis|regulation of cell shape	actin filament|cytosol|membrane				ovary(1)|skin(1)	2						GCCAGAGACAATACAGCAAAT	0.398													46	36	---	---	---	---	PASS	G	22747905	G	G	22747905	3	3	66	1	0	0	0	0	1	0	0	0	6245	101	4	5	345	5	GAS2	11	22747905	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	13799220	22747905	112258611	413	26118										
GAS2	2620	broad.mit.edu	37	chr11	22770666	22770666	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gatccagggtctttttaaagGtatggtgtggagcctcctgg	14	7	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:22770666G>T	uc009yie.2	+	6	780	c.474G>T	c.(472-474)AGG>AGT	p.R158S	GAS2_uc001mqm.2_Missense_Mutation_p.R158S|GAS2_uc001mqn.2_RNA|GAS2_uc001mqo.2_Missense_Mutation_p.R158S	NM_001143830	NP_001137302	O43903	GAS2_HUMAN	growth arrest-specific 2	158					cell cycle arrest|cellular component disassembly involved in apoptosis|regulation of cell shape	actin filament|cytosol|membrane				ovary(1)|skin(1)	2						CTTTTTAAAGGTATGGTGTGG	0.383													21	16	---	---	---	---	PASS	T	22770666	T	T	22770666	3	4	66	1	0	0	0	0	1	0	0	0	6245	1275	44	3	492	3	GAS2	11	22770666	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	22761	22770666	112235850	414	26119										
LUZP2	338645	broad.mit.edu	37	chr11	25004678	25004678	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctctttttttgtaggagtcaCagatgaaagcaatgaaagag	10	5	2	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:25004678C>T	uc001mqs.2	+	9	838	c.604C>T	c.(604-606)CAG>TAG	p.Q202*	LUZP2_uc009yif.2_Nonsense_Mutation_p.Q116*|LUZP2_uc009yig.2_Nonsense_Mutation_p.Q160*	NM_001009909	NP_001009909	Q86TE4	LUZP2_HUMAN	leucine zipper protein 2 precursor	202	Potential.					extracellular region				ovary(1)|skin(1)	2						GTAGGAGTCACAGATGAAAGC	0.418													67	40	---	---	---	---	PASS	T	25004678	T	T	25004678	4	4	66	1	0	0	0	0	0	1	0	0	9087	479	17	3	638	3	LUZP2	11	25004678	Nonsense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2234012	25004678	110001838	415	26120										
ACCSL	390110	broad.mit.edu	37	chr11	44081390	44081390	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cccatttgaaccctctagctAtgcgtcggttctgtgatgtg	10	11	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:44081390A>G	uc001mxw.1	+	14	1683	c.1627A>G	c.(1627-1629)ATG>GTG	p.M543V	ACCSL_uc009ykr.2_Missense_Mutation_p.M362V	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	543							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						CCCTCTAGCTATGCGTCGGTT	0.512													218	147	---	---	---	---	PASS	G	44081390	G	G	44081390	3	3	66	1	0	0	0	0	1	0	0	0	134	449	16	5	1681	5	ACCSL	11	44081390	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	19076712	44081390	90925126	416	26121										
CD82	3732	broad.mit.edu	37	chr11	44639800	44639800	+	Missense_Mutation	SNP	G	T	T													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggtcacctacccctgttcctGcgaagtcaagggggaagagg							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:44639800G>T	uc001myc.2	+	8	775	c.527G>T	c.(526-528)TGC>TTC	p.C176F	CD82_uc001myd.2_Missense_Mutation_p.C151F	NM_002231	NP_002222	P27701	CD82_HUMAN	CD82 antigen isoform 1	176	Extracellular (Potential).					integral to plasma membrane	protein binding			ovary(1)	1						CCCTGTTCCTGCGAAGTCAAG	0.602													11	25	---	---	---	---	PASS	T	44639800	T	T	44639800	3	4	66	1	0	0	0	0	1	0	0	0	3040	1319	46	3	549	3	CD82	11	44639800	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	558410	44639800	90366716	417	26122	547	3								
CD82	3732	broad.mit.edu	37	chr11	44639801	44639801	+	Silent	SNP	C	T	T													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtcacctacccctgttcctgCgaagtcaagggggaagagga					rs139816598	byFrequency	TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:44639801C>T	uc001myc.2	+	8	776	c.528C>T	c.(526-528)TGC>TGT	p.C176C	CD82_uc001myd.2_Silent_p.C151C	NM_002231	NP_002222	P27701	CD82_HUMAN	CD82 antigen isoform 1	176	Extracellular (Potential).					integral to plasma membrane	protein binding			ovary(1)	1						CCTGTTCCTGCGAAGTCAAGG	0.607													11	25	---	---	---	---	PASS	T	44639801	T	T	44639801	2	4	66	1	0	0	0	0	0	0	0	1	3040	776	27	1		1	CD82	11	44639801	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	1	44639801	90366715	418	26123	547	3								
CD82	3732	broad.mit.edu	37	chr11	44639802	44639802	+	Nonsense_Mutation	SNP	G	T	T													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcacctacccctgttcctgcGaagtcaagggggaagaggac							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:44639802G>T	uc001myc.2	+	8	777	c.529G>T	c.(529-531)GAA>TAA	p.E177*	CD82_uc001myd.2_Nonsense_Mutation_p.E152*	NM_002231	NP_002222	P27701	CD82_HUMAN	CD82 antigen isoform 1	177	Extracellular (Potential).					integral to plasma membrane	protein binding			ovary(1)	1						CTGTTCCTGCGAAGTCAAGGG	0.607													14	25	---	---	---	---	PASS	T	44639802	T	T	44639802	4	4	66	1	0	0	0	0	0	1	0	0	3040	1059	37	2	551	2	CD82	11	44639802	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1	44639802	90366714	419	26124	547	3								
RAPSN	5913	broad.mit.edu	37	chr11	47463443	47463443	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gagcgcctgcagtggccggtCcccgtgctgcagcgcgatct	15	15	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:47463443C>T	uc001nfi.1	-	4	935	c.721G>A	c.(721-723)GAC>AAC	p.D241N	RAPSN_uc001nfj.1_Missense_Mutation_p.D241N|RAPSN_uc009yls.1_Missense_Mutation_p.D241N	NM_005055	NP_005046	Q13702	RAPSN_HUMAN	43 kD receptor-associated protein of the synapse	241					synaptic transmission, cholinergic	cell junction|cytoskeleton|postsynaptic membrane	acetylcholine receptor binding|zinc ion binding			ovary(1)	1						AGTGGCCGGTCCCCGTGCTGC	0.672													9	9	---	---	---	---	PASS	T	47463443	T	T	47463443	3	4	66	1	0	0	0	0	1	0	0	0	13051	855	30	2	537	2	RAPSN	11	47463443	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2823641	47463443	87543073	420	26125										
OR4C13	283092	broad.mit.edu	37	chr11	49974079	49974079	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttttctgtcatctacatcaaCgccatgataggaaatgtgct	7	9	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:49974079C>G	uc010rhz.1	+	1	105	c.105C>G	c.(103-105)AAC>AAG	p.N35K		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						TCTACATCAACGCCATGATAG	0.408													118	60	---	---	---	---	PASS	G	49974079	G	G	49974079	3	3	66	1	0	0	0	0	1	0	0	0	11047	535	19	4	107	4	OR4C13	11	49974079	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2510636	49974079	85032437	421	26126										
OR4S2	219431	broad.mit.edu	37	chr11	55418726	55418726	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gatcttcatccttactgtaaTggcctatgatcgttatgtgg	9	8	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:55418726T>A	uc001nhs.1	+	1	347	c.347T>A	c.(346-348)ATG>AAG	p.M116K		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				CTTACTGTAATGGCCTATGAT	0.423													105	27	---	---	---	---	PASS	A	55418726	A	A	55418726	3	1	66	1	0	0	0	0	1	0	0	0	11083	1464	51	5	349	5	OR4S2	11	55418726	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	5444647	55418726	79587790	422	26127										
OR5D14	219436	broad.mit.edu	37	chr11	55563067	55563067	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggaatctgagcatggagccCacctttgcccttttaggttt	10	10	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:55563067C>A	uc010rim.1	+	1	36	c.36C>A	c.(34-36)CCC>CCA	p.P12P		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	12	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				GCATGGAGCCCACCTTTGCCC	0.413													62	99	---	---	---	---	PASS	A	55563067	A	A	55563067	2	1	66	1	0	0	0	0	0	0	0	1	11155	581	21	3		3	OR5D14	11	55563067	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	144341	55563067	79443449	423	26128										
OR5D18	219438	broad.mit.edu	37	chr11	55587917	55587917	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctccaaaaactccaggcacaCagtcaaagtggcctctgtgt	8	13	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:55587917C>A	uc010rin.1	+	1	812	c.812C>A	c.(811-813)ACA>AAA	p.T271K		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	271	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				TCCAGGCACACAGTCAAAGTG	0.507													42	82	---	---	---	---	PASS	A	55587917	A	A	55587917	3	1	66	1	0	0	0	0	1	0	0	0	11157	478	17	3	814	3	OR5D18	11	55587917	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	24850	55587917	79418599	424	26129										
OR5D16	390144	broad.mit.edu	37	chr11	55606495	55606495	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgctggtgaacctggttgtaGaagatagaaccatttcattc	10	7	1	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:55606495G>T	uc010rio.1	+	1	268	c.268G>T	c.(268-270)GAA>TAA	p.E90*		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				CCTGGTTGTAGAAGATAGAAC	0.408													95	214	---	---	---	---	PASS	T	55606495	T	T	55606495	4	4	66	1	0	0	0	0	0	1	0	0	11156	943	33	2	270	2	OR5D16	11	55606495	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	18578	55606495	79400021	425	26130										
OR1S2	219958	broad.mit.edu	37	chr11	57971379	57971379	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaatattcaccagcattttgGggactgagttggaaatggag	13	5	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:57971379G>T	uc010rkb.1	-	1	275	c.275C>A	c.(274-276)CCC>CAC	p.P92H		NM_001004459	NP_001004459	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S,	92	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				CAGCATTTTGGGGACTGAGTT	0.418													55	136	---	---	---	---	PASS	T	57971379	T	T	57971379	3	4	66	1	0	0	0	0	1	0	0	0	10973	1232	43	3	705	3	OR1S2	11	57971379	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2364884	57971379	77035137	426	26131										
OR5B3	441608	broad.mit.edu	37	chr11	58170130	58170130	+	Frame_Shift_Del	DEL	C	-	-													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aagtacatgaagataatagtCccatagaagatgccgactgc							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:58170130delC	uc010rkf.1	-	1	753	c.753delG	c.(751-753)GGGfs	p.G251fs		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	251	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AGATAATAGTCCCATAGAAGA	0.448													93	47	---	---	---	---		-	58170130	-	-	58170130	7	5	66	1	0	1	0	1	0	0	0	0	11152	842	30	0	193	0	OR5B3	11	58170130	Frame_Shift_Del	DEL	C	TCGA-34-5231-01A-21D-1817-08	198751	58170130	76836386	427	26132										
OR4D10	390197	broad.mit.edu	37	chr11	59245336	59245336	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agaccattgcattgggctcaCagtggctgcctggttggggg	16	9	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:59245336C>T	uc001nnz.1	+	1	434	c.434C>T	c.(433-435)ACA>ATA	p.T145I		NM_001004705	NP_001004705	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						ATTGGGCTCACAGTGGCTGCC	0.517													55	106	---	---	---	---	PASS	T	59245336	T	T	59245336	3	4	66	1	0	0	0	0	1	0	0	0	11054	478	17	3	436	3	OR4D10	11	59245336	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1075206	59245336	75761180	428	26133										
MS4A3	932	broad.mit.edu	37	chr11	59828660	59828660	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcccacgaagttgataatgcAgagctggggtcagcctctgc	12	11	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:59828660A>T	uc001nom.2	+	2	155	c.27A>T	c.(25-27)GCA>GCT	p.A9A	MS4A3_uc001non.2_Silent_p.A9A|MS4A3_uc001noo.2_Intron	NM_006138	NP_006129	Q96HJ5	MS4A3_HUMAN	membrane-spanning 4-domains, subfamily A, member	9	Cytoplasmic (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm	protein binding|receptor activity			ovary(2)|skin(1)	3		all_epithelial(135;0.245)				TTGATAATGCAGAGCTGGGGT	0.493													63	72	---	---	---	---	PASS	T	59828660	T	T	59828660	2	4	66	1	0	0	0	0	0	0	0	1	9861	175	7	5		5	MS4A3	11	59828660	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	583324	59828660	75177856	429	26134										
MS4A2	2206	broad.mit.edu	37	chr11	59857232	59857232	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caggcagactattgaagtcgGcctcatccccaccactgcat	8	15	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:59857232G>A	uc001nop.2	+	2	226	c.124G>A	c.(124-126)GCC>ACC	p.A42T	MS4A2_uc009ymu.2_Missense_Mutation_p.A42T	NM_000139	NP_000130	Q01362	FCERB_HUMAN	membrane-spanning 4-domains, subfamily A, member	42	Cytoplasmic (Potential).				cell proliferation|humoral immune response	integral to plasma membrane	calcium channel activity			ovary(1)	1		all_epithelial(135;0.245)			Omalizumab(DB00043)	ATTGAAGTCGGCCTCATCCCC	0.458													68	59	---	---	---	---	PASS	A	59857232	A	A	59857232	3	1	66	1	0	0	0	0	1	0	0	0	9860	1203	42	3	130	3	MS4A2	11	59857232	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	28572	59857232	75149284	430	26135										
MS4A4A	51338	broad.mit.edu	37	chr11	60059718	60059718	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caccttttctgctgccatgaCaaccatgcaaggaatggaac	8	12	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:60059718C>A	uc001noz.2	+	2	72	c.62C>A	c.(61-63)ACA>AAA	p.T21K	MS4A4A_uc001npa.2_Missense_Mutation_p.T2K|MS4A4A_uc001npb.2_Missense_Mutation_p.T2K|MS4A4A_uc001npc.2_Missense_Mutation_p.T2K	NM_148975	NP_683876	Q96JQ5	M4A4A_HUMAN	membrane-spanning 4-domains, subfamily A, member	21	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						GCTGCCATGACAACCATGCAA	0.493													59	86	---	---	---	---	PASS	A	60059718	A	A	60059718	3	1	66	1	0	0	0	0	1	0	0	0	9862	478	17	3	68	3	MS4A4A	11	60059718	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	202486	60059718	74946798	431	26136										
BSCL2	26580	broad.mit.edu	37	chr11	62472874	62472874	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acccagagcaaaaggaggatGgtgcagaagagcaccccaaa	12	10	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:62472874G>A	uc001nuo.1	-	2	535	c.111C>T	c.(109-111)ACC>ACT	p.T37T	BSCL2_uc009yoc.1_Silent_p.T37T|BSCL2_uc001nup.2_Silent_p.T37T|BSCL2_uc001nuq.1_Silent_p.T37T|BSCL2_uc001nur.3_Silent_p.T101T|BSCL2_uc009yod.2_Silent_p.T101T|BSCL2_uc001nut.3_Silent_p.T101T|HNRNPUL2_uc001nuu.1_RNA|GNG3_uc001nuv.2_5'Flank	NM_032667	NP_116056	Q96G97	BSCL2_HUMAN	seipin isoform 2	37	Helical; (Potential).				cell death	integral to endoplasmic reticulum membrane					0						AAAGGAGGATGGTGCAGAAGA	0.572													30	61	---	---	---	---	PASS	A	62472874	A	A	62472874	2	1	66	1	0	0	0	0	0	0	0	1	1527	1335	47	3		3	BSCL2	11	62472874	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	2413156	62472874	72533642	432	26137										
EFEMP2	30008	broad.mit.edu	37	chr11	65635425	65635425	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtcgcctggatctggaacacGtcagcgggcacgctccgctc	13	15	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:65635425G>T	uc001ofy.3	-	10	1271	c.1077C>A	c.(1075-1077)GAC>GAA	p.D359E	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Missense_Mutation_p.D359E	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	359					blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		TCTGGAACACGTCAGCGGGCA	0.587													55	134	---	---	---	---	PASS	T	65635425	T	T	65635425	3	4	66	1	0	0	0	0	1	0	0	0	4942	1136	40	1	262	1	EFEMP2	11	65635425	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	3162551	65635425	69371091	433	26138										
EFEMP2	30008	broad.mit.edu	37	chr11	65635437	65635437	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tggaacacgtcagcgggcacGctccgctccgaggtgatggt	15	12	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:65635437G>C	uc001ofy.3	-	10	1259	c.1065C>G	c.(1063-1065)AGC>AGG	p.S355R	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Missense_Mutation_p.S355R	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	355				RSV -> AER (in Ref. 2; AAC62108).|S -> R (in Ref. 3; AAF65188).	blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		CAGCGGGCACGCTCCGCTCCG	0.602													86	81	---	---	---	---	PASS	C	65635437	C	C	65635437	3	2	66	1	0	0	0	0	1	0	0	0	4942	1078	38	4	274	4	EFEMP2	11	65635437	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	12	65635437	69371079	434	26139										
C11orf80	79703	broad.mit.edu	37	chr11	66568167	66568167	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctctccacagagatctttgGgtaagttcttaggtctatgg	10	9	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:66568167G>C	uc001ojf.2	+	7	780	c.773G>C	c.(772-774)GGG>GCG	p.G258A	C11orf80_uc001ojg.2_Missense_Mutation_p.G24A|C11orf80_uc001ojh.2_Missense_Mutation_p.G24A|C11orf80_uc001oji.2_Missense_Mutation_p.G24A|C11orf80_uc010rpk.1_Missense_Mutation_p.G92A	NM_024650	NP_078926	Q8N6T0	CK080_HUMAN	hypothetical protein LOC79703	103											0						GAGATCTTTGGGTAAGTTCTT	0.363													8	27	---	---	---	---	PASS	C	66568167	C	C	66568167	3	2	66	1	0	0	0	0	1	0	0	0	1664	1246	43	4	799	4	C11orf80	11	66568167	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	932730	66568167	68438349	435	26140										
PC	5091	broad.mit.edu	37	chr11	66618314	66618314	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtgtcgtgggtgtggatgtgCagtgggaggtcggggaagcg	23	4	0	0	rs61731787		TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:66618314C>A	uc001ojn.1	-	16	2353	c.2304G>T	c.(2302-2304)CTG>CTT	p.L768L	PC_uc001ojo.1_Silent_p.L768L|PC_uc001ojp.1_Silent_p.L768L|PC_uc001ojm.1_5'Flank	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	768	Carboxyltransferase.				gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	TGTGGATGTGCAGTGGGAGGT	0.662													20	61	---	---	---	---	PASS	A	66618314	A	A	66618314	2	1	66	1	0	0	0	0	0	0	0	1	11497	697	25	3		3	PC	11	66618314	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	50147	66618314	68388202	436	26141										
NDUFV1	4723	broad.mit.edu	37	chr11	67379393	67379393	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	catcgtgaaagccatcgcccGcctcattgagttctataagc	8	13	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:67379393G>A	uc001omj.2	+	8	1259	c.1106G>A	c.(1105-1107)CGC>CAC	p.R369H	NDUFV1_uc010rpv.1_Missense_Mutation_p.R268H|NDUFV1_uc001oml.2_Missense_Mutation_p.R362H|NDUFV1_uc001omk.3_Missense_Mutation_p.R360H|NDUFV1_uc009yrz.1_Silent_p.P228P|NDUFV1_uc010rpw.1_Missense_Mutation_p.R78H	NM_007103	NP_009034	P49821	NDUV1_HUMAN	NADH dehydrogenase ubiquinone flavoprotein 1	369					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|FMN binding|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity			skin(1)	1					NADH(DB00157)	GCCATCGCCCGCCTCATTGAG	0.617													49	104	---	---	---	---	PASS	A	67379393	A	A	67379393	3	1	66	1	0	0	0	0	1	0	0	0	10299	1087	38	1	1136	1	NDUFV1	11	67379393	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	761079	67379393	67627123	437	26142										
ACY3	91703	broad.mit.edu	37	chr11	67413302	67413302	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggccttgggccccagcagcTggttcagctctcgggctctt	13	14	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:67413302T>A	uc001omq.2	-	4	464	c.293A>T	c.(292-294)CAG>CTG	p.Q98L		NM_080658	NP_542389	Q96HD9	ACY3_HUMAN	aspartoacylase 3	98					interspecies interaction between organisms	apical plasma membrane|cytoplasm	hydrolase activity, acting on ester bonds|metal ion binding				0					L-Aspartic Acid(DB00128)	CCCCAGCAGCTGGTTCAGCTC	0.607													78	158	---	---	---	---	PASS	A	67413302	A	A	67413302	3	1	66	1	0	0	0	0	1	0	0	0	227	1580	55	5	686	5	ACY3	11	67413302	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	33909	67413302	67593214	438	26143										
NADSYN1	55191	broad.mit.edu	37	chr11	71209527	71209527	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggtttgatctgcgaccatttCtgtacaacacaagctggcct	9	11	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:71209527C>G	uc001oqn.2	+	20	2149	c.2023C>G	c.(2023-2025)CTG>GTG	p.L675V	NADSYN1_uc001oqo.2_Missense_Mutation_p.L415V|NADSYN1_uc001oqp.2_Missense_Mutation_p.L304V	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	675	Ligase (By similarity).				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GCGACCATTTCTGTACAACAC	0.478													34	141	---	---	---	---	PASS	G	71209527	G	G	71209527	3	3	66	1	0	0	0	0	1	0	0	0	10138	912	32	2	2101	2	NADSYN1	11	71209527	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3796225	71209527	63796989	439	26144										
RSF1	51773	broad.mit.edu	37	chr11	77386218	77386218	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcagtctacggctacaaaagTcagtgtcactgtcatcatta	7	10	6	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:77386218T>C	uc001oyn.2	-	14	3545	c.3425A>G	c.(3424-3426)GAC>GGC	p.D1142G	RSF1_uc001oym.2_Missense_Mutation_p.D890G	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	1142					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			GCTACAAAAGTCAGTGTCACT	0.453													43	49	---	---	---	---	PASS	C	77386218	C	C	77386218	3	2	66	1	0	0	0	0	1	0	0	0	13699	1667	58	5	912	5	RSF1	11	77386218	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	6176691	77386218	57620298	440	26145										
PICALM	8301	broad.mit.edu	37	chr11	85692259	85692259	+	Frame_Shift_Del	DEL	C	-	-													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttcttttcacctggttgactCcaatttacatcactttaaat							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:85692259delC	uc001pbm.2	-	17	1978	c.1692delG	c.(1690-1692)TGGfs	p.W564fs	PICALM_uc001pbl.2_Frame_Shift_Del_p.W514fs|PICALM_uc001pbn.2_Frame_Shift_Del_p.W557fs|PICALM_uc010rtl.1_Frame_Shift_Del_p.W463fs|PICALM_uc001pbk.2_RNA|PICALM_uc010rtk.1_Frame_Shift_Del_p.W141fs|PICALM_uc001pbo.1_Frame_Shift_Del_p.W196fs	NM_007166	NP_009097	Q13492	PICAL_HUMAN	phosphatidylinositol-binding clathrin assembly	564					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)				CTGGTTGACTCCAATTTACAT	0.343			T	MLLT10|MLL	TALL|AML|								40	27	---	---	---	---		-	85692259	-	-	85692259	7	5	66	1	0	1	0	1	0	0	0	0	11880	856	30	0	310	0	PICALM	11	85692259	Frame_Shift_Del	DEL	C	TCGA-34-5231-01A-21D-1817-08	8306041	85692259	49314257	441	26146										
FAT3	120114	broad.mit.edu	37	chr11	92568145	92568145	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctcagcgctgtggccactgtCaacatcaacctcacagatgt	8	14	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:92568145C>A	uc001pdj.3	+	14	9998	c.9981C>A	c.(9979-9981)GTC>GTA	p.V3327V		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3327	Cadherin 30.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TGGCCACTGTCAACATCAACC	0.507										TCGA Ovarian(4;0.039)			29	32	---	---	---	---	PASS	A	92568145	A	A	92568145	2	1	66	1	0	0	0	0	0	0	0	1	5691	813	29	2		2	FAT3	11	92568145	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	6875886	92568145	42438371	442	26147										
GUCY1A2	2977	broad.mit.edu	37	chr11	106810751	106810751	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccagagtggcctgttttccaAaagaagttctaatgtgttcc	9	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:106810751A>C	uc001pjg.1	-	4	1031	c.641T>G	c.(640-642)TTT>TGT	p.F214C	GUCY1A2_uc010rvo.1_Missense_Mutation_p.F214C|GUCY1A2_uc009yxn.1_Missense_Mutation_p.F214C	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	214					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CTGTTTTCCAAAAGAAGTTCT	0.463													78	111	---	---	---	---	PASS	C	106810751	C	C	106810751	3	2	66	1	0	0	0	0	1	0	0	0	6893	14	1	5	1577	5	GUCY1A2	11	106810751	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	14242606	106810751	28195765	443	26148										
PPP2R1B	5519	broad.mit.edu	37	chr11	111637063	111637063	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccgctgctcctgggccggtcCcgagctctgatgcgcccgcc	13	19	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:111637063C>A	uc001plx.1	-	1	107	c.23G>T	c.(22-24)GGG>GTG	p.G8V	PPP2R1B_uc001plw.1_Missense_Mutation_p.G8V|PPP2R1B_uc010rwi.1_Missense_Mutation_p.G8V|PPP2R1B_uc010rwj.1_5'UTR|PPP2R1B_uc010rwk.1_Missense_Mutation_p.G8V|PPP2R1B_uc010rwl.1_Missense_Mutation_p.G8V	NM_002716	NP_002707	P30154	2AAB_HUMAN	beta isoform of regulatory subunit A, protein	8			G -> R (in a lung cancer patient).				protein binding				0		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|Epithelial(105;2.36e-06)|all cancers(92;3.78e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0761)		TGGGCCGGTCCCGAGCTCTGA	0.507													19	17	---	---	---	---	PASS	A	111637063	A	A	111637063	3	1	66	1	0	0	0	0	1	0	0	0	12383	623	22	3	2065	3	PPP2R1B	11	111637063	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4826312	111637063	23369453	444	26149										
FAM55D	54827	broad.mit.edu	37	chr11	114453646	114453646	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttctgagttcagtctctgttAgtggctttaatgatatcagt	9	6	4	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:114453646A>T	uc001ppc.2	-	3	375	c.194T>A	c.(193-195)CTA>CAA	p.L65Q	FAM55D_uc001ppd.2_5'UTR	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	65						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		AGTCTCTGTTAGTGGCTTTAA	0.448													84	136	---	---	---	---	PASS	T	114453646	T	T	114453646	3	4	66	1	0	0	0	0	1	0	0	0	5587	420	15	5	1456	5	FAM55D	11	114453646	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	2816583	114453646	20552870	445	26150										
BCL9L	283149	broad.mit.edu	37	chr11	118774021	118774021	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gacgcccccgcccccgccccCgcccccaggggcatcaggcc	11	25	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:118774021C>A	uc001pug.2	-	4	1638	c.673G>T	c.(673-675)GGG>TGG	p.G225W	BCL9L_uc009zal.2_Missense_Mutation_p.G220W	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	225					negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		cccccgcccccgcccccAGGG	0.587													5	4	---	---	---	---	PASS	A	118774021	A	A	118774021	3	1	66	1	0	0	0	0	1	0	0	0	1382	652	23	1	3846	1	BCL9L	11	118774021	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4320375	118774021	16232495	446	26151										
PDZD3	79849	broad.mit.edu	37	chr11	119058019	119058019	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagcagccctcgggtgttgcTgacagtattggcacggcatg	14	11	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:119058019T>G	uc001pwb.2	+	3	1093	c.569T>G	c.(568-570)CTG>CGG	p.L190R	PDZD3_uc001pvy.2_Missense_Mutation_p.L124R|PDZD3_uc001pvz.2_Missense_Mutation_p.L124R|PDZD3_uc010rzd.1_Missense_Mutation_p.L111R|PDZD3_uc001pwa.2_5'UTR			Q86UT5	NHRF4_HUMAN	RecName: Full=Na(+)/H(+) exchange regulatory cofactor NHE-RF4;          Short=NHERF-4; AltName: Full=PDZ domain-containing protein 3; AltName: Full=PDZ domain-containing protein 2; AltName: Full=Intestinal and kidney-enriched PDZ protein; AltName: Full=Sodium-hydrogen exchanger regulatory factor 4;	190	PDZ 1.				cGMP-mediated signaling|ion transport|negative regulation of cGMP biosynthetic process|response to toxin|water transport	apical part of cell|brush border|cytosol|membrane fraction|subapical complex	guanylate cyclase inhibitor activity|ion channel inhibitor activity|protein C-terminus binding			breast(1)	1	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;7.52e-05)		CGGGTGTTGCTGACAGTATTG	0.672													8	10	---	---	---	---	PASS	G	119058019	G	G	119058019	3	3	66	1	0	0	0	0	1	0	0	0	11702	1580	55	5	389	5	PDZD3	11	119058019	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	283998	119058019	15948497	447	26152										
MFRP	83552	broad.mit.edu	37	chr11	119216232	119216232	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgatcttgagctgtattgcaTggtctgtggccacctggata	12	9	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:119216232T>A	uc001pwj.2	-	5	699	c.539A>T	c.(538-540)CAT>CTT	p.H180L	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Missense_Mutation_p.H180L	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		CTGTATTGCATGGTCTGTGGC	0.582													34	53	---	---	---	---	PASS	A	119216232	A	A	119216232	3	1	66	1	0	0	0	0	1	0	0	0	9526	1464	51	5	1236	5	MFRP	11	119216232	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	158213	119216232	15790284	448	26153										
OR6M1	390261	broad.mit.edu	37	chr11	123676282	123676282	+	Missense_Mutation	SNP	G	T	T													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccagtgaggagttctgattgGgtctcacatacacaaagatg							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:123676282G>T	uc010rzz.1	-	1	776	c.776C>A	c.(775-777)CCC>CAC	p.P259H		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	259	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		GTTCTGATTGGGTCTCACATA	0.512													13	47	---	---	---	---	PASS	T	123676282	T	T	123676282	3	4	66	1	0	0	0	0	1	0	0	0	11205	1232	43	3	168	3	OR6M1	11	123676282	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4460050	123676282	11330234	449	26154	548	2								
OR6M1	390261	broad.mit.edu	37	chr11	123676283	123676283	+	Missense_Mutation	SNP	G	T	T													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagtgaggagttctgattggGtctcacatacacaaagatgt							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:123676283G>T	uc010rzz.1	-	1	775	c.775C>A	c.(775-777)CCC>ACC	p.P259T		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	259	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		TTCTGATTGGGTCTCACATAC	0.512													13	45	---	---	---	---	PASS	T	123676283	T	T	123676283	3	4	66	1	0	0	0	0	1	0	0	0	11205	1261	44	3	169	3	OR6M1	11	123676283	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1	123676283	11330233	450	26155	548	2								
OR8D4	338662	broad.mit.edu	37	chr11	123777210	123777210	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	actgaacaagcagagcttcaGctgcccctcttctgcctctt	7	15	4	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:123777210G>T	uc010saa.1	+	1	72	c.72G>T	c.(70-72)CAG>CAT	p.Q24H		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		CAGAGCTTCAGCTGCCCCTCT	0.428													37	88	---	---	---	---	PASS	T	123777210	T	T	123777210	3	4	66	1	0	0	0	0	1	0	0	0	11233	962	34	3	74	3	OR8D4	11	123777210	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	100927	123777210	11229306	451	26156										
OR4D5	219875	broad.mit.edu	37	chr11	123810488	123810488	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtgacctccgacccacacctGcacacaaccatgtattttct	5	16	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:123810488G>T	uc001pzk.1	+	1	165	c.165G>T	c.(163-165)CTG>CTT	p.L55L		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		ACCCACACCTGCACACAACCA	0.448													76	95	---	---	---	---	PASS	T	123810488	T	T	123810488	2	4	66	1	0	0	0	0	0	0	0	1	11057	1306	46	3		3	OR4D5	11	123810488	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	33278	123810488	11196028	452	26157										
OR10G4	390264	broad.mit.edu	37	chr11	123887041	123887041	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcctttgcttctttgttcccTgtgttgtcatttatctgagg	8	9	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:123887041T>G	uc010sac.1	+	1	760	c.760T>G	c.(760-762)TGT>GGT	p.C254G		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		CTTTGTTCCCTGTGTTGTCAT	0.537													23	55	---	---	---	---	PASS	G	123887041	G	G	123887041	3	3	66	1	0	0	0	0	1	0	0	0	10901	1580	55	5	762	5	OR10G4	11	123887041	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	76553	123887041	11119475	453	26158										
OR8B4	283162	broad.mit.edu	37	chr11	124294301	124294301	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcatgcttccagtgtgggccAtggccccagcaaaccctacc	10	16	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:124294301A>T	uc010sak.1	-	1	467	c.467T>A	c.(466-468)ATG>AAG	p.M156K		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		AGTGTGGGCCATGGCCCCAGC	0.552													13	19	---	---	---	---	PASS	T	124294301	T	T	124294301	3	4	66	1	0	0	0	0	1	0	0	0	11229	217	8	5	464	5	OR8B4	11	124294301	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	407260	124294301	10712215	454	26159										
ETS1	2113	broad.mit.edu	37	chr11	128359270	128359270	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aagcagtctttacccagggcGcagagggctgctccattcat	11	12	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:128359270G>A	uc010sbs.1	-	3	634	c.318C>T	c.(316-318)TGC>TGT	p.C106C	ETS1_uc001qej.2_Silent_p.C150C|ETS1_uc009zch.2_Intron|ETS1_uc009zcg.2_Silent_p.C106C	NM_005238	NP_005229	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	106	PNT.				cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)		TACCCAGGGCGCAGAGGGCTG	0.493													90	96	---	---	---	---	PASS	A	128359270	A	A	128359270	2	1	66	1	0	0	0	0	0	0	0	1	5275	1079	38	1		1	ETS1	11	128359270	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	4064969	128359270	6647246	455	26160										
PRDM10	56980	broad.mit.edu	37	chr11	129784610	129784610	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acgcagtaccgaggccacttGaaccacttgcagctgtatgt	10	12	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:129784610G>A	uc001qfm.2	-	18	3074	c.2842C>T	c.(2842-2844)CAA>TAA	p.Q948*	PRDM10_uc001qfj.2_Nonsense_Mutation_p.Q862*|PRDM10_uc001qfk.2_Nonsense_Mutation_p.Q858*|PRDM10_uc001qfl.2_Nonsense_Mutation_p.Q862*|PRDM10_uc010sbx.1_Nonsense_Mutation_p.Q858*|PRDM10_uc001qfn.2_Nonsense_Mutation_p.Q944*|PRDM10_uc009zcs.1_Nonsense_Mutation_p.Q131*	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	948	Gln-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		GAGGCCACTTGAACCACTTGC	0.552													6	143	---	---	---	---	PASS	A	129784610	A	A	129784610	4	1	66	1	0	0	0	0	0	1	0	0	12451	1299	45	2	660	2	PRDM10	11	129784610	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1425340	129784610	5221906	456	26161										
IGSF9B	22997	broad.mit.edu	37	chr11	133792072	133792072	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccaggatctgagacacttacGgagactccaggctcttcctg	10	13	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr11:133792072G>A	uc001qgx.3	-	17	2558	c.2327C>T	c.(2326-2328)CCC>CTC	p.P776L		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	776	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		AGACACTTACGGAGACTCCAG	0.577													8	32	---	---	---	---	PASS	A	133792072	A	A	133792072	3	1	66	1	0	0	0	0	1	0	0	0	7606	1130	39	1	1734	1	IGSF9B	11	133792072	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4007462	133792072	1214444	457	26162										
IQSEC3	440073	broad.mit.edu	37	chr12	248089	248089	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagacggtccaggcccccgcAgagcccgcggcgggcaaggc	16	17	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:248089A>T	uc001qhw.1	+	1	657	c.651A>T	c.(649-651)GCA>GCT	p.A217A	IQSEC3_uc001qhu.1_Silent_p.A217A|IQSEC3_uc001qht.1_Silent_p.A302A|uc001qhv.1_Intron	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	520					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		AGGCCCCCGCAGAGCCCGCGG	0.716													8	19	---	---	---	---	PASS	T	248089	T	T	248089	2	4	66	1	0	0	0	0	0	0	0	1	7819	175	7	5		5	IQSEC3	12	248089	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08		248089	133603806	458	26163										
ITFG2	55846	broad.mit.edu	37	chr12	2930910	2930910	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcagacaagctgctgtggtcAgtgcaggtggatcaccagct	14	10	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:2930910A>C	uc001qlb.1	+	9	964	c.900A>C	c.(898-900)TCA>TCC	p.S300S	ITFG2_uc010seb.1_Silent_p.S123S|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	300											0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			TGCTGTGGTCAGTGCAGGTGG	0.567													87	112	---	---	---	---	PASS	C	2930910	C	C	2930910	2	2	66	1	0	0	0	0	0	0	0	1	7870	175	7	5		5	ITFG2	12	2930910	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	2682821	2930910	130920985	459	26164										
NTF3	4908	broad.mit.edu	37	chr12	5603648	5603648	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agccggtgattgcaatggacAccgaactgctgcgacaacag	12	11	0	1	rs145358554		TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:5603648A>G	uc001qnl.3	+	1	351	c.268A>G	c.(268-270)ACC>GCC	p.T90A	NTF3_uc001qnk.3_Missense_Mutation_p.T103A	NM_002527	NP_002518	P20783	NTF3_HUMAN	neurotrophin 3 isoform 2 preproprotein	90					signal transduction	extracellular region	growth factor activity|neurotrophin receptor binding			pancreas(1)	1						TGCAATGGACACCGAACTGCT	0.617													38	80	---	---	---	---	PASS	G	5603648	G	G	5603648	3	3	66	1	0	0	0	0	1	0	0	0	10696	159	6	5	313	5	NTF3	12	5603648	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	2672738	5603648	128248247	460	26165										
ANO2	57101	broad.mit.edu	37	chr12	5939612	5939612	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tttacttacaatgcggctgcGggtggcattatcaaagaagg	12	7	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:5939612G>T	uc001qnm.2	-	6	889	c.817C>A	c.(817-819)CGC>AGC	p.R273S		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	278	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						ATGCGGCTGCGGGTGGCATTA	0.493													17	30	---	---	---	---	PASS	T	5939612	T	T	5939612	3	4	66	1	0	0	0	0	1	0	0	0	697	1116	39	1	2263	1	ANO2	12	5939612	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	335964	5939612	127912283	461	26166										
A2ML1	144568	broad.mit.edu	37	chr12	9000180	9000180	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tccccctcccagcagcttccAggagcagaagtggagctgca	11	15	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:9000180A>G	uc001quz.3	+	15	1817	c.1719A>G	c.(1717-1719)CCA>CCG	p.P573P	A2ML1_uc001qva.1_Silent_p.P153P|A2ML1_uc010sgm.1_Silent_p.P73P	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	417						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						AGCAGCTTCCAGGAGCAGAAG	0.577													111	139	---	---	---	---	PASS	G	9000180	G	G	9000180	2	3	66	1	0	0	0	0	0	0	0	1	5	175	7	5		5	A2ML1	12	9000180	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	3060568	9000180	124851715	462	26167										
GRIN2B	2904	broad.mit.edu	37	chr12	13768452	13768452	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caatcataccattccaggttCcattgattttcttcccatgc	4	13	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:13768452C>T	uc001rbt.2	-	6	1654	c.1475G>A	c.(1474-1476)GGA>GAA	p.G492E		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	492	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ATTCCAGGTTCCATTGATTTT	0.373													92	191	---	---	---	---	PASS	T	13768452	T	T	13768452	3	4	66	1	0	0	0	0	1	0	0	0	6780	855	30	2	3011	2	GRIN2B	12	13768452	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4768272	13768452	120083443	463	26168										
ERP27	121506	broad.mit.edu	37	chr12	15073866	15073866	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaacaggaagtattgtttacCacagggttgtactctgtcac	10	8	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:15073866C>T	uc001rco.2	-	4	471	c.450G>A	c.(448-450)GTG>GTA	p.V150V		NM_152321	NP_689534	Q96DN0	ERP27_HUMAN	endoplasmic reticulum protein 27 kDa precursor	150	Thioredoxin.					endoplasmic reticulum lumen				breast(1)	1						TATTGTTTACCACAGGGTTGT	0.458													73	118	---	---	---	---	PASS	T	15073866	T	T	15073866	2	4	66	1	0	0	0	0	0	0	0	1	5241	608	21	3		3	ERP27	12	15073866	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	1305414	15073866	118778029	464	26169										
SLCO1B3	28234	broad.mit.edu	37	chr12	21008009	21008009	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tatattgctaaagcactaggTggaatcattatgaaaatttc	7	5	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:21008009T>A	uc001rek.2	+	3	258	c.132T>A	c.(130-132)GGT>GGA	p.G44G	SLCO1B3_uc001rel.2_Silent_p.G44G|SLCO1B3_uc010sil.1_Silent_p.G44G|LST-3TM12_uc010sim.1_Silent_p.G44G	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	44	Helical; Name=1; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					AAGCACTAGGTGGAATCATTA	0.318													26	41	---	---	---	---	PASS	A	21008009	A	A	21008009	2	1	66	1	0	0	0	0	0	0	0	1	14724	1683	59	5		5	SLCO1B3	12	21008009	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	5934143	21008009	112843886	465	26170										
LST-3TM12	338821	broad.mit.edu	37	chr12	21172204	21172204	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aatttgtttgtgattgtattTgtaagttactttggatctaa	8	2	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:21172204T>C	uc010sin.1	+	2	108	c.108T>C	c.(106-108)TTT>TTC	p.F36F	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Intron	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	36						membrane	transporter activity				0						TGATTGTATTTGTAAGTTACT	0.328													24	34	---	---	---	---	PASS	C	21172204	C	C	21172204	2	2	66	1	0	0	0	0	0	0	0	1	9066	1809	63	5		5	LST-3TM12	12	21172204	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	164195	21172204	112679691	466	26171										
LST-3TM12	338821	broad.mit.edu	37	chr12	21200140	21200140	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttggtctgcatctaagactaActttttgttgggtaagacat	9	6	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:21200140A>G	uc010sin.1	+	7	983	c.983A>G	c.(982-984)AAC>AGC	p.N328S	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Missense_Mutation_p.N375S	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	328						membrane	transporter activity				0						TCTAAGACTAACTTTTTGTTG	0.318													4	17	---	---	---	---	PASS	G	21200140	G	G	21200140	3	3	66	1	0	0	0	0	1	0	0	0	9066	43	2	5	1009	5	LST-3TM12	12	21200140	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	27936	21200140	112651755	467	26172										
OVCH1	341350	broad.mit.edu	37	chr12	29631788	29631788	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	taaaaagcactccactgcttGatcgtaaagatacatagtca	6	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:29631788G>C	uc001rix.1	-	9	1049	c.1049C>G	c.(1048-1050)TCA>TGA	p.S350*		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	350	CUB 1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					TCCACTGCTTGATCGTAAAGA	0.294													17	37	---	---	---	---	PASS	C	29631788	C	C	29631788	4	2	66	1	0	0	0	0	0	1	0	0	11323	1294	45	2	2435	2	OVCH1	12	29631788	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	8431648	29631788	104220107	468	26173										
DENND5B	160518	broad.mit.edu	37	chr12	31542367	31542367	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggttttgcaggatgatttctGaataaggacatcatcttcat	9	6	4	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:31542367G>T	uc001rki.1	-	20	3718	c.3532C>A	c.(3532-3534)CAG>AAG	p.Q1178K	DENND5B_uc001rkh.1_Missense_Mutation_p.Q1213K|DENND5B_uc009zjq.1_Intron	NM_144973	NP_659410	Q6ZUT9	DEN5B_HUMAN	DENN/MADD domain containing 5B	1178	RUN 2.					integral to membrane				ovary(1)|central_nervous_system(1)	2						GATGATTTCTGAATAAGGACA	0.368													11	22	---	---	---	---	PASS	T	31542367	T	T	31542367	3	4	66	1	0	0	0	0	1	0	0	0	4437	1299	45	2	300	2	DENND5B	12	31542367	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1910579	31542367	102309528	469	26174										
YARS2	51067	broad.mit.edu	37	chr12	32902909	32902909	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atggcatttgctttgcggcaAgtatctaggacacttgttcc	10	9	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:32902909A>G	uc001rli.2	-	4	1302	c.1236T>C	c.(1234-1236)ACT>ACC	p.T412T		NM_001040436	NP_001035526	Q9Y2Z4	SYYM_HUMAN	tyrosyl-tRNA synthetase 2, mitochondrial	412					tyrosyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|RNA binding|tyrosine-tRNA ligase activity				0	Lung NSC(5;2.43e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)				L-Tyrosine(DB00135)	CTTTGCGGCAAGTATCTAGGA	0.373													27	156	---	---	---	---	PASS	G	32902909	G	G	32902909	2	3	66	1	0	0	0	0	0	0	0	1	17465	59	3	5		5	YARS2	12	32902909	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	1360542	32902909	100948986	470	26175										
KIF21A	55605	broad.mit.edu	37	chr12	39695313	39695313	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaaaatgtgggtggaattaaCacatatggcattgataggac	11	4	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:39695313C>G	uc001rly.2	-	37	5046	c.4900G>C	c.(4900-4902)GTT>CTT	p.V1634L	KIF21A_uc001rlv.2_Missense_Mutation_p.V579L|KIF21A_uc001rlw.2_Missense_Mutation_p.V904L|KIF21A_uc001rlx.2_Missense_Mutation_p.V1621L|KIF21A_uc001rlz.2_Missense_Mutation_p.V1581L|KIF21A_uc010skl.1_Missense_Mutation_p.V1597L|KIF21A_uc001rlt.2_Missense_Mutation_p.V254L|KIF21A_uc001rlu.2_Missense_Mutation_p.V254L	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	1634	WD 7.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				GTGGAATTAACACATATGGCA	0.373													77	94	---	---	---	---	PASS	G	39695313	G	G	39695313	3	3	66	1	0	0	0	0	1	0	0	0	8288	478	17	4	132	4	KIF21A	12	39695313	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	6792404	39695313	94156582	471	26176										
KIF21A	55605	broad.mit.edu	37	chr12	39734805	39734805	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tactgctttttcagagtctgCagtcttttctggctgttttc	8	9	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:39734805C>A	uc001rly.2	-	15	2159	c.2013G>T	c.(2011-2013)CTG>CTT	p.L671L	KIF21A_uc001rlw.2_5'UTR|KIF21A_uc001rlx.2_Silent_p.L658L|KIF21A_uc001rlz.2_Silent_p.L658L|KIF21A_uc010skl.1_Silent_p.L658L	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	671					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TCAGAGTCTGCAGTCTTTTCT	0.368													23	35	---	---	---	---	PASS	A	39734805	A	A	39734805	2	1	66	1	0	0	0	0	0	0	0	1	8288	697	25	3		3	KIF21A	12	39734805	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	39492	39734805	94117090	472	26177										
C12orf40	283461	broad.mit.edu	37	chr12	40076501	40076501	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atgaaataagacagtcagacTacattactgaaaaacactca	5	8	2	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:40076501T>A	uc001rmc.2	+	8	942	c.775T>A	c.(775-777)TAC>AAC	p.Y259N	C12orf40_uc009zjv.1_RNA	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	259										ovary(6)	6						ACAGTCAGACTACATTACTGA	0.353													42	87	---	---	---	---	PASS	A	40076501	A	A	40076501	3	1	66	1	0	0	0	0	1	0	0	0	1686	1522	53	5	805	5	C12orf40	12	40076501	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	341696	40076501	93775394	473	26178										
PDZRN4	29951	broad.mit.edu	37	chr12	41966418	41966418	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcgtatctggtgaatacattGactcagactgcattggcaac	9	9	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:41966418G>C	uc010skn.1	+	10	1308	c.1240G>C	c.(1240-1242)GAC>CAC	p.D414H	PDZRN4_uc001rmq.3_Missense_Mutation_p.D355H|PDZRN4_uc009zjz.2_Missense_Mutation_p.D353H|PDZRN4_uc001rmr.2_Missense_Mutation_p.D240H	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	613							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				TGAATACATTGACTCAGACTG	0.468													37	65	---	---	---	---	PASS	C	41966418	C	C	41966418	3	2	66	1	0	0	0	0	1	0	0	0	11710	1290	45	2	1948	2	PDZRN4	12	41966418	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1889917	41966418	91885477	474	26179										
SFRS2IP	9169	broad.mit.edu	37	chr12	46321729	46321729	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atttctactagggaactctcTgttattttttcttcattaac	4	8	4	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:46321729T>C	uc001rox.2	-	11	2042	c.1755A>G	c.(1753-1755)ACA>ACG	p.T585T	SFRS2IP_uc001row.2_Silent_p.T270T|SFRS2IP_uc001roy.1_Silent_p.T659T	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	585					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		GGGAACTCTCTGTTATTTTTT	0.358													50	71	---	---	---	---	PASS	C	46321729	C	C	46321729	2	2	66	1	0	0	0	0	0	0	0	1	14177	1567	55	5		5	SFRS2IP	12	46321729	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	4355311	46321729	87530166	475	26180										
FAM113B	91523	broad.mit.edu	37	chr12	47629446	47629446	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtcaaagccaacttccacagCgccaccgaggcacgtaaaca	8	15	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:47629446C>T	uc001rpn.2	+	4	1331	c.600C>T	c.(598-600)AGC>AGT	p.S200S	FAM113B_uc010slj.1_Silent_p.S80S|FAM113B_uc001rpq.2_Silent_p.S200S	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	200							hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					ACTTCCACAGCGCCACCGAGG	0.582													11	21	---	---	---	---	PASS	T	47629446	T	T	47629446	2	4	66	1	0	0	0	0	0	0	0	1	5402	767	27	1		1	FAM113B	12	47629446	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	1307717	47629446	86222449	476	26181										
COL2A1	1280	broad.mit.edu	37	chr12	48369843	48369843	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgccagagggaccgacggggCcaggaggaccctgcaagaga	17	11	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:48369843C>A	uc001rqu.2	-	50	3681	c.3500G>T	c.(3499-3501)GGC>GTC	p.G1167V	COL2A1_uc001rqt.2_5'Flank|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.G1098V	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1167	Triple-helical region.		Missing (in SEDC).		axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	ACCGACGGGGCCAGGAGGACC	0.632													59	88	---	---	---	---	PASS	A	48369843	A	A	48369843	3	1	66	1	0	0	0	0	1	0	0	0	3687	739	26	3	983	3	COL2A1	12	48369843	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	740397	48369843	85482052	477	26182										
PFKM	5213	broad.mit.edu	37	chr12	48537939	48537939	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtgcttggtcacatgcagcAggtagggaagacaccgtagt	14	8	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:48537939A>T	uc001rrc.2	+	20	2161	c.1991A>T	c.(1990-1992)CAG>CTG	p.Q664L	PFKM_uc001rra.1_Missense_Mutation_p.Q349L|PFKM_uc001rrb.1_Missense_Mutation_p.Q735L|PFKM_uc001rrd.2_Missense_Mutation_p.Q349L|PFKM_uc001rre.1_Missense_Mutation_p.Q664L|PFKM_uc001rrg.1_Missense_Mutation_p.Q633L	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	664					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						CACATGCAGCAGGTAGGGAAG	0.517													44	67	---	---	---	---	PASS	T	48537939	T	T	48537939	3	4	66	1	0	0	0	0	1	0	0	0	11765	202	7	5	2286	5	PFKM	12	48537939	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	168096	48537939	85313956	478	26183										
CCNT1	904	broad.mit.edu	37	chr12	49110307	49110307	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cacaaggatacacgttaagaCgctgccccatgtcctgaagc	9	13	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:49110307C>T	uc001rse.1	-	1	475	c.152G>A	c.(151-153)CGT>CAT	p.R51H	CCNT1_uc009zkz.1_5'UTR	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	51					cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						CACGTTAAGACGCTGCCCCAT	0.587											OREG0021767	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	59	99	---	---	---	---	PASS	T	49110307	T	T	49110307	3	4	66	1	0	0	0	0	1	0	0	0	2934	536	19	1	2064	1	CCNT1	12	49110307	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	572368	49110307	84741588	479	26184										
MMP19	4327	broad.mit.edu	37	chr12	56235003	56235003	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gacctgagactggaagttcaGatgcttcctgaaaagctctg	11	9	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:56235003G>C	uc001sib.2	-	3	312	c.191C>G	c.(190-192)TCT>TGT	p.S64C	MMP19_uc001sia.2_5'Flank|MMP19_uc001sid.2_Intron|MMP19_uc010spw.1_Missense_Mutation_p.S64C	NM_002429	NP_002420	Q99542	MMP19_HUMAN	matrix metalloproteinase 19 isoform rasi-1	64					angiogenesis|cell differentiation|collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)	1						TGGAAGTTCAGATGCTTCCTG	0.522													53	73	---	---	---	---	PASS	C	56235003	C	C	56235003	3	2	66	1	0	0	0	0	1	0	0	0	9657	942	33	2	1363	2	MMP19	12	56235003	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	7124696	56235003	77616892	480	26185										
KIF5A	3798	broad.mit.edu	37	chr12	57966387	57966387	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccatgctgtccctggagtctGagttgcagcggctacaggag	14	11	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:57966387G>C	uc001sor.1	+	15	1802	c.1594G>C	c.(1594-1596)GAG>CAG	p.E532Q	KIF5A_uc010srr.1_Missense_Mutation_p.E443Q	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	532					blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						CCTGGAGTCTGAGTTGCAGCG	0.592													39	76	---	---	---	---	PASS	C	57966387	C	C	57966387	3	2	66	1	0	0	0	0	1	0	0	0	8305	1291	45	2	1652	2	KIF5A	12	57966387	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1731384	57966387	75885508	481	26186										
LRIG3	121227	broad.mit.edu	37	chr12	59276650	59276650	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aagggcaatacttatactcaCcacacacaaagccatctggg	7	12	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:59276650C>A	uc001sqr.2	-	12	1726	c.1480_splice	c.e12+1	p.D494_splice	LRIG3_uc009zqh.2_Splice_Site_p.D434_splice|LRIG3_uc010ssh.1_Splice_Site	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like							integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			CTTATACTCACCACACACAAA	0.368													24	41	---	---	---	---	PASS	A	59276650	A	A	59276650	5	1	66	1	0	0	0	0	0	0	1	0	8946	521	18	3	1910	3	LRIG3	12	59276650	Splice_Site	SNP	C	TCGA-34-5231-01A-21D-1817-08	1310263	59276650	74575245	482	26187										
AVPR1A	552	broad.mit.edu	37	chr12	63544586	63544586	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgggctggagttgcccgaggGccccgcgtcgggaccggcgg	20	13	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:63544586G>T	uc001sro.1	-	1	2005	c.31C>A	c.(31-33)CCC>ACC	p.P11T		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	11	Extracellular (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	TTGCCCGAGGGCCCCGCGTCG	0.731													21	24	---	---	---	---	PASS	T	63544586	T	T	63544586	3	4	66	1	0	0	0	0	1	0	0	0	1231	1203	42	3	1233	3	AVPR1A	12	63544586	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4267936	63544586	70307309	483	26188										
FRS2	10818	broad.mit.edu	37	chr12	69968729	69968729	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cacaatagtactgatctgccCatgtgagcctggaaagcatt	9	10	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:69968729C>T	uc001suy.2	+	10	2031	c.1521C>T	c.(1519-1521)CCC>CCT	p.P507P	FRS2_uc001suz.2_Silent_p.P507P|FRS2_uc009zrj.2_Silent_p.P507P|FRS2_uc009zrk.2_Silent_p.P507P	NM_006654	NP_006645	Q8WU20	FRS2_HUMAN	fibroblast growth factor receptor substrate 2	507					activation of MAPKK activity|activation of phospholipase C activity|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|transmembrane receptor protein tyrosine phosphatase signaling pathway	endomembrane system|endosome|integral to plasma membrane|membrane fraction	fibroblast growth factor receptor binding|insulin receptor binding|phosphatase activator activity|transmembrane receptor protein tyrosine kinase adaptor activity			prostate(1)|kidney(1)	2	Breast(13;2.15e-06)|Esophageal squamous(21;0.187)		Epithelial(6;2.94e-18)|Lung(24;9.68e-05)|OV - Ovarian serous cystadenocarcinoma(12;0.000984)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			CTGATCTGCCCATGTGAGCCT	0.388													35	68	---	---	---	---	PASS	T	69968729	T	T	69968729	2	4	66	1	0	0	0	0	0	0	0	1	6061	581	21	3		3	FRS2	12	69968729	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	6424143	69968729	63883166	484	26189										
NAV3	89795	broad.mit.edu	37	chr12	78513299	78513299	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cattggcgggaagtcaaatgCagggagaaaaaccagtttgg	14	6	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:78513299C>A	uc001syp.2	+	15	3496	c.3323C>A	c.(3322-3324)GCA>GAA	p.A1108E	NAV3_uc001syo.2_Missense_Mutation_p.A1108E|NAV3_uc010sub.1_Missense_Mutation_p.A608E|NAV3_uc009zsf.2_Missense_Mutation_p.A116E	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1108	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AAGTCAAATGCAGGGAGAAAA	0.488										HNSCC(70;0.22)			34	64	---	---	---	---	PASS	A	78513299	A	A	78513299	3	1	66	1	0	0	0	0	1	0	0	0	10185	710	25	3	3381	3	NAV3	12	78513299	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	8544570	78513299	55338596	485	26190										
NAV3	89795	broad.mit.edu	37	chr12	78520960	78520960	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttaacagcatgcagcttgacAgaaatacactacccaaaaag	6	10	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:78520960A>G	uc001syp.2	+	17	4425	c.4252A>G	c.(4252-4254)AGA>GGA	p.R1418G	NAV3_uc001syo.2_Missense_Mutation_p.R1418G|NAV3_uc010sub.1_Intron|NAV3_uc009zsf.2_Intron	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1418	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GCAGCTTGACAGAAATACACT	0.363										HNSCC(70;0.22)			34	43	---	---	---	---	PASS	G	78520960	G	G	78520960	3	3	66	1	0	0	0	0	1	0	0	0	10185	180	7	5	4318	5	NAV3	12	78520960	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	7661	78520960	55330935	486	26191										
NAV3	89795	broad.mit.edu	37	chr12	78582544	78582544	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggagataataacatcatcacTgtgaacctcaaaggtaaaag	8	7	3	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:78582544T>A	uc001syp.2	+	33	6215	c.6042T>A	c.(6040-6042)ACT>ACA	p.T2014T	NAV3_uc001syo.2_Silent_p.T1992T|NAV3_uc010sub.1_Silent_p.T1471T|NAV3_uc009zsf.2_Silent_p.T823T	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2014						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						ACATCATCACTGTGAACCTCA	0.398										HNSCC(70;0.22)			40	60	---	---	---	---	PASS	A	78582544	A	A	78582544	2	1	66	1	0	0	0	0	0	0	0	1	10185	1567	55	5		5	NAV3	12	78582544	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	61584	78582544	55269351	487	26192										
PPFIA2	8499	broad.mit.edu	37	chr12	81741318	81741318	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acacatcaccataccagtgtCatgactcccatccgatccat	4	16	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:81741318C>A	uc001szo.1	-	18	2387	c.2226G>T	c.(2224-2226)ATG>ATT	p.M742I	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_Intron	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	668										ovary(3)|lung(2)|pancreas(1)	6						ATACCAGTGTCATGACTCCCA	0.418													87	113	---	---	---	---	PASS	A	81741318	A	A	81741318	3	1	66	1	0	0	0	0	1	0	0	0	12310	826	29	2	1607	2	PPFIA2	12	81741318	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3158774	81741318	52110577	488	26193										
CEP290	80184	broad.mit.edu	37	chr12	88482973	88482973	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	attttgtagttgaatcattgTtttggagaacttttcctgtt	8	4	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:88482973T>C	uc001tar.2	-	31	4209	c.3865A>G	c.(3865-3867)ACA>GCA	p.T1289A	CEP290_uc001taq.2_Missense_Mutation_p.T349A	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1289	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						TGAATCATTGTTTTGGAGAAC	0.368													20	30	---	---	---	---	PASS	C	88482973	C	C	88482973	3	2	66	1	0	0	0	0	1	0	0	0	3253	1725	60	5	3670	5	CEP290	12	88482973	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	6741655	88482973	45368922	489	26194										
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100453045	100453045	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtaatatttcctttataaatTtcatgcattttggtatcttg	5	5	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:100453045T>G	uc001tgq.2	-	14	2239	c.2010A>C	c.(2008-2010)GAA>GAC	p.E670D	UHRF1BP1L_uc001tgp.2_Missense_Mutation_p.E320D	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	670										ovary(2)	2						CTTTATAAATTTCATGCATTT	0.343													36	78	---	---	---	---	PASS	G	100453045	G	G	100453045	3	3	66	1	0	0	0	0	1	0	0	0	16966	1838	64	5	2416	5	UHRF1BP1L	12	100453045	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	11970072	100453045	33398850	490	26195										
SLC17A8	246213	broad.mit.edu	37	chr12	100811884	100811884	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tctcaaacggagtgggaaccCtctctggaatggtctgtccc	11	12	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:100811884C>A	uc010svi.1	+	11	1688	c.1375C>A	c.(1375-1377)CTC>ATC	p.L459I	SLC17A8_uc009ztx.2_Missense_Mutation_p.L409I	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	459	Helical; (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						AGTGGGAACCCTCTCTGGAAT	0.502													75	127	---	---	---	---	PASS	A	100811884	A	A	100811884	3	1	66	1	0	0	0	0	1	0	0	0	14423	681	24	3	1417	3	SLC17A8	12	100811884	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	358839	100811884	33040011	491	26196										
SLC5A8	160728	broad.mit.edu	37	chr12	101555755	101555755	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aatgtttagatagttacctgTtgataaactgacaagtatcc	7	6	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:101555755T>A	uc001thz.3	-	13	2017	c.1627A>T	c.(1627-1629)ACA>TCA	p.T543S		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	543	Cytoplasmic (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						TAGTTACCTGTTGATAAACTG	0.308													99	199	---	---	---	---	PASS	A	101555755	A	A	101555755	3	1	66	1	0	0	0	0	1	0	0	0	14671	1725	60	5	217	5	SLC5A8	12	101555755	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	743871	101555755	32296140	492	26197										
KIAA1033	23325	broad.mit.edu	37	chr12	105558084	105558084	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcgactggatgtctatctacAggtagagaggagcctaagag	14	7	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:105558084A>T	uc001tld.2	+	31	3440	c.3353A>T	c.(3352-3354)CAG>CTG	p.Q1118L	KIAA1033_uc010swr.1_Missense_Mutation_p.Q1119L|KIAA1033_uc010sws.1_Missense_Mutation_p.Q930L	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	1118					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						GTCTATCTACAGGTAGAGAGG	0.403													30	57	---	---	---	---	PASS	T	105558084	T	T	105558084	3	4	66	1	0	0	0	0	1	0	0	0	8206	202	7	5	3475	5	KIAA1033	12	105558084	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	4002329	105558084	28293811	493	26198										
ACACB	32	broad.mit.edu	37	chr12	109577292	109577292	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaatctgggggaaaatgacgGactccaagccgatcaccaag	11	10	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:109577292G>T	uc001tob.2	+	2	201	c.82G>T	c.(82-84)GAC>TAC	p.D28Y	ACACB_uc001toc.2_Missense_Mutation_p.D28Y	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	28					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GAAAATGACGGACTCCAAGCC	0.468													50	81	---	---	---	---	PASS	T	109577292	T	T	109577292	3	4	66	1	0	0	0	0	1	0	0	0	107	1174	41	2	84	2	ACACB	12	109577292	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4019208	109577292	24274603	494	26199										
NAA25	80018	broad.mit.edu	37	chr12	112499079	112499079	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tggtacaagccaagtaacctCgtcagctgcaccacacacaa	7	14	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:112499079C>T	uc001ttm.2	-	12	1283	c.1263G>A	c.(1261-1263)ACG>ACA	p.T421T	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Silent_p.T393T|NAA25_uc009zwa.1_Silent_p.T421T	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	421						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						CAAGTAACCTCGTCAGCTGCA	0.468													21	54	---	---	---	---	PASS	T	112499079	T	T	112499079	2	4	66	1	0	0	0	0	0	0	0	1	10121	871	31	2		2	NAA25	12	112499079	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	2921787	112499079	21352816	495	26200										
C12orf51	283450	broad.mit.edu	37	chr12	112622317	112622317	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctggctggtggaggcggaggCgctgatgctcatggcggggg	22	8	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:112622317C>G	uc009zwc.2	-	54	9205	c.9187G>C	c.(9187-9189)GCC>CCC	p.A3063P		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						GAGGCGGAGGCGCTGATGCTC	0.662													9	13	---	---	---	---	PASS	G	112622317	G	G	112622317	3	3	66	1	0	0	0	0	1	0	0	0	1696	768	27	4	2867	4	C12orf51	12	112622317	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	123238	112622317	21229578	496	26201										
CIT	11113	broad.mit.edu	37	chr12	120135581	120135581	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acgccaagtaaatcgctcctGaggaaatggcagggcccagg	13	11	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:120135581G>C	uc001txi.1	-	45	5692	c.5639C>G	c.(5638-5640)TCA>TGA	p.S1880*	CIT_uc001txh.1_Nonsense_Mutation_p.S1399*|CIT_uc001txj.1_Nonsense_Mutation_p.S1922*	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1880	CNH.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		AATCGCTCCTGAGGAAATGGC	0.577													73	115	---	---	---	---	PASS	C	120135581	C	C	120135581	4	2	66	1	0	0	0	0	0	1	0	0	3438	1294	45	2	456	2	CIT	12	120135581	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	7513264	120135581	13716314	497	26202										
RSRC2	65117	broad.mit.edu	37	chr12	122995669	122995669	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaattacctgcagctatttcTtgttgtttttgtttttcaac	5	7	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:122995669T>C	uc001ucr.2	-	7	938	c.792A>G	c.(790-792)CAA>CAG	p.Q264Q	RSRC2_uc001uco.2_Silent_p.Q32Q|RSRC2_uc001ucp.2_Silent_p.Q205Q|RSRC2_uc001ucq.2_Silent_p.Q32Q|RSRC2_uc001ucs.2_Silent_p.Q32Q|RSRC2_uc001uct.2_Silent_p.Q216Q|RSRC2_uc001ucu.2_Silent_p.Q264Q	NM_023012	NP_075388	Q7L4I2	RSRC2_HUMAN	arginine/serine-rich coiled-coil 2 isoform a	264	Potential.									ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.14e-05)|Epithelial(86;0.000183)|BRCA - Breast invasive adenocarcinoma(302;0.201)		CAGCTATTTCTTGTTGTTTTT	0.249													22	19	---	---	---	---	PASS	C	122995669	C	C	122995669	2	2	66	1	0	0	0	0	0	0	0	1	13715	1606	56	5		5	RSRC2	12	122995669	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	2860088	122995669	10856226	498	26203										
ZNF664	144348	broad.mit.edu	37	chr12	124497330	124497330	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccttcagtcagagttcgagCctgtgcatccaccagagagt	11	12	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:124497330C>A	uc001ufz.2	+	6	2469	c.639C>A	c.(637-639)AGC>AGA	p.S213R	ZNF664_uc001uga.2_Missense_Mutation_p.S213R|ZNF664_uc001ugb.2_Missense_Mutation_p.S213R	NM_152437	NP_689650	Q8N3J9	ZN664_HUMAN	zinc finger protein 664	213	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.000239)|OV - Ovarian serous cystadenocarcinoma(86;0.000247)|all cancers(50;0.00155)|BRCA - Breast invasive adenocarcinoma(302;0.249)		AGAGTTCGAGCCTGTGCATCC	0.522													22	137	---	---	---	---	PASS	A	124497330	A	A	124497330	3	1	66	1	0	0	0	0	1	0	0	0	18069	738	26	3	641	3	ZNF664	12	124497330	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1501661	124497330	9354565	499	26204										
POLE	5426	broad.mit.edu	37	chr12	133210913	133210913	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cccatctctttcctcctcatCgtcctcattttcctgctcat	2	18	4	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr12:133210913C>T	uc001uks.1	-	43	5907	c.5863G>A	c.(5863-5865)GAT>AAT	p.D1955N	POLE_uc001ukq.1_Missense_Mutation_p.D165N|POLE_uc001ukr.1_Missense_Mutation_p.D759N|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1955					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		tcctcctcatcgtcctcattt	0.333								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					31	51	---	---	---	---	PASS	T	133210913	T	T	133210913	3	4	66	1	0	0	0	0	1	0	0	0	12196	884	31	2	1025	2	POLE	12	133210913	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	8713583	133210913	640982	500	26205										
TUBA3C	7278	broad.mit.edu	37	chr13	19748255	19748255	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcccgctgcaccttggccagGtctcccccagggaccaccgt	11	19	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:19748255G>T	uc009zzj.2	-	5	1150	c.1101C>A	c.(1099-1101)GAC>GAA	p.D367E		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	367					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		CCTTGGCCAGGTCTCCCCCAG	0.582													16	44	---	---	---	---	PASS	T	19748255	T	T	19748255	3	4	66	1	0	0	0	0	1	0	0	0	16743	1252	44	3	255	3	TUBA3C	13	19748255	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08		19748255	95421623	501	26206										
EFHA1	221154	broad.mit.edu	37	chr13	22084201	22084201	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttttccaaagaaacgcatctGaagagttgtgttaatttcag	8	6	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:22084201G>A	uc001uof.2	-	8	725	c.703C>T	c.(703-705)CAG>TAG	p.Q235*	EFHA1_uc010tct.1_Nonsense_Mutation_p.Q25*	NM_152726	NP_689939	Q8IYU8	EFHA1_HUMAN	EF-hand domain family, member A1	235	EF-hand 2.						calcium ion binding				0		all_cancers(29;1.24e-15)|all_epithelial(30;5.4e-14)|all_lung(29;2.04e-13)|Lung SC(185;0.0367)		all cancers(112;0.000171)|Epithelial(112;0.000398)|OV - Ovarian serous cystadenocarcinoma(117;0.00641)|Lung(94;0.189)		AAACGCATCTGAAGAGTTGTG	0.234													24	52	---	---	---	---	PASS	A	22084201	A	A	22084201	4	1	66	1	0	0	0	0	0	1	0	0	4943	1299	45	2	621	2	EFHA1	13	22084201	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2335946	22084201	93085677	502	26207										
ATP8A2	51761	broad.mit.edu	37	chr13	26156084	26156084	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggagacaaacaagaaactgCgattaatataggtaattatt	8	4	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:26156084C>G	uc001uqk.2	+	23	2277	c.2135C>G	c.(2134-2136)GCG>GGG	p.A712G	ATP8A2_uc010tdi.1_Missense_Mutation_p.A672G|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.A222G	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	672	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		CAAGAAACTGCGATTAATATA	0.328													9	38	---	---	---	---	PASS	G	26156084	G	G	26156084	3	3	66	1	0	0	0	0	1	0	0	0	1193	768	27	4	2225	4	ATP8A2	13	26156084	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4071883	26156084	89013794	503	26208										
CDX2	1045	broad.mit.edu	37	chr13	28537332	28537332	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccaggcactgaggcttgcaGggaagacaccggactcaagg	15	11	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:28537332G>C	uc001urv.2	-	3	1036	c.862C>G	c.(862-864)CTG>GTG	p.L288V		NM_001265	NP_001256	Q99626	CDX2_HUMAN	caudal type homeobox 2	288					organ morphogenesis|transcription from RNA polymerase II promoter		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(110;0.191)|all_hematologic(3;0.0447)|Acute lymphoblastic leukemia(6;0.155)	Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0407)|all cancers(112;0.0491)|OV - Ovarian serous cystadenocarcinoma(117;0.199)		GAGGCTTGCAGGGAAGACACC	0.647			T	ETV6	AML								12	41	---	---	---	---	PASS	C	28537332	C	C	28537332	3	2	66	1	0	0	0	0	1	0	0	0	3183	991	35	4	83	4	CDX2	13	28537332	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2381248	28537332	86632546	504	26209										
FLT3	2322	broad.mit.edu	37	chr13	28611325	28611325	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcggcaatttaacttacttcTtatattcagcgtgaacattt	5	8	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:28611325T>C	uc001urw.2	-	10	1388	c.1306A>G	c.(1306-1308)AGA>GGA	p.R436G	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Missense_Mutation_p.R436G	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	436	Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	AACTTACTTCTTATATTCAGC	0.308			Mis|O		AML|ALL								17	49	---	---	---	---	PASS	C	28611325	C	C	28611325	3	2	66	1	0	0	0	0	1	0	0	0	5942	1617	56	5	1735	5	FLT3	13	28611325	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	73993	28611325	86558553	505	26210										
BRCA2	675	broad.mit.edu	37	chr13	32911598	32911598	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgttcttcaaagatattgaaGaacaatatcctactagttta	5	6	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:32911598G>A	uc001uub.1	+	11	3333	c.3106G>A	c.(3106-3108)GAA>AAA	p.E1036K		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1036	BRCA2 1.		E -> K (in BC; unknown pathological significance).		cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AGATATTGAAGAACAATATCC	0.333			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			17	30	---	---	---	---	PASS	A	32911598	A	A	32911598	3	1	66	1	0	0	0	0	1	0	0	0	1499	943	33	2	3144	2	BRCA2	13	32911598	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4300273	32911598	82258280	506	26211										
POSTN	10631	broad.mit.edu	37	chr13	38143436	38143436	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agttgttgtccttttactaaCctccctgaagcagtctttta	6	10	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:38143436C>T	uc001uwo.3	-	21	2549	c.2431_splice	c.e21+1	p.D811_splice	POSTN_uc010tet.1_Splice_Site_p.D312_splice|POSTN_uc001uwp.3_Splice_Site_p.D754_splice|POSTN_uc001uwr.2_Intron|POSTN_uc001uwq.2_Intron|POSTN_uc010teu.1_Splice_Site_p.D784_splice|POSTN_uc010tev.1_Splice_Site_p.D724_splice|POSTN_uc010tew.1_Intron	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1						cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		CTTTTACTAACCTCCCTGAAG	0.373													10	31	---	---	---	---	PASS	T	38143436	T	T	38143436	5	4	66	1	0	0	0	0	0	0	1	0	12259	521	18	3	90	3	POSTN	13	38143436	Splice_Site	SNP	C	TCGA-34-5231-01A-21D-1817-08	5231838	38143436	77026442	507	26212										
TRPC4	7223	broad.mit.edu	37	chr13	38237720	38237720	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggagcattcttcccagagaTatttgcagaggtcccaggtg	12	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:38237720T>C	uc001uws.2	-	6	1756	c.1521A>G	c.(1519-1521)ATA>ATG	p.I507M	TRPC4_uc010abv.2_Missense_Mutation_p.I87M|TRPC4_uc001uwt.2_Missense_Mutation_p.I507M|TRPC4_uc010tey.1_Missense_Mutation_p.I507M|TRPC4_uc010abw.2_Missense_Mutation_p.I334M|TRPC4_uc010abx.2_Missense_Mutation_p.I507M|TRPC4_uc010aby.2_Missense_Mutation_p.I507M	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	507	Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		TTCCCAGAGATATTTGCAGAG	0.408													17	41	---	---	---	---	PASS	C	38237720	C	C	38237720	3	2	66	1	0	0	0	0	1	0	0	0	16577	1396	49	5	1451	5	TRPC4	13	38237720	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	94284	38237720	76932158	508	26213										
FREM2	341640	broad.mit.edu	37	chr13	39450500	39450500	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agaacctgtcacctttgaccTtgacatccgattccaacagg	7	13	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:39450500T>A	uc001uwv.2	+	20	8834	c.8525T>A	c.(8524-8526)CTT>CAT	p.L2842H		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2842	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		ACCTTTGACCTTGACATCCGA	0.438													12	47	---	---	---	---	PASS	A	39450500	A	A	39450500	3	1	66	1	0	0	0	0	1	0	0	0	6045	1609	56	5	8603	5	FREM2	13	39450500	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	1212780	39450500	75719378	509	26214										
OLFM4	10562	broad.mit.edu	37	chr13	53616220	53616220	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acagctgaaggagagttttgGtggaagctcagaaattgttg	14	4	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:53616220G>T	uc001vhl.2	+	3	533	c.533G>T	c.(532-534)GGT>GTT	p.G178V	OLFM4_uc001vhk.1_Intron	NM_006418	NP_006409	Q6UX06	OLFM4_HUMAN	olfactomedin 4 precursor	178	Potential.				cell adhesion	extracellular space				skin(1)	1		Breast(56;0.000776)|Lung NSC(96;0.000814)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.13e-08)		GAGAGTTTTGGTGGAAGCTCA	0.428													8	26	---	---	---	---	PASS	T	53616220	T	T	53616220	3	4	66	1	0	0	0	0	1	0	0	0	10855	1261	44	3	543	3	OLFM4	13	53616220	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	14165720	53616220	61553658	510	26215										
PCDH17	27253	broad.mit.edu	37	chr13	58207244	58207244	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gacgttaagtcccgcggcgaCggcaccaagttcccagaact	11	14	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:58207244C>A	uc001vhq.1	+	1	1456	c.564C>A	c.(562-564)GAC>GAA	p.D188E	PCDH17_uc010aec.1_Missense_Mutation_p.D188E	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	188	Extracellular (Potential).|Cadherin 2.|Cell attachment site (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CCCGCGGCGACGGCACCAAGT	0.642													4	16	---	---	---	---	PASS	A	58207244	A	A	58207244	3	1	66	1	0	0	0	0	1	0	0	0	11512	535	19	1	566	1	PCDH17	13	58207244	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4591024	58207244	56962634	511	26216										
PCDH17	27253	broad.mit.edu	37	chr13	58207599	58207599	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccggcctaatccgtgtgaagGgcaatctggactatgaggaa	13	9	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:58207599G>T	uc001vhq.1	+	1	1811	c.919G>T	c.(919-921)GGC>TGC	p.G307C	PCDH17_uc010aec.1_Missense_Mutation_p.G307C	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	307	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CCGTGTGAAGGGCAATCTGGA	0.577													11	27	---	---	---	---	PASS	T	58207599	T	T	58207599	3	4	66	1	0	0	0	0	1	0	0	0	11512	1232	43	3	921	3	PCDH17	13	58207599	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	355	58207599	56962279	512	26217										
PCDH20	64881	broad.mit.edu	37	chr13	61986403	61986403	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcttcccacagtcaacagctCtgacagtgtatctgtacttt	7	12	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:61986403C>A	uc001vid.3	-	2	2193	c.1829G>T	c.(1828-1830)AGA>ATA	p.R610I	PCDH20_uc010thj.1_Missense_Mutation_p.R610I	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	583	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		GTCAACAGCTCTGACAGTGTA	0.453													33	66	---	---	---	---	PASS	A	61986403	A	A	61986403	3	1	66	1	0	0	0	0	1	0	0	0	11515	913	32	2	1030	2	PCDH20	13	61986403	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3778804	61986403	53183475	513	26218										
PCDH9	5101	broad.mit.edu	37	chr13	67801278	67801278	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttttaaagctgaattctttgGtgccctcatagtccaacaaa	6	9	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:67801278G>T	uc001vik.2	-	2	1987	c.1295C>A	c.(1294-1296)ACC>AAC	p.T432N	PCDH9_uc001vil.2_Missense_Mutation_p.T432N|PCDH9_uc010thl.1_Missense_Mutation_p.T432N|PCDH9_uc001vin.3_Missense_Mutation_p.T432N	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	432	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GAATTCTTTGGTGCCCTCATA	0.403													18	36	---	---	---	---	PASS	T	67801278	T	T	67801278	3	4	66	1	0	0	0	0	1	0	0	0	11518	1261	44	3	2434	3	PCDH9	13	67801278	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	5814875	67801278	47368600	514	26219										
MYCBP2	23077	broad.mit.edu	37	chr13	77657256	77657256	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aagcggtgaaaggtgtgtggTaaaggatgagcagcttcccc	15	7	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:77657256T>C	uc001vkf.2	-	64	10924	c.10833A>G	c.(10831-10833)TTA>TTG	p.L3611L	MYCBP2_uc010aev.2_Silent_p.L3015L|MYCBP2_uc001vke.2_Silent_p.L231L	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3611					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AGGTGTGTGGTAAAGGATGAG	0.458													32	70	---	---	---	---	PASS	C	77657256	C	C	77657256	2	2	66	1	0	0	0	0	0	0	0	1	10018	1635	57	5		5	MYCBP2	13	77657256	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	9855978	77657256	37512622	515	26220										
POU4F1	5457	broad.mit.edu	37	chr13	79175664	79175664	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcgatggcggcgatcttctcGgacgagggccggggctgcac	18	12	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:79175664G>T	uc001vkv.2	-	2	1380	c.1146C>A	c.(1144-1146)TCC>TCA	p.S382S	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	382	Homeobox.				axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		CGATCTTCTCGGACGAGGGCC	0.607													26	53	---	---	---	---	PASS	T	79175664	T	T	79175664	2	4	66	1	0	0	0	0	0	0	0	1	12278	1103	39	1		1	POU4F1	13	79175664	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	1518408	79175664	35994214	516	26221										
HS6ST3	266722	broad.mit.edu	37	chr13	96743641	96743641	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atccggctggagcagccttgTagctgcaaagcgggtcagaa	14	10	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:96743641T>C	uc001vmw.2	+	1	549	c.525T>C	c.(523-525)TGT>TGC	p.C175C		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	175	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					AGCAGCCTTGTAGCTGCAAAG	0.632													9	14	---	---	---	---	PASS	C	96743641	C	C	96743641	2	2	66	1	0	0	0	0	0	0	0	1	7372	1644	57	5		5	HS6ST3	13	96743641	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	17567977	96743641	18426237	517	26222										
ZIC2	7546	broad.mit.edu	37	chr13	100635301	100635301	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caaccacatccgcgtgcacaCaggcgagaaacccttcccct	7	18	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:100635301C>T	uc001von.2	+	1	983	c.983C>T	c.(982-984)ACA>ATA	p.T328I		NM_007129	NP_009060	O95409	ZIC2_HUMAN	zinc finger protein of the cerebellum 2	328					brain development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|visual perception	cytoplasm|nucleus	chromatin DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CGCGTGCACACAGGCGAGAAA	0.607													32	77	---	---	---	---	PASS	T	100635301	T	T	100635301	3	4	66	1	0	0	0	0	1	0	0	0	17676	478	17	3	985	3	ZIC2	13	100635301	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3891660	100635301	14534577	518	26223										
IRS2	8660	broad.mit.edu	37	chr13	110437489	110437489	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaccccgacgattggctcttActgcgcggccggaactcgaa	12	14	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:110437489A>T	uc001vqv.2	-	1	1426	c.912T>A	c.(910-912)AGT>AGA	p.S304R		NM_003749	NP_003740	Q9Y4H2	IRS2_HUMAN	insulin receptor substrate 2	304					fibroblast growth factor receptor signaling pathway|glucose metabolic process|insulin receptor signaling pathway|lipid homeostasis|negative regulation of B cell apoptosis|negative regulation of kinase activity|negative regulation of plasma membrane long-chain fatty acid transport|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of B cell proliferation|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|response to glucose stimulus	cytosol|plasma membrane	insulin receptor binding|signal transducer activity			large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)|skin(1)|ovary(1)|kidney(1)	8	all_cancers(4;7.57e-15)|all_epithelial(4;5.91e-09)|all_lung(23;7.64e-07)|Lung NSC(43;0.000183)|Colorectal(4;0.00159)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0155)	Breast(118;0.159)	all cancers(43;0.00815)|BRCA - Breast invasive adenocarcinoma(86;0.11)|Epithelial(84;0.127)|GBM - Glioblastoma multiforme(44;0.147)			ATTGGCTCTTACTGCGCGGCC	0.692													5	8	---	---	---	---	PASS	T	110437489	T	T	110437489	3	4	66	1	0	0	0	0	1	0	0	0	7841	388	14	5	3112	5	IRS2	13	110437489	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	9802188	110437489	4732389	519	26224										
PROZ	8858	broad.mit.edu	37	chr13	113826358	113826358	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccagtaggagggcaggctcAcatggtccttgtcaccaagg	14	11	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr13:113826358A>T	uc001vta.1	+	8	1149	c.1142A>T	c.(1141-1143)CAC>CTC	p.H381L	PROZ_uc010agr.1_Missense_Mutation_p.H403L	NM_003891	NP_003882	P22891	PROZ_HUMAN	protein Z, vitamin K-dependent plasma	381	Peptidase S1.				blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.216)	all cancers(43;0.104)		Menadione(DB00170)	GGGCAGGCTCACATGGTCCTT	0.532													9	23	---	---	---	---	PASS	T	113826358	T	T	113826358	3	4	66	1	0	0	0	0	1	0	0	0	12562	159	6	5	1172	5	PROZ	13	113826358	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	3388869	113826358	1343520	520	26225										
OR4K17	390436	broad.mit.edu	37	chr14	20585592	20585592	+	Frame_Shift_Del	DEL	C	-	-													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctttatttttcactcatactCcatggtatgagtgatctttt							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:20585592delC	uc001vwo.1	+	1	27	c.27delC	c.(25-27)CTCfs	p.L9fs		NM_001004715	NP_001004715	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K,	Error:Variant_position_missing_in_Q8NGC6_after_alignment					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		CACTCATACTCCATGGTATGA	0.363													52	45	---	---	---	---		-	20585592	-	-	20585592	7	5	66	1	0	1	0	1	0	0	0	0	11071	842	30	0	29	0	OR4K17	14	20585592	Frame_Shift_Del	DEL	C	TCGA-34-5231-01A-21D-1817-08		20585592	86763948	521	26226										
OR4N5	390437	broad.mit.edu	37	chr14	20612101	20612101	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgggcaacttggccttactGgatgcatcctactccttcat	8	13	1	0	rs111858769		TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:20612101G>T	uc010tla.1	+	1	207	c.207G>T	c.(205-207)CTG>CTT	p.L69L		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)		TGGCCTTACTGGATGCATCCT	0.468													87	234	---	---	---	---	PASS	T	20612101	T	T	20612101	2	4	66	1	0	0	0	0	0	0	0	1	11079	1335	47	3		3	OR4N5	14	20612101	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	26509	20612101	86737439	522	26227										
RNASE10	338879	broad.mit.edu	37	chr14	20978871	20978871	+	Missense_Mutation	SNP	C	A	A													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aagtggtgcaacctggctggCcagaagatcccatcctcggt							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:20978871C>A	uc010tlj.1	+	1	241	c.241C>A	c.(241-243)CCA>ACA	p.P81T	RNASE10_uc001vxp.2_Missense_Mutation_p.P109T	NM_001012975	NP_001012993	Q5GAN6	RNS10_HUMAN	ribonuclease, RNase A family, 10 (non-active)	81						extracellular region	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00123)		Epithelial(56;1.81e-07)|all cancers(55;1.86e-06)	GBM - Glioblastoma multiforme(265;0.022)|READ - Rectum adenocarcinoma(17;0.191)		ACCTGGCTGGCCAGAAGATCC	0.527													6	35	---	---	---	---	PASS	A	20978871	A	A	20978871	3	1	66	1	0	0	0	0	1	0	0	0	13400	739	26	3	243	3	RNASE10	14	20978871	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	366770	20978871	86370669	523	26228	549	2								
RNASE10	338879	broad.mit.edu	37	chr14	20978873	20978873	+	Silent	SNP	A	G	G													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtggtgcaacctggctggccAgaagatcccatcctcggtga							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:20978873A>G	uc010tlj.1	+	1	243	c.243A>G	c.(241-243)CCA>CCG	p.P81P	RNASE10_uc001vxp.2_Silent_p.P109P	NM_001012975	NP_001012993	Q5GAN6	RNS10_HUMAN	ribonuclease, RNase A family, 10 (non-active)	81						extracellular region	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00123)		Epithelial(56;1.81e-07)|all cancers(55;1.86e-06)	GBM - Glioblastoma multiforme(265;0.022)|READ - Rectum adenocarcinoma(17;0.191)		CTGGCTGGCCAGAAGATCCCA	0.527													6	35	---	---	---	---	PASS	G	20978873	G	G	20978873	2	3	66	1	0	0	0	0	0	0	0	1	13400	175	7	5		5	RNASE10	14	20978873	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	2	20978873	86370667	524	26229	549	2								
OR5AU1	390445	broad.mit.edu	37	chr14	21623325	21623325	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atgcacaggtggaaaatgccTtaaacctgccctgggccgag	12	11	0	0	rs141477326	by1000genomes	TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:21623325T>A	uc010tlp.1	-	1	860	c.860A>T	c.(859-861)AAG>ATG	p.K287M		NM_001004731	NP_001004731	Q8NGC0	O5AU1_HUMAN	olfactory receptor, family 5, subfamily AU,	287	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(95;0.00238)		Epithelial(56;6.88e-07)|all cancers(55;6.02e-06)	GBM - Glioblastoma multiforme(265;0.0192)		GGAAAATGCCTTAAACCTGCC	0.507													17	42	---	---	---	---	PASS	A	21623325	A	A	21623325	3	1	66	1	0	0	0	0	1	0	0	0	11147	1609	56	5	231	5	OR5AU1	14	21623325	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	644452	21623325	85726215	525	26230										
JPH4	84502	broad.mit.edu	37	chr14	24040570	24040570	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gactgctgggcagttcagggGatccctctgagggggtcagt	17	9	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:24040570G>C	uc001wkq.2	-	6	2288	c.1370C>G	c.(1369-1371)TCC>TGC	p.S457C	JPH4_uc010tnr.1_Missense_Mutation_p.S122C|JPH4_uc001wkr.2_Missense_Mutation_p.S457C	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	457	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		CAGTTCAGGGGATCCCTCTGA	0.677													9	43	---	---	---	---	PASS	C	24040570	C	C	24040570	3	2	66	1	0	0	0	0	1	0	0	0	7963	1174	41	2	524	2	JPH4	14	24040570	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2417245	24040570	83308970	526	26231										
NPAS3	64067	broad.mit.edu	37	chr14	33684439	33684439	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gatgctgctcgctcccgccgGggaaaagaaaactttgagtt	12	10	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:33684439G>A	uc001wru.2	+	3	256	c.192G>A	c.(190-192)CGG>CGA	p.R64R	NPAS3_uc001wrs.2_Silent_p.R34R|NPAS3_uc001wrt.2_Silent_p.R34R|NPAS3_uc001wrv.2_Silent_p.R34R|NPAS3_uc001wrw.2_5'UTR	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	64	Basic motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		GCTCCCGCCGGGGAAAAGAAA	0.458													63	51	---	---	---	---	PASS	A	33684439	A	A	33684439	2	1	66	1	0	0	0	0	0	0	0	1	10564	1219	43	3		3	NPAS3	14	33684439	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	9643869	33684439	73665101	527	26232										
KLHDC1	122773	broad.mit.edu	37	chr14	50177095	50177095	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tttcctgctgggtatataaaGacaggtaatgcagcagttgc	11	7	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:50177095G>C	uc001www.2	+	4	428	c.400G>C	c.(400-402)GAC>CAC	p.D134H	SDCCAG1_uc010anj.1_Intron|KLHDC1_uc010tqg.1_Missense_Mutation_p.D89H|KLHDC1_uc010tqh.1_Missense_Mutation_p.D77H	NM_172193	NP_751943	Q8N7A1	KLDC1_HUMAN	kelch domain containing 1	134	Kelch 2.					cytoplasm				pancreas(1)	1	all_epithelial(31;0.00244)|Breast(41;0.00964)					GGTATATAAAGACAGGTAATG	0.363													50	47	---	---	---	---	PASS	C	50177095	C	C	50177095	3	2	66	1	0	0	0	0	1	0	0	0	8354	942	33	2	414	2	KLHDC1	14	50177095	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	16492656	50177095	57172445	528	26233										
GPR137C	283554	broad.mit.edu	37	chr14	53066842	53066842	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttctttcagaattctactgcAtttgggctttataatggcaa	7	7	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:53066842A>G	uc001wzu.3	+	3	500	c.500A>G	c.(499-501)CAT>CGT	p.H167R	GPR137C_uc001wzt.3_Missense_Mutation_p.H167R	NM_001099652	NP_001093122	Q8N3F9	G137C_HUMAN	G protein-coupled receptor 137C	167	Cytoplasmic (Potential).					integral to membrane					0	Breast(41;0.0716)					ATTCTACTGCATTTGGGCTTT	0.338													79	74	---	---	---	---	PASS	G	53066842	G	G	53066842	3	3	66	1	0	0	0	0	1	0	0	0	6647	217	8	5	510	5	GPR137C	14	53066842	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	2889747	53066842	54282698	529	26234										
C14orf105	55195	broad.mit.edu	37	chr14	57948311	57948311	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggatcatttccagcacttgcAtcttatgcaaatattgtctg	7	9	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:57948311A>G	uc001xcy.2	-	4	604	c.461T>C	c.(460-462)ATG>ACG	p.M154T	C14orf105_uc010trl.1_Missense_Mutation_p.M153T|C14orf105_uc010trm.1_Missense_Mutation_p.M65T|C14orf105_uc010trn.1_Missense_Mutation_p.M65T|C14orf105_uc001xcz.2_Missense_Mutation_p.M153T|C14orf105_uc010aox.1_RNA|C14orf105_uc010aoy.1_Missense_Mutation_p.M75T	NM_018168	NP_060638	Q9NVL8	CN105_HUMAN	hypothetical protein LOC55195	154											0						CAGCACTTGCATCTTATGCAA	0.368													22	82	---	---	---	---	PASS	G	57948311	G	G	57948311	3	3	66	1	0	0	0	0	1	0	0	0	1737	217	8	5	441	5	C14orf105	14	57948311	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	4881469	57948311	49401229	530	26235										
SYT16	83851	broad.mit.edu	37	chr14	62536405	62536405	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acaatttgagatttccgtgtCccggtcccagagtttccgtt	9	11	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:62536405C>G	uc001xfu.1	+	2	805	c.608C>G	c.(607-609)TCC>TGC	p.S203C	SYT16_uc010tsd.1_Missense_Mutation_p.S203C	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	203										central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		ATTTCCGTGTCCCGGTCCCAG	0.478													65	103	---	---	---	---	PASS	G	62536405	G	G	62536405	3	3	66	1	0	0	0	0	1	0	0	0	15469	855	30	2	614	2	SYT16	14	62536405	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4588094	62536405	44813135	531	26236										
SYNE2	23224	broad.mit.edu	37	chr14	64568746	64568746	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acagagcttcctcatcctctGgaacaattgttcaggtaatg	8	10	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:64568746G>T	uc001xgm.2	+	64	12708	c.12478G>T	c.(12478-12480)GGA>TGA	p.G4160*	SYNE2_uc001xgl.2_Nonsense_Mutation_p.G4160*|SYNE2_uc010apy.2_Nonsense_Mutation_p.G545*|SYNE2_uc010apz.1_Nonsense_Mutation_p.G52*	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	4160	Cytoplasmic (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)		CTCATCCTCTGGAACAATTGT	0.517													10	47	---	---	---	---	PASS	T	64568746	T	T	64568746	4	4	66	1	0	0	0	0	0	1	0	0	15443	1349	47	3	12728	3	SYNE2	14	64568746	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2032341	64568746	42780794	532	26237										
SYNE2	23224	broad.mit.edu	37	chr14	64676782	64676782	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgaagcagatggtccacgaGggcaaccagcgctgggacaa	14	11	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:64676782G>T	uc001xgm.2	+	103	18893	c.18663G>T	c.(18661-18663)GAG>GAT	p.E6221D	SYNE2_uc001xgl.2_Missense_Mutation_p.E6221D|SYNE2_uc010apy.2_Missense_Mutation_p.E2606D|SYNE2_uc001xgn.2_Missense_Mutation_p.E1183D|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.E191D|SYNE2_uc001xgq.2_Missense_Mutation_p.E586D|SYNE2_uc001xgr.2_Missense_Mutation_p.E4D	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6221	Spectrin 7.|Cytoplasmic (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)		TGGTCCACGAGGGCAACCAGC	0.637													26	36	---	---	---	---	PASS	T	64676782	T	T	64676782	3	4	66	1	0	0	0	0	1	0	0	0	15443	991	35	3	19069	3	SYNE2	14	64676782	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	108036	64676782	42672758	533	26238										
C14orf169	79697	broad.mit.edu	37	chr14	73958889	73958889	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtgagccggtgctgcagaccGtgctggaacctggagatttg	16	9	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:73958889G>T	uc001xok.1	+	3	1247	c.1168G>T	c.(1168-1170)GTG>TTG	p.V390L	HEATR4_uc010tua.1_Intron	NM_024644	NP_078920	Q9H6W3	NO66_HUMAN	chromosome 14 open reading frame 169	390	JmjC.				negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K4 specific)|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0				BRCA - Breast invasive adenocarcinoma(234;0.0033)|OV - Ovarian serous cystadenocarcinoma(108;0.215)		GCTGCAGACCGTGCTGGAACC	0.577													54	70	---	---	---	---	PASS	T	73958889	T	T	73958889	3	4	66	1	0	0	0	0	1	0	0	0	1758	1132	40	1	1169	1	C14orf169	14	73958889	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	9282107	73958889	33390651	534	26239										
ISCA2	122961	broad.mit.edu	37	chr14	74960508	74960508	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctgggggtcgtccctaacgGccgcgacgcagagagcggtc	16	14	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:74960508G>C	uc001xpz.2	+	1	59	c.31G>C	c.(31-33)GCC>CCC	p.A11P	NPC2_uc001xpy.2_5'Flank|NPC2_uc010tus.1_5'Flank	NM_194279	NP_919255	Q86U28	ISCA2_HUMAN	iron-sulfur cluster assembly 2 precursor	11					iron-sulfur cluster assembly	mitochondrion	iron-sulfur cluster binding|metal ion binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00146)		GTCCCTAACGGCCGCGACGCA	0.652													10	3	---	---	---	---	PASS	C	74960508	C	C	74960508	3	2	66	1	0	0	0	0	1	0	0	0	7851	1203	42	4	33	4	ISCA2	14	74960508	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1001619	74960508	32389032	535	26240										
LTBP2	4053	broad.mit.edu	37	chr14	75052587	75052587	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcgactgtggtgcgggcggcGactgtggtgctggcggctgt	21	9	0	0	rs149952751	byFrequency	TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:75052587G>A	uc001xqa.2	-	3	1187	c.800C>T	c.(799-801)TCG>TTG	p.S267L		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	267					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		TGCGGGCGGCGACTGTGGTGC	0.662													13	71	---	---	---	---	PASS	A	75052587	A	A	75052587	3	1	66	1	0	0	0	0	1	0	0	0	9074	1059	37	2	4801	2	LTBP2	14	75052587	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	92079	75052587	32296953	536	26241										
NRXN3	9369	broad.mit.edu	37	chr14	79432644	79432644	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgccactcttcaggcttacaCctccatgcacctcttcttcc	4	18	4	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:79432644C>T	uc001xun.2	+	9	2044	c.1553C>T	c.(1552-1554)ACC>ATC	p.T518I	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.T643I	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	891	Extracellular (Potential).|Laminin G-like 5.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CAGGCTTACACCTCCATGCAC	0.502													51	52	---	---	---	---	PASS	T	79432644	T	T	79432644	3	4	66	1	0	0	0	0	1	0	0	0	10667	507	18	3	1579	3	NRXN3	14	79432644	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4380057	79432644	27916896	537	26242										
SERPINA6	866	broad.mit.edu	37	chr14	94772415	94772415	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccatgacatttacctttgatGacttcagctgggcgtcctgg	10	11	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:94772415G>T	uc001ycv.2	-	4	1129	c.1025C>A	c.(1024-1026)TCA>TAA	p.S342*	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	342					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	TACCTTTGATGACTTCAGCTG	0.458													16	71	---	---	---	---	PASS	T	94772415	T	T	94772415	4	4	66	1	0	0	0	0	0	1	0	0	14093	1294	45	2	200	2	SERPINA6	14	94772415	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	15339771	94772415	12577125	538	26243										
SERPINA11	256394	broad.mit.edu	37	chr14	94914504	94914504	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aattggcaagaaccatgaacGtgtcctggctgaactccggg	12	10	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:94914504G>C	uc001ydd.1	-	2	668	c.608C>G	c.(607-609)ACG>AGG	p.T203R		NM_001080451	NP_001073920	Q86U17	SPA11_HUMAN	serpin peptidase inhibitor, clade A (alpha-1	203					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			kidney(1)	1				COAD - Colon adenocarcinoma(157;0.211)		AACCATGAACGTGTCCTGGCT	0.468													38	114	---	---	---	---	PASS	C	94914504	C	C	94914504	3	2	66	1	0	0	0	0	1	0	0	0	14088	1145	40	4	676	4	SERPINA11	14	94914504	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	142089	94914504	12435036	539	26244										
C14orf49	161176	broad.mit.edu	37	chr14	95905372	95905372	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctgctagacagactcacgcGtcgacgatgcctgggaatag	12	12	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:95905372G>A	uc001yei.3	-	13	2389	c.2374C>T	c.(2374-2376)CGC>TGC	p.R792C	C14orf49_uc010avi.2_Missense_Mutation_p.R792C	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	792	Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		AGACTCACGCGTCGACGATGC	0.567													55	155	---	---	---	---	PASS	A	95905372	A	A	95905372	3	1	66	1	0	0	0	0	1	0	0	0	1776	1145	40	1	573	1	C14orf49	14	95905372	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	990868	95905372	11444168	540	26245										
AHNAK2	113146	broad.mit.edu	37	chr14	105419199	105419199	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gagaggctcacgtcggcctcCaccttcggcgcagacacatc	11	16	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr14:105419199C>A	uc010axc.1	-	7	2709	c.2589G>T	c.(2587-2589)GTG>GTT	p.V863V	AHNAK2_uc001ypx.2_Silent_p.V763V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	863						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)			CGTCGGCCTCCACCTTCGGCG	0.612													170	171	---	---	---	---	PASS	A	105419199	A	A	105419199	2	1	66	1	0	0	0	0	0	0	0	1	415	581	21	3		3	AHNAK2	14	105419199	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	9513827	105419199	1930341	541	26246										
NDN	4692	broad.mit.edu	37	chr15	23932317	23932317	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgcacctcggagttgggggcCtcggctgcaaagttagggtc	16	10	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:23932317C>A	uc001ywk.2	-	1	134	c.48G>T	c.(46-48)GAG>GAT	p.E16D		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	16					negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		AGTTGGGGGCCTCGGCTGCAA	0.657									Prader-Willi_syndrome				33	31	---	---	---	---	PASS	A	23932317	A	A	23932317	3	1	66	1	0	0	0	0	1	0	0	0	10247	680	24	3	921	3	NDN	15	23932317	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08		23932317	78599075	542	26247										
C15orf2	23742	broad.mit.edu	37	chr15	24922999	24922999	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccgcagaaagcttctctccCcagtgcctgtgttttcctga	9	14	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:24922999C>A	uc001ywo.2	+	1	2459	c.1985C>A	c.(1984-1986)CCC>CAC	p.P662H		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	662					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GCTTCTCTCCCCAGTGCCTGT	0.507													87	118	---	---	---	---	PASS	A	24922999	A	A	24922999	3	1	66	1	0	0	0	0	1	0	0	0	1784	623	22	3	1987	3	C15orf2	15	24922999	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	990682	24922999	77608393	543	26248										
GABRA5	2558	broad.mit.edu	37	chr15	27193257	27193257	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaaaagacttacaacagtatCagcaaaattgacaaaatgtc	5	7	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:27193257C>A	uc001zbd.1	+	12	1605	c.1266C>A	c.(1264-1266)ATC>ATA	p.I422I	GABRA5_uc001zbe.1_RNA	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	422	Cytoplasmic (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ACAACAGTATCAGCAAAATTG	0.438													9	28	---	---	---	---	PASS	A	27193257	A	A	27193257	2	1	66	1	0	0	0	0	0	0	0	1	6164	816	29	2		2	GABRA5	15	27193257	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	2270258	27193257	75338135	544	26249										
OCA2	4948	broad.mit.edu	37	chr15	28211898	28211898	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agtaaaggagtctgaggagcGgaaagcagaccaggagaaca	15	6	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:28211898G>A	uc001zbh.3	-	15	1684	c.1574C>T	c.(1573-1575)CCG>CTG	p.P525L	OCA2_uc010ayv.2_Missense_Mutation_p.P501L	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	525	Helical; (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		TCTGAGGAGCGGAAAGCAGAC	0.463									Oculocutaneous_Albinism				12	33	---	---	---	---	PASS	A	28211898	A	A	28211898	3	1	66	1	0	0	0	0	1	0	0	0	10815	1116	39	1	982	1	OCA2	15	28211898	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1018641	28211898	74319494	545	26250										
HERC2	8924	broad.mit.edu	37	chr15	28436333	28436333	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gctactgtcagcaggatctaCgatcatttttaatctatgaa	7	8	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:28436333C>A	uc001zbj.2	-	54	8615	c.8509G>T	c.(8509-8511)GTA>TTA	p.V2837L	HERC2_uc001zbk.1_Missense_Mutation_p.V372L	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2837	DOC.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GCAGGATCTACGATCATTTTT	0.368													37	55	---	---	---	---	PASS	A	28436333	A	A	28436333	3	1	66	1	0	0	0	0	1	0	0	0	7058	536	19	1	6155	1	HERC2	15	28436333	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	224435	28436333	74095059	546	26251										
OTUD7A	161725	broad.mit.edu	37	chr15	31776442	31776442	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttcacatccgtgctgtacttCcaggcgtcgccccgcggccc	10	18	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:31776442C>A	uc001zfq.2	-	11	1929	c.1836G>T	c.(1834-1836)TGG>TGT	p.W612C	OTUD7A_uc001zfr.2_Missense_Mutation_p.W619C	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	612						cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		TGCTGTACTTCCAGGCGTCGC	0.697													11	14	---	---	---	---	PASS	A	31776442	A	A	31776442	3	1	66	1	0	0	0	0	1	0	0	0	11318	856	30	2	948	2	OTUD7A	15	31776442	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3340109	31776442	70754950	547	26252										
RYR3	6263	broad.mit.edu	37	chr15	33988492	33988492	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagatccaggattcagagctGgtccgaatgatgttcaacct	10	10	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:33988492G>T	uc001zhi.2	+	39	6004	c.5934G>T	c.(5932-5934)CTG>CTT	p.L1978L	RYR3_uc010bar.2_Silent_p.L1978L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1978	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		ATTCAGAGCTGGTCCGAATGA	0.557													40	50	---	---	---	---	PASS	T	33988492	T	T	33988492	2	4	66	1	0	0	0	0	0	0	0	1	13770	1335	47	3		3	RYR3	15	33988492	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	2212050	33988492	68542900	548	26253										
LRRC57	255252	broad.mit.edu	37	chr15	42837280	42837280	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tacattaattcataccttatCatagccttccagttctcgaa	3	11	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:42837280C>G	uc001zqd.1	-	4	1041	c.673G>C	c.(673-675)GAT>CAT	p.D225H	LRRC57_uc001zqc.2_Missense_Mutation_p.D225H	NM_153260	NP_694992	Q8N9N7	LRC57_HUMAN	leucine rich repeat containing 57	225											0		all_cancers(109;1.99e-12)|all_epithelial(112;5.11e-11)|Lung NSC(122;4.53e-07)|all_lung(180;1.64e-06)|Melanoma(134;0.0262)		GBM - Glioblastoma multiforme(94;6.87e-07)		CATACCTTATCATAGCCTTCC	0.413													23	58	---	---	---	---	PASS	G	42837280	G	G	42837280	3	3	66	1	0	0	0	0	1	0	0	0	9013	826	29	2	54	2	LRRC57	15	42837280	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	8848788	42837280	59694112	549	26254										
LRRC57	255252	broad.mit.edu	37	chr15	42837400	42837400	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gctgagctcaagacaattctCttccaggcgaagaattttaa	8	9	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:42837400C>T	uc001zqd.1	-	4	921	c.553G>A	c.(553-555)GAG>AAG	p.E185K	LRRC57_uc001zqc.2_Missense_Mutation_p.E185K	NM_153260	NP_694992	Q8N9N7	LRC57_HUMAN	leucine rich repeat containing 57	185	LRR 7.										0		all_cancers(109;1.99e-12)|all_epithelial(112;5.11e-11)|Lung NSC(122;4.53e-07)|all_lung(180;1.64e-06)|Melanoma(134;0.0262)		GBM - Glioblastoma multiforme(94;6.87e-07)		AGACAATTCTCTTCCAGGCGA	0.403													40	58	---	---	---	---	PASS	T	42837400	T	T	42837400	3	4	66	1	0	0	0	0	1	0	0	0	9013	922	32	2	174	2	LRRC57	15	42837400	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	120	42837400	59693992	550	26255										
CKMT1A	548596	broad.mit.edu	37	chr15	43990941	43990941	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtgtctttgatatttctaatTtggaccgactaggcaaatca	8	7	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:43990941T>C	uc001zsn.2	+	9	1506	c.1114T>C	c.(1114-1116)TTG>CTG	p.L372L	CKMT1A_uc010uea.1_Silent_p.L403L|CKMT1A_uc001zso.3_Silent_p.L372L	NM_001015001	NP_001015001	P12532	KCRU_HUMAN	creatine kinase, mitochondrial 1A precursor	372	Phosphagen kinase C-terminal.				creatine metabolic process	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)	Creatine(DB00148)	TATTTCTAATTTGGACCGACT	0.512													68	97	---	---	---	---	PASS	C	43990941	C	C	43990941	2	2	66	1	0	0	0	0	0	0	0	1	3449	1838	64	5		5	CKMT1A	15	43990941	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	1153541	43990941	58540451	551	26256										
SLC28A2	9153	broad.mit.edu	37	chr15	45564584	45564584	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtatcccttatcagtgcctgTatggcaggtaggtgcctcag	12	10	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:45564584T>A	uc001zva.2	+	16	1805	c.1740T>A	c.(1738-1740)TGT>TGA	p.C580*		NM_004212	NP_004203	O43868	S28A2_HUMAN	solute carrier family 28 (sodium-coupled	580	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		TCAGTGCCTGTATGGCAGGTA	0.512													38	77	---	---	---	---	PASS	A	45564584	A	A	45564584	4	1	66	1	0	0	0	0	0	1	0	0	14532	1644	57	5	1798	5	SLC28A2	15	45564584	Nonsense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	1573643	45564584	56966808	552	26257										
MYEF2	50804	broad.mit.edu	37	chr15	48450377	48450377	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tatacaggaactcaccatttTcacatgcataggtctatcaa	5	10	4	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:48450377T>C	uc001zwi.3	-	8	1040	c.916A>G	c.(916-918)AAA>GAA	p.K306E	MYEF2_uc001zwj.3_Missense_Mutation_p.K306E|MYEF2_uc001zwl.2_Missense_Mutation_p.K146E	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	306	RRM 2.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		CTCACCATTTTCACATGCATA	0.343													23	55	---	---	---	---	PASS	C	48450377	C	C	48450377	3	2	66	1	0	0	0	0	1	0	0	0	10024	1792	62	5	926	5	MYEF2	15	48450377	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	2885793	48450377	54081015	553	26258										
FBN1	2200	broad.mit.edu	37	chr15	48807697	48807697	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gatagcggaccaactggcagTaatcagtaacgtttactggc	11	9	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:48807697T>C	uc001zwx.1	-	12	1683	c.1355A>G	c.(1354-1356)TAC>TGC	p.Y452C		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	452	EGF-like 6.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CAACTGGCAGTAATCAGTAAC	0.443													17	103	---	---	---	---	PASS	C	48807697	C	C	48807697	3	2	66	1	0	0	0	0	1	0	0	0	5702	1638	57	5	7480	5	FBN1	15	48807697	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	357320	48807697	53723695	554	26259										
ZNF280D	54816	broad.mit.edu	37	chr15	56968994	56968994	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtttctacatcagaaaatgaTgatgatctataattacaaac	5	6	3	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:56968994T>C	uc002adu.2	-	13	1501	c.1284A>G	c.(1282-1284)TCA>TCG	p.S428S	ZNF280D_uc002adv.2_Silent_p.S415S|ZNF280D_uc010bfq.2_Silent_p.S428S|ZNF280D_uc002adw.1_Silent_p.S456S|ZNF280D_uc010bfr.1_RNA|ZNF280D_uc010bfp.2_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	428	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		CAGAAAATGATGATGATCTAT	0.294													41	63	---	---	---	---	PASS	C	56968994	C	C	56968994	2	2	66	1	0	0	0	0	0	0	0	1	17814	1451	51	5		5	ZNF280D	15	56968994	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	8161297	56968994	45562398	555	26260										
TLN2	83660	broad.mit.edu	37	chr15	62945428	62945428	+	Frame_Shift_Del	DEL	G	-	-													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaaaagaaagaggaaggaacGggcacactcaaaaaagacag							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:62945428delG	uc002alb.3	+	4	432	c.432delG	c.(430-432)ACGfs	p.T144fs		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	144	FERM.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						AGGAAGGAACGGGCACACTCA	0.363													23	18	---	---	---	---		-	62945428	-	-	62945428	7	5	66	1	0	1	0	1	0	0	0	0	15945	1103	39	0	446	0	TLN2	15	62945428	Frame_Shift_Del	DEL	G	TCGA-34-5231-01A-21D-1817-08	5976434	62945428	39585964	556	26261										
HERC1	8925	broad.mit.edu	37	chr15	64027022	64027022	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggaggtaacagcatggttgcTcccactgataaagtttcaat	10	8	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:64027022T>C	uc002amp.2	-	13	2695	c.2547A>G	c.(2545-2547)GGA>GGG	p.G849G	HERC1_uc010uil.1_Intron	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	849					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						GCATGGTTGCTCCCACTGATA	0.373													28	31	---	---	---	---	PASS	C	64027022	C	C	64027022	2	2	66	1	0	0	0	0	0	0	0	1	7057	1538	54	5		5	HERC1	15	64027022	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	1081594	64027022	38504370	557	26262										
PDCD7	10081	broad.mit.edu	37	chr15	65425357	65425357	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctcccgctcggcctcgcgttCccgggccctctcgcgaagcc	11	21	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:65425357C>G	uc002aol.2	-	1	818	c.763G>C	c.(763-765)GAA>CAA	p.E255Q		NM_005707	NP_005698	Q8N8D1	PDCD7_HUMAN	programmed cell death 7	255	Arg/Glu-rich.|Potential.				apoptosis|induction of apoptosis|response to glucocorticoid stimulus	U12-type spliceosomal complex					0						GCCTCGCGTTCCCGGGCCCTC	0.716													11	17	---	---	---	---	PASS	G	65425357	G	G	65425357	3	3	66	1	0	0	0	0	1	0	0	0	11625	864	30	2	714	2	PDCD7	15	65425357	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1398335	65425357	37106035	558	26263										
IQCH	64799	broad.mit.edu	37	chr15	67687727	67687727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acagaggcctacatcgtcagCgggctcctccacagagatga	11	13	1	3	rs148305719		TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:67687727C>A	uc002aqo.1	+	13	1778	c.1731C>A	c.(1729-1731)AGC>AGA	p.S577R	IQCH_uc002aqq.1_Intron|IQCH_uc002aqp.1_Intron	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	577										skin(3)|ovary(1)	4				Colorectal(3;0.0856)		ACATCGTCAGCGGGCTCCTCC	0.473													86	140	---	---	---	---	PASS	A	67687727	A	A	67687727	3	1	66	1	0	0	0	0	1	0	0	0	7811	767	27	1	1909	1	IQCH	15	67687727	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2262370	67687727	34843665	559	26264										
PIAS1	8554	broad.mit.edu	37	chr15	68468068	68468068	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccgatgagatcaaaaaaggaAgtacaggaagtttctgcctc	10	8	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:68468068A>T	uc002aqz.2	+	10	1359	c.1263A>T	c.(1261-1263)GAA>GAT	p.E421D	PIAS1_uc002ara.2_Missense_Mutation_p.E29D	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	421					androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						CAAAAAAGGAAGTACAGGAAG	0.408													11	27	---	---	---	---	PASS	T	68468068	T	T	68468068	3	4	66	1	0	0	0	0	1	0	0	0	11875	69	3	5	1301	5	PIAS1	15	68468068	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	780341	68468068	34063324	560	26265										
SPESP1	246777	broad.mit.edu	37	chr15	69238585	69238585	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tagatattaattcacaagtgCaacaggcacttcttagtgac	7	8	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:69238585C>T	uc002arn.1	+	2	840	c.712C>T	c.(712-714)CAA>TAA	p.Q238*	NOX5_uc002arp.1_Intron|NOX5_uc002arq.1_Intron|NOX5_uc010bid.1_Intron|NOX5_uc002aro.2_Intron	NM_145658	NP_663633	Q6UW49	SPESP_HUMAN	sperm equatorial segment protein 1 precursor	238					multicellular organismal development	acrosomal vesicle					0						TTCACAAGTGCAACAGGCACT	0.398													23	58	---	---	---	---	PASS	T	69238585	T	T	69238585	4	4	66	1	0	0	0	0	0	1	0	0	15039	711	25	3	718	3	SPESP1	15	69238585	Nonsense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	770517	69238585	33292807	561	26266										
SIN3A	25942	broad.mit.edu	37	chr15	75704038	75704038	+	Frame_Shift_Del	DEL	G	-	-													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gggatgcatacggtggaagtGggggagtctgctgactggcc							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:75704038delG	uc002bai.2	-	6	1062	c.803delC	c.(802-804)CCAfs	p.P268fs	SIN3A_uc002baj.2_Frame_Shift_Del_p.P268fs|SIN3A_uc010uml.1_Frame_Shift_Del_p.P268fs	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	268	Interaction with REST (By similarity).				blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						CGGTGGAAGTGGGGGAGTCTG	0.512													209	124	---	---	---	---		-	75704038	-	-	75704038	7	5	66	1	0	1	0	1	0	0	0	0	14325	1348	47	0	3082	0	SIN3A	15	75704038	Frame_Shift_Del	DEL	G	TCGA-34-5231-01A-21D-1817-08	6465453	75704038	26827354	562	26267										
AGPHD1	123688	broad.mit.edu	37	chr15	78805758	78805758	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gagacaacacagcttctctcGtgtctgtaggtaagagatga	11	8	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:78805758G>T	uc010unc.1	+	2	441	c.328G>T	c.(328-330)GTG>TTG	p.V110L	AGPHD1_uc002bdt.2_Missense_Mutation_p.V110L|AGPHD1_uc010ble.2_Missense_Mutation_p.V110L	NM_001013619	NP_001013641	A2RU49	AGPD1_HUMAN	aminoglycoside phosphotransferase domain	110						cytoplasm	kinase activity				0						AGCTTCTCTCGTGTCTGTAGG	0.448													48	57	---	---	---	---	PASS	T	78805758	T	T	78805758	3	4	66	1	0	0	0	0	1	0	0	0	393	1145	40	1	330	1	AGPHD1	15	78805758	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	3101720	78805758	23725634	563	26268										
AP3B2	8120	broad.mit.edu	37	chr15	83358139	83358139	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcccctcttaccgccacaatCctcttcatggcctccagctt	4	19	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:83358139C>G	uc010uoh.1	-	2	357	c.180G>C	c.(178-180)AGG>AGC	p.R60S	AP3B2_uc010uoi.1_Missense_Mutation_p.R60S|AP3B2_uc010uoj.1_Missense_Mutation_p.R60S|AP3B2_uc010uok.1_Missense_Mutation_p.R60S	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	60					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)			CCGCCACAATCCTCTTCATGG	0.582													16	36	---	---	---	---	PASS	G	83358139	G	G	83358139	3	3	66	1	0	0	0	0	1	0	0	0	745	854	30	2	3092	2	AP3B2	15	83358139	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4552381	83358139	19173253	564	26269										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84611828	84611828	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	catttagctgtgggagactgGtcgaaggtaagggccaggct	16	7	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:84611828G>A	uc002bjz.3	+	19	2708	c.2484G>A	c.(2482-2484)TGG>TGA	p.W828*	ADAMTSL3_uc010bmt.1_Nonsense_Mutation_p.W828*|ADAMTSL3_uc010bmu.1_Nonsense_Mutation_p.W828*	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	828	TSP type-1 7.					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)			TGGGAGACTGGTCGAAGGTAA	0.438													21	33	---	---	---	---	PASS	A	84611828	A	A	84611828	4	1	66	1	0	0	0	0	0	1	0	0	276	1270	44	3	2554	3	ADAMTSL3	15	84611828	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1253689	84611828	17919564	565	26270										
ACAN	176	broad.mit.edu	37	chr15	89400078	89400078	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttctggagaagttctagagaCtactgcccctggagtagatg	12	8	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:89400078C>T	uc010upo.1	+	12	4636	c.4262C>T	c.(4261-4263)ACT>ATT	p.T1421I	ACAN_uc010upp.1_Missense_Mutation_p.T1421I|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	1421					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			GTTCTAGAGACTACTGCCCCT	0.537													110	187	---	---	---	---	PASS	T	89400078	T	T	89400078	3	4	66	1	0	0	0	0	1	0	0	0	117	565	20	3	4304	3	ACAN	15	89400078	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4788250	89400078	13131314	566	26271										
ANPEP	290	broad.mit.edu	37	chr15	90349349	90349349	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caggtactcggtgggctccaCcagctcagtcttgtcaatgt	11	12	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:90349349C>A	uc002bop.3	-	2	758	c.466G>T	c.(466-468)GTG>TTG	p.V156L		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	156	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	GTGGGCTCCACCAGCTCAGTC	0.617													34	52	---	---	---	---	PASS	A	90349349	A	A	90349349	3	1	66	1	0	0	0	0	1	0	0	0	710	507	18	3	2517	3	ANPEP	15	90349349	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	949271	90349349	12182043	567	26272										
ARRDC4	91947	broad.mit.edu	37	chr15	98513248	98513248	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtatggatatgagctggttgAcactgaccctgccagagcag	13	9	0	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:98513248A>G	uc010bom.2	+	6	1177	c.1018A>G	c.(1018-1020)ACA>GCA	p.T340A	ARRDC4_uc002bui.3_Missense_Mutation_p.T253A	NM_183376	NP_899232	Q8NCT1	ARRD4_HUMAN	arrestin domain containing 4	340					signal transduction						0	Melanoma(26;0.00539)|Lung NSC(78;0.0125)|all_lung(78;0.0222)		OV - Ovarian serous cystadenocarcinoma(32;0.0417)			GAGCTGGTTGACACTGACCCT	0.428													11	60	---	---	---	---	PASS	G	98513248	G	G	98513248	3	3	66	1	0	0	0	0	1	0	0	0	985	275	10	5	1040	5	ARRDC4	15	98513248	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	8163899	98513248	4018144	568	26273										
LASS3	204219	broad.mit.edu	37	chr15	101024834	101024834	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccatctttccacctggcgctCcgtcaagttacacttctttg	6	15	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr15:101024834C>A	uc002bvz.2	-	6	830	c.328G>T	c.(328-330)GAG>TAG	p.E110*	LASS3_uc002bwa.2_Nonsense_Mutation_p.E121*|LASS3_uc002bwb.2_Nonsense_Mutation_p.E110*	NM_178842	NP_849164	Q8IU89	CERS3_HUMAN	LAG1 longevity assurance homolog 3	110	Homeobox.					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4	Lung NSC(78;0.0018)|all_lung(78;0.00278)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000867)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)			ACCTGGCGCTCCGTCAAGTTA	0.483													33	38	---	---	---	---	PASS	A	101024834	A	A	101024834	4	1	66	1	0	0	0	0	0	1	0	0	8640	864	30	2	855	2	LASS3	15	101024834	Nonsense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2511586	101024834	1506558	569	26274										
SOLH	6650	broad.mit.edu	37	chr16	601631	601631	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccgcacggcagcagtgaggGtgtcttctggatggagtacg	17	9	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:601631G>A	uc002chi.2	+	9	2675	c.2312G>A	c.(2311-2313)GGT>GAT	p.G771D	SOLH_uc002chj.2_5'Flank	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	771	Calpain catalytic.				proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				AGCAGTGAGGGTGTCTTCTGG	0.682													10	42	---	---	---	---	PASS	A	601631	A	A	601631	3	1	66	1	0	0	0	0	1	0	0	0	14925	1261	44	3	2334	3	SOLH	16	601631	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08		601631	89753122	570	26275										
IFT140	9742	broad.mit.edu	37	chr16	1561113	1561113	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tagtaggacatgttggccaaGggaagccgccgccgcatctc	13	12	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:1561113G>C	uc002cmb.2	-	31	4583	c.4221C>G	c.(4219-4221)CCC>CCG	p.P1407P	IFT140_uc002clz.2_Silent_p.P1020P	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	1407	TPR 9.									ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				TGTTGGCCAAGGGAAGCCGCC	0.662													5	27	---	---	---	---	PASS	C	1561113	C	C	1561113	2	2	66	1	0	0	0	0	0	0	0	1	7556	987	35	4		4	IFT140	16	1561113	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	959482	1561113	88793640	571	26276										
SYNGR3	9143	broad.mit.edu	37	chr16	2042734	2042734	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acgacgcaggcgggggacgcGgcgcgggccgccatcgcctt	18	15	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:2042734G>T	uc002cod.2	+	3	571	c.435G>T	c.(433-435)GCG>GCT	p.A145A		NM_004209	NP_004200	O43761	SNG3_HUMAN	synaptogyrin 3	145	MARVEL.				positive regulation of transporter activity	cell junction|integral to plasma membrane|synaptic vesicle					0						CGGGGGACGCGGCGCGGGCCG	0.721													11	9	---	---	---	---	PASS	T	2042734	T	T	2042734	2	4	66	1	0	0	0	0	0	0	0	1	15447	1103	39	1		1	SYNGR3	16	2042734	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	481621	2042734	88312019	572	26277										
MEFV	4210	broad.mit.edu	37	chr16	3304503	3304503	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctctagcgccctgcaggggcCggggcttctcccgcccggca	14	18	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:3304503C>A	uc002cun.1	-	2	605	c.565G>T	c.(565-567)GGC>TGC	p.G189C		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	189					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)	CTGCAGGGGCCGGGGCTTCTC	0.776													4	6	---	---	---	---	PASS	A	3304503	A	A	3304503	3	1	66	1	0	0	0	0	1	0	0	0	9459	652	23	1	1816	1	MEFV	16	3304503	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1261769	3304503	87050250	573	26278										
ZNF434	54925	broad.mit.edu	37	chr16	3434809	3434809	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tccgcagaaaaccctgctccCagagtccttccgccatggcc	8	18	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:3434809C>G	uc002cuz.2	-	5	1050	c.248G>C	c.(247-249)TGG>TCG	p.W83S	ZNF434_uc002cux.3_Missense_Mutation_p.W294S|ZNF434_uc010uwx.1_Missense_Mutation_p.W6S|ZNF434_uc002cuy.3_Missense_Mutation_p.W6S|ZNF434_uc010uwy.1_Missense_Mutation_p.W6S|ZNF434_uc010uwz.1_Missense_Mutation_p.W294S|ZNF434_uc010uxa.1_Missense_Mutation_p.W83S	NM_017810	NP_060280	Q9NX65	ZN434_HUMAN	zinc finger protein 434	83					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ACCCTGCTCCCAGAGTCCTTC	0.522													108	109	---	---	---	---	PASS	G	3434809	G	G	3434809	3	3	66	1	0	0	0	0	1	0	0	0	17905	595	21	4	1217	4	ZNF434	16	3434809	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	130306	3434809	86919944	574	26279										
TFAP4	7023	broad.mit.edu	37	chr16	4312391	4312391	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttctcctgctccagggagaaGatgtactcggctgtctgctg	12	11	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:4312391G>T	uc010uxg.1	-	3	542	c.288C>A	c.(286-288)ATC>ATA	p.I96I		NM_003223	NP_003214	Q01664	TFAP4_HUMAN	transcription factor AP-4 (activating enhancer	96	Helix-loop-helix motif.				DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation by host of viral transcription|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|regulation of S phase of mitotic cell cycle	transcriptional repressor complex	E-box binding|histone deacetylase binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						CCAGGGAGAAGATGTACTCGG	0.592													30	105	---	---	---	---	PASS	T	4312391	T	T	4312391	2	4	66	1	0	0	0	0	0	0	0	1	15789	932	33	2		2	TFAP4	16	4312391	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	877582	4312391	86042362	575	26280										
TMC5	79838	broad.mit.edu	37	chr16	19483417	19483417	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttatgtttctaggagaaccTgtcagagctccgtcaggaga	11	9	3	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:19483417T>A	uc002dgc.3	+	11	2539	c.1790T>A	c.(1789-1791)CTG>CAG	p.L597Q	TMC5_uc010vaq.1_Intron|TMC5_uc002dgb.3_Missense_Mutation_p.L597Q|TMC5_uc010var.1_Missense_Mutation_p.L597Q|TMC5_uc002dgd.1_Missense_Mutation_p.L351Q|TMC5_uc002dge.3_Missense_Mutation_p.L351Q|TMC5_uc002dgf.3_Missense_Mutation_p.L280Q|TMC5_uc002dgg.3_Missense_Mutation_p.L238Q	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	597	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						TAGGAGAACCTGTCAGAGCTC	0.328													72	74	---	---	---	---	PASS	A	19483417	A	A	19483417	3	1	66	1	0	0	0	0	1	0	0	0	15985	1580	55	5	2138	5	TMC5	16	19483417	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	15171026	19483417	70871336	576	26281										
ACSM5	54988	broad.mit.edu	37	chr16	20429497	20429497	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaggcagccaatgtgctgggGggtgcatgcggcctgcagcc	17	11	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:20429497G>T	uc002dhe.2	+	3	468	c.321G>T	c.(319-321)GGG>GGT	p.G107G	ACSM5_uc002dhd.1_Silent_p.G107G	NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	107					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2						ATGTGCTGGGGGGTGCATGCG	0.607													14	38	---	---	---	---	PASS	T	20429497	T	T	20429497	2	4	66	1	0	0	0	0	0	0	0	1	187	1219	43	3		3	ACSM5	16	20429497	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	946080	20429497	69925256	577	26282										
ACSM2B	348158	broad.mit.edu	37	chr16	20552086	20552086	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgaggccaggatcacaaatgCcttcaccacctgcaaaatag	8	13	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:20552086C>A	uc002dhj.3	-	14	1729	c.1519G>T	c.(1519-1521)GCA>TCA	p.A507S	ACSM2B_uc002dhk.3_Missense_Mutation_p.A507S	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	507					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						ATCACAAATGCCTTCACCACC	0.468													60	70	---	---	---	---	PASS	A	20552086	A	A	20552086	3	1	66	1	0	0	0	0	1	0	0	0	184	739	26	3	222	3	ACSM2B	16	20552086	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	122589	20552086	69802667	578	26283										
GGA2	23062	broad.mit.edu	37	chr16	23497395	23497395	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcggtacatgctcagcatctCctgcagcaccttcacatggc	9	15	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:23497395C>G	uc002dlq.2	-	8	815	c.739G>C	c.(739-741)GAG>CAG	p.E247Q	GGA2_uc010bxo.1_RNA	NM_015044	NP_055859	Q9UJY4	GGA2_HUMAN	ADP-ribosylation factor binding protein 2	247	GAT.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|clathrin-coated vesicle|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.0386)		CTCAGCATCTCCTGCAGCACC	0.527													29	106	---	---	---	---	PASS	G	23497395	G	G	23497395	3	3	66	1	0	0	0	0	1	0	0	0	6353	864	30	2	1142	2	GGA2	16	23497395	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2945309	23497395	66857358	579	26284										
CACNG3	10368	broad.mit.edu	37	chr16	24373168	24373168	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	taataatccggccaacaggcGcaccacgcccgtctgaactg	9	15	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:24373168G>C	uc002dmf.2	+	4	2132	c.932G>C	c.(931-933)CGC>CCC	p.R311P		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	311					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0				GBM - Glioblastoma multiforme(48;0.0809)		GCCAACAGGCGCACCACGCCC	0.562													27	32	---	---	---	---	PASS	C	24373168	C	C	24373168	3	2	66	1	0	0	0	0	1	0	0	0	2558	1087	38	4	946	4	CACNG3	16	24373168	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	875773	24373168	65981585	580	26285										
NFATC2IP	84901	broad.mit.edu	37	chr16	28970122	28970122	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tccttttgctttttggagagAcagagctatcacctactgcc	8	11	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:28970122A>G	uc002dru.2	+	6	946	c.931A>G	c.(931-933)ACA>GCA	p.T311A	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Missense_Mutation_p.T32A|NFATC2IP_uc002drv.2_Missense_Mutation_p.T30A|NFATC2IP_uc010vdh.1_Missense_Mutation_p.T19A	NM_032815	NP_116204	Q8NCF5	NF2IP_HUMAN	nuclear factor of activated T-cells,	311						cytoplasm|nucleus				ovary(1)	1						TTTTGGAGAGACAGAGCTATC	0.582													52	52	---	---	---	---	PASS	G	28970122	G	G	28970122	3	3	66	1	0	0	0	0	1	0	0	0	10363	275	10	5	953	5	NFATC2IP	16	28970122	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	4596954	28970122	61384631	581	26286										
ZNF747	65988	broad.mit.edu	37	chr16	30545881	30545881	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gagaagtacacggccacgtcGgcgaagctcacggccccggg	15	14	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:30545881G>A	uc002dyn.2	-	1	314	c.120C>T	c.(118-120)GCC>GCT	p.A40A	ZNF768_uc010vex.1_5'UTR|ZNF747_uc002dyo.1_Silent_p.A40A|ZNF747_uc010vey.1_Silent_p.A40A|uc002dyp.1_5'Flank	NM_023931	NP_076420	Q9BV97	ZN747_HUMAN	zinc finger protein 747	40	KRAB.				regulation of transcription, DNA-dependent	intracellular	nucleic acid binding				0						CGGCCACGTCGGCGAAGCTCA	0.731													6	12	---	---	---	---	PASS	A	30545881	A	A	30545881	2	1	66	1	0	0	0	0	0	0	0	1	18127	1103	39	1		1	ZNF747	16	30545881	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	1575759	30545881	59808872	582	26287										
SETD1A	9739	broad.mit.edu	37	chr16	30976331	30976331	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcccagccggcccaccgaccAggactaccggcctcctgcct	10	21	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:30976331A>T	uc002ead.1	+	7	1954	c.1268A>T	c.(1267-1269)CAG>CTG	p.Q423L		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	423	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						CCCACCGACCAGGACTACCGG	0.657													42	47	---	---	---	---	PASS	T	30976331	T	T	30976331	3	4	66	1	0	0	0	0	1	0	0	0	14130	188	7	5	1290	5	SETD1A	16	30976331	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	430450	30976331	59378422	583	26288										
ITGAM	3684	broad.mit.edu	37	chr16	31335990	31335990	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agaattgcatcgaggacccaGtgagccccattgtgctgcgc	12	12	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:31335990G>C	uc002ebq.2	+	18	2274	c.2176G>C	c.(2176-2178)GTG>CTG	p.V726L	ITGAM_uc002ebr.2_Missense_Mutation_p.V727L|ITGAM_uc010can.2_Missense_Mutation_p.V132L|ITGAM_uc002ebs.1_Missense_Mutation_p.V132L|ITGAM_uc010vfj.1_5'Flank	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	726	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						CGAGGACCCAGTGAGCCCCAT	0.597													6	24	---	---	---	---	PASS	C	31335990	C	C	31335990	3	2	66	1	0	0	0	0	1	0	0	0	7887	1029	36	4	2249	4	ITGAM	16	31335990	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	359659	31335990	59018763	584	26289										
ABCC12	94160	broad.mit.edu	37	chr16	48149463	48149463	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtagagctgacggtcggagtAgacagcgcgggccaggctaa	17	9	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:48149463A>G	uc002efc.1	-	13	2198	c.1852T>C	c.(1852-1854)TAC>CAC	p.Y618H	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	618	ABC transporter 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CGGTCGGAGTAGACAGCGCGG	0.622													18	31	---	---	---	---	PASS	G	48149463	G	G	48149463	3	3	66	1	0	0	0	0	1	0	0	0	52	420	15	5	2295	5	ABCC12	16	48149463	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	16813473	48149463	42205290	585	26290										
RBL2	5934	broad.mit.edu	37	chr16	53473056	53473056	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atcctgaaatgttcagagcaGaggtaactatgttagagttt	10	5	1	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:53473056G>C	uc002ehi.3	+	2	487	c.369G>C	c.(367-369)CAG>CAC	p.Q123H	RBL2_uc010vgv.1_Missense_Mutation_p.Q49H	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	123					cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						GTTCAGAGCAGAGGTAACTAT	0.353													12	33	---	---	---	---	PASS	C	53473056	C	C	53473056	3	2	66	1	0	0	0	0	1	0	0	0	13110	933	33	2	375	2	RBL2	16	53473056	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	5323593	53473056	36881697	586	26291										
WWP2	11060	broad.mit.edu	37	chr16	69973306	69973306	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggaaacctggctgcccagaAgccacacctggtgagcctgc	12	14	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:69973306A>G	uc002exu.1	+	24	2592	c.2503A>G	c.(2503-2505)AGC>GGC	p.S835G	WWP2_uc002exv.1_Missense_Mutation_p.S835G|WWP2_uc010vlm.1_Missense_Mutation_p.S719G|WWP2_uc010vln.1_Missense_Mutation_p.S453G|WWP2_uc002exw.1_Missense_Mutation_p.S396G	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	835	HECT.				entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						GCTGCCCAGAAGCCACACCTG	0.567													24	41	---	---	---	---	PASS	G	69973306	G	G	69973306	3	3	66	1	0	0	0	0	1	0	0	0	17413	72	3	5	2593	5	WWP2	16	69973306	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	16500250	69973306	20381447	587	26292										
CNTNAP4	85445	broad.mit.edu	37	chr16	76573654	76573654	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acaagttaaataaatatcaaGagcctgatgttgttaacttt	6	5	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:76573654G>T	uc002feu.1	+	22	3644	c.3259G>T	c.(3259-3261)GAG>TAG	p.E1087*	CNTNAP4_uc002fev.1_Nonsense_Mutation_p.E951*|CNTNAP4_uc010chb.1_Nonsense_Mutation_p.E1014*|CNTNAP4_uc002fex.1_Nonsense_Mutation_p.E1090*	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	1087	Extracellular (Potential).|Laminin G-like 4.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TAAATATCAAGAGCCTGATGT	0.343													19	46	---	---	---	---	PASS	T	76573654	T	T	76573654	4	4	66	1	0	0	0	0	0	1	0	0	3649	943	33	2	3350	2	CNTNAP4	16	76573654	Nonsense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	6600348	76573654	13781099	588	26293										
MON1B	22879	broad.mit.edu	37	chr16	77228906	77228906	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttggtgccatgcgtgcccttGgggaggctgccagcttctct	14	12	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:77228906G>T	uc002fez.2	+	4	1480	c.1150G>T	c.(1150-1152)GGG>TGG	p.G384W	MON1B_uc010vnf.1_Missense_Mutation_p.G275W|MON1B_uc010vng.1_Missense_Mutation_p.G238W|MON1B_uc002ffa.2_Missense_Mutation_p.G264W	NM_014940	NP_055755	Q7L1V2	MON1B_HUMAN	MON1 homolog B	384							protein binding				0						GCGTGCCCTTGGGGAGGCTGC	0.647													17	21	---	---	---	---	PASS	T	77228906	T	T	77228906	3	4	66	1	0	0	0	0	1	0	0	0	9699	1348	47	3	1160	3	MON1B	16	77228906	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	655252	77228906	13125847	589	26294										
KCNG4	93107	broad.mit.edu	37	chr16	84270496	84270496	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggttcatgcacaggccccagCgcgaggagtgcgaggcgggg	19	11	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:84270496C>T	uc010voc.1	-	2	717	c.596G>A	c.(595-597)CGC>CAC	p.R199H	KCNG4_uc002fhu.1_Missense_Mutation_p.R199H	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	199						voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						CAGGCCCCAGCGCGAGGAGTG	0.677													11	30	---	---	---	---	PASS	T	84270496	T	T	84270496	3	4	66	1	0	0	0	0	1	0	0	0	8030	768	27	1	969	1	KCNG4	16	84270496	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	7041590	84270496	6084257	590	26295										
JPH3	57338	broad.mit.edu	37	chr16	87636784	87636784	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gggcaggtttaattttgacgAcggagggtcctactgtggag	16	6	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr16:87636784A>T	uc002fkd.2	+	1	286	c.32A>T	c.(31-33)GAC>GTC	p.D11V	JPH3_uc010vou.1_Intron	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	11	Gly-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		AATTTTGACGACGGAGGGTCC	0.617													29	60	---	---	---	---	PASS	T	87636784	T	T	87636784	3	4	66	1	0	0	0	0	1	0	0	0	7962	275	10	5	34	5	JPH3	16	87636784	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	3366288	87636784	2717969	591	26296										
OR3A1	4994	broad.mit.edu	37	chr17	3195614	3195614	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgcacgcttgcgggacaggAgacgactcaacattgatgga	13	10	1	2	rs149271851		TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:3195614A>G	uc002fvh.1	-	1	263	c.263T>C	c.(262-264)CTC>CCC	p.L88P		NM_002550	NP_002541	P47881	OR3A1_HUMAN	olfactory receptor, family 3, subfamily A,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(2)|central_nervous_system(1)	3						GCGGGACAGGAGACGACTCAA	0.562													34	21	---	---	---	---	PASS	G	3195614	G	G	3195614	3	3	66	1	0	0	0	0	1	0	0	0	11037	304	11	5	688	5	OR3A1	17	3195614	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08		3195614	77999596	592	26297										
ZNF232	7775	broad.mit.edu	37	chr17	5009781	5009781	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgatcctttgtccttgggctCtgggccatcttctgtaacaa	9	11	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:5009781C>A	uc002gas.2	-	5	1346	c.592G>T	c.(592-594)GAG>TAG	p.E198*	ZNF232_uc002gar.1_Nonsense_Mutation_p.E216*|ZNF232_uc002gat.2_Nonsense_Mutation_p.E225*	NM_014519	NP_055334	Q9UNY5	ZN232_HUMAN	zinc finger protein 232	198					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)	2						TCCTTGGGCTCTGGGCCATCT	0.388													45	26	---	---	---	---	PASS	A	5009781	A	A	5009781	4	1	66	1	0	0	0	0	0	1	0	0	17782	922	32	2	665	2	ZNF232	17	5009781	Nonsense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1814167	5009781	76185429	593	26298										
USP6	9098	broad.mit.edu	37	chr17	5072240	5072240	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gctctccaagcccaggattcTggcaagagaggtgaagaaag	13	9	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:5072240T>G	uc002gau.1	+	35	5637	c.3407T>G	c.(3406-3408)CTG>CGG	p.L1136R	USP6_uc002gav.1_Missense_Mutation_p.L1136R|USP6_uc010ckz.1_Missense_Mutation_p.L819R	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	1136					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						CCCAGGATTCTGGCAAGAGAG	0.542			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								89	49	---	---	---	---	PASS	G	5072240	G	G	5072240	3	3	66	1	0	0	0	0	1	0	0	0	17083	1580	55	5	3509	5	USP6	17	5072240	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	62459	5072240	76122970	594	26299										
YBX2	51087	broad.mit.edu	37	chr17	7193680	7193680	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttgcccagagtcttcagcccGctcccctttactgccaggtc	8	17	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:7193680G>A	uc002gfq.2	-	5	691	c.634C>T	c.(634-636)CGG>TGG	p.R212W		NM_015982	NP_057066	Q9Y2T7	YBOX2_HUMAN	Y box binding protein 2	212	Pro-rich.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter|translational attenuation	cytoplasm|nucleus	DNA binding				0						TCTTCAGCCCGCTCCCCTTTA	0.677													62	37	---	---	---	---	PASS	A	7193680	A	A	7193680	3	1	66	1	0	0	0	0	1	0	0	0	17467	1086	38	1	476	1	YBX2	17	7193680	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2121440	7193680	74001530	595	26300										
TP53	7157	broad.mit.edu	37	chr17	7578177	7578177	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	accccagttgcaaaccagacCtcaggcggctcatagggcac	10	15	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:7578177C>T	uc002gim.2	-	6	866	c.672G>A	c.(670-672)GAG>GAA	p.E224E	TP53_uc002gig.1_Silent_p.E224E|TP53_uc002gih.2_Silent_p.E224E|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Silent_p.E92E|TP53_uc010cng.1_Silent_p.E92E|TP53_uc002gii.1_Silent_p.E92E|TP53_uc010cnh.1_Silent_p.E224E|TP53_uc010cni.1_Silent_p.E224E|TP53_uc002gij.2_Silent_p.E224E|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Silent_p.E131E|TP53_uc002gio.2_Silent_p.E92E|TP53_uc010vug.1_Silent_p.E185E	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	224	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> D (in sporadic cancers; somatic mutation).|E -> G (in sporadic cancers; somatic mutation).|E -> V (in a sporadic cancer; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.E224D(11)|p.0?(7)|p.E224E(6)|p.E224K(5)|p.E224*(4)|p.?(3)|p.E224G(2)|p.E224fs*4(1)|p.E224fs*5(1)|p.V218_E224delVPYEPPE(1)|p.E224fs*23(1)|p.V225fs*24(1)|p.E224fs*24(1)|p.E224_V225insXX(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)		CAAACCAGACCTCAGGCGGCT	0.522		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	7	---	---	---	---	PASS	T	7578177	T	T	7578177	2	4	66	1	0	0	0	0	0	0	0	1	16378	695	24	3		3	TP53	17	7578177	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	384497	7578177	73617033	596	26301										
CHD3	1107	broad.mit.edu	37	chr17	7798755	7798755	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caacaggcagatggaaatccAgatgtcccacccccccgtcc	8	17	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:7798755A>T	uc002gje.2	+	10	1752	c.1602A>T	c.(1600-1602)CCA>CCT	p.P534P	CHD3_uc002gjd.2_Silent_p.P593P|CHD3_uc002gjf.2_Silent_p.P534P|CHD3_uc002gjg.1_Silent_p.P362P	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	534	Chromo 1.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				ATGGAAATCCAGATGTCCCAC	0.592													70	38	---	---	---	---	PASS	T	7798755	T	T	7798755	2	4	66	1	0	0	0	0	0	0	0	1	3326	175	7	5		5	CHD3	17	7798755	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	220578	7798755	73396455	597	26302										
DNAH9	1770	broad.mit.edu	37	chr17	11666833	11666833	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttctggaatgtctcctgaccAcggaggacatccctgcagac	10	13	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:11666833A>G	uc002gne.2	+	36	7140	c.7072A>G	c.(7072-7074)ACG>GCG	p.T2358A	DNAH9_uc010coo.2_Missense_Mutation_p.T1652A	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2358					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TCTCCTGACCACGGAGGACAT	0.502													79	37	---	---	---	---	PASS	G	11666833	G	G	11666833	3	3	66	1	0	0	0	0	1	0	0	0	4608	159	6	5	7214	5	DNAH9	17	11666833	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	3868078	11666833	69528377	598	26303										
MYOCD	93649	broad.mit.edu	37	chr17	12626289	12626289	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agctggtggaaaaaaacattCttcctgtggattctgctgtg	11	7	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:12626289C>G	uc002gnn.2	+	5	678	c.379C>G	c.(379-381)CTT>GTT	p.L127V	MYOCD_uc002gno.2_Missense_Mutation_p.L127V|MYOCD_uc002gnp.1_Missense_Mutation_p.L31V	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	127	RPEL 3.				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		AAAAAACATTCTTCCTGTGGA	0.483													85	60	---	---	---	---	PASS	G	12626289	G	G	12626289	3	3	66	1	0	0	0	0	1	0	0	0	10087	913	32	2	397	2	MYOCD	17	12626289	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	959456	12626289	68568921	599	26304										
NOS2	4843	broad.mit.edu	37	chr17	26110057	26110057	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aagatgagctcatctcccgtCagttggtaggttcctgttgt	11	9	3	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:26110057C>A	uc002gzu.2	-	6	807	c.543G>T	c.(541-543)CTG>CTT	p.L181L	NOS2_uc010crh.1_Silent_p.L181L|NOS2_uc010wab.1_Silent_p.L181L	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	181					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	CATCTCCCGTCAGTTGGTAGG	0.547													44	90	---	---	---	---	PASS	A	26110057	A	A	26110057	2	1	66	1	0	0	0	0	0	0	0	1	10543	813	29	2		2	NOS2	17	26110057	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	13483768	26110057	55085153	600	26305										
SLC46A1	113235	broad.mit.edu	37	chr17	26732154	26732154	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agcatcccagccaccccgatGctggcttccagcagggccat	10	17	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:26732154G>T	uc002hbf.1	-	2	657	c.561C>A	c.(559-561)AGC>AGA	p.S187R	SLC46A1_uc002hbg.1_Missense_Mutation_p.S187R|SLC46A1_uc010wak.1_Missense_Mutation_p.S187R	NM_080669	NP_542400	Q96NT5	PCFT_HUMAN	proton-coupled folate transporter	187	Helical; (Potential).				cellular iron ion homeostasis|folic acid metabolic process	apical plasma membrane|cytoplasm|integral to membrane	folic acid binding|folic acid transporter activity|heme transporter activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Folic Acid(DB00158)	CCACCCCGATGCTGGCTTCCA	0.662													10	29	---	---	---	---	PASS	T	26732154	T	T	26732154	3	4	66	1	0	0	0	0	1	0	0	0	14644	1310	46	3	835	3	SLC46A1	17	26732154	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	622097	26732154	54463056	601	26306										
SUPT6H	6830	broad.mit.edu	37	chr17	27010298	27010298	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtgtgcaggatgtggatgagGcccactatgcctattccttc	12	10	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:27010298G>A	uc002hby.2	+	16	1981	c.1891G>A	c.(1891-1893)GCC>ACC	p.A631T	SUPT6H_uc010crt.2_Missense_Mutation_p.A631T	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	631					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					TGTGGATGAGGCCCACTATGC	0.507													48	59	---	---	---	---	PASS	A	27010298	A	A	27010298	3	1	66	1	0	0	0	0	1	0	0	0	15397	1203	42	3	1949	3	SUPT6H	17	27010298	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	278144	27010298	54184912	602	26307										
C17orf63	55731	broad.mit.edu	37	chr17	27086441	27086441	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gggacagtgcctggggtggcGggataccctgagggtgctgc	20	9	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:27086441G>A	uc002hct.1	-	3	803	c.536C>T	c.(535-537)CCG>CTG	p.P179L	C17orf63_uc010wax.1_Missense_Mutation_p.P179L|C17orf63_uc010way.1_Missense_Mutation_p.P179L|C17orf63_uc002hcw.2_Missense_Mutation_p.P51L	NM_018182	NP_060652	Q8WU58	CQ063_HUMAN	hypothetical protein LOC55731	179	Gln-rich.									ovary(1)	1	all_epithelial(6;5.06e-20)|Lung NSC(42;0.01)		Epithelial(11;3.38e-06)|all cancers(11;2.46e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.104)			CTGGGGTGGCGGGATACCCTG	0.711													9	16	---	---	---	---	PASS	A	27086441	A	A	27086441	3	1	66	1	0	0	0	0	1	0	0	0	1871	1116	39	1		1	C17orf63	17	27086441	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	76143	27086441	54108769	603	26308										
RHOT1	55288	broad.mit.edu	37	chr17	30520215	30520215	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggatgtcaagaatgtagtcAgaaaacatataagtgatggt	11	3	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:30520215A>G	uc002hgz.2	+	10	939	c.700A>G	c.(700-702)AGA>GGA	p.R234G	RHOT1_uc002hgw.2_Missense_Mutation_p.R234G|RHOT1_uc002hgy.2_Missense_Mutation_p.R234G|RHOT1_uc002hha.2_Missense_Mutation_p.R107G|RHOT1_uc010csv.2_RNA|RHOT1_uc002hgx.2_Missense_Mutation_p.R107G|RHOT1_uc010wby.1_Missense_Mutation_p.R234G|RHOT1_uc002hhb.2_Missense_Mutation_p.R213G|RHOT1_uc002hgv.2_Missense_Mutation_p.R234G	NM_018307	NP_060777	Q8IXI2	MIRO1_HUMAN	ras homolog gene family, member T1 isoform 3	234	Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(56;0.0255)|Breast(31;0.116)|Ovarian(249;0.182)				GAATGTAGTCAGAAAACATAT	0.358													39	56	---	---	---	---	PASS	G	30520215	G	G	30520215	3	3	66	1	0	0	0	0	1	0	0	0	13343	180	7	5	738	5	RHOT1	17	30520215	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	3433774	30520215	50674995	604	26309										
UNC45B	146862	broad.mit.edu	37	chr17	33504141	33504141	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atccggacattgcttttcctGgggagcgggtaggtgcttgg	16	8	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:33504141G>T	uc002hja.2	+	16	2234	c.2137G>T	c.(2137-2139)GGG>TGG	p.G713W	UNC45B_uc002hjb.2_Missense_Mutation_p.G711W|UNC45B_uc002hjc.2_Missense_Mutation_p.G711W|UNC45B_uc010cto.2_Missense_Mutation_p.G632W	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	713					cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				TGCTTTTCCTGGGGAGCGGGT	0.577													33	43	---	---	---	---	PASS	T	33504141	T	T	33504141	3	4	66	1	0	0	0	0	1	0	0	0	16986	1348	47	3	2195	3	UNC45B	17	33504141	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2983926	33504141	47691069	605	26310										
SYNRG	11276	broad.mit.edu	37	chr17	35913393	35913393	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tggaagggagatctaaggacTtcactgatgcagagtcttct	12	7	4	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:35913393T>C	uc002hoa.2	-	14	2515	c.2432A>G	c.(2431-2433)AAG>AGG	p.K811R	SYNRG_uc010wde.1_Missense_Mutation_p.K733R|SYNRG_uc010wdf.1_Missense_Mutation_p.K733R|SYNRG_uc002hoc.2_Missense_Mutation_p.K732R|SYNRG_uc002hoe.2_Missense_Mutation_p.K733R|SYNRG_uc002hod.2_Missense_Mutation_p.K733R|SYNRG_uc010wdg.1_Missense_Mutation_p.K650R|SYNRG_uc002hob.2_Missense_Mutation_p.K811R|SYNRG_uc002hof.2_Missense_Mutation_p.K523R|SYNRG_uc010cvd.1_Missense_Mutation_p.K611R	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	811					endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						ATCTAAGGACTTCACTGATGC	0.468													54	70	---	---	---	---	PASS	C	35913393	C	C	35913393	3	2	66	1	0	0	0	0	1	0	0	0	15457	1609	56	5	1621	5	SYNRG	17	35913393	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	2409252	35913393	45281817	606	26311										
KRT27	342574	broad.mit.edu	37	chr17	38938327	38938327	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcttaagttcgtcaataattGggaaatatctgctgtaatca	7	6	4	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:38938327G>C	uc002hvg.2	-	1	460	c.419C>G	c.(418-420)CCA>CGA	p.P140R		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	140	Rod.|Linker 1.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				GTCAATAATTGGGAAATATCT	0.463													40	73	---	---	---	---	PASS	C	38938327	C	C	38938327	3	2	66	1	0	0	0	0	1	0	0	0	8464	1348	47	4	992	4	KRT27	17	38938327	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	3024934	38938327	42256883	607	26312										
KRTAP9-2	83899	broad.mit.edu	37	chr17	39382983	39382983	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caggaccacctgctggaagcCcaccactgtgaccacctgca	9	17	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:39382983C>A	uc002hwf.2	+	1	84	c.77C>A	c.(76-78)CCC>CAC	p.P26H		NM_031961	NP_114167	Q9BYQ4	KRA92_HUMAN	keratin associated protein 9.2	26	17 X 5 AA repeats of C-C-[RQVSGE]-[SPTQ]- [TASP].					keratin filament	protein binding			upper_aerodigestive_tract(1)	1		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			TGCTGGAAGCCCACCACTGTG	0.642													4	113	---	---	---	---	PASS	A	39382983	A	A	39382983	3	1	66	1	0	0	0	0	1	0	0	0	8573	623	22	3	79	3	KRTAP9-2	17	39382983	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	444656	39382983	41812227	608	26313										
KRTAP9-8	83901	broad.mit.edu	37	chr17	39394365	39394365	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caggaccacctgctggaagcCcaccactgtgaccacctgca	9	17	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:39394365C>A	uc002hwh.3	+	1	96	c.62C>A	c.(61-63)CCC>CAC	p.P21H	KRTAP9-9_uc010wfq.1_Intron	NM_031963	NP_114169	Q9BYQ0	KRA98_HUMAN	keratin associated protein 9.8	21	15 X 5 AA repeats of C-C-[RQVSGE]- [SPSNQ]-[TASPI].					keratin filament				ovary(1)	1		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			TGCTGGAAGCCCACCACTGTG	0.607													5	130	---	---	---	---	PASS	A	39394365	A	A	39394365	3	1	66	1	0	0	0	0	1	0	0	0	8576	623	22	3	64	3	KRTAP9-8	17	39394365	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	11382	39394365	41800845	609	26314										
KRTAP9-4	85280	broad.mit.edu	37	chr17	39406049	39406049	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caggaccacctgctggaagcCcaccactgtgaccacctgca	9	17	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:39406049C>A	uc002hwi.2	+	1	111	c.77C>A	c.(76-78)CCC>CAC	p.P26H	KRTAP9-9_uc010wfq.1_Intron	NM_033191	NP_149461	Q9BYQ2	KRA94_HUMAN	keratin associated protein 9-4	26	15 X 5 AA repeats of C-C-[RQVGE]-[SPTN]- [TASPF].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			TGCTGGAAGCCCACCACTGTG	0.622													29	73	---	---	---	---	PASS	A	39406049	A	A	39406049	3	1	66	1	0	0	0	0	1	0	0	0	8575	623	22	3	79	3	KRTAP9-4	17	39406049	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	11684	39406049	41789161	610	26315										
KRT16	3868	broad.mit.edu	37	chr17	39767163	39767163	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tggagcaccctccggagctcCgtcacctcactgcggctgct	11	17	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:39767163C>A	uc002hxg.3	-	5	1141	c.1002G>T	c.(1000-1002)ACG>ACT	p.T334T	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	334	Rod.|Coil 2.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				TCCGGAGCTCCGTCACCTCAC	0.597													42	48	---	---	---	---	PASS	A	39767163	A	A	39767163	2	1	66	1	0	0	0	0	0	0	0	1	8453	639	23	1		1	KRT16	17	39767163	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	361114	39767163	41428047	611	26316										
MYL4	4635	broad.mit.edu	37	chr17	45299068	45299068	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agatgaatgtcaagatgctgGactttgagacgttcttgccc	11	8	2	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:45299068G>T	uc002ilg.2	+	5	462	c.334G>T	c.(334-336)GAC>TAC	p.D112Y	MYL4_uc002ilh.2_Missense_Mutation_p.D112Y	NM_001002841	NP_001002841	P12829	MYL4_HUMAN	atrial/embryonic alkali myosin light chain	112					cardiac muscle contraction|muscle filament sliding|muscle organ development|positive regulation of ATPase activity|regulation of the force of heart contraction	A band|cytosol|muscle myosin complex	actin filament binding|actin monomer binding|calcium ion binding|myosin II heavy chain binding|structural constituent of muscle			ovary(2)	2						CAAGATGCTGGACTTTGAGAC	0.537													73	102	---	---	---	---	PASS	T	45299068	T	T	45299068	3	4	66	1	0	0	0	0	1	0	0	0	10049	1174	41	2	348	2	MYL4	17	45299068	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	5531905	45299068	35896142	612	26317										
GIP	2695	broad.mit.edu	37	chr17	47044509	47044509	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tttcctctcaccactcctacCtgaagtgaccctctttcttc	3	17	3	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:47044509C>A	uc002iol.1	-	2	184	c.86G>T	c.(85-87)AGC>ATC	p.S29I		NM_004123	NP_004114	P09681	GIP_HUMAN	gastric inhibitory polypeptide preproprotein	29					energy reserve metabolic process|signal transduction	extracellular region|soluble fraction	hormone activity			skin(1)	1						CCACTCCTACCTGAAGTGACC	0.527													4	129	---	---	---	---	PASS	A	47044509	A	A	47044509	3	1	66	1	0	0	0	0	1	0	0	0	6391	695	24	3	395	3	GIP	17	47044509	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1745441	47044509	34150701	613	26318										
ANKFN1	162282	broad.mit.edu	37	chr17	54554865	54554865	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acaggatattctatcctatcAcaaaaggagtcatcagcgtc	7	10	4	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:54554865A>G	uc002iun.1	+	15	1834	c.1799A>G	c.(1798-1800)CAC>CGC	p.H600R		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	600										large_intestine(1)|ovary(1)	2						CTATCCTATCACAAAAGGAGT	0.348													31	39	---	---	---	---	PASS	G	54554865	G	G	54554865	3	3	66	1	0	0	0	0	1	0	0	0	625	159	6	5	1857	5	ANKFN1	17	54554865	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	7510356	54554865	26640345	614	26319										
INTS2	57508	broad.mit.edu	37	chr17	60004014	60004014	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acattcagtcattattactgTttgttgatcctaatggtaaa	6	6	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:60004014T>C	uc002izn.2	-	2	92	c.16A>G	c.(16-18)ACA>GCA	p.T6A	INTS2_uc002izm.2_5'UTR	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	6					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						ATTATTACTGTTTGTTGATCC	0.363													6	16	---	---	---	---	PASS	C	60004014	C	C	60004014	3	2	66	1	0	0	0	0	1	0	0	0	7778	1725	60	5	3694	5	INTS2	17	60004014	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	5449149	60004014	21191196	615	26320										
GH2	2689	broad.mit.edu	37	chr17	61957775	61957775	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcctgaagcagtagagcagcCcgtagttcttgagcagtgcg	13	10	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:61957775C>T	uc002jco.1	-	5	622	c.560G>A	c.(559-561)GGG>GAG	p.G187E	GH2_uc002jcj.2_Intron|CSH2_uc002jck.2_Intron|GH2_uc002jcl.1_3'UTR|GH2_uc002jcm.1_Missense_Mutation_p.G186S|GH2_uc002jcn.1_Missense_Mutation_p.G172E	NM_002059	NP_002050	P01242	SOM2_HUMAN	growth hormone 2 isoform 1	187						extracellular region	hormone activity			upper_aerodigestive_tract(2)|pancreas(1)	3						GTAGAGCAGCCCGTAGTTCTT	0.562													44	69	---	---	---	---	PASS	T	61957775	T	T	61957775	3	4	66	1	0	0	0	0	1	0	0	0	6368	623	22	3	185	3	GH2	17	61957775	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1953761	61957775	19237435	616	26321										
ABCA10	10349	broad.mit.edu	37	chr17	67186506	67186506	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cacatttttatacctggttcAtcaattgctgattttccttc	4	10	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:67186506A>T	uc010dfa.1	-	19	3003	c.2124T>A	c.(2122-2124)GAT>GAA	p.D708E	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_Missense_Mutation_p.D309E	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	708					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TACCTGGTTCATCAATTGCTG	0.323													30	48	---	---	---	---	PASS	T	67186506	T	T	67186506	3	4	66	1	0	0	0	0	1	0	0	0	29	214	8	5	2595	5	ABCA10	17	67186506	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	5228731	67186506	14008704	617	26322										
KCNJ2	3759	broad.mit.edu	37	chr17	68171777	68171777	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttgtcttcagtcacaatgcCgtgattgccatgagagacgg	11	10	3	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:68171777C>T	uc010dfg.2	+	2	998	c.597C>T	c.(595-597)GCC>GCT	p.A199A	KCNJ2_uc002jir.2_Silent_p.A199A	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	199	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					GTCACAATGCCGTGATTGCCA	0.512													55	68	---	---	---	---	PASS	T	68171777	T	T	68171777	2	4	66	1	0	0	0	0	0	0	0	1	8051	639	23	1		1	KCNJ2	17	68171777	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	985271	68171777	13023433	618	26323										
KIF19	124602	broad.mit.edu	37	chr17	72351440	72351440	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atggcaaagatggatgctccCggcataactgaggggccctg	14	10	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:72351440C>G	uc002jkm.3	+	20	3124	c.2986C>G	c.(2986-2988)CGG>GGG	p.R996G		NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	996					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						TGGATGCTCCCGGCATAACTG	0.647													8	19	---	---	---	---	PASS	G	72351440	G	G	72351440	3	3	66	1	0	0	0	0	1	0	0	0	8282	643	23	4	3064	4	KIF19	17	72351440	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4179663	72351440	8843770	619	26324										
GRIN2C	2905	broad.mit.edu	37	chr17	72845955	72845955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggagacggtgccattgctgcGagccaccatcacactgatgc	12	13	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:72845955G>T	uc002jlt.1	-	7	1765	c.1609C>A	c.(1609-1611)CGC>AGC	p.R537S	GRIN2C_uc010wrh.1_RNA|GRIN2C_uc002jlu.1_Missense_Mutation_p.R537S	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	537	Extracellular (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	CCATTGCTGCGAGCCACCATC	0.627													43	70	---	---	---	---	PASS	T	72845955	T	T	72845955	3	4	66	1	0	0	0	0	1	0	0	0	6781	1058	37	2	2120	2	GRIN2C	17	72845955	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	494515	72845955	8349255	620	26325										
OTOP2	92736	broad.mit.edu	37	chr17	72923879	72923879	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagcaacgccagccacgcccGtctcatctctgaccgtgagt	9	17	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:72923879G>A	uc010wrp.1	+	6	718	c.629G>A	c.(628-630)CGT>CAT	p.R210H	OTOP2_uc002jmf.1_3'UTR	NM_178160	NP_835454	Q7RTS6	OTOP2_HUMAN	otopetrin 2	210						integral to membrane				ovary(3)|large_intestine(1)	4	all_lung(278;0.172)|Lung NSC(278;0.207)					AGCCACGCCCGTCTCATCTCT	0.577													17	27	---	---	---	---	PASS	A	72923879	A	A	72923879	3	1	66	1	0	0	0	0	1	0	0	0	11306	1145	40	1	643	1	OTOP2	17	72923879	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	77924	72923879	8271331	621	26326										
LLGL2	3993	broad.mit.edu	37	chr17	73560510	73560510	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	actgcatctcagtgatccacGatggccagcagacggccttc	10	14	1	2	rs34553577		TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:73560510G>A	uc002joh.2	+	10	1112	c.958G>A	c.(958-960)GAT>AAT	p.D320N	LLGL2_uc002jog.1_Missense_Mutation_p.D320N|LLGL2_uc010dgf.1_Missense_Mutation_p.D320N|LLGL2_uc002joi.2_Missense_Mutation_p.D320N|LLGL2_uc010dgg.1_Missense_Mutation_p.D320N|LLGL2_uc002joj.2_Missense_Mutation_p.D309N|LLGL2_uc010wsd.1_5'UTR|uc002jok.2_5'Flank	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	320	WD 6.				cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			AGTGATCCACGATGGCCAGCA	0.637													42	53	---	---	---	---	PASS	A	73560510	A	A	73560510	3	1	66	1	0	0	0	0	1	0	0	0	8834	1058	37	2	992	2	LLGL2	17	73560510	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	636631	73560510	7634700	622	26327										
C17orf56	146705	broad.mit.edu	37	chr17	79205420	79205420	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctcgcggctcaggaaggcgCgtggtccccgagtcacagtc	14	15	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr17:79205420C>T	uc002jzu.1	-	9	795	c.773G>A	c.(772-774)CGC>CAC	p.R258H	C17orf56_uc002jzr.1_5'Flank|C17orf56_uc002jzs.1_Missense_Mutation_p.R174H|C17orf56_uc002jzt.1_Missense_Mutation_p.R174H|C17orf56_uc002jzv.1_Missense_Mutation_p.R106H|uc002jzw.1_RNA	NM_144679	NP_653280	Q96N21	CQ056_HUMAN	hypothetical protein LOC146705	258						integral to membrane					0	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CAGGAAGGCGCGTGGTCCCCG	0.667													13	22	---	---	---	---	PASS	T	79205420	T	T	79205420	3	4	66	1	0	0	0	0	1	0	0	0	1864	768	27	1	820	1	C17orf56	17	79205420	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	5644910	79205420	1989790	623	26328										
EPB41L3	23136	broad.mit.edu	37	chr18	5438068	5438068	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agatagttgggcagggtctgGtggataaaatttcacattaa	12	4	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:5438068G>C	uc002kmt.1	-	6	657	c.571C>G	c.(571-573)CCA>GCA	p.P191A	EPB41L3_uc010wzh.1_Missense_Mutation_p.P191A|EPB41L3_uc002kmu.1_Missense_Mutation_p.P191A|EPB41L3_uc010dkq.1_Missense_Mutation_p.P82A|EPB41L3_uc010dks.1_Missense_Mutation_p.P213A|EPB41L3_uc002kmv.1_Missense_Mutation_p.P82A	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	191	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GCAGGGTCTGGTGGATAAAAT	0.383													28	97	---	---	---	---	PASS	C	5438068	C	C	5438068	3	2	66	1	0	0	0	0	1	0	0	0	5154	1261	44	4	2760	4	EPB41L3	18	5438068	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08		5438068	72639180	624	26329										
L3MBTL4	91133	broad.mit.edu	37	chr18	5969551	5969551	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agcacctgctgcgcctgctcCaccgagtattctgtaagaga	10	13	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:5969551C>A	uc002kmz.3	-	18	1642	c.1482G>T	c.(1480-1482)GTG>GTT	p.V494V	L3MBTL4_uc010dkt.2_Silent_p.V494V|L3MBTL4_uc002kmy.3_Silent_p.V323V	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	494					chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				GCGCCTGCTCCACCGAGTATT	0.627													40	41	---	---	---	---	PASS	A	5969551	A	A	5969551	2	1	66	1	0	0	0	0	0	0	0	1	8594	581	21	3		3	L3MBTL4	18	5969551	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	531483	5969551	72107697	625	26330										
ARHGAP28	79822	broad.mit.edu	37	chr18	6873568	6873568	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caaaacagagaaagtaaaagGacgaggtaactaagaagact	10	5	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:6873568G>T	uc010wzi.1	+	7	822	c.584G>T	c.(583-585)GGA>GTA	p.G195V	ARHGAP28_uc002knc.2_Missense_Mutation_p.G320V|ARHGAP28_uc002knd.2_Missense_Mutation_p.G213V|ARHGAP28_uc002kne.2_Missense_Mutation_p.G213V|ARHGAP28_uc002knf.2_Missense_Mutation_p.G204V			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	195					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				AAAGTAAAAGGACGAGGTAAC	0.358													41	67	---	---	---	---	PASS	T	6873568	T	T	6873568	3	4	66	1	0	0	0	0	1	0	0	0	877	1174	41	2	660	2	ARHGAP28	18	6873568	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	904017	6873568	71203680	626	26331										
CEP192	55125	broad.mit.edu	37	chr18	13056424	13056424	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctggaagcaccaccttgcctCagtgccatgctggcaatgcc	10	15	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:13056424C>T	uc010xac.1	+	19	3915	c.3835C>T	c.(3835-3837)CAG>TAG	p.Q1279*	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Nonsense_Mutation_p.Q804*|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_5'UTR|CEP192_uc002krs.1_Nonsense_Mutation_p.Q1020*	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1279										ovary(4)|pancreas(1)	5						CACCTTGCCTCAGTGCCATGC	0.562													24	62	---	---	---	---	PASS	T	13056424	T	T	13056424	4	4	66	1	0	0	0	0	0	1	0	0	3251	827	29	2	3905	2	CEP192	18	13056424	Nonsense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	6182856	13056424	65020824	627	26332										
MC2R	4158	broad.mit.edu	37	chr18	13885023	13885023	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acatgatgggagaagatcacCatggtgatgccagtccccgt	12	10	1	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:13885023C>A	uc002ksp.1	-	2	672	c.495G>T	c.(493-495)ATG>ATT	p.M165I		NM_000529	NP_000520	Q01718	ACTHR_HUMAN	melanocortin 2 receptor	165	Helical; Name=4; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	corticotropin receptor activity|protein binding			ovary(4)|skin(1)	5					Corticotropin(DB01285)|Cosyntropin(DB01284)	AGAAGATCACCATGGTGATGC	0.572													33	54	---	---	---	---	PASS	A	13885023	A	A	13885023	3	1	66	1	0	0	0	0	1	0	0	0	9364	594	21	3	402	3	MC2R	18	13885023	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	828599	13885023	64192225	628	26333										
ZNF521	25925	broad.mit.edu	37	chr18	22806327	22806327	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtcagtgagaaaccccatatAgcaatggggacaaaagaatg	11	7	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:22806327A>G	uc002kvk.2	-	4	1802	c.1555T>C	c.(1555-1557)TAT>CAT	p.Y519H	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.Y519H|ZNF521_uc002kvl.2_Missense_Mutation_p.Y299H	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	519	C2H2-type 12.				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)					AACCCCATATAGCAATGGGGA	0.473			T	PAX5	ALL								35	553	---	---	---	---	PASS	G	22806327	G	G	22806327	3	3	66	1	0	0	0	0	1	0	0	0	17962	420	15	5	2400	5	ZNF521	18	22806327	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	8921304	22806327	55270921	629	26334			2	30		4	4	546	N	G_C_A	3.658967e-07
ZNF521	25925	broad.mit.edu	37	chr18	22806627	22806627	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caggtgaatctgcagaactgCaagacttgaaaataattgtt	9	6	1	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:22806627C>A	uc002kvk.2	-	4	1502	c.1255G>T	c.(1255-1257)GCA>TCA	p.A419S	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.A419S|ZNF521_uc002kvl.2_Missense_Mutation_p.A199S	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	419	C2H2-type 9; 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)					TGCAGAACTGCAAGACTTGAA	0.438			T	PAX5	ALL								38	577	---	---	---	---	PASS	A	22806627	A	A	22806627	3	1	66	1	0	0	0	0	1	0	0	0	17962	710	25	3	2700	3	ZNF521	18	22806627	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	300	22806627	55270621	630	26335			2	30		4	4	546	N	G_C_A	3.658967e-07
ZNF521	25925	broad.mit.edu	37	chr18	22806745	22806745	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccctcttcctccctcgactCtttgggattggcggggcagc	12	15	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:22806745C>G	uc002kvk.2	-	4	1384	c.1137G>C	c.(1135-1137)AAG>AAC	p.K379N	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.K379N|ZNF521_uc002kvl.2_Missense_Mutation_p.K159N	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	379					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)					TCCCTCGACTCTTTGGGATTG	0.532			T	PAX5	ALL								38	549	---	---	---	---	PASS	G	22806745	G	G	22806745	3	3	66	1	0	0	0	0	1	0	0	0	17962	912	32	2	2818	2	ZNF521	18	22806745	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	118	22806745	55270503	631	26336			2	30		4	4	546	N	G_C_A	3.658967e-07
ZNF521	25925	broad.mit.edu	37	chr18	22806872	22806872	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggctgttgctgtgattgcatGactccggttgctggtgactg	15	8	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:22806872G>A	uc002kvk.2	-	4	1257	c.1010C>T	c.(1009-1011)TCA>TTA	p.S337L	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.S337L|ZNF521_uc002kvl.2_Missense_Mutation_p.S117L	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	337					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)					GTGATTGCATGACTCCGGTTG	0.527			T	PAX5	ALL								34	344	---	---	---	---	PASS	A	22806872	A	A	22806872	3	1	66	1	0	0	0	0	1	0	0	0	17962	1294	45	2	2945	2	ZNF521	18	22806872	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	127	22806872	55270376	632	26337			2	30		4	4	546	N	G_C_A	3.658967e-07
AQP4	361	broad.mit.edu	37	chr18	24436197	24436197	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atactgaagacaatacctctCcagattggtctttccccttc	5	13	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:24436197C>G	uc002kwa.2	-	5	1013	c.950G>C	c.(949-951)GGA>GCA	p.G317A	AQP4_uc002kvz.2_Missense_Mutation_p.G295A	NM_001650	NP_001641	P55087	AQP4_HUMAN	aquaporin 4 isoform a	317	Cytoplasmic (Potential).				cellular response to interferon-gamma|excretion|nervous system development	cytoplasm|external side of plasma membrane|integral to plasma membrane	water channel activity				0	all_cancers(21;0.0172)|Lung NSC(5;0.00299)|all_lung(6;0.00747)|Ovarian(20;0.124)					CAATACCTCTCCAGATTGGTC	0.468													77	848	---	---	---	---	PASS	G	24436197	G	G	24436197	3	3	66	1	0	0	0	0	1	0	0	0	828	855	30	2	25	2	AQP4	18	24436197	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1629325	24436197	53641051	633	26338										
ZNF407	55628	broad.mit.edu	37	chr18	72343094	72343094	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgggcctgtatctgatgtgaTagcaagtttccctgagaatt	11	7	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:72343094T>A	uc002llw.2	+	1	176	c.119T>A	c.(118-120)ATA>AAA	p.I40K	ZNF407_uc010xfc.1_Missense_Mutation_p.I40K|ZNF407_uc010dqu.1_Missense_Mutation_p.I40K|ZNF407_uc002llu.2_Missense_Mutation_p.I39K	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	40					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		TCTGATGTGATAGCAAGTTTC	0.388													23	16	---	---	---	---	PASS	A	72343094	A	A	72343094	3	1	66	1	0	0	0	0	1	0	0	0	17884	1406	49	5	121	5	ZNF407	18	72343094	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	47906897	72343094	5734154	634	26339										
ZNF516	9658	broad.mit.edu	37	chr18	74154101	74154101	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	actcttgggcctgttcttgcTgcccgtcttggggccgtgcg	14	13	3	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:74154101T>A	uc010dqx.1	-	2	1145	c.910A>T	c.(910-912)AGC>TGC	p.S304C	ZNF516_uc002lme.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	304					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CTGTTCTTGCTGCCCGTCTTG	0.637													27	23	---	---	---	---	PASS	A	74154101	A	A	74154101	3	1	66	1	0	0	0	0	1	0	0	0	17957	1580	55	5	2602	5	ZNF516	18	74154101	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	1811007	74154101	3923147	635	26340										
GALR1	2587	broad.mit.edu	37	chr18	74962644	74962644	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cggcctgatcttcgcgctggGtgtgctgggcaacagcctag	15	12	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:74962644G>T	uc002lms.3	+	1	637	c.140G>T	c.(139-141)GGT>GTT	p.G47V		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	47	Helical; Name=1; (Potential).				digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		TTCGCGCTGGGTGTGCTGGGC	0.682													16	5	---	---	---	---	PASS	T	74962644	T	T	74962644	3	4	66	1	0	0	0	0	1	0	0	0	6227	1261	44	3	142	3	GALR1	18	74962644	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	808543	74962644	3114604	636	26341										
SALL3	27164	broad.mit.edu	37	chr18	76754897	76754897	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagcctgctgttcctgagcaGggagcggggtaagtgtccca	15	11	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:76754897G>C	uc002lmt.2	+	2	2906	c.2906G>C	c.(2905-2907)AGG>ACG	p.R969T	SALL3_uc010dra.2_Missense_Mutation_p.R576T	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	969					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		TTCCTGAGCAGGGAGCGGGGT	0.468													7	10	---	---	---	---	PASS	C	76754897	C	C	76754897	3	2	66	1	0	0	0	0	1	0	0	0	13812	1000	35	4	2912	4	SALL3	18	76754897	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1792253	76754897	1322351	637	26342										
ATP9B	374868	broad.mit.edu	37	chr18	76953201	76953201	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggaccttttttctatcagtGcttatgtttatgctcagaaa	7	7	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr18:76953201G>T	uc002lmx.2	+	9	906	c.892G>T	c.(892-894)GCT>TCT	p.A298S	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Missense_Mutation_p.A298S|ATP9B_uc002lmy.1_RNA|ATP9B_uc002lmz.1_5'UTR	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	298	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		TTCTATCAGTGCTTATGTTTA	0.313													48	31	---	---	---	---	PASS	T	76953201	T	T	76953201	3	4	66	1	0	0	0	0	1	0	0	0	1199	1319	46	3	926	3	ATP9B	18	76953201	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	198304	76953201	1124047	638	26343										
SHC2	25759	broad.mit.edu	37	chr19	440869	440869	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gttggaggctcacctggtcaCctgcgtgcgcgtgttaaagt	14	10	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:440869C>A	uc002loq.3	-	2	532	c.532G>T	c.(532-534)GTG>TTG	p.V178L	SHC2_uc002lop.3_5'Flank	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	178	PID.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACCTGGTCACCTGCGTGCGC	0.642													41	91	---	---	---	---	PASS	A	440869	A	A	440869	3	1	66	1	0	0	0	0	1	0	0	0	14271	507	18	3	1260	3	SHC2	19	440869	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08		440869	58688114	639	26344										
POLRMT	5442	broad.mit.edu	37	chr19	621340	621340	+	Silent	SNP	C	G	G													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acgcggtcccgcaggtgctgCgccagcgagaggcggtacag							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:621340C>G	uc002lpf.1	-	10	2414	c.2358G>C	c.(2356-2358)GCG>GCC	p.A786A		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	786					transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGGTGCTGCGCCAGCGAGA	0.721													18	16	---	---	---	---	PASS	G	621340	G	G	621340	2	3	66	1	0	0	0	0	0	0	0	1	12238	755	27	4		4	POLRMT	19	621340	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	180471	621340	58507643	640	26345	550	2								
POLRMT	5442	broad.mit.edu	37	chr19	621342	621342	+	Missense_Mutation	SNP	C	T	T													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcggtcccgcaggtgctgcgCcagcgagaggcggtacagcg							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:621342C>T	uc002lpf.1	-	10	2412	c.2356G>A	c.(2356-2358)GCG>ACG	p.A786T		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	786					transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGTGCTGCGCCAGCGAGAGG	0.721													17	16	---	---	---	---	PASS	T	621342	T	T	621342	3	4	66	1	0	0	0	0	1	0	0	0	12238	739	26	3	1384	3	POLRMT	19	621342	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2	621342	58507641	641	26346	550	2								
HMHA1	23526	broad.mit.edu	37	chr19	1073249	1073249	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acccgctgctgaacaccgtgGagacgctcaccgcagccggc	12	17	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:1073249G>A	uc002lqz.1	+	3	754	c.523G>A	c.(523-525)GAG>AAG	p.E175K	HMHA1_uc010xgd.1_Missense_Mutation_p.E191K|HMHA1_uc010xge.1_Missense_Mutation_p.E15K|HMHA1_uc002lra.1_Missense_Mutation_p.E15K|HMHA1_uc002lrb.1_Missense_Mutation_p.E58K	NM_012292	NP_036424	Q92619	HMHA1_HUMAN	minor histocompatibility antigen HA-1	175					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAACACCGTGGAGACGCTCAC	0.592													37	79	---	---	---	---	PASS	A	1073249	A	A	1073249	3	1	66	1	0	0	0	0	1	0	0	0	7240	1175	41	2	533	2	HMHA1	19	1073249	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	451907	1073249	58055734	642	26347										
SGTA	6449	broad.mit.edu	37	chr19	2757453	2757453	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tctgctgggcaaactgctggCccctgcggggaagggcacat	15	12	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:2757453C>A	uc002lwi.1	-	11	977	c.830G>T	c.(829-831)GGC>GTC	p.G277V		NM_003021	NP_003012	O43765	SGTA_HUMAN	small glutamine-rich tetratricopeptide	277	Gln-rich.				interspecies interaction between organisms	cytoplasm	protein binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAACTGCTGGCCCCTGCGGGG	0.672													21	19	---	---	---	---	PASS	A	2757453	A	A	2757453	3	1	66	1	0	0	0	0	1	0	0	0	14225	739	26	3	115	3	SGTA	19	2757453	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1684204	2757453	56371530	643	26348										
AES	166	broad.mit.edu	37	chr19	3055691	3055691	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaggtagggcaggacctgggCacaaatcccgttcagccttt	13	11	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:3055691C>A	uc002lwy.1	-	5	441	c.268G>T	c.(268-270)GCC>TCC	p.A90S	AES_uc002lwx.1_3'UTR|AES_uc002lwz.1_Missense_Mutation_p.A90S|AES_uc002lxa.1_Missense_Mutation_p.A34S|AES_uc002lxb.1_Missense_Mutation_p.A157S|AES_uc002lxc.2_Missense_Mutation_p.A157S	NM_001130	NP_001121	Q08117	AES_HUMAN	amino-terminal enhancer of split isoform b	90	Gln-rich (Q domain).				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of response to cytokine stimulus|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|response to interleukin-1|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGACCTGGGCACAAATCCCG	0.642													12	140	---	---	---	---	PASS	A	3055691	A	A	3055691	3	1	66	1	0	0	0	0	1	0	0	0	352	710	25	3	337	3	AES	19	3055691	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	298238	3055691	56073292	644	26349										
SAFB	6294	broad.mit.edu	37	chr19	5664436	5664436	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gttcaaggtcaatgatgggaGaacgagaaggacaggtaagt	15	4	2	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:5664436G>C	uc002mcf.2	+	17	2373	c.2320G>C	c.(2320-2322)GAA>CAA	p.E774Q	SAFB_uc002mcg.2_Missense_Mutation_p.E774Q|SAFB_uc002mce.3_Missense_Mutation_p.E773Q|SAFB_uc010xir.1_Missense_Mutation_p.E773Q|SAFB_uc010xis.1_Missense_Mutation_p.E705Q|SAFB_uc010xit.1_Missense_Mutation_p.E616Q|SAFB_uc010xiu.1_Missense_Mutation_p.E573Q	NM_002967	NP_002958	Q15424	SAFB1_HUMAN	scaffold attachment factor B	774	Interaction with SAFB2.|Interaction with POLR2A.|Arg-rich.				chromatin organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding			ovary(1)|liver(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;0.000222)		AATGATGGGAGAACGAGAAGG	0.473													24	50	---	---	---	---	PASS	C	5664436	C	C	5664436	3	2	66	1	0	0	0	0	1	0	0	0	13806	943	33	2	2386	2	SAFB	19	5664436	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	2608745	5664436	53464547	645	26350										
DUS3L	56931	broad.mit.edu	37	chr19	5790284	5790284	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctcctacctcggtttcccggCaagtcttctcctgccctttg	7	17	2	0	rs145101341	byFrequency	TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:5790284C>T	uc002mdc.2	-	2	258	c.161G>A	c.(160-162)TGC>TAC	p.C54Y	DUS3L_uc002mdd.2_Missense_Mutation_p.C54Y|DUS3L_uc010duk.2_5'UTR|DUS3L_uc010xiw.1_RNA	NM_020175	NP_064560	Q96G46	DUS3L_HUMAN	dihydrouridine synthase 3-like isoform 1	54					tRNA processing		flavin adenine dinucleotide binding|nucleic acid binding|tRNA dihydrouridine synthase activity|zinc ion binding				0						GGTTTCCCGGCAAGTCTTCTC	0.577													51	106	---	---	---	---	PASS	T	5790284	T	T	5790284	3	4	66	1	0	0	0	0	1	0	0	0	4807	710	25	3	1839	3	DUS3L	19	5790284	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	125848	5790284	53338699	646	26351										
FUT5	2527	broad.mit.edu	37	chr19	5867626	5867626	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gatccagtggcatcgtctcgGgacacacgcaggtaggagaa	14	10	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:5867626G>T	uc002mdo.3	-	2	199	c.111C>A	c.(109-111)TCC>TCA	p.S37S	FUT5_uc010duo.2_Silent_p.S37S	NM_002034	NP_002025	Q11128	FUT5_HUMAN	fucosyltransferase 5	37	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity|alpha(1,3)-fucosyltransferase activity				0						CATCGTCTCGGGACACACGCA	0.652													25	65	---	---	---	---	PASS	T	5867626	T	T	5867626	2	4	66	1	0	0	0	0	0	0	0	1	6107	1219	43	3		3	FUT5	19	5867626	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	77342	5867626	53261357	647	26352										
ZNF558	148156	broad.mit.edu	37	chr19	8922260	8922260	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtgtcagataggagctcttCctgaaggttttcccacaatc	9	10	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:8922260C>T	uc002mkn.1	-	6	1136	c.906G>A	c.(904-906)AGG>AGA	p.R302R	ZNF558_uc010xkh.1_Silent_p.R231R|ZNF558_uc010dwg.1_Silent_p.R302R	NM_144693	NP_653294	Q96NG5	ZN558_HUMAN	zinc finger protein 558	302	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1						AGGAGCTCTTCCTGAAGGTTT	0.443													68	109	---	---	---	---	PASS	T	8922260	T	T	8922260	2	4	66	1	0	0	0	0	0	0	0	1	17986	854	30	2		2	ZNF558	19	8922260	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	3054634	8922260	50206723	648	26353										
MUC16	94025	broad.mit.edu	37	chr19	9057646	9057646	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggtgatcacttcagtgatgaTgtctggagacatcgtggact	13	7	3	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:9057646T>C	uc002mkp.2	-	3	30004	c.29800A>G	c.(29800-29802)ATC>GTC	p.I9934V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9936	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCAGTGATGATGTCTGGAGAC	0.463													172	347	---	---	---	---	PASS	C	9057646	C	C	9057646	3	2	66	1	0	0	0	0	1	0	0	0	9973	1464	51	5	14051	5	MUC16	19	9057646	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	135386	9057646	50071337	649	26354										
COL5A3	50509	broad.mit.edu	37	chr19	10084623	10084623	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagtggggccttggggacccCgaggacctggagctccatgg	17	12	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:10084623C>A	uc002mmq.1	-	48	3616	c.3530G>T	c.(3529-3531)CGG>CTG	p.R1177L		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1177	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)			TTGGGGACCCCGAGGACCTGG	0.577													35	75	---	---	---	---	PASS	A	10084623	A	A	10084623	3	1	66	1	0	0	0	0	1	0	0	0	3698	652	23	1	1787	1	COL5A3	19	10084623	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1026977	10084623	49044360	650	26355										
COL5A3	50509	broad.mit.edu	37	chr19	10087287	10087287	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccctggttgtccaggtgggcCctgggagaacaggaaacaga	15	10	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:10087287C>A	uc002mmq.1	-	45	3375	c.3289G>T	c.(3289-3291)GGC>TGC	p.G1097C		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1097	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)			CCAGGTGGGCCCTGGGAGAAC	0.547													13	24	---	---	---	---	PASS	A	10087287	A	A	10087287	3	1	66	1	0	0	0	0	1	0	0	0	3698	637	22	3	2040	3	COL5A3	19	10087287	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2664	10087287	49041696	651	26356										
RLN3	117579	broad.mit.edu	37	chr19	14141727	14141727	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agcagctgctgcaagtggggGtgtagcaaaagtgaaatcag	15	6	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:14141727G>C	uc002mxw.1	+	2	396	c.396G>C	c.(394-396)GGG>GGC	p.G132G	IL27RA_uc002mxx.2_5'Flank|RLN3_uc010dzj.1_3'UTR	NM_080864	NP_543140	Q8WXF3	REL3_HUMAN	relaxin 3 preproprotein	132						extracellular region	hormone activity				0						GCAAGTGGGGGTGTAGCAAAA	0.597													41	141	---	---	---	---	PASS	C	14141727	C	C	14141727	2	2	66	1	0	0	0	0	0	0	0	1	13393	1248	44	4		4	RLN3	19	14141727	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	4054440	14141727	44987256	652	26357										
CYP4F22	126410	broad.mit.edu	37	chr19	15648391	15648391	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgacaagtggagccggcaccGtcgcctgctgacacccgcct	12	16	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:15648391G>T	uc002nbh.3	+	6	634	c.467G>T	c.(466-468)CGT>CTT	p.R156L		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	156						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						AGCCGGCACCGTCGCCTGCTG	0.542													53	83	---	---	---	---	PASS	T	15648391	T	T	15648391	3	4	66	1	0	0	0	0	1	0	0	0	4189	1145	40	1	481	1	CYP4F22	19	15648391	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1506664	15648391	43480592	653	26358										
TMEM38A	79041	broad.mit.edu	37	chr19	16799109	16799117	+	In_Frame_Del	DEL	CGGCCATGC	-	-													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgggccaggagctcagcattCggccatgcccgccaagtcca					rs147713228		TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:16799109_16799117delCGGCCATGC	uc002nes.2	+	6	918_926	c.827_835delCGGCCATGC	c.(826-837)TCGGCCATGCCC>TCC	p.AMP277del		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	277_279	Cytoplasmic (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3						GCTCAGCATTCGGCCATGCCCGCCAAGTC	0.651													81	63	---	---	---	---		-	16799117	-	-	16799109	7	5	66	1	0	1	0	1	0	0	0	0	16156	893	31	0	849	0	TMEM38A	19	16799109	In_Frame_Del	DEL	CGGCCATGC	TCGA-34-5231-01A-21D-1817-08	1150718	16799109	42329874	654	26359										
CPAMD8	27151	broad.mit.edu	37	chr19	17086940	17086940	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctccccaggttgggtctcatTtgctgaatacgtcactgaaa	9	11	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:17086940T>G	uc002nfb.2	-	16	1953	c.1921A>C	c.(1921-1923)AAT>CAT	p.N641H		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	594						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						TGGGTCTCATTTGCTGAATAC	0.438													21	58	---	---	---	---	PASS	G	17086940	G	G	17086940	3	3	66	1	0	0	0	0	1	0	0	0	3795	1841	64	5	3985	5	CPAMD8	19	17086940	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	287831	17086940	42042043	655	26360										
MPV17L2	84769	broad.mit.edu	37	chr19	18304774	18304774	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tctggcctccgaggcttcccAaatgtcctcaagaaggtcct	9	14	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:18304774A>G	uc002nid.2	+	2	340	c.288A>G	c.(286-288)CCA>CCG	p.P96P	MPV17L2_uc010ebj.2_Silent_p.P32P	NM_032683	NP_116072	Q567V2	M17L2_HUMAN	MPV17 mitochondrial membrane protein-like 2	96						integral to membrane					0						GAGGCTTCCCAAATGTCCTCA	0.587													31	77	---	---	---	---	PASS	G	18304774	G	G	18304774	2	3	66	1	0	0	0	0	0	0	0	1	9747	117	5	5		5	MPV17L2	19	18304774	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	1217834	18304774	40824209	656	26361										
ELL	8178	broad.mit.edu	37	chr19	18561352	18561352	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cacagtctggaagctgggccCggggcttgtcctcagccgcc	14	15	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:18561352C>A	uc002njh.2	-	8	1472	c.1400G>T	c.(1399-1401)CGG>CTG	p.R467L	ELL_uc010ebq.2_Missense_Mutation_p.R410L|ELL_uc002njg.2_Missense_Mutation_p.R334L	NM_006532	NP_006523	P55199	ELL_HUMAN	elongation factor RNA polymerase II	467					positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	Cajal body|nuclear speck|transcription elongation factor complex	protein binding			lung(1)	1				GBM - Glioblastoma multiforme(1328;7.81e-07)		AAGCTGGGCCCGGGGCTTGTC	0.687			T	MLL	AL								57	39	---	---	---	---	PASS	A	18561352	A	A	18561352	3	1	66	1	0	0	0	0	1	0	0	0	5062	652	23	1	485	1	ELL	19	18561352	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	256578	18561352	40567631	657	26362										
UPF1	5976	broad.mit.edu	37	chr19	18961004	18961004	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtcgcaacgtcttcctcctCggcttcatcccggccaaagc	8	17	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:18961004C>T	uc002nkg.2	+	4	857	c.582C>T	c.(580-582)CTC>CTT	p.L194L	UPF1_uc002nkf.2_Silent_p.L194L	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	194	Sufficient for interaction with RENT2.|C4-type.				cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TCTTCCTCCTCGGCTTCATCC	0.607													60	128	---	---	---	---	PASS	T	18961004	T	T	18961004	2	4	66	1	0	0	0	0	0	0	0	1	17000	871	31	2		2	UPF1	19	18961004	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	399652	18961004	40167979	658	26363										
ZNF85	7639	broad.mit.edu	37	chr19	21132690	21132690	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agagaaaccctatgaatgtgAaaaatgtggcaaagctttta	9	5	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:21132690A>C	uc002npg.3	+	4	1497	c.1370A>C	c.(1369-1371)GAA>GCA	p.E457A	ZNF85_uc010ecn.2_Missense_Mutation_p.E392A|ZNF85_uc010eco.2_Missense_Mutation_p.E405A|ZNF85_uc002npi.2_Missense_Mutation_p.E398A	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	457	C2H2-type 12.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						TATGAATGTGAAAAATGTGGC	0.333													9	33	---	---	---	---	PASS	C	21132690	C	C	21132690	3	2	66	1	0	0	0	0	1	0	0	0	18190	246	9	5	1384	5	ZNF85	19	21132690	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	2171686	21132690	37996293	659	26364										
ZNF99	7652	broad.mit.edu	37	chr19	22940721	22940721	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aattactttatgtctagtaaGgtgtgaggaccacttaaaag	9	5	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:22940721G>T	uc010xrh.1	-	5	1717	c.1717C>A	c.(1717-1719)CTT>ATT	p.L573I		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)				TGTCTAGTAAGGTGTGAGGAC	0.378													18	37	---	---	---	---	PASS	T	22940721	T	T	22940721	3	4	66	1	0	0	0	0	1	0	0	0	18201	1000	35	3	1407	3	ZNF99	19	22940721	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1808031	22940721	36188262	660	26365										
ZNF91	7644	broad.mit.edu	37	chr19	23542322	23542322	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggtgtgatagtatgaattttCttatggttagtaaggattga	12	1	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:23542322C>G	uc002nre.2	-	4	3572	c.3459G>C	c.(3457-3459)AAG>AAC	p.K1153N	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.K1121N	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	1153	C2H2-type 36.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				TATGAATTTTCTTATGGTTAG	0.189													20	59	---	---	---	---	PASS	G	23542322	G	G	23542322	3	3	66	1	0	0	0	0	1	0	0	0	18197	912	32	2	120	2	ZNF91	19	23542322	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	601601	23542322	35586661	661	26366										
TSHZ3	57616	broad.mit.edu	37	chr19	31769848	31769848	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcaaatcctgcagggactcaAaggagtggccacagtacatg	11	10	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:31769848A>C	uc002nsy.3	-	2	916	c.851T>G	c.(850-852)TTT>TGT	p.F284C		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	284	C2H2-type 2.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CAGGGACTCAAAGGAGTGGCC	0.522													66	118	---	---	---	---	PASS	C	31769848	C	C	31769848	3	2	66	1	0	0	0	0	1	0	0	0	16622	14	1	5	2398	5	TSHZ3	19	31769848	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	8227526	31769848	27359135	662	26367										
KRTDAP	388533	broad.mit.edu	37	chr19	35981310	35981310	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agtggagcaccaggagggagAggagcaccacggcaggaagg	19	8	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:35981310A>G	uc002nzh.2	-	1	47	c.35T>C	c.(34-36)CTC>CCC	p.L12P		NM_207392	NP_997275	P60985	KTDAP_HUMAN	keratinocyte differentiation-associated protein	12					cell differentiation	extracellular region					0	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CAGGAGGGAGAGGAGCACCAC	0.577													80	123	---	---	---	---	PASS	G	35981310	G	G	35981310	3	3	66	1	0	0	0	0	1	0	0	0	8580	304	11	5	288	5	KRTDAP	19	35981310	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	4211462	35981310	23147673	663	26368										
MLL4	9757	broad.mit.edu	37	chr19	36218436	36218436	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccccgctggcgagaggccctGagcggggccctccagggggg	19	15	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:36218436G>C	uc010eei.2	+	17	4215	c.4215G>C	c.(4213-4215)CTG>CTC	p.L1405L		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1405					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GAGAGGCCCTGAGCGGGGCCC	0.687													29	113	---	---	---	---	PASS	C	36218436	C	C	36218436	2	2	66	1	0	0	0	0	0	0	0	1	9623	1277	45	2		2	MLL4	19	36218436	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	237126	36218436	22910547	664	26369										
MLL4	9757	broad.mit.edu	37	chr19	36223339	36223339	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gagctggctccccctggcccGgccccatctccaccaccccc	8	24	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:36223339G>A	uc010eei.2	+	29	5889	c.5889G>A	c.(5887-5889)CCG>CCA	p.P1963P		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1963	Poly-Pro.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCCCTGGCCCGGCCCCATCTC	0.657													4	48	---	---	---	---	PASS	A	36223339	A	A	36223339	2	1	66	1	0	0	0	0	0	0	0	1	9623	1103	39	1		1	MLL4	19	36223339	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	4903	36223339	22905644	665	26370										
ZFP30	22835	broad.mit.edu	37	chr19	38127064	38127064	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaggtggtttttgtcacttgCctgaaacacacctcatgagg	11	9	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:38127064C>A	uc002ogv.1	-	6	894	c.378G>T	c.(376-378)AGG>AGT	p.R126S	ZFP30_uc002ogw.1_Missense_Mutation_p.R126S|ZFP30_uc002ogx.1_Missense_Mutation_p.R126S|ZFP30_uc010xtt.1_Missense_Mutation_p.R125S	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog	126					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTGTCACTTGCCTGAAACACA	0.373													35	77	---	---	---	---	PASS	A	38127064	A	A	38127064	3	1	66	1	0	0	0	0	1	0	0	0	17641	738	26	3	1185	3	ZFP30	19	38127064	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1903725	38127064	21001919	666	26371										
SPRED3	399473	broad.mit.edu	37	chr19	38882899	38882899	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctcctcctctccttcccagGatactgcagagaccccctgc	6	20	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:38882899G>T	uc002oim.2	+	3	398	c.394G>T	c.(394-396)GAT>TAT	p.D132Y	SPRED3_uc002oil.1_Missense_Mutation_p.D132Y	NM_001042522	NP_001035987	Q2MJR0	SPRE3_HUMAN	sprouty-related, EVH1 domain containing 3	132	Ser-rich.				multicellular organismal development					central_nervous_system(2)|lung(1)|skin(1)	4	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			tcctTCCCAGGATACTGCAGA	0.443													6	10	---	---	---	---	PASS	T	38882899	T	T	38882899	3	4	66	1	0	0	0	0	1	0	0	0	15093	1174	41	2	404	2	SPRED3	19	38882899	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	755835	38882899	20246084	667	26372										
NCCRP1	342897	broad.mit.edu	37	chr19	39688711	39688711	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggcatcaacatttatgagcCagcaccccctactggtccca	7	15	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:39688711C>A	uc002okq.1	+	2	375	c.356C>A	c.(355-357)CCA>CAA	p.P119Q		NM_001001414	NP_001001414	Q6ZVX7	NCRP1_HUMAN	non-specific cytotoxic cell receptor protein 1	119	FBA.				protein catabolic process					ovary(1)	1						ATTTATGAGCCAGCACCCCCT	0.627													4	162	---	---	---	---	PASS	A	39688711	A	A	39688711	3	1	66	1	0	0	0	0	1	0	0	0	10213	594	21	3	362	3	NCCRP1	19	39688711	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	805812	39688711	19440272	668	26373										
ZNF780B	163131	broad.mit.edu	37	chr19	40541700	40541700	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttcaaagggcttctcacccaTatgaatcttctgatgtcgaa	7	10	4	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:40541700T>C	uc002omu.2	-	5	1131	c.1066A>G	c.(1066-1068)ATG>GTG	p.M356V	ZNF780B_uc002omv.2_Missense_Mutation_p.M208V	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	356					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TTCTCACCCATATGAATCTTC	0.423													52	63	---	---	---	---	PASS	C	40541700	C	C	40541700	3	2	66	1	0	0	0	0	1	0	0	0	18150	1406	49	5	1439	5	ZNF780B	19	40541700	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	852989	40541700	18587283	669	26374										
ITPKC	80271	broad.mit.edu	37	chr19	41242989	41242989	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtggatggagaccacgtcatCctggtgagtgggacacccat	14	10	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:41242989C>G	uc002oot.2	+	5	1806	c.1773C>G	c.(1771-1773)ATC>ATG	p.I591M		NM_025194	NP_079470	Q96DU7	IP3KC_HUMAN	inositol 1,4,5-trisphosphate 3-kinase C	591						cytoplasm|nucleus	ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity				0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			ACCACGTCATCCTGGTGAGTG	0.333													5	10	---	---	---	---	PASS	G	41242989	G	G	41242989	3	3	66	1	0	0	0	0	1	0	0	0	7919	845	30	2	1791	2	ITPKC	19	41242989	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	701289	41242989	17885994	670	26375										
MEGF8	1954	broad.mit.edu	37	chr19	42860341	42860341	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctcatggacagccgcctctCagccgtgagttgtgggtacc	12	14	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:42860341C>G	uc002otl.3	+	24	4933	c.4298C>G	c.(4297-4299)TCA>TGA	p.S1433*	MEGF8_uc002otm.3_Nonsense_Mutation_p.S1041*	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	1500	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				AGCCGCCTCTCAGCCGTGAGT	0.657													3	3	---	---	---	---	PASS	G	42860341	G	G	42860341	4	3	66	1	0	0	0	0	0	1	0	0	9463	838	29	2	4392	2	MEGF8	19	42860341	Nonsense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1617352	42860341	16268642	671	26376										
MEGF8	1954	broad.mit.edu	37	chr19	42879930	42879930	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctatgacaccttcgtggtccGtgtggcccctgacactggcg	12	14	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:42879930G>T	uc002otl.3	+	41	7975	c.7340G>T	c.(7339-7341)CGT>CTT	p.R2447L	MEGF8_uc002otm.3_Missense_Mutation_p.R2055L|MEGF8_uc002otn.3_Missense_Mutation_p.R108L	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	2514	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				TTCGTGGTCCGTGTGGCCCCT	0.652													16	29	---	---	---	---	PASS	T	42879930	T	T	42879930	3	4	66	1	0	0	0	0	1	0	0	0	9463	1145	40	1	7502	1	MEGF8	19	42879930	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	19589	42879930	16249053	672	26377										
SLC8A2	6543	broad.mit.edu	37	chr19	47968997	47968997	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tttgctcacctggaccacacCgggggaaaaaacagcaagga	11	11	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:47968997C>A	uc002pgx.2	-	2	942	c.664G>T	c.(664-666)GGT>TGT	p.G222C	SLC8A2_uc010xyq.1_Intron|SLC8A2_uc010xyr.1_Intron|SLC8A2_uc010ele.2_Missense_Mutation_p.G222C	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	222	Extracellular (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		TGGACCACACCGGGGGAAAAA	0.498													6	11	---	---	---	---	PASS	A	47968997	A	A	47968997	3	1	66	1	0	0	0	0	1	0	0	0	14707	652	23	1	2137	1	SLC8A2	19	47968997	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	5089067	47968997	11159986	673	26378										
SYT3	84258	broad.mit.edu	37	chr19	51135922	51135922	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cccgacaccagggcctaggtCtttgcgcagggggccaccgc	14	16	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:51135922C>T	uc002pst.2	-	2	929	c.295G>A	c.(295-297)GAC>AAC	p.D99N	SYT3_uc002psv.2_Missense_Mutation_p.D99N|SYT3_uc010ycd.1_Missense_Mutation_p.D99N	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	99	Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		GGGCCTAGGTCTTTGCGCAGG	0.697													21	31	---	---	---	---	PASS	T	51135922	T	T	51135922	3	4	66	1	0	0	0	0	1	0	0	0	15472	913	32	2	1505	2	SYT3	19	51135922	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3166925	51135922	7993061	674	26379										
ZNF610	162963	broad.mit.edu	37	chr19	52856995	52856995	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggaggagtggaaatccctgGaccctggacagagggcttta	15	8	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:52856995G>T	uc002pyx.3	+	4	530	c.124G>T	c.(124-126)GAC>TAC	p.D42Y	ZNF610_uc002pyy.3_Missense_Mutation_p.D42Y|ZNF610_uc002pyz.3_Missense_Mutation_p.D42Y|ZNF610_uc002pza.2_Missense_Mutation_p.D42Y	NM_001161426	NP_001154898	Q8N9Z0	ZN610_HUMAN	zinc finger protein 610 isoform a	42	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3				OV - Ovarian serous cystadenocarcinoma(262;0.00396)|GBM - Glioblastoma multiforme(134;0.00434)		GAAATCCCTGGACCCTGGACA	0.493													40	86	---	---	---	---	PASS	T	52856995	T	T	52856995	3	4	66	1	0	0	0	0	1	0	0	0	18033	1174	41	2	130	2	ZNF610	19	52856995	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1721073	52856995	6271988	675	26380										
ZNF534	147658	broad.mit.edu	37	chr19	52941112	52941112	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggaatatttatggatgtaaGcatgttgagaaatctatcag	10	3	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:52941112G>T	uc002pzk.2	+	4	499	c.438G>T	c.(436-438)AAG>AAT	p.K146N	ZNF534_uc002pzj.1_Intron|ZNF534_uc010epo.1_Intron|ZNF534_uc002pzl.2_Missense_Mutation_p.K133N	NM_001143939	NP_001137411	Q76KX8	ZN534_HUMAN	zinc finger protein 534 isoform 2	146					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGGATGTAAGCATGTTGAGA	0.323													23	57	---	---	---	---	PASS	T	52941112	T	T	52941112	3	4	66	1	0	0	0	0	1	0	0	0	17970	962	34	3	452	3	ZNF534	19	52941112	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	84117	52941112	6187871	676	26381										
ZNF701	55762	broad.mit.edu	37	chr19	53086642	53086642	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttacaagtgtaatgaatgtGgcaaggtttttaatcgaaaa	9	4	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:53086642G>T	uc002pzs.1	+	4	1457	c.1330G>T	c.(1330-1332)GGC>TGC	p.G444C	ZNF701_uc010ydn.1_Missense_Mutation_p.G510C	NM_018260	NP_060730	Q9NV72	ZN701_HUMAN	zinc finger protein 701	444	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0105)|GBM - Glioblastoma multiforme(134;0.0402)		TAATGAATGTGGCAAGGTTTT	0.353													17	24	---	---	---	---	PASS	T	53086642	T	T	53086642	3	4	66	1	0	0	0	0	1	0	0	0	18102	1348	47	3	1542	3	ZNF701	19	53086642	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	145530	53086642	6042341	677	26382										
ZNF765	91661	broad.mit.edu	37	chr19	53911449	53911449	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agtacatatgagggaaaaatCtttccaatgcaatgacagtg	9	6	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:53911449C>G	uc010ydx.1	+	6	968	c.641C>G	c.(640-642)TCT>TGT	p.S214C	ZNF765_uc002qbm.2_Missense_Mutation_p.S214C|ZNF765_uc002qbn.2_Intron	NM_001040185	NP_001035275	Q7L2R6	ZN765_HUMAN	zinc finger protein 765	214					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00379)		AGGGAAAAATCTTTCCAATGC	0.338													17	30	---	---	---	---	PASS	G	53911449	G	G	53911449	3	3	66	1	0	0	0	0	1	0	0	0	18136	913	32	2	651	2	ZNF765	19	53911449	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	824807	53911449	5217534	678	26383										
PRKCG	5582	broad.mit.edu	37	chr19	54392977	54392977	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tggctccctcctctacgggcTtgtgcaccagggcatgaaat	11	13	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:54392977T>C	uc002qcq.1	+	4	653	c.371T>C	c.(370-372)CTT>CCT	p.L124P	PRKCG_uc010eqz.1_Missense_Mutation_p.L124P|PRKCG_uc010yef.1_Missense_Mutation_p.L124P|PRKCG_uc010yeg.1_Missense_Mutation_p.L124P|PRKCG_uc010yeh.1_Intron	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	124	Phorbol-ester/DAG-type 2.				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)		CTCTACGGGCTTGTGCACCAG	0.632													16	19	---	---	---	---	PASS	C	54392977	C	C	54392977	3	2	66	1	0	0	0	0	1	0	0	0	12512	1609	56	5	385	5	PRKCG	19	54392977	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	481528	54392977	4736006	679	26384										
TFPT	29844	broad.mit.edu	37	chr19	54613499	54613499	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agcctgttcaggacccgctcGttcacctatggggtgggaaa	13	11	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:54613499G>T	uc010yej.1	-	3	694	c.288C>A	c.(286-288)AAC>AAA	p.N96K	TFPT_uc010erd.2_Missense_Mutation_p.N96K	NM_013342	NP_037474	P0C1Z6	TFPT_HUMAN	TCF3 (E2A) fusion partner	96					apoptosis|DNA recombination|DNA repair|induction of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex	DNA binding|protein binding				0	all_cancers(19;0.004)|all_epithelial(19;0.00195)|all_lung(19;0.0193)|Lung NSC(19;0.0358)|Breast(117;0.137)|Ovarian(34;0.19)					GGACCCGCTCGTTCACCTATG	0.577			T	TCF3	pre-B ALL								21	48	---	---	---	---	PASS	T	54613499	T	T	54613499	3	4	66	1	0	0	0	0	1	0	0	0	15807	1136	40	1	489	1	TFPT	19	54613499	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	220522	54613499	4515484	680	26385										
LILRA4	23547	broad.mit.edu	37	chr19	54849937	54849938	+	Frame_Shift_Ins	INS	-	T	T													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggctcggcccacaggatgggINStttgggtaggttttctggaa							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:54849937_54849938insT	uc002qfj.2	-	3	141_142	c.84_85insA	c.(82-87)AAACCCfs	p.K28fs	LILRA4_uc002qfi.2_5'UTR	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	28_29	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		CACAGGATGGGTTTGGGTAGGT	0.589											OREG0003656	type=REGULATORY REGION|Gene=LILRA4|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	70	34	---	---	---	---		T	54849938	T	T	54849937	7	5	66	1	0	1	1	0	0	0	0	0	8787	1261	44	0	1438	0	LILRA4	19	54849937	Frame_Shift_Ins	INS	-	TCGA-34-5231-01A-21D-1817-08	236438	54849937	4279046	681	26386										
NCR1	9437	broad.mit.edu	37	chr19	55417567	55417567	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtcttccacactccctgccCtgctctgcgtcggtgagttc	9	16	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:55417567C>A	uc002qib.2	+	1	60	c.22C>A	c.(22-24)CTG>ATG	p.L8M	NCR1_uc002qic.2_Missense_Mutation_p.L8M|NCR1_uc002qie.2_Missense_Mutation_p.L8M|NCR1_uc002qid.2_Missense_Mutation_p.L8M|NCR1_uc002qif.2_Missense_Mutation_p.L8M|NCR1_uc010esj.2_Missense_Mutation_p.L8M	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1	8					cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		ACTCCCTGCCCTGCTCTGCGT	0.612													34	93	---	---	---	---	PASS	A	55417567	A	A	55417567	3	1	66	1	0	0	0	0	1	0	0	0	10237	680	24	3	24	3	NCR1	19	55417567	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	567630	55417567	3711416	682	26387										
NLRP9	338321	broad.mit.edu	37	chr19	56243388	56243388	+	Silent	SNP	T	C	C													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gagatgcatcctgagtcatcTggaaagatattctccacaca							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:56243388T>C	uc002qly.2	-	2	1837	c.1809A>G	c.(1807-1809)CCA>CCG	p.P603P		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	603						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		CTGAGTCATCTGGAAAGATAT	0.428													20	22	---	---	---	---	PASS	C	56243388	C	C	56243388	2	2	66	1	0	0	0	0	0	0	0	1	10484	1567	55	5		5	NLRP9	19	56243388	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	825821	56243388	2885595	683	26388	551	2								
NLRP9	338321	broad.mit.edu	37	chr19	56243389	56243389	+	Missense_Mutation	SNP	G	T	T													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agatgcatcctgagtcatctGgaaagatattctccacacac							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:56243389G>T	uc002qly.2	-	2	1836	c.1808C>A	c.(1807-1809)CCA>CAA	p.P603Q		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	603						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		TGAGTCATCTGGAAAGATATT	0.423													20	22	---	---	---	---	PASS	T	56243389	T	T	56243389	3	4	66	1	0	0	0	0	1	0	0	0	10484	1348	47	3	1199	3	NLRP9	19	56243389	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1	56243389	2885594	684	26389	551	2								
NLRP8	126205	broad.mit.edu	37	chr19	56487502	56487502	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctgtgtttctttgcagactGagaaagtgtgacttgacctt	10	8	1	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:56487502G>A	uc002qmh.2	+	8	2780	c.2709G>A	c.(2707-2709)CTG>CTA	p.L903L	NLRP8_uc010etg.2_Silent_p.L884L	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	903						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)		TTTGCAGACTGAGAAAGTGTG	0.274													27	49	---	---	---	---	PASS	A	56487502	A	A	56487502	2	1	66	1	0	0	0	0	0	0	0	1	10483	1277	45	2		2	NLRP8	19	56487502	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	244113	56487502	2641481	685	26390										
ZNF264	9422	broad.mit.edu	37	chr19	57723037	57723037	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccataactcatgtgagtcagGtaaagatcccatgattcagg	9	9	3	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:57723037G>T	uc002qob.2	+	4	985	c.572G>T	c.(571-573)GGT>GTT	p.G191V		NM_003417	NP_003408	O43296	ZN264_HUMAN	zinc finger protein 264	191					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0135)		TGTGAGTCAGGTAAAGATCCC	0.418													13	44	---	---	---	---	PASS	T	57723037	T	T	57723037	3	4	66	1	0	0	0	0	1	0	0	0	17801	1261	44	3	586	3	ZNF264	19	57723037	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1235535	57723037	1405946	686	26391										
ZSCAN4	201516	broad.mit.edu	37	chr19	58189754	58189754	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaagggtccataaatggaatCactttccaaggtgtccctat	9	9	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:58189754C>G	uc002qpu.2	+	5	1480	c.783C>G	c.(781-783)ATC>ATG	p.I261M		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	261					telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TAAATGGAATCACTTTCCAAG	0.507													24	66	---	---	---	---	PASS	G	58189754	G	G	58189754	3	3	66	1	0	0	0	0	1	0	0	0	18234	816	29	2	793	2	ZSCAN4	19	58189754	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	466717	58189754	939229	687	26392										
ZNF329	79673	broad.mit.edu	37	chr19	58639432	58639432	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctggacactgatatggggtcTccttagtgtgaattctctgg	12	8	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr19:58639432T>C	uc002qrn.2	-	4	1676	c.1439A>G	c.(1438-1440)GAG>GGG	p.E480G	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	480					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		ATATGGGGTCTCCTTAGTGTG	0.522													51	84	---	---	---	---	PASS	C	58639432	C	C	58639432	3	2	66	1	0	0	0	0	1	0	0	0	17844	1551	54	5	190	5	ZNF329	19	58639432	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	449678	58639432	489551	688	26393										
SIGLEC1	6614	broad.mit.edu	37	chr20	3670649	3670649	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaggtagaggcagagcccagGacatttgaggcagaacagat	15	7	0	5			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:3670649G>C	uc002wja.2	-	18	4854	c.4854C>G	c.(4852-4854)GTC>GTG	p.V1618V	SIGLEC1_uc002wjb.1_Silent_p.V257V|SIGLEC1_uc002wiz.3_Silent_p.V1618V	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1618	Ig-like C2-type 16.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						CAGAGCCCAGGACATTTGAGG	0.607													6	18	---	---	---	---	PASS	C	3670649	C	C	3670649	2	2	66	1	0	0	0	0	0	0	0	1	14305	1161	41	2		2	SIGLEC1	20	3670649	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08		3670649	59354871	689	26394										
PLCB1	23236	broad.mit.edu	37	chr20	8737759	8737759	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgactccagcagaaaatgggGtgaatcacactacaaccctg	9	12	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:8737759G>T	uc002wnb.2	+	24	2593	c.2590G>T	c.(2590-2592)GTG>TTG	p.V864L	PLCB1_uc010zrb.1_Missense_Mutation_p.V763L|PLCB1_uc002wna.2_Missense_Mutation_p.V864L|PLCB1_uc002wnc.1_Missense_Mutation_p.V763L|PLCB1_uc002wnd.1_Missense_Mutation_p.V441L	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	864					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						AGAAAATGGGGTGAATCACAC	0.498													27	68	---	---	---	---	PASS	T	8737759	T	T	8737759	3	4	66	1	0	0	0	0	1	0	0	0	12027	1261	44	3	2684	3	PLCB1	20	8737759	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	5067110	8737759	54287761	690	26395										
DSTN	11034	broad.mit.edu	37	chr20	17581618	17581618	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aatgcttcctgaaaaagattGtcgctatgctttgtatgatg	9	6	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:17581618G>A	uc002wpr.2	+	2	494	c.239G>A	c.(238-240)TGT>TAT	p.C80Y	DSTN_uc002wpq.2_Missense_Mutation_p.C63Y|DSTN_uc010gck.2_Missense_Mutation_p.C63Y	NM_006870	NP_006861	P60981	DEST_HUMAN	destrin isoform a	80	ADF-H.				actin filament severing|actin polymerization or depolymerization		actin binding			large_intestine(1)|skin(1)	2						GAAAAAGATTGTCGCTATGCT	0.363													64	89	---	---	---	---	PASS	A	17581618	A	A	17581618	3	1	66	1	0	0	0	0	1	0	0	0	4784	1377	48	3	245	3	DSTN	20	17581618	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	8843859	17581618	45443902	691	26396										
SEC23B	10483	broad.mit.edu	37	chr20	18522958	18522958	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agcacaacaccccgatccccCaaggaggcagaggagccatc	10	16	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:18522958C>A	uc002wqz.1	+	13	1866	c.1423C>A	c.(1423-1425)CAA>AAA	p.Q475K	SEC23B_uc002wra.1_Missense_Mutation_p.Q475K|SEC23B_uc002wrb.1_Missense_Mutation_p.Q475K|SEC23B_uc010zsb.1_Missense_Mutation_p.Q457K|SEC23B_uc002wrc.1_Missense_Mutation_p.Q475K	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	475					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						CCCGATCCCCCAAGGAGGCAG	0.547													81	184	---	---	---	---	PASS	A	18522958	A	A	18522958	3	1	66	1	0	0	0	0	1	0	0	0	13992	595	21	3	1469	3	SEC23B	20	18522958	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	941340	18522958	44502562	692	26397										
C20orf26	26074	broad.mit.edu	37	chr20	20270957	20270957	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttctagggggcattcttccTgggtcttaccattatctgca	9	11	4	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:20270957T>C	uc002wru.2	+	24	3214	c.3138T>C	c.(3136-3138)CCT>CCC	p.P1046P	C20orf26_uc002wrw.2_RNA	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	1046										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GCATTCTTCCTGGGTCTTACC	0.388													54	85	---	---	---	---	PASS	C	20270957	C	C	20270957	2	2	66	1	0	0	0	0	0	0	0	1	2106	1567	55	5		5	C20orf26	20	20270957	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	1747999	20270957	42754563	693	26398										
CST9L	128821	broad.mit.edu	37	chr20	23545589	23545589	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtgagtgggtttcactcagTggaatccctccaagcaggtc	12	10	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:23545589T>A	uc002wtk.3	-	3	739	c.440A>T	c.(439-441)CAC>CTC	p.H147L		NM_080610	NP_542177	Q9H4G1	CST9L_HUMAN	cystatin 9-like precursor	147						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					TTTCACTCAGTGGAATCCCTC	0.532													46	91	---	---	---	---	PASS	A	23545589	A	A	23545589	3	1	66	1	0	0	0	0	1	0	0	0	3980	1696	59	5	7	5	CST9L	20	23545589	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	3274632	23545589	39479931	694	26399										
NINL	22981	broad.mit.edu	37	chr20	25439071	25439071	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctccctgaaggctgagcaggCgatgcagctcggccacacgg	14	14	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:25439071C>A	uc002wux.1	-	22	3865	c.3791G>T	c.(3790-3792)CGC>CTC	p.R1264L	NINL_uc010gdn.1_Missense_Mutation_p.R915L|NINL_uc002wuw.1_Missense_Mutation_p.R55L	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1264	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						GCTGAGCAGGCGATGCAGCTC	0.667													27	45	---	---	---	---	PASS	A	25439071	A	A	25439071	3	1	66	1	0	0	0	0	1	0	0	0	10420	768	27	1	369	1	NINL	20	25439071	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1893482	25439071	37586449	695	26400										
DEFB115	245929	broad.mit.edu	37	chr20	29847261	29847261	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atgtgtttgcttattttgatAgatggatggatcagaaggtg	13	2	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:29847261A>T	uc002wvp.1	+	2	95	c.95_splice	c.e2-2	p.D32_splice		NM_001037730	NP_001032819	Q30KQ5	DB115_HUMAN	beta-defensin 115 precursor						defense response to bacterium	extracellular region				ovary(1)	1			Colorectal(19;0.00445)|COAD - Colon adenocarcinoma(19;0.0347)			TTATTTTGATAGATGGATGGA	0.299													27	38	---	---	---	---	PASS	T	29847261	T	T	29847261	5	4	66	1	0	0	0	0	0	0	1	0	4404	434	15	5	99	5	DEFB115	20	29847261	Splice_Site	SNP	A	TCGA-34-5231-01A-21D-1817-08	4408190	29847261	33178259	696	26401										
C20orf112	140688	broad.mit.edu	37	chr20	31044086	31044086	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtgaagtccatgggggccacGgcgccgttgccattcatctc	13	13	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:31044086G>A	uc002wxu.3	-	3	379	c.222C>T	c.(220-222)GCC>GCT	p.A74A	C20orf112_uc010gec.2_5'UTR	NM_080616	NP_542183	Q96MY1	CT112_HUMAN	hypothetical protein LOC140688	74											0						TGGGGGCCACGGCGCCGTTGC	0.667													34	47	---	---	---	---	PASS	A	31044086	A	A	31044086	2	1	66	1	0	0	0	0	0	0	0	1	2081	1103	39	1		1	C20orf112	20	31044086	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	1196825	31044086	31981434	697	26402										
DNMT3B	1789	broad.mit.edu	37	chr20	31375187	31375187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgcccgcctagcccaggacaGccagcaggggggcatggagt	16	14	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:31375187G>T	uc002wyc.2	+	6	905	c.584G>T	c.(583-585)AGC>ATC	p.S195I	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Missense_Mutation_p.S195I|DNMT3B_uc002wye.2_Missense_Mutation_p.S195I|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.S153I|DNMT3B_uc010zua.1_Missense_Mutation_p.S119I|DNMT3B_uc002wyf.2_Missense_Mutation_p.S207I	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	195	Interaction with DNMT1 and DNMT3A.				negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						GCCCAGGACAGCCAGCAGGGG	0.632													46	56	---	---	---	---	PASS	T	31375187	T	T	31375187	3	4	66	1	0	0	0	0	1	0	0	0	4677	971	34	3	642	3	DNMT3B	20	31375187	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	331101	31375187	31650333	698	26403										
SNTA1	6640	broad.mit.edu	37	chr20	31998117	31998117	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgtagggcactgagcccttgGaggggcctgagtgcaccagt	16	11	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:31998117G>C	uc002wzd.1	-	6	1333	c.1061C>G	c.(1060-1062)TCC>TGC	p.S354C	SNTA1_uc010zuf.1_Missense_Mutation_p.S279C	NM_003098	NP_003089	Q13424	SNTA1_HUMAN	acidic alpha 1 syntrophin	354	PH 2.				muscle contraction	cell junction|cytoplasm|cytoskeleton|sarcolemma	actin binding|calmodulin binding			skin(1)	1						TGAGCCCTTGGAGGGGCCTGA	0.642													7	5	---	---	---	---	PASS	C	31998117	C	C	31998117	3	2	66	1	0	0	0	0	1	0	0	0	14871	1174	41	2	468	2	SNTA1	20	31998117	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	622930	31998117	31027403	699	26404										
DLGAP4	22839	broad.mit.edu	37	chr20	35060493	35060493	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gcttcagcaccctccaatttCcccgtggcgaggccaaggcc	10	17	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:35060493C>T	uc002xff.2	+	3	808	c.373C>T	c.(373-375)CCC>TCC	p.P125S	DLGAP4_uc010zvp.1_Missense_Mutation_p.P125S	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	125					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				CCTCCAATTTCCCCGTGGCGA	0.632													48	90	---	---	---	---	PASS	T	35060493	T	T	35060493	3	4	66	1	0	0	0	0	1	0	0	0	4562	855	30	2	375	2	DLGAP4	20	35060493	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3062376	35060493	27965027	700	26405										
FAM83D	81610	broad.mit.edu	37	chr20	37580850	37580850	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gaagtcttcctcctctgtgtCttcccaaggctctgtggcaa	9	13	4	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:37580850C>G	uc002xjg.2	+	4	1576	c.1535C>G	c.(1534-1536)TCT>TGT	p.S512C		NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	482	Ser-rich.				cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				TCCTCTGTGTCTTCCCAAGGC	0.507													58	54	---	---	---	---	PASS	G	37580850	G	G	37580850	3	3	66	1	0	0	0	0	1	0	0	0	5636	913	32	2	1549	2	FAM83D	20	37580850	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	2520357	37580850	25444670	701	26406										
MYBL2	4605	broad.mit.edu	37	chr20	42331428	42331428	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	caagcggcagaggaagaggcGtgtggctctgtcccctgtca	15	11	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:42331428G>A	uc002xlb.1	+	8	1465	c.1250G>A	c.(1249-1251)CGT>CAT	p.R417H	MYBL2_uc010zwj.1_Missense_Mutation_p.R393H|MYBL2_uc002xla.1_Missense_Mutation_p.R417H	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	417	Nuclear localization signal.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity	p.R417C(1)		lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AGGAAGAGGCGTGTGGCTCTG	0.617													19	72	---	---	---	---	PASS	A	42331428	A	A	42331428	3	1	66	1	0	0	0	0	1	0	0	0	10010	1145	40	1	1280	1	MYBL2	20	42331428	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	4750578	42331428	20694092	702	26407										
TOX2	84969	broad.mit.edu	37	chr20	42683132	42683132	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cgtgtccaaaatcgtggcctCcatgtgggacagcctgggag	14	11	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:42683132C>T	uc002xlf.3	+	5	889	c.872C>T	c.(871-873)TCC>TTC	p.S291F	TOX2_uc010ggo.2_Missense_Mutation_p.S282F|TOX2_uc002xle.3_Missense_Mutation_p.S240F|TOX2_uc010ggp.2_Missense_Mutation_p.S240F|TOX2_uc002xlg.2_Missense_Mutation_p.S240F|TOX2_uc010zwk.1_Missense_Mutation_p.S160F	NM_001098798	NP_001092268	Q96NM4	TOX2_HUMAN	TOX high mobility group box family member 2	291	HMG box.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)			ATCGTGGCCTCCATGTGGGAC	0.582													6	23	---	---	---	---	PASS	T	42683132	T	T	42683132	3	4	66	1	0	0	0	0	1	0	0	0	16375	855	30	2	993	2	TOX2	20	42683132	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	351704	42683132	20342388	703	26408										
SEMG1	6406	broad.mit.edu	37	chr20	43836129	43836129	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgaatccaaaggcagtttttCtattcaatacacatatcatg	5	8	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:43836129C>T	uc002xni.2	+	2	248	c.191C>T	c.(190-192)TCT>TTT	p.S64F	SEMG1_uc002xnj.2_Missense_Mutation_p.S64F|SEMG2_uc010ggz.2_Intron|SEMG1_uc002xnh.2_Missense_Mutation_p.S64F	NM_003007	NP_002998	P04279	SEMG1_HUMAN	semenogelin I preproprotein	64					insemination|sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(2)	2		Myeloproliferative disorder(115;0.0122)				GGCAGTTTTTCTATTCAATAC	0.393													56	83	---	---	---	---	PASS	T	43836129	T	T	43836129	3	4	66	1	0	0	0	0	1	0	0	0	14044	913	32	2	197	2	SEMG1	20	43836129	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	1152997	43836129	19189391	704	26409										
EEF1A2	1917	broad.mit.edu	37	chr20	62121863	62121863	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	actgagcagcctcctgcggcGggtcagacttgctgtcccca	12	15	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:62121863G>T	uc002yfd.1	-	5	1099	c.998C>A	c.(997-999)CCG>CAG	p.P333Q	EEF1A2_uc002yfe.1_Missense_Mutation_p.P333Q|EEF1A2_uc010gkg.1_Missense_Mutation_p.P333Q	NM_001958	NP_001949	Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha	333						nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			CTCCTGCGGCGGGTCAGACTT	0.667													61	23	---	---	---	---	PASS	T	62121863	T	T	62121863	3	4	66	1	0	0	0	0	1	0	0	0	4924	1116	39	1	405	1	EEF1A2	20	62121863	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	18285734	62121863	903657	705	26410										
SOX18	54345	broad.mit.edu	37	chr20	62680534	62680534	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agcatcttgctgagcaccgcGttgtgcaggtccgggttctg	14	11	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr20:62680534G>A	uc002yhs.2	-	1	446	c.336C>T	c.(334-336)AAC>AAT	p.N112N		NM_018419	NP_060889	P35713	SOX18_HUMAN	SRY-box 18	112	HMG box.				angiogenesis|blood vessel endothelial cell migration|endocardial cell differentiation|endocardium formation|establishment of endothelial barrier|heart looping|lymphangiogenesis|lymphatic endothelial cell differentiation|negative regulation of transcription, DNA-dependent|outflow tract morphogenesis|positive regulation of transcription from RNA polymerase II promoter|vasculogenesis	nucleus	transcription regulatory region DNA binding				0	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					TGAGCACCGCGTTGTGCAGGT	0.393													31	49	---	---	---	---	PASS	A	62680534	A	A	62680534	2	1	66	1	0	0	0	0	0	0	0	1	14948	1136	40	1		1	SOX18	20	62680534	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	558671	62680534	344986	706	26411										
JAM2	58494	broad.mit.edu	37	chr21	27078377	27078377	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccttggtgtatgctatgctCagaggaaaggctacttttca	11	8	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr21:27078377C>A	uc002ylp.1	+	7	1329	c.784C>A	c.(784-786)CAG>AAG	p.Q262K	JAM2_uc011ace.1_Missense_Mutation_p.Q262K|JAM2_uc002ylq.1_RNA|JAM2_uc011acf.1_Missense_Mutation_p.Q226K|JAM2_uc010glh.1_RNA|JAM2_uc002ylr.1_Missense_Mutation_p.Q262K|JAM2_uc010gli.1_Missense_Mutation_p.Q262K	NM_021219	NP_067042	P57087	JAM2_HUMAN	junctional adhesion molecule 2 precursor	262	Cytoplasmic (Potential).				blood coagulation|cell-cell adhesion|leukocyte migration	integral to plasma membrane|tight junction					0						ATGCTATGCTCAGAGGAAAGG	0.403													37	80	---	---	---	---	PASS	A	27078377	A	A	27078377	3	1	66	1	0	0	0	0	1	0	0	0	7943	827	29	2	810	2	JAM2	21	27078377	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08		27078377	21051518	707	26412										
HLCS	3141	broad.mit.edu	37	chr21	38137351	38137351	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cctcactgcttccacgacagCcacggacatcagatgctgga	9	15	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr21:38137351C>A	uc010gnb.2	-	8	2843	c.1642G>T	c.(1642-1644)GCT>TCT	p.A548S	HLCS_uc002yvs.2_Missense_Mutation_p.A548S	NM_000411	NP_000402	P50747	BPL1_HUMAN	holocarboxylase synthetase	548					cell proliferation|histone biotinylation|response to biotin	chromatin|cytosol|mitochondrion|nuclear lamina|nuclear matrix	ATP binding|biotin binding|biotin-[acetyl-CoA-carboxylase] ligase activity|biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity|biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity|biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity|enzyme binding			ovary(2)|breast(1)|kidney(1)|liver(1)	5		Myeloproliferative disorder(46;0.0422)			Biotin(DB00121)	TCCACGACAGCCACGGACATC	0.527													63	79	---	---	---	---	PASS	A	38137351	A	A	38137351	3	1	66	1	0	0	0	0	1	0	0	0	7213	739	26	3	554	3	HLCS	21	38137351	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	11058974	38137351	9992544	708	26413										
TTC3	7267	broad.mit.edu	37	chr21	38519833	38519833	+	Frame_Shift_Del	DEL	C	-	-													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gttccctccagtgccagatgCcatttgttgctatcagaagt							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr21:38519833delC	uc002yvz.2	+	22	2051	c.1946delC	c.(1945-1947)GCCfs	p.A649fs	TTC3_uc011aee.1_Frame_Shift_Del_p.A339fs|TTC3_uc002ywa.2_Frame_Shift_Del_p.A649fs|TTC3_uc002ywb.2_Frame_Shift_Del_p.A649fs|TTC3_uc010gnf.2_Frame_Shift_Del_p.A414fs|TTC3_uc002ywc.2_Frame_Shift_Del_p.A339fs|TTC3_uc011aed.1_Frame_Shift_Del_p.A339fs	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	649					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				GTGCCAGATGCCATTTGTTGC	0.343													77	56	---	---	---	---		-	38519833	-	-	38519833	7	5	66	1	0	1	0	1	0	0	0	0	16694	739	26	0	2028	0	TTC3	21	38519833	Frame_Shift_Del	DEL	C	TCGA-34-5231-01A-21D-1817-08	382482	38519833	9610062	709	26414										
PCNT	5116	broad.mit.edu	37	chr21	47851652	47851652	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agccgcaccctggagctgtcAgaggccttgcggcacgagcg	15	14	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr21:47851652A>T	uc002zji.3	+	38	8381	c.8274A>T	c.(8272-8274)TCA>TCT	p.S2758S	PCNT_uc002zjj.2_Silent_p.S2640S	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2758	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TGGAGCTGTCAGAGGCCTTGC	0.657													15	14	---	---	---	---	PASS	T	47851652	T	T	47851652	2	4	66	1	0	0	0	0	0	0	0	1	11590	175	7	5		5	PCNT	21	47851652	Silent	SNP	A	TCGA-34-5231-01A-21D-1817-08	9331819	47851652	278243	710	26415										
S100B	6285	broad.mit.edu	37	chr21	48019325	48019325	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagtagtaaccatggcaacaAaggccatgaattcctggaag	10	9	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr21:48019325A>G	uc002zju.1	-	3	341	c.230T>C	c.(229-231)TTT>TCT	p.F77S	S100B_uc002zjv.1_3'UTR	NM_006272	NP_006263	P04271	S100B_HUMAN	S100 calcium-binding protein, beta	77	EF-hand 2.				axonogenesis|cell proliferation|central nervous system development|innate immune response|positive regulation of I-kappaB kinase/NF-kappaB cascade	extracellular region|nucleus|perinuclear region of cytoplasm|ruffle	calcium ion binding|calcium-dependent protein binding|protein homodimerization activity|RAGE receptor binding|S100 beta binding|tau protein binding|zinc ion binding				0	Breast(49;0.247)	Lung NSC(3;0.245)		OV - Ovarian serous cystadenocarcinoma(3;1.84e-06)|Epithelial(3;4.45e-06)|all cancers(3;2.07e-05)|Colorectal(79;0.241)		CATGGCAACAAAGGCCATGAA	0.458													61	109	---	---	---	---	PASS	G	48019325	G	G	48019325	3	3	66	1	0	0	0	0	1	0	0	0	13788	14	1	5	52	5	S100B	21	48019325	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	167673	48019325	110570	711	26416										
IL17RA	23765	broad.mit.edu	37	chr22	17589968	17589968	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gggaaccggcatcgtgaagcGggcgcccctggtgcgcgagc	18	13	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr22:17589968G>A	uc002zly.2	+	13	1992	c.1859G>A	c.(1858-1860)CGG>CAG	p.R620Q	IL17RA_uc010gqt.2_Missense_Mutation_p.R568Q	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	620	Cytoplasmic (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		ATCGTGAAGCGGGCGCCCCTG	0.652													4	11	---	---	---	---	PASS	A	17589968	A	A	17589968	3	1	66	1	0	0	0	0	1	0	0	0	7639	1116	39	1	1909	1	IL17RA	22	17589968	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08		17589968	33714598	712	26417										
PRAME	23532	broad.mit.edu	37	chr22	22893284	22893284	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgtcccttcatcagcactccCagagggaggcaggtgaaggg	14	11	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr22:22893284C>T	uc002zwf.2	-	3	405	c.249G>A	c.(247-249)CTG>CTA	p.L83L	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Silent_p.L67L|PRAME_uc010gtr.2_Silent_p.L83L|PRAME_uc002zwg.2_Silent_p.L83L|PRAME_uc002zwh.2_Silent_p.L83L|PRAME_uc002zwi.2_Silent_p.L83L|PRAME_uc002zwj.2_Silent_p.L83L|PRAME_uc002zwk.2_Silent_p.L83L	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	83					apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		TCAGCACTCCCAGAGGGAGGC	0.587													30	105	---	---	---	---	PASS	T	22893284	T	T	22893284	2	4	66	1	0	0	0	0	0	0	0	1	12424	581	21	3		3	PRAME	22	22893284	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	5303316	22893284	28411282	713	26418										
GGT5	2687	broad.mit.edu	37	chr22	24629879	24629879	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atggtgaagatgacccctccGcccaggcccatgctctgagg	12	14	1	4			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr22:24629879G>A	uc002zzo.3	-	2	684	c.267C>T	c.(265-267)GGC>GGT	p.G89G	GGT5_uc002zzp.3_Silent_p.G89G|GGT5_uc002zzr.3_Silent_p.G89G|GGT5_uc002zzq.3_Silent_p.G89G|GGT5_uc011ajm.1_Intron|GGT5_uc011ajn.1_Intron	NM_004121	NP_004112	P36269	GGT5_HUMAN	gamma-glutamyltransferase 5 isoform b	89	Extracellular (Potential).				glutathione biosynthetic process|hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	integral to membrane|plasma membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(2)|skin(1)	3						TGACCCCTCCGCCCAGGCCCA	0.612													24	38	---	---	---	---	PASS	A	24629879	A	A	24629879	2	1	66	1	0	0	0	0	0	0	0	1	6362	1074	38	1		1	GGT5	22	24629879	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	1736595	24629879	26674687	714	26419										
PES1	23481	broad.mit.edu	37	chr22	30975748	30975748	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tcccgctcacctgggtcctcTccccgctgcagagccagcag	10	19	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr22:30975748T>A	uc003aij.1	-	12	1418	c.1344A>T	c.(1342-1344)GGA>GGT	p.G448G	PES1_uc003aik.1_Silent_p.G443G|PES1_uc003ail.1_Silent_p.G431G|PES1_uc003aim.1_Silent_p.G448G|PES1_uc003ain.1_Silent_p.G309G|PES1_uc003aio.1_Silent_p.G309G	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain	448					cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						CTGGGTCCTCTCCCCGCTGCA	0.622													31	67	---	---	---	---	PASS	A	30975748	A	A	30975748	2	1	66	1	0	0	0	0	0	0	0	1	11733	1538	54	5		5	PES1	22	30975748	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	6345869	30975748	20328818	715	26420										
PLA2G3	50487	broad.mit.edu	37	chr22	31536282	31536282	+	Frame_Shift_Del	DEL	C	-	-													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	accagcggagggcaggggagCcccccagggccacccccagg							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr22:31536282delC	uc003aka.2	-	1	188	c.59delG	c.(58-60)GGCfs	p.G20fs		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	20					cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						GGCAGGGGAGCCCCCCAGGGC	0.657													60	39	---	---	---	---		-	31536282	-	-	31536282	7	5	66	1	0	1	0	1	0	0	0	0	12000	739	26	0	1498	0	PLA2G3	22	31536282	Frame_Shift_Del	DEL	C	TCGA-34-5231-01A-21D-1817-08	560534	31536282	19768284	716	26421										
TMPRSS6	164656	broad.mit.edu	37	chr22	37480798	37480798	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggagcagtgggtttggggcGagtagtagctggggaagtac	20	4	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr22:37480798G>A	uc003aqs.1	-	9	1196	c.1082C>T	c.(1081-1083)TCG>TTG	p.S361L	TMPRSS6_uc003aqt.1_Missense_Mutation_p.S352L|TMPRSS6_uc003aqu.2_Missense_Mutation_p.S352L	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	361	CUB 2.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						GGTTTGGGGCGAGTAGTAGCT	0.652													4	9	---	---	---	---	PASS	A	37480798	A	A	37480798	3	1	66	1	0	0	0	0	1	0	0	0	16248	1059	37	2	1393	2	TMPRSS6	22	37480798	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	5944516	37480798	13823768	717	26422										
TRIOBP	11078	broad.mit.edu	37	chr22	38130422	38130422	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ccaggtgaccatgctccctgCcaaacaggcagaactgaccc	9	16	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr22:38130422C>A	uc003atr.2	+	9	4350	c.4079C>A	c.(4078-4080)GCC>GAC	p.A1360D	TRIOBP_uc003atu.2_Missense_Mutation_p.A1188D	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1360					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					ATGCTCCCTGCCAAACAGGCA	0.637													26	37	---	---	---	---	PASS	A	38130422	A	A	38130422	3	1	66	1	0	0	0	0	1	0	0	0	16550	739	26	3	4105	3	TRIOBP	22	38130422	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	649624	38130422	13174144	718	26423										
MICALL1	85377	broad.mit.edu	37	chr22	38320668	38320668	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	actctcctttcccatctaggGagactgcacgaactgcctgt	8	14	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr22:38320668G>A	uc003aui.2	+	7	1110	c.1026G>A	c.(1024-1026)GGG>GGA	p.G342G		NM_033386	NP_203744	Q8N3F8	MILK1_HUMAN	molecule interacting with Rab13	342	Pro-rich.					cytoplasm|cytoskeleton	protein binding|zinc ion binding			breast(1)	1	Melanoma(58;0.045)					CCCATCTAGGGAGACTGCACG	0.662													55	76	---	---	---	---	PASS	A	38320668	A	A	38320668	2	1	66	1	0	0	0	0	0	0	0	1	9573	1188	41	2		2	MICALL1	22	38320668	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	190246	38320668	12983898	719	26424										
ACO2	50	broad.mit.edu	37	chr22	41911921	41911921	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tagactccatctcctgcactGgtgaggaaggcggccaggcg	14	12	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr22:41911921G>T	uc003bac.2	+	6	857	c.835G>T	c.(835-837)GGC>TGC	p.G279C	ACO2_uc003bad.2_Missense_Mutation_p.G279C	NM_001098	NP_001089	Q99798	ACON_HUMAN	aconitase 2, mitochondrial precursor	279					citrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron ion binding|isocitrate hydro-lyase (cis-aconitate-forming) activity			breast(2)|ovary(1)|lung(1)	4						CTCCTGCACTGGTGAGGAAGG	0.587													13	20	---	---	---	---	PASS	T	41911921	T	T	41911921	3	4	66	1	0	0	0	0	1	0	0	0	147	1362	47	3	857	3	ACO2	22	41911921	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	3591253	41911921	9392645	720	26425										
TRMU	55687	broad.mit.edu	37	chr22	46749686	46749686	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tggttcctgtataccttgggCcagagagcaaacataggtgg	13	8	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr22:46749686C>A	uc003bhp.2	+	8	1159	c.795C>A	c.(793-795)GGC>GGA	p.G265G	TRMU_uc011arb.1_Silent_p.G265G|TRMU_uc003bhq.2_Silent_p.G47G|TRMU_uc003bhs.2_Silent_p.G265G|TRMU_uc003bhr.2_Silent_p.G151G|TRMU_uc003bht.2_Silent_p.G118G|TRMU_uc003bhu.2_Silent_p.G47G|TRMU_uc003bhv.2_Silent_p.G118G	NM_018006	NP_060476	O75648	MTU1_HUMAN	tRNA 5-methylaminomethyl-2-thiouridylate	265						mitochondrion	ATP binding|sulfurtransferase activity|tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity|tRNA binding			ovary(1)	1		Ovarian(80;0.00965)|Breast(42;0.0194)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00449)|LUAD - Lung adenocarcinoma(64;0.248)		ATACCTTGGGCCAGAGAGCAA	0.547													53	99	---	---	---	---	PASS	A	46749686	A	A	46749686	2	1	66	1	0	0	0	0	0	0	0	1	16568	726	26	3		3	TRMU	22	46749686	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	4837765	46749686	4554880	721	26426										
GRAMD4	23151	broad.mit.edu	37	chr22	47069575	47069575	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tgccgttggcagctgcagacGacctcgtcacggagctacgt	13	13	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr22:47069575G>C	uc003bhx.2	+	14	1287	c.1248G>C	c.(1246-1248)ACG>ACC	p.T416T	GRAMD4_uc010had.2_Silent_p.T355T|GRAMD4_uc003bhy.2_5'Flank	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	416					apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		AGCTGCAGACGACCTCGTCAC	0.647													52	94	---	---	---	---	PASS	C	47069575	C	C	47069575	2	2	66	1	0	0	0	0	0	0	0	1	6752	1045	37	2		2	GRAMD4	22	47069575	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	319889	47069575	4234991	722	26427										
SHANK3	85358	broad.mit.edu	37	chr22	51117847	51117847	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gccctgcacatctgtgccctCtacaaccaggtgcgactgtg	10	15	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chr22:51117847C>G	uc003bne.1	+	7	876	c.876C>G	c.(874-876)CTC>CTG	p.L292L		NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	292										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		TCTGTGCCCTCTACAACCAGG	0.597													15	34	---	---	---	---	PASS	G	51117847	G	G	51117847	2	3	66	1	0	0	0	0	0	0	0	1	14266	900	32	2		2	SHANK3	22	51117847	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	4048272	51117847	186719	723	26428										
DHRSX	207063	broad.mit.edu	37	chrX	2184966	2184966	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aatccatctctggttttcctCtgagggaccatcatcacccc	6	15	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:2184966C>A	uc004cqf.3	-	5	460	c.411G>T	c.(409-411)CAG>CAT	p.Q137H		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	137							binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				TGGTTTTCCTCTGAGGGACCA	0.493													129	92	---	---	---	---	PASS	A	2184966	A	A	2184966	3	1	66	1	0	0	0	0	1	0	0	0	4499	912	32	2	593	2	DHRSX	23	2184966	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08		2184966	153085594	724	26429										
ARSD	414	broad.mit.edu	37	chrX	2828760	2828760	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atctcttgcctctaaatgtcCtccatggtcagaggtgaaat	8	10	3	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:2828760C>T	uc004cqy.2	-	7	1151	c.1075G>A	c.(1075-1077)GGA>AGA	p.G359R	ARSD_uc004cqz.1_Intron	NM_001669	NP_001660	P51689	ARSD_HUMAN	arylsulfatase D isoform a precursor	359						lysosome	arylsulfatase activity|metal ion binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TCTAAATGTCCTCCATGGTCA	0.433													108	36	---	---	---	---	PASS	T	2828760	T	T	2828760	3	4	66	1	0	0	0	0	1	0	0	0	989	690	24	3	722	3	ARSD	23	2828760	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	643794	2828760	152441800	725	26430										
MXRA5	25878	broad.mit.edu	37	chrX	3261854	3261854	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agcaccacggagagggccccCcagtgcgcgcgcttgggcat	15	15	0	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:3261854C>A	uc004crg.3	-	2	178	c.21G>T	c.(19-21)TGG>TGT	p.W7C		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	7						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				AGAGGGCCCCCCAGTGCGCGC	0.622													18	4	---	---	---	---	PASS	A	3261854	A	A	3261854	3	1	66	1	0	0	0	0	1	0	0	0	10003	624	22	3	8489	3	MXRA5	23	3261854	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	433094	3261854	152008706	726	26431										
STS	412	broad.mit.edu	37	chrX	7268228	7268228	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttctttggaagccctggcttCagctgtgctgtccttccacc	9	14	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:7268228C>T	uc004cry.3	+	10	1923	c.1678C>T	c.(1678-1680)CAG>TAG	p.Q560*		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	560	Lumenal.		Q -> P (in IXL).		female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)	GCCCTGGCTTCAGCTGTGCTG	0.557									Ichthyosis				30	5	---	---	---	---	PASS	T	7268228	T	T	7268228	4	4	66	1	0	0	0	0	0	1	0	0	15331	827	29	2	1716	2	STS	23	7268228	Nonsense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	4006374	7268228	148002332	727	26432										
CXorf23	256643	broad.mit.edu	37	chrX	19983480	19983480	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	taaaacaatctaactctctaTttagagggcctttttgaaaa	5	7	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:19983480T>C	uc004czp.2	-	3	956	c.956A>G	c.(955-957)AAT>AGT	p.N319S	CXorf23_uc010nfn.2_RNA|CXorf23_uc011mjg.1_5'UTR|CXorf23_uc004czo.2_Missense_Mutation_p.N269S	NM_198279	NP_938020	A2AJT9	CX023_HUMAN	hypothetical protein LOC256643	319						mitochondrion				lung(1)|skin(1)	2						TAACTCTCTATTTAGAGGGCC	0.398													78	12	---	---	---	---	PASS	C	19983480	C	C	19983480	3	2	66	1	0	0	0	0	1	0	0	0	4103	1493	52	5	1128	5	CXorf23	23	19983480	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	12715252	19983480	135287080	728	26433										
POLA1	5422	broad.mit.edu	37	chrX	24859851	24859851	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttggtggcccagcacagctCactgatgaagagaaatacag	11	10	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:24859851C>T	uc004dbl.2	+	33	3824	c.3801C>T	c.(3799-3801)CTC>CTT	p.L1267L		NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	1267	Potential.				cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	CAGCACAGCTCACTGATGAAG	0.383													40	14	---	---	---	---	PASS	T	24859851	T	T	24859851	2	4	66	1	0	0	0	0	0	0	0	1	12187	813	29	2		2	POLA1	23	24859851	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	4876371	24859851	130410709	729	26434										
TAB3	257397	broad.mit.edu	37	chrX	30849553	30849553	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cttttctgaattcaggtgtaCcgtggcatctcgcactgctc	9	12	3	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:30849553C>T	uc004dcj.2	-	11	2793	c.2130G>A	c.(2128-2130)CGG>CGA	p.R710R	TAB3_uc004dck.2_Silent_p.R710R|TAB3_uc010ngl.2_Silent_p.R682R	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	710	RanBP2-type.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|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|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						TTCAGGTGTACCGTGGCATCT	0.493													22	5	---	---	---	---	PASS	T	30849553	T	T	30849553	2	4	66	1	0	0	0	0	0	0	0	1	15494	494	18	3		3	TAB3	23	30849553	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	5989702	30849553	124421007	730	26435										
DMD	1756	broad.mit.edu	37	chrX	32509416	32509416	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tacaaatttttaactgacttTtaattgctgttggctctgat	6	6	1	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:32509416T>C	uc004dda.1	-	20	2844	c.2600A>G	c.(2599-2601)AAA>AGA	p.K867R	DMD_uc004dcz.2_Missense_Mutation_p.K744R|DMD_uc004dcy.1_Missense_Mutation_p.K863R|DMD_uc004ddb.1_Missense_Mutation_p.K859R|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	867	Spectrin 5.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TAACTGACTTTTAATTGCTGT	0.373													67	13	---	---	---	---	PASS	C	32509416	C	C	32509416	3	2	66	1	0	0	0	0	1	0	0	0	4580	1841	64	5	8940	5	DMD	23	32509416	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	1659863	32509416	122761144	731	26436										
MAGEB16	139604	broad.mit.edu	37	chrX	35820581	35820581	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ctgatgaggcttccagcaatCaagaagaggaagatagtcca	11	8	1	5			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:35820581C>A	uc010ngt.1	+	2	547	c.268C>A	c.(268-270)CAA>AAA	p.Q90K		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	90										lung(3)|ovary(2)|breast(1)|skin(1)	7						TTCCAGCAATCAAGAAGAGGA	0.488													11	2	---	---	---	---	PASS	A	35820581	A	A	35820581	3	1	66	1	0	0	0	0	1	0	0	0	9174	827	29	2	270	2	MAGEB16	23	35820581	Missense_Mutation	SNP	C	TCGA-34-5231-01A-21D-1817-08	3311165	35820581	119449979	732	26437										
GATA1	2623	broad.mit.edu	37	chrX	48652347	48652347	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gctttatggtggtggctgggGgcagcggtagcgggaattgt	20	5	0	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:48652347G>A	uc004dkq.3	+	6	1109	c.1018G>A	c.(1018-1020)GGC>AGC	p.G340S		NM_002049	NP_002040	P15976	GATA1_HUMAN	GATA binding protein 1	340					basophil differentiation|eosinophil differentiation|erythrocyte development|megakaryocyte differentiation|platelet aggregation|platelet formation|positive regulation of anti-apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|regulation of glycoprotein biosynthetic process|transcription from RNA polymerase II promoter	nuclear membrane|nucleolus|nucleoplasm	C2H2 zinc finger domain binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(246)|lung(2)	248						GGTGGCTGGGGGCAGCGGTAG	0.632			Mis|F		megakaryoblastic leukemia of Downs Syndrome								5	2	---	---	---	---	PASS	A	48652347	A	A	48652347	3	1	66	1	0	0	0	0	1	0	0	0	6253	1232	43	3	1036	3	GATA1	23	48652347	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	12831766	48652347	106618213	733	26438										
DGKK	139189	broad.mit.edu	37	chrX	50165518	50165518	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagatcaatcgtttcaaagtGtgcaaactggaaagatataa	8	6	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:50165518G>T	uc010njr.1	-	3	823	c.763C>A	c.(763-765)CAC>AAC	p.H255N		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	255	PH.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					GTTTCAAAGTGTGCAAACTGG	0.358													37	17	---	---	---	---	PASS	T	50165518	T	T	50165518	3	4	66	1	0	0	0	0	1	0	0	0	4472	1377	48	3	3155	3	DGKK	23	50165518	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	1513171	50165518	105105042	734	26439										
PHF8	23133	broad.mit.edu	37	chrX	54012307	54012307	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggccttgagcagatcaagaaTgccaccagcgccactaccat	9	14	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:54012307T>C	uc004dsu.2	-	17	2252	c.2179A>G	c.(2179-2181)ATT>GTT	p.I727V	PHF8_uc004dst.2_Missense_Mutation_p.I691V|PHF8_uc004dsv.2_Missense_Mutation_p.I557V|PHF8_uc004dsw.2_Missense_Mutation_p.I590V|PHF8_uc004dsx.2_Missense_Mutation_p.I455V|PHF8_uc004dsy.2_Intron	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	727					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						AGATCAAGAATGCCACCAGCG	0.537													48	21	---	---	---	---	PASS	C	54012307	C	C	54012307	3	2	66	1	0	0	0	0	1	0	0	0	11840	1464	51	5	1197	5	PHF8	23	54012307	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	3846789	54012307	101258253	735	26440										
PFKFB1	5207	broad.mit.edu	37	chrX	54986326	54986326	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agggctgccagggcgcactgCctgaaatagaccaggaaaga	14	10	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:54986326C>T	uc004dty.1	-	4	389	c.318G>A	c.(316-318)AAG>AAA	p.K106K	PFKFB1_uc010nkd.1_Silent_p.K92K|PFKFB1_uc011mol.1_Silent_p.K41K	NM_002625	NP_002616	P16118	F261_HUMAN	6-phosphofructo-2-kinase/fructose-2,	106	6-phosphofructo-2-kinase.				energy reserve metabolic process|fructose 2,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|intracellular protein kinase cascade	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(1)	1						GGGCGCACTGCCTGAAATAGA	0.443													25	5	---	---	---	---	PASS	T	54986326	T	T	54986326	2	4	66	1	0	0	0	0	0	0	0	1	11760	753	26	3		3	PFKFB1	23	54986326	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	974019	54986326	100284234	736	26441										
HEPH	9843	broad.mit.edu	37	chrX	65393453	65393453	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	tccctatacccagatggctcCtctgggccactgaaagctga	9	14	1	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:65393453C>T	uc011moz.1	+	4	504	c.444C>T	c.(442-444)TCC>TCT	p.S148S	HEPH_uc004dwn.2_Silent_p.S148S|HEPH_uc004dwo.2_5'UTR|HEPH_uc010nkr.2_Silent_p.S148S|HEPH_uc011mpa.1_Silent_p.S148S	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	145	Extracellular (Potential).|Plastocyanin-like 1.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						CAGATGGCTCCTCTGGGCCAC	0.517													22	5	---	---	---	---	PASS	T	65393453	T	T	65393453	2	4	66	1	0	0	0	0	0	0	0	1	7054	668	24	3		3	HEPH	23	65393453	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	10407127	65393453	89877107	737	26442										
HEPH	9843	broad.mit.edu	37	chrX	65409665	65409665	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggacagatgctgactacccgTggacaccacactgatgtggc	12	12	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:65409665T>A	uc011moz.1	+	6	1017	c.957T>A	c.(955-957)CGT>CGA	p.R319R	HEPH_uc004dwn.2_Silent_p.R319R|HEPH_uc004dwo.2_Silent_p.R49R|HEPH_uc010nkr.2_Silent_p.R319R|HEPH_uc011mpa.1_Silent_p.R319R	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	316	Extracellular (Potential).|Plastocyanin-like 2.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						TGACTACCCGTGGACACCACA	0.502													14	4	---	---	---	---	PASS	A	65409665	A	A	65409665	2	1	66	1	0	0	0	0	0	0	0	1	7054	1683	59	5		5	HEPH	23	65409665	Silent	SNP	T	TCGA-34-5231-01A-21D-1817-08	16212	65409665	89860895	738	26443										
HEPH	9843	broad.mit.edu	37	chrX	65476032	65476032	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aggacggagtgacatggatcGggaatttgcattgttgttct	14	5	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:65476032G>A	uc011moz.1	+	17	2825	c.2765G>A	c.(2764-2766)CGG>CAG	p.R922Q	HEPH_uc004dwn.2_Missense_Mutation_p.R922Q|HEPH_uc004dwo.2_Missense_Mutation_p.R652Q|HEPH_uc010nkr.2_Missense_Mutation_p.R730Q|HEPH_uc011mpa.1_Missense_Mutation_p.R922Q|HEPH_uc010nks.2_Missense_Mutation_p.R211Q	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	919	Extracellular (Potential).|Plastocyanin-like 6.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						GACATGGATCGGGAATTTGCA	0.498													47	13	---	---	---	---	PASS	A	65476032	A	A	65476032	3	1	66	1	0	0	0	0	1	0	0	0	7054	1116	39	1	2984	1	HEPH	23	65476032	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	66367	65476032	89794528	739	26444										
IL2RG	3561	broad.mit.edu	37	chrX	70330030	70330030	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cagctgtggtcccagtcagtCcggtactgcaccaagtgctc	11	14	1	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:70330030C>A	uc004dyw.1	-	4	584	c.570G>T	c.(568-570)CGG>CGT	p.R190R	IL2RG_uc004dyv.1_5'Flank|IL2RG_uc004dyx.1_Intron	NM_000206	NP_000197	P31785	IL2RG_HUMAN	interleukin 2 receptor, gamma precursor	190	Extracellular (Potential).|Fibronectin type-III.				immune response|interleukin-4-mediated signaling pathway|interspecies interaction between organisms	external side of plasma membrane|integral to plasma membrane	cytokine receptor activity|interleukin-2 binding			pancreas(1)	1	Renal(35;0.156)				Aldesleukin(DB00041)|Denileukin diftitox(DB00004)	CCCAGTCAGTCCGGTACTGCA	0.478									Severe_Combined_Immunodeficiency_X-linked				65	15	---	---	---	---	PASS	A	70330030	A	A	70330030	2	1	66	1	0	0	0	0	0	0	0	1	7688	842	30	2		2	IL2RG	23	70330030	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	4853998	70330030	84940530	740	26445										
DACH2	117154	broad.mit.edu	37	chrX	85769298	85769298	+	Frame_Shift_Del	DEL	C	-	-													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	acagttcaagacccggcaggCcccctaagcgttctttggga							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:85769298delC	uc004eew.2	+	3	714	c.544delC	c.(544-546)CCCfs	p.P182fs	DACH2_uc004eex.2_Frame_Shift_Del_p.P169fs|DACH2_uc010nmq.2_Frame_Shift_Del_p.P48fs|DACH2_uc011mra.1_Frame_Shift_Del_p.P15fs|DACH2_uc010nmr.2_5'UTR	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	182					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						ACCCGGCAGGCCCCCTAAGCG	0.438													9	16	---	---	---	---		-	85769298	-	-	85769298	7	5	66	1	0	1	0	1	0	0	0	0	4221	739	26	0	554	0	DACH2	23	85769298	Frame_Shift_Del	DEL	C	TCGA-34-5231-01A-21D-1817-08	15439268	85769298	69501262	741	26446										
TGIF2LX	90316	broad.mit.edu	37	chrX	89177433	89177433	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	cggatatgcttcaacagcgtAgaaacgaccccatcattggc	9	12	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:89177433A>T	uc004efe.2	+	2	398	c.349A>T	c.(349-351)AGA>TGA	p.R117*		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	117						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						TCAACAGCGTAGAAACGACCC	0.532													47	11	---	---	---	---	PASS	T	89177433	T	T	89177433	4	4	66	1	0	0	0	0	0	1	0	0	15824	412	15	5	351	5	TGIF2LX	23	89177433	Nonsense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	3408135	89177433	66093127	742	26447										
PCDH11X	27328	broad.mit.edu	37	chrX	91133246	91133246	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtggttgatgtcaatgacaaCaaaccagttttcattgtccc	8	9	2	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:91133246C>T	uc004efk.1	+	2	2852	c.2007C>T	c.(2005-2007)AAC>AAT	p.N669N	PCDH11X_uc004efl.1_Silent_p.N669N|PCDH11X_uc004efo.1_Silent_p.N669N|PCDH11X_uc010nmv.1_Silent_p.N669N|PCDH11X_uc004efm.1_Silent_p.N669N|PCDH11X_uc004efn.1_Silent_p.N669N|PCDH11X_uc004efh.1_Silent_p.N669N|PCDH11X_uc004efj.1_Silent_p.N669N	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	669	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TCAATGACAACAAACCAGTTT	0.408													71	19	---	---	---	---	PASS	T	91133246	T	T	91133246	2	4	66	1	0	0	0	0	0	0	0	1	11508	477	17	3		3	PCDH11X	23	91133246	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	1955813	91133246	64137314	743	26448										
DRP2	1821	broad.mit.edu	37	chrX	100497460	100497460	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gtccgatggaaacaactacaGgtagaagagcagcctggagt	13	8	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:100497460G>A	uc004egz.2	+	8	1344	c.975G>A	c.(973-975)CAG>CAA	p.Q325Q	DRP2_uc011mrh.1_Silent_p.Q247Q	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	325	Spectrin 2.				central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						AACAACTACAGGTAGAAGAGC	0.498													67	25	---	---	---	---	PASS	A	100497460	A	A	100497460	2	1	66	1	0	0	0	0	0	0	0	1	4764	1014	35	3		3	DRP2	23	100497460	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	9364214	100497460	54773100	744	26449										
ARMCX2	9823	broad.mit.edu	37	chrX	100911581	100911581	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	agaatcagggacctctgccaGgaaagcctgtccgccattag	11	12	2	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:100911581G>T	uc004eid.2	-	3	1349	c.994C>A	c.(994-996)CTG>ATG	p.L332M	ARMCX2_uc004eie.3_Missense_Mutation_p.L332M|ARMCX2_uc004eif.3_Missense_Mutation_p.L332M|ARMCX2_uc004eig.3_Missense_Mutation_p.L332M|ARMCX2_uc010nnt.2_Missense_Mutation_p.L332M	NM_177949	NP_808818	Q7L311	ARMX2_HUMAN	ALEX2 protein	332						integral to membrane	binding			ovary(6)	6						ACCTCTGCCAGGAAAGCCTGT	0.592													53	12	---	---	---	---	PASS	T	100911581	T	T	100911581	3	4	66	1	0	0	0	0	1	0	0	0	960	991	35	3	908	3	ARMCX2	23	100911581	Missense_Mutation	SNP	G	TCGA-34-5231-01A-21D-1817-08	414121	100911581	54358979	745	26450										
RNF128	79589	broad.mit.edu	37	chrX	106031167	106031167	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ggaaattggccctgatggagAtagttgtgctgtgtgcattg	15	5	0	2			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:106031167A>G	uc004eml.2	+	4	1074	c.824A>G	c.(823-825)GAT>GGT	p.D275G	RNF128_uc004emk.2_Missense_Mutation_p.D249G	NM_194463	NP_919445	Q8TEB7	RN128_HUMAN	ring finger protein 128 isoform 1	275						endomembrane system|integral to membrane|perinuclear region of cytoplasm	zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCTGATGGAGATAGTTGTGCT	0.323													36	12	---	---	---	---	PASS	G	106031167	G	G	106031167	3	3	66	1	0	0	0	0	1	0	0	0	13436	333	12	5	1248	5	RNF128	23	106031167	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	5119586	106031167	49239393	746	26451										
TRPC5	7224	broad.mit.edu	37	chrX	111078268	111078268	+	Nonsense_Mutation	SNP	T	A	A													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaactcggtgaattcgtgtcTggctttcacattggtgacat							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:111078268T>A	uc004epl.1	-	7	2696	c.1777A>T	c.(1777-1779)AGA>TGA	p.R593*	TRPC5_uc004epm.1_Nonsense_Mutation_p.R593*	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	593	Extracellular (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						AATTCGTGTCTGGCTTTCACA	0.418													244	51	---	---	---	---	PASS	A	111078268	A	A	111078268	4	1	66	1	0	0	0	0	0	1	0	0	16579	1588	55	5	1164	5	TRPC5	23	111078268	Nonsense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	5047101	111078268	44192292	747	26452	552	2								
TRPC5	7224	broad.mit.edu	37	chrX	111078269	111078269	+	Silent	SNP	G	A	A													0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aactcggtgaattcgtgtctGgctttcacattggtgacata							TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:111078269G>A	uc004epl.1	-	7	2695	c.1776C>T	c.(1774-1776)GCC>GCT	p.A592A	TRPC5_uc004epm.1_Silent_p.A592A	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	592	Extracellular (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						ATTCGTGTCTGGCTTTCACAT	0.418													241	50	---	---	---	---	PASS	A	111078269	A	A	111078269	2	1	66	1	0	0	0	0	0	0	0	1	16579	1335	47	3		3	TRPC5	23	111078269	Silent	SNP	G	TCGA-34-5231-01A-21D-1817-08	1	111078269	44192291	748	26453	552	2								
STAG2	10735	broad.mit.edu	37	chrX	123205135	123205135	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	gctcagctttattttggatcAtgtcttcattgaacaggatg	9	7	4	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:123205135A>G	uc004etz.3	+	24	2834	c.2495A>G	c.(2494-2496)CAT>CGT	p.H832R	STAG2_uc004eua.2_Missense_Mutation_p.H832R|STAG2_uc004eub.2_Missense_Mutation_p.H832R|STAG2_uc004euc.2_Missense_Mutation_p.H832R|STAG2_uc004eud.2_Missense_Mutation_p.H832R|STAG2_uc004eue.2_Missense_Mutation_p.H832R	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	832					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						ATTTTGGATCATGTCTTCATT	0.363													92	26	---	---	---	---	PASS	G	123205135	G	G	123205135	3	3	66	1	0	0	0	0	1	0	0	0	15242	217	8	5	2585	5	STAG2	23	123205135	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	12126866	123205135	32065425	749	26454										
XPNPEP2	7512	broad.mit.edu	37	chrX	128879190	128879190	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	atttcctagaacgagtacatCggccaacatgacgagaggcg	11	10	0	3			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:128879190C>A	uc004eut.1	+	4	490	c.246C>A	c.(244-246)ATC>ATA	p.I82I	XPNPEP2_uc011mum.1_Silent_p.I82I	NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound	82					cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						ACGAGTACATCGGCCAACATG	0.488													35	12	---	---	---	---	PASS	A	128879190	A	A	128879190	2	1	66	1	0	0	0	0	0	0	0	1	17440	874	31	2		2	XPNPEP2	23	128879190	Silent	SNP	C	TCGA-34-5231-01A-21D-1817-08	5674055	128879190	26391370	750	26455										
FRMD7	90167	broad.mit.edu	37	chrX	131218580	131218580	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	aaaactcaacttgcggatttTagcccagttaaaagtattga	7	7	1	1			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:131218580T>C	uc004ewn.2	-	8	857	c.679A>G	c.(679-681)AAA>GAA	p.K227E	FRMD7_uc011muy.1_Missense_Mutation_p.K212E	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	227	FERM.				regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TTGCGGATTTTAGCCCAGTTA	0.333													70	21	---	---	---	---	PASS	C	131218580	C	C	131218580	3	2	66	1	0	0	0	0	1	0	0	0	6055	1763	61	5	1485	5	FRMD7	23	131218580	Missense_Mutation	SNP	T	TCGA-34-5231-01A-21D-1817-08	2339390	131218580	24051980	751	26456										
FMR1NB	158521	broad.mit.edu	37	chrX	147063148	147063148	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0929919137466307	69	5.06585132795781e-06	1.78029219245563	2.65084838533114	1.26931355750696	0.369607885378369	0.769654067199663	30	ttgggatgctcatgctctccAtttggatcctgctgttcgtg	11	10	2	0			TCGA-34-5231-01A-21D-1817-08	TCGA-34-5231-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	c9862ed2-4ba6-434d-a205-b1bda292d218	84be8437-4a30-4730-af92-4ba428be4dc1	g.chrX:147063148A>G	uc004fcm.2	+	1	300	c.226A>G	c.(226-228)ATT>GTT	p.I76V		NM_152578	NP_689791	Q8N0W7	FMR1N_HUMAN	fragile X mental retardation 1 neighbor	76	Helical; (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CATGCTCTCCATTTGGATCCT	0.532													98	24	---	---	---	---	PASS	G	147063148	G	G	147063148	3	3	66	1	0	0	0	0	1	0	0	0	5961	217	8	5	228	5	FMR1NB	23	147063148	Missense_Mutation	SNP	A	TCGA-34-5231-01A-21D-1817-08	15844568	147063148	8207412	752	26457										
PIK3CD	5293	broad.mit.edu	37	chr1	9775958	9775958	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agaagtgaacgactttcgcgCcaagatgtgccaattctgcg	11	10	1	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:9775958C>T	uc001aqb.3	+	5	630	c.422C>T	c.(421-423)GCC>GTC	p.A141V	PIK3CD_uc010oaf.1_Missense_Mutation_p.A141V|PIK3CD_uc001aqe.3_Missense_Mutation_p.A141V	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	141					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		GACTTTCGCGCCAAGATGTGC	0.687													5	27	---	---	---	---	PASS	T	9775958	T	T	9775958	3	4	67	1	0	0	0	0	1	0	0	0	11915	739	26	3	432	3	PIK3CD	1	9775958	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08		9775958	239474663	1	26458										
VPS13D	55187	broad.mit.edu	37	chr1	12416115	12416115	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aggatccttaaagatcttcaTttctgctccatattggctga	7	9	3	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:12416115T>G	uc001atv.2	+	48	9980	c.9839T>G	c.(9838-9840)ATT>AGT	p.I3280S	VPS13D_uc001atw.2_Missense_Mutation_p.I3255S|VPS13D_uc001atx.2_Missense_Mutation_p.I2467S	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3279					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AAGATCTTCATTTCTGCTCCA	0.448													22	69	---	---	---	---	PASS	G	12416115	G	G	12416115	3	3	67	1	0	0	0	0	1	0	0	0	17189	1493	52	5	10025	5	VPS13D	1	12416115	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	2640157	12416115	236834506	2	26459										
FAM151A	338094	broad.mit.edu	37	chr1	55089020	55089020	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agacacacaggtaatgccggCaaacacccacttgacctgat	8	13	0	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:55089020C>G	uc001cxn.2	-	1	181	c.49G>C	c.(49-51)GCC>CCC	p.A17P	ACOT11_uc001cxm.1_Intron	NM_176782	NP_788954	Q8WW52	F151A_HUMAN	hypothetical protein LOC338094	17	Helical; (Potential).					integral to membrane					0						GTAATGCCGGCAAACACCCAC	0.597													16	163	---	---	---	---	PASS	G	55089020	G	G	55089020	3	3	67	1	0	0	0	0	1	0	0	0	5458	710	25	4	1740	4	FAM151A	1	55089020	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	42672905	55089020	194161601	3	26460										
INADL	10207	broad.mit.edu	37	chr1	62593720	62593720	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agatatccccgtatttattgCcatgattcaggctagcggag	10	9	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:62593720C>G	uc001dab.2	+	40	5234	c.5120C>G	c.(5119-5121)GCC>GGC	p.A1707G	INADL_uc001dac.2_RNA|INADL_uc009wag.2_Missense_Mutation_p.A491G	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1707	PDZ 10.				intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						GTATTTATTGCCATGATTCAG	0.458													11	74	---	---	---	---	PASS	G	62593720	G	G	62593720	3	3	67	1	0	0	0	0	1	0	0	0	7731	739	26	4	5274	4	INADL	1	62593720	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	7504700	62593720	186656901	4	26461										
DOCK7	85440	broad.mit.edu	37	chr1	63044554	63044554	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gtttttgttgacaactaacaTgataaaaagtaaaaagcaag	7	4	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:63044554T>C	uc001daq.2	-	17	1989	c.1955A>G	c.(1954-1956)CAT>CGT	p.H652R	DOCK7_uc001dan.2_Missense_Mutation_p.H544R|DOCK7_uc001dao.2_Missense_Mutation_p.H544R|DOCK7_uc001dap.2_Missense_Mutation_p.H652R	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	652	DHR-1.				activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						ACAACTAACATGATAAAAAGT	0.313													25	109	---	---	---	---	PASS	C	63044554	C	C	63044554	3	2	67	1	0	0	0	0	1	0	0	0	4692	1464	51	5	4506	5	DOCK7	1	63044554	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	450834	63044554	186206067	5	26462										
LRRC7	57554	broad.mit.edu	37	chr1	70573448	70573448	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cttatagggtatctttgttaCtagggttcagcctgatgggc	12	7	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:70573448C>G	uc001dep.2	+	24	4475	c.4445C>G	c.(4444-4446)ACT>AGT	p.T1482S	LRRC7_uc009wbg.2_Missense_Mutation_p.T766S|LRRC7_uc001deq.2_Missense_Mutation_p.T676S	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1482	PDZ.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						ATCTTTGTTACTAGGGTTCAG	0.408													23	152	---	---	---	---	PASS	G	70573448	G	G	70573448	3	3	67	1	0	0	0	0	1	0	0	0	9020	565	20	4	4539	4	LRRC7	1	70573448	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	7528894	70573448	178677173	6	26463										
FPGT	8790	broad.mit.edu	37	chr1	74670968	74670968	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tactggattcaagatgttctGtggcacctggctcagttgtg	12	8	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:74670968G>T	uc001dgb.1	+	4	1274	c.1237G>T	c.(1237-1239)GTG>TTG	p.V413L	TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron|FPGT_uc010oqt.1_Missense_Mutation_p.V38L|FPGT_uc010oqu.1_Missense_Mutation_p.V159L|FPGT_uc010oqv.1_Intron	NM_003838	NP_003829	O14772	FPGT_HUMAN	fucose-1-phosphate guanyltransferase	413					fucose metabolic process	cytoplasm	fucose-1-phosphate guanylyltransferase activity|GTP binding			skin(1)	1						AAGATGTTCTGTGGCACCTGG	0.423													22	124	---	---	---	---	PASS	T	74670968	T	T	74670968	3	4	67	1	0	0	0	0	1	0	0	0	6037	1377	48	3	1251	3	FPGT	1	74670968	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	4097520	74670968	174579653	7	26464										
ARHGAP29	9411	broad.mit.edu	37	chr1	94654471	94654471	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agaatcactaaacatcccaaAtgtccatgatcttataaagg	5	9	2	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:94654471A>C	uc001dqj.3	-	15	1972	c.1603T>G	c.(1603-1605)TTT>GTT	p.F535V	ARHGAP29_uc009wdq.1_RNA|ARHGAP29_uc001dqk.2_Missense_Mutation_p.F101V	NM_004815	NP_004806	Q52LW3	RHG29_HUMAN	PTPL1-associated RhoGAP 1	535					Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|upper_aerodigestive_tract(1)|ovary(1)	11		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		AACATCCCAAATGTCCATGAT	0.358													19	107	---	---	---	---	PASS	C	94654471	C	C	94654471	3	2	67	1	0	0	0	0	1	0	0	0	878	101	4	5	2218	5	ARHGAP29	1	94654471	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	19983503	94654471	154596150	8	26465										
FAM19A3	284467	broad.mit.edu	37	chr1	113264887	113264887	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ggtcgagcggaactggagcaCgggcggctggctgctggcac	19	11	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:113264887C>T	uc001ecv.2	+	2	101	c.32C>T	c.(31-33)ACG>ATG	p.T11M	FAM19A3_uc001ecu.2_Missense_Mutation_p.T11M|FAM19A3_uc010owk.1_RNA|FAM19A3_uc010owl.1_RNA	NM_182759	NP_877436	Q7Z5A8	F19A3_HUMAN	family with sequence similarity 19 (chemokine	11						extracellular region					0	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AACTGGAGCACGGGCGGCTGG	0.642													27	141	---	---	---	---	PASS	T	113264887	T	T	113264887	3	4	67	1	0	0	0	0	1	0	0	0	5533	536	19	1	34	1	FAM19A3	1	113264887	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	18610416	113264887	135985734	9	26466										
AMPD1	270	broad.mit.edu	37	chr1	115222975	115222975	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ggcttaggctcatctttgctGactgctgcttcattaggata	10	9	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:115222975G>T	uc001efe.1	-	6	756	c.672C>A	c.(670-672)GTC>GTA	p.V224V	AMPD1_uc001eff.1_Silent_p.V220V	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	224					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	CATCTTTGCTGACTGCTGCTT	0.443													21	139	---	---	---	---	PASS	T	115222975	T	T	115222975	2	4	67	1	0	0	0	0	0	0	0	1	585	1277	45	2		2	AMPD1	1	115222975	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	1958088	115222975	134027646	10	26467										
WDR3	10885	broad.mit.edu	37	chr1	118497236	118497236	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gcaaccccatcctaatggctTatggcagtatctcagtgagt	9	11	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:118497236T>A	uc010oxe.1	+	23	2461	c.2395T>A	c.(2395-2397)TAT>AAT	p.Y799N	WDR3_uc001ehi.2_Intron|SPAG17_uc001ehk.2_Intron	NM_006784	NP_006775	Q9UNX4	WDR3_HUMAN	WD repeat-containing protein 3	799						nuclear membrane|nucleolus				upper_aerodigestive_tract(1)	1	Esophageal squamous(2;0.162)	all_cancers(81;2.72e-05)|Acute lymphoblastic leukemia(138;1e-08)|all_epithelial(167;4.4e-07)|all_lung(203;1.7e-06)|Lung NSC(69;1.98e-05)|Prostate(1639;0.00955)|Breast(1374;0.244)		OV - Ovarian serous cystadenocarcinoma(397;1.39e-08)|Epithelial(280;1.82e-07)|all cancers(265;2.04e-05)|Lung(183;0.0525)|BRCA - Breast invasive adenocarcinoma(282;0.0695)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.185)		CCTAATGGCTTATGGCAGTAT	0.358													23	118	---	---	---	---	PASS	A	118497236	A	A	118497236	3	1	67	1	0	0	0	0	1	0	0	0	17282	1754	61	5	2481	5	WDR3	1	118497236	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	3274261	118497236	130753385	11	26468										
PRDX6	9588	broad.mit.edu	37	chr1	173455423	173455423	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tttggtcctgataagaagctGaagctgtctatcctctaccc	8	11	2	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:173455423G>C	uc001giy.1	+	4	480	c.429G>C	c.(427-429)CTG>CTC	p.L143L		NM_004905	NP_004896	P30041	PRDX6_HUMAN	peroxiredoxin 6	143	Thioredoxin.				cell redox homeostasis|phospholipid catabolic process	cytoplasmic membrane-bounded vesicle|cytosol|lysosome	peroxiredoxin activity|phospholipase A2 activity|protein binding			central_nervous_system(1)	1						ATAAGAAGCTGAAGCTGTCTA	0.448													41	258	---	---	---	---	PASS	C	173455423	C	C	173455423	2	2	67	1	0	0	0	0	0	0	0	1	12469	1277	45	2		2	PRDX6	1	173455423	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	54958187	173455423	75795198	12	26469										
TDRD5	163589	broad.mit.edu	37	chr1	179604969	179604969	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cctagtcaattctacatccgGatctatagcagggattcgtc	8	11	3	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:179604969G>T	uc001gnf.1	+	9	1717	c.1467G>T	c.(1465-1467)CGG>CGT	p.R489R	TDRD5_uc010pnp.1_Silent_p.R489R|TDRD5_uc001gnh.1_Silent_p.R44R	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	489					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						TCTACATCCGGATCTATAGCA	0.413													12	102	---	---	---	---	PASS	T	179604969	T	T	179604969	2	4	67	1	0	0	0	0	0	0	0	1	15730	1161	41	2		2	TDRD5	1	179604969	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	6149546	179604969	69645652	13	26470										
SMG7	9887	broad.mit.edu	37	chr1	183495814	183495814	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttgggaattatcagcaataaAcagacgcataccagcgccat	8	10	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:183495814A>G	uc001gqg.2	+	5	518	c.396A>G	c.(394-396)AAA>AAG	p.K132K	SMG7_uc010pob.1_Silent_p.K161K|SMG7_uc001gqf.2_Silent_p.K132K|SMG7_uc001gqh.2_Silent_p.K132K|SMG7_uc001gqi.2_Silent_p.K90K|SMG7_uc010poc.1_Silent_p.K90K	NM_173156	NP_775179	Q92540	SMG7_HUMAN	SMG-7 homolog isoform 1	132					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|intermediate filament cytoskeleton|nucleus	protein phosphatase 2A binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TCAGCAATAAACAGACGCATA	0.433													29	231	---	---	---	---	PASS	G	183495814	G	G	183495814	2	3	67	1	0	0	0	0	0	0	0	1	14798	40	2	5		5	SMG7	1	183495814	Silent	SNP	A	TCGA-34-5232-01A-21D-1817-08	3890845	183495814	65754807	14	26471										
LMOD1	25802	broad.mit.edu	37	chr1	201868784	201868784	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gggcccggccagctcaaaatGgtagcccagcttgagcaggg	15	12	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:201868784G>A	uc001gxb.2	-	2	1605	c.1357C>T	c.(1357-1359)CAT>TAT	p.H453Y	LMOD1_uc010ppu.1_Missense_Mutation_p.H402Y	NM_012134	NP_036266	P29536	LMOD1_HUMAN	leiomodin 1 (smooth muscle)	453					muscle contraction	cytoskeleton|cytosol|membrane fraction	tropomyosin binding			ovary(1)|pancreas(1)|skin(1)	3						AGCTCAAAATGGTAGCCCAGC	0.572													6	26	---	---	---	---	PASS	A	201868784	A	A	201868784	3	1	67	1	0	0	0	0	1	0	0	0	8856	1348	47	3	453	3	LMOD1	1	201868784	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	18372970	201868784	47381837	15	26472										
USH2A	7399	broad.mit.edu	37	chr1	215848335	215848335	+	Silent	SNP	G	T	T													0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ggatcaaagctaaaaggataGagcatttcattcctttgaag							TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:215848335G>T	uc001hku.1	-	63	13305	c.12918C>A	c.(12916-12918)CTC>CTA	p.L4306L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4306	Fibronectin type-III 28.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TAAAAGGATAGAGCATTTCAT	0.398										HNSCC(13;0.011)			16	107	---	---	---	---	PASS	T	215848335	T	T	215848335	2	4	67	1	0	0	0	0	0	0	0	1	17033	929	33	2		2	USH2A	1	215848335	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	13979551	215848335	33402286	16	26473	553	2								
USH2A	7399	broad.mit.edu	37	chr1	215848336	215848336	+	Missense_Mutation	SNP	A	T	T													0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gatcaaagctaaaaggatagAgcatttcattcctttgaagc							TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:215848336A>T	uc001hku.1	-	63	13304	c.12917T>A	c.(12916-12918)CTC>CAC	p.L4306H		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4306	Fibronectin type-III 28.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AAAAGGATAGAGCATTTCATT	0.393										HNSCC(13;0.011)			16	108	---	---	---	---	PASS	T	215848336	T	T	215848336	3	4	67	1	0	0	0	0	1	0	0	0	17033	304	11	5	2731	5	USH2A	1	215848336	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	1	215848336	33402285	17	26474	553	2								
RYR2	6262	broad.mit.edu	37	chr1	237947904	237947904	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcatgaccctcttgcacttcGtggccagcgttttcagaggc	10	13	3	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:237947904G>A	uc001hyl.1	+	90	13012	c.12892G>A	c.(12892-12894)GTG>ATG	p.V4298M	RYR2_uc010pya.1_Missense_Mutation_p.V713M	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4298	Helical; Name=M4; (Potential).				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)			CTTGCACTTCGTGGCCAGCGT	0.463													13	51	---	---	---	---	PASS	A	237947904	A	A	237947904	3	1	67	1	0	0	0	0	1	0	0	0	13769	1145	40	1	13250	1	RYR2	1	237947904	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	22099568	237947904	11302717	18	26475										
OR2B11	127623	broad.mit.edu	37	chr1	247614352	247614352	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	catccacagagcctccagatCctggccagaagtctcctcag	8	16	2	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:247614352C>T	uc010pyx.1	-	1	933	c.933G>A	c.(931-933)AGG>AGA	p.R311R		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			GCCTCCAGATCCTGGCCAGAA	0.453													47	294	---	---	---	---	PASS	T	247614352	T	T	247614352	2	4	67	1	0	0	0	0	0	0	0	1	10988	854	30	2		2	OR2B11	1	247614352	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	9666448	247614352	1636269	19	26476										
OR6F1	343169	broad.mit.edu	37	chr1	247875519	247875519	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gggcaatccagggtgcaatgTcacagaagaagtggttgatg	15	6	1	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr1:247875519T>A	uc001idj.1	-	1	539	c.539A>T	c.(538-540)GAC>GTC	p.D180V		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			GGGTGCAATGTCACAGAAGAA	0.567													18	94	---	---	---	---	PASS	A	247875519	A	A	247875519	3	1	67	1	0	0	0	0	1	0	0	0	11201	1667	58	5	391	5	OR6F1	1	247875519	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	261167	247875519	1375102	20	26477										
PXDN	7837	broad.mit.edu	37	chr2	1691427	1691427	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tgctctagagaggcaagtccCttaaatgcttgcctgtcaat	9	10	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:1691427C>G	uc002qxa.2	-	4	457	c.393G>C	c.(391-393)AAG>AAC	p.K131N	PXDN_uc002qxb.1_Missense_Mutation_p.K131N|PXDN_uc002qxc.1_Intron	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	131	LRR 2.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		AGGCAAGTCCCTTAAATGCTT	0.468													4	30	---	---	---	---	PASS	G	1691427	G	G	1691427	3	3	67	1	0	0	0	0	1	0	0	0	12847	680	24	4	4126	4	PXDN	2	1691427	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08		1691427	241507946	21	26478										
ROCK2	9475	broad.mit.edu	37	chr2	11342232	11342232	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agctctttcatttgcccatcTgcatcctgacgttctctgtg	7	13	4	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:11342232T>G	uc002rbd.1	-	21	3014	c.2565A>C	c.(2563-2565)GCA>GCC	p.A855A		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	855	Potential.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		TTTGCCCATCTGCATCCTGAC	0.313													19	178	---	---	---	---	PASS	G	11342232	G	G	11342232	2	3	67	1	0	0	0	0	0	0	0	1	13518	1567	55	5		5	ROCK2	2	11342232	Silent	SNP	T	TCGA-34-5232-01A-21D-1817-08	9650805	11342232	231857141	22	26479										
LHCGR	3973	broad.mit.edu	37	chr2	48915374	48915374	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tatagacttgtgagagagtgGtttccacatccatggggaag	13	6	0	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:48915374G>T	uc002rwu.3	-	11	1632	c.1562C>A	c.(1561-1563)ACC>AAC	p.T521N	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	521	Extracellular (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	TGAGAGAGTGGTTTCCACATC	0.403									Familial_Male-Limited_Precocious_Puberty				13	102	---	---	---	---	PASS	T	48915374	T	T	48915374	3	4	67	1	0	0	0	0	1	0	0	0	8762	1261	44	3	541	3	LHCGR	2	48915374	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	37573142	48915374	194283999	23	26480										
LRRTM4	80059	broad.mit.edu	37	chr2	77746099	77746099	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tggatattaatgatatccacGcattgacagtttcctgtgag	9	7	0	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:77746099G>A	uc002snr.2	-	3	1311	c.896C>T	c.(895-897)GCG>GTG	p.A299V	LRRTM4_uc002snq.2_Missense_Mutation_p.A299V|LRRTM4_uc002sns.2_Missense_Mutation_p.A299V|LRRTM4_uc002snt.2_Missense_Mutation_p.A300V	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	299	LRR 10.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TGATATCCACGCATTGACAGT	0.373													7	37	---	---	---	---	PASS	A	77746099	A	A	77746099	3	1	67	1	0	0	0	0	1	0	0	0	9042	1087	38	1	890	1	LRRTM4	2	77746099	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	28830725	77746099	165453274	24	26481										
REG1B	5968	broad.mit.edu	37	chr2	79312367	79312367	+	Missense_Mutation	SNP	G	T	T													0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttttgaacttgcaaacaaagGagaacttcttctcacaagat							TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:79312367G>T	uc002sny.2	-	6	588	c.476C>A	c.(475-477)TCC>TAC	p.S159Y		NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	159	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						GCAAACAAAGGAGAACTTCTT	0.388													7	60	---	---	---	---	PASS	T	79312367	T	T	79312367	3	4	67	1	0	0	0	0	1	0	0	0	13211	1174	41	2	28	2	REG1B	2	79312367	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	1566268	79312367	163887006	25	26482	554	2								
REG1B	5968	broad.mit.edu	37	chr2	79312368	79312368	+	Missense_Mutation	SNP	A	T	T													0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tttgaacttgcaaacaaaggAgaacttcttctcacaagatt							TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:79312368A>T	uc002sny.2	-	6	587	c.475T>A	c.(475-477)TCC>ACC	p.S159T		NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	159	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						CAAACAAAGGAGAACTTCTTC	0.388													8	60	---	---	---	---	PASS	T	79312368	T	T	79312368	3	4	67	1	0	0	0	0	1	0	0	0	13211	304	11	5	29	5	REG1B	2	79312368	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	1	79312368	163887005	26	26483	554	2								
LCT	3938	broad.mit.edu	37	chr2	136579614	136579614	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcttggaacttgatgaacaaCtcagaaactcattaatatca	5	8	4	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:136579614C>T	uc002tuu.1	-	5	973	c.962G>A	c.(961-963)AGT>AAT	p.S321N	uc002tuv.1_RNA	NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	321	Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TGATGAACAACTCAGAAACTC	0.264													10	69	---	---	---	---	PASS	T	136579614	T	T	136579614	3	4	67	1	0	0	0	0	1	0	0	0	8693	565	20	3	4873	3	LCT	2	136579614	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	57267246	136579614	106619759	27	26484										
PSMD14	10213	broad.mit.edu	37	chr2	162242083	162242083	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	taaacaagccatctatccagGtattgcctatatttgataat	5	8	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:162242083G>C	uc002ubu.2	+	8	1037	c.570_splice	c.e8+1	p.Q190_splice		NM_005805	NP_005796	O00487	PSDE_HUMAN	proteasome 26S subunit, non-ATPase 14						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K63-linked deubiquitination|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of proteasomal protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	endopeptidase activator activity|metal ion binding|metallopeptidase activity|proteasome binding|ubiquitin thiolesterase activity			breast(1)	1						ATCTATCCAGGTATTGCCTAT	0.318													5	48	---	---	---	---	PASS	C	162242083	C	C	162242083	5	2	67	1	0	0	0	0	0	0	1	0	12697	1275	44	4	593	4	PSMD14	2	162242083	Splice_Site	SNP	G	TCGA-34-5232-01A-21D-1817-08	25662469	162242083	80957290	28	26485										
GCG	2641	broad.mit.edu	37	chr2	163003990	163003990	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctcgttcatctgatcaggatCactgagtgggtctgcctggg	13	10	5	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:163003990C>T	uc002ucc.2	-	3	226	c.127G>A	c.(127-129)GAT>AAT	p.D43N		NM_002054	NP_002045	P01275	GLUC_HUMAN	glucagon preproprotein	43					cell proliferation|cellular response to glucagon stimulus|energy reserve metabolic process|feeding behavior|regulation of insulin secretion	plasma membrane|soluble fraction	hormone activity				0					Exenatide(DB01276)|Phentolamine(DB00692)	TGATCAGGATCACTGAGTGGG	0.483													51	282	---	---	---	---	PASS	T	163003990	T	T	163003990	3	4	67	1	0	0	0	0	1	0	0	0	6290	826	29	2	431	2	GCG	2	163003990	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	761907	163003990	80195383	29	26486										
CHRNA1	1134	broad.mit.edu	37	chr2	175618289	175618289	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aaggagaagagcaggcagggGatgatgacgttgacgatgaa	17	4	0	6			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:175618289G>T	uc002ujd.2	-	7	873	c.795C>A	c.(793-795)ATC>ATA	p.I265I	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Silent_p.I240I|CHRNA1_uc002ujf.3_Silent_p.I240I	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	265	Helical.				muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GCAGGCAGGGGATGATGACGT	0.582													19	130	---	---	---	---	PASS	T	175618289	T	T	175618289	2	4	67	1	0	0	0	0	0	0	0	1	3381	1164	41	2		2	CHRNA1	2	175618289	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	12614299	175618289	67581084	30	26487										
OSBPL6	114880	broad.mit.edu	37	chr2	179236930	179236930	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	attatttgtgatcaggttgtCagtgtaaatattattcctag	8	4	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:179236930C>T	uc002ulx.2	+	14	1743	c.1365C>T	c.(1363-1365)GTC>GTT	p.V455V	OSBPL6_uc002ulw.2_Intron|OSBPL6_uc002uly.2_Silent_p.V480V|OSBPL6_uc010zfe.1_Silent_p.V424V|OSBPL6_uc002ulz.2_Intron|OSBPL6_uc002uma.2_Silent_p.V459V	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	455					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			ATCAGGTTGTCAGTGTAAATA	0.328													6	69	---	---	---	---	PASS	T	179236930	T	T	179236930	2	4	67	1	0	0	0	0	0	0	0	1	11281	813	29	2		2	OSBPL6	2	179236930	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	3618641	179236930	63962443	31	26488										
TTN	7273	broad.mit.edu	37	chr2	179425376	179425376	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acatattgtccatgcaaggtGgcttgtttcacgtttttcta	8	8	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:179425376G>T	uc010zfg.1	-	275	78003	c.77779C>A	c.(77779-77781)CAC>AAC	p.H25927N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.H19622N|TTN_uc010zfi.1_Missense_Mutation_p.H19555N|TTN_uc010zfj.1_Missense_Mutation_p.H19430N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26854							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)			CATGCAAGGTGGCTTGTTTCA	0.423													7	68	---	---	---	---	PASS	T	179425376	T	T	179425376	3	4	67	1	0	0	0	0	1	0	0	0	16732	1348	47	3	22644	3	TTN	2	179425376	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	188446	179425376	63773997	32	26489										
TTN	7273	broad.mit.edu	37	chr2	179576077	179576077	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tgatggtggaagtttttgctCtgtaggaacagaataaaagt	12	3	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:179576077C>T	uc010zfg.1	-	94	24379	c.24155_splice	c.e94-1	p.E8052_splice	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Splice_Site_p.E4713_splice	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A								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)			AGTTTTTGCTCTGTAGGAACA	0.323													16	73	---	---	---	---	PASS	T	179576077	T	T	179576077	5	4	67	1	0	0	0	0	0	0	1	0	16732	927	32	2	76707	2	TTN	2	179576077	Splice_Site	SNP	C	TCGA-34-5232-01A-21D-1817-08	150701	179576077	63623296	33	26490										
SLC23A3	151295	broad.mit.edu	37	chr2	220034386	220034386	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gagacacagagcagagaagcCatgaccaagacatgctgcag	12	10	0	5			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:220034386C>T	uc010zks.1	-	2	288	c.177G>A	c.(175-177)ATG>ATA	p.M59I	NHEJ1_uc002vjq.3_RNA|SLC23A3_uc010zkr.1_Missense_Mutation_p.M59I|SLC23A3_uc010fwb.2_Missense_Mutation_p.M59I|SLC23A3_uc002vjs.1_5'Flank|SLC23A3_uc002vjt.1_5'Flank	NM_001144889	NP_001138361	Q6PIS1	S23A3_HUMAN	solute carrier family 23 (nucleobase	59	Helical; (Potential).				transmembrane transport	integral to membrane	protein binding|transporter activity				0		Renal(207;0.0474)		Epithelial(149;9.27e-07)|all cancers(144;0.000156)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCAGAGAAGCCATGACCAAGA	0.532													8	51	---	---	---	---	PASS	T	220034386	T	T	220034386	3	4	67	1	0	0	0	0	1	0	0	0	14464	594	21	3	1723	3	SLC23A3	2	220034386	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	40458309	220034386	23164987	34	26491										
SP140	11262	broad.mit.edu	37	chr2	231120221	231120221	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agaagagcgccaggaagcctCtagctccctagcaagacgtg	12	12	1	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr2:231120221C>T	uc002vql.2	+	12	1329	c.1214C>T	c.(1213-1215)TCT>TTT	p.S405F	SP140_uc010zma.1_RNA|SP140_uc002vqk.2_Missense_Mutation_p.S371F|SP140_uc002vqn.2_Missense_Mutation_p.S291F|SP140_uc002vqm.2_Missense_Mutation_p.S345F|SP140_uc010fxl.2_Intron	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	405					defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CAGGAAGCCTCTAGCTCCCTA	0.547													14	98	---	---	---	---	PASS	T	231120221	T	T	231120221	3	4	67	1	0	0	0	0	1	0	0	0	14962	913	32	2	1377	2	SP140	2	231120221	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	11085835	231120221	12079152	35	26492										
SRGAP3	9901	broad.mit.edu	37	chr3	9036126	9036126	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cgcggtggtacaggagcagcGaggcccccttcttgaaggat	15	11	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:9036126G>A	uc003brf.1	-	19	2985	c.2309C>T	c.(2308-2310)TCG>TTG	p.S770L	SRGAP3_uc003brg.1_Missense_Mutation_p.S746L	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	770	SH3.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		CAGGAGCAGCGAGGCCCCCTT	0.587			T	RAF1	pilocytic astrocytoma								15	73	---	---	---	---	PASS	A	9036126	A	A	9036126	3	1	67	1	0	0	0	0	1	0	0	0	15146	1059	37	2	1006	2	SRGAP3	3	9036126	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08		9036126	188986304	36	26493										
TMPPE	643853	broad.mit.edu	37	chr3	33135655	33135655	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acagcagccagggtggccttCgcgcctagggacagctgcct	14	14	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:33135655C>T	uc003cfk.2	-	2	224	c.33G>A	c.(31-33)GCG>GCA	p.A11A	GLB1_uc003cfh.1_Intron|GLB1_uc003cfi.1_Intron|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Intron|TMPPE_uc011axl.1_Intron	NM_001039770	NP_001034859	Q6ZT21	TMPPE_HUMAN	transmembrane protein with	11	Helical; (Potential).					integral to membrane	metal ion binding				0						GGGTGGCCTTCGCGCCTAGGG	0.587													14	71	---	---	---	---	PASS	T	33135655	T	T	33135655	2	4	67	1	0	0	0	0	0	0	0	1	16235	871	31	2		2	TMPPE	3	33135655	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	24099529	33135655	164886775	37	26494										
DLEC1	9940	broad.mit.edu	37	chr3	38138086	38138086	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agcggagagcctggggcactCctcctactctgtggatgatg	14	11	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:38138086C>T	uc003cho.1	+	15	2219	c.2198C>T	c.(2197-2199)TCC>TTC	p.S733F	DLEC1_uc003chp.1_Missense_Mutation_p.S733F|DLEC1_uc010hgv.1_Missense_Mutation_p.S733F|DLEC1_uc003chr.1_5'UTR|DLEC1_uc010hgx.1_RNA	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	733					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		CTGGGGCACTCCTCCTACTCT	0.532													20	118	---	---	---	---	PASS	T	38138086	T	T	38138086	3	4	67	1	0	0	0	0	1	0	0	0	4552	855	30	2	2256	2	DLEC1	3	38138086	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	5002431	38138086	159884344	38	26495										
ANO10	55129	broad.mit.edu	37	chr3	43621948	43621948	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acctgaatcacgatgccagaCgtgagcaatcttctcactgc	8	13	3	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:43621948C>T	uc003cmv.2	-	5	660	c.489G>A	c.(487-489)ACG>ACA	p.T163T	ANO10_uc011azs.1_Silent_p.T163T|ANO10_uc003cmw.2_Silent_p.T97T|ANO10_uc010hil.2_Silent_p.T163T|ANO10_uc011azt.1_Silent_p.T52T	NM_018075	NP_060545	Q9NW15	ANO10_HUMAN	transmembrane protein 16K	163	Cytoplasmic (Potential).				cell death	chloride channel complex	chloride channel activity			ovary(2)	2						CGATGCCAGACGTGAGCAATC	0.473													8	60	---	---	---	---	PASS	T	43621948	T	T	43621948	2	4	67	1	0	0	0	0	0	0	0	1	696	523	19	1		1	ANO10	3	43621948	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	5483862	43621948	154400482	39	26496										
SLC9A10	285335	broad.mit.edu	37	chr3	111993834	111993834	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tataacagaggtcatcagacTttctccattaattaaactga	5	8	3	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:111993834T>A	uc003dyu.2	-	6	745	c.523A>T	c.(523-525)AGT>TGT	p.S175C	SLC9A10_uc011bhu.1_Translation_Start_Site|SLC9A10_uc010hqc.2_Missense_Mutation_p.S175C	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	175	Helical; (Potential).				cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						GTCATCAGACTTTCTCCATTA	0.294													15	96	---	---	---	---	PASS	A	111993834	A	A	111993834	3	1	67	1	0	0	0	0	1	0	0	0	14710	1609	56	5	3106	5	SLC9A10	3	111993834	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	68371886	111993834	86028596	40	26497										
CCDC14	64770	broad.mit.edu	37	chr3	123667907	123667907	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cttgcaatgaccagttttgcTctaggtctgatgtgtctctt	9	9	3	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:123667907T>C	uc011bjx.1	-	6	660	c.569A>G	c.(568-570)GAG>GGG	p.E190G	CCDC14_uc003egv.3_5'UTR|CCDC14_uc003egx.3_5'UTR|CCDC14_uc010hrt.2_Missense_Mutation_p.E149G|CCDC14_uc003egy.3_5'UTR|CCDC14_uc003egz.2_5'UTR	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	190						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		CCAGTTTTGCTCTAGGTCTGA	0.388													5	28	---	---	---	---	PASS	C	123667907	C	C	123667907	3	2	67	1	0	0	0	0	1	0	0	0	2773	1551	54	5	2324	5	CCDC14	3	123667907	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	11674073	123667907	74354523	41	26498										
ATR	545	broad.mit.edu	37	chr3	142177868	142177868	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agaatcaaagagaatattttCaccatgacggtctccaagcc	7	10	3	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:142177868C>T	uc003eux.3	-	44	7557	c.7435G>A	c.(7435-7437)GAA>AAA	p.E2479K	ATR_uc003euy.1_Missense_Mutation_p.E365K	NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	2479	PI3K/PI4K.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						AGAATATTTTCACCATGACGG	0.373								Other_conserved_DNA_damage_response_genes					12	33	---	---	---	---	PASS	T	142177868	T	T	142177868	3	4	67	1	0	0	0	0	1	0	0	0	1204	835	29	2	515	2	ATR	3	142177868	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	18509961	142177868	55844562	42	26499										
PLOD2	5352	broad.mit.edu	37	chr3	145806480	145806480	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttgctcaataaaaacacctaTtgatacgtttggatggacct	7	8	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:145806480T>C	uc003evs.1	-	9	1404	c.898A>G	c.(898-900)ATA>GTA	p.I300V	PLOD2_uc003evq.1_5'Flank|PLOD2_uc011bnm.1_Missense_Mutation_p.I245V|PLOD2_uc003evr.1_Missense_Mutation_p.I300V	NM_000935	NP_000926	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	300					protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)	AAAACACCTATTGATACGTTT	0.308													6	55	---	---	---	---	PASS	C	145806480	C	C	145806480	3	2	67	1	0	0	0	0	1	0	0	0	12102	1493	52	5	1426	5	PLOD2	3	145806480	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	3628612	145806480	52215950	43	26500										
CPB1	1360	broad.mit.edu	37	chr3	148558740	148558740	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tatcggaaccacatttgaggGacgcgctatttacctcctga	9	11	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:148558740G>T	uc003ewl.2	+	5	475	c.452G>T	c.(451-453)GGA>GTA	p.G151V		NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein	151					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			ACATTTGAGGGACGCGCTATT	0.428													12	105	---	---	---	---	PASS	T	148558740	T	T	148558740	3	4	67	1	0	0	0	0	1	0	0	0	3796	1174	41	2	470	2	CPB1	3	148558740	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	2752260	148558740	49463690	44	26501										
CPA3	1359	broad.mit.edu	37	chr3	148614388	148614388	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctttgagctccgagataaagGcaaatttggttttctccttc	8	9	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:148614388G>T	uc003ewm.2	+	11	1200	c.1148G>T	c.(1147-1149)GGC>GTC	p.G383V		NM_001870	NP_001861	P15088	CBPA3_HUMAN	carboxypeptidase A3 precursor	383					proteolysis	stored secretory granule|transport vesicle	metallocarboxypeptidase activity|zinc ion binding			breast(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			CGAGATAAAGGCAAATTTGGT	0.433													26	103	---	---	---	---	PASS	T	148614388	T	T	148614388	3	4	67	1	0	0	0	0	1	0	0	0	3791	1203	42	3	1190	3	CPA3	3	148614388	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	55648	148614388	49408042	45	26502										
SLC33A1	9197	broad.mit.edu	37	chr3	155560403	155560403	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tacagttccccagaaaaaaaGgaaatctgaaaatgttttaa	6	6	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:155560403G>A	uc003fan.3	-	2	1162	c.781C>T	c.(781-783)CTT>TTT	p.L261F	SLC33A1_uc003fao.1_Missense_Mutation_p.L261F	NM_004733	NP_004724	O00400	ACATN_HUMAN	acetyl-coenzyme A transporter	261	Helical; (Potential).				cell death|transmembrane transport	endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane|membrane fraction	acetyl-CoA transporter activity			ovary(2)|large_intestine(1)|pancreas(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CAGAAAAAAAGGAAATCTGAA	0.184													4	45	---	---	---	---	PASS	A	155560403	A	A	155560403	3	1	67	1	0	0	0	0	1	0	0	0	14566	1000	35	3	888	3	SLC33A1	3	155560403	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	6946015	155560403	42462027	46	26503										
PIK3CA	5290	broad.mit.edu	37	chr3	178916726	178916726	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agtgactttagaatgcctccGtgaggctacattaataacca	8	9	0	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:178916726G>T	uc003fjk.2	+	2	270	c.113G>T	c.(112-114)CGT>CTT	p.R38L		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	38	PI3K-ABD.		R -> H (in cancer; shows an increase in lipid kinase activity; may disrupt the interaction between the PI3K-ABD domain and the N-terminal lobe of PI3K/PI4K kinase domain possibly affecting the conformation of the kinase domain).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.R38H(4)|p.R38S(1)|p.R38G(1)|p.R38C(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GAATGCCTCCGTGAGGCTACA	0.393		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			79	100	---	---	---	---	PASS	T	178916726	T	T	178916726	3	4	67	1	0	0	0	0	1	0	0	0	11913	1145	40	1	115	1	PIK3CA	3	178916726	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	23356323	178916726	19105704	47	26504										
PEX5L	51555	broad.mit.edu	37	chr3	179525562	179525562	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cgtataggcctccacggcttCctcgctgcggtctccgttcg	11	16	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr3:179525562C>T	uc003fki.1	-	14	1706	c.1576G>A	c.(1576-1578)GAA>AAA	p.E526K	PEX5L_uc011bqd.1_Missense_Mutation_p.E483K|PEX5L_uc011bqe.1_Missense_Mutation_p.E334K|PEX5L_uc011bqf.1_Missense_Mutation_p.E418K|PEX5L_uc003fkj.1_Missense_Mutation_p.E491K|PEX5L_uc010hxd.1_Missense_Mutation_p.E524K|PEX5L_uc011bqg.1_Missense_Mutation_p.E502K|PEX5L_uc011bqh.1_Missense_Mutation_p.E467K	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	526	TPR 4.				protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			TCCACGGCTTCCTCGCTGCGG	0.542													23	395	---	---	---	---	PASS	T	179525562	T	T	179525562	3	4	67	1	0	0	0	0	1	0	0	0	11749	864	30	2	312	2	PEX5L	3	179525562	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	608836	179525562	18496868	48	26505										
GABRA2	2555	broad.mit.edu	37	chr4	46312249	46312249	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ggaaatcctccaagtgcattGggcattcagcttgaactgta	10	9	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr4:46312249G>A	uc003gxc.3	-	5	1173	c.500C>T	c.(499-501)CCA>CTA	p.P167L	GABRA2_uc010igc.2_Missense_Mutation_p.P167L|GABRA2_uc011bzc.1_Missense_Mutation_p.P112L|GABRA2_uc003gxe.2_Missense_Mutation_p.P167L	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	167	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CAAGTGCATTGGGCATTCAGC	0.368													17	68	---	---	---	---	PASS	A	46312249	A	A	46312249	3	1	67	1	0	0	0	0	1	0	0	0	6161	1348	47	3	875	3	GABRA2	4	46312249	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08		46312249	144842027	49	26506										
ANK2	287	broad.mit.edu	37	chr4	114158196	114158196	+	Silent	SNP	G	C	C													0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	caaggacacaaccaggcggtGgccatcctcttggagaatga							TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr4:114158196G>C	uc003ibe.3	+	6	637	c.537G>C	c.(535-537)GTG>GTC	p.V179V	ANK2_uc003ibd.3_Silent_p.V158V|ANK2_uc003ibf.3_Silent_p.V179V|ANK2_uc003ibc.2_Silent_p.V155V|ANK2_uc011cgb.1_Silent_p.V194V	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	179	ANK 5.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		ACCAGGCGGTGGCCATCCTCT	0.498													26	159	---	---	---	---	PASS	C	114158196	C	C	114158196	2	2	67	1	0	0	0	0	0	0	0	1	621	1335	47	4		4	ANK2	4	114158196	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	67845947	114158196	76996080	50	26507	555	2								
ANK2	287	broad.mit.edu	37	chr4	114158197	114158197	+	Missense_Mutation	SNP	G	T	T													0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aaggacacaaccaggcggtgGccatcctcttggagaatgac							TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr4:114158197G>T	uc003ibe.3	+	6	638	c.538G>T	c.(538-540)GCC>TCC	p.A180S	ANK2_uc003ibd.3_Missense_Mutation_p.A159S|ANK2_uc003ibf.3_Missense_Mutation_p.A180S|ANK2_uc003ibc.2_Missense_Mutation_p.A156S|ANK2_uc011cgb.1_Missense_Mutation_p.A195S	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	180	ANK 5.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CCAGGCGGTGGCCATCCTCTT	0.498													27	158	---	---	---	---	PASS	T	114158197	T	T	114158197	3	4	67	1	0	0	0	0	1	0	0	0	621	1203	42	3	585	3	ANK2	4	114158197	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	1	114158197	76996079	51	26508	555	2								
NDST4	64579	broad.mit.edu	37	chr4	115858645	115858645	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acagcatagcccatgttgatTggtattccatgttcctaaaa	7	9	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr4:115858645T>C	uc003ibu.2	-	5	1915	c.1236A>G	c.(1234-1236)CCA>CCG	p.P412P	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	412	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		CCATGTTGATTGGTATTCCAT	0.398													8	55	---	---	---	---	PASS	C	115858645	C	C	115858645	2	2	67	1	0	0	0	0	0	0	0	1	10258	1799	63	5		5	NDST4	4	115858645	Silent	SNP	T	TCGA-34-5232-01A-21D-1817-08	1700448	115858645	75295631	52	26509										
GUCY1A3	2982	broad.mit.edu	37	chr4	156634427	156634427	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	taggggaacaagcccgagctCaagatggcctgaagaagagg	15	8	1	4			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr4:156634427C>A	uc003iov.2	+	8	1800	c.1264C>A	c.(1264-1266)CAA>AAA	p.Q422K	GUCY1A3_uc010iqc.2_Missense_Mutation_p.Q422K|GUCY1A3_uc003iow.2_Missense_Mutation_p.Q422K|GUCY1A3_uc010iqd.2_Missense_Mutation_p.Q421K|GUCY1A3_uc003iox.2_Missense_Mutation_p.Q422K|GUCY1A3_uc003ioz.2_Missense_Mutation_p.Q187K|GUCY1A3_uc003ioy.2_Missense_Mutation_p.Q422K|GUCY1A3_uc010iqe.2_Missense_Mutation_p.Q187K|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Missense_Mutation_p.Q422K	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	422					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		AGCCCGAGCTCAAGATGGCCT	0.512													7	43	---	---	---	---	PASS	A	156634427	A	A	156634427	3	1	67	1	0	0	0	0	1	0	0	0	6894	827	29	2	1297	2	GUCY1A3	4	156634427	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	40775782	156634427	34519849	53	26510										
FSTL5	56884	broad.mit.edu	37	chr4	162402262	162402262	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aacttgtctttgacattaacAgctgatgcccacacacacct	5	13	1	2	rs141141092		TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr4:162402262A>T	uc003iqh.2	-	13	1954	c.1518T>A	c.(1516-1518)GCT>GCA	p.A506A	FSTL5_uc003iqi.2_Silent_p.A505A|FSTL5_uc010iqv.2_Silent_p.A496A	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	506						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TGACATTAACAGCTGATGCCC	0.383													31	188	---	---	---	---	PASS	T	162402262	T	T	162402262	2	4	67	1	0	0	0	0	0	0	0	1	6080	175	7	5		5	FSTL5	4	162402262	Silent	SNP	A	TCGA-34-5232-01A-21D-1817-08	5767835	162402262	28752014	54	26511										
TLL1	7092	broad.mit.edu	37	chr4	166935601	166935601	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttttcagggggatgtttctgGataccattctcccctcccgt	9	12	3	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr4:166935601G>T	uc003irh.1	+	8	1578	c.931G>T	c.(931-933)GAT>TAT	p.D311Y	TLL1_uc011cjn.1_Missense_Mutation_p.D311Y|TLL1_uc011cjo.1_Missense_Mutation_p.D135Y	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	311	Metalloprotease (By similarity).				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		GATGTTTCTGGATACCATTCT	0.418													41	268	---	---	---	---	PASS	T	166935601	T	T	166935601	3	4	67	1	0	0	0	0	1	0	0	0	15942	1174	41	2	961	2	TLL1	4	166935601	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	4533339	166935601	24218675	55	26512										
TRIML2	205860	broad.mit.edu	37	chr4	189018262	189018262	+	Missense_Mutation	SNP	C	A	A													0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gtcctcttatgtggcataaaCtcaggtctgtgatatgagcg							TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr4:189018262C>A	uc003izl.2	-	6	584	c.548G>T	c.(547-549)AGT>ATT	p.S183I	TRIML2_uc003izj.1_5'UTR|TRIML2_uc003izk.1_5'UTR|TRIML2_uc011cle.1_Missense_Mutation_p.S258I	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	183	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		GTGGCATAAACTCAGGTCTGT	0.498													27	150	---	---	---	---	PASS	A	189018262	A	A	189018262	3	1	67	1	0	0	0	0	1	0	0	0	16548	565	20	3	623	3	TRIML2	4	189018262	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	22082661	189018262	2136014	56	26513	556	2								
TRIML2	205860	broad.mit.edu	37	chr4	189018263	189018263	+	Missense_Mutation	SNP	T	A	A													0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcctcttatgtggcataaacTcaggtctgtgatatgagcgg							TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr4:189018263T>A	uc003izl.2	-	6	583	c.547A>T	c.(547-549)AGT>TGT	p.S183C	TRIML2_uc003izj.1_5'UTR|TRIML2_uc003izk.1_5'UTR|TRIML2_uc011cle.1_Missense_Mutation_p.S258C	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	183	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		TGGCATAAACTCAGGTCTGTG	0.498													26	150	---	---	---	---	PASS	A	189018263	A	A	189018263	3	1	67	1	0	0	0	0	1	0	0	0	16548	1551	54	5	624	5	TRIML2	4	189018263	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	1	189018263	2136013	57	26514	556	2								
DNAH5	1767	broad.mit.edu	37	chr5	13776797	13776797	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aatttcatcaatttcatctcGagcaaataggttagagacct	6	8	4	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:13776797G>T	uc003jfd.2	-	55	9166	c.9124C>A	c.(9124-9126)CGA>AGA	p.R3042R		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3042	AAA 4 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					ATTTCATCTCGAGCAAATAGG	0.383									Kartagener_syndrome				13	77	---	---	---	---	PASS	T	13776797	T	T	13776797	2	4	67	1	0	0	0	0	0	0	0	1	4604	1066	37	2		2	DNAH5	5	13776797	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08		13776797	167138463	58	26515										
LMBRD2	92255	broad.mit.edu	37	chr5	36104168	36104168	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttaaacatcattaaatatgtCactgcgagacatcgagagat	7	7	2	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:36104168C>T	uc003jkb.1	-	18	2483	c.2068G>A	c.(2068-2070)GAC>AAC	p.D690N	uc003jka.1_5'Flank	NM_001007527	NP_001007528	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	690	Cytoplasmic (Potential).					integral to membrane					0	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TTAAATATGTCACTGCGAGAC	0.383													4	26	---	---	---	---	PASS	T	36104168	T	T	36104168	3	4	67	1	0	0	0	0	1	0	0	0	8843	826	29	2	23	2	LMBRD2	5	36104168	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	22327371	36104168	144811092	59	26516										
C6	729	broad.mit.edu	37	chr5	41201677	41201677	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tacctgtttttcaatacaagGgtcacagtctgaccatggtc	8	10	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:41201677G>T	uc003jmk.2	-	3	493	c.283C>A	c.(283-285)CCT>ACT	p.P95T	C6_uc003jml.1_Missense_Mutation_p.P95T	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	95	TSP type-1 2.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TCAATACAAGGGTCACAGTCT	0.458													10	45	---	---	---	---	PASS	T	41201677	T	T	41201677	3	4	67	1	0	0	0	0	1	0	0	0	2315	1232	43	3	2585	3	C6	5	41201677	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	5097509	41201677	139713583	60	26517										
DEPDC1B	55789	broad.mit.edu	37	chr5	59940622	59940622	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gcttgctaacactatatacaTtatggatgatgaacttcgaa	7	7	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:59940622T>A	uc003jsh.2	-	5	732	c.659A>T	c.(658-660)AAT>ATT	p.N220I	DEPDC1B_uc011cqm.1_Missense_Mutation_p.N220I|DEPDC1B_uc011cqn.1_Missense_Mutation_p.N193I	NM_018369	NP_060839	Q8WUY9	DEP1B_HUMAN	DEP domain containing 1B isoform 1	220	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)	1		Lung NSC(810;0.000214)|Prostate(74;0.0147)|Breast(144;0.0991)|Ovarian(174;0.17)				ACTATATACATTATGGATGAT	0.308													11	68	---	---	---	---	PASS	A	59940622	A	A	59940622	3	1	67	1	0	0	0	0	1	0	0	0	4440	1493	52	5	958	5	DEPDC1B	5	59940622	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	18738945	59940622	120974638	61	26518										
HTR1A	3350	broad.mit.edu	37	chr5	63257089	63257089	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tgagcgagatgagcgcagcgGcgcgccggggcgtcctcttg	18	12	1	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:63257089G>T	uc011cqt.1	-	1	458	c.458C>A	c.(457-459)GCC>GAC	p.A153D		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	153	Helical; Name=4; (By similarity).			RAA -> PR (in Ref. 1; AAA36440/CAA31908).	behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	GAGCGCAGCGGCGCGCCGGGG	0.647													19	88	---	---	---	---	PASS	T	63257089	T	T	63257089	3	4	67	1	0	0	0	0	1	0	0	0	7436	1203	42	3	813	3	HTR1A	5	63257089	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	3316467	63257089	117658171	62	26519										
GPR98	84059	broad.mit.edu	37	chr5	89999529	89999529	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gaactttccctggtcgaggaAatgttactgttaactggaaa	10	7	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:89999529A>T	uc003kju.2	+	35	8299	c.8203A>T	c.(8203-8205)AAT>TAT	p.N2735Y	GPR98_uc003kjt.2_Missense_Mutation_p.N441Y|GPR98_uc003kjv.2_Missense_Mutation_p.N335Y	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2735	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TGGTCGAGGAAATGTTACTGT	0.318													4	32	---	---	---	---	PASS	T	89999529	T	T	89999529	3	4	67	1	0	0	0	0	1	0	0	0	6721	14	1	5	8341	5	GPR98	5	89999529	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	26742440	89999529	90915731	63	26520										
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139838244	139838244	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ggtggcacgtttgcttttggAtagtggtgctcaagtgaaca	14	6	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:139838244A>T	uc003lfs.1	+	8	1401	c.1277A>T	c.(1276-1278)GAT>GTT	p.D426V	ANKHD1_uc003lfq.1_Missense_Mutation_p.D426V|ANKHD1_uc003lfr.2_Missense_Mutation_p.D426V|ANKHD1_uc003lft.1_5'Flank|ANKHD1_uc003lfu.1_5'Flank|ANKHD1_uc003lfp.2_Missense_Mutation_p.D415V|ANKHD1_uc003lfo.2_Missense_Mutation_p.D426V|ANKHD1_uc010jfk.2_Missense_Mutation_p.D426V	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	426						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGCTTTTGGATAGTGGTGCT	0.408													7	51	---	---	---	---	PASS	T	139838244	T	T	139838244	3	4	67	1	0	0	0	0	1	0	0	0	629	333	12	5	1307	5	ANKHD1-EIF4EBP3	5	139838244	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	49838715	139838244	41077016	64	26521										
HARS2	23438	broad.mit.edu	37	chr5	140073533	140073533	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tttccagggtaccagggatcTtagtcctcagcatatggttg	11	9	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:140073533T>G	uc003lgx.2	+	3	413	c.197T>G	c.(196-198)CTT>CGT	p.L66R	HARS_uc003lgv.2_5'Flank|HARS_uc011czm.1_5'Flank|HARS_uc003lgw.2_5'Flank|HARS_uc011czn.1_5'Flank|HARS_uc010jfu.2_5'Flank|HARS_uc011czo.1_5'Flank|HARS_uc011czp.1_5'Flank|HARS_uc011czq.1_5'Flank|HARS2_uc010jfv.1_5'UTR|HARS2_uc011czr.1_Missense_Mutation_p.L41R|HARS2_uc011czs.1_5'UTR|HARS2_uc011czt.1_Intron|HARS2_uc011czu.1_5'Flank	NM_012208	NP_036340	P49590	SYHM_HUMAN	histidyl-tRNA synthetase 2 precursor	66					histidyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|histidine-tRNA ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCAGGGATCTTAGTCCTCAG	0.398													30	233	---	---	---	---	PASS	G	140073533	G	G	140073533	3	3	67	1	0	0	0	0	1	0	0	0	6960	1609	56	5	207	5	HARS2	5	140073533	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	235289	140073533	40841727	65	26522										
PCDHA4	56144	broad.mit.edu	37	chr5	140188235	140188235	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cgcggacgcgcaggagaacgCgctggtgtcctactcgctgg	16	13	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:140188235C>T	uc003lhi.2	+	1	1564	c.1463C>T	c.(1462-1464)GCG>GTG	p.A488V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.A488V|PCDHA4_uc011daa.1_Missense_Mutation_p.A488V	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	488	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGAGAACGCGCTGGTGTCC	0.652													12	56	---	---	---	---	PASS	T	140188235	T	T	140188235	3	4	67	1	0	0	0	0	1	0	0	0	11526	768	27	1	1465	1	PCDHA4	5	140188235	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	114702	140188235	40727025	66	26523										
ANXA6	309	broad.mit.edu	37	chr5	150518926	150518926	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gtggttaccttgccgtagagGgacttgtagctctggcagac	14	9	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:150518926G>C	uc003ltl.1	-	4	344	c.192C>G	c.(190-192)TCC>TCG	p.S64S	ANXA6_uc011dcp.1_Silent_p.S32S|ANXA6_uc003ltm.1_Silent_p.S64S|ANXA6_uc003ltn.1_Silent_p.S64S|ANXA6_uc003lto.1_Intron	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	64	Annexin 1.					melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGCCGTAGAGGGACTTGTAGC	0.547													8	42	---	---	---	---	PASS	C	150518926	C	C	150518926	2	2	67	1	0	0	0	0	0	0	0	1	722	1219	43	4		4	ANXA6	5	150518926	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	10330691	150518926	30396334	67	26524										
CYFIP2	26999	broad.mit.edu	37	chr5	156766092	156766092	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agtggctgctggagattaacCggctcacgcatcggctgctc	13	12	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:156766092C>A	uc003lwq.2	+	24	2551	c.2413C>A	c.(2413-2415)CGG>AGG	p.R805R	CYFIP2_uc011ddn.1_Silent_p.R779R|CYFIP2_uc011ddo.1_Silent_p.R609R|CYFIP2_uc003lwr.2_Silent_p.R805R|CYFIP2_uc003lws.2_Silent_p.R805R|CYFIP2_uc003lwt.2_Silent_p.R708R|CYFIP2_uc011ddp.1_Silent_p.R539R	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	830					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)			GGAGATTAACCGGCTCACGCA	0.522													4	9	---	---	---	---	PASS	A	156766092	A	A	156766092	2	1	67	1	0	0	0	0	0	0	0	1	4138	643	23	1		1	CYFIP2	5	156766092	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	6247166	156766092	24149168	68	26525										
SLU7	10569	broad.mit.edu	37	chr5	159839520	159839520	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tttctgggctttcaatgttcGttttgcctttaaaaaaaaaa	6	6	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:159839520G>A	uc003lyg.2	-	6	732	c.577C>T	c.(577-579)CGA>TGA	p.R193*		NM_006425	NP_006416	O95391	SLU7_HUMAN	step II splicing factor SLU7	193					alternative nuclear mRNA splicing, via spliceosome|nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|cytoplasm|nuclear speck|small nuclear ribonucleoprotein complex	pre-mRNA 3'-splice site binding|second spliceosomal transesterification activity|zinc ion binding			ovary(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TTCAATGTTCGTTTTGCCTTT	0.254													11	65	---	---	---	---	PASS	A	159839520	A	A	159839520	4	1	67	1	0	0	0	0	0	1	0	0	14755	1153	40	1	1227	1	SLU7	5	159839520	Nonsense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	3073428	159839520	21075740	69	26526										
ADAMTS2	9509	broad.mit.edu	37	chr5	178566994	178566994	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ccagctgccgtcccgtttgaGgatgtcaggtgtcagccaga	13	12	2	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:178566994G>A	uc003mjw.2	-	11	1672	c.1672C>T	c.(1672-1674)CTC>TTC	p.L558F		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	558	Disintegrin.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		TCCCGTTTGAGGATGTCAGGT	0.602													32	216	---	---	---	---	PASS	A	178566994	A	A	178566994	3	1	67	1	0	0	0	0	1	0	0	0	265	1000	35	3	2011	3	ADAMTS2	5	178566994	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	18727474	178566994	2348266	70	26527										
FLT4	2324	broad.mit.edu	37	chr5	180030235	180030235	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aagtcacgcgggcagacgggGagcagtggtcctcctcgctt	15	12	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr5:180030235G>T	uc003mlz.3	-	30	4128	c.4049C>A	c.(4048-4050)TCC>TAC	p.S1350Y		NM_182925	NP_891555	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 1	Error:Variant_position_missing_in_P35916_after_alignment					positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	GGCAGACGGGGAGCAGTGGTC	0.662									Congenital_Hereditary_Lymphedema				10	54	---	---	---	---	PASS	T	180030235	T	T	180030235	3	4	67	1	0	0	0	0	1	0	0	0	5944	1174	41	2	46	2	FLT4	5	180030235	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	1463241	180030235	885025	71	26528										
SLC17A3	10786	broad.mit.edu	37	chr6	25868572	25868572	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cttgcatatcttgtgcgttcTtgctctcccttgctgtggga	10	11	3	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr6:25868572T>C	uc003nfi.3	-	2	154	c.44A>G	c.(43-45)AAG>AGG	p.K15R	SLC17A3_uc003nfk.3_Missense_Mutation_p.K15R|SLC17A3_uc011djz.1_Missense_Mutation_p.K15R|SLC17A3_uc011dka.1_Missense_Mutation_p.K15R	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	15					glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						TTGTGCGTTCTTGCTCTCCCT	0.433													15	55	---	---	---	---	PASS	C	25868572	C	C	25868572	3	2	67	1	0	0	0	0	1	0	0	0	14418	1609	56	5	1496	5	SLC17A3	6	25868572	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08		25868572	145246495	72	26529										
VARS	7407	broad.mit.edu	37	chr6	31749681	31749681	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctccttggctgccttctcccGggcctccgcctcattgcgtc	9	19	2	0	rs55786236		TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr6:31749681G>A	uc003nxe.2	-	19	2713	c.2290C>T	c.(2290-2292)CGG>TGG	p.R764W	VARS_uc003nxf.1_5'Flank|VARS_uc011doi.1_RNA	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	764					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	GCCTTCTCCCGGGCCTCCGCC	0.627													42	172	---	---	---	---	PASS	A	31749681	A	A	31749681	3	1	67	1	0	0	0	0	1	0	0	0	17120	1115	39	1	1552	1	VARS	6	31749681	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	5881109	31749681	139365386	73	26530										
DAXX	1616	broad.mit.edu	37	chr6	33288240	33288240	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agctcttctcttttttctctCgccctcctcacttttgtctt	3	15	5	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr6:33288240C>T	uc003oec.2	-	4	1372	c.1168G>A	c.(1168-1170)GAG>AAG	p.E390K	ZBTB22_uc003oeb.2_5'Flank|ZBTB22_uc010juu.2_5'Flank|DAXX_uc011drd.1_Missense_Mutation_p.E315K|DAXX_uc011dre.1_Missense_Mutation_p.E402K|DAXX_uc003oed.2_Missense_Mutation_p.E390K|DAXX_uc010juw.2_Missense_Mutation_p.E315K	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	390	Potential.|Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						TTTTTTCTCTCGCCCTCCTCA	0.557			Mis|F|N		Pancreatic neuroendocrine tumors								17	89	---	---	---	---	PASS	T	33288240	T	T	33288240	3	4	67	1	0	0	0	0	1	0	0	0	4243	893	31	2	1074	2	DAXX	6	33288240	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	1538559	33288240	137826827	74	26531										
C6orf222	389384	broad.mit.edu	37	chr6	36298396	36298396	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gactccgagcctttcccgggGgcctgcggcctgtccagaga	14	15	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr6:36298396G>C	uc003oly.2	-	2	250	c.72C>G	c.(70-72)GCC>GCG	p.A24A		NM_001010903	NP_001010903	P0C671	CF222_HUMAN	hypothetical protein LOC389384	24										skin(2)|ovary(1)|breast(1)	4						CTTTCCCGGGGGCCTGCGGCC	0.642													13	88	---	---	---	---	PASS	C	36298396	C	C	36298396	2	2	67	1	0	0	0	0	0	0	0	1	2356	1219	43	4		4	C6orf222	6	36298396	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	3010156	36298396	134816671	75	26532										
PAQR8	85315	broad.mit.edu	37	chr6	52268702	52268702	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acatcagccctgtggcacacCgtgtggcgctctgtcacctg	11	15	3	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr6:52268702C>T	uc003pao.3	+	2	865	c.691C>T	c.(691-693)CGT>TGT	p.R231C		NM_133367	NP_588608	Q8TEZ7	MPRB_HUMAN	progestin and adipoQ receptor family member	231	Helical; Name=4; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding				0	Lung NSC(77;0.0875)					TGTGGCACACCGTGTGGCGCT	0.547													12	55	---	---	---	---	PASS	T	52268702	T	T	52268702	3	4	67	1	0	0	0	0	1	0	0	0	11441	652	23	1	693	1	PAQR8	6	52268702	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	15970306	52268702	118846365	76	26533										
PRDM1	639	broad.mit.edu	37	chr6	106554352	106554352	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acactacctggtacacacggGagaaaagccacatgaatgcc	9	12	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr6:106554352G>A	uc003prd.2	+	6	2114	c.1880G>A	c.(1879-1881)GGA>GAA	p.G627E	PRDM1_uc003pre.2_Missense_Mutation_p.G493E	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	627					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)		GTACACACGGGAGAAAAGCCA	0.498			D|N|Mis|F|S		DLBCL								13	61	---	---	---	---	PASS	A	106554352	A	A	106554352	3	1	67	1	0	0	0	0	1	0	0	0	12450	1174	41	2	1915	2	PRDM1	6	106554352	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	54285650	106554352	64560715	77	26534										
SLC22A16	85413	broad.mit.edu	37	chr6	110746252	110746252	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttctggaagctttagtgttaAcactccactcaggagggcca	10	10	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr6:110746252A>G	uc003puf.2	-	8	1625	c.1558T>C	c.(1558-1560)TTA>CTA	p.L520L	SLC22A16_uc003pue.2_Silent_p.L501L	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	520	Helical; (Potential).				acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		TTTAGTGTTAACACTCCACTC	0.428													16	107	---	---	---	---	PASS	G	110746252	G	G	110746252	2	3	67	1	0	0	0	0	0	0	0	1	14447	40	2	5		5	SLC22A16	6	110746252	Silent	SNP	A	TCGA-34-5232-01A-21D-1817-08	4191900	110746252	60368815	78	26535										
FRK	2444	broad.mit.edu	37	chr6	116263644	116263644	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aatagtcttcaagtttccaaCgcagtgtctcaaatgtaggt	8	8	3	0	rs141525046	by1000genomes	TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr6:116263644C>A	uc003pwi.1	-	8	1898	c.1451G>T	c.(1450-1452)CGT>CTT	p.R484L		NM_002031	NP_002022	P42685	FRK_HUMAN	fyn-related kinase	484	Protein kinase.				negative regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding	p.R484C(1)		ovary(3)|lung(3)	6		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)		AAGTTTCCAACGCAGTGTCTC	0.388													10	104	---	---	---	---	PASS	A	116263644	A	A	116263644	3	1	67	1	0	0	0	0	1	0	0	0	6048	536	19	1	70	1	FRK	6	116263644	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	5517392	116263644	54851423	79	26536										
C7orf31	136895	broad.mit.edu	37	chr7	25218815	25218815	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tgtcctctgaggcagttgggCgagtaaccgtctggaggggg	18	8	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr7:25218815C>T	uc003sxn.1	-	2	674	c.113G>A	c.(112-114)CGC>CAC	p.R38H		NM_138811	NP_620166	Q8N865	CG031_HUMAN	hypothetical protein LOC136895	38											0						GGCAGTTGGGCGAGTAACCGT	0.428													11	72	---	---	---	---	PASS	T	25218815	T	T	25218815	3	4	67	1	0	0	0	0	1	0	0	0	2387	768	27	1	1695	1	C7orf31	7	25218815	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08		25218815	133919848	80	26537										
INMT	11185	broad.mit.edu	37	chr7	30795128	30795128	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctgggcaacccgctggccccGgctgtgttgcctctcgccga	13	17	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr7:30795128G>A	uc003tbs.1	+	3	469	c.453G>A	c.(451-453)CCG>CCA	p.P151P	FAM188B_uc010kwe.2_Intron|INMT_uc010kwc.1_RNA|INMT_uc010kwd.1_Silent_p.P150P	NM_006774	NP_006765	O95050	INMT_HUMAN	indolethylamine N-methyltransferase	151						cytoplasm	amine N-methyltransferase activity				0						CGCTGGCCCCGGCTGTGTTGC	0.657													15	42	---	---	---	---	PASS	A	30795128	A	A	30795128	2	1	67	1	0	0	0	0	0	0	0	1	7745	1103	39	1		1	INMT	7	30795128	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	5576313	30795128	128343535	81	26538										
PDE1C	5137	broad.mit.edu	37	chr7	31855568	31855568	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctgttctcctgatgacttctCggctttggagtttttcccac	8	12	2	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr7:31855568C>T	uc003tcm.1	-	15	2252	c.1783G>A	c.(1783-1785)GAG>AAG	p.E595K	PDE1C_uc003tcn.1_Missense_Mutation_p.E595K|PDE1C_uc003tco.1_Missense_Mutation_p.E655K|PDE1C_uc003tcr.2_Missense_Mutation_p.E595K|PDE1C_uc003tcs.2_Missense_Mutation_p.E595K	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	595					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			GATGACTTCTCGGCTTTGGAG	0.443													28	253	---	---	---	---	PASS	T	31855568	T	T	31855568	3	4	67	1	0	0	0	0	1	0	0	0	11635	893	31	2	133	2	PDE1C	7	31855568	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	1060440	31855568	127283095	82	26539										
VOPP1	81552	broad.mit.edu	37	chr7	55559980	55559980	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acagggctggctgacctgggCcgggatttgggggctgcctg	19	10	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr7:55559980C>A	uc003tqs.2	-	4	506	c.323G>T	c.(322-324)GGC>GTC	p.G108V	VOPP1_uc003tqq.2_Missense_Mutation_p.G99V|VOPP1_uc010kzh.2_Missense_Mutation_p.G105V|VOPP1_uc010kzi.2_Missense_Mutation_p.G91V|VOPP1_uc011kcr.1_Missense_Mutation_p.G40V	NM_030796	NP_110423	Q96AW1	VOPP1_HUMAN	EGFR-coamplified and overexpressed protein	108	Pro-rich.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic vesicle membrane|endosome|integral to organelle membrane	signal transducer activity				0						CTGACCTGGGCCGGGATTTGG	0.602													3	25	---	---	---	---	PASS	A	55559980	A	A	55559980	3	1	67	1	0	0	0	0	1	0	0	0	17181	739	26	3	203	3	VOPP1	7	55559980	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	23704412	55559980	103578683	83	26540										
WBSCR17	64409	broad.mit.edu	37	chr7	71175877	71175877	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctcctggactgcgacaaggtCaagagcagcctgtacaagcg	12	12	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr7:71175877C>A	uc003tvy.2	+	10	1632	c.1632C>A	c.(1630-1632)GTC>GTA	p.V544V	WBSCR17_uc003tvz.2_Silent_p.V243V	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	544	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				GCGACAAGGTCAAGAGCAGCC	0.612													8	52	---	---	---	---	PASS	A	71175877	A	A	71175877	2	1	67	1	0	0	0	0	0	0	0	1	17261	813	29	2		2	WBSCR17	7	71175877	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	15615897	71175877	87962786	84	26541										
DYNC1I1	1780	broad.mit.edu	37	chr7	95442571	95442571	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttatttagtcccaacccctaTgtctccctcctcgaaatcag	4	15	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr7:95442571T>C	uc003uoc.3	+	4	564	c.287T>C	c.(286-288)ATG>ACG	p.M96T	DYNC1I1_uc003uod.3_Missense_Mutation_p.M79T|DYNC1I1_uc003uob.2_Missense_Mutation_p.M79T|DYNC1I1_uc003uoe.3_Missense_Mutation_p.M96T|DYNC1I1_uc010lfl.2_Missense_Mutation_p.M85T	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	96	Interaction with DCTN1 (By similarity).				vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			CCAACCCCTATGTCTCCCTCC	0.448													12	100	---	---	---	---	PASS	C	95442571	C	C	95442571	3	2	67	1	0	0	0	0	1	0	0	0	4842	1464	51	5	297	5	DYNC1I1	7	95442571	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	24266694	95442571	63696092	85	26542										
TRRAP	8295	broad.mit.edu	37	chr7	98488019	98488019	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tatcatccctcgattccttaCatttctccaagatggagaag	6	11	2	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr7:98488019C>T	uc003upp.2	+	4	421	c.212C>T	c.(211-213)ACA>ATA	p.T71I	TRRAP_uc011kis.1_Missense_Mutation_p.T71I	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	71					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CGATTCCTTACATTTCTCCAA	0.393													9	49	---	---	---	---	PASS	T	98488019	T	T	98488019	3	4	67	1	0	0	0	0	1	0	0	0	16598	478	17	3	222	3	TRRAP	7	98488019	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	3045448	98488019	60650644	86	26543										
PIK3CG	5294	broad.mit.edu	37	chr7	106508642	106508642	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cccctcccggagtacctgtgGaagaagattgccaacaactg	10	13	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr7:106508642G>T	uc003vdv.3	+	2	721	c.636G>T	c.(634-636)TGG>TGT	p.W212C	PIK3CG_uc003vdu.2_Missense_Mutation_p.W212C|PIK3CG_uc003vdw.2_Missense_Mutation_p.W212C	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	212					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						AGTACCTGTGGAAGAAGATTG	0.637													10	78	---	---	---	---	PASS	T	106508642	T	T	106508642	3	4	67	1	0	0	0	0	1	0	0	0	11916	1183	41	2	638	2	PIK3CG	7	106508642	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	8020623	106508642	52630021	87	26544										
C7orf34	135927	broad.mit.edu	37	chr7	142637536	142637536	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cagcaggaagaagaccagtcGtccaagacggcagctgttca	12	11	1	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr7:142637536G>A	uc003wca.2	+	2	347	c.306G>A	c.(304-306)TCG>TCA	p.S102S		NM_178829	NP_849151	Q96L11	CG034_HUMAN	hypothetical protein LOC135927	77						extracellular region					0	Melanoma(164;0.059)					AAGACCAGTCGTCCAAGACGG	0.542													25	127	---	---	---	---	PASS	A	142637536	A	A	142637536	2	1	67	1	0	0	0	0	0	0	0	1	2389	1132	40	1		1	C7orf34	7	142637536	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	36128894	142637536	16501127	88	26545										
OR2F1	26211	broad.mit.edu	37	chr7	143657764	143657764	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gatccagtccagagaaggaaGaaagaaagctttccacacgt	10	9	0	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr7:143657764G>C	uc003wds.1	+	1	745	c.701G>C	c.(700-702)AGA>ACA	p.R234T		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					AGAGAAGGAAGAAAGAAAGCT	0.498													14	103	---	---	---	---	PASS	C	143657764	C	C	143657764	3	2	67	1	0	0	0	0	1	0	0	0	10996	942	33	2	703	2	OR2F1	7	143657764	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	1020228	143657764	15480899	89	26546										
GIMAP6	474344	broad.mit.edu	37	chr7	150324980	150324980	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gttttgctgggtatattggtAagccttgttgctgtaataat	11	4	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr7:150324980A>G	uc003whn.2	-	3	1130	c.706T>C	c.(706-708)TAC>CAC	p.Y236H	GIMAP6_uc003whm.2_Missense_Mutation_p.Y156H	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	236							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GTATATTGGTAAGCCTTGTTG	0.517													31	164	---	---	---	---	PASS	G	150324980	G	G	150324980	3	3	67	1	0	0	0	0	1	0	0	0	6383	362	13	5	176	5	GIMAP6	7	150324980	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	6667216	150324980	8813683	90	26547										
MFHAS1	9258	broad.mit.edu	37	chr8	8747574	8747574	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tccctctctccacttacctgGaaaagcatgtggattgggcg	10	12	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr8:8747574G>C	uc003wsj.1	-	1	3558	c.2995C>G	c.(2995-2997)CCA>GCA	p.P999A		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	999											0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		CACTTACCTGGAAAAGCATGT	0.438													3	95	---	---	---	---	PASS	C	8747574	C	C	8747574	3	2	67	1	0	0	0	0	1	0	0	0	9521	1174	41	2	175	2	MFHAS1	8	8747574	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08		8747574	137616448	91	26548										
GSR	2936	broad.mit.edu	37	chr8	30557630	30557630	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tccagctgaaaaaatccatcGctggttattcctaagctggc	8	11	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr8:30557630G>A	uc003xih.1	-	6	754	c.663C>T	c.(661-663)AGC>AGT	p.S221S		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	221					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)	AAAATCCATCGCTGGTTATTC	0.428													25	101	---	---	---	---	PASS	A	30557630	A	A	30557630	2	1	67	1	0	0	0	0	0	0	0	1	6828	1078	38	1		1	GSR	8	30557630	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	21810056	30557630	115806392	92	26549										
UNC5D	137970	broad.mit.edu	37	chr8	35631953	35631953	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tgatacccccaatgccaaagGcaaggactggcagatgttag	11	10	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr8:35631953G>T	uc003xjr.1	+	16	2943	c.2615G>T	c.(2614-2616)GGC>GTC	p.G872V	UNC5D_uc003xjs.1_Missense_Mutation_p.G867V|UNC5D_uc003xju.1_Missense_Mutation_p.G448V	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	872	Death.|Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		AATGCCAAAGGCAAGGACTGG	0.463													28	62	---	---	---	---	PASS	T	35631953	T	T	35631953	3	4	67	1	0	0	0	0	1	0	0	0	16992	1203	42	3	2677	3	UNC5D	8	35631953	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	5074323	35631953	110732069	93	26550										
TGS1	96764	broad.mit.edu	37	chr8	56711626	56711626	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gtgatgacctactggagactAataatccagaacctgaaaag	9	8	0	5	rs140316366		TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr8:56711626A>T	uc003xsj.3	+	8	2083	c.1696A>T	c.(1696-1698)AAT>TAT	p.N566Y	TGS1_uc010lyh.2_Missense_Mutation_p.N470Y	NM_024831	NP_079107	Q96RS0	TGS1_HUMAN	trimethylguanosine synthase homolog	566				Missing (in Ref. 1; AAK27730).	cellular lipid metabolic process|ncRNA metabolic process|regulation of transcription, DNA-dependent|RNA capping|spliceosomal snRNP assembly|transcription, DNA-dependent	Cajal body|cytosol	RNA trimethylguanosine synthase activity			ovary(1)|lung(1)|breast(1)	3		all_lung(136;0.119)|all_epithelial(80;0.125)|Lung NSC(129;0.147)	Epithelial(17;0.00027)|all cancers(17;0.00251)			ACTGGAGACTAATAATCCAGA	0.418													13	93	---	---	---	---	PASS	T	56711626	T	T	56711626	3	4	67	1	0	0	0	0	1	0	0	0	15834	362	13	5	1726	5	TGS1	8	56711626	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	21079673	56711626	89652396	94	26551										
PREX2	80243	broad.mit.edu	37	chr8	69000007	69000007	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ggacttggcttccagatccgGggatttggcccttctgttgt	13	10	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr8:69000007G>A	uc003xxv.1	+	19	2103	c.2076G>A	c.(2074-2076)CGG>CGA	p.R692R	PREX2_uc003xxu.1_Silent_p.R692R|PREX2_uc011lez.1_Silent_p.R627R	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	692	PDZ 2.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TCCAGATCCGGGGATTTGGCC	0.453													20	180	---	---	---	---	PASS	A	69000007	A	A	69000007	2	1	67	1	0	0	0	0	0	0	0	1	12477	1219	43	3		3	PREX2	8	69000007	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	12288381	69000007	77364015	95	26552										
ZFHX4	79776	broad.mit.edu	37	chr8	77765739	77765739	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aataaagattcaccatacaaCttcagtaaccctcctataac	2	12	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr8:77765739C>G	uc003yav.2	+	10	6834	c.6447C>G	c.(6445-6447)AAC>AAG	p.N2149K	ZFHX4_uc003yau.1_Missense_Mutation_p.N2194K|ZFHX4_uc003yaw.1_Missense_Mutation_p.N2149K	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2149						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CACCATACAACTTCAGTAACC	0.368										HNSCC(33;0.089)			24	194	---	---	---	---	PASS	G	77765739	G	G	77765739	3	3	67	1	0	0	0	0	1	0	0	0	17632	564	20	4	6616	4	ZFHX4	8	77765739	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	8765732	77765739	68598283	96	26553										
CSMD3	114788	broad.mit.edu	37	chr8	113331091	113331091	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	caaactggaggtgctccatcCatctgcagtcgttctcctaa	8	13	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr8:113331091C>T	uc003ynu.2	-	47	7494	c.7335G>A	c.(7333-7335)ATG>ATA	p.M2445I	CSMD3_uc003yns.2_Missense_Mutation_p.M1647I|CSMD3_uc003ynt.2_Missense_Mutation_p.M2405I|CSMD3_uc011lhx.1_Missense_Mutation_p.M2341I|CSMD3_uc003ynw.1_Missense_Mutation_p.M156I	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2445	Extracellular (Potential).|Sushi 13.					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						GTGCTCCATCCATCTGCAGTC	0.333										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			26	79	---	---	---	---	PASS	T	113331091	T	T	113331091	3	4	67	1	0	0	0	0	1	0	0	0	3946	594	21	3	3888	3	CSMD3	8	113331091	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	35565352	113331091	33032931	97	26554										
CSMD3	114788	broad.mit.edu	37	chr8	113585850	113585850	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agatgcaccagtaaaagcacCtagtagatgagtcgttttat	9	7	0	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr8:113585850C>A	uc003ynu.2	-	24	4081	c.3922G>T	c.(3922-3924)GGT>TGT	p.G1308C	CSMD3_uc003yns.2_Missense_Mutation_p.G580C|CSMD3_uc003ynt.2_Missense_Mutation_p.G1268C|CSMD3_uc011lhx.1_Missense_Mutation_p.G1204C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1308	Extracellular (Potential).|CUB 7.					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						GTAAAAGCACCTAGTAGATGA	0.338										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			18	111	---	---	---	---	PASS	A	113585850	A	A	113585850	3	1	67	1	0	0	0	0	1	0	0	0	3946	681	24	3	7393	3	CSMD3	8	113585850	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	254759	113585850	32778172	98	26555										
TAF2	6873	broad.mit.edu	37	chr8	120754867	120754867	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctggggtattaaagcagatcGggagctagctggccgatatt	14	7	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr8:120754867G>A	uc003you.2	-	25	3514	c.3244C>T	c.(3244-3246)CGA>TGA	p.R1082*		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	1082					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			AAAGCAGATCGGGAGCTAGCT	0.453													4	55	---	---	---	---	PASS	A	120754867	A	A	120754867	4	1	67	1	0	0	0	0	0	1	0	0	15521	1124	39	1	363	1	TAF2	8	120754867	Nonsense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	7169017	120754867	25609155	99	26556										
TSNARE1	203062	broad.mit.edu	37	chr8	143412282	143412282	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aggctgtcccgaagctcctgCgtgtcactcggtgtccctaa	11	14	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr8:143412282C>T	uc003ywk.2	-	6	991	c.873G>A	c.(871-873)ACG>ACA	p.T291T	TSNARE1_uc011lju.1_Silent_p.T291T|TSNARE1_uc003ywj.2_Silent_p.T291T|TSNARE1_uc003ywl.3_Silent_p.T72T	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	291					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GAAGCTCCTGCGTGTCACTCG	0.637													9	70	---	---	---	---	PASS	T	143412282	T	T	143412282	2	4	67	1	0	0	0	0	0	0	0	1	16627	755	27	1		1	TSNARE1	8	143412282	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	22657415	143412282	2951740	100	26557										
EPPK1	83481	broad.mit.edu	37	chr8	144941397	144941397	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	accccccgtggccacctgcaCctccagcagcctcagtgcct	8	21	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr8:144941397C>G	uc003zaa.1	-	1	6038	c.6025G>C	c.(6025-6027)GTG>CTG	p.V2009L		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	2009	Plectin 34.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCCACCTGCACCTCCAGCAGC	0.637													6	36	---	---	---	---	PASS	G	144941397	G	G	144941397	3	3	67	1	0	0	0	0	1	0	0	0	5190	507	18	4	1241	4	EPPK1	8	144941397	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	1529115	144941397	1422625	101	26558										
PLEC	5339	broad.mit.edu	37	chr8	144993462	144993462	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttggggtcaaagaagcccttGgtgtcgtcgctggggtccgc	16	10	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr8:144993462G>A	uc003zaf.1	-	32	11108	c.10938C>T	c.(10936-10938)ACC>ACT	p.T3646T	PLEC_uc003zab.1_Silent_p.T3509T|PLEC_uc003zac.1_Silent_p.T3513T|PLEC_uc003zad.2_Silent_p.T3509T|PLEC_uc003zae.1_Silent_p.T3477T|PLEC_uc003zag.1_Silent_p.T3487T|PLEC_uc003zah.2_Silent_p.T3495T|PLEC_uc003zaj.2_Silent_p.T3536T	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3646	Globular 2.|Plectin 16.				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						AGAAGCCCTTGGTGTCGTCGC	0.657													17	149	---	---	---	---	PASS	A	144993462	A	A	144993462	2	1	67	1	0	0	0	0	0	0	0	1	12052	1335	47	3		3	PLEC	8	144993462	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	52065	144993462	1370560	102	26559										
IFNA14	3448	broad.mit.edu	37	chr9	21239830	21239830	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gccatgagcatcaaagtcctCctgttattcaggctgtgggt	11	10	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr9:21239830C>A	uc010mis.2	-	1	149	c.105G>T	c.(103-105)AGG>AGT	p.R35S	IFNA14_uc003zoo.1_RNA	NM_002172	NP_002163	P01570	IFN14_HUMAN	interferon, alpha 14 precursor	35					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;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		TCAAAGTCCTCCTGTTATTCA	0.488													34	117	---	---	---	---	PASS	A	21239830	A	A	21239830	3	1	67	1	0	0	0	0	1	0	0	0	7534	854	30	2	468	2	IFNA14	9	21239830	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08		21239830	119973601	103	26560										
KIAA1161	57462	broad.mit.edu	37	chr9	34371052	34371052	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agggggcgcacgatagggtcAcccgtgtcggtgacctcgcc	16	13	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr9:34371052A>C	uc003zue.3	-	3	2057	c.1890T>G	c.(1888-1890)GGT>GGG	p.G630G		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	630	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		CGATAGGGTCACCCGTGTCGG	0.662													4	16	---	---	---	---	PASS	C	34371052	C	C	34371052	2	2	67	1	0	0	0	0	0	0	0	1	8211	146	6	5		5	KIAA1161	9	34371052	Silent	SNP	A	TCGA-34-5232-01A-21D-1817-08	13131222	34371052	106842379	104	26561										
TMEM2	23670	broad.mit.edu	37	chr9	74319524	74319524	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aacatacttgttgaagttgaCgaggtatagaaatgtagtcc	10	5	0	3	rs138339130		TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr9:74319524C>T	uc011lsa.1	-	18	3721	c.3181G>A	c.(3181-3183)GTC>ATC	p.V1061I	TMEM2_uc011lrz.1_Missense_Mutation_p.V54I|TMEM2_uc010mos.2_Missense_Mutation_p.V998I|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	1061						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		TTGAAGTTGACGAGGTATAGA	0.428													14	89	---	---	---	---	PASS	T	74319524	T	T	74319524	3	4	67	1	0	0	0	0	1	0	0	0	16118	536	19	1	998	1	TMEM2	9	74319524	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	39948472	74319524	66893907	105	26562										
ZNF510	22869	broad.mit.edu	37	chr9	99525824	99525824	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gctgtagttctccagcatcaCatctctgtacagattcttct	6	12	5	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr9:99525824C>T	uc004awn.1	-	4	409	c.220G>A	c.(220-222)GTG>ATG	p.V74M	ZNF510_uc004awo.1_Missense_Mutation_p.V74M	NM_014930	NP_055745	Q9Y2H8	ZN510_HUMAN	zinc finger protein 510	74	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				TCCAGCATCACATCTCTGTAC	0.438													4	84	---	---	---	---	PASS	T	99525824	T	T	99525824	3	4	67	1	0	0	0	0	1	0	0	0	17951	478	17	3	1843	3	ZNF510	9	99525824	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	25206300	99525824	41687607	106	26563										
C9orf84	158401	broad.mit.edu	37	chr9	114490198	114490198	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcctttatcagagaaatagtCatcagaaaaacatagatctg	6	7	4	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr9:114490198C>T	uc004bfr.2	-	11	1492	c.1357G>A	c.(1357-1359)GAC>AAC	p.D453N	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Missense_Mutation_p.D414N|C9orf84_uc010mug.2_Missense_Mutation_p.D399N	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	453										ovary(2)	2						GAGAAATAGTCATCAGAAAAA	0.328													14	68	---	---	---	---	PASS	T	114490198	T	T	114490198	3	4	67	1	0	0	0	0	1	0	0	0	2500	826	29	2	3041	2	C9orf84	9	114490198	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	14964374	114490198	26723233	107	26564										
TLR4	7099	broad.mit.edu	37	chr9	120470927	120470927	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttctcaaccaagaacctggaCctgagctttaatcccctgag	7	13	1	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr9:120470927C>G	uc004bjz.2	+	2	471	c.180C>G	c.(178-180)GAC>GAG	p.D60E	TLR4_uc004bka.2_Missense_Mutation_p.D20E|TLR4_uc004bkb.2_Intron	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	60	LRR 1.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						AGAACCTGGACCTGAGCTTTA	0.433													38	192	---	---	---	---	PASS	G	120470927	G	G	120470927	3	3	67	1	0	0	0	0	1	0	0	0	15950	506	18	4	186	4	TLR4	9	120470927	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	5980729	120470927	20742504	108	26565										
CDK5RAP2	55755	broad.mit.edu	37	chr9	123287340	123287340	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cactgagcttttcaatttcaGagttaagttcttcaacctgg	7	9	4	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr9:123287340G>A	uc004bkf.2	-	11	1197	c.1016C>T	c.(1015-1017)TCT>TTT	p.S339F	CDK5RAP2_uc004bkg.2_Missense_Mutation_p.S339F|CDK5RAP2_uc011lxw.1_5'UTR|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_5'UTR|CDK5RAP2_uc011lya.1_5'UTR|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.S339F|CDK5RAP2_uc004bki.2_Missense_Mutation_p.S138F	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	339					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						TTCAATTTCAGAGTTAAGTTC	0.453													7	63	---	---	---	---	PASS	A	123287340	A	A	123287340	3	1	67	1	0	0	0	0	1	0	0	0	3146	942	33	2	4777	2	CDK5RAP2	9	123287340	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	2816413	123287340	17926091	109	26566										
OR5C1	392391	broad.mit.edu	37	chr9	125551578	125551578	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gttgcttgctggcagccatgGcctatgaccgctacgtggcc	13	13	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr9:125551578G>C	uc011lzd.1	+	1	367	c.367G>C	c.(367-369)GCC>CCC	p.A123P		NM_001001923	NP_001001923	Q8NGR4	OR5C1_HUMAN	olfactory receptor, family 5, subfamily C,	123	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.A123D(1)		pancreas(1)	1						GGCAGCCATGGCCTATGACCG	0.577													15	113	---	---	---	---	PASS	C	125551578	C	C	125551578	3	2	67	1	0	0	0	0	1	0	0	0	11153	1203	42	4	369	4	OR5C1	9	125551578	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	2264238	125551578	15661853	110	26567										
PGBD3	267004	broad.mit.edu	37	chr10	50724810	50724810	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acgggttgtacagttaggtcGgcttttttccatttgcaaag	11	7	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr10:50724810G>A	uc001jht.2	-	2	606	c.351C>T	c.(349-351)GCC>GCT	p.A117A	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Silent_p.A585A|PGBD3_uc001jhu.2_Silent_p.A585A	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	117										pancreas(1)|breast(1)|skin(1)	3						CAGTTAGGTCGGCTTTTTTCC	0.423													15	85	---	---	---	---	PASS	A	50724810	A	A	50724810	2	1	67	1	0	0	0	0	0	0	0	1	11782	1103	39	1		1	PGBD3	10	50724810	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08		50724810	84809937	111	26568										
LRRTM3	347731	broad.mit.edu	37	chr10	68687171	68687171	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gctgagtttacatttacggtCtaactccctgagaaccatcc	7	12	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr10:68687171C>A	uc001jmz.1	+	2	1047	c.497C>A	c.(496-498)TCT>TAT	p.S166Y	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.S166Y	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	166	Extracellular (Potential).|LRR 5.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CATTTACGGTCTAACTCCCTG	0.473													22	147	---	---	---	---	PASS	A	68687171	A	A	68687171	3	1	67	1	0	0	0	0	1	0	0	0	9041	913	32	2	503	2	LRRTM3	10	68687171	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	17962361	68687171	66847576	112	26569										
MYPN	84665	broad.mit.edu	37	chr10	69959266	69959266	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcactcagcgcgacgcagggAcctataagtgcatcgctacc	10	14	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr10:69959266A>G	uc001jnm.3	+	18	3612	c.3427A>G	c.(3427-3429)ACC>GCC	p.T1143A	MYPN_uc001jnn.3_Missense_Mutation_p.T868A|MYPN_uc001jno.3_Missense_Mutation_p.T1143A|MYPN_uc009xpt.2_Missense_Mutation_p.T1143A|MYPN_uc010qit.1_Missense_Mutation_p.T849A|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	1143	Ig-like 4.|Interaction with ACTN.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						CGACGCAGGGACCTATAAGTG	0.537													12	61	---	---	---	---	PASS	G	69959266	G	G	69959266	3	3	67	1	0	0	0	0	1	0	0	0	10098	275	10	5	3489	5	MYPN	10	69959266	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	1272095	69959266	65575481	113	26570										
PRF1	5551	broad.mit.edu	37	chr10	72360182	72360182	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tggtcctggtgggtcttctgGgctgcaaagttggctgcctg	16	9	2	0	rs139175805		TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr10:72360182G>T	uc009xqg.2	-	2	638	c.477C>A	c.(475-477)GCC>GCA	p.A159A	PRF1_uc001jrf.3_Silent_p.A159A	NM_001083116	NP_001076585	P14222	PERF_HUMAN	perforin 1 precursor	159	MACPF.				apoptosis|cellular defense response|cytolysis|defense response to tumor cell|defense response to virus|immune response to tumor cell|protein homooligomerization	cytolytic granule|endosome lumen|extracellular region|integral to membrane|plasma membrane	calcium ion binding|protein binding|wide pore channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						GGGTCTTCTGGGCTGCAAAGT	0.612			M			various leukaemia|lymphoma	Type 2 familial hemophagocytic lymphohistiocytosis		Familial_Hemophagocytic_Lymphohistiocytosis				5	62	---	---	---	---	PASS	T	72360182	T	T	72360182	2	4	67	1	0	0	0	0	0	0	0	1	12478	1219	43	3		3	PRF1	10	72360182	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	2400916	72360182	63174565	114	26571										
GPR123	84435	broad.mit.edu	37	chr10	134896348	134896348	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cctggccgaggcaccctggaCgcaggccctgtgcggtgagg	17	14	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr10:134896348C>T	uc001llw.2	+	7	1360	c.1360C>T	c.(1360-1362)CGC>TGC	p.R454C				Q86SQ6	GP123_HUMAN	RecName: Full=Probable G-protein coupled receptor 123;	207	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		GCACCCTGGACGCAGGCCCTG	0.662													3	12	---	---	---	---	PASS	T	134896348	T	T	134896348	3	4	67	1	0	0	0	0	1	0	0	0	6637	551	19	1		1	GPR123	10	134896348	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	62536166	134896348	638399	115	26572										
SLC17A6	57084	broad.mit.edu	37	chr11	22363155	22363155	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctagaggtgcccgagaggaaGgcgccgctgtgcgactgcac	16	12	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr11:22363155G>A	uc001mqk.2	+	2	581	c.168G>A	c.(166-168)AAG>AAA	p.K56K		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	56	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						CCGAGAGGAAGGCGCCGCTGT	0.647													4	31	---	---	---	---	PASS	A	22363155	A	A	22363155	2	1	67	1	0	0	0	0	0	0	0	1	14421	991	35	3		3	SLC17A6	11	22363155	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08		22363155	112643361	116	26573										
WT1	7490	broad.mit.edu	37	chr11	32450095	32450095	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tgcttgaatgagtggttgggGaactgcgccgcatggtgcga	17	7	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr11:32450095G>A	uc001mtn.1	-	2	913	c.717C>T	c.(715-717)TTC>TTT	p.F239F	WT1_uc001mtl.1_Silent_p.F27F|WT1_uc001mtm.1_Silent_p.F27F|WT1_uc001mto.1_Silent_p.F239F|WT1_uc001mtp.1_Silent_p.F239F|WT1_uc001mtq.1_Silent_p.F239F|WT1_uc009yjs.1_RNA	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D	171					adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding		EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			AGTGGTTGGGGAACTGCGCCG	0.627			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				8	43	---	---	---	---	PASS	A	32450095	A	A	32450095	2	1	67	1	0	0	0	0	0	0	0	1	17405	1165	41	2		2	WT1	11	32450095	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	10086940	32450095	102556421	117	26574										
TRIM48	79097	broad.mit.edu	37	chr11	55032408	55032408	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tggaatctcgcaagtcttccAgagggaactcacctgcccca	9	14	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr11:55032408A>T	uc010rid.1	+	2	163	c.77A>T	c.(76-78)CAG>CTG	p.Q26L		NM_024114	NP_077019	Q8IWZ4	TRI48_HUMAN	tripartite motif-containing 48	10						intracellular	zinc ion binding				0						CAAGTCTTCCAGAGGGAACTC	0.488													91	258	---	---	---	---	PASS	T	55032408	T	T	55032408	3	4	67	1	0	0	0	0	1	0	0	0	16520	188	7	5	83	5	TRIM48	11	55032408	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	22582313	55032408	79974108	118	26575										
AHNAK	79026	broad.mit.edu	37	chr11	62297253	62297253	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	atctggaacatcaatgtccaCcttgggtcctgaaacaccaa	7	12	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr11:62297253C>T	uc001ntl.2	-	5	4936	c.4636G>A	c.(4636-4638)GTG>ATG	p.V1546M	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1546					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TCAATGTCCACCTTGGGTCCT	0.478													40	184	---	---	---	---	PASS	T	62297253	T	T	62297253	3	4	67	1	0	0	0	0	1	0	0	0	414	507	18	3	13156	3	AHNAK	11	62297253	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	7264845	62297253	72709263	119	26576										
NRXN2	9379	broad.mit.edu	37	chr11	64402790	64402790	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gccggaggcgctgtccacccGcaccagcacagcgctccgct	12	19	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr11:64402790G>T	uc001oap.2	-	3	911	c.400C>A	c.(400-402)CGG>AGG	p.R134R	NRXN2_uc001oar.2_Silent_p.R1180R|NRXN2_uc001oas.2_Silent_p.R1140R|NRXN2_uc001oaq.2_Silent_p.R847R	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	134	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CTGTCCACCCGCACCAGCACA	0.642													7	39	---	---	---	---	PASS	T	64402790	T	T	64402790	2	4	67	1	0	0	0	0	0	0	0	1	10666	1086	38	1		1	NRXN2	11	64402790	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	2105537	64402790	70603726	120	26577										
NRXN2	9379	broad.mit.edu	37	chr11	64418907	64418907	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cgggatcggccacgatggcaCgcaggccaaagcgagcattg	15	12	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr11:64418907C>A	uc001oar.2	-	15	3177	c.2738G>T	c.(2737-2739)CGT>CTT	p.R913L	NRXN2_uc001oas.2_Missense_Mutation_p.R873L|NRXN2_uc001oaq.2_Missense_Mutation_p.R580L	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:Variant_position_missing_in_P58401_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CACGATGGCACGCAGGCCAAA	0.582											OREG0021057	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	36	---	---	---	---	PASS	A	64418907	A	A	64418907	3	1	67	1	0	0	0	0	1	0	0	0	10666	536	19	1	2709	1	NRXN2	11	64418907	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	16117	64418907	70587609	121	26578										
SSH3	54961	broad.mit.edu	37	chr11	67079325	67079325	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aaggtggtgagacaggccagCgtgcatgacagtggagagga	18	6	0	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr11:67079325C>T	uc001okj.2	+	14	2125	c.1947C>T	c.(1945-1947)AGC>AGT	p.S649S	SSH3_uc001okk.2_RNA|SSH3_uc001okl.2_Silent_p.S503S	NM_017857	NP_060327	Q8TE77	SSH3_HUMAN	slingshot homolog 3	649					regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton|nucleus	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			GACAGGCCAGCGTGCATGACA	0.507													8	98	---	---	---	---	PASS	T	67079325	T	T	67079325	2	4	67	1	0	0	0	0	0	0	0	1	15185	767	27	1		1	SSH3	11	67079325	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	2660418	67079325	67927191	122	26579										
RSF1	51773	broad.mit.edu	37	chr11	77412282	77412282	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcttttagggtttctaggtcTacttttttcacagactggcc	8	9	4	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr11:77412282T>C	uc001oyn.2	-	6	2112	c.1992A>G	c.(1990-1992)GTA>GTG	p.V664V	RSF1_uc001oym.2_Silent_p.V412V	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	664					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			TTTCTAGGTCTACTTTTTTCA	0.428													27	154	---	---	---	---	PASS	C	77412282	C	C	77412282	2	2	67	1	0	0	0	0	0	0	0	1	13699	1509	53	5		5	RSF1	11	77412282	Silent	SNP	T	TCGA-34-5232-01A-21D-1817-08	10332957	77412282	57594234	123	26580										
HSPA8	3312	broad.mit.edu	37	chr11	122929458	122929458	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcaatctgaggaacacctcgGggtgcaggaggtatgcctgt	14	9	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr11:122929458G>A	uc001pyo.2	-	7	1482	c.1404C>T	c.(1402-1404)CCC>CCT	p.P468P	HSPA8_uc009zbc.2_Silent_p.P232P|HSPA8_uc001pyp.2_Intron|HSPA8_uc010rzu.1_Silent_p.P391P	NM_006597	NP_006588	P11142	HSP7C_HUMAN	heat shock 70kDa protein 8 isoform 1	468					cellular membrane organization|interspecies interaction between organisms|mRNA metabolic process|negative regulation of transcription, DNA-dependent|neurotransmitter secretion|post-Golgi vesicle-mediated transport|protein folding|response to unfolded protein|transcription, DNA-dependent	cell surface|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|melanosome|plasma membrane|ribonucleoprotein complex	ATP binding|ATPase activity, coupled|protein binding			central_nervous_system(7)|lung(1)	8		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		GAACACCTCGGGGTGCAGGAG	0.443													12	70	---	---	---	---	PASS	A	122929458	A	A	122929458	2	1	67	1	0	0	0	0	0	0	0	1	7416	1219	43	3		3	HSPA8	11	122929458	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	45517176	122929458	12077058	124	26581										
NCAPD3	23310	broad.mit.edu	37	chr11	134037997	134037997	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gtttagatctcattgccaaaAgcttgatctcctttgagctg	8	9	2	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr11:134037997A>T	uc001qhd.1	-	27	4073	c.3467T>A	c.(3466-3468)CTT>CAT	p.L1156H	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA|NCAPD3_uc001qhc.1_Missense_Mutation_p.L106H	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	1156					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		CATTGCCAAAAGCTTGATCTC	0.493													24	88	---	---	---	---	PASS	T	134037997	T	T	134037997	3	4	67	1	0	0	0	0	1	0	0	0	10206	72	3	5	1065	5	NCAPD3	11	134037997	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	11108539	134037997	968519	125	26582										
WNT10B	7480	broad.mit.edu	37	chr12	49361766	49361766	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tgttgtggattcgcattcgtGcctggatgtcccggggagct	15	9	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr12:49361766G>A	uc001rss.2	-	4	1020	c.674C>T	c.(673-675)GCA>GTA	p.A225V	WNT10B_uc001rst.2_Missense_Mutation_p.H178Y	NM_003394	NP_003385	O00744	WN10B_HUMAN	wingless-type MMTV integration site family,	225					axis specification|bone trabecula formation|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|chondrocyte differentiation|female gonad development|hemopoietic stem cell proliferation|midbrain-hindbrain boundary development|myoblast cell differentiation involved in skeletal muscle regeneration|negative regulation of epithelial cell proliferation|negative regulation of fat cell differentiation|neuron differentiation|positive regulation of anagen|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cell proliferation|positive regulation of epithelial cell differentiation|positive regulation of osteoblast differentiation|protein stabilization|regulation of skeletal muscle tissue development|skeletal muscle fiber development|smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			skin(4)|lung(3)	7						TCGCATTCGTGCCTGGATGTC	0.542													11	58	---	---	---	---	PASS	A	49361766	A	A	49361766	3	1	67	1	0	0	0	0	1	0	0	0	17380	1319	46	3	503	3	WNT10B	12	49361766	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08		49361766	84490129	126	26583										
KRT84	3890	broad.mit.edu	37	chr12	52774341	52774341	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcgccctgctgctcggcctcGgccactgcagcctccaactt	9	19	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr12:52774341G>A	uc001sah.1	-	7	1278	c.1230C>T	c.(1228-1230)GCC>GCT	p.A410A		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	410	Rod.|Coil 2.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		GCTCGGCCTCGGCCACTGCAG	0.647											OREG0021848	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	27	---	---	---	---	PASS	A	52774341	A	A	52774341	2	1	67	1	0	0	0	0	0	0	0	1	8498	1103	39	1		1	KRT84	12	52774341	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	3412575	52774341	81077554	127	26584										
KRT72	140807	broad.mit.edu	37	chr12	52979817	52979817	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctccccgaggttttggcaagGggatccttgagctcactgcc	12	13	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr12:52979817G>A	uc001sar.2	-	9	1571	c.1485C>T	c.(1483-1485)CCC>CCT	p.P495P	KRT72_uc001saq.2_Silent_p.P495P|KRT72_uc010sns.1_Silent_p.P453P|KRT72_uc010snt.1_Silent_p.P307P	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	495	Tail.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		TTTTGGCAAGGGGATCCTTGA	0.557													39	176	---	---	---	---	PASS	A	52979817	A	A	52979817	2	1	67	1	0	0	0	0	0	0	0	1	8485	1219	43	3		3	KRT72	12	52979817	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	205476	52979817	80872078	128	26585										
SLC5A8	160728	broad.mit.edu	37	chr12	101576588	101576588	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aacagaaacttactcattccTtgggaaatccaagacagaga	7	9	1	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr12:101576588T>C	uc001thz.3	-	9	1548	c.1158A>G	c.(1156-1158)CAA>CAG	p.Q386Q		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	386	Cytoplasmic (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						TACTCATTCCTTGGGAAATCC	0.383													12	64	---	---	---	---	PASS	C	101576588	C	C	101576588	2	2	67	1	0	0	0	0	0	0	0	1	14671	1606	56	5		5	SLC5A8	12	101576588	Silent	SNP	T	TCGA-34-5232-01A-21D-1817-08	48596771	101576588	32275307	129	26586										
MYBPC1	4604	broad.mit.edu	37	chr12	102036228	102036228	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agcaggaggaagaaccccagGtggacgtatgggagttgctg	17	7	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr12:102036228G>T	uc001tii.2	+	9	724	c.622G>T	c.(622-624)GTG>TTG	p.V208L	MYBPC1_uc001tif.1_Missense_Mutation_p.V221L|MYBPC1_uc001tig.2_Missense_Mutation_p.V233L|MYBPC1_uc010svq.1_Missense_Mutation_p.V195L|MYBPC1_uc001tih.2_Missense_Mutation_p.V233L|MYBPC1_uc001tij.2_Missense_Mutation_p.V208L|MYBPC1_uc010svr.1_Missense_Mutation_p.V208L|MYBPC1_uc010svs.1_Missense_Mutation_p.V208L|MYBPC1_uc010svt.1_Missense_Mutation_p.V196L|MYBPC1_uc010svu.1_Missense_Mutation_p.V189L|MYBPC1_uc001tik.2_Missense_Mutation_p.V182L	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	208					cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						AGAACCCCAGGTGGACGTATG	0.552													8	71	---	---	---	---	PASS	T	102036228	T	T	102036228	3	4	67	1	0	0	0	0	1	0	0	0	10011	1261	44	3	739	3	MYBPC1	12	102036228	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	459640	102036228	31815667	130	26587										
MYBPC1	4604	broad.mit.edu	37	chr12	102057289	102057289	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tggcgccccccagaccacatTggtgcagcaggtttagatgg	13	12	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr12:102057289T>A	uc001tii.2	+	20	2334	c.2232T>A	c.(2230-2232)ATT>ATA	p.I744I	MYBPC1_uc001tig.2_Silent_p.I769I|MYBPC1_uc010svq.1_Silent_p.I731I|MYBPC1_uc001tih.2_Silent_p.I769I|MYBPC1_uc001tij.2_Silent_p.I744I|MYBPC1_uc010svr.1_Silent_p.I744I|MYBPC1_uc010svs.1_Silent_p.I744I|MYBPC1_uc010svt.1_Silent_p.I732I|MYBPC1_uc010svu.1_Silent_p.I725I|MYBPC1_uc001tik.2_Silent_p.I718I|MYBPC1_uc001til.2_5'Flank|MYBPC1_uc001tim.2_5'Flank	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	744	Fibronectin type-III 2.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						CAGACCACATTGGTGCAGCAG	0.443													20	57	---	---	---	---	PASS	A	102057289	A	A	102057289	2	1	67	1	0	0	0	0	0	0	0	1	10011	1800	63	5		5	MYBPC1	12	102057289	Silent	SNP	T	TCGA-34-5232-01A-21D-1817-08	21061	102057289	31794606	131	26588										
MLXIP	22877	broad.mit.edu	37	chr12	122613736	122613736	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ccgcatcgagattgtgatccGggagtatcacaagtggagaa	13	8	1	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr12:122613736G>A	uc001ubq.2	+	4	659	c.659G>A	c.(658-660)CGG>CAG	p.R220Q	MLXIP_uc001ubr.2_5'UTR|MLXIP_uc001ubs.1_5'Flank	NM_014938	NP_055753	Q9HAP2	MLXIP_HUMAN	MLX interacting protein	220	Required for cytoplasmic localization.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)		ATTGTGATCCGGGAGTATCAC	0.557													3	14	---	---	---	---	PASS	A	122613736	A	A	122613736	3	1	67	1	0	0	0	0	1	0	0	0	9636	1116	39	1	673	1	MLXIP	12	122613736	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	20556447	122613736	11238159	132	26589										
ULK1	8408	broad.mit.edu	37	chr12	132404121	132404121	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cggcaagctctgcctgtcgtCcactgtgaagcagggtgagg	15	11	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr12:132404121C>T	uc001uje.2	+	25	3057	c.2789C>T	c.(2788-2790)TCC>TTC	p.S930F		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	930					autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		TGCCTGTCGTCCACTGTGAAG	0.647													9	94	---	---	---	---	PASS	T	132404121	T	T	132404121	3	4	67	1	0	0	0	0	1	0	0	0	16972	855	30	2	2887	2	ULK1	12	132404121	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	9790385	132404121	1447774	133	26590			1	31		2	2	12	C		8.06579e-05
ULK1	8408	broad.mit.edu	37	chr12	132404132	132404132	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gcctgtcgtccactgtgaagCagggtgagggctgcgaccgc	16	12	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr12:132404132C>T	uc001uje.2	+	25	3068	c.2800C>T	c.(2800-2802)CAG>TAG	p.Q934*		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	934					autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		CACTGTGAAGCAGGGTGAGGG	0.637													9	89	---	---	---	---	PASS	T	132404132	T	T	132404132	4	4	67	1	0	0	0	0	0	1	0	0	16972	711	25	3	2898	3	ULK1	12	132404132	Nonsense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	11	132404132	1447763	134	26591			1	31		2	2	12	C		8.06579e-05
FREM2	341640	broad.mit.edu	37	chr13	39435583	39435583	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcaaggtctttgtcagccccGtgtacctggggttgttggag	14	9	3	0	rs61978626	byFrequency	TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr13:39435583G>T	uc001uwv.2	+	15	7844	c.7535G>T	c.(7534-7536)CGT>CTT	p.R2512L	FREM2_uc001uww.2_Missense_Mutation_p.R598L	NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2512	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TGTCAGCCCCGTGTACCTGGG	0.408													18	74	---	---	---	---	PASS	T	39435583	T	T	39435583	3	4	67	1	0	0	0	0	1	0	0	0	6045	1145	40	1	7593	1	FREM2	13	39435583	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08		39435583	75734295	135	26592										
PCDH9	5101	broad.mit.edu	37	chr13	67800644	67800644	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ccatcagtggctttgacatcAaaagtgtaggaactctgctg	10	9	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr13:67800644A>G	uc001vik.2	-	2	2621	c.1929T>C	c.(1927-1929)TTT>TTC	p.F643F	PCDH9_uc001vil.2_Silent_p.F643F|PCDH9_uc010thl.1_Silent_p.F643F|PCDH9_uc001vin.3_Silent_p.F643F	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	643	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		CTTTGACATCAAAAGTGTAGG	0.403													15	79	---	---	---	---	PASS	G	67800644	G	G	67800644	2	3	67	1	0	0	0	0	0	0	0	1	11518	127	5	5		5	PCDH9	13	67800644	Silent	SNP	A	TCGA-34-5232-01A-21D-1817-08	28365061	67800644	47369234	136	26593										
KLHL1	57626	broad.mit.edu	37	chr13	70681632	70681632	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aggaaggcttcttccagaaaGtgctcacaccgcttctctct	8	13	4	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr13:70681632G>A	uc001vip.2	-	1	994	c.200C>T	c.(199-201)ACT>ATT	p.T67I	KLHL1_uc010thm.1_Missense_Mutation_p.T67I|ATXN8OS_uc010aej.1_RNA	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	67	Ser-rich.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		CTTCCAGAAAGTGCTCACACC	0.448													16	65	---	---	---	---	PASS	A	70681632	A	A	70681632	3	1	67	1	0	0	0	0	1	0	0	0	8365	1029	36	3	2090	3	KLHL1	13	70681632	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	2880988	70681632	44488246	137	26594										
FAM155A	728215	broad.mit.edu	37	chr13	108518929	108518929	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gtcatactgccgacacatccAagcacccctggtcatatttt	6	14	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr13:108518929A>G	uc001vql.2	-	1	532	c.16T>C	c.(16-18)TGG>CGG	p.W6R		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	6						integral to membrane	binding			skin(1)	1						CGACACATCCAAGCACCCCTG	0.552													25	106	---	---	---	---	PASS	G	108518929	G	G	108518929	3	3	67	1	0	0	0	0	1	0	0	0	5465	130	5	5	1372	5	FAM155A	13	108518929	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	37837297	108518929	6650949	138	26595										
RNASE11	122651	broad.mit.edu	37	chr14	21052206	21052206	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tctcacagcagcttatgccaGgattctgtacaaacttgcag	8	11	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr14:21052206G>T	uc010ahv.2	-	2	613	c.428C>A	c.(427-429)CCT>CAT	p.P143H	RNASE11_uc010ahx.2_Missense_Mutation_p.P143H|RNASE11_uc010ahw.2_Missense_Mutation_p.P143H|RNASE11_uc001vxs.2_Missense_Mutation_p.P143H	NM_145250	NP_660293	Q8TAA1	RNS11_HUMAN	ribonuclease, RNase A family, 11 (non-active)	143						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			ovary(3)	3	all_cancers(95;0.00238)	all_lung(585;0.235)	Epithelial(56;1.85e-06)|all cancers(55;1.46e-05)	GBM - Glioblastoma multiforme(265;0.0139)		GCTTATGCCAGGATTCTGTAC	0.512													9	52	---	---	---	---	PASS	T	21052206	T	T	21052206	3	4	67	1	0	0	0	0	1	0	0	0	13401	1000	35	3	175	3	RNASE11	14	21052206	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08		21052206	86297334	139	26596										
TRIM9	114088	broad.mit.edu	37	chr14	51467493	51467493	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctgtttccaggacaacgtagCgctgttgttgtgggtacaac	12	9	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr14:51467493C>A	uc001wyx.3	-	6	2137	c.1372G>T	c.(1372-1374)GCT>TCT	p.A458S	TRIM9_uc001wyy.2_Missense_Mutation_p.A454S|TRIM9_uc001wyz.3_Missense_Mutation_p.A458S	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	458	Fibronectin type-III.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					GACAACGTAGCGCTGTTGTTG	0.522													12	65	---	---	---	---	PASS	A	51467493	A	A	51467493	3	1	67	1	0	0	0	0	1	0	0	0	16546	768	27	1	830	1	TRIM9	14	51467493	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	30415287	51467493	55882047	140	26597										
ABCD4	5826	broad.mit.edu	37	chr14	74764641	74764641	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tggggcgcctacgggttatcGatgtcatcccgcagcacgtt	13	12	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr14:74764641G>A	uc001xpr.2	-	4	569	c.417C>T	c.(415-417)ATC>ATT	p.I139I	ABCD4_uc001xps.2_5'UTR|ABCD4_uc001xpt.2_5'UTR|ABCD4_uc010tur.1_Silent_p.I52I|ABCD4_uc001xpu.2_Intron|ABCD4_uc001xpv.2_RNA	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	139	ABC transmembrane type-1.					ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)		ACGGGTTATCGATGTCATCCC	0.582													15	64	---	---	---	---	PASS	A	74764641	A	A	74764641	2	1	67	1	0	0	0	0	0	0	0	1	63	1048	37	2		2	ABCD4	14	74764641	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	23297148	74764641	32584899	141	26598										
ZNF839	55778	broad.mit.edu	37	chr14	102792497	102792497	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcagctgctcagggtacagcCgcttgtgagaaccgagccac	12	13	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr14:102792497C>T	uc001ylo.2	+	2	466	c.116C>T	c.(115-117)CCG>CTG	p.P39L	ZNF839_uc010awk.1_Missense_Mutation_p.P155L|ZNF839_uc001ylp.2_RNA|ZNF839_uc001ylq.1_Missense_Mutation_p.P39L|ZNF839_uc001ylr.2_Missense_Mutation_p.P39L	NM_018335	NP_060805	A8K0R7	ZN839_HUMAN	zinc finger protein 839	39						intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)	2						AGGGTACAGCCGCTTGTGAGA	0.597													4	33	---	---	---	---	PASS	T	102792497	T	T	102792497	3	4	67	1	0	0	0	0	1	0	0	0	18185	652	23	1	470	1	ZNF839	14	102792497	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	28027856	102792497	4557043	142	26599										
TJP1	7082	broad.mit.edu	37	chr15	29997906	29997906	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gcctcgggctgtggccaccaCagtatgaccatcttcatctt	9	14	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr15:29997906C>G	uc001zcr.2	-	26	5369	c.4894G>C	c.(4894-4896)GTG>CTG	p.V1632L	TJP1_uc010azl.2_Missense_Mutation_p.V1620L|TJP1_uc001zcq.2_Missense_Mutation_p.V1556L|TJP1_uc001zcs.2_Missense_Mutation_p.V1552L	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	1632	ZU5.				cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		GTGGCCACCACAGTATGACCA	0.458													13	97	---	---	---	---	PASS	G	29997906	G	G	29997906	3	3	67	1	0	0	0	0	1	0	0	0	15926	478	17	4	364	4	TJP1	15	29997906	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08		29997906	72533486	143	26600										
NOP10	55505	broad.mit.edu	37	chr15	34634212	34634212	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gggtcatgagcaccttgaagCgtttcttgatggtgattcgg	14	7	2	4			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr15:34634212C>G	uc001zie.1	-	2	240	c.152G>C	c.(151-153)CGC>CCC	p.R51P	C15orf55_uc010ucc.1_5'Flank|C15orf55_uc010ucd.1_5'Flank	NM_018648	NP_061118	Q9NPE3	NOP10_HUMAN	nucleolar protein family A, member 3	51					pseudouridine synthesis|rRNA processing	Cajal body|nucleolus|small nucleolar ribonucleoprotein complex	protein binding				0						CACCTTGAAGCGTTTCTTGAT	0.537													8	56	---	---	---	---	PASS	G	34634212	G	G	34634212	3	3	67	1	0	0	0	0	1	0	0	0	10535	768	27	4	46	4	NOP10	15	34634212	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	4636306	34634212	67897180	144	26601										
VPS13C	54832	broad.mit.edu	37	chr15	62201244	62201244	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tggttcattatcaaggcaggTgcagatccctcatggtaatc	10	9	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr15:62201244T>G	uc002agz.2	-	65	8999	c.8925A>C	c.(8923-8925)GCA>GCC	p.A2975A	VPS13C_uc002aha.2_Silent_p.A2932A|VPS13C_uc002ahb.1_Silent_p.A2975A|VPS13C_uc002ahc.1_Silent_p.A2932A|VPS13C_uc002ahd.1_Silent_p.A352A	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2975					protein localization					ovary(2)	2						TCAAGGCAGGTGCAGATCCCT	0.373													9	72	---	---	---	---	PASS	G	62201244	G	G	62201244	2	3	67	1	0	0	0	0	0	0	0	1	17188	1683	59	5		5	VPS13C	15	62201244	Silent	SNP	T	TCGA-34-5232-01A-21D-1817-08	27567032	62201244	40330148	145	26602										
SNX33	257364	broad.mit.edu	37	chr15	75941618	75941618	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctgcctcttatgtggagatcGtccgttctggcatcagcacc	10	13	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr15:75941618G>A	uc002bau.2	+	1	271	c.175G>A	c.(175-177)GTC>ATC	p.V59I	IMP3_uc002bat.2_5'Flank|SNX33_uc002bav.2_5'Flank	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	59	SH3.				cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1						TGTGGAGATCGTCCGTTCTGG	0.607													12	63	---	---	---	---	PASS	A	75941618	A	A	75941618	3	1	67	1	0	0	0	0	1	0	0	0	14903	1145	40	1	177	1	SNX33	15	75941618	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	13740374	75941618	26589774	146	26603										
SCAPER	49855	broad.mit.edu	37	chr15	77020994	77020994	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cttttcttgcctctgttgttCaattcgggcttcttgttctt	7	10	5	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr15:77020994C>T	uc002bby.2	-	16	2166	c.2107G>A	c.(2107-2109)GAA>AAA	p.E703K	SCAPER_uc010bkr.2_Missense_Mutation_p.E11K|SCAPER_uc002bbx.2_Missense_Mutation_p.E457K|SCAPER_uc002bbz.1_Missense_Mutation_p.E574K|SCAPER_uc002bca.1_Missense_Mutation_p.E568K|SCAPER_uc002bcb.1_Missense_Mutation_p.E709K	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	702	Glu-rich.					endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						CTCTGTTGTTCAATTCGGGCT	0.448													34	140	---	---	---	---	PASS	T	77020994	T	T	77020994	3	4	67	1	0	0	0	0	1	0	0	0	13878	835	29	2	2159	2	SCAPER	15	77020994	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	1079376	77020994	25510398	147	26604										
ADAMTS7	11173	broad.mit.edu	37	chr15	79064110	79064110	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gccaggaagttggcagcctcGgcaacctcttggatgcggat	14	11	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr15:79064110G>A	uc002bej.3	-	15	2404	c.2193C>T	c.(2191-2193)GCC>GCT	p.A731A	ADAMTS7_uc010und.1_Intron|ADAMTS7_uc002bek.1_Silent_p.A731A	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	731	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						TGGCAGCCTCGGCAACCTCTT	0.622													11	52	---	---	---	---	PASS	A	79064110	A	A	79064110	2	1	67	1	0	0	0	0	0	0	0	1	271	1103	39	1		1	ADAMTS7	15	79064110	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	2043116	79064110	23467282	148	26605										
IL16	3603	broad.mit.edu	37	chr15	81593686	81593686	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttgtttctccttatgaaagcCtttcagagctgagagaatat	8	7	2	4			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr15:81593686C>T	uc002bgh.3	+	15	3527	c.3151C>T	c.(3151-3153)CTT>TTT	p.L1051F	IL16_uc010blq.1_Missense_Mutation_p.L1005F|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Missense_Mutation_p.L1093F|IL16_uc002bgg.2_Missense_Mutation_p.L1051F|IL16_uc002bgi.1_Missense_Mutation_p.L441F|IL16_uc002bgj.2_Missense_Mutation_p.L545F|IL16_uc002bgk.2_Missense_Mutation_p.L350F|IL16_uc002bgl.1_Missense_Mutation_p.L350F|IL16_uc010unq.1_Missense_Mutation_p.L350F	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	1051	Interaction with HTLV-1 tax.				immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						TTATGAAAGCCTTTCAGAGCT	0.343													13	39	---	---	---	---	PASS	T	81593686	T	T	81593686	3	4	67	1	0	0	0	0	1	0	0	0	7633	695	24	3	3205	3	IL16	15	81593686	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	2529576	81593686	20937706	149	26606										
SLC28A1	9154	broad.mit.edu	37	chr15	85476424	85476424	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctgtgatggctgccccttgtGccttggccctctccaagctg	11	15	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr15:85476424G>C	uc002blg.2	+	13	1334	c.1132G>C	c.(1132-1134)GCC>CCC	p.A378P	SLC28A1_uc010bnb.2_Missense_Mutation_p.A378P|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Missense_Mutation_p.A378P|SLC28A1_uc010upg.1_Missense_Mutation_p.A378P	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	378	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			TGCCCCTTGTGCCTTGGCCCT	0.562													32	171	---	---	---	---	PASS	C	85476424	C	C	85476424	3	2	67	1	0	0	0	0	1	0	0	0	14531	1319	46	4	1245	4	SLC28A1	15	85476424	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	3882738	85476424	17054968	150	26607										
UNC45A	55898	broad.mit.edu	37	chr15	91483669	91483669	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	catgctggcggctctgcgtaCgctggttggcatttgctctg	14	11	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr15:91483669C>T	uc002bqg.2	+	6	993	c.653C>T	c.(652-654)ACG>ATG	p.T218M	UNC45A_uc002bqd.2_Missense_Mutation_p.T203M|UNC45A_uc010uqo.1_Missense_Mutation_p.T210M|UNC45A_uc010uqp.1_RNA|UNC45A_uc010uqq.1_Missense_Mutation_p.T218M	NM_018671	NP_061141	Q9H3U1	UN45A_HUMAN	smooth muscle cell associated protein-1 isoform	218					cell differentiation|muscle organ development	nucleus|perinuclear region of cytoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			GCTCTGCGTACGCTGGTTGGC	0.507													12	85	---	---	---	---	PASS	T	91483669	T	T	91483669	3	4	67	1	0	0	0	0	1	0	0	0	16985	536	19	1	675	1	UNC45A	15	91483669	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	6007245	91483669	11047723	151	26608										
ASB7	140460	broad.mit.edu	37	chr15	101169983	101169983	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttcagaatggtttcctgttgCgatacgccgtgatcaaaagc	10	9	2	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr15:101169983C>T	uc002bwk.2	+	5	1322	c.553C>T	c.(553-555)CGA>TGA	p.R185*	ASB7_uc002bwj.2_Nonsense_Mutation_p.R185*	NM_198243	NP_937886	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box-containing protein 7	185	ANK 6.				intracellular signal transduction					skin(1)	1	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			TTTCCTGTTGCGATACGCCGT	0.493													7	52	---	---	---	---	PASS	T	101169983	T	T	101169983	4	4	67	1	0	0	0	0	0	1	0	0	1028	760	27	1	559	1	ASB7	15	101169983	Nonsense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	9686314	101169983	1361409	152	26609										
RPUSD1	113000	broad.mit.edu	37	chr16	837656	837656	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ccacgccttgctgtcaatgcGaacgtcccagtgcttgttga	10	13	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr16:837656G>C	uc002cka.2	-	1	316	c.82C>G	c.(82-84)CGC>GGC	p.R28G	RPUSD1_uc002ckb.2_Missense_Mutation_p.R28G|RPUSD1_uc002ckc.2_Intron|RPUSD1_uc002ckd.2_Missense_Mutation_p.R28G|CHTF18_uc010uus.1_5'Flank|CHTF18_uc010bre.1_5'Flank|CHTF18_uc002cke.3_5'Flank|CHTF18_uc002ckf.3_5'Flank|CHTF18_uc010brf.2_5'Flank|CHTF18_uc002ckg.3_5'Flank	NM_058192	NP_478072	Q9UJJ7	RUSD1_HUMAN	RNA pseudouridylate synthase domain containing	28					pseudouridine synthesis		pseudouridine synthase activity|RNA binding				0		Hepatocellular(780;0.00335)				CTGTCAATGCGAACGTCCCAG	0.647													10	67	---	---	---	---	PASS	C	837656	C	C	837656	3	2	67	1	0	0	0	0	1	0	0	0	13666	1058	37	2	876	2	RPUSD1	16	837656	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08		837656	89517097	153	26610										
E4F1	1877	broad.mit.edu	37	chr16	2278471	2278471	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agaaggcctgccagcgggccCctccggaggccctgcctgcc	14	18	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr16:2278471C>T	uc002cpm.2	+	2	304	c.256C>T	c.(256-258)CCT>TCT	p.P86S	E4F1_uc010bsi.2_Missense_Mutation_p.P86S|E4F1_uc010bsj.2_Missense_Mutation_p.P86S	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	86					cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						CCAGCGGGCCCCTCCGGAGGC	0.652													4	33	---	---	---	---	PASS	T	2278471	T	T	2278471	3	4	67	1	0	0	0	0	1	0	0	0	4874	623	22	3	262	3	E4F1	16	2278471	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	1440815	2278471	88076282	154	26611										
ZNF267	10308	broad.mit.edu	37	chr16	31896502	31896502	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gtcttgttgtctctaagccgGacctgatcacctttttggaa	9	10	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr16:31896502G>T	uc002ecs.3	+	3	360	c.151G>T	c.(151-153)GAC>TAC	p.D51Y		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	51	KRAB.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						CTCTAAGCCGGACCTGATCAC	0.398													8	51	---	---	---	---	PASS	T	31896502	T	T	31896502	3	4	67	1	0	0	0	0	1	0	0	0	17803	1174	41	2	161	2	ZNF267	16	31896502	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	29618031	31896502	58458251	155	26612										
CDH16	1014	broad.mit.edu	37	chr16	66943978	66943978	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ccacccaatgcagggccaagGtgaggtaggcatgggaacct	14	11	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr16:66943978G>T	uc002eql.2	-	16	2259	c.2186C>A	c.(2185-2187)ACC>AAC	p.T729N	CDH16_uc010cdy.2_Missense_Mutation_p.T707N|CDH16_uc002eqm.2_Missense_Mutation_p.T632N	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	729	Extracellular (Potential).|Ectodomain G.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		CAGGGCCAAGGTGAGGTAGGC	0.622													17	70	---	---	---	---	PASS	T	66943978	T	T	66943978	3	4	67	1	0	0	0	0	1	0	0	0	3101	1261	44	3	315	3	CDH16	16	66943978	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	35047476	66943978	23410775	156	26613										
ZFHX3	463	broad.mit.edu	37	chr16	72992281	72992281	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gcactttcgtcagcgaagtcCagcctcctgccgccctctgc	9	18	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr16:72992281C>T	uc002fck.2	-	2	2437	c.1764G>A	c.(1762-1764)CTG>CTA	p.L588L	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	588					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CAGCGAAGTCCAGCCTCCTGC	0.532													11	53	---	---	---	---	PASS	T	72992281	T	T	72992281	2	4	67	1	0	0	0	0	0	0	0	1	17631	581	21	3		3	ZFHX3	16	72992281	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	6048303	72992281	17362472	157	26614										
KIAA1609	57707	broad.mit.edu	37	chr16	84516199	84516199	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acgctctgcccgggctcaccAgtccgttcgggatcgtctgc	12	16	3	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr16:84516199A>G	uc002fib.2	-	6	1183	c.1076T>C	c.(1075-1077)CTG>CCG	p.L359P	KIAA1609_uc010vod.1_Missense_Mutation_p.L332P|KIAA1609_uc002fic.2_RNA	NM_020947	NP_065998	Q6P9B6	K1609_HUMAN	hypothetical protein LOC57707	359	TLD.						protein binding			ovary(2)	2						CGGGCTCACCAGTCCGTTCGG	0.602													5	54	---	---	---	---	PASS	G	84516199	G	G	84516199	3	3	67	1	0	0	0	0	1	0	0	0	8247	202	7	5	306	5	KIAA1609	16	84516199	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	11523918	84516199	5838554	158	26615										
ZNF778	197320	broad.mit.edu	37	chr16	89289672	89289672	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gatgtgatgctggaaaactaCgagaacctggcctcagtagg	13	8	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr16:89289672C>T	uc002fmv.2	+	4	564	c.225C>T	c.(223-225)TAC>TAT	p.Y75Y	ZNF778_uc010vpf.1_Intron|ZNF778_uc002fmw.1_Silent_p.Y5Y|ZNF778_uc010vpg.1_Intron	NM_182531	NP_872337	Q96MU6	ZN778_HUMAN	zinc finger protein 778	75	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0269)		TGGAAAACTACGAGAACCTGG	0.522													10	119	---	---	---	---	PASS	T	89289672	T	T	89289672	2	4	67	1	0	0	0	0	0	0	0	1	18148	547	19	1		1	ZNF778	16	89289672	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	4773473	89289672	1065081	159	26616										
KIAA0664	23277	broad.mit.edu	37	chr17	2598546	2598546	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tgaagatgtgcttggccgagCgggtgatgagttctccaatg	15	7	1	4			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr17:2598546C>A	uc002fuy.1	-	15	2542	c.2456G>T	c.(2455-2457)CGC>CTC	p.R819L	KIAA0664_uc002fux.1_Missense_Mutation_p.R752L|KIAA0664_uc010ckc.1_5'Flank	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	819							binding			breast(2)	2						CTTGGCCGAGCGGGTGATGAG	0.627													16	90	---	---	---	---	PASS	A	2598546	A	A	2598546	3	1	67	1	0	0	0	0	1	0	0	0	8189	768	27	1	1521	1	KIAA0664	17	2598546	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08		2598546	78596664	160	26617										
TP53	7157	broad.mit.edu	37	chr17	7577097	7577097	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctcttcctctgtgcgccggtCtctcccaggacaggcacaaa	9	16	3	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr17:7577097C>A	uc002gim.2	-	8	1035	c.841G>T	c.(841-843)GAC>TAC	p.D281Y	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.D281Y|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.D149Y|TP53_uc010cng.1_Missense_Mutation_p.D149Y|TP53_uc002gii.1_Missense_Mutation_p.D149Y|TP53_uc010cnh.1_Missense_Mutation_p.D281Y|TP53_uc010cni.1_Missense_Mutation_p.D281Y|TP53_uc002gij.2_Missense_Mutation_p.D281Y	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	281	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		D -> Y (in sporadic cancers; somatic mutation).|D -> E (in sporadic cancers; somatic mutation).|D -> V (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|DR -> EW (in sporadic cancers; somatic mutation).|D -> R (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|D -> G (in a brain tumor with no family history; germline mutation and in sporadic cancers; somatic mutation).|D -> A (in sporadic cancers; somatic mutation).|D -> N (in LFS; germline mutation and in sporadic cancers; somatic mutation).|D -> H (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.D281E(25)|p.D281H(19)|p.D281N(18)|p.D281G(10)|p.0?(7)|p.D281Y(6)|p.D281D(5)|p.D281V(3)|p.D281fs*63(2)|p.?(2)|p.R280_D281delRD(2)|p.D281A(2)|p.D281_R282>EW(2)|p.A276_R283delACPGRDRR(1)|p.A276fs*64(1)|p.D281fs*24(1)|p.R280fs*62(1)|p.G279fs*59(1)|p.F270_D281del12(1)|p.C275_R283delCACPGRDRR(1)|p.D281_R282insXX(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.V272_K292del21(1)|p.C275fs*20(1)|p.D281R(1)|p.D281_R282delDR(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)		GTGCGCCGGTCTCTCCCAGGA	0.547		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)			4	35	---	---	---	---	PASS	A	7577097	A	A	7577097	3	1	67	1	0	0	0	0	1	0	0	0	16378	913	32	2	445	2	TP53	17	7577097	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	4978551	7577097	73618113	161	26618										
MYH1	4619	broad.mit.edu	37	chr17	10408585	10408585	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tctcatctcgcatctcctctAggagccccagaagaccagct	7	16	4	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr17:10408585A>G	uc002gmo.2	-	21	2424	c.2330T>C	c.(2329-2331)CTA>CCA	p.L777P	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	777	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CATCTCCTCTAGGAGCCCCAG	0.473													17	50	---	---	---	---	PASS	G	10408585	G	G	10408585	3	3	67	1	0	0	0	0	1	0	0	0	10029	420	15	5	3569	5	MYH1	17	10408585	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	2831488	10408585	70786625	162	26619										
MYOCD	93649	broad.mit.edu	37	chr17	12656471	12656471	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gagtcctcagatcaaaccaaTgtactttcttccacatttct	4	12	4	1	rs113274254	byFrequency	TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr17:12656471T>A	uc002gnn.2	+	10	2165	c.1866T>A	c.(1864-1866)AAT>AAA	p.N622K	MYOCD_uc002gno.2_Missense_Mutation_p.N622K|MYOCD_uc002gnp.1_Missense_Mutation_p.N526K|MYOCD_uc002gnq.2_Missense_Mutation_p.N341K	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	622					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		ATCAAACCAATGTACTTTCTT	0.537													37	143	---	---	---	---	PASS	A	12656471	A	A	12656471	3	1	67	1	0	0	0	0	1	0	0	0	10087	1461	51	5	1904	5	MYOCD	17	12656471	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	2247886	12656471	68538739	163	26620										
PSMD3	5709	broad.mit.edu	37	chr17	38142893	38142893	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aaagctgcgtcgacacccctCctgcctgaagtggaagccta	10	14	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr17:38142893C>G	uc002htn.1	+	3	641	c.477C>G	c.(475-477)CTC>CTG	p.L159L	PSMD3_uc010wen.1_RNA|PSMD3_uc010weo.1_Silent_p.L60L	NM_002809	NP_002800	O43242	PSMD3_HUMAN	proteasome 26S non-ATPase subunit 3	159					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	enzyme regulator activity|protein binding			ovary(1)|pancreas(1)	2	Colorectal(19;0.000442)					CGACACCCCTCCTGCCTGAAG	0.527													27	167	---	---	---	---	PASS	G	38142893	G	G	38142893	2	3	67	1	0	0	0	0	0	0	0	1	12699	842	30	2		2	PSMD3	17	38142893	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	25486422	38142893	43052317	164	26621										
MED24	9862	broad.mit.edu	37	chr17	38179470	38179470	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ggagcggctgtccacccagcCcttctccagcaccttggcaa	10	17	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr17:38179470C>A	uc002htt.2	-	20	2477	c.2164G>T	c.(2164-2166)GGC>TGC	p.G722C	MED24_uc010weq.1_5'Flank|MED24_uc002htr.2_5'Flank|MED24_uc010wer.1_Missense_Mutation_p.G57C|MED24_uc010wes.1_Missense_Mutation_p.G582C|MED24_uc010wet.1_Intron|MED24_uc002hts.2_Missense_Mutation_p.G747C|MED24_uc002htu.2_Missense_Mutation_p.G709C|MED24_uc010cwn.2_Missense_Mutation_p.G709C|MED24_uc010weu.1_Missense_Mutation_p.G632C|MED24_uc010wev.1_Missense_Mutation_p.G672C|MED24_uc010wew.1_Missense_Mutation_p.G663C	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	722					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)					TCCACCCAGCCCTTCTCCAGC	0.587													7	43	---	---	---	---	PASS	A	38179470	A	A	38179470	3	1	67	1	0	0	0	0	1	0	0	0	9442	623	22	3	833	3	MED24	17	38179470	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	36577	38179470	43015740	165	26622										
SLC4A1	6521	broad.mit.edu	37	chr17	42337271	42337271	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcaggactgcaggcttcacaCcccccagggcctccagctct	9	18	3	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr17:42337271C>A	uc002igf.3	-	7	664	c.515G>T	c.(514-516)GGT>GTT	p.G172V	SLC4A1_uc002igg.3_Missense_Mutation_p.G172V	NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	172	Cytoplasmic.				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		AGGCTTCACACCCCCCAGGGC	0.602													13	85	---	---	---	---	PASS	A	42337271	A	A	42337271	3	1	67	1	0	0	0	0	1	0	0	0	14650	507	18	3	2276	3	SLC4A1	17	42337271	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	4157801	42337271	38857939	166	26623										
IGF2BP1	10642	broad.mit.edu	37	chr17	47122358	47122358	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctttttgctttttagattgcAccacccgaaacacctgactc	5	13	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr17:47122358A>T	uc002iom.2	+	12	1660	c.1326A>T	c.(1324-1326)GCA>GCT	p.A442A	IGF2BP1_uc010dbj.2_Silent_p.A303A	NM_006546	NP_006537	Q9NZI8	IF2B1_HUMAN	insulin-like growth factor 2 mRNA binding	442	KH 3.|Necessary for interaction with ELAVL4 and binding to TAU mRNA (By similarity).				CRD-mediated mRNA stabilization|negative regulation of translation|regulation of mRNA stability involved in response to stress	CRD-mediated mRNA stability complex|cytosol|dendritic spine|lamellipodium|nucleus|plasma membrane|stress granule	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			kidney(1)	1						TTTAGATTGCACCACCCGAAA	0.483													18	127	---	---	---	---	PASS	T	47122358	T	T	47122358	2	4	67	1	0	0	0	0	0	0	0	1	7573	146	6	5		5	IGF2BP1	17	47122358	Silent	SNP	A	TCGA-34-5232-01A-21D-1817-08	4785087	47122358	34072852	167	26624										
USP32	84669	broad.mit.edu	37	chr17	58257998	58257998	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acccagaattcctgaatggcActgtaagagataagagagtg	11	7	0	4	rs1142734		TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr17:58257998A>G	uc002iyo.1	-	33	4835	c.4549T>C	c.(4549-4551)TGC>CGC	p.C1517R	USP32_uc002iyn.1_Missense_Mutation_p.C1187R	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	1517					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			CCTGAATGGCACTGTAAGAGA	0.443													4	89	---	---	---	---	PASS	G	58257998	G	G	58257998	3	3	67	1	0	0	0	0	1	0	0	0	17060	173	6	5	273	5	USP32	17	58257998	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	11135640	58257998	22937212	168	26625										
EVPL	2125	broad.mit.edu	37	chr17	74011538	74011538	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ccagagcactcacttctcccCgtagaggctgcacagaacct	8	16	2	3	rs149246710		TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr17:74011538C>G	uc002jqi.2	-	15	2110	c.1882G>C	c.(1882-1884)GGG>CGG	p.G628R	EVPL_uc010wss.1_Missense_Mutation_p.G650R|EVPL_uc010wst.1_Missense_Mutation_p.G98R	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	628	Globular 1.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CACTTCTCCCCGTAGAGGCTG	0.667													14	67	---	---	---	---	PASS	G	74011538	G	G	74011538	3	3	67	1	0	0	0	0	1	0	0	0	5292	652	23	4	4251	4	EVPL	17	74011538	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	15753540	74011538	7183672	169	26626										
SLC14A2	8170	broad.mit.edu	37	chr18	43217030	43217030	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttcactctgcccttcaacatTgcagtcaccttgtaccttgc	5	15	4	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr18:43217030T>C	uc010dnj.2	+	7	1047	c.726T>C	c.(724-726)ATT>ATC	p.I242I	SLC14A2_uc002lbb.2_Silent_p.I242I|SLC14A2_uc002lbe.2_Silent_p.I242I	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	242	Helical; (Potential).					apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						CCTTCAACATTGCAGTCACCT	0.517													31	187	---	---	---	---	PASS	C	43217030	C	C	43217030	2	2	67	1	0	0	0	0	0	0	0	1	14397	1800	63	5		5	SLC14A2	18	43217030	Silent	SNP	T	TCGA-34-5232-01A-21D-1817-08		43217030	34860218	170	26627										
MALT1	10892	broad.mit.edu	37	chr18	56348415	56348415	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctttcagttgcctagacctgGagcagtgttctcttaaggta	10	9	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr18:56348415G>T	uc002lhm.1	+	2	481	c.223G>T	c.(223-225)GAG>TAG	p.E75*	MALT1_uc002lhn.1_Nonsense_Mutation_p.E75*	NM_006785	NP_006776	Q9UDY8	MALT1_HUMAN	mucosa associated lymphoid tissue lymphoma	75	Death.				activation of NF-kappaB-inducing kinase activity|anti-apoptosis|nuclear export|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of protein ubiquitination|positive regulation of T cell cytokine production|protein oligomerization|proteolysis|T cell receptor signaling pathway	CBM complex|cytosol|nucleus|perinuclear region of cytoplasm	cysteine-type endopeptidase activity|protein self-association|signal transducer activity|ubiquitin-protein ligase activity			ovary(2)|lung(1)|central_nervous_system(1)	4						CCTAGACCTGGAGCAGTGTTC	0.468			T	BIRC3	MALT								12	134	---	---	---	---	PASS	T	56348415	T	T	56348415	4	4	67	1	0	0	0	0	0	1	0	0	9202	1175	41	2	229	2	MALT1	18	56348415	Nonsense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	13131385	56348415	21728833	171	26628										
RTTN	25914	broad.mit.edu	37	chr18	67794916	67794916	+	Missense_Mutation	SNP	C	A	A													0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gcagtcctgcagcccactagCcatgtgtgttatcttcagag							TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr18:67794916C>A	uc002lkp.2	-	25	3273	c.3205G>T	c.(3205-3207)GCT>TCT	p.A1069S	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.A157S	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1069							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				AGCCCACTAGCCATGTGTGTT	0.428													11	75	---	---	---	---	PASS	A	67794916	A	A	67794916	3	1	67	1	0	0	0	0	1	0	0	0	13737	739	26	3	3575	3	RTTN	18	67794916	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	11446501	67794916	10282332	172	26629	557	2								
RTTN	25914	broad.mit.edu	37	chr18	67794917	67794917	+	Missense_Mutation	SNP	C	A	A													0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cagtcctgcagcccactagcCatgtgtgttatcttcagagt							TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr18:67794917C>A	uc002lkp.2	-	25	3272	c.3204G>T	c.(3202-3204)ATG>ATT	p.M1068I	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.M156I	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1068							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				GCCCACTAGCCATGTGTGTTA	0.428													12	74	---	---	---	---	PASS	A	67794917	A	A	67794917	3	1	67	1	0	0	0	0	1	0	0	0	13737	594	21	3	3576	3	RTTN	18	67794917	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	1	67794917	10282331	173	26630	557	2								
NETO1	81832	broad.mit.edu	37	chr18	70417577	70417577	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gcatttggaagatgacctccGcagtttatggtaattttcaa	9	7	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr18:70417577G>T	uc002lkw.2	-	9	1545	c.1261C>A	c.(1261-1263)CGG>AGG	p.R421R	NETO1_uc002lkx.1_Silent_p.R420R|NETO1_uc002lky.1_Silent_p.R421R	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	421	Cytoplasmic (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		GATGACCTCCGCAGTTTATGG	0.458													6	47	---	---	---	---	PASS	T	70417577	T	T	70417577	2	4	67	1	0	0	0	0	0	0	0	1	10339	1086	38	1		1	NETO1	18	70417577	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	2622660	70417577	7659671	174	26631										
ZNF442	79973	broad.mit.edu	37	chr19	12461632	12461632	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tctccccagtgtgtgttcttTcatgtcttagataggaactg	9	9	4	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:12461632T>C	uc002mtr.1	-	6	1378	c.767A>G	c.(766-768)GAA>GGA	p.E256G	ZNF442_uc010xmk.1_Missense_Mutation_p.E187G	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	256	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						GTGTGTTCTTTCATGTCTTAG	0.403													39	181	---	---	---	---	PASS	C	12461632	C	C	12461632	3	2	67	1	0	0	0	0	1	0	0	0	17912	1783	62	5	1120	5	ZNF442	19	12461632	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08		12461632	46667351	175	26632										
CACNA1A	773	broad.mit.edu	37	chr19	13470527	13470527	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cccgttgttgggcccttcccAgtagggctgacatttggtcc	12	13	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:13470527A>G	uc010dze.2	-	6	1107	c.871T>C	c.(871-873)TGG>CGG	p.W291R	CACNA1A_uc002mwy.3_Missense_Mutation_p.W291R	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	291	I.|Extracellular (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	GGCCCTTCCCAGTAGGGCTGA	0.547													5	11	---	---	---	---	PASS	G	13470527	G	G	13470527	3	3	67	1	0	0	0	0	1	0	0	0	2538	188	7	5	6931	5	CACNA1A	19	13470527	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	1008895	13470527	45658456	176	26633										
MAST3	23031	broad.mit.edu	37	chr19	18233561	18233561	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acacccagctccaccctctcGgtacccatagccccaccttg	5	21	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:18233561G>A	uc002nhz.3	+	5	312	c.312G>A	c.(310-312)TCG>TCA	p.S104S		NM_015016	NP_055831	O60307	MAST3_HUMAN	microtubule associated serine/threonine kinase	104	Poly-Ser.						ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			large_intestine(2)|ovary(2)|stomach(1)	5						CCACCCTCTCGGTACCCATAG	0.547													4	18	---	---	---	---	PASS	A	18233561	A	A	18233561	2	1	67	1	0	0	0	0	0	0	0	1	9326	1130	39	1		1	MAST3	19	18233561	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	4763034	18233561	40895422	177	26634										
PIK3R2	5296	broad.mit.edu	37	chr19	18277949	18277949	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ccctcccacaggatcctgctGaactccgagcggctcaagtc	9	17	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:18277949G>T	uc002nia.1	+	13	2081	c.1569G>T	c.(1567-1569)CTG>CTT	p.L523L	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	523					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						GGATCCTGCTGAACTCCGAGC	0.478													3	37	---	---	---	---	PASS	T	18277949	T	T	18277949	2	4	67	1	0	0	0	0	0	0	0	1	11919	1277	45	2		2	PIK3R2	19	18277949	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	44388	18277949	40851034	178	26635										
ZNF626	199777	broad.mit.edu	37	chr19	20807460	20807460	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gtgtagtaaggttagaggagTacttaaaagctttgccacat	11	5	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:20807460T>C	uc002npb.1	-	4	1373	c.1223A>G	c.(1222-1224)TAC>TGC	p.Y408C	ZNF626_uc002npc.1_Missense_Mutation_p.Y332C	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	408	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GTTAGAGGAGTACTTAAAAGC	0.408													3	103	---	---	---	---	PASS	C	20807460	C	C	20807460	3	2	67	1	0	0	0	0	1	0	0	0	18047	1638	57	5	367	5	ZNF626	19	20807460	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	2529511	20807460	38321523	179	26636										
ZNF676	163223	broad.mit.edu	37	chr19	22363491	22363491	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aggatcgattaaaagctttcCcgcattcttcacatttgtag	7	9	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:22363491C>G	uc002nqs.1	-	3	1346	c.1028G>C	c.(1027-1029)GGG>GCG	p.G343A		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	343	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				AAAAGCTTTCCCGCATTCTTC	0.408													11	92	---	---	---	---	PASS	G	22363491	G	G	22363491	3	3	67	1	0	0	0	0	1	0	0	0	18080	623	22	4	742	4	ZNF676	19	22363491	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	1556031	22363491	36765492	180	26637										
ZNF536	9745	broad.mit.edu	37	chr19	30934833	30934833	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cccagatgagcgacatcgagGacgacgcccgcaagaaccgc	12	15	0	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:30934833G>T	uc002nsu.1	+	2	502	c.364G>T	c.(364-366)GAC>TAC	p.D122Y	ZNF536_uc010edd.1_Missense_Mutation_p.D122Y	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	122					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CGACATCGAGGACGACGCCCG	0.642													7	20	---	---	---	---	PASS	T	30934833	T	T	30934833	3	4	67	1	0	0	0	0	1	0	0	0	17971	1174	41	2	366	2	ZNF536	19	30934833	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	8571342	30934833	28194150	181	26638										
ZNF536	9745	broad.mit.edu	37	chr19	31040279	31040279	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttggcgggcctgccaaagccGgagcgggggccccagagcct	17	14	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:31040279G>A	uc002nsu.1	+	4	3891	c.3753G>A	c.(3751-3753)CCG>CCA	p.P1251P	ZNF536_uc010edd.1_Silent_p.P1251P	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1251					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TGCCAAAGCCGGAGCGGGGGC	0.607													7	33	---	---	---	---	PASS	A	31040279	A	A	31040279	2	1	67	1	0	0	0	0	0	0	0	1	17971	1103	39	1		1	ZNF536	19	31040279	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	105446	31040279	28088704	182	26639										
DMKN	93099	broad.mit.edu	37	chr19	36004032	36004032	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcgaatgacatcttctgcctGtctgccaatctcgtgcccag	8	14	4	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:36004032G>T	uc002nzm.3	-	1	529	c.346C>A	c.(346-348)CAG>AAG	p.Q116K	DMKN_uc002nzj.2_5'Flank|DMKN_uc002nzk.3_5'Flank|DMKN_uc002nzl.3_5'Flank|DMKN_uc002nzo.3_Missense_Mutation_p.Q116K|DMKN_uc002nzn.3_Missense_Mutation_p.Q116K|DMKN_uc002nzw.2_5'Flank|DMKN_uc002nzr.2_5'Flank|DMKN_uc002nzp.2_5'Flank|DMKN_uc002nzq.2_5'Flank|DMKN_uc002nzt.2_5'Flank|DMKN_uc002nzs.2_5'Flank|DMKN_uc002nzu.2_5'Flank|DMKN_uc002nzv.2_5'Flank|DMKN_uc010xsv.1_5'Flank|DMKN_uc010xsw.1_5'Flank|DMKN_uc002nzx.3_5'Flank|DMKN_uc002nzy.3_5'Flank|DMKN_uc002nzz.2_5'Flank|DMKN_uc002oac.3_Missense_Mutation_p.Q116K|DMKN_uc010eeb.2_Missense_Mutation_p.Q116K|DMKN_uc002oaa.3_Missense_Mutation_p.Q116K|DMKN_uc002oab.3_Missense_Mutation_p.Q116K	NM_033317	NP_201574	Q6E0U4	DMKN_HUMAN	dermokine isoform 2 precursor	116	Gly-rich.					extracellular region				large_intestine(1)|ovary(1)|skin(1)	3	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			TCTTCTGCCTGTCTGCCAATC	0.617													8	52	---	---	---	---	PASS	T	36004032	T	T	36004032	3	4	67	1	0	0	0	0	1	0	0	0	4582	1386	48	3	1465	3	DMKN	19	36004032	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	4963753	36004032	23124951	183	26640										
ATP4A	495	broad.mit.edu	37	chr19	36050049	36050049	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gcctccaggttcttgaccacGcagttcttactggccaggcg	11	14	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:36050049G>A	uc002oal.1	-	8	1130	c.1101C>T	c.(1099-1101)TGC>TGT	p.C367C	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	367	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	TCTTGACCACGCAGTTCTTAC	0.617													24	205	---	---	---	---	PASS	A	36050049	A	A	36050049	2	1	67	1	0	0	0	0	0	0	0	1	1145	1079	38	1		1	ATP4A	19	36050049	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	46017	36050049	23078934	184	26641										
ZNF461	92283	broad.mit.edu	37	chr19	37129641	37129641	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agtctgatgtaagttaagttGtaatctatgattaaacgcct	8	5	2	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:37129641G>C	uc002oem.2	-	6	1834	c.1606C>G	c.(1606-1608)CAA>GAA	p.Q536E	ZNF461_uc002oen.2_Missense_Mutation_p.Q505E|ZNF461_uc010xtj.1_Missense_Mutation_p.Q513E	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	536	C2H2-type 12; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AAGTTAAGTTGTAATCTATGA	0.428													8	54	---	---	---	---	PASS	C	37129641	C	C	37129641	3	2	67	1	0	0	0	0	1	0	0	0	17922	1386	48	4	89	4	ZNF461	19	37129641	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	1079592	37129641	21999342	185	26642										
EID2	163126	broad.mit.edu	37	chr19	40030304	40030304	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gtgggtggcggagacggagaTagggcaacgcagccaggcct	19	9	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:40030304T>A	uc002oma.2	-	1	535	c.416A>T	c.(415-417)TAT>TTT	p.Y139F		NM_153232	NP_694964	Q8N6I1	EID2_HUMAN	CREBBP/EP300 inhibitor 2	139					cell differentiation|muscle organ development|negative regulation of transcription, DNA-dependent|negative regulation of transforming growth factor beta receptor signaling pathway|regulation of cell proliferation|SMAD protein complex assembly|transcription, DNA-dependent|transforming growth factor beta receptor complex assembly	nucleus	SMAD binding				0	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;3.2e-25)|all cancers(26;8.83e-23)|LUSC - Lung squamous cell carcinoma(53;0.00281)			GAGACGGAGATAGGGCAACGC	0.607													21	134	---	---	---	---	PASS	A	40030304	A	A	40030304	3	1	67	1	0	0	0	0	1	0	0	0	4987	1406	49	5	298	5	EID2	19	40030304	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	2900663	40030304	19098679	186	26643										
CEACAM5	1048	broad.mit.edu	37	chr19	42219050	42219050	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cccaggctgcagctgtccaaTggcaacaggaccctcactct	9	16	2	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:42219050T>C	uc002ork.2	+	3	706	c.585T>C	c.(583-585)AAT>AAC	p.N195N	CEACAM5_uc010ehz.1_Silent_p.N195N|CEACAM5_uc002orj.1_Silent_p.N195N|CEACAM5_uc002orl.2_Silent_p.N195N	NM_004363	NP_004354	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion	195	Ig-like 2.					anchored to membrane|basolateral plasma membrane|integral to plasma membrane				skin(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		AGCTGTCCAATGGCAACAGGA	0.532													25	202	---	---	---	---	PASS	C	42219050	C	C	42219050	2	2	67	1	0	0	0	0	0	0	0	1	3195	1461	51	5		5	CEACAM5	19	42219050	Silent	SNP	T	TCGA-34-5232-01A-21D-1817-08	2188746	42219050	16909933	187	26644										
PSG4	5672	broad.mit.edu	37	chr19	43698611	43698611	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ggatagagagcttttgtcctGatagctgaaacttcccatta	9	8	0	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:43698611G>C	uc002ovy.2	-	5	1226	c.1124C>G	c.(1123-1125)TCA>TGA	p.S375*	PSG6_uc010xwk.1_Intron|PSG4_uc002owa.2_RNA|PSG4_uc002owb.2_Nonsense_Mutation_p.S282*|PSG4_uc002ovz.2_Nonsense_Mutation_p.S282*	NM_002780	NP_002771	Q00888	PSG4_HUMAN	pregnancy specific beta-1-glycoprotein 4 isoform	375	Ig-like C2-type 3.				defense response|female pregnancy	extracellular region				ovary(1)	1		Prostate(69;0.00682)				CTTTTGTCCTGATAGCTGAAA	0.463													39	271	---	---	---	---	PASS	C	43698611	C	C	43698611	4	2	67	1	0	0	0	0	0	1	0	0	12657	1294	45	2	143	2	PSG4	19	43698611	Nonsense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	1479561	43698611	15430372	188	26645										
LIG1	3978	broad.mit.edu	37	chr19	48619186	48619186	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttcacggactcgaataaaccGagggaagcgaagggagatgc	14	8	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:48619186G>A	uc002pia.1	-	27	2740	c.2620C>T	c.(2620-2622)CGG>TGG	p.R874W	LIG1_uc010xze.1_Missense_Mutation_p.R567W|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.R806W|LIG1_uc010xzg.1_Missense_Mutation_p.R843W	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	874					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	CGAATAAACCGAGGGAAGCGA	0.652								NER					3	31	---	---	---	---	PASS	A	48619186	A	A	48619186	3	1	67	1	0	0	0	0	1	0	0	0	8781	1057	37	2	147	2	LIG1	19	48619186	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	4920575	48619186	10509797	189	26646										
ZNF320	162967	broad.mit.edu	37	chr19	53384206	53384206	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gcttttgtactaaaaaccttGccacattcattacatgtgta	5	9	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:53384206G>C	uc002qag.2	-	4	1364	c.1173C>G	c.(1171-1173)GGC>GGG	p.G391G	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Silent_p.G337G|ZNF320_uc002qai.2_Silent_p.G391G	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	391	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		TAAAAACCTTGCCACATTCAT	0.398													13	98	---	---	---	---	PASS	C	53384206	C	C	53384206	2	2	67	1	0	0	0	0	0	0	0	1	17836	1306	46	4		4	ZNF320	19	53384206	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	4765020	53384206	5744777	190	26647										
RPS9	6203	broad.mit.edu	37	chr19	54711428	54711428	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ggggctggggctggagacgaCgaggaggaggattaagtcca	20	6	0	1	rs142681896		TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:54711428C>T	uc002qdx.2	+	5	626	c.570C>T	c.(568-570)GAC>GAT	p.D190D	RPS9_uc002qdy.2_3'UTR|RPS9_uc002qdz.2_Silent_p.D190D|RPS9_uc002qea.2_Silent_p.D190D|RPS9_uc002qeb.2_3'UTR|RPS9_uc002qec.2_RNA|RPS9_uc002qed.1_3'UTR	NM_001013	NP_001004	P46781	RS9_HUMAN	ribosomal protein S9	190					endocrine pancreas development|positive regulation of cell proliferation|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding|rRNA binding|structural constituent of ribosome|translation regulator activity			breast(1)	1	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.18)		CTGGAGACGACGAGGAGGAGG	0.602													4	18	---	---	---	---	PASS	T	54711428	T	T	54711428	2	4	67	1	0	0	0	0	0	0	0	1	13662	535	19	1		1	RPS9	19	54711428	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	1327222	54711428	4417555	191	26648										
LILRA4	23547	broad.mit.edu	37	chr19	54849409	54849409	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ccttcctcaatcagagtgaaCctgcccagtcccagccgtga	8	16	2	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:54849409C>T	uc002qfj.2	-	4	510	c.453G>A	c.(451-453)AGG>AGA	p.R151R	LILRA4_uc002qfi.2_Silent_p.R85R	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	151	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		TCAGAGTGAACCTGCCCAGTC	0.612													8	59	---	---	---	---	PASS	T	54849409	T	T	54849409	2	4	67	1	0	0	0	0	0	0	0	1	8787	506	18	3		3	LILRA4	19	54849409	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	137981	54849409	4279574	192	26649										
ZNF71	58491	broad.mit.edu	37	chr19	57133945	57133945	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tacctcatcgagcaccagcgGatccacaccggcgagaagcc	10	16	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr19:57133945G>T	uc002qnm.3	+	3	1528	c.1290G>T	c.(1288-1290)CGG>CGT	p.R430R		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	430	C2H2-type 11.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		AGCACCAGCGGATCCACACCG	0.637													7	59	---	---	---	---	PASS	T	57133945	T	T	57133945	2	4	67	1	0	0	0	0	0	0	0	1	18111	1161	41	2		2	ZNF71	19	57133945	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	2284536	57133945	1995038	193	26650										
TRMT6	51605	broad.mit.edu	37	chr20	5922668	5922668	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctctgctcttcttgtctcctCtgtttttcctgaatcttcaa	4	13	7	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr20:5922668C>G	uc002wmh.1	-	8	1163	c.1041G>C	c.(1039-1041)CAG>CAC	p.Q347H	TRMT6_uc010zra.1_Missense_Mutation_p.Q177H|TRMT6_uc010gbn.1_3'UTR	NM_015939	NP_057023	Q9UJA5	TRM6_HUMAN	tRNA methyltransferase 6	347					regulation of translational initiation|tRNA processing	nucleus	protein binding|translation initiation factor activity			pancreas(1)	1						CTTGTCTCCTCTGTTTTTCCT	0.423													35	180	---	---	---	---	PASS	G	5922668	G	G	5922668	3	3	67	1	0	0	0	0	1	0	0	0	16565	912	32	2	468	2	TRMT6	20	5922668	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08		5922668	57102852	194	26651										
PAX1	5075	broad.mit.edu	37	chr20	21689949	21689949	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ggcgtgtacagcgccccgggCggcggctacctcgccccggg	17	17	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr20:21689949C>A	uc002wsj.2	+	4	1203	c.1149C>A	c.(1147-1149)GGC>GGA	p.G383G	PAX1_uc010zsl.1_Silent_p.G383G|PAX1_uc010zsm.1_Silent_p.G359G	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	383					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding	p.A383A(1)		upper_aerodigestive_tract(1)|kidney(1)	2						GCGCCCCGGGCGGCGGCTACC	0.761													9	49	---	---	---	---	PASS	A	21689949	A	A	21689949	2	1	67	1	0	0	0	0	0	0	0	1	11478	755	27	1		1	PAX1	20	21689949	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	15767281	21689949	41335571	195	26652										
ASXL1	171023	broad.mit.edu	37	chr20	31024148	31024148	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aaggcagtcccaagttttgaCtccctccatccagtgacaaa	7	13	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr20:31024148C>A	uc002wxs.2	+	12	4059	c.3633C>A	c.(3631-3633)GAC>GAA	p.D1211E	ASXL1_uc010geb.2_Missense_Mutation_p.D1102E	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	1211					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						CAAGTTTTGACTCCCTCCATC	0.488			F|N|Mis		MDS|CMML								3	103	---	---	---	---	PASS	A	31024148	A	A	31024148	3	1	67	1	0	0	0	0	1	0	0	0	1066	564	20	3	3689	3	ASXL1	20	31024148	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	9334199	31024148	32001372	196	26653										
CEP250	11190	broad.mit.edu	37	chr20	34099248	34099248	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aagcagaagcaggactacatCacccgctcagcacagaccag	9	14	2	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr20:34099248C>T	uc002xcm.2	+	36	7793	c.7122C>T	c.(7120-7122)ATC>ATT	p.I2374I	CEP250_uc010zve.1_Silent_p.I1742I	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	2374	Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			AGGACTACATCACCCGCTCAG	0.597													10	44	---	---	---	---	PASS	T	34099248	T	T	34099248	2	4	67	1	0	0	0	0	0	0	0	1	3252	816	29	2		2	CEP250	20	34099248	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	3075100	34099248	28926272	197	26654										
EDN3	1908	broad.mit.edu	37	chr20	57876615	57876615	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tggcgaggggactgtggcccCgacagcactgcagggtccaa	16	12	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr20:57876615C>T	uc002yap.2	+	2	572	c.203C>T	c.(202-204)CCG>CTG	p.P68L	EDN3_uc002yao.1_Missense_Mutation_p.P68L|EDN3_uc002yaq.2_Missense_Mutation_p.P68L|EDN3_uc002yar.2_Missense_Mutation_p.P68L|EDN3_uc002yas.2_Missense_Mutation_p.P68L	NM_000114	NP_000105	P14138	EDN3_HUMAN	endothelin 3 isoform 1 preproprotein	68					cell surface receptor linked signaling pathway|inositol phosphate-mediated signaling|neutrophil chemotaxis|peptide hormone secretion|positive regulation of heart rate|positive regulation of hormone secretion|positive regulation of leukocyte chemotaxis|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	extracellular space|soluble fraction	endothelin B receptor binding|hormone activity			skin(1)	1	all_lung(29;0.0115)					ACTGTGGCCCCGACAGCACTG	0.701													11	53	---	---	---	---	PASS	T	57876615	T	T	57876615	3	4	67	1	0	0	0	0	1	0	0	0	4918	652	23	1	209	1	EDN3	20	57876615	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	23777367	57876615	5148905	198	26655										
TMPRSS15	5651	broad.mit.edu	37	chr21	19716282	19716282	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tacaacataccagaaactaaGgcaagctggctccaaagtgg	9	10	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr21:19716282G>T	uc002ykw.2	-	11	1298	c.1267C>A	c.(1267-1269)CTT>ATT	p.L423I		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	423	Extracellular (Potential).|MAM.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						CAGAAACTAAGGCAAGCTGGC	0.463													28	172	---	---	---	---	PASS	T	19716282	T	T	19716282	3	4	67	1	0	0	0	0	1	0	0	0	16243	1000	35	3	1852	3	TMPRSS15	21	19716282	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08		19716282	28413613	199	26656										
HUNK	30811	broad.mit.edu	37	chr21	33370927	33370927	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gagttcatccccgtgccaccGcccaggaccccgaggattgt	11	16	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr21:33370927G>T	uc002yph.2	+	11	1935	c.1575G>T	c.(1573-1575)CCG>CCT	p.P525P		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	525					multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						CCGTGCCACCGCCCAGGACCC	0.572													16	80	---	---	---	---	PASS	T	33370927	T	T	33370927	2	4	67	1	0	0	0	0	0	0	0	1	7458	1074	38	1		1	HUNK	21	33370927	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	13654645	33370927	14758968	200	26657										
DOPEY2	9980	broad.mit.edu	37	chr21	37618828	37618828	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctacggttacggcatgcatcCggcctgggtgagcttggtca	14	11	1	1	rs146690528		TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr21:37618828C>T	uc002yvg.2	+	19	4629	c.4550C>T	c.(4549-4551)CCG>CTG	p.P1517L	DOPEY2_uc011aeb.1_Missense_Mutation_p.P1466L|DOPEY2_uc002yvh.2_Missense_Mutation_p.P368L	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	1517					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						GGCATGCATCCGGCCTGGGTG	0.607													10	52	---	---	---	---	PASS	T	37618828	T	T	37618828	3	4	67	1	0	0	0	0	1	0	0	0	4708	652	23	1	4620	1	DOPEY2	21	37618828	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	4247901	37618828	10511067	201	26658										
TTC3	7267	broad.mit.edu	37	chr21	38512875	38512875	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttcaaggaattatctgaagcCgaaaaccagtttaagaggat	9	6	2	2	rs139032014	byFrequency	TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr21:38512875C>T	uc002yvz.2	+	20	1779	c.1674C>T	c.(1672-1674)GCC>GCT	p.A558A	TTC3_uc011aee.1_Silent_p.A248A|TTC3_uc002ywa.2_Silent_p.A558A|TTC3_uc002ywb.2_Silent_p.A558A|TTC3_uc010gnf.2_Silent_p.A323A|TTC3_uc002ywc.2_Silent_p.A248A|TTC3_uc011aed.1_Silent_p.A248A|TTC3_uc010gne.1_Silent_p.A558A	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	558	TPR 3.				protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				TATCTGAAGCCGAAAACCAGT	0.323													20	187	---	---	---	---	PASS	T	38512875	T	T	38512875	2	4	67	1	0	0	0	0	0	0	0	1	16694	639	23	1		1	TTC3	21	38512875	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	894047	38512875	9617020	202	26659										
RIPK4	54101	broad.mit.edu	37	chr21	43161931	43161931	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctctccacggccatgtgcaaCggggtggagcccctacggtt	13	14	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr21:43161931C>A	uc002yzn.1	-	8	1470	c.1422G>T	c.(1420-1422)CCG>CCT	p.P474P		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	474						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity	p.P474P(1)		ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						CCATGTGCAACGGGGTGGAGC	0.652													21	96	---	---	---	---	PASS	A	43161931	A	A	43161931	2	1	67	1	0	0	0	0	0	0	0	1	13383	523	19	1		1	RIPK4	21	43161931	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	4649056	43161931	4967964	203	26660										
KRTAP10-7	386675	broad.mit.edu	37	chr21	46021214	46021214	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acctcctccccctgccagcaGgcctgctgtgtgcctgtctg	10	18	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr21:46021214G>C	uc002zfn.3	+	2	703	c.678G>C	c.(676-678)CAG>CAC	p.Q226H	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198689	NP_941962	P60409	KR107_HUMAN	keratin associated protein 10-7	231	30 X 5 AA repeats of C-C-X(3).					keratin filament					0						CCTGCCAGCAGGCCTGCTGTG	0.657													5	193	---	---	---	---	PASS	C	46021214	C	C	46021214	3	2	67	1	0	0	0	0	1	0	0	0	8514	991	35	4	684	4	KRTAP10-7	21	46021214	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	2859283	46021214	2108681	204	26661										
LSS	4047	broad.mit.edu	37	chr21	47633740	47633740	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gcgcacaagcatgttgatggTtttcgagatctgcaggagag	14	7	1	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr21:47633740T>C	uc002zij.2	-	10	1100	c.1021A>G	c.(1021-1023)ACC>GCC	p.T341A	LSS_uc011afv.1_Missense_Mutation_p.T330A|LSS_uc002zil.2_Missense_Mutation_p.T341A|LSS_uc002zik.2_Missense_Mutation_p.T261A	NM_001001438	NP_001001438	P48449	ERG7_HUMAN	lanosterol synthase isoform 1	341					cholesterol biosynthetic process	endoplasmic reticulum membrane	lanosterol synthase activity				0	Breast(49;0.214)					ATGTTGATGGTTTTCGAGATC	0.602													5	20	---	---	---	---	PASS	C	47633740	C	C	47633740	3	2	67	1	0	0	0	0	1	0	0	0	9065	1725	60	5	1229	5	LSS	21	47633740	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	1612526	47633740	496155	205	26662										
MAPK12	6300	broad.mit.edu	37	chr22	50694044	50694044	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gctccccactcaccccttacCtcatcgctctgcagccgctg	6	21	3	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr22:50694044C>T	uc003bkm.1	-	9	922	c.771G>A	c.(769-771)GAG>GAA	p.E257E	MAPK12_uc003bkn.2_Silent_p.E76E|MAPK12_uc003bko.2_Silent_p.E167E|MAPK12_uc003bkl.1_Silent_p.E247E|MAPK12_uc003bkp.2_Silent_p.E42E|MAPK12_uc003bkq.2_Silent_p.E76E	NM_002969	NP_002960	P53778	MK12_HUMAN	mitogen-activated protein kinase 12	257	Protein kinase.				cell cycle arrest|DNA damage induced protein phosphorylation|muscle organ development|myoblast differentiation|nerve growth factor receptor signaling pathway|positive regulation of muscle cell differentiation|Ras protein signal transduction	mitochondrion|nucleoplasm	ATP binding|magnesium ion binding|MAP kinase activity|protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CACCCCTTACCTCATCGCTCT	0.622													14	105	---	---	---	---	PASS	T	50694044	T	T	50694044	2	4	67	1	0	0	0	0	0	0	0	1	9274	695	24	3		3	MAPK12	22	50694044	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08		50694044	610522	206	26663										
SBF1	6305	broad.mit.edu	37	chr22	50885628	50885628	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cactgctgggccgagggcacGtcctgggcacagaagttgta	15	11	0	1	rs146489206	by1000genomes	TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chr22:50885628G>A	uc003blh.2	-	41	5820	c.5625C>T	c.(5623-5625)GAC>GAT	p.D1875D	SBF1_uc003ble.2_Silent_p.D339D|SBF1_uc003blf.2_Silent_p.D351D|SBF1_uc011arx.1_Silent_p.D1513D	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1849	PH.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		CCGAGGGCACGTCCTGGGCAC	0.677													10	39	---	---	---	---	PASS	A	50885628	A	A	50885628	2	1	67	1	0	0	0	0	0	0	0	1	13858	1136	40	1		1	SBF1	22	50885628	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	191584	50885628	418938	207	26664										
NR0B1	190	broad.mit.edu	37	chrX	30327353	30327353	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ccaccccgggctcatcgccgCacgaacagccccagcactga	9	20	1	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:30327353C>A	uc004dcf.3	-	1	143	c.128G>T	c.(127-129)TGC>TTC	p.C43F		NM_000475	NP_000466	P51843	NR0B1_HUMAN	nuclear receptor subfamily 0, group B, member 1	43	4 X 67 AA tandem repeats.|1.				adrenal gland development|hypothalamus development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of steroid hormone receptor signaling pathway|pituitary gland development|protein localization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid biosynthetic process	cytoplasm|membrane fraction|nucleoplasm|nucleus|polysomal ribosome	AF-2 domain binding|DNA hairpin binding|ligand-regulated transcription factor activity|protein domain specific binding|protein homodimerization activity|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|steroid hormone receptor binding|transcription corepressor activity|transcription factor binding			ovary(1)|lung(1)	2					Dexamethasone(DB01234)|Tretinoin(DB00755)	CTCATCGCCGCACGAACAGCC	0.662													4	23	---	---	---	---	PASS	A	30327353	A	A	30327353	3	1	67	1	0	0	0	0	1	0	0	0	10613	710	25	3	1292	3	NR0B1	23	30327353	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08		30327353	124943207	208	26665										
ATP6AP2	10159	broad.mit.edu	37	chrX	40450618	40450618	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tttcgtaccctttggagaatGtgagtatttattataaaaaa	7	4	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:40450618G>T	uc004det.2	+	3	402	c.300_splice	c.e3+1	p.N100_splice	ATP6AP2_uc010nhc.2_Splice_Site|ATP6AP2_uc011mkl.1_Splice_Site_p.N24_splice|ATP6AP2_uc011mkm.1_Splice_Site_p.N100_splice|ATP6AP2_uc011mkn.1_Splice_Site_p.N100_splice	NM_005765	NP_005756	O75787	RENR_HUMAN	ATPase, H+ transporting, lysosomal accessory						angiotensin maturation|positive regulation of transforming growth factor-beta1 production|regulation of MAPKKK cascade	external side of plasma membrane|integral to membrane	protein binding|receptor activity				0						TTTGGAGAATGTGAGtattta	0.403													8	36	---	---	---	---	PASS	T	40450618	T	T	40450618	5	4	67	1	0	0	0	0	0	0	1	0	1167	1391	48	3	311	3	ATP6AP2	23	40450618	Splice_Site	SNP	G	TCGA-34-5232-01A-21D-1817-08	10123265	40450618	114819942	209	26666										
SSX5	6758	broad.mit.edu	37	chrX	48047124	48047124	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	taaatcaccagttgctttctCtcacgcactctgtgggtcca	7	13	4	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:48047124C>A	uc004dja.1	-	7	563	c.510G>T	c.(508-510)GAG>GAT	p.E170D	SSX5_uc004diz.1_Missense_Mutation_p.E211D	NM_175723	NP_783729	O60225	SSX5_HUMAN	synovial sarcoma, X breakpoint 5 isoform b	170					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding				0						GTTGCTTTCTCTCACGCACTC	0.502													74	440	---	---	---	---	PASS	A	48047124	A	A	48047124	3	1	67	1	0	0	0	0	1	0	0	0	15207	912	32	2	60	2	SSX5	23	48047124	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	7596506	48047124	107223436	210	26667										
OTUD5	55593	broad.mit.edu	37	chrX	48801472	48801472	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tacagcccggaagagacaggCgccatcctccttcatctgct	9	15	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:48801472C>T	uc004dlu.2	-	2	728	c.667G>A	c.(667-669)GCC>ACC	p.A223T	OTUD5_uc004dlt.3_Missense_Mutation_p.A223T|OTUD5_uc004dlv.2_Missense_Mutation_p.A223T|OTUD5_uc011mmp.1_Missense_Mutation_p.A6T	NM_017602	NP_060072	Q96G74	OTUD5_HUMAN	OTU domain containing 5 isoform a	223	OTU.				negative regulation of type I interferon production		cysteine-type peptidase activity			pancreas(1)	1						AAGAGACAGGCGCCATCCTCC	0.557													4	27	---	---	---	---	PASS	T	48801472	T	T	48801472	3	4	67	1	0	0	0	0	1	0	0	0	11315	768	27	1	1080	1	OTUD5	23	48801472	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	754348	48801472	106469088	211	26668										
KCND1	3750	broad.mit.edu	37	chrX	48825896	48825896	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tcgatgaggctcatgacactCcgcaggaagcggcaacggct	13	12	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:48825896C>A	uc004dlx.1	-	1	2356	c.783G>T	c.(781-783)CGG>CGT	p.R261R	KCND1_uc004dlw.1_5'Flank	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	261	Cytoplasmic (Potential).					voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						TCATGACACTCCGCAGGAAGC	0.577													3	28	---	---	---	---	PASS	A	48825896	A	A	48825896	2	1	67	1	0	0	0	0	0	0	0	1	8018	842	30	2		2	KCND1	23	48825896	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	24424	48825896	106444664	212	26669										
HUWE1	10075	broad.mit.edu	37	chrX	53611204	53611204	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttgctttcttccagcgtcttCtctagttcctgtccattgct	6	13	3	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:53611204C>A	uc004dsp.2	-	41	5505	c.5103G>T	c.(5101-5103)GAG>GAT	p.E1701D	HUWE1_uc004dsn.2_Missense_Mutation_p.E526D	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	1701					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CCAGCGTCTTCTCTAGTTCCT	0.413													19	145	---	---	---	---	PASS	A	53611204	A	A	53611204	3	1	67	1	0	0	0	0	1	0	0	0	7461	912	32	2	8197	2	HUWE1	23	53611204	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	4785308	53611204	101659356	213	26670										
TRO	7216	broad.mit.edu	37	chrX	54948716	54948716	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	actacggatatagggtgcctCtatttcaggtgaggcctctc	11	10	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:54948716C>G	uc004dtq.2	+	2	144	c.37C>G	c.(37-39)CTA>GTA	p.L13V	TRO_uc011moj.1_Intron|TRO_uc004dts.2_Missense_Mutation_p.L13V|TRO_uc004dtr.2_Missense_Mutation_p.L13V|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_RNA|TRO_uc004dtv.2_Missense_Mutation_p.L13V|TRO_uc011mok.1_Intron|TRO_uc004dtw.2_Missense_Mutation_p.L13V|TRO_uc004dtx.2_5'Flank	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	13					embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						TAGGGTGCCTCTATTTCAGGT	0.507													10	29	---	---	---	---	PASS	G	54948716	G	G	54948716	3	3	67	1	0	0	0	0	1	0	0	0	16571	912	32	2	39	2	TRO	23	54948716	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	1337512	54948716	100321844	214	26671										
EFNB1	1947	broad.mit.edu	37	chrX	68060180	68060180	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	actccaaggtggcattgttcGcggctgtcggtgccggttgc	15	11	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:68060180G>A	uc004dxd.3	+	5	1504	c.724G>A	c.(724-726)GCG>ACG	p.A242T	EFNB1_uc004dxe.2_Missense_Mutation_p.A242T	NM_004429	NP_004420	P98172	EFNB1_HUMAN	ephrin-B1 precursor	242	Helical; (Potential).				cell adhesion|cell-cell signaling	integral to plasma membrane|soluble fraction|synapse	ephrin receptor binding				0						GGCATTGTTCGCGGCTGTCGG	0.582													5	44	---	---	---	---	PASS	A	68060180	A	A	68060180	3	1	67	1	0	0	0	0	1	0	0	0	4955	1087	38	1	742	1	EFNB1	23	68060180	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	13111464	68060180	87210380	215	26672										
NAP1L2	4674	broad.mit.edu	37	chrX	72433953	72433953	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ttccctcaggaatttggattCtaaattggccgctctagttt	8	9	3	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:72433953C>T	uc004ebi.2	-	1	732	c.376G>A	c.(376-378)GAA>AAA	p.E126K	NAP1L2_uc011mqj.1_5'UTR	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	126					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					AATTTGGATTCTAAATTGGCC	0.373													13	132	---	---	---	---	PASS	T	72433953	T	T	72433953	3	4	67	1	0	0	0	0	1	0	0	0	10157	922	32	2	1010	2	NAP1L2	23	72433953	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	4373773	72433953	82836607	216	26673										
KIAA2022	340533	broad.mit.edu	37	chrX	73960441	73960441	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gcaatgttggacaagatataGgaaggctcctgaaattcccg	11	8	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:73960441G>T	uc004eby.2	-	3	4568	c.3951C>A	c.(3949-3951)TCC>TCA	p.S1317S		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1317					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						ACAAGATATAGGAAGGCTCCT	0.537													31	130	---	---	---	---	PASS	T	73960441	T	T	73960441	2	4	67	1	0	0	0	0	0	0	0	1	8269	987	35	3		3	KIAA2022	23	73960441	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	1526488	73960441	81310119	217	26674										
ZDHHC15	158866	broad.mit.edu	37	chrX	74649009	74649009	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	tgaaggaagaatttgtagttGgaaaatccaatgcagttatt	10	3	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:74649009G>T	uc004ecg.2	-	7	985	c.507C>A	c.(505-507)TCC>TCA	p.S169S	ZDHHC15_uc004ech.2_Silent_p.S160S|ZDHHC15_uc011mqo.1_Intron	NM_144969	NP_659406	Q96MV8	ZDH15_HUMAN	zinc finger, DHHC-type containing 15 isoform 1	169	DHHC-type.					integral to membrane	zinc ion binding			ovary(2)	2						ATTTGTAGTTGGAAAATCCAA	0.353													6	48	---	---	---	---	PASS	T	74649009	T	T	74649009	2	4	67	1	0	0	0	0	0	0	0	1	17602	1335	47	3		3	ZDHHC15	23	74649009	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	688568	74649009	80621551	218	26675										
RPS6KA6	27330	broad.mit.edu	37	chrX	83352800	83352800	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ccagccaacattgtgtaaaaAaggactcctaaactccagat	6	11	0	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:83352800A>G	uc004eej.1	-	19	1910	c.1833T>C	c.(1831-1833)CTT>CTC	p.L611L	RPS6KA6_uc011mqt.1_Silent_p.L611L|RPS6KA6_uc011mqu.1_Silent_p.L508L	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	611	Protein kinase 2.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TTGTGTAAAAAAGGACTCCTA	0.308													43	257	---	---	---	---	PASS	G	83352800	G	G	83352800	2	3	67	1	0	0	0	0	0	0	0	1	13655	1	1	5		5	RPS6KA6	23	83352800	Silent	SNP	A	TCGA-34-5232-01A-21D-1817-08	8703791	83352800	71917760	219	26676										
PCDH11X	27328	broad.mit.edu	37	chrX	91132779	91132779	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ctgatgctccacctgaattcAgcctggattgtcgtacaggc	10	12	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:91132779A>T	uc004efk.1	+	2	2385	c.1540A>T	c.(1540-1542)AGC>TGC	p.S514C	PCDH11X_uc004efl.1_Missense_Mutation_p.S514C|PCDH11X_uc004efo.1_Missense_Mutation_p.S514C|PCDH11X_uc010nmv.1_Missense_Mutation_p.S514C|PCDH11X_uc004efm.1_Missense_Mutation_p.S514C|PCDH11X_uc004efn.1_Missense_Mutation_p.S514C|PCDH11X_uc004efh.1_Missense_Mutation_p.S514C|PCDH11X_uc004efj.1_Missense_Mutation_p.S514C	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	514	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ACCTGAATTCAGCCTGGATTG	0.438													8	59	---	---	---	---	PASS	T	91132779	T	T	91132779	3	4	67	1	0	0	0	0	1	0	0	0	11508	188	7	5	1546	5	PCDH11X	23	91132779	Missense_Mutation	SNP	A	TCGA-34-5232-01A-21D-1817-08	7779979	91132779	64137781	220	26677										
PCDH19	57526	broad.mit.edu	37	chrX	99662031	99662031	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	acgccttggtctgctcgtggTtaaaggatcgcagcgcgtag	14	10	1	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:99662031T>A	uc010nmz.2	-	1	3241	c.1565A>T	c.(1564-1566)AAC>ATC	p.N522I	PCDH19_uc004efw.3_Missense_Mutation_p.N522I|PCDH19_uc004efx.3_Missense_Mutation_p.N522I	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	522	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CTGCTCGTGGTTAAAGGATCG	0.582													19	159	---	---	---	---	PASS	A	99662031	A	A	99662031	3	1	67	1	0	0	0	0	1	0	0	0	11514	1725	60	5	1905	5	PCDH19	23	99662031	Missense_Mutation	SNP	T	TCGA-34-5232-01A-21D-1817-08	8529252	99662031	55608529	221	26678										
RAB40AL	282808	broad.mit.edu	37	chrX	102192749	102192749	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	caacatcatagagtctttcaCggagctggccaggatagtgc	11	10	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:102192749C>T	uc004ejs.2	+	1	550	c.503C>T	c.(502-504)ACG>ATG	p.T168M		NM_001031834	NP_001027004	P0C0E4	RB40L_HUMAN	RAB40A, member RAS oncogene family-like	168					protein transport|small GTPase mediated signal transduction	mitochondrion|plasma membrane	GTP binding			ovary(2)	2						GAGTCTTTCACGGAGCTGGCC	0.612													8	39	---	---	---	---	PASS	T	102192749	T	T	102192749	3	4	67	1	0	0	0	0	1	0	0	0	12940	536	19	1	505	1	RAB40AL	23	102192749	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	2530718	102192749	53077811	222	26679										
NRK	203447	broad.mit.edu	37	chrX	105187985	105187985	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gctttgaaatcatcaattcaCctttatgcatgggcaccaaa	6	10	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:105187985C>T	uc004emd.2	+	24	4314	c.4011C>T	c.(4009-4011)CAC>CAT	p.H1337H		NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1337	CNH.						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						CATCAATTCACCTTTATGCAT	0.318										HNSCC(51;0.14)			3	21	---	---	---	---	PASS	T	105187985	T	T	105187985	2	4	67	1	0	0	0	0	0	0	0	1	10655	506	18	3		3	NRK	23	105187985	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	2995236	105187985	50082575	223	26680										
ANKRD58	347454	broad.mit.edu	37	chrX	118893503	118893503	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gcgtcgcggaccaaggcgaaGgacaccgcgggcagccgggt	18	13	0	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:118893503G>T	uc010nql.2	+	1	928	c.873G>T	c.(871-873)AAG>AAT	p.K291N		NM_001105576	NP_001099046	A6NJG2	ANR58_HUMAN	ankyrin repeat domain 58	291											0						CCAAGGCGAAGGACACCGCGG	0.647													7	40	---	---	---	---	PASS	T	118893503	T	T	118893503	3	4	67	1	0	0	0	0	1	0	0	0	684	991	35	3	875	3	ANKRD58	23	118893503	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	13705518	118893503	36377057	224	26681										
UTP14A	10813	broad.mit.edu	37	chrX	129055540	129055540	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gctcagccaagatgctgagcCagcaggcagtcaagaaacaa	11	11	2	3			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:129055540C>A	uc004euz.2	+	11	1353	c.1325C>A	c.(1324-1326)CCA>CAA	p.P442Q	UTP14A_uc011mup.1_Missense_Mutation_p.P390Q|UTP14A_uc011muq.1_Missense_Mutation_p.P388Q|UTP14A_uc004eva.1_Missense_Mutation_p.P148Q	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	442					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						GATGCTGAGCCAGCAGGCAGT	0.438													4	58	---	---	---	---	PASS	A	129055540	A	A	129055540	3	1	67	1	0	0	0	0	1	0	0	0	17092	594	21	3	1367	3	UTP14A	23	129055540	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	10162037	129055540	26215020	225	26682										
ZIC3	7547	broad.mit.edu	37	chrX	136648937	136648937	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	cgccaccacgagatgcccaaCcgtgagccggcaggcatggg	14	15	0	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:136648937C>A	uc004fak.2	+	1	592	c.87C>A	c.(85-87)AAC>AAA	p.N29K		NM_003413	NP_003404	O60481	ZIC3_HUMAN	zinc finger protein of the cerebellum 3	29					cell differentiation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AGATGCCCAACCGTGAGCCGG	0.577													4	12	---	---	---	---	PASS	A	136648937	A	A	136648937	3	1	67	1	0	0	0	0	1	0	0	0	17677	506	18	3	89	3	ZIC3	23	136648937	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	7593397	136648937	18621623	226	26683										
SLITRK4	139065	broad.mit.edu	37	chrX	142718580	142718580	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	agaatctttaattcattgttGttcaagtgcaactgctttaa	6	6	3	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:142718580G>A	uc004fbx.2	-	2	721	c.345C>T	c.(343-345)AAC>AAT	p.N115N	SLITRK4_uc004fby.2_Silent_p.N115N	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	115	Extracellular (Potential).|LRR 3.					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					ATTCATTGTTGTTCAAGTGCA	0.423													18	116	---	---	---	---	PASS	A	142718580	A	A	142718580	2	1	67	1	0	0	0	0	0	0	0	1	14745	1368	48	3		3	SLITRK4	23	142718580	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	6069643	142718580	12551980	227	26684										
SPANXN1	494118	broad.mit.edu	37	chrX	144329162	144329162	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gaggaagagcccctgtgaatCcaacaatgaaaatgatgagg	12	7	0	5			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:144329162C>T	uc004fcb.2	+	1	56	c.56C>T	c.(55-57)TCC>TTC	p.S19F		NM_001009614	NP_001009614	Q5VSR9	SPXN1_HUMAN	SPANX-N1 protein	19											0	Acute lymphoblastic leukemia(192;6.56e-05)					CCCTGTGAATCCAACAATGAA	0.274													18	151	---	---	---	---	PASS	T	144329162	T	T	144329162	3	4	67	1	0	0	0	0	1	0	0	0	14990	855	30	2	58	2	SPANXN1	23	144329162	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	1610582	144329162	10941398	228	26685										
MAGEA11	4110	broad.mit.edu	37	chrX	148797858	148797858	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	atttattgctccgcaagtatCgagtcaaggggctgatcaca	10	9	2	1			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:148797858C>A	uc004fdq.2	+	5	814	c.712C>A	c.(712-714)CGA>AGA	p.R238R	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Silent_p.R209R	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	238	MAGE.					cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CCGCAAGTATCGAGTCAAGGG	0.433													32	183	---	---	---	---	PASS	A	148797858	A	A	148797858	2	1	67	1	0	0	0	0	0	0	0	1	9165	876	31	2		2	MAGEA11	23	148797858	Silent	SNP	C	TCGA-34-5232-01A-21D-1817-08	4468696	148797858	6472702	229	26686										
CD99L2	83692	broad.mit.edu	37	chrX	149963707	149963707	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	ccagcaattggtttcctgcgGccatcatctcgatcatttcg	8	13	3	0			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:149963707G>T	uc004fel.2	-	6	520	c.402C>A	c.(400-402)GGC>GGA	p.G134G	CD99L2_uc004fek.2_RNA|CD99L2_uc004fem.2_Silent_p.G85G|CD99L2_uc004fen.2_Silent_p.G62G|CD99L2_uc004feo.2_RNA|CD99L2_uc011myb.1_Intron	NM_031462	NP_113650	Q8TCZ2	C99L2_HUMAN	CD99 antigen-like 2 isoform E3'-E4'-E3-E4	134	Extracellular (Potential).				cell adhesion	cell junction|integral to membrane				large_intestine(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GTTTCCTGCGGCCATCATCTC	0.473													11	189	---	---	---	---	PASS	T	149963707	T	T	149963707	2	4	67	1	0	0	0	0	0	0	0	1	3051	1190	42	3		3	CD99L2	23	149963707	Silent	SNP	G	TCGA-34-5232-01A-21D-1817-08	1165849	149963707	5306853	230	26687										
PRRG3	79057	broad.mit.edu	37	chrX	150868563	150868563	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	gccagggcaccatcgagcgaGagtgcatggaggagatctgc	16	10	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:150868563G>C	uc004few.1	+	3	493	c.103G>C	c.(103-105)GAG>CAG	p.E35Q		NM_024082	NP_076987	Q9BZD7	TMG3_HUMAN	proline rich Gla (G-carboxyglutamic acid) 3	35	Gla.|Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CATCGAGCGAGAGTGCATGGA	0.562													13	94	---	---	---	---	PASS	C	150868563	C	C	150868563	3	2	67	1	0	0	0	0	1	0	0	0	12607	943	33	2	109	2	PRRG3	23	150868563	Missense_Mutation	SNP	G	TCGA-34-5232-01A-21D-1817-08	904856	150868563	4401997	231	26688										
MAGEA6	4105	broad.mit.edu	37	chrX	151869605	151869605	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0748898678414097	17	0.427772822236848	1.11313968811772	1.62761601455869	0.949442675159236	0.232095470796428	0.613147736283101	0	aggaggggccaagcaccttcCctgacctggagtctgagttc	13	12	1	2			TCGA-34-5232-01A-21D-1817-08	TCGA-34-5232-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f32fff2f-0bbf-475f-b088-3f1699203c31	0cfe040a-6fc3-4add-8222-527cccfed139	g.chrX:151869605C>T	uc004ffq.1	+	3	489	c.295C>T	c.(295-297)CCT>TCT	p.P99S	MAGEA6_uc004ffr.1_Missense_Mutation_p.P99S|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	99							protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					AAGCACCTTCCCTGACCTGGA	0.557													19	152	---	---	---	---	PASS	T	151869605	T	T	151869605	3	4	67	1	0	0	0	0	1	0	0	0	9170	623	22	3	297	3	MAGEA6	23	151869605	Missense_Mutation	SNP	C	TCGA-34-5232-01A-21D-1817-08	1001042	151869605	3400955	232	26689										
MACF1	23499	broad.mit.edu	37	chr1	39798958	39798958	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	aaaggaaatgttaaagaaaaCatttctggctaaggatgacc	9	5	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:39798958C>T	uc010oiu.1	+	1	2149	c.2018C>T	c.(2017-2019)ACA>ATA	p.T673I	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2238					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)			TTAAAGAAAACATTTCTGGCT	0.383													4	42	---	---	---	---	PASS	T	39798958	T	T	39798958	3	4	68	1	0	0	0	0	1	0	0	0	9144	478	17	3	6789	3	MACF1	1	39798958	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08		39798958	209451663	1	26690										
ZMYND12	84217	broad.mit.edu	37	chr1	42898960	42898960	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttctgcttcttgggcttcatCtgcattggaaggggaagaaa	12	7	4	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:42898960C>A	uc001chj.2	-	7	1100	c.830_splice	c.e7-1	p.D277_splice	ZMYND12_uc010ojt.1_Splice_Site_p.D167_splice	NM_032257	NP_115633	Q9H0C1	ZMY12_HUMAN	zinc finger, MYND-type containing 12 isoform 1							intracellular	zinc ion binding			ovary(1)	1	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGGGCTTCATCTGCATTGGAA	0.463													6	107	---	---	---	---	PASS	A	42898960	A	A	42898960	5	1	68	1	0	0	0	0	0	0	1	0	17704	927	32	2	276	2	ZMYND12	1	42898960	Splice_Site	SNP	C	TCGA-34-5234-01A-01D-1632-08	3100002	42898960	206351661	2	26691										
C1orf168	199920	broad.mit.edu	37	chr1	57257917	57257917	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gggaaggaagagtctgggctCcttttgtttccagctttttc	12	8	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:57257917C>T	uc001cym.3	-	2	975	c.569G>A	c.(568-570)GGA>GAA	p.G190E	C1orf168_uc009vzu.1_RNA|C1orf168_uc009vzv.1_Missense_Mutation_p.G190E	NM_001004303	NP_001004303	Q5VWT5	CA168_HUMAN	hypothetical protein LOC199920	190										ovary(3)|skin(2)	5						AGTCTGGGCTCCTTTTGTTTC	0.463													7	96	---	---	---	---	PASS	T	57257917	T	T	57257917	3	4	68	1	0	0	0	0	1	0	0	0	2012	855	30	2	1693	2	C1orf168	1	57257917	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	14358957	57257917	191992704	3	26692										
COL24A1	255631	broad.mit.edu	37	chr1	86252091	86252091	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cctgatgaaccctttactccTggaggacctggagccccagc	10	15	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:86252091T>C	uc001dlj.2	-	48	4047	c.4005A>G	c.(4003-4005)CCA>CCG	p.P1335P	COL24A1_uc001dli.2_Silent_p.P471P|COL24A1_uc010osd.1_Silent_p.P635P|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	1335	Collagen-like 15.				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)		CCTTTACTCCTGGAGGACCTG	0.468													15	80	---	---	---	---	PASS	C	86252091	C	C	86252091	2	2	68	1	0	0	0	0	0	0	0	1	3683	1567	55	5		5	COL24A1	1	86252091	Silent	SNP	T	TCGA-34-5234-01A-01D-1632-08	28994174	86252091	162998530	4	26693										
REG4	83998	broad.mit.edu	37	chr1	120342441	120342441	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctggcttcctttaaactcagGatagatgccaggtgggctcc	11	11	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:120342441G>T	uc001eig.2	-	5	650	c.210C>A	c.(208-210)ATC>ATA	p.I70I	REG4_uc001eif.2_Silent_p.I70I	NM_001159352	NP_001152824	Q9BYZ8	REG4_HUMAN	regenerating islet-derived family, member 4	70	C-type lectin.					extracellular region	sugar binding			ovary(1)	1	all_cancers(5;4.81e-10)|all_epithelial(5;7.98e-11)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;8.1e-07)|Lung NSC(69;5.89e-06)|all_epithelial(167;0.000959)		Lung(183;0.011)|LUSC - Lung squamous cell carcinoma(189;0.0588)		TTAAACTCAGGATAGATGCCA	0.498													12	130	---	---	---	---	PASS	T	120342441	T	T	120342441	2	4	68	1	0	0	0	0	0	0	0	1	13214	1164	41	2		2	REG4	1	120342441	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	34090350	120342441	128908180	5	26694										
ADAM30	11085	broad.mit.edu	37	chr1	120437090	120437090	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctgcaggactgagctattgaCgcaattttttttaaaacata	7	7	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:120437090C>T	uc001eij.2	-	1	2024	c.1870G>A	c.(1870-1872)GTC>ATC	p.V624I		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	624	Cys-rich.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		GAGCTATTGACGCAATTTTTT	0.453													5	58	---	---	---	---	PASS	T	120437090	T	T	120437090	3	4	68	1	0	0	0	0	1	0	0	0	248	536	19	1	506	1	ADAM30	1	120437090	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	94649	120437090	128813531	6	26695										
CACNA1E	777	broad.mit.edu	37	chr1	181686390	181686390	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tggcactcaacactgcctgtGtggccattgtccatcacaac	8	14	2	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:181686390G>A	uc001gow.2	+	11	1642	c.1477G>A	c.(1477-1479)GTG>ATG	p.V493M	CACNA1E_uc009wxs.2_Missense_Mutation_p.V400M	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	493	Helical; Name=S1 of repeat II.|II.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CACTGCCTGTGTGGCCATTGT	0.547													11	60	---	---	---	---	PASS	A	181686390	A	A	181686390	3	1	68	1	0	0	0	0	1	0	0	0	2542	1377	48	3	1519	3	CACNA1E	1	181686390	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	61249300	181686390	67564231	7	26696										
CFHR3	10878	broad.mit.edu	37	chr1	196748418	196748418	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tgatgaacattttgagactcCttcaggaagttactgggatt	10	6	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:196748418C>A	uc001gtl.2	+	2	272	c.185C>A	c.(184-186)CCT>CAT	p.P62H	CFHR3_uc001gtk.2_Missense_Mutation_p.P62H|CFHR3_uc010poy.1_Missense_Mutation_p.P62H|CFHR1_uc001gtm.2_Missense_Mutation_p.P25H	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	62	Sushi 1.					extracellular space					0						TTTGAGACTCCTTCAGGAAGT	0.393													6	36	---	---	---	---	PASS	A	196748418	A	A	196748418	3	1	68	1	0	0	0	0	1	0	0	0	3286	681	24	3	191	3	CFHR3	1	196748418	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	15062028	196748418	52502203	8	26697										
F13B	2165	broad.mit.edu	37	chr1	197024916	197024916	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttgatcccctcagtaagtaaTattcattgcatctatattcc	4	10	3	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:197024916T>A	uc001gtt.1	-	8	1327	c.1283A>T	c.(1282-1284)TAT>TTT	p.Y428F		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	428	Sushi 7.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CAGTAAGTAATATTCATTGCA	0.423													4	61	---	---	---	---	PASS	A	197024916	A	A	197024916	3	1	68	1	0	0	0	0	1	0	0	0	5341	1406	49	5	722	5	F13B	1	197024916	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	276498	197024916	52225705	9	26698										
C1orf53	388722	broad.mit.edu	37	chr1	197874996	197874996	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	acagattgcccacttgcaaaGaggtgaatgttgtggctctg	12	8	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:197874996G>A	uc001guh.2	+	2	433	c.335G>A	c.(334-336)AGA>AAA	p.R112K		NM_001024594	NP_001019765	Q5VUE5	CA053_HUMAN	hypothetical protein LOC388722	112											0						CACTTGCAAAGAGGTGAATGT	0.438													9	93	---	---	---	---	PASS	A	197874996	A	A	197874996	3	1	68	1	0	0	0	0	1	0	0	0	2045	942	33	2	341	2	C1orf53	1	197874996	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	850080	197874996	51375625	10	26699										
PIGR	5284	broad.mit.edu	37	chr1	207104843	207104843	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cttccttcttcctcctcaccCtttttgccttcttgggttct	4	16	4	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:207104843C>G	uc001hez.2	-	10	2382	c.2198G>C	c.(2197-2199)AGG>ACG	p.R733T	PIGR_uc009xbz.2_Missense_Mutation_p.R733T	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	733	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CCTCCTCACCCTTTTTGCCTT	0.343													5	74	---	---	---	---	PASS	G	207104843	G	G	207104843	3	3	68	1	0	0	0	0	1	0	0	0	11897	695	24	4	104	4	PIGR	1	207104843	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	9229847	207104843	42145778	11	26700										
USH2A	7399	broad.mit.edu	37	chr1	216166446	216166446	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gggggctggcacgccttcggGtatgtcctcgtcagttaggg	17	10	1	0	rs111033412		TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:216166446G>T	uc001hku.1	-	35	7108	c.6721C>A	c.(6721-6723)CCC>ACC	p.P2241T		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2241	Fibronectin type-III 9.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACGCCTTCGGGTATGTCCTCG	0.507										HNSCC(13;0.011)	OREG0014251	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	104	---	---	---	---	PASS	T	216166446	T	T	216166446	3	4	68	1	0	0	0	0	1	0	0	0	17033	1261	44	3	9039	3	USH2A	1	216166446	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	9061603	216166446	33084175	12	26701										
TGFB2	7042	broad.mit.edu	37	chr1	218610736	218610736	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctttacattgatttcaagagGgatctagggtggaaatggat	12	4	2	2	rs147678881		TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:218610736G>T	uc001hlm.2	+	6	1637	c.984G>T	c.(982-984)AGG>AGT	p.R328S	TGFB2_uc001hln.2_Missense_Mutation_p.R356S|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	328					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		ATTTCAAGAGGGATCTAGGGT	0.408													4	80	---	---	---	---	PASS	T	218610736	T	T	218610736	3	4	68	1	0	0	0	0	1	0	0	0	15815	1223	43	3	1094	3	TGFB2	1	218610736	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	2444290	218610736	30639885	13	26702										
COG2	22796	broad.mit.edu	37	chr1	230798897	230798897	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tcttttaaagagccttagatCgtctgtcagtgaaggaattc	9	7	3	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:230798897C>T	uc001htw.2	+	4	462	c.311C>T	c.(310-312)TCG>TTG	p.S104L	COG2_uc001htx.2_Missense_Mutation_p.S104L|COG2_uc010pwc.1_5'UTR	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	104					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				AGCCTTAGATCGTCTGTCAGT	0.308													4	27	---	---	---	---	PASS	T	230798897	T	T	230798897	3	4	68	1	0	0	0	0	1	0	0	0	3658	893	31	2	325	2	COG2	1	230798897	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	12188161	230798897	18451724	14	26703										
OR2L8	391190	broad.mit.edu	37	chr1	248112224	248112224	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gctgtttccaccatcaagaaTtgaccttttcttcttcattc	4	12	4	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:248112224T>A	uc001idt.1	+	1	65	c.65T>A	c.(64-66)ATT>AAT	p.I22N	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			CCATCAAGAATTGACCTTTTC	0.398													11	144	---	---	---	---	PASS	A	248112224	A	A	248112224	3	1	68	1	0	0	0	0	1	0	0	0	11009	1493	52	5	67	5	OR2L8	1	248112224	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	17313327	248112224	1138397	15	26704										
PGBD2	267002	broad.mit.edu	37	chr1	249212547	249212547	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	catgccaaatgcttcagggaGtaccacatccggtgacatca	9	12	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr1:249212547G>T	uc001ifh.2	+	3	1911	c.1764G>T	c.(1762-1764)GAG>GAT	p.E588D	PGBD2_uc001ifg.2_Missense_Mutation_p.E337D|PGBD2_uc009xhd.2_Missense_Mutation_p.E585D	NM_170725	NP_733843	Q6P3X8	PGBD2_HUMAN	hypothetical protein LOC267002 isoform a	588										ovary(1)	1	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.012)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			GCTTCAGGGAGTACCACATCC	0.488													8	65	---	---	---	---	PASS	T	249212547	T	T	249212547	3	4	68	1	0	0	0	0	1	0	0	0	11781	1020	36	3	1770	3	PGBD2	1	249212547	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	1100323	249212547	38074	16	26705										
SH3YL1	26751	broad.mit.edu	37	chr2	233210	233210	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggcagcggagcttctcagggCcacgtttccttccaagttcc	11	14	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:233210C>A	uc002qvx.2	-	6	508	c.424G>T	c.(424-426)GCC>TCC	p.A142S	SH3YL1_uc002qvy.2_Missense_Mutation_p.A142S|SH3YL1_uc002qvz.2_RNA|SH3YL1_uc002qwa.2_RNA|SH3YL1_uc010ewe.2_Missense_Mutation_p.A46S|SH3YL1_uc002qvu.2_RNA|SH3YL1_uc002qvv.2_Missense_Mutation_p.A46S|SH3YL1_uc002qvw.2_RNA	NM_015677	NP_056492	Q96HL8	SH3Y1_HUMAN	SH3 domain containing, Ysc84-like 1 isoform 1	142										ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.034)		all cancers(51;0.000647)|Epithelial(75;0.0043)|OV - Ovarian serous cystadenocarcinoma(76;0.00871)|GBM - Glioblastoma multiforme(21;0.148)		CTTCTCAGGGCCACGTTTCCT	0.483													3	12	---	---	---	---	PASS	A	233210	A	A	233210	3	1	68	1	0	0	0	0	1	0	0	0	14263	739	26	3	624	3	SH3YL1	2	233210	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08		233210	242966163	17	26706										
ADCY3	109	broad.mit.edu	37	chr2	25045432	25045432	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	catcgggggtgactcctgaaGccgccatatacgtgctgcca	12	13	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:25045432G>A	uc002rfs.3	-	18	3150	c.2951C>T	c.(2950-2952)GCT>GTT	p.A984V	ADCY3_uc002rfr.3_Missense_Mutation_p.A571V|ADCY3_uc010ykm.1_Missense_Mutation_p.A985V	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	984	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					GACTCCTGAAGCCGCCATATA	0.537													9	64	---	---	---	---	PASS	A	25045432	A	A	25045432	3	1	68	1	0	0	0	0	1	0	0	0	295	971	34	3	499	3	ADCY3	2	25045432	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	24812222	25045432	218153941	18	26707										
FAM179A	165186	broad.mit.edu	37	chr2	29245097	29245097	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gaggagatggatcttagagcCtgtaaggagttgaggccttt	15	5	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:29245097C>A	uc010ezl.2	+	11	1785	c.1434C>A	c.(1432-1434)GCC>GCA	p.A478A	FAM179A_uc010ymm.1_Silent_p.A423A|FAM179A_uc002rmr.3_Silent_p.A5A	NM_199280	NP_954974	Q6ZUX3	F179A_HUMAN	hypothetical protein LOC165186	478							binding			ovary(3)|skin(1)	4						ATCTTAGAGCCTGTAAGGAGT	0.542													4	62	---	---	---	---	PASS	A	29245097	A	A	29245097	2	1	68	1	0	0	0	0	0	0	0	1	5505	668	24	3		3	FAM179A	2	29245097	Silent	SNP	C	TCGA-34-5234-01A-01D-1632-08	4199665	29245097	213954276	19	26708										
GALNT14	79623	broad.mit.edu	37	chr2	31178795	31178795	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	taccttgccgttcattattgCgcaagcatttcaccttgggc	8	12	2	0	rs150208592		TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:31178795C>T	uc002rnr.2	-	5	1134	c.515G>A	c.(514-516)CGC>CAC	p.R172H	GALNT14_uc002rnq.2_Missense_Mutation_p.R152H|GALNT14_uc002rns.2_Missense_Mutation_p.R177H|GALNT14_uc010ymr.1_Missense_Mutation_p.R137H|GALNT14_uc010ezo.1_Missense_Mutation_p.R139H|GALNT14_uc010ezp.1_Missense_Mutation_p.R143H	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	172	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					TTCATTATTGCGCAAGCATTT	0.527													6	185	---	---	---	---	PASS	T	31178795	T	T	31178795	3	4	68	1	0	0	0	0	1	0	0	0	6212	768	27	1	1187	1	GALNT14	2	31178795	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	1933698	31178795	212020578	20	26709										
POLE4	56655	broad.mit.edu	37	chr2	75187240	75187240	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cttgtgtttcagataatgcaAtagaagctgtggatgaattt	10	4	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:75187240A>G	uc002snf.2	+	3	339	c.307A>G	c.(307-309)ATA>GTA	p.I103V		NM_019896	NP_063949	Q9NR33	DPOE4_HUMAN	DNA-directed DNA polymerase epsilon 4	103					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex	DNA-directed DNA polymerase activity|protein binding|sequence-specific DNA binding				0						AGATAATGCAATAGAAGCTGT	0.438													11	92	---	---	---	---	PASS	G	75187240	G	G	75187240	3	3	68	1	0	0	0	0	1	0	0	0	12199	101	4	5	317	5	POLE4	2	75187240	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	44008445	75187240	168012133	21	26710										
CNGA3	1261	broad.mit.edu	37	chr2	99013218	99013218	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tcaacgagggcaagctggccGtggtggctgatgatggggtc	18	8	1	2	rs104893619		TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:99013218G>T	uc002syt.2	+	8	2002	c.1585G>T	c.(1585-1587)GTG>TTG	p.V529L	CNGA3_uc002syu.2_Missense_Mutation_p.V511L|CNGA3_uc010fij.2_Missense_Mutation_p.V533L	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	529	cGMP.		V -> M (in ACHM2).		signal transduction|visual perception	integral to membrane	cGMP binding	p.V529M(1)		ovary(5)|upper_aerodigestive_tract(1)	6						CAAGCTGGCCGTGGTGGCTGA	0.552													9	75	---	---	---	---	PASS	T	99013218	T	T	99013218	3	4	68	1	0	0	0	0	1	0	0	0	3598	1145	40	1	1611	1	CNGA3	2	99013218	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	23825978	99013218	144186155	22	26711										
SMPD4	55627	broad.mit.edu	37	chr2	130918802	130918802	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggctgggttgggcggggctgTagagggcgctggagacactg	22	7	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:130918802T>C	uc002tqq.1	-	11	1545	c.1025A>G	c.(1024-1026)TAC>TGC	p.Y342C	SMPD4_uc002tqp.1_Missense_Mutation_p.Y35C|SMPD4_uc010yzy.1_Intron|SMPD4_uc010yzz.1_Intron|SMPD4_uc002tqr.1_Intron|SMPD4_uc002tqs.1_Missense_Mutation_p.Y210C|SMPD4_uc002tqt.1_Intron|SMPD4_uc010zaa.1_Intron|SMPD4_uc010zab.1_Intron|SMPD4_uc010zac.1_Missense_Mutation_p.T56A|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	303					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	GGCGGGGCTGTAGAGGGCGCT	0.582													6	73	---	---	---	---	PASS	C	130918802	C	C	130918802	3	2	68	1	0	0	0	0	1	0	0	0	14807	1638	57	5	1615	5	SMPD4	2	130918802	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	31905584	130918802	112280571	23	26712										
XIRP2	129446	broad.mit.edu	37	chr2	168104927	168104927	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggctgaatttgaaagttttcCaggcctccctcttcctccac	7	14	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:168104927C>A	uc002udx.2	+	8	7043	c.7025C>A	c.(7024-7026)CCA>CAA	p.P2342Q	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.P2167Q|XIRP2_uc010fpq.2_Missense_Mutation_p.P2120Q|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2167	Pro-rich.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GAAAGTTTTCCAGGCCTCCCT	0.463													10	113	---	---	---	---	PASS	A	168104927	A	A	168104927	3	1	68	1	0	0	0	0	1	0	0	0	17427	594	21	3	7055	3	XIRP2	2	168104927	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	37186125	168104927	75094446	24	26713										
TTN	7273	broad.mit.edu	37	chr2	179480100	179480100	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cacgtggacatctttcaactAtatatcctttgatgcgtgaa	7	9	2	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:179480100A>G	uc010zfg.1	-	208	41092	c.40868T>C	c.(40867-40869)ATA>ACA	p.I13623T	uc002ump.1_RNA|TTN_uc010zfh.1_Missense_Mutation_p.I7318T|TTN_uc010zfi.1_Missense_Mutation_p.I7251T|TTN_uc010zfj.1_Missense_Mutation_p.I7126T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14550							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)			TCTTTCAACTATATATCCTTT	0.403													14	95	---	---	---	---	PASS	G	179480100	G	G	179480100	3	3	68	1	0	0	0	0	1	0	0	0	16732	449	16	5	59537	5	TTN	2	179480100	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	11375173	179480100	63719273	25	26714										
TTN	7273	broad.mit.edu	37	chr2	179586757	179586757	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	atcttttgaccaagtgattcGcatcggttgagcaccagtaa	9	9	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:179586757G>A	uc010zfg.1	-	75	19125	c.18901C>T	c.(18901-18903)CGA>TGA	p.R6301*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.R2962*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7228							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)			CAAGTGATTCGCATCGGTTGA	0.408													8	148	---	---	---	---	PASS	A	179586757	A	A	179586757	4	1	68	1	0	0	0	0	0	1	0	0	16732	1095	38	1	82036	1	TTN	2	179586757	Nonsense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	106657	179586757	63612616	26	26715										
COL5A2	1290	broad.mit.edu	37	chr2	189904261	189904261	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggccagggggacccggagggCcaggtgggccaggctcacca	19	13	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:189904261C>G	uc002uqk.2	-	51	3937	c.3662G>C	c.(3661-3663)GGC>GCC	p.G1221A	COL5A2_uc010frx.2_Missense_Mutation_p.G797A	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	1221					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			ACCCGGAGGGCCAGGTGGGCC	0.478													3	16	---	---	---	---	PASS	G	189904261	G	G	189904261	3	3	68	1	0	0	0	0	1	0	0	0	3697	739	26	4	853	4	COL5A2	2	189904261	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	10317504	189904261	53295112	27	26716										
MYO1B	4430	broad.mit.edu	37	chr2	192206227	192206227	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tcctatgtggcagctgtttgTggaaaaggagcagaagttaa	13	5	0	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:192206227T>C	uc010fsg.2	+	5	642	c.387T>C	c.(385-387)TGT>TGC	p.C129C	MYO1B_uc002usq.2_Silent_p.C129C|MYO1B_uc002usr.2_Silent_p.C129C|MYO1B_uc002uss.1_Silent_p.C129C	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	129	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			CAGCTGTTTGTGGAAAAGGAG	0.393													7	61	---	---	---	---	PASS	C	192206227	C	C	192206227	2	2	68	1	0	0	0	0	0	0	0	1	10069	1702	59	5		5	MYO1B	2	192206227	Silent	SNP	T	TCGA-34-5234-01A-01D-1632-08	2301966	192206227	50993146	28	26717										
PIKFYVE	200576	broad.mit.edu	37	chr2	209217385	209217385	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttctcttgattagaggcccaCggcgttggccaaaattcttg	10	10	2	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:209217385C>T	uc002vcz.2	+	39	5881	c.5723C>T	c.(5722-5724)ACG>ATG	p.T1908M		NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1908	Catalytic.|PIPK.				cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						TAGAGGCCCACGGCGTTGGCC	0.328													8	47	---	---	---	---	PASS	T	209217385	T	T	209217385	3	4	68	1	0	0	0	0	1	0	0	0	11924	536	19	1	5884	1	PIKFYVE	2	209217385	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	17011158	209217385	33981988	29	26718										
KCNE4	23704	broad.mit.edu	37	chr2	223917594	223917594	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gcacgcaccccggcaccgccGcctccagcagccccctggag	11	22	0	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:223917594G>T	uc002vnl.3	+	2	200	c.46G>T	c.(46-48)GCC>TCC	p.A16S		NM_080671	NP_542402	Q8WWG9	KCNE4_HUMAN	potassium voltage-gated channel, Isk-related	16						integral to membrane	voltage-gated potassium channel activity			ovary(1)	1		Renal(207;0.0183)|Lung NSC(271;0.137)|all_lung(227;0.175)		Epithelial(121;4.48e-11)|all cancers(144;2.88e-08)|Lung(261;0.00688)|LUSC - Lung squamous cell carcinoma(224;0.008)		CGGCACCGCCGCCTCCAGCAG	0.617													8	53	---	---	---	---	PASS	T	223917594	T	T	223917594	3	4	68	1	0	0	0	0	1	0	0	0	8025	1087	38	1	48	1	KCNE4	2	223917594	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	14700209	223917594	19281779	30	26719										
INPP5D	3635	broad.mit.edu	37	chr2	234102535	234102535	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cgcctctcacccaccatgggGagttgacaggccacttccag	10	16	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr2:234102535G>T	uc010zmo.1	+	22	2677	c.2524G>T	c.(2524-2526)GAG>TAG	p.E842*	INPP5D_uc010zmp.1_Nonsense_Mutation_p.E841*	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	842					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		CCACCATGGGGAGTTGACAGG	0.617													5	42	---	---	---	---	PASS	T	234102535	T	T	234102535	4	4	68	1	0	0	0	0	0	1	0	0	7756	1175	41	2	2122	2	INPP5D	2	234102535	Nonsense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	10184941	234102535	9096838	31	26720										
CNTN6	27255	broad.mit.edu	37	chr3	1269556	1269556	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	atgagttatcactacaggttGgatggaggcagtcttgcaat	12	6	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr3:1269556G>A	uc003boz.2	+	4	504	c.237G>A	c.(235-237)TTG>TTA	p.L79L	CNTN6_uc010hbo.2_Silent_p.L74L|CNTN6_uc011asj.1_Silent_p.L7L|CNTN6_uc003bpa.2_Silent_p.L79L	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	79	Ig-like C2-type 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		ACTACAGGTTGGATGGAGGCA	0.413													7	70	---	---	---	---	PASS	A	1269556	A	A	1269556	2	1	68	1	0	0	0	0	0	0	0	1	3645	1339	47	3		3	CNTN6	3	1269556	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08		1269556	196752874	32	26721										
CNTN4	152330	broad.mit.edu	37	chr3	2942484	2942484	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	acatacaagtggctaaaaaaTggcgaacctctgctaactcg	8	10	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr3:2942484T>A	uc003bpc.2	+	10	1277	c.1056T>A	c.(1054-1056)AAT>AAA	p.N352K	CNTN4_uc003bpb.1_Missense_Mutation_p.N24K|CNTN4_uc003bpd.1_Missense_Mutation_p.N352K|CNTN4_uc003bpe.2_Missense_Mutation_p.N24K|CNTN4_uc003bpf.2_Missense_Mutation_p.N24K	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	352	Ig-like C2-type 4.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		GGCTAAAAAATGGCGAACCTC	0.393													3	51	---	---	---	---	PASS	A	2942484	A	A	2942484	3	1	68	1	0	0	0	0	1	0	0	0	3643	1461	51	5	1086	5	CNTN4	3	2942484	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	1672928	2942484	195079946	33	26722										
ITPR1	3708	broad.mit.edu	37	chr3	4725142	4725142	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cgtgtcctgctccacttgacGatgcatgactacccacccct	7	17	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr3:4725142G>T	uc003bqa.2	+	27	3555	c.3207G>T	c.(3205-3207)ACG>ACT	p.T1069T	ITPR1_uc010hca.1_Silent_p.T1054T|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_5'UTR	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1078	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		TCCACTTGACGATGCATGACT	0.602													15	73	---	---	---	---	PASS	T	4725142	T	T	4725142	2	4	68	1	0	0	0	0	0	0	0	1	7920	1045	37	2		2	ITPR1	3	4725142	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	1782658	4725142	193297288	34	26723										
DPPA4	55211	broad.mit.edu	37	chr3	109049432	109049432	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gccctggctgaaattctcgcCcaggaggccagcaaagcctc	11	15	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr3:109049432C>T	uc003dxq.3	-	5	673	c.618G>A	c.(616-618)TGG>TGA	p.W206*	DPPA4_uc011bho.1_Intron|DPPA4_uc011bhp.1_Nonsense_Mutation_p.W206*	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	206						nucleus	protein binding			upper_aerodigestive_tract(1)	1						AAATTCTCGCCCAGGAGGCCA	0.562													4	66	---	---	---	---	PASS	T	109049432	T	T	109049432	4	4	68	1	0	0	0	0	0	1	0	0	4736	624	22	3	308	3	DPPA4	3	109049432	Nonsense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	104324290	109049432	88972998	35	26724										
GRK7	131890	broad.mit.edu	37	chr3	141535837	141535837	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	actgaatgaccccaacagacCtacgggttgtgaggagggta	13	9	0	4	rs67254707		TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr3:141535837C>A	uc011bnd.1	+	4	1691	c.1607C>A	c.(1606-1608)CCT>CAT	p.P536H		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	536					visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						CCCAACAGACCTACGGGTTGT	0.458													8	96	---	---	---	---	PASS	A	141535837	A	A	141535837	3	1	68	1	0	0	0	0	1	0	0	0	6794	681	24	3	1621	3	GRK7	3	141535837	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	32486405	141535837	56486593	36	26725										
SI	6476	broad.mit.edu	37	chr3	164716462	164716462	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cagttgtcttctgcaatgcaCtaatatagtagagaagtatt	8	6	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr3:164716462C>T	uc003fei.2	-	38	4469	c.4407_splice	c.e38-1	p.D1469_splice		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-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)	CTGCAATGCACTAATATAGTA	0.338										HNSCC(35;0.089)			4	44	---	---	---	---	PASS	T	164716462	T	T	164716462	5	4	68	1	0	0	0	0	0	0	1	0	14297	579	20	3	1121	3	SI	3	164716462	Splice_Site	SNP	C	TCGA-34-5234-01A-01D-1632-08	23180625	164716462	33305968	37	26726										
SERPINI1	5274	broad.mit.edu	37	chr3	167508224	167508224	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gctaaagagagccaatatgtGatgaaaattgccaattcctt	8	7	0	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr3:167508224G>T	uc003ffa.3	+	3	513	c.315G>T	c.(313-315)GTG>GTT	p.V105V	SERPINI1_uc003ffb.3_Silent_p.V105V	NM_001122752	NP_001116224	Q99574	NEUS_HUMAN	neuroserpin precursor	105					central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1						GCCAATATGTGATGAAAATTG	0.318													4	68	---	---	---	---	PASS	T	167508224	T	T	167508224	2	4	68	1	0	0	0	0	0	0	0	1	14118	1277	45	2		2	SERPINI1	3	167508224	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	2791762	167508224	30514206	38	26727										
NLGN1	22871	broad.mit.edu	37	chr3	173996989	173996989	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	taaaatttgttgaaaatataGtagatagcgatgatggtata	9	1	0	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr3:173996989G>T	uc003fio.1	+	6	1621	c.1198G>T	c.(1198-1200)GTA>TTA	p.V400L	NLGN1_uc010hww.1_Missense_Mutation_p.V440L|NLGN1_uc003fip.1_Missense_Mutation_p.V400L	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	417	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TGAAAATATAGTAGATAGCGA	0.353													15	73	---	---	---	---	PASS	T	173996989	T	T	173996989	3	4	68	1	0	0	0	0	1	0	0	0	10461	1029	36	3	1212	3	NLGN1	3	173996989	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	6488765	173996989	24025441	39	26728										
MCF2L2	23101	broad.mit.edu	37	chr3	182933804	182933804	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cacagccaactcacaggactTgatcaaatcctctatcactg	5	14	4	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr3:182933804T>A	uc003fli.1	-	22	2539	c.2449A>T	c.(2449-2451)AAG>TAG	p.K817*		NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	817	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TCACAGGACTTGATCAAATCC	0.448													21	74	---	---	---	---	PASS	A	182933804	A	A	182933804	4	1	68	1	0	0	0	0	0	1	0	0	9380	1821	63	5	931	5	MCF2L2	3	182933804	Nonsense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	8936815	182933804	15088626	40	26729										
DVL3	1857	broad.mit.edu	37	chr3	183884310	183884310	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggagattgtgcacaaaccggGgtatggatggaatggggcac	17	6	0	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr3:183884310G>T	uc003fms.2	+	9	1120	c.980G>T	c.(979-981)GGG>GTG	p.G327V	DVL3_uc011bqw.1_Missense_Mutation_p.G327V|DVL3_uc003fmt.2_Intron|DVL3_uc003fmu.2_Missense_Mutation_p.G159V	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	327					canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			CACAAACCGGGGTATGGATGG	0.542													12	64	---	---	---	---	PASS	T	183884310	T	T	183884310	3	4	68	1	0	0	0	0	1	0	0	0	4837	1246	43	3	1014	3	DVL3	3	183884310	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	950506	183884310	14138120	41	26730										
EPHB3	2049	broad.mit.edu	37	chr3	184298229	184298229	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cggtcatccagctggtgggcAtgttgcggggcattgctgcc	16	11	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr3:184298229A>T	uc003foz.2	+	12	2649	c.2212A>T	c.(2212-2214)ATG>TTG	p.M738L		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	738	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			GCTGGTGGGCATGTTGCGGGG	0.597													13	65	---	---	---	---	PASS	T	184298229	T	T	184298229	3	4	68	1	0	0	0	0	1	0	0	0	5176	217	8	5	2258	5	EPHB3	3	184298229	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	413919	184298229	13724201	42	26731										
HTRA3	94031	broad.mit.edu	37	chr4	8307739	8307739	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	catcatcgtcaaggtcaacgGgcgtcctctagtggactcga	11	12	4	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr4:8307739G>A	uc003gla.2	+	9	1442	c.1238G>A	c.(1237-1239)GGG>GAG	p.G413E		NM_053044	NP_444272	P83110	HTRA3_HUMAN	HtrA serine peptidase 3 precursor	413	PDZ.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity			ovary(1)	1						AAGGTCAACGGGCGTCCTCTA	0.642													4	60	---	---	---	---	PASS	A	8307739	A	A	8307739	3	1	68	1	0	0	0	0	1	0	0	0	7455	1232	43	3	1272	3	HTRA3	4	8307739	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08		8307739	182846537	43	26732										
LGI2	55203	broad.mit.edu	37	chr4	25005391	25005391	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctcatgacccgggagtccccGatgaagcgggtaagggaaag	15	10	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr4:25005391G>T	uc003grf.2	-	8	1419	c.1320C>A	c.(1318-1320)ATC>ATA	p.I440I		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	440	EAR 5.					extracellular region					0		Breast(46;0.173)				GGGAGTCCCCGATGAAGCGGG	0.537													14	155	---	---	---	---	PASS	T	25005391	T	T	25005391	2	4	68	1	0	0	0	0	0	0	0	1	8752	1048	37	2		2	LGI2	4	25005391	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	16697652	25005391	166148885	44	26733										
GRXCR1	389207	broad.mit.edu	37	chr4	42965125	42965125	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	aagctccttccctccctgttGtgttcattgatggccattac	7	13	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr4:42965125G>T	uc003gwt.2	+	2	601	c.601G>T	c.(601-603)GTG>TTG	p.V201L		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	201	Glutaredoxin.				cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						CCTCCCTGTTGTGTTCATTGA	0.428													30	239	---	---	---	---	PASS	T	42965125	T	T	42965125	3	4	68	1	0	0	0	0	1	0	0	0	6812	1377	48	3	607	3	GRXCR1	4	42965125	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	17959734	42965125	148189151	45	26734										
SMR3A	26952	broad.mit.edu	37	chr4	71232480	71232480	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ccaccccatcctccaccctaTggtccagggagatttccacc	6	19	0	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr4:71232480T>C	uc003hfg.1	+	3	255	c.174T>C	c.(172-174)TAT>TAC	p.Y58Y	SMR3B_uc011cas.1_Intron	NM_012390	NP_036522	Q99954	SMR3A_HUMAN	submaxillary gland androgen regulated protein 3	58	Pro-rich.					extracellular region					0		all_hematologic(202;0.196)				CTCCACCCTATGGTCCAGGGA	0.567													4	82	---	---	---	---	PASS	C	71232480	C	C	71232480	2	2	68	1	0	0	0	0	0	0	0	1	14811	1471	51	5		5	SMR3A	4	71232480	Silent	SNP	T	TCGA-34-5234-01A-01D-1632-08	28267355	71232480	119921796	46	26735										
KIAA1109	84162	broad.mit.edu	37	chr4	123283401	123283401	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	caaagacaaagaagaacactAaaaaagtaatttgatctgtg	7	5	1	4			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr4:123283401A>G	uc003ieh.2	+	84	15062	c.15017A>G	c.(15016-15018)TAA>TGA	p.*5006*	KIAA1109_uc003iem.2_Silent_p.*1362*	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	5006					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GAAGAACACTAAAAAAGTAAT	0.289													4	44	---	---	---	---	PASS	G	123283401	G	G	123283401	2	3	68	1	0	0	0	0	0	0	0	1	8208	369	13	5		5	KIAA1109	4	123283401	Silent	SNP	A	TCGA-34-5234-01A-01D-1632-08	52050921	123283401	67870875	47	26736										
FAT4	79633	broad.mit.edu	37	chr4	126372912	126372912	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gagagcagattgcagacttcTatctgtctgtggttaccaag	11	8	3	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr4:126372912T>A	uc003ifj.3	+	9	10741	c.10741T>A	c.(10741-10743)TAT>AAT	p.Y3581N	FAT4_uc011cgp.1_Missense_Mutation_p.Y1879N|FAT4_uc003ifi.1_Missense_Mutation_p.Y1059N	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3581	Cadherin 34.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGCAGACTTCTATCTGTCTGT	0.463													15	80	---	---	---	---	PASS	A	126372912	A	A	126372912	3	1	68	1	0	0	0	0	1	0	0	0	5692	1522	53	5	10775	5	FAT4	4	126372912	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	3089511	126372912	64781364	48	26737										
GAB1	2549	broad.mit.edu	37	chr4	144381636	144381636	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cccaaacctgtccagtgaagAcccagtatgtaaagttttaa	7	10	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr4:144381636A>T	uc003ije.2	+	8	2158	c.1799A>T	c.(1798-1800)GAC>GTC	p.D600V	GAB1_uc003ijd.2_Missense_Mutation_p.D630V|GAB1_uc011chq.1_Missense_Mutation_p.D497V	NM_002039	NP_002030	Q13480	GAB1_HUMAN	GRB2-associated binding protein 1 isoform b	600					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)					TCCAGTGAAGACCCAGTATGT	0.418													15	95	---	---	---	---	PASS	T	144381636	T	T	144381636	3	4	68	1	0	0	0	0	1	0	0	0	6148	275	10	5	1923	5	GAB1	4	144381636	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	18008724	144381636	46772640	49	26738										
ARFIP1	27236	broad.mit.edu	37	chr4	153784805	153784805	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cttggtctctcagaaacccaAattacatctcatggctttga	6	11	3	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr4:153784805A>G	uc003imz.2	+	3	417	c.141A>G	c.(139-141)CAA>CAG	p.Q47Q	ARFIP1_uc003inb.2_Silent_p.Q47Q|ARFIP1_uc003ina.2_Silent_p.Q47Q|ARFIP1_uc003inc.2_Silent_p.Q47Q|ARFIP1_uc011cij.1_Intron	NM_001025595	NP_001020766	P53367	ARFP1_HUMAN	ADP-ribosylation factor interacting protein 1	47					intracellular protein transport|regulation of protein secretion	cytosol|Golgi membrane				ovary(1)	1	all_hematologic(180;0.093)					CAGAAACCCAAATTACATCTC	0.368													10	44	---	---	---	---	PASS	G	153784805	G	G	153784805	2	3	68	1	0	0	0	0	0	0	0	1	854	11	1	5		5	ARFIP1	4	153784805	Silent	SNP	A	TCGA-34-5234-01A-01D-1632-08	9403169	153784805	37369471	50	26739										
FAT1	2195	broad.mit.edu	37	chr4	187541112	187541112	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gtagaacactttcaggccttCcgggctgttagcctgcacgt	11	12	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr4:187541112C>A	uc003izf.2	-	10	6816	c.6628G>T	c.(6628-6630)GAA>TAA	p.E2210*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2210	Extracellular (Potential).|Cadherin 20.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TTCAGGCCTTCCGGGCTGTTA	0.488										HNSCC(5;0.00058)			14	88	---	---	---	---	PASS	A	187541112	A	A	187541112	4	1	68	1	0	0	0	0	0	1	0	0	5689	864	30	2	7210	2	FAT1	4	187541112	Nonsense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	33756307	187541112	3613164	51	26740										
PDZD2	23037	broad.mit.edu	37	chr5	32091056	32091056	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	caagctctgcagcgaggattActcagcagggccgagcgccg	14	13	2	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:32091056A>C	uc003jhl.2	+	20	7890	c.7502A>C	c.(7501-7503)TAC>TCC	p.Y2501S	PDZD2_uc003jhm.2_Missense_Mutation_p.Y2501S	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2501					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						AGCGAGGATTACTCAGCAGGG	0.632													8	48	---	---	---	---	PASS	C	32091056	C	C	32091056	3	2	68	1	0	0	0	0	1	0	0	0	11701	391	14	5	7576	5	PDZD2	5	32091056	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08		32091056	148824204	52	26741										
ADAMTS12	81792	broad.mit.edu	37	chr5	33648940	33648940	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cacttacttctacttcctggCagaaggtagcattgggtcca	9	11	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:33648940C>A	uc003jia.1	-	9	1629	c.1466G>T	c.(1465-1467)TGC>TTC	p.C489F	ADAMTS12_uc010iuq.1_Missense_Mutation_p.C489F	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	489	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TACTTCCTGGCAGAAGGTAGC	0.478										HNSCC(64;0.19)			13	55	---	---	---	---	PASS	A	33648940	A	A	33648940	3	1	68	1	0	0	0	0	1	0	0	0	257	710	25	3	3382	3	ADAMTS12	5	33648940	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	1557884	33648940	147266320	53	26742										
TTC23L	153657	broad.mit.edu	37	chr5	34864559	34864559	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cactggcagagaagcctattTcaacctgcagaaggcagaga	11	10	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:34864559T>C	uc003jiu.2	+	6	657	c.554T>C	c.(553-555)TTC>TCC	p.F185S	TTC23L_uc003jiv.2_5'UTR|TTC23L_uc010iut.1_5'UTR	NM_144725	NP_653326	Q6PF05	TT23L_HUMAN	tetratricopeptide repeat domain 23-like	185	Potential.						binding			central_nervous_system(1)	1						GAAGCCTATTTCAACCTGCAG	0.433													5	57	---	---	---	---	PASS	C	34864559	C	C	34864559	3	2	68	1	0	0	0	0	1	0	0	0	16688	1783	62	5	572	5	TTC23L	5	34864559	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	1215619	34864559	146050701	54	26743										
LIFR	3977	broad.mit.edu	37	chr5	38510628	38510628	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	taaaaactacatttgttccaCtacttgcagaaacagaaata	4	8	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:38510628C>G	uc010ive.1	-	7	1261	c.929G>C	c.(928-930)AGT>ACT	p.S310T	LIFR_uc003jli.2_Missense_Mutation_p.S310T	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	310	Extracellular (Potential).				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					ATTTGTTCCACTACTTGCAGA	0.353			T	PLAG1	salivary adenoma								3	60	---	---	---	---	PASS	G	38510628	G	G	38510628	3	3	68	1	0	0	0	0	1	0	0	0	8780	565	20	4	2420	4	LIFR	5	38510628	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	3646069	38510628	142404632	55	26744										
MAN2A1	4124	broad.mit.edu	37	chr5	109155491	109155491	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gaataaagtagaagatagcgGaattttcaccataaagaata	8	4	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:109155491G>C	uc003kou.1	+	14	3194	c.2231G>C	c.(2230-2232)GGA>GCA	p.G744A		NM_002372	NP_002363	Q16706	MA2A1_HUMAN	mannosidase, alpha, class 2A, member 1	744	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(142;8.66e-07)|all_epithelial(76;7.73e-09)|Prostate(80;0.000303)|Lung NSC(167;0.0186)|all_lung(232;0.0241)|Ovarian(225;0.0444)|Colorectal(57;0.0959)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;2.17e-10)|Epithelial(69;1.37e-09)|COAD - Colon adenocarcinoma(37;0.141)		GAAGATAGCGGAATTTTCACC	0.333													17	103	---	---	---	---	PASS	C	109155491	C	C	109155491	3	2	68	1	0	0	0	0	1	0	0	0	9214	1174	41	2	2285	2	MAN2A1	5	109155491	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	70644863	109155491	71759769	56	26745										
SLC12A2	6558	broad.mit.edu	37	chr5	127520118	127520118	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	catgaagatgataaagagcaAgatattgcagataaaatgaa	9	3	0	7			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:127520118A>G	uc003kus.2	+	25	3524	c.3360A>G	c.(3358-3360)CAA>CAG	p.Q1120Q	SLC12A2_uc010jdf.2_RNA|SLC12A2_uc010jdg.2_Silent_p.Q1104Q	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12	1120	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	ATAAAGAGCAAGATATTGCAG	0.313													7	54	---	---	---	---	PASS	G	127520118	G	G	127520118	2	3	68	1	0	0	0	0	0	0	0	1	14383	69	3	5		5	SLC12A2	5	127520118	Silent	SNP	A	TCGA-34-5234-01A-01D-1632-08	18364627	127520118	53395142	57	26746										
FBN2	2201	broad.mit.edu	37	chr5	127636600	127636600	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	caggtaccaggagagcaagaGccgggaagggcgacacactc	15	11	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:127636600G>T	uc003kuu.2	-	48	6514	c.6075C>A	c.(6073-6075)GGC>GGA	p.G2025G		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	2025	EGF-like 34; calcium-binding.				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)		GAGAGCAAGAGCCGGGAAGGG	0.413													4	48	---	---	---	---	PASS	T	127636600	T	T	127636600	2	4	68	1	0	0	0	0	0	0	0	1	5703	958	34	3		3	FBN2	5	127636600	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	116482	127636600	53278660	58	26747										
FBN2	2201	broad.mit.edu	37	chr5	127648420	127648420	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctgacgcccaccccgatctcGgtgttgcaagacagactccc	9	17	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:127648420G>A	uc003kuu.2	-	37	5224	c.4785C>T	c.(4783-4785)ACC>ACT	p.T1595T		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1595	TB 6.				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)		CCCCGATCTCGGTGTTGCAAG	0.562													25	153	---	---	---	---	PASS	A	127648420	A	A	127648420	2	1	68	1	0	0	0	0	0	0	0	1	5703	1103	39	1		1	FBN2	5	127648420	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	11820	127648420	53266840	59	26748										
MATR3	9782	broad.mit.edu	37	chr5	138653312	138653312	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gcagagttgttcacatcatgGattttcaacgagggaaaaac	10	7	3	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:138653312G>C	uc003ldu.2	+	10	1637	c.1210G>C	c.(1210-1212)GAT>CAT	p.D404H	MATR3_uc010jfb.2_Missense_Mutation_p.D404H|MATR3_uc003ldt.2_Missense_Mutation_p.D66H|MATR3_uc003ldw.2_Missense_Mutation_p.D404H|MATR3_uc003ldx.2_Missense_Mutation_p.D404H|MATR3_uc010jfc.2_Missense_Mutation_p.D404H|MATR3_uc003ldy.2_Missense_Mutation_p.D81H|MATR3_uc011czb.1_Missense_Mutation_p.D116H|MATR3_uc003ldz.2_Missense_Mutation_p.D404H|MATR3_uc003lea.2_Missense_Mutation_p.D404H|MATR3_uc003leb.2_Missense_Mutation_p.D66H|MATR3_uc003lec.2_Missense_Mutation_p.D81H	NM_199189	NP_954659	P43243	MATR3_HUMAN	matrin 3	404	RRM 1.					nuclear inner membrane|nuclear matrix	nucleotide binding|protein binding|RNA binding|structural molecule activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TCACATCATGGATTTTCAACG	0.348													3	42	---	---	---	---	PASS	C	138653312	C	C	138653312	3	2	68	1	0	0	0	0	1	0	0	0	9337	1174	41	2	1232	2	MATR3	5	138653312	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	11004892	138653312	42261948	60	26749										
PCDHA6	56142	broad.mit.edu	37	chr5	140208977	140208977	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gcgggacgggggctcgccttCgctgtgggccaccgccagct	17	15	0	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:140208977C>A	uc003lho.2	+	1	1328	c.1301C>A	c.(1300-1302)TCG>TAG	p.S434*	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Nonsense_Mutation_p.S434*|PCDHA6_uc011dab.1_Nonsense_Mutation_p.S434*	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	434	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCTCGCCTTCGCTGTGGGCC	0.612													17	66	---	---	---	---	PASS	A	140208977	A	A	140208977	4	1	68	1	0	0	0	0	0	1	0	0	11528	893	31	2	1303	2	PCDHA6	5	140208977	Nonsense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	1555665	140208977	40706283	61	26750										
GRIA1	2890	broad.mit.edu	37	chr5	153149968	153149968	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttgcaacacccaaggggtctGccctgaggtaagtagccaag	12	11	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:153149968G>C	uc003lva.3	+	13	2628	c.2263G>C	c.(2263-2265)GCC>CCC	p.A755P	GRIA1_uc003luy.3_Missense_Mutation_p.A755P|GRIA1_uc003luz.3_Missense_Mutation_p.A660P|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.A675P|GRIA1_uc011dcx.1_Missense_Mutation_p.A686P|GRIA1_uc011dcy.1_Missense_Mutation_p.A765P|GRIA1_uc011dcz.1_Missense_Mutation_p.A765P	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	755	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CAAGGGGTCTGCCCTGAGGTA	0.512													3	21	---	---	---	---	PASS	C	153149968	C	C	153149968	3	2	68	1	0	0	0	0	1	0	0	0	6767	1319	46	4	2313	4	GRIA1	5	153149968	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	12940991	153149968	27765292	62	26751										
GABRP	2568	broad.mit.edu	37	chr5	170222260	170222260	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	agcgctggatggaccagcggCtggtgtttgaaggcaacaag	16	8	0	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:170222260C>A	uc003mau.2	+	5	487	c.289C>A	c.(289-291)CTG>ATG	p.L97M	GABRP_uc011dev.1_Missense_Mutation_p.L97M	NM_014211	NP_055026	O00591	GBRP_HUMAN	gamma-aminobutyric acid (GABA) A receptor, pi	97	Extracellular (Potential).					cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			breast(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0122)|all_lung(126;0.0193)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GGACCAGCGGCTGGTGTTTGA	0.557													5	104	---	---	---	---	PASS	A	170222260	A	A	170222260	3	1	68	1	0	0	0	0	1	0	0	0	6174	796	28	3	303	3	GABRP	5	170222260	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	17072292	170222260	10693000	63	26752										
ATP6V0E1	8992	broad.mit.edu	37	chr5	172410956	172410956	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ccttggttcatccctaagggTcctaaccgggggtaagtgcg	13	11	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr5:172410956T>G	uc003mcd.1	+	1	194	c.93T>G	c.(91-93)GGT>GGG	p.G31G		NM_003945	NP_003936	O15342	VA0E1_HUMAN	ATPase, H+ transporting, lysosomal 9kDa, V0	31					ATP hydrolysis coupled proton transport|cell growth|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport|vacuolar acidification	endosome membrane|integral to membrane|membrane fraction|proton-transporting V-type ATPase, V0 domain|vacuole	proton-transporting ATPase activity, rotational mechanism				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TCCCTAAGGGTCCTAACCGGG	0.647													12	98	---	---	---	---	PASS	G	172410956	G	G	172410956	2	3	68	1	0	0	0	0	0	0	0	1	1175	1654	58	5		5	ATP6V0E1	5	172410956	Silent	SNP	T	TCGA-34-5234-01A-01D-1632-08	2188696	172410956	8504304	64	26753										
TRIM10	10107	broad.mit.edu	37	chr6	30128523	30128523	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cacagtagcgggtaaggcagGcccggcagaagttgtggccg	17	10	0	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr6:30128523G>T	uc003npo.3	-	1	189	c.113C>A	c.(112-114)GCC>GAC	p.A38D	TRIM10_uc003npn.2_Missense_Mutation_p.A38D|TRIM15_uc010jrx.2_5'Flank	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	38	RING-type.					cytoplasm	zinc ion binding				0						GGTAAGGCAGGCCCGGCAGAA	0.622													9	73	---	---	---	---	PASS	T	30128523	T	T	30128523	3	4	68	1	0	0	0	0	1	0	0	0	16483	1203	42	3	1448	3	TRIM10	6	30128523	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08		30128523	140986544	65	26754										
AIM1	202	broad.mit.edu	37	chr6	106999847	106999847	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	atctcttctgttcaacctatAtgtttggtaaggagttatat	7	6	3	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr6:106999847A>G	uc003prh.2	+	12	4696	c.4209A>G	c.(4207-4209)ATA>ATG	p.I1403M	AIM1_uc003pri.2_Missense_Mutation_p.I207M	NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	1403	Beta/gamma crystallin 'Greek key' 8.						sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		TTCAACCTATATGTTTGGTAA	0.338													14	87	---	---	---	---	PASS	G	106999847	G	G	106999847	3	3	68	1	0	0	0	0	1	0	0	0	430	439	16	5	4255	5	AIM1	6	106999847	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	76871324	106999847	64115220	66	26755										
FAM184A	79632	broad.mit.edu	37	chr6	119324136	119324136	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttctctcgatctttcaactgCaaaagttgagacattgctga	7	9	3	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr6:119324136C>A	uc003pyj.2	-	9	2364	c.2016G>T	c.(2014-2016)TTG>TTT	p.L672F	FAM184A_uc003pyk.3_Missense_Mutation_p.L552F|FAM184A_uc003pyl.3_Missense_Mutation_p.L552F	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	672	Potential.									ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						CTTTCAACTGCAAAAGTTGAG	0.348													13	82	---	---	---	---	PASS	A	119324136	A	A	119324136	3	1	68	1	0	0	0	0	1	0	0	0	5511	709	25	3	1446	3	FAM184A	6	119324136	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	12324289	119324136	51790931	67	26756										
MAP3K5	4217	broad.mit.edu	37	chr6	136913588	136913588	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tctttaccccaaaaagagtgTccgaattcccttgacatctc	5	13	2	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr6:136913588T>C	uc003qhc.2	-	22	3404	c.3043A>G	c.(3043-3045)ACA>GCA	p.T1015A	MAP3K5_uc011edj.1_Missense_Mutation_p.T262A|MAP3K5_uc011edk.1_Missense_Mutation_p.T861A	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	1015					activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		AAAAAGAGTGTCCGAATTCCC	0.443													14	132	---	---	---	---	PASS	C	136913588	C	C	136913588	3	2	68	1	0	0	0	0	1	0	0	0	9253	1667	58	5	1117	5	MAP3K5	6	136913588	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	17589452	136913588	34201479	68	26757										
C6orf72	116254	broad.mit.edu	37	chr6	149893447	149893447	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	atcagaattaatgtaactacActgaaagatgatggggacat	9	5	1	4			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr6:149893447A>C	uc003qmq.1	+	2	174	c.147A>C	c.(145-147)ACA>ACC	p.T49T	C6orf72_uc010kie.1_Intron	NM_138785	NP_620140	Q9NU53	CF072_HUMAN	hypothetical protein LOC116254 precursor	49	Extracellular (Potential).					integral to membrane					0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;9.66e-12)|GBM - Glioblastoma multiforme(68;0.171)		ATGTAACTACACTGAAAGATG	0.353													3	40	---	---	---	---	PASS	C	149893447	C	C	149893447	2	2	68	1	0	0	0	0	0	0	0	1	2371	146	6	5		5	C6orf72	6	149893447	Silent	SNP	A	TCGA-34-5234-01A-01D-1632-08	12979859	149893447	21221620	69	26758										
THBS2	7058	broad.mit.edu	37	chr6	169641988	169641988	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctccgagctggggcccacgtActcggtggtgacatgcggac	15	13	0	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr6:169641988A>G	uc003qwt.2	-	6	1008	c.760T>C	c.(760-762)TAC>CAC	p.Y254H		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	254					cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		GGGCCCACGTACTCGGTGGTG	0.637													6	50	---	---	---	---	PASS	G	169641988	G	G	169641988	3	3	68	1	0	0	0	0	1	0	0	0	15851	391	14	5	2830	5	THBS2	6	169641988	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	19748541	169641988	1473079	70	26759										
SNX13	23161	broad.mit.edu	37	chr7	17861181	17861181	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggaagtcactataacgacgaTaggttttccacatctcctca	7	11	3	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:17861181T>C	uc003stw.1	-	18	2042	c.1829A>G	c.(1828-1830)TAT>TGT	p.Y610C	SNX13_uc003stv.2_Missense_Mutation_p.Y599C|SNX13_uc010kuc.2_Missense_Mutation_p.Y396C|SNX13_uc010kub.2_Missense_Mutation_p.Y5C			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;	610	PX.				cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					ATAACGACGATAGGTTTTCCA	0.398													7	79	---	---	---	---	PASS	C	17861181	C	C	17861181	3	2	68	1	0	0	0	0	1	0	0	0	14884	1406	49	5	1113	5	SNX13	7	17861181	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08		17861181	141277482	71	26760										
CDCA7L	55536	broad.mit.edu	37	chr7	21948030	21948030	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	atactacttcttctagacctGcttcttctaggggtagcctt	7	11	4	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:21948030G>A	uc010kuk.2	-	4	519	c.399C>T	c.(397-399)AGC>AGT	p.S133S	CDCA7L_uc003sve.3_Silent_p.S99S|CDCA7L_uc010kul.2_Silent_p.S87S|CDCA7L_uc003svf.3_Silent_p.S132S|CDCA7L_uc011jyk.1_Silent_p.S133S	NM_018719	NP_061189	Q96GN5	CDA7L_HUMAN	cell division cycle associated 7-like isoform 1	133					positive regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus					0						TTCTAGACCTGCTTCTTCTAG	0.453													4	44	---	---	---	---	PASS	A	21948030	A	A	21948030	2	1	68	1	0	0	0	0	0	0	0	1	3091	1310	46	3		3	CDCA7L	7	21948030	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	4086849	21948030	137190633	72	26761										
VPS41	27072	broad.mit.edu	37	chr7	38937702	38937702	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ccaccttacctcagactcatCtgtagattcttcaagggacc	6	14	5	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:38937702C>G	uc003tgy.2	-	2	75	c.49G>C	c.(49-51)GAT>CAT	p.D17H	VPS41_uc003tgz.2_Missense_Mutation_p.D17H|VPS41_uc010kxn.2_Missense_Mutation_p.D17H	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	17					Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						TCAGACTCATCTGTAGATTCT	0.428													3	39	---	---	---	---	PASS	G	38937702	G	G	38937702	3	3	68	1	0	0	0	0	1	0	0	0	17207	913	32	2	2627	2	VPS41	7	38937702	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	16989672	38937702	120200961	73	26762										
HECW1	23072	broad.mit.edu	37	chr7	43506139	43506139	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	caagttcatcaccaaccccgAgttcttcactgtgctacatg	6	14	4	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:43506139A>C	uc003tid.1	+	15	3490	c.2885A>C	c.(2884-2886)GAG>GCG	p.E962A	HECW1_uc011kbi.1_Missense_Mutation_p.E928A	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	962					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						ACCAACCCCGAGTTCTTCACT	0.493													7	72	---	---	---	---	PASS	C	43506139	C	C	43506139	3	2	68	1	0	0	0	0	1	0	0	0	7042	304	11	5	2935	5	HECW1	7	43506139	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	4568437	43506139	115632524	74	26763										
NPC1L1	29881	broad.mit.edu	37	chr7	44579469	44579469	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gcgtggcagctgcagggacgCgcacacggctgcaggagtca	17	12	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:44579469C>A	uc003tlb.2	-	2	583	c.527G>T	c.(526-528)CGC>CTC	p.R176L	NPC1L1_uc003tlc.2_Missense_Mutation_p.R176L|NPC1L1_uc011kbw.1_Missense_Mutation_p.R176L|NPC1L1_uc003tld.2_Missense_Mutation_p.R176L	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	176	Extracellular (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	TGCAGGGACGCGCACACGGCT	0.622													4	49	---	---	---	---	PASS	A	44579469	A	A	44579469	3	1	68	1	0	0	0	0	1	0	0	0	10571	768	27	1	3628	1	NPC1L1	7	44579469	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	1073330	44579469	114559194	75	26764										
PKD1L1	168507	broad.mit.edu	37	chr7	47988034	47988034	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gttctgggctgcctcctcggCcatgtcctgtgcaagctggt	13	13	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:47988034C>A	uc003tny.1	-	1	4	c.4G>T	c.(4-6)GCC>TCC	p.A2S		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GCCTCCTCGGCCATGTCCTGT	0.453													10	31	---	---	---	---	PASS	A	47988034	A	A	47988034	3	1	68	1	0	0	0	0	1	0	0	0	11964	739	26	3	8773	3	PKD1L1	7	47988034	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	3408565	47988034	111150629	76	26765										
BAZ1B	9031	broad.mit.edu	37	chr7	72865253	72865253	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	caggcatcaagcatcccaagCagcacgtgcatcctggagaa	10	13	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:72865253C>A	uc003tyc.2	-	14	3849	c.3504G>T	c.(3502-3504)CTG>CTT	p.L1168L		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	1168					ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				GCATCCCAAGCAGCACGTGCA	0.448													5	51	---	---	---	---	PASS	A	72865253	A	A	72865253	2	1	68	1	0	0	0	0	0	0	0	1	1330	697	25	3		3	BAZ1B	7	72865253	Silent	SNP	C	TCGA-34-5234-01A-01D-1632-08	24877219	72865253	86273410	77	26766										
BAZ1B	9031	broad.mit.edu	37	chr7	72891444	72891444	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	atcattttcttccttcaacaCagcaagccgttccttccaca	3	15	3	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:72891444C>A	uc003tyc.2	-	7	2692	c.2347G>T	c.(2347-2349)GTG>TTG	p.V783L		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	783	Potential.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				tccttCAACACAGCAAGCCGT	0.318													6	54	---	---	---	---	PASS	A	72891444	A	A	72891444	3	1	68	1	0	0	0	0	1	0	0	0	1330	478	17	3	2156	3	BAZ1B	7	72891444	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	26191	72891444	86247219	78	26767										
MAGI2	9863	broad.mit.edu	37	chr7	77973166	77973166	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tcacctgcagaaactcatcaGgctcgtctccaccaatgatg	7	14	4	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:77973166G>T	uc003ugx.2	-	9	1591	c.1337C>A	c.(1336-1338)CCT>CAT	p.P446H	MAGI2_uc003ugy.2_Missense_Mutation_p.P446H|MAGI2_uc010ldx.1_Missense_Mutation_p.P55H|MAGI2_uc010ldy.1_Missense_Mutation_p.P55H|MAGI2_uc011kgr.1_Missense_Mutation_p.P278H|MAGI2_uc011kgs.1_Missense_Mutation_p.P283H	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	446	PDZ 2.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				AAACTCATCAGGCTCGTCTCC	0.473													3	47	---	---	---	---	PASS	T	77973166	T	T	77973166	3	4	68	1	0	0	0	0	1	0	0	0	9191	1000	35	3	3086	3	MAGI2	7	77973166	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	5081722	77973166	81165497	79	26768										
HGF	3082	broad.mit.edu	37	chr7	81350120	81350120	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gttagtccagatcttgtttgGgataagttgcccatataatt	9	6	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:81350120G>C	uc003uhl.2	-	10	1377	c.1212C>G	c.(1210-1212)TCC>TCG	p.S404S	HGF_uc003uhm.2_Silent_p.S399S	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	404	Kringle 4.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						ATCTTGTTTGGGATAAGTTGC	0.328													3	39	---	---	---	---	PASS	C	81350120	C	C	81350120	2	2	68	1	0	0	0	0	0	0	0	1	7085	1219	43	4		4	HGF	7	81350120	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	3376954	81350120	77788543	80	26769										
LMTK2	22853	broad.mit.edu	37	chr7	97823671	97823671	+	Silent	SNP	G	T	T													0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gacgactcggacgaggacctGcgggccttcaacctgcatag							TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:97823671G>T	uc003upd.1	+	11	4187	c.3894G>T	c.(3892-3894)CTG>CTT	p.L1298L		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	1298					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)					ACGAGGACCTGCGGGCCTTCA	0.632													3	46	---	---	---	---	PASS	T	97823671	T	T	97823671	2	4	68	1	0	0	0	0	0	0	0	1	8859	1306	46	3		3	LMTK2	7	97823671	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	16473551	97823671	61314992	81	26770	558	2								
LMTK2	22853	broad.mit.edu	37	chr7	97823674	97823674	+	Silent	SNP	G	A	A													0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gactcggacgaggacctgcgGgccttcaacctgcatagcct							TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:97823674G>A	uc003upd.1	+	11	4190	c.3897G>A	c.(3895-3897)CGG>CGA	p.R1299R		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	1299					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)					AGGACCTGCGGGCCTTCAACC	0.632													4	45	---	---	---	---	PASS	A	97823674	A	A	97823674	2	1	68	1	0	0	0	0	0	0	0	1	8859	1219	43	3		3	LMTK2	7	97823674	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	3	97823674	61314989	82	26771	558	2								
ZNF3	7551	broad.mit.edu	37	chr7	99669446	99669446	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gggcttttccccagtgtggaTtctctgatgttgaataaggt	12	7	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:99669446T>C	uc003usq.2	-	6	968	c.661A>G	c.(661-663)ATC>GTC	p.I221V	ZNF3_uc003usp.2_Intron|ZNF3_uc003usr.2_Missense_Mutation_p.I221V|ZNF3_uc010lgj.2_Missense_Mutation_p.I185V|ZNF3_uc003uss.2_Missense_Mutation_p.I228V|ZNF3_uc003ust.3_Missense_Mutation_p.I221V	NM_032924	NP_116313	P17036	ZNF3_HUMAN	zinc finger protein 3 isoform 2	221	C2H2-type 1.				cell differentiation|leukocyte activation|multicellular organismal development	nucleus	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)	Ovarian(593;2.06e-05)|Myeloproliferative disorder(862;0.0122)|Breast(660;0.029)	STAD - Stomach adenocarcinoma(171;0.129)			CCAGTGTGGATTCTCTGATGT	0.463													10	65	---	---	---	---	PASS	C	99669446	C	C	99669446	3	2	68	1	0	0	0	0	1	0	0	0	17826	1493	52	5	812	5	ZNF3	7	99669446	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	1845772	99669446	59469217	83	26772										
DNAJB9	4189	broad.mit.edu	37	chr7	108212208	108212208	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	aattttcatctttgcaatctGcattttaatgataacagaat	4	6	3	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:108212208G>T	uc003vfn.2	+	2	240	c.38G>T	c.(37-39)TGC>TTC	p.C13F	THAP5_uc003vfl.2_5'Flank|THAP5_uc003vfm.2_5'Flank	NM_012328	NP_036460	Q9UBS3	DNJB9_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 9	13					ER-associated protein catabolic process|protein folding	endoplasmic reticulum|nucleolus	heat shock protein binding|misfolded protein binding|unfolded protein binding				0						TTTGCAATCTGCATTTTAATG	0.348													9	70	---	---	---	---	PASS	T	108212208	T	T	108212208	3	4	68	1	0	0	0	0	1	0	0	0	4627	1319	46	3	40	3	DNAJB9	7	108212208	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	8542762	108212208	50926455	84	26773										
CFTR	1080	broad.mit.edu	37	chr7	117171036	117171036	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	aacaaggaggaacgctctatCgcgatttatctaggcatagg	11	8	2	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:117171036C>G	uc003vjd.2	+	4	489	c.357C>G	c.(355-357)ATC>ATG	p.I119M	CFTR_uc011knq.1_Translation_Start_Site	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	119	Helical; Name=2; (Potential).|ABC transmembrane type-1 1.				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	AACGCTCTATCGCGATTTATC	0.453									Cystic_Fibrosis				3	33	---	---	---	---	PASS	G	117171036	G	G	117171036	3	3	68	1	0	0	0	0	1	0	0	0	3294	874	31	2	371	2	CFTR	7	117171036	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	8958828	117171036	41967627	85	26774										
SSPO	23145	broad.mit.edu	37	chr7	149502592	149502592	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tggctggcgcagtcgttcccGactctgccccagccctgggg	14	16	1	0	rs111879522		TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:149502592G>T	uc010lpk.2	+	58	8405	c.8405G>T	c.(8404-8406)CGA>CTA	p.R2802L		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2802	TSP type-1 7.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AGTCGTTCCCGACTCTGCCCC	0.677													5	34	---	---	---	---	PASS	T	149502592	T	T	149502592	3	4	68	1	0	0	0	0	1	0	0	0	15188	1058	37	2	8627	2	SSPO	7	149502592	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	32331556	149502592	9636071	86	26775										
SSPO	23145	broad.mit.edu	37	chr7	149520539	149520539	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	atcagctctgccaggacctgCcaccctgccagccgggctgc	11	18	2	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:149520539C>A	uc010lpk.2	+	93	13357	c.13357C>A	c.(13357-13359)CCA>ACA	p.P4453T	SSPO_uc010lpm.1_RNA|SSPO_uc003wgg.2_Intron|SSPO_uc003wgh.2_RNA|SSPO_uc003wgi.1_Intron	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	4453					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCAGGACCTGCCACCCTGCCA	0.642													5	29	---	---	---	---	PASS	A	149520539	A	A	149520539	3	1	68	1	0	0	0	0	1	0	0	0	15188	739	26	3	13717	3	SSPO	7	149520539	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	17947	149520539	9618124	87	26776										
MLL3	58508	broad.mit.edu	37	chr7	151879119	151879119	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	acaggggatggcctatttgcTgttgtctcattcatttgaag	11	7	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr7:151879119T>C	uc003wla.2	-	36	6045	c.5826A>G	c.(5824-5826)ACA>ACG	p.T1942T	MLL3_uc003wkz.2_Silent_p.T1003T	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1942	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GCCTATTTGCTGTTGTCTCAT	0.453			N		medulloblastoma								9	100	---	---	---	---	PASS	C	151879119	C	C	151879119	2	2	68	1	0	0	0	0	0	0	0	1	9622	1567	55	5		5	MLL3	7	151879119	Silent	SNP	T	TCGA-34-5234-01A-01D-1632-08	2358580	151879119	7259544	88	26777										
CSMD1	64478	broad.mit.edu	37	chr8	3216711	3216711	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggtgcactccacacacggcgGcccccacccaggcaggtaag	12	17	0	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr8:3216711G>T	uc011kwk.1	-	21	3660	c.3270C>A	c.(3268-3270)GGC>GGA	p.G1090G	CSMD1_uc011kwj.1_Silent_p.G482G|CSMD1_uc003wqe.2_Silent_p.G246G	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1090	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)		ACACACGGCGGCCCCCACCCA	0.552													5	41	---	---	---	---	PASS	T	3216711	T	T	3216711	2	4	68	1	0	0	0	0	0	0	0	1	3944	1190	42	3		3	CSMD1	8	3216711	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08		3216711	143147311	89	26778										
NEFM	4741	broad.mit.edu	37	chr8	24775515	24775515	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	caaggaagctcccaaggaagAgaaggtagagaaaaaggaag	14	5	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr8:24775515A>T	uc003xed.3	+	3	2180	c.2147A>T	c.(2146-2148)GAG>GTG	p.E716V	NEFM_uc011lac.1_Intron|NEFM_uc010lue.2_Missense_Mutation_p.E340V	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	716	Tail.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		cccaaggaagagaaggtagag	0.174													5	7	---	---	---	---	PASS	T	24775515	T	T	24775515	3	4	68	1	0	0	0	0	1	0	0	0	10316	304	11	5	2157	5	NEFM	8	24775515	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	21558804	24775515	121588507	90	26779										
ZFHX4	79776	broad.mit.edu	37	chr8	77761753	77761753	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttcaatattttccagttctaTcaatgtccttattgtaacta	3	8	3	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr8:77761753T>A	uc003yav.2	+	8	3903	c.3516T>A	c.(3514-3516)TAT>TAA	p.Y1172*	ZFHX4_uc003yau.1_Nonsense_Mutation_p.Y1217*|ZFHX4_uc003yaw.1_Nonsense_Mutation_p.Y1172*	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1172	C2H2-type 8.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCCAGTTCTATCAATGTCCTT	0.313										HNSCC(33;0.089)			5	54	---	---	---	---	PASS	A	77761753	A	A	77761753	4	1	68	1	0	0	0	0	0	1	0	0	17632	1442	50	5	3677	5	ZFHX4	8	77761753	Nonsense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	52986238	77761753	68602269	91	26780										
FABP5	2171	broad.mit.edu	37	chr8	82196796	82196796	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	actcggatctatgaaaaagtAgaataaaaattccatcatca	5	7	3	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr8:82196796A>G	uc003yca.1	+	4	450	c.402A>G	c.(400-402)GTA>GTG	p.V134V		NM_001444	NP_001435	Q01469	FABP5_HUMAN	fatty acid binding protein 5	134					epidermis development	cytoplasm	fatty acid binding|protein binding|transporter activity				0	Lung NSC(7;3.57e-05)|all_lung(9;0.00011)		Epithelial(68;0.102)			ATGAAAAAGTAGAATAAAAAT	0.348													5	28	---	---	---	---	PASS	G	82196796	G	G	82196796	2	3	68	1	0	0	0	0	0	0	0	1	5360	407	15	5		5	FABP5	8	82196796	Silent	SNP	A	TCGA-34-5234-01A-01D-1632-08	4435043	82196796	64167226	92	26781										
RUNX1T1	862	broad.mit.edu	37	chr8	93029532	93029532	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cattgttggaggagtcagccTagattgcgtcttcacatcca	10	10	3	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr8:93029532T>C	uc003yfd.2	-	2	232	c.148A>G	c.(148-150)AGG>GGG	p.R50G	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R23G|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R13G|RUNX1T1_uc010mao.2_Missense_Mutation_p.R23G|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R61G|RUNX1T1_uc003yfh.1_Missense_Mutation_p.R13G|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R13G|RUNX1T1_uc003yff.1_Missense_Mutation_p.R13G|RUNX1T1_uc003yfg.1_Missense_Mutation_p.R13G	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	50					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GGAGTCAGCCTAGATTGCGTC	0.473													4	49	---	---	---	---	PASS	C	93029532	C	C	93029532	3	2	68	1	0	0	0	0	1	0	0	0	13747	1521	53	5	1706	5	RUNX1T1	8	93029532	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	10832736	93029532	53334490	93	26782										
MTDH	92140	broad.mit.edu	37	chr8	98703374	98703374	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctaatacaaatggaaaagacTggggaaggagttggagtgac	14	4	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr8:98703374T>A	uc003yhz.2	+	6	1334	c.1006T>A	c.(1006-1008)TGG>AGG	p.W336R	MTDH_uc010mbf.2_RNA	NM_178812	NP_848927	Q86UE4	LYRIC_HUMAN	metadherin	336	Cytoplasmic (Potential).				lipopolysaccharide-mediated signaling pathway|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of angiogenesis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein kinase B signaling cascade	apical plasma membrane|endoplasmic reticulum membrane|integral to membrane|intercellular canaliculus|nuclear body|nuclear membrane|nucleolus|perinuclear region of cytoplasm|tight junction	NF-kappaB binding|RNA polymerase II transcription factor binding|transcription coactivator activity			liver(1)|central_nervous_system(1)	2	Breast(36;2.56e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.178)			TGGAAAAGACTGGGGAAGGAG	0.383													4	51	---	---	---	---	PASS	A	98703374	A	A	98703374	3	1	68	1	0	0	0	0	1	0	0	0	9917	1580	55	5	1028	5	MTDH	8	98703374	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	5673842	98703374	47660648	94	26783										
SCRIB	23513	broad.mit.edu	37	chr8	144894454	144894454	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	accatcagcaggttctccgtGaggatcagctcagagaggtt	12	10	4	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr8:144894454G>A	uc003yzp.1	-	9	895	c.888C>T	c.(886-888)CTC>CTT	p.L296L	SCRIB_uc003yzo.1_Silent_p.L296L	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	296	LRR 12.|Sufficient for targeting to adherens junction and to inhibit cell proliferation.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			GGTTCTCCGTGAGGATCAGCT	0.592													14	65	---	---	---	---	PASS	A	144894454	A	A	144894454	2	1	68	1	0	0	0	0	0	0	0	1	13937	1277	45	2		2	SCRIB	8	144894454	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	46191080	144894454	1469568	95	26784										
KANK1	23189	broad.mit.edu	37	chr9	713340	713340	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttcggggaacctcactcacaGatgggctccctcaactctca	8	15	4	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr9:713340G>T	uc003zgl.1	+	7	3223	c.2574G>T	c.(2572-2574)CAG>CAT	p.Q858H	KANK1_uc003zgm.2_Missense_Mutation_p.Q858H|KANK1_uc003zgn.1_Missense_Mutation_p.Q858H|KANK1_uc003zgo.1_Missense_Mutation_p.Q858H|KANK1_uc003zgp.1_Missense_Mutation_p.Q858H|KANK1_uc003zgq.2_Missense_Mutation_p.Q700H|KANK1_uc003zgr.1_Missense_Mutation_p.Q700H|KANK1_uc003zgs.1_Missense_Mutation_p.Q700H	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	858					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		CTCACTCACAGATGGGCTCCC	0.517													10	62	---	---	---	---	PASS	T	713340	T	T	713340	3	4	68	1	0	0	0	0	1	0	0	0	7976	933	33	2	2580	2	KANK1	9	713340	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08		713340	140500091	96	26785										
TAF1L	138474	broad.mit.edu	37	chr9	32633524	32633524	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctgtgagatcctgaggtgtgCgcataaaaaacaactctcca	9	10	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr9:32633524C>A	uc003zrg.1	-	1	2144	c.2054G>T	c.(2053-2055)CGC>CTC	p.R685L	uc003zrh.1_RNA	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	685					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CTGAGGTGTGCGCATAAAAAA	0.453													19	86	---	---	---	---	PASS	A	32633524	A	A	32633524	3	1	68	1	0	0	0	0	1	0	0	0	15520	768	27	1	3430	1	TAF1L	9	32633524	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	31920184	32633524	108579907	97	26786										
TMEM8B	51754	broad.mit.edu	37	chr9	35853663	35853663	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	attcacagcatttggcatatGctcattgcgggcagtgtggg	13	8	2	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr9:35853663G>T	uc003zym.2	+	14	2260	c.1245G>T	c.(1243-1245)ATG>ATT	p.M415I	TMEM8B_uc003zyo.2_Missense_Mutation_p.M415I	NM_001042589	NP_001036054	A6NDV4	TMM8B_HUMAN	transmembrane protein 8B isoform a	415	Helical; (Potential).				cell-matrix adhesion|regulation of growth|regulation of mitotic cell cycle	cell surface|endoplasmic reticulum|integral to membrane|mitochondrion|nucleus|plasma membrane	protein binding			ovary(1)	1						TTTGGCATATGCTCATTGCGG	0.587													12	64	---	---	---	---	PASS	T	35853663	T	T	35853663	3	4	68	1	0	0	0	0	1	0	0	0	16212	1319	46	3	1473	3	TMEM8B	9	35853663	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	3220139	35853663	105359768	98	26787										
CTSL1	1514	broad.mit.edu	37	chr9	90345351	90345351	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	atggatcatggtgtgctggtGgttggctacggatttgaaag	16	4	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr9:90345351G>T	uc004aph.2	+	7	1190	c.840G>T	c.(838-840)GTG>GTT	p.V280V	CTSL1_uc004api.2_Silent_p.V280V|CTSL1_uc004apj.2_Silent_p.V225V|CTSL1_uc010mqh.2_Silent_p.V98V|CTSL1_uc004apk.2_Silent_p.V280V|CTSL1_uc004apl.2_Silent_p.V280V	NM_001912	NP_001903	P07711	CATL1_HUMAN	cathepsin L1 preproprotein	280					macrophage apoptosis|proteolysis	extracellular region|lysosome|nucleus	cysteine-type endopeptidase activity|histone binding			ovary(3)	3					Glucagon recombinant(DB00040)	GTGTGCTGGTGGTTGGCTACG	0.418													6	55	---	---	---	---	PASS	T	90345351	T	T	90345351	2	4	68	1	0	0	0	0	0	0	0	1	4038	1335	47	3		3	CTSL1	9	90345351	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	54491688	90345351	50868080	99	26788										
IPPK	64768	broad.mit.edu	37	chr9	95411767	95411767	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	acacagaatcggccggtgctCtgcaaagcggtaggtttgga	14	9	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr9:95411767C>A	uc004asl.1	-	5	659	c.382G>T	c.(382-384)GAG>TAG	p.E128*		NM_022755	NP_073592	Q9H8X2	IPPK_HUMAN	inositol 1,3,4,5,6-pentakisphosphate 2-kinase	128					inositol or phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol pentakisphosphate 2-kinase activity			ovary(2)	2						GGCCGGTGCTCTGCAAAGCGG	0.507													6	37	---	---	---	---	PASS	A	95411767	A	A	95411767	4	1	68	1	0	0	0	0	0	1	0	0	7801	922	32	2	1129	2	IPPK	9	95411767	Nonsense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	5066416	95411767	45801664	100	26789										
ZNF462	58499	broad.mit.edu	37	chr9	109692032	109692032	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gtgcttttgcagatttcaaaCaagagagggtaaggatatgt	12	4	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr9:109692032C>G	uc004bcz.2	+	3	6128	c.5839C>G	c.(5839-5841)CAA>GAA	p.Q1947E	ZNF462_uc010mto.2_Missense_Mutation_p.Q1795E|ZNF462_uc004bda.2_Missense_Mutation_p.Q1795E|ZNF462_uc011lvz.1_5'Flank	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1947					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						AGATTTCAAACAAGAGAGGGT	0.488													4	27	---	---	---	---	PASS	G	109692032	G	G	109692032	3	3	68	1	0	0	0	0	1	0	0	0	17923	479	17	4	5845	4	ZNF462	9	109692032	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	14280265	109692032	31521399	101	26790										
NRG3	10718	broad.mit.edu	37	chr10	83635583	83635583	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctcgcctgaccaccatcacgCgggcgcccactcgcttcccc	8	22	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr10:83635583C>T	uc001kco.2	+	1	514	c.487C>T	c.(487-489)CGG>TGG	p.R163W	NRG3_uc010qlz.1_Missense_Mutation_p.R163W|NRG3_uc001kcp.2_5'Flank|NRG3_uc001kcq.2_5'Flank	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	163	Ser/Thr-rich.|Extracellular (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)		CACCATCACGCGGGCGCCCAC	0.592													3	24	---	---	---	---	PASS	T	83635583	T	T	83635583	3	4	68	1	0	0	0	0	1	0	0	0	10649	759	27	1	489	1	NRG3	10	83635583	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08		83635583	51899164	102	26791										
C10orf26	54838	broad.mit.edu	37	chr10	104572554	104572554	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	agccccttgtctgagcccagCagaagcagcacaagaccccc	9	17	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr10:104572554C>T	uc001kwe.3	+	4	755	c.495C>T	c.(493-495)AGC>AGT	p.S165S	C10orf26_uc001kwf.3_Silent_p.S186S|C10orf26_uc009xxg.1_Intron	NM_017787	NP_060257	Q9NX94	OPA1L_HUMAN	hypothetical protein LOC54838 isoform 2	165	Pro-rich.					integral to membrane				central_nervous_system(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;6.14e-09)|all cancers(201;1.66e-07)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CTGAGCCCAGCAGAAGCAGCA	0.652													4	26	---	---	---	---	PASS	T	104572554	T	T	104572554	2	4	68	1	0	0	0	0	0	0	0	1	1599	709	25	3		3	C10orf26	10	104572554	Silent	SNP	C	TCGA-34-5234-01A-01D-1632-08	20936971	104572554	30962193	103	26792										
TCERG1L	256536	broad.mit.edu	37	chr10	132944776	132944776	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	agggcttagttacttgctggTgcctccagcttgcgtttgtg	13	9	0	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr10:132944776T>G	uc001lkp.2	-	7	1268	c.1182A>C	c.(1180-1182)GCA>GCC	p.A394A	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	394										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		TACTTGCTGGTGCCTCCAGCT	0.493													11	35	---	---	---	---	PASS	G	132944776	G	G	132944776	2	3	68	1	0	0	0	0	0	0	0	1	15683	1683	59	5		5	TCERG1L	10	132944776	Silent	SNP	T	TCGA-34-5234-01A-01D-1632-08	28372222	132944776	2589971	104	26793										
EFCAB4A	283229	broad.mit.edu	37	chr11	828686	828686	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	aggggggctctgcagggccgCgggctgcaatactggagcag	19	10	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:828686C>G	uc001lrv.2	+	1	457	c.79C>G	c.(79-81)CGG>GGG	p.R27G	EFCAB4A_uc010qwt.1_Missense_Mutation_p.R27G|EFCAB4A_uc009ycm.1_Missense_Mutation_p.R27G|EFCAB4A_uc001lrw.2_5'Flank			Q8N4Y2	EFC4A_HUMAN	RecName: Full=EF-hand calcium-binding domain-containing protein 4A;	27					store-operated calcium entry		calcium ion binding				0		all_cancers(49;2.31e-08)|all_epithelial(84;3.72e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.179)|all_lung(207;0.227)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGCAGGGCCGCGGGCTGCAAT	0.652													5	51	---	---	---	---	PASS	G	828686	G	G	828686	3	3	68	1	0	0	0	0	1	0	0	0	4936	759	27	4	81	4	EFCAB4A	11	828686	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08		828686	134177830	105	26794										
STK33	65975	broad.mit.edu	37	chr11	8435164	8435164	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttctgttgtgttttcctcaaCactttctgggttatttttcc	6	9	3	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:8435164C>G	uc001mgi.1	-	11	2141	c.1222G>C	c.(1222-1224)GTT>CTT	p.V408L	STK33_uc001mgj.1_Missense_Mutation_p.V408L|STK33_uc001mgk.1_Missense_Mutation_p.V408L|STK33_uc010rbn.1_Missense_Mutation_p.V367L|STK33_uc001mgl.3_Missense_Mutation_p.V221L	NM_030906	NP_112168	Q9BYT3	STK33_HUMAN	serine/threonine kinase 33	408						Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|pancreas(1)|central_nervous_system(1)|skin(1)	7				Epithelial(150;2.13e-06)|BRCA - Breast invasive adenocarcinoma(625;0.239)		TTTTCCTCAACACTTTCTGGG	0.378													11	113	---	---	---	---	PASS	G	8435164	G	G	8435164	3	3	68	1	0	0	0	0	1	0	0	0	15299	478	17	4	330	4	STK33	11	8435164	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	7606478	8435164	126571352	106	26795										
OR5L2	26338	broad.mit.edu	37	chr11	55594722	55594722	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	aggaaaactgcaccactgtgGctgagttcattctccttgga	10	10	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:55594722G>T	uc001nhy.1	+	1	28	c.28G>T	c.(28-30)GCT>TCT	p.A10S		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				CACCACTGTGGCTGAGTTCAT	0.413										HNSCC(27;0.073)			16	153	---	---	---	---	PASS	T	55594722	T	T	55594722	3	4	68	1	0	0	0	0	1	0	0	0	11171	1203	42	3	30	3	OR5L2	11	55594722	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	47159558	55594722	79411794	107	26796										
OR5W2	390148	broad.mit.edu	37	chr11	55681406	55681406	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctgataggatgatataacaaTaagaaatgaaaactcctgaa	7	5	0	5			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:55681406T>A	uc010rir.1	-	1	653	c.653A>T	c.(652-654)TAT>TTT	p.Y218F		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	218	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GATATAACAATAAGAAATGAA	0.398													5	46	---	---	---	---	PASS	A	55681406	A	A	55681406	3	1	68	1	0	0	0	0	1	0	0	0	11185	1406	49	5	281	5	OR5W2	11	55681406	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	86684	55681406	79325110	108	26797										
OR9Q2	219957	broad.mit.edu	37	chr11	57958868	57958868	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gaggtaaaagaggccactagGaaagccctgagcaaatcaaa	11	8	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:57958868G>C	uc010rka.1	+	1	906	c.906G>C	c.(904-906)AGG>AGC	p.R302S		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	302	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				AGGCCACTAGGAAAGCCCTGA	0.403													8	36	---	---	---	---	PASS	C	57958868	C	C	57958868	3	2	68	1	0	0	0	0	1	0	0	0	11256	1165	41	2	908	2	OR9Q2	11	57958868	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	2277462	57958868	77047648	109	26798										
VWCE	220001	broad.mit.edu	37	chr11	61026208	61026208	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gctgctgggggccagggtggGtggtggctgcaagggctgtg	23	7	0	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:61026208G>T	uc001nra.2	-	20	3086	c.2807C>A	c.(2806-2808)ACC>AAC	p.T936N	VWCE_uc001nrb.2_RNA	NM_152718	NP_689931	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains	936						extracellular region	calcium ion binding			ovary(1)	1						GCCAGGGTGGGTGGTGGCTGC	0.652													9	51	---	---	---	---	PASS	T	61026208	T	T	61026208	3	4	68	1	0	0	0	0	1	0	0	0	17242	1261	44	3	64	3	VWCE	11	61026208	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	3067340	61026208	73980308	110	26799										
AHNAK	79026	broad.mit.edu	37	chr11	62297927	62297927	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	catcaggcatggagatcttgGgggccttgaagtgcatctca	13	9	3	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:62297927G>A	uc001ntl.2	-	5	4262	c.3962C>T	c.(3961-3963)CCC>CTC	p.P1321L	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1321					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GGAGATCTTGGGGGCCTTGAA	0.517													9	163	---	---	---	---	PASS	A	62297927	A	A	62297927	3	1	68	1	0	0	0	0	1	0	0	0	414	1232	43	3	13830	3	AHNAK	11	62297927	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	1271719	62297927	72708589	111	26800										
AHNAK	79026	broad.mit.edu	37	chr11	62298339	62298339	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gaaatgcatctcaggcatctTaaacttgggacccttcagct	8	11	3	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:62298339T>C	uc001ntl.2	-	5	3850	c.3550A>G	c.(3550-3552)AAG>GAG	p.K1184E	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1184					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TCAGGCATCTTAAACTTGGGA	0.522													13	181	---	---	---	---	PASS	C	62298339	C	C	62298339	3	2	68	1	0	0	0	0	1	0	0	0	414	1763	61	5	14242	5	AHNAK	11	62298339	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	412	62298339	72708177	112	26801										
CCDC87	55231	broad.mit.edu	37	chr11	66358540	66358540	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttccaatcccactctcctggCacaaagtctggttcttcatc	5	15	4	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:66358540C>A	uc001oiq.3	-	1	2015	c.1947G>T	c.(1945-1947)GTG>GTT	p.V649V	CCS_uc001oir.2_5'Flank	NM_018219	NP_060689	Q9NVE4	CCD87_HUMAN	coiled-coil domain containing 87	649										ovary(1)|skin(1)	2						ACTCTCCTGGCACAAAGTCTG	0.542													5	56	---	---	---	---	PASS	A	66358540	A	A	66358540	2	1	68	1	0	0	0	0	0	0	0	1	2862	697	25	3		3	CCDC87	11	66358540	Silent	SNP	C	TCGA-34-5234-01A-01D-1632-08	4060201	66358540	68647976	113	26802										
KRTAP5-10	387273	broad.mit.edu	37	chr11	71276767	71276767	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tggctccagctgctgtgtgcCcgtctgctgctgcaagcccg	13	15	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:71276767C>T	uc001oqt.1	+	1	159	c.134C>T	c.(133-135)CCC>CTC	p.P45L		NM_001012710	NP_001012728	Q6L8G5	KR510_HUMAN	keratin associated protein 5-10	45						keratin filament				skin(1)	1						TGCTGTGTGCCCGTCTGCTGC	0.687													12	72	---	---	---	---	PASS	T	71276767	T	T	71276767	3	4	68	1	0	0	0	0	1	0	0	0	8559	623	22	3	136	3	KRTAP5-10	11	71276767	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	4918227	71276767	63729749	114	26803										
CCDC83	220047	broad.mit.edu	37	chr11	85610060	85610060	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tgactggctcaaaaaagaggTaagtggaatttatcaaaaca	9	5	2	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:85610060T>C	uc001pbh.1	+	7	1184	c.672_splice	c.e7+2	p.E224_splice	CCDC83_uc001pbg.1_Splice_Site_p.E224_splice|CCDC83_uc001pbi.1_Splice_Site|CCDC83_uc001pbj.1_Splice_Site_p.E125_splice	NM_173556	NP_775827	Q8IWF9	CCD83_HUMAN	coiled-coil domain containing 83											skin(1)	1		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				AAAAAAGAGGTAAGTGGAATT	0.348													5	52	---	---	---	---	PASS	C	85610060	C	C	85610060	5	2	68	1	0	0	0	0	0	0	1	0	2857	1652	57	5	696	5	CCDC83	11	85610060	Splice_Site	SNP	T	TCGA-34-5234-01A-01D-1632-08	14333293	85610060	49396456	115	26804										
MMP13	4322	broad.mit.edu	37	chr11	102822866	102822866	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggtcaagacctaaggagtggCcgaactcatgcgcagcaaca	12	11	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:102822866C>A	uc001phl.2	-	5	702	c.674G>T	c.(673-675)GGC>GTC	p.G225V		NM_002427	NP_002418	P45452	MMP13_HUMAN	matrix metalloproteinase 13 preproprotein	225					collagen catabolic process|proteolysis	extracellular space	metalloendopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.0144)		TAAGGAGTGGCCGAACTCATG	0.443													10	112	---	---	---	---	PASS	A	102822866	A	A	102822866	3	1	68	1	0	0	0	0	1	0	0	0	9652	739	26	3	765	3	MMP13	11	102822866	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	17212806	102822866	32183650	116	26805										
VPS11	55823	broad.mit.edu	37	chr11	118939986	118939986	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	acaaactacgggtgacacacCtgtaccaactgaagcagcac	8	13	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:118939986C>T	uc010ryx.1	+	3	310	c.268C>T	c.(268-270)CTG>TTG	p.L90L	VPS11_uc010ryy.1_5'UTR	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	90					protein transport	endocytic vesicle|HOPS complex|late endosome membrane|lysosomal membrane	nucleotide binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.88e-05)		GGTGACACACCTGTACCAACT	0.512													8	71	---	---	---	---	PASS	T	118939986	T	T	118939986	2	4	68	1	0	0	0	0	0	0	0	1	17185	668	24	3		3	VPS11	11	118939986	Silent	SNP	C	TCGA-34-5234-01A-01D-1632-08	16117120	118939986	16066530	117	26806										
OR10G7	390265	broad.mit.edu	37	chr11	123909270	123909270	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cagagagccactgagccaagTgccggtggccaggagggcac	16	12	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:123909270T>A	uc001pzq.1	-	1	439	c.439A>T	c.(439-441)ACT>TCT	p.T147S		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	147	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		CTGAGCCAAGTGCCGGTGGCC	0.557													9	158	---	---	---	---	PASS	A	123909270	A	A	123909270	3	1	68	1	0	0	0	0	1	0	0	0	10902	1696	59	5	500	5	OR10G7	11	123909270	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	4969284	123909270	11097246	118	26807										
CCDC15	80071	broad.mit.edu	37	chr11	124857428	124857428	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	aagaccactgtgttctccctAaagaccagagtattctactc	6	12	2	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:124857428A>G	uc001qbm.3	+	8	1565	c.1306A>G	c.(1306-1308)AAA>GAA	p.K436E		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	436						centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		TGTTCTCCCTAAAGACCAGAG	0.423													8	66	---	---	---	---	PASS	G	124857428	G	G	124857428	3	3	68	1	0	0	0	0	1	0	0	0	2784	363	13	5	1332	5	CCDC15	11	124857428	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	948158	124857428	10149088	119	26808										
KCNJ5	3762	broad.mit.edu	37	chr11	128781411	128781411	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	agtgacctcttcaccaccctGgtggacctcaagtggcgctt	10	14	3	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:128781411G>T	uc001qet.2	+	2	557	c.243G>T	c.(241-243)CTG>CTT	p.L81L	KCNJ5_uc009zck.2_Silent_p.L81L|KCNJ5_uc001qew.2_Silent_p.L81L	NM_000890	NP_000881	P48544	IRK5_HUMAN	potassium inwardly-rectifying channel J5	81	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1	all_hematologic(175;0.0641)	Lung NSC(97;0.00038)|all_lung(97;0.000817)|Breast(109;0.00123)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0059)|LUSC - Lung squamous cell carcinoma(976;0.021)|Lung(977;0.0215)	Glibenclamide(DB01016)	TCACCACCCTGGTGGACCTCA	0.552													8	84	---	---	---	---	PASS	T	128781411	T	T	128781411	2	4	68	1	0	0	0	0	0	0	0	1	8054	1335	47	3		3	KCNJ5	11	128781411	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	3923983	128781411	6225105	120	26809										
NTM	50863	broad.mit.edu	37	chr11	131781454	131781454	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggctgctgttccttgtacccAcaggagtgcccgtgcgcagc	13	14	0	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr11:131781454A>G	uc001qgp.2	+	1	743	c.79A>G	c.(79-81)ACA>GCA	p.T27A	NTM_uc001qgm.2_Intron|NTM_uc010sch.1_Intron|NTM_uc010sci.1_Intron|NTM_uc010scj.1_Intron|NTM_uc001qgo.2_Missense_Mutation_p.T27A|NTM_uc001qgq.2_Missense_Mutation_p.T27A	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	27					cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						CCTTGTACCCACAGGAGTGCC	0.627											OREG0021537	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	45	---	---	---	---	PASS	G	131781454	G	G	131781454	3	3	68	1	0	0	0	0	1	0	0	0	10699	159	6	5	167	5	NTM	11	131781454	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	3000043	131781454	3225062	121	26810										
PLBD1	79887	broad.mit.edu	37	chr12	14689564	14689564	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	aaaacctttaggctgccgttTtttgtgggagagagtgaggg	15	5	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr12:14689564T>A	uc001rcc.1	-	5	800	c.639A>T	c.(637-639)AAA>AAT	p.K213N		NM_024829	NP_079105	Q6P4A8	PLBL1_HUMAN	phospholipase B domain containing 1	213					lipid catabolic process	extracellular region	hydrolase activity				0						GGCTGCCGTTTTTTGTGGGAG	0.448													12	76	---	---	---	---	PASS	A	14689564	A	A	14689564	3	1	68	1	0	0	0	0	1	0	0	0	12025	1838	64	5	1050	5	PLBD1	12	14689564	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08		14689564	119162331	122	26811										
KIAA0528	9847	broad.mit.edu	37	chr12	22678621	22678621	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggtctactttgacaactacaTtgatttccccacggatacct	6	12	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr12:22678621T>C	uc001rfq.2	-	5	596	c.368A>G	c.(367-369)AAT>AGT	p.N123S	KIAA0528_uc010sir.1_5'UTR|KIAA0528_uc010sis.1_Missense_Mutation_p.N123S|KIAA0528_uc010sit.1_Missense_Mutation_p.N123S|KIAA0528_uc010siu.1_Missense_Mutation_p.N123S|KIAA0528_uc001rfr.2_Missense_Mutation_p.N123S|KIAA0528_uc009ziy.1_Missense_Mutation_p.N123S	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	123							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						GACAACTACATTGATTTCCCC	0.284													14	134	---	---	---	---	PASS	C	22678621	C	C	22678621	3	2	68	1	0	0	0	0	1	0	0	0	8182	1493	52	5	2718	5	KIAA0528	12	22678621	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	7989057	22678621	111173274	123	26812										
LRRK2	120892	broad.mit.edu	37	chr12	40748141	40748141	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	attgtgcttagccttggtgcAtcttcctgttgaaaaggaaa	10	7	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr12:40748141A>G	uc001rmg.3	+	45	6738	c.6617A>G	c.(6616-6618)CAT>CGT	p.H2206R	LRRK2_uc009zjw.2_Missense_Mutation_p.H1044R|LRRK2_uc001rmi.2_Missense_Mutation_p.H1039R	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2206					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)				GCCTTGGTGCATCTTCCTGTT	0.393													9	48	---	---	---	---	PASS	G	40748141	G	G	40748141	3	3	68	1	0	0	0	0	1	0	0	0	9033	217	8	5	6795	5	LRRK2	12	40748141	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	18069520	40748141	93103754	124	26813										
NELL2	4753	broad.mit.edu	37	chr12	45168619	45168619	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggcagattagagtttcacacTggatggttccattctgaaaa	10	7	2	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr12:45168619T>C	uc001rog.2	-	9	1500	c.905A>G	c.(904-906)CAG>CGG	p.Q302R	NELL2_uc001rof.3_Missense_Mutation_p.Q301R|NELL2_uc001roh.2_Missense_Mutation_p.Q302R|NELL2_uc009zkd.2_Missense_Mutation_p.Q301R|NELL2_uc010skz.1_Missense_Mutation_p.Q352R|NELL2_uc010sla.1_Missense_Mutation_p.Q325R|NELL2_uc001roi.1_Missense_Mutation_p.Q302R|NELL2_uc010slb.1_Missense_Mutation_p.Q301R|NELL2_uc001roj.2_Missense_Mutation_p.Q302R	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	302	VWFC 1.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		AGTTTCACACTGGATGGTTCC	0.358											OREG0021741	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	34	---	---	---	---	PASS	C	45168619	C	C	45168619	3	2	68	1	0	0	0	0	1	0	0	0	10334	1580	55	5	1593	5	NELL2	12	45168619	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	4420478	45168619	88683276	125	26814										
PDE1B	5153	broad.mit.edu	37	chr12	54966472	54966472	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cttaccacaaccagatccacGcagccgatgttacccagaca	6	16	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr12:54966472G>T	uc001sgd.1	+	7	848	c.682G>T	c.(682-684)GCA>TCA	p.A228S	PDE1B_uc010soz.1_Missense_Mutation_p.A91S|PDE1B_uc010spa.1_Missense_Mutation_p.A187S|PDE1B_uc001sgf.2_Missense_Mutation_p.A91S|PDE1B_uc001sge.2_Missense_Mutation_p.A208S|PDE1B_uc009znq.2_Missense_Mutation_p.A24S	NM_000924	NP_000915	Q01064	PDE1B_HUMAN	phosphodiesterase 1B isoform 1	228	Catalytic (By similarity).				activation of phospholipase C activity|apoptosis|nerve growth factor receptor signaling pathway|platelet activation	cytosol|nucleus	3',5'-cyclic-AMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CCAGATCCACGCAGCCGATGT	0.512													22	274	---	---	---	---	PASS	T	54966472	T	T	54966472	3	4	68	1	0	0	0	0	1	0	0	0	11634	1087	38	1	761	1	PDE1B	12	54966472	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	9797853	54966472	78885423	126	26815										
GRIP1	23426	broad.mit.edu	37	chr12	66765701	66765701	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	catcgtgctccccgacatgaTtgttgcctgtggcattgaca	10	12	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr12:66765701T>C	uc001stk.2	-	22	2870	c.2629A>G	c.(2629-2631)ATC>GTC	p.I877V	GRIP1_uc010sta.1_Missense_Mutation_p.I821V|GRIP1_uc001stj.2_Missense_Mutation_p.I644V|GRIP1_uc001stl.1_Missense_Mutation_p.I754V|GRIP1_uc001stm.2_Missense_Mutation_p.I862V	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	929					androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		CCCGACATGATTGTTGCCTGT	0.517													4	46	---	---	---	---	PASS	C	66765701	C	C	66765701	3	2	68	1	0	0	0	0	1	0	0	0	6787	1493	52	5	613	5	GRIP1	12	66765701	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	11799229	66765701	67086194	127	26816										
KCNC2	3747	broad.mit.edu	37	chr12	75444382	75444382	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tattgacaatgacaggcactGgcatggctattgtcagcact	10	9	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr12:75444382G>A	uc001sxg.1	-	3	1947	c.1403C>T	c.(1402-1404)CCA>CTA	p.P468L	KCNC2_uc009zry.2_Missense_Mutation_p.P468L|KCNC2_uc001sxe.2_Missense_Mutation_p.P468L|KCNC2_uc001sxf.2_Missense_Mutation_p.P468L|KCNC2_uc010stw.1_Missense_Mutation_p.P468L	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	468	Helical; Name=Segment S6; (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						GACAGGCACTGGCATGGCTAT	0.498													4	40	---	---	---	---	PASS	A	75444382	A	A	75444382	3	1	68	1	0	0	0	0	1	0	0	0	8015	1348	47	3	591	3	KCNC2	12	75444382	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	8678681	75444382	58407513	128	26817										
PLXNC1	10154	broad.mit.edu	37	chr12	94641745	94641745	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gtttaaagagttcaaaagtgCgcacgaatgtcactgtgaag	11	6	2	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr12:94641745C>G	uc001tdc.2	+	13	2704	c.2455C>G	c.(2455-2457)CGC>GGC	p.R819G		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	819	Extracellular (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						TTCAAAAGTGCGCACGAATGT	0.463													5	79	---	---	---	---	PASS	G	94641745	G	G	94641745	3	3	68	1	0	0	0	0	1	0	0	0	12126	768	27	4	2505	4	PLXNC1	12	94641745	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	19197363	94641745	39210150	129	26818										
MTMR6	9107	broad.mit.edu	37	chr13	25823431	25823431	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cagcaggttctgatttagaaAactcttctgcatattcacta	6	9	4	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr13:25823431A>G	uc001uqf.3	-	14	2124	c.1805T>C	c.(1804-1806)TTT>TCT	p.F602S	MTMR6_uc001uqe.1_Intron	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	602						cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		TGATTTAGAAAACTCTTCTGC	0.413													4	66	---	---	---	---	PASS	G	25823431	G	G	25823431	3	3	68	1	0	0	0	0	1	0	0	0	9947	14	1	5	64	5	MTMR6	13	25823431	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08		25823431	89346447	130	26819										
MYO16	23026	broad.mit.edu	37	chr13	109644761	109644761	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttggaatattggacatttttGgttttgaagagtttcaaaag	10	2	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr13:109644761G>T	uc001vqt.1	+	21	2467	c.2341G>T	c.(2341-2343)GGT>TGT	p.G781C	MYO16_uc010agk.1_Missense_Mutation_p.G803C|MYO16_uc001vqu.1_Missense_Mutation_p.G581C|MYO16_uc010tjh.1_Missense_Mutation_p.G293C	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	781	Myosin head-like 1.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			GGACATTTTTGGTTTTGAAGA	0.313													11	43	---	---	---	---	PASS	T	109644761	T	T	109644761	3	4	68	1	0	0	0	0	1	0	0	0	10064	1348	47	3	2419	3	MYO16	13	109644761	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	83821330	109644761	5525117	131	26820										
OR4K1	79544	broad.mit.edu	37	chr14	20403871	20403871	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tgtctgagtttgtacttttgGgactctctaattcctgggga	11	7	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr14:20403871G>C	uc001vwj.1	+	1	46	c.46G>C	c.(46-48)GGA>CGA	p.G16R		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		TGTACTTTTGGGACTCTCTAA	0.343													20	211	---	---	---	---	PASS	C	20403871	C	C	20403871	3	2	68	1	0	0	0	0	1	0	0	0	11067	1233	43	4	48	4	OR4K1	14	20403871	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08		20403871	86945669	132	26821										
PCK2	5106	broad.mit.edu	37	chr14	24573040	24573040	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	agacaccactcagctgttctCcctccccaaggacttctggg	8	16	3	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr14:24573040C>T	uc001wlt.2	+	10	1922	c.1790C>T	c.(1789-1791)TCC>TTC	p.S597F	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Intron|PCK2_uc010tnw.1_Missense_Mutation_p.S463F|PCK2_uc010tnx.1_Missense_Mutation_p.S463F|PCK2_uc001wlu.3_Missense_Mutation_p.S431F	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	597					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		CAGCTGTTCTCCCTCCCCAAG	0.577													8	50	---	---	---	---	PASS	T	24573040	T	T	24573040	3	4	68	1	0	0	0	0	1	0	0	0	11582	855	30	2	1920	2	PCK2	14	24573040	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	4169169	24573040	82776500	133	26822										
POLE2	5427	broad.mit.edu	37	chr14	50130032	50130032	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ataaaccaaacattttaataCctagtagtactagagggctc	6	8	0	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr14:50130032C>G	uc001wwu.2	-	10	769	c.755_splice	c.e10+1	p.R252_splice	SDCCAG1_uc010anj.1_Intron|POLE2_uc010ann.2_Splice_Site|POLE2_uc001wwv.2_Splice_Site|POLE2_uc010ano.2_Splice_Site	NM_002692	NP_002683	P56282	DPOE2_HUMAN	DNA-directed DNA polymerase epsilon 2						DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	DNA binding|DNA-directed DNA polymerase activity			ovary(1)|skin(1)	2	all_epithelial(31;0.0021)|Breast(41;0.0124)					CATTTTAATACCTAGTAGTAC	0.378													6	40	---	---	---	---	PASS	G	50130032	G	G	50130032	5	3	68	1	0	0	0	0	0	0	1	0	12197	521	18	4	867	4	POLE2	14	50130032	Splice_Site	SNP	C	TCGA-34-5234-01A-01D-1632-08	25556992	50130032	57219508	134	26823										
SLC39A9	55334	broad.mit.edu	37	chr14	69922539	69922539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	acttgctggtctttgcattgGcagcaccagttatgtccatg	10	10	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr14:69922539G>T	uc001xle.2	+	6	1329	c.649G>T	c.(649-651)GCA>TCA	p.A217S	SLC39A9_uc010aqx.2_Missense_Mutation_p.A194S|SLC39A9_uc001xlf.3_Missense_Mutation_p.A217S|SLC39A9_uc001xlg.3_RNA	NM_018375	NP_060845	Q9NUM3	S39A9_HUMAN	solute carrier family 39 (zinc transporter),	217	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity				0				all cancers(60;0.00299)|BRCA - Breast invasive adenocarcinoma(234;0.0145)|OV - Ovarian serous cystadenocarcinoma(108;0.0373)		CTTTGCATTGGCAGCACCAGT	0.438													4	87	---	---	---	---	PASS	T	69922539	T	T	69922539	3	4	68	1	0	0	0	0	1	0	0	0	14625	1203	42	3	671	3	SLC39A9	14	69922539	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	19792507	69922539	37427001	135	26824										
NEK9	91754	broad.mit.edu	37	chr14	75558095	75558095	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tcctcggaagcctccacttgGgtcaggagtttcagattcct	10	12	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr14:75558095G>A	uc001xrl.2	-	19	2474	c.2320C>T	c.(2320-2322)CCA>TCA	p.P774S	NEK9_uc001xrj.2_5'UTR|NEK9_uc001xrk.2_Missense_Mutation_p.P274S	NM_033116	NP_149107	Q8TD19	NEK9_HUMAN	NIMA-related kinase 9	774	Pro/Ser/Thr-rich.|Interaction with NEK6.				cell division|mitosis	mitochondrion|nucleus	ATP binding|metal ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(2)|stomach(2)|ovary(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00718)		CCTCCACTTGGGTCAGGAGTT	0.567													5	44	---	---	---	---	PASS	A	75558095	A	A	75558095	3	1	68	1	0	0	0	0	1	0	0	0	10331	1232	43	3	635	3	NEK9	14	75558095	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	5635556	75558095	31791445	136	26825										
C14orf143	90141	broad.mit.edu	37	chr14	90263621	90263621	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gtccatagttcagggcatatTcaaagtctctaaagctgacg	9	9	3	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr14:90263621T>C	uc001xxt.2	-	6	543	c.458A>G	c.(457-459)GAA>GGA	p.E153G	C14orf143_uc001xxs.2_Missense_Mutation_p.E129G	NM_145231	NP_660274	Q9BUY7	EFC11_HUMAN	hypothetical protein LOC90141	153	EF-hand 3.						calcium ion binding				0		all_cancers(154;0.136)		Epithelial(152;0.194)		CAGGGCATATTCAAAGTCTCT	0.398													5	46	---	---	---	---	PASS	C	90263621	C	C	90263621	3	2	68	1	0	0	0	0	1	0	0	0	1748	1783	62	5	37	5	C14orf143	14	90263621	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	14705526	90263621	17085919	137	26826										
ATG2B	55102	broad.mit.edu	37	chr14	96783592	96783592	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tttttttttcctgcgagaacGatagttgggatcaacagtgg	11	6	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr14:96783592G>T	uc001yfi.2	-	20	3465	c.3100C>A	c.(3100-3102)CGT>AGT	p.R1034S		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1034										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)		CTGCGAGAACGATAGTTGGGA	0.358													6	48	---	---	---	---	PASS	T	96783592	T	T	96783592	3	4	68	1	0	0	0	0	1	0	0	0	1094	1058	37	2	3228	2	ATG2B	14	96783592	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	6519971	96783592	10565948	138	26827										
HERC2	8924	broad.mit.edu	37	chr15	28492038	28492038	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggaaccaacacccattagctCtggaccttgaagaaggattg	10	10	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr15:28492038C>G	uc001zbj.2	-	22	3347	c.3241G>C	c.(3241-3243)GAG>CAG	p.E1081Q		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1081					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CCCATTAGCTCTGGACCTTGA	0.428													3	38	---	---	---	---	PASS	G	28492038	G	G	28492038	3	3	68	1	0	0	0	0	1	0	0	0	7058	922	32	2	11551	2	HERC2	15	28492038	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08		28492038	74039354	139	26828										
ACSM2B	348158	broad.mit.edu	37	chr16	20563569	20563569	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ccaagatgttcagtatccaaCctgtgtctgatatggtccac	8	11	2	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr16:20563569C>A	uc002dhj.3	-	7	1001	c.791G>T	c.(790-792)GGT>GTT	p.G264V	ACSM2B_uc002dhk.3_Missense_Mutation_p.G264V|ACSM2B_uc010bwf.1_Missense_Mutation_p.G264V	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	264					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						CAGTATCCAACCTGTGTCTGA	0.433													12	128	---	---	---	---	PASS	A	20563569	A	A	20563569	3	1	68	1	0	0	0	0	1	0	0	0	184	507	18	3	978	3	ACSM2B	16	20563569	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08		20563569	69791184	140	26829										
SCNN1G	6340	broad.mit.edu	37	chr16	23197812	23197812	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tcctctggcagtgcgccctcCtcgtcttctccttctatact	6	17	4	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr16:23197812C>T	uc002dlm.1	+	2	359	c.220C>T	c.(220-222)CTC>TTC	p.L74F		NM_001039	NP_001030	P51170	SCNNG_HUMAN	sodium channel, nonvoltage-gated 1, gamma	74	Helical; (By similarity).				excretion|sensory perception of taste	apical plasma membrane|integral to plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(48;0.0366)	Amiloride(DB00594)|Triamterene(DB00384)	GTGCGCCCTCCTCGTCTTCTC	0.582													3	49	---	---	---	---	PASS	T	23197812	T	T	23197812	3	4	68	1	0	0	0	0	1	0	0	0	13930	681	24	3	222	3	SCNN1G	16	23197812	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	2634243	23197812	67156941	141	26830										
ITGAX	3687	broad.mit.edu	37	chr16	31382999	31382999	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cctggccctcgaccctggccGcctgagtccccgtgccacct	10	21	0	1	rs146647978	byFrequency	TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr16:31382999G>A	uc002ebu.1	+	17	2121	c.2054G>A	c.(2053-2055)CGC>CAC	p.R685H	ITGAX_uc002ebt.2_Missense_Mutation_p.R685H	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	685	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GACCCTGGCCGCCTGAGTCCC	0.607													4	45	---	---	---	---	PASS	A	31382999	A	A	31382999	3	1	68	1	0	0	0	0	1	0	0	0	7889	1087	38	1	2120	1	ITGAX	16	31382999	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	8185187	31382999	58971754	142	26831										
NOD2	64127	broad.mit.edu	37	chr16	50756589	50756589	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggccctggctgaagccttggGtgatcaccagagcttgaggt	15	10	1	4	rs104895453		TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr16:50756589G>T	uc002egm.1	+	8	2876	c.2771G>T	c.(2770-2772)GGT>GTT	p.G924V	NOD2_uc010cbl.1_Missense_Mutation_p.G674V|NOD2_uc010cbm.1_Missense_Mutation_p.G674V|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_RNA|NOD2_uc010cbq.1_Missense_Mutation_p.G62V|NOD2_uc010cbr.1_RNA|NOD2_uc010vgq.1_5'UTR	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	924			G -> D (associated with Crohn disease).		activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				GAAGCCTTGGGTGATCACCAG	0.557													26	231	---	---	---	---	PASS	T	50756589	T	T	50756589	3	4	68	1	0	0	0	0	1	0	0	0	10517	1261	44	3	2801	3	NOD2	16	50756589	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	19373590	50756589	39598164	143	26832										
RPGRIP1L	23322	broad.mit.edu	37	chr16	53730170	53730170	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tcacgactgacacgtgacacTgcctggcgagacttcattgt	10	12	2	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr16:53730170T>C	uc002ehp.2	-	3	187	c.123A>G	c.(121-123)GCA>GCG	p.A41A	RPGRIP1L_uc002eho.3_Silent_p.A41A|RPGRIP1L_uc010vgy.1_Silent_p.A41A|RPGRIP1L_uc010cbx.2_Silent_p.A41A|RPGRIP1L_uc010vgz.1_Silent_p.A41A|RPGRIP1L_uc002ehq.1_Silent_p.A41A|RPGRIP1L_uc010cby.1_Silent_p.A41A	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	41					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)				CACGTGACACTGCCTGGCGAG	0.403													8	141	---	---	---	---	PASS	C	53730170	C	C	53730170	2	2	68	1	0	0	0	0	0	0	0	1	13550	1567	55	5		5	RPGRIP1L	16	53730170	Silent	SNP	T	TCGA-34-5234-01A-01D-1632-08	2973581	53730170	36624583	144	26833										
CPNE7	27132	broad.mit.edu	37	chr16	89650453	89650453	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	caggtgatcgccgaggacatCtcggggaacaacggctacgt	14	11	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr16:89650453C>A	uc002fnp.2	+	6	805	c.675C>A	c.(673-675)ATC>ATA	p.I225I	CPNE7_uc002fnq.2_Silent_p.I150I	NM_014427	NP_055242	Q9UBL6	CPNE7_HUMAN	copine 7 isoform b	225					lipid metabolic process		transporter activity				0		all_hematologic(23;0.0748)		all cancers(4;3.63e-08)|OV - Ovarian serous cystadenocarcinoma(4;1.7e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0147)		CCGAGGACATCTCGGGGAACA	0.706													4	39	---	---	---	---	PASS	A	89650453	A	A	89650453	2	1	68	1	0	0	0	0	0	0	0	1	3817	903	32	2		2	CPNE7	16	89650453	Silent	SNP	C	TCGA-34-5234-01A-01D-1632-08	35920283	89650453	704300	145	26834										
OR1D2	4991	broad.mit.edu	37	chr17	2996153	2996153	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gaatcagagctgatggccagGatgatgagcacatttcccac	11	10	1	4			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr17:2996153G>A	uc010vrb.1	-	1	138	c.138C>T	c.(136-138)ATC>ATT	p.I46I		NM_002548	NP_002539	P34982	OR1D2_HUMAN	olfactory receptor, family 1, subfamily D,	46	Helical; Name=1; (Potential).				cellular component movement|chemotaxis|protein import into nucleus, translocation|sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						TGATGGCCAGGATGATGAGCA	0.547													8	63	---	---	---	---	PASS	A	2996153	A	A	2996153	2	1	68	1	0	0	0	0	0	0	0	1	10953	1164	41	2		2	OR1D2	17	2996153	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08		2996153	78199057	146	26835										
NEURL4	84461	broad.mit.edu	37	chr17	7230235	7230235	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	atcccaggccttcccctgccGgtggggagctcaggttcaca	12	15	2	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr17:7230235G>A	uc002gga.1	-	4	894	c.887C>T	c.(886-888)CCG>CTG	p.P296L	NEURL4_uc002ggb.1_Missense_Mutation_p.P296L|NEURL4_uc002ggc.1_5'Flank	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	296							protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						TTCCCCTGCCGGTGGGGAGCT	0.562													3	36	---	---	---	---	PASS	A	7230235	A	A	7230235	3	1	68	1	0	0	0	0	1	0	0	0	10347	1116	39	1	3905	1	NEURL4	17	7230235	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	4234082	7230235	73964975	147	26836										
MYH2	4620	broad.mit.edu	37	chr17	10450814	10450814	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	agatcatccaggctgcataaCgttctttgaggttgtacagc	10	9	2	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr17:10450814C>G	uc010coi.2	-	4	454	c.326G>C	c.(325-327)CGT>CCT	p.R109P	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.R109P|MYH2_uc010coj.2_Missense_Mutation_p.R109P	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	109	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GGCTGCATAACGTTCTTTGAG	0.483													13	97	---	---	---	---	PASS	G	10450814	G	G	10450814	3	3	68	1	0	0	0	0	1	0	0	0	10035	536	19	4	5647	4	MYH2	17	10450814	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	3220579	10450814	70744396	148	26837										
DNAH9	1770	broad.mit.edu	37	chr17	11642197	11642197	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctgattgattggttcaccagGtaaaaagcattcaagatgcg	10	7	2	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr17:11642197G>T	uc002gne.2	+	29	5883	c.5815G>T	c.(5815-5817)GTA>TTA	p.V1939L	DNAH9_uc010coo.2_Missense_Mutation_p.V1233L	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1939	AAA 1 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GGTTCACCAGGTAAAAAGCAT	0.448													5	51	---	---	---	---	PASS	T	11642197	T	T	11642197	3	4	68	1	0	0	0	0	1	0	0	0	4608	1275	44	3	5929	3	DNAH9	17	11642197	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	1191383	11642197	69553013	149	26838										
TTLL6	284076	broad.mit.edu	37	chr17	46847213	46847213	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cttgttcatgtcactctttaGcaaagtccagtttgtgttcg	8	9	3	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr17:46847213G>T	uc010wlo.1	-	15	2322	c.2287C>A	c.(2287-2289)CTA>ATA	p.L763I	TTLL6_uc002iob.2_Missense_Mutation_p.L456I|TTLL6_uc010dbi.2_Intron|TTLL6_uc002ioc.2_Missense_Mutation_p.L516I|TTLL6_uc002iod.2_Intron	NM_001130918	NP_001124390	Q8N841	TTLL6_HUMAN	tubulin tyrosine ligase-like family, member 6	715						cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity				0						TCACTCTTTAGCAAAGTCCAG	0.463													4	48	---	---	---	---	PASS	T	46847213	T	T	46847213	3	4	68	1	0	0	0	0	1	0	0	0	16728	962	34	3	396	3	TTLL6	17	46847213	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	35205016	46847213	34347997	150	26839										
KIF2B	84643	broad.mit.edu	37	chr17	51900915	51900915	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gcaggagatccgagctagacGcgccctcgatgtcaatacca	11	13	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr17:51900915G>A	uc002iua.2	+	1	677	c.521G>A	c.(520-522)CGC>CAC	p.R174H	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	174	Potential.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CGAGCTAGACGCGCCCTCGAT	0.547													7	64	---	---	---	---	PASS	A	51900915	A	A	51900915	3	1	68	1	0	0	0	0	1	0	0	0	8298	1087	38	1	523	1	KIF2B	17	51900915	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	5053702	51900915	29294295	151	26840										
WDR7	23335	broad.mit.edu	37	chr18	54605772	54605772	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	aatgttttgtaggtacacagAcatacggctcttgcagcaaa	9	8	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr18:54605772A>C	uc002lgk.1	+	24	4051	c.3840A>C	c.(3838-3840)AGA>AGC	p.R1280S	WDR7_uc002lgl.1_Missense_Mutation_p.R1247S	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	1280										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		AGGTACACAGACATACGGCTC	0.348													5	41	---	---	---	---	PASS	C	54605772	C	C	54605772	3	2	68	1	0	0	0	0	1	0	0	0	17317	272	10	5	3930	5	WDR7	18	54605772	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08		54605772	23471476	152	26841										
ATP8B1	5205	broad.mit.edu	37	chr18	55317699	55317699	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggatgatagttaaccaaatgTatggctgtctcagagcgttt	11	6	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr18:55317699T>A	uc002lgw.2	-	26	3431	c.3431A>T	c.(3430-3432)TAC>TTC	p.Y1144F	uc002lgu.1_Intron|uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	1144	Helical; (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				TAACCAAATGTATGGCTGTCT	0.413									Byler_disease				3	32	---	---	---	---	PASS	A	55317699	A	A	55317699	3	1	68	1	0	0	0	0	1	0	0	0	1194	1638	57	5	332	5	ATP8B1	18	55317699	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	711927	55317699	22759549	153	26842										
ZCCHC2	54877	broad.mit.edu	37	chr18	60241357	60241357	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tttacaggttacggttctgtCaaccagactgtcactgtcaa	8	10	4	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr18:60241357C>G	uc002lip.3	+	13	2043	c.2043C>G	c.(2041-2043)GTC>GTG	p.V681V	ZCCHC2_uc002lio.2_RNA|ZCCHC2_uc002liq.2_Silent_p.V151V	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	681					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding			lung(1)|prostate(1)	2						ACGGTTCTGTCAACCAGACTG	0.398													4	76	---	---	---	---	PASS	G	60241357	G	G	60241357	2	3	68	1	0	0	0	0	0	0	0	1	17584	813	29	2		2	ZCCHC2	18	60241357	Silent	SNP	C	TCGA-34-5234-01A-01D-1632-08	4923658	60241357	17835891	154	26843										
TMPRSS9	360200	broad.mit.edu	37	chr19	2413785	2413785	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gctggggaatcgggtgtgcgGaagcccggcgtccaggggtc	20	10	0	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr19:2413785G>A	uc010xgx.1	+	9	1240	c.1240G>A	c.(1240-1242)GAA>AAA	p.E414K	TMPRSS9_uc002lvv.1_Missense_Mutation_p.E448K	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	414	Extracellular (Potential).|Peptidase S1 1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGGTGTGCGGAAGCCCGGCG	0.647													6	57	---	---	---	---	PASS	A	2413785	A	A	2413785	3	1	68	1	0	0	0	0	1	0	0	0	16250	1175	41	2	1274	2	TMPRSS9	19	2413785	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08		2413785	56715198	155	26844										
MUC16	94025	broad.mit.edu	37	chr19	9060192	9060192	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cccttgatgtagccccaggaGaacctgtttgggtggtaatg	13	9	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr19:9060192G>C	uc002mkp.2	-	3	27458	c.27254C>G	c.(27253-27255)TCT>TGT	p.S9085C		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9087	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGCCCCAGGAGAACCTGTTTG	0.468													3	67	---	---	---	---	PASS	C	9060192	C	C	9060192	3	2	68	1	0	0	0	0	1	0	0	0	9973	942	33	2	16597	2	MUC16	19	9060192	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	6646407	9060192	50068791	156	26845										
ZNF560	147741	broad.mit.edu	37	chr19	9577721	9577721	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gaggagacaacaaaggctttCccacagtccttatattcata	7	10	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr19:9577721C>A	uc002mlp.1	-	10	2112	c.1902G>T	c.(1900-1902)GGG>GGT	p.G634G	ZNF560_uc010dwr.1_Silent_p.G528G	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	634	C2H2-type 11; degenerate.				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						CAAAGGCTTTCCCACAGTCCT	0.378													6	92	---	---	---	---	PASS	A	9577721	A	A	9577721	2	1	68	1	0	0	0	0	0	0	0	1	17988	842	30	2		2	ZNF560	19	9577721	Silent	SNP	C	TCGA-34-5234-01A-01D-1632-08	517529	9577721	49551262	157	26846										
ZNF563	147837	broad.mit.edu	37	chr19	12429653	12429653	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	aaaagctttcccacatatctTgcatttatgaggtccacctc	5	12	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr19:12429653T>A	uc002mtp.2	-	4	1424	c.1186A>T	c.(1186-1188)AAG>TAG	p.K396*		NM_145276	NP_660319	Q8TA94	ZN563_HUMAN	zinc finger protein 563	396	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCACATATCTTGCATTTATGA	0.428													10	146	---	---	---	---	PASS	A	12429653	A	A	12429653	4	1	68	1	0	0	0	0	0	1	0	0	17991	1821	63	5	248	5	ZNF563	19	12429653	Nonsense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	2851932	12429653	46699330	158	26847										
CD97	976	broad.mit.edu	37	chr19	14517527	14517527	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cctagctgctggttggacttTgagcagggcttcctctggag	14	10	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr19:14517527T>C	uc002myl.2	+	16	2187	c.2064T>C	c.(2062-2064)TTT>TTC	p.F688F	CD97_uc002mym.2_Silent_p.F639F|CD97_uc002myn.2_Silent_p.F595F	NM_078481	NP_510966	P48960	CD97_HUMAN	CD97 antigen isoform 1 precursor	688	Extracellular (Potential).				cell adhesion|cell-cell signaling|cellular component movement|immune response|inflammatory response|neuropeptide signaling pathway	extracellular space|integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(3)|breast(1)	4						GGTTGGACTTTGAGCAGGGCT	0.622											OREG0025312	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	117	---	---	---	---	PASS	C	14517527	C	C	14517527	2	2	68	1	0	0	0	0	0	0	0	1	3049	1809	63	5		5	CD97	19	14517527	Silent	SNP	T	TCGA-34-5234-01A-01D-1632-08	2087874	14517527	44611456	159	26848										
CILP2	148113	broad.mit.edu	37	chr19	19654982	19654982	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggtcttgccttttgatcctcGaggtgccggcgtgtaccacg	13	12	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr19:19654982G>T	uc002nmv.3	+	8	1713	c.1628G>T	c.(1627-1629)CGA>CTA	p.R543L	CILP2_uc002nmw.3_Missense_Mutation_p.R549L	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	543						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						TTTGATCCTCGAGGTGCCGGC	0.607													3	44	---	---	---	---	PASS	T	19654982	T	T	19654982	3	4	68	1	0	0	0	0	1	0	0	0	3430	1058	37	2	1658	2	CILP2	19	19654982	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	5137455	19654982	39474001	160	26849										
RASGRP4	115727	broad.mit.edu	37	chr19	38911761	38911761	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	agcaggcgggcagccaggtcGgcggacggcagcacccagct	17	14	0	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr19:38911761G>C	uc002oir.2	-	3	502	c.288C>G	c.(286-288)GCC>GCG	p.A96A	RASGRP4_uc010efz.1_5'Flank|RASGRP4_uc010ega.1_5'Flank|RASGRP4_uc010xua.1_Silent_p.A96A|RASGRP4_uc010xub.1_Silent_p.A96A|RASGRP4_uc010xuc.1_Silent_p.A96A|RASGRP4_uc010xud.1_Silent_p.A96A|RASGRP4_uc010xue.1_Silent_p.A96A|RASGRP4_uc010egb.2_Silent_p.A96A	NM_170604	NP_733749	Q8TDF6	GRP4_HUMAN	RAS guanyl releasing protein 4 isoform a	96	N-terminal Ras-GEF.				activation of phospholipase C activity|cell growth|cell proliferation|myeloid cell differentiation|positive regulation of Ras protein signal transduction|regulation of G-protein coupled receptor protein signaling pathway|response to extracellular stimulus|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|membrane fraction|plasma membrane|soluble fraction	diacylglycerol binding|GTP-dependent protein binding|metal ion binding|Ras guanyl-nucleotide exchange factor activity			pancreas(1)|lung(1)|skin(1)	3	all_cancers(60;4.21e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CAGCCAGGTCGGCGGACGGCA	0.632													11	49	---	---	---	---	PASS	C	38911761	C	C	38911761	2	2	68	1	0	0	0	0	0	0	0	1	13077	1103	39	4		4	RASGRP4	19	38911761	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	19256779	38911761	20217222	161	26850										
ZNF230	7773	broad.mit.edu	37	chr19	44515309	44515309	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tgaggagtgtgggaagggctAcattagtaagtcaggtctta	15	4	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr19:44515309A>G	uc002oyb.1	+	5	1369	c.1118A>G	c.(1117-1119)TAC>TGC	p.Y373C		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	373	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				GGGAAGGGCTACATTAGTAAG	0.458													10	45	---	---	---	---	PASS	G	44515309	G	G	44515309	3	3	68	1	0	0	0	0	1	0	0	0	17781	391	14	5	1132	5	ZNF230	19	44515309	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	5603548	44515309	14613674	162	26851										
SIGLEC12	89858	broad.mit.edu	37	chr19	52001375	52001375	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tcatccttcacatgcactcgAggcagctccagcaccccaag	7	17	2	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr19:52001375A>T	uc002pwx.1	-	5	1358	c.1302T>A	c.(1300-1302)CCT>CCA	p.P434P	SIGLEC12_uc002pww.1_Silent_p.P316P|SIGLEC12_uc010eoy.1_Silent_p.P161P	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	434	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CATGCACTCGAGGCAGCTCCA	0.607													3	25	---	---	---	---	PASS	T	52001375	T	T	52001375	2	4	68	1	0	0	0	0	0	0	0	1	14308	291	11	5		5	SIGLEC12	19	52001375	Silent	SNP	A	TCGA-34-5234-01A-01D-1632-08	7486066	52001375	7127608	163	26852										
LENG8	114823	broad.mit.edu	37	chr19	54963896	54963896	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	accagtggtaccagcagtacAactatgcctacccctacagc	7	15	0	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr19:54963896A>G	uc002qfv.1	+	4	424	c.280A>G	c.(280-282)AAC>GAC	p.N94D	LENG8_uc002qfw.2_Missense_Mutation_p.N94D			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	94	Tyr-rich.						protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		CCAGCAGTACAACTATGCCTA	0.418													9	59	---	---	---	---	PASS	G	54963896	G	G	54963896	3	3	68	1	0	0	0	0	1	0	0	0	8724	130	5	5	290	5	LENG8	19	54963896	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	2962521	54963896	4165087	164	26853										
ZNF584	201514	broad.mit.edu	37	chr19	58926981	58926981	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggtggatgtgactccagtcaGcagagcagaagccaggagag	16	8	1	4			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr19:58926981G>T	uc002qsp.2	+	3	712	c.260G>T	c.(259-261)AGC>ATC	p.S87I	ZNF584_uc010yia.1_RNA|ZNF584_uc002qsr.2_Missense_Mutation_p.S42I|ZNF584_uc010yib.1_Missense_Mutation_p.S79I	NM_173548	NP_775819	Q8IVC4	ZN584_HUMAN	zinc finger protein 584	87	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;5.3e-17)|all_epithelial(17;3.71e-12)|Lung NSC(17;8.3e-05)|Colorectal(82;0.000147)|all_lung(17;0.000386)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0271)		ACTCCAGTCAGCAGAGCAGAA	0.552													3	38	---	---	---	---	PASS	T	58926981	T	T	58926981	3	4	68	1	0	0	0	0	1	0	0	0	18013	971	34	3	270	3	ZNF584	19	58926981	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	3963085	58926981	202002	165	26854										
TRIB3	57761	broad.mit.edu	37	chr20	368895	368895	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tggagcccgaggagggcgggCgggcctaccaggccctgcac	18	14	0	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr20:368895C>T	uc002wdm.2	+	2	747	c.241C>T	c.(241-243)CGG>TGG	p.R81W	TRIB3_uc002wdn.2_Missense_Mutation_p.R108W	NM_021158	NP_066981	Q96RU7	TRIB3_HUMAN	tribbles 3	81	Protein kinase.				apoptosis|cellular lipid metabolic process|insulin receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fatty acid biosynthetic process|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein binding|positive regulation of ubiquitin-protein ligase activity|regulation of glucose transport|regulation of MAP kinase activity|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	ATP binding|protein kinase activity|protein kinase binding|protein kinase inhibitor activity|transcription corepressor activity|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			central_nervous_system(2)	2		all_epithelial(17;0.165)|Lung NSC(37;0.191)|Breast(17;0.231)		Colorectal(46;0.101)|COAD - Colon adenocarcinoma(99;0.112)		GGAGGGCGGGCGGGCCTACCA	0.667													4	55	---	---	---	---	PASS	T	368895	T	T	368895	3	4	68	1	0	0	0	0	1	0	0	0	16481	759	27	1	243	1	TRIB3	20	368895	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08		368895	62656625	166	26855										
RALGAPA2	57186	broad.mit.edu	37	chr20	20592039	20592039	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cttctgcatgacagcttctgTtatcctgagtagtatttgca	8	9	2	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr20:20592039T>C	uc002wrz.2	-	14	1863	c.1720A>G	c.(1720-1722)ACA>GCA	p.T574A	RALGAPA2_uc010gcx.2_Missense_Mutation_p.T278A|RALGAPA2_uc010zsg.1_Intron	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	574					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						ACAGCTTCTGTTATCCTGAGT	0.378													20	178	---	---	---	---	PASS	C	20592039	C	C	20592039	3	2	68	1	0	0	0	0	1	0	0	0	13014	1725	60	5	4005	5	RALGAPA2	20	20592039	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	20223144	20592039	42433481	167	26856										
CTSZ	1522	broad.mit.edu	37	chr20	57581519	57581519	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	agatccgctggggacaggtaCtcatgaggccgggggtatgt	17	8	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr20:57581519C>T	uc002yai.2	-	2	291	c.165G>A	c.(163-165)GAG>GAA	p.E55E	CTSZ_uc002yaj.3_Silent_p.E55E	NM_001336	NP_001327	Q9UBR2	CATZ_HUMAN	cathepsin Z preproprotein	55					proteolysis	endoplasmic reticulum|extracellular space|lysosome	cysteine-type endopeptidase activity			kidney(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)			GGGACAGGTACTCATGAGGCC	0.637													3	38	---	---	---	---	PASS	T	57581519	T	T	57581519	2	4	68	1	0	0	0	0	0	0	0	1	4043	564	20	3		3	CTSZ	20	57581519	Silent	SNP	C	TCGA-34-5234-01A-01D-1632-08	36989480	57581519	5444001	168	26857										
KRTAP22-1	337979	broad.mit.edu	37	chr21	31973550	31973550	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tatgcctgctactgcccatgGtgttatgaaagatcttggtt	10	8	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr21:31973550G>T	uc011add.1	+	1	111	c.111G>T	c.(109-111)TGG>TGT	p.W37C	KRTAP6-2_uc011adc.1_5'Flank	NM_181620	NP_853651	Q3MIV0	KR221_HUMAN	keratin associated protein 22-1	37						intermediate filament					0						ACTGCCCATGGTGTTATGAAA	0.478													12	139	---	---	---	---	PASS	T	31973550	T	T	31973550	3	4	68	1	0	0	0	0	1	0	0	0	8540	1270	44	3	113	3	KRTAP22-1	21	31973550	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08		31973550	16156345	169	26858										
KRTAP10-6	386674	broad.mit.edu	37	chr21	46011355	46011355	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	aggagggaaacacaggaggcCgtgcggcagcagctgggctg	19	9	0	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr21:46011355C>T	uc002zfm.2	-	1	1032	c.1011G>A	c.(1009-1011)ACG>ACA	p.T337T	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198688	NP_941961	P60371	KR106_HUMAN	keratin associated protein 10-6	337	29.|29 X 5 AA repeats of C-C-X(3).					keratin filament					0						CACAGGAGGCCGTGCGGCAGC	0.672													5	48	---	---	---	---	PASS	T	46011355	T	T	46011355	2	4	68	1	0	0	0	0	0	0	0	1	8513	639	23	1		1	KRTAP10-6	21	46011355	Silent	SNP	C	TCGA-34-5234-01A-01D-1632-08	14037805	46011355	2118540	170	26859										
RAC2	5880	broad.mit.edu	37	chr22	37627422	37627422	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gggcagtggtgccgcacttcTgggaaccactgggcaggtgg	18	10	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr22:37627422T>C	uc003arc.2	-	5	414	c.297A>G	c.(295-297)CCA>CCG	p.P99P		NM_002872	NP_002863	P15153	RAC2_HUMAN	ras-related C3 botulinum toxin substrate 2	99					axon guidance|platelet activation|regulation of hydrogen peroxide metabolic process|regulation of respiratory burst|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|protein binding			breast(2)|central_nervous_system(1)|skin(1)	4						GCCGCACTTCTGGGAACCACT	0.622													6	35	---	---	---	---	PASS	C	37627422	C	C	37627422	2	2	68	1	0	0	0	0	0	0	0	1	12975	1567	55	5		5	RAC2	22	37627422	Silent	SNP	T	TCGA-34-5234-01A-01D-1632-08		37627422	13677144	171	26860										
CACNA1I	8911	broad.mit.edu	37	chr22	39966962	39966962	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tgcgacagaccaccagccccCggaactggtgcatcaagatg	11	14	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr22:39966962C>T	uc003ayc.2	+	1	205	c.205C>T	c.(205-207)CGG>TGG	p.R69W	CACNA1I_uc003ayd.2_Missense_Mutation_p.R69W	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	69	Cytoplasmic (Potential).|I.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CACCAGCCCCCGGAACTGGTG	0.637													7	61	---	---	---	---	PASS	T	39966962	T	T	39966962	3	4	68	1	0	0	0	0	1	0	0	0	2546	643	23	1	207	1	CACNA1I	22	39966962	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	2339540	39966962	11337604	172	26861										
ENTHD1	150350	broad.mit.edu	37	chr22	40283671	40283671	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	actagagggaccccaagggtCgttagaagttgcttccctga	12	10	0	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr22:40283671C>T	uc003ayg.2	-	2	333	c.82G>A	c.(82-84)GAC>AAC	p.D28N		NM_152512	NP_689725	Q8IYW4	ENTD1_HUMAN	ENTH domain containing 1	28	ENTH.									ovary(2)|skin(1)	3	Melanoma(58;0.0749)					CCCCAAGGGTCGTTAGAAGTT	0.393													11	73	---	---	---	---	PASS	T	40283671	T	T	40283671	3	4	68	1	0	0	0	0	1	0	0	0	5137	884	31	2	1765	2	ENTHD1	22	40283671	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	316709	40283671	11020895	173	26862										
WBP2NL	164684	broad.mit.edu	37	chr22	42423062	42423062	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cctgcaggaaatgaaggcccGcctgcgggatacagagcctc	13	13	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chr22:42423062G>A	uc011ape.1	+	7	823	c.807G>A	c.(805-807)CCG>CCA	p.P269P	WBP2NL_uc003bbt.2_Silent_p.P269P|WBP2NL_uc011apk.1_Silent_p.P141P|WBP2NL_uc003bbu.2_RNA|WBP2NL_uc003bbv.1_RNA	NM_152613	NP_689826	Q6ICG8	WBP2L_HUMAN	WBP2 N-terminal like	269	Gly-rich.				egg activation|male pronucleus assembly|meiosis	perinuclear theca	WW domain binding			ovary(2)	2						ATGAAGGCCCGCCTGCGGGAT	0.592													13	107	---	---	---	---	PASS	A	42423062	A	A	42423062	2	1	68	1	0	0	0	0	0	0	0	1	17257	1074	38	1		1	WBP2NL	22	42423062	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	2139391	42423062	8881504	174	26863										
ARSH	347527	broad.mit.edu	37	chrX	2951310	2951310	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gtaggacactaacacctgtcCcacagcagttctctgtgttc	8	13	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:2951310C>A	uc011mhj.1	+	9	1573	c.1573C>A	c.(1573-1575)CCA>ACA	p.P525T		NM_001011719	NP_001011719	Q5FYA8	ARSH_HUMAN	arylsulfatase family, member H	525						integral to membrane	arylsulfatase activity|metal ion binding			lung(1)	1		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				AACACCTGTCCCACAGCAGTT	0.498													5	24	---	---	---	---	PASS	A	2951310	A	A	2951310	3	1	68	1	0	0	0	0	1	0	0	0	993	623	22	3	1607	3	ARSH	23	2951310	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08		2951310	152319250	175	26864										
WWC3	55841	broad.mit.edu	37	chrX	10085324	10085324	+	Missense_Mutation	SNP	C	A	A													0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	agcccgacgctgagggcagcCagcttctacgcttcgacctc							TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:10085324C>A	uc004csx.3	+	11	1423	c.1225C>A	c.(1225-1227)CAG>AAG	p.Q409K	WWC3_uc010nds.2_Missense_Mutation_p.Q73K|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	409	Ser-rich.									ovary(4)	4						TGAGGGCAGCCAGCTTCTACG	0.657													6	89	---	---	---	---	PASS	A	10085324	A	A	10085324	3	1	68	1	0	0	0	0	1	0	0	0	17410	595	21	3	1263	3	WWC3	23	10085324	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	7134014	10085324	145185236	176	26865	559	2								
WWC3	55841	broad.mit.edu	37	chrX	10085325	10085325	+	Missense_Mutation	SNP	A	G	G													0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gcccgacgctgagggcagccAgcttctacgcttcgacctca							TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:10085325A>G	uc004csx.3	+	11	1424	c.1226A>G	c.(1225-1227)CAG>CGG	p.Q409R	WWC3_uc010nds.2_Missense_Mutation_p.Q73R|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	409	Ser-rich.									ovary(4)	4						GAGGGCAGCCAGCTTCTACGC	0.657													6	88	---	---	---	---	PASS	G	10085325	G	G	10085325	3	3	68	1	0	0	0	0	1	0	0	0	17410	188	7	5	1264	5	WWC3	23	10085325	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	1	10085325	145185235	177	26866	559	2								
TLR8	51311	broad.mit.edu	37	chrX	12939468	12939468	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	attatctatgttggaactacAcggaaacccctttgaatgca	7	9	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:12939468A>G	uc004cve.2	+	2	2377	c.2309A>G	c.(2308-2310)CAC>CGC	p.H770R	TLR8_uc004cvd.2_Missense_Mutation_p.H788R	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	770	Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						TTGGAACTACACGGAAACCCC	0.403													14	75	---	---	---	---	PASS	G	12939468	G	G	12939468	3	3	68	1	0	0	0	0	1	0	0	0	15954	159	6	5	2315	5	TLR8	23	12939468	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	2854143	12939468	142331092	178	26867										
CDKL5	6792	broad.mit.edu	37	chrX	18631345	18631345	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gtttcttctctaccatcagaGagcagttctggaaccaacca	7	12	4	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:18631345G>A	uc004cym.2	+	15	2479	c.2226G>A	c.(2224-2226)GAG>GAA	p.E742E	CDKL5_uc004cyn.2_Silent_p.E742E	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	742				Missing (in Ref. 4; CAA61445).	neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					TACCATCAGAGAGCAGTTCTG	0.368													12	96	---	---	---	---	PASS	A	18631345	A	A	18631345	2	1	68	1	0	0	0	0	0	0	0	1	3157	933	33	2		2	CDKL5	23	18631345	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	5691877	18631345	136639215	179	26868										
PDHA1	5160	broad.mit.edu	37	chrX	19368197	19368197	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gctgtataaacagaaaattaTtcgtggtttctgtcacttgt	8	6	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:19368197T>C	uc004czg.3	+	3	405	c.260T>C	c.(259-261)ATT>ACT	p.I87T	PDHA1_uc004czh.3_Missense_Mutation_p.I122T|PDHA1_uc011mjc.1_Missense_Mutation_p.I84T|PDHA1_uc011mjd.1_Missense_Mutation_p.I84T|PDHA1_uc010nfk.2_Missense_Mutation_p.I84T	NM_000284	NP_000275	P08559	ODPA_HUMAN	pyruvate dehydrogenase E1 alpha 1 precursor	87					glycolysis|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	protein binding|pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)	1	Hepatocellular(33;0.183)				NADH(DB00157)	CAGAAAATTATTCGTGGTTTC	0.443													12	113	---	---	---	---	PASS	C	19368197	C	C	19368197	3	2	68	1	0	0	0	0	1	0	0	0	11664	1493	52	5	388	5	PDHA1	23	19368197	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	736852	19368197	135902363	180	26869										
FTHL17	53940	broad.mit.edu	37	chrX	31090069	31090069	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gcgacggctgggcggtggccAtggcgggcagcgcaagtgca	20	11	0	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:31090069A>G	uc004dcl.1	-	1	105	c.2T>C	c.(1-3)ATG>ACG	p.M1T		NM_031894	NP_114100	Q9BXU8	FHL17_HUMAN	ferritin, heavy polypeptide-like 17	1					cellular iron ion homeostasis|iron ion transport		ferric iron binding|oxidoreductase activity				0						GGCGGTGGCCATGGCGGGCAG	0.647													4	33	---	---	---	---	PASS	G	31090069	G	G	31090069	3	3	68	1	0	0	0	0	1	0	0	0	6083	217	8	5	553	5	FTHL17	23	31090069	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	11721872	31090069	124180491	181	26870										
CYBB	1536	broad.mit.edu	37	chrX	37670075	37670075	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gagttttcctctgtggacctGaagccttggctgaaaccctg	11	11	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:37670075G>T	uc004ddr.2	+	13	1679	c.1618G>T	c.(1618-1620)GAA>TAA	p.E540*	CYBB_uc011mkf.1_Nonsense_Mutation_p.E508*|CYBB_uc011mkg.1_Nonsense_Mutation_p.E273*	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	540	Cytoplasmic (Potential).				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						CTGTGGACCTGAAGCCTTGGC	0.423													4	55	---	---	---	---	PASS	T	37670075	T	T	37670075	4	4	68	1	0	0	0	0	0	1	0	0	4133	1291	45	2	1668	2	CYBB	23	37670075	Nonsense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	6580006	37670075	117600485	182	26871										
BCOR	54880	broad.mit.edu	37	chrX	39933922	39933922	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gcggctgggccaagctgtagGactgctgaggtagcaaggcc	17	10	0	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:39933922G>A	uc004den.3	-	4	969	c.677C>T	c.(676-678)TCC>TTC	p.S226F	BCOR_uc004dep.3_Missense_Mutation_p.S226F|BCOR_uc004deo.3_Missense_Mutation_p.S226F|BCOR_uc004dem.3_Missense_Mutation_p.S226F|BCOR_uc004deq.3_Missense_Mutation_p.S226F	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	226					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						CAAGCTGTAGGACTGCTGAGG	0.557													6	56	---	---	---	---	PASS	A	39933922	A	A	39933922	3	1	68	1	0	0	0	0	1	0	0	0	1386	1174	41	2	4638	2	BCOR	23	39933922	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	2263847	39933922	115336638	183	26872										
PFKFB1	5207	broad.mit.edu	37	chrX	54975507	54975507	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gattcaccccatgcatctcaCcgcatcaatctcattcaggg	6	15	5	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:54975507C>A	uc004dty.1	-	9	1064	c.993_splice	c.e9+1	p.A331_splice	PFKFB1_uc010nkd.1_Intron|PFKFB1_uc011mol.1_Splice_Site_p.A266_splice	NM_002625	NP_002616	P16118	F261_HUMAN	6-phosphofructo-2-kinase/fructose-2,						energy reserve metabolic process|fructose 2,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|intracellular protein kinase cascade	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(1)	1						ATGCATCTCACCGCATCAATC	0.562													6	44	---	---	---	---	PASS	A	54975507	A	A	54975507	5	1	68	1	0	0	0	0	0	0	1	0	11760	521	18	3	445	3	PFKFB1	23	54975507	Splice_Site	SNP	C	TCGA-34-5234-01A-01D-1632-08	15041585	54975507	100295053	184	26873										
PAGE5	90737	broad.mit.edu	37	chrX	55249059	55249059	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctttttatctttaagggactGatgtggaagcttttcaacag	9	6	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:55249059G>C	uc004duj.2	+	4	498	c.256G>C	c.(256-258)GAT>CAT	p.D86H	PAGE5_uc004duk.2_Missense_Mutation_p.D66H	NM_130467	NP_569734	Q96GU1	GGEE1_HUMAN	P antigen family, member 5 isoform 1	86											0						TTAAGGGACTGATGTGGAAGC	0.398													10	100	---	---	---	---	PASS	C	55249059	C	C	55249059	3	2	68	1	0	0	0	0	1	0	0	0	11393	1290	45	2	270	2	PAGE5	23	55249059	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	273552	55249059	100021501	185	26874										
MAGEH1	28986	broad.mit.edu	37	chrX	55479403	55479403	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttgtaattatgactgggattCggacgatgatgcagaggttg	14	4	0	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:55479403C>G	uc004dum.2	+	1	866	c.596C>G	c.(595-597)TCG>TGG	p.S199W		NM_014061	NP_054780	Q9H213	MAGH1_HUMAN	melanoma antigen, family H, 1 protein	199					apoptosis					ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GACTGGGATTCGGACGATGAT	0.493													14	56	---	---	---	---	PASS	G	55479403	G	G	55479403	3	3	68	1	0	0	0	0	1	0	0	0	9188	893	31	2	598	2	MAGEH1	23	55479403	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	230344	55479403	99791157	186	26875										
TAF1	6872	broad.mit.edu	37	chrX	70674030	70674030	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttatttataggacctgagagTcagtatactaagactgccca	8	8	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:70674030T>A	uc004dzu.3	+	33	4812	c.4761T>A	c.(4759-4761)AGT>AGA	p.S1587R	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.S1608R|TAF1_uc004dzv.3_Missense_Mutation_p.S761R|TAF1_uc010nld.1_RNA|TAF1_uc010nle.1_RNA|TAF1_uc010nlf.1_Missense_Mutation_p.S12R|TAF1_uc004dzx.2_RNA|TAF1_uc004dzy.2_RNA|TAF1_uc004dzw.1_RNA	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	1587	Interaction with ASF1A and ASF1B.|Bromo 2.|Protein kinase 2.			PESQYTK -> YMCTTCR (in Ref. 6; CAD87528).	G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				GACCTGAGAGTCAGTATACTA	0.373													4	37	---	---	---	---	PASS	A	70674030	A	A	70674030	3	1	68	1	0	0	0	0	1	0	0	0	15510	1664	58	5	4954	5	TAF1	23	70674030	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	15194627	70674030	84596530	187	26876										
ATP7A	538	broad.mit.edu	37	chrX	77254002	77254002	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tgagccgttggtagtaatagCtcagccttcatcggaaatgc	11	9	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:77254002C>A	uc004ecx.3	+	5	1524	c.1364C>A	c.(1363-1365)GCT>GAT	p.A455D	ATP7A_uc004ecw.2_Missense_Mutation_p.A455D	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	455	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						GTAGTAATAGCTCAGCCTTCA	0.393													11	98	---	---	---	---	PASS	A	77254002	A	A	77254002	3	1	68	1	0	0	0	0	1	0	0	0	1190	797	28	3	1378	3	ATP7A	23	77254002	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	6579972	77254002	78016558	188	26877										
PGK1	5230	broad.mit.edu	37	chrX	77359903	77359903	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gggaagcgggtcgttatgagGtaattctgcacgtttgcccg	15	8	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:77359903G>T	uc004ecz.3	+	1	237	c.65_splice	c.e1+1	p.R22_splice	PGK1_uc010nlz.2_Splice_Site|PGK1_uc011mqq.1_5'Flank	NM_000291	NP_000282	P00558	PGK1_HUMAN	phosphoglycerate kinase 1						gluconeogenesis|glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			upper_aerodigestive_tract(1)|ovary(1)	2						TCGTTATGAGGTAATTCTGCA	0.507													4	24	---	---	---	---	PASS	T	77359903	T	T	77359903	5	4	68	1	0	0	0	0	0	0	1	0	11790	1275	44	3	68	3	PGK1	23	77359903	Splice_Site	SNP	G	TCGA-34-5234-01A-01D-1632-08	105901	77359903	77910657	189	26878										
PCDH11X	27328	broad.mit.edu	37	chrX	91133650	91133650	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tactgagatagctgatgtatCctcaccaactagtgactatg	8	9	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:91133650C>A	uc004efk.1	+	2	3256	c.2411C>A	c.(2410-2412)TCC>TAC	p.S804Y	PCDH11X_uc004efl.1_Missense_Mutation_p.S804Y|PCDH11X_uc004efo.1_Missense_Mutation_p.S804Y|PCDH11X_uc010nmv.1_Missense_Mutation_p.S804Y|PCDH11X_uc004efm.1_Missense_Mutation_p.S804Y|PCDH11X_uc004efn.1_Missense_Mutation_p.S804Y|PCDH11X_uc004efh.1_Missense_Mutation_p.S804Y|PCDH11X_uc004efj.1_Missense_Mutation_p.S804Y	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	804	Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						GCTGATGTATCCTCACCAACT	0.453													9	69	---	---	---	---	PASS	A	91133650	A	A	91133650	3	1	68	1	0	0	0	0	1	0	0	0	11508	855	30	2	2417	2	PCDH11X	23	91133650	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	13773747	91133650	64136910	190	26879										
DIAPH2	1730	broad.mit.edu	37	chrX	95993591	95993591	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	atttttgtttgcagcgtgacCgaattacaagttttagaaaa	8	5	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:95993591C>T	uc004efu.3	+	3	568	c.172C>T	c.(172-174)CGA>TGA	p.R58*	DIAPH2_uc004eft.3_Nonsense_Mutation_p.R58*|DIAPH2_uc004efs.2_Nonsense_Mutation_p.R58*	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	58					cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						GCAGCGTGACCGAATTACAAG	0.333													3	48	---	---	---	---	PASS	T	95993591	T	T	95993591	4	4	68	1	0	0	0	0	0	1	0	0	4519	644	23	1	182	1	DIAPH2	23	95993591	Nonsense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	4859941	95993591	59276969	191	26880										
SRPX2	27286	broad.mit.edu	37	chrX	99920283	99920283	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tgtccccactcacgtgagaaGatggcagagccagagaaatt	11	10	1	4			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:99920283G>T	uc004egb.2	+	6	1056	c.576G>T	c.(574-576)AAG>AAT	p.K192N		NM_014467	NP_055282	O60687	SRPX2_HUMAN	sushi-repeat-containing protein, X-linked 2	192	HYR.				angiogenesis|cell motility|cell-cell adhesion|positive regulation of cell migration involved in sprouting angiogenesis|regulation of phosphorylation	cytoplasm|extracellular region	receptor binding			ovary(2)	2						CACGTGAGAAGATGGCAGAGC	0.527													3	13	---	---	---	---	PASS	T	99920283	T	T	99920283	3	4	68	1	0	0	0	0	1	0	0	0	15164	933	33	2	594	2	SRPX2	23	99920283	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	3926692	99920283	55350277	192	26881										
SERPINA7	6906	broad.mit.edu	37	chrX	105280989	105280989	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tactttgccttcaggtgatgCacagtggattgtagcatgaa	11	7	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:105280989C>A	uc004eme.1	-	1	77	c.61G>T	c.(61-63)GCA>TCA	p.A21S	SERPINA7_uc010npd.2_Missense_Mutation_p.A21S|SERPINA7_uc010npe.1_Missense_Mutation_p.A21S	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	21					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	TCAGGTGATGCACAGTGGATT	0.418													16	88	---	---	---	---	PASS	A	105280989	A	A	105280989	3	1	68	1	0	0	0	0	1	0	0	0	14094	710	25	3	1202	3	SERPINA7	23	105280989	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	5360706	105280989	49989571	193	26882										
TBC1D8B	54885	broad.mit.edu	37	chrX	106108822	106108822	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cacaagatgtgaaattgagcCttcaagaattggatgaactt	9	6	1	5			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:106108822C>T	uc004emo.2	+	15	2551	c.2386C>T	c.(2386-2388)CTT>TTT	p.L796F	MORC4_uc004emp.3_Intron	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	796						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GAAATTGAGCCTTCAAGAATT	0.289													7	61	---	---	---	---	PASS	T	106108822	T	T	106108822	3	4	68	1	0	0	0	0	1	0	0	0	15623	681	24	3	2510	3	TBC1D8B	23	106108822	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	827833	106108822	49161738	194	26883										
PRPS1	5631	broad.mit.edu	37	chrX	106890869	106890869	+	Silent	SNP	C	A	A													0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggcgccaccagagtttatgcCatcttgactcatggaatctt							TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:106890869C>A	uc004ene.3	+	6	943	c.738C>A	c.(736-738)GCC>GCA	p.A246A	PRPS1_uc010npg.2_Silent_p.A213A|PRPS1_uc011msj.1_Silent_p.A42A	NM_002764	NP_002755	P60891	PRPS1_HUMAN	phosphoribosyl pyrophosphate synthetase 1	246					5-phosphoribose 1-diphosphate biosynthetic process|hypoxanthine biosynthetic process|nervous system development|nucleoside metabolic process|purine nucleotide biosynthetic process|pyrimidine nucleotide biosynthetic process|ribonucleoside monophosphate biosynthetic process|urate biosynthetic process	cytosol	ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			breast(3)|large_intestine(1)	4						GAGTTTATGCCATCTTGACTC	0.453													8	107	---	---	---	---	PASS	A	106890869	A	A	106890869	2	1	68	1	0	0	0	0	0	0	0	1	12578	581	21	3		3	PRPS1	23	106890869	Silent	SNP	C	TCGA-34-5234-01A-01D-1632-08	782047	106890869	48379691	195	26884	560	2								
PRPS1	5631	broad.mit.edu	37	chrX	106890870	106890870	+	Missense_Mutation	SNP	A	T	T													0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gcgccaccagagtttatgccAtcttgactcatggaatcttc							TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:106890870A>T	uc004ene.3	+	6	944	c.739A>T	c.(739-741)ATC>TTC	p.I247F	PRPS1_uc010npg.2_Missense_Mutation_p.I214F|PRPS1_uc011msj.1_Missense_Mutation_p.I43F	NM_002764	NP_002755	P60891	PRPS1_HUMAN	phosphoribosyl pyrophosphate synthetase 1	247					5-phosphoribose 1-diphosphate biosynthetic process|hypoxanthine biosynthetic process|nervous system development|nucleoside metabolic process|purine nucleotide biosynthetic process|pyrimidine nucleotide biosynthetic process|ribonucleoside monophosphate biosynthetic process|urate biosynthetic process	cytosol	ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			breast(3)|large_intestine(1)	4						AGTTTATGCCATCTTGACTCA	0.448													8	107	---	---	---	---	PASS	T	106890870	T	T	106890870	3	4	68	1	0	0	0	0	1	0	0	0	12578	217	8	5	761	5	PRPS1	23	106890870	Missense_Mutation	SNP	A	TCGA-34-5234-01A-01D-1632-08	1	106890870	48379690	196	26885	560	2								
RGAG1	57529	broad.mit.edu	37	chrX	109696544	109696544	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctctggaggggtgtcctcacCactagtaagagctccagcct	11	13	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:109696544C>A	uc004eor.1	+	3	2945	c.2699C>A	c.(2698-2700)CCA>CAA	p.P900Q	RGAG1_uc011msr.1_Missense_Mutation_p.P900Q	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	900										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GTGTCCTCACCACTAGTAAGA	0.537													10	114	---	---	---	---	PASS	A	109696544	A	A	109696544	3	1	68	1	0	0	0	0	1	0	0	0	13274	594	21	3	2701	3	RGAG1	23	109696544	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	2805674	109696544	45574016	197	26886										
GLUD2	2747	broad.mit.edu	37	chrX	120181847	120181847	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cagaagcggaaccgggtgcgCggcatcctgcggatcatcaa	14	12	2	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:120181847C>A	uc004eto.2	+	1	386	c.309C>A	c.(307-309)CGC>CGA	p.R103R		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	103					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	ACCGGGTGCGCGGCATCCTGC	0.637													4	47	---	---	---	---	PASS	A	120181847	A	A	120181847	2	1	68	1	0	0	0	0	0	0	0	1	6477	755	27	1		1	GLUD2	23	120181847	Silent	SNP	C	TCGA-34-5234-01A-01D-1632-08	10485303	120181847	35088713	198	26887										
SH2D1A	4068	broad.mit.edu	37	chrX	123499665	123499665	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cagacagaaacaggttcttgGagtgctgaggtatagttgta	13	5	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:123499665G>T	uc004euf.3	+	2	537	c.192G>T	c.(190-192)TGG>TGT	p.W64C	SH2D1A_uc004euh.3_Missense_Mutation_p.W64C|SH2D1A_uc004eug.3_RNA|SH2D1A_uc010nqw.2_Intron|SH2D1A_uc004eui.3_Intron|SH2D1A_uc010nqx.2_Intron	NM_002351	NP_002342	O60880	SH21A_HUMAN	SH2 domain protein 1A isoform 1	64	SH2.				cell-cell signaling|cellular defense response	cytoplasm	SH3/SH2 adaptor activity				0						CAGGTTCTTGGAGTGCTGAGG	0.348									X-linked_Lymphoproliferative_syndrome				16	129	---	---	---	---	PASS	T	123499665	T	T	123499665	3	4	68	1	0	0	0	0	1	0	0	0	14230	1183	41	2	198	2	SH2D1A	23	123499665	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	3317818	123499665	31770895	199	26888										
AIFM1	9131	broad.mit.edu	37	chrX	129270690	129270690	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gattgcacaatagcattgggCatcaccttaaccccctctgt	7	13	2	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:129270690C>T	uc004evg.2	-	11	1270	c.1092G>A	c.(1090-1092)ATG>ATA	p.M364I	AIFM1_uc011mur.1_Missense_Mutation_p.M12I|AIFM1_uc011mus.1_3'UTR|AIFM1_uc004evh.2_Missense_Mutation_p.M360I|AIFM1_uc004evi.2_Missense_Mutation_p.M77I|AIFM1_uc004evk.2_RNA	NM_004208	NP_004199	O95831	AIFM1_HUMAN	programmed cell death 8 isoform 1	364	FAD-dependent oxidoreductase (By similarity).				activation of caspase activity|apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|DNA damage response, signal transduction resulting in induction of apoptosis|DNA fragmentation involved in apoptotic nuclear change	cytosol|mitochondrial inner membrane|mitochondrial intermembrane space|nucleus|perinuclear region of cytoplasm	DNA binding|electron carrier activity|flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			ovary(4)|central_nervous_system(1)	5						TAGCATTGGGCATCACCTTAA	0.488													4	44	---	---	---	---	PASS	T	129270690	T	T	129270690	3	4	68	1	0	0	0	0	1	0	0	0	426	710	25	3	773	3	AIFM1	23	129270690	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	5771025	129270690	25999870	200	26889										
DDX26B	203522	broad.mit.edu	37	chrX	134681116	134681116	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gaatcaatgtttagaatctcTagttcaaaaagttcagagtg	8	5	4	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:134681116T>C	uc004eyw.3	+	6	1031	c.668T>C	c.(667-669)CTA>CCA	p.L223P		NM_182540	NP_872346	Q5JSJ4	DX26B_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	223	VWFA.										0	Acute lymphoblastic leukemia(192;6.56e-05)					TTAGAATCTCTAGTTCAAAAA	0.333													20	180	---	---	---	---	PASS	C	134681116	C	C	134681116	3	2	68	1	0	0	0	0	1	0	0	0	4353	1522	53	5	690	5	DDX26B	23	134681116	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	5410426	134681116	20589444	201	26890										
MAP7D3	79649	broad.mit.edu	37	chrX	135313040	135313040	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gaccacaagcattttcaggaGatgatgaccatttataacac	7	9	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:135313040G>T	uc004ezt.2	-	9	1590	c.1499C>A	c.(1498-1500)TCT>TAT	p.S500Y	MAP7D3_uc004ezs.2_Missense_Mutation_p.S464Y|MAP7D3_uc011mwc.1_Missense_Mutation_p.S482Y|MAP7D3_uc010nsa.1_Missense_Mutation_p.S458Y	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	500						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					ATTTTCAGGAGATGATGACCA	0.408													9	77	---	---	---	---	PASS	T	135313040	T	T	135313040	3	4	68	1	0	0	0	0	1	0	0	0	9269	942	33	2	1171	2	MAP7D3	23	135313040	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	631924	135313040	19957520	202	26891										
ZIC3	7547	broad.mit.edu	37	chrX	136649363	136649363	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ctgcatgagcagggcgctggGcacccgtcgcccacagggca	15	15	0	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:136649363G>A	uc004fak.2	+	1	1018	c.513G>A	c.(511-513)GGG>GGA	p.G171G		NM_003413	NP_003404	O60481	ZIC3_HUMAN	zinc finger protein of the cerebellum 3	171					cell differentiation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AGGGCGCTGGGCACCCGTCGC	0.697													7	55	---	---	---	---	PASS	A	136649363	A	A	136649363	2	1	68	1	0	0	0	0	0	0	0	1	17677	1190	42	3		3	ZIC3	23	136649363	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	1336323	136649363	18621197	203	26892										
MAGEC1	9947	broad.mit.edu	37	chrX	140994572	140994572	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tttattgagtcttttccagaGttcccctgagagaactcaca	7	10	2	4			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:140994572G>A	uc004fbt.2	+	4	1668	c.1382G>A	c.(1381-1383)AGT>AAT	p.S461N	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	461							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CTTTTCCAGAGTTCCCCTGAG	0.488										HNSCC(15;0.026)			20	176	---	---	---	---	PASS	A	140994572	A	A	140994572	3	1	68	1	0	0	0	0	1	0	0	0	9180	1029	36	3	1388	3	MAGEC1	23	140994572	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	4345209	140994572	14275988	204	26893										
SLITRK4	139065	broad.mit.edu	37	chrX	142717525	142717525	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttggcatggagtcaaaggtgCctgctgagatttccttaatc	11	8	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:142717525C>A	uc004fbx.2	-	2	1776	c.1400G>T	c.(1399-1401)GGC>GTC	p.G467V	SLITRK4_uc004fby.2_Missense_Mutation_p.G467V	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	467	Extracellular (Potential).|LRR 10.					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GTCAAAGGTGCCTGCTGAGAT	0.388													10	80	---	---	---	---	PASS	A	142717525	A	A	142717525	3	1	68	1	0	0	0	0	1	0	0	0	14745	739	26	3	1117	3	SLITRK4	23	142717525	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	1722953	142717525	12553035	205	26894										
SLITRK2	84631	broad.mit.edu	37	chrX	144905921	144905921	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ttcccaggaataccaacaacTtagacgtaagctcctttcaa	5	12	1	1			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:144905921T>A	uc004fcd.2	+	5	2968	c.1978T>A	c.(1978-1980)TTA>ATA	p.L660I	SLITRK2_uc010nsp.2_Missense_Mutation_p.L660I|SLITRK2_uc010nso.2_Missense_Mutation_p.L660I|SLITRK2_uc011mwq.1_Missense_Mutation_p.L660I|SLITRK2_uc011mwr.1_Missense_Mutation_p.L660I|SLITRK2_uc011mws.1_Missense_Mutation_p.L660I|SLITRK2_uc004fcg.2_Missense_Mutation_p.L660I|SLITRK2_uc011mwt.1_Missense_Mutation_p.L660I	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	660	Cytoplasmic (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					TACCAACAACTTAGACGTAAG	0.458													11	74	---	---	---	---	PASS	A	144905921	A	A	144905921	3	1	68	1	0	0	0	0	1	0	0	0	14743	1606	56	5	1980	5	SLITRK2	23	144905921	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	2188396	144905921	10364639	206	26895										
AFF2	2334	broad.mit.edu	37	chrX	148035201	148035201	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cggagagcagctctgagtcgGattcagacactgaaagtagc	13	9	2	4			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:148035201G>T	uc004fcp.2	+	10	1968	c.1489G>T	c.(1489-1491)GAT>TAT	p.D497Y	AFF2_uc004fcq.2_Missense_Mutation_p.D487Y|AFF2_uc004fcr.2_Missense_Mutation_p.D458Y|AFF2_uc011mxb.1_Missense_Mutation_p.D462Y|AFF2_uc004fcs.2_Missense_Mutation_p.D464Y|AFF2_uc011mxc.1_Missense_Mutation_p.D138Y	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	497					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					CTCTGAGTCGGATTCAGACAC	0.587													11	97	---	---	---	---	PASS	T	148035201	T	T	148035201	3	4	68	1	0	0	0	0	1	0	0	0	357	1174	41	2	1582	2	AFF2	23	148035201	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	3129280	148035201	7235359	207	26896										
MAGEA6	4105	broad.mit.edu	37	chrX	151869553	151869553	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	atgaactaccctctctggagCcaatcctatgaggactccag	8	13	1	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:151869553C>A	uc004ffq.1	+	3	437	c.243C>A	c.(241-243)AGC>AGA	p.S81R	MAGEA6_uc004ffr.1_Missense_Mutation_p.S81R|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	81							protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					CTCTCTGGAGCCAATCCTATG	0.602													8	42	---	---	---	---	PASS	A	151869553	A	A	151869553	3	1	68	1	0	0	0	0	1	0	0	0	9170	738	26	3	245	3	MAGEA6	23	151869553	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	3834352	151869553	3401007	208	26897										
MAGEA12	4111	broad.mit.edu	37	chrX	151900645	151900645	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	ggtgactcggcagcaggcacCtcccgcagggtgacttccac	13	15	0	2			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:151900645C>G	uc010ntp.2	-	3	510	c.156G>C	c.(154-156)GAG>GAC	p.E52D	MAGEA12_uc004fgb.2_Intron|MAGEA12_uc004fgc.2_Missense_Mutation_p.E52D|CSAG1_uc004fge.2_5'Flank|CSAG1_uc004fgf.2_5'Flank|CSAG1_uc004fgd.2_5'Flank	NM_005367	NP_005358	P43365	MAGAC_HUMAN	melanoma antigen family A, 12	52										skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CAGCAGGCACCTCCCGCAGGG	0.612													6	72	---	---	---	---	PASS	G	151900645	G	G	151900645	3	3	68	1	0	0	0	0	1	0	0	0	9166	680	24	4	792	4	MAGEA12	23	151900645	Missense_Mutation	SNP	C	TCGA-34-5234-01A-01D-1632-08	31092	151900645	3369915	209	26898										
FAM50A	9130	broad.mit.edu	37	chrX	153678436	153678436	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	tgctcagtgacgccactgtgGagaaggatgaggtacagcgt	15	8	1	3			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:153678436G>T	uc004fll.3	+	11	987	c.889G>T	c.(889-891)GAG>TAG	p.E297*		NM_004699	NP_004690	Q14320	FA50A_HUMAN	XAP-5 protein	297					spermatogenesis	nucleus				ovary(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CGCCACTGTGGAGAAGGATGA	0.612													8	89	---	---	---	---	PASS	T	153678436	T	T	153678436	4	4	68	1	0	0	0	0	0	1	0	0	5577	1175	41	2	931	2	FAM50A	23	153678436	Nonsense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	1777791	153678436	1592124	210	26899										
F8	2157	broad.mit.edu	37	chrX	154182256	154182256	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	gttgtatattctctgtgaggTaccagcttcggttctcatca	9	9	3	1	rs137852427		TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:154182256T>A	uc004fmt.2	-	12	1985	c.1814A>T	c.(1813-1815)TAC>TTC	p.Y605F		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	605	F5/8 type A 2.|Plastocyanin-like 4.		Y -> H (in HEMA).|Y -> S (in HEMA; severe).		acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	CTCTGTGAGGTACCAGCTTCG	0.423													19	161	---	---	---	---	PASS	A	154182256	A	A	154182256	3	1	68	1	0	0	0	0	1	0	0	0	5350	1638	57	5	5329	5	F8	23	154182256	Missense_Mutation	SNP	T	TCGA-34-5234-01A-01D-1632-08	503820	154182256	1088304	211	26900										
FUNDC2	65991	broad.mit.edu	37	chrX	154261815	154261815	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	caacccagctgttcattggaGgtgtcactggatggtaagtg	13	8	2	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:154261815G>T	uc004fmw.2	+	2	421	c.271G>T	c.(271-273)GGT>TGT	p.G91C		NM_023934	NP_076423	Q9BWH2	FUND2_HUMAN	FUN14 domain containing 2	91						mitochondrion					0	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GTTCATTGGAGGTGTCACTGG	0.453													9	75	---	---	---	---	PASS	T	154261815	T	T	154261815	3	4	68	1	0	0	0	0	1	0	0	0	6098	1000	35	3	277	3	FUNDC2	23	154261815	Missense_Mutation	SNP	G	TCGA-34-5234-01A-01D-1632-08	79559	154261815	1008745	212	26901										
SPRY3	10251	broad.mit.edu	37	chrX	155003644	155003644	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0380952380952381	8	0.81313190150011	0.831690821256039	1.49444444444444	0.478222222222222	0.685082190087752	0.925645401874291	0	cctccagccccctgtaaacaGgccctctccagcccttccct	5	22	1	0			TCGA-34-5234-01A-01D-1632-08	TCGA-34-5234-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	7b19ae84-2cab-47e7-87df-46c497da17e0	be106855-927a-4cdd-b779-214d377fb068	g.chrX:155003644G>A	uc004fnq.1	+	2	565	c.111G>A	c.(109-111)CAG>CAA	p.Q37Q	SPRY3_uc010nvl.1_Silent_p.Q37Q	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	37					multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CCTGTAAACAGGCCCTCTCCA	0.532													12	95	---	---	---	---	PASS	A	155003644	A	A	155003644	2	1	68	1	0	0	0	0	0	0	0	1	15106	991	35	3		3	SPRY3	23	155003644	Silent	SNP	G	TCGA-34-5234-01A-01D-1632-08	741829	155003644	266916	213	26902										
SRRM1	10250	broad.mit.edu	37	chr1	24976564	24976564	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gagaaaaaagggagcggtctCgtagcccaagaaggtatcat	13	7	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:24976564C>G	uc001bjm.2	+	5	732	c.508C>G	c.(508-510)CGT>GGT	p.R170G	SRRM1_uc010oel.1_Missense_Mutation_p.R170G|SRRM1_uc009vrh.1_Missense_Mutation_p.R131G|SRRM1_uc009vri.1_Missense_Mutation_p.R87G|SRRM1_uc010oem.1_RNA	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	170	Arg-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		GGAGCGGTCTCGTAGCCCAAG	0.363													3	17	---	---	---	---	PASS	G	24976564	G	G	24976564	3	3	69	1	0	0	0	0	1	0	0	0	15167	884	31	2	526	2	SRRM1	1	24976564	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08		24976564	224274057	1	26903										
SFPQ	6421	broad.mit.edu	37	chr1	35657072	35657072	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tcccaacaaacaaccgacatCgctgtgtgtaagttttctct	6	12	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:35657072C>A	uc001bys.2	-	2	980	c.887G>T	c.(886-888)CGA>CTA	p.R296L	SFPQ_uc001byr.2_5'Flank	NM_005066	NP_005057	P23246	SFPQ_HUMAN	splicing factor proline/glutamine rich	296					alternative nuclear mRNA splicing, via spliceosome|DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix|paraspeckles	DNA binding|nucleotide binding|protein binding|protein binding|RNA binding		SFPQ/TFE3(6)	kidney(4)|soft_tissue(2)|ovary(1)|skin(1)	8		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.196)				CAACCGACATCGCTGTGTGTA	0.403			T	TFE3	papillary renal cell								6	99	---	---	---	---	PASS	A	35657072	A	A	35657072	3	1	69	1	0	0	0	0	1	0	0	0	14160	884	31	2	1272	2	SFPQ	1	35657072	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	10680508	35657072	213593549	2	26904										
ZMYM4	9202	broad.mit.edu	37	chr1	35847261	35847261	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	actgttgtgagaactgtgggGgttactgttacagtgggtcg	16	5	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:35847261G>T	uc001byt.2	+	9	1551	c.1471G>T	c.(1471-1473)GGT>TGT	p.G491C	ZMYM4_uc009vuu.2_Missense_Mutation_p.G459C|ZMYM4_uc001byu.2_Missense_Mutation_p.G167C|ZMYM4_uc009vuv.2_Missense_Mutation_p.G230C	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	491	MYM-type 3.				multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GAACTGTGGGGGTTACTGTTA	0.448													49	117	---	---	---	---	PASS	T	35847261	T	T	35847261	3	4	69	1	0	0	0	0	1	0	0	0	17699	1232	43	3	1505	3	ZMYM4	1	35847261	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	190189	35847261	213403360	3	26905										
KIF2C	11004	broad.mit.edu	37	chr1	45226350	45226350	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gtgctgagggactccttcatTggggagaactctaggacttg	14	8	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:45226350T>G	uc001cmg.3	+	16	1774	c.1659T>G	c.(1657-1659)ATT>ATG	p.I553M	KIF2C_uc010olb.1_Missense_Mutation_p.I512M|KIF2C_uc010olc.1_Missense_Mutation_p.I440M|KIF2C_uc001cmh.3_Missense_Mutation_p.I499M	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	553					blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					ACTCCTTCATTGGGGAGAACT	0.557													11	62	---	---	---	---	PASS	G	45226350	G	G	45226350	3	3	69	1	0	0	0	0	1	0	0	0	8299	1800	63	5	1721	5	KIF2C	1	45226350	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	9379089	45226350	204024271	4	26906										
COL24A1	255631	broad.mit.edu	37	chr1	86307765	86307765	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acaaaccttttctcctttagGtcctggcaatccagagggtc	8	12	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:86307765G>T	uc001dlj.2	-	41	3598	c.3556C>A	c.(3556-3558)CCT>ACT	p.P1186T	COL24A1_uc001dli.2_Missense_Mutation_p.P322T|COL24A1_uc010osd.1_Missense_Mutation_p.P486T|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	1186	Collagen-like 12.				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)		TCTCCTTTAGGTCCTGGCAAT	0.363													8	74	---	---	---	---	PASS	T	86307765	T	T	86307765	3	4	69	1	0	0	0	0	1	0	0	0	3683	1261	44	3	1668	3	COL24A1	1	86307765	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	41081415	86307765	162942856	5	26907										
BRDT	676	broad.mit.edu	37	chr1	92442847	92442847	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aatgcttgcaaagaaacattTttcatatgcatggccctttt	6	8	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:92442847T>C	uc001dok.3	+	6	1215	c.866T>C	c.(865-867)TTT>TCT	p.F289S	BRDT_uc001dol.3_Missense_Mutation_p.F289S|BRDT_uc010osz.1_Missense_Mutation_p.F293S|BRDT_uc009wdf.2_Missense_Mutation_p.F216S|BRDT_uc010ota.1_Missense_Mutation_p.F243S|BRDT_uc010otb.1_Missense_Mutation_p.F243S|BRDT_uc001dom.3_Missense_Mutation_p.F289S	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	289	Bromo 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		AAGAAACATTTTTCATATGCA	0.348													14	72	---	---	---	---	PASS	C	92442847	C	C	92442847	3	2	69	1	0	0	0	0	1	0	0	0	1508	1841	64	5	884	5	BRDT	1	92442847	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	6135082	92442847	156807774	6	26908										
COL11A1	1301	broad.mit.edu	37	chr1	103385884	103385884	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	taccttttctccaacaccacCaactgaaccaacagaccctg	3	17	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:103385884C>G	uc001dul.2	-	49	4063	c.3745G>C	c.(3745-3747)GGT>CGT	p.G1249R	COL11A1_uc001duk.2_Missense_Mutation_p.G445R|COL11A1_uc001dum.2_Missense_Mutation_p.G1261R|COL11A1_uc001dun.2_Missense_Mutation_p.G1210R|COL11A1_uc009weh.2_Missense_Mutation_p.G1133R	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1249	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCAACACCACCAACTGAACCA	0.363													16	163	---	---	---	---	PASS	G	103385884	G	G	103385884	3	3	69	1	0	0	0	0	1	0	0	0	3667	594	21	4	1751	4	COL11A1	1	103385884	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	10943037	103385884	145864737	7	26909										
COL11A1	1301	broad.mit.edu	37	chr1	103444627	103444627	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ggcacctaccgttggaccacGctgaccccgagggcctggtt	13	15	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:103444627G>C	uc001dul.2	-	33	2962	c.2644C>G	c.(2644-2646)CGT>GGT	p.R882G	COL11A1_uc001duk.2_Missense_Mutation_p.R78G|COL11A1_uc001dum.2_Missense_Mutation_p.R894G|COL11A1_uc001dun.2_Missense_Mutation_p.R843G|COL11A1_uc009weh.2_Missense_Mutation_p.R766G	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	882	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GTTGGACCACGCTGACCCCGA	0.363													9	46	---	---	---	---	PASS	C	103444627	C	C	103444627	3	2	69	1	0	0	0	0	1	0	0	0	3667	1087	38	4	2916	4	COL11A1	1	103444627	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	58743	103444627	145805994	8	26910										
WDR47	22911	broad.mit.edu	37	chr1	109538232	109538232	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cacaaggtgattcctccagaAaaggtatgtgatttgttgat	10	6	0	4			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:109538232A>G	uc001dwj.2	-	8	2037	c.1661T>C	c.(1660-1662)TTT>TCT	p.F554S	WDR47_uc001dwl.2_Missense_Mutation_p.F562S|WDR47_uc001dwi.2_Missense_Mutation_p.F555S|WDR47_uc001dwk.2_Missense_Mutation_p.F526S|WDR47_uc010ovf.1_Missense_Mutation_p.F481S	NM_001142551	NP_001136023	O94967	WDR47_HUMAN	WD repeat domain 47 isoform 3	554								p.P554R(1)		ovary(1)	1		all_lung(203;0.00519)|all_epithelial(167;0.00611)|Lung NSC(277;0.00822)		Colorectal(144;0.0165)|Lung(183;0.0484)|COAD - Colon adenocarcinoma(174;0.128)|Epithelial(280;0.168)|all cancers(265;0.201)|LUSC - Lung squamous cell carcinoma(189;0.244)		TTCCTCCAGAAAAGGTATGTG	0.378													25	232	---	---	---	---	PASS	G	109538232	G	G	109538232	3	3	69	1	0	0	0	0	1	0	0	0	17297	14	1	5	1130	5	WDR47	1	109538232	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	6093605	109538232	139712389	9	26911										
KCNA10	3744	broad.mit.edu	37	chr1	111060809	111060809	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctcaaagaggagccagaactGacggtggatgtcattggtgg	15	7	2	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:111060809G>C	uc001dzt.1	-	1	989	c.601C>G	c.(601-603)CAG>GAG	p.Q201E		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	201						voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		AGCCAGAACTGACGGTGGATG	0.547													4	79	---	---	---	---	PASS	C	111060809	C	C	111060809	3	2	69	1	0	0	0	0	1	0	0	0	8002	1299	45	2	938	2	KCNA10	1	111060809	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	1522577	111060809	138189812	10	26912										
SPAG17	200162	broad.mit.edu	37	chr1	118514563	118514563	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tccttaagcactccaaacttGactgatgatgggagaagatg	10	8	0	5			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:118514563G>C	uc001ehk.2	-	45	6317	c.6249C>G	c.(6247-6249)GTC>GTG	p.V2083V		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	2083						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		CTCCAAACTTGACTGATGATG	0.453													13	66	---	---	---	---	PASS	C	118514563	C	C	118514563	2	2	69	1	0	0	0	0	0	0	0	1	14979	1277	45	2		2	SPAG17	1	118514563	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	7453754	118514563	130736058	11	26913										
MTMR11	10903	broad.mit.edu	37	chr1	149901065	149901065	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gcctttgagaatgccagcaaTttcagtgggattgagaatgg	13	6	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:149901065T>C	uc001etl.3	-	17	2337	c.2086A>G	c.(2086-2088)ATT>GTT	p.I696V	SF3B4_uc001etj.1_5'Flank|SF3B4_uc001etk.1_5'Flank|SF3B4_uc009wll.1_5'Flank|MTMR11_uc001etm.1_Missense_Mutation_p.I624V	NM_001145862	NP_001139334	A4FU01	MTMRB_HUMAN	myotubularin related protein 11 isoform a	696							phosphatase activity			central_nervous_system(1)	1	Breast(34;0.0009)|Ovarian(49;0.0377)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			ATGCCAGCAATTTCAGTGGGA	0.438													16	129	---	---	---	---	PASS	C	149901065	C	C	149901065	3	2	69	1	0	0	0	0	1	0	0	0	9940	1493	52	5	86	5	MTMR11	1	149901065	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	31386502	149901065	99349556	12	26914										
IQGAP3	128239	broad.mit.edu	37	chr1	156532988	156532988	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cagcatctcttggtagacggCtgccagaggctctcggagat	13	11	2	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:156532988C>G	uc001fpf.2	-	8	811	c.736G>C	c.(736-738)GCC>CCC	p.A246P	IQGAP3_uc009wsb.1_Missense_Mutation_p.A203P	NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	246					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGGTAGACGGCTGCCAGAGGC	0.572													28	167	---	---	---	---	PASS	G	156532988	G	G	156532988	3	3	69	1	0	0	0	0	1	0	0	0	7816	797	28	4	4283	4	IQGAP3	1	156532988	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	6631923	156532988	92717633	13	26915										
CD5L	922	broad.mit.edu	37	chr1	157805906	157805906	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cctccacccgcccttcacagCggtggaggccccccaccagc	9	22	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:157805906C>G	uc001frk.3	-	3	238	c.95G>C	c.(94-96)CGC>CCC	p.R32P		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	32	SRCR 1.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CCCTTCACAGCGGTGGAGGCC	0.622													15	57	---	---	---	---	PASS	G	157805906	G	G	157805906	3	3	69	1	0	0	0	0	1	0	0	0	3027	768	27	4	964	4	CD5L	1	157805906	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	1272918	157805906	91444715	14	26916										
SPTA1	6708	broad.mit.edu	37	chr1	158651438	158651438	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acagcaggtcccacaggtggCgtagctcctctatatgggcc	12	13	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:158651438C>A	uc001fst.1	-	4	609	c.410G>T	c.(409-411)CGC>CTC	p.R137L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	137	Spectrin 2.				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)					CCACAGGTGGCGTAGCTCCTC	0.552													19	68	---	---	---	---	PASS	A	158651438	A	A	158651438	3	1	69	1	0	0	0	0	1	0	0	0	15115	768	27	1	7045	1	SPTA1	1	158651438	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	845532	158651438	90599183	15	26917										
PRG4	10216	broad.mit.edu	37	chr1	186277571	186277571	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aactaagactcctgcagcgaCtaaacctgaaatgactacaa	6	11	0	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:186277571C>A	uc001gru.3	+	7	2771	c.2720C>A	c.(2719-2721)ACT>AAT	p.T907N	PRG4_uc001grt.3_Missense_Mutation_p.T866N|PRG4_uc009wyl.2_Missense_Mutation_p.T814N|PRG4_uc009wym.2_Missense_Mutation_p.T773N|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	907					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CCTGCAGCGACTAAACCTGAA	0.438													20	162	---	---	---	---	PASS	A	186277571	A	A	186277571	3	1	69	1	0	0	0	0	1	0	0	0	12481	565	20	3	2742	3	PRG4	1	186277571	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	27626133	186277571	62973050	16	26918										
TPR	7175	broad.mit.edu	37	chr1	186303582	186303582	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gtgttgacttatttccagccAtagctgcagctgtcacttta	8	10	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:186303582A>G	uc001grv.2	-	36	5354	c.5057T>C	c.(5056-5058)ATG>ACG	p.M1686T		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1686					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)		ATTTCCAGCCATAGCTGCAGC	0.483			T	NTRK1	papillary thyroid								13	178	---	---	---	---	PASS	G	186303582	G	G	186303582	3	3	69	1	0	0	0	0	1	0	0	0	16413	217	8	5	2098	5	TPR	1	186303582	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	26011	186303582	62947039	17	26919										
ASPM	259266	broad.mit.edu	37	chr1	197074167	197074167	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gttttcttcttaaataagcaCgccaatgcctctgaattgta	6	9	3	1	rs143092798		TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:197074167C>A	uc001gtu.2	-	18	4471	c.4214G>T	c.(4213-4215)CGT>CTT	p.R1405L	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1405	IQ 2.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TAAATAAGCACGCCAATGCCT	0.313													20	72	---	---	---	---	PASS	A	197074167	A	A	197074167	3	1	69	1	0	0	0	0	1	0	0	0	1056	536	19	1	6263	1	ASPM	1	197074167	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	10770585	197074167	52176454	18	26920										
PLEKHA6	22874	broad.mit.edu	37	chr1	204226822	204226822	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gccacccccattgcggaaggCatggcgcttgtcctccaggg	13	15	0	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:204226822C>A	uc001hau.2	-	9	1500	c.1183G>T	c.(1183-1185)GCC>TCC	p.A395S	PLEKHA6_uc009xaw.1_Missense_Mutation_p.A19S|PLEKHA6_uc009xax.1_Missense_Mutation_p.A19S|PLEKHA6_uc009xay.1_Missense_Mutation_p.A19S|PLEKHA6_uc009xaz.1_Missense_Mutation_p.A19S|PLEKHA6_uc009xba.1_Missense_Mutation_p.A19S|PLEKHA6_uc009xbb.1_Missense_Mutation_p.A19S|PLEKHA6_uc009xbc.1_Missense_Mutation_p.A19S	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	395										ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			TTGCGGAAGGCATGGCGCTTG	0.662													10	25	---	---	---	---	PASS	A	204226822	A	A	204226822	3	1	69	1	0	0	0	0	1	0	0	0	12060	710	25	3	2019	3	PLEKHA6	1	204226822	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	7152655	204226822	45023799	19	26921										
USH2A	7399	broad.mit.edu	37	chr1	216262426	216262426	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	caattatttcatgccattttCcatcactatattgtttgcca	3	10	2	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:216262426C>A	uc001hku.1	-	23	5201	c.4814G>T	c.(4813-4815)GGA>GTA	p.G1605V		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1605	Laminin G-like 1.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATGCCATTTTCCATCACTATA	0.338										HNSCC(13;0.011)			6	130	---	---	---	---	PASS	A	216262426	A	A	216262426	3	1	69	1	0	0	0	0	1	0	0	0	17033	855	30	2	10994	2	USH2A	1	216262426	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	12035604	216262426	32988195	20	26922										
WDR26	80232	broad.mit.edu	37	chr1	224577560	224577560	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	actatccatgctactgcattCctctgaatgaagacaagatg	7	10	1	4			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:224577560C>A	uc001hop.3	-	14	1888	c.1522G>T	c.(1522-1524)GAA>TAA	p.E508*	WDR26_uc001hoq.3_Nonsense_Mutation_p.E492*|WDR26_uc010pvh.1_Nonsense_Mutation_p.E215*	NM_025160	NP_079436	Q9H7D7	WDR26_HUMAN	WD repeat domain 26 isoform a	655						cytoplasm|nucleus					0				GBM - Glioblastoma multiforme(131;0.0104)		CTACTGCATTCCTCTGAATGA	0.413													6	92	---	---	---	---	PASS	A	224577560	A	A	224577560	4	1	69	1	0	0	0	0	0	1	0	0	17280	864	30	2	26	2	WDR26	1	224577560	Nonsense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	8315134	224577560	24673061	21	26923										
OR2G3	81469	broad.mit.edu	37	chr1	247769664	247769664	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ggcaccataatctacgtgtaCctgcaacctagtgacagcta	8	12	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:247769664C>A	uc010pyz.1	+	1	777	c.777C>A	c.(775-777)TAC>TAA	p.Y259*		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	259	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TCTACGTGTACCTGCAACCTA	0.458													17	55	---	---	---	---	PASS	A	247769664	A	A	247769664	4	1	69	1	0	0	0	0	0	1	0	0	10999	518	18	3	779	3	OR2G3	1	247769664	Nonsense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	23192104	247769664	1480957	22	26924										
OR2M3	127062	broad.mit.edu	37	chr1	248367022	248367022	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgcaatcatcattgcttcctAtgctcgagttatcctggctg	8	11	2	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:248367022A>G	uc010pzg.1	+	1	653	c.653A>G	c.(652-654)TAT>TGT	p.Y218C		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	218	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ATTGCTTCCTATGCTCGAGTT	0.423													71	289	---	---	---	---	PASS	G	248367022	G	G	248367022	3	3	69	1	0	0	0	0	1	0	0	0	11011	449	16	5	655	5	OR2M3	1	248367022	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	597358	248367022	883599	23	26925										
OR2T12	127064	broad.mit.edu	37	chr1	248457927	248457927	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctgacactagatcatcttgaCctgtgggcctcattttgctg	9	11	3	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:248457927C>A	uc010pzj.1	-	1	954	c.954G>T	c.(952-954)AGG>AGT	p.R318S		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	318	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			ATCATCTTGACCTGTGGGCCT	0.413													39	188	---	---	---	---	PASS	A	248457927	A	A	248457927	3	1	69	1	0	0	0	0	1	0	0	0	11019	506	18	3	11	3	OR2T12	1	248457927	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	90905	248457927	792694	24	26926										
OR2T4	127074	broad.mit.edu	37	chr1	248525564	248525564	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gctcagacacctcactctatGagattttcatgtacttgtgc	7	11	4	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr1:248525564G>A	uc001ieh.1	+	1	682	c.682G>A	c.(682-684)GAG>AAG	p.E228K		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	228	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTCACTCTATGAGATTTTCAT	0.478													30	202	---	---	---	---	PASS	A	248525564	A	A	248525564	3	1	69	1	0	0	0	0	1	0	0	0	11027	1291	45	2	684	2	OR2T4	1	248525564	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	67637	248525564	725057	25	26927										
RNF144A	9781	broad.mit.edu	37	chr2	7137104	7137104	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctgggacctggccctcgaccCgctggtgtcttgcaagctct	12	15	2	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:7137104C>T	uc002qys.2	+	3	489	c.47C>T	c.(46-48)CCG>CTG	p.P16L	RNF144A_uc002qyt.2_Intron	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	16						Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		GCCCTCGACCCGCTGGTGTCT	0.567													10	46	---	---	---	---	PASS	T	7137104	T	T	7137104	3	4	69	1	0	0	0	0	1	0	0	0	13445	652	23	1	49	1	RNF144A	2	7137104	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08		7137104	236062269	26	26928										
ODC1	4953	broad.mit.edu	37	chr2	10580917	10580917	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tcccactctcccaggcacaaGacacaggcagggtgctggca	11	15	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:10580917G>T	uc010exg.1	-	12	1753	c.1319C>A	c.(1318-1320)TCT>TAT	p.S440Y	ODC1_uc002ran.1_Missense_Mutation_p.S126Y|ODC1_uc002rao.1_Missense_Mutation_p.S440Y|ODC1_uc010yjd.1_Missense_Mutation_p.S310Y	NM_002539	NP_002530	P11926	DCOR_HUMAN	ornithine decarboxylase 1	440					polyamine biosynthetic process|regulation of cellular amino acid metabolic process|response to virus	cytosol	ornithine decarboxylase activity|protein binding			ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.161)	Pyridoxal Phosphate(DB00114)|Spermine(DB00127)	CCAGGCACAAGACACAGGCAG	0.502													9	152	---	---	---	---	PASS	T	10580917	T	T	10580917	3	4	69	1	0	0	0	0	1	0	0	0	10825	942	33	2	70	2	ODC1	2	10580917	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	3443813	10580917	232618456	27	26929										
APOB	338	broad.mit.edu	37	chr2	21235030	21235030	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttcccattggtgtcagatttTaaagtcagctcgtagttctc	8	9	3	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:21235030T>G	uc002red.2	-	26	4838	c.4710A>C	c.(4708-4710)TTA>TTC	p.L1570F		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1570					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TGTCAGATTTTAAAGTCAGCT	0.418													5	85	---	---	---	---	PASS	G	21235030	G	G	21235030	3	3	69	1	0	0	0	0	1	0	0	0	785	1751	61	5	8997	5	APOB	2	21235030	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	10654113	21235030	221964343	28	26930										
NCOA1	8648	broad.mit.edu	37	chr2	24951338	24951338	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agctctgggaattgacaaacTtgttcaggtatttattaaag	9	5	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:24951338T>C	uc002rfk.2	+	14	3137	c.2879T>C	c.(2878-2880)CTT>CCT	p.L960P	NCOA1_uc010eye.2_Missense_Mutation_p.L960P|NCOA1_uc002rfi.2_Missense_Mutation_p.L809P|NCOA1_uc002rfj.2_Missense_Mutation_p.L960P|NCOA1_uc002rfl.2_Missense_Mutation_p.L960P	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	960	Interaction with CREBBP.								PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATTGACAAACTTGTTCAGGTA	0.363			T	PAX3	alveolar rhadomyosarcoma								9	38	---	---	---	---	PASS	C	24951338	C	C	24951338	3	2	69	1	0	0	0	0	1	0	0	0	10228	1609	56	5	2925	5	NCOA1	2	24951338	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	3716308	24951338	218248035	29	26931										
LTBP1	4052	broad.mit.edu	37	chr2	33505114	33505114	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttgatttttcagatattgatGaatgtttgaatccaagcact	7	5	1	5			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:33505114G>T	uc002ros.2	+	19	3004	c.3004G>T	c.(3004-3006)GAA>TAA	p.E1002*	LTBP1_uc002rot.2_Nonsense_Mutation_p.E676*|LTBP1_uc002rou.2_Nonsense_Mutation_p.E675*|LTBP1_uc002rov.2_Nonsense_Mutation_p.E622*|LTBP1_uc010ymz.1_Nonsense_Mutation_p.E675*|LTBP1_uc010yna.1_Nonsense_Mutation_p.E622*	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1001	EGF-like 7; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				AGATATTGATGAATGTTTGAA	0.428													13	80	---	---	---	---	PASS	T	33505114	T	T	33505114	4	4	69	1	0	0	0	0	0	1	0	0	9073	1291	45	2	3130	2	LTBP1	2	33505114	Nonsense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	8553776	33505114	209694259	30	26932										
STRN	6801	broad.mit.edu	37	chr2	37096816	37096816	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cggatgccatcaaagtgactTctcaatgtaaacttagggtt	9	8	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:37096816T>G	uc002rpn.2	-	11	1389	c.1380A>C	c.(1378-1380)AGA>AGC	p.R460S	STRN_uc010ezx.2_Missense_Mutation_p.R423S	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	460					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)				CAAAGTGACTTCTCAATGTAA	0.368													9	52	---	---	---	---	PASS	G	37096816	G	G	37096816	3	3	69	1	0	0	0	0	1	0	0	0	15328	1780	62	5	994	5	STRN	2	37096816	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	3591702	37096816	206102557	31	26933										
NRXN1	9378	broad.mit.edu	37	chr2	50780062	50780062	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gggtctaaagttgcaacattCtcacatttaaatgccaccac	6	11	2	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:50780062C>G	uc010fbq.2	-	9	3019	c.1542G>C	c.(1540-1542)GAG>GAC	p.E514D	NRXN1_uc002rxb.3_Missense_Mutation_p.E146D|NRXN1_uc002rxe.3_Missense_Mutation_p.E474D|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TTGCAACATTCTCACATTTAA	0.383													8	137	---	---	---	---	PASS	G	50780062	G	G	50780062	3	3	69	1	0	0	0	0	1	0	0	0	10665	912	32	2	3424	2	NRXN1	2	50780062	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	13683246	50780062	192419311	32	26934										
NRXN1	9378	broad.mit.edu	37	chr2	50850672	50850672	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atgacagagttatttcatcaCtgctgctttgaatggggttt	10	6	2	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:50850672C>A	uc010fbq.2	-	6	2490	c.1013G>T	c.(1012-1014)AGT>ATT	p.S338I	NRXN1_uc002rxb.3_5'UTR|NRXN1_uc002rxe.3_Missense_Mutation_p.S305I|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TATTTCATCACTGCTGCTTTG	0.398													29	114	---	---	---	---	PASS	A	50850672	A	A	50850672	3	1	69	1	0	0	0	0	1	0	0	0	10665	565	20	3	3965	3	NRXN1	2	50850672	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	70610	50850672	192348701	33	26935										
ZNF638	27332	broad.mit.edu	37	chr2	71590297	71590297	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aaataggtatcctgattggaAtcctgagatcctcccatcga	8	10	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:71590297A>G	uc002shx.2	+	4	1713	c.1394A>G	c.(1393-1395)AAT>AGT	p.N465S	ZNF638_uc010fec.2_Missense_Mutation_p.N571S|ZNF638_uc010yqw.1_Missense_Mutation_p.N44S|ZNF638_uc002shw.2_Missense_Mutation_p.N465S|ZNF638_uc002shy.2_Missense_Mutation_p.N465S|ZNF638_uc002shz.2_Missense_Mutation_p.N465S|ZNF638_uc002sia.2_Missense_Mutation_p.N465S|ZNF638_uc002sib.1_Missense_Mutation_p.N465S|ZNF638_uc010fed.2_5'Flank	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	465					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						CCTGATTGGAATCCTGAGATC	0.264													8	40	---	---	---	---	PASS	G	71590297	G	G	71590297	3	3	69	1	0	0	0	0	1	0	0	0	18052	101	4	5	1404	5	ZNF638	2	71590297	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	20739625	71590297	171609076	34	26936										
FBXO41	150726	broad.mit.edu	37	chr2	73498004	73498004	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttccactgccctgtgatcaaGgtcacagaccacctgctgat	8	14	2	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:73498004G>A	uc002sjb.1	-	1	40	c.40C>T	c.(40-42)CTT>TTT	p.L14F		NM_001080410	NP_001073879	Q8TF61	FBX41_HUMAN	F-box protein 41	Error:Variant_position_missing_in_Q8TF61_after_alignment						intracellular	protein binding|zinc ion binding			breast(2)|pancreas(1)	3						CTGTGATCAAGGTCACAGACC	0.532													16	121	---	---	---	---	PASS	A	73498004	A	A	73498004	3	1	69	1	0	0	0	0	1	0	0	0	5750	1015	35	3		3	FBXO41	2	73498004	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	1907707	73498004	169701369	35	26937										
LRRTM4	80059	broad.mit.edu	37	chr2	77746093	77746093	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atgtgatggatattaatgatAtccacgcattgacagtttcc	8	7	0	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:77746093A>G	uc002snr.2	-	3	1317	c.902T>C	c.(901-903)ATA>ACA	p.I301T	LRRTM4_uc002snq.2_Missense_Mutation_p.I301T|LRRTM4_uc002sns.2_Missense_Mutation_p.I301T|LRRTM4_uc002snt.2_Missense_Mutation_p.I302T	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	301	Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TATTAATGATATCCACGCATT	0.368													6	29	---	---	---	---	PASS	G	77746093	G	G	77746093	3	3	69	1	0	0	0	0	1	0	0	0	9042	449	16	5	884	5	LRRTM4	2	77746093	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	4248089	77746093	165453280	36	26938										
REG3A	5068	broad.mit.edu	37	chr2	79386511	79386511	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agcatccaagatacactgggCagggccatgggaggcagcat	14	10	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:79386511C>A	uc002sod.1	-	1	276	c.21G>T	c.(19-21)CTG>CTT	p.L7L	REG3A_uc002soe.1_Silent_p.L7L|REG3A_uc002sof.1_Silent_p.L7L	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	7					acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						ATACACTGGGCAGGGCCATGG	0.532													8	60	---	---	---	---	PASS	A	79386511	A	A	79386511	2	1	69	1	0	0	0	0	0	0	0	1	13212	697	25	3		3	REG3A	2	79386511	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	1640418	79386511	163812862	37	26939										
EPC2	26122	broad.mit.edu	37	chr2	149519363	149519363	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tttaatagaatcgtaagaatGatgaagcctcttatgaaaag	8	4	1	5			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:149519363G>C	uc010zbt.1	+	5	706	c.679G>C	c.(679-681)GAT>CAT	p.D227H		NM_015630	NP_056445	Q52LR7	EPC2_HUMAN	enhancer of polycomb homolog 2	227					chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)|breast(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0516)		TCGTAAGAATGATGAAGCCTC	0.294													4	12	---	---	---	---	PASS	C	149519363	C	C	149519363	3	2	69	1	0	0	0	0	1	0	0	0	5161	1290	45	2	697	2	EPC2	2	149519363	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	70132852	149519363	93680010	38	26940										
GPD2	2820	broad.mit.edu	37	chr2	157425449	157425449	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	catgttgttgatatcagtgaGagtggccttattactatagc	10	6	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:157425449G>C	uc002tzf.3	+	10	1638	c.1278G>C	c.(1276-1278)GAG>GAC	p.E426D	GPD2_uc010zch.1_Missense_Mutation_p.E199D|GPD2_uc002tzd.3_Missense_Mutation_p.E426D|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	426					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						ATATCAGTGAGAGTGGCCTTA	0.323													12	227	---	---	---	---	PASS	C	157425449	C	C	157425449	3	2	69	1	0	0	0	0	1	0	0	0	6606	933	33	2	1312	2	GPD2	2	157425449	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	7906086	157425449	85773924	39	26941										
GALNT5	11227	broad.mit.edu	37	chr2	158157214	158157214	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atgtgtggtggtgaaattgaGatcattccctgctcccgagt	12	8	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:158157214G>C	uc002tzg.2	+	7	2397	c.2142G>C	c.(2140-2142)GAG>GAC	p.E714D	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	714	Catalytic subdomain B.|Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						GTGAAATTGAGATCATTCCCT	0.438													7	140	---	---	---	---	PASS	C	158157214	C	C	158157214	3	2	69	1	0	0	0	0	1	0	0	0	6216	933	33	2	2168	2	GALNT5	2	158157214	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	731765	158157214	85042159	40	26942										
ACVR1C	130399	broad.mit.edu	37	chr2	158406771	158406771	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aaccaagatctttcatctctGgaggagaatattttcacagc	7	9	4	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:158406771G>A	uc002tzk.3	-	4	921	c.678C>T	c.(676-678)TCC>TCT	p.S226S	ACVR1C_uc002tzl.3_Silent_p.S146S|ACVR1C_uc010fof.2_Intron|ACVR1C_uc010foe.2_Silent_p.S176S	NM_145259	NP_660302	Q8NER5	ACV1C_HUMAN	activin A receptor, type IC isoform 1	226	Protein kinase.|Cytoplasmic (Potential).				apoptosis|cell differentiation|regulation of apoptosis	activin receptor complex	activin receptor activity, type I|ATP binding|transforming growth factor beta receptor activity			lung(3)|ovary(2)|skin(2)	7						TTTCATCTCTGGAGGAGAATA	0.448													21	129	---	---	---	---	PASS	A	158406771	A	A	158406771	2	1	69	1	0	0	0	0	0	0	0	1	222	1335	47	3		3	ACVR1C	2	158406771	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	249557	158406771	84792602	41	26943										
SCN3A	6328	broad.mit.edu	37	chr2	166032861	166032861	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gagattctctagtaaaaaggCggaagctttcaggtcctggg	13	7	2	1	rs139769668	byFrequency	TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:166032861C>T	uc002ucx.2	-	3	536	c.44G>A	c.(43-45)CGC>CAC	p.R15H	SCN3A_uc002ucy.2_Missense_Mutation_p.R15H|SCN3A_uc002ucz.2_Missense_Mutation_p.R15H	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	15						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	AGTAAAAAGGCGGAAGCTTTC	0.428													33	85	---	---	---	---	PASS	T	166032861	T	T	166032861	3	4	69	1	0	0	0	0	1	0	0	0	13918	768	27	1	6158	1	SCN3A	2	166032861	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	7626090	166032861	77166512	42	26944										
RAPGEF4	11069	broad.mit.edu	37	chr2	173916488	173916488	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acacagattagagcctcgtcGaccatagacatttcaaatgc	7	11	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:173916488G>A	uc002uhv.3	+	31	3216	c.3029G>A	c.(3028-3030)CGA>CAA	p.R1010Q	RAPGEF4_uc002uhw.3_Missense_Mutation_p.R866Q	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	1010					blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			GAGCCTCGTCGACCATAGACA	0.403													3	63	---	---	---	---	PASS	A	173916488	A	A	173916488	3	1	69	1	0	0	0	0	1	0	0	0	13046	1058	37	2	3167	2	RAPGEF4	2	173916488	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	7883627	173916488	69282885	43	26945										
NFE2L2	4780	broad.mit.edu	37	chr2	178098944	178098944	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gactgaagtcaaatacttctCgacttactccaagatctata	5	10	3	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:178098944C>G	uc002ulh.3	-	2	656	c.101G>C	c.(100-102)CGA>CCA	p.R34P	NFE2L2_uc002ulg.3_Missense_Mutation_p.R18P|NFE2L2_uc010zfa.1_Missense_Mutation_p.R18P|NFE2L2_uc002uli.3_Missense_Mutation_p.R18P|NFE2L2_uc010fra.2_Missense_Mutation_p.R18P|NFE2L2_uc010frb.2_Missense_Mutation_p.R18P	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	34					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			AAATACTTCTCGACTTACTCC	0.373			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			17	47	---	---	---	---	PASS	G	178098944	G	G	178098944	3	3	69	1	0	0	0	0	1	0	0	0	10368	884	31	2	1732	2	NFE2L2	2	178098944	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	4182456	178098944	65100429	44	26946										
TTN	7273	broad.mit.edu	37	chr2	179442158	179442158	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ggtttgccaagaatgctaatGgcattcaaaacaatggtatc	9	7	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:179442158G>T	uc010zfg.1	-	273	61424	c.61200C>A	c.(61198-61200)GCC>GCA	p.A20400A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.A14095A|TTN_uc010zfi.1_Silent_p.A14028A|TTN_uc010zfj.1_Silent_p.A13903A|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21327							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)			GAATGCTAATGGCATTCAAAA	0.393													16	48	---	---	---	---	PASS	T	179442158	T	T	179442158	2	4	69	1	0	0	0	0	0	0	0	1	16732	1335	47	3		3	TTN	2	179442158	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	1343214	179442158	63757215	45	26947										
TTN	7273	broad.mit.edu	37	chr2	179477625	179477625	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gccctgggagcaagtgctgaGtggtgggaaccccttccgcc	15	13	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:179477625G>T	uc010zfg.1	-	214	42343	c.42119C>A	c.(42118-42120)ACT>AAT	p.T14040N	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T7735N|TTN_uc010zfi.1_Missense_Mutation_p.T7668N|TTN_uc010zfj.1_Missense_Mutation_p.T7543N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14967							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)			CAAGTGCTGAGTGGTGGGAAC	0.507													19	41	---	---	---	---	PASS	T	179477625	T	T	179477625	3	4	69	1	0	0	0	0	1	0	0	0	16732	1029	36	3	58262	3	TTN	2	179477625	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	35467	179477625	63721748	46	26948										
TTN	7273	broad.mit.edu	37	chr2	179595911	179595911	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acatctatagacacagcttcCtcggtgattgttgcaggttc	9	10	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:179595911C>G	uc010zfg.1	-	57	13973	c.13749G>C	c.(13747-13749)GAG>GAC	p.E4583D	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E1244D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5510							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)			ACACAGCTTCCTCGGTGATTG	0.448													79	247	---	---	---	---	PASS	G	179595911	G	G	179595911	3	3	69	1	0	0	0	0	1	0	0	0	16732	680	24	4	87260	4	TTN	2	179595911	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	118286	179595911	63603462	47	26949										
ZNF804A	91752	broad.mit.edu	37	chr2	185801788	185801788	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aaaaacatttcctgtaagatCagagaaacagaaaagtataa	6	5	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:185801788C>A	uc002uph.2	+	4	2259	c.1665C>A	c.(1663-1665)ATC>ATA	p.I555I		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	555						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						CCTGTAAGATCAGAGAAACAG	0.328													15	44	---	---	---	---	PASS	A	185801788	A	A	185801788	2	1	69	1	0	0	0	0	0	0	0	1	18167	816	29	2		2	ZNF804A	2	185801788	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	6205877	185801788	57397585	48	26950										
ITGAV	3685	broad.mit.edu	37	chr2	187532403	187532403	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttggtcattgtttagagtctCgagtcctgatcatgtctttc	9	8	4	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:187532403C>G	uc002upq.2	+	24	2609	c.2333C>G	c.(2332-2334)TCG>TGG	p.S778W	ITGAV_uc010frs.2_Missense_Mutation_p.S742W|ITGAV_uc010zfv.1_Missense_Mutation_p.S732W	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	778	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		TTTAGAGTCTCGAGTCCTGAT	0.383													9	86	---	---	---	---	PASS	G	187532403	G	G	187532403	3	3	69	1	0	0	0	0	1	0	0	0	7888	893	31	2	2478	2	ITGAV	2	187532403	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	1730615	187532403	55666970	49	26951										
PMS1	5378	broad.mit.edu	37	chr2	190719454	190719454	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gggaaaatgaggaagaagcaGgtcttgaaaactcttcggaa	13	5	2	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:190719454G>C	uc002urh.3	+	9	1985	c.1456G>C	c.(1456-1458)GGT>CGT	p.G486R	PMS1_uc010zga.1_Missense_Mutation_p.G447R|PMS1_uc010zgb.1_Missense_Mutation_p.G425R|PMS1_uc002urk.3_Missense_Mutation_p.G447R|PMS1_uc002uri.3_Missense_Mutation_p.G486R|PMS1_uc010zgc.1_Missense_Mutation_p.G310R|PMS1_uc010zgd.1_Missense_Mutation_p.G310R|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Missense_Mutation_p.G447R|PMS1_uc010frz.2_Intron|PMS1_uc002url.2_Missense_Mutation_p.G271R|PMS1_uc002urm.2_RNA|PMS1_uc002urn.1_Missense_Mutation_p.G154R	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	486					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			GGAAGAAGCAGGTCTTGAAAA	0.363			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					22	44	---	---	---	---	PASS	C	190719454	C	C	190719454	3	2	69	1	0	0	0	0	1	0	0	0	12142	1000	35	4	1486	4	PMS1	2	190719454	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	3187051	190719454	52479919	50	26952										
DYTN	391475	broad.mit.edu	37	chr2	207557925	207557925	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgcgcatggtgaggcacaccCtttggattcacctggtccag	12	12	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:207557925C>A	uc002vbr.1	-	9	1071	c.954G>T	c.(952-954)AAG>AAT	p.K318N		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	318						plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		GAGGCACACCCTTTGGATTCA	0.582													12	23	---	---	---	---	PASS	A	207557925	A	A	207557925	3	1	69	1	0	0	0	0	1	0	0	0	4861	680	24	3	798	3	DYTN	2	207557925	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	16838471	207557925	35641448	51	26953										
PIKFYVE	200576	broad.mit.edu	37	chr2	209215512	209215512	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tagaattttcagatgctaatGccaagttttactgtcggctc	8	8	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:209215512G>T	uc002vcz.2	+	37	5610	c.5452G>T	c.(5452-5454)GCC>TCC	p.A1818S		NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1818	PIPK.				cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						AGATGCTAATGCCAAGTTTTA	0.418													25	84	---	---	---	---	PASS	T	209215512	T	T	209215512	3	4	69	1	0	0	0	0	1	0	0	0	11924	1319	46	3	5605	3	PIKFYVE	2	209215512	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	1657587	209215512	33983861	52	26954										
CPS1	1373	broad.mit.edu	37	chr2	211469926	211469926	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgctgatgacaattgtgtcaCtgtctgtaacatggaaaatg	10	6	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr2:211469926C>T	uc002vee.3	+	17	2069	c.1937C>T	c.(1936-1938)ACT>ATT	p.T646I	CPS1_uc010fur.2_Missense_Mutation_p.T652I|CPS1_uc010fus.2_Missense_Mutation_p.T195I	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	646	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)		AATTGTGTCACTGTCTGTAAC	0.408													8	75	---	---	---	---	PASS	T	211469926	T	T	211469926	3	4	69	1	0	0	0	0	1	0	0	0	3823	565	20	3	2025	3	CPS1	2	211469926	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	2254414	211469926	31729447	53	26955										
HRH1	3269	broad.mit.edu	37	chr3	11301218	11301218	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gttattcccattctaggctgGaatcacttcatgcagcagac	8	11	3	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:11301218G>T	uc010hdr.2	+	2	837	c.495G>T	c.(493-495)TGG>TGT	p.W165C	HRH1_uc010hds.2_Missense_Mutation_p.W165C|HRH1_uc010hdt.2_Missense_Mutation_p.W165C|HRH1_uc003bwb.3_Missense_Mutation_p.W165C	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1	165	Helical; Name=4; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	TTCTAGGCTGGAATCACTTCA	0.522													12	70	---	---	---	---	PASS	T	11301218	T	T	11301218	3	4	69	1	0	0	0	0	1	0	0	0	7355	1183	41	2	497	2	HRH1	3	11301218	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08		11301218	186721212	54	26956										
ABHD5	51099	broad.mit.edu	37	chr3	43759279	43759279	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttcagtgatctttggcgcccGatcctgcatagatggcaatt	10	10	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:43759279G>C	uc003cmx.2	+	6	1000	c.890G>C	c.(889-891)CGA>CCA	p.R297P		NM_016006	NP_057090	Q8WTS1	ABHD5_HUMAN	abhydrolase domain containing 5	297					cell differentiation|fatty acid metabolic process|negative regulation of sequestering of triglyceride|phosphatidic acid biosynthetic process|positive regulation of triglyceride catabolic process|triglyceride catabolic process	cytosol|lipid particle	1-acylglycerol-3-phosphate O-acyltransferase activity|lysophosphatidic acid acyltransferase activity			ovary(1)	1		Renal(3;0.0134)		KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0687)		TTTGGCGCCCGATCCTGCATA	0.443													23	80	---	---	---	---	PASS	C	43759279	C	C	43759279	3	2	69	1	0	0	0	0	1	0	0	0	85	1058	37	2	912	2	ABHD5	3	43759279	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	32458061	43759279	154263151	55	26957										
ADAMTS9	56999	broad.mit.edu	37	chr3	64644325	64644325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gtcctcttttctcttgtgttGtccgtcttattaccataagc	6	11	3	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:64644325G>T	uc003dmg.2	-	4	854	c.822C>A	c.(820-822)GAC>GAA	p.D274E	ADAMTS9_uc011bfo.1_Missense_Mutation_p.D274E|ADAMTS9_uc003dmh.1_Missense_Mutation_p.D103E|ADAMTS9_uc003dmk.1_Missense_Mutation_p.D274E	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	274					glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CTCTTGTGTTGTCCGTCTTAT	0.438													37	152	---	---	---	---	PASS	T	64644325	T	T	64644325	3	4	69	1	0	0	0	0	1	0	0	0	273	1368	48	3	5129	3	ADAMTS9	3	64644325	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	20885046	64644325	133378105	56	26958										
HTR1F	3355	broad.mit.edu	37	chr3	88040159	88040159	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cattgtgtatattgtgagagAgagctggattatggggcaag	15	3	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:88040159A>G	uc003dqr.2	+	2	418	c.260A>G	c.(259-261)GAG>GGG	p.E87G		NM_000866	NP_000857	P30939	5HT1F_HUMAN	5-hydroxytryptamine (serotonin) receptor 1F	87	Extracellular (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	serotonin binding|serotonin receptor activity			ovary(3)	3	all_cancers(8;0.147)	Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00664)	Eletriptan(DB00216)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Zolmitriptan(DB00315)	ATTGTGAGAGAGAGCTGGATT	0.463													5	101	---	---	---	---	PASS	G	88040159	G	G	88040159	3	3	69	1	0	0	0	0	1	0	0	0	7440	304	11	5	262	5	HTR1F	3	88040159	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	23395834	88040159	109982271	57	26959										
EPHA6	285220	broad.mit.edu	37	chr3	96533584	96533584	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ccctcgtgccctgttcccggGacctcgcgcagggggcgccc	14	19	0	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:96533584G>T	uc010how.1	+	1	160	c.117G>T	c.(115-117)GGG>GGT	p.G39G	EPHA6_uc003drp.1_Silent_p.G39G	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	Error:Variant_position_missing_in_Q9UF33_after_alignment						integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CTGTTCCCGGGACCTCGCGCA	0.637													13	14	---	---	---	---	PASS	T	96533584	T	T	96533584	2	4	69	1	0	0	0	0	0	0	0	1	5171	1161	41	2		2	EPHA6	3	96533584	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	8493425	96533584	101488846	58	26960										
OR5AC2	81050	broad.mit.edu	37	chr3	97806662	97806662	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aaatacccactttaatgactAtcataatctcttatactcgt	2	10	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:97806662A>G	uc011bgs.1	+	1	646	c.646A>G	c.(646-648)ATC>GTC	p.I216V		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	216	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TTTAATGACTATCATAATCTC	0.353													3	30	---	---	---	---	PASS	G	97806662	G	G	97806662	3	3	69	1	0	0	0	0	1	0	0	0	11141	449	16	5	648	5	OR5AC2	3	97806662	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	1273078	97806662	100215768	59	26961										
GPR15	2838	broad.mit.edu	37	chr3	98251900	98251900	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agtcacctcactaaggctctCtccaccttcattcatgcaga	5	15	5	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:98251900C>G	uc011bgy.1	+	1	1023	c.1023C>G	c.(1021-1023)CTC>CTG	p.L341L		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	341	Cytoplasmic (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		CTAAGGCTCTCTCCACCTTCA	0.493													18	117	---	---	---	---	PASS	G	98251900	G	G	98251900	2	3	69	1	0	0	0	0	0	0	0	1	6655	900	32	2		2	GPR15	3	98251900	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	445238	98251900	99770530	60	26962										
CEP97	79598	broad.mit.edu	37	chr3	101477150	101477150	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgcagccaccaagcttcaggCctgttggcggggattttatg	13	10	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:101477150C>G	uc003dvk.1	+	9	1727	c.1700C>G	c.(1699-1701)GCC>GGC	p.A567G	CEP97_uc010hpm.1_Missense_Mutation_p.A533G|CEP97_uc011bhf.1_Missense_Mutation_p.A508G|CEP97_uc003dvl.1_Missense_Mutation_p.A263G|CEP97_uc003dvm.1_Missense_Mutation_p.A405G	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	567	IQ.|CEP110 binding.					centrosome|nucleus	protein binding			ovary(2)	2						AAGCTTCAGGCCTGTTGGCGG	0.463													8	148	---	---	---	---	PASS	G	101477150	G	G	101477150	3	3	69	1	0	0	0	0	1	0	0	0	3263	739	26	4	1734	4	CEP97	3	101477150	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	3225250	101477150	96545280	61	26963										
BBX	56987	broad.mit.edu	37	chr3	107435501	107435501	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gagcaagatgttggtgaaacTgaagatgatgaatcaccaga	12	5	1	7			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:107435501T>G	uc010hpr.2	+	5	537	c.210T>G	c.(208-210)ACT>ACG	p.T70T	BBX_uc003dwk.3_Silent_p.T70T|BBX_uc003dwl.3_Silent_p.T70T|BBX_uc010hps.1_Silent_p.T91T|BBX_uc003dwm.3_Silent_p.T70T	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	70					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			TTGGTGAAACTGAAGATGATG	0.433													24	81	---	---	---	---	PASS	G	107435501	G	G	107435501	2	3	69	1	0	0	0	0	0	0	0	1	1343	1567	55	5		5	BBX	3	107435501	Silent	SNP	T	TCGA-34-5236-01A-21D-1817-08	5958351	107435501	90586929	62	26964										
HHLA2	11148	broad.mit.edu	37	chr3	108072395	108072395	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ggatccgaagtcgtaatacaCtggaagtatcaagatagcta	10	7	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:108072395C>T	uc003dwy.3	+	4	353	c.186C>T	c.(184-186)CAC>CAT	p.H62H	HHLA2_uc011bhl.1_Intron|HHLA2_uc010hpu.2_Silent_p.H62H|HHLA2_uc003dwz.2_Silent_p.H62H	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	62	Ig-like V-type 1.					integral to membrane				ovary(1)	1						TCGTAATACACTGGAAGTATC	0.388													9	54	---	---	---	---	PASS	T	108072395	T	T	108072395	2	4	69	1	0	0	0	0	0	0	0	1	7095	564	20	3		3	HHLA2	3	108072395	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	636894	108072395	89950035	63	26965										
POLQ	10721	broad.mit.edu	37	chr3	121208002	121208002	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgggtatcacagttctgcttAtatcatctcctaatgcctga	7	10	4	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:121208002A>G	uc003eee.3	-	16	3905	c.3776T>C	c.(3775-3777)ATA>ACA	p.I1259T	POLQ_uc003eed.2_Missense_Mutation_p.I431T	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1259					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AGTTCTGCTTATATCATCTCC	0.343								DNA_polymerases_(catalytic_subunits)					7	238	---	---	---	---	PASS	G	121208002	G	G	121208002	3	3	69	1	0	0	0	0	1	0	0	0	12208	449	16	5	4056	5	POLQ	3	121208002	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	13135607	121208002	76814428	64	26966										
NPHP3	27031	broad.mit.edu	37	chr3	132432080	132432080	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	attggaaaataaacagcatgGaaaaaatatcccattgtctc	6	7	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:132432080G>A	uc003epe.1	-	6	1085	c.1008C>T	c.(1006-1008)TTC>TTT	p.F336F	NPHP3_uc003epf.1_Silent_p.F91F	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	336					maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						AAACAGCATGGAAAAAATATC	0.269													9	26	---	---	---	---	PASS	A	132432080	A	A	132432080	2	1	69	1	0	0	0	0	0	0	0	1	10580	1165	41	2		2	NPHP3	3	132432080	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	11224078	132432080	65590350	65	26967										
C3orf72	401089	broad.mit.edu	37	chr3	138668461	138668461	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ccttcacatggctgtccggcAttcgaaggctcagaaaacag	10	12	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:138668461A>T	uc003esx.1	+	2	331	c.200A>T	c.(199-201)CAT>CTT	p.H67L	FOXL2_uc003esw.2_5'Flank|C3orf72_uc011bmr.1_5'UTR	NM_001040061	NP_001035150	Q6ZUU3	CC072_HUMAN	chromosome 3 open reading frame 72	67											0						GCTGTCCGGCATTCGAAGGCT	0.572													3	71	---	---	---	---	PASS	T	138668461	T	T	138668461	3	4	69	1	0	0	0	0	1	0	0	0	2244	217	8	5	206	5	C3orf72	3	138668461	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	6236381	138668461	59353969	66	26968										
CLSTN2	64084	broad.mit.edu	37	chr3	140285003	140285003	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctgacgacagcgaagaggagGaggaggaggaagggatgggc	21	5	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:140285003G>T	uc003etn.2	+	17	2966	c.2776G>T	c.(2776-2778)GAG>TAG	p.E926*		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	926	Glu-rich (highly acidic).|Cytoplasmic (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						CGAAGAGGAGGAGGAGGAGGA	0.602										HNSCC(16;0.037)			6	42	---	---	---	---	PASS	T	140285003	T	T	140285003	4	4	69	1	0	0	0	0	0	1	0	0	3562	1175	41	2	2842	2	CLSTN2	3	140285003	Nonsense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	1616542	140285003	57737427	67	26969										
SI	6476	broad.mit.edu	37	chr3	164758839	164758839	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttaaatactgccttgatgatTtaaccaaaagtgaattctgc	6	7	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:164758839T>G	uc003fei.2	-	18	2110	c.2048A>C	c.(2047-2049)AAA>ACA	p.K683T		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	683	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)	CCTTGATGATTTAACCAAAAG	0.348										HNSCC(35;0.089)			27	209	---	---	---	---	PASS	G	164758839	G	G	164758839	3	3	69	1	0	0	0	0	1	0	0	0	14297	1841	64	5	3559	5	SI	3	164758839	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	24473836	164758839	33263591	68	26970										
SLITRK3	22865	broad.mit.edu	37	chr3	164906740	164906740	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aataaggtgagaatctccagGctgggctggggattctccag	14	8	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:164906740G>T	uc003fej.3	-	2	2323	c.1879C>A	c.(1879-1881)CCT>ACT	p.P627T	SLITRK3_uc003fek.2_Missense_Mutation_p.P627T	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	627	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GAATCTCCAGGCTGGGCTGGG	0.547										HNSCC(40;0.11)			7	35	---	---	---	---	PASS	T	164906740	T	T	164906740	3	4	69	1	0	0	0	0	1	0	0	0	14744	1203	42	3	1058	3	SLITRK3	3	164906740	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	147901	164906740	33115690	69	26971										
ZBBX	79740	broad.mit.edu	37	chr3	167016134	167016134	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tggaattgttgcattctaaaCgatgagaaggaagtaagttg	12	3	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:167016134C>G	uc003fep.2	-	18	2161	c.1838G>C	c.(1837-1839)CGT>CCT	p.R613P	ZBBX_uc011bpc.1_Missense_Mutation_p.R613P|ZBBX_uc003feq.2_Missense_Mutation_p.R584P	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	613						intracellular	zinc ion binding			ovary(2)	2						GCATTCTAAACGATGAGAAGG	0.338													10	144	---	---	---	---	PASS	G	167016134	G	G	167016134	3	3	69	1	0	0	0	0	1	0	0	0	17513	536	19	4	580	4	ZBBX	3	167016134	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	2109394	167016134	31006296	70	26972										
NAALADL2	254827	broad.mit.edu	37	chr3	175165022	175165022	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gtcttttgaatacagatgaaAgttttagacaaagccgatca	8	6	2	4			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:175165022A>T	uc003fit.2	+	6	1183	c.1096A>T	c.(1096-1098)AGT>TGT	p.S366C	NAALADL2_uc003fiu.1_Missense_Mutation_p.S359C|NAALADL2_uc010hwy.1_Intron|NAALADL2_uc010hwz.1_Translation_Start_Site	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	366	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		TACAGATGAAAGTTTTAGACA	0.353													3	38	---	---	---	---	PASS	T	175165022	T	T	175165022	3	4	69	1	0	0	0	0	1	0	0	0	10130	72	3	5	1118	5	NAALADL2	3	175165022	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	8148888	175165022	22857408	71	26973										
LSG1	55341	broad.mit.edu	37	chr3	194365336	194365336	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttttgtcaacgatattttcaAtctgctttgcttttttattt	4	6	3	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:194365336A>G	uc003fui.2	-	13	2078	c.1763T>C	c.(1762-1764)ATT>ACT	p.I588T		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	588					nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		GATATTTTCAATCTGCTTTGC	0.323													5	65	---	---	---	---	PASS	G	194365336	G	G	194365336	3	3	69	1	0	0	0	0	1	0	0	0	9049	101	4	5	221	5	LSG1	3	194365336	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	19200314	194365336	3657094	72	26974										
SENP5	205564	broad.mit.edu	37	chr3	196613059	196613059	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aggaagctctttcttgggcaAggagcttagtttagacgaag	13	6	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr3:196613059A>T	uc003fwz.3	+	2	1256	c.1007A>T	c.(1006-1008)AAG>ATG	p.K336M	SENP5_uc011bty.1_Missense_Mutation_p.K336M	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	336					cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		TTCTTGGGCAAGGAGCTTAGT	0.507													15	102	---	---	---	---	PASS	T	196613059	T	T	196613059	3	4	69	1	0	0	0	0	1	0	0	0	14049	72	3	5	1009	5	SENP5	3	196613059	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	2247723	196613059	1409371	73	26975										
LRRC66	339977	broad.mit.edu	37	chr4	52863965	52863965	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tttcctccaggattcagaaaTaaaattttgaaagactgcca	6	8	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr4:52863965T>C	uc003gzi.2	-	3	818	c.805A>G	c.(805-807)ATT>GTT	p.I269V		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	269						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						GATTCAGAAATAAAATTTTGA	0.373													63	139	---	---	---	---	PASS	C	52863965	C	C	52863965	3	2	69	1	0	0	0	0	1	0	0	0	9018	1406	49	5	1845	5	LRRC66	4	52863965	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08		52863965	138290311	74	26976										
PKD2	5311	broad.mit.edu	37	chr4	88973215	88973215	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgctactacagtttctggaaGatcaaaatactttccccaac	5	11	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr4:88973215G>T	uc003hre.2	+	7	1687	c.1621G>T	c.(1621-1623)GAT>TAT	p.D541Y	PKD2_uc011cdf.1_5'UTR|PKD2_uc011cdg.1_5'UTR|PKD2_uc011cdh.1_5'UTR	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	541	Extracellular (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		GTTTCTGGAAGATCAAAATAC	0.343													9	58	---	---	---	---	PASS	T	88973215	T	T	88973215	3	4	69	1	0	0	0	0	1	0	0	0	11966	942	33	2	1647	2	PKD2	4	88973215	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	36109250	88973215	102181061	75	26977										
KIAA0947	23379	broad.mit.edu	37	chr5	5463179	5463179	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tcagaggaagatgattattcGttaaaaaatacaagtcagct	8	5	2	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr5:5463179G>T	uc003jdm.3	+	13	3954	c.3732G>T	c.(3730-3732)TCG>TCT	p.S1244S		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1244										ovary(1)|central_nervous_system(1)	2						ATGATTATTCGTTAAAAAATA	0.388													3	33	---	---	---	---	PASS	T	5463179	T	T	5463179	2	4	69	1	0	0	0	0	0	0	0	1	8202	1132	40	1		1	KIAA0947	5	5463179	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08		5463179	175452081	76	26978										
CDH12	1010	broad.mit.edu	37	chr5	21752268	21752268	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atcgtaatggatgacgttgtCtctgatgtcttctttagagg	11	6	3	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr5:21752268C>G	uc010iuc.2	-	12	2421	c.1963G>C	c.(1963-1965)GAC>CAC	p.D655H	CDH12_uc011cno.1_Missense_Mutation_p.D615H|CDH12_uc003jgk.2_Missense_Mutation_p.D655H|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	655	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						ATGACGTTGTCTCTGATGTCT	0.453										HNSCC(59;0.17)			11	80	---	---	---	---	PASS	G	21752268	G	G	21752268	3	3	69	1	0	0	0	0	1	0	0	0	3098	913	32	2	425	2	CDH12	5	21752268	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	16289089	21752268	159162992	77	26979										
ADAMTS12	81792	broad.mit.edu	37	chr5	33616178	33616178	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gagcccaatgtcaacataacCtaaagagagaagacacaatc	7	10	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr5:33616178C>A	uc003jia.1	-	15	2307	c.2144_splice	c.e15-1	p.G715_splice	ADAMTS12_uc010iuq.1_Splice_Site_p.G630_splice	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TCAACATAACCTAAAGAGAGA	0.473										HNSCC(64;0.19)			6	49	---	---	---	---	PASS	A	33616178	A	A	33616178	5	1	69	1	0	0	0	0	0	0	1	0	257	695	24	3	2681	3	ADAMTS12	5	33616178	Splice_Site	SNP	C	TCGA-34-5236-01A-21D-1817-08	11863910	33616178	147299082	78	26980										
RICTOR	253260	broad.mit.edu	37	chr5	38963107	38963107	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cctcgtttcttcatttcatgGaagcgttttaaacagttcaa	6	9	4	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr5:38963107G>A	uc003jlp.2	-	17	1461	c.1437C>T	c.(1435-1437)TTC>TTT	p.F479F	RICTOR_uc003jlo.2_Silent_p.F479F|RICTOR_uc010ivf.2_Silent_p.F194F	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	479					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					TCATTTCATGGAAGCGTTTTA	0.383													4	65	---	---	---	---	PASS	A	38963107	A	A	38963107	2	1	69	1	0	0	0	0	0	0	0	1	13358	1165	41	2		2	RICTOR	5	38963107	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	5346929	38963107	141952153	79	26981										
C7	730	broad.mit.edu	37	chr5	40936549	40936549	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aggagaccttcctgtgatatCgataaacctcctcctaacat	6	12	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr5:40936549C>T	uc003jmh.2	+	5	504	c.390C>T	c.(388-390)ATC>ATT	p.I130I	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	130	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				CCTGTGATATCGATAAACCTC	0.413													12	36	---	---	---	---	PASS	T	40936549	T	T	40936549	2	4	69	1	0	0	0	0	0	0	0	1	2375	874	31	2		2	C7	5	40936549	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	1973442	40936549	139978711	80	26982										
HEATR7B2	133558	broad.mit.edu	37	chr5	41049530	41049530	+	Missense_Mutation	SNP	C	A	A													0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acaaaagtcaggatccttggCcatagcacctgtggaaaaca							TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr5:41049530C>A	uc003jmj.3	-	14	1843	c.1353G>T	c.(1351-1353)TGG>TGT	p.W451C	HEATR7B2_uc003jmi.3_Missense_Mutation_p.W6C	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	451							binding			ovary(6)|central_nervous_system(2)	8						GGATCCTTGGCCATAGCACCT	0.443													4	35	---	---	---	---	PASS	A	41049530	A	A	41049530	3	1	69	1	0	0	0	0	1	0	0	0	7035	740	26	3	3520	3	HEATR7B2	5	41049530	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	112981	41049530	139865730	81	26983	561	2								
HEATR7B2	133558	broad.mit.edu	37	chr5	41049531	41049531	+	Nonsense_Mutation	SNP	C	T	T													0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	caaaagtcaggatccttggcCatagcacctgtggaaaacag							TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr5:41049531C>T	uc003jmj.3	-	14	1842	c.1352G>A	c.(1351-1353)TGG>TAG	p.W451*	HEATR7B2_uc003jmi.3_Nonsense_Mutation_p.W6*	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	451							binding			ovary(6)|central_nervous_system(2)	8						GATCCTTGGCCATAGCACCTG	0.438													4	35	---	---	---	---	PASS	T	41049531	T	T	41049531	4	4	69	1	0	0	0	0	0	1	0	0	7035	595	21	3	3521	3	HEATR7B2	5	41049531	Nonsense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	1	41049531	139865729	82	26984	561	2								
PRR16	51334	broad.mit.edu	37	chr5	120021651	120021651	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ccttgtcctttccactaggtGgttgaccagattgacaccct	8	13	0	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr5:120021651G>A	uc003ksq.2	+	2	325	c.162G>A	c.(160-162)GTG>GTA	p.V54V	PRR16_uc003ksp.2_Silent_p.V31V|PRR16_uc003ksr.2_5'UTR	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16	54	Potential.									pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		TCCACTAGGTGGTTGACCAGA	0.438													11	54	---	---	---	---	PASS	A	120021651	A	A	120021651	2	1	69	1	0	0	0	0	0	0	0	1	12589	1335	47	3		3	PRR16	5	120021651	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	78972120	120021651	60893609	83	26985										
HSPA4	3308	broad.mit.edu	37	chr5	132406080	132406080	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttgcaggtgacatatatggaGgaagagcgaaattttaccac	11	6	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr5:132406080G>A	uc003kyj.2	+	4	602	c.321G>A	c.(319-321)GAG>GAA	p.E107E		NM_002154	NP_002145	P34932	HSP74_HUMAN	heat shock 70kDa protein 4	107					cellular chaperone-mediated protein complex assembly|protein import into mitochondrial outer membrane|response to unfolded protein	cytoplasm|nucleus	ATP binding			lung(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CATATATGGAGGAAGAGCGAA	0.408													25	77	---	---	---	---	PASS	A	132406080	A	A	132406080	2	1	69	1	0	0	0	0	0	0	0	1	7412	991	35	3		3	HSPA4	5	132406080	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	12384429	132406080	48509180	84	26986										
RANBP17	64901	broad.mit.edu	37	chr5	170598227	170598227	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tagtgttacaaaccttaaatActggggaagatatgagcctg	10	6	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr5:170598227A>T	uc003mba.2	+	16	1818	c.1802A>T	c.(1801-1803)TAC>TTC	p.Y601F	RANBP17_uc003max.1_RNA|RANBP17_uc003may.1_RNA|RANBP17_uc003maz.1_RNA|RANBP17_uc010jjr.1_RNA|RANBP17_uc003mbb.2_Intron	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	601					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)			AACCTTAAATACTGGGGAAGA	0.303			T	TRD@	ALL								24	67	---	---	---	---	PASS	T	170598227	T	T	170598227	3	4	69	1	0	0	0	0	1	0	0	0	13027	391	14	5	1864	5	RANBP17	5	170598227	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	38192147	170598227	10317033	85	26987										
DSP	1832	broad.mit.edu	37	chr6	7575021	7575021	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agtggaagcttaccgctgtgGactgaaggtaacttgaaagc	13	7	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:7575021G>A	uc003mxp.1	+	17	2708	c.2429G>A	c.(2428-2430)GGA>GAA	p.G810E	DSP_uc003mxq.1_Missense_Mutation_p.G810E	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	810	Globular 1.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TACCGCTGTGGACTGAAGGTA	0.438													10	71	---	---	---	---	PASS	A	7575021	A	A	7575021	3	1	69	1	0	0	0	0	1	0	0	0	4781	1174	41	2	2495	2	DSP	6	7575021	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08		7575021	163540046	86	26988										
HIST1H2AG	8969	broad.mit.edu	37	chr6	27101012	27101012	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gcgccggtgtatctggcagcGgtgctggagtacctgaccgc	16	12	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:27101012G>A	uc003niw.2	+	1	196	c.162G>A	c.(160-162)GCG>GCA	p.A54A	HIST1H2BJ_uc003niu.1_5'Flank|HIST1H2BJ_uc003niv.2_5'Flank	NM_021064	NP_066408	P0C0S8	H2A1_HUMAN	histone cluster 1, H2ag	54					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding				0						ATCTGGCAGCGGTGCTGGAGT	0.687													10	51	---	---	---	---	PASS	A	27101012	A	A	27101012	2	1	69	1	0	0	0	0	0	0	0	1	7133	1103	39	1		1	HIST1H2AG	6	27101012	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	19525991	27101012	144014055	87	26989										
ZNF323	64288	broad.mit.edu	37	chr6	28294228	28294228	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cctgtgtggattcttctgtgTcgagtgaggccattgctggc	14	9	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:28294228T>A	uc003nla.2	-	4	1336	c.936A>T	c.(934-936)CGA>CGT	p.R312R	ZNF323_uc003nld.2_Silent_p.R312R|ZNF323_uc010jra.2_Silent_p.R312R|ZNF323_uc003nlb.2_Silent_p.R153R|ZNF323_uc010jrb.2_Silent_p.R153R|ZNF323_uc003nlc.2_Silent_p.R312R	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	312	C2H2-type 3.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TTCTTCTGTGTCGAGTGAGGC	0.502													33	164	---	---	---	---	PASS	A	28294228	A	A	28294228	2	1	69	1	0	0	0	0	0	0	0	1	17840	1654	58	5		5	ZNF323	6	28294228	Silent	SNP	T	TCGA-34-5236-01A-21D-1817-08	1193216	28294228	142820839	88	26990										
MSH5	4439	broad.mit.edu	37	chr6	31721345	31721345	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	taaccttgtctgactgtagcTgattctgaaacgcatgaagt	9	8	2	4			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:31721345T>G	uc003nwv.1	+	12	1032	c.953T>G	c.(952-954)CTG>CGG	p.L318R	MSH5_uc003nwt.1_Missense_Mutation_p.L335R|MSH5_uc003nwu.1_Missense_Mutation_p.L318R|MSH5_uc003nww.1_Missense_Mutation_p.L318R|MSH5_uc003nwx.1_Missense_Mutation_p.L335R|MSH5_uc011dof.1_Missense_Mutation_p.L17R|MSH5_uc003nwy.1_5'Flank	NM_172166	NP_751898	O43196	MSH5_HUMAN	mutS homolog 5 isoform c	318					chiasma assembly|homologous chromosome segregation|meiotic prophase II|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			ovary(2)|breast(1)	3						TGACTGTAGCTGATTCTGAAA	0.512								Direct_reversal_of_damage|MMR					9	55	---	---	---	---	PASS	G	31721345	G	G	31721345	3	3	69	1	0	0	0	0	1	0	0	0	9873	1594	55	5	1046	5	MSH5	6	31721345	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	3427117	31721345	139393722	89	26991										
SYNGAP1	8831	broad.mit.edu	37	chr6	33405912	33405912	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gcacgttaccagacaatgagCatcttgcccatggagctata	9	11	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:33405912C>T	uc011dri.1	+	8	1425	c.1230C>T	c.(1228-1230)AGC>AGT	p.S410S	SYNGAP1_uc003oeo.1_Silent_p.S395S|SYNGAP1_uc010juy.2_Silent_p.S395S|SYNGAP1_uc010juz.2_Silent_p.S122S	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	410					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						AGACAATGAGCATCTTGCCCA	0.577													20	169	---	---	---	---	PASS	T	33405912	T	T	33405912	2	4	69	1	0	0	0	0	0	0	0	1	15444	709	25	3		3	SYNGAP1	6	33405912	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	1684567	33405912	137709155	90	26992										
DNAH8	1769	broad.mit.edu	37	chr6	38843455	38843455	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tcataaattatttgtgtttgGcctaatgtggagtttaggag	11	3	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:38843455G>T	uc003ooe.1	+	51	7658	c.7058G>T	c.(7057-7059)GGC>GTC	p.G2353V		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTTGTGTTTGGCCTAATGTGG	0.408													6	83	---	---	---	---	PASS	T	38843455	T	T	38843455	3	4	69	1	0	0	0	0	1	0	0	0	4607	1203	42	3	7252	3	DNAH8	6	38843455	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	5437543	38843455	132271612	91	26993										
DAAM2	23500	broad.mit.edu	37	chr6	39835505	39835505	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acagagaacagcaagaccaaGgtggctgtgctggagatcct	13	9	0	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:39835505G>T	uc003oow.2	+	6	804	c.648G>T	c.(646-648)AAG>AAT	p.K216N	DAAM2_uc010jxc.2_Missense_Mutation_p.K216N|DAAM2_uc003oox.2_Missense_Mutation_p.K216N	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	216	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GCAAGACCAAGGTGGCTGTGC	0.592													8	29	---	---	---	---	PASS	T	39835505	T	T	39835505	3	4	69	1	0	0	0	0	1	0	0	0	4216	991	35	3	666	3	DAAM2	6	39835505	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	992050	39835505	131279562	92	26994										
FAM135A	57579	broad.mit.edu	37	chr6	71185225	71185225	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aatgatgttatgatcttcaaAgtaaaaatgctattggatga	8	3	2	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:71185225A>G	uc003pfj.2	+	4	403	c.270A>G	c.(268-270)AAA>AAG	p.K90K	FAM135A_uc003pfi.2_Silent_p.K90K|FAM135A_uc003pfh.2_Silent_p.K47K|FAM135A_uc003pfk.2_Silent_p.K90K|FAM135A_uc003pfl.2_5'UTR	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	90										central_nervous_system(1)	1						TGATCTTCAAAGTAAAAATGC	0.269													3	29	---	---	---	---	PASS	G	71185225	G	G	71185225	2	3	69	1	0	0	0	0	0	0	0	1	5448	69	3	5		5	FAM135A	6	71185225	Silent	SNP	A	TCGA-34-5236-01A-21D-1817-08	31349720	71185225	99929842	93	26995										
MDN1	23195	broad.mit.edu	37	chr6	90460071	90460071	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tggaatggaatcttaaccctAccttccttaaagacaagctt	6	10	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:90460071A>G	uc003pnn.1	-	24	3522	c.3406_splice	c.e24+1	p.G1136_splice		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog						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)		TCTTAACCCTACCTTCCTTAA	0.403													12	108	---	---	---	---	PASS	G	90460071	G	G	90460071	5	3	69	1	0	0	0	0	0	0	1	0	9415	405	14	5	13698	5	MDN1	6	90460071	Splice_Site	SNP	A	TCGA-34-5236-01A-21D-1817-08	19274846	90460071	80654996	94	26996										
FIG4	9896	broad.mit.edu	37	chr6	110059612	110059612	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aattaaaagtactgtgcatcGtgactggcttttgtatatta	8	5	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:110059612G>A	uc003ptt.2	+	7	946	c.731G>A	c.(730-732)CGT>CAT	p.R244H	FIG4_uc011eau.1_Intron	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	244	SAC.				cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		ACTGTGCATCGTGACTGGCTT	0.333													17	97	---	---	---	---	PASS	A	110059612	A	A	110059612	3	1	69	1	0	0	0	0	1	0	0	0	5888	1145	40	1	757	1	FIG4	6	110059612	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	19599541	110059612	61055455	95	26997										
ROS1	6098	broad.mit.edu	37	chr6	117631403	117631403	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tcactatccgtggactggtaTagtctttcacggaaacaagg	10	9	3	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:117631403T>C	uc003pxp.1	-	40	6474	c.6275A>G	c.(6274-6276)TAT>TGT	p.Y2092C	ROS1_uc011ebi.1_RNA	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	2092	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TGGACTGGTATAGTCTTTCAC	0.378			T	GOPC|ROS1	glioblastoma|NSCLC								22	119	---	---	---	---	PASS	C	117631403	C	C	117631403	3	2	69	1	0	0	0	0	1	0	0	0	13531	1406	49	5	784	5	ROS1	6	117631403	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	7571791	117631403	53483664	96	26998										
TRDN	10345	broad.mit.edu	37	chr6	123539799	123539799	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgcttgaccagagctctctcCagggcggtctgcaggagtga	14	11	2	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:123539799C>T	uc003pzj.1	-	41	2159	c.2137G>A	c.(2137-2139)GGA>AGA	p.G713R	TRDN_uc010kem.1_Missense_Mutation_p.G214R	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	713	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		GAGCTCTCTCCAGGGCGGTCT	0.448													5	36	---	---	---	---	PASS	T	123539799	T	T	123539799	3	4	69	1	0	0	0	0	1	0	0	0	16465	603	21	3	56	3	TRDN	6	123539799	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	5908396	123539799	47575268	97	26999										
L3MBTL3	84456	broad.mit.edu	37	chr6	130381241	130381241	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gcatgaaattagaaggcgtgGatcctgagcatcagtctgtg	13	7	2	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:130381241G>T	uc003qbt.2	+	10	990	c.820G>T	c.(820-822)GAT>TAT	p.D274Y	L3MBTL3_uc003qbu.2_Missense_Mutation_p.D249Y	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	274	MBT 1.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		AGAAGGCGTGGATCCTGAGCA	0.393													6	51	---	---	---	---	PASS	T	130381241	T	T	130381241	3	4	69	1	0	0	0	0	1	0	0	0	8593	1174	41	2	850	2	L3MBTL3	6	130381241	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	6841442	130381241	40733826	98	27000										
C6orf97	80129	broad.mit.edu	37	chr6	151939235	151939235	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cctgcctcaaagatgtgactActgggcaagagaggcaccca	11	12	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:151939235A>G	uc003qol.2	+	11	2190	c.2101A>G	c.(2101-2103)ACT>GCT	p.T701A		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	701											0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		AGATGTGACTACTGGGCAAGA	0.448													9	77	---	---	---	---	PASS	G	151939235	G	G	151939235	3	3	69	1	0	0	0	0	1	0	0	0	2374	391	14	5	2143	5	C6orf97	6	151939235	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	21557994	151939235	19175832	99	27001										
SYNE1	23345	broad.mit.edu	37	chr6	152541993	152541993	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atacgttgcaatcttgaatcCatgtggcaacctcatcatcg	7	11	3	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:152541993C>A	uc010kiw.2	-	119	22447	c.21845G>T	c.(21844-21846)TGG>TTG	p.W7282L	SYNE1_uc010kiv.2_Missense_Mutation_p.W1806L|SYNE1_uc003qos.3_Missense_Mutation_p.W1806L|SYNE1_uc003qot.3_Missense_Mutation_p.W7211L|SYNE1_uc003qou.3_Missense_Mutation_p.W7282L|SYNE1_uc003qor.3_Missense_Mutation_p.W182L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7282	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)		ATCTTGAATCCATGTGGCAAC	0.473										HNSCC(10;0.0054)			19	173	---	---	---	---	PASS	A	152541993	A	A	152541993	3	1	69	1	0	0	0	0	1	0	0	0	15442	595	21	3	4733	3	SYNE1	6	152541993	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	602758	152541993	18573074	100	27002										
C6orf118	168090	broad.mit.edu	37	chr6	165715151	165715151	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gcgagcacttccttctggaaAcgcaggaacatcctgtacct	9	13	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr6:165715151A>G	uc003qum.3	-	2	696	c.660T>C	c.(658-660)CGT>CGC	p.R220R	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	220											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		CCTTCTGGAAACGCAGGAACA	0.617													5	80	---	---	---	---	PASS	G	165715151	G	G	165715151	2	3	69	1	0	0	0	0	0	0	0	1	2323	30	2	5		5	C6orf118	6	165715151	Silent	SNP	A	TCGA-34-5236-01A-21D-1817-08	13173158	165715151	5399916	101	27003										
RABGEF1	27342	broad.mit.edu	37	chr7	66273905	66273905	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gctttcattgagaagctagaCgcccagtctttgaatctaag	9	9	3	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr7:66273905C>T	uc011kee.1	+	9	1316	c.1152C>T	c.(1150-1152)GAC>GAT	p.D384D	RABGEF1_uc003tvf.2_Silent_p.D243D|RABGEF1_uc003tvg.2_Silent_p.D178D|RABGEF1_uc010lag.2_Silent_p.D370D|RABGEF1_uc003tvh.2_Silent_p.D370D|RABGEF1_uc003tvi.2_Silent_p.D204D	NM_014504	NP_055319	Q9UJ41	RABX5_HUMAN	RAB guanine nucleotide exchange factor (GEF) 1	587	VPS9.				endocytosis|protein transport	early endosome|recycling endosome	DNA binding|protein binding|zinc ion binding			ovary(1)	1						AGAAGCTAGACGCCCAGTCTT	0.448													9	70	---	---	---	---	PASS	T	66273905	T	T	66273905	2	4	69	1	0	0	0	0	0	0	0	1	12966	535	19	1		1	RABGEF1	7	66273905	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08		66273905	92864758	102	27004										
WBSCR17	64409	broad.mit.edu	37	chr7	71175784	71175784	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gaaggcttcctgcacttgggTgccctggggaccaccacact	12	14	0	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr7:71175784T>G	uc003tvy.2	+	10	1539	c.1539T>G	c.(1537-1539)GGT>GGG	p.G513G	WBSCR17_uc003tvz.2_Silent_p.G212G	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	513	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TGCACTTGGGTGCCCTGGGGA	0.622													10	115	---	---	---	---	PASS	G	71175784	G	G	71175784	2	3	69	1	0	0	0	0	0	0	0	1	17261	1683	59	5		5	WBSCR17	7	71175784	Silent	SNP	T	TCGA-34-5236-01A-21D-1817-08	4901879	71175784	87962879	103	27005										
ZNF804B	219578	broad.mit.edu	37	chr7	88956697	88956697	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aacgggaatttgctcgaaatGtagcttctaagtcatggaaa	10	6	2	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr7:88956697G>A	uc011khi.1	+	3	827	c.289G>A	c.(289-291)GTA>ATA	p.V97I		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	97						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TGCTCGAAATGTAGCTTCTAA	0.328										HNSCC(36;0.09)			18	73	---	---	---	---	PASS	A	88956697	A	A	88956697	3	1	69	1	0	0	0	0	1	0	0	0	18168	1377	48	3	299	3	ZNF804B	7	88956697	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	17780913	88956697	70181966	104	27006										
ZNF804B	219578	broad.mit.edu	37	chr7	88966152	88966152	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctcacataacacttcagcctCtgccccctacagcatttatt	3	16	3	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr7:88966152C>A	uc011khi.1	+	4	4394	c.3856C>A	c.(3856-3858)CTG>ATG	p.L1286M		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1286						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			ACTTCAGCCTCTGCCCCCTAC	0.463										HNSCC(36;0.09)			12	225	---	---	---	---	PASS	A	88966152	A	A	88966152	3	1	69	1	0	0	0	0	1	0	0	0	18168	912	32	2	3870	2	ZNF804B	7	88966152	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	9455	88966152	70172511	105	27007										
ASNS	440	broad.mit.edu	37	chr7	97488644	97488644	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gctttaaatccaaaacttcaTagtgtccaggaagaaaaggc	8	8	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr7:97488644T>C	uc003uot.3	-	5	1060	c.554A>G	c.(553-555)TAT>TGT	p.Y185C	ASNS_uc011kin.1_Missense_Mutation_p.Y102C|ASNS_uc003uou.3_Missense_Mutation_p.Y185C|ASNS_uc003uov.3_Missense_Mutation_p.Y185C|ASNS_uc011kio.1_Missense_Mutation_p.Y164C|ASNS_uc003uow.3_Missense_Mutation_p.Y164C|ASNS_uc003uox.3_Missense_Mutation_p.Y102C	NM_133436	NP_597680	P08243	ASNS_HUMAN	asparagine synthetase	185	Glutamine amidotransferase type-2.				cellular response to glucose starvation|glutamine metabolic process|negative regulation of apoptosis|positive regulation of mitotic cell cycle	cytosol|soluble fraction	asparagine synthase (glutamine-hydrolyzing) activity|ATP binding			ovary(1)	1	all_cancers(62;6.64e-09)|all_epithelial(64;1.58e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0342)|all_lung(186;0.0369)				Adenosine triphosphate(DB00171)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CAAAACTTCATAGTGTCCAGG	0.403													80	95	---	---	---	---	PASS	C	97488644	C	C	97488644	3	2	69	1	0	0	0	0	1	0	0	0	1048	1406	49	5	1167	5	ASNS	7	97488644	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	8522492	97488644	61650019	106	27008										
ACTL6B	51412	broad.mit.edu	37	chr7	100246221	100246221	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gggatgatgtcaatggccatCtcctggaacagctcccggca	12	12	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr7:100246221C>T	uc003uvy.2	-	7	734	c.627G>A	c.(625-627)GAG>GAA	p.E209E	ACTL6B_uc003uvx.1_5'UTR|ACTL6B_uc003uvz.2_RNA	NM_016188	NP_057272	O94805	ACL6B_HUMAN	actin-like 6B	209					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex|SWI/SNF complex	ATP binding|protein binding|structural constituent of cytoskeleton			ovary(1)	1	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					CAATGGCCATCTCCTGGAACA	0.607													4	24	---	---	---	---	PASS	T	100246221	T	T	100246221	2	4	69	1	0	0	0	0	0	0	0	1	199	912	32	2		2	ACTL6B	7	100246221	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	2757577	100246221	58892442	107	27009										
PPP1R3A	5506	broad.mit.edu	37	chr7	113518037	113518037	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tttcacctgaagtgtatagtGattgcccagagcttactaat	8	8	1	3	rs145569602		TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr7:113518037G>T	uc010ljy.1	-	4	3141	c.3110C>A	c.(3109-3111)TCA>TAA	p.S1037*		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	1037					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						AGTGTATAGTGATTGCCCAGA	0.393													72	160	---	---	---	---	PASS	T	113518037	T	T	113518037	4	4	69	1	0	0	0	0	0	1	0	0	12371	1294	45	2	262	2	PPP1R3A	7	113518037	Nonsense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	13271816	113518037	45620626	108	27010										
TNPO3	23534	broad.mit.edu	37	chr7	128640534	128640534	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agcagctccagagttcgaagGtccccaagaccttggcctgg	12	13	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr7:128640534G>A	uc003vol.1	-	7	1334	c.960C>T	c.(958-960)GAC>GAT	p.D320D	TNPO3_uc003vom.1_Silent_p.D254D|TNPO3_uc010lly.1_Silent_p.D320D|TNPO3_uc010llz.1_Silent_p.D320D	NM_012470	NP_036602	Q9Y5L0	TNPO3_HUMAN	transportin 3	320					splicing factor protein import into nucleus	cytoplasm|nucleus	protein binding|receptor activity			ovary(2)|skin(2)|lung(1)	5						GAGTTCGAAGGTCCCCAAGAC	0.428													58	84	---	---	---	---	PASS	A	128640534	A	A	128640534	2	1	69	1	0	0	0	0	0	0	0	1	16334	1252	44	3		3	TNPO3	7	128640534	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	15122497	128640534	30498129	109	27011										
CHCHD3	54927	broad.mit.edu	37	chr7	132570425	132570425	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ataaaaaatagtcataccctCtcctccagtctagccagctg	5	13	3	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr7:132570425C>A	uc003vre.2	-	5	586	c.450G>T	c.(448-450)GAG>GAT	p.E150D	CHCHD3_uc010lmi.2_RNA|CHCHD3_uc003vrf.2_Missense_Mutation_p.E155D|CHCHD3_uc010lmj.2_Missense_Mutation_p.R13I	NM_017812	NP_060282	Q9NX63	CHCH3_HUMAN	coiled-coil-helix-coiled-coil-helix domain	150					inner mitochondrial membrane organization|mitochondrial fusion	mitochondrial inner membrane	protein complex scaffold				0						GTCATACCCTCTCCTCCAGTC	0.353													41	60	---	---	---	---	PASS	A	132570425	A	A	132570425	3	1	69	1	0	0	0	0	1	0	0	0	3317	912	32	2	249	2	CHCHD3	7	132570425	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	3929891	132570425	26568238	110	27012										
LRGUK	136332	broad.mit.edu	37	chr7	133812132	133812132	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctaaacaagatggcgacctcCgagagggctctcctgaggac	12	12	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr7:133812132C>G	uc003vrm.1	+	1	28	c.12C>G	c.(10-12)TCC>TCG	p.S4S		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	4							ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						TGGCGACCTCCGAGAGGGCTC	0.612													6	120	---	---	---	---	PASS	G	133812132	G	G	133812132	2	3	69	1	0	0	0	0	0	0	0	1	8943	639	23	4		4	LRGUK	7	133812132	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	1241707	133812132	25326531	111	27013										
ZNF746	155061	broad.mit.edu	37	chr7	149171603	149171603	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atcaggaggtgcgggcggcgTcgggagtggctggcctcggg	22	9	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr7:149171603T>C	uc003wfw.2	-	7	2078	c.1807A>G	c.(1807-1809)ACG>GCG	p.T603A	ZNF746_uc010lpi.2_Missense_Mutation_p.T604A	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2	603					negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GCGGGCGGCGTCGGGAGTGGC	0.662													9	8	---	---	---	---	PASS	C	149171603	C	C	149171603	3	2	69	1	0	0	0	0	1	0	0	0	18126	1667	58	5	131	5	ZNF746	7	149171603	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	15359471	149171603	9967060	112	27014										
CHRNB3	1142	broad.mit.edu	37	chr8	42591652	42591652	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acaagactggaaatttgtagCtcaagttcttgaccgaatct	8	8	3	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr8:42591652C>T	uc003xpi.1	+	6	1396	c.1268C>T	c.(1267-1269)GCT>GTT	p.A423V		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	423	Cytoplasmic (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			AAATTTGTAGCTCAAGTTCTT	0.408													32	173	---	---	---	---	PASS	T	42591652	T	T	42591652	3	4	69	1	0	0	0	0	1	0	0	0	3392	797	28	3	1290	3	CHRNB3	8	42591652	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08		42591652	103772370	113	27015										
POTEA	340441	broad.mit.edu	37	chr8	43147635	43147635	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctgttgaaagcagatggtggCtgaggtttctccaaagctgg	14	7	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr8:43147635C>T	uc003xpz.1	+	1	51	c.8C>T	c.(7-9)GCT>GTT	p.A3V	POTEA_uc003xqa.1_Missense_Mutation_p.A3V	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	3										ovary(1)	1						CAGATGGTGGCTGAGGTTTCT	0.537													11	42	---	---	---	---	PASS	T	43147635	T	T	43147635	3	4	69	1	0	0	0	0	1	0	0	0	12261	797	28	3	10	3	POTEA	8	43147635	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	555983	43147635	103216387	114	27016										
RP1	6101	broad.mit.edu	37	chr8	55542671	55542671	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acttattaaataacagattcCagggctcaagaacaaatctc	5	9	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr8:55542671C>T	uc003xsd.1	+	4	6377	c.6229C>T	c.(6229-6231)CAG>TAG	p.Q2077*	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	2077					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TAACAGATTCCAGGGCTCAAG	0.363													3	40	---	---	---	---	PASS	T	55542671	T	T	55542671	4	4	69	1	0	0	0	0	0	1	0	0	13532	595	21	3	6239	3	RP1	8	55542671	Nonsense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	12395036	55542671	90821351	115	27017										
ZFHX4	79776	broad.mit.edu	37	chr8	77618877	77618877	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgatcaatccattccagctgGatccagcgacagcagcggct	10	13	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr8:77618877G>T	uc003yav.2	+	2	2941	c.2554G>T	c.(2554-2556)GAT>TAT	p.D852Y	ZFHX4_uc003yat.1_Missense_Mutation_p.D852Y|ZFHX4_uc003yau.1_Missense_Mutation_p.D852Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.D852Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	852						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATTCCAGCTGGATCCAGCGAC	0.493										HNSCC(33;0.089)			16	10	---	---	---	---	PASS	T	77618877	T	T	77618877	3	4	69	1	0	0	0	0	1	0	0	0	17632	1174	41	2	2556	2	ZFHX4	8	77618877	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	22076206	77618877	68745145	116	27018										
KIAA1429	25962	broad.mit.edu	37	chr8	95507087	95507087	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atatttagtaataatttataCcaaatccagatctgtatcta	3	6	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr8:95507087C>G	uc003ygo.1	-	20	4654	c.4641_splice	c.e20+1	p.L1547_splice	KIAA1429_uc010maz.1_Splice_Site	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1						mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			ATAATTTATACCAAATCCAGA	0.308													28	156	---	---	---	---	PASS	G	95507087	G	G	95507087	5	3	69	1	0	0	0	0	0	0	1	0	8231	521	18	4	816	4	KIAA1429	8	95507087	Splice_Site	SNP	C	TCGA-34-5236-01A-21D-1817-08	17888210	95507087	50856935	117	27019										
CSMD3	114788	broad.mit.edu	37	chr8	113317078	113317078	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tggttttgtattcataatggGagccattcacaattcgccat	8	8	2	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr8:113317078G>T	uc003ynu.2	-	52	8297	c.8138C>A	c.(8137-8139)TCC>TAC	p.S2713Y	CSMD3_uc003yns.2_Missense_Mutation_p.S1915Y|CSMD3_uc003ynt.2_Missense_Mutation_p.S2673Y|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2713	Extracellular (Potential).|Sushi 16.					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						TTCATAATGGGAGCCATTCAC	0.403										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			4	35	---	---	---	---	PASS	T	113317078	T	T	113317078	3	4	69	1	0	0	0	0	1	0	0	0	3946	1174	41	2	3065	2	CSMD3	8	113317078	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	17809991	113317078	33046944	118	27020										
DMRT3	58524	broad.mit.edu	37	chr9	990301	990301	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttgagggcccctcggggactGtttctctgcccttcagcttg	12	13	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr9:990301G>T	uc003zgw.1	+	2	753	c.715G>T	c.(715-717)GTT>TTT	p.V239F		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	239					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		CTCGGGGACTGTTTCTCTGCC	0.562													9	88	---	---	---	---	PASS	T	990301	T	T	990301	3	4	69	1	0	0	0	0	1	0	0	0	4587	1377	48	3	721	3	DMRT3	9	990301	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08		990301	140223130	119	27021										
BNC2	54796	broad.mit.edu	37	chr9	16583008	16583008	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cacccagccatgtttacactGatcacaagtcctcaggttaa	6	13	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr9:16583008G>A	uc003zml.2	-	4	546	c.406C>T	c.(406-408)CAG>TAG	p.Q136*	BNC2_uc011lmw.1_Nonsense_Mutation_p.Q41*|BNC2_uc003zmm.2_Nonsense_Mutation_p.Q94*|BNC2_uc003zmq.1_Nonsense_Mutation_p.Q150*|BNC2_uc003zmr.1_Nonsense_Mutation_p.Q173*|BNC2_uc003zmp.1_Nonsense_Mutation_p.Q164*|BNC2_uc010mij.1_Nonsense_Mutation_p.Q58*|BNC2_uc003zmu.1_RNA|BNC2_uc010mim.1_RNA|BNC2_uc010min.1_RNA|BNC2_uc003zmo.1_Nonsense_Mutation_p.Q58*|BNC2_uc003zms.1_RNA|BNC2_uc010mik.1_RNA|BNC2_uc010mil.1_RNA|BNC2_uc003zmt.1_RNA	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	136					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		TGTTTACACTGATCACAAGTC	0.378													15	195	---	---	---	---	PASS	A	16583008	A	A	16583008	4	1	69	1	0	0	0	0	0	1	0	0	1475	1299	45	2	2909	2	BNC2	9	16583008	Nonsense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	15592707	16583008	124630423	120	27022										
KLHL9	55958	broad.mit.edu	37	chr9	21333559	21333559	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agcatgaccatagtggggttCactcatttttgcaacatagc	9	9	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr9:21333559C>T	uc003zoy.2	-	1	1871	c.1300G>A	c.(1300-1302)GAA>AAA	p.E434K	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	434	Kelch 3.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		TAGTGGGGTTCACTCATTTTT	0.433													12	127	---	---	---	---	PASS	T	21333559	T	T	21333559	3	4	69	1	0	0	0	0	1	0	0	0	8396	835	29	2	557	2	KLHL9	9	21333559	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	4750551	21333559	119879872	121	27023										
VPS13A	23230	broad.mit.edu	37	chr9	79842344	79842344	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acacctgaagaaaaagctttActctatgaagcaattggcta	7	8	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr9:79842344A>T	uc004akr.2	+	16	1655	c.1395A>T	c.(1393-1395)TTA>TTT	p.L465F	VPS13A_uc004akp.3_Missense_Mutation_p.L465F|VPS13A_uc004akq.3_Missense_Mutation_p.L465F|VPS13A_uc004aks.2_Missense_Mutation_p.L465F	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	465					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						AAAAAGCTTTACTCTATGAAG	0.284													4	38	---	---	---	---	PASS	T	79842344	T	T	79842344	3	4	69	1	0	0	0	0	1	0	0	0	17186	388	14	5	1457	5	VPS13A	9	79842344	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	58508785	79842344	61371087	122	27024										
C9orf153	389766	broad.mit.edu	37	chr9	88842793	88842793	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ataacaggttggagatctccTctcacatcagcgcccctggt	9	13	3	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr9:88842793T>G	uc004aoo.2	-	3	300	c.219A>C	c.(217-219)AGA>AGC	p.R73S	GOLM1_uc010mqd.1_Intron|C9orf153_uc004aon.2_Missense_Mutation_p.R73S	NM_001010907	NP_001010907	Q5TBE3	CI153_HUMAN	hypothetical protein LOC389766	73											0						GGAGATCTCCTCTCACATCAG	0.448													6	78	---	---	---	---	PASS	G	88842793	G	G	88842793	3	3	69	1	0	0	0	0	1	0	0	0	2464	1548	54	5	94	5	C9orf153	9	88842793	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	9000449	88842793	52370638	123	27025										
ABCA1	19	broad.mit.edu	37	chr9	107599762	107599762	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aggtgtatacaggatcttccCaacgagcagcggcttcagag	12	10	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr9:107599762C>A	uc004bcl.2	-	10	1454	c.1141G>T	c.(1141-1143)GGG>TGG	p.G381W		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	381	Extracellular.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AGGATCTTCCCAACGAGCAGC	0.517													18	44	---	---	---	---	PASS	A	107599762	A	A	107599762	3	1	69	1	0	0	0	0	1	0	0	0	28	594	21	3	5808	3	ABCA1	9	107599762	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	18756969	107599762	33613669	124	27026										
OR1J1	347168	broad.mit.edu	37	chr9	125239760	125239760	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cacacgcacaagcgatgaccCaggacccagccaccagcatg	9	17	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr9:125239760C>G	uc011lyu.1	-	1	446	c.446G>C	c.(445-447)TGG>TCG	p.W149S	OR1J2_uc004bmj.1_Intron	NM_001004451	NP_001004451	Q8NGS3	OR1J1_HUMAN	olfactory receptor, family 1, subfamily J,	149	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						AGCGATGACCCAGGACCCAGC	0.522													6	33	---	---	---	---	PASS	G	125239760	G	G	125239760	3	3	69	1	0	0	0	0	1	0	0	0	10959	595	21	4	525	4	OR1J1	9	125239760	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	17639998	125239760	15973671	125	27027										
NRARP	441478	broad.mit.edu	37	chr9	140196057	140196057	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	caccggccgctggccgcgtaCttcgccttggtgatgagata	13	13	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr9:140196057C>T	uc004cmo.2	-	1	647	c.324G>A	c.(322-324)AAG>AAA	p.K108K	C9orf167_uc011mew.1_Intron	NM_001004354	NP_001004354	Q7Z6K4	NRARP_HUMAN	NOTCH-regulated ankyrin repeat protein	108	ANK 2.				negative regulation of Notch signaling pathway|positive regulation of canonical Wnt receptor signaling pathway						0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.185)	OV - Ovarian serous cystadenocarcinoma(145;9.07e-05)|Epithelial(140;0.000273)		TGGCCGCGTACTTCGCCTTGG	0.711													4	15	---	---	---	---	PASS	T	140196057	T	T	140196057	2	4	69	1	0	0	0	0	0	0	0	1	10639	564	20	3		3	NRARP	9	140196057	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	14956297	140196057	1017374	126	27028										
MYO3A	53904	broad.mit.edu	37	chr10	26409611	26409611	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gtggtgtgtttcagcaacttGgtagtatatacagcatactc	10	7	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr10:26409611G>T	uc001isn.2	+	18	2143	c.1783G>T	c.(1783-1785)GGT>TGT	p.G595C	MYO3A_uc009xko.1_Missense_Mutation_p.G595C|MYO3A_uc009xkp.1_Intron|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	595	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						TCAGCAACTTGGTAGTATATA	0.438													10	64	---	---	---	---	PASS	T	26409611	T	T	26409611	3	4	69	1	0	0	0	0	1	0	0	0	10076	1348	47	3	1845	3	MYO3A	10	26409611	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08		26409611	109125136	127	27029										
SVIL	6840	broad.mit.edu	37	chr10	29815957	29815957	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cgccattacagggtgggtgcCcccagaacacgaagcgggga	15	12	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr10:29815957C>A	uc001iut.1	-	13	3028	c.2275G>T	c.(2275-2277)GGC>TGC	p.G759C	SVIL_uc001iuu.1_Intron	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	759					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				GGGTGGGTGCCCCCAGAACAC	0.517													4	26	---	---	---	---	PASS	A	29815957	A	A	29815957	3	1	69	1	0	0	0	0	1	0	0	0	15418	623	22	3	4473	3	SVIL	10	29815957	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	3406346	29815957	105718790	128	27030										
SEC31B	25956	broad.mit.edu	37	chr10	102257543	102257543	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aattcttttgcacaacacagGctagaagctgtaatgggcag	10	8	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr10:102257543G>T	uc001krc.1	-	16	1973	c.1871C>A	c.(1870-1872)GCC>GAC	p.A624D	SEC31B_uc010qpo.1_Missense_Mutation_p.A623D|SEC31B_uc001krd.1_Missense_Mutation_p.A161D|SEC31B_uc001krf.1_Missense_Mutation_p.A161D|SEC31B_uc001kre.1_Missense_Mutation_p.A161D|SEC31B_uc001krg.1_Missense_Mutation_p.A193D	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B	624					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		CACAACACAGGCTAGAAGCTG	0.512													4	88	---	---	---	---	PASS	T	102257543	T	T	102257543	3	4	69	1	0	0	0	0	1	0	0	0	13999	1203	42	3	1712	3	SEC31B	10	102257543	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	72441586	102257543	33277204	129	27031										
PDCD11	22984	broad.mit.edu	37	chr10	105185125	105185125	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tcaagtccattaagcctaccCatgtggttgtgactctggaa	9	10	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr10:105185125C>T	uc001kwy.1	+	20	3235	c.3148C>T	c.(3148-3150)CAT>TAT	p.H1050Y		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1050	S1 motif 9.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		TAAGCCTACCCATGTGGTTGT	0.502													26	70	---	---	---	---	PASS	T	105185125	T	T	105185125	3	4	69	1	0	0	0	0	1	0	0	0	11617	594	21	3	3222	3	PDCD11	10	105185125	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	2927582	105185125	30349622	130	27032										
INPP5A	3632	broad.mit.edu	37	chr10	134563340	134563340	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gaggttttccgagacaacaaCggcaccgcggtgagtttgtg	14	9	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr10:134563340C>A	uc001llp.2	+	11	1142	c.894C>A	c.(892-894)AAC>AAA	p.N298K	INPP5A_uc001llo.1_Missense_Mutation_p.N298K|INPP5A_uc001llq.2_Intron	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	298					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		GAGACAACAACGGCACCGCGG	0.562													15	62	---	---	---	---	PASS	A	134563340	A	A	134563340	3	1	69	1	0	0	0	0	1	0	0	0	7754	535	19	1	936	1	INPP5A	10	134563340	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	29378215	134563340	971407	131	27033										
CTSD	1509	broad.mit.edu	37	chr11	1775093	1775093	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cctcccagcttcagtgtgatCgcgggcagggtggacacctt	13	13	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:1775093C>A	uc001luc.1	-	8	1144	c.1011G>T	c.(1009-1011)GCG>GCT	p.A337A	CTSD_uc009yda.1_RNA	NM_001909	NP_001900	P07339	CATD_HUMAN	cathepsin D preproprotein	337					cell death|proteolysis	extracellular space|lysosome|melanosome	aspartic-type endopeptidase activity				0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TCAGTGTGATCGCGGGCAGGG	0.612													6	68	---	---	---	---	PASS	A	1775093	A	A	1775093	2	1	69	1	0	0	0	0	0	0	0	1	4032	871	31	2		2	CTSD	11	1775093	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08		1775093	133231423	132	27034										
OR56B4	196335	broad.mit.edu	37	chr11	6129835	6129835	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agagaaaaagattccccttaTtcctgtgttccttaatgtgc	7	9	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:6129835T>A	uc010qzx.1	+	1	827	c.827T>A	c.(826-828)ATT>AAT	p.I276N		NM_001005181	NP_001005181	Q8NH76	O56B4_HUMAN	olfactory receptor, family 56, subfamily B,	276	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.31e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATTCCCCTTATTCCTGTGTTC	0.512													17	103	---	---	---	---	PASS	A	6129835	A	A	6129835	3	1	69	1	0	0	0	0	1	0	0	0	11138	1493	52	5	829	5	OR56B4	11	6129835	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	4354742	6129835	128876681	133	27035										
NLRP14	338323	broad.mit.edu	37	chr11	7064865	7064865	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgctttttgtttggccttttGaatgaagatcgagtaaaaca	9	5	0	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:7064865G>A	uc001mfb.1	+	4	1931	c.1608G>A	c.(1606-1608)TTG>TTA	p.L536L		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	536					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		TTGGCCTTTTGAATGAAGATC	0.358													10	62	---	---	---	---	PASS	A	7064865	A	A	7064865	2	1	69	1	0	0	0	0	0	0	0	1	10476	1281	45	2		2	NLRP14	11	7064865	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	935030	7064865	127941651	134	27036										
LRRC4C	57689	broad.mit.edu	37	chr11	40136672	40136672	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cccatgtgtcatgactgttcCatttggagtaatccaagata	8	9	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:40136672C>T	uc001mxa.1	-	2	3135	c.1171G>A	c.(1171-1173)GGA>AGA	p.G391R	LRRC4C_uc001mxc.1_Missense_Mutation_p.G387R|LRRC4C_uc001mxd.1_Missense_Mutation_p.G387R|LRRC4C_uc001mxb.1_Missense_Mutation_p.G387R	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	391	Ig-like C2-type.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				ATGACTGTTCCATTTGGAGTA	0.488													15	106	---	---	---	---	PASS	T	40136672	T	T	40136672	3	4	69	1	0	0	0	0	1	0	0	0	9008	603	21	3	755	3	LRRC4C	11	40136672	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	33071807	40136672	94869844	135	27037										
OR5I1	10798	broad.mit.edu	37	chr11	55703454	55703454	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acaatcaaccgcatacagatGcccctagacatcacaactgt	5	14	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:55703454G>T	uc010ris.1	-	1	423	c.423C>A	c.(421-423)GGC>GGA	p.G141G		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	141	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GCATACAGATGCCCCTAGACA	0.443													11	84	---	---	---	---	PASS	T	55703454	T	T	55703454	2	4	69	1	0	0	0	0	0	0	0	1	11164	1306	46	3		3	OR5I1	11	55703454	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	15566782	55703454	79303062	136	27038										
OR5M8	219484	broad.mit.edu	37	chr11	56258068	56258068	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cagattcctttgaggggggtCtgagatacatgaagaaaagg	14	5	1	5			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:56258068C>T	uc001nix.1	-	1	779	c.779G>A	c.(778-780)AGA>AAA	p.R260K		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	260	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					TGAGGGGGGTCTGAGATACAT	0.408													5	60	---	---	---	---	PASS	T	56258068	T	T	56258068	3	4	69	1	0	0	0	0	1	0	0	0	11176	913	32	2	160	2	OR5M8	11	56258068	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	554614	56258068	78748448	137	27039										
LRRC55	219527	broad.mit.edu	37	chr11	56949949	56949949	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agccacaacccctggctgcgGagggtgcatccccaggcctt	12	16	0	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:56949949G>A	uc001njl.1	+	1	729	c.582G>A	c.(580-582)CGG>CGA	p.R194R		NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	164	LRR 4.					integral to membrane					0						CCTGGCTGCGGAGGGTGCATC	0.622													4	39	---	---	---	---	PASS	A	56949949	A	A	56949949	2	1	69	1	0	0	0	0	0	0	0	1	9011	1161	41	2		2	LRRC55	11	56949949	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	691881	56949949	78056567	138	27040										
TNKS1BP1	85456	broad.mit.edu	37	chr11	57076303	57076303	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gactctccaggactgcagacTgcccctggggccatgtttct	11	14	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:57076303T>A	uc001njr.2	-	5	4194	c.3882A>T	c.(3880-3882)GCA>GCT	p.A1294A	TNKS1BP1_uc001njs.2_Silent_p.A1294A|TNKS1BP1_uc009ymd.1_Silent_p.A745A	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	1294	Gly-rich.|Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GACTGCAGACTGCCCCTGGGG	0.587													16	118	---	---	---	---	PASS	A	57076303	A	A	57076303	2	1	69	1	0	0	0	0	0	0	0	1	16317	1567	55	5		5	TNKS1BP1	11	57076303	Silent	SNP	T	TCGA-34-5236-01A-21D-1817-08	126354	57076303	77930213	139	27041										
DAGLA	747	broad.mit.edu	37	chr11	61498817	61498817	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gctccgctacaaagaggtctGctactacatgctctttgccc	8	14	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:61498817G>A	uc001nsa.2	+	9	989	c.878G>A	c.(877-879)TGC>TAC	p.C293Y		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	293	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		AAAGAGGTCTGCTACTACATG	0.627													4	74	---	---	---	---	PASS	A	61498817	A	A	61498817	3	1	69	1	0	0	0	0	1	0	0	0	4226	1319	46	3	908	3	DAGLA	11	61498817	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	4422514	61498817	73507699	140	27042										
P2RY2	5029	broad.mit.edu	37	chr11	72945945	72945945	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cgcaagtccgtgcgcaccatCgccgtggtgctggctgtctt	13	14	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:72945945C>T	uc001otj.2	+	3	1074	c.741C>T	c.(739-741)ATC>ATT	p.I247I	P2RY2_uc001otk.2_Silent_p.I247I|P2RY2_uc001otl.2_Silent_p.I247I	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	247	Helical; Name=6; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(1)|skin(1)	4					Suramin(DB04786)	TGCGCACCATCGCCGTGGTGC	0.647													7	79	---	---	---	---	PASS	T	72945945	T	T	72945945	2	4	69	1	0	0	0	0	0	0	0	1	11352	874	31	2		2	P2RY2	11	72945945	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	11447128	72945945	62060571	141	27043										
FAT3	120114	broad.mit.edu	37	chr11	92577249	92577249	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cctggtggggtcattgggaaGattcatgccacagatcaaga	13	8	3	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:92577249G>C	uc001pdj.3	+	18	10733	c.10716G>C	c.(10714-10716)AAG>AAC	p.K3572N	FAT3_uc001pdi.3_Missense_Mutation_p.K12N	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3572	Cadherin 33.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCATTGGGAAGATTCATGCCA	0.458										TCGA Ovarian(4;0.039)			20	300	---	---	---	---	PASS	C	92577249	C	C	92577249	3	2	69	1	0	0	0	0	1	0	0	0	5691	933	33	2	10786	2	FAT3	11	92577249	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	19631304	92577249	42429267	142	27044										
SLC36A4	120103	broad.mit.edu	37	chr11	92895910	92895910	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tttaaagttatgctgcctttGatttcatcatggaaacacat	6	7	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:92895910G>A	uc001pdn.2	-	9	1096	c.999C>T	c.(997-999)ATC>ATT	p.I333I	SLC36A4_uc001pdm.2_Silent_p.I198I	NM_152313	NP_689526	Q6YBV0	S36A4_HUMAN	solute carrier family 36 (proton/amino acid	333					L-alanine transport|proline transport|tryptophan transport	integral to membrane	symporter activity	p.I333M(1)		ovary(2)|upper_aerodigestive_tract(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				TGCTGCCTTTGATTTCATCAT	0.328													4	91	---	---	---	---	PASS	A	92895910	A	A	92895910	2	1	69	1	0	0	0	0	0	0	0	1	14596	1280	45	2		2	SLC36A4	11	92895910	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	318661	92895910	42110606	143	27045										
SLC36A4	120103	broad.mit.edu	37	chr11	92901139	92901139	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atactggtaaattatcacaaGactgacagccatggaaacgt	8	8	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:92901139G>A	uc001pdn.2	-	7	836	c.739C>T	c.(739-741)CTT>TTT	p.L247F	SLC36A4_uc001pdm.2_Missense_Mutation_p.L112F	NM_152313	NP_689526	Q6YBV0	S36A4_HUMAN	solute carrier family 36 (proton/amino acid	247	Helical; (Potential).				L-alanine transport|proline transport|tryptophan transport	integral to membrane	symporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				ATTATCACAAGACTGACAGCC	0.289													9	112	---	---	---	---	PASS	A	92901139	A	A	92901139	3	1	69	1	0	0	0	0	1	0	0	0	14596	942	33	2	795	2	SLC36A4	11	92901139	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	5229	92901139	42105377	144	27046										
C11orf54	28970	broad.mit.edu	37	chr11	93483519	93483519	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttgtctttattagttatgcaGaaggggttaaaagataactt	9	3	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:93483519G>A	uc009ywi.2	+	4	394	c.63G>A	c.(61-63)CAG>CAA	p.Q21Q	C11orf54_uc001pee.1_Silent_p.Q21Q|C11orf54_uc001pef.2_Silent_p.Q21Q|C11orf54_uc001peg.2_Silent_p.Q21Q|C11orf54_uc001peh.2_Silent_p.Q21Q|C11orf54_uc001pei.2_Silent_p.Q2Q|C11orf54_uc001pej.2_Silent_p.Q2Q	NM_014039	NP_054758	Q9H0W9	CK054_HUMAN	hypothetical protein LOC28970	21						nucleus	hydrolase activity, acting on ester bonds|protein binding|zinc ion binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				TAGTTATGCAGAAGGGGTTAA	0.378													6	135	---	---	---	---	PASS	A	93483519	A	A	93483519	2	1	69	1	0	0	0	0	0	0	0	1	1649	933	33	2		2	C11orf54	11	93483519	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	582380	93483519	41522997	145	27047										
C11orf54	28970	broad.mit.edu	37	chr11	93486866	93486866	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aggcatctgtgggaaaactaGaattgcagaagttggaggtg	15	4	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:93486866G>T	uc009ywi.2	+	5	504	c.173G>T	c.(172-174)AGA>ATA	p.R58I	C11orf54_uc001pee.1_Missense_Mutation_p.R58I|C11orf54_uc001pef.2_Missense_Mutation_p.R58I|C11orf54_uc001peg.2_Missense_Mutation_p.R58I|C11orf54_uc001peh.2_Missense_Mutation_p.R58I|C11orf54_uc001pei.2_Missense_Mutation_p.R39I|C11orf54_uc001pej.2_Missense_Mutation_p.R39I|C11orf54_uc001pek.2_5'UTR	NM_014039	NP_054758	Q9H0W9	CK054_HUMAN	hypothetical protein LOC28970	58						nucleus	hydrolase activity, acting on ester bonds|protein binding|zinc ion binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				GGGAAAACTAGAATTGCAGAA	0.328													5	85	---	---	---	---	PASS	T	93486866	T	T	93486866	3	4	69	1	0	0	0	0	1	0	0	0	1649	942	33	2	183	2	C11orf54	11	93486866	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	3347	93486866	41519650	146	27048										
C11orf54	28970	broad.mit.edu	37	chr11	93487108	93487108	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttcctcttctataggtttatGatctgaataaaattgcaaaa	5	6	3	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:93487108G>A	uc009ywi.2	+	6	566	c.235G>A	c.(235-237)GAT>AAT	p.D79N	C11orf54_uc001pee.1_Missense_Mutation_p.D79N|C11orf54_uc001pef.2_Missense_Mutation_p.D79N|C11orf54_uc001peg.2_Missense_Mutation_p.D79N|C11orf54_uc001peh.2_Missense_Mutation_p.D79N|C11orf54_uc001pei.2_Missense_Mutation_p.D60N|C11orf54_uc001pej.2_Missense_Mutation_p.D60N|C11orf54_uc001pek.2_5'UTR	NM_014039	NP_054758	Q9H0W9	CK054_HUMAN	hypothetical protein LOC28970	79						nucleus	hydrolase activity, acting on ester bonds|protein binding|zinc ion binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				ATAGGTTTATGATCTGAATAA	0.388													16	256	---	---	---	---	PASS	A	93487108	A	A	93487108	3	1	69	1	0	0	0	0	1	0	0	0	1649	1290	45	2	249	2	C11orf54	11	93487108	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	242	93487108	41519408	147	27049										
PANX1	24145	broad.mit.edu	37	chr11	93862630	93862630	+	Missense_Mutation	SNP	C	G	G													0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gctgcccctgctgctcatctCgctggccttcgcgcaggaga							TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:93862630C>G	uc001per.2	+	1	537	c.152C>G	c.(151-153)TCG>TGG	p.S51W	uc001pen.1_5'Flank|PANX1_uc001peq.2_Missense_Mutation_p.S51W	NM_015368	NP_056183	Q96RD7	PANX1_HUMAN	pannexin 1	51	Helical; (Potential).				positive regulation of interleukin-1 beta secretion|protein hexamerization|synaptic transmission	bleb|endoplasmic reticulum membrane|gap junction|integral to membrane	calcium channel activity|gap junction hemi-channel activity|leak channel activity|receptor binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CTGCTCATCTCGCTGGCCTTC	0.652													8	86	---	---	---	---	PASS	G	93862630	G	G	93862630	3	3	69	1	0	0	0	0	1	0	0	0	11420	893	31	2	154	2	PANX1	11	93862630	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	375522	93862630	41143886	148	27050	562	2								
PANX1	24145	broad.mit.edu	37	chr11	93862640	93862640	+	Missense_Mutation	SNP	C	A	A													0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctgctcatctcgctggccttCgcgcaggagatctcgattgg							TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:93862640C>A	uc001per.2	+	1	547	c.162C>A	c.(160-162)TTC>TTA	p.F54L	uc001pen.1_5'Flank|PANX1_uc001peq.2_Missense_Mutation_p.F54L	NM_015368	NP_056183	Q96RD7	PANX1_HUMAN	pannexin 1	54	Helical; (Potential).				positive regulation of interleukin-1 beta secretion|protein hexamerization|synaptic transmission	bleb|endoplasmic reticulum membrane|gap junction|integral to membrane	calcium channel activity|gap junction hemi-channel activity|leak channel activity|receptor binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CGCTGGCCTTCGCGCAGGAGA	0.662													8	78	---	---	---	---	PASS	A	93862640	A	A	93862640	3	1	69	1	0	0	0	0	1	0	0	0	11420	883	31	2	164	2	PANX1	11	93862640	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	10	93862640	41143876	149	27051	562	2								
CASP4	837	broad.mit.edu	37	chr11	104825679	104825679	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aaaacaccagtgaggaaatcTttgcccagggattccaacac	8	11	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:104825679T>A	uc001pid.1	-	2	130	c.57A>T	c.(55-57)AAA>AAT	p.K19N	CASP4_uc001pib.1_Translation_Start_Site|CASP4_uc009yxg.1_Translation_Start_Site|CASP4_uc010rux.1_Missense_Mutation_p.K19N|CASP4_uc010ruy.1_Missense_Mutation_p.K19N	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor	19	CARD.				apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		TGAGGAAATCTTTGCCCAGGG	0.378													11	66	---	---	---	---	PASS	A	104825679	A	A	104825679	3	1	69	1	0	0	0	0	1	0	0	0	2673	1606	56	5	1104	5	CASP4	11	104825679	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	10963039	104825679	30180837	150	27052										
DIXDC1	85458	broad.mit.edu	37	chr11	111866262	111866262	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tggagcgcctgcatgttatgGagacgcagaagaaacaagaa	13	7	0	4			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:111866262G>T	uc001pml.2	+	17	1960	c.1663G>T	c.(1663-1665)GAG>TAG	p.E555*	DIXDC1_uc001pmm.2_Nonsense_Mutation_p.E344*|DIXDC1_uc001pmn.2_Nonsense_Mutation_p.E261*|DIXDC1_uc010rwq.1_Nonsense_Mutation_p.E220*	NM_001037954	NP_001033043	Q155Q3	DIXC1_HUMAN	DIX domain containing 1 isoform a	555					multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytosol|focal adhesion	actin binding|gamma-tubulin binding|signal transducer activity			ovary(1)	1		all_cancers(61;7.58e-15)|all_epithelial(67;5.42e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;2.99e-07)|BRCA - Breast invasive adenocarcinoma(274;6.72e-07)|all cancers(92;6.25e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0548)		GCATGTTATGGAGACGCAGAA	0.483													10	82	---	---	---	---	PASS	T	111866262	T	T	111866262	4	4	69	1	0	0	0	0	0	1	0	0	4541	1175	41	2	1751	2	DIXDC1	11	111866262	Nonsense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	7040583	111866262	23140254	151	27053										
TMPRSS13	84000	broad.mit.edu	37	chr11	117787940	117787940	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aggagcacgcacccgatgagCggtagctgcttctggccctc	13	14	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr11:117787940C>A	uc001prs.1	-	3	594	c.501G>T	c.(499-501)CCG>CCT	p.P167P	TMPRSS13_uc009yzr.1_Intron|TMPRSS13_uc001prt.1_5'UTR|TMPRSS13_uc001pru.1_Silent_p.P167P	NM_001077263	NP_001070731	Q9BYE2	TMPSD_HUMAN	transmembrane protease, serine 13	162	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			pancreas(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.00106)		ACCCGATGAGCGGTAGCTGCT	0.627													4	29	---	---	---	---	PASS	A	117787940	A	A	117787940	2	1	69	1	0	0	0	0	0	0	0	1	16242	755	27	1		1	TMPRSS13	11	117787940	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	5921678	117787940	17218576	152	27054										
KDM5A	5927	broad.mit.edu	37	chr12	401958	401958	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ggcctttggcagttctgtgcTgcgcacacagcattctcatc	10	13	2	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:401958T>G	uc001qif.1	-	27	5196	c.4833A>C	c.(4831-4833)GCA>GCC	p.A1611A	KDM5A_uc001qie.1_Silent_p.A1616A	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	1611	PHD-type 3.				chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						AGTTCTGTGCTGCGCACACAG	0.478			T 	NUP98	AML								46	105	---	---	---	---	PASS	G	401958	G	G	401958	2	3	69	1	0	0	0	0	0	0	0	1	8133	1567	55	5		5	KDM5A	12	401958	Silent	SNP	T	TCGA-34-5236-01A-21D-1817-08		401958	133449937	153	27055										
APOBEC1	339	broad.mit.edu	37	chr12	7805307	7805307	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttccacgtgattggtggtgtTtttgcctgagcttcgccaga	12	9	0	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:7805307T>C	uc001qtb.2	-	3	203	c.169A>G	c.(169-171)AAC>GAC	p.N57D	APOBEC1_uc001qtc.2_Missense_Mutation_p.N12D|APOBEC1_uc010sgf.1_Missense_Mutation_p.N57D	NM_001644	NP_001635	P41238	ABEC1_HUMAN	apolipoprotein B mRNA editing enzyme	57					cytidine to uridine editing|DNA demethylation|lipid metabolic process|mRNA modification|mRNA processing|negative regulation of methylation-dependent chromatin silencing	nucleoplasm	cytidine deaminase activity|RNA binding|zinc ion binding				0						TTGGTGGTGTTTTTGCCTGAG	0.458													6	42	---	---	---	---	PASS	C	7805307	C	C	7805307	3	2	69	1	0	0	0	0	1	0	0	0	787	1841	64	5	553	5	APOBEC1	12	7805307	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	7403349	7805307	126046588	154	27056										
RIMKLB	57494	broad.mit.edu	37	chr12	8926044	8926044	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gatgacggctccttctgcgtCtgtgaggccaatgcaaatgt	12	10	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:8926044C>G	uc001quu.2	+	6	1076	c.825C>G	c.(823-825)GTC>GTG	p.V275V	RIMKLB_uc009zgf.1_RNA|RIMKLB_uc001qux.2_Silent_p.V275V|RIMKLB_uc010sgl.1_Silent_p.V275V|RIMKLB_uc001quw.2_Silent_p.V275V	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	275	ATP-grasp.				protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						CCTTCTGCGTCTGTGAGGCCA	0.483													40	125	---	---	---	---	PASS	G	8926044	G	G	8926044	2	3	69	1	0	0	0	0	0	0	0	1	13366	900	32	2		2	RIMKLB	12	8926044	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	1120737	8926044	124925851	155	27057										
A2ML1	144568	broad.mit.edu	37	chr12	8998722	8998722	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	accttcacttcgagactggcCcctgatccttccctggtgat	8	15	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:8998722C>T	uc001quz.3	+	14	1685	c.1587C>T	c.(1585-1587)GCC>GCT	p.A529A	A2ML1_uc001qva.1_Silent_p.A109A|A2ML1_uc010sgm.1_Silent_p.A29A	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	373						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						CGAGACTGGCCCCTGATCCTT	0.463													9	145	---	---	---	---	PASS	T	8998722	T	T	8998722	2	4	69	1	0	0	0	0	0	0	0	1	5	610	22	3		3	A2ML1	12	8998722	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	72678	8998722	124853173	156	27058										
PZP	5858	broad.mit.edu	37	chr12	9349191	9349191	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cccctcttctctgatcctggCttccactctaagcttcattt	4	16	4	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:9349191C>A	uc001qvl.2	-	9	987	c.958G>T	c.(958-960)GCC>TCC	p.A320S	PZP_uc009zgl.2_Missense_Mutation_p.A189S	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						CTGATCCTGGCTTCCACTCTA	0.383													9	133	---	---	---	---	PASS	A	9349191	A	A	9349191	3	1	69	1	0	0	0	0	1	0	0	0	12869	797	28	3	3602	3	PZP	12	9349191	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	350469	9349191	124502704	157	27059										
RERG	85004	broad.mit.edu	37	chr12	15262093	15262093	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	taatggcttgcttgacatgcGtggtggagctgcgtcgcctc	14	10	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:15262093G>T	uc001rcs.2	-	4	691	c.551C>A	c.(550-552)ACG>AAG	p.T184K	RERG_uc001rct.2_Missense_Mutation_p.T184K|RERG_uc010shu.1_Missense_Mutation_p.T165K	NM_032918	NP_116307	Q96A58	RERG_HUMAN	RAS-like, estrogen-regulated, growth inhibitor	184					negative regulation of cell growth|negative regulation of cell proliferation|response to hormone stimulus|small GTPase mediated signal transduction	cytosol|membrane|nucleus	estrogen receptor binding|GDP binding|GTP binding|GTPase activity			lung(1)	1						CTTGACATGCGTGGTGGAGCT	0.517													31	112	---	---	---	---	PASS	T	15262093	T	T	15262093	3	4	69	1	0	0	0	0	1	0	0	0	13232	1145	40	1	52	1	RERG	12	15262093	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	5912902	15262093	118589802	158	27060										
SSPN	8082	broad.mit.edu	37	chr12	26383680	26383680	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgagtgccctgggcctgacgGtctgtgtgctggccgtggcc	17	12	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:26383680G>T	uc001rhe.2	+	3	503	c.403G>T	c.(403-405)GTC>TTC	p.V135F	SSPN_uc001rhd.2_Missense_Mutation_p.V32F|SSPN_uc009zjf.2_Intron|SSPN_uc001rhf.3_Intron	NM_005086	NP_005077	Q14714	SSPN_HUMAN	sarcospan isoform 1	135	Helical; (Potential).				cell adhesion|muscle contraction	cell junction|dystrophin-associated glycoprotein complex|integral to plasma membrane|postsynaptic membrane|sarcolemma|transport vesicle					0	Colorectal(261;0.0847)					GGGCCTGACGGTCTGTGTGCT	0.517													7	75	---	---	---	---	PASS	T	26383680	T	T	26383680	3	4	69	1	0	0	0	0	1	0	0	0	15187	1261	44	3	413	3	SSPN	12	26383680	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	11121587	26383680	107468215	159	27061										
SFRS2IP	9169	broad.mit.edu	37	chr12	46320209	46320209	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tttgccaccgattttcattcTgatctttataggcaaaacta	5	9	3	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:46320209T>C	uc001rox.2	-	11	3562	c.3275A>G	c.(3274-3276)CAG>CGG	p.Q1092R	SFRS2IP_uc001row.2_Missense_Mutation_p.Q777R|SFRS2IP_uc001roy.1_Missense_Mutation_p.Q1166R	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	1092					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		ATTTTCATTCTGATCTTTATA	0.433													18	103	---	---	---	---	PASS	C	46320209	C	C	46320209	3	2	69	1	0	0	0	0	1	0	0	0	14177	1580	55	5	1136	5	SFRS2IP	12	46320209	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	19936529	46320209	87531686	160	27062										
NCKAP1L	3071	broad.mit.edu	37	chr12	54910050	54910050	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aagagagtggcagacataaaGgagagcaaggaacatgtaat	13	4	0	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:54910050G>T	uc001sgc.3	+	10	1048	c.969G>T	c.(967-969)AAG>AAT	p.K323N	NCKAP1L_uc010sox.1_Translation_Start_Site|NCKAP1L_uc010soy.1_Missense_Mutation_p.K273N	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	323					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						CAGACATAAAGGAGAGCAAGG	0.483													7	79	---	---	---	---	PASS	T	54910050	T	T	54910050	3	4	69	1	0	0	0	0	1	0	0	0	10222	991	35	3	1007	3	NCKAP1L	12	54910050	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	8589841	54910050	78941845	161	27063										
OR6C68	403284	broad.mit.edu	37	chr12	55886651	55886651	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cacttagcttaggttttcatCtagaattctgtgactctaat	6	8	4	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:55886651C>A	uc010spo.1	+	1	505	c.505C>A	c.(505-507)CTA>ATA	p.L169I		NM_001005519	NP_001005519	A6NDL8	O6C68_HUMAN	olfactory receptor, family 6, subfamily C,	164	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AGGTTTTCATCTAGAATTCTG	0.383													6	50	---	---	---	---	PASS	A	55886651	A	A	55886651	3	1	69	1	0	0	0	0	1	0	0	0	11196	912	32	2	507	2	OR6C68	12	55886651	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	976601	55886651	77965244	162	27064										
MIP	4284	broad.mit.edu	37	chr12	56845175	56845175	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agtctctcagaaatactcttGagccgggggaagagaagaaa	12	7	3	4			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:56845175G>T	uc001slh.2	-	4	713	c.681C>A	c.(679-681)CTC>CTA	p.L227L	TIMELESS_uc001slf.2_5'Flank|TIMELESS_uc001slg.2_5'Flank	NM_012064	NP_036196	P30301	MIP_HUMAN	major intrinsic protein of lens fiber	227	Cytoplasmic (By similarity).				response to stimulus|visual perception	gap junction|integral to plasma membrane	structural constituent of eye lens			skin(1)	1						AAATACTCTTGAGCCGGGGGA	0.522													34	155	---	---	---	---	PASS	T	56845175	T	T	56845175	2	4	69	1	0	0	0	0	0	0	0	1	9591	1277	45	2		2	MIP	12	56845175	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	958524	56845175	77006720	163	27065										
HELB	92797	broad.mit.edu	37	chr12	66725399	66725399	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gaacctgtggtgtgaatgatGatgaaagtccaagcaaaatt	11	5	0	4			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:66725399G>T	uc001sti.2	+	12	3164	c.3136G>T	c.(3136-3138)GAT>TAT	p.D1046Y	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	1046					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		TGTGAATGATGATGAAAGTCC	0.373													4	65	---	---	---	---	PASS	T	66725399	T	T	66725399	3	4	69	1	0	0	0	0	1	0	0	0	7045	1290	45	2	3182	2	HELB	12	66725399	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	9880224	66725399	67126496	164	27066										
ZFC3H1	196441	broad.mit.edu	37	chr12	72030283	72030283	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tttttaccgagatcacagttCgtggaagacggggtcctctg	12	9	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:72030283C>T	uc001swo.2	-	9	2446	c.2087G>A	c.(2086-2088)CGA>CAA	p.R696Q		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	696					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						GATCACAGTTCGTGGAAGACG	0.383													9	68	---	---	---	---	PASS	T	72030283	T	T	72030283	3	4	69	1	0	0	0	0	1	0	0	0	17630	884	31	2	3990	2	ZFC3H1	12	72030283	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	5304884	72030283	61821612	165	27067										
ANKS1B	56899	broad.mit.edu	37	chr12	99837495	99837495	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atttttgagggcagtatcagGggatggaggtgaacaatcag	15	4	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:99837495G>C	uc001tge.1	-	11	1948	c.1531C>G	c.(1531-1533)CCT>GCT	p.P511A	ANKS1B_uc001tgf.1_Missense_Mutation_p.P91A|ANKS1B_uc009ztt.1_Missense_Mutation_p.P477A	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	511						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		GCAGTATCAGGGGATGGAGGT	0.428													10	80	---	---	---	---	PASS	C	99837495	C	C	99837495	3	2	69	1	0	0	0	0	1	0	0	0	689	1232	43	4	2567	4	ANKS1B	12	99837495	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	27807212	99837495	34014400	166	27068										
SCYL2	55681	broad.mit.edu	37	chr12	100729439	100729439	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aatcaaatgaatgtttctgaGgagatgaaagttacaaatat	8	3	2	4			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:100729439G>A	uc001thn.2	+	15	1949	c.1899G>A	c.(1897-1899)GAG>GAA	p.E633E	SCYL2_uc001thm.1_Silent_p.E633E	NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein	633					endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						ATGTTTCTGAGGAGATGAAAG	0.313													5	73	---	---	---	---	PASS	A	100729439	A	A	100729439	2	1	69	1	0	0	0	0	0	0	0	1	13948	991	35	3		3	SCYL2	12	100729439	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	891944	100729439	33122456	167	27069										
PWP1	11137	broad.mit.edu	37	chr12	108105954	108105954	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aagaaattcatctattagtgGcccttttggcagcaggagct	10	8	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:108105954G>C	uc001tmo.1	+	15	1550	c.1463G>C	c.(1462-1464)GGC>GCC	p.G488A	PWP1_uc009zuu.1_3'UTR	NM_007062	NP_008993	Q13610	PWP1_HUMAN	periodic tryptophan protein 1	488					transcription, DNA-dependent	nucleus					0						TCTATTAGTGGCCCTTTTGGC	0.383													13	97	---	---	---	---	PASS	C	108105954	C	C	108105954	3	2	69	1	0	0	0	0	1	0	0	0	12843	1203	42	4	1521	4	PWP1	12	108105954	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	7376515	108105954	25745941	168	27070										
CCDC63	160762	broad.mit.edu	37	chr12	111311754	111311754	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agattcacattttggaaaccCgtttgaatctcgtatgtaaa	7	7	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:111311754C>T	uc001trv.1	+	5	673	c.478C>T	c.(478-480)CGT>TGT	p.R160C	CCDC63_uc009zvt.1_Missense_Mutation_p.R75C|CCDC63_uc010sye.1_Missense_Mutation_p.R120C|CCDC63_uc001trw.1_Missense_Mutation_p.R75C	NM_152591	NP_689804	Q8NA47	CCD63_HUMAN	coiled-coil domain containing 63	160	Potential.									skin(6)|ovary(1)|pancreas(1)	8						TTTGGAAACCCGTTTGAATCT	0.433													21	170	---	---	---	---	PASS	T	111311754	T	T	111311754	3	4	69	1	0	0	0	0	1	0	0	0	2834	652	23	1	492	1	CCDC63	12	111311754	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	3205800	111311754	22540141	169	27071										
RASAL1	8437	broad.mit.edu	37	chr12	113543637	113543637	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ccttgcgcttcagcagatagCcttctcgaacaatggccgag	10	13	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr12:113543637C>A	uc001tum.1	-	17	2002	c.1709G>T	c.(1708-1710)GGC>GTC	p.G570V	RASAL1_uc010syp.1_Missense_Mutation_p.G571V|RASAL1_uc001tul.2_Missense_Mutation_p.G570V|RASAL1_uc001tun.1_Missense_Mutation_p.G572V|RASAL1_uc010syq.1_Missense_Mutation_p.G571V|RASAL1_uc001tuo.3_Missense_Mutation_p.G571V	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	570	PH.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						CAGCAGATAGCCTTCTCGAAC	0.632													12	108	---	---	---	---	PASS	A	113543637	A	A	113543637	3	1	69	1	0	0	0	0	1	0	0	0	13063	739	26	3	729	3	RASAL1	12	113543637	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	2231883	113543637	20308258	170	27072										
SACS	26278	broad.mit.edu	37	chr13	23908856	23908856	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgtttcagcctatagacattCtctgctactgttttgcgtgt	8	9	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr13:23908856C>A	uc001uon.2	-	10	9748	c.9159G>T	c.(9157-9159)GAG>GAT	p.E3053D	SACS_uc001uoo.2_Missense_Mutation_p.E2906D|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3053					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TATAGACATTCTCTGCTACTG	0.328													16	57	---	---	---	---	PASS	A	23908856	A	A	23908856	3	1	69	1	0	0	0	0	1	0	0	0	13804	912	32	2	4584	2	SACS	13	23908856	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08		23908856	91261022	171	27073										
PABPC3	5042	broad.mit.edu	37	chr13	25670679	25670679	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agtccattaataataaagcaCtgtatgatacagtttctgct	6	7	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr13:25670679C>G	uc001upy.2	+	1	404	c.343C>G	c.(343-345)CTG>GTG	p.L115V		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	115	RRM 2.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		TAATAAAGCACTGTATGATAC	0.388													24	83	---	---	---	---	PASS	G	25670679	G	G	25670679	3	3	69	1	0	0	0	0	1	0	0	0	11365	564	20	4	345	4	PABPC3	13	25670679	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	1761823	25670679	89499199	172	27074										
MTUS2	23281	broad.mit.edu	37	chr13	29599636	29599636	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acagtgggggcacatgtactGcaggtgtgcagtgagcacac	15	9	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr13:29599636G>A	uc001usl.3	+	1	889	c.831G>A	c.(829-831)CTG>CTA	p.L277L		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	267						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						CACATGTACTGCAGGTGTGCA	0.507													8	18	---	---	---	---	PASS	A	29599636	A	A	29599636	2	1	69	1	0	0	0	0	0	0	0	1	9966	1306	46	3		3	MTUS2	13	29599636	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	3928957	29599636	85570242	173	27075										
FAM155A	728215	broad.mit.edu	37	chr13	108518491	108518491	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tagaaaaagagccttgccccGgtcgtctttgcctcggttgc	11	12	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr13:108518491G>T	uc001vql.2	-	1	970	c.454C>A	c.(454-456)CGG>AGG	p.R152R		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	152						integral to membrane	binding			skin(1)	1						GCCTTGCCCCGGTCGTCTTTG	0.692													15	39	---	---	---	---	PASS	T	108518491	T	T	108518491	2	4	69	1	0	0	0	0	0	0	0	1	5465	1115	39	1		1	FAM155A	13	108518491	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	78918855	108518491	6651387	174	27076										
TFDP1	7027	broad.mit.edu	37	chr13	114290937	114290937	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgggcatggcttgcgggctgGagtcggggagctgctctgcc	19	10	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr13:114290937G>C	uc001vtw.2	+	10	1140	c.928G>C	c.(928-930)GAG>CAG	p.E310Q	TFDP1_uc010tkd.1_Missense_Mutation_p.E215Q|TFDP1_uc010tke.1_Missense_Mutation_p.E215Q|TFDP1_uc001vty.3_Missense_Mutation_p.E310Q|TFDP1_uc001vtx.2_Missense_Mutation_p.E190Q	NM_007111	NP_009042	Q14186	TFDP1_HUMAN	transcription factor Dp-1	310	DCB2.|Enhances binding of RB protein to E2F.				cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|regulation of transcription from RNA polymerase II promoter	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			lung(4)|ovary(2)|skin(1)	7	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.132)|all_epithelial(44;0.0731)|all_lung(25;0.149)|Breast(118;0.153)	all cancers(43;0.0576)			TTGCGGGCTGGAGTCGGGGAG	0.507										TSP Lung(29;0.18)			15	47	---	---	---	---	PASS	C	114290937	C	C	114290937	3	2	69	1	0	0	0	0	1	0	0	0	15794	1175	41	2	962	2	TFDP1	13	114290937	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	5772446	114290937	878941	175	27077										
PAX9	5083	broad.mit.edu	37	chr14	37132593	37132593	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tctactcgtaccccagccctAtcacggcggcggccgccaag	10	18	2	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr14:37132593A>G	uc001wty.3	+	3	1213	c.496A>G	c.(496-498)ATC>GTC	p.I166V	PAX9_uc010amq.2_5'Flank	NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	166					multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		CCCCAGCCCTATCACGGCGGC	0.682													10	41	---	---	---	---	PASS	G	37132593	G	G	37132593	3	3	69	1	0	0	0	0	1	0	0	0	11486	449	16	5	502	5	PAX9	14	37132593	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08		37132593	70216947	176	27078										
SYT16	83851	broad.mit.edu	37	chr14	62547935	62547935	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctattctatctcagccacctGcacccagaaggggaaatgaa	8	12	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr14:62547935G>A	uc001xfu.1	+	4	1574	c.1377G>A	c.(1375-1377)CTG>CTA	p.L459L	SYT16_uc010tsd.1_3'UTR|SYT16_uc010tse.1_Silent_p.L17L	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	459										central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		TCAGCCACCTGCACCCAGAAG	0.502													15	30	---	---	---	---	PASS	A	62547935	A	A	62547935	2	1	69	1	0	0	0	0	0	0	0	1	15469	1306	46	3		3	SYT16	14	62547935	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	25415342	62547935	44801605	177	27079										
ADAM20	8748	broad.mit.edu	37	chr14	70991290	70991290	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ccccaaaccgcaggctatagGagagccatccaggagccttt	10	14	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr14:70991290G>A	uc001xme.2	-	2	580	c.335C>T	c.(334-336)TCC>TTC	p.S112F		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	62					proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		CAGGCTATAGGAGAGCCATCC	0.527													24	60	---	---	---	---	PASS	A	70991290	A	A	70991290	3	1	69	1	0	0	0	0	1	0	0	0	242	1174	41	2	1999	2	ADAM20	14	70991290	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	8443355	70991290	36358250	178	27080										
PROX2	283571	broad.mit.edu	37	chr14	75321889	75321889	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gggatgtcactgtccagtttCgaaataattttataaatggg	10	5	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr14:75321889C>T	uc001xqr.1	-	4	1725	c.1725G>A	c.(1723-1725)TCG>TCA	p.S575S	uc001xqp.1_5'Flank|PROX2_uc001xqq.1_Silent_p.S274S	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2	575	Prospero-like.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		TGTCCAGTTTCGAAATAATTT	0.473													3	19	---	---	---	---	PASS	T	75321889	T	T	75321889	2	4	69	1	0	0	0	0	0	0	0	1	12561	871	31	2		2	PROX2	14	75321889	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	4330599	75321889	32027651	179	27081										
SPTLC2	9517	broad.mit.edu	37	chr14	78021768	78021768	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ccggcctgtggggcccagggCgccaatgctgtgagcctcat	15	14	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr14:78021768C>A	uc001xub.2	-	8	1239	c.1051G>T	c.(1051-1053)GCC>TCC	p.A351S		NM_004863	NP_004854	O15270	SPTC2_HUMAN	serine palmitoyltransferase, long chain base	351						integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups			upper_aerodigestive_tract(1)|ovary(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0346)	L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	GGGCCCAGGGCGCCAATGCTG	0.522													25	95	---	---	---	---	PASS	A	78021768	A	A	78021768	3	1	69	1	0	0	0	0	1	0	0	0	15123	768	27	1	657	1	SPTLC2	14	78021768	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	2699879	78021768	29327772	180	27082										
TCL1B	9623	broad.mit.edu	37	chr14	96152950	96152950	+	Missense_Mutation	SNP	C	A	A													0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gcgtagggaatgggccagggCctcccagggcagcagagtga							TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr14:96152950C>A	uc001yez.2	+	1	188	c.146C>A	c.(145-147)GCC>GAC	p.A49D	TCL1B_uc001yew.2_Intron|TCL1B_uc001yex.2_Intron|TCL1B_uc010avj.2_Intron|TCL1B_uc001yfa.2_Missense_Mutation_p.A49D	NM_004918	NP_004909	O95988	TCL1B_HUMAN	T-cell leukemia/lymphoma 1B	49										ovary(1)	1		all_cancers(154;0.103)		COAD - Colon adenocarcinoma(157;0.205)|Epithelial(152;0.248)		TGGGCCAGGGCCTCCCAGGGC	0.672													12	29	---	---	---	---	PASS	A	96152950	A	A	96152950	3	1	69	1	0	0	0	0	1	0	0	0	15702	739	26	3	148	3	TCL1B	14	96152950	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	18131182	96152950	11196590	181	27083	563	2								
TCL1B	9623	broad.mit.edu	37	chr14	96152951	96152951	+	Silent	SNP	C	A	A													0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cgtagggaatgggccagggcCtcccagggcagcagagtgag							TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr14:96152951C>A	uc001yez.2	+	1	189	c.147C>A	c.(145-147)GCC>GCA	p.A49A	TCL1B_uc001yew.2_Intron|TCL1B_uc001yex.2_Intron|TCL1B_uc010avj.2_Intron|TCL1B_uc001yfa.2_Silent_p.A49A	NM_004918	NP_004909	O95988	TCL1B_HUMAN	T-cell leukemia/lymphoma 1B	49										ovary(1)	1		all_cancers(154;0.103)		COAD - Colon adenocarcinoma(157;0.205)|Epithelial(152;0.248)		GGGCCAGGGCCTCCCAGGGCA	0.672													12	28	---	---	---	---	PASS	A	96152951	A	A	96152951	2	1	69	1	0	0	0	0	0	0	0	1	15702	668	24	3		3	TCL1B	14	96152951	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	1	96152951	11196589	182	27084	563	2								
NDN	4692	broad.mit.edu	37	chr15	23931528	23931528	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tctttcttaaagaccctggcCaggaactccatgatttgcat	7	11	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr15:23931528C>A	uc001ywk.2	-	1	923	c.837G>T	c.(835-837)CTG>CTT	p.L279L		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	279	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		AGACCCTGGCCAGGAACTCCA	0.602									Prader-Willi_syndrome				7	49	---	---	---	---	PASS	A	23931528	A	A	23931528	2	1	69	1	0	0	0	0	0	0	0	1	10247	581	21	3		3	NDN	15	23931528	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08		23931528	78599864	183	27085										
CEP152	22995	broad.mit.edu	37	chr15	49048099	49048099	+	Splice_Site	SNP	C	A	A													0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctctcactctcaggaacataCctttttccattctgggtcag							TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr15:49048099C>A	uc001zwy.2	-	20	3379	c.3345_splice	c.e20+1	p.K1115_splice	CEP152_uc001zwz.2_Splice_Site_p.K1115_splice|CEP152_uc001zxa.1_Splice_Site_p.K1022_splice	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa						centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		CAGGAACATACCTTTTTCCAT	0.343													13	102	---	---	---	---	PASS	A	49048099	A	A	49048099	5	1	69	1	0	0	0	0	0	0	1	0	3248	521	18	3	1646	3	CEP152	15	49048099	Splice_Site	SNP	C	TCGA-34-5236-01A-21D-1817-08	25116571	49048099	53483293	184	27086	564	2								
CEP152	22995	broad.mit.edu	37	chr15	49048100	49048100	+	Missense_Mutation	SNP	C	A	A													0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tctcactctcaggaacatacCtttttccattctgggtcagc							TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr15:49048100C>A	uc001zwy.2	-	20	3379	c.3345G>T	c.(3343-3345)AAG>AAT	p.K1115N	CEP152_uc001zwz.2_Missense_Mutation_p.K1115N|CEP152_uc001zxa.1_Missense_Mutation_p.K1022N	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	1115					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		AGGAACATACCTTTTTCCATT	0.343													13	103	---	---	---	---	PASS	A	49048100	A	A	49048100	3	1	69	1	0	0	0	0	1	0	0	0	3248	695	24	3	1647	3	CEP152	15	49048100	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	1	49048100	53483292	185	27087	564	2								
SHC4	399694	broad.mit.edu	37	chr15	49254907	49254907	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aggcaaaagtttttcagactCagcaaagtggccgggttggc	13	8	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr15:49254907C>T	uc001zxb.1	-	1	735	c.306G>A	c.(304-306)CTG>CTA	p.L102L		NM_203349	NP_976224	Q6S5L8	SHC4_HUMAN	rai-like protein	102	CH2.				intracellular signal transduction	cell junction|postsynaptic membrane				ovary(3)|pancreas(2)	5		all_lung(180;0.00466)		all cancers(107;9.4e-08)|GBM - Glioblastoma multiforme(94;5.94e-07)		TTTTCAGACTCAGCAAAGTGG	0.607													13	82	---	---	---	---	PASS	T	49254907	T	T	49254907	2	4	69	1	0	0	0	0	0	0	0	1	14273	813	29	2		2	SHC4	15	49254907	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	206807	49254907	53276485	186	27088										
GALK2	2585	broad.mit.edu	37	chr15	49584700	49584700	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ggaattagcctggaggaactCcgaacccaaatcctgagtcc	10	12	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr15:49584700C>G	uc001zxj.1	+	8	1031	c.933C>G	c.(931-933)CTC>CTG	p.L311L	GALK2_uc001zxi.1_Silent_p.L300L|GALK2_uc010ufb.1_Silent_p.L287L|GALK2_uc001zxk.2_RNA|GALK2_uc010ufc.1_Silent_p.L287L	NM_002044	NP_002035	Q01415	GALK2_HUMAN	galactokinase 2 isoform 1	311					galactose metabolic process	cytoplasm	ATP binding|galactokinase activity|N-acetylgalactosamine kinase activity			breast(1)	1		all_lung(180;0.000325)		all cancers(107;3.71e-08)|GBM - Glioblastoma multiforme(94;7e-05)		TGGAGGAACTCCGAACCCAAA	0.458													11	60	---	---	---	---	PASS	G	49584700	G	G	49584700	2	3	69	1	0	0	0	0	0	0	0	1	6204	842	30	2		2	GALK2	15	49584700	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	329793	49584700	52946692	187	27089										
AP4E1	23431	broad.mit.edu	37	chr15	51217296	51217296	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttgcttaatgttgtgccaggAtctgcagagcactaacctag	10	9	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr15:51217296A>G	uc001zyx.1	+	5	452	c.422A>G	c.(421-423)GAT>GGT	p.D141G	AP4E1_uc010ufi.1_Missense_Mutation_p.D141G|AP4E1_uc010ufj.1_RNA|AP4E1_uc010ufk.1_RNA	NM_007347	NP_031373	Q9UPM8	AP4E1_HUMAN	adaptor-related protein complex 4, epsilon 1	141					intracellular protein transport|vesicle-mediated transport	COPI vesicle coat	binding|structural molecule activity				0				all cancers(107;0.000893)|GBM - Glioblastoma multiforme(94;0.00364)		TTGTGCCAGGATCTGCAGAGC	0.373													4	74	---	---	---	---	PASS	G	51217296	G	G	51217296	3	3	69	1	0	0	0	0	1	0	0	0	752	347	12	5	440	5	AP4E1	15	51217296	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	1632596	51217296	51314096	188	27090										
MYO5A	4644	broad.mit.edu	37	chr15	52659307	52659307	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agcaaagtattttcttccttCagatttgataccagctacga	6	9	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr15:52659307C>A	uc002aby.2	-	23	3325	c.3081G>T	c.(3079-3081)CTG>CTT	p.L1027L	MYO5A_uc002abx.3_Silent_p.L1027L|MYO5A_uc010uge.1_Silent_p.L896L	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	1027	Potential.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		TTTCTTCCTTCAGATTTGATA	0.423													5	70	---	---	---	---	PASS	A	52659307	A	A	52659307	2	1	69	1	0	0	0	0	0	0	0	1	10078	813	29	2		2	MYO5A	15	52659307	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	1442011	52659307	49872085	189	27091										
GCOM1	145781	broad.mit.edu	37	chr15	57976616	57976616	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tcagccaaacaggcaggactCgtgaaattgtgatgccttct	10	10	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr15:57976616C>T	uc002aei.2	+	13	1440	c.1321C>T	c.(1321-1323)CGT>TGT	p.R441C	GCOM1_uc002aej.2_Missense_Mutation_p.R413C|GCOM1_uc002aek.2_Intron|GCOM1_uc002ael.2_RNA|GCOM1_uc002aem.2_Intron|GCOM1_uc002aeq.2_RNA|GCOM1_uc002aen.2_Intron|GCOM1_uc010bfy.2_Intron|GCOM1_uc002aeo.2_Intron|GCOM1_uc002aep.2_RNA|GCOM1_uc010bfx.2_Intron|GCOM1_uc002aer.1_RNA|GRINL1A_uc002aes.2_5'UTR	NM_001018100	NP_001018110	P0CAP1	GCOM1_HUMAN	GRINL1A upstream protein isoform 7	441					intracellular signal transduction	extrinsic to internal side of plasma membrane|I band				ovary(1)	1						AGGCAGGACTCGTGAAATTGT	0.428													5	115	---	---	---	---	PASS	T	57976616	T	T	57976616	3	4	69	1	0	0	0	0	1	0	0	0	6304	884	31	2	1371	2	GCOM1	15	57976616	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	5317309	57976616	44554776	190	27092										
NEO1	4756	broad.mit.edu	37	chr15	73536809	73536809	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atggctcaggagagagttcaGctccactgcgagtagaaaca	12	9	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr15:73536809G>T	uc002avm.3	+	9	1718	c.1576G>T	c.(1576-1578)GCT>TCT	p.A526S	NEO1_uc010ukx.1_Missense_Mutation_p.A526S|NEO1_uc010uky.1_Missense_Mutation_p.A526S|NEO1_uc010ukz.1_5'UTR|NEO1_uc002avn.3_Missense_Mutation_p.A191S	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	526	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						AGAGAGTTCAGCTCCACTGCG	0.483													14	73	---	---	---	---	PASS	T	73536809	T	T	73536809	3	4	69	1	0	0	0	0	1	0	0	0	10336	971	34	3	1610	3	NEO1	15	73536809	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	15560193	73536809	28994583	191	27093										
MAN2A2	4122	broad.mit.edu	37	chr15	91448578	91448578	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tatcaaggactccgtgctggAgctgacagccaacgcagagg	13	11	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr15:91448578A>T	uc010bnz.2	+	3	345	c.230A>T	c.(229-231)GAG>GTG	p.E77V	MAN2A2_uc010boa.2_Missense_Mutation_p.E119V|MAN2A2_uc002bqc.2_Missense_Mutation_p.E77V|MAN2A2_uc010uql.1_5'Flank|MAN2A2_uc010uqm.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	77	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			TCCGTGCTGGAGCTGACAGCC	0.597													10	91	---	---	---	---	PASS	T	91448578	T	T	91448578	3	4	69	1	0	0	0	0	1	0	0	0	9215	304	11	5	236	5	MAN2A2	15	91448578	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	17911769	91448578	11082814	192	27094										
MLST8	64223	broad.mit.edu	37	chr16	2256502	2256502	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cagcctgtgtccctaggttaCcagcacatccgcatgtatga	9	13	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr16:2256502C>T	uc002coz.2	+	4	305	c.186C>T	c.(184-186)TAC>TAT	p.Y62Y	MLST8_uc002coy.2_Silent_p.Y62Y|MLST8_uc002cpa.2_5'UTR|MLST8_uc002cpb.2_Silent_p.Y61Y|MLST8_uc010uvx.1_5'UTR|MLST8_uc002cpc.2_Silent_p.Y62Y|MLST8_uc002cpd.2_5'UTR|MLST8_uc002cpe.2_Silent_p.Y62Y|MLST8_uc010uvy.1_Silent_p.Y62Y|MLST8_uc002cpg.2_Silent_p.Y81Y|MLST8_uc002cph.2_RNA|MLST8_uc002cpf.2_Silent_p.Y62Y	NM_022372	NP_071767	Q9BVC4	LST8_HUMAN	G protein beta subunit-like	62	WD 2.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|T cell costimulation	cytosol	protein binding				0						CCCTAGGTTACCAGCACATCC	0.527													8	165	---	---	---	---	PASS	T	2256502	T	T	2256502	2	4	69	1	0	0	0	0	0	0	0	1	9634	518	18	3		3	MLST8	16	2256502	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08		2256502	88098251	193	27095										
ACSM2A	123876	broad.mit.edu	37	chr16	20480859	20480859	+	Silent	SNP	C	A	A													0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atctttatgcctggaaccatCcagatgaaatccactgacat							TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr16:20480859C>A	uc010bwe.2	+	5	653	c.414C>A	c.(412-414)ATC>ATA	p.I138I	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Silent_p.I59I|ACSM2A_uc002dhf.3_Silent_p.I138I|ACSM2A_uc002dhg.3_Silent_p.I138I|ACSM2A_uc010vay.1_Silent_p.I59I	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	138					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CTGGAACCATCCAGATGAAAT	0.423													14	47	---	---	---	---	PASS	A	20480859	A	A	20480859	2	1	69	1	0	0	0	0	0	0	0	1	183	845	30	2		2	ACSM2A	16	20480859	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	18224357	20480859	69873894	194	27096	565	2								
ACSM2A	123876	broad.mit.edu	37	chr16	20480860	20480860	+	Missense_Mutation	SNP	C	A	A													0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tctttatgcctggaaccatcCagatgaaatccactgacata							TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr16:20480860C>A	uc010bwe.2	+	5	654	c.415C>A	c.(415-417)CAG>AAG	p.Q139K	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Missense_Mutation_p.Q60K|ACSM2A_uc002dhf.3_Missense_Mutation_p.Q139K|ACSM2A_uc002dhg.3_Missense_Mutation_p.Q139K|ACSM2A_uc010vay.1_Missense_Mutation_p.Q60K	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	139		Coenzyme A.			fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						TGGAACCATCCAGATGAAATC	0.428													14	47	---	---	---	---	PASS	A	20480860	A	A	20480860	3	1	69	1	0	0	0	0	1	0	0	0	183	595	21	3	425	3	ACSM2A	16	20480860	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	1	20480860	69873893	195	27097	565	2								
ACSM1	116285	broad.mit.edu	37	chr16	20673196	20673196	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atggggtatttcaacaatgtCtggaaagggaagagagaaga	14	3	2	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr16:20673196C>G	uc002dhm.1	-	6	981	c.913_splice	c.e6-1	p.T305_splice	ACSM1_uc002dhn.1_Splice_Site|ACSM1_uc010bwg.1_Splice_Site_p.T305_splice	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member						benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						TCAACAATGTCTGGAAAGGGA	0.393													13	41	---	---	---	---	PASS	G	20673196	G	G	20673196	5	3	69	1	0	0	0	0	0	0	1	0	182	927	32	2	853	2	ACSM1	16	20673196	Splice_Site	SNP	C	TCGA-34-5236-01A-21D-1817-08	192336	20673196	69681557	196	27098										
ERN2	10595	broad.mit.edu	37	chr16	23722242	23722242	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cctcttgctcaccatccctcAgagtccacttcaggtcccct	5	19	4	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr16:23722242A>T	uc002dma.3	-	2	504	c.335T>A	c.(334-336)CTG>CAG	p.L112Q	ERN2_uc010bxp.2_Missense_Mutation_p.L112Q|ERN2_uc010bxq.1_5'UTR	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	64	Lumenal (Potential).				apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		ACCATCCCTCAGAGTCCACTT	0.448													31	74	---	---	---	---	PASS	T	23722242	T	T	23722242	3	4	69	1	0	0	0	0	1	0	0	0	5238	188	7	5	2673	5	ERN2	16	23722242	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	3049046	23722242	66632511	197	27099										
RSPRY1	89970	broad.mit.edu	37	chr16	57265166	57265166	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ccattcaaatacccaccatcTatgaaatttagcacttttaa	2	11	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr16:57265166T>G	uc002elb.2	+	13	1742	c.1464T>G	c.(1462-1464)TCT>TCG	p.S488S	RSPRY1_uc002elc.2_Silent_p.S488S|RSPRY1_uc002eld.2_Silent_p.S488S	NM_133368	NP_588609	Q96DX4	RSPRY_HUMAN	ring finger and SPRY domain containing 1	488						extracellular region	zinc ion binding			ovary(1)	1						ACCCACCATCTATGAAATTTA	0.363													24	60	---	---	---	---	PASS	G	57265166	G	G	57265166	2	3	69	1	0	0	0	0	0	0	0	1	13713	1509	53	5		5	RSPRY1	16	57265166	Silent	SNP	T	TCGA-34-5236-01A-21D-1817-08	33542924	57265166	33089587	198	27100										
CES8	283848	broad.mit.edu	37	chr16	67037456	67037456	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttccagagagacccggaagaGgtaaacaggccacattctgc	11	11	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr16:67037456G>T	uc002eqv.2	+	8	982	c.939G>T	c.(937-939)GAG>GAT	p.E313D	CES8_uc010vix.1_Missense_Mutation_p.E313D|CES8_uc002eqw.2_Missense_Mutation_p.E313D|CES8_uc002eqy.2_Missense_Mutation_p.E215D|CES8_uc002eqx.2_Missense_Mutation_p.E119D|CES8_uc010viy.1_Missense_Mutation_p.E219D|CES8_uc010viz.1_Missense_Mutation_p.E215D|CES8_uc002eqz.2_5'Flank	NM_173815	NP_776176	Q5XG92	EST4A_HUMAN	carboxylesterase 8 (putative)	313						extracellular region	carboxylesterase activity				0						ACCCGGAAGAGGTAAACAGGC	0.318													43	105	---	---	---	---	PASS	T	67037456	T	T	67037456	3	4	69	1	0	0	0	0	1	0	0	0	3273	1014	35	3	1050	3	CES8	16	67037456	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	9772290	67037456	23317297	199	27101										
TCF25	22980	broad.mit.edu	37	chr16	89964992	89964992	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tacctggccctctacaagcaGatgagcttcctggagaagcg	11	12	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr16:89964992G>C	uc002fpb.2	+	10	1132	c.1050G>C	c.(1048-1050)CAG>CAC	p.Q350H	TCF25_uc002fpc.2_Missense_Mutation_p.Q115H	NM_014972	NP_055787	Q9BQ70	TCF25_HUMAN	NULP1	350					heart development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(9;4.71e-08)|Lung NSC(15;0.000192)|all_lung(18;0.000319)|all_neural(9;0.0122)|all_hematologic(23;0.027)		BRCA - Breast invasive adenocarcinoma(80;0.0288)		TCTACAAGCAGATGAGCTTCC	0.577													32	103	---	---	---	---	PASS	C	89964992	C	C	89964992	3	2	69	1	0	0	0	0	1	0	0	0	15690	933	33	2	1088	2	TCF25	16	89964992	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	22927536	89964992	389761	200	27102										
RPA1	6117	broad.mit.edu	37	chr17	1783860	1783860	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gataaatttgatggttctagAcagcccgtgttggctatcaa	10	7	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr17:1783860A>G	uc002fto.2	+	12	1231	c.1116A>G	c.(1114-1116)AGA>AGG	p.R372R		NM_002945	NP_002936	P27694	RFA1_HUMAN	replication protein A1	372					cell cycle checkpoint|DNA recombinase assembly|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	actin cytoskeleton|cytoplasm|DNA replication factor A complex|PML body	metal ion binding|protein binding|single-stranded DNA binding				0						ATGGTTCTAGACAGCCCGTGT	0.448								NER					31	54	---	---	---	---	PASS	G	1783860	G	G	1783860	2	3	69	1	0	0	0	0	0	0	0	1	13536	272	10	5		5	RPA1	17	1783860	Silent	SNP	A	TCGA-34-5236-01A-21D-1817-08		1783860	79411350	201	27103										
TP53	7157	broad.mit.edu	37	chr17	7578535	7578535	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tggccagttggcaaaacatcTtgttgagggcaggggagtac	15	7	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr17:7578535T>C	uc002gim.2	-	5	589	c.395A>G	c.(394-396)AAG>AGG	p.K132R	TP53_uc002gig.1_Missense_Mutation_p.K132R|TP53_uc002gih.2_Missense_Mutation_p.K132R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'UTR|TP53_uc010cng.1_5'UTR|TP53_uc002gii.1_5'UTR|TP53_uc010cnh.1_Missense_Mutation_p.K132R|TP53_uc010cni.1_Missense_Mutation_p.K132R|TP53_uc002gij.2_Missense_Mutation_p.K132R|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.K39R|TP53_uc002gio.2_5'UTR|TP53_uc010vug.1_Missense_Mutation_p.K93R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	132	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		K -> T (in sporadic cancers; somatic mutation).|KM -> NL (in a sporadic cancer; somatic mutation).|K -> W (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|K -> R (in sporadic cancers; somatic mutation).|K -> M (in sporadic cancers; somatic mutation).|K -> N (in sporadic cancers; somatic mutation).|K -> L (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|K -> Q (in sporadic cancers; somatic mutation).|K -> E (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.K132N(40)|p.K132R(32)|p.K132E(19)|p.K132Q(13)|p.K132M(9)|p.0?(7)|p.Y126_K132delYSPALNK(6)|p.K132T(4)|p.N131del(2)|p.N131fs*27(2)|p.K132*(2)|p.K132fs*38(2)|p.V73fs*9(1)|p.S127fs*36(1)|p.A129_K132delALNK(1)|p.Y126fs*11(1)|p.K132K(1)|p.K132_A138delKMFCQLA(1)|p.S127_Q136del10(1)|p.L130_M133delLNKM(1)|p.K132W(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)		GCAAAACATCTTGTTGAGGGC	0.562		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			16	28	---	---	---	---	PASS	C	7578535	C	C	7578535	3	2	69	1	0	0	0	0	1	0	0	0	16378	1609	56	5	903	5	TP53	17	7578535	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	5794675	7578535	73616675	202	27104										
TOP3A	7156	broad.mit.edu	37	chr17	18196039	18196039	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cccattgcgtggggtgggacCaccccgctctagaatgctct	12	14	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr17:18196039C>A	uc002gsx.1	-	11	1430	c.1201G>T	c.(1201-1203)GGT>TGT	p.G401C	TOP3A_uc010cpz.1_5'Flank|TOP3A_uc010vxr.1_Intron|TOP3A_uc002gsw.1_Intron|TOP3A_uc010vxs.1_Missense_Mutation_p.G299C	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	401					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						GGGGTGGGACCACCCCGCTCT	0.542													23	62	---	---	---	---	PASS	A	18196039	A	A	18196039	3	1	69	1	0	0	0	0	1	0	0	0	16364	594	21	3	1840	3	TOP3A	17	18196039	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	10617504	18196039	62999171	203	27105										
ANKFN1	162282	broad.mit.edu	37	chr17	54450027	54450027	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttgtcagcctggaaagccgaGcaatgcacctcaacacactg	9	13	2	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr17:54450027G>A	uc002iun.1	+	6	666	c.631G>A	c.(631-633)GCA>ACA	p.A211T		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	211	Potential.									large_intestine(1)|ovary(1)	2						GGAAAGCCGAGCAATGCACCT	0.478													8	181	---	---	---	---	PASS	A	54450027	A	A	54450027	3	1	69	1	0	0	0	0	1	0	0	0	625	971	34	3	653	3	ANKFN1	17	54450027	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	36253988	54450027	26745183	204	27106										
HGS	9146	broad.mit.edu	37	chr17	79668078	79668078	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acgtcttctcacaacagaatCtcatgaccaccctcccaagc	4	17	3	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr17:79668078C>T	uc002kbg.2	+	21	2217	c.2140C>T	c.(2140-2142)CTC>TTC	p.L714F	MRPL12_uc002kbh.1_5'Flank|SLC25A10_uc010wut.1_5'Flank	NM_004712	NP_004703	O14964	HGS_HUMAN	hepatocyte growth factor-regulated tyrosine	714	Interaction with NF2.|Gln-rich.				cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of JAK-STAT cascade|regulation of protein catabolic process	cytosol|early endosome membrane|multivesicular body membrane	metal ion binding|protein domain specific binding			ovary(1)	1	all_neural(118;0.0878)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)			ACAACAGAATCTCATGACCAC	0.597													5	76	---	---	---	---	PASS	T	79668078	T	T	79668078	3	4	69	1	0	0	0	0	1	0	0	0	7087	913	32	2	2222	2	HGS	17	79668078	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	25218051	79668078	1527132	205	27107										
DLGAP1	9229	broad.mit.edu	37	chr18	3879542	3879542	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgctgcgtttgccatagcgcGccgcctgcgcctcgtcaggg	14	15	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr18:3879542G>A	uc002kmf.2	-	1	594	c.527C>T	c.(526-528)GCG>GTG	p.A176V	DLGAP1_uc010wyz.1_Missense_Mutation_p.A176V|DLGAP1_uc002kmk.2_Missense_Mutation_p.A176V|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	176					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				GCCATAGCGCGCCGCCTGCGC	0.697													39	153	---	---	---	---	PASS	A	3879542	A	A	3879542	3	1	69	1	0	0	0	0	1	0	0	0	4559	1087	38	1	2501	1	DLGAP1	18	3879542	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08		3879542	74197706	206	27108										
SS18	6760	broad.mit.edu	37	chr18	23612395	23612395	+	Missense_Mutation	SNP	G	A	A													0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ataaggcctctgctggggtgGctgtggtggtccaggctgtg							TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr18:23612395G>A	uc002kvm.2	-	10	1276	c.1198C>T	c.(1198-1200)CCA>TCA	p.P400S	SS18_uc002kvn.2_Missense_Mutation_p.P369S|SS18_uc010xbf.1_Missense_Mutation_p.P318S|SS18_uc010xbg.1_Missense_Mutation_p.P317S|SS18_uc010xbh.1_Missense_Mutation_p.P317S|SS18_uc010xbi.1_Missense_Mutation_p.P377S	NM_001007559	NP_001007560	Q15532	SSXT_HUMAN	synovial sarcoma translocation, chromosome 18	400	Gln-rich.|SH3-binding (Potential).				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	ligand-dependent nuclear receptor transcription coactivator activity|protein binding		SS18/SSX1(1169)|SS18/SSX2(702)|SS18/SSX4(12)	soft_tissue(1883)|ovary(1)	1884	all_cancers(21;0.000194)|Lung NSC(5;0.000413)|all_lung(6;0.00118)|Ovarian(20;0.124)					TGCTGGGGTGGCTGTGGTGGT	0.498			T	SSX1| SSX2	synovial sarcoma								23	270	---	---	---	---	PASS	A	23612395	A	A	23612395	3	1	69	1	0	0	0	0	1	0	0	0	15174	1203	42	3	66	3	SS18	18	23612395	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	19732853	23612395	54464853	207	27109	566	2								
SS18	6760	broad.mit.edu	37	chr18	23612396	23612396	+	Missense_Mutation	SNP	C	A	A													0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	taaggcctctgctggggtggCtgtggtggtccaggctgtgt							TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr18:23612396C>A	uc002kvm.2	-	10	1275	c.1197G>T	c.(1195-1197)CAG>CAT	p.Q399H	SS18_uc002kvn.2_Missense_Mutation_p.Q368H|SS18_uc010xbf.1_Missense_Mutation_p.Q317H|SS18_uc010xbg.1_Missense_Mutation_p.Q316H|SS18_uc010xbh.1_Missense_Mutation_p.Q316H|SS18_uc010xbi.1_Missense_Mutation_p.Q376H	NM_001007559	NP_001007560	Q15532	SSXT_HUMAN	synovial sarcoma translocation, chromosome 18	399	Gln-rich.|SH3-binding (Potential).				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	ligand-dependent nuclear receptor transcription coactivator activity|protein binding		SS18/SSX1(1169)|SS18/SSX2(702)|SS18/SSX4(12)	soft_tissue(1883)|ovary(1)	1884	all_cancers(21;0.000194)|Lung NSC(5;0.000413)|all_lung(6;0.00118)|Ovarian(20;0.124)					GCTGGGGTGGCTGTGGTGGTC	0.502			T	SSX1| SSX2	synovial sarcoma								23	274	---	---	---	---	PASS	A	23612396	A	A	23612396	3	1	69	1	0	0	0	0	1	0	0	0	15174	796	28	3	67	3	SS18	18	23612396	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	1	23612396	54464852	208	27110	566	2								
DTNA	1837	broad.mit.edu	37	chr18	32418101	32418101	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tagagcagaacaaactgctgGctagggctgctccagctttt	11	10	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr18:32418101G>C	uc010dmn.1	+	11	1139	c.1138G>C	c.(1138-1140)GCT>CCT	p.A380P	DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Intron|DTNA_uc002kxw.2_Intron|DTNA_uc010dmj.2_Intron|DTNA_uc002kxz.2_Intron|DTNA_uc002kxy.2_Intron|DTNA_uc010dml.2_Intron|DTNA_uc002kyb.3_Missense_Mutation_p.A377P|DTNA_uc010dmm.2_Missense_Mutation_p.A380P|DTNA_uc010xby.1_Intron|DTNA_uc010dmo.2_Intron|DTNA_uc002kyd.3_Intron|DTNA_uc010xbz.1_Missense_Mutation_p.A89P|DTNA_uc010xca.1_Intron|DTNA_uc002kye.2_Missense_Mutation_p.A59P	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	380					neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						CAAACTGCTGGCTAGGGCTGC	0.443													51	49	---	---	---	---	PASS	C	32418101	C	C	32418101	3	2	69	1	0	0	0	0	1	0	0	0	4788	1203	42	4	1215	4	DTNA	18	32418101	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	8805705	32418101	45659147	209	27111										
DTNA	1837	broad.mit.edu	37	chr18	32418763	32418763	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gctgatgaacatgttctcatCgggttgtatgtcaacatgct	10	8	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr18:32418763C>A	uc010dmn.1	+	12	1228	c.1227C>A	c.(1225-1227)ATC>ATA	p.I409I	DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Intron|DTNA_uc002kxw.2_Intron|DTNA_uc010dmj.2_Intron|DTNA_uc002kxz.2_Intron|DTNA_uc002kxy.2_Intron|DTNA_uc010dml.2_Intron|DTNA_uc002kyb.3_Silent_p.I406I|DTNA_uc010dmm.2_Silent_p.I409I|DTNA_uc010xby.1_Intron|DTNA_uc010dmo.2_Intron|DTNA_uc002kyd.3_Intron|DTNA_uc010xbz.1_Silent_p.I118I|DTNA_uc010xca.1_Intron|DTNA_uc002kye.2_Intron	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	409	Syntrophin-binding region.				neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						ATGTTCTCATCGGGTTGTATG	0.502													5	165	---	---	---	---	PASS	A	32418763	A	A	32418763	2	1	69	1	0	0	0	0	0	0	0	1	4788	874	31	2		2	DTNA	18	32418763	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	662	32418763	45658485	210	27112										
PIK3C3	5289	broad.mit.edu	37	chr18	39607454	39607454	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agatactcagcagagagatcCaaagacccatgagatgtact	9	9	1	5			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr18:39607454C>T	uc002lap.2	+	14	1590	c.1532C>T	c.(1531-1533)CCA>CTA	p.P511L	PIK3C3_uc010xcl.1_Missense_Mutation_p.P448L|PIK3C3_uc002laq.2_5'UTR	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	511					cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						CAGAGAGATCCAAAGACCCAT	0.323										TSP Lung(28;0.18)			3	38	---	---	---	---	PASS	T	39607454	T	T	39607454	3	4	69	1	0	0	0	0	1	0	0	0	11912	594	21	3	1586	3	PIK3C3	18	39607454	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	7188691	39607454	38469794	211	27113										
RAX	30062	broad.mit.edu	37	chr18	56939713	56939713	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agctggtacgtggtgaaagtCgtgcggttccgccgatgctt	15	9	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr18:56939713C>A	uc002lhx.2	-	2	610	c.423G>T	c.(421-423)ACG>ACT	p.T141T	RAX_uc010dpp.2_Intron	NM_013435	NP_038463	Q9Y2V3	RX_HUMAN	retina and anterior neural fold homeobox	141	Homeobox.				visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1		Lung NSC(161;0.0804)|Colorectal(73;0.0946)		STAD - Stomach adenocarcinoma(84;0.18)		TGGTGAAAGTCGTGCGGTTCC	0.652													22	67	---	---	---	---	PASS	A	56939713	A	A	56939713	2	1	69	1	0	0	0	0	0	0	0	1	13096	871	31	2		2	RAX	18	56939713	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	17332259	56939713	21137535	212	27114										
DSEL	92126	broad.mit.edu	37	chr18	65178337	65178337	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ttggtgatatttccccttcaTagggaaggtaaaaaaggttt	10	5	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr18:65178337T>C	uc002lke.1	-	2	4763	c.3539A>G	c.(3538-3540)TAT>TGT	p.Y1180C		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	1170						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				TTCCCCTTCATAGGGAAGGTA	0.358													9	40	---	---	---	---	PASS	C	65178337	C	C	65178337	3	2	69	1	0	0	0	0	1	0	0	0	4775	1406	49	5	133	5	DSEL	18	65178337	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	8238624	65178337	12898911	213	27115										
UHRF1	29128	broad.mit.edu	37	chr19	4932887	4932887	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ccccgacaaccccaaggagcGgggcttctggtacgacgcgg	14	15	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:4932887G>A	uc002mbo.2	+	5	872	c.704G>A	c.(703-705)CGG>CAG	p.R235Q	UHRF1_uc010xik.1_Intron|UHRF1_uc010duf.2_RNA|UHRF1_uc002mbp.2_Missense_Mutation_p.R248Q	NM_001048201	NP_001041666	Q96T88	UHRF1_HUMAN	ubiquitin-like with PHD and ring finger domains	235					cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)		CCCAAGGAGCGGGGCTTCTGG	0.667													11	43	---	---	---	---	PASS	A	4932887	A	A	4932887	3	1	69	1	0	0	0	0	1	0	0	0	16964	1116	39	1	757	1	UHRF1	19	4932887	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08		4932887	54196096	214	27116										
TNFSF14	8740	broad.mit.edu	37	chr19	6669937	6669937	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ccttggacggccagcccggcCcccatcagcaacagcaagag	11	17	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:6669937C>A	uc002mfk.1	-	2	526	c.144G>T	c.(142-144)GGG>GGT	p.G48G	TNFSF14_uc002mfj.1_Intron	NM_003807	NP_003798	O43557	TNF14_HUMAN	tumor necrosis factor ligand superfamily, member	48	Helical; Signal-anchor for type II membrane protein; (Potential).				cellular response to mechanical stimulus|immune response|induction of apoptosis|release of cytoplasmic sequestered NF-kappaB|T cell homeostasis|T cell proliferation	cytoplasm|extracellular space|integral to membrane|plasma membrane	caspase inhibitor activity|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1						CCAGCCCGGCCCCCATCAGCA	0.662													4	104	---	---	---	---	PASS	A	6669937	A	A	6669937	2	1	69	1	0	0	0	0	0	0	0	1	16304	610	22	3		3	TNFSF14	19	6669937	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	1737050	6669937	52459046	215	27117										
MUC16	94025	broad.mit.edu	37	chr19	9056708	9056708	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atagtaaacctggattctggGaaggaggttatcccagtgga	13	6	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:9056708G>A	uc002mkp.2	-	3	30942	c.30738C>T	c.(30736-30738)TTC>TTT	p.F10246F		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10248	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGGATTCTGGGAAGGAGGTTA	0.458													16	54	---	---	---	---	PASS	A	9056708	A	A	9056708	2	1	69	1	0	0	0	0	0	0	0	1	9973	1165	41	2		2	MUC16	19	9056708	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	2386771	9056708	50072275	216	27118										
MUC16	94025	broad.mit.edu	37	chr19	9060853	9060853	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgtggaataaagtggcgaagGtgaggttactgcagataaag	15	3	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:9060853G>T	uc002mkp.2	-	3	26797	c.26593C>A	c.(26593-26595)CCT>ACT	p.P8865T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8867	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGTGGCGAAGGTGAGGTTACT	0.502													9	121	---	---	---	---	PASS	T	9060853	T	T	9060853	3	4	69	1	0	0	0	0	1	0	0	0	9973	1261	44	3	17258	3	MUC16	19	9060853	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	4145	9060853	50068130	217	27119										
CCDC151	115948	broad.mit.edu	37	chr19	11537596	11537596	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tccaggcggttctccaggttCcgcatggtctggagagcagc	14	12	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:11537596C>T	uc002mrs.2	-	5	764	c.621G>A	c.(619-621)CGG>CGA	p.R207R	CCDC151_uc002mrr.2_Silent_p.R142R|CCDC151_uc010dxz.2_Intron	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	207	Potential.									ovary(1)	1						TCTCCAGGTTCCGCATGGTCT	0.637													6	33	---	---	---	---	PASS	T	11537596	T	T	11537596	2	4	69	1	0	0	0	0	0	0	0	1	2786	842	30	2		2	CCDC151	19	11537596	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	2476743	11537596	47591387	218	27120										
ZNF44	51710	broad.mit.edu	37	chr19	12383611	12383611	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gcgacaaaagtatttaaaagAactaaatgctttcccacact	5	9	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:12383611A>T	uc010xmj.1	-	5	1808	c.1603T>A	c.(1603-1605)TCT>ACT	p.S535T	ZNF44_uc002mtl.2_Intron|ZNF44_uc010dyr.1_Intron|ZNF44_uc010xmi.1_RNA|ZNF44_uc002mtn.3_RNA|ZNF44_uc010dys.2_Missense_Mutation_p.S487T	NM_001164276	NP_001157748	P15621	ZNF44_HUMAN	zinc finger protein 44 isoform 1	535	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		Renal(1328;0.157)		GBM - Glioblastoma multiforme(1328;0.0164)|Lung(535;0.179)		TATTTAAAAGAACTAAATGCT	0.353													6	83	---	---	---	---	PASS	T	12383611	T	T	12383611	3	4	69	1	0	0	0	0	1	0	0	0	17909	246	9	5	392	5	ZNF44	19	12383611	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	846015	12383611	46745372	219	27121										
C19orf57	79173	broad.mit.edu	37	chr19	14003963	14003963	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ggacgagctcacctgggaagGaggaaggggagctggctcct	18	9	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:14003963G>C	uc002mxl.1	-	4	339	c.280C>G	c.(280-282)CCT>GCT	p.P94A	C19orf57_uc002mxk.1_5'Flank|C19orf57_uc002mxm.1_Missense_Mutation_p.P94A	NM_024323	NP_077299	Q0VDD7	CS057_HUMAN	hypothetical protein LOC79173	94					multicellular organismal development		protein binding			ovary(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			ACCTGGGAAGGAGGAAGGGGA	0.537													17	12	---	---	---	---	PASS	C	14003963	C	C	14003963	3	2	69	1	0	0	0	0	1	0	0	0	1939	1174	41	2	1653	2	C19orf57	19	14003963	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	1620352	14003963	45125020	220	27122										
NOTCH3	4854	broad.mit.edu	37	chr19	15271654	15271654	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	attcggaccagtctgagaggGagggaggtgaggggctggcc	20	7	1	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:15271654G>C	uc002nan.2	-	33	6861	c.6785C>G	c.(6784-6786)TCC>TGC	p.S2262C		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	2262	Cytoplasmic (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			GTCTGAGAGGGAGGGAGGTGA	0.672													12	77	---	---	---	---	PASS	C	15271654	C	C	15271654	3	2	69	1	0	0	0	0	1	0	0	0	10550	1174	41	2	184	2	NOTCH3	19	15271654	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	1267691	15271654	43857329	221	27123										
NWD1	284434	broad.mit.edu	37	chr19	16860592	16860592	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ggggacgtcacaaatgagctCagatgcccgtggcctgctga	14	11	2	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:16860592C>G	uc002neu.3	+	6	1561	c.1139C>G	c.(1138-1140)TCA>TGA	p.S380*	NWD1_uc002net.3_Nonsense_Mutation_p.S245*|NWD1_uc002nev.3_Nonsense_Mutation_p.S174*			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	380	NACHT.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						CAAATGAGCTCAGATGCCCGT	0.632													3	35	---	---	---	---	PASS	G	16860592	G	G	16860592	4	3	69	1	0	0	0	0	0	1	0	0	10781	838	29	2	740	2	NWD1	19	16860592	Nonsense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	1588938	16860592	42268391	222	27124										
ZNF714	148206	broad.mit.edu	37	chr19	21299983	21299983	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	attcatattagagagaattcTtaccaatgtgaagaatgtga	8	4	2	5			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:21299983T>G	uc002npo.3	+	6	876	c.516T>G	c.(514-516)TCT>TCG	p.S172S	ZNF714_uc002npl.2_Silent_p.S17S|ZNF714_uc010ecp.1_Silent_p.S123S|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAGAGAATTCTTACCAATGTG	0.338													7	69	---	---	---	---	PASS	G	21299983	G	G	21299983	2	3	69	1	0	0	0	0	0	0	0	1	18115	1596	56	5		5	ZNF714	19	21299983	Silent	SNP	T	TCGA-34-5236-01A-21D-1817-08	4439391	21299983	37829000	223	27125										
ZNF507	22847	broad.mit.edu	37	chr19	32844259	32844259	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aggaacttgaagcccacgtgGtgaatgaccatgacaatgat	11	8	0	5			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:32844259G>C	uc002nte.2	+	3	795	c.523G>C	c.(523-525)GTG>CTG	p.V175L	ZNF507_uc002ntc.2_Missense_Mutation_p.V175L|ZNF507_uc010xrn.1_Missense_Mutation_p.V175L|ZNF507_uc002ntd.2_Missense_Mutation_p.V175L	NM_001136156	NP_001129628	Q8TCN5	ZN507_HUMAN	zinc finger protein 507	175	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|kidney(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(110;0.162)					AGCCCACGTGGTGAATGACCA	0.453													15	76	---	---	---	---	PASS	C	32844259	C	C	32844259	3	2	69	1	0	0	0	0	1	0	0	0	17950	1261	44	4	525	4	ZNF507	19	32844259	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	11544276	32844259	26284724	224	27126										
RYR1	6261	broad.mit.edu	37	chr19	38949935	38949935	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tctttgagtccttcaacctgGacgggctcttcttccctgtt	8	13	4	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:38949935G>T	uc002oit.2	+	19	2447	c.2317G>T	c.(2317-2319)GAC>TAC	p.D773Y	RYR1_uc002oiu.2_Missense_Mutation_p.D773Y	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	773	Cytoplasmic.|B30.2/SPRY 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CTTCAACCTGGACGGGCTCTT	0.597													4	48	---	---	---	---	PASS	T	38949935	T	T	38949935	3	4	69	1	0	0	0	0	1	0	0	0	13768	1174	41	2	2391	2	RYR1	19	38949935	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	6105676	38949935	20179048	225	27127										
ZNF780B	163131	broad.mit.edu	37	chr19	40541220	40541220	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aatactctgatgttgaacaaGgttcgagccacgattgaagg	11	7	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:40541220G>C	uc002omu.2	-	5	1611	c.1546C>G	c.(1546-1548)CTT>GTT	p.L516V	ZNF780B_uc002omv.2_Missense_Mutation_p.L368V	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	516	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TGTTGAACAAGGTTCGAGCCA	0.428													6	53	---	---	---	---	PASS	C	40541220	C	C	40541220	3	2	69	1	0	0	0	0	1	0	0	0	18150	1000	35	4	959	4	ZNF780B	19	40541220	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	1591285	40541220	18587763	226	27128										
ZNF780A	284323	broad.mit.edu	37	chr19	40581599	40581599	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gacttcccacattccttacaTtcaaacagtttctcacctgt	3	14	2	0	rs140183562	byFrequency	TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:40581599T>G	uc002omy.2	-	6	975	c.750A>C	c.(748-750)GAA>GAC	p.E250D	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.E250D|ZNF780A_uc010xvh.1_Missense_Mutation_p.E251D	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	250	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					ATTCCTTACATTCAAACAGTT	0.393													4	158	---	---	---	---	PASS	G	40581599	G	G	40581599	3	3	69	1	0	0	0	0	1	0	0	0	18149	1490	52	5	1306	5	ZNF780A	19	40581599	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	40379	40581599	18547384	227	27129										
PSG3	5671	broad.mit.edu	37	chr19	43234133	43234133	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agttctcactcttaggttcaCaggtgaaggctaagacatcc	9	10	3	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:43234133C>A	uc002oue.2	-	4	917	c.785G>T	c.(784-786)TGT>TTT	p.C262F	PSG3_uc002ouf.2_RNA|PSG1_uc002oug.1_Intron|PSG3_uc010eil.2_Missense_Mutation_p.C284F	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	262	Ig-like C2-type 2.				defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				CTTAGGTTCACAGGTGAAGGC	0.488													33	218	---	---	---	---	PASS	A	43234133	A	A	43234133	3	1	69	1	0	0	0	0	1	0	0	0	12656	478	17	3	513	3	PSG3	19	43234133	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	2652534	43234133	15894850	228	27130										
IRGC	56269	broad.mit.edu	37	chr19	44223251	44223251	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tggcggccacgcgcacccagCggccgtcgggcttcagagag	16	15	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:44223251C>A	uc002oxh.2	+	2	688	c.541C>A	c.(541-543)CGG>AGG	p.R181R		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	181						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				GCGCACCCAGCGGCCGTCGGG	0.682													7	39	---	---	---	---	PASS	A	44223251	A	A	44223251	2	1	69	1	0	0	0	0	0	0	0	1	7838	759	27	1		1	IRGC	19	44223251	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	989118	44223251	14905732	229	27131										
SYMPK	8189	broad.mit.edu	37	chr19	46338488	46338488	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	acaccatgctgatgaggaccTgtgggatgcccaggaagaga	14	9	0	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:46338488T>G	uc002pdn.2	-	11	1488	c.1243_splice	c.e11-1	p.V415_splice	SYMPK_uc002pdo.1_Splice_Site_p.V415_splice|SYMPK_uc002pdp.1_Splice_Site_p.V415_splice|SYMPK_uc002pdq.1_Splice_Site_p.V415_splice	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin						cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		GATGAGGACCTGTGGGATGCC	0.398													6	80	---	---	---	---	PASS	G	46338488	G	G	46338488	5	3	69	1	0	0	0	0	0	0	1	0	15436	1594	55	5	2651	5	SYMPK	19	46338488	Splice_Site	SNP	T	TCGA-34-5236-01A-21D-1817-08	2115237	46338488	12790495	230	27132										
SLC17A7	57030	broad.mit.edu	37	chr19	49939821	49939821	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gctacctgcaccaccacgtgGcccccgcggtgggtcgtgct	13	17	0	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:49939821G>A	uc002pnp.2	-	2	472	c.300C>T	c.(298-300)GGC>GGT	p.G100G	SLC17A7_uc002pnq.1_Silent_p.G33G	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	100	Extracellular (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		CCACCACGTGGCCCCCGCGGT	0.647													4	57	---	---	---	---	PASS	A	49939821	A	A	49939821	2	1	69	1	0	0	0	0	0	0	0	1	14422	1190	42	3		3	SLC17A7	19	49939821	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08	3601333	49939821	9189162	231	27133										
SHANK1	50944	broad.mit.edu	37	chr19	51215370	51215370	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aacccccaaggtccaggagcGcctaggaacggagagagaac	13	12	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:51215370G>A	uc002psx.1	-	6	813	c.794C>T	c.(793-795)GCG>GTG	p.A265V		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	265	ANK 2.				cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GTCCAGGAGCGCCTAGGAACG	0.602													6	63	---	---	---	---	PASS	A	51215370	A	A	51215370	3	1	69	1	0	0	0	0	1	0	0	0	14264	1101	38	1	5763	1	SHANK1	19	51215370	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	1275549	51215370	7913613	232	27134										
SIGLEC6	946	broad.mit.edu	37	chr19	52023493	52023493	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctgaaactatgcctgtctggAactggtgctgatgaccctta	10	10	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:52023493A>T	uc002pwy.2	-	8	1367	c.1205T>A	c.(1204-1206)TTC>TAC	p.F402Y	SIGLEC6_uc002pwz.2_Missense_Mutation_p.F386Y|SIGLEC6_uc002pxa.2_Silent_p.V343V|SIGLEC6_uc010ydb.1_Missense_Mutation_p.F339Y|SIGLEC6_uc010ydc.1_Missense_Mutation_p.S375T|SIGLEC6_uc010eoz.1_Silent_p.V321V	NM_001245	NP_001236	O43699	SIGL6_HUMAN	sialic acid binding Ig-like lectin 6 isoform 1	402	Cytoplasmic (Potential).				cell adhesion|cell-cell signaling	cytoplasm|extracellular region|integral to plasma membrane|membrane fraction|nucleus				ovary(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00115)|OV - Ovarian serous cystadenocarcinoma(262;0.0165)		GCCTGTCTGGAACTGGTGCTG	0.498													7	175	---	---	---	---	PASS	T	52023493	T	T	52023493	3	4	69	1	0	0	0	0	1	0	0	0	14312	246	9	5	160	5	SIGLEC6	19	52023493	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	808123	52023493	7105490	233	27135										
NLRP12	91662	broad.mit.edu	37	chr19	54313840	54313840	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	agcccaggatctccacatgcCtggggtgctccagcagacgg	13	14	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:54313840C>T	uc002qch.3	-	3	1293	c.1073G>A	c.(1072-1074)AGG>AAG	p.R358K	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Missense_Mutation_p.R358K|NLRP12_uc002qcj.3_Missense_Mutation_p.R358K|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.R358K	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	358	NACHT.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		CTCCACATGCCTGGGGTGCTC	0.527													35	173	---	---	---	---	PASS	T	54313840	T	T	54313840	3	4	69	1	0	0	0	0	1	0	0	0	10474	681	24	3	2240	3	NLRP12	19	54313840	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08	2290347	54313840	4815143	234	27136										
ZNF460	10794	broad.mit.edu	37	chr19	57802790	57802790	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ggcctttacctaccgctccaAttttgtcttgcataacaaga	6	12	1	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:57802790A>T	uc002qog.2	+	3	1203	c.881A>T	c.(880-882)AAT>ATT	p.N294I	ZNF460_uc010ygv.1_Missense_Mutation_p.N253I	NM_006635	NP_006626	Q14592	ZN460_HUMAN	zinc finger protein 460	294	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TACCGCTCCAATTTTGTCTTG	0.483													17	80	---	---	---	---	PASS	T	57802790	T	T	57802790	3	4	69	1	0	0	0	0	1	0	0	0	17921	101	4	5	891	5	ZNF460	19	57802790	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	3488950	57802790	1326193	235	27137										
ZNF548	147694	broad.mit.edu	37	chr19	57909941	57909941	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gtggcccacccttgaaagacAttctgtgcctggttgagcac	11	12	1	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr19:57909941A>G	uc002qom.2	+	3	536	c.286A>G	c.(286-288)ATT>GTT	p.I96V	ZNF547_uc002qpm.3_Intron|ZNF548_uc002qon.2_Missense_Mutation_p.I99V	NM_152909	NP_690873	Q8NEK5	ZN548_HUMAN	zinc finger protein 548	96					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CTTGAAAGACATTCTGTGCCT	0.468													9	104	---	---	---	---	PASS	G	57909941	G	G	57909941	3	3	69	1	0	0	0	0	1	0	0	0	17977	217	8	5	336	5	ZNF548	19	57909941	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	107151	57909941	1219042	236	27138										
PLCB1	23236	broad.mit.edu	37	chr20	8713910	8713910	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gctatgcaaataaatatgggGatgtatgaatacaacgggaa	11	4	0	1	rs11484096		TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr20:8713910G>A	uc002wnb.2	+	19	1917	c.1914G>A	c.(1912-1914)GGG>GGA	p.G638G	PLCB1_uc010zrb.1_Silent_p.G537G|PLCB1_uc002wna.2_Silent_p.G638G|PLCB1_uc002wnc.1_Silent_p.G537G|PLCB1_uc002wnd.1_Silent_p.G215G	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	638	PI-PLC Y-box.				activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TAAATATGGGGATGTATGAAT	0.393													9	68	---	---	---	---	PASS	A	8713910	A	A	8713910	2	1	69	1	0	0	0	0	0	0	0	1	12027	1161	41	2		2	PLCB1	20	8713910	Silent	SNP	G	TCGA-34-5236-01A-21D-1817-08		8713910	54311610	237	27139										
RBL1	5933	broad.mit.edu	37	chr20	35696516	35696516	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	atttctctctagcctttctaTacgttcacgaaattcttgtg	5	10	5	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr20:35696516T>C	uc002xgi.2	-	3	443	c.364A>G	c.(364-366)ATA>GTA	p.I122V	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.I122V|RBL1_uc010gfv.1_RNA	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	122					cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				AGCCTTTCTATACGTTCACGA	0.284													7	42	---	---	---	---	PASS	C	35696516	C	C	35696516	3	2	69	1	0	0	0	0	1	0	0	0	13109	1406	49	5	2931	5	RBL1	20	35696516	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	26982606	35696516	27329004	238	27140										
NCOA5	57727	broad.mit.edu	37	chr20	44691090	44691090	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tgtcaaagttgatacctgtgGaagacacaggcctctggcta	11	9	2	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr20:44691090G>C	uc002xrd.2	-	7	2117	c.1589C>G	c.(1588-1590)TCC>TGC	p.S530C	NCOA5_uc002xrc.2_3'UTR|NCOA5_uc002xre.2_Missense_Mutation_p.S530C	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	530	Transcription activation.				regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				GATACCTGTGGAAGACACAGG	0.572													17	32	---	---	---	---	PASS	C	44691090	C	C	44691090	3	2	69	1	0	0	0	0	1	0	0	0	10232	1174	41	2	154	2	NCOA5	20	44691090	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	8994574	44691090	18334430	239	27141										
RAE1	8480	broad.mit.edu	37	chr20	55948590	55948590	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cctactggttttgccctgggAagtatcgaggggagagttgc	15	8	0	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr20:55948590A>T	uc002xyg.2	+	9	1043	c.702A>T	c.(700-702)GGA>GGT	p.G234G	RAE1_uc010gis.1_Silent_p.G187G|RAE1_uc010git.1_Silent_p.G234G|RAE1_uc002xyh.2_Silent_p.G234G|RAE1_uc002xyi.2_Silent_p.G234G	NM_003610	NP_003601	P78406	RAE1L_HUMAN	RAE1 (RNA export 1, S.pombe) homolog	234					carbohydrate metabolic process|glucose transport|mRNA export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|cytoskeleton|nuclear outer membrane|nuclear pore	microtubule binding|RNA binding				0	Lung NSC(12;0.00263)|all_lung(29;0.00828)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;3.7e-14)|Epithelial(14;1.07e-09)|all cancers(14;1.11e-08)			TTGCCCTGGGAAGTATCGAGG	0.408													13	123	---	---	---	---	PASS	T	55948590	T	T	55948590	2	4	69	1	0	0	0	0	0	0	0	1	12998	233	9	5		5	RAE1	20	55948590	Silent	SNP	A	TCGA-34-5236-01A-21D-1817-08	11257500	55948590	7076930	240	27142										
RBM11	54033	broad.mit.edu	37	chr21	15599537	15599537	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aaaagcaaacaagtgatagtGatagtagcacagacaacaac	8	7	0	3			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr21:15599537G>C	uc002yjo.3	+	5	811	c.769G>C	c.(769-771)GAT>CAT	p.D257H	RBM11_uc002yjn.3_Missense_Mutation_p.D143H|RBM11_uc002yjp.3_Missense_Mutation_p.D143H	NM_144770	NP_658983	P57052	RBM11_HUMAN	RNA binding motif protein 11	257							nucleotide binding|RNA binding				0				Epithelial(23;0.000314)|COAD - Colon adenocarcinoma(22;0.00242)|Colorectal(24;0.0129)|Lung(58;0.141)		AAGTGATAGTGATAGTAGCAC	0.388													5	148	---	---	---	---	PASS	C	15599537	C	C	15599537	3	2	69	1	0	0	0	0	1	0	0	0	13112	1290	45	2	787	2	RBM11	21	15599537	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08		15599537	32530358	241	27143										
NCAM2	4685	broad.mit.edu	37	chr21	22746206	22746206	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctggacggccgtatcgaagtCaaagggcagcatggaagctc	14	10	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr21:22746206C>A	uc002yld.1	+	9	1317	c.1068C>A	c.(1066-1068)GTC>GTA	p.V356V	NCAM2_uc011acb.1_Silent_p.V214V|NCAM2_uc011acc.1_Silent_p.V381V	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	356	Ig-like C2-type 4.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		GTATCGAAGTCAAAGGGCAGC	0.423													16	54	---	---	---	---	PASS	A	22746206	A	A	22746206	2	1	69	1	0	0	0	0	0	0	0	1	10203	813	29	2		2	NCAM2	21	22746206	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	7146669	22746206	25383689	242	27144										
DSCAM	1826	broad.mit.edu	37	chr21	41385159	41385159	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gcggaggaggcggcttccatCgggatgggctccaggaccgt	18	11	0	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr21:41385159C>T	uc002yyq.1	-	33	6293	c.5841G>A	c.(5839-5841)CCG>CCA	p.P1947P	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1947	Cytoplasmic (Potential).			HRPGDLIHLPPYLRMDFLLNRGGPGTSRDLSLGQACLEPQK SRTLKRPTVLEPIPMEAASSASSTREGQSWQPGAVATLPQR EGAELGQAAKMSSSQESLLDSRGHLKGNNPYAKSYTLV -> IGQVTSYICLHTLEWTFC (in Ref. 1; AAC17966).	cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CGGCTTCCATCGGGATGGGCT	0.657													12	31	---	---	---	---	PASS	T	41385159	T	T	41385159	2	4	69	1	0	0	0	0	0	0	0	1	4768	871	31	2		2	DSCAM	21	41385159	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	18638953	41385159	6744736	243	27145										
PITPNB	23760	broad.mit.edu	37	chr22	28293859	28293859	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gagccctcgggagcaatcatCctcacgaatgcaggcacttt	10	13	2	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr22:28293859C>G	uc003adk.2	-	4	295	c.219G>C	c.(217-219)AGG>AGC	p.R73S	PITPNB_uc011akh.1_Missense_Mutation_p.R75S|PITPNB_uc003adl.2_Missense_Mutation_p.R73S	NM_012399	NP_036531	P48739	PIPNB_HUMAN	phosphatidylinositol transfer protein, beta	73					lipid metabolic process|transport	Golgi apparatus	lipid binding			skin(1)	1						GAGCAATCATCCTCACGAATG	0.478													27	113	---	---	---	---	PASS	G	28293859	G	G	28293859	3	3	69	1	0	0	0	0	1	0	0	0	11948	854	30	2	628	2	PITPNB	22	28293859	Missense_Mutation	SNP	C	TCGA-34-5236-01A-21D-1817-08		28293859	23010707	244	27146										
C22orf30	253143	broad.mit.edu	37	chr22	32072807	32072807	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ccctccccgctctccagcccGgcaggtaccagcaaaggact	9	19	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr22:32072807G>A	uc003alo.1	-	6	5830	c.5774C>T	c.(5773-5775)CCG>CTG	p.P1925L		NM_173566	NP_775837	Q5THK1	PR14L_HUMAN	hypothetical protein LOC253143	Error:Variant_position_missing_in_Q5THK1_after_alignment											0						TCTCCAGCCCGGCAGGTACCA	0.463													5	15	---	---	---	---	PASS	A	32072807	A	A	32072807	3	1	69	1	0	0	0	0	1	0	0	0	2142	1131	39	1		1	C22orf30	22	32072807	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	3778948	32072807	19231759	245	27147										
MYH9	4627	broad.mit.edu	37	chr22	36715597	36715597	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ggtgttacctgtgttgtcggGcatggacgcctggtcagtgt	16	8	1	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr22:36715597G>A	uc003apg.2	-	10	1327	c.1096C>T	c.(1096-1098)CCC>TCC	p.P366S	MYH9_uc003aph.1_Missense_Mutation_p.P230S	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	366	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GTGTTGTCGGGCATGGACGCC	0.577			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				3	39	---	---	---	---	PASS	A	36715597	A	A	36715597	3	1	69	1	0	0	0	0	1	0	0	0	10042	1203	42	3	4914	3	MYH9	22	36715597	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	4642790	36715597	14588969	246	27148										
MYH9	4627	broad.mit.edu	37	chr22	36723505	36723505	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cccagacggagaaatacttaCgtgcacaagatggattgatc	10	9	0	4			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr22:36723505C>T	uc003apg.2	-	4	749	c.518_splice	c.e4+1	p.T173_splice	MYH9_uc003aph.1_Splice_Site_p.T37_splice|MYH9_uc003api.1_Splice_Site_p.T173_splice	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle						actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GAAATACTTACGTGCACAAGA	0.502			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				13	48	---	---	---	---	PASS	T	36723505	T	T	36723505	5	4	69	1	0	0	0	0	0	0	1	0	10042	550	19	1	5515	1	MYH9	22	36723505	Splice_Site	SNP	C	TCGA-34-5236-01A-21D-1817-08	7908	36723505	14581061	247	27149										
SSTR3	6753	broad.mit.edu	37	chr22	37603337	37603337	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gcaccaccacggctgaggccAcccacacagccgcgctgacc	10	20	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr22:37603337A>T	uc003ara.2	-	2	568	c.506T>A	c.(505-507)GTG>GAG	p.V169E	SSTR3_uc003arb.2_Missense_Mutation_p.V169E	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	169	Helical; Name=4; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						GGCTGAGGCCACCCACACAGC	0.731													10	52	---	---	---	---	PASS	T	37603337	T	T	37603337	3	4	69	1	0	0	0	0	1	0	0	0	15198	159	6	5	754	5	SSTR3	22	37603337	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	879832	37603337	13701229	248	27150										
MCAT	27349	broad.mit.edu	37	chr22	43533133	43533133	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	aatctggaaagaggtagttgGacacttcacatacggggttc	12	7	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chr22:43533133G>C	uc003bdl.1	-	3	732	c.683C>G	c.(682-684)TCC>TGC	p.S228C	MCAT_uc003bdm.1_Intron	NM_173467	NP_775738	Q8IVS2	FABD_HUMAN	mitochondrial malonyltransferase isoform a	228					fatty acid biosynthetic process	mitochondrion	[acyl-carrier-protein] S-malonyltransferase activity|binding			ovary(1)	1		Ovarian(80;0.0694)				GAGGTAGTTGGACACTTCACA	0.527											OREG0026613	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	197	---	---	---	---	PASS	C	43533133	C	C	43533133	3	2	69	1	0	0	0	0	1	0	0	0	9372	1174	41	2	497	2	MCAT	22	43533133	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	5929796	43533133	7771433	249	27151										
MID1	4281	broad.mit.edu	37	chrX	10535112	10535112	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	gaattggctcaatcagacgaTggcctgtaaagggcttctta	11	8	3	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chrX:10535112T>C	uc004cte.3	-	2	667	c.476A>G	c.(475-477)CAT>CGT	p.H159R	MID1_uc004ctd.3_5'Flank|MID1_uc004ctg.3_Missense_Mutation_p.H159R|MID1_uc004cth.3_Missense_Mutation_p.H159R|MID1_uc004ctk.3_Missense_Mutation_p.H159R|MID1_uc004cti.3_Missense_Mutation_p.H159R|MID1_uc004ctj.3_Missense_Mutation_p.H159R|MID1_uc011mie.1_RNA|MID1_uc004ctm.1_Missense_Mutation_p.H159R|MID1_uc004ctn.1_Missense_Mutation_p.H159R|MID1_uc004cto.1_Missense_Mutation_p.H159R|MID1_uc010ndw.1_5'Flank|MID1_uc004cts.1_5'Flank|MID1_uc004ctt.2_Missense_Mutation_p.H159R|MID1_uc004ctu.2_Missense_Mutation_p.H159R|MID1_uc004ctv.2_Missense_Mutation_p.H159R|MID1_uc004ctw.2_Missense_Mutation_p.H159R|MID1_uc010ndy.1_Missense_Mutation_p.H159R|uc010ndz.1_5'Flank|MID1_uc004cty.2_Missense_Mutation_p.H159R|MID1_uc004ctz.1_5'Flank|MID1_uc004cua.1_RNA|MID1_uc004cub.1_Missense_Mutation_p.H159R|MID1_uc010nea.1_Intron|MID1_uc004cuc.1_Missense_Mutation_p.H159R|MID1_uc004cud.1_Missense_Mutation_p.H159R|MID1_uc004cue.1_Missense_Mutation_p.H159R|MID1_uc004cuf.1_Missense_Mutation_p.H159R|MID1_uc004cug.1_Missense_Mutation_p.H159R	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1	159	B box-type 1.	Zinc 2.			microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3						AATCAGACGATGGCCTGTAAA	0.527													3	37	---	---	---	---	PASS	C	10535112	C	C	10535112	3	2	69	1	0	0	0	0	1	0	0	0	9576	1464	51	5	1563	5	MID1	23	10535112	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08		10535112	144735448	250	27152										
DMD	1756	broad.mit.edu	37	chrX	31514965	31514965	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	cctccaataggtgcctgccgGcttaattcatcatctttcag	7	13	4	0			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chrX:31514965G>T	uc004dda.1	-	57	8731	c.8487C>A	c.(8485-8487)AGC>AGA	p.S2829R	DMD_uc004dcq.1_Missense_Mutation_p.S100R|DMD_uc004dcr.1_Missense_Mutation_p.S369R|DMD_uc004dcs.1_Missense_Mutation_p.S369R|DMD_uc004dct.1_Missense_Mutation_p.S369R|DMD_uc004dcu.1_Missense_Mutation_p.S369R|DMD_uc004dcv.1_Missense_Mutation_p.S369R|DMD_uc004dcw.2_Missense_Mutation_p.S1485R|DMD_uc004dcx.2_Missense_Mutation_p.S1488R|DMD_uc004dcz.2_Missense_Mutation_p.S2706R|DMD_uc004dcy.1_Missense_Mutation_p.S2825R|DMD_uc004ddb.1_Missense_Mutation_p.S2821R	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2829	Spectrin 20.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GTGCCTGCCGGCTTAATTCAT	0.498													12	25	---	---	---	---	PASS	T	31514965	T	T	31514965	3	4	69	1	0	0	0	0	1	0	0	0	4580	1194	42	3	2776	3	DMD	23	31514965	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	20979853	31514965	123755595	251	27153										
SHROOM4	57477	broad.mit.edu	37	chrX	50377041	50377041	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tcgtccctctaagcctgtccTagattcatggctctcagggg	10	13	3	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chrX:50377041T>C	uc004dpe.2	-	4	2058	c.2032A>G	c.(2032-2034)AGG>GGG	p.R678G	SHROOM4_uc004dpd.3_RNA|SHROOM4_uc004dpf.1_Missense_Mutation_p.R562G	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	678					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					AAGCCTGTCCTAGATTCATGG	0.562													6	15	---	---	---	---	PASS	C	50377041	C	C	50377041	3	2	69	1	0	0	0	0	1	0	0	0	14296	1521	53	5	2473	5	SHROOM4	23	50377041	Missense_Mutation	SNP	T	TCGA-34-5236-01A-21D-1817-08	18862076	50377041	104893519	252	27154										
TBX22	50945	broad.mit.edu	37	chrX	79281249	79281249	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tttgatcgcatgaaactcacCaacaatgagatggatgacaa	8	8	1	4			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chrX:79281249C>A	uc010nmg.1	+	5	740	c.606C>A	c.(604-606)ACC>ACA	p.T202T	TBX22_uc004edi.1_Silent_p.T82T|TBX22_uc004edj.1_Silent_p.T202T	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	202	T-box.				multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						TGAAACTCACCAACAATGAGA	0.542													3	13	---	---	---	---	PASS	A	79281249	A	A	79281249	2	1	69	1	0	0	0	0	0	0	0	1	15655	581	21	3		3	TBX22	23	79281249	Silent	SNP	C	TCGA-34-5236-01A-21D-1817-08	28904208	79281249	75989311	253	27155										
XIAP	331	broad.mit.edu	37	chrX	123040952	123040952	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	tggacatctagtcacttgtaAacaatgtgctgaagcagttg	10	7	2	1			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chrX:123040952A>G	uc010nqu.2	+	7	1541	c.1415A>G	c.(1414-1416)AAA>AGA	p.K472R	XIAP_uc004etx.2_Missense_Mutation_p.K472R|XIAP_uc010nqv.2_Missense_Mutation_p.K98R	NM_001167	NP_001158	P98170	XIAP_HUMAN	baculoviral IAP repeat-containing protein 4	472	RING-type.				anti-apoptosis|apoptosis|induction of apoptosis by intracellular signals|response to DNA damage stimulus	cytosol	caspase inhibitor activity|ligase activity|protein binding|zinc ion binding			ovary(1)|lung(1)	2						GTCACTTGTAAACAATGTGCT	0.388									X-linked_Lymphoproliferative_syndrome				4	34	---	---	---	---	PASS	G	123040952	G	G	123040952	3	3	69	1	0	0	0	0	1	0	0	0	17425	14	1	5	1437	5	XIAP	23	123040952	Missense_Mutation	SNP	A	TCGA-34-5236-01A-21D-1817-08	43759703	123040952	32229608	254	27156										
GAB3	139716	broad.mit.edu	37	chrX	153927772	153927772	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.104417670682731	26	0.0247201794067404	1.55853041796817	2.15796519410977	1.17707192405988	0.811646693938239	1	9	ctgaagctgtggggtacatcGgggagaacctgcatggctgc	16	9	0	2			TCGA-34-5236-01A-21D-1817-08	TCGA-34-5236-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	46cb2de7-bbe1-4444-b17e-4c5677a05249	9ec4b506-a4ac-4cbd-b74d-5ac9b30782c7	g.chrX:153927772G>A	uc004fmj.1	-	6	1187	c.1139C>T	c.(1138-1140)CCG>CTG	p.P380L	GAB3_uc004fmk.1_Missense_Mutation_p.P381L|GAB3_uc010nve.1_Missense_Mutation_p.P381L|GAB3_uc004fml.1_5'UTR	NM_080612	NP_542179	Q8WWW8	GAB3_HUMAN	Gab3 protein isoform 2	380										ovary(1)	1	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GGGGTACATCGGGGAGAACCT	0.547													9	28	---	---	---	---	PASS	A	153927772	A	A	153927772	3	1	69	1	0	0	0	0	1	0	0	0	6150	1116	39	1	641	1	GAB3	23	153927772	Missense_Mutation	SNP	G	TCGA-34-5236-01A-21D-1817-08	30886820	153927772	1342788	255	27157										
MTOR	2475	broad.mit.edu	37	chr1	11181422	11181422	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	caagtggtcatagtccggagCcatctgcatcaggacacaac	10	12	3	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:11181422C>A	uc001asd.2	-	49	6935	c.6814G>T	c.(6814-6816)GCT>TCT	p.A2272S	MTOR_uc001asc.2_Missense_Mutation_p.A477S	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	2272	PI3K/PI4K.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TAGTCCGGAGCCATCTGCATC	0.527													14	57	---	---	---	---	PASS	A	11181422	A	A	11181422	3	1	70	1	0	0	0	0	1	0	0	0	9954	739	26	3	875	3	MTOR	1	11181422	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08		11181422	238069199	1	27158										
SESN2	83667	broad.mit.edu	37	chr1	28599167	28599167	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tggtcctgctcacccactgcCactcgctctcctccttcgtg	7	19	2	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:28599167C>T	uc001bps.2	+	5	966	c.613C>T	c.(613-615)CAC>TAC	p.H205Y		NM_031459	NP_113647	P58004	SESN2_HUMAN	sestrin 2	205					cell cycle arrest	cytoplasm|nucleus				skin(3)|ovary(2)|pancreas(1)|lung(1)	7		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;4.76e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;2.98e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|READ - Rectum adenocarcinoma(331;0.0649)		CACCCACTGCCACTCGCTCTC	0.637													18	61	---	---	---	---	PASS	T	28599167	T	T	28599167	3	4	70	1	0	0	0	0	1	0	0	0	14125	594	21	3	631	3	SESN2	1	28599167	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	17417745	28599167	220651454	2	27159										
MACF1	23499	broad.mit.edu	37	chr1	39905023	39905023	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctgaagaacgagaaatcaaaTttcttgatgtccttgaatta	7	6	2	5			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:39905023T>C	uc010oiu.1	+	37	13758	c.13627T>C	c.(13627-13629)TTT>CTT	p.F4543L	MACF1_uc010ois.1_Missense_Mutation_p.F4041L	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)			AGAAATCAAATTTCTTGATGT	0.418													15	54	---	---	---	---	PASS	C	39905023	C	C	39905023	3	2	70	1	0	0	0	0	1	0	0	0	9144	1493	52	5	18542	5	MACF1	1	39905023	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	11305856	39905023	209345598	3	27160										
DNAJC6	9829	broad.mit.edu	37	chr1	65854059	65854059	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ccagcttcagtttcacactgGattcataccactggacacaa	6	13	3	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:65854059G>T	uc001dcd.1	+	9	1147	c.983G>T	c.(982-984)GGA>GTA	p.G328V	DNAJC6_uc001dcc.1_Missense_Mutation_p.G359V|DNAJC6_uc010opc.1_Missense_Mutation_p.G315V|DNAJC6_uc001dce.1_Missense_Mutation_p.G385V	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	328	C2 tensin-type.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						TTTCACACTGGATTCATACCA	0.393													35	70	---	---	---	---	PASS	T	65854059	T	T	65854059	3	4	70	1	0	0	0	0	1	0	0	0	4653	1174	41	2	1017	2	DNAJC6	1	65854059	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	25949036	65854059	183396562	4	27161										
LRRC7	57554	broad.mit.edu	37	chr1	70446061	70446061	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcctccccacttctctcccaGcctgaagttctggatcaaat	5	16	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:70446061G>A	uc001dep.2	+	7	628	c.598_splice	c.e7-1	p.P200_splice	LRRC7_uc009wbg.2_Splice_Site	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7							centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TTCTCTCCCAGCCTGAAGTTC	0.343													37	141	---	---	---	---	PASS	A	70446061	A	A	70446061	5	1	70	1	0	0	0	0	0	0	1	0	9020	985	34	3	623	3	LRRC7	1	70446061	Splice_Site	SNP	G	TCGA-34-5239-01A-21D-1817-08	4592002	70446061	178804560	5	27162										
LRRC7	57554	broad.mit.edu	37	chr1	70451935	70451935	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgtcatcaagtctatagggaAgttaaagatgttggtatacc	10	5	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:70451935A>T	uc001dep.2	+	8	713	c.683A>T	c.(682-684)AAG>ATG	p.K228M	LRRC7_uc009wbg.2_Translation_Start_Site	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	228	LRR 9.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TCTATAGGGAAGTTAAAGATG	0.358													6	33	---	---	---	---	PASS	T	70451935	T	T	70451935	3	4	70	1	0	0	0	0	1	0	0	0	9020	72	3	5	713	5	LRRC7	1	70451935	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	5874	70451935	178798686	6	27163										
C1orf173	127254	broad.mit.edu	37	chr1	75038652	75038652	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gctgctacttcatgaagatgCtccaagttcagggctgctgc	11	11	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:75038652C>A	uc001dgg.2	-	14	2961	c.2742G>T	c.(2740-2742)GAG>GAT	p.E914D		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	914	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CATGAAGATGCTCCAAGTTCA	0.542													40	212	---	---	---	---	PASS	A	75038652	A	A	75038652	3	1	70	1	0	0	0	0	1	0	0	0	2014	796	28	3	1854	3	C1orf173	1	75038652	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	4586717	75038652	174211969	7	27164										
IFI44	10561	broad.mit.edu	37	chr1	79125075	79125075	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgaaggacagaattcattgtGtggcatttgtatttgatgcc	11	5	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:79125075G>T	uc001dip.3	+	6	1043	c.919G>T	c.(919-921)GTG>TTG	p.V307L	IFI44_uc010orr.1_Missense_Mutation_p.V307L|IFI44_uc010ors.1_Missense_Mutation_p.V24L	NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	307					response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2						AATTCATTGTGTGGCATTTGT	0.378													21	88	---	---	---	---	PASS	T	79125075	T	T	79125075	3	4	70	1	0	0	0	0	1	0	0	0	7517	1377	48	3	937	3	IFI44	1	79125075	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	4086423	79125075	170125546	8	27165										
ELTD1	64123	broad.mit.edu	37	chr1	79383532	79383532	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tacactttggttgtgccataAtatctgtatcctagtgctgc	8	9	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:79383532A>T	uc001diq.3	-	11	1821	c.1665T>A	c.(1663-1665)TAT>TAA	p.Y555*		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	555	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)		TTGTGCCATAATATCTGTATC	0.343													29	141	---	---	---	---	PASS	T	79383532	T	T	79383532	4	4	70	1	0	0	0	0	0	1	0	0	5084	108	4	5	427	5	ELTD1	1	79383532	Nonsense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	258457	79383532	169867089	9	27166										
TTLL7	79739	broad.mit.edu	37	chr1	84399338	84399338	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atccaacaaaatatcaaatcCcaggacttcaaagcagacac	4	12	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:84399338C>A	uc001djc.2	-	9	1396	c.1000G>T	c.(1000-1002)GGA>TGA	p.G334*	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_RNA|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	334	TTL.				cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		ATATCAAATCCCAGGACTTCA	0.413													22	125	---	---	---	---	PASS	A	84399338	A	A	84399338	4	1	70	1	0	0	0	0	0	1	0	0	16729	632	22	3	1715	3	TTLL7	1	84399338	Nonsense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	5015806	84399338	164851283	10	27167										
COL11A1	1301	broad.mit.edu	37	chr1	103352377	103352377	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	acataccatctgggaagtcaGgatggctgagttgcaggtct	13	8	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:103352377G>T	uc001dul.2	-	63	5162	c.4844C>A	c.(4843-4845)CCT>CAT	p.P1615H	COL11A1_uc001duk.2_Missense_Mutation_p.P811H|COL11A1_uc001dum.2_Missense_Mutation_p.P1627H|COL11A1_uc001dun.2_Missense_Mutation_p.P1576H|COL11A1_uc009weh.2_Missense_Mutation_p.P1499H	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1615	Fibrillar collagen NC1.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TGGGAAGTCAGGATGGCTGAG	0.433													32	138	---	---	---	---	PASS	T	103352377	T	T	103352377	3	4	70	1	0	0	0	0	1	0	0	0	3667	1000	35	3	596	3	COL11A1	1	103352377	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	18953039	103352377	145898244	11	27168										
ANKRD34A	284615	broad.mit.edu	37	chr1	145474235	145474235	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aggacccgcccccatgggcgGagaaagtgactagcgggggt	17	11	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:145474235G>A	uc001enq.1	+	4	2200	c.907G>A	c.(907-909)GAG>AAG	p.E303K	NBPF10_uc001emp.3_Intron|LIX1L_uc001enr.2_5'Flank	NM_001039888	NP_001034977	Q69YU3	AN34A_HUMAN	ankyrin repeat domain 34	303	Pro-rich.										0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CCCATGGGCGGAGAAAGTGAC	0.632													11	42	---	---	---	---	PASS	A	145474235	A	A	145474235	3	1	70	1	0	0	0	0	1	0	0	0	662	1175	41	2	909	2	ANKRD34A	1	145474235	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	42121858	145474235	103776386	12	27169										
LYSMD1	388695	broad.mit.edu	37	chr1	151134303	151134303	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aaggaaatcagaggcagagaGgtcatggatgggcgtggggg	20	4	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:151134303G>A	uc001ewy.2	-	2	1090	c.454C>T	c.(454-456)CTC>TTC	p.L152F	LYSMD1_uc010pcr.1_Missense_Mutation_p.L104F	NM_212551	NP_997716	Q96S90	LYSM1_HUMAN	LysM, putative peptidoglycan-binding, domain	152					cell wall macromolecule catabolic process						0	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GAGGCAGAGAGGTCATGGATG	0.517													63	148	---	---	---	---	PASS	A	151134303	A	A	151134303	3	1	70	1	0	0	0	0	1	0	0	0	9124	1000	35	3	237	3	LYSMD1	1	151134303	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	5660068	151134303	98116318	13	27170										
PSMB4	5692	broad.mit.edu	37	chr1	151372951	151372951	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cttctgggagatggacacagCtatagtcctagagctattca	10	9	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:151372951C>T	uc001eyc.1	+	3	404	c.381C>T	c.(379-381)AGC>AGT	p.S127S	PSMB4_uc010pda.1_Silent_p.S127S|PSMB4_uc001eyb.1_3'UTR	NM_002796	NP_002787	P28070	PSB4_HUMAN	proteasome beta 4 subunit	127					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|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity			ovary(2)	2	Lung SC(34;0.00471)|Ovarian(49;0.00871)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			ATGGACACAGCTATAGTCCTA	0.498													19	207	---	---	---	---	PASS	T	151372951	T	T	151372951	2	4	70	1	0	0	0	0	0	0	0	1	12679	796	28	3		3	PSMB4	1	151372951	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	238648	151372951	97877670	14	27171										
TCHHL1	126637	broad.mit.edu	37	chr1	152057612	152057612	+	Missense_Mutation	SNP	A	C	C													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atgcttggctgtagttgaaaAagacagaacaatctgagatc							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:152057612A>C	uc001ezo.1	-	3	2611	c.2546T>G	c.(2545-2547)TTT>TGT	p.F849C		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	849							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			GTAGTTGAAAAAGACAGAACA	0.507													48	90	---	---	---	---	PASS	C	152057612	C	C	152057612	3	2	70	1	0	0	0	0	1	0	0	0	15698	14	1	5	172	5	TCHHL1	1	152057612	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	684661	152057612	97193009	15	27172	567	2								
TCHHL1	126637	broad.mit.edu	37	chr1	152057616	152057616	+	Missense_Mutation	SNP	C	G	G													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttggctgtagttgaaaaagaCagaacaatctgagatctcac							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:152057616C>G	uc001ezo.1	-	3	2607	c.2542G>C	c.(2542-2544)GTC>CTC	p.V848L		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	848							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			TTGAAAAAGACAGAACAATCT	0.502													50	89	---	---	---	---	PASS	G	152057616	G	G	152057616	3	3	70	1	0	0	0	0	1	0	0	0	15698	478	17	4	176	4	TCHHL1	1	152057616	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	4	152057616	97193005	16	27173	567	2								
FLG	2312	broad.mit.edu	37	chr1	152283855	152283855	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cttcctcctctccttgacccCgggtgtgcacgaatggtgtc	10	15	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:152283855C>T	uc001ezu.1	-	3	3543	c.3507G>A	c.(3505-3507)CCG>CCA	p.P1169P	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1169	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCTTGACCCCGGGTGTGCAC	0.597									Ichthyosis				17	796	---	---	---	---	PASS	T	152283855	T	T	152283855	2	4	70	1	0	0	0	0	0	0	0	1	5922	639	23	1		1	FLG	1	152283855	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	226239	152283855	96966766	17	27174										
ATP8B2	57198	broad.mit.edu	37	chr1	154304496	154304496	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	acatagagacagcagaacttGatgggtaagtggcatgctca	12	7	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:154304496G>A	uc001fey.1	+	7	751	c.562G>A	c.(562-564)GAT>AAT	p.D188N	ATP8B2_uc001few.2_Missense_Mutation_p.D169N|ATP8B2_uc001fex.2_Missense_Mutation_p.D202N	NM_001005855	NP_001005855	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform b	188	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGCAGAACTTGATGGGTAAGT	0.483													50	100	---	---	---	---	PASS	A	154304496	A	A	154304496	3	1	70	1	0	0	0	0	1	0	0	0	1195	1290	45	2	634	2	ATP8B2	1	154304496	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	2020641	154304496	94946125	18	27175										
PKLR	5313	broad.mit.edu	37	chr1	155264485	155264485	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgggcccctggcaagttcacGcccttccggctgcccaggac	12	17	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:155264485G>A	uc001fkb.3	-	6	792	c.753C>T	c.(751-753)GGC>GGT	p.G251G	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Silent_p.G220G	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	251					endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity	p.G251S(2)		skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	GCAAGTTCACGCCCTTCCGGC	0.672													4	50	---	---	---	---	PASS	A	155264485	A	A	155264485	2	1	70	1	0	0	0	0	0	0	0	1	11976	1074	38	1		1	PKLR	1	155264485	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	959989	155264485	93986136	19	27176										
FCRL5	83416	broad.mit.edu	37	chr1	157514826	157514826	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gcccggcacctcagaaccacAgagtctccttcaaacacaga	7	16	3	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:157514826A>G	uc001fqu.2	-	4	512	c.354T>C	c.(352-354)TCT>TCC	p.S118S	FCRL5_uc009wsm.2_Silent_p.S118S|FCRL5_uc010phv.1_Silent_p.S118S|FCRL5_uc010phw.1_Silent_p.S33S|FCRL5_uc001fqv.1_Silent_p.S118S|FCRL5_uc010phx.1_5'UTR	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	118	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				TCAGAACCACAGAGTCTCCTT	0.413													50	77	---	---	---	---	PASS	G	157514826	G	G	157514826	2	3	70	1	0	0	0	0	0	0	0	1	5798	175	7	5		5	FCRL5	1	157514826	Silent	SNP	A	TCGA-34-5239-01A-21D-1817-08	2250341	157514826	91735795	20	27177										
SLAMF9	89886	broad.mit.edu	37	chr1	159922310	159922310	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aaagttcacagtgatctgggGctctgacagccatcctggat	11	10	3	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:159922310G>C	uc001fus.2	-	3	523	c.406C>G	c.(406-408)CCC>GCC	p.P136A	SLAMF9_uc009wtd.2_Intron|SLAMF9_uc001fut.2_Intron	NM_033438	NP_254273	Q96A28	SLAF9_HUMAN	SLAM family member 9 isoform 1	136	Ig-like C2-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GTGATCTGGGGCTCTGACAGC	0.517													38	117	---	---	---	---	PASS	C	159922310	C	C	159922310	3	2	70	1	0	0	0	0	1	0	0	0	14371	1203	42	4	471	4	SLAMF9	1	159922310	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	2407484	159922310	89328311	21	27178										
FCGR2B	2213	broad.mit.edu	37	chr1	161647118	161647118	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atttcttctttttcccacagCcaatcccactaatcctgatg	3	14	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:161647118C>A	uc001gaz.1	+	7	910	c.818C>A	c.(817-819)GCC>GAC	p.A273D	FCGR2B_uc001gay.1_Missense_Mutation_p.A272D|FCGR2B_uc001gba.1_Missense_Mutation_p.A253D|FCGR2B_uc001gbb.1_Missense_Mutation_p.A254D|FCGR2B_uc009wun.1_Missense_Mutation_p.A266D	NM_004001	NP_003992	P31994	FCG2B_HUMAN	Fc fragment of IgG, low affinity IIb, receptor	273	Cytoplasmic (Potential).				immune response|interspecies interaction between organisms|regulation of immune response	integral to membrane|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TTTCCCACAGCCAATCCCACT	0.532			T	?	ALL								26	70	---	---	---	---	PASS	A	161647118	A	A	161647118	3	1	70	1	0	0	0	0	1	0	0	0	5782	753	26	3	844	3	FCGR2B	1	161647118	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	1724808	161647118	87603503	22	27179										
ALDH9A1	223	broad.mit.edu	37	chr1	165649797	165649797	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gctgacacagaaactggcctGtggcagcccctccctgcacc	10	17	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:165649797G>A	uc001gdh.1	-	5	821	c.716C>T	c.(715-717)ACA>ATA	p.T239I	ALDH9A1_uc010pky.1_Missense_Mutation_p.T145I|ALDH9A1_uc010pkz.1_Missense_Mutation_p.T229I|ALDH9A1_uc010pla.1_Missense_Mutation_p.T145I	NM_000696	NP_000687	P49189	AL9A1_HUMAN	aldehyde dehydrogenase 9A1	215					carnitine biosynthetic process|cellular aldehyde metabolic process|hormone metabolic process|neurotransmitter biosynthetic process	cytosol|plasma membrane	3-chloroallyl aldehyde dehydrogenase activity|4-trimethylammoniobutyraldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aminobutyraldehyde dehydrogenase activity				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				NADH(DB00157)	AAACTGGCCTGTGGCAGCCCC	0.532													83	127	---	---	---	---	PASS	A	165649797	A	A	165649797	3	1	70	1	0	0	0	0	1	0	0	0	506	1377	48	3	868	3	ALDH9A1	1	165649797	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	4002679	165649797	83600824	23	27180										
TNN	63923	broad.mit.edu	37	chr1	175054540	175054540	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gcgctgcctgcttgtttccaGgtctgcacccggggactgag	14	13	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:175054540G>T	uc001gkl.1	+	6	1348	c.1235_splice	c.e6-1	p.G412_splice	TNN_uc010pmx.1_Splice_Site_p.G412_splice	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor						cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		CTTGTTTCCAGGTCTGCACCC	0.597													9	18	---	---	---	---	PASS	T	175054540	T	T	175054540	5	4	70	1	0	0	0	0	0	0	1	0	16320	1014	35	3	1252	3	TNN	1	175054540	Splice_Site	SNP	G	TCGA-34-5239-01A-21D-1817-08	9404743	175054540	74196081	24	27181										
RFWD2	64326	broad.mit.edu	37	chr1	176132955	176132955	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aagagttgaaacatacggtgCtactcactgagtggtccaat	10	8	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:176132955C>T	uc001gku.1	-	4	894	c.638G>A	c.(637-639)AGC>AAC	p.S213N	RFWD2_uc001gkv.1_Intron|RFWD2_uc001gkw.1_Intron|RFWD2_uc009wwv.2_5'Flank|RFWD2_uc001gkt.1_Missense_Mutation_p.S72N	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	213					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						ACATACGGTGCTACTCACTGA	0.274													35	43	---	---	---	---	PASS	T	176132955	T	T	176132955	3	4	70	1	0	0	0	0	1	0	0	0	13260	797	28	3	1625	3	RFWD2	1	176132955	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	1078415	176132955	73117666	25	27182										
PAPPA2	60676	broad.mit.edu	37	chr1	176564618	176564618	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcctggaaccgcagggatggGctctgtcacgtggagtgtaa	15	9	2	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:176564618G>A	uc001gkz.2	+	3	3042	c.1878G>A	c.(1876-1878)GGG>GGA	p.G626G	PAPPA2_uc001gky.1_Silent_p.G626G|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	626	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GCAGGGATGGGCTCTGTCACG	0.602													12	83	---	---	---	---	PASS	A	176564618	A	A	176564618	2	1	70	1	0	0	0	0	0	0	0	1	11433	1190	42	3		3	PAPPA2	1	176564618	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	431663	176564618	72686003	26	27183										
FAM5C	339479	broad.mit.edu	37	chr1	190423895	190423895	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gagaggagccagtcgaagggGcttgtggcatgctgatccga	17	8	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:190423895G>T	uc001gse.1	-	2	358	c.126C>A	c.(124-126)AGC>AGA	p.S42R	FAM5C_uc010pot.1_Missense_Mutation_p.A4D	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	42						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					AGTCGAAGGGGCTTGTGGCAT	0.502													25	49	---	---	---	---	PASS	T	190423895	T	T	190423895	3	4	70	1	0	0	0	0	1	0	0	0	5594	1194	42	3	2202	3	FAM5C	1	190423895	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	13859277	190423895	58826726	27	27184										
RGS18	64407	broad.mit.edu	37	chr1	192150519	192150519	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gatttcaagaaaagcaagggAcctcaacaaattcaccttaa	6	9	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:192150519A>T	uc001gsg.2	+	4	557	c.381A>T	c.(379-381)GGA>GGT	p.G127G		NM_130782	NP_570138	Q9NS28	RGS18_HUMAN	regulator of G-protein signalling 18	127	RGS.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)	3						AAAGCAAGGGACCTCAACAAA	0.328													4	98	---	---	---	---	PASS	T	192150519	T	T	192150519	2	4	70	1	0	0	0	0	0	0	0	1	13300	262	10	5		5	RGS18	1	192150519	Silent	SNP	A	TCGA-34-5239-01A-21D-1817-08	1726624	192150519	57100102	28	27185										
USH2A	7399	broad.mit.edu	37	chr1	216260067	216260067	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cttactaaactcaccaggatCcttcctgaggatggtataac	7	11	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:216260067C>A	uc001hku.1	-	24	5368	c.4981G>T	c.(4981-4983)GAT>TAT	p.D1661Y		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1661	Laminin G-like 1.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TCACCAGGATCCTTCCTGAGG	0.383										HNSCC(13;0.011)			33	58	---	---	---	---	PASS	A	216260067	A	A	216260067	3	1	70	1	0	0	0	0	1	0	0	0	17033	855	30	2	10823	2	USH2A	1	216260067	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	24109548	216260067	32990554	29	27186										
ACTN2	88	broad.mit.edu	37	chr1	236883405	236883405	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgttgttttcttacctgcagAaattgttgatggcaacgtga	10	6	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:236883405A>C	uc001hyf.2	+	4	566	c.362A>C	c.(361-363)GAA>GCA	p.E121A	ACTN2_uc001hyg.2_5'UTR|ACTN2_uc009xgi.1_Missense_Mutation_p.E121A	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	121	CH 1.|Actin-binding.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			TTACCTGCAGAAATTGTTGAT	0.353													34	74	---	---	---	---	PASS	C	236883405	C	C	236883405	3	2	70	1	0	0	0	0	1	0	0	0	205	260	9	5	376	5	ACTN2	1	236883405	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	20623338	236883405	12367216	30	27187										
RYR2	6262	broad.mit.edu	37	chr1	237893559	237893559	+	Splice_Site	SNP	G	T	T													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gaaattgtgcttacctttcaGgcatcgggctgtcaatctct							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:237893559G>T	uc001hyl.1	+	77	10959	c.10839_splice	c.e77-1	p.R3613_splice	RYR2_uc010pya.1_Splice_Site_p.R9_splice	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor						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)			TTACCTTTCAGGCATCGGGCT	0.338													30	33	---	---	---	---	PASS	T	237893559	T	T	237893559	5	4	70	1	0	0	0	0	0	0	1	0	13769	1014	35	3	11144	3	RYR2	1	237893559	Splice_Site	SNP	G	TCGA-34-5239-01A-21D-1817-08	1010154	237893559	11357062	31	27188	568	2								
RYR2	6262	broad.mit.edu	37	chr1	237893560	237893560	+	Missense_Mutation	SNP	G	T	T													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aaattgtgcttacctttcagGcatcgggctgtcaatctctt							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:237893560G>T	uc001hyl.1	+	77	10959	c.10839G>T	c.(10837-10839)AGG>AGT	p.R3613S	RYR2_uc010pya.1_Missense_Mutation_p.R9S	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3613					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)			TACCTTTCAGGCATCGGGCTG	0.338													29	34	---	---	---	---	PASS	T	237893560	T	T	237893560	3	4	70	1	0	0	0	0	1	0	0	0	13769	1217	42	3	11145	3	RYR2	1	237893560	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	1	237893560	11357061	32	27189	568	2								
ZP4	57829	broad.mit.edu	37	chr1	238048518	238048518	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gttcacaaagctgaaggtgaAgatgctgaagcgctggtggt	15	6	1	4			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr1:238048518A>C	uc001hym.2	-	9	1258	c.1258T>G	c.(1258-1260)TTC>GTC	p.F420V	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	420	ZP.|Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			CTGAAGGTGAAGATGCTGAAG	0.547													27	86	---	---	---	---	PASS	C	238048518	C	C	238048518	3	2	70	1	0	0	0	0	1	0	0	0	18215	72	3	5	380	5	ZP4	1	238048518	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	154958	238048518	11202103	33	27190										
CAD	790	broad.mit.edu	37	chr2	27448094	27448094	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atgtggccccgagcgaggcaGcaaattctcttgaacaggtt	12	10	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:27448094G>T	uc002rji.2	+	11	1765	c.1603G>T	c.(1603-1605)GCA>TCA	p.A535S	CAD_uc010eyw.2_Missense_Mutation_p.A535S	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	535	CPSase (Carbamoyl-phosphate synthase).|CPSase A.|ATP-grasp 1.			A -> G (in Ref. 1; BAA11423).	'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	GAGCGAGGCAGCAAATTCTCT	0.463													17	24	---	---	---	---	PASS	T	27448094	T	T	27448094	3	4	70	1	0	0	0	0	1	0	0	0	2565	971	34	3	1645	3	CAD	2	27448094	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08		27448094	215751279	34	27191										
BRE	9577	broad.mit.edu	37	chr2	28521252	28521252	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	accagccaactctcacatttCagtccgtttatcactttacc	3	15	3	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:28521252C>T	uc002rlr.2	+	12	1300	c.982C>T	c.(982-984)CAG>TAG	p.Q328*	BRE_uc002rlp.1_Nonsense_Mutation_p.Q328*|BRE_uc002rlq.2_Nonsense_Mutation_p.Q328*|BRE_uc002rls.2_Nonsense_Mutation_p.Q328*|BRE_uc002rlt.2_Nonsense_Mutation_p.Q328*|BRE_uc002rlu.2_Nonsense_Mutation_p.Q328*|BRE_uc002rlv.2_Nonsense_Mutation_p.Q190*|BRE_uc002rlx.2_RNA	NM_199194	NP_954664	Q9NXR7	BRE_HUMAN	brain and reproductive organ-expressed (TNFRSF1A	328	UEV-like 2.				apoptosis|chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of anti-apoptosis|positive regulation of DNA repair|response to ionizing radiation|signal transduction	BRCA1-A complex|BRISC complex|cytoplasm|nuclear ubiquitin ligase complex	peroxisome targeting sequence binding|polyubiquitin binding|tumor necrosis factor receptor binding			lung(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					TCTCACATTTCAGTCCGTTTA	0.428													9	288	---	---	---	---	PASS	T	28521252	T	T	28521252	4	4	70	1	0	0	0	0	0	1	0	0	1509	827	29	2	1020	2	BRE	2	28521252	Nonsense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	1073158	28521252	214678121	35	27192										
BIRC6	57448	broad.mit.edu	37	chr2	32664696	32664696	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aaggcttccatccctaaaacAccagagtaacaagggttatt	7	10	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:32664696A>T	uc010ezu.2	+	16	3886	c.3752A>T	c.(3751-3753)CAC>CTC	p.H1251L		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1251					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)					TCCCTAAAACACCAGAGTAAC	0.388													11	52	---	---	---	---	PASS	T	32664696	T	T	32664696	3	4	70	1	0	0	0	0	1	0	0	0	1438	159	6	5	3814	5	BIRC6	2	32664696	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	4143444	32664696	210534677	36	27193										
FSHR	2492	broad.mit.edu	37	chr2	49190433	49190433	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atgctcaccttcatgtagctGctgatgccaaagatgggaaa	10	9	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:49190433G>T	uc002rww.2	-	10	1601	c.1527C>A	c.(1525-1527)AGC>AGA	p.S509R	FSHR_uc002rwx.2_Missense_Mutation_p.S447R|FSHR_uc010fbn.2_Missense_Mutation_p.S483R	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	509	Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	TCATGTAGCTGCTGATGCCAA	0.532									Gonadal_Dysgenesis_46_XX				6	24	---	---	---	---	PASS	T	49190433	T	T	49190433	3	4	70	1	0	0	0	0	1	0	0	0	6073	1310	46	3	564	3	FSHR	2	49190433	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	16525737	49190433	194008940	37	27194										
CHAC2	494143	broad.mit.edu	37	chr2	54001636	54001636	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tagtaaaggaacgtttagaaGggaaacagaacctcaattgc	10	6	1	2	rs74780760	byFrequency	TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:54001636G>C	uc002rxk.1	+	3	624	c.529G>C	c.(529-531)GGG>CGG	p.G177R	ASB3_uc002rxg.1_Intron|ASB3_uc002rxh.1_Intron|ASB3_uc002rxi.3_Intron|ASB3_uc010yoo.1_Intron	NM_001008708	NP_001008708	Q8WUX2	CHAC2_HUMAN	ChaC, cation transport regulator-like 2	177											0			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			ACGTTTAGAAGGGAAACAGAA	0.323													24	45	---	---	---	---	PASS	C	54001636	C	C	54001636	3	2	70	1	0	0	0	0	1	0	0	0	3309	1000	35	4	539	4	CHAC2	2	54001636	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	4811203	54001636	189197737	38	27195										
CLEC4F	165530	broad.mit.edu	37	chr2	71046962	71046962	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtcacagccataaatgccggGgtagcctgaacgagcctcgg	13	12	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:71046962G>A	uc002shf.2	-	2	200	c.123C>T	c.(121-123)ACC>ACT	p.T41T	CLEC4F_uc010yqv.1_Silent_p.T41T	NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	41	Helical; Signal-anchor for type II membrane protein; (Potential).				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5						TAAATGCCGGGGTAGCCTGAA	0.552													8	49	---	---	---	---	PASS	A	71046962	A	A	71046962	2	1	70	1	0	0	0	0	0	0	0	1	3516	1219	43	3		3	CLEC4F	2	71046962	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	17045326	71046962	172152411	39	27196										
LRRTM4	80059	broad.mit.edu	37	chr2	77745534	77745534	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcagagtttgtaggcttgtaGtccacataatactcctgtaa	8	8	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:77745534G>A	uc002snr.2	-	3	1876	c.1461C>T	c.(1459-1461)GAC>GAT	p.D487D	LRRTM4_uc002snq.2_Silent_p.D487D|LRRTM4_uc002sns.2_Silent_p.D487D|LRRTM4_uc002snt.2_Silent_p.D488D	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	487	Cytoplasmic (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TAGGCTTGTAGTCCACATAAT	0.458													11	39	---	---	---	---	PASS	A	77745534	A	A	77745534	2	1	70	1	0	0	0	0	0	0	0	1	9042	1020	36	3		3	LRRTM4	2	77745534	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	6698572	77745534	165453839	40	27197										
REG3A	5068	broad.mit.edu	37	chr2	79385824	79385824	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	caaaaacaaggcatagcagtGggagccataggccttggagc	13	9	0	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:79385824G>T	uc002sod.1	-	2	403	c.148C>A	c.(148-150)CAC>AAC	p.H50N	REG3A_uc002soe.1_Missense_Mutation_p.H50N|REG3A_uc002sof.1_Missense_Mutation_p.H50N	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	50	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						GCATAGCAGTGGGAGCCATAG	0.567													23	43	---	---	---	---	PASS	T	79385824	T	T	79385824	3	4	70	1	0	0	0	0	1	0	0	0	13212	1348	47	3	395	3	REG3A	2	79385824	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	1640290	79385824	163813549	41	27198										
FAHD2B	151313	broad.mit.edu	37	chr2	97749943	97749943	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	caggtcctctgtcttgaataCcatctggttggtgttgctgc	11	10	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:97749943C>T	uc002sxm.2	-	6	908	c.757G>A	c.(757-759)GTA>ATA	p.V253I		NM_199336	NP_955368	Q6P2I3	FAH2B_HUMAN	fumarylacetoacetate hydrolase domain containing	253							hydrolase activity|metal ion binding				0						GTCTTGAATACCATCTGGTTG	0.542													25	104	---	---	---	---	PASS	T	97749943	T	T	97749943	3	4	70	1	0	0	0	0	1	0	0	0	5374	507	18	3	199	3	FAHD2B	2	97749943	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	18364119	97749943	145449430	42	27199										
ST6GAL2	84620	broad.mit.edu	37	chr2	107423321	107423321	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cgtcgtagtacagctcgtggTagtggcacagctccgtctgc	13	12	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:107423321T>C	uc002tdq.2	-	6	1522	c.1403A>G	c.(1402-1404)TAC>TGC	p.Y468C	ST6GAL2_uc002tdr.2_Missense_Mutation_p.Y468C	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	468	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						CAGCTCGTGGTAGTGGCACAG	0.562													12	48	---	---	---	---	PASS	C	107423321	C	C	107423321	3	2	70	1	0	0	0	0	1	0	0	0	15221	1638	57	5	190	5	ST6GAL2	2	107423321	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	9673378	107423321	135776052	43	27200										
SLC35F5	80255	broad.mit.edu	37	chr2	114503904	114503904	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gcaagcagcaaagtaaccttCagcatctgcaaactaaatac	6	11	2	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:114503904C>G	uc002tku.1	-	5	854	c.430G>C	c.(430-432)GAA>CAA	p.E144Q	SLC35F5_uc002tkt.2_RNA|SLC35F5_uc002tkv.2_Missense_Mutation_p.E138Q|SLC35F5_uc002tkw.2_Missense_Mutation_p.E144Q	NM_025181	NP_079457	Q8WV83	S35F5_HUMAN	solute carrier family 35, member F5	144					transport	integral to membrane					0						AAGTAACCTTCAGCATCTGCA	0.368													39	51	---	---	---	---	PASS	G	114503904	G	G	114503904	3	3	70	1	0	0	0	0	1	0	0	0	14592	835	29	2	1185	2	SLC35F5	2	114503904	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	7080583	114503904	128695469	44	27201										
FAM123C	205147	broad.mit.edu	37	chr2	131520539	131520539	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtggagcagctggcctcgccCgcccagaatgaagcctctga	13	14	1	3	rs140458255		TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:131520539C>A	uc002trw.2	+	2	1084	c.894C>A	c.(892-894)CCC>CCA	p.P298P	FAM123C_uc010fmv.2_Silent_p.P298P|FAM123C_uc010fms.1_Silent_p.P298P|FAM123C_uc010fmt.1_Silent_p.P298P|FAM123C_uc010fmu.1_Silent_p.P298P	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	298										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		TGGCCTCGCCCGCCCAGAATG	0.657													21	31	---	---	---	---	PASS	A	131520539	A	A	131520539	2	1	70	1	0	0	0	0	0	0	0	1	5424	639	23	1		1	FAM123C	2	131520539	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	17016635	131520539	111678834	45	27202										
LYPD1	116372	broad.mit.edu	37	chr2	133427492	133427492	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cgcaaaaagttgccgcgatgCctaggacccacattctcccg	9	15	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:133427492C>A	uc002ttn.2	-	1	990	c.14G>T	c.(13-15)GGC>GTC	p.G5V	LYPD1_uc002ttm.3_Missense_Mutation_p.S21I|LYPD1_uc002tto.2_Intron	NM_144586	NP_653187	Q8N2G4	LYPD1_HUMAN	LY6/PLAUR domain containing 1 isoform a	5						anchored to membrane|plasma membrane					0						TGCCGCGATGCCTAGGACCCA	0.657													3	33	---	---	---	---	PASS	A	133427492	A	A	133427492	3	1	70	1	0	0	0	0	1	0	0	0	9109	739	26	3	423	3	LYPD1	2	133427492	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	1906953	133427492	109771881	46	27203										
LRP1B	53353	broad.mit.edu	37	chr2	141707967	141707967	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcactcccgtccccacagtcGtcatctggaaagaaacatca	6	15	4	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:141707967G>A	uc002tvj.1	-	20	3945	c.2973C>T	c.(2971-2973)GAC>GAT	p.D991D	LRP1B_uc010fnl.1_Silent_p.D173D	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	991	Extracellular (Potential).|LDL-receptor class A 6.				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)		CCCCACAGTCGTCATCTGGAA	0.438										TSP Lung(27;0.18)			15	36	---	---	---	---	PASS	A	141707967	A	A	141707967	2	1	70	1	0	0	0	0	0	0	0	1	8955	1136	40	1		1	LRP1B	2	141707967	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	8280475	141707967	101491406	47	27204										
NEB	4703	broad.mit.edu	37	chr2	152520262	152520262	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcccttcttgtattcccggtCtgactgcatcttggccactt	7	14	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:152520262C>A	uc010fnx.2	-	45	5754	c.5563G>T	c.(5563-5565)GAC>TAC	p.D1855Y		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1855	Nebulin 48.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TATTCCCGGTCTGACTGCATC	0.532													27	51	---	---	---	---	PASS	A	152520262	A	A	152520262	3	1	70	1	0	0	0	0	1	0	0	0	10302	913	32	2	20675	2	NEB	2	152520262	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	10812295	152520262	90679111	48	27205										
ACVR1C	130399	broad.mit.edu	37	chr2	158401074	158401074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	caaatagtcatataaggagcCctgttcatgatattcagata	7	7	3	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:158401074C>A	uc002tzk.3	-	5	1069	c.826G>T	c.(826-828)GGC>TGC	p.G276C	ACVR1C_uc002tzl.3_Missense_Mutation_p.G196C|ACVR1C_uc010fof.2_Missense_Mutation_p.G119C|ACVR1C_uc010foe.2_Missense_Mutation_p.G226C	NM_145259	NP_660302	Q8NER5	ACV1C_HUMAN	activin A receptor, type IC isoform 1	276	Protein kinase.|Cytoplasmic (Potential).				apoptosis|cell differentiation|regulation of apoptosis	activin receptor complex	activin receptor activity, type I|ATP binding|transforming growth factor beta receptor activity			lung(3)|ovary(2)|skin(2)	7						TATAAGGAGCCCTGTTCATGA	0.378													30	48	---	---	---	---	PASS	A	158401074	A	A	158401074	3	1	70	1	0	0	0	0	1	0	0	0	222	623	22	3	675	3	ACVR1C	2	158401074	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	5880812	158401074	84798299	49	27206										
SCN3A	6328	broad.mit.edu	37	chr2	165970326	165970326	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ccaatatgcatttcacttacCaatgcaccactactgagaag	5	12	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:165970326C>T	uc002ucx.2	-	20	4161	c.3669G>A	c.(3667-3669)TTG>TTA	p.L1223L	SCN3A_uc002ucy.2_Silent_p.L1174L|SCN3A_uc002ucz.2_Silent_p.L1174L|SCN3A_uc002uda.1_Silent_p.L1043L|SCN3A_uc002udb.1_Silent_p.L1043L	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1223	Helical; Name=S1 of repeat III; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	TTTCACTTACCAATGCACCAC	0.378													13	77	---	---	---	---	PASS	T	165970326	T	T	165970326	2	4	70	1	0	0	0	0	0	0	0	1	13918	608	21	3		3	SCN3A	2	165970326	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	7569252	165970326	77229047	50	27207										
SCN1A	6323	broad.mit.edu	37	chr2	166847771	166847771	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcatttatttccctttggctTtttcatctttgccttcttgc	4	11	4	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:166847771T>G	uc010zcz.1	-	26	5999	c.5981A>C	c.(5980-5982)AAA>ACA	p.K1994T		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	2005						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CCCTTTGGCTTTTTCATCTTT	0.378													6	35	---	---	---	---	PASS	G	166847771	G	G	166847771	3	3	70	1	0	0	0	0	1	0	0	0	13914	1841	64	5	19	5	SCN1A	2	166847771	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	877445	166847771	76351602	51	27208										
SCN1A	6323	broad.mit.edu	37	chr2	166847856	166847856	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tggacaagctgcagtggacaTggtcagatcagttttttctg	12	7	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:166847856T>C	uc010zcz.1	-	26	5914	c.5896A>G	c.(5896-5898)ATG>GTG	p.M1966V		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1977						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GCAGTGGACATGGTCAGATCA	0.368													15	67	---	---	---	---	PASS	C	166847856	C	C	166847856	3	2	70	1	0	0	0	0	1	0	0	0	13914	1464	51	5	104	5	SCN1A	2	166847856	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	85	166847856	76351517	52	27209										
TTN	7273	broad.mit.edu	37	chr2	179393123	179393123	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gggagtatacatttctggagCggcttatgctgacatttgaa	12	6	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:179393123C>T	uc010zfg.1	-	310	99775	c.99551G>A	c.(99550-99552)CGC>CAC	p.R33184H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R26879H|TTN_uc010zfi.1_Missense_Mutation_p.R26812H|TTN_uc010zfj.1_Missense_Mutation_p.R26687H|TTN_uc002umq.2_Missense_Mutation_p.R201H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34111							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)			ATTTCTGGAGCGGCTTATGCT	0.378													35	50	---	---	---	---	PASS	T	179393123	T	T	179393123	3	4	70	1	0	0	0	0	1	0	0	0	16732	768	27	1	732	1	TTN	2	179393123	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	12545267	179393123	63806250	53	27210										
TTN	7273	broad.mit.edu	37	chr2	179473493	179473493	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtgacaacaatccattctgaGtcgggttttgtcttgtcttt	9	8	3	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:179473493G>T	uc010zfg.1	-	223	44765	c.44541C>A	c.(44539-44541)GAC>GAA	p.D14847E	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D8542E|TTN_uc010zfi.1_Missense_Mutation_p.D8475E|TTN_uc010zfj.1_Missense_Mutation_p.D8350E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15774							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)			TCCATTCTGAGTCGGGTTTTG	0.393													14	79	---	---	---	---	PASS	T	179473493	T	T	179473493	3	4	70	1	0	0	0	0	1	0	0	0	16732	1020	36	3	55804	3	TTN	2	179473493	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	80370	179473493	63725880	54	27211										
TTN	7273	broad.mit.edu	37	chr2	179613239	179613239	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttcttgcccttggaactccaGagctggatctcctatatgag	9	11	2	2	rs139103966		TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:179613239G>T	uc002unb.2	-	46	14112	c.13888C>A	c.(13888-13890)CTG>ATG	p.L4630M	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TGGAACTCCAGAGCTGGATCT	0.373													61	110	---	---	---	---	PASS	T	179613239	T	T	179613239	3	4	70	1	0	0	0	0	1	0	0	0	16732	933	33	2	96409	2	TTN	2	179613239	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	139746	179613239	63586134	55	27212										
TTN	7273	broad.mit.edu	37	chr2	179637971	179637971	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aattttatatttagaactggGcttgatttccttgtccttaa	6	6	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:179637971G>T	uc010zfg.1	-	33	7944	c.7720C>A	c.(7720-7722)CCC>ACC	p.P2574T	TTN_uc010zfh.1_Missense_Mutation_p.P2528T|TTN_uc010zfi.1_Missense_Mutation_p.P2528T|TTN_uc010zfj.1_Missense_Mutation_p.P2528T|TTN_uc002unb.2_Missense_Mutation_p.P2574T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2574							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)			TTAGAACTGGGCTTGATTTCC	0.358													7	34	---	---	---	---	PASS	T	179637971	T	T	179637971	3	4	70	1	0	0	0	0	1	0	0	0	16732	1203	42	3	103588	3	TTN	2	179637971	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	24732	179637971	63561402	56	27213										
NEUROD1	4760	broad.mit.edu	37	chr2	182543312	182543312	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aaacgctccaggcgagccttAgtcatcttcttctttttggg	9	11	4	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:182543312A>T	uc002uof.2	-	2	512	c.276T>A	c.(274-276)ACT>ACA	p.T92T	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	92	Nuclear localization signal (Potential).				amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			GGCGAGCCTTAGTCATCTTCT	0.418													13	63	---	---	---	---	PASS	T	182543312	T	T	182543312	2	4	70	1	0	0	0	0	0	0	0	1	10348	407	15	5		5	NEUROD1	2	182543312	Silent	SNP	A	TCGA-34-5239-01A-21D-1817-08	2905341	182543312	60656061	57	27214										
CCDC150	284992	broad.mit.edu	37	chr2	197577399	197577399	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atctttgttttttgaattaaAggcaaactcagaactcagtg	7	6	3	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:197577399A>T	uc002utp.1	+	17	1939	c.1804_splice	c.e17-2	p.A602_splice	CCDC150_uc010zgs.1_Intron|CCDC150_uc010zgt.1_Intron	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150												0						TTTGAATTAAAGGCAAACTCA	0.388													8	13	---	---	---	---	PASS	T	197577399	T	T	197577399	5	4	70	1	0	0	0	0	0	0	1	0	2785	86	3	5	1868	5	CCDC150	2	197577399	Splice_Site	SNP	A	TCGA-34-5239-01A-21D-1817-08	15034087	197577399	45621974	58	27215										
ZDBF2	57683	broad.mit.edu	37	chr2	207171597	207171597	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cattgacctggaagatgagaGctgtgagtcagatagttctg	13	6	2	5			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:207171597G>T	uc002vbp.2	+	5	2595	c.2345G>T	c.(2344-2346)AGC>ATC	p.S782I		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	782							nucleic acid binding|zinc ion binding			ovary(3)	3						GAAGATGAGAGCTGTGAGTCA	0.408													55	106	---	---	---	---	PASS	T	207171597	T	T	207171597	3	4	70	1	0	0	0	0	1	0	0	0	17596	971	34	3	2355	3	ZDBF2	2	207171597	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	9594198	207171597	36027776	59	27216										
SPEG	10290	broad.mit.edu	37	chr2	220332025	220332025	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ggaggtggattggctgtgccGtggccgcctgctgcagcctg	18	11	0	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:220332025G>T	uc010fwg.2	+	10	3011	c.3011G>T	c.(3010-3012)CGT>CTT	p.R1004L		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1004	Ig-like 4.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		TGGCTGTGCCGTGGCCGCCTG	0.627													18	90	---	---	---	---	PASS	T	220332025	T	T	220332025	3	4	70	1	0	0	0	0	1	0	0	0	15035	1145	40	1	3061	1	SPEG	2	220332025	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	13160428	220332025	22867348	60	27217										
SH3BP4	23677	broad.mit.edu	37	chr2	235950095	235950095	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cagtcacaaacggactccacGcagagccgccggtcaggcgg	13	15	2	1	rs138703238		TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:235950095G>T	uc002vvp.2	+	4	1075	c.682G>T	c.(682-684)GCA>TCA	p.A228S	SH3BP4_uc010fym.2_Missense_Mutation_p.A228S|SH3BP4_uc002vvq.2_Missense_Mutation_p.A228S	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	228					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		CGGACTCCACGCAGAGCCGCC	0.572													31	131	---	---	---	---	PASS	T	235950095	T	T	235950095	3	4	70	1	0	0	0	0	1	0	0	0	14246	1087	38	1	688	1	SH3BP4	2	235950095	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	15618070	235950095	7249278	61	27218										
ESPNL	339768	broad.mit.edu	37	chr2	239013419	239013419	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgacgtgcaccttcgtgctcTcgatggcatgagcgccctgc	12	14	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr2:239013419T>C	uc002vxq.3	+	3	718	c.608T>C	c.(607-609)CTC>CCC	p.L203P		NM_194312	NP_919288	Q6ZVH7	ESPNL_HUMAN	espin-like	203										pancreas(1)	1		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;4.71e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.02e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.63e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000109)|Lung(119;0.0108)|LUSC - Lung squamous cell carcinoma(224;0.0253)		CTTCGTGCTCTCGATGGCATG	0.672													7	7	---	---	---	---	PASS	C	239013419	C	C	239013419	3	2	70	1	0	0	0	0	1	0	0	0	5255	1551	54	5	618	5	ESPNL	2	239013419	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	3063324	239013419	4185954	62	27219										
COLQ	8292	broad.mit.edu	37	chr3	15499735	15499735	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ggcccatacacagattccccGtaggaagggttattcacatt	9	11	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:15499735G>A	uc003bzx.2	-	13	1038	c.912C>T	c.(910-912)TAC>TAT	p.Y304Y	COLQ_uc003bzv.2_Silent_p.Y294Y|COLQ_uc003bzz.2_Silent_p.Y295Y|COLQ_uc010heo.2_Silent_p.Y270Y|COLQ_uc003cac.1_RNA|COLQ_uc003cae.1_Silent_p.Y163Y|COLQ_uc003cad.1_RNA	NM_005677	NP_005668	Q9Y215	COLQ_HUMAN	acetylcholinesterase collagen-like tail subunit	304					acetylcholine catabolic process in synaptic cleft|asymmetric protein localization	basal lamina|cell junction|collagen|extracellular space|synaptic cleft					0						CAGATTCCCCGTAGGAAGGGT	0.527													38	85	---	---	---	---	PASS	A	15499735	A	A	15499735	2	1	70	1	0	0	0	0	0	0	0	1	3713	1140	40	1		1	COLQ	3	15499735	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08		15499735	182522695	63	27220										
KBTBD5	131377	broad.mit.edu	37	chr3	42728190	42728190	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctggttaccaaggagaaccaGgtcttcgtggctggaggcct	14	10	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:42728190G>A	uc003clv.1	+	1	1180	c.1080G>A	c.(1078-1080)CAG>CAA	p.Q360Q		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	360	Kelch 1.									ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		AGGAGAACCAGGTCTTCGTGG	0.592													19	27	---	---	---	---	PASS	A	42728190	A	A	42728190	2	1	70	1	0	0	0	0	0	0	0	1	7996	991	35	3		3	KBTBD5	3	42728190	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	27228455	42728190	155294240	64	27221										
VPRBP	9730	broad.mit.edu	37	chr3	51475085	51475085	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agttgcatgaatatgggaagTagctgaaatgaacaccaaat	10	5	0	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:51475085T>C	uc003dbe.1	-	9	1197	c.1029A>G	c.(1027-1029)CTA>CTG	p.L343L		NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	343					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		ATATGGGAAGTAGCTGAAATG	0.378													9	6	---	---	---	---	PASS	C	51475085	C	C	51475085	2	2	70	1	0	0	0	0	0	0	0	1	17182	1625	57	5		5	VPRBP	3	51475085	Silent	SNP	T	TCGA-34-5239-01A-21D-1817-08	8746895	51475085	146547345	65	27222										
CADPS	8618	broad.mit.edu	37	chr3	62636531	62636531	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gggctttttacctccaatgaGaaagacagcacgacatctga	9	10	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:62636531G>T	uc003dll.2	-	5	1554	c.1194C>A	c.(1192-1194)TTC>TTA	p.F398L	CADPS_uc003dlm.2_Missense_Mutation_p.F398L|CADPS_uc003dln.2_Missense_Mutation_p.F398L	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	398					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		CCTCCAATGAGAAAGACAGCA	0.483													15	52	---	---	---	---	PASS	T	62636531	T	T	62636531	3	4	70	1	0	0	0	0	1	0	0	0	2570	933	33	2	3044	2	CADPS	3	62636531	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	11161446	62636531	135385899	66	27223										
RYBP	23429	broad.mit.edu	37	chr3	72427648	72427648	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tctggttctgctgttctgacCctgcactggaggtcactgtg	12	11	4	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:72427648C>A	uc003dpe.2	-	4	662	c.545G>T	c.(544-546)GGG>GTG	p.G182V		NM_012234	NP_036366	Q8N488	RYBP_HUMAN	RING1 and YY1 binding protein	192	Interaction with E4TF1B.|Ser-rich.				apoptosis|histone H2A monoubiquitination|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleoplasm	DNA binding|protein binding|transcription corepressor activity|zinc ion binding				0		Prostate(10;0.00174)|Lung NSC(201;0.0659)|Myeloproliferative disorder(1037;0.204)		BRCA - Breast invasive adenocarcinoma(55;0.000197)|Epithelial(33;0.00068)|LUSC - Lung squamous cell carcinoma(21;0.00228)|Lung(16;0.00677)|KIRC - Kidney renal clear cell carcinoma(39;0.198)|Kidney(39;0.232)		CTGTTCTGACCCTGCACTGGA	0.542													19	9	---	---	---	---	PASS	A	72427648	A	A	72427648	3	1	70	1	0	0	0	0	1	0	0	0	13766	623	22	3	115	3	RYBP	3	72427648	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	9791117	72427648	125594782	67	27224										
ROBO1	6091	broad.mit.edu	37	chr3	78987941	78987941	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtctccactctctctcccccTttgtaccattcaatagtggg	6	15	4	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:78987941T>G	uc003dqe.2	-	4	517	c.309A>C	c.(307-309)AAA>AAC	p.K103N	ROBO1_uc003dqb.2_Missense_Mutation_p.K64N|ROBO1_uc003dqc.2_Missense_Mutation_p.K64N|ROBO1_uc003dqd.2_Missense_Mutation_p.K64N	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	103	Extracellular (Potential).|Ig-like C2-type 1.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TCTCTCCCCCTTTGTACCATT	0.478													12	55	---	---	---	---	PASS	G	78987941	G	G	78987941	3	3	70	1	0	0	0	0	1	0	0	0	13513	1606	56	5	4771	5	ROBO1	3	78987941	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	6560293	78987941	119034489	68	27225										
CASR	846	broad.mit.edu	37	chr3	122002609	122002609	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctcctgcattgccaaggagaTcgagtttctgtcgtggacgg	13	10	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:122002609T>C	uc003eev.3	+	7	2180	c.1808T>C	c.(1807-1809)ATC>ACC	p.I603T	CASR_uc003eew.3_Missense_Mutation_p.I613T	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	603	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	GCCAAGGAGATCGAGTTTCTG	0.522													25	53	---	---	---	---	PASS	C	122002609	C	C	122002609	3	2	70	1	0	0	0	0	1	0	0	0	2682	1435	50	5	1860	5	CASR	3	122002609	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	43014668	122002609	76019821	69	27226										
RUVBL1	8607	broad.mit.edu	37	chr3	127842517	127842517	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agccctttcacgtggctgtgGgaggcgatgcgctgcgtctt	15	11	2	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:127842517G>A	uc003ekh.2	-	1	155	c.51C>T	c.(49-51)TCC>TCT	p.S17S	RUVBL1_uc003ekf.2_Intron|RUVBL1_uc010hss.2_Silent_p.S17S	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1	17					cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		CGTGGCTGTGGGAGGCGATGC	0.622													4	85	---	---	---	---	PASS	A	127842517	A	A	127842517	2	1	70	1	0	0	0	0	0	0	0	1	13752	1219	43	3		3	RUVBL1	3	127842517	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	5839908	127842517	70179913	70	27227										
CPNE4	131034	broad.mit.edu	37	chr3	131283166	131283166	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	acagctgttcctggggtcccCgtttgaggcagtgaaatcta	12	10	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:131283166C>A	uc003eok.2	-	11	1390	c.955G>T	c.(955-957)GGG>TGG	p.G319W	CPNE4_uc011blq.1_Missense_Mutation_p.G337W|CPNE4_uc003eol.2_Missense_Mutation_p.G337W|CPNE4_uc003eom.2_Missense_Mutation_p.G319W	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	319	VWFA.									upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CTGGGGTCCCCGTTTGAGGCA	0.428													27	62	---	---	---	---	PASS	A	131283166	A	A	131283166	3	1	70	1	0	0	0	0	1	0	0	0	3814	652	23	1	742	1	CPNE4	3	131283166	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	3440649	131283166	66739264	71	27228										
LRRIQ4	344657	broad.mit.edu	37	chr3	169539929	169539929	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttcagcgtttaaagaacatcAgggtcctctacctggataag	9	9	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:169539929A>G	uc003fgb.2	+	1	220	c.220A>G	c.(220-222)AGG>GGG	p.R74G		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	74	LRR 3.										0						AAAGAACATCAGGGTCCTCTA	0.498													54	103	---	---	---	---	PASS	G	169539929	G	G	169539929	3	3	70	1	0	0	0	0	1	0	0	0	9031	179	7	5	222	5	LRRIQ4	3	169539929	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	38256763	169539929	28482501	72	27229										
SPATA16	83893	broad.mit.edu	37	chr3	172674469	172674469	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gaagatattgaatcttacctGtgtacatatactctgcatat	6	7	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:172674469G>A	uc003fin.3	-	6	1237	c.1079C>T	c.(1078-1080)ACA>ATA	p.T360I		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	360					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			AATCTTACCTGTGTACATATA	0.294													13	48	---	---	---	---	PASS	A	172674469	A	A	172674469	3	1	70	1	0	0	0	0	1	0	0	0	15000	1377	48	3	654	3	SPATA16	3	172674469	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	3134540	172674469	25347961	73	27230										
ATP11B	23200	broad.mit.edu	37	chr3	182615170	182615170	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tatattttattttgtattttCcttgttttatggagggattc	7	3	0	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:182615170C>T	uc003flb.2	+	27	3385	c.3128C>T	c.(3127-3129)TCC>TTC	p.S1043F	ATP11B_uc003flc.2_Missense_Mutation_p.S627F|ATP11B_uc010hxf.1_Missense_Mutation_p.S205F|ATP11B_uc010hxg.2_RNA|ATP11B_uc010hxh.1_5'Flank	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	1043	Helical; (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			TTTGTATTTTCCTTGTTTTAT	0.294													31	167	---	---	---	---	PASS	T	182615170	T	T	182615170	3	4	70	1	0	0	0	0	1	0	0	0	1120	855	30	2	3234	2	ATP11B	3	182615170	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	9940701	182615170	15407260	74	27231										
CLCN2	1181	broad.mit.edu	37	chr3	184074816	184074816	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cgattgatggttttctgcttCcgcatcacctggacaatctt	8	11	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr3:184074816C>G	uc003foi.2	-	10	1174	c.1050G>C	c.(1048-1050)CGG>CGC	p.R350R	CLCN2_uc003foh.2_5'UTR|CLCN2_uc010hya.1_Silent_p.R350R|CLCN2_uc011brl.1_Silent_p.R350R|CLCN2_uc011brm.1_Silent_p.R306R|CLCN2_uc011brn.1_Silent_p.R350R	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	350						chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	TTTTCTGCTTCCGCATCACCT	0.532													6	29	---	---	---	---	PASS	G	184074816	G	G	184074816	2	3	70	1	0	0	0	0	0	0	0	1	3463	842	30	2		2	CLCN2	3	184074816	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	1459646	184074816	13947614	75	27232										
PROM1	8842	broad.mit.edu	37	chr4	16035000	16035000	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gggcccattttccttctgtcGctggtgcatttctccaccac	8	15	2	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr4:16035000G>A	uc003goo.2	-	4	648	c.436C>T	c.(436-438)CGA>TGA	p.R146*	PROM1_uc003gor.2_Nonsense_Mutation_p.R146*|PROM1_uc003gos.2_Nonsense_Mutation_p.R137*|PROM1_uc003got.2_Nonsense_Mutation_p.R146*|PROM1_uc003gou.2_Nonsense_Mutation_p.R137*|PROM1_uc003gop.2_Nonsense_Mutation_p.R137*|PROM1_uc003goq.3_Nonsense_Mutation_p.R137*|PROM1_uc010iec.1_Nonsense_Mutation_p.R24*	NM_006017	NP_006008	O43490	PROM1_HUMAN	prominin 1 isoform 1	146	Cytoplasmic (Potential).				camera-type eye photoreceptor cell differentiation|photoreceptor cell maintenance|retina layer formation	apical plasma membrane|cell surface|integral to plasma membrane|microvillus membrane|photoreceptor outer segment membrane|plasma membrane	beta-actinin binding|cadherin binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	7						TCCTTCTGTCGCTGGTGCATT	0.433													9	56	---	---	---	---	PASS	A	16035000	A	A	16035000	4	1	70	1	0	0	0	0	0	1	0	0	12555	1095	38	1	2253	1	PROM1	4	16035000	Nonsense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08		16035000	175119276	76	27233										
YIPF7	285525	broad.mit.edu	37	chr4	44638039	44638039	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aaaaattgtcctgcgtaaccCgatgacatgagcatctctga	8	10	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr4:44638039C>A	uc010ifx.1	-	3	269	c.252G>T	c.(250-252)TCG>TCT	p.S84S	YIPF7_uc010ify.1_Silent_p.S84S	NM_182592	NP_872398	Q8N8F6	YIPF7_HUMAN	Yip1 domain family, member 7	84						endoplasmic reticulum membrane|integral to membrane					0						CTGCGTAACCCGATGACATGA	0.413													24	25	---	---	---	---	PASS	A	44638039	A	A	44638039	2	1	70	1	0	0	0	0	0	0	0	1	17480	639	23	1		1	YIPF7	4	44638039	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	28603039	44638039	146516237	77	27234										
ATP10D	57205	broad.mit.edu	37	chr4	47514670	47514670	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctcgttgctcgcctgtgggcGcaagtcctctcagaccccta	10	16	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr4:47514670G>A	uc003gxk.1	+	2	277	c.113G>A	c.(112-114)CGC>CAC	p.R38H	ATP10D_uc003gxj.3_Missense_Mutation_p.R38H	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	38	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						GCCTGTGGGCGCAAGTCCTCT	0.542													4	71	---	---	---	---	PASS	A	47514670	A	A	47514670	3	1	70	1	0	0	0	0	1	0	0	0	1118	1087	38	1	115	1	ATP10D	4	47514670	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	2876631	47514670	143639606	78	27235										
CWH43	80157	broad.mit.edu	37	chr4	49005812	49005812	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ggcagctgctgtgtctggctGtgtcttcgccatctttactg	12	11	3	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr4:49005812G>A	uc003gyv.2	+	7	1045	c.863G>A	c.(862-864)TGT>TAT	p.C288Y	CWH43_uc011bzl.1_Missense_Mutation_p.C261Y	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	288	Helical; (Potential).				GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						GTGTCTGGCTGTGTCTTCGCC	0.502													52	49	---	---	---	---	PASS	A	49005812	A	A	49005812	3	1	70	1	0	0	0	0	1	0	0	0	4073	1377	48	3	889	3	CWH43	4	49005812	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	1491142	49005812	142148464	79	27236										
TECRL	253017	broad.mit.edu	37	chr4	65180419	65180419	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcttttccatcatatatacaTgggatcctcaaataaaagag	5	8	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr4:65180419T>C	uc003hcv.2	-	5	607	c.498A>G	c.(496-498)CCA>CCG	p.P166P	TECRL_uc003hcw.2_Silent_p.P166P	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	166					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						CATATATACATGGGATCCTCA	0.289													3	77	---	---	---	---	PASS	C	65180419	C	C	65180419	2	2	70	1	0	0	0	0	0	0	0	1	15743	1451	51	5		5	TECRL	4	65180419	Silent	SNP	T	TCGA-34-5239-01A-21D-1817-08	16174607	65180419	125973857	80	27237										
SLC4A4	8671	broad.mit.edu	37	chr4	72316958	72316958	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gatgaatggggatacgccccAtgatggaggtcacggaggag	17	7	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr4:72316958A>G	uc003hfy.2	+	11	1379	c.1262A>G	c.(1261-1263)CAT>CGT	p.H421R	SLC4A4_uc010iic.2_Missense_Mutation_p.H421R|SLC4A4_uc010iib.2_Missense_Mutation_p.H421R|SLC4A4_uc003hfz.2_Missense_Mutation_p.H421R|SLC4A4_uc003hgc.3_Missense_Mutation_p.H377R|SLC4A4_uc010iid.2_5'UTR|SLC4A4_uc003hga.2_Missense_Mutation_p.H299R|SLC4A4_uc003hgb.3_Missense_Mutation_p.H377R	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	421	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			GATACGCCCCATGATGGAGGT	0.443													45	41	---	---	---	---	PASS	G	72316958	G	G	72316958	3	3	70	1	0	0	0	0	1	0	0	0	14656	217	8	5	1421	5	SLC4A4	4	72316958	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	7136539	72316958	118837318	81	27238										
MTTP	4547	broad.mit.edu	37	chr4	100522794	100522794	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aaggttctattggtagcagtGacatcagagaaactgttatg	11	5	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr4:100522794G>A	uc003hvc.3	+	11	1523	c.1267G>A	c.(1267-1269)GAC>AAC	p.D423N	MTTP_uc011cej.1_Missense_Mutation_p.D450N	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	423	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	TGGTAGCAGTGACATCAGAGA	0.358													60	76	---	---	---	---	PASS	A	100522794	A	A	100522794	3	1	70	1	0	0	0	0	1	0	0	0	9964	1290	45	2	1305	2	MTTP	4	100522794	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	28205836	100522794	90631482	82	27239										
AGXT2L1	64850	broad.mit.edu	37	chr4	109674095	109674095	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttcaatgattttcttcacttCatctgcataagcactggctg	6	10	5	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr4:109674095C>T	uc003hzc.2	-	6	755	c.574G>A	c.(574-576)GAA>AAA	p.E192K	AGXT2L1_uc010imc.2_Missense_Mutation_p.E186K|AGXT2L1_uc011cfm.1_Missense_Mutation_p.E152K|AGXT2L1_uc011cfn.1_Missense_Mutation_p.E119K|AGXT2L1_uc011cfo.1_Missense_Mutation_p.E134K	NM_031279	NP_112569	Q8TBG4	AT2L1_HUMAN	alanine-glyoxylate aminotransferase 2-like 1	192					cellular amino acid metabolic process	mitochondrion	alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000281)		TTCTTCACTTCATCTGCATAA	0.363													42	44	---	---	---	---	PASS	T	109674095	T	T	109674095	3	4	70	1	0	0	0	0	1	0	0	0	406	835	29	2	957	2	AGXT2L1	4	109674095	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	9151301	109674095	81480181	83	27240										
ANP32C	23520	broad.mit.edu	37	chr4	165118178	165118178	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctcattttcgcttctgacccCtttcttcttcaccaagctct	3	16	6	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr4:165118178C>A	uc011cjk.1	-	1	686	c.686G>T	c.(685-687)AGG>ATG	p.R229M	MARCH1_uc003iqs.1_Intron	NM_012403	NP_036535	O43423	AN32C_HUMAN	acidic nuclear phosphoprotein 32C	229											0	all_hematologic(180;0.203)	Prostate(90;0.0138)|Melanoma(52;0.18)|all_neural(102;0.223)		KIRC - Kidney renal clear cell carcinoma(143;0.242)		cttctgacccctttcttcttc	0.05													20	16	---	---	---	---	PASS	A	165118178	A	A	165118178	3	1	70	1	0	0	0	0	1	0	0	0	707	681	24	3	21	3	ANP32C	4	165118178	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	55444083	165118178	26036098	84	27241										
DDX60	55601	broad.mit.edu	37	chr4	169204618	169204618	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgtgcctttttgctcttgggCccactaaaatccttctttga	7	11	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr4:169204618C>G	uc003irp.2	-	13	1993	c.1701G>C	c.(1699-1701)GGG>GGC	p.G567G		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	567							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		TGCTCTTGGGCCCACTAAAAT	0.343													3	70	---	---	---	---	PASS	G	169204618	G	G	169204618	2	3	70	1	0	0	0	0	0	0	0	1	4378	726	26	4		4	DDX60	4	169204618	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	4086440	169204618	21949658	85	27242										
WDR17	116966	broad.mit.edu	37	chr4	177017731	177017731	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atgattggtatgaaggactaCaaagagtaagatacatttac	9	4	0	4			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr4:177017731C>A	uc003iuj.2	+	2	217	c.61C>A	c.(61-63)CAA>AAA	p.Q21K	WDR17_uc003iuk.2_Intron|WDR17_uc003ium.3_Intron|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	21										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TGAAGGACTACAAAGAGTAAG	0.338													22	34	---	---	---	---	PASS	A	177017731	A	A	177017731	3	1	70	1	0	0	0	0	1	0	0	0	17274	479	17	3	63	3	WDR17	4	177017731	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	7813113	177017731	14136545	86	27243										
KIAA0947	23379	broad.mit.edu	37	chr5	5465333	5465333	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtttatgaatttagcacaacAaaaaaggtatgtggctgctc	9	6	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr5:5465333A>C	uc003jdm.3	+	13	6108	c.5886A>C	c.(5884-5886)ACA>ACC	p.T1962T		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1962										ovary(1)|central_nervous_system(1)	2						TTAGCACAACAAAAAAGGTAT	0.383													7	5	---	---	---	---	PASS	C	5465333	C	C	5465333	2	2	70	1	0	0	0	0	0	0	0	1	8202	117	5	5		5	KIAA0947	5	5465333	Silent	SNP	A	TCGA-34-5239-01A-21D-1817-08		5465333	175449927	87	27244										
CDH12	1010	broad.mit.edu	37	chr5	22078744	22078744	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gttaggagacctccatcaaaCagaacccagagaagcaggga	11	10	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr5:22078744C>A	uc010iuc.2	-	2	500	c.42G>T	c.(40-42)CTG>CTT	p.L14L	CDH12_uc011cno.1_Silent_p.L14L|CDH12_uc003jgk.2_Silent_p.L14L	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	14					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CTCCATCAAACAGAACCCAGA	0.453										HNSCC(59;0.17)			87	174	---	---	---	---	PASS	A	22078744	A	A	22078744	2	1	70	1	0	0	0	0	0	0	0	1	3098	465	17	3		3	CDH12	5	22078744	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	16613411	22078744	158836516	88	27245										
GDNF	2668	broad.mit.edu	37	chr5	37816199	37816199	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ggcttgaataaaatccatgaCatcatcgaactgatcaggat	8	8	2	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr5:37816199C>A	uc011cpi.1	-	3	390	c.190G>T	c.(190-192)GTC>TTC	p.V64F	GDNF_uc011cpc.1_Intron|GDNF_uc011cpd.1_Missense_Mutation_p.V12F|GDNF_uc011cpe.1_Missense_Mutation_p.V38F|GDNF_uc011cpf.1_Missense_Mutation_p.V38F|GDNF_uc011cpg.1_Missense_Mutation_p.V81F|GDNF_uc011cph.1_Missense_Mutation_p.V55F	NM_000514	NP_000505	P39905	GDNF_HUMAN	glial cell derived neurotrophic factor isoform 1	64					adult locomotory behavior|anti-apoptosis|axon guidance|branching involved in ureteric bud morphogenesis|enteric nervous system development|mRNA stabilization|negative regulation of neuron apoptosis|neural crest cell migration|peristalsis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of dopamine secretion|positive regulation of monooxygenase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|postganglionic parasympathetic nervous system development|regulation of dopamine uptake|signal transduction|sympathetic nervous system development	extracellular region	growth factor activity|protein homodimerization activity				0	all_lung(31;0.00118)					AAATCCATGACATCATCGAAC	0.413													35	59	---	---	---	---	PASS	A	37816199	A	A	37816199	3	1	70	1	0	0	0	0	1	0	0	0	6322	478	17	3	448	3	GDNF	5	37816199	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	15737455	37816199	143099061	89	27246										
IPO11	51194	broad.mit.edu	37	chr5	61779058	61779058	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgaacgattcattgtccaatGtatgaatcttattaagatga	7	5	2	4			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr5:61779058G>T	uc003jtc.2	+	10	1149	c.959G>T	c.(958-960)TGT>TTT	p.C320F	IPO11_uc011cqr.1_Missense_Mutation_p.C360F|IPO11_uc003jtb.1_Missense_Mutation_p.C320F	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	320	HEAT 3.					cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		ATTGTCCAATGTATGAATCTT	0.294													22	23	---	---	---	---	PASS	T	61779058	T	T	61779058	3	4	70	1	0	0	0	0	1	0	0	0	7793	1377	48	3	1117	3	IPO11	5	61779058	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	23962859	61779058	119136202	90	27247										
ADAMTS6	11174	broad.mit.edu	37	chr5	64483906	64483906	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttgttgcagggctctttttcGacaggccggtgtgttaaaca	12	8	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr5:64483906G>T	uc003jtp.2	-	22	3661	c.2847C>A	c.(2845-2847)GTC>GTA	p.V949V	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	949	TSP type-1 3.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		GCTCTTTTTCGACAGGCCGGT	0.507													66	74	---	---	---	---	PASS	T	64483906	T	T	64483906	2	4	70	1	0	0	0	0	0	0	0	1	270	1045	37	2		2	ADAMTS6	5	64483906	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	2704848	64483906	116431354	91	27248										
KCNN2	3781	broad.mit.edu	37	chr5	113740157	113740157	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gttcatggtggacaatggagCagatgactggagaatagcca	14	6	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr5:113740157C>A	uc003kqo.2	+	3	1062	c.605C>A	c.(604-606)GCA>GAA	p.A202E		NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	202						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		GACAATGGAGCAGATGACTGG	0.383													58	66	---	---	---	---	PASS	A	113740157	A	A	113740157	3	1	70	1	0	0	0	0	1	0	0	0	8079	710	25	3	615	3	KCNN2	5	113740157	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	49256251	113740157	67175103	92	27249										
PCDHGA2	56113	broad.mit.edu	37	chr5	140720231	140720231	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	acgcgcccgagatcctgtacCctgccttccccacagacggt	9	18	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr5:140720231C>T	uc003ljk.1	+	1	1878	c.1693C>T	c.(1693-1695)CCT>TCT	p.P565S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.P565S	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	565	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATCCTGTACCCTGCCTTCCC	0.632													73	63	---	---	---	---	PASS	T	140720231	T	T	140720231	3	4	70	1	0	0	0	0	1	0	0	0	11554	623	22	3	1695	3	PCDHGA2	5	140720231	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	26980074	140720231	40195029	93	27250										
FAM71B	153745	broad.mit.edu	37	chr5	156590281	156590281	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctgaggatatgttggcagcaCctgccatggacttgctggat	13	9	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr5:156590281C>G	uc003lwn.2	-	2	1095	c.995G>C	c.(994-996)GGT>GCT	p.G332A		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	332						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GTTGGCAGCACCTGCCATGGA	0.562													9	159	---	---	---	---	PASS	G	156590281	G	G	156590281	3	3	70	1	0	0	0	0	1	0	0	0	5608	507	18	4	826	4	FAM71B	5	156590281	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	15870050	156590281	24324979	94	27251										
DPCR1	135656	broad.mit.edu	37	chr6	30919763	30919763	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gaacacccagaaaagaccacGtcaaccacagagaaaaccac	6	14	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr6:30919763G>A	uc003nsg.2	+	2	3522	c.3522G>A	c.(3520-3522)ACG>ACA	p.T1174T		NM_080870	NP_543146	Q3MIW9	DPCR1_HUMAN	diffuse panbronchiolitis critical region 1	305	Extracellular (Potential).|Thr-rich.					integral to membrane					0						AAAAGACCACGTCAACCACAG	0.468													5	63	---	---	---	---	PASS	A	30919763	A	A	30919763	2	1	70	1	0	0	0	0	0	0	0	1	4712	1132	40	1		1	DPCR1	6	30919763	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08		30919763	140195304	95	27252										
COL11A2	1302	broad.mit.edu	37	chr6	33141171	33141171	+	Frame_Shift_Del	DEL	G	-	-													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ccggcagcccatccttcccaGgggggccctggaaggggttc							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr6:33141171delG	uc003ocx.1	-	37	2918	c.2690delC	c.(2689-2691)CCTfs	p.P897fs	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Frame_Shift_Del_p.P811fs|COL11A2_uc003ocz.1_Frame_Shift_Del_p.P790fs	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	897	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						ATCCTTCCCAGGGGGGCCCTG	0.597													41	28	---	---	---	---		-	33141171	-	-	33141171	7	5	70	1	0	1	0	1	0	0	0	0	3668	1000	35	0	2640	0	COL11A2	6	33141171	Frame_Shift_Del	DEL	G	TCGA-34-5239-01A-21D-1817-08	2221408	33141171	137973896	96	27253										
SLC26A8	116369	broad.mit.edu	37	chr6	35922948	35922948	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cctgtcttaatacgactaacCcccgtgaatccacgtagtgt	7	13	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr6:35922948C>T	uc003olm.2	-	17	2324	c.2213G>A	c.(2212-2214)GGG>GAG	p.G738E	SLC26A8_uc010jwa.2_RNA|SLC26A8_uc003olk.2_Missense_Mutation_p.G320E|SLC26A8_uc003oln.2_Missense_Mutation_p.G738E|SLC26A8_uc003oll.2_Missense_Mutation_p.G633E	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	738	Interaction with RACGAP1.|STAS.|Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						TACGACTAACCCCCGTGAATC	0.527													37	43	---	---	---	---	PASS	T	35922948	T	T	35922948	3	4	70	1	0	0	0	0	1	0	0	0	14523	623	22	3	715	3	SLC26A8	6	35922948	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	2781777	35922948	135192119	97	27254										
PRIM2	5558	broad.mit.edu	37	chr6	57467142	57467142	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aaggaaggcaagaggacagaCtatacacctttcagttgcct	10	9	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr6:57467142C>A	uc003pdx.2	+	12	1170	c.1083C>A	c.(1081-1083)GAC>GAA	p.D361E		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	361					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		AGAGGACAGACTATACACCTT	0.438													9	103	---	---	---	---	PASS	A	57467142	A	A	57467142	3	1	70	1	0	0	0	0	1	0	0	0	12491	564	20	3	1121	3	PRIM2	6	57467142	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	21544194	57467142	113647925	98	27255										
B3GAT2	135152	broad.mit.edu	37	chr6	71666003	71666003	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ggcgcccccgcggcccaccgCgtagggagagaagtaggggc	18	14	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr6:71666003C>A	uc003pfv.2	-	1	786	c.130G>T	c.(130-132)GCG>TCG	p.A44S	B3GAT2_uc011dxz.1_RNA|B3GAT2_uc003pfw.2_Missense_Mutation_p.A44S	NM_080742	NP_542780	Q9NPZ5	B3GA2_HUMAN	beta-1,3-glucuronyltransferase 2	44	Lumenal (Potential).				carbohydrate biosynthetic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						CGGCCCACCGCGTAGGGAGAG	0.706													6	6	---	---	---	---	PASS	A	71666003	A	A	71666003	3	1	70	1	0	0	0	0	1	0	0	0	1254	768	27	1	857	1	B3GAT2	6	71666003	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	14198861	71666003	99449064	99	27256										
SNAP91	9892	broad.mit.edu	37	chr6	84417641	84417641	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cgatccgtgagcgtttggccCgacatcttctgtggtcgcgt	13	12	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr6:84417641C>A	uc011dze.1	-	2	323	c.6G>T	c.(4-6)TCG>TCT	p.S2S	SNAP91_uc003pkb.2_5'UTR|SNAP91_uc003pkc.2_Silent_p.S2S|SNAP91_uc003pkd.2_Silent_p.S2S|SNAP91_uc003pka.2_Silent_p.S2S|SNAP91_uc011dzf.1_5'UTR	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	2					clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		GCGTTTGGCCCGACATCTTCT	0.587													24	13	---	---	---	---	PASS	A	84417641	A	A	84417641	2	1	70	1	0	0	0	0	0	0	0	1	14833	639	23	1		1	SNAP91	6	84417641	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	12751638	84417641	86697426	100	27257										
GPRC6A	222545	broad.mit.edu	37	chr6	117113452	117113452	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gagctgggattggtcattgtGacattgccgctcatggagtc	14	8	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr6:117113452G>C	uc003pxj.1	-	6	2656	c.2634C>G	c.(2632-2634)GTC>GTG	p.V878V	GPRC6A_uc003pxk.1_Silent_p.V703V|GPRC6A_uc003pxl.1_Silent_p.V807V	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	878	Cytoplasmic (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		TGGTCATTGTGACATTGCCGC	0.478													56	47	---	---	---	---	PASS	C	117113452	C	C	117113452	2	2	70	1	0	0	0	0	0	0	0	1	6728	1277	45	2		2	GPRC6A	6	117113452	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	32695811	117113452	54001615	101	27258										
LAMA2	3908	broad.mit.edu	37	chr6	129612857	129612857	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttcagggtcagagatgtgacAaatgcaaggtaaggagtaga	14	4	2	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr6:129612857A>G	uc003qbn.2	+	20	2953	c.2848A>G	c.(2848-2850)AAA>GAA	p.K950E	LAMA2_uc003qbo.2_Missense_Mutation_p.K950E	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	950	Laminin EGF-like 9.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GAGATGTGACAAATGCAAGGT	0.443													28	22	---	---	---	---	PASS	G	129612857	G	G	129612857	3	3	70	1	0	0	0	0	1	0	0	0	8606	131	5	5	2926	5	LAMA2	6	129612857	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	12499405	129612857	41502210	102	27259										
AGPAT4	56895	broad.mit.edu	37	chr6	161587397	161587397	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttgaggtaggcgcgcgggtcCgtgaagatggtgcattccgt	17	8	0	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr6:161587397C>T	uc003qtr.1	-	3	458	c.231G>A	c.(229-231)ACG>ACA	p.T77T	AGPAT4_uc003qts.1_Intron|AGPAT4_uc011egb.1_Intron|AGPAT4_uc003qtt.1_RNA|AGPAT4_uc011egc.1_Silent_p.T77T|AGPAT4_uc011egd.1_Silent_p.T15T|AGPAT4_uc011ege.1_Intron	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	77					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		CGCGCGGGTCCGTGAAGATGG	0.527													23	32	---	---	---	---	PASS	T	161587397	T	T	161587397	2	4	70	1	0	0	0	0	0	0	0	1	389	639	23	1		1	AGPAT4	6	161587397	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	31974540	161587397	9527670	103	27260										
INTS1	26173	broad.mit.edu	37	chr7	1527456	1527456	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgctctcagtgatggtctgcTtggtggacgcggccgccagg	16	11	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:1527456T>C	uc003skn.2	-	19	2557	c.2456A>G	c.(2455-2457)AAG>AGG	p.K819R	INTS1_uc003skp.1_Missense_Mutation_p.K166R	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	819					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		GATGGTCTGCTTGGTGGACGC	0.692													18	62	---	---	---	---	PASS	C	1527456	C	C	1527456	3	2	70	1	0	0	0	0	1	0	0	0	7775	1609	56	5	4236	5	INTS1	7	1527456	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08		1527456	157611207	104	27261										
STK31	56164	broad.mit.edu	37	chr7	23757098	23757098	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atactatatctaatctttctAgagtatcaatagaaataagg	5	5	4	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:23757098A>G	uc003sws.3	+	4	218	c.151_splice	c.e4-2	p.S51_splice	STK31_uc003swt.3_Splice_Site_p.S28_splice|STK31_uc011jze.1_Splice_Site_p.S51_splice|STK31_uc010kuq.2_Splice_Site_p.S28_splice	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a								ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						TAATCTTTCTAGAGTATCAAT	0.353													13	28	---	---	---	---	PASS	G	23757098	G	G	23757098	5	3	70	1	0	0	0	0	0	0	1	0	15295	434	15	5	163	5	STK31	7	23757098	Splice_Site	SNP	A	TCGA-34-5239-01A-21D-1817-08	22229642	23757098	135381565	105	27262										
NFE2L3	9603	broad.mit.edu	37	chr7	26224208	26224208	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tatcagtgatggcatgaattCttcagcacattatcatgtaa	7	7	4	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:26224208C>A	uc003sxq.2	+	4	1162	c.890C>A	c.(889-891)TCT>TAT	p.S297Y		NM_004289	NP_004280	Q9Y4A8	NF2L3_HUMAN	nuclear factor erythroid 2-like 3	297					transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			skin(3)|ovary(1)	4						GGCATGAATTCTTCAGCACAT	0.403													18	166	---	---	---	---	PASS	A	26224208	A	A	26224208	3	1	70	1	0	0	0	0	1	0	0	0	10369	913	32	2	904	2	NFE2L3	7	26224208	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	2467110	26224208	132914455	106	27263										
PLEKHA8	84725	broad.mit.edu	37	chr7	30101578	30101578	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctccagaagatagtgctgcaCgaagtggaggcggatgtagc	15	8	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:30101578C>T	uc003tam.1	+	11	1255	c.1164C>T	c.(1162-1164)CAC>CAT	p.H388H	PLEKHA8_uc003tao.2_Silent_p.H272H|PLEKHA8_uc003tap.1_Silent_p.H388H|PLEKHA8_uc003tan.2_Silent_p.H388H	NM_032639	NP_116028	Q96JA3	PKHA8_HUMAN	pleckstrin homology domain containing, family A	388					protein transport	cytoplasm	glycolipid binding|glycolipid transporter activity			breast(3)|ovary(1)	4						TAGTGCTGCACGAAGTGGAGG	0.473											OREG0017934	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	30	---	---	---	---	PASS	T	30101578	T	T	30101578	2	4	70	1	0	0	0	0	0	0	0	1	12062	535	19	1		1	PLEKHA8	7	30101578	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	3877370	30101578	129037085	107	27264										
INMT	11185	broad.mit.edu	37	chr7	30793447	30793447	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	caagacatcactctctccgaCtttaccgaccgcaaccggga	7	16	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:30793447C>A	uc003tbs.1	+	2	271	c.255C>A	c.(253-255)GAC>GAA	p.D85E	FAM188B_uc010kwe.2_5'UTR|INMT_uc010kwc.1_RNA|INMT_uc010kwd.1_Missense_Mutation_p.D84E	NM_006774	NP_006765	O95050	INMT_HUMAN	indolethylamine N-methyltransferase	85	S-adenosyl-L-methionine binding.					cytoplasm	amine N-methyltransferase activity				0						CTCTCTCCGACTTTACCGACC	0.567													105	172	---	---	---	---	PASS	A	30793447	A	A	30793447	3	1	70	1	0	0	0	0	1	0	0	0	7745	564	20	3	261	3	INMT	7	30793447	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	691869	30793447	128345216	108	27265										
BBS9	27241	broad.mit.edu	37	chr7	33407434	33407434	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtaatgggttttcacttcttAggaggtgctcgaattactgt	11	6	2	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:33407434A>T	uc003tdn.1	+	17	2262	c.1749A>T	c.(1747-1749)TTA>TTT	p.L583F	BBS9_uc003tdo.1_Missense_Mutation_p.L548F|BBS9_uc003tdp.1_Missense_Mutation_p.L578F|BBS9_uc003tdq.1_Missense_Mutation_p.L543F|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Missense_Mutation_p.L107F|BBS9_uc003tds.1_Missense_Mutation_p.L6F|BBS9_uc011kao.1_Missense_Mutation_p.L461F	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	583					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			TTCACTTCTTAGGAGGTGCTC	0.363									Bardet-Biedl_syndrome				22	111	---	---	---	---	PASS	T	33407434	T	T	33407434	3	4	70	1	0	0	0	0	1	0	0	0	1342	417	15	5	1811	5	BBS9	7	33407434	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	2613987	33407434	125731229	109	27266										
ADCY1	107	broad.mit.edu	37	chr7	45725649	45725649	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ccagcgcacagccctgcccaCcctgccctgcgagtctacac	8	21	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:45725649C>A	uc003tne.3	+	13	2180	c.2162C>A	c.(2161-2163)ACC>AAC	p.T721N		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	721					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GCCCTGCCCACCCTGCCCTGC	0.637													17	34	---	---	---	---	PASS	A	45725649	A	A	45725649	3	1	70	1	0	0	0	0	1	0	0	0	292	507	18	3	2212	3	ADCY1	7	45725649	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	12318215	45725649	113413014	110	27267										
UPP1	7378	broad.mit.edu	37	chr7	48146663	48146663	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtggggaacaccatgtgcacCttggacttctatgaaggtga	13	8	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:48146663C>G	uc003toj.2	+	8	1159	c.630C>G	c.(628-630)ACC>ACG	p.T210T	UPP1_uc003tok.2_Silent_p.T210T|UPP1_uc003tol.2_Silent_p.T210T|UPP1_uc011kch.1_Silent_p.T3T|UPP1_uc003ton.2_Silent_p.T73T|UPP1_uc003too.2_Silent_p.T73T	NM_181597	NP_853628	Q16831	UPP1_HUMAN	uridine phosphorylase 1	210					nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage	cytosol	uridine phosphorylase activity				0						CCATGTGCACCTTGGACTTCT	0.577													26	42	---	---	---	---	PASS	G	48146663	G	G	48146663	2	3	70	1	0	0	0	0	0	0	0	1	17009	668	24	4		4	UPP1	7	48146663	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	2421014	48146663	110992000	111	27268										
GRB10	2887	broad.mit.edu	37	chr7	50680468	50680468	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctgaacgctgtcatccagcaCgtcctggtttgctcgtcctc	9	15	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:50680468C>A	uc003tpi.2	-	10	1195	c.1164G>T	c.(1162-1164)ACG>ACT	p.T388T	GRB10_uc003tph.3_Silent_p.T330T|GRB10_uc003tpj.2_Silent_p.T342T|GRB10_uc003tpk.2_Silent_p.T388T|GRB10_uc010kzb.2_Silent_p.T330T|GRB10_uc003tpl.2_Silent_p.T382T|GRB10_uc003tpm.2_Silent_p.T330T|GRB10_uc003tpn.2_Silent_p.T330T	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	388	PH.				insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					TCATCCAGCACGTCCTGGTTT	0.473									Russell-Silver_syndrome				8	35	---	---	---	---	PASS	A	50680468	A	A	50680468	2	1	70	1	0	0	0	0	0	0	0	1	6756	523	19	1		1	GRB10	7	50680468	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	2533805	50680468	108458195	112	27269										
HIP1	3092	broad.mit.edu	37	chr7	75228545	75228545	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gccacttcctgcgtattaatGgccttattgatgctgacagt	9	10	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:75228545G>A	uc003uds.1	-	2	182	c.141C>T	c.(139-141)GCC>GCT	p.A47A		NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	47	ENTH.				activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						GCGTATTAATGGCCTTATTGA	0.502			T	PDGFRB	CMML								29	142	---	---	---	---	PASS	A	75228545	A	A	75228545	2	1	70	1	0	0	0	0	0	0	0	1	7114	1335	47	3		3	HIP1	7	75228545	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	24548077	75228545	83910118	113	27270										
ZAN	7455	broad.mit.edu	37	chr7	100364844	100364844	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtccacgtgacagtctttgaCctcagcatctcactgctcag	8	14	4	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:100364844C>A	uc003uwj.2	+	25	4989	c.4824C>A	c.(4822-4824)GAC>GAA	p.D1608E	ZAN_uc003uwk.2_Missense_Mutation_p.D1608E|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kkd.1_Missense_Mutation_p.D185E	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1608	Extracellular (Potential).|VWFD 2.				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CAGTCTTTGACCTCAGCATCT	0.577													9	45	---	---	---	---	PASS	A	100364844	A	A	100364844	3	1	70	1	0	0	0	0	1	0	0	0	17510	506	18	3	4918	3	ZAN	7	100364844	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	25136299	100364844	58773819	114	27271										
ATXN7L1	222255	broad.mit.edu	37	chr7	105516902	105516902	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cgcctccggactgggcacttTgcgatccagtgtcgccattg	12	14	0	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:105516902T>C	uc003vde.2	-	1	130	c.103A>G	c.(103-105)AAA>GAA	p.K35E	ATXN7L1_uc003vdi.2_Missense_Mutation_p.K35E|CDHR3_uc003vdk.2_5'Flank|uc003vdj.1_5'Flank	NM_020725	NP_065776	Q9ULK2	AT7L1_HUMAN	ataxin 7-like 1 isoform 1	35											0						CTGGGCACTTTGCGATCCAGT	0.582													5	29	---	---	---	---	PASS	C	105516902	C	C	105516902	3	2	70	1	0	0	0	0	1	0	0	0	1216	1821	63	5	2623	5	ATXN7L1	7	105516902	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	5152058	105516902	53621761	115	27272										
PIK3CG	5294	broad.mit.edu	37	chr7	106508148	106508148	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agttcgtgctgcccaccagcCagcgcaaatgcaagagcccc	10	16	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:106508148C>A	uc003vdv.3	+	2	227	c.142C>A	c.(142-144)CAG>AAG	p.Q48K	PIK3CG_uc003vdu.2_Missense_Mutation_p.Q48K|PIK3CG_uc003vdw.2_Missense_Mutation_p.Q48K	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	48					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						GCCCACCAGCCAGCGCAAATG	0.672													8	53	---	---	---	---	PASS	A	106508148	A	A	106508148	3	1	70	1	0	0	0	0	1	0	0	0	11916	595	21	3	144	3	PIK3CG	7	106508148	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	991246	106508148	52630515	116	27273										
FAM3C	10447	broad.mit.edu	37	chr7	121004196	121004196	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gttcttaccatttgccaaggCaacattgatccctcttccaa	5	13	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:121004196C>A	uc003vjx.2	-	6	567	c.319G>T	c.(319-321)GCC>TCC	p.A107S	FAM3C_uc010lkm.2_Missense_Mutation_p.A107S	NM_014888	NP_055703	Q92520	FAM3C_HUMAN	family with sequence similarity 3, member C	107					multicellular organismal development	cytoplasmic membrane-bounded vesicle|extracellular region	cytokine activity				0	all_neural(327;0.117)					TTTGCCAAGGCAACATTGATC	0.318													6	48	---	---	---	---	PASS	A	121004196	A	A	121004196	3	1	70	1	0	0	0	0	1	0	0	0	5558	710	25	3	384	3	FAM3C	7	121004196	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	14496048	121004196	38134467	117	27274										
PTPRZ1	5803	broad.mit.edu	37	chr7	121651116	121651116	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gttggatcaggcagagagagCtttctccagactaattacac	10	9	2	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:121651116C>T	uc003vjy.2	+	12	2411	c.2016C>T	c.(2014-2016)AGC>AGT	p.S672S	PTPRZ1_uc003vjz.2_Silent_p.S672S|PTPRZ1_uc011knt.1_Silent_p.S122S	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	672	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						GCAGAGAGAGCTTTCTCCAGA	0.463													13	64	---	---	---	---	PASS	T	121651116	T	T	121651116	2	4	70	1	0	0	0	0	0	0	0	1	12814	796	28	3		3	PTPRZ1	7	121651116	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	646920	121651116	37487547	118	27275										
IQUB	154865	broad.mit.edu	37	chr7	123152383	123152383	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgagcttcatacttctcctgTtgattagacattttcctgaa	6	9	2	4			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:123152383T>A	uc003vkn.2	-	2	589	c.12A>T	c.(10-12)CAA>CAT	p.Q4H	IQUB_uc003vko.2_Missense_Mutation_p.Q4H|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Missense_Mutation_p.Q4H|IQUB_uc003vkq.2_Missense_Mutation_p.Q4H	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	4				Q -> R (in Ref. 1; BAC04074).						ovary(3)|large_intestine(1)	4						ACTTCTCCTGTTGATTAGACA	0.328													6	39	---	---	---	---	PASS	A	123152383	A	A	123152383	3	1	70	1	0	0	0	0	1	0	0	0	7820	1722	60	5	2411	5	IQUB	7	123152383	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	1501267	123152383	35986280	119	27276										
GRM8	2918	broad.mit.edu	37	chr7	126173479	126173479	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	catgccaagtcctaggaagaCccgtcggaaggagcatatga	12	10	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:126173479C>G	uc003vlr.2	-	8	2268	c.1957G>C	c.(1957-1959)GTC>CTC	p.V653L	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.V653L|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	653	Helical; Name=3; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	CCTAGGAAGACCCGTCGGAAG	0.448										HNSCC(24;0.065)			37	65	---	---	---	---	PASS	G	126173479	G	G	126173479	3	3	70	1	0	0	0	0	1	0	0	0	6803	507	18	4	831	4	GRM8	7	126173479	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	3021096	126173479	32965184	120	27277										
EXOC4	60412	broad.mit.edu	37	chr7	133059665	133059665	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgtggtcctgggatacctgcAggacactgtagtgactccac	12	11	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:133059665A>T	uc003vrk.2	+	7	1126	c.1091A>T	c.(1090-1092)CAG>CTG	p.Q364L	EXOC4_uc011kpo.1_Missense_Mutation_p.Q263L|EXOC4_uc003vri.2_Missense_Mutation_p.Q364L|EXOC4_uc003vrj.2_Missense_Mutation_p.Q364L	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	364					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				GGATACCTGCAGGACACTGTA	0.458													10	71	---	---	---	---	PASS	T	133059665	T	T	133059665	3	4	70	1	0	0	0	0	1	0	0	0	5306	188	7	5	1117	5	EXOC4	7	133059665	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	6886186	133059665	26078998	121	27278										
MLL3	58508	broad.mit.edu	37	chr7	151884527	151884527	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgtccaagagttgttaggatCacttgccattggattaaagg	11	6	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr7:151884527C>G	uc003wla.2	-	33	5047	c.4828G>C	c.(4828-4830)GAT>CAT	p.D1610H	MLL3_uc003wkz.2_Missense_Mutation_p.D671H	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1610					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTGTTAGGATCACTTGCCATT	0.363			N		medulloblastoma								104	200	---	---	---	---	PASS	G	151884527	G	G	151884527	3	3	70	1	0	0	0	0	1	0	0	0	9622	826	29	2	10015	2	MLL3	7	151884527	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	18824862	151884527	7254136	122	27279										
ST18	9705	broad.mit.edu	37	chr8	53084559	53084559	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	actaccctcttccgtcattaCtgccaggctctcgctatctt	5	16	4	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr8:53084559C>G	uc003xqz.2	-	5	1018	c.862G>C	c.(862-864)GTA>CTA	p.V288L	ST18_uc011ldq.1_5'UTR|ST18_uc011ldr.1_Missense_Mutation_p.V253L|ST18_uc011lds.1_Missense_Mutation_p.V193L|ST18_uc003xra.2_Missense_Mutation_p.V288L|ST18_uc003xrb.2_Missense_Mutation_p.V288L	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	288						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				TCCGTCATTACTGCCAGGCTC	0.537													54	57	---	---	---	---	PASS	G	53084559	G	G	53084559	3	3	70	1	0	0	0	0	1	0	0	0	15211	565	20	4	2349	4	ST18	8	53084559	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08		53084559	93279463	123	27280										
RB1CC1	9821	broad.mit.edu	37	chr8	53570240	53570240	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgaatccaagtctaaagaaaCttggtgaatagtctgttcta	8	6	3	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr8:53570240C>T	uc003xre.3	-	15	2707	c.2149G>A	c.(2149-2151)GTT>ATT	p.V717I	RB1CC1_uc003xrf.3_Missense_Mutation_p.V717I	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	717					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				TCTAAAGAAACTTGGTGAATA	0.348													54	36	---	---	---	---	PASS	T	53570240	T	T	53570240	3	4	70	1	0	0	0	0	1	0	0	0	13099	565	20	3	2675	3	RB1CC1	8	53570240	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	485681	53570240	92793782	124	27281										
PREX2	80243	broad.mit.edu	37	chr8	68934375	68934375	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	acaatccggacatttcttttGgtaagtgtatatttatgtgt	8	5	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr8:68934375G>C	uc003xxv.1	+	4	468	c.441G>C	c.(439-441)TTG>TTC	p.L147F	PREX2_uc003xxu.1_Missense_Mutation_p.L147F|PREX2_uc011lez.1_Missense_Mutation_p.L82F	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	147	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CATTTCTTTTGGTAAGTGTAT	0.338													24	30	---	---	---	---	PASS	C	68934375	C	C	68934375	3	2	70	1	0	0	0	0	1	0	0	0	12477	1362	47	4	455	4	PREX2	8	68934375	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	15364135	68934375	77429647	125	27282										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885462	88885462	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agatcaatgccaaagatctcCccagagcgacagccattaaa	7	12	2	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr8:88885462C>A	uc003ydz.2	-	1	835	c.738G>T	c.(736-738)GGG>GGT	p.G246G		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	246										ovary(1)	1						CAAAGATCTCCCCAGAGCGAC	0.522													65	48	---	---	---	---	PASS	A	88885462	A	A	88885462	2	1	70	1	0	0	0	0	0	0	0	1	4272	610	22	3		3	DCAF4L2	8	88885462	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	19951087	88885462	57478560	126	27283										
RIPK2	8767	broad.mit.edu	37	chr8	90798854	90798854	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cctctcagctccatgaaaatAgtggttctcctgaaacttca	6	12	3	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr8:90798854A>G	uc003yee.2	+	9	1377	c.1063A>G	c.(1063-1065)AGT>GGT	p.S355G	RIPK2_uc003yef.2_Missense_Mutation_p.S218G	NM_003821	NP_003812	O43353	RIPK2_HUMAN	receptor-interacting serine-threonine kinase 2	355					activation of MAPK activity|anti-apoptosis|apoptosis|inflammatory response|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|CARD domain binding|LIM domain binding|protein homodimerization activity|protein serine/threonine kinase activity|signal transducer activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.0474)			CCATGAAAATAGTGGTTCTCC	0.318													11	140	---	---	---	---	PASS	G	90798854	G	G	90798854	3	3	70	1	0	0	0	0	1	0	0	0	13381	420	15	5	1097	5	RIPK2	8	90798854	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	1913392	90798854	55565168	127	27284										
VPS13B	157680	broad.mit.edu	37	chr8	100454784	100454784	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctctgtttgcctcaaataaaGattattagtgctgggcacaa	8	8	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr8:100454784G>C	uc003yiv.2	+	23	3477	c.3366G>C	c.(3364-3366)AAG>AAC	p.K1122N	VPS13B_uc003yiw.2_Missense_Mutation_p.K1122N|VPS13B_uc003yiu.1_Missense_Mutation_p.K1122N|VPS13B_uc003yix.1_Missense_Mutation_p.K592N	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1122					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CTCAAATAAAGATTATTAGTG	0.418													55	49	---	---	---	---	PASS	C	100454784	C	C	100454784	3	2	70	1	0	0	0	0	1	0	0	0	17187	933	33	2	3575	2	VPS13B	8	100454784	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	9655930	100454784	45909238	128	27285										
VPS13B	157680	broad.mit.edu	37	chr8	100833601	100833602	+	In_Frame_Ins	INS	-	GAC	GAC													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	attaaactggtccataacctINSgacatctccaaagtggaaag							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr8:100833601_100833602insGAC	uc003yiv.2	+	50	9260_9261	c.9149_9150insGAC	c.(9148-9150)CTG>CTGACG	p.3051_3052insT	VPS13B_uc003yiw.2_In_Frame_Ins_p.3026_3027insT	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3051_3052					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			GTCCATAACCTGACATCTCCAA	0.396													74	62	---	---	---	---		GAC	100833602	GAC	GAC	100833601	7	5	70	1	0	1	1	0	0	0	0	0	17187	1580	55	0	9537	0	VPS13B	8	100833601	In_Frame_Ins	INS	-	TCGA-34-5239-01A-21D-1817-08	378817	100833601	45530421	129	27286										
GRHL2	79977	broad.mit.edu	37	chr8	102656426	102656426	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttggtccagtgccttcaaagCagatgaaagaagaagggaca	12	7	1	4			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr8:102656426C>G	uc010mbu.2	+	13	1915	c.1585C>G	c.(1585-1587)CAG>GAG	p.Q529E		NM_024915	NP_079191	Q6ISB3	GRHL2_HUMAN	transcription factor CP2-like 3	529						cytoplasm|nucleus	DNA binding			ovary(2)|skin(1)	3	all_cancers(14;4.39e-08)|all_epithelial(15;4.09e-10)|Lung NSC(17;7.11e-06)|all_lung(17;1.44e-05)		Epithelial(11;5.81e-09)|all cancers(13;3.81e-07)|OV - Ovarian serous cystadenocarcinoma(57;0.000213)			GCCTTCAAAGCAGATGAAAGA	0.502													3	47	---	---	---	---	PASS	G	102656426	G	G	102656426	3	3	70	1	0	0	0	0	1	0	0	0	6764	711	25	4	1635	4	GRHL2	8	102656426	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	1822825	102656426	43707596	130	27287										
EIF3E	3646	broad.mit.edu	37	chr8	109241415	109241415	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	acttaaagcatttctatctgTtgctggaacctgtttaagaa	7	7	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr8:109241415T>C	uc003ymu.2	-	6	509	c.481A>G	c.(481-483)ACA>GCA	p.T161A	EIF3E_uc003ymt.2_Missense_Mutation_p.T112A|EIF3E_uc003ymv.2_Missense_Mutation_p.T68A|EIF3E_uc010mci.1_Missense_Mutation_p.T161A	NM_001568	NP_001559	P60228	EIF3E_HUMAN	eukaryotic translation initiation factor 3,	161	Sufficient for interaction with TRIM27.				negative regulation of translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|eukaryotic translation initiation factor 3 complex|PML body	protein N-terminus binding			ovary(2)|kidney(1)	3			OV - Ovarian serous cystadenocarcinoma(57;6.84e-10)			TTTCTATCTGTTGCTGGAACC	0.363													40	45	---	---	---	---	PASS	C	109241415	C	C	109241415	3	2	70	1	0	0	0	0	1	0	0	0	5015	1725	60	5	888	5	EIF3E	8	109241415	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	6584989	109241415	37122607	131	27288										
FAM135B	51059	broad.mit.edu	37	chr8	139163936	139163936	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cacctgatgttgagagagacCctcaacctctgagatgccac	9	13	2	4			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr8:139163936C>A	uc003yuy.2	-	13	2953	c.2782G>T	c.(2782-2784)GGT>TGT	p.G928C	FAM135B_uc003yux.2_Missense_Mutation_p.G829C|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.G490C|FAM135B_uc003yvb.2_Missense_Mutation_p.G490C	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	928										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)			TGAGAGAGACCCTCAACCTCT	0.502										HNSCC(54;0.14)			91	75	---	---	---	---	PASS	A	139163936	A	A	139163936	3	1	70	1	0	0	0	0	1	0	0	0	5449	623	22	3	1470	3	FAM135B	8	139163936	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	29922521	139163936	7200086	132	27289										
ZNF517	340385	broad.mit.edu	37	chr8	146033405	146033405	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	caggcgggggacccgccccaCgagtgcccggtgtgcgggag	19	14	0	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr8:146033405C>T	uc003zed.1	+	5	1211	c.1104C>T	c.(1102-1104)CAC>CAT	p.H368H	ZNF517_uc010mgd.1_Silent_p.H274H|ZNF517_uc003zee.1_RNA|ZNF517_uc011llm.1_Silent_p.H274H|ZNF517_uc003zef.1_Intron	NM_213605	NP_998770	Q6ZMY9	ZN517_HUMAN	zinc finger protein 517	368	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;5.47e-39)|OV - Ovarian serous cystadenocarcinoma(54;6.38e-39)|all cancers(56;5.47e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)			ACCCGCCCCACGAGTGCCCGG	0.746													10	4	---	---	---	---	PASS	T	146033405	T	T	146033405	2	4	70	1	0	0	0	0	0	0	0	1	17958	535	19	1		1	ZNF517	8	146033405	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	6869469	146033405	330617	133	27290										
GCNT1	2650	broad.mit.edu	37	chr9	79117766	79117766	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	attgcattcatgtggacacaAaatccgaggattcctattta	7	8	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr9:79117766A>G	uc010mpf.2	+	3	810	c.469A>G	c.(469-471)AAA>GAA	p.K157E	GCNT1_uc010mpg.2_Missense_Mutation_p.K157E|GCNT1_uc010mph.2_Missense_Mutation_p.K157E|GCNT1_uc004akf.3_Missense_Mutation_p.K157E|GCNT1_uc010mpi.2_Missense_Mutation_p.K157E|GCNT1_uc004akh.3_Missense_Mutation_p.K157E	NM_001490	NP_001481	Q02742	GCNT1_HUMAN	beta-1,3-galactosyl-O-glycosyl-glycoprotein	157	Lumenal (Potential).|Catalytic (By similarity).				protein O-linked glycosylation	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity				0						TGTGGACACAAAATCCGAGGA	0.438													105	31	---	---	---	---	PASS	G	79117766	G	G	79117766	3	3	70	1	0	0	0	0	1	0	0	0	6300	15	1	5	471	5	GCNT1	9	79117766	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08		79117766	62095665	134	27291										
KIAA1529	57653	broad.mit.edu	37	chr9	100139102	100139102	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tccaggatgactgtacatctCagataaaggaggctcagcgc	11	10	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr9:100139102C>T	uc011lut.1	+	49	6222	c.5449C>T	c.(5449-5451)CAG>TAG	p.Q1817*	KIAA1529_uc004axe.1_Nonsense_Mutation_p.Q1623*|KIAA1529_uc004axg.1_Nonsense_Mutation_p.Q1678*|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Nonsense_Mutation_p.Q771*	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				CTGTACATCTCAGATAAAGGA	0.502													47	36	---	---	---	---	PASS	T	100139102	T	T	100139102	4	4	70	1	0	0	0	0	0	1	0	0	8240	827	29	2	5017	2	KIAA1529	9	100139102	Nonsense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	21021336	100139102	41074329	135	27292										
ABCA1	19	broad.mit.edu	37	chr9	107549168	107549168	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	acggacctatgagatgtaagCactactgatctcccctcctt	7	13	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr9:107549168C>T	uc004bcl.2	-	47	6607	c.6294G>A	c.(6292-6294)GTG>GTA	p.V2098V	NIPSNAP3B_uc004bcj.1_Intron	NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	2098	ABC transporter 2.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GAGATGTAAGCACTACTGATC	0.433													74	61	---	---	---	---	PASS	T	107549168	T	T	107549168	2	4	70	1	0	0	0	0	0	0	0	1	28	697	25	3		3	ABCA1	9	107549168	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	7410066	107549168	33664263	136	27293										
IKBKAP	8518	broad.mit.edu	37	chr9	111640380	111640380	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttctgtaattcccttccttgTtcatcaaactcaaagagaaa	4	10	4	1	rs149038322		TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr9:111640380T>C	uc004bdm.3	-	35	4270	c.3750A>G	c.(3748-3750)GAA>GAG	p.E1250E	IKBKAP_uc004bdl.2_Silent_p.E901E|IKBKAP_uc011lwc.1_Silent_p.E1136E|IKBKAP_uc010mtq.2_Silent_p.E901E|IKBKAP_uc004bdk.2_Silent_p.E254E|IKBKAP_uc010mtp.2_RNA	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	1250					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						CCCTTCCTTGTTCATCAAACT	0.378													66	30	---	---	---	---	PASS	C	111640380	C	C	111640380	2	2	70	1	0	0	0	0	0	0	0	1	7610	1722	60	5		5	IKBKAP	9	111640380	Silent	SNP	T	TCGA-34-5239-01A-21D-1817-08	4091212	111640380	29573051	137	27294										
ZFP37	7539	broad.mit.edu	37	chr9	115805750	115805750	+	Missense_Mutation	SNP	C	A	A													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agctgtgtctgaaggttttcCcacattcagcacattcatag							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr9:115805750C>A	uc004bgm.1	-	4	1176	c.1148G>T	c.(1147-1149)GGG>GTG	p.G383V	ZFP37_uc011lwz.1_Missense_Mutation_p.G398V|ZFP37_uc011lxa.1_Missense_Mutation_p.G384V	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	383	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GAAGGTTTTCCCACATTCAGC	0.413													116	64	---	---	---	---	PASS	A	115805750	A	A	115805750	3	1	70	1	0	0	0	0	1	0	0	0	17645	623	22	3	748	3	ZFP37	9	115805750	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	4165370	115805750	25407681	138	27295	569	2								
ZFP37	7539	broad.mit.edu	37	chr9	115805751	115805751	+	Missense_Mutation	SNP	C	A	A													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gctgtgtctgaaggttttccCacattcagcacattcatagg							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr9:115805751C>A	uc004bgm.1	-	4	1175	c.1147G>T	c.(1147-1149)GGG>TGG	p.G383W	ZFP37_uc011lwz.1_Missense_Mutation_p.G398W|ZFP37_uc011lxa.1_Missense_Mutation_p.G384W	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	383	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						AAGGTTTTCCCACATTCAGCA	0.413													117	64	---	---	---	---	PASS	A	115805751	A	A	115805751	3	1	70	1	0	0	0	0	1	0	0	0	17645	594	21	3	749	3	ZFP37	9	115805751	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	1	115805751	25407680	139	27296	569	2								
COL5A1	1289	broad.mit.edu	37	chr9	137674557	137674557	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aaaggagacatgggcatcaaGggtgatcgggtgagcatctc	15	7	2	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr9:137674557G>T	uc004cfe.2	+	29	2857	c.2475G>T	c.(2473-2475)AAG>AAT	p.K825N		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	825	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)		TGGGCATCAAGGGTGATCGGG	0.597													157	78	---	---	---	---	PASS	T	137674557	T	T	137674557	3	4	70	1	0	0	0	0	1	0	0	0	3696	991	35	3	2589	3	COL5A1	9	137674557	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	21868806	137674557	3538874	140	27297										
SNAPC4	6621	broad.mit.edu	37	chr9	139289762	139289762	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ccactcaccacgcccgtgacCttgtccttgaaatacggctt	7	16	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr9:139289762C>G	uc004chh.2	-	4	468	c.459G>C	c.(457-459)AAG>AAC	p.K153N		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	153					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		CGCCCGTGACCTTGTCCTTGA	0.592													8	63	---	---	---	---	PASS	G	139289762	G	G	139289762	3	3	70	1	0	0	0	0	1	0	0	0	14837	680	24	4	4026	4	SNAPC4	9	139289762	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	1615205	139289762	1923669	141	27298										
TAF3	83860	broad.mit.edu	37	chr10	7860771	7860771	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cagctcagcgcctgccacctCctcacggacgtgctgcagcg	11	18	2	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr10:7860771C>T	uc010qbd.1	+	1	99	c.99C>T	c.(97-99)CTC>CTT	p.L33L		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	33					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						CCTGCCACCTCCTCACGGACG	0.672													5	7	---	---	---	---	PASS	T	7860771	T	T	7860771	2	4	70	1	0	0	0	0	0	0	0	1	15522	842	30	2		2	TAF3	10	7860771	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08		7860771	127673976	142	27299										
USP6NL	9712	broad.mit.edu	37	chr10	11504657	11504657	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	attttggtaaattgccacggCtagcatctcgggtccatgat	10	9	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr10:11504657C>T	uc001ikt.3	-	15	2591	c.2270G>A	c.(2269-2271)AGC>AAC	p.S757N	USP6NL_uc001iks.1_Missense_Mutation_p.S774N	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	757						intracellular	Rab GTPase activator activity				0						ATTGCCACGGCTAGCATCTCG	0.468													85	127	---	---	---	---	PASS	T	11504657	T	T	11504657	3	4	70	1	0	0	0	0	1	0	0	0	17084	797	28	3	220	3	USP6NL	10	11504657	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	3643886	11504657	124030090	143	27300										
ZWINT	11130	broad.mit.edu	37	chr10	58119839	58119839	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agtgtcctcctgagccaggaTgttctgcaggaaatccgcta	11	11	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr10:58119839T>C	uc001jjx.1	-	3	233	c.196A>G	c.(196-198)ATC>GTC	p.I66V	ZWINT_uc001jjy.1_Missense_Mutation_p.I66V|ZWINT_uc001jka.1_Missense_Mutation_p.I66V|ZWINT_uc009xoy.1_Intron	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a	66					cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0						TGAGCCAGGATGTTCTGCAGG	0.557													26	41	---	---	---	---	PASS	C	58119839	C	C	58119839	3	2	70	1	0	0	0	0	1	0	0	0	18246	1464	51	5	661	5	ZWINT	10	58119839	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	46615182	58119839	77414908	144	27301										
CYP2C18	1562	broad.mit.edu	37	chr10	96495057	96495057	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ggagagggcctggcccgcatGgagctgtttttattcctgac	14	10	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr10:96495057G>C	uc001kjv.3	+	9	1655	c.1329G>C	c.(1327-1329)ATG>ATC	p.M443I	CYP2C18_uc001kjw.3_Missense_Mutation_p.M384I|CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Intron	NM_000772	NP_000763	P33260	CP2CI_HUMAN	cytochrome P450 family 2 subfamily C polypeptide	443					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(3)|lung(1)|skin(1)	5		Colorectal(252;0.09)		all cancers(201;2.8e-06)|KIRC - Kidney renal clear cell carcinoma(50;0.0646)|Kidney(138;0.0805)		TGGCCCGCATGGAGCTGTTTT	0.443													52	66	---	---	---	---	PASS	C	96495057	C	C	96495057	3	2	70	1	0	0	0	0	1	0	0	0	4165	1348	47	4	1363	4	CYP2C18	10	96495057	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	38375218	96495057	39039690	145	27302										
SORCS1	114815	broad.mit.edu	37	chr10	108469059	108469059	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aaaggctgattcctgttggcCtctgtacagttctgcattcg	10	10	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr10:108469059C>A	uc001kym.2	-	7	1073	c.1065G>T	c.(1063-1065)GAG>GAT	p.E355D	SORCS1_uc001kyl.2_Missense_Mutation_p.E355D|SORCS1_uc009xxs.2_Missense_Mutation_p.E355D|SORCS1_uc001kyn.1_Missense_Mutation_p.E355D|SORCS1_uc001kyo.2_Missense_Mutation_p.E355D	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	355	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TCCTGTTGGCCTCTGTACAGT	0.373													9	51	---	---	---	---	PASS	A	108469059	A	A	108469059	3	1	70	1	0	0	0	0	1	0	0	0	14930	680	24	3	2755	3	SORCS1	10	108469059	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	11974002	108469059	27065688	146	27303										
MUC5B	727897	broad.mit.edu	37	chr11	1264226	1264226	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	caccggctctgtggccacccCctcctccaccccaggaacag	8	21	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:1264226C>G	uc009ycr.1	+	47	8321	c.8195C>G	c.(8194-8196)CCC>CGC	p.P2732R	MUC5B_uc001ltb.2_Missense_Mutation_p.P2042R	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2039	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GTGGCCACCCCCTCCTCCACC	0.652													46	84	---	---	---	---	PASS	G	1264226	G	G	1264226	3	3	70	1	0	0	0	0	1	0	0	0	9979	623	22	4	6247	4	MUC5B	11	1264226	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08		1264226	133742290	147	27304										
TRIM6-TRIM34	445372	broad.mit.edu	37	chr11	5664869	5664869	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctctaaatgttgcttttctcAgcctgtttatccatatttca	4	10	3	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:5664869A>T	uc001mbf.2	+	14	2703	c.2459A>T	c.(2458-2460)CAG>CTG	p.Q820L	HBG2_uc001mak.1_Intron|TRIM34_uc001mbh.2_Missense_Mutation_p.Q466L|TRIM34_uc009yeq.2_Missense_Mutation_p.Q221L|TRIM34_uc001mbi.2_Missense_Mutation_p.Q466L|TRIM78P_uc009yer.2_Intron	NM_001003819	NP_001003819	B2RNG4	B2RNG4_HUMAN	tripartite motif-containing 6 and tripartite	820						intracellular	zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;1.01e-08)|BRCA - Breast invasive adenocarcinoma(625;0.145)		TGCTTTTCTCAGCCTGTTTAT	0.423													92	258	---	---	---	---	PASS	T	5664869	T	T	5664869	3	4	70	1	0	0	0	0	1	0	0	0	16531	188	7	5	2486	5	TRIM6-TRIM34	11	5664869	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	4400643	5664869	129341647	148	27305										
CCKBR	887	broad.mit.edu	37	chr11	6291981	6291981	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttagggcttcgctttgacggCgacagtgacagcgacagcca	13	11	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:6291981C>T	uc001mcp.2	+	4	952	c.759C>T	c.(757-759)GGC>GGT	p.G253G	CCKBR_uc001mcq.2_Silent_p.G181G|CCKBR_uc001mcr.2_Silent_p.G253G|CCKBR_uc001mcs.2_Silent_p.G253G|CCKBR_uc001mct.1_5'Flank	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	253	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	GCTTTGACGGCGACAGTGACA	0.597													28	87	---	---	---	---	PASS	T	6291981	T	T	6291981	2	4	70	1	0	0	0	0	0	0	0	1	2881	755	27	1		1	CCKBR	11	6291981	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	627112	6291981	128714535	149	27306										
MUC15	143662	broad.mit.edu	37	chr11	26584686	26584686	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gttcatttctgtcgtcataaAgtcgccgatgggaaaatgaa	10	7	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:26584686A>T	uc001mqx.2	-	3	1087	c.821T>A	c.(820-822)CTT>CAT	p.L274H	ANO3_uc010rdr.1_Intron|ANO3_uc001mqt.3_Intron|ANO3_uc010rds.1_Intron|ANO3_uc010rdt.1_Intron|MUC15_uc001mqw.2_Missense_Mutation_p.L301H|MUC15_uc001mqy.2_Intron	NM_145650	NP_663625	Q8N387	MUC15_HUMAN	mucin 15 isoform b	274	Cytoplasmic (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						GTCGTCATAAAGTCGCCGATG	0.423													46	101	---	---	---	---	PASS	T	26584686	T	T	26584686	3	4	70	1	0	0	0	0	1	0	0	0	9972	72	3	5	191	5	MUC15	11	26584686	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	20292705	26584686	108421830	150	27307										
FIBIN	387758	broad.mit.edu	37	chr11	27016499	27016499	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tccctcactgagctggagagCaagttcaagcagggccagga	13	11	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:27016499C>T	uc001mrd.2	+	1	872	c.426C>T	c.(424-426)AGC>AGT	p.S142S		NM_203371	NP_976249	Q8TAL6	FIBIN_HUMAN	fin bud initiation factor homolog precursor	142						extracellular region|Golgi apparatus					0						AGCTGGAGAGCAAGTTCAAGC	0.592													39	63	---	---	---	---	PASS	T	27016499	T	T	27016499	2	4	70	1	0	0	0	0	0	0	0	1	5885	709	25	3		3	FIBIN	11	27016499	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	431813	27016499	107990017	151	27308										
OR10AG1	282770	broad.mit.edu	37	chr11	55735108	55735108	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cctcagggtatatataatagGattcaaagttggaatcagaa	9	5	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:55735108G>T	uc010rit.1	-	1	832	c.832C>A	c.(832-834)CCT>ACT	p.P278T		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					TATATAATAGGATTCAAAGTT	0.343													33	56	---	---	---	---	PASS	T	55735108	T	T	55735108	3	4	70	1	0	0	0	0	1	0	0	0	10897	1174	41	2	76	2	OR10AG1	11	55735108	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	28718609	55735108	79271408	152	27309										
OR5F1	338674	broad.mit.edu	37	chr11	55761176	55761176	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atcacagaaaggaagaggtcCttttcctgctaattacattc	7	9	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:55761176C>A	uc010riv.1	-	1	926	c.926G>T	c.(925-927)AGG>ATG	p.R309M		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	309	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					GGAAGAGGTCCTTTTCCTGCT	0.353													15	45	---	---	---	---	PASS	A	55761176	A	A	55761176	3	1	70	1	0	0	0	0	1	0	0	0	11158	681	24	3	21	3	OR5F1	11	55761176	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	26068	55761176	79245340	153	27310										
OR5M3	219482	broad.mit.edu	37	chr11	56237489	56237489	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttccacagaagtacaagccgTaagtccataatgttgctgcc	8	11	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:56237489T>C	uc010rjk.1	-	1	485	c.485A>G	c.(484-486)TAC>TGC	p.Y162C		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	162	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GTACAAGCCGTAAGTCCATAA	0.403													5	185	---	---	---	---	PASS	C	56237489	C	C	56237489	3	2	70	1	0	0	0	0	1	0	0	0	11175	1638	57	5	440	5	OR5M3	11	56237489	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	476313	56237489	78769027	154	27311										
OR5M1	390168	broad.mit.edu	37	chr11	56380387	56380387	+	Frame_Shift_Del	DEL	C	-	-													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gcctgcaactacaaacattgCcatctttttgacacgggtgt							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:56380387delC	uc001nja.1	-	1	592	c.592delG	c.(592-594)GCAfs	p.A198fs		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	198	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						ACAAACATTGCCATCTTTTTG	0.443													51	32	---	---	---	---		-	56380387	-	-	56380387	7	5	70	1	0	1	0	1	0	0	0	0	11172	739	26	0	359	0	OR5M1	11	56380387	Frame_Shift_Del	DEL	C	TCGA-34-5239-01A-21D-1817-08	142898	56380387	78626129	155	27312										
OR9G4	283189	broad.mit.edu	37	chr11	56511019	56511019	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ggattttgggggtatacacaGaggtataccagaaatccaaa	11	6	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:56511019G>T	uc010rjo.1	-	1	269	c.269C>A	c.(268-270)TCT>TAT	p.S90Y		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	90	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GGTATACACAGAGGTATACCA	0.433													38	116	---	---	---	---	PASS	T	56511019	T	T	56511019	3	4	70	1	0	0	0	0	1	0	0	0	11251	942	33	2	717	2	OR9G4	11	56511019	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	130632	56511019	78495497	156	27313										
SERPING1	710	broad.mit.edu	37	chr11	57373646	57373646	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctgctagacagtctgccctcCgatacccgccttgtcctcct	7	18	1	1	rs143760635	byFrequency	TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:57373646C>T	uc001nkp.1	+	5	1040	c.849C>T	c.(847-849)TCC>TCT	p.S283S	SERPING1_uc001nkq.1_Silent_p.S283S|SERPING1_uc010rju.1_Silent_p.S231S|SERPING1_uc010rjv.1_Silent_p.S288S|SERPING1_uc001nkr.1_Silent_p.S283S|SERPING1_uc009ymi.1_Silent_p.S283S|SERPING1_uc009ymj.1_Silent_p.S283S|SERPING1_uc001nks.1_5'UTR	NM_000062	NP_000053	P05155	IC1_HUMAN	serpin peptidase inhibitor, clade G, member 1	283					blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1						GTCTGCCCTCCGATACCCGCC	0.542									Hereditary_Angioedema				13	166	---	---	---	---	PASS	T	57373646	T	T	57373646	2	4	70	1	0	0	0	0	0	0	0	1	14116	639	23	1		1	SERPING1	11	57373646	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	862627	57373646	77632870	157	27314										
MPEG1	219972	broad.mit.edu	37	chr11	58978608	58978608	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtgaagagcccggatttgacGcaataggacacttggcatcc	12	10	0	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:58978608G>A	uc001nnu.3	-	1	1887	c.1731C>T	c.(1729-1731)TGC>TGT	p.C577C		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	577	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				CGGATTTGACGCAATAGGACA	0.597													14	200	---	---	---	---	PASS	A	58978608	A	A	58978608	2	1	70	1	0	0	0	0	0	0	0	1	9723	1079	38	1		1	MPEG1	11	58978608	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	1604962	58978608	76027908	158	27315										
CD248	57124	broad.mit.edu	37	chr11	66082542	66082542	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cagccacagggccaacttggGactggggccatcttcccttg	12	14	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:66082542G>T	uc001ohm.1	-	1	1974	c.1957C>A	c.(1957-1959)CCC>ACC	p.P653T		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	653	Pro-rich.|Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	GCCAACTTGGGACTGGGGCCA	0.642													35	66	---	---	---	---	PASS	T	66082542	T	T	66082542	3	4	70	1	0	0	0	0	1	0	0	0	2989	1174	41	2	320	2	CD248	11	66082542	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	7103934	66082542	68923974	159	27316										
IGHMBP2	3508	broad.mit.edu	37	chr11	68707096	68707096	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cagcgggaccaagaacggatCcctggacccagccaagaggg	14	13	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:68707096C>T	uc001ook.1	+	15	2981	c.2879C>T	c.(2878-2880)TCC>TTC	p.S960F	IGHMBP2_uc001ool.1_Missense_Mutation_p.S584F	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	960					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			AAGAACGGATCCCTGGACCCA	0.657													115	65	---	---	---	---	PASS	T	68707096	T	T	68707096	3	4	70	1	0	0	0	0	1	0	0	0	7591	855	30	2	2937	2	IGHMBP2	11	68707096	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	2624554	68707096	66299420	160	27317										
MYEOV	26579	broad.mit.edu	37	chr11	69063258	69063258	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gagaaacaagggagacaaggGtgcccagacaggtgcggggc	18	8	0	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:69063258G>C	uc001oov.2	+	3	791	c.341G>C	c.(340-342)GGT>GCT	p.G114A	MYEOV_uc001oox.2_Intron|MYEOV_uc009ysl.2_Missense_Mutation_p.G114A|MYEOV_uc001oow.2_Missense_Mutation_p.G56A	NM_138768	NP_620123	Q96EZ4	MYEOV_HUMAN	myeloma overexpressed	114											0	all_lung(4;2.21e-19)|Lung NSC(4;6.13e-19)|Melanoma(5;0.00128)		LUSC - Lung squamous cell carcinoma(11;3.33e-11)|STAD - Stomach adenocarcinoma(18;0.00654)|LUAD - Lung adenocarcinoma(13;0.0713)	Kidney(183;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.00361)|LUSC - Lung squamous cell carcinoma(976;0.0153)		GGAGACAAGGGTGCCCAGACA	0.617													13	898	---	---	---	---	PASS	C	69063258	C	C	69063258	3	2	70	1	0	0	0	0	1	0	0	0	10025	1261	44	4	347	4	MYEOV	11	69063258	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	356162	69063258	65943258	161	27318										
GRM5	2915	broad.mit.edu	37	chr11	88300727	88300727	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tccattataaagagggcaacGatgatgcccaactggatgca	10	9	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:88300727G>T	uc001pcq.2	-	7	2324	c.2124C>A	c.(2122-2124)ATC>ATA	p.I708I	GRM5_uc009yvm.2_Silent_p.I708I	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	708	Helical; Name=4; (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	AGAGGGCAACGATGATGCCCA	0.463													37	52	---	---	---	---	PASS	T	88300727	T	T	88300727	2	4	70	1	0	0	0	0	0	0	0	1	6800	1048	37	2		2	GRM5	11	88300727	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	19237469	88300727	46705789	162	27319										
UBASH3B	84959	broad.mit.edu	37	chr11	122669743	122669743	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgcacacaatatcttgaaagGtaagacttgcaggttgacaa	9	7	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:122669743G>A	uc001pyi.3	+	10	1810	c.1450_splice	c.e10+1	p.G484_splice		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,							cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		ATCTTGAAAGGTAAGACTTGC	0.443													14	32	---	---	---	---	PASS	A	122669743	A	A	122669743	5	1	70	1	0	0	0	0	0	0	1	0	16837	1275	44	3	1489	3	UBASH3B	11	122669743	Splice_Site	SNP	G	TCGA-34-5239-01A-21D-1817-08	34369016	122669743	12336773	163	27320										
OR6X1	390260	broad.mit.edu	37	chr11	123624792	123624792	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtgaagcccaccacccaggaGctcagggccagctgcaggca	13	15	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:123624792G>T	uc010rzy.1	-	1	435	c.435C>A	c.(433-435)AGC>AGA	p.S145R		NM_001005188	NP_001005188	Q8NH79	OR6X1_HUMAN	olfactory receptor, family 6, subfamily X,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		CCACCCAGGAGCTCAGGGCCA	0.507													19	43	---	---	---	---	PASS	T	123624792	T	T	123624792	3	4	70	1	0	0	0	0	1	0	0	0	11212	962	34	3	505	3	OR6X1	11	123624792	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	955049	123624792	11381724	164	27321										
OR8B8	26493	broad.mit.edu	37	chr11	124310747	124310747	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aaagctcatcagcattttggGagtgataacactggaatagc	10	7	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr11:124310747G>C	uc010sal.1	-	1	235	c.235C>G	c.(235-237)CCC>GCC	p.P79A		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	79	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		AGCATTTTGGGAGTGATAACA	0.418													26	36	---	---	---	---	PASS	C	124310747	C	C	124310747	3	2	70	1	0	0	0	0	1	0	0	0	11230	1174	41	2	703	2	OR8B8	11	124310747	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	685955	124310747	10695769	165	27322										
EFCAB4B	84766	broad.mit.edu	37	chr12	3806114	3806114	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctttggcccctggccagaccCctgaccaagtctctggggtc	11	16	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr12:3806114C>A	uc001qmj.2	-	4	624	c.52G>T	c.(52-54)GGG>TGG	p.G18W	EFCAB4B_uc010sen.1_Missense_Mutation_p.G18W|EFCAB4B_uc010seo.1_Missense_Mutation_p.G18W	NM_032680	NP_116069	Q9BSW2	EFC4B_HUMAN	EF-hand calcium binding domain 4B isoform c	18					activation of store-operated calcium channel activity|store-operated calcium entry	cytoplasm	calcium ion binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.00287)|COAD - Colon adenocarcinoma(12;0.0264)			TGGCCAGACCCCTGACCAAGT	0.572													12	23	---	---	---	---	PASS	A	3806114	A	A	3806114	3	1	70	1	0	0	0	0	1	0	0	0	4937	623	22	3	2403	3	EFCAB4B	12	3806114	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08		3806114	130045781	166	27323										
SLCO1B1	10599	broad.mit.edu	37	chr12	21355459	21355459	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cctatttttgcaagtggaatGtttttaggaggatatatcat	9	4	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr12:21355459G>T	uc001req.3	+	10	1274	c.1170G>T	c.(1168-1170)ATG>ATT	p.M390I		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	390	Helical; Name=8; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	CAAGTGGAATGTTTTTAGGAG	0.299													12	37	---	---	---	---	PASS	T	21355459	T	T	21355459	3	4	70	1	0	0	0	0	1	0	0	0	14723	1377	48	3	1204	3	SLCO1B1	12	21355459	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	17549345	21355459	112496436	167	27324										
LRRK2	120892	broad.mit.edu	37	chr12	40749984	40749984	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	caatttttgaagataagactGttaaggtaaatgttgaatgc	9	3	0	4			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr12:40749984G>A	uc001rmg.3	+	46	6959	c.6838G>A	c.(6838-6840)GTT>ATT	p.V2280I	LRRK2_uc009zjw.2_Missense_Mutation_p.V1118I|LRRK2_uc001rmi.2_Missense_Mutation_p.V1113I	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2280					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)				AGATAAGACTGTTAAGGTAAA	0.204													9	27	---	---	---	---	PASS	A	40749984	A	A	40749984	3	1	70	1	0	0	0	0	1	0	0	0	9033	1377	48	3	7020	3	LRRK2	12	40749984	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	19394525	40749984	93101911	168	27325										
PUS7L	83448	broad.mit.edu	37	chr12	44124214	44124214	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cattatttccttcagacaaaCggtagcatagcatgaagcat	7	9	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr12:44124214C>T	uc001rnq.3	-	9	2560	c.2071G>A	c.(2071-2073)GTT>ATT	p.V691I	PUS7L_uc001rnr.3_Missense_Mutation_p.V691I|PUS7L_uc001rns.3_Missense_Mutation_p.V691I|PUS7L_uc009zkb.2_Missense_Mutation_p.V378I	NM_001098615	NP_001092085	Q9H0K6	PUS7L_HUMAN	pseudouridylate synthase 7 homolog (S.	691					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)		TTCAGACAAACGGTAGCATAG	0.353													21	36	---	---	---	---	PASS	T	44124214	T	T	44124214	3	4	70	1	0	0	0	0	1	0	0	0	12834	536	19	1	38	1	PUS7L	12	44124214	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	3374230	44124214	89727681	169	27326										
NCKAP1L	3071	broad.mit.edu	37	chr12	54901665	54901665	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atatgaacttctcaacaccaTtgatgcctgccagtgccatt	6	12	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr12:54901665T>G	uc001sgc.3	+	4	414	c.335T>G	c.(334-336)ATT>AGT	p.I112S	NCKAP1L_uc010sox.1_5'UTR|NCKAP1L_uc010soy.1_Missense_Mutation_p.I62S	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	112					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						CTCAACACCATTGATGCCTGC	0.423													58	126	---	---	---	---	PASS	G	54901665	G	G	54901665	3	3	70	1	0	0	0	0	1	0	0	0	10222	1493	52	5	349	5	NCKAP1L	12	54901665	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	10777451	54901665	78950230	170	27327										
NEUROD4	58158	broad.mit.edu	37	chr12	55420899	55420899	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cacatctccttcatctcaagCcccaagtattcaagagtttg	5	13	4	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr12:55420899C>A	uc001sgp.3	+	2	1054	c.676C>A	c.(676-678)CCC>ACC	p.P226T		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	226					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						TCATCTCAAGCCCCAAGTATT	0.517													42	99	---	---	---	---	PASS	A	55420899	A	A	55420899	3	1	70	1	0	0	0	0	1	0	0	0	10350	739	26	3	678	3	NEUROD4	12	55420899	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	519234	55420899	78430996	171	27328										
OR6C75	390323	broad.mit.edu	37	chr12	55759054	55759054	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ccctttcagatccccatctgCagactcccatgtatttcttc	4	16	3	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr12:55759054C>G	uc010spk.1	+	1	160	c.160C>G	c.(160-162)CAG>GAG	p.Q54E		NM_001005497	NP_001005497	A6NL08	O6C75_HUMAN	olfactory receptor, family 6, subfamily C,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3						TCCCCATCTGCAGACTCCCAT	0.433													59	166	---	---	---	---	PASS	G	55759054	G	G	55759054	3	3	70	1	0	0	0	0	1	0	0	0	11199	711	25	4	162	4	OR6C75	12	55759054	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	338155	55759054	78092841	172	27329										
STAB2	55576	broad.mit.edu	37	chr12	104054499	104054499	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atctccacccctcacatcagGagcatggccaaccagctcat	6	17	4	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr12:104054499G>A	uc001tjw.2	+	17	2013	c.1827G>A	c.(1825-1827)AGG>AGA	p.R609R		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	609	Extracellular (Potential).|FAS1 2.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTCACATCAGGAGCATGGCCA	0.483													31	112	---	---	---	---	PASS	A	104054499	A	A	104054499	2	1	70	1	0	0	0	0	0	0	0	1	15237	1165	41	2		2	STAB2	12	104054499	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	48295445	104054499	29797396	173	27330										
DDX54	79039	broad.mit.edu	37	chr12	113603449	113603449	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctccacccggccccactcacCgcccgggagcggtagttctt	10	19	2	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr12:113603449C>A	uc001tup.2	-	14	1747	c.1719G>T	c.(1717-1719)GCG>GCT	p.A573A	DDX54_uc001tuq.3_Silent_p.A573A	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	573					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						CCCCACTCACCGCCCGGGAGC	0.458													9	17	---	---	---	---	PASS	A	113603449	A	A	113603449	2	1	70	1	0	0	0	0	0	0	0	1	4372	666	23	1		1	DDX54	12	113603449	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	9548950	113603449	20248446	174	27331										
COQ5	84274	broad.mit.edu	37	chr12	120960138	120960138	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcattcatcacatcatacttCttagccacactttcaaacac	1	14	6	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr12:120960138C>T	uc001tyn.2	-	2	251	c.231G>A	c.(229-231)AAG>AAA	p.K77K	COQ5_uc001tyo.2_5'UTR|COQ5_uc010szj.1_Silent_p.K77K	NM_032314	NP_115690	Q5HYK3	COQ5_HUMAN	coenzyme Q5 homolog, methyltransferase	77					ubiquinone biosynthetic process	mitochondrion	methyltransferase activity			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CATCATACTTCTTAGCCACAC	0.423													16	106	---	---	---	---	PASS	T	120960138	T	T	120960138	2	4	70	1	0	0	0	0	0	0	0	1	3748	912	32	2		2	COQ5	12	120960138	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	7356689	120960138	12891757	175	27332										
MTUS2	23281	broad.mit.edu	37	chr13	29855875	29855875	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aatgaagaacagccagttctGaaggcatctctgccttctaa	8	10	3	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr13:29855875G>A	uc001usl.3	+	4	2767	c.2709G>A	c.(2707-2709)CTG>CTA	p.L903L		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	893	Localization to the growing distal tip of microtubules.|Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						AGCCAGTTCTGAAGGCATCTC	0.542													22	12	---	---	---	---	PASS	A	29855875	A	A	29855875	2	1	70	1	0	0	0	0	0	0	0	1	9966	1277	45	2		2	MTUS2	13	29855875	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08		29855875	85314003	176	27333										
STARD13	90627	broad.mit.edu	37	chr13	33704302	33704302	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcatccccgtgcctcccggtGacccatttctgtctcctcga	7	18	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr13:33704302G>A	uc001uuw.2	-	5	638	c.512C>T	c.(511-513)TCA>TTA	p.S171L	STARD13_uc001uuu.2_Missense_Mutation_p.S163L|STARD13_uc001uuv.2_Missense_Mutation_p.S53L|STARD13_uc001uux.2_Missense_Mutation_p.S136L|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Missense_Mutation_p.S156L	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	171					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		GCCTCCCGGTGACCCATTTCT	0.567													5	37	---	---	---	---	PASS	A	33704302	A	A	33704302	3	1	70	1	0	0	0	0	1	0	0	0	15255	1294	45	2	2869	2	STARD13	13	33704302	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	3848427	33704302	81465576	177	27334										
NBEA	26960	broad.mit.edu	37	chr13	35923291	35923291	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atatagtccgtgttgcaaatGaagctgagtttattttgaac	9	5	0	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr13:35923291G>T	uc001uvb.2	+	37	6156	c.5950G>T	c.(5950-5952)GAA>TAA	p.E1984*	NBEA_uc010abi.2_Nonsense_Mutation_p.E640*	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1984						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TGTTGCAAATGAAGCTGAGTT	0.358													42	33	---	---	---	---	PASS	T	35923291	T	T	35923291	4	4	70	1	0	0	0	0	0	1	0	0	10187	1291	45	2	6096	2	NBEA	13	35923291	Nonsense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	2218989	35923291	79246587	178	27335										
OR4Q3	441669	broad.mit.edu	37	chr14	20216282	20216282	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctgagaacacacttctgccaGggccagaacaaggtcttctc	9	13	3	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr14:20216282G>T	uc010tkt.1	+	1	696	c.696G>T	c.(694-696)CAG>CAT	p.Q232H		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ACTTCTGCCAGGGCCAGAACA	0.488													45	125	---	---	---	---	PASS	T	20216282	T	T	20216282	3	4	70	1	0	0	0	0	1	0	0	0	11081	991	35	3	698	3	OR4Q3	14	20216282	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08		20216282	87133258	179	27336										
OR4N2	390429	broad.mit.edu	37	chr14	20296286	20296286	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcattctttgtcgcatacgaGggtcttcttctgaggcaaaa	9	9	5	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr14:20296286G>T	uc010tkv.1	+	1	679	c.679G>T	c.(679-681)GGG>TGG	p.G227W		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCGCATACGAGGGTCTTCTTC	0.488													38	109	---	---	---	---	PASS	T	20296286	T	T	20296286	3	4	70	1	0	0	0	0	1	0	0	0	11077	1000	35	3	681	3	OR4N2	14	20296286	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	80004	20296286	87053254	180	27337										
ACTN1	87	broad.mit.edu	37	chr14	69346758	69346758	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tggcatcccgggtcaggatcTggttctctacctcattgatg	11	11	4	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr14:69346758T>C	uc001xkl.2	-	18	2511	c.2201A>G	c.(2200-2202)CAG>CGG	p.Q734R	ACTN1_uc001xkk.2_Missense_Mutation_p.Q330R|ACTN1_uc010ttb.1_Missense_Mutation_p.Q669R|ACTN1_uc001xkm.2_Missense_Mutation_p.Q734R|ACTN1_uc001xkn.2_Missense_Mutation_p.Q734R|ACTN1_uc010ttc.1_Missense_Mutation_p.Q319R	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	734					focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		GGTCAGGATCTGGTTCTCTAC	0.607													16	69	---	---	---	---	PASS	C	69346758	C	C	69346758	3	2	70	1	0	0	0	0	1	0	0	0	204	1580	55	5	563	5	ACTN1	14	69346758	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	49050472	69346758	38002782	181	27338										
ADAM20	8748	broad.mit.edu	37	chr14	70990703	70990703	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atttgatgcagtccatatatCaattccagtcaaaattacat	4	8	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr14:70990703C>G	uc001xme.2	-	2	1167	c.922G>C	c.(922-924)GAT>CAT	p.D308H		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	258	Peptidase M12B.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		GTCCATATATCAATTCCAGTC	0.348													31	61	---	---	---	---	PASS	G	70990703	G	G	70990703	3	3	70	1	0	0	0	0	1	0	0	0	242	826	29	2	1412	2	ADAM20	14	70990703	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	1643945	70990703	36358837	182	27339										
YLPM1	56252	broad.mit.edu	37	chr14	75269278	75269278	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gggaacagaaagaacagcttCaaaagatgaaagacttcggg	12	6	1	5			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr14:75269278C>G	uc001xqj.3	+	6	4544	c.4420C>G	c.(4420-4422)CAA>GAA	p.Q1474E	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1279					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		AGAACAGCTTCAAAAGATGAA	0.368													6	91	---	---	---	---	PASS	G	75269278	G	G	75269278	3	3	70	1	0	0	0	0	1	0	0	0	17483	827	29	2	4442	2	YLPM1	14	75269278	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	4278575	75269278	32080262	183	27340										
VRK1	7443	broad.mit.edu	37	chr14	97312478	97312478	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tactgaattaaagttctaccAacgagctgcaaaaccagagc	7	10	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr14:97312478A>T	uc001yft.2	+	4	369	c.263A>T	c.(262-264)CAA>CTA	p.Q88L		NM_003384	NP_003375	Q99986	VRK1_HUMAN	vaccinia related kinase 1	88	Protein kinase.					cytoplasm|nucleolus	ATP binding|protein binding|protein serine/threonine kinase activity			large_intestine(1)|stomach(1)	2		Melanoma(154;0.155)		COAD - Colon adenocarcinoma(157;0.234)		AAGTTCTACCAACGAGCTGCA	0.328													57	96	---	---	---	---	PASS	T	97312478	T	T	97312478	3	4	70	1	0	0	0	0	1	0	0	0	17216	130	5	5	273	5	VRK1	14	97312478	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	22043200	97312478	10037062	184	27341										
ATP10A	57194	broad.mit.edu	37	chr15	25959388	25959388	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cagctcaaacctcaccctcaCctgcaagagaaatggtcaga	7	14	4	2	rs114091283	byFrequency	TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr15:25959388C>A	uc010ayu.2	-	10	1883	c.1777G>T	c.(1777-1779)GTG>TTG	p.V593L		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	593	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CTCACCCTCACCTGCAAGAGA	0.587													19	35	---	---	---	---	PASS	A	25959388	A	A	25959388	3	1	70	1	0	0	0	0	1	0	0	0	1116	521	18	3	2770	3	ATP10A	15	25959388	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08		25959388	76572004	185	27342										
TGM5	9333	broad.mit.edu	37	chr15	43525446	43525446	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttaatgtccttaaacttgttGcttctcatattagcttggat	6	7	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr15:43525446G>C	uc001zrd.1	-	13	2114	c.2106C>G	c.(2104-2106)AGC>AGG	p.S702R	TGM5_uc001zrc.1_Missense_Mutation_p.S359R|TGM5_uc001zre.1_Missense_Mutation_p.S620R	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	702					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	TAAACTTGTTGCTTCTCATAT	0.448													16	34	---	---	---	---	PASS	C	43525446	C	C	43525446	3	2	70	1	0	0	0	0	1	0	0	0	15830	1310	46	4	60	4	TGM5	15	43525446	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	17566058	43525446	59005946	186	27343										
SEMA6D	80031	broad.mit.edu	37	chr15	48056400	48056400	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttctgctgtctgtgcatttaGcatggatgacattgaaaaag	10	6	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr15:48056400G>C	uc010bek.2	+	11	1355	c.995G>C	c.(994-996)AGC>ACC	p.S332T	SEMA6D_uc001zvw.2_Missense_Mutation_p.S332T|SEMA6D_uc001zvx.1_Missense_Mutation_p.S332T|SEMA6D_uc001zvy.2_Missense_Mutation_p.S332T|SEMA6D_uc001zvz.2_Missense_Mutation_p.S332T|SEMA6D_uc001zwa.2_Missense_Mutation_p.S332T|SEMA6D_uc001zwb.2_Missense_Mutation_p.S332T|SEMA6D_uc001zwc.2_Missense_Mutation_p.S332T	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	332	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		TGTGCATTTAGCATGGATGAC	0.458													13	130	---	---	---	---	PASS	C	48056400	C	C	48056400	3	2	70	1	0	0	0	0	1	0	0	0	14042	971	34	4	1033	4	SEMA6D	15	48056400	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	4530954	48056400	54474992	187	27344										
GNB5	10681	broad.mit.edu	37	chr15	52420404	52420404	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gaaacataccgtagcgtcatCtgaccctgaagcaaaggcat	9	11	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr15:52420404C>T	uc002abt.1	-	10	966	c.901G>A	c.(901-903)GAT>AAT	p.D301N	GNB5_uc002abr.1_Missense_Mutation_p.D259N|GNB5_uc002abs.1_Missense_Mutation_p.D189N	NM_016194	NP_057278	O14775	GBB5_HUMAN	guanine nucleotide-binding protein, beta-5	301	WD 5.					heterotrimeric G-protein complex	GTPase activity|signal transducer activity			lung(1)	1				all cancers(107;0.0163)		GTAGCGTCATCTGACCCTGAA	0.423													5	60	---	---	---	---	PASS	T	52420404	T	T	52420404	3	4	70	1	0	0	0	0	1	0	0	0	6521	913	32	2	302	2	GNB5	15	52420404	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	4364004	52420404	50110988	188	27345										
PRTG	283659	broad.mit.edu	37	chr15	55932011	55932011	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtggtggtggaggagggaccAtgcgatcacgaacagctatt	16	7	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr15:55932011A>T	uc002adg.2	-	13	2201	c.2153T>A	c.(2152-2154)ATG>AAG	p.M718K		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	718					multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		AGGAGGGACCATGCGATCACG	0.433													35	45	---	---	---	---	PASS	T	55932011	T	T	55932011	3	4	70	1	0	0	0	0	1	0	0	0	12638	217	8	5	1331	5	PRTG	15	55932011	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	3511607	55932011	46599381	189	27346										
TEX9	374618	broad.mit.edu	37	chr15	56680680	56680680	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tggcctgtagaggtctgttaCcatctgaagggatagttcat	12	7	3	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr15:56680680C>G	uc002adp.2	+	5	279	c.274C>G	c.(274-276)CCA>GCA	p.P92A	TEX9_uc002ado.1_Missense_Mutation_p.P92A|TEX9_uc010ugl.1_Missense_Mutation_p.P17A|TEX9_uc002adq.1_Missense_Mutation_p.P17A	NM_198524	NP_940926	Q8N6V9	TEX9_HUMAN	testis expressed 9	92											0				all cancers(107;0.0394)|GBM - Glioblastoma multiforme(80;0.056)		AGGTCTGTTACCATCTGAAGG	0.308													10	94	---	---	---	---	PASS	G	56680680	G	G	56680680	3	3	70	1	0	0	0	0	1	0	0	0	15781	507	18	4	292	4	TEX9	15	56680680	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	748669	56680680	45850712	190	27347										
SPESP1	246777	broad.mit.edu	37	chr15	69238793	69238793	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	taacatgctgtgtaattctaGatctaaactctatgaatatt	5	6	3	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr15:69238793G>T	uc002arn.1	+	2	1048	c.920G>T	c.(919-921)AGA>ATA	p.R307I	NOX5_uc002arp.1_Intron|NOX5_uc002arq.1_Intron|NOX5_uc010bid.1_Intron|NOX5_uc002aro.2_Intron	NM_145658	NP_663633	Q6UW49	SPESP_HUMAN	sperm equatorial segment protein 1 precursor	307					multicellular organismal development	acrosomal vesicle					0						TGTAATTCTAGATCTAAACTC	0.294													23	70	---	---	---	---	PASS	T	69238793	T	T	69238793	3	4	70	1	0	0	0	0	1	0	0	0	15039	942	33	2	926	2	SPESP1	15	69238793	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	12558113	69238793	33292599	191	27348										
SLC28A1	9154	broad.mit.edu	37	chr15	85438313	85438313	+	Silent	SNP	C	T	T													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ccaaagctgaggaggtttctCaagcctcagggccatccccg							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr15:85438313C>T	uc002blg.2	+	6	622	c.420C>T	c.(418-420)CTC>CTT	p.L140L	SLC28A1_uc010upd.1_Silent_p.L62L|SLC28A1_uc010bnb.2_Silent_p.L140L|SLC28A1_uc010upe.1_Silent_p.L140L|SLC28A1_uc010upf.1_Silent_p.L140L|SLC28A1_uc010upg.1_Silent_p.L140L|SLC28A1_uc002blf.2_Silent_p.L140L	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	140			L -> LV (in A).		nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GGAGGTTTCTCAAGCCTCAGG	0.637													13	60	---	---	---	---	PASS	T	85438313	T	T	85438313	2	4	70	1	0	0	0	0	0	0	0	1	14531	813	29	2		2	SLC28A1	15	85438313	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	16199520	85438313	17093079	192	27349	570	2								
SLC28A1	9154	broad.mit.edu	37	chr15	85438320	85438320	+	Nonsense_Mutation	SNP	C	T	T													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgaggaggtttctcaagcctCagggccatccccgcctgctg							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr15:85438320C>T	uc002blg.2	+	6	629	c.427C>T	c.(427-429)CAG>TAG	p.Q143*	SLC28A1_uc010upd.1_Nonsense_Mutation_p.Q65*|SLC28A1_uc010bnb.2_Nonsense_Mutation_p.Q143*|SLC28A1_uc010upe.1_Nonsense_Mutation_p.Q143*|SLC28A1_uc010upf.1_Nonsense_Mutation_p.Q143*|SLC28A1_uc010upg.1_Nonsense_Mutation_p.Q143*|SLC28A1_uc002blf.2_Nonsense_Mutation_p.Q143*	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	143					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			TCTCAAGCCTCAGGGCCATCC	0.637													13	59	---	---	---	---	PASS	T	85438320	T	T	85438320	4	4	70	1	0	0	0	0	0	1	0	0	14531	827	29	2	441	2	SLC28A1	15	85438320	Nonsense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	7	85438320	17093072	193	27350	570	2								
HN1L	90861	broad.mit.edu	37	chr16	1748833	1748833	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgcaaggagcatcccggctgGagcagagccaggtgagaaag	16	9	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:1748833G>T	uc002cmg.2	+	5	443	c.407G>T	c.(406-408)GGA>GTA	p.G136V	HN1L_uc010uvi.1_Missense_Mutation_p.G164V|HN1L_uc010brt.2_RNA|HN1L_uc010bru.2_3'UTR|HN1L_uc010uvj.1_3'UTR|HN1L_uc010uvk.1_Missense_Mutation_p.G123V	NM_144570	NP_653171	Q9H910	HN1L_HUMAN	hematological and neurological expressed 1-like	136						cytoplasm|nucleus				upper_aerodigestive_tract(1)	1						ATCCCGGCTGGAGCAGAGCCA	0.597													12	38	---	---	---	---	PASS	T	1748833	T	T	1748833	3	4	70	1	0	0	0	0	1	0	0	0	7250	1174	41	2	425	2	HN1L	16	1748833	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08		1748833	88605920	194	27351										
RPL3L	6123	broad.mit.edu	37	chr16	1997365	1997365	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgtgggccttcttctgccggAagggcagcagtttcatctgc	13	11	4	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:1997365A>G	uc002cnh.2	-	5	565	c.518T>C	c.(517-519)TTC>TCC	p.F173S		NM_005061	NP_005052	Q92901	RL3L_HUMAN	ribosomal protein L3-like	173					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	RNA binding|structural constituent of ribosome				0						CTTCTGCCGGAAGGGCAGCAG	0.657													6	17	---	---	---	---	PASS	G	1997365	G	G	1997365	3	3	70	1	0	0	0	0	1	0	0	0	13594	246	9	5	729	5	RPL3L	16	1997365	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	248532	1997365	88357388	195	27352										
GRIN2A	2903	broad.mit.edu	37	chr16	9862767	9862767	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cacgcccgtgaaacagaagcGcagcttccagtagaagaggt	12	11	0	4			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:9862767G>T	uc002czo.3	-	12	3084	c.2536C>A	c.(2536-2538)CGC>AGC	p.R846S	GRIN2A_uc010uym.1_Missense_Mutation_p.R846S|GRIN2A_uc010uyn.1_Missense_Mutation_p.R689S|GRIN2A_uc002czr.3_Missense_Mutation_p.R846S	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	846	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AAACAGAAGCGCAGCTTCCAG	0.582													21	78	---	---	---	---	PASS	T	9862767	T	T	9862767	3	4	70	1	0	0	0	0	1	0	0	0	6779	1087	38	1	1866	1	GRIN2A	16	9862767	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	7865402	9862767	80491986	196	27353										
GP2	2813	broad.mit.edu	37	chr16	20334224	20334224	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtcctgtctgcagaaacagcCccaggtgctgttgagggcaa	13	11	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:20334224C>A	uc002dgv.2	-	5	705	c.622G>T	c.(622-624)GGC>TGC	p.G208C	GP2_uc002dgw.2_Missense_Mutation_p.G205C|GP2_uc002dgx.2_Missense_Mutation_p.G61C|GP2_uc002dgy.2_Missense_Mutation_p.G58C	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	208	EGF-like.					anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						CAGAAACAGCCCCAGGTGCTG	0.592													18	50	---	---	---	---	PASS	A	20334224	A	A	20334224	3	1	70	1	0	0	0	0	1	0	0	0	6582	623	22	3	1023	3	GP2	16	20334224	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	10471457	20334224	70020529	197	27354										
ACSM2A	123876	broad.mit.edu	37	chr16	20480940	20480940	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gctggggatgaagtcatccaAgaagtggacacagtggcatc	14	8	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:20480940A>G	uc010bwe.2	+	5	734	c.495A>G	c.(493-495)CAA>CAG	p.Q165Q	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Silent_p.Q86Q|ACSM2A_uc002dhf.3_Silent_p.Q165Q|ACSM2A_uc002dhg.3_Silent_p.Q165Q|ACSM2A_uc010vay.1_Silent_p.Q86Q	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	165					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						AAGTCATCCAAGAAGTGGACA	0.443													48	100	---	---	---	---	PASS	G	20480940	G	G	20480940	2	3	70	1	0	0	0	0	0	0	0	1	183	69	3	5		5	ACSM2A	16	20480940	Silent	SNP	A	TCGA-34-5239-01A-21D-1817-08	146716	20480940	69873813	198	27355										
VWA3A	146177	broad.mit.edu	37	chr16	22163889	22163889	+	Frame_Shift_Del	DEL	C	-	-													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	accggcggacgctatcactgCcctgtgggtgaggacacact							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:22163889delC	uc010vbq.1	+	31	3435	c.3339delC	c.(3337-3339)TGCfs	p.C1113fs	VWA3A_uc010bxd.2_RNA|VWA3A_uc002dkg.3_Frame_Shift_Del_p.C191fs|VWA3A_uc010bxe.1_Frame_Shift_Del_p.C215fs	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	1113	VWFA 2.					extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		GCTATCACTGCCCTGTGGGTG	0.557													23	10	---	---	---	---		-	22163889	-	-	22163889	7	5	70	1	0	1	0	1	0	0	0	0	17237	747	26	0	3461	0	VWA3A	16	22163889	Frame_Shift_Del	DEL	C	TCGA-34-5239-01A-21D-1817-08	1682949	22163889	68190864	199	27356										
ERN2	10595	broad.mit.edu	37	chr16	23713476	23713476	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cccctcccagcactgacctcCaagaagaaggctggggcctg	11	16	0	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:23713476C>A	uc002dma.3	-	11	1513	c.1344G>T	c.(1342-1344)TTG>TTT	p.L448F	ERN2_uc010bxp.2_Missense_Mutation_p.L448F|ERN2_uc010bxq.1_Missense_Mutation_p.L256F	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	400	Lumenal (Potential).				apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		CACTGACCTCCAAGAAGAAGG	0.592													20	58	---	---	---	---	PASS	A	23713476	A	A	23713476	3	1	70	1	0	0	0	0	1	0	0	0	5238	593	21	3	1628	3	ERN2	16	23713476	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	1549587	23713476	66641277	200	27357										
SLC5A11	115584	broad.mit.edu	37	chr16	24921722	24921722	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tctcttaccctctctcagaaCgggatgccagaggccagcag	10	14	3	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:24921722C>T	uc002dmu.2	+	15	1978	c.1746C>T	c.(1744-1746)AAC>AAT	p.N582N	SLC5A11_uc002dms.2_Silent_p.N518N|SLC5A11_uc010vcd.1_Silent_p.N547N|SLC5A11_uc002dmt.2_Silent_p.N426N|SLC5A11_uc010vce.1_Silent_p.N512N|SLC5A11_uc010bxt.2_Silent_p.N518N|SLC5A11_uc002dmv.2_Silent_p.N205N	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	582	Cytoplasmic (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		TCTCTCAGAACGGGATGCCAG	0.547													15	58	---	---	---	---	PASS	T	24921722	T	T	24921722	2	4	70	1	0	0	0	0	0	0	0	1	14663	535	19	1		1	SLC5A11	16	24921722	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	1208246	24921722	65433031	201	27358										
MYLK3	91807	broad.mit.edu	37	chr16	46771994	46771994	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gcggggtcagctcccagcccTgacgctctgatggggggcag	17	13	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:46771994T>A	uc002eei.3	-	3	746	c.630A>T	c.(628-630)TCA>TCT	p.S210S	MYLK3_uc010vge.1_Intron|MYLK3_uc002eej.1_5'UTR	NM_182493	NP_872299	Q32MK0	MYLK3_HUMAN	myosin light chain kinase 3	210					cardiac myofibril assembly|cellular response to interleukin-1|positive regulation of sarcomere organization|regulation of vascular permeability involved in acute inflammatory response|sarcomere organization|sarcomerogenesis	cytosol	ATP binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			stomach(2)|skin(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	7		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				CTCCCAGCCCTGACGCTCTGA	0.657													6	12	---	---	---	---	PASS	A	46771994	A	A	46771994	2	1	70	1	0	0	0	0	0	0	0	1	10058	1567	55	5		5	MYLK3	16	46771994	Silent	SNP	T	TCGA-34-5239-01A-21D-1817-08	21850272	46771994	43582759	202	27359										
ABCC11	85320	broad.mit.edu	37	chr16	48201277	48201277	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cggccgatcaaattctaccaCctggagggtagagaaaggcg	13	10	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:48201277C>A	uc002eff.1	-	29	4407	c.4057G>T	c.(4057-4059)GTG>TTG	p.V1353L	ABCC11_uc002efg.1_Missense_Mutation_p.V1353L|ABCC11_uc002efh.1_Missense_Mutation_p.V1315L|ABCC11_uc010cbg.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	1353	ABC transporter 2.|Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				AATTCTACCACCTGGAGGGTA	0.567									Cerumen_Type				7	44	---	---	---	---	PASS	A	48201277	A	A	48201277	3	1	70	1	0	0	0	0	1	0	0	0	51	521	18	3	95	3	ABCC11	16	48201277	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	1429283	48201277	42153476	203	27360										
N4BP1	9683	broad.mit.edu	37	chr16	48576971	48576971	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gcagaagatctctgagctggCatgggcaggttctgctggag	16	8	2	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:48576971C>A	uc002efp.2	-	7	2772	c.2535G>T	c.(2533-2535)ATG>ATT	p.M845I		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	845					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				TCTGAGCTGGCATGGGCAGGT	0.577													10	47	---	---	---	---	PASS	A	48576971	A	A	48576971	3	1	70	1	0	0	0	0	1	0	0	0	10109	710	25	3	159	3	N4BP1	16	48576971	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	375694	48576971	41777782	204	27361										
GPR97	222487	broad.mit.edu	37	chr16	57719655	57719655	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gcatggtggtcctggccctgGtggtctggaagatcttcacc	14	11	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:57719655G>A	uc002emh.2	+	11	1460	c.1357G>A	c.(1357-1359)GTG>ATG	p.V453M	GPR97_uc010vhv.1_Missense_Mutation_p.V333M|GPR97_uc010cdd.2_RNA|GPR97_uc010cde.2_Missense_Mutation_p.V61M	NM_170776	NP_740746	Q86Y34	GPR97_HUMAN	G protein-coupled receptor 97 precursor	453	Helical; Name=5; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1						CCTGGCCCTGGTGGTCTGGAA	0.592													14	50	---	---	---	---	PASS	A	57719655	A	A	57719655	3	1	70	1	0	0	0	0	1	0	0	0	6720	1261	44	3	1399	3	GPR97	16	57719655	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	9142684	57719655	32635098	205	27362										
CA7	766	broad.mit.edu	37	chr16	66887337	66887337	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cgatgagaggatccacatggTgaacaacttccggccaccac	10	13	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:66887337T>A	uc002eqi.2	+	7	840	c.731T>A	c.(730-732)GTG>GAG	p.V244E	uc002eqh.2_RNA|CA7_uc002eqj.2_Missense_Mutation_p.V188E	NM_005182	NP_005173	P43166	CAH7_HUMAN	carbonic anhydrase VII isoform 1	244					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		ATCCACATGGTGAACAACTTC	0.602													16	48	---	---	---	---	PASS	A	66887337	A	A	66887337	3	1	70	1	0	0	0	0	1	0	0	0	2522	1696	59	5	757	5	CA7	16	66887337	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	9167682	66887337	23467416	206	27363										
CLEC3A	10143	broad.mit.edu	37	chr16	78064718	78064718	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gcagcaagagatacatatgcGagttcaccatccctcaatag	8	11	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr16:78064718G>A	uc002ffh.3	+	3	655	c.574G>A	c.(574-576)GAG>AAG	p.E192K		NM_005752	NP_005743	O75596	CLC3A_HUMAN	C-type lectin domain family 3 member A	192	C-type lectin.				skeletal system development	extracellular region	sugar binding				0						ATACATATGCGAGTTCACCAT	0.453													4	76	---	---	---	---	PASS	A	78064718	A	A	78064718	3	1	70	1	0	0	0	0	1	0	0	0	3510	1059	37	2	584	2	CLEC3A	16	78064718	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	11177381	78064718	12290035	207	27364										
TP53	7157	broad.mit.edu	37	chr17	7579311	7579311	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cagcccctcagggcaactgaCcgtgcaagtcacagacttgg	11	14	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr17:7579311C>A	uc002gim.2	-	4	569	c.375_splice	c.e4+1	p.T125_splice	TP53_uc002gig.1_Splice_Site_p.T125_splice|TP53_uc002gih.2_Splice_Site_p.T125_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Splice_Site_p.T125_splice|TP53_uc010cni.1_Splice_Site_p.T125_splice|TP53_uc002gij.2_Splice_Site_p.T125_splice|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Splice_Site_p.T86_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						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.?(11)|p.0?(7)|p.V73fs*9(1)|p.Y126fs*11(1)|p.P13fs*18(1)|p.T125_Y126insX(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)		GGGCAACTGACCGTGCAAGTC	0.532		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)			44	48	---	---	---	---	PASS	A	7579311	A	A	7579311	5	1	70	1	0	0	0	0	0	0	1	0	16378	521	18	3	926	3	TP53	17	7579311	Splice_Site	SNP	C	TCGA-34-5239-01A-21D-1817-08		7579311	73615899	208	27365										
DNAH2	146754	broad.mit.edu	37	chr17	7696018	7696018	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgcccaccgtcgacactgttCgctacaactacctggtgagc	9	15	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr17:7696018C>T	uc002giu.1	+	46	7203	c.7189C>T	c.(7189-7191)CGC>TGC	p.R2397C		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2397	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CGACACTGTTCGCTACAACTA	0.607													3	45	---	---	---	---	PASS	T	7696018	T	T	7696018	3	4	70	1	0	0	0	0	1	0	0	0	4602	884	31	2	7371	2	DNAH2	17	7696018	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	116707	7696018	73499192	209	27366										
TMEM107	84314	broad.mit.edu	37	chr17	8079345	8079345	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	caggcctgtatgttgctgtcCtgggagcagggcacaggaag	16	9	0	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr17:8079345C>A	uc002gkg.3	-	2	198	c.88_splice	c.e2-1	p.D30_splice	TMEM107_uc002gkh.3_Splice_Site_p.D30_splice|TMEM107_uc002gki.3_Splice_Site_p.D30_splice|TMEM107_uc002gkj.3_Intron|TMEM107_uc002gkk.2_Splice_Site_p.D30_splice	NM_183065	NP_898888	Q6UX40	TM107_HUMAN	transmembrane protein 107 isoform 2							integral to membrane					0						TGTTGCTGTCCTGGGAGCAGG	0.597													38	34	---	---	---	---	PASS	A	8079345	A	A	8079345	5	1	70	1	0	0	0	0	0	0	1	0	16020	695	24	3	369	3	TMEM107	17	8079345	Splice_Site	SNP	C	TCGA-34-5239-01A-21D-1817-08	383327	8079345	73115865	210	27367										
MYH13	8735	broad.mit.edu	37	chr17	10235418	10235418	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agccttgcctgtgctcacctTggtgttgccgaacctgaact	10	13	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr17:10235418T>A	uc002gmk.1	-	20	2386	c.2296A>T	c.(2296-2298)AAG>TAG	p.K766*		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	766	Myosin head-like.|Actin-binding (By similarity).				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GTGCTCACCTTGGTGTTGCCG	0.547													32	28	---	---	---	---	PASS	A	10235418	A	A	10235418	4	1	70	1	0	0	0	0	0	1	0	0	10032	1821	63	5	3608	5	MYH13	17	10235418	Nonsense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	2156073	10235418	70959792	211	27368										
C17orf79	55352	broad.mit.edu	37	chr17	30179203	30179203	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cctgtttcaaagaccatcttGgaataatagggtatcagtgg	10	7	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr17:30179203G>A	uc002hgp.2	-	4	618	c.510C>T	c.(508-510)TCC>TCT	p.S170S	C17orf79_uc010css.2_RNA	NM_018405	NP_060875	Q9NQ92	COPR5_HUMAN	chromosome 17 open reading frame 79	170					histone H4-R3 methylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone binding				0		all_cancers(10;4.54e-07)|all_hematologic(16;0.0216)|Acute lymphoblastic leukemia(14;0.0255)|Myeloproliferative disorder(56;0.0393)|Ovarian(249;0.1)				AGACCATCTTGGAATAATAGG	0.502													41	38	---	---	---	---	PASS	A	30179203	A	A	30179203	2	1	70	1	0	0	0	0	0	0	0	1	1884	1335	47	3		3	C17orf79	17	30179203	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	19943785	30179203	51016007	212	27369										
CRHR1	1394	broad.mit.edu	37	chr17	43908281	43908281	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcattgtggcctgggccattGggaagctgtactacgacaat	12	9	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr17:43908281G>T	uc010dap.2	+	9	1097	c.832G>T	c.(832-834)GGG>TGG	p.G278W	CRHR1_uc010wjx.1_Missense_Mutation_p.G74W|CRHR1_uc002ijp.2_Missense_Mutation_p.G148W|CRHR1_uc002ijm.2_Missense_Mutation_p.G249W|CRHR1_uc002ijn.2_Missense_Mutation_p.G209W|CRHR1_uc010dar.2_Missense_Mutation_p.G249W|CRHR1_uc010dao.2_Missense_Mutation_p.G148W|CRHR1_uc010daq.2_Missense_Mutation_p.G74W	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	278	Helical; Name=4; (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		CTGGGCCATTGGGAAGCTGTA	0.463													33	42	---	---	---	---	PASS	T	43908281	T	T	43908281	3	4	70	1	0	0	0	0	1	0	0	0	3871	1348	47	3	866	3	CRHR1	17	43908281	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	13729078	43908281	37286929	213	27370										
NME1	4830	broad.mit.edu	37	chr17	49239125	49239125	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agtgattctgtggagagtgcAgagaaggagatcggcttgtg	17	4	1	4			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr17:49239125A>G	uc002iti.1	+	5	486	c.378A>G	c.(376-378)GCA>GCG	p.A126A	NME1_uc002ith.1_Silent_p.A151A|NME1-NME2_uc002itj.2_Intron|NME1-NME2_uc002itk.2_Intron	NM_000269	NP_000260	P15531	NDKA_HUMAN	non-metastatic cells 1, protein (NM23A)	126					cell differentiation|CTP biosynthetic process|endocytosis|GTP biosynthetic process|negative regulation of cell proliferation|nervous system development|nucleobase, nucleoside and nucleotide interconversion|positive regulation of DNA binding|positive regulation of epithelial cell proliferation|regulation of apoptosis|UTP biosynthetic process	cytosol|nucleus	ATP binding|deoxyribonuclease activity|GTP binding|identical protein binding|magnesium ion binding|nucleoside diphosphate kinase activity				0			BRCA - Breast invasive adenocarcinoma(22;1.54e-08)		Gemcitabine(DB00441)|Progesterone(DB00396)	TGGAGAGTGCAGAGAAGGAGA	0.483													57	39	---	---	---	---	PASS	G	49239125	G	G	49239125	2	3	70	1	0	0	0	0	0	0	0	1	10489	175	7	5		5	NME1	17	49239125	Silent	SNP	A	TCGA-34-5239-01A-21D-1817-08	5330844	49239125	31956085	214	27371										
KIF2B	84643	broad.mit.edu	37	chr17	51901317	51901317	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctatgggcagacgggaagtgGgaagacgtacaccatgggtg	17	7	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr17:51901317G>T	uc002iua.2	+	1	1079	c.923G>T	c.(922-924)GGG>GTG	p.G308V	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	308	ATP (By similarity).|Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						ACGGGAAGTGGGAAGACGTAC	0.552													39	37	---	---	---	---	PASS	T	51901317	T	T	51901317	3	4	70	1	0	0	0	0	1	0	0	0	8298	1232	43	3	925	3	KIF2B	17	51901317	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	2662192	51901317	29293893	215	27372										
CEP192	55125	broad.mit.edu	37	chr18	13092463	13092463	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttcagtaattggagaattcaGagattgcatttctagcagag	10	5	3	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr18:13092463G>A	uc010xac.1	+	34	6271	c.6191G>A	c.(6190-6192)AGA>AAA	p.R2064K	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.R1589K|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Missense_Mutation_p.R486K|CEP192_uc002krw.2_Missense_Mutation_p.R213K|CEP192_uc002krx.2_Missense_Mutation_p.R68K|CEP192_uc002kry.2_RNA	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	2064										ovary(4)|pancreas(1)	5						GGAGAATTCAGAGATTGCATT	0.343													22	49	---	---	---	---	PASS	A	13092463	A	A	13092463	3	1	70	1	0	0	0	0	1	0	0	0	3251	942	33	2	6321	2	CEP192	18	13092463	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08		13092463	64984785	216	27373										
MC5R	4161	broad.mit.edu	37	chr18	13826480	13826480	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cagcatgcagggcgcggtcaCcgtcaccatgctgctgggcg	15	14	2	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr18:13826480C>T	uc010xaf.1	+	1	716	c.716C>T	c.(715-717)ACC>ATC	p.T239I		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	239	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6						GGCGCGGTCACCGTCACCATG	0.617													17	160	---	---	---	---	PASS	T	13826480	T	T	13826480	3	4	70	1	0	0	0	0	1	0	0	0	9367	507	18	3	718	3	MC5R	18	13826480	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	734017	13826480	64250768	217	27374										
DSG4	147409	broad.mit.edu	37	chr18	28993359	28993359	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	actggctagtcctggtgtgcCtgacatgagcaatagtagca	12	9	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr18:28993359C>A	uc002kwq.2	+	16	3059	c.2924C>A	c.(2923-2925)CCT>CAT	p.P975H	DSG4_uc002kwr.2_Missense_Mutation_p.P994H	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	975	Cytoplasmic (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			CCTGGTGTGCCTGACATGAGC	0.433													77	144	---	---	---	---	PASS	A	28993359	A	A	28993359	3	1	70	1	0	0	0	0	1	0	0	0	4779	681	24	3	3107	3	DSG4	18	28993359	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	15166879	28993359	49083889	218	27375										
PIK3C3	5289	broad.mit.edu	37	chr18	39609304	39609304	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttcagggtgataagtctgtcAgagttatgcgttctttgctg	12	6	4	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr18:39609304A>T	uc002lap.2	+	15	1664	c.1606A>T	c.(1606-1608)AGA>TGA	p.R536*	PIK3C3_uc010xcl.1_Nonsense_Mutation_p.R473*|PIK3C3_uc002laq.2_Nonsense_Mutation_p.R21*	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	536					cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						TAAGTCTGTCAGAGTTATGCG	0.388										TSP Lung(28;0.18)			32	60	---	---	---	---	PASS	T	39609304	T	T	39609304	4	4	70	1	0	0	0	0	0	1	0	0	11912	180	7	5	1664	5	PIK3C3	18	39609304	Nonsense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	10615945	39609304	38467944	219	27376										
TCEB3C	162699	broad.mit.edu	37	chr18	44549187	44549187	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgcggtacggctgatcgggcGtccacccttccagaacgggt	14	13	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr18:44549187G>A	uc010dnr.2	-	1	1112	c.1112C>T	c.(1111-1113)ACG>ATG	p.T371M	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_001100817	NP_001094287	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	371	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						CTGATCGGGCGTCCACCCTTC	0.587													36	441	---	---	---	---	PASS	A	44549187	A	A	44549187	3	1	70	1	0	0	0	0	1	0	0	0	15680	1145	40	1	532	1	TCEB3C	18	44549187	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	4939883	44549187	33528061	220	27377										
TCEB3C	162699	broad.mit.edu	37	chr18	44555055	44555055	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ccataattcatctgtctctcGagcgagtgcggcattgtctt	9	11	4	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr18:44555055G>C	uc010xdb.1	-	1	1395	c.1159C>G	c.(1159-1161)CGA>GGA	p.R387G	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	387	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						TCTGTCTCTCGAGCGAGTGCG	0.567													33	625	---	---	---	---	PASS	C	44555055	C	C	44555055	3	2	70	1	0	0	0	0	1	0	0	0	15680	1066	37	2	2128	2	TCEB3C	18	44555055	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	5868	44555055	33522193	221	27378										
ALPK2	115701	broad.mit.edu	37	chr18	56184260	56184260	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttgaagacaggcatgaggccGtgcatcactgtgctgcggaa	14	9	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr18:56184260G>C	uc002lhj.3	-	9	6034	c.5820C>G	c.(5818-5820)CAC>CAG	p.H1940Q		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1940	Alpha-type protein kinase.						ATP binding|protein serine/threonine kinase activity	p.H1301H(1)		ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						GCATGAGGCCGTGCATCACTG	0.557													46	109	---	---	---	---	PASS	C	56184260	C	C	56184260	3	2	70	1	0	0	0	0	1	0	0	0	545	1136	40	4	712	4	ALPK2	18	56184260	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	11629205	56184260	21892988	222	27379										
CDH20	28316	broad.mit.edu	37	chr18	59157860	59157860	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtccttgtacttctgggggcTgatggaccttacgaccaccg	12	12	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr18:59157860T>C	uc010dps.1	+	1	86	c.74T>C	c.(73-75)CTG>CCG	p.L25P	CDH20_uc002lif.2_Missense_Mutation_p.L19P	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	25					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				TTCTGGGGGCTGATGGACCTT	0.502													40	96	---	---	---	---	PASS	C	59157860	C	C	59157860	3	2	70	1	0	0	0	0	1	0	0	0	3106	1580	55	5	76	5	CDH20	18	59157860	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	2973600	59157860	18919388	223	27380										
ZNF236	7776	broad.mit.edu	37	chr18	74587471	74587471	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aaaggccgttcaaatgtagtGaatgtggaaaggcttttaac	11	5	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr18:74587471G>C	uc002lmi.2	+	6	883	c.685G>C	c.(685-687)GAA>CAA	p.E229Q	ZNF236_uc002lmj.2_RNA|ZNF236_uc002lmk.1_Missense_Mutation_p.E229Q	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	229	C2H2-type 7.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CAAATGTAGTGAATGTGGAAA	0.448											OREG0025069	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	84	---	---	---	---	PASS	C	74587471	C	C	74587471	3	2	70	1	0	0	0	0	1	0	0	0	17786	1291	45	2	707	2	ZNF236	18	74587471	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	15429611	74587471	3489777	224	27381										
MIDN	90007	broad.mit.edu	37	chr19	1255030	1255030	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcgagagctttgtgaatcacGccccgggggtcttctcaggg	14	11	3	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:1255030G>T	uc002lrp.2	+	6	1341	c.826G>T	c.(826-828)GCC>TCC	p.A276S		NM_177401	NP_796375	Q504T8	MIDN_HUMAN	midnolin	276						nucleolus					0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGTGAATCACGCCCCGGGGGT	0.632													31	58	---	---	---	---	PASS	T	1255030	T	T	1255030	3	4	70	1	0	0	0	0	1	0	0	0	9579	1087	38	1	844	1	MIDN	19	1255030	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08		1255030	57873953	225	27382										
ADAMTSL5	339366	broad.mit.edu	37	chr19	1506294	1506294	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cctgggcctggtggtggtggCccagcactcgggcctggaac	17	13	0	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:1506294C>T	uc002ltd.2	-	12	1580	c.1136G>A	c.(1135-1137)GGC>GAC	p.G379D	ADAMTSL5_uc010dsl.2_Missense_Mutation_p.G148D|ADAMTSL5_uc010xgq.1_Missense_Mutation_p.G389D	NM_213604	NP_998769	Q6ZMM2	ATL5_HUMAN	ADAMTS-like 5 precursor	379	NTR.					proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTGGTGGTGGCCCAGCACTCG	0.647													13	30	---	---	---	---	PASS	T	1506294	T	T	1506294	3	4	70	1	0	0	0	0	1	0	0	0	278	739	26	3	283	3	ADAMTSL5	19	1506294	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	251264	1506294	57622689	226	27383										
ZNRF4	148066	broad.mit.edu	37	chr19	5455728	5455728	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgaccatggggtggccacggCcgggccgagccctcgtggca	17	14	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:5455728C>A	uc002mca.3	+	1	303	c.226C>A	c.(226-228)CCG>ACG	p.P76T		NM_181710	NP_859061	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4 precursor	76	Extracellular (Potential).					integral to membrane	zinc ion binding			large_intestine(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		GTGGCCACGGCCGGGCCGAGC	0.672													18	65	---	---	---	---	PASS	A	5455728	A	A	5455728	3	1	70	1	0	0	0	0	1	0	0	0	18211	739	26	3	228	3	ZNRF4	19	5455728	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	3949434	5455728	53673255	227	27384										
VAV1	7409	broad.mit.edu	37	chr19	6825111	6825111	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctgaaacctcaagacattgaGatcatctttatcaacattga	5	9	4	4			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:6825111G>T	uc002mfu.1	+	7	799	c.702G>T	c.(700-702)GAG>GAT	p.E234D	VAV1_uc010xjh.1_Missense_Mutation_p.E202D|VAV1_uc010dva.1_Missense_Mutation_p.E234D|VAV1_uc002mfv.1_Missense_Mutation_p.E179D	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	234	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						AAGACATTGAGATCATCTTTA	0.542													35	113	---	---	---	---	PASS	T	6825111	T	T	6825111	3	4	70	1	0	0	0	0	1	0	0	0	17128	933	33	2	728	2	VAV1	19	6825111	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	1369383	6825111	52303872	228	27385										
FBN3	84467	broad.mit.edu	37	chr19	8130938	8130938	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gttccaggccccggccgcctCcgccccagctgcagggagct	13	19	0	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:8130938C>A	uc002mjf.2	-	63	8316	c.8295G>T	c.(8293-8295)CGG>CGT	p.R2765R	FBN3_uc002mje.2_Silent_p.R561R	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2765						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CCGGCCGCCTCCGCCCCAGCT	0.682													38	104	---	---	---	---	PASS	A	8130938	A	A	8130938	2	1	70	1	0	0	0	0	0	0	0	1	5704	842	30	2		2	FBN3	19	8130938	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	1305827	8130938	50998045	229	27386										
MUC16	94025	broad.mit.edu	37	chr19	9046849	9046849	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tctgatcccctatgggaaaaGttgggaattgtcccagaaac	10	9	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:9046849G>C	uc002mkp.2	-	5	34986	c.34782C>G	c.(34780-34782)AAC>AAG	p.N11594K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11596	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TATGGGAAAAGTTGGGAATTG	0.517													31	61	---	---	---	---	PASS	C	9046849	C	C	9046849	3	2	70	1	0	0	0	0	1	0	0	0	9973	1020	36	4	9061	4	MUC16	19	9046849	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	915911	9046849	50082134	230	27387										
MUC16	94025	broad.mit.edu	37	chr19	9070865	9070865	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aggtctgagatggatgttctGctagaggagatttctgttct	13	5	4	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:9070865G>A	uc002mkp.2	-	3	16785	c.16581C>T	c.(16579-16581)AGC>AGT	p.S5527S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5529	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGGATGTTCTGCTAGAGGAGA	0.493													48	74	---	---	---	---	PASS	A	9070865	A	A	9070865	2	1	70	1	0	0	0	0	0	0	0	1	9973	1310	46	3		3	MUC16	19	9070865	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	24016	9070865	50058118	231	27388										
MUC16	94025	broad.mit.edu	37	chr19	9085224	9085224	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gacactgtccatggatccttGttcattctaaaggaaaccaa	7	10	2	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:9085224G>C	uc002mkp.2	-	1	6795	c.6591C>G	c.(6589-6591)AAC>AAG	p.N2197K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2197	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATGGATCCTTGTTCATTCTAA	0.483													31	50	---	---	---	---	PASS	C	9085224	C	C	9085224	3	2	70	1	0	0	0	0	1	0	0	0	9973	1368	48	4	37268	4	MUC16	19	9085224	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	14359	9085224	50043759	232	27389										
ZNF709	163051	broad.mit.edu	37	chr19	12577614	12577614	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgagagggacccagcaaagcCcactcctcctgggtgaagtt	12	12	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:12577614C>A	uc002mtv.3	-	2	215	c.54G>T	c.(52-54)TGG>TGT	p.W18C	ZNF709_uc002mtw.3_5'UTR|ZNF709_uc002mtx.3_Missense_Mutation_p.W18C	NM_152601	NP_689814	Q8N972	ZN709_HUMAN	zinc finger protein 709 isoform a	18	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCAGCAAAGCCCACTCCTCCT	0.478													52	109	---	---	---	---	PASS	A	12577614	A	A	12577614	3	1	70	1	0	0	0	0	1	0	0	0	18110	624	22	3	1883	3	ZNF709	19	12577614	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	3492390	12577614	46551369	233	27390										
PKN1	5585	broad.mit.edu	37	chr19	14578739	14578739	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agctgttcgccatcaaggctCtgaagaaaggggacattgtg	13	8	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:14578739C>G	uc002myp.2	+	15	2104	c.1936C>G	c.(1936-1938)CTG>GTG	p.L646V	PKN1_uc002myq.2_Missense_Mutation_p.L652V|PKN1_uc002myr.2_5'UTR	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	646	Protein kinase.				activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						CATCAAGGCTCTGAAGAAAGG	0.607													20	42	---	---	---	---	PASS	G	14578739	G	G	14578739	3	3	70	1	0	0	0	0	1	0	0	0	11979	912	32	2	2037	2	PKN1	19	14578739	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	2001125	14578739	44550244	234	27391										
NDUFB7	4713	broad.mit.edu	37	chr19	14682710	14682710	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctgggcctcaccgcgctcctTgcgttcggggaagccgtagt	14	14	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:14682710T>A	uc002mzg.2	-	1	177	c.103A>T	c.(103-105)AAG>TAG	p.K35*		NM_004146	NP_004137	P17568	NDUB7_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	35					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			ovary(1)	1					NADH(DB00157)	CCGCGCTCCTTGCGTTCGGGG	0.736													7	20	---	---	---	---	PASS	A	14682710	A	A	14682710	4	1	70	1	0	0	0	0	0	1	0	0	10286	1821	63	5	322	5	NDUFB7	19	14682710	Nonsense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	103971	14682710	44446273	235	27392										
JAK3	3718	broad.mit.edu	37	chr19	17945801	17945801	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gggggccacccaggggatccTgtcggtgagcactgagggaa	18	10	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:17945801T>C	uc002nhn.3	-	16	2159	c.2059A>G	c.(2059-2061)AGG>GGG	p.R687G	JAK3_uc010ebh.2_Intron|JAK3_uc002nho.2_Missense_Mutation_p.R687G	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	687	Protein kinase 1.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						CAGGGGATCCTGTCGGTGAGC	0.612		2	Mis		acute megakaryocytic leukemia|								45	80	---	---	---	---	PASS	C	17945801	C	C	17945801	3	2	70	1	0	0	0	0	1	0	0	0	7939	1579	55	5	1351	5	JAK3	19	17945801	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	3263091	17945801	41183182	236	27393										
ZNF93	81931	broad.mit.edu	37	chr19	20044384	20044384	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctacatttgtgaagaatgtgGcaaagcctttaagtactcct	8	8	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:20044384G>T	uc002non.2	+	4	731	c.620G>T	c.(619-621)GGC>GTC	p.G207V		NM_031218	NP_112495	P35789	ZNF93_HUMAN	zinc finger protein 93	207	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1						GAAGAATGTGGCAAAGCCTTT	0.363													7	37	---	---	---	---	PASS	T	20044384	T	T	20044384	3	4	70	1	0	0	0	0	1	0	0	0	18199	1203	42	3	634	3	ZNF93	19	20044384	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	2098583	20044384	39084599	237	27394										
ZNF566	84924	broad.mit.edu	37	chr19	36940165	36940165	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tttgatgtttaataagttgtGagctctgactaaaggcattg	10	4	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:36940165G>A	uc002oea.3	-	5	1053	c.971C>T	c.(970-972)TCA>TTA	p.S324L	ZNF566_uc010xte.1_Missense_Mutation_p.S324L|ZNF566_uc010xtf.1_Missense_Mutation_p.S325L|ZNF566_uc002oeb.3_Missense_Mutation_p.S324L|ZNF566_uc002oec.3_Missense_Mutation_p.S220L|ZNF566_uc010xtg.1_Missense_Mutation_p.S220L	NM_032838	NP_116227	Q969W8	ZN566_HUMAN	zinc finger protein 566 isoform 1	324	C2H2-type 5.|C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					AATAAGTTGTGAGCTCTGACT	0.393													22	65	---	---	---	---	PASS	A	36940165	A	A	36940165	3	1	70	1	0	0	0	0	1	0	0	0	17994	1294	45	2	289	2	ZNF566	19	36940165	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	16895781	36940165	22188818	238	27395										
LGALS13	29124	broad.mit.edu	37	chr19	40097920	40097920	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atcgaatcccgccatcatttGtgaagatggtgcaagtgtcg	11	9	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:40097920G>C	uc002omb.2	+	4	401	c.361G>C	c.(361-363)GTG>CTG	p.V121L		NM_013268	NP_037400	Q9UHV8	PP13_HUMAN	galectin-13	121	Galectin.				lipid catabolic process|phospholipid metabolic process		carboxylesterase activity|lysophospholipase activity|sugar binding			ovary(1)	1	all_cancers(60;1.77e-05)|all_lung(34;5.38e-08)|Lung NSC(34;6.37e-08)|Ovarian(47;0.116)		Epithelial(26;3.28e-26)|OV - Ovarian serous cystadenocarcinoma(5;7.31e-25)|all cancers(26;1.15e-23)|LUSC - Lung squamous cell carcinoma(53;0.00281)			GCCATCATTTGTGAAGATGGT	0.448													35	69	---	---	---	---	PASS	C	40097920	C	C	40097920	3	2	70	1	0	0	0	0	1	0	0	0	8740	1377	48	4	375	4	LGALS13	19	40097920	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	3157755	40097920	19031063	239	27396										
FCGBP	8857	broad.mit.edu	37	chr19	40362888	40362888	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tcagcaccgcctggcaggtcGcgaaggggccctgggggttc	17	13	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:40362888G>A	uc002omp.3	-	32	15190	c.15182C>T	c.(15181-15183)GCG>GTG	p.A5061V		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	5061	VWFD 12.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CTGGCAGGTCGCGAAGGGGCC	0.652													7	183	---	---	---	---	PASS	A	40362888	A	A	40362888	3	1	70	1	0	0	0	0	1	0	0	0	5778	1087	38	1	1055	1	FCGBP	19	40362888	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	264968	40362888	18766095	240	27397										
SHKBP1	92799	broad.mit.edu	37	chr19	41086788	41086788	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agatggtggcagcagccaccGgcagcgagatcctgctatgg	15	11	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:41086788G>A	uc002oob.2	+	9	839	c.790G>A	c.(790-792)GGC>AGC	p.G264S	SHKBP1_uc002ooc.2_Missense_Mutation_p.G264S|SHKBP1_uc002ood.2_Missense_Mutation_p.G264S|SHKBP1_uc010xvl.1_Missense_Mutation_p.G187S|SHKBP1_uc002ooe.2_Missense_Mutation_p.G101S|SHKBP1_uc002oof.2_Missense_Mutation_p.G101S|SHKBP1_uc010xvm.1_Missense_Mutation_p.G101S|SHKBP1_uc010xvn.1_Missense_Mutation_p.G142S	NM_138392	NP_612401	Q8TBC3	SHKB1_HUMAN	SH3KBP1 binding protein 1	264	WD 1.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|pancreas(1)	2			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AGCAGCCACCGGCAGCGAGAT	0.607													20	113	---	---	---	---	PASS	A	41086788	A	A	41086788	3	1	70	1	0	0	0	0	1	0	0	0	14284	1116	39	1	824	1	SHKBP1	19	41086788	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	723900	41086788	18042195	241	27398										
CYP2A13	1553	broad.mit.edu	37	chr19	41594547	41594547	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	acagagcagatgtacaactcCctcatgaaggtgtcctaagg	10	10	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:41594547C>A	uc002opt.2	+	1	180	c.171C>A	c.(169-171)TCC>TCA	p.S57S		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	57					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	TGTACAACTCCCTCATGAAGG	0.612													26	82	---	---	---	---	PASS	A	41594547	A	A	41594547	2	1	70	1	0	0	0	0	0	0	0	1	4161	610	22	3		3	CYP2A13	19	41594547	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	507759	41594547	17534436	242	27399										
ZNF229	7772	broad.mit.edu	37	chr19	44932887	44932887	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agccataactgaatcccttgCcacactgatcacacgtatag	6	13	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:44932887C>A	uc002oze.1	-	6	2503	c.2069G>T	c.(2068-2070)GGC>GTC	p.G690V	ZNF229_uc010ejk.1_Missense_Mutation_p.G344V|ZNF229_uc010ejl.1_Missense_Mutation_p.G684V	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	690	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				GAATCCCTTGCCACACTGATC	0.488													53	120	---	---	---	---	PASS	A	44932887	A	A	44932887	3	1	70	1	0	0	0	0	1	0	0	0	17779	739	26	3	412	3	ZNF229	19	44932887	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	3338340	44932887	14196096	243	27400										
GEMIN7	79760	broad.mit.edu	37	chr19	45593579	45593579	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cgggagcgttacctccgcagCctgctggccatggtgggtca	15	13	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:45593579C>T	uc002pap.1	+	3	358	c.207C>T	c.(205-207)AGC>AGT	p.S69S	uc002pas.2_5'Flank|GEMIN7_uc002paq.1_Silent_p.S69S|GEMIN7_uc002par.1_Silent_p.S69S	NM_001007270	NP_001007271	Q9H840	GEMI7_HUMAN	gemin 7	69					ncRNA metabolic process|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0131)		ACCTCCGCAGCCTGCTGGCCA	0.617													11	29	---	---	---	---	PASS	T	45593579	T	T	45593579	2	4	70	1	0	0	0	0	0	0	0	1	6333	738	26	3		3	GEMIN7	19	45593579	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	660692	45593579	13535404	244	27401										
ZNF114	163071	broad.mit.edu	37	chr19	48789058	48789058	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	accaaagacgcaacccctcaGccggatattcttcctaaaag	6	14	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:48789058G>T	uc002pil.1	+	6	674	c.177G>T	c.(175-177)CAG>CAT	p.Q59H	ZNF114_uc010elv.1_Missense_Mutation_p.Q59H|ZNF114_uc002pim.1_Missense_Mutation_p.Q59H|ZNF114_uc002pin.2_Missense_Mutation_p.Q25H	NM_153608	NP_705836	Q8NC26	ZN114_HUMAN	zinc finger protein 114	59	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_epithelial(76;8.01e-05)|all_lung(116;0.000112)|Lung NSC(112;0.000192)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;7.56e-05)|all cancers(93;0.000113)|Epithelial(262;0.00962)|GBM - Glioblastoma multiforme(486;0.0153)		CAACCCCTCAGCCGGATATTC	0.438													44	92	---	---	---	---	PASS	T	48789058	T	T	48789058	3	4	70	1	0	0	0	0	1	0	0	0	17713	962	34	3	187	3	ZNF114	19	48789058	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	3195479	48789058	10339925	245	27402										
SIGLEC14	100049587	broad.mit.edu	37	chr19	52147192	52147192	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tttccctcccggaaccagctCagtgaggcaggggggttgct	14	12	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:52147192C>A	uc002pxf.3	-	5	972	c.852G>T	c.(850-852)CTG>CTT	p.L284L		NM_001098612	NP_001092082	Q08ET2	SIG14_HUMAN	sialic acid binding Ig-like lectin 14 precursor	284	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to membrane|plasma membrane	protein binding|sugar binding			ovary(1)	1		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000965)|OV - Ovarian serous cystadenocarcinoma(262;0.0195)		GGAACCAGCTCAGTGAGGCAG	0.602													23	54	---	---	---	---	PASS	A	52147192	A	A	52147192	2	1	70	1	0	0	0	0	0	0	0	1	14309	813	29	2		2	SIGLEC14	19	52147192	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	3358134	52147192	6981791	246	27403										
LILRA1	11024	broad.mit.edu	37	chr19	55106308	55106308	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	attgtgaagaagggccagttCcccatcccatccatcacctg	8	14	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:55106308C>A	uc002qgh.1	+	4	431	c.249C>A	c.(247-249)TTC>TTA	p.F83L	LILRA2_uc010yfg.1_Intron|LILRA1_uc010yfh.1_Missense_Mutation_p.F83L	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	83	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		AGGGCCAGTTCCCCATCCCAT	0.567													60	115	---	---	---	---	PASS	A	55106308	A	A	55106308	3	1	70	1	0	0	0	0	1	0	0	0	8784	854	30	2	259	2	LILRA1	19	55106308	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	2959116	55106308	4022675	247	27404										
NLRP13	126204	broad.mit.edu	37	chr19	56422082	56422082	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgttccatgcgtgcatcctgGaatcaaacttgcttgtcctt	8	11	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:56422082G>T	uc010ygg.1	-	6	2154	c.2129C>A	c.(2128-2130)TCC>TAC	p.S710Y		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	710							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)		GTGCATCCTGGAATCAAACTT	0.458													62	118	---	---	---	---	PASS	T	56422082	T	T	56422082	3	4	70	1	0	0	0	0	1	0	0	0	10475	1174	41	2	1024	2	NLRP13	19	56422082	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	1315774	56422082	2706901	248	27405										
ZNF8	7554	broad.mit.edu	37	chr19	58806806	58806806	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctggctttgtttgacatccaAaaaatcatgcaagagaaaaa	7	7	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr19:58806806A>G	uc002qry.1	+	4	1762	c.1632A>G	c.(1630-1632)CAA>CAG	p.Q544Q	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	544					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		TTGACATCCAAAAAATCATGC	0.502													10	79	---	---	---	---	PASS	G	58806806	G	G	58806806	2	3	70	1	0	0	0	0	0	0	0	1	18164	11	1	5		5	ZNF8	19	58806806	Silent	SNP	A	TCGA-34-5239-01A-21D-1817-08	2384724	58806806	322177	249	27406										
PDYN	5173	broad.mit.edu	37	chr20	1961487	1961487	+	Missense_Mutation	SNP	C	A	A													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttccccaaccgacttgctccCcaagtcctccttgtcattga							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr20:1961487C>A	uc010gaj.2	-	3	489	c.247G>T	c.(247-249)GGG>TGG	p.G83W	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.G83W|PDYN_uc010zpt.1_Intron	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	83					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						GACTTGCTCCCCAAGTCCTCC	0.562													63	61	---	---	---	---	PASS	A	1961487	A	A	1961487	3	1	70	1	0	0	0	0	1	0	0	0	11699	623	22	3	521	3	PDYN	20	1961487	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08		1961487	61064033	250	27407	571	2								
PDYN	5173	broad.mit.edu	37	chr20	1961488	1961488	+	Missense_Mutation	SNP	C	A	A													0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tccccaaccgacttgctcccCaagtcctccttgtcattgag							TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr20:1961488C>A	uc010gaj.2	-	3	488	c.246G>T	c.(244-246)TTG>TTT	p.L82F	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.L82F|PDYN_uc010zpt.1_Intron	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	82					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						ACTTGCTCCCCAAGTCCTCCT	0.562													65	58	---	---	---	---	PASS	A	1961488	A	A	1961488	3	1	70	1	0	0	0	0	1	0	0	0	11699	593	21	3	522	3	PDYN	20	1961488	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	1	1961488	61064032	251	27408	571	2								
TGM6	343641	broad.mit.edu	37	chr20	2375122	2375122	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cagagtcaccaaggtggactGgcagcggtcgaggaatggcg	17	9	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr20:2375122G>T	uc002wfy.1	+	2	93	c.32G>T	c.(31-33)TGG>TTG	p.W11L	TGM6_uc010gal.1_Missense_Mutation_p.W11L	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	11					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	AAGGTGGACTGGCAGCGGTCG	0.637													13	72	---	---	---	---	PASS	T	2375122	T	T	2375122	3	4	70	1	0	0	0	0	1	0	0	0	15831	1357	47	3	38	3	TGM6	20	2375122	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	413634	2375122	60650398	252	27409										
SIGLEC1	6614	broad.mit.edu	37	chr20	3673306	3673306	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	accctcctgcagccaacgacCgttgtggtaccaagtataga	9	13	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr20:3673306C>T	uc002wja.2	-	15	3892	c.3892G>A	c.(3892-3894)GGT>AGT	p.G1298S	SIGLEC1_uc002wjb.1_5'UTR|SIGLEC1_uc002wiz.3_Missense_Mutation_p.G1298S	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1298	Ig-like C2-type 13.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						AGCCAACGACCGTTGTGGTAC	0.657													12	83	---	---	---	---	PASS	T	3673306	T	T	3673306	3	4	70	1	0	0	0	0	1	0	0	0	14305	652	23	1	1265	1	SIGLEC1	20	3673306	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	1298184	3673306	59352214	253	27410										
CST4	1472	broad.mit.edu	37	chr20	23669511	23669511	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	aggtctgcatcatagatgccAcctgggattatcctattctc	8	11	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr20:23669511A>T	uc002wto.1	-	1	152	c.96T>A	c.(94-96)GGT>GGA	p.G32G		NM_001899	NP_001890	P01036	CYTS_HUMAN	cystatin S precursor	32		Reactive site.				extracellular region	cysteine-type endopeptidase inhibitor activity			breast(1)	1	Lung NSC(19;0.0789)|Colorectal(13;0.0993)|all_lung(19;0.169)					CATAGATGCCACCTGGGATTA	0.562													24	98	---	---	---	---	PASS	T	23669511	T	T	23669511	2	4	70	1	0	0	0	0	0	0	0	1	3974	146	6	5		5	CST4	20	23669511	Silent	SNP	A	TCGA-34-5239-01A-21D-1817-08	19996205	23669511	39356009	254	27411										
NINL	22981	broad.mit.edu	37	chr20	25493536	25493536	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctggcctgggtttgctgctcCggcacgcgtctggcttctgt	14	13	2	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr20:25493536C>T	uc002wux.1	-	4	458	c.384G>A	c.(382-384)CCG>CCA	p.P128P	NINL_uc010gdn.1_Silent_p.P128P|NINL_uc010gdo.1_5'UTR|NINL_uc010ztf.1_Silent_p.P144P	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	128					G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						TTTGCTGCTCCGGCACGCGTC	0.627													7	106	---	---	---	---	PASS	T	25493536	T	T	25493536	2	4	70	1	0	0	0	0	0	0	0	1	10420	639	23	1		1	NINL	20	25493536	Silent	SNP	C	TCGA-34-5239-01A-21D-1817-08	1824025	25493536	37531984	255	27412										
CDK5RAP1	51654	broad.mit.edu	37	chr20	31960462	31960462	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	atgtacctggaatagattctCtaatatggtgaactaactcc	7	8	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr20:31960462C>A	uc010gek.2	-	11	1413	c.1289G>T	c.(1288-1290)AGA>ATA	p.R430I	CDK5RAP1_uc002wyy.2_Missense_Mutation_p.R326I|CDK5RAP1_uc002wyz.2_Missense_Mutation_p.R416I|CDK5RAP1_uc002wza.2_Missense_Mutation_p.R416I|CDK5RAP1_uc010gel.2_Missense_Mutation_p.R325I|CDK5RAP1_uc010gem.2_Missense_Mutation_p.R339I|CDK5RAP1_uc002wzc.1_Missense_Mutation_p.R416I|CDK5RAP1_uc002wzb.1_Missense_Mutation_p.R51I	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	430					brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5						AATAGATTCTCTAATATGGTG	0.368													29	75	---	---	---	---	PASS	A	31960462	A	A	31960462	3	1	70	1	0	0	0	0	1	0	0	0	3145	913	32	2	536	2	CDK5RAP1	20	31960462	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	6466926	31960462	31065058	256	27413										
BPI	671	broad.mit.edu	37	chr20	36954788	36954788	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cgtggatgtccaggcctttgCcgtcctccccaactcctccc	8	19	0	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr20:36954788C>A	uc002xib.2	+	10	1189	c.1127C>A	c.(1126-1128)GCC>GAC	p.A376D		NM_001725	NP_001716	P17213	BPI_HUMAN	bactericidal/permeability-increasing protein	376					defense response to bacterium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of macrophage activation|negative regulation of tumor necrosis factor production	extracellular region|integral to plasma membrane	lipid binding|lipopolysaccharide binding			ovary(4)	4		Myeloproliferative disorder(115;0.00878)				CAGGCCTTTGCCGTCCTCCCC	0.493													8	30	---	---	---	---	PASS	A	36954788	A	A	36954788	3	1	70	1	0	0	0	0	1	0	0	0	1490	739	26	3	1165	3	BPI	20	36954788	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	4994326	36954788	26070732	257	27414										
FAM65C	140876	broad.mit.edu	37	chr20	49218725	49218725	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cagaggcccctcgagggccaCgccaggcccgtcctctctgt	12	18	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr20:49218725C>T	uc002xvm.2	-	13	1849	c.1531G>A	c.(1531-1533)GTG>ATG	p.V511M	FAM65C_uc010zyt.1_Missense_Mutation_p.V515M|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Missense_Mutation_p.V511M	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	511										ovary(2)	2						TCGAGGGCCACGCCAGGCCCG	0.692													5	22	---	---	---	---	PASS	T	49218725	T	T	49218725	3	4	70	1	0	0	0	0	1	0	0	0	5601	536	19	1	1349	1	FAM65C	20	49218725	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	12263937	49218725	13806795	258	27415										
SS18L1	26039	broad.mit.edu	37	chr20	60738679	60738679	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctaccggccctcccagcaagGtaacgcccggccgggccagg	13	18	0	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr20:60738679G>T	uc002ycb.2	+	6	776	c.721_splice	c.e6+1	p.G241_splice	SS18L1_uc011aaa.1_Splice_Site_p.G241_splice|SS18L1_uc002ybz.1_Splice_Site|SS18L1_uc002yca.1_Splice_Site|SS18L1_uc002ycc.1_Splice_Site	NM_198935	NP_945173	O75177	CREST_HUMAN	SS18-like protein 1						chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed chromosome kinetochore				ovary(2)	2	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.92e-08)			TCCCAGCAAGGTAACGCCCGG	0.706			T	SSX1	synovial sarcoma								12	15	---	---	---	---	PASS	T	60738679	T	T	60738679	5	4	70	1	0	0	0	0	0	0	1	0	15175	1275	44	3	744	3	SS18L1	20	60738679	Splice_Site	SNP	G	TCGA-34-5239-01A-21D-1817-08	11519954	60738679	2286841	259	27416										
TMPRSS15	5651	broad.mit.edu	37	chr21	19670050	19670050	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agaacagatttagggacccaCctgggtgttagtattaagtg	12	6	0	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr21:19670050C>A	uc002ykw.2	-	19	2292	c.2261_splice	c.e19+1	p.S754_splice		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor						proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TAGGGACCCACCTGGGTGTTA	0.418													8	55	---	---	---	---	PASS	A	19670050	A	A	19670050	5	1	70	1	0	0	0	0	0	0	1	0	16243	521	18	3	825	3	TMPRSS15	21	19670050	Splice_Site	SNP	C	TCGA-34-5239-01A-21D-1817-08		19670050	28459845	260	27417										
AGPAT3	56894	broad.mit.edu	37	chr21	45391324	45391324	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ggaaacaagaacccgtccctGctggggatcctctacgggaa	12	12	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr21:45391324G>A	uc002zdv.2	+	7	942	c.720G>A	c.(718-720)CTG>CTA	p.L240L	AGPAT3_uc002zdw.2_Silent_p.L240L|AGPAT3_uc002zdx.2_Silent_p.L327L|AGPAT3_uc002zdy.2_Silent_p.L178L	NM_020132	NP_064517	Q9NRZ7	PLCC_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 3	240	Lumenal (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0				STAD - Stomach adenocarcinoma(101;0.18)|Colorectal(79;0.24)		ACCCGTCCCTGCTGGGGATCC	0.607													26	134	---	---	---	---	PASS	A	45391324	A	A	45391324	2	1	70	1	0	0	0	0	0	0	0	1	388	1306	46	3		3	AGPAT3	21	45391324	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	25721274	45391324	2738571	261	27418										
TRPM2	7226	broad.mit.edu	37	chr21	45811378	45811378	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ttgcgcgcccgcggcgccccGcctgcagatgcaccacgtgg	14	18	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr21:45811378G>T	uc002zet.1	+	12	1877	c.1664G>T	c.(1663-1665)CGC>CTC	p.R555L	TRPM2_uc002zeu.1_Missense_Mutation_p.R555L|TRPM2_uc002zew.1_Missense_Mutation_p.R555L|TRPM2_uc010gpt.1_Missense_Mutation_p.R555L|TRPM2_uc002zex.1_Missense_Mutation_p.R341L|TRPM2_uc002zey.1_Missense_Mutation_p.R68L	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	555	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						gcggcgccccgccTGCAGATG	0.602													4	12	---	---	---	---	PASS	T	45811378	T	T	45811378	3	4	70	1	0	0	0	0	1	0	0	0	16583	1087	38	1	1706	1	TRPM2	21	45811378	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	420054	45811378	2318517	262	27419										
C21orf29	54084	broad.mit.edu	37	chr21	45947267	45947267	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ctcttcggtccacttgtagaCggcggatgtggctttgcgat	13	10	1	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr21:45947267C>T	uc002zfe.1	-	7	1123	c.1057G>A	c.(1057-1059)GTC>ATC	p.V353I	C21orf29_uc010gpv.1_Missense_Mutation_p.V285I	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	353	EAR 1.				cell adhesion	extracellular region	structural molecule activity				0						CACTTGTAGACGGCGGATGTG	0.552													14	134	---	---	---	---	PASS	T	45947267	T	T	45947267	3	4	70	1	0	0	0	0	1	0	0	0	2124	536	19	1	976	1	C21orf29	21	45947267	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	135889	45947267	2182628	263	27420										
CECR2	27443	broad.mit.edu	37	chr22	17990897	17990897	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gcatcctaggtggatgtctgAccacctgtccatcaaacccg	9	14	2	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr22:17990897A>G	uc010gqw.1	+	7	923	c.797A>G	c.(796-798)GAC>GGC	p.D266G	CECR2_uc010gqv.1_Missense_Mutation_p.D145G|CECR2_uc002zml.2_Missense_Mutation_p.D145G|CECR2_uc002zmm.1_Intron	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	308					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		TGGATGTCTGACCACCTGTCC	0.473													42	130	---	---	---	---	PASS	G	17990897	G	G	17990897	3	3	70	1	0	0	0	0	1	0	0	0	3206	275	10	5	825	5	CECR2	22	17990897	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08		17990897	33313669	264	27421										
CECR2	27443	broad.mit.edu	37	chr22	18020403	18020403	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gctccacacagcccccgcggGaggtgggcacttccaatggc	13	16	0	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr22:18020403G>A	uc010gqw.1	+	13	1858	c.1732G>A	c.(1732-1734)GAG>AAG	p.E578K	CECR2_uc010gqv.1_Missense_Mutation_p.E437K|CECR2_uc002zml.2_Missense_Mutation_p.E437K	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	620					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		GCCCCCGCGGGAGGTGGGCAC	0.592													37	51	---	---	---	---	PASS	A	18020403	A	A	18020403	3	1	70	1	0	0	0	0	1	0	0	0	3206	1175	41	2	1784	2	CECR2	22	18020403	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	29506	18020403	33284163	265	27422										
DUSP18	150290	broad.mit.edu	37	chr22	31059940	31059940	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gttatctgcgagaggccgctGactgagggctgccggaactg	16	10	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr22:31059940G>A	uc003aiu.2	-	2	552	c.51C>T	c.(49-51)GTC>GTT	p.V17V	SLC35E4_uc003ait.2_Intron|DUSP18_uc010gwa.1_RNA|DUSP18_uc003aiw.1_Silent_p.V17V	NM_152511	NP_689724	Q8NEJ0	DUS18_HUMAN	dual specificity phosphatase 18	17						cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0						AGAGGCCGCTGACTGAGGGCT	0.567													26	43	---	---	---	---	PASS	A	31059940	A	A	31059940	2	1	70	1	0	0	0	0	0	0	0	1	4817	1277	45	2		2	DUSP18	22	31059940	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	13039537	31059940	20244626	266	27423										
OSBP2	23762	broad.mit.edu	37	chr22	31091240	31091240	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agagtcaagctcaggtgtagGggctgggcccttcactaagg	15	9	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr22:31091240G>A	uc003aiy.1	+	1	448	c.344G>A	c.(343-345)GGG>GAG	p.G115E	OSBP2_uc011ala.1_Intron|OSBP2_uc010gwc.1_Intron|OSBP2_uc003aix.1_Missense_Mutation_p.G115E|OSBP2_uc011alb.1_Missense_Mutation_p.G115E|OSBP2_uc003aiz.1_Missense_Mutation_p.G115E	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	115					lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						TCAGGTGTAGGGGCTGGGCCC	0.677													29	46	---	---	---	---	PASS	A	31091240	A	A	31091240	3	1	70	1	0	0	0	0	1	0	0	0	11274	1232	43	3	346	3	OSBP2	22	31091240	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	31300	31091240	20213326	267	27424										
SCUBE1	80274	broad.mit.edu	37	chr22	43623418	43623418	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tccagtggagccgcctccccGggggacagacgcactcgtag	14	15	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr22:43623418G>T	uc003bdt.1	-	10	1257	c.1169C>A	c.(1168-1170)CCG>CAG	p.P390Q		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	390	EGF-like 9; calcium-binding (Potential).				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				CCGCCTCCCCGGGGGACAGAC	0.667													12	25	---	---	---	---	PASS	T	43623418	T	T	43623418	3	4	70	1	0	0	0	0	1	0	0	0	13944	1116	39	1	1849	1	SCUBE1	22	43623418	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	12532178	43623418	7681148	268	27425										
PNPLA3	80339	broad.mit.edu	37	chr22	44323026	44323026	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gttctggtgtctgactttcgGtccaaagacgaagtcgtgga	13	8	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chr22:44323026G>T	uc003bei.1	+	2	572	c.399G>T	c.(397-399)CGG>CGT	p.R133R	PNPLA3_uc010gzm.1_RNA	NM_025225	NP_079501	Q9NST1	PLPL3_HUMAN	patatin-like phospholipase domain containing 3	133	Lumenal (Potential).|Patatin.				triglyceride biosynthetic process|triglyceride catabolic process	integral to membrane	diolein transacylation activity|mono-olein transacylation activity|phospholipase A2 activity|triglyceride lipase activity				0		Ovarian(80;0.024)|all_neural(38;0.0416)				CTGACTTTCGGTCCAAAGACG	0.418													17	60	---	---	---	---	PASS	T	44323026	T	T	44323026	2	4	70	1	0	0	0	0	0	0	0	1	12166	1248	44	3		3	PNPLA3	22	44323026	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08	699608	44323026	6981540	269	27426										
REPS2	9185	broad.mit.edu	37	chrX	17072970	17072970	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgtgatggagccctgaccctGcctgagttctgtgctgcgtt	13	11	1	3			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chrX:17072970G>T	uc004cxv.1	+	8	1182	c.1011G>T	c.(1009-1011)CTG>CTT	p.L337L	REPS2_uc004cxw.1_Silent_p.L336L|REPS2_uc011miw.1_Silent_p.L196L	NM_004726	NP_004717	Q8NFH8	REPS2_HUMAN	RALBP1 associated Eps domain containing 2	337	EH 2.|EF-hand.|Potential.				epidermal growth factor receptor signaling pathway|protein complex assembly	cytoplasm	calcium ion binding|protein binding			skin(2)|central_nervous_system(1)	3	Hepatocellular(33;0.183)					CCCTGACCCTGCCTGAGTTCT	0.527													24	34	---	---	---	---	PASS	T	17072970	T	T	17072970	2	4	70	1	0	0	0	0	0	0	0	1	13229	1306	46	3		3	REPS2	23	17072970	Silent	SNP	G	TCGA-34-5239-01A-21D-1817-08		17072970	138197590	270	27427										
NHS	4810	broad.mit.edu	37	chrX	17394302	17394302	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	tgtcctccggcagctctcggAcgtggcccggcacgcttgca	13	16	1	0			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chrX:17394302A>T	uc004cxx.2	+	1	760	c.422A>T	c.(421-423)GAC>GTC	p.D141V	NHS_uc011mix.1_Missense_Mutation_p.D141V	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	141						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					CAGCTCTCGGACGTGGCCCGG	0.602													7	5	---	---	---	---	PASS	T	17394302	T	T	17394302	3	4	70	1	0	0	0	0	1	0	0	0	10411	275	10	5	424	5	NHS	23	17394302	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	321332	17394302	137876258	271	27428										
FAM47C	442444	broad.mit.edu	37	chrX	37028600	37028600	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	gtcccgtctccacccagagcCtcccaagactcgggtgtcca	9	18	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chrX:37028600C>A	uc004ddl.1	+	1	2131	c.2117C>A	c.(2116-2118)CCT>CAT	p.P706H		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	706										ovary(3)	3						CACCCAGAGCCTCCCAAGACT	0.632													20	26	---	---	---	---	PASS	A	37028600	A	A	37028600	3	1	70	1	0	0	0	0	1	0	0	0	5571	681	24	3	2119	3	FAM47C	23	37028600	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	19634298	37028600	118241960	272	27429										
RLIM	51132	broad.mit.edu	37	chrX	73811973	73811973	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	agatgtagtctcacttaaacCagtatttaagattctacgaa	6	7	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chrX:73811973C>A	uc004ebu.2	-	5	1467	c.1177G>T	c.(1177-1179)GGT>TGT	p.G393C	RLIM_uc004ebw.2_Missense_Mutation_p.G393C	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	393					random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TCACTTAAACCAGTATTTAAG	0.413													29	24	---	---	---	---	PASS	A	73811973	A	A	73811973	3	1	70	1	0	0	0	0	1	0	0	0	13390	594	21	3	701	3	RLIM	23	73811973	Missense_Mutation	SNP	C	TCGA-34-5239-01A-21D-1817-08	36783373	73811973	81458587	273	27430										
SMARCA1	6594	broad.mit.edu	37	chrX	128650319	128650319	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ccaacatactctccagcagaAattaagctctgcttttcatc	4	13	3	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chrX:128650319A>C	uc004eun.3	-	3	530	c.417T>G	c.(415-417)ATT>ATG	p.I139M	SMARCA1_uc004eup.3_Missense_Mutation_p.I139M|SMARCA1_uc011muk.1_Missense_Mutation_p.I139M|SMARCA1_uc011mul.1_Missense_Mutation_p.I139M	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	139					ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						CTCCAGCAGAAATTAAGCTCT	0.264													42	25	---	---	---	---	PASS	C	128650319	C	C	128650319	3	2	70	1	0	0	0	0	1	0	0	0	14768	10	1	5	2835	5	SMARCA1	23	128650319	Missense_Mutation	SNP	A	TCGA-34-5239-01A-21D-1817-08	54838346	128650319	26620241	274	27431										
BCORL1	63035	broad.mit.edu	37	chrX	129148945	129148945	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	catccctgctgctgaacaaaGaccccaacctgggcctcaac	7	17	1	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chrX:129148945G>A	uc004evb.1	+	4	2311	c.2197G>A	c.(2197-2199)GAC>AAC	p.D733N	BCORL1_uc010nrd.1_Missense_Mutation_p.D635N	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	733					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GCTGAACAAAGACCCCAACCT	0.597													12	19	---	---	---	---	PASS	A	129148945	A	A	129148945	3	1	70	1	0	0	0	0	1	0	0	0	1387	942	33	2	2207	2	BCORL1	23	129148945	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	498626	129148945	26121615	275	27432										
GPC3	2719	broad.mit.edu	37	chrX	133087079	133087079	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	ataatccccagaactcacctTggaaaaccgcagcattctga	6	13	2	2			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chrX:133087079T>G	uc004exe.1	-	2	525	c.335A>C	c.(334-336)CAA>CCA	p.Q112P	GPC3_uc010nrn.1_Missense_Mutation_p.Q112P|GPC3_uc011mvh.1_Intron|GPC3_uc010nro.1_Intron|GPC3_uc010nrp.1_5'UTR	NM_004484	NP_004475	P51654	GPC3_HUMAN	glypican 3 isoform 2 precursor	112						extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding|peptidyl-dipeptidase inhibitor activity			lung(2)|prostate(1)|breast(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					GAACTCACCTTGGAAAACCGC	0.383			T|D|Mis|N|F|S			Wilms tumour			Simpson-Golabi-Behmel_syndrome				75	53	---	---	---	---	PASS	G	133087079	G	G	133087079	3	3	70	1	0	0	0	0	1	0	0	0	6599	1812	63	5	1508	5	GPC3	23	133087079	Missense_Mutation	SNP	T	TCGA-34-5239-01A-21D-1817-08	3938134	133087079	22183481	276	27433										
MAGEC1	9947	broad.mit.edu	37	chrX	140995924	140995924	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0772058823529412	21	0.161317460801548	1.30900031635558	1.69858374384236	1.14709551532212	0.283069973260209	0.686347743384342	0	cttatacactggatgaaaagGtggacgagttggcgcggttt	14	6	0	1			TCGA-34-5239-01A-21D-1817-08	TCGA-34-5239-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6e596912-2146-4c4f-97b6-70b610f5d4b4	57519424-2b08-4d99-b4a8-d57630c10ab4	g.chrX:140995924G>T	uc004fbt.2	+	4	3020	c.2734G>T	c.(2734-2736)GTG>TTG	p.V912L	MAGEC1_uc010nsl.1_5'UTR	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	912	MAGE.						protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GGATGAAAAGGTGGACGAGTT	0.483										HNSCC(15;0.026)			69	78	---	---	---	---	PASS	T	140995924	T	T	140995924	3	4	70	1	0	0	0	0	1	0	0	0	9180	1261	44	3	2740	3	MAGEC1	23	140995924	Missense_Mutation	SNP	G	TCGA-34-5239-01A-21D-1817-08	7908845	140995924	14274636	277	27434										
AGTRAP	57085	broad.mit.edu	37	chr1	11808667	11808667	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gtgagctcctggtccacactGgtgaggccaccacctccagc	11	16	0	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:11808667G>T	uc001asv.2	+	4	488	c.364G>T	c.(364-366)GGT>TGT	p.G122C	AGTRAP_uc001ast.2_3'UTR|AGTRAP_uc001asu.2_Intron|AGTRAP_uc001asw.2_Intron|AGTRAP_uc001asx.2_Intron	NM_020350	NP_065083	Q6RW13	ATRAP_HUMAN	angiotensin II receptor-associated protein	122	Cytoplasmic (Potential).|Interaction with AGTR1.					cytoplasmic vesicle membrane|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein binding		AGTRAP/BRAF(2)	stomach(2)	2	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.46e-06)|COAD - Colon adenocarcinoma(227;0.000256)|BRCA - Breast invasive adenocarcinoma(304;0.0003)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		GGTCCACACTGGTGAGGCCAC	0.662													12	32	---	---	---	---	PASS	T	11808667	T	T	11808667	3	4	71	1	0	0	0	0	1	0	0	0	403	1362	47	3	479	3	AGTRAP	1	11808667	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08		11808667	237441954	1	27435										
HSPG2	3339	broad.mit.edu	37	chr1	22163388	22163388	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cccggtcgctgggcacagcaCagtggaactcaacgctggcc	13	15	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:22163388C>G	uc001bfj.2	-	75	10302	c.10262G>C	c.(10261-10263)TGT>TCT	p.C3421S	HSPG2_uc009vqd.2_Missense_Mutation_p.C3422S	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3421	Ig-like C2-type 20.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GGGCACAGCACAGTGGAACTC	0.652													2	7	---	---	---	---	PASS	G	22163388	G	G	22163388	3	3	71	1	0	0	0	0	1	0	0	0	7430	478	17	4	3005	4	HSPG2	1	22163388	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	10354721	22163388	227087233	2	27436										
EXTL1	2134	broad.mit.edu	37	chr1	26357960	26357960	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cattcccccaggctcccgccCtgagggcagattcagcgccc	10	19	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:26357960C>A	uc001blf.2	+	6	2111	c.1244C>A	c.(1243-1245)CCT>CAT	p.P415H		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	415	Lumenal (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		GGCTCCCGCCCTGAGGGCAGA	0.637													8	6	---	---	---	---	PASS	A	26357960	A	A	26357960	3	1	71	1	0	0	0	0	1	0	0	0	5325	681	24	3	1266	3	EXTL1	1	26357960	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	4194572	26357960	222892661	3	27437										
SPOCD1	90853	broad.mit.edu	37	chr1	32280096	32280096	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	atccaaatttctcagtccctGaggcacatcctgccccactt	5	16	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:32280096G>A	uc001bts.1	-	2	897	c.839C>T	c.(838-840)TCA>TTA	p.S280L	SPOCD1_uc001btu.2_Missense_Mutation_p.S280L|SPOCD1_uc001btv.2_Intron	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	280					transcription, DNA-dependent					ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)		CTCAGTCCCTGAGGCACATCC	0.637													25	85	---	---	---	---	PASS	A	32280096	A	A	32280096	3	1	71	1	0	0	0	0	1	0	0	0	15077	1294	45	2	2871	2	SPOCD1	1	32280096	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	5922136	32280096	216970525	4	27438										
CYP4B1	1580	broad.mit.edu	37	chr1	47278168	47278168	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ctctcccatcccttccccagGgagaggcctgctggttcttg	10	16	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:47278168G>A	uc001cqm.3	+	4	452	c.368G>A	c.(367-369)GGG>GAG	p.G123E	CYP4B1_uc009vyl.1_5'UTR|CYP4B1_uc001cqn.3_Missense_Mutation_p.G123E|CYP4B1_uc009vym.2_Missense_Mutation_p.G108E|CYP4B1_uc010omk.1_5'UTR|CYP4B1_uc010oml.1_5'UTR	NM_000779	NP_000770	P13584	CP4B1_HUMAN	cytochrome P450, family 4, subfamily B,	123					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					CCTTCCCCAGGGAGAGGCCTG	0.612													26	18	---	---	---	---	PASS	A	47278168	A	A	47278168	3	1	71	1	0	0	0	0	1	0	0	0	4185	1246	43	3	382	3	CYP4B1	1	47278168	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	14998072	47278168	201972453	5	27439										
USP24	23358	broad.mit.edu	37	chr1	55551676	55551676	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gaatggtggccacagcaactCgtacttctctcacattgcac	8	13	2	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:55551676C>T	uc001cyg.3	-	53	6224	c.6224G>A	c.(6223-6225)CGA>CAA	p.R2075Q		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	2235					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						CACAGCAACTCGTACTTCTCT	0.408													51	40	---	---	---	---	PASS	T	55551676	T	T	55551676	3	4	71	1	0	0	0	0	1	0	0	0	17052	884	31	2	1210	2	USP24	1	55551676	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	8273508	55551676	193698945	6	27440										
USP24	23358	broad.mit.edu	37	chr1	55603512	55603512	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gtaaatatctgtatattatcCacaggagagcacaactgctt	7	8	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:55603512C>A	uc001cyg.3	-	24	2514	c.2514G>T	c.(2512-2514)GTG>GTT	p.V838V		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	998					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						GTATATTATCCACAGGAGAGC	0.318													4	17	---	---	---	---	PASS	A	55603512	A	A	55603512	2	1	71	1	0	0	0	0	0	0	0	1	17052	581	21	3		3	USP24	1	55603512	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	51836	55603512	193647109	7	27441										
ITGB3BP	23421	broad.mit.edu	37	chr1	63919644	63919644	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ttttgtttattcacttttgtCactaaaagaagtaaaaatcc	4	6	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:63919644C>T	uc001dba.1	-	7	460	c.429G>A	c.(427-429)ATG>ATA	p.M143I	ITGB3BP_uc001dbb.1_Missense_Mutation_p.M182I|ITGB3BP_uc001dbc.1_RNA|ITGB3BP_uc001dbd.1_RNA|ITGB3BP_uc009wak.1_Missense_Mutation_p.M165I|ITGB3BP_uc001dbe.1_Missense_Mutation_p.M56I	NM_014288	NP_055103	Q13352	CENPR_HUMAN	integrin beta 3 binding protein	143					apoptosis|cell adhesion|CenH3-containing nucleosome assembly at centromere|induction of apoptosis by extracellular signals|mitotic prometaphase|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome, centromeric region|cytosol|membrane fraction|nucleoplasm	protein C-terminus binding|signal transducer activity				0						TCACTTTTGTCACTAAAAGAA	0.279													26	37	---	---	---	---	PASS	T	63919644	T	T	63919644	3	4	71	1	0	0	0	0	1	0	0	0	7896	840	29	2	112	2	ITGB3BP	1	63919644	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	8316132	63919644	185330977	8	27442										
LRRC8B	23507	broad.mit.edu	37	chr1	90049602	90049602	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cagtctcacagctggtcaacCtcaaggagcttcgtgtgtac	10	12	3	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:90049602C>T	uc001dni.2	+	7	1900	c.1393C>T	c.(1393-1395)CTC>TTC	p.L465F	LRRC8B_uc001dnh.2_Missense_Mutation_p.L465F|LRRC8B_uc001dnj.2_Missense_Mutation_p.L465F	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	465	LRR 1.					integral to membrane		p.L465V(1)		ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		GCTGGTCAACCTCAAGGAGCT	0.473													48	48	---	---	---	---	PASS	T	90049602	T	T	90049602	3	4	71	1	0	0	0	0	1	0	0	0	9022	681	24	3	1395	3	LRRC8B	1	90049602	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	26129958	90049602	159201019	9	27443										
LPPR4	9890	broad.mit.edu	37	chr1	99753705	99753705	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ttttgctggacctgcaattaCggtaagaattacccccaaaa	7	10	0	1	rs145727766		TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:99753705C>G	uc001dse.2	+	2	513	c.407C>G	c.(406-408)ACG>AGG	p.T136R	LPPR4_uc010oue.1_Missense_Mutation_p.T136R	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	136	Helical; (Potential).						phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		CCTGCAATTACGGTAAGAATT	0.413													47	73	---	---	---	---	PASS	G	99753705	G	G	99753705	3	3	71	1	0	0	0	0	1	0	0	0	8927	550	19	4	413	4	LPPR4	1	99753705	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	9704103	99753705	149496916	10	27444										
KCNA10	3744	broad.mit.edu	37	chr1	111059902	111059902	+	Missense_Mutation	SNP	C	A	A													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tagacttctctgtggaacagCcaccattggtcttattaaga							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:111059902C>A	uc001dzt.1	-	1	1896	c.1508G>T	c.(1507-1509)GGC>GTC	p.G503V		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	503						voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		TGTGGAACAGCCACCATTGGT	0.358													26	85	---	---	---	---	PASS	A	111059902	A	A	111059902	3	1	71	1	0	0	0	0	1	0	0	0	8002	739	26	3	31	3	KCNA10	1	111059902	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	11306197	111059902	138190719	11	27445	572	2								
KCNA10	3744	broad.mit.edu	37	chr1	111059903	111059903	+	Missense_Mutation	SNP	C	T	T													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agacttctctgtggaacagcCaccattggtcttattaagag							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:111059903C>T	uc001dzt.1	-	1	1895	c.1507G>A	c.(1507-1509)GGC>AGC	p.G503S		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	503						voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		GTGGAACAGCCACCATTGGTC	0.363													26	85	---	---	---	---	PASS	T	111059903	T	T	111059903	3	4	71	1	0	0	0	0	1	0	0	0	8002	594	21	3	32	3	KCNA10	1	111059903	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	1	111059903	138190718	12	27446	572	2								
SELENBP1	8991	broad.mit.edu	37	chr1	151337064	151337064	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tcgcccccagggtagcggagCtcatgggcaagggctgggcc	17	13	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:151337064C>T	uc001exx.2	-	12	1421	c.1374G>A	c.(1372-1374)GAG>GAA	p.E458E	SELENBP1_uc010pcy.1_Silent_p.E500E|SELENBP1_uc001exy.2_Silent_p.E355E|SELENBP1_uc001exz.2_Silent_p.E355E|SELENBP1_uc010pcz.1_Silent_p.E396E|SELENBP1_uc009wms.2_Silent_p.E294E|SELENBP1_uc009wmt.2_Silent_p.E355E|SELENBP1_uc001eya.2_Silent_p.E394E|SELENBP1_uc009wmu.2_3'UTR	NM_003944	NP_003935	Q13228	SBP1_HUMAN	selenium binding protein 1	458					protein transport	cytosol|membrane|nucleolus	protein binding|selenium binding				0	Lung SC(34;0.00471)|Ovarian(49;0.00871)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GGTAGCGGAGCTCATGGGCAA	0.567													9	454	---	---	---	---	PASS	T	151337064	T	T	151337064	2	4	71	1	0	0	0	0	0	0	0	1	14014	796	28	3		3	SELENBP1	1	151337064	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	40277161	151337064	97913557	13	27447										
SHC1	6464	broad.mit.edu	37	chr1	154938440	154938440	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	actcatgtcaaacaggtcccGgggtgcactgccattgatag	11	11	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:154938440G>A	uc001ffv.2	-	10	1587	c.1366C>T	c.(1366-1368)CGG>TGG	p.R456W	SHC1_uc001ffu.2_5'Flank|SHC1_uc001ffz.1_Missense_Mutation_p.R227W|SHC1_uc001ffw.2_Missense_Mutation_p.R457W|SHC1_uc001ffx.2_Missense_Mutation_p.R347W|SHC1_uc001ffy.2_Missense_Mutation_p.R346W	NM_183001	NP_892113	P29353	SHC1_HUMAN	SHC-transforming protein 1 isoform 1	456	Pro-rich.|CH1.				activation of MAPK activity|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|positive regulation of DNA replication|Ras protein signal transduction|regulation of epidermal growth factor receptor activity|regulation of growth	cytosol|mitochondrial matrix|Shc-EGFR complex	epidermal growth factor receptor binding|insulin receptor binding|insulin-like growth factor receptor binding|phospholipid binding|protein binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(1)|skin(1)	2	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			AACAGGTCCCGGGGTGCACTG	0.562													10	330	---	---	---	---	PASS	A	154938440	A	A	154938440	3	1	71	1	0	0	0	0	1	0	0	0	14270	1115	39	1	397	1	SHC1	1	154938440	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	3601376	154938440	94312181	14	27448										
CD1A	909	broad.mit.edu	37	chr1	158225133	158225133	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agatacgcccatgaattgcaGtttgaatgtgagttcagttt	10	6	1	4			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:158225133G>A	uc001frt.2	+	2	851	c.318G>A	c.(316-318)CAG>CAA	p.Q106Q		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	106	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	ATGAATTGCAGTTTGAATGTG	0.443													22	44	---	---	---	---	PASS	A	158225133	A	A	158225133	2	1	71	1	0	0	0	0	0	0	0	1	2974	1020	36	3		3	CD1A	1	158225133	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	3286693	158225133	91025488	15	27449										
CD1E	913	broad.mit.edu	37	chr1	158326608	158326608	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	accaagaattcaagacatcaGttctgcttggcacaagtatc	7	10	3	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:158326608G>C	uc001fse.2	+	6	1328	c.1089G>C	c.(1087-1089)CAG>CAC	p.Q363H	CD1E_uc001fsd.2_3'UTR|CD1E_uc001fsk.2_Missense_Mutation_p.Q273H|CD1E_uc001fsj.2_Missense_Mutation_p.Q206H|CD1E_uc001fsc.2_Missense_Mutation_p.Q174H|CD1E_uc010pig.1_RNA|CD1E_uc001fsa.2_Missense_Mutation_p.Q119H|CD1E_uc001fsf.2_Missense_Mutation_p.Q351H|CD1E_uc001fry.2_Missense_Mutation_p.Q296H|CD1E_uc001fsg.2_3'UTR|CD1E_uc001fsh.2_Missense_Mutation_p.Q162H|CD1E_uc001fsi.2_3'UTR|CD1E_uc009wsv.2_Missense_Mutation_p.Q264H|CD1E_uc001frz.2_Missense_Mutation_p.Q261H|CD1E_uc009wsw.2_Missense_Mutation_p.S78T	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	363					antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					CAAGACATCAGTTCTGCTTGG	0.433													26	108	---	---	---	---	PASS	C	158326608	C	C	158326608	3	2	71	1	0	0	0	0	1	0	0	0	2978	1020	36	4	1111	4	CD1E	1	158326608	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	101475	158326608	90924013	16	27450										
SPTA1	6708	broad.mit.edu	37	chr1	158650403	158650403	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tcattggcatattggttcacTtcaacaactctcccttcttt	4	12	5	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:158650403T>G	uc001fst.1	-	5	847	c.648A>C	c.(646-648)GAA>GAC	p.E216D		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	216	Spectrin 3.				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)					ATTGGTTCACTTCAACAACTC	0.463													86	70	---	---	---	---	PASS	G	158650403	G	G	158650403	3	3	71	1	0	0	0	0	1	0	0	0	15115	1606	56	5	6803	5	SPTA1	1	158650403	Missense_Mutation	SNP	T	TCGA-34-5240-01A-01D-1441-08	323795	158650403	90600218	17	27451										
SPTA1	6708	broad.mit.edu	37	chr1	158650429	158650429	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aactctcccttctttagctaCcagctccacttggaagtctt	5	14	3	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:158650429C>A	uc001fst.1	-	5	821	c.622G>T	c.(622-624)GTA>TTA	p.V208L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	208	Spectrin 3.				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)					TCTTTAGCTACCAGCTCCACT	0.478													32	130	---	---	---	---	PASS	A	158650429	A	A	158650429	3	1	71	1	0	0	0	0	1	0	0	0	15115	507	18	3	6829	3	SPTA1	1	158650429	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	26	158650429	90600192	18	27452										
OR6K3	391114	broad.mit.edu	37	chr1	158686969	158686969	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggctctgtattaacctccagGcttgttcaacactttttgaa	7	10	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:158686969G>T	uc010pip.1	-	1	985	c.985C>A	c.(985-987)CCT>ACT	p.P329T		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	329	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					TAACCTCCAGGCTTGTTCAAC	0.289													6	176	---	---	---	---	PASS	T	158686969	T	T	158686969	3	4	71	1	0	0	0	0	1	0	0	0	11203	1203	42	3	12	3	OR6K3	1	158686969	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	36540	158686969	90563652	19	27453										
F5	2153	broad.mit.edu	37	chr1	169492482	169492482	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gaagatctgccagttgatctGgttggaactgtaagctacat	11	7	2	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:169492482G>T	uc001ggg.1	-	21	6146	c.6001C>A	c.(6001-6003)CAG>AAG	p.Q2001K		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	2001	F5/8 type C 1.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	CAGTTGATCTGGTTGGAACTG	0.438													42	111	---	---	---	---	PASS	T	169492482	T	T	169492482	3	4	71	1	0	0	0	0	1	0	0	0	5348	1357	47	3	693	3	F5	1	169492482	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	10805513	169492482	79758139	20	27454										
EDEM3	80267	broad.mit.edu	37	chr1	184718701	184718701	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	catatagttaccataagcatGatcaaacatttccagtactt	4	9	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:184718701G>T	uc010pok.1	-	2	445	c.184C>A	c.(184-186)CAT>AAT	p.H62N	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.H62N|EDEM3_uc001gqy.2_Intron	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	62					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						CCATAAGCATGATCAAACATT	0.284													3	28	---	---	---	---	PASS	T	184718701	T	T	184718701	3	4	71	1	0	0	0	0	1	0	0	0	4913	1290	45	2	2690	2	EDEM3	1	184718701	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	15226219	184718701	64531920	21	27455										
FAM129A	116496	broad.mit.edu	37	chr1	184764870	184764870	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tctgatgagcatgtgcccggGagtcctgctgtgtcctctgt	13	11	2	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:184764870G>A	uc001gra.2	-	14	2222	c.2028C>T	c.(2026-2028)CTC>CTT	p.L676L	FAM129A_uc001grb.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	676					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						ATGTGCCCGGGAGTCCTGCTG	0.577													24	65	---	---	---	---	PASS	A	184764870	A	A	184764870	2	1	71	1	0	0	0	0	0	0	0	1	5436	1161	41	2		2	FAM129A	1	184764870	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	46169	184764870	64485751	22	27456										
F13B	2165	broad.mit.edu	37	chr1	197009796	197009796	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	caccatgcaaaatgtgtggtCtattgtcaaaatcccatttc	6	10	2	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:197009796C>T	uc001gtt.1	-	11	1852	c.1808G>A	c.(1807-1809)AGA>AAA	p.R603K		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	603	Sushi 10.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						AATGTGTGGTCTATTGTCAAA	0.299													10	55	---	---	---	---	PASS	T	197009796	T	T	197009796	3	4	71	1	0	0	0	0	1	0	0	0	5341	913	32	2	185	2	F13B	1	197009796	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	12244926	197009796	52240825	23	27457										
USH2A	7399	broad.mit.edu	37	chr1	216591901	216591901	+	Silent	SNP	T	G	G													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ttcacaagaattctccccagTgtcattacttttattggagg							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:216591901T>G	uc001hku.1	-	3	993	c.606A>C	c.(604-606)ACA>ACC	p.T202T	USH2A_uc001hkv.2_Silent_p.T202T	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	202	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTCTCCCCAGTGTCATTACTT	0.338										HNSCC(13;0.011)			59	87	---	---	---	---	PASS	G	216591901	G	G	216591901	2	3	71	1	0	0	0	0	0	0	0	1	17033	1683	59	5		5	USH2A	1	216591901	Silent	SNP	T	TCGA-34-5240-01A-01D-1441-08	19582105	216591901	32658720	24	27458	573	2								
USH2A	7399	broad.mit.edu	37	chr1	216591902	216591902	+	Missense_Mutation	SNP	G	T	T													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tcacaagaattctccccagtGtcattacttttattggaggt							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:216591902G>T	uc001hku.1	-	3	992	c.605C>A	c.(604-606)ACA>AAA	p.T202K	USH2A_uc001hkv.2_Missense_Mutation_p.T202K	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	202	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TCTCCCCAGTGTCATTACTTT	0.343										HNSCC(13;0.011)			59	86	---	---	---	---	PASS	T	216591902	T	T	216591902	3	4	71	1	0	0	0	0	1	0	0	0	17033	1377	48	3	15297	3	USH2A	1	216591902	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	1	216591902	32658719	25	27459	573	2								
ACTN2	88	broad.mit.edu	37	chr1	236925903	236925903	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gttctcttccgcactctacgGggagagcgatctgtgatgct	12	11	3	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:236925903G>T	uc001hyf.2	+	21	2873	c.2669G>T	c.(2668-2670)GGG>GTG	p.G890V	ACTN2_uc001hyg.2_Missense_Mutation_p.G682V|ACTN2_uc009xgi.1_Missense_Mutation_p.G890V|ACTN2_uc010pxu.1_Missense_Mutation_p.G579V|ACTN2_uc001hyh.2_Missense_Mutation_p.G578V	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	890					focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GCACTCTACGGGGAGAGCGAT	0.527													43	37	---	---	---	---	PASS	T	236925903	T	T	236925903	3	4	71	1	0	0	0	0	1	0	0	0	205	1232	43	3	2751	3	ACTN2	1	236925903	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	20334001	236925903	12324718	26	27460										
OR14A16	284532	broad.mit.edu	37	chr1	247978180	247978180	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tttctcaaactgtatataatGggattaaaggttgggggcag	12	4	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr1:247978180G>C	uc001idm.1	-	1	852	c.852C>G	c.(850-852)CCC>CCG	p.P284P		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGTATATAATGGGATTAAAGG	0.408													43	52	---	---	---	---	PASS	C	247978180	C	C	247978180	2	2	71	1	0	0	0	0	0	0	0	1	10945	1335	47	4		4	OR14A16	1	247978180	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	11052277	247978180	1272441	27	27461										
BIRC6	57448	broad.mit.edu	37	chr2	32738147	32738147	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tctcatttgcactgtgtagcAgccattctgtggcatagtta	9	9	2	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:32738147A>G	uc010ezu.2	+	54	10628	c.10494A>G	c.(10492-10494)GCA>GCG	p.A3498A		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3498					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)					ACTGTGTAGCAGCCATTCTGT	0.423													30	79	---	---	---	---	PASS	G	32738147	G	G	32738147	2	3	71	1	0	0	0	0	0	0	0	1	1438	175	7	5		5	BIRC6	2	32738147	Silent	SNP	A	TCGA-34-5240-01A-01D-1441-08		32738147	210461226	28	27462										
FSHR	2492	broad.mit.edu	37	chr2	49190942	49190942	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gcaggtcacgtcaaccacttCattgcataagtcatagtcaa	7	11	5	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:49190942C>T	uc002rww.2	-	10	1092	c.1018G>A	c.(1018-1020)GAA>AAA	p.E340K	FSHR_uc002rwx.2_Missense_Mutation_p.E278K|FSHR_uc010fbn.2_Missense_Mutation_p.E314K	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	340	Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	TCAACCACTTCATTGCATAAG	0.473									Gonadal_Dysgenesis_46_XX				59	159	---	---	---	---	PASS	T	49190942	T	T	49190942	3	4	71	1	0	0	0	0	1	0	0	0	6073	835	29	2	1073	2	FSHR	2	49190942	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	16452795	49190942	194008431	29	27463										
LRRTM4	80059	broad.mit.edu	37	chr2	77745749	77745749	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aaatgaaacatgctcatactCttgctctgcgccaggaatct	7	11	4	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:77745749C>A	uc002snr.2	-	3	1661	c.1246G>T	c.(1246-1248)GAG>TAG	p.E416*	LRRTM4_uc002snq.2_Nonsense_Mutation_p.E416*|LRRTM4_uc002sns.2_Nonsense_Mutation_p.E416*|LRRTM4_uc002snt.2_Nonsense_Mutation_p.E417*	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	416	Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TGCTCATACTCTTGCTCTGCG	0.478													22	79	---	---	---	---	PASS	A	77745749	A	A	77745749	4	1	71	1	0	0	0	0	0	1	0	0	9042	922	32	2	540	2	LRRTM4	2	77745749	Nonsense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	28554807	77745749	165453624	30	27464										
STEAP3	55240	broad.mit.edu	37	chr2	120012355	120012355	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ctggccctcggcacgttgtcCctgctggccgtgacctcact	11	17	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:120012355C>T	uc002tlp.2	+	5	1273	c.1116C>T	c.(1114-1116)TCC>TCT	p.S372S	STEAP3_uc002tlq.2_Silent_p.S382S|STEAP3_uc002tlr.2_Silent_p.S372S|STEAP3_uc010fle.2_Silent_p.S372S	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	372	Ferric oxidoreductase.|Helical; (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						GCACGTTGTCCCTGCTGGCCG	0.592													38	35	---	---	---	---	PASS	T	120012355	T	T	120012355	2	4	71	1	0	0	0	0	0	0	0	1	15278	610	22	3		3	STEAP3	2	120012355	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	42266606	120012355	123187018	31	27465										
LCT	3938	broad.mit.edu	37	chr2	136570431	136570431	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggttctgcccagtctgagttCagcacaatgcccacgtgccc	10	15	3	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:136570431C>T	uc002tuu.1	-	7	1814	c.1803G>A	c.(1801-1803)CTG>CTA	p.L601L		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	601	Extracellular (Potential).|4 X approximate repeats.|2.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		AGTCTGAGTTCAGCACAATGC	0.592													15	60	---	---	---	---	PASS	T	136570431	T	T	136570431	2	4	71	1	0	0	0	0	0	0	0	1	8693	813	29	2		2	LCT	2	136570431	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	16558076	136570431	106628942	32	27466										
CHRNA1	1134	broad.mit.edu	37	chr2	175619132	175619132	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gaacttgacaatagcaaagtCaccatctgcactacaattgg	7	10	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:175619132C>T	uc002ujd.2	-	6	508	c.430G>A	c.(430-432)GAC>AAC	p.D144N	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Missense_Mutation_p.D119N|CHRNA1_uc002ujf.3_Missense_Mutation_p.D119N	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	144	Extracellular.				muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						ATAGCAAAGTCACCATCTGCA	0.463													34	31	---	---	---	---	PASS	T	175619132	T	T	175619132	3	4	71	1	0	0	0	0	1	0	0	0	3381	826	29	2	1038	2	CHRNA1	2	175619132	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	39048701	175619132	67580241	33	27467										
NFE2L2	4780	broad.mit.edu	37	chr2	178098960	178098960	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ttctcgacttactccaagatCtatatcttgcctccaaagta	4	12	3	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:178098960C>G	uc002ulh.3	-	2	640	c.85G>C	c.(85-87)GAT>CAT	p.D29H	NFE2L2_uc002ulg.3_Missense_Mutation_p.D13H|NFE2L2_uc010zfa.1_Missense_Mutation_p.D13H|NFE2L2_uc002uli.3_Missense_Mutation_p.D13H|NFE2L2_uc010fra.2_Missense_Mutation_p.D13H|NFE2L2_uc010frb.2_Missense_Mutation_p.D13H	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	29					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			ACTCCAAGATCTATATCTTGC	0.363			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			40	34	---	---	---	---	PASS	G	178098960	G	G	178098960	3	3	71	1	0	0	0	0	1	0	0	0	10368	913	32	2	1748	2	NFE2L2	2	178098960	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	2479828	178098960	65100413	34	27468										
TTN	7273	broad.mit.edu	37	chr2	179498792	179498792	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tttgatcttcaagaggtgacAtgaatttcagtcttatacct	7	7	4	4			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:179498792A>T	uc010zfg.1	-	180	34954	c.34730T>A	c.(34729-34731)ATG>AAG	p.M11577K	TTN_uc010zfh.1_Missense_Mutation_p.M5272K|TTN_uc010zfi.1_Missense_Mutation_p.M5205K|TTN_uc010zfj.1_Missense_Mutation_p.M5080K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12504							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)			AAGAGGTGACATGAATTTCAG	0.353													21	92	---	---	---	---	PASS	T	179498792	T	T	179498792	3	4	71	1	0	0	0	0	1	0	0	0	16732	217	8	5	65787	5	TTN	2	179498792	Missense_Mutation	SNP	A	TCGA-34-5240-01A-01D-1441-08	1399832	179498792	63700581	35	27469										
TTN	7273	broad.mit.edu	37	chr2	179501193	179501193	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gtaaaacacaggtgtattcaCcagcatcggaaagttgaaca	9	8	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:179501193C>T	uc010zfg.1	-	174	33781	c.33557G>A	c.(33556-33558)GGT>GAT	p.G11186D	TTN_uc010zfh.1_Missense_Mutation_p.G4881D|TTN_uc010zfi.1_Missense_Mutation_p.G4814D|TTN_uc010zfj.1_Missense_Mutation_p.G4689D|TTN_uc010fre.1_Missense_Mutation_p.G1047D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12113							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)			GGTGTATTCACCAGCATCGGA	0.398													18	64	---	---	---	---	PASS	T	179501193	T	T	179501193	3	4	71	1	0	0	0	0	1	0	0	0	16732	507	18	3	66984	3	TTN	2	179501193	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	2401	179501193	63698180	36	27470										
TTN	7273	broad.mit.edu	37	chr2	179526556	179526556	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ttttcaaggacaacttctttGggagcctctggcacttaaaa	8	9	3	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:179526556G>C	uc010zfk.1	-	23	2039	c.1491C>G	c.(1489-1491)CCC>CCG	p.P497P	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	11734							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)			CAACTTCTTTGGGAGCCTCTG	0.413													29	36	---	---	---	---	PASS	C	179526556	C	C	179526556	2	2	71	1	0	0	0	0	0	0	0	1	16732	1363	47	4		4	TTN	2	179526556	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	25363	179526556	63672817	37	27471										
SATB2	23314	broad.mit.edu	37	chr2	200193544	200193544	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tccacttctggcagattgagGaaattctgcatggccctcag	10	11	3	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:200193544G>A	uc002uuy.1	-	8	2080	c.1263C>T	c.(1261-1263)TTC>TTT	p.F421F	SATB2_uc010fsq.1_Silent_p.F303F|SATB2_uc002uuz.1_Silent_p.F421F|SATB2_uc002uva.1_Silent_p.F421F	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	421	CUT 1.					cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCAGATTGAGGAAATTCTGCA	0.517													16	70	---	---	---	---	PASS	A	200193544	A	A	200193544	2	1	71	1	0	0	0	0	0	0	0	1	13854	1165	41	2		2	SATB2	2	200193544	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	20666988	200193544	43005829	38	27472										
TRAK2	66008	broad.mit.edu	37	chr2	202254569	202254569	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	catccaaactcagctttttaCgcatagtcccctcaatctca	3	15	3	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:202254569C>A	uc002uyb.3	-	11	1594	c.1148G>T	c.(1147-1149)CGT>CTT	p.R383L		NM_015049	NP_055864	O60296	TRAK2_HUMAN	trafficking protein, kinesin binding 2	383	Interaction with HGS (By similarity).			Missing (in Ref. 2).		early endosome|plasma membrane	GABA receptor binding				0						CAGCTTTTTACGCATAGTCCC	0.348													44	187	---	---	---	---	PASS	A	202254569	A	A	202254569	3	1	71	1	0	0	0	0	1	0	0	0	16447	536	19	1	1620	1	TRAK2	2	202254569	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	2061025	202254569	40944804	39	27473										
INO80D	54891	broad.mit.edu	37	chr2	206869731	206869731	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tgtgagtgatcactgctgtaTtgctgtcgtgaggtgattag	14	5	1	4			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:206869731T>C	uc002vaz.3	-	11	2850	c.2445A>G	c.(2443-2445)CAA>CAG	p.Q815Q		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	815					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						CACTGCTGTATTGCTGTCGTG	0.537													66	261	---	---	---	---	PASS	C	206869731	C	C	206869731	2	2	71	1	0	0	0	0	0	0	0	1	7749	1490	52	5		5	INO80D	2	206869731	Silent	SNP	T	TCGA-34-5240-01A-01D-1441-08	4615162	206869731	36329642	40	27474										
ZDBF2	57683	broad.mit.edu	37	chr2	207172252	207172252	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gaattcagtggttcaaaaacAagtttagattctggtgtccc	9	7	3	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:207172252A>C	uc002vbp.2	+	5	3250	c.3000A>C	c.(2998-3000)ACA>ACC	p.T1000T		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1000							nucleic acid binding|zinc ion binding			ovary(3)	3						GTTCAAAAACAAGTTTAGATT	0.358													21	80	---	---	---	---	PASS	C	207172252	C	C	207172252	2	2	71	1	0	0	0	0	0	0	0	1	17596	117	5	5		5	ZDBF2	2	207172252	Silent	SNP	A	TCGA-34-5240-01A-01D-1441-08	302521	207172252	36027121	41	27475										
UGT1A5	54579	broad.mit.edu	37	chr2	234622111	234622111	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gacccctttcacctctgcgcGgcggtgctggctaagtacct	11	15	2	0	rs147117995	byFrequency	TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr2:234622111G>A	uc002vuw.2	+	1	474	c.474G>A	c.(472-474)GCG>GCA	p.A158A	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Silent_p.A158A	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	158					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		ACCTCTGCGCGGCGGTGCTGG	0.493													4	225	---	---	---	---	PASS	A	234622111	A	A	234622111	2	1	71	1	0	0	0	0	0	0	0	1	16945	1103	39	1		1	UGT1A5	2	234622111	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	27449859	234622111	8577262	42	27476										
CNTN3	5067	broad.mit.edu	37	chr3	74385786	74385786	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tcacattggctattttgagtCctccatcgtttaacaaagaa	6	9	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr3:74385786C>G	uc003dpm.1	-	11	1468	c.1388G>C	c.(1387-1389)GGA>GCA	p.G463A		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	463	Ig-like C2-type 5.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		TATTTTGAGTCCTCCATCGTT	0.323													20	40	---	---	---	---	PASS	G	74385786	G	G	74385786	3	3	71	1	0	0	0	0	1	0	0	0	3642	855	30	2	1746	2	CNTN3	3	74385786	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08		74385786	123636644	43	27477										
PROS1	5627	broad.mit.edu	37	chr3	93624922	93624922	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agtgcaagtaaaagaagcttTtccatctttgcagctcatat	7	8	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr3:93624922T>C	uc003drb.3	-	5	753	c.412A>G	c.(412-414)AAA>GAA	p.K138E	PROS1_uc010hoo.2_Missense_Mutation_p.K7E|PROS1_uc003dqz.3_Missense_Mutation_p.K7E	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	138	EGF-like 1.				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	AAAGAAGCTTTTCCATCTTTG	0.418													51	369	---	---	---	---	PASS	C	93624922	C	C	93624922	3	2	71	1	0	0	0	0	1	0	0	0	12558	1850	64	5	1662	5	PROS1	3	93624922	Missense_Mutation	SNP	T	TCGA-34-5240-01A-01D-1441-08	19239136	93624922	104397508	44	27478										
PLA1A	51365	broad.mit.edu	37	chr3	119347676	119347676	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agaccggactaccattattgGgaagttctgcactgcccttt	9	11	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr3:119347676G>A	uc003ecu.2	+	10	1289	c.1250G>A	c.(1249-1251)GGG>GAG	p.G417E	PLA1A_uc003ecv.2_Missense_Mutation_p.G401E|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_Missense_Mutation_p.G244E	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	417	Involved in the recognition of diacyl- phospholipids.				lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						ACCATTATTGGGAAGTTCTGC	0.463													31	226	---	---	---	---	PASS	A	119347676	A	A	119347676	3	1	71	1	0	0	0	0	1	0	0	0	11988	1232	43	3	1288	3	PLA1A	3	119347676	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	25722754	119347676	78674754	45	27479										
TMCC1	23023	broad.mit.edu	37	chr3	129547121	129547121	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cattgtgggtcattttagacAatttttgttctgattctgtc	8	6	3	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr3:129547121A>G	uc003emz.3	-	4	602	c.101T>C	c.(100-102)TTG>TCG	p.L34S	TMCC1_uc010htg.2_Intron	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	34						integral to membrane				skin(1)	1						CATTTTAGACAATTTTTGTTC	0.483													70	294	---	---	---	---	PASS	G	129547121	G	G	129547121	3	3	71	1	0	0	0	0	1	0	0	0	15989	131	5	5	1876	5	TMCC1	3	129547121	Missense_Mutation	SNP	A	TCGA-34-5240-01A-01D-1441-08	10199445	129547121	68475309	46	27480										
EPHB1	2047	broad.mit.edu	37	chr3	134670776	134670776	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggcacatgcatccccaacgcAgaggaagtggacgtgcccat	12	13	0	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr3:134670776A>G	uc003eqt.2	+	3	907	c.687A>G	c.(685-687)GCA>GCG	p.A229A	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_Intron	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	229	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						TCCCCAACGCAGAGGAAGTGG	0.547													393	218	---	---	---	---	PASS	G	134670776	G	G	134670776	2	3	71	1	0	0	0	0	0	0	0	1	5174	175	7	5		5	EPHB1	3	134670776	Silent	SNP	A	TCGA-34-5240-01A-01D-1441-08	5123655	134670776	63351654	47	27481										
IL20RB	53833	broad.mit.edu	37	chr3	136710897	136710897	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aggccattgggaggtacagcGccttcagccagacagaatgt	13	10	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr3:136710897G>A	uc003eri.1	+	5	898	c.649G>A	c.(649-651)GCC>ACC	p.A217T	IL20RB_uc003erj.1_Intron|IL20RB_uc010hud.1_Missense_Mutation_p.A75T	NM_144717	NP_653318	Q6UXL0	I20RB_HUMAN	interleukin 20 receptor beta precursor	217	Extracellular (Potential).|Fibronectin type-III 2.					integral to membrane	receptor activity			ovary(1)	1						GAGGTACAGCGCCTTCAGCCA	0.572													29	166	---	---	---	---	PASS	A	136710897	A	A	136710897	3	1	71	1	0	0	0	0	1	0	0	0	7669	1087	38	1	667	1	IL20RB	3	136710897	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	2040121	136710897	61311533	48	27482										
MRAS	22808	broad.mit.edu	37	chr3	138117349	138117349	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cctcgtggccaacaaggtcgAtttgatgcacttgaggaaga	12	9	0	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr3:138117349A>G	uc003esh.3	+	4	947	c.386A>G	c.(385-387)GAT>GGT	p.D129G	MRAS_uc011bmi.1_Missense_Mutation_p.D53G|MRAS_uc003esi.3_Missense_Mutation_p.D129G|MRAS_uc011bmj.1_Missense_Mutation_p.D53G	NM_012219	NP_036351	O14807	RASM_HUMAN	muscle RAS oncogene homolog precursor	129	GTP (By similarity).				actin cytoskeleton organization|muscle organ development|Ras protein signal transduction	intracellular|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity			lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						AACAAGGTCGATTTGATGCAC	0.512													5	235	---	---	---	---	PASS	G	138117349	G	G	138117349	3	3	71	1	0	0	0	0	1	0	0	0	9755	333	12	5	396	5	MRAS	3	138117349	Missense_Mutation	SNP	A	TCGA-34-5240-01A-01D-1441-08	1406452	138117349	59905081	49	27483										
MME	4311	broad.mit.edu	37	chr3	154834694	154834694	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gaaaaagctattgcacaactGaattctaaatatgggaaaaa	7	5	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr3:154834694G>A	uc010hvr.1	+	7	784	c.573G>A	c.(571-573)CTG>CTA	p.L191L	MME_uc003fab.1_Silent_p.L191L|MME_uc003fac.1_Silent_p.L191L|MME_uc003fad.1_Silent_p.L191L|MME_uc003fae.1_Silent_p.L191L	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	191	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	TTGCACAACTGAATTCTAAAT	0.289													159	89	---	---	---	---	PASS	A	154834694	A	A	154834694	2	1	71	1	0	0	0	0	0	0	0	1	9645	1277	45	2		2	MME	3	154834694	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	16717345	154834694	43187736	50	27484										
OTOL1	131149	broad.mit.edu	37	chr3	161221119	161221119	+	Frame_Shift_Del	DEL	G	-	-													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aaggagacagtggaatggaaGgcaaaagcggccgtaatggt							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr3:161221119delG	uc011bpb.1	+	4	823	c.823delG	c.(823-825)GGCfs	p.G275fs		NM_001080440	NP_001073909	A6NHN0	OTOL1_HUMAN	otolin-1 precursor	275						collagen					0						TGGAATGGAAGGCAAAAGCGG	0.527													20	20	---	---	---	---		-	161221119	-	-	161221119	7	5	71	1	0	1	0	1	0	0	0	0	11304	1000	35	0	837	0	OTOL1	3	161221119	Frame_Shift_Del	DEL	G	TCGA-34-5240-01A-01D-1441-08	6386425	161221119	36801311	51	27485										
RTP1	132112	broad.mit.edu	37	chr3	186917714	186917714	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gaggaggcgaccacctacacCttctcccgggcgcccagccc	11	19	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr3:186917714C>T	uc003frg.2	+	2	678	c.648C>T	c.(646-648)ACC>ACT	p.T216T		NM_153708	NP_714919	P59025	RTP1_HUMAN	receptor transporting protein 1	216	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding			ovary(2)|breast(1)	3	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		CCACCTACACCTTCTCCCGGG	0.667													4	209	---	---	---	---	PASS	T	186917714	T	T	186917714	2	4	71	1	0	0	0	0	0	0	0	1	13733	668	24	3		3	RTP1	3	186917714	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	25696595	186917714	11104716	52	27486										
LEPREL1	55214	broad.mit.edu	37	chr3	189692442	189692442	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cagctgctccgagttgtagaCgaatgtgatgttctcataga	11	8	1	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr3:189692442C>T	uc011bsk.1	-	9	1745	c.1357G>A	c.(1357-1359)GTC>ATC	p.V453I	LEPREL1_uc003fsg.2_Missense_Mutation_p.V272I	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	453					collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GAGTTGTAGACGAATGTGATG	0.537													18	216	---	---	---	---	PASS	T	189692442	T	T	189692442	3	4	71	1	0	0	0	0	1	0	0	0	8730	536	19	1	797	1	LEPREL1	3	189692442	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	2774728	189692442	8329988	53	27487										
SENP5	205564	broad.mit.edu	37	chr3	196613165	196613165	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aagtgggagtgtacagagctGattcatgacatccccttacc	10	10	1	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr3:196613165G>A	uc003fwz.3	+	2	1362	c.1113G>A	c.(1111-1113)CTG>CTA	p.L371L	SENP5_uc011bty.1_Silent_p.L371L	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	371					cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		GTACAGAGCTGATTCATGACA	0.438													12	202	---	---	---	---	PASS	A	196613165	A	A	196613165	2	1	71	1	0	0	0	0	0	0	0	1	14049	1277	45	2		2	SENP5	3	196613165	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	6920723	196613165	1409265	54	27488										
ZNF595	152687	broad.mit.edu	37	chr4	53386	53386	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	taccctgaagtcgggaaatgGtgagtgtgcggggcagggcg	19	7	0	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr4:53386G>T	uc003fzv.1	+	1	159	c.3_splice	c.e1+1	p.M1_splice	ZNF595_uc003fzu.1_Splice_Site|ZNF718_uc003fzt.3_Splice_Site_p.M1_splice|ZNF595_uc010iay.1_Splice_Site|ZNF595_uc011bus.1_Splice_Site|ZNF595_uc011but.1_Splice_Site	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595						regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		TCGGGAAATGGTGAGTGTGCG	0.642													31	382	---	---	---	---	PASS	T	53386	T	T	53386	5	4	71	1	0	0	0	0	0	0	1	0	18022	1275	44	3	6	3	ZNF595	4	53386	Splice_Site	SNP	G	TCGA-34-5240-01A-01D-1441-08		53386	191100890	55	27489										
PCDH7	5099	broad.mit.edu	37	chr4	30724344	30724344	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	acggggtggccaacgtggccGaggacgttctggtcgacacc	16	12	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr4:30724344G>A	uc003gsk.1	+	1	2308	c.1300G>A	c.(1300-1302)GAG>AAG	p.E434K	PCDH7_uc011bxw.1_Missense_Mutation_p.E387K|PCDH7_uc011bxx.1_Missense_Mutation_p.E434K	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	434	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						CAACGTGGCCGAGGACGTTCT	0.627													32	11	---	---	---	---	PASS	A	30724344	A	A	30724344	3	1	71	1	0	0	0	0	1	0	0	0	11516	1059	37	2	1302	2	PCDH7	4	30724344	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	30670958	30724344	160429932	56	27490										
GABRG1	2565	broad.mit.edu	37	chr4	46125865	46125865	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gtcagtaacaagaagaccaaCctcacccctctactttgact	5	14	3	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr4:46125865C>T	uc003gxb.2	-	1	218	c.66G>A	c.(64-66)AGG>AGA	p.R22R		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	22					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		AGAAGACCAACCTCACCCCTC	0.453													22	13	---	---	---	---	PASS	T	46125865	T	T	46125865	2	4	71	1	0	0	0	0	0	0	0	1	6171	506	18	3		3	GABRG1	4	46125865	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	15401521	46125865	145028411	57	27491										
PDGFRA	5156	broad.mit.edu	37	chr4	55136842	55136842	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	atccgtgctaaggaagaagaCagtggccattatactattgt	10	7	0	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr4:55136842C>A	uc003han.3	+	8	1495	c.1164C>A	c.(1162-1164)GAC>GAA	p.D388E	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Missense_Mutation_p.D282E|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	388	Ig-like C2-type 4.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	AGGAAGAAGACAGTGGCCATT	0.338			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			46	38	---	---	---	---	PASS	A	55136842	A	A	55136842	3	1	71	1	0	0	0	0	1	0	0	0	11661	477	17	3	1190	3	PDGFRA	4	55136842	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	9010977	55136842	136017434	58	27492										
SRD5A3	79644	broad.mit.edu	37	chr4	56212685	56212685	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aaccaagtgtggggagccgtCgcgccccgccgcctgccgag	15	16	0	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr4:56212685C>T	uc003hau.2	+	1	277	c.182C>T	c.(181-183)TCG>TTG	p.S61L		NM_024592	NP_078868	Q9H8P0	PORED_HUMAN	steroid 5 alpha-reductase 3	61	Lumenal (Potential).				androgen biosynthetic process|dolichol metabolic process|dolichol-linked oligosaccharide biosynthetic process|polyprenol catabolic process	endoplasmic reticulum membrane|integral to membrane	3-oxo-5-alpha-steroid 4-dehydrogenase activity|oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor				0	all_cancers(7;0.0308)|all_lung(4;0.00195)|Lung NSC(11;0.00431)|all_epithelial(27;0.0425)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.0179)			GGGGAGCCGTCGCGCCCCGCC	0.706													15	1	---	---	---	---	PASS	T	56212685	T	T	56212685	3	4	71	1	0	0	0	0	1	0	0	0	15139	893	31	2	184	2	SRD5A3	4	56212685	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	1075843	56212685	134941591	59	27493										
KIAA1109	84162	broad.mit.edu	37	chr4	123230459	123230459	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cttgacactggttctgctttGgtattaaccattgaaagtac	8	8	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr4:123230459G>C	uc003ieh.2	+	57	10137	c.10092G>C	c.(10090-10092)TTG>TTC	p.L3364F	KIAA1109_uc003iel.1_Missense_Mutation_p.L1299F	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3364					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GTTCTGCTTTGGTATTAACCA	0.353													56	35	---	---	---	---	PASS	C	123230459	C	C	123230459	3	2	71	1	0	0	0	0	1	0	0	0	8208	1339	47	4	10318	4	KIAA1109	4	123230459	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	67017774	123230459	67923817	60	27494										
FAT1	2195	broad.mit.edu	37	chr4	187524342	187524342	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tgcagtacctttgcagagacAcaccgctgccctgtggtggc	12	13	0	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr4:187524342A>T	uc003izf.2	-	19	11526	c.11338T>A	c.(11338-11340)TGT>AGT	p.C3780S		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3780	Extracellular (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TTGCAGAGACACACCGCTGCC	0.498										HNSCC(5;0.00058)			8	15	---	---	---	---	PASS	T	187524342	T	T	187524342	3	4	71	1	0	0	0	0	1	0	0	0	5689	159	6	5	2464	5	FAT1	4	187524342	Missense_Mutation	SNP	A	TCGA-34-5240-01A-01D-1441-08	64293883	187524342	3629934	61	27495										
TERT	7015	broad.mit.edu	37	chr5	1253924	1253924	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gtcagcgtcgtccccgggagCttccgactcagctgcgtctg	13	15	3	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr5:1253924C>T	uc003jcb.1	-	16	3376	c.3318G>A	c.(3316-3318)AAG>AAA	p.K1106K	TERT_uc003jbz.1_Silent_p.K302K|TERT_uc003jca.1_Silent_p.K1094K|TERT_uc003jcc.1_Silent_p.K1043K|TERT_uc003jcd.1_RNA|TERT_uc003jce.1_RNA	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	1106	CTE.				anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			TCCCCGGGAGCTTCCGACTCA	0.657									TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				9	12	---	---	---	---	PASS	T	1253924	T	T	1253924	2	4	71	1	0	0	0	0	0	0	0	1	15761	796	28	3		3	TERT	5	1253924	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08		1253924	179661336	62	27496										
CDH10	1008	broad.mit.edu	37	chr5	24511474	24511474	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gccttcctgtgtgtccttctCagtcacgatgtcaaacatat	7	12	3	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr5:24511474C>T	uc003jgr.1	-	6	1296	c.964G>A	c.(964-966)GAG>AAG	p.E322K	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	322	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		GTGTCCTTCTCAGTCACGATG	0.413										HNSCC(23;0.051)			128	201	---	---	---	---	PASS	T	24511474	T	T	24511474	3	4	71	1	0	0	0	0	1	0	0	0	3096	835	29	2	1430	2	CDH10	5	24511474	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	23257550	24511474	156403786	63	27497										
TTC23L	153657	broad.mit.edu	37	chr5	34863137	34863137	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agctgtactacactctgggcGtggcctggctcctgcagaac	12	13	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr5:34863137G>A	uc003jiu.2	+	5	617	c.514G>A	c.(514-516)GTG>ATG	p.V172M	TTC23L_uc003jiv.2_5'Flank|TTC23L_uc010iut.1_5'Flank	NM_144725	NP_653326	Q6PF05	TT23L_HUMAN	tetratricopeptide repeat domain 23-like	172							binding			central_nervous_system(1)	1						CACTCTGGGCGTGGCCTGGCT	0.517													6	189	---	---	---	---	PASS	A	34863137	A	A	34863137	3	1	71	1	0	0	0	0	1	0	0	0	16688	1145	40	1	528	1	TTC23L	5	34863137	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	10351663	34863137	146052123	64	27498										
UGT3A2	167127	broad.mit.edu	37	chr5	36051998	36051998	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cctaaagtttcttccagaaaGaaatcaaaactctttttaaa	3	8	3	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr5:36051998G>T	uc003jjz.1	-	3	378	c.285C>A	c.(283-285)TTC>TTA	p.F95L	UGT3A2_uc011cos.1_Missense_Mutation_p.F61L|UGT3A2_uc011cot.1_5'UTR	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	95	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTTCCAGAAAGAAATCAAAAC	0.308													33	62	---	---	---	---	PASS	T	36051998	T	T	36051998	3	4	71	1	0	0	0	0	1	0	0	0	16961	933	33	2	1306	2	UGT3A2	5	36051998	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	1188861	36051998	144863262	65	27499										
OSMR	9180	broad.mit.edu	37	chr5	38921735	38921735	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agaagaggttgaggaagaaaGaattgcaggcacagagggtg	17	3	0	6			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr5:38921735G>A	uc003jln.1	+	12	1971	c.1604G>A	c.(1603-1605)AGA>AAA	p.R535K	OSMR_uc011cpj.1_5'UTR	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	535	Fibronectin type-III 3.|Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					GAGGAAGAAAGAATTGCAGGC	0.398													44	87	---	---	---	---	PASS	A	38921735	A	A	38921735	3	1	71	1	0	0	0	0	1	0	0	0	11292	942	33	2	1684	2	OSMR	5	38921735	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	2869737	38921735	141993525	66	27500										
HEATR7B2	133558	broad.mit.edu	37	chr5	41009428	41009428	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	catcttctaactcagtctccAgtttgtctattaaggcttgc	6	11	5	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr5:41009428A>T	uc003jmj.3	-	32	3864	c.3374T>A	c.(3373-3375)CTG>CAG	p.L1125Q	HEATR7B2_uc003jmi.3_Missense_Mutation_p.L680Q	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1125	HEAT 12.						binding			ovary(6)|central_nervous_system(2)	8						CTCAGTCTCCAGTTTGTCTAT	0.502													72	112	---	---	---	---	PASS	T	41009428	T	T	41009428	3	4	71	1	0	0	0	0	1	0	0	0	7035	188	7	5	1427	5	HEATR7B2	5	41009428	Missense_Mutation	SNP	A	TCGA-34-5240-01A-01D-1441-08	2087693	41009428	139905832	67	27501										
FBN2	2201	broad.mit.edu	37	chr5	127729049	127729049	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gaagtccatccatgcaaagtCtgcgatattcctctagaaga	8	10	2	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr5:127729049C>T	uc003kuu.2	-	10	1683	c.1244G>A	c.(1243-1245)AGA>AAA	p.R415K	FBN2_uc003kuv.2_Missense_Mutation_p.R382K	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	415	TB 2.				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)		CATGCAAAGTCTGCGATATTC	0.478													55	30	---	---	---	---	PASS	T	127729049	T	T	127729049	3	4	71	1	0	0	0	0	1	0	0	0	5703	913	32	2	7718	2	FBN2	5	127729049	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	86719621	127729049	53186211	68	27502										
TRPC7	57113	broad.mit.edu	37	chr5	135583342	135583342	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ctggcagaatgtatgcaatgCgagagaagctcagcacgacg	13	9	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr5:135583342C>A	uc003lbn.1	-	6	1661	c.1658G>T	c.(1657-1659)CGC>CTC	p.R553L	TRPC7_uc010jef.1_Missense_Mutation_p.R490L|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.R484L|TRPC7_uc010jei.1_Missense_Mutation_p.R429L|TRPC7_uc010jej.1_Missense_Mutation_p.R105L	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	554	Helical; (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GTATGCAATGCGAGAGAAGCT	0.498													70	32	---	---	---	---	PASS	A	135583342	A	A	135583342	3	1	71	1	0	0	0	0	1	0	0	0	16581	768	27	1	951	1	TRPC7	5	135583342	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	7854293	135583342	45331918	69	27503										
PCDHA7	56141	broad.mit.edu	37	chr5	140214080	140214080	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tccactactcggtccccgagGaggctaaacatggcaacttc	9	14	0	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr5:140214080G>A	uc003lhq.2	+	1	112	c.112G>A	c.(112-114)GAG>AAG	p.E38K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.E38K	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	38	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTCCCCGAGGAGGCTAAACA	0.617													89	44	---	---	---	---	PASS	A	140214080	A	A	140214080	3	1	71	1	0	0	0	0	1	0	0	0	11529	1175	41	2	114	2	PCDHA7	5	140214080	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	4630738	140214080	40701180	70	27504										
PCDHA11	56138	broad.mit.edu	37	chr5	140250029	140250029	+	Frame_Shift_Del	DEL	G	-	-													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tccgtggaggtggccgacgtGaacgacaatgcgcctgcgtt							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr5:140250029delG	uc003lia.2	+	1	2199	c.1341delG	c.(1339-1341)GTGfs	p.V447fs	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Frame_Shift_Del_p.V447fs	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	447	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGCCGACGTGAACGACAATG	0.637													61	137	---	---	---	---		-	140250029	-	-	140250029	7	5	71	1	0	1	0	1	0	0	0	0	11521	1277	45	0	1343	0	PCDHA11	5	140250029	Frame_Shift_Del	DEL	G	TCGA-34-5240-01A-01D-1441-08	35949	140250029	40665231	71	27505										
PCDH1	5097	broad.mit.edu	37	chr5	141243253	141243253	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gcctggtaaccacttttggcCtcccgctgtctgcagtagcg	11	14	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr5:141243253C>A	uc003llq.2	-	3	2760	c.2643G>T	c.(2641-2643)GAG>GAT	p.E881D	PCDH1_uc003llp.2_Missense_Mutation_p.E881D|PCDH1_uc011dbf.1_Missense_Mutation_p.E859D	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	881	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		CACTTTTGGCCTCCCGCTGTC	0.582													200	104	---	---	---	---	PASS	A	141243253	A	A	141243253	3	1	71	1	0	0	0	0	1	0	0	0	11506	680	24	3	1166	3	PCDH1	5	141243253	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	993224	141243253	39672007	72	27506										
FOXI1	2299	broad.mit.edu	37	chr5	169533492	169533492	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	atccgccacaacctgtcgctCaacgactgcttcaagaaggt	8	14	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr5:169533492C>T	uc003mai.3	+	1	576	c.531C>T	c.(529-531)CTC>CTT	p.L177L	FOXI1_uc003maj.3_Silent_p.L177L	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	177	Fork-head.				epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACCTGTCGCTCAACGACTGCT	0.592									Pendred_syndrome				15	13	---	---	---	---	PASS	T	169533492	T	T	169533492	2	4	71	1	0	0	0	0	0	0	0	1	6009	813	29	2		2	FOXI1	5	169533492	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	28290239	169533492	11381768	73	27507										
DSP	1832	broad.mit.edu	37	chr6	7581127	7581142	+	Frame_Shift_Del	DEL	GCAGAAGCAGAAGGTG	-	-													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tctctgaaagagctgcagctGcagaagcagaaggtggaaga							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr6:7581127_7581142delGCAGAAGCAGAAGGTG	uc003mxp.1	+	23	4983_4998	c.4704_4719delGCAGAAGCAGAAGGTG	c.(4702-4719)CTGCAGAAGCAGAAGGTGfs	p.L1568fs	DSP_uc003mxq.1_Intron	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1568_1573	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		AGCTGCAGCTGCAGAAGCAGAAGGTGGAAGAGGAGC	0.551													34	47	---	---	---	---		-	7581142	-	-	7581127	7	5	71	1	0	1	0	1	0	0	0	0	4781	1306	46	0	4794	0	DSP	6	7581127	Frame_Shift_Del	DEL	GCAGAAGCAGAAGGTG	TCGA-34-5240-01A-01D-1441-08		7581127	163533940	74	27508										
TRIM38	10475	broad.mit.edu	37	chr6	25983831	25983831	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tgccacatctttactttcccGaaggcttccttctctgatac	5	14	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr6:25983831G>T	uc003nfm.2	+	8	1749	c.1314G>T	c.(1312-1314)CCG>CCT	p.P438P	TRIM38_uc003nfn.2_Silent_p.P420P|TRIM38_uc010jqd.2_Silent_p.P74P	NM_006355	NP_006346	O00635	TRI38_HUMAN	tripartite motif-containing 38	438	B30.2/SPRY.				positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular	signal transducer activity|zinc ion binding				0						TTACTTTCCCGAAGGCTTCCT	0.478													47	36	---	---	---	---	PASS	T	25983831	T	T	25983831	2	4	71	1	0	0	0	0	0	0	0	1	16509	1045	37	2		2	TRIM38	6	25983831	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	18402704	25983831	145131236	75	27509										
MOCS1	4337	broad.mit.edu	37	chr6	39874178	39874178	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tgaccaccagtcttgctaatGagcttgatctcctccaacac	6	14	2	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr6:39874178G>C	uc003opb.2	-	10	2004	c.1866C>G	c.(1864-1866)CTC>CTG	p.L622L	MOCS1_uc003opa.2_3'UTR|MOCS1_uc003opc.2_Silent_p.L606L|MOCS1_uc003opd.2_3'UTR|MOCS1_uc003ope.2_Silent_p.L519L	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	622	Molybdenum cofactor biosynthesis protein C.				Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding			ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					TCTTGCTAATGAGCTTGATCT	0.602													103	59	---	---	---	---	PASS	C	39874178	C	C	39874178	2	2	71	1	0	0	0	0	0	0	0	1	9690	1305	45	2		2	MOCS1	6	39874178	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	13890347	39874178	131240889	76	27510										
GPR110	266977	broad.mit.edu	37	chr6	46977155	46977155	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ccaagcatgagcatccagaaGaacaaagagaggtagaagaa	11	7	0	6			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr6:46977155G>A	uc003oyt.2	-	11	2215	c.2016C>T	c.(2014-2016)TTC>TTT	p.F672F	GPR110_uc011dwl.1_Silent_p.F360F	NM_153840	NP_722582	Q5T601	GP110_HUMAN	G-protein coupled receptor 110 isoform 1	672	Helical; Name=3; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|pancreas(1)	3						GCATCCAGAAGAACAAAGAGA	0.502													18	9	---	---	---	---	PASS	A	46977155	A	A	46977155	2	1	71	1	0	0	0	0	0	0	0	1	6627	933	33	2		2	GPR110	6	46977155	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	7102977	46977155	124137912	77	27511										
COL9A1	1297	broad.mit.edu	37	chr6	70970387	70970387	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cctttgtccccaactatgccGgtgatgcctcgcaaaccctg	8	16	0	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr6:70970387G>T	uc003pfg.3	-	20	1581	c.1422C>A	c.(1420-1422)ACC>ACA	p.T474T	COL9A1_uc003pfe.3_Silent_p.T47T|COL9A1_uc003pff.3_Silent_p.T231T	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	474	Triple-helical region (COL2).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						CAACTATGCCGGTGATGCCTC	0.348													31	18	---	---	---	---	PASS	T	70970387	T	T	70970387	2	4	71	1	0	0	0	0	0	0	0	1	3707	1103	39	1		1	COL9A1	6	70970387	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	23993232	70970387	100144680	78	27512										
BEND3	57673	broad.mit.edu	37	chr6	107391717	107391717	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gggctcacctgcttcttgatGcggctcacctcaagggagag	13	12	4	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr6:107391717G>A	uc003prs.2	-	5	1328	c.678C>T	c.(676-678)CGC>CGT	p.R226R		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	226										ovary(3)	3						GCTTCTTGATGCGGCTCACCT	0.572													46	24	---	---	---	---	PASS	A	107391717	A	A	107391717	2	1	71	1	0	0	0	0	0	0	0	1	1399	1306	46	3		3	BEND3	6	107391717	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	36421330	107391717	63723350	79	27513										
HDAC9	9734	broad.mit.edu	37	chr7	18674283	18674283	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tagcagttctccaggctctgGtcccagttcaccaaacaatg	8	13	3	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:18674283G>T	uc003suh.2	+	7	862	c.821G>T	c.(820-822)GGT>GTT	p.G274V	HDAC9_uc003sue.2_Missense_Mutation_p.G274V|HDAC9_uc011jyd.1_Missense_Mutation_p.G274V|HDAC9_uc003sui.2_Missense_Mutation_p.G277V|HDAC9_uc003suj.2_Missense_Mutation_p.G233V|HDAC9_uc011jya.1_Missense_Mutation_p.G271V|HDAC9_uc003sua.1_Missense_Mutation_p.G252V|HDAC9_uc011jyb.1_Missense_Mutation_p.G230V|HDAC9_uc003sud.1_Missense_Mutation_p.G274V|HDAC9_uc011jyc.1_Missense_Mutation_p.G233V|HDAC9_uc003suf.1_Missense_Mutation_p.G305V|HDAC9_uc010kud.1_Missense_Mutation_p.G277V|HDAC9_uc011jye.1_Missense_Mutation_p.G246V|HDAC9_uc011jyf.1_Missense_Mutation_p.G197V|HDAC9_uc010kue.1_Missense_Mutation_p.G17V	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	274	Interaction with MAPK10 (By similarity).				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CCAGGCTCTGGTCCCAGTTCA	0.423													10	10	---	---	---	---	PASS	T	18674283	T	T	18674283	3	4	71	1	0	0	0	0	1	0	0	0	7014	1261	44	3	856	3	HDAC9	7	18674283	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08		18674283	140464380	80	27514										
DNAH11	8701	broad.mit.edu	37	chr7	21639577	21639577	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggcaccgttttttcaagcacAaatgatcttgttgcctcctg	8	11	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:21639577A>T	uc003svc.2	+	15	2871	c.2840A>T	c.(2839-2841)CAA>CTA	p.Q947L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	947	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TTTCAAGCACAAATGATCTTG	0.403									Kartagener_syndrome				15	53	---	---	---	---	PASS	T	21639577	T	T	21639577	3	4	71	1	0	0	0	0	1	0	0	0	4599	130	5	5	2898	5	DNAH11	7	21639577	Missense_Mutation	SNP	A	TCGA-34-5240-01A-01D-1441-08	2965294	21639577	137499086	81	27515										
NEUROD6	63974	broad.mit.edu	37	chr7	31378049	31378049	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	taatttttaccatagtccaaGgtttcttcttgcttcaggga	7	8	3	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:31378049G>T	uc003tch.2	-	2	1187	c.834C>A	c.(832-834)ACC>ACA	p.T278T		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	278					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						CATAGTCCAAGGTTTCTTCTT	0.493													66	66	---	---	---	---	PASS	T	31378049	T	T	31378049	2	4	71	1	0	0	0	0	0	0	0	1	10351	987	35	3		3	NEUROD6	7	31378049	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	9738472	31378049	127760614	82	27516										
TBL2	26608	broad.mit.edu	37	chr7	72985210	72985210	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ccgccgcctcttcaaagcggCctgtcttcagcaagtagggg	12	14	4	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:72985210C>A	uc003tyh.2	-	7	1105	c.971G>T	c.(970-972)GGC>GTC	p.G324V	TBL2_uc011kex.1_Missense_Mutation_p.G288V|TBL2_uc010lbg.2_Missense_Mutation_p.G229V|TBL2_uc003tyi.2_Missense_Mutation_p.G159V|TBL2_uc011key.1_Missense_Mutation_p.G195V|TBL2_uc010lbh.2_Missense_Mutation_p.G229V	NM_012453	NP_036585	Q9Y4P3	TBL2_HUMAN	transducin (beta)-like 2	324											0		Lung NSC(55;0.0659)|all_lung(88;0.152)				TTCAAAGCGGCCTGTCTTCAG	0.582													27	83	---	---	---	---	PASS	A	72985210	A	A	72985210	3	1	71	1	0	0	0	0	1	0	0	0	15639	739	26	3	376	3	TBL2	7	72985210	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	41607161	72985210	86153453	83	27517										
GRM3	2913	broad.mit.edu	37	chr7	86415870	86415870	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggccgctccaacatccgcaaGtcctacgacagcgtgatccg	10	16	0	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:86415870G>T	uc003uid.2	+	3	1861	c.762G>T	c.(760-762)AAG>AAT	p.K254N	GRM3_uc010lef.2_Missense_Mutation_p.K252N|GRM3_uc010leg.2_Missense_Mutation_p.K126N|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	254	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	ACATCCGCAAGTCCTACGACA	0.632													27	41	---	---	---	---	PASS	T	86415870	T	T	86415870	3	4	71	1	0	0	0	0	1	0	0	0	6798	1020	36	3	768	3	GRM3	7	86415870	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	13430660	86415870	72722793	84	27518										
ZNF804B	219578	broad.mit.edu	37	chr7	88964707	88964707	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aaaacgtagatattgtcactGcagagaaagacaaaaactgg	9	6	1	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:88964707G>T	uc011khi.1	+	4	2949	c.2411G>T	c.(2410-2412)TGC>TTC	p.C804F		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	804						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TATTGTCACTGCAGAGAAAGA	0.358										HNSCC(36;0.09)			34	50	---	---	---	---	PASS	T	88964707	T	T	88964707	3	4	71	1	0	0	0	0	1	0	0	0	18168	1319	46	3	2425	3	ZNF804B	7	88964707	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	2548837	88964707	70173956	85	27519										
HEPACAM2	253012	broad.mit.edu	37	chr7	92844914	92844914	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ctagccgagtgcccccttccAcatggcatgtcagggtcatg	11	14	2	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:92844914A>G	uc003umm.2	-	3	538	c.515T>C	c.(514-516)GTG>GCG	p.V172A	HEPACAM2_uc003uml.2_Missense_Mutation_p.V160A|HEPACAM2_uc010lff.2_Missense_Mutation_p.V160A|HEPACAM2_uc011khy.1_Missense_Mutation_p.V195A	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	172	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane				ovary(3)|breast(1)|kidney(1)	5						GCCCCCTTCCACATGGCATGT	0.507													48	48	---	---	---	---	PASS	G	92844914	G	G	92844914	3	3	71	1	0	0	0	0	1	0	0	0	7053	159	6	5	905	5	HEPACAM2	7	92844914	Missense_Mutation	SNP	A	TCGA-34-5240-01A-01D-1441-08	3880207	92844914	66293749	86	27520										
TRRAP	8295	broad.mit.edu	37	chr7	98546248	98546248	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	actcgacatccctcgcagacAgtggagctgttcatgatgga	11	11	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:98546248A>G	uc003upp.2	+	34	4916	c.4707A>G	c.(4705-4707)ACA>ACG	p.T1569T	TRRAP_uc011kis.1_Silent_p.T1551T|TRRAP_uc003upr.2_Silent_p.T1268T	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1569					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CCTCGCAGACAGTGGAGCTGT	0.532													41	119	---	---	---	---	PASS	G	98546248	G	G	98546248	2	3	71	1	0	0	0	0	0	0	0	1	16598	175	7	5		5	TRRAP	7	98546248	Silent	SNP	A	TCGA-34-5240-01A-01D-1441-08	5701334	98546248	60592415	87	27521										
CCDC136	64753	broad.mit.edu	37	chr7	128446399	128446399	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tgcaacttcagactgagctcCggcagctcaaagtcatgaaa	9	11	3	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:128446399C>T	uc003vnv.1	+	8	1565	c.1198C>T	c.(1198-1200)CGG>TGG	p.R400W	CCDC136_uc003vnu.1_Intron|CCDC136_uc003vnw.1_Intron|CCDC136_uc003vnx.1_Missense_Mutation_p.R216W|CCDC136_uc010llq.1_5'UTR|CCDC136_uc003vny.1_Missense_Mutation_p.R10W	NM_022742	NP_073579	Q96JN2	CC136_HUMAN	coiled-coil domain containing 136	400						integral to membrane	protein binding			ovary(2)	2						GACTGAGCTCCGGCAGCTCAA	0.483													10	11	---	---	---	---	PASS	T	128446399	T	T	128446399	3	4	71	1	0	0	0	0	1	0	0	0	2770	643	23	1	1228	1	CCDC136	7	128446399	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	29900151	128446399	30692264	88	27522										
DGKI	9162	broad.mit.edu	37	chr7	137237168	137237168	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ctcttctgtaccatgttggcCtgattcctcagggagatccg	10	12	3	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:137237168C>A	uc003vtt.2	-	20	2095	c.2094G>T	c.(2092-2094)CAG>CAT	p.Q698H	DGKI_uc003vtu.2_Missense_Mutation_p.Q398H	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	698					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						CCATGTTGGCCTGATTCCTCA	0.493													90	97	---	---	---	---	PASS	A	137237168	A	A	137237168	3	1	71	1	0	0	0	0	1	0	0	0	4471	680	24	3	1163	3	DGKI	7	137237168	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	8790769	137237168	21901495	89	27523										
DGKI	9162	broad.mit.edu	37	chr7	137266637	137266637	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gtgtgacatgggcatcaaatCcaaggctgaagtagttattg	12	6	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:137266637C>G	uc003vtt.2	-	15	1602	c.1601G>C	c.(1600-1602)GGA>GCA	p.G534A	DGKI_uc003vtu.2_Missense_Mutation_p.G234A	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	534					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						GGCATCAAATCCAAGGCTGAA	0.443													38	51	---	---	---	---	PASS	G	137266637	G	G	137266637	3	3	71	1	0	0	0	0	1	0	0	0	4471	855	30	2	1676	2	DGKI	7	137266637	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	29469	137266637	21872026	90	27524										
EPHB6	2051	broad.mit.edu	37	chr7	142561730	142561730	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggcccttcctgcagtgggacGaggtgagtgttctggacgac	16	10	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:142561730G>T	uc011kst.1	+	7	959	c.172G>T	c.(172-174)GAG>TAG	p.E58*	EPHB6_uc011ksu.1_Nonsense_Mutation_p.E58*|EPHB6_uc003wbs.2_5'UTR|EPHB6_uc003wbt.2_5'UTR|EPHB6_uc003wbu.2_5'UTR	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	58	Extracellular (Potential).					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					GCAGTGGGACGAGGTGAGTGT	0.592													4	299	---	---	---	---	PASS	T	142561730	T	T	142561730	4	4	71	1	0	0	0	0	0	1	0	0	5178	1059	37	2	182	2	EPHB6	7	142561730	Nonsense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	5295093	142561730	16576933	91	27525										
ZNF746	155061	broad.mit.edu	37	chr7	149172312	149172312	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agccagtccccaggaggggtCtcctcctgggccacagcagg	14	15	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr7:149172312C>G	uc003wfw.2	-	7	1369	c.1098G>C	c.(1096-1098)GAG>GAC	p.E366D	ZNF746_uc010lpi.2_Missense_Mutation_p.E367D	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2	366					negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			CAGGAGGGGTCTCCTCCTGGG	0.701													23	36	---	---	---	---	PASS	G	149172312	G	G	149172312	3	3	71	1	0	0	0	0	1	0	0	0	18126	912	32	2	840	2	ZNF746	7	149172312	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	6610582	149172312	9966351	92	27526										
CSMD1	64478	broad.mit.edu	37	chr8	4494992	4494992	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cccgtgatgatgatccaggtGcagttggcatagttcggata	13	8	0	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr8:4494992G>A	uc011kwk.1	-	2	564	c.174C>T	c.(172-174)TGC>TGT	p.C58C		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	58	Extracellular (Potential).|CUB 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)		TGATCCAGGTGCAGTTGGCAT	0.478													32	68	---	---	---	---	PASS	A	4494992	A	A	4494992	2	1	71	1	0	0	0	0	0	0	0	1	3944	1311	46	3		3	CSMD1	8	4494992	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08		4494992	141869030	93	27527										
MYBL1	4603	broad.mit.edu	37	chr8	67507919	67507919	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tcgttctgattttattccatCttgtaaatagccctcctgtt	5	10	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr8:67507919C>T	uc003xwj.2	-	6	993	c.586G>A	c.(586-588)GAT>AAT	p.D196N	MYBL1_uc003xwl.2_Missense_Mutation_p.D196N|MYBL1_uc003xwk.2_Missense_Mutation_p.D196N	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog	196					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			TTTATTCCATCTTGTAAATAG	0.343													7	11	---	---	---	---	PASS	T	67507919	T	T	67507919	3	4	71	1	0	0	0	0	1	0	0	0	10009	913	32	2	1716	2	MYBL1	8	67507919	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	63012927	67507919	78856103	94	27528										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885742	88885742	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggagcagcacggcacagcttGgagtatctgcaagtcccacg	13	12	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr8:88885742G>T	uc003ydz.2	-	1	555	c.458C>A	c.(457-459)CCA>CAA	p.P153Q		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	153										ovary(1)	1						GGCACAGCTTGGAGTATCTGC	0.552													63	37	---	---	---	---	PASS	T	88885742	T	T	88885742	3	4	71	1	0	0	0	0	1	0	0	0	4272	1348	47	3	733	3	DCAF4L2	8	88885742	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	21377823	88885742	57478280	95	27529										
WDR67	93594	broad.mit.edu	37	chr8	124157050	124157050	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gaaagtggtttttaaagcaaGagataaatgcggctgtagaa	12	3	0	2	rs147130740	byFrequency	TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr8:124157050G>T	uc003ypp.1	+	20	3019	c.2929G>T	c.(2929-2931)GAG>TAG	p.E977*	WDR67_uc011lig.1_Nonsense_Mutation_p.E881*|WDR67_uc011lih.1_Nonsense_Mutation_p.E867*|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Nonsense_Mutation_p.E611*|WDR67_uc003ypt.1_Nonsense_Mutation_p.E369*|WDR67_uc003ypu.1_Nonsense_Mutation_p.E369*	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	977						centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			TTTAAAGCAAGAGATAAATGC	0.388													46	31	---	---	---	---	PASS	T	124157050	T	T	124157050	4	4	71	1	0	0	0	0	0	1	0	0	17315	943	33	2	3007	2	WDR67	8	124157050	Nonsense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	35271308	124157050	22206972	96	27530										
TG	7038	broad.mit.edu	37	chr8	133899340	133899340	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ttgcttctctcctggagcttCcagaattccttctcttcttg	6	13	3	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr8:133899340C>T	uc003ytw.2	+	9	1764	c.1723C>T	c.(1723-1725)CCA>TCA	p.P575S		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	575					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CCTGGAGCTTCCAGAATTCCT	0.453													6	100	---	---	---	---	PASS	T	133899340	T	T	133899340	3	4	71	1	0	0	0	0	1	0	0	0	15810	855	30	2	1757	2	TG	8	133899340	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	9742290	133899340	12464682	97	27531										
KIAA1539	80256	broad.mit.edu	37	chr9	35105947	35105947	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggcaaactcaccacttggacGgtgcccaccttgggcacgct	11	15	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr9:35105947G>T	uc003zwl.2	-	7	1603	c.1278C>A	c.(1276-1278)ACC>ACA	p.T426T	STOML2_uc003zwh.2_5'Flank|STOML2_uc003zwi.2_5'Flank|STOML2_uc003zwj.2_5'Flank|STOML2_uc011lou.1_5'Flank|STOML2_uc003zwk.2_5'Flank|KIAA1539_uc003zwm.2_Silent_p.T426T|KIAA1539_uc003zwn.2_Silent_p.T121T|KIAA1539_uc003zwo.2_Silent_p.T426T|KIAA1539_uc003zwp.1_Silent_p.T426T|KIAA1539_uc010mkk.1_RNA	NM_025182	NP_079458	Q7L5A3	K1539_HUMAN	hypothetical protein LOC80256	426						nucleus				ovary(2)	2	all_epithelial(49;0.217)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			CCACTTGGACGGTGCCCACCT	0.597													25	68	---	---	---	---	PASS	T	35105947	T	T	35105947	2	4	71	1	0	0	0	0	0	0	0	1	8242	1103	39	1		1	KIAA1539	9	35105947	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08		35105947	106107484	98	27532										
PAX5	5079	broad.mit.edu	37	chr9	36846876	36846876	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggggaacctccaggagtcgtTgtacgaggaatactgagggt	16	7	0	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr9:36846876T>A	uc003zzo.1	-	9	1511	c.1063A>T	c.(1063-1065)AAC>TAC	p.N355Y	PAX5_uc011lpt.1_Missense_Mutation_p.N151Y|PAX5_uc011lpu.1_RNA|PAX5_uc011lpv.1_Intron|PAX5_uc011lpw.1_Intron|PAX5_uc011lpx.1_Missense_Mutation_p.N255Y|PAX5_uc011lpy.1_Intron|PAX5_uc010mls.1_Intron|PAX5_uc011lpz.1_Missense_Mutation_p.N312Y|PAX5_uc011lqa.1_Missense_Mutation_p.N247Y|PAX5_uc010mlq.1_RNA|PAX5_uc011lqb.1_RNA|PAX5_uc010mlo.1_Missense_Mutation_p.N321Y|PAX5_uc010mlp.1_Intron|PAX5_uc011lqc.1_Intron|PAX5_uc010mlr.1_Silent_p.T277T	NM_016734	NP_057953	Q02548	PAX5_HUMAN	paired box 5	355					cell differentiation|humoral immune response|nervous system development|organ morphogenesis|spermatogenesis|transcription from RNA polymerase II promoter	nucleus	DNA binding	p.?(11)|p.N355H(1)	PAX5/JAK2(18)	haematopoietic_and_lymphoid_tissue(142)|lung(3)|central_nervous_system(2)	147		all_cancers(2;3.46e-10)|Acute lymphoblastic leukemia(2;7.09e-56)|all_hematologic(2;6.65e-44)		GBM - Glioblastoma multiforme(29;0.0108)		CAGGAGTCGTTGTACGAGGAA	0.597			T|Mis|D|F|S	IGH@|ETV6|PML|FOXP1|ZNF521|ELN	NHL|ALL|B-ALL								81	50	---	---	---	---	PASS	A	36846876	A	A	36846876	3	1	71	1	0	0	0	0	1	0	0	0	11482	1812	63	5	120	5	PAX5	9	36846876	Missense_Mutation	SNP	T	TCGA-34-5240-01A-01D-1441-08	1740929	36846876	104366555	99	27533										
SVEP1	79987	broad.mit.edu	37	chr9	113191430	113191430	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ctacaaatgttacctgtatcCtgtatcgcatgaatatgatg	7	8	0	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr9:113191430C>A	uc010mtz.2	-	35	6137	c.5800G>T	c.(5800-5802)GGA>TGA	p.G1934*	SVEP1_uc010mty.2_Translation_Start_Site	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1934	Sushi 9.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TACCTGTATCCTGTATCGCAT	0.308													11	12	---	---	---	---	PASS	A	113191430	A	A	113191430	4	1	71	1	0	0	0	0	0	1	0	0	15417	690	24	3	4971	3	SVEP1	9	113191430	Nonsense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	76344554	113191430	28022001	100	27534										
ASTN2	23245	broad.mit.edu	37	chr9	120053768	120053768	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gtctccagtgcaccagcgagAtgtccgctgctgtgccagac	12	14	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr9:120053768A>G	uc004bjs.1	-	2	568	c.467T>C	c.(466-468)ATC>ACC	p.I156T	ASTN2_uc004bjr.1_Missense_Mutation_p.I156T|ASTN2_uc004bjt.1_Missense_Mutation_p.I156T	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	156	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CACCAGCGAGATGTCCGCTGC	0.627													22	11	---	---	---	---	PASS	G	120053768	G	G	120053768	3	3	71	1	0	0	0	0	1	0	0	0	1065	333	12	5	3715	5	ASTN2	9	120053768	Missense_Mutation	SNP	A	TCGA-34-5240-01A-01D-1441-08	6862338	120053768	21159663	101	27535										
SFMBT2	57713	broad.mit.edu	37	chr10	7409783	7409783	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gtggccacccagtacgtgtcCgggttgttcttattagccac	11	12	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr10:7409783C>T	uc009xio.1	-	4	355	c.264G>A	c.(262-264)CCG>CCA	p.P88P	SFMBT2_uc001ijn.1_Silent_p.P88P|SFMBT2_uc010qay.1_Silent_p.P88P|SFMBT2_uc001ijo.1_Silent_p.P88P	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	88	MBT 1.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						AGTACGTGTCCGGGTTGTTCT	0.517													31	14	---	---	---	---	PASS	T	7409783	T	T	7409783	2	4	71	1	0	0	0	0	0	0	0	1	14158	639	23	1		1	SFMBT2	10	7409783	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08		7409783	128124964	102	27536										
COL17A1	1308	broad.mit.edu	37	chr10	105830203	105830203	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cccgactgggagctcgctgtCacaattttggtctccacagt	10	13	2	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr10:105830203C>G	uc001kxr.2	-	9	757	c.588G>C	c.(586-588)GTG>GTC	p.V196V	COL17A1_uc010qqv.1_Silent_p.V180V|COL17A1_uc009xxp.1_Silent_p.V196V	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	196	Cytoplasmic (Potential).|Nonhelical region (NC16).|Necessary for interaction with DST and for the recruitment of DST to hemidesmosome.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		AGCTCGCTGTCACAATTTTGG	0.438													42	21	---	---	---	---	PASS	G	105830203	G	G	105830203	2	3	71	1	0	0	0	0	0	0	0	1	3674	813	29	2		2	COL17A1	10	105830203	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	98420420	105830203	29704544	103	27537										
SEC23IP	11196	broad.mit.edu	37	chr10	121671669	121671669	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gatgataaccttgatgaaatTcccgacggtgtgtatagttt	10	6	0	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr10:121671669T>C	uc001leu.1	+	6	1377	c.1305T>C	c.(1303-1305)ATT>ATC	p.I435I	SEC23IP_uc010qtc.1_Silent_p.I224I	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	435					Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		TTGATGAAATTCCCGACGGTG	0.428													3	153	---	---	---	---	PASS	C	121671669	C	C	121671669	2	2	71	1	0	0	0	0	0	0	0	1	13993	1771	62	5		5	SEC23IP	10	121671669	Silent	SNP	T	TCGA-34-5240-01A-01D-1441-08	15841466	121671669	13863078	104	27538										
PSTK	118672	broad.mit.edu	37	chr10	124746901	124746901	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	taagcaaagatgggtaagagCgaaccatgcagctatctgga	12	7	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr10:124746901C>A	uc001lgy.1	+	6	1369	c.929C>A	c.(928-930)GCG>GAG	p.A310E		NM_153336	NP_699167	Q8IV42	PSTK_HUMAN	phosphoseryl-tRNA kinase	310							ATP binding|kinase activity			liver(1)	1		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0725)		tgggtaagagcgaaccatgca	0													43	17	---	---	---	---	PASS	A	124746901	A	A	124746901	3	1	71	1	0	0	0	0	1	0	0	0	12720	768	27	1	951	1	PSTK	10	124746901	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	3075232	124746901	10787846	105	27539										
HRAS	3265	broad.mit.edu	37	chr11	534286	534286	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cagcgcactcttgcccacacCgccggcgcccaccaccacca	7	23	1	0	rs104894228		TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr11:534286C>G	uc001lpv.2	-	2	225	c.37G>C	c.(37-39)GGT>CGT	p.G13R	HRAS_uc010qvw.1_Missense_Mutation_p.G13R|HRAS_uc010qvx.1_Missense_Mutation_p.G13R|HRAS_uc010qvy.1_RNA	NM_005343	NP_005334	P01112	RASH_HUMAN	v-Ha-ras Harvey rat sarcoma viral oncogene	13	GTP.		G -> D (in FCSS).|G -> C (in FCSS).		activation of MAPKK activity|axon guidance|blood coagulation|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|Ras protein signal transduction|synaptic transmission	cytosol|Golgi membrane|plasma membrane	GTP binding|GTPase activity|protein C-terminus binding	p.G13R(34)|p.G13V(10)|p.G13D(9)|p.G13S(9)|p.G13C(6)|p.G13G(1)|p.G12_G13insAG(1)		urinary_tract(174)|thyroid(155)|skin(126)|upper_aerodigestive_tract(112)|soft_tissue(37)|prostate(29)|salivary_gland(24)|cervix(23)|stomach(14)|pituitary(10)|lung(9)|haematopoietic_and_lymphoid_tissue(9)|breast(6)|testis(5)|endometrium(4)|bone(3)|large_intestine(2)|oesophagus(2)|penis(2)|kidney(1)|adrenal_gland(1)|thymus(1)	749		all_cancers(49;4.37e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;7.63e-28)|Epithelial(43;7.29e-27)|OV - Ovarian serous cystadenocarcinoma(40;7.15e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Sulindac(DB00605)	TTGCCCACACCGCCGGCGCCC	0.642		6	Mis		infrequent sarcomas|rare other types	rhadomyosarcoma|ganglioneuroblastoma|bladder			Costello_syndrome	HNSCC(11;0.0054)			16	23	---	---	---	---	PASS	G	534286	G	G	534286	3	3	71	1	0	0	0	0	1	0	0	0	7348	652	23	4	615	4	HRAS	11	534286	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08		534286	134472230	106	27540										
CARS	833	broad.mit.edu	37	chr11	3039644	3039644	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggctggggactcacattcaaGaacttctcatattgaagcgc	10	10	3	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr11:3039644G>T	uc001lxh.2	-	13	1448	c.1374C>A	c.(1372-1374)TTC>TTA	p.F458L	CARS_uc001lxe.2_Missense_Mutation_p.F448L|CARS_uc001lxf.2_Missense_Mutation_p.F541L|CARS_uc001lxg.2_Missense_Mutation_p.F458L|CARS_uc010qxo.1_Missense_Mutation_p.F541L|CARS_uc010qxp.1_Missense_Mutation_p.F471L	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	458					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	TCACATTCAAGAACTTCTCAT	0.592			T	ALK	ALCL								3	19	---	---	---	---	PASS	T	3039644	T	T	3039644	3	4	71	1	0	0	0	0	1	0	0	0	2657	933	33	2	920	2	CARS	11	3039644	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	2505358	3039644	131966872	107	27541										
OR51S1	119692	broad.mit.edu	37	chr11	4869883	4869883	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cacatctggatgcaagcaatAagaatgggttaggacctgtg	12	7	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr11:4869883A>T	uc010qyo.1	-	1	556	c.556T>A	c.(556-558)TAT>AAT	p.Y186N		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		TGCAAGCAATAAGAATGGGTT	0.562													71	36	---	---	---	---	PASS	T	4869883	T	T	4869883	3	4	71	1	0	0	0	0	1	0	0	0	11105	362	13	5	418	5	OR51S1	11	4869883	Missense_Mutation	SNP	A	TCGA-34-5240-01A-01D-1441-08	1830239	4869883	130136633	108	27542										
PPFIBP2	8495	broad.mit.edu	37	chr11	7673013	7673013	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ttggtccggaggctgaacagGagaagcgagagaaaatggcc	16	7	0	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr11:7673013G>C	uc001mfj.3	+	23	2762	c.2374G>C	c.(2374-2376)GAG>CAG	p.E792Q	PPFIBP2_uc010rbb.1_Missense_Mutation_p.E715Q|PPFIBP2_uc001mfk.1_Intron|PPFIBP2_uc010rbc.1_Missense_Mutation_p.E726Q|PPFIBP2_uc010rbe.1_Missense_Mutation_p.E680Q|PPFIBP2_uc001mfl.3_Missense_Mutation_p.E649Q|PPFIBP2_uc009yfj.1_Missense_Mutation_p.E436Q	NM_003621	NP_003612	Q8ND30	LIPB2_HUMAN	PTPRF interacting protein, binding protein 2	792					cell communication|DNA integration	intracellular	DNA binding|integrase activity|protein binding			ovary(2)|breast(2)	4				Epithelial(150;2.01e-07)|BRCA - Breast invasive adenocarcinoma(625;0.236)		GGCTGAACAGGAGAAGCGAGA	0.582													60	24	---	---	---	---	PASS	C	7673013	C	C	7673013	3	2	71	1	0	0	0	0	1	0	0	0	12314	1175	41	2	2460	2	PPFIBP2	11	7673013	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	2803130	7673013	127333503	109	27543										
USH1C	10083	broad.mit.edu	37	chr11	17518319	17518319	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	acttacagctcatcgtcataCtcctttggggggcagacggc	11	12	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr11:17518319C>A	uc001mnf.2	-	20	1741	c.1632G>T	c.(1630-1632)GAG>GAT	p.E544D	USH1C_uc001mne.2_Missense_Mutation_p.E844D|USH1C_uc009yhb.2_Missense_Mutation_p.E525D|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_Missense_Mutation_p.E508D	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	544					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						CATCGTCATACTCCTTTGGGG	0.577													42	22	---	---	---	---	PASS	A	17518319	A	A	17518319	3	1	71	1	0	0	0	0	1	0	0	0	17031	564	20	3	179	3	USH1C	11	17518319	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	9845306	17518319	117488197	110	27544										
OR4A15	81328	broad.mit.edu	37	chr11	55136333	55136333	+	Missense_Mutation	SNP	C	A	A													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gaatgcagaaatgaaaagtgCcatgaggaaactttggagta					rs149238692	byFrequency	TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr11:55136333C>A	uc010rif.1	+	1	974	c.974C>A	c.(973-975)GCC>GAC	p.A325D		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	325	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						ATGAAAAGTGCCATGAGGAAA	0.373													82	68	---	---	---	---	PASS	A	55136333	A	A	55136333	3	1	71	1	0	0	0	0	1	0	0	0	11040	739	26	3	976	3	OR4A15	11	55136333	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	37618014	55136333	79870183	111	27545	574	2								
OR4A15	81328	broad.mit.edu	37	chr11	55136334	55136334	+	Silent	SNP	C	A	A													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aatgcagaaatgaaaagtgcCatgaggaaactttggagtaa							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr11:55136334C>A	uc010rif.1	+	1	975	c.975C>A	c.(973-975)GCC>GCA	p.A325A		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	325	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGAAAAGTGCCATGAGGAAAC	0.373													81	68	---	---	---	---	PASS	A	55136334	A	A	55136334	2	1	71	1	0	0	0	0	0	0	0	1	11040	581	21	3		3	OR4A15	11	55136334	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	1	55136334	79870182	112	27546	574	2								
PGR	5241	broad.mit.edu	37	chr11	100933389	100933389	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gtgaatctctggcttagggcTtggctttcatttggaacgcc	12	9	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr11:100933389T>C	uc001pgh.2	-	4	2744	c.2001A>G	c.(1999-2001)CAA>CAG	p.Q667Q	PGR_uc001pgg.2_Silent_p.Q48Q|PGR_uc001pgi.2_Intron|PGR_uc009yww.1_Intron|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	667					cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	GGCTTAGGGCTTGGCTTTCAT	0.438													6	156	---	---	---	---	PASS	C	100933389	C	C	100933389	2	2	71	1	0	0	0	0	0	0	0	1	11805	1606	56	5		5	PGR	11	100933389	Silent	SNP	T	TCGA-34-5240-01A-01D-1441-08	45797055	100933389	34073127	113	27547										
OR8B3	390271	broad.mit.edu	37	chr11	124266547	124266547	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aagtactgaaggcttttgatCttccttgagtggatttgata	10	5	1	4			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr11:124266547C>A	uc010saj.1	-	1	701	c.701G>T	c.(700-702)AGA>ATA	p.R234I	OR8B2_uc001qab.3_Intron	NM_001005467	NP_001005467	Q8NGG8	OR8B3_HUMAN	olfactory receptor, family 8, subfamily B,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GGCTTTTGATCTTCCTTGAGT	0.368													67	39	---	---	---	---	PASS	A	124266547	A	A	124266547	3	1	71	1	0	0	0	0	1	0	0	0	11228	913	32	2	242	2	OR8B3	11	124266547	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	23333158	124266547	10739969	114	27548										
NTM	50863	broad.mit.edu	37	chr11	132180043	132180043	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gaagccaagggtacaggtgtCcccgtgggacaaaaggggac	16	9	0	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr11:132180043C>A	uc001qgp.2	+	5	1363	c.699C>A	c.(697-699)GTC>GTA	p.V233V	NTM_uc001qgm.2_Silent_p.V233V|NTM_uc010sch.1_Silent_p.V224V|NTM_uc010sci.1_Silent_p.V233V|NTM_uc010scj.1_Silent_p.V192V|NTM_uc001qgo.2_Silent_p.V233V|NTM_uc001qgq.2_Silent_p.V233V|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	233	Ig-like C2-type 3.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						GTACAGGTGTCCCCGTGGGAC	0.448													94	53	---	---	---	---	PASS	A	132180043	A	A	132180043	2	1	71	1	0	0	0	0	0	0	0	1	10699	842	30	2		2	NTM	11	132180043	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	7913496	132180043	2826473	115	27549										
CLEC4D	338339	broad.mit.edu	37	chr12	8673755	8673755	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tgaacccgacaactctcaggGagaaaactgtgttgttcttg	10	9	2	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr12:8673755G>A	uc001qun.2	+	6	729	c.536G>A	c.(535-537)GGA>GAA	p.G179E		NM_080387	NP_525126	Q8WXI8	CLC4D_HUMAN	C-type lectin domain family 4, member D	179	C-type lectin.|Extracellular (Potential).				innate immune response	integral to membrane	sugar binding				0	Lung SC(5;0.184)					AACTCTCAGGGAGAAAACTGT	0.348													30	91	---	---	---	---	PASS	A	8673755	A	A	8673755	3	1	71	1	0	0	0	0	1	0	0	0	3514	1174	41	2	558	2	CLEC4D	12	8673755	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08		8673755	125178140	116	27550										
PZP	5858	broad.mit.edu	37	chr12	9307276	9307276	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tccacttcacaatgttagttGcagaggtcaggtcccctgag	10	11	2	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr12:9307276G>T	uc001qvl.2	-	29	3739	c.3710C>A	c.(3709-3711)GCA>GAA	p.A1237E	PZP_uc009zgl.2_Missense_Mutation_p.A1023E	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						AATGTTAGTTGCAGAGGTCAG	0.567													46	59	---	---	---	---	PASS	T	9307276	T	T	9307276	3	4	71	1	0	0	0	0	1	0	0	0	12869	1319	46	3	770	3	PZP	12	9307276	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	633521	9307276	124544619	117	27551										
PDE3A	5139	broad.mit.edu	37	chr12	20806880	20806880	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tcacttgtattttatttctaGggtgatgaagaggccagcct	10	7	2	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr12:20806880G>T	uc001reh.1	+	15	2948	c.2926_splice	c.e15-1	p.G976_splice		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A						lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	TTTATTTCTAGGGTGATGAAG	0.428													43	68	---	---	---	---	PASS	T	20806880	T	T	20806880	5	4	71	1	0	0	0	0	0	0	1	0	11637	1014	35	3	2983	3	PDE3A	12	20806880	Splice_Site	SNP	G	TCGA-34-5240-01A-01D-1441-08	11499604	20806880	113045015	118	27552										
PPFIBP1	8496	broad.mit.edu	37	chr12	27820098	27820098	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ctttgttttatcttttcctaGgcaaagatggagaatatgaa	8	5	1	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr12:27820098G>T	uc001ric.1	+	13	1420	c.1043_splice	c.e13-1	p.G348_splice	PPFIBP1_uc010sjr.1_Splice_Site_p.G179_splice|PPFIBP1_uc001rib.1_Splice_Site_p.G331_splice|PPFIBP1_uc001ria.2_Splice_Site_p.G317_splice|PPFIBP1_uc001rid.1_Splice_Site_p.G195_splice	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1						cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					TCTTTTCCTAGGCAAAGATGG	0.363													39	39	---	---	---	---	PASS	T	27820098	T	T	27820098	5	4	71	1	0	0	0	0	0	0	1	0	12313	1014	35	3	1075	3	PPFIBP1	12	27820098	Splice_Site	SNP	G	TCGA-34-5240-01A-01D-1441-08	7013218	27820098	106031797	119	27553										
COPZ1	22818	broad.mit.edu	37	chr12	54741805	54741805	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gtgatcctagagagtgatccCcagcaggtggtacaccgggt	14	10	0	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr12:54741805C>A	uc001sfs.1	+	7	454	c.417C>A	c.(415-417)CCC>CCA	p.P139P	COPZ1_uc001sft.2_Silent_p.P88P|COPZ1_uc009znm.1_Silent_p.P147P|COPZ1_uc010sot.1_Silent_p.P116P	NM_016057	NP_057141	P61923	COPZ1_HUMAN	coatomer protein complex, subunit zeta 1	139					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol					0						AGAGTGATCCCCAGCAGGTGG	0.527													61	71	---	---	---	---	PASS	A	54741805	A	A	54741805	2	1	71	1	0	0	0	0	0	0	0	1	3741	610	22	3		3	COPZ1	12	54741805	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	26921707	54741805	79110090	120	27554										
MMP19	4327	broad.mit.edu	37	chr12	56232466	56232466	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gtgggcactgggggcacagtGggcagctctgtctcttcttc	15	11	3	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr12:56232466G>T	uc001sib.2	-	6	940	c.819C>A	c.(817-819)CCC>CCA	p.P273P	MMP19_uc001sia.2_5'UTR|MMP19_uc001sid.2_RNA|MMP19_uc010spw.1_Silent_p.P191P	NM_002429	NP_002420	Q99542	MMP19_HUMAN	matrix metalloproteinase 19 isoform rasi-1	273					angiogenesis|cell differentiation|collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)	1						GGGGCACAGTGGGCAGCTCTG	0.552													54	31	---	---	---	---	PASS	T	56232466	T	T	56232466	2	4	71	1	0	0	0	0	0	0	0	1	9657	1335	47	3		3	MMP19	12	56232466	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	1490661	56232466	77619429	121	27555										
KIF5A	3798	broad.mit.edu	37	chr12	57963425	57963425	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gacaaaggcccagaaggagaCgattgcgaagctggaggctg	16	8	0	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr12:57963425C>T	uc001sor.1	+	11	1284	c.1076C>T	c.(1075-1077)ACG>ATG	p.T359M	KIF5A_uc010srr.1_Missense_Mutation_p.T270M	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	359					blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						cagaaggagaCGATTGCGAAG	0.413													48	22	---	---	---	---	PASS	T	57963425	T	T	57963425	3	4	71	1	0	0	0	0	1	0	0	0	8305	536	19	1	1118	1	KIF5A	12	57963425	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	1730959	57963425	75888470	122	27556										
GRIP1	23426	broad.mit.edu	37	chr12	66786489	66786489	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tcttaattttcaaggtgacaGtctctcctgccatctgtaac	6	11	4	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr12:66786489G>T	uc001stk.2	-	17	2322	c.2081C>A	c.(2080-2082)ACT>AAT	p.T694N	GRIP1_uc010sta.1_Missense_Mutation_p.T638N|GRIP1_uc001stj.2_Missense_Mutation_p.T476N|GRIP1_uc001stl.1_Missense_Mutation_p.T586N|GRIP1_uc001stm.2_Missense_Mutation_p.T694N	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	746	PDZ 6.				androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		CAAGGTGACAGTCTCTCCTGC	0.428													107	57	---	---	---	---	PASS	T	66786489	T	T	66786489	3	4	71	1	0	0	0	0	1	0	0	0	6787	1029	36	3	1181	3	GRIP1	12	66786489	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	8823064	66786489	67065406	123	27557										
C12orf50	160419	broad.mit.edu	37	chr12	88420378	88420378	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cccagaagcatgaaatgctgCagttttgctagataaaagga	10	7	0	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr12:88420378C>A	uc001tam.1	-	3	188	c.20G>T	c.(19-21)TGC>TTC	p.C7F	C12orf50_uc001tan.2_Missense_Mutation_p.C61F	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	7										skin(2)|ovary(1)	3						TGAAATGCTGCAGTTTTGCTA	0.368													4	52	---	---	---	---	PASS	A	88420378	A	A	88420378	3	1	71	1	0	0	0	0	1	0	0	0	1695	710	25	3	1268	3	C12orf50	12	88420378	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	21633889	88420378	45431517	124	27558										
GPR133	283383	broad.mit.edu	37	chr12	131488796	131488796	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	attaccgcttcccggcccacGggcagagcttcatccagatc	9	16	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr12:131488796G>T	uc001uit.3	+	11	1769	c.1210G>T	c.(1210-1212)GGG>TGG	p.G404W	GPR133_uc010tbm.1_Missense_Mutation_p.G436W	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	404	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		CCCGGCCCACGGGCAGAGCTT	0.622													28	15	---	---	---	---	PASS	T	131488796	T	T	131488796	3	4	71	1	0	0	0	0	1	0	0	0	6643	1116	39	1	1252	1	GPR133	12	131488796	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	43068418	131488796	2363099	125	27559										
RB1	5925	broad.mit.edu	37	chr13	48916852	48916852	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agaaaaacatagaaatcaggTaaagtttcttgtataaatat	6	3	2	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr13:48916852T>G	uc001vcb.2	+	3	546	c.380_splice	c.e3+2	p.S127_splice	RB1_uc010acs.1_Intron	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1						androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(4)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AGAAATCAGGTAAAGTTTCTT	0.343		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			49	26	---	---	---	---	PASS	G	48916852	G	G	48916852	5	3	71	1	0	0	0	0	0	0	1	0	13098	1652	57	5	392	5	RB1	13	48916852	Splice_Site	SNP	T	TCGA-34-5240-01A-01D-1441-08		48916852	66253026	126	27560										
ERCC5	2073	broad.mit.edu	37	chr13	103514619	103514619	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggcaggcccgtgggaggaacGcacctgctgctgtagacgaa	16	11	0	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr13:103514619G>A	uc001vpw.2	+	8	1563	c.1120G>A	c.(1120-1122)GCA>ACA	p.A374T	ERCC5_uc001vpu.1_Missense_Mutation_p.A828T|ERCC5_uc010tjb.1_Missense_Mutation_p.A374T|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Missense_Mutation_p.A206T	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	374					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					TGGGAGGAACGCACCTGCTGC	0.522			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				25	56	---	---	---	---	PASS	A	103514619	A	A	103514619	3	1	71	1	0	0	0	0	1	0	0	0	5216	1087	38	1	1150	1	ERCC5	13	103514619	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	54597767	103514619	11655259	127	27561										
SHC4	399694	broad.mit.edu	37	chr15	49254968	49254968	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gggggatcaaggtgcacagtGgggtggggctctcctgcgac	19	9	2	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr15:49254968G>A	uc001zxb.1	-	1	674	c.245C>T	c.(244-246)CCA>CTA	p.P82L		NM_203349	NP_976224	Q6S5L8	SHC4_HUMAN	rai-like protein	82	CH2.				intracellular signal transduction	cell junction|postsynaptic membrane				ovary(3)|pancreas(2)	5		all_lung(180;0.00466)		all cancers(107;9.4e-08)|GBM - Glioblastoma multiforme(94;5.94e-07)		GGTGCACAGTGGGGTGGGGCT	0.632													25	112	---	---	---	---	PASS	A	49254968	A	A	49254968	3	1	71	1	0	0	0	0	1	0	0	0	14273	1348	47	3	1695	3	SHC4	15	49254968	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08		49254968	53276424	128	27562										
ETFA	2108	broad.mit.edu	37	chr15	76588074	76588074	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tactctgaaatcgtagcaatGaggcctaaaaagagcaaaaa	8	7	1	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr15:76588074G>T	uc002bbt.2	-	2	125	c.44C>A	c.(43-45)TCA>TAA	p.S15*	ETFA_uc010bkq.1_Intron|ETFA_uc002bbu.1_Nonsense_Mutation_p.S15*	NM_000126	NP_000117	P13804	ETFA_HUMAN	electron transfer flavoprotein, alpha	15					respiratory electron transport chain|transport	mitochondrial matrix	electron carrier activity|flavin adenine dinucleotide binding|oxidoreductase activity				0						TCGTAGCAATGAGGCCTAAAA	0.358													48	46	---	---	---	---	PASS	T	76588074	T	T	76588074	4	4	71	1	0	0	0	0	0	1	0	0	5269	1294	45	2	1001	2	ETFA	15	76588074	Nonsense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	27333106	76588074	25943318	129	27563										
NTRK3	4916	broad.mit.edu	37	chr15	88472482	88472482	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aagtccccaatcttcactagCagattcgctccaaccaggca	6	15	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr15:88472482C>T	uc002bme.1	-	16	2235	c.2073G>A	c.(2071-2073)CTG>CTA	p.L691L	NTRK3_uc002bmh.2_Silent_p.L683L|NTRK3_uc002bmf.1_Silent_p.L691L|NTRK3_uc010upl.1_Silent_p.L593L|NTRK3_uc010bnh.1_Silent_p.L683L	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	691	Cytoplasmic (Potential).|Protein kinase.				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)			TCTTCACTAGCAGATTCGCTC	0.552			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			102	64	---	---	---	---	PASS	T	88472482	T	T	88472482	2	4	71	1	0	0	0	0	0	0	0	1	10708	697	25	3		3	NTRK3	15	88472482	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	11884408	88472482	14058910	130	27564										
ZNF710	374655	broad.mit.edu	37	chr15	90623046	90623046	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gccatgaaagagatggcctaCtacaatgtgctatagcgcaa	10	9	0	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr15:90623046C>A	uc002bov.1	+	5	2103	c.1980C>A	c.(1978-1980)TAC>TAA	p.Y660*		NM_198526	NP_940928	Q8N1W2	ZN710_HUMAN	zinc finger protein 710	660					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	Melanoma(11;0.00551)|Lung NSC(78;0.0196)|all_lung(78;0.04)		BRCA - Breast invasive adenocarcinoma(143;0.00769)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.129)			AGATGGCCTACTACAATGTGC	0.632													3	99	---	---	---	---	PASS	A	90623046	A	A	90623046	4	1	71	1	0	0	0	0	0	1	0	0	18112	576	20	3	1994	3	ZNF710	15	90623046	Nonsense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	2150564	90623046	11908346	131	27565										
LRRK1	79705	broad.mit.edu	37	chr15	101586211	101586211	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tcctgccccatctccttccaTctaaacctggcctggacacc	5	19	2	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr15:101586211T>G	uc002bwr.2	+	21	3308	c.2989T>G	c.(2989-2991)TCT>GCT	p.S997A	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	997					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TCTCCTTCCATCTAAACCTGG	0.587													47	223	---	---	---	---	PASS	G	101586211	G	G	101586211	3	3	71	1	0	0	0	0	1	0	0	0	9032	1435	50	5	3067	5	LRRK1	15	101586211	Missense_Mutation	SNP	T	TCGA-34-5240-01A-01D-1441-08	10963165	101586211	945181	132	27566										
WDR90	197335	broad.mit.edu	37	chr16	712030	712030	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gcgtgccggccgctgcttctTgtcctgggaggcggatgacg	17	12	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr16:712030T>C	uc002cii.1	+	32	4058	c.4004T>C	c.(4003-4005)TTG>TCG	p.L1335S	WDR90_uc002cij.1_Intron|WDR90_uc002cik.1_Missense_Mutation_p.L862S|WDR90_uc002cil.1_RNA|WDR90_uc002cim.1_Missense_Mutation_p.L509S|WDR90_uc002cin.1_5'UTR|WDR90_uc010uul.1_5'Flank|WDR90_uc002cio.1_5'Flank|WDR90_uc010bqx.1_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	1335	WD 16.									ovary(1)	1		Hepatocellular(780;0.0218)				CGCTGCTTCTTGTCCTGGGAG	0.662													24	43	---	---	---	---	PASS	C	712030	C	C	712030	3	2	71	1	0	0	0	0	1	0	0	0	17334	1821	63	5	4130	5	WDR90	16	712030	Missense_Mutation	SNP	T	TCGA-34-5240-01A-01D-1441-08		712030	89642723	133	27567										
FAM86A	196483	broad.mit.edu	37	chr16	5141863	5141863	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ctccgccagcgcttcatacaGctcgtccaaaggctctgtgt	9	15	2	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr16:5141863G>T	uc002cyo.2	-	4	323	c.274C>A	c.(274-276)CTG>ATG	p.L92M	FAM86A_uc002cyp.2_Intron	NM_201400	NP_958802	Q96G04	FA86A_HUMAN	hypothetical protein LOC196483 isoform 1	92											0						GCTTCATACAGCTCGTCCAAA	0.527													7	112	---	---	---	---	PASS	T	5141863	T	T	5141863	3	4	71	1	0	0	0	0	1	0	0	0	5643	962	34	3	738	3	FAM86A	16	5141863	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	4429833	5141863	85212890	134	27568										
C16orf82	162083	broad.mit.edu	37	chr16	27078353	27078353	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agctgccccccatttttctcGagggagaaaaaggggaatcc	11	11	1	1	rs143151440	by1000genomes	TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr16:27078353G>C	uc010vcm.1	+	1	135	c.37G>C	c.(37-39)GAG>CAG	p.E13Q		NM_001145545	NP_001139017	Q7Z2V1	TNT_HUMAN	hypothetical protein LOC162083	76											0						CATTTTTCTCGAGGGAGAAAA	0.592													25	27	---	---	---	---	PASS	C	27078353	C	C	27078353	3	2	71	1	0	0	0	0	1	0	0	0	1838	1059	37	2	39	2	C16orf82	16	27078353	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	21936490	27078353	63276400	135	27569										
C16orf54	283897	broad.mit.edu	37	chr16	29755978	29755978	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	atctgtcagcagggggaccgCagagccataccagtcctcag	12	13	3	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr16:29755978C>G	uc002dtp.2	-	2	404	c.295G>C	c.(295-297)GCG>CCG	p.A99P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|uc002dtq.1_5'Flank	NM_175900	NP_787096	Q6UWD8	CP054_HUMAN	hypothetical protein LOC283897	99						integral to membrane					0						AGGGGGACCGCAGAGCCATAC	0.682													3	4	---	---	---	---	PASS	G	29755978	G	G	29755978	3	3	71	1	0	0	0	0	1	0	0	0	1819	710	25	4	383	4	C16orf54	16	29755978	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	2677625	29755978	60598775	136	27570										
ZNF48	197407	broad.mit.edu	37	chr16	30409782	30409782	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gatccccagcccacccccacCtcctctgggcaccagccccc	6	25	1	0	rs144019727		TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr16:30409782C>T	uc002dya.1	+	2	1270	c.1211C>T	c.(1210-1212)CCT>CTT	p.P404L	ZNF48_uc002dxz.1_Missense_Mutation_p.P281L	NM_152652	NP_689865	Q96MX3	ZNF48_HUMAN	zinc finger protein 48	404	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCACCCCCACCTCCTCTGGGC	0.667													12	40	---	---	---	---	PASS	T	30409782	T	T	30409782	3	4	71	1	0	0	0	0	1	0	0	0	17931	681	24	3	1217	3	ZNF48	16	30409782	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	653804	30409782	59944971	137	27571										
CDH8	1006	broad.mit.edu	37	chr16	61689381	61689381	+	Frame_Shift_Del	DEL	C	-	-													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aggaaatacgtacctaacagCaaaatgatgcatgctaatat							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr16:61689381delC	uc002eog.1	-	11	2151	c.1899delG	c.(1897-1899)TTGfs	p.L633fs		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	633	Helical; (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TACCTAACAGCAAAATGATGC	0.428													26	53	---	---	---	---		-	61689381	-	-	61689381	7	5	71	1	0	1	0	1	0	0	0	0	3116	709	25	0	508	0	CDH8	16	61689381	Frame_Shift_Del	DEL	C	TCGA-34-5240-01A-01D-1441-08	31279599	61689381	28665372	138	27572										
ZFHX3	463	broad.mit.edu	37	chr16	72991632	72991636	+	Frame_Shift_Del	DEL	GCCAG	-	-													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ataatcacacacctcgcaccGccaggtgggtttggtttttg							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr16:72991632_72991636delGCCAG	uc002fck.2	-	2	3082_3086	c.2409_2413delCTGGC	c.(2407-2415)ACCTGGCGGfs	p.T803fs	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	803_805	C2H2-type 5; atypical.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ACCTCGCACCGCCAGGTGGGTTTGG	0.439													53	54	---	---	---	---		-	72991636	-	-	72991632	7	5	71	1	0	1	0	1	0	0	0	0	17631	1086	38	0	8734	0	ZFHX3	16	72991632	Frame_Shift_Del	DEL	GCCAG	TCGA-34-5240-01A-01D-1441-08	11302251	72991632	17363121	139	27573										
CDH15	1013	broad.mit.edu	37	chr16	89256738	89256738	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aggcggctgcccttagggctGagcggggccaggccaaggtc	18	12	0	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr16:89256738G>C	uc002fmt.2	+	8	1143	c.1066G>C	c.(1066-1068)GAG>CAG	p.E356Q		NM_004933	NP_004924	P55291	CAD15_HUMAN	cadherin 15 preproprotein	356	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	calcium ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0261)		CCTTAGGGCTGAGCGGGGCCA	0.637													10	26	---	---	---	---	PASS	C	89256738	C	C	89256738	3	2	71	1	0	0	0	0	1	0	0	0	3100	1291	45	2	1096	2	CDH15	16	89256738	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	16265106	89256738	1098015	140	27574										
TP53	7157	broad.mit.edu	37	chr17	7577548	7577548	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gatgggcctccggttcatgcCgcccatgcaggaactgttac	12	13	1	0	rs28934575		TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr17:7577548C>T	uc002gim.2	-	7	927	c.733G>A	c.(733-735)GGC>AGC	p.G245S	TP53_uc002gig.1_Missense_Mutation_p.G245S|TP53_uc002gih.2_Missense_Mutation_p.G245S|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G113S|TP53_uc010cng.1_Missense_Mutation_p.G113S|TP53_uc002gii.1_Missense_Mutation_p.G113S|TP53_uc010cnh.1_Missense_Mutation_p.G245S|TP53_uc010cni.1_Missense_Mutation_p.G245S|TP53_uc002gij.2_Missense_Mutation_p.G245S|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.G152S|TP53_uc002gio.2_Missense_Mutation_p.G113S	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	245	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		G -> N (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> A (in sporadic cancers; somatic mutation).|G -> V (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> R (in sporadic cancers; somatic mutation).|G -> E (in a sporadic cancer; somatic mutation).|G -> D (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> H (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|G -> L (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G245S(274)|p.G245D(93)|p.G245V(50)|p.G245C(47)|p.G245R(10)|p.G245A(8)|p.0?(7)|p.G245G(3)|p.G245fs*2(3)|p.G245N(2)|p.G245H(1)|p.G245L(1)|p.G244fs*17(1)|p.G245F(1)|p.G245E(1)|p.C242_M246>L(1)|p.C238_M246delCNSSCMGGM(1)|p.S241_G245delSCMGG(1)|p.C242fs*98(1)|p.G245fs*22(1)|p.M243fs*18(1)|p.G245del(1)|p.G245fs*14(1)|p.G245fs*17(1)|p.G245fs*16(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)		CGGTTCATGCCGCCCATGCAG	0.577	G245S(SKLMS1_SOFT_TISSUE)|G245S(LS1034_LARGE_INTESTINE)|G245S(NUGC2_STOMACH)|G245S(PANC0403_PANCREAS)|G245S(SKMEL2_SKIN)	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)			32	25	---	---	---	---	PASS	T	7577548	T	T	7577548	3	4	71	1	0	0	0	0	1	0	0	0	16378	652	23	1	557	1	TP53	17	7577548	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08		7577548	73617662	141	27575										
CYB561	1534	broad.mit.edu	37	chr17	61513431	61513431	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tcaccaaccagggcgatgacGagcgcaaagatgtgcagcag	13	11	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr17:61513431G>A	uc002jap.2	-	2	687	c.285C>T	c.(283-285)CTC>CTT	p.L95L	CYB561_uc002jaq.2_Silent_p.L141L|CYB561_uc002jar.2_Silent_p.L95L|CYB561_uc002jas.2_Silent_p.L95L|CYB561_uc010ddt.2_Silent_p.L95L|CYB561_uc002jat.2_Silent_p.L95L|CYB561_uc010wpf.1_Silent_p.L95L|CYB561_uc010wpg.1_Silent_p.L66L	NM_001915	NP_001906	P49447	CY561_HUMAN	cytochrome b-561	95	Helical; (Potential).|Cytochrome b561.				electron transport chain|transport	integral to plasma membrane	cytochrome-b5 reductase activity|ferric-chelate reductase activity|metal ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(1115;0.0689)		GGGCGATGACGAGCGCAAAGA	0.617													68	15	---	---	---	---	PASS	A	61513431	A	A	61513431	2	1	71	1	0	0	0	0	0	0	0	1	4119	1045	37	2		2	CYB561	17	61513431	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	53935883	61513431	19681779	142	27576										
CD300LB	124599	broad.mit.edu	37	chr17	72522134	72522134	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cacttaatgtaggtctcccaTccttgcttatagtggcattg	8	10	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr17:72522134T>A	uc002jkx.2	-	2	247	c.234A>T	c.(232-234)GGA>GGT	p.G78G	CD300LB_uc010wqz.1_Silent_p.G78G	NM_174892	NP_777552	A8K4G0	CLM7_HUMAN	CD300 molecule-like family member b	41	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)	1						AGGTCTCCCATCCTTGCTTAT	0.547													268	204	---	---	---	---	PASS	A	72522134	A	A	72522134	2	1	71	1	0	0	0	0	0	0	0	1	2999	1422	50	5		5	CD300LB	17	72522134	Silent	SNP	T	TCGA-34-5240-01A-01D-1441-08	11008703	72522134	8673076	143	27577										
DCC	1630	broad.mit.edu	37	chr18	50683760	50683760	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agtgtcctcccttcggctccCagagatgtggtccctgtctt	10	14	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr18:50683760C>A	uc002lfe.1	+	8	1883	c.1296C>A	c.(1294-1296)CCC>CCA	p.P432P	DCC_uc010xdr.1_Silent_p.P280P|DCC_uc010dpf.1_Silent_p.P87P	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	432	Extracellular (Potential).|Fibronectin type-III 1.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		CTTCGGCTCCCAGAGATGTGG	0.532													116	60	---	---	---	---	PASS	A	50683760	A	A	50683760	2	1	71	1	0	0	0	0	0	0	0	1	4282	581	21	3		3	DCC	18	50683760	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08		50683760	27393488	144	27578										
ZNF407	55628	broad.mit.edu	37	chr18	72343085	72343085	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tgaagacggtgggcctgtatCtgatgtgatagcaagtttcc	13	7	1	4			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr18:72343085C>T	uc002llw.2	+	1	167	c.110C>T	c.(109-111)TCT>TTT	p.S37F	ZNF407_uc010xfc.1_Missense_Mutation_p.S37F|ZNF407_uc010dqu.1_Missense_Mutation_p.S37F|ZNF407_uc002llu.2_Missense_Mutation_p.S36F	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	37					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		GGGCCTGTATCTGATGTGATA	0.378													13	33	---	---	---	---	PASS	T	72343085	T	T	72343085	3	4	71	1	0	0	0	0	1	0	0	0	17884	913	32	2	112	2	ZNF407	18	72343085	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	21659325	72343085	5734163	145	27579										
MED16	10025	broad.mit.edu	37	chr19	875420	875420	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agggcgacagcttgcagagcGaggccttcatggccaggatc	15	11	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:875420G>A	uc002lqd.1	-	10	1746	c.1595C>T	c.(1594-1596)TCG>TTG	p.S532L	MED16_uc010drw.1_Missense_Mutation_p.S357L|MED16_uc002lqe.2_Missense_Mutation_p.S521L|MED16_uc002lqf.2_Missense_Mutation_p.S521L|MED16_uc010xfv.1_Intron|MED16_uc010xfw.1_Missense_Mutation_p.S452L|MED16_uc010xfx.1_Missense_Mutation_p.S377L|MED16_uc010xfy.1_Intron|MED16_uc010xfz.1_5'Flank	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	532					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTGCAGAGCGAGGCCTTCAT	0.667													3	54	---	---	---	---	PASS	A	875420	A	A	875420	3	1	71	1	0	0	0	0	1	0	0	0	9434	1059	37	2	1066	2	MED16	19	875420	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08		875420	58253563	146	27580										
MUC16	94025	broad.mit.edu	37	chr19	8996458	8996458	+	Missense_Mutation	SNP	G	T	T													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cagggtggtgggtgcagatgGcatccactccagtggctgtc							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:8996458G>T	uc002mkp.2	-	61	41318	c.41114C>A	c.(41113-41115)GCC>GAC	p.A13705D	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.A522D|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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						GGTGCAGATGGCATCCACTCC	0.552													9	73	---	---	---	---	PASS	T	8996458	T	T	8996458	3	4	71	1	0	0	0	0	1	0	0	0	9973	1203	42	3	2505	3	MUC16	19	8996458	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	8121038	8996458	50132525	147	27581	575	2								
MUC16	94025	broad.mit.edu	37	chr19	8996459	8996459	+	Missense_Mutation	SNP	C	T	T													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agggtggtgggtgcagatggCatccactccagtggctgtcc							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:8996459C>T	uc002mkp.2	-	61	41317	c.41113G>A	c.(41113-41115)GCC>ACC	p.A13705T	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.A522T|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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						GTGCAGATGGCATCCACTCCA	0.547													37	57	---	---	---	---	PASS	T	8996459	T	T	8996459	3	4	71	1	0	0	0	0	1	0	0	0	9973	710	25	3	2506	3	MUC16	19	8996459	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	1	8996459	50132524	148	27582	575	2								
MUC16	94025	broad.mit.edu	37	chr19	9062192	9062192	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tcagagctgctggtctccctCaatccagaagtcagggagga	12	11	4	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:9062192C>T	uc002mkp.2	-	3	25458	c.25254G>A	c.(25252-25254)TTG>TTA	p.L8418L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8420	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGGTCTCCCTCAATCCAGAAG	0.522													29	137	---	---	---	---	PASS	T	9062192	T	T	9062192	2	4	71	1	0	0	0	0	0	0	0	1	9973	825	29	2		2	MUC16	19	9062192	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	65733	9062192	50066791	149	27583										
COL5A3	50509	broad.mit.edu	37	chr19	10088094	10088094	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tccagggggtcccagaggccCcaggggccctgggatcccat	15	15	0	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:10088094C>T	uc002mmq.1	-	43	3267	c.3181G>A	c.(3181-3183)GGG>AGG	p.G1061R		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1061	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)			CCCAGAGGCCCCAGGGGCCCT	0.652													28	228	---	---	---	---	PASS	T	10088094	T	T	10088094	3	4	71	1	0	0	0	0	1	0	0	0	3698	623	22	3	2156	3	COL5A3	19	10088094	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	1025902	10088094	49040889	150	27584										
KANK2	25959	broad.mit.edu	37	chr19	11304017	11304017	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggggaggtccaggcagagctCgctgcgaccccggcccgctg	17	15	0	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:11304017C>T	uc010dxv.2	-	6	1297	c.739G>A	c.(739-741)GAG>AAG	p.E247K	KANK2_uc002mqm.2_Missense_Mutation_p.E247K|KANK2_uc002mqo.3_Missense_Mutation_p.E247K|KANK2_uc002mqp.1_Missense_Mutation_p.E56K|KANK2_uc002mqq.2_Missense_Mutation_p.E247K	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	247											0						AGGCAGAGCTCGCTGCGACCC	0.647													34	43	---	---	---	---	PASS	T	11304017	T	T	11304017	3	4	71	1	0	0	0	0	1	0	0	0	7977	893	31	2	1880	2	KANK2	19	11304017	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	1215923	11304017	47824966	151	27585										
ZNF439	90594	broad.mit.edu	37	chr19	11978607	11978607	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	actcacactggagagaaaccGtatgaatgtaaacaatgtgg	10	7	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:11978607G>A	uc002mss.2	+	3	851	c.723G>A	c.(721-723)CCG>CCA	p.P241P	ZNF439_uc002msr.2_Silent_p.P105P	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	241					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GAGAGAAACCGTATGAATGTA	0.363													97	107	---	---	---	---	PASS	A	11978607	A	A	11978607	2	1	71	1	0	0	0	0	0	0	0	1	17908	1132	40	1		1	ZNF439	19	11978607	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	674590	11978607	47150376	152	27586										
CCDC105	126402	broad.mit.edu	37	chr19	15131373	15131373	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggacaaggttctggagcaggCcagacgccactcatgggtga	15	10	2	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:15131373C>T	uc002nae.2	+	3	875	c.776C>T	c.(775-777)GCC>GTC	p.A259V		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	259					microtubule cytoskeleton organization	microtubule				ovary(1)	1						CTGGAGCAGGCCAGACGCCAC	0.612													24	37	---	---	---	---	PASS	T	15131373	T	T	15131373	3	4	71	1	0	0	0	0	1	0	0	0	2740	739	26	3	786	3	CCDC105	19	15131373	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	3152766	15131373	43997610	153	27587										
FAM129C	199786	broad.mit.edu	37	chr19	17644478	17644478	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ttcccagcgagaatatctccGccttttggatgctctctgcc	8	14	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:17644478G>T	uc010xpr.1	+	5	626	c.488G>T	c.(487-489)CGC>CTC	p.R163L	FAM129C_uc010xpq.1_Missense_Mutation_p.R163L|FAM129C_uc010xps.1_Missense_Mutation_p.R132L|FAM129C_uc010xpt.1_RNA	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	163											0						GAATATCTCCGCCTTTTGGAT	0.438													37	86	---	---	---	---	PASS	T	17644478	T	T	17644478	3	4	71	1	0	0	0	0	1	0	0	0	5438	1087	38	1	506	1	FAM129C	19	17644478	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	2513105	17644478	41484505	154	27588										
ZNF708	7562	broad.mit.edu	37	chr19	21476637	21476637	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	accttatgattagtaaggtgTgaggaccggttaaaagcttt	11	5	0	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:21476637T>A	uc002npq.1	-	4	1329	c.1131A>T	c.(1129-1131)TCA>TCT	p.S377S	ZNF708_uc002npr.1_Silent_p.S313S|ZNF708_uc010ecs.1_Silent_p.S313S	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	377	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						TAGTAAGGTGTGAGGACCGGT	0.353													44	109	---	---	---	---	PASS	A	21476637	A	A	21476637	2	1	71	1	0	0	0	0	0	0	0	1	18109	1683	59	5		5	ZNF708	19	21476637	Silent	SNP	T	TCGA-34-5240-01A-01D-1441-08	3832159	21476637	37652346	155	27589										
ZNF676	163223	broad.mit.edu	37	chr19	22363358	22363358	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ttgtagggcttctcttcagcAtgaattgccttatgtgtatt	9	7	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:22363358A>G	uc002nqs.1	-	3	1479	c.1161T>C	c.(1159-1161)CAT>CAC	p.H387H		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	387	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				TCTCTTCAGCATGAATTGCCT	0.398													71	112	---	---	---	---	PASS	G	22363358	G	G	22363358	2	3	71	1	0	0	0	0	0	0	0	1	18080	214	8	5		5	ZNF676	19	22363358	Silent	SNP	A	TCGA-34-5240-01A-01D-1441-08	886721	22363358	36765625	156	27590										
ZNF676	163223	broad.mit.edu	37	chr19	22364229	22364229	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tctggttaagtttattataaCcttctttgtgcacgttacac	6	8	2	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:22364229C>A	uc002nqs.1	-	3	608	c.290G>T	c.(289-291)GGT>GTT	p.G97V		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	97					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				TTTATTATAACCTTCTTTGTG	0.308													65	138	---	---	---	---	PASS	A	22364229	A	A	22364229	3	1	71	1	0	0	0	0	1	0	0	0	18080	507	18	3	1480	3	ZNF676	19	22364229	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	871	22364229	36764754	157	27591										
KIRREL2	84063	broad.mit.edu	37	chr19	36351849	36351849	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	caaagccggagcccgtgtccGtggacgtgggggaagacgct	17	11	0	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:36351849G>A	uc002ocb.3	+	8	1179	c.967G>A	c.(967-969)GTG>ATG	p.V323M	KIRREL2_uc002obz.3_Missense_Mutation_p.V323M|KIRREL2_uc002oca.3_Missense_Mutation_p.V273M|KIRREL2_uc002occ.3_Missense_Mutation_p.V270M|KIRREL2_uc002ocd.3_Missense_Mutation_p.V320M	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	323	Extracellular (Potential).|Ig-like C2-type 4.				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GCCCGTGTCCGTGGACGTGGG	0.667													17	48	---	---	---	---	PASS	A	36351849	A	A	36351849	3	1	71	1	0	0	0	0	1	0	0	0	8325	1145	40	1	997	1	KIRREL2	19	36351849	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	13987620	36351849	22777134	158	27592										
SIPA1L3	23094	broad.mit.edu	37	chr19	38591796	38591796	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggccccgcctttgaggagttCctctccctcatcggcgagaa	11	15	2	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:38591796C>T	uc002ohk.2	+	6	2468	c.1959C>T	c.(1957-1959)TTC>TTT	p.F653F		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	653	Rap-GAP.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TTGAGGAGTTCCTCTCCCTCA	0.478													5	9	---	---	---	---	PASS	T	38591796	T	T	38591796	2	4	71	1	0	0	0	0	0	0	0	1	14331	854	30	2		2	SIPA1L3	19	38591796	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	2239947	38591796	20537187	159	27593										
CYP2A6	1548	broad.mit.edu	37	chr19	41351257	41351257	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tgactctgcgggccaaactcAtggggatcacgtctccaaat	10	12	4	1	rs144689858		TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:41351257A>G	uc002opl.3	-	7	1124	c.1103T>C	c.(1102-1104)ATG>ACG	p.M368T	CYP2A6_uc010ehe.1_Missense_Mutation_p.M164T	NM_000762	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A,	368					coumarin catabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|enzyme binding|heme binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Chlorzoxazone(DB00356)|Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Formoterol(DB00983)|Halothane(DB01159)|Letrozole(DB01006)|Methoxsalen(DB00553)|Metyrapone(DB01011)|Nicotine(DB00184)|Pilocarpine(DB01085)|Tolbutamide(DB01124)|Tranylcypromine(DB00752)	GGCCAAACTCATGGGGATCAC	0.567													6	244	---	---	---	---	PASS	G	41351257	G	G	41351257	3	3	71	1	0	0	0	0	1	0	0	0	4162	217	8	5	393	5	CYP2A6	19	41351257	Missense_Mutation	SNP	A	TCGA-34-5240-01A-01D-1441-08	2759461	41351257	17777726	160	27594										
AXL	558	broad.mit.edu	37	chr19	41726677	41726677	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cattggcttcgggatggacaGatcctggagctcgcggacag	15	10	0	1	rs55690306		TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:41726677G>A	uc010ehj.2	+	2	412	c.222G>A	c.(220-222)CAG>CAA	p.Q74Q	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Silent_p.Q74Q|AXL_uc010ehk.2_Silent_p.Q74Q	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	74	Extracellular (Potential).|Interaction with GAS6.|Ig-like C2-type 1.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						GGGATGGACAGATCCTGGAGC	0.622													22	69	---	---	---	---	PASS	A	41726677	A	A	41726677	2	1	71	1	0	0	0	0	0	0	0	1	1238	933	33	2		2	AXL	19	41726677	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	375420	41726677	17402306	161	27595										
NLRP5	126206	broad.mit.edu	37	chr19	56539488	56539488	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggcaggcttccatatccactCgctttggatgaagcgtttct	10	11	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr19:56539488C>A	uc002qmj.2	+	7	1889	c.1889C>A	c.(1888-1890)TCG>TAG	p.S630*	NLRP5_uc002qmi.2_Nonsense_Mutation_p.S611*	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	630						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)		CATATCCACTCGCTTTGGATG	0.562													47	34	---	---	---	---	PASS	A	56539488	A	A	56539488	4	1	71	1	0	0	0	0	0	1	0	0	10480	893	31	2	1915	2	NLRP5	19	56539488	Nonsense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	14812811	56539488	2589495	162	27596										
SIGLEC1	6614	broad.mit.edu	37	chr20	3670823	3670823	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tggagagtcaggctggcgagCggctcgctgtccactcggca	16	12	1	1	rs145129138	by1000genomes	TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr20:3670823C>T	uc002wja.2	-	18	4680	c.4680G>A	c.(4678-4680)CCG>CCA	p.P1560P	SIGLEC1_uc002wjb.1_Silent_p.P199P|SIGLEC1_uc002wiz.3_Silent_p.P1560P	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1560	Ig-like C2-type 16.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						GGCTGGCGAGCGGCTCGCTGT	0.657													4	4	---	---	---	---	PASS	T	3670823	T	T	3670823	2	4	71	1	0	0	0	0	0	0	0	1	14305	755	27	1		1	SIGLEC1	20	3670823	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08		3670823	59354697	163	27597										
KIAA1755	85449	broad.mit.edu	37	chr20	36854088	36854088	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tggaagaaatgaacccactcGgtgtggcagtaggggaaggg	17	6	0	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr20:36854088G>T	uc002xhy.1	-	8	2420	c.2148C>A	c.(2146-2148)ACC>ACA	p.T716T	KIAA1755_uc002xhx.1_5'Flank|KIAA1755_uc002xhz.1_Silent_p.T716T	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	716										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				GAACCCACTCGGTGTGGCAGT	0.582													27	39	---	---	---	---	PASS	T	36854088	T	T	36854088	2	4	71	1	0	0	0	0	0	0	0	1	8257	1103	39	1		1	KIAA1755	20	36854088	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	33183265	36854088	26171432	164	27598										
C20orf111	51526	broad.mit.edu	37	chr20	42831626	42831626	+	Frame_Shift_Del	DEL	A	-	-													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ccaactgtctttagatgcacAtgtggttttaggtttggtat							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr20:42831626delA	uc002xlk.2	-	3	303	c.166delT	c.(166-168)TGTfs	p.C56fs		NM_016470	NP_057554	Q9NX31	CT111_HUMAN	oxidative stress responsive 1	56											0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			TTAGATGCACATGTGGTTTTA	0.408													60	37	---	---	---	---		-	42831626	-	-	42831626	7	5	71	1	0	1	0	1	0	0	0	0	2080	217	8	0	720	0	C20orf111	20	42831626	Frame_Shift_Del	DEL	A	TCGA-34-5240-01A-01D-1441-08	5977538	42831626	20193894	165	27599										
SEMG2	6407	broad.mit.edu	37	chr20	43851856	43851856	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aaatgcaaaaggaaagtctgGtcaatctgcagatagcaaac	9	7	3	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr20:43851856G>T	uc010ggz.2	+	2	1640	c.1583G>T	c.(1582-1584)GGT>GTT	p.G528V	SEMG2_uc002xnk.2_Missense_Mutation_p.G528V|SEMG2_uc002xnl.2_Missense_Mutation_p.G408V	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	528	Repeat-rich region.|3-2.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				GGAAAGTCTGGTCAATCTGCA	0.383													35	46	---	---	---	---	PASS	T	43851856	T	T	43851856	3	4	71	1	0	0	0	0	1	0	0	0	14045	1261	44	3	1589	3	SEMG2	20	43851856	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	1020230	43851856	19173664	166	27600										
TSHZ2	128553	broad.mit.edu	37	chr20	51872569	51872569	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agcatcttctgattctacaaGcccagtttgcctcgagcctc	7	14	3	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr20:51872569G>T	uc002xwo.2	+	2	3528	c.2572G>T	c.(2572-2574)GCC>TCC	p.A858S		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	858	Homeobox; atypical.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GATTCTACAAGCCCAGTTTGC	0.493													38	72	---	---	---	---	PASS	T	51872569	T	T	51872569	3	4	71	1	0	0	0	0	1	0	0	0	16621	971	34	3	2578	3	TSHZ2	20	51872569	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	8020713	51872569	11152951	167	27601										
DOK5	55816	broad.mit.edu	37	chr20	53205081	53205081	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ccaaaaagcaccaagaaacaTgccatagggatttatttcaa	6	9	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr20:53205081T>C	uc002xwy.2	+	3	454	c.234T>C	c.(232-234)CAT>CAC	p.H78H	DOK5_uc010gin.2_5'UTR|DOK5_uc002xwz.2_5'UTR	NM_018431	NP_060901	Q9P104	DOK5_HUMAN	docking protein 5	78	PH.						insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)			CCAAGAAACATGCCATAGGGA	0.418													10	252	---	---	---	---	PASS	C	53205081	C	C	53205081	2	2	71	1	0	0	0	0	0	0	0	1	4700	1461	51	5		5	DOK5	20	53205081	Silent	SNP	T	TCGA-34-5240-01A-01D-1441-08	1332512	53205081	9820439	168	27602										
KCNQ2	3785	broad.mit.edu	37	chr20	62038507	62038507	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	acagggggcgcggccgggggCgccgagaagttcttctggcc	19	12	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr20:62038507C>T	uc002yey.1	-	17	2286	c.2109G>A	c.(2107-2109)GCG>GCA	p.A703A	KCNQ2_uc002yez.1_Silent_p.A672A|KCNQ2_uc002yfa.1_Silent_p.A685A|KCNQ2_uc002yfb.1_Silent_p.A675A	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	703	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	cggccgggggcgccgAGAAGT	0.602													3	4	---	---	---	---	PASS	T	62038507	T	T	62038507	2	4	71	1	0	0	0	0	0	0	0	1	8083	755	27	1		1	KCNQ2	20	62038507	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	8833426	62038507	987013	169	27603										
KRTAP21-1	337977	broad.mit.edu	37	chr21	32127623	32127623	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ttccatagccacagccacagCcagagccagagccatagcca	8	16	0	2	rs147233060	byFrequency	TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr21:32127623C>G	uc011adi.1	-	1	74	c.74G>C	c.(73-75)GGC>GCC	p.G25A		NM_181619	NP_853650	Q3LI58	KR211_HUMAN	keratin associated protein 21-1	25						intermediate filament				breast(1)	1						acagccacagccagagccaga	0.119													49	63	---	---	---	---	PASS	G	32127623	G	G	32127623	3	3	71	1	0	0	0	0	1	0	0	0	8538	739	26	4	167	4	KRTAP21-1	21	32127623	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08		32127623	16002272	170	27604										
BACE2	25825	broad.mit.edu	37	chr21	42613849	42613849	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	agccggcttgcccgttgctgGatctgggaccaacggaggta	15	11	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr21:42613849G>T	uc002yyw.2	+	4	1185	c.722G>T	c.(721-723)GGA>GTA	p.G241V	BACE2_uc002yyx.2_Missense_Mutation_p.G241V|BACE2_uc002yyy.2_Missense_Mutation_p.G241V	NM_012105	NP_036237	Q9Y5Z0	BACE2_HUMAN	beta-site APP-cleaving enzyme 2 isoform A	241	Extracellular (Potential).				membrane protein ectodomain proteolysis|negative regulation of amyloid precursor protein biosynthetic process|peptide hormone processing	cell surface|endoplasmic reticulum|endosome|Golgi apparatus|integral to membrane	aspartic-type endopeptidase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0251)				CCCGTTGCTGGATCTGGGACC	0.478													172	254	---	---	---	---	PASS	T	42613849	T	T	42613849	3	4	71	1	0	0	0	0	1	0	0	0	1282	1174	41	2	736	2	BACE2	21	42613849	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	10486226	42613849	5516046	171	27605										
LARGE	9215	broad.mit.edu	37	chr22	34046524	34046524	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gccaggctgagctgcctgcgGagggcgcggttctcctcctc	15	15	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr22:34046524G>A	uc003and.3	-	4	816	c.237C>T	c.(235-237)CTC>CTT	p.L79L	LARGE_uc003ane.3_Silent_p.L79L|LARGE_uc010gwp.2_Silent_p.L79L|LARGE_uc011ame.1_Silent_p.L11L|LARGE_uc011amf.1_Silent_p.L79L	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	79	Lumenal (Potential).|Potential.				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				GCTGCCTGCGGAGGGCGCGGT	0.692													65	113	---	---	---	---	PASS	A	34046524	A	A	34046524	2	1	71	1	0	0	0	0	0	0	0	1	8627	1161	41	2		2	LARGE	22	34046524	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08		34046524	17258042	172	27606										
TRIOBP	11078	broad.mit.edu	37	chr22	38121247	38121247	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	atggaacaatcccaggaattCatctccccatcgtactaaca	5	13	2	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr22:38121247C>T	uc003atr.2	+	7	2955	c.2684C>T	c.(2683-2685)TCA>TTA	p.S895L	TRIOBP_uc003atu.2_Missense_Mutation_p.S723L|TRIOBP_uc003atq.1_Missense_Mutation_p.S895L|TRIOBP_uc003ats.1_Missense_Mutation_p.S723L	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	895					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CCCAGGAATTCATCTCCCCAT	0.547													133	344	---	---	---	---	PASS	T	38121247	T	T	38121247	3	4	71	1	0	0	0	0	1	0	0	0	16550	838	29	2	2702	2	TRIOBP	22	38121247	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	4074723	38121247	13183319	173	27607										
MKL1	57591	broad.mit.edu	37	chr22	40816474	40816474	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cagtgaggtgctgttctgacGtgccagcccacagggcccag	14	13	1	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr22:40816474G>A	uc003ayv.1	-	8	1195	c.988C>T	c.(988-990)CGT>TGT	p.R330C	MKL1_uc003ayw.1_Missense_Mutation_p.R330C|MKL1_uc010gye.1_Missense_Mutation_p.R330C|MKL1_uc010gyf.1_Missense_Mutation_p.R280C	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	330					positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CTGTTCTGACGTGCCAGCCCA	0.657			T	RBM15	acute megakaryocytic leukemia								117	84	---	---	---	---	PASS	A	40816474	A	A	40816474	3	1	71	1	0	0	0	0	1	0	0	0	9601	1145	40	1	1827	1	MKL1	22	40816474	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	2695227	40816474	10488092	174	27608										
TTLL12	23170	broad.mit.edu	37	chr22	43564146	43564146	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aagttcacctccaggatctgCggctgcatcacccgccttcc	8	17	3	0	rs142420296	by1000genomes	TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chr22:43564146C>T	uc003bdq.2	-	14	1835	c.1803G>A	c.(1801-1803)CCG>CCA	p.P601P	TTLL12_uc003bdp.2_3'UTR|TTLL12_uc003bdr.1_Silent_p.P601P	NM_015140	NP_055955	Q14166	TTL12_HUMAN	tubulin tyrosine ligase-like family, member 12	601	TTL.				protein modification process		tubulin-tyrosine ligase activity			central_nervous_system(1)	1		Ovarian(80;0.221)|Glioma(61;0.222)				CCAGGATCTGCGGCTGCATCA	0.597													51	83	---	---	---	---	PASS	T	43564146	T	T	43564146	2	4	71	1	0	0	0	0	0	0	0	1	16722	755	27	1		1	TTLL12	22	43564146	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	2747672	43564146	7740420	175	27609										
CLCN4	1183	broad.mit.edu	37	chrX	10163115	10163115	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ccctgtggcagaaatggtcgGagctgctggtgaatcagtca	14	9	2	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:10163115G>T	uc004csy.3	+	5	839	c.409G>T	c.(409-411)GAG>TAG	p.E137*	CLCN4_uc011mid.1_Nonsense_Mutation_p.E43*	NM_001830	NP_001821	P51793	CLCN4_HUMAN	chloride channel 4	137						early endosome membrane|integral to membrane|late endosome membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						GAAATGGTCGGAGCTGCTGGT	0.557													23	123	---	---	---	---	PASS	T	10163115	T	T	10163115	4	4	71	1	0	0	0	0	0	1	0	0	3465	1175	41	2	419	2	CLCN4	23	10163115	Nonsense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08		10163115	145107445	176	27610										
TLR7	51284	broad.mit.edu	37	chrX	12906213	12906213	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	atgatgacagcaagtcacctCtatttctgggatgtgtggta	11	7	3	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:12906213C>G	uc004cvc.2	+	3	2725	c.2586C>G	c.(2584-2586)CTC>CTG	p.L862L		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	862	Cytoplasmic (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	CAAGTCACCTCTATTTCTGGG	0.398													69	264	---	---	---	---	PASS	G	12906213	G	G	12906213	2	3	71	1	0	0	0	0	0	0	0	1	15953	900	32	2		2	TLR7	23	12906213	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	2743098	12906213	142364347	177	27611										
ATXN3L	92552	broad.mit.edu	37	chrX	13337087	13337087	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gatgtcatcactgagatcacTctcaattgctctcgaacttg	7	11	5	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:13337087T>C	uc010ned.2	-	1	1432	c.967A>G	c.(967-969)AGT>GGT	p.S323G		NM_001135995	NP_001129467	Q9H3M9	ATX3L_HUMAN	ataxin 3-like	323					protein deubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ubiquitin-specific protease activity			lung(2)|ovary(2)|large_intestine(1)|skin(1)	6						CTGAGATCACTCTCAATTGCT	0.448													51	198	---	---	---	---	PASS	C	13337087	C	C	13337087	3	2	71	1	0	0	0	0	1	0	0	0	1214	1551	54	5	104	5	ATXN3L	23	13337087	Missense_Mutation	SNP	T	TCGA-34-5240-01A-01D-1441-08	430874	13337087	141933473	178	27612										
SYTL5	94122	broad.mit.edu	37	chrX	37984550	37984550	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tgattgttttttctcatgcaGctacctgctccctgatgata	7	10	1	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:37984550G>T	uc004ddu.2	+	17	2376	c.1842_splice	c.e17-1	p.G614_splice	SYTL5_uc004ddv.2_Splice_Site_p.G614_splice|SYTL5_uc004ddx.2_Splice_Site_p.G636_splice	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1						intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						TTCTCATGCAGCTACCTGCTC	0.408													25	24	---	---	---	---	PASS	T	37984550	T	T	37984550	5	4	71	1	0	0	0	0	0	0	1	0	15483	985	34	3	1969	3	SYTL5	23	37984550	Splice_Site	SNP	G	TCGA-34-5240-01A-01D-1441-08	24647463	37984550	117286010	179	27613										
GPR82	27197	broad.mit.edu	37	chrX	41586456	41586456	+	Silent	SNP	T	C	C													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tacctgtcacaccttgtgacTgcaaacttacttgtgtgcag							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:41586456T>C	uc004dfs.1	+	3	417	c.177T>C	c.(175-177)ACT>ACC	p.T59T	CASK_uc004dfl.3_Intron|CASK_uc004dfm.3_Intron|CASK_uc004dfn.3_Intron|GPR82_uc004dft.2_Silent_p.T59T|GPR82_uc004dfu.1_RNA	NM_080817	NP_543007	Q96P67	GPR82_HUMAN	G protein-coupled receptor 82	59	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						ACCTTGTGACTGCAAACTTAC	0.378													27	118	---	---	---	---	PASS	C	41586456	C	C	41586456	2	2	71	1	0	0	0	0	0	0	0	1	6712	1567	55	5		5	GPR82	23	41586456	Silent	SNP	T	TCGA-34-5240-01A-01D-1441-08	3601906	41586456	113684104	180	27614	576	2								
GPR82	27197	broad.mit.edu	37	chrX	41586457	41586457	+	Missense_Mutation	SNP	G	T	T													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	acctgtcacaccttgtgactGcaaacttacttgtgtgcagt							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:41586457G>T	uc004dfs.1	+	3	418	c.178G>T	c.(178-180)GCA>TCA	p.A60S	CASK_uc004dfl.3_Intron|CASK_uc004dfm.3_Intron|CASK_uc004dfn.3_Intron|GPR82_uc004dft.2_Missense_Mutation_p.A60S|GPR82_uc004dfu.1_RNA	NM_080817	NP_543007	Q96P67	GPR82_HUMAN	G protein-coupled receptor 82	60	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						CCTTGTGACTGCAAACTTACT	0.373													25	121	---	---	---	---	PASS	T	41586457	T	T	41586457	3	4	71	1	0	0	0	0	1	0	0	0	6712	1319	46	3	180	3	GPR82	23	41586457	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	1	41586457	113684103	181	27615	576	2								
TIMM17B	10245	broad.mit.edu	37	chrX	48752384	48752384	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tctcaaccggtgccgaattcCctggggaaaggaaggaaggg	15	9	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:48752384C>G	uc004dlc.1	-	4	276	c.127G>C	c.(127-129)GGA>CGA	p.G43R	PQBP1_uc004dle.2_5'Flank|PQBP1_uc004dlf.2_5'Flank|PQBP1_uc004dlg.2_5'Flank|PQBP1_uc004dld.2_5'Flank|TIMM17B_uc004dla.1_Missense_Mutation_p.G93R|TIMM17B_uc004dlb.1_Missense_Mutation_p.G63R	NM_005834	NP_005825	O60830	TI17B_HUMAN	translocase of inner mitochondrial membrane 17	43					protein targeting to mitochondrion	integral to membrane|microtubule cytoskeleton|mitochondrial inner membrane presequence translocase complex	P-P-bond-hydrolysis-driven protein transmembrane transporter activity			ovary(1)	1						TGCCGAATTCCCTGGGGAAAG	0.542													4	24	---	---	---	---	PASS	G	48752384	G	G	48752384	3	3	71	1	0	0	0	0	1	0	0	0	15906	637	22	4	407	4	TIMM17B	23	48752384	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	7165927	48752384	106518176	182	27616										
WDR45	11152	broad.mit.edu	37	chrX	48935748	48935748	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cactcctcgaagtggctgttGagtcatggtgcaggattgtt	13	8	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:48935748G>A	uc004dmk.1	-	2	179	c.7C>T	c.(7-9)CAA>TAA	p.Q3*	PRAF2_uc011mmt.1_Nonsense_Mutation_p.Q3*|WDR45_uc004dmj.1_5'Flank|WDR45_uc004dml.1_Nonsense_Mutation_p.Q3*|WDR45_uc004dmm.1_Nonsense_Mutation_p.Q3*|WDR45_uc010nim.1_Nonsense_Mutation_p.Q3*|WDR45_uc004dmn.1_5'UTR|WDR45_uc004dmo.1_Nonsense_Mutation_p.Q25*|WDR45_uc004dmp.1_Nonsense_Mutation_p.Q3*|WDR45_uc011mmu.1_Nonsense_Mutation_p.Q3*	NM_001029896	NP_001025067	Q9Y484	WIPI4_HUMAN	WD repeat domain 45 isoform 2	3					autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1						AGTGGCTGTTGAGTCATGGTG	0.517													13	47	---	---	---	---	PASS	A	48935748	A	A	48935748	4	1	71	1	0	0	0	0	0	1	0	0	17294	1299	45	2	1118	2	WDR45	23	48935748	Nonsense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	183364	48935748	106334812	183	27617										
PPP1R3F	89801	broad.mit.edu	37	chrX	49143513	49143513	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aacagcggtgtgtccctcctGgtgcttgcgctgtgcctctc	12	14	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:49143513G>T	uc004dnh.1	+	4	2377	c.2361G>T	c.(2359-2361)CTG>CTT	p.L787L	PPP1R3F_uc011mnd.1_Silent_p.L458L|PPP1R3F_uc004dni.2_Silent_p.L441L|PPP1R3F_uc004dnj.1_Silent_p.L441L	NM_033215	NP_149992	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory (inhibitor)	787	Helical; (Potential).					integral to membrane				ovary(2)|skin(1)	3	Ovarian(276;0.236)					TGTCCCTCCTGGTGCTTGCGC	0.622													18	69	---	---	---	---	PASS	T	49143513	T	T	49143513	2	4	71	1	0	0	0	0	0	0	0	1	12375	1335	47	3		3	PPP1R3F	23	49143513	Silent	SNP	G	TCGA-34-5240-01A-01D-1441-08	207765	49143513	106127047	184	27618										
CCNB3	85417	broad.mit.edu	37	chrX	50053232	50053232	+	Missense_Mutation	SNP	C	A	A													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gcataccaacaaaagtgggtCcctcttccaggaggctttgg							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:50053232C>A	uc004dox.3	+	6	2361	c.2063C>A	c.(2062-2064)TCC>TAC	p.S688Y	CCNB3_uc004doy.2_Missense_Mutation_p.S688Y|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	688					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					AAAAGTGGGTCCCTCTTCCAG	0.453													12	25	---	---	---	---	PASS	A	50053232	A	A	50053232	3	1	71	1	0	0	0	0	1	0	0	0	2914	855	30	2	2077	2	CCNB3	23	50053232	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	909719	50053232	105217328	185	27619	577	2								
CCNB3	85417	broad.mit.edu	37	chrX	50053233	50053233	+	Silent	SNP	C	A	A													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cataccaacaaaagtgggtcCctcttccaggaggctttggt							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:50053233C>A	uc004dox.3	+	6	2362	c.2064C>A	c.(2062-2064)TCC>TCA	p.S688S	CCNB3_uc004doy.2_Silent_p.S688S|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	688					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					AAAGTGGGTCCCTCTTCCAGG	0.458													12	25	---	---	---	---	PASS	A	50053233	A	A	50053233	2	1	71	1	0	0	0	0	0	0	0	1	2914	610	22	3		3	CCNB3	23	50053233	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	1	50053233	105217327	186	27620	577	2								
PHF8	23133	broad.mit.edu	37	chrX	54022203	54022203	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ctccgggatctcatcctcatGgtctggcagagcctgtcaaa	10	13	4	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:54022203G>A	uc004dsu.2	-	12	1427	c.1354C>T	c.(1354-1356)CAT>TAT	p.H452Y	PHF8_uc004dst.2_Missense_Mutation_p.H416Y|PHF8_uc004dsv.2_Missense_Mutation_p.H282Y|PHF8_uc004dsw.2_Missense_Mutation_p.H416Y|PHF8_uc004dsx.2_Missense_Mutation_p.H180Y|PHF8_uc004dsy.2_Missense_Mutation_p.H416Y	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	452					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						TCATCCTCATGGTCTGGCAGA	0.368													6	30	---	---	---	---	PASS	A	54022203	A	A	54022203	3	1	71	1	0	0	0	0	1	0	0	0	11840	1348	47	3	2042	3	PHF8	23	54022203	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	3968970	54022203	101248357	187	27621										
HEPH	9843	broad.mit.edu	37	chrX	65414988	65414988	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	caccattcaggtggtcttctAcaaccgtgcctcccagccat	7	16	3	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:65414988A>G	uc011moz.1	+	9	1487	c.1427A>G	c.(1426-1428)TAC>TGC	p.Y476C	HEPH_uc004dwn.2_Missense_Mutation_p.Y476C|HEPH_uc004dwo.2_Missense_Mutation_p.Y206C|HEPH_uc010nkr.2_Missense_Mutation_p.Y476C|HEPH_uc011mpa.1_Missense_Mutation_p.Y476C	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	473	Extracellular (Potential).|Plastocyanin-like 3.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						GTGGTCTTCTACAACCGTGCC	0.507													35	31	---	---	---	---	PASS	G	65414988	G	G	65414988	3	3	71	1	0	0	0	0	1	0	0	0	7054	391	14	5	1614	5	HEPH	23	65414988	Missense_Mutation	SNP	A	TCGA-34-5240-01A-01D-1441-08	11392785	65414988	89855572	188	27622										
NLGN3	54413	broad.mit.edu	37	chrX	70386935	70386935	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tgaactaccaaccagtgaagTacaccagcctgctggcagac	9	13	0	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:70386935T>G	uc004dzd.1	+	6	1188	c.988T>G	c.(988-990)TAC>GAC	p.Y330D	NLGN3_uc010nlb.1_Missense_Mutation_p.Y290D|NLGN3_uc004dzb.2_Missense_Mutation_p.Y310D|NLGN3_uc004dzc.2_Missense_Mutation_p.Y193D|NLGN3_uc011mps.1_Missense_Mutation_p.Y290D|NLGN3_uc004dze.2_Missense_Mutation_p.Y128D	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	330	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					ACCAGTGAAGTACACCAGCCT	0.537													15	38	---	---	---	---	PASS	G	70386935	G	G	70386935	3	3	71	1	0	0	0	0	1	0	0	0	10463	1638	57	5	1010	5	NLGN3	23	70386935	Missense_Mutation	SNP	T	TCGA-34-5240-01A-01D-1441-08	4971947	70386935	84883625	189	27623										
CXCR3	2833	broad.mit.edu	37	chrX	70836522	70836522	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ccaggtgatagggggtccagCagagggcaaaggccaccacg	16	11	0	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:70836522C>A	uc004eaf.2	-	2	868	c.800G>T	c.(799-801)TGC>TTC	p.C267F	BCYRN1_uc011mpt.1_Intron|CXCR3_uc011mpx.1_Missense_Mutation_p.C314F	NM_001504	NP_001495	P49682	CXCR3_HUMAN	chemokine (C-X-C motif) receptor 3 isoform A	267	Helical; Name=6; (Potential).				cell adhesion|cellular component movement|chemotaxis|elevation of cytosolic calcium ion concentration	cytoplasm|integral to plasma membrane	C-X-C chemokine receptor activity			ovary(2)|central_nervous_system(1)	3	Renal(35;0.156)					GGGGGTCCAGCAGAGGGCAAA	0.662													9	28	---	---	---	---	PASS	A	70836522	A	A	70836522	3	1	71	1	0	0	0	0	1	0	0	0	4092	710	25	3	310	3	CXCR3	23	70836522	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	449587	70836522	84434038	190	27624										
ZCCHC13	389874	broad.mit.edu	37	chrX	73524598	73524598	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	atctagccaaggaatgtcccAgtgaggttaccacttaaatc	8	10	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:73524598A>T	uc004ebs.3	+	1	574	c.497A>T	c.(496-498)CAG>CTG	p.Q166L		NM_203303	NP_976048	Q8WW36	ZCH13_HUMAN	zinc finger, CCHC domain containing 13	166							nucleic acid binding|zinc ion binding				0						GGAATGTCCCAGTGAGGTTAC	0.517													13	69	---	---	---	---	PASS	T	73524598	T	T	73524598	3	4	71	1	0	0	0	0	1	0	0	0	17579	188	7	5	499	5	ZCCHC13	23	73524598	Missense_Mutation	SNP	A	TCGA-34-5240-01A-01D-1441-08	2688076	73524598	81745962	191	27625										
MAGEE2	139599	broad.mit.edu	37	chrX	75003752	75003752	+	Missense_Mutation	SNP	G	T	T													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ttctggttgctggacaaggaGgtagatgtgctcactggtat							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:75003752G>T	uc004ecj.1	-	1	1320	c.1135C>A	c.(1135-1137)CTC>ATC	p.L379I		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	379	MAGE 2.									ovary(1)|skin(1)	2						TGGACAAGGAGGTAGATGTGC	0.438													87	91	---	---	---	---	PASS	T	75003752	T	T	75003752	3	4	71	1	0	0	0	0	1	0	0	0	9186	1000	35	3	440	3	MAGEE2	23	75003752	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	1479154	75003752	80266808	192	27626	578	2								
MAGEE2	139599	broad.mit.edu	37	chrX	75003753	75003753	+	Nonsense_Mutation	SNP	G	T	T													0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tctggttgctggacaaggagGtagatgtgctcactggtatc							TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:75003753G>T	uc004ecj.1	-	1	1319	c.1134C>A	c.(1132-1134)TAC>TAA	p.Y378*		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	378	MAGE 2.									ovary(1)|skin(1)	2						GGACAAGGAGGTAGATGTGCT	0.438													87	90	---	---	---	---	PASS	T	75003753	T	T	75003753	4	4	71	1	0	0	0	0	0	1	0	0	9186	1256	44	3	441	3	MAGEE2	23	75003753	Nonsense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	1	75003753	80266807	193	27627	578	2								
MAGEE1	57692	broad.mit.edu	37	chrX	75648895	75648895	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	aagcacctccgtggtgcccaCccctgatgagggaccaagca	11	15	0	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:75648895C>A	uc004ecm.1	+	1	779	c.572C>A	c.(571-573)ACC>AAC	p.T191N		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	191	Pro-rich.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						GTGGTGCCCACCCCTGATGAG	0.692													9	37	---	---	---	---	PASS	A	75648895	A	A	75648895	3	1	71	1	0	0	0	0	1	0	0	0	9185	507	18	3	574	3	MAGEE1	23	75648895	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	645142	75648895	79621665	194	27628										
P2RY10	27334	broad.mit.edu	37	chrX	78216995	78216995	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggcagttctgtgacccgctcCcgcctcatgagcaaggagag	13	13	2	3			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:78216995C>T	uc004ede.2	+	4	1347	c.978C>T	c.(976-978)TCC>TCT	p.S326S	P2RY10_uc004edf.2_Silent_p.S326S	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	326	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						TGACCCGCTCCCGCCTCATGA	0.428													99	101	---	---	---	---	PASS	T	78216995	T	T	78216995	2	4	71	1	0	0	0	0	0	0	0	1	11347	610	22	3		3	P2RY10	23	78216995	Silent	SNP	C	TCGA-34-5240-01A-01D-1441-08	2568100	78216995	77053565	195	27629										
CHM	1121	broad.mit.edu	37	chrX	85218964	85218964	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tcctccgtaggcaggaaggcAgaatctgcagcttctgtgga	13	10	2	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:85218964A>G	uc004eet.2	-	5	438	c.408T>C	c.(406-408)TCT>TCC	p.S136S	CHM_uc011mqz.1_5'UTR	NM_000390	NP_000381	P24386	RAE1_HUMAN	choroideremia isoform a	136					intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)				GCAGGAAGGCAGAATCTGCAG	0.453													28	103	---	---	---	---	PASS	G	85218964	G	G	85218964	2	3	71	1	0	0	0	0	0	0	0	1	3350	175	7	5		5	CHM	23	85218964	Silent	SNP	A	TCGA-34-5240-01A-01D-1441-08	7001969	85218964	70051596	196	27630										
DACH2	117154	broad.mit.edu	37	chrX	85994853	85994853	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cagcagtgtgtccagctctcCctctcagatggatcatcatt	8	13	4	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:85994853C>T	uc004eew.2	+	7	1378	c.1208C>T	c.(1207-1209)CCC>CTC	p.P403L	DACH2_uc004eex.2_Missense_Mutation_p.P390L|DACH2_uc010nmq.2_Missense_Mutation_p.P269L|DACH2_uc011mra.1_Missense_Mutation_p.P236L|DACH2_uc010nmr.2_Missense_Mutation_p.P184L|DACH2_uc004eey.2_Missense_Mutation_p.P86L|DACH2_uc004eez.2_Missense_Mutation_p.P86L	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	403					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						TCCAGCTCTCCCTCTCAGATG	0.453													8	29	---	---	---	---	PASS	T	85994853	T	T	85994853	3	4	71	1	0	0	0	0	1	0	0	0	4221	623	22	3	1234	3	DACH2	23	85994853	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	775889	85994853	69275707	197	27631										
DACH2	117154	broad.mit.edu	37	chrX	86067939	86067939	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ctgggcaggcattgcccgctGgattccctggaccattcatt	11	13	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:86067939G>A	uc004eew.2	+	8	1491	c.1321G>A	c.(1321-1323)GGA>AGA	p.G441R	DACH2_uc004eex.2_Missense_Mutation_p.G428R|DACH2_uc010nmq.2_Missense_Mutation_p.G307R|DACH2_uc011mra.1_Missense_Mutation_p.G274R|DACH2_uc010nmr.2_Missense_Mutation_p.G222R|DACH2_uc004eey.2_Missense_Mutation_p.G124R|DACH2_uc004eez.2_Missense_Mutation_p.G124R	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	441					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						ATTGCCCGCTGGATTCCCTGG	0.413													31	21	---	---	---	---	PASS	A	86067939	A	A	86067939	3	1	71	1	0	0	0	0	1	0	0	0	4221	1349	47	3	1351	3	DACH2	23	86067939	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	73086	86067939	69202621	198	27632										
RNF113A	7737	broad.mit.edu	37	chrX	119005420	119005420	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cttcttttccggtcgaaccaCagtgcagccttcgtcgctac	8	15	1	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:119005420C>T	uc004esb.2	-	1	372	c.157G>A	c.(157-159)GTG>ATG	p.V53M	NDUFA1_uc004esc.3_5'Flank	NM_006978	NP_008909	O15541	R113A_HUMAN	ring finger protein 113A	53							nucleic acid binding|zinc ion binding			breast(2)	2						GGTCGAACCACAGTGCAGCCT	0.602													69	231	---	---	---	---	PASS	T	119005420	T	T	119005420	3	4	71	1	0	0	0	0	1	0	0	0	13427	478	17	3	878	3	RNF113A	23	119005420	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	32937481	119005420	36265140	199	27633										
ODZ1	10178	broad.mit.edu	37	chrX	123556176	123556176	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	gtcacagtcagtgggggcacCagcgatgatgtagatctccc	13	11	3	2			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:123556176C>A	uc004euj.2	-	23	4460	c.4396G>T	c.(4396-4398)GGT>TGT	p.G1466C	ODZ1_uc011muj.1_Missense_Mutation_p.G1472C|ODZ1_uc010nqy.2_Missense_Mutation_p.G1473C	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1466	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GTGGGGGCACCAGCGATGATG	0.473													37	145	---	---	---	---	PASS	A	123556176	A	A	123556176	3	1	71	1	0	0	0	0	1	0	0	0	10834	594	21	3	3817	3	ODZ1	23	123556176	Missense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	4550756	123556176	31714384	200	27634										
SMARCA1	6594	broad.mit.edu	37	chrX	128649954	128649954	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	cttcatcttcttcttgctctGtgcgcctatggcggtagctg	10	12	5	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:128649954G>A	uc004eun.3	-	4	559	c.446C>T	c.(445-447)ACA>ATA	p.T149I	SMARCA1_uc004eup.3_Missense_Mutation_p.T149I|SMARCA1_uc011muk.1_Missense_Mutation_p.T149I|SMARCA1_uc011mul.1_Missense_Mutation_p.T149I	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	149					ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						TTCTTGCTCTGTGCGCCTATG	0.373													118	74	---	---	---	---	PASS	A	128649954	A	A	128649954	3	1	71	1	0	0	0	0	1	0	0	0	14768	1377	48	3	2802	3	SMARCA1	23	128649954	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	5093778	128649954	26620606	201	27635										
MST4	51765	broad.mit.edu	37	chrX	131188764	131188764	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ataaccgtacccagcaagtcGttgctattaaaatcatagac	6	10	1	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:131188764G>A	uc004ewk.1	+	3	449	c.148G>A	c.(148-150)GTT>ATT	p.V50I	MST4_uc004ewl.1_Intron|MST4_uc011mux.1_Missense_Mutation_p.V50I|MST4_uc010nrj.1_Missense_Mutation_p.V50I|MST4_uc004ewm.1_Missense_Mutation_p.V50I	NM_016542	NP_057626	Q9P289	MST4_HUMAN	serine/threonine protein kinase MST4 isoform 1	50	Protein kinase.				cellular component disassembly involved in apoptosis|regulation of apoptosis	cytosol|Golgi membrane	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(3)|stomach(2)|upper_aerodigestive_tract(1)	9	Acute lymphoblastic leukemia(192;0.000127)					CCAGCAAGTCGTTGCTATTAA	0.398													25	109	---	---	---	---	PASS	A	131188764	A	A	131188764	3	1	71	1	0	0	0	0	1	0	0	0	9892	1145	40	1	154	1	MST4	23	131188764	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	2538810	131188764	24081796	202	27636										
GPC3	2719	broad.mit.edu	37	chrX	132887631	132887631	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	catgccattcacaagttcttCaagggacagaatgtattctc	7	10	4	1			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:132887631C>A	uc004exe.1	-	3	1100	c.910G>T	c.(910-912)GAA>TAA	p.E304*	GPC3_uc004exd.1_Nonsense_Mutation_p.E176*|GPC3_uc010nrn.1_Nonsense_Mutation_p.E304*|GPC3_uc011mvh.1_Nonsense_Mutation_p.E288*|GPC3_uc010nro.1_Nonsense_Mutation_p.E250*|GPC3_uc010nrp.1_Nonsense_Mutation_p.E176*	NM_004484	NP_004475	P51654	GPC3_HUMAN	glypican 3 isoform 2 precursor	304						extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding|peptidyl-dipeptidase inhibitor activity			lung(2)|prostate(1)|breast(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					ACAAGTTCTTCAAGGGACAGA	0.443			T|D|Mis|N|F|S			Wilms tumour			Simpson-Golabi-Behmel_syndrome				48	181	---	---	---	---	PASS	A	132887631	A	A	132887631	4	1	71	1	0	0	0	0	0	1	0	0	6599	835	29	2	929	2	GPC3	23	132887631	Nonsense_Mutation	SNP	C	TCGA-34-5240-01A-01D-1441-08	1698867	132887631	22382929	203	27637										
FHL1	2273	broad.mit.edu	37	chrX	135290627	135290627	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	ggtctaggccatcacatctgGaggaatcacttaccaggatc	10	11	4	0			TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:135290627G>C	uc004ezo.2	+	5	615	c.515G>C	c.(514-516)GGA>GCA	p.G172A	FHL1_uc010nrz.2_Missense_Mutation_p.G172A|FHL1_uc004ezm.2_RNA|FHL1_uc004ezl.2_Missense_Mutation_p.G172A|FHL1_uc004ezq.2_Intron|FHL1_uc011mvy.1_Missense_Mutation_p.G172A|FHL1_uc011mvz.1_Missense_Mutation_p.G172A|FHL1_uc004ezn.2_Missense_Mutation_p.G172A|FHL1_uc011mwa.1_Missense_Mutation_p.G201A|FHL1_uc011mwb.1_RNA|FHL1_uc004ezp.2_Missense_Mutation_p.G188A|FHL1_uc004ezr.2_5'UTR	NM_001159702	NP_001153174	Q13642	FHL1_HUMAN	four and a half LIM domains 1 isoform 1	172	LIM zinc-binding 3.				cell differentiation|cell growth|muscle organ development|organ morphogenesis	cytosol|nucleus|plasma membrane	protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(192;0.000127)					ATCACATCTGGAGGAATCACT	0.408													137	147	---	---	---	---	PASS	C	135290627	C	C	135290627	3	2	71	1	0	0	0	0	1	0	0	0	5878	1174	41	2	646	2	FHL1	23	135290627	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	2402996	135290627	19979933	204	27638										
SLITRK2	84631	broad.mit.edu	37	chrX	144905394	144905394	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.126262626262626	25	0.00165508230220336	1.9564743856314	2.07945277558537	1.92060568856149	0.00201808652901636	0.0355326700164936	12	tctgaacaacaaccttcttcGgtccttacctgataatatat	4	11	2	2	rs141011265		TCGA-34-5240-01A-01D-1441-08	TCGA-34-5240-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4c3840df-9824-40db-879e-6d24adc8c155	332ac9eb-64c2-474d-b772-07e504f3655d	g.chrX:144905394G>T	uc004fcd.2	+	5	2441	c.1451G>T	c.(1450-1452)CGG>CTG	p.R484L	SLITRK2_uc010nsp.2_Missense_Mutation_p.R484L|SLITRK2_uc010nso.2_Missense_Mutation_p.R484L|SLITRK2_uc011mwq.1_Missense_Mutation_p.R484L|SLITRK2_uc011mwr.1_Missense_Mutation_p.R484L|SLITRK2_uc011mws.1_Missense_Mutation_p.R484L|SLITRK2_uc004fcg.2_Missense_Mutation_p.R484L|SLITRK2_uc011mwt.1_Missense_Mutation_p.R484L	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	484	Extracellular (Potential).|LRR 11.					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					AACCTTCTTCGGTCCTTACCT	0.418													170	178	---	---	---	---	PASS	T	144905394	T	T	144905394	3	4	71	1	0	0	0	0	1	0	0	0	14743	1116	39	1	1453	1	SLITRK2	23	144905394	Missense_Mutation	SNP	G	TCGA-34-5240-01A-01D-1441-08	9614767	144905394	10365166	205	27639										
TMTC1	83857	broad.mit.edu	37	chr12	29665042	29665042	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	NA	NA	NA	1	1	0	tctgggtttagttgcacagcCactctatagctctaaataaa	7	9	3	0			TCGA-34-5241-01A-01D-1441-08	TCGA-34-5241-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bcdbc37-cde8-47df-9184-621b2b47da5b	bd4b1124-3d34-4d8b-ab22-29c938c7ef70	g.chr12:29665042C>A	uc001rjb.2	-	17	2592	c.2118G>T	c.(2116-2118)GTG>GTT	p.V706V	TMTC1_uc001riz.2_Silent_p.V463V|TMTC1_uc001rja.2_Silent_p.V550V|TMTC1_uc001riy.2_Silent_p.V159V	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	814	TPR 9.					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					GTTGCACAGCCACTCTATAGC	0.443													55	139	---	---	---	---	PASS	A	29665042	A	A	29665042	2	1	72	1	0	0	0	0	0	0	0	1	16257	581	21	3		3	TMTC1	12	29665042	Silent	SNP	C	TCGA-34-5241-01A-01D-1441-08		29665042	104186853	1	27640										
ZNF268	10795	broad.mit.edu	37	chr12	133779994	133779994	+	Frame_Shift_Del	DEL	C	-	-													0	0	1	NA	NA	NA	1	1	0	aaataccagcttatttcacaCcagagaactcatgcaggaga							TCGA-34-5241-01A-01D-1441-08	TCGA-34-5241-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bcdbc37-cde8-47df-9184-621b2b47da5b	bd4b1124-3d34-4d8b-ab22-29c938c7ef70	g.chr12:133779994delC	uc010tcf.1	+	6	2052	c.1722delC	c.(1720-1722)CACfs	p.H574fs	ZNF268_uc010tbv.1_Frame_Shift_Del_p.H413fs|ZNF268_uc010tbw.1_Frame_Shift_Del_p.H413fs|ZNF268_uc010tbx.1_Frame_Shift_Del_p.H434fs|ZNF268_uc010tby.1_Frame_Shift_Del_p.H413fs|ZNF268_uc010tbz.1_Frame_Shift_Del_p.H413fs|ZNF268_uc010tca.1_Frame_Shift_Del_p.H413fs|ZNF268_uc010tcb.1_Frame_Shift_Del_p.H434fs|ZNF268_uc010tcc.1_Frame_Shift_Del_p.H413fs|ZNF268_uc010tcd.1_Frame_Shift_Del_p.H413fs|ZNF268_uc010tce.1_Frame_Shift_Del_p.H413fs|ZNF268_uc010tcg.1_Frame_Shift_Del_p.H413fs|ZNF268_uc010tch.1_Frame_Shift_Del_p.H574fs	NM_003415	NP_003406	Q14587	ZN268_HUMAN	zinc finger protein 268 isoform a	574	C2H2-type 11.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.000215)|all_epithelial(31;0.096)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		TTATTTCACACCAGAGAACTC	0.433													4	2	---	---	---	---		-	133779994	-	-	133779994	7	5	72	1	0	1	0	1	0	0	0	0	17804	506	18	0		0	ZNF268	12	133779994	Frame_Shift_Del	DEL	C	TCGA-34-5241-01A-01D-1441-08	104114952	133779994	71901	2	27641										
PIK3CD	5293	broad.mit.edu	37	chr1	9781535	9781535	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttccagtacctgctgcagctGgtgcaggtgctcaagtacga	12	11	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:9781535G>A	uc001aqb.3	+	15	2053	c.1845G>A	c.(1843-1845)CTG>CTA	p.L615L	PIK3CD_uc010oaf.1_Silent_p.L614L|PIK3CD_uc001aqe.3_Silent_p.L639L	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	615					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		TGCTGCAGCTGGTGCAGGTGC	0.627													16	41	---	---	---	---	PASS	A	9781535	A	A	9781535	2	1	73	1	0	0	0	0	0	0	0	1	11915	1335	47	3		3	PIK3CD	1	9781535	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08		9781535	239469086	1	27642										
AADACL3	126767	broad.mit.edu	37	chr1	12785921	12785921	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttgcactttccctgctccatGagaattctgagtgcattagt	8	10	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:12785921G>A	uc009vnn.1	+	4	1244	c.1011G>A	c.(1009-1011)ATG>ATA	p.M337I	AADACL3_uc001aug.1_Missense_Mutation_p.M267I	NM_001103170	NP_001096640	Q5VUY0	ADCL3_HUMAN	arylacetamide deacetylase-like 3 isoform 1	337							hydrolase activity				0	Ovarian(185;0.249)	Lung NSC(185;8.27e-05)|all_lung(284;9.47e-05)|Renal(390;0.000147)|Colorectal(325;0.000583)|Breast(348;0.000596)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		CCTGCTCCATGAGAATTCTGA	0.512													30	43	---	---	---	---	PASS	A	12785921	A	A	12785921	3	1	73	1	0	0	0	0	1	0	0	0	12	1290	45	2	1029	2	AADACL3	1	12785921	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	3004386	12785921	236464700	2	27643										
TMEM82	388595	broad.mit.edu	37	chr1	16069353	16069353	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgatcggggcccttggagtcTtggtcctgaacagcctcctg	13	12	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:16069353T>C	uc001axc.2	+	2	250	c.112T>C	c.(112-114)TTG>CTG	p.L38L		NM_001013641	NP_001013663	A0PJX8	TMM82_HUMAN	transmembrane protein 82	38	Leu-rich.|Helical; (Potential).					integral to membrane				breast(1)|central_nervous_system(1)	2		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCTTGGAGTCTTGGTCCTGAA	0.642													15	20	---	---	---	---	PASS	C	16069353	C	C	16069353	2	2	73	1	0	0	0	0	0	0	0	1	16203	1606	56	5		5	TMEM82	1	16069353	Silent	SNP	T	TCGA-34-5927-01A-11D-1817-08	3283432	16069353	233181268	3	27644										
ACTL8	81569	broad.mit.edu	37	chr1	18152812	18152812	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccacgtgatggcctgcggggGcaacaccctctatcccgggt	13	15	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:18152812G>C	uc001bat.2	+	3	1115	c.899G>C	c.(898-900)GGC>GCC	p.G300A		NM_030812	NP_110439	Q9H568	ACTL8_HUMAN	actin-like 8	300						cytoplasm|cytoskeleton				ovary(4)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00186)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;6.43e-06)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.00652)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)		GCCTGCGGGGGCAACACCCTC	0.642											OREG0013157	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	54	---	---	---	---	PASS	C	18152812	C	C	18152812	3	2	73	1	0	0	0	0	1	0	0	0	202	1203	42	4	905	4	ACTL8	1	18152812	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	2083459	18152812	231097809	4	27645										
IGSF21	84966	broad.mit.edu	37	chr1	18691941	18691941	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggcctgaccccagatcccaaCatcctcctccagccaaccac	5	21	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:18691941C>T	uc001bau.1	+	6	1148	c.765C>T	c.(763-765)AAC>AAT	p.N255N	IGSF21_uc001bav.1_Silent_p.N76N	NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	255						extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		CAGATCCCAACATCCTCCTCC	0.647													59	117	---	---	---	---	PASS	T	18691941	T	T	18691941	2	4	73	1	0	0	0	0	0	0	0	1	7599	477	17	3		3	IGSF21	1	18691941	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	539129	18691941	230558680	5	27646										
KIF17	57576	broad.mit.edu	37	chr1	21031387	21031387	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccggaggtggtccttgccccGctcatctgcacacagaccag	11	16	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:21031387G>A	uc001bdr.3	-	5	794	c.676C>T	c.(676-678)CGG>TGG	p.R226W	KIF17_uc001bds.3_Missense_Mutation_p.R226W	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	226	Kinesin-motor.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		TCCTTGCCCCGCTCATCTGCA	0.527													27	37	---	---	---	---	PASS	A	21031387	A	A	21031387	3	1	73	1	0	0	0	0	1	0	0	0	8279	1086	38	1	2457	1	KIF17	1	21031387	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	2339446	21031387	228219234	6	27647										
MAN1C1	57134	broad.mit.edu	37	chr1	25944517	25944517	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccggccatgccccggcccgcGagcaggagccgcctcccaac	12	21	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:25944517G>C	uc001bkm.2	+	1	559	c.229G>C	c.(229-231)GAG>CAG	p.E77Q	MAN1C1_uc009vry.1_5'UTR	NM_020379	NP_065112	Q9NR34	MA1C1_HUMAN	mannosidase, alpha, class 1C, member 1	77	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(1)	1		Colorectal(325;3.78e-05)|Lung NSC(340;0.000181)|all_lung(284;0.000245)|Renal(390;0.000714)|Ovarian(437;0.00159)|Breast(348;0.0156)|Myeloproliferative disorder(586;0.0257)|all_neural(195;0.0515)|Esophageal squamous(538;0.232)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0574)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.15e-07)|COAD - Colon adenocarcinoma(152;4.31e-06)|STAD - Stomach adenocarcinoma(196;0.00125)|BRCA - Breast invasive adenocarcinoma(304;0.00141)|KIRC - Kidney renal clear cell carcinoma(1967;0.00146)|GBM - Glioblastoma multiforme(114;0.0149)|READ - Rectum adenocarcinoma(331;0.0803)		CCCGGCCCGCGAGCAGGAGCC	0.617													6	10	---	---	---	---	PASS	C	25944517	C	C	25944517	3	2	73	1	0	0	0	0	1	0	0	0	9213	1059	37	2	231	2	MAN1C1	1	25944517	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	4913130	25944517	223306104	7	27648										
COL9A2	1298	broad.mit.edu	37	chr1	40775613	40775613	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggtgcctgaggactcacctcGtcacccttctccccagctcg	9	18	3	1	rs140305893		TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:40775613G>A	uc001cfh.1	-	16	913	c.843C>T	c.(841-843)GAC>GAT	p.D281D	COL9A2_uc001cfi.1_Silent_p.D100D	NM_001852	NP_001843	Q14055	CO9A2_HUMAN	alpha 2 type IX collagen precursor	281	Triple-helical region 3 (COL3).				axon guidance|skeletal system development	collagen type IX				ovary(2)	2	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.08e-17)			GACTCACCTCGTCACCCTTCT	0.557													53	72	---	---	---	---	PASS	A	40775613	A	A	40775613	2	1	73	1	0	0	0	0	0	0	0	1	3708	1136	40	1		1	COL9A2	1	40775613	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	14831096	40775613	208475008	8	27649										
KDM4A	9682	broad.mit.edu	37	chr1	44169289	44169289	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttccttcctgtttcctcagaGccaggactgtctccagtttg	8	13	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:44169289G>C	uc001cjx.2	+	20	3009	c.2843G>C	c.(2842-2844)AGC>ACC	p.S948T	uc001cjy.2_RNA|ST3GAL3_uc009vwu.1_5'Flank|KDM4A_uc010oki.1_Intron	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	948	Tudor 1.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1						TTTCCTCAGAGCCAGGACTGT	0.532													8	227	---	---	---	---	PASS	C	44169289	C	C	44169289	3	2	73	1	0	0	0	0	1	0	0	0	8128	985	34	4	2917	4	KDM4A	1	44169289	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	3393676	44169289	205081332	9	27650										
RNF220	55182	broad.mit.edu	37	chr1	44878026	44878026	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gccaggcacttttgccaatcGtgatttccccccttctctac	6	16	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:44878026G>T	uc001clv.1	+	2	617	c.257G>T	c.(256-258)CGT>CTT	p.R86L	RNF220_uc001clw.1_Missense_Mutation_p.R86L	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	86					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TTTGCCAATCGTGATTTCCCC	0.502													119	234	---	---	---	---	PASS	T	44878026	T	T	44878026	3	4	73	1	0	0	0	0	1	0	0	0	13483	1145	40	1	259	1	RNF220	1	44878026	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	708737	44878026	204372595	10	27651										
IPP	3652	broad.mit.edu	37	chr1	46180008	46180008	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atgcagtcattgagtgcagcCacaccaagatatgctctcct	8	12	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:46180008C>A	uc001cou.2	-	8	1707	c.1440G>T	c.(1438-1440)GTG>GTT	p.V480V	IPP_uc001cos.3_Silent_p.V480V	NM_005897	NP_005888	Q9Y573	IPP_HUMAN	intracisternal A particle-promoted polypeptide	480	Kelch 4.					actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TGAGTGCAGCCACACCAAGAT	0.428													4	73	---	---	---	---	PASS	A	46180008	A	A	46180008	2	1	73	1	0	0	0	0	0	0	0	1	7800	581	21	3		3	IPP	1	46180008	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	1301982	46180008	203070613	11	27652										
PCSK9	255738	broad.mit.edu	37	chr1	55529216	55529216	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cagccgttgccatctgctgcCggagccggcacctggcgcag	14	16	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:55529216C>G	uc001cyf.1	+	12	2329	c.2038C>G	c.(2038-2040)CGG>GGG	p.R680G	PCSK9_uc010oom.1_RNA	NM_174936	NP_777596	Q8NBP7	PCSK9_HUMAN	proprotein convertase subtilisin/kexin type 9	680					cellular response to insulin stimulus|cellular response to starvation|cholesterol homeostasis|cholesterol metabolic process|kidney development|liver development|low-density lipoprotein particle receptor catabolic process|lysosomal transport|negative regulation of catalytic activity|negative regulation of low-density lipoprotein particle clearance|negative regulation of receptor recycling|neuron differentiation|positive regulation of neuron apoptosis|positive regulation of receptor internalization|protein autoprocessing|regulation of receptor activity	extracellular space|late endosome|lysosome|perinuclear region of cytoplasm	apolipoprotein receptor binding|identical protein binding|low-density lipoprotein particle receptor binding|serine-type endopeptidase activity|very-low-density lipoprotein particle receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4						CATCTGCTGCCGGAGCCGGCA	0.652													14	32	---	---	---	---	PASS	G	55529216	G	G	55529216	3	3	73	1	0	0	0	0	1	0	0	0	11606	643	23	4	2084	4	PCSK9	1	55529216	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	9349208	55529216	193721405	12	27653										
HOOK1	51361	broad.mit.edu	37	chr1	60314155	60314155	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gaattaaaaaaagcaaatgcAgcacgtacacaattagaaac	6	7	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:60314155A>T	uc009wad.2	+	12	1200	c.1098A>T	c.(1096-1098)GCA>GCT	p.A366A	HOOK1_uc001czo.2_Silent_p.A366A|HOOK1_uc001czp.2_RNA|HOOK1_uc010oor.1_Silent_p.A324A	NM_015888	NP_056972	Q9UJC3	HOOK1_HUMAN	hook homolog 1	366	Potential.|Sufficient for interaction with microtubules.				early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|multicellular organismal development|protein transport	FHF complex|microtubule	identical protein binding			ovary(1)|breast(1)	2	all_cancers(7;0.000129)					AAGCAAATGCAGCACGTACAC	0.308													38	78	---	---	---	---	PASS	T	60314155	T	T	60314155	2	4	73	1	0	0	0	0	0	0	0	1	7282	175	7	5		5	HOOK1	1	60314155	Silent	SNP	A	TCGA-34-5927-01A-11D-1817-08	4784939	60314155	188936466	13	27654										
COL11A1	1301	broad.mit.edu	37	chr1	103471438	103471438	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	acccggaagtccatcaaaccCtcgatctccctgtaaaacca	5	16	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:103471438C>T	uc001dul.2	-	18	2119	c.1801G>A	c.(1801-1803)GGG>AGG	p.G601R	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Missense_Mutation_p.G613R|COL11A1_uc001dun.2_Missense_Mutation_p.G562R|COL11A1_uc009weh.2_Missense_Mutation_p.G485R	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	601	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCATCAAACCCTCGATCTCCC	0.318													61	103	---	---	---	---	PASS	T	103471438	T	T	103471438	3	4	73	1	0	0	0	0	1	0	0	0	3667	681	24	3	3819	3	COL11A1	1	103471438	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	43157283	103471438	145779183	14	27655										
CELSR2	1952	broad.mit.edu	37	chr1	109793500	109793500	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cggcgcaggaccacggcatgCcccgacgaagtgccctggct	14	16	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:109793500C>T	uc001dxa.3	+	1	860	c.799C>T	c.(799-801)CCC>TCC	p.P267S		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	267	Cadherin 1.|Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		CCACGGCATGCCCCGACGAAG	0.597													21	45	---	---	---	---	PASS	T	109793500	T	T	109793500	3	4	73	1	0	0	0	0	1	0	0	0	3222	739	26	3	801	3	CELSR2	1	109793500	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	6322062	109793500	139457121	15	27656										
LRIG2	9860	broad.mit.edu	37	chr1	113637058	113637058	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agttaaaccgtaaccgaatgAgcatgattccacctaagatc	7	10	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:113637058A>G	uc001edf.1	+	5	811	c.613A>G	c.(613-615)AGC>GGC	p.S205G	LRIG2_uc009wgn.1_Missense_Mutation_p.S102G	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	205	LRR 6.|Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		TAACCGAATGAGCATGATTCC	0.368													3	122	---	---	---	---	PASS	G	113637058	G	G	113637058	3	3	73	1	0	0	0	0	1	0	0	0	8945	304	11	5	631	5	LRIG2	1	113637058	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	3843558	113637058	135613563	16	27657										
NOTCH2	4853	broad.mit.edu	37	chr1	120483184	120483184	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aggaagtcaattacctgacaGtttttcccagtgtagcccag	9	10	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:120483184G>C	uc001eik.2	-	19	3433	c.3177C>G	c.(3175-3177)AAC>AAG	p.N1059K	NOTCH2_uc001eil.2_Missense_Mutation_p.N1059K	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1059	Extracellular (Potential).|EGF-like 27; calcium-binding (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTACCTGACAGTTTTTCCCAG	0.478			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				3	153	---	---	---	---	PASS	C	120483184	C	C	120483184	3	2	73	1	0	0	0	0	1	0	0	0	10548	1020	36	4	4302	4	NOTCH2	1	120483184	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	6846126	120483184	128767437	17	27658										
PDE4DIP	9659	broad.mit.edu	37	chr1	144879561	144879561	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gaggctgttgtgctcctcacActctgaaaaaagacaaagat	9	9	2	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:144879561A>G	uc001elw.3	-	27	4180	c.3889T>C	c.(3889-3891)TGT>CGT	p.C1297R	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.C1253R|PDE4DIP_uc001elv.3_Missense_Mutation_p.C304R	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1297					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TGCTCCTCACACTCTGAAAAA	0.502			T	PDGFRB	MPD								3	127	---	---	---	---	PASS	G	144879561	G	G	144879561	3	3	73	1	0	0	0	0	1	0	0	0	11643	159	6	5	3223	5	PDE4DIP	1	144879561	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	24396377	144879561	104371060	18	27659										
LINGO4	339398	broad.mit.edu	37	chr1	151774208	151774208	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cacatccaggaggtggaaggCagtcaagccatggaaggcat	14	9	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:151774208C>A	uc001ezf.1	-	2	1163	c.973G>T	c.(973-975)GCC>TCC	p.A325S		NM_001004432	NP_001004432	Q6UY18	LIGO4_HUMAN	leucine rich repeat and Ig domain containing 4	325	Extracellular (Potential).|LRR 11.					integral to membrane				large_intestine(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			AGGTGGAAGGCAGTCAAGCCA	0.597													4	117	---	---	---	---	PASS	A	151774208	A	A	151774208	3	1	73	1	0	0	0	0	1	0	0	0	8817	710	25	3	812	3	LINGO4	1	151774208	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	6894647	151774208	97476413	19	27660										
CRNN	49860	broad.mit.edu	37	chr1	152383038	152383038	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcttattctttcctggctctGggactcagcttgcctgtcat	9	12	4	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:152383038G>A	uc001ezx.2	-	3	594	c.520C>T	c.(520-522)CAG>TAG	p.Q174*		NM_016190	NP_057274	Q9UBG3	CRNN_HUMAN	cornulin	174	Gln-rich.				cell-cell adhesion|response to heat	cytoplasm|membrane	calcium ion binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCTGGCTCTGGGACTCAGCT	0.577													136	216	---	---	---	---	PASS	A	152383038	A	A	152383038	4	1	73	1	0	0	0	0	0	1	0	0	3892	1357	47	3	971	3	CRNN	1	152383038	Nonsense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	608830	152383038	96867583	20	27661										
LCE1A	353131	broad.mit.edu	37	chr1	152800058	152800058	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cccaaagtgtccccctaagtGccctccagtctcttcctgct	6	18	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:152800058G>T	uc010pdw.1	+	1	110	c.110G>T	c.(109-111)TGC>TTC	p.C37F		NM_178348	NP_848125	Q5T7P2	LCE1A_HUMAN	late cornified envelope 1A	37	Cys-rich.				keratinization					ovary(1)|skin(1)	2	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			ccccctaagtgcccTCCAGTC	0.433													31	65	---	---	---	---	PASS	T	152800058	T	T	152800058	3	4	73	1	0	0	0	0	1	0	0	0	8659	1319	46	3	112	3	LCE1A	1	152800058	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	417020	152800058	96450563	21	27662										
DENND4B	9909	broad.mit.edu	37	chr1	153906318	153906318	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccagggcacaggtgatccccGgggttccaggacccccaagg	14	15	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:153906318G>A	uc001fdd.1	-	20	3372	c.2971C>T	c.(2971-2973)CGG>TGG	p.R991W	uc001fdc.1_Intron	NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	991										ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GGTGATCCCCGGGGTTCCAGG	0.612													17	26	---	---	---	---	PASS	A	153906318	A	A	153906318	3	1	73	1	0	0	0	0	1	0	0	0	4434	1115	39	1	1555	1	DENND4B	1	153906318	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1106260	153906318	95344303	22	27663										
RUSC1	23623	broad.mit.edu	37	chr1	155291733	155291733	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agagcaggggcccctgcagtGgcaccctggtggacgccaat	15	13	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:155291733G>A	uc001fkj.2	+	2	398	c.169G>A	c.(169-171)GGC>AGC	p.G57S	RAG1AP1_uc010pey.1_Intron|C1orf104_uc001fkh.1_5'Flank|C1orf104_uc001fki.2_Intron|RUSC1_uc001fkk.2_Missense_Mutation_p.G57S|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_5'Flank|RUSC1_uc001fkl.2_5'Flank|RUSC1_uc001fkp.2_5'Flank|RUSC1_uc001fkq.2_5'Flank|RUSC1_uc010pgb.1_5'Flank|RUSC1_uc009wqp.1_5'Flank|RUSC1_uc001fkn.2_5'Flank|RUSC1_uc001fko.2_5'Flank|RUSC1_uc001fkr.2_5'Flank	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	57						cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			CCCCTGCAGTGGCACCCTGGT	0.672													13	26	---	---	---	---	PASS	A	155291733	A	A	155291733	3	1	73	1	0	0	0	0	1	0	0	0	13750	1348	47	3	171	3	RUSC1	1	155291733	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1385415	155291733	93958888	23	27664										
GON4L	54856	broad.mit.edu	37	chr1	155823173	155823173	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggcccaggcctgagtgtcatTtttttccctctctttgagcc	9	13	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:155823173T>C	uc001flz.2	-	2	496	c.399A>G	c.(397-399)AAA>AAG	p.K133K	GON4L_uc001fly.1_Silent_p.K133K|GON4L_uc009wrh.1_Silent_p.K133K|GON4L_uc001fma.1_Silent_p.K133K|GON4L_uc001fmc.2_Silent_p.K133K|GON4L_uc001fmd.3_Silent_p.K133K|GON4L_uc009wri.2_5'UTR	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	133					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TGAGTGTCATTTTTTTCCCTC	0.463													9	213	---	---	---	---	PASS	C	155823173	C	C	155823173	2	2	73	1	0	0	0	0	0	0	0	1	6572	1838	64	5		5	GON4L	1	155823173	Silent	SNP	T	TCGA-34-5927-01A-11D-1817-08	531440	155823173	93427448	24	27665										
ETV3L	440695	broad.mit.edu	37	chr1	157069063	157069063	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctgctgccaggcgatgacatGgcggaactcttccttctgca	11	13	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:157069063G>T	uc001fqq.1	-	2	451	c.166C>A	c.(166-168)CAT>AAT	p.H56N		NM_001004341	NP_001004341	Q6ZN32	ETV3L_HUMAN	ets variant 3-like	56	ETS.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Hepatocellular(266;0.158)	Prostate(1639;0.184)				GCGATGACATGGCGGAACTCT	0.592													20	43	---	---	---	---	PASS	T	157069063	T	T	157069063	3	4	73	1	0	0	0	0	1	0	0	0	5280	1348	47	3	935	3	ETV3L	1	157069063	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1245890	157069063	92181558	25	27666										
PAPPA2	60676	broad.mit.edu	37	chr1	176661335	176661335	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tatttggacctagtctatcaGcagtggactgaaagcagaaa	10	7	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:176661335G>T	uc001gkz.2	+	6	3669	c.2505G>T	c.(2503-2505)CAG>CAT	p.Q835H	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	835					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TAGTCTATCAGCAGTGGACTG	0.498													71	136	---	---	---	---	PASS	T	176661335	T	T	176661335	3	4	73	1	0	0	0	0	1	0	0	0	11433	962	34	3	2576	3	PAPPA2	1	176661335	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	19592272	176661335	72589286	26	27667										
FAM5C	339479	broad.mit.edu	37	chr1	190195367	190195367	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tttccttgcagataaactctCcctctgaattgcaagcaatg	6	11	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:190195367C>G	uc001gse.1	-	6	1038	c.806G>C	c.(805-807)GGA>GCA	p.G269A	FAM5C_uc010pot.1_Missense_Mutation_p.G167A	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	269						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					GATAAACTCTCCCTCTGAATT	0.443													22	61	---	---	---	---	PASS	G	190195367	G	G	190195367	3	3	73	1	0	0	0	0	1	0	0	0	5594	855	30	2	1506	2	FAM5C	1	190195367	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	13534032	190195367	59055254	27	27668										
ASPM	259266	broad.mit.edu	37	chr1	197091418	197091418	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tctaggagctctttgtatagCtctgaagtattttctattat	7	6	4	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:197091418C>A	uc001gtu.2	-	15	3869	c.3612G>T	c.(3610-3612)GAG>GAT	p.E1204D	ASPM_uc001gtv.2_Missense_Mutation_p.E1204D|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1204	CH 2.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						CTTTGTATAGCTCTGAAGTAT	0.368													13	25	---	---	---	---	PASS	A	197091418	A	A	197091418	3	1	73	1	0	0	0	0	1	0	0	0	1056	796	28	3	6877	3	ASPM	1	197091418	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	6896051	197091418	52159203	28	27669										
CRB1	23418	broad.mit.edu	37	chr1	197298001	197298002	+	Frame_Shift_Del	DEL	TG	-	-													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttgatggttactcctgcttcTgtgtcccaggatatcaaggc							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:197298001_197298002delTG	uc001gtz.2	+	2	655_656	c.520_521delTG	c.(520-522)TGTfs	p.C174fs	CRB1_uc010poz.1_Frame_Shift_Del_p.C105fs|CRB1_uc001gty.1_Frame_Shift_Del_p.C174fs|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Frame_Shift_Del_p.C174fs|CRB1_uc010ppb.1_Frame_Shift_Del_p.C174fs	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	174	Extracellular (Potential).|EGF-like 4; calcium-binding (Potential).				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						CTCCTGCTTCTGTGTCCCAGGA	0.495													21	10	---	---	---	---		-	197298002	-	-	197298001	7	5	73	1	0	1	0	1	0	0	0	0	3848	1580	55	0	526	0	CRB1	1	197298001	Frame_Shift_Del	DEL	TG	TCGA-34-5927-01A-11D-1817-08	206583	197298001	51952620	29	27670										
GPR37L1	9283	broad.mit.edu	37	chr1	202092290	202092290	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgcctgaggagtgggcggagTacccccggcccattcaccct	13	15	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:202092290T>A	uc001gxj.2	+	1	262	c.199T>A	c.(199-201)TAC>AAC	p.Y67N		NM_004767	NP_004758	O60883	ETBR2_HUMAN	G-protein coupled receptor 37 like 1 precursor	67	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2						GTGGGCGGAGTACCCCCGGCC	0.672													15	7	---	---	---	---	PASS	A	202092290	A	A	202092290	3	1	73	1	0	0	0	0	1	0	0	0	6692	1638	57	5	201	5	GPR37L1	1	202092290	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	4794289	202092290	47158331	30	27671										
LAX1	54900	broad.mit.edu	37	chr1	203743235	203743235	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gattgctgagactctagcttCtaccaaaagcccttccagaa	7	12	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:203743235C>G	uc001haa.2	+	5	1033	c.623C>G	c.(622-624)TCT>TGT	p.S208C	LAX1_uc010pql.1_Missense_Mutation_p.S192C|LAX1_uc001hab.2_Missense_Mutation_p.S132C	NM_017773	NP_060243	Q8IWV1	LAX1_HUMAN	lymphocyte transmembrane adaptor 1 isoform a	208	Cytoplasmic (Potential).				B cell activation|immune response|inactivation of MAPK activity|intracellular signal transduction|negative regulation of T cell activation	Golgi apparatus|integral to membrane|plasma membrane	protein kinase binding|SH2 domain binding			central_nervous_system(2)	2	all_cancers(21;0.0915)		BRCA - Breast invasive adenocarcinoma(75;0.109)			ACTCTAGCTTCTACCAAAAGC	0.478													29	59	---	---	---	---	PASS	G	203743235	G	G	203743235	3	3	73	1	0	0	0	0	1	0	0	0	8648	913	32	2	686	2	LAX1	1	203743235	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	1650945	203743235	45507386	31	27672										
TRAF3IP3	80342	broad.mit.edu	37	chr1	209936905	209936905	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	caagacctactgtccactctGattcaggcctctgacagctc	7	15	3	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:209936905G>A	uc001hho.2	+	8	965	c.675G>A	c.(673-675)CTG>CTA	p.L225L	TRAF3IP3_uc001hhl.2_Silent_p.L205L|TRAF3IP3_uc001hhm.1_Silent_p.L225L|TRAF3IP3_uc001hhn.2_Silent_p.L205L|TRAF3IP3_uc009xcr.2_Silent_p.L225L	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	225	Cytoplasmic (Potential).					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		TGTCCACTCTGATTCAGGCCT	0.473													24	34	---	---	---	---	PASS	A	209936905	A	A	209936905	2	1	73	1	0	0	0	0	0	0	0	1	16439	1277	45	2		2	TRAF3IP3	1	209936905	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	6193670	209936905	39313716	32	27673										
C1orf65	164127	broad.mit.edu	37	chr1	223567028	223567028	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gttcgttcaccccgcggcctCgcaggcgcgggtgctcagat	14	15	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:223567028C>G	uc001hoa.2	+	1	314	c.211C>G	c.(211-213)CGC>GGC	p.R71G		NM_152610	NP_689823	Q8N715	CA065_HUMAN	hypothetical protein LOC164127	71	Arg-rich.									central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0704)		CCCGCGGCCTCGCAGGCGCGG	0.726													9	12	---	---	---	---	PASS	G	223567028	G	G	223567028	3	3	73	1	0	0	0	0	1	0	0	0	2055	884	31	2	213	2	C1orf65	1	223567028	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	13630123	223567028	25683593	33	27674										
ACTN2	88	broad.mit.edu	37	chr1	236881198	236881198	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctcccacctaaggaaagccgGcacccagattgagaacatcg	9	14	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:236881198G>A	uc001hyf.2	+	2	371	c.167G>A	c.(166-168)GGC>GAC	p.G56D	ACTN2_uc001hyg.2_5'UTR|ACTN2_uc009xgi.1_Missense_Mutation_p.G56D	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	56	CH 1.|Actin-binding.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			AGGAAAGCCGGCACCCAGATT	0.478													3	50	---	---	---	---	PASS	A	236881198	A	A	236881198	3	1	73	1	0	0	0	0	1	0	0	0	205	1203	42	3	173	3	ACTN2	1	236881198	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	13314170	236881198	12369423	34	27675										
FMN2	56776	broad.mit.edu	37	chr1	240255893	240255893	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggggccggccgatcgccgagGatgtggaaactgcagcaggg	19	10	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:240255893G>T	uc010pyd.1	+	1	709	c.484G>T	c.(484-486)GAT>TAT	p.D162Y	FMN2_uc010pye.1_Missense_Mutation_p.D162Y	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	162					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GATCGCCGAGGATGTGGAAAC	0.642													15	32	---	---	---	---	PASS	T	240255893	T	T	240255893	3	4	73	1	0	0	0	0	1	0	0	0	5950	1174	41	2	486	2	FMN2	1	240255893	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	3374695	240255893	8994728	35	27676										
OR2M4	26245	broad.mit.edu	37	chr1	248402703	248402703	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggggtctcttgatgggatcaTagtgcttgcagctgtcctgt	14	8	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:248402703T>C	uc010pzh.1	+	1	473	c.473T>C	c.(472-474)ATA>ACA	p.I158T		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GATGGGATCATAGTGCTTGCA	0.458													63	103	---	---	---	---	PASS	C	248402703	C	C	248402703	3	2	73	1	0	0	0	0	1	0	0	0	11012	1406	49	5	475	5	OR2M4	1	248402703	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	8146810	248402703	847918	36	27677										
OR2T4	127074	broad.mit.edu	37	chr1	248525386	248525386	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctccgttaccctgtcctcatGaaccatagggtgtgtctctt	8	13	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr1:248525386G>T	uc001ieh.1	+	1	504	c.504G>T	c.(502-504)ATG>ATT	p.M168I		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	168	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTGTCCTCATGAACCATAGGG	0.537													78	161	---	---	---	---	PASS	T	248525386	T	T	248525386	3	4	73	1	0	0	0	0	1	0	0	0	11027	1290	45	2	506	2	OR2T4	1	248525386	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	122683	248525386	725235	37	27678										
ASAP2	8853	broad.mit.edu	37	chr2	9531254	9531254	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgtaagtgtggacggtggaaGccggcagcgatcttcgtcag	16	8	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:9531254G>C	uc002qzh.2	+	23	2787	c.2447G>C	c.(2446-2448)AGC>ACC	p.S816T	ASAP2_uc002qzi.2_Intron	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	816	Pro-rich.				regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						GACGGTGGAAGCCGGCAGCGA	0.448													10	162	---	---	---	---	PASS	C	9531254	C	C	9531254	3	2	73	1	0	0	0	0	1	0	0	0	1011	971	34	4	2537	4	ASAP2	2	9531254	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08		9531254	233668119	38	27679										
FAM84A	151354	broad.mit.edu	37	chr2	14774494	14774494	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	acctgctggagctgctgtggCtgcagcccgcgccggagccg	16	15	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:14774494C>G	uc002rbz.1	+	2	633	c.391C>G	c.(391-393)CTG>GTG	p.L131V	FAM84A_uc002rca.1_5'Flank	NM_145175	NP_660158	Q96KN4	FA84A_HUMAN	family with sequence similarity 84, member A	131										pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)		GBM - Glioblastoma multiforme(1;0.00969)			GCTGCTGTGGCTGCAgcccgc	0.577													11	4	---	---	---	---	PASS	G	14774494	G	G	14774494	3	3	73	1	0	0	0	0	1	0	0	0	5641	796	28	4	393	4	FAM84A	2	14774494	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	5243240	14774494	228424879	39	27680										
APOB	338	broad.mit.edu	37	chr2	21232182	21232182	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	catttgatacattcggtctcGtgtatcttctagggtctctc	8	10	4	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:21232182G>A	uc002red.2	-	26	7686	c.7558C>T	c.(7558-7560)CGA>TGA	p.R2520*		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2520					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity	p.R2520*(1)		ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ATTCGGTCTCGTGTATCTTCT	0.428													20	39	---	---	---	---	PASS	A	21232182	A	A	21232182	4	1	73	1	0	0	0	0	0	1	0	0	785	1153	40	1	6149	1	APOB	2	21232182	Nonsense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	6457688	21232182	221967191	40	27681										
C2orf16	84226	broad.mit.edu	37	chr2	27799780	27799780	+	Frame_Shift_Del	DEL	A	-	-													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aactccaagaacaaattatcAaatcatggaatcctctgaac							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:27799780delA	uc002rkz.3	+	1	392	c.341delA	c.(340-342)CAAfs	p.Q114fs		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	114										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					ACAAATTATCAAATCATGGAA	0.418													57	39	---	---	---	---		-	27799780	-	-	27799780	7	5	73	1	0	1	0	1	0	0	0	0	2157	130	5	0	343	0	C2orf16	2	27799780	Frame_Shift_Del	DEL	A	TCGA-34-5927-01A-11D-1817-08	6567598	27799780	215399593	41	27682										
MTA3	57504	broad.mit.edu	37	chr2	42871302	42871302	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tcattggtctatgacccctcAttgaaaacactattagctga	6	10	3	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:42871302A>G	uc002rso.1	+	7	919	c.249A>G	c.(247-249)TCA>TCG	p.S83S	MTA3_uc002rsp.1_Silent_p.S83S|MTA3_uc002rsq.2_Silent_p.S139S|MTA3_uc002rsr.2_Silent_p.S139S	NM_020744	NP_065795	Q9BTC8	MTA3_HUMAN	metastasis associated 1 family, member 3	139	BAH.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						ATGACCCCTCATTGAAAACAC	0.353													25	52	---	---	---	---	PASS	G	42871302	G	G	42871302	2	3	73	1	0	0	0	0	0	0	0	1	9910	204	8	5		5	MTA3	2	42871302	Silent	SNP	A	TCGA-34-5927-01A-11D-1817-08	15071522	42871302	200328071	42	27683										
PLEK	5341	broad.mit.edu	37	chr2	68621263	68621263	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aagatcccctgggagcaattCacttgagaggctgtgtggtg	14	8	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:68621263C>T	uc002sen.3	+	8	1033	c.871C>T	c.(871-873)CAC>TAC	p.H291Y	PLEK_uc010fde.2_Silent_p.F289F	NM_002664	NP_002655	P08567	PLEK_HUMAN	pleckstrin	291	PH 2.				actin cytoskeleton reorganization|cortical actin cytoskeleton organization|hemopoietic progenitor cell differentiation|inhibition of phospholipase C activity involved in G-protein coupled receptor signaling pathway|integrin-mediated signaling pathway|negative regulation of calcium-mediated signaling|negative regulation of inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|platelet aggregation|positive regulation of actin filament bundle assembly|positive regulation of actin filament depolymerization|positive regulation of inositol-polyphosphate 5-phosphatase activity|positive regulation of integrin activation|positive regulation of platelet activation|protein kinase C signaling cascade|protein secretion by platelet|regulation of cell diameter|ruffle organization|thrombin receptor signaling pathway|vesicle docking involved in exocytosis	cytosol|extracellular region|membrane fraction|ruffle membrane|soluble fraction	phosphatidylinositol-3,4-bisphosphate binding|protein homodimerization activity|protein kinase C binding			ovary(1)	1		Ovarian(717;0.0129)		STAD - Stomach adenocarcinoma(1183;0.00159)|READ - Rectum adenocarcinoma(193;0.0419)		GGGAGCAATTCACTTGAGAGG	0.458													65	116	---	---	---	---	PASS	T	68621263	T	T	68621263	3	4	73	1	0	0	0	0	1	0	0	0	12053	826	29	2	901	2	PLEK	2	68621263	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	25749961	68621263	174578110	43	27684										
PLEK	5341	broad.mit.edu	37	chr2	68621303	68621303	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gacttcagtggagagcaactCaaatggtaagatgaatttct	10	6	3	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:68621303C>T	uc002sen.3	+	8	1073	c.911C>T	c.(910-912)TCA>TTA	p.S304L	PLEK_uc010fde.2_3'UTR	NM_002664	NP_002655	P08567	PLEK_HUMAN	pleckstrin	304	PH 2.				actin cytoskeleton reorganization|cortical actin cytoskeleton organization|hemopoietic progenitor cell differentiation|inhibition of phospholipase C activity involved in G-protein coupled receptor signaling pathway|integrin-mediated signaling pathway|negative regulation of calcium-mediated signaling|negative regulation of inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|platelet aggregation|positive regulation of actin filament bundle assembly|positive regulation of actin filament depolymerization|positive regulation of inositol-polyphosphate 5-phosphatase activity|positive regulation of integrin activation|positive regulation of platelet activation|protein kinase C signaling cascade|protein secretion by platelet|regulation of cell diameter|ruffle organization|thrombin receptor signaling pathway|vesicle docking involved in exocytosis	cytosol|extracellular region|membrane fraction|ruffle membrane|soluble fraction	phosphatidylinositol-3,4-bisphosphate binding|protein homodimerization activity|protein kinase C binding			ovary(1)	1		Ovarian(717;0.0129)		STAD - Stomach adenocarcinoma(1183;0.00159)|READ - Rectum adenocarcinoma(193;0.0419)		GAGAGCAACTCAAATGGTAAG	0.453													50	102	---	---	---	---	PASS	T	68621303	T	T	68621303	3	4	73	1	0	0	0	0	1	0	0	0	12053	838	29	2	941	2	PLEK	2	68621303	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	40	68621303	174578070	44	27685										
ANTXR1	84168	broad.mit.edu	37	chr2	69271902	69271902	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgagaatgtcctttattgttTtctccacccgaggaacaacc	7	11	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:69271902T>C	uc002sfg.2	+	3	609	c.253T>C	c.(253-255)TTC>CTC	p.F85L	ANTXR1_uc002sfe.2_Missense_Mutation_p.F85L|ANTXR1_uc002sff.2_Missense_Mutation_p.F85L|ANTXR1_uc002sfd.2_Missense_Mutation_p.F85L	NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	85	Extracellular (Potential).|VWFA.				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						CTTTATTGTTTTCTCCACCCG	0.453									Familial_Infantile_Hemangioma				36	86	---	---	---	---	PASS	C	69271902	C	C	69271902	3	2	73	1	0	0	0	0	1	0	0	0	711	1841	64	5	263	5	ANTXR1	2	69271902	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	650599	69271902	173927471	45	27686										
PTCD3	55037	broad.mit.edu	37	chr2	86361473	86361473	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agagaagagatcctgatgctCatggcaagggacaagcaccc	12	10	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:86361473C>A	uc002sqw.2	+	20	1668	c.1602C>A	c.(1600-1602)CTC>CTA	p.L534L	PTCD3_uc002sqx.1_Silent_p.L124L|SNORD94_uc010fgr.1_5'Flank	NM_017952	NP_060422	Q96EY7	PTCD3_HUMAN	pentatricopeptide repeat domain 3 precursor	534						mitochondrion	protein binding			ovary(1)	1						TCCTGATGCTCATGGCAAGGG	0.448													15	37	---	---	---	---	PASS	A	86361473	A	A	86361473	2	1	73	1	0	0	0	0	0	0	0	1	12729	813	29	2		2	PTCD3	2	86361473	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	17089571	86361473	156837900	46	27687										
AFF3	3899	broad.mit.edu	37	chr2	100209739	100209739	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcggtgcgctctcagagtccTtggtggcaggggcgctcaat	16	11	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:100209739T>C	uc002tag.2	-	14	2620	c.2384A>G	c.(2383-2385)AAG>AGG	p.K795R	AFF3_uc002taf.2_Missense_Mutation_p.K820R|AFF3_uc010fiq.1_Missense_Mutation_p.K795R|AFF3_uc010yvr.1_Missense_Mutation_p.K948R|AFF3_uc002tah.1_Missense_Mutation_p.K820R	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	795					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						CTCAGAGTCCTTGGTGGCAGG	0.597													24	42	---	---	---	---	PASS	C	100209739	C	C	100209739	3	2	73	1	0	0	0	0	1	0	0	0	358	1609	56	5	1340	5	AFF3	2	100209739	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	13848266	100209739	142989634	47	27688										
SLC9A2	6549	broad.mit.edu	37	chr2	103318900	103318900	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aaaaataaggaaggtcacgtCcagtgaaactgatgaaattc	9	6	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:103318900C>G	uc002tca.2	+	9	1926	c.1784C>G	c.(1783-1785)TCC>TGC	p.S595C		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	595	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						AAGGTCACGTCCAGTGAAACT	0.303													40	90	---	---	---	---	PASS	G	103318900	G	G	103318900	3	3	73	1	0	0	0	0	1	0	0	0	14712	855	30	2	1818	2	SLC9A2	2	103318900	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	3109161	103318900	139880473	48	27689										
FAM123C	205147	broad.mit.edu	37	chr2	131519750	131519750	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcagccagggaggggacaggCccctggtcagtccttccagg	16	13	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:131519750C>A	uc002trw.2	+	2	295	c.105C>A	c.(103-105)GGC>GGA	p.G35G	FAM123C_uc010fmv.2_Silent_p.G35G|FAM123C_uc010fms.1_Silent_p.G35G|FAM123C_uc010fmt.1_Silent_p.G35G|FAM123C_uc010fmu.1_Silent_p.G35G	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	35										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		AGGGGACAGGCCCCTGGTCAG	0.617													9	7	---	---	---	---	PASS	A	131519750	A	A	131519750	2	1	73	1	0	0	0	0	0	0	0	1	5424	726	26	3		3	FAM123C	2	131519750	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	28200850	131519750	111679623	49	27690										
FAP	2191	broad.mit.edu	37	chr2	163044862	163044862	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	accttacactctgactgcagGgaccaccatacctaaaggaa	7	13	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:163044862G>T	uc002ucd.2	-	20	1839	c.1631C>A	c.(1630-1632)CCC>CAC	p.P544H	FAP_uc010fpc.2_Missense_Mutation_p.P93H|FAP_uc010zct.1_Missense_Mutation_p.P519H|FAP_uc010fpd.2_Missense_Mutation_p.P23H	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	544	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						CTGACTGCAGGGACCACCATA	0.403													25	26	---	---	---	---	PASS	T	163044862	T	T	163044862	3	4	73	1	0	0	0	0	1	0	0	0	5673	1232	43	3	679	3	FAP	2	163044862	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	31525112	163044862	80154511	50	27691										
LRP2	4036	broad.mit.edu	37	chr2	170044654	170044654	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tccacagtcattatcctcatCacagacgaaggttttactaa	5	11	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:170044654C>A	uc002ues.2	-	49	9367	c.9154G>T	c.(9154-9156)GAT>TAT	p.D3052Y		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3052	LDL-receptor class A 24.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TTATCCTCATCACAGACGAAG	0.512													51	73	---	---	---	---	PASS	A	170044654	A	A	170044654	3	1	73	1	0	0	0	0	1	0	0	0	8956	826	29	2	4937	2	LRP2	2	170044654	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	6999792	170044654	73154719	51	27692										
TTN	7273	broad.mit.edu	37	chr2	179400049	179400049	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gctcagaccaaatttattttCagctattacccggaactggt	7	10	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:179400049C>T	uc010zfg.1	-	307	93813	c.93589G>A	c.(93589-93591)GAA>AAA	p.E31197K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E24892K|TTN_uc010zfi.1_Missense_Mutation_p.E24825K|TTN_uc010zfj.1_Missense_Mutation_p.E24700K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32124							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)			AATTTATTTTCAGCTATTACC	0.423													69	117	---	---	---	---	PASS	T	179400049	T	T	179400049	3	4	73	1	0	0	0	0	1	0	0	0	16732	835	29	2	6706	2	TTN	2	179400049	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	9355395	179400049	63799324	52	27693										
TTN	7273	broad.mit.edu	37	chr2	179418006	179418006	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	caagattcttctcatcttttCtccatgtgacagtaggtgga	8	9	4	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:179418006C>G	uc010zfg.1	-	284	82141	c.81917G>C	c.(81916-81918)AGA>ACA	p.R27306T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R21001T|TTN_uc010zfi.1_Missense_Mutation_p.R20934T|TTN_uc010zfj.1_Missense_Mutation_p.R20809T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28233							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)			CTCATCTTTTCTCCATGTGAC	0.428													88	143	---	---	---	---	PASS	G	179418006	G	G	179418006	3	3	73	1	0	0	0	0	1	0	0	0	16732	913	32	2	18470	2	TTN	2	179418006	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	17957	179418006	63781367	53	27694										
COL5A2	1290	broad.mit.edu	37	chr2	189975051	189975051	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tccagcacatcctggcattcTatcttgtcacagagaatggc	8	12	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:189975051T>C	uc002uqk.2	-	2	497	c.222A>G	c.(220-222)ATA>ATG	p.I74M		NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	74	VWFC.				axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			CCTGGCATTCTATCTTGTCAC	0.507													42	64	---	---	---	---	PASS	C	189975051	C	C	189975051	3	2	73	1	0	0	0	0	1	0	0	0	3697	1512	53	5	4489	5	COL5A2	2	189975051	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	10557045	189975051	53224322	54	27695										
FZD7	8324	broad.mit.edu	37	chr2	202900175	202900175	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgctgtgctgcgcctcgacgCtctttaccgttctcacctac	8	16	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:202900175C>A	uc002uyw.1	+	1	866	c.805C>A	c.(805-807)CTC>ATC	p.L269I		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	269	Helical; Name=1; (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(2)|ovary(1)|breast(1)	4						CGCCTCGACGCTCTTTACCGT	0.642											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	194	---	---	---	---	PASS	A	202900175	A	A	202900175	3	1	73	1	0	0	0	0	1	0	0	0	6135	797	28	3	807	3	FZD7	2	202900175	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	12925124	202900175	40299198	55	27696										
PARD3B	117583	broad.mit.edu	37	chr2	206041301	206041301	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gtccacaagacaaacagaaaGgtaagagtctattcatttta	7	7	2	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:206041301G>C	uc002var.1	+	13	2131	c.1924G>C	c.(1924-1926)GGT>CGT	p.G642R	PARD3B_uc010fub.1_Missense_Mutation_p.G642R|PARD3B_uc002vao.1_Missense_Mutation_p.G642R|PARD3B_uc002vap.1_Missense_Mutation_p.G580R|PARD3B_uc002vaq.1_Missense_Mutation_p.G642R	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	642					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		CAAACAGAAAGGTAAGAGTCT	0.353													11	38	---	---	---	---	PASS	C	206041301	C	C	206041301	3	2	73	1	0	0	0	0	1	0	0	0	11444	1014	35	4	1974	4	PARD3B	2	206041301	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	3141126	206041301	37158072	56	27697										
TMBIM1	64114	broad.mit.edu	37	chr2	219143279	219143279	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aggatcaggtaggtgacaacGaagacagcactagggacaaa	13	7	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:219143279G>C	uc002vho.1	-	7	1158	c.432C>G	c.(430-432)TTC>TTG	p.F144L	PNKD_uc002vhn.2_Intron|TMBIM1_uc002vhp.1_Missense_Mutation_p.F144L|TMBIM1_uc010zjz.1_5'UTR|TMBIM1_uc010zka.1_Missense_Mutation_p.F33L	NM_022152	NP_071435	Q969X1	TMBI1_HUMAN	transmembrane BAX inhibitor motif containing 1	144	Helical; (Potential).					integral to membrane					0		Renal(207;0.0474)		Epithelial(149;8.56e-07)|all cancers(144;0.000154)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGGTGACAACGAAGACAGCAC	0.587													29	36	---	---	---	---	PASS	C	219143279	C	C	219143279	3	2	73	1	0	0	0	0	1	0	0	0	15978	1049	37	2	531	2	TMBIM1	2	219143279	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	13101978	219143279	24056094	57	27698										
TTLL4	9654	broad.mit.edu	37	chr2	219609911	219609911	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccctcatctacagtctctttCccaacgttccccctaccatc	2	20	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:219609911C>T	uc002viy.2	+	6	2111	c.1741C>T	c.(1741-1743)CCC>TCC	p.P581S	TTLL4_uc010zkl.1_Missense_Mutation_p.P416S|TTLL4_uc010fvx.2_Missense_Mutation_p.P581S|TTLL4_uc010zkm.1_5'Flank	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	581					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)		CAGTCTCTTTCCCAACGTTCC	0.493													63	119	---	---	---	---	PASS	T	219609911	T	T	219609911	3	4	73	1	0	0	0	0	1	0	0	0	16726	855	30	2	1755	2	TTLL4	2	219609911	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	466632	219609911	23589462	58	27699										
SLC4A3	6508	broad.mit.edu	37	chr2	220501117	220501117	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tctgctgggagctcagccgcTgcttgtggttggcttctctg	14	11	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:220501117T>C	uc002vmp.3	+	15	2554	c.2285T>C	c.(2284-2286)CTG>CCG	p.L762P	SLC4A3_uc002vmo.3_Missense_Mutation_p.L789P|SLC4A3_uc010fwm.2_Missense_Mutation_p.L312P|SLC4A3_uc010fwn.1_Missense_Mutation_p.L271P	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	762	Helical; (Potential).|Membrane (anion exchange).				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCTCAGCCGCTGCTTGTGGTT	0.617													37	38	---	---	---	---	PASS	C	220501117	C	C	220501117	3	2	73	1	0	0	0	0	1	0	0	0	14655	1580	55	5	2420	5	SLC4A3	2	220501117	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	891206	220501117	22698256	59	27700										
SEPT2	4735	broad.mit.edu	37	chr2	242274555	242274555	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttaaaggtgaatcaggtctaGgaaaatcgactctcataaac	8	7	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:242274555G>T	uc002wbc.2	+	5	566	c.145G>T	c.(145-147)GGA>TGA	p.G49*	SEPT2_uc002wbd.2_Nonsense_Mutation_p.G49*|SEPT2_uc002wbf.2_Nonsense_Mutation_p.G49*|SEPT2_uc002wbg.2_Nonsense_Mutation_p.G49*|SEPT2_uc002wbh.2_Nonsense_Mutation_p.G49*|SEPT2_uc010zop.1_Nonsense_Mutation_p.G84*	NM_001008491	NP_001008491	Q15019	SEPT2_HUMAN	septin 2	49	GTP.				cell division|mitosis	actin cytoskeleton|cleavage furrow|condensed chromosome kinetochore|midbody|nucleolus|septin complex|spindle	GTP binding			central_nervous_system(1)	1		all_cancers(19;7.62e-41)|all_epithelial(40;1.71e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.24e-34)|all cancers(36;7.15e-32)|OV - Ovarian serous cystadenocarcinoma(60;1.21e-15)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;3.16e-06)|Lung(119;7.81e-05)|LUSC - Lung squamous cell carcinoma(224;0.000742)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0889)		ATCAGGTCTAGGAAAATCGAC	0.289													7	31	---	---	---	---	PASS	T	242274555	T	T	242274555	4	4	73	1	0	0	0	0	0	1	0	0	14064	1001	35	3	155	3	SEPT2	2	242274555	Nonsense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	21773438	242274555	924818	60	27701										
FARP2	9855	broad.mit.edu	37	chr2	242371150	242371150	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gtccgtaaactaagcttcaaGaggaaaagatttcttatcaa	7	7	3	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr2:242371150G>A	uc002wbi.1	+	9	945	c.828G>A	c.(826-828)AAG>AAA	p.K276K	FARP2_uc010zoq.1_Silent_p.K276K|FARP2_uc010zor.1_Silent_p.K276K	NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	276	FERM.				axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		TAAGCTTCAAGAGGAAAAGAT	0.299													40	55	---	---	---	---	PASS	A	242371150	A	A	242371150	2	1	73	1	0	0	0	0	0	0	0	1	5677	933	33	2		2	FARP2	2	242371150	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	96595	242371150	828223	61	27702										
CYP8B1	1582	broad.mit.edu	37	chr3	42916392	42916392	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tagcttcctccctcacagccCgaatagcttctgggtgcttc	8	15	2	0	rs148690797		TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:42916392C>T	uc003cmh.2	-	1	1242	c.917G>A	c.(916-918)CGG>CAG	p.R306Q	CCBP2_uc003cmd.1_Intron|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Missense_Mutation_p.R306Q	NM_004391	NP_004382	Q9UNU6	CP8B1_HUMAN	cytochrome P450, family 8, subfamily B,	306					bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	7alpha-hydroxycholest-4-en-3-one 12alpha-hydroxylase activity|electron carrier activity|heme binding|oxygen binding|sterol 12-alpha-hydroxylase activity			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.213)|Kidney(284;0.249)		CCTCACAGCCCGAATAGCTTC	0.587													11	9	---	---	---	---	PASS	T	42916392	T	T	42916392	3	4	73	1	0	0	0	0	1	0	0	0	4198	652	23	1	592	1	CYP8B1	3	42916392	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08		42916392	155106038	62	27703										
CCR2	729230	broad.mit.edu	37	chr3	46399319	46399319	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctctcccattgtgggctcacTctgctgcaaatgagtgggtc	11	12	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:46399319T>C	uc003cpn.3	+	2	786	c.301T>C	c.(301-303)TCT>CCT	p.S101P	CCR2_uc003cpm.3_Missense_Mutation_p.S101P	NM_001123041	NP_001116513	P41597	CCR2_HUMAN	chemokine (C-C motif) receptor 2 isoform A	101	Extracellular (Potential).				astrocyte cell migration|blood vessel remodeling|cellular defense response|chemokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response|interspecies interaction between organisms|JAK-STAT cascade|monocyte extravasation|negative regulation of adenylate cyclase activity|negative regulation of angiogenesis|negative regulation of eosinophil degranulation|negative regulation of type 2 immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of immune complex clearance by monocytes and macrophages|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-2 production|positive regulation of monocyte chemotaxis|positive regulation of T cell chemotaxis|positive regulation of T cell extravasation|positive regulation of T-helper 1 type immune response|positive regulation of tumor necrosis factor biosynthetic process|regulation of vascular endothelial growth factor production|T-helper 17 cell chemotaxis	cytosol|dendrite|integral to plasma membrane|perikaryon|perinuclear region of cytoplasm|soluble fraction	C-C chemokine receptor activity|CCR2 chemokine receptor binding|protein homodimerization activity			lung(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0174)|Kidney(197;0.0206)		GTGGGCTCACTCTGCTGCAAA	0.433													111	170	---	---	---	---	PASS	C	46399319	C	C	46399319	3	2	73	1	0	0	0	0	1	0	0	0	2941	1551	54	5	303	5	CCR2	3	46399319	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	3482927	46399319	151623111	63	27704										
ALS2CL	259173	broad.mit.edu	37	chr3	46724759	46724759	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agcccccagcacggggaagtCcttcttcccatgcagggcct	11	16	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:46724759C>A	uc003cqa.1	-	10	1160	c.970G>T	c.(970-972)GAC>TAC	p.D324Y	ALS2CL_uc003cpz.1_5'Flank|ALS2CL_uc003cqb.1_Missense_Mutation_p.D324Y|ALS2CL_uc003cqc.1_RNA	NM_147129	NP_667340	Q60I27	AL2CL_HUMAN	ALS2 C-terminal like isoform 1	324					endosome organization|regulation of Rho protein signal transduction		GTPase activator activity|identical protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)|central_nervous_system(2)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000726)|KIRC - Kidney renal clear cell carcinoma(197;0.0171)|Kidney(197;0.0202)		ACGGGGAAGTCCTTCTTCCCA	0.667													14	9	---	---	---	---	PASS	A	46724759	A	A	46724759	3	1	73	1	0	0	0	0	1	0	0	0	551	855	30	2	1959	2	ALS2CL	3	46724759	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	325440	46724759	151297671	64	27705										
SETD2	29072	broad.mit.edu	37	chr3	47142990	47142990	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	caaacgttaactctgagcctGaaggaaccagtttggtggta	11	8	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:47142990G>A	uc003cqs.2	-	8	5026	c.4973C>T	c.(4972-4974)TCA>TTA	p.S1658L	SETD2_uc003cqv.2_Missense_Mutation_p.S1725L	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1658	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		CTCTGAGCCTGAAGGAACCAG	0.378			N|F|S|Mis		clear cell renal carcinoma								90	71	---	---	---	---	PASS	A	47142990	A	A	47142990	3	1	73	1	0	0	0	0	1	0	0	0	14131	1294	45	2	2777	2	SETD2	3	47142990	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	418231	47142990	150879440	65	27706										
SLC25A20	788	broad.mit.edu	37	chr3	48895967	48895967	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gctgggaaggctcggatcatCactgcattgaaccctttgta	11	10	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:48895967C>T	uc003cva.3	-	8	991	c.816G>A	c.(814-816)GTG>GTA	p.V272V	SLC25A20_uc011bbw.1_Silent_p.V222V|SLC25A20_uc010hkj.2_Silent_p.V199V	NM_000387	NP_000378	O43772	MCAT_HUMAN	carnitine/acylcarnitine translocase	272	Solcar 3.|Helical; Name=6; (Potential).				carnitine shuttle|cellular lipid metabolic process|regulation of fatty acid oxidation	integral to membrane|mitochondrial inner membrane	acyl carnitine transporter activity				0				BRCA - Breast invasive adenocarcinoma(193;0.000168)|Kidney(197;0.00231)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	L-Carnitine(DB00583)	CTCGGATCATCACTGCATTGA	0.537													50	32	---	---	---	---	PASS	T	48895967	T	T	48895967	2	4	73	1	0	0	0	0	0	0	0	1	14483	813	29	2		2	SLC25A20	3	48895967	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	1752977	48895967	149126463	66	27707										
MAGI1	9223	broad.mit.edu	37	chr3	65365050	65365050	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctgcaccacggtgctgaccaCgccgctgcccccgccgccgc	11	22	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:65365050C>T	uc003dmn.2	-	17	3407	c.2881G>A	c.(2881-2883)GTG>ATG	p.V961M	MAGI1_uc003dmm.2_Missense_Mutation_p.V989M|MAGI1_uc003dmo.2_Missense_Mutation_p.V989M|MAGI1_uc003dmp.2_Missense_Mutation_p.V961M|MAGI1_uc003dmq.1_RNA|MAGI1_uc010hnx.1_Missense_Mutation_p.V272M	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	989	PDZ 5.|Interaction with FCHSD2.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		GTGCTGACCAcgccgctgccc	0.493													13	6	---	---	---	---	PASS	T	65365050	T	T	65365050	3	4	73	1	0	0	0	0	1	0	0	0	9190	536	19	1	1681	1	MAGI1	3	65365050	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	16469083	65365050	132657380	67	27708										
CRYBG3	131544	broad.mit.edu	37	chr3	97611834	97611834	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atcaattcgtgtcattggtgGagtgtgagtatcatattttt	10	4	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:97611834G>A	uc003drx.2	+	8	1791	c.1727G>A	c.(1726-1728)GGA>GAA	p.G576E		NM_153605	NP_705833			beta-gamma crystallin domain containing 3												0						GTCATTGGTGGAGTGTGAGTA	0.318													41	103	---	---	---	---	PASS	A	97611834	A	A	97611834	3	1	73	1	0	0	0	0	1	0	0	0	3913	1174	41	2	1757	2	CRYBG3	3	97611834	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	32246784	97611834	100410596	68	27709										
OR5H2	79310	broad.mit.edu	37	chr3	98002463	98002463	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggcgtaaggaaagccttttcCacctgtggagcccatctctt	10	12	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:98002463C>A	uc003dsj.1	+	1	732	c.732C>A	c.(730-732)TCC>TCA	p.S244S		NM_001005482	NP_001005482	Q8NGV7	OR5H2_HUMAN	olfactory receptor, family 5, subfamily H,	244	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3						AAGCCTTTTCCACCTGTGGAG	0.403													28	87	---	---	---	---	PASS	A	98002463	A	A	98002463	2	1	73	1	0	0	0	0	0	0	0	1	11162	581	21	3		3	OR5H2	3	98002463	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	390629	98002463	100019967	69	27710										
CLDND1	56650	broad.mit.edu	37	chr3	98240031	98240031	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tttgggtatggtgatacaccGtctccacaatcccactgtgc	9	12	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:98240031G>A	uc003dsp.2	-	2	1118	c.238C>T	c.(238-240)CGG>TGG	p.R80W	CLDND1_uc003dso.2_Missense_Mutation_p.R80W|CLDND1_uc003dsq.2_Missense_Mutation_p.R80W|CLDND1_uc003dss.2_Missense_Mutation_p.R80W|CLDND1_uc003dsr.2_Intron|CLDND1_uc003dst.2_Missense_Mutation_p.R103W|CLDND1_uc003dsu.2_Missense_Mutation_p.R80W|CLDND1_uc003dsv.2_Missense_Mutation_p.R80W	NM_019895	NP_063948	Q9NY35	CLDN1_HUMAN	claudin domain containing 1 protein isoform a	80						integral to membrane				ovary(1)	1						GTGATACACCGTCTCCACAAT	0.383													53	131	---	---	---	---	PASS	A	98240031	A	A	98240031	3	1	73	1	0	0	0	0	1	0	0	0	3493	1144	40	1	539	1	CLDND1	3	98240031	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	237568	98240031	99782399	70	27711										
ZBTB20	26137	broad.mit.edu	37	chr3	114070355	114070355	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	acgttctgtgacacgatgcgCgtgcactcgtcgatgactgt	12	11	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:114070355C>T	uc003ebi.2	-	4	750	c.570G>A	c.(568-570)ACG>ACA	p.T190T	ZBTB20_uc003ebj.2_Silent_p.T117T|ZBTB20_uc010hqp.2_Silent_p.T117T|ZBTB20_uc003ebk.2_Silent_p.T117T|ZBTB20_uc003ebl.2_Silent_p.T117T|ZBTB20_uc003ebm.2_Silent_p.T117T|ZBTB20_uc003ebn.2_Silent_p.T117T|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	190					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		ACACGATGCGCGTGCACTCGT	0.637													22	65	---	---	---	---	PASS	T	114070355	T	T	114070355	2	4	73	1	0	0	0	0	0	0	0	1	17526	755	27	1		1	ZBTB20	3	114070355	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	15830324	114070355	83952075	71	27712										
EPHB1	2047	broad.mit.edu	37	chr3	134851892	134851892	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	catcaccacaaaccaagccgGtaagtctggaggcttctgtg	10	12	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:134851892G>C	uc003eqt.2	+	5	1517	c.1297_splice	c.e5+1	p.A433_splice	EPHB1_uc003equ.2_Splice_Site	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor							integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						AACCAAGCCGGTAAGTCTGGA	0.567													13	43	---	---	---	---	PASS	C	134851892	C	C	134851892	5	2	73	1	0	0	0	0	0	0	1	0	5174	1275	44	4	1316	4	EPHB1	3	134851892	Splice_Site	SNP	G	TCGA-34-5927-01A-11D-1817-08	20781537	134851892	63170538	72	27713										
EPHB1	2047	broad.mit.edu	37	chr3	134881015	134881015	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aagatgtgcttccagactctGactgacggtaagggtcgggg	15	8	1	4			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:134881015G>T	uc003eqt.2	+	7	1798	c.1578G>T	c.(1576-1578)CTG>CTT	p.L526L	EPHB1_uc003equ.2_Silent_p.L87L	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	526	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						TCCAGACTCTGACTGACGGTA	0.557													25	69	---	---	---	---	PASS	T	134881015	T	T	134881015	2	4	73	1	0	0	0	0	0	0	0	1	5174	1277	45	2		2	EPHB1	3	134881015	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	29123	134881015	63141415	73	27714										
ATR	545	broad.mit.edu	37	chr3	142241604	142241604	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cagctgaatcttgagctcggCtattatcagcatacgcaagg	10	10	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:142241604C>A	uc003eux.3	-	23	4354	c.4232G>T	c.(4231-4233)AGC>ATC	p.S1411I		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1411					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						TTGAGCTCGGCTATTATCAGC	0.358								Other_conserved_DNA_damage_response_genes					83	233	---	---	---	---	PASS	A	142241604	A	A	142241604	3	1	73	1	0	0	0	0	1	0	0	0	1204	797	28	3	3802	3	ATR	3	142241604	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	7360589	142241604	55780826	74	27715										
SLITRK3	22865	broad.mit.edu	37	chr3	164906519	164906519	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctgtggcattgcatttggatGccagtaaggtccacaccttc	10	11	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:164906519G>A	uc003fej.3	-	2	2544	c.2100C>T	c.(2098-2100)GGC>GGT	p.G700G	SLITRK3_uc003fek.2_Silent_p.G700G	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	700	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GCATTTGGATGCCAGTAAGGT	0.453										HNSCC(40;0.11)			33	63	---	---	---	---	PASS	A	164906519	A	A	164906519	2	1	73	1	0	0	0	0	0	0	0	1	14744	1306	46	3		3	SLITRK3	3	164906519	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	22664915	164906519	33115911	75	27716										
MECOM	2122	broad.mit.edu	37	chr3	168807873	168807873	+	Missense_Mutation	SNP	T	C	C													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tccttcatgtaaattacttgTcactggttcctttcctgttt							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:168807873T>C	uc003ffi.3	-	14	3021	c.2752A>G	c.(2752-2754)ACA>GCA	p.T918A	MECOM_uc010hwk.1_Missense_Mutation_p.T932A|MECOM_uc003ffj.3_Missense_Mutation_p.T983A|MECOM_uc011bpi.1_Missense_Mutation_p.T910A|MECOM_uc003ffn.3_Missense_Mutation_p.T918A|MECOM_uc003ffk.2_Missense_Mutation_p.T909A|MECOM_uc003ffl.2_Missense_Mutation_p.T1069A|MECOM_uc011bpj.1_Missense_Mutation_p.T1106A|MECOM_uc011bpk.1_Missense_Mutation_p.T908A	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	918	Asp/Glu-rich (acidic).				apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						AAATTACTTGTCACTGGTTCC	0.433													58	207	---	---	---	---	PASS	C	168807873	C	C	168807873	3	2	73	1	0	0	0	0	1	0	0	0	9422	1667	58	5	415	5	MECOM	3	168807873	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	3901354	168807873	29214557	76	27717	579	2								
MECOM	2122	broad.mit.edu	37	chr3	168807874	168807874	+	Silent	SNP	C	A	A													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccttcatgtaaattacttgtCactggttcctttcctgtttt							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:168807874C>A	uc003ffi.3	-	14	3020	c.2751G>T	c.(2749-2751)GTG>GTT	p.V917V	MECOM_uc010hwk.1_Silent_p.V931V|MECOM_uc003ffj.3_Silent_p.V982V|MECOM_uc011bpi.1_Silent_p.V909V|MECOM_uc003ffn.3_Silent_p.V917V|MECOM_uc003ffk.2_Silent_p.V908V|MECOM_uc003ffl.2_Silent_p.V1068V|MECOM_uc011bpj.1_Silent_p.V1105V|MECOM_uc011bpk.1_Silent_p.V907V	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	917	Asp/Glu-rich (acidic).				apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						AATTACTTGTCACTGGTTCCT	0.433													59	207	---	---	---	---	PASS	A	168807874	A	A	168807874	2	1	73	1	0	0	0	0	0	0	0	1	9422	813	29	2		2	MECOM	3	168807874	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	1	168807874	29214556	77	27718	579	2								
CHRD	8646	broad.mit.edu	37	chr3	184100484	184100484	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agggcgtagggggcatcaccCtgctcactctcagtgacaca	12	13	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:184100484C>A	uc003fov.2	+	8	1150	c.904C>A	c.(904-906)CTG>ATG	p.L302M	CHRD_uc003fow.2_Translation_Start_Site|CHRD_uc003fox.2_Missense_Mutation_p.L302M|CHRD_uc003foy.2_Translation_Start_Site|CHRD_uc010hyc.2_Translation_Start_Site|CHRD_uc011brr.1_Translation_Start_Site	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	302	CHRD 2.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GGGCATCACCCTGCTCACTCT	0.592													89	67	---	---	---	---	PASS	A	184100484	A	A	184100484	3	1	73	1	0	0	0	0	1	0	0	0	3372	680	24	3	934	3	CHRD	3	184100484	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	15292610	184100484	13921946	78	27719										
KIAA0226	9711	broad.mit.edu	37	chr3	197431510	197431510	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctgtgctgcagccacagctcGgcaacagcacgttcactggc	11	15	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr3:197431510G>T	uc003fyc.2	-	4	549	c.366C>A	c.(364-366)GCC>GCA	p.A122A	KIAA0226_uc003fyd.3_Silent_p.A62A|KIAA0226_uc003fye.1_5'Flank|KIAA0226_uc003fyf.2_5'UTR|KIAA0226_uc003fyg.2_Silent_p.A115A	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	122	RUN.				autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		GCCACAGCTCGGCAACAGCAC	0.557													4	91	---	---	---	---	PASS	T	197431510	T	T	197431510	2	4	73	1	0	0	0	0	0	0	0	1	8162	1103	39	1		1	KIAA0226	3	197431510	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	13331026	197431510	590920	79	27720										
ARAP2	116984	broad.mit.edu	37	chr4	36135012	36135012	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcccatggatgtataatgttCtgtaaagtttaaaaagcatt	8	5	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr4:36135012C>T	uc003gsq.1	-	20	3602	c.3264_splice	c.e20-1	p.R1088_splice		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH						regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						GTATAATGTTCTGTAAAGTTT	0.338													21	9	---	---	---	---	PASS	T	36135012	T	T	36135012	5	4	73	1	0	0	0	0	0	0	1	0	839	927	32	2	1907	2	ARAP2	4	36135012	Splice_Site	SNP	C	TCGA-34-5927-01A-11D-1817-08		36135012	155019264	80	27721										
KDR	3791	broad.mit.edu	37	chr4	55958788	55958788	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cctcaacctttcttacctttCgcgatgccaagaactccatg	5	15	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr4:55958788C>G	uc003has.2	-	22	3367	c.3065G>C	c.(3064-3066)CGA>CCA	p.R1022P	KDR_uc003hat.1_Missense_Mutation_p.R1022P	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	1022	Protein kinase.|Cytoplasmic (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)	TCTTACCTTTCGCGATGCCAA	0.458			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			17	19	---	---	---	---	PASS	G	55958788	G	G	55958788	3	3	73	1	0	0	0	0	1	0	0	0	8139	884	31	2	1041	2	KDR	4	55958788	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	19823776	55958788	135195488	81	27722										
CDS1	1040	broad.mit.edu	37	chr4	85530642	85530642	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atgatctcgttgtttttcctGatcatctatatgggatcctt	7	8	3	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr4:85530642G>A	uc011ccv.1	+	3	804	c.306G>A	c.(304-306)CTG>CTA	p.L102L		NM_001263	NP_001254	Q92903	CDS1_HUMAN	CDP-diacylglycerol synthase 1	102	Helical; (Potential).				signal transduction|visual perception	endoplasmic reticulum membrane|integral to membrane	diacylglycerol cholinephosphotransferase activity|phosphatidate cytidylyltransferase activity			large_intestine(2)|ovary(1)|breast(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.00101)		TGTTTTTCCTGATCATCTATA	0.343													50	29	---	---	---	---	PASS	A	85530642	A	A	85530642	2	1	73	1	0	0	0	0	0	0	0	1	3177	1277	45	2		2	CDS1	4	85530642	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	29571854	85530642	105623634	82	27723										
TET2	54790	broad.mit.edu	37	chr4	106156934	106156935	+	Frame_Shift_Ins	INS	-	T	T													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	actggaaattccaacatgccINStggggggctcccaaggcaag							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr4:106156934_106156935insT	uc003hxk.2	+	3	2221_2222	c.1835_1836insT	c.(1834-1836)CCTfs	p.P612fs	TET2_uc011cez.1_Frame_Shift_Ins_p.P633fs|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Frame_Shift_Ins_p.P612fs|TET2_uc003hxi.1_Frame_Shift_Ins_p.P612fs	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	612	Gln-rich.				cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen	p.L590_H650del(1)		haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		TCCAACATGCCTGGGGGGCTCC	0.45			Mis N|F		MDS								22	22	---	---	---	---		T	106156935	T	T	106156934	7	5	73	1	0	1	1	0	0	0	0	0	15767	681	24	0	1837	0	TET2	4	106156934	Frame_Shift_Ins	INS	-	TCGA-34-5927-01A-11D-1817-08	20626292	106156934	84997342	83	27724										
LEF1	51176	broad.mit.edu	37	chr4	109002749	109002749	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cacctccacctacctggacaTggaagtgtcgactgacagtg	10	13	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr4:109002749T>C	uc003hyt.1	-	6	1370	c.715A>G	c.(715-717)ATG>GTG	p.M239V	LEF1_uc011cfj.1_Intron|LEF1_uc011cfk.1_Intron|LEF1_uc003hyu.1_Intron|LEF1_uc003hyv.1_Intron|LEF1_uc010imb.1_RNA|LEF1_uc003hyw.1_5'Flank	NM_016269	NP_057353	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1 isoform 1	239	Pro-rich.				canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		TACCTGGACATGGAAGTGTCG	0.557													17	6	---	---	---	---	PASS	C	109002749	C	C	109002749	3	2	73	1	0	0	0	0	1	0	0	0	8714	1464	51	5	592	5	LEF1	4	109002749	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	2845815	109002749	82151527	84	27725										
ALPK1	80216	broad.mit.edu	37	chr4	113351678	113351678	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gaattgaaaaacttacatctGtgtgaagccaaagaggcctt	9	7	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr4:113351678G>A	uc003iap.3	+	11	1254	c.975G>A	c.(973-975)CTG>CTA	p.L325L	ALPK1_uc003ian.3_Silent_p.L325L|ALPK1_uc011cfx.1_Silent_p.L247L|ALPK1_uc003iao.3_Intron|ALPK1_uc010imo.2_Silent_p.L153L	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	325							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		ACTTACATCTGTGTGAAGCCA	0.428													30	17	---	---	---	---	PASS	A	113351678	A	A	113351678	2	1	73	1	0	0	0	0	0	0	0	1	544	1364	48	3		3	ALPK1	4	113351678	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	4348929	113351678	77802598	85	27726										
LARP7	51574	broad.mit.edu	37	chr4	113565913	113565913	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttgaaaaaaagaaacggtcaCgagttaaacaggtgcttgca	10	6	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr4:113565913C>T	uc003iay.2	+	2	366	c.88C>T	c.(88-90)CGA>TGA	p.R30*	LARP7_uc003iaz.2_Nonsense_Mutation_p.R37*|LARP7_uc003iba.2_Translation_Start_Site|LARP7_uc003ibb.2_Nonsense_Mutation_p.R30*	NM_016648	NP_057732	Q4G0J3	LARP7_HUMAN	La ribonucleoprotein domain family, member 7	30	HTH La-type RNA-binding.				RNA processing	nucleoplasm|ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(3)	3		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		GAAACGGTCACGAGTTAAACA	0.373													4	69	---	---	---	---	PASS	T	113565913	T	T	113565913	4	4	73	1	0	0	0	0	0	1	0	0	8633	528	19	1	90	1	LARP7	4	113565913	Nonsense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	214235	113565913	77588363	86	27727										
SYNPO2	171024	broad.mit.edu	37	chr4	119979008	119979008	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gattctgcaatcatgtccatGgaaaccaggtctgattactg	9	9	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr4:119979008G>T	uc010inb.2	+	5	3901	c.3705G>T	c.(3703-3705)ATG>ATT	p.M1235I	SYNPO2_uc011cgh.1_3'UTR|SYNPO2_uc010inc.2_Missense_Mutation_p.M1105I	NM_133477	NP_597734	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform a	Error:Variant_position_missing_in_Q9UMS6_after_alignment						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						TCATGTCCATGGAAACCAGGT	0.433													35	30	---	---	---	---	PASS	T	119979008	T	T	119979008	3	4	73	1	0	0	0	0	1	0	0	0	15454	1348	47	3	3835	3	SYNPO2	4	119979008	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	6413095	119979008	71175268	87	27728										
PRDM5	11107	broad.mit.edu	37	chr4	121616416	121616416	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agcattttcttcaggctaaaAgccaaatcacaaacctagaa	5	10	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr4:121616416A>T	uc003idn.2	-	16	1993	c.1743T>A	c.(1741-1743)GCT>GCA	p.A581A	PRDM5_uc003ido.2_Silent_p.A550A|PRDM5_uc010ine.2_3'UTR	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	581	C2H2-type 15.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						TCAGGCTAAAAGCCAAATCAC	0.358													25	14	---	---	---	---	PASS	T	121616416	T	T	121616416	2	4	73	1	0	0	0	0	0	0	0	1	12460	59	3	5		5	PRDM5	4	121616416	Silent	SNP	A	TCGA-34-5927-01A-11D-1817-08	1637408	121616416	69537860	88	27729										
LRBA	987	broad.mit.edu	37	chr4	151773702	151773702	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aatagccacagcttctattaTgtcagaagatacttctaaat	5	8	3	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr4:151773702T>C	uc010ipj.2	-	23	3634	c.3160A>G	c.(3160-3162)ATA>GTA	p.I1054V	LRBA_uc003ilt.3_5'Flank|LRBA_uc003ilu.3_Missense_Mutation_p.I1054V	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1054						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					GCTTCTATTATGTCAGAAGAT	0.373													37	23	---	---	---	---	PASS	C	151773702	C	C	151773702	3	2	73	1	0	0	0	0	1	0	0	0	8931	1464	51	5	5575	5	LRBA	4	151773702	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	30157286	151773702	39380574	89	27730										
ODZ3	55714	broad.mit.edu	37	chr4	183713537	183713537	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gctcgccacaccatgcagacCatccgatccattggctacta	7	16	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr4:183713537C>A	uc003ivd.1	+	25	5749	c.5712C>A	c.(5710-5712)ACC>ACA	p.T1904T		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1904	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CCATGCAGACCATCCGATCCA	0.542													36	16	---	---	---	---	PASS	A	183713537	A	A	183713537	2	1	73	1	0	0	0	0	0	0	0	1	10836	581	21	3		3	ODZ3	4	183713537	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	31939835	183713537	7440739	90	27731										
EXOC3	11336	broad.mit.edu	37	chr5	447756	447756	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cgctggcagacgtcagcaagGactggaggcagagcatcaac	14	11	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr5:447756G>T	uc003jba.2	+	3	381	c.253G>T	c.(253-255)GAC>TAC	p.D85Y		NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein	96					exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CGTCAGCAAGGACTGGAGGCA	0.602													5	8	---	---	---	---	PASS	T	447756	T	T	447756	3	4	73	1	0	0	0	0	1	0	0	0	5303	1174	41	2	259	2	EXOC3	5	447756	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08		447756	180467504	91	27732										
PCDHA3	56145	broad.mit.edu	37	chr5	140182847	140182847	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cgtccgctggcgccacgggcCcggaagctgcactggtggat	16	14	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr5:140182847C>A	uc003lhf.2	+	1	2065	c.2065C>A	c.(2065-2067)CCG>ACG	p.P689T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.P689T	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	689	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCCACGGGCCCGGAAGCTGC	0.632													47	17	---	---	---	---	PASS	A	140182847	A	A	140182847	3	1	73	1	0	0	0	0	1	0	0	0	11525	623	22	3	2067	3	PCDHA3	5	140182847	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	139735091	140182847	40732413	92	27733										
PCDHA6	56142	broad.mit.edu	37	chr5	140208462	140208462	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gacaacggaacaacagttatCagactgaatgcttctgatcg	9	9	2	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr5:140208462C>T	uc003lho.2	+	1	813	c.786C>T	c.(784-786)ATC>ATT	p.I262I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.I262I|PCDHA6_uc011dab.1_Silent_p.I262I	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	262	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAACAGTTATCAGACTGAATG	0.413													10	73	---	---	---	---	PASS	T	140208462	T	T	140208462	2	4	73	1	0	0	0	0	0	0	0	1	11528	816	29	2		2	PCDHA6	5	140208462	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	25615	140208462	40706798	93	27734										
PCDHGA11	56105	broad.mit.edu	37	chr5	140801892	140801892	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aactctcctccaggtacagtGattgctcttctaaatgtgca	7	11	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr5:140801892G>T	uc003lkq.1	+	1	1356	c.1098G>T	c.(1096-1098)GTG>GTT	p.V366V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Silent_p.V366V|PCDHGA11_uc003lkp.1_Silent_p.V366V	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	366	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGTACAGTGATTGCTCTTC	0.373													3	31	---	---	---	---	PASS	T	140801892	T	T	140801892	2	4	73	1	0	0	0	0	0	0	0	1	11552	1277	45	2		2	PCDHGA11	5	140801892	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	593430	140801892	40113368	94	27735										
NR3C1	2908	broad.mit.edu	37	chr5	142680225	142680225	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gtaggggtgagttgtggtaaCgttgcaggaactattgtttt	15	3	0	1	rs138266608		TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr5:142680225C>A	uc003lmz.2	-	5	2064	c.1572G>T	c.(1570-1572)ACG>ACT	p.T524T	NR3C1_uc003lmy.2_Silent_p.T525T|NR3C1_uc003lna.2_Silent_p.T524T|NR3C1_uc003lnb.2_Silent_p.T524T|NR3C1_uc011dbk.1_Silent_p.T127T|NR3C1_uc003lnc.2_Silent_p.T524T|NR3C1_uc003lnd.2_Silent_p.T524T|NR3C1_uc003lne.2_Silent_p.T524T|NR3C1_uc003lnf.2_Silent_p.T525T	NM_000176	NP_000167	P04150	GCR_HUMAN	glucocorticoid receptor isoform alpha	524	Hinge.				chromatin modification|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus|transcription from RNA polymerase II promoter	mitochondrial matrix|nucleoplasm	glucocorticoid receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(2;3.2e-05)|all_hematologic(2;0.000361)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)		Amcinonide(DB00288)|Betamethasone(DB00443)|Budesonide(DB01222)|Dexamethasone(DB01234)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluticasone Propionate(DB00588)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol Etabonate(DB00873)|Methylprednisolone(DB00959)|Mifepristone(DB00834)|Mometasone(DB00764)|Prednisone(DB00635)	GTTGTGGTAACGTTGCAGGAA	0.413													62	50	---	---	---	---	PASS	A	142680225	A	A	142680225	2	1	73	1	0	0	0	0	0	0	0	1	10630	523	19	1		1	NR3C1	5	142680225	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	1878333	142680225	38235035	95	27736										
NSD1	64324	broad.mit.edu	37	chr5	176696631	176696631	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cagctgagatctgccatcctCgagctgttccttccaacatt	7	14	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr5:176696631C>T	uc003mfr.3	+	16	5470	c.5332C>T	c.(5332-5334)CGA>TGA	p.R1778*	NSD1_uc003mft.3_Nonsense_Mutation_p.R1509*|NSD1_uc003mfs.1_Nonsense_Mutation_p.R1675*|NSD1_uc011dfx.1_Nonsense_Mutation_p.R1426*	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1778	PWWP 2.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		CTGCCATCCTCGAGCTGTTCC	0.468			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			45	16	---	---	---	---	PASS	T	176696631	T	T	176696631	4	4	73	1	0	0	0	0	0	1	0	0	10669	876	31	2	5390	2	NSD1	5	176696631	Nonsense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	34016406	176696631	4218629	96	27737										
TMED9	54732	broad.mit.edu	37	chr5	177019318	177019318	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgctgtggctggcgacgcgcGgaagcgcgctctactttcac	14	13	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr5:177019318G>A	uc003mhx.2	+	1	106	c.103G>A	c.(103-105)GGA>AGA	p.G35R	TMED9_uc010jko.2_RNA	NM_017510	NP_059980	Q9BVK6	TMED9_HUMAN	transmembrane emp24 protein transport domain	35					transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|integral to membrane					0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGCGACGCGCGGAAGCGCGCT	0.657													3	2	---	---	---	---	PASS	A	177019318	A	A	177019318	3	1	73	1	0	0	0	0	1	0	0	0	16009	1117	39	1	105	1	TMED9	5	177019318	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	322687	177019318	3895942	97	27738										
BTNL9	153579	broad.mit.edu	37	chr5	180486569	180486569	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tcctggccccgcaccgcgtcGcgctcaccctgcgcgtgccc	11	22	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr5:180486569G>T	uc003mmt.2	+	11	1546	c.1315G>T	c.(1315-1317)GCG>TCG	p.A439S		NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	439	Cytoplasmic (Potential).|B30.2/SPRY.					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCACCGCGTCGCGCTCACCCT	0.726													11	14	---	---	---	---	PASS	T	180486569	T	T	180486569	3	4	73	1	0	0	0	0	1	0	0	0	1568	1087	38	1	1353	1	BTNL9	5	180486569	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	3467251	180486569	428691	98	27739										
ZNF193	7746	broad.mit.edu	37	chr6	28200375	28200375	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctgaggacagagagttggtgCtaaggaaagactgtcctaag	14	6	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr6:28200375C>T	uc003nkq.1	+	4	719	c.604C>T	c.(604-606)CTA>TTA	p.L202L	ZNF193_uc003nkr.1_Silent_p.L202L|ZNF193_uc010jqz.1_Silent_p.L253L	NM_006299	NP_006290	O15535	ZN193_HUMAN	zinc finger protein 193	202					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AGAGTTGGTGCTAAGGAAAGA	0.453													22	44	---	---	---	---	PASS	T	28200375	T	T	28200375	2	4	73	1	0	0	0	0	0	0	0	1	17754	796	28	3		3	ZNF193	6	28200375	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08		28200375	142914692	99	27740										
LTA	4049	broad.mit.edu	37	chr6	31541240	31541240	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aggccacctcctccccactcTacctggcccatgaggtccag	8	19	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr6:31541240T>C	uc011dnu.1	+	4	601	c.388T>C	c.(388-390)TAC>CAC	p.Y130H	LTA_uc003nue.1_Missense_Mutation_p.Y130H|LTA_uc003nuf.2_Intron|LTA_uc003nuh.2_Intron|LTA_uc003nug.2_Intron|LTA_uc010jsr.2_Intron|TNF_uc003nui.2_5'Flank	NM_001159740	NP_001153212	P01374	TNFB_HUMAN	lymphotoxin alpha precursor	130					cell-cell signaling|induction of apoptosis|signal transduction	extracellular space|membrane	cytokine activity|tumor necrosis factor receptor binding				0					Etanercept(DB00005)	CTCCCCACTCTACCTGGCCCA	0.587													101	28	---	---	---	---	PASS	C	31541240	C	C	31541240	3	2	73	1	0	0	0	0	1	0	0	0	9068	1522	53	5	398	5	LTA	6	31541240	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	3340865	31541240	139573827	100	27741										
C6orf10	10665	broad.mit.edu	37	chr6	32261554	32261554	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tttcctgtctttttggtattCcagcgtcactgtctaccttg	7	11	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr6:32261554C>A	uc011dpy.1	-	12	1069	c.896G>T	c.(895-897)GGA>GTA	p.G299V	C6orf10_uc011dpx.1_Missense_Mutation_p.G81V	NM_006781	NP_006772	Q5SRN2	CF010_HUMAN	chromosome 6 open reading frame 10	299						integral to membrane				skin(1)	1						TTTTGGTATTCCAGCGTCACT	0.408													228	78	---	---	---	---	PASS	A	32261554	A	A	32261554	3	1	73	1	0	0	0	0	1	0	0	0	2317	855	30	2	799	2	C6orf10	6	32261554	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	720314	32261554	138853513	101	27742										
COL19A1	1310	broad.mit.edu	37	chr6	70909315	70909315	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttcttctatacatgaagagaGgatggctgtattcctatccc	8	9	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr6:70909315G>A	uc003pfc.1	+	49	3215	c.3098G>A	c.(3097-3099)AGG>AAG	p.R1033K		NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	1033					cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CATGAAGAGAGGATGGCTGTA	0.393													50	20	---	---	---	---	PASS	A	70909315	A	A	70909315	3	1	73	1	0	0	0	0	1	0	0	0	3676	1000	35	3	3288	3	COL19A1	6	70909315	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	38647761	70909315	100205752	102	27743										
MANEA	79694	broad.mit.edu	37	chr6	96054135	96054135	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gaactcagattgaaaaagctGttcccaaaagaaccagtaat	7	8	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr6:96054135G>C	uc003poo.1	+	5	1383	c.1243G>C	c.(1243-1245)GTT>CTT	p.V415L		NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	415	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		TGAAAAAGCTGTTCCCAAAAG	0.413													43	18	---	---	---	---	PASS	C	96054135	C	C	96054135	3	2	73	1	0	0	0	0	1	0	0	0	9221	1377	48	4	1257	4	MANEA	6	96054135	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	25144820	96054135	75060932	103	27744										
PEX7	5191	broad.mit.edu	37	chr6	137187869	137187869	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gtgactggtgtaaatacaatGaggtatagtgtatggctcta	12	4	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr6:137187869G>C	uc003qhd.2	+	6	733	c.631G>C	c.(631-633)GAG>CAG	p.E211Q	PEX7_uc010kgx.2_RNA	NM_000288	NP_000279	O00628	PEX7_HUMAN	peroxisomal biogenesis factor 7	211	WD 4.				ether lipid biosynthetic process|protein import into peroxisome matrix	peroxisome	peroxisome matrix targeting signal-2 binding				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000257)|OV - Ovarian serous cystadenocarcinoma(155;0.00492)		TAAATACAATGAGGTATAGTG	0.403													10	38	---	---	---	---	PASS	C	137187869	C	C	137187869	3	2	73	1	0	0	0	0	1	0	0	0	11751	1291	45	2	653	2	PEX7	6	137187869	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	41133734	137187869	33927198	104	27745										
PDE10A	10846	broad.mit.edu	37	chr6	165829708	165829708	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgggtctgcataggcatctgGaatgttcaggacttcccctg	12	10	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr6:165829708G>C	uc003qun.2	-	13	1271	c.1030C>G	c.(1030-1032)CCA>GCA	p.P344A	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.P274A|PDE10A_uc003quo.2_Missense_Mutation_p.P354A	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	344	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	TAGGCATCTGGAATGTTCAGG	0.413													86	40	---	---	---	---	PASS	C	165829708	C	C	165829708	3	2	73	1	0	0	0	0	1	0	0	0	11630	1174	41	2	1353	2	PDE10A	6	165829708	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	28641839	165829708	5285359	105	27746										
RPS6KA2	6196	broad.mit.edu	37	chr6	166918039	166918039	+	Missense_Mutation	SNP	T	A	A													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgatccccaggctgtggagaTggtctaaagccaaggccagc							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr6:166918039T>A	uc003qvb.1	-	6	740	c.521A>T	c.(520-522)CAT>CTT	p.H174L	RPS6KA2_uc011ego.1_Missense_Mutation_p.H85L|RPS6KA2_uc010kkl.1_Missense_Mutation_p.H85L|RPS6KA2_uc003qvc.1_Missense_Mutation_p.H182L|RPS6KA2_uc003qvd.1_Missense_Mutation_p.H199L	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	174	Protein kinase 1.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		GCTGTGGAGATGGTCTAAAGC	0.433													60	16	---	---	---	---	PASS	A	166918039	A	A	166918039	3	1	73	1	0	0	0	0	1	0	0	0	13651	1464	51	5	1744	5	RPS6KA2	6	166918039	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	1088331	166918039	4197028	106	27747	580	2								
RPS6KA2	6196	broad.mit.edu	37	chr6	166918040	166918040	+	Missense_Mutation	SNP	G	T	T													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gatccccaggctgtggagatGgtctaaagccaaggccagct							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr6:166918040G>T	uc003qvb.1	-	6	739	c.520C>A	c.(520-522)CAT>AAT	p.H174N	RPS6KA2_uc011ego.1_Missense_Mutation_p.H85N|RPS6KA2_uc010kkl.1_Missense_Mutation_p.H85N|RPS6KA2_uc003qvc.1_Missense_Mutation_p.H182N|RPS6KA2_uc003qvd.1_Missense_Mutation_p.H199N	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	174	Protein kinase 1.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		CTGTGGAGATGGTCTAAAGCC	0.433													60	16	---	---	---	---	PASS	T	166918040	T	T	166918040	3	4	73	1	0	0	0	0	1	0	0	0	13651	1348	47	3	1745	3	RPS6KA2	6	166918040	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1	166918040	4197027	107	27748	580	2								
PMS2	5395	broad.mit.edu	37	chr7	6031654	6031654	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atggatactggtgtcgattaTacatgtggtagacctcattc	10	7	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:6031654T>C	uc003spl.2	-	9	1025	c.938A>G	c.(937-939)TAT>TGT	p.Y313C	PMS2_uc003spj.2_Missense_Mutation_p.Y207C|PMS2_uc003spk.2_Missense_Mutation_p.Y178C|PMS2_uc011jwl.1_Missense_Mutation_p.Y178C|PMS2_uc010ktg.2_Missense_Mutation_p.Y2C|PMS2_uc010kte.2_Intron|PMS2_uc010ktf.1_Missense_Mutation_p.Y313C	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	313					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		GTGTCGATTATACATGTGGTA	0.398			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				12	29	---	---	---	---	PASS	C	6031654	C	C	6031654	3	2	73	1	0	0	0	0	1	0	0	0	12143	1406	49	5	1678	5	PMS2	7	6031654	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08		6031654	153107009	108	27749										
RAC1	5879	broad.mit.edu	37	chr7	6431584	6431584	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttattctgccaatgttatggTagatggaaaaccggtgaatc	10	6	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:6431584T>G	uc003spx.2	+	3	378	c.137T>G	c.(136-138)GTA>GGA	p.V46G	RAC1_uc003spw.2_Missense_Mutation_p.V46G	NM_006908	NP_008839	P63000	RAC1_HUMAN	ras-related C3 botulinum toxin substrate 1	46					actin filament polymerization|apoptosis|axon guidance|cell motility|cell-matrix adhesion|induction of apoptosis by extracellular signals|inflammatory response|lamellipodium assembly|localization within membrane|negative regulation of interleukin-23 production|negative regulation of receptor-mediated endocytosis|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of lamellipodium assembly|positive regulation of Rho protein signal transduction|regulation of cell migration|regulation of defense response to virus by virus|regulation of hydrogen peroxide metabolic process|regulation of respiratory burst|ruffle organization|small GTPase mediated signal transduction|T cell costimulation|viral reproduction	cytosol|melanosome|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity|thioesterase binding			lung(2)	2		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.104)	Pravastatin(DB00175)|Simvastatin(DB00641)	AATGTTATGGTAGATGGAAAA	0.433													26	68	---	---	---	---	PASS	G	6431584	G	G	6431584	3	3	73	1	0	0	0	0	1	0	0	0	12974	1638	57	5	147	5	RAC1	7	6431584	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	399930	6431584	152707079	109	27750										
C7orf26	79034	broad.mit.edu	37	chr7	6639817	6639817	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cgagaagaatctgtatgggcGcctggggctgatcctcttcg	14	10	2	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:6639817G>T	uc003sqo.1	+	4	938	c.938G>T	c.(937-939)CGC>CTC	p.R313L	C7orf26_uc003sqp.1_Missense_Mutation_p.R216L|C7orf26_uc003sqq.1_Missense_Mutation_p.R114L	NM_024067	NP_076972	Q96N11	CG026_HUMAN	hypothetical protein LOC79034	313										ovary(1)	1		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)		CTGTATGGGCGCCTGGGGCTG	0.572													10	31	---	---	---	---	PASS	T	6639817	T	T	6639817	3	4	73	1	0	0	0	0	1	0	0	0	2381	1087	38	1	952	1	C7orf26	7	6639817	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	208233	6639817	152498846	110	27751										
DNAH11	8701	broad.mit.edu	37	chr7	21939723	21939723	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gggaaggtgcatacctccacGgactcttcatggagggtaag	14	9	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:21939723G>A	uc003svc.2	+	82	13340	c.13309G>A	c.(13309-13311)GGA>AGA	p.G4437R		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4437					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						ATACCTCCACGGACTCTTCAT	0.483									Kartagener_syndrome				19	40	---	---	---	---	PASS	A	21939723	A	A	21939723	3	1	73	1	0	0	0	0	1	0	0	0	4599	1117	39	1	13632	1	DNAH11	7	21939723	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	15299906	21939723	137198940	111	27752										
GHRHR	2692	broad.mit.edu	37	chr7	31009500	31009500	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aggggctgtgaaacgggattGtactatcactggctggtctg	15	7	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:31009500G>T	uc003tbx.2	+	4	335	c.287G>T	c.(286-288)TGT>TTT	p.C96F	GHRHR_uc003tbw.1_Missense_Mutation_p.C96F|GHRHR_uc003tby.2_Missense_Mutation_p.C32F|GHRHR_uc003tbz.2_5'UTR	NM_000823	NP_000814	Q02643	GHRHR_HUMAN	growth hormone releasing hormone receptor	96	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to estrogen stimulus|response to glucocorticoid stimulus	cell surface|integral to membrane|nuclear inner membrane|nuclear matrix|nuclear outer membrane|plasma membrane|stored secretory granule	growth factor binding|growth hormone-releasing hormone receptor activity|peptide hormone binding			ovary(2)|lung(1)|breast(1)|large_intestine(1)	5					Sermorelin(DB00010)	AAACGGGATTGTACTATCACT	0.597													68	99	---	---	---	---	PASS	T	31009500	T	T	31009500	3	4	73	1	0	0	0	0	1	0	0	0	6373	1377	48	3	301	3	GHRHR	7	31009500	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	9069777	31009500	128129163	112	27753										
CLIP2	7461	broad.mit.edu	37	chr7	73811475	73811475	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agggccggagagggacctgaGccgtgaggtacacaaggctg	18	9	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:73811475G>T	uc003uam.2	+	14	3119	c.2792G>T	c.(2791-2793)AGC>ATC	p.S931I	CLIP2_uc003uan.2_Missense_Mutation_p.S896I	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	931	Potential.					microtubule associated complex				skin(3)	3						AGGGACCTGAGCCGTGAGGTA	0.622													31	56	---	---	---	---	PASS	T	73811475	T	T	73811475	3	4	73	1	0	0	0	0	1	0	0	0	3533	971	34	3	2842	3	CLIP2	7	73811475	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	42801975	73811475	85327188	113	27754										
ZNF804B	219578	broad.mit.edu	37	chr7	88965368	88965368	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcagacactgattgtgataaCcatctttctaaaggtataat	7	7	2	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:88965368C>G	uc011khi.1	+	4	3610	c.3072C>G	c.(3070-3072)AAC>AAG	p.N1024K		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1024						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			ATTGTGATAACCATCTTTCTA	0.333										HNSCC(36;0.09)			18	38	---	---	---	---	PASS	G	88965368	G	G	88965368	3	3	73	1	0	0	0	0	1	0	0	0	18168	506	18	4	3086	4	ZNF804B	7	88965368	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	15153893	88965368	70173295	114	27755										
CALCR	799	broad.mit.edu	37	chr7	93067382	93067382	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	taattctcaccacaagtgccGccatgacaggtccatggatt	8	12	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:93067382G>A	uc003umv.1	-	12	1283	c.1022C>T	c.(1021-1023)GCG>GTG	p.A341V	CALCR_uc011kia.1_Missense_Mutation_p.A121V|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.A307V|CALCR_uc003umw.2_Missense_Mutation_p.A307V	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	323	Helical; Name=5; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	CACAAGTGCCGCCATGACAGG	0.348													12	19	---	---	---	---	PASS	A	93067382	A	A	93067382	3	1	73	1	0	0	0	0	1	0	0	0	2579	1087	38	1	520	1	CALCR	7	93067382	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	4102014	93067382	66071281	115	27756										
COL1A2	1278	broad.mit.edu	37	chr7	94049586	94049586	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cctgctggtcctgctggtccTcggggaagccctgtaagtaa	13	12	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:94049586T>A	uc003ung.1	+	35	2592	c.2121T>A	c.(2119-2121)CCT>CCA	p.P707P	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	707			Missing (in OI2A).|Missing (in OI2A).		axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	ctgctggtcctCGGGGAAGCC	0.353										HNSCC(75;0.22)			43	65	---	---	---	---	PASS	A	94049586	A	A	94049586	2	1	73	1	0	0	0	0	0	0	0	1	3678	1538	54	5		5	COL1A2	7	94049586	Silent	SNP	T	TCGA-34-5927-01A-11D-1817-08	982204	94049586	65089077	116	27757										
CYP3A4	1576	broad.mit.edu	37	chr7	99367429	99367429	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttgcctgtctctgcttcccgCctcagatttctcaccaacac	5	17	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:99367429C>T	uc003urv.1	-	6	587	c.483G>A	c.(481-483)AGG>AGA	p.R161R	CYP3A4_uc003urw.1_Silent_p.R161R|CYP3A4_uc011kiz.1_Silent_p.R120R|CYP3A4_uc011kja.1_Silent_p.R112R|CYP3A4_uc011kjb.1_Intron	NM_017460	NP_059488	P08684	CP3A4_HUMAN	cytochrome P450, family 3, subfamily A,	161					alkaloid catabolic process|androgen metabolic process|exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|oxidative demethylation|steroid catabolic process|xenobiotic metabolic process	cell surface|endoplasmic reticulum membrane|integral to membrane|microsome	albendazole monooxygenase activity|caffeine oxidase activity|electron carrier activity|enzyme binding|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen|oxygen binding|quinine 3-monooxygenase activity|steroid binding|taurochenodeoxycholate 6alpha-hydroxylase activity|testosterone 6-beta-hydroxylase activity|vitamin D 24-hydroxylase activity|vitamin D3 25-hydroxylase activity			central_nervous_system(3)|ovary(1)	4	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)				Albendazole(DB00518)|Alclometasone(DB00240)|Alfentanil(DB00802)|Alfuzosin(DB00346)|Aliskiren(DB01258)|Almotriptan(DB00918)|Alosetron(DB00969)|Alprazolam(DB00404)|Amlodipine(DB00381)|Amprenavir(DB00701)|Aprepitant(DB00673)|Aripiprazole(DB01238)|Astemizole(DB00637)|Atazanavir(DB01072)|Atorvastatin(DB01076)|Benazepril(DB00542)|Bepridil(DB01244)|Betamethasone(DB00443)|Bexarotene(DB00307)|Bortezomib(DB00188)|Bosentan(DB00559)|Bromocriptine(DB01200)|Budesonide(DB01222)|Bupivacaine(DB00297)|Buprenorphine(DB00921)|Buspirone(DB00490)|Busulfan(DB01008)|Carbamazepine(DB00564)|Cevimeline(DB00185)|Chlorpheniramine(DB01114)|Ciclesonide(DB01410)|Cilostazol(DB01166)|Cinacalcet(DB01012)|Cisapride(DB00604)|Clarithromycin(DB01211)|Clindamycin(DB01190)|Clofibrate(DB00636)|Clonazepam(DB01068)|Clopidogrel(DB00758)|Cocaine(DB00907)|Conivaptan(DB00872)|Conjugated Estrogens(DB00286)|Cyproterone(DB04839)|Darifenacin(DB00496)|Darunavir(DB01264)|Dasatinib(DB01254)|Delavirdine(DB00705)|Desogestrel(DB00304)|Dexamethasone(DB01234)|Diazepam(DB00829)|Dihydroergotamine(DB00320)|Diltiazem(DB00343)|Diphenhydramine(DB01075)|Disopyramide(DB00280)|Dofetilide(DB00204)|Dolasetron(DB00757)|Domperidone(DB01184)|Donepezil(DB00843)|Doxorubicin(DB00997)|Drospirenone(DB01395)|Dutasteride(DB01126)|Efavirenz(DB00625)|Eletriptan(DB00216)|Enalapril(DB00584)|Epirubicin(DB00445)|Eplerenone(DB00700)|Ergotamine(DB00696)|Erlotinib(DB00530)|Erythromycin(DB00199)|Escitalopram(DB01175)|Esomeprazole(DB00736)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethinyl Estradiol(DB00977)|Ethosuximide(DB00593)|Etonogestrel(DB00294)|Etoposide(DB00773)|Etoricoxib(DB01628)|Exemestane(DB00990)|Felodipine(DB01023)|Fentanyl(DB00813)|Fexofenadine(DB00950)|Finasteride(DB01216)|Fluconazole(DB00196)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Fosamprenavir(DB01319)|Fulvestrant(DB00947)|Galantamine(DB00674)|Gefitinib(DB00317)|Gemfibrozil(DB01241)|Granisetron(DB00889)|Grepafloxacin(DB00365)|Halofantrine(DB01218)|Hydrocodone(DB00956)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Hydromorphone(DB00327)|Imatinib(DB00619)|Indinavir(DB00224)|Ipratropium(DB00332)|Irinotecan(DB00762)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Isradipine(DB00270)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Lercanidipine(DB00528)|Letrozole(DB01006)|Levobupivacaine(DB01002)|Levomethadyl Acetate(DB01227)|Levothyroxine(DB00451)|Lomustine(DB01206)|Loperamide(DB00836)|Lopinavir(DB01601)|Loratadine(DB00455)|Losartan(DB00678)|Lovastatin(DB00227)|Maraviroc(DB04835)|Marinol(DB00470)|Mebendazole(DB00643)|Medroxyprogesterone(DB00603)|Methadone(DB00333)|Methylprednisolone(DB00959)|Metyrapone(DB01011)|Mibefradil(DB01388)|Midazolam(DB00683)|Mifepristone(DB00834)|Mirtazapine(DB00370)|Modafinil(DB00745)|Mometasone(DB00764)|Montelukast(DB00471)|Nateglinide(DB00731)|Nefazodone(DB01149)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Norethindrone(DB00717)|Norgestrel(DB00506)|Nystatin(DB00646)|Ondansetron(DB00904)|Oxybutynin(DB01062)|Paclitaxel(DB01229)|Paliperidone(DB01267)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Paricalcitol(DB00910)|Phenmetrazine(DB00830)|Pimecrolimus(DB00337)|Pimozide(DB01100)|Pioglitazone(DB01132)|Posaconazole(DB01263)|Pranlukast(DB01411)|Prednisolone(DB00860)|Prednisone(DB00635)|Prochlorperazine(DB00433)|Quetiapine(DB01224)|Quinapril(DB00881)|Quinine(DB00468)|Rabeprazole(DB01129)|Ranolazine(DB00243)|Reboxetine(DB00234)|Retapamulin(DB01256)|Rifabutin(DB00615)|Rifampin(DB01045)|Rimonabant(DB06155)|Ritonavir(DB00503)|Rofecoxib(DB00533)|Roxithromycin(DB00778)|Salmeterol(DB00938)|Saquinavir(DB01232)|Sertindole(DB06144)|Sibutramine(DB01105)|Simvastatin(DB00641)|Sirolimus(DB00877)|Sitagliptin(DB01261)|Solifenacin(DB01591)|Sorafenib(DB00398)|Sunitinib(DB01268)|Tacrolimus(DB00864)|Tadalafil(DB00820)|Tamoxifen(DB00675)|Telithromycin(DB00976)|Terconazole(DB00251)|Terfenadine(DB00342)|Testosterone(DB00624)|Tiagabine(DB00906)|Ticlopidine(DB00208)|Tinidazole(DB00911)|Tiotropium(DB01409)|Tipranavir(DB00932)|Toremifene(DB00539)|Triazolam(DB00897)|Trimetrexate(DB01157)|Troglitazone(DB00197)|Valdecoxib(DB00580)|Vardenafil(DB00862)|Vinblastine(DB00570)|Vincristine(DB00541)|Vindesine(DB00309)|Vinorelbine(DB00361)|Voriconazole(DB00582)|Zaleplon(DB00962)|Zileuton(DB00744)|Ziprasidone(DB00246)|Zolpidem(DB00425)|Zonisamide(DB00909)	CTGCTTCCCGCCTCAGATTTC	0.507													60	122	---	---	---	---	PASS	T	99367429	T	T	99367429	2	4	73	1	0	0	0	0	0	0	0	1	4178	738	26	3		3	CYP3A4	7	99367429	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	5317843	99367429	59771234	117	27758										
DLD	1738	broad.mit.edu	37	chr7	107542181	107542181	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tatcaatttgcttttatcgtAgttgatgctgatgtaacagt	8	5	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:107542181A>G	uc003vet.2	+	3	229	c.119_splice	c.e3-2	p.I40_splice	DLD_uc010ljm.1_Splice_Site|DLD_uc011kmg.1_Splice_Site_p.I40_splice|DLD_uc011kmh.1_Splice_Site_p.I40_splice|DLD_uc011kmi.1_Intron	NM_000108	NP_000099	P09622	DLDH_HUMAN	dihydrolipoamide dehydrogenase precursor						branched chain family amino acid catabolic process|cell redox homeostasis|lysine catabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	dihydrolipoyl dehydrogenase activity			central_nervous_system(1)	1					NADH(DB00157)	CTTTTATCGTAGTTGATGCTG	0.353													29	64	---	---	---	---	PASS	G	107542181	G	G	107542181	5	3	73	1	0	0	0	0	0	0	1	0	4551	434	15	5	127	5	DLD	7	107542181	Splice_Site	SNP	A	TCGA-34-5927-01A-11D-1817-08	8174752	107542181	51596482	118	27759										
RNF133	168433	broad.mit.edu	37	chr7	122338572	122338572	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggaacacctggttgccagtaCctggaacgttatagatgatc	11	9	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:122338572C>G	uc003vkj.1	-	1	637	c.401G>C	c.(400-402)GGT>GCT	p.G134A	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron	NM_139175	NP_631914	Q8WVZ7	RN133_HUMAN	ring finger protein 133	134	PA.					endoplasmic reticulum membrane|integral to membrane	ligase activity|zinc ion binding			skin(1)	1						GTTGCCAGTACCTGGAACGTT	0.428													51	108	---	---	---	---	PASS	G	122338572	G	G	122338572	3	3	73	1	0	0	0	0	1	0	0	0	13439	507	18	4	733	4	RNF133	7	122338572	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	14796391	122338572	36800091	119	27760										
FLNC	2318	broad.mit.edu	37	chr7	128496897	128496897	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctggaagtcccttcaagatcCgcgttggggagcagagccag	14	11	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:128496897C>A	uc003vnz.3	+	45	7692	c.7483C>A	c.(7483-7485)CGC>AGC	p.R2495S	FLNC_uc003voa.3_Missense_Mutation_p.R2462S	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2495	Filamin 22.|Interaction with INPPL1.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CTTCAAGATCCGCGTTGGGGA	0.617													22	54	---	---	---	---	PASS	A	128496897	A	A	128496897	3	1	73	1	0	0	0	0	1	0	0	0	5935	652	23	1	7661	1	FLNC	7	128496897	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	6158325	128496897	30641766	120	27761										
TSGA14	95681	broad.mit.edu	37	chr7	130040572	130040572	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggaaagcatgaagaggttttCaaatccacgctcgcacatgg	11	9	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:130040572C>T	uc003vpz.2	-	9	780	c.733G>A	c.(733-735)GAA>AAA	p.E245K	TSGA14_uc003vpy.2_Missense_Mutation_p.E7K|TSGA14_uc010lmf.2_Missense_Mutation_p.E42K|TSGA14_uc003vqa.2_Missense_Mutation_p.E245K|TSGA14_uc011kpg.1_Missense_Mutation_p.E229K	NM_018718	NP_061188	Q9BYV8	CEP41_HUMAN	testis specific, 14	245	Rhodanese.				G2/M transition of mitotic cell cycle	centrosome|cytosol					0	Melanoma(18;0.0435)					AAGAGGTTTTCAAATCCACGC	0.502													12	21	---	---	---	---	PASS	T	130040572	T	T	130040572	3	4	73	1	0	0	0	0	1	0	0	0	16617	835	29	2	400	2	TSGA14	7	130040572	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	1543675	130040572	29098091	121	27762										
PLXNA4	91584	broad.mit.edu	37	chr7	131870117	131870117	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gggtcttccacatactgaaaGaccaggtcctggtggatctt	11	10	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:131870117G>C	uc003vra.3	-	16	3328	c.3099C>G	c.(3097-3099)GTC>GTG	p.V1033V		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1033	IPT/TIG 2.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CATACTGAAAGACCAGGTCCT	0.547													45	81	---	---	---	---	PASS	C	131870117	C	C	131870117	2	2	73	1	0	0	0	0	0	0	0	1	12122	929	33	2		2	PLXNA4	7	131870117	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	1829545	131870117	27268546	122	27763										
AKR1D1	6718	broad.mit.edu	37	chr7	137773401	137773401	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttgctattgacacagggtacCgacatattgatggggcctac	11	9	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:137773401C>A	uc003vtz.2	+	2	217	c.148C>A	c.(148-150)CGA>AGA	p.R50R	AKR1D1_uc011kqb.1_Silent_p.R50R|AKR1D1_uc011kqc.1_RNA|AKR1D1_uc011kqd.1_Intron|AKR1D1_uc011kqe.1_Silent_p.R50R|AKR1D1_uc011kqf.1_Silent_p.R50R	NM_005989	NP_005980	P51857	AK1D1_HUMAN	aldo-keto reductase family 1, member D1	50					androgen metabolic process|bile acid biosynthetic process|bile acid catabolic process|C21-steroid hormone metabolic process|cholesterol catabolic process|digestion	cytosol	aldo-keto reductase (NADP) activity|delta4-3-oxosteroid 5beta-reductase activity|steroid binding			skin(1)	1						CACAGGGTACCGACATATTGA	0.488													25	40	---	---	---	---	PASS	A	137773401	A	A	137773401	2	1	73	1	0	0	0	0	0	0	0	1	473	644	23	1		1	AKR1D1	7	137773401	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	5903284	137773401	21365262	123	27764										
REPIN1	29803	broad.mit.edu	37	chr7	150069034	150069034	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tggagatgccgtcgaccgccCcttccagtgtgcctgttgtg	13	13	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr7:150069034C>A	uc010lpq.1	+	4	1193	c.704C>A	c.(703-705)CCC>CAC	p.P235H	REPIN1_uc003whd.2_Missense_Mutation_p.P224H|REPIN1_uc010lpr.1_Missense_Mutation_p.P292H|REPIN1_uc003whc.2_Missense_Mutation_p.P235H|REPIN1_uc003whe.2_Missense_Mutation_p.P235H	NM_013400	NP_037532	Q9BWE0	REPI1_HUMAN	replication initiator 1 isoform 1	235					DNA replication	nuclear origin of replication recognition complex	DNA binding|zinc ion binding			pancreas(1)	1	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)			GTCGACCGCCCCTTCCAGTGT	0.527													16	26	---	---	---	---	PASS	A	150069034	A	A	150069034	3	1	73	1	0	0	0	0	1	0	0	0	13227	623	22	3	881	3	REPIN1	7	150069034	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	12295633	150069034	9069629	124	27765										
ARHGEF10	9639	broad.mit.edu	37	chr8	1828220	1828220	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tctttatgctgtagctttctCatgacctaacccgtttaaag	6	10	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:1828220C>G	uc003wpr.2	+	9	1028	c.850C>G	c.(850-852)CAT>GAT	p.H284D	ARHGEF10_uc003wpq.1_Missense_Mutation_p.H309D|ARHGEF10_uc003wps.2_Intron|ARHGEF10_uc003wpt.2_Intron|ARHGEF10_uc003wpv.2_Intron|ARHGEF10_uc010lre.2_5'Flank	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	309	Potential.				centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		GTAGCTTTCTCATGACCTAAC	0.458													30	51	---	---	---	---	PASS	G	1828220	G	G	1828220	3	3	73	1	0	0	0	0	1	0	0	0	894	826	29	2	880	2	ARHGEF10	8	1828220	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08		1828220	144535802	125	27766										
MSR1	4481	broad.mit.edu	37	chr8	16012606	16012606	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aaatcctcgtggaccactttCtccagtgggacctcgatctc	8	14	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:16012606C>G	uc003wwz.2	-	6	1063	c.865G>C	c.(865-867)GAA>CAA	p.E289Q	MSR1_uc010lsu.2_Missense_Mutation_p.E307Q|MSR1_uc003wxa.2_Missense_Mutation_p.E289Q|MSR1_uc003wxb.2_Missense_Mutation_p.E289Q|MSR1_uc011kxz.1_Missense_Mutation_p.E63Q	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	289	Collagen-like.|Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		GGACCACTTTCTCCAGTGGGA	0.403													43	37	---	---	---	---	PASS	G	16012606	G	G	16012606	3	3	73	1	0	0	0	0	1	0	0	0	9886	922	32	2	558	2	MSR1	8	16012606	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	14184386	16012606	130351416	126	27767										
EPHX2	2053	broad.mit.edu	37	chr8	27373843	27373843	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgtttgttttctagatccctGctctggcccaggcaggttac	10	11	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:27373843G>T	uc003xfu.2	+	8	919	c.838G>T	c.(838-840)GCT>TCT	p.A280S	EPHX2_uc010lut.1_Missense_Mutation_p.A280S|EPHX2_uc010luu.2_Missense_Mutation_p.A248S|EPHX2_uc010luv.2_Missense_Mutation_p.A214S|EPHX2_uc003xfv.2_Missense_Mutation_p.A227S|EPHX2_uc010luw.2_Missense_Mutation_p.A214S|EPHX2_uc011lam.1_Missense_Mutation_p.A136S	NM_001979	NP_001970	P34913	HYES_HUMAN	epoxide hydrolase 2, cytoplasmic	280	Epoxide hydrolase.				aromatic compound catabolic process|cellular calcium ion homeostasis|drug metabolic process|inflammatory response|positive regulation of vasodilation|reactive oxygen species metabolic process|regulation of blood pressure|response to toxin|xenobiotic metabolic process	cytosol|focal adhesion|Golgi apparatus|nucleolus|peroxisome|soluble fraction	epoxide hydrolase activity|metal ion binding|protein homodimerization activity			ovary(1)	1		Ovarian(32;2.61e-05)|all_epithelial(46;0.207)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0226)|Epithelial(17;1.12e-09)|Colorectal(74;0.157)	Tamoxifen(DB00675)	CTAGATCCCTGCTCTGGCCCA	0.542											OREG0018668	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	178	---	---	---	---	PASS	T	27373843	T	T	27373843	3	4	73	1	0	0	0	0	1	0	0	0	5180	1319	46	3	868	3	EPHX2	8	27373843	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	11361237	27373843	118990179	127	27768										
PRKDC	5591	broad.mit.edu	37	chr8	48719804	48719804	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcacttccatcctgtcactgGggtctccatcttgatccaca	7	15	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:48719804G>T	uc003xqi.2	-	70	9698	c.9641C>A	c.(9640-9642)CCC>CAC	p.P3214H	PRKDC_uc003xqj.2_Missense_Mutation_p.P3214H|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3214	FAT.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CCTGTCACTGGGGTCTCCATC	0.428								NHEJ					52	108	---	---	---	---	PASS	T	48719804	T	T	48719804	3	4	73	1	0	0	0	0	1	0	0	0	12521	1232	43	3	2817	3	PRKDC	8	48719804	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	21345961	48719804	97644218	128	27769										
CA13	377677	broad.mit.edu	37	chr8	86193528	86193528	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cttttctggtgagcaatcacCgcccaccacagcctctaaag	7	15	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:86193528C>T	uc003ydg.2	+	7	1081	c.739C>T	c.(739-741)CGC>TGC	p.R247C	CA13_uc003ydf.1_Intron	NM_198584	NP_940986	Q8N1Q1	CAH13_HUMAN	carbonic anhydrase XIII	247					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0						GAGCAATCACCGCCCACCACA	0.498													123	202	---	---	---	---	PASS	T	86193528	T	T	86193528	3	4	73	1	0	0	0	0	1	0	0	0	2514	652	23	1	765	1	CA13	8	86193528	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	37473724	86193528	60170494	129	27770										
MATN2	4147	broad.mit.edu	37	chr8	98973728	98973728	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gccagtgctacagtggctacGccctggctgaggatgggaag	16	10	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:98973728G>A	uc003yic.2	+	5	1159	c.928G>A	c.(928-930)GCC>ACC	p.A310T	MATN2_uc003yib.1_Missense_Mutation_p.A310T|MATN2_uc010mbh.1_Missense_Mutation_p.A310T|MATN2_uc003yid.2_Missense_Mutation_p.A310T|MATN2_uc003yie.1_Missense_Mutation_p.A310T|MATN2_uc010mbi.1_Intron	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	310	EGF-like 2.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			CAGTGGCTACGCCCTGGCTGA	0.582													37	50	---	---	---	---	PASS	A	98973728	A	A	98973728	3	1	73	1	0	0	0	0	1	0	0	0	9334	1087	38	1	942	1	MATN2	8	98973728	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	12780200	98973728	47390294	130	27771										
NIPAL2	79815	broad.mit.edu	37	chr8	99248401	99248401	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	accgagtaagtctgaggctcTcaaattgtctttcagaaatg	9	8	4	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:99248401T>A	uc003yil.1	-	4	674	c.418A>T	c.(418-420)AGA>TGA	p.R140*	NIPAL2_uc011lgw.1_5'UTR|NIPAL2_uc003yim.1_Nonsense_Mutation_p.R140*	NM_024759	NP_079035	Q9H841	NPAL2_HUMAN	NIPA-like domain containing 2	140						integral to membrane					0						TCTGAGGCTCTCAAATTGTCT	0.313													21	36	---	---	---	---	PASS	A	99248401	A	A	99248401	4	1	73	1	0	0	0	0	0	1	0	0	10425	1559	54	5	724	5	NIPAL2	8	99248401	Nonsense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	274673	99248401	47115621	131	27772										
FBXO43	286151	broad.mit.edu	37	chr8	101146192	101146192	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gctgttcggctacacagtccCcttttcttatatggctggta	9	11	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:101146192C>G	uc003yjd.2	-	5	2678	c.1965G>C	c.(1963-1965)AGG>AGC	p.R655S	FBXO43_uc003yje.2_Missense_Mutation_p.R621S	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	655	IBR-type.				meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			TACACAGTCCCCTTTTCTTAT	0.453													43	65	---	---	---	---	PASS	G	101146192	G	G	101146192	3	3	73	1	0	0	0	0	1	0	0	0	5752	622	22	4	165	4	FBXO43	8	101146192	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	1897791	101146192	45217830	132	27773										
SPAG1	6674	broad.mit.edu	37	chr8	101245659	101245659	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agctctctgttacttgaagcTgtgccagtttgaagaagcaa	10	8	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:101245659T>G	uc003yjh.1	+	16	2095	c.2009T>G	c.(2008-2010)CTG>CGG	p.L670R	SPAG1_uc003yji.1_Missense_Mutation_p.L670R	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	670	TPR 8.				single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		TACTTGAAGCTGTGCCAGTTT	0.423													46	53	---	---	---	---	PASS	G	101245659	G	G	101245659	3	3	73	1	0	0	0	0	1	0	0	0	14975	1580	55	5	2067	5	SPAG1	8	101245659	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	99467	101245659	45118363	133	27774										
RNF19A	25897	broad.mit.edu	37	chr8	101281076	101281076	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atagcaatgccagctattaaAgcgattccgacaggagcacc	9	11	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:101281076A>C	uc003yjj.1	-	6	1445	c.1128T>G	c.(1126-1128)GCT>GCG	p.A376A	RNF19A_uc003yjk.1_Silent_p.A376A	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	376	Helical; (Potential).				microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)			CAGCTATTAAAGCGATTCCGA	0.438													48	91	---	---	---	---	PASS	C	101281076	C	C	101281076	2	2	73	1	0	0	0	0	0	0	0	1	13470	59	3	5		5	RNF19A	8	101281076	Silent	SNP	A	TCGA-34-5927-01A-11D-1817-08	35417	101281076	45082946	134	27775										
KLF10	7071	broad.mit.edu	37	chr8	103662514	103662514	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gccggtcacacatggggcacGcaaatttcttctcacccgtg	10	14	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:103662514G>A	uc011lhk.1	-	4	1443	c.1289C>T	c.(1288-1290)GCG>GTG	p.A430V	KLF10_uc011lhj.1_Missense_Mutation_p.A419V	NM_005655	NP_005646	Q13118	KLF10_HUMAN	Kruppel-like factor 10 isoform a	430	C2H2-type 3.				cell proliferation|cell-cell signaling|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|skeletal system development|transforming growth factor beta receptor signaling pathway	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_epithelial(15;5.63e-07)|Lung NSC(17;8.18e-05)|all_lung(17;0.000169)		OV - Ovarian serous cystadenocarcinoma(57;0.000112)|STAD - Stomach adenocarcinoma(118;0.0826)			CATGGGGCACGCAAATTTCTT	0.532													36	77	---	---	---	---	PASS	A	103662514	A	A	103662514	3	1	73	1	0	0	0	0	1	0	0	0	8338	1087	38	1	157	1	KLF10	8	103662514	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	2381438	103662514	42701508	135	27776										
RSPO2	340419	broad.mit.edu	37	chr8	109001416	109001416	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctgttgacatcggctacaccCattgtcctttgaacaagaca	7	12	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:109001416C>G	uc003yms.2	-	3	809	c.151G>C	c.(151-153)GGG>CGG	p.G51R	RSPO2_uc003ymq.2_5'UTR|RSPO2_uc003ymr.2_Intron	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	51					Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			CGGCTACACCCATTGTCCTTT	0.413													37	49	---	---	---	---	PASS	G	109001416	G	G	109001416	3	3	73	1	0	0	0	0	1	0	0	0	13710	594	21	4	596	4	RSPO2	8	109001416	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	5338902	109001416	37362606	136	27777										
CSMD3	114788	broad.mit.edu	37	chr8	113326189	113326189	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gccatgatctgctgaccactGaagaaatacttcatgaccat	7	11	2	5			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:113326189G>T	uc003ynu.2	-	49	7801	c.7642C>A	c.(7642-7644)CAG>AAG	p.Q2548K	CSMD3_uc003yns.2_Missense_Mutation_p.Q1750K|CSMD3_uc003ynt.2_Missense_Mutation_p.Q2508K|CSMD3_uc011lhx.1_Missense_Mutation_p.Q2444K|CSMD3_uc003ynw.1_Missense_Mutation_p.Q259K	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2548	CUB 14.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GCTGACCACTGAAGAAATACT	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			35	66	---	---	---	---	PASS	T	113326189	T	T	113326189	3	4	73	1	0	0	0	0	1	0	0	0	3946	1299	45	2	3573	2	CSMD3	8	113326189	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	4324773	113326189	33037833	137	27778										
CSMD3	114788	broad.mit.edu	37	chr8	114326923	114326923	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gttcttctgctattattaccCatgtgcagtttgcaccattt	6	10	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:114326923C>T	uc003ynu.2	-	2	437	c.278G>A	c.(277-279)TGG>TAG	p.W93*	CSMD3_uc003ynt.2_Nonsense_Mutation_p.W53*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.W93*|CSMD3_uc010mcx.1_Nonsense_Mutation_p.W93*|CSMD3_uc003ynx.3_Nonsense_Mutation_p.W93*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	93	Extracellular (Potential).|CUB 1.					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						TATTATTACCCATGTGCAGTT	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			87	122	---	---	---	---	PASS	T	114326923	T	T	114326923	4	4	73	1	0	0	0	0	0	1	0	0	3946	595	21	3	11125	3	CSMD3	8	114326923	Nonsense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	1000734	114326923	32037099	138	27779										
FAM49B	51571	broad.mit.edu	37	chr8	130861552	130861552	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tggtcatagagtattatgacAcccaccattaccctcaagca	6	12	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:130861552A>G	uc003yss.2	-	13	1326	c.777T>C	c.(775-777)GGT>GGC	p.G259G	FAM49B_uc003yst.2_Silent_p.G259G|FAM49B_uc003ysu.2_Silent_p.G259G|FAM49B_uc003ysv.2_Silent_p.G113G|FAM49B_uc003ysw.2_Silent_p.G259G|FAM49B_uc003ysx.2_Silent_p.G259G|FAM49B_uc003ysy.1_Silent_p.G259G	NM_016623	NP_057707	Q9NUQ9	FA49B_HUMAN	hypothetical protein LOC51571	259											0	Ovarian(5;0.000567)|Esophageal squamous(12;0.00693)|Acute lymphoblastic leukemia(118;0.155)		LUAD - Lung adenocarcinoma(14;0.0989)			GTATTATGACACCCACCATTA	0.358													23	57	---	---	---	---	PASS	G	130861552	G	G	130861552	2	3	73	1	0	0	0	0	0	0	0	1	5576	146	6	5		5	FAM49B	8	130861552	Silent	SNP	A	TCGA-34-5927-01A-11D-1817-08	16534629	130861552	15502470	139	27780										
FAM135B	51059	broad.mit.edu	37	chr8	139180146	139180146	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aaacagacaaacctgtcgcaGggcagtccacgtatctgtcc	9	13	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:139180146G>A	uc003yuy.2	-	12	1421	c.1250C>T	c.(1249-1251)CCT>CTT	p.P417L	FAM135B_uc003yux.2_Missense_Mutation_p.P318L|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	417										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)			ACCTGTCGCAGGGCAGTCCAC	0.507										HNSCC(54;0.14)			60	88	---	---	---	---	PASS	A	139180146	A	A	139180146	3	1	73	1	0	0	0	0	1	0	0	0	5449	1000	35	3	3006	3	FAM135B	8	139180146	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	8318594	139180146	7183876	140	27781										
EPPK1	83481	broad.mit.edu	37	chr8	144943648	144943648	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcctgggcgatgctggccttGgccccagagggctgtagcag	17	12	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr8:144943648G>C	uc003zaa.1	-	1	3787	c.3774C>G	c.(3772-3774)GCC>GCG	p.A1258A		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1258	Plectin 21.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TGCTGGCCTTGGCCCCAGAGG	0.711													13	24	---	---	---	---	PASS	C	144943648	C	C	144943648	2	2	73	1	0	0	0	0	0	0	0	1	5190	1335	47	4		4	EPPK1	8	144943648	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	5763502	144943648	1420374	141	27782										
JAK2	3717	broad.mit.edu	37	chr9	5070053	5070053	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gaaatgaagatttgatatttGtaagtcattagatactcatt	7	3	2	4			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr9:5070053G>T	uc010mhm.2	+	11	1754	c.1641_splice	c.e11+1	p.F547_splice	JAK2_uc003ziw.2_Splice_Site_p.F547_splice	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2						actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding	p.F547_N548ins12(2)|p.F547_N548ins11(1)|p.F547_N548insLIRNEDLIF(1)	PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		TTTGATATTTGTAAGTCATTA	0.308		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				3	29	---	---	---	---	PASS	T	5070053	T	T	5070053	5	4	73	1	0	0	0	0	0	0	1	0	7938	1391	48	3	1680	3	JAK2	9	5070053	Splice_Site	SNP	G	TCGA-34-5927-01A-11D-1817-08		5070053	136143378	142	27783										
TTC39B	158219	broad.mit.edu	37	chr9	15192599	15192599	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tttccttaccaaattaaaggCcccactgccaagcttgacac	5	14	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr9:15192599C>A	uc003zlr.1	-	9	842	c.721G>T	c.(721-723)GCC>TCC	p.A241S	TTC39B_uc003zlq.1_Missense_Mutation_p.A210S|TTC39B_uc011lmp.1_Missense_Mutation_p.A142S|TTC39B_uc010mie.1_Missense_Mutation_p.A239S|TTC39B_uc011lmq.1_Missense_Mutation_p.A241S|TTC39B_uc011lmr.1_Missense_Mutation_p.A172S|TTC39B_uc010mif.1_Missense_Mutation_p.A241S|TTC39B_uc003zls.1_Missense_Mutation_p.A142S|TTC39B_uc010mig.1_Missense_Mutation_p.A210S|TTC39B_uc011lms.1_RNA	NM_152574	NP_689787	Q5VTQ0	TT39B_HUMAN	tetratricopeptide repeat domain 39B	241							binding			ovary(1)	1						AAATTAAAGGCCCCACTGCCA	0.418													72	23	---	---	---	---	PASS	A	15192599	A	A	15192599	3	1	73	1	0	0	0	0	1	0	0	0	16705	739	26	3	1198	3	TTC39B	9	15192599	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	10122546	15192599	126020832	143	27784										
BICD2	23299	broad.mit.edu	37	chr9	95481276	95481276	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gtagtagtccagcatgacacGgttgggtgtctcattgttgc	13	8	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr9:95481276G>A	uc004aso.1	-	5	1708	c.1651C>T	c.(1651-1653)CGT>TGT	p.R551C	BICD2_uc004asp.1_Missense_Mutation_p.R551C	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	551					microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						AGCATGACACGGTTGGGTGTC	0.677													48	22	---	---	---	---	PASS	A	95481276	A	A	95481276	3	1	73	1	0	0	0	0	1	0	0	0	1429	1116	39	1	938	1	BICD2	9	95481276	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	80288677	95481276	45732155	144	27785										
NUP214	8021	broad.mit.edu	37	chr9	134025771	134025771	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atcagtggaaagattcagatCctgtaatggctggaattggg	13	5	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr9:134025771C>T	uc004cag.2	+	15	2212	c.2101C>T	c.(2101-2103)CCT>TCT	p.P701S	NUP214_uc004cah.2_Missense_Mutation_p.P691S|NUP214_uc004cai.2_Missense_Mutation_p.P131S|NUP214_uc004caf.1_Missense_Mutation_p.P690S|NUP214_uc010mzf.2_5'UTR	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	701	11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		AGATTCAGATCCTGTAATGGC	0.453			T	DEK|SET|ABL1	AML|T-ALL								43	20	---	---	---	---	PASS	T	134025771	T	T	134025771	3	4	73	1	0	0	0	0	1	0	0	0	10762	855	30	2	2159	2	NUP214	9	134025771	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	38544495	134025771	7187660	145	27786										
CUBN	8029	broad.mit.edu	37	chr10	17107605	17107605	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tcaatgagttaccactgcttGtgagagatggcgggatcgac	13	8	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:17107605G>T	uc001ioo.2	-	22	3093	c.3041C>A	c.(3040-3042)ACA>AAA	p.T1014K		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1014	CUB 5.				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)	ACCACTGCTTGTGAGAGATGG	0.408													53	88	---	---	---	---	PASS	T	17107605	T	T	17107605	3	4	73	1	0	0	0	0	1	0	0	0	4051	1377	48	3	8014	3	CUBN	10	17107605	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08		17107605	118427142	146	27787										
NEBL	10529	broad.mit.edu	37	chr10	21120411	21120411	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgctgtcttacctggctggcCatctcggatgctttcttagc	10	12	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:21120411C>T	uc001iqi.2	-	15	1948	c.1551G>A	c.(1549-1551)ATG>ATA	p.M517I	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_RNA	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	517	Nebulin 14.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						CCTGGCTGGCCATCTCGGATG	0.428													42	69	---	---	---	---	PASS	T	21120411	T	T	21120411	3	4	73	1	0	0	0	0	1	0	0	0	10303	594	21	3	1549	3	NEBL	10	21120411	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	4012806	21120411	114414336	147	27788										
GPR158	57512	broad.mit.edu	37	chr10	25887113	25887113	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttccacactggaatccctgtCgggtaaaaaactaacacaaa	6	11	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:25887113C>A	uc001isj.2	+	11	2618	c.2558C>A	c.(2557-2559)TCG>TAG	p.S853*	GPR158_uc001isk.2_Nonsense_Mutation_p.S228*	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	853	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GAATCCCTGTCGGGTAAAAAA	0.502													42	86	---	---	---	---	PASS	A	25887113	A	A	25887113	4	1	73	1	0	0	0	0	0	1	0	0	6663	893	31	2	2600	2	GPR158	10	25887113	Nonsense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	4766702	25887113	109647634	148	27789										
CSGALNACT2	55454	broad.mit.edu	37	chr10	43654346	43654346	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgtgccacttgctgaaagaaCtgaagcatttgtacaattta	8	7	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:43654346C>T	uc001jan.2	+	3	1180	c.845C>T	c.(844-846)ACT>ATT	p.T282I	CSGALNACT2_uc001jam.1_Missense_Mutation_p.T282I	NM_018590	NP_061060	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate	282	Lumenal (Potential).				chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process	Golgi cisterna membrane|integral to Golgi membrane	glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding			ovary(1)	1						GCTGAAAGAACTGAAGCATTT	0.373													12	41	---	---	---	---	PASS	T	43654346	T	T	43654346	3	4	73	1	0	0	0	0	1	0	0	0	3939	565	20	3	851	3	CSGALNACT2	10	43654346	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	17767233	43654346	91880401	149	27790										
ZNF488	118738	broad.mit.edu	37	chr10	48371120	48371120	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggggagctgtctggactcctCaacactacagacctcgcttg	11	13	2	1	rs149528341		TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:48371120C>T	uc001jex.2	+	2	750	c.588C>T	c.(586-588)CTC>CTT	p.L196L	ZNF488_uc001jey.2_Silent_p.L89L	NM_153034	NP_694579	Q96MN9	ZN488_HUMAN	zinc finger protein 488	196					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTGGACTCCTCAACACTACAG	0.532													50	21	---	---	---	---	PASS	T	48371120	T	T	48371120	2	4	73	1	0	0	0	0	0	0	0	1	17937	813	29	2		2	ZNF488	10	48371120	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	4716774	48371120	87163627	150	27791										
KIAA1274	27143	broad.mit.edu	37	chr10	72289798	72289798	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cagggttcaggcgggtcctcCagaaactccagaaggacgga	14	11	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:72289798C>T	uc001jrd.3	+	4	723	c.442C>T	c.(442-444)CAG>TAG	p.Q148*		NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	148										ovary(2)|central_nervous_system(1)	3						GCGGGTCCTCCAGAAACTCCA	0.632													12	8	---	---	---	---	PASS	T	72289798	T	T	72289798	4	4	73	1	0	0	0	0	0	1	0	0	8220	595	21	3	452	3	KIAA1274	10	72289798	Nonsense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	23918678	72289798	63244949	151	27792										
CDH23	64072	broad.mit.edu	37	chr10	73326642	73326642	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggtatcgtcacagtgatccgGgagctggactacgagaccac	13	11	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:73326642G>T	uc001jrx.3	+	7	950	c.573G>T	c.(571-573)CGG>CGT	p.R191R	CDH23_uc001jrw.3_Silent_p.R191R|CDH23_uc001jrv.2_Silent_p.R186R|CDH23_uc009xql.2_Silent_p.R236R	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	191	Cadherin 2.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CAGTGATCCGGGAGCTGGACT	0.657													22	11	---	---	---	---	PASS	T	73326642	T	T	73326642	2	4	73	1	0	0	0	0	0	0	0	1	3108	1219	43	3		3	CDH23	10	73326642	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	1036844	73326642	62208105	152	27793										
GRID1	2894	broad.mit.edu	37	chr10	87487767	87487767	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gaaccctttgtagcgcttggGctgtcctaggatgttctcag	12	10	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:87487767G>A	uc001kdl.1	-	10	1479	c.1378C>T	c.(1378-1380)CCC>TCC	p.P460S	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.P31S	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	460	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	TAGCGCTTGGGCTGTCCTAGG	0.473										Multiple Myeloma(13;0.14)			105	59	---	---	---	---	PASS	A	87487767	A	A	87487767	3	1	73	1	0	0	0	0	1	0	0	0	6771	1203	42	3	1679	3	GRID1	10	87487767	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	14161125	87487767	48046980	153	27794										
KIF11	3832	broad.mit.edu	37	chr10	94409662	94409662	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	actgaaccacgtgaacatctCcttgatcagctgaaaaggaa	8	10	2	4			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:94409662C>G	uc001kic.2	+	20	3149	c.2841C>G	c.(2839-2841)CTC>CTG	p.L947L	KIF11_uc010qnq.1_RNA	NM_004523	NP_004514	P52732	KIF11_HUMAN	kinesin family member 11	947					blood coagulation|cell division|microtubule-based movement|spindle assembly involved in mitosis	chromatin remodeling complex|cytosol|kinesin complex|microtubule|spindle pole	ATP binding|microtubule motor activity|protein kinase binding			skin(1)	1						GTGAACATCTCCTTGATCAGC	0.373													25	24	---	---	---	---	PASS	G	94409662	G	G	94409662	2	3	73	1	0	0	0	0	0	0	0	1	8272	842	30	2		2	KIF11	10	94409662	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	6921895	94409662	41125085	154	27795										
KIF11	3832	broad.mit.edu	37	chr10	94410206	94410206	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggcagtatactgaagaacctCtaagtcaagagccatctgta	9	9	3	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:94410206C>G	uc001kic.2	+	21	3279	c.2971C>G	c.(2971-2973)CTA>GTA	p.L991V	KIF11_uc010qnq.1_RNA	NM_004523	NP_004514	P52732	KIF11_HUMAN	kinesin family member 11	991					blood coagulation|cell division|microtubule-based movement|spindle assembly involved in mitosis	chromatin remodeling complex|cytosol|kinesin complex|microtubule|spindle pole	ATP binding|microtubule motor activity|protein kinase binding			skin(1)	1						TGAAGAACCTCTAAGTCAAGA	0.438													45	28	---	---	---	---	PASS	G	94410206	G	G	94410206	3	3	73	1	0	0	0	0	1	0	0	0	8272	912	32	2	3053	2	KIF11	10	94410206	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	544	94410206	41124541	155	27796										
ABCC2	1244	broad.mit.edu	37	chr10	101590552	101590552	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgaatagcctgaaggaagacGaagaactagtgaaaggacaa	12	5	0	5			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:101590552G>A	uc001kqf.2	+	21	2966	c.2827G>A	c.(2827-2829)GAA>AAA	p.E943K		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	943	Cytoplasmic (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GAAGGAAGACGAAGAACTAGT	0.418													42	23	---	---	---	---	PASS	A	101590552	A	A	101590552	3	1	73	1	0	0	0	0	1	0	0	0	53	1059	37	2	2909	2	ABCC2	10	101590552	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	7180346	101590552	33944195	156	27797										
ELOVL3	83401	broad.mit.edu	37	chr10	103988822	103988822	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	caccagcctgcagatcttgcAgatgtttgtaggagccatcg	11	11	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:103988822A>G	uc001kut.2	+	4	789	c.626A>G	c.(625-627)CAG>CGG	p.Q209R		NM_152310	NP_689523	Q9HB03	ELOV3_HUMAN	elongation of very long chain fatty acids like	209	Helical; (Potential).				fatty acid elongation, monounsaturated fatty acid|fatty acid elongation, polyunsaturated fatty acid|fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding			ovary(2)	2		Colorectal(252;0.207)		Epithelial(162;4.47e-08)|all cancers(201;7.96e-07)		CAGATCTTGCAGATGTTTGTA	0.527													3	38	---	---	---	---	PASS	G	103988822	G	G	103988822	3	3	73	1	0	0	0	0	1	0	0	0	5075	188	7	5	640	5	ELOVL3	10	103988822	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	2398270	103988822	31545925	157	27798										
DPYSL4	10570	broad.mit.edu	37	chr10	134012417	134012417	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	caggcaaactgcccgctgtaCgtcaccaaggtgatgagcaa	11	12	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr10:134012417C>T	uc009ybb.2	+	8	907	c.753C>T	c.(751-753)TAC>TAT	p.Y251Y		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	251					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-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;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		GCCCGCTGTACGTCACCAAGG	0.667													34	23	---	---	---	---	PASS	T	134012417	T	T	134012417	2	4	73	1	0	0	0	0	0	0	0	1	4749	547	19	1		1	DPYSL4	10	134012417	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	30023595	134012417	1522330	158	27799										
MRGPRE	116534	broad.mit.edu	37	chr11	3249621	3249621	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cacacaggtggtcaggtggcGtgggcggcggcacgagtacc	18	11	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:3249621G>A	uc001lxq.3	-	2	716	c.406C>T	c.(406-408)CGC>TGC	p.R136C		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	136	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		Medulloblastoma(188;0.00106)|all_epithelial(84;0.00111)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00529)|LUSC - Lung squamous cell carcinoma(625;0.19)		GTCAGGTGGCGTGGGCGGCGG	0.692													6	7	---	---	---	---	PASS	A	3249621	A	A	3249621	3	1	73	1	0	0	0	0	1	0	0	0	9764	1145	40	1	533	1	MRGPRE	11	3249621	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08		3249621	131756895	159	27800										
OR52E2	119678	broad.mit.edu	37	chr11	5080587	5080587	+	Missense_Mutation	SNP	G	T	T													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttcaaagatgatccctctgaGgttgatccagaagattccaa							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:5080587G>T	uc010qyw.1	-	1	271	c.271C>A	c.(271-273)CTC>ATC	p.L91I		NM_001005164	NP_001005164	Q8NGJ4	O52E2_HUMAN	olfactory receptor, family 52, subfamily E,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.03e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.191)		ATCCCTCTGAGGTTGATCCAG	0.488													15	15	---	---	---	---	PASS	T	5080587	T	T	5080587	3	4	73	1	0	0	0	0	1	0	0	0	11115	1000	35	3	709	3	OR52E2	11	5080587	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1830966	5080587	129925929	160	27801	581	2								
OR52E2	119678	broad.mit.edu	37	chr11	5080588	5080588	+	Missense_Mutation	SNP	G	T	T													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tcaaagatgatccctctgagGttgatccagaagattccaag							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:5080588G>T	uc010qyw.1	-	1	270	c.270C>A	c.(268-270)AAC>AAA	p.N90K		NM_001005164	NP_001005164	Q8NGJ4	O52E2_HUMAN	olfactory receptor, family 52, subfamily E,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.03e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.191)		TCCCTCTGAGGTTGATCCAGA	0.483													15	15	---	---	---	---	PASS	T	5080588	T	T	5080588	3	4	73	1	0	0	0	0	1	0	0	0	11115	1252	44	3	710	3	OR52E2	11	5080588	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1	5080588	129925928	161	27802	581	2								
OR52E2	119678	broad.mit.edu	37	chr11	5080785	5080785	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aaagccgatccagatgtgaaGtgtttctagtcctgggatcc	11	9	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:5080785G>T	uc010qyw.1	-	1	73	c.73C>A	c.(73-75)CTT>ATT	p.L25I		NM_001005164	NP_001005164	Q8NGJ4	O52E2_HUMAN	olfactory receptor, family 52, subfamily E,	25	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.03e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.191)		CAGATGTGAAGTGTTTCTAGT	0.488													24	43	---	---	---	---	PASS	T	5080785	T	T	5080785	3	4	73	1	0	0	0	0	1	0	0	0	11115	1029	36	3	907	3	OR52E2	11	5080785	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	197	5080785	129925731	162	27803										
OR56A4	120793	broad.mit.edu	37	chr11	6023926	6023926	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atgaacatctggaggaagcaGgctgggaagctgatcgacct	14	8	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:6023926G>T	uc010qzv.1	-	1	453	c.453C>A	c.(451-453)GCC>GCA	p.A151A		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	99	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGAGGAAGCAGGCTGGGAAGC	0.542													28	48	---	---	---	---	PASS	T	6023926	T	T	6023926	2	4	73	1	0	0	0	0	0	0	0	1	11135	987	35	3		3	OR56A4	11	6023926	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	943141	6023926	128982590	163	27804										
OR56A1	120796	broad.mit.edu	37	chr11	6048912	6048912	+	Missense_Mutation	SNP	G	T	T													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggacagtggagctgttgctgGgtgacgccataggctgaatc							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:6048912G>T	uc010qzw.1	-	1	23	c.23C>A	c.(22-24)CCC>CAC	p.P8H		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.P8T(1)		ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCTGTTGCTGGGTGACGCCAT	0.488													70	119	---	---	---	---	PASS	T	6048912	T	T	6048912	3	4	73	1	0	0	0	0	1	0	0	0	11133	1232	43	3	937	3	OR56A1	11	6048912	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	24986	6048912	128957604	164	27805	582	2								
OR56A1	120796	broad.mit.edu	37	chr11	6048913	6048913	+	Missense_Mutation	SNP	G	T	T													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gacagtggagctgttgctggGtgacgccataggctgaatca							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:6048913G>T	uc010qzw.1	-	1	22	c.22C>A	c.(22-24)CCC>ACC	p.P8T		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.P8T(1)		ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTGTTGCTGGGTGACGCCATA	0.488													70	118	---	---	---	---	PASS	T	6048913	T	T	6048913	3	4	73	1	0	0	0	0	1	0	0	0	11133	1261	44	3	938	3	OR56A1	11	6048913	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1	6048913	128957603	165	27806	582	2								
SYT9	143425	broad.mit.edu	37	chr11	7324593	7324593	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atggcgtccgcgtgcagcgcCaagtcacagagccaacctcg	12	15	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:7324593C>A	uc001mfe.2	+	2	706	c.469C>A	c.(469-471)CAA>AAA	p.Q157K	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_RNA	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	157	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		CGTGCAGCGCCAAGTCACAGA	0.587													8	21	---	---	---	---	PASS	A	7324593	A	A	7324593	3	1	73	1	0	0	0	0	1	0	0	0	15478	595	21	3	475	3	SYT9	11	7324593	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	1275680	7324593	127681923	166	27807										
WEE1	7465	broad.mit.edu	37	chr11	9603115	9603115	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgctataagtgaaaactacaGaatcatgagttactttaaag	7	5	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:9603115G>C	uc001mhs.2	+	6	1431	c.1178G>C	c.(1177-1179)AGA>ACA	p.R393T	WEE1_uc001mht.2_Missense_Mutation_p.R179T	NM_003390	NP_003381	P30291	WEE1_HUMAN	WEE1 tyrosine kinase isoform 1	393	Protein kinase.				blood coagulation|cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|S phase of mitotic cell cycle	nucleoplasm	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	5				all cancers(16;4.59e-09)|Epithelial(150;3.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0484)		GAAAACTACAGAATCATGAGT	0.338													28	48	---	---	---	---	PASS	C	9603115	C	C	9603115	3	2	73	1	0	0	0	0	1	0	0	0	17341	942	33	2	1200	2	WEE1	11	9603115	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	2278522	9603115	125403401	167	27808										
INSC	387755	broad.mit.edu	37	chr11	15247298	15247298	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggcctgcgagatgctcctgcAgttgaatgccatccgtgttc	12	12	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:15247298A>G	uc001mly.2	+	9	1281	c.1235A>G	c.(1234-1236)CAG>CGG	p.Q412R	INSC_uc001mlz.2_Missense_Mutation_p.Q365R|INSC_uc001mma.2_Missense_Mutation_p.Q365R|INSC_uc010rcs.1_Missense_Mutation_p.Q400R|INSC_uc001mmb.2_Missense_Mutation_p.Q365R|INSC_uc001mmc.2_Missense_Mutation_p.Q323R	NM_001031853	NP_001027024	Q1MX18	INSC_HUMAN	inscuteable isoform a	412					cell differentiation|nervous system development	cytoplasm	binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)	5						ATGCTCCTGCAGTTGAATGCC	0.572													20	20	---	---	---	---	PASS	G	15247298	G	G	15247298	3	3	73	1	0	0	0	0	1	0	0	0	7764	188	7	5	1269	5	INSC	11	15247298	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	5644183	15247298	119759218	168	27809										
KCNA4	3739	broad.mit.edu	37	chr11	30033036	30033036	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgatgtttttgaagaagagtGcttggctgggacaagcaaag	14	4	0	4			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:30033036G>T	uc001msk.2	-	2	2342	c.1190C>A	c.(1189-1191)GCA>GAA	p.A397E		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	397						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GAAGAAGAGTGCTTGGCTGGG	0.463													27	31	---	---	---	---	PASS	T	30033036	T	T	30033036	3	4	73	1	0	0	0	0	1	0	0	0	8005	1319	46	3	775	3	KCNA4	11	30033036	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	14785738	30033036	104973480	169	27810										
CCDC73	493860	broad.mit.edu	37	chr11	32697138	32697138	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aaactgcatatttcagcttcTtgttttttatttaaagctga	5	6	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:32697138T>C	uc001mtv.2	-	9	662	c.618A>G	c.(616-618)CAA>CAG	p.Q206Q	CCDC73_uc001mtw.1_Silent_p.Q206Q	NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	206	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					TTTCAGCTTCTTGTTTTTTAT	0.274													8	14	---	---	---	---	PASS	C	32697138	C	C	32697138	2	2	73	1	0	0	0	0	0	0	0	1	2846	1606	56	5		5	CCDC73	11	32697138	Silent	SNP	T	TCGA-34-5927-01A-11D-1817-08	2664102	32697138	102309378	170	27811										
C11orf41	25758	broad.mit.edu	37	chr11	33566385	33566385	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gtttctgaggaaatcaagtcCacctgcactgtctgcagccc	9	13	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:33566385C>A	uc001mup.3	+	2	2097	c.1973C>A	c.(1972-1974)CCA>CAA	p.P658Q	C11orf41_uc001mun.1_Missense_Mutation_p.P658Q	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	652						integral to membrane				ovary(2)	2						AAATCAAGTCCACCTGCACTG	0.512													15	17	---	---	---	---	PASS	A	33566385	A	A	33566385	3	1	73	1	0	0	0	0	1	0	0	0	1640	594	21	3	1979	3	C11orf41	11	33566385	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	869247	33566385	101440131	171	27812										
LRRC4C	57689	broad.mit.edu	37	chr11	40137244	40137244	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	acatggcaaggttcaaatacCtcaagttggacagaccttca	8	10	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:40137244C>T	uc001mxa.1	-	2	2563	c.599G>A	c.(598-600)AGG>AAG	p.R200K	LRRC4C_uc001mxc.1_Missense_Mutation_p.R196K|LRRC4C_uc001mxd.1_Missense_Mutation_p.R196K|LRRC4C_uc001mxb.1_Missense_Mutation_p.R196K	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	200	LRR 6.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				GTTCAAATACCTCAAGTTGGA	0.438													25	65	---	---	---	---	PASS	T	40137244	T	T	40137244	3	4	73	1	0	0	0	0	1	0	0	0	9008	681	24	3	1327	3	LRRC4C	11	40137244	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	6570859	40137244	94869272	172	27813										
ACCS	84680	broad.mit.edu	37	chr11	44099414	44099414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggtcactgggctagacacacGccccttccagctcacagtgg	11	15	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:44099414G>T	uc009yks.1	+	8	818	c.674G>T	c.(673-675)CGC>CTC	p.R225L	EXT2_uc010rfo.1_Intron|ACCS_uc010rfm.1_3'UTR|ACCS_uc001mxx.2_Missense_Mutation_p.R225L	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	225							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						CTAGACACACGCCCCTTCCAG	0.552													18	36	---	---	---	---	PASS	T	44099414	T	T	44099414	3	4	73	1	0	0	0	0	1	0	0	0	133	1087	38	1	700	1	ACCS	11	44099414	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	3962170	44099414	90907102	173	27814										
OR4C3	256144	broad.mit.edu	37	chr11	48346889	48346889	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tctttggagctcattttttgGgaggtgttgagatcattctg	12	5	4	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:48346889G>A	uc010rhv.1	+	1	397	c.397G>A	c.(397-399)GGA>AGA	p.G133R		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	106	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TCATTTTTTGGGAGGTGTTGA	0.473													25	340	---	---	---	---	PASS	A	48346889	A	A	48346889	3	1	73	1	0	0	0	0	1	0	0	0	11050	1233	43	3	399	3	OR4C3	11	48346889	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	4247475	48346889	86659627	174	27815										
OR5W2	390148	broad.mit.edu	37	chr11	55681934	55681934	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttaaaactatcattccaagaTttgctgagaaattaatgata	5	5	1	3	rs139033114	byFrequency	TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:55681934T>A	uc010rir.1	-	1	125	c.125A>T	c.(124-126)AAT>ATT	p.N42I		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	42	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CATTCCAAGATTTGCTGAGAA	0.343													20	41	---	---	---	---	PASS	A	55681934	A	A	55681934	3	1	73	1	0	0	0	0	1	0	0	0	11185	1493	52	5	809	5	OR5W2	11	55681934	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	7335045	55681934	79324582	175	27816										
OR8K5	219453	broad.mit.edu	37	chr11	55927561	55927561	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aatttgccagcaccttgggaCaaatgacagtagaattacca	8	9	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:55927561C>A	uc010rja.1	-	1	233	c.233G>T	c.(232-234)TGT>TTT	p.C78F		NM_001004058	NP_001004058	Q8NH50	OR8K5_HUMAN	olfactory receptor, family 8, subfamily K,	78	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(21;0.00693)	Lung NSC(402;0.197)|all_epithelial(135;0.236)				CACCTTGGGACAAATGACAGT	0.378													33	55	---	---	---	---	PASS	A	55927561	A	A	55927561	3	1	73	1	0	0	0	0	1	0	0	0	11245	478	17	3	693	3	OR8K5	11	55927561	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	245627	55927561	79078955	176	27817										
DTX4	23220	broad.mit.edu	37	chr11	58972338	58972338	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atgtgctggctgaactggctGcccagggcatctctgaggac	14	11	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:58972338G>C	uc001nns.2	+	9	2073	c.1816G>C	c.(1816-1818)GCC>CCC	p.A606P	DTX4_uc001nnr.2_Missense_Mutation_p.A500P	NM_015177	NP_055992	Q9Y2E6	DTX4_HUMAN	deltex 4 homolog	606					Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)				TGAACTGGCTGCCCAGGGCAT	0.557													4	11	---	---	---	---	PASS	C	58972338	C	C	58972338	3	2	73	1	0	0	0	0	1	0	0	0	4797	1319	46	4	1850	4	DTX4	11	58972338	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	3044777	58972338	76034178	177	27818										
TCN1	6947	broad.mit.edu	37	chr11	59626613	59626613	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttttcttttttctcagacagAatcttttctaccagtgactt	4	9	4	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:59626613A>T	uc001noj.2	-	5	782	c.684T>A	c.(682-684)ATT>ATA	p.I228I		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	228					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TCTCAGACAGAATCTTTTCTA	0.408													47	91	---	---	---	---	PASS	T	59626613	T	T	59626613	2	4	73	1	0	0	0	0	0	0	0	1	15703	242	9	5		5	TCN1	11	59626613	Silent	SNP	A	TCGA-34-5927-01A-11D-1817-08	654275	59626613	75379903	178	27819										
SLC22A6	9356	broad.mit.edu	37	chr11	62751953	62751953	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gactcaggctgcccctgcctGtcccggggcagccagacctc	12	18	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:62751953G>C	uc001nwk.2	-	1	517	c.210C>G	c.(208-210)GAC>GAG	p.D70E	SLC22A6_uc001nwl.2_Missense_Mutation_p.D70E|SLC22A6_uc001nwj.2_Missense_Mutation_p.D70E|SLC22A6_uc001nwm.2_Missense_Mutation_p.D70E	NM_004790	NP_004781	Q4U2R8	S22A6_HUMAN	solute carrier family 22 member 6 isoform a	70	Extracellular (Potential).				alpha-ketoglutarate transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|protein binding				0						GCCCCTGCCTGTCCCGGGGCA	0.662													34	61	---	---	---	---	PASS	C	62751953	C	C	62751953	3	2	73	1	0	0	0	0	1	0	0	0	14458	1368	48	4	1521	4	SLC22A6	11	62751953	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	3125340	62751953	72254563	179	27820										
DNAJC4	3338	broad.mit.edu	37	chr11	63999935	63999935	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gggaccctgggaacccaagcCtgcacagccgctttgtggag	14	13	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:63999935C>A	uc001nys.2	+	4	676	c.214C>A	c.(214-216)CTG>ATG	p.L72M	uc001nyr.1_5'Flank|DNAJC4_uc001nyt.2_Missense_Mutation_p.L72M|DNAJC4_uc001nyu.2_Missense_Mutation_p.L72M|VEGFB_uc001nyw.2_5'Flank|VEGFB_uc001nyx.2_5'Flank	NM_005528	NP_005519	Q9NNZ3	DNJC4_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 4	72	J.				protein folding|response to unfolded protein	integral to membrane|membrane fraction	heat shock protein binding|unfolded protein binding				0						GAACCCAAGCCTGCACAGCCG	0.647													12	34	---	---	---	---	PASS	A	63999935	A	A	63999935	3	1	73	1	0	0	0	0	1	0	0	0	4649	680	24	3	224	3	DNAJC4	11	63999935	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	1247982	63999935	71006581	180	27821										
DPF2	5977	broad.mit.edu	37	chr11	65113462	65113462	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgtgacttctgcctgggggaCtcaaagattaacaagaagac	11	8	2	4			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:65113462C>G	uc001odm.2	+	8	849	c.837C>G	c.(835-837)GAC>GAG	p.D279E	DPF2_uc001odn.2_Missense_Mutation_p.D293E|DPF2_uc010roe.1_Intron	NM_006268	NP_006259	Q92785	REQU_HUMAN	D4, zinc and double PHD fingers family 2	279	PHD-type 1.				apoptosis|induction of apoptosis by extracellular signals|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						GCCTGGGGGACTCAAAGATTA	0.542													67	116	---	---	---	---	PASS	G	65113462	G	G	65113462	3	3	73	1	0	0	0	0	1	0	0	0	4717	564	20	4	867	4	DPF2	11	65113462	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	1113527	65113462	69893054	181	27822										
TIGD3	220359	broad.mit.edu	37	chr11	65124453	65124453	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcgggctgagcctggaggagTtttcccgctttgtggacctg	16	10	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:65124453T>C	uc001odo.3	+	2	1337	c.1174T>C	c.(1174-1176)TTT>CTT	p.F392L		NM_145719	NP_663771	Q6B0B8	TIGD3_HUMAN	tigger transposable element derived 3	392					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						CCTGGAGGAGTTTTCCCGCTT	0.597													52	87	---	---	---	---	PASS	C	65124453	C	C	65124453	3	2	73	1	0	0	0	0	1	0	0	0	15894	1725	60	5	1176	5	TIGD3	11	65124453	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	10991	65124453	69882063	182	27823										
PACS1	55690	broad.mit.edu	37	chr11	65838208	65838208	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cgtggcggtggcctcgggctCcgcgcctcccggtggcccgg	18	17	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:65838208C>T	uc001oha.1	+	1	385	c.251C>T	c.(250-252)TCC>TTC	p.S84F	PACS1_uc001ogz.1_Missense_Mutation_p.S84F	NM_018026	NP_060496	Q6VY07	PACS1_HUMAN	phosphofurin acidic cluster sorting protein 1	84	Ser-rich.				interspecies interaction between organisms|regulation of defense response to virus by virus|viral reproduction	cytosol	protein binding			ovary(6)	6						GCCTCGGGCTCCGCGCCTCCC	0.746													3	9	---	---	---	---	PASS	T	65838208	T	T	65838208	3	4	73	1	0	0	0	0	1	0	0	0	11372	855	30	2	253	2	PACS1	11	65838208	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	713755	65838208	69168308	183	27824										
NADSYN1	55191	broad.mit.edu	37	chr11	71166186	71166186	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgccaaaaacagaggagcaaGatacaggcttggaccagagc	12	9	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:71166186G>T	uc001oqn.2	+	2	242	c.116G>T	c.(115-117)AGA>ATA	p.R39I	NADSYN1_uc001oqm.2_RNA|NADSYN1_uc001oqo.2_5'UTR	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	39	CN hydrolase.				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	AGAGGAGCAAGATACAGGCTT	0.443													33	62	---	---	---	---	PASS	T	71166186	T	T	71166186	3	4	73	1	0	0	0	0	1	0	0	0	10138	942	33	2	122	2	NADSYN1	11	71166186	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	5327978	71166186	63840330	184	27825										
PRSS23	11098	broad.mit.edu	37	chr11	86519529	86519529	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcagaattcacttctctggtTatgacaatgaccgaccaggc	9	11	2	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:86519529T>C	uc001pcb.2	+	2	1060	c.844T>C	c.(844-846)TAT>CAT	p.Y282H	PRSS23_uc001pcc.1_Intron|PRSS23_uc010rts.1_Missense_Mutation_p.Y250H	NM_007173	NP_009104	O95084	PRS23_HUMAN	protease, serine, 23 precursor	282					proteolysis	extracellular region|nucleus	serine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CTTCTCTGGTTATGACAATGA	0.517													44	98	---	---	---	---	PASS	C	86519529	C	C	86519529	3	2	73	1	0	0	0	0	1	0	0	0	12620	1754	61	5	846	5	PRSS23	11	86519529	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	15353343	86519529	48486987	185	27826										
GRM5	2915	broad.mit.edu	37	chr11	88300875	88300875	+	Frame_Shift_Del	DEL	T	-	-													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tctttgttacaagggctgagTagctcatggctggggagaga							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:88300875delT	uc001pcq.2	-	7	2176	c.1976delA	c.(1975-1977)TACfs	p.Y659fs	GRM5_uc009yvm.2_Frame_Shift_Del_p.Y659fs	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	659	Helical; Name=3; (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	AAGGGCTGAGTAGCTCATGGC	0.498													42	23	---	---	---	---		-	88300875	-	-	88300875	7	5	73	1	0	1	0	1	0	0	0	0	6800	1638	57	0	1674	0	GRM5	11	88300875	Frame_Shift_Del	DEL	T	TCGA-34-5927-01A-11D-1817-08	1781346	88300875	46705641	186	27827										
CASP5	838	broad.mit.edu	37	chr11	104869685	104869685	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	acagaatctgcctccaggttCtcagatgactgtgaagagat	10	9	2	5			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:104869685C>T	uc010rva.1	-	7	1055	c.1023G>A	c.(1021-1023)GAG>GAA	p.E341E	CASP5_uc010ruz.1_Silent_p.E354E|CASP5_uc010rvb.1_Silent_p.E283E|CASP5_uc010rvc.1_Silent_p.E199E|CASP5_uc009yxh.2_Silent_p.E123E|CASP5_uc010rvd.1_Silent_p.E123E	NM_004347	NP_004338	P51878	CASP5_HUMAN	caspase 5 isoform a precursor	341					apoptosis|cellular response to mechanical stimulus|proteolysis|regulation of apoptosis	intracellular	cysteine-type endopeptidase activity|protein binding			ovary(2)|lung(1)	3		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000943)|Epithelial(105;0.0104)|all cancers(92;0.042)		CCTCCAGGTTCTCAGATGACT	0.418													5	119	---	---	---	---	PASS	T	104869685	T	T	104869685	2	4	73	1	0	0	0	0	0	0	0	1	2674	912	32	2		2	CASP5	11	104869685	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	16568810	104869685	30136831	187	27828										
KBTBD3	143879	broad.mit.edu	37	chr11	105924321	105924321	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgatcagtggcatcatgataTgactcggcaatatgcagtcg	11	8	2	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:105924321T>C	uc001pja.2	-	4	1735	c.1095A>G	c.(1093-1095)TCA>TCG	p.S365S	KBTBD3_uc001pjb.2_Silent_p.S365S|KBTBD3_uc009yxm.2_Silent_p.S286S	NM_198439	NP_940841	Q8NAB2	KBTB3_HUMAN	BTB and kelch domain containing 3	361	Kelch 2.									ovary(1)|central_nervous_system(1)	2		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.43e-05)|Epithelial(105;0.00418)|all cancers(92;0.0299)		CATCATGATATGACTCGGCAA	0.423													39	37	---	---	---	---	PASS	C	105924321	C	C	105924321	2	2	73	1	0	0	0	0	0	0	0	1	7994	1451	51	5		5	KBTBD3	11	105924321	Silent	SNP	T	TCGA-34-5927-01A-11D-1817-08	1054636	105924321	29082195	188	27829										
C11orf87	399947	broad.mit.edu	37	chr11	109294504	109294504	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcagcggcacctgcatcacgCaggtgggacagcagctcttc	13	14	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:109294504C>A	uc001pkn.2	+	2	519	c.145C>A	c.(145-147)CAG>AAG	p.Q49K	C11orf87_uc010rwb.1_5'Flank	NM_207645	NP_997528	Q6NUJ2	CK087_HUMAN	hypothetical protein LOC399947 precursor	49	Extracellular (Potential).					integral to membrane				ovary(2)	2						CTGCATCACGCAGGTGGGACA	0.632													14	35	---	---	---	---	PASS	A	109294504	A	A	109294504	3	1	73	1	0	0	0	0	1	0	0	0	1669	711	25	3	147	3	C11orf87	11	109294504	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	3370183	109294504	25712012	189	27830										
LAYN	143903	broad.mit.edu	37	chr11	111430955	111430955	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gctgacttagctgagacccgGccagacctgaagaatatttc	10	11	0	5			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:111430955G>A	uc001plr.1	+	8	1257	c.921G>A	c.(919-921)CGG>CGA	p.R307R	LAYN_uc001plp.1_Silent_p.R299R|LAYN_uc001plq.1_3'UTR|LAYN_uc001pls.1_3'UTR|LAYN_uc010rwg.1_Silent_p.R154R|LAYN_uc010rwh.1_Silent_p.R155R	NM_178834	NP_849156	Q6UX15	LAYN_HUMAN	layilin	307	Cytoplasmic (Potential).					cell surface|integral to membrane|ruffle	hyaluronic acid binding|sugar binding				0		all_cancers(61;9.06e-10)|all_epithelial(67;1.34e-05)|Melanoma(852;1.74e-05)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.086)		Epithelial(105;1.5e-06)|BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|all cancers(92;2.45e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0476)		CTGAGACCCGGCCAGACCTGA	0.498													4	104	---	---	---	---	PASS	A	111430955	A	A	111430955	2	1	73	1	0	0	0	0	0	0	0	1	8649	1190	42	3		3	LAYN	11	111430955	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	2136451	111430955	23575561	190	27831										
TECTA	7007	broad.mit.edu	37	chr11	121058628	121058628	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cacgtcaccgtctttaaattCataggggattacgacgaagt	9	9	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:121058628C>T	uc010rzo.1	+	20	6087	c.6087C>T	c.(6085-6087)TTC>TTT	p.F2029F		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	2029	ZP.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TCTTTAAATTCATAGGGGATT	0.438													41	75	---	---	---	---	PASS	T	121058628	T	T	121058628	2	4	73	1	0	0	0	0	0	0	0	1	15744	825	29	2		2	TECTA	11	121058628	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	9627673	121058628	13947888	191	27832										
SC5DL	6309	broad.mit.edu	37	chr11	121175181	121175181	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gttacagcaaattacatgatGacctaggagagtttccatat	8	7	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:121175181G>C	uc001pxu.2	+	3	470	c.322G>C	c.(322-324)GAC>CAC	p.D108H	SC5DL_uc001pxs.1_3'UTR|SC5DL_uc001pxt.2_Missense_Mutation_p.D108H|SC5DL_uc001pxv.2_Missense_Mutation_p.D108H	NM_006918	NP_008849	O75845	SC5D_HUMAN	sterol-C5-desaturase	108					fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	C-5 sterol desaturase activity|iron ion binding|lathosterol oxidase activity			ovary(1)	1		Breast(109;0.00328)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)	OV - Ovarian serous cystadenocarcinoma(1;0.0334)	BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.144)		ATTACATGATGACCTAGGAGA	0.393													33	51	---	---	---	---	PASS	C	121175181	C	C	121175181	3	2	73	1	0	0	0	0	1	0	0	0	13866	1290	45	2	328	2	SC5DL	11	121175181	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	116553	121175181	13831335	192	27833										
OR10G7	390265	broad.mit.edu	37	chr11	123909601	123909601	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atgaggaggttccccagcacAgtgagcacgtaaaccaccag	11	12	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:123909601A>G	uc001pzq.1	-	1	108	c.108T>C	c.(106-108)ACT>ACC	p.T36T		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		TCCCCAGCACAGTGAGCACGT	0.577													24	94	---	---	---	---	PASS	G	123909601	G	G	123909601	2	3	73	1	0	0	0	0	0	0	0	1	10902	175	7	5		5	OR10G7	11	123909601	Silent	SNP	A	TCGA-34-5927-01A-11D-1817-08	2734420	123909601	11096915	193	27834										
ADAMTS15	170689	broad.mit.edu	37	chr11	130343465	130343465	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agcgggcggtggactgccggGgctccgccgggcagcgcacg	20	14	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:130343465G>T	uc010scd.1	+	8	2602	c.2602G>T	c.(2602-2604)GGC>TGC	p.G868C		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	868	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		GGACTGCCGGGGCTCCGCCGG	0.756													26	20	---	---	---	---	PASS	T	130343465	T	T	130343465	3	4	73	1	0	0	0	0	1	0	0	0	260	1232	43	3	2632	3	ADAMTS15	11	130343465	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	6433864	130343465	4663051	194	27835										
NCAPD3	23310	broad.mit.edu	37	chr11	134038875	134038875	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agttattaaagtgaaaaataCattcaatgaagtgttggaag	9	2	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:134038875C>A	uc001qhd.1	-	25	3782	c.3176G>T	c.(3175-3177)TGT>TTT	p.C1059F	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA|NCAPD3_uc001qhc.1_Missense_Mutation_p.C9F	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	1059					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		GTGAAAAATACATTCAATGAA	0.443													3	64	---	---	---	---	PASS	A	134038875	A	A	134038875	3	1	73	1	0	0	0	0	1	0	0	0	10206	478	17	3	1364	3	NCAPD3	11	134038875	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	3695410	134038875	967641	195	27836										
NCAPD3	23310	broad.mit.edu	37	chr11	134093809	134093809	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aggccgctaccaaggccccgCaacgccaccatgatcccagg	10	18	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr11:134093809C>A	uc001qhd.1	-	1	618	c.12G>T	c.(10-12)TTG>TTT	p.L4F	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA|VPS26B_uc001qhe.2_5'Flank	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	4					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		CAAGGCCCCGCAACGCCACCA	0.687													4	39	---	---	---	---	PASS	A	134093809	A	A	134093809	3	1	73	1	0	0	0	0	1	0	0	0	10206	709	25	3	4624	3	NCAPD3	11	134093809	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	54934	134093809	912707	196	27837										
KIAA0528	9847	broad.mit.edu	37	chr12	22623838	22623838	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aagtgattgcgactgccgtgActgtaacctagaattataaa	9	7	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:22623838A>T	uc001rfq.2	-	21	2594	c.2366T>A	c.(2365-2367)GTC>GAC	p.V789D	KIAA0528_uc010sir.1_Missense_Mutation_p.V604D|KIAA0528_uc010sis.1_Missense_Mutation_p.V789D|KIAA0528_uc010sit.1_Missense_Mutation_p.V791D|KIAA0528_uc010siu.1_Missense_Mutation_p.V789D|KIAA0528_uc001rfr.2_Missense_Mutation_p.V780D	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	789							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						GACTGCCGTGACTGTAACCTA	0.343													28	45	---	---	---	---	PASS	T	22623838	T	T	22623838	3	4	73	1	0	0	0	0	1	0	0	0	8182	275	10	5	656	5	KIAA0528	12	22623838	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08		22623838	111228057	197	27838										
OVCH1	341350	broad.mit.edu	37	chr12	29631832	29631832	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tcacatccaacttgcttttcCatgtctaaacttgtaaattt	3	10	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:29631832C>A	uc001rix.1	-	9	1005	c.1005G>T	c.(1003-1005)ATG>ATT	p.M335I		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	335	CUB 1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					CTTGCTTTTCCATGTCTAAAC	0.313													11	26	---	---	---	---	PASS	A	29631832	A	A	29631832	3	1	73	1	0	0	0	0	1	0	0	0	11323	594	21	3	2479	3	OVCH1	12	29631832	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	7007994	29631832	104220063	198	27839										
KIF21A	55605	broad.mit.edu	37	chr12	39760235	39760235	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tctttcagatcctgcgagatCaacaaaatggaactttgcag	8	9	3	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:39760235C>G	uc001rly.2	-	6	966	c.820G>C	c.(820-822)GAT>CAT	p.D274H	KIF21A_uc001rlx.2_Missense_Mutation_p.D274H|KIF21A_uc001rlz.2_Missense_Mutation_p.D274H|KIF21A_uc010skl.1_Missense_Mutation_p.D274H|KIF21A_uc001rma.1_Missense_Mutation_p.D282H	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	274	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				CCTGCGAGATCAACAAAATGG	0.383													42	44	---	---	---	---	PASS	G	39760235	G	G	39760235	3	3	73	1	0	0	0	0	1	0	0	0	8288	826	29	2	4336	2	KIF21A	12	39760235	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	10128403	39760235	94091660	199	27840										
LRRK2	120892	broad.mit.edu	37	chr12	40734125	40734125	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctcagccatgattatataccGagacctgaaaccccacaatg	6	13	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:40734125G>T	uc001rmg.3	+	41	6099	c.5978G>T	c.(5977-5979)CGA>CTA	p.R1993L	LRRK2_uc009zjw.2_Missense_Mutation_p.R831L|LRRK2_uc001rmi.2_Missense_Mutation_p.R826L	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1993	Protein kinase.				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)				ATTATATACCGAGACCTGAAA	0.398													50	127	---	---	---	---	PASS	T	40734125	T	T	40734125	3	4	73	1	0	0	0	0	1	0	0	0	9033	1058	37	2	6140	2	LRRK2	12	40734125	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	973890	40734125	93117770	200	27841										
ADAMTS20	80070	broad.mit.edu	37	chr12	43826243	43826243	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tacaataagattctcgagacCtttcccctcctccacaactc	3	16	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:43826243C>A	uc010skx.1	-	21	2960	c.2960G>T	c.(2959-2961)AGG>ATG	p.R987M	ADAMTS20_uc001rno.1_Missense_Mutation_p.R141M|ADAMTS20_uc001rnp.1_Missense_Mutation_p.R141M	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	987	TSP type-1 4.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TTCTCGAGACCTTTCCCCTCC	0.363													36	69	---	---	---	---	PASS	A	43826243	A	A	43826243	3	1	73	1	0	0	0	0	1	0	0	0	266	681	24	3	2847	3	ADAMTS20	12	43826243	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	3092118	43826243	90025652	201	27842										
MLL2	8085	broad.mit.edu	37	chr12	49434903	49434903	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctggctggccagccccaggaCgagatgaggcgcccagcatc	14	15	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:49434903C>T	uc001rta.3	-	31	6650	c.6650G>A	c.(6649-6651)CGT>CAT	p.R2217H		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2217	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGCCCCAGGACGAGATGAGGC	0.701			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			24	23	---	---	---	---	PASS	T	49434903	T	T	49434903	3	4	73	1	0	0	0	0	1	0	0	0	9621	536	19	1	10059	1	MLL2	12	49434903	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	5608660	49434903	84416992	202	27843										
DIP2B	57609	broad.mit.edu	37	chr12	51121588	51121588	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cacaactggcatgcttacagGagtgaaggtaaggtgcatgc	13	8	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:51121588G>C	uc001rwv.2	+	29	3659	c.3503G>C	c.(3502-3504)GGA>GCA	p.G1168A	DIP2B_uc009zlt.2_Missense_Mutation_p.G598A	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1168						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						ATGCTTACAGGAGTGAAGGTA	0.458													75	114	---	---	---	---	PASS	C	51121588	C	C	51121588	3	2	73	1	0	0	0	0	1	0	0	0	4528	1174	41	2	3617	2	DIP2B	12	51121588	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1686685	51121588	82730307	203	27844										
ESPL1	9700	broad.mit.edu	37	chr12	53663320	53663320	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tctccaacagcctgtcgagcGgtagctgcccatcagctatt	9	14	2	0	rs147703740		TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:53663320G>T	uc001sck.2	+	3	685	c.594G>T	c.(592-594)GCG>GCT	p.A198A	ESPL1_uc001scj.2_5'UTR	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	198					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CCTGTCGAGCGGTAGCTGCCC	0.522													153	274	---	---	---	---	PASS	T	53663320	T	T	53663320	2	4	73	1	0	0	0	0	0	0	0	1	5253	1103	39	1		1	ESPL1	12	53663320	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	2541732	53663320	80188575	204	27845										
AMHR2	269	broad.mit.edu	37	chr12	53819263	53819263	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gctacagcgaaagaactacaGagtgcgaggtgagccagtgc	14	9	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:53819263G>C	uc001scx.1	+	5	605	c.527G>C	c.(526-528)AGA>ACA	p.R176T	AMHR2_uc009zmy.1_Missense_Mutation_p.R176T	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	176	Cytoplasmic (Potential).				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	AAGAACTACAGAGTGCGAGGT	0.582									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				33	74	---	---	---	---	PASS	C	53819263	C	C	53819263	3	2	73	1	0	0	0	0	1	0	0	0	573	942	33	2	545	2	AMHR2	12	53819263	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	155943	53819263	80032632	205	27846										
USP15	9958	broad.mit.edu	37	chr12	62708619	62708619	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	actgcaaagtagaagtatatCtcacagaattgaagctatgt	8	6	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:62708619C>G	uc001src.1	+	4	406	c.397C>G	c.(397-399)CTC>GTC	p.L133V	USP15_uc001srb.1_Missense_Mutation_p.L133V|USP15_uc001sra.2_Missense_Mutation_p.L133V	NM_006313	NP_006304	Q9Y4E8	UBP15_HUMAN	ubiquitin specific peptidase 15	133					protein deubiquitination|ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)	3			GBM - Glioblastoma multiforme(1;0.000276)	GBM - Glioblastoma multiforme(28;0.0622)		AGAAGTATATCTCACAGAATT	0.333													176	292	---	---	---	---	PASS	G	62708619	G	G	62708619	3	3	73	1	0	0	0	0	1	0	0	0	17043	913	32	2	411	2	USP15	12	62708619	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	8889356	62708619	71143276	206	27847										
PPP1R12A	4659	broad.mit.edu	37	chr12	80203635	80203635	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gaagctgaacgtgtaacaccTgcagtatctttttctttctg	8	9	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:80203635T>A	uc001syz.2	-	10	1662	c.1395A>T	c.(1393-1395)GCA>GCT	p.A465A	PPP1R12A_uc010suc.1_Silent_p.A378A|PPP1R12A_uc001sza.2_Silent_p.A465A|PPP1R12A_uc010sud.1_Silent_p.A465A|PPP1R12A_uc001szb.2_Silent_p.A465A|PPP1R12A_uc001szc.2_Silent_p.A465A	NM_002480	NP_002471	O14974	MYPT1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	465						contractile fiber	protein binding|signal transducer activity			ovary(2)|breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	7						GTGTAACACCTGCAGTATCTT	0.413													14	36	---	---	---	---	PASS	A	80203635	A	A	80203635	2	1	73	1	0	0	0	0	0	0	0	1	12354	1567	55	5		5	PPP1R12A	12	80203635	Silent	SNP	T	TCGA-34-5927-01A-11D-1817-08	17495016	80203635	53648260	207	27848										
C12orf26	84190	broad.mit.edu	37	chr12	82824688	82824688	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcagaacgtactcaggaaaaGtggggatttccaatgtgcca	12	8	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:82824688G>T	uc001szq.2	+	6	1317	c.1296G>T	c.(1294-1296)AAG>AAT	p.K432N		NM_032230	NP_115606	Q8N6Q8	CL026_HUMAN	hypothetical protein LOC84190	432											0						CTCAGGAAAAGTGGGGATTTC	0.353													68	95	---	---	---	---	PASS	T	82824688	T	T	82824688	3	4	73	1	0	0	0	0	1	0	0	0	1679	1020	36	3	1318	3	C12orf26	12	82824688	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	2621053	82824688	51027207	208	27849										
PLXNC1	10154	broad.mit.edu	37	chr12	94543741	94543741	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccacggcgctctgcctcttcAgaatgagtgagatccaggcg	12	13	3	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:94543741A>T	uc001tdc.2	+	1	1243	c.994A>T	c.(994-996)AGA>TGA	p.R332*		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	332	Extracellular (Potential).|Sema.				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						CTGCCTCTTCAGAATGAGTGA	0.701													7	14	---	---	---	---	PASS	T	94543741	T	T	94543741	4	4	73	1	0	0	0	0	0	1	0	0	12126	180	7	5	996	5	PLXNC1	12	94543741	Nonsense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	11719053	94543741	39308154	209	27850										
ANO4	121601	broad.mit.edu	37	chr12	101413845	101413845	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aacaaagaaacgttcttcaaCaatgccacaagaagtagaat	6	8	2	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:101413845C>G	uc010svm.1	+	9	1340	c.768C>G	c.(766-768)AAC>AAG	p.N256K	ANO4_uc010svl.1_RNA|ANO4_uc001thw.2_Missense_Mutation_p.N221K|ANO4_uc001thx.2_Missense_Mutation_p.N256K	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	256	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						CGTTCTTCAACAATGCCACAA	0.294										HNSCC(74;0.22)			23	55	---	---	---	---	PASS	G	101413845	G	G	101413845	3	3	73	1	0	0	0	0	1	0	0	0	699	477	17	4	689	4	ANO4	12	101413845	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	6870104	101413845	32438050	210	27851										
ANO4	121601	broad.mit.edu	37	chr12	101442178	101442178	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gctgttttcatggcagtctgGggtaagtgttctataaccat	11	7	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:101442178G>C	uc010svm.1	+	14	1883	c.1311G>C	c.(1309-1311)TGG>TGC	p.W437C	ANO4_uc001thw.2_Missense_Mutation_p.W402C|ANO4_uc001thx.2_Missense_Mutation_p.W437C|ANO4_uc001thy.2_Missense_Mutation_p.W4C	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	437	Helical; (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						TGGCAGTCTGGGGTAAGTGTT	0.373										HNSCC(74;0.22)			25	48	---	---	---	---	PASS	C	101442178	C	C	101442178	3	2	73	1	0	0	0	0	1	0	0	0	699	1246	43	4	1252	4	ANO4	12	101442178	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	28333	101442178	32409717	211	27852										
PAH	5053	broad.mit.edu	37	chr12	103246696	103246696	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atcccgagaggaaagcaggcCagccacaggtcggaggcgga	16	11	0	1	rs62508731		TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:103246696C>T	uc001tjq.1	-	8	1211	c.739G>A	c.(739-741)GGC>AGC	p.G247S		NM_000277	NP_000268	P00439	PH4H_HUMAN	phenylalanine hydroxylase	247			G -> V (in PKU; haplotype 4).		catecholamine biosynthetic process|L-phenylalanine catabolic process|neurotransmitter biosynthetic process	cytosol	phenylalanine 4-monooxygenase activity			ovary(4)	4					Epinephrine(DB00668)|L-Phenylalanine(DB00120)|Levodopa(DB01235)|Norepinephrine(DB00368)|Tetrahydrobiopterin(DB00360)	GAAAGCAGGCCAGCCACAGGT	0.532													20	55	---	---	---	---	PASS	T	103246696	T	T	103246696	3	4	73	1	0	0	0	0	1	0	0	0	11394	594	21	3	647	3	PAH	12	103246696	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	1804518	103246696	30605199	212	27853										
MED13L	23389	broad.mit.edu	37	chr12	116429247	116429247	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gtcctgaattgtagccaagtTtgcggttcataatcgcacta	9	9	1	1	rs147863200	byFrequency	TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:116429247T>G	uc001tvw.2	-	17	3567	c.3512A>C	c.(3511-3513)AAA>ACA	p.K1171T		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1171					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		GTAGCCAAGTTTGCGGTTCAT	0.463													26	62	---	---	---	---	PASS	G	116429247	G	G	116429247	3	3	73	1	0	0	0	0	1	0	0	0	9431	1841	64	5	3180	5	MED13L	12	116429247	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	13182551	116429247	17422648	213	27854										
TCTN2	79867	broad.mit.edu	37	chr12	124172644	124172644	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aagtatatgtggatactgacGcaaaagactttgcagacttt	9	6	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:124172644G>T	uc001ufp.2	+	7	939	c.811G>T	c.(811-813)GCA>TCA	p.A271S	TCTN2_uc009zya.2_Missense_Mutation_p.A270S	NM_024809	NP_079085	Q96GX1	TECT2_HUMAN	tectonic family member 2 isoform 1	271	Extracellular (Potential).				cilium assembly|smoothened signaling pathway	integral to membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000163)|Epithelial(86;0.000502)|all cancers(50;0.00451)		GGATACTGACGCAAAAGACTT	0.363													52	146	---	---	---	---	PASS	T	124172644	T	T	124172644	3	4	73	1	0	0	0	0	1	0	0	0	15720	1087	38	1	837	1	TCTN2	12	124172644	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	7743397	124172644	9679251	214	27855										
GPR133	283383	broad.mit.edu	37	chr12	131569199	131569199	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gccatcctcatgcaggtggtCccgctggaggtaagagccag	14	12	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:131569199C>G	uc001uit.3	+	15	2221	c.1662C>G	c.(1660-1662)GTC>GTG	p.V554V	GPR133_uc010tbm.1_Silent_p.V586V|GPR133_uc009zyo.2_Silent_p.V4V|GPR133_uc001uiv.1_Silent_p.V73V	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	554	GPS.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		TGCAGGTGGTCCCGCTGGAGG	0.652													13	22	---	---	---	---	PASS	G	131569199	G	G	131569199	2	3	73	1	0	0	0	0	0	0	0	1	6643	842	30	2		2	GPR133	12	131569199	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	7396555	131569199	2282696	215	27856										
GOLGA3	2802	broad.mit.edu	37	chr12	133354336	133354336	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tcacctcactcagctccaagGaggccgccttgaagtggcgg	12	14	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr12:133354336G>A	uc001ukz.1	-	19	4197	c.3638C>T	c.(3637-3639)TCC>TTC	p.S1213F	GOLGA3_uc001ula.1_Missense_Mutation_p.S1213F	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1213	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CAGCTCCAAGGAGGCCGCCTT	0.637													16	24	---	---	---	---	PASS	A	133354336	A	A	133354336	3	1	73	1	0	0	0	0	1	0	0	0	6554	1174	41	2	882	2	GOLGA3	12	133354336	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1785137	133354336	497559	216	27857										
ZMYM2	7750	broad.mit.edu	37	chr13	20567346	20567346	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agctaatcctttagtgtctaGatctaataagtttcagaact	6	7	3	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr13:20567346G>C	uc001umr.2	+	4	432	c.134G>C	c.(133-135)AGA>ACA	p.R45T	ZMYM2_uc001umq.2_Missense_Mutation_p.R45T|ZMYM2_uc001ums.2_Missense_Mutation_p.R45T|ZMYM2_uc001umt.2_Missense_Mutation_p.R45T|ZMYM2_uc009zzn.1_Missense_Mutation_p.R67T	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	45					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		TTAGTGTCTAGATCTAATAAG	0.428													21	116	---	---	---	---	PASS	C	20567346	C	C	20567346	3	2	73	1	0	0	0	0	1	0	0	0	17697	942	33	2	136	2	ZMYM2	13	20567346	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08		20567346	94602532	217	27858			1	32		7	7	683	G		1.59676e-16
ZMYM2	7750	broad.mit.edu	37	chr13	20567525	20567525	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aaattactccttcctcaaaaGagttggcatctcagaaggga	8	9	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr13:20567525G>C	uc001umr.2	+	4	611	c.313G>C	c.(313-315)GAG>CAG	p.E105Q	ZMYM2_uc001umq.2_Missense_Mutation_p.E105Q|ZMYM2_uc001ums.2_Missense_Mutation_p.E105Q|ZMYM2_uc001umt.2_Missense_Mutation_p.E105Q|ZMYM2_uc009zzn.1_Missense_Mutation_p.E127Q	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	105					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		TTCCTCAAAAGAGTTGGCATC	0.363													16	48	---	---	---	---	PASS	C	20567525	C	C	20567525	3	2	73	1	0	0	0	0	1	0	0	0	17697	943	33	2	315	2	ZMYM2	13	20567525	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	179	20567525	94602353	218	27859			1	32		7	7	683	G		1.59676e-16
ZMYM2	7750	broad.mit.edu	37	chr13	20567573	20567573	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gtgagacaattgtcattgatGatgaagaggacatggaaaca	12	4	1	5			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr13:20567573G>T	uc001umr.2	+	4	659	c.361G>T	c.(361-363)GAT>TAT	p.D121Y	ZMYM2_uc001umq.2_Missense_Mutation_p.D121Y|ZMYM2_uc001ums.2_Missense_Mutation_p.D121Y|ZMYM2_uc001umt.2_Missense_Mutation_p.D121Y|ZMYM2_uc009zzn.1_Missense_Mutation_p.D143Y	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	121					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		TGTCATTGATGATGAAGAGGA	0.368													25	64	---	---	---	---	PASS	T	20567573	T	T	20567573	3	4	73	1	0	0	0	0	1	0	0	0	17697	1290	45	2	363	2	ZMYM2	13	20567573	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	48	20567573	94602305	219	27860			1	32		7	7	683	G		1.59676e-16
ZMYM2	7750	broad.mit.edu	37	chr13	20567803	20567803	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gaaacaggtgtaagctctgtGaatgatggccaattagaaaa	11	5	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr13:20567803G>A	uc001umr.2	+	4	889	c.591G>A	c.(589-591)GTG>GTA	p.V197V	ZMYM2_uc001umq.2_Intron|ZMYM2_uc001ums.2_Silent_p.V197V|ZMYM2_uc001umt.2_Silent_p.V197V|ZMYM2_uc009zzn.1_Intron	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	197					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		TAAGCTCTGTGAATGATGGCC	0.393													115	306	---	---	---	---	PASS	A	20567803	A	A	20567803	2	1	73	1	0	0	0	0	0	0	0	1	17697	1277	45	2		2	ZMYM2	13	20567803	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	230	20567803	94602075	220	27861			1	32		7	7	683	G		1.59676e-16
ZMYM2	7750	broad.mit.edu	37	chr13	20567851	20567851	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gggcgagatatgaacttaatGattacacatgtaacatcact	8	7	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr13:20567851G>A	uc001umr.2	+	4	937	c.639G>A	c.(637-639)ATG>ATA	p.M213I	ZMYM2_uc001umq.2_Intron|ZMYM2_uc001ums.2_Missense_Mutation_p.M213I|ZMYM2_uc001umt.2_Missense_Mutation_p.M213I|ZMYM2_uc009zzn.1_Intron	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	213					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		TGAACTTAATGATTACACATG	0.373													88	246	---	---	---	---	PASS	A	20567851	A	A	20567851	3	1	73	1	0	0	0	0	1	0	0	0	17697	1290	45	2	641	2	ZMYM2	13	20567851	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	48	20567851	94602027	221	27862			1	32		7	7	683	G		1.59676e-16
ZMYM2	7750	broad.mit.edu	37	chr13	20568004	20568004	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccttttaatcctggtagaatGaatgtggcaggagacgtttt	11	6	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr13:20568004G>T	uc001umr.2	+	4	1090	c.792G>T	c.(790-792)ATG>ATT	p.M264I	ZMYM2_uc001umq.2_Missense_Mutation_p.M177I|ZMYM2_uc001ums.2_Missense_Mutation_p.M264I|ZMYM2_uc001umt.2_Missense_Mutation_p.M264I|ZMYM2_uc009zzn.1_Missense_Mutation_p.M199I	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	264					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		CTGGTAGAATGAATGTGGCAG	0.373													62	217	---	---	---	---	PASS	T	20568004	T	T	20568004	3	4	73	1	0	0	0	0	1	0	0	0	17697	1290	45	2	794	2	ZMYM2	13	20568004	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	153	20568004	94601874	222	27863			1	32		7	7	683	G		1.59676e-16
ZMYM2	7750	broad.mit.edu	37	chr13	20568028	20568028	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gtggcaggagacgtttttcaGaatggagaatctgcaactca	12	7	3	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr13:20568028G>C	uc001umr.2	+	4	1114	c.816G>C	c.(814-816)CAG>CAC	p.Q272H	ZMYM2_uc001umq.2_Missense_Mutation_p.Q185H|ZMYM2_uc001ums.2_Missense_Mutation_p.Q272H|ZMYM2_uc001umt.2_Missense_Mutation_p.Q272H|ZMYM2_uc009zzn.1_Missense_Mutation_p.Q207H	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	272					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		ACGTTTTTCAGAATGGAGAAT	0.368													70	240	---	---	---	---	PASS	C	20568028	C	C	20568028	3	2	73	1	0	0	0	0	1	0	0	0	17697	933	33	2	818	2	ZMYM2	13	20568028	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	24	20568028	94601850	223	27864			1	32		7	7	683	G		1.59676e-16
PCDH8	5100	broad.mit.edu	37	chr13	53421590	53421590	+	Missense_Mutation	SNP	C	A	A													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcggggcccgggtccgcggtCctgcgcccgcacgtccagct							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr13:53421590C>A	uc001vhi.2	-	1	1185	c.982G>T	c.(982-984)GAC>TAC	p.D328Y	PCDH8_uc001vhj.2_Missense_Mutation_p.D328Y	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	328	Extracellular (Potential).|Cadherin 3.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GGTCCGCGGTCCTGCGCCCGC	0.706													20	12	---	---	---	---	PASS	A	53421590	A	A	53421590	3	1	73	1	0	0	0	0	1	0	0	0	11517	855	30	2	2242	2	PCDH8	13	53421590	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	32853562	53421590	61748288	224	27865	583	2								
PCDH8	5100	broad.mit.edu	37	chr13	53421591	53421591	+	Missense_Mutation	SNP	C	A	A													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cggggcccgggtccgcggtcCtgcgcccgcacgtccagctc							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr13:53421591C>A	uc001vhi.2	-	1	1184	c.981G>T	c.(979-981)CAG>CAT	p.Q327H	PCDH8_uc001vhj.2_Missense_Mutation_p.Q327H	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	327	Extracellular (Potential).|Cadherin 3.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GTCCGCGGTCCTGCGCCCGCA	0.706													21	12	---	---	---	---	PASS	A	53421591	A	A	53421591	3	1	73	1	0	0	0	0	1	0	0	0	11517	680	24	3	2243	3	PCDH8	13	53421591	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	1	53421591	61748287	225	27866	583	2								
NALCN	259232	broad.mit.edu	37	chr13	102029054	102029054	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttaatagataaacttaccctGgctttgtgtcatttacaaca	5	8	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr13:102029054G>T	uc001vox.1	-	6	830	c.641C>A	c.(640-642)CCA>CAA	p.P214Q	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Missense_Mutation_p.P214Q|NALCN_uc001vpa.2_Missense_Mutation_p.P214Q	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	214	Extracellular (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AACTTACCCTGGCTTTGTGTC	0.284													56	126	---	---	---	---	PASS	T	102029054	T	T	102029054	3	4	73	1	0	0	0	0	1	0	0	0	10148	1348	47	3	4731	3	NALCN	13	102029054	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	48607463	102029054	13140824	226	27867										
ATP11A	23250	broad.mit.edu	37	chr13	113527896	113527896	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tttccttttagcttgcattgGacacacactactggacttgg	8	10	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr13:113527896G>A	uc001vsi.3	+	27	3155	c.3067G>A	c.(3067-3069)GAC>AAC	p.D1023N	ATP11A_uc001vsj.3_Missense_Mutation_p.D1023N|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	1023	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				GCTTGCATTGGACACACACTA	0.493											OREG0003854	type=REGULATORY REGION|Gene=ATP11A|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	41	63	---	---	---	---	PASS	A	113527896	A	A	113527896	3	1	73	1	0	0	0	0	1	0	0	0	1119	1174	41	2	3173	2	ATP11A	13	113527896	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	11498842	113527896	1641982	227	27868										
DCUN1D2	55208	broad.mit.edu	37	chr13	114112392	114112392	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	actactggccgtgcatattcTacaaaatcatctataagaac	5	10	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr13:114112392T>C	uc001vtr.1	-	7	771	c.732A>G	c.(730-732)GTA>GTG	p.V244V	DCUN1D2_uc001vts.1_RNA|DCUN1D2_uc010agw.1_Silent_p.V111V	NM_001014283	NP_001014305	Q6PH85	DCNL2_HUMAN	DCN1, defective in cullin neddylation 1, domain	244	DCUN1.										0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0395)|all_epithelial(44;0.011)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.029)|GBM - Glioblastoma multiforme(44;0.234)			GTGCATATTCTACAAAATCAT	0.433											OREG0022535	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	170	266	---	---	---	---	PASS	C	114112392	C	C	114112392	2	2	73	1	0	0	0	0	0	0	0	1	4314	1509	53	5		5	DCUN1D2	13	114112392	Silent	SNP	T	TCGA-34-5927-01A-11D-1817-08	584496	114112392	1057486	228	27869										
SALL2	6297	broad.mit.edu	37	chr14	21990847	21990847	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gaaaaacaggctcatgggatCgtggggtcatcttttcgggg	15	7	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr14:21990847C>T	uc001wbe.2	-	2	3297	c.3015G>A	c.(3013-3015)ACG>ACA	p.T1005T	SALL2_uc010tly.1_Silent_p.T1003T|SALL2_uc010tlz.1_Intron|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Intron|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	1005							DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		CTCATGGGATCGTGGGGTCAT	0.522													37	30	---	---	---	---	PASS	T	21990847	T	T	21990847	2	4	73	1	0	0	0	0	0	0	0	1	13811	871	31	2		2	SALL2	14	21990847	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08		21990847	85358693	229	27870										
C14orf37	145407	broad.mit.edu	37	chr14	58598408	58598408	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cccagaactggtgtgaactcCtcatttggccctgtgactgt	10	12	1	3	rs76381572		TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr14:58598408C>T	uc001xdc.2	-	4	1764	c.1653G>A	c.(1651-1653)GAG>GAA	p.E551E	C14orf37_uc010tro.1_Silent_p.E589E|C14orf37_uc001xdd.2_Silent_p.E551E|C14orf37_uc001xde.2_Silent_p.E551E	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	551	Extracellular (Potential).					integral to membrane	binding				0						GTGTGAACTCCTCATTTGGCC	0.493													57	70	---	---	---	---	PASS	T	58598408	T	T	58598408	2	4	73	1	0	0	0	0	0	0	0	1	1771	680	24	3		3	C14orf37	14	58598408	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	36607561	58598408	48751132	230	27871										
HERC2	8924	broad.mit.edu	37	chr15	28465667	28465667	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cggcagctctgccagcttgaGgtcgtattttccttctttcc	9	13	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr15:28465667G>A	uc001zbj.2	-	37	5882	c.5776C>T	c.(5776-5778)CTC>TTC	p.L1926F		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1926	MIB/HERC2.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GCCAGCTTGAGGTCGTATTTT	0.567													70	113	---	---	---	---	PASS	A	28465667	A	A	28465667	3	1	73	1	0	0	0	0	1	0	0	0	7058	1000	35	3	8956	3	HERC2	15	28465667	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08		28465667	74065725	231	27872										
RYR3	6263	broad.mit.edu	37	chr15	33955780	33955780	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tctgcgactgtgagctgcagCaccgagtggaggccattgtg	15	10	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr15:33955780C>A	uc001zhi.2	+	36	5531	c.5461C>A	c.(5461-5463)CAC>AAC	p.H1821N	RYR3_uc010bar.2_Missense_Mutation_p.H1821N	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1821	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGAGCTGCAGCACCGAGTGGA	0.473													13	30	---	---	---	---	PASS	A	33955780	A	A	33955780	3	1	73	1	0	0	0	0	1	0	0	0	13770	710	25	3	5603	3	RYR3	15	33955780	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	5490113	33955780	68575612	232	27873										
ATP8B4	79895	broad.mit.edu	37	chr15	50271902	50271902	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggagaacacagagctcttctCtccttcattccaaaagagga	8	11	3	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr15:50271902C>A	uc001zxu.2	-	12	1088	c.946G>T	c.(946-948)GAG>TAG	p.E316*	ATP8B4_uc010ber.2_Nonsense_Mutation_p.E189*|ATP8B4_uc010ufd.1_Nonsense_Mutation_p.E189*|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	316	Extracellular (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		GAGCTCTTCTCTCCTTCATTC	0.378													84	142	---	---	---	---	PASS	A	50271902	A	A	50271902	4	1	73	1	0	0	0	0	0	1	0	0	1197	922	32	2	2700	2	ATP8B4	15	50271902	Nonsense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	16316122	50271902	52259490	233	27874										
PIF1	80119	broad.mit.edu	37	chr15	65108795	65108795	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gactgaggctcctgccccgcCgcagggtggcatagaagtgc	15	13	0	2	rs78139154	byFrequency	TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr15:65108795C>A	uc002ant.2	-	12	1910	c.1844G>T	c.(1843-1845)CGG>CTG	p.R615L	PIF1_uc002anr.2_Missense_Mutation_p.R163L|PIF1_uc002ans.2_Missense_Mutation_p.R306L|PIF1_uc010uiq.1_Missense_Mutation_p.R615L	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	615	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0						CCTGCCCCGCCGCAGGGTGGC	0.672													38	73	---	---	---	---	PASS	A	65108795	A	A	65108795	3	1	73	1	0	0	0	0	1	0	0	0	11883	652	23	1	89	1	PIF1	15	65108795	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	14836893	65108795	37422597	234	27875										
CT62	196993	broad.mit.edu	37	chr15	71404546	71404546	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gaaatggctgaatgttctgtGggtgtggctgtaggcagagg	18	4	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr15:71404546G>T	uc002ata.2	-	3	589	c.76C>A	c.(76-78)CAC>AAC	p.H26N		NM_001102658	NP_001096128	P0C5K7	CT62_HUMAN	cancer/testis antigen 62	26											0						AATGTTCTGTGGGTGTGGCTG	0.473													8	25	---	---	---	---	PASS	T	71404546	T	T	71404546	3	4	73	1	0	0	0	0	1	0	0	0	3990	1348	47	3	342	3	CT62	15	71404546	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	6295751	71404546	31126846	235	27876										
CYP1A1	1543	broad.mit.edu	37	chr15	75012843	75012843	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	caagcacctaagagcgcagcTgcatttggaagtgctcacag	11	11	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr15:75012843T>A	uc002ayp.3	-	7	1648	c.1526A>T	c.(1525-1527)CAG>CTG	p.Q509L	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Missense_Mutation_p.Q245L|CYP1A1_uc010bjx.2_Missense_Mutation_p.Q245L|CYP1A1_uc002ayq.3_Missense_Mutation_p.Q509L|CYP1A1_uc010bjy.2_Missense_Mutation_p.Q480L	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	509					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	AGAGCGCAGCTGCATTTGGAA	0.572									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				48	75	---	---	---	---	PASS	A	75012843	A	A	75012843	3	1	73	1	0	0	0	0	1	0	0	0	4149	1580	55	5	16	5	CYP1A1	15	75012843	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	3608297	75012843	27518549	236	27877										
ARNT2	9915	broad.mit.edu	37	chr15	80872844	80872844	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aatctcccggcagctaaaccAgagtcaggtggcatggacag	12	11	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr15:80872844A>G	uc002bfr.2	+	16	1872	c.1706A>G	c.(1705-1707)CAG>CGG	p.Q569R	ARNT2_uc010unm.1_Missense_Mutation_p.Q558R|ARNT2_uc002bfs.2_Missense_Mutation_p.Q558R	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	569					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			CAGCTAAACCAGAGTCAGGTG	0.557													28	46	---	---	---	---	PASS	G	80872844	G	G	80872844	3	3	73	1	0	0	0	0	1	0	0	0	966	188	7	5	1768	5	ARNT2	15	80872844	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	5860001	80872844	21658548	237	27878										
CPEB1	64506	broad.mit.edu	37	chr15	83224681	83224681	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aaggggtctttgggagcttcGaggaggtcccaggacggcca	17	9	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr15:83224681G>T	uc002bit.2	-	5	1115	c.978C>A	c.(976-978)CTC>CTA	p.L326L	CPEB1_uc002biq.2_Silent_p.L191L|CPEB1_uc002bir.2_Silent_p.L191L|CPEB1_uc002bis.2_Silent_p.L191L|CPEB1_uc010uod.1_Silent_p.L40L|CPEB1_uc010uoe.1_Silent_p.L269L|CPEB1_uc002biu.2_Silent_p.L293L|CPEB1_uc010uof.1_Silent_p.L191L|CPEB1_uc002biv.2_Silent_p.L266L|CPEB1_uc002bip.2_Silent_p.L40L	NM_001079533	NP_001073001	Q9BZB8	CPEB1_HUMAN	cytoplasmic polyadenylation element binding	266					mRNA processing|regulation of translation	cell junction|cytoplasmic mRNA processing body|dendrite|postsynaptic density|postsynaptic membrane	nucleotide binding|RNA binding			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(143;0.229)			TGGGAGCTTCGAGGAGGTCCC	0.592													30	47	---	---	---	---	PASS	T	83224681	T	T	83224681	2	4	73	1	0	0	0	0	0	0	0	1	3800	1045	37	2		2	CPEB1	15	83224681	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	2351837	83224681	19306711	238	27879										
ACAN	176	broad.mit.edu	37	chr15	89398163	89398172	+	Frame_Shift_Del	DEL	GCCTCAGAGG	-	-													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctgcaactgaagtgccctctGcctcagaggaaccatccccc							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr15:89398163_89398172delGCCTCAGAGG	uc010upo.1	+	12	2721_2730	c.2347_2356delGCCTCAGAGG	c.(2347-2358)GCCTCAGAGGAAfs	p.A783fs	ACAN_uc010upp.1_Frame_Shift_Del_p.A783fs|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	783_786					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			AGTGCCCTCTGCCTCAGAGGAACCATCCCC	0.576													8	5	---	---	---	---		-	89398172	-	-	89398163	7	5	73	1	0	1	0	1	0	0	0	0	117	1319	46	0	2389	0	ACAN	15	89398163	Frame_Shift_Del	DEL	GCCTCAGAGG	TCGA-34-5927-01A-11D-1817-08	6173482	89398163	13133229	239	27880										
ZNF774	342132	broad.mit.edu	37	chr15	90897909	90897909	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gataatgtggctggggacttCagggaagagtgggttacctg	17	5	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr15:90897909C>A	uc002bpk.3	+	2	203	c.17C>A	c.(16-18)TCA>TAA	p.S6*		NM_001004309	NP_001004309	Q6NX45	ZN774_HUMAN	zinc finger protein 774	6	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(11;0.00551)|Lung NSC(78;0.0158)|all_lung(78;0.0331)		BRCA - Breast invasive adenocarcinoma(143;0.0224)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			CTGGGGACTTCAGGGAAGAGT	0.483													10	23	---	---	---	---	PASS	A	90897909	A	A	90897909	4	1	73	1	0	0	0	0	0	1	0	0	18144	838	29	2	19	2	ZNF774	15	90897909	Nonsense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	1499746	90897909	11633483	240	27881										
RUNDC2A	84127	broad.mit.edu	37	chr16	12142233	12142233	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccctttttttgggcaggtctGaactccatactctttgcgat	8	11	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr16:12142233G>A	uc002dbw.1	+	7	566	c.504G>A	c.(502-504)CTG>CTA	p.L168L		NM_032167	NP_115543	Q9HA26	RUN2A_HUMAN	RUN domain containing 2A	168	RUN.									ovary(1)	1						GGGCAGGTCTGAACTCCATAC	0.473			T	CIITA	PMBL|Hodgkin Lymphona|								69	101	---	---	---	---	PASS	A	12142233	A	A	12142233	2	1	73	1	0	0	0	0	0	0	0	1	13743	1277	45	2		2	RUNDC2A	16	12142233	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08		12142233	78212520	241	27882										
ERCC4	2072	broad.mit.edu	37	chr16	14014057	14014057	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gccggctcgacggattgccaTggcgccgctgctggagtacg	16	13	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr16:14014057T>C	uc002dce.2	+	1	44	c.35T>C	c.(34-36)ATG>ACG	p.M12T	ERCC4_uc010bva.2_Missense_Mutation_p.M12T	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	12					double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						CGGATTGCCATGGCGCCGCTG	0.677			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				20	47	---	---	---	---	PASS	C	14014057	C	C	14014057	3	2	73	1	0	0	0	0	1	0	0	0	5215	1464	51	5	37	5	ERCC4	16	14014057	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	1871824	14014057	76340696	242	27883										
ACSM5	54988	broad.mit.edu	37	chr16	20442601	20442601	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gaggggaatgttgccgtccgTatcagacccactcggccctt	12	13	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr16:20442601T>A	uc002dhe.2	+	10	1413	c.1266T>A	c.(1264-1266)CGT>CGA	p.R422R		NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	422					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2						TTGCCGTCCGTATCAGACCCA	0.453													67	135	---	---	---	---	PASS	A	20442601	A	A	20442601	2	1	73	1	0	0	0	0	0	0	0	1	187	1625	57	5		5	ACSM5	16	20442601	Silent	SNP	T	TCGA-34-5927-01A-11D-1817-08	6428544	20442601	69912152	243	27884										
ACSM2B	348158	broad.mit.edu	37	chr16	20554474	20554474	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cacccgctggagttaatgatAtcatctgcccgtcccataaa	7	13	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr16:20554474A>G	uc002dhj.3	-	12	1602	c.1392T>C	c.(1390-1392)GAT>GAC	p.D464D	ACSM2B_uc002dhk.3_Silent_p.D464D|ACSM2B_uc010bwf.1_Silent_p.D464D	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	464					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						AGTTAATGATATCATCTGCCC	0.502													150	480	---	---	---	---	PASS	G	20554474	G	G	20554474	2	3	73	1	0	0	0	0	0	0	0	1	184	446	16	5		5	ACSM2B	16	20554474	Silent	SNP	A	TCGA-34-5927-01A-11D-1817-08	111873	20554474	69800279	244	27885										
ZKSCAN2	342357	broad.mit.edu	37	chr16	25264286	25264286	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cctgggacccagcaggaagcCgtgtggttgtcacttcctga	13	12	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr16:25264286C>T	uc002dod.3	-	3	1066	c.659G>A	c.(658-660)CGG>CAG	p.R220Q	ZKSCAN2_uc010vcl.1_Silent_p.T12T|ZKSCAN2_uc002doe.2_Missense_Mutation_p.R220Q	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	220					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		AGCAGGAAGCCGTGTGGTTGT	0.328													10	879	---	---	---	---	PASS	T	25264286	T	T	25264286	3	4	73	1	0	0	0	0	1	0	0	0	17684	652	23	1	2264	1	ZKSCAN2	16	25264286	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	4709812	25264286	65090467	245	27886										
HS3ST4	9951	broad.mit.edu	37	chr16	26147451	26147451	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gagcaaaggtcggactcatcCtcgcattgacccagatgtca	10	12	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr16:26147451C>T	uc002dof.2	+	2	1645	c.1253C>T	c.(1252-1254)CCT>CTT	p.P418L		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	418	Lumenal (Potential).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		CGGACTCATCCTCGCATTGAC	0.463													11	154	---	---	---	---	PASS	T	26147451	T	T	26147451	3	4	73	1	0	0	0	0	1	0	0	0	7367	681	24	3	1259	3	HS3ST4	16	26147451	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	883165	26147451	64207302	246	27887										
SRCAP	10847	broad.mit.edu	37	chr16	30724634	30724634	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	actggcgctatctcattctgGatgaggcgcagaacatcaag	11	10	3	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr16:30724634G>C	uc002dze.1	+	15	2621	c.2236G>C	c.(2236-2238)GAT>CAT	p.D746H	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.D603H|SRCAP_uc010bzz.1_Missense_Mutation_p.D316H	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	746	Helicase ATP-binding.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			TCTCATTCTGGATGAGGCGCA	0.527													40	208	---	---	---	---	PASS	C	30724634	C	C	30724634	3	2	73	1	0	0	0	0	1	0	0	0	15134	1174	41	2	2286	2	SRCAP	16	30724634	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	4577183	30724634	59630119	247	27888										
NLRC5	84166	broad.mit.edu	37	chr16	57059850	57059850	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cacccttttctcccatctctGcaatgggaccctcctgcctg	6	18	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr16:57059850G>A	uc002ekk.1	+	6	1220	c.995G>A	c.(994-996)TGC>TAC	p.C332Y	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.C137Y|NLRC5_uc002ekl.2_Missense_Mutation_p.C137Y|NLRC5_uc002ekm.2_Missense_Mutation_p.C137Y|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	332	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)				TCCCATCTCTGCAATGGGACC	0.547													4	65	---	---	---	---	PASS	A	57059850	A	A	57059850	3	1	73	1	0	0	0	0	1	0	0	0	10470	1319	46	3	1009	3	NLRC5	16	57059850	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	26335216	57059850	33294903	248	27889										
SF3B3	23450	broad.mit.edu	37	chr16	70604043	70604043	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggcatccttgtgccattcacGtcccatgaggtgagagcgcc	12	13	1	2	rs117807189	by1000genomes	TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr16:70604043G>A	uc002ezf.2	+	24	3610	c.3399G>A	c.(3397-3399)ACG>ACA	p.T1133T		NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3	1133					protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				TGCCATTCACGTCCCATGAGG	0.502													35	27	---	---	---	---	PASS	A	70604043	A	A	70604043	2	1	73	1	0	0	0	0	0	0	0	1	14152	1132	40	1		1	SF3B3	16	70604043	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	13544193	70604043	19750710	249	27890										
SCARF1	8578	broad.mit.edu	37	chr17	1538132	1538132	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttcctcttcagcctgcttctGgggatcctgttctggggagc	12	12	4	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr17:1538132G>C	uc002fsz.1	-	11	2463	c.2413C>G	c.(2413-2415)CAG>GAG	p.Q805E	SCARF1_uc002fsy.1_3'UTR|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Missense_Mutation_p.Q719E	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	805	Cytoplasmic (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GCCTGCTTCTGGGGATCCTGT	0.592													5	186	---	---	---	---	PASS	C	1538132	C	C	1538132	3	2	73	1	0	0	0	0	1	0	0	0	13883	1357	47	4	83	4	SCARF1	17	1538132	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08		1538132	79657078	250	27891										
PRPF8	10594	broad.mit.edu	37	chr17	1585180	1585180	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	caggggcgtcctcctcagggTccagctctagctgaatggcc	13	14	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr17:1585180T>A	uc002fte.2	-	5	701	c.587A>T	c.(586-588)GAC>GTC	p.D196V		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	196						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		CTCCTCAGGGTCCAGCTCTAG	0.547													5	138	---	---	---	---	PASS	A	1585180	A	A	1585180	3	1	73	1	0	0	0	0	1	0	0	0	12575	1667	58	5	6576	5	PRPF8	17	1585180	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	47048	1585180	79610030	251	27892										
TP53	7157	broad.mit.edu	37	chr17	7578382	7578382	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gctgctcaccatcgctatctGagcagcgctcatggtggggg	14	12	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr17:7578382G>C	uc002gim.2	-	5	742	c.548C>G	c.(547-549)TCA>TGA	p.S183*	TP53_uc002gig.1_Nonsense_Mutation_p.S183*|TP53_uc002gih.2_Nonsense_Mutation_p.S183*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.S51*|TP53_uc010cng.1_Nonsense_Mutation_p.S51*|TP53_uc002gii.1_Nonsense_Mutation_p.S51*|TP53_uc010cnh.1_Nonsense_Mutation_p.S183*|TP53_uc010cni.1_Nonsense_Mutation_p.S183*|TP53_uc002gij.2_Nonsense_Mutation_p.S183*|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Nonsense_Mutation_p.S90*|TP53_uc002gio.2_Nonsense_Mutation_p.S51*|TP53_uc010vug.1_Nonsense_Mutation_p.S144*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	183	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		S -> P (in sporadic cancers; somatic mutation).|S -> L (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.S183*(21)|p.0?(7)|p.R174fs*24(3)|p.S183P(3)|p.?(2)|p.S183L(2)|p.V173fs*59(2)|p.K164_P219del(1)|p.E180_S183del(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R81fs*24(1)|p.R42fs*24(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)		ATCGCTATCTGAGCAGCGCTC	0.647		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)			51	22	---	---	---	---	PASS	C	7578382	C	C	7578382	4	2	73	1	0	0	0	0	0	1	0	0	16378	1294	45	2	750	2	TP53	17	7578382	Nonsense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	5993202	7578382	73616828	252	27893										
FBXW10	10517	broad.mit.edu	37	chr17	18668086	18668086	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgaaaagtggggtttgcacaCgaatcttcggtggtcaccag	13	8	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr17:18668086C>T	uc002guk.2	+	8	1697	c.1465C>T	c.(1465-1467)CGA>TGA	p.R489*	FBXW10_uc002guj.2_Nonsense_Mutation_p.R489*|FBXW10_uc002gul.2_Nonsense_Mutation_p.R518*|FBXW10_uc010cqh.1_Nonsense_Mutation_p.R489*	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	489	WD 3.									ovary(1)	1						GGTTTGCACACGAATCTTCGG	0.493													6	103	---	---	---	---	PASS	T	18668086	T	T	18668086	4	4	73	1	0	0	0	0	0	1	0	0	5763	528	19	1	1495	1	FBXW10	17	18668086	Nonsense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	11089704	18668086	62527124	253	27894										
SLFN11	91607	broad.mit.edu	37	chr17	33689942	33689942	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	acattcacaattttgagtgtGaaggttatcgggcgttgggg	14	5	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr17:33689942G>A	uc010ctp.2	-	4	1327	c.885C>T	c.(883-885)TTC>TTT	p.F295F	SLFN11_uc010ctq.2_Silent_p.F295F|SLFN11_uc002hjh.3_Silent_p.F295F|SLFN11_uc002hjg.3_Silent_p.F295F|SLFN11_uc010ctr.2_Silent_p.F295F	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	295						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TTTTGAGTGTGAAGGTTATCG	0.418													118	41	---	---	---	---	PASS	A	33689942	A	A	33689942	2	1	73	1	0	0	0	0	0	0	0	1	14733	1281	45	2		2	SLFN11	17	33689942	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	15021856	33689942	47505268	254	27895										
KRTAP9-8	83901	broad.mit.edu	37	chr17	39394625	39394625	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcagaagaacctgctaccacCccacgactgtctgcctgcct	8	17	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr17:39394625C>A	uc002hwh.3	+	1	356	c.322C>A	c.(322-324)CCC>ACC	p.P108T	KRTAP9-9_uc010wfq.1_Intron	NM_031963	NP_114169	Q9BYQ0	KRA98_HUMAN	keratin associated protein 9.8	108	15 X 5 AA repeats of C-C-[RQVSGE]- [SPSNQ]-[TASPI].					keratin filament				ovary(1)	1		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			CTGCTACCACCCCACGACTGT	0.627													82	40	---	---	---	---	PASS	A	39394625	A	A	39394625	3	1	73	1	0	0	0	0	1	0	0	0	8576	623	22	3	324	3	KRTAP9-8	17	39394625	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	5704683	39394625	41800585	255	27896										
C17orf57	124989	broad.mit.edu	37	chr17	45452306	45452306	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccaaaaacaggtttcgtctaCggaaaaaactgcaattagta	7	8	1	0	rs144496511	by1000genomes	TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr17:45452306C>T	uc002iln.2	+	12	1757	c.1346C>T	c.(1345-1347)ACG>ATG	p.T449M	C17orf57_uc002ilm.2_Missense_Mutation_p.T353M|C17orf57_uc002ill.1_Missense_Mutation_p.T205M|C17orf57_uc010daz.1_Missense_Mutation_p.T401M	NM_152347	NP_689560	Q8IY85	CQ057_HUMAN	hypothetical protein LOC124989	449							calcium ion binding			breast(1)|central_nervous_system(1)|skin(1)	3						GTTTCGTCTACGGAAAAAACT	0.358													13	25	---	---	---	---	PASS	T	45452306	T	T	45452306	3	4	73	1	0	0	0	0	1	0	0	0	1865	536	19	1	1380	1	C17orf57	17	45452306	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	6057681	45452306	35742904	256	27897										
CCDC46	201134	broad.mit.edu	37	chr17	63746836	63746836	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctcaatctgcttcagcttgcTgttggcctgaaaaacacatg	8	11	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr17:63746836T>G	uc002jfl.2	-	22	2620	c.2401A>C	c.(2401-2403)AGC>CGC	p.S801R	CCDC46_uc010deo.2_Intron|CCDC46_uc002jfm.2_Missense_Mutation_p.S801R|CCDC46_uc010dep.2_Missense_Mutation_p.S759R|CCDC46_uc002jfk.2_Missense_Mutation_p.S57R	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	801	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			TTCAGCTTGCTGTTGGCCTGA	0.443													3	88	---	---	---	---	PASS	G	63746836	G	G	63746836	3	3	73	1	0	0	0	0	1	0	0	0	2817	1580	55	5	490	5	CCDC46	17	63746836	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	18294530	63746836	17448374	257	27898										
KIF19	124602	broad.mit.edu	37	chr17	72344020	72344020	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctgacctacgccggccgggcCaagaacattaagactagggt	12	12	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr17:72344020C>A	uc002jkm.3	+	9	1167	c.1029C>A	c.(1027-1029)GCC>GCA	p.A343A	KIF19_uc002jkj.2_Silent_p.A343A|KIF19_uc002jkk.2_Silent_p.A301A|KIF19_uc002jkl.2_Silent_p.A301A	NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	343					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						CCGGCCGGGCCAAGAACATTA	0.627													6	4	---	---	---	---	PASS	A	72344020	A	A	72344020	2	1	73	1	0	0	0	0	0	0	0	1	8282	581	21	3		3	KIF19	17	72344020	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	8597184	72344020	8851190	258	27899										
LLGL2	3993	broad.mit.edu	37	chr17	73566264	73566264	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggccctgcactctgagtggcGgctcgtggccttcggcacca	14	15	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr17:73566264G>A	uc002joh.2	+	15	1956	c.1802G>A	c.(1801-1803)CGG>CAG	p.R601Q	LLGL2_uc002joi.2_Missense_Mutation_p.R601Q|LLGL2_uc010dgg.1_Missense_Mutation_p.R601Q|LLGL2_uc002joj.2_Missense_Mutation_p.R590Q|LLGL2_uc010wsd.1_Missense_Mutation_p.R228Q	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	601	WD 10.				cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			TCTGAGTGGCGGCTCGTGGCC	0.662													5	6	---	---	---	---	PASS	A	73566264	A	A	73566264	3	1	73	1	0	0	0	0	1	0	0	0	8834	1116	39	1	1891	1	LLGL2	17	73566264	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1222244	73566264	7628946	259	27900										
UBE2O	63893	broad.mit.edu	37	chr17	74387085	74387085	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gggcagcccggaactgcgtcAggacaccccggatgctcttg	14	14	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr17:74387085A>T	uc002jrm.3	-	18	3883	c.3818T>A	c.(3817-3819)CTG>CAG	p.L1273Q	UBE2O_uc002jrl.3_Missense_Mutation_p.L877Q	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	1273							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						GAACTGCGTCAGGACACCCCG	0.592													4	188	---	---	---	---	PASS	T	74387085	T	T	74387085	3	4	73	1	0	0	0	0	1	0	0	0	16865	188	7	5	64	5	UBE2O	17	74387085	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	820821	74387085	6808125	260	27901										
ACTG1	71	broad.mit.edu	37	chr17	79479272	79479272	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	actcacctggtgtctggggcGcccgacgatggaaggaaaca	14	11	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr17:79479272G>A	uc002kaj.1	-	1	134	c.109C>T	c.(109-111)CGC>TGC	p.R37C	ACTG1_uc002kah.1_5'Flank|ACTG1_uc002kai.1_5'Flank|ACTG1_uc002kak.1_Missense_Mutation_p.R37C|ACTG1_uc010wun.1_Missense_Mutation_p.R37C|ACTG1_uc002kal.1_Missense_Mutation_p.R37C|ACTG1_uc002kag.2_RNA	NM_001614	NP_001605	P63261	ACTG_HUMAN	actin, gamma 1 propeptide	37					adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol	ATP binding|identical protein binding			ovary(1)|central_nervous_system(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0547)			TGTCTGGGGCGCCCGACGATG	0.672													4	104	---	---	---	---	PASS	A	79479272	A	A	79479272	3	1	73	1	0	0	0	0	1	0	0	0	196	1087	38	1	1038	1	ACTG1	17	79479272	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	5092187	79479272	1715938	261	27902										
MC5R	4161	broad.mit.edu	37	chr18	13826449	13826449	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgcccggggccagctctgcgCggcagaggaccagcatgcag	16	14	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr18:13826449C>T	uc010xaf.1	+	1	685	c.685C>T	c.(685-687)CGG>TGG	p.R229W		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	229	Cytoplasmic (Potential).			ALPGASSARQRTSM -> LCPGPALRGRGPAW (in Ref. 1).	G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6						CAGCTCTGCGCGGCAGAGGAC	0.617													103	151	---	---	---	---	PASS	T	13826449	T	T	13826449	3	4	73	1	0	0	0	0	1	0	0	0	9367	759	27	1	687	1	MC5R	18	13826449	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08		13826449	64250799	262	27903										
ASXL3	80816	broad.mit.edu	37	chr18	31325999	31325999	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aacctccagttaccatggaaAccactaagagacttagttgg	8	10	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr18:31325999A>G	uc010dmg.1	+	12	6242	c.6187A>G	c.(6187-6189)ACC>GCC	p.T2063A	ASXL3_uc002kxq.2_Missense_Mutation_p.T1770A	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	2063					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TACCATGGAAACCACTAAGAG	0.333													41	46	---	---	---	---	PASS	G	31325999	G	G	31325999	3	3	73	1	0	0	0	0	1	0	0	0	1068	43	2	5	6233	5	ASXL3	18	31325999	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	17499550	31325999	46751249	263	27904										
KIAA0427	9811	broad.mit.edu	37	chr18	46284319	46284319	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gagacctccggggggcaacaAgccccaacagcatggtgacc	13	14	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr18:46284319A>T	uc002ldc.2	+	8	899	c.614A>T	c.(613-615)AAG>ATG	p.K205M	KIAA0427_uc002ldd.2_Missense_Mutation_p.K205M|KIAA0427_uc002lde.3_5'Flank	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	205	Interaction with NCBP1/CBP80.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						GGGGGCAACAAGCCCCAACAG	0.642													68	92	---	---	---	---	PASS	T	46284319	T	T	46284319	3	4	73	1	0	0	0	0	1	0	0	0	8176	72	3	5	640	5	KIAA0427	18	46284319	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	14958320	46284319	31792929	264	27905										
PHLPP1	23239	broad.mit.edu	37	chr18	60642823	60642823	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgagctgtgaagaagagctgAagaggattaaacagcacaag	13	5	0	6			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr18:60642823A>G	uc002lis.2	+	17	2591	c.2413A>G	c.(2413-2415)AAG>GAG	p.K805E		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	1317	PP2C-like.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						AGAAGAGCTGAAGAGGATTAA	0.448													62	114	---	---	---	---	PASS	G	60642823	G	G	60642823	3	3	73	1	0	0	0	0	1	0	0	0	11854	247	9	5	4011	5	PHLPP1	18	60642823	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	14358504	60642823	17434425	265	27906										
ZNF407	55628	broad.mit.edu	37	chr18	72343774	72343774	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atgcacattatcttggcaaaAcacatctccgtcgtcagaat	6	11	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr18:72343774A>G	uc002llw.2	+	1	856	c.799A>G	c.(799-801)ACA>GCA	p.T267A	ZNF407_uc010xfc.1_Missense_Mutation_p.T267A|ZNF407_uc010dqu.1_Missense_Mutation_p.T267A|ZNF407_uc002llu.2_Missense_Mutation_p.T266A	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	267	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		TCTTGGCAAAACACATCTCCG	0.393													46	84	---	---	---	---	PASS	G	72343774	G	G	72343774	3	3	73	1	0	0	0	0	1	0	0	0	17884	43	2	5	801	5	ZNF407	18	72343774	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	11700951	72343774	5733474	266	27907										
ZNF236	7776	broad.mit.edu	37	chr18	74625758	74625758	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gccacctgaagcagcatgtgCggtcgcacaccggggaaaag	14	12	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr18:74625758C>T	uc002lmi.2	+	18	3157	c.2959C>T	c.(2959-2961)CGG>TGG	p.R987W	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	987	C2H2-type 18.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GCAGCATGTGCGGTCGCACAC	0.507													27	47	---	---	---	---	PASS	T	74625758	T	T	74625758	3	4	73	1	0	0	0	0	1	0	0	0	17786	759	27	1	3029	1	ZNF236	18	74625758	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	2281984	74625758	3451490	267	27908										
SALL3	27164	broad.mit.edu	37	chr18	76753910	76753910	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccccgggctgcccgccgtctCcgagcagttcaaggcccagt	12	18	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr18:76753910C>A	uc002lmt.2	+	2	1919	c.1919C>A	c.(1918-1920)TCC>TAC	p.S640Y	SALL3_uc010dra.2_Missense_Mutation_p.S247Y	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	640					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CCCGCCGTCTCCGAGCAGTTC	0.682													8	5	---	---	---	---	PASS	A	76753910	A	A	76753910	3	1	73	1	0	0	0	0	1	0	0	0	13812	855	30	2	1925	2	SALL3	18	76753910	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	2128152	76753910	1323338	268	27909										
NDUFB7	4713	broad.mit.edu	37	chr19	14676967	14676967	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	acagggccaccttggggtccActtccccgggtccctggcct	12	17	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:14676967A>G	uc002mzg.2	-	3	466	c.392T>C	c.(391-393)GTG>GCG	p.V131A		NM_004146	NP_004137	P17568	NDUB7_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	131					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			ovary(1)	1					NADH(DB00157)	CTTGGGGTCCACTTCCCCGGG	0.632													11	21	---	---	---	---	PASS	G	14676967	G	G	14676967	3	3	73	1	0	0	0	0	1	0	0	0	10286	159	6	5	25	5	NDUFB7	19	14676967	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08		14676967	44452016	269	27910										
EMR2	30817	broad.mit.edu	37	chr19	14884813	14884813	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gctgaaccctggattgcagcGacaggcggtggcattgacac	14	11	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:14884813G>T	uc002mzp.1	-	4	592	c.136C>A	c.(136-138)CGC>AGC	p.R46S	EMR2_uc010xnw.1_Missense_Mutation_p.R46S|EMR2_uc002mzo.1_Missense_Mutation_p.R46S|EMR2_uc002mzq.1_Missense_Mutation_p.R46S|EMR2_uc002mzr.1_Missense_Mutation_p.R46S|EMR2_uc002mzs.1_Missense_Mutation_p.R46S|EMR2_uc002mzt.1_Missense_Mutation_p.R46S|EMR2_uc002mzu.1_Missense_Mutation_p.R46S|EMR2_uc010xnx.1_5'Flank|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	46	Extracellular (Potential).|EGF-like 1.				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						GGATTGCAGCGACAGGCGGTG	0.597													79	120	---	---	---	---	PASS	T	14884813	T	T	14884813	3	4	73	1	0	0	0	0	1	0	0	0	5105	1058	37	2	2407	2	EMR2	19	14884813	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	207846	14884813	44244170	270	27911										
UNC13A	23025	broad.mit.edu	37	chr19	17759744	17759744	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctcctcgttgttcaacgtgcTggaggccaaggccgaggtga	14	11	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:17759744T>C	uc002nhd.2	-	15	1837	c.1837A>G	c.(1837-1839)AGC>GGC	p.S613G		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	525					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						TTCAACGTGCTGGAGGCCAAG	0.607													4	11	---	---	---	---	PASS	C	17759744	C	C	17759744	3	2	73	1	0	0	0	0	1	0	0	0	16981	1580	55	5	3654	5	UNC13A	19	17759744	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	2874931	17759744	41369239	271	27912										
IL12RB1	3594	broad.mit.edu	37	chr19	18188455	18188455	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttgatgtctcccagaggaggCtcatatttaactggaagcag	11	8	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:18188455C>T	uc002nhw.1	-	5	484	c.420G>A	c.(418-420)GAG>GAA	p.E140E	IL12RB1_uc010xqb.1_Silent_p.E140E|IL12RB1_uc002nhx.1_Silent_p.E180E|IL12RB1_uc002nhy.2_Silent_p.E140E	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1	140	Extracellular (Potential).				cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1						CCAGAGGAGGCTCATATTTAA	0.572													11	31	---	---	---	---	PASS	T	18188455	T	T	18188455	2	4	73	1	0	0	0	0	0	0	0	1	7626	796	28	3		3	IL12RB1	19	18188455	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	428711	18188455	40940528	272	27913										
KLHL26	55295	broad.mit.edu	37	chr19	18779702	18779702	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cgcccatgagcgaaccccgcGtgctacacgccatggtgggt	13	15	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:18779702G>A	uc002njz.1	+	3	1522	c.1495G>A	c.(1495-1497)GTG>ATG	p.V499M		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	499	Kelch 4.									ovary(1)	1						CGAACCCCGCGTGCTACACGC	0.667													20	38	---	---	---	---	PASS	A	18779702	A	A	18779702	3	1	73	1	0	0	0	0	1	0	0	0	8381	1145	40	1	1505	1	KLHL26	19	18779702	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	591247	18779702	40349281	273	27914										
ZNF486	90649	broad.mit.edu	37	chr19	20307846	20307846	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tcttaccaaaaagtgatactGagaaaatttgaaaaatgtgg	8	4	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:20307846G>A	uc002nou.2	+	4	384	c.327G>A	c.(325-327)CTG>CTA	p.L109L		NM_052852	NP_443084	Q96H40	ZN486_HUMAN	zinc finger protein 486	109					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAGTGATACTGAGAAAATTTG	0.343													38	67	---	---	---	---	PASS	A	20307846	A	A	20307846	2	1	73	1	0	0	0	0	0	0	0	1	17936	1277	45	2		2	ZNF486	19	20307846	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	1528144	20307846	38821137	274	27915										
ZNF208	7757	broad.mit.edu	37	chr19	22155843	22155843	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gccacattctttacatttgtAgggcttctctccagcatgaa	7	11	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:22155843A>T	uc002nqp.2	-	5	1842	c.1693T>A	c.(1693-1695)TAC>AAC	p.Y565N	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTACATTTGTAGGGCTTCTCT	0.383													25	60	---	---	---	---	PASS	T	22155843	T	T	22155843	3	4	73	1	0	0	0	0	1	0	0	0	17763	420	15	5	1853	5	ZNF208	19	22155843	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	1847997	22155843	36973140	275	27916										
ZNF681	148213	broad.mit.edu	37	chr19	23938269	23938269	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gttctctaacatcacattccTatataaattctgctgtatag	4	9	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:23938269T>A	uc002nrk.3	-	2	230	c.88A>T	c.(88-90)AGG>TGG	p.R30W	ZNF681_uc002nrl.3_Intron|ZNF681_uc002nrj.3_Intron|ZNF681_uc002nrm.1_5'Flank	NM_138286	NP_612143	Q96N22	ZN681_HUMAN	zinc finger protein 681	30	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				ATCACATTCCTATATAAATTC	0.353													70	110	---	---	---	---	PASS	A	23938269	A	A	23938269	3	1	73	1	0	0	0	0	1	0	0	0	18085	1521	53	5	1861	5	ZNF681	19	23938269	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	1782426	23938269	35190714	276	27917										
ZNF254	9534	broad.mit.edu	37	chr19	24310244	24310244	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctcaaccctaactagacataAgaggatgcacactggagaga	9	10	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:24310244A>T	uc002nru.2	+	4	1576	c.1442A>T	c.(1441-1443)AAG>ATG	p.K481M	ZNF254_uc010xrk.1_Missense_Mutation_p.K396M	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	481	C2H2-type 10.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				ACTAGACATAAGAGGATGCAC	0.383													28	40	---	---	---	---	PASS	T	24310244	T	T	24310244	3	4	73	1	0	0	0	0	1	0	0	0	17795	72	3	5	1456	5	ZNF254	19	24310244	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	371975	24310244	34818739	277	27918										
RGS9BP	388531	broad.mit.edu	37	chr19	33167314	33167314	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agacgcgccagaaggcgcagGagctggcggtgtccacctgc	16	13	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:33167314G>A	uc002ntp.1	+	1	1002	c.145G>A	c.(145-147)GAG>AAG	p.E49K	ANKRD27_uc002ntn.1_5'Flank|ANKRD27_uc002nto.1_5'Flank	NM_207391	NP_997274	Q6ZS82	R9BP_HUMAN	RGS9 anchor protein	49	Potential.|Cytoplasmic (Potential).				negative regulation of signal transduction	integral to membrane				central_nervous_system(1)	1	Esophageal squamous(110;0.137)					GAAGGCGCAGGAGCTGGCGGT	0.711													3	12	---	---	---	---	PASS	A	33167314	A	A	33167314	3	1	73	1	0	0	0	0	1	0	0	0	13314	1175	41	2	147	2	RGS9BP	19	33167314	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	8857070	33167314	25961669	278	27919										
CCDC123	84902	broad.mit.edu	37	chr19	33417844	33417844	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aataactttcacttaccaacCagggtggtatagggcccttg	9	10	1	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:33417844C>A	uc002nty.2	-	10	1165	c.1076G>T	c.(1075-1077)TGG>TTG	p.W359L	CCDC123_uc002ntx.2_Missense_Mutation_p.W112L|CCDC123_uc010edg.2_RNA|CCDC123_uc002ntz.1_Missense_Mutation_p.W359L	NM_032816	NP_116205	Q96ST8	CEP89_HUMAN	coiled-coil domain containing 123	359						centrosome|spindle pole					0	Esophageal squamous(110;0.137)					ACTTACCAACCAGGGTGGTAT	0.318													12	24	---	---	---	---	PASS	A	33417844	A	A	33417844	3	1	73	1	0	0	0	0	1	0	0	0	2759	595	21	3	1315	3	CCDC123	19	33417844	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	250530	33417844	25711139	279	27920										
WDR88	126248	broad.mit.edu	37	chr19	33628589	33628589	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tctccttttttcagatcccaTttaaaattctgagtgggcac	6	10	3	2	rs147156559	byFrequency	TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:33628589T>C	uc002nui.2	+	2	361	c.283T>C	c.(283-285)TTT>CTT	p.F95L		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	95										ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					TCAGATCCCATTTAAAATTCT	0.338													24	52	---	---	---	---	PASS	C	33628589	C	C	33628589	3	2	73	1	0	0	0	0	1	0	0	0	17332	1493	52	5	289	5	WDR88	19	33628589	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	210745	33628589	25500394	280	27921										
SELV	348303	broad.mit.edu	37	chr19	40006578	40006578	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	accatcccgtcggccatctcCttacagaattgtacggaaac	7	14	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:40006578C>G	uc010xvc.1	+	1	826	c.726C>G	c.(724-726)TCC>TCG	p.S242S		NM_182704	NP_874363	P59797	SELV_HUMAN	selenoprotein V	242					cell redox homeostasis		selenium binding				0	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;8.61e-26)|all cancers(26;2.76e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			CGGCCATCTCCTTACAGAATT	0.612													15	3	---	---	---	---	PASS	G	40006578	G	G	40006578	2	3	73	1	0	0	0	0	0	0	0	1	14023	668	24	4		4	SELV	19	40006578	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	6377989	40006578	19122405	281	27922										
ERCC1	2067	broad.mit.edu	37	chr19	45924470	45924470	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	caatgatgctgttggattttGccccgggtttcagggcctgg	14	9	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:45924470G>A	uc002pbs.1	-	3	433	c.287C>T	c.(286-288)GCA>GTA	p.A96V	ERCC1_uc002pbt.1_Missense_Mutation_p.A96V|ERCC1_uc002pbu.1_Intron|ERCC1_uc002pbv.2_Missense_Mutation_p.A96V	NM_001983	NP_001974	P07992	ERCC1_HUMAN	excision repair cross-complementing 1 isofrom 2	96					mitotic recombination|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|response to oxidative stress|transcription-coupled nucleotide-excision repair	cytoplasm|nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair complex	damaged DNA binding|endonuclease activity|protein C-terminus binding|protein domain specific binding|single-stranded DNA binding			ovary(2)	2		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0247)		GTTGGATTTTGCCCCGGGTTT	0.607								NER					69	17	---	---	---	---	PASS	A	45924470	A	A	45924470	3	1	73	1	0	0	0	0	1	0	0	0	5212	1319	46	3	767	3	ERCC1	19	45924470	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	5917892	45924470	13204513	282	27923										
SIGLEC9	27180	broad.mit.edu	37	chr19	51628948	51628948	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gtgccctgggcctgtgagcaGgggacaccccctatgatctc	13	14	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:51628948G>A	uc002pvu.2	+	2	583	c.516G>A	c.(514-516)CAG>CAA	p.Q172Q	SIGLEC9_uc010yct.1_Silent_p.Q172Q	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	172	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		CCTGTGAGCAGGGGACACCCC	0.667													4	99	---	---	---	---	PASS	A	51628948	A	A	51628948	2	1	73	1	0	0	0	0	0	0	0	1	14315	991	35	3		3	SIGLEC9	19	51628948	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	5704478	51628948	7500035	283	27924										
ZNF835	90485	broad.mit.edu	37	chr19	57175283	57175283	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agggcgagcgaggagccctgGctgaaagctttgccgcactc	15	12	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr19:57175283G>T	uc010ygo.1	-	2	1350	c.1350C>A	c.(1348-1350)AGC>AGA	p.S450R	ZNF835_uc010ygn.1_Missense_Mutation_p.S428R	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						AGGAGCCCTGGCTGAAAGCTT	0.672													42	11	---	---	---	---	PASS	T	57175283	T	T	57175283	3	4	73	1	0	0	0	0	1	0	0	0	18183	1194	42	3	331	3	ZNF835	19	57175283	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	5546335	57175283	1953700	284	27925										
PLCB4	5332	broad.mit.edu	37	chr20	9404577	9404577	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgcaatattgttcttaaaacAtatgtgcctgatggatttgg	9	5	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr20:9404577A>G	uc002wnf.2	+	26	2602	c.2466A>G	c.(2464-2466)ACA>ACG	p.T822T	PLCB4_uc010gbw.1_Silent_p.T822T|PLCB4_uc010gbx.2_Silent_p.T834T|PLCB4_uc002wne.2_Silent_p.T822T|PLCB4_uc002wnh.2_Silent_p.T669T	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	822					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						TTCTTAAAACATATGTGCCTG	0.363													16	36	---	---	---	---	PASS	G	9404577	G	G	9404577	2	3	73	1	0	0	0	0	0	0	0	1	12030	204	8	5		5	PLCB4	20	9404577	Silent	SNP	A	TCGA-34-5927-01A-11D-1817-08		9404577	53620943	285	27926										
ZNF133	7692	broad.mit.edu	37	chr20	18296189	18296189	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	agatgacaaacctgctcagtCaccagcggatacactcaggg	10	12	3	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr20:18296189C>A	uc010gcq.2	+	5	999	c.694C>A	c.(694-696)CAC>AAC	p.H232N	ZNF133_uc010zrv.1_Missense_Mutation_p.H235N|ZNF133_uc010zrw.1_Missense_Mutation_p.H169N|ZNF133_uc010gcr.2_Missense_Mutation_p.H232N|ZNF133_uc010zrx.1_Missense_Mutation_p.H137N|ZNF133_uc002wql.3_Missense_Mutation_p.H231N|ZNF133_uc010gcs.2_Missense_Mutation_p.H231N|ZNF133_uc010zry.1_Missense_Mutation_p.H137N|ZNF133_uc002wqm.2_Missense_Mutation_p.H232N	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	232	C2H2-type 1.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2						CCTGCTCAGTCACCAGCGGAT	0.502													44	49	---	---	---	---	PASS	A	18296189	A	A	18296189	3	1	73	1	0	0	0	0	1	0	0	0	17720	826	29	2	701	2	ZNF133	20	18296189	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	8891612	18296189	44729331	286	27927										
C20orf12	55184	broad.mit.edu	37	chr20	18395156	18395156	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	acagccagcaggaatgccgaGctagaggatagaaaatatct	11	8	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr20:18395156G>T	uc010zsa.1	-	12	1344	c.1135C>A	c.(1135-1137)CTC>ATC	p.L379I	C20orf12_uc010zrz.1_5'Flank|C20orf12_uc002wqp.3_Missense_Mutation_p.L70I|C20orf12_uc002wqr.3_RNA|C20orf12_uc002wqs.3_Missense_Mutation_p.L246I|C20orf12_uc002wqq.3_Missense_Mutation_p.L360I|C20orf12_uc002wqu.1_RNA|C20orf12_uc010gct.1_RNA	NM_001099407	NP_001092877	Q9NVP4	CT012_HUMAN	hypothetical protein LOC55184	187						intracellular	zinc ion binding			ovary(1)	1		Myeloproliferative disorder(85;0.0122)				GGAATGCCGAGCTAGAGGATA	0.368													10	7	---	---	---	---	PASS	T	18395156	T	T	18395156	3	4	73	1	0	0	0	0	1	0	0	0	2085	985	34	3	1220	3	C20orf12	20	18395156	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	98967	18395156	44630364	287	27928										
ELMO2	63916	broad.mit.edu	37	chr20	45000526	45000526	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tctcagagtaactcaggctaCgcaatttgctcttgaactga	8	10	3	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr20:45000526C>A	uc002xrt.1	-	17	1709	c.1499G>T	c.(1498-1500)CGT>CTT	p.R500L	ELMO2_uc010zxq.1_Missense_Mutation_p.R232L|ELMO2_uc002xrs.1_Missense_Mutation_p.R247L|ELMO2_uc002xru.1_Missense_Mutation_p.R500L|ELMO2_uc010zxr.1_Missense_Mutation_p.R512L|ELMO2_uc010zxs.1_Missense_Mutation_p.R317L|ELMO2_uc002xrv.1_Missense_Mutation_p.R219L	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2	500					apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				ACTCAGGCTACGCAATTTGCT	0.502													3	99	---	---	---	---	PASS	A	45000526	A	A	45000526	3	1	73	1	0	0	0	0	1	0	0	0	5066	536	19	1	687	1	ELMO2	20	45000526	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	26605370	45000526	18024994	288	27929										
FAM65C	140876	broad.mit.edu	37	chr20	49224934	49224934	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gacgggactcacttccactgCacctccagctgcagcttgat	9	15	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr20:49224934C>T	uc002xvm.2	-	11	1254	c.936G>A	c.(934-936)GTG>GTA	p.V312V	FAM65C_uc010zyt.1_Silent_p.V316V|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Silent_p.V312V	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	312										ovary(2)	2						ACTTCCACTGCACCTCCAGCT	0.652													17	42	---	---	---	---	PASS	T	49224934	T	T	49224934	2	4	73	1	0	0	0	0	0	0	0	1	5601	697	25	3		3	FAM65C	20	49224934	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	4224408	49224934	13800586	289	27930										
GNAS	2778	broad.mit.edu	37	chr20	57480498	57480498	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gagtgcgtgcctgctacgaaCgctccaacgagtaccagctg	12	13	0	0	rs137854532		TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr20:57480498C>T	uc002xzw.2	+	6	2707	c.2422C>T	c.(2422-2424)CGC>TGC	p.R808C	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Missense_Mutation_p.R106C|GNAS_uc002xzx.2_Missense_Mutation_p.R106C|GNAS_uc010gjr.2_Missense_Mutation_p.R56C|GNAS_uc002xzy.2_Missense_Mutation_p.R91C|GNAS_uc002yaa.2_Missense_Mutation_p.R151C|GNAS_uc010zzt.1_Missense_Mutation_p.R166C|GNAS_uc002yab.2_Intron|GNAS_uc002yad.2_Missense_Mutation_p.R56C|GNAS_uc002yae.2_Missense_Mutation_p.R90C	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	165			R -> C (in AHO).		activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CTGCTACGAACGCTCCAACGA	0.468			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			8	105	---	---	---	---	PASS	T	57480498	T	T	57480498	3	4	73	1	0	0	0	0	1	0	0	0	6510	536	19	1	3332	1	GNAS	20	57480498	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	8255564	57480498	5545022	290	27931										
SON	6651	broad.mit.edu	37	chr21	34923873	34923873	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctcccagatgttagcaactaGctccatggactcccagatgt	8	13	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr21:34923873G>C	uc002yse.1	+	3	2385	c.2336G>C	c.(2335-2337)AGC>ACC	p.S779T	SON_uc002ysb.1_Missense_Mutation_p.S779T|SON_uc002ysc.2_Missense_Mutation_p.S779T|SON_uc002ysd.2_Intron|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	779	17 X 10 AA tandem repeats of L-A-[ST]- [NSG]-[TS]-MDSQM.				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						TTAGCAACTAGCTCCATGGAC	0.507													15	194	---	---	---	---	PASS	C	34923873	C	C	34923873	3	2	73	1	0	0	0	0	1	0	0	0	14926	971	34	4	2346	4	SON	21	34923873	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08		34923873	13206022	291	27932										
TRAPPC10	7109	broad.mit.edu	37	chr21	45513965	45513965	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccatctacagcaagcagtcgGtgttcttcgtctgggaactc	10	12	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr21:45513965G>T	uc002zea.2	+	20	3188	c.3019G>T	c.(3019-3021)GTG>TTG	p.V1007L	TRAPPC10_uc010gpo.2_Missense_Mutation_p.V718L|TRAPPC10_uc011afa.1_Missense_Mutation_p.V385L|TRAPPC10_uc011afb.1_Missense_Mutation_p.V112L	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	1007					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						CAAGCAGTCGGTGTTCTTCGT	0.542													14	94	---	---	---	---	PASS	T	45513965	T	T	45513965	3	4	73	1	0	0	0	0	1	0	0	0	16454	1261	44	3	3097	3	TRAPPC10	21	45513965	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	10590092	45513965	2615930	292	27933										
PRAME	23532	broad.mit.edu	37	chr22	22890661	22890661	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gcctctccaggtggagggtaCcatggatgtcctcataactc	11	12	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr22:22890661C>A	uc002zwf.2	-	5	1514	c.1358G>T	c.(1357-1359)GGT>GTT	p.G453V	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Missense_Mutation_p.G437V|PRAME_uc010gtr.2_Missense_Mutation_p.G453V|PRAME_uc002zwg.2_Missense_Mutation_p.G453V|PRAME_uc002zwh.2_Missense_Mutation_p.G453V|PRAME_uc002zwi.2_Missense_Mutation_p.G453V|PRAME_uc002zwj.2_Missense_Mutation_p.G453V|PRAME_uc002zwk.2_Missense_Mutation_p.G453V	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	453	Mediates interaction with RARA.				apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		GTGGAGGGTACCATGGATGTC	0.587													30	52	---	---	---	---	PASS	A	22890661	A	A	22890661	3	1	73	1	0	0	0	0	1	0	0	0	12424	507	18	3	175	3	PRAME	22	22890661	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08		22890661	28413905	293	27934										
SEZ6L	23544	broad.mit.edu	37	chr22	26688413	26688413	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctagccctttgggtccttacCtcctgccctcaggagccccg	9	18	1	0	rs140163670		TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr22:26688413C>A	uc003acb.2	+	2	292	c.136C>A	c.(136-138)CTC>ATC	p.L46I	SEZ6L_uc003acc.2_Missense_Mutation_p.L46I|SEZ6L_uc011akc.1_Missense_Mutation_p.L46I|SEZ6L_uc003acd.2_Missense_Mutation_p.L46I|SEZ6L_uc011akd.1_Missense_Mutation_p.L46I|SEZ6L_uc003ace.2_Missense_Mutation_p.L46I|SEZ6L_uc003acf.1_5'UTR|SEZ6L_uc010gvc.1_5'UTR	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	46	Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						GGGTCCTTACCTCCTGCCCTC	0.572													18	18	---	---	---	---	PASS	A	26688413	A	A	26688413	3	1	73	1	0	0	0	0	1	0	0	0	14143	681	24	3	142	3	SEZ6L	22	26688413	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	3797752	26688413	24616153	294	27935										
MN1	4330	broad.mit.edu	37	chr22	28192792	28192792	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ggggtttggccttctcccagGgcgccaacgtcttgtcgtcg	14	13	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr22:28192792G>A	uc003adj.2	-	1	4695	c.3740C>T	c.(3739-3741)CCC>CTC	p.P1247L		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	1247							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						CTTCTCCCAGGGCGCCAACGT	0.617			T	ETV6	AML|meningioma								69	97	---	---	---	---	PASS	A	28192792	A	A	28192792	3	1	73	1	0	0	0	0	1	0	0	0	9673	1232	43	3	230	3	MN1	22	28192792	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1504379	28192792	23111774	295	27936										
APOL6	80830	broad.mit.edu	37	chr22	36054912	36054912	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgggtttagcccttgccccaGcaacaggaggaggaagcctg	14	11	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr22:36054912G>A	uc003aoe.2	+	3	595	c.301G>A	c.(301-303)GCA>ACA	p.A101T	APOL6_uc003aod.2_RNA	NM_030641	NP_085144	Q9BWW8	APOL6_HUMAN	apolipoprotein L6	101					lipoprotein metabolic process	cytoplasm|extracellular region	lipid binding|lipid transporter activity				0						CCTTGCCCCAGCAACAGGAGG	0.557													18	32	---	---	---	---	PASS	A	36054912	A	A	36054912	3	1	73	1	0	0	0	0	1	0	0	0	810	971	34	3	307	3	APOL6	22	36054912	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	7862120	36054912	15249654	296	27937										
CYB5R3	1727	broad.mit.edu	37	chr22	43023325	43023325	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ctgacctggttggcaaagagCaggtggcacacagtgtggtc	15	9	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr22:43023325C>A	uc003bcz.2	-	7	702	c.618G>T	c.(616-618)CTG>CTT	p.L206L	CYB5R3_uc010gzc.1_Silent_p.L80L|CYB5R3_uc003bcw.2_Silent_p.L196L|CYB5R3_uc011aps.1_Silent_p.L239L|CYB5R3_uc003bcy.2_Silent_p.L183L|CYB5R3_uc003bcx.2_Silent_p.L183L	NM_000398	NP_000389	P00387	NB5R3_HUMAN	cytochrome b5 reductase 3 isoform m	206	FAD (By similarity).				blood circulation|cholesterol biosynthetic process|water-soluble vitamin metabolic process	endoplasmic reticulum membrane|hemoglobin complex|mitochondrial outer membrane	cytochrome-b5 reductase activity			skin(1)	1					NADH(DB00157)	TGGCAAAGAGCAGGTGGCACA	0.612													11	29	---	---	---	---	PASS	A	43023325	A	A	43023325	2	1	73	1	0	0	0	0	0	0	0	1	4128	697	25	3		3	CYB5R3	22	43023325	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	6968413	43023325	8281241	297	27938										
GRAMD4	23151	broad.mit.edu	37	chr22	47069654	47069654	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ccggtcgcttccacagcaccAagaagggcaatttccacgag	10	14	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chr22:47069654A>T	uc003bhx.2	+	14	1366	c.1327A>T	c.(1327-1329)AAG>TAG	p.K443*	GRAMD4_uc010had.2_Nonsense_Mutation_p.K382*|GRAMD4_uc003bhy.2_5'Flank	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	443					apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		CCACAGCACCAAGAAGGGCAA	0.622													66	110	---	---	---	---	PASS	T	47069654	T	T	47069654	4	4	73	1	0	0	0	0	0	1	0	0	6752	131	5	5	1381	5	GRAMD4	22	47069654	Nonsense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	4046329	47069654	4234912	298	27939										
SFRS17A	8227	broad.mit.edu	37	chrX	1720006	1720006	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tcgtgtggtccccgaggatgGctctccagagaagaggtgcc	15	11	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:1720006G>T	uc004cqa.2	+	5	1803	c.1607G>T	c.(1606-1608)GGC>GTC	p.G536V	SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_Intron	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	536					B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCCGAGGATGGCTCTCCAGAG	0.642													16	18	---	---	---	---	PASS	T	1720006	T	T	1720006	3	4	73	1	0	0	0	0	1	0	0	0	14173	1203	42	3	1621	3	SFRS17A	23	1720006	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08		1720006	153550554	299	27940										
FOXR2	139628	broad.mit.edu	37	chrX	55650591	55650591	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aagcagggtatccattccccCagtgactttgagctcacaga	9	12	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:55650591C>A	uc004duo.2	+	1	759	c.447C>A	c.(445-447)CCC>CCA	p.P149P		NM_198451	NP_940853	Q6PJQ5	FOXR2_HUMAN	forkhead box R2	149					embryo development|organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			lung(2)|central_nervous_system(1)	3						TCCATTCCCCCAGTGACTTTG	0.502													26	21	---	---	---	---	PASS	A	55650591	A	A	55650591	2	1	73	1	0	0	0	0	0	0	0	1	6032	581	21	3		3	FOXR2	23	55650591	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	53930585	55650591	99619969	300	27941										
FAM123B	139285	broad.mit.edu	37	chrX	63412728	63412728	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tttctctgtggctccagccaCagatgtcttacatctggagc	9	12	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:63412728C>A	uc004dvo.2	-	2	712	c.439G>T	c.(439-441)GTG>TTG	p.V147L		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	147					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)|p.V147fs*11(1)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						GCTCCAGCCACAGATGTCTTA	0.532													29	53	---	---	---	---	PASS	A	63412728	A	A	63412728	3	1	73	1	0	0	0	0	1	0	0	0	5423	478	17	3	2972	3	FAM123B	23	63412728	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	7762137	63412728	91857832	301	27942										
HEPH	9843	broad.mit.edu	37	chrX	65409596	65409596	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cagaaacgtgtggcctggcaCttgtttggcatgggcaatga	14	8	0	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:65409596C>A	uc011moz.1	+	6	948	c.888C>A	c.(886-888)CAC>CAA	p.H296Q	HEPH_uc004dwn.2_Missense_Mutation_p.H296Q|HEPH_uc004dwo.2_Missense_Mutation_p.H26Q|HEPH_uc010nkr.2_Missense_Mutation_p.H296Q|HEPH_uc011mpa.1_Missense_Mutation_p.H296Q	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	293	Extracellular (Potential).|Plastocyanin-like 2.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						TGGCCTGGCACTTGTTTGGCA	0.443													42	61	---	---	---	---	PASS	A	65409596	A	A	65409596	3	1	73	1	0	0	0	0	1	0	0	0	7054	564	20	3	1063	3	HEPH	23	65409596	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	1996868	65409596	89860964	302	27943										
OPHN1	4983	broad.mit.edu	37	chrX	67283739	67283739	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cggggagctggtctctttatGtggaaagagggggtcttggt	18	5	2	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:67283739G>A	uc004dww.3	-	21	2409	c.2115C>T	c.(2113-2115)CAC>CAT	p.H705H	OPHN1_uc011mpg.1_Intron	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	705	Pro-rich.				axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						GTCTCTTTATGTGGAAAGAGG	0.587													6	11	---	---	---	---	PASS	A	67283739	A	A	67283739	2	1	73	1	0	0	0	0	0	0	0	1	10875	1368	48	3		3	OPHN1	23	67283739	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	1874143	67283739	87986821	303	27944										
ZMYM3	9203	broad.mit.edu	37	chrX	70468981	70468981	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atctcaaagttcttacacagGgtcttgcaccagacacatgg	8	11	3	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:70468981G>C	uc004dzh.1	-	8	1596	c.1509C>G	c.(1507-1509)ACC>ACG	p.T503T	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Silent_p.T503T|ZMYM3_uc004dzj.1_Silent_p.T503T	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	503	MYM-type 4.				multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					TCTTACACAGGGTCTTGCACC	0.453													59	136	---	---	---	---	PASS	C	70468981	C	C	70468981	2	2	73	1	0	0	0	0	0	0	0	1	17698	1219	43	4		4	ZMYM3	23	70468981	Silent	SNP	G	TCGA-34-5927-01A-11D-1817-08	3185242	70468981	84801579	304	27945										
TGIF2LX	90316	broad.mit.edu	37	chrX	89177498	89177498	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gccacccacctgcagagcacCgaggcgtctgtgccggccaa	12	17	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:89177498C>A	uc004efe.2	+	2	463	c.414C>A	c.(412-414)ACC>ACA	p.T138T		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	138						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						TGCAGAGCACCGAGGCGTCTG	0.587													22	48	---	---	---	---	PASS	A	89177498	A	A	89177498	2	1	73	1	0	0	0	0	0	0	0	1	15824	639	23	1		1	TGIF2LX	23	89177498	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	18708517	89177498	66093062	305	27946										
DRP2	1821	broad.mit.edu	37	chrX	100510221	100510221	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tccttctttaatgacagcttGtccccagatgacagcatgtg	8	11	1	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:100510221G>T	uc004egz.2	+	20	2598	c.2229G>T	c.(2227-2229)TTG>TTT	p.L743F	DRP2_uc011mrh.1_Missense_Mutation_p.L665F	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	743					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						ATGACAGCTTGTCCCCAGATG	0.463													85	124	---	---	---	---	PASS	T	100510221	T	T	100510221	3	4	73	1	0	0	0	0	1	0	0	0	4764	1368	48	3	2299	3	DRP2	23	100510221	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	11332723	100510221	54760339	306	27947										
BTK	695	broad.mit.edu	37	chrX	100613622	100613622	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	caccctgtggatttagcaaaCacagacactgtatatttgcc	7	11	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:100613622C>G	uc004ehg.2	-	11	1150	c.957G>C	c.(955-957)GTG>GTC	p.V319V	BTK_uc004ehf.2_5'Flank|BTK_uc010nnh.2_5'Flank|BTK_uc010nni.2_5'Flank|BTK_uc004ehe.2_5'Flank|BTK_uc010nnj.2_5'Flank|BTK_uc010nnk.2_5'Flank|BTK_uc010nnl.2_5'Flank|BTK_uc010nnm.2_5'Flank|BTK_uc010nnn.2_Silent_p.V319V|BTK_uc010nno.2_Silent_p.V353V|BTK_uc004ehh.1_5'Flank|BTK_uc004ehi.2_Silent_p.V319V	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	319	SH2.		V -> A (in XLA; moderate).		calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						ATTTAGCAAACACAGACACTG	0.483									Agammaglobulinemia_X-linked				18	381	---	---	---	---	PASS	G	100613622	G	G	100613622	2	3	73	1	0	0	0	0	0	0	0	1	1557	465	17	4		4	BTK	23	100613622	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	103401	100613622	54656938	307	27948										
BEX1	55859	broad.mit.edu	37	chrX	102317851	102317851	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cataaggcaaaactcatcatGatggtcatggtgaggggggt	14	6	3	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:102317851G>T	uc004ejt.1	-	3	592	c.352C>A	c.(352-354)CAT>AAT	p.H118N		NM_018476	NP_060946	Q9HBH7	BEX1_HUMAN	brain expressed, X-linked 1	118					cell differentiation|nervous system development	cytoplasm|nucleus				ovary(1)	1						AACTCATCATGATGGTCATGG	0.488													78	107	---	---	---	---	PASS	T	102317851	T	T	102317851	3	4	73	1	0	0	0	0	1	0	0	0	1410	1290	45	2	29	2	BEX1	23	102317851	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1704229	102317851	52952709	308	27949										
NRK	203447	broad.mit.edu	37	chrX	105179165	105179165	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cccttacatctttgcagtatAcgctggattcgtagaagtac	8	10	1	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:105179165A>G	uc004emd.2	+	21	3806	c.3503A>G	c.(3502-3504)TAC>TGC	p.Y1168C	NRK_uc010npc.1_Missense_Mutation_p.Y836C	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1168							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						TTTGCAGTATACGCTGGATTC	0.383										HNSCC(51;0.14)			57	103	---	---	---	---	PASS	G	105179165	G	G	105179165	3	3	73	1	0	0	0	0	1	0	0	0	10655	391	14	5	3585	5	NRK	23	105179165	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	2861314	105179165	50091395	309	27950										
AGTR2	186	broad.mit.edu	37	chrX	115304242	115304242	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gctattttggaattagaaaaCacttactgaagacgaatagc	8	6	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:115304242C>T	uc004eqh.3	+	3	916	c.709C>T	c.(709-711)CAC>TAC	p.H237Y		NM_000686	NP_000677	P50052	AGTR2_HUMAN	angiotensin II receptor, type 2	237	Cytoplasmic (Potential).				behavior|blood vessel remodeling|brain development|G-protein signaling, coupled to cGMP nucleotide second messenger|intracellular protein kinase cascade|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of heart rate|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of nitric-oxide synthase activity|positive regulation of phosphoprotein phosphatase activity|positive regulation of vasodilation|regulation of systemic arterial blood pressure by circulatory renin-angiotensin		angiotensin type II receptor activity|receptor antagonist activity			ovary(2)|lung(1)	3						AATTAGAAAACACTTACTGAA	0.403													35	59	---	---	---	---	PASS	T	115304242	T	T	115304242	3	4	73	1	0	0	0	0	1	0	0	0	402	478	17	3	711	3	AGTR2	23	115304242	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	10125077	115304242	39966318	310	27951										
WDR44	54521	broad.mit.edu	37	chrX	117527019	117527019	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cttatctactaaagattttgCcgctgtggaagaagtggccc	10	9	1	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:117527019C>G	uc004eqn.2	+	4	1036	c.611C>G	c.(610-612)GCC>GGC	p.A204G	WDR44_uc004eqo.2_Missense_Mutation_p.A204G|WDR44_uc011mtr.1_Missense_Mutation_p.A179G|WDR44_uc010nqi.2_5'UTR	NM_019045	NP_061918	Q5JSH3	WDR44_HUMAN	WD repeat domain 44 protein	204						cytosol|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm				lung(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5						AAAGATTTTGCCGCTGTGGAA	0.488													36	107	---	---	---	---	PASS	G	117527019	G	G	117527019	3	3	73	1	0	0	0	0	1	0	0	0	17293	739	26	4	625	4	WDR44	23	117527019	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	2222777	117527019	37743541	311	27952										
DOCK11	139818	broad.mit.edu	37	chrX	117731508	117731508	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	gaatctgaatgatgcagaatCaagaagggtaggaaaatact	11	4	2	4			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:117731508C>T	uc004eqp.2	+	21	2441	c.2378C>T	c.(2377-2379)TCA>TTA	p.S793L	DOCK11_uc004eqq.2_Missense_Mutation_p.S559L	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	793	DHR-1.				blood coagulation	cytosol	GTP binding			ovary(3)	3						GATGCAGAATCAAGAAGGGTA	0.368													47	72	---	---	---	---	PASS	T	117731508	T	T	117731508	3	4	73	1	0	0	0	0	1	0	0	0	4686	838	29	2	2460	2	DOCK11	23	117731508	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	204489	117731508	37539052	312	27953										
XIAP	331	broad.mit.edu	37	chrX	123034478	123034478	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	atcacttgaggttctggttgCagatctagtgaatgctcaga	11	7	4	4			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:123034478C>T	uc010nqu.2	+	6	1361	c.1235C>T	c.(1234-1236)GCA>GTA	p.A412V	XIAP_uc004etx.2_Missense_Mutation_p.A412V|XIAP_uc010nqv.2_Missense_Mutation_p.A38V	NM_001167	NP_001158	P98170	XIAP_HUMAN	baculoviral IAP repeat-containing protein 4	412					anti-apoptosis|apoptosis|induction of apoptosis by intracellular signals|response to DNA damage stimulus	cytosol	caspase inhibitor activity|ligase activity|protein binding|zinc ion binding			ovary(1)|lung(1)	2						GTTCTGGTTGCAGATCTAGTG	0.343									X-linked_Lymphoproliferative_syndrome				25	62	---	---	---	---	PASS	T	123034478	T	T	123034478	3	4	73	1	0	0	0	0	1	0	0	0	17425	710	25	3	1253	3	XIAP	23	123034478	Missense_Mutation	SNP	C	TCGA-34-5927-01A-11D-1817-08	5302970	123034478	32236082	313	27954										
STAG2	10735	broad.mit.edu	37	chrX	123197734	123197734	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tgcgacagatccggaatattGtagagaagcacacagataca	10	8	0	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:123197734G>T	uc004etz.3	+	19	2197	c.1858G>T	c.(1858-1860)GTA>TTA	p.V620L	STAG2_uc004eua.2_Missense_Mutation_p.V620L|STAG2_uc004eub.2_Missense_Mutation_p.V620L|STAG2_uc004euc.2_Missense_Mutation_p.V620L|STAG2_uc004eud.2_Missense_Mutation_p.V620L|STAG2_uc004eue.2_Missense_Mutation_p.V620L	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	620					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						CCGGAATATTGTAGAGAAGCA	0.338													48	70	---	---	---	---	PASS	T	123197734	T	T	123197734	3	4	73	1	0	0	0	0	1	0	0	0	15242	1377	48	3	1928	3	STAG2	23	123197734	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	163256	123197734	32072826	314	27955										
ODZ1	10178	broad.mit.edu	37	chrX	123516596	123516596	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	attctaaattttctaattcaGgtttgggaaatccaggtagt	8	5	3	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:123516596G>T	uc004euj.2	-	30	7407	c.7343C>A	c.(7342-7344)CCT>CAT	p.P2448H	ODZ1_uc011muj.1_Missense_Mutation_p.P2454H|ODZ1_uc010nqy.2_Missense_Mutation_p.P2455H	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2448	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TTCTAATTCAGGTTTGGGAAA	0.353													117	213	---	---	---	---	PASS	T	123516596	T	T	123516596	3	4	73	1	0	0	0	0	1	0	0	0	10834	1000	35	3	842	3	ODZ1	23	123516596	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	318862	123516596	31753964	315	27956										
ACTRT1	139741	broad.mit.edu	37	chrX	127185764	127185764	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	aggcatagagcgctgccaccGcatgattagacaggtagaaa	12	9	0	4			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:127185764G>A	uc004eum.2	-	1	619	c.422C>T	c.(421-423)GCG>GTG	p.A141V		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	141						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						CGCTGCCACCGCATGATTAGA	0.522													4	215	---	---	---	---	PASS	A	127185764	A	A	127185764	3	1	73	1	0	0	0	0	1	0	0	0	218	1087	38	1	712	1	ACTRT1	23	127185764	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	3669168	127185764	28084796	316	27957										
MAP7D3	79649	broad.mit.edu	37	chrX	135326828	135326828	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tctggtgtcttttttcttctGcagctattctccgttgttct	7	10	6	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:135326828G>T	uc004ezt.2	-	4	471	c.380C>A	c.(379-381)GCA>GAA	p.A127E	MAP7D3_uc004ezs.2_Missense_Mutation_p.A126E|MAP7D3_uc011mwc.1_Missense_Mutation_p.A109E|MAP7D3_uc010nsa.1_Missense_Mutation_p.A126E	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	127	Potential.					cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					TTTTTCTTCTGCAGCTATTCT	0.398													40	119	---	---	---	---	PASS	T	135326828	T	T	135326828	3	4	73	1	0	0	0	0	1	0	0	0	9269	1319	46	3	2310	3	MAP7D3	23	135326828	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	8141064	135326828	19943732	317	27958										
ZIC3	7547	broad.mit.edu	37	chrX	136649893	136649893	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	ttctgagaacctcaagatccAcaagaggacccacacaggta	8	12	2	3			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:136649893A>G	uc004fak.2	+	1	1548	c.1043A>G	c.(1042-1044)CAC>CGC	p.H348R		NM_003413	NP_003404	O60481	ZIC3_HUMAN	zinc finger protein of the cerebellum 3	348	C2H2-type 3.|Nuclear localization signal.				cell differentiation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CTCAAGATCCACAAGAGGACC	0.612													44	88	---	---	---	---	PASS	G	136649893	G	G	136649893	3	3	73	1	0	0	0	0	1	0	0	0	17677	159	6	5	1045	5	ZIC3	23	136649893	Missense_Mutation	SNP	A	TCGA-34-5927-01A-11D-1817-08	1323065	136649893	18620667	318	27959										
MAGEA3	4102	broad.mit.edu	37	chrX	151935707	151935707	+	Frame_Shift_Del	DEL	C	-	-													0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	cagctgcaaggaactggaagCtttgctgaagatcacaggaa							TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:151935707delC	uc004fgp.2	-	3	669	c.460delG	c.(460-462)GCTfs	p.A154fs		NM_005362	NP_005353	P43357	MAGA3_HUMAN	melanoma antigen family A, 3	154	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					GAACTGGAAGCTTTGCTGAAG	0.542													174	84	---	---	---	---		-	151935707	-	-	151935707	7	5	73	1	0	1	0	1	0	0	0	0	9167	797	28	0	488	0	MAGEA3	23	151935707	Frame_Shift_Del	DEL	C	TCGA-34-5927-01A-11D-1817-08	15285814	151935707	3334853	319	27960										
RENBP	5973	broad.mit.edu	37	chrX	153209819	153209819	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	caccacgcggtccagctcctGccccacgcgctccttccagg	9	21	0	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:153209819G>T	uc004fjo.1	-	2	249	c.79C>A	c.(79-81)CAG>AAG	p.Q27K	RENBP_uc011mzh.1_Missense_Mutation_p.Q27K|RENBP_uc011mzi.1_5'Flank	NM_002910	NP_002901	P51606	RENBP_HUMAN	renin binding protein	27					mannose metabolic process|regulation of blood pressure		endopeptidase inhibitor activity|mannose-6-phosphate isomerase activity|N-acylglucosamine 2-epimerase activity			ovary(1)|pancreas(1)	2	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				N-Acetyl-D-glucosamine(DB00141)	TCCAGCTCCTGCCCCACGCGC	0.637													40	104	---	---	---	---	PASS	T	153209819	T	T	153209819	3	4	73	1	0	0	0	0	1	0	0	0	13225	1328	46	3	1244	3	RENBP	23	153209819	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	1274112	153209819	2060741	320	27961										
MECP2	4204	broad.mit.edu	37	chrX	153296299	153296299	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	tcccgctcttctcaccgaggGtggacaccagcaggggcttc	12	15	2	0			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:153296299G>T	uc004fjv.2	-	4	1206	c.980C>A	c.(979-981)ACC>AAC	p.T327N	MECP2_uc004fjw.2_Missense_Mutation_p.T339N	NM_004992	NP_004983	P51608	MECP2_HUMAN	methyl CpG binding protein 2 isoform 1	327					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	heterochromatin|nucleus	double-stranded methylated DNA binding|protein domain specific binding|protein N-terminus binding|transcription corepressor activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTCACCGAGGGTGGACACCAG	0.617													43	75	---	---	---	---	PASS	T	153296299	T	T	153296299	3	4	73	1	0	0	0	0	1	0	0	0	9423	1261	44	3	484	3	MECP2	23	153296299	Missense_Mutation	SNP	G	TCGA-34-5927-01A-11D-1817-08	86480	153296299	1974261	321	27962										
MECP2	4204	broad.mit.edu	37	chrX	153297676	153297676	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	acttgatcaaatacacatcaTacttcccagcagagcggcca	6	13	2	2			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:153297676T>C	uc004fjv.2	-	3	585	c.359A>G	c.(358-360)TAT>TGT	p.Y120C	MECP2_uc004fjw.2_Missense_Mutation_p.Y132C	NM_004992	NP_004983	P51608	MECP2_HUMAN	methyl CpG binding protein 2 isoform 1	120	MBD.		Y -> D (in RTT).		negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	heterochromatin|nucleus	double-stranded methylated DNA binding|protein domain specific binding|protein N-terminus binding|transcription corepressor activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ATACACATCATACTTCCCAGC	0.522													36	83	---	---	---	---	PASS	C	153297676	C	C	153297676	3	2	73	1	0	0	0	0	1	0	0	0	9423	1406	49	5	1109	5	MECP2	23	153297676	Missense_Mutation	SNP	T	TCGA-34-5927-01A-11D-1817-08	1377	153297676	1972884	322	27963										
SLC10A3	8273	broad.mit.edu	37	chrX	153716116	153716116	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116352201257862	37	0.000584494862179335	1.8162583518931	2.23539489463766	1.58922605790646	0.407587685187313	0.801770950033723	17	accaggggcaccgtgataccCaccagtacgatgggtagccg	13	13	0	1			TCGA-34-5927-01A-11D-1817-08	TCGA-34-5927-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	d717b13a-e487-4cad-9aae-4b0d649236c4	767efe3e-b701-4cac-992c-c58a02a715fc	g.chrX:153716116C>A	uc004flq.2	-	3	1428	c.1164G>T	c.(1162-1164)GTG>GTT	p.V388V	UBL4A_uc004flo.2_5'Flank|SLC10A3_uc004flr.2_Silent_p.V359V|SLC10A3_uc004flp.2_Silent_p.V388V	NM_001142392	NP_001135864	P09131	P3_HUMAN	solute carrier family 10, member 3 isoform 1	388	Helical; (Potential).				organic anion transport	integral to membrane	bile acid:sodium symporter activity			ovary(1)|skin(1)	2	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCGTGATACCCACCAGTACGA	0.627													24	41	---	---	---	---	PASS	A	153716116	A	A	153716116	2	1	73	1	0	0	0	0	0	0	0	1	14375	581	21	3		3	SLC10A3	23	153716116	Silent	SNP	C	TCGA-34-5927-01A-11D-1817-08	418440	153716116	1554444	323	27964										
ISG15	9636	broad.mit.edu	37	chr1	949562	949562	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccagccagggcctgggccccGgcagcacggtcctgctggtg	16	16	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:949562G>A	uc001acj.3	+	2	309	c.202G>A	c.(202-204)GGC>AGC	p.G68S		NM_005101	NP_005092	P05161	ISG15_HUMAN	ISG15 ubiquitin-like modifier precursor	68	Ubiquitin-like 1.				cell-cell signaling|interspecies interaction between organisms|ISG15-protein conjugation|negative regulation of type I interferon production|response to virus|type I interferon-mediated signaling pathway	cytosol|extracellular space	protein binding				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;4.05e-38)|OV - Ovarian serous cystadenocarcinoma(86;4.54e-23)|Colorectal(212;5.37e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00238)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.199)		CCTGGGCCCCGGCAGCACGGT	0.662													37	47	---	---	---	---	PASS	A	949562	A	A	949562	3	1	74	1	0	0	0	0	1	0	0	0	7853	1116	39	1	208	1	ISG15	1	949562	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08		949562	248301059	1	27965										
KIAA1751	85452	broad.mit.edu	37	chr1	1897928	1897928	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cactggaaacgacttccagcAaccgagagggcccggggcct	13	14	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:1897928A>T	uc001aim.1	-	12	1439	c.1283T>A	c.(1282-1284)TTG>TAG	p.L428*	KIAA1751_uc009vkz.1_Nonsense_Mutation_p.L428*	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	428										pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		GACTTCCAGCAACCGAGAGGG	0.587													22	45	---	---	---	---	PASS	T	1897928	T	T	1897928	4	4	74	1	0	0	0	0	0	1	0	0	8256	131	5	5	1033	5	KIAA1751	1	1897928	Nonsense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	948366	1897928	247352693	2	27966										
SPSB1	80176	broad.mit.edu	37	chr1	9416114	9416114	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgatgtccagctgctgcattCatggaacaacaacgaccgat	9	11	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:9416114C>T	uc010oae.1	+	2	503	c.164C>T	c.(163-165)TCA>TTA	p.S55L	SPSB1_uc001apv.2_Missense_Mutation_p.S55L	NM_025106	NP_079382	Q96BD6	SPSB1_HUMAN	splA/ryanodine receptor domain and SOCS box	55	B30.2/SPRY.				intracellular signal transduction	cytoplasm					0	all_lung(157;0.194)	all_epithelial(116;4.38e-15)|all_lung(118;0.000156)|Lung NSC(185;0.000446)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;2.72e-07)|COAD - Colon adenocarcinoma(227;9.12e-05)|Kidney(185;0.000296)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00193)|BRCA - Breast invasive adenocarcinoma(304;0.00202)|READ - Rectum adenocarcinoma(331;0.0419)		CTGCTGCATTCATGGAACAAC	0.567													29	111	---	---	---	---	PASS	T	9416114	T	T	9416114	3	4	74	1	0	0	0	0	1	0	0	0	15111	838	29	2	166	2	SPSB1	1	9416114	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	7518186	9416114	239834507	3	27967										
KIF1B	23095	broad.mit.edu	37	chr1	10386247	10386247	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	actttttccacggccgattcCgacatcactgagctggctga	9	13	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:10386247C>T	uc001aqx.3	+	27	2956	c.2754C>T	c.(2752-2754)TCC>TCT	p.S918S	KIF1B_uc001aqw.3_Silent_p.S872S|KIF1B_uc001aqy.2_Silent_p.S892S|KIF1B_uc001aqz.2_Silent_p.S918S|KIF1B_uc001ara.2_Silent_p.S878S|KIF1B_uc001arb.2_Silent_p.S904S	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	918					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		CGGCCGATTCCGACATCACTG	0.592													31	141	---	---	---	---	PASS	T	10386247	T	T	10386247	2	4	74	1	0	0	0	0	0	0	0	1	8284	639	23	1		1	KIF1B	1	10386247	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	970133	10386247	238864374	4	27968										
PLOD1	5351	broad.mit.edu	37	chr1	12016994	12016994	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atgaggtcgtgctcaagtttGaaatgggccatgtgagagcg	15	6	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:12016994G>C	uc001atm.2	+	7	755	c.664G>C	c.(664-666)GAA>CAA	p.E222Q	PLOD1_uc010obb.1_Missense_Mutation_p.E269Q	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	222					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	GCTCAAGTTTGAAATGGGCCA	0.493													3	120	---	---	---	---	PASS	C	12016994	C	C	12016994	3	2	74	1	0	0	0	0	1	0	0	0	12101	1291	45	2	690	2	PLOD1	1	12016994	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1630747	12016994	237233627	5	27969										
C1orf158	93190	broad.mit.edu	37	chr1	12820845	12820845	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tggagggagcatgcggtcccGgtccctccccatcgcctgca	13	16	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:12820845G>T	uc001auh.2	+	4	762	c.546G>T	c.(544-546)CCG>CCT	p.P182P		NM_152290	NP_689503	Q8N1D5	CA158_HUMAN	hypothetical protein LOC93190	182										ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00575)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		ATGCGGTCCCGGTCCCTCCCC	0.587													6	84	---	---	---	---	PASS	T	12820845	T	T	12820845	2	4	74	1	0	0	0	0	0	0	0	1	2007	1103	39	1		1	C1orf158	1	12820845	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	803851	12820845	236429776	6	27970										
PTAFR	5724	broad.mit.edu	37	chr1	28476843	28476843	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	accgtgcacaccatccacagCgcccggcgcttgacttcagc	9	18	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:28476843C>T	uc001bpl.2	-	2	817	c.690G>A	c.(688-690)GCG>GCA	p.A230A	PTAFR_uc001bpm.3_Silent_p.A230A|PTAFR_uc009vte.2_Silent_p.A230A	NM_000952	NP_000943	P25105	PTAFR_HUMAN	platelet-activating factor receptor	230	Cytoplasmic (Potential).				chemotaxis|inflammatory response|interferon-gamma-mediated signaling pathway|phosphatidylinositol-mediated signaling	integral to plasma membrane|nucleus	phospholipid binding|platelet activating factor receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00715)|all_lung(284;0.00732)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.215)|OV - Ovarian serous cystadenocarcinoma(117;6e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|STAD - Stomach adenocarcinoma(196;0.00678)|READ - Rectum adenocarcinoma(331;0.0649)		CCATCCACAGCGCCCGGCGCT	0.612													6	36	---	---	---	---	PASS	T	28476843	T	T	28476843	2	4	74	1	0	0	0	0	0	0	0	1	12723	755	27	1		1	PTAFR	1	28476843	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	15655998	28476843	220773778	7	27971										
CDCA8	55143	broad.mit.edu	37	chr1	38158662	38158662	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tacaacatcgagatcctgcgGctccccaaggctctgcgcga	10	15	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:38158662G>T	uc001cbr.2	+	3	287	c.180G>T	c.(178-180)CGG>CGT	p.R60R	C1orf109_uc010oig.1_5'Flank|C1orf109_uc001cbo.2_5'Flank|C1orf109_uc001cbp.2_5'Flank|C1orf109_uc001cbq.1_5'Flank|CDCA8_uc001cbs.2_Silent_p.R60R|CDCA8_uc010oih.1_5'UTR	NM_018101	NP_060571	Q53HL2	BOREA_HUMAN	cell division cycle associated 8	60	Required for centromere localization.|Required for interaction with SENP3.|Required to form a minimal CPC core complex that localizes to the central spindle and midbody and properly executes the role of the CPC during cytokinesis.|Required for interaction with INCENP and BIRC5.				cell division|chromosome organization|mitotic metaphase|mitotic prometaphase	chromosome passenger complex|chromosome, centromeric region|cytosol|nucleolus|spindle	protein binding			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				AGATCCTGCGGCTCCCCAAGG	0.567													23	42	---	---	---	---	PASS	T	38158662	T	T	38158662	2	4	74	1	0	0	0	0	0	0	0	1	3092	1190	42	3		3	CDCA8	1	38158662	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	9681819	38158662	211091959	8	27972										
MACF1	23499	broad.mit.edu	37	chr1	39798692	39798692	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gaggcggaaggtgtgccgttGgtggttgacaaagatgtttt	17	4	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:39798692G>A	uc010oiu.1	+	1	1883	c.1752G>A	c.(1750-1752)TTG>TTA	p.L584L	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2149					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)			GTGTGCCGTTGGTGGTTGACA	0.468													9	68	---	---	---	---	PASS	A	39798692	A	A	39798692	2	1	74	1	0	0	0	0	0	0	0	1	9144	1339	47	3		3	MACF1	1	39798692	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	1640030	39798692	209451929	9	27973										
MACF1	23499	broad.mit.edu	37	chr1	39888172	39888172	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtttagaacatgacatggaaGagatcaatgctcgatggaat	11	5	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:39888172G>C	uc010oiu.1	+	23	11394	c.11263G>C	c.(11263-11265)GAG>CAG	p.E3755Q	MACF1_uc010ois.1_Missense_Mutation_p.E3253Q|MACF1_uc001cda.1_Missense_Mutation_p.E3140Q|MACF1_uc001cdc.1_Missense_Mutation_p.E2319Q	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	5320	Spectrin 6.				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)			TGACATGGAAGAGATCAATGC	0.418													13	55	---	---	---	---	PASS	C	39888172	C	C	39888172	3	2	74	1	0	0	0	0	1	0	0	0	9144	943	33	2	16122	2	MACF1	1	39888172	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	89480	39888172	209362449	10	27974										
NT5C1A	84618	broad.mit.edu	37	chr1	40126838	40126838	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acgatgcgctccgactcgtcCgagaagagcacggcgtcccc	12	16	0	2	rs144981890	by1000genomes	TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:40126838C>A	uc001cdq.1	-	5	654	c.654G>T	c.(652-654)TCG>TCT	p.S218S		NM_032526	NP_115915	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	218					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1	Lung NSC(20;3.81e-06)|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;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CCGACTCGTCCGAGAAGAGCA	0.622													3	84	---	---	---	---	PASS	A	40126838	A	A	40126838	2	1	74	1	0	0	0	0	0	0	0	1	10685	639	23	1		1	NT5C1A	1	40126838	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	238666	40126838	209123783	11	27975										
PTCH2	8643	broad.mit.edu	37	chr1	45292729	45292729	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cgggtggaatcagtccctctCtgtccaccagcttccttgtg	10	14	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:45292729C>G	uc010olf.1	-	17	2552	c.2540G>C	c.(2539-2541)AGA>ACA	p.R847T	PTCH2_uc010olg.1_Missense_Mutation_p.R545T	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	847	Extracellular (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					CAGTCCCTCTCTGTCCACCAG	0.642									Basal_Cell_Nevus_syndrome				35	96	---	---	---	---	PASS	G	45292729	G	G	45292729	3	3	74	1	0	0	0	0	1	0	0	0	12731	913	32	2	1115	2	PTCH2	1	45292729	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	5165891	45292729	203957892	12	27976										
PTCH2	8643	broad.mit.edu	37	chr1	45293550	45293550	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gagcagcaacggggcaaactGatagcgggcgaaatgggcaa	16	8	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:45293550G>A	uc010olf.1	-	14	2035	c.2023C>T	c.(2023-2025)CAG>TAG	p.Q675*	PTCH2_uc010olg.1_Nonsense_Mutation_p.Q373*	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	675	Cytoplasmic (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					GGGGCAAACTGATAGCGGGCG	0.597									Basal_Cell_Nevus_syndrome				12	76	---	---	---	---	PASS	A	45293550	A	A	45293550	4	1	74	1	0	0	0	0	0	1	0	0	12731	1299	45	2	1644	2	PTCH2	1	45293550	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	821	45293550	203957071	13	27977										
FAAH	2166	broad.mit.edu	37	chr1	46874151	46874151	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtctacaccagctctcagccCctgcgtgtggggtactatga	11	13	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:46874151C>G	uc001cpu.2	+	8	1054	c.972C>G	c.(970-972)CCC>CCG	p.P324P	FAAH_uc001cpv.2_RNA	NM_001441	NP_001432	O00519	FAAH1_HUMAN	fatty acid amide hydrolase	324	Cytoplasmic (By similarity).				fatty acid catabolic process	cytoplasm|cytoskeleton|endomembrane system|integral to membrane|organelle membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|fatty acid amide hydrolase activity			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(166;0.155)				Propofol(DB00818)|Thiopental(DB00599)	GCTCTCAGCCCCTGCGTGTGG	0.602													14	347	---	---	---	---	PASS	G	46874151	G	G	46874151	2	3	74	1	0	0	0	0	0	0	0	1	5353	610	22	4		4	FAAH	1	46874151	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	1580601	46874151	202376470	14	27978										
JUN	3725	broad.mit.edu	37	chr1	59248409	59248409	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cagggcgcgcacgaagccctCggcgaagccctcctgctcat	12	17	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:59248409C>T	uc001cze.2	-	1	1377	c.334G>A	c.(334-336)GAG>AAG	p.E112K	uc001czf.2_5'Flank|uc010oop.1_5'Flank	NM_002228	NP_002219	P05412	JUN_HUMAN	jun oncogene	112					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation by host of viral transcription|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|SMAD protein import into nucleus|SMAD protein signal transduction|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|transforming growth factor beta receptor signaling pathway		R-SMAD binding|Rho GTPase activator activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity|transcription factor binding|transcription regulatory region DNA binding				0	all_cancers(7;8.55e-07)				Arsenic trioxide(DB01169)|Irbesartan(DB01029)|Vinblastine(DB00570)	ACGAAGCCCTCGGCGAAGCCC	0.672			A		sarcoma								4	107	---	---	---	---	PASS	T	59248409	T	T	59248409	3	4	74	1	0	0	0	0	1	0	0	0	7969	893	31	2	665	2	JUN	1	59248409	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	12374258	59248409	190002212	15	27979										
LHX8	431707	broad.mit.edu	37	chr1	75608891	75608891	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aggggaatgtctatcacttgGcatgctttgcctgcttttcc	10	10	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:75608891G>C	uc001dgo.2	+	6	1142	c.478G>C	c.(478-480)GCA>CCA	p.A160P	LHX8_uc001dgq.2_Missense_Mutation_p.A99P	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	160	LIM zinc-binding 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CTATCACTTGGCATGCTTTGC	0.473													35	80	---	---	---	---	PASS	C	75608891	C	C	75608891	3	2	74	1	0	0	0	0	1	0	0	0	8776	1203	42	4	496	4	LHX8	1	75608891	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	16360482	75608891	173641730	16	27980										
IFI44	10561	broad.mit.edu	37	chr1	79119954	79119954	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tggatgaaagaaagataaaaGgggtcattgagtaagtcaat	12	2	2	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:79119954G>A	uc001dip.3	+	3	608	c.484G>A	c.(484-486)GGG>AGG	p.G162R	IFI44_uc010orr.1_Missense_Mutation_p.G162R|IFI44_uc010ors.1_5'UTR	NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	162					response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2						AAAGATAAAAGGGGTCATTGA	0.303													18	51	---	---	---	---	PASS	A	79119954	A	A	79119954	3	1	74	1	0	0	0	0	1	0	0	0	7517	1000	35	3	490	3	IFI44	1	79119954	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	3511063	79119954	170130667	17	27981										
LRRC8C	84230	broad.mit.edu	37	chr1	90179549	90179549	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acaatcttcaagagctctctCtgcaccagtgttctgtcaaa	6	12	6	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:90179549C>T	uc001dnl.3	+	3	1662	c.1420C>T	c.(1420-1422)CTG>TTG	p.L474L		NM_032270	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member	474	LRR 4.					endoplasmic reticulum membrane|integral to membrane				ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		AGAGCTCTCTCTGCACCAGTG	0.438													8	92	---	---	---	---	PASS	T	90179549	T	T	90179549	2	4	74	1	0	0	0	0	0	0	0	1	9023	912	32	2		2	LRRC8C	1	90179549	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	11059595	90179549	159071072	18	27982										
ABCA4	24	broad.mit.edu	37	chr1	94528861	94528861	+	Missense_Mutation	SNP	C	A	A													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	attgtagctttcaaacttatCcaggaccaagcactgcagag							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:94528861C>A	uc001dqh.2	-	12	1671	c.1567G>T	c.(1567-1569)GAT>TAT	p.D523Y	ABCA4_uc010otn.1_Missense_Mutation_p.D523Y	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	523	Extracellular.		D -> E (in STGD1).		phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		TCAAACTTATCCAGGACCAAG	0.483													15	115	---	---	---	---	PASS	A	94528861	A	A	94528861	3	1	74	1	0	0	0	0	1	0	0	0	34	855	30	2	5410	2	ABCA4	1	94528861	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	4349312	94528861	154721760	19	27983	584	2								
ABCA4	24	broad.mit.edu	37	chr1	94528862	94528862	+	Silent	SNP	C	T	T													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttgtagctttcaaacttatcCaggaccaagcactgcagaga							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:94528862C>T	uc001dqh.2	-	12	1670	c.1566G>A	c.(1564-1566)CTG>CTA	p.L522L	ABCA4_uc010otn.1_Silent_p.L522L	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	522	Extracellular.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CAAACTTATCCAGGACCAAGC	0.488													15	113	---	---	---	---	PASS	T	94528862	T	T	94528862	2	4	74	1	0	0	0	0	0	0	0	1	34	581	21	3		3	ABCA4	1	94528862	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	1	94528862	154721759	20	27984	584	2								
OLFM3	118427	broad.mit.edu	37	chr1	102270254	102270254	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aaccagcatactccaggcttCgttgggcaagcactctcccc	8	16	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:102270254C>T	uc001duf.2	-	6	1048	c.977G>A	c.(976-978)CGA>CAA	p.R326Q	OLFM3_uc001dug.2_Missense_Mutation_p.R306Q|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_Missense_Mutation_p.R231Q|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	326	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)		CTCCAGGCTTCGTTGGGCAAG	0.438													8	77	---	---	---	---	PASS	T	102270254	T	T	102270254	3	4	74	1	0	0	0	0	1	0	0	0	10854	884	31	2	463	2	OLFM3	1	102270254	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	7741392	102270254	146980367	21	27985										
AKNAD1	254268	broad.mit.edu	37	chr1	109394332	109394332	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttcagtgattttccctttctGctcttgatgttgtttttcaa	6	8	4	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:109394332G>A	uc001dwa.2	-	2	1224	c.955C>T	c.(955-957)CAG>TAG	p.Q319*	AKNAD1_uc010ovb.1_Intron|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	319										ovary(3)	3						TTCCCTTTCTGCTCTTGATGT	0.413													29	174	---	---	---	---	PASS	A	109394332	A	A	109394332	4	1	74	1	0	0	0	0	0	1	0	0	464	1328	46	3	1615	3	AKNAD1	1	109394332	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	7124078	109394332	139856289	22	27986										
CAPZA1	829	broad.mit.edu	37	chr1	113189874	113189874	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcactcatgcacccccagggGaatttaatgaagtattcaat	7	10	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:113189874G>T	uc001ecj.1	+	2	474	c.82G>T	c.(82-84)GAA>TAA	p.E28*		NM_006135	NP_006126	P52907	CAZA1_HUMAN	F-actin capping protein alpha-1 subunit	28					actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement|innate immune response|protein complex assembly	cytosol|extracellular region|F-actin capping protein complex|WASH complex	actin binding				0	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACCCCCAGGGGAATTTAATGA	0.328													50	129	---	---	---	---	PASS	T	113189874	T	T	113189874	4	4	74	1	0	0	0	0	0	1	0	0	2640	1175	41	2	88	2	CAPZA1	1	113189874	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	3795542	113189874	136060747	23	27987										
NOTCH2	4853	broad.mit.edu	37	chr1	120510147	120510147	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tggcactcattgatgtccatCtcacaacgaggtcctgcata	8	12	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:120510147C>G	uc001eik.2	-	8	1618	c.1362G>C	c.(1360-1362)GAG>GAC	p.E454D	NOTCH2_uc001eil.2_Missense_Mutation_p.E454D|NOTCH2_uc001eim.3_Missense_Mutation_p.E371D	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	454	Extracellular (Potential).|EGF-like 11; calcium-binding (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGATGTCCATCTCACAACGAG	0.502			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				30	118	---	---	---	---	PASS	G	120510147	G	G	120510147	3	3	74	1	0	0	0	0	1	0	0	0	10548	912	32	2	6161	2	NOTCH2	1	120510147	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	7320273	120510147	128740474	24	27988										
PDE4DIP	9659	broad.mit.edu	37	chr1	144886112	144886112	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cctacctgatgtgggacactGaggagaatcctgcttcctca	10	12	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:144886112G>A	uc001elw.3	-	23	3413	c.3122C>T	c.(3121-3123)TCA>TTA	p.S1041L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.S1107L|PDE4DIP_uc001elv.3_Missense_Mutation_p.S48L	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1041	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GTGGGACACTGAGGAGAATCC	0.537			T	PDGFRB	MPD								7	187	---	---	---	---	PASS	A	144886112	A	A	144886112	3	1	74	1	0	0	0	0	1	0	0	0	11643	1294	45	2	4006	2	PDE4DIP	1	144886112	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	24375965	144886112	104364509	25	27989										
TARS2	80222	broad.mit.edu	37	chr1	150478153	150478153	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agccggagaatccgccgggcCcagcttgcccactacaattt	10	15	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:150478153C>T	uc001euq.2	+	17	1987	c.1980C>T	c.(1978-1980)GCC>GCT	p.A660A	TARS2_uc001eur.2_Silent_p.A578A|TARS2_uc009wlt.2_Silent_p.A286A|TARS2_uc009wls.2_Silent_p.A530A|ECM1_uc010pce.1_5'Flank|ECM1_uc010pcf.1_5'Flank|ECM1_uc001eus.2_5'Flank|ECM1_uc001eut.2_5'Flank|ECM1_uc001euu.2_5'Flank|ECM1_uc001euv.2_5'Flank|ECM1_uc009wlu.2_5'Flank	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	660					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	TCCGCCGGGCCCAGCTTGCCC	0.557													31	119	---	---	---	---	PASS	T	150478153	T	T	150478153	2	4	74	1	0	0	0	0	0	0	0	1	15557	610	22	3		3	TARS2	1	150478153	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	5592041	150478153	98772468	26	27990										
DCST1	149095	broad.mit.edu	37	chr1	155019728	155019728	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccatgctagcccggcttcttCgaaaaaccattggggccctg	10	14	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:155019728C>T	uc001fgn.1	+	14	1648	c.1552C>T	c.(1552-1554)CGA>TGA	p.R518*	DCST1_uc010pes.1_Nonsense_Mutation_p.R493*|uc001fgo.2_Intron	NM_152494	NP_689707	Q5T197	DCST1_HUMAN	DC-STAMP domain containing 1 isoform 1	518	Extracellular (Potential).					integral to membrane	zinc ion binding			ovary(1)|skin(1)	2	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			CCGGCTTCTTCGAAAAACCAT	0.547													4	109	---	---	---	---	PASS	T	155019728	T	T	155019728	4	4	74	1	0	0	0	0	0	1	0	0	4302	876	31	2	1602	2	DCST1	1	155019728	Nonsense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	4541575	155019728	94230893	27	27991										
MTX1	4580	broad.mit.edu	37	chr1	155180394	155180394	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtcatctcagttccacacaaGatcatcacccaccttcgaaa	4	15	4	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:155180394G>C	uc001fjb.2	+	3	760	c.654G>C	c.(652-654)AAG>AAC	p.K218N	RAG1AP1_uc010pey.1_Intron|THBS3_uc001fix.2_5'Flank|THBS3_uc009wqi.2_5'Flank|THBS3_uc001fiz.2_5'Flank|THBS3_uc001fiy.2_5'Flank|THBS3_uc010pfu.1_5'Flank|THBS3_uc010pfv.1_5'Flank|THBS3_uc001fja.2_5'Flank|THBS3_uc009wqj.1_5'Flank|MTX1_uc001fjc.2_Missense_Mutation_p.K218N	NM_002455	NP_002446	Q13505	MTX1_HUMAN	metaxin 1 isoform 1	218					protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane	protein binding			skin(1)	1	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		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)			TTCCACACAAGATCATCACCC	0.438													9	215	---	---	---	---	PASS	C	155180394	C	C	155180394	3	2	74	1	0	0	0	0	1	0	0	0	9967	933	33	2	664	2	MTX1	1	155180394	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	160666	155180394	94070227	28	27992										
ASH1L	55870	broad.mit.edu	37	chr1	155348296	155348296	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agctcctaagttactcacttGaacgaattttcttatatagt	5	8	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:155348296G>C	uc009wqq.2	-	9	6716	c.6236C>G	c.(6235-6237)TCA>TGA	p.S2079*	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Nonsense_Mutation_p.S2074*	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2079					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TTACTCACTTGAACGAATTTT	0.338													5	109	---	---	---	---	PASS	C	155348296	C	C	155348296	4	2	74	1	0	0	0	0	0	1	0	0	1041	1294	45	2	2753	2	ASH1L	1	155348296	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	167902	155348296	93902325	29	27993										
KIAA0907	22889	broad.mit.edu	37	chr1	155891183	155891183	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tacctgtccagtgctagctgGaggctgcacttgtgttatcg	12	10	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:155891183G>C	uc001fmi.1	-	10	1273	c.1249C>G	c.(1249-1251)CCA>GCA	p.P417A	KIAA0907_uc001fmj.1_Missense_Mutation_p.P417A|KIAA0907_uc009wrk.1_Missense_Mutation_p.P274A|KIAA0907_uc009wrl.1_RNA|SNORA42_uc001fmk.1_5'Flank|KIAA0907_uc001fml.1_Missense_Mutation_p.S383C	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	417	Pro-rich.										0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			GTGCTAGCTGGAGGCTGCACT	0.478													3	115	---	---	---	---	PASS	C	155891183	C	C	155891183	3	2	74	1	0	0	0	0	1	0	0	0	8199	1174	41	2	615	2	KIAA0907	1	155891183	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	542887	155891183	93359438	30	27994										
FCRL2	79368	broad.mit.edu	37	chr1	157738268	157738268	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccgttgtcagctctacagtaAtatttgccggcatcactctc	7	13	4	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:157738268A>T	uc001fre.2	-	5	878	c.819T>A	c.(817-819)TAT>TAA	p.Y273*	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Nonsense_Mutation_p.Y273*|FCRL2_uc009wsp.2_Intron	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	273	Ig-like C2-type 3.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CTCTACAGTAATATTTGCCGG	0.493													40	190	---	---	---	---	PASS	T	157738268	T	T	157738268	4	4	74	1	0	0	0	0	0	1	0	0	5795	108	4	5	739	5	FCRL2	1	157738268	Nonsense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	1847085	157738268	91512353	31	27995										
VANGL2	57216	broad.mit.edu	37	chr1	160385679	160385679	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cctacaagtcgggccactccCgcagctcccgcaagcacagg	10	18	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:160385679C>T	uc001fwb.1	+	3	351	c.52C>T	c.(52-54)CGC>TGC	p.R18C	VANGL2_uc001fwc.1_Missense_Mutation_p.R18C	NM_020335	NP_065068	Q9ULK5	VANG2_HUMAN	vang-like 2	18	Cytoplasmic (Potential).				apical protein localization|heart looping|nonmotile primary cilium assembly	apical plasma membrane|integral to membrane				ovary(1)	1	all_cancers(52;1.08e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GGGCCACTCCCGCAGCTCCCG	0.672													7	66	---	---	---	---	PASS	T	160385679	T	T	160385679	3	4	74	1	0	0	0	0	1	0	0	0	17117	652	23	1	54	1	VANGL2	1	160385679	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2647411	160385679	88864942	32	27996										
CD84	8832	broad.mit.edu	37	chr1	160523878	160523878	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gagcatgtcagtgtgacattAcaggtgctgttcacagatgc	12	8	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:160523878A>G	uc001fwh.3	-	3	471	c.447T>C	c.(445-447)TGT>TGC	p.C149C	CD84_uc001fwf.3_Silent_p.C149C|CD84_uc001fwg.3_Silent_p.C149C|CD84_uc009wtn.2_Silent_p.C149C|CD84_uc001fwi.3_Silent_p.C35C|CD84_uc001fwj.2_Silent_p.C149C|CD84_uc001fwk.2_Silent_p.C149C	NM_003874	NP_003865	Q9UIB8	SLAF5_HUMAN	CD84 molecule	149	Extracellular (Potential).|Ig-like C2-type.				blood coagulation|defense response|homophilic cell adhesion|leukocyte migration	integral to plasma membrane	receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(52;3.62e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			GTGTGACATTACAGGTGCTGT	0.403													49	72	---	---	---	---	PASS	G	160523878	G	G	160523878	2	3	74	1	0	0	0	0	0	0	0	1	3042	389	14	5		5	CD84	1	160523878	Silent	SNP	A	TCGA-34-5928-01A-11D-1817-08	138199	160523878	88726743	33	27997										
ADCY10	55811	broad.mit.edu	37	chr1	167847723	167847723	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aatactgatacaatggtccaGaatctgcaacacctttcata	5	10	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:167847723G>C	uc001ger.2	-	12	1665	c.1367C>G	c.(1366-1368)TCT>TGT	p.S456C	ADCY10_uc009wvk.2_Missense_Mutation_p.S364C|ADCY10_uc010plj.1_Missense_Mutation_p.S303C|ADCY10_uc009wvl.2_Missense_Mutation_p.S455C	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	456					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						CAATGGTCCAGAATCTGCAAC	0.408													14	124	---	---	---	---	PASS	C	167847723	C	C	167847723	3	2	74	1	0	0	0	0	1	0	0	0	293	942	33	2	3553	2	ADCY10	1	167847723	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	7323845	167847723	81402898	34	27998										
F5	2153	broad.mit.edu	37	chr1	169497285	169497285	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtgtaacctcacccactcttGctcatacattttcaggccag	6	14	4	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:169497285G>C	uc001ggg.1	-	17	5612	c.5467C>G	c.(5467-5469)CAA>GAA	p.Q1823E		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1823	F5/8 type A 3.|Plastocyanin-like 6.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	ACCCACTCTTGCTCATACATT	0.458													4	94	---	---	---	---	PASS	C	169497285	C	C	169497285	3	2	74	1	0	0	0	0	1	0	0	0	5348	1328	46	4	1243	4	F5	1	169497285	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1649562	169497285	79753336	35	27999										
PAPPA2	60676	broad.mit.edu	37	chr1	176640118	176640118	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctctctagggcatacatgagTgtgaaggagctgaaggaggc	15	7	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:176640118T>C	uc001gkz.2	+	4	3168	c.2004T>C	c.(2002-2004)AGT>AGC	p.S668S	PAPPA2_uc001gky.1_Silent_p.S668S|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	668	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CATACATGAGTGTGAAGGAGC	0.483													115	220	---	---	---	---	PASS	C	176640118	C	C	176640118	2	2	74	1	0	0	0	0	0	0	0	1	11433	1693	59	5		5	PAPPA2	1	176640118	Silent	SNP	T	TCGA-34-5928-01A-11D-1817-08	7142833	176640118	72610503	36	28000										
CDC73	79577	broad.mit.edu	37	chr1	193111196	193111196	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atcttacaaagcacaggaaaGgtaattaaaatattttactc	5	6	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:193111196G>T	uc001gtb.2	+	7	972	c.729G>T	c.(727-729)AAG>AAT	p.K243N		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	243					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						GCACAGGAAAGGTAATTAAAA	0.398									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				6	31	---	---	---	---	PASS	T	193111196	T	T	193111196	3	4	74	1	0	0	0	0	1	0	0	0	3085	1014	35	3	755	3	CDC73	1	193111196	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	16471078	193111196	56139425	37	28001										
KIF21B	23046	broad.mit.edu	37	chr1	200955982	200955982	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atgatctcacctaatgggctGccctcggtcgtaggacttcc	10	13	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:200955982G>A	uc001gvs.1	-	26	3996	c.3679C>T	c.(3679-3681)CAG>TAG	p.Q1227*	KIF21B_uc001gvr.1_Nonsense_Mutation_p.Q1227*|KIF21B_uc009wzl.1_Nonsense_Mutation_p.Q1227*|KIF21B_uc010ppn.1_Nonsense_Mutation_p.Q1227*	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	1227					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						CTAATGGGCTGCCCTCGGTCG	0.527													13	67	---	---	---	---	PASS	A	200955982	A	A	200955982	4	1	74	1	0	0	0	0	0	1	0	0	8289	1328	46	3	1231	3	KIF21B	1	200955982	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	7844786	200955982	48294639	38	28002										
CYB5R1	51706	broad.mit.edu	37	chr1	202934595	202934595	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctgagacatcttccctccctCaggaaatttggggtgcacac	9	13	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:202934595C>G	uc001gyt.2	-	5	450	c.379G>C	c.(379-381)GAG>CAG	p.E127Q	CYB5R1_uc010pqe.1_RNA	NM_016243	NP_057327	Q9UHQ9	NB5R1_HUMAN	cytochrome b5 reductase 1	127	FAD-binding FR-type.				sterol biosynthetic process	integral to membrane	cytochrome-b5 reductase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(75;0.141)			TTCCCTCCCTCAGGAAATTTG	0.488													6	194	---	---	---	---	PASS	G	202934595	G	G	202934595	3	3	74	1	0	0	0	0	1	0	0	0	4126	835	29	2	558	2	CYB5R1	1	202934595	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1978613	202934595	46316026	39	28003										
PPFIA4	8497	broad.mit.edu	37	chr1	203025937	203025937	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tggaggatcagggcagcaacCccagcagcagcaacagcagc	13	13	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:203025937C>A	uc001gyz.2	+	6	1341	c.748C>A	c.(748-750)CCC>ACC	p.P250T	PPFIA4_uc009xaj.2_Missense_Mutation_p.P881T|PPFIA4_uc010pqf.1_Missense_Mutation_p.P463T|PPFIA4_uc001gza.2_Missense_Mutation_p.P250T|PPFIA4_uc001gzb.1_5'UTR	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	250					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						GGGCAGCAACCCCAGCAGCAG	0.443													13	21	---	---	---	---	PASS	A	203025937	A	A	203025937	3	1	74	1	0	0	0	0	1	0	0	0	12312	623	22	3	770	3	PPFIA4	1	203025937	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	91342	203025937	46224684	40	28004										
USH2A	7399	broad.mit.edu	37	chr1	216074151	216074151	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tctggagttggtatctgggaGagccaggagcgttattacga	15	6	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:216074151G>A	uc001hku.1	-	39	7784	c.7397C>T	c.(7396-7398)TCT>TTT	p.S2466F		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2466	Extracellular (Potential).|Fibronectin type-III 11.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GTATCTGGGAGAGCCAGGAGC	0.507										HNSCC(13;0.011)			20	204	---	---	---	---	PASS	A	216074151	A	A	216074151	3	1	74	1	0	0	0	0	1	0	0	0	17033	942	33	2	8347	2	USH2A	1	216074151	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	13048214	216074151	33176470	41	28005										
TGFB2	7042	broad.mit.edu	37	chr1	218578578	218578578	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tttgacgtctcagcaatggaGaagaatgcttccaatttggt	10	7	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:218578578G>A	uc001hlm.2	+	2	1067	c.414G>A	c.(412-414)GAG>GAA	p.E138E	TGFB2_uc001hll.2_Silent_p.E166E|TGFB2_uc001hln.2_Silent_p.E166E|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	138					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		CAGCAATGGAGAAGAATGCTT	0.423													20	413	---	---	---	---	PASS	A	218578578	A	A	218578578	2	1	74	1	0	0	0	0	0	0	0	1	15815	933	33	2		2	TGFB2	1	218578578	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	2504427	218578578	30672043	42	28006										
MARK1	4139	broad.mit.edu	37	chr1	220791715	220791715	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctgactttggttttagtaatGaatttacagttgggaacaaa	9	4	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:220791715G>A	uc001hmn.3	+	8	1213	c.616G>A	c.(616-618)GAA>AAA	p.E206K	MARK1_uc009xdw.2_Missense_Mutation_p.E206K|MARK1_uc010pun.1_Missense_Mutation_p.E206K|MARK1_uc001hmm.3_Missense_Mutation_p.E184K	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1	206	Protein kinase.				intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		TTTTAGTAATGAATTTACAGT	0.383													6	158	---	---	---	---	PASS	A	220791715	A	A	220791715	3	1	74	1	0	0	0	0	1	0	0	0	9312	1291	45	2	646	2	MARK1	1	220791715	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	2213137	220791715	28458906	43	28007										
DISP1	84976	broad.mit.edu	37	chr1	223176858	223176858	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aagcatctcgaatttttttcGaaaaagtattgccatgcatt	6	7	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:223176858G>A	uc001hnu.1	+	8	2266	c.2119G>A	c.(2119-2121)GAA>AAA	p.E707K		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	707					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		AATTTTTTTCGAAAAAGTATT	0.413													29	222	---	---	---	---	PASS	A	223176858	A	A	223176858	3	1	74	1	0	0	0	0	1	0	0	0	4539	1059	37	2	2145	2	DISP1	1	223176858	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	2385143	223176858	26073763	44	28008										
ENAH	55740	broad.mit.edu	37	chr1	225686076	225686076	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gagctcttcttttagctttgTtaattcttttctcatttcat	4	8	5	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:225686076T>A	uc001hpc.1	-	14	2164	c.1711A>T	c.(1711-1713)ACA>TCA	p.T571S	ENAH_uc001hpd.1_Missense_Mutation_p.T550S|ENAH_uc001hpb.1_Missense_Mutation_p.T190S	NM_001008493	NP_001008493	Q8N8S7	ENAH_HUMAN	enabled homolog isoform a	571	Potential.|EVH2.|EVH2 block C.				axon guidance|intracellular transport|T cell receptor signaling pathway	cytosol|filopodium|focal adhesion|lamellipodium|synapse	actin binding|SH3 domain binding|WW domain binding			ovary(1)|skin(1)	2	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.19)		TTTAGCTTTGTTAATTCTTTT	0.264													4	66	---	---	---	---	PASS	A	225686076	A	A	225686076	3	1	74	1	0	0	0	0	1	0	0	0	5111	1725	60	5	72	5	ENAH	1	225686076	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	2509218	225686076	23564545	45	28009										
ITPKB	3707	broad.mit.edu	37	chr1	226827342	226827342	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtcttcttgaagtcccggttCacggtgccgtcttctttctg	10	12	6	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:226827342C>T	uc010pvo.1	-	6	2809	c.2469G>A	c.(2467-2469)GTG>GTA	p.V823V		NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	823							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				AGTCCCGGTTCACGGTGCCGT	0.557													7	121	---	---	---	---	PASS	T	226827342	T	T	226827342	2	4	74	1	0	0	0	0	0	0	0	1	7918	813	29	2		2	ITPKB	1	226827342	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	1141266	226827342	22423279	46	28010										
ITPKB	3707	broad.mit.edu	37	chr1	226923331	226923331	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cctctgagtcttcgtaggatGaggagaagcccgtggaggag	16	8	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:226923331G>A	uc010pvo.1	-	2	2169	c.1829C>T	c.(1828-1830)TCA>TTA	p.S610L	ITPKB_uc001hqh.2_Missense_Mutation_p.S610L	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	610							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity	p.S137del(1)		ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				TTCGTAGGATGAGGAGAAGCC	0.617													5	207	---	---	---	---	PASS	A	226923331	A	A	226923331	3	1	74	1	0	0	0	0	1	0	0	0	7918	1294	45	2	1039	2	ITPKB	1	226923331	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	95989	226923331	22327290	47	28011										
CDC42BPA	8476	broad.mit.edu	37	chr1	227300016	227300016	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtgaagtcaaaagataccttCagtccctccaattcattttc	5	11	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:227300016C>T	uc001hqr.2	-	14	2941	c.1998G>A	c.(1996-1998)CTG>CTA	p.L666L	CDC42BPA_uc001hqs.2_Silent_p.L585L|CDC42BPA_uc009xes.2_Silent_p.L666L|CDC42BPA_uc010pvs.1_Silent_p.L666L	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	666	Potential.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				AAGATACCTTCAGTCCCTCCA	0.393													7	247	---	---	---	---	PASS	T	227300016	T	T	227300016	2	4	74	1	0	0	0	0	0	0	0	1	3072	813	29	2		2	CDC42BPA	1	227300016	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	376685	227300016	21950605	48	28012										
TRIM11	81559	broad.mit.edu	37	chr1	228594100	228594100	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cggggacagctcgcggcactCggggcacgcgtacgggccct	17	15	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:228594100C>T	uc001hss.2	-	1	418	c.163G>A	c.(163-165)GAG>AAG	p.E55K	TRIM11_uc010pvx.1_Missense_Mutation_p.E55K|TRIM11_uc001hst.1_Missense_Mutation_p.E55K	NM_145214	NP_660215	Q96F44	TRI11_HUMAN	tripartite motif-containing 11	55	RING-type.				response to virus	cytoplasm|nucleus	protein binding|zinc ion binding			lung(3)|ovary(1)	4		Prostate(94;0.0724)				TCGCGGCACTCGGGGCACGCG	0.721													7	9	---	---	---	---	PASS	T	228594100	T	T	228594100	3	4	74	1	0	0	0	0	1	0	0	0	16484	893	31	2	1267	2	TRIM11	1	228594100	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1294084	228594100	20656521	49	28013										
ACTA1	58	broad.mit.edu	37	chr1	229568576	229568576	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caggatacctctcttgctctGagcctcgtcgcccacgtagg	10	15	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:229568576G>A	uc001htm.2	-	3	286	c.181C>T	c.(181-183)CAG>TAG	p.Q61*		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	61					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	CTCTTGCTCTGAGCCTCGTCG	0.577													15	138	---	---	---	---	PASS	A	229568576	A	A	229568576	4	1	74	1	0	0	0	0	0	1	0	0	191	1299	45	2	972	2	ACTA1	1	229568576	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	974476	229568576	19682045	50	28014										
RYR2	6262	broad.mit.edu	37	chr1	237890482	237890482	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gcctgcttccggatggccccCttatataatctgccaaggtc	9	14	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:237890482C>T	uc001hyl.1	+	76	10941	c.10821C>T	c.(10819-10821)CCC>CCT	p.P3607P	RYR2_uc010pya.1_Silent_p.P3P	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3607					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)			GGATGGCCCCCTTATATAATC	0.403													63	65	---	---	---	---	PASS	T	237890482	T	T	237890482	2	4	74	1	0	0	0	0	0	0	0	1	13769	668	24	3		3	RYR2	1	237890482	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	8321906	237890482	11360139	51	28015										
ZNF496	84838	broad.mit.edu	37	chr1	247492815	247492815	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gggttctctccaggtgggctCctcattttcctgggctcctc	11	14	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:247492815C>G	uc001ico.2	-	3	531	c.66G>C	c.(64-66)AGG>AGC	p.R22S	ZNF496_uc009xgv.2_Missense_Mutation_p.R22S|ZNF496_uc001icp.2_Missense_Mutation_p.R22S|ZNF496_uc010pyv.1_Missense_Mutation_p.R22S	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	22					positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			CAGGTGGGCTCCTCATTTTCC	0.647													11	185	---	---	---	---	PASS	G	247492815	G	G	247492815	3	3	74	1	0	0	0	0	1	0	0	0	17942	854	30	2	1725	2	ZNF496	1	247492815	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	9602333	247492815	1757806	52	28016										
OR2M3	127062	broad.mit.edu	37	chr1	248366573	248366573	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctcctcagccaactgtccctCatggacctcatgctcatctg	6	17	5	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:248366573C>T	uc010pzg.1	+	1	204	c.204C>T	c.(202-204)CTC>CTT	p.L68L		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AACTGTCCCTCATGGACCTCA	0.527													148	461	---	---	---	---	PASS	T	248366573	T	T	248366573	2	4	74	1	0	0	0	0	0	0	0	1	11011	813	29	2		2	OR2M3	1	248366573	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	873758	248366573	884048	53	28017										
OR2T33	391195	broad.mit.edu	37	chr1	248436832	248436832	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aggaagaagatctgcacaccAcagccagcgcgggagatggc	14	11	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:248436832A>G	uc010pzi.1	-	1	285	c.285T>C	c.(283-285)TGT>TGC	p.C95C		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	95	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TCTGCACACCACAGCCAGCGC	0.582													20	287	---	---	---	---	PASS	G	248436832	G	G	248436832	2	3	74	1	0	0	0	0	0	0	0	1	11024	157	6	5		5	OR2T33	1	248436832	Silent	SNP	A	TCGA-34-5928-01A-11D-1817-08	70259	248436832	813789	54	28018										
OR2T6	254879	broad.mit.edu	37	chr1	248550988	248550988	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acaataaatgctcaggattcTttttcggtgtcatttgtgcc	8	8	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr1:248550988T>C	uc001iei.1	+	1	79	c.79T>C	c.(79-81)TTT>CTT	p.F27L		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	27	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTCAGGATTCTTTTTCGGTGT	0.443													79	85	---	---	---	---	PASS	C	248550988	C	C	248550988	3	2	74	1	0	0	0	0	1	0	0	0	11029	1609	56	5	81	5	OR2T6	1	248550988	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	114156	248550988	699633	55	28019										
ITSN2	50618	broad.mit.edu	37	chr2	24480961	24480961	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttaagttttctaccacttgtCcctatgaatacaaaaccacc	3	12	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:24480961C>T	uc002rfe.2	-	23	2942	c.2684G>A	c.(2683-2685)GGA>GAA	p.G895E	ITSN2_uc002rff.2_Missense_Mutation_p.G868E|ITSN2_uc002rfg.2_Missense_Mutation_p.G895E|ITSN2_uc002rfh.1_RNA	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	895					endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TACCACTTGTCCCTATGAATA	0.353													44	40	---	---	---	---	PASS	T	24480961	T	T	24480961	3	4	74	1	0	0	0	0	1	0	0	0	7927	869	30	2	2532	2	ITSN2	2	24480961	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08		24480961	218718412	56	28020										
ADCY3	109	broad.mit.edu	37	chr2	25141765	25141765	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tttcatgggtccggcccaccCcgcggtcagggtcggagggc	16	14	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:25141765C>G	uc002rfs.3	-	1	291	c.92G>C	c.(91-93)GGG>GCG	p.G31A	ADCY3_uc010ykm.1_Missense_Mutation_p.G31A	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	31	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					CCGGCCCACCCCGCGGTCAGG	0.552													27	19	---	---	---	---	PASS	G	25141765	G	G	25141765	3	3	74	1	0	0	0	0	1	0	0	0	295	623	22	4	3426	4	ADCY3	2	25141765	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	660804	25141765	218057608	57	28021										
CENPA	1058	broad.mit.edu	37	chr2	27015048	27015048	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agacaaggttggctaaaggaGatccgaaagcttcagaagag	13	6	1	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:27015048G>C	uc002rhr.2	+	2	333	c.150G>C	c.(148-150)GAG>GAC	p.E50D	CENPA_uc002rht.2_RNA|CENPA_uc002rhs.2_Missense_Mutation_p.E50D	NM_001809	NP_001800	P49450	CENPA_HUMAN	centromere protein A isoform a	50	H3-like.				CenH3-containing nucleosome assembly at centromere|establishment of mitotic spindle orientation|interspecies interaction between organisms|kinetochore assembly|mitotic prometaphase|protein localization to chromosome, centromeric region	condensed nuclear chromosome kinetochore|cytosol|nucleoplasm|nucleosome	chromatin binding|DNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCTAAAGGAGATCCGAAAGC	0.547													4	74	---	---	---	---	PASS	C	27015048	C	C	27015048	3	2	74	1	0	0	0	0	1	0	0	0	3226	933	33	2	156	2	CENPA	2	27015048	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1873283	27015048	216184325	58	28022										
SLC30A3	7781	broad.mit.edu	37	chr2	27481676	27481676	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gcacaggcagcatatagctgCctccgtgcatgcagcctctc	10	15	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:27481676C>A	uc002rjk.2	-	2	408	c.222G>T	c.(220-222)AGG>AGT	p.R74S	SLC30A3_uc002rjj.2_5'Flank|SLC30A3_uc010ylh.1_Missense_Mutation_p.R69S	NM_003459	NP_003450	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter),	74	Cytoplasmic (Potential).				regulation of sequestering of zinc ion	cell junction|integral to plasma membrane|late endosome|membrane fraction|synaptic vesicle membrane	zinc transporting ATPase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CATATAGCTGCCTCCGTGCAT	0.602													29	82	---	---	---	---	PASS	A	27481676	A	A	27481676	3	1	74	1	0	0	0	0	1	0	0	0	14556	738	26	3	972	3	SLC30A3	2	27481676	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	466628	27481676	215717697	59	28023										
NRBP1	29959	broad.mit.edu	37	chr2	27657418	27657418	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aaaaagaaccacaagacgatGaatgaaaaggtatagaagga	10	4	0	5			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:27657418G>C	uc002rko.2	+	6	1348	c.516G>C	c.(514-516)ATG>ATC	p.M172I	NRBP1_uc002rkq.2_Missense_Mutation_p.M172I|NRBP1_uc002rkp.2_Missense_Mutation_p.M172I|NRBP1_uc002rkr.2_5'Flank	NM_013392	NP_037524	Q9UHY1	NRBP_HUMAN	nuclear receptor binding protein	172	Protein kinase.				ER to Golgi vesicle-mediated transport|gene expression|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cell cortex|endomembrane system|lamellipodium|membrane|nucleoplasm	ATP binding|protein homodimerization activity|protein kinase activity			ovary(2)|lung(1)	3	Acute lymphoblastic leukemia(172;0.155)					ACAAGACGATGAATGAAAAGG	0.408													15	157	---	---	---	---	PASS	C	27657418	C	C	27657418	3	2	74	1	0	0	0	0	1	0	0	0	10642	1290	45	2	530	2	NRBP1	2	27657418	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	175742	27657418	215541955	60	28024										
NLRC4	58484	broad.mit.edu	37	chr2	32449811	32449811	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caactgctggaagtttttcaGagggttctttccaaaaaatg	9	7	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:32449811G>A	uc002roi.2	-	9	3052	c.2806C>T	c.(2806-2808)CTG>TTG	p.L936L	NLRC4_uc002roj.1_Silent_p.L936L|NLRC4_uc010ezt.1_Silent_p.L271L	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	936	LRR 12.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					AAGTTTTTCAGAGGGTTCTTT	0.338													14	57	---	---	---	---	PASS	A	32449811	A	A	32449811	2	1	74	1	0	0	0	0	0	0	0	1	10469	933	33	2		2	NLRC4	2	32449811	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	4792393	32449811	210749562	61	28025										
BIRC6	57448	broad.mit.edu	37	chr2	32734914	32734914	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atctgctgcagacttgtgcgGccttattgatgtcaccttac	9	11	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:32734914G>T	uc010ezu.2	+	52	10224	c.10090G>T	c.(10090-10092)GCC>TCC	p.A3364S		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3364					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)					GACTTGTGCGGCCTTATTGAT	0.448													71	225	---	---	---	---	PASS	T	32734914	T	T	32734914	3	4	74	1	0	0	0	0	1	0	0	0	1438	1203	42	3	10296	3	BIRC6	2	32734914	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	285103	32734914	210464459	62	28026										
VIT	5212	broad.mit.edu	37	chr2	37002179	37002179	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gatccttcaggagctgccttCcagaaacctgttggagcgga	12	11	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:37002179C>G	uc002rpl.2	+	9	992	c.771C>G	c.(769-771)TTC>TTG	p.F257L	VIT_uc002rpm.2_Missense_Mutation_p.F250L|VIT_uc010ezv.2_Intron|VIT_uc010ezw.2_Missense_Mutation_p.F250L	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	257						proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				GAGCTGCCTTCCAGAAACCTG	0.507													13	109	---	---	---	---	PASS	G	37002179	G	G	37002179	3	3	74	1	0	0	0	0	1	0	0	0	17168	854	30	2	926	2	VIT	2	37002179	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	4267265	37002179	206197194	63	28027										
PPM1B	5495	broad.mit.edu	37	chr2	44428720	44428720	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cagacctcagaaacgggatgGacaggagtggttcaactgca	13	9	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:44428720G>C	uc002rtt.2	+	2	810	c.382G>C	c.(382-384)GAC>CAC	p.D128H	PPM1B_uc002rts.2_Missense_Mutation_p.D128H|PPM1B_uc002rtu.2_Missense_Mutation_p.D128H|PPM1B_uc002rtv.2_Intron|PPM1B_uc002rtw.2_Missense_Mutation_p.D128H|PPM1B_uc002rtx.2_Missense_Mutation_p.D128H	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	128					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				AAACGGGATGGACAGGAGTGG	0.393													9	120	---	---	---	---	PASS	C	44428720	C	C	44428720	3	2	74	1	0	0	0	0	1	0	0	0	12336	1174	41	2	384	2	PPM1B	2	44428720	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	7426541	44428720	198770653	64	28028										
MTIF2	4528	broad.mit.edu	37	chr2	55490959	55490959	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctataaatagtgtgaaatcgTagcaagttctccaacttcag	7	8	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:55490959T>A	uc002ryn.2	-	5	773	c.36A>T	c.(34-36)CTA>CTT	p.L12L	MTIF2_uc010yox.1_5'UTR|MTIF2_uc002ryo.2_Silent_p.L12L|MTIF2_uc002ryp.1_RNA	NM_001005369	NP_001005369	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	12					regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1						TGTGAAATCGTAGCAAGTTCT	0.363													47	216	---	---	---	---	PASS	A	55490959	A	A	55490959	2	1	74	1	0	0	0	0	0	0	0	1	9934	1625	57	5		5	MTIF2	2	55490959	Silent	SNP	T	TCGA-34-5928-01A-11D-1817-08	11062239	55490959	187708414	65	28029										
VRK2	7444	broad.mit.edu	37	chr2	58275961	58275961	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tctcaccccttctgccaacaGaagtgatgccaccaaaaaga	6	14	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:58275961G>C	uc002rzo.2	+	5	741	c.-4_splice	c.e5-1		VRK2_uc010fcb.2_Splice_Site|VRK2_uc002rzs.2_Splice_Site|VRK2_uc002rzr.2_Splice_Site|VRK2_uc010fcc.2_Splice_Site|VRK2_uc002rzv.2_Splice_Site|VRK2_uc010fcd.2_Intron|VRK2_uc002rzp.2_Splice_Site|VRK2_uc010ypg.1_Splice_Site|VRK2_uc002rzq.2_Splice_Site|VRK2_uc002rzu.2_Splice_Site|VRK2_uc002rzt.2_Splice_Site	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2							integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						TCTGCCAACAGAAGTGATGCC	0.383													4	67	---	---	---	---	PASS	C	58275961	C	C	58275961	5	2	74	1	0	0	0	0	0	0	1	0	17217	956	33	2		2	VRK2	2	58275961	Splice_Site	SNP	G	TCGA-34-5928-01A-11D-1817-08	2785002	58275961	184923412	66	28030										
KIAA1841	84542	broad.mit.edu	37	chr2	61297594	61297594	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tccctcagactatcaactggGaaactatagcaaggctcgtg	9	11	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:61297594G>A	uc002saw.3	+	3	412	c.109G>A	c.(109-111)GAA>AAA	p.E37K	KIAA1841_uc002sax.3_5'UTR|KIAA1841_uc002say.2_Missense_Mutation_p.E37K|KIAA1841_uc002sav.3_Missense_Mutation_p.E37K	NM_001129993	NP_001123465	Q6NSI8	K1841_HUMAN	KIAA1841 protein isoform a	37											0			Epithelial(17;0.193)			TATCAACTGGGAAACTATAGC	0.368													31	117	---	---	---	---	PASS	A	61297594	A	A	61297594	3	1	74	1	0	0	0	0	1	0	0	0	8261	1175	41	2	111	2	KIAA1841	2	61297594	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	3021633	61297594	181901779	67	28031										
UGP2	7360	broad.mit.edu	37	chr2	64113547	64113547	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aagtgccaaaagcacatgtaGacgagttcaagtctgtatca	9	8	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:64113547G>C	uc002scm.2	+	7	1252	c.946G>C	c.(946-948)GAC>CAC	p.D316H	UGP2_uc002scl.2_Missense_Mutation_p.D305H|UGP2_uc010ypx.1_Missense_Mutation_p.D325H	NM_006759	NP_006750	Q16851	UGPA_HUMAN	UDP-glucose pyrophosphorylase 2 isoform a	316					glycogen biosynthetic process|phosphorylation|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	metal ion binding|protein binding|UTP:glucose-1-phosphate uridylyltransferase activity				0						AGCACATGTAGACGAGTTCAA	0.408													7	219	---	---	---	---	PASS	C	64113547	C	C	64113547	3	2	74	1	0	0	0	0	1	0	0	0	16940	942	33	2	972	2	UGP2	2	64113547	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	2815953	64113547	179085826	68	28032										
SERTAD2	9792	broad.mit.edu	37	chr2	64863520	64863520	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aaactgtccttttctggcaaGagggctggaggtgacagttt	13	7	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:64863520G>C	uc002sde.1	-	2	783	c.486C>G	c.(484-486)CTC>CTG	p.L162L		NM_014755	NP_055570	Q14140	SRTD2_HUMAN	SERTA domain containing 2	162					negative regulation of cell growth|transcription, DNA-dependent	cytoplasm|nucleus					0						TTTCTGGCAAGAGGGCTGGAG	0.617													9	108	---	---	---	---	PASS	C	64863520	C	C	64863520	2	2	74	1	0	0	0	0	0	0	0	1	14121	929	33	2		2	SERTAD2	2	64863520	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	749973	64863520	178335853	69	28033										
NAGK	55577	broad.mit.edu	37	chr2	71305464	71305464	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccaggttttcttctggcgctGacccagggcagagagatcca	12	12	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:71305464G>A	uc002shp.3	+	10	1267	c.861G>A	c.(859-861)CTG>CTA	p.L287L	NAGK_uc010fea.2_RNA|NAGK_uc002shq.3_Silent_p.L138L|NAGK_uc002shr.2_Silent_p.L236L	NM_017567	NP_060037	Q9UJ70	NAGK_HUMAN	N-Acetylglucosamine kinase	287					N-acetylglucosamine metabolic process|N-acetylmannosamine metabolic process		ATP binding|N-acetylglucosamine kinase activity|protein binding				0					N-Acetyl-D-glucosamine(DB00141)	TTCTGGCGCTGACCCAGGGCA	0.582													11	63	---	---	---	---	PASS	A	71305464	A	A	71305464	2	1	74	1	0	0	0	0	0	0	0	1	10142	1277	45	2		2	NAGK	2	71305464	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	6441944	71305464	171893909	70	28034										
SPR	6697	broad.mit.edu	37	chr2	73115537	73115537	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aacttgacctccatgctctgCctgacttccagcgtcctgaa	7	15	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:73115537C>T	uc002sik.2	+	2	449	c.399C>T	c.(397-399)TGC>TGT	p.C133C		NM_003124	NP_003115	P35270	SPRE_HUMAN	sepiapterin reductase	133					nitric oxide biosynthetic process|tetrahydrobiopterin biosynthetic process	cytoplasm	aldo-keto reductase (NADP) activity|NADP binding|sepiapterin reductase activity			ovary(2)	2						CCATGCTCTGCCTGACTTCCA	0.547											OREG0014704	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	47	82	---	---	---	---	PASS	T	73115537	T	T	73115537	2	4	74	1	0	0	0	0	0	0	0	1	15090	747	26	3		3	SPR	2	73115537	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	1810073	73115537	170083836	71	28035										
ALMS1	7840	broad.mit.edu	37	chr2	73829327	73829327	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tttaggaatcgcttcagtttCacagacctgacttcatctcc	6	12	4	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:73829327C>G	uc002sje.1	+	22	12244	c.12133C>G	c.(12133-12135)CAC>GAC	p.H4045D	ALMS1_uc002sjf.1_Missense_Mutation_p.H4001D|ALMS1_uc002sjh.1_Missense_Mutation_p.H3431D	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	4043					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GCTTCAGTTTCACAGACCTGA	0.483													10	39	---	---	---	---	PASS	G	73829327	G	G	73829327	3	3	74	1	0	0	0	0	1	0	0	0	535	826	29	2	12205	2	ALMS1	2	73829327	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	713790	73829327	169370046	72	28036										
SEMA4F	10505	broad.mit.edu	37	chr2	74901714	74901714	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccagggcctgagcatggccgGgcctccagtgtcctgcagga	15	14	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:74901714G>T	uc002sna.1	+	8	1023	c.912G>T	c.(910-912)CGG>CGT	p.R304R	SEMA4F_uc010ffq.1_Silent_p.R271R|SEMA4F_uc010ffr.1_5'UTR|SEMA4F_uc002snb.1_5'UTR|SEMA4F_uc002snc.1_Silent_p.R149R	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	304	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						AGCATGGCCGGGCCTCCAGTG	0.602													78	79	---	---	---	---	PASS	T	74901714	T	T	74901714	2	4	74	1	0	0	0	0	0	0	0	1	14035	1219	43	3		3	SEMA4F	2	74901714	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	1072387	74901714	168297659	73	28037										
LRRTM4	80059	broad.mit.edu	37	chr2	77746836	77746836	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gaaatgttctcagggatatcTgcgaaagcatgagactcaca	10	8	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:77746836T>G	uc002snr.2	-	3	574	c.159A>C	c.(157-159)GCA>GCC	p.A53A	LRRTM4_uc002snq.2_Silent_p.A53A|LRRTM4_uc002sns.2_Silent_p.A53A|LRRTM4_uc002snt.2_Silent_p.A54A	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	53	Extracellular (Potential).|LRRNT.					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		CAGGGATATCTGCGAAAGCAT	0.468													58	51	---	---	---	---	PASS	G	77746836	G	G	77746836	2	3	74	1	0	0	0	0	0	0	0	1	9042	1567	55	5		5	LRRTM4	2	77746836	Silent	SNP	T	TCGA-34-5928-01A-11D-1817-08	2845122	77746836	165452537	74	28038										
REG1B	5968	broad.mit.edu	37	chr2	79312344	79312344	+	Nonstop_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tccatttttcagcttcctctAgtttttgaacttgcaaacaa	4	10	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:79312344A>T	uc002sny.2	-	6	611	c.499T>A	c.(499-501)TAG>AAG	p.*167K		NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	167					cell proliferation	extracellular region	sugar binding	p.*167*(1)		central_nervous_system(1)|skin(1)	2						AGCTTCCTCTAGTTTTTGAAC	0.378													15	63	---	---	---	---	PASS	T	79312344	T	T	79312344	4	4	74	1	0	0	0	0	0	0	0	0	13211	433	15	5	5	5	REG1B	2	79312344	Nonstop_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	1565508	79312344	163887029	75	28039										
REG3A	5068	broad.mit.edu	37	chr2	79385464	79385464	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	actggcacctgtgtggggtcAtggagcccaatccagacgta	13	11	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:79385464A>G	uc002sod.1	-	3	576	c.321T>C	c.(319-321)CAT>CAC	p.H107H	REG3A_uc002soe.1_Silent_p.H107H|REG3A_uc002sof.1_Silent_p.H107H	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	107	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						GTGTGGGGTCATGGAGCCCAA	0.572													29	36	---	---	---	---	PASS	G	79385464	G	G	79385464	2	3	74	1	0	0	0	0	0	0	0	1	13212	214	8	5		5	REG3A	2	79385464	Silent	SNP	A	TCGA-34-5928-01A-11D-1817-08	73120	79385464	163813909	76	28040										
CTNNA2	1496	broad.mit.edu	37	chr2	80816495	80816495	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agcaggtggagatattccatCaagagaaaagcaagctggat	12	6	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:80816495C>G	uc010ysh.1	+	14	2079	c.2074C>G	c.(2074-2076)CAA>GAA	p.Q692E	CTNNA2_uc010yse.1_Missense_Mutation_p.Q692E|CTNNA2_uc010ysf.1_Missense_Mutation_p.Q692E|CTNNA2_uc010ysg.1_Missense_Mutation_p.Q692E|CTNNA2_uc010ysi.1_Missense_Mutation_p.Q324E|CTNNA2_uc010ysj.1_Missense_Mutation_p.Q21E	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	692					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GATATTCCATCAAGAGAAAAG	0.488													12	61	---	---	---	---	PASS	G	80816495	G	G	80816495	3	3	74	1	0	0	0	0	1	0	0	0	4013	827	29	2	1920	2	CTNNA2	2	80816495	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1431031	80816495	162382878	77	28041										
TGOLN2	10618	broad.mit.edu	37	chr2	85554352	85554352	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tggtctgcgcctccgaacctGacttgctagggctgtctttt	11	12	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:85554352G>A	uc010fgd.1	-	2	792	c.503C>T	c.(502-504)TCA>TTA	p.S168L	TGOLN2_uc002soz.2_Missense_Mutation_p.S168L|TGOLN2_uc002spa.2_RNA|TGOLN2_uc002spb.2_Missense_Mutation_p.S168L|TGOLN2_uc002spc.1_Missense_Mutation_p.S168L	NM_006464	NP_006455	O43493	TGON2_HUMAN	trans-golgi network protein 2	168	Extracellular (Potential).|14 X 14 AA tandem repeats.|9.					integral to membrane|nucleus|plasma membrane|trans-Golgi network|transport vesicle	protein binding				0						CTCCGAACCTGACTTGCTAGG	0.607													90	397	---	---	---	---	PASS	A	85554352	A	A	85554352	3	1	74	1	0	0	0	0	1	0	0	0	15833	1294	45	2	822	2	TGOLN2	2	85554352	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	4737857	85554352	157645021	78	28042										
ST3GAL5	8869	broad.mit.edu	37	chr2	86090519	86090519	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	taataacaagctgggccttcTcatcttgctttgagctcggg	10	10	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:86090519T>A	uc002sqq.1	-	2	301	c.172A>T	c.(172-174)AGA>TGA	p.R58*	ST3GAL5_uc010ysy.1_Nonsense_Mutation_p.R58*|ST3GAL5_uc010ysz.1_Nonsense_Mutation_p.R58*|ST3GAL5_uc010fgq.1_5'Flank|ST3GAL5_uc002sqp.1_Nonsense_Mutation_p.R35*	NM_003896	NP_003887	Q9UNP4	SIAT9_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	58	Cytoplasmic (Potential).				ganglioside biosynthetic process|protein glycosylation	integral to Golgi membrane|integral to plasma membrane	lactosylceramide alpha-2,3-sialyltransferase activity|neolactotetraosylceramide alpha-2,3-sialyltransferase activity				0						CTGGGCCTTCTCATCTTGCTT	0.483													34	63	---	---	---	---	PASS	A	86090519	A	A	86090519	4	1	74	1	0	0	0	0	0	1	0	0	15217	1559	54	5	1108	5	ST3GAL5	2	86090519	Nonsense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	536167	86090519	157108854	79	28043										
POU3F3	5455	broad.mit.edu	37	chr2	105473021	105473021	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttggcgctgggcacactctaCggcaacgtgttctcgcagac	12	13	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:105473021C>A	uc010ywg.1	+	1	1053	c.1053C>A	c.(1051-1053)TAC>TAA	p.Y351*		NM_006236	NP_006227	P20264	PO3F3_HUMAN	POU class 3 homeobox 3	351	POU-specific.				metanephric ascending thin limb development|metanephric DCT cell differentiation|metanephric macula densa development|metanephric thick ascending limb development|negative regulation of apoptosis|positive regulation of cell proliferation	nucleus	sequence-specific DNA binding			ovary(1)	1						GCACACTCTACGGCAACGTGT	0.622													39	57	---	---	---	---	PASS	A	105473021	A	A	105473021	4	1	74	1	0	0	0	0	0	1	0	0	12276	547	19	1	1055	1	POU3F3	2	105473021	Nonsense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	19382502	105473021	137726352	80	28044										
TGFBRAP1	9392	broad.mit.edu	37	chr2	105915078	105915078	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	catcgagcgctatgacgtatGgaaaggacacagccgcccca	11	13	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:105915078G>A	uc002tcq.2	-	3	857	c.773C>T	c.(772-774)CCA>CTA	p.P258L	TGFBRAP1_uc010fjc.2_Missense_Mutation_p.P28L|TGFBRAP1_uc002tcr.3_Missense_Mutation_p.P258L	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	258	CNH.				regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						TATGACGTATGGAAAGGACAC	0.537													8	88	---	---	---	---	PASS	A	105915078	A	A	105915078	3	1	74	1	0	0	0	0	1	0	0	0	15821	1348	47	3	1849	3	TGFBRAP1	2	105915078	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	442057	105915078	137284295	81	28045										
SULT1C2	6819	broad.mit.edu	37	chr2	108921111	108921111	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgaaccacatgcttcctgacCctggtacctgggaagagtat	10	11	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:108921111C>A	uc002tdy.2	+	5	910	c.457C>A	c.(457-459)CCT>ACT	p.P153T	SULT1C2_uc010ywp.1_Missense_Mutation_p.P68T|SULT1C2_uc002tdx.2_Missense_Mutation_p.P164T|SULT1C2_uc010ywq.1_Missense_Mutation_p.P167T	NM_001056	NP_001047	O00338	ST1C2_HUMAN	sulfotransferase family, cytosolic, 1C, member 1	153					3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine metabolic process|sulfation|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	sulfotransferase activity			ovary(1)	1						GCTTCCTGACCCTGGTACCTG	0.453													31	126	---	---	---	---	PASS	A	108921111	A	A	108921111	3	1	74	1	0	0	0	0	1	0	0	0	15374	623	22	3	570	3	SULT1C2	2	108921111	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	3006033	108921111	134278262	82	28046										
RANBP2	5903	broad.mit.edu	37	chr2	109380371	109380371	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agcaaaagaattctggttttCggcgaagtgatgatatgttt	11	4	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:109380371C>T	uc002tem.3	+	20	3502	c.3376C>T	c.(3376-3378)CGG>TGG	p.R1126W		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1126					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TTCTGGTTTTCGGCGAAGTGA	0.403													17	100	---	---	---	---	PASS	T	109380371	T	T	109380371	3	4	74	1	0	0	0	0	1	0	0	0	13028	875	31	2	3454	2	RANBP2	2	109380371	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	459260	109380371	133819002	83	28047										
RANBP2	5903	broad.mit.edu	37	chr2	109383184	109383184	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttggggaacttaaaaattctCaaaaacgaggtcaatggcaa	9	6	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:109383184C>G	uc002tem.3	+	20	6315	c.6189C>G	c.(6187-6189)CTC>CTG	p.L2063L		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2063	RanBD1 2.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TAAAAATTCTCAAAAACGAGG	0.388													139	316	---	---	---	---	PASS	G	109383184	G	G	109383184	2	3	74	1	0	0	0	0	0	0	0	1	13028	813	29	2		2	RANBP2	2	109383184	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	2813	109383184	133816189	84	28048										
CXCR4	7852	broad.mit.edu	37	chr2	136873426	136873426	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcacggaaacagggttccttCatggagtcatagtcccctga	10	11	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:136873426C>T	uc002tuz.2	-	2	167	c.72G>A	c.(70-72)ATG>ATA	p.M24I	CXCR4_uc002tuy.2_Missense_Mutation_p.M28I|CXCR4_uc010fnk.2_Missense_Mutation_p.M9I	NM_003467	NP_003458	P61073	CXCR4_HUMAN	chemokine (C-X-C motif) receptor 4 isoform b	24	Extracellular.				activation of MAPK activity|apoptosis|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|inflammatory response|initiation of viral infection|regulation of chemotaxis|response to hypoxia|response to virus	cell leading edge|cell surface|cytoplasmic membrane-bounded vesicle|integral to membrane|plasma membrane	actin binding|C-X-C chemokine receptor activity|coreceptor activity|myosin light chain binding|ubiquitin binding|ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.155)	Framycetin(DB00452)	AGGGTTCCTTCATGGAGTCAT	0.428													37	97	---	---	---	---	PASS	T	136873426	T	T	136873426	3	4	74	1	0	0	0	0	1	0	0	0	4093	826	29	2	990	2	CXCR4	2	136873426	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	27490242	136873426	106325947	85	28049										
LRP1B	53353	broad.mit.edu	37	chr2	141032120	141032120	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acattcaacacttccatcatCcccaatggtacatgattcag	4	13	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:141032120C>A	uc002tvj.1	-	85	13987	c.13015G>T	c.(13015-13017)GAT>TAT	p.D4339Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4339	Extracellular (Potential).|EGF-like 13.				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)		CTTCCATCATCCCCAATGGTA	0.408										TSP Lung(27;0.18)			13	67	---	---	---	---	PASS	A	141032120	A	A	141032120	3	1	74	1	0	0	0	0	1	0	0	0	8955	855	30	2	812	2	LRP1B	2	141032120	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	4158694	141032120	102167253	86	28050										
LRP1B	53353	broad.mit.edu	37	chr2	141272243	141272243	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acaaatgctgtcactttcatCtaacccatccccacagtcat	3	15	4	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:141272243C>G	uc002tvj.1	-	51	9220	c.8248G>C	c.(8248-8250)GAT>CAT	p.D2750H		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2750	Extracellular (Potential).|LDL-receptor class A 16.				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)		TCACTTTCATCTAACCCATCC	0.353										TSP Lung(27;0.18)			21	54	---	---	---	---	PASS	G	141272243	G	G	141272243	3	3	74	1	0	0	0	0	1	0	0	0	8955	913	32	2	5715	2	LRP1B	2	141272243	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	240123	141272243	101927130	87	28051										
NEB	4703	broad.mit.edu	37	chr2	152544034	152544034	+	Nonsense_Mutation	SNP	T	A	A													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tttgctcttttcatagtcttTcttgtacatcacctgcaaag							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:152544034T>A	uc010fnx.2	-	27	2727	c.2536A>T	c.(2536-2538)AAA>TAA	p.K846*		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	846	Nebulin 19.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCATAGTCTTTCTTGTACATC	0.502													9	149	---	---	---	---	PASS	A	152544034	A	A	152544034	4	1	74	1	0	0	0	0	0	1	0	0	10302	1792	62	5	23774	5	NEB	2	152544034	Nonsense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	11271791	152544034	90655339	88	28052	585	2								
NEB	4703	broad.mit.edu	37	chr2	152544035	152544035	+	Silent	SNP	C	T	T													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttgctcttttcatagtctttCttgtacatcacctgcaaaga							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:152544035C>T	uc010fnx.2	-	27	2726	c.2535G>A	c.(2533-2535)AAG>AAA	p.K845K		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	845	Nebulin 19.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CATAGTCTTTCTTGTACATCA	0.507													10	146	---	---	---	---	PASS	T	152544035	T	T	152544035	2	4	74	1	0	0	0	0	0	0	0	1	10302	912	32	2		2	NEB	2	152544035	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	1	152544035	90655338	89	28053	585	2								
CYBRD1	79901	broad.mit.edu	37	chr2	172398276	172398276	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctgcacagctgggttggactGatagctgtcatatgctattt	11	8	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:172398276G>C	uc002ugy.3	+	2	565	c.375G>C	c.(373-375)CTG>CTC	p.L125L	CYBRD1_uc002ugz.3_Intron	NM_024843	NP_079119	Q53TN4	CYBR1_HUMAN	cytochrome b reductase 1 isoform 1	125	Helical; Name=4; (Potential).|Cytochrome b561.				cellular iron ion homeostasis|electron transport chain|transmembrane transport	integral to membrane	ferric-chelate reductase activity|metal ion binding				0						GGGTTGGACTGATAGCTGTCA	0.353													14	83	---	---	---	---	PASS	C	172398276	C	C	172398276	2	2	74	1	0	0	0	0	0	0	0	1	4134	1277	45	2		2	CYBRD1	2	172398276	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	19854241	172398276	70801097	90	28054										
PDE11A	50940	broad.mit.edu	37	chr2	178936577	178936577	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgacgctcattatgctttttCagatggcacttgtagtcgat	9	8	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:178936577C>T	uc002ulq.2	-	1	906	c.588G>A	c.(586-588)CTG>CTA	p.L196L	PDE11A_uc002ulr.2_Intron|PDE11A_uc002ult.1_Intron	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	196					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TATGCTTTTTCAGATGGCACT	0.498									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				31	92	---	---	---	---	PASS	T	178936577	T	T	178936577	2	4	74	1	0	0	0	0	0	0	0	1	11631	813	29	2		2	PDE11A	2	178936577	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	6538301	178936577	64262796	91	28055										
TTN	7273	broad.mit.edu	37	chr2	179425922	179425922	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttcagtaagttcagttacttCaaagtatgtttcttgtatat	6	5	4	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:179425922C>G	uc010zfg.1	-	275	77457	c.77233G>C	c.(77233-77235)GAA>CAA	p.E25745Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E19440Q|TTN_uc010zfi.1_Missense_Mutation_p.E19373Q|TTN_uc010zfj.1_Missense_Mutation_p.E19248Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26672							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)			TCAGTTACTTCAAAGTATGTT	0.428													9	73	---	---	---	---	PASS	G	179425922	G	G	179425922	3	3	74	1	0	0	0	0	1	0	0	0	16732	835	29	2	23190	2	TTN	2	179425922	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	489345	179425922	63773451	92	28056										
TTN	7273	broad.mit.edu	37	chr2	179477509	179477509	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gagtgacttacatagcttctCccggcaaagcacagggtcac	10	12	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:179477509C>G	uc010zfg.1	-	214	42459	c.42235G>C	c.(42235-42237)GAG>CAG	p.E14079Q	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E7774Q|TTN_uc010zfi.1_Missense_Mutation_p.E7707Q|TTN_uc010zfj.1_Missense_Mutation_p.E7582Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15006							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)			CATAGCTTCTCCCGGCAAAGC	0.423													7	35	---	---	---	---	PASS	G	179477509	G	G	179477509	3	3	74	1	0	0	0	0	1	0	0	0	16732	864	30	2	58146	2	TTN	2	179477509	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	51587	179477509	63721864	93	28057										
TTN	7273	broad.mit.edu	37	chr2	179591986	179591986	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggaagttcatgttcatttcgGaaccacacaactctgatttc	7	10	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:179591986G>T	uc010zfg.1	-	66	16598	c.16374C>A	c.(16372-16374)TTC>TTA	p.F5458L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.F2119L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6385							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)			GTTCATTTCGGAACCACACAA	0.423													21	46	---	---	---	---	PASS	T	179591986	T	T	179591986	3	4	74	1	0	0	0	0	1	0	0	0	16732	1165	41	2	84599	2	TTN	2	179591986	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	114477	179591986	63607387	94	28058										
TTN	7273	broad.mit.edu	37	chr2	179604792	179604792	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tttcaggtttaatctctgctCttctggaataccagaaagca	7	9	4	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:179604792C>G	uc010zfh.1	-	46	12879	c.12655G>C	c.(12655-12657)GAG>CAG	p.E4219Q	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.E4152Q|TTN_uc010zfj.1_Missense_Mutation_p.E4027Q|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			AATCTCTGCTCTTCTGGAATA	0.468													26	61	---	---	---	---	PASS	G	179604792	G	G	179604792	3	3	74	1	0	0	0	0	1	0	0	0	16732	922	32	2	91621	2	TTN	2	179604792	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	12806	179604792	63594581	95	28059										
COL5A2	1290	broad.mit.edu	37	chr2	189922123	189922123	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aagacctggtgggcctgtatCtccaggggtcccagatggac	14	11	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:189922123C>T	uc002uqk.2	-	34	2535	c.2260G>A	c.(2260-2262)GAT>AAT	p.D754N	COL5A2_uc010frx.2_Missense_Mutation_p.D330N	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	754					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			GGGCCTGTATCTCCAGGGGTC	0.393													6	93	---	---	---	---	PASS	T	189922123	T	T	189922123	3	4	74	1	0	0	0	0	1	0	0	0	3697	913	32	2	2323	2	COL5A2	2	189922123	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	10317331	189922123	53277250	96	28060										
ANKAR	150709	broad.mit.edu	37	chr2	190569858	190569858	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gaaaaaagaggctggatgccGattcactttgccgctttcta	10	9	2	1	rs145408486	byFrequency	TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:190569858G>A	uc002uqw.1	+	7	1605	c.1605G>A	c.(1603-1605)CCG>CCA	p.P535P	ANKAR_uc002uqu.2_RNA	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	606	ANK 3.					integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			GCTGGATGCCGATTCACTTTG	0.443													40	79	---	---	---	---	PASS	A	190569858	A	A	190569858	2	1	74	1	0	0	0	0	0	0	0	1	623	1045	37	2		2	ANKAR	2	190569858	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	647735	190569858	52629515	97	28061										
FAM126B	285172	broad.mit.edu	37	chr2	201846388	201846388	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cttgcgaactactgaatctcGagggctctcactggatttga	10	10	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:201846388G>A	uc002uws.3	-	12	1386	c.1198C>T	c.(1198-1200)CGA>TGA	p.R400*	FAM126B_uc002uwu.2_Nonsense_Mutation_p.R374*|FAM126B_uc002uwv.2_Nonsense_Mutation_p.R400*	NM_173822	NP_776183	Q8IXS8	F126B_HUMAN	hypothetical protein LOC285172	400						intracellular				ovary(1)	1						ACTGAATCTCGAGGGCTCTCA	0.483													9	64	---	---	---	---	PASS	A	201846388	A	A	201846388	4	1	74	1	0	0	0	0	0	1	0	0	5430	1066	37	2	398	2	FAM126B	2	201846388	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	11276530	201846388	41352985	98	28062										
ALS2	57679	broad.mit.edu	37	chr2	202611303	202611303	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gttcaccttactacaggagaGaagtactggagtcttagaac	10	8	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:202611303G>C	uc002uyo.2	-	9	2340	c.1984C>G	c.(1984-1986)CTC>GTC	p.L662V	ALS2_uc002uyp.3_Missense_Mutation_p.L662V|ALS2_uc002uyq.2_Missense_Mutation_p.L662V|ALS2_uc010ftl.2_5'Flank	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	662					cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						CTACAGGAGAGAAGTACTGGA	0.418													40	225	---	---	---	---	PASS	C	202611303	C	C	202611303	3	2	74	1	0	0	0	0	1	0	0	0	550	942	33	2	3093	2	ALS2	2	202611303	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	764915	202611303	40588070	99	28063										
ADAM23	8745	broad.mit.edu	37	chr2	207412171	207412171	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agaaaagcacaggtcgaccaCatataatccagaaaaccttg	7	10	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:207412171C>A	uc002vbq.2	+	7	962	c.739C>A	c.(739-741)CAT>AAT	p.H247N	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	247					cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		AGGTCGACCACATATAATCCA	0.343													4	52	---	---	---	---	PASS	A	207412171	A	A	207412171	3	1	74	1	0	0	0	0	1	0	0	0	245	478	17	3	765	3	ADAM23	2	207412171	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	4800868	207412171	35787202	100	28064										
CRYGD	1421	broad.mit.edu	37	chr2	208986547	208986547	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acccaggagccctccagcacGttgagggagtggatttcatt	12	11	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:208986547G>T	uc002vcn.3	-	3	491	c.375C>A	c.(373-375)AAC>AAA	p.N125K		NM_006891	NP_008822	P07320	CRGD_HUMAN	crystallin, gamma D	125	Beta/gamma crystallin 'Greek key' 3.				cellular response to reactive oxygen species|visual perception	soluble fraction	protein binding|structural constituent of eye lens				0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.0858)|Lung(261;0.133)		CCTCCAGCACGTTGAGGGAGT	0.572													28	84	---	---	---	---	PASS	T	208986547	T	T	208986547	3	4	74	1	0	0	0	0	1	0	0	0	3917	1136	40	1	153	1	CRYGD	2	208986547	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1574376	208986547	34212826	101	28065										
MAP2	4133	broad.mit.edu	37	chr2	210545504	210545504	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aacagctaatctgcctccttCtccacccccatcacctgcct	3	20	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:210545504C>G	uc002vde.1	+	6	655	c.407C>G	c.(406-408)TCT>TGT	p.S136C	MAP2_uc002vdc.1_Missense_Mutation_p.S136C|MAP2_uc002vdd.1_Missense_Mutation_p.S136C|MAP2_uc002vdf.1_Missense_Mutation_p.S136C|MAP2_uc002vdg.1_Missense_Mutation_p.S136C|MAP2_uc002vdh.1_Missense_Mutation_p.S136C|MAP2_uc002vdi.1_Missense_Mutation_p.S136C	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	136					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)	CTGCCTCCTTCTCCACCCCCA	0.418													47	227	---	---	---	---	PASS	G	210545504	G	G	210545504	3	3	74	1	0	0	0	0	1	0	0	0	9235	913	32	2	417	2	MAP2	2	210545504	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1558957	210545504	32653869	102	28066										
PTPRN	5798	broad.mit.edu	37	chr2	220162692	220162692	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cttgctgccgcgcatgctgcCgcacacacagagccacagcc	10	18	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:220162692C>T	uc002vkz.2	-	13	1891	c.1802G>A	c.(1801-1803)CGG>CAG	p.R601Q	PTPRN_uc010zlc.1_Missense_Mutation_p.R511Q|PTPRN_uc002vla.2_Missense_Mutation_p.R572Q	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	601	Cytoplasmic (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		CGCATGCTGCCGCACACACAG	0.667													10	29	---	---	---	---	PASS	T	220162692	T	T	220162692	3	4	74	1	0	0	0	0	1	0	0	0	12807	652	23	1	1181	1	PTPRN	2	220162692	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	9617188	220162692	23036681	103	28067										
SERPINE2	5270	broad.mit.edu	37	chr2	224862912	224862912	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agttcacattccggacctcaCactggaacacatctttgttc	6	13	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:224862912C>T	uc002vnu.2	-	3	650	c.407G>A	c.(406-408)TGT>TAT	p.C136Y	SERPINE2_uc002vnt.2_Missense_Mutation_p.C136Y|SERPINE2_uc010zlr.1_Missense_Mutation_p.C148Y|SERPINE2_uc002vnv.2_Missense_Mutation_p.C136Y	NM_006216	NP_006207	P07093	GDN_HUMAN	plasminogen activator inhibitor type 1, member 2	136					negative regulation of blood coagulation|negative regulation of plasminogen activation|negative regulation of platelet aggregation|positive regulation of astrocyte differentiation|regulation of cell migration	cytosol|extracellular matrix|extracellular space|extrinsic to external side of plasma membrane|neuromuscular junction|platelet alpha granule	heparin binding|receptor binding|serine-type endopeptidase inhibitor activity			breast(2)|ovary(1)|central_nervous_system(1)	4		Renal(207;0.025)|all_lung(227;0.0586)|Lung NSC(271;0.0682)|all_hematologic(139;0.0797)		Epithelial(121;5.68e-10)|all cancers(144;1.9e-07)|Lung(261;0.0088)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CCGGACCTCACACTGGAACAC	0.448													10	69	---	---	---	---	PASS	T	224862912	T	T	224862912	3	4	74	1	0	0	0	0	1	0	0	0	14112	478	17	3	817	3	SERPINE2	2	224862912	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	4700220	224862912	18336461	104	28068										
CUL3	8452	broad.mit.edu	37	chr2	225422481	225422481	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tttctatagagctcctcaaaActaagaccactgttattctt	4	10	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:225422481A>C	uc002vny.2	-	2	543	c.159T>G	c.(157-159)AGT>AGG	p.S53R	CUL3_uc010zls.1_Intron|CUL3_uc010fwy.1_Missense_Mutation_p.S59R	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	53					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		GCTCCTCAAAACTAAGACCAC	0.353													7	48	---	---	---	---	PASS	C	225422481	C	C	225422481	3	2	74	1	0	0	0	0	1	0	0	0	4056	40	2	5	2207	5	CUL3	2	225422481	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	559569	225422481	17776892	105	28069										
SPHKAP	80309	broad.mit.edu	37	chr2	228886480	228886480	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccaagtgctcagaagcggtgAgaaagtcttcctcgattgaa	11	9	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:228886480A>T	uc002vpq.2	-	6	691	c.644T>A	c.(643-645)CTC>CAC	p.L215H	SPHKAP_uc002vpp.2_Missense_Mutation_p.L215H|SPHKAP_uc010zlx.1_Missense_Mutation_p.L215H	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	215						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		AGAAGCGGTGAGAAAGTCTTC	0.478													21	75	---	---	---	---	PASS	T	228886480	T	T	228886480	3	4	74	1	0	0	0	0	1	0	0	0	15047	304	11	5	4486	5	SPHKAP	2	228886480	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	3463999	228886480	14312893	106	28070										
RAB17	64284	broad.mit.edu	37	chr2	238486673	238486673	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggtgatgtcgtacaccagaaGcgcagcgttggcacccctga	13	12	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:238486673G>A	uc002vwz.1	-	3	927	c.283C>T	c.(283-285)CTT>TTT	p.L95F	RAB17_uc002vxa.1_RNA|RAB17_uc002vxb.1_Intron	NM_022449	NP_071894	Q9H0T7	RAB17_HUMAN	RAB17, member RAS oncogene family	95					protein transport|small GTPase mediated signal transduction	intracellular|plasma membrane	GTP binding|protein binding				0		Renal(207;0.00272)|Breast(86;0.00297)|all_hematologic(139;0.182)|Ovarian(221;0.221)		Epithelial(121;9.36e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.26e-10)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000354)|Lung(119;0.011)|LUSC - Lung squamous cell carcinoma(224;0.026)		TACACCAGAAGCGCAGCGTTG	0.592													10	93	---	---	---	---	PASS	A	238486673	A	A	238486673	3	1	74	1	0	0	0	0	1	0	0	0	12902	971	34	3	371	3	RAB17	2	238486673	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	9600193	238486673	4712700	107	28071										
TRAF3IP1	26146	broad.mit.edu	37	chr2	239237975	239237975	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acagagagcatgacaaacctGagaaaaaggtaaagtcttgc	10	7	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:239237975G>A	uc002vye.2	+	5	1026	c.907G>A	c.(907-909)GAG>AAG	p.E303K	TRAF3IP1_uc002vyf.2_Missense_Mutation_p.E303K	NM_015650	NP_056465	Q8TDR0	MIPT3_HUMAN	TNF receptor-associated factor 3 interacting	303	Abolishes microtubules-binding when missing.|DISC1-interaction domain.					cytoplasm|cytoskeleton	protein binding			ovary(1)	1		all_epithelial(40;3.22e-10)|Breast(86;0.000523)|Renal(207;0.00571)|Ovarian(221;0.156)|all_hematologic(139;0.182)		Epithelial(121;9.92e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.85e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.01e-07)|BRCA - Breast invasive adenocarcinoma(100;7.72e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0184)		TGACAAACCTGAGAAAAAGGT	0.323													4	71	---	---	---	---	PASS	A	239237975	A	A	239237975	3	1	74	1	0	0	0	0	1	0	0	0	16437	1291	45	2	925	2	TRAF3IP1	2	239237975	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	751302	239237975	3961398	108	28072										
OR6B2	389090	broad.mit.edu	37	chr2	240968926	240968926	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcttagtgtgaagtttgaccCaagcccaaggcctttttcaa	8	10	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr2:240968926C>A	uc002vyr.2	-	2	967	c.921G>T	c.(919-921)TTG>TTT	p.L307F	OR6B2_uc010zoc.1_Missense_Mutation_p.L307F	NM_001005853	NP_001005853	Q6IFH4	OR6B2_HUMAN	olfactory receptor, family 6, subfamily B,	307	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.4e-29)|all cancers(36;2.08e-27)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)		AAGTTTGACCCAAGCCCAAGG	0.388													37	106	---	---	---	---	PASS	A	240968926	A	A	240968926	3	1	74	1	0	0	0	0	1	0	0	0	11188	593	21	3	19	3	OR6B2	2	240968926	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1730951	240968926	2230447	109	28073										
CIDEC	63924	broad.mit.edu	37	chr3	9908844	9908844	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cagtatcttcagacaggtcgGgataagggatgaggccttgc	14	8	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:9908844G>C	uc003btq.2	-	6	831	c.691C>G	c.(691-693)CCG>GCG	p.P231A	CIDEC_uc003bto.2_RNA|CIDEC_uc010hcp.2_Missense_Mutation_p.P115R|CIDEC_uc003btp.2_Missense_Mutation_p.P241A|CIDEC_uc003btr.2_Missense_Mutation_p.P157A|CIDEC_uc003bts.2_Missense_Mutation_p.P157A	NM_022094	NP_071377	Q96AQ7	CIDEC_HUMAN	cell death-inducing DFFA-like effector c	231					apoptosis|induction of apoptosis	cytosol|focal adhesion|nucleus				central_nervous_system(1)	1	Medulloblastoma(99;0.227)					AGACAGGTCGGGATAAGGGAT	0.587													41	93	---	---	---	---	PASS	C	9908844	C	C	9908844	3	2	74	1	0	0	0	0	1	0	0	0	3427	1232	43	4	29	4	CIDEC	3	9908844	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08		9908844	188113586	110	28074										
TATDN2	9797	broad.mit.edu	37	chr3	10320103	10320103	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gaggcagatcccactggagaGaatcatcgtggaaacggatg	14	8	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:10320103G>C	uc003bvg.2	+	6	2683	c.2102G>C	c.(2101-2103)AGA>ACA	p.R701T	TATDN2_uc003bvf.2_Missense_Mutation_p.R701T|TATDN2_uc011atr.1_Missense_Mutation_p.R701T|TATDN2_uc011ats.1_RNA|TATDN2_uc011att.1_RNA|TATDN2_uc011atu.1_5'Flank|TATDN2_uc011atv.1_5'Flank|GHRLOS_uc011atw.1_5'Flank|GHRLOS_uc011atx.1_5'Flank|GHRLOS_uc011aty.1_5'Flank|GHRLOS_uc011atz.1_5'Flank|GHRLOS_uc011aua.1_5'Flank|GHRLOS_uc010hdl.2_5'Flank|GHRLOS_uc011aub.1_5'Flank|GHRLOS_uc010hdm.2_5'Flank|GHRLOS_uc011auc.1_5'Flank|GHRLOS_uc011aud.1_5'Flank|GHRLOS_uc011aue.1_5'Flank|GHRLOS_uc011auf.1_5'Flank|GHRLOS_uc011aug.1_5'Flank	NM_014760	NP_055575	Q93075	TATD2_HUMAN	TatD DNase domain containing 2	701						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding			pancreas(2)	2						CCACTGGAGAGAATCATCGTG	0.597													7	211	---	---	---	---	PASS	C	10320103	C	C	10320103	3	2	74	1	0	0	0	0	1	0	0	0	15589	942	33	2	2120	2	TATDN2	3	10320103	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	411259	10320103	187702327	111	28075										
SYN2	6854	broad.mit.edu	37	chr3	12192811	12192811	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	attgaacagacatactacccCaaccacaaagagatggtaag	7	10	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:12192811C>T	uc003bwm.2	+	9	923	c.759C>T	c.(757-759)CCC>CCT	p.P253P	SYN2_uc003bwl.1_Silent_p.P253P|SYN2_uc003bwn.2_5'UTR	NM_133625	NP_598328	Q92777	SYN2_HUMAN	synapsin II isoform IIa	253					neurotransmitter secretion	synaptic vesicle	ATP binding|ligase activity			ovary(1)|central_nervous_system(1)	2						CATACTACCCCAACCACAAAG	0.453													11	17	---	---	---	---	PASS	T	12192811	T	T	12192811	2	4	74	1	0	0	0	0	0	0	0	1	15438	581	21	3		3	SYN2	3	12192811	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	1872708	12192811	185829619	112	28076										
C3orf19	51244	broad.mit.edu	37	chr3	14711491	14711491	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agccagaggctgtgccaaccCcacgtcctgctgcccagagt	11	16	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:14711491C>G	uc003byw.2	+	10	1094	c.1003C>G	c.(1003-1005)CCA>GCA	p.P335A	C3orf19_uc010hej.2_Missense_Mutation_p.P164A	NM_016474	NP_057558	Q6PII3	CC019_HUMAN	hypothetical protein LOC51244	335											0						TGTGCCAACCCCACGTCCTGC	0.498													18	30	---	---	---	---	PASS	G	14711491	G	G	14711491	3	3	74	1	0	0	0	0	1	0	0	0	2212	623	22	4	1041	4	C3orf19	3	14711491	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2518680	14711491	183310939	113	28077										
DAZL	1618	broad.mit.edu	37	chr3	16636039	16636039	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgtttggctaattcactttaCcggaggtacaacatagctcc	8	10	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:16636039C>T	uc003cbb.2	-	8	915	c.621_splice	c.e8+1	p.P207_splice	DAZL_uc003cba.2_Splice_Site_p.P227_splice	NM_001351	NP_001342	Q92904	DAZL_HUMAN	deleted in azoospermia-like						germ cell development|multicellular organismal development|positive regulation of translational initiation|spermatogenesis	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding|translation activator activity				0						ATTCACTTTACCGGAGGTACA	0.303													14	18	---	---	---	---	PASS	T	16636039	T	T	16636039	5	4	74	1	0	0	0	0	0	0	1	0	4246	521	18	3	281	3	DAZL	3	16636039	Splice_Site	SNP	C	TCGA-34-5928-01A-11D-1817-08	1924548	16636039	181386391	114	28078										
EFHB	151651	broad.mit.edu	37	chr3	19921152	19921152	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgttttacacttgatccggtCtgcatgccgtagctcatcta	8	11	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:19921152C>A	uc003cbl.3	-	13	2669	c.2473G>T	c.(2473-2475)GAC>TAC	p.D825Y	EFHB_uc003cbm.2_Missense_Mutation_p.D695Y	NM_144715	NP_653316	Q8N7U6	EFHB_HUMAN	EF hand domain family, member B	825					signal transduction	proteinaceous extracellular matrix	calcium ion binding				0						TTGATCCGGTCTGCATGCCGT	0.338													60	113	---	---	---	---	PASS	A	19921152	A	A	19921152	3	1	74	1	0	0	0	0	1	0	0	0	4945	913	32	2	32	2	EFHB	3	19921152	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	3285113	19921152	178101278	115	28079										
TTC21A	199223	broad.mit.edu	37	chr3	39178864	39178864	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cgctgggcagcttcatccagAtagcgcaggctgaggtgtgg	16	10	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:39178864A>G	uc003cjc.2	+	25	3634	c.3457A>G	c.(3457-3459)ATA>GTA	p.I1153V	TTC21A_uc003cje.2_Missense_Mutation_p.I1154V|TTC21A_uc003cjd.2_Intron|TTC21A_uc011ayx.1_Missense_Mutation_p.I1105V|TTC21A_uc003cjf.2_Missense_Mutation_p.I274V	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	1153							binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		CTTCATCCAGATAGCGCAGGC	0.667													12	19	---	---	---	---	PASS	G	39178864	G	G	39178864	3	3	74	1	0	0	0	0	1	0	0	0	16684	333	12	5	3558	5	TTC21A	3	39178864	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	19257712	39178864	158843566	116	28080										
CCR9	10803	broad.mit.edu	37	chr3	45943155	45943155	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	catctccaactgtgccgtttCcaccaacattgacatctgct	5	15	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:45943155C>T	uc003coz.1	+	3	1032	c.875C>T	c.(874-876)TCC>TTC	p.S292F	LZTFL1_uc003coy.1_Intron|LZTFL1_uc011bak.1_Intron|CCR9_uc010hiv.1_Missense_Mutation_p.S280F|CCR9_uc003cpa.1_Missense_Mutation_p.S280F	NM_031200	NP_112477	P51686	CCR9_HUMAN	chemokine (C-C motif) receptor 9 isoform A	292	Extracellular (Potential).				cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|immune response	integral to plasma membrane				ovary(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00118)|KIRC - Kidney renal clear cell carcinoma(197;0.0182)|Kidney(197;0.0214)		TGTGCCGTTTCCACCAACATT	0.498													7	89	---	---	---	---	PASS	T	45943155	T	T	45943155	3	4	74	1	0	0	0	0	1	0	0	0	2948	855	30	2	881	2	CCR9	3	45943155	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	6764291	45943155	152079275	117	28081										
PLXNB1	5364	broad.mit.edu	37	chr3	48459365	48459365	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	catccacagcacagggcactCcagccaccgtgaccatgccc	8	19	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:48459365C>G	uc003csw.2	-	16	3599	c.3329G>C	c.(3328-3330)GGA>GCA	p.G1110A	PLXNB1_uc003csu.2_Missense_Mutation_p.G927A|PLXNB1_uc003csx.2_Missense_Mutation_p.G1110A|PLXNB1_uc010hjx.1_RNA|PLXNB1_uc003csy.1_5'Flank	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1110	IPT/TIG 1.|Extracellular (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		ACAGGGCACTCCAGCCACCGT	0.667													8	46	---	---	---	---	PASS	G	48459365	G	G	48459365	3	3	74	1	0	0	0	0	1	0	0	0	12123	855	30	2	3170	2	PLXNB1	3	48459365	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2516210	48459365	149563065	118	28082										
CELSR3	1951	broad.mit.edu	37	chr3	48665951	48665951	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agtttcttcttctgggagatGaggaagtcgacatccacacc	10	10	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:48665951G>A	uc003cuf.1	-	52	11931	c.11931C>T	c.(11929-11931)CTC>CTT	p.L3977L	SLC26A6_uc003cug.2_Silent_p.L551L|SLC26A6_uc003cuh.2_Silent_p.L572L|SLC26A6_uc010hke.2_Silent_p.L423L|SLC26A6_uc003cuk.2_Silent_p.L465L|SLC26A6_uc003cui.2_Silent_p.L572L|SLC26A6_uc003cuj.2_Silent_p.L572L|SLC26A6_uc011bbp.1_Silent_p.L536L	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	Error:Variant_position_missing_in_Q9NYQ7_after_alignment					homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TCTGGGAGATGAGGAAGTCGA	0.552													11	117	---	---	---	---	PASS	A	48665951	A	A	48665951	2	1	74	1	0	0	0	0	0	0	0	1	3223	1277	45	2		2	CELSR3	3	48665951	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	206586	48665951	149356479	119	28083										
TRAIP	10293	broad.mit.edu	37	chr3	49885009	49885009	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcctcctgggcaagatcaaaGaagagcttattgataatggt	10	7	1	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:49885009G>C	uc003cxs.1	-	3	295	c.189C>G	c.(187-189)TTC>TTG	p.F63L	TRAIP_uc010hla.1_Missense_Mutation_p.F63L|TRAIP_uc011bcx.1_Missense_Mutation_p.F63L	NM_005879	NP_005870	Q9BWF2	TRAIP_HUMAN	TRAF interacting protein	63					cell proliferation|induction of apoptosis	perinuclear region of cytoplasm	protein binding|zinc ion binding			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CAAGATCAAAGAAGAGCTTAT	0.438													7	164	---	---	---	---	PASS	C	49885009	C	C	49885009	3	2	74	1	0	0	0	0	1	0	0	0	16445	933	33	2	1272	2	TRAIP	3	49885009	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1219058	49885009	148137421	120	28084										
RBM6	10180	broad.mit.edu	37	chr3	50004983	50004983	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	taagagtcatgctcaagagaGacactctggcaactttcctg	9	10	3	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:50004983G>C	uc003cyc.2	+	3	258	c.125G>C	c.(124-126)AGA>ACA	p.R42T	RBM6_uc011bdh.1_RNA|RBM6_uc010hlc.1_Intron|RBM6_uc003cyd.2_Intron|RBM6_uc003cye.2_Intron|RBM6_uc011bdi.1_Intron|RBM6_uc010hld.1_Intron|RBM6_uc010hle.1_Intron|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	42					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		GCTCAAGAGAGACACTCTGGC	0.493													16	87	---	---	---	---	PASS	C	50004983	C	C	50004983	3	2	74	1	0	0	0	0	1	0	0	0	13144	942	33	2	131	2	RBM6	3	50004983	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	119974	50004983	148017447	121	28085										
CCDC80	151887	broad.mit.edu	37	chr3	112349095	112349095	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttgcacatacatattgttctCagccttgggagcagtgatca	9	9	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:112349095C>G	uc003dzf.2	-	3	2118	c.1900G>C	c.(1900-1902)GAG>CAG	p.E634Q	CCDC80_uc011bhv.1_Missense_Mutation_p.E634Q|CCDC80_uc003dzg.2_Missense_Mutation_p.E634Q|CCDC80_uc003dzh.1_Missense_Mutation_p.E634Q	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	634										ovary(2)	2						ATATTGTTCTCAGCCTTGGGA	0.423													10	118	---	---	---	---	PASS	G	112349095	G	G	112349095	3	3	74	1	0	0	0	0	1	0	0	0	2854	835	29	2	976	2	CCDC80	3	112349095	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	62344112	112349095	85673335	122	28086										
DRD3	1814	broad.mit.edu	37	chr3	113847578	113847578	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctccctcagcaagacaggatCttgaggaaggctttccggaa	11	11	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:113847578C>G	uc003ebd.2	-	8	1611	c.1188G>C	c.(1186-1188)AAG>AAC	p.K396N	DRD3_uc010hqn.1_Missense_Mutation_p.K396N|DRD3_uc003ebb.1_Missense_Mutation_p.K363N|DRD3_uc003ebc.1_Missense_Mutation_p.K396N	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	396	Cytoplasmic.			K -> L (in Ref. 7; AAH95510).	activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	AAGACAGGATCTTGAGGAAGG	0.527													163	378	---	---	---	---	PASS	G	113847578	G	G	113847578	3	3	74	1	0	0	0	0	1	0	0	0	4758	912	32	2	18	2	DRD3	3	113847578	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1498483	113847578	84174852	123	28087										
C3orf1	51300	broad.mit.edu	37	chr3	119222385	119222385	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttaattaactttagcaatctGcacatcgtgctgccacacga	6	11	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:119222385G>C	uc003ecn.2	+	3	580	c.367G>C	c.(367-369)GCA>CCA	p.A123P	C3orf1_uc003eco.2_RNA|C3orf1_uc003ecp.2_RNA	NM_016589	NP_057673	Q9NPL8	TIDC1_HUMAN	hypothetical protein LOC51300	123						integral to membrane|mitochondrial inner membrane	protein transporter activity				0				GBM - Glioblastoma multiforme(114;0.186)		TTAGCAATCTGCACATCGTGC	0.408													7	18	---	---	---	---	PASS	C	119222385	C	C	119222385	3	2	74	1	0	0	0	0	1	0	0	0	2206	1319	46	4	377	4	C3orf1	3	119222385	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	5374807	119222385	78800045	124	28088										
HGD	3081	broad.mit.edu	37	chr3	120365209	120365209	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	catctatgctgaaccgcattCctctctggaatggaaagcag	9	11	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:120365209C>A	uc003edw.2	-	9	924	c.554G>T	c.(553-555)GGA>GTA	p.G185V	HGD_uc003edv.2_Missense_Mutation_p.G44V	NM_000187	NP_000178	Q93099	HGD_HUMAN	homogentisate 1,2-dioxygenase	185					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	homogentisate 1,2-dioxygenase activity|metal ion binding				0				GBM - Glioblastoma multiforme(114;0.158)		GAACCGCATTCCTCTCTGGAA	0.483													6	110	---	---	---	---	PASS	A	120365209	A	A	120365209	3	1	74	1	0	0	0	0	1	0	0	0	7084	855	30	2	807	2	HGD	3	120365209	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1142824	120365209	77657221	125	28089										
KALRN	8997	broad.mit.edu	37	chr3	124385400	124385400	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aaagagaggcgcgtgttcctCttcgagcagattgtcatctt	11	9	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:124385400C>T	uc003ehg.2	+	46	6574	c.6447C>T	c.(6445-6447)CTC>CTT	p.L2149L	KALRN_uc003ehi.2_Silent_p.L490L|KALRN_uc003ehk.2_Silent_p.L452L|KALRN_uc011bjz.1_Silent_p.L241L	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2148	PH 2.				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						GCGTGTTCCTCTTCGAGCAGA	0.542													14	80	---	---	---	---	PASS	T	124385400	T	T	124385400	2	4	74	1	0	0	0	0	0	0	0	1	7975	900	32	2		2	KALRN	3	124385400	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	4020191	124385400	73637030	126	28090										
RHO	6010	broad.mit.edu	37	chr3	129249756	129249756	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tccttggtggtcctggccatCgagcggtacgtggtggtgtg	17	9	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:129249756C>T	uc003emt.2	+	2	494	c.399C>T	c.(397-399)ATC>ATT	p.I133I		NM_000539	NP_000530	P08100	OPSD_HUMAN	rhodopsin	133	Helical; Name=3; (Potential).				protein-chromophore linkage|rhodopsin mediated signaling pathway	Golgi apparatus|integral to plasma membrane|photoreceptor inner segment membrane|photoreceptor outer segment membrane	G-protein coupled receptor activity|metal ion binding|photoreceptor activity|protein binding				0		all_neural(597;0.0227)|Myeloproliferative disorder(1037;0.0255)|Prostate(884;0.183)		GBM - Glioblastoma multiforme(114;2.58e-05)|Lung(219;0.0234)	Halothane(DB01159)	TCCTGGCCATCGAGCGGTACG	0.622													5	236	---	---	---	---	PASS	T	129249756	T	T	129249756	2	4	74	1	0	0	0	0	0	0	0	1	13330	874	31	2		2	RHO	3	129249756	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	4864356	129249756	68772674	127	28091										
ATP2C1	27032	broad.mit.edu	37	chr3	130682866	130682866	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cccattgtggtcacagtgacGctagctcttggtgttatgag	12	9	2	2	rs147959633		TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:130682866G>A	uc003enl.2	+	13	1173	c.951G>A	c.(949-951)ACG>ACA	p.T317T	ATP2C1_uc011blg.1_Silent_p.T351T|ATP2C1_uc011blh.1_Silent_p.T312T|ATP2C1_uc011bli.1_Silent_p.T351T|ATP2C1_uc003enk.2_Silent_p.T301T|ATP2C1_uc003enm.2_Silent_p.T317T|ATP2C1_uc003enn.2_Silent_p.T301T|ATP2C1_uc003eno.2_Silent_p.T317T|ATP2C1_uc003enp.2_Silent_p.T317T|ATP2C1_uc003enq.2_Silent_p.T317T|ATP2C1_uc003enr.2_Silent_p.T317T|ATP2C1_uc003ens.2_Silent_p.T317T|ATP2C1_uc003ent.2_Silent_p.T317T|ATP2C1_uc003enu.2_5'UTR	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	317	Cytoplasmic (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	TCACAGTGACGCTAGCTCTTG	0.403									Hailey-Hailey_disease				17	197	---	---	---	---	PASS	A	130682866	A	A	130682866	2	1	74	1	0	0	0	0	0	0	0	1	1143	1074	38	1		1	ATP2C1	3	130682866	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	1433110	130682866	67339564	128	28092										
PLS1	5357	broad.mit.edu	37	chr3	142408474	142408474	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtttaggagacaaatgacctGaagcgtgctggactcatgct	12	8	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:142408474G>A	uc010huv.2	+	10	1155	c.996G>A	c.(994-996)CTG>CTA	p.L332L	PLS1_uc003euz.2_Silent_p.L332L|PLS1_uc003eva.2_Silent_p.L332L	NM_001145319	NP_001138791	Q14651	PLSI_HUMAN	plastin 1	332	Actin-binding 1.|CH 2.					cytoplasm	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(1)	1						CAAATGACCTGAAGCGTGCTG	0.338													20	73	---	---	---	---	PASS	A	142408474	A	A	142408474	2	1	74	1	0	0	0	0	0	0	0	1	12107	1277	45	2		2	PLS1	3	142408474	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	11725608	142408474	55613956	129	28093										
SERP1	27230	broad.mit.edu	37	chr3	150263869	150263869	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gcgacgttgccgcgctgggtGatgttcttgctgtgcttctc	14	11	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:150263869G>A	uc003exy.2	-	1	560	c.54C>T	c.(52-54)ATC>ATT	p.I18I	SERP1_uc003exz.2_RNA|EIF2A_uc003eya.2_5'Flank|EIF2A_uc003eyb.2_5'Flank|EIF2A_uc003eyc.2_5'Flank|EIF2A_uc011bnv.1_5'Flank|EIF2A_uc011bnw.1_5'Flank	NM_014445	NP_055260	Q9Y6X1	SERP1_HUMAN	stress-associated endoplasmic reticulum protein	18	Cytoplasmic (Potential).				plasma membrane organization|protein glycosylation|protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane|ribosome					0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CGCGCTGGGTGATGTTCTTGC	0.677													11	131	---	---	---	---	PASS	A	150263869	A	A	150263869	2	1	74	1	0	0	0	0	0	0	0	1	14084	1280	45	2		2	SERP1	3	150263869	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	7855395	150263869	47758561	130	28094										
RSRC1	51319	broad.mit.edu	37	chr3	157839955	157839955	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caagagaaaaaagaaacaccGtagacggtcctcctcgagca	9	11	0	3	rs143641214	byFrequency	TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:157839955G>A	uc003fbt.2	+	2	173	c.62G>A	c.(61-63)CGT>CAT	p.R21H	RSRC1_uc011bou.1_Missense_Mutation_p.R21H|RSRC1_uc003fbu.1_Missense_Mutation_p.R21H|RSRC1_uc003fbv.2_Missense_Mutation_p.R21H	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	21	Arg/Ser-rich.				nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			AAGAAACACCGTAGACGGTCC	0.388													10	36	---	---	---	---	PASS	A	157839955	A	A	157839955	3	1	74	1	0	0	0	0	1	0	0	0	13714	1145	40	1	64	1	RSRC1	3	157839955	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	7576086	157839955	40182475	131	28095										
SI	6476	broad.mit.edu	37	chr3	164786883	164786883	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	taccaatacttgttgttgtcAtgtcttgaacgttataacca	6	8	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:164786883A>G	uc003fei.2	-	4	418	c.356T>C	c.(355-357)ATG>ACG	p.M119T		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	119	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)	TGTTGTTGTCATGTCTTGAAC	0.378										HNSCC(35;0.089)			25	48	---	---	---	---	PASS	G	164786883	G	G	164786883	3	3	74	1	0	0	0	0	1	0	0	0	14297	217	8	5	5307	5	SI	3	164786883	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	6946928	164786883	33235547	132	28096										
SERPINI2	5276	broad.mit.edu	37	chr3	167183100	167183100	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttctatatccataccttctgCaggaagtatgataattaagc	6	8	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:167183100C>G	uc003fer.1	-	4	818	c.760G>C	c.(760-762)GCA>CCA	p.A254P	SERPINI2_uc003fes.1_Missense_Mutation_p.A264P|SERPINI2_uc003fet.1_Missense_Mutation_p.A254P	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),	254					cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						ATACCTTCTGCAGGAAGTATG	0.343													40	229	---	---	---	---	PASS	G	167183100	G	G	167183100	3	3	74	1	0	0	0	0	1	0	0	0	14119	710	25	4	477	4	SERPINI2	3	167183100	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2396217	167183100	30839330	133	28097										
NAALADL2	254827	broad.mit.edu	37	chr3	175473112	175473112	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gacctgctaatgatcccaagGagagagcacccatccgcatc	9	14	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:175473112G>C	uc003fit.2	+	13	2182	c.2095G>C	c.(2095-2097)GAG>CAG	p.E699Q		NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	699	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		TGATCCCAAGGAGAGAGCACC	0.493													11	44	---	---	---	---	PASS	C	175473112	C	C	175473112	3	2	74	1	0	0	0	0	1	0	0	0	10130	1175	41	2	2145	2	NAALADL2	3	175473112	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	8290012	175473112	22549318	134	28098										
MCF2L2	23101	broad.mit.edu	37	chr3	182923970	182923970	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcaaactttctatggctcccCcttccaagctggcgaattga	7	13	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:182923970C>A	uc003fli.1	-	24	2835	c.2745G>T	c.(2743-2745)AGG>AGT	p.R915S		NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	915	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TATGGCTCCCCCTTCCAAGCT	0.423													44	161	---	---	---	---	PASS	A	182923970	A	A	182923970	3	1	74	1	0	0	0	0	1	0	0	0	9380	622	22	3	627	3	MCF2L2	3	182923970	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	7450858	182923970	15098460	135	28099										
MCF2L2	23101	broad.mit.edu	37	chr3	183035889	183035889	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cgctgccttgtgtgggacatGagaaggtcttccgtggatag	15	8	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:183035889G>C	uc003fli.1	-	7	810	c.720C>G	c.(718-720)CTC>CTG	p.L240L	MCF2L2_uc003flj.1_Silent_p.L240L|MCF2L2_uc003flp.1_Silent_p.L275L	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	240					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TGTGGGACATGAGAAGGTCTT	0.597													9	59	---	---	---	---	PASS	C	183035889	C	C	183035889	2	2	74	1	0	0	0	0	0	0	0	1	9380	1277	45	2		2	MCF2L2	3	183035889	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	111919	183035889	14986541	136	28100										
ABCC5	10057	broad.mit.edu	37	chr3	183655773	183655773	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caaggccaatatcactgattCtcactccatcaatcttgatg	5	12	4	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:183655773C>G	uc003fmg.2	-	26	3935	c.3770G>C	c.(3769-3771)AGA>ACA	p.R1257T	ABCC5_uc011bqt.1_Missense_Mutation_p.R785T|ABCC5_uc010hxl.2_Missense_Mutation_p.R1214T	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	1257	ABC transporter 2.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			ATCACTGATTCTCACTCCATC	0.532													14	180	---	---	---	---	PASS	G	183655773	G	G	183655773	3	3	74	1	0	0	0	0	1	0	0	0	56	913	32	2	563	2	ABCC5	3	183655773	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	619884	183655773	14366657	137	28101										
VPS8	23355	broad.mit.edu	37	chr3	184631309	184631309	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cttctctttctattttagatGaacaagttgttatgggcaat	7	6	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:184631309G>A	uc003fpb.1	+	25	2314	c.2143G>A	c.(2143-2145)GAA>AAA	p.E715K	VPS8_uc010hyd.1_Missense_Mutation_p.E625K|VPS8_uc010hye.1_Missense_Mutation_p.E144K	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	717							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TATTTTAGATGAACAAGTTGT	0.254													11	193	---	---	---	---	PASS	A	184631309	A	A	184631309	3	1	74	1	0	0	0	0	1	0	0	0	17215	1291	45	2	2243	2	VPS8	3	184631309	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	975536	184631309	13391121	138	28102										
DNAJB11	51726	broad.mit.edu	37	chr3	186302269	186302269	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccaggagcgaagctatggaaGaaaggggaagggctccccaa	15	9	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:186302269G>C	uc003fqi.2	+	9	1123	c.903G>C	c.(901-903)AAG>AAC	p.K301N		NM_016306	NP_057390	Q9UBS4	DJB11_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 11	301					protein folding	endoplasmic reticulum lumen	heat shock protein binding			ovary(1)|lung(1)	2	all_cancers(143;2.84e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.44e-20)	GBM - Glioblastoma multiforme(93;0.0476)		AGCTATGGAAGAAAGGGGAAG	0.443													4	87	---	---	---	---	PASS	C	186302269	C	C	186302269	3	2	74	1	0	0	0	0	1	0	0	0	4616	933	33	2	937	2	DNAJB11	3	186302269	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1670960	186302269	11720161	139	28103										
ATP13A5	344905	broad.mit.edu	37	chr3	193052756	193052756	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctcgtacaggcccctgcccaGagggcttgacctggataact	11	14	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:193052756G>C	uc011bsq.1	-	10	1076	c.1076C>G	c.(1075-1077)TCT>TGT	p.S359C		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	359					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		CCCCTGCCCAGAGGGCTTGAC	0.463													14	167	---	---	---	---	PASS	C	193052756	C	C	193052756	3	2	74	1	0	0	0	0	1	0	0	0	1127	942	33	2	2662	2	ATP13A5	3	193052756	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	6750487	193052756	4969674	140	28104										
OPA1	4976	broad.mit.edu	37	chr3	193332589	193332589	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acaaaaactacatctggtttCacgaagcatttatcattcac	4	10	4	0	rs149756039		TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr3:193332589C>T	uc003ftm.2	+	2	344	c.110C>T	c.(109-111)TCA>TTA	p.S37L	OPA1_uc003ftg.2_Missense_Mutation_p.S37L|OPA1_uc003fth.2_Missense_Mutation_p.S37L|OPA1_uc003fti.2_Missense_Mutation_p.S37L|OPA1_uc003ftj.2_Missense_Mutation_p.S37L|OPA1_uc003ftk.2_Missense_Mutation_p.S37L|OPA1_uc003ftl.2_Missense_Mutation_p.S37L|OPA1_uc003ftn.2_Missense_Mutation_p.S37L	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1	37					apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		CATCTGGTTTCACGAAGCATT	0.303													21	85	---	---	---	---	PASS	T	193332589	T	T	193332589	3	4	74	1	0	0	0	0	1	0	0	0	10871	838	29	2	116	2	OPA1	3	193332589	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	279833	193332589	4689841	141	28105										
ATP8A1	10396	broad.mit.edu	37	chr4	42558042	42558042	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctaaatgttttttcatctccAaactgtgagttctgcctgaa	6	9	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:42558042A>G	uc003gwr.2	-	16	1588	c.1356T>C	c.(1354-1356)TTT>TTC	p.F452F	ATP8A1_uc003gws.2_Silent_p.F437F|ATP8A1_uc011byz.1_Silent_p.F437F	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	452	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	TTTCATCTCCAAACTGTGAGT	0.318													6	28	---	---	---	---	PASS	G	42558042	G	G	42558042	2	3	74	1	0	0	0	0	0	0	0	1	1192	127	5	5		5	ATP8A1	4	42558042	Silent	SNP	A	TCGA-34-5928-01A-11D-1817-08		42558042	148596234	142	28106										
GABRG1	2565	broad.mit.edu	37	chr4	46099262	46099262	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgtcatagccttgaagcaatGaattcagaatttgtgtgata	9	5	2	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:46099262G>A	uc003gxb.2	-	2	361	c.209C>T	c.(208-210)TCA>TTA	p.S70L		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	70	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		TTGAAGCAATGAATTCAGAAT	0.383													49	123	---	---	---	---	PASS	A	46099262	A	A	46099262	3	1	74	1	0	0	0	0	1	0	0	0	6171	1294	45	2	1220	2	GABRG1	4	46099262	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	3541220	46099262	145055014	143	28107										
CWH43	80157	broad.mit.edu	37	chr4	49009279	49009279	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cctaagaaaaaccttgacttGcttcttcaaacaaaaaacag	4	10	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:49009279G>A	uc003gyv.2	+	8	1304	c.1122G>A	c.(1120-1122)TTG>TTA	p.L374L	CWH43_uc011bzl.1_Silent_p.L347L	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	374					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						ACCTTGACTTGCTTCTTCAAA	0.284													19	33	---	---	---	---	PASS	A	49009279	A	A	49009279	2	1	74	1	0	0	0	0	0	0	0	1	4073	1310	46	3		3	CWH43	4	49009279	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	2910017	49009279	142144997	144	28108										
KDR	3791	broad.mit.edu	37	chr4	55964928	55964928	+	Missense_Mutation	SNP	C	A	A													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acatggcaatcaccgccgtgCctactagaataatgatttcc							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:55964928C>A	uc003has.2	-	16	2611	c.2309G>T	c.(2308-2310)GGC>GTC	p.G770V	KDR_uc003hat.1_Missense_Mutation_p.G770V	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	770	Helical; (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)	CACCGCCGTGCCTACTAGAAT	0.413			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			33	101	---	---	---	---	PASS	A	55964928	A	A	55964928	3	1	74	1	0	0	0	0	1	0	0	0	8139	739	26	3	1821	3	KDR	4	55964928	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	6955649	55964928	135189348	145	28109	586	2								
KDR	3791	broad.mit.edu	37	chr4	55964929	55964929	+	Missense_Mutation	SNP	C	A	A													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	catggcaatcaccgccgtgcCtactagaataatgatttcca							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:55964929C>A	uc003has.2	-	16	2610	c.2308G>T	c.(2308-2310)GGC>TGC	p.G770C	KDR_uc003hat.1_Missense_Mutation_p.G770C	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	770	Helical; (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)	ACCGCCGTGCCTACTAGAATA	0.408			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			32	101	---	---	---	---	PASS	A	55964929	A	A	55964929	3	1	74	1	0	0	0	0	1	0	0	0	8139	681	24	3	1822	3	KDR	4	55964929	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1	55964929	135189347	146	28110	586	2								
LPHN3	23284	broad.mit.edu	37	chr4	62598726	62598726	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gatttgtagtgtatgatggaGctttgttcttcaacaaagag	11	4	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:62598726G>T	uc010ihh.2	+	5	822	c.649G>T	c.(649-651)GCT>TCT	p.A217S	LPHN3_uc003hcq.3_Missense_Mutation_p.A217S|LPHN3_uc010ihg.1_Missense_Mutation_p.A285S|LPHN3_uc003hcs.1_Missense_Mutation_p.A46S	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	217	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GTATGATGGAGCTTTGTTCTT	0.438													20	45	---	---	---	---	PASS	T	62598726	T	T	62598726	3	4	74	1	0	0	0	0	1	0	0	0	8917	971	34	3	667	3	LPHN3	4	62598726	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	6633797	62598726	128555550	147	28111										
FRAS1	80144	broad.mit.edu	37	chr4	79391175	79391175	+	Missense_Mutation	SNP	C	T	T													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gttccgagtagacatcctccCggtagatgatggcacgccta							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:79391175C>T	uc003hlb.2	+	51	7741	c.7301C>T	c.(7300-7302)CCG>CTG	p.P2434L		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2433	CSPG 12.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						GACATCCTCCCGGTAGATGAT	0.507													9	34	---	---	---	---	PASS	T	79391175	T	T	79391175	3	4	74	1	0	0	0	0	1	0	0	0	6042	652	23	1	7578	1	FRAS1	4	79391175	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	16792449	79391175	111763101	148	28112	587	2								
FRAS1	80144	broad.mit.edu	37	chr4	79391176	79391176	+	Silent	SNP	G	T	T													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttccgagtagacatcctcccGgtagatgatggcacgcctag							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:79391176G>T	uc003hlb.2	+	51	7742	c.7302G>T	c.(7300-7302)CCG>CCT	p.P2434P		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2433	CSPG 12.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						ACATCCTCCCGGTAGATGATG	0.507													9	35	---	---	---	---	PASS	T	79391176	T	T	79391176	2	4	74	1	0	0	0	0	0	0	0	1	6042	1103	39	1		1	FRAS1	4	79391176	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	1	79391176	111763100	149	28113	587	2								
DMP1	1758	broad.mit.edu	37	chr4	88578214	88578214	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atcaaaataatgaatctgagGattctgaagaatggaaggtg	11	3	3	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:88578214G>T	uc003hqv.2	+	3	189	c.85G>T	c.(85-87)GAT>TAT	p.D29Y	DMP1_uc003hqw.2_Missense_Mutation_p.D29Y	NM_004407	NP_004398	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1 isoform 1	29					biomineral tissue development|ossification	cytoplasm|nucleus|proteinaceous extracellular matrix	calcium ion binding|integrin binding			pancreas(1)|skin(1)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)		TGAATCTGAGGATTCTGAAGA	0.254													22	35	---	---	---	---	PASS	T	88578214	T	T	88578214	3	4	74	1	0	0	0	0	1	0	0	0	4583	1174	41	2	91	2	DMP1	4	88578214	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	9187038	88578214	102576062	150	28114										
TSPAN5	10098	broad.mit.edu	37	chr4	99403249	99403249	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aagaaatacagctggtctttGatccagtctttgaaaacaaa	7	7	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:99403249G>C	uc003hub.2	-	4	707	c.357C>G	c.(355-357)ATC>ATG	p.I119M	TSPAN5_uc011cdz.1_Missense_Mutation_p.I48M	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	119	Extracellular (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)		GCTGGTCTTTGATCCAGTCTT	0.378													3	119	---	---	---	---	PASS	C	99403249	C	C	99403249	3	2	74	1	0	0	0	0	1	0	0	0	16647	1280	45	2	469	2	TSPAN5	4	99403249	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	10825035	99403249	91751027	151	28115										
PCDH10	57575	broad.mit.edu	37	chr4	134075499	134075499	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agagctcagctatctagttgAcagacctcgccgagttaaca	9	11	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:134075499A>T	uc003iha.2	+	2	3495	c.2669A>T	c.(2668-2670)GAC>GTC	p.D890V		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	890	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TATCTAGTTGACAGACCTCGC	0.373													12	26	---	---	---	---	PASS	T	134075499	T	T	134075499	3	4	74	1	0	0	0	0	1	0	0	0	11507	275	10	5	2735	5	PCDH10	4	134075499	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	34672250	134075499	57078777	152	28116										
LRBA	987	broad.mit.edu	37	chr4	151392889	151392889	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtggactagctaatgaaataCgtctgcaagaaaaagaattc	9	6	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:151392889C>T	uc010ipj.2	-	44	7061	c.6587G>A	c.(6586-6588)CGT>CAT	p.R2196H	LRBA_uc003ils.3_Missense_Mutation_p.R86H|LRBA_uc003ilt.3_Missense_Mutation_p.R844H|LRBA_uc003ilu.3_Missense_Mutation_p.R2185H	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2196						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TAATGAAATACGTCTGCAAGA	0.308													18	62	---	---	---	---	PASS	T	151392889	T	T	151392889	3	4	74	1	0	0	0	0	1	0	0	0	8931	536	19	1	2064	1	LRBA	4	151392889	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	17317390	151392889	39761387	153	28117										
TLR2	7097	broad.mit.edu	37	chr4	154624805	154624805	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atccactggtgaaacaaattCattgattaaaaagtttacat	5	6	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:154624805C>T	uc003inq.2	+	3	965	c.746C>T	c.(745-747)TCA>TTA	p.S249L	TLR2_uc003inr.2_Missense_Mutation_p.S249L|TLR2_uc003ins.2_Missense_Mutation_p.S249L	NM_003264	NP_003255	O60603	TLR2_HUMAN	toll-like receptor 2 precursor	249	Extracellular (Potential).				cellular response to diacyl bacterial lipopeptide|cellular response to lipoteichoic acid|cellular response to triacyl bacterial lipopeptide|detection of diacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|I-kappaB phosphorylation|induction of apoptosis|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of interferon-beta production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of Wnt receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|integral to plasma membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	Gram-positive bacterial cell surface binding|lipopolysaccharide receptor activity|peptidoglycan binding|protein heterodimerization activity|transmembrane receptor activity|triacyl lipopeptide binding			ovary(1)|lung(1)|breast(1)	3	all_hematologic(180;0.093)	Renal(120;0.117)				GAAACAAATTCATTGATTAAA	0.313													17	25	---	---	---	---	PASS	T	154624805	T	T	154624805	3	4	74	1	0	0	0	0	1	0	0	0	15948	838	29	2	748	2	TLR2	4	154624805	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	3231916	154624805	36529471	154	28118										
DCHS2	54798	broad.mit.edu	37	chr4	155219363	155219363	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gttctgttccaaaactggatCattgtcattaacatcagtga	7	8	4	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:155219363C>T	uc003inw.2	-	18	4738	c.4738G>A	c.(4738-4740)GAT>AAT	p.D1580N		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1580	Cadherin 13.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AAAACTGGATCATTGTCATTA	0.443													26	32	---	---	---	---	PASS	T	155219363	T	T	155219363	3	4	74	1	0	0	0	0	1	0	0	0	4288	826	29	2	4044	2	DCHS2	4	155219363	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	594558	155219363	35934913	155	28119										
TKTL2	84076	broad.mit.edu	37	chr4	164393542	164393542	+	Missense_Mutation	SNP	C	A	A													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggcatcacttggatagaaaaCagtacaattgggaatgcttc							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:164393542C>A	uc003iqp.3	-	1	1506	c.1345G>T	c.(1345-1347)GTT>TTT	p.V449F		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	449						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				GGATAGAAAACAGTACAATTG	0.493													33	75	---	---	---	---	PASS	A	164393542	A	A	164393542	3	1	74	1	0	0	0	0	1	0	0	0	15933	478	17	3	539	3	TKTL2	4	164393542	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	9174179	164393542	26760734	156	28120	588	2								
TKTL2	84076	broad.mit.edu	37	chr4	164393543	164393543	+	Silent	SNP	A	G	G													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gcatcacttggatagaaaacAgtacaattgggaatgcttcg					rs114733407	byFrequency	TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:164393543A>G	uc003iqp.3	-	1	1505	c.1344T>C	c.(1342-1344)ACT>ACC	p.T448T		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	448						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				GATAGAAAACAGTACAATTGG	0.488													34	73	---	---	---	---	PASS	G	164393543	G	G	164393543	2	3	74	1	0	0	0	0	0	0	0	1	15933	175	7	5		5	TKTL2	4	164393543	Silent	SNP	A	TCGA-34-5928-01A-11D-1817-08	1	164393543	26760733	157	28121	588	2								
STOX2	56977	broad.mit.edu	37	chr4	184931549	184931549	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctgaaggctgcagccaagacGaccagacccccagccaatcc	9	17	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:184931549G>C	uc003ivz.1	+	3	2993	c.1558G>C	c.(1558-1560)GAC>CAC	p.D520H	STOX2_uc003iwa.1_Missense_Mutation_p.D209H	NM_020225	NP_064610	Q9P2F5	STOX2_HUMAN	storkhead box 2	520					embryo development|maternal placenta development						0		all_lung(41;1.89e-12)|Lung NSC(41;3.48e-12)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|all_hematologic(60;0.027)|Prostate(90;0.0283)		all cancers(43;2.85e-26)|Epithelial(43;2.27e-22)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-10)|Colorectal(24;8.23e-06)|GBM - Glioblastoma multiforme(59;1.64e-05)|STAD - Stomach adenocarcinoma(60;3.6e-05)|COAD - Colon adenocarcinoma(29;4.37e-05)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.227)		CAGCCAAGACGACCAGACCCC	0.532													9	25	---	---	---	---	PASS	C	184931549	C	C	184931549	3	2	74	1	0	0	0	0	1	0	0	0	15319	1058	37	2	1568	2	STOX2	4	184931549	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	20538006	184931549	6222727	158	28122										
FAT1	2195	broad.mit.edu	37	chr4	187541760	187541760	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gacagctaatgtttcggcctCggtggaattctctttcacta	9	10	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr4:187541760C>T	uc003izf.2	-	10	6168	c.5980G>A	c.(5980-5982)GAG>AAG	p.E1994K		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1994	Extracellular (Potential).|Cadherin 18.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GTTTCGGCCTCGGTGGAATTC	0.418										HNSCC(5;0.00058)			56	396	---	---	---	---	PASS	T	187541760	T	T	187541760	3	4	74	1	0	0	0	0	1	0	0	0	5689	893	31	2	7858	2	FAT1	4	187541760	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2610211	187541760	3612516	159	28123										
SLC6A3	6531	broad.mit.edu	37	chr5	1394869	1394869	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tctacaccttgagccagtggCggagctggaaagaaaacagg	13	9	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:1394869C>G	uc003jck.2	-	15	1965	c.1844G>C	c.(1843-1845)CGC>CCC	p.R615P		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	615	Cytoplasmic (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	GAGCCAGTGGCGGAGCTGGAA	0.522													43	186	---	---	---	---	PASS	G	1394869	G	G	1394869	3	3	74	1	0	0	0	0	1	0	0	0	14685	768	27	4	22	4	SLC6A3	5	1394869	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08		1394869	179520391	160	28124										
SEMA5A	9037	broad.mit.edu	37	chr5	9202090	9202090	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttggtggtaaagatgccataGatcaaatccagctcaggcag	11	8	2	2	rs144446567	byFrequency	TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:9202090G>A	uc003jek.2	-	9	1621	c.909C>T	c.(907-909)ATC>ATT	p.I303I		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	303	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						AGATGCCATAGATCAAATCCA	0.438													6	91	---	---	---	---	PASS	A	9202090	A	A	9202090	2	1	74	1	0	0	0	0	0	0	0	1	14037	932	33	2		2	SEMA5A	5	9202090	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	7807221	9202090	171713170	161	28125										
CDH12	1010	broad.mit.edu	37	chr5	21854886	21854886	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gcatctgtggccttgacctgGagtacatatgcacctggaaa	11	10	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:21854886G>A	uc010iuc.2	-	4	998	c.540C>T	c.(538-540)CTC>CTT	p.L180L	CDH12_uc011cno.1_Intron|CDH12_uc003jgk.2_Silent_p.L180L	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	180	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CCTTGACCTGGAGTACATATG	0.418										HNSCC(59;0.17)			10	99	---	---	---	---	PASS	A	21854886	A	A	21854886	2	1	74	1	0	0	0	0	0	0	0	1	3098	1161	41	2		2	CDH12	5	21854886	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	12652796	21854886	159060374	162	28126										
AMACR	23600	broad.mit.edu	37	chr5	33989607	33989607	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	catcagactttagtccaagtCctgaggaaaaatacaatttc	6	9	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:33989607C>A	uc003jig.2	-	5	822	c.740G>T	c.(739-741)GGA>GTA	p.G247V	AMACR_uc003jih.2_Missense_Mutation_p.R193S|AMACR_uc003jii.2_Missense_Mutation_p.G232V|AMACR_uc003jij.2_Missense_Mutation_p.G247V	NM_014324	NP_055139	Q9UHK6	AMACR_HUMAN	alpha-methylacyl-CoA racemase isoform 1	247					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	mitochondrion|peroxisomal matrix	alpha-methylacyl-CoA racemase activity				0						TAGTCCAAGTCCTGAGGAAAA	0.353													10	56	---	---	---	---	PASS	A	33989607	A	A	33989607	3	1	74	1	0	0	0	0	1	0	0	0	562	869	30	2	470	2	AMACR	5	33989607	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	12134721	33989607	146925653	163	28127										
RAI14	26064	broad.mit.edu	37	chr5	34796083	34796083	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aaaggacacgtggaatgcctCagggtcatgattacacatgg	12	8	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:34796083C>G	uc003jir.2	+	4	403	c.207C>G	c.(205-207)CTC>CTG	p.L69L	RAI14_uc010iur.2_Silent_p.L69L|RAI14_uc011coj.1_Silent_p.L69L|RAI14_uc010ius.1_5'UTR|RAI14_uc003jis.2_Silent_p.L72L|RAI14_uc003jit.2_Silent_p.L69L|RAI14_uc011cok.1_Silent_p.L61L	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	69	ANK 2.					cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					TGGAATGCCTCAGGGTCATGA	0.438													7	320	---	---	---	---	PASS	G	34796083	G	G	34796083	2	3	74	1	0	0	0	0	0	0	0	1	13008	813	29	2		2	RAI14	5	34796083	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	806476	34796083	146119177	164	28128										
SPEF2	79925	broad.mit.edu	37	chr5	35712973	35712973	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aagggaagaaaggtgagaccGcactcaaaagaaaaggtaca	12	6	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:35712973G>T	uc003jjo.2	+	20	3010	c.2899G>T	c.(2899-2901)GCA>TCA	p.A967S	SPEF2_uc003jjp.1_Missense_Mutation_p.A453S	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	967					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AGGTGAGACCGCACTCAAAAG	0.333													37	61	---	---	---	---	PASS	T	35712973	T	T	35712973	3	4	74	1	0	0	0	0	1	0	0	0	15034	1087	38	1	2998	1	SPEF2	5	35712973	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	916890	35712973	145202287	165	28129										
HEATR7B2	133558	broad.mit.edu	37	chr5	41004915	41004915	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gctgtgttgccgagccctcgGatggccatctgcctcagagt	13	13	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:41004915G>C	uc003jmj.3	-	36	4462	c.3972C>G	c.(3970-3972)ATC>ATG	p.I1324M	HEATR7B2_uc003jmi.3_Missense_Mutation_p.I879M	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1324							binding			ovary(6)|central_nervous_system(2)	8						CGAGCCCTCGGATGGCCATCT	0.473													7	133	---	---	---	---	PASS	C	41004915	C	C	41004915	3	2	74	1	0	0	0	0	1	0	0	0	7035	1164	41	2	813	2	HEATR7B2	5	41004915	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	5291942	41004915	139910345	166	28130										
OXCT1	5019	broad.mit.edu	37	chr5	41853624	41853624	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgcgttttatctgcttggacCgaagcaaaagccccaaacca	8	12	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:41853624C>T	uc003jmn.2	-	4	642	c.311G>A	c.(310-312)CGG>CAG	p.R104Q		NM_000436	NP_000427	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1 precursor	104					cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)	CTGCTTGGACCGAAGCAAAAG	0.408													27	53	---	---	---	---	PASS	T	41853624	T	T	41853624	3	4	74	1	0	0	0	0	1	0	0	0	11329	652	23	1	1307	1	OXCT1	5	41853624	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	848709	41853624	139061636	167	28131										
HMGCS1	3157	broad.mit.edu	37	chr5	43299047	43299047	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggccagcaagcttctgcattCaaaggaagtgatccaggcat	11	10	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:43299047C>G	uc003jnr.3	-	3	228	c.21G>C	c.(19-21)TTG>TTC	p.L7F	HMGCS1_uc003jnq.3_Missense_Mutation_p.L7F	NM_001098272	NP_001091742	Q01581	HMCS1_HUMAN	hydroxymethylglutaryl-CoA synthase 1	7					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|soluble fraction	hydroxymethylglutaryl-CoA synthase activity				0						CTTCTGCATTCAAAGGAAGTG	0.363													11	109	---	---	---	---	PASS	G	43299047	G	G	43299047	3	3	74	1	0	0	0	0	1	0	0	0	7232	825	29	2	1577	2	HMGCS1	5	43299047	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1445423	43299047	137616213	168	28132										
C5orf28	64417	broad.mit.edu	37	chr5	43453863	43453863	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agtcagtcttcttcttgattCcagtgactaccgcccatgac	7	13	4	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:43453863C>G	uc003jny.2	-	2	352	c.209G>C	c.(208-210)GGA>GCA	p.G70A	C5orf28_uc003jnv.3_Missense_Mutation_p.G70A|C5orf28_uc003jnx.2_Missense_Mutation_p.G70A	NM_022483	NP_071928	Q0VDI3	CE028_HUMAN	hypothetical protein LOC64417	70						integral to membrane					0	Lung NSC(6;2.07e-05)					CTTCTTGATTCCAGTGACTAC	0.403													21	172	---	---	---	---	PASS	G	43453863	G	G	43453863	3	3	74	1	0	0	0	0	1	0	0	0	2289	855	30	2	446	2	C5orf28	5	43453863	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	154816	43453863	137461397	169	28133										
HCN1	348980	broad.mit.edu	37	chr5	45396766	45396766	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caatgcacagcatgtgactcAtagctttgaagagtgcgtat	10	8	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:45396766A>G	uc003jok.2	-	4	1083	c.1058T>C	c.(1057-1059)ATG>ACG	p.M353T		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	353						integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CATGTGACTCATAGCTTTGAA	0.463													59	101	---	---	---	---	PASS	G	45396766	G	G	45396766	3	3	74	1	0	0	0	0	1	0	0	0	6996	217	8	5	1634	5	HCN1	5	45396766	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	1942903	45396766	135518494	170	28134										
HCN1	348980	broad.mit.edu	37	chr5	45645431	45645431	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cctttttctacaataagaaaGatataatccactgggatgga	7	7	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:45645431G>T	uc003jok.2	-	2	730	c.705C>A	c.(703-705)ATC>ATA	p.I235I		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	235	Helical; Name=Segment S3; (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CAATAAGAAAGATATAATCCA	0.378													6	74	---	---	---	---	PASS	T	45645431	T	T	45645431	2	4	74	1	0	0	0	0	0	0	0	1	6996	932	33	2		2	HCN1	5	45645431	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	248665	45645431	135269829	171	28135										
OTP	23440	broad.mit.edu	37	chr5	76932978	76932978	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caggtcccccggatggccccCggggtcggagccccccacgc	14	20	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:76932978C>A	uc003kfg.2	-	2	263	c.115G>T	c.(115-117)GGG>TGG	p.G39W		NM_032109	NP_115485	Q5XKR4	OTP_HUMAN	orthopedia homeobox	39						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.000601)|Ovarian(174;0.0105)|Prostate(461;0.214)		OV - Ovarian serous cystadenocarcinoma(54;9.04e-51)|Epithelial(54;1.62e-45)|all cancers(79;4.4e-41)		GGATGGCCCCCGGGGTCGGAG	0.697													7	11	---	---	---	---	PASS	A	76932978	A	A	76932978	3	1	74	1	0	0	0	0	1	0	0	0	11310	652	23	1	870	1	OTP	5	76932978	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	31287547	76932978	103982282	172	28136										
SCAMP1	9522	broad.mit.edu	37	chr5	77717666	77717666	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	taaatatcttcggatgcttgGcttggttttgtgttgattct	10	5	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:77717666G>T	uc003kfl.2	+	6	671	c.514G>T	c.(514-516)GCT>TCT	p.A172S	SCAMP1_uc010jaa.2_Intron|SCAMP1_uc011ctc.1_RNA|SCAMP1_uc011ctd.1_RNA|SCAMP1_uc003kfm.2_RNA	NM_004866	NP_004857	O15126	SCAM1_HUMAN	secretory carrier membrane protein 1	172	Helical; (Potential).				post-Golgi vesicle-mediated transport|protein transport	integral to membrane|recycling endosome membrane|trans-Golgi network	protein binding				0		all_lung(232;0.000397)|Lung NSC(167;0.00105)|Ovarian(174;0.0105)|Prostate(461;0.214)		OV - Ovarian serous cystadenocarcinoma(54;1.9e-46)|Epithelial(54;9.4e-43)|all cancers(79;1.12e-37)		CGGATGCTTGGCTTGGTTTTG	0.358													104	132	---	---	---	---	PASS	T	77717666	T	T	77717666	3	4	74	1	0	0	0	0	1	0	0	0	13870	1203	42	3	536	3	SCAMP1	5	77717666	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	784688	77717666	103197594	173	28137										
SLCO4C1	353189	broad.mit.edu	37	chr5	101572570	101572570	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcttttcccatttcacccttCttttactattttgttgagat	3	10	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:101572570C>G	uc003knm.2	-	13	2454	c.2167G>C	c.(2167-2169)GAA>CAA	p.E723Q		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	723	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		TTTCACCCTTCTTTTACTATT	0.368													9	102	---	---	---	---	PASS	G	101572570	G	G	101572570	3	3	74	1	0	0	0	0	1	0	0	0	14730	922	32	2	11	2	SLCO4C1	5	101572570	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	23854904	101572570	79342690	174	28138										
PPIP5K2	23262	broad.mit.edu	37	chr5	102472516	102472516	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acttgaatatgcagtatctcAtacaagataggtgagtggtg	11	5	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:102472516A>T	uc003kod.3	+	4	910	c.391A>T	c.(391-393)ATA>TTA	p.I131L	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.I131L|PPIP5K2_uc010jbo.1_Missense_Mutation_p.I53L	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	131					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						GCAGTATCTCATACAAGATAG	0.274													121	140	---	---	---	---	PASS	T	102472516	T	T	102472516	3	4	74	1	0	0	0	0	1	0	0	0	12333	217	8	5	401	5	PPIP5K2	5	102472516	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	899946	102472516	78442744	175	28139										
PCDHA3	56145	broad.mit.edu	37	chr5	140182467	140182467	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gctggacgagaacgacaacgCgccggcactgctgatgcctc	13	14	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:140182467C>T	uc003lhf.2	+	1	1685	c.1685C>T	c.(1684-1686)GCG>GTG	p.A562V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.A562V	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	562	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACGACAACGCGCCGGCACTG	0.692													53	59	---	---	---	---	PASS	T	140182467	T	T	140182467	3	4	74	1	0	0	0	0	1	0	0	0	11525	768	27	1	1687	1	PCDHA3	5	140182467	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	37709951	140182467	40732793	176	28140										
PCDHA5	56143	broad.mit.edu	37	chr5	140202001	140202001	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccgtttattagtgattgcaaCtgatggaggaaaacccgaac	10	8	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:140202001C>G	uc003lhl.2	+	1	641	c.641C>G	c.(640-642)ACT>AGT	p.T214S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.T214S|PCDHA5_uc003lhj.1_Missense_Mutation_p.T214S	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	214	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGATTGCAACTGATGGAGGA	0.348													54	73	---	---	---	---	PASS	G	140202001	G	G	140202001	3	3	74	1	0	0	0	0	1	0	0	0	11527	565	20	4	643	4	PCDHA5	5	140202001	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	19534	140202001	40713259	177	28141										
PCDHA7	56141	broad.mit.edu	37	chr5	140215871	140215871	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctggtgagatcagcacgacaCgagccctagatgagacggac	13	11	1	3	rs146878440		TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:140215871C>G	uc003lhq.2	+	1	1903	c.1903C>G	c.(1903-1905)CGA>GGA	p.R635G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.R635G	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	635	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCACGACACGAGCCCTAGA	0.647													53	58	---	---	---	---	PASS	G	140215871	G	G	140215871	3	3	74	1	0	0	0	0	1	0	0	0	11529	528	19	4	1905	4	PCDHA7	5	140215871	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	13870	140215871	40699389	178	28142										
PCDHA10	56139	broad.mit.edu	37	chr5	140235693	140235693	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctgctctcgcttcttctcctCgcagcctgggaggtggggag	14	13	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:140235693C>A	uc003lhx.2	+	1	60	c.60C>A	c.(58-60)CTC>CTA	p.L20L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Silent_p.L20L|PCDHA10_uc011dad.1_Silent_p.L20L	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	20					homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCTTCTCCTCGCAGCCTGGG	0.602													8	94	---	---	---	---	PASS	A	140235693	A	A	140235693	2	1	74	1	0	0	0	0	0	0	0	1	11520	871	31	2		2	PCDHA10	5	140235693	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	19822	140235693	40679567	179	28143										
PCDHB9	56127	broad.mit.edu	37	chr5	140569145	140569145	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgttccagagctaccagtacGaggtgtgtctgactggaggt	14	8	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:140569145G>C	uc003liw.1	+	3	2254	c.2254G>C	c.(2254-2256)GAG>CAG	p.E752Q	PCDHB10_uc003lix.2_5'Flank	NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	752	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTACCAGTACGAGGTGTGTCT	0.622													12	197	---	---	---	---	PASS	C	140569145	C	C	140569145	3	2	74	1	0	0	0	0	1	0	0	0	11549	1045	37	2	2255	2	PCDHB9	5	140569145	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	333452	140569145	40346115	180	28144										
PCDHGA7	56108	broad.mit.edu	37	chr5	140762918	140762918	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gaatacagctcctggggttcGgtttccgttaagcgaggctg	14	9	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:140762918G>A	uc003lka.1	+	1	452	c.452G>A	c.(451-453)CGG>CAG	p.R151Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.R151Q	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	151	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGGGGTTCGGTTTCCGTTA	0.468													10	59	---	---	---	---	PASS	A	140762918	A	A	140762918	3	1	74	1	0	0	0	0	1	0	0	0	11559	1116	39	1	454	1	PCDHGA7	5	140762918	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	193773	140762918	40152342	181	28145										
PCDHGC5	56097	broad.mit.edu	37	chr5	140869078	140869078	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tggcagtgaatcaaaagattGaccgagaaagcctatgtgga	12	6	1	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:140869078G>A	uc003lla.1	+	1	271	c.271G>A	c.(271-273)GAC>AAC	p.D91N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc003lky.1_Intron|PCDHGC5_uc011dbc.1_Missense_Mutation_p.D91N	NM_018929	NP_061752	Q9Y5F6	PCDGM_HUMAN	protocadherin gamma subfamily C, 5 isoform 1	91	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAAAAGATTGACCGAGAAAG	0.552													45	40	---	---	---	---	PASS	A	140869078	A	A	140869078	3	1	74	1	0	0	0	0	1	0	0	0	11571	1290	45	2	273	2	PCDHGC5	5	140869078	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	106160	140869078	40046182	182	28146										
NR3C1	2908	broad.mit.edu	37	chr5	142779948	142779948	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agtttttggaaactccttctCtgtgggggcagcagacacag	12	9	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:142779948C>T	uc003lmz.2	-	2	949	c.457G>A	c.(457-459)GAG>AAG	p.E153K	NR3C1_uc003lmy.2_Missense_Mutation_p.E153K|NR3C1_uc003lna.2_Missense_Mutation_p.E153K|NR3C1_uc003lnb.2_Missense_Mutation_p.E153K|NR3C1_uc011dbk.1_Intron|NR3C1_uc003lnc.2_Missense_Mutation_p.E153K|NR3C1_uc003lnd.2_Missense_Mutation_p.E153K|NR3C1_uc003lne.2_Missense_Mutation_p.E153K|NR3C1_uc003lnf.2_Missense_Mutation_p.E153K|NR3C1_uc003lng.2_Missense_Mutation_p.E153K|NR3C1_uc003lnh.2_Missense_Mutation_p.E153K|NR3C1_uc003lni.2_Missense_Mutation_p.E153K	NM_000176	NP_000167	P04150	GCR_HUMAN	glucocorticoid receptor isoform alpha	153	Modulating.				chromatin modification|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus|transcription from RNA polymerase II promoter	mitochondrial matrix|nucleoplasm	glucocorticoid receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(2;3.2e-05)|all_hematologic(2;0.000361)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)		Amcinonide(DB00288)|Betamethasone(DB00443)|Budesonide(DB01222)|Dexamethasone(DB01234)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluticasone Propionate(DB00588)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol Etabonate(DB00873)|Methylprednisolone(DB00959)|Mifepristone(DB00834)|Mometasone(DB00764)|Prednisone(DB00635)	AACTCCTTCTCTGTGGGGGCA	0.473													53	60	---	---	---	---	PASS	T	142779948	T	T	142779948	3	4	74	1	0	0	0	0	1	0	0	0	10630	922	32	2	1963	2	NR3C1	5	142779948	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1910870	142779948	38135312	183	28147										
TCOF1	6949	broad.mit.edu	37	chr5	149751721	149751721	+	Missense_Mutation	SNP	G	T	T													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cccccagccaagagggccaaGaagccagaagaggagtcaga							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:149751721G>T	uc003lry.2	+	7	900	c.792G>T	c.(790-792)AAG>AAT	p.K264N	TCOF1_uc003lrw.2_Missense_Mutation_p.K264N|TCOF1_uc011dch.1_Missense_Mutation_p.K264N|TCOF1_uc003lrz.2_Missense_Mutation_p.K264N|TCOF1_uc003lrx.2_Intron|TCOF1_uc003lsa.2_Intron	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	264					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGAGGGCCAAGAAGCCAGAAG	0.642													8	35	---	---	---	---	PASS	T	149751721	T	T	149751721	3	4	74	1	0	0	0	0	1	0	0	0	15705	933	33	2	818	2	TCOF1	5	149751721	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	6971773	149751721	31163539	184	28148	589	2								
TCOF1	6949	broad.mit.edu	37	chr5	149751728	149751728	+	Missense_Mutation	SNP	G	A	A													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccaagagggccaagaagccaGaagaggagtcagagagtagt							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:149751728G>A	uc003lry.2	+	7	907	c.799G>A	c.(799-801)GAA>AAA	p.E267K	TCOF1_uc003lrw.2_Missense_Mutation_p.E267K|TCOF1_uc011dch.1_Missense_Mutation_p.E267K|TCOF1_uc003lrz.2_Missense_Mutation_p.E267K|TCOF1_uc003lrx.2_Intron|TCOF1_uc003lsa.2_Intron	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	267					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CAAGAAGCCAGAAGAGGAGTC	0.647													5	32	---	---	---	---	PASS	A	149751728	A	A	149751728	3	1	74	1	0	0	0	0	1	0	0	0	15705	943	33	2	825	2	TCOF1	5	149751728	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	7	149751728	31163532	185	28149	589	2								
FAT2	2196	broad.mit.edu	37	chr5	150945454	150945454	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acgatcacctccacatggcaGagagtcctgcgggctagggg	14	12	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:150945454G>A	uc003lue.3	-	1	3052	c.3039C>T	c.(3037-3039)CTC>CTT	p.L1013L	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Silent_p.L1013L	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1013	Extracellular (Potential).|Cadherin 8.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCACATGGCAGAGAGTCCTGC	0.602													5	35	---	---	---	---	PASS	A	150945454	A	A	150945454	2	1	74	1	0	0	0	0	0	0	0	1	5690	929	33	2		2	FAT2	5	150945454	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	1193726	150945454	29969806	186	28150										
GEMIN5	25929	broad.mit.edu	37	chr5	154317677	154317677	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgggggagggcggcagcgtcCgcggctcctgccccataact	16	14	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:154317677C>T	uc003lvx.3	-	1	100	c.17G>A	c.(16-18)CGG>CAG	p.R6Q	GEMIN5_uc011ddk.1_Missense_Mutation_p.R6Q|MRPL22_uc003lvy.3_5'Flank|MRPL22_uc003lvz.3_5'Flank	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	6					ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CGGCAGCGTCCGCGGCTCCTG	0.687													5	8	---	---	---	---	PASS	T	154317677	T	T	154317677	3	4	74	1	0	0	0	0	1	0	0	0	6331	652	23	1	4621	1	GEMIN5	5	154317677	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	3372223	154317677	26597583	187	28151										
SOX30	11063	broad.mit.edu	37	chr5	157075874	157075874	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtcgcttcacatgaccatttCtgtccttactgaagggagta	9	10	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:157075874C>G	uc003lxb.1	-	2	1340	c.998G>C	c.(997-999)AGA>ACA	p.R333T	SOX30_uc003lxc.1_Missense_Mutation_p.R333T|SOX30_uc011dds.1_Missense_Mutation_p.R28T	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	333					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ATGACCATTTCTGTCCTTACT	0.433													8	108	---	---	---	---	PASS	G	157075874	G	G	157075874	3	3	74	1	0	0	0	0	1	0	0	0	14952	913	32	2	1279	2	SOX30	5	157075874	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2758197	157075874	23839386	188	28152										
GABRA1	2554	broad.mit.edu	37	chr5	161300148	161300148	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tacaatagatgtatttttccGtcaaagctggaaggatgaaa	9	5	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr5:161300148G>T	uc010jiw.2	+	6	749	c.281G>T	c.(280-282)CGT>CTT	p.R94L	GABRA1_uc010jix.2_Missense_Mutation_p.R94L|GABRA1_uc010jiy.2_Missense_Mutation_p.R94L|GABRA1_uc003lyx.3_Missense_Mutation_p.R94L|GABRA1_uc010jiz.2_Missense_Mutation_p.R94L|GABRA1_uc010jja.2_Missense_Mutation_p.R94L|GABRA1_uc010jjb.2_Missense_Mutation_p.R94L	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	94	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|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	p.R94H(1)		ovary(2)|pancreas(1)	3	Renal(175;0.00259)	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;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	GTATTTTTCCGTCAAAGCTGG	0.373													62	75	---	---	---	---	PASS	T	161300148	T	T	161300148	3	4	74	1	0	0	0	0	1	0	0	0	6160	1145	40	1	295	1	GABRA1	5	161300148	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	4224274	161300148	19615112	189	28153										
KIAA0319	9856	broad.mit.edu	37	chr6	24596840	24596840	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cctcgctgcactgcttacggGcacaacctttaaacaaagta	7	13	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:24596840G>A	uc011djo.1	-	3	299	c.62C>T	c.(61-63)GCC>GTC	p.A21V	KIAA0319_uc011djp.1_5'UTR|KIAA0319_uc003neh.1_Missense_Mutation_p.A21V|KIAA0319_uc011djq.1_Missense_Mutation_p.A12V|KIAA0319_uc011djr.1_Missense_Mutation_p.A21V	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	21	MANSC.|Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						CTGCTTACGGGCACAACCTTT	0.483													4	111	---	---	---	---	PASS	A	24596840	A	A	24596840	3	1	74	1	0	0	0	0	1	0	0	0	8168	1203	42	3	3232	3	KIAA0319	6	24596840	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08		24596840	146518227	190	28154										
FLOT1	10211	broad.mit.edu	37	chr6	30697820	30697820	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgggagatgctcacgcctgtGagtctttccacactctctgg	11	12	3	2	rs1802471		TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:30697820G>C	uc003nrm.2	-	12	1397	c.1233C>G	c.(1231-1233)CTC>CTG	p.L411L	FLOT1_uc011dmr.1_Silent_p.L363L	NM_005803	NP_005794	O75955	FLOT1_HUMAN	flotillin 1	411						centriolar satellite|endosome|integral to membrane|melanosome|membrane fraction					0						TCACGCCTGTGAGTCTTTCCA	0.547													6	96	---	---	---	---	PASS	C	30697820	C	C	30697820	2	2	74	1	0	0	0	0	0	0	0	1	5936	1277	45	2		2	FLOT1	6	30697820	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	6100980	30697820	140417247	191	28155										
BAT1	7919	broad.mit.edu	37	chr6	31498931	31498931	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aaataggttggtagccacaaGaattcgtcgttgaaaatctt	9	6	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:31498931G>T	uc003ntt.2	-	9	1652	c.1021C>A	c.(1021-1023)CTT>ATT	p.L341I	BAT1_uc003ntq.2_Missense_Mutation_p.L74I|BAT1_uc003ntr.2_Missense_Mutation_p.L148I|BAT1_uc003nts.2_Missense_Mutation_p.L341I|BAT1_uc011dnn.1_Missense_Mutation_p.L263I|BAT1_uc003ntu.2_Missense_Mutation_p.L341I|BAT1_uc003ntv.2_Missense_Mutation_p.L341I	NM_004640	NP_004631	Q13838	DX39B_HUMAN	HLA-B associated transcript 1	341	Helicase C-terminal.				intronless viral mRNA export from host nucleus|RNA secondary structure unwinding|spliceosome assembly	nuclear speck|spliceosomal complex|transcription export complex	ATP binding|ATP-dependent protein binding|ATP-dependent RNA helicase activity|identical protein binding|U4 snRNA binding|U6 snRNA binding				0						GTAGCCACAAGAATTCGTCGT	0.423													5	105	---	---	---	---	PASS	T	31498931	T	T	31498931	3	4	74	1	0	0	0	0	1	0	0	0	1318	942	33	2	277	2	BAT1	6	31498931	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	801111	31498931	139616136	192	28156										
VARS	7407	broad.mit.edu	37	chr6	31752382	31752382	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gggggcgcacctcaatgtcaGagatggcggagttgagggtg	19	7	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:31752382G>C	uc003nxe.2	-	11	1880	c.1457C>G	c.(1456-1458)TCT>TGT	p.S486C	VARS_uc011doi.1_RNA	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	486					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	CTCAATGTCAGAGATGGCGGA	0.592													10	91	---	---	---	---	PASS	C	31752382	C	C	31752382	3	2	74	1	0	0	0	0	1	0	0	0	17120	942	33	2	2417	2	VARS	6	31752382	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	253451	31752382	139362685	193	28157										
SCUBE3	222663	broad.mit.edu	37	chr6	35211449	35211449	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agcgggcaccttccaggagaGagaagggcagctctcctgcg	15	12	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:35211449G>C	uc003okf.1	+	16	1994	c.1988G>C	c.(1987-1989)AGA>ACA	p.R663T	SCUBE3_uc003okg.1_Missense_Mutation_p.R662T|SCUBE3_uc003okh.1_Missense_Mutation_p.R550T	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	663					protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						TTCCAGGAGAGAGAAGGGCAG	0.647													5	76	---	---	---	---	PASS	C	35211449	C	C	35211449	3	2	74	1	0	0	0	0	1	0	0	0	13946	942	33	2	2050	2	SCUBE3	6	35211449	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	3459067	35211449	135903618	194	28158										
CPNE5	57699	broad.mit.edu	37	chr6	36714258	36714258	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acatcttgtcactgtcgtagTgctggatgatctctccgacg	10	11	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:36714258T>A	uc003omr.1	-	16	1182	c.1115A>T	c.(1114-1116)CAC>CTC	p.H372L	CPNE5_uc003omp.1_Missense_Mutation_p.H80L|CPNE5_uc010jwn.1_Missense_Mutation_p.H22L|CPNE5_uc003omq.1_Missense_Mutation_p.H22L	NM_020939	NP_065990	Q9HCH3	CPNE5_HUMAN	copine V	372	VWFA.									skin(1)	1						ACTGTCGTAGTGCTGGATGAT	0.627													67	39	---	---	---	---	PASS	A	36714258	A	A	36714258	3	1	74	1	0	0	0	0	1	0	0	0	3815	1696	59	5	690	5	CPNE5	6	36714258	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	1502809	36714258	134400809	195	28159										
BTBD9	114781	broad.mit.edu	37	chr6	38560460	38560460	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgaaggcctcacaacattcaGaagctctgtgaggctcatga	10	10	4	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:38560460G>C	uc003ooa.3	-	5	1282	c.706C>G	c.(706-708)CTG>GTG	p.L236V	BTBD9_uc003ony.3_Missense_Mutation_p.L168V|BTBD9_uc010jwv.2_Missense_Mutation_p.L168V|BTBD9_uc010jww.2_RNA|BTBD9_uc010jwx.2_Missense_Mutation_p.L236V	NM_052893	NP_443125	Q96Q07	BTBD9_HUMAN	BTB (POZ) domain containing 9 isoform a	236	BACK.				cell adhesion						0						ACAACATTCAGAAGCTCTGTG	0.468													45	64	---	---	---	---	PASS	C	38560460	C	C	38560460	3	2	74	1	0	0	0	0	1	0	0	0	1548	933	33	2	1255	2	BTBD9	6	38560460	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1846202	38560460	132554607	196	28160										
DNAH8	1769	broad.mit.edu	37	chr6	38899745	38899745	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cttgagaatcagttactaagGagagtcattctaacagagaa	9	6	3	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:38899745G>C	uc003ooe.1	+	74	11382	c.10782G>C	c.(10780-10782)AGG>AGC	p.R3594S	DNAH8_uc003oog.1_Missense_Mutation_p.R43S|uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AGTTACTAAGGAGAGTCATTC	0.348													24	88	---	---	---	---	PASS	C	38899745	C	C	38899745	3	2	74	1	0	0	0	0	1	0	0	0	4607	1165	41	2	11068	2	DNAH8	6	38899745	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	339285	38899745	132215322	197	28161										
KCNK17	89822	broad.mit.edu	37	chr6	39271838	39271838	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggagaagagcagcggtggcaGcagcaggaagagcaggaggc	20	7	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:39271838G>A	uc003ooo.2	-	4	723	c.583C>T	c.(583-585)CTG>TTG	p.L195L	KCNK17_uc003oop.2_Silent_p.L195L	NM_031460	NP_113648	Q96T54	KCNKH_HUMAN	potassium channel, subfamily K, member 17	195	Helical; (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2						AGCGGTGGCAGCAGCAGGAAG	0.647													33	64	---	---	---	---	PASS	A	39271838	A	A	39271838	2	1	74	1	0	0	0	0	0	0	0	1	8064	962	34	3		3	KCNK17	6	39271838	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	372093	39271838	131843229	198	28162										
TTBK1	84630	broad.mit.edu	37	chr6	43222319	43222319	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gggcaggctgccctccacctAcaggaagtgctatatgctgg	13	12	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:43222319A>G	uc003ouq.1	+	6	785	c.506A>G	c.(505-507)TAC>TGC	p.Y169C		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	169	Protein kinase.					cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			CCCTCCACCTACAGGAAGTGC	0.662													30	69	---	---	---	---	PASS	G	43222319	G	G	43222319	3	3	74	1	0	0	0	0	1	0	0	0	16673	391	14	5	524	5	TTBK1	6	43222319	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	3950481	43222319	127892748	199	28163										
GPR116	221395	broad.mit.edu	37	chr6	46827066	46827066	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtttctgggtggctggacttGattaccatgctgctcatctg	12	9	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:46827066G>C	uc003oyo.3	-	17	2863	c.2574C>G	c.(2572-2574)ATC>ATG	p.I858M	GPR116_uc011dwj.1_Missense_Mutation_p.I413M|GPR116_uc011dwk.1_Missense_Mutation_p.I287M|GPR116_uc003oyp.3_Missense_Mutation_p.I716M|GPR116_uc003oyq.3_Missense_Mutation_p.I858M|GPR116_uc010jzi.1_Missense_Mutation_p.I530M	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	858	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			GGCTGGACTTGATTACCATGC	0.448													3	83	---	---	---	---	PASS	C	46827066	C	C	46827066	3	2	74	1	0	0	0	0	1	0	0	0	6633	1280	45	2	1486	2	GPR116	6	46827066	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	3604747	46827066	124288001	200	28164										
GPR110	266977	broad.mit.edu	37	chr6	46979767	46979767	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	attgttgaattggacaccctGaaatggctggccagtgacag	12	8	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:46979767G>T	uc003oyt.2	-	10	1291	c.1092C>A	c.(1090-1092)TTC>TTA	p.F364L	GPR110_uc011dwl.1_Missense_Mutation_p.F52L	NM_153840	NP_722582	Q5T601	GP110_HUMAN	G-protein coupled receptor 110 isoform 1	364	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|pancreas(1)	3						TGGACACCCTGAAATGGCTGG	0.468													11	54	---	---	---	---	PASS	T	46979767	T	T	46979767	3	4	74	1	0	0	0	0	1	0	0	0	6627	1281	45	2	1664	2	GPR110	6	46979767	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	152701	46979767	124135300	201	28165										
CRISP3	10321	broad.mit.edu	37	chr6	49698956	49698956	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggacatatagtctattagccCaattaccactgaaatttgaa	6	8	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:49698956C>A	uc003ozs.2	-	7	545	c.530G>T	c.(529-531)TGG>TTG	p.W177L		NM_006061	NP_006052	P54108	CRIS3_HUMAN	cysteine-rich secretory protein 3 precursor	177					innate immune response	proteinaceous extracellular matrix|specific granule				skin(2)	2	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			TCTATTAGCCCAATTACCACT	0.343													40	71	---	---	---	---	PASS	A	49698956	A	A	49698956	3	1	74	1	0	0	0	0	1	0	0	0	3881	595	21	3	215	3	CRISP3	6	49698956	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2719189	49698956	121416111	202	28166										
TFAP2B	7021	broad.mit.edu	37	chr6	50791151	50791151	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tggtgtcccgagccacagctCgcggctctcccagctgggct	13	16	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:50791151C>A	uc003pag.2	+	2	279	c.113C>A	c.(112-114)TCG>TAG	p.S38*		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	38					nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					AGCCACAGCTCGCGGCTCTCC	0.498													5	14	---	---	---	---	PASS	A	50791151	A	A	50791151	4	1	74	1	0	0	0	0	0	1	0	0	15785	893	31	2	119	2	TFAP2B	6	50791151	Nonsense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1092195	50791151	120323916	203	28167										
CD109	135228	broad.mit.edu	37	chr6	74533185	74533185	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tctgcttctttgaacagggaGacaggctgtgagaagttaca	12	7	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:74533185G>A	uc003php.2	+	33	4591	c.4166G>A	c.(4165-4167)AGA>AAA	p.R1389K	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Missense_Mutation_p.R1372K|CD109_uc010kba.2_Missense_Mutation_p.R1312K	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	1389						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						TGAACAGGGAGACAGGCTGTG	0.468													22	30	---	---	---	---	PASS	A	74533185	A	A	74533185	3	1	74	1	0	0	0	0	1	0	0	0	2963	942	33	2	4296	2	CD109	6	74533185	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	23742034	74533185	96581882	204	28168										
SPACA1	81833	broad.mit.edu	37	chr6	88769180	88769180	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tttttaaatagcaatccattAtacttgtaaatgattcagca	4	6	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:88769180A>G	uc003pmn.2	+	5	601	c.484A>G	c.(484-486)ATA>GTA	p.I162V		NM_030960	NP_112222	Q9HBV2	SACA1_HUMAN	sperm acrosome associated 1 precursor	162	Extracellular (Potential).					integral to membrane					0		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.11)		GCAATCCATTATACTTGTAAA	0.333													11	22	---	---	---	---	PASS	G	88769180	G	G	88769180	3	3	74	1	0	0	0	0	1	0	0	0	14972	449	16	5	502	5	SPACA1	6	88769180	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	14235995	88769180	82345887	205	28169										
TRDN	10345	broad.mit.edu	37	chr6	123687319	123687319	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	accaatctcctctttggctcGttcagtttctgcaagttcag	7	12	5	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:123687319G>A	uc003pzj.1	-	20	1304	c.1282C>T	c.(1282-1284)CGA>TGA	p.R428*	TRDN_uc003pzk.1_Nonsense_Mutation_p.R429*|TRDN_uc003pzl.1_Nonsense_Mutation_p.R429*|TRDN_uc010kem.1_Translation_Start_Site	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	428	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		TCTTTGGCTCGTTCAGTTTCT	0.303													16	25	---	---	---	---	PASS	A	123687319	A	A	123687319	4	1	74	1	0	0	0	0	0	1	0	0	16465	1153	40	1	995	1	TRDN	6	123687319	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	34918139	123687319	47427748	206	28170										
NKAIN2	154215	broad.mit.edu	37	chr6	125139577	125139577	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cttatggctatcaagggcctCagaagacatctcatttacaa	7	10	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:125139577C>T	uc003pzo.2	+	6	857	c.580C>T	c.(580-582)CAG>TAG	p.Q194*	NKAIN2_uc003pzp.2_Nonsense_Mutation_p.Q193*|NKAIN2_uc010keq.2_Nonsense_Mutation_p.Q127*|NKAIN2_uc010ker.2_Nonsense_Mutation_p.Q104*	NM_001040214	NP_001035304	Q5VXU1	NKAI2_HUMAN	T-cell lymphoma breakpoint-associated target 1	194						integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)		TCAAGGGCCTCAGAAGACATC	0.363													7	69	---	---	---	---	PASS	T	125139577	T	T	125139577	4	4	74	1	0	0	0	0	0	1	0	0	10436	827	29	2	602	2	NKAIN2	6	125139577	Nonsense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1452258	125139577	45975490	207	28171										
L3MBTL3	84456	broad.mit.edu	37	chr6	130370465	130370465	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggagccctggaagttattacAgatgagaatgagatggaaaa	13	4	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:130370465A>G	uc003qbt.2	+	4	311	c.141A>G	c.(139-141)ACA>ACG	p.T47T	L3MBTL3_uc003qbu.2_Silent_p.T47T	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	47					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		AAGTTATTACAGATGAGAATG	0.378													21	40	---	---	---	---	PASS	G	130370465	G	G	130370465	2	3	74	1	0	0	0	0	0	0	0	1	8593	175	7	5		5	L3MBTL3	6	130370465	Silent	SNP	A	TCGA-34-5928-01A-11D-1817-08	5230888	130370465	40744602	208	28172										
ARG1	383	broad.mit.edu	37	chr6	131902484	131902484	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tggaaacttgcatggacaacCtgtatctttcctcctgaagg	9	10	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:131902484C>T	uc003qcp.1	+	4	489	c.431C>T	c.(430-432)CCT>CTT	p.P144L	ARG1_uc003qco.1_Missense_Mutation_p.P144L|ARG1_uc010kfm.1_Missense_Mutation_p.P152L|MED23_uc003qcq.2_Intron	NM_000045	NP_000036	P05089	ARGI1_HUMAN	arginase 1	144					arginine catabolic process|urea cycle	cytosol	arginase activity			ovary(1)	1	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0106)|OV - Ovarian serous cystadenocarcinoma(155;0.0713)	L-Ornithine(DB00129)	CATGGACAACCTGTATCTTTC	0.453													15	27	---	---	---	---	PASS	T	131902484	T	T	131902484	3	4	74	1	0	0	0	0	1	0	0	0	857	681	24	3	445	3	ARG1	6	131902484	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1532019	131902484	39212583	209	28173										
TAAR6	319100	broad.mit.edu	37	chr6	132892144	132892144	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cttgtggctagacgacaggcGaaaaagatagaaaatactgg	12	6	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:132892144G>A	uc011eck.1	+	1	684	c.684G>A	c.(682-684)GCG>GCA	p.A228A		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	228	Cytoplasmic (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		GACGACAGGCGAAAAAGATAG	0.403													18	29	---	---	---	---	PASS	A	132892144	A	A	132892144	2	1	74	1	0	0	0	0	0	0	0	1	15489	1045	37	2		2	TAAR6	6	132892144	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	989660	132892144	38222923	210	28174										
AHI1	54806	broad.mit.edu	37	chr6	135759594	135759594	+	Frame_Shift_Del	DEL	C	-	-													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cataaatgatattgaggtggCcacacaattctctcatgaaa							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:135759594delC	uc003qgi.2	-	15	2339	c.1955delG	c.(1954-1956)GGCfs	p.G652fs	AHI1_uc003qgf.2_RNA|AHI1_uc003qgg.2_Frame_Shift_Del_p.G102fs|AHI1_uc003qgh.2_Frame_Shift_Del_p.G652fs|AHI1_uc003qgj.2_Frame_Shift_Del_p.G652fs|AHI1_uc003qgk.3_RNA|AHI1_uc003qgl.3_Frame_Shift_Del_p.G652fs	NM_001134831	NP_001128303	Q8N157	AHI1_HUMAN	Abelson helper integration site 1 isoform a	652	WD 2.					adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		ATTGAGGTGGCCACACAATTC	0.353													4	2	---	---	---	---		-	135759594	-	-	135759594	7	5	74	1	0	1	0	1	0	0	0	0	413	739	26	0	1752	0	AHI1	6	135759594	Frame_Shift_Del	DEL	C	TCGA-34-5928-01A-11D-1817-08	2867450	135759594	35355473	211	28175										
PLEKHG1	57480	broad.mit.edu	37	chr6	151121912	151121912	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atactggccaaattcttcagGgagcgtcaggaaactctgaa	10	9	4	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr6:151121912G>A	uc003qny.1	+	7	999	c.687G>A	c.(685-687)AGG>AGA	p.R229R	PLEKHG1_uc011eel.1_Silent_p.R269R|PLEKHG1_uc011eem.1_Silent_p.R288R|PLEKHG1_uc003qnz.2_Silent_p.R229R	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	229	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		AATTCTTCAGGGAGCGTCAGG	0.448													32	44	---	---	---	---	PASS	A	151121912	A	A	151121912	2	1	74	1	0	0	0	0	0	0	0	1	12068	1223	43	3		3	PLEKHG1	6	151121912	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	15362318	151121912	19993155	212	28176										
INTS1	26173	broad.mit.edu	37	chr7	1512808	1512808	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atcaccaggtcactgttgtcGaaggacaggtcgctggggag	15	9	2	0	rs138397380	by1000genomes	TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:1512808G>A	uc003skn.2	-	43	6071	c.5970C>T	c.(5968-5970)TTC>TTT	p.F1990F	INTS1_uc003skm.1_Silent_p.F127F	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	1990					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CACTGTTGTCGAAGGACAGGT	0.627													8	49	---	---	---	---	PASS	A	1512808	A	A	1512808	2	1	74	1	0	0	0	0	0	0	0	1	7775	1049	37	2		2	INTS1	7	1512808	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08		1512808	157625855	213	28177										
EIF2AK1	27102	broad.mit.edu	37	chr7	6077058	6077058	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcatcgcccccacttaccttCagatctcggtgcacaattcc	5	17	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:6077058C>G	uc003spp.2	-	11	1475	c.1329G>C	c.(1327-1329)CTG>CTC	p.L443L	EIF2AK1_uc003spq.2_Silent_p.L442L|EIF2AK1_uc011jwm.1_Silent_p.L319L	NM_014413	NP_055228	Q9BQI3	E2AK1_HUMAN	eukaryotic translation initiation factor 2-alpha	443	Protein kinase.				negative regulation of hemoglobin biosynthetic process|negative regulation of translational initiation by iron|protein autophosphorylation|response to external stimulus|response to stress	cytoplasm	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|heme binding|protein homodimerization activity			upper_aerodigestive_tract(1)|stomach(1)|lung(1)|central_nervous_system(1)	4		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.106)|OV - Ovarian serous cystadenocarcinoma(56;5.22e-14)		CACTTACCTTCAGATCTCGGT	0.383													10	122	---	---	---	---	PASS	G	6077058	G	G	6077058	2	3	74	1	0	0	0	0	0	0	0	1	4996	813	29	2		2	EIF2AK1	7	6077058	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	4564250	6077058	153061605	214	28178										
TMEM195	392636	broad.mit.edu	37	chr7	15405803	15405803	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccaatggaagtcaaggtcagGataatgaagcaaaccctcag	10	9	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:15405803G>A	uc003stb.1	-	11	1289	c.1119C>T	c.(1117-1119)ATC>ATT	p.I373I		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	373	Helical; (Potential).				ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						TCAAGGTCAGGATAATGAAGC	0.388													3	21	---	---	---	---	PASS	A	15405803	A	A	15405803	2	1	74	1	0	0	0	0	0	0	0	1	16114	1164	41	2		2	TMEM195	7	15405803	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	9328745	15405803	143732860	215	28179										
DNAH11	8701	broad.mit.edu	37	chr7	21760441	21760441	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tattttgtatttgcttgtatCtgggcttttggaggcaccct	10	7	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:21760441C>G	uc003svc.2	+	45	7285	c.7254C>G	c.(7252-7254)ATC>ATG	p.I2418M		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2418					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TTGCTTGTATCTGGGCTTTTG	0.423									Kartagener_syndrome				4	65	---	---	---	---	PASS	G	21760441	G	G	21760441	3	3	74	1	0	0	0	0	1	0	0	0	4599	903	32	2	7429	2	DNAH11	7	21760441	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	6354638	21760441	137378222	216	28180										
NPC1L1	29881	broad.mit.edu	37	chr7	44555412	44555412	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gggcactcacccacgtagctGaggatgacgggcaggaagac	15	11	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:44555412G>A	uc003tlb.2	-	19	3923	c.3867C>T	c.(3865-3867)CTC>CTT	p.L1289L	NPC1L1_uc003tlc.2_Silent_p.L1262L|NPC1L1_uc011kbw.1_Silent_p.L1216L|NPC1L1_uc003tla.2_Intron	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	1289	Cytoplasmic (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	CCACGTAGCTGAGGATGACGG	0.547													6	81	---	---	---	---	PASS	A	44555412	A	A	44555412	2	1	74	1	0	0	0	0	0	0	0	1	10571	1277	45	2		2	NPC1L1	7	44555412	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	22794971	44555412	114583251	217	28181										
ADCY1	107	broad.mit.edu	37	chr7	45725805	45725805	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tctggagctcagcggatacaCcaggactgggtaagtgtgtg	15	8	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:45725805C>T	uc003tne.3	+	13	2336	c.2318C>T	c.(2317-2319)ACC>ATC	p.T773I		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	773	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	AGCGGATACACCAGGACTGGG	0.522													34	97	---	---	---	---	PASS	T	45725805	T	T	45725805	3	4	74	1	0	0	0	0	1	0	0	0	292	507	18	3	2368	3	ADCY1	7	45725805	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1170393	45725805	113412858	218	28182										
ABCA13	154664	broad.mit.edu	37	chr7	48319431	48319431	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	attgactttccttatagtttCaaaccatttttctgtttgga	5	7	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:48319431C>G	uc003toq.2	+	18	8665	c.8640C>G	c.(8638-8640)TTC>TTG	p.F2880L	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2880					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CTTATAGTTTCAAACCATTTT	0.338													52	74	---	---	---	---	PASS	G	48319431	G	G	48319431	3	3	74	1	0	0	0	0	1	0	0	0	31	825	29	2	8539	2	ABCA13	7	48319431	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2593626	48319431	110819232	219	28183										
KIAA1324L	222223	broad.mit.edu	37	chr7	86509809	86509809	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atatatttggggatcttgagGttttcagttgaacagattca	10	4	3	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:86509809G>A	uc011kha.1	-	22	3253	c.3068C>T	c.(3067-3069)ACC>ATC	p.T1023I	KIAA1324L_uc003uif.1_Missense_Mutation_p.T783I|KIAA1324L_uc011kgz.1_Missense_Mutation_p.T909I|KIAA1324L_uc003uie.2_Missense_Mutation_p.T856I	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	1023	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					GGATCTTGAGGTTTTCAGTTG	0.338													27	66	---	---	---	---	PASS	A	86509809	A	A	86509809	3	1	74	1	0	0	0	0	1	0	0	0	8224	1261	44	3	25	3	KIAA1324L	7	86509809	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	38190378	86509809	72628854	220	28184										
AKAP9	10142	broad.mit.edu	37	chr7	91699518	91699518	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgagtgcagatacttttcaaAaggtgtggcattttatttgg	11	4	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:91699518A>T	uc003ulg.2	+	27	6730	c.6505A>T	c.(6505-6507)AAG>TAG	p.K2169*	AKAP9_uc003ulf.2_Intron|AKAP9_uc003uli.2_Nonsense_Mutation_p.K1792*|AKAP9_uc003ulj.2_Intron	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2181	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TACTTTTCAAAAGGTGTGGCA	0.328			T	BRAF	papillary thyroid								27	109	---	---	---	---	PASS	T	91699518	T	T	91699518	4	4	74	1	0	0	0	0	0	1	0	0	459	15	1	5	6611	5	AKAP9	7	91699518	Nonsense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	5189709	91699518	67439145	221	28185										
ASB4	51666	broad.mit.edu	37	chr7	95115428	95115428	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tagatgtggacactgtttttGaagtcgaagatgagaatatg	12	3	0	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:95115428G>C	uc011kij.1	+	1	145	c.145G>C	c.(145-147)GAA>CAA	p.E49Q	ASB4_uc003unx.2_Missense_Mutation_p.E49Q	NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	49					intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			CACTGTTTTTGAAGTCGAAGA	0.328													5	134	---	---	---	---	PASS	C	95115428	C	C	95115428	3	2	74	1	0	0	0	0	1	0	0	0	1025	1291	45	2	147	2	ASB4	7	95115428	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	3415910	95115428	64023235	222	28186										
SLC25A13	10165	broad.mit.edu	37	chr7	95751219	95751219	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttctaaagcagtctatcactCcgctgtaagtggtttggcca	9	10	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:95751219C>G	uc003uof.3	-	16	1873	c.1682G>C	c.(1681-1683)GGA>GCA	p.G561A	SLC25A13_uc003uog.3_Missense_Mutation_p.G562A|SLC25A13_uc011kik.1_Missense_Mutation_p.G453A	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	561	Solcar 3.				ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	GTCTATCACTCCGCTGTAAGT	0.483													31	104	---	---	---	---	PASS	G	95751219	G	G	95751219	3	3	74	1	0	0	0	0	1	0	0	0	14475	855	30	2	357	2	SLC25A13	7	95751219	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	635791	95751219	63387444	223	28187										
ZKSCAN1	7586	broad.mit.edu	37	chr7	99631580	99631580	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aagcatcagagaattcacacGggggagaaaccctatgaatg	11	8	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:99631580G>T	uc003usk.1	+	6	1671	c.1452G>T	c.(1450-1452)ACG>ACT	p.T484T	ZKSCAN1_uc003usl.1_Silent_p.T448T|ZKSCAN1_uc003usm.1_Silent_p.T271T	NM_003439	NP_003430	P17029	ZKSC1_HUMAN	zinc finger protein 36	484					viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			GAATTCACACGGGGGAGAAAC	0.473													32	99	---	---	---	---	PASS	T	99631580	T	T	99631580	2	4	74	1	0	0	0	0	0	0	0	1	17683	1103	39	1		1	ZKSCAN1	7	99631580	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	3880361	99631580	59507083	224	28188										
ZCWPW1	55063	broad.mit.edu	37	chr7	99998905	99998905	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttctaacttcttttccctctGaaaagctggctgccaaggcc	7	13	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:99998905G>A	uc003uut.2	-	18	1927	c.1679C>T	c.(1678-1680)TCA>TTA	p.S560L	ZCWPW1_uc011kjq.1_Missense_Mutation_p.S440L|ZCWPW1_uc003uur.2_Nonsense_Mutation_p.Q369*|ZCWPW1_uc003uus.2_Missense_Mutation_p.S389L|ZCWPW1_uc011kjr.1_Nonsense_Mutation_p.Q489*|ZCWPW1_uc011kjp.1_RNA	NM_017984	NP_060454	Q9H0M4	ZCPW1_HUMAN	zinc finger, CW type with PWWP domain 1	560							zinc ion binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TTTTCCCTCTGAAAAGCTGGC	0.512													14	100	---	---	---	---	PASS	A	99998905	A	A	99998905	3	1	74	1	0	0	0	0	1	0	0	0	17594	1294	45	2	271	2	ZCWPW1	7	99998905	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	367325	99998905	59139758	225	28189										
CADPS2	93664	broad.mit.edu	37	chr7	122027211	122027211	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgccttttgtagcttgagttCaaatgcagttcttgttctag	9	7	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:122027211C>G	uc010lkp.2	-	23	3344	c.3181G>C	c.(3181-3183)GAA>CAA	p.E1061Q	CADPS2_uc011knx.1_Missense_Mutation_p.E436Q|CADPS2_uc003vkg.3_Missense_Mutation_p.E715Q|CADPS2_uc010lkq.2_Missense_Mutation_p.E1015Q	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	1061	Interaction with DRD2.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						AGCTTGAGTTCAAATGCAGTT	0.363													3	17	---	---	---	---	PASS	G	122027211	G	G	122027211	3	3	74	1	0	0	0	0	1	0	0	0	2571	835	29	2	756	2	CADPS2	7	122027211	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	22028306	122027211	37111452	226	28190										
CADPS2	93664	broad.mit.edu	37	chr7	122056162	122056162	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	taagacttctatgcagagctCtgccagatgaagaatctctt	8	9	3	5			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:122056162C>G	uc010lkp.2	-	17	2696	c.2533G>C	c.(2533-2535)GAG>CAG	p.E845Q	CADPS2_uc011knx.1_Missense_Mutation_p.E223Q|CADPS2_uc003vkg.3_Missense_Mutation_p.E542Q|CADPS2_uc010lkq.2_Missense_Mutation_p.E842Q	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	845	Interaction with DRD2.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						ATGCAGAGCTCTGCCAGATGA	0.388													4	6	---	---	---	---	PASS	G	122056162	G	G	122056162	3	3	74	1	0	0	0	0	1	0	0	0	2571	922	32	2	1428	2	CADPS2	7	122056162	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	28951	122056162	37082501	227	28191										
FAM180A	389558	broad.mit.edu	37	chr7	135418826	135418826	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgtccttctgatggccgtggGacagggctgtgcggtaggct	17	9	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:135418826G>T	uc003vtd.2	-	3	685	c.419C>A	c.(418-420)TCC>TAC	p.S140Y	FAM180A_uc010lmt.2_RNA|FAM180A_uc010lmu.2_Missense_Mutation_p.S140Y	NM_205855	NP_995327	Q6UWF9	F180A_HUMAN	hypothetical protein LOC389558 precursor	140						extracellular region				ovary(2)	2						ATGGCCGTGGGACAGGGCTGT	0.617													34	65	---	---	---	---	PASS	T	135418826	T	T	135418826	3	4	74	1	0	0	0	0	1	0	0	0	5507	1174	41	2	106	2	FAM180A	7	135418826	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	13362664	135418826	23719837	228	28192										
OR9A2	135924	broad.mit.edu	37	chr7	142723506	142723506	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acaacacaggtgaagtgggaGgcaaaagtggagaaggcttt	15	5	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:142723506G>A	uc003wcc.1	-	1	714	c.714C>T	c.(712-714)GCC>GCT	p.A238A		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	238	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					TGAAGTGGGAGGCAAAAGTGG	0.488													24	89	---	---	---	---	PASS	A	142723506	A	A	142723506	2	1	74	1	0	0	0	0	0	0	0	1	11248	987	35	3		3	OR9A2	7	142723506	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	7304680	142723506	16415157	229	28193										
ZYX	7791	broad.mit.edu	37	chr7	143085896	143085896	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtaacacctgcggggagcccAtcactgaccgcatgctgagg	13	13	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:143085896A>G	uc003wcw.2	+	8	1506	c.1351A>G	c.(1351-1353)ATC>GTC	p.I451V	ZYX_uc011ktd.1_Missense_Mutation_p.I294V|ZYX_uc003wcx.2_Missense_Mutation_p.I451V|ZYX_uc011kte.1_Missense_Mutation_p.I420V|ZYX_uc011ktf.1_Missense_Mutation_p.I294V	NM_001010972	NP_001010972	Q15942	ZYX_HUMAN	zyxin	451	LIM zinc-binding 2.				cell adhesion|cell-cell signaling|interspecies interaction between organisms|signal transduction	cell-cell adherens junction|cytoplasm|focal adhesion|integral to plasma membrane|nucleus|stress fiber	protein binding|zinc ion binding				0	Melanoma(164;0.205)					CGGGGAGCCCATCACTGACCG	0.662													14	67	---	---	---	---	PASS	G	143085896	G	G	143085896	3	3	74	1	0	0	0	0	1	0	0	0	18251	217	8	5	1377	5	ZYX	7	143085896	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	362390	143085896	16052767	230	28194										
TAS2R60	338398	broad.mit.edu	37	chr7	143141402	143141402	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggtgtgggagtcagtgatttAtctgtgtgcagcagttcacc	14	7	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:143141402A>G	uc011ktg.1	+	1	857	c.857A>G	c.(856-858)TAT>TGT	p.Y286C	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	286	Cytoplasmic (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					TCAGTGATTTATCTGTGTGCA	0.493													117	180	---	---	---	---	PASS	G	143141402	G	G	143141402	3	3	74	1	0	0	0	0	1	0	0	0	15582	449	16	5	859	5	TAS2R60	7	143141402	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	55506	143141402	15997261	231	28195										
KRBA1	84626	broad.mit.edu	37	chr7	149425626	149425626	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cttcacaggaagcccaccagGaagctccccactgcagggtc	10	16	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:149425626G>A	uc003wfz.2	+	12	1886	c.1487G>A	c.(1486-1488)GGA>GAA	p.G496E	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_Missense_Mutation_p.G164E	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	496										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AGCCCACCAGGAAGCTCCCCA	0.582													71	176	---	---	---	---	PASS	A	149425626	A	A	149425626	3	1	74	1	0	0	0	0	1	0	0	0	8439	1174	41	2	1529	2	KRBA1	7	149425626	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	6284224	149425626	9713037	232	28196										
ZNF775	285971	broad.mit.edu	37	chr7	150094078	150094078	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctgctgccccgagtgcgcgcGgcgcttcagccagaagcagc	14	16	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:150094078G>A	uc003whf.1	+	3	634	c.509G>A	c.(508-510)CGG>CAG	p.R170Q		NM_173680	NP_775951	Q96BV0	ZN775_HUMAN	zinc finger protein 775	170	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.0173)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GAGTGCGCGCGGCGCTTCAGC	0.697													10	22	---	---	---	---	PASS	A	150094078	A	A	150094078	3	1	74	1	0	0	0	0	1	0	0	0	18145	1116	39	1	515	1	ZNF775	7	150094078	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	668452	150094078	9044585	233	28197										
ZNF775	285971	broad.mit.edu	37	chr7	150094922	150094922	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cagttcatctgcaacgagtgCggcaagagcttctcgtggtg	13	10	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:150094922C>T	uc003whf.1	+	3	1478	c.1353C>T	c.(1351-1353)TGC>TGT	p.C451C	LOC728743_uc003whg.2_5'Flank	NM_173680	NP_775951	Q96BV0	ZN775_HUMAN	zinc finger protein 775	451	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.0173)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCAACGAGTGCGGCAAGAGCT	0.731													5	14	---	---	---	---	PASS	T	150094922	T	T	150094922	2	4	74	1	0	0	0	0	0	0	0	1	18145	776	27	1		1	ZNF775	7	150094922	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	844	150094922	9043741	234	28198										
MLL3	58508	broad.mit.edu	37	chr7	152055756	152055756	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgcagttttccccctacttcGaggtctacagaaaaaaaaaa	6	10	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr7:152055756G>A	uc003wla.2	-	2	385	c.166C>T	c.(166-168)CGA>TGA	p.R56*		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	56					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CCCCTACTTCGAGGTCTACAG	0.358			N		medulloblastoma								80	218	---	---	---	---	PASS	A	152055756	A	A	152055756	4	1	74	1	0	0	0	0	0	1	0	0	9622	1066	37	2	14801	2	MLL3	7	152055756	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1960834	152055756	7082907	235	28199										
PCM1	5108	broad.mit.edu	37	chr8	17819547	17819547	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtgaattcctttttagctgtCagctgctagtgtgggtaact	11	7	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:17819547C>T	uc003wyi.3	+	16	2749	c.2327C>T	c.(2326-2328)TCA>TTA	p.S776L	PCM1_uc011kyh.1_Missense_Mutation_p.S776L|PCM1_uc003wyj.3_Missense_Mutation_p.S777L	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	776					centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		TTTTAGCTGTCAGCTGCTAGT	0.358			T	RET|JAK2	papillary thyroid|CML|MPD								9	17	---	---	---	---	PASS	T	17819547	T	T	17819547	3	4	74	1	0	0	0	0	1	0	0	0	11584	838	29	2	2381	2	PCM1	8	17819547	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08		17819547	128544475	236	28200										
ADAM18	8749	broad.mit.edu	37	chr8	39495998	39495998	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atgtagttacaggaaacatcCtaaatatgtgggagcaacat	9	6	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:39495998C>A	uc003xni.2	+	10	842	c.842C>A	c.(841-843)CCT>CAT	p.P281H	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.P257H	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	281	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			AGGAAACATCCTAAATATGTG	0.279													18	127	---	---	---	---	PASS	A	39495998	A	A	39495998	3	1	74	1	0	0	0	0	1	0	0	0	239	681	24	3	880	3	ADAM18	8	39495998	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	21676451	39495998	106868024	237	28201										
PRKDC	5591	broad.mit.edu	37	chr8	48815131	48815131	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gttgtgtagcttacaaacctGaattccctgtagatattatt	7	7	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:48815131G>C	uc003xqi.2	-	27	3324	c.3267C>G	c.(3265-3267)TTC>TTG	p.F1089L	PRKDC_uc003xqj.2_Missense_Mutation_p.F1089L|PRKDC_uc011ldh.1_Missense_Mutation_p.F1089L	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1089					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TTACAAACCTGAATTCCCTGT	0.413								NHEJ					13	53	---	---	---	---	PASS	C	48815131	C	C	48815131	3	2	74	1	0	0	0	0	1	0	0	0	12521	1281	45	2	9358	2	PRKDC	8	48815131	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	9319133	48815131	97548891	238	28202										
TTPA	7274	broad.mit.edu	37	chr8	63973878	63973878	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttataaaatttgtccattccTgacaaatgtcctccatggag	6	9	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:63973878T>C	uc003xux.1	-	5	802	c.770A>G	c.(769-771)CAG>CGG	p.Q257R		NM_000370	NP_000361	P49638	TTPA_HUMAN	tocopherol (alpha) transfer protein	257					lipid metabolic process		transporter activity|vitamin E binding				0	Breast(64;0.0716)	all_cancers(86;0.145)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.123)			Vitamin E(DB00163)	TGTCCATTCCTGACAAATGTC	0.388													18	88	---	---	---	---	PASS	C	63973878	C	C	63973878	3	2	74	1	0	0	0	0	1	0	0	0	16733	1580	55	5	70	5	TTPA	8	63973878	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	15158747	63973878	82390144	239	28203										
PREX2	80243	broad.mit.edu	37	chr8	69104751	69104751	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	catcatcatgtgcagcagcgGtgtgcatcggtatgtgaccc	12	11	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:69104751G>A	uc003xxv.1	+	37	4622	c.4595G>A	c.(4594-4596)GGT>GAT	p.G1532D		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1532					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TGCAGCAGCGGTGTGCATCGG	0.493													8	52	---	---	---	---	PASS	A	69104751	A	A	69104751	3	1	74	1	0	0	0	0	1	0	0	0	12477	1261	44	3	4970	3	PREX2	8	69104751	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	5130873	69104751	77259271	240	28204										
C8orf34	116328	broad.mit.edu	37	chr8	69445374	69445374	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gataatgaagatgatgcaatGgaattgctgggtaattttaa	11	2	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:69445374G>A	uc010lyz.2	+	7	886	c.837G>A	c.(835-837)ATG>ATA	p.M279I	C8orf34_uc010lyy.1_Missense_Mutation_p.M279I|C8orf34_uc003xyb.2_Missense_Mutation_p.M254I	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	279					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)			ATGATGCAATGGAATTGCTGG	0.333													31	123	---	---	---	---	PASS	A	69445374	A	A	69445374	3	1	74	1	0	0	0	0	1	0	0	0	2422	1348	47	3	784	3	C8orf34	8	69445374	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	340623	69445374	76918648	241	28205										
LACTB2	51110	broad.mit.edu	37	chr8	71574130	71574130	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctccagtgtcaatgaggattCtcctgaaaattaaatggaag	9	7	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:71574130C>G	uc011lfd.1	-	2	217	c.125G>C	c.(124-126)AGA>ACA	p.R42T	LACTB2_uc003xyp.2_Missense_Mutation_p.R42T	NM_016027	NP_057111	Q53H82	LACB2_HUMAN	lactamase, beta 2	42							hydrolase activity|metal ion binding			ovary(1)	1	Breast(64;0.0716)		Epithelial(68;0.00319)|all cancers(69;0.0175)|OV - Ovarian serous cystadenocarcinoma(28;0.0628)|BRCA - Breast invasive adenocarcinoma(89;0.166)			AATGAGGATTCTCCTGAAAAT	0.353													28	107	---	---	---	---	PASS	G	71574130	G	G	71574130	3	3	74	1	0	0	0	0	1	0	0	0	8598	913	32	2	765	2	LACTB2	8	71574130	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2128756	71574130	74789892	242	28206										
ZFHX4	79776	broad.mit.edu	37	chr8	77617479	77617479	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttgccttcttaaaaggaagcGcgagcacctcgagctcagca	10	12	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:77617479G>A	uc003yav.2	+	2	1543	c.1156G>A	c.(1156-1158)GCG>ACG	p.A386T	ZFHX4_uc003yat.1_Missense_Mutation_p.A386T|ZFHX4_uc003yau.1_Missense_Mutation_p.A386T|ZFHX4_uc003yaw.1_Missense_Mutation_p.A386T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	386						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAAAGGAAGCGCGAGCACCTC	0.537										HNSCC(33;0.089)			18	96	---	---	---	---	PASS	A	77617479	A	A	77617479	3	1	74	1	0	0	0	0	1	0	0	0	17632	1087	38	1	1158	1	ZFHX4	8	77617479	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	6043349	77617479	68746543	243	28207										
OSR2	116039	broad.mit.edu	37	chr8	99961747	99961747	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aaatcctacaatttgctcatCcatgagaggacccacacgga	7	12	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:99961747C>A	uc003yir.2	+	2	1102	c.567C>A	c.(565-567)ATC>ATA	p.I189I	OSR2_uc010mbn.2_Silent_p.I189I|OSR2_uc003yiq.2_Silent_p.I189I|OSR2_uc011lgx.1_Silent_p.I310I	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	189	C2H2-type 1.				bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding			central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			ATTTGCTCATCCATGAGAGGA	0.532													165	174	---	---	---	---	PASS	A	99961747	A	A	99961747	2	1	74	1	0	0	0	0	0	0	0	1	11294	845	30	2		2	OSR2	8	99961747	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	22344268	99961747	46402275	244	28208										
GRHL2	79977	broad.mit.edu	37	chr8	102570785	102570785	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aagcgggaacagtacagcatCagcttccccgagagctctgc	11	13	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:102570785C>T	uc010mbu.2	+	4	753	c.423C>T	c.(421-423)ATC>ATT	p.I141I	GRHL2_uc011lhi.1_Silent_p.I141I	NM_024915	NP_079191	Q6ISB3	GRHL2_HUMAN	transcription factor CP2-like 3	141						cytoplasm|nucleus	DNA binding			ovary(2)|skin(1)	3	all_cancers(14;4.39e-08)|all_epithelial(15;4.09e-10)|Lung NSC(17;7.11e-06)|all_lung(17;1.44e-05)		Epithelial(11;5.81e-09)|all cancers(13;3.81e-07)|OV - Ovarian serous cystadenocarcinoma(57;0.000213)			AGTACAGCATCAGCTTCCCCG	0.512													38	163	---	---	---	---	PASS	T	102570785	T	T	102570785	2	4	74	1	0	0	0	0	0	0	0	1	6764	816	29	2		2	GRHL2	8	102570785	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	2609038	102570785	43793237	245	28209										
ABRA	137735	broad.mit.edu	37	chr8	107773726	107773726	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggctttgcagttgagtttctCtgtaaatctgtttaccctaa	8	8	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:107773726C>G	uc003ymm.3	-	2	739	c.685G>C	c.(685-687)GAG>CAG	p.E229Q		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	229					positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			TTGAGTTTCTCTGTAAATCTG	0.433													5	113	---	---	---	---	PASS	G	107773726	G	G	107773726	3	3	74	1	0	0	0	0	1	0	0	0	100	922	32	2	464	2	ABRA	8	107773726	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	5202941	107773726	38590296	246	28210										
ANGPT1	284	broad.mit.edu	37	chr8	108334175	108334175	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtggactgtgtccatcagctCcagttgctgcttctgaagga	12	10	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:108334175C>T	uc003ymn.2	-	4	1225	c.757G>A	c.(757-759)GAG>AAG	p.E253K	ANGPT1_uc011lhv.1_Missense_Mutation_p.E53K|ANGPT1_uc003ymo.2_Missense_Mutation_p.E253K|ANGPT1_uc003ymp.3_Missense_Mutation_p.E53K	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	253	Potential.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			TCCATCAGCTCCAGTTGCTGC	0.403													43	141	---	---	---	---	PASS	T	108334175	T	T	108334175	3	4	74	1	0	0	0	0	1	0	0	0	610	864	30	2	763	2	ANGPT1	8	108334175	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	560449	108334175	38029847	247	28211										
COLEC10	10584	broad.mit.edu	37	chr8	120118073	120118073	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agggaaactgaagagaaattCtactacatcgtgcaggaaga	11	6	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:120118073C>T	uc003yoo.2	+	6	574	c.477C>T	c.(475-477)TTC>TTT	p.F159F		NM_006438	NP_006429	Q9Y6Z7	COL10_HUMAN	collectin sub-family member 10 precursor	159	C-type lectin.					collagen|cytoplasm	mannose binding			ovary(2)|skin(1)	3	all_cancers(13;4.13e-26)|Lung NSC(37;1.36e-07)|Ovarian(258;0.018)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00113)			AAGAGAAATTCTACTACATCG	0.438													4	68	---	---	---	---	PASS	T	120118073	T	T	120118073	2	4	74	1	0	0	0	0	0	0	0	1	3710	912	32	2		2	COLEC10	8	120118073	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	11783898	120118073	26245949	248	28212										
MAL2	114569	broad.mit.edu	37	chr8	120252475	120252475	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	attggaagcagcagccacatCcctgcatgatttgcattgca	9	11	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:120252475C>G	uc003yop.2	+	4	476	c.374C>G	c.(373-375)TCC>TGC	p.S125C		NM_052886	NP_443118	Q969L2	MAL2_HUMAN	MAL2 proteolipid protein	125	Lumenal (Potential).|MARVEL.					apical plasma membrane|endomembrane system|integral to membrane|perinuclear region of cytoplasm	protein binding				0	all_cancers(13;1.91e-26)|Lung NSC(37;8.61e-08)|Ovarian(258;0.018)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000967)			GCAGCCACATCCCTGCATGAT	0.398													11	126	---	---	---	---	PASS	G	120252475	G	G	120252475	3	3	74	1	0	0	0	0	1	0	0	0	9200	855	30	2	385	2	MAL2	8	120252475	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	134402	120252475	26111547	249	28213										
MTBP	27085	broad.mit.edu	37	chr8	121514775	121514775	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcctcaagtctaatggaaacCaatcctctggaatggccaga	8	11	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:121514775C>A	uc003ypc.1	+	15	1698	c.1653C>A	c.(1651-1653)ACC>ACA	p.T551T		NM_022045	NP_071328	Q96DY7	MTBP_HUMAN	Mdm2, transformed 3T3 cell double minute 2, p53	551	Interaction with MDM2 (By similarity).				cell cycle arrest					skin(2)|ovary(1)	3	Lung NSC(37;5.68e-08)|Ovarian(258;0.00769)|all_neural(195;0.0804)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00503)			TAATGGAAACCAATCCTCTGG	0.313													16	53	---	---	---	---	PASS	A	121514775	A	A	121514775	2	1	74	1	0	0	0	0	0	0	0	1	9912	581	21	3		3	MTBP	8	121514775	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	1262300	121514775	24849247	250	28214										
WDR67	93594	broad.mit.edu	37	chr8	124146371	124146371	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	taggtatatatgagagatcgAgaaattgctgccacagccag	11	7	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:124146371A>T	uc003ypp.1	+	17	2514	c.2424A>T	c.(2422-2424)CGA>CGT	p.R808R	WDR67_uc011lig.1_Intron|WDR67_uc011lih.1_Silent_p.R698R|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Silent_p.R442R|WDR67_uc003ypt.1_Silent_p.R265R|WDR67_uc003ypu.1_Silent_p.R265R	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	808	Potential.					centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			TGAGAGATCGAGAAATTGCTG	0.323													30	148	---	---	---	---	PASS	T	124146371	T	T	124146371	2	4	74	1	0	0	0	0	0	0	0	1	17315	291	11	5		5	WDR67	8	124146371	Silent	SNP	A	TCGA-34-5928-01A-11D-1817-08	2631596	124146371	22217651	251	28215										
RNF139	11236	broad.mit.edu	37	chr8	125499022	125499022	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cagaccctgtattaatgtctCtcagtgcctctcatgtgtca	7	12	4	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:125499022C>T	uc003yrc.2	+	2	1475	c.1132C>T	c.(1132-1134)CTC>TTC	p.L378F		NM_007218	NP_009149	Q8WU17	RN139_HUMAN	ring finger protein 139	378					negative regulation of cell proliferation|regulation of protein ubiquitination	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			ATTAATGTCTCTCAGTGCCTC	0.398									Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				8	571	---	---	---	---	PASS	T	125499022	T	T	125499022	3	4	74	1	0	0	0	0	1	0	0	0	13442	913	32	2	1138	2	RNF139	8	125499022	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1352651	125499022	20865000	252	28216										
SLA	6503	broad.mit.edu	37	chr8	134063088	134063088	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcacacgcagtttctcccctCggcggaatatcggggggctg	13	13	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:134063088C>G	uc003ytz.2	-	4	966	c.134G>C	c.(133-135)CGA>CCA	p.R45P	TG_uc003ytw.2_Intron|TG_uc010mdw.2_Intron|TG_uc011ljb.1_Intron|TG_uc011ljc.1_Intron|SLA_uc011lje.1_Missense_Mutation_p.R62P|SLA_uc011ljf.1_5'UTR|SLA_uc011ljg.1_Missense_Mutation_p.R62P|SLA_uc010mdy.1_Missense_Mutation_p.R45P|SLA_uc010mdz.1_Missense_Mutation_p.R45P|SLA_uc010mea.2_RNA|SLA_uc011ljd.1_Missense_Mutation_p.R85P	NM_001045556	NP_001039021	Q13239	SLAP1_HUMAN	Src-like-adaptor isoform a	45	SH3.					endosome	SH3/SH2 adaptor activity			lung(1)|liver(1)	2	all_epithelial(106;3.51e-21)|Lung NSC(106;4.24e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0279)|Breast(495;0.037)	BRCA - Breast invasive adenocarcinoma(115;0.000701)			TTTCTCCCCTCGGCGGAATAT	0.502													9	130	---	---	---	---	PASS	G	134063088	G	G	134063088	3	3	74	1	0	0	0	0	1	0	0	0	14363	884	31	2	720	2	SLA	8	134063088	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	8564066	134063088	12300934	253	28217										
EPPK1	83481	broad.mit.edu	37	chr8	144942409	144942409	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atgccgtgctcccggacgatGaggtccttctgcatggcctg	13	13	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:144942409G>C	uc003zaa.1	-	1	5026	c.5013C>G	c.(5011-5013)CTC>CTG	p.L1671L		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1671	Plectin 28.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCCGGACGATGAGGTCCTTCT	0.687													9	166	---	---	---	---	PASS	C	144942409	C	C	144942409	2	2	74	1	0	0	0	0	0	0	0	1	5190	1277	45	2		2	EPPK1	8	144942409	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	10879321	144942409	1421613	254	28218										
EPPK1	83481	broad.mit.edu	37	chr8	144943418	144943418	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tggcctgccacagagagaggGaggccctagagtagggatct	16	9	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:144943418G>A	uc003zaa.1	-	1	4017	c.4004C>T	c.(4003-4005)TCC>TTC	p.S1335F		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1335	Plectin 23.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CAGAGAGAGGGAGGCCCTAGA	0.687													20	111	---	---	---	---	PASS	A	144943418	A	A	144943418	3	1	74	1	0	0	0	0	1	0	0	0	5190	1174	41	2	3262	2	EPPK1	8	144943418	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1009	144943418	1420604	255	28219										
SLC39A4	55630	broad.mit.edu	37	chr8	145641346	145641346	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agcgtcctcacaggtgccctCggggttgctgaggtacagga	15	11	1	1	rs144726882		TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr8:145641346C>T	uc003zcq.2	-	2	422	c.322G>A	c.(322-324)GAG>AAG	p.E108K	SLC39A4_uc003zcm.1_5'Flank|SLC39A4_uc003zcn.2_5'Flank|SLC39A4_uc003zco.2_5'Flank|SLC39A4_uc003zcp.2_Missense_Mutation_p.E83K	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	108	Extracellular (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)			CAGGTGCCCTCGGGGTTGCTG	0.736													8	33	---	---	---	---	PASS	T	145641346	T	T	145641346	3	4	74	1	0	0	0	0	1	0	0	0	14620	893	31	2	1665	2	SLC39A4	8	145641346	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	697928	145641346	722676	256	28220										
KDM4C	23081	broad.mit.edu	37	chr9	6984310	6984310	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gaaaagtcagaagcagcagtGaagctgaggaacacagaagc	13	7	1	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:6984310G>A	uc003zkh.2	+	10	1840	c.1260G>A	c.(1258-1260)GTG>GTA	p.V420V	KDM4C_uc010mhu.2_Silent_p.V442V|KDM4C_uc011lmi.1_Silent_p.V420V|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Silent_p.V420V|KDM4C_uc011lmk.1_Silent_p.V239V|KDM4C_uc011lml.1_Silent_p.V107V	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	420					positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						AAGCAGCAGTGAAGCTGAGGA	0.483													4	54	---	---	---	---	PASS	A	6984310	A	A	6984310	2	1	74	1	0	0	0	0	0	0	0	1	8130	1277	45	2		2	KDM4C	9	6984310	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08		6984310	134229121	257	28221										
DENND4C	55667	broad.mit.edu	37	chr9	19372047	19372047	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tctttcagaggcatttgacaAtgaatatggaattgcataca	8	6	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:19372047A>G	uc003znq.2	+	28	4931	c.4898A>G	c.(4897-4899)AAT>AGT	p.N1633S	DENND4C_uc011lnc.1_Missense_Mutation_p.N963S|DENND4C_uc011lnd.1_Missense_Mutation_p.N921S|DENND4C_uc003znr.2_3'UTR|DENND4C_uc003zns.2_3'UTR	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	1633						integral to membrane				ovary(1)|skin(1)	2						GCATTTGACAATGAATATGGA	0.358													16	117	---	---	---	---	PASS	G	19372047	G	G	19372047	3	3	74	1	0	0	0	0	1	0	0	0	4435	101	4	5	5008	5	DENND4C	9	19372047	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	12387737	19372047	121841384	258	28222										
IFNA8	3445	broad.mit.edu	37	chr9	21409532	21409532	+	Silent	SNP	G	T	T													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gaccagcagctgaatgacctGgagtcctgtgtgatgcagga							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:21409532G>T	uc003zpc.1	+	1	387	c.357G>T	c.(355-357)CTG>CTT	p.L119L		NM_002170	NP_002161	P32881	IFNA8_HUMAN	interferon, alpha 8 precursor	119					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;0.0174)		TGAATGACCTGGAGTCCTGTG	0.483													15	140	---	---	---	---	PASS	T	21409532	T	T	21409532	2	4	74	1	0	0	0	0	0	0	0	1	7543	1335	47	3		3	IFNA8	9	21409532	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	2037485	21409532	119803899	259	28223	590	2								
IFNA8	3445	broad.mit.edu	37	chr9	21409534	21409534	+	Missense_Mutation	SNP	A	G	G													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccagcagctgaatgacctggAgtcctgtgtgatgcaggaag							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:21409534A>G	uc003zpc.1	+	1	389	c.359A>G	c.(358-360)GAG>GGG	p.E120G		NM_002170	NP_002161	P32881	IFNA8_HUMAN	interferon, alpha 8 precursor	120					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;0.0174)		AATGACCTGGAGTCCTGTGTG	0.478													15	138	---	---	---	---	PASS	G	21409534	G	G	21409534	3	3	74	1	0	0	0	0	1	0	0	0	7543	304	11	5	361	5	IFNA8	9	21409534	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	2	21409534	119803897	260	28224	590	2								
C9orf11	54586	broad.mit.edu	37	chr9	27284754	27284754	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gactcatcgttttcatgcatCtcattatctgagcctatgga	7	10	4	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:27284754C>T	uc003zql.2	-	8	936	c.852G>A	c.(850-852)GAG>GAA	p.E284E	NCRNA00032_uc010mjd.1_5'Flank|C9orf11_uc011lnq.1_Silent_p.E255E	NM_020641	NP_065692	Q9NQ60	AFAF_HUMAN	Acr formation associated factor isoform 1	284	Cytoplasmic (Potential).					acrosomal membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(39;7.39e-08)|Lung(218;1.26e-05)|LUSC - Lung squamous cell carcinoma(38;0.000106)		TTTCATGCATCTCATTATCTG	0.358													11	89	---	---	---	---	PASS	T	27284754	T	T	27284754	2	4	74	1	0	0	0	0	0	0	0	1	2448	912	32	2		2	C9orf11	9	27284754	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	5875220	27284754	113928677	261	28225										
TOPORS	10210	broad.mit.edu	37	chr9	32543189	32543189	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctgtgacaagttcttcatctGaactgtcagaagtatttaaa	7	7	4	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:32543189G>A	uc003zrb.2	-	3	1501	c.1334C>T	c.(1333-1335)TCA>TTA	p.S445L	TOPORS_uc003zrc.2_Missense_Mutation_p.S378L	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	445	Required for sumoylation and localization to discrete nuclear foci.|Interaction with SUMO1.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		TTCTTCATCTGAACTGTCAGA	0.418													6	100	---	---	---	---	PASS	A	32543189	A	A	32543189	3	1	74	1	0	0	0	0	1	0	0	0	16367	1294	45	2	1807	2	TOPORS	9	32543189	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	5258435	32543189	108670242	262	28226										
C9orf128	392307	broad.mit.edu	37	chr9	35819993	35819993	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gggcagcgccagccaatgtaGagacctaggtatgcaggatt	14	9	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:35819993G>C	uc010mlc.2	-	4	1032	c.747C>G	c.(745-747)CTC>CTG	p.L249L	C9orf128_uc003zyj.2_RNA|C9orf128_uc011lpg.1_Silent_p.L249L	NM_001012446	NP_001012448	A6H8Z2	CI128_HUMAN	hypothetical protein LOC392307	249											0	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			AGCCAATGTAGAGACCTAGGT	0.502													3	63	---	---	---	---	PASS	C	35819993	C	C	35819993	2	2	74	1	0	0	0	0	0	0	0	1	2455	929	33	2		2	C9orf128	9	35819993	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	3276804	35819993	105393438	263	28227										
C9orf102	375748	broad.mit.edu	37	chr9	98740391	98740391	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctcaaaccagaatgtaattgGatcgagcaaagctgaaaatc	8	8	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:98740391G>C	uc004avu.2	+	12	2504	c.1259G>C	c.(1258-1260)GGA>GCA	p.G420A	uc010msa.1_Missense_Mutation_p.G110A|uc011lun.1_Missense_Mutation_p.G110A			Q5T890	RAD26_HUMAN	Homo sapiens cDNA, FLJ97452.	Error:Variant_position_missing_in_Q5T890_after_alignment					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				AATGTAATTGGATCGAGCAAA	0.403													3	67	---	---	---	---	PASS	C	98740391	C	C	98740391	3	2	74	1	0	0	0	0	1	0	0	0	2445	1189	41	2		2	C9orf102	9	98740391	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	62920398	98740391	42473040	264	28228										
OR13C4	138804	broad.mit.edu	37	chr9	107289477	107289477	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	attctctcacaaatgtctggTttatcttgtccatgtcccag	6	11	4	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:107289477T>A	uc011lvn.1	-	1	14	c.14A>T	c.(13-15)AAC>ATC	p.N5I		NM_001001919	NP_001001919	Q8NGS5	O13C4_HUMAN	olfactory receptor, family 13, subfamily C,	5	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AAATGTCTGGTTTATCTTGTC	0.368													12	51	---	---	---	---	PASS	A	107289477	A	A	107289477	3	1	74	1	0	0	0	0	1	0	0	0	10936	1725	60	5	944	5	OR13C4	9	107289477	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	8549086	107289477	33923954	265	28229										
ABCA1	19	broad.mit.edu	37	chr9	107574967	107574967	+	Missense_Mutation	SNP	C	A	A													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcacctggtaggaccctttgCcatccatcccactgagcaag							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:107574967C>A	uc004bcl.2	-	28	4251	c.3938G>T	c.(3937-3939)GGC>GTC	p.G1313V		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1313					Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GGACCCTTTGCCATCCATCCC	0.493													41	85	---	---	---	---	PASS	A	107574967	A	A	107574967	3	1	74	1	0	0	0	0	1	0	0	0	28	739	26	3	2939	3	ABCA1	9	107574967	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	285490	107574967	33638464	266	28230	591	2								
ABCA1	19	broad.mit.edu	37	chr9	107574968	107574968	+	Missense_Mutation	SNP	C	A	A													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cacctggtaggaccctttgcCatccatcccactgagcaagt							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:107574968C>A	uc004bcl.2	-	28	4250	c.3937G>T	c.(3937-3939)GGC>TGC	p.G1313C		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1313					Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GACCCTTTGCCATCCATCCCA	0.493													41	85	---	---	---	---	PASS	A	107574968	A	A	107574968	3	1	74	1	0	0	0	0	1	0	0	0	28	594	21	3	2940	3	ABCA1	9	107574968	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1	107574968	33638463	267	28231	591	2								
HSPA5	3309	broad.mit.edu	37	chr9	128000963	128000963	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccacgggatggttccttgccAttgaagaactctttaaccag	9	11	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:128000963A>T	uc004bpn.2	-	6	1396	c.1140T>A	c.(1138-1140)AAT>AAA	p.N380K		NM_005347	NP_005338	P11021	GRP78_HUMAN	heat shock 70kDa protein 5	380					anti-apoptosis|cellular response to glucose starvation|ER-associated protein catabolic process|platelet activation|platelet degranulation|regulation of protein folding in endoplasmic reticulum	cell surface|endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|integral to endoplasmic reticulum membrane|melanosome|midbody|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|calcium ion binding|caspase inhibitor activity|chaperone binding|misfolded protein binding|protein binding, bridging|protein domain specific binding|ubiquitin protein ligase binding|unfolded protein binding			ovary(3)|skin(1)	4					Antihemophilic Factor(DB00025)	GTTCCTTGCCATTGAAGAACT	0.448										Prostate(1;0.17)			5	79	---	---	---	---	PASS	T	128000963	T	T	128000963	3	4	74	1	0	0	0	0	1	0	0	0	7414	214	8	5	836	5	HSPA5	9	128000963	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	20425995	128000963	13212468	268	28232										
MAPKAP1	79109	broad.mit.edu	37	chr9	128434763	128434763	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtcaacatcatgatcaatgaGaaccatctcacacattcccg	5	13	4	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:128434763G>C	uc004bpv.2	-	2	424	c.91C>G	c.(91-93)CTC>GTC	p.L31V	MAPKAP1_uc004bpw.2_Intron|MAPKAP1_uc004bpx.2_Intron|MAPKAP1_uc004bpy.2_Missense_Mutation_p.L31V|MAPKAP1_uc004bpz.2_Missense_Mutation_p.L31V|MAPKAP1_uc010mxa.2_RNA|MAPKAP1_uc004bqa.2_Missense_Mutation_p.L31V	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	31	Interaction with MAP3K2.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4						TGATCAATGAGAACCATCTCA	0.458													4	51	---	---	---	---	PASS	C	128434763	C	C	128434763	3	2	74	1	0	0	0	0	1	0	0	0	9288	942	33	2	1539	2	MAPKAP1	9	128434763	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	433800	128434763	12778668	269	28233										
LMX1B	4010	broad.mit.edu	37	chr9	129453241	129453242	+	Frame_Shift_Ins	INS	-	A	A													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgtgtgaacggcagctacgcINSaagggcgacgaattcgtgct							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:129453241_129453242insA	uc004bqj.2	+	3	434_435	c.384_385insA	c.(382-387)CGCAAGfs	p.R128fs	LMX1B_uc004bqi.2_Frame_Shift_Ins_p.R128fs|LMX1B_uc011maa.1_Frame_Shift_Ins_p.R128fs	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	128_129	LIM zinc-binding 2.				dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GGCAGCTACGCAAGGGCGACGA	0.629									Nail-Patella_Syndrome				28	15	---	---	---	---		A	129453242	A	A	129453241	7	5	74	1	0	1	1	0	0	0	0	0	8862	697	25	0	463	0	LMX1B	9	129453241	Frame_Shift_Ins	INS	-	TCGA-34-5928-01A-11D-1817-08	1018478	129453241	11760190	270	28234										
GARNL3	84253	broad.mit.edu	37	chr9	130116584	130116584	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgtcaccaggaaaagatgctCgcctctttgtcttcaggcta	9	11	4	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:130116584C>G	uc011mae.1	+	19	2055	c.1654C>G	c.(1654-1656)CGC>GGC	p.R552G	GARNL3_uc011mad.1_Missense_Mutation_p.R530G|GARNL3_uc010mxi.2_5'Flank	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	552	CNH.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						AAAAGATGCTCGCCTCTTTGT	0.483													16	82	---	---	---	---	PASS	G	130116584	G	G	130116584	3	3	74	1	0	0	0	0	1	0	0	0	6241	884	31	2	1728	2	GARNL3	9	130116584	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	663343	130116584	11096847	271	28235										
ST6GALNAC6	30815	broad.mit.edu	37	chr9	130653125	130653125	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acaaactcctggggcctcctCagcacgcggaacacactgga	10	15	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr9:130653125C>G	uc004bso.1	-	5	614	c.495G>C	c.(493-495)CTG>CTC	p.L165L	ST6GALNAC6_uc004bsn.1_Silent_p.L131L|ST6GALNAC6_uc011man.1_Intron|ST6GALNAC6_uc004bsp.1_Silent_p.L165L|ST6GALNAC6_uc004bsq.1_Silent_p.L131L|ST6GALNAC6_uc004bsr.2_Silent_p.L131L|ST6GALNAC6_uc010mxp.1_RNA	NM_013443	NP_038471	Q969X2	SIA7F_HUMAN	sialytransferase 7F	165	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane|plasma membrane					0						GGGGCCTCCTCAGCACGCGGA	0.612													3	44	---	---	---	---	PASS	G	130653125	G	G	130653125	2	3	74	1	0	0	0	0	0	0	0	1	15227	813	29	2		2	ST6GALNAC6	9	130653125	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	536541	130653125	10560306	272	28236										
PFKP	5214	broad.mit.edu	37	chr10	3162113	3162113	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggactcctggagctgtcagcCgcccgggagaagcacgagga	16	12	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:3162113C>T	uc001igp.2	+	16	1596	c.1560C>T	c.(1558-1560)GCC>GCT	p.A520A	PFKP_uc001igq.2_Silent_p.A512A|PFKP_uc009xhr.2_Silent_p.A482A|PFKP_uc009xhs.1_Silent_p.A304A|PFKP_uc009xht.2_Silent_p.A258A|PFKP_uc009xhu.2_Silent_p.A26A	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	520					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		AGCTGTCAGCCGCCCGGGAGA	0.622											OREG0019976	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	74	---	---	---	---	PASS	T	3162113	T	T	3162113	2	4	74	1	0	0	0	0	0	0	0	1	11766	639	23	1		1	PFKP	10	3162113	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08		3162113	132372634	273	28237										
PFKP	5214	broad.mit.edu	37	chr10	3176761	3176761	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atcactgcaaaactcaaggaGgcccggggcagaggtaaggg	15	9	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:3176761G>C	uc001igp.2	+	20	2145	c.2109G>C	c.(2107-2109)GAG>GAC	p.E703D	PFKP_uc001igq.2_Missense_Mutation_p.E695D|PFKP_uc009xhr.2_Missense_Mutation_p.E665D|PFKP_uc009xht.2_Missense_Mutation_p.E441D|PFKP_uc009xhu.2_Missense_Mutation_p.E209D	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	703					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		AACTCAAGGAGGCCCGGGGCA	0.562													11	284	---	---	---	---	PASS	C	3176761	C	C	3176761	3	2	74	1	0	0	0	0	1	0	0	0	11766	991	35	4	2187	4	PFKP	10	3176761	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	14648	3176761	132357986	274	28238										
ATP5C1	509	broad.mit.edu	37	chr10	7830204	7830204	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cgggtgtcgctgggctgtcgGcctggaccttgcagccgcaa	16	13	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:7830204G>C	uc001iju.2	+	1	112	c.34G>C	c.(34-36)GCC>CCC	p.A12P	KIN_uc010qaz.1_5'Flank|KIN_uc001ijt.2_5'Flank|KIN_uc009xip.2_5'Flank|KIN_uc010qba.1_5'Flank|ATP5C1_uc010qbb.1_Missense_Mutation_p.A12P|ATP5C1_uc009xiq.1_Missense_Mutation_p.A12P|ATP5C1_uc010qbc.1_5'UTR|ATP5C1_uc001ijv.2_Missense_Mutation_p.A12P	NM_001001973	NP_001001973	P36542	ATPG_HUMAN	ATP synthase, H+ transporting, mitochondrial F1	12					oxidative phosphorylation|respiratory electron transport chain	mitochondrial matrix|mitochondrial proton-transporting ATP synthase complex, catalytic core F(1)	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						TGGGCTGTCGGCCTGGACCTT	0.667													28	54	---	---	---	---	PASS	C	7830204	C	C	7830204	3	2	74	1	0	0	0	0	1	0	0	0	1149	1203	42	4	36	4	ATP5C1	10	7830204	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	4653443	7830204	127704543	275	28239										
ITGA8	8516	broad.mit.edu	37	chr10	15688934	15688934	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgccagtgaggatctgggggTctctgaagaggagagagctc	17	7	2	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:15688934T>A	uc001ioc.1	-	12	1118	c.1118A>T	c.(1117-1119)GAC>GTC	p.D373V	ITGA8_uc010qcb.1_Missense_Mutation_p.D358V	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	373	Extracellular (Potential).|FG-GAP 6.				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						GATCTGGGGGTCTCTGAAGAG	0.483													42	122	---	---	---	---	PASS	A	15688934	A	A	15688934	3	1	74	1	0	0	0	0	1	0	0	0	7882	1667	58	5	2149	5	ITGA8	10	15688934	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	7858730	15688934	119845813	276	28240										
SLC39A12	221074	broad.mit.edu	37	chr10	18250593	18250593	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gaagtggtccagagagtttcTcttctccttctctattacat	7	10	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:18250593T>A	uc001ipo.2	+	3	618	c.345T>A	c.(343-345)TCT>TCA	p.S115S	SLC39A12_uc001ipn.2_Silent_p.S115S|SLC39A12_uc001ipp.2_Silent_p.S115S|SLC39A12_uc010qck.1_5'UTR	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	115	Extracellular (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						AGAGAGTTTCTCTTCTCCTTC	0.363													50	105	---	---	---	---	PASS	A	18250593	A	A	18250593	2	1	74	1	0	0	0	0	0	0	0	1	14615	1538	54	5		5	SLC39A12	10	18250593	Silent	SNP	T	TCGA-34-5928-01A-11D-1817-08	2561659	18250593	117284154	277	28241										
MPP7	143098	broad.mit.edu	37	chr10	28345547	28345547	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tctagtgtccttaaatgcttCactgtctacaaggaagaaaa	7	8	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:28345547C>T	uc001iua.1	-	18	1817	c.1413G>A	c.(1411-1413)GTG>GTA	p.V471V	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Silent_p.V471V|MPP7_uc009xla.2_Silent_p.V471V|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	471	Guanylate kinase-like.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						TTAAATGCTTCACTGTCTACA	0.308													5	125	---	---	---	---	PASS	T	28345547	T	T	28345547	2	4	74	1	0	0	0	0	0	0	0	1	9739	813	29	2		2	MPP7	10	28345547	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	10094954	28345547	107189200	278	28242										
ANKRD30A	91074	broad.mit.edu	37	chr10	37442554	37442554	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtttacccaaggctacacatCaaaaagaaatagataaaata	5	7	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:37442554C>A	uc001iza.1	+	13	1693	c.1594C>A	c.(1594-1596)CAA>AAA	p.Q532K		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													68	409	---	---	---	---	PASS	A	37442554	A	A	37442554	3	1	74	1	0	0	0	0	1	0	0	0	658	827	29	2	1644	2	ANKRD30A	10	37442554	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	9097007	37442554	98092193	279	28243										
PCDH15	65217	broad.mit.edu	37	chr10	55582959	55582959	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agaaatgtgaattttcttgcAgacttcagtttgttgctctt	8	6	3	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:55582959A>T	uc001jju.1	-	33	4922	c.4527T>A	c.(4525-4527)TCT>TCA	p.S1509S	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.S1506S|PCDH15_uc010qhw.1_Silent_p.S1469S|PCDH15_uc010qhx.1_Silent_p.S1440S|PCDH15_uc010qhy.1_Silent_p.S1516S|PCDH15_uc010qhz.1_Silent_p.S1511S|PCDH15_uc010qia.1_Silent_p.S1489S|PCDH15_uc010qib.1_Silent_p.S1486S	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1509	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ATTTTCTTGCAGACTTCAGTT	0.373										HNSCC(58;0.16)			53	48	---	---	---	---	PASS	T	55582959	T	T	55582959	2	4	74	1	0	0	0	0	0	0	0	1	11511	175	7	5		5	PCDH15	10	55582959	Silent	SNP	A	TCGA-34-5928-01A-11D-1817-08	18140405	55582959	79951788	280	28244										
EGR2	1959	broad.mit.edu	37	chr10	64573229	64573229	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gcttctcaccggtgtgggtgCggatatgggtggtgaggtgg	20	6	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:64573229C>G	uc010qim.1	-	3	1323	c.1169G>C	c.(1168-1170)CGC>CCC	p.R390P	EGR2_uc010qin.1_Missense_Mutation_p.R340P|EGR2_uc001jmi.2_Missense_Mutation_p.R390P|EGR2_uc010qio.1_Missense_Mutation_p.R403P|EGR2_uc009xph.2_Missense_Mutation_p.R390P	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	390	C2H2-type 2.				fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GGTGTGGGTGCGGATATGGGT	0.587													28	197	---	---	---	---	PASS	G	64573229	G	G	64573229	3	3	74	1	0	0	0	0	1	0	0	0	4972	768	27	4	265	4	EGR2	10	64573229	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	8990270	64573229	70961518	281	28245										
PLAU	5328	broad.mit.edu	37	chr10	75675040	75675040	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tatccggagcagctgaaaatGactgttgtgaagctgatttc	11	7	0	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:75675040G>C	uc001jwa.2	+	10	1148	c.1002G>C	c.(1000-1002)ATG>ATC	p.M334I	C10orf55_uc001jvz.1_Intron|PLAU_uc010qkw.1_Missense_Mutation_p.M317I|PLAU_uc010qkx.1_Missense_Mutation_p.M248I|PLAU_uc001jwb.2_RNA|PLAU_uc001jwc.2_Missense_Mutation_p.M334I|PLAU_uc009xrq.1_Missense_Mutation_p.M298I	NM_002658	NP_002649	P00749	UROK_HUMAN	plasminogen activator, urokinase isoform 1	334	Peptidase S1.				blood coagulation|chemotaxis|fibrinolysis|proteolysis|regulation of cell adhesion mediated by integrin|regulation of receptor activity|regulation of smooth muscle cell migration|regulation of smooth muscle cell-matrix adhesion|signal transduction	cell surface|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(2)|kidney(1)	3	Prostate(51;0.0112)				Amiloride(DB00594)|Urokinase(DB00013)	AGCTGAAAATGACTGTTGTGA	0.532													73	63	---	---	---	---	PASS	C	75675040	C	C	75675040	3	2	74	1	0	0	0	0	1	0	0	0	12022	1290	45	2	1074	2	PLAU	10	75675040	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	11101811	75675040	59859707	282	28246										
NOC3L	64318	broad.mit.edu	37	chr10	96098477	96098477	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	attcactgtcaagcagtagaTctgttttggggaaagtctgc	11	7	4	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:96098477T>C	uc001kjq.1	-	18	2067	c.1979A>G	c.(1978-1980)GAT>GGT	p.D660G		NM_022451	NP_071896	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog	660						nuclear speck|nucleolus	binding			ovary(1)	1		Colorectal(252;0.0897)				AAGCAGTAGATCTGTTTTGGG	0.393													47	47	---	---	---	---	PASS	C	96098477	C	C	96098477	3	2	74	1	0	0	0	0	1	0	0	0	10514	1435	50	5	439	5	NOC3L	10	96098477	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	20423437	96098477	39436270	283	28247										
CYP17A1	1586	broad.mit.edu	37	chr10	104590510	104590510	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caggcctggcgcaccttgatCttcactttgaaagagtcgat	10	11	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:104590510C>G	uc001kwg.2	-	8	1648	c.1476G>C	c.(1474-1476)AAG>AAC	p.K492N	C10orf26_uc009xxg.1_RNA	NM_000102	NP_000093	P05093	CP17A_HUMAN	cytochrome P450, family 17	492					androgen biosynthetic process|glucocorticoid biosynthetic process|sex differentiation|xenobiotic metabolic process	endoplasmic reticulum membrane	electron carrier activity|heme binding|oxygen binding|steroid 17-alpha-monooxygenase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)	NADH(DB00157)|Progesterone(DB00396)	GCACCTTGATCTTCACTTTGA	0.587													15	17	---	---	---	---	PASS	G	104590510	G	G	104590510	3	3	74	1	0	0	0	0	1	0	0	0	4147	912	32	2	54	2	CYP17A1	10	104590510	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	8492033	104590510	30944237	284	28248										
DUSP5	1847	broad.mit.edu	37	chr10	112270047	112270047	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cagcaggctcttcactgataGgccatttgcagacactgagc	10	12	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:112270047G>T	uc001kzd.2	+	4	1273	c.1018G>T	c.(1018-1020)GGC>TGC	p.G340C		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	340	Tyrosine-protein phosphatase.				endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		TTCACTGATAGGCCATTTGCA	0.617													25	31	---	---	---	---	PASS	T	112270047	T	T	112270047	3	4	74	1	0	0	0	0	1	0	0	0	4828	1000	35	3	1032	3	DUSP5	10	112270047	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	7679537	112270047	23264700	285	28249										
PNLIPRP3	119548	broad.mit.edu	37	chr10	118203982	118203982	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccatgctgtaaacaatctccGtgttgttggtgctgaggtgg	13	8	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:118203982G>A	uc001lcl.3	+	4	514	c.413G>A	c.(412-414)CGT>CAT	p.R138H		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	138					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		AACAATCTCCGTGTTGTTGGT	0.353													114	78	---	---	---	---	PASS	A	118203982	A	A	118203982	3	1	74	1	0	0	0	0	1	0	0	0	12152	1145	40	1	427	1	PNLIPRP3	10	118203982	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	5933935	118203982	17330765	286	28250										
PNLIPRP1	5407	broad.mit.edu	37	chr10	118364922	118364922	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	attctcaaaccaggctcaacCcattcctatgagtttgatgc	6	12	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:118364922C>G	uc001lco.1	+	12	1215	c.1197C>G	c.(1195-1197)ACC>ACG	p.T399T	PNLIPRP1_uc001lcp.2_Silent_p.T399T	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	399	PLAT.				lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		CAGGCTCAACCCATTCCTATG	0.408													80	77	---	---	---	---	PASS	G	118364922	G	G	118364922	2	3	74	1	0	0	0	0	0	0	0	1	12150	610	22	4		4	PNLIPRP1	10	118364922	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	160940	118364922	17169825	287	28251										
ADAM12	8038	broad.mit.edu	37	chr10	127789652	127789652	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	actccctacctgacaagctgCgcattgtcatgggatttgcg	10	12	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:127789652C>T	uc001ljk.2	-	9	1322	c.909G>A	c.(907-909)GCG>GCA	p.A303A	ADAM12_uc010qul.1_Silent_p.A254A|ADAM12_uc001ljm.2_Silent_p.A303A|ADAM12_uc001ljn.2_Silent_p.A300A|ADAM12_uc001ljl.3_Silent_p.A300A	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	303	Extracellular (Potential).|Peptidase M12B.				cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		TGACAAGCTGCGCATTGTCAT	0.507													36	32	---	---	---	---	PASS	T	127789652	T	T	127789652	2	4	74	1	0	0	0	0	0	0	0	1	236	755	27	1		1	ADAM12	10	127789652	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	9424730	127789652	7745095	288	28252										
KNDC1	85442	broad.mit.edu	37	chr10	135015346	135015346	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gggccgacgtccacaactacGtgaaggacctggggcggcag	16	12	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr10:135015346G>T	uc001llz.1	+	17	3332	c.3331G>T	c.(3331-3333)GTG>TTG	p.V1111L	KNDC1_uc001lma.1_Missense_Mutation_p.V1046L|KNDC1_uc001lmb.1_Missense_Mutation_p.V523L	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1111					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		CCACAACTACGTGAAGGACCT	0.726													5	3	---	---	---	---	PASS	T	135015346	T	T	135015346	3	4	74	1	0	0	0	0	1	0	0	0	8426	1145	40	1	3397	1	KNDC1	10	135015346	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	7225694	135015346	519401	289	28253										
NLRP6	171389	broad.mit.edu	37	chr11	281085	281085	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atctgtgccgcctggcccgcGagggcgtcctcggacgcagg	16	15	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:281085G>A	uc010qvs.1	+	4	1351	c.1351G>A	c.(1351-1353)GAG>AAG	p.E451K	NLRP6_uc010qvt.1_Missense_Mutation_p.E451K	NM_138329	NP_612202	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	451	NACHT.					cytoplasm	ATP binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.28e-28)|Epithelial(43;2.47e-27)|OV - Ovarian serous cystadenocarcinoma(40;4.66e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.0485)|LUSC - Lung squamous cell carcinoma(625;0.122)		CCTGGCCCGCGAGGGCGTCCT	0.627													4	93	---	---	---	---	PASS	A	281085	A	A	281085	3	1	74	1	0	0	0	0	1	0	0	0	10481	1059	37	2	1365	2	NLRP6	11	281085	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08		281085	134725431	290	28254										
MUC2	4583	broad.mit.edu	37	chr11	1088759	1088759	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aggaggatctgaagaagtgtGtcactgcagacaagtgtggc	15	6	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:1088759G>C	uc001lsx.1	+	26	3571	c.3544G>C	c.(3544-3546)GTC>CTC	p.V1182L		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	1182						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	GAAGAAGTGTGTCACTGCAGA	0.602													9	9	---	---	---	---	PASS	C	1088759	C	C	1088759	3	2	74	1	0	0	0	0	1	0	0	0	9975	1377	48	4	3646	4	MUC2	11	1088759	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	807674	1088759	133917757	291	28255										
SMPD1	6609	broad.mit.edu	37	chr11	6413084	6413084	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aggaccctggagagcctgttGagtgggctgggcccagccgg	18	11	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:6413084G>C	uc001mcw.2	+	2	963	c.789G>C	c.(787-789)TTG>TTC	p.L263F	SMPD1_uc001mcv.1_Intron|SMPD1_uc009yex.2_RNA|SMPD1_uc001mcx.2_Missense_Mutation_p.L263F|SMPD1_uc009yew.2_Missense_Mutation_p.L262F	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	261					cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)	AGAGCCTGTTGAGTGGGCTGG	0.647													11	113	---	---	---	---	PASS	C	6413084	C	C	6413084	3	2	74	1	0	0	0	0	1	0	0	0	14804	1281	45	2	795	2	SMPD1	11	6413084	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	5324325	6413084	128593432	292	28256										
ABCC8	6833	broad.mit.edu	37	chr11	17464794	17464794	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acaggagccagtagaatgatGacagctgctccaattaaggc	11	9	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:17464794G>T	uc001mnc.2	-	9	1524	c.1398C>A	c.(1396-1398)GTC>GTA	p.V466V	ABCC8_uc010rcy.1_Silent_p.V465V	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	466	Helical; Name=9; (By similarity).|ABC transmembrane type-1 1.				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)	GTAGAATGATGACAGCTGCTC	0.537													32	55	---	---	---	---	PASS	T	17464794	T	T	17464794	2	4	74	1	0	0	0	0	0	0	0	1	58	1277	45	2		2	ABCC8	11	17464794	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	11051710	17464794	117541722	293	28257										
ANO5	203859	broad.mit.edu	37	chr11	22291958	22291958	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	accttgaaagttttggacccCttgggcttttctatgagtac	9	9	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:22291958C>G	uc001mqi.2	+	18	2316	c.1999C>G	c.(1999-2001)CTT>GTT	p.L667V	ANO5_uc001mqj.2_Missense_Mutation_p.L666V	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	667	Extracellular (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						TTTTGGACCCCTTGGGCTTTT	0.428													29	66	---	---	---	---	PASS	G	22291958	G	G	22291958	3	3	74	1	0	0	0	0	1	0	0	0	700	681	24	4	2069	4	ANO5	11	22291958	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	4827164	22291958	112714558	294	28258										
LGR4	55366	broad.mit.edu	37	chr11	27402514	27402514	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tagaattactatgaaatcctCtagaaagataggagaaaagt	8	4	1	5			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:27402514C>G	uc001mrj.3	-	8	1244	c.759_splice	c.e8-1	p.L253_splice	LGR4_uc001mrk.3_Splice_Site_p.L229_splice	NM_018490	NP_060960	Q9BXB1	LGR4_HUMAN	leucine-rich repeat-containing G protein-coupled							integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1						ATGAAATCCTCTAGAAAGATA	0.299													8	65	---	---	---	---	PASS	G	27402514	G	G	27402514	5	3	74	1	0	0	0	0	0	0	1	0	8756	927	32	2	2141	2	LGR4	11	27402514	Splice_Site	SNP	C	TCGA-34-5928-01A-11D-1817-08	5110556	27402514	107604002	295	28259										
FBXO3	26273	broad.mit.edu	37	chr11	33763558	33763558	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttcatccatatctgctgaatCatcatcctcgtcttcctcct	3	15	5	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:33763558C>G	uc001muz.2	-	11	1340	c.1312G>C	c.(1312-1314)GAT>CAT	p.D438H	FBXO3_uc010rej.1_Missense_Mutation_p.D125H|FBXO3_uc001muy.2_Missense_Mutation_p.D325H|FBXO3_uc009ykb.2_RNA	NM_012175	NP_036307	Q9UK99	FBX3_HUMAN	F-box only protein 3 isoform 1	438	Asp/Glu-rich (highly acidic).				proteolysis	nucleus	ubiquitin-protein ligase activity			pancreas(1)	1		Lung NSC(402;0.0804)		BRCA - Breast invasive adenocarcinoma(625;0.00315)|Lung(977;0.00488)|LUSC - Lung squamous cell carcinoma(625;0.008)		TCTGCTGAATCATCAtcctcg	0.338													17	24	---	---	---	---	PASS	G	33763558	G	G	33763558	3	3	74	1	0	0	0	0	1	0	0	0	5739	826	29	2	107	2	FBXO3	11	33763558	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	6361044	33763558	101242958	296	28260										
ABTB2	25841	broad.mit.edu	37	chr11	34378571	34378571	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gcagcccgtcgccggcgctcAtgctgtacagggacagcgcc	14	16	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:34378571A>T	uc001mvl.1	-	1	232	c.2T>A	c.(1-3)ATG>AAG	p.M1K		NM_145804	NP_665803	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing	1							DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)				GCCGGCGCTCATGCTGTACAG	0.697													6	10	---	---	---	---	PASS	T	34378571	T	T	34378571	3	4	74	1	0	0	0	0	1	0	0	0	103	217	8	5	2585	5	ABTB2	11	34378571	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	615013	34378571	100627945	297	28261										
MADD	8567	broad.mit.edu	37	chr11	47297746	47297746	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gctaacctgcattctgttagAgcacaaggtgagaggcaagc	12	9	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:47297746A>G	uc001ner.1	+	4	1147	c.956A>G	c.(955-957)GAG>GGG	p.E319G	MADD_uc001neq.2_Missense_Mutation_p.E319G|MADD_uc001nev.1_Missense_Mutation_p.E319G|MADD_uc001nes.1_Missense_Mutation_p.E319G|MADD_uc001net.1_Missense_Mutation_p.E319G|MADD_uc009yln.1_Missense_Mutation_p.E319G|MADD_uc001neu.1_Missense_Mutation_p.E319G|MADD_uc001nex.2_Missense_Mutation_p.E319G|MADD_uc001nez.2_Missense_Mutation_p.E319G|MADD_uc001new.2_Missense_Mutation_p.E319G	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	319	DENN.				activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		ATTCTGTTAGAGCACAAGGTG	0.418													25	55	---	---	---	---	PASS	G	47297746	G	G	47297746	3	3	74	1	0	0	0	0	1	0	0	0	9152	304	11	5	966	5	MADD	11	47297746	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	12919175	47297746	87708770	298	28262										
OR4X2	119764	broad.mit.edu	37	chr11	48267494	48267494	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cctgaaccctgtcatctactCtctgagaaatgctgaaatga	7	11	3	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:48267494C>T	uc001ngs.1	+	1	839	c.839C>T	c.(838-840)TCT>TTT	p.S280F		NM_001004727	NP_001004727	Q8NGF9	OR4X2_HUMAN	olfactory receptor, family 4, subfamily X,	280	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTCATCTACTCTCTGAGAAAT	0.458													14	62	---	---	---	---	PASS	T	48267494	T	T	48267494	3	4	74	1	0	0	0	0	1	0	0	0	11085	913	32	2	841	2	OR4X2	11	48267494	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	969748	48267494	86739022	299	28263										
OR5I1	10798	broad.mit.edu	37	chr11	55703185	55703185	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcttcctcccactgaaagagCggatctttaagactgagaga	9	10	2	5			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:55703185C>T	uc010ris.1	-	1	692	c.692G>A	c.(691-693)CGC>CAC	p.R231H		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACTGAAAGAGCGGATCTTTAA	0.458													3	18	---	---	---	---	PASS	T	55703185	T	T	55703185	3	4	74	1	0	0	0	0	1	0	0	0	11164	768	27	1	255	1	OR5I1	11	55703185	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	7435691	55703185	79303331	300	28264										
OR5J2	282775	broad.mit.edu	37	chr11	55945005	55945005	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aaggaggcagtgaaaagggcCatagaaatgaaacatttcct	11	6	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:55945005C>A	uc010rjb.1	+	1	912	c.912C>A	c.(910-912)GCC>GCA	p.A304A		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	304	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.A304D(1)		ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					TGAAAAGGGCCATAGAAATGA	0.383													7	22	---	---	---	---	PASS	A	55945005	A	A	55945005	2	1	74	1	0	0	0	0	0	0	0	1	11165	581	21	3		3	OR5J2	11	55945005	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	241820	55945005	79061511	301	28265										
TMX2	51075	broad.mit.edu	37	chr11	57506183	57506183	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acttggattgtggagttcttTgccaattggtctaatgactg	11	6	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:57506183T>C	uc001nlc.1	+	5	538	c.489T>C	c.(487-489)TTT>TTC	p.F163F	CTNND1_uc001nlf.1_Intron|TMX2_uc001nld.1_Silent_p.F69F|TMX2_uc001nle.1_Silent_p.F125F|C11orf31_uc010rjx.1_5'Flank	NM_015959	NP_057043	Q9Y320	TMX2_HUMAN	thioredoxin domain containing 14 isoform 1	163	Cytoplasmic (Potential).|Thioredoxin.				cell redox homeostasis	integral to membrane					0						TGGAGTTCTTTGCCAATTGGT	0.488													64	114	---	---	---	---	PASS	C	57506183	C	C	57506183	2	2	74	1	0	0	0	0	0	0	0	1	16264	1809	63	5		5	TMX2	11	57506183	Silent	SNP	T	TCGA-34-5928-01A-11D-1817-08	1561178	57506183	77500333	302	28266										
OR1S1	219959	broad.mit.edu	37	chr11	57982687	57982687	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cccaggttcggcattttgctCacagtcatctcatggttcct	8	13	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:57982687C>T	uc010rkc.1	+	1	471	c.471C>T	c.(469-471)CTC>CTT	p.L157L		NM_001004458	NP_001004458	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Breast(21;0.0589)				GCATTTTGCTCACAGTCATCT	0.468													7	232	---	---	---	---	PASS	T	57982687	T	T	57982687	2	4	74	1	0	0	0	0	0	0	0	1	10972	813	29	2		2	OR1S1	11	57982687	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	476504	57982687	77023829	303	28267										
FAM111A	63901	broad.mit.edu	37	chr11	58920951	58920951	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttgtaaatcagcaggatgtaGaaatgatgagtgatgaggac	13	3	1	5			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:58920951G>C	uc010rkp.1	+	5	2037	c.1810G>C	c.(1810-1812)GAA>CAA	p.E604Q	FAM111A_uc010rkq.1_Missense_Mutation_p.E604Q|FAM111A_uc010rkr.1_Missense_Mutation_p.E604Q|FAM111A_uc001nno.2_Missense_Mutation_p.E604Q|FAM111A_uc001nnp.2_Missense_Mutation_p.E604Q|FAM111A_uc001nnq.2_Missense_Mutation_p.E604Q	NM_001142521	NP_001135993	Q96PZ2	F111A_HUMAN	hypothetical protein LOC63901	604					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_epithelial(135;0.139)				GCAGGATGTAGAAATGATGAG	0.358													7	72	---	---	---	---	PASS	C	58920951	C	C	58920951	3	2	74	1	0	0	0	0	1	0	0	0	5399	943	33	2	1816	2	FAM111A	11	58920951	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	938264	58920951	76085565	304	28268										
OR4D11	219986	broad.mit.edu	37	chr11	59271208	59271208	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcaccgtgacctgtgagtctCgccttcacacccccatgtac	7	17	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:59271208C>T	uc001noa.1	+	1	160	c.160C>T	c.(160-162)CGC>TGC	p.R54C		NM_001004706	NP_001004706	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CTGTGAGTCTCGCCTTCACAC	0.498													8	233	---	---	---	---	PASS	T	59271208	T	T	59271208	3	4	74	1	0	0	0	0	1	0	0	0	11055	884	31	2	162	2	OR4D11	11	59271208	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	350257	59271208	75735308	305	28269										
OR4D11	219986	broad.mit.edu	37	chr11	59271475	59271475	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgagtagagggcaatgcactGccctcatctctgcctcttgg	11	12	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:59271475G>C	uc001noa.1	+	1	427	c.427G>C	c.(427-429)GCC>CCC	p.A143P		NM_001004706	NP_001004706	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCAATGCACTGCCCTCATCTC	0.532													59	92	---	---	---	---	PASS	C	59271475	C	C	59271475	3	2	74	1	0	0	0	0	1	0	0	0	11055	1319	46	4	429	4	OR4D11	11	59271475	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	267	59271475	75735041	306	28270										
MS4A6A	64231	broad.mit.edu	37	chr11	59945733	59945733	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gttatagctctcttactcacCaaaagcttggttaacctttt	5	10	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:59945733C>A	uc001nor.2	-	4	577	c.339G>T	c.(337-339)TTG>TTT	p.L113F	MS4A6A_uc001noq.2_Missense_Mutation_p.L113F|MS4A6A_uc001nos.3_Missense_Mutation_p.L141F|MS4A6A_uc009ymv.2_Missense_Mutation_p.L113F|MS4A6A_uc001not.2_Missense_Mutation_p.L113F|MS4A6A_uc010rla.1_Missense_Mutation_p.L141F|MS4A6A_uc010rlb.1_Missense_Mutation_p.L68F	NM_152852	NP_690591	Q9H2W1	M4A6A_HUMAN	membrane-spanning 4-domains, subfamily A, member	113	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						TCTTACTCACCAAAAGCTTGG	0.368													10	78	---	---	---	---	PASS	A	59945733	A	A	59945733	3	1	74	1	0	0	0	0	1	0	0	0	9864	608	21	3	450	3	MS4A6A	11	59945733	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	674258	59945733	75060783	307	28271										
DAK	26007	broad.mit.edu	37	chr11	61110288	61110288	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcattcctggaactgggcatCatagccgacgctaccgtccg	10	14	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:61110288C>G	uc001nre.2	+	10	1094	c.837C>G	c.(835-837)ATC>ATG	p.I279M	DDB1_uc010rlf.1_5'Flank|DAK_uc009ynm.1_Missense_Mutation_p.I209M	NM_015533	NP_056348	Q3LXA3	DHAK_HUMAN	dihydroxyacetone kinase 2	279	DhaK.				glycerol metabolic process	cytosol	ATP binding|FAD-AMP lyase (cyclizing) activity|glycerone kinase activity|metal ion binding				0						AACTGGGCATCATAGCCGACG	0.527													4	66	---	---	---	---	PASS	G	61110288	G	G	61110288	3	3	74	1	0	0	0	0	1	0	0	0	4228	816	29	2	871	2	DAK	11	61110288	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1164555	61110288	73896228	308	28272										
ATG2A	23130	broad.mit.edu	37	chr11	64670836	64670836	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	catccaaaacacagacataaTctgcagcagaggcgagagaa	9	10	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:64670836T>C	uc001obx.2	-	26	3651	c.3536A>G	c.(3535-3537)GAT>GGT	p.D1179G	ATG2A_uc001obw.2_5'UTR	NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1179							protein binding			ovary(1)|central_nervous_system(1)	2						ACAGACATAATCTGCAGCAGA	0.577											OREG0004027	type=REGULATORY REGION|Gene=BC053596|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	7	53	---	---	---	---	PASS	C	64670836	C	C	64670836	3	2	74	1	0	0	0	0	1	0	0	0	1093	1449	50	5	2344	5	ATG2A	11	64670836	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	3560548	64670836	70335680	309	28273										
SNX32	254122	broad.mit.edu	37	chr11	65618269	65618269	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gagctcctcggagggtttctGaggaatattgtgaagtccgc	14	8	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:65618269G>C	uc001ofr.2	+	6	673	c.546G>C	c.(544-546)CTG>CTC	p.L182L		NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B	182					cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		GAGGGTTTCTGAGGAATATTG	0.592													3	29	---	---	---	---	PASS	C	65618269	C	C	65618269	2	2	74	1	0	0	0	0	0	0	0	1	14902	1277	45	2		2	SNX32	11	65618269	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	947433	65618269	69388247	310	28274										
LRFN4	78999	broad.mit.edu	37	chr11	66626556	66626556	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agcagcgaagatgagaccctCatctaccggtgaggatgcgt	13	10	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:66626556C>T	uc001ojr.2	+	1	1681	c.1341C>T	c.(1339-1341)CTC>CTT	p.L447L	PC_uc001ojo.1_Intron|PC_uc001ojp.1_Intron|PC_uc001ojn.1_Intron|LRFN4_uc001ojs.2_Intron	NM_024036	NP_076941	Q6PJG9	LRFN4_HUMAN	leucine rich repeat and fibronectin type III	447	Extracellular (Potential).|Fibronectin type-III.					integral to membrane					0						ATGAGACCCTCATCTACCGGT	0.652													9	103	---	---	---	---	PASS	T	66626556	T	T	66626556	2	4	74	1	0	0	0	0	0	0	0	1	8940	813	29	2		2	LRFN4	11	66626556	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	1008287	66626556	68379960	311	28275										
MYEOV	26579	broad.mit.edu	37	chr11	69063147	69063147	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctccaaagccggcagatcccGgggccgcctctgtctctccc	10	19	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:69063147G>T	uc001oov.2	+	3	680	c.230G>T	c.(229-231)CGG>CTG	p.R77L	MYEOV_uc001oox.2_Intron|MYEOV_uc009ysl.2_Missense_Mutation_p.R77L|MYEOV_uc001oow.2_Missense_Mutation_p.R19L	NM_138768	NP_620123	Q96EZ4	MYEOV_HUMAN	myeloma overexpressed	77											0	all_lung(4;2.21e-19)|Lung NSC(4;6.13e-19)|Melanoma(5;0.00128)		LUSC - Lung squamous cell carcinoma(11;3.33e-11)|STAD - Stomach adenocarcinoma(18;0.00654)|LUAD - Lung adenocarcinoma(13;0.0713)	Kidney(183;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.00361)|LUSC - Lung squamous cell carcinoma(976;0.0153)		GGCAGATCCCGGGGCCGCCTC	0.612													22	85	---	---	---	---	PASS	T	69063147	T	T	69063147	3	4	74	1	0	0	0	0	1	0	0	0	10025	1116	39	1	236	1	MYEOV	11	69063147	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	2436591	69063147	65943369	312	28276										
ARAP1	116985	broad.mit.edu	37	chr11	72409030	72409030	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agacagcacggagctccgagCcactgagagagaaccagccc	12	14	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:72409030C>G	uc001osu.2	-	19	2852	c.2663G>C	c.(2662-2664)GGC>GCC	p.G888A	ARAP1_uc001osv.2_Missense_Mutation_p.G888A|ARAP1_uc001osr.2_Missense_Mutation_p.G648A|ARAP1_uc001oss.2_Missense_Mutation_p.G643A|ARAP1_uc009yth.2_Missense_Mutation_p.G582A|ARAP1_uc010rre.1_Missense_Mutation_p.G643A|ARAP1_uc001osw.1_Missense_Mutation_p.G176A	NM_001040118	NP_001035207	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	888					actin filament reorganization involved in cell cycle|negative regulation of stress fiber assembly|positive regulation of Cdc42 GTPase activity|positive regulation of filopodium assembly|regulation of ARF GTPase activity|regulation of cell shape|regulation of cellular component movement|small GTPase mediated signal transduction	cytosol|Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|Rho GTPase activator activity|zinc ion binding			skin(1)	1						GAGCTCCGAGCCACTGAGAGA	0.652													11	20	---	---	---	---	PASS	G	72409030	G	G	72409030	3	3	74	1	0	0	0	0	1	0	0	0	838	739	26	4	1757	4	ARAP1	11	72409030	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	3345883	72409030	62597486	313	28277										
PCF11	51585	broad.mit.edu	37	chr11	82880471	82880471	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtcaaggtggtccaagatttGaaggttgtcatgctttaagg	13	5	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:82880471G>C	uc001ozx.3	+	8	3439	c.3094G>C	c.(3094-3096)GAA>CAA	p.E1032Q	PCF11_uc010rsu.1_Missense_Mutation_p.E1163Q	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	1032	Gly-rich.				mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						TCCAAGATTTGAAGGTTGTCA	0.493													17	31	---	---	---	---	PASS	C	82880471	C	C	82880471	3	2	74	1	0	0	0	0	1	0	0	0	11573	1291	45	2	3124	2	PCF11	11	82880471	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	10471441	82880471	52126045	314	28278										
BIRC3	330	broad.mit.edu	37	chr11	102207664	102207664	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	accagtggaagaacaattgcGgagactacaagaagaaagaa	11	6	0	5			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:102207664G>A	uc001pgx.2	+	10	1868	c.1646G>A	c.(1645-1647)CGG>CAG	p.R549Q		NM_182962	NP_892007	Q13489	BIRC3_HUMAN	baculoviral IAP repeat-containing protein 3	549					anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|skin(1)	4	all_cancers(8;0.00044)|all_epithelial(12;0.00348)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0093)	Lung(13;0.109)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0146)		GAACAATTGCGGAGACTACAA	0.343			T	MALT1	MALT								20	38	---	---	---	---	PASS	A	102207664	A	A	102207664	3	1	74	1	0	0	0	0	1	0	0	0	1436	1116	39	1	1676	1	BIRC3	11	102207664	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	19327193	102207664	32798852	315	28279										
C11orf65	160140	broad.mit.edu	37	chr11	108253848	108253848	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtattcccatttgcatctttGatatgtctcctccatagtta	5	10	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:108253848G>A	uc001pkh.2	-	9	912	c.842C>T	c.(841-843)TCA>TTA	p.S281L	C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_RNA	NM_152587	NP_689800	Q8NCR3	CK065_HUMAN	hypothetical protein LOC160140	281										ovary(1)	1		all_cancers(61;1.38e-11)|all_epithelial(67;3.16e-07)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;8.21e-06)|BRCA - Breast invasive adenocarcinoma(274;1.01e-05)|all cancers(92;0.000189)|Colorectal(284;0.114)|OV - Ovarian serous cystadenocarcinoma(223;0.144)		TTGCATCTTTGATATGTCTCC	0.308													4	113	---	---	---	---	PASS	A	108253848	A	A	108253848	3	1	74	1	0	0	0	0	1	0	0	0	1655	1294	45	2	103	2	C11orf65	11	108253848	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	6046184	108253848	26752668	316	28280										
CADM1	23705	broad.mit.edu	37	chr11	115099956	115099956	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	catcagctgactggtcacagTgtacatgtctgaccactctt	8	12	4	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:115099956T>A	uc001ppi.3	-	5	727	c.598A>T	c.(598-600)ACT>TCT	p.T200S	CADM1_uc001ppf.3_Missense_Mutation_p.T200S|CADM1_uc001ppk.3_Missense_Mutation_p.T200S|CADM1_uc001ppj.3_Missense_Mutation_p.T200S|CADM1_uc001ppl.2_Missense_Mutation_p.T200S	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	200	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		CTGGTCACAGTGTACATGTCT	0.517													19	36	---	---	---	---	PASS	A	115099956	A	A	115099956	3	1	74	1	0	0	0	0	1	0	0	0	2566	1696	59	5	754	5	CADM1	11	115099956	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	6846108	115099956	19906560	317	28281										
GRIK4	2900	broad.mit.edu	37	chr11	120811158	120811158	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgggaattagcattctttacCgcgttcatatggtaagagac	10	7	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:120811158C>A	uc001pxn.2	+	14	1866	c.1579C>A	c.(1579-1581)CGC>AGC	p.R527S	GRIK4_uc009zav.1_Missense_Mutation_p.R527S|GRIK4_uc009zaw.1_Missense_Mutation_p.R527S|GRIK4_uc009zax.1_Missense_Mutation_p.R527S	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	527	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	CATTCTTTACCGCGTTCATAT	0.398													3	82	---	---	---	---	PASS	A	120811158	A	A	120811158	3	1	74	1	0	0	0	0	1	0	0	0	6776	652	23	1	1625	1	GRIK4	11	120811158	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	5711202	120811158	14195358	318	28282										
OR8B3	390271	broad.mit.edu	37	chr11	124267208	124267208	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atgatctgttaatccagcaaGaataaattcagtcactaagg	7	7	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr11:124267208G>A	uc010saj.1	-	1	40	c.40C>T	c.(40-42)CTT>TTT	p.L14F	OR8B2_uc001qab.3_RNA	NM_001005467	NP_001005467	Q8NGG8	OR8B3_HUMAN	olfactory receptor, family 8, subfamily B,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		AATCCAGCAAGAATAAATTCA	0.383													10	20	---	---	---	---	PASS	A	124267208	A	A	124267208	3	1	74	1	0	0	0	0	1	0	0	0	11228	942	33	2	903	2	OR8B3	11	124267208	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	3456050	124267208	10739308	319	28283										
CACNA1C	775	broad.mit.edu	37	chr12	2676922	2676922	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccactgggcatctccgtgctCagatgcgtccggctgctgag	13	14	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:2676922C>G	uc009zdu.1	+	13	2170	c.1857C>G	c.(1855-1857)CTC>CTG	p.L619L	CACNA1C_uc009zdv.1_Silent_p.L616L|CACNA1C_uc001qkb.2_Silent_p.L619L|CACNA1C_uc001qkc.2_Silent_p.L619L|CACNA1C_uc001qke.2_Silent_p.L619L|CACNA1C_uc001qkf.2_Silent_p.L619L|CACNA1C_uc001qjz.2_Silent_p.L619L|CACNA1C_uc001qkd.2_Silent_p.L619L|CACNA1C_uc001qkg.2_Silent_p.L619L|CACNA1C_uc009zdw.1_Silent_p.L619L|CACNA1C_uc001qkh.2_Silent_p.L619L|CACNA1C_uc001qkl.2_Silent_p.L619L|CACNA1C_uc001qkn.2_Silent_p.L619L|CACNA1C_uc001qko.2_Silent_p.L619L|CACNA1C_uc001qkp.2_Silent_p.L619L|CACNA1C_uc001qkr.2_Silent_p.L619L|CACNA1C_uc001qku.2_Silent_p.L619L|CACNA1C_uc001qkq.2_Silent_p.L619L|CACNA1C_uc001qks.2_Silent_p.L619L|CACNA1C_uc001qkt.2_Silent_p.L619L|CACNA1C_uc001qka.1_Silent_p.L154L|CACNA1C_uc001qki.1_Silent_p.L355L|CACNA1C_uc001qkj.1_Silent_p.L355L|CACNA1C_uc001qkk.1_Silent_p.L355L|CACNA1C_uc001qkm.1_Silent_p.L355L	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	619	II.|Helical; Name=S4 of repeat II; (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	TCTCCGTGCTCAGATGCGTCC	0.567													3	26	---	---	---	---	PASS	G	2676922	G	G	2676922	2	3	74	1	0	0	0	0	0	0	0	1	2540	813	29	2		2	CACNA1C	12	2676922	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08		2676922	131174973	320	28284										
KCNA6	3742	broad.mit.edu	37	chr12	4920788	4920788	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gcagagaaaagaatgctcacGgaggtctgacccatgcaggc	13	10	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:4920788G>T	uc001qng.2	+	1	2447	c.1581G>T	c.(1579-1581)ACG>ACT	p.T527T		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	527	PDZ-binding (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						GAATGCTCACGGAGGTCTGAC	0.557										HNSCC(72;0.22)			3	92	---	---	---	---	PASS	T	4920788	T	T	4920788	2	4	74	1	0	0	0	0	0	0	0	1	8007	1103	39	1		1	KCNA6	12	4920788	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	2243866	4920788	128931107	321	28285										
CHD4	1108	broad.mit.edu	37	chr12	6696654	6696654	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agtctcatcctggttacggtCtagcagccgttcaatggcct	10	12	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:6696654C>G	uc001qpo.2	-	25	3939	c.3775G>C	c.(3775-3777)GAC>CAC	p.D1259H	CHD4_uc001qpn.2_Missense_Mutation_p.D1252H|CHD4_uc001qpp.2_Missense_Mutation_p.D1256H	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1259					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TGGTTACGGTCTAGCAGCCGT	0.453													12	182	---	---	---	---	PASS	G	6696654	G	G	6696654	3	3	74	1	0	0	0	0	1	0	0	0	3327	913	32	2	2027	2	CHD4	12	6696654	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1775866	6696654	127155241	322	28286										
FOXJ2	55810	broad.mit.edu	37	chr12	8203146	8203146	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tatgggcacccacaagctccCcacctctaccctggcccatc	6	20	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:8203146C>T	uc001qtu.2	+	10	2651	c.1566C>T	c.(1564-1566)CCC>CCT	p.P522P		NM_018416	NP_060886	Q9P0K8	FOXJ2_HUMAN	forkhead box J2	522					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	nucleolus|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|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 factor binding			upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				Kidney(36;0.0944)		CACAAGCTCCCCACCTCTACC	0.527													54	75	---	---	---	---	PASS	T	8203146	T	T	8203146	2	4	74	1	0	0	0	0	0	0	0	1	6012	610	22	3		3	FOXJ2	12	8203146	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	1506492	8203146	125648749	323	28287										
PRB2	653247	broad.mit.edu	37	chr12	11546403	11546403	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttgcctccttgtgggggtggTccttgtggctttcctggagg	16	9	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:11546403T>G	uc010shk.1	-	3	644	c.609A>C	c.(607-609)GGA>GGC	p.G203G		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GTGGGGGTGGTCCTTGTGGCT	0.602													88	207	---	---	---	---	PASS	G	11546403	G	G	11546403	2	3	74	1	0	0	0	0	0	0	0	1	12443	1654	58	5		5	PRB2	12	11546403	Silent	SNP	T	TCGA-34-5928-01A-11D-1817-08	3343257	11546403	122305492	324	28288										
PIK3C2G	5288	broad.mit.edu	37	chr12	18435469	18435469	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctccatcattcacaagtttgGataaaattaatctagagaaa	5	7	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:18435469G>T	uc001rdt.2	+	2	570	c.454G>T	c.(454-456)GAT>TAT	p.D152Y	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.D152Y|PIK3C2G_uc010sic.1_5'UTR	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	152					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				CACAAGTTTGGATAAAATTAA	0.343													4	50	---	---	---	---	PASS	T	18435469	T	T	18435469	3	4	74	1	0	0	0	0	1	0	0	0	11911	1174	41	2	456	2	PIK3C2G	12	18435469	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	6889066	18435469	115416426	325	28289										
PLEKHA5	54477	broad.mit.edu	37	chr12	19489488	19489488	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gagaatatgataagttagaaTacgatgtaactgttaccagg	10	4	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:19489488T>A	uc001reb.2	+	16	2265	c.2179T>A	c.(2179-2181)TAC>AAC	p.Y727N	PLEKHA5_uc010sie.1_Missense_Mutation_p.Y830N|PLEKHA5_uc001rea.2_Missense_Mutation_p.Y785N|PLEKHA5_uc009zin.2_Missense_Mutation_p.Y485N|PLEKHA5_uc010sif.1_Missense_Mutation_p.Y658N|PLEKHA5_uc010sig.1_Missense_Mutation_p.Y646N|PLEKHA5_uc010sih.1_Missense_Mutation_p.Y619N|PLEKHA5_uc001rec.1_Missense_Mutation_p.Y473N|PLEKHA5_uc009zio.2_Missense_Mutation_p.Y49N	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	727							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					TAAGTTAGAATACGATGTAAC	0.343													23	54	---	---	---	---	PASS	A	19489488	A	A	19489488	3	1	74	1	0	0	0	0	1	0	0	0	12059	1406	49	5	2366	5	PLEKHA5	12	19489488	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	1054019	19489488	114362407	326	28290										
PFKM	5213	broad.mit.edu	37	chr12	48528749	48528749	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aggacccgtggttctcgtctCaacatcatcattgtggctga	10	11	4	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:48528749C>G	uc001rrc.2	+	9	941	c.771C>G	c.(769-771)CTC>CTG	p.L257L	PFKM_uc001rra.1_5'UTR|PFKM_uc001rrb.1_Silent_p.L328L|PFKM_uc001rrd.2_5'UTR|PFKM_uc001rre.1_Silent_p.L257L|PFKM_uc001rrg.1_Silent_p.L257L	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	257					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						GTTCTCGTCTCAACATCATCA	0.463													44	67	---	---	---	---	PASS	G	48528749	G	G	48528749	2	3	74	1	0	0	0	0	0	0	0	1	11765	813	29	2		2	PFKM	12	48528749	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	29039261	48528749	85323146	327	28291										
H1FNT	341567	broad.mit.edu	37	chr12	48723390	48723390	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cgcccagggggcaggccaagGccacgctcctccgggtcagc	15	17	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:48723390G>C	uc001rrm.2	+	1	628	c.316G>C	c.(316-318)GCC>CCC	p.A106P		NM_181788	NP_861453	Q75WM6	H1FNT_HUMAN	H1 histone family, member N, testis-specific	106					chromosome condensation|multicellular organismal development|sperm chromatin condensation|spermatid nucleus elongation	nuclear chromatin	ATP binding|DNA binding			pancreas(1)	1						GCAGGCCAAGGCCACGCTCCT	0.682													3	32	---	---	---	---	PASS	C	48723390	C	C	48723390	3	2	74	1	0	0	0	0	1	0	0	0	6921	1203	42	4	318	4	H1FNT	12	48723390	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	194641	48723390	85128505	328	28292										
MLL2	8085	broad.mit.edu	37	chr12	49427912	49427912	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cagcttgagcttctcagcatCagcttctgggaactcacggc	10	13	4	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:49427912C>T	uc001rta.3	-	38	10678	c.10678G>A	c.(10678-10680)GAT>AAT	p.D3560N		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3560	Gln-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TTCTCAGCATCAGCTTCTGGG	0.552			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			11	76	---	---	---	---	PASS	T	49427912	T	T	49427912	3	4	74	1	0	0	0	0	1	0	0	0	9621	826	29	2	6003	2	MLL2	12	49427912	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	704522	49427912	84423983	329	28293										
KRT81	3887	broad.mit.edu	37	chr12	52680957	52680957	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aggcccagcttggagttcatCacctcctggtactccctgat	9	14	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:52680957C>G	uc001sab.2	-	7	1226	c.1176G>C	c.(1174-1176)GTG>GTC	p.V392V	KRT86_uc010snq.1_Intron|KRT86_uc009zmg.2_Intron|KRT81_uc001sac.2_Silent_p.V11V	NM_002281	NP_002272	Q14533	KRT81_HUMAN	keratin, hair, basic, 1	392	Rod.|Coil 2.					keratin filament	protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		TGGAGTTCATCACCTCCTGGT	0.657													6	133	---	---	---	---	PASS	G	52680957	G	G	52680957	2	3	74	1	0	0	0	0	0	0	0	1	8495	813	29	2		2	KRT81	12	52680957	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	3253045	52680957	81170938	330	28294										
KRT81	3887	broad.mit.edu	37	chr12	52681494	52681494	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgcctgatcaccgtggccttCatctcctcacactgggggaa	10	14	4	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:52681494C>A	uc001sab.2	-	6	962	c.912G>T	c.(910-912)ATG>ATT	p.M304I	KRT86_uc010snq.1_Intron|KRT86_uc009zmg.2_Intron|KRT81_uc001sac.2_Intron	NM_002281	NP_002272	Q14533	KRT81_HUMAN	keratin, hair, basic, 1	304	Rod.|Coil 2.					keratin filament	protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		CCGTGGCCTTCATCTCCTCAC	0.542													4	55	---	---	---	---	PASS	A	52681494	A	A	52681494	3	1	74	1	0	0	0	0	1	0	0	0	8495	826	29	2	621	2	KRT81	12	52681494	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	537	52681494	81170401	331	28295										
HOXC10	3226	broad.mit.edu	37	chr12	54379211	54379211	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gcgccctcgctctccaagagGgacgagggcagcagccccag	14	16	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:54379211G>T	uc001sen.2	+	1	266	c.168G>T	c.(166-168)AGG>AGT	p.R56S		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	56					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						TCTCCAAGAGGGACGAGGGCA	0.647													25	31	---	---	---	---	PASS	T	54379211	T	T	54379211	3	4	74	1	0	0	0	0	1	0	0	0	7309	1223	43	3	170	3	HOXC10	12	54379211	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1697717	54379211	79472684	332	28296										
NCKAP1L	3071	broad.mit.edu	37	chr12	54903687	54903687	+	Missense_Mutation	SNP	G	T	T													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctttgtccgaagaaaccaggGggctgagcagtggcgcagtg							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:54903687G>T	uc001sgc.3	+	7	732	c.653G>T	c.(652-654)GGG>GTG	p.G218V	NCKAP1L_uc010sox.1_5'UTR|NCKAP1L_uc010soy.1_Missense_Mutation_p.G168V	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	218					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						AGAAACCAGGGGGCTGAGCAG	0.517													93	123	---	---	---	---	PASS	T	54903687	T	T	54903687	3	4	74	1	0	0	0	0	1	0	0	0	10222	1232	43	3	679	3	NCKAP1L	12	54903687	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	524476	54903687	78948208	333	28297	592	2								
NCKAP1L	3071	broad.mit.edu	37	chr12	54903688	54903688	+	Silent	SNP	G	T	T													0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tttgtccgaagaaaccagggGgctgagcagtggcgcagtgc							TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:54903688G>T	uc001sgc.3	+	7	733	c.654G>T	c.(652-654)GGG>GGT	p.G218G	NCKAP1L_uc010sox.1_5'UTR|NCKAP1L_uc010soy.1_Silent_p.G168G	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	218					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						GAAACCAGGGGGCTGAGCAGT	0.517													91	123	---	---	---	---	PASS	T	54903688	T	T	54903688	2	4	74	1	0	0	0	0	0	0	0	1	10222	1219	43	3		3	NCKAP1L	12	54903688	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	1	54903688	78948207	334	28298	592	2								
PDE1B	5153	broad.mit.edu	37	chr12	54964134	54964134	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcggcataacctcatcagccGcttcaaggttgggcagcatc	10	13	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:54964134G>T	uc001sgd.1	+	6	753	c.587G>T	c.(586-588)CGC>CTC	p.R196L	PDE1B_uc010soz.1_Missense_Mutation_p.R59L|PDE1B_uc010spa.1_Missense_Mutation_p.R155L|PDE1B_uc001sgf.2_Missense_Mutation_p.R59L|PDE1B_uc001sge.2_Missense_Mutation_p.R176L|PDE1B_uc009znq.2_5'UTR	NM_000924	NP_000915	Q01064	PDE1B_HUMAN	phosphodiesterase 1B isoform 1	196					activation of phospholipase C activity|apoptosis|nerve growth factor receptor signaling pathway|platelet activation	cytosol|nucleus	3',5'-cyclic-AMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTCATCAGCCGCTTCAAGGTT	0.502													50	78	---	---	---	---	PASS	T	54964134	T	T	54964134	3	4	74	1	0	0	0	0	1	0	0	0	11634	1087	38	1	662	1	PDE1B	12	54964134	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	60446	54964134	78887761	335	28299										
KIAA0748	9840	broad.mit.edu	37	chr12	55356572	55356572	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gctagcactgtggacatcctCtgctgtgtttcctcttcaca	8	13	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:55356572C>T	uc001sgn.3	-	9	1220	c.1110G>A	c.(1108-1110)CAG>CAA	p.Q370Q	KIAA0748_uc001sgl.3_Silent_p.Q232Q|KIAA0748_uc001sgm.3_Silent_p.Q117Q|KIAA0748_uc010spb.1_Silent_p.Q117Q|KIAA0748_uc010spc.1_Silent_p.Q232Q|KIAA0748_uc010spd.1_Silent_p.Q370Q|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	370										ovary(1)|central_nervous_system(1)	2						TGGACATCCTCTGCTGTGTTT	0.522													5	64	---	---	---	---	PASS	T	55356572	T	T	55356572	2	4	74	1	0	0	0	0	0	0	0	1	8190	912	32	2		2	KIAA0748	12	55356572	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	392438	55356572	78495323	336	28300										
GLIPR1L2	144321	broad.mit.edu	37	chr12	75785038	75785038	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acgccagatttttgccagacGaggaggacgtagactttatc	11	9	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:75785038G>A	uc001sxr.1	+	1	150	c.142G>A	c.(142-144)GAG>AAG	p.E48K	CAPS2_uc001sxm.3_5'Flank|CAPS2_uc009zsa.2_5'Flank|GLIPR1L2_uc001sxp.1_Missense_Mutation_p.E48K|GLIPR1L2_uc001sxq.1_5'UTR	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	48						integral to membrane				ovary(1)	1						TTTGCCAGACGAGGAGGACGT	0.562											OREG0021999	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	103	---	---	---	---	PASS	A	75785038	A	A	75785038	3	1	74	1	0	0	0	0	1	0	0	0	6443	1059	37	2	144	2	GLIPR1L2	12	75785038	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	20428466	75785038	58066857	337	28301										
NAV3	89795	broad.mit.edu	37	chr12	78225318	78225318	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgtgcatactgctcttccgaTaccaaatcttggcactactg	7	12	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:78225318T>A	uc001syp.2	+	1	250	c.77T>A	c.(76-78)ATA>AAA	p.I26K	NAV3_uc001syo.2_Missense_Mutation_p.I26K	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	26						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GCTCTTCCGATACCAAATCTT	0.458										HNSCC(70;0.22)			98	127	---	---	---	---	PASS	A	78225318	A	A	78225318	3	1	74	1	0	0	0	0	1	0	0	0	10185	1406	49	5	79	5	NAV3	12	78225318	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	2440280	78225318	55626577	338	28302										
NAV3	89795	broad.mit.edu	37	chr12	78594313	78594313	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttctagagtatggttcatggAtctctggaactattctttag	9	6	4	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:78594313A>C	uc001syp.2	+	38	6949	c.6776A>C	c.(6775-6777)GAT>GCT	p.D2259A	NAV3_uc001syo.2_Missense_Mutation_p.D2237A|NAV3_uc010sub.1_Missense_Mutation_p.D1716A|NAV3_uc009zsf.2_Missense_Mutation_p.D1068A	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2259						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TGGTTCATGGATCTCTGGAAC	0.338										HNSCC(70;0.22)			49	77	---	---	---	---	PASS	C	78594313	C	C	78594313	3	2	74	1	0	0	0	0	1	0	0	0	10185	333	12	5	6856	5	NAV3	12	78594313	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	368995	78594313	55257582	339	28303										
DCN	1634	broad.mit.edu	37	chr12	91552164	91552164	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cgcagctcctgaagagttttGggcattttttctggcaattc	10	9	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:91552164G>A	uc001tbs.2	-	3	541	c.447C>T	c.(445-447)CCC>CCT	p.P149P	DCN_uc001tbo.2_Intron|DCN_uc001tbp.2_Intron|DCN_uc001tbq.2_Intron|DCN_uc001tbr.2_Intron|DCN_uc001tbt.2_Silent_p.P149P|DCN_uc001tbu.2_Silent_p.P149P	NM_133503	NP_598010	P07585	PGS2_HUMAN	decorin isoform a preproprotein	149	LRR 4.				organ morphogenesis	extracellular space				central_nervous_system(2)|ovary(1)|lung(1)	4						GAAGAGTTTTGGGCATTTTTT	0.418													76	97	---	---	---	---	PASS	A	91552164	A	A	91552164	2	1	74	1	0	0	0	0	0	0	0	1	4297	1335	47	3		3	DCN	12	91552164	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	12957851	91552164	42299731	340	28304										
PLXNC1	10154	broad.mit.edu	37	chr12	94620959	94620959	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggctgtcgagaagacatcagGaggaggaagacccaaggaga	16	7	1	4	rs143304608		TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:94620959G>C	uc001tdc.2	+	9	2177	c.1928G>C	c.(1927-1929)GGA>GCA	p.G643A		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	643	Extracellular (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						AAGACATCAGGAGGAGGAAGA	0.468													4	90	---	---	---	---	PASS	C	94620959	C	C	94620959	3	2	74	1	0	0	0	0	1	0	0	0	12126	1174	41	2	1962	2	PLXNC1	12	94620959	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	3068795	94620959	39230936	341	28305										
PLXNC1	10154	broad.mit.edu	37	chr12	94691141	94691141	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgtgcaaggaaagagacatcGagggaagcacaagttcaaag	13	6	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:94691141G>A	uc001tdc.2	+	26	4265	c.4016G>A	c.(4015-4017)CGA>CAA	p.R1339Q	PLXNC1_uc010sut.1_Missense_Mutation_p.R386Q|PLXNC1_uc009zsv.2_Missense_Mutation_p.R78Q	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1339	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						AAGAGACATCGAGGGAAGCAC	0.463													15	23	---	---	---	---	PASS	A	94691141	A	A	94691141	3	1	74	1	0	0	0	0	1	0	0	0	12126	1058	37	2	4118	2	PLXNC1	12	94691141	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	70182	94691141	39160754	342	28306										
ALDH2	217	broad.mit.edu	37	chr12	112247365	112247365	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aggtcacagtcaaagtgcctCagaagaactcataagaatca	8	9	5	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:112247365C>G	uc001tst.2	+	13	1981	c.1540C>G	c.(1540-1542)CAG>GAG	p.Q514E	ALDH2_uc010syi.1_Missense_Mutation_p.Q467E|ALDH2_uc009zvy.2_Missense_Mutation_p.Q438E	NM_000690	NP_000681	P05091	ALDH2_HUMAN	mitochondrial aldehyde dehydrogenase 2	514					carbohydrate metabolic process|ethanol oxidation|neurotransmitter biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase|electron carrier activity			skin(2)|ovary(1)|central_nervous_system(1)	4					Disulfiram(DB00822)|Guanidine(DB00536)|NADH(DB00157)|Nitroglycerin(DB00727)	CAAAGTGCCTCAGAAGAACTC	0.478			T	HMGA2	leiomyoma								36	49	---	---	---	---	PASS	G	112247365	G	G	112247365	3	3	74	1	0	0	0	0	1	0	0	0	496	827	29	2	1590	2	ALDH2	12	112247365	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	17556224	112247365	21604530	343	28307										
OAS1	4938	broad.mit.edu	37	chr12	113346551	113346551	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cacgctggggcaacccccgtGcgctcagcttcgtactgagt	12	15	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:113346551G>C	uc001tud.2	+	2	497	c.391G>C	c.(391-393)GCG>CCG	p.A131P	OAS1_uc010syn.1_Missense_Mutation_p.A130P|OAS1_uc010syo.1_Missense_Mutation_p.A130P|OAS1_uc001tub.2_Missense_Mutation_p.A131P|OAS1_uc001tuc.2_Missense_Mutation_p.A131P|OAS1_uc009zwf.2_Missense_Mutation_p.A130P	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	131	Necessary for binding to dsRNA.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						CAACCCCCGTGCGCTCAGCTT	0.572													45	60	---	---	---	---	PASS	C	113346551	C	C	113346551	3	2	74	1	0	0	0	0	1	0	0	0	10799	1319	46	4	397	4	OAS1	12	113346551	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1099186	113346551	20505344	344	28308										
RASAL1	8437	broad.mit.edu	37	chr12	113544952	113544952	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccaggaagtctctcacacgtGagacacactgcagcaggaag	11	12	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr12:113544952G>C	uc001tum.1	-	16	1900	c.1607C>G	c.(1606-1608)TCA>TGA	p.S536*	RASAL1_uc010syp.1_Nonsense_Mutation_p.S536*|RASAL1_uc001tul.2_Nonsense_Mutation_p.S536*|RASAL1_uc001tun.1_Nonsense_Mutation_p.S537*|RASAL1_uc010syq.1_Nonsense_Mutation_p.S536*|RASAL1_uc001tuo.3_Nonsense_Mutation_p.S536*|RASAL1_uc010syr.1_3'UTR	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	536					intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						TCTCACACGTGAGACACACTG	0.607													4	63	---	---	---	---	PASS	C	113544952	C	C	113544952	4	2	74	1	0	0	0	0	0	1	0	0	13063	1294	45	2	835	2	RASAL1	12	113544952	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	198401	113544952	20306943	345	28309										
ATP8A2	51761	broad.mit.edu	37	chr13	26129135	26129135	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tctctctctctcaggacacaGatatgtattatataggaaat	6	8	3	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr13:26129135G>A	uc001uqk.2	+	13	1334	c.1192G>A	c.(1192-1194)GAT>AAT	p.D398N	ATP8A2_uc010tdi.1_Missense_Mutation_p.D358N|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc001uql.1_Missense_Mutation_p.D358N	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	358	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		TCAGGACACAGATATGTATTA	0.388													4	96	---	---	---	---	PASS	A	26129135	A	A	26129135	3	1	74	1	0	0	0	0	1	0	0	0	1193	942	33	2	1242	2	ATP8A2	13	26129135	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08		26129135	89040743	346	28310										
KLHL1	57626	broad.mit.edu	37	chr13	70514251	70514251	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctcgaattcctaaacagttaGatggatgcaaaagcttcatg	8	8	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr13:70514251G>A	uc001vip.2	-	4	1729	c.935C>T	c.(934-936)TCT>TTT	p.S312F	KLHL1_uc010thm.1_Missense_Mutation_p.S251F	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	312					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		TAAACAGTTAGATGGATGCAA	0.468													9	27	---	---	---	---	PASS	A	70514251	A	A	70514251	3	1	74	1	0	0	0	0	1	0	0	0	8365	942	33	2	1343	2	KLHL1	13	70514251	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	44385116	70514251	44655627	347	28311										
GAS6	2621	broad.mit.edu	37	chr13	114541067	114541067	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caggtcctgccatcagaggaGagctcgaagccgctgtggca	14	12	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr13:114541067G>C	uc001vud.2	-	6	717	c.564C>G	c.(562-564)CTC>CTG	p.L188L	GAS6_uc001vuf.2_5'Flank	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	188	EGF-like 2; calcium-binding (Potential).				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				CATCAGAGGAGAGCTCGAAGC	0.592													14	111	---	---	---	---	PASS	C	114541067	C	C	114541067	2	2	74	1	0	0	0	0	0	0	0	1	6249	929	33	2		2	GAS6	13	114541067	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	44026816	114541067	628811	348	28312										
OR4Q3	441669	broad.mit.edu	37	chr14	20216323	20216323	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tacctgtgcttctcacctgaCagtggtcagcctgatcttcg	9	13	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr14:20216323C>G	uc010tkt.1	+	1	737	c.737C>G	c.(736-738)ACA>AGA	p.T246R		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCTCACCTGACAGTGGTCAGC	0.453													44	76	---	---	---	---	PASS	G	20216323	G	G	20216323	3	3	74	1	0	0	0	0	1	0	0	0	11081	478	17	4	739	4	OR4Q3	14	20216323	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08		20216323	87133217	349	28313										
ADCY4	196883	broad.mit.edu	37	chr14	24792232	24792232	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agcagcagcagcttcagctcGaagctcatgtgcagaaagag	12	10	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr14:24792232G>C	uc001wov.2	-	18	2226	c.2220C>G	c.(2218-2220)TTC>TTG	p.F740L	ADCY4_uc001wow.2_Missense_Mutation_p.F740L|ADCY4_uc010toh.1_Missense_Mutation_p.F426L|ADCY4_uc001wox.2_Missense_Mutation_p.F740L|ADCY4_uc001woy.2_Missense_Mutation_p.F740L	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	740					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		GCTTCAGCTCGAAGCTCATGT	0.632													4	34	---	---	---	---	PASS	C	24792232	C	C	24792232	3	2	74	1	0	0	0	0	1	0	0	0	296	1049	37	2	1045	2	ADCY4	14	24792232	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	4575909	24792232	82557308	350	28314										
EGLN3	112399	broad.mit.edu	37	chr14	34419786	34419786	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gcggccccgccagctggccgTcccgcagggccccggtgcag	16	19	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr14:34419786T>A	uc001wsa.3	-	1	499	c.173A>T	c.(172-174)GAC>GTC	p.D58V	EGLN3_uc001wry.2_Intron|EGLN3_uc001wrz.2_Missense_Mutation_p.D58V|EGLN3_uc001wsb.1_Missense_Mutation_p.D58V	NM_022073	NP_071356	Q9H6Z9	EGLN3_HUMAN	egl nine homolog 3	58					apoptosis	cytoplasm|nucleus	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|protein binding				0	Breast(36;0.0303)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.000246)|Lung(238;0.000959)|Epithelial(34;0.155)	GBM - Glioblastoma multiforme(112;0.0118)	Vitamin C(DB00126)	CAGCTGGCCGTCCCGCAGGGC	0.716													8	16	---	---	---	---	PASS	A	34419786	A	A	34419786	3	1	74	1	0	0	0	0	1	0	0	0	4970	1667	58	5	566	5	EGLN3	14	34419786	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	9627554	34419786	72929754	351	28315										
PPIL5	122769	broad.mit.edu	37	chr14	50074710	50074710	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atttttgcctagtgaatttaGaaatttatcccttgaatact	5	6	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr14:50074710G>A	uc001wwn.2	+	3	1199	c.875G>A	c.(874-876)AGA>AAA	p.R292K	SDCCAG1_uc010anj.1_Intron|PPIL5_uc001wwo.2_Intron|PPIL5_uc010ank.2_Missense_Mutation_p.R233K|PPIL5_uc001wwp.2_RNA	NM_152329	NP_689542	Q96L50	LLR1_HUMAN	peptidylprolyl isomerase (cyclophilin)-like 5	292	LRR 6.										0	all_epithelial(31;0.0021)|Breast(41;0.0124)					AGTGAATTTAGAAATTTATCC	0.333													3	54	---	---	---	---	PASS	A	50074710	A	A	50074710	3	1	74	1	0	0	0	0	1	0	0	0	12330	942	33	2	885	2	PPIL5	14	50074710	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	15654924	50074710	57274830	352	28316										
WDHD1	11169	broad.mit.edu	37	chr14	55408302	55408302	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aattcaggttctcttttgctTtttcttcctggttttctgtt	6	8	4	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr14:55408302T>C	uc001xbm.1	-	26	3374	c.3296A>G	c.(3295-3297)AAA>AGA	p.K1099R	WDHD1_uc010aom.1_Missense_Mutation_p.K616R|WDHD1_uc001xbn.1_Missense_Mutation_p.K976R	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	1099						cytoplasm|nucleoplasm	DNA binding			skin(1)	1						CTCTTTTGCTTTTTCTTCCTG	0.373													31	55	---	---	---	---	PASS	C	55408302	C	C	55408302	3	2	74	1	0	0	0	0	1	0	0	0	17268	1841	64	5	97	5	WDHD1	14	55408302	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	5333592	55408302	51941238	353	28317										
FUT8	2530	broad.mit.edu	37	chr14	66209111	66209111	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cggtcaagtaccccacatatCctgaggctgagaaataaagc	9	11	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr14:66209111C>G	uc001xin.2	+	11	2908	c.1711C>G	c.(1711-1713)CCT>GCT	p.P571A	FUT8_uc001xio.2_Missense_Mutation_p.P571A|FUT8_uc010tsp.1_Missense_Mutation_p.P408A|FUT8_uc001xir.3_RNA|FUT8_uc001xip.2_Missense_Mutation_p.P571A|FUT8_uc001xiq.2_Missense_Mutation_p.P442A|FUT8_uc001xis.2_Missense_Mutation_p.P165A	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a	571	Lumenal (Potential).				in utero embryonic development|L-fucose catabolic process|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in Golgi|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	glycoprotein 6-alpha-L-fucosyltransferase activity|SH3 domain binding			ovary(1)	1				all cancers(60;0.00109)|OV - Ovarian serous cystadenocarcinoma(108;0.00242)|BRCA - Breast invasive adenocarcinoma(234;0.0114)		CCCCACATATCCTGAGGCTGA	0.438													4	57	---	---	---	---	PASS	G	66209111	G	G	66209111	3	3	74	1	0	0	0	0	1	0	0	0	6110	855	30	2	1844	2	FUT8	14	66209111	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	10800809	66209111	41140429	354	28318										
DYNC1H1	1778	broad.mit.edu	37	chr14	102498739	102498739	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	accacagactggaagcagatCcgctccatcatcatgcggga	10	13	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr14:102498739C>T	uc001yks.2	+	52	10178	c.10014C>T	c.(10012-10014)ATC>ATT	p.I3338I		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3338	Stalk (By similarity).				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						GGAAGCAGATCCGCTCCATCA	0.562													38	59	---	---	---	---	PASS	T	102498739	T	T	102498739	2	4	74	1	0	0	0	0	0	0	0	1	4841	845	30	2		2	DYNC1H1	14	102498739	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	36289628	102498739	4850801	355	28319										
APBA2	321	broad.mit.edu	37	chr15	29400588	29400588	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gggcttcagcgtgcagaatgGaattgtgagttccccctcct	12	11	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:29400588G>C	uc001zck.2	+	12	2240	c.2033G>C	c.(2032-2034)GGA>GCA	p.G678A	APBA2_uc010azj.2_Missense_Mutation_p.G666A|APBA2_uc010uat.1_Missense_Mutation_p.G666A|APBA2_uc001zcl.2_Missense_Mutation_p.G666A	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	678	PDZ 2.				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)		GTGCAGAATGGAATTGTGAGT	0.617													25	60	---	---	---	---	PASS	C	29400588	C	C	29400588	3	2	74	1	0	0	0	0	1	0	0	0	757	1174	41	2	2071	2	APBA2	15	29400588	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08		29400588	73130804	356	28320										
RYR3	6263	broad.mit.edu	37	chr15	34135745	34135745	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cttgctctgtttgtagccttCgctatcaacttcatcctgct	6	13	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:34135745C>A	uc001zhi.2	+	92	13336	c.13266C>A	c.(13264-13266)TTC>TTA	p.F4422L	RYR3_uc010bar.2_Missense_Mutation_p.F4417L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4422	Helical; Name=M5; (Potential).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTGTAGCCTTCGCTATCAACT	0.393													14	11	---	---	---	---	PASS	A	34135745	A	A	34135745	3	1	74	1	0	0	0	0	1	0	0	0	13770	883	31	2	13632	2	RYR3	15	34135745	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	4735157	34135745	68395647	357	28321										
BUB1B	701	broad.mit.edu	37	chr15	40498506	40498506	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cagagcagctcgttttgtatCcactccttttcatgagataa	7	10	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:40498506C>G	uc001zkx.3	+	15	2068	c.1856C>G	c.(1855-1857)TCC>TGC	p.S619C	BUB1B_uc010ucl.1_Missense_Mutation_p.S487C	NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	619					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		CGTTTTGTATCCACTCCTTTT	0.453			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				9	68	---	---	---	---	PASS	G	40498506	G	G	40498506	3	3	74	1	0	0	0	0	1	0	0	0	1571	855	30	2	1914	2	BUB1B	15	40498506	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	6362761	40498506	62032886	358	28322										
BUB1B	701	broad.mit.edu	37	chr15	40498627	40498627	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cagacagcttgtggcactatCtacagtcagactctcagcat	8	12	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:40498627C>T	uc001zkx.3	+	15	2189	c.1977C>T	c.(1975-1977)ATC>ATT	p.I659I	BUB1B_uc010ucl.1_Silent_p.I527I	NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	659					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		GTGGCACTATCTACAGTCAGA	0.448			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				13	119	---	---	---	---	PASS	T	40498627	T	T	40498627	2	4	74	1	0	0	0	0	0	0	0	1	1571	903	32	2		2	BUB1B	15	40498627	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	121	40498627	62032765	359	28323										
PLCB2	5330	broad.mit.edu	37	chr15	40594805	40594805	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttgaagacgtcccggagcttCtggctctgcagcacgtggtg	14	11	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:40594805C>G	uc001zld.2	-	4	538	c.237G>C	c.(235-237)CAG>CAC	p.Q79H	PLCB2_uc010bbo.2_Missense_Mutation_p.Q79H|PLCB2_uc010ucm.1_Missense_Mutation_p.Q79H|PLCB2_uc001zle.3_Missense_Mutation_p.Q79H	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	79					activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		CCCGGAGCTTCTGGCTCTGCA	0.597													4	51	---	---	---	---	PASS	G	40594805	G	G	40594805	3	3	74	1	0	0	0	0	1	0	0	0	12028	912	32	2	3436	2	PLCB2	15	40594805	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	96178	40594805	61936587	360	28324										
MGA	23269	broad.mit.edu	37	chr15	42005472	42005472	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tggagaagcgccaacctgctCactgccgccgaccagactgc	11	16	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:42005472C>A	uc001zog.1	+	9	3299	c.3208C>A	c.(3208-3210)CAC>AAC	p.H1070N	MGA_uc010ucy.1_Missense_Mutation_p.H1070N|MGA_uc010ucz.1_Missense_Mutation_p.H1070N	NM_001080541	NP_001074010	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 2	1070						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		CCAACCTGCTCACTGCCGCCG	0.468													14	101	---	---	---	---	PASS	A	42005472	A	A	42005472	3	1	74	1	0	0	0	0	1	0	0	0	9540	826	29	2	3238	2	MGA	15	42005472	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1410667	42005472	60525920	361	28325										
EHD4	30844	broad.mit.edu	37	chr15	42201981	42201981	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tagatttccggtagcctgctGataagctctctcttcttgtt	8	10	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:42201981G>C	uc001zot.2	-	5	1068	c.1005C>G	c.(1003-1005)ATC>ATG	p.I335M		NM_139265	NP_644670	Q9H223	EHD4_HUMAN	EH-domain containing 4	335					endocytic recycling|protein homooligomerization	early endosome membrane|endoplasmic reticulum|nucleus|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			ovary(2)	2		all_cancers(109;2.54e-12)|all_epithelial(112;6.59e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		OV - Ovarian serous cystadenocarcinoma(18;1.6e-19)|GBM - Glioblastoma multiforme(94;3.77e-06)|COAD - Colon adenocarcinoma(120;0.0474)|Colorectal(105;0.0538)		GTAGCCTGCTGATAAGCTCTC	0.493													9	119	---	---	---	---	PASS	C	42201981	C	C	42201981	3	2	74	1	0	0	0	0	1	0	0	0	4980	1280	45	2	628	2	EHD4	15	42201981	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	196509	42201981	60329411	362	28326										
ONECUT1	3175	broad.mit.edu	37	chr15	53081346	53081346	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gggatggtgcggaggaaggcCgttgatgggcaccatgccgg	20	8	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:53081346C>A	uc002aci.1	-	1	864	c.736G>T	c.(736-738)GGC>TGC	p.G246C		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	246					endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		GGAGGAAGGCCGTTGATGGGC	0.726													56	69	---	---	---	---	PASS	A	53081346	A	A	53081346	3	1	74	1	0	0	0	0	1	0	0	0	10868	652	23	1	669	1	ONECUT1	15	53081346	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	10879365	53081346	49450046	363	28327										
TLN2	83660	broad.mit.edu	37	chr15	63111816	63111816	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atccaggcggcggaagccatGaaaggtaggctggattctca	14	9	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:63111816G>C	uc002alb.3	+	50	6873	c.6873G>C	c.(6871-6873)ATG>ATC	p.M2291I	TLN2_uc002alc.3_Missense_Mutation_p.M684I|TLN2_uc010uic.1_5'Flank	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	2291					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						CGGAAGCCATGAAAGGTAGGC	0.572													3	69	---	---	---	---	PASS	C	63111816	C	C	63111816	3	2	74	1	0	0	0	0	1	0	0	0	15945	1290	45	2	7071	2	TLN2	15	63111816	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	10030470	63111816	39419576	364	28328										
ZWILCH	55055	broad.mit.edu	37	chr15	66828295	66828295	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acttcattgctccatcagtaGatatacaagaacaggtttat	6	8	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:66828295G>A	uc002aqb.2	+	15	1612	c.1366G>A	c.(1366-1368)GAT>AAT	p.D456N	ZWILCH_uc010bhu.1_Missense_Mutation_p.D342N|ZWILCH_uc002aqa.2_Missense_Mutation_p.D342N|ZWILCH_uc010bhv.2_Missense_Mutation_p.D342N	NM_017975	NP_060445	Q9H900	ZWILC_HUMAN	Zwilch	456					cell division|mitotic cell cycle checkpoint|mitotic prometaphase	condensed chromosome kinetochore|cytosol	protein binding			ovary(1)	1						TCCATCAGTAGATATACAAGA	0.333													7	75	---	---	---	---	PASS	A	66828295	A	A	66828295	3	1	74	1	0	0	0	0	1	0	0	0	18245	942	33	2	1424	2	ZWILCH	15	66828295	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	3716479	66828295	35703097	365	28329										
PAQR5	54852	broad.mit.edu	37	chr15	69677078	69677078	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	catcaagaatgacagctactCctggcccatgcttgtgtaca	8	12	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:69677078C>A	uc002arz.2	+	5	620	c.242C>A	c.(241-243)TCC>TAC	p.S81Y	PAQR5_uc002asa.2_Missense_Mutation_p.S81Y	NM_017705	NP_060175	Q9NXK6	MPRG_HUMAN	progestin and adipoQ receptor family member V	81	Helical; Name=2; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane	receptor activity|steroid binding			ovary(2)	2						GACAGCTACTCCTGGCCCATG	0.522													12	189	---	---	---	---	PASS	A	69677078	A	A	69677078	3	1	74	1	0	0	0	0	1	0	0	0	11438	855	30	2	252	2	PAQR5	15	69677078	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2848783	69677078	32854314	366	28330										
LARP6	55323	broad.mit.edu	37	chr15	71124721	71124721	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cgttgggccaaggggctgctCcaaggacttgtgcacgggga	17	10	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:71124721C>T	uc002ass.2	-	3	1217	c.1146G>A	c.(1144-1146)TGG>TGA	p.W382*		NM_018357	NP_060827	Q9BRS8	LARP6_HUMAN	La ribonucleoprotein domain family, member 6	382					RNA processing	Golgi apparatus|nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0						AGGGGCTGCTCCAAGGACTTG	0.607													6	57	---	---	---	---	PASS	T	71124721	T	T	71124721	4	4	74	1	0	0	0	0	0	1	0	0	8632	856	30	2	333	2	LARP6	15	71124721	Nonsense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1447643	71124721	31406671	367	28331										
SLC28A1	9154	broad.mit.edu	37	chr15	85488008	85488008	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gatcctctacatgcccagggGggctgaagttgactgcatgt	13	10	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:85488008G>T	uc002blg.2	+	18	1986	c.1784G>T	c.(1783-1785)GGG>GTG	p.G595V	SLC28A1_uc010bnb.2_Missense_Mutation_p.G595V|SLC28A1_uc010upe.1_Missense_Mutation_p.G429V|SLC28A1_uc010upf.1_Missense_Mutation_p.G595V|SLC28A1_uc010upg.1_Intron	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	595					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			ATGCCCAGGGGGGCTGAAGTT	0.602													4	116	---	---	---	---	PASS	T	85488008	T	T	85488008	3	4	74	1	0	0	0	0	1	0	0	0	14531	1232	43	3	1917	3	SLC28A1	15	85488008	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	14363287	85488008	17043384	368	28332										
IQGAP1	8826	broad.mit.edu	37	chr15	90999476	90999476	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agattcctgcagctaaacttGagggagtccttgcagaagtg	12	8	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:90999476G>T	uc002bpl.1	+	15	1806	c.1705G>T	c.(1705-1707)GAG>TAG	p.E569*		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	569					energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			AGCTAAACTTGAGGGAGTCCT	0.463													12	67	---	---	---	---	PASS	T	90999476	T	T	90999476	4	4	74	1	0	0	0	0	0	1	0	0	7814	1291	45	2	1763	2	IQGAP1	15	90999476	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	5511468	90999476	11531916	369	28333										
FES	2242	broad.mit.edu	37	chr15	91428389	91428389	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aagtggatggcccagcgggtCaagagtgacagggagtatgc	17	7	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr15:91428389C>G	uc002bpv.2	+	2	210	c.114C>G	c.(112-114)GTC>GTG	p.V38V	FES_uc010uqj.1_Silent_p.V38V|FES_uc010uqk.1_Silent_p.V38V|FES_uc002bpw.2_RNA|FES_uc010bny.2_Silent_p.V38V|FES_uc002bpx.2_Silent_p.V38V|FES_uc002bpy.2_Silent_p.V38V	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	38	FCH.|Important for interaction with membranes containing phosphoinositides.				axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			CCCAGCGGGTCAAGAGTGACA	0.642													14	145	---	---	---	---	PASS	G	91428389	G	G	91428389	2	3	74	1	0	0	0	0	0	0	0	1	5820	813	29	2		2	FES	15	91428389	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	428913	91428389	11103003	370	28334										
PDPK1	5170	broad.mit.edu	37	chr16	2647199	2647199	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atgtggatcctgtcaacaaaGttctgaaaggtgaaattcct	9	7	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:2647199G>C	uc002cqs.2	+	13	1621	c.1477G>C	c.(1477-1479)GTT>CTT	p.V493L	PDPK1_uc002cqt.2_Missense_Mutation_p.V366L|PDPK1_uc010bsn.2_Intron|PDPK1_uc002cqu.2_Missense_Mutation_p.V466L	NM_002613	NP_002604	O15530	PDPK1_HUMAN	3-phosphoinositide dependent protein kinase-1	493	PH.				actin cytoskeleton organization|activation of protein kinase B activity|insulin receptor signaling pathway|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|peptidyl-threonine phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|synaptic transmission|T cell costimulation|T cell receptor signaling pathway	cytosol|nucleoplasm|plasma membrane	3-phosphoinositide-dependent protein kinase activity|ATP binding			central_nervous_system(2)|ovary(1)	3		Ovarian(90;0.17)			Celecoxib(DB00482)	TGTCAACAAAGTTCTGAAAGG	0.428													5	96	---	---	---	---	PASS	C	2647199	C	C	2647199	3	2	74	1	0	0	0	0	1	0	0	0	11687	1029	36	4	1527	4	PDPK1	16	2647199	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08		2647199	87707554	371	28335										
ACSM2A	123876	broad.mit.edu	37	chr16	20492206	20492206	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gcaccctgctgtggttgagaCggctgtgatcagcagcccag	14	12	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:20492206C>T	uc010bwe.2	+	13	1711	c.1472C>T	c.(1471-1473)ACG>ATG	p.T491M	ACSM2A_uc010vax.1_Missense_Mutation_p.T412M|ACSM2A_uc002dhf.3_Missense_Mutation_p.T491M|ACSM2A_uc002dhg.3_Missense_Mutation_p.T491M|ACSM2A_uc010vay.1_Missense_Mutation_p.T412M|ACSM2A_uc002dhh.3_Missense_Mutation_p.T121M	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	491					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						GTGGTTGAGACGGCTGTGATC	0.522													26	36	---	---	---	---	PASS	T	20492206	T	T	20492206	3	4	74	1	0	0	0	0	1	0	0	0	183	536	19	1	1514	1	ACSM2A	16	20492206	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	17845007	20492206	69862547	372	28336										
GSG1L	146395	broad.mit.edu	37	chr16	27856301	27856301	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acccgtagtcccaggaatggGgtctccagtcctcaggaccg	12	14	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:27856301G>C	uc002doz.2	-	4	717	c.632C>G	c.(631-633)CCC>CGC	p.P211R	GSG1L_uc010bya.1_Missense_Mutation_p.P160R|GSG1L_uc010bxz.1_Missense_Mutation_p.P56R|GSG1L_uc002doy.2_Missense_Mutation_p.P56R	NM_001109763	NP_001103233	Q6UXU4	GSG1L_HUMAN	GSG1-like isoform 1	211						integral to membrane				ovary(1)	1						CCAGGAATGGGGTCTCCAGTC	0.612													7	8	---	---	---	---	PASS	C	27856301	C	C	27856301	3	2	74	1	0	0	0	0	1	0	0	0	6821	1232	43	4	379	4	GSG1L	16	27856301	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	7364095	27856301	62498452	373	28337										
SEZ6L2	26470	broad.mit.edu	37	chr16	29888751	29888751	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggcgctgggaccgtccccgtCgaacagcgtcagcatgtccc	13	16	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:29888751C>T	uc002duq.3	-	11	1990	c.1750G>A	c.(1750-1752)GAC>AAC	p.D584N	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.D514N|SEZ6L2_uc002dur.3_Missense_Mutation_p.D514N|SEZ6L2_uc002dus.3_Missense_Mutation_p.D470N|SEZ6L2_uc010vec.1_Missense_Mutation_p.D584N|SEZ6L2_uc010ved.1_Missense_Mutation_p.D540N	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	584	CUB 3.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						CCGTCCCCGTCGAACAGCGTC	0.682													9	30	---	---	---	---	PASS	T	29888751	T	T	29888751	3	4	74	1	0	0	0	0	1	0	0	0	14144	884	31	2	1053	2	SEZ6L2	16	29888751	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2032450	29888751	60466002	374	28338										
SALL1	6299	broad.mit.edu	37	chr16	51171035	51171035	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gagctgctttaactcgtgacGatctccttgctgtcctccac	8	14	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:51171035G>T	uc010vgs.1	-	3	3994	c.3963C>A	c.(3961-3963)ATC>ATA	p.I1321I	SALL1_uc010vgr.1_Silent_p.I1224I|SALL1_uc010cbv.2_Silent_p.I173I	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	1321					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			AACTCGTGACGATCTCCTTGC	0.592													16	25	---	---	---	---	PASS	T	51171035	T	T	51171035	2	4	74	1	0	0	0	0	0	0	0	1	13810	1048	37	2		2	SALL1	16	51171035	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	21282284	51171035	39183718	375	28339										
CDH8	1006	broad.mit.edu	37	chr16	61854866	61854866	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atgccatcctgggcctgggcAtcagaagtgatttcaaaaag	11	9	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:61854866A>G	uc002eog.1	-	6	1239	c.987T>C	c.(985-987)GAT>GAC	p.D329D	CDH8_uc002eoh.2_Silent_p.D98D	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	329	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		GGGCCTGGGCATCAGAAGTGA	0.383													29	28	---	---	---	---	PASS	G	61854866	G	G	61854866	2	3	74	1	0	0	0	0	0	0	0	1	3116	214	8	5		5	CDH8	16	61854866	Silent	SNP	A	TCGA-34-5928-01A-11D-1817-08	10683831	61854866	28499887	376	28340										
ACD	65057	broad.mit.edu	37	chr16	67694088	67694088	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cccagaatcagctcccgaatCcagggccgtaggaccagcct	10	16	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:67694088C>T	uc002etq.3	-	1	631	c.294G>A	c.(292-294)TGG>TGA	p.W98*	ACD_uc002etp.3_Nonsense_Mutation_p.W98*|ACD_uc002etr.3_Nonsense_Mutation_p.W98*|ACD_uc010vjt.1_Nonsense_Mutation_p.W88*|PARD6A_uc002ets.2_5'Flank|PARD6A_uc002ett.2_5'Flank|PARD6A_uc002etu.2_5'Flank	NM_001082486	NP_001075955	Q96AP0	ACD_HUMAN	adrenocortical dysplasia homolog isoform 1	98	PWI.				intracellular protein transport|negative regulation of telomere maintenance via telomerase|positive regulation of single-stranded telomeric DNA binding|positive regulation of telomerase activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|telomere assembly	nuclear telomere cap complex|nucleoplasm	DNA binding|DNA polymerase binding			pancreas(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		GCTCCCGAATCCAGGGCCGTA	0.701													19	81	---	---	---	---	PASS	T	67694088	T	T	67694088	4	4	74	1	0	0	0	0	0	1	0	0	135	856	30	2	1388	2	ACD	16	67694088	Nonsense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	5839222	67694088	22660665	377	28341										
NFATC3	4775	broad.mit.edu	37	chr16	68225270	68225270	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctctttcttctccagtggctGaccagattacaggtcagcct	8	13	4	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:68225270G>A	uc002evo.1	+	9	2908	c.2698G>A	c.(2698-2700)GAC>AAC	p.D900N	NFATC3_uc010vkl.1_Missense_Mutation_p.D421N|NFATC3_uc010vkm.1_Missense_Mutation_p.D421N|NFATC3_uc010vkn.1_Missense_Mutation_p.D421N|NFATC3_uc010vko.1_Missense_Mutation_p.D421N|NFATC3_uc010vkp.1_Missense_Mutation_p.D421N|NFATC3_uc010vkq.1_Missense_Mutation_p.D421N|NFATC3_uc002evl.2_Missense_Mutation_p.D421N|NFATC3_uc002evk.2_Missense_Mutation_p.D900N|NFATC3_uc002evm.1_Missense_Mutation_p.D900N|NFATC3_uc002evn.1_Missense_Mutation_p.D900N|NFATC3_uc010vkr.1_Missense_Mutation_p.D421N|NFATC3_uc010vks.1_Missense_Mutation_p.D421N|NFATC3_uc010vkt.1_Missense_Mutation_p.D421N|NFATC3_uc010vku.1_Missense_Mutation_p.D421N|NFATC3_uc010vkv.1_Missense_Mutation_p.D421N|NFATC3_uc010vkw.1_Missense_Mutation_p.D421N|NFATC3_uc010vkx.1_Missense_Mutation_p.D421N|NFATC3_uc010vky.1_Missense_Mutation_p.D421N|NFATC3_uc010vkz.1_Missense_Mutation_p.D421N|NFATC3_uc010vla.1_Missense_Mutation_p.D421N|NFATC3_uc010vlb.1_Missense_Mutation_p.D421N|NFATC3_uc010vlc.1_Missense_Mutation_p.D421N	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	900					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		TCCAGTGGCTGACCAGATTAC	0.463													6	140	---	---	---	---	PASS	A	68225270	A	A	68225270	3	1	74	1	0	0	0	0	1	0	0	0	10364	1290	45	2	2732	2	NFATC3	16	68225270	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	531182	68225270	22129483	378	28342										
CIRH1A	84916	broad.mit.edu	37	chr16	69170611	69170611	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttctgcagtttttcccaggtCatgagtctcgggctacagaa	10	10	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:69170611C>G	uc002ews.3	+	3	268	c.172C>G	c.(172-174)CAT>GAT	p.H58D	CIRH1A_uc002ewr.2_Missense_Mutation_p.H58D|CIRH1A_uc002ewt.3_5'UTR|CIRH1A_uc010cfi.2_5'UTR	NM_032830	NP_116219	Q969X6	CIR1A_HUMAN	cirhin	58	WD 2.					nucleolus	protein binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.125)		TTTCCCAGGTCATGAGTCTCG	0.463													14	289	---	---	---	---	PASS	G	69170611	G	G	69170611	3	3	74	1	0	0	0	0	1	0	0	0	3434	826	29	2	178	2	CIRH1A	16	69170611	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	945341	69170611	21184142	379	28343										
LDHD	197257	broad.mit.edu	37	chr16	75148111	75148111	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	taccaggctgtgtgatgaggGatttctggccagaagccgaa	14	8	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:75148111G>C	uc002fdm.2	-	6	698	c.651C>G	c.(649-651)ATC>ATG	p.I217M	LDHD_uc002fdn.2_Intron	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	217	FAD-binding PCMH-type.						D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						TGTGATGAGGGATTTCTGGCC	0.632													5	194	---	---	---	---	PASS	C	75148111	C	C	75148111	3	2	74	1	0	0	0	0	1	0	0	0	8703	1164	41	2	896	2	LDHD	16	75148111	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	5977500	75148111	15206642	380	28344										
CNTNAP4	85445	broad.mit.edu	37	chr16	76574669	76574669	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcagtgcagtcaaatctctgGtattgggcaggattttaggt	12	6	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:76574669G>C	uc002feu.1	+	23	3809	c.3424G>C	c.(3424-3426)GTA>CTA	p.V1142L	CNTNAP4_uc002fev.1_Missense_Mutation_p.V1006L|CNTNAP4_uc010chb.1_Missense_Mutation_p.V1069L|CNTNAP4_uc002fex.1_Missense_Mutation_p.V1145L	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	1142	Extracellular (Potential).|Laminin G-like 4.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						CAAATCTCTGGTATTGGGCAG	0.368													6	9	---	---	---	---	PASS	C	76574669	C	C	76574669	3	2	74	1	0	0	0	0	1	0	0	0	3649	1261	44	4	3519	4	CNTNAP4	16	76574669	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1426558	76574669	13780084	381	28345										
MPHOSPH6	10200	broad.mit.edu	37	chr16	82197736	82197736	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtaccagtgctcttcactaaTgattttcttttcttcttctt	4	10	6	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:82197736T>C	uc002fgw.2	-	2	164	c.115A>G	c.(115-117)ATT>GTT	p.I39V		NM_005792	NP_005783	Q99547	MPH6_HUMAN	M-phase phosphoprotein 6	39					M phase of mitotic cell cycle|maturation of 5.8S rRNA	cytoplasm|nucleolus	protein binding|RNA binding				0						TCTTCACTAATGATTTTCTTT	0.353													38	74	---	---	---	---	PASS	C	82197736	C	C	82197736	3	2	74	1	0	0	0	0	1	0	0	0	9726	1464	51	5	383	5	MPHOSPH6	16	82197736	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	5623067	82197736	8157017	382	28346										
ZCCHC14	23174	broad.mit.edu	37	chr16	87451175	87451175	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tctgaggggtctgcagactgGaaggcatgaggatggcaggt	18	6	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:87451175G>A	uc002fjz.1	-	8	890	c.863C>T	c.(862-864)TCC>TTC	p.S288F	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Missense_Mutation_p.S64F	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	288					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		CTGCAGACTGGAAGGCATGAG	0.602													91	212	---	---	---	---	PASS	A	87451175	A	A	87451175	3	1	74	1	0	0	0	0	1	0	0	0	17580	1174	41	2	2010	2	ZCCHC14	16	87451175	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	5253439	87451175	2903578	383	28347										
ANKRD11	29123	broad.mit.edu	37	chr16	89345518	89345518	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gctgagcggcttgccgtccaGgaggtaggagcccgtgtagg	18	10	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr16:89345518G>T	uc002fmx.1	-	9	7893	c.7432C>A	c.(7432-7434)CTG>ATG	p.L2478M	ANKRD11_uc002fmy.1_Missense_Mutation_p.L2478M|ANKRD11_uc002fnc.1_Missense_Mutation_p.L2478M|ANKRD11_uc002fna.1_Missense_Mutation_p.L143M|ANKRD11_uc002fnb.1_Missense_Mutation_p.L2435M	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	2478						nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TTGCCGTCCAGGAGGTAGGAG	0.647													11	27	---	---	---	---	PASS	T	89345518	T	T	89345518	3	4	74	1	0	0	0	0	1	0	0	0	639	991	35	3	579	3	ANKRD11	16	89345518	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1894343	89345518	1009235	384	28348										
TP53	7157	broad.mit.edu	37	chr17	7577153	7577153	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgttccgtcccagtagattaCcactactcaggataggaaaa	8	10	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:7577153C>A	uc002gim.2	-	8	979	c.785G>T	c.(784-786)GGT>GTT	p.G262V	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.G262V|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G130V|TP53_uc010cng.1_Missense_Mutation_p.G130V|TP53_uc002gii.1_Missense_Mutation_p.G130V|TP53_uc010cnh.1_Missense_Mutation_p.G262V|TP53_uc010cni.1_Missense_Mutation_p.G262V|TP53_uc002gij.2_Missense_Mutation_p.G262V	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	262	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		GN -> PD (in a sporadic cancer; somatic mutation).|G -> D (in sporadic cancers; somatic mutation).|G -> V (in sporadic cancers; somatic mutation).|G -> C (in a sporadic cancer; somatic mutation).|G -> H (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|G -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G262V(11)|p.0?(7)|p.G262D(4)|p.G262fs*83(4)|p.?(3)|p.G262_F270delGNLLGRNSF(2)|p.G262_S269delGNLLGRNS(2)|p.G262del(2)|p.G262S(2)|p.G262H(1)|p.G262G(1)|p.E258fs*71(1)|p.S261_L264>R(1)|p.S261_G262insX(1)|p.G262fs*2(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)		CAGTAGATTACCACTACTCAG	0.517		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)			14	10	---	---	---	---	PASS	A	7577153	A	A	7577153	3	1	74	1	0	0	0	0	1	0	0	0	16378	507	18	3	501	3	TP53	17	7577153	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08		7577153	73618057	385	28349										
PIK3R6	146850	broad.mit.edu	37	chr17	8741176	8741176	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aatgatgacatgccggaggtCctggctttccgcctggaaaa	12	10	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:8741176C>T	uc002glq.1	-	5	442	c.202G>A	c.(202-204)GAC>AAC	p.D68N	PIK3R6_uc002glr.1_RNA|PIK3R6_uc002gls.1_RNA	NM_001010855	NP_001010855	Q5UE93	PI3R6_HUMAN	phosphoinositide-3-kinase, regulatory subunit 6	68					platelet activation	cytosol					0						TGCCGGAGGTCCTGGCTTTCC	0.582													11	64	---	---	---	---	PASS	T	8741176	T	T	8741176	3	4	74	1	0	0	0	0	1	0	0	0	11923	855	30	2	2125	2	PIK3R6	17	8741176	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1164023	8741176	72454034	386	28350										
FOXN1	8456	broad.mit.edu	37	chr17	26861480	26861480	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gccctcaatccggccaagatCgacaagatgcaagaggagct	11	12	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:26861480C>G	uc010crm.2	+	7	1257	c.1059C>G	c.(1057-1059)ATC>ATG	p.I353M	FOXN1_uc002hbj.2_Missense_Mutation_p.I353M	NM_003593	NP_003584	O15353	FOXN1_HUMAN	forkhead box N1	353	Fork-head.				defense response|embryo development|epithelial cell proliferation|keratinocyte differentiation|organ morphogenesis|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|thymus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			skin(1)	1	Lung NSC(42;0.00431)					CGGCCAAGATCGACAAGATGC	0.567													32	49	---	---	---	---	PASS	G	26861480	G	G	26861480	3	3	74	1	0	0	0	0	1	0	0	0	6019	874	31	2	1081	2	FOXN1	17	26861480	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	18120304	26861480	54333730	387	28351										
KIAA0100	9703	broad.mit.edu	37	chr17	26967585	26967585	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggagagacctcacctcttttGactattcatggacaatacca	7	11	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:26967585G>A	uc002hbu.2	-	8	982	c.883C>T	c.(883-885)CAA>TAA	p.Q295*	KIAA0100_uc002hbv.2_Nonsense_Mutation_p.Q295*|KIAA0100_uc010crr.1_Nonsense_Mutation_p.Q152*	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	295						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					CACCTCTTTTGACTATTCATG	0.488													52	61	---	---	---	---	PASS	A	26967585	A	A	26967585	4	1	74	1	0	0	0	0	0	1	0	0	8154	1299	45	2	5952	2	KIAA0100	17	26967585	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	106105	26967585	54227625	388	28352										
NF1	4763	broad.mit.edu	37	chr17	29548922	29548922	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atttgtggaatcctgatgctCctgtagaaacattttgggag	11	6	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:29548922C>G	uc002hgg.2	+	15	2029	c.1696C>G	c.(1696-1698)CCT>GCT	p.P566A	NF1_uc002hgf.1_Missense_Mutation_p.P566A|NF1_uc002hgh.2_Missense_Mutation_p.P566A|NF1_uc010csn.1_Missense_Mutation_p.P426A	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	566					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TCCTGATGCTCCTGTAGAAAC	0.274			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			6	73	---	---	---	---	PASS	G	29548922	G	G	29548922	3	3	74	1	0	0	0	0	1	0	0	0	10356	855	30	2	1754	2	NF1	17	29548922	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2581337	29548922	51646288	389	28353										
MPP3	4356	broad.mit.edu	37	chr17	41879119	41879119	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agtgtccttgctcagcttctCtaagaccactttgagctggc	9	12	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:41879119C>G	uc002iei.3	-	20	1874	c.1708G>C	c.(1708-1710)GAG>CAG	p.E570Q	MPP3_uc002ieh.2_Missense_Mutation_p.E595Q|MPP3_uc002iej.2_RNA	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	570	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		CTCAGCTTCTCTAAGACCACT	0.423													21	165	---	---	---	---	PASS	G	41879119	G	G	41879119	3	3	74	1	0	0	0	0	1	0	0	0	9735	922	32	2	53	2	MPP3	17	41879119	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	12330197	41879119	39316091	390	28354										
ATXN7L3	56970	broad.mit.edu	37	chr17	42271946	42271946	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gaatcagagggtgagaggtcAgaggagccgtcccactgaag	16	8	2	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:42271946A>G	uc002iga.2	-	11	925	c.834T>C	c.(832-834)TCT>TCC	p.S278S	ATXN7L3_uc010wiv.1_Silent_p.S60S|ATXN7L3_uc002ifz.2_Silent_p.S285S	NM_001098833	NP_001092303	Q14CW9	AT7L3_HUMAN	ataxin 7-like 3 isoform b	278					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|metal ion binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.113)		GTGAGAGGTCAGAGGAGCCGT	0.577													22	39	---	---	---	---	PASS	G	42271946	G	G	42271946	2	3	74	1	0	0	0	0	0	0	0	1	1218	175	7	5		5	ATXN7L3	17	42271946	Silent	SNP	A	TCGA-34-5928-01A-11D-1817-08	392827	42271946	38923264	391	28355										
HEXIM2	124790	broad.mit.edu	37	chr17	43246634	43246634	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggcactggcgaccctacctgGagctgagctgggctgagaaa	15	11	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:43246634G>C	uc002iih.1	+	4	558	c.319G>C	c.(319-321)GAG>CAG	p.E107Q	HEXIM2_uc010daf.1_Missense_Mutation_p.E129Q|HEXIM2_uc002iii.1_Missense_Mutation_p.E107Q|HEXIM2_uc002iij.1_Missense_Mutation_p.E107Q|uc002iik.1_RNA	NM_144608	NP_653209	Q96MH2	HEXI2_HUMAN	hexamthylene bis-acetamide inducible 2	107					negative regulation of cyclin-dependent protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	cyclin-dependent protein kinase inhibitor activity|protein binding|snRNA binding				0						ACCCTACCTGGAGCTGAGCTG	0.672													4	62	---	---	---	---	PASS	C	43246634	C	C	43246634	3	2	74	1	0	0	0	0	1	0	0	0	7077	1175	41	2	325	2	HEXIM2	17	43246634	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	974688	43246634	37948576	392	28356										
SKAP1	8631	broad.mit.edu	37	chr17	46474081	46474081	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agccccgtagaatatggtctCtgtgatcccttgcaacagcg	10	12	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:46474081C>T	uc002ini.1	-	2	225	c.113G>A	c.(112-114)AGA>AAA	p.R38K	SKAP1_uc002inj.1_Missense_Mutation_p.R38K|SKAP1_uc010dbd.1_5'UTR|SKAP1_uc010dbe.1_Missense_Mutation_p.R38K	NM_003726	NP_003717	Q86WV1	SKAP1_HUMAN	src kinase associated phosphoprotein 1 isoform	38					positive regulation of transcription from RNA polymerase II promoter|T cell receptor signaling pathway	cytoplasm|nucleus|plasma membrane	antigen binding|protein kinase binding|SH2 domain binding				0						AATATGGTCTCTGTGATCCCT	0.378													112	309	---	---	---	---	PASS	T	46474081	T	T	46474081	3	4	74	1	0	0	0	0	1	0	0	0	14355	913	32	2	1010	2	SKAP1	17	46474081	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	3227447	46474081	34721129	393	28357										
MKS1	54903	broad.mit.edu	37	chr17	56291733	56291733	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caggtgacgatgcgtgacttGaggatgccgccctccctggg	15	12	0	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:56291733G>C	uc002ivr.1	-	6	606	c.531C>G	c.(529-531)CTC>CTG	p.L177L	MKS1_uc010wnq.1_5'UTR|MKS1_uc002ivs.1_Silent_p.L177L	NM_017777	NP_060247	Q9NXB0	MKS1_HUMAN	Meckel syndrome type 1 protein isoform 1	177					cilium assembly	centrosome|cilium|microtubule basal body	protein binding			ovary(1)	1						TGCGTGACTTGAGGATGCCGC	0.557													8	65	---	---	---	---	PASS	C	56291733	C	C	56291733	2	2	74	1	0	0	0	0	0	0	0	1	9609	1277	45	2		2	MKS1	17	56291733	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	9817652	56291733	24903477	394	28358										
ACE	1636	broad.mit.edu	37	chr17	61561865	61561865	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggctggcccgagtaccagtgGcacccgccgttgcctgacaa	13	15	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:61561865G>C	uc002jau.1	+	12	1906	c.1884G>C	c.(1882-1884)TGG>TGC	p.W628C	ACE_uc010ddu.1_Missense_Mutation_p.W445C|ACE_uc002jav.1_5'Flank|ACE_uc010ddv.1_5'Flank|ACE_uc010wpj.1_5'Flank|ACE_uc002jaw.1_5'Flank|ACE_uc010wpk.1_5'Flank	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	628	Extracellular (Potential).|Peptidase M2 1.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	AGTACCAGTGGCACCCGCCGT	0.632													3	19	---	---	---	---	PASS	C	61561865	C	C	61561865	3	2	74	1	0	0	0	0	1	0	0	0	136	1212	42	4	1930	4	ACE	17	61561865	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	5270132	61561865	19633345	395	28359										
CCDC46	201134	broad.mit.edu	37	chr17	64092382	64092382	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttcctacctctttctcacgtAttcgagagagaaaatgatca	6	10	3	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:64092382A>G	uc002jfl.2	-	8	974	c.755T>C	c.(754-756)ATA>ACA	p.I252T	CCDC46_uc002jfm.2_Missense_Mutation_p.I252T|CCDC46_uc010dep.2_Intron	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	252						centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			TTTCTCACGTATTCGAGAGAG	0.323													54	91	---	---	---	---	PASS	G	64092382	G	G	64092382	3	3	74	1	0	0	0	0	1	0	0	0	2817	449	16	5	2358	5	CCDC46	17	64092382	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	2530517	64092382	17102828	396	28360										
FAM104A	84923	broad.mit.edu	37	chr17	71228242	71228242	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cacctgggacggaggcgctcGctcatggcagctggcggatg	17	12	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr17:71228242G>A	uc002jji.3	-	1	292	c.204C>T	c.(202-204)AGC>AGT	p.S68S	FAM104A_uc002jjj.3_Silent_p.S68S|C17orf80_uc010wqu.1_5'Flank|C17orf80_uc010dfj.2_5'Flank|C17orf80_uc002jjk.1_5'Flank|C17orf80_uc002jjm.3_5'Flank|C17orf80_uc002jjl.3_5'Flank	NM_032837	NP_116226	Q969W3	F104A_HUMAN	hypothetical protein LOC84923 isoform 2	68											0			LUSC - Lung squamous cell carcinoma(166;0.197)			GGAGGCGCTCGCTCATGGCAG	0.692													11	10	---	---	---	---	PASS	A	71228242	A	A	71228242	2	1	74	1	0	0	0	0	0	0	0	1	5385	1078	38	1		1	FAM104A	17	71228242	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	7135860	71228242	9966968	397	28361										
HRH4	59340	broad.mit.edu	37	chr18	22057058	22057058	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agaggtagactatcttcaagGagatctctttctgcatcgac	9	9	4	3	rs116314403	by1000genomes	TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr18:22057058G>T	uc002kvi.2	+	3	805	c.705G>T	c.(703-705)AGG>AGT	p.R235S	HRH4_uc010xbd.1_3'UTR|HRH4_uc010dlx.2_Missense_Mutation_p.R147S	NM_021624	NP_067637	Q9H3N8	HRH4_HUMAN	histamine H4 receptor isoform 1	235	Cytoplasmic (Potential).					integral to membrane|plasma membrane	histamine receptor activity			ovary(2)	2	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Clozapine(DB00363)	TATCTTCAAGGAGATCTCTTT	0.453													26	92	---	---	---	---	PASS	T	22057058	T	T	22057058	3	4	74	1	0	0	0	0	1	0	0	0	7358	1165	41	2	715	2	HRH4	18	22057058	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08		22057058	56020190	398	28362										
WDR7	23335	broad.mit.edu	37	chr18	54424078	54424078	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aagtgaaagaaacgatcaaaGagaacatcaaggaacacctc	8	8	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr18:54424078G>C	uc002lgk.1	+	15	2465	c.2254G>C	c.(2254-2256)GAG>CAG	p.E752Q	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.E752Q	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	752										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		AACGATCAAAGAGAACATCAA	0.433													7	33	---	---	---	---	PASS	C	54424078	C	C	54424078	3	2	74	1	0	0	0	0	1	0	0	0	17317	943	33	2	2308	2	WDR7	18	54424078	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	32367020	54424078	23653170	399	28363										
SERPINB5	5268	broad.mit.edu	37	chr18	61160277	61160277	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tactttgttggcaagtggatGaagaaattttctgaatcaga	10	4	2	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr18:61160277G>A	uc002liz.3	+	5	658	c.516G>A	c.(514-516)ATG>ATA	p.M172I	SERPINB5_uc002liy.2_Missense_Mutation_p.M172I	NM_002639	NP_002630	P36952	SPB5_HUMAN	serine (or cysteine) proteinase inhibitor, clade	172					cellular component movement|regulation of proteolysis	cytoplasm|extracellular space	protein binding|serine-type endopeptidase inhibitor activity			ovary(1)	1						GCAAGTGGATGAAGAAATTTT	0.413													27	93	---	---	---	---	PASS	A	61160277	A	A	61160277	3	1	74	1	0	0	0	0	1	0	0	0	14104	1290	45	2	530	2	SERPINB5	18	61160277	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	6736199	61160277	16916971	400	28364										
SERPINB10	5273	broad.mit.edu	37	chr18	61600392	61600392	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tactacaaaagccgtgacctCagcctgcttatactactgcc	6	14	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr18:61600392C>T	uc010xev.1	+	7	834	c.744C>T	c.(742-744)CTC>CTT	p.L248L	SERPINB10_uc010xew.1_Silent_p.L248L	NM_005024	NP_005015	P48595	SPB10_HUMAN	serine (or cysteine) proteinase inhibitor, clade	248						cytoplasm|nucleus	serine-type endopeptidase inhibitor activity			lung(1)|kidney(1)|skin(1)	3		Esophageal squamous(42;0.131)				GCCGTGACCTCAGCCTGCTTA	0.403													14	199	---	---	---	---	PASS	T	61600392	T	T	61600392	2	4	74	1	0	0	0	0	0	0	0	1	14097	813	29	2		2	SERPINB10	18	61600392	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	440115	61600392	16476856	401	28365										
DSEL	92126	broad.mit.edu	37	chr18	65180604	65180604	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccataagtaaccacaccccaGttagggaatgtgtgtatttt	8	9	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr18:65180604G>A	uc002lke.1	-	2	2496	c.1272C>T	c.(1270-1272)AAC>AAT	p.N424N		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	414						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				CCACACCCCAGTTAGGGAATG	0.488													25	44	---	---	---	---	PASS	A	65180604	A	A	65180604	2	1	74	1	0	0	0	0	0	0	0	1	4775	1020	36	3		3	DSEL	18	65180604	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	3580212	65180604	12896644	402	28366										
ADNP2	22850	broad.mit.edu	37	chr18	77895799	77895799	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tattgccaaaggagaagcttGgggagcgggaagtctacttg	15	6	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr18:77895799G>T	uc002lnw.2	+	4	2958	c.2503G>T	c.(2503-2505)GGG>TGG	p.G835W		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	835					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		GGAGAAGCTTGGGGAGCGGGA	0.522													34	70	---	---	---	---	PASS	T	77895799	T	T	77895799	3	4	74	1	0	0	0	0	1	0	0	0	324	1348	47	3	2513	3	ADNP2	18	77895799	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	12715195	77895799	181449	403	28367										
PIP5K1C	23396	broad.mit.edu	37	chr19	3633507	3633507	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggggagtacacccagctcctCtcatcggtgggctggcaggt	15	12	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:3633507C>G	uc002lyj.1	-	17	1989	c.1932G>C	c.(1930-1932)GAG>GAC	p.E644D	PIP5K1C_uc010xhq.1_Intron	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	644	Mediates interaction with TLN2.				axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		CCCAGCTCCTCTCATCGGTGG	0.692													3	20	---	---	---	---	PASS	G	3633507	G	G	3633507	3	3	74	1	0	0	0	0	1	0	0	0	11941	912	32	2	82	2	PIP5K1C	19	3633507	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08		3633507	55495476	404	28368										
TYK2	7297	broad.mit.edu	37	chr19	10465286	10465286	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agtcaagacgtcagcaagatCtggaagagttgcggtgggta	15	6	3	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:10465286C>G	uc002moc.3	-	19	2996	c.2618_splice	c.e19-1	p.N873_splice	TYK2_uc010dxe.2_Splice_Site_p.N688_splice	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2						intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			TCAGCAAGATCTGGAAGAGTT	0.572													7	54	---	---	---	---	PASS	G	10465286	G	G	10465286	5	3	74	1	0	0	0	0	0	0	1	0	16807	927	32	2	974	2	TYK2	19	10465286	Splice_Site	SNP	C	TCGA-34-5928-01A-11D-1817-08	6831779	10465286	48663697	405	28369										
ZNF136	7695	broad.mit.edu	37	chr19	12298398	12298398	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggtatgtgggaaaccctttcAttctctgagtccatttcgaa	9	9	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:12298398A>G	uc002mti.2	+	4	1305	c.1205A>G	c.(1204-1206)CAT>CGT	p.H402R	ZNF136_uc010xmh.1_Missense_Mutation_p.H336R	NM_003437	NP_003428	P52737	ZN136_HUMAN	zinc finger protein 136	402	C2H2-type 10.				negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|transcription corepressor activity|zinc ion binding			ovary(1)|pancreas(1)	2						AAACCCTTTCATTCTCTGAGT	0.378													18	33	---	---	---	---	PASS	G	12298398	G	G	12298398	3	3	74	1	0	0	0	0	1	0	0	0	17723	217	8	5	1219	5	ZNF136	19	12298398	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	1833112	12298398	46830585	406	28370										
ZNF254	9534	broad.mit.edu	37	chr19	24310330	24310330	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caacccttactacacataagAtaattcatactggagagaaa	5	9	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:24310330A>G	uc002nru.2	+	4	1662	c.1528A>G	c.(1528-1530)ATA>GTA	p.I510V	ZNF254_uc010xrk.1_Missense_Mutation_p.I425V	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	510	C2H2-type 11.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				TACACATAAGATAATTCATAC	0.378													23	35	---	---	---	---	PASS	G	24310330	G	G	24310330	3	3	74	1	0	0	0	0	1	0	0	0	17795	333	12	5	1542	5	ZNF254	19	24310330	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	12011932	24310330	34818653	407	28371										
ZNF507	22847	broad.mit.edu	37	chr19	32844195	32844195	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	catggtcagcaaaatgaagtGatactgatgtgctcagagtg	12	6	2	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:32844195G>C	uc002nte.2	+	3	731	c.459G>C	c.(457-459)GTG>GTC	p.V153V	ZNF507_uc002ntc.2_Silent_p.V153V|ZNF507_uc010xrn.1_Silent_p.V153V|ZNF507_uc002ntd.2_Silent_p.V153V	NM_001136156	NP_001129628	Q8TCN5	ZN507_HUMAN	zinc finger protein 507	153					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|kidney(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(110;0.162)					AAAATGAAGTGATACTGATGT	0.418													9	121	---	---	---	---	PASS	C	32844195	C	C	32844195	2	2	74	1	0	0	0	0	0	0	0	1	17950	1277	45	2		2	ZNF507	19	32844195	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	8533865	32844195	26284788	408	28372										
GPATCH1	55094	broad.mit.edu	37	chr19	33586724	33586724	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctggaagctcggaaggatctGaggtattgcatggtgtgact	15	6	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:33586724G>C	uc002nug.1	+	6	924	c.610G>C	c.(610-612)GAG>CAG	p.E204Q		NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	204						catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					GGAAGGATCTGAGGTATTGCA	0.413													10	179	---	---	---	---	PASS	C	33586724	C	C	33586724	3	2	74	1	0	0	0	0	1	0	0	0	6590	1291	45	2	632	2	GPATCH1	19	33586724	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	742529	33586724	25542259	409	28373										
CHST8	64377	broad.mit.edu	37	chr19	34263690	34263690	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttcactgggaccatgtcagcCggctctgcagcccctgcctc	10	17	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:34263690C>T	uc002nus.3	+	5	1502	c.997C>T	c.(997-999)CGG>TGG	p.R333W	CHST8_uc002nut.3_Missense_Mutation_p.R333W|CHST8_uc002nuu.2_Missense_Mutation_p.R333W	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	333	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)					CCATGTCAGCCGGCTCTGCAG	0.632													43	36	---	---	---	---	PASS	T	34263690	T	T	34263690	3	4	74	1	0	0	0	0	1	0	0	0	3410	643	23	1	1007	1	CHST8	19	34263690	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	676966	34263690	24865293	410	28374										
HAUS5	23354	broad.mit.edu	37	chr19	36113809	36113809	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caggccaggccgccctctctGaggagctctgccagggcctg	14	16	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:36113809G>C	uc002oam.1	+	19	1867	c.1816G>C	c.(1816-1818)GAG>CAG	p.E606Q		NM_015302	NP_056117	O94927	HAUS5_HUMAN	HAUS augmin-like complex, subunit 5	606					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle					0						CGCCCTCTCTGAGGAGCTCTG	0.657													10	101	---	---	---	---	PASS	C	36113809	C	C	36113809	3	2	74	1	0	0	0	0	1	0	0	0	6969	1291	45	2	1890	2	HAUS5	19	36113809	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1850119	36113809	23015174	411	28375										
TMEM149	79713	broad.mit.edu	37	chr19	36230525	36230525	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ttgtgacgccagactggacaGttctggaagaaaggggaagg	16	6	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:36230525G>T	uc002obc.2	-	5	825	c.724C>A	c.(724-726)CTG>ATG	p.L242M	TMEM149_uc002obb.2_Missense_Mutation_p.L54M|TMEM149_uc002obd.3_Missense_Mutation_p.L242M|TMEM149_uc010xsy.1_RNA|TMEM149_uc010eej.2_Missense_Mutation_p.L322M	NM_024660	NP_078936	Q9H665	IGFR1_HUMAN	transmembrane protein 149 precursor	242	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding|receptor activity				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGACTGGACAGTTCTGGAAGA	0.627													3	92	---	---	---	---	PASS	T	36230525	T	T	36230525	3	4	74	1	0	0	0	0	1	0	0	0	16059	1020	36	3	347	3	TMEM149	19	36230525	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	116716	36230525	22898458	412	28376										
SPTBN4	57731	broad.mit.edu	37	chr19	41063031	41063031	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tggatgagctgatcgagtgtGgccatacagcagcggccacc	14	11	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:41063031G>A	uc002ony.2	+	26	5478	c.5392G>A	c.(5392-5394)GGC>AGC	p.G1798S	SPTBN4_uc002onx.2_Missense_Mutation_p.G1798S|SPTBN4_uc002onz.2_Missense_Mutation_p.G1798S|SPTBN4_uc010egx.2_Missense_Mutation_p.G541S|SPTBN4_uc002ooa.2_Missense_Mutation_p.G474S	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1798	Spectrin 15.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GATCGAGTGTGGCCATACAGC	0.627													41	22	---	---	---	---	PASS	A	41063031	A	A	41063031	3	1	74	1	0	0	0	0	1	0	0	0	15120	1348	47	3	5490	3	SPTBN4	19	41063031	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	4832506	41063031	18065952	413	28377										
CYP2A13	1553	broad.mit.edu	37	chr19	41594860	41594860	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gagcgctatggccctgtgttCaccattcacttggggccccg	12	14	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:41594860C>T	uc002opt.2	+	2	216	c.207C>T	c.(205-207)TTC>TTT	p.F69F		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	69					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	GCCCTGTGTTCACCATTCACT	0.622													7	127	---	---	---	---	PASS	T	41594860	T	T	41594860	2	4	74	1	0	0	0	0	0	0	0	1	4161	825	29	2		2	CYP2A13	19	41594860	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	531829	41594860	17534123	414	28378										
HIF3A	64344	broad.mit.edu	37	chr19	46807269	46807269	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctgcccttcgcccgcggcgtCagcgcccacctggacaaggc	12	19	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:46807269C>G	uc002peh.2	+	2	170	c.141C>G	c.(139-141)GTC>GTG	p.V47V	HIF3A_uc002pef.1_Silent_p.V47V|HIF3A_uc002peg.3_Silent_p.V47V|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_5'UTR|HIF3A_uc002pej.1_Nonsense_Mutation_p.S27*|HIF3A_uc002pek.2_5'UTR|HIF3A_uc010xxy.1_Nonsense_Mutation_p.S27*|HIF3A_uc002pel.2_Silent_p.V45V|HIF3A_uc010xxz.1_Nonsense_Mutation_p.S45*	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	47	Helix-loop-helix motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		CCCGCGGCGTCAGCGCCCACC	0.697													2	16	---	---	---	---	PASS	G	46807269	G	G	46807269	2	3	74	1	0	0	0	0	0	0	0	1	7105	813	29	2		2	HIF3A	19	46807269	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	5212409	46807269	12321714	415	28379										
NAPA	8775	broad.mit.edu	37	chr19	48018127	48018127	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggccagagaagaaggactgcGagttcttcactttgcgctcc	12	11	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:48018127G>C	uc002pha.1	-	1	371	c.71C>G	c.(70-72)TCG>TGG	p.S24W	NAPA_uc002phb.1_Missense_Mutation_p.S24W|NAPA_uc002phc.1_5'UTR|NAPA_uc002phd.1_Missense_Mutation_p.S24W|NAPA_uc010elf.1_5'UTR|NAPA_uc010elg.1_RNA|NAPA_uc002phe.2_Missense_Mutation_p.S24W	NM_003827	NP_003818	P54920	SNAA_HUMAN	N-ethylmaleimide-sensitive factor attachment	24					cellular membrane fusion|intra-Golgi vesicle-mediated transport|post-Golgi vesicle-mediated transport	cytosol					0		all_cancers(25;1.55e-10)|all_epithelial(76;3.4e-08)|all_lung(116;1.73e-07)|Lung NSC(112;3.95e-07)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		OV - Ovarian serous cystadenocarcinoma(262;0.000466)|all cancers(93;0.000739)|Epithelial(262;0.0168)|GBM - Glioblastoma multiforme(486;0.049)		GAAGGACTGCGAGTTCTTCAC	0.642													25	25	---	---	---	---	PASS	C	48018127	C	C	48018127	3	2	74	1	0	0	0	0	1	0	0	0	10161	1059	37	2	860	2	NAPA	19	48018127	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1210858	48018127	11110856	416	28380										
GLTSCR1	29998	broad.mit.edu	37	chr19	48204587	48204587	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tttgccccgattctgcagacGagtacgtgtcttcctcccgc	9	15	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:48204587G>T	uc002phh.3	+	15	3792	c.3598G>T	c.(3598-3600)GAG>TAG	p.E1200*	GLTSCR1_uc002phi.3_Nonsense_Mutation_p.E958*	NM_015711	NP_056526	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	1200							protein binding			pancreas(3)	3		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		TTCTGCAGACGAGTACGTGTC	0.657													13	21	---	---	---	---	PASS	T	48204587	T	T	48204587	4	4	74	1	0	0	0	0	0	1	0	0	6474	1059	37	2	3648	2	GLTSCR1	19	48204587	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	186460	48204587	10924396	417	28381										
PPFIA3	8541	broad.mit.edu	37	chr19	49632235	49632235	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agtgctcaaagctctaaagtCtctcttcgagcaccacaagg	8	12	4	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:49632235C>G	uc002pmr.2	+	4	805	c.473C>G	c.(472-474)TCT>TGT	p.S158C	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_Missense_Mutation_p.S82C|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_Missense_Mutation_p.S26C	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	158						cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		GCTCTAAAGTCTCTCTTCGAG	0.562													3	78	---	---	---	---	PASS	G	49632235	G	G	49632235	3	3	74	1	0	0	0	0	1	0	0	0	12311	913	32	2	483	2	PPFIA3	19	49632235	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1427648	49632235	9496748	418	28382										
PRMT1	3276	broad.mit.edu	37	chr19	50185235	50185235	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tttcataaccggcacctcttCaaggacaaggtggtgctgga	11	10	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:50185235C>T	uc010enf.1	+	4	303	c.261C>T	c.(259-261)TTC>TTT	p.F87F	PRMT1_uc002ppc.1_RNA|PRMT1_uc002ppd.2_Silent_p.F63F|PRMT1_uc002ppe.2_Silent_p.F69F|PRMT1_uc002ppf.2_RNA|PRMT1_uc002ppg.2_Silent_p.F34F|PRMT1_uc010yba.1_RNA	NM_001536	NP_001527	Q8WUW5	Q8WUW5_HUMAN	HMT1 hnRNP methyltransferase-like 2 isoform 1	68						cytoplasm	protein methyltransferase activity			ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00103)|GBM - Glioblastoma multiforme(134;0.012)		GGCACCTCTTCAAGGACAAGG	0.612													4	59	---	---	---	---	PASS	T	50185235	T	T	50185235	2	4	74	1	0	0	0	0	0	0	0	1	12535	825	29	2		2	PRMT1	19	50185235	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	553000	50185235	8943748	419	28383										
ZNF581	51545	broad.mit.edu	37	chr19	56156399	56156399	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccgctctgccctcgccgcttCcgggatgcgggtgagctggc	15	16	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:56156399C>G	uc002qln.2	+	2	1178	c.462C>G	c.(460-462)TTC>TTG	p.F154L	ZNF581_uc002qlq.2_Missense_Mutation_p.F154L|CCDC106_uc002qlr.2_5'Flank	NM_016535	NP_057619	Q9P0T4	ZN581_HUMAN	zinc finger protein 581	154	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		CTCGCCGCTTCCGGGATGCGG	0.677													6	151	---	---	---	---	PASS	G	56156399	G	G	56156399	3	3	74	1	0	0	0	0	1	0	0	0	18010	854	30	2	464	2	ZNF581	19	56156399	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	5971164	56156399	2972584	420	28384										
NLRP8	126205	broad.mit.edu	37	chr19	56467201	56467201	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aactgctgaaagtcatacctCtgttgcataaatgtgaccca	7	10	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:56467201C>T	uc002qmh.2	+	3	1848	c.1777C>T	c.(1777-1779)CTG>TTG	p.L593L	NLRP8_uc010etg.2_Silent_p.L593L	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	593						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)		AGTCATACCTCTGTTGCATAA	0.507													3	69	---	---	---	---	PASS	T	56467201	T	T	56467201	2	4	74	1	0	0	0	0	0	0	0	1	10483	912	32	2		2	NLRP8	19	56467201	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	310802	56467201	2661782	421	28385										
ZNF418	147686	broad.mit.edu	37	chr19	58437712	58437712	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtaaggctttcctcgagtatGaagtctctgatgtttaaaat	9	6	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr19:58437712G>T	uc002qqs.1	-	4	2129	c.1837C>A	c.(1837-1839)CAT>AAT	p.H613N	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Missense_Mutation_p.H528N	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	613	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0158)		CCTCGAGTATGAAGTCTCTGA	0.453													24	97	---	---	---	---	PASS	T	58437712	T	T	58437712	3	4	74	1	0	0	0	0	1	0	0	0	17892	1290	45	2	197	2	ZNF418	19	58437712	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1970511	58437712	691271	422	28386										
DEFB125	245938	broad.mit.edu	37	chr20	76774	76774	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gcatttctataatatcacatGaatatactcgacgaccagca	5	10	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:76774G>A	uc002wcw.2	+	2	187	c.187G>A	c.(187-189)GAA>AAA	p.E63K		NM_153325	NP_697020	Q8N687	DB125_HUMAN	defensin, beta 125 preproprotein	63					defense response to bacterium	extracellular region				ovary(1)|central_nervous_system(1)|skin(1)	3		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.156)			AATATCACATGAATATACTCG	0.368													16	172	---	---	---	---	PASS	A	76774	A	A	76774	3	1	74	1	0	0	0	0	1	0	0	0	4411	1291	45	2	193	2	DEFB125	20	76774	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08		76774	62948746	423	28387										
PDYN	5173	broad.mit.edu	37	chr20	1961213	1961213	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgcgcaaaaagcccccatagCgtttgacctgctccttgggg	11	13	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:1961213C>T	uc010gaj.2	-	3	763	c.521G>A	c.(520-522)CGC>CAC	p.R174H	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.R174H|PDYN_uc010zpt.1_Missense_Mutation_p.R19H	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	174					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						GCCCCCATAGCGTTTGACCTG	0.582													26	84	---	---	---	---	PASS	T	1961213	T	T	1961213	3	4	74	1	0	0	0	0	1	0	0	0	11699	768	27	1	247	1	PDYN	20	1961213	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	1884439	1961213	61064307	424	28388										
BPIL1	80341	broad.mit.edu	37	chr20	31598853	31598853	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctgaaattgggaaagcccctCtccagcgggccctgcaggtc	12	14	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:31598853C>T	uc002wyj.2	+	3	327	c.133C>T	c.(133-135)CTC>TTC	p.L45F		NM_025227	NP_079503	Q8N4F0	BPIL1_HUMAN	bactericidal/permeability-increasing	45						extracellular region	lipid binding			skin(2)|large_intestine(1)|ovary(1)	4						GAAAGCCCCTCTCCAGCGGGC	0.607													20	122	---	---	---	---	PASS	T	31598853	T	T	31598853	3	4	74	1	0	0	0	0	1	0	0	0	1491	913	32	2	139	2	BPIL1	20	31598853	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	29637640	31598853	31426667	425	28389										
CHD6	84181	broad.mit.edu	37	chr20	40080608	40080608	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caaatcatctccatgtccttCtcgttcagatgccacttgaa	5	13	4	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:40080608C>T	uc002xka.1	-	22	3559	c.3381G>A	c.(3379-3381)GAG>GAA	p.E1127E		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1127					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				CCATGTCCTTCTCGTTCAGAT	0.517													6	111	---	---	---	---	PASS	T	40080608	T	T	40080608	2	4	74	1	0	0	0	0	0	0	0	1	3329	912	32	2		2	CHD6	20	40080608	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	8481755	40080608	22944912	426	28390										
PTPRT	11122	broad.mit.edu	37	chr20	40713386	40713386	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctgccacttctccagtcgtcGgaccactttgagcagagagc	10	14	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:40713386G>A	uc002xkg.2	-	29	4256	c.4072C>T	c.(4072-4074)CGA>TGA	p.R1358*	PTPRT_uc010ggj.2_Nonsense_Mutation_p.R1377*|PTPRT_uc010ggi.2_Nonsense_Mutation_p.R561*	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1358	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TCCAGTCGTCGGACCACTTTG	0.597													11	42	---	---	---	---	PASS	A	40713386	A	A	40713386	4	1	74	1	0	0	0	0	0	1	0	0	12812	1124	39	1	265	1	PTPRT	20	40713386	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	632778	40713386	22312134	427	28391										
HNF4A	3172	broad.mit.edu	37	chr20	43034759	43034759	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agcctgggtgtcagcgccctGtgtgccatctgcggggaccg	16	13	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:43034759G>C	uc002xma.2	+	2	266	c.177G>C	c.(175-177)CTG>CTC	p.L59L	HNF4A_uc010zwo.1_Missense_Mutation_p.C50S|HNF4A_uc002xlt.2_Silent_p.L37L|HNF4A_uc002xlu.2_Silent_p.L37L|HNF4A_uc002xlv.2_Silent_p.L37L|HNF4A_uc002xly.2_Silent_p.L59L|HNF4A_uc002xlz.2_Silent_p.L59L|HNF4A_uc010ggq.2_Silent_p.L52L	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	59	Nuclear receptor.				blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			TCAGCGCCCTGTGTGCCATCT	0.637													32	125	---	---	---	---	PASS	C	43034759	C	C	43034759	2	2	74	1	0	0	0	0	0	0	0	1	7253	1364	48	4		4	HNF4A	20	43034759	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	2321373	43034759	19990761	428	28392										
ZSWIM3	140831	broad.mit.edu	37	chr20	44505750	44505750	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgaagaactttcttaaggtaGatgagggttccatggcttcc	11	7	1	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:44505750G>A	uc002xqd.2	+	2	756	c.553G>A	c.(553-555)GAT>AAT	p.D185N	ZSWIM3_uc010zxg.1_Missense_Mutation_p.D179N	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	185							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				TCTTAAGGTAGATGAGGGTTC	0.517													5	141	---	---	---	---	PASS	A	44505750	A	A	44505750	3	1	74	1	0	0	0	0	1	0	0	0	18239	942	33	2	559	2	ZSWIM3	20	44505750	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1470991	44505750	18519770	429	28393										
ZMYND8	23613	broad.mit.edu	37	chr20	45905101	45905101	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atggactcctcgctcgcactGaagtggctcgacgtggcctt	12	13	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:45905101G>T	uc002xta.1	-	11	1631	c.1377C>A	c.(1375-1377)TTC>TTA	p.F459L	ZMYND8_uc010ghq.1_Missense_Mutation_p.F136L|ZMYND8_uc010ghr.1_Missense_Mutation_p.F434L|ZMYND8_uc002xst.1_Missense_Mutation_p.F434L|ZMYND8_uc002xsu.1_Missense_Mutation_p.F459L|ZMYND8_uc002xsv.1_Missense_Mutation_p.F434L|ZMYND8_uc002xsw.1_Missense_Mutation_p.F211L|ZMYND8_uc002xsx.1_Missense_Mutation_p.F211L|ZMYND8_uc002xsy.1_Missense_Mutation_p.F434L|ZMYND8_uc002xsz.1_Missense_Mutation_p.F396L|ZMYND8_uc010zxy.1_Missense_Mutation_p.F486L|ZMYND8_uc002xtb.1_Missense_Mutation_p.F479L|ZMYND8_uc002xss.2_Missense_Mutation_p.F459L|ZMYND8_uc010zxz.1_Missense_Mutation_p.F454L|ZMYND8_uc002xtc.1_Missense_Mutation_p.F479L|ZMYND8_uc002xtd.1_Missense_Mutation_p.F454L|ZMYND8_uc002xte.1_Missense_Mutation_p.F459L|ZMYND8_uc010zya.1_Missense_Mutation_p.F459L|ZMYND8_uc002xtf.1_Missense_Mutation_p.F479L|ZMYND8_uc002xtg.2_Missense_Mutation_p.F453L|ZMYND8_uc010ghs.1_Missense_Mutation_p.F453L	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	459							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			CGCTCGCACTGAAGTGGCTCG	0.627													3	29	---	---	---	---	PASS	T	45905101	T	T	45905101	3	4	74	1	0	0	0	0	1	0	0	0	17708	1281	45	2	2181	2	ZMYND8	20	45905101	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	1399351	45905101	17120419	430	28394										
ZMYND8	23613	broad.mit.edu	37	chr20	45905323	45905323	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tctatcttggcagtgccggcGctggggttggtgggatcgag	18	8	2	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:45905323G>A	uc002xta.1	-	11	1409	c.1155C>T	c.(1153-1155)AGC>AGT	p.S385S	ZMYND8_uc010ghq.1_Silent_p.S62S|ZMYND8_uc010ghr.1_Silent_p.S360S|ZMYND8_uc002xst.1_Silent_p.S360S|ZMYND8_uc002xsu.1_Silent_p.S385S|ZMYND8_uc002xsv.1_Silent_p.S360S|ZMYND8_uc002xsw.1_Silent_p.S137S|ZMYND8_uc002xsx.1_Silent_p.S137S|ZMYND8_uc002xsy.1_Silent_p.S360S|ZMYND8_uc002xsz.1_Silent_p.S322S|ZMYND8_uc010zxy.1_Silent_p.S412S|ZMYND8_uc002xtb.1_Silent_p.S405S|ZMYND8_uc002xss.2_Silent_p.S385S|ZMYND8_uc010zxz.1_Silent_p.S380S|ZMYND8_uc002xtc.1_Silent_p.S405S|ZMYND8_uc002xtd.1_Silent_p.S380S|ZMYND8_uc002xte.1_Silent_p.S385S|ZMYND8_uc010zya.1_Silent_p.S385S|ZMYND8_uc002xtf.1_Silent_p.S405S|ZMYND8_uc002xtg.2_Silent_p.S379S|ZMYND8_uc010ghs.1_Silent_p.S379S	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	385							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			CAGTGCCGGCGCTGGGGTTGG	0.527													6	224	---	---	---	---	PASS	A	45905323	A	A	45905323	2	1	74	1	0	0	0	0	0	0	0	1	17708	1078	38	1		1	ZMYND8	20	45905323	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	222	45905323	17120197	431	28395										
SULF2	55959	broad.mit.edu	37	chr20	46307536	46307536	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gccaggtcaatgttgaggacGatgtggggattcctggggga	18	6	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:46307536G>A	uc002xto.2	-	8	1407	c.1077C>T	c.(1075-1077)ATC>ATT	p.I359I	SULF2_uc002xtr.2_Silent_p.I359I|SULF2_uc002xtq.2_Silent_p.I359I	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	359					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						TGTTGAGGACGATGTGGGGAT	0.632													10	128	---	---	---	---	PASS	A	46307536	A	A	46307536	2	1	74	1	0	0	0	0	0	0	0	1	15370	1048	37	2		2	SULF2	20	46307536	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	402213	46307536	16717984	432	28396										
SPATA2	9825	broad.mit.edu	37	chr20	48524804	48524804	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggctagaggagctgagcgagCgcaaggagctctccaccacc	14	13	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:48524804C>A	uc010gie.2	-	2	574	c.224G>T	c.(223-225)CGC>CTC	p.R75L	SPATA2_uc002xuw.2_Missense_Mutation_p.R75L|SPATA2_uc010zyn.1_Intron	NM_001135773	NP_001129245	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	75					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			GCTGAGCGAGCGCAAGGAGCT	0.597													30	82	---	---	---	---	PASS	A	48524804	A	A	48524804	3	1	74	1	0	0	0	0	1	0	0	0	15004	768	27	1	1346	1	SPATA2	20	48524804	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2217268	48524804	14500716	433	28397										
NFATC2	4773	broad.mit.edu	37	chr20	50071200	50071200	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtgtcttgtctttcaaccatGggcagctcgtgagcagatcg	12	10	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:50071200G>A	uc002xwd.2	-	6	1954	c.1734C>T	c.(1732-1734)CCC>CCT	p.P578P	NFATC2_uc002xwc.2_Silent_p.P578P|NFATC2_uc010zyv.1_Silent_p.P359P|NFATC2_uc010zyw.1_Silent_p.P359P|NFATC2_uc010zyx.1_Silent_p.P558P|NFATC2_uc010zyy.1_Silent_p.P359P|NFATC2_uc010zyz.1_Silent_p.P359P|NFATC2_uc002xwe.2_Silent_p.P558P|hsa-mir-3194|MI0014239_5'Flank	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	578					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					TTTCAACCATGGGCAGCTCGT	0.502													67	190	---	---	---	---	PASS	A	50071200	A	A	50071200	2	1	74	1	0	0	0	0	0	0	0	1	10362	1335	47	3		3	NFATC2	20	50071200	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	1546396	50071200	12954320	434	28398										
RBM38	55544	broad.mit.edu	37	chr20	55967819	55967819	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	atatctgggcgccaagccgcGgagcctccagacgggtgaga	15	12	1	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:55967819G>A	uc010zzj.1	+	2	522	c.347G>A	c.(346-348)CGG>CAG	p.R116Q	RBM38_uc010zzk.1_Missense_Mutation_p.R116Q	NM_017495	NP_059965	Q9H0Z9	RBM38_HUMAN	RNA-binding region containing protein 1 isoform	116				RS -> WC (in Ref. 4; CAA53063/CAA53064).	3'-UTR-mediated mRNA stabilization|cell cycle|cell cycle arrest|cell differentiation|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 transcription of p21 class mediator|mRNA processing|negative regulation of cell proliferation|regulation of RNA splicing|RNA splicing	cytosol|cytosol|nucleus|nucleus	mRNA 3'-UTR binding|mRNA binding|nucleotide binding|RNA binding				0	Lung NSC(12;0.00242)|all_lung(29;0.00767)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;1.55e-12)|Epithelial(14;9.49e-09)|all cancers(14;5.01e-08)			GCCAAGCCGCGGAGCCTCCAG	0.627													15	96	---	---	---	---	PASS	A	55967819	A	A	55967819	3	1	74	1	0	0	0	0	1	0	0	0	13132	1116	39	1	112	1	RBM38	20	55967819	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	5896619	55967819	7057701	435	28399										
ZBP1	81030	broad.mit.edu	37	chr20	56186895	56186895	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	agtatggactgctccatgtgGatgtcctggggcccccaggg	15	11	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:56186895G>A	uc002xyo.2	-	6	1043	c.762C>T	c.(760-762)ATC>ATT	p.I254I	ZBP1_uc010gjm.2_Silent_p.I253I|ZBP1_uc002xyp.2_Silent_p.I179I	NM_030776	NP_110403	Q9H171	ZBP1_HUMAN	Z-DNA binding protein 1 isoform a	254	RIP homotypic interaction motif (RHIM) 2.					cytoplasm|nucleus	double-stranded RNA adenosine deaminase activity|left-handed Z-DNA binding|RNA binding			ovary(2)	2	Lung NSC(12;0.000545)|all_lung(29;0.00195)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;7.87e-13)|Epithelial(14;3.26e-09)|all cancers(14;3.62e-08)			GCTCCATGTGGATGTCCTGGG	0.647													6	17	---	---	---	---	PASS	A	56186895	A	A	56186895	2	1	74	1	0	0	0	0	0	0	0	1	17518	1164	41	2		2	ZBP1	20	56186895	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	219076	56186895	6838625	436	28400										
UCKL1	54963	broad.mit.edu	37	chr20	62571824	62571824	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcgctgatgtccttgggcagCctcaggtagtggagctgcgg	16	10	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr20:62571824C>T	uc010gkn.2	-	13	1360	c.1317G>A	c.(1315-1317)AGG>AGA	p.R439R	UCKL1_uc002yhj.2_Silent_p.R82R|UCKL1_uc011abm.1_Silent_p.R424R|UCKL1_uc011abn.1_RNA	NM_017859	NP_060329	Q9NWZ5	UCKL1_HUMAN	uridine-cytidine kinase 1-like 1	439					interspecies interaction between organisms	endoplasmic reticulum|nucleus	ATP binding|phosphotransferase activity, alcohol group as acceptor|protein binding|uridine kinase activity				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CCTTGGGCAGCCTCAGGTAGT	0.677													9	25	---	---	---	---	PASS	T	62571824	T	T	62571824	2	4	74	1	0	0	0	0	0	0	0	1	16922	738	26	3		3	UCKL1	20	62571824	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	6384929	62571824	453696	437	28401										
RNF160	26046	broad.mit.edu	37	chr21	30359114	30359114	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caccattcggaaatcagaatCtacaagactgtcaatttctt	5	10	4	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr21:30359114C>G	uc002ymr.2	-	2	335	c.322G>C	c.(322-324)GAT>CAT	p.D108H	RNF160_uc010gll.1_RNA	NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	62							ligase activity|zinc ion binding				0						AAATCAGAATCTACAAGACTG	0.368													4	117	---	---	---	---	PASS	G	30359114	G	G	30359114	3	3	74	1	0	0	0	0	1	0	0	0	13455	913	32	2	5232	2	RNF160	21	30359114	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08		30359114	17770781	438	28402										
KRTAP27-1	643812	broad.mit.edu	37	chr21	31709364	31709364	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccatctcccctacagatcttCacttactaggcaattgagaa	5	13	3	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr21:31709364C>T	uc002ynx.1	-	1	649	c.623G>A	c.(622-624)TGA>TAA	p.*208*		NM_001077711	NP_001071179	Q3LI81	KR271_HUMAN	keratin associated protein 27-1	208						intermediate filament				ovary(2)	2						TACAGATCTTCACTTACTAGG	0.378													7	56	---	---	---	---	PASS	T	31709364	T	T	31709364	2	4	74	1	0	0	0	0	0	0	0	1	8544	837	29	2		2	KRTAP27-1	21	31709364	Silent	SNP	C	TCGA-34-5928-01A-11D-1817-08	1350250	31709364	16420531	439	28403										
SYNJ1	8867	broad.mit.edu	37	chr21	34029363	34029363	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ccatagtgcagcaaagtgccTggagtccacgtgtacagaat	11	10	0	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr21:34029363T>C	uc002yqh.2	-	20	2646	c.2646A>G	c.(2644-2646)CCA>CCG	p.P882P	SYNJ1_uc011ads.1_Silent_p.P838P|SYNJ1_uc002yqf.2_Silent_p.P843P|SYNJ1_uc002yqg.2_Silent_p.P838P|SYNJ1_uc002yqi.2_Silent_p.P882P	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	843	Catalytic (Potential).						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						GCAAAGTGCCTGGAGTCCACG	0.383													14	43	---	---	---	---	PASS	C	34029363	C	C	34029363	2	2	74	1	0	0	0	0	0	0	0	1	15449	1567	55	5		5	SYNJ1	21	34029363	Silent	SNP	T	TCGA-34-5928-01A-11D-1817-08	2319999	34029363	14100532	440	28404										
GART	2618	broad.mit.edu	37	chr21	34892833	34892833	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	acacattgctaccaaatcttGaccaatggtatcatgtttat	5	9	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr21:34892833G>A	uc002yrx.2	-	14	1675	c.1540C>T	c.(1540-1542)CAA>TAA	p.Q514*	GART_uc002yrz.2_Nonsense_Mutation_p.Q514*|GART_uc010gmd.2_Nonsense_Mutation_p.Q176*|GART_uc002yry.2_Nonsense_Mutation_p.Q514*	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	514	AIRS.				'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	ACCAAATCTTGACCAATGGTA	0.368													8	38	---	---	---	---	PASS	A	34892833	A	A	34892833	4	1	74	1	0	0	0	0	0	1	0	0	6243	1299	45	2	1528	2	GART	21	34892833	Nonsense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	863470	34892833	13237062	441	28405										
SMTN	6525	broad.mit.edu	37	chr22	31484020	31484020	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tccgggaactgcagcggcagGagctggagcgcgaggaggag	20	9	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr22:31484020G>A	uc003ajl.1	+	3	339	c.121G>A	c.(121-123)GAG>AAG	p.E41K	SMTN_uc003ajk.1_Missense_Mutation_p.E41K|SMTN_uc003ajm.1_Missense_Mutation_p.E41K|SMTN_uc011ale.1_Missense_Mutation_p.E95K|SMTN_uc011alf.1_Missense_Mutation_p.E97K|SMTN_uc003ajn.1_Missense_Mutation_p.E33K|SMTN_uc011alg.1_5'Flank	NM_006932	NP_008863	P53814	SMTN_HUMAN	smoothelin isoform c	41	Potential.				muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3						GCAGCGGCAGGAGCTGGAGCG	0.652													8	45	---	---	---	---	PASS	A	31484020	A	A	31484020	3	1	74	1	0	0	0	0	1	0	0	0	14814	1175	41	2	127	2	SMTN	22	31484020	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08		31484020	19820546	442	28406										
INPP5J	27124	broad.mit.edu	37	chr22	31524234	31524234	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gaacacctggcccattctgaAgggctttcaggaggggcccc	13	13	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr22:31524234A>G	uc003aju.3	+	8	2026	c.1934A>G	c.(1933-1935)AAG>AGG	p.K645R	INPP5J_uc003ajv.3_Missense_Mutation_p.K278R|INPP5J_uc003ajs.3_Missense_Mutation_p.K278R|INPP5J_uc011alk.1_Missense_Mutation_p.K578R|INPP5J_uc010gwg.2_Missense_Mutation_p.K210R|INPP5J_uc003ajw.2_Missense_Mutation_p.K81R|INPP5J_uc003ajt.3_Missense_Mutation_p.K277R|INPP5J_uc003ajx.2_Missense_Mutation_p.K10R|INPP5J_uc003ajy.2_Missense_Mutation_p.K10R|INPP5J_uc003ajz.2_Missense_Mutation_p.K85R	NM_001002837	NP_001002837	Q15735	PI5PA_HUMAN	phosphatidylinositol (4,5) bisphosphate	645	Catalytic (Potential).					cytoplasm|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|SH3 domain binding			skin(1)	1						CCCATTCTGAAGGGCTTTCAG	0.582													3	22	---	---	---	---	PASS	G	31524234	G	G	31524234	3	3	74	1	0	0	0	0	1	0	0	0	7759	72	3	5	860	5	INPP5J	22	31524234	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	40214	31524234	19780332	443	28407										
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31867895	31867895	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gggagttcttttatatccaaGagttcttcctaaaaagagaa	8	6	2	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr22:31867895G>C	uc003akz.1	-	3	269	c.105C>G	c.(103-105)CTC>CTG	p.L35L	EIF4ENIF1_uc003ala.1_Silent_p.L35L|EIF4ENIF1_uc003alb.1_Silent_p.L35L|EIF4ENIF1_uc003alc.1_Silent_p.L35L	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	35	EIF4E-binding.					nucleus	protein binding|protein transporter activity			ovary(1)	1						TTATATCCAAGAGTTCTTCCT	0.353													80	140	---	---	---	---	PASS	C	31867895	C	C	31867895	2	2	74	1	0	0	0	0	0	0	0	1	5035	929	33	2		2	EIF4ENIF1	22	31867895	Silent	SNP	G	TCGA-34-5928-01A-11D-1817-08	343661	31867895	19436671	444	28408										
TNRC6B	23112	broad.mit.edu	37	chr22	40662452	40662452	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gaggtggacgccagcccaatCaaggatggtcttctggaaag	14	9	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr22:40662452C>T	uc011aor.1	+	5	2429	c.2218C>T	c.(2218-2220)CAA>TAA	p.Q740*	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Nonsense_Mutation_p.Q740*|TNRC6B_uc003ayo.2_Nonsense_Mutation_p.Q544*	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	740					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						CCAGCCCAATCAAGGATGGTC	0.522													4	58	---	---	---	---	PASS	T	40662452	T	T	40662452	4	4	74	1	0	0	0	0	0	1	0	0	16338	827	29	2	2357	2	TNRC6B	22	40662452	Nonsense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	8794557	40662452	10642114	445	28409										
MOV10L1	54456	broad.mit.edu	37	chr22	50581585	50581585	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gtggtgactgccgtcccctcCcgtatattctctttggacct	9	14	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chr22:50581585C>T	uc003bjj.2	+	17	2376	c.2293C>T	c.(2293-2295)CCG>TCG	p.P765S	MOV10L1_uc003bjk.3_Missense_Mutation_p.P765S|MOV10L1_uc011arp.1_Missense_Mutation_p.P745S|MOV10L1_uc011arq.1_Missense_Mutation_p.P526S	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	765					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		CCGTCCCCTCCCGTATATTCT	0.483													47	86	---	---	---	---	PASS	T	50581585	T	T	50581585	3	4	74	1	0	0	0	0	1	0	0	0	9719	623	22	3	2400	3	MOV10L1	22	50581585	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	9919133	50581585	722981	446	28410										
MXRA5	25878	broad.mit.edu	37	chrX	3242837	3242837	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gccaccatcctcttcctgttCttgctcctcctcaatactcc	3	19	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:3242837C>G	uc004crg.3	-	5	1046	c.889G>C	c.(889-891)GAA>CAA	p.E297Q		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	297						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TCTTCCTGTTCTTGCTCCTCC	0.502													19	90	---	---	---	---	PASS	G	3242837	G	G	3242837	3	3	74	1	0	0	0	0	1	0	0	0	10003	922	32	2	7609	2	MXRA5	23	3242837	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08		3242837	152027723	447	28411										
RAI2	10742	broad.mit.edu	37	chrX	17818858	17818858	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	caccatctcaatgttattttCagccttgacttcgccgctgg	7	13	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:17818858C>A	uc004cyf.2	-	3	1843	c.1273G>T	c.(1273-1275)GAA>TAA	p.E425*	RAI2_uc004cyg.2_Nonsense_Mutation_p.E425*|RAI2_uc010nfa.2_Nonsense_Mutation_p.E425*|RAI2_uc004cyh.3_Nonsense_Mutation_p.E425*|RAI2_uc011miy.1_Nonsense_Mutation_p.E375*	NM_021785	NP_068557	Q9Y5P3	RAI2_HUMAN	retinoic acid induced 2	425					embryo development					ovary(1)|breast(1)	2	Hepatocellular(33;0.183)					ATGTTATTTTCAGCCTTGACT	0.552													9	163	---	---	---	---	PASS	A	17818858	A	A	17818858	4	1	74	1	0	0	0	0	0	1	0	0	13009	835	29	2	323	2	RAI2	23	17818858	Nonsense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	14576021	17818858	137451702	448	28412										
IL1RAPL1	11141	broad.mit.edu	37	chrX	29973281	29973281	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ggctgattattgtcatgaccCcaaattacgtagttagaagg	10	7	1	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:29973281C>T	uc004dby.2	+	11	1943	c.1435C>T	c.(1435-1437)CCA>TCA	p.P479S		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	479	Cytoplasmic (Potential).|TIR.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						TGTCATGACCCCAAATTACGT	0.388													45	59	---	---	---	---	PASS	T	29973281	T	T	29973281	3	4	74	1	0	0	0	0	1	0	0	0	7661	623	22	3	1473	3	IL1RAPL1	23	29973281	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	12154423	29973281	125297279	449	28413										
CXorf22	170063	broad.mit.edu	37	chrX	35974215	35974215	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aaattcagtgcatcataaaaAatcaatgcgaattacttcct	4	8	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:35974215A>C	uc004ddj.2	+	8	1371	c.1312A>C	c.(1312-1314)AAT>CAT	p.N438H	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	438										large_intestine(1)|lung(1)|ovary(1)	3						CATCATAAAAAATCAATGCGA	0.378													31	39	---	---	---	---	PASS	C	35974215	C	C	35974215	3	2	74	1	0	0	0	0	1	0	0	0	4102	14	1	5	1342	5	CXorf22	23	35974215	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	6000934	35974215	119296345	450	28414										
NYX	60506	broad.mit.edu	37	chrX	41307168	41307168	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aggccgagggatgttggtccTgcttctgcatggtgagttct	15	8	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:41307168T>A	uc004dfh.2	+	1	456	c.26T>A	c.(25-27)CTG>CAG	p.L9Q	NYX_uc011mku.1_Missense_Mutation_p.L4Q	NM_022567	NP_072089	Q9GZU5	NYX_HUMAN	nyctalopin precursor	9					response to stimulus|visual perception	intracellular|proteinaceous extracellular matrix				lung(2)	2						ATGTTGGTCCTGCTTCTGCAT	0.592													9	17	---	---	---	---	PASS	A	41307168	A	A	41307168	3	1	74	1	0	0	0	0	1	0	0	0	10797	1580	55	5	28	5	NYX	23	41307168	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	5332953	41307168	113963392	451	28415										
GLRA4	441509	broad.mit.edu	37	chrX	102974156	102974156	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tgaatcagatagtagcccatCtgccgttccaggtgaaactt	9	10	2	3			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:102974156C>A	uc011mse.1	-	7	1183	c.762G>T	c.(760-762)CAG>CAT	p.Q254H	GLRA4_uc010nou.2_Missense_Mutation_p.Q254H	NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	254	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						AGTAGCCCATCTGCCGTTCCA	0.557													74	103	---	---	---	---	PASS	A	102974156	A	A	102974156	3	1	74	1	0	0	0	0	1	0	0	0	6457	912	32	2	598	2	GLRA4	23	102974156	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	61666988	102974156	52296404	452	28416										
TBC1D8B	54885	broad.mit.edu	37	chrX	106082562	106082562	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	ctattagttctgagtctacaGagccatctgataattttgag	8	7	3	4			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:106082562G>C	uc004emo.2	+	8	1393	c.1228G>C	c.(1228-1230)GAG>CAG	p.E410Q	MORC4_uc004emp.3_Intron|TBC1D8B_uc004emn.2_Missense_Mutation_p.E410Q	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	410						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						TGAGTCTACAGAGCCATCTGA	0.373													42	65	---	---	---	---	PASS	C	106082562	C	C	106082562	3	2	74	1	0	0	0	0	1	0	0	0	15623	943	33	2	1258	2	TBC1D8B	23	106082562	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	3108406	106082562	49187998	453	28417										
DCX	1641	broad.mit.edu	37	chrX	110644424	110644424	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gttctccctggcctgtgcacTgttgctgctagccaaggact	11	13	1	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:110644424T>A	uc004epd.2	-	3	914	c.742A>T	c.(742-744)AGT>TGT	p.S248C	DCX_uc011msv.1_Missense_Mutation_p.S248C|DCX_uc004epe.2_Missense_Mutation_p.S167C|DCX_uc004epf.2_Missense_Mutation_p.S167C|DCX_uc004epg.2_Missense_Mutation_p.S167C	NM_000555	NP_000546	O43602	DCX_HUMAN	doublecortin isoform a	248					axon guidance|central nervous system development|intracellular signal transduction	cytosol|microtubule associated complex	microtubule binding			central_nervous_system(2)|lung(1)|skin(1)	4						GCCTGTGCACTGTTGCTGCTA	0.522													32	52	---	---	---	---	PASS	A	110644424	A	A	110644424	3	1	74	1	0	0	0	0	1	0	0	0	4318	1580	55	5	618	5	DCX	23	110644424	Missense_Mutation	SNP	T	TCGA-34-5928-01A-11D-1817-08	4561862	110644424	44626136	454	28418										
LONRF3	79836	broad.mit.edu	37	chrX	118123389	118123389	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	aggacaatctggagctcccaCattgttctagtcaggaggaa	11	9	3	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:118123389C>T	uc004eqw.2	+	4	1109	c.1078C>T	c.(1078-1080)CAT>TAT	p.H360Y	LONRF3_uc004eqx.2_Missense_Mutation_p.H319Y|LONRF3_uc004eqy.2_RNA|LONRF3_uc004eqz.2_Missense_Mutation_p.H104Y	NM_001031855	NP_001027026	Q496Y0	LONF3_HUMAN	LON peptidase N-terminal domain and ring finger	360					proteolysis		ATP-dependent peptidase activity|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)	2						GGAGCTCCCACATTGTTCTAG	0.498													25	59	---	---	---	---	PASS	T	118123389	T	T	118123389	3	4	74	1	0	0	0	0	1	0	0	0	8896	478	17	3	1092	3	LONRF3	23	118123389	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	7478965	118123389	37147171	455	28419										
GLUD2	2747	broad.mit.edu	37	chrX	120181736	120181736	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cgcgaggacgaccccaacttCttcaagatggtggagggctt	13	11	2	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:120181736C>G	uc004eto.2	+	1	275	c.198C>G	c.(196-198)TTC>TTG	p.F66L		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	66					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	ACCCCAACTTCTTCAAGATGG	0.677													13	78	---	---	---	---	PASS	G	120181736	G	G	120181736	3	3	74	1	0	0	0	0	1	0	0	0	6477	912	32	2	200	2	GLUD2	23	120181736	Missense_Mutation	SNP	C	TCGA-34-5928-01A-11D-1817-08	2058347	120181736	35088824	456	28420										
GRIA3	2892	broad.mit.edu	37	chrX	122319713	122319713	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	tcatgagaaacacagtgcagGagcacagcgctttccgcttt	10	11	1	1			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:122319713G>C	uc004etq.3	+	3	432	c.139G>C	c.(139-141)GAG>CAG	p.E47Q	GRIA3_uc004etr.3_Missense_Mutation_p.E47Q|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.E31Q|GRIA3_uc010nqs.1_Missense_Mutation_p.E47Q	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	47	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	CACAGTGCAGGAGCACAGCGC	0.488													10	68	---	---	---	---	PASS	C	122319713	C	C	122319713	3	2	74	1	0	0	0	0	1	0	0	0	6769	1175	41	2	145	2	GRIA3	23	122319713	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	2137977	122319713	32950847	457	28421										
BCORL1	63035	broad.mit.edu	37	chrX	129155069	129155069	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	gggaaagcacaagcaccggaAgccgacaaagccggagtccc	13	13	0	0			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:129155069A>T	uc004evb.1	+	5	3665	c.3551A>T	c.(3550-3552)AAG>ATG	p.K1184M	BCORL1_uc010nrd.1_Missense_Mutation_p.K1086M	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1184					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						AAGCACCGGAAGCCGACAAAG	0.627													10	38	---	---	---	---	PASS	T	129155069	T	T	129155069	3	4	74	1	0	0	0	0	1	0	0	0	1387	72	3	5	3565	5	BCORL1	23	129155069	Missense_Mutation	SNP	A	TCGA-34-5928-01A-11D-1817-08	6835356	129155069	26115491	458	28422										
FLNA	2316	broad.mit.edu	37	chrX	153589882	153589882	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.36	162	2.60859419821642e-46	3.32234561213434	3.96103286384977	2.75333333333333	0.0415128350348492	0.253371441419597	113	cttggatgccactttgccttGaccaccagcaccctttgatt	7	14	0	2			TCGA-34-5928-01A-11D-1817-08	TCGA-34-5928-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e2d032e-f982-44fc-b6e0-3be82f029689	b8da860b-03e5-44e5-a8c0-9ab310d3dfdd	g.chrX:153589882G>C	uc004fkk.2	-	21	3250	c.3001C>G	c.(3001-3003)CAA>GAA	p.Q1001E	FLNA_uc010nuu.1_Missense_Mutation_p.Q1001E	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1001	Filamin 8.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ACTTTGCCTTGACCACCAGCA	0.577													55	102	---	---	---	---	PASS	C	153589882	C	C	153589882	3	2	74	1	0	0	0	0	1	0	0	0	5933	1299	45	2	5054	2	FLNA	23	153589882	Missense_Mutation	SNP	G	TCGA-34-5928-01A-11D-1817-08	24434813	153589882	1680678	459	28423										
CALML6	163688	broad.mit.edu	37	chr1	1848280	1848280	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aggagagcgagctgagggcgGcattccgtgtctttgacaaa	15	8	1	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:1848280G>A	uc001aih.1	+	4	797	c.343G>A	c.(343-345)GCA>ACA	p.A115T		NM_138705	NP_619650	Q8TD86	CALL6_HUMAN	calmodulin-like 6	115	EF-hand 3.					cytoplasm|nucleus	calcium ion binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;1.94e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.83e-23)|GBM - Glioblastoma multiforme(42;3.23e-08)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00437)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.199)		GCTGAGGGCGGCATTCCGTGT	0.597													5	174	---	---	---	---	PASS	A	1848280	A	A	1848280	3	1	75	1	0	0	0	0	1	0	0	0	2590	1203	42	3	357	3	CALML6	1	1848280	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08		1848280	247402341	1	28424										
KIAA1751	85452	broad.mit.edu	37	chr1	1920058	1920058	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tcctcagctgttttcttcttCaatttatcagcatcagtatc	4	11	6	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:1920058C>G	uc001aim.1	-	4	345	c.189G>C	c.(187-189)TTG>TTC	p.L63F	KIAA1751_uc009vkz.1_Missense_Mutation_p.L63F|KIAA1751_uc001ain.1_Missense_Mutation_p.L63F	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	63										pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		TTTTCTTCTTCAATTTATCAG	0.498													38	70	---	---	---	---	PASS	G	1920058	G	G	1920058	3	3	75	1	0	0	0	0	1	0	0	0	8256	825	29	2	2159	2	KIAA1751	1	1920058	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	71778	1920058	247330563	2	28425										
ZBTB48	3104	broad.mit.edu	37	chr1	6642200	6642200	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgtgctgaccaggaggaagtCaaatgtaatccgaaagccct	11	9	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:6642200C>G	uc009vmc.1	+	3	896	c.773C>G	c.(772-774)TCA>TGA	p.S258*	ZBTB48_uc001anx.2_Nonsense_Mutation_p.S258*|ZBTB48_uc009vmd.1_Nonsense_Mutation_p.S258*	NM_005341	NP_005332	P10074	ZBT48_HUMAN	zinc finger and BTB domain containing 48	258						cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.35e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00109)|STAD - Stomach adenocarcinoma(132;0.017)|READ - Rectum adenocarcinoma(331;0.0642)		AGGAGGAAGTCAAATGTAATC	0.572													23	36	---	---	---	---	PASS	G	6642200	G	G	6642200	4	3	75	1	0	0	0	0	0	1	0	0	17546	838	29	2	779	2	ZBTB48	1	6642200	Nonsense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	4722142	6642200	242608421	3	28426										
PGD	5226	broad.mit.edu	37	chr1	10460560	10460560	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aaagagatggtctccaagctGaagaagccccggcggatcat	12	10	2	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:10460560G>A	uc001arc.2	+	3	285	c.195G>A	c.(193-195)CTG>CTA	p.L65L	PGD_uc001ard.2_5'UTR|PGD_uc010oak.1_Silent_p.L65L|PGD_uc010oal.1_Silent_p.L52L	NM_002631	NP_002622	P52209	6PGD_HUMAN	phosphogluconate dehydrogenase	65					pentose-phosphate shunt, oxidative branch	cytosol	NADP binding|phosphogluconate dehydrogenase (decarboxylating) activity|protein binding			ovary(1)	1	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.14e-07)|COAD - Colon adenocarcinoma(227;7.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.00832)|READ - Rectum adenocarcinoma(331;0.0487)		TCTCCAAGCTGAAGAAGCCCC	0.522													31	57	---	---	---	---	PASS	A	10460560	A	A	10460560	2	1	75	1	0	0	0	0	0	0	0	1	11787	1277	45	2		2	PGD	1	10460560	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	3818360	10460560	238790061	4	28427										
PLOD1	5351	broad.mit.edu	37	chr1	12024315	12024315	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cagtgcagatggctactatgCccgttccgaggactacgtgg	13	11	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:12024315C>T	uc001atm.2	+	12	1377	c.1286C>T	c.(1285-1287)GCC>GTC	p.A429V	PLOD1_uc010obb.1_Missense_Mutation_p.A476V	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	429					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	GGCTACTATGCCCGTTCCGAG	0.632													5	259	---	---	---	---	PASS	T	12024315	T	T	12024315	3	4	75	1	0	0	0	0	1	0	0	0	12101	739	26	3	1332	3	PLOD1	1	12024315	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	1563755	12024315	237226306	5	28428										
NBPF1	55672	broad.mit.edu	37	chr1	16902856	16902856	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgggacttgtctggctcatcCggagtgaggagggcctggag	18	8	2	1	rs144773412	by1000genomes	TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:16902856C>A	uc009vos.1	-	19	2913	c.2025G>T	c.(2023-2025)CCG>CCT	p.P675P	NBPF1_uc009vot.1_Intron|NBPF1_uc001ayz.1_Silent_p.P133P|NBPF1_uc010oce.1_Silent_p.P404P	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	675						cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		CTGGCTCATCCGGAGTGAGGA	0.572													103	550	---	---	---	---	PASS	A	16902856	A	A	16902856	2	1	75	1	0	0	0	0	0	0	0	1	10192	639	23	1		1	NBPF1	1	16902856	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	4878541	16902856	232347765	6	28429										
CDA	978	broad.mit.edu	37	chr1	20931448	20931448	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	catagaaaatgcctgctaccCgctgggcatctgtgctgaac	10	12	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:20931448C>A	uc001bdk.2	+	2	361	c.182C>A	c.(181-183)CCG>CAG	p.P61Q	CDA_uc001bdl.2_RNA|CDA_uc009vpv.2_Intron	NM_001785	NP_001776	P32320	CDD_HUMAN	cytidine deaminase	61					cell surface receptor linked signaling pathway|cytosine metabolic process|negative regulation of cell growth|negative regulation of nucleotide metabolic process|protein homotetramerization|pyrimidine nucleoside salvage	cytosol|extracellular region	cytidine deaminase activity|nucleoside binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Lung NSC(340;1.75e-08)|all_lung(284;5.99e-08)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|GBM - Glioblastoma multiforme(114;1.06e-08)|COAD - Colon adenocarcinoma(152;1.22e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000148)|Kidney(64;0.000184)|KIRC - Kidney renal clear cell carcinoma(64;0.0027)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0652)|Lung(427;0.199)	Azacitidine(DB00928)|Capecitabine(DB01101)|Cytarabine(DB00987)|Gemcitabine(DB00441)	GCCTGCTACCCGCTGGGCATC	0.522													18	26	---	---	---	---	PASS	A	20931448	A	A	20931448	3	1	75	1	0	0	0	0	1	0	0	0	3052	652	23	1	188	1	CDA	1	20931448	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	4028592	20931448	228319173	7	28430										
TRIM63	84676	broad.mit.edu	37	chr1	26387757	26387757	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgggcacctcacacgtgagaCagtagatgttgattttctca	10	9	2	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:26387757C>G	uc001bli.1	-	3	537	c.401G>C	c.(400-402)TGT>TCT	p.C134S		NM_032588	NP_115977	Q969Q1	TRI63_HUMAN	muscle specific ring finger protein 1	134	Interaction with TTN.|B box-type.					cytoplasm|microtubule|nucleus	ligase activity|signal transducer activity|titin binding|zinc ion binding			kidney(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000154)|all_lung(284;0.00021)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;9.15e-26)|Colorectal(126;3.16e-08)|COAD - Colon adenocarcinoma(152;1.72e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000767)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		ACACGTGAGACAGTAGATGTT	0.562													28	51	---	---	---	---	PASS	G	26387757	G	G	26387757	3	3	75	1	0	0	0	0	1	0	0	0	16535	478	17	4	688	4	TRIM63	1	26387757	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	5456309	26387757	222862864	8	28431										
KIAA0319L	79932	broad.mit.edu	37	chr1	35915495	35915495	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cacctccacagtggtccggtCtgtgtcactctcaccctttg	8	16	3	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:35915495C>T	uc001byx.2	-	15	2584	c.2326G>A	c.(2326-2328)GAC>AAC	p.D776N	KIAA0319L_uc001byw.2_Missense_Mutation_p.D218N|KIAA0319L_uc010ohv.1_Missense_Mutation_p.D418N	NM_024874	NP_079150	Q8IZA0	K319L_HUMAN	dyslexia susceptibility 2-like	776	PKD 5.|Extracellular (Potential).					cytoplasmic vesicle part|integral to membrane	protein binding			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GTGGTCCGGTCTGTGTCACTC	0.483													32	61	---	---	---	---	PASS	T	35915495	T	T	35915495	3	4	75	1	0	0	0	0	1	0	0	0	8169	913	32	2	851	2	KIAA0319L	1	35915495	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	9527738	35915495	213335126	9	28432										
USP24	23358	broad.mit.edu	37	chr1	55608723	55608723	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aatagcttcattagcaatttCttcatcaggtgattccatgg	7	8	4	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:55608723C>A	uc001cyg.3	-	19	2029	c.2029G>T	c.(2029-2031)GAA>TAA	p.E677*		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	837					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						TTAGCAATTTCTTCATCAGGT	0.284													5	4	---	---	---	---	PASS	A	55608723	A	A	55608723	4	1	75	1	0	0	0	0	0	1	0	0	17052	922	32	2	5541	2	USP24	1	55608723	Nonsense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	19693228	55608723	193641898	10	28433										
LRRC7	57554	broad.mit.edu	37	chr1	70446077	70446077	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cccagcctgaagttctggatCaaatacaaaatttgagggag	10	8	2	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:70446077C>A	uc001dep.2	+	7	643	c.613C>A	c.(613-615)CAA>AAA	p.Q205K	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	205	LRR 8.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						AGTTCTGGATCAAATACAAAA	0.328													77	157	---	---	---	---	PASS	A	70446077	A	A	70446077	3	1	75	1	0	0	0	0	1	0	0	0	9020	827	29	2	639	2	LRRC7	1	70446077	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	14837354	70446077	178804544	11	28434										
RSBN1	54665	broad.mit.edu	37	chr1	114354943	114354943	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ccgcccccccgtccgcgcatCgcgcaagcgccgcccgcgca	11	24	0	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:114354943C>G	uc001edq.2	-	1	128	c.92G>C	c.(91-93)CGA>CCA	p.R31P	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	31						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTCCGCGCATCGCGCAAGCGC	0.672													37	36	---	---	---	---	PASS	G	114354943	G	G	114354943	3	3	75	1	0	0	0	0	1	0	0	0	13696	884	31	2	2344	2	RSBN1	1	114354943	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	43908866	114354943	134895678	12	28435										
IGSF3	3321	broad.mit.edu	37	chr1	117158825	117158825	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gtgcaatagggttgagttccCctggactctttctatgaaga	11	8	2	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:117158825C>A	uc001egr.1	-	3	1003	c.298G>T	c.(298-300)GGG>TGG	p.G100W	IGSF3_uc001egq.1_Missense_Mutation_p.G100W	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	100	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		GTTGAGTTCCCCTGGACTCTT	0.542													17	33	---	---	---	---	PASS	A	117158825	A	A	117158825	3	1	75	1	0	0	0	0	1	0	0	0	7601	623	22	3	3386	3	IGSF3	1	117158825	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	2803882	117158825	132091796	13	28436										
OR10K1	391109	broad.mit.edu	37	chr1	158436285	158436285	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tcggccaaactttctatcctCttagttaaagagctattttt	5	9	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:158436285C>A	uc010pij.1	+	1	934	c.934C>A	c.(934-936)CTT>ATT	p.L312I		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TTTCTATCCTCTTAGTTAAag	0.204													19	36	---	---	---	---	PASS	A	158436285	A	A	158436285	3	1	75	1	0	0	0	0	1	0	0	0	10913	913	32	2	936	2	OR10K1	1	158436285	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	41277460	158436285	90814336	14	28437										
SPTA1	6708	broad.mit.edu	37	chr1	158636282	158636282	+	Missense_Mutation	SNP	G	T	T													0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctggttggcctcatgcaactGggtccctgggagaagacata							TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:158636282G>T	uc001fst.1	-	16	2243	c.2044C>A	c.(2044-2046)CAG>AAG	p.Q682K		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	682	Spectrin 7.				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)					TCATGCAACTGGGTCCCTGGG	0.428													16	36	---	---	---	---	PASS	T	158636282	T	T	158636282	3	4	75	1	0	0	0	0	1	0	0	0	15115	1357	47	3	5363	3	SPTA1	1	158636282	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	199997	158636282	90614339	15	28438	593	2								
SPTA1	6708	broad.mit.edu	37	chr1	158636283	158636283	+	Silent	SNP	G	T	T													0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tggttggcctcatgcaactgGgtccctgggagaagacataa							TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:158636283G>T	uc001fst.1	-	16	2242	c.2043C>A	c.(2041-2043)ACC>ACA	p.T681T		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	681	Spectrin 7.				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)					CATGCAACTGGGTCCCTGGGA	0.428													16	36	---	---	---	---	PASS	T	158636283	T	T	158636283	2	4	75	1	0	0	0	0	0	0	0	1	15115	1219	43	3		3	SPTA1	1	158636283	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	1	158636283	90614338	16	28439	593	2								
MR1	3140	broad.mit.edu	37	chr1	181018381	181018381	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgggagaggtacactcagctGctgaggggctggcagcagat	17	8	1	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:181018381G>T	uc001goq.1	+	2	266	c.261G>T	c.(259-261)CTG>CTT	p.L87L	MR1_uc001gop.2_Silent_p.L87L|MR1_uc001gor.1_Silent_p.L87L|MR1_uc001gos.1_Silent_p.L87L|MR1_uc010pns.1_Silent_p.L87L	NM_001531	NP_001522	Q95460	HMR1_HUMAN	major histocompatibility complex, class	87	Extracellular (Potential).|Ligand-binding.|Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I|immune response	endoplasmic reticulum|extracellular region|integral to membrane|MHC class I protein complex	MHC class I receptor activity			skin(1)	1						ACACTCAGCTGCTGAGGGGCT	0.582													11	29	---	---	---	---	PASS	T	181018381	T	T	181018381	2	4	75	1	0	0	0	0	0	0	0	1	9752	1306	46	3		3	MR1	1	181018381	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	22382098	181018381	68232240	17	28440										
CACNA1E	777	broad.mit.edu	37	chr1	181701998	181701998	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggcgcagccggcatcgccgcGtcaggacagaaggcaaggag	17	12	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:181701998G>A	uc001gow.2	+	20	2941	c.2776G>A	c.(2776-2778)GTC>ATC	p.V926I	CACNA1E_uc009wxs.2_Missense_Mutation_p.V814I|CACNA1E_uc001gox.1_Missense_Mutation_p.V152I|CACNA1E_uc009wxt.2_Missense_Mutation_p.V152I	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	926	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GCATCGCCGCGTCAGGACAGA	0.652													51	84	---	---	---	---	PASS	A	181701998	A	A	181701998	3	1	75	1	0	0	0	0	1	0	0	0	2542	1145	40	1	2854	1	CACNA1E	1	181701998	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	683617	181701998	67548623	18	28441										
KCNH1	3756	broad.mit.edu	37	chr1	210856666	210856666	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tctctgattctggggactgtGgcctcgatatttcaaacaac	9	10	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:210856666G>T	uc001hib.2	-	11	3097	c.2927C>A	c.(2926-2928)CCA>CAA	p.P976Q	KCNH1_uc001hic.2_Missense_Mutation_p.P949Q	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	976	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		TGGGGACTGTGGCCTCGATAT	0.438													72	165	---	---	---	---	PASS	T	210856666	T	T	210856666	3	4	75	1	0	0	0	0	1	0	0	0	8031	1348	47	3	46	3	KCNH1	1	210856666	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	29154668	210856666	38393955	19	28442										
TMEM63A	9725	broad.mit.edu	37	chr1	226065176	226065176	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agcacggtgctgtttttggcCgagttgtagcaataggagtc	14	7	0	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:226065176C>A	uc001hpm.1	-	3	355	c.105G>T	c.(103-105)TCG>TCT	p.S35S	TMEM63A_uc010pvi.1_Silent_p.S35S	NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	35						integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					TGTTTTTGGCCGAGTTGTAGC	0.607											OREG0014291	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	44	---	---	---	---	PASS	A	226065176	A	A	226065176	2	1	75	1	0	0	0	0	0	0	0	1	16187	639	23	1		1	TMEM63A	1	226065176	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	15208510	226065176	23185445	20	28443										
OBSCN	84033	broad.mit.edu	37	chr1	228562323	228562323	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agcagcagccgtgtcctcatCtctgccaccctcaagaactt	7	16	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:228562323C>G	uc009xez.1	+	97	22577	c.22533C>G	c.(22531-22533)ATC>ATG	p.I7511M	OBSCN_uc001hsr.1_Missense_Mutation_p.I2140M	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	7511	Ig-like 55.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GTGTCCTCATCTCTGCCACCC	0.622													43	94	---	---	---	---	PASS	G	228562323	G	G	228562323	3	3	75	1	0	0	0	0	1	0	0	0	10812	903	32	2	24125	2	OBSCN	1	228562323	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	2497147	228562323	20688298	21	28444										
RYR2	6262	broad.mit.edu	37	chr1	237919670	237919670	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggctgagatggtgctacagaCaatcagtgccagcaaaggta	13	8	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:237919670C>A	uc001hyl.1	+	81	11348	c.11228C>A	c.(11227-11229)ACA>AAA	p.T3743K	RYR2_uc010pya.1_Missense_Mutation_p.T158K	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3743					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)			GTGCTACAGACAATCAGTGCC	0.488													27	53	---	---	---	---	PASS	A	237919670	A	A	237919670	3	1	75	1	0	0	0	0	1	0	0	0	13769	478	17	3	11550	3	RYR2	1	237919670	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	9357347	237919670	11330951	22	28445										
OR2B11	127623	broad.mit.edu	37	chr1	247614885	247614885	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	catgagaacggcatagtgcaGgggcttgcagatggccacgt	15	9	0	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:247614885G>A	uc010pyx.1	-	1	400	c.400C>T	c.(400-402)CTG>TTG	p.L134L		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	134	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			GCATAGTGCAGGGGCTTGCAG	0.622													26	72	---	---	---	---	PASS	A	247614885	A	A	247614885	2	1	75	1	0	0	0	0	0	0	0	1	10988	991	35	3		3	OR2B11	1	247614885	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	9695215	247614885	1635736	23	28446										
OR2T34	127068	broad.mit.edu	37	chr1	248738056	248738056	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gaagtctgattccctgagcaCatgactggctcacagtttcc	9	12	2	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:248738056C>A	uc001iep.1	-	1	3	c.3G>T	c.(1-3)ATG>ATT	p.M1I		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCCCTGAGCACATGACTGGCT	0.448													20	82	---	---	---	---	PASS	A	248738056	A	A	248738056	3	1	75	1	0	0	0	0	1	0	0	0	11025	478	17	3	957	3	OR2T34	1	248738056	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	1123171	248738056	512565	24	28447										
OR2T35	403244	broad.mit.edu	37	chr1	248801900	248801900	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctgtggacagtcaggaggatGtgcgtgtaggacacagagat	16	6	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr1:248801900G>A	uc001ies.1	-	1	660	c.660C>T	c.(658-660)CAC>CAT	p.H220H		NM_001001827	NP_001001827	Q8NGX2	O2T35_HUMAN	olfactory receptor, family 2, subfamily T,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;2.04e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.237)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCAGGAGGATGTGCGTGTAGG	0.537													22	33	---	---	---	---	PASS	A	248801900	A	A	248801900	2	1	75	1	0	0	0	0	0	0	0	1	11026	1368	48	3		3	OR2T35	1	248801900	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	63844	248801900	448721	25	28448										
TPO	7173	broad.mit.edu	37	chr2	1499811	1499811	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggatgcacagaggcgtgagcTggagaagcactccctgtctc	14	11	1	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:1499811T>C	uc002qww.2	+	12	2148	c.2057T>C	c.(2056-2058)CTG>CCG	p.L686P	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Missense_Mutation_p.L629P|TPO_uc002qwr.2_Missense_Mutation_p.L686P|TPO_uc002qwx.2_Missense_Mutation_p.L629P|TPO_uc010yio.1_Missense_Mutation_p.L513P|TPO_uc010yip.1_Missense_Mutation_p.L686P|TPO_uc002qwy.1_Missense_Mutation_p.L26P|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	686	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	AGGCGTGAGCTGGAGAAGCAC	0.562													12	22	---	---	---	---	PASS	C	1499811	C	C	1499811	3	2	75	1	0	0	0	0	1	0	0	0	16407	1580	55	5	2099	5	TPO	2	1499811	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08		1499811	241699562	26	28449										
LTBP1	4052	broad.mit.edu	37	chr2	33487888	33487888	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	atctgcatccacagtttccaGgtagcctgtgttgatctgtg	10	10	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:33487888G>A	uc002ros.2	+	14	2518	c.2518G>A	c.(2518-2520)GGT>AGT	p.G840S	LTBP1_uc002rot.2_Missense_Mutation_p.G514S|LTBP1_uc002rou.2_Missense_Mutation_p.V514I|LTBP1_uc002rov.2_Missense_Mutation_p.V461I|LTBP1_uc010ymz.1_Missense_Mutation_p.V514I|LTBP1_uc010yna.1_Missense_Mutation_p.V461I	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				ACAGTTTCCAGGTAGCCTGTG	0.403													31	75	---	---	---	---	PASS	A	33487888	A	A	33487888	3	1	75	1	0	0	0	0	1	0	0	0	9073	1014	35	3	2627	3	LTBP1	2	33487888	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	31988077	33487888	209711485	27	28450										
REG3A	5068	broad.mit.edu	37	chr2	79385460	79385460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	atatactggcacctgtgtggGgtcatggagcccaatccaga	12	10	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:79385460G>T	uc002sod.1	-	3	580	c.325C>A	c.(325-327)CCC>ACC	p.P109T	REG3A_uc002soe.1_Missense_Mutation_p.P109T|REG3A_uc002sof.1_Missense_Mutation_p.P109T	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	109	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						ACCTGTGTGGGGTCATGGAGC	0.572													25	31	---	---	---	---	PASS	T	79385460	T	T	79385460	3	4	75	1	0	0	0	0	1	0	0	0	13212	1232	43	3	214	3	REG3A	2	79385460	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	45897572	79385460	163813913	28	28451										
TEKT4	150483	broad.mit.edu	37	chr2	95537563	95537563	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cacagagacccaggcgctggCgcagcgcacgcagcaagact	13	15	0	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:95537563C>A	uc002stw.1	+	1	332	c.239C>A	c.(238-240)GCG>GAG	p.A80E	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	80					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						CAGGCGCTGGCGCAGCGCACG	0.682													10	33	---	---	---	---	PASS	A	95537563	A	A	95537563	3	1	75	1	0	0	0	0	1	0	0	0	15752	768	27	1	241	1	TEKT4	2	95537563	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	16152103	95537563	147661810	29	28452										
UXS1	80146	broad.mit.edu	37	chr2	106761798	106761798	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgagtttgtcagttagatggGagcccacgaaccctgcgcct	12	11	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:106761798G>C	uc002tdm.2	-	6	403	c.305C>G	c.(304-306)TCC>TGC	p.S102C	UXS1_uc002tdn.2_Missense_Mutation_p.S107C|UXS1_uc002tdo.2_Missense_Mutation_p.S45C|UXS1_uc010ywh.1_Intron	NM_025076	NP_079352	Q8NBZ7	UXS1_HUMAN	UDP-glucuronate decarboxylase 1	102	Lumenal (Potential).				cellular metabolic process	Golgi cisterna membrane|integral to membrane	coenzyme binding|UDP-glucuronate decarboxylase activity			ovary(2)	2						AGTTAGATGGGAGCCCACGAA	0.552													15	31	---	---	---	---	PASS	C	106761798	C	C	106761798	3	2	75	1	0	0	0	0	1	0	0	0	17106	1174	41	2	997	2	UXS1	2	106761798	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	11224235	106761798	136437575	30	28453										
PTPN18	26469	broad.mit.edu	37	chr2	131116818	131116818	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gctgacagatgatcagacgcGagtaatcctctccctgctcc	9	14	2	4			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:131116818G>A	uc002trc.2	+	3	316	c.215G>A	c.(214-216)CGA>CAA	p.R72Q	PTPN18_uc002trd.2_Missense_Mutation_p.R72Q|PTPN18_uc002trb.2_Intron	NM_014369	NP_055184	Q99952	PTN18_HUMAN	protein tyrosine phosphatase, non-receptor type	72	Tyrosine-protein phosphatase.					cytoplasm|nucleus	non-membrane spanning protein tyrosine phosphatase activity			ovary(3)|kidney(1)	4	Colorectal(110;0.1)					GATCAGACGCGAGTAATCCTC	0.562													42	72	---	---	---	---	PASS	A	131116818	A	A	131116818	3	1	75	1	0	0	0	0	1	0	0	0	12784	1058	37	2	225	2	PTPN18	2	131116818	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	24355020	131116818	112082555	31	28454										
MCM6	4175	broad.mit.edu	37	chr2	136633875	136633875	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctggcacttctcggccacctCgtcgcggacctccaggtgct	11	17	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:136633875C>T	uc002tuw.2	-	1	137	c.61G>A	c.(61-63)GAG>AAG	p.E21K		NM_005915	NP_005906	Q14566	MCM6_HUMAN	minichromosome maintenance complex component 6	21					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|identical protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.166)	Atorvastatin(DB01076)	TCGGCCACCTCGTCGCGGACC	0.697													31	49	---	---	---	---	PASS	T	136633875	T	T	136633875	3	4	75	1	0	0	0	0	1	0	0	0	9391	893	31	2	2472	2	MCM6	2	136633875	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	5517057	136633875	106565498	32	28455										
FAP	2191	broad.mit.edu	37	chr2	163083088	163083088	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aatgttccatttaaaatatcCttcagtgtgagtgctctcat	6	8	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:163083088C>A	uc002ucd.2	-	3	343	c.135G>T	c.(133-135)AAG>AAT	p.K45N	FAP_uc010zct.1_Missense_Mutation_p.K45N|FAP_uc010fpd.2_Intron|FAP_uc010fpe.1_Intron	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	45	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						TTAAAATATCCTTCAGTGTGA	0.289													20	49	---	---	---	---	PASS	A	163083088	A	A	163083088	3	1	75	1	0	0	0	0	1	0	0	0	5673	680	24	3	2243	3	FAP	2	163083088	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	26449213	163083088	80116285	33	28456										
SCN9A	6335	broad.mit.edu	37	chr2	167094728	167094728	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agatcttgtctgcatactccAggataatcttaatggtcttt	7	8	4	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:167094728A>T	uc010fpl.2	-	20	3985	c.3644T>A	c.(3643-3645)CTG>CAG	p.L1215Q	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1226	Helical; Name=S2 of repeat III; (Potential).|III.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	TGCATACTCCAGGATAATCTT	0.323													10	17	---	---	---	---	PASS	T	167094728	T	T	167094728	3	4	75	1	0	0	0	0	1	0	0	0	13925	188	7	5	2321	5	SCN9A	2	167094728	Missense_Mutation	SNP	A	TCGA-34-5929-01A-11D-1817-08	4011640	167094728	76104645	34	28457										
TTN	7273	broad.mit.edu	37	chr2	179477683	179477683	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgttccagtcttcagcatttCaatgacataagactcaatct	5	10	5	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:179477683C>G	uc010zfg.1	-	214	42285	c.42061G>C	c.(42061-42063)GAA>CAA	p.E14021Q	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E7716Q|TTN_uc010zfi.1_Missense_Mutation_p.E7649Q|TTN_uc010zfj.1_Missense_Mutation_p.E7524Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14948							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)			TTCAGCATTTCAATGACATAA	0.463													26	49	---	---	---	---	PASS	G	179477683	G	G	179477683	3	3	75	1	0	0	0	0	1	0	0	0	16732	835	29	2	58320	2	TTN	2	179477683	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	12382955	179477683	63721690	35	28458										
TTN	7273	broad.mit.edu	37	chr2	179606388	179606388	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agcagaaggggttaatagcaCtccattaaagaaccactgaa	9	8	0	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:179606388C>T	uc010zfh.1	-	46	11283	c.11059G>A	c.(11059-11061)GTG>ATG	p.V3687M	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.V3620M|TTN_uc010zfj.1_Missense_Mutation_p.V3495M|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			GTTAATAGCACTCCATTAAAG	0.418													56	119	---	---	---	---	PASS	T	179606388	T	T	179606388	3	4	75	1	0	0	0	0	1	0	0	0	16732	565	20	3	93217	3	TTN	2	179606388	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	128705	179606388	63592985	36	28459										
COL3A1	1281	broad.mit.edu	37	chr2	189876374	189876374	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aaacacactggggaatggagCaaaacagtctttgaatatcg	10	7	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:189876374C>A	uc002uqj.1	+	51	4392	c.4275C>A	c.(4273-4275)AGC>AGA	p.S1425R		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	1425	Fibrillar collagen NC1.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	GGGAATGGAGCAAAACAGTCT	0.383													28	53	---	---	---	---	PASS	A	189876374	A	A	189876374	3	1	75	1	0	0	0	0	1	0	0	0	3688	709	25	3	4477	3	COL3A1	2	189876374	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	10269986	189876374	53322999	37	28460										
MYO1B	4430	broad.mit.edu	37	chr2	192248021	192248021	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tttaggatatagaatggactCacattgactacttcaataat	6	6	2	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:192248021C>T	uc010fsg.2	+	15	1561	c.1306C>T	c.(1306-1308)CAC>TAC	p.H436Y	MYO1B_uc002usq.2_Missense_Mutation_p.H436Y|MYO1B_uc002usr.2_Missense_Mutation_p.H436Y|MYO1B_uc002ust.1_Missense_Mutation_p.H74Y	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	436	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			AGAATGGACTCACATTGACTA	0.338													13	37	---	---	---	---	PASS	T	192248021	T	T	192248021	3	4	75	1	0	0	0	0	1	0	0	0	10069	826	29	2	1360	2	MYO1B	2	192248021	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	2371647	192248021	50951352	38	28461										
PLCL1	5334	broad.mit.edu	37	chr2	198950160	198950160	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttataataagaagttcttatCaagaatctatccaagtgcca	5	7	3	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:198950160C>G	uc010fsp.2	+	2	2210	c.1919C>G	c.(1918-1920)TCA>TGA	p.S640*	PLCL1_uc002uuv.3_Nonsense_Mutation_p.S561*	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	640	PI-PLC Y-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	AAGTTCTTATCAAGAATCTAT	0.378													26	32	---	---	---	---	PASS	G	198950160	G	G	198950160	4	3	75	1	0	0	0	0	0	1	0	0	12039	838	29	2	1925	2	PLCL1	2	198950160	Nonsense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	6702139	198950160	44249213	39	28462										
ALS2CR4	65062	broad.mit.edu	37	chr2	202501504	202501504	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgtctttttctgtcttctttGaacaggagcctctgggtgct	10	9	5	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:202501504G>A	uc002uyh.1	-	6	342	c.241C>T	c.(241-243)CAA>TAA	p.Q81*	ALS2CR4_uc002uyg.1_Nonsense_Mutation_p.Q73*|ALS2CR4_uc010zhp.1_RNA	NM_001044385	NP_001037850	Q96Q45	TM237_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	105						integral to membrane	protein binding				0						TGTCTTCTTTGAACAGGAGCC	0.448													6	12	---	---	---	---	PASS	A	202501504	A	A	202501504	4	1	75	1	0	0	0	0	0	1	0	0	554	1299	45	2	1021	2	ALS2CR4	2	202501504	Nonsense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	3551344	202501504	40697869	40	28463										
FN1	2335	broad.mit.edu	37	chr2	216248165	216248165	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cttgacactaatgctgttgtCctgaacatcggtcacttgca	8	11	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:216248165C>G	uc002vfa.2	-	31	5202	c.4936G>C	c.(4936-4938)GAC>CAC	p.D1646H	FN1_uc002vfb.2_Missense_Mutation_p.D1555H|FN1_uc002vfc.2_Missense_Mutation_p.D1555H|FN1_uc002vfd.2_Missense_Mutation_p.D1646H|FN1_uc002vfe.2_Missense_Mutation_p.D1555H|FN1_uc002vff.2_Missense_Mutation_p.D1555H|FN1_uc002vfg.2_Missense_Mutation_p.D1555H|FN1_uc002vfh.2_Missense_Mutation_p.D1555H|FN1_uc002vfi.2_Missense_Mutation_p.D1646H|FN1_uc002vfj.2_Missense_Mutation_p.D1646H|FN1_uc002vez.2_5'UTR|FN1_uc010zjp.1_Missense_Mutation_p.D273H|FN1_uc010fvc.1_Missense_Mutation_p.D8H|FN1_uc010fvd.1_Missense_Mutation_p.D8H	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATGCTGTTGTCCTGAACATCG	0.458													73	121	---	---	---	---	PASS	G	216248165	G	G	216248165	3	3	75	1	0	0	0	0	1	0	0	0	5962	855	30	2	2561	2	FN1	2	216248165	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	13746661	216248165	26951208	41	28464										
CCDC108	255101	broad.mit.edu	37	chr2	219903729	219903729	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	actgatggattctccaccttCtgggttttctccaccagtct	7	13	4	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:219903729C>T	uc002vjl.1	-	3	126	c.42G>A	c.(40-42)CAG>CAA	p.Q14Q	CCDC108_uc010zkp.1_Intron|CCDC108_uc010zkq.1_Intron|CCDC108_uc002vjn.2_Intron	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	14						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCTCCACCTTCTGGGTTTTCT	0.433													27	50	---	---	---	---	PASS	T	219903729	T	T	219903729	2	4	75	1	0	0	0	0	0	0	0	1	2743	912	32	2		2	CCDC108	2	219903729	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	3655564	219903729	23295644	42	28465										
KIAA1486	57624	broad.mit.edu	37	chr2	226447508	226447508	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aaaggcctcccccttacgacGctgtgcattcgggcagcctc	10	16	0	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:226447508G>A	uc002voe.2	+	4	1550	c.1375G>A	c.(1375-1377)GCT>ACT	p.A459T	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.A229T	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	459	Pro-rich.									ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		CCCTTACGACGCTGTGCATTC	0.627													4	72	---	---	---	---	PASS	A	226447508	A	A	226447508	3	1	75	1	0	0	0	0	1	0	0	0	8237	1087	38	1	1385	1	KIAA1486	2	226447508	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	6543779	226447508	16751865	43	28466										
TRIP12	9320	broad.mit.edu	37	chr2	230643175	230643175	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gaaatccatgatagccttggCcattaattttcctaagaagc	7	9	0	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:230643175C>T	uc002vpw.1	-	35	5222	c.5113G>A	c.(5113-5115)GCC>ACC	p.A1705T	TRIP12_uc002vpx.1_Missense_Mutation_p.A1753T|TRIP12_uc002vpy.1_Missense_Mutation_p.A1435T	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1705					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)		ATAGCCTTGGCCATTAATTTT	0.438													42	105	---	---	---	---	PASS	T	230643175	T	T	230643175	3	4	75	1	0	0	0	0	1	0	0	0	16553	739	26	3	893	3	TRIP12	2	230643175	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	4195667	230643175	12556198	44	28467										
NEU2	4759	broad.mit.edu	37	chr2	233899701	233899701	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctgtacgaagccaatgattaCgaggagattgtctttctcat	9	8	2	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr2:233899701C>T	uc010zmn.1	+	2	1077	c.1077C>T	c.(1075-1077)TAC>TAT	p.Y359Y		NM_005383	NP_005374	Q9Y3R4	NEUR2_HUMAN	neuraminidase 2	359							exo-alpha-sialidase activity				0		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0271)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0839)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0488)		CCAATGATTACGAGGAGATTG	0.577													89	170	---	---	---	---	PASS	T	233899701	T	T	233899701	2	4	75	1	0	0	0	0	0	0	0	1	10342	547	19	1		1	NEU2	2	233899701	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	3256526	233899701	9299672	45	28468										
GALNTL2	117248	broad.mit.edu	37	chr3	16242202	16242202	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctcaggagcaacaagaggctGggtgccatcagggcccggat	15	11	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr3:16242202G>T	uc003car.3	+	3	1258	c.783G>T	c.(781-783)CTG>CTT	p.L261L	GALNTL2_uc003caq.3_5'UTR	NM_054110	NP_473451	Q8N3T1	GLTL2_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	261	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1						ACAAGAGGCTGGGTGCCATCA	0.612													3	41	---	---	---	---	PASS	T	16242202	T	T	16242202	2	4	75	1	0	0	0	0	0	0	0	1	6222	1335	47	3		3	GALNTL2	3	16242202	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08		16242202	181780228	46	28469										
APEH	327	broad.mit.edu	37	chr3	49713631	49713631	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gatgagatagccaggctgaaGaagccagaccaagccatcaa	11	10	1	4			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr3:49713631G>A	uc003cxf.2	+	6	985	c.585G>A	c.(583-585)AAG>AAA	p.K195K	APEH_uc010hkw.1_Silent_p.K195K	NM_001640	NP_001631	P13798	ACPH_HUMAN	N-acylaminoacyl-peptide hydrolase	195					proteolysis	cytoplasm|nuclear membrane	serine-type endopeptidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CCAGGCTGAAGAAGCCAGACC	0.582													24	15	---	---	---	---	PASS	A	49713631	A	A	49713631	2	1	75	1	0	0	0	0	0	0	0	1	768	933	33	2		2	APEH	3	49713631	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	33471429	49713631	148308799	47	28470										
HEG1	57493	broad.mit.edu	37	chr3	124746086	124746086	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agaggagaggaagctgctgtCctgtagaaatgcagccagga	15	7	0	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr3:124746086C>T	uc003ehs.3	-	3	944	c.876G>A	c.(874-876)AGG>AGA	p.R292R	HEG1_uc011bke.1_Silent_p.R292R	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	292	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						AAGCTGCTGTCCTGTAGAAAT	0.498													10	31	---	---	---	---	PASS	T	124746086	T	T	124746086	2	4	75	1	0	0	0	0	0	0	0	1	7044	854	30	2		2	HEG1	3	124746086	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	75032455	124746086	73276344	48	28471										
SCHIP1	29970	broad.mit.edu	37	chr3	159482463	159482463	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gggcgccggaggaggacgggGaggaggaggaagaggaggac	25	5	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr3:159482463G>C	uc003fcs.1	+	2	361	c.295G>C	c.(295-297)GAG>CAG	p.E99Q	SCHIP1_uc003fcq.1_Missense_Mutation_p.E175Q|SCHIP1_uc003fcr.1_Missense_Mutation_p.E88Q|SCHIP1_uc003fct.1_Missense_Mutation_p.E99Q|SCHIP1_uc010hvz.1_Missense_Mutation_p.E72Q	NM_014575	NP_055390	Q9P0W5	SCHI1_HUMAN	schwannomin interacting protein 1	99	Poly-Glu.					cytoplasm	identical protein binding|protein binding			ovary(1)|central_nervous_system(1)	2			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			ggaggacggggaggaggagga	0.552													10	12	---	---	---	---	PASS	C	159482463	C	C	159482463	3	2	75	1	0	0	0	0	1	0	0	0	13904	1175	41	2	301	2	SCHIP1	3	159482463	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	34736377	159482463	38539967	49	28472										
SLC2A2	6514	broad.mit.edu	37	chr3	170716076	170716076	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	caggacgtggtccttgactgAaaaactcagccaccatgaac	9	12	1	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr3:170716076A>G	uc003fhe.1	-	10	1589	c.1280T>C	c.(1279-1281)TTC>TCC	p.F427S	SLC2A2_uc003fhf.1_Missense_Mutation_p.F254S|SLC2A2_uc011bpu.1_Missense_Mutation_p.F300S	NM_000340	NP_000331	P11168	GTR2_HUMAN	solute carrier family 2 (facilitated glucose	427	Cytoplasmic (Potential).				carbohydrate metabolic process|cellular lipid metabolic process|endocrine pancreas development|energy reserve metabolic process|regulation of insulin secretion	integral to plasma membrane|membrane fraction	D-glucose transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2	all_cancers(22;1.41e-19)|all_lung(20;1.59e-15)|Lung NSC(18;7.08e-15)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;1.1e-14)|Lung(28;2.99e-14)			TCCTTGACTGAAAAACTCAGC	0.473													33	156	---	---	---	---	PASS	G	170716076	G	G	170716076	3	3	75	1	0	0	0	0	1	0	0	0	14544	246	9	5	302	5	SLC2A2	3	170716076	Missense_Mutation	SNP	A	TCGA-34-5929-01A-11D-1817-08	11233613	170716076	27306354	50	28473										
MUC4	4585	broad.mit.edu	37	chr3	195477899	195477899	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tggttgttcaggaagtcaatGaccgggccccgagggcggta	16	9	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr3:195477899G>C	uc011bto.1	-	24	15808	c.15348C>G	c.(15346-15348)GTC>GTG	p.V5116V	MUC4_uc010hzq.2_Silent_p.V101V|MUC4_uc003fuz.2_Silent_p.V842V|MUC4_uc003fva.2_Silent_p.V724V|MUC4_uc003fvb.2_Silent_p.V760V|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Silent_p.V760V|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Silent_p.V724V|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Silent_p.V808V|MUC4_uc011bti.1_Silent_p.V808V|MUC4_uc011btj.1_Silent_p.V985V|MUC4_uc011btk.1_Silent_p.V724V|MUC4_uc011btl.1_Silent_p.V753V|MUC4_uc011btm.1_Silent_p.V933V|MUC4_uc011btn.1_Silent_p.V724V|MUC4_uc003fvo.2_Silent_p.V1008V|MUC4_uc003fvp.2_Silent_p.V957V	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	2001					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGAAGTCAATGACCGGGCCCC	0.622													20	93	---	---	---	---	PASS	C	195477899	C	C	195477899	2	2	75	1	0	0	0	0	0	0	0	1	9978	1277	45	2		2	MUC4	3	195477899	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	24761823	195477899	2544531	51	28474										
IGFBP7	3490	broad.mit.edu	37	chr4	57907042	57907042	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cgatgacctcacagctcaagTacacctgggcaccagtgaca	9	14	2	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr4:57907042T>C	uc003hcn.2	-	2	555	c.533A>G	c.(532-534)TAC>TGC	p.Y178C	IGFBP7_uc011cag.1_Missense_Mutation_p.Y178C	NM_001553	NP_001544	Q16270	IBP7_HUMAN	insulin-like growth factor binding protein 7	178	Ig-like C2-type.				cell adhesion|negative regulation of cell proliferation|regulation of cell growth	extracellular space	insulin-like growth factor binding			lung(2)|central_nervous_system(1)	3	Glioma(25;0.08)|all_neural(26;0.181)				Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ACAGCTCAAGTACACCTGGGC	0.517													37	15	---	---	---	---	PASS	C	57907042	C	C	57907042	3	2	75	1	0	0	0	0	1	0	0	0	7584	1638	57	5	331	5	IGFBP7	4	57907042	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08		57907042	133247234	52	28475										
ADH4	127	broad.mit.edu	37	chr4	100057789	100057789	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aaactggttttcctttgcagGtaaacctgctggttttgtct	9	8	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr4:100057789G>T	uc003hun.2	-	5	486	c.410C>A	c.(409-411)ACC>AAC	p.T137N	uc003hum.1_Intron|ADH4_uc011ced.1_Missense_Mutation_p.T156N	NM_000670	NP_000661	P08319	ADH4_HUMAN	class II alcohol dehydrogenase, pi subunit	137					alcohol catabolic process|cellular aldehyde metabolic process|ethanol oxidation|quinone cofactor metabolic process|retinol metabolic process|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	alcohol dehydrogenase activity, zinc-dependent|all-trans retinal binding|benzaldehyde dehydrogenase activity|NAD binding|NADPH:quinone reductase activity|retinol binding|retinol dehydrogenase activity|zinc ion binding			skin(2)	2				OV - Ovarian serous cystadenocarcinoma(123;4.48e-08)	NADH(DB00157)	TCCTTTGCAGGTAAACCTGCT	0.353													29	18	---	---	---	---	PASS	T	100057789	T	T	100057789	3	4	75	1	0	0	0	0	1	0	0	0	310	1261	44	3	752	3	ADH4	4	100057789	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	42150747	100057789	91096487	53	28476										
SCLT1	132320	broad.mit.edu	37	chr4	129880756	129880756	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tatttactagctttcttaccTgacttttttgaaggttagct	6	7	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr4:129880756T>A	uc003igp.2	-	12	1552	c.1046A>T	c.(1045-1047)CAG>CTG	p.Q349L	SCLT1_uc003ign.2_Missense_Mutation_p.Q13L|SCLT1_uc003igo.2_5'UTR|SCLT1_uc003igq.2_Intron|SCLT1_uc010iob.1_Intron	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	349	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						CTTTCTTACCTGACTTTTTTG	0.338													27	24	---	---	---	---	PASS	A	129880756	A	A	129880756	3	1	75	1	0	0	0	0	1	0	0	0	13906	1594	55	5	1060	5	SCLT1	4	129880756	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	29822967	129880756	61273520	54	28477										
TLL1	7092	broad.mit.edu	37	chr4	166929130	166929130	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttctgaagatggagcctggaGaagtaaactcacttggagaa	12	6	2	4			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr4:166929130G>C	uc003irh.1	+	7	1494	c.847G>C	c.(847-849)GAA>CAA	p.E283Q	TLL1_uc011cjn.1_Missense_Mutation_p.E283Q|TLL1_uc011cjo.1_Missense_Mutation_p.E107Q	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	283	Metalloprotease (By similarity).				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		GGAGCCTGGAGAAGTAAACTC	0.408													32	23	---	---	---	---	PASS	C	166929130	C	C	166929130	3	2	75	1	0	0	0	0	1	0	0	0	15942	943	33	2	873	2	TLL1	4	166929130	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	37048374	166929130	24225146	55	28478										
GPM6A	2823	broad.mit.edu	37	chr4	176561965	176561965	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tacaaattttcttttcctctCcaattgtcacaattcctaca	1	12	3	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr4:176561965C>G	uc003iuf.2	-	5	1361	c.557G>C	c.(556-558)GGA>GCA	p.G186A	GPM6A_uc011ckj.1_Missense_Mutation_p.G179A|GPM6A_uc003iug.2_Missense_Mutation_p.G186A|GPM6A_uc003iuh.2_Missense_Mutation_p.G175A	NM_201591	NP_963885	P51674	GPM6A_HUMAN	glycoprotein M6A isoform 2	186	Extracellular (Potential).					cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)		CTTTTCCTCTCCAATTGTCAC	0.333													13	10	---	---	---	---	PASS	G	176561965	G	G	176561965	3	3	75	1	0	0	0	0	1	0	0	0	6615	855	30	2	291	2	GPM6A	4	176561965	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	9632835	176561965	14592311	56	28479										
WDR17	116966	broad.mit.edu	37	chr4	177056260	177056260	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttttatgccatattcctaggGacatgtggaaactatctttg	8	7	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr4:177056260G>A	uc003iuj.2	+	9	1328	c.1172G>A	c.(1171-1173)GGA>GAA	p.G391E	WDR17_uc003iuk.2_Missense_Mutation_p.G367E|WDR17_uc003ium.3_Missense_Mutation_p.G367E|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	391	WD 6.									ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TATTCCTAGGGACATGTGGAA	0.328													45	32	---	---	---	---	PASS	A	177056260	A	A	177056260	3	1	75	1	0	0	0	0	1	0	0	0	17274	1188	41	2	1202	2	WDR17	4	177056260	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	494295	177056260	14098016	57	28480										
IRX4	50805	broad.mit.edu	37	chr5	1878381	1878381	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggtgcctgtccagggcgccaGagtggggaagggccacagac	18	11	0	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:1878381G>C	uc003jcz.2	-	5	1381	c.1262C>G	c.(1261-1263)TCT>TGT	p.S421C	IRX4_uc011cmf.1_Missense_Mutation_p.S282C	NM_016358	NP_057442	P78413	IRX4_HUMAN	iroquois homeobox 4	421					heart development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(108;0.242)		CAGGGCGCCAGAGTGGGGAAG	0.662													5	15	---	---	---	---	PASS	C	1878381	C	C	1878381	3	2	75	1	0	0	0	0	1	0	0	0	7846	942	33	2	301	2	IRX4	5	1878381	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08		1878381	179036879	58	28481										
EGFLAM	133584	broad.mit.edu	37	chr5	38435307	38435307	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gtccccaattatgatgatgtGaagaagaactcgggtgtcct	11	8	0	5			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:38435307G>T	uc003jlc.1	+	16	2559	c.2235G>T	c.(2233-2235)GTG>GTT	p.V745V	EGFLAM_uc003jlb.1_Silent_p.V745V|EGFLAM_uc003jle.1_Silent_p.V511V|EGFLAM_uc003jlf.1_Silent_p.V111V	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	745	Laminin G-like 2.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					ATGATGATGTGAAGAAGAACT	0.463													32	99	---	---	---	---	PASS	T	38435307	T	T	38435307	2	4	75	1	0	0	0	0	0	0	0	1	4966	1277	45	2		2	EGFLAM	5	38435307	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	36556926	38435307	142479953	59	28482										
FYB	2533	broad.mit.edu	37	chr5	39202020	39202020	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gacccaaggtaaacaagggaGgcaatggcttctgtttcggg	14	8	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:39202020G>A	uc003jls.2	-	1	1110	c.1043C>T	c.(1042-1044)CCT>CTT	p.P348L	FYB_uc003jlt.2_Missense_Mutation_p.P348L|FYB_uc003jlu.2_Missense_Mutation_p.P348L|FYB_uc011cpl.1_Missense_Mutation_p.P358L	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	348	Interaction with SKAP1.				cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			AAACAAGGGAGGCAATGGCTT	0.512													32	95	---	---	---	---	PASS	A	39202020	A	A	39202020	3	1	75	1	0	0	0	0	1	0	0	0	6124	1000	35	3	1518	3	FYB	5	39202020	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	766713	39202020	141713240	60	28483										
HEATR7B2	133558	broad.mit.edu	37	chr5	41007490	41007490	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cataagttgtccccctcatcAgattcctttgcaaggccttc	6	14	2	1	rs145454293	by1000genomes	TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:41007490A>T	uc003jmj.3	-	34	4165	c.3675T>A	c.(3673-3675)TCT>TCA	p.S1225S	HEATR7B2_uc003jmi.3_Silent_p.S780S	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1225							binding			ovary(6)|central_nervous_system(2)	8						CCCCCTCATCAGATTCCTTTG	0.448													3	14	---	---	---	---	PASS	T	41007490	T	T	41007490	2	4	75	1	0	0	0	0	0	0	0	1	7035	175	7	5		5	HEATR7B2	5	41007490	Silent	SNP	A	TCGA-34-5929-01A-11D-1817-08	1805470	41007490	139907770	61	28484										
CCL28	56477	broad.mit.edu	37	chr5	43382071	43382071	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aaacatttcctttaccatttTtcttggcagcttgcactttc	4	11	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:43382071T>A	uc003jnu.2	-	3	345	c.275A>T	c.(274-276)AAA>ATA	p.K92I	CCL28_uc003jns.2_RNA|CCL28_uc003jnt.2_RNA|CCL28_uc010ivn.2_Missense_Mutation_p.K45I	NM_148672	NP_683513	Q9NRJ3	CCL28_HUMAN	chemokine (C-C motif) ligand 28 precursor	92					chemotaxis|immune response	extracellular space	chemokine activity			ovary(1)|kidney(1)	2						TTTACCATTTTTCTTGGCAGC	0.458													78	194	---	---	---	---	PASS	A	43382071	A	A	43382071	3	1	75	1	0	0	0	0	1	0	0	0	2900	1841	64	5	112	5	CCL28	5	43382071	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	2374581	43382071	137533189	62	28485										
NNT	23530	broad.mit.edu	37	chr5	43649385	43649385	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cctgctctccactcaccactGatgtctgtgacaaatgcaat	6	14	3	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:43649385G>C	uc003joe.2	+	11	1836	c.1581G>C	c.(1579-1581)CTG>CTC	p.L527L	NNT_uc003jof.2_Silent_p.L527L	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	527	Helical; (Potential).				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	ACTCACCACTGATGTCTGTGA	0.488													93	319	---	---	---	---	PASS	C	43649385	C	C	43649385	2	2	75	1	0	0	0	0	0	0	0	1	10510	1277	45	2		2	NNT	5	43649385	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	267314	43649385	137265875	63	28486										
CHD1	1105	broad.mit.edu	37	chr5	98234111	98234111	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgcagtaataatcaggataaCcagctgctgacttttgattg	9	7	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:98234111C>A	uc003knf.2	-	9	1362	c.1214G>T	c.(1213-1215)GGT>GTT	p.G405V		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	405	Chromo 2.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	ATCAGGATAACCAGCTGCTGA	0.358													20	8	---	---	---	---	PASS	A	98234111	A	A	98234111	3	1	75	1	0	0	0	0	1	0	0	0	3323	507	18	3	4026	3	CHD1	5	98234111	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	54584726	98234111	82681149	64	28487										
P4HA2	8974	broad.mit.edu	37	chr5	131553476	131553476	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggaaagcttggcttcctccaCaaggatgtactctttcagag	10	10	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:131553476C>A	uc003kwh.2	-	3	712	c.148G>T	c.(148-150)GTG>TTG	p.V50L	P4HA2_uc003kwg.2_Missense_Mutation_p.V50L|P4HA2_uc003kwi.2_Missense_Mutation_p.V50L|P4HA2_uc003kwk.2_Missense_Mutation_p.V50L|P4HA2_uc003kwl.2_Missense_Mutation_p.V50L|P4HA2_uc003kwj.2_Missense_Mutation_p.V50L	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	50						endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	GCTTCCTCCACAAGGATGTAC	0.498													57	39	---	---	---	---	PASS	A	131553476	A	A	131553476	3	1	75	1	0	0	0	0	1	0	0	0	11357	478	17	3	1575	3	P4HA2	5	131553476	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	33319365	131553476	49361784	65	28488										
PCDHGC3	5098	broad.mit.edu	37	chr5	140857271	140857271	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgcccctagactatgaggatCggcgggaatttgaattaaca	11	8	0	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:140857271C>A	uc003lkv.1	+	1	1703	c.1588C>A	c.(1588-1590)CGG>AGG	p.R530R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Silent_p.R530R|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	530	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTATGAGGATCGGCGGGAATT	0.493													3	45	---	---	---	---	PASS	A	140857271	A	A	140857271	2	1	75	1	0	0	0	0	0	0	0	1	11569	875	31	2		2	PCDHGC3	5	140857271	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	9303795	140857271	40057989	66	28489										
FAM71B	153745	broad.mit.edu	37	chr5	156592581	156592581	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttgagaggcttaccactaggCttttgttgtcttcgggtggt	13	7	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:156592581C>A	uc003lwn.2	-	1	699	c.599G>T	c.(598-600)AGC>ATC	p.S200I		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	200						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TACCACTAGGCTTTTGTTGTC	0.517													127	114	---	---	---	---	PASS	A	156592581	A	A	156592581	3	1	75	1	0	0	0	0	1	0	0	0	5608	797	28	3	1226	3	FAM71B	5	156592581	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	15735310	156592581	24322679	67	28490										
NIPAL4	348938	broad.mit.edu	37	chr5	156890110	156890110	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cttcccatccaggttccctgCtccacctctactgctcctcc	4	21	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:156890110C>T	uc003lwx.3	+	2	348	c.232C>T	c.(232-234)CTC>TTC	p.L78F	ADAM19_uc003lww.1_Intron|NIPAL4_uc011ddq.1_Missense_Mutation_p.L78F|NIPAL4_uc010jin.1_Silent_p.C12C	NM_001099287	NP_001092757	Q0D2K0	NIPA4_HUMAN	ichthyin protein	78	Extracellular (Potential).					integral to membrane	receptor activity				0						AGGTTCCCTGCTCCACCTCTA	0.517													30	24	---	---	---	---	PASS	T	156890110	T	T	156890110	3	4	75	1	0	0	0	0	1	0	0	0	10427	797	28	3	238	3	NIPAL4	5	156890110	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	297529	156890110	24025150	68	28491										
ODZ2	57451	broad.mit.edu	37	chr5	167673951	167673951	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tcatctttgactacagtgatGacggccgcatcctgaagacc	9	12	2	5			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:167673951G>A	uc010jjd.2	+	27	5980	c.5980G>A	c.(5980-5982)GAC>AAC	p.D1994N	ODZ2_uc003lzr.3_Missense_Mutation_p.D1764N|ODZ2_uc003lzt.3_Missense_Mutation_p.D1367N|ODZ2_uc010jje.2_Missense_Mutation_p.D1258N	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		CTACAGTGATGACGGCCGCAT	0.512													35	33	---	---	---	---	PASS	A	167673951	A	A	167673951	3	1	75	1	0	0	0	0	1	0	0	0	10835	1290	45	2	6086	2	ODZ2	5	167673951	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	10783841	167673951	13241309	69	28492										
NSD1	64324	broad.mit.edu	37	chr5	176710800	176710800	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aattctaggaccgaatcattGatgctggtcccaaaggaaac	9	9	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:176710800G>A	uc003mfr.3	+	20	6160	c.6022G>A	c.(6022-6024)GAT>AAT	p.D2008N	NSD1_uc003mft.3_Missense_Mutation_p.D1739N|NSD1_uc011dfx.1_Missense_Mutation_p.D1656N	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	2008	SET.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		CCGAATCATTGATGCTGGTCC	0.438			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			52	37	---	---	---	---	PASS	A	176710800	A	A	176710800	3	1	75	1	0	0	0	0	1	0	0	0	10669	1290	45	2	6096	2	NSD1	5	176710800	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	9036849	176710800	4204460	70	28493										
PRELID1	27166	broad.mit.edu	37	chr5	176733505	176733505	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	acggcactggcagctacagaGaaggccaaggacctcgccag	13	13	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr5:176733505G>C	uc003mfx.2	+	5	746	c.594G>C	c.(592-594)GAG>GAC	p.E198D	RAB24_uc003mfu.2_5'Flank|RAB24_uc003mfv.2_5'Flank|RAB24_uc003mfw.2_5'Flank|PRELID1_uc003mfy.2_Missense_Mutation_p.E196D|MXD3_uc010jkk.2_3'UTR	NM_013237	NP_037369	Q9Y255	PRLD1_HUMAN	PRELI domain containing 1 precursor	198					immune response|multicellular organismal development	mitochondrion|nucleus					0	all_cancers(89;2.49e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	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)			CAGCTACAGAGAAGGCCAAGG	0.592													12	6	---	---	---	---	PASS	C	176733505	C	C	176733505	3	2	75	1	0	0	0	0	1	0	0	0	12471	933	33	2	612	2	PRELID1	5	176733505	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	22705	176733505	4181755	71	28494										
HIST1H2AA	221613	broad.mit.edu	37	chr6	25726721	25726721	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agcgagacttagacttggcgCgtgcttttcctccctgcttc	10	13	0	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:25726721C>G	uc003nfc.2	-	1	70	c.35G>C	c.(34-36)CGC>CCC	p.R12P	HIST1H2BA_uc003nfd.2_5'Flank	NM_170745	NP_734466	Q96QV6	H2A1A_HUMAN	histone cluster 1, H2aa	12					nucleosome assembly	nucleosome|nucleus	DNA binding				0						AGACTTGGCGCGTGCTTTTCC	0.527													39	66	---	---	---	---	PASS	G	25726721	G	G	25726721	3	3	75	1	0	0	0	0	1	0	0	0	7128	768	27	4	364	4	HIST1H2AA	6	25726721	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08		25726721	145388346	72	28495										
SLC17A4	10050	broad.mit.edu	37	chr6	25777088	25777088	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gtccctgccctgggtcagatCcagccacagcatgaccatga	10	15	1	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:25777088C>A	uc003nfe.2	+	10	1288	c.1169C>A	c.(1168-1170)TCC>TAC	p.S390Y	SLC17A4_uc011djx.1_Missense_Mutation_p.S160Y|SLC17A4_uc003nff.1_Missense_Mutation_p.S179Y|SLC17A4_uc003nfg.2_Missense_Mutation_p.S327Y|SLC17A4_uc010jqa.2_Intron	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),	390					phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						TGGGTCAGATCCAGCCACAGC	0.542													81	110	---	---	---	---	PASS	A	25777088	A	A	25777088	3	1	75	1	0	0	0	0	1	0	0	0	14419	855	30	2	1203	2	SLC17A4	6	25777088	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	50367	25777088	145337979	73	28496										
SLC17A2	10246	broad.mit.edu	37	chr6	25918760	25918760	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gctcaaggcctgtgagattaGtccccccacacagaggatga	11	12	1	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:25918760G>T	uc011dkb.1	-	5	687	c.604C>A	c.(604-606)CTA>ATA	p.L202I	SLC17A2_uc011dkc.1_Missense_Mutation_p.L202I|SLC17A2_uc003nfl.2_Missense_Mutation_p.L202I			O00624	NPT3_HUMAN	SubName: Full=Solute carrier family 17 (Sodium phosphate), member 2, isoform CRA_b; SubName: Full=Putative uncharacterized protein SLC17A2;	202	Helical; (Potential).				phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			ovary(1)	1						TGTGAGATTAGTCCCCCCACA	0.443													44	78	---	---	---	---	PASS	T	25918760	T	T	25918760	3	4	75	1	0	0	0	0	1	0	0	0	14417	1020	36	3	730	3	SLC17A2	6	25918760	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	141672	25918760	145196307	74	28497										
CFB	629	broad.mit.edu	37	chr6	31918167	31918167	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gatgacaaggaacactcaatCaaggtcagcgtaggtaagga	12	7	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:31918167C>A	uc003nyj.3	+	12	1889	c.1611C>A	c.(1609-1611)ATC>ATA	p.I537I	CFB_uc011dor.1_Silent_p.I1039I|CFB_uc003nyi.2_Silent_p.I537I	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	537	Peptidase S1.			I -> T (in Ref. 13; AAA36219).	complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						AACACTCAATCAAGGTCAGCG	0.517													38	63	---	---	---	---	PASS	A	31918167	A	A	31918167	2	1	75	1	0	0	0	0	0	0	0	1	3278	816	29	2		2	CFB	6	31918167	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	5999407	31918167	139196900	75	28498										
HLA-DRB5	3127	broad.mit.edu	37	chr6	32497911	32497911	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgtgcacttacgtcgggtgtCcccagccaaagccagtgggg	14	12	0	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:32497911C>T	uc003obj.2	-	1	96	c.91G>A	c.(91-93)GAC>AAC	p.D31N	HLA-DRB1_uc011dqa.1_Intron|HLA-DRB5_uc003obk.3_Intron	NM_002125	NP_002116	Q30154	DRB5_HUMAN	major histocompatibility complex, class II, DR	31	Beta-1.|Extracellular (Potential).				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|immune response	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0						CGTCGGGTGTCCCCAGCCAAA	0.537													8	105	---	---	---	---	PASS	T	32497911	T	T	32497911	3	4	75	1	0	0	0	0	1	0	0	0	7209	855	30	2	733	2	HLA-DRB5	6	32497911	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	579744	32497911	138617156	76	28499										
PPARD	5467	broad.mit.edu	37	chr6	35392324	35392324	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aacgaccaggttacccttctCaagtatggcgtgcacgaggc	11	12	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:35392324C>G	uc003okm.2	+	7	1155	c.846C>G	c.(844-846)CTC>CTG	p.L282L	PPARD_uc003okl.2_Silent_p.L282L|PPARD_uc003okn.2_Silent_p.L282L|PPARD_uc011dtb.1_Silent_p.L243L|PPARD_uc011dtc.1_Silent_p.L184L	NM_006238	NP_006229	Q03181	PPARD_HUMAN	peroxisome proliferative activated receptor,	282	Ligand-binding.				apoptosis|axon ensheathment|cholesterol metabolic process|decidualization|embryo implantation|fatty acid beta-oxidation|fatty acid transport|generation of precursor metabolites and energy|glucose metabolic process|glucose transport|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fat cell differentiation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|linoleic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1					Icosapent(DB00159)|Sulindac(DB00605)|Treprostinil(DB00374)	TTACCCTTCTCAAGTATGGCG	0.597													19	36	---	---	---	---	PASS	G	35392324	G	G	35392324	2	3	75	1	0	0	0	0	0	0	0	1	12298	813	29	2		2	PPARD	6	35392324	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	2894413	35392324	135722743	77	28500										
KLC4	89953	broad.mit.edu	37	chr6	43040698	43040698	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttctgtggctgtggagtggtCcggggtaagtctgatcattg	16	6	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:43040698C>G	uc003otv.1	+	13	1702	c.1625C>G	c.(1624-1626)TCC>TGC	p.S542C	KLC4_uc003otr.1_RNA|KLC4_uc011dvd.1_Missense_Mutation_p.S465C|KLC4_uc003otw.1_Missense_Mutation_p.S560C|KLC4_uc003otx.1_Missense_Mutation_p.S542C|KLC4_uc003oty.1_Missense_Mutation_p.S542C|KLC4_uc003otz.1_Missense_Mutation_p.S542C	NM_201521	NP_958929	Q9NSK0	KLC4_HUMAN	kinesin-like 8 isoform a	542						cytoplasm|kinesin complex|microtubule	microtubule motor activity|protein binding			skin(3)|ovary(1)	4			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)			GTGGAGTGGTCCGGGGTAAGT	0.557													45	63	---	---	---	---	PASS	G	43040698	G	G	43040698	3	3	75	1	0	0	0	0	1	0	0	0	8336	855	30	2	1798	2	KLC4	6	43040698	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	7648374	43040698	128074369	78	28501										
GPR116	221395	broad.mit.edu	37	chr6	46826856	46826856	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggcatagttgtattgtggctGacagtggttgtcatcactaa	12	6	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:46826856G>A	uc003oyo.3	-	17	3073	c.2784C>T	c.(2782-2784)GTC>GTT	p.V928V	GPR116_uc011dwj.1_Silent_p.V483V|GPR116_uc011dwk.1_Silent_p.V357V|GPR116_uc003oyp.3_Silent_p.V786V|GPR116_uc003oyq.3_Silent_p.V928V|GPR116_uc010jzi.1_Silent_p.V600V	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	928	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			TATTGTGGCTGACAGTGGTTG	0.458													56	91	---	---	---	---	PASS	A	46826856	A	A	46826856	2	1	75	1	0	0	0	0	0	0	0	1	6633	1277	45	2		2	GPR116	6	46826856	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	3786158	46826856	124288211	79	28502										
PKHD1	5314	broad.mit.edu	37	chr6	51491841	51491841	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttgggcccttgtgattctcgGcgtttggatgagatgtggat	15	6	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:51491841G>T	uc003pah.1	-	66	12015	c.11739C>A	c.(11737-11739)CGC>CGA	p.R3913R		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3913	Cytoplasmic (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GTGATTCTCGGCGTTTGGATG	0.438													64	103	---	---	---	---	PASS	T	51491841	T	T	51491841	2	4	75	1	0	0	0	0	0	0	0	1	11971	1190	42	3		3	PKHD1	6	51491841	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	4664985	51491841	119623226	80	28503										
PKHD1	5314	broad.mit.edu	37	chr6	51909846	51909846	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	catcatataccacacgcgtgGctgcagcaggattcactcca	8	14	2	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:51909846G>C	uc003pah.1	-	25	2909	c.2633C>G	c.(2632-2634)GCC>GGC	p.A878G	PKHD1_uc003pai.2_Missense_Mutation_p.A878G	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	878	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CACACGCGTGGCTGCAGCAGG	0.453													32	34	---	---	---	---	PASS	C	51909846	C	C	51909846	3	2	75	1	0	0	0	0	1	0	0	0	11971	1203	42	4	9802	4	PKHD1	6	51909846	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	418005	51909846	119205221	81	28504										
PKHD1	5314	broad.mit.edu	37	chr6	51936933	51936933	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cagcttcccatctgcctattTataagagagcaaggagtaac	8	10	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:51936933T>C	uc003pah.1	-	8	858	c.582A>G	c.(580-582)ATA>ATG	p.I194M	PKHD1_uc003pai.2_Missense_Mutation_p.I194M	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	194	IPT/TIG 2.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TCTGCCTATTTATAAGAGAGC	0.398													34	56	---	---	---	---	PASS	C	51936933	C	C	51936933	3	2	75	1	0	0	0	0	1	0	0	0	11971	1744	61	5	11921	5	PKHD1	6	51936933	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	27087	51936933	119178134	82	28505										
BAI3	577	broad.mit.edu	37	chr6	69759194	69759194	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tcatctgtatttgttcttggCgcagtcctatacaaaaactt	6	9	3	0	rs146898809		TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:69759194C>T	uc003pev.3	+	15	2737	c.2289C>T	c.(2287-2289)GGC>GGT	p.G763G	BAI3_uc010kak.2_Silent_p.G763G	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	763	Extracellular (Potential).				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)				TTGTTCTTGGCGCAGTCCTAT	0.274													18	63	---	---	---	---	PASS	T	69759194	T	T	69759194	2	4	75	1	0	0	0	0	0	0	0	1	1300	755	27	1		1	BAI3	6	69759194	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	17822261	69759194	101355873	83	28506										
LCA5	167691	broad.mit.edu	37	chr6	80228525	80228525	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gatcggccagaagactgtggCgtttcaaaatcagataagta	11	7	2	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:80228525C>T	uc003pix.2	-	2	522	c.87G>A	c.(85-87)ACG>ACA	p.T29T	LCA5_uc003piy.2_Silent_p.T29T|LCA5_uc011dyq.1_RNA|LCA5_uc011dyr.1_Silent_p.T29T	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	29					protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		AAGACTGTGGCGTTTCAAAAT	0.423													94	170	---	---	---	---	PASS	T	80228525	T	T	80228525	2	4	75	1	0	0	0	0	0	0	0	1	8656	755	27	1		1	LCA5	6	80228525	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	10469331	80228525	90886542	84	28507										
KIAA1009	22832	broad.mit.edu	37	chr6	84862712	84862712	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	atctttatcatttttcttgaCgtctaattcagcattctgat	4	8	6	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:84862712C>T	uc010kbp.2	-	23	3278	c.3181G>A	c.(3181-3183)GTC>ATC	p.V1061I	KIAA1009_uc003pkj.3_Missense_Mutation_p.V985I|KIAA1009_uc003pki.3_Missense_Mutation_p.V447I	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	1061	Potential.				cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		TTTTTCTTGACGTCTAATTCA	0.368													37	58	---	---	---	---	PASS	T	84862712	T	T	84862712	3	4	75	1	0	0	0	0	1	0	0	0	8203	536	19	1	1050	1	KIAA1009	6	84862712	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	4634187	84862712	86252355	85	28508										
ASCC3	10973	broad.mit.edu	37	chr6	100988080	100988080	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gtccaagactgttttggtatCagtgtcataatctgggcagg	12	7	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:100988080C>G	uc003pqk.2	-	37	6063	c.5734G>C	c.(5734-5736)GAT>CAT	p.D1912H		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1912	SEC63 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		GTTTTGGTATCAGTGTCATAA	0.453													36	51	---	---	---	---	PASS	G	100988080	G	G	100988080	3	3	75	1	0	0	0	0	1	0	0	0	1033	826	29	2	898	2	ASCC3	6	100988080	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	16125368	100988080	70126987	86	28509										
DDO	8528	broad.mit.edu	37	chr6	110734551	110734551	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	atcactggtggtatctggagTaaacttgtctgaaatgatgg	12	5	3	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:110734551T>G	uc003puc.2	-	2	203	c.199A>C	c.(199-201)ACT>CCT	p.T67P	C6orf186_uc003pub.2_5'Flank|DDO_uc003pud.2_Missense_Mutation_p.T67P	NM_003649	NP_003640	Q99489	OXDD_HUMAN	D-aspartate oxidase isoform a	39					aspartate catabolic process	peroxisome	binding|D-amino-acid oxidase activity|D-aspartate oxidase activity			ovary(2)|breast(1)	3		all_cancers(87;3.47e-21)|all_epithelial(87;9.03e-20)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_lung(197;2.98e-05)|Lung NSC(302;3.25e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.00327)		all cancers(137;2.54e-48)|Epithelial(106;3.11e-44)|OV - Ovarian serous cystadenocarcinoma(136;2.08e-24)|BRCA - Breast invasive adenocarcinoma(108;0.000141)|GBM - Glioblastoma multiforme(226;0.00046)		GTATCTGGAGTAAACTTGTCT	0.507													67	112	---	---	---	---	PASS	G	110734551	G	G	110734551	3	3	75	1	0	0	0	0	1	0	0	0	4334	1638	57	5	926	5	DDO	6	110734551	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	9746471	110734551	60380516	87	28510										
CLVS2	134829	broad.mit.edu	37	chr6	123377054	123377054	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gcctccttatgacatggggaCatgggcaagaacactgctag	12	10	0	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:123377054C>T	uc003pzi.1	+	5	1648	c.779C>T	c.(778-780)ACA>ATA	p.T260I		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	260					lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GACATGGGGACATGGGCAAGA	0.468													41	72	---	---	---	---	PASS	T	123377054	T	T	123377054	3	4	75	1	0	0	0	0	1	0	0	0	3572	478	17	3	793	3	CLVS2	6	123377054	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	12642503	123377054	47738013	88	28511										
MED23	9439	broad.mit.edu	37	chr6	131912582	131912582	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aatcaaagaggcggaatggaTagccaacccactctgtttca	9	10	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:131912582T>A	uc003qcs.1	-	26	3731	c.3557A>T	c.(3556-3558)TAT>TTT	p.Y1186F	MED23_uc003qcq.2_Missense_Mutation_p.Y1192F|MED23_uc003qcr.1_Missense_Mutation_p.Y41F	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	1186					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		GCGGAATGGATAGCCAACCCA	0.468													36	54	---	---	---	---	PASS	A	131912582	A	A	131912582	3	1	75	1	0	0	0	0	1	0	0	0	9441	1406	49	5	572	5	MED23	6	131912582	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	8535528	131912582	39202485	89	28512										
TAAR5	9038	broad.mit.edu	37	chr6	132910358	132910358	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gcgggcaccccccatcctgcCaggatgtacctgagagccac	11	17	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:132910358C>A	uc003qdk.2	-	1	520	c.468G>T	c.(466-468)CTG>CTT	p.L156L		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	156	Helical; Name=4; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		CCCATCCTGCCAGGATGTACC	0.547													29	48	---	---	---	---	PASS	A	132910358	A	A	132910358	2	1	75	1	0	0	0	0	0	0	0	1	15488	581	21	3		3	TAAR5	6	132910358	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	997776	132910358	38204709	90	28513										
EYA4	2070	broad.mit.edu	37	chr6	133783797	133783797	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cagccatcaagacagagagtGgactttcccaaactcagtcc	8	13	2	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:133783797G>C	uc003qec.3	+	9	1077	c.619G>C	c.(619-621)GGA>CGA	p.G207R	EYA4_uc011ecq.1_Missense_Mutation_p.G153R|EYA4_uc011ecr.1_Missense_Mutation_p.G153R|EYA4_uc003qed.3_Missense_Mutation_p.G207R|EYA4_uc003qee.3_Missense_Mutation_p.G184R|EYA4_uc011ecs.1_Missense_Mutation_p.G207R|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	207					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		GACAGAGAGTGGACTTTCCCA	0.438													34	53	---	---	---	---	PASS	C	133783797	C	C	133783797	3	2	75	1	0	0	0	0	1	0	0	0	5331	1349	47	4	649	4	EYA4	6	133783797	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	873439	133783797	37331270	91	28514										
SYNE1	23345	broad.mit.edu	37	chr6	152576052	152576052	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gctgaagtctttctttcatcTgatgacatcgttgattcact	7	9	5	4			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr6:152576052T>A	uc010kiw.2	-	104	20035	c.19433A>T	c.(19432-19434)CAG>CTG	p.Q6478L	SYNE1_uc010kiv.2_Missense_Mutation_p.Q1002L|SYNE1_uc003qos.3_Missense_Mutation_p.Q1002L|SYNE1_uc003qot.3_Missense_Mutation_p.Q6407L|SYNE1_uc003qou.3_Missense_Mutation_p.Q6478L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6478	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)		TTCTTTCATCTGATGACATCG	0.373										HNSCC(10;0.0054)			9	40	---	---	---	---	PASS	A	152576052	A	A	152576052	3	1	75	1	0	0	0	0	1	0	0	0	15442	1580	55	5	7205	5	SYNE1	6	152576052	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	18792255	152576052	18539015	92	28515										
FBXL18	80028	broad.mit.edu	37	chr7	5540470	5540470	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agggcaggttcttcagcagaGaccagaacacggaggagggc	16	9	2	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr7:5540470G>A	uc003soo.2	-	3	1524	c.1430C>T	c.(1429-1431)TCT>TTT	p.S477F	FBXL18_uc003son.3_Missense_Mutation_p.S477F	NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	477	LRR 8.									central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)		CTTCAGCAGAGACCAGAACAC	0.657													16	30	---	---	---	---	PASS	A	5540470	A	A	5540470	3	1	75	1	0	0	0	0	1	0	0	0	5714	942	33	2	738	2	FBXL18	7	5540470	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08		5540470	153598193	93	28516										
HERPUD2	64224	broad.mit.edu	37	chr7	35673301	35673301	+	Nonstop_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gctggcacagtttttcaggtCaattggcaacctggggaggc	14	9	2	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr7:35673301C>A	uc003tet.2	-	8	2025	c.1220G>T	c.(1219-1221)TGA>TTA	p.*407L	HERPUD2_uc003tes.3_Nonstop_Mutation_p.*407L	NM_022373	NP_071768	Q9BSE4	HERP2_HUMAN	HERPUD family member 2	407					response to unfolded protein	integral to membrane				ovary(3)	3						TTTTTCAGGTCAATTGGCAAC	0.408													42	84	---	---	---	---	PASS	A	35673301	A	A	35673301	4	1	75	1	0	0	0	0	0	0	0	0	7064	837	29	2	4	2	HERPUD2	7	35673301	Nonstop_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	30132831	35673301	123465362	94	28517										
KIAA0895	23366	broad.mit.edu	37	chr7	36373699	36373699	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gggattatttggctttagctCatgttttttacgtccagtcc	9	8	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr7:36373699C>A	uc003tfd.2	-	5	1123	c.1072G>T	c.(1072-1074)GAG>TAG	p.E358*	KIAA0895_uc003tfc.2_Nonsense_Mutation_p.E345*|KIAA0895_uc011kaw.1_Nonsense_Mutation_p.E255*|KIAA0895_uc003tfb.2_Nonsense_Mutation_p.E307*|KIAA0895_uc011kax.1_Nonsense_Mutation_p.E355*	NM_001100425	NP_001093895	Q8NCT3	K0895_HUMAN	hypothetical protein LOC23366 isoform 1	358											0						GGCTTTAGCTCATGTTTTTTA	0.413													28	74	---	---	---	---	PASS	A	36373699	A	A	36373699	4	1	75	1	0	0	0	0	0	1	0	0	8197	835	29	2	502	2	KIAA0895	7	36373699	Nonsense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	700398	36373699	122764964	95	28518										
ABCB1	5243	broad.mit.edu	37	chr7	87190661	87190661	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttcagctactgctccagcttTtgcatacgctaagagttctt	7	11	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr7:87190661T>C	uc003uiz.1	-	9	1163	c.745A>G	c.(745-747)AAA>GAA	p.K249E	ABCB1_uc011khc.1_Missense_Mutation_p.K185E	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	249	ABC transmembrane type-1 1.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	GCTCCAGCTTTTGCATACGCT	0.318													30	39	---	---	---	---	PASS	C	87190661	C	C	87190661	3	2	75	1	0	0	0	0	1	0	0	0	40	1850	64	5	3181	5	ABCB1	7	87190661	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	50816962	87190661	71948002	96	28519										
ANKIB1	54467	broad.mit.edu	37	chr7	92027579	92027579	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	atacttcttgcaatacagttAtcactgcaagagtctgggct	8	9	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr7:92027579A>G	uc003ulw.2	+	20	2962	c.2586A>G	c.(2584-2586)TTA>TTG	p.L862L	ANKIB1_uc010lew.1_Silent_p.L131L	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	862	UIM.						protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CAATACAGTTATCACTGCAAG	0.428													30	48	---	---	---	---	PASS	G	92027579	G	G	92027579	2	3	75	1	0	0	0	0	0	0	0	1	630	446	16	5		5	ANKIB1	7	92027579	Silent	SNP	A	TCGA-34-5929-01A-11D-1817-08	4836918	92027579	67111084	97	28520										
VGF	7425	broad.mit.edu	37	chr7	100807457	100807457	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gagagggggccgggggcggcAggggcgcgcgctccgggaca	24	11	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr7:100807457A>C	uc003uxx.3	-	2	886	c.668T>G	c.(667-669)CTG>CGG	p.L223R		NM_003378	NP_003369	O15240	VGF_HUMAN	VGF nerve growth factor inducible precursor	223					response to cAMP	extracellular space|transport vesicle	growth factor activity				0	Lung NSC(181;0.168)|all_lung(186;0.215)					cgggggcggcaggggcgcgcg	0.557													17	25	---	---	---	---	PASS	C	100807457	C	C	100807457	3	2	75	1	0	0	0	0	1	0	0	0	17154	188	7	5	1183	5	VGF	7	100807457	Missense_Mutation	SNP	A	TCGA-34-5929-01A-11D-1817-08	8779878	100807457	58331206	98	28521										
FOXP2	93986	broad.mit.edu	37	chr7	114298204	114298204	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cctcaaacccctaccacaccAacggccccagtcaccccgat	4	22	2	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr7:114298204A>T	uc003vhb.2	+	11	1724	c.1350A>T	c.(1348-1350)CCA>CCT	p.P450P	FOXP2_uc003vgu.2_Intron|FOXP2_uc003vgz.2_Silent_p.P475P|FOXP2_uc003vha.2_Silent_p.P358P|FOXP2_uc011kmu.1_Silent_p.P467P|FOXP2_uc011kmv.1_Silent_p.P449P|FOXP2_uc010ljz.1_Intron|FOXP2_uc003vhe.1_Silent_p.P20P	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	450					camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	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(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						CTACCACACCAACGGCCCCAG	0.532													56	76	---	---	---	---	PASS	T	114298204	T	T	114298204	2	4	75	1	0	0	0	0	0	0	0	1	6027	117	5	5		5	FOXP2	7	114298204	Silent	SNP	A	TCGA-34-5929-01A-11D-1817-08	13490747	114298204	44840459	99	28522										
WNT16	51384	broad.mit.edu	37	chr7	120969747	120969747	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ccgagcatccgagagggcgcCcggctgggcattcaggagtg	17	12	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr7:120969747C>G	uc003vjw.2	+	2	479	c.222C>G	c.(220-222)GCC>GCG	p.A74A	WNT16_uc003vjv.2_Silent_p.A64A|WNT16_uc010lkl.2_5'UTR	NM_057168	NP_476509	Q9UBV4	WNT16_HUMAN	wingless-type MMTV integration site family,	74					anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|keratinocyte differentiation|keratinocyte proliferation|negative regulation of cell death|optic cup formation involved in camera-type eye development|oxidative stress-induced premature senescence|positive regulation of gene expression|positive regulation of JNK cascade|positive regulation of phosphatidylinositol 3-kinase cascade|replicative senescence|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			lung(2)|ovary(2)|large_intestine(1)	5	all_neural(327;0.117)					GAGAGGGCGCCCGGCTGGGCA	0.652													28	50	---	---	---	---	PASS	G	120969747	G	G	120969747	2	3	75	1	0	0	0	0	0	0	0	1	17382	610	22	4		4	WNT16	7	120969747	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	6671543	120969747	38168916	100	28523										
PTPRZ1	5803	broad.mit.edu	37	chr7	121653575	121653575	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tagagtcacaagtgtatcctCagacagtcaaactggtatgg	10	8	3	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr7:121653575C>T	uc003vjy.2	+	12	4870	c.4475C>T	c.(4474-4476)TCA>TTA	p.S1492L	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1492	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						AGTGTATCCTCAGACAGTCAA	0.398													22	33	---	---	---	---	PASS	T	121653575	T	T	121653575	3	4	75	1	0	0	0	0	1	0	0	0	12814	838	29	2	4521	2	PTPRZ1	7	121653575	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	683828	121653575	37485088	101	28524										
OR2A5	393046	broad.mit.edu	37	chr7	143747882	143747882	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	acatggctatctgccaccctCtgcaatattctgtcatcatg	6	13	5	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr7:143747882C>A	uc011ktw.1	+	1	388	c.388C>A	c.(388-390)CTG>ATG	p.L130M		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					CTGCCACCCTCTGCAATATTC	0.488													89	130	---	---	---	---	PASS	A	143747882	A	A	143747882	3	1	75	1	0	0	0	0	1	0	0	0	10981	912	32	2	390	2	OR2A5	7	143747882	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	22094307	143747882	15390781	102	28525										
WDR60	55112	broad.mit.edu	37	chr7	158719682	158719682	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttttcaatattctgtttttaGgtggttgttgaattaccaaa	7	4	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr7:158719682G>A	uc003woe.3	+	20	2592	c.2434_splice	c.e20-1	p.V812_splice	WDR60_uc010lqv.2_Splice_Site|WDR60_uc010lqw.2_Splice_Site_p.V444_splice	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60											ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		TCTGTTTTTAGGTGGTTGTTG	0.279													10	16	---	---	---	---	PASS	A	158719682	A	A	158719682	5	1	75	1	0	0	0	0	0	0	1	0	17308	1014	35	3	2511	3	WDR60	7	158719682	Splice_Site	SNP	G	TCGA-34-5929-01A-11D-1817-08	14971800	158719682	418981	103	28526										
DLGAP2	9228	broad.mit.edu	37	chr8	1616589	1616589	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gtgacggcgcagagcagcacCgaatccacccaggacgccta	12	15	0	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:1616589C>A	uc003wpl.2	+	6	1762	c.1665C>A	c.(1663-1665)ACC>ACA	p.T555T	DLGAP2_uc003wpm.2_Silent_p.T555T	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	634					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		AGAGCAGCACCGAATCCACCC	0.622													7	12	---	---	---	---	PASS	A	1616589	A	A	1616589	2	1	75	1	0	0	0	0	0	0	0	1	4560	639	23	1		1	DLGAP2	8	1616589	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08		1616589	144747433	104	28527										
RP1L1	94137	broad.mit.edu	37	chr8	10468059	10468059	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gtcatggcatgggacccaagGtctggcagagcctggctcca	14	12	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:10468059G>A	uc003wtc.2	-	4	3778	c.3549C>T	c.(3547-3549)GAC>GAT	p.D1183D		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1183					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GGGACCCAAGGTCTGGCAGAG	0.612													20	36	---	---	---	---	PASS	A	10468059	A	A	10468059	2	1	75	1	0	0	0	0	0	0	0	1	13533	1252	44	3		3	RP1L1	8	10468059	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	8851470	10468059	135895963	105	28528										
EPB49	2039	broad.mit.edu	37	chr8	21937956	21937956	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agttcagcccatcagggagtGagactggaagcccaggtgag	15	9	2	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:21937956G>C	uc011kyt.1	+	12	1163	c.934G>C	c.(934-936)GAG>CAG	p.E312Q	EPB49_uc010ltl.2_Missense_Mutation_p.E312Q|EPB49_uc011kys.1_Missense_Mutation_p.E272Q|EPB49_uc010ltn.2_Missense_Mutation_p.E287Q|EPB49_uc011kyu.1_Missense_Mutation_p.E312Q|EPB49_uc011kyv.1_Missense_Mutation_p.E312Q|EPB49_uc010ltq.2_Missense_Mutation_p.E312Q	NM_001114136	NP_001107608	Q08495	DEMA_HUMAN	erythrocyte membrane protein band 4.9 isoform 1	312					actin filament bundle assembly|actin filament capping	actin cytoskeleton|nucleus	actin binding			central_nervous_system(1)	1				Colorectal(74;9.05e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0631)		ATCAGGGAGTGAGACTGGAAG	0.607													38	83	---	---	---	---	PASS	C	21937956	C	C	21937956	3	2	75	1	0	0	0	0	1	0	0	0	5159	1291	45	2	976	2	EPB49	8	21937956	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	11469897	21937956	124426066	106	28529										
SORBS3	10174	broad.mit.edu	37	chr8	22414364	22414364	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cgtcgggacaagcgctgggtCaagtacgagggaatcgggcc	17	10	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:22414364C>T	uc003xbv.2	+	4	697	c.357C>T	c.(355-357)GTC>GTT	p.V119V	SORBS3_uc011kzk.1_RNA	NM_005775	NP_005766	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3 isoform 1	119	SoHo.				muscle contraction|positive regulation of stress fiber assembly	cytoskeleton|cytosol|nucleus	protein binding|structural constituent of cytoskeleton|vinculin binding				0		Prostate(55;0.0421)|Breast(100;0.102)		BRCA - Breast invasive adenocarcinoma(99;0.00566)|Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		AGCGCTGGGTCAAGTACGAGG	0.657													23	33	---	---	---	---	PASS	T	22414364	T	T	22414364	2	4	75	1	0	0	0	0	0	0	0	1	14929	813	29	2		2	SORBS3	8	22414364	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	476408	22414364	123949658	107	28530										
MYBL1	4603	broad.mit.edu	37	chr8	67476961	67476961	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gagagctcttgaagtactacTggtagctgtgtaagtactca	11	7	2	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:67476961T>C	uc003xwj.2	-	16	2637	c.2230A>G	c.(2230-2232)AGT>GGT	p.S744G	MYBL1_uc003xwl.2_Missense_Mutation_p.S684G|MYBL1_uc003xwk.2_Missense_Mutation_p.S683G	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog	744					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			GAAGTACTACTGGTAGCTGTG	0.373													7	10	---	---	---	---	PASS	C	67476961	C	C	67476961	3	2	75	1	0	0	0	0	1	0	0	0	10009	1580	55	5	32	5	MYBL1	8	67476961	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	45062597	67476961	78887061	108	28531										
ZFHX4	79776	broad.mit.edu	37	chr8	77767214	77767214	+	Missense_Mutation	SNP	C	G	G													0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttgccgagccctgtttaaagCaaagtcggccttagaaagcc							TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:77767214C>G	uc003yav.2	+	10	8309	c.7922C>G	c.(7921-7923)GCA>GGA	p.A2641G	ZFHX4_uc003yau.1_Missense_Mutation_p.A2686G|ZFHX4_uc003yaw.1_Missense_Mutation_p.A2641G	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2641	C2H2-type 17.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTGTTTAAAGCAAAGTCGGCC	0.537										HNSCC(33;0.089)			33	72	---	---	---	---	PASS	G	77767214	G	G	77767214	3	3	75	1	0	0	0	0	1	0	0	0	17632	710	25	4	8091	4	ZFHX4	8	77767214	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	10290253	77767214	68596808	109	28532	594	2								
ZFHX4	79776	broad.mit.edu	37	chr8	77767221	77767221	+	Silent	SNP	G	T	T													0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gccctgtttaaagcaaagtcGgccttagaaagccacattcg							TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:77767221G>T	uc003yav.2	+	10	8316	c.7929G>T	c.(7927-7929)TCG>TCT	p.S2643S	ZFHX4_uc003yau.1_Silent_p.S2688S|ZFHX4_uc003yaw.1_Silent_p.S2643S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2643	C2H2-type 17.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAGCAAAGTCGGCCTTAGAAA	0.552										HNSCC(33;0.089)			33	65	---	---	---	---	PASS	T	77767221	T	T	77767221	2	4	75	1	0	0	0	0	0	0	0	1	17632	1103	39	1		1	ZFHX4	8	77767221	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	7	77767221	68596801	110	28533	594	2								
MMP16	4325	broad.mit.edu	37	chr8	89179973	89179973	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tcctccaattcctggtccagGgaagtaggcatgtgccaaaa	10	11	0	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:89179973G>T	uc003yeb.3	-	4	916	c.634C>A	c.(634-636)CCT>ACT	p.P212T	MMP16_uc003yec.2_Missense_Mutation_p.P212T	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	212	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						CCTGGTCCAGGGAAGTAGGCA	0.438													24	49	---	---	---	---	PASS	T	89179973	T	T	89179973	3	4	75	1	0	0	0	0	1	0	0	0	9655	1232	43	3	1373	3	MMP16	8	89179973	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	11412752	89179973	57184049	111	28534										
C8orf47	203111	broad.mit.edu	37	chr8	99101844	99101844	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cgttctgactctgcaaatagCtggagagctacaacctcagg	10	11	3	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:99101844C>G	uc003yih.1	+	2	747	c.599C>G	c.(598-600)GCT>GGT	p.A200G		NM_173549	NP_775820	Q6P6B1	CH047_HUMAN	hypothetical protein LOC203111	200											0	Breast(36;2.31e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.214)			CTGCAAATAGCTGGAGAGCTA	0.478													15	39	---	---	---	---	PASS	G	99101844	G	G	99101844	3	3	75	1	0	0	0	0	1	0	0	0	2432	797	28	4	605	4	C8orf47	8	99101844	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	9921871	99101844	47262178	112	28535										
VPS13B	157680	broad.mit.edu	37	chr8	100729551	100729551	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	acagcgggaatccaggcccaGaacaatccataccaaaaata	7	12	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:100729551G>T	uc003yiv.2	+	37	6793	c.6682G>T	c.(6682-6684)GAA>TAA	p.E2228*	VPS13B_uc003yiw.2_Nonsense_Mutation_p.E2203*	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2228					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TCCAGGCCCAGAACAATCCAT	0.428													32	55	---	---	---	---	PASS	T	100729551	T	T	100729551	4	4	75	1	0	0	0	0	0	1	0	0	17187	943	33	2	7018	2	VPS13B	8	100729551	Nonsense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	1627707	100729551	45634471	113	28536										
VPS13B	157680	broad.mit.edu	37	chr8	100729569	100729569	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cagaacaatccataccaaaaAtatccattgacttaagagga	5	9	0	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:100729569A>T	uc003yiv.2	+	37	6811	c.6700A>T	c.(6700-6702)ATA>TTA	p.I2234L	VPS13B_uc003yiw.2_Missense_Mutation_p.I2209L	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2234					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CATACCAAAAATATCCATTGA	0.418													28	45	---	---	---	---	PASS	T	100729569	T	T	100729569	3	4	75	1	0	0	0	0	1	0	0	0	17187	101	4	5	7036	5	VPS13B	8	100729569	Missense_Mutation	SNP	A	TCGA-34-5929-01A-11D-1817-08	18	100729569	45634453	114	28537										
VPS13B	157680	broad.mit.edu	37	chr8	100732672	100732672	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	attttgaagtacaagtttctGaaccagtgcctcaaatgtca	7	8	3	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:100732672G>A	uc003yiv.2	+	38	6943	c.6832G>A	c.(6832-6834)GAA>AAA	p.E2278K	VPS13B_uc003yiw.2_Missense_Mutation_p.E2253K	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2278					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			ACAAGTTTCTGAACCAGTGCC	0.373													24	40	---	---	---	---	PASS	A	100732672	A	A	100732672	3	1	75	1	0	0	0	0	1	0	0	0	17187	1291	45	2	7172	2	VPS13B	8	100732672	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	3103	100732672	45631350	115	28538										
PKHD1L1	93035	broad.mit.edu	37	chr8	110471938	110471938	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttaggaattacggtcacactCcctgatggaactctgtttga	9	9	2	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:110471938C>A	uc003yne.2	+	47	7223	c.7119C>A	c.(7117-7119)CTC>CTA	p.L2373L		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2373	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CGGTCACACTCCCTGATGGAA	0.353										HNSCC(38;0.096)			16	34	---	---	---	---	PASS	A	110471938	A	A	110471938	2	1	75	1	0	0	0	0	0	0	0	1	11972	842	30	2		2	PKHD1L1	8	110471938	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	9739266	110471938	35892084	116	28539										
ZFAT	57623	broad.mit.edu	37	chr8	135524749	135524749	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gtgtatctcaggtcctggagCgcggccaccgctgcctgtgt	14	13	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr8:135524749C>A	uc003yup.2	-	14	3505	c.3330G>T	c.(3328-3330)GCG>GCT	p.A1110A	ZFAT_uc011ljj.1_Silent_p.A229A|ZFAT_uc003yun.2_Silent_p.A1098A|ZFAT_uc003yuo.2_Silent_p.A1098A|ZFAT_uc010meh.2_Intron|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Silent_p.A1098A|ZFAT_uc010mej.2_Silent_p.A1048A	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	1110					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			GGTCCTGGAGCGCGGCCACCG	0.542													76	169	---	---	---	---	PASS	A	135524749	A	A	135524749	2	1	75	1	0	0	0	0	0	0	0	1	17629	755	27	1		1	ZFAT	8	135524749	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	25052811	135524749	10839273	117	28540										
PTPRD	5789	broad.mit.edu	37	chr9	8528747	8528747	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cttcaactgtgggcccatgtCaatggtagggaagcccctgg	13	11	2	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr9:8528747C>A	uc003zkk.2	-	14	1096	c.385G>T	c.(385-387)GAC>TAC	p.D129Y	PTPRD_uc003zkp.2_Missense_Mutation_p.D129Y|PTPRD_uc003zkq.2_Missense_Mutation_p.D129Y|PTPRD_uc003zkr.2_Missense_Mutation_p.D129Y|PTPRD_uc003zks.2_Missense_Mutation_p.D129Y|PTPRD_uc003zkl.2_Missense_Mutation_p.D129Y|PTPRD_uc003zkm.2_Missense_Mutation_p.D129Y|PTPRD_uc003zkn.2_Missense_Mutation_p.D129Y|PTPRD_uc003zko.2_Missense_Mutation_p.D129Y|PTPRD_uc003zkt.1_Missense_Mutation_p.D129Y	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	129	Extracellular (Potential).|Ig-like C2-type 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		GGGCCCATGTCAATGGTAGGG	0.468										TSP Lung(15;0.13)			33	22	---	---	---	---	PASS	A	8528747	A	A	8528747	3	1	75	1	0	0	0	0	1	0	0	0	12799	826	29	2	5549	2	PTPRD	9	8528747	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08		8528747	132684684	118	28541										
FREM1	158326	broad.mit.edu	37	chr9	14842451	14842451	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggatcaggatggtctgccccTcctccagttcaatcacaaca	8	14	4	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr9:14842451T>A	uc003zlm.2	-	9	2191	c.1601A>T	c.(1600-1602)GAG>GTG	p.E534V	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	534	CSPG 3.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GGTCTGCCCCTCCTCCAGTTC	0.507													58	46	---	---	---	---	PASS	A	14842451	A	A	14842451	3	1	75	1	0	0	0	0	1	0	0	0	6044	1551	54	5	5104	5	FREM1	9	14842451	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	6313704	14842451	126370980	119	28542										
KLF4	9314	broad.mit.edu	37	chr9	110250280	110250280	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgctcgacggcgacgacgaaGaggaggctgacgctgacgag	17	10	0	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr9:110250280G>C	uc004bdh.2	-	3	989	c.368C>G	c.(367-369)TCT>TGT	p.S123C	KLF4_uc004bdf.1_Missense_Mutation_p.S82C|KLF4_uc004bdg.2_Missense_Mutation_p.S132C	NM_004235	NP_004226	O43474	KLF4_HUMAN	Kruppel-like factor 4 (gut)	132	Ser-rich.				fat cell differentiation|mesodermal cell fate determination|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|stem cell maintenance|transcription from RNA polymerase II promoter	nucleus	RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor recruiting transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(2)|lung(1)	3						CGACGACGAAGAGGAGGCTGA	0.667													7	1	---	---	---	---	PASS	C	110250280	C	C	110250280	3	2	75	1	0	0	0	0	1	0	0	0	8348	942	33	2	1056	2	KLF4	9	110250280	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	95407829	110250280	30963151	120	28543										
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112642865	112642865	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggagaaatggctgctgcaggGcatacccgctggaactgccg	15	11	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr9:112642865G>A	uc004bei.2	+	3	353	c.161G>A	c.(160-162)GGC>GAC	p.G54D	PALM2_uc004bef.2_Missense_Mutation_p.G56D|PALM2_uc004beg.2_Missense_Mutation_p.G56D|PALM2_uc004beh.3_Missense_Mutation_p.G54D|PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.G54D|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.G54D|PALM2-AKAP2_uc004bel.1_5'UTR	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	Error:Variant_position_missing_in_Q9Y2D5_after_alignment							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						CTGCTGCAGGGCATACCCGCT	0.517													4	57	---	---	---	---	PASS	A	112642865	A	A	112642865	3	1	75	1	0	0	0	0	1	0	0	0	11410	1203	42	3	171	3	PALM2-AKAP2	9	112642865	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	2392585	112642865	28570566	121	28544										
OR2K2	26248	broad.mit.edu	37	chr9	114090514	114090514	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgtaacaaatatccatgaaaGagagatttccaaggaataag	8	5	0	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr9:114090514G>C	uc011lwp.1	-	1	200	c.200C>G	c.(199-201)TCT>TGT	p.S67C		NM_205859	NP_995581	Q8NGT1	OR2K2_HUMAN	olfactory receptor, family 2, subfamily K,	96	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ATCCATGAAAGAGAGATTTCC	0.418													25	18	---	---	---	---	PASS	C	114090514	C	C	114090514	3	2	75	1	0	0	0	0	1	0	0	0	11005	942	33	2	753	2	OR2K2	9	114090514	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	1447649	114090514	27122917	122	28545										
TLR4	7099	broad.mit.edu	37	chr9	120474964	120474964	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttggacctttccagcaacaaGattcaaagtatttattgcac	6	9	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr9:120474964G>C	uc004bjz.2	+	3	849	c.558G>C	c.(556-558)AAG>AAC	p.K186N	TLR4_uc004bka.2_Missense_Mutation_p.K146N|TLR4_uc004bkb.2_5'UTR	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	186	Extracellular (Potential).|LRR 6.				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						CCAGCAACAAGATTCAAAGTA	0.388													57	71	---	---	---	---	PASS	C	120474964	C	C	120474964	3	2	75	1	0	0	0	0	1	0	0	0	15950	933	33	2	568	2	TLR4	9	120474964	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	6384450	120474964	20738467	123	28546										
CRB2	286204	broad.mit.edu	37	chr9	126133398	126133398	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggcgccccaagctctgcctcCtttctgctccaagagctgcc	9	18	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr9:126133398C>A	uc004bnx.1	+	8	2069	c.1977C>A	c.(1975-1977)TCC>TCA	p.S659S	CRB2_uc004bnw.1_Silent_p.S659S	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	659	Extracellular (Potential).|Laminin G-like 2.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						GCTCTGCCTCCTTTCTGCTCC	0.617													4	171	---	---	---	---	PASS	A	126133398	A	A	126133398	2	1	75	1	0	0	0	0	0	0	0	1	3849	668	24	3		3	CRB2	9	126133398	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	5658434	126133398	15080033	124	28547										
CRB2	286204	broad.mit.edu	37	chr9	126136902	126136902	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cagcctgaatgtcacctgccTcgatggcagcccatgtgagg	12	13	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr9:126136902T>A	uc004bnx.1	+	11	3526	c.3434T>A	c.(3433-3435)CTC>CAC	p.L1145H		NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	1145	Extracellular (Potential).|EGF-like 14.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						GTCACCTGCCTCGATGGCAGC	0.657													20	16	---	---	---	---	PASS	A	126136902	A	A	126136902	3	1	75	1	0	0	0	0	1	0	0	0	3849	1551	54	5	3476	5	CRB2	9	126136902	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	3504	126136902	15076529	125	28548										
RET	5979	broad.mit.edu	37	chr10	43600477	43600477	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ccctggaccgcgagcagcggGagaagtacgagctggtggcc	17	12	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr10:43600477G>C	uc001jal.2	+	4	893	c.703G>C	c.(703-705)GAG>CAG	p.E235Q	RET_uc001jak.1_Missense_Mutation_p.E235Q|RET_uc010qez.1_5'UTR	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	235	Cadherin.|Extracellular (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	CGAGCAGCGGGAGAAGTACGA	0.711		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				14	4	---	---	---	---	PASS	C	43600477	C	C	43600477	3	2	75	1	0	0	0	0	1	0	0	0	13235	1175	41	2	717	2	RET	10	43600477	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08		43600477	91934270	126	28549										
RASGEF1A	221002	broad.mit.edu	37	chr10	43691988	43691988	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctcactttcaaaggaggcgaCgaagagagctgagagatggg	15	7	2	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr10:43691988C>T	uc001jap.1	-	12	1438	c.1357G>A	c.(1357-1359)GTC>ATC	p.V453I	RASGEF1A_uc001jao.1_Missense_Mutation_p.V461I	NM_145313	NP_660356	Q8N9B8	RGF1A_HUMAN	RasGEF domain family, member 1A	453	Ras-GEF.				cell migration|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						AAGGAGGCGACGAAGAGAGCT	0.562													35	30	---	---	---	---	PASS	T	43691988	T	T	43691988	3	4	75	1	0	0	0	0	1	0	0	0	13069	536	19	1	96	1	RASGEF1A	10	43691988	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	91511	43691988	91842759	127	28550										
ARHGAP22	58504	broad.mit.edu	37	chr10	49687694	49687694	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agtacctccgcccagcggggCccagatgactcggcggatgg	15	14	0	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr10:49687694C>T	uc001jgt.2	-	4	733	c.436G>A	c.(436-438)GCC>ACC	p.A146T	ARHGAP22_uc001jgs.2_Missense_Mutation_p.A56T|ARHGAP22_uc001jgu.2_Missense_Mutation_p.A146T|ARHGAP22_uc010qgl.1_Intron|ARHGAP22_uc010qgm.1_Missense_Mutation_p.A152T|ARHGAP22_uc001jgv.2_5'UTR|uc001jgw.2_5'Flank	NM_021226	NP_067049	Q7Z5H3	RHG22_HUMAN	Rho GTPase activating protein 2	146					angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol|nucleus	GTPase activator activity			ovary(1)	1						CCCAGCGGGGCCCAGATGACT	0.667													25	12	---	---	---	---	PASS	T	49687694	T	T	49687694	3	4	75	1	0	0	0	0	1	0	0	0	872	739	26	3	1688	3	ARHGAP22	10	49687694	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	5995706	49687694	85847053	128	28551										
PLCE1	51196	broad.mit.edu	37	chr10	95892112	95892112	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cctccaaaggacttcaatatCgcagtacatcaccggttctc	6	14	3	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr10:95892112C>T	uc001kjk.2	+	3	2022	c.1388C>T	c.(1387-1389)TCG>TTG	p.S463L	PLCE1_uc010qnx.1_Missense_Mutation_p.S463L|PLCE1_uc001kjm.2_Missense_Mutation_p.S155L	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	463					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				ACTTCAATATCGCAGTACATC	0.502													67	45	---	---	---	---	PASS	T	95892112	T	T	95892112	3	4	75	1	0	0	0	0	1	0	0	0	12034	893	31	2	1680	2	PLCE1	10	95892112	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	46204418	95892112	39642635	129	28552										
SORCS1	114815	broad.mit.edu	37	chr10	108427527	108427527	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aaccaaaatgccggcaggcaCtggccattgctgtgtcgctc	11	13	0	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr10:108427527C>A	uc001kym.2	-	17	2231	c.2223G>T	c.(2221-2223)CAG>CAT	p.Q741H	SORCS1_uc001kyl.2_Missense_Mutation_p.Q741H|SORCS1_uc009xxs.2_Missense_Mutation_p.Q741H|SORCS1_uc001kyn.1_Missense_Mutation_p.Q741H|SORCS1_uc001kyo.2_Missense_Mutation_p.Q741H	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	741	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CCGGCAGGCACTGGCCATTGC	0.453													14	15	---	---	---	---	PASS	A	108427527	A	A	108427527	3	1	75	1	0	0	0	0	1	0	0	0	14930	564	20	3	1557	3	SORCS1	10	108427527	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	12535415	108427527	27107220	130	28553										
MUC5B	727897	broad.mit.edu	37	chr11	1269877	1269877	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ccacagtgctgaccaccaccAccacaactgtggccactggt	8	17	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:1269877A>T	uc009ycr.1	+	50	13477	c.13351A>T	c.(13351-13353)ACC>TCC	p.T4451S	MUC5B_uc001ltb.2_Missense_Mutation_p.T3926S	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3923	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GACCACCACCACCACAACTGT	0.502													5	5	---	---	---	---	PASS	T	1269877	T	T	1269877	3	4	75	1	0	0	0	0	1	0	0	0	9979	159	6	5	11898	5	MUC5B	11	1269877	Missense_Mutation	SNP	A	TCGA-34-5929-01A-11D-1817-08		1269877	133736639	131	28554										
AMPD3	272	broad.mit.edu	37	chr11	10483143	10483143	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cctggcggagaaggtgtttgCtaaagtgctccgagaagagg	16	7	0	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:10483143C>A	uc001mio.1	+	2	412	c.77C>A	c.(76-78)GCT>GAT	p.A26D	AMPD3_uc010rbz.1_5'UTR|AMPD3_uc001min.1_Missense_Mutation_p.A35D|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfx.1_Missense_Mutation_p.A26D|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.A33D|AMPD3_uc009yfy.2_Missense_Mutation_p.A26D	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	26					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		AAGGTGTTTGCTAAAGTGCTC	0.552													57	37	---	---	---	---	PASS	A	10483143	A	A	10483143	3	1	75	1	0	0	0	0	1	0	0	0	587	797	28	3	130	3	AMPD3	11	10483143	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	9213266	10483143	124523373	132	28555										
LRP4	4038	broad.mit.edu	37	chr11	46903277	46903277	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctcttactgccatccagtccAgcaaattcaattgtcttcat	4	13	4	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:46903277A>G	uc001ndn.3	-	20	2936	c.2790T>C	c.(2788-2790)GCT>GCC	p.A930A		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	930	Extracellular (Potential).|LDL-receptor class B 9.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		CATCCAGTCCAGCAAATTCAA	0.493													47	126	---	---	---	---	PASS	G	46903277	G	G	46903277	2	3	75	1	0	0	0	0	0	0	0	1	8959	175	7	5		5	LRP4	11	46903277	Silent	SNP	A	TCGA-34-5929-01A-11D-1817-08	36420134	46903277	88103239	133	28556										
APLNR	187	broad.mit.edu	37	chr11	57004427	57004427	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ccagtctgtgtactcacactCagactggttgtctgccccat	8	14	4	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:57004427C>A	uc001njo.2	-	1	501	c.52G>T	c.(52-54)GAG>TAG	p.E18*	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	18	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						TACTCACACTCAGACTGGTTG	0.582													37	75	---	---	---	---	PASS	A	57004427	A	A	57004427	4	1	75	1	0	0	0	0	0	1	0	0	777	835	29	2	1094	2	APLNR	11	57004427	Nonsense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	10101150	57004427	78002089	134	28557										
TCN1	6947	broad.mit.edu	37	chr11	59629138	59629138	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctggtagtagttagtcagggGagtgccattgtgtgcttcta	14	6	2	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:59629138G>T	uc001noj.2	-	4	516	c.418C>A	c.(418-420)CCC>ACC	p.P140T		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	140					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTAGTCAGGGGAGTGCCATTG	0.448													38	59	---	---	---	---	PASS	T	59629138	T	T	59629138	3	4	75	1	0	0	0	0	1	0	0	0	15703	1174	41	2	907	2	TCN1	11	59629138	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	2624711	59629138	75377378	135	28558										
SPTBN2	6712	broad.mit.edu	37	chr11	66472936	66472936	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gctgcgggtcgcaaggtctaTactctgagaaagtcacagga	13	9	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:66472936T>C	uc001ojd.2	-	14	1883	c.1811A>G	c.(1810-1812)TAT>TGT	p.Y604C		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	604	Spectrin 3.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GCAAGGTCTATACTCTGAGAA	0.637													24	34	---	---	---	---	PASS	C	66472936	C	C	66472936	3	2	75	1	0	0	0	0	1	0	0	0	15119	1406	49	5	5457	5	SPTBN2	11	66472936	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	6843798	66472936	68533580	136	28559										
CPT1A	1374	broad.mit.edu	37	chr11	68574988	68574988	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gtgctcagtgaacatccaccCgtggtaggagagcagcactt	12	11	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:68574988C>A	uc001oog.3	-	4	570	c.400G>T	c.(400-402)GGG>TGG	p.G134W	CPT1A_uc001oof.3_Missense_Mutation_p.G134W|CPT1A_uc009ysj.2_Missense_Mutation_p.G134W	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	134	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	AACATCCACCCGTGGTAGGAG	0.597													27	38	---	---	---	---	PASS	A	68574988	A	A	68574988	3	1	75	1	0	0	0	0	1	0	0	0	3831	652	23	1	2025	1	CPT1A	11	68574988	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	2102052	68574988	66431528	137	28560										
DLG2	1740	broad.mit.edu	37	chr11	84245650	84245650	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gagactgcaagacatatccaTggacattttctatttgagag	9	7	1	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:84245650T>A	uc001paj.2	-	2	470	c.167A>T	c.(166-168)CAT>CTT	p.H56L	DLG2_uc010rsz.1_Missense_Mutation_p.H56L|DLG2_uc010rta.1_Missense_Mutation_p.H56L|DLG2_uc001pak.2_Missense_Mutation_p.H161L|DLG2_uc001pal.1_Missense_Mutation_p.H56L	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	56						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				GACATATCCATGGACATTTTC	0.418													45	94	---	---	---	---	PASS	A	84245650	A	A	84245650	3	1	75	1	0	0	0	0	1	0	0	0	4555	1464	51	5	2692	5	DLG2	11	84245650	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	15670662	84245650	50760866	138	28561										
SFRS2B	10929	broad.mit.edu	37	chr11	94801046	94801046	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gggtcctccactagctctcgCtctgcatcaacctccaaatc	6	17	3	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:94801046C>A	uc001pff.2	+	2	992	c.657C>A	c.(655-657)CGC>CGA	p.R219R	SFRS2B_uc001pfg.1_5'Flank	NM_032102	NP_115285	Q9BRL6	SRSF8_HUMAN	splicing factor, arginine/serine-rich 2B	219					mRNA processing|RNA splicing	nucleus	nucleotide binding|RNA binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CTAGCTCTCGCTCTGCATCAA	0.567													4	103	---	---	---	---	PASS	A	94801046	A	A	94801046	2	1	75	1	0	0	0	0	0	0	0	1	14176	797	28	3		3	SFRS2B	11	94801046	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	10555396	94801046	40205470	139	28562										
RDX	5962	broad.mit.edu	37	chr11	110126072	110126072	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgtcattaaatgaaatatttCtgatttcactccagggaaaa	6	6	3	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:110126072C>T	uc001pku.2	-	8	1047	c.737G>A	c.(736-738)AGA>AAA	p.R246K	RDX_uc009yxx.1_RNA|RDX_uc009yxy.2_Missense_Mutation_p.R246K|RDX_uc009yxz.2_Intron|RDX_uc009yya.2_Intron|RDX_uc010rwe.1_Missense_Mutation_p.R110K	NM_002906	NP_002897	P35241	RADI_HUMAN	radixin	246	FERM.				actin filament capping	cleavage furrow|cytoskeleton|extrinsic to membrane|Golgi apparatus|nucleolus|plasma membrane	actin binding				0		all_cancers(61;7.18e-13)|all_epithelial(67;2.61e-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;1.13e-06)|BRCA - Breast invasive adenocarcinoma(274;9.75e-06)|all cancers(92;5.9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0248)		TGAAATATTTCTGATTTCACT	0.269													17	36	---	---	---	---	PASS	T	110126072	T	T	110126072	3	4	75	1	0	0	0	0	1	0	0	0	13198	913	32	2	1042	2	RDX	11	110126072	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	15325026	110126072	24880444	140	28563										
NCAM1	4684	broad.mit.edu	37	chr11	113105811	113105811	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agcccgaaacaacgtacgccGtaaggctggcggcgctcaat	12	13	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:113105811G>A	uc009yyq.1	+	15	2168	c.1474G>A	c.(1474-1476)GTA>ATA	p.V492I		NM_001076682	NP_001070150	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1 isoform 3	584	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		AACGTACGCCGTAAGGCTGGC	0.552													5	10	---	---	---	---	PASS	A	113105811	A	A	113105811	3	1	75	1	0	0	0	0	1	0	0	0	10202	1145	40	1	1805	1	NCAM1	11	113105811	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	2979739	113105811	21900705	141	28564										
OR6T1	219874	broad.mit.edu	37	chr11	123813782	123813782	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tacgaatgtagagaaagatgGaactgccatagatgatgacc	11	6	0	5	rs76969055		TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:123813782G>T	uc010sab.1	-	1	764	c.764C>A	c.(763-765)TCC>TAC	p.S255Y		NM_001005187	NP_001005187	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		GAGAAAGATGGAACTGCCATA	0.522													63	108	---	---	---	---	PASS	T	123813782	T	T	123813782	3	4	75	1	0	0	0	0	1	0	0	0	11210	1174	41	2	210	2	OR6T1	11	123813782	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	10707971	123813782	11192734	142	28565										
OR10G4	390264	broad.mit.edu	37	chr11	123886704	123886704	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	atgagtgggagcaggtgtgcCctcctggccaccggcacttg	15	12	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr11:123886704C>A	uc010sac.1	+	1	423	c.423C>A	c.(421-423)GCC>GCA	p.A141A		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		GCAGGTGTGCCCTCCTGGCCA	0.557													79	201	---	---	---	---	PASS	A	123886704	A	A	123886704	2	1	75	1	0	0	0	0	0	0	0	1	10901	610	22	3		3	OR10G4	11	123886704	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	72922	123886704	11119812	143	28566										
ITFG2	55846	broad.mit.edu	37	chr12	2929267	2929267	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cacagatggagatgggtgtcGtgagctggtggtgggctaca	18	6	0	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr12:2929267G>C	uc001qlb.1	+	5	486	c.422G>C	c.(421-423)CGT>CCT	p.R141P	ITFG2_uc010seb.1_5'UTR|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	141	FG-GAP 2; atypical.										0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GATGGGTGTCGTGAGCTGGTG	0.612													25	36	---	---	---	---	PASS	C	2929267	C	C	2929267	3	2	75	1	0	0	0	0	1	0	0	0	7870	1145	40	4	440	4	ITFG2	12	2929267	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08		2929267	130922628	144	28567										
ANO2	57101	broad.mit.edu	37	chr12	5853362	5853362	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agagaagaagacggtggcagGgttgtcaaacaggtggctgg	18	5	1	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr12:5853362G>T	uc001qnm.2	-	12	1372	c.1300C>A	c.(1300-1302)CCT>ACT	p.P434T		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	439	Helical; (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						ACGGTGGCAGGGTTGTCAAAC	0.547													27	69	---	---	---	---	PASS	T	5853362	T	T	5853362	3	4	75	1	0	0	0	0	1	0	0	0	697	1232	43	3	1756	3	ANO2	12	5853362	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	2924095	5853362	127998533	145	28568										
ERGIC2	51290	broad.mit.edu	37	chr12	29498455	29498455	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttggcacaactgtaataaaaTattggaacatctggttgtct	8	6	2	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr12:29498455T>C	uc001riv.2	-	11	879	c.746A>G	c.(745-747)TAT>TGT	p.Y249C	ERGIC2_uc001riw.2_RNA	NM_016570	NP_057654	Q96RQ1	ERGI2_HUMAN	PTX1 protein	249	Lumenal (Potential).				vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane|nucleus				ovary(1)	1	Lung NSC(12;2.02e-08)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)|Lung SC(9;0.184)				Arsenic trioxide(DB01169)	TGTAATAAAATATTGGAACAT	0.313													70	87	---	---	---	---	PASS	C	29498455	C	C	29498455	3	2	75	1	0	0	0	0	1	0	0	0	5224	1406	49	5	403	5	ERGIC2	12	29498455	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	23645093	29498455	104353440	146	28569										
GXYLT1	283464	broad.mit.edu	37	chr12	42499711	42499711	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aatatggatgcctagcaaagCgattataccatcctattcga	7	9	0	0	rs76555438		TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr12:42499711C>A	uc001rms.3	-	5	998	c.773G>T	c.(772-774)CGC>CTC	p.R258L	GXYLT1_uc001rmt.3_Missense_Mutation_p.R227L	NM_173601	NP_775872	Q4G148	GXLT1_HUMAN	glycosyltransferase 8 domain containing 3	258	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						CCTAGCAAAGCGATTATACCA	0.378													34	59	---	---	---	---	PASS	A	42499711	A	A	42499711	3	1	75	1	0	0	0	0	1	0	0	0	6903	768	27	1	565	1	GXYLT1	12	42499711	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	13001256	42499711	91352184	147	28570										
ANKS1B	56899	broad.mit.edu	37	chr12	100175865	100175865	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctgcttcatgaagtgcactcCccttttctgtctggaaaaaa	7	11	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr12:100175865C>T	uc001tge.1	-	5	1097	c.680G>A	c.(679-681)GGG>GAG	p.G227E	ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Missense_Mutation_p.G227E	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	227	ANK 7.					Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		AAGTGCACTCCCCTTTTCTGT	0.368													10	11	---	---	---	---	PASS	T	100175865	T	T	100175865	3	4	75	1	0	0	0	0	1	0	0	0	689	623	22	3	3442	3	ANKS1B	12	100175865	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	57676154	100175865	33676030	148	28571										
SLC17A8	246213	broad.mit.edu	37	chr12	100790151	100790151	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgggatgtggagtaagtgggCaccacctttggagagaagcc	16	7	0	1	rs121918339		TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr12:100790151C>T	uc010svi.1	+	5	945	c.632C>T	c.(631-633)GCA>GTA	p.A211V	SLC17A8_uc009ztx.2_Missense_Mutation_p.A211V	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	211	Cytoplasmic (Potential).		A -> V (in DFNA25).		neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						AGTAAGTGGGCACCACCTTTG	0.423													30	58	---	---	---	---	PASS	T	100790151	T	T	100790151	3	4	75	1	0	0	0	0	1	0	0	0	14423	710	25	3	650	3	SLC17A8	12	100790151	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	614286	100790151	33061744	149	28572										
C12orf42	374470	broad.mit.edu	37	chr12	103699929	103699929	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gggtgctcctctggctctctCctcagtttctcctctggcag	10	15	5	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr12:103699929C>G	uc001tjt.2	-	5	542	c.454G>C	c.(454-456)GAG>CAG	p.E152Q	C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Missense_Mutation_p.E152Q|C12orf42_uc001tju.2_Missense_Mutation_p.E57Q	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	152										ovary(1)|central_nervous_system(1)	2						CTGGCTCTCTCCTCAGTTTCT	0.458													28	52	---	---	---	---	PASS	G	103699929	G	G	103699929	3	3	75	1	0	0	0	0	1	0	0	0	1688	864	30	2	636	2	C12orf42	12	103699929	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	2909778	103699929	30151966	150	28573										
C12orf45	121053	broad.mit.edu	37	chr12	105388301	105388301	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agtcggattcaaaagaagtgGacagttcagaagagagttca	12	5	3	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr12:105388301G>T	uc001tlb.2	+	4	418	c.385G>T	c.(385-387)GAC>TAC	p.D129Y		NM_152318	NP_689531	Q8N5I9	CL045_HUMAN	hypothetical protein LOC121053	129											0						AAAAGAAGTGgacagttcaga	0.299													23	28	---	---	---	---	PASS	T	105388301	T	T	105388301	3	4	75	1	0	0	0	0	1	0	0	0	1691	1174	41	2	399	2	C12orf45	12	105388301	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	1688372	105388301	28463594	151	28574										
TMEM132D	121256	broad.mit.edu	37	chr12	129566569	129566569	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cctcctcctcttcactgtccCcggcaggcctgtgaaagaag	9	16	2	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr12:129566569C>A	uc009zyl.1	-	7	1986	c.1658G>T	c.(1657-1659)GGG>GTG	p.G553V	TMEM132D_uc001uia.2_Missense_Mutation_p.G91V	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	553	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TTCACTGTCCCCGGCAGGCCT	0.622													28	64	---	---	---	---	PASS	A	129566569	A	A	129566569	3	1	75	1	0	0	0	0	1	0	0	0	16044	623	22	3	1653	3	TMEM132D	12	129566569	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	24178268	129566569	4285326	152	28575										
ATP8A2	51761	broad.mit.edu	37	chr13	26411385	26411385	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgctcaggtttccccagctcTacaaaatcacccagaatggc	7	14	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr13:26411385T>A	uc001uqk.2	+	29	2981	c.2839T>A	c.(2839-2841)TAC>AAC	p.Y947N	ATP8A2_uc010tdi.1_Missense_Mutation_p.Y882N|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.Y497N	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	907	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		TCCCCAGCTCTACAAAATCAC	0.488													64	38	---	---	---	---	PASS	A	26411385	A	A	26411385	3	1	75	1	0	0	0	0	1	0	0	0	1193	1522	53	5	2953	5	ATP8A2	13	26411385	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08		26411385	88758493	153	28576										
POLR1D	51082	broad.mit.edu	37	chr13	28239962	28239962	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agagccaggcccagaaagaaGaaaacccgaagaaacacaga	10	10	0	6			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr13:28239962G>A	uc001urp.2	+	3	359	c.241G>A	c.(241-243)GAA>AAA	p.E81K	POLR1D_uc010aam.2_Missense_Mutation_p.E53K|POLR1D_uc001urq.2_RNA	NM_152705	NP_689918	Q9Y2S0	RPAC2_HUMAN	polymerase (RNA) I polypeptide D isoform 2	Error:Variant_position_missing_in_Q9Y2S0_after_alignment					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein dimerization activity				0		Lung SC(185;0.0161)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.0758)|OV - Ovarian serous cystadenocarcinoma(117;0.1)|Epithelial(112;0.213)		CCAGAAAGAAGAAAACCCGAA	0.498													22	25	---	---	---	---	PASS	A	28239962	A	A	28239962	3	1	75	1	0	0	0	0	1	0	0	0	12212	943	33	2	631	2	POLR1D	13	28239962	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	1828577	28239962	86929916	154	28577										
OR4M1	441670	broad.mit.edu	37	chr14	20249034	20249034	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tctgtgacatcacacaggttGtccggattgcctgtgccaac	10	12	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr14:20249034G>T	uc010tku.1	+	1	553	c.553G>T	c.(553-555)GTC>TTC	p.V185F		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	185	Extracellular (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)		CACACAGGTTGTCCGGATTGC	0.458													91	68	---	---	---	---	PASS	T	20249034	T	T	20249034	3	4	75	1	0	0	0	0	1	0	0	0	11075	1377	48	3	555	3	OR4M1	14	20249034	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08		20249034	87100506	155	28578										
MPP5	64398	broad.mit.edu	37	chr14	67787835	67787835	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gattaccactttgtttcgcgGcaagcattcgaggcagacat	10	10	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr14:67787835G>A	uc001xjc.2	+	13	2065	c.1599G>A	c.(1597-1599)CGG>CGA	p.R533R	MPP5_uc001xjd.2_Silent_p.R499R|ATP6V1D_uc001xje.2_Intron	NM_022474	NP_071919	Q8N3R9	MPP5_HUMAN	membrane protein, palmitoylated 5	533	Guanylate kinase-like.				tight junction assembly	cytoplasm|endomembrane system|tight junction	protein domain specific binding			ovary(1)	1				all cancers(60;0.000388)|OV - Ovarian serous cystadenocarcinoma(108;0.00762)|BRCA - Breast invasive adenocarcinoma(234;0.0106)		TTGTTTCGCGGCAAGCATTCG	0.443													4	97	---	---	---	---	PASS	A	67787835	A	A	67787835	2	1	75	1	0	0	0	0	0	0	0	1	9737	1190	42	3		3	MPP5	14	67787835	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	47538801	67787835	39561705	156	28579										
ZFYVE26	23503	broad.mit.edu	37	chr14	68249614	68249614	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	atctctggccaccaaggattCctcaaaagcctcactcagta	6	14	4	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr14:68249614C>A	uc001xka.2	-	21	4394	c.4255G>T	c.(4255-4257)GAA>TAA	p.E1419*	ZFYVE26_uc010tsz.1_Intron|ZFYVE26_uc001xkc.3_Nonsense_Mutation_p.E1419*	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1419					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		ACCAAGGATTCCTCAAAAGCC	0.537													66	39	---	---	---	---	PASS	A	68249614	A	A	68249614	4	1	75	1	0	0	0	0	0	1	0	0	17665	864	30	2	3452	2	ZFYVE26	14	68249614	Nonsense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	461779	68249614	39099926	157	28580										
FLRT2	23768	broad.mit.edu	37	chr14	86087896	86087896	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aaagtggcccagccatggggCttttttcctgaagtcttggc	12	10	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr14:86087896C>A	uc001xvr.2	+	2	805	c.38C>A	c.(37-39)GCT>GAT	p.A13D	FLRT2_uc010atd.2_Missense_Mutation_p.A13D	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	13					cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		AGCCATGGGGCTTTTTTCCTG	0.458													51	34	---	---	---	---	PASS	A	86087896	A	A	86087896	3	1	75	1	0	0	0	0	1	0	0	0	5939	797	28	3	40	3	FLRT2	14	86087896	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	17838282	86087896	21261644	158	28581										
RYR3	6263	broad.mit.edu	37	chr15	34064313	34064313	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctgctccccatcctgacgtcCatctttgagcacgtcactca	6	17	3	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr15:34064313C>A	uc001zhi.2	+	63	9079	c.9009C>A	c.(9007-9009)TCC>TCA	p.S3003S	RYR3_uc010bar.2_Silent_p.S3003S	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3003	Helical; Name=M'; (Potential).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TCCTGACGTCCATCTTTGAGC	0.473													22	24	---	---	---	---	PASS	A	34064313	A	A	34064313	2	1	75	1	0	0	0	0	0	0	0	1	13770	581	21	3		3	RYR3	15	34064313	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08		34064313	68467079	159	28582										
RPAP1	26015	broad.mit.edu	37	chr15	41813976	41813976	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tacacagctcagcagcagctCatgggtgaggtactcacttc	10	12	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr15:41813976C>T	uc001zod.2	-	21	3122	c.2998G>A	c.(2998-3000)GAG>AAG	p.E1000K	RPAP1_uc001zoc.2_Missense_Mutation_p.E19K	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	1000	Leu-rich.					nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		AGCAGCAGCTCATGGGTGAGG	0.557													15	37	---	---	---	---	PASS	T	41813976	T	T	41813976	3	4	75	1	0	0	0	0	1	0	0	0	13541	835	29	2	1203	2	RPAP1	15	41813976	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	7749663	41813976	60717416	160	28583										
B2M	567	broad.mit.edu	37	chr15	45007768	45007768	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aattgaaaaagtggagcattCagacttgtctttcagcaagg	10	6	3	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr15:45007768C>G	uc001zuc.2	+	2	275	c.215C>G	c.(214-216)TCA>TGA	p.S72*	B2M_uc010uek.1_Nonsense_Mutation_p.S72*|B2M_uc010bdx.1_Intron	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor	72	Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding			ovary(2)|skin(1)	3		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		GTGGAGCATTCAGACTTGTCT	0.418													58	56	---	---	---	---	PASS	G	45007768	G	G	45007768	4	3	75	1	0	0	0	0	0	1	0	0	1244	838	29	2	221	2	B2M	15	45007768	Nonsense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	3193792	45007768	57523624	161	28584										
SEMA6D	80031	broad.mit.edu	37	chr15	48062819	48062819	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gtgtggcagtatactgctatCgagacatgtttgttcggaaa	12	6	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr15:48062819C>A	uc010bek.2	+	19	2419	c.2059C>A	c.(2059-2061)CGA>AGA	p.R687R	SEMA6D_uc001zvw.2_Silent_p.R625R|SEMA6D_uc001zvy.2_Silent_p.R687R|SEMA6D_uc001zvz.2_Silent_p.R631R|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Silent_p.R625R|SEMA6D_uc001zwc.2_Silent_p.R612R	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	687	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		ATACTGCTATCGAGACATGTT	0.463													105	60	---	---	---	---	PASS	A	48062819	A	A	48062819	2	1	75	1	0	0	0	0	0	0	0	1	14042	876	31	2		2	SEMA6D	15	48062819	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	3055051	48062819	54468573	162	28585										
SHC4	399694	broad.mit.edu	37	chr15	49127093	49127093	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	catcctttaccaagaggctcTctgccgccttcctgctcagc	7	17	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr15:49127093T>C	uc001zxb.1	-	11	2039	c.1610A>G	c.(1609-1611)GAG>GGG	p.E537G	SHC4_uc010uey.1_Missense_Mutation_p.E294G|SHC4_uc010uez.1_Missense_Mutation_p.E251G	NM_203349	NP_976224	Q6S5L8	SHC4_HUMAN	rai-like protein	537	SH2.				intracellular signal transduction	cell junction|postsynaptic membrane				ovary(3)|pancreas(2)	5		all_lung(180;0.00466)		all cancers(107;9.4e-08)|GBM - Glioblastoma multiforme(94;5.94e-07)		CAAGAGGCTCTCTGCCGCCTT	0.537													3	42	---	---	---	---	PASS	C	49127093	C	C	49127093	3	2	75	1	0	0	0	0	1	0	0	0	14273	1551	54	5	290	5	SHC4	15	49127093	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	1064274	49127093	53404299	163	28586										
NARG2	79664	broad.mit.edu	37	chr15	60747529	60747529	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttgccttggtacttacataaTgcatagcttcagctgtttgt	8	8	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr15:60747529T>C	uc002agp.2	-	7	1014	c.779A>G	c.(778-780)CAT>CGT	p.H260R	NARG2_uc002ago.2_Missense_Mutation_p.H123R|NARG2_uc002agq.3_5'Flank|NARG2_uc010bgk.2_Missense_Mutation_p.H260R|NARG2_uc002agr.1_Missense_Mutation_p.H260R	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	260						nucleus				ovary(1)|lung(1)	2						ACTTACATAATGCATAGCTTC	0.368													27	205	---	---	---	---	PASS	C	60747529	C	C	60747529	3	2	75	1	0	0	0	0	1	0	0	0	10169	1464	51	5	2209	5	NARG2	15	60747529	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	11620436	60747529	41783863	164	28587										
SALL1	6299	broad.mit.edu	37	chr16	51174483	51174483	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aggccgactgaagtggtcagAgtaggcaggactggtttggt	17	6	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr16:51174483A>T	uc010vgs.1	-	2	1681	c.1650T>A	c.(1648-1650)ACT>ACA	p.T550T	SALL1_uc010vgr.1_Silent_p.T453T|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	550					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			AAGTGGTCAGAGTAGGCAGGA	0.577													38	28	---	---	---	---	PASS	T	51174483	T	T	51174483	2	4	75	1	0	0	0	0	0	0	0	1	13810	291	11	5		5	SALL1	16	51174483	Silent	SNP	A	TCGA-34-5929-01A-11D-1817-08		51174483	39180270	165	28588										
WSCD1	23302	broad.mit.edu	37	chr17	6021315	6021315	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tttttccctgcagggttcaaGggcgaaaaggaccactggcg	13	10	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr17:6021315G>T	uc010cli.2	+	8	1561	c.1182G>T	c.(1180-1182)AAG>AAT	p.K394N	WSCD1_uc002gcn.2_Missense_Mutation_p.K394N|WSCD1_uc002gco.2_Missense_Mutation_p.K394N|WSCD1_uc010clj.2_Missense_Mutation_p.K85N	NM_015253	NP_056068	Q658N2	WSCD1_HUMAN	WSC domain containing 1	394						integral to membrane	sulfotransferase activity				0						CAGGGTTCAAGGGCGAAAAGG	0.542													4	127	---	---	---	---	PASS	T	6021315	T	T	6021315	3	4	75	1	0	0	0	0	1	0	0	0	17403	991	35	3	1208	3	WSCD1	17	6021315	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08		6021315	75173895	166	28589										
TP53	7157	broad.mit.edu	37	chr17	7577094	7577094	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	attctcttcctctgtgcgccGgtctctcccaggacaggcac	9	16	3	0	rs28934574		TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr17:7577094G>A	uc002gim.2	-	8	1038	c.844C>T	c.(844-846)CGG>TGG	p.R282W	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R282W|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R150W|TP53_uc010cng.1_Missense_Mutation_p.R150W|TP53_uc002gii.1_Missense_Mutation_p.R150W|TP53_uc010cnh.1_Missense_Mutation_p.R282W|TP53_uc010cni.1_Missense_Mutation_p.R282W|TP53_uc002gij.2_Missense_Mutation_p.R282W	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	282	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|DR -> EW (in sporadic cancers; somatic mutation).|R -> Q (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> H (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R282W(367)|p.R282G(27)|p.R282Q(20)|p.R282P(14)|p.R282R(8)|p.0?(7)|p.R282L(3)|p.D281fs*63(2)|p.?(2)|p.R282fs*24(2)|p.D281_R282>EW(2)|p.A276_R283delACPGRDRR(1)|p.R280fs*62(1)|p.R282_E287delRRTEEE(1)|p.G279fs*59(1)|p.S269fs*21(1)|p.C275_R283delCACPGRDRR(1)|p.D281_R282insXX(1)|p.L265_K305del41(1)|p.R282H(1)|p.R283_T284>T(1)|p.V272_K292del21(1)|p.R282fs*63(1)|p.C275fs*20(1)|p.D281_R282delDR(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)		TCTGTGCGCCGGTCTCTCCCA	0.557		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)			39	7	---	---	---	---	PASS	A	7577094	A	A	7577094	3	1	75	1	0	0	0	0	1	0	0	0	16378	1115	39	1	442	1	TP53	17	7577094	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	1555779	7577094	73618116	167	28590										
CYB561	1534	broad.mit.edu	37	chr17	61514793	61514793	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tctcccaggcaatgccgcctCggtacagcccgagccacgcg	11	18	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr17:61514793C>A	uc002jap.2	-	1	518	c.116G>T	c.(115-117)CGA>CTA	p.R39L	CYB561_uc002jaq.2_Missense_Mutation_p.R85L|CYB561_uc002jar.2_Missense_Mutation_p.R39L|CYB561_uc002jas.2_Missense_Mutation_p.R39L|CYB561_uc010ddt.2_Missense_Mutation_p.R39L|CYB561_uc002jat.2_Missense_Mutation_p.R39L|CYB561_uc010wpf.1_Missense_Mutation_p.R39L|CYB561_uc010wpg.1_Missense_Mutation_p.R10L	NM_001915	NP_001906	P49447	CY561_HUMAN	cytochrome b-561	39	Cytochrome b561.				electron transport chain|transport	integral to plasma membrane	cytochrome-b5 reductase activity|ferric-chelate reductase activity|metal ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(1115;0.0689)		AATGCCGCCTCGGTACAGCCC	0.652													58	22	---	---	---	---	PASS	A	61514793	A	A	61514793	3	1	75	1	0	0	0	0	1	0	0	0	4119	884	31	2	659	2	CYB561	17	61514793	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	53937699	61514793	19680417	168	28591										
CARD14	79092	broad.mit.edu	37	chr17	78179367	78179367	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gagtatgaggcctggagccaGagaggggacatcatccagga	16	8	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr17:78179367G>A	uc002jxw.1	+	19	2802	c.2607G>A	c.(2605-2607)CAG>CAA	p.Q869Q	CARD14_uc002jxt.1_RNA	NM_024110	NP_077015	Q9BXL6	CAR14_HUMAN	caspase recruitment domain protein 14 isoform 1	869	Guanylate kinase-like.				activation of NF-kappaB-inducing kinase activity|positive regulation of protein phosphorylation|regulation of apoptosis	aggresome|cytoplasm|plasma membrane	CARD domain binding			ovary(4)|skin(1)	5	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			CCTGGAGCCAGAGAGGGGACA	0.622													8	5	---	---	---	---	PASS	A	78179367	A	A	78179367	2	1	75	1	0	0	0	0	0	0	0	1	2646	933	33	2		2	CARD14	17	78179367	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	16664574	78179367	3015843	169	28592										
MYOM1	8736	broad.mit.edu	37	chr18	3215016	3215016	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gctgcgaggcctgctgctggGaggaggaggcggacgcccga	20	11	0	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr18:3215016G>T	uc002klp.2	-	2	540	c.206C>A	c.(205-207)TCC>TAC	p.S69Y	MYOM1_uc002klq.2_Missense_Mutation_p.S69Y	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	69						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						CTGCTGCTGGGAGGAGGAGGC	0.692													24	45	---	---	---	---	PASS	T	3215016	T	T	3215016	3	4	75	1	0	0	0	0	1	0	0	0	10091	1174	41	2	4999	2	MYOM1	18	3215016	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08		3215016	74862232	170	28593										
RAB12	201475	broad.mit.edu	37	chr18	8624946	8624946	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttatttacaggtgttgacttCaaaatcaaaactgtagagct	7	6	2	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr18:8624946C>T	uc002knp.2	+	2	520	c.237C>T	c.(235-237)TTC>TTT	p.F79F		NM_001025300	NP_001020471	Q6IQ22	RAB12_HUMAN	RAB12, member RAS oncogene family	79	Effector region (By similarity).				protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding				0						GTGTTGACTTCAAAATCAAAA	0.323													52	130	---	---	---	---	PASS	T	8624946	T	T	8624946	2	4	75	1	0	0	0	0	0	0	0	1	12898	825	29	2		2	RAB12	18	8624946	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	5409930	8624946	69452302	171	28594										
KLHL14	57565	broad.mit.edu	37	chr18	30260198	30260198	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agccaaagtgtgaattgcacGttttgtgttcatatcttgtt	9	6	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr18:30260198G>T	uc002kxm.1	-	7	1910	c.1522C>A	c.(1522-1524)CGT>AGT	p.R508S	KLHL14_uc010dmd.1_Missense_Mutation_p.R57S	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	508	Kelch 4.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						TGAATTGCACGTTTTGTGTTC	0.378													33	65	---	---	---	---	PASS	T	30260198	T	T	30260198	3	4	75	1	0	0	0	0	1	0	0	0	8370	1145	40	1	376	1	KLHL14	18	30260198	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	21635252	30260198	47817050	172	28595										
CCDC102B	79839	broad.mit.edu	37	chr18	66513659	66513659	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agccaaaaaatgtgaaagagGtatgggggaatatgatgtaa	13	2	0	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr18:66513659G>C	uc002lkk.2	+	6	1159	c.936_splice	c.e6+1	p.E312_splice	CCDC102B_uc002lki.2_Splice_Site_p.E312_splice|CCDC102B_uc002lkj.1_Splice_Site_p.E312_splice	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B											ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				TGTGAAAGAGGTATGGGGGAA	0.398													13	28	---	---	---	---	PASS	C	66513659	C	C	66513659	5	2	75	1	0	0	0	0	0	0	1	0	2737	1275	44	4	947	4	CCDC102B	18	66513659	Splice_Site	SNP	G	TCGA-34-5929-01A-11D-1817-08	36253461	66513659	11563589	173	28596										
ZNF236	7776	broad.mit.edu	37	chr18	74563729	74563729	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cttcacttttctctccaaatAgccacatcgatgtgaccagt	5	13	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr18:74563729A>G	uc002lmi.2	+	3	391	c.193_splice	c.e3-2	p.P65_splice	ZNF236_uc002lmj.2_Splice_Site|ZNF236_uc002lmk.1_Splice_Site_p.P65_splice	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236						cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CTCTCCAAATAGCCACATCGA	0.398													15	41	---	---	---	---	PASS	G	74563729	G	G	74563729	5	3	75	1	0	0	0	0	0	0	1	0	17786	434	15	5	201	5	ZNF236	18	74563729	Splice_Site	SNP	A	TCGA-34-5929-01A-11D-1817-08	8050070	74563729	3513519	174	28597										
TMPRSS9	360200	broad.mit.edu	37	chr19	2410385	2410385	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cctggacgggaaggtggactCctgccaggtgagcccccgat	15	13	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:2410385C>G	uc010xgx.1	+	8	1145	c.1145C>G	c.(1144-1146)TCC>TGC	p.S382C	TMPRSS9_uc002lvv.1_Missense_Mutation_p.S416C	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	382	Extracellular (Potential).|Peptidase S1 1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGGTGGACTCCTGCCAGGTG	0.567													18	28	---	---	---	---	PASS	G	2410385	G	G	2410385	3	3	75	1	0	0	0	0	1	0	0	0	16250	855	30	2	1175	2	TMPRSS9	19	2410385	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08		2410385	56718598	175	28598										
GADD45B	4616	broad.mit.edu	37	chr19	2477492	2477492	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tttccctcctacagaaccctCacacggacgcctggaagagc	8	16	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:2477492C>T	uc002lwb.1	+	4	598	c.376C>T	c.(376-378)CAC>TAC	p.H126Y		NM_015675	NP_056490	O75293	GA45B_HUMAN	growth arrest and DNA-damage-inducible, beta	126					activation of MAPKKK activity|apoptosis|cell differentiation|multicellular organismal development|response to stress						0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACAGAACCCTCACACGGACGC	0.592													22	30	---	---	---	---	PASS	T	2477492	T	T	2477492	3	4	75	1	0	0	0	0	1	0	0	0	6182	826	29	2	390	2	GADD45B	19	2477492	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	67107	2477492	56651491	176	28599										
ZNF557	79230	broad.mit.edu	37	chr19	7082908	7082908	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggagaggaatcatcttggagCaacactcaacgaatgtaatc	10	8	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:7082908C>A	uc002mgb.2	+	8	910	c.425C>A	c.(424-426)GCA>GAA	p.A142E	ZNF557_uc002mga.2_Missense_Mutation_p.A149E|ZNF557_uc002mgc.2_Missense_Mutation_p.A149E	NM_001044388	NP_001037853	Q8N988	ZN557_HUMAN	zinc finger protein 557 isoform b	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2				Lung(535;0.179)		CATCTTGGAGCAACACTCAAC	0.388													4	73	---	---	---	---	PASS	A	7082908	A	A	7082908	3	1	75	1	0	0	0	0	1	0	0	0	17985	710	25	3	468	3	ZNF557	19	7082908	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	4605416	7082908	52046075	177	28600										
OR10H1	26539	broad.mit.edu	37	chr19	15918067	15918067	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctggggacttttgggcttcaGgtaaatgacggaggcaaagc	15	7	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:15918067G>A	uc002nbq.2	-	1	870	c.781C>T	c.(781-783)CTG>TTG	p.L261L		NM_013940	NP_039228	Q9Y4A9	O10H1_HUMAN	olfactory receptor, family 10, subfamily H,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTGGGCTTCAGGTAAATGACG	0.557													3	78	---	---	---	---	PASS	A	15918067	A	A	15918067	2	1	75	1	0	0	0	0	0	0	0	1	10905	991	35	3		3	OR10H1	19	15918067	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	8835159	15918067	43210916	178	28601										
LSM4	25804	broad.mit.edu	37	chr19	18420657	18420657	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tagcactcgggcatccgccaGaacttgtccccgtcctgcgg	11	16	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:18420657G>C	uc002niq.2	-	4	330	c.159C>G	c.(157-159)TTC>TTG	p.F53L		NM_012321	NP_036453	Q9Y4Z0	LSM4_HUMAN	U6 snRNA-associated Sm-like protein 4	53					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|mRNA processing|RNA splicing	cytosol|U6 snRNP	protein binding|RNA binding				0						GCATCCGCCAGAACTTGTCCC	0.642													8	19	---	---	---	---	PASS	C	18420657	C	C	18420657	3	2	75	1	0	0	0	0	1	0	0	0	9058	933	33	2	268	2	LSM4	19	18420657	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	2502590	18420657	40708326	179	28602										
ZNF431	170959	broad.mit.edu	37	chr19	21366407	21366407	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctacaaatgtgaagaatgtgGcaaagcttttaaccggtccc	9	9	0	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:21366407G>T	uc002npp.2	+	5	1448	c.1301G>T	c.(1300-1302)GGC>GTC	p.G434V	ZNF431_uc010ecq.2_Missense_Mutation_p.G343V|ZNF431_uc010ecr.2_Missense_Mutation_p.G435V	NM_133473	NP_597730	Q8TF32	ZN431_HUMAN	zinc finger protein 431	434	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2						GAAGAATGTGGCAAAGCTTTT	0.393													14	29	---	---	---	---	PASS	T	21366407	T	T	21366407	3	4	75	1	0	0	0	0	1	0	0	0	17902	1203	42	3	1319	3	ZNF431	19	21366407	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	2945750	21366407	37762576	180	28603										
ZNF708	7562	broad.mit.edu	37	chr19	21477005	21477005	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aaaagctttgccacattcttCacatttgtagagtttctctc	5	10	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:21477005C>A	uc002npq.1	-	4	961	c.763G>T	c.(763-765)GAA>TAA	p.E255*	ZNF708_uc002npr.1_Nonsense_Mutation_p.E191*|ZNF708_uc010ecs.1_Nonsense_Mutation_p.E191*	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	255	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						CCACATTCTTCACATTTGTAG	0.373													15	46	---	---	---	---	PASS	A	21477005	A	A	21477005	4	1	75	1	0	0	0	0	0	1	0	0	18109	835	29	2	932	2	ZNF708	19	21477005	Nonsense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	110598	21477005	37651978	181	28604										
LSM14A	26065	broad.mit.edu	37	chr19	34712411	34712411	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gattatttgcttttataataGagaacggagaccaacctggg	10	6	0	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:34712411G>C	uc002nvb.3	+	9	1333	c.1137_splice	c.e9-1	p.R379_splice	LSM14A_uc002nva.3_Splice_Site_p.R379_splice|LSM14A_uc010xru.1_Splice_Site_p.R338_splice|LSM14A_uc002nvc.3_Splice_Site_p.R185_splice	NM_001114093	NP_001107565	Q8ND56	LS14A_HUMAN	LSM14 homolog A isoform a						cytoplasmic mRNA processing body assembly|multicellular organismal development|regulation of translation	cytoplasmic mRNA processing body|intracellular membrane-bounded organelle|stress granule				skin(1)	1	Esophageal squamous(110;0.162)					TTTTATAATAGAGAACGGAGA	0.408													18	19	---	---	---	---	PASS	C	34712411	C	C	34712411	5	2	75	1	0	0	0	0	0	0	1	0	9054	956	33	2	1170	2	LSM14A	19	34712411	Splice_Site	SNP	G	TCGA-34-5929-01A-11D-1817-08	13235406	34712411	24416572	182	28605										
MAG	4099	broad.mit.edu	37	chr19	35790486	35790486	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	acatcgtggtgcccccagagGtggtggcaggcacggaggtg	18	10	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:35790486G>A	uc002nyy.1	+	5	594	c.445G>A	c.(445-447)GTG>ATG	p.V149M	MAG_uc002nyx.1_Missense_Mutation_p.V149M|MAG_uc010eds.1_Missense_Mutation_p.V124M|MAG_uc002nyz.1_Missense_Mutation_p.V149M	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	149	Ig-like C2-type 1.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GCCCCCAGAGGTGGTGGCAGG	0.682													7	14	---	---	---	---	PASS	A	35790486	A	A	35790486	3	1	75	1	0	0	0	0	1	0	0	0	9162	1261	44	3	455	3	MAG	19	35790486	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	1078075	35790486	23338497	183	28606										
PRODH2	58510	broad.mit.edu	37	chr19	36303141	36303141	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gacaggtccacacaccgcagCatagcaccgaggttcccctc	9	17	0	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:36303141C>T	uc002obx.1	-	4	651	c.633G>A	c.(631-633)ATG>ATA	p.M211I		NM_021232	NP_067055	Q9UF12	PROD2_HUMAN	kidney and liver proline oxidase 1	211					glutamate biosynthetic process|proline catabolic process		proline dehydrogenase activity			ovary(2)	2	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CACACCGCAGCATAGCACCGA	0.672													32	45	---	---	---	---	PASS	T	36303141	T	T	36303141	3	4	75	1	0	0	0	0	1	0	0	0	12549	710	25	3	1009	3	PRODH2	19	36303141	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	512655	36303141	22825842	184	28607										
NPHS1	4868	broad.mit.edu	37	chr19	36322604	36322604	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ccccgacacaggaggcattgGagaggagcagaagcccccca	13	14	0	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:36322604G>T	uc002oby.2	-	24	3227	c.3227C>A	c.(3226-3228)TCC>TAC	p.S1076Y	NPHS1_uc010eem.1_Intron	NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	1076	Helical; (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGAGGCATTGGAGAGGAGCAG	0.647													5	8	---	---	---	---	PASS	T	36322604	T	T	36322604	3	4	75	1	0	0	0	0	1	0	0	0	10582	1174	41	2	522	2	NPHS1	19	36322604	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	19463	36322604	22806379	185	28608										
PLEKHG2	64857	broad.mit.edu	37	chr19	39914208	39914208	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cagcgggcggagactcgggcAtcagccaatgccccgcgccg	15	16	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:39914208A>G	uc010xuz.1	+	18	2839	c.2514A>G	c.(2512-2514)GCA>GCG	p.A838A	PLEKHG2_uc010xuy.1_Silent_p.A779A|PLEKHG2_uc002olj.2_Intron|PLEKHG2_uc010xva.1_Silent_p.A616A	NM_022835	NP_073746	Q9H7P9	PKHG2_HUMAN	common-site lymphoma/leukemia guanine nucleotide	838					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			skin(2)|pancreas(1)|breast(1)	4	all_cancers(60;3.08e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;6.57e-07)|Ovarian(47;0.0569)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			AGACTCGGGCATCAGCCAATG	0.697													3	8	---	---	---	---	PASS	G	39914208	G	G	39914208	2	3	75	1	0	0	0	0	0	0	0	1	12069	204	8	5		5	PLEKHG2	19	39914208	Silent	SNP	A	TCGA-34-5929-01A-11D-1817-08	3591604	39914208	19214775	186	28609										
GRIN2D	2906	broad.mit.edu	37	chr19	48945536	48945536	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	catgctcctggtggccatggGcctgtccctgctggtcttcg	13	14	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:48945536G>T	uc002pjc.3	+	12	2658	c.2570G>T	c.(2569-2571)GGC>GTC	p.G857V	GRIN2D_uc010elx.2_Missense_Mutation_p.G92V	NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	857	Helical; (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		all_epithelial(76;1.11e-06)|all_lung(116;5.79e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		all cancers(93;0.00014)|OV - Ovarian serous cystadenocarcinoma(262;0.000233)|Epithelial(262;0.0112)|GBM - Glioblastoma multiforme(486;0.0161)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	GTGGCCATGGGCCTGTCCCTG	0.622													57	110	---	---	---	---	PASS	T	48945536	T	T	48945536	3	4	75	1	0	0	0	0	1	0	0	0	6782	1203	42	3	2612	3	GRIN2D	19	48945536	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	9031328	48945536	10183447	187	28610										
BCAT2	587	broad.mit.edu	37	chr19	49300560	49300560	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cagccccgcttgagtgcctcCtgttgcactaacacggtggg	12	14	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:49300560C>A	uc002pkr.2	-	7	763	c.726G>T	c.(724-726)CAG>CAT	p.Q242H	BCAT2_uc002pkp.2_Missense_Mutation_p.Q202H|BCAT2_uc002pkq.3_Missense_Mutation_p.Q202H|BCAT2_uc002pks.2_Missense_Mutation_p.Q202H|BCAT2_uc002pkt.2_Missense_Mutation_p.Q150H|BCAT2_uc010emh.1_Missense_Mutation_p.Q242H|BCAT2_uc010emi.1_Missense_Mutation_p.Q150H	NM_001190	NP_001181	O15382	BCAT2_HUMAN	branched chain aminotransferase 2, mitochondrial	242						mitochondrial matrix	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			ovary(1)	1		all_epithelial(76;7e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000138)|all cancers(93;0.000366)|Epithelial(262;0.0195)|GBM - Glioblastoma multiforme(486;0.0224)	L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|Pyridoxal Phosphate(DB00114)	TGAGTGCCTCCTGTTGCACTA	0.622													12	29	---	---	---	---	PASS	A	49300560	A	A	49300560	3	1	75	1	0	0	0	0	1	0	0	0	1355	680	24	3	472	3	BCAT2	19	49300560	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	355024	49300560	9828423	188	28611										
BRSK1	84446	broad.mit.edu	37	chr19	55814114	55814114	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tggagccagcccctggccgcCgggtagccatgcggagcctg	16	15	0	0	rs144130246		TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:55814114C>T	uc002qkg.2	+	10	1184	c.907C>T	c.(907-909)CGG>TGG	p.R303W	BRSK1_uc002qkf.2_Missense_Mutation_p.R319W|BRSK1_uc002qkh.2_5'UTR	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	303			R -> W (in a gastric adenocarcinoma sample; somatic mutation).		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	p.R303W(1)		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)		CCCTGGCCGCCGGGTAGCCAT	0.632													4	95	---	---	---	---	PASS	T	55814114	T	T	55814114	3	4	75	1	0	0	0	0	1	0	0	0	1523	643	23	1	945	1	BRSK1	19	55814114	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	6513554	55814114	3314869	189	28612										
ZNF667	63934	broad.mit.edu	37	chr19	56952825	56952825	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	attctttcatgttgggcgagGtgtgcactctggctgaaggc	14	8	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr19:56952825G>C	uc002qnd.2	-	5	1701	c.1539C>G	c.(1537-1539)CAC>CAG	p.H513Q	ZNF667_uc010etl.2_Missense_Mutation_p.H295Q|ZNF667_uc002qne.2_Missense_Mutation_p.H513Q|ZNF667_uc010etm.2_Missense_Mutation_p.H456Q	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	513	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		GTTGGGCGAGGTGTGCACTCT	0.443													27	45	---	---	---	---	PASS	C	56952825	C	C	56952825	3	2	75	1	0	0	0	0	1	0	0	0	18071	1252	44	4	297	4	ZNF667	19	56952825	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	1138711	56952825	2176158	190	28613										
KIF16B	55614	broad.mit.edu	37	chr20	16336978	16336978	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gtcaagaagacactcaccttGacctcaaactcgaagtgtgc	8	12	3	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr20:16336978G>A	uc002wpg.1	-	23	3776	c.3618C>T	c.(3616-3618)GTC>GTT	p.V1206V	KIF16B_uc002wpe.1_Silent_p.V588V|KIF16B_uc002wpf.1_Intron|KIF16B_uc010gch.1_Silent_p.V1155V	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	1206	PX.				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			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						CACTCACCTTGACCTCAAACT	0.463													31	53	---	---	---	---	PASS	A	16336978	A	A	16336978	2	1	75	1	0	0	0	0	0	0	0	1	8278	1277	45	2		2	KIF16B	20	16336978	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08		16336978	46688542	191	28614										
PYGB	5834	broad.mit.edu	37	chr20	25239970	25239970	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgcctgcgatgaagccatctAtcaggtacagagcctcatgg	11	11	3	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr20:25239970A>T	uc002wup.2	+	2	450	c.341A>T	c.(340-342)TAT>TTT	p.Y114F		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	114					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	GAAGCCATCTATCAGGTACAG	0.532													4	66	---	---	---	---	PASS	T	25239970	T	T	25239970	3	4	75	1	0	0	0	0	1	0	0	0	12860	449	16	5	347	5	PYGB	20	25239970	Missense_Mutation	SNP	A	TCGA-34-5929-01A-11D-1817-08	8902992	25239970	37785550	192	28615										
C20orf160	140706	broad.mit.edu	37	chr20	30610466	30610466	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cctcctccctgggccaggacGctgcagaggagtcctgcgca	13	16	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr20:30610466G>A	uc002wxf.2	+	6	950	c.937G>A	c.(937-939)GCT>ACT	p.A313T	C20orf160_uc002wxg.2_5'UTR	NM_080625	NP_542192	Q9NUG4	CT160_HUMAN	hypothetical protein LOC140706	313										central_nervous_system(3)|ovary(1)	4						GGGCCAGGACGCTGCAGAGGA	0.542													7	167	---	---	---	---	PASS	A	30610466	A	A	30610466	3	1	75	1	0	0	0	0	1	0	0	0	2093	1087	38	1	959	1	C20orf160	20	30610466	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	5370496	30610466	32415054	193	28616										
CHD6	84181	broad.mit.edu	37	chr20	40043904	40043904	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	acatgtttccgcctccctctCcgcctcctcgtggctgcatc	7	19	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr20:40043904C>A	uc002xka.1	-	34	7039	c.6861G>T	c.(6859-6861)CGG>CGT	p.R2287R	CHD6_uc002xjz.1_5'Flank	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2287	Poly-Arg.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				GCCTCCCTCTCCGCCTCCTCG	0.517													62	98	---	---	---	---	PASS	A	40043904	A	A	40043904	2	1	75	1	0	0	0	0	0	0	0	1	3329	842	30	2		2	CHD6	20	40043904	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	9433438	40043904	22981616	194	28617										
JPH2	57158	broad.mit.edu	37	chr20	42789044	42789044	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tggtgaactggccttggtacGtccctgcgggcgaggagagg	18	9	0	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr20:42789044G>A	uc002xli.1	-	2	1256	c.383C>T	c.(382-384)ACG>ATG	p.T128M		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	128	MORN 5.|Gly-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			GCCTTGGTACGTCCCTGCGGG	0.721													9	13	---	---	---	---	PASS	A	42789044	A	A	42789044	3	1	75	1	0	0	0	0	1	0	0	0	7961	1145	40	1	1723	1	JPH2	20	42789044	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	2745140	42789044	20236476	195	28618										
SULF2	55959	broad.mit.edu	37	chr20	46301014	46301014	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gctgtcacaggtgcaggcctCgctgccctgcccgtagtact	12	15	1	0	rs143133611	byFrequency	TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr20:46301014C>T	uc002xto.2	-	11	1834	c.1504G>A	c.(1504-1506)GAG>AAG	p.E502K	SULF2_uc002xtr.2_Missense_Mutation_p.E502K|SULF2_uc002xtq.2_Missense_Mutation_p.E502K	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	502					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						GTGCAGGCCTCGCTGCCCTGC	0.617													33	44	---	---	---	---	PASS	T	46301014	T	T	46301014	3	4	75	1	0	0	0	0	1	0	0	0	15370	893	31	2	1152	2	SULF2	20	46301014	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	3511970	46301014	16724506	196	28619										
FAM65C	140876	broad.mit.edu	37	chr20	49214214	49214214	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gatgcactccatcaggctctCggccgaggtgtgctcctgcc	12	15	2	0	rs150234701	byFrequency	TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr20:49214214C>A	uc002xvm.2	-	14	1999	c.1681G>T	c.(1681-1683)GAG>TAG	p.E561*	FAM65C_uc010zyt.1_Nonsense_Mutation_p.E565*|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Nonsense_Mutation_p.E561*	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	561										ovary(2)	2						ATCAGGCTCTCGGCCGAGGTG	0.662													9	13	---	---	---	---	PASS	A	49214214	A	A	49214214	4	1	75	1	0	0	0	0	0	1	0	0	5601	893	31	2	1195	2	FAM65C	20	49214214	Nonsense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	2913200	49214214	13811306	197	28620										
TSHZ2	128553	broad.mit.edu	37	chr20	51870967	51870967	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tcaccccggctaagaaacgcGtttttgatgtcaatcggccg	10	12	2	2	rs138844500	byFrequency	TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr20:51870967G>T	uc002xwo.2	+	2	1926	c.970G>T	c.(970-972)GTT>TTT	p.V324F		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	324					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			TAAGAAACGCGTTTTTGATGT	0.458													73	91	---	---	---	---	PASS	T	51870967	T	T	51870967	3	4	75	1	0	0	0	0	1	0	0	0	16621	1145	40	1	976	1	TSHZ2	20	51870967	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	2656753	51870967	11154553	198	28621										
ADAMTS1	9510	broad.mit.edu	37	chr21	28214679	28214679	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgtctggtgaaaagaattgcTgtgtcatagtgctctgcatc	11	7	3	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr21:28214679T>C	uc002ymf.2	-	2	1511	c.1056A>G	c.(1054-1056)ACA>ACG	p.T352T		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	352	Peptidase M12B.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		AAAGAATTGCTGTGTCATAGT	0.493													18	34	---	---	---	---	PASS	C	28214679	C	C	28214679	2	2	75	1	0	0	0	0	0	0	0	1	255	1567	55	5		5	ADAMTS1	21	28214679	Silent	SNP	T	TCGA-34-5929-01A-11D-1817-08		28214679	19915216	199	28622										
ZNF280A	129025	broad.mit.edu	37	chr22	22869796	22869796	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gaaacgactggttttgaattTgaaatcatcccgacaaagag	9	7	1	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr22:22869796T>C	uc002zwe.2	-	2	412	c.159A>G	c.(157-159)TCA>TCG	p.S53S	LOC96610_uc011aim.1_Intron	NM_080740	NP_542778	P59817	Z280A_HUMAN	zinc finger protein 280A	53					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		GTTTTGAATTTGAAATCATCC	0.438													32	68	---	---	---	---	PASS	C	22869796	C	C	22869796	2	2	75	1	0	0	0	0	0	0	0	1	17811	1799	63	5		5	ZNF280A	22	22869796	Silent	SNP	T	TCGA-34-5929-01A-11D-1817-08		22869796	28434770	200	28623										
RAB36	9609	broad.mit.edu	37	chr22	23487634	23487634	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cgcccacgacgtcgacgattCgtgtagcccgcaggtcccgc	12	17	0	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr22:23487634C>T	uc002zwv.1	+	1	122	c.82C>T	c.(82-84)CGT>TGT	p.R28C	RAB36_uc010gtw.1_Missense_Mutation_p.R28C	NM_004914	NP_004905	O95755	RAB36_HUMAN	RAB36, member RAS oncogene family	28					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.155)		GTCGACGATTCGTGTAGCCCG	0.677													43	66	---	---	---	---	PASS	T	23487634	T	T	23487634	3	4	75	1	0	0	0	0	1	0	0	0	12926	884	31	2	84	2	RAB36	22	23487634	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	617838	23487634	27816932	201	28624										
SGSM1	129049	broad.mit.edu	37	chr22	25251545	25251545	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aggcattccagtggcagcatGgatgaccggccatccctctc	11	14	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr22:25251545G>C	uc003abg.2	+	8	856	c.699G>C	c.(697-699)ATG>ATC	p.M233I	SGSM1_uc003abh.2_Missense_Mutation_p.M233I|SGSM1_uc010guu.1_Missense_Mutation_p.M233I|SGSM1_uc003abj.2_Missense_Mutation_p.M233I|SGSM1_uc003abi.1_Missense_Mutation_p.M208I|SGSM1_uc003abf.2_Missense_Mutation_p.M233I	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	233						Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						GTGGCAGCATGGATGACCGGC	0.572													14	24	---	---	---	---	PASS	C	25251545	C	C	25251545	3	2	75	1	0	0	0	0	1	0	0	0	14222	1348	47	4	729	4	SGSM1	22	25251545	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	1763911	25251545	26053021	202	28625										
BPIL2	254240	broad.mit.edu	37	chr22	32828430	32828430	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gcatcatgatggaggcagggAtgtccagggtgaaattgcct	15	7	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr22:32828430A>G	uc003amn.2	-	10	1079	c.1079T>C	c.(1078-1080)ATC>ACC	p.I360T	BPIL2_uc010gwo.2_Intron|BPIL2_uc011amb.1_Missense_Mutation_p.I84T	NM_174932	NP_777592	Q8NFQ6	BPIL2_HUMAN	bactericidal/permeability-increasing	360						extracellular region	lipopolysaccharide binding|phospholipid binding			ovary(1)|skin(1)	2						GGAGGCAGGGATGTCCAGGGT	0.512													52	109	---	---	---	---	PASS	G	32828430	G	G	32828430	3	3	75	1	0	0	0	0	1	0	0	0	1492	333	12	5	468	5	BPIL2	22	32828430	Missense_Mutation	SNP	A	TCGA-34-5929-01A-11D-1817-08	7576885	32828430	18476136	203	28626										
ELFN2	114794	broad.mit.edu	37	chr22	37771493	37771493	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cacgtagcccttgtcgccctCaatgagccagcagtcggcac	10	16	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chr22:37771493C>G	uc003asq.3	-	3	868	c.82G>C	c.(82-84)GAG>CAG	p.E28Q		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	28	Extracellular (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					TTGTCGCCCTCAATGAGCCAG	0.692													10	16	---	---	---	---	PASS	G	37771493	G	G	37771493	3	3	75	1	0	0	0	0	1	0	0	0	5058	835	29	2	2384	2	ELFN2	22	37771493	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	4943063	37771493	13533073	204	28627										
ATXN3L	92552	broad.mit.edu	37	chrX	13337109	13337109	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tcaattgctctcgaacttgtTgttggcctttcgtgtaggta	10	8	2	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:13337109T>C	uc010ned.2	-	1	1410	c.945A>G	c.(943-945)ACA>ACG	p.T315T		NM_001135995	NP_001129467	Q9H3M9	ATX3L_HUMAN	ataxin 3-like	315					protein deubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ubiquitin-specific protease activity			lung(2)|ovary(2)|large_intestine(1)|skin(1)	6						TCGAACTTGTTGTTGGCCTTT	0.438													104	143	---	---	---	---	PASS	C	13337109	C	C	13337109	2	2	75	1	0	0	0	0	0	0	0	1	1214	1799	63	5		5	ATXN3L	23	13337109	Silent	SNP	T	TCGA-34-5929-01A-11D-1817-08		13337109	141933451	205	28628										
BEND2	139105	broad.mit.edu	37	chrX	18189190	18189190	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cagattgccatagacgttacTttggaccaggacatcttttg	9	9	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:18189190T>A	uc004cyj.3	-	13	2270	c.2116A>T	c.(2116-2118)AGT>TGT	p.S706C	BEND2_uc010nfb.2_Missense_Mutation_p.S615C	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	706	BEN 2.									ovary(3)|kidney(1)|central_nervous_system(1)	5						TAGACGTTACTTTGGACCAGG	0.438													118	207	---	---	---	---	PASS	A	18189190	A	A	18189190	3	1	75	1	0	0	0	0	1	0	0	0	1398	1609	56	5	317	5	BEND2	23	18189190	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	4852081	18189190	137081370	206	28629										
PHKA2	5256	broad.mit.edu	37	chrX	18915420	18915420	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctcccgagtctgaggatgacGtgccagtgggcgaggatggg	18	9	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:18915420G>T	uc004cyv.3	-	30	3573	c.3143C>A	c.(3142-3144)ACG>AAG	p.T1048K	PHKA2_uc004cyu.3_Missense_Mutation_p.T354K|PHKA2_uc010nfe.1_Missense_Mutation_p.T80K|PHKA2_uc010nff.1_RNA	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	1048					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					TGAGGATGACGTGCCAGTGGG	0.657													19	48	---	---	---	---	PASS	T	18915420	T	T	18915420	3	4	75	1	0	0	0	0	1	0	0	0	11844	1145	40	1	580	1	PHKA2	23	18915420	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	726230	18915420	136355140	207	28630										
PDHA1	5160	broad.mit.edu	37	chrX	19371288	19371288	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggcaatggcatcgtgggagcGcaggtagtcaaggacgagga	18	7	1	0	rs141862527	byFrequency	TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:19371288G>T	uc004czg.3	+	5	652	c.507G>T	c.(505-507)GCG>GCT	p.A169A	PDHA1_uc004czh.3_Silent_p.A204A|PDHA1_uc011mjc.1_Silent_p.A173A|PDHA1_uc011mjd.1_Silent_p.A166A|PDHA1_uc010nfk.2_Silent_p.A166A|PDHA1_uc010nfl.2_5'Flank	NM_000284	NP_000275	P08559	ODPA_HUMAN	pyruvate dehydrogenase E1 alpha 1 precursor	169					glycolysis|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	protein binding|pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)	1	Hepatocellular(33;0.183)				NADH(DB00157)	TCGTGGGAGCGCAGGTAGTCA	0.488													45	71	---	---	---	---	PASS	T	19371288	T	T	19371288	2	4	75	1	0	0	0	0	0	0	0	1	11664	1074	38	1		1	PDHA1	23	19371288	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	455868	19371288	135899272	208	28631										
MAP3K15	389840	broad.mit.edu	37	chrX	19398259	19398259	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttgaacatggctgcctgcggCtcaccaagctcatggaacgg	12	12	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:19398259C>T	uc004czk.1	-	20	2630	c.993G>A	c.(991-993)GAG>GAA	p.E331E	MAP3K15_uc004czj.1_Silent_p.E291E	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	856	Protein kinase.						ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					CTGCCTGCGGCTCACCAAGCT	0.453													12	24	---	---	---	---	PASS	T	19398259	T	T	19398259	2	4	75	1	0	0	0	0	0	0	0	1	9249	796	28	3		3	MAP3K15	23	19398259	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	26971	19398259	135872301	209	28632										
POLA1	5422	broad.mit.edu	37	chrX	24733279	24733279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aagctgtagacttgtccaagGatggtctgctaggtgacatt	12	7	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:24733279G>T	uc004dbl.2	+	6	489	c.466G>T	c.(466-468)GAT>TAT	p.D156Y	POLA1_uc004dbm.2_Missense_Mutation_p.D162Y|POLA1_uc004dbn.2_Missense_Mutation_p.D20Y	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	156					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	CTTGTCCAAGGATGGTCTGCT	0.383													62	106	---	---	---	---	PASS	T	24733279	T	T	24733279	3	4	75	1	0	0	0	0	1	0	0	0	12187	1174	41	2	488	2	POLA1	23	24733279	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	5335020	24733279	130537281	210	28633										
MAGEB2	4113	broad.mit.edu	37	chrX	30237172	30237172	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tcctcaagaaagcctctgagGgcctcagtgttgtctttggc	11	11	4	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:30237172G>T	uc004dbz.2	+	2	578	c.475G>T	c.(475-477)GGC>TGC	p.G159C		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	159	MAGE.						protein binding			ovary(1)	1						AGCCTCTGAGGGCCTCAGTGT	0.458													23	30	---	---	---	---	PASS	T	30237172	T	T	30237172	3	4	75	1	0	0	0	0	1	0	0	0	9176	1232	43	3	477	3	MAGEB2	23	30237172	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	5503893	30237172	125033388	211	28634										
DMD	1756	broad.mit.edu	37	chrX	32328381	32328381	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	catcaccatcatcgtttcttCacggacagtgtgctggtata	8	11	4	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:32328381C>T	uc004dda.1	-	42	6179	c.5935G>A	c.(5935-5937)GAA>AAA	p.E1979K	DMD_uc004dcw.2_Missense_Mutation_p.E635K|DMD_uc004dcx.2_Missense_Mutation_p.E638K|DMD_uc004dcz.2_Missense_Mutation_p.E1856K|DMD_uc004dcy.1_Missense_Mutation_p.E1975K|DMD_uc004ddb.1_Missense_Mutation_p.E1971K|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1979	Spectrin 13.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				ATCGTTTCTTCACGGACAGTG	0.368													20	27	---	---	---	---	PASS	T	32328381	T	T	32328381	3	4	75	1	0	0	0	0	1	0	0	0	4580	835	29	2	5422	2	DMD	23	32328381	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	2091209	32328381	122942179	212	28635										
TSPAN7	7102	broad.mit.edu	37	chrX	38546900	38546900	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctgtcccggttcatcacggcCaatcagtatgagatggtgta	11	10	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:38546900C>A	uc004deg.3	+	7	798	c.729C>A	c.(727-729)GCC>GCA	p.A243A	TSPAN7_uc011mkj.1_Silent_p.A269A|TSPAN7_uc011mkk.1_Silent_p.A260A|TSPAN7_uc004deh.2_Silent_p.A151A	NM_004615	NP_004606	P41732	TSN7_HUMAN	tetraspanin 7	243	Cytoplasmic (Potential).				interspecies interaction between organisms	integral to plasma membrane				ovary(1)	1						TCATCACGGCCAATCAGTATG	0.493													19	35	---	---	---	---	PASS	A	38546900	A	A	38546900	2	1	75	1	0	0	0	0	0	0	0	1	16649	581	21	3		3	TSPAN7	23	38546900	Silent	SNP	C	TCGA-34-5929-01A-11D-1817-08	6218519	38546900	116723660	213	28636										
BCOR	54880	broad.mit.edu	37	chrX	39922016	39922016	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	taccttgccatcggcattctCcacgtagtattcccctgtca	6	15	2	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:39922016C>G	uc004den.3	-	9	4448	c.4156G>C	c.(4156-4158)GAG>CAG	p.E1386Q	BCOR_uc004dep.3_Missense_Mutation_p.E1352Q|BCOR_uc004deo.3_Missense_Mutation_p.E1334Q|BCOR_uc010nhb.2_Missense_Mutation_p.E94Q|BCOR_uc004dem.3_Missense_Mutation_p.E1352Q	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	1386					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						TCGGCATTCTCCACGTAGTAT	0.587													13	37	---	---	---	---	PASS	G	39922016	G	G	39922016	3	3	75	1	0	0	0	0	1	0	0	0	1386	864	30	2	1139	2	BCOR	23	39922016	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	1375116	39922016	115348544	214	28637										
USP9X	8239	broad.mit.edu	37	chrX	41056655	41056655	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggagaaacgggtattgaagaGacgatcttagagggccacct	14	7	1	4			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:41056655G>C	uc004dfb.2	+	29	4905	c.4272G>C	c.(4270-4272)GAG>GAC	p.E1424D	USP9X_uc004dfc.2_Missense_Mutation_p.E1424D	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1424					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						GTATTGAAGAGACGATCTTAG	0.458													15	32	---	---	---	---	PASS	C	41056655	C	C	41056655	3	2	75	1	0	0	0	0	1	0	0	0	17087	933	33	2	4382	2	USP9X	23	41056655	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	1134639	41056655	114213905	215	28638										
USP9X	8239	broad.mit.edu	37	chrX	41064718	41064718	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cttctcgactgcaatactatGtgcccagaggattttggaaa	9	9	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:41064718G>C	uc004dfb.2	+	32	5620	c.4987G>C	c.(4987-4989)GTG>CTG	p.V1663L	USP9X_uc004dfc.2_Missense_Mutation_p.V1663L	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1663					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						GCAATACTATGTGCCCAGAGG	0.363													69	126	---	---	---	---	PASS	C	41064718	C	C	41064718	3	2	75	1	0	0	0	0	1	0	0	0	17087	1377	48	4	5109	4	USP9X	23	41064718	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	8063	41064718	114205842	216	28639										
SYP	6855	broad.mit.edu	37	chrX	49055482	49055482	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgaccacccggaactgacccCcagccaccagctgaggagag	11	16	0	4			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:49055482C>A	uc004dmz.1	-	2	63	c.47G>T	c.(46-48)GGG>GTG	p.G16V	SYP_uc011mmz.1_5'UTR|SYP_uc004dna.1_Missense_Mutation_p.G10V	NM_003179	NP_003170	P08247	SYPH_HUMAN	synaptophysin	16	Cytoplasmic (Potential).				regulation of long-term neuronal synaptic plasticity|regulation of short-term neuronal synaptic plasticity|synaptic vesicle maturation|synaptic vesicle membrane organization	cell junction|integral to synaptic vesicle membrane|synaptosome	calcium ion binding|cholesterol binding|transporter activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(315;0.00016)				GAACTGACCCCCAGCCACCAG	0.632													17	30	---	---	---	---	PASS	A	49055482	A	A	49055482	3	1	75	1	0	0	0	0	1	0	0	0	15458	623	22	3	914	3	SYP	23	49055482	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	7990764	49055482	106215078	217	28640										
GNL3L	54552	broad.mit.edu	37	chrX	54565501	54565501	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aagccaggtgaaggttccaaGggccacaagaagataagttg	13	7	0	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:54565501G>A	uc004dth.1	+	3	187	c.48G>A	c.(46-48)AAG>AAA	p.K16K	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	16	Required for nucleolar localization.				ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						AAGGTTCCAAGGGCCACAAGA	0.438													9	20	---	---	---	---	PASS	A	54565501	A	A	54565501	2	1	75	1	0	0	0	0	0	0	0	1	6538	991	35	3		3	GNL3L	23	54565501	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	5510019	54565501	100705059	218	28641			1	33		2	2	13	G		9.109096e-05
GNL3L	54552	broad.mit.edu	37	chrX	54565513	54565513	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggttccaagggccacaagaaGataagttggccctaccctca	10	12	1	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:54565513G>T	uc004dth.1	+	3	199	c.60G>T	c.(58-60)AAG>AAT	p.K20N	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	20	Required for nucleolar localization.			KK->AA: Loss of nuclear location; when associated with 9-A-A-10. Loss of nuclear location; when associated with 34-A-A-35.	ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						GCCACAAGAAGATAAGTTGGC	0.433													8	17	---	---	---	---	PASS	T	54565513	T	T	54565513	3	4	75	1	0	0	0	0	1	0	0	0	6538	933	33	2	66	2	GNL3L	23	54565513	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	12	54565513	100705047	219	28642			1	33		2	2	13	G		9.109096e-05
ITIH5L	347365	broad.mit.edu	37	chrX	54784647	54784647	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gaggtggaagtctgtctcctGgtctcctcactggcctgttt	12	11	4	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:54784647G>T	uc004dtj.2	-	8	1890	c.1860C>A	c.(1858-1860)ACC>ACA	p.T620T		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	620					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						TCTGTCTCCTGGTCTCCTCAC	0.567													20	38	---	---	---	---	PASS	T	54784647	T	T	54784647	2	4	75	1	0	0	0	0	0	0	0	1	7908	1335	47	3		3	ITIH5L	23	54784647	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	219134	54784647	100485913	220	28643										
PAGE2B	389860	broad.mit.edu	37	chrX	55102489	55102489	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggaaatatgagtgagcatgtGagaacaagatcccaatcctc	10	8	0	4			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:55102489G>C	uc004due.2	+	2	67	c.15G>C	c.(13-15)GTG>GTC	p.V5V		NM_001015038	NP_001015038	Q5JRK9	GGEE3_HUMAN	P antigen family, member 2B	5											0						GTGAGCATGTGAGAACAAGAT	0.363													18	43	---	---	---	---	PASS	C	55102489	C	C	55102489	2	2	75	1	0	0	0	0	0	0	0	1	11391	1277	45	2		2	PAGE2B	23	55102489	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	317842	55102489	100168071	221	28644										
FAM123B	139285	broad.mit.edu	37	chrX	63412739	63412739	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctccagccacagatgtcttaCatctggagcctgtctccaaa	7	14	3	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:63412739C>A	uc004dvo.2	-	2	701	c.428G>T	c.(427-429)TGT>TTT	p.C143F		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	143					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						AGATGTCTTACATCTGGAGCC	0.517													16	61	---	---	---	---	PASS	A	63412739	A	A	63412739	3	1	75	1	0	0	0	0	1	0	0	0	5423	478	17	3	2983	3	FAM123B	23	63412739	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	8310250	63412739	91857821	222	28645										
SLC7A3	84889	broad.mit.edu	37	chrX	70148757	70148757	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ttctgcaaggacatggggcaCgtgcagtgcaatggacccct	13	11	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:70148757C>A	uc004dyn.2	-	3	624	c.466G>T	c.(466-468)GTG>TTG	p.V156L	SLC7A3_uc004dyo.2_Missense_Mutation_p.V156L	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	156	Extracellular (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	ACATGGGGCACGTGCAGTGCA	0.552													42	42	---	---	---	---	PASS	A	70148757	A	A	70148757	3	1	75	1	0	0	0	0	1	0	0	0	14698	536	19	1	1433	1	SLC7A3	23	70148757	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	6736018	70148757	85121803	223	28646										
TAF1	6872	broad.mit.edu	37	chrX	70602911	70602911	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggggcccatcaaactccggcAgttccatcgcccacctctga	9	17	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:70602911A>C	uc004dzu.3	+	12	1892	c.1841A>C	c.(1840-1842)CAG>CCG	p.Q614P	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.Q635P	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	614					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				AAACTCCGGCAGTTCCATCGC	0.473													23	37	---	---	---	---	PASS	C	70602911	C	C	70602911	3	2	75	1	0	0	0	0	1	0	0	0	15510	188	7	5	1950	5	TAF1	23	70602911	Missense_Mutation	SNP	A	TCGA-34-5929-01A-11D-1817-08	454154	70602911	84667649	224	28647										
PHKA1	5255	broad.mit.edu	37	chrX	71822070	71822070	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgttttggttgctccaacagCaccaatctcgtggatagaaa	9	9	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:71822070C>T	uc004eax.3	-	27	3272	c.2971G>A	c.(2971-2973)GCT>ACT	p.A991T	PHKA1_uc004eay.3_Missense_Mutation_p.A991T|PHKA1_uc011mqi.1_Missense_Mutation_p.A932T	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	991					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					GCTCCAACAGCACCAATCTCG	0.413													19	44	---	---	---	---	PASS	T	71822070	T	T	71822070	3	4	75	1	0	0	0	0	1	0	0	0	11843	710	25	3	724	3	PHKA1	23	71822070	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	1219159	71822070	83448490	225	28648										
ITM2A	9452	broad.mit.edu	37	chrX	78618459	78618459	+	Frame_Shift_Del	DEL	T	-	-													0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	cttttcaaagtcatgaataaTtgctgcagggtcactatcag							TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:78618459delT	uc004edh.2	-	3	756	c.421delA	c.(421-423)ATTfs	p.I141fs	ITM2A_uc011mqr.1_Frame_Shift_Del_p.I97fs	NM_004867	NP_004858	O43736	ITM2A_HUMAN	integral membrane protein 2A	141	BRICHOS.					integral to membrane	protein binding			lung(2)	2						TCATGAATAATTGCTGCAGGG	0.408													42	24	---	---	---	---		-	78618459	-	-	78618459	7	5	75	1	0	1	0	1	0	0	0	0	7912	1493	52	0	386	0	ITM2A	23	78618459	Frame_Shift_Del	DEL	T	TCGA-34-5929-01A-11D-1817-08	6796389	78618459	76652101	226	28649										
PCDH11X	27328	broad.mit.edu	37	chrX	91090821	91090821	+	Nonsense_Mutation	SNP	C	A	A													0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	atcccaagggatgagcattgCttttatgaagtggaggttgc							TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:91090821C>A	uc004efk.1	+	1	1163	c.318C>A	c.(316-318)TGC>TGA	p.C106*	PCDH11X_uc004efl.1_Nonsense_Mutation_p.C106*|PCDH11X_uc004efo.1_Nonsense_Mutation_p.C106*|PCDH11X_uc010nmv.1_Nonsense_Mutation_p.C106*|PCDH11X_uc004efm.1_Nonsense_Mutation_p.C106*|PCDH11X_uc004efn.1_Nonsense_Mutation_p.C106*|PCDH11X_uc004efh.1_Nonsense_Mutation_p.C106*|PCDH11X_uc004efj.1_Nonsense_Mutation_p.C106*	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	106	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ATGAGCATTGCTTTTATGAAG	0.403													67	157	---	---	---	---	PASS	A	91090821	A	A	91090821	4	1	75	1	0	0	0	0	0	1	0	0	11508	805	28	3	320	3	PCDH11X	23	91090821	Nonsense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	12472362	91090821	64179739	227	28650	595	2								
PCDH11X	27328	broad.mit.edu	37	chrX	91090822	91090822	+	Missense_Mutation	SNP	T	A	A													0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tcccaagggatgagcattgcTtttatgaagtggaggttgcc							TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:91090822T>A	uc004efk.1	+	1	1164	c.319T>A	c.(319-321)TTT>ATT	p.F107I	PCDH11X_uc004efl.1_Missense_Mutation_p.F107I|PCDH11X_uc004efo.1_Missense_Mutation_p.F107I|PCDH11X_uc010nmv.1_Missense_Mutation_p.F107I|PCDH11X_uc004efm.1_Missense_Mutation_p.F107I|PCDH11X_uc004efn.1_Missense_Mutation_p.F107I|PCDH11X_uc004efh.1_Missense_Mutation_p.F107I|PCDH11X_uc004efj.1_Missense_Mutation_p.F107I	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	107	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TGAGCATTGCTTTTATGAAGT	0.403													66	156	---	---	---	---	PASS	A	91090822	A	A	91090822	3	1	75	1	0	0	0	0	1	0	0	0	11508	1609	56	5	321	5	PCDH11X	23	91090822	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	1	91090822	64179738	228	28651	595	2								
PCDH11X	27328	broad.mit.edu	37	chrX	91642836	91642836	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gcagccttaccagcacatctCatggcctgccccttggctat	8	16	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:91642836C>T	uc004efk.1	+	5	4092	c.3247C>T	c.(3247-3249)CAT>TAT	p.H1083Y	PCDH11X_uc004efl.1_Missense_Mutation_p.H1073Y|PCDH11X_uc004efo.1_Missense_Mutation_p.H1046Y|PCDH11X_uc010nmv.1_Intron|PCDH11X_uc004efm.1_Missense_Mutation_p.H1083Y|PCDH11X_uc004efn.1_Missense_Mutation_p.H1073Y	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1083	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CAGCACATCTCATGGCCTGCC	0.552													66	108	---	---	---	---	PASS	T	91642836	T	T	91642836	3	4	75	1	0	0	0	0	1	0	0	0	11508	826	29	2	3387	2	PCDH11X	23	91642836	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	552014	91642836	63627724	229	28652										
TRMT2B	79979	broad.mit.edu	37	chrX	100265657	100265657	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tgctgcaggacaaagggctcGcctaagagcttcttagcagg	13	10	1	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:100265657G>C	uc004egq.2	-	13	1727	c.1428C>G	c.(1426-1428)GGC>GGG	p.G476G	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Silent_p.G476G|TRMT2B_uc004egs.2_3'UTR|TRMT2B_uc004egt.2_Silent_p.G476G|TRMT2B_uc004egu.2_Silent_p.G357G|TRMT2B_uc004egv.2_Silent_p.G431G	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	476							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						CAAAGGGCTCGCCTAAGAGCT	0.502													49	60	---	---	---	---	PASS	C	100265657	C	C	100265657	2	2	75	1	0	0	0	0	0	0	0	1	16563	1074	38	4		4	TRMT2B	23	100265657	Silent	SNP	G	TCGA-34-5929-01A-11D-1817-08	8622821	100265657	55004903	230	28653										
TCEAL6	158931	broad.mit.edu	37	chrX	101396063	101396063	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ctgggaggctggcttgccctCgccttgtggcttgccctcac	13	15	1	0			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:101396063C>T	uc004eiq.2	-	3	402	c.241G>A	c.(241-243)GAG>AAG	p.E81K		NM_001006938	NP_001006939	Q6IPX3	TCAL6_HUMAN	transcription elongation factor A (SII)-like 6	81					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						GGCTTGCCCTCGCCTTGTGGC	0.502													76	91	---	---	---	---	PASS	T	101396063	T	T	101396063	3	4	75	1	0	0	0	0	1	0	0	0	15672	893	31	2	314	2	TCEAL6	23	101396063	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	1130406	101396063	53874497	231	28654										
IRS4	8471	broad.mit.edu	37	chrX	107976320	107976320	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aaactttgagaacggctttgTgggcgtcttctctcctgctc	10	11	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:107976320T>C	uc004eoc.2	-	1	3288	c.3255A>G	c.(3253-3255)CCA>CCG	p.P1085P		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	1085						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						AACGGCTTTGTGGGCGTCTTC	0.552													68	132	---	---	---	---	PASS	C	107976320	C	C	107976320	2	2	75	1	0	0	0	0	0	0	0	1	7842	1683	59	5		5	IRS4	23	107976320	Silent	SNP	T	TCGA-34-5929-01A-11D-1817-08	6580257	107976320	47294240	232	28655										
WDR44	54521	broad.mit.edu	37	chrX	117540953	117540953	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ggaccttatgattttgatcaGatcaaagtggtgcaagatct	10	6	3	4			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:117540953G>T	uc004eqn.2	+	10	1922	c.1497G>T	c.(1495-1497)CAG>CAT	p.Q499H	WDR44_uc004eqo.2_Missense_Mutation_p.Q499H|WDR44_uc011mtr.1_Missense_Mutation_p.Q474H|WDR44_uc010nqi.2_Missense_Mutation_p.Q209H	NM_019045	NP_061918	Q5JSH3	WDR44_HUMAN	WD repeat domain 44 protein	499						cytosol|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm				lung(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5						ATTTTGATCAGATCAAAGTGG	0.353													64	109	---	---	---	---	PASS	T	117540953	T	T	117540953	3	4	75	1	0	0	0	0	1	0	0	0	17293	933	33	2	1535	2	WDR44	23	117540953	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	9564633	117540953	37729607	233	28656										
CUL4B	8450	broad.mit.edu	37	chrX	119694097	119694097	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	aagttgctgctgctgagatgTtgcagcagttggtgaagatg	15	5	0	3			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:119694097T>A	uc004esw.2	-	3	888	c.451A>T	c.(451-453)ACA>TCA	p.T151S	CUL4B_uc004esv.2_Missense_Mutation_p.T133S	NM_003588	NP_003579	Q13620	CUL4B_HUMAN	cullin 4B isoform 1	151	Ser-rich.				cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3						TGCTGAGATGTTGCAGCAGTT	0.413													48	58	---	---	---	---	PASS	A	119694097	A	A	119694097	3	1	75	1	0	0	0	0	1	0	0	0	4058	1725	60	5	2370	5	CUL4B	23	119694097	Missense_Mutation	SNP	T	TCGA-34-5929-01A-11D-1817-08	2153144	119694097	35576463	234	28657										
DCAF12L2	340578	broad.mit.edu	37	chrX	125298856	125298856	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	agctcagcgaccgcacgcctGtgccaccctctcgagagcac	10	18	2	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:125298856G>T	uc004euk.1	-	1	1079	c.1052C>A	c.(1051-1053)ACA>AAA	p.T351K		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	351	WD 4.									lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						CCGCACGCCTGTGCCACCCTC	0.627													48	83	---	---	---	---	PASS	T	125298856	T	T	125298856	3	4	75	1	0	0	0	0	1	0	0	0	4265	1377	48	3	343	3	DCAF12L2	23	125298856	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	5604759	125298856	29971704	235	28658										
SAGE1	55511	broad.mit.edu	37	chrX	134987551	134987551	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	ccatgagtaccagggatctgCgtatgtctgctaattagttg	11	8	2	1	rs147659975	by1000genomes	TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:134987551C>G	uc004ezh.2	+	5	621	c.454C>G	c.(454-456)CAT>GAT	p.H152D	SAGE1_uc010nry.1_Missense_Mutation_p.H121D|SAGE1_uc011mvv.1_Missense_Mutation_p.H152D	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	152										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CAGGGATCTGCGTATGTCTGC	0.408													42	129	---	---	---	---	PASS	G	134987551	G	G	134987551	3	3	75	1	0	0	0	0	1	0	0	0	13809	782	27	4	468	4	SAGE1	23	134987551	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	9688695	134987551	20283009	236	28659										
IDS	3423	broad.mit.edu	37	chrX	148586591	148586591	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	tcgagttggcctgcgtttcgGatccgagggcgacgcagacg	16	11	0	1			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:148586591G>C	uc011mxe.1	-	1	275	c.77C>G	c.(76-78)TCC>TGC	p.S26C	IDS_uc011mxf.1_Translation_Start_Site|IDS_uc011mxg.1_Translation_Start_Site|IDS_uc010nsu.1_Intron|IDS_uc004fcw.3_Intron|IDS_uc011mxh.1_Missense_Mutation_p.S26C|IDS_uc011mxi.1_RNA|IDS_uc011mxj.1_Missense_Mutation_p.S26C	NM_000202	NP_000193	P22304	IDS_HUMAN	iduronate-2-sulfatase isoform a precursor	26						lysosome	iduronate-2-sulfatase activity|metal ion binding				0	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CTGCGTTTCGGATCCGAGGGC	0.483													22	58	---	---	---	---	PASS	C	148586591	C	C	148586591	3	2	75	1	0	0	0	0	1	0	0	0	7503	1174	41	2	1641	2	IDS	23	148586591	Missense_Mutation	SNP	G	TCGA-34-5929-01A-11D-1817-08	13599040	148586591	6683969	237	28660										
DNASE1L1	1774	broad.mit.edu	37	chrX	153633251	153633251	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.191489361702128	45	9.71743330699261e-11	2.875591685532	3.53364670954973	2.40697674418605	1	1	29	gctgtagggcccagagccatCaaatctgccaagaaaagggg	13	10	2	2			TCGA-34-5929-01A-11D-1817-08	TCGA-34-5929-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a25de54e-c13d-4973-864a-e307fbe7324a	4413b484-331d-439c-b762-73518802dc68	g.chrX:153633251C>G	uc004fks.1	-	4	420	c.229G>C	c.(229-231)GAT>CAT	p.D77H	DNASE1L1_uc004fkt.1_Missense_Mutation_p.D77H|DNASE1L1_uc004fku.1_Missense_Mutation_p.D77H|DNASE1L1_uc004fkv.1_Missense_Mutation_p.D77H|DNASE1L1_uc004fkw.1_Missense_Mutation_p.D77H	NM_006730	NP_006721	P49184	DNSL1_HUMAN	deoxyribonuclease I-like 1 precursor	77					DNA catabolic process	endoplasmic reticulum	DNA binding|endodeoxyribonuclease activity, producing 5'-phosphomonoesters				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCAGAGCCATCAAATCTGCCA	0.587													28	39	---	---	---	---	PASS	G	153633251	G	G	153633251	3	3	75	1	0	0	0	0	1	0	0	0	4661	826	29	2	699	2	DNASE1L1	23	153633251	Missense_Mutation	SNP	C	TCGA-34-5929-01A-11D-1817-08	5046660	153633251	1637309	238	28661										
SDF4	51150	broad.mit.edu	37	chr1	1154233	1154233	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaacgacaggaactcctcctCcgtcagcagcaggtctgcag	11	14	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:1154233C>T	uc001adh.3	-	5	981	c.652G>A	c.(652-654)GAG>AAG	p.E218K	SDF4_uc001adg.2_RNA|SDF4_uc001adi.3_Missense_Mutation_p.E218K|SDF4_uc009vjv.2_Missense_Mutation_p.E96K|SDF4_uc009vjw.2_RNA	NM_016176	NP_057260	Q9BRK5	CAB45_HUMAN	stromal cell derived factor 4 isoform 2	218	EF-hand 3.|3 (Potential).				cerebellum development|fat cell differentiation|response to ethanol|UV protection|zymogen granule exocytosis	bleb|Golgi lumen|late endosome|soluble fraction	calcium ion binding|calcium ion binding|identical protein binding|protein binding			upper_aerodigestive_tract(1)|large_intestine(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;7.85e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.42e-21)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;4.83e-05)|Kidney(185;0.00252)|BRCA - Breast invasive adenocarcinoma(365;0.00263)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0368)|Lung(427;0.204)		AACTCCTCCTCCGTCAGCAGC	0.642													51	440	---	---	---	---	PASS	T	1154233	T	T	1154233	3	4	76	1	0	0	0	0	1	0	0	0	13962	864	30	2	564	2	SDF4	1	1154233	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08		1154233	248096388	1	28662										
SSU72	29101	broad.mit.edu	37	chr1	1509930	1509930	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccgccacccgcagcggggacGacggcatggcggcggccgca	17	17	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:1509930G>A	uc001agd.2	-	1	333	c.8C>T	c.(7-9)TCG>TTG	p.S3L	SSU72_uc009vkg.1_Missense_Mutation_p.S3L|SSU72_uc001age.1_Missense_Mutation_p.S3L	NM_014188	NP_054907	Q9NP77	SSU72_HUMAN	Ssu72 RNA polymerase II CTD phosphatase homolog	3					mRNA processing	cytoplasm|nucleus	phosphoprotein phosphatase activity				0	all_cancers(77;0.00125)|all_epithelial(69;0.000703)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.03e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;5.04e-37)|OV - Ovarian serous cystadenocarcinoma(86;3.72e-23)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;0.000188)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|STAD - Stomach adenocarcinoma(132;0.00645)|BRCA - Breast invasive adenocarcinoma(365;0.00837)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		CAGCGGGGACGACGGCATGGC	0.706													10	31	---	---	---	---	PASS	A	1509930	A	A	1509930	3	1	76	1	0	0	0	0	1	0	0	0	15201	1059	37	2	596	2	SSU72	1	1509930	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	355697	1509930	247740691	2	28663										
THAP3	90326	broad.mit.edu	37	chr1	6692962	6692962	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atctgatcacagctatgcccTtttggacttagattccctga	7	11	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:6692962T>C	uc001aoc.2	+	6	704	c.545T>C	c.(544-546)CTT>CCT	p.L182P	THAP3_uc001aod.2_Missense_Mutation_p.L181P|THAP3_uc001aoe.1_Intron			Q8WTV1	THAP3_HUMAN	RecName: Full=THAP domain-containing protein 3;	182							DNA binding|metal ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		AGCTATGCCCTTTTGGACTTA	0.567													4	174	---	---	---	---	PASS	C	6692962	C	C	6692962	3	2	76	1	0	0	0	0	1	0	0	0	15842	1624	56	5		5	THAP3	1	6692962	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	5183032	6692962	242557659	3	28664										
KIF1B	23095	broad.mit.edu	37	chr1	10434507	10434507	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcaatcttgttccagatattGaagaaattagaccaaggtga	8	6	2	5			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:10434507G>C	uc001aqx.3	+	46	5282	c.5080G>C	c.(5080-5082)GAA>CAA	p.E1694Q	KIF1B_uc001aqw.3_Missense_Mutation_p.E1648Q|KIF1B_uc001aqy.2_Missense_Mutation_p.E1668Q|KIF1B_uc001aqz.2_Missense_Mutation_p.E1694Q|KIF1B_uc001ara.2_Missense_Mutation_p.E1654Q|KIF1B_uc001arb.2_Missense_Mutation_p.E1680Q	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1694					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		TCCAGATATTGAAGAAATTAG	0.428													12	226	---	---	---	---	PASS	C	10434507	C	C	10434507	3	2	76	1	0	0	0	0	1	0	0	0	8284	1291	45	2	6601	2	KIF1B	1	10434507	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	3741545	10434507	238816114	4	28665										
KIF17	57576	broad.mit.edu	37	chr1	21036133	21036133	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	caacaatggcctcgcataccCacggcagacatctcgatgct	8	15	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:21036133C>T	uc001bdr.3	-	4	787	c.669G>A	c.(667-669)GTG>GTA	p.V223V	KIF17_uc001bds.3_Silent_p.V223V	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	223	Kinesin-motor.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		CTCGCATACCCACGGCAGACA	0.612													6	104	---	---	---	---	PASS	T	21036133	T	T	21036133	2	4	76	1	0	0	0	0	0	0	0	1	8279	608	21	3		3	KIF17	1	21036133	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	10601626	21036133	228214488	5	28666										
C1QB	713	broad.mit.edu	37	chr1	22987712	22987712	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agaaggtggtcaccttctgtGactatgcctacaacaccttc	8	12	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:22987712G>T	uc001bgd.2	+	3	727	c.595G>T	c.(595-597)GAC>TAC	p.D199Y		NM_000491	NP_000482	P02746	C1QB_HUMAN	complement component 1, q subcomponent, B chain	199	C1q.				complement activation, classical pathway|innate immune response	collagen|complement component C1 complex				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.06e-27)|Colorectal(126;1.58e-07)|GBM - Glioblastoma multiforme(114;6.72e-06)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000551)|KIRC - Kidney renal clear cell carcinoma(1967;0.0027)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CACCTTCTGTGACTATGCCTA	0.592													20	76	---	---	---	---	PASS	T	22987712	T	T	22987712	3	4	76	1	0	0	0	0	1	0	0	0	1955	1290	45	2	601	2	C1QB	1	22987712	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1951579	22987712	226262909	6	28667										
TXLNA	200081	broad.mit.edu	37	chr1	32657926	32657926	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttgcagcatatcgacaaagtCttcaaacacaaggacctaca	6	11	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:32657926C>G	uc001bui.2	+	7	1043	c.978C>G	c.(976-978)GTC>GTG	p.V326V	TXLNA_uc001buj.2_Silent_p.V326V	NM_175852	NP_787048	P40222	TXLNA_HUMAN	taxilin	326	Potential.				cell proliferation|exocytosis	cytoplasm|extracellular region	cytokine activity|high molecular weight B cell growth factor receptor binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				TCGACAAAGTCTTCAAACACA	0.577													25	178	---	---	---	---	PASS	G	32657926	G	G	32657926	2	3	76	1	0	0	0	0	0	0	0	1	16784	900	32	2		2	TXLNA	1	32657926	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	9670214	32657926	216592695	7	28668										
SNIP1	79753	broad.mit.edu	37	chr1	38003401	38003401	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	catcctcgtcatctttcctgTctatttcagaagtgtccgac	6	13	4	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:38003401T>C	uc001cbi.2	-	4	1212	c.1139A>G	c.(1138-1140)GAC>GGC	p.D380G	SNIP1_uc010oid.1_RNA	NM_024700	NP_078976	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein	380					production of miRNAs involved in gene silencing by miRNA	nucleus	protein binding			upper_aerodigestive_tract(1)|lung(1)	2		Myeloproliferative disorder(586;0.0393)				ATCTTTCCTGTCTATTTCAGA	0.423													52	187	---	---	---	---	PASS	C	38003401	C	C	38003401	3	2	76	1	0	0	0	0	1	0	0	0	14848	1667	58	5	55	5	SNIP1	1	38003401	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	5345475	38003401	211247220	8	28669										
HPDL	84842	broad.mit.edu	37	chr1	45793514	45793514	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tccccactcttgttctggctGagtcccttccgggggcgacg	12	15	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:45793514G>A	uc001cne.2	+	1	970	c.694G>A	c.(694-696)GAG>AAG	p.E232K		NM_032756	NP_116145	Q96IR7	HPDL_HUMAN	glyoxalase domain containing 1	232					aromatic amino acid family metabolic process		4-hydroxyphenylpyruvate dioxygenase activity|metal ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TGTTCTGGCTGAGTCCCTTCC	0.652													80	252	---	---	---	---	PASS	A	45793514	A	A	45793514	3	1	76	1	0	0	0	0	1	0	0	0	7333	1291	45	2	696	2	HPDL	1	45793514	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	7790113	45793514	203457107	9	28670										
CC2D1B	200014	broad.mit.edu	37	chr1	52821929	52821929	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccctgagcctgggccagctgCaggatctccagctgtttctt	11	14	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:52821929C>T	uc001ctq.1	-	18	2139	c.2001G>A	c.(1999-2001)CTG>CTA	p.L667L	CC2D1B_uc001ctr.2_Silent_p.L207L|CC2D1B_uc001cts.2_Silent_p.L352L	NM_032449	NP_115825	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B	667										ovary(2)	2						GGGCCAGCTGCAGGATCTCCA	0.562													43	253	---	---	---	---	PASS	T	52821929	T	T	52821929	2	4	76	1	0	0	0	0	0	0	0	1	2727	697	25	3		3	CC2D1B	1	52821929	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	7028415	52821929	196428692	10	28671										
JUN	3725	broad.mit.edu	37	chr1	59247951	59247951	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tttcggcacttggaggcagcGatgcggttcctcatgcgctt	13	11	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:59247951G>C	uc001cze.2	-	1	1835	c.792C>G	c.(790-792)ATC>ATG	p.I264M	uc001czf.2_5'Flank|uc010oop.1_5'Flank	NM_002228	NP_002219	P05412	JUN_HUMAN	jun oncogene	264	Basic motif.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation by host of viral transcription|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|SMAD protein import into nucleus|SMAD protein signal transduction|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|transforming growth factor beta receptor signaling pathway		R-SMAD binding|Rho GTPase activator activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity|transcription factor binding|transcription regulatory region DNA binding				0	all_cancers(7;8.55e-07)				Arsenic trioxide(DB01169)|Irbesartan(DB01029)|Vinblastine(DB00570)	TGGAGGCAGCGATGCGGTTCC	0.612			A		sarcoma								70	216	---	---	---	---	PASS	C	59247951	C	C	59247951	3	2	76	1	0	0	0	0	1	0	0	0	7969	1048	37	2	207	2	JUN	1	59247951	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	6426022	59247951	190002670	11	28672										
INADL	10207	broad.mit.edu	37	chr1	62330108	62330108	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atgaagaatatgagttatatCaagatccctcaccatccatg	6	9	2	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:62330108C>G	uc001dab.2	+	20	2752	c.2638C>G	c.(2638-2640)CAA>GAA	p.Q880E	INADL_uc009waf.1_Missense_Mutation_p.Q880E|INADL_uc001daa.2_Missense_Mutation_p.Q880E|INADL_uc001dad.3_Missense_Mutation_p.Q577E|INADL_uc001dac.2_RNA	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	880					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						TGAGTTATATCAAGATCCCTC	0.438													15	130	---	---	---	---	PASS	G	62330108	G	G	62330108	3	3	76	1	0	0	0	0	1	0	0	0	7731	827	29	2	2712	2	INADL	1	62330108	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	3082157	62330108	186920513	12	28673										
KANK4	163782	broad.mit.edu	37	chr1	62713308	62713308	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttgaaccatgtcctccctgtCgtggctgactcccagcatca	8	15	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:62713308C>T	uc001dah.3	-	9	3096	c.2719G>A	c.(2719-2721)GAC>AAC	p.D907N	KANK4_uc001dai.3_Missense_Mutation_p.D279N|KANK4_uc001daf.3_Missense_Mutation_p.D45N|KANK4_uc001dag.3_Missense_Mutation_p.D263N	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	907	ANK 3.									ovary(3)|skin(2)|lung(1)	6						TCCTCCCTGTCGTGGCTGACT	0.622													28	110	---	---	---	---	PASS	T	62713308	T	T	62713308	3	4	76	1	0	0	0	0	1	0	0	0	7979	884	31	2	276	2	KANK4	1	62713308	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	383200	62713308	186537313	13	28674										
C1orf173	127254	broad.mit.edu	37	chr1	75065587	75065587	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gatttttcaccttgtttctcCtcatctacttcaaagtcttc	3	12	6	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:75065587C>G	uc001dgg.2	-	11	1737	c.1518G>C	c.(1516-1518)GAG>GAC	p.E506D	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.E300D	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	506	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTTGTTTCTCCTCATCTACTT	0.338													19	167	---	---	---	---	PASS	G	75065587	G	G	75065587	3	3	76	1	0	0	0	0	1	0	0	0	2014	680	24	4	3090	4	C1orf173	1	75065587	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	12352279	75065587	174185034	14	28675										
ELTD1	64123	broad.mit.edu	37	chr1	79357344	79357344	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atccaggtggtgccgagaagGaacagaagagcgagggctcc	16	9	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:79357344G>T	uc001diq.3	-	14	2031	c.1875C>A	c.(1873-1875)TTC>TTA	p.F625L		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	625	Helical; Name=6; (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)		TGCCGAGAAGGAACAGAAGAG	0.478													4	90	---	---	---	---	PASS	T	79357344	T	T	79357344	3	4	76	1	0	0	0	0	1	0	0	0	5084	1165	41	2	205	2	ELTD1	1	79357344	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	4291757	79357344	169893277	15	28676										
LPHN2	23266	broad.mit.edu	37	chr1	82409045	82409045	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gatggggaggaaagactgatAtcgacctagcagttgatgaa	14	5	0	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:82409045A>T	uc001dit.3	+	6	971	c.790A>T	c.(790-792)ATC>TTC	p.I264F	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.I264F|LPHN2_uc001div.2_Missense_Mutation_p.I264F|LPHN2_uc009wcd.2_Missense_Mutation_p.I264F	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	264	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		AAAGACTGATATCGACCTAGC	0.413													41	152	---	---	---	---	PASS	T	82409045	T	T	82409045	3	4	76	1	0	0	0	0	1	0	0	0	8916	449	16	5	804	5	LPHN2	1	82409045	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	3051701	82409045	166841576	16	28677										
SH3GLB1	51100	broad.mit.edu	37	chr1	87207947	87207947	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttctgtgacacctgtaccatCagttttaccaaatgcgattg	7	10	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:87207947C>G	uc001dlw.2	+	8	1144	c.818C>G	c.(817-819)TCA>TGA	p.S273*	SH3GLB1_uc001dlx.2_Nonsense_Mutation_p.S294*|SH3GLB1_uc001dly.2_Nonsense_Mutation_p.S302*|SH3GLB1_uc001dlz.2_Nonsense_Mutation_p.S173*	NM_016009	NP_057093	Q9Y371	SHLB1_HUMAN	SH3-containing protein SH3GLB1	273					anti-apoptosis|filopodium assembly|signal transduction	Golgi membrane|mitochondrial outer membrane	cytoskeletal adaptor activity|protein homodimerization activity|SH3 domain binding				0		Lung NSC(277;0.209)		all cancers(265;0.0136)|Epithelial(280;0.0414)		CCTGTACCATCAGTTTTACCA	0.408													17	138	---	---	---	---	PASS	G	87207947	G	G	87207947	4	3	76	1	0	0	0	0	0	1	0	0	14253	838	29	2	848	2	SH3GLB1	1	87207947	Nonsense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	4798902	87207947	162042674	17	28678										
SH3GLB1	51100	broad.mit.edu	37	chr1	87208108	87208108	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	acagtactgaattatcacttCtggcagatgaggtgagtatt	10	6	2	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:87208108C>T	uc001dlw.2	+	8	1305	c.979C>T	c.(979-981)CTG>TTG	p.L327L	SH3GLB1_uc001dlx.2_Silent_p.L348L|SH3GLB1_uc001dly.2_Silent_p.L356L|SH3GLB1_uc001dlz.2_Silent_p.L227L	NM_016009	NP_057093	Q9Y371	SHLB1_HUMAN	SH3-containing protein SH3GLB1	327	SH3.				anti-apoptosis|filopodium assembly|signal transduction	Golgi membrane|mitochondrial outer membrane	cytoskeletal adaptor activity|protein homodimerization activity|SH3 domain binding				0		Lung NSC(277;0.209)		all cancers(265;0.0136)|Epithelial(280;0.0414)		ATTATCACTTCTGGCAGATGA	0.388													17	107	---	---	---	---	PASS	T	87208108	T	T	87208108	2	4	76	1	0	0	0	0	0	0	0	1	14253	912	32	2		2	SH3GLB1	1	87208108	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	161	87208108	162042513	18	28679										
TGFBR3	7049	broad.mit.edu	37	chr1	92177902	92177902	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	acaggcttgaagacaaagctGaatcgcttcttatccatgtc	8	10	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:92177902G>A	uc001doh.2	-	13	2530	c.2064C>T	c.(2062-2064)TTC>TTT	p.F688F	TGFBR3_uc009wde.2_Intron|TGFBR3_uc010osy.1_Silent_p.F646F|TGFBR3_uc001doi.2_Silent_p.F687F|TGFBR3_uc001doj.2_Silent_p.F687F	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	688	ZP.|Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		AGACAAAGCTGAATCGCTTCT	0.448													14	104	---	---	---	---	PASS	A	92177902	A	A	92177902	2	1	76	1	0	0	0	0	0	0	0	1	15820	1281	45	2		2	TGFBR3	1	92177902	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	4969794	92177902	157072719	19	28680										
AGL	178	broad.mit.edu	37	chr1	100366315	100366315	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tggtggctgcagtgtatccaGgattactgtaaaatggttcc	12	7	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:100366315G>T	uc001dsi.1	+	26	3886	c.3486G>T	c.(3484-3486)CAG>CAT	p.Q1162H	AGL_uc001dsj.1_Missense_Mutation_p.Q1162H|AGL_uc001dsk.1_Missense_Mutation_p.Q1162H|AGL_uc001dsl.1_Missense_Mutation_p.Q1162H|AGL_uc001dsm.1_Missense_Mutation_p.Q1146H|AGL_uc001dsn.1_Missense_Mutation_p.Q1145H	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	1162	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		AGTGTATCCAGGATTACTGTA	0.468													8	380	---	---	---	---	PASS	T	100366315	T	T	100366315	3	4	76	1	0	0	0	0	1	0	0	0	384	991	35	3	3653	3	AGL	1	100366315	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	8188413	100366315	148884306	20	28681										
S1PR1	1901	broad.mit.edu	37	chr1	101705208	101705208	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	catcgtcattctgtactgcaGaatctactccttggtcagga	8	11	4	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:101705208G>A	uc001dud.2	+	2	1182	c.668G>A	c.(667-669)AGA>AAA	p.R223K	S1PR1_uc009weg.2_Missense_Mutation_p.R223K	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	223	Cytoplasmic (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						CTGTACTGCAGAATCTACTCC	0.572													50	187	---	---	---	---	PASS	A	101705208	A	A	101705208	3	1	76	1	0	0	0	0	1	0	0	0	13793	942	33	2	670	2	S1PR1	1	101705208	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1338893	101705208	147545413	21	28682										
C1orf103	55791	broad.mit.edu	37	chr1	111494566	111494566	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agtttttaaaatctttgaagCcacattatttgaagacttaa	5	5	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:111494566C>T	uc001eaa.2	-	2	1196	c.940G>A	c.(940-942)GCT>ACT	p.A314T	C1orf103_uc001dzz.2_Intron|C1orf103_uc001eab.2_Intron|C1orf103_uc001eac.1_Intron	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	314					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		ATCTTTGAAGCCACATTATTT	0.378													20	95	---	---	---	---	PASS	T	111494566	T	T	111494566	3	4	76	1	0	0	0	0	1	0	0	0	1977	739	26	3	1381	3	C1orf103	1	111494566	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	9789358	111494566	137756055	22	28683										
ADORA3	140	broad.mit.edu	37	chr1	112029246	112029246	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cggacaactttgggagccttGcagcttctggttttgttgcc	12	10	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:112029246G>A	uc001ebf.2	-	4	1601	c.834C>T	c.(832-834)TGC>TGT	p.C278C	ADORA3_uc001ebg.3_Silent_p.C197C	NM_020683	NP_065734	P33765	AA3R_HUMAN	adenosine A3 receptor isoform 1	Error:Variant_position_missing_in_P33765_after_alignment					activation of adenylate cyclase activity|inflammatory response|regulation of heart contraction	integral to plasma membrane	adenosine receptor activity, G-protein coupled			ovary(2)|large_intestine(1)|skin(1)	4		all_cancers(81;1.63e-06)|all_epithelial(167;5.01e-06)|all_lung(203;8.02e-05)|Lung NSC(277;0.000156)		all cancers(265;0.0185)|Colorectal(144;0.0186)|Lung(183;0.0238)|COAD - Colon adenocarcinoma(174;0.0644)|Epithelial(280;0.0872)|LUSC - Lung squamous cell carcinoma(189;0.134)	Adenosine(DB00640)|Aminophylline(DB01223)	TGGGAGCCTTGCAGCTTCTGG	0.577													11	40	---	---	---	---	PASS	A	112029246	A	A	112029246	2	1	76	1	0	0	0	0	0	0	0	1	329	1311	46	3		3	ADORA3	1	112029246	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	534680	112029246	137221375	23	28684										
WNT2B	7482	broad.mit.edu	37	chr1	113059968	113059968	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggactgatcttgtctactttGacaactctccagattactgt	7	10	3	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:113059968G>C	uc001ecb.2	+	4	1422	c.907G>C	c.(907-909)GAC>CAC	p.D303H	WNT2B_uc001eca.2_Missense_Mutation_p.D284H|WNT2B_uc009wgg.2_Missense_Mutation_p.D211H	NM_024494	NP_078613	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family,	303					chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity			ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGTCTACTTTGACAACTCTCC	0.572													3	79	---	---	---	---	PASS	C	113059968	C	C	113059968	3	2	76	1	0	0	0	0	1	0	0	0	17384	1290	45	2	1054	2	WNT2B	1	113059968	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1030722	113059968	136190653	24	28685										
PHTF1	10745	broad.mit.edu	37	chr1	114247382	114247382	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atttcctagctttcctggcaGaagtaatatggctgaagagt	10	7	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:114247382G>C	uc009wgp.1	-	13	2161	c.1709C>G	c.(1708-1710)TCT>TGT	p.S570C	PHTF1_uc001edn.2_Missense_Mutation_p.S570C|PHTF1_uc001edm.2_Missense_Mutation_p.S327C	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	570						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTTCCTGGCAGAAGTAATATG	0.313													17	132	---	---	---	---	PASS	C	114247382	C	C	114247382	3	2	76	1	0	0	0	0	1	0	0	0	11862	942	33	2	603	2	PHTF1	1	114247382	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1187414	114247382	135003239	25	28686										
FCGR1A	2209	broad.mit.edu	37	chr1	149760129	149760129	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctaccattgctcaggcatggGaaagcatcgctacacatcag	9	12	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:149760129G>A	uc001esp.3	+	4	565	c.515G>A	c.(514-516)GGA>GAA	p.G172E	HIST2H2BF_uc010pbj.1_Intron|FCGR1A_uc009wlg.2_RNA|FCGR1A_uc009wlh.1_RNA	NM_000566	NP_000557	P12314	FCGR1_HUMAN	Fc fragment of IgG, high affinity Ia, receptor	172	Ig-like C2-type 2.|Extracellular (Potential).				interferon-gamma-mediated signaling pathway|phagocytosis, engulfment	integral to membrane|plasma membrane	IgG binding|receptor activity|receptor signaling protein activity			ovary(1)	1	Breast(34;0.0124)|all_hematologic(923;0.127)				Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Methyl aminolevulinate(DB00992)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Porfimer(DB00707)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TCAGGCATGGGAAAGCATCGC	0.393													5	238	---	---	---	---	PASS	A	149760129	A	A	149760129	3	1	76	1	0	0	0	0	1	0	0	0	5779	1174	41	2	529	2	FCGR1A	1	149760129	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	35512747	149760129	99490492	26	28687										
HIST2H2BE	8349	broad.mit.edu	37	chr1	149858143	149858143	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgggctttggtgacggctttCttggagccctttttaggggc	15	8	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:149858143C>T	uc001etc.2	-	1	90	c.48G>A	c.(46-48)AAG>AAA	p.K16K	HIST2H2AC_uc001etd.2_5'Flank	NM_003528	NP_003519	Q16778	H2B2E_HUMAN	histone cluster 2, H2be	16					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			ovary(1)	1	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			TGACGGCTTTCTTGGAGCCCT	0.532													65	311	---	---	---	---	PASS	T	149858143	T	T	149858143	2	4	76	1	0	0	0	0	0	0	0	1	7179	912	32	2		2	HIST2H2BE	1	149858143	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	98014	149858143	99392478	27	28688										
HRNR	388697	broad.mit.edu	37	chr1	152191617	152191617	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	acctgaggcagaaccatgctGactatagccctgtcctgagc	10	13	0	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:152191617G>A	uc001ezt.1	-	3	2564	c.2488C>T	c.(2488-2490)CAG>TAG	p.Q830*		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	830	8.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GAACCATGCTGACTATAGCCC	0.547													31	123	---	---	---	---	PASS	A	152191617	A	A	152191617	4	1	76	1	0	0	0	0	0	1	0	0	7359	1299	45	2	6068	2	HRNR	1	152191617	Nonsense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	2333474	152191617	97059004	28	28689										
FLG	2312	broad.mit.edu	37	chr1	152275409	152275409	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aaacccggattcaccataatCataatctgcactaccatagc	4	13	3	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:152275409C>G	uc001ezu.1	-	3	11989	c.11953G>C	c.(11953-11955)GAT>CAT	p.D3985H		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3985					keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCACCATAATCATAATCTGCA	0.398									Ichthyosis				48	215	---	---	---	---	PASS	G	152275409	G	G	152275409	3	3	76	1	0	0	0	0	1	0	0	0	5922	826	29	2	236	2	FLG	1	152275409	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	83792	152275409	96975212	29	28690										
FLG	2312	broad.mit.edu	37	chr1	152281208	152281208	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgactgtgtgtctgagtcttCtgaatgtccctcactgtcac	9	11	5	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:152281208C>A	uc001ezu.1	-	3	6190	c.6154G>T	c.(6154-6156)GAA>TAA	p.E2052*		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2052	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTGAGTCTTCTGAATGTCCC	0.562									Ichthyosis				128	791	---	---	---	---	PASS	A	152281208	A	A	152281208	4	1	76	1	0	0	0	0	0	1	0	0	5922	922	32	2	6035	2	FLG	1	152281208	Nonsense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	5799	152281208	96969413	30	28691										
NUP210L	91181	broad.mit.edu	37	chr1	154042813	154042813	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tccactgatttataatcttcGaaatgggctagtgtttcatt	7	7	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:154042813G>A	uc001fdw.2	-	17	2562	c.2490C>T	c.(2488-2490)TTC>TTT	p.F830F	NUP210L_uc009woq.2_Intron|NUP210L_uc010peh.1_Silent_p.F830F	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	830						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TATAATCTTCGAAATGGGCTA	0.378													34	162	---	---	---	---	PASS	A	154042813	A	A	154042813	2	1	76	1	0	0	0	0	0	0	0	1	10761	1049	37	2		2	NUP210L	1	154042813	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	1761605	154042813	95207808	31	28692										
IQGAP3	128239	broad.mit.edu	37	chr1	156507057	156507057	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtagggcgatgtccagtcgtCtctggacctcggggtggctc	16	11	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:156507057C>T	uc001fpf.2	-	27	3413	c.3338G>A	c.(3337-3339)AGA>AAA	p.R1113K		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1113	Ras-GAP.				small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTCCAGTCGTCTCTGGACCTC	0.557													7	121	---	---	---	---	PASS	T	156507057	T	T	156507057	3	4	76	1	0	0	0	0	1	0	0	0	7816	913	32	2	1605	2	IQGAP3	1	156507057	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2464244	156507057	92743564	32	28693										
DNM3	26052	broad.mit.edu	37	chr1	171956860	171956860	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tttgatgaagttcgccttgaGattgaagcagaaacagatcg	11	6	0	6			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:171956860G>T	uc001gie.2	+	3	476	c.300G>T	c.(298-300)GAG>GAT	p.E100D	DNM3_uc001gid.3_Missense_Mutation_p.E100D|DNM3_uc009wwb.2_Missense_Mutation_p.E100D|DNM3_uc001gif.2_Missense_Mutation_p.E100D	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	100					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						TTCGCCTTGAGATTGAAGCAG	0.343													19	276	---	---	---	---	PASS	T	171956860	T	T	171956860	3	4	76	1	0	0	0	0	1	0	0	0	4673	933	33	2	310	2	DNM3	1	171956860	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	15449803	171956860	77293761	33	28694										
PAPPA2	60676	broad.mit.edu	37	chr1	176564447	176564447	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atcagctggcagctgagcgtCcaccaggtccacaattccac	9	15	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:176564447C>A	uc001gkz.2	+	3	2871	c.1707C>A	c.(1705-1707)GTC>GTA	p.V569V	PAPPA2_uc001gky.1_Silent_p.V569V|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	569	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						AGCTGAGCGTCCACCAGGTCC	0.572													19	111	---	---	---	---	PASS	A	176564447	A	A	176564447	2	1	76	1	0	0	0	0	0	0	0	1	11433	842	30	2		2	PAPPA2	1	176564447	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	4607587	176564447	72686174	34	28695										
HMCN1	83872	broad.mit.edu	37	chr1	186157078	186157078	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcgcatgtgcttcaacatgaGaggaagctaccagtgcatcg	11	10	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:186157078G>C	uc001grq.1	+	106	16707	c.16478G>C	c.(16477-16479)AGA>ACA	p.R5493T	HMCN1_uc001grs.1_Missense_Mutation_p.R945T	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5493					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TTCAACATGAGAGGAAGCTAC	0.502													38	248	---	---	---	---	PASS	C	186157078	C	C	186157078	3	2	76	1	0	0	0	0	1	0	0	0	7220	942	33	2	16900	2	HMCN1	1	186157078	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	9592631	186157078	63093543	35	28696										
FAM5C	339479	broad.mit.edu	37	chr1	190067726	190067726	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agagtggctgcctccgaaggGattgacataaacagccaaca	11	10	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:190067726G>T	uc001gse.1	-	8	1955	c.1723C>A	c.(1723-1725)CCC>ACC	p.P575T	FAM5C_uc010pot.1_Missense_Mutation_p.P473T	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	575						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CCTCCGAAGGGATTGACATAA	0.468													40	336	---	---	---	---	PASS	T	190067726	T	T	190067726	3	4	76	1	0	0	0	0	1	0	0	0	5594	1174	41	2	581	2	FAM5C	1	190067726	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	3910648	190067726	59182895	36	28697										
KIF21B	23046	broad.mit.edu	37	chr1	200972830	200972830	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gttcttgatgttgcgggcccGattggcatatttgagtgtgt	14	6	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:200972830G>A	uc001gvs.1	-	8	1413	c.1096C>T	c.(1096-1098)CGG>TGG	p.R366W	KIF21B_uc001gvr.1_Missense_Mutation_p.R366W|KIF21B_uc009wzl.1_Missense_Mutation_p.R366W|KIF21B_uc010ppn.1_Missense_Mutation_p.R366W|KIF21B_uc001gvt.1_Missense_Mutation_p.R224W	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	366					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						TTGCGGGCCCGATTGGCATAT	0.552													30	221	---	---	---	---	PASS	A	200972830	A	A	200972830	3	1	76	1	0	0	0	0	1	0	0	0	8289	1057	37	2	3886	2	KIF21B	1	200972830	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	10905104	200972830	48277791	37	28698										
SRGAP2	23380	broad.mit.edu	37	chr1	206623739	206623739	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cttctgttgcagtgatagccCtcatggagagactacctcgg	11	11	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:206623739C>G	uc001hdy.2	+	16	2180	c.1847C>G	c.(1846-1848)CCT>CGT	p.P616R	SRGAP2_uc010prt.1_Missense_Mutation_p.P539R|SRGAP2_uc001hdx.2_Missense_Mutation_p.P616R|SRGAP2_uc010pru.1_Missense_Mutation_p.P539R|SRGAP2_uc010prv.1_Missense_Mutation_p.P540R	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	703					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					AGTGATAGCCCTCATGGAGAG	0.552													6	93	---	---	---	---	PASS	G	206623739	G	G	206623739	3	3	76	1	0	0	0	0	1	0	0	0	15145	681	24	4	1910	4	SRGAP2	1	206623739	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	5650909	206623739	42626882	38	28699										
USH2A	7399	broad.mit.edu	37	chr1	216061896	216061896	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aagagtgctcatcagtacccGatattcatattttgtccatg	7	9	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:216061896G>A	uc001hku.1	-	41	8482	c.8095C>T	c.(8095-8097)CGG>TGG	p.R2699W		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2699	Extracellular (Potential).|Fibronectin type-III 13.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATCAGTACCCGATATTCATAT	0.493										HNSCC(13;0.011)			9	110	---	---	---	---	PASS	A	216061896	A	A	216061896	3	1	76	1	0	0	0	0	1	0	0	0	17033	1057	37	2	7641	2	USH2A	1	216061896	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	9438157	216061896	33188725	39	28700										
GPATCH2	55105	broad.mit.edu	37	chr1	217784282	217784282	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agaaccagttaagatactttCaaagacaggatctggtacat	8	7	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:217784282C>G	uc001hlf.1	-	4	1063	c.967G>C	c.(967-969)GAA>CAA	p.E323Q	GPATCH2_uc001hlg.3_Missense_Mutation_p.E323Q	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	323						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		AAGATACTTTCAAAGACAGGA	0.453													22	179	---	---	---	---	PASS	G	217784282	G	G	217784282	3	3	76	1	0	0	0	0	1	0	0	0	6591	835	29	2	647	2	GPATCH2	1	217784282	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1722386	217784282	31466339	40	28701										
OBSCN	84033	broad.mit.edu	37	chr1	228444513	228444513	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcagctcgaaagtgcgcatgGaggctgtgggctgcacacgg	16	10	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:228444513G>C	uc009xez.1	+	15	4515	c.4471G>C	c.(4471-4473)GAG>CAG	p.E1491Q	OBSCN_uc001hsn.2_Missense_Mutation_p.E1491Q	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1491	Ig-like 15.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGTGCGCATGGAGGCTGTGGG	0.672													22	174	---	---	---	---	PASS	C	228444513	C	C	228444513	3	2	76	1	0	0	0	0	1	0	0	0	10812	1175	41	2	4525	2	OBSCN	1	228444513	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	10660231	228444513	20806108	41	28702										
OBSCN	84033	broad.mit.edu	37	chr1	228475624	228475624	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gggcggtactcatgctccttCggggaccagactacttctgc	12	13	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:228475624C>T	uc009xez.1	+	36	9818	c.9774C>T	c.(9772-9774)TTC>TTT	p.F3258F	OBSCN_uc001hsn.2_Silent_p.F3258F|OBSCN_uc001hsq.1_Silent_p.F514F	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3258	Ig-like 32.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CATGCTCCTTCGGGGACCAGA	0.617													11	111	---	---	---	---	PASS	T	228475624	T	T	228475624	2	4	76	1	0	0	0	0	0	0	0	1	10812	883	31	2		2	OBSCN	1	228475624	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	31111	228475624	20774997	42	28703										
TAF5L	27097	broad.mit.edu	37	chr1	229730377	229730377	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcagacgccaagtacttaccGttgggagaaaaggcgagaga	14	8	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:229730377G>A	uc001htq.2	-	5	1603	c.1437C>T	c.(1435-1437)AAC>AAT	p.N479N		NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	479	WD 5.				histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				AGTACTTACCGTTGGGAGAAA	0.587													27	338	---	---	---	---	PASS	A	229730377	A	A	229730377	2	1	76	1	0	0	0	0	0	0	0	1	15526	1136	40	1		1	TAF5L	1	229730377	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	1254753	229730377	19520244	43	28704										
C1orf198	84886	broad.mit.edu	37	chr1	230979318	230979318	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttccaccttggcctccctgtCcttcggggcaggttcctgcc	10	17	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:230979318C>A	uc001hub.2	-	3	753	c.709G>T	c.(709-711)GAC>TAC	p.D237Y	C1orf198_uc009xfh.1_Missense_Mutation_p.D107Y|C1orf198_uc001huc.1_Missense_Mutation_p.D20Y|C1orf198_uc001hud.1_Missense_Mutation_p.D199Y	NM_032800	NP_116189	Q9H425	CA198_HUMAN	hypothetical protein LOC84886 isoform 1	237											0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				GCCTCCCTGTCCTTCGGGGCA	0.632													18	146	---	---	---	---	PASS	A	230979318	A	A	230979318	3	1	76	1	0	0	0	0	1	0	0	0	2026	855	30	2	282	2	C1orf198	1	230979318	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1248941	230979318	18271303	44	28705										
PCNXL2	80003	broad.mit.edu	37	chr1	233394590	233394590	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttcctggtgcaagggcaggtCcccctggcaggaggtatcta	14	11	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:233394590C>T	uc001hvl.2	-	5	1253	c.1018G>A	c.(1018-1020)GAC>AAC	p.D340N	PCNXL2_uc009xfu.2_RNA|PCNXL2_uc009xfv.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	340						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				AAGGGCAGGTCCCCCTGGCAG	0.572													28	237	---	---	---	---	PASS	T	233394590	T	T	233394590	3	4	76	1	0	0	0	0	1	0	0	0	11592	855	30	2	5515	2	PCNXL2	1	233394590	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2415272	233394590	15856031	45	28706										
ARID4B	51742	broad.mit.edu	37	chr1	235383152	235383152	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcttctacctttatgttgagGgattcatctaccctagttgt	8	9	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:235383152G>A	uc001hwq.2	-	16	2037	c.1539C>T	c.(1537-1539)TCC>TCT	p.S513S	ARID4B_uc001hwr.2_Silent_p.S513S|ARID4B_uc001hws.3_Silent_p.S513S|ARID4B_uc001hwt.3_Silent_p.S194S	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	513	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			TTATGTTGAGGGATTCATCTA	0.343													8	230	---	---	---	---	PASS	A	235383152	A	A	235383152	2	1	76	1	0	0	0	0	0	0	0	1	920	1219	43	3		3	ARID4B	1	235383152	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	1988562	235383152	13867469	46	28707										
LYST	1130	broad.mit.edu	37	chr1	235937219	235937219	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttggattatagcattagagtCtacatccaacttaaactctc	5	9	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:235937219C>G	uc001hxj.2	-	19	5882	c.5707G>C	c.(5707-5709)GAC>CAC	p.D1903H	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	1903					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GCATTAGAGTCTACATCCAAC	0.328									Chediak-Higashi_syndrome				12	138	---	---	---	---	PASS	G	235937219	G	G	235937219	3	3	76	1	0	0	0	0	1	0	0	0	9128	913	32	2	5838	2	LYST	1	235937219	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	554067	235937219	13313402	47	28708										
ERO1LB	56605	broad.mit.edu	37	chr1	236399131	236399131	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	taaaggacgataaacagatcGaggcctgaaaaagaaagcat	10	6	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:236399131G>A	uc001hxt.2	-	8	887	c.631C>T	c.(631-633)CGA>TGA	p.R211*		NM_019891	NP_063944	Q86YB8	ERO1B_HUMAN	endoplasmic reticulum oxidoreductin 1-Lbeta	211					electron transport chain|protein thiol-disulfide exchange|transport	endoplasmic reticulum membrane	flavin adenine dinucleotide binding|oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor|unfolded protein binding				0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.123)|Acute lymphoblastic leukemia(190;0.205)|Prostate(94;0.219)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			TAAACAGATCGAGGCCTGAAA	0.338													17	116	---	---	---	---	PASS	A	236399131	A	A	236399131	4	1	76	1	0	0	0	0	0	1	0	0	5240	1066	37	2	808	2	ERO1LB	1	236399131	Nonsense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	461912	236399131	12851490	48	28709										
HEATR1	55127	broad.mit.edu	37	chr1	236727888	236727888	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agttgcttgctagtgtgagtCtctacattaaaaacctgtag	9	7	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:236727888C>G	uc001hyd.1	-	32	4634	c.4509G>C	c.(4507-4509)GAG>GAC	p.E1503D	HEATR1_uc009xgh.1_Missense_Mutation_p.E665D	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1503					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			TAGTGTGAGTCTCTACATTAA	0.363													22	168	---	---	---	---	PASS	G	236727888	G	G	236727888	3	3	76	1	0	0	0	0	1	0	0	0	7027	912	32	2	1981	2	HEATR1	1	236727888	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	328757	236727888	12522733	49	28710										
RYR2	6262	broad.mit.edu	37	chr1	237604775	237604775	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccgtgagaatgggatctataCaacgtaaggtaaggtgatag	13	5	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:237604775C>A	uc001hyl.1	+	13	1282	c.1162C>A	c.(1162-1164)CAA>AAA	p.Q388K		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	388	Cytoplasmic (By similarity).|MIR 5.				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)			GGGATCTATACAACGTAAGGT	0.343													8	149	---	---	---	---	PASS	A	237604775	A	A	237604775	3	1	76	1	0	0	0	0	1	0	0	0	13769	479	17	3	1212	3	RYR2	1	237604775	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	876887	237604775	11645846	50	28711										
RYR2	6262	broad.mit.edu	37	chr1	237868571	237868571	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctggtgcttttcctgtagcaTttttggaaactcatctggac	9	9	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:237868571T>C	uc001hyl.1	+	67	9628	c.9508T>C	c.(9508-9510)TTT>CTT	p.F3170L	RYR2_uc010pxz.1_Missense_Mutation_p.F125L	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3170	Helical; Name=M''; (Potential).				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)			TCCTGTAGCATTTTTGGAAAC	0.398													17	13	---	---	---	---	PASS	C	237868571	C	C	237868571	3	2	76	1	0	0	0	0	1	0	0	0	13769	1493	52	5	9774	5	RYR2	1	237868571	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	263796	237868571	11382050	51	28712										
HNRNPU	3192	broad.mit.edu	37	chr1	245027180	245027180	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttcctcttcgtccccgagctCatcttccccttcctggaaac	5	18	3	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:245027180C>T	uc001iaz.1	-	1	648	c.430G>A	c.(430-432)GAG>AAG	p.E144K	HNRNPU_uc001iay.1_5'Flank|HNRNPU_uc001iba.1_Missense_Mutation_p.E144K|HNRNPU_uc001ibb.1_Intron	NM_031844	NP_114032	Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U	144	Asp/Glu-rich (acidic).				CRD-mediated mRNA stabilization	catalytic step 2 spliceosome|cell surface|CRD-mediated mRNA stability complex|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	ATP binding|DNA binding|protein binding|RNA binding				0	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			TCCCCGAGCTCATCTTCCCCT	0.711													15	121	---	---	---	---	PASS	T	245027180	T	T	245027180	3	4	76	1	0	0	0	0	1	0	0	0	7273	835	29	2	2103	2	HNRNPU	1	245027180	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	7158609	245027180	4223441	52	28713										
VN1R5	317705	broad.mit.edu	37	chr1	247419770	247419770	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aggtgatgaggggcctctccAtctgcaccccctgcctcctg	11	16	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:247419770A>G	uc010pyu.1	+	2	397	c.397A>G	c.(397-399)ATC>GTC	p.I133V		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	133	Helical; Name=4; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			GGGCCTCTCCATCTGCACCCC	0.473													82	140	---	---	---	---	PASS	G	247419770	G	G	247419770	3	3	76	1	0	0	0	0	1	0	0	0	17178	217	8	5	399	5	VN1R5	1	247419770	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	2392590	247419770	1830851	53	28714										
OR2G3	81469	broad.mit.edu	37	chr1	247769106	247769106	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tctttactggacatctgcttCactactagccttgctcctca	5	14	4	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:247769106C>T	uc010pyz.1	+	1	219	c.219C>T	c.(217-219)TTC>TTT	p.F73F		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	73	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			ACATCTGCTTCACTACTAGCC	0.443													75	619	---	---	---	---	PASS	T	247769106	T	T	247769106	2	4	76	1	0	0	0	0	0	0	0	1	10999	825	29	2		2	OR2G3	1	247769106	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	349336	247769106	1481515	54	28715										
OR13G1	441933	broad.mit.edu	37	chr1	247835987	247835987	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gggaaacaaatggccacataGcggtcataggccatggtggt	14	8	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:247835987G>C	uc001idi.1	-	1	357	c.357C>G	c.(355-357)CGC>CGG	p.R119R		NM_001005487	NP_001005487	Q8NGZ3	O13G1_HUMAN	olfactory receptor, family 13, subfamily G,	119	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TGGCCACATAGCGGTCATAGG	0.458													47	68	---	---	---	---	PASS	C	247835987	C	C	247835987	2	2	76	1	0	0	0	0	0	0	0	1	10942	958	34	4		4	OR13G1	1	247835987	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	66881	247835987	1414634	55	28716										
OR2M2	391194	broad.mit.edu	37	chr1	248343428	248343428	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggaaactctgtcatggttctCctcatctacctggacaccca	7	14	5	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:248343428C>T	uc010pzf.1	+	1	141	c.141C>T	c.(139-141)CTC>CTT	p.L47L		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	47	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TCATGGTTCTCCTCATCTACC	0.527													387	483	---	---	---	---	PASS	T	248343428	T	T	248343428	2	4	76	1	0	0	0	0	0	0	0	1	11010	842	30	2		2	OR2M2	1	248343428	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	507441	248343428	907193	56	28717										
OR2T33	391195	broad.mit.edu	37	chr1	248436606	248436606	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcagaagaagtgatcgatctCgtgtgcaccacaatatggga	12	8	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:248436606C>A	uc010pzi.1	-	1	511	c.511G>T	c.(511-513)GAG>TAG	p.E171*		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	171	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TGATCGATCTCGTGTGCACCA	0.547													7	68	---	---	---	---	PASS	A	248436606	A	A	248436606	4	1	76	1	0	0	0	0	0	1	0	0	11024	893	31	2	454	2	OR2T33	1	248436606	Nonsense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	93178	248436606	814015	57	28718										
OR2T4	127074	broad.mit.edu	37	chr1	248524910	248524910	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	acatcacctggatggccagcCacactggatggtcggatttc	11	12	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr1:248524910C>A	uc001ieh.1	+	1	28	c.28C>A	c.(28-30)CAC>AAC	p.H10N		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GATGGCCAGCCACACTGGATG	0.483													69	82	---	---	---	---	PASS	A	248524910	A	A	248524910	3	1	76	1	0	0	0	0	1	0	0	0	11027	594	21	3	30	3	OR2T4	1	248524910	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	88304	248524910	725711	58	28719										
KLF11	8462	broad.mit.edu	37	chr2	10188682	10188682	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggttgccggaagacctacttCaaaagttcccaccttaaggc	9	12	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:10188682C>G	uc002raf.1	+	3	1380	c.1218C>G	c.(1216-1218)TTC>TTG	p.F406L	KLF11_uc010yjc.1_Missense_Mutation_p.F389L	NM_003597	NP_003588	O14901	KLF11_HUMAN	Kruppel-like factor 11	406	C2H2-type 1.				apoptosis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|regulation of transcription involved in S phase of mitotic cell cycle	nucleus	sequence-specific DNA binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.133)|OV - Ovarian serous cystadenocarcinoma(76;0.228)		AGACCTACTTCAAAAGTTCCC	0.542											OREG0014425	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	167	---	---	---	---	PASS	G	10188682	G	G	10188682	3	3	76	1	0	0	0	0	1	0	0	0	8339	825	29	2	1228	2	KLF11	2	10188682	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08		10188682	233010691	59	28720										
ITSN2	50618	broad.mit.edu	37	chr2	24524941	24524941	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ataaactcttctgcttttagCtgtccatcaccatcaacgtc	4	13	4	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:24524941C>T	uc002rfe.2	-	10	1146	c.888G>A	c.(886-888)CAG>CAA	p.Q296Q	ITSN2_uc002rff.2_Silent_p.Q296Q|ITSN2_uc002rfg.2_Silent_p.Q296Q|ITSN2_uc010eyd.2_Silent_p.Q321Q	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	296	EH 2.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGCTTTTAGCTGTCCATCAC	0.388													28	70	---	---	---	---	PASS	T	24524941	T	T	24524941	2	4	76	1	0	0	0	0	0	0	0	1	7927	796	28	3		3	ITSN2	2	24524941	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	14336259	24524941	218674432	60	28721										
CIB4	130106	broad.mit.edu	37	chr2	26864137	26864137	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cgatctacccacctggtactCttccaggtcctcccagtgca	7	17	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:26864137C>T	uc002rhm.2	-	1	75	c.46G>A	c.(46-48)GAG>AAG	p.E16K		NM_001029881	NP_001025052	A0PJX0	CIB4_HUMAN	calcium and integrin binding family member 4	16							calcium ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACCTGGTACTCTTCCAGGTCC	0.547													56	314	---	---	---	---	PASS	T	26864137	T	T	26864137	3	4	76	1	0	0	0	0	1	0	0	0	3423	922	32	2	539	2	CIB4	2	26864137	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2339196	26864137	216335236	61	28722										
SLC30A6	55676	broad.mit.edu	37	chr2	32445321	32445321	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaattcgacgagatgccaatGaacaaatggttcttgctcat	9	8	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:32445321G>T	uc002roe.1	+	14	962	c.925G>T	c.(925-927)GAA>TAA	p.E309*	SLC30A6_uc002rof.1_Nonsense_Mutation_p.E349*|SLC30A6_uc010ymw.1_Nonsense_Mutation_p.E280*|SLC30A6_uc010ezr.1_Nonsense_Mutation_p.E286*|SLC30A6_uc002rog.1_Nonsense_Mutation_p.E112*|SLC30A6_uc010ezs.1_Nonsense_Mutation_p.E235*|SLC30A6_uc002roh.1_Nonsense_Mutation_p.E112*	NM_017964	NP_060434	Q6NXT4	ZNT6_HUMAN	solute carrier family 30 (zinc transporter),	309	Cytoplasmic (Potential).					Golgi membrane|integral to membrane	zinc ion transmembrane transporter activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					AGATGCCAATGAACAAATGGT	0.378													26	95	---	---	---	---	PASS	T	32445321	T	T	32445321	4	4	76	1	0	0	0	0	0	1	0	0	14559	1291	45	2	979	2	SLC30A6	2	32445321	Nonsense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	5581184	32445321	210754052	62	28723										
STRN	6801	broad.mit.edu	37	chr2	37085108	37085108	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cgctgatgtgctgcactataAgccaaaccccagactgcatc	8	14	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:37085108A>T	uc002rpn.2	-	14	1737	c.1728T>A	c.(1726-1728)GCT>GCA	p.A576A	STRN_uc010ezx.2_Silent_p.A539A	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	576	WD 3.				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)				CTGCACTATAAGCCAAACCCC	0.443													4	30	---	---	---	---	PASS	T	37085108	T	T	37085108	2	4	76	1	0	0	0	0	0	0	0	1	15328	59	3	5		5	STRN	2	37085108	Silent	SNP	A	TCGA-37-3783-01A-01D-1267-08	4639787	37085108	206114265	63	28724										
HEATR5B	54497	broad.mit.edu	37	chr2	37255256	37255256	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aacatggtatcatcatccatCtcatctttcttttcagcttc	3	12	6	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:37255256C>T	uc002rpp.1	-	24	3759	c.3663G>A	c.(3661-3663)GAG>GAA	p.E1221E		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1221							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				CATCATCCATCTCATCTTTCT	0.403													4	110	---	---	---	---	PASS	T	37255256	T	T	37255256	2	4	76	1	0	0	0	0	0	0	0	1	7032	912	32	2		2	HEATR5B	2	37255256	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	170148	37255256	205944117	64	28725										
PRKD3	23683	broad.mit.edu	37	chr2	37543546	37543546	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtgcactgaagcttccattaGagagtcgggcagagagtccc	13	10	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:37543546G>C	uc002rqd.2	-	1	677	c.122C>G	c.(121-123)TCT>TGT	p.S41C	PRKD3_uc002rqf.1_Missense_Mutation_p.S41C	NM_005813	NP_005804	O94806	KPCD3_HUMAN	protein kinase D3	41					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(2)|ovary(1)|central_nervous_system(1)	4		all_hematologic(82;0.21)				GCTTCCATTAGAGAGTCGGGC	0.512													21	171	---	---	---	---	PASS	C	37543546	C	C	37543546	3	2	76	1	0	0	0	0	1	0	0	0	12520	942	33	2	2622	2	PRKD3	2	37543546	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	288290	37543546	205655827	65	28726										
SOS1	6654	broad.mit.edu	37	chr2	39214723	39214723	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttaaacttatagatgatacaGaagcagatcctgtgggatgt	10	5	0	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:39214723G>C	uc002rrk.3	-	22	3442	c.3401C>G	c.(3400-3402)TCT>TGT	p.S1134C	SOS1_uc002rrj.3_Missense_Mutation_p.S733C	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	1134					apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				AGATGATACAGAAGCAGATCC	0.388									Noonan_syndrome				3	24	---	---	---	---	PASS	C	39214723	C	C	39214723	3	2	76	1	0	0	0	0	1	0	0	0	14936	942	33	2	608	2	SOS1	2	39214723	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1671177	39214723	203984650	66	28727										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48896892	48896892	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcaggtggatttaagcattcGggttactgatgatgatattg	12	4	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:48896892G>T	uc010yol.1	+	6	3028	c.2981G>T	c.(2980-2982)CGG>CTG	p.R994L	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.R1041L|GTF2A1L_uc002rws.1_Missense_Mutation_p.R337L|GTF2A1L_uc010yom.1_Missense_Mutation_p.R303L|GTF2A1L_uc002rwt.2_Missense_Mutation_p.R337L	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	994					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TTAAGCATTCGGGTTACTGAT	0.308													22	165	---	---	---	---	PASS	T	48896892	T	T	48896892	3	4	76	1	0	0	0	0	1	0	0	0	15316	1116	39	1	3152	1	STON1-GTF2A1L	2	48896892	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	9682169	48896892	194302481	67	28728										
FSHR	2492	broad.mit.edu	37	chr2	49190072	49190072	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atctctgcgaaagtttttggTaaagatggcatagaggaagg	13	4	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:49190072T>C	uc002rww.2	-	10	1962	c.1888A>G	c.(1888-1890)ACC>GCC	p.T630A	FSHR_uc002rwx.2_Missense_Mutation_p.T568A|FSHR_uc010fbn.2_Missense_Mutation_p.T604A	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	630	Helical; Name=7; (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	AAGTTTTTGGTAAAGATGGCA	0.463									Gonadal_Dysgenesis_46_XX				31	83	---	---	---	---	PASS	C	49190072	C	C	49190072	3	2	76	1	0	0	0	0	1	0	0	0	6073	1638	57	5	203	5	FSHR	2	49190072	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	293180	49190072	194009301	68	28729										
PELI1	57162	broad.mit.edu	37	chr2	64321978	64321978	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aataggcagttgtcttttctGaacacacatgcccacacggg	9	11	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:64321978G>A	uc002scs.3	-	6	5154	c.1115C>T	c.(1114-1116)TCA>TTA	p.S372L	PELI1_uc002sct.3_Missense_Mutation_p.S372L|PELI1_uc002scr.3_Missense_Mutation_p.S193L	NM_020651	NP_065702	Q96FA3	PELI1_HUMAN	pellino protein	372					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol				ovary(1)	1						TGTCTTTTCTGAACACACATG	0.512													28	169	---	---	---	---	PASS	A	64321978	A	A	64321978	3	1	76	1	0	0	0	0	1	0	0	0	11721	1294	45	2	145	2	PELI1	2	64321978	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	15131906	64321978	178877395	69	28730										
MPHOSPH10	10199	broad.mit.edu	37	chr2	71376996	71376996	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgtggtgtttttaattgcagGatgaaggtaaagacaaggcc	13	4	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:71376996G>A	uc002sht.1	+	11	2249	c.1897G>A	c.(1897-1899)GAT>AAT	p.D633N		NM_005791	NP_005782	O00566	MPP10_HUMAN	M-phase phosphoprotein 10	633					RNA splicing, via transesterification reactions|rRNA processing	chromosome|nucleolus|small nucleolar ribonucleoprotein complex	protein binding			skin(2)|ovary(1)	3						TTAATTGCAGGATGAAGGTAA	0.313													26	183	---	---	---	---	PASS	A	71376996	A	A	71376996	3	1	76	1	0	0	0	0	1	0	0	0	9725	1188	41	2	1939	2	MPHOSPH10	2	71376996	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	7055018	71376996	171822377	70	28731										
C2orf3	6936	broad.mit.edu	37	chr2	75915073	75915073	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttcttctacagatttgaaccAtggcatctcttttaaacctg	5	10	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:75915073A>G	uc002sno.2	-	11	1700	c.1570T>C	c.(1570-1572)TGG>CGG	p.W524R	C2orf3_uc010ffs.2_Missense_Mutation_p.W86R|C2orf3_uc002snn.2_Missense_Mutation_p.W355R|C2orf3_uc010fft.2_Missense_Mutation_p.W199R	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	524					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						GATTTGAACCATGGCATCTCT	0.289													15	67	---	---	---	---	PASS	G	75915073	G	G	75915073	3	3	76	1	0	0	0	0	1	0	0	0	2162	217	8	5	803	5	C2orf3	2	75915073	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	4538077	75915073	167284300	71	28732										
LRRTM4	80059	broad.mit.edu	37	chr2	77746749	77746749	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	catataagctggttaaggccGgcaaactgattggatttgag	12	6	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:77746749G>T	uc002snr.2	-	3	661	c.246C>A	c.(244-246)GCC>GCA	p.A82A	LRRTM4_uc002snq.2_Silent_p.A82A|LRRTM4_uc002sns.2_Silent_p.A82A|LRRTM4_uc002snt.2_Silent_p.A83A	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	82	LRR 1.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GGTTAAGGCCGGCAAACTGAT	0.408													19	80	---	---	---	---	PASS	T	77746749	T	T	77746749	2	4	76	1	0	0	0	0	0	0	0	1	9042	1103	39	1		1	LRRTM4	2	77746749	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	1831676	77746749	165452624	72	28733										
REG1A	5967	broad.mit.edu	37	chr2	79348732	79348732	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cccaggcccggatcagctgcCcagaaggcaccaatgcctat	10	16	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:79348732C>G	uc002snz.2	+	3	212	c.109C>G	c.(109-111)CCA>GCA	p.P37A	REG1A_uc010ffx.1_Missense_Mutation_p.P37A|REG1A_uc010ysd.1_Missense_Mutation_p.P37A	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	37	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						GATCAGCTGCCCAGAAGGCAC	0.527													80	390	---	---	---	---	PASS	G	79348732	G	G	79348732	3	3	76	1	0	0	0	0	1	0	0	0	13210	623	22	4	115	4	REG1A	2	79348732	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1601983	79348732	163850641	73	28734										
DNAH6	1768	broad.mit.edu	37	chr2	84775530	84775530	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agcaaaaggcattattgcatGaggctgacgtggtaagatta	12	5	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:84775530G>C	uc010fgb.2	+	8	1442	c.1305G>C	c.(1303-1305)ATG>ATC	p.M435I	DNAH6_uc002soo.2_Missense_Mutation_p.M14I|DNAH6_uc002sop.2_Missense_Mutation_p.M14I	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	435	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1						ATTATTGCATGAGGCTGACGT	0.348													11	92	---	---	---	---	PASS	C	84775530	C	C	84775530	3	2	76	1	0	0	0	0	1	0	0	0	4605	1290	45	2	1331	2	DNAH6	2	84775530	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	5426798	84775530	158423843	74	28735										
ST3GAL5	8869	broad.mit.edu	37	chr2	86088343	86088343	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	acataatgcatttttttcatGtcacattcttcagtagtata	4	7	4	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:86088343G>T	uc002sqq.1	-	3	408	c.279C>A	c.(277-279)GAC>GAA	p.D93E	ST3GAL5_uc010ysy.1_Missense_Mutation_p.D93E|ST3GAL5_uc010ysz.1_Missense_Mutation_p.D93E|ST3GAL5_uc010fgq.1_5'UTR|ST3GAL5_uc002sqp.1_Missense_Mutation_p.D70E	NM_003896	NP_003887	Q9UNP4	SIAT9_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	93	Lumenal (Potential).				ganglioside biosynthetic process|protein glycosylation	integral to Golgi membrane|integral to plasma membrane	lactosylceramide alpha-2,3-sialyltransferase activity|neolactotetraosylceramide alpha-2,3-sialyltransferase activity				0						TTTTTTTCATGTCACATTCTT	0.333													8	73	---	---	---	---	PASS	T	86088343	T	T	86088343	3	4	76	1	0	0	0	0	1	0	0	0	15217	1368	48	3	997	3	ST3GAL5	2	86088343	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1312813	86088343	157111030	75	28736										
IMMT	10989	broad.mit.edu	37	chr2	86378500	86378500	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agagtcaaatgcccgcttttCttccagcttttgtttctcca	6	12	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:86378500C>T	uc002sqz.3	-	12	1709	c.1321G>A	c.(1321-1323)GAA>AAA	p.E441K	IMMT_uc002sqy.3_Missense_Mutation_p.E182K|IMMT_uc002srb.3_Missense_Mutation_p.E430K|IMMT_uc002sra.3_Missense_Mutation_p.E440K|IMMT_uc010ytd.1_Missense_Mutation_p.E429K|IMMT_uc010yte.1_Missense_Mutation_p.E394K|IMMT_uc002src.1_Missense_Mutation_p.E177K	NM_006839	NP_006830	Q16891	IMMT_HUMAN	inner membrane protein, mitochondrial isoform 1	441	Mitochondrial intermembrane (Potential).					integral to mitochondrial inner membrane	protein binding			skin(1)	1						GCCCGCTTTTCTTCCAGCTTT	0.448													18	123	---	---	---	---	PASS	T	86378500	T	T	86378500	3	4	76	1	0	0	0	0	1	0	0	0	7718	922	32	2	971	2	IMMT	2	86378500	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	290157	86378500	156820873	76	28737										
THNSL2	55258	broad.mit.edu	37	chr2	88474877	88474877	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgcacaaagattcaggagctCcagatgacaacggtgctgaa	11	9	1	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:88474877C>A	uc002ssz.3	+	4	681	c.528C>A	c.(526-528)CTC>CTA	p.L176L	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_Silent_p.L176L|THNSL2_uc002ssx.3_Silent_p.L144L|THNSL2_uc002sta.3_Silent_p.L18L|THNSL2_uc002ssy.3_Silent_p.L176L|THNSL2_uc010fhe.2_Silent_p.L18L	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	176					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						TTCAGGAGCTCCAGATGACAA	0.522													20	80	---	---	---	---	PASS	A	88474877	A	A	88474877	2	1	76	1	0	0	0	0	0	0	0	1	15860	842	30	2		2	THNSL2	2	88474877	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	2096377	88474877	154724496	77	28738										
ZNF514	84874	broad.mit.edu	37	chr2	95815590	95815590	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cctaagttctgactggaagtGaaaggacttcccacactcat	8	11	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:95815590G>A	uc002sue.1	-	5	1014	c.640C>T	c.(640-642)CAC>TAC	p.H214Y	ZNF514_uc002sud.1_Missense_Mutation_p.H287Y	NM_032788	NP_116177	Q96K75	ZN514_HUMAN	zinc finger protein 514	214	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GACTGGAAGTGAAAGGACTTC	0.448													64	313	---	---	---	---	PASS	A	95815590	A	A	95815590	3	1	76	1	0	0	0	0	1	0	0	0	17956	1290	45	2	566	2	ZNF514	2	95815590	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	7340713	95815590	147383783	78	28739										
GPAT2	150763	broad.mit.edu	37	chr2	96690252	96690252	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtgtgaggcctgggccaggcTgcggcaccaccagcaagtca	15	13	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:96690252T>C	uc002svf.2	-	15	1815	c.1592A>G	c.(1591-1593)CAG>CGG	p.Q531R	GPAT2_uc002svd.2_Missense_Mutation_p.Q350R|GPAT2_uc002sve.2_Missense_Mutation_p.Q333R|GPAT2_uc002svg.2_Missense_Mutation_p.Q410R|GPAT2_uc010yuh.1_Missense_Mutation_p.Q460R|GPAT2_uc002svh.2_Missense_Mutation_p.Q531R	NM_207328	NP_997211	Q6NUI2	GPAT2_HUMAN	glycerol-3-phosphate acyltransferase 2,	531					glycerol-3-phosphate metabolic process|phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity				0						TGGGCCAGGCTGCGGCACCAC	0.677													44	177	---	---	---	---	PASS	C	96690252	C	C	96690252	3	2	76	1	0	0	0	0	1	0	0	0	6589	1580	55	5	827	5	GPAT2	2	96690252	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	874662	96690252	146509121	79	28740										
CNTNAP5	129684	broad.mit.edu	37	chr2	125660566	125660566	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	caccactgaaggctgccctgCgccatgccactgtcgcgcct	10	18	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:125660566C>A	uc002tno.2	+	22	3905	c.3541C>A	c.(3541-3543)CGC>AGC	p.R1181S	CNTNAP5_uc010flu.2_Missense_Mutation_p.R1182S	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	1181	Extracellular (Potential).|Laminin G-like 4.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GGCTGCCCTGCGCCATGCCAC	0.537													10	27	---	---	---	---	PASS	A	125660566	A	A	125660566	3	1	76	1	0	0	0	0	1	0	0	0	3650	768	27	1	3627	1	CNTNAP5	2	125660566	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	28970314	125660566	117538807	80	28741										
AMMECR1L	83607	broad.mit.edu	37	chr2	128628485	128628485	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctcgggtcagggggggaaatCggctgtccttaagtgcactg	16	9	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:128628485C>A	uc002tpl.2	-	5	787	c.536G>T	c.(535-537)CGA>CTA	p.R179L	AMMECR1L_uc002tpm.2_Missense_Mutation_p.R179L	NM_031445	NP_113633	Q6DCA0	AMERL_HUMAN	AMME chromosomal region gene 1-like	179	AMMECR1.									central_nervous_system(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.07)		GGGGGGAAATCGGCTGTCCTT	0.517													6	36	---	---	---	---	PASS	A	128628485	A	A	128628485	3	1	76	1	0	0	0	0	1	0	0	0	579	884	31	2	412	2	AMMECR1L	2	128628485	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2967919	128628485	114570888	81	28742										
PLA2R1	22925	broad.mit.edu	37	chr2	160803951	160803951	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttcctttttgcaaaattcatGagcagcctcaaaactcatac	4	11	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:160803951G>C	uc002ube.1	-	26	4036	c.3829C>G	c.(3829-3831)CAT>GAT	p.H1277D	PLA2R1_uc010zcp.1_Missense_Mutation_p.H1277D|PLA2R1_uc002ubf.2_Missense_Mutation_p.H1277D	NM_007366	NP_031392	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1 isoform 1 precursor	1277	Extracellular (Potential).|C-type lectin 8.				endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding			skin(2)|ovary(1)	3						CAAAATTCATGAGCAGCCTCA	0.348													26	121	---	---	---	---	PASS	C	160803951	C	C	160803951	3	2	76	1	0	0	0	0	1	0	0	0	12010	1290	45	2	590	2	PLA2R1	2	160803951	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	32175466	160803951	82395422	82	28743										
PLA2R1	22925	broad.mit.edu	37	chr2	160824165	160824165	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agatactaggcatagaaactGaacactcttcactaccccag	6	12	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:160824165G>A	uc002ube.1	-	20	2996	c.2789C>T	c.(2788-2790)TCA>TTA	p.S930L	PLA2R1_uc010zcp.1_Missense_Mutation_p.S930L|PLA2R1_uc002ubf.2_Missense_Mutation_p.S930L	NM_007366	NP_031392	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1 isoform 1 precursor	930	Extracellular (Potential).|C-type lectin 5.				endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding			skin(2)|ovary(1)	3						CATAGAAACTGAACACTCTTC	0.408													28	130	---	---	---	---	PASS	A	160824165	A	A	160824165	3	1	76	1	0	0	0	0	1	0	0	0	12010	1294	45	2	1654	2	PLA2R1	2	160824165	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	20214	160824165	82375208	83	28744										
KCNH7	90134	broad.mit.edu	37	chr2	163241255	163241255	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcctgaggtgggcactgtttCttcaaaatcgagcccagatg	11	10	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:163241255C>T	uc002uch.1	-	13	3117	c.2905G>A	c.(2905-2907)GAA>AAA	p.E969K		NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	969	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	GGCACTGTTTCTTCAAAATCG	0.433													43	235	---	---	---	---	PASS	T	163241255	T	T	163241255	3	4	76	1	0	0	0	0	1	0	0	0	8037	922	32	2	701	2	KCNH7	2	163241255	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2417090	163241255	79958118	84	28745										
FIGN	55137	broad.mit.edu	37	chr2	164467850	164467850	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tggcttccacaggtactactTgaataactaggttctgtcag	9	9	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:164467850T>A	uc002uck.1	-	3	803	c.492A>T	c.(490-492)TCA>TCT	p.S164S		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	164						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						AGGTACTACTTGAATAACTAG	0.507													10	71	---	---	---	---	PASS	A	164467850	A	A	164467850	2	1	76	1	0	0	0	0	0	0	0	1	5891	1799	63	5		5	FIGN	2	164467850	Silent	SNP	T	TCGA-37-3783-01A-01D-1267-08	1226595	164467850	78731523	85	28746										
PPIG	9360	broad.mit.edu	37	chr2	170488434	170488434	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aaacagagagagagaaagggAaagagagtggtatgtgaata	15	1	0	5			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:170488434A>T	uc002uez.2	+	11	1140	c.920A>T	c.(919-921)GAA>GTA	p.E307V	PPIG_uc010fpx.2_Missense_Mutation_p.E292V|PPIG_uc010fpy.2_Missense_Mutation_p.E300V|PPIG_uc002ufa.2_Missense_Mutation_p.E307V|PPIG_uc002ufb.2_Missense_Mutation_p.E307V|PPIG_uc002ufd.2_Missense_Mutation_p.E304V	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G	307					protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	agagaaagggaaagagagTGG	0.239													10	43	---	---	---	---	PASS	T	170488434	T	T	170488434	3	4	76	1	0	0	0	0	1	0	0	0	12324	246	9	5	954	5	PPIG	2	170488434	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	6020584	170488434	72710939	86	28747										
TTN	7273	broad.mit.edu	37	chr2	179599307	179599307	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tctcactatgtctgcaggctCaagagttttgatgaaagaag	10	7	3	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:179599307C>G	uc010zfg.1	-	49	11736	c.11512G>C	c.(11512-11514)GAG>CAG	p.E3838Q	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E499Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4765							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)			TCTGCAGGCTCAAGAGTTTTG	0.363													24	137	---	---	---	---	PASS	G	179599307	G	G	179599307	3	3	76	1	0	0	0	0	1	0	0	0	16732	835	29	2	89529	2	TTN	2	179599307	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	9110873	179599307	63600066	87	28748										
TTN	7273	broad.mit.edu	37	chr2	179600714	179600714	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tggtttctatcacaggagtcCctgtcactgtgcagatgaac	10	10	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:179600714C>A	uc010zfg.1	-	47	10951	c.10727G>T	c.(10726-10728)GGG>GTG	p.G3576V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.G237V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4503							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)			CACAGGAGTCCCTGTCACTGT	0.453													30	86	---	---	---	---	PASS	A	179600714	A	A	179600714	3	1	76	1	0	0	0	0	1	0	0	0	16732	623	22	3	90322	3	TTN	2	179600714	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1407	179600714	63598659	88	28749										
TTN	7273	broad.mit.edu	37	chr2	179611982	179611982	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgggggtgtggagtatctttCtcctacctcaccttcggaag	12	10	3	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:179611982C>T	uc002unb.2	-	46	15369	c.15145G>A	c.(15145-15147)GAA>AAA	p.E5049K	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	1153							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)			GAGTATCTTTCTCCTACCTCA	0.483													24	96	---	---	---	---	PASS	T	179611982	T	T	179611982	3	4	76	1	0	0	0	0	1	0	0	0	16732	922	32	2	95152	2	TTN	2	179611982	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	11268	179611982	63587391	89	28750										
CWC22	57703	broad.mit.edu	37	chr2	180817210	180817210	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aaacttactcatcctttaatCttgcattaagtttaggaaga	5	7	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:180817210C>G	uc010frh.1	-	17	2105	c.1805G>C	c.(1804-1806)AGA>ACA	p.R602T	CWC22_uc002uno.2_Missense_Mutation_p.R124T|CWC22_uc002unp.2_Missense_Mutation_p.R602T	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	602						catalytic step 2 spliceosome	protein binding|RNA binding				0						ATCCTTTAATCTTGCATTAAG	0.358													2	12	---	---	---	---	PASS	G	180817210	G	G	180817210	3	3	76	1	0	0	0	0	1	0	0	0	4068	913	32	2	937	2	CWC22	2	180817210	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1205228	180817210	62382163	90	28751										
FAM171B	165215	broad.mit.edu	37	chr2	187626263	187626263	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atcactaaacttgaggtcctCaagagagaccagacaacttc	7	11	2	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:187626263C>A	uc002ups.2	+	8	1306	c.1194C>A	c.(1192-1194)CTC>CTA	p.L398L	FAM171B_uc002upr.1_Silent_p.L398L|FAM171B_uc002upt.2_5'Flank	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	398	Cytoplasmic (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						TTGAGGTCCTCAAGAGAGACC	0.358													59	270	---	---	---	---	PASS	A	187626263	A	A	187626263	2	1	76	1	0	0	0	0	0	0	0	1	5491	813	29	2		2	FAM171B	2	187626263	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	6809053	187626263	55573110	91	28752										
ANKRD44	91526	broad.mit.edu	37	chr2	197870509	197870509	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gccatttggagcagctcgctCagccacgtggcgtggccacg	14	14	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:197870509C>T	uc002uua.1	-	21	2258	c.2181G>A	c.(2179-2181)CTG>CTA	p.L727L	ANKRD44_uc002utz.3_Silent_p.L459L	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	752	ANK 22.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GCAGCTCGCTCAGCCACGTGG	0.527													54	296	---	---	---	---	PASS	T	197870509	T	T	197870509	2	4	76	1	0	0	0	0	0	0	0	1	672	813	29	2		2	ANKRD44	2	197870509	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	10244246	197870509	45328864	92	28753										
RQCD1	9125	broad.mit.edu	37	chr2	219445385	219445385	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaaaatgctttgctggagctAagtaagaagcgagaatctgt	12	5	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:219445385A>T	uc010zkh.1	+	2	126	c.126A>T	c.(124-126)CTA>CTT	p.L42L	RQCD1_uc002vih.1_Silent_p.L42L|RQCD1_uc010zki.1_Silent_p.L42L	NM_005444	NP_005435	Q92600	RCD1_HUMAN	RCD1 required for cell differentiation1 homolog	42					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|sex differentiation|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(1)|skin(1)	2		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000192)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGCTGGAGCTAAGTAAGAAGC	0.463													20	103	---	---	---	---	PASS	T	219445385	T	T	219445385	2	4	76	1	0	0	0	0	0	0	0	1	13670	349	13	5		5	RQCD1	2	219445385	Silent	SNP	A	TCGA-37-3783-01A-01D-1267-08	21574876	219445385	23753988	93	28754										
SPEG	10290	broad.mit.edu	37	chr2	220337643	220337643	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctgacgtacacagtgcagcaCcaggtgctgggctcggacca	13	13	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:220337643C>T	uc010fwg.2	+	16	3972	c.3972C>T	c.(3970-3972)CAC>CAT	p.H1324H		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1324	Fibronectin type-III 1.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CAGTGCAGCACCAGGTGCTGG	0.667													8	126	---	---	---	---	PASS	T	220337643	T	T	220337643	2	4	76	1	0	0	0	0	0	0	0	1	15035	506	18	3		3	SPEG	2	220337643	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	892258	220337643	22861730	94	28755										
DOCK10	55619	broad.mit.edu	37	chr2	225729638	225729638	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccttgatgtgaggttcttctGattgtcttggagtgatggtg	14	5	3	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:225729638G>C	uc010fwz.1	-	12	1663	c.1424C>G	c.(1423-1425)TCA>TGA	p.S475*	DOCK10_uc002vob.2_Nonsense_Mutation_p.S469*|DOCK10_uc002vod.1_Nonsense_Mutation_p.S475*	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	475							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		AGGTTCTTCTGATTGTCTTGG	0.448													33	367	---	---	---	---	PASS	C	225729638	C	C	225729638	4	2	76	1	0	0	0	0	0	1	0	0	4685	1294	45	2	5316	2	DOCK10	2	225729638	Nonsense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	5391995	225729638	17469735	95	28756										
SLC16A14	151473	broad.mit.edu	37	chr2	230923839	230923839	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aggtgatgcccatgctgaggGagctgacccaggcggtcagg	17	10	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr2:230923839G>C	uc002vqd.1	-	2	593	c.230C>G	c.(229-231)TCC>TGC	p.S77C	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Missense_Mutation_p.S77C|SLC16A14_uc002vqf.2_Missense_Mutation_p.S77C	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	77	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		CATGCTGAGGGAGCTGACCCA	0.527													8	102	---	---	---	---	PASS	C	230923839	C	C	230923839	3	2	76	1	0	0	0	0	1	0	0	0	14407	1174	41	2	1318	2	SLC16A14	2	230923839	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	5194201	230923839	12275534	96	28757										
CNTN6	27255	broad.mit.edu	37	chr3	1363468	1363468	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aggcttttatgagtgcattgCaagcaaccttcgaggaagaa	11	7	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:1363468C>G	uc003boz.2	+	8	1163	c.896C>G	c.(895-897)GCA>GGA	p.A299G	CNTN6_uc011asj.1_Missense_Mutation_p.A227G|CNTN6_uc003bpa.2_Missense_Mutation_p.A299G	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	299	Ig-like C2-type 3.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		GAGTGCATTGCAAGCAACCTT	0.408													32	161	---	---	---	---	PASS	G	1363468	G	G	1363468	3	3	76	1	0	0	0	0	1	0	0	0	3645	710	25	4	922	4	CNTN6	3	1363468	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08		1363468	196658962	97	28758										
WNT7A	7476	broad.mit.edu	37	chr3	13921278	13921278	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	accatgcccaggctgagaaaGaggtggcccaggcagcgccg	15	13	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:13921278G>C	uc003bye.1	-	1	341	c.36C>G	c.(34-36)CTC>CTG	p.L12L		NM_004625	NP_004616	O00755	WNT7A_HUMAN	wingless-type MMTV integration site family,	12					activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3						GGCTGAGAAAGAGGTGGCCCA	0.493													14	50	---	---	---	---	PASS	C	13921278	C	C	13921278	2	2	76	1	0	0	0	0	0	0	0	1	17391	929	33	2		2	WNT7A	3	13921278	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	12557810	13921278	184101152	98	28759										
LAMB2	3913	broad.mit.edu	37	chr3	49161171	49161171	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccttccgcaccgcagctcctCtgtggcctccacaagctgtg	9	18	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:49161171C>G	uc003cwe.2	-	24	4086	c.3787G>C	c.(3787-3789)GAG>CAG	p.E1263Q	USP19_uc003cvz.3_5'Flank|USP19_uc011bcg.1_5'Flank|USP19_uc003cwb.2_5'Flank|USP19_uc003cwd.1_5'Flank|USP19_uc011bch.1_5'Flank|USP19_uc011bci.1_5'Flank	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1263	Domain II.|Potential.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CGCAGCTCCTCTGTGGCCTCC	0.617													36	106	---	---	---	---	PASS	G	49161171	G	G	49161171	3	3	76	1	0	0	0	0	1	0	0	0	8611	922	32	2	1645	2	LAMB2	3	49161171	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	35239893	49161171	148861259	99	28760										
MAGI1	9223	broad.mit.edu	37	chr3	65425633	65425633	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgctgctgctcaagctgcttCttccgtttggcttctagaac	9	12	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:65425633C>T	uc003dmn.2	-	9	1717	c.1191G>A	c.(1189-1191)AAG>AAA	p.K397K	MAGI1_uc003dmm.2_Silent_p.K397K|MAGI1_uc003dmo.2_Silent_p.K397K|MAGI1_uc003dmp.2_Silent_p.K397K|MAGI1_uc010hny.2_Silent_p.K282K	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	397					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		CAAGCTGCTTCTTCCGTTTGG	0.323											OREG0015658	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	87	---	---	---	---	PASS	T	65425633	T	T	65425633	2	4	76	1	0	0	0	0	0	0	0	1	9190	912	32	2		2	MAGI1	3	65425633	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	16264462	65425633	132596797	100	28761										
OR5H2	79310	broad.mit.edu	37	chr3	98002374	98002374	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctggctcaattcaggtattcAccattgtgacagttcttaat	7	9	4	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:98002374A>G	uc003dsj.1	+	1	643	c.643A>G	c.(643-645)ACC>GCC	p.T215A		NM_001005482	NP_001005482	Q8NGV7	OR5H2_HUMAN	olfactory receptor, family 5, subfamily H,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3						TCAGGTATTCACCATTGTGAC	0.348													18	76	---	---	---	---	PASS	G	98002374	G	G	98002374	3	3	76	1	0	0	0	0	1	0	0	0	11162	159	6	5	645	5	OR5H2	3	98002374	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	32576741	98002374	100020056	101	28762										
MYH15	22989	broad.mit.edu	37	chr3	108175640	108175640	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	taaaatcagcatactgcagtCggtttggaaaaccttcacgg	9	9	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:108175640C>G	uc003dxa.1	-	20	2228	c.2171G>C	c.(2170-2172)CGA>CCA	p.R724P		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	724	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						ATACTGCAGTCGGTTTGGAAA	0.443													62	214	---	---	---	---	PASS	G	108175640	G	G	108175640	3	3	76	1	0	0	0	0	1	0	0	0	10034	884	31	2	3761	2	MYH15	3	108175640	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	10173266	108175640	89846790	102	28763										
C3orf27	23434	broad.mit.edu	37	chr3	128292266	128292266	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aggcccacagtggcacagcaGagtcctggcacattgtgggc	14	12	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:128292266G>C	uc003ekq.2	-	3	1274	c.307C>G	c.(307-309)CTG>GTG	p.L103V		NM_007354	NP_031380	O15544	GR6_HUMAN	putative GR6 protein	103											0				GBM - Glioblastoma multiforme(114;0.176)		TGGCACAGCAGAGTCCTGGCA	0.577													34	170	---	---	---	---	PASS	C	128292266	C	C	128292266	3	2	76	1	0	0	0	0	1	0	0	0	2219	933	33	2	146	2	C3orf27	3	128292266	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	20116626	128292266	69730164	103	28764										
NUDT16	131870	broad.mit.edu	37	chr3	131100970	131100970	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agaagcctagaggacgggctGaaccgcgagctgcgcgagga	17	10	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:131100970G>A	uc003eof.2	+	2	161	c.120G>A	c.(118-120)CTG>CTA	p.L40L	uc003eoc.1_5'Flank|NUDT16_uc011bln.1_Silent_p.L27L|NUDT16_uc003eog.1_Silent_p.L40L	NM_152395	NP_689608	Q96DE0	NUD16_HUMAN	nudix-type motif 16	73	Nudix box.|Nudix hydrolase.					nucleolus|nucleoplasm	hydrolase activity|metal ion binding|RNA binding				0						AGGACGGGCTGAACCGCGAGC	0.692													21	136	---	---	---	---	PASS	A	131100970	A	A	131100970	2	1	76	1	0	0	0	0	0	0	0	1	10732	1277	45	2		2	NUDT16	3	131100970	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	2808704	131100970	66921460	104	28765										
ZIC4	84107	broad.mit.edu	37	chr3	147114180	147114180	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctgggggaggcctggggaggCtcctcgtggaggcccgggaa	21	10	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:147114180C>A	uc003ewd.1	-	3	420	c.147G>T	c.(145-147)GAG>GAT	p.E49D	ZIC4_uc003ewc.1_5'UTR|ZIC4_uc011bno.1_Missense_Mutation_p.E99D	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	49						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						CCTGGGGAGGCTCCTCGTGGA	0.687													21	73	---	---	---	---	PASS	A	147114180	A	A	147114180	3	1	76	1	0	0	0	0	1	0	0	0	17678	796	28	3	869	3	ZIC4	3	147114180	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	16013210	147114180	50908250	105	28766										
MED12L	116931	broad.mit.edu	37	chr3	151072956	151072956	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agaacaaacaggagacatttCcaacactggagactgtgttc	9	9	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:151072956C>G	uc003eyp.2	+	16	2379	c.2341C>G	c.(2341-2343)CCA>GCA	p.P781A	MED12L_uc011bnz.1_Missense_Mutation_p.P641A|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_5'Flank	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	781					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)			GGAGACATTTCCAACACTGGA	0.378													19	130	---	---	---	---	PASS	G	151072956	G	G	151072956	3	3	76	1	0	0	0	0	1	0	0	0	9429	855	30	2	2403	2	MED12L	3	151072956	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	3958776	151072956	46949474	106	28767										
SAMD7	344658	broad.mit.edu	37	chr3	169644860	169644860	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gggtctcacaccactaccctGaaagcaaaggcctgggacga	11	13	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:169644860G>T	uc003fgd.2	+	6	1077	c.810G>T	c.(808-810)CTG>CTT	p.L270L	SAMD7_uc003fge.2_Silent_p.L270L|SAMD7_uc011bpo.1_Silent_p.L171L	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	270										skin(1)	1	all_cancers(22;1.55e-22)|all_epithelial(15;2.41e-27)|all_lung(20;3.52e-17)|Lung NSC(18;1.44e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0106)			CCACTACCCTGAAAGCAAAGG	0.532													5	224	---	---	---	---	PASS	T	169644860	T	T	169644860	2	4	76	1	0	0	0	0	0	0	0	1	13824	1277	45	2		2	SAMD7	3	169644860	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	18571904	169644860	28377570	107	28768										
PIK3CA	5290	broad.mit.edu	37	chr3	178952085	178952085	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaaacaaatgaatgatgcacAtcatggtggctggacaacaa	10	7	1	2	rs121913279		TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:178952085A>G	uc003fjk.2	+	21	3297	c.3140A>G	c.(3139-3141)CAT>CGT	p.H1047R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1047	PI3K/PI4K.		H -> L (in cancer).|H -> R (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; requires binding to p85 regulatory subunit to induce cellular transformation but not interaction with RAS; may mimic the conformatitonal change triggered by the interaction with RAS; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells; increases lipid kinase activity; may alter the interaction of the PI3K/ PI4K kinase domain with the cell membrane).|H -> Y (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.H1047R(1269)|p.H1047L(152)|p.H1047Y(31)|p.H1047Q(3)|p.H1047T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AATGATGCACATCATGGTGGC	0.378	H1047R(BT20_BREAST)|H1047R(NCIH1048_LUNG)|H1047R(MCAS_OVARY)|H1047R(HCC1954_BREAST)|H1047R(RKO_LARGE_INTESTINE)|H1047L(EFM19_BREAST)|H1047R(CAL33_UPPER_AERODIGESTIVE_TRACT)|H1047R(CAL29_URINARY_TRACT)|H1047R(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|H1047R(LS180_LARGE_INTESTINE)|H1047R(T47D_BREAST)|H1047R(HCT116_LARGE_INTESTINE)|H1047R(HSC2_UPPER_AERODIGESTIVE_TRACT)|H1047R(SKOV3_OVARY)|H1047R(MDAMB453_BREAST)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			50	105	---	---	---	---	PASS	G	178952085	G	G	178952085	3	3	76	1	0	0	0	0	1	0	0	0	11913	217	8	5	3218	5	PIK3CA	3	178952085	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	9307225	178952085	19070345	108	28769										
MCF2L2	23101	broad.mit.edu	37	chr3	183041140	183041140	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	acagagtttaccatgatgatCtgtaaggtaaaaatttaatt	7	4	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:183041140C>A	uc003fli.1	-	6	577	c.487_splice	c.e6-1	p.I163_splice	MCF2L2_uc003flj.1_Splice_Site_p.I163_splice|MCF2L2_uc003flp.1_Splice_Site_p.I198_splice	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor						regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			CCATGATGATCTGTAAGGTAA	0.338													38	148	---	---	---	---	PASS	A	183041140	A	A	183041140	5	1	76	1	0	0	0	0	0	0	1	0	9380	927	32	2	2958	2	MCF2L2	3	183041140	Splice_Site	SNP	C	TCGA-37-3783-01A-01D-1267-08	4089055	183041140	14981290	109	28770										
C3orf59	151963	broad.mit.edu	37	chr3	192516700	192516700	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggccgggacagcagtttaatGatgatggctttgcaggcctg	15	8	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr3:192516700G>C	uc011bsp.1	-	2	1272	c.951C>G	c.(949-951)ATC>ATG	p.I317M		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	317											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		GCAGTTTAATGATGATGGCTT	0.557													20	92	---	---	---	---	PASS	C	192516700	C	C	192516700	3	2	76	1	0	0	0	0	1	0	0	0	2237	1280	45	2	528	2	C3orf59	3	192516700	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	9475560	192516700	5505730	110	28771										
HTT	3064	broad.mit.edu	37	chr4	3230464	3230464	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcaccacccacgtctccagtCaactccaggttttccaatgg	6	16	3	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:3230464C>G	uc011bvq.1	+	59	8122	c.7977C>G	c.(7975-7977)GTC>GTG	p.V2659V		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2657					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		CGTCTCCAGTCAACTCCAGGT	0.383													24	114	---	---	---	---	PASS	G	3230464	G	G	3230464	2	3	76	1	0	0	0	0	0	0	0	1	7457	813	29	2		2	HTT	4	3230464	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08		3230464	187923812	111	28772										
ACOX3	8310	broad.mit.edu	37	chr4	8416093	8416093	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtggcttaattcggtcagagCaaaacatccaaaaatctaaa	7	8	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:8416093C>A	uc010idk.2	-	5	614	c.469G>T	c.(469-471)GCT>TCT	p.A157S	ACOX3_uc003glc.3_Missense_Mutation_p.A157S|ACOX3_uc003gld.3_Missense_Mutation_p.A157S|ACOX3_uc003gle.1_Missense_Mutation_p.A62S	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	157					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						TCGGTCAGAGCAAAACATCCA	0.468													4	117	---	---	---	---	PASS	A	8416093	A	A	8416093	3	1	76	1	0	0	0	0	1	0	0	0	160	710	25	3	1689	3	ACOX3	4	8416093	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	5185629	8416093	182738183	112	28773										
BOD1L	259282	broad.mit.edu	37	chr4	13604368	13604368	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcccgttaacttacttccaaGaggcatgattacctttcctt	6	12	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:13604368G>C	uc003gmz.1	-	10	4273	c.4156C>G	c.(4156-4158)CTT>GTT	p.L1386V	BOD1L_uc010idr.1_Missense_Mutation_p.L723V	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1386							DNA binding			ovary(5)|breast(1)	6						TTACTTCCAAGAGGCATGATT	0.408													4	138	---	---	---	---	PASS	C	13604368	C	C	13604368	3	2	76	1	0	0	0	0	1	0	0	0	1483	942	33	2	5067	2	BOD1L	4	13604368	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	5188275	13604368	177549908	113	28774										
C1QTNF7	114905	broad.mit.edu	37	chr4	15437466	15437466	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aactactcccccaggtatatCtgcagcattcctggcttgcc	7	15	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:15437466C>T	uc011bxb.1	+	2	326	c.99C>T	c.(97-99)ATC>ATT	p.I33I	C1QTNF7_uc003gno.2_Silent_p.I40I|C1QTNF7_uc003gnp.2_Silent_p.I33I	NM_001135171	NP_001128643	Q9BXJ2	C1QT7_HUMAN	C1q and tumor necrosis factor related protein 7	33						collagen					0						CCAGGTATATCTGCAGCATTC	0.542													18	60	---	---	---	---	PASS	T	15437466	T	T	15437466	2	4	76	1	0	0	0	0	0	0	0	1	1968	903	32	2		2	C1QTNF7	4	15437466	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	1833098	15437466	175716810	114	28775										
ANKRD17	26057	broad.mit.edu	37	chr4	74005638	74005638	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agactgttgctgctgttgctGaagttgaattctttgagctt	11	6	1	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:74005638G>T	uc003hgp.2	-	15	2812	c.2695C>A	c.(2695-2697)CAG>AAG	p.Q899K	ANKRD17_uc003hgo.2_Missense_Mutation_p.Q786K|ANKRD17_uc003hgq.2_Intron|ANKRD17_uc003hgr.2_Missense_Mutation_p.Q899K|ANKRD17_uc011cbd.1_Missense_Mutation_p.Q464K	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	899	Gln-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TGCTGTTGCTGAAGTTGAATT	0.438													32	210	---	---	---	---	PASS	T	74005638	T	T	74005638	3	4	76	1	0	0	0	0	1	0	0	0	646	1299	45	2	5196	2	ANKRD17	4	74005638	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	58568172	74005638	117148638	115	28776										
PPEF2	5470	broad.mit.edu	37	chr4	76805905	76805905	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tatgaccgttctggcgacggGaggccattcttttcaacaag	11	10	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:76805905G>A	uc003hix.2	-	8	945	c.588C>T	c.(586-588)CTC>CTT	p.L196L	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Silent_p.L196L	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	196	Catalytic.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			CTGGCGACGGGAGGCCATTCT	0.433													55	297	---	---	---	---	PASS	A	76805905	A	A	76805905	2	1	76	1	0	0	0	0	0	0	0	1	12308	1161	41	2		2	PPEF2	4	76805905	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	2800267	76805905	114348371	116	28777										
BMP2K	55589	broad.mit.edu	37	chr4	79782588	79782588	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctgaaccgatgactgctagtGaagcagctgctaggaaaagc	12	9	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:79782588G>A	uc003hlk.2	+	9	1199	c.1033G>A	c.(1033-1035)GAA>AAA	p.E345K	BMP2K_uc010ijl.1_RNA|BMP2K_uc003hlj.2_Missense_Mutation_p.E345K	NM_198892	NP_942595	Q9NSY1	BMP2K_HUMAN	BMP-2 inducible kinase isoform a	345						nucleus	ATP binding|protein serine/threonine kinase activity			lung(1)	1						GACTGCTAGTGAAGCAGCTGC	0.294													5	23	---	---	---	---	PASS	A	79782588	A	A	79782588	3	1	76	1	0	0	0	0	1	0	0	0	1460	1291	45	2	1067	2	BMP2K	4	79782588	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	2976683	79782588	111371688	117	28778										
PPM1K	152926	broad.mit.edu	37	chr4	89199700	89199700	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cttctcacctggttcccaccActtctgaccaaagtaattaa	4	14	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:89199700A>G	uc003hrm.3	-	2	426	c.36T>C	c.(34-36)AGT>AGC	p.S12S	PPM1K_uc010ikp.1_Silent_p.S12S|PPM1K_uc003hrn.2_Silent_p.S12S	NM_152542	NP_689755	Q8N3J5	PPM1K_HUMAN	protein phosphatase 1K (PP2C domain containing)	12					protein dephosphorylation	mitochondrial matrix|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000192)		GGTTCCCACCACTTCTGACCA	0.517													12	68	---	---	---	---	PASS	G	89199700	G	G	89199700	2	3	76	1	0	0	0	0	0	0	0	1	12343	156	6	5		5	PPM1K	4	89199700	Silent	SNP	A	TCGA-37-3783-01A-01D-1267-08	9417112	89199700	101954576	118	28779										
PDHA2	5161	broad.mit.edu	37	chr4	96761311	96761311	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccgtgaagaatatgctggccGccttcatctcccgcgtgttg	11	13	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:96761311G>A	uc003htr.3	+	1	73	c.10G>A	c.(10-12)GCC>ACC	p.A4T		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	4					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	TATGCTGGCCGCCTTCATCTC	0.587													6	57	---	---	---	---	PASS	A	96761311	A	A	96761311	3	1	76	1	0	0	0	0	1	0	0	0	11665	1087	38	1	12	1	PDHA2	4	96761311	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	7561611	96761311	94392965	119	28780										
BANK1	55024	broad.mit.edu	37	chr4	102965044	102965044	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atctgatgatgacaagttctGtggtcttcctaagaaacaag	9	7	3	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:102965044G>A	uc003hvy.3	+	11	2223	c.1949G>A	c.(1948-1950)TGT>TAT	p.C650Y	BANK1_uc003hvx.3_Missense_Mutation_p.C635Y|BANK1_uc010ill.2_Missense_Mutation_p.C517Y|BANK1_uc003hvz.3_Missense_Mutation_p.C620Y	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	650					B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		GACAAGTTCTGTGGTCTTCCT	0.313													33	139	---	---	---	---	PASS	A	102965044	A	A	102965044	3	1	76	1	0	0	0	0	1	0	0	0	1309	1377	48	3	1991	3	BANK1	4	102965044	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	6203733	102965044	88189232	120	28781										
NHEDC2	133308	broad.mit.edu	37	chr4	103971519	103971519	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gactgggatatttctgatgaGaaaccctgcaagcagcatgc	11	9	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:103971519G>T	uc003hwx.3	-	5	1335	c.463C>A	c.(463-465)CTC>ATC	p.L155I	NHEDC2_uc010iln.1_Missense_Mutation_p.L7I|NHEDC2_uc003hwy.2_Missense_Mutation_p.L155I|NHEDC2_uc011cew.1_Missense_Mutation_p.L98I|NHEDC2_uc011cex.1_Missense_Mutation_p.L98I|NHEDC2_uc011cey.1_Missense_Mutation_p.L98I	NM_178833	NP_849155	Q86UD5	NHDC2_HUMAN	Na+/H+ exchanger domain containing 2	155	Helical; (Potential).				sodium ion transport	integral to membrane|mitochondrial membrane	solute:hydrogen antiporter activity				0				OV - Ovarian serous cystadenocarcinoma(123;2.3e-08)		TTTCTGATGAGAAACCCTGCA	0.368													14	72	---	---	---	---	PASS	T	103971519	T	T	103971519	3	4	76	1	0	0	0	0	1	0	0	0	10401	942	33	2	1182	2	NHEDC2	4	103971519	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1006475	103971519	87182757	121	28782										
CENPE	1062	broad.mit.edu	37	chr4	104032074	104032074	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agccttatatgttcacttttCaaaataagagcttttgtgtt	6	6	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:104032074C>T	uc003hxb.1	-	47	7725	c.7635G>A	c.(7633-7635)TTG>TTA	p.L2545L	CENPE_uc003hxc.1_Silent_p.L2424L	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	2545	Potential.|Globular autoinhibitory domain (By similarity).				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		GTTCACTTTTCAAAATAAGAG	0.348													32	167	---	---	---	---	PASS	T	104032074	T	T	104032074	2	4	76	1	0	0	0	0	0	0	0	1	3230	825	29	2		2	CENPE	4	104032074	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	60555	104032074	87122202	122	28783										
C4orf21	55345	broad.mit.edu	37	chr4	113483616	113483616	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtcagttctgtgctagcattAcaaaccaataacgcatggac	8	10	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:113483616A>G	uc003iau.2	-	18	4819	c.4608T>C	c.(4606-4608)TGT>TGC	p.C1536C	C4orf21_uc003iav.2_RNA|C4orf21_uc003iat.2_5'Flank	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	358						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		TGCTAGCATTACAAACCAATA	0.363													7	14	---	---	---	---	PASS	G	113483616	G	G	113483616	2	3	76	1	0	0	0	0	0	0	0	1	2254	389	14	5		5	C4orf21	4	113483616	Silent	SNP	A	TCGA-37-3783-01A-01D-1267-08	9451542	113483616	77670660	123	28784										
UGT8	7368	broad.mit.edu	37	chr4	115585244	115585244	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atctgtcagaagacattgctAacaaactggcaggagctctg	10	9	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:115585244A>G	uc003ibs.2	+	3	1438	c.916A>G	c.(916-918)AAC>GAC	p.N306D	UGT8_uc003ibt.2_Missense_Mutation_p.N306D|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	306					central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		AGACATTGCTAACAAACTGGC	0.403													10	168	---	---	---	---	PASS	G	115585244	G	G	115585244	3	3	76	1	0	0	0	0	1	0	0	0	16962	362	13	5	922	5	UGT8	4	115585244	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	2101628	115585244	75569032	124	28785										
BBS7	55212	broad.mit.edu	37	chr4	122780234	122780234	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggaaggcagatcacatcattGattttatccccagaaaggta	9	8	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:122780234G>C	uc003ied.2	-	5	615	c.441C>G	c.(439-441)ATC>ATG	p.I147M	BBS7_uc003iee.1_Missense_Mutation_p.I147M	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	147					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						TCACATCATTGATTTTATCCC	0.418									Bardet-Biedl_syndrome				39	206	---	---	---	---	PASS	C	122780234	C	C	122780234	3	2	76	1	0	0	0	0	1	0	0	0	1341	1280	45	2	1771	2	BBS7	4	122780234	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	7194990	122780234	68374042	125	28786										
IL21	59067	broad.mit.edu	37	chr4	123542124	123542124	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccccaagaagatgaccatcaGacagatgacaatcctctcca	6	14	2	6			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:123542124G>A	uc003ies.2	-	1	88	c.43C>T	c.(43-45)CTG>TTG	p.L15L	uc003iet.2_RNA|IL21_uc010int.2_Silent_p.L8L	NM_021803	NP_068575	Q9HBE4	IL21_HUMAN	interleukin 21	8					cell maturation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-17 production|positive regulation of T cell proliferation|signal transduction	extracellular space	cytokine activity|interleukin-2 receptor binding				0						ATGACCATCAGACAGATGACA	0.448													10	128	---	---	---	---	PASS	A	123542124	A	A	123542124	2	1	76	1	0	0	0	0	0	0	0	1	7670	933	33	2		2	IL21	4	123542124	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	761890	123542124	67612152	126	28787										
FAT4	79633	broad.mit.edu	37	chr4	126241565	126241565	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aacatgagaattggtgaactCgtgtcctctgttactgcaac	9	9	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:126241565C>T	uc003ifj.3	+	1	3999	c.3999C>T	c.(3997-3999)CTC>CTT	p.L1333L		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1333	Cadherin 13.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TTGGTGAACTCGTGTCCTCTG	0.358													17	213	---	---	---	---	PASS	T	126241565	T	T	126241565	2	4	76	1	0	0	0	0	0	0	0	1	5692	871	31	2		2	FAT4	4	126241565	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	2699441	126241565	64912711	127	28788										
DDX60	55601	broad.mit.edu	37	chr4	169197295	169197295	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aaggagtggatccttttcatCacctgaacagctatacttaa	7	9	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:169197295C>T	uc003irp.2	-	15	2308	c.2016G>A	c.(2014-2016)GTG>GTA	p.V672V		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	672							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		TCCTTTTCATCACCTGAACAG	0.318													14	81	---	---	---	---	PASS	T	169197295	T	T	169197295	2	4	76	1	0	0	0	0	0	0	0	1	4378	813	29	2		2	DDX60	4	169197295	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	42955730	169197295	21956981	128	28789										
ADAM29	11086	broad.mit.edu	37	chr4	175899051	175899051	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gagtcatcctcagttgacgcCttcccagagtcaacctcctg	8	15	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:175899051C>G	uc003iuc.2	+	5	3045	c.2375C>G	c.(2374-2376)CCT>CGT	p.P792R	ADAM29_uc003iud.2_Missense_Mutation_p.P792R|ADAM29_uc010irr.2_Missense_Mutation_p.P792R|ADAM29_uc011cki.1_Missense_Mutation_p.P792R	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	792	Cytoplasmic (Potential).|6.|9 X 9 AA approximate repeats.				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		CAGTTGACGCCTTCCCAGAGT	0.572													38	204	---	---	---	---	PASS	G	175899051	G	G	175899051	3	3	76	1	0	0	0	0	1	0	0	0	247	681	24	4	2377	4	ADAM29	4	175899051	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	6701756	175899051	15255225	129	28790										
WWC2	80014	broad.mit.edu	37	chr4	184182146	184182146	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gggctctctgaacacctccaGcagagggtcactcaactccc	9	16	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr4:184182146G>C	uc010irx.2	+	11	1552	c.1370G>C	c.(1369-1371)AGC>ACC	p.S457T	WWC2_uc003ivk.3_Missense_Mutation_p.S252T|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_Missense_Mutation_p.S139T|WWC2_uc003ivn.3_Missense_Mutation_p.S21T	NM_024949	NP_079225	Q6AWC2	WWC2_HUMAN	WW and C2 domain containing 2	457	Ser-rich.									ovary(2)|lung(1)	3		all_lung(41;5.28e-14)|Lung NSC(41;1.35e-13)|Colorectal(36;0.00681)|Hepatocellular(41;0.00886)|Renal(120;0.00992)|Prostate(90;0.0237)|all_hematologic(60;0.0592)|Esophageal squamous(56;0.179)|all_neural(102;0.202)		all cancers(43;3.38e-24)|Epithelial(43;1.4e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.09e-09)|GBM - Glioblastoma multiforme(59;3.33e-05)|Colorectal(24;3.58e-05)|STAD - Stomach adenocarcinoma(60;4.21e-05)|COAD - Colon adenocarcinoma(29;0.000171)|LUSC - Lung squamous cell carcinoma(40;0.0145)|READ - Rectum adenocarcinoma(43;0.242)		AACACCTCCAGCAGAGGGTCA	0.512													11	51	---	---	---	---	PASS	C	184182146	C	C	184182146	3	2	76	1	0	0	0	0	1	0	0	0	17409	971	34	4	1412	4	WWC2	4	184182146	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	8283095	184182146	6972130	130	28791										
LRRC14B	389257	broad.mit.edu	37	chr5	195364	195364	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cacctctctttggaagttttGacccagacattcaagaaaca	6	11	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:195364G>T	uc003jal.1	+	2	1469	c.1441G>T	c.(1441-1443)GAC>TAC	p.D481Y		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	481										skin(1)	1						TGGAAGTTTTGACCCAGACAT	0.498													30	243	---	---	---	---	PASS	T	195364	T	T	195364	3	4	76	1	0	0	0	0	1	0	0	0	8969	1290	45	2	1447	2	LRRC14B	5	195364	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08		195364	180719896	131	28792										
NSUN2	54888	broad.mit.edu	37	chr5	6602600	6602600	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tctggttcatacttcagcacGatgcttccctttgctggaaa	8	11	3	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:6602600G>A	uc003jdu.2	-	18	2036	c.1971C>T	c.(1969-1971)ATC>ATT	p.I657I	NSUN2_uc003jds.2_Silent_p.I103I|NSUN2_uc003jdt.2_Silent_p.I421I|NSUN2_uc011cmk.1_Silent_p.I622I|NSUN2_uc003jdv.2_Silent_p.I421I	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	657						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						ACTTCAGCACGATGCTTCCCT	0.478													198	447	---	---	---	---	PASS	A	6602600	A	A	6602600	2	1	76	1	0	0	0	0	0	0	0	1	10678	1048	37	2		2	NSUN2	5	6602600	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	6407236	6602600	174312660	132	28793										
ADAMTS12	81792	broad.mit.edu	37	chr5	33534985	33534985	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgcattttttgaattctggaGgtctgggtttgtgatcacat	11	5	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:33534985G>T	uc003jia.1	-	23	4722	c.4559C>A	c.(4558-4560)CCT>CAT	p.P1520H	ADAMTS12_uc010iuq.1_Missense_Mutation_p.P1435H	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1520	TSP type-1 8.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GAATTCTGGAGGTCTGGGTTT	0.483										HNSCC(64;0.19)			68	155	---	---	---	---	PASS	T	33534985	T	T	33534985	3	4	76	1	0	0	0	0	1	0	0	0	257	1000	35	3	233	3	ADAMTS12	5	33534985	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	26932385	33534985	147380275	133	28794										
C5orf42	65250	broad.mit.edu	37	chr5	37201803	37201803	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtccttggcagagtctatcaGaagttgaaatgtctccgaaa	10	8	3	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:37201803G>T	uc011cpa.1	-	19	3628	c.3397C>A	c.(3397-3399)CTG>ATG	p.L1133M	C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.L208M|C5orf42_uc011cpb.1_Missense_Mutation_p.L14M	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1133										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			GAGTCTATCAGAAGTTGAAAT	0.448													31	205	---	---	---	---	PASS	T	37201803	T	T	37201803	3	4	76	1	0	0	0	0	1	0	0	0	2301	933	33	2	6332	2	C5orf42	5	37201803	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	3666818	37201803	143713457	134	28795										
HMGCS1	3157	broad.mit.edu	37	chr5	43299062	43299062	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcattcaaaggaagtgatccAggcatggtgaaagagcttta	12	6	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:43299062A>C	uc003jnr.3	-	3	213	c.6T>G	c.(4-6)CCT>CCG	p.P2P	HMGCS1_uc003jnq.3_Silent_p.P2P	NM_001098272	NP_001091742	Q01581	HMCS1_HUMAN	hydroxymethylglutaryl-CoA synthase 1	2					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|soluble fraction	hydroxymethylglutaryl-CoA synthase activity				0						GAAGTGATCCAGGCATGGTGA	0.358													24	170	---	---	---	---	PASS	C	43299062	C	C	43299062	2	2	76	1	0	0	0	0	0	0	0	1	7232	175	7	5		5	HMGCS1	5	43299062	Silent	SNP	A	TCGA-37-3783-01A-01D-1267-08	6097259	43299062	137616198	135	28796										
PAIP1	10605	broad.mit.edu	37	chr5	43536991	43536991	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	acagggcattcagcaattctCgaagaccaacctgaagaata	8	10	2	3	rs140543083		TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:43536991C>T	uc003job.2	-	6	1149	c.902G>A	c.(901-903)CGA>CAA	p.R301Q	PAIP1_uc003joa.2_Missense_Mutation_p.R222Q|PAIP1_uc010ivp.2_Missense_Mutation_p.R222Q|PAIP1_uc010ivo.2_RNA|PAIP1_uc003joc.2_Missense_Mutation_p.R189Q	NM_006451	NP_006442	Q9H074	PAIP1_HUMAN	poly(A) binding protein interacting protein 1	301	MIF4G.				mRNA stabilization|nuclear-transcribed mRNA poly(A) tail shortening|translational initiation	cytosol	protein binding|RNA binding|translation activator activity			ovary(1)	1	Lung NSC(6;2.07e-05)					CAGCAATTCTCGAAGACCAAC	0.323													22	71	---	---	---	---	PASS	T	43536991	T	T	43536991	3	4	76	1	0	0	0	0	1	0	0	0	11396	884	31	2	561	2	PAIP1	5	43536991	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	237929	43536991	137378269	136	28797										
MOCS2	4338	broad.mit.edu	37	chr5	52404424	52404424	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaggcacagaaatggtctctGaacgaactcctgttatttca	9	9	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:52404424G>A	uc011cqf.1	-	2	107	c.68C>T	c.(67-69)TCA>TTA	p.S23L	MOCS2_uc003joz.2_5'UTR|uc003jpb.1_5'Flank	NM_176806	NP_789776	O96033	MOC2A_HUMAN	molybdopterin synthase small subunit MOCS2A	23					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex	nucleotide binding				0		Lung NSC(810;3.08e-05)|Breast(144;0.0848)				AATGGTCTCTGAACGAACTCC	0.358													19	92	---	---	---	---	PASS	A	52404424	A	A	52404424	3	1	76	1	0	0	0	0	1	0	0	0	9691	1294	45	2	709	2	MOCS2	5	52404424	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	8867433	52404424	128510836	137	28798										
CDC20B	166979	broad.mit.edu	37	chr5	54420686	54420686	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gttggccctgtgcactggcaCctggatcgtggggccatatt	14	11	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:54420686C>T	uc003jpo.1	-	9	1335	c.1160G>A	c.(1159-1161)GGT>GAT	p.G387D	CDC20B_uc003jpn.1_Missense_Mutation_p.G387D|CDC20B_uc010ivu.1_Missense_Mutation_p.G387D|CDC20B_uc010ivv.1_3'UTR	NM_152623	NP_689836	Q86Y33	CD20B_HUMAN	CDC20 cell division cycle 20 homolog B isoform	387	WD 4.										0		Lung NSC(810;0.000744)|Breast(144;0.159)|Prostate(74;0.194)	LUSC - Lung squamous cell carcinoma(15;0.225)			TGCACTGGCACCTGGATCGTG	0.542													22	102	---	---	---	---	PASS	T	54420686	T	T	54420686	3	4	76	1	0	0	0	0	1	0	0	0	3060	507	18	3	415	3	CDC20B	5	54420686	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2016262	54420686	126494574	138	28799										
PDE4D	5144	broad.mit.edu	37	chr5	58272239	58272239	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcttgtcactttcttagtttCaaccatagtcttcaaatcag	5	10	6	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:58272239C>T	uc003jsa.2	-	13	1940	c.1768G>A	c.(1768-1770)GAA>AAA	p.E590K	PDE4D_uc003jrx.2_Missense_Mutation_p.E454K|PDE4D_uc003jry.2_Missense_Mutation_p.E288K|PDE4D_uc003jrz.2_Missense_Mutation_p.E526K|PDE4D_uc003jsb.2_Missense_Mutation_p.E529K|PDE4D_uc003jrt.2_Missense_Mutation_p.E288K|PDE4D_uc003jru.2_Missense_Mutation_p.E366K|PDE4D_uc003jrv.2_Missense_Mutation_p.E460K|PDE4D_uc003jrw.2_Missense_Mutation_p.E468K|PDE4D_uc003jrs.2_Missense_Mutation_p.E299K	NM_001104631	NP_001098101	Q08499	PDE4D_HUMAN	phosphodiesterase 4D isoform 1	590					signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)	TTCTTAGTTTCAACCATAGTC	0.353													7	16	---	---	---	---	PASS	T	58272239	T	T	58272239	3	4	76	1	0	0	0	0	1	0	0	0	11642	835	29	2	673	2	PDE4D	5	58272239	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	3851553	58272239	122643021	139	28800										
PPWD1	23398	broad.mit.edu	37	chr5	64859172	64859172	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tggtagcgattttcagcagaGacgtagaaggcgccgggacc	15	9	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:64859172G>A	uc003jtv.3	+	1	42	c.35G>A	c.(34-36)AGA>AAA	p.R12K	PPWD1_uc011cqv.1_5'UTR|PPWD1_uc011cqw.1_5'UTR|CENPK_uc003jts.2_5'Flank|CENPK_uc003jtt.2_5'Flank|CENPK_uc003jtu.2_5'Flank	NM_015342	NP_056157	Q96BP3	PPWD1_HUMAN	peptidylprolyl isomerase domain and WD repeat	12	Poly-Arg.				protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00451)		TTTCAGCAGAGACGTAGAAGG	0.567													19	116	---	---	---	---	PASS	A	64859172	A	A	64859172	3	1	76	1	0	0	0	0	1	0	0	0	12414	942	33	2	37	2	PPWD1	5	64859172	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	6586933	64859172	116056088	140	28801										
NLN	57486	broad.mit.edu	37	chr5	65073347	65073347	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaaatgggctccatcttcctGaacaagtacagaatgtgagt	10	8	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:65073347G>C	uc003juf.2	+	4	660	c.544G>C	c.(544-546)GAA>CAA	p.E182Q	NLN_uc003jue.2_Missense_Mutation_p.E182Q|NLN_uc003jug.2_Missense_Mutation_p.E11Q	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	182					proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)		CCATCTTCCTGAACAAGTACA	0.289													24	122	---	---	---	---	PASS	C	65073347	C	C	65073347	3	2	76	1	0	0	0	0	1	0	0	0	10467	1291	45	2	558	2	NLN	5	65073347	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	214175	65073347	115841913	141	28802										
REEP5	7905	broad.mit.edu	37	chr5	112257809	112257809	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gttcacgccggttttggcctCgagcttggccagaaggtcag	14	11	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:112257809C>T	uc003kqe.1	-	1	223	c.79G>A	c.(79-81)GAG>AAG	p.E27K	REEP5_uc011cvw.1_5'Flank|REEP5_uc011cvx.1_RNA|REEP5_uc011cvy.1_Missense_Mutation_p.E27K|REEP5_uc011cvz.1_RNA	NM_005669	NP_005660	Q00765	REEP5_HUMAN	receptor accessory protein 5	27						integral to membrane	protein binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		Epithelial(69;1.3e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.26e-08)|all cancers(49;3.56e-07)|Colorectal(14;0.00778)|COAD - Colon adenocarcinoma(37;0.013)		GTTTTGGCCTCGAGCTTGGCC	0.677													6	61	---	---	---	---	PASS	T	112257809	T	T	112257809	3	4	76	1	0	0	0	0	1	0	0	0	13208	893	31	2	510	2	REEP5	5	112257809	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	47184462	112257809	68657451	142	28803										
ISOC1	51015	broad.mit.edu	37	chr5	128440953	128440953	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aaggtcttgggagcacggttCaagaaattgatttaacaggt	12	5	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:128440953C>G	uc003kva.2	+	3	523	c.505C>G	c.(505-507)CAA>GAA	p.Q169E		NM_016048	NP_057132	Q96CN7	ISOC1_HUMAN	isochorismatase domain containing 1	169						peroxisome	catalytic activity				0		all_cancers(142;0.0813)|Prostate(80;0.0865)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.138)|OV - Ovarian serous cystadenocarcinoma(64;0.164)		GAGCACGGTTCAAGAAATTGA	0.398													4	80	---	---	---	---	PASS	G	128440953	G	G	128440953	3	3	76	1	0	0	0	0	1	0	0	0	7862	827	29	2	515	2	ISOC1	5	128440953	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	16183144	128440953	52474307	143	28804										
CXCL14	9547	broad.mit.edu	37	chr5	134914177	134914177	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggcttcatttccagcttcttCacgtcgctgtagcggatctt	9	12	4	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:134914177C>G	uc003lay.2	-	2	618	c.153G>C	c.(151-153)GTG>GTC	p.V51V		NM_004887	NP_004878	O95715	CXL14_HUMAN	small inducible cytokine B14 precursor	51					cell-cell signaling|chemotaxis|immune response|signal transduction	extracellular space|Golgi apparatus	chemokine activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CCAGCTTCTTCACGTCGCTGT	0.592													7	316	---	---	---	---	PASS	G	134914177	G	G	134914177	2	3	76	1	0	0	0	0	0	0	0	1	4082	813	29	2		2	CXCL14	5	134914177	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	6473224	134914177	46001083	144	28805										
BRD8	10902	broad.mit.edu	37	chr5	137501561	137501561	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtctccaacagtctcaaaatCcagctcttcacctgtgtaag	6	13	4	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:137501561C>G	uc003lcf.1	-	11	1289	c.1234G>C	c.(1234-1236)GAT>CAT	p.D412H	BRD8_uc003lcc.1_RNA|BRD8_uc011cyl.1_Missense_Mutation_p.D191H|BRD8_uc003lcg.2_Missense_Mutation_p.D485H|BRD8_uc003lci.2_Missense_Mutation_p.D415H|BRD8_uc003lch.2_Missense_Mutation_p.D306H|BRD8_uc011cym.1_Missense_Mutation_p.D396H|BRD8_uc010jer.1_Missense_Mutation_p.D381H|BRD8_uc011cyn.1_Missense_Mutation_p.D371H	NM_139199	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 2	412					cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GTCTCAAAATCCAGCTCTTCA	0.463													16	141	---	---	---	---	PASS	G	137501561	G	G	137501561	3	3	76	1	0	0	0	0	1	0	0	0	1506	855	30	2	2605	2	BRD8	5	137501561	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2587384	137501561	43413699	145	28806										
PCDHA10	56139	broad.mit.edu	37	chr5	140236873	140236873	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgctggacagcgctctggacCgcgagagggtgtcggcctat	16	11	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:140236873C>A	uc003lhx.2	+	1	1240	c.1240C>A	c.(1240-1242)CGC>AGC	p.R414S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Missense_Mutation_p.R414S|PCDHA10_uc011dad.1_Missense_Mutation_p.R414S	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	414	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCTCTGGACCGCGAGAGGGT	0.642													79	444	---	---	---	---	PASS	A	140236873	A	A	140236873	3	1	76	1	0	0	0	0	1	0	0	0	11520	652	23	1	1242	1	PCDHA10	5	140236873	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2735312	140236873	40678387	146	28807										
PCDHB14	56122	broad.mit.edu	37	chr5	140604413	140604413	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgctgctctctgacgtcaatGacaacgcccccaccttcacc	6	18	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:140604413G>C	uc003ljb.2	+	1	1336	c.1336G>C	c.(1336-1338)GAC>CAC	p.D446H	PCDHB14_uc011dal.1_Missense_Mutation_p.D293H	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	446	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGACGTCAATGACAACGCCCC	0.582													83	431	---	---	---	---	PASS	C	140604413	C	C	140604413	3	2	76	1	0	0	0	0	1	0	0	0	11539	1290	45	2	1338	2	PCDHB14	5	140604413	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	367540	140604413	40310847	147	28808										
PCDHB15	56121	broad.mit.edu	37	chr5	140626581	140626581	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtgtcagcgccacagacagaGactcgggcaccaacgcccag	12	15	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:140626581G>T	uc003lje.2	+	1	1435	c.1435G>T	c.(1435-1437)GAC>TAC	p.D479Y		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	479	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACAGACAGAGACTCGGGCAC	0.657													60	205	---	---	---	---	PASS	T	140626581	T	T	140626581	3	4	76	1	0	0	0	0	1	0	0	0	11540	942	33	2	1437	2	PCDHB15	5	140626581	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	22168	140626581	40288679	148	28809										
PCDHGA1	56114	broad.mit.edu	37	chr5	140711217	140711217	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcaatggaagttcaagcccaGgatggtgcggggctcatggc	15	9	3	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:140711217G>T	uc003lji.1	+	1	966	c.966G>T	c.(964-966)CAG>CAT	p.Q322H	PCDHGA1_uc011dan.1_Missense_Mutation_p.Q322H	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	322	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCAAGCCCAGGATGGTGCGG	0.398													41	182	---	---	---	---	PASS	T	140711217	T	T	140711217	3	4	76	1	0	0	0	0	1	0	0	0	11550	991	35	3	968	3	PCDHGA1	5	140711217	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	84636	140711217	40204043	149	28810										
PCDHGA4	56111	broad.mit.edu	37	chr5	140736427	140736427	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cactgagcctctttgtgctgGaccagaacgacaatgtccct	9	13	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:140736427G>T	uc003ljq.1	+	1	1660	c.1660G>T	c.(1660-1662)GAC>TAC	p.D554Y	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.D554Y	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	554	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTTGTGCTGGACCAGAACGA	0.572													80	443	---	---	---	---	PASS	T	140736427	T	T	140736427	3	4	76	1	0	0	0	0	1	0	0	0	11556	1174	41	2	1662	2	PCDHGA4	5	140736427	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	25210	140736427	40178833	150	28811										
PCDHGB2	56103	broad.mit.edu	37	chr5	140741050	140741050	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccgacgtcaacgataatgccCcagttttccaacagacttcc	6	15	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:140741050C>A	uc003ljs.1	+	1	1348	c.1348C>A	c.(1348-1350)CCA>ACA	p.P450T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Missense_Mutation_p.P450T|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	450	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGATAATGCCCCAGTTTTCCA	0.552													67	307	---	---	---	---	PASS	A	140741050	A	A	140741050	3	1	76	1	0	0	0	0	1	0	0	0	11563	623	22	3	1350	3	PCDHGB2	5	140741050	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	4623	140741050	40174210	151	28812										
TCERG1	10915	broad.mit.edu	37	chr5	145863154	145863154	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgcacaagatagtttttgatCcccggtacttacttctcaat	6	10	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:145863154C>T	uc003lob.2	+	14	2114	c.2074C>T	c.(2074-2076)CCC>TCC	p.P692S	TCERG1_uc003loc.2_Missense_Mutation_p.P671S	NM_006706	NP_006697	O14776	TCRG1_HUMAN	transcription elongation regulator 1 isoform 1	692	FF 1.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			ovary(1)|skin(1)	2		Lung NSC(249;0.00188)|all_lung(500;0.00307)|all_neural(839;0.0424)|Breast(839;0.0743)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGTTTTTGATCCCCGGTACTT	0.328													8	65	---	---	---	---	PASS	T	145863154	T	T	145863154	3	4	76	1	0	0	0	0	1	0	0	0	15682	855	30	2	2128	2	TCERG1	5	145863154	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	5122104	145863154	35052106	152	28813										
HTR4	3360	broad.mit.edu	37	chr5	147889510	147889510	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tagaaggccaccacagagcaGgtgatggcgtagggcttgtt	15	8	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:147889510G>T	uc003lpn.2	-	6	749	c.585C>A	c.(583-585)ACC>ACA	p.T195T	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Silent_p.T195T|HTR4_uc003lpj.1_Silent_p.T195T|HTR4_uc003lpk.2_Silent_p.T195T|HTR4_uc011dby.1_Silent_p.T195T|HTR4_uc003lpl.2_Silent_p.T209T|HTR4_uc003lpm.2_Silent_p.T195T|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Silent_p.T195T	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	195	Helical; Name=5; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	CCACAGAGCAGGTGATGGCGT	0.493													14	60	---	---	---	---	PASS	T	147889510	T	T	147889510	2	4	76	1	0	0	0	0	0	0	0	1	7449	987	35	3		3	HTR4	5	147889510	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	2026356	147889510	33025750	153	28814										
ODZ2	57451	broad.mit.edu	37	chr5	167626084	167626084	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgtccaccttctttagtgctGcccctgggcagaatcccatc	8	15	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:167626084G>T	uc010jjd.2	+	16	3100	c.3100G>T	c.(3100-3102)GCC>TCC	p.A1034S	ODZ2_uc003lzr.3_Missense_Mutation_p.A811S|ODZ2_uc003lzt.3_Missense_Mutation_p.A407S|ODZ2_uc010jje.2_Missense_Mutation_p.A305S	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		CTTTAGTGCTGCCCCTGGGCA	0.577													8	50	---	---	---	---	PASS	T	167626084	T	T	167626084	3	4	76	1	0	0	0	0	1	0	0	0	10835	1319	46	3	3162	3	ODZ2	5	167626084	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	19736574	167626084	13289176	154	28815										
ODZ2	57451	broad.mit.edu	37	chr5	167645606	167645606	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aatattcggatcagggcggtCagcaagaacaagcctgttct	11	9	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:167645606C>T	uc010jjd.2	+	23	4683	c.4683C>T	c.(4681-4683)GTC>GTT	p.V1561V	ODZ2_uc003lzr.3_Silent_p.V1331V|ODZ2_uc003lzt.3_Silent_p.V934V|ODZ2_uc010jje.2_Silent_p.V825V	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		TCAGGGCGGTCAGCAAGAACA	0.483													54	259	---	---	---	---	PASS	T	167645606	T	T	167645606	2	4	76	1	0	0	0	0	0	0	0	1	10835	813	29	2		2	ODZ2	5	167645606	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	19522	167645606	13269654	155	28816										
RANBP17	64901	broad.mit.edu	37	chr5	170722917	170722917	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agtgaactgagagcaagtttGataaacagccagcccctccc	9	12	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr5:170722917G>C	uc003mba.2	+	27	3085	c.3069G>C	c.(3067-3069)TTG>TTC	p.L1023F	RANBP17_uc003mbb.2_Missense_Mutation_p.L348F|RANBP17_uc010jjs.2_RNA	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	1023					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)			GAGCAAGTTTGATAAACAGCC	0.527			T	TRD@	ALL								19	131	---	---	---	---	PASS	C	170722917	C	C	170722917	3	2	76	1	0	0	0	0	1	0	0	0	13027	1281	45	2	3175	2	RANBP17	5	170722917	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	3077311	170722917	10192343	156	28817										
JARID2	3720	broad.mit.edu	37	chr6	15517468	15517468	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggagaaacagaagtcctgccGagggctgaagttgatgtacc	14	8	0	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:15517468G>A	uc003nbj.2	+	17	3771	c.3527G>A	c.(3526-3528)CGA>CAA	p.R1176Q	JARID2_uc011div.1_Missense_Mutation_p.R1004Q	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	1176					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				AAGTCCTGCCGAGGGCTGAAG	0.617													28	197	---	---	---	---	PASS	A	15517468	A	A	15517468	3	1	76	1	0	0	0	0	1	0	0	0	7945	1058	37	2	3593	2	JARID2	6	15517468	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08		15517468	155597599	157	28818										
HIST1H3B	8358	broad.mit.edu	37	chr6	26032007	26032007	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aagtaggcctcacaagcctcCtgcagcgccatcaccgcaga	9	16	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:26032007C>A	uc003nfs.1	-	1	282	c.282G>T	c.(280-282)CAG>CAT	p.Q94H		NM_003537	NP_003528	P68431	H31_HUMAN	histone cluster 1, H3b	94					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						CACAAGCCTCCTGCAGCGCCA	0.557													25	158	---	---	---	---	PASS	A	26032007	A	A	26032007	3	1	76	1	0	0	0	0	1	0	0	0	7156	680	24	3	132	3	HIST1H3B	6	26032007	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	10514539	26032007	145083060	158	28819										
OR11A1	26531	broad.mit.edu	37	chr6	29394932	29394932	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaacctcagctgggccaccaGggccacaaccagtccatcta	9	16	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:29394932G>T	uc003nmg.2	-	1	578	c.487C>A	c.(487-489)CTG>ATG	p.L163M		NM_013937	NP_039225	Q9GZK7	O11A1_HUMAN	olfactory receptor, family 11, subfamily A,	163	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TGGGCCACCAGGGCCACAACC	0.582													11	61	---	---	---	---	PASS	T	29394932	T	T	29394932	3	4	76	1	0	0	0	0	1	0	0	0	10924	991	35	3	464	3	OR11A1	6	29394932	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	3362925	29394932	141720135	159	28820										
GABBR1	2550	broad.mit.edu	37	chr6	29574954	29574954	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atcttggtgaacatggaaccGtagcccagactaaagcccag	10	11	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:29574954G>A	uc003nmt.3	-	17	2370	c.2034C>T	c.(2032-2034)TAC>TAT	p.Y678Y	GABBR1_uc003nmp.3_Silent_p.Y561Y|GABBR1_uc003nms.3_Silent_p.Y561Y|GABBR1_uc003nmu.3_Silent_p.Y616Y|GABBR1_uc011dlr.1_Silent_p.Y501Y	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	678	Helical; Name=3; (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	ACATGGAACCGTAGCCCAGAC	0.562													32	118	---	---	---	---	PASS	A	29574954	A	A	29574954	2	1	76	1	0	0	0	0	0	0	0	1	6155	1140	40	1		1	GABBR1	6	29574954	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	180022	29574954	141540113	160	28821										
DDR1	780	broad.mit.edu	37	chr6	30856996	30856996	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	caggttggagagcagtgacgGggatggggcctggtgccccg	20	9	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:30856996G>T	uc003nrr.2	+	5	465	c.206G>T	c.(205-207)GGG>GTG	p.G69V	DDR1_uc010jse.2_Missense_Mutation_p.G69V|DDR1_uc003nrq.2_Missense_Mutation_p.G69V|DDR1_uc003nrs.2_Missense_Mutation_p.G69V|DDR1_uc003nrt.2_Missense_Mutation_p.G69V|DDR1_uc011dms.1_Missense_Mutation_p.G87V|DDR1_uc011dmt.1_Missense_Mutation_p.G95V|DDR1_uc003nru.2_Missense_Mutation_p.G69V|DDR1_uc011dmu.1_Missense_Mutation_p.G69V|DDR1_uc003nrv.2_Missense_Mutation_p.G69V|DDR1_uc003nrw.1_5'Flank	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	69	Extracellular (Potential).|F5/8 type C.				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	AGCAGTGACGGGGATGGGGCC	0.602													71	484	---	---	---	---	PASS	T	30856996	T	T	30856996	3	4	76	1	0	0	0	0	1	0	0	0	4336	1232	43	3	216	3	DDR1	6	30856996	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1282042	30856996	140258071	161	28822										
MSH5	4439	broad.mit.edu	37	chr6	31725965	31725965	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtgtacagtgccctgggcctGagggatgcctgccgctccct	14	14	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:31725965G>A	uc003nwv.1	+	13	1117	c.1038G>A	c.(1036-1038)CTG>CTA	p.L346L	MSH5_uc003nwt.1_Silent_p.L363L|MSH5_uc003nwu.1_Silent_p.L346L|MSH5_uc003nww.1_Silent_p.L346L|MSH5_uc003nwx.1_Silent_p.L363L|MSH5_uc011dof.1_Silent_p.L45L|MSH5_uc003nwy.1_Silent_p.L20L|MSH5_uc003nwz.3_5'Flank	NM_172166	NP_751898	O43196	MSH5_HUMAN	mutS homolog 5 isoform c	346					chiasma assembly|homologous chromosome segregation|meiotic prophase II|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			ovary(2)|breast(1)	3						CCCTGGGCCTGAGGGATGCCT	0.567								Direct_reversal_of_damage|MMR					8	66	---	---	---	---	PASS	A	31725965	A	A	31725965	2	1	76	1	0	0	0	0	0	0	0	1	9873	1277	45	2		2	MSH5	6	31725965	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	868969	31725965	139389102	162	28823										
C2	717	broad.mit.edu	37	chr6	31868898	31868898	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccgagctggggttcagcaggAactggtcccgcaggaagggt	17	10	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:31868898A>G	uc011dop.1	+	1	123	c.55A>G	c.(55-57)AAC>GAC	p.N19D	C2_uc003nyc.2_Intron|C2_uc011doo.1_Intron|ZBTB12_uc003nyd.1_Missense_Mutation_p.F62S	NM_001145903	NP_001139375	P06681	CO2_HUMAN	complement component 2 isoform 2 preproprotein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					complement activation, classical pathway|innate immune response|proteolysis	extracellular space	serine-type endopeptidase activity			ovary(1)|skin(1)	2		Ovarian(999;0.00965)		LUAD - Lung adenocarcinoma(999;0.247)		GTTCAGCAGGAACTGGTCCCG	0.622													29	143	---	---	---	---	PASS	G	31868898	G	G	31868898	3	3	76	1	0	0	0	0	1	0	0	0	2074	246	9	5	57	5	C2	6	31868898	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	142933	31868898	139246169	163	28824										
ITPR3	3710	broad.mit.edu	37	chr6	33626839	33626839	+	Silent	SNP	C	A	A													0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atcctgaatcctgtcaatgcCgggcagcctctgcatgccag							TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:33626839C>A	uc011drk.1	+	6	789	c.570C>A	c.(568-570)GCC>GCA	p.A190A		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	190	Cytoplasmic (Potential).|MIR 2.				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CTGTCAATGCCGGGCAGCCTC	0.637													35	255	---	---	---	---	PASS	A	33626839	A	A	33626839	2	1	76	1	0	0	0	0	0	0	0	1	7922	639	23	1		1	ITPR3	6	33626839	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	1757941	33626839	137488228	164	28825	596	2								
ITPR3	3710	broad.mit.edu	37	chr6	33626840	33626840	+	Missense_Mutation	SNP	G	T	T													0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcctgaatcctgtcaatgccGggcagcctctgcatgccagc							TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:33626840G>T	uc011drk.1	+	6	790	c.571G>T	c.(571-573)GGG>TGG	p.G191W		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	191	Cytoplasmic (Potential).|MIR 2.				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						TGTCAATGCCGGGCAGCCTCT	0.632													31	257	---	---	---	---	PASS	T	33626840	T	T	33626840	3	4	76	1	0	0	0	0	1	0	0	0	7922	1116	39	1	593	1	ITPR3	6	33626840	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1	33626840	137488227	165	28826	596	2								
KCTD20	222658	broad.mit.edu	37	chr6	36447401	36447401	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccggtatcatcaattgtcctGatggcatctctatcccagat	7	12	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:36447401G>C	uc003ome.2	+	5	962	c.571G>C	c.(571-573)GAT>CAT	p.D191H	KCTD20_uc011dtm.1_Missense_Mutation_p.D46H|KCTD20_uc011dtn.1_Intron|KCTD20_uc010jwk.2_Intron|KCTD20_uc011dto.1_Intron	NM_173562	NP_775833	Q7Z5Y7	KCD20_HUMAN	potassium channel tetramerisation domain	191	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)	2						CAATTGTCCTGATGGCATCTC	0.358													4	163	---	---	---	---	PASS	C	36447401	C	C	36447401	3	2	76	1	0	0	0	0	1	0	0	0	8108	1290	45	2	585	2	KCTD20	6	36447401	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	2820561	36447401	134667666	166	28827										
TSPO2	222642	broad.mit.edu	37	chr6	41010728	41010728	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttgcctcttcaaggtgaatgCggcttcaaggggctatcttt	11	9	4	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:41010728C>T	uc003opj.2	+	2	305	c.4C>T	c.(4-6)CGG>TGG	p.R2W	UNC5CL_uc010jxe.1_Intron|TSPO2_uc003opk.2_Silent_p.C11C|TSPO2_uc011dub.1_Missense_Mutation_p.R2W	NM_001010873	NP_001010873	Q5TGU0	TSPO2_HUMAN	benzodiazapine receptor (peripheral)-like 1	2					transport	endoplasmic reticulum membrane|integral to membrane	cholesterol binding|receptor activity				0						AAGGTGAATGCGGCTTCAAGG	0.582													4	115	---	---	---	---	PASS	T	41010728	T	T	41010728	3	4	76	1	0	0	0	0	1	0	0	0	16653	759	27	1	6	1	TSPO2	6	41010728	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	4563327	41010728	130104339	167	28828										
UBR2	23304	broad.mit.edu	37	chr6	42631065	42631065	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cgcttacatacgagctatgaTgtagaaaacggagaattcct	9	8	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:42631065T>C	uc011dur.1	+	32	3606	c.3606T>C	c.(3604-3606)GAT>GAC	p.D1202D	UBR2_uc011dus.1_Silent_p.D847D|UBR2_uc003osh.2_RNA	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	1202	RING-type; atypical.				cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			CGAGCTATGATGTAGAAAACG	0.368													30	112	---	---	---	---	PASS	C	42631065	C	C	42631065	2	2	76	1	0	0	0	0	0	0	0	1	16899	1461	51	5		5	UBR2	6	42631065	Silent	SNP	T	TCGA-37-3783-01A-01D-1267-08	1620337	42631065	128484002	168	28829										
PTCRA	171558	broad.mit.edu	37	chr6	42883813	42883813	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccttccgagtgggccatggcCggtacatggctgctacttct	12	13	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:42883813C>T	uc003osx.2	+	1	87	c.6C>T	c.(4-6)GCC>GCT	p.A2A	PTCRA_uc011duz.1_5'UTR|PTCRA_uc010jxx.1_Silent_p.A2A|PTCRA_uc010jxy.2_Silent_p.A2A|PTCRA_uc010jxz.2_Silent_p.A2A	NM_138296	NP_612153	Q6ISU1	PTCRA_HUMAN	pre T-cell antigen receptor alpha precursor	2						integral to membrane	receptor activity			ovary(2)	2	Colorectal(47;0.196)		all cancers(41;0.000731)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|OV - Ovarian serous cystadenocarcinoma(102;0.0218)|Kidney(15;0.0388)			GGGCCATGGCCGGTACATGGC	0.642													27	123	---	---	---	---	PASS	T	42883813	T	T	42883813	2	4	76	1	0	0	0	0	0	0	0	1	12735	639	23	1		1	PTCRA	6	42883813	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	252748	42883813	128231254	169	28830										
GPR116	221395	broad.mit.edu	37	chr6	46836746	46836746	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gttccaataaacctcatcatAgttactcacatcactgatgc	4	12	4	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:46836746A>T	uc003oyo.3	-	12	1784	c.1495T>A	c.(1495-1497)TAT>AAT	p.Y499N	GPR116_uc011dwj.1_Missense_Mutation_p.Y54N|GPR116_uc011dwk.1_5'UTR|GPR116_uc003oyp.3_Missense_Mutation_p.Y357N|GPR116_uc003oyq.3_Missense_Mutation_p.Y499N|GPR116_uc010jzi.1_Missense_Mutation_p.Y171N	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	499	Ig-like 3.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			ACCTCATCATAGTTACTCACA	0.373													18	94	---	---	---	---	PASS	T	46836746	T	T	46836746	3	4	76	1	0	0	0	0	1	0	0	0	6633	420	15	5	2585	5	GPR116	6	46836746	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	3952933	46836746	124278321	170	28831										
GPR115	221393	broad.mit.edu	37	chr6	47681722	47681722	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cagacaaaagggtttcacatCaaccataatacctcagagaa	6	10	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:47681722C>G	uc003oza.1	+	6	999	c.741C>G	c.(739-741)ATC>ATG	p.I247M	GPR115_uc003oyz.1_Missense_Mutation_p.I304M|GPR115_uc003ozb.1_Missense_Mutation_p.I245M	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	247	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						GGTTTCACATCAACCATAATA	0.393													16	106	---	---	---	---	PASS	G	47681722	G	G	47681722	3	3	76	1	0	0	0	0	1	0	0	0	6632	816	29	2	759	2	GPR115	6	47681722	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	844976	47681722	123433345	171	28832			1	34		5	5	1013	C		1.833653e-09
GPR115	221393	broad.mit.edu	37	chr6	47682288	47682288	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggtggttgtgacggagatatCatacatgcgtcacgtgtgca	14	7	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:47682288C>A	uc003oza.1	+	6	1565	c.1307C>A	c.(1306-1308)TCA>TAA	p.S436*	GPR115_uc003oyz.1_Nonsense_Mutation_p.S493*|GPR115_uc003ozb.1_Nonsense_Mutation_p.S434*	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	436	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						ACGGAGATATCATACATGCGT	0.488													57	277	---	---	---	---	PASS	A	47682288	A	A	47682288	4	1	76	1	0	0	0	0	0	1	0	0	6632	838	29	2	1325	2	GPR115	6	47682288	Nonsense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	566	47682288	123432779	172	28833			1	34		5	5	1013	C		1.833653e-09
GPR115	221393	broad.mit.edu	37	chr6	47682589	47682589	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gctgtcactacagttgctatCacagagccagagaaaggcta	10	10	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:47682589C>A	uc003oza.1	+	6	1866	c.1608C>A	c.(1606-1608)ATC>ATA	p.I536I	GPR115_uc003oyz.1_Silent_p.I593I|GPR115_uc003ozb.1_Silent_p.I534I	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	536	Helical; Name=4; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity	p.I536M(1)		ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						CAGTTGCTATCACAGAGCCAG	0.488													52	207	---	---	---	---	PASS	A	47682589	A	A	47682589	2	1	76	1	0	0	0	0	0	0	0	1	6632	816	29	2		2	GPR115	6	47682589	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	301	47682589	123432478	173	28834			1	34		5	5	1013	C		1.833653e-09
GPR115	221393	broad.mit.edu	37	chr6	47682682	47682682	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcatttgccatcccggcgttCgtcattgtggctgtaaatct	10	11	2	0	rs115968193	byFrequency	TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:47682682C>T	uc003oza.1	+	6	1959	c.1701C>T	c.(1699-1701)TTC>TTT	p.F567F	GPR115_uc003oyz.1_Silent_p.F624F|GPR115_uc003ozb.1_Silent_p.F565F	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	567	Helical; Name=5; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						TCCCGGCGTTCGTCATTGTGG	0.473													34	146	---	---	---	---	PASS	T	47682682	T	T	47682682	2	4	76	1	0	0	0	0	0	0	0	1	6632	883	31	2		2	GPR115	6	47682682	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	93	47682682	123432385	174	28835			1	34		5	5	1013	C		1.833653e-09
GPR115	221393	broad.mit.edu	37	chr6	47682734	47682734	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tggttgttgctgtcaacactCagaggccctctattggcagt	11	10	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:47682734C>G	uc003oza.1	+	6	2011	c.1753C>G	c.(1753-1755)CAG>GAG	p.Q585E	GPR115_uc003oyz.1_Missense_Mutation_p.Q642E|GPR115_uc003ozb.1_Missense_Mutation_p.Q583E	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	585	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						TGTCAACACTCAGAGGCCCTC	0.473													27	159	---	---	---	---	PASS	G	47682734	G	G	47682734	3	3	76	1	0	0	0	0	1	0	0	0	6632	827	29	2	1771	2	GPR115	6	47682734	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	52	47682734	123432333	175	28836			1	34		5	5	1013	C		1.833653e-09
CRISP1	167	broad.mit.edu	37	chr6	49814356	49814356	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gatacaggataagatgtcatAtgcatattttctccacaaaa	6	7	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:49814356A>T	uc003ozw.2	-	5	391	c.312T>A	c.(310-312)CAT>CAA	p.H104Q	CRISP1_uc003ozx.2_Missense_Mutation_p.H104Q	NM_001131	NP_001122	P54107	CRIS1_HUMAN	acidic epididymal glycoprotein-like 1 isoform 1	104					fusion of sperm to egg plasma membrane	extracellular space					0	Lung NSC(77;0.0358)					AAGATGTCATATGCATATTTT	0.383													27	109	---	---	---	---	PASS	T	49814356	T	T	49814356	3	4	76	1	0	0	0	0	1	0	0	0	3879	446	16	5	453	5	CRISP1	6	49814356	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	2131622	49814356	121300711	176	28837										
TFAP2D	83741	broad.mit.edu	37	chr6	50682828	50682828	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttttccccctcttccttccaGatacgtcacgacggatcaaa	5	15	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:50682828G>C	uc003paf.2	+	2	552	c.40_splice	c.e2-1	p.I14_splice	TFAP2D_uc011dwt.1_Splice_Site	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1								DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					CTTCCTTCCAGATACGTCACG	0.522													29	143	---	---	---	---	PASS	C	50682828	C	C	50682828	5	2	76	1	0	0	0	0	0	0	1	0	15787	956	33	2	45	2	TFAP2D	6	50682828	Splice_Site	SNP	G	TCGA-37-3783-01A-01D-1267-08	868472	50682828	120432239	177	28838										
GCM1	8521	broad.mit.edu	37	chr6	52993008	52993008	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tagtgaaagatttgggtcatCtcaaaggacacaggttcaga	11	6	3	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:52993008C>T	uc003pbp.2	-	6	1516	c.1307G>A	c.(1306-1308)AGA>AAA	p.R436K		NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	436						transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					TTTGGGTCATCTCAAAGGACA	0.413													57	287	---	---	---	---	PASS	T	52993008	T	T	52993008	3	4	76	1	0	0	0	0	1	0	0	0	6297	913	32	2	7	2	GCM1	6	52993008	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2310180	52993008	118122059	178	28839										
GCM1	8521	broad.mit.edu	37	chr6	52998945	52998945	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cccctcctctgcgagacagtCgcggccgcacaccaccacac	8	21	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:52998945C>A	uc003pbp.2	-	3	462	c.253G>T	c.(253-255)GAC>TAC	p.D85Y	GCM1_uc010jzr.2_Missense_Mutation_p.D85Y	NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	85	GCM.					transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					GCGAGACAGTCGCGGCCGCAC	0.622													29	118	---	---	---	---	PASS	A	52998945	A	A	52998945	3	1	76	1	0	0	0	0	1	0	0	0	6297	884	31	2	1073	2	GCM1	6	52998945	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	5937	52998945	118116122	179	28840										
EYS	346007	broad.mit.edu	37	chr6	66204664	66204664	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tttaaaagaacatgcatcaaGttcctggcagtattttccag	7	8	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:66204664G>C	uc011dxu.1	-	4	1178	c.640C>G	c.(640-642)CTT>GTT	p.L214V	EYS_uc003peq.2_Missense_Mutation_p.L214V|EYS_uc003per.1_Missense_Mutation_p.L214V|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	214	EGF-like 2.				response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						CATGCATCAAGTTCCTGGCAG	0.393													16	37	---	---	---	---	PASS	C	66204664	C	C	66204664	3	2	76	1	0	0	0	0	1	0	0	0	5332	1029	36	4	8916	4	EYS	6	66204664	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	13205719	66204664	104910403	180	28841										
COL12A1	1303	broad.mit.edu	37	chr6	75852968	75852968	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tactatcatcttcaacctacCtctttgacatcctcttctgg	3	14	6	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:75852968C>G	uc003phs.2	-	26	4993	c.4827G>C	c.(4825-4827)GAG>GAC	p.E1609D	COL12A1_uc003pht.2_Missense_Mutation_p.E445D	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1609	Fibronectin type-III 11.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTCAACCTACCTCTTTGACAT	0.338													4	134	---	---	---	---	PASS	G	75852968	G	G	75852968	3	3	76	1	0	0	0	0	1	0	0	0	3669	680	24	4	4528	4	COL12A1	6	75852968	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	9648304	75852968	95262099	181	28842										
MICAL1	64780	broad.mit.edu	37	chr6	109767339	109767339	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	catctgtgaggatgggttacCttgagggctctggactggca	15	8	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:109767339C>A	uc003ptj.2	-	18	2835	c.2581G>T	c.(2581-2583)GCT>TCT	p.A861S	MICAL1_uc003ptk.2_Missense_Mutation_p.A861S|MICAL1_uc010kdr.2_Missense_Mutation_p.A775S|MICAL1_uc011eaq.1_Missense_Mutation_p.A880S	NM_022765	NP_073602	Q8TDZ2	MICA1_HUMAN	microtubule associated monoxygenase, calponin	861					cytoskeleton organization|signal transduction	cytoplasm|intermediate filament	SH3 domain binding|zinc ion binding			breast(2)|ovary(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		GATGGGTTACCTTGAGGGCTC	0.647													3	50	---	---	---	---	PASS	A	109767339	A	A	109767339	3	1	76	1	0	0	0	0	1	0	0	0	9569	695	24	3	650	3	MICAL1	6	109767339	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	33914371	109767339	61347728	182	28843										
PLN	5350	broad.mit.edu	37	chr6	118880183	118880183	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aagctacagaatctatttatCaatttctgtctcatcttaat	3	8	5	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:118880183C>G	uc003pye.2	+	2	310	c.99C>G	c.(97-99)ATC>ATG	p.I33M	C6orf204_uc003pxz.1_Intron|C6orf204_uc003pya.1_Intron|C6orf204_uc003pyb.2_Intron|C6orf204_uc011ebj.1_Intron|C6orf204_uc003pyc.2_Intron	NM_002667	NP_002658	P26678	PPLA_HUMAN	phospholamban	33	Helical; (Potential).				blood circulation|regulation of calcium ion transport	integral to membrane|mitochondrial membrane|sarcoplasmic reticulum	calcium channel regulator activity|protein binding				0		all_cancers(87;0.0916)|all_epithelial(87;0.131)		GBM - Glioblastoma multiforme(226;0.0325)|all cancers(137;0.154)|OV - Ovarian serous cystadenocarcinoma(136;0.176)		ATCTATTTATCAATTTCTGTC	0.413													32	191	---	---	---	---	PASS	G	118880183	G	G	118880183	3	3	76	1	0	0	0	0	1	0	0	0	12100	816	29	2	101	2	PLN	6	118880183	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	9112844	118880183	52234884	183	28844										
THEMIS	387357	broad.mit.edu	37	chr6	128151032	128151032	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atgaatggtccttgtgatttCttccatagtaaggtatggag	11	5	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:128151032C>G	uc003qbi.2	-	4	617	c.298G>C	c.(298-300)GAA>CAA	p.E100Q	THEMIS_uc010kfa.2_Missense_Mutation_p.E3Q|THEMIS_uc011ebt.1_Missense_Mutation_p.E100Q|THEMIS_uc010kfb.2_Missense_Mutation_p.E65Q	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	100	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						CTTGTGATTTCTTCCATAGTA	0.363													33	123	---	---	---	---	PASS	G	128151032	G	G	128151032	3	3	76	1	0	0	0	0	1	0	0	0	15857	922	32	2	1764	2	THEMIS	6	128151032	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	9270849	128151032	42964035	184	28845										
ESR1	2099	broad.mit.edu	37	chr6	152129166	152129166	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccccctggagcggcccctggGcgaggtgtacctggacagca	15	15	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:152129166G>T	uc003qom.3	+	3	489	c.119G>T	c.(118-120)GGC>GTC	p.G40V	ESR1_uc010kin.2_Missense_Mutation_p.G40V|ESR1_uc010kio.2_Missense_Mutation_p.G40V|ESR1_uc010kip.2_Missense_Mutation_p.G40V|ESR1_uc003qon.3_Missense_Mutation_p.G40V|ESR1_uc003qoo.3_Missense_Mutation_p.G40V|ESR1_uc010kiq.2_5'UTR|ESR1_uc010kir.2_Missense_Mutation_p.G40V	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	40	Modulating; mediates interaction with MACROD1.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	CGGCCCCTGGGCGAGGTGTAC	0.662													18	70	---	---	---	---	PASS	T	152129166	T	T	152129166	3	4	76	1	0	0	0	0	1	0	0	0	5256	1203	42	3	121	3	ESR1	6	152129166	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	23978134	152129166	18985901	185	28846										
T	6862	broad.mit.edu	37	chr6	166576077	166576077	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgaggatttgcaggtggacaCagggtgctggttccaggaag	17	6	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:166576077C>G	uc003quu.1	-	7	1255	c.762G>C	c.(760-762)CTG>CTC	p.L254L	T_uc003qut.1_Silent_p.L255L|T_uc003quv.1_Intron	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	254					anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		CAGGTGGACACAGGGTGCTGG	0.587									Chordoma_Familial_Clustering_of				61	52	---	---	---	---	PASS	G	166576077	G	G	166576077	2	3	76	1	0	0	0	0	0	0	0	1	15485	465	17	4		4	T	6	166576077	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	14446911	166576077	4538990	186	28847										
THBS2	7058	broad.mit.edu	37	chr6	169641872	169641872	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cccaccactctcttgaggttCtcgctgagctggttcacgag	10	14	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr6:169641872C>T	uc003qwt.2	-	6	1124	c.876G>A	c.(874-876)GAG>GAA	p.E292E		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	292					cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		TCTTGAGGTTCTCGCTGAGCT	0.647													58	335	---	---	---	---	PASS	T	169641872	T	T	169641872	2	4	76	1	0	0	0	0	0	0	0	1	15851	912	32	2		2	THBS2	6	169641872	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	3065795	169641872	1473195	187	28848										
SDK1	221935	broad.mit.edu	37	chr7	4169653	4169653	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aagttcgtgctctacgagctCcaggtgctggcgttcacccg	12	13	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:4169653C>G	uc003smx.2	+	27	4192	c.4053C>G	c.(4051-4053)CTC>CTG	p.L1351L	SDK1_uc010kso.2_Silent_p.L627L|SDK1_uc003smy.2_5'UTR	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1351	Fibronectin type-III 7.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TCTACGAGCTCCAGGTGCTGG	0.662													26	169	---	---	---	---	PASS	G	4169653	G	G	4169653	2	3	76	1	0	0	0	0	0	0	0	1	13968	842	30	2		2	SDK1	7	4169653	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08		4169653	154969010	188	28849										
SLC29A4	222962	broad.mit.edu	37	chr7	5338675	5338675	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccaaaggacagcccagcccaCgaggtgaccggcagcggcgg	15	15	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:5338675C>T	uc003sod.2	+	8	1100	c.939C>T	c.(937-939)CAC>CAT	p.H313H	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Silent_p.H313H|SLC29A4_uc003soe.2_Silent_p.H299H|SLC29A4_uc010ksw.2_RNA	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	313	Cytoplasmic (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		GCCCAGCCCACGAGGTGACCG	0.692													5	120	---	---	---	---	PASS	T	5338675	T	T	5338675	2	4	76	1	0	0	0	0	0	0	0	1	14537	535	19	1		1	SLC29A4	7	5338675	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	1169022	5338675	153799988	189	28850										
TNRC18	84629	broad.mit.edu	37	chr7	5353171	5353171	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctcctcccccggcctccgagGgcccttggcacccgactcct	9	22	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:5353171G>T	uc003soi.3	-	27	7700	c.7351C>A	c.(7351-7353)CCT>ACT	p.P2451T		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2451							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GGCCTCCGAGGGCCCTTGGCA	0.672													8	29	---	---	---	---	PASS	T	5353171	T	T	5353171	3	4	76	1	0	0	0	0	1	0	0	0	16336	1232	43	3	1571	3	TNRC18	7	5353171	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	14496	5353171	153785492	190	28851										
MIOS	54468	broad.mit.edu	37	chr7	7635937	7635937	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtcaatctcctacagctgttCagctgtgcctcatcagggca	9	13	5	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:7635937C>T	uc003srf.2	+	11	2554	c.2246C>T	c.(2245-2247)TCA>TTA	p.S749L	MIOS_uc003srg.2_Missense_Mutation_p.S284L|MIOS_uc010ktq.2_Missense_Mutation_p.S144L	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	749											0						TACAGCTGTTCAGCTGTGCCT	0.403													14	271	---	---	---	---	PASS	T	7635937	T	T	7635937	3	4	76	1	0	0	0	0	1	0	0	0	9589	838	29	2	2276	2	MIOS	7	7635937	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2282766	7635937	151502726	191	28852										
SNX13	23161	broad.mit.edu	37	chr7	17890515	17890515	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgccttatctctgactgcttCtagctctccaatattgtcac	5	13	4	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:17890515C>G	uc003stw.1	-	10	1123	c.910G>C	c.(910-912)GAA>CAA	p.E304Q	SNX13_uc003stv.2_Missense_Mutation_p.E304Q|SNX13_uc010kuc.2_Missense_Mutation_p.E101Q			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;	304					cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					CTGACTGCTTCTAGCTCTCCA	0.328													9	35	---	---	---	---	PASS	G	17890515	G	G	17890515	3	3	76	1	0	0	0	0	1	0	0	0	14884	922	32	2	2031	2	SNX13	7	17890515	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	10254578	17890515	141248148	192	28853										
NT5C3	51251	broad.mit.edu	37	chr7	33057128	33057128	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agcttgacgaataacttcctCtagtacatcgccgattccag	7	12	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:33057128C>G	uc003tdk.2	-	7	708	c.631G>C	c.(631-633)GAG>CAG	p.E211Q	AVL9_uc011kai.1_Intron|NT5C3_uc003tdi.2_Missense_Mutation_p.E172Q|NT5C3_uc003tdj.2_Missense_Mutation_p.E172Q	NM_001002010	NP_001002010	Q9H0P0	5NT3_HUMAN	5'-nucleotidase, cytosolic III isoform 1	211					nucleotide metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol|endoplasmic reticulum	2'-phosphotransferase activity|5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1			GBM - Glioblastoma multiforme(11;0.0894)			ATAACTTCCTCTAGTACATCG	0.378													28	146	---	---	---	---	PASS	G	33057128	G	G	33057128	3	3	76	1	0	0	0	0	1	0	0	0	10688	922	32	2	391	2	NT5C3	7	33057128	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	15166613	33057128	126081535	193	28854										
CDK13	8621	broad.mit.edu	37	chr7	40037170	40037170	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atgtcttcttgctgatttacCgctgccccctgagctaccag	8	14	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:40037170C>T	uc003thh.3	+	3	2231	c.1949C>T	c.(1948-1950)CCG>CTG	p.P650L	CDK13_uc003thi.3_Missense_Mutation_p.P650L|CDK13_uc011kbf.1_Missense_Mutation_p.P36L	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	650					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						GCTGATTTACCGCTGCCCCCT	0.403													39	265	---	---	---	---	PASS	T	40037170	T	T	40037170	3	4	76	1	0	0	0	0	1	0	0	0	3129	652	23	1	1959	1	CDK13	7	40037170	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	6980042	40037170	119101493	194	28855										
GLI3	2737	broad.mit.edu	37	chr7	42065846	42065846	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	acctggacggggttcagaacCgtagggatccctggaatagg	15	9	1	1	rs148822237		TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:42065846C>A	uc011kbh.1	-	8	1285	c.1194G>T	c.(1192-1194)ACG>ACT	p.T398T	GLI3_uc011kbg.1_Silent_p.T339T	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	398					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GGTTCAGAACCGTAGGGATCC	0.617									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				7	57	---	---	---	---	PASS	A	42065846	A	A	42065846	2	1	76	1	0	0	0	0	0	0	0	1	6439	639	23	1		1	GLI3	7	42065846	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	2028676	42065846	117072817	195	28856										
DDC	1644	broad.mit.edu	37	chr7	50566927	50566927	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcatcaacgtgcagccatatGtcttccttgttgcctaaagt	8	11	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:50566927G>A	uc003tpf.3	-	8	881	c.795C>T	c.(793-795)GAC>GAT	p.D265D	DDC_uc010kza.2_Silent_p.D180D|DDC_uc003tpg.3_Silent_p.D265D	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	265					cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	GCAGCCATATGTCTTCCTTGT	0.562													18	44	---	---	---	---	PASS	A	50566927	A	A	50566927	2	1	76	1	0	0	0	0	0	0	0	1	4325	1368	48	3		3	DDC	7	50566927	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	8501081	50566927	108571736	196	28857										
ZNF479	90827	broad.mit.edu	37	chr7	57188631	57188631	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttgaaaatttaccaaagactTtgacatatttatgagtctga	6	5	1	5			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:57188631T>A	uc010kzo.2	-	5	762	c.491A>T	c.(490-492)AAA>ATA	p.K164I		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	164					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			ACCAAAGACTTTGACATATTT	0.308													9	56	---	---	---	---	PASS	A	57188631	A	A	57188631	3	1	76	1	0	0	0	0	1	0	0	0	17930	1841	64	5	1087	5	ZNF479	7	57188631	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	6621704	57188631	101950032	197	28858										
SRCRB4D	136853	broad.mit.edu	37	chr7	76022746	76022746	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcagagcgctcccgcgtcctCgtggtggccgcagttgtgct	15	14	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:76022746C>T	uc003ufb.2	-	9	1657	c.1309G>A	c.(1309-1311)GAG>AAG	p.E437K	SRCRB4D_uc003ufa.2_5'UTR	NM_080744	NP_542782	Q8WTU2	SRB4D_HUMAN	scavenger receptor cysteine rich domain	437	SRCR 3.					extracellular region|membrane	scavenger receptor activity			pancreas(1)	1						CCCGCGTCCTCGTGGTGGCCG	0.751													6	29	---	---	---	---	PASS	T	76022746	T	T	76022746	3	4	76	1	0	0	0	0	1	0	0	0	15136	893	31	2	430	2	SRCRB4D	7	76022746	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	18834115	76022746	83115917	198	28859										
ABCB1	5243	broad.mit.edu	37	chr7	87183183	87183183	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcaggaaagcagcacctataGaaatattggctgtaatagct	10	7	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:87183183G>C	uc003uiz.1	-	10	1311	c.893C>G	c.(892-894)TCT>TGT	p.S298C	ABCB1_uc011khc.1_Missense_Mutation_p.S234C	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	298	Helical; (Potential).|ABC transmembrane type-1 1.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	AGCACCTATAGAAATATTGGC	0.373													30	253	---	---	---	---	PASS	C	87183183	C	C	87183183	3	2	76	1	0	0	0	0	1	0	0	0	40	942	33	2	3029	2	ABCB1	7	87183183	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	11160437	87183183	71955480	199	28860										
SLC25A40	55972	broad.mit.edu	37	chr7	87483531	87483531	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	caccttaccaatgttccctgGaaatttcctggcttcttata	5	12	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:87483531G>A	uc003uje.2	-	5	603	c.252C>T	c.(250-252)TTC>TTT	p.F84F		NM_018843	NP_061331	Q8TBP6	S2540_HUMAN	mitochondrial carrier family protein	84	Solcar 1.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			haematopoietic_and_lymphoid_tissue(1)	1	Esophageal squamous(14;0.00202)					ATGTTCCCTGGAAATTTCCTG	0.323													8	227	---	---	---	---	PASS	A	87483531	A	A	87483531	2	1	76	1	0	0	0	0	0	0	0	1	14505	1165	41	2		2	SLC25A40	7	87483531	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	300348	87483531	71655132	200	28861										
AKAP9	10142	broad.mit.edu	37	chr7	91715626	91715626	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttcaacaagttttcttagaaGagcgtagtgttttactagca	8	6	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:91715626G>C	uc003ulg.2	+	37	9334	c.9109G>C	c.(9109-9111)GAG>CAG	p.E3037Q	AKAP9_uc003ulf.2_Missense_Mutation_p.E3029Q|AKAP9_uc003uli.2_Missense_Mutation_p.E2660Q|AKAP9_uc003ulj.2_Missense_Mutation_p.E807Q|AKAP9_uc003ulk.2_Missense_Mutation_p.E312Q	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3041					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTTCTTAGAAGAGCGTAGTGT	0.418			T	BRAF	papillary thyroid								64	527	---	---	---	---	PASS	C	91715626	C	C	91715626	3	2	76	1	0	0	0	0	1	0	0	0	459	943	33	2	9255	2	AKAP9	7	91715626	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	4232095	91715626	67423037	201	28862										
ANKIB1	54467	broad.mit.edu	37	chr7	91936822	91936822	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cacagaagatgatttcagaaGagcagattgtctgcagatga	11	6	2	8			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:91936822G>C	uc003ulw.2	+	3	714	c.338G>C	c.(337-339)AGA>ACA	p.R113T		NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	113							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GATTTCAGAAGAGCAGATTGT	0.413													4	232	---	---	---	---	PASS	C	91936822	C	C	91936822	3	2	76	1	0	0	0	0	1	0	0	0	630	942	33	2	344	2	ANKIB1	7	91936822	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	221196	91936822	67201841	202	28863										
COL1A2	1278	broad.mit.edu	37	chr7	94045750	94045750	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccccaggtgagagtggtgctGccggtcctactggtcctatt	13	12	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:94045750G>T	uc003ung.1	+	31	2269	c.1798G>T	c.(1798-1800)GCC>TCC	p.A600S	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_5'Flank	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	600					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GAGTGGTGCTGCCGGTCCTAC	0.478										HNSCC(75;0.22)			6	16	---	---	---	---	PASS	T	94045750	T	T	94045750	3	4	76	1	0	0	0	0	1	0	0	0	3678	1319	46	3	1920	3	COL1A2	7	94045750	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	2108928	94045750	65092913	203	28864										
MUC17	140453	broad.mit.edu	37	chr7	100677363	100677363	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cagcaccctttcaacaactcCtgttgacaccagcacacctg	5	17	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:100677363C>T	uc003uxp.1	+	3	2719	c.2666C>T	c.(2665-2667)CCT>CTT	p.P889L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	889	Extracellular (Potential).|12.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TCAACAACTCCTGTTGACACC	0.498													80	818	---	---	---	---	PASS	T	100677363	T	T	100677363	3	4	76	1	0	0	0	0	1	0	0	0	9974	681	24	3	2676	3	MUC17	7	100677363	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	6631613	100677363	58461300	204	28865										
MUC17	140453	broad.mit.edu	37	chr7	100678116	100678116	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cacttctactgaagccagttCatctcctacaactgctgaag	6	13	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:100678116C>G	uc003uxp.1	+	3	3472	c.3419C>G	c.(3418-3420)TCA>TGA	p.S1140*	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1140	Extracellular (Potential).|59 X approximate tandem repeats.|17.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GAAGCCAGTTCATCTCCTACA	0.547													18	854	---	---	---	---	PASS	G	100678116	G	G	100678116	4	3	76	1	0	0	0	0	0	1	0	0	9974	838	29	2	3429	2	MUC17	7	100678116	Nonsense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	753	100678116	58460547	205	28866										
MUC17	140453	broad.mit.edu	37	chr7	100678753	100678753	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	accacactggtggccagttcTgcaatcagcatcctttcaac	7	14	3	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:100678753T>C	uc003uxp.1	+	3	4109	c.4056T>C	c.(4054-4056)TCT>TCC	p.S1352S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1352	Extracellular (Potential).|20.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TGGCCAGTTCTGCAATCAGCA	0.468													267	478	---	---	---	---	PASS	C	100678753	C	C	100678753	2	2	76	1	0	0	0	0	0	0	0	1	9974	1567	55	5		5	MUC17	7	100678753	Silent	SNP	T	TCGA-37-3783-01A-01D-1267-08	637	100678753	58459910	206	28867										
PNPLA8	50640	broad.mit.edu	37	chr7	108155098	108155098	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	actttgtttagttgaaacttGaagaacatcaggtatcgcag	9	6	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:108155098G>C	uc003vff.1	-	4	1245	c.838C>G	c.(838-840)CAA>GAA	p.Q280E	PNPLA8_uc003vfg.1_RNA|PNPLA8_uc003vfh.1_Missense_Mutation_p.Q280E|PNPLA8_uc003vfi.1_Missense_Mutation_p.Q180E|PNPLA8_uc003vfj.1_Missense_Mutation_p.Q280E|PNPLA8_uc003vfk.1_Missense_Mutation_p.Q180E	NM_015723	NP_056538	Q9NP80	PLPL8_HUMAN	patatin-like phospholipase domain containing 8	280					fatty acid metabolic process|lipid catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|membrane fraction|perinuclear region of cytoplasm|peroxisomal membrane	ATP binding|calcium-independent phospholipase A2 activity|lysophospholipase activity			breast(2)	2						GTTGAAACTTGAAGAACATCA	0.438													20	231	---	---	---	---	PASS	C	108155098	C	C	108155098	3	2	76	1	0	0	0	0	1	0	0	0	12171	1299	45	2	1546	2	PNPLA8	7	108155098	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	7476345	108155098	50983565	207	28868										
KCND2	3751	broad.mit.edu	37	chr7	119914784	119914784	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tatgccggctcccccgaggcAggagaggaaaaggacccaag	14	12	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:119914784A>G	uc003vjj.1	+	1	1063	c.98A>G	c.(97-99)CAG>CGG	p.Q33R		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	33	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					CCCCCGAGGCAGGAGAGGAAA	0.627													261	398	---	---	---	---	PASS	G	119914784	G	G	119914784	3	3	76	1	0	0	0	0	1	0	0	0	8019	188	7	5	100	5	KCND2	7	119914784	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	11759686	119914784	39223879	208	28869										
BRAF	673	broad.mit.edu	37	chr7	140534436	140534436	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctctgtttgttgggcaggaaGactctaacgataggtttttg	12	6	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:140534436G>C	uc003vwc.3	-	3	538	c.477C>G	c.(475-477)GTC>GTG	p.V159V		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	159	RBD.				activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TGGGCAGGAAGACTCTAACGA	0.403		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				58	172	---	---	---	---	PASS	C	140534436	C	C	140534436	2	2	76	1	0	0	0	0	0	0	0	1	1496	929	33	2		2	BRAF	7	140534436	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	20619652	140534436	18604227	209	28870										
BRAF	673	broad.mit.edu	37	chr7	140534629	140534629	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	attccaataactgttgttctCtttgttggagtgcatctagc	8	8	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:140534629C>G	uc003vwc.3	-	3	345	c.284G>C	c.(283-285)AGA>ACA	p.R95T		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	95					activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	CTGTTGTTCTCTTTGTTGGAG	0.393		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				33	180	---	---	---	---	PASS	G	140534629	G	G	140534629	3	3	76	1	0	0	0	0	1	0	0	0	1496	913	32	2	2080	2	BRAF	7	140534629	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	193	140534629	18604034	210	28871										
PRSS1	5644	broad.mit.edu	37	chr7	142459677	142459677	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcgaagtcctggaggggaatGagcagttcatcaatgcagcc	13	9	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:142459677G>C	uc003wak.2	+	3	270	c.253G>C	c.(253-255)GAG>CAG	p.E85Q	uc011krr.1_Intron|uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|TRY6_uc011ksn.1_Intron|PRSS1_uc011ksm.1_3'UTR|PRSS1_uc003wam.2_Missense_Mutation_p.E25Q	NM_002769	NP_002760	P07477	TRY1_HUMAN	protease, serine, 1 preproprotein	85	Peptidase S1.	Calcium.			digestion|proteolysis	extracellular space	metal ion binding|protein binding|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)			GGAGGGGAATGAGCAGTTCAT	0.547									Hereditary_Pancreatitis				31	313	---	---	---	---	PASS	C	142459677	C	C	142459677	3	2	76	1	0	0	0	0	1	0	0	0	12614	1291	45	2	263	2	PRSS1	7	142459677	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1925048	142459677	16678986	211	28872										
TRPV6	55503	broad.mit.edu	37	chr7	142583234	142583234	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccataggcagagaattagccCtttctccttgggcagtgaca	10	11	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:142583234C>T	uc003wbx.1	-	1	244	c.28G>A	c.(28-30)GGG>AGG	p.G10R		NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	10	Cytoplasmic (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					AGAATTAGCCCTTTCTCCTTG	0.612													100	169	---	---	---	---	PASS	T	142583234	T	T	142583234	3	4	76	1	0	0	0	0	1	0	0	0	16597	681	24	3	2209	3	TRPV6	7	142583234	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	123557	142583234	16555429	212	28873										
CNTNAP2	26047	broad.mit.edu	37	chr7	148080915	148080915	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggagtccaactgcggggcctCgccgctgaccctctccccca	11	19	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:148080915C>T	uc003weu.1	+	22	4166	c.3650C>T	c.(3649-3651)TCG>TTG	p.S1217L	CNTNAP2_uc003wev.1_5'UTR	NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	1217	Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TGCGGGGCCTCGCCGCTGACC	0.562										HNSCC(39;0.1)			27	74	---	---	---	---	PASS	T	148080915	T	T	148080915	3	4	76	1	0	0	0	0	1	0	0	0	3647	893	31	2	3736	2	CNTNAP2	7	148080915	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	5497681	148080915	11057748	213	28874										
ZNF862	643641	broad.mit.edu	37	chr7	149545106	149545106	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctccatcagggacaaacggtCaagactaatagaaggttata	9	8	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:149545106C>T	uc010lpn.2	+	4	716	c.524C>T	c.(523-525)TCA>TTA	p.S175L	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	175	TTF-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						GACAAACGGTCAAGACTAATA	0.512													12	30	---	---	---	---	PASS	T	149545106	T	T	149545106	3	4	76	1	0	0	0	0	1	0	0	0	18192	838	29	2	538	2	ZNF862	7	149545106	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1464191	149545106	9593557	214	28875										
WDR86	349136	broad.mit.edu	37	chr7	151093180	151093180	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agggtcagcacgcagttgcgGtggccccggaactcccggga	16	13	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:151093180G>T	uc003wkb.2	-	3	857	c.408C>A	c.(406-408)CAC>CAA	p.H136Q	WDR86_uc003wka.2_Missense_Mutation_p.H94Q|WDR86_uc011kvk.1_Missense_Mutation_p.H136Q|WDR86_uc003wkc.2_Missense_Mutation_p.H8Q	NM_198285	NP_938026	Q86TI4	WDR86_HUMAN	WD repeat domain 86	136	WD 4.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00419)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGCAGTTGCGGTGGCCCCGGA	0.677													51	44	---	---	---	---	PASS	T	151093180	T	T	151093180	3	4	76	1	0	0	0	0	1	0	0	0	17331	1252	44	3	738	3	WDR86	7	151093180	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1548074	151093180	8045483	215	28876										
HTR5A	3361	broad.mit.edu	37	chr7	154862691	154862691	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	accacagcctcggcaaagacGacctgcgccccagctcgccc	9	20	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr7:154862691G>C	uc003wlu.1	+	1	146	c.82G>C	c.(82-84)GAC>CAC	p.D28H	uc011kvt.1_Intron|uc003wlt.2_Intron	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	28	Extracellular (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		CGGCAAAGACGACCTGCGCCC	0.607													113	132	---	---	---	---	PASS	C	154862691	C	C	154862691	3	2	76	1	0	0	0	0	1	0	0	0	7450	1058	37	2	84	2	HTR5A	7	154862691	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	3769511	154862691	4275972	216	28877										
CSMD1	64478	broad.mit.edu	37	chr8	3165999	3165999	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gccgtagttagggatgcccgGatcctcacattttaccagat	10	11	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr8:3165999G>A	uc011kwk.1	-	24	4051	c.3661C>T	c.(3661-3663)CCG>TCG	p.P1221S	CSMD1_uc011kwj.1_Missense_Mutation_p.P613S|CSMD1_uc003wqe.2_Missense_Mutation_p.P377S	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1221	Extracellular (Potential).|Sushi 7.					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)		GGGATGCCCGGATCCTCACAT	0.483													10	25	---	---	---	---	PASS	A	3165999	A	A	3165999	3	1	76	1	0	0	0	0	1	0	0	0	3944	1174	41	2	7224	2	CSMD1	8	3165999	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08		3165999	143198023	217	28878										
POTEA	340441	broad.mit.edu	37	chr8	43171102	43171102	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaagtgaaaatagtcagcatGaggcatgtaaaattttaaat	9	3	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr8:43171102G>A	uc003xpz.1	+	7	1016	c.973G>A	c.(973-975)GAG>AAG	p.E325K	POTEA_uc003xqa.1_Missense_Mutation_p.E279K	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	325										ovary(1)	1						TAGTCAGCATGAGGCATGtaa	0.318													4	28	---	---	---	---	PASS	A	43171102	A	A	43171102	3	1	76	1	0	0	0	0	1	0	0	0	12261	1291	45	2	999	2	POTEA	8	43171102	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	40005103	43171102	103192920	218	28879										
CHD7	55636	broad.mit.edu	37	chr8	61754598	61754598	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtttcagggtggagaagaatCtgcttgtctatgggtaagta	14	4	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr8:61754598C>T	uc003xue.2	+	21	5314	c.4837C>T	c.(4837-4839)CTG>TTG	p.L1613L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1613					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)			GGAGAAGAATCTGCTTGTCTA	0.418													4	27	---	---	---	---	PASS	T	61754598	T	T	61754598	2	4	76	1	0	0	0	0	0	0	0	1	3330	912	32	2		2	CHD7	8	61754598	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	18583496	61754598	84609424	219	28880										
VCPIP1	80124	broad.mit.edu	37	chr8	67578320	67578320	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cacattggcaagaccaaataTgtggatattcctcaggccca	8	11	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr8:67578320T>C	uc003xwn.2	-	1	1133	c.874A>G	c.(874-876)ATA>GTA	p.I292V	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	292	OTU.				protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			AGACCAAATATGTGGATATTC	0.468													38	208	---	---	---	---	PASS	C	67578320	C	C	67578320	3	2	76	1	0	0	0	0	1	0	0	0	17138	1464	51	5	2806	5	VCPIP1	8	67578320	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	5823722	67578320	78785702	220	28881										
PREX2	80243	broad.mit.edu	37	chr8	69069666	69069666	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtcaaacagtacaaccagaaGctcaggtatgtaacaatcca	7	10	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr8:69069666G>T	uc003xxv.1	+	35	4368	c.4341G>T	c.(4339-4341)AAG>AAT	p.K1447N		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1447					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ACAACCAGAAGCTCAGGTATG	0.323													15	62	---	---	---	---	PASS	T	69069666	T	T	69069666	3	4	76	1	0	0	0	0	1	0	0	0	12477	962	34	3	4708	3	PREX2	8	69069666	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1491346	69069666	77294356	221	28882										
ZFHX4	79776	broad.mit.edu	37	chr8	77775917	77775917	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgcagcagtaccaacagtatCagcagaacctgcaggagtcc	10	12	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr8:77775917C>T	uc003yav.2	+	11	10219	c.9832C>T	c.(9832-9834)CAG>TAG	p.Q3278*		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3274	Potential.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ccaacagtatcagcagaacct	0.313										HNSCC(33;0.089)			3	18	---	---	---	---	PASS	T	77775917	T	T	77775917	4	4	76	1	0	0	0	0	0	1	0	0	17632	827	29	2	10005	2	ZFHX4	8	77775917	Nonsense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	8706251	77775917	68588105	222	28883										
ENPP2	5168	broad.mit.edu	37	chr8	120594757	120594757	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctggtaacttcctctggcatGgttggcctgaaggtattagt	12	8	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr8:120594757G>A	uc003yot.1	-	18	1715	c.1629C>T	c.(1627-1629)ACC>ACT	p.T543T	ENPP2_uc011lic.1_Silent_p.T60T|ENPP2_uc003yor.1_Silent_p.T182T|ENPP2_uc003yos.1_Silent_p.T595T|ENPP2_uc010mdd.1_Silent_p.T543T	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	543					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CCTCTGGCATGGTTGGCCTGA	0.453													76	377	---	---	---	---	PASS	A	120594757	A	A	120594757	2	1	76	1	0	0	0	0	0	0	0	1	5130	1335	47	3		3	ENPP2	8	120594757	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	42818840	120594757	25769265	223	28884										
FBXO32	114907	broad.mit.edu	37	chr8	124553156	124553156	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cacctgctgaggtcgctcacGaaactgccgctcttctcatc	8	16	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr8:124553156G>A	uc003yqr.2	-	1	291	c.99C>T	c.(97-99)TTC>TTT	p.F33F	FBXO32_uc010mdk.2_Silent_p.F33F	NM_058229	NP_478136	Q969P5	FBX32_HUMAN	F-box only protein 32 isoform 1	33										skin(3)|breast(2)|lung(1)	6	Lung NSC(37;1.13e-13)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			GGTCGCTCACGAAACTGCCGC	0.677													14	116	---	---	---	---	PASS	A	124553156	A	A	124553156	2	1	76	1	0	0	0	0	0	0	0	1	5742	1049	37	2		2	FBXO32	8	124553156	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	3958399	124553156	21810866	224	28885										
ASAP1	50807	broad.mit.edu	37	chr8	131146584	131146584	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctgcctgaaagtgatatgttCtattatctaaaataaaaaaa	5	5	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr8:131146584C>G	uc003yta.1	-	14	1203	c.1175G>C	c.(1174-1176)AGA>ACA	p.R392T	ASAP1_uc003ysz.1_Missense_Mutation_p.R203T|ASAP1_uc011liw.1_Missense_Mutation_p.R385T	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	392	PH.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						GTGATATGTTCTATTATCTAA	0.348													14	71	---	---	---	---	PASS	G	131146584	G	G	131146584	3	3	76	1	0	0	0	0	1	0	0	0	1010	913	32	2	2278	2	ASAP1	8	131146584	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	6593428	131146584	15217438	225	28886										
EFR3A	23167	broad.mit.edu	37	chr8	133014041	133014041	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaaatcacttttgaagcattGaagaaagcaattggtgagat	10	4	1	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr8:133014041G>A	uc003yte.2	+	20	2394	c.2193G>A	c.(2191-2193)TTG>TTA	p.L731L		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	731						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			TTGAAGCATTGAAGAAAGCAA	0.328													11	85	---	---	---	---	PASS	A	133014041	A	A	133014041	2	1	76	1	0	0	0	0	0	0	0	1	4958	1281	45	2		2	EFR3A	8	133014041	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	1867457	133014041	13349981	226	28887										
PLEC	5339	broad.mit.edu	37	chr8	145006373	145006373	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tggagctccttgatcttcttCtccttcagctccagctcccg	7	16	4	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr8:145006373C>T	uc003zaf.1	-	17	2588	c.2418G>A	c.(2416-2418)GAG>GAA	p.E806E	PLEC_uc003zab.1_Silent_p.E669E|PLEC_uc003zac.1_Silent_p.E673E|PLEC_uc003zad.2_Silent_p.E669E|PLEC_uc003zae.1_Silent_p.E637E|PLEC_uc003zag.1_Silent_p.E647E|PLEC_uc003zah.2_Silent_p.E655E|PLEC_uc003zaj.2_Silent_p.E696E	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	806	Spectrin 2.|Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TGATCTTCTTCTCCTTCAGCT	0.647													5	89	---	---	---	---	PASS	T	145006373	T	T	145006373	2	4	76	1	0	0	0	0	0	0	0	1	12052	912	32	2		2	PLEC	8	145006373	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	11992332	145006373	1357649	227	28888										
CPSF1	29894	broad.mit.edu	37	chr8	145623969	145623969	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccgtgtctgcggccgtcgtcGtctgcttcaggggtggtgct	16	12	3	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr8:145623969G>A	uc003zcj.2	-	18	1773	c.1698C>T	c.(1696-1698)GAC>GAT	p.D566D		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	566					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	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;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			GGCCGTCGTCGTCTGCTTCAG	0.662													42	442	---	---	---	---	PASS	A	145623969	A	A	145623969	2	1	76	1	0	0	0	0	0	0	0	1	3824	1136	40	1		1	CPSF1	8	145623969	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	617596	145623969	740053	228	28889										
IFNA7	3444	broad.mit.edu	37	chr9	21201638	21201638	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttttcaagtttgttgaaaaaGagaaggatctcatgatttct	8	4	3	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr9:21201638G>C	uc003zop.1	-	1	567	c.527C>G	c.(526-528)TCT>TGT	p.S176C	IFNA14_uc003zoo.1_Intron	NM_021057	NP_066401	P01567	IFNA7_HUMAN	interferon, alpha 7 precursor	176					blood coagulation|cell-cell signaling|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				GBM - Glioblastoma multiforme(5;4.75e-197)|Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		TGTTGAAAAAGAGAAGGATCT	0.378													70	367	---	---	---	---	PASS	C	21201638	C	C	21201638	3	2	76	1	0	0	0	0	1	0	0	0	7542	942	33	2	46	2	IFNA7	9	21201638	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08		21201638	120011793	229	28890										
PTPDC1	138639	broad.mit.edu	37	chr9	96866628	96866628	+	Missense_Mutation	SNP	G	T	T													0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	acaattcccgtggatgtggaGgaagctttccttgcccatgc							TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr9:96866628G>T	uc004auf.1	+	9	2449	c.2109G>T	c.(2107-2109)GAG>GAT	p.E703D	PTPDC1_uc004aug.1_Missense_Mutation_p.E698D|PTPDC1_uc004auh.1_Missense_Mutation_p.E755D|PTPDC1_uc010mrj.1_Missense_Mutation_p.E757D	NM_177995	NP_818931	A2A3K4	PTPC1_HUMAN	protein tyrosine phosphatase domain containing 1	703							protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1						TGGATGTGGAGGAAGCTTTCC	0.438													17	37	---	---	---	---	PASS	T	96866628	T	T	96866628	3	4	76	1	0	0	0	0	1	0	0	0	12773	991	35	3	2381	3	PTPDC1	9	96866628	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	75664990	96866628	44346803	230	28891	597	2								
PTPDC1	138639	broad.mit.edu	37	chr9	96866629	96866629	+	Nonsense_Mutation	SNP	G	T	T													0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	caattcccgtggatgtggagGaagctttccttgcccatgcc							TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr9:96866629G>T	uc004auf.1	+	9	2450	c.2110G>T	c.(2110-2112)GAA>TAA	p.E704*	PTPDC1_uc004aug.1_Nonsense_Mutation_p.E699*|PTPDC1_uc004auh.1_Nonsense_Mutation_p.E756*|PTPDC1_uc010mrj.1_Nonsense_Mutation_p.E758*	NM_177995	NP_818931	A2A3K4	PTPC1_HUMAN	protein tyrosine phosphatase domain containing 1	704							protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1						GGATGTGGAGGAAGCTTTCCT	0.443													17	37	---	---	---	---	PASS	T	96866629	T	T	96866629	4	4	76	1	0	0	0	0	0	1	0	0	12773	1175	41	2	2382	2	PTPDC1	9	96866629	Nonsense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1	96866629	44346802	231	28892	597	2								
GRIN3A	116443	broad.mit.edu	37	chr9	104433333	104433333	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tttctgagctgacgatggtgGaaccttttactctgatggaa	11	7	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr9:104433333G>C	uc004bbp.1	-	3	1962	c.1361C>G	c.(1360-1362)TCC>TGC	p.S454C	GRIN3A_uc004bbq.1_Missense_Mutation_p.S454C	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	454	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	GACGATGGTGGAACCTTTTAC	0.493													84	214	---	---	---	---	PASS	C	104433333	C	C	104433333	3	2	76	1	0	0	0	0	1	0	0	0	6783	1174	41	2	2014	2	GRIN3A	9	104433333	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	7566704	104433333	36780098	232	28893										
COL27A1	85301	broad.mit.edu	37	chr9	117031543	117031543	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgaccttggacccctgggcaCtcctggggagcagggcctca	14	14	1	1	rs139237104	byFrequency	TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr9:117031543C>G	uc011lxl.1	+	35	3524	c.3524C>G	c.(3523-3525)ACT>AGT	p.T1175S	COL27A1_uc004bii.2_RNA	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1175	Pro-rich.|Collagen-like 9.|Triple-helical region.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						CCCCTGGGCACTCCTGGGGAG	0.607													13	40	---	---	---	---	PASS	G	117031543	G	G	117031543	3	3	76	1	0	0	0	0	1	0	0	0	3685	565	20	4	3662	4	COL27A1	9	117031543	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	12598210	117031543	24181888	233	28894										
CEP110	11064	broad.mit.edu	37	chr9	123922541	123922541	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttgaaaaagaggaagaaaatCttcaggttgttttaaggcag	11	3	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr9:123922541C>A	uc004bkx.1	+	30	5081	c.5050C>A	c.(5050-5052)CTT>ATT	p.L1684I	CEP110_uc010mvo.1_Missense_Mutation_p.L353I|CEP110_uc004blb.1_Missense_Mutation_p.L353I|CEP110_uc010mvp.1_5'UTR	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	1684	Potential.				cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						GGAAGAAAATCTTCAGGTTGT	0.303													56	88	---	---	---	---	PASS	A	123922541	A	A	123922541	3	1	76	1	0	0	0	0	1	0	0	0	3245	913	32	2	5168	2	CEP110	9	123922541	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	6890998	123922541	17290890	234	28895										
OR1L4	254973	broad.mit.edu	37	chr9	125486937	125486937	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttctcctacctgcaaatcatCgtcactgtgctcagaatccc	5	15	4	1	rs140014211		TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr9:125486937C>A	uc004bmu.1	+	1	669	c.669C>A	c.(667-669)ATC>ATA	p.I223I		NM_001005235	NP_001005235	Q8NGR5	OR1L4_HUMAN	olfactory receptor, family 1, subfamily L,	223	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGCAAATCATCGTCACTGTGC	0.542													107	535	---	---	---	---	PASS	A	125486937	A	A	125486937	2	1	76	1	0	0	0	0	0	0	0	1	10965	874	31	2		2	OR1L4	9	125486937	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	1564396	125486937	15726494	235	28896										
FPGS	2356	broad.mit.edu	37	chr9	130569530	130569530	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccccctacttccgcttcctgAcactcatggccttccacgtc	5	20	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr9:130569530A>G	uc004bsg.1	+	6	594	c.544A>G	c.(544-546)ACA>GCA	p.T182A	FPGS_uc004bsh.1_5'UTR|FPGS_uc011mal.1_Intron|FPGS_uc004bsi.1_Missense_Mutation_p.T132A	NM_004957	NP_004948	Q05932	FOLC_HUMAN	folylpolyglutamate synthase isoform a precursor	182					folic acid metabolic process|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|one-carbon metabolic process	cytosol|mitochondrial matrix	ATP binding|tetrahydrofolylpolyglutamate synthase activity				0					L-Glutamic Acid(DB00142)	CCGCTTCCTGACACTCATGGC	0.612													119	197	---	---	---	---	PASS	G	130569530	G	G	130569530	3	3	76	1	0	0	0	0	1	0	0	0	6036	275	10	5	566	5	FPGS	9	130569530	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	5082593	130569530	10643901	236	28897										
URM1	81605	broad.mit.edu	37	chr9	131151543	131151543	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	caccatctttcccacaggcgGccaggaattctggtgctgat	10	13	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr9:131151543G>A	uc004buv.2	+	4	254	c.192G>A	c.(190-192)CGG>CGA	p.R64R	URM1_uc011may.1_Silent_p.R64R|URM1_uc004buw.2_RNA	NM_030914	NP_112176	Q9BTM9	URM1_HUMAN	ubiquitin related modifier 1 homolog isoform a	64					tRNA thio-modification|tRNA wobble uridine modification		protein binding				0						CCCACAGGCGGCCAGGAATTC	0.592													72	148	---	---	---	---	PASS	A	131151543	A	A	131151543	2	1	76	1	0	0	0	0	0	0	0	1	17024	1190	42	3		3	URM1	9	131151543	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	582013	131151543	10061888	237	28898										
VAV2	7410	broad.mit.edu	37	chr9	136662864	136662864	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cctgaagtcctcccggctggCcaggagctggttcagtgtgt	14	12	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr9:136662864C>T	uc004ces.2	-	10	950	c.904G>A	c.(904-906)GCC>ACC	p.A302T	VAV2_uc004cer.2_Missense_Mutation_p.A297T	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	302	DH.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		TCCCGGCTGGCCAGGAGCTGG	0.617													23	46	---	---	---	---	PASS	T	136662864	T	T	136662864	3	4	76	1	0	0	0	0	1	0	0	0	17129	739	26	3	1816	3	VAV2	9	136662864	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	5511321	136662864	4550567	238	28899										
SSNA1	8636	broad.mit.edu	37	chr9	140083606	140083606	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cagcggctgcagaatgaggtGaggcagctgacagagaagct	16	8	0	5			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr9:140083606G>A	uc004cls.2	+	2	266	c.141G>A	c.(139-141)GTG>GTA	p.V47V	ANAPC2_uc004clq.1_5'Flank|ANAPC2_uc004clr.1_5'Flank|ANAPC2_uc011mer.1_5'Flank	NM_003731	NP_003722	O43805	SSNA1_HUMAN	nuclear autoantigen of 14 kDa	47	Potential.				G2/M transition of mitotic cell cycle	centrosome|cytosol|nucleus				breast(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.43e-05)|Epithelial(140;0.00087)		AGAATGAGGTGAGGCAGCTGA	0.652													14	31	---	---	---	---	PASS	A	140083606	A	A	140083606	2	1	76	1	0	0	0	0	0	0	0	1	15186	1277	45	2		2	SSNA1	9	140083606	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	3420742	140083606	1129825	239	28900										
C10orf18	54906	broad.mit.edu	37	chr10	5803348	5803348	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttatcaccagtgtgactctcGatcatcaacaaaagcagaaa	6	10	4	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:5803348G>A	uc001iij.2	+	19	7713	c.7088G>A	c.(7087-7089)CGA>CAA	p.R2363Q	C10orf18_uc001iik.2_Missense_Mutation_p.R1207Q	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	2363										ovary(1)|central_nervous_system(1)	2						TGTGACTCTCGATCATCAACA	0.388													33	163	---	---	---	---	PASS	A	5803348	A	A	5803348	3	1	76	1	0	0	0	0	1	0	0	0	1596	1058	37	2	7150	2	C10orf18	10	5803348	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08		5803348	129731399	240	28901										
FAM171A1	221061	broad.mit.edu	37	chr10	15325930	15325930	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttggcacgtaggcatgcttcGaggcggtgacaatcaactga	13	9	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:15325930G>C	uc001iob.2	-	2	279	c.272C>G	c.(271-273)TCG>TGG	p.S91W		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	91	Extracellular (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						GGCATGCTTCGAGGCGGTGAC	0.532													16	106	---	---	---	---	PASS	C	15325930	C	C	15325930	3	2	76	1	0	0	0	0	1	0	0	0	5490	1059	37	2	2428	2	FAM171A1	10	15325930	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	9522582	15325930	120208817	241	28902										
ITGA8	8516	broad.mit.edu	37	chr10	15726081	15726081	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggtgccaactgggtccttttCtggtgtcggtttaagagttc	13	8	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:15726081C>T	uc001ioc.1	-	4	490	c.490G>A	c.(490-492)GAA>AAA	p.E164K	ITGA8_uc010qcb.1_Missense_Mutation_p.E164K	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	164	Extracellular (Potential).|FG-GAP 2.				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						GGGTCCTTTTCTGGTGTCGGT	0.423													19	87	---	---	---	---	PASS	T	15726081	T	T	15726081	3	4	76	1	0	0	0	0	1	0	0	0	7882	922	32	2	2809	2	ITGA8	10	15726081	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	400151	15726081	119808666	242	28903										
CUBN	8029	broad.mit.edu	37	chr10	16873253	16873253	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aaagtgcaaatgtcttaccaGagggtgatgaagtccagatg	12	6	1	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:16873253G>C	uc001ioo.2	-	65	10578	c.10526C>G	c.(10525-10527)TCT>TGT	p.S3509C		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3509					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)	TGTCTTACCAGAGGGTGATGA	0.363													22	109	---	---	---	---	PASS	C	16873253	C	C	16873253	3	2	76	1	0	0	0	0	1	0	0	0	4051	942	33	2	357	2	CUBN	10	16873253	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1147172	16873253	118661494	243	28904										
VIM	7431	broad.mit.edu	37	chr10	17275778	17275778	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tctttttgcaggaaatccagGagctgcaggctcagattcag	11	9	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:17275778G>A	uc001iou.2	+	5	1143	c.730G>A	c.(730-732)GAG>AAG	p.E244K	VIM_uc001iov.1_Missense_Mutation_p.E244K|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.E244K|VIM_uc001ioy.1_Missense_Mutation_p.E244K|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.E244K|VIM_uc001ipc.1_Missense_Mutation_p.E244K	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	244	Rod.|Coil 1B.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						GGAAATCCAGGAGCTGCAGGC	0.532													19	89	---	---	---	---	PASS	A	17275778	A	A	17275778	3	1	76	1	0	0	0	0	1	0	0	0	17163	1175	41	2	744	2	VIM	10	17275778	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	402525	17275778	118258969	244	28905										
KIF5B	3799	broad.mit.edu	37	chr10	32306105	32306105	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgccctcttctggccatattCtttgacctgactgcttcctt	6	14	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:32306105C>T	uc001iwe.3	-	24	3197	c.2727G>A	c.(2725-2727)AAG>AAA	p.K909K		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	909					stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				TGGCCATATTCTTTGACCTGA	0.398													98	428	---	---	---	---	PASS	T	32306105	T	T	32306105	2	4	76	1	0	0	0	0	0	0	0	1	8306	912	32	2		2	KIF5B	10	32306105	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	15030327	32306105	103228642	245	28906										
CXCL12	6387	broad.mit.edu	37	chr10	44880406	44880406	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cacttaccgtcgctgaggcaGagcgcggtcagcacgaggac	14	13	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:44880406G>C	uc001jbf.2	-	1	137	c.48C>G	c.(46-48)CTC>CTG	p.L16L	CXCL12_uc001jbh.2_Silent_p.L16L|CXCL12_uc001jbi.2_Silent_p.L16L	NM_000609	NP_000600	P48061	SDF1_HUMAN	chemokine (C-X-C motif) ligand 12 (stromal	16					blood circulation|cell adhesion|cellular calcium ion homeostasis|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|negative regulation of leukocyte apoptosis|positive regulation of monocyte chemotaxis|regulation of actin polymerization or depolymerization|response to virus	extracellular space	chemokine activity|growth factor activity|signal transducer activity				0					Dexamethasone(DB01234)	CGCTGAGGCAGAGCGCGGTCA	0.637													3	20	---	---	---	---	PASS	C	44880406	C	C	44880406	2	2	76	1	0	0	0	0	0	0	0	1	4080	929	33	2		2	CXCL12	10	44880406	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	12574301	44880406	90654341	246	28907										
ASAH2B	653308	broad.mit.edu	37	chr10	52502713	52502713	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcatcgacaatttatggaccGcacgcattatctgcttacat	7	11	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:52502713G>A	uc001jjg.2	+	2	94	c.29G>A	c.(28-30)CGC>CAC	p.R10H	ASAH2B_uc010qhm.1_5'UTR	NM_001079516	NP_001072984	Q9NR71	ASAH2_HUMAN	N-acylsphingosine amidohydrolase (non-lysosomal	Error:Variant_position_missing_in_Q9NR71_after_alignment					apoptosis|ceramide metabolic process|signal transduction	integral to membrane|mitochondrion|plasma membrane	ceramidase activity				0						TTTATGGACCGCACGCATTAT	0.363													40	207	---	---	---	---	PASS	A	52502713	A	A	52502713	3	1	76	1	0	0	0	0	1	0	0	0	1008	1087	38	1	31	1	ASAH2B	10	52502713	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	7622307	52502713	83032034	247	28908										
TSPAN15	23555	broad.mit.edu	37	chr10	71243548	71243548	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctggctccagccatcatcctCatcctcctgggcgtcgtcat	8	17	3	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:71243548C>T	uc001jpo.1	+	2	323	c.198C>T	c.(196-198)CTC>CTT	p.L66L		NM_012339	NP_036471	O95858	TSN15_HUMAN	transmembrane 4 superfamily member 15	66	Helical; (Potential).					integral to plasma membrane|membrane fraction					0						CCATCATCCTCATCCTCCTGG	0.552													25	122	---	---	---	---	PASS	T	71243548	T	T	71243548	2	4	76	1	0	0	0	0	0	0	0	1	16636	813	29	2		2	TSPAN15	10	71243548	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	18740835	71243548	64291199	248	28909										
PLAU	5328	broad.mit.edu	37	chr10	75676259	75676259	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	caagccaggcgtctacacgaGagtctcacacttcttaccct	7	15	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:75676259G>C	uc001jwa.2	+	11	1378	c.1232G>C	c.(1231-1233)AGA>ACA	p.R411T	C10orf55_uc001jvz.1_Intron|PLAU_uc010qkw.1_Missense_Mutation_p.R394T|PLAU_uc010qkx.1_Missense_Mutation_p.R325T|PLAU_uc001jwb.2_RNA|PLAU_uc001jwc.2_Missense_Mutation_p.R411T|PLAU_uc009xrq.1_Missense_Mutation_p.R375T	NM_002658	NP_002649	P00749	UROK_HUMAN	plasminogen activator, urokinase isoform 1	411	Peptidase S1.				blood coagulation|chemotaxis|fibrinolysis|proteolysis|regulation of cell adhesion mediated by integrin|regulation of receptor activity|regulation of smooth muscle cell migration|regulation of smooth muscle cell-matrix adhesion|signal transduction	cell surface|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(2)|kidney(1)	3	Prostate(51;0.0112)				Amiloride(DB00594)|Urokinase(DB00013)	GTCTACACGAGAGTCTCACAC	0.602													6	41	---	---	---	---	PASS	C	75676259	C	C	75676259	3	2	76	1	0	0	0	0	1	0	0	0	12022	942	33	2	1308	2	PLAU	10	75676259	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	4432711	75676259	59858488	249	28910										
NRG3	10718	broad.mit.edu	37	chr10	84745006	84745006	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttctgtgcccatcatcccttCagtgggtttagaggaaacct	9	11	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:84745006C>T	uc001kco.2	+	9	1763	c.1736C>T	c.(1735-1737)TCA>TTA	p.S579L	NRG3_uc010qlz.1_Missense_Mutation_p.S578L|NRG3_uc001kcp.2_Missense_Mutation_p.S382L|NRG3_uc001kcq.2_Missense_Mutation_p.S229L|NRG3_uc001kcr.2_Missense_Mutation_p.S253L	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	603	Cytoplasmic (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)		ATCATCCCTTCAGTGGGTTTA	0.468													60	272	---	---	---	---	PASS	T	84745006	T	T	84745006	3	4	76	1	0	0	0	0	1	0	0	0	10649	838	29	2	2014	2	NRG3	10	84745006	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	9068747	84745006	50789741	250	28911										
GLUD1	2746	broad.mit.edu	37	chr10	88854340	88854340	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	catcttgaagaagttggggtCgtcctcgcggtcggccaccg	14	12	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:88854340C>T	uc001keh.2	-	1	284	c.187G>A	c.(187-189)GAC>AAC	p.D63N	FAM35A_uc001kei.3_5'Flank|GLUD1_uc001keg.2_5'Flank|GLUD1_uc010qmp.1_5'Flank	NM_005271	NP_005262	P00367	DHE3_HUMAN	glutamate dehydrogenase 1 precursor	63					glutamate biosynthetic process|glutamate catabolic process|positive regulation of insulin secretion	mitochondrial matrix	ADP binding|ATP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|identical protein binding|leucine binding|NAD+ binding				0					L-Glutamic Acid(DB00142)|NADH(DB00157)	AAGTTGGGGTCGTCCTCGCGG	0.721													18	285	---	---	---	---	PASS	T	88854340	T	T	88854340	3	4	76	1	0	0	0	0	1	0	0	0	6476	884	31	2	1541	2	GLUD1	10	88854340	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	4109334	88854340	46680407	251	28912										
DNMBP	23268	broad.mit.edu	37	chr10	101715112	101715112	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttcttgagctctactgtacaTatccaagtcccgctccattt	5	13	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:101715112T>G	uc001kqj.2	-	4	2211	c.2119A>C	c.(2119-2121)ATG>CTG	p.M707L	NCRNA00093_uc001kqk.1_Intron	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	707	Potential.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		CTACTGTACATATCCAAGTCC	0.512													4	121	---	---	---	---	PASS	G	101715112	G	G	101715112	3	3	76	1	0	0	0	0	1	0	0	0	4674	1406	49	5	2670	5	DNMBP	10	101715112	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	12860772	101715112	33819635	252	28913										
CYP17A1	1586	broad.mit.edu	37	chr10	104594716	104594716	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	acaggaaaggagatgtctatGgactgtccgttgtgggtggc	16	6	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:104594716G>A	uc001kwg.2	-	3	664	c.492C>T	c.(490-492)TCC>TCT	p.S164S		NM_000102	NP_000093	P05093	CP17A_HUMAN	cytochrome P450, family 17	164					androgen biosynthetic process|glucocorticoid biosynthetic process|sex differentiation|xenobiotic metabolic process	endoplasmic reticulum membrane	electron carrier activity|heme binding|oxygen binding|steroid 17-alpha-monooxygenase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)	NADH(DB00157)|Progesterone(DB00396)	AGATGTCTATGGACTGTCCGT	0.493											OREG0020487	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	153	---	---	---	---	PASS	A	104594716	A	A	104594716	2	1	76	1	0	0	0	0	0	0	0	1	4147	1335	47	3		3	CYP17A1	10	104594716	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	2879604	104594716	30940031	253	28914										
SORCS3	22986	broad.mit.edu	37	chr10	106960951	106960951	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agctcagtgtgccctgggccGagaccactcaggatcagtgg	14	12	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:106960951G>A	uc001kyi.1	+	16	2428	c.2201G>A	c.(2200-2202)CGA>CAA	p.R734Q	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	734	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GCCCTGGGCCGAGACCACTCA	0.488													22	99	---	---	---	---	PASS	A	106960951	A	A	106960951	3	1	76	1	0	0	0	0	1	0	0	0	14932	1058	37	2	2263	2	SORCS3	10	106960951	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	2366235	106960951	28573796	254	28915										
GPAM	57678	broad.mit.edu	37	chr10	113924352	113924352	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cagacaccggtttctgacttTggctttctaaatattcctgg	8	10	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:113924352T>A	uc009xxy.1	-	13	1436	c.1238A>T	c.(1237-1239)CAA>CTA	p.Q413L	GPAM_uc001kzp.2_Missense_Mutation_p.Q413L|GPAM_uc001kzq.1_Missense_Mutation_p.Q413L	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate	413					phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		TTTCTGACTTTGGCTTTCTAA	0.358													16	46	---	---	---	---	PASS	A	113924352	A	A	113924352	3	1	76	1	0	0	0	0	1	0	0	0	6588	1812	63	5	1288	5	GPAM	10	113924352	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	6963401	113924352	21610395	255	28916										
HSPA12A	259217	broad.mit.edu	37	chr10	118451946	118451946	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	acccatctgacatcagagttCtcgaactccgaacccgcctg	7	16	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:118451946C>T	uc001lct.2	-	6	684	c.579G>A	c.(577-579)GAG>GAA	p.E193E	HSPA12A_uc001lcu.2_Silent_p.E110E	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	193							ATP binding			ovary(1)	1				all cancers(201;0.0158)		CATCAGAGTTCTCGAACTCCG	0.572													58	339	---	---	---	---	PASS	T	118451946	T	T	118451946	2	4	76	1	0	0	0	0	0	0	0	1	7404	912	32	2		2	HSPA12A	10	118451946	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	4527594	118451946	17082801	256	28917										
SEC23IP	11196	broad.mit.edu	37	chr10	121677437	121677437	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tattttattttataacagccCcacctactgtcagacaattg	4	10	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:121677437C>T	uc001leu.1	+	9	1706	c.1634C>T	c.(1633-1635)CCC>CTC	p.P545L	SEC23IP_uc010qtc.1_Missense_Mutation_p.P334L|SEC23IP_uc009xzk.1_5'Flank	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	545					Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		TATAACAGCCCCACCTACTGT	0.368													20	124	---	---	---	---	PASS	T	121677437	T	T	121677437	3	4	76	1	0	0	0	0	1	0	0	0	13993	623	22	3	1668	3	SEC23IP	10	121677437	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	3225491	121677437	13857310	257	28918										
INPP5A	3632	broad.mit.edu	37	chr10	134579283	134579283	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tttcttttctttagctcttgGagtttgacaaggagttgtct	9	6	4	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr10:134579283G>C	uc001llp.2	+	12	1158	c.910G>C	c.(910-912)GAG>CAG	p.E304Q	INPP5A_uc001llo.1_Missense_Mutation_p.E304Q|INPP5A_uc001llq.2_Missense_Mutation_p.E199Q	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	304					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		TTAGCTCTTGGAGTTTGACAA	0.488													20	146	---	---	---	---	PASS	C	134579283	C	C	134579283	3	2	76	1	0	0	0	0	1	0	0	0	7754	1175	41	2	956	2	INPP5A	10	134579283	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	12901846	134579283	955464	258	28919										
RBMXL2	27288	broad.mit.edu	37	chr11	7110612	7110612	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtggcccaggccaccaaaccGgcgttcgagagcagccggcg	15	15	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:7110612G>C	uc001mfc.2	+	1	448	c.261G>C	c.(259-261)CCG>CCC	p.P87P		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	87						nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CCACCAAACCGGCGTTCGAGA	0.592													4	16	---	---	---	---	PASS	C	7110612	C	C	7110612	2	2	76	1	0	0	0	0	0	0	0	1	13154	1103	39	4		4	RBMXL2	11	7110612	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08		7110612	127895904	259	28920										
C11orf16	56673	broad.mit.edu	37	chr11	8948644	8948644	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcctcttctaagaccactctCtgctgctgggctggcagctt	9	14	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:8948644C>G	uc001mhb.3	-	4	526	c.402G>C	c.(400-402)CAG>CAC	p.Q134H	C11orf16_uc001mhc.3_Missense_Mutation_p.Q134H	NM_020643	NP_065694	Q9NQ32	CK016_HUMAN	hypothetical protein LOC56673	134										upper_aerodigestive_tract(1)|pancreas(1)	2				Epithelial(150;4.11e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0234)		AGACCACTCTCTGCTGCTGGG	0.557													13	44	---	---	---	---	PASS	G	8948644	G	G	8948644	3	3	76	1	0	0	0	0	1	0	0	0	1631	912	32	2	1013	2	C11orf16	11	8948644	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1838032	8948644	126057872	260	28921										
MICAL2	9645	broad.mit.edu	37	chr11	12225953	12225953	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tccatgaccttcgtggcctgGgagccaagaagttctatggg	13	10	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:12225953G>A	uc001mjz.2	+	4	709	c.421G>A	c.(421-423)GGA>AGA	p.G141R	MICAL2_uc010rch.1_Missense_Mutation_p.G141R|MICAL2_uc001mjy.2_Missense_Mutation_p.G141R|MICAL2_uc001mka.2_Missense_Mutation_p.G141R|MICAL2_uc010rci.1_Missense_Mutation_p.G141R|MICAL2_uc001mkb.2_Missense_Mutation_p.G141R|MICAL2_uc001mkc.2_Missense_Mutation_p.G141R	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	141						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		TCGTGGCCTGGGAGCCAAGAA	0.557													33	125	---	---	---	---	PASS	A	12225953	A	A	12225953	3	1	76	1	0	0	0	0	1	0	0	0	9570	1233	43	3	427	3	MICAL2	11	12225953	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	3277309	12225953	122780563	261	28922										
RASSF10	644943	broad.mit.edu	37	chr11	13031130	13031130	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gccctggttgcgccatggatCcttcggaaaagaagatatcg	12	10	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:13031130C>T	uc001mkn.1	+	2	331	c.331C>T	c.(331-333)CCT>TCT	p.P111S		NM_001080521	NP_001073990	A6NK89	RASFA_HUMAN	Ras association (RalGDS/AF-6) domain family	3					signal transduction						0				Epithelial(150;0.00399)		CGCCATGGATCCTTCGGAAAA	0.637													12	41	---	---	---	---	PASS	T	13031130	T	T	13031130	3	4	76	1	0	0	0	0	1	0	0	0	13085	855	30	2	337	2	RASSF10	11	13031130	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	805177	13031130	121975386	262	28923										
USH1C	10083	broad.mit.edu	37	chr11	17552952	17552952	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggcttcctctgcacctggagCgccggggggtcagctgatca	15	13	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:17552952C>A	uc001mnf.2	-	3	351	c.242G>T	c.(241-243)CGC>CTC	p.R81L	USH1C_uc001mne.2_Missense_Mutation_p.R81L|USH1C_uc009yhb.2_Missense_Mutation_p.R81L|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_Missense_Mutation_p.R45L	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	81					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						GCACCTGGAGCGCCGGGGGGT	0.627													8	16	---	---	---	---	PASS	A	17552952	A	A	17552952	3	1	76	1	0	0	0	0	1	0	0	0	17031	768	27	1	2635	1	USH1C	11	17552952	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	4521822	17552952	117453564	263	28924										
NAV2	89797	broad.mit.edu	37	chr11	20070277	20070277	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cctttgtctcttcacagactCtttggtgggaagcctaccaa	8	12	3	1	rs140548628	byFrequency	TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:20070277C>T	uc010rdm.1	+	16	4336	c.3975C>T	c.(3973-3975)CTC>CTT	p.L1325L	NAV2_uc001mpp.2_Silent_p.L1238L|NAV2_uc001mpr.3_Silent_p.L1302L|NAV2_uc001mpt.2_Silent_p.L388L|NAV2_uc009yhx.2_Silent_p.L388L|NAV2_uc009yhy.1_Silent_p.L301L|NAV2_uc009yhz.2_5'UTR	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1325						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						TTCACAGACTCTTTGGTGGGA	0.512													20	48	---	---	---	---	PASS	T	20070277	T	T	20070277	2	4	76	1	0	0	0	0	0	0	0	1	10184	900	32	2		2	NAV2	11	20070277	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	2517325	20070277	114936239	264	28925										
SLC17A6	57084	broad.mit.edu	37	chr11	22399221	22399221	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctagtggttgggaaaagaaaGaggaatttgtacaaggagaa	14	2	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:22399221G>T	uc001mqk.2	+	12	2097	c.1684G>T	c.(1684-1686)GAG>TAG	p.E562*		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	562	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						GGAAAAGAAAGAGGAATTTGT	0.368													15	58	---	---	---	---	PASS	T	22399221	T	T	22399221	4	4	76	1	0	0	0	0	0	1	0	0	14421	943	33	2	1730	2	SLC17A6	11	22399221	Nonsense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	2328944	22399221	112607295	265	28926										
CKAP5	9793	broad.mit.edu	37	chr11	46811703	46811703	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctgtatacaggtagggggaaGaacagctgaagctttttctt	12	6	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:46811703G>A	uc001ndi.1	-	15	1908	c.1798C>T	c.(1798-1800)CTT>TTT	p.L600F	CKAP5_uc009ylg.1_Missense_Mutation_p.L486F|CKAP5_uc001ndj.1_Missense_Mutation_p.L600F	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	600					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						GTAGGGGGAAGAACAGCTGAA	0.393													26	103	---	---	---	---	PASS	A	46811703	A	A	46811703	3	1	76	1	0	0	0	0	1	0	0	0	3445	942	33	2	4420	2	CKAP5	11	46811703	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	24412482	46811703	88194813	266	28927										
NR1H3	10062	broad.mit.edu	37	chr11	47282842	47282842	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agaaactgaagcggcaagagGaggaacaggctcatgccaca	13	9	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:47282842G>C	uc009ylm.2	+	5	771	c.550G>C	c.(550-552)GAG>CAG	p.E184Q	NR1H3_uc009yll.1_Missense_Mutation_p.E190Q|NR1H3_uc010rhk.1_Missense_Mutation_p.E190Q|NR1H3_uc001nek.2_Missense_Mutation_p.E139Q|NR1H3_uc001nej.2_Missense_Mutation_p.E184Q|NR1H3_uc001nel.2_Missense_Mutation_p.E139Q|NR1H3_uc001nen.3_Missense_Mutation_p.E184Q|NR1H3_uc001nem.2_Missense_Mutation_p.E184Q|NR1H3_uc001nep.2_Missense_Mutation_p.E93Q	NM_005693	NP_005684	Q13133	NR1H3_HUMAN	nuclear receptor subfamily 1, group H, member 3	184					apoptotic cell clearance|cellular response to lipopolysaccharide|cholesterol homeostasis|negative regulation of cholesterol storage|negative regulation of inflammatory response|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of macrophage activation|negative regulation of pancreatic juice secretion|negative regulation of pinocytosis|negative regulation of secretion of lysosomal enzymes|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of cholesterol homeostasis|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor biosynthetic process|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of circadian rhythm|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to progesterone stimulus|triglyceride homeostasis	nuclear chromatin|nucleoplasm	cholesterol binding|steroid hormone receptor activity|sterol response element binding|transcription coactivator activity|zinc ion binding			ovary(2)|lung(1)	3						GCGGCAAGAGGAGGAACAGGC	0.577													6	103	---	---	---	---	PASS	C	47282842	C	C	47282842	3	2	76	1	0	0	0	0	1	0	0	0	10618	1175	41	2	564	2	NR1H3	11	47282842	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	471139	47282842	87723674	267	28928										
PSMC3	5702	broad.mit.edu	37	chr11	47446672	47446672	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccctccacatacacacacacCtcgatgacgttggagacaag	7	15	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:47446672C>A	uc001nfh.2	-	3	479	c.285G>T	c.(283-285)GAG>GAT	p.E95D	PSMC3_uc009ylr.1_Intron	NM_002804	NP_002795	P17980	PRS6A_HUMAN	proteasome 26S ATPase subunit 3	95					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|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|nucleoside-triphosphatase activity|protein binding|transcription coactivator activity|transcription corepressor activity			ovary(4)	4				Lung(87;0.0932)|BRCA - Breast invasive adenocarcinoma(625;0.13)		ACACACACACCTCGATGACGT	0.532													34	140	---	---	---	---	PASS	A	47446672	A	A	47446672	3	1	76	1	0	0	0	0	1	0	0	0	12687	695	24	3	1074	3	PSMC3	11	47446672	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	163830	47446672	87559844	268	28929										
CELF1	10658	broad.mit.edu	37	chr11	47510421	47510421	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcgggttttggctcctatccCttaggacgttgatttcatac	10	10	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:47510421C>G	uc001nfl.2	-	1	156	c.146G>C	c.(145-147)AGG>ACG	p.R49T	CELF1_uc001nfm.2_Missense_Mutation_p.R49T|CELF1_uc001nfn.2_Missense_Mutation_p.R49T|CELF1_uc001nfo.1_Missense_Mutation_p.R76T|CELF1_uc010rhm.1_Missense_Mutation_p.R49T|CELF1_uc001nfp.2_Missense_Mutation_p.R76T|CELF1_uc001nfq.1_Missense_Mutation_p.R49T|CELF1_uc001nfr.1_Missense_Mutation_p.R49T	NM_001025596	NP_001020767	Q92879	CELF1_HUMAN	CUG triplet repeat, RNA-binding protein 1	49	RRM 1.				embryo development|mRNA splice site selection|regulation of RNA splicing|RNA interference	cytoplasm|nucleus|ribonucleoprotein complex	BRE binding|mRNA binding|nucleotide binding|translation repressor activity, nucleic acid binding			central_nervous_system(2)|ovary(1)	3						GCTCCTATCCCTTAGGACGTT	0.483													44	294	---	---	---	---	PASS	G	47510421	G	G	47510421	3	3	76	1	0	0	0	0	1	0	0	0	3215	681	24	4	1365	4	CELF1	11	47510421	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	63749	47510421	87496095	269	28930										
OR5D18	219438	broad.mit.edu	37	chr11	55587932	55587932	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcacacagtcaaagtggcctCtgtgttttacaccgtggtga	11	10	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:55587932C>G	uc010rin.1	+	1	827	c.827C>G	c.(826-828)TCT>TGT	p.S276C		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	276	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				AAAGTGGCCTCTGTGTTTTAC	0.493													34	111	---	---	---	---	PASS	G	55587932	G	G	55587932	3	3	76	1	0	0	0	0	1	0	0	0	11157	913	32	2	829	2	OR5D18	11	55587932	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	8077511	55587932	79418584	270	28931										
OR5I1	10798	broad.mit.edu	37	chr11	55703748	55703748	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aacagcatcaatccaatgttCcctatcagaattatagcata	4	10	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:55703748C>T	uc010ris.1	-	1	129	c.129G>A	c.(127-129)GGG>GGA	p.G43G		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ATCCAATGTTCCCTATCAGAA	0.393													21	89	---	---	---	---	PASS	T	55703748	T	T	55703748	2	4	76	1	0	0	0	0	0	0	0	1	11164	842	30	2		2	OR5I1	11	55703748	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	115816	55703748	79302768	271	28932										
OR8K5	219453	broad.mit.edu	37	chr11	55927259	55927259	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tagcaaaggaacatcatcacAgtaaaaatgactgatgacat	7	7	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:55927259A>T	uc010rja.1	-	1	535	c.535T>A	c.(535-537)TGT>AGT	p.C179S		NM_001004058	NP_001004058	Q8NH50	OR8K5_HUMAN	olfactory receptor, family 8, subfamily K,	179	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(21;0.00693)	Lung NSC(402;0.197)|all_epithelial(135;0.236)				ACATCATCACAGTAAAAATGA	0.358													21	102	---	---	---	---	PASS	T	55927259	T	T	55927259	3	4	76	1	0	0	0	0	1	0	0	0	11245	188	7	5	391	5	OR8K5	11	55927259	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	223511	55927259	79079257	272	28933										
HRASLS5	117245	broad.mit.edu	37	chr11	63257743	63257743	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gatgcttctgccctgttctaAtgtgcccggcggaggctgct	13	12	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:63257743A>G	uc001nwy.2	-	2	415	c.241T>C	c.(241-243)TTA>CTA	p.L81L	HRASLS5_uc001nwz.2_Silent_p.L71L|HRASLS5_uc010rmq.1_Silent_p.L81L|HRASLS5_uc009yos.2_RNA	NM_054108	NP_473449	Q96KN8	HRSL5_HUMAN	HRAS-like suppressor family, member 5 isoform 1	81										ovary(1)	1						CCCTGTTCTAATGTGCCCGGC	0.493													172	665	---	---	---	---	PASS	G	63257743	G	G	63257743	2	3	76	1	0	0	0	0	0	0	0	1	7351	98	4	5		5	HRASLS5	11	63257743	Silent	SNP	A	TCGA-37-3783-01A-01D-1267-08	7330484	63257743	71748773	273	28934										
MACROD1	28992	broad.mit.edu	37	chr11	63919774	63919774	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cagggcctacctttcgccatCtccttccatgtcgggatctt	8	15	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:63919774C>G	uc001nyh.2	-	2	509	c.390G>C	c.(388-390)GAG>GAC	p.E130D		NM_014067	NP_054786	Q9BQ69	MACD1_HUMAN	MACRO domain containing 1	130											0						CTTTCGCCATCTCCTTCCATG	0.577													51	310	---	---	---	---	PASS	G	63919774	G	G	63919774	3	3	76	1	0	0	0	0	1	0	0	0	9145	912	32	2	623	2	MACROD1	11	63919774	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	662031	63919774	71086742	274	28935										
SF1	7536	broad.mit.edu	37	chr11	64533522	64533522	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcaggggcaccatagtggggTtgccttgcatctgaggggct	17	9	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:64533522T>C	uc001obb.1	-	13	2065	c.1688A>G	c.(1687-1689)AAC>AGC	p.N563S	SF1_uc010rnm.1_Intron|SF1_uc010rnn.1_Missense_Mutation_p.N537S|SF1_uc001oaz.1_Intron|SF1_uc001oba.1_Missense_Mutation_p.N563S|SF1_uc001obc.1_Intron|SF1_uc001obd.1_Intron|SF1_uc001obe.1_Intron|SF1_uc010rno.1_Intron	NM_004630	NP_004621	Q15637	SF01_HUMAN	splicing factor 1 isoform 1	563	Pro-rich.				nuclear mRNA 3'-splice site recognition|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ribosome|spliceosomal complex	protein binding|RNA binding|transcription corepressor activity|zinc ion binding			ovary(1)|breast(1)|skin(1)	3						CATAGTGGGGTTGCCTTGCAT	0.716													3	66	---	---	---	---	PASS	C	64533522	C	C	64533522	3	2	76	1	0	0	0	0	1	0	0	0	14145	1725	60	5	369	5	SF1	11	64533522	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	613748	64533522	70472994	275	28936										
TIGD3	220359	broad.mit.edu	37	chr11	65124249	65124249	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctgccatccaaagcgagaggGatggcacctcgctggccgag	14	13	0	1	rs150239664		TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:65124249G>A	uc001odo.3	+	2	1133	c.970G>A	c.(970-972)GAT>AAT	p.D324N		NM_145719	NP_663771	Q6B0B8	TIGD3_HUMAN	tigger transposable element derived 3	324	DDE.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						AAGCGAGAGGGATGGCACCTC	0.662													15	64	---	---	---	---	PASS	A	65124249	A	A	65124249	3	1	76	1	0	0	0	0	1	0	0	0	15894	1174	41	2	972	2	TIGD3	11	65124249	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	590727	65124249	69882267	276	28937										
PCNXL3	399909	broad.mit.edu	37	chr11	65385808	65385808	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aactccacccatctggacagCcccccaggggggccagcccc	10	20	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:65385808C>T	uc001oey.2	+	6	975	c.975C>T	c.(973-975)AGC>AGT	p.S325S		NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	325						integral to membrane					0						ATCTGGACAGCCCCCCAGGGG	0.647													26	99	---	---	---	---	PASS	T	65385808	T	T	65385808	2	4	76	1	0	0	0	0	0	0	0	1	11593	738	26	3		3	PCNXL3	11	65385808	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	261559	65385808	69620708	277	28938										
PCNXL3	399909	broad.mit.edu	37	chr11	65403086	65403086	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cgcaaccccgagcgtggcagCatccagaacgccaagcaggc	12	16	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:65403086C>T	uc001oey.2	+	32	5271	c.5271C>T	c.(5269-5271)AGC>AGT	p.S1757S	PCNXL3_uc001oez.2_Silent_p.S644S	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1757						integral to membrane					0						AGCGTGGCAGCATCCAGAACG	0.662													17	55	---	---	---	---	PASS	T	65403086	T	T	65403086	2	4	76	1	0	0	0	0	0	0	0	1	11593	709	25	3		3	PCNXL3	11	65403086	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	17278	65403086	69603430	278	28939										
ACTN3	89	broad.mit.edu	37	chr11	66328210	66328210	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cctcagcccgcaggacatcaAcaccaagtgggatatggtca	10	13	3	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:66328210A>G	uc001oio.1	+	16	1862	c.1844A>G	c.(1843-1845)AAC>AGC	p.N615S	ACTN3_uc010rpi.1_RNA	NM_001104	NP_001095	Q08043	ACTN3_HUMAN	actinin, alpha 3	615	Spectrin 3.				focal adhesion assembly|muscle filament sliding|regulation of apoptosis	actin filament|cytosol|focal adhesion|pseudopodium	actin binding|calcium ion binding|integrin binding|protein homodimerization activity|structural constituent of muscle				0						CAGGACATCAACACCAAGTGG	0.582													56	248	---	---	---	---	PASS	G	66328210	G	G	66328210	3	3	76	1	0	0	0	0	1	0	0	0	206	43	2	5	1902	5	ACTN3	11	66328210	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	925124	66328210	68678306	279	28940										
CORO1B	57175	broad.mit.edu	37	chr11	67207901	67207901	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctgcagggccatgggttcctCgaggttttcctggcacattg	13	11	0	0	rs149251927		TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:67207901C>G	uc001olj.1	-	6	802	c.766G>C	c.(766-768)GAG>CAG	p.E256Q	PTPRCAP_uc001oli.1_5'Flank|CORO1B_uc009yrs.1_RNA|CORO1B_uc001olk.1_Missense_Mutation_p.E256Q|CORO1B_uc009yrt.1_RNA|CORO1B_uc009yru.1_RNA|CORO1B_uc001oll.1_Missense_Mutation_p.E256Q	NM_020441	NP_065174	Q9BR76	COR1B_HUMAN	coronin, actin binding protein, 1B	256	WD 4.				actin cytoskeleton organization	actin cytoskeleton|cytoplasm	actin filament binding			large_intestine(1)|ovary(1)	2			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			ATGGGTTCCTCGAGGTTTTCC	0.622													23	102	---	---	---	---	PASS	G	67207901	G	G	67207901	3	3	76	1	0	0	0	0	1	0	0	0	3754	893	31	2	723	2	CORO1B	11	67207901	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	879691	67207901	67798615	280	28941										
ANO1	55107	broad.mit.edu	37	chr11	70009404	70009404	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttcaggtttgttggacgcccGggcgactacgtgtacatttt	12	9	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:70009404G>A	uc001opj.2	+	19	2213	c.1908G>A	c.(1906-1908)CCG>CCA	p.P636P	ANO1_uc001opk.1_Silent_p.P578P|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Silent_p.P345P	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	636	Extracellular (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						TTGGACGCCCGGGCGACTACG	0.532													5	68	---	---	---	---	PASS	A	70009404	A	A	70009404	2	1	76	1	0	0	0	0	0	0	0	1	695	1103	39	1		1	ANO1	11	70009404	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	2801503	70009404	64997112	281	28942										
NUMA1	4926	broad.mit.edu	37	chr11	71724415	71724415	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agctcctcacggtggcgtttCtcggcagcggcctgctcggc	14	15	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:71724415C>T	uc001orl.1	-	15	4306	c.4134G>A	c.(4132-4134)GAG>GAA	p.E1378E	NUMA1_uc009ysw.1_Silent_p.E941E|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Silent_p.E1378E|NUMA1_uc001orn.2_Silent_p.E941E|NUMA1_uc009ysx.1_Silent_p.E1378E|NUMA1_uc001oro.1_Silent_p.E1378E	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1378	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						GGTGGCGTTTCTCGGCAGCGG	0.687			T	RARA	APL								11	36	---	---	---	---	PASS	T	71724415	T	T	71724415	2	4	76	1	0	0	0	0	0	0	0	1	10750	912	32	2		2	NUMA1	11	71724415	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	1715011	71724415	63282101	282	28943										
SLCO2B1	11309	broad.mit.edu	37	chr11	74913991	74913991	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttggctgtgggcatccagttCatgttcctgaggattttggg	14	7	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:74913991C>T	uc001owb.2	+	12	2196	c.1809C>T	c.(1807-1809)TTC>TTT	p.F603F	SLCO2B1_uc010rrq.1_Silent_p.F348F|SLCO2B1_uc010rrr.1_Silent_p.F459F|SLCO2B1_uc010rrs.1_Silent_p.F487F|SLCO2B1_uc001owc.2_Silent_p.F376F|SLCO2B1_uc001owd.2_Silent_p.F581F	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	603	Helical; Name=11; (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	GCATCCAGTTCATGTTCCTGA	0.428													53	229	---	---	---	---	PASS	T	74913991	T	T	74913991	2	4	76	1	0	0	0	0	0	0	0	1	14727	825	29	2		2	SLCO2B1	11	74913991	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	3189576	74913991	60092525	283	28944										
MOGAT2	80168	broad.mit.edu	37	chr11	75438510	75438510	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctgctgagctggacccctctCggaactacattgcgggcttc	11	14	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:75438510C>A	uc010rru.1	+	3	301	c.301C>A	c.(301-303)CGG>AGG	p.R101R	MOGAT2_uc001oww.1_Silent_p.R101R|MOGAT2_uc010rrv.1_Silent_p.R19R	NM_025098	NP_079374	Q3SYC2	MOGT2_HUMAN	monoacylglycerol O-acyltransferase 2	101					glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			ovary(2)	2	Ovarian(111;0.103)					GGACCCCTCTCGGAACTACAT	0.463													19	108	---	---	---	---	PASS	A	75438510	A	A	75438510	2	1	76	1	0	0	0	0	0	0	0	1	9695	875	31	2		2	MOGAT2	11	75438510	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	524519	75438510	59568006	284	28945										
UVRAG	7405	broad.mit.edu	37	chr11	75852449	75852449	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gccggccgcgcaggagttccGataagtgaagtgagcaggtc	16	10	0	2	rs147254159		TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:75852449G>A	uc001oxc.2	+	15	2333	c.2092G>A	c.(2092-2094)GAT>AAT	p.D698N	UVRAG_uc010rrw.1_Missense_Mutation_p.D597N|UVRAG_uc001oxd.2_Missense_Mutation_p.D326N|UVRAG_uc010rrx.1_Missense_Mutation_p.D326N|UVRAG_uc010rry.1_Missense_Mutation_p.D254N	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	698					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						CAGGAGTTCCGATAAGTGAAG	0.478													13	65	---	---	---	---	PASS	A	75852449	A	A	75852449	3	1	76	1	0	0	0	0	1	0	0	0	17105	1058	37	2	2150	2	UVRAG	11	75852449	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	413939	75852449	59154067	285	28946										
TRIM49	57093	broad.mit.edu	37	chr11	89537478	89537478	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctcggttgactttgtgcattCagagcactggacaagaaatg	11	8	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:89537478C>T	uc001pdb.2	-	3	489	c.160G>A	c.(160-162)GAA>AAA	p.E54K		NM_020358	NP_065091	P0CI25	TRI49_HUMAN	ring finger protein 18	54	RING-type.					intracellular	zinc ion binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				TTTGTGCATTCAGAGCACTGG	0.463													23	161	---	---	---	---	PASS	T	89537478	T	T	89537478	3	4	76	1	0	0	0	0	1	0	0	0	16521	835	29	2	1222	2	TRIM49	11	89537478	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	13685029	89537478	45469038	286	28947										
PANX1	24145	broad.mit.edu	37	chr11	93862491	93862491	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccgcagccatggccatcgctCaactggccacggagtacgtg	12	15	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:93862491C>T	uc001per.2	+	1	398	c.13C>T	c.(13-15)CAA>TAA	p.Q5*	uc001pen.1_Intron|PANX1_uc001peq.2_Nonsense_Mutation_p.Q5*	NM_015368	NP_056183	Q96RD7	PANX1_HUMAN	pannexin 1	5	Cytoplasmic (Potential).				positive regulation of interleukin-1 beta secretion|protein hexamerization|synaptic transmission	bleb|endoplasmic reticulum membrane|gap junction|integral to membrane	calcium channel activity|gap junction hemi-channel activity|leak channel activity|receptor binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GGCCATCGCTCAACTGGCCAC	0.662													21	57	---	---	---	---	PASS	T	93862491	T	T	93862491	4	4	76	1	0	0	0	0	0	1	0	0	11420	827	29	2	15	2	PANX1	11	93862491	Nonsense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	4325013	93862491	41144025	287	28948										
MRE11A	4361	broad.mit.edu	37	chr11	94180422	94180422	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cctcctctcgatgctgaattCtgccctcttccacctcttcg	5	18	4	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:94180422C>T	uc001peu.2	-	15	1935	c.1746G>A	c.(1744-1746)CAG>CAA	p.Q582Q	MRE11A_uc001pev.2_Silent_p.Q582Q|MRE11A_uc009ywj.2_Silent_p.Q585Q	NM_005591	NP_005582	P49959	MRE11_HUMAN	meiotic recombination 11 homolog A isoform 1	582					DNA duplex unwinding|double-strand break repair via homologous recombination|double-strand break repair via nonhomologous end joining|negative regulation of DNA endoreduplication|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|sister chromatid cohesion|telomere maintenance via telomerase	Mre11 complex|nucleoplasm	3'-5' exonuclease activity|double-stranded DNA binding|manganese ion binding|protein C-terminus binding|single-stranded DNA specific endodeoxyribonuclease activity			breast(4)|lung(1)	5		Acute lymphoblastic leukemia(157;2.37e-05)|all_hematologic(158;0.00824)				ATGCTGAATTCTGCCCTCTTC	0.478								Homologous_recombination	Ataxia-Telangiectasia-Like_Disorder				22	426	---	---	---	---	PASS	T	94180422	T	T	94180422	2	4	76	1	0	0	0	0	0	0	0	1	9759	912	32	2		2	MRE11A	11	94180422	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	317931	94180422	40826094	288	28949										
CCDC82	79780	broad.mit.edu	37	chr11	96117808	96117808	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	catcactatcaagtaattgtGagatactacttcttttagtt	5	7	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:96117808G>C	uc009ywp.2	-	1	347	c.104C>G	c.(103-105)TCA>TGA	p.S35*	CCDC82_uc009ywq.2_Nonsense_Mutation_p.S35*|CCDC82_uc001pfx.3_Nonsense_Mutation_p.S35*|CCDC82_uc009ywr.2_Nonsense_Mutation_p.S35*|CCDC82_uc009yws.2_Nonsense_Mutation_p.S35*	NM_024725	NP_079001	Q8N4S0	CCD82_HUMAN	coiled-coil domain containing 82	35							protein binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.154)		AAGTAATTGTGAGATACTACT	0.358													13	61	---	---	---	---	PASS	C	96117808	C	C	96117808	4	2	76	1	0	0	0	0	0	1	0	0	2856	1294	45	2	1558	2	CCDC82	11	96117808	Nonsense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1937386	96117808	38888708	289	28950										
DYNC2H1	79659	broad.mit.edu	37	chr11	102993708	102993708	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggatattcaatcaggtttatCtgattccagatctggtttgt	9	6	4	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:102993708C>T	uc001pho.2	+	11	1784	c.1640C>T	c.(1639-1641)TCT>TTT	p.S547F	DYNC2H1_uc001phn.1_Missense_Mutation_p.S547F|DYNC2H1_uc009yxe.1_Missense_Mutation_p.S547F	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	547	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TCAGGTTTATCTGATTCCAGA	0.333													4	16	---	---	---	---	PASS	T	102993708	T	T	102993708	3	4	76	1	0	0	0	0	1	0	0	0	4846	913	32	2	1682	2	DYNC2H1	11	102993708	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	6875900	102993708	32012808	290	28951										
GRIA4	2893	broad.mit.edu	37	chr11	105623869	105623869	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgtgctgcaactaagaccttCgttacgaggagcactcttga	10	10	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:105623869C>A	uc001pix.2	+	4	856	c.410C>A	c.(409-411)TCG>TAG	p.S137*	GRIA4_uc001piu.1_Nonsense_Mutation_p.S137*|GRIA4_uc001piw.2_Nonsense_Mutation_p.S137*|GRIA4_uc001piv.2_Nonsense_Mutation_p.S137*|GRIA4_uc009yxk.1_Nonsense_Mutation_p.S137*	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	137	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	CTAAGACCTTCGTTACGAGGA	0.473													29	107	---	---	---	---	PASS	A	105623869	A	A	105623869	4	1	76	1	0	0	0	0	0	1	0	0	6770	893	31	2	420	2	GRIA4	11	105623869	Nonsense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2630161	105623869	29382647	291	28952										
KIAA1826	84437	broad.mit.edu	37	chr11	105881453	105881453	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cttttcacctctgtccctgtCctctgttctccttctcctac	3	18	5	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:105881453C>G	uc001piy.2	-	2	365	c.192G>C	c.(190-192)AGG>AGC	p.R64S	KIAA1826_uc001piz.2_Missense_Mutation_p.R64S	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	64						nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		CTGTCCCTGTCCTCTGTTCTC	0.453													10	502	---	---	---	---	PASS	G	105881453	G	G	105881453	3	3	76	1	0	0	0	0	1	0	0	0	8260	854	30	2	853	2	KIAA1826	11	105881453	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	257584	105881453	29125063	292	28953										
CWF19L2	143884	broad.mit.edu	37	chr11	107288944	107288944	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttccccatcatctctgctttGataatcttggctcccaactt	4	14	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:107288944G>C	uc010rvp.1	-	9	1533	c.1503C>G	c.(1501-1503)ATC>ATG	p.I501M	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	501							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		TCTCTGCTTTGATAATCTTGG	0.363													17	78	---	---	---	---	PASS	C	107288944	C	C	107288944	3	2	76	1	0	0	0	0	1	0	0	0	4072	1280	45	2	1221	2	CWF19L2	11	107288944	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1407491	107288944	27717572	293	28954										
DIXDC1	85458	broad.mit.edu	37	chr11	111864426	111864426	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gagagctagaacacaaagatGtcctcttggctcactgtatg	10	9	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:111864426G>T	uc001pml.2	+	15	1696	c.1399G>T	c.(1399-1401)GTC>TTC	p.V467F	DIXDC1_uc001pmm.2_Missense_Mutation_p.V256F|DIXDC1_uc001pmn.2_Missense_Mutation_p.V173F|DIXDC1_uc010rwq.1_Missense_Mutation_p.V132F	NM_001037954	NP_001033043	Q155Q3	DIXC1_HUMAN	DIX domain containing 1 isoform a	467					multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytosol|focal adhesion	actin binding|gamma-tubulin binding|signal transducer activity			ovary(1)	1		all_cancers(61;7.58e-15)|all_epithelial(67;5.42e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;2.99e-07)|BRCA - Breast invasive adenocarcinoma(274;6.72e-07)|all cancers(92;6.25e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0548)		ACACAAAGATGTCCTCTTGGC	0.463													11	59	---	---	---	---	PASS	T	111864426	T	T	111864426	3	4	76	1	0	0	0	0	1	0	0	0	4541	1377	48	3	1479	3	DIXDC1	11	111864426	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	4575482	111864426	23142090	294	28955										
ZBTB16	7704	broad.mit.edu	37	chr11	114121138	114121138	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gagaacgcacaacggcgcctCgccctaccagtgcaccatct	9	17	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:114121138C>T	uc001pop.2	+	7	2147	c.1883C>T	c.(1882-1884)TCG>TTG	p.S628L	ZBTB16_uc001poq.2_Missense_Mutation_p.S628L	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	628					apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		AACGGCGCCTCGCCCTACCAG	0.627													28	140	---	---	---	---	PASS	T	114121138	T	T	114121138	3	4	76	1	0	0	0	0	1	0	0	0	17523	893	31	2	1905	2	ZBTB16	11	114121138	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2256712	114121138	20885378	295	28956										
BUD13	84811	broad.mit.edu	37	chr11	116633715	116633715	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttgggggagaaggatctggaGaatcatgacgggccctcctt	15	8	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:116633715G>A	uc001ppn.2	-	4	624	c.590C>T	c.(589-591)TCT>TTT	p.S197F	BUD13_uc001ppo.2_Missense_Mutation_p.S197F|BUD13_uc009yzc.2_Missense_Mutation_p.S197F	NM_032725	NP_116114	Q9BRD0	BUD13_HUMAN	BUD13 homolog isoform 1	197	Arg-rich.									large_intestine(1)|pancreas(1)	2	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.81e-06)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.154)		AGGATCTGGAGAATCATGACG	0.567													39	253	---	---	---	---	PASS	A	116633715	A	A	116633715	3	1	76	1	0	0	0	0	1	0	0	0	1573	942	33	2	1297	2	BUD13	11	116633715	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	2512577	116633715	18372801	296	28957										
TMPRSS4	56649	broad.mit.edu	37	chr11	117969767	117969767	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aaggtggggatccccatcatCatagcactactgagcctggc	11	12	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:117969767C>T	uc010rxo.1	+	3	402	c.111C>T	c.(109-111)ATC>ATT	p.I37I	TMPRSS4_uc010rxp.1_Silent_p.I37I|TMPRSS4_uc010rxq.1_Intron|TMPRSS4_uc010rxr.1_Silent_p.I12I|TMPRSS4_uc010rxs.1_Intron|TMPRSS4_uc009yzu.2_RNA|TMPRSS4_uc010rxt.1_Silent_p.I12I	NM_019894	NP_063947	Q9NRS4	TMPS4_HUMAN	transmembrane protease, serine 4 isoform 1	37	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0431)|all_hematologic(192;0.164)|Breast(348;0.183)|all_neural(223;0.238)		BRCA - Breast invasive adenocarcinoma(274;4.16e-05)|Epithelial(105;0.00204)		TCCCCATCATCATAGCACTAC	0.527													36	134	---	---	---	---	PASS	T	117969767	T	T	117969767	2	4	76	1	0	0	0	0	0	0	0	1	16246	816	29	2		2	TMPRSS4	11	117969767	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	1336052	117969767	17036749	297	28958										
MLL	4297	broad.mit.edu	37	chr11	118374740	118374740	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttatttcgggaggaggaacaGtgtgatcttccaaaaatctc	10	7	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:118374740G>A	uc001pta.2	+	27	8147	c.8124G>A	c.(8122-8124)CAG>CAA	p.Q2708Q	MLL_uc001ptb.2_Silent_p.Q2711Q	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2708					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		AGGAGGAACAGTGTGATCTTC	0.428			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								21	83	---	---	---	---	PASS	A	118374740	A	A	118374740	2	1	76	1	0	0	0	0	0	0	0	1	9620	1020	36	3		3	MLL	11	118374740	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	404973	118374740	16631776	298	28959										
OR8D2	283160	broad.mit.edu	37	chr11	124189230	124189230	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttgttcctcaggctatagatTagaggattcagcatggggat	12	6	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr11:124189230T>A	uc010sah.1	-	1	864	c.864A>T	c.(862-864)CTA>CTT	p.L288L		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	288	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0525)		GGCTATAGATTAGAGGATTCA	0.433													51	242	---	---	---	---	PASS	A	124189230	A	A	124189230	2	1	76	1	0	0	0	0	0	0	0	1	11232	1741	61	5		5	OR8D2	11	124189230	Silent	SNP	T	TCGA-37-3783-01A-01D-1267-08	5814490	124189230	10817286	299	28960										
KCNA6	3742	broad.mit.edu	37	chr12	4920413	4920413	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttcgcagaggctgacgatgaCgattcgctttttcccagcat	10	11	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:4920413C>T	uc001qng.2	+	1	2072	c.1206C>T	c.(1204-1206)GAC>GAT	p.D402D		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	402						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						CTGACGATGACGATTCGCTTT	0.572										HNSCC(72;0.22)			25	218	---	---	---	---	PASS	T	4920413	T	T	4920413	2	4	76	1	0	0	0	0	0	0	0	1	8007	535	19	1		1	KCNA6	12	4920413	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08		4920413	128931482	300	28961										
ACSM4	341392	broad.mit.edu	37	chr12	7469835	7469835	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tttcctaaaatggcccagcaCtctcagagcagcctcggcat	8	14	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:7469835C>T	uc001qsx.1	+	4	723	c.723C>T	c.(721-723)CAC>CAT	p.H241H		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	241					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						TGGCCCAGCACTCTCAGAGCA	0.428													5	15	---	---	---	---	PASS	T	7469835	T	T	7469835	2	4	76	1	0	0	0	0	0	0	0	1	186	564	20	3		3	ACSM4	12	7469835	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	2549422	7469835	126382060	301	28962										
PZP	5858	broad.mit.edu	37	chr12	9318783	9318783	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaggaacatatggtctctctActactcctagacctgctaaa	7	11	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:9318783A>T	uc001qvl.2	-	18	2152	c.2123T>A	c.(2122-2124)GTA>GAA	p.V708E	PZP_uc009zgl.2_Missense_Mutation_p.V577E|PZP_uc010sgo.1_RNA|PZP_uc009zgm.1_Missense_Mutation_p.V40E	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						TGGTCTCTCTACTACTCCTAG	0.368													13	81	---	---	---	---	PASS	T	9318783	T	T	9318783	3	4	76	1	0	0	0	0	1	0	0	0	12869	391	14	5	2401	5	PZP	12	9318783	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	1848948	9318783	124533112	302	28963										
MANSC1	54682	broad.mit.edu	37	chr12	12483226	12483226	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tagtggaagactccacatttGacatagaaagtgcagtaggg	12	6	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:12483226G>C	uc001rai.1	-	4	1289	c.1031C>G	c.(1030-1032)TCA>TGA	p.S344*	MANSC1_uc010shm.1_Nonsense_Mutation_p.S278*|MANSC1_uc001raj.1_Nonsense_Mutation_p.S310*|MANSC1_uc009zht.1_Nonsense_Mutation_p.S263*	NM_018050	NP_060520	Q9H8J5	MANS1_HUMAN	MANSC domain containing 1 precursor	344	Extracellular (Potential).					integral to membrane					0		Prostate(47;0.0865)		BRCA - Breast invasive adenocarcinoma(232;0.185)		CTCCACATTTGACATAGAAAG	0.463													26	215	---	---	---	---	PASS	C	12483226	C	C	12483226	4	2	76	1	0	0	0	0	0	1	0	0	9224	1294	45	2	268	2	MANSC1	12	12483226	Nonsense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	3164443	12483226	121368669	303	28964										
STRAP	11171	broad.mit.edu	37	chr12	16043599	16043599	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tatgacttgaacaaacctgaAgcaggtaagcataatttaaa	7	6	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:16043599A>C	uc001rdc.3	+	4	753	c.399A>C	c.(397-399)GAA>GAC	p.E133D	STRAP_uc010shw.1_Missense_Mutation_p.E146D|STRAP_uc001rdd.3_Missense_Mutation_p.E39D	NM_007178	NP_009109	Q9Y3F4	STRAP_HUMAN	serine/threonine kinase receptor associated	133	WD 3.				mRNA processing|RNA splicing	cell junction|mitochondrion|spliceosomal complex	identical protein binding			skin(1)	1		Hepatocellular(102;0.121)				ACAAACCTGAAGCAGGTAAGC	0.289													14	76	---	---	---	---	PASS	C	16043599	C	C	16043599	3	2	76	1	0	0	0	0	1	0	0	0	15325	69	3	5	413	5	STRAP	12	16043599	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	3560373	16043599	117808296	304	28965										
KCNJ8	3764	broad.mit.edu	37	chr12	21926476	21926476	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gggaggcggtctcggatgcgCggcttgcgcaggttctctgc	18	11	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:21926476C>G	uc001rff.2	-	2	413	c.75G>C	c.(73-75)CCG>CCC	p.P25P		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	25	Cytoplasmic (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	CTCGGATGCGCGGCTTGCGCA	0.607											OREG0021704	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	160	---	---	---	---	PASS	G	21926476	G	G	21926476	2	3	76	1	0	0	0	0	0	0	0	1	8056	755	27	4		4	KCNJ8	12	21926476	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	5882877	21926476	111925419	305	28966										
ITPR2	3709	broad.mit.edu	37	chr12	26839460	26839460	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aagagttgtggcatctagttCaaaaagggatgcaatgtcat	11	5	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:26839460C>T	uc001rhg.2	-	11	1519	c.1102G>A	c.(1102-1104)GAA>AAA	p.E368K		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	368	Cytoplasmic (Potential).|MIR 4.				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)					GCATCTAGTTCAAAAAGGGAT	0.413													32	171	---	---	---	---	PASS	T	26839460	T	T	26839460	3	4	76	1	0	0	0	0	1	0	0	0	7921	835	29	2	7191	2	ITPR2	12	26839460	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	4912984	26839460	107012435	306	28967										
DENND5B	160518	broad.mit.edu	37	chr12	31540554	31540554	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gggttacacatccactccttTgatgagtgatccttctagga	9	10	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:31540554T>C	uc001rki.1	-	21	3994	c.3808A>G	c.(3808-3810)AAA>GAA	p.K1270E	DENND5B_uc001rkh.1_Missense_Mutation_p.K1305E|DENND5B_uc009zjq.1_Intron	NM_144973	NP_659410	Q6ZUT9	DEN5B_HUMAN	DENN/MADD domain containing 5B	1270						integral to membrane				ovary(1)|central_nervous_system(1)	2						TCCACTCCTTTGATGAGTGAT	0.502													8	62	---	---	---	---	PASS	C	31540554	C	C	31540554	3	2	76	1	0	0	0	0	1	0	0	0	4437	1821	63	5	20	5	DENND5B	12	31540554	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	4701094	31540554	102311341	307	28968										
CNTN1	1272	broad.mit.edu	37	chr12	41327501	41327501	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgtatcttctatttaaagtcCtgttccggatatccgatggc	8	9	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:41327501C>T	uc001rmm.1	+	9	919	c.806C>T	c.(805-807)CCT>CTT	p.P269L	CNTN1_uc009zjy.1_Missense_Mutation_p.P269L|CNTN1_uc001rmn.1_Missense_Mutation_p.P258L|CNTN1_uc001rmo.2_Missense_Mutation_p.P269L	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	269	Ig-like C2-type 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				ATTTAAAGTCCTGTTCCGGAT	0.363													13	112	---	---	---	---	PASS	T	41327501	T	T	41327501	3	4	76	1	0	0	0	0	1	0	0	0	3640	681	24	3	836	3	CNTN1	12	41327501	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	9786947	41327501	92524394	308	28969										
CNTN1	1272	broad.mit.edu	37	chr12	41327632	41327632	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcatctatgaatgtgaggctGagaacattagaggaaaggat	13	4	1	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:41327632G>A	uc001rmm.1	+	9	1050	c.937G>A	c.(937-939)GAG>AAG	p.E313K	CNTN1_uc009zjy.1_Missense_Mutation_p.E313K|CNTN1_uc001rmn.1_Missense_Mutation_p.E302K|CNTN1_uc001rmo.2_Missense_Mutation_p.E313K	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	313	Ig-like C2-type 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				ATGTGAGGCTGAGAACATTAG	0.348													13	90	---	---	---	---	PASS	A	41327632	A	A	41327632	3	1	76	1	0	0	0	0	1	0	0	0	3640	1291	45	2	967	2	CNTN1	12	41327632	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	131	41327632	92524263	309	28970										
DBX2	440097	broad.mit.edu	37	chr12	45410159	45410159	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agtgaatttgcttctgggggTggtgcccctgaactctcctg	13	10	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:45410159T>A	uc001rok.1	-	4	1102	c.930A>T	c.(928-930)CCA>CCT	p.P310P		NM_001004329	NP_001004329	Q6ZNG2	DBX2_HUMAN	developing brain homeobox 2	310						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Lung SC(27;0.192)	Lung NSC(34;0.142)		GBM - Glioblastoma multiforme(48;0.0515)		CTTCTGGGGGTGGTGCCCCTG	0.483													24	124	---	---	---	---	PASS	A	45410159	A	A	45410159	2	1	76	1	0	0	0	0	0	0	0	1	4260	1683	59	5		5	DBX2	12	45410159	Silent	SNP	T	TCGA-37-3783-01A-01D-1267-08	4082527	45410159	88441736	310	28971										
EIF4B	1975	broad.mit.edu	37	chr12	53427811	53427811	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	caaaactagaacgacggcctCgggagaggtgtgttgtcttg	14	8	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:53427811C>T	uc001sbh.3	+	9	1407	c.1201C>T	c.(1201-1203)CGG>TGG	p.R401W	EIF4B_uc010snu.1_Missense_Mutation_p.R401W|EIF4B_uc010snv.1_Missense_Mutation_p.R362W|EIF4B_uc001sbi.2_Missense_Mutation_p.R153W	NM_001417	NP_001408	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	401					insulin receptor signaling pathway|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	nucleotide binding|translation initiation factor activity			breast(1)|kidney(1)	2						ACGACGGCCTCGGGAGAGGTG	0.348													3	11	---	---	---	---	PASS	T	53427811	T	T	53427811	3	4	76	1	0	0	0	0	1	0	0	0	5027	875	31	2	1235	2	EIF4B	12	53427811	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	8017652	53427811	80424084	311	28972										
CALCOCO1	57658	broad.mit.edu	37	chr12	54109031	54109031	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctcagtcttgaacacttggtTttgggtcctctcctcctgaa	8	12	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:54109031T>C	uc001sef.2	-	10	1483	c.1339A>G	c.(1339-1341)AAC>GAC	p.N447D	CALCOCO1_uc001see.2_5'Flank|CALCOCO1_uc010som.1_Missense_Mutation_p.N362D|CALCOCO1_uc010son.1_Missense_Mutation_p.N324D|CALCOCO1_uc001seh.2_Missense_Mutation_p.N447D|CALCOCO1_uc009znd.2_Missense_Mutation_p.N447D|CALCOCO1_uc001seg.2_Missense_Mutation_p.N272D|CALCOCO1_uc010soo.1_Missense_Mutation_p.N440D	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	447	Potential.				steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						AACACTTGGTTTTGGGTCCTC	0.537													34	123	---	---	---	---	PASS	C	54109031	C	C	54109031	3	2	76	1	0	0	0	0	1	0	0	0	2577	1841	64	5	760	5	CALCOCO1	12	54109031	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	681220	54109031	79742864	312	28973										
ITGA5	3678	broad.mit.edu	37	chr12	54795380	54795380	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggcactgacccgttcagggtGacctgggcctgagcctccac	13	15	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:54795380G>A	uc001sga.2	-	23	2444	c.2376C>T	c.(2374-2376)GTC>GTT	p.V792V		NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	792	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						CGTTCAGGGTGACCTGGGCCT	0.562													40	227	---	---	---	---	PASS	A	54795380	A	A	54795380	2	1	76	1	0	0	0	0	0	0	0	1	7879	1277	45	2		2	ITGA5	12	54795380	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	686349	54795380	79056515	313	28974										
OR6C6	283365	broad.mit.edu	37	chr12	55688850	55688850	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tacggagaaagaaatacattGgcgtcttgagccggggatcc	13	8	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:55688850G>T	uc010sph.1	-	1	167	c.167C>A	c.(166-168)CCA>CAA	p.P56Q		NM_001005493	NP_001005493	A6NF89	OR6C6_HUMAN	olfactory receptor, family 6, subfamily C,	56	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|skin(1)	2						GAAATACATTGGCGTCTTGAG	0.403													11	73	---	---	---	---	PASS	T	55688850	T	T	55688850	3	4	76	1	0	0	0	0	1	0	0	0	11194	1348	47	3	779	3	OR6C6	12	55688850	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	893470	55688850	78163045	314	28975										
ORMDL2	29095	broad.mit.edu	37	chr12	56214138	56214138	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tactgctgccgaagttgcccCagttccatggggttcgtgtc	12	12	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:56214138C>G	uc001shw.1	+	4	513	c.421C>G	c.(421-423)CAG>GAG	p.Q141E	SARNP_uc009zoa.2_5'Flank|SARNP_uc001shs.3_5'Flank|SARNP_uc001sht.2_5'Flank|DNAJC14_uc001shu.1_Intron|SARNP_uc001shv.3_5'Flank	NM_014182	NP_054901	Q53FV1	ORML2_HUMAN	ORMDL2	141					ceramide metabolic process	endoplasmic reticulum membrane|integral to membrane					0						GAAGTTGCCCCAGTTCCATGG	0.517													55	220	---	---	---	---	PASS	G	56214138	G	G	56214138	3	3	76	1	0	0	0	0	1	0	0	0	11270	595	21	4	431	4	ORMDL2	12	56214138	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	525288	56214138	77637757	315	28976										
LEMD3	23592	broad.mit.edu	37	chr12	65564780	65564780	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtgtccccaacagggagtttCagtgcccactacttgtcgat	10	12	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:65564780C>A	uc001ssl.1	+	1	1410	c.1404C>A	c.(1402-1404)TTC>TTA	p.F468L	LEMD3_uc009zqo.1_Missense_Mutation_p.F468L	NM_014319	NP_055134	Q9Y2U8	MAN1_HUMAN	LEM domain containing 3	468					negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway	integral to nuclear inner membrane|membrane fraction	DNA binding|nucleotide binding|protein binding			central_nervous_system(3)|ovary(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0104)		CAGGGAGTTTCAGTGCCCACT	0.468													30	154	---	---	---	---	PASS	A	65564780	A	A	65564780	3	1	76	1	0	0	0	0	1	0	0	0	8721	825	29	2	1406	2	LEMD3	12	65564780	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	9350642	65564780	68287115	316	28977										
KCNMB4	27345	broad.mit.edu	37	chr12	70824332	70824332	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgcattgcttcctctggcccCtggtgacatttgtggtgggc	13	11	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:70824332C>T	uc001svx.2	+	3	985	c.532C>T	c.(532-534)CTG>TTG	p.L178L	uc001svy.1_5'Flank	NM_014505	NP_055320	Q86W47	KCMB4_HUMAN	calcium-activated potassium channel beta 4	178	Helical; Name=2; (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of neurotransmitter secretion|regulation of vasoconstriction|synaptic transmission	voltage-gated potassium channel complex	calcium-activated potassium channel activity|protein binding				0	Renal(347;0.236)		Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			CCTCTGGCCCCTGGTGACATT	0.512													49	266	---	---	---	---	PASS	T	70824332	T	T	70824332	2	4	76	1	0	0	0	0	0	0	0	1	8077	680	24	3		3	KCNMB4	12	70824332	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	5259552	70824332	63027563	317	28978										
TRHDE	29953	broad.mit.edu	37	chr12	72866928	72866928	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctcactactttgaatttgttGgtacagactacctctatcct	5	11	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:72866928G>T	uc001sxa.2	+	5	1447	c.1417G>T	c.(1417-1419)GGT>TGT	p.G473C		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	473	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TGAATTTGTTGGTACAGACTA	0.423													43	272	---	---	---	---	PASS	T	72866928	T	T	72866928	3	4	76	1	0	0	0	0	1	0	0	0	16476	1348	47	3	1435	3	TRHDE	12	72866928	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	2042596	72866928	60984967	318	28979										
NAV3	89795	broad.mit.edu	37	chr12	78400750	78400750	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agaacagggacaaaaataaaGtttgcactgaaaaaccagtc	8	7	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:78400750G>C	uc001syp.2	+	8	1605	c.1432G>C	c.(1432-1434)GTT>CTT	p.V478L	NAV3_uc001syo.2_Missense_Mutation_p.V478L	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	478						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CAAAAATAAAGTTTGCACTGA	0.408										HNSCC(70;0.22)			21	85	---	---	---	---	PASS	C	78400750	C	C	78400750	3	2	76	1	0	0	0	0	1	0	0	0	10185	1029	36	4	1462	4	NAV3	12	78400750	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	5533822	78400750	55451145	319	28980										
C12orf26	84190	broad.mit.edu	37	chr12	82850552	82850552	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccaaatgttcttcttttctgGattatgtcagacggtctcta	7	9	5	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:82850552G>C	uc001szq.2	+	9	1546	c.1525G>C	c.(1525-1527)GAT>CAT	p.D509H		NM_032230	NP_115606	Q8N6Q8	CL026_HUMAN	hypothetical protein LOC84190	509											0						TTCTTTTCTGGATTATGTCAG	0.303													3	12	---	---	---	---	PASS	C	82850552	C	C	82850552	3	2	76	1	0	0	0	0	1	0	0	0	1679	1174	41	2	1559	2	C12orf26	12	82850552	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	4449802	82850552	51001343	320	28981										
LTA4H	4048	broad.mit.edu	37	chr12	96407023	96407023	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aggcattccaatcaacttgaTtgagaacatcaacctatgaa	6	9	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:96407023T>C	uc001ten.1	-	14	1390	c.1322A>G	c.(1321-1323)AAT>AGT	p.N441S	LTA4H_uc010suy.1_Missense_Mutation_p.N403S|LTA4H_uc010suz.1_Missense_Mutation_p.N403S|LTA4H_uc010sva.1_RNA|LTA4H_uc009ztj.2_RNA	NM_000895	NP_000886	P09960	LKHA4_HUMAN	leukotriene A4 hydrolase	441					hormone biosynthetic process|inflammatory response|leukotriene biosynthetic process|peptide catabolic process|prostanoid metabolic process|proteolysis	cytosol|nucleus	aminopeptidase activity|epoxide hydrolase activity|leukotriene-A4 hydrolase activity|metallopeptidase activity|protein binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(1)	1						ATCAACTTGATTGAGAACATC	0.373													22	94	---	---	---	---	PASS	C	96407023	C	C	96407023	3	2	76	1	0	0	0	0	1	0	0	0	9069	1493	52	5	537	5	LTA4H	12	96407023	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	13556471	96407023	37444872	321	28982										
SLC17A8	246213	broad.mit.edu	37	chr12	100811899	100811899	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaaccctctctggaatggtcTgtcccctcattgtcggtgca	10	13	3	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:100811899T>A	uc010svi.1	+	11	1703	c.1390T>A	c.(1390-1392)TGT>AGT	p.C464S	SLC17A8_uc009ztx.2_Missense_Mutation_p.C414S	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	464	Helical; (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						TGGAATGGTCTGTCCCCTCAT	0.502													42	233	---	---	---	---	PASS	A	100811899	A	A	100811899	3	1	76	1	0	0	0	0	1	0	0	0	14423	1580	55	5	1432	5	SLC17A8	12	100811899	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	4404876	100811899	33039996	322	28983										
ANO4	121601	broad.mit.edu	37	chr12	101491677	101491677	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtatgcaaatgggtattataAtggtgctaaagcagacctgg	12	5	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:101491677A>C	uc010svm.1	+	21	2532	c.1960A>C	c.(1960-1962)ATG>CTG	p.M654L	ANO4_uc001thw.2_Missense_Mutation_p.M619L|ANO4_uc001thx.2_Missense_Mutation_p.M654L|ANO4_uc001thy.2_Missense_Mutation_p.M174L	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	654	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						GGGTATTATAATGgtgctaaa	0.289										HNSCC(74;0.22)			32	237	---	---	---	---	PASS	C	101491677	C	C	101491677	3	2	76	1	0	0	0	0	1	0	0	0	699	101	4	5	1929	5	ANO4	12	101491677	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	679778	101491677	32360218	323	28984										
ANAPC7	51434	broad.mit.edu	37	chr12	110834113	110834113	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaatttccagttgaaggtctCacttttgaagttttacttag	8	6	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:110834113C>A	uc001tqo.2	-	2	349	c.348G>T	c.(346-348)GTG>GTT	p.V116V	ANAPC7_uc001tqp.3_Silent_p.V116V	NM_016238	NP_057322	Q9UJX3	APC7_HUMAN	anaphase-promoting complex subunit 7 isoform a	116					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding				0						TTGAAGGTCTCACTTTTGAAG	0.348													27	134	---	---	---	---	PASS	A	110834113	A	A	110834113	2	1	76	1	0	0	0	0	0	0	0	1	606	813	29	2		2	ANAPC7	12	110834113	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	9342436	110834113	23017782	324	28985										
SDSL	113675	broad.mit.edu	37	chr12	113874664	113874664	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gacaccgaggctgtgagcgcTgtgcagcagctcctgggtga	16	11	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:113874664T>C	uc001tvi.2	+	8	990	c.780T>C	c.(778-780)GCT>GCC	p.A260A	SDSL_uc009zwh.2_Silent_p.A260A	NM_138432	NP_612441	Q96GA7	SDSL_HUMAN	serine dehydratase-like	260					cellular amino acid metabolic process		L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	CTGTGAGCGCTGTGCAGCAGC	0.577													4	37	---	---	---	---	PASS	C	113874664	C	C	113874664	2	2	76	1	0	0	0	0	0	0	0	1	13976	1567	55	5		5	SDSL	12	113874664	Silent	SNP	T	TCGA-37-3783-01A-01D-1267-08	3040551	113874664	19977231	325	28986										
TAOK3	51347	broad.mit.edu	37	chr12	118693275	118693275	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aataaactgctccaaaacttCcatgtccaatttcatgcaaa	3	11	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr12:118693275C>G	uc001twx.2	-	3	393	c.98G>C	c.(97-99)GGA>GCA	p.G33A	TAOK3_uc001twy.3_Missense_Mutation_p.G33A	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	33	ATP (By similarity).|Protein kinase.				MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCCAAAACTTCCATGTCCAAT	0.328													24	148	---	---	---	---	PASS	G	118693275	G	G	118693275	3	3	76	1	0	0	0	0	1	0	0	0	15546	855	30	2	2674	2	TAOK3	12	118693275	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	4818611	118693275	15158620	326	28987										
WASF3	10810	broad.mit.edu	37	chr13	27255321	27255321	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggcctgcaagccaggctgcgGagcatgagtaccggccccca	14	15	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr13:27255321G>A	uc001uqv.2	+	8	1072	c.847G>A	c.(847-849)GAG>AAG	p.E283K	WASF3_uc001uqw.2_Missense_Mutation_p.E280K	NM_006646	NP_006637	Q9UPY6	WASF3_HUMAN	WAS protein family, member 3	283					actin filament polymerization	cytoplasm|cytoskeleton	actin binding			pancreas(1)	1	Colorectal(5;0.000247)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0114)|Epithelial(112;0.046)|OV - Ovarian serous cystadenocarcinoma(117;0.0547)|Lung(94;0.105)|LUSC - Lung squamous cell carcinoma(192;0.155)		CCAGGCTGCGGAGCATGAGTA	0.682													52	163	---	---	---	---	PASS	A	27255321	A	A	27255321	3	1	76	1	0	0	0	0	1	0	0	0	17251	1175	41	2	869	2	WASF3	13	27255321	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08		27255321	87914557	327	28988										
PAN3	255967	broad.mit.edu	37	chr13	28844960	28844960	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atacagcaggtttggcatgtCgagttatggatccaacaaag	11	7	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr13:28844960C>T	uc001urz.2	+	12	1485	c.1477C>T	c.(1477-1479)CGA>TGA	p.R493*	PAN3_uc010tdo.1_Nonsense_Mutation_p.R639*|PAN3_uc001ury.2_Nonsense_Mutation_p.R327*|PAN3_uc001urx.2_Nonsense_Mutation_p.R439*	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	639	Protein kinase.|Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		TTTGGCATGTCGAGTTATGGA	0.398													35	266	---	---	---	---	PASS	T	28844960	T	T	28844960	4	4	76	1	0	0	0	0	0	1	0	0	11415	876	31	2	1965	2	PAN3	13	28844960	Nonsense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1589639	28844960	86324918	328	28989										
MTUS2	23281	broad.mit.edu	37	chr13	29599209	29599209	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agatagcctgcagaccacgcGgagtattcagggaccaagtc	12	11	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr13:29599209G>A	uc001usl.3	+	1	462	c.404G>A	c.(403-405)CGG>CAG	p.R135Q		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	125						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						CAGACCACGCGGAGTATTCAG	0.493													8	141	---	---	---	---	PASS	A	29599209	A	A	29599209	3	1	76	1	0	0	0	0	1	0	0	0	9966	1116	39	1	406	1	MTUS2	13	29599209	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	754249	29599209	85570669	329	28990										
SMAD9	4093	broad.mit.edu	37	chr13	37446942	37446942	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaaagagtcaggataggtggCgttgtgtggcatgagtggct	18	4	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr13:37446942C>T	uc001uvw.2	-	3	866	c.523G>A	c.(523-525)GCC>ACC	p.A175T	SMAD9_uc001uvx.2_Missense_Mutation_p.A175T|SMAD9_uc010tep.1_Missense_Mutation_p.A5T	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	175					BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		GGATAGGTGGCGTTGTGTGGC	0.622													10	80	---	---	---	---	PASS	T	37446942	T	T	37446942	3	4	76	1	0	0	0	0	1	0	0	0	14764	768	27	1	900	1	SMAD9	13	37446942	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	7847733	37446942	77722936	330	28991										
ELF1	1997	broad.mit.edu	37	chr13	41533078	41533078	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcttccacacaggctagaccGgcataactattgagaatatc	7	11	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr13:41533078G>A	uc001uxs.2	-	3	520	c.147C>T	c.(145-147)GCC>GCT	p.A49A	ELF1_uc010tfc.1_Silent_p.A49A|ELF1_uc010acd.2_5'UTR	NM_172373	NP_758961	P32519	ELF1_HUMAN	E74-like factor 1 (ets domain transcription	49					positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung NSC(96;8.3e-05)|Prostate(109;0.0233)|Breast(139;0.0296)|Lung SC(185;0.0367)		all cancers(112;1.87e-08)|Epithelial(112;8.45e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000202)|GBM - Glioblastoma multiforme(144;0.00266)|BRCA - Breast invasive adenocarcinoma(63;0.072)		AGGCTAGACCGGCATAACTAT	0.448													17	163	---	---	---	---	PASS	A	41533078	A	A	41533078	2	1	76	1	0	0	0	0	0	0	0	1	5053	1103	39	1		1	ELF1	13	41533078	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	4086136	41533078	73636800	331	28992										
EPSTI1	94240	broad.mit.edu	37	chr13	43491753	43491753	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gagaatctctgtaagcccagCttctggcctgtaaaggtaca	10	10	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr13:43491753C>G	uc001uyw.1	-	9	774	c.698G>C	c.(697-699)AGC>ACC	p.S233T	EPSTI1_uc001uyx.1_Missense_Mutation_p.S222T	NM_001002264	NP_001002264	Q96J88	ESIP1_HUMAN	epithelial stromal interaction 1 isoform 1	233										ovary(1)	1		Lung NSC(96;3.6e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000528)|BRCA - Breast invasive adenocarcinoma(63;0.0858)		GTAAGCCCAGCTTCTGGCCTG	0.388													35	193	---	---	---	---	PASS	G	43491753	G	G	43491753	3	3	76	1	0	0	0	0	1	0	0	0	5198	797	28	4	554	4	EPSTI1	13	43491753	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1958675	43491753	71678125	332	28993										
PCDH20	64881	broad.mit.edu	37	chr13	61985578	61985578	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctactaaggtgggcatacaaGacacagattctaccttccta	7	11	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr13:61985578G>C	uc001vid.3	-	2	3018	c.2654C>G	c.(2653-2655)TCT>TGT	p.S885C	PCDH20_uc010thj.1_Missense_Mutation_p.S885C	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	858	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		GGGCATACAAGACACAGATTC	0.403													14	52	---	---	---	---	PASS	C	61985578	C	C	61985578	3	2	76	1	0	0	0	0	1	0	0	0	11515	942	33	2	205	2	PCDH20	13	61985578	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	18493825	61985578	53184300	333	28994										
SLITRK1	114798	broad.mit.edu	37	chr13	84455289	84455289	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtctgctttcgaaaagacttGatcttgttgttgttgatgtg	11	5	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr13:84455289G>A	uc001vlk.2	-	1	1240	c.354C>T	c.(352-354)ATC>ATT	p.I118I		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	118	Extracellular (Potential).|LRR 3.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GAAAAGACTTGATCTTGTTGT	0.468													29	173	---	---	---	---	PASS	A	84455289	A	A	84455289	2	1	76	1	0	0	0	0	0	0	0	1	14742	1280	45	2		2	SLITRK1	13	84455289	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	22469711	84455289	30714589	334	28995										
SLITRK5	26050	broad.mit.edu	37	chr13	88330396	88330396	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	acgggaaccggtgctctacaGccccccgagtgctgtctttg	12	14	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr13:88330396G>T	uc001vln.2	+	2	2972	c.2753G>T	c.(2752-2754)AGC>ATC	p.S918I	SLITRK5_uc010tic.1_Missense_Mutation_p.S677I	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	918	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GTGCTCTACAGCCCCCCGAGT	0.542													69	321	---	---	---	---	PASS	T	88330396	T	T	88330396	3	4	76	1	0	0	0	0	1	0	0	0	14746	971	34	3	2755	3	SLITRK5	13	88330396	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	3875107	88330396	26839482	335	28996										
OXGR1	27199	broad.mit.edu	37	chr13	97639439	97639439	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgtaccacttaatagtattgAgttcatccgaactggtgagg	10	7	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr13:97639439A>C	uc001vmx.1	-	4	819	c.575T>G	c.(574-576)CTC>CGC	p.L192R	OXGR1_uc010afr.1_Missense_Mutation_p.L192R	NM_080818	NP_543008	Q96P68	OXGR1_HUMAN	oxoglutarate (alpha-ketoglutarate) receptor 1	192	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.186)			AATAGTATTGAGTTCATCCGA	0.448													24	145	---	---	---	---	PASS	C	97639439	C	C	97639439	3	2	76	1	0	0	0	0	1	0	0	0	11332	304	11	5	442	5	OXGR1	13	97639439	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	9309043	97639439	17530439	336	28997										
TPP2	7174	broad.mit.edu	37	chr13	103326657	103326657	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atggacaaacaaaaatccacCctcgtagatgccctttgtag	7	11	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr13:103326657C>T	uc001vpi.3	+	27	3460	c.3357C>T	c.(3355-3357)ACC>ACT	p.T1119T		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	1119					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AAAAATCCACCCTCGTAGATG	0.388													12	70	---	---	---	---	PASS	T	103326657	T	T	103326657	2	4	76	1	0	0	0	0	0	0	0	1	16409	610	22	3		3	TPP2	13	103326657	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	5687218	103326657	11843221	337	28998										
CLEC14A	161198	broad.mit.edu	37	chr14	38724625	38724625	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggtggactgaagtccagagcGgcgctgtgcagctggaaggg	19	8	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr14:38724625G>T	uc001wum.1	-	1	950	c.603C>A	c.(601-603)GCC>GCA	p.A201A		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	201	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)		AGTCCAGAGCGGCGCTGTGCA	0.537													44	262	---	---	---	---	PASS	T	38724625	T	T	38724625	2	4	76	1	0	0	0	0	0	0	0	1	3499	1103	39	1		1	CLEC14A	14	38724625	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08		38724625	68624915	338	28999										
LRFN5	145581	broad.mit.edu	37	chr14	42360802	42360802	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aaactaacggggctcaaataCaaggctgtagtgtaacgctg	11	8	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr14:42360802C>A	uc001wvm.2	+	4	2933	c.1735C>A	c.(1735-1737)CAA>AAA	p.Q579K	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	579	Cytoplasmic (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		GGCTCAAATACAAGGCTGTAG	0.453										HNSCC(30;0.082)			9	116	---	---	---	---	PASS	A	42360802	A	A	42360802	3	1	76	1	0	0	0	0	1	0	0	0	8941	479	17	3	1741	3	LRFN5	14	42360802	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	3636177	42360802	64988738	339	29000										
FRMD6	122786	broad.mit.edu	37	chr14	52192507	52192507	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tttatttcagggttgattgtGaaagaaattgggtcttccac	10	5	2	3	rs147239419		TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr14:52192507G>C	uc001wzd.2	+	13	1788	c.1503G>C	c.(1501-1503)GTG>GTC	p.V501V	FRMD6_uc001wzb.2_Silent_p.V493V|FRMD6_uc001wzc.2_Silent_p.V493V|FRMD6_uc001wze.2_Silent_p.V424V|FRMD6_uc001wzf.2_Silent_p.V194V|FRMD6_uc001wzg.2_Silent_p.V143V	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	501						cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					GGTTGATTGTGAAAGAAATTG	0.358													16	136	---	---	---	---	PASS	C	52192507	C	C	52192507	2	2	76	1	0	0	0	0	0	0	0	1	6054	1277	45	2		2	FRMD6	14	52192507	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	9831705	52192507	55157033	340	29001										
TBPL2	387332	broad.mit.edu	37	chr14	55903374	55903374	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aaggagtcggagtttggtttCtcaggagagggctggactga	17	5	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr14:55903374C>T	uc001xby.2	-	2	513	c.513G>A	c.(511-513)GAG>GAA	p.E171E		NM_199047	NP_950248	Q6SJ96	TBPL2_HUMAN	TATA box binding protein like 2	171					multicellular organismal development|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding				0						AGTTTGGTTTCTCAGGAGAGG	0.493													61	93	---	---	---	---	PASS	T	55903374	T	T	55903374	2	4	76	1	0	0	0	0	0	0	0	1	15643	912	32	2		2	TBPL2	14	55903374	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	3710867	55903374	51446166	341	29002										
ZFYVE26	23503	broad.mit.edu	37	chr14	68228958	68228958	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cactgtggactctaggtactCaaccacatcctgcaccagcc	7	16	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr14:68228958C>G	uc001xka.2	-	34	6470	c.6331G>C	c.(6331-6333)GAG>CAG	p.E2111Q	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkb.2_5'Flank|ZFYVE26_uc001xkc.3_Missense_Mutation_p.E2111Q	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	2111					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		TCTAGGTACTCAACCACATCC	0.542													25	57	---	---	---	---	PASS	G	68228958	G	G	68228958	3	3	76	1	0	0	0	0	1	0	0	0	17665	835	29	2	1324	2	ZFYVE26	14	68228958	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	12325584	68228958	39120582	342	29003										
SIPA1L1	26037	broad.mit.edu	37	chr14	72054674	72054674	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcacagacggcacccccaaaGtccacactgatgatttctac	7	15	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr14:72054674G>A	uc001xms.2	+	2	433	c.85G>A	c.(85-87)GTC>ATC	p.V29I	SIPA1L1_uc001xmt.2_Missense_Mutation_p.V29I|SIPA1L1_uc001xmu.2_Missense_Mutation_p.V29I|SIPA1L1_uc001xmv.2_Missense_Mutation_p.V29I	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	29					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		CACCCCCAAAGTCCACACTGA	0.527													61	145	---	---	---	---	PASS	A	72054674	A	A	72054674	3	1	76	1	0	0	0	0	1	0	0	0	14329	1029	36	3	87	3	SIPA1L1	14	72054674	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	3825716	72054674	35294866	343	29004										
TMEM90A	646658	broad.mit.edu	37	chr14	74876048	74876048	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cacctcctcttcctcctggtCatcctcctggtcccgcagct	6	20	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr14:74876048C>T	uc001xpx.2	-	2	648	c.400G>A	c.(400-402)GAC>AAC	p.D134N		NM_001105579	NP_001099049	A6NDD5	SYN1L_HUMAN	transmembrane protein 90A	134					response to biotic stimulus	Golgi apparatus|integral to membrane					0				BRCA - Breast invasive adenocarcinoma(234;0.00159)		TCCTCCTGGTCATCCTCCTGG	0.408													119	238	---	---	---	---	PASS	T	74876048	T	T	74876048	3	4	76	1	0	0	0	0	1	0	0	0	16215	826	29	2	328	2	TMEM90A	14	74876048	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2821374	74876048	32473492	344	29005										
NDN	4692	broad.mit.edu	37	chr15	23932119	23932119	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cccggctgggccgcgctcggGgcctggtgggcgcggccctc	19	17	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr15:23932119G>T	uc001ywk.2	-	1	332	c.246C>A	c.(244-246)GCC>GCA	p.A82A		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	82					negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		CCGCGCTCGGGGCCTGGTGGG	0.766									Prader-Willi_syndrome				10	17	---	---	---	---	PASS	T	23932119	T	T	23932119	2	4	76	1	0	0	0	0	0	0	0	1	10247	1219	43	3		3	NDN	15	23932119	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08		23932119	78599273	345	29006										
C15orf2	23742	broad.mit.edu	37	chr15	24922909	24922909	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atttatattccacaataccaCcccaagttttaaccaactct	1	13	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr15:24922909C>T	uc001ywo.2	+	1	2369	c.1895C>T	c.(1894-1896)ACC>ATC	p.T632I		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	632					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CACAATACCACCCCAAGTTTT	0.498													8	179	---	---	---	---	PASS	T	24922909	T	T	24922909	3	4	76	1	0	0	0	0	1	0	0	0	1784	507	18	3	1897	3	C15orf2	15	24922909	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	990790	24922909	77608483	346	29007										
FMN1	342184	broad.mit.edu	37	chr15	33359183	33359183	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agcaaagctaagtccccatcCtttggtttaatttccgtgat	7	10	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr15:33359183C>G	uc001zhf.3	-	1	903	c.903G>C	c.(901-903)AAG>AAC	p.K301N	FMN1_uc001zhg.2_Missense_Mutation_p.K301N	NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		AGTCCCCATCCTTTGGTTTAA	0.502													16	59	---	---	---	---	PASS	G	33359183	G	G	33359183	3	3	76	1	0	0	0	0	1	0	0	0	5949	680	24	4	2755	4	FMN1	15	33359183	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	8436274	33359183	69172209	347	29008										
C15orf24	56851	broad.mit.edu	37	chr15	34380305	34380305	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	actttaggcagaagcacaaaTatcaataaaggaagaaccat	7	7	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr15:34380305T>C	uc001zhm.2	-	4	538	c.525A>G	c.(523-525)ATA>ATG	p.I175M	C15orf24_uc001zhn.2_Missense_Mutation_p.I58M	NM_020154	NP_064539	Q9NPA0	CO024_HUMAN	chromosome 15 open reading frame 24 precursor	175	Helical; (Potential).					cytoplasm|integral to membrane	carbohydrate binding|carboxypeptidase activity|purine nucleotide binding				0		all_lung(180;1.76e-08)		all cancers(64;2.02e-17)|GBM - Glioblastoma multiforme(113;2.15e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)		GAAGCACAAATATCAATAAAG	0.328													11	35	---	---	---	---	PASS	C	34380305	C	C	34380305	3	2	76	1	0	0	0	0	1	0	0	0	1786	1396	49	5	211	5	C15orf24	15	34380305	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	1021122	34380305	68151087	348	29009										
SPRED1	161742	broad.mit.edu	37	chr15	38591612	38591612	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcgagctgtggtgatgacccGagatgactcaagtggtggat	16	7	1	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr15:38591612G>C	uc001zka.3	+	2	406	c.71G>C	c.(70-72)CGA>CCA	p.R24P		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	24	WH1.				inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		GTGATGACCCGAGATGACTCA	0.458									Legius_syndrome				21	99	---	---	---	---	PASS	C	38591612	C	C	38591612	3	2	76	1	0	0	0	0	1	0	0	0	15091	1058	37	2	77	2	SPRED1	15	38591612	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	4211307	38591612	63939780	349	29010										
SPRED1	161742	broad.mit.edu	37	chr15	38614556	38614556	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttacgtttcaaagtcctgctGatgctagggcttttgataga	10	7	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr15:38614556G>A	uc001zka.3	+	3	657	c.322G>A	c.(322-324)GAT>AAT	p.D108N		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	108	WH1.				inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		AAGTCCTGCTGATGCTAGGGC	0.343									Legius_syndrome				8	180	---	---	---	---	PASS	A	38614556	A	A	38614556	3	1	76	1	0	0	0	0	1	0	0	0	15091	1290	45	2	332	2	SPRED1	15	38614556	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	22944	38614556	63916836	350	29011										
SLTM	79811	broad.mit.edu	37	chr15	59179632	59179632	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttggtggtggaggctcatttCttctggagtcactgaaattt	12	6	4	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr15:59179632C>G	uc002afp.2	-	18	2571	c.2483G>C	c.(2482-2484)AGA>ACA	p.R828T	SLTM_uc002afn.2_Missense_Mutation_p.R370T|SLTM_uc002afo.2_Missense_Mutation_p.R810T|SLTM_uc002afq.2_Missense_Mutation_p.R397T|SLTM_uc010bgd.2_Missense_Mutation_p.R397T	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	828	Arg/Glu-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						AGGCTCATTTCTTCTGGAGTC	0.468													51	177	---	---	---	---	PASS	G	59179632	G	G	59179632	3	3	76	1	0	0	0	0	1	0	0	0	14754	913	32	2	637	2	SLTM	15	59179632	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	20565076	59179632	43351760	351	29012										
DPP8	54878	broad.mit.edu	37	chr15	65772652	65772652	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tctctgcctttccataacatCatcttctactgggataaata	4	11	4	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr15:65772652C>T	uc002aov.2	-	10	2830	c.1252G>A	c.(1252-1254)GAT>AAT	p.D418N	DPP8_uc002aow.2_Missense_Mutation_p.D418N|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.D402N|DPP8_uc002aoy.2_Missense_Mutation_p.D418N|DPP8_uc002aoz.2_Missense_Mutation_p.D402N|DPP8_uc010bhj.2_Missense_Mutation_p.D418N|DPP8_uc002apa.2_Missense_Mutation_p.D315N|DPP8_uc010bhk.1_Intron	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	418					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						TCCATAACATCATCTTCTACT	0.393													21	55	---	---	---	---	PASS	T	65772652	T	T	65772652	3	4	76	1	0	0	0	0	1	0	0	0	4732	826	29	2	1488	2	DPP8	15	65772652	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	6593020	65772652	36758740	352	29013										
PDIA2	64714	broad.mit.edu	37	chr16	335575	335575	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agtactttggactcaaggctGaggcagcccccactctgcgc	11	14	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr16:335575G>C	uc002cgn.1	+	12	2099	c.991G>C	c.(991-993)GAG>CAG	p.E331Q	PDIA2_uc010bqt.1_Missense_Mutation_p.E176Q|PDIA2_uc002cgo.1_Missense_Mutation_p.E331Q	NM_006849	NP_006840	Q13087	PDIA2_HUMAN	protein disulfide isomerase A2 precursor	331					apoptosis|cell redox homeostasis|glycerol ether metabolic process|protein folding|protein retention in ER lumen|response to hypoxia	endoplasmic reticulum lumen	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity|steroid binding			central_nervous_system(1)|skin(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				ACTCAAGGCTGAGGCAGCCCC	0.612													22	152	---	---	---	---	PASS	C	335575	C	C	335575	3	2	76	1	0	0	0	0	1	0	0	0	11668	1291	45	2	1017	2	PDIA2	16	335575	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08		335575	90019178	353	29014										
TMEM8A	58986	broad.mit.edu	37	chr16	424308	424308	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcgatgggggccaggaacatGaggttgctgagcgtgagcag	19	7	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr16:424308G>C	uc002cgu.3	-	10	1797	c.1668C>G	c.(1666-1668)CTC>CTG	p.L556L	TMEM8A_uc002cgv.3_Silent_p.L363L	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	556	Helical; (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						CCAGGAACATGAGGTTGCTGA	0.657											OREG0003702	type=REGULATORY REGION|Gene=TMEM8|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	4	154	---	---	---	---	PASS	C	424308	C	C	424308	2	2	76	1	0	0	0	0	0	0	0	1	16211	1277	45	2		2	TMEM8A	16	424308	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	88733	424308	89930445	354	29015										
ZSCAN10	84891	broad.mit.edu	37	chr16	3139147	3139147	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggcgcagcaggtgggagttgCggctgaagctgcggccacac	18	11	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr16:3139147C>T	uc002ctv.1	-	5	2211	c.2123G>A	c.(2122-2124)CGC>CAC	p.R708H	ZSCAN10_uc002cty.1_Missense_Mutation_p.R369H|ZSCAN10_uc002ctw.1_Missense_Mutation_p.R626H|ZSCAN10_uc002ctx.1_Missense_Mutation_p.R636H	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	708	C2H2-type 14.				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						GTGGGAGTTGCGGCTGAAGCT	0.706													3	26	---	---	---	---	PASS	T	3139147	T	T	3139147	3	4	76	1	0	0	0	0	1	0	0	0	18224	768	27	1	58	1	ZSCAN10	16	3139147	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2714839	3139147	87215606	355	29016										
PPL	5493	broad.mit.edu	37	chr16	4935007	4935007	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gcctcgcctcctgagggcctCcagctcactctggtagctcc	10	18	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr16:4935007C>G	uc002cyd.1	-	22	3739	c.3649G>C	c.(3649-3651)GAG>CAG	p.E1217Q		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1217	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						CTGAGGGCCTCCAGCTCACTC	0.597													32	157	---	---	---	---	PASS	G	4935007	G	G	4935007	3	3	76	1	0	0	0	0	1	0	0	0	12334	864	30	2	1625	2	PPL	16	4935007	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1795860	4935007	85419746	356	29017										
ABCC1	4363	broad.mit.edu	37	chr16	16103674	16103674	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atcgtctgctgggcagacctCttctactctttctgggaaag	10	11	5	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr16:16103674C>T	uc010bvi.2	+	3	442	c.267C>T	c.(265-267)CTC>CTT	p.L89L	ABCC1_uc010bvj.2_Silent_p.L89L|ABCC1_uc010bvk.2_Silent_p.L89L|ABCC1_uc010bvl.2_Silent_p.L89L|ABCC1_uc010bvm.2_Silent_p.L89L|ABCC1_uc002del.3_5'UTR	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	89	Helical; Name=2.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GGGCAGACCTCTTCTACTCTT	0.552													28	365	---	---	---	---	PASS	T	16103674	T	T	16103674	2	4	76	1	0	0	0	0	0	0	0	1	49	900	32	2		2	ABCC1	16	16103674	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	11168667	16103674	74251079	357	29018										
RBBP6	5930	broad.mit.edu	37	chr16	24582687	24582687	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aagagagtaatttggaccgtCtgaatgaacaaggaaatttt	10	4	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr16:24582687C>G	uc002dmh.2	+	18	5340	c.4300C>G	c.(4300-4302)CTG>GTG	p.L1434V	RBBP6_uc002dmi.2_Missense_Mutation_p.L1400V|RBBP6_uc010bxr.2_Missense_Mutation_p.L594V|RBBP6_uc002dmk.2_Missense_Mutation_p.L1267V	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1434	Interaction with p53 (By similarity).				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		TTTGGACCGTCTGAATGAACA	0.398													26	116	---	---	---	---	PASS	G	24582687	G	G	24582687	3	3	76	1	0	0	0	0	1	0	0	0	13103	912	32	2	4424	2	RBBP6	16	24582687	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	8479013	24582687	65772066	358	29019										
SHCBP1	79801	broad.mit.edu	37	chr16	46649999	46649999	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tggtaaaagtgctcacttgaGagtcacagaggtatggttca	12	6	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr16:46649999G>A	uc002eec.3	-	4	495	c.455C>T	c.(454-456)TCT>TTT	p.S152F		NM_024745	NP_079021	Q8NEM2	SHCBP_HUMAN	SHC SH2-domain binding protein 1	152										ovary(1)|breast(1)	2		all_cancers(37;0.00404)|all_epithelial(9;0.00527)|all_lung(18;0.0413)|Lung NSC(13;0.213)				GCTCACTTGAGAGTCACAGAG	0.473													15	120	---	---	---	---	PASS	A	46649999	A	A	46649999	3	1	76	1	0	0	0	0	1	0	0	0	14274	942	33	2	1603	2	SHCBP1	16	46649999	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	22067312	46649999	43704754	359	29020										
CYLD	1540	broad.mit.edu	37	chr16	50830242	50830242	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctctgtgccataggtggtcaGaatggcttcaacattcctca	9	11	4	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr16:50830242G>C	uc002egp.1	+	19	3109	c.2694G>C	c.(2692-2694)CAG>CAC	p.Q898H	CYLD_uc002egq.1_Missense_Mutation_p.Q895H|CYLD_uc002egr.1_Missense_Mutation_p.Q895H	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	898					cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				TAGGTGGTCAGAATGGCTTCA	0.438			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				3	86	---	---	---	---	PASS	C	50830242	C	C	50830242	3	2	76	1	0	0	0	0	1	0	0	0	4143	933	33	2	2760	2	CYLD	16	50830242	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	4180243	50830242	39524511	360	29021										
RSPRY1	89970	broad.mit.edu	37	chr16	57238833	57238833	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcggccaccaaggaggggccGaggacctcatgagccaagga	15	12	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr16:57238833G>A	uc002elb.2	+	2	541	c.263G>A	c.(262-264)CGA>CAA	p.R88Q	RSPRY1_uc002elc.2_Missense_Mutation_p.R88Q|RSPRY1_uc002eld.2_Missense_Mutation_p.R88Q|RSPRY1_uc002ele.1_Missense_Mutation_p.R88Q	NM_133368	NP_588609	Q96DX4	RSPRY_HUMAN	ring finger and SPRY domain containing 1	88						extracellular region	zinc ion binding			ovary(1)	1						AGGAGGGGCCGAGGACCTCAT	0.527													25	99	---	---	---	---	PASS	A	57238833	A	A	57238833	3	1	76	1	0	0	0	0	1	0	0	0	13713	1058	37	2	265	2	RSPRY1	16	57238833	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	6408591	57238833	33115920	361	29022										
CDH8	1006	broad.mit.edu	37	chr16	61851444	61851444	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttgcccaatcacggagtttaGagcagcattttcatgaactt	8	9	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr16:61851444G>C	uc002eog.1	-	7	1468	c.1216C>G	c.(1216-1218)CTA>GTA	p.L406V	CDH8_uc002eoh.2_Missense_Mutation_p.L175V	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	406	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		ACGGAGTTTAGAGCAGCATTT	0.433													16	93	---	---	---	---	PASS	C	61851444	C	C	61851444	3	2	76	1	0	0	0	0	1	0	0	0	3116	933	33	2	1207	2	CDH8	16	61851444	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	4612611	61851444	28503309	362	29023										
HPR	3250	broad.mit.edu	37	chr16	72108264	72108264	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccagtgtaagaactactacaGactgcgcacagaaggagatg	11	9	0	4	rs152833		TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr16:72108264G>A	uc002fby.2	+	3	203	c.173G>A	c.(172-174)AGA>AAA	p.R58K	TXNL4B_uc010cgl.2_Intron	NM_020995	NP_066275	P00739	HPTR_HUMAN	haptoglobin-related protein precursor	58	Sushi.				proteolysis	spherical high-density lipoprotein particle	hemoglobin binding|serine-type endopeptidase activity			central_nervous_system(1)	1		Ovarian(137;0.125)				AACTACTACAGACTGCGCACA	0.507													28	98	---	---	---	---	PASS	A	72108264	A	A	72108264	3	1	76	1	0	0	0	0	1	0	0	0	7337	942	33	2	183	2	HPR	16	72108264	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	10256820	72108264	18246489	363	29024										
TP53	7157	broad.mit.edu	37	chr17	7577120	7577120	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcccaggacaggcacaaacaCgcacctcaaagctgttccgt	8	15	1	0	rs28934576	by1000genomes	TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:7577120C>T	uc002gim.2	-	8	1012	c.818G>A	c.(817-819)CGT>CAT	p.R273H	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141H|TP53_uc010cng.1_Missense_Mutation_p.R141H|TP53_uc002gii.1_Missense_Mutation_p.R141H|TP53_uc010cnh.1_Missense_Mutation_p.R273H|TP53_uc010cni.1_Missense_Mutation_p.R273H|TP53_uc002gij.2_Missense_Mutation_p.R273H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(469)|p.R273C(394)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(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)		GGCACAAACACGCACCTCAAA	0.542	R273H(NCIH1793_LUNG)|R273H(MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PANC1_PANCREAS)|R273H(NCIH508_LARGE_INTESTINE)|R273H(NCIH1975_LUNG)|R273H(U251MG_CENTRAL_NERVOUS_SYSTEM)|R273H(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273H(NCIH2405_LUNG)|R273H(HEC59_ENDOMETRIUM)|R273H(NCIH1155_LUNG)|R273H(HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(EN_ENDOMETRIUM)|R273H(SNB19_CENTRAL_NERVOUS_SYSTEM)|R273H(MDAMB468_BREAST)|R273H(SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW620_LARGE_INTESTINE)|R273H(SUIT2_PANCREAS)|R273H(SW480_LARGE_INTESTINE)|R273H(SKMEL30_SKIN)|R273H(OC314_OVARY)|R273H(HEC6_ENDOMETRIUM)|R273H(HT29_LARGE_INTESTINE)	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)			13	41	---	---	---	---	PASS	T	7577120	T	T	7577120	3	4	76	1	0	0	0	0	1	0	0	0	16378	536	19	1	468	1	TP53	17	7577120	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08		7577120	73618090	364	29025										
KSR1	8844	broad.mit.edu	37	chr17	25938601	25938601	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tccatctggcagattggaagCggggaaggaatgaagcgtgt	16	6	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:25938601C>T	uc010crg.2	+	19	2539	c.2094C>T	c.(2092-2094)AGC>AGT	p.S698S	KSR1_uc002gzm.2_Silent_p.S477S|KSR1_uc002gzn.2_Silent_p.S49S	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	833	Protein kinase.				Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		AGATTGGAAGCGGGGAAGGAA	0.567													14	68	---	---	---	---	PASS	T	25938601	T	T	25938601	2	4	76	1	0	0	0	0	0	0	0	1	8581	767	27	1		1	KSR1	17	25938601	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	18361481	25938601	55256609	365	29026										
IFT20	90410	broad.mit.edu	37	chr17	26655743	26655743	+	Missense_Mutation	SNP	C	T	T													0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttctactttacacaaagcttCatattcaacccgatacctga							TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:26655743C>T	uc002haw.1	-	5	466	c.334G>A	c.(334-336)GAA>AAA	p.E112K	IFT20_uc002hau.1_3'UTR|IFT20_uc002hav.1_Missense_Mutation_p.E138K|TNFAIP1_uc002hax.1_5'Flank			Q8IY31	IFT20_HUMAN	RecName: Full=Intraflagellar transport protein 20 homolog;          Short=hIFT20;	112	IFT57-binding (By similarity).|Potential.				cell projection organization	centriole|cilium|Golgi apparatus|microtubule basal body	protein binding				0	all_lung(13;0.000294)|Lung NSC(42;0.000964)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		CACAAAGCTTCATATTCAACC	0.318													6	51	---	---	---	---	PASS	T	26655743	T	T	26655743	3	4	76	1	0	0	0	0	1	0	0	0	7558	841	29	2		2	IFT20	17	26655743	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	717142	26655743	54539467	366	29027	598	2								
IFT20	90410	broad.mit.edu	37	chr17	26655748	26655748	+	Missense_Mutation	SNP	T	A	A													0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctttacacaaagcttcatatTcaacccgatacctgaaaaac							TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:26655748T>A	uc002haw.1	-	5	461	c.329A>T	c.(328-330)GAA>GTA	p.E110V	IFT20_uc002hau.1_Nonstop_Mutation_p.*149C|IFT20_uc002hav.1_Missense_Mutation_p.E136V|TNFAIP1_uc002hax.1_5'Flank			Q8IY31	IFT20_HUMAN	RecName: Full=Intraflagellar transport protein 20 homolog;          Short=hIFT20;	110	IFT57-binding (By similarity).|Potential.				cell projection organization	centriole|cilium|Golgi apparatus|microtubule basal body	protein binding				0	all_lung(13;0.000294)|Lung NSC(42;0.000964)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		AGCTTCATATTCAACCCGATA	0.313													6	52	---	---	---	---	PASS	A	26655748	A	A	26655748	3	1	76	1	0	0	0	0	1	0	0	0	7558	1796	62	5	3	5	IFT20	17	26655748	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	5	26655748	54539462	367	29028	598	2								
NEK8	284086	broad.mit.edu	37	chr17	27065226	27065226	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcgggtgtgaccatcaagcaCgtggcctgtggggacttctt	14	10	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:27065226C>G	uc002hcp.2	+	8	1185	c.1185C>G	c.(1183-1185)CAC>CAG	p.H395Q		NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	395						cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					CCATCAAGCACGTGGCCTGTG	0.627													18	118	---	---	---	---	PASS	G	27065226	G	G	27065226	3	3	76	1	0	0	0	0	1	0	0	0	10330	535	19	4	1215	4	NEK8	17	27065226	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	409478	27065226	54129984	368	29029										
CRLF3	51379	broad.mit.edu	37	chr17	29111225	29111225	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctaaaacactaacactttccAtccaggatagaaaaatgagc	5	10	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:29111225A>G	uc002hfr.3	-	8	1418	c.1309T>C	c.(1309-1311)TGG>CGG	p.W437R	CRLF3_uc010wbr.1_Missense_Mutation_p.W321R	NM_015986	NP_057070	Q8IUI8	CRLF3_HUMAN	cytokine receptor-like factor 3	437					negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|positive regulation of cell cycle arrest|positive regulation of JAK-STAT cascade|positive regulation of transcription from RNA polymerase II promoter	cytoplasm					0		all_hematologic(16;0.014)|Acute lymphoblastic leukemia(14;0.0236)|Myeloproliferative disorder(56;0.0255)				AACACTTTCCATCCAGGATAG	0.378													16	78	---	---	---	---	PASS	G	29111225	G	G	29111225	3	3	76	1	0	0	0	0	1	0	0	0	3888	217	8	5	23	5	CRLF3	17	29111225	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	2045999	29111225	52083985	369	29030										
PNMT	5409	broad.mit.edu	37	chr17	37824826	37824826	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctaccagcgcttcgagccgcGcgcctacctccgcaacaact	8	19	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:37824826G>A	uc002hsi.1	+	1	320	c.98G>A	c.(97-99)CGC>CAC	p.R33H		NM_002686	NP_002677	P11086	PNMT_HUMAN	phenylethanolamine N-methyltransferase	33					catecholamine biosynthetic process|hormone biosynthetic process	cytosol	phenylethanolamine N-methyltransferase activity			ovary(1)	1	all_cancers(6;6.59e-85)|all_epithelial(6;2.89e-103)|Breast(7;1.05e-86)|Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;3.87e-45)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			TTCGAGCCGCGCGCCTACCTC	0.731													6	21	---	---	---	---	PASS	A	37824826	A	A	37824826	3	1	76	1	0	0	0	0	1	0	0	0	12159	1087	38	1	100	1	PNMT	17	37824826	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	8713601	37824826	43370384	370	29031										
KRT24	192666	broad.mit.edu	37	chr17	38859884	38859884	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgaagctgcttccaccagcaGacaccctggctgagctgctg	11	14	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:38859884G>C	uc002hvd.2	-	1	119	c.62C>G	c.(61-63)TCT>TGT	p.S21C		NM_019016	NP_061889	Q2M2I5	K1C24_HUMAN	keratin 24	21	Head.|Gly-rich.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.00526)				TCCACCAGCAGACACCCTGGC	0.637													5	105	---	---	---	---	PASS	C	38859884	C	C	38859884	3	2	76	1	0	0	0	0	1	0	0	0	8461	942	33	2	1547	2	KRT24	17	38859884	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1035058	38859884	42335326	371	29032										
SCPEP1	59342	broad.mit.edu	37	chr17	55079507	55079507	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttgtcaagtcctacaagaacCttgctttctactggattctg	7	10	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:55079507C>G	uc002iuv.3	+	12	1314	c.1261C>G	c.(1261-1263)CTT>GTT	p.L421V	SCPEP1_uc010dcl.2_RNA|SCPEP1_uc010wnk.1_Missense_Mutation_p.L371V	NM_021626	NP_067639	Q9HB40	RISC_HUMAN	serine carboxypeptidase 1 precursor	421					proteolysis	extracellular region	serine-type carboxypeptidase activity			skin(1)	1	Breast(9;2.86e-08)					CTACAAGAACCTTGCTTTCTA	0.438													30	117	---	---	---	---	PASS	G	55079507	G	G	55079507	3	3	76	1	0	0	0	0	1	0	0	0	13935	681	24	4	1307	4	SCPEP1	17	55079507	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	16219623	55079507	26115703	372	29033										
MED13	9969	broad.mit.edu	37	chr17	60038399	60038399	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctagctctgtctgtttgtccTtcactggagccagaataaaa	8	10	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:60038399T>C	uc002izo.2	-	23	5386	c.5309A>G	c.(5308-5310)AAG>AGG	p.K1770R		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	1770					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						CTGTTTGTCCTTCACTGGAGC	0.348													26	112	---	---	---	---	PASS	C	60038399	C	C	60038399	3	2	76	1	0	0	0	0	1	0	0	0	9430	1609	56	5	1247	5	MED13	17	60038399	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	4958892	60038399	21156811	373	29034										
TEX2	55852	broad.mit.edu	37	chr17	62272454	62272454	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgtaaatctcattcatccatCcctgatgaagaaaaacttcc	4	11	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:62272454C>A	uc002jec.2	-	3	1819	c.1646G>T	c.(1645-1647)GGA>GTA	p.G549V	TEX2_uc002jed.2_Missense_Mutation_p.G549V|TEX2_uc002jee.2_Missense_Mutation_p.G549V	NM_018469	NP_060939	Q8IWB9	TEX2_HUMAN	testis expressed sequence 2	549					signal transduction|sphingolipid metabolic process	integral to membrane				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		ATTCATCCATCCCTGATGAAG	0.373													24	68	---	---	---	---	PASS	A	62272454	A	A	62272454	3	1	76	1	0	0	0	0	1	0	0	0	15778	869	30	2	1798	2	TEX2	17	62272454	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	2234055	62272454	18922756	374	29035										
ABCA10	10349	broad.mit.edu	37	chr17	67146196	67146196	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtaacttatacgccattaaaGaggaatatctgtcaggaaga	9	6	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:67146196G>C	uc010dfa.1	-	38	5285	c.4406C>G	c.(4405-4407)TCT>TGT	p.S1469C	ABCA10_uc002jhz.2_RNA|ABCA10_uc010wqs.1_Missense_Mutation_p.S461C|ABCA10_uc010wqt.1_RNA	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	1469					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					CGCCATTAAAGAGGAATATCT	0.363													4	90	---	---	---	---	PASS	C	67146196	C	C	67146196	3	2	76	1	0	0	0	0	1	0	0	0	29	942	33	2	237	2	ABCA10	17	67146196	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	4873742	67146196	14049014	375	29036										
GRIN2C	2905	broad.mit.edu	37	chr17	72840614	72840614	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tctcattctggcagatccctGagagccacactgtctccagt	8	14	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:72840614G>A	uc002jlt.1	-	12	2540	c.2384C>T	c.(2383-2385)TCA>TTA	p.S795L	GRIN2C_uc010wrh.1_RNA|GRIN2C_uc002jlu.1_Missense_Mutation_p.S795L	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	795	Extracellular (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	GCAGATCCCTGAGAGCCACAC	0.557													52	413	---	---	---	---	PASS	A	72840614	A	A	72840614	3	1	76	1	0	0	0	0	1	0	0	0	6781	1294	45	2	1325	2	GRIN2C	17	72840614	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	5694418	72840614	8354596	376	29037										
OTOP2	92736	broad.mit.edu	37	chr17	72926486	72926486	+	Silent	SNP	C	T	T													0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttcaacatcgagtacagcctCttcgcctccaccatgctgta							TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:72926486C>T	uc010wrp.1	+	7	845	c.756C>T	c.(754-756)CTC>CTT	p.L252L		NM_178160	NP_835454	Q7RTS6	OTOP2_HUMAN	otopetrin 2	252	Helical; (Potential).					integral to membrane				ovary(3)|large_intestine(1)	4	all_lung(278;0.172)|Lung NSC(278;0.207)					AGTACAGCCTCTTCGCCTCCA	0.587													83	771	---	---	---	---	PASS	T	72926486	T	T	72926486	2	4	76	1	0	0	0	0	0	0	0	1	11306	900	32	2		2	OTOP2	17	72926486	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	85872	72926486	8268724	377	29038	599	2								
OTOP2	92736	broad.mit.edu	37	chr17	72926487	72926487	+	Missense_Mutation	SNP	T	A	A													0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcaacatcgagtacagcctcTtcgcctccaccatgctgtat							TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:72926487T>A	uc010wrp.1	+	7	846	c.757T>A	c.(757-759)TTC>ATC	p.F253I		NM_178160	NP_835454	Q7RTS6	OTOP2_HUMAN	otopetrin 2	253	Helical; (Potential).					integral to membrane				ovary(3)|large_intestine(1)	4	all_lung(278;0.172)|Lung NSC(278;0.207)					GTACAGCCTCTTCGCCTCCAC	0.592													81	763	---	---	---	---	PASS	A	72926487	A	A	72926487	3	1	76	1	0	0	0	0	1	0	0	0	11306	1609	56	5	775	5	OTOP2	17	72926487	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	1	72926487	8268723	378	29039	599	2								
ITGB4	3691	broad.mit.edu	37	chr17	73723837	73723837	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	attttgagctggaggtgtttGagccactggagagccccgtg	15	8	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:73723837G>C	uc002jpg.2	+	5	557	c.370G>C	c.(370-372)GAG>CAG	p.E124Q	ITGB4_uc002jph.2_Missense_Mutation_p.E124Q|ITGB4_uc010dgo.2_Missense_Mutation_p.E124Q|ITGB4_uc002jpi.3_Missense_Mutation_p.E124Q|ITGB4_uc010dgp.1_Missense_Mutation_p.E124Q|ITGB4_uc002jpj.2_Missense_Mutation_p.E124Q	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	124	Extracellular (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGAGGTGTTTGAGCCACTGGA	0.612													13	135	---	---	---	---	PASS	C	73723837	C	C	73723837	3	2	76	1	0	0	0	0	1	0	0	0	7897	1291	45	2	384	2	ITGB4	17	73723837	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	797350	73723837	7471373	379	29040										
CDK3	1018	broad.mit.edu	37	chr17	73998415	73998415	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctgaagccccagaacctgctCatcaatgagttgggtgccat	10	12	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:73998415C>T	uc010dgt.2	+	5	478	c.402C>T	c.(400-402)CTC>CTT	p.L134L	CDK3_uc002jqg.3_Silent_p.L162L	NM_001258	NP_001249	Q00526	CDK3_HUMAN	cyclin-dependent kinase 3	134	Protein kinase.				cell division|cell proliferation|mitosis		ATP binding|cyclin-dependent protein kinase activity			central_nervous_system(1)	1						AGAACCTGCTCATCAATGAGT	0.592													6	249	---	---	---	---	PASS	T	73998415	T	T	73998415	2	4	76	1	0	0	0	0	0	0	0	1	3140	813	29	2		2	CDK3	17	73998415	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	274578	73998415	7196795	380	29041										
CDK3	1018	broad.mit.edu	37	chr17	73998597	73998597	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttctttgccctgcaggtggtGacactgtggtatcgcgcccc	12	13	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr17:73998597G>A	uc010dgt.2	+	6	568	c.492G>A	c.(490-492)GTG>GTA	p.V164V	CDK3_uc002jqg.3_Silent_p.V192V	NM_001258	NP_001249	Q00526	CDK3_HUMAN	cyclin-dependent kinase 3	164	Protein kinase.				cell division|cell proliferation|mitosis		ATP binding|cyclin-dependent protein kinase activity			central_nervous_system(1)	1						TGCAGGTGGTGACACTGTGGT	0.532													10	218	---	---	---	---	PASS	A	73998597	A	A	73998597	2	1	76	1	0	0	0	0	0	0	0	1	3140	1277	45	2		2	CDK3	17	73998597	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	182	73998597	7196613	381	29042										
PTPRM	5797	broad.mit.edu	37	chr18	8394534	8394534	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atcgtatgtgagatgctccgGcaccagagaaccgtggatgt	13	9	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr18:8394534G>T	uc002knn.3	+	30	4733	c.4230G>T	c.(4228-4230)CGG>CGT	p.R1410R	PTPRM_uc010dkv.2_Silent_p.R1423R|PTPRM_uc010wzl.1_Silent_p.R1197R	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1410	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				AGATGCTCCGGCACCAGAGAA	0.562													6	49	---	---	---	---	PASS	T	8394534	T	T	8394534	2	4	76	1	0	0	0	0	0	0	0	1	12806	1190	42	3		3	PTPRM	18	8394534	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08		8394534	69682714	382	29043										
CEP192	55125	broad.mit.edu	37	chr18	13056361	13056361	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgacacaaccctctctcagcGctgctccttttgctcagcgg	8	16	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr18:13056361G>T	uc010xac.1	+	19	3852	c.3772G>T	c.(3772-3774)GCT>TCT	p.A1258S	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.A783S|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_5'UTR|CEP192_uc002krs.1_Missense_Mutation_p.A999S	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1258										ovary(4)|pancreas(1)	5						CTCTCTCAGCGCTGCTCCTTT	0.552													21	73	---	---	---	---	PASS	T	13056361	T	T	13056361	3	4	76	1	0	0	0	0	1	0	0	0	3251	1087	38	1	3842	1	CEP192	18	13056361	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	4661827	13056361	65020887	383	29044										
CDH2	1000	broad.mit.edu	37	chr18	25593661	25593661	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctataccttcactgactcctCagttaaggttggcttcaggc	8	12	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr18:25593661C>T	uc002kwg.2	-	3	844	c.385G>A	c.(385-387)GAG>AAG	p.E129K	CDH2_uc010xbn.1_Missense_Mutation_p.E98K	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	129					adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						ACTGACTCCTCAGTTAAGGTT	0.418													52	229	---	---	---	---	PASS	T	25593661	T	T	25593661	3	4	76	1	0	0	0	0	1	0	0	0	3105	835	29	2	2391	2	CDH2	18	25593661	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	12537300	25593661	52483587	384	29045										
DTNA	1837	broad.mit.edu	37	chr18	32462073	32462073	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cctatgtgcagcctgaagatGaaaactatgaaaatgactct	8	8	1	5			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr18:32462073G>C	uc010dmn.1	+	20	2123	c.2122G>C	c.(2122-2124)GAA>CAA	p.E708Q	DTNA_uc002kxw.2_Missense_Mutation_p.E651Q|DTNA_uc010dmj.2_Missense_Mutation_p.E648Q|DTNA_uc002kxz.2_Missense_Mutation_p.E655Q|DTNA_uc002kxy.2_Missense_Mutation_p.E648Q|DTNA_uc010xby.1_Missense_Mutation_p.E398Q|DTNA_uc010xbz.1_Missense_Mutation_p.E417Q|DTNA_uc010xca.1_Missense_Mutation_p.E360Q|DTNA_uc002kye.2_Missense_Mutation_p.E356Q	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	708					neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						GCCTGAAGATGAAAACTATGA	0.443													26	129	---	---	---	---	PASS	C	32462073	C	C	32462073	3	2	76	1	0	0	0	0	1	0	0	0	4788	1291	45	2	2290	2	DTNA	18	32462073	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	6868412	32462073	45615175	385	29046										
SETBP1	26040	broad.mit.edu	37	chr18	42531989	42531989	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccgaaggaggtactcttttgAtttctgctccctggacaacc	9	12	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr18:42531989A>G	uc010dni.2	+	4	2980	c.2684A>G	c.(2683-2685)GAT>GGT	p.D895G		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	895						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		TACTCTTTTGATTTCTGCTCC	0.552									Schinzel-Giedion_syndrome				8	31	---	---	---	---	PASS	G	42531989	G	G	42531989	3	3	76	1	0	0	0	0	1	0	0	0	14129	333	12	5	2887	5	SETBP1	18	42531989	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	10069916	42531989	35545259	386	29047										
POLI	11201	broad.mit.edu	37	chr18	51813728	51813728	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctctgagaagcactatggtcGtgagagtcgtcagtgcccta	12	10	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr18:51813728G>T	uc002lfj.3	+	8	1213	c.1145G>T	c.(1144-1146)CGT>CTT	p.R382L	POLI_uc010xds.1_Missense_Mutation_p.R303L|POLI_uc002lfk.3_Missense_Mutation_p.R279L|POLI_uc010dpg.2_5'UTR	NM_007195	NP_009126	Q9UNA4	POLI_HUMAN	DNA polymerase iota	382	DNA binding.				DNA repair|DNA replication	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding|protein binding			ovary(2)|kidney(1)	3				Colorectal(16;0.0234)|READ - Rectum adenocarcinoma(59;0.197)		CACTATGGTCGTGAGAGTCGT	0.403								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					6	25	---	---	---	---	PASS	T	51813728	T	T	51813728	3	4	76	1	0	0	0	0	1	0	0	0	12203	1145	40	1	1175	1	POLI	18	51813728	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	9281739	51813728	26263520	387	29048										
RTTN	25914	broad.mit.edu	37	chr18	67816221	67816221	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cttctgtgtcagaacttgctTtgcttagaaggagaatgcag	11	7	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr18:67816221T>G	uc002lkp.2	-	17	2293	c.2225A>C	c.(2224-2226)AAA>ACA	p.K742T	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	742							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				AGAACTTGCTTTGCTTAGAAG	0.393													30	154	---	---	---	---	PASS	G	67816221	G	G	67816221	3	3	76	1	0	0	0	0	1	0	0	0	13737	1841	64	5	4587	5	RTTN	18	67816221	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	16002493	67816221	10261027	388	29049										
ZNF407	55628	broad.mit.edu	37	chr18	72346592	72346592	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aaatgaaaattcaggaagctCtgccttaaattgtgagacag	9	6	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr18:72346592C>A	uc002llw.2	+	1	3674	c.3617C>A	c.(3616-3618)TCT>TAT	p.S1206Y	ZNF407_uc010xfc.1_Missense_Mutation_p.S1206Y|ZNF407_uc010dqu.1_Missense_Mutation_p.S1206Y|ZNF407_uc002llu.2_Missense_Mutation_p.S1205Y	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1206					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		TCAGGAAGCTCTGCCTTAAAT	0.438													7	42	---	---	---	---	PASS	A	72346592	A	A	72346592	3	1	76	1	0	0	0	0	1	0	0	0	17884	913	32	2	3619	2	ZNF407	18	72346592	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	4530371	72346592	5730656	389	29050										
ANGPTL4	51129	broad.mit.edu	37	chr19	8438651	8438651	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gccagtacttccgctccatcCcacagcagcggcagaagctt	9	16	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:8438651C>T	uc002mjq.1	+	7	1297	c.1102C>T	c.(1102-1104)CCA>TCA	p.P368S	ANGPTL4_uc002mjr.1_Missense_Mutation_p.P330S|ANGPTL4_uc010xkc.1_Missense_Mutation_p.P201S	NM_139314	NP_647475	Q9BY76	ANGL4_HUMAN	angiopoietin-like 4 protein isoform a precursor	368	Fibrinogen C-terminal.				angiogenesis|cell differentiation|cellular lipid metabolic process|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|positive regulation of angiogenesis|response to hypoxia|signal transduction|triglyceride homeostasis	extracellular space|proteinaceous extracellular matrix	enzyme inhibitor activity|receptor binding			ovary(1)	1						CCGCTCCATCCCACAGCAGCG	0.612													79	403	---	---	---	---	PASS	T	8438651	T	T	8438651	3	4	76	1	0	0	0	0	1	0	0	0	616	623	22	3	1128	3	ANGPTL4	19	8438651	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08		8438651	50690332	390	29051										
MUC16	94025	broad.mit.edu	37	chr19	9017381	9017381	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgttcctgtccagggtgtagGggcccagctctttgatgcca	13	11	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:9017381G>A	uc002mkp.2	-	26	38147	c.37943C>T	c.(37942-37944)CCC>CTC	p.P12648L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12650	SEA 4.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGGGTGTAGGGGCCCAGCTC	0.557													68	418	---	---	---	---	PASS	A	9017381	A	A	9017381	3	1	76	1	0	0	0	0	1	0	0	0	9973	1232	43	3	5816	3	MUC16	19	9017381	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	578730	9017381	50111602	391	29052										
OR7D2	162998	broad.mit.edu	37	chr19	9297353	9297353	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaggaacaaggatgtgaaggGagccctggggagtctcctca	16	8	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:9297353G>A	uc002mkz.1	+	1	1084	c.896G>A	c.(895-897)GGA>GAA	p.G299E		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	299	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						GATGTGAAGGGAGCCCTGGGG	0.527													15	88	---	---	---	---	PASS	A	9297353	A	A	9297353	3	1	76	1	0	0	0	0	1	0	0	0	11219	1174	41	2	898	2	OR7D2	19	9297353	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	279972	9297353	49831630	392	29053										
ZNF560	147741	broad.mit.edu	37	chr19	9577788	9577788	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aatgtttagtaagatctgagCgttctgtgaaggcttttcca	10	6	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:9577788C>A	uc002mlp.1	-	10	2045	c.1835G>T	c.(1834-1836)CGC>CTC	p.R612L	ZNF560_uc010dwr.1_Missense_Mutation_p.R506L	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	612	C2H2-type 10.				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						AAGATCTGAGCGTTCTGTGAA	0.413													34	224	---	---	---	---	PASS	A	9577788	A	A	9577788	3	1	76	1	0	0	0	0	1	0	0	0	17988	768	27	1	541	1	ZNF560	19	9577788	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	280435	9577788	49551195	393	29054										
CCDC159	126075	broad.mit.edu	37	chr19	11460356	11460356	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttggagaccagctcttccaaAgtcaaaggtgagaaatctcc	9	10	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:11460356A>C	uc010xlw.1	+	3	376	c.297A>C	c.(295-297)AAA>AAC	p.K99N	CCDC159_uc010xlr.1_Missense_Mutation_p.K16N|CCDC159_uc010xls.1_Missense_Mutation_p.K16N|CCDC159_uc010xlt.1_Missense_Mutation_p.K16N|CCDC159_uc010xlu.1_Missense_Mutation_p.K15N|CCDC159_uc010xlv.1_Missense_Mutation_p.K15N	NM_001080503	NP_001073972	P0C7I6	CC159_HUMAN	coiled-coil domain-containing-like	131										ovary(1)	1						GCTCTTCCAAAGTCAAAGGTG	0.512													4	36	---	---	---	---	PASS	C	11460356	C	C	11460356	3	2	76	1	0	0	0	0	1	0	0	0	2791	69	3	5	54	5	CCDC159	19	11460356	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	1882568	11460356	47668627	394	29055										
STX10	8677	broad.mit.edu	37	chr19	13255227	13255227	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gccagggagggctggggtcaGagagagaatagtaagatgag	19	4	1	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:13255227G>C	uc010xnb.1	-	8	747	c.747C>G	c.(745-747)CTC>CTG	p.L249L	STX10_uc002mwn.2_3'UTR|STX10_uc002mwo.2_3'UTR|STX10_uc010xna.1_RNA|STX10_uc010xnc.1_Silent_p.L150L	NM_003765	NP_003756	O60499	STX10_HUMAN	syntaxin 10	249	Helical; Anchor for type IV membrane protein; (Potential).				Golgi vesicle transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane	SNAP receptor activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.41e-21)			GCTGGGGTCAGAGAGAGAATA	0.632													3	38	---	---	---	---	PASS	C	13255227	C	C	13255227	2	2	76	1	0	0	0	0	0	0	0	1	15335	929	33	2		2	STX10	19	13255227	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	1794871	13255227	45873756	395	29056										
STX10	8677	broad.mit.edu	37	chr19	13255242	13255242	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggtcagagagagaatagtaaGatgagaacgaggagaagcac	15	4	1	5			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:13255242G>C	uc010xnb.1	-	8	732	c.732C>G	c.(730-732)ATC>ATG	p.I244M	STX10_uc002mwn.2_3'UTR|STX10_uc002mwo.2_3'UTR|STX10_uc010xna.1_RNA|STX10_uc010xnc.1_Missense_Mutation_p.I145M	NM_003765	NP_003756	O60499	STX10_HUMAN	syntaxin 10	244	Helical; Anchor for type IV membrane protein; (Potential).				Golgi vesicle transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane	SNAP receptor activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.41e-21)			AGAATAGTAAGATGAGAACGA	0.627													5	39	---	---	---	---	PASS	C	13255242	C	C	13255242	3	2	76	1	0	0	0	0	1	0	0	0	15335	932	33	2	20	2	STX10	19	13255242	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	15	13255242	45873741	396	29057										
JAK3	3718	broad.mit.edu	37	chr19	17951112	17951112	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaacataggagccaggacgtGagcccccagtcttgagcttg	13	11	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:17951112G>A	uc002nhn.3	-	9	1281	c.1181C>T	c.(1180-1182)TCA>TTA	p.S394L	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Missense_Mutation_p.S394L|JAK3_uc010xpx.1_Missense_Mutation_p.S394L	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	394	SH2; atypical.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						GCCAGGACGTGAGCCCCCAGT	0.537		2	Mis		acute megakaryocytic leukemia|								17	68	---	---	---	---	PASS	A	17951112	A	A	17951112	3	1	76	1	0	0	0	0	1	0	0	0	7939	1294	45	2	2257	2	JAK3	19	17951112	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	4695870	17951112	41177871	397	29058										
ZNF570	148268	broad.mit.edu	37	chr19	37975043	37975043	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tcttggggaagttttcatcaGaacccactgctttgtacaca	8	10	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:37975043G>A	uc002ogk.1	+	5	1048	c.519G>A	c.(517-519)CAG>CAA	p.Q173Q	ZNF570_uc010efl.1_Silent_p.Q229Q|ZNF570_uc010xtr.1_5'UTR	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	173					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTTTTCATCAGAACCCACTGC	0.348													65	242	---	---	---	---	PASS	A	37975043	A	A	37975043	2	1	76	1	0	0	0	0	0	0	0	1	17999	933	33	2		2	ZNF570	19	37975043	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	20023931	37975043	21153940	398	29059										
ZNF793	390927	broad.mit.edu	37	chr19	38028524	38028524	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aatgcgggaaatcgtttggtGagaagtcatacctcaatgta	11	6	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:38028524G>A	uc010efm.2	+	8	1406	c.964G>A	c.(964-966)GAG>AAG	p.E322K	ZNF793_uc010xts.1_Missense_Mutation_p.E322K|ZNF793_uc010efo.2_Intron	NM_001013659	NP_001013681	Q6ZN11	ZN793_HUMAN	zinc finger protein 793	322	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ATCGTTTGGTGAGAAGTCATA	0.468													9	65	---	---	---	---	PASS	A	38028524	A	A	38028524	3	1	76	1	0	0	0	0	1	0	0	0	18162	1291	45	2	978	2	ZNF793	19	38028524	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	53481	38028524	21100459	399	29060										
ECH1	1891	broad.mit.edu	37	chr19	39307163	39307163	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agccaaacccacgtccacctCctgggggaggaatcgggtca	12	14	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:39307163C>A	uc002oji.2	-	7	674	c.589G>T	c.(589-591)GAG>TAG	p.E197*	ECH1_uc002ojh.2_Nonsense_Mutation_p.E77*	NM_001398	NP_001389	Q13011	ECH1_HUMAN	peroxisomal enoyl-coenzyme A hydratase-like	197		Important for catalytic activity (By similarity).			fatty acid beta-oxidation|generation of precursor metabolites and energy	mitochondrion|peroxisome	enoyl-CoA hydratase activity|isomerase activity|protein binding			ovary(1)	1	all_cancers(60;9.36e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			ACGTCCACCTCCTGGGGGAGG	0.597													5	63	---	---	---	---	PASS	A	39307163	A	A	39307163	4	1	76	1	0	0	0	0	0	1	0	0	4892	869	30	2	413	2	ECH1	19	39307163	Nonsense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1278639	39307163	19821820	400	29061										
NKPD1	284353	broad.mit.edu	37	chr19	45655260	45655260	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aggccaccggccatagcttgCccctgtgggccaagtcccca	11	17	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:45655260C>A	uc010xxi.1	-	4	2435	c.2435G>T	c.(2434-2436)GGC>GTC	p.G812V		NM_198478	NP_940880			NTPase, KAP family P-loop domain containing 1												0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00863)|GBM - Glioblastoma multiforme(486;0.231)		CCATAGCTTGCCCCTGTGGGC	0.701													4	51	---	---	---	---	PASS	A	45655260	A	A	45655260	3	1	76	1	0	0	0	0	1	0	0	0	10446	739	26	3	67	3	NKPD1	19	45655260	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	6348097	45655260	13473723	401	29062										
SAE1	10055	broad.mit.edu	37	chr19	47700589	47700589	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gatacgaaatgatgtgcttgActcactgggtattagtcctg	11	7	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:47700589A>G	uc002pgc.2	+	7	889	c.833A>G	c.(832-834)GAC>GGC	p.D278G	SAE1_uc002pgd.2_Intron|SAE1_uc010ekx.2_Intron|SAE1_uc010ekw.2_RNA|SAE1_uc010xyk.1_Missense_Mutation_p.D104G|SAE1_uc002pge.2_Missense_Mutation_p.D214G	NM_016402	NP_057486	Q9UBE0	SAE1_HUMAN	SubName: Full=SUMO-1 activating enzyme subunit 1, isoform CRA_b; SubName: Full=cDNA, FLJ96708, Homo sapiens SUMO-1 activating enzyme subunit 1 (SAE1), mRNA;	278					protein sumoylation|protein ubiquitination	nucleus	ATP-dependent protein binding|enzyme activator activity|ligase activity|protein C-terminus binding|protein heterodimerization activity|ubiquitin activating enzyme activity			ovary(1)	1		all_cancers(25;1.13e-05)|all_lung(116;0.000192)|all_epithelial(76;0.000274)|Lung NSC(112;0.000446)|all_neural(266;0.0652)|Ovarian(192;0.15)		all cancers(93;0.00013)|OV - Ovarian serous cystadenocarcinoma(262;0.000146)|Epithelial(262;0.00697)|GBM - Glioblastoma multiforme(486;0.0278)		GATGTGCTTGACTCACTGGGT	0.418													59	234	---	---	---	---	PASS	G	47700589	G	G	47700589	3	3	76	1	0	0	0	0	1	0	0	0	13805	275	10	5	859	5	SAE1	19	47700589	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	2045329	47700589	11428394	402	29063										
C19orf76	199800	broad.mit.edu	37	chr19	50193365	50193365	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cccacgctccctctccaggcGaggccagcaccaggtccccc	9	22	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:50193365G>A	uc002pph.2	+	2	1230	c.77G>A	c.(76-78)CGA>CAA	p.R26Q	CPT1C_uc002ppl.3_5'Flank|CPT1C_uc002ppi.2_5'Flank|CPT1C_uc002ppk.2_5'Flank|CPT1C_uc010eng.2_5'Flank|CPT1C_uc010enh.2_5'Flank|CPT1C_uc002ppj.2_5'Flank|CPT1C_uc010ybc.1_5'Flank	NM_001101340	NP_001094810	C9JUS6	ADM5_HUMAN	hypothetical protein LOC199800	26						extracellular region					0						CTCTCCAGGCGAGGCCAGCAC	0.637											OREG0025628	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	5	---	---	---	---	PASS	A	50193365	A	A	50193365	3	1	76	1	0	0	0	0	1	0	0	0	1950	1058	37	2	83	2	C19orf76	19	50193365	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	2492776	50193365	8935618	403	29064										
SHANK1	50944	broad.mit.edu	37	chr19	51165815	51165815	+	Frame_Shift_Del	DEL	C	-	-													0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gggtgaggtggcccctggggCcgcagcggctgtaggggaga							TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:51165815delC	uc002psx.1	-	23	5912	c.5893delG	c.(5893-5895)GCCfs	p.A1965fs	SHANK1_uc002psw.1_Frame_Shift_Del_p.A1349fs	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1965					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GCCCCTGGGGCCGCAGCGGCT	0.692													9	5	---	---	---	---		-	51165815	-	-	51165815	7	5	76	1	0	1	0	1	0	0	0	0	14264	739	26	0	596	0	SHANK1	19	51165815	Frame_Shift_Del	DEL	C	TCGA-37-3783-01A-01D-1267-08	972450	51165815	7963168	404	29065										
GPR32	2854	broad.mit.edu	37	chr19	51274865	51274865	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tctttgacttctgccctggcGagggcgtttggagaggagga	16	8	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:51274865G>A	uc010ycf.1	+	1	1008	c.1008G>A	c.(1006-1008)GCG>GCA	p.A336A		NM_001506	NP_001497	O75388	GPR32_HUMAN	G protein-coupled receptor 32	336	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		CTGCCCTGGCGAGGGCGTTTG	0.552													21	190	---	---	---	---	PASS	A	51274865	A	A	51274865	2	1	76	1	0	0	0	0	0	0	0	1	6688	1045	37	2		2	GPR32	19	51274865	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	109050	51274865	7854118	405	29066										
ZNF175	7728	broad.mit.edu	37	chr19	52090506	52090506	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atagtgtaggaaacctccatGaatgtggcaaatgtggaaaa	11	5	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:52090506G>T	uc002pxb.2	+	5	1300	c.922G>T	c.(922-924)GAA>TAA	p.E308*		NM_007147	NP_009078	Q9Y473	ZN175_HUMAN	zinc finger protein 175	308	C2H2-type 2; atypical.				response to virus	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000426)|OV - Ovarian serous cystadenocarcinoma(262;0.0257)		AAACCTCCATGAATGTGGCAA	0.438													32	186	---	---	---	---	PASS	T	52090506	T	T	52090506	4	4	76	1	0	0	0	0	0	1	0	0	17742	1291	45	2	936	2	ZNF175	19	52090506	Nonsense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	815641	52090506	7038477	406	29067										
ZNF578	147660	broad.mit.edu	37	chr19	53005153	53005153	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gaaaggagccaggcatggctCttcctcaggtgaagtgatat	13	8	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:53005153C>G	uc002pzp.3	+	4	299	c.55C>G	c.(55-57)CTT>GTT	p.L19V		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	Error:Variant_position_missing_in_Q96N58_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		AGGCATGGCTCTTCCTCAGGT	0.383													32	187	---	---	---	---	PASS	G	53005153	G	G	53005153	3	3	76	1	0	0	0	0	1	0	0	0	18007	913	32	2	57	2	ZNF578	19	53005153	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	914647	53005153	6123830	407	29068										
ZNF578	147660	broad.mit.edu	37	chr19	53015037	53015037	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cagagttttcagtcagaaatCaaaccttgagagacacaaga	8	8	3	5			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:53015037C>G	uc002pzp.3	+	6	1647	c.1403C>G	c.(1402-1404)TCA>TGA	p.S468*		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	243	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		AGTCAGAAATCAAACCTTGAG	0.393													13	86	---	---	---	---	PASS	G	53015037	G	G	53015037	4	3	76	1	0	0	0	0	0	1	0	0	18007	838	29	2	1413	2	ZNF578	19	53015037	Nonsense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	9884	53015037	6113946	408	29069										
CACNG7	59284	broad.mit.edu	37	chr19	54416138	54416138	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gctgagcagcgtgtttggtgCgtgtggcctgctcctggtag	17	9	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:54416138C>A	uc002qcr.1	+	1	68	c.53C>A	c.(52-54)GCG>GAG	p.A18E	CACNG7_uc010era.1_Missense_Mutation_p.A18E	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	18	Helical; (Potential).				regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	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;0.0711)		GTGTTTGGTGCGTGTGGCCTG	0.632													10	70	---	---	---	---	PASS	A	54416138	A	A	54416138	3	1	76	1	0	0	0	0	1	0	0	0	2562	768	27	1	55	1	CACNG7	19	54416138	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1401101	54416138	4712845	409	29070										
PEG3	5178	broad.mit.edu	37	chr19	57327338	57327338	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctgtattcccttccttcagaGgtgttccctccagcacgaac	7	15	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:57327338G>T	uc002qnu.2	-	7	2823	c.2472C>A	c.(2470-2472)ACC>ACA	p.T824T	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.T795T|PEG3_uc002qnv.2_Silent_p.T824T|PEG3_uc002qnw.2_Silent_p.T700T|PEG3_uc002qnx.2_Silent_p.T698T|PEG3_uc010etr.2_Silent_p.T824T	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	824					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TTCCTTCAGAGGTGTTCCCTC	0.453													46	207	---	---	---	---	PASS	T	57327338	T	T	57327338	2	4	76	1	0	0	0	0	0	0	0	1	11720	987	35	3		3	PEG3	19	57327338	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	2911200	57327338	1801645	410	29071										
ZSCAN1	284312	broad.mit.edu	37	chr19	58551845	58551845	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atctctggactcggtcgaacCccaggactggagtttcggtg	13	11	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:58551845C>T	uc002qrc.1	+	4	645	c.398C>T	c.(397-399)CCC>CTC	p.P133L		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	133					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TCGGTCGAACCCCAGGACTGG	0.612													41	458	---	---	---	---	PASS	T	58551845	T	T	58551845	3	4	76	1	0	0	0	0	1	0	0	0	18223	623	22	3	404	3	ZSCAN1	19	58551845	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1224507	58551845	577138	411	29072										
ZSCAN18	65982	broad.mit.edu	37	chr19	58601475	58601475	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agcctcctggtagacaaattCccggaaacgcaggcgggaga	13	11	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr19:58601475C>A	uc002qri.2	-	2	469	c.160G>T	c.(160-162)GAA>TAA	p.E54*	ZSCAN18_uc002qrj.3_Nonsense_Mutation_p.E54*|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Nonsense_Mutation_p.E54*|ZSCAN18_uc010yht.1_Nonsense_Mutation_p.E110*|ZSCAN18_uc002qrk.1_Nonsense_Mutation_p.E54*|ZSCAN18_uc002qrl.2_Nonsense_Mutation_p.E54*	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	54	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TAGACAAATTCCCGGAAACGC	0.677													4	101	---	---	---	---	PASS	A	58601475	A	A	58601475	4	1	76	1	0	0	0	0	0	1	0	0	18227	864	30	2	1396	2	ZSCAN18	19	58601475	Nonsense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	49630	58601475	527508	412	29073										
HAO1	54363	broad.mit.edu	37	chr20	7886903	7886903	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tattgctttagccacatatgCagcaagtccactgtcgtctc	7	12	1	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr20:7886903C>T	uc002wmw.1	-	4	643	c.619G>A	c.(619-621)GCA>ACA	p.A207T	HAO1_uc010gbu.2_Missense_Mutation_p.A207T	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	207	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						GCCACATATGCAGCAAGTCCA	0.373													58	161	---	---	---	---	PASS	T	7886903	T	T	7886903	3	4	76	1	0	0	0	0	1	0	0	0	6951	710	25	3	513	3	HAO1	20	7886903	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08		7886903	55138617	413	29074										
MACROD2	140733	broad.mit.edu	37	chr20	15480442	15480442	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttcccaacgagcctgctgcaGtcattgccctcaacaccatt	6	16	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr20:15480442G>T	uc002wou.2	+	8	859	c.595G>T	c.(595-597)GTC>TTC	p.V199F	MACROD2_uc002wot.2_Missense_Mutation_p.V199F|MACROD2_uc002woz.2_5'UTR	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	199	Macro.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				GCCTGCTGCAGTCATTGCCCT	0.438													10	68	---	---	---	---	PASS	T	15480442	T	T	15480442	3	4	76	1	0	0	0	0	1	0	0	0	9146	1029	36	3	625	3	MACROD2	20	15480442	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	7593539	15480442	47545078	414	29075										
SUN5	140732	broad.mit.edu	37	chr20	31590418	31590418	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	catcccagcatgcactgagtCaggcctagggcttggtcatt	11	12	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr20:31590418C>G	uc002wyi.2	-	3	279	c.186G>C	c.(184-186)CTG>CTC	p.L62L		NM_080675	NP_542406	Q8TC36	SUN5_HUMAN	sperm associated antigen 4-like	62					spermatogenesis					skin(1)	1						TGCACTGAGTCAGGCCTAGGG	0.532													22	110	---	---	---	---	PASS	G	31590418	G	G	31590418	2	3	76	1	0	0	0	0	0	0	0	1	15391	813	29	2		2	SUN5	20	31590418	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	16109976	31590418	31435102	415	29076										
FAM83C	128876	broad.mit.edu	37	chr20	33876708	33876708	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cgccggcttgaggcctccatGaggtcacacagaagctccat	11	14	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr20:33876708G>C	uc010zux.1	-	2	685	c.567C>G	c.(565-567)CTC>CTG	p.L189L	FAM83C_uc002xcb.1_Silent_p.L13L	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	189										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			AGGCCTCCATGAGGTCACACA	0.597													68	194	---	---	---	---	PASS	C	33876708	C	C	33876708	2	2	76	1	0	0	0	0	0	0	0	1	5635	1277	45	2		2	FAM83C	20	33876708	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	2286290	33876708	29148812	416	29077										
RBM12	10137	broad.mit.edu	37	chr20	34241396	34241396	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atcttctagggtaactacatGaacaaaagcttctctcccat	5	11	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr20:34241396G>A	uc002xdq.2	-	3	2081	c.1849C>T	c.(1849-1851)CAT>TAT	p.H617Y	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.H617Y|RBM12_uc002xds.2_Missense_Mutation_p.H617Y	NM_152838	NP_690051	Q9NTZ6	RBM12_HUMAN	RNA binding motif protein 12	617						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)			GTAACTACATGAACAAAAGCT	0.418													79	421	---	---	---	---	PASS	A	34241396	A	A	34241396	3	1	76	1	0	0	0	0	1	0	0	0	13113	1290	45	2	953	2	RBM12	20	34241396	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	364688	34241396	28784124	417	29078										
PLCG1	5335	broad.mit.edu	37	chr20	39794432	39794432	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccttcctcgtgcgagagagtGagaccttcgtgggcgactac	13	12	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr20:39794432G>C	uc002xjp.1	+	16	1886	c.1765G>C	c.(1765-1767)GAG>CAG	p.E589Q	PLCG1_uc002xjo.1_Missense_Mutation_p.E589Q|PLCG1_uc010zwe.1_Missense_Mutation_p.E215Q|PLCG1_uc010ggf.2_5'Flank	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	589	SH2 1.				activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				GCGAGAGAGTGAGACCTTCGT	0.582													20	132	---	---	---	---	PASS	C	39794432	C	C	39794432	3	2	76	1	0	0	0	0	1	0	0	0	12035	1291	45	2	1827	2	PLCG1	20	39794432	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	5553036	39794432	23231088	418	29079										
GDAP1L1	78997	broad.mit.edu	37	chr20	42907914	42907914	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggatgggctactttgcctacTggtacctcaagaaaaaatac	9	9	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr20:42907914T>C	uc002xlq.2	+	6	1145	c.1078T>C	c.(1078-1080)TGG>CGG	p.W360R	GDAP1L1_uc010zwl.1_Missense_Mutation_p.W379R|GDAP1L1_uc010zwm.1_Missense_Mutation_p.W302R|GDAP1L1_uc010zwn.1_Missense_Mutation_p.W168R	NM_024034	NP_076939	Q96MZ0	GD1L1_HUMAN	ganglioside-induced differentiation-associated	360										large_intestine(1)	1		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			CTTTGCCTACTGGTACCTCAA	0.562													34	190	---	---	---	---	PASS	C	42907914	C	C	42907914	3	2	76	1	0	0	0	0	1	0	0	0	6308	1580	55	5	1100	5	GDAP1L1	20	42907914	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	3113482	42907914	20117606	419	29080										
WFDC8	90199	broad.mit.edu	37	chr20	44180702	44180702	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tacatttcagtccacaatgtGagcagcacttttccaccaat	5	12	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr20:44180702G>C	uc002xow.2	-	6	768	c.689C>G	c.(688-690)TCA>TGA	p.S230*	WFDC8_uc002xox.2_Nonsense_Mutation_p.S230*	NM_181510	NP_852611	Q8IUA0	WFDC8_HUMAN	WAP four-disulfide core domain 8 precursor	230	WAP 3.					extracellular region	serine-type endopeptidase inhibitor activity				0		Myeloproliferative disorder(115;0.0122)				TCCACAATGTGAGCAGCACTT	0.413													46	201	---	---	---	---	PASS	C	44180702	C	C	44180702	4	2	76	1	0	0	0	0	0	1	0	0	17353	1294	45	2	40	2	WFDC8	20	44180702	Nonsense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	1272788	44180702	18844818	420	29081										
ARFGEF2	10564	broad.mit.edu	37	chr20	47587750	47587750	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttcaggactcacgagatgttCatcaatgcaatcaagcaata	7	9	5	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr20:47587750C>T	uc002xtx.3	+	10	1436	c.1284C>T	c.(1282-1284)TTC>TTT	p.F428F		NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	428					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			ACGAGATGTTCATCAATGCAA	0.493													10	291	---	---	---	---	PASS	T	47587750	T	T	47587750	2	4	76	1	0	0	0	0	0	0	0	1	853	825	29	2		2	ARFGEF2	20	47587750	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	3407048	47587750	15437770	421	29082										
SYCP2	10388	broad.mit.edu	37	chr20	58442822	58442822	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtaagtctcataagtcatctCtatccctgcaaattcatttt	4	10	4	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr20:58442822C>G	uc002yaz.2	-	38	4208	c.4069G>C	c.(4069-4071)GAG>CAG	p.E1357Q		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	1357					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			TAAGTCATCTCTATCCCTGCA	0.303													9	44	---	---	---	---	PASS	G	58442822	G	G	58442822	3	3	76	1	0	0	0	0	1	0	0	0	15429	922	32	2	551	2	SYCP2	20	58442822	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	10855072	58442822	4582698	422	29083										
LAMA5	3911	broad.mit.edu	37	chr20	60895861	60895861	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gccatggagctggcattgatGccacgcagttgctcgtgaat	13	10	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr20:60895861G>A	uc002ycq.2	-	49	6649	c.6582C>T	c.(6580-6582)GGC>GGT	p.G2194G		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2194	Domain II and I.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGGCATTGATGCCACGCAGTT	0.657													36	91	---	---	---	---	PASS	A	60895861	A	A	60895861	2	1	76	1	0	0	0	0	0	0	0	1	8609	1306	46	3		3	LAMA5	20	60895861	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	2453039	60895861	2129659	423	29084										
LAMA5	3911	broad.mit.edu	37	chr20	60905967	60905967	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctgaggatgatgggctggggCggctttgggaagcgcgaggg	22	6	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr20:60905967C>T	uc002ycq.2	-	30	3751	c.3684G>A	c.(3682-3684)CCG>CCA	p.P1228P		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	1228	Domain IV 1 (domain IV B).				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGGGCTGGGGCGGCTTTGGGA	0.721													4	4	---	---	---	---	PASS	T	60905967	T	T	60905967	2	4	76	1	0	0	0	0	0	0	0	1	8609	755	27	1		1	LAMA5	20	60905967	Silent	SNP	C	TCGA-37-3783-01A-01D-1267-08	10106	60905967	2119553	424	29085										
BTG3	10950	broad.mit.edu	37	chr21	18981390	18981390	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agcaaacctctcaactgcctCttttttcaacttatcatgtt	3	12	4	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr21:18981390C>G	uc002ykk.2	-	2	333	c.73G>C	c.(73-75)GAG>CAG	p.E25Q	BTG3_uc002ykl.2_Missense_Mutation_p.E25Q	NM_006806	NP_006797	Q14201	BTG3_HUMAN	B-cell translocation gene 3 isoform b	25					negative regulation of cell proliferation|negative regulation of mitotic cell cycle	cytoplasm					0				Epithelial(23;0.000283)|all cancers(11;0.0012)|Lung(58;0.0191)|OV - Ovarian serous cystadenocarcinoma(11;0.0206)|COAD - Colon adenocarcinoma(22;0.0315)|LUSC - Lung squamous cell carcinoma(23;0.0703)|Colorectal(24;0.0971)		TCAACTGCCTCTTTTTTCAAC	0.358													33	176	---	---	---	---	PASS	G	18981390	G	G	18981390	3	3	76	1	0	0	0	0	1	0	0	0	1555	922	32	2	837	2	BTG3	21	18981390	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08		18981390	29148505	425	29086										
N6AMT1	29104	broad.mit.edu	37	chr21	30254502	30254502	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	caaatctgtaataactggttGaatgtgaactttgttacagc	8	6	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr21:30254502G>C	uc002ymo.1	-	3	318	c.292C>G	c.(292-294)CAA>GAA	p.Q98E	N6AMT1_uc002ymp.1_Missense_Mutation_p.Q98E|N6AMT1_uc002ymq.1_RNA	NM_013240	NP_037372	Q9Y5N5	HEMK2_HUMAN	N-6 adenine-specific DNA methyltransferase 1	98					positive regulation of cell growth	protein complex	nucleic acid binding|protein binding|protein methyltransferase activity				0						ATAACTGGTTGAATGTGAACT	0.353													29	97	---	---	---	---	PASS	C	30254502	C	C	30254502	3	2	76	1	0	0	0	0	1	0	0	0	10114	1299	45	2	368	2	N6AMT1	21	30254502	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	11273112	30254502	17875393	426	29087										
SLC5A3	6526	broad.mit.edu	37	chr21	35467886	35467886	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggtctattttgcagccttgtCtctgattctctatattttca	6	9	4	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr21:35467886C>G	uc002yto.2	+	2	901	c.389C>G	c.(388-390)TCT>TGT	p.S130C	MRPS6_uc002ytp.2_Intron	NM_006933	NP_008864	P53794	SC5A3_HUMAN	solute carrier family 5 (inositol transporters),	130	Helical; (Potential).					integral to plasma membrane	myo-inositol:sodium symporter activity			ovary(2)	2						GCAGCCTTGTCTCTGATTCTC	0.443													70	343	---	---	---	---	PASS	G	35467886	G	G	35467886	3	3	76	1	0	0	0	0	1	0	0	0	14666	913	32	2	391	2	SLC5A3	21	35467886	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	5213384	35467886	12662009	427	29088										
DOPEY2	9980	broad.mit.edu	37	chr21	37581181	37581181	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cgggagcagaagtacatgctGgggaccaatcaccaactcac	11	12	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr21:37581181G>T	uc002yvg.2	+	5	739	c.660G>T	c.(658-660)CTG>CTT	p.L220L	DOPEY2_uc011aeb.1_Silent_p.L220L	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	220					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						AGTACATGCTGGGGACCAATC	0.637													9	73	---	---	---	---	PASS	T	37581181	T	T	37581181	2	4	76	1	0	0	0	0	0	0	0	1	4708	1335	47	3		3	DOPEY2	21	37581181	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	2113295	37581181	10548714	428	29089										
SEZ6L	23544	broad.mit.edu	37	chr22	26694977	26694977	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gctgagctgcaactttccccGccggcctgactctggggatg	13	14	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr22:26694977G>A	uc003acb.2	+	5	1346	c.1190G>A	c.(1189-1191)CGC>CAC	p.R397H	SEZ6L_uc003acc.2_Missense_Mutation_p.R397H|SEZ6L_uc011akc.1_Missense_Mutation_p.R397H|SEZ6L_uc003acd.2_Missense_Mutation_p.R397H|SEZ6L_uc011akd.1_Missense_Mutation_p.R397H|SEZ6L_uc003ace.2_Missense_Mutation_p.R397H|SEZ6L_uc003acf.1_Missense_Mutation_p.R170H|SEZ6L_uc010gvc.1_Missense_Mutation_p.R170H	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	397	Sushi 1.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						AACTTTCCCCGCCGGCCTGAC	0.587													23	70	---	---	---	---	PASS	A	26694977	A	A	26694977	3	1	76	1	0	0	0	0	1	0	0	0	14143	1087	38	1	1208	1	SEZ6L	22	26694977	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08		26694977	24609589	429	29090										
MFNG	4242	broad.mit.edu	37	chr22	37882168	37882168	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	cacaggagccccatgcacagGagggtgaggagggctccagc	16	12	0	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr22:37882168G>C	uc003ass.1	-	1	218	c.48C>G	c.(46-48)CTC>CTG	p.L16L	MFNG_uc011ani.1_5'UTR|MFNG_uc011anj.1_Silent_p.L16L|CARD10_uc003ast.1_Intron	NM_002405	NP_002396	O00587	MFNG_HUMAN	O-fucosylpeptide	16	Helical; Signal-anchor for type II membrane protein; (Potential).				pattern specification process	extracellular space|integral to Golgi membrane	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity			lung(1)	1	Melanoma(58;0.0574)					CCATGCACAGGAGGGTGAGGA	0.687													5	64	---	---	---	---	PASS	C	37882168	C	C	37882168	2	2	76	1	0	0	0	0	0	0	0	1	9525	1161	41	2		2	MFNG	22	37882168	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	11187191	37882168	13422398	430	29091										
EP300	2033	broad.mit.edu	37	chr22	41521907	41521907	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccaatccttatggttcaccaTatactcagaatcctggacag	6	12	2	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr22:41521907T>G	uc003azl.3	+	3	1164	c.769T>G	c.(769-771)TAT>GAT	p.Y257D		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	257					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						TGGTTCACCATATACTCAGAA	0.358			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				29	153	---	---	---	---	PASS	G	41521907	G	G	41521907	3	3	76	1	0	0	0	0	1	0	0	0	5148	1406	49	5	779	5	EP300	22	41521907	Missense_Mutation	SNP	T	TCGA-37-3783-01A-01D-1267-08	3639739	41521907	9782659	431	29092										
EP300	2033	broad.mit.edu	37	chr22	41565575	41565575	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atgcttgaggactgcagtctAtcatgaaatcctaattggat	9	7	2	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr22:41565575A>G	uc003azl.3	+	26	4636	c.4241A>G	c.(4240-4242)TAT>TGT	p.Y1414C		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1414					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						ACTGCAGTCTATCATGAAATC	0.333			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				12	55	---	---	---	---	PASS	G	41565575	G	G	41565575	3	3	76	1	0	0	0	0	1	0	0	0	5148	449	16	5	4343	5	EP300	22	41565575	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	43668	41565575	9738991	432	29093										
SHANK3	85358	broad.mit.edu	37	chr22	51137207	51137207	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	actgcgtggaggaagtgcagAtgaggcagcatgacacacgg	16	8	0	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chr22:51137207A>G	uc003bne.1	+	13	1636	c.1636A>G	c.(1636-1638)ATG>GTG	p.M546V	SHANK3_uc003bnf.1_Missense_Mutation_p.M1V	NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	546										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		GGAAGTGCAGATGAGGCAGCA	0.637													7	85	---	---	---	---	PASS	G	51137207	G	G	51137207	3	3	76	1	0	0	0	0	1	0	0	0	14266	333	12	5	1686	5	SHANK3	22	51137207	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	9571632	51137207	167359	433	29094										
ATXN3L	92552	broad.mit.edu	37	chrX	13337077	13337077	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgccttcactgatgtcatcaCtgagatcactctcaattgct	6	12	5	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:13337077C>G	uc010ned.2	-	1	1442	c.977G>C	c.(976-978)AGT>ACT	p.S326T		NM_001135995	NP_001129467	Q9H3M9	ATX3L_HUMAN	ataxin 3-like	326					protein deubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ubiquitin-specific protease activity			lung(2)|ovary(2)|large_intestine(1)|skin(1)	6						GATGTCATCACTGAGATCACT	0.433													33	118	---	---	---	---	PASS	G	13337077	G	G	13337077	3	3	76	1	0	0	0	0	1	0	0	0	1214	565	20	4	94	4	ATXN3L	23	13337077	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08		13337077	141933483	434	29095										
PIR	8544	broad.mit.edu	37	chrX	15509309	15509309	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggtctgccaatgcttctccgGaccctcgctccaaccccttc	7	19	2	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:15509309G>C	uc004cwu.2	-	2	310	c.72C>G	c.(70-72)GTC>GTG	p.V24V	PIR_uc004cwv.2_Silent_p.V24V|BMX_uc004cww.2_Intron	NM_003662	NP_003653	O00625	PIR_HUMAN	pirin	24				V -> D (in Ref. 2; CAG46621).	transcription from RNA polymerase II promoter	cytoplasm|nucleus	metal ion binding|protein binding|quercetin 2,3-dioxygenase activity|transcription cofactor activity			ovary(1)	1	Hepatocellular(33;0.183)					TGCTTCTCCGGACCCTCGCTC	0.522													62	142	---	---	---	---	PASS	C	15509309	C	C	15509309	2	2	76	1	0	0	0	0	0	0	0	1	11944	1161	41	2		2	PIR	23	15509309	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	2172232	15509309	139761251	435	29096										
PHEX	5251	broad.mit.edu	37	chrX	22095795	22095795	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	gtatgtgtcccctgatgacaAagcatccaatgaacatatct	7	10	1	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:22095795A>G	uc004dah.2	+	5	841	c.638A>G	c.(637-639)AAA>AGA	p.K213R	PHEX_uc011mjr.1_Missense_Mutation_p.K213R|PHEX_uc011mjs.1_Missense_Mutation_p.K116R	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	213	Extracellular (Potential).				biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						CCTGATGACAAAGCATCCAAT	0.448													58	114	---	---	---	---	PASS	G	22095795	G	G	22095795	3	3	76	1	0	0	0	0	1	0	0	0	11819	14	1	5	656	5	PHEX	23	22095795	Missense_Mutation	SNP	A	TCGA-37-3783-01A-01D-1267-08	6586486	22095795	133174765	436	29097										
PTCHD1	139411	broad.mit.edu	37	chrX	23411489	23411489	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	atgttgaggaattcctttctGaaagcccctcaattttcaca	6	10	3	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:23411489G>A	uc004dal.3	+	3	1862	c.1854G>A	c.(1852-1854)CTG>CTA	p.L618L		NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	618					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						ATTCCTTTCTGAAAGCCCCTC	0.388													50	76	---	---	---	---	PASS	A	23411489	A	A	23411489	2	1	76	1	0	0	0	0	0	0	0	1	12732	1277	45	2		2	PTCHD1	23	23411489	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	1315694	23411489	131859071	437	29098										
ZNF81	347344	broad.mit.edu	37	chrX	47774728	47774728	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tgggcatggtcaagtttttaCccagaactcttcttatagtc	8	9	3	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:47774728C>T	uc010nhy.1	+	6	1051	c.683C>T	c.(682-684)ACC>ATC	p.T228I		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	228						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				CAAGTTTTTACCCAGAACTCT	0.368													20	43	---	---	---	---	PASS	T	47774728	T	T	47774728	3	4	76	1	0	0	0	0	1	0	0	0	18171	507	18	3	697	3	ZNF81	23	47774728	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	24363239	47774728	107495832	438	29099										
CLCN5	1184	broad.mit.edu	37	chrX	49854835	49854835	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttgaactgactggtggcttaGaatacatcgtgcctctgatg	11	8	1	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:49854835G>C	uc004dos.1	+	10	1845	c.1597G>C	c.(1597-1599)GAA>CAA	p.E533Q	CLCN5_uc004dor.1_Missense_Mutation_p.E603Q|CLCN5_uc004doq.1_Missense_Mutation_p.E603Q|CLCN5_uc004dot.1_Missense_Mutation_p.E533Q	NM_000084	NP_000075	P51795	CLCN5_HUMAN	chloride channel 5 isoform b	533					excretion	apical part of cell|endosome membrane|Golgi membrane|integral to plasma membrane	antiporter activity|ATP binding			ovary(2)|lung(1)|central_nervous_system(1)	4	Ovarian(276;0.236)					TGGTGGCTTAGAATACATCGT	0.502													5	222	---	---	---	---	PASS	C	49854835	C	C	49854835	3	2	76	1	0	0	0	0	1	0	0	0	3466	943	33	2	1849	2	CLCN5	23	49854835	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	2080107	49854835	105415725	439	29100										
ITIH5L	347365	broad.mit.edu	37	chrX	54784061	54784061	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tagtgggtacttgggaacctGaagtgtagagactccaggtc	14	7	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:54784061G>A	uc004dtj.2	-	8	2476	c.2446C>T	c.(2446-2448)CAG>TAG	p.Q816*		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	816	Pro-rich.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						TTGGGAACCTGAAGTGTAGAG	0.562													49	73	---	---	---	---	PASS	A	54784061	A	A	54784061	4	1	76	1	0	0	0	0	0	1	0	0	7908	1299	45	2	1519	2	ITIH5L	23	54784061	Nonsense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	4929226	54784061	100486499	440	29101										
STARD8	9754	broad.mit.edu	37	chrX	67937404	67937404	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctcaagcaccttgaatctctGaggcggaaggaaaagagtgg	13	8	2	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:67937404G>C	uc004dxa.2	+	5	780	c.408G>C	c.(406-408)CTG>CTC	p.L136L	STARD8_uc004dxb.2_Silent_p.L216L|STARD8_uc004dxc.3_Silent_p.L136L	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	136					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						TTGAATCTCTGAGGCGGAAGG	0.592													28	41	---	---	---	---	PASS	C	67937404	C	C	67937404	2	2	76	1	0	0	0	0	0	0	0	1	15262	1277	45	2		2	STARD8	23	67937404	Silent	SNP	G	TCGA-37-3783-01A-01D-1267-08	13153343	67937404	87333156	441	29102										
STARD8	9754	broad.mit.edu	37	chrX	67937591	67937591	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ccaatactcggaaggcctggGaggcctggcctgtggcctcg	15	13	0	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:67937591G>T	uc004dxa.2	+	5	967	c.595G>T	c.(595-597)GAG>TAG	p.E199*	STARD8_uc004dxb.2_Nonsense_Mutation_p.E279*|STARD8_uc004dxc.3_Nonsense_Mutation_p.E199*	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	199					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						GAAGGCCTGGGAGGCCTGGCC	0.632													16	40	---	---	---	---	PASS	T	67937591	T	T	67937591	4	4	76	1	0	0	0	0	0	1	0	0	15262	1175	41	2	857	2	STARD8	23	67937591	Nonsense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	187	67937591	87332969	442	29103										
OGT	8473	broad.mit.edu	37	chrX	70777517	70777517	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ggcacggcaacctgtgcttaGataaggtgtgattcttttgt	12	7	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:70777517G>C	uc004eaa.1	+	12	1814	c.1597G>C	c.(1597-1599)GAT>CAT	p.D533H	BCYRN1_uc011mpt.1_Intron|OGT_uc004eab.1_Missense_Mutation_p.D523H|OGT_uc004eac.2_Missense_Mutation_p.D394H|OGT_uc004ead.2_Missense_Mutation_p.D152H	NM_181672	NP_858058	O15294	OGT1_HUMAN	O-linked GlcNAc transferase isoform 1	533					cellular response to retinoic acid|positive regulation of granulocyte differentiation|positive regulation of histone H3-K4 methylation|positive regulation of proteolysis|protein O-linked glycosylation|signal transduction	cytosol|MLL5-L complex	enzyme activator activity|protein binding|protein N-acetylglucosaminyltransferase activity			ovary(3)|kidney(1)|pancreas(1)	5	Renal(35;0.156)					CCTGTGCTTAGATAAGGTGTG	0.269													15	31	---	---	---	---	PASS	C	70777517	C	C	70777517	3	2	76	1	0	0	0	0	1	0	0	0	10847	942	33	2	1643	2	OGT	23	70777517	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	2839926	70777517	84493043	443	29104										
CPXCR1	53336	broad.mit.edu	37	chrX	88008729	88008729	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	aaaattggtctctcacaagcCcttaaatgatagatcaagat	6	8	3	3			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:88008729C>A	uc004efd.3	+	3	573	c.314C>A	c.(313-315)CCC>CAC	p.P105H	CPXCR1_uc004efc.3_Missense_Mutation_p.P105H	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	105						intracellular	zinc ion binding			ovary(3)	3						TCTCACAAGCCCTTAAATGAT	0.398													11	24	---	---	---	---	PASS	A	88008729	A	A	88008729	3	1	76	1	0	0	0	0	1	0	0	0	3836	623	22	3	316	3	CPXCR1	23	88008729	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	17231212	88008729	67261831	444	29105										
CENPI	2491	broad.mit.edu	37	chrX	100382613	100382613	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	catttccactagaacaacttCaaagcttcccccaactttta	2	14	1	1			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:100382613C>G	uc004egx.2	+	10	1303	c.1033C>G	c.(1033-1035)CAA>GAA	p.Q345E	CENPI_uc011mrg.1_Missense_Mutation_p.Q345E|CENPI_uc004egy.2_Missense_Mutation_p.Q345E	NM_006733	NP_006724	Q92674	CENPI_HUMAN	centromere protein I	345					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	cytosol|kinetochore|nucleoplasm	protein binding			skin(1)	1						AGAACAACTTCAAAGCTTCCC	0.373													41	84	---	---	---	---	PASS	G	100382613	G	G	100382613	3	3	76	1	0	0	0	0	1	0	0	0	3233	827	29	2	1067	2	CENPI	23	100382613	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	12373884	100382613	54887947	445	29106										
NXF5	55998	broad.mit.edu	37	chrX	101096040	101096040	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	tggcagccatgcagtttcttCgattcaggattatatcaatg	9	8	3	0			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:101096040C>T	uc011mrk.1	-	8	788	c.428G>A	c.(427-429)CGA>CAA	p.R143Q	NXF5_uc004eih.1_RNA|NXF5_uc004eii.1_RNA|NXF5_uc004eij.1_RNA|NXF5_uc004eik.1_RNA|NXF5_uc004eil.1_RNA	NM_032946	NP_116564	Q9H1B4	NXF5_HUMAN	nuclear RNA export factor 5	143					mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nucleus	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						GCAGTTTCTTCGATTCAGGAT	0.522													28	79	---	---	---	---	PASS	T	101096040	T	T	101096040	3	4	76	1	0	0	0	0	1	0	0	0	10786	884	31	2	705	2	NXF5	23	101096040	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	713427	101096040	54174520	446	29107										
FAM127A	8933	broad.mit.edu	37	chrX	134166519	134166519	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ttcccgagacgtttgacggcGataccgaccgactcccggag	12	14	0	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:134166519G>C	uc004eyd.2	+	1	187	c.106G>C	c.(106-108)GAT>CAT	p.D36H	uc004eye.1_RNA	NM_001078171	NP_001071639	A6ZKI3	F127A_HUMAN	family with sequence similarity 127, member A	36											0	Acute lymphoblastic leukemia(192;0.000127)					GTTTGACGGCGATACCGACCG	0.622													41	120	---	---	---	---	PASS	C	134166519	C	C	134166519	3	2	76	1	0	0	0	0	1	0	0	0	5431	1058	37	2	108	2	FAM127A	23	134166519	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	33070479	134166519	21104041	447	29108										
RBMX	27316	broad.mit.edu	37	chrX	135958712	135958712	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	ctggtcctgaaggtgcagatCtcttaggaggaggaccccca	13	11	1	2			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:135958712C>G	uc004fae.1	-	5	701	c.491G>C	c.(490-492)AGA>ACA	p.R164T	RBMX_uc004fac.1_5'Flank|RBMX_uc011mwf.1_Intron|RBMX_uc004fad.1_Missense_Mutation_p.R164T|RBMX_uc011mwg.1_Missense_Mutation_p.R125T|RBMX_uc004faf.1_Missense_Mutation_p.R25T|RBMX_uc010nsf.1_Missense_Mutation_p.R125T|RBMX_uc004fag.1_Missense_Mutation_p.R36T	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	164						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					AGGTGCAGATCTCTTAGGAGG	0.463													46	86	---	---	---	---	PASS	G	135958712	G	G	135958712	3	3	76	1	0	0	0	0	1	0	0	0	13151	913	32	2	759	2	RBMX	23	135958712	Missense_Mutation	SNP	C	TCGA-37-3783-01A-01D-1267-08	1792193	135958712	19311848	448	29109										
SLITRK2	84631	broad.mit.edu	37	chrX	144904016	144904016	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.370786516853933	165	6.30871182514386e-51	3.49894543594487	4.31625635457016	2.87645863164305	0.295607870092274	0.707062067653142	118	agacagagagtcgcaaaactGccaaagacatttgcaagatc	9	9	0	4			TCGA-37-3783-01A-01D-1267-08	TCGA-37-3783-10A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	711e9b21-bd8c-4058-a0ce-5ff4dc23b527	6877de41-4eb8-4fce-8606-f8f1a0bbedb0	g.chrX:144904016G>C	uc004fcd.2	+	5	1063	c.73G>C	c.(73-75)GCC>CCC	p.A25P	SLITRK2_uc010nsp.2_Missense_Mutation_p.A25P|SLITRK2_uc010nso.2_Missense_Mutation_p.A25P|SLITRK2_uc011mwq.1_Missense_Mutation_p.A25P|SLITRK2_uc011mwr.1_Missense_Mutation_p.A25P|SLITRK2_uc011mws.1_Missense_Mutation_p.A25P|SLITRK2_uc004fcg.2_Missense_Mutation_p.A25P|SLITRK2_uc011mwt.1_Missense_Mutation_p.A25P	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	25	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					TCGCAAAACTGCCAAAGACAT	0.478													22	43	---	---	---	---	PASS	C	144904016	C	C	144904016	3	2	76	1	0	0	0	0	1	0	0	0	14743	1319	46	4	75	4	SLITRK2	23	144904016	Missense_Mutation	SNP	G	TCGA-37-3783-01A-01D-1267-08	8945304	144904016	10366544	449	29110										
PEX10	5192	broad.mit.edu	37	chr1	2340172	2340172	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagggggagcagggccttgtCcagcaggtagggcaggacgg	20	9	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:2340172C>G	uc001ajh.2	-	3	388	c.319G>C	c.(319-321)GAC>CAC	p.D107H	PEX10_uc001ajg.2_Missense_Mutation_p.D107H	NM_002617	NP_002608	O60683	PEX10_HUMAN	peroxisome biogenesis factor 10 isoform 2	107					protein import into peroxisome matrix|protein import into peroxisome matrix	integral to peroxisomal membrane|peroxisomal membrane	protein binding|protein C-terminus binding|zinc ion binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(77;0.000247)|all_epithelial(69;9.96e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;5.35e-20)|all_lung(118;2.78e-08)|Lung NSC(185;2.69e-06)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;1.1e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.02e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00102)|BRCA - Breast invasive adenocarcinoma(365;0.00435)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0169)|Lung(427;0.199)		AGGGCCTTGTCCAGCAGGTAG	0.687													7	22	---	---	---	---	PASS	G	2340172	G	G	2340172	3	3	77	1	0	0	0	0	1	0	0	0	11736	855	30	2	737	2	PEX10	1	2340172	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08		2340172	246910449	1	29111										
PRAMEF2	65122	broad.mit.edu	37	chr1	12921252	12921252	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agctctgctagagaaaattgCtgcctctctcgagaccctcg	9	13	2	2	rs150748226	by1000genomes	TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:12921252C>A	uc001aum.1	+	4	1130	c.1043C>A	c.(1042-1044)GCT>GAT	p.A348D		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	348	LRR 2.										0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GAGAAAATTGCTGCCTCTCTC	0.557													45	107	---	---	---	---	PASS	A	12921252	A	A	12921252	3	1	77	1	0	0	0	0	1	0	0	0	12435	797	28	3	1053	3	PRAMEF2	1	12921252	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	10581080	12921252	236329369	2	29112										
PRAMEF4	400735	broad.mit.edu	37	chr1	12942116	12942116	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acacagtcaagggctgccgtCctctcatccttggacagtcc	9	15	2	0	rs145911043	byFrequency	TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:12942116C>T	uc001aun.2	-	3	505	c.434G>A	c.(433-435)GGA>GAA	p.G145E		NM_001009611	NP_001009611	O60810	PRAM4_HUMAN	PRAME family member 4	145										ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GGGCTGCCGTCCTCTCATCCT	0.502													61	205	---	---	---	---	PASS	T	12942116	T	T	12942116	3	4	77	1	0	0	0	0	1	0	0	0	12437	855	30	2	1010	2	PRAMEF4	1	12942116	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	20864	12942116	236308505	3	29113										
DNAJC16	23341	broad.mit.edu	37	chr1	15894409	15894409	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcatggagcgtgactacactGgttatgtactggctctgaat	11	8	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:15894409G>T	uc001aws.2	+	15	2206	c.2086G>T	c.(2086-2088)GGT>TGT	p.G696C	DNAJC16_uc001awt.2_Missense_Mutation_p.G384C|DNAJC16_uc001awu.2_RNA	NM_015291	NP_056106	Q9Y2G8	DJC16_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 16	696	Extracellular (Potential).				cell redox homeostasis|protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			urinary_tract(1)|lung(1)|kidney(1)	3		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00173)|all_lung(284;0.00459)|Lung NSC(340;0.00499)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		TGACTACACTGGTTATGTACT	0.443													8	175	---	---	---	---	PASS	T	15894409	T	T	15894409	3	4	77	1	0	0	0	0	1	0	0	0	4635	1348	47	3	2140	3	DNAJC16	1	15894409	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2952293	15894409	233356212	4	29114										
UBR4	23352	broad.mit.edu	37	chr1	19403254	19403254	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cggccacatcgaggaactctGagaaggtctccactggcatg	12	12	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:19403254G>A	uc001bbi.2	-	105	15471	c.15467C>T	c.(15466-15468)TCA>TTA	p.S5156L	UBR4_uc001bbe.1_5'Flank|UBR4_uc001bbf.2_Missense_Mutation_p.S51L|UBR4_uc010ocv.1_Missense_Mutation_p.S679L|UBR4_uc009vph.2_Missense_Mutation_p.S811L|UBR4_uc010ocw.1_Missense_Mutation_p.S820L|UBR4_uc001bbg.2_Missense_Mutation_p.S867L|UBR4_uc001bbh.2_Missense_Mutation_p.S865L	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	5156					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GAGGAACTCTGAGAAGGTCTC	0.527													98	237	---	---	---	---	PASS	A	19403254	A	A	19403254	3	1	77	1	0	0	0	0	1	0	0	0	16901	1294	45	2	92	2	UBR4	1	19403254	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3508845	19403254	229847367	5	29115										
UBR4	23352	broad.mit.edu	37	chr1	19492186	19492186	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cctccatagctttacgagccTggctactttccagctgcttt	7	14	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:19492186T>A	uc001bbi.2	-	30	4179	c.4175A>T	c.(4174-4176)CAG>CTG	p.Q1392L	UBR4_uc001bbm.1_Missense_Mutation_p.Q603L	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	1392					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TTTACGAGCCTGGCTACTTTC	0.433													15	46	---	---	---	---	PASS	A	19492186	A	A	19492186	3	1	77	1	0	0	0	0	1	0	0	0	16901	1580	55	5	11684	5	UBR4	1	19492186	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	88932	19492186	229758435	6	29116										
MATN1	4146	broad.mit.edu	37	chr1	31188829	31188829	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcagtgaagacaatgcccacCttctgggccccgggcctagc	11	15	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:31188829C>A	uc001brz.2	-	5	1168	c.1134G>T	c.(1132-1134)AAG>AAT	p.K378N	uc001bsb.1_5'Flank|MATN1_uc001bsa.1_Missense_Mutation_p.K296N	NM_002379	NP_002370	P21941	MATN1_HUMAN	matrilin 1, cartilage matrix protein precursor	378	VWFA 2.				protein complex assembly	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			central_nervous_system(1)	1		Colorectal(325;0.00792)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)|Ovarian(437;0.0563)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-05)|COAD - Colon adenocarcinoma(152;0.000726)|STAD - Stomach adenocarcinoma(196;0.0183)|READ - Rectum adenocarcinoma(331;0.0649)		CAATGCCCACCTTCTGGGCCC	0.562													22	48	---	---	---	---	PASS	A	31188829	A	A	31188829	3	1	77	1	0	0	0	0	1	0	0	0	9333	680	24	3	372	3	MATN1	1	31188829	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	11696643	31188829	218061792	7	29117										
ZSCAN20	7579	broad.mit.edu	37	chr1	33960553	33960553	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tggaccacacagcacaaactCaggggagaaactttatgagt	10	9	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:33960553C>A	uc001bxj.3	+	8	2776	c.2609C>A	c.(2608-2610)TCA>TAA	p.S870*	ZSCAN20_uc009vui.2_Nonsense_Mutation_p.S869*	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	870					viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AGCACAAACTCAGGGGAGAAA	0.438													8	265	---	---	---	---	PASS	A	33960553	A	A	33960553	4	1	77	1	0	0	0	0	0	1	0	0	18229	838	29	2	2635	2	ZSCAN20	1	33960553	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2771724	33960553	215290068	8	29118										
EIF2C3	192669	broad.mit.edu	37	chr1	36506013	36506013	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttcagaagagacatcacactCgattattttgtgctgatagg	9	7	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:36506013C>A	uc001bzp.2	+	16	2399	c.2143C>A	c.(2143-2145)CGA>AGA	p.R715R	EIF2C3_uc001bzq.2_Silent_p.R481R	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	715	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				ACATCACACTCGATTATTTTG	0.368													4	68	---	---	---	---	PASS	A	36506013	A	A	36506013	2	1	77	1	0	0	0	0	0	0	0	1	5007	876	31	2		2	EIF2C3	1	36506013	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	2545460	36506013	212744608	9	29119										
INPP5B	3633	broad.mit.edu	37	chr1	38338764	38338764	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	accagaatgtcctcaattttGtcttcacccgagttgagctt	7	11	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:38338764G>C	uc001ccg.1	-	19	2119	c.2025C>G	c.(2023-2025)GAC>GAG	p.D675E	INPP5B_uc009vvk.1_Missense_Mutation_p.D616E|INPP5B_uc001ccf.1_Missense_Mutation_p.D511E	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	755					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CCTCAATTTTGTCTTCACCCG	0.418													40	61	---	---	---	---	PASS	C	38338764	C	C	38338764	3	2	77	1	0	0	0	0	1	0	0	0	7755	1368	48	4	740	4	INPP5B	1	38338764	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1832751	38338764	210911857	10	29120										
HIVEP3	59269	broad.mit.edu	37	chr1	42045798	42045798	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gaggggagatcaggttgttcCttggaatcttctttcttcac	11	8	5	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:42045798C>T	uc001cgz.3	-	4	5884	c.4671G>A	c.(4669-4671)AAG>AAA	p.K1557K	HIVEP3_uc001cha.3_Silent_p.K1557K|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1557					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CAGGTTGTTCCTTGGAATCTT	0.542													23	54	---	---	---	---	PASS	T	42045798	T	T	42045798	2	4	77	1	0	0	0	0	0	0	0	1	7188	680	24	3		3	HIVEP3	1	42045798	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	3707034	42045798	207204823	11	29121										
KIAA0467	23334	broad.mit.edu	37	chr1	43914311	43914311	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cctatccatgacggtctcctGgtaccagagcctgatcaaag	9	13	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:43914311G>T	uc001cjk.1	+	55	7763	c.7301G>T	c.(7300-7302)TGG>TTG	p.W2434L	KIAA0467_uc001cjl.1_Missense_Mutation_p.W422L	NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	3333						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				ACGGTCTCCTGGTACCAGAGC	0.572													10	206	---	---	---	---	PASS	T	43914311	T	T	43914311	3	4	77	1	0	0	0	0	1	0	0	0	8178	1357	47	3	7511	3	KIAA0467	1	43914311	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1868513	43914311	205336310	12	29122										
PTPRF	5792	broad.mit.edu	37	chr1	44056897	44056897	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcgggcgagggccgcccagcGaggcagtgcgggcacgcacg	19	14	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:44056897G>A	uc001cjr.2	+	9	1544	c.1204G>A	c.(1204-1206)GAG>AAG	p.E402K	PTPRF_uc001cjs.2_Missense_Mutation_p.E402K|PTPRF_uc001cju.2_5'UTR|PTPRF_uc009vwt.2_5'UTR|PTPRF_uc001cjv.2_5'UTR	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	402	Extracellular (Potential).|Fibronectin type-III 1.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GCCGCCCAGCGAGGCAGTGCG	0.697													8	7	---	---	---	---	PASS	A	44056897	A	A	44056897	3	1	77	1	0	0	0	0	1	0	0	0	12801	1059	37	2	1230	2	PTPRF	1	44056897	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	142586	44056897	205193724	13	29123										
TESK2	10420	broad.mit.edu	37	chr1	45821049	45821049	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cactgctatgtcataggccaGttttaccctcacagtccaag	7	13	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:45821049G>C	uc001cns.1	-	5	869	c.466C>G	c.(466-468)CTG>GTG	p.L156V	TESK2_uc009vxr.1_Missense_Mutation_p.L156V|TESK2_uc010olo.1_Missense_Mutation_p.L73V|TESK2_uc009vxs.1_5'UTR	NM_007170	NP_009101	Q96S53	TESK2_HUMAN	testis-specific protein kinase 2	156	Protein kinase.				actin cytoskeleton organization|focal adhesion assembly|spermatogenesis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(2)|pancreas(1)	5	Acute lymphoblastic leukemia(166;0.155)					TCATAGGCCAGTTTTACCCTC	0.468													8	26	---	---	---	---	PASS	C	45821049	C	C	45821049	3	2	77	1	0	0	0	0	1	0	0	0	15765	1020	36	4	1277	4	TESK2	1	45821049	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1764152	45821049	203429572	14	29124										
TTC39A	22996	broad.mit.edu	37	chr1	51753897	51753897	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agacttggcttggagtgtggCtgcctggattcgaaagtgtg	16	6	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:51753897C>A	uc001csl.2	-	18	1879	c.1774G>T	c.(1774-1776)GCC>TCC	p.A592S	TTC39A_uc001csk.2_Missense_Mutation_p.A557S|TTC39A_uc010ond.1_Missense_Mutation_p.A529S|TTC39A_uc010one.1_Missense_Mutation_p.A556S|TTC39A_uc010onf.1_Missense_Mutation_p.A560S|TTC39A_uc001csj.2_Missense_Mutation_p.A193S	NM_001080494	NP_001073963	Q5SRH9	TT39A_HUMAN	tetratricopeptide repeat domain 39A isoform 2	592							binding			skin(1)	1						TGGAGTGTGGCTGCCTGGATT	0.512													5	86	---	---	---	---	PASS	A	51753897	A	A	51753897	3	1	77	1	0	0	0	0	1	0	0	0	16704	797	28	3	71	3	TTC39A	1	51753897	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	5932848	51753897	197496724	15	29125										
SLC1A7	6512	broad.mit.edu	37	chr1	53554564	53554564	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctcacctcggtgcctgtgtcCcgggcaaaatccttccgaca	9	16	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:53554564C>A	uc001cuy.2	-	10	1617	c.1449G>T	c.(1447-1449)CGG>CGT	p.R483R	SLC1A7_uc001cux.2_Silent_p.R136R	NM_006671	NP_006662	O00341	EAA5_HUMAN	solute carrier family 1 (glutamate transporter),	483						integral to membrane|plasma membrane	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|large_intestine(1)	3				Colorectal(1306;0.234)	L-Glutamic Acid(DB00142)	TGCCTGTGTCCCGGGCAAAAT	0.547													17	38	---	---	---	---	PASS	A	53554564	A	A	53554564	2	1	77	1	0	0	0	0	0	0	0	1	14437	610	22	3		3	SLC1A7	1	53554564	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	1800667	53554564	195696057	16	29126										
FGGY	55277	broad.mit.edu	37	chr1	59844452	59844452	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gatttgctgggataaggcggGacatttctttgatctcccgg	13	8	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:59844452G>A	uc001czi.3	+	5	709	c.497G>A	c.(496-498)GGA>GAA	p.G166E	FGGY_uc001czg.2_Missense_Mutation_p.G54E|FGGY_uc001czh.2_RNA|FGGY_uc009wac.2_Missense_Mutation_p.G166E|FGGY_uc001czj.3_Missense_Mutation_p.G166E|FGGY_uc001czk.3_Missense_Mutation_p.G54E|FGGY_uc001czl.3_Missense_Mutation_p.G78E	NM_018291	NP_060761	Q96C11	FGGY_HUMAN	FGGY carbohydrate kinase domain containing	166					carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)					GATAAGGCGGGACATTTCTTT	0.393													12	14	---	---	---	---	PASS	A	59844452	A	A	59844452	3	1	77	1	0	0	0	0	1	0	0	0	5871	1174	41	2	511	2	FGGY	1	59844452	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	6289888	59844452	189406169	17	29127										
HFM1	164045	broad.mit.edu	37	chr1	91778938	91778938	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctgctattgtagatatgtctGaatgtttagaatgggaaatc	10	4	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:91778938G>A	uc001doa.3	-	30	3459	c.3359C>T	c.(3358-3360)TCA>TTA	p.S1120L	HFM1_uc009wdb.2_RNA|HFM1_uc010osu.1_Missense_Mutation_p.S799L|HFM1_uc001dob.3_Missense_Mutation_p.S308L|HFM1_uc010osv.1_Missense_Mutation_p.S804L	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	1120							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		AGATATGTCTGAATGTTTAGA	0.328													7	19	---	---	---	---	PASS	A	91778938	A	A	91778938	3	1	77	1	0	0	0	0	1	0	0	0	7083	1294	45	2	988	2	HFM1	1	91778938	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	31934486	91778938	157471683	18	29128										
CNN3	1266	broad.mit.edu	37	chr1	95368960	95368960	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctggagggctgtaactcactCgcagaggatgatgccatcct	12	11	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:95368960C>A	uc010otw.1	-	3	260	c.178G>T	c.(178-180)GAA>TAA	p.E60*	CNN3_uc010otv.1_Nonsense_Mutation_p.E19*|CNN3_uc001dqz.3_Nonsense_Mutation_p.E60*|CNN3_uc010otx.1_Nonsense_Mutation_p.E60*	NM_001839	NP_001830	Q15417	CNN3_HUMAN	calponin 3	60	CH.				actomyosin structure organization|smooth muscle contraction		actin binding|calmodulin binding|tropomyosin binding|troponin C binding				0		all_lung(203;0.00206)|Lung NSC(277;0.00948)		all cancers(265;0.0325)|Epithelial(280;0.0861)		GTAACTCACTCGCAGAGGATG	0.507													5	56	---	---	---	---	PASS	A	95368960	A	A	95368960	4	1	77	1	0	0	0	0	0	1	0	0	3611	898	31	2	835	2	CNN3	1	95368960	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	3590022	95368960	153881661	19	29129										
FNDC7	163479	broad.mit.edu	37	chr1	109271508	109271508	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acagtgtgcccctggaaacaGgtatgtagcaaccaccagcc	10	13	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:109271508G>T	uc001dvx.2	+	8	1624	c.1624G>T	c.(1624-1626)GTG>TTG	p.V542L	FNDC7_uc010ova.1_Missense_Mutation_p.V309L	NM_001144937	NP_001138409	Q5VTL7	FNDC7_HUMAN	fibronectin type III domain containing 7	543						extracellular region				ovary(1)|skin(1)	2		all_lung(203;0.00439)|Lung NSC(277;0.00683)|all_epithelial(167;0.00728)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.173)|all cancers(265;0.244)		CCTGGAAACAGGTATGTAGCA	0.532													9	16	---	---	---	---	PASS	T	109271508	T	T	109271508	3	4	77	1	0	0	0	0	1	0	0	0	5973	1014	35	3	1654	3	FNDC7	1	109271508	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	13902548	109271508	139979113	20	29130										
GSTM4	2948	broad.mit.edu	37	chr1	110201701	110201701	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caactgcttggacgcctttcCaaatctgaaggacttcatct	7	12	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:110201701C>A	uc001dyf.2	+	7	850	c.536C>A	c.(535-537)CCA>CAA	p.P179Q	GSTM4_uc001dyg.2_Missense_Mutation_p.P75Q|GSTM4_uc009wfj.2_Missense_Mutation_p.P118Q|GSTM4_uc001dyh.2_Missense_Mutation_p.P179Q|GSTM2_uc001dyi.2_Intron	NM_000850	NP_000841	Q03013	GSTM4_HUMAN	glutathione S-transferase mu 4 isoform 1	179	GST C-terminal.				xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity				0		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		all cancers(265;0.0123)|Colorectal(144;0.0129)|Epithelial(280;0.0147)|Lung(183;0.0422)|COAD - Colon adenocarcinoma(174;0.0471)|LUSC - Lung squamous cell carcinoma(189;0.227)	Glutathione(DB00143)	GACGCCTTTCCAAATCTGAAG	0.498													9	367	---	---	---	---	PASS	A	110201701	A	A	110201701	3	1	77	1	0	0	0	0	1	0	0	0	6840	594	21	3	562	3	GSTM4	1	110201701	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	930193	110201701	139048920	21	29131										
CSF1	1435	broad.mit.edu	37	chr1	110460061	110460061	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aggctgaagagctgcttcacCaaggattatgaagagcatga	12	7	1	5			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:110460061C>A	uc001dyu.2	+	4	785	c.372C>A	c.(370-372)ACC>ACA	p.T124T	CSF1_uc001dyt.2_Silent_p.T124T|CSF1_uc001dyv.3_Silent_p.T124T|CSF1_uc001dyw.3_Silent_p.T124T	NM_172212	NP_757351	P09603	CSF1_HUMAN	colony stimulating factor 1 isoform a precursor	124	Lumenal (Potential).				cell proliferation|developmental process involved in reproduction|macrophage differentiation|monocyte activation|osteoclast differentiation|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of cellular protein metabolic process|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|positive regulation of macrophage differentiation|positive regulation of monocyte differentiation|positive regulation of mononuclear cell proliferation|positive regulation of protein kinase activity	extracellular space|integral to membrane|perinuclear region of cytoplasm|plasma membrane|receptor complex	cytokine activity|growth factor activity|macrophage colony-stimulating factor receptor binding|protein homodimerization activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Acute lymphoblastic leukemia(138;0.204)		Lung(183;0.0238)|Colorectal(144;0.112)|all cancers(265;0.117)|Epithelial(280;0.127)|LUSC - Lung squamous cell carcinoma(189;0.135)		GCTGCTTCACCAAGGATTATG	0.557													8	261	---	---	---	---	PASS	A	110460061	A	A	110460061	2	1	77	1	0	0	0	0	0	0	0	1	3931	581	21	3		3	CSF1	1	110460061	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	258360	110460061	138790560	22	29132										
CD101	9398	broad.mit.edu	37	chr1	117556285	117556285	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tctctctcaagatcttctctCtgggcccagaggatgaaggc	10	12	5	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:117556285C>G	uc010oxb.1	+	4	1157	c.1099C>G	c.(1099-1101)CTG>GTG	p.L367V	CD101_uc009whd.2_Missense_Mutation_p.L367V|CD101_uc010oxc.1_Missense_Mutation_p.L367V|CD101_uc010oxd.1_Missense_Mutation_p.L305V	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	367	Ig-like C2-type 3.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GATCTTCTCTCTGGGCCCAGA	0.517													14	42	---	---	---	---	PASS	G	117556285	G	G	117556285	3	3	77	1	0	0	0	0	1	0	0	0	2962	912	32	2	1113	2	CD101	1	117556285	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	7096224	117556285	131694336	23	29133										
PDE4DIP	9659	broad.mit.edu	37	chr1	144873931	144873931	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctggggagttggcaagctgaTggggttgctgttggattcgg	19	5	0	1	rs137931320	byFrequency	TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:144873931T>C	uc001elw.3	-	31	5317	c.5026A>G	c.(5026-5028)ATC>GTC	p.I1676V	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.I1632V|PDE4DIP_uc001elv.3_Missense_Mutation_p.I683V	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1676					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GGCAAGCTGATGGGGTTGCTG	0.517			T	PDGFRB	MPD								31	248	---	---	---	---	PASS	C	144873931	C	C	144873931	3	2	77	1	0	0	0	0	1	0	0	0	11643	1464	51	5	2070	5	PDE4DIP	1	144873931	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	27317646	144873931	104376690	24	29134										
ITGA10	8515	broad.mit.edu	37	chr1	145531022	145531022	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctgcccaagcaataatggtgGcctggtgaggcattgggaag	15	8	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:145531022G>T	uc001eoa.2	+	7	830	c.754G>T	c.(754-756)GCC>TCC	p.A252S	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.A121S|ITGA10_uc009wiw.2_Missense_Mutation_p.A109S|ITGA10_uc010oyw.1_Missense_Mutation_p.A197S	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	252	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					AATAATGGTGGCCTGGTGAGG	0.458													8	21	---	---	---	---	PASS	T	145531022	T	T	145531022	3	4	77	1	0	0	0	0	1	0	0	0	7873	1203	42	3	780	3	ITGA10	1	145531022	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	657091	145531022	103719599	25	29135										
ACP6	51205	broad.mit.edu	37	chr1	147126410	147126410	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tttcaaatcctctgagattcCtggctgtaaagaggcagtct	9	9	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:147126410C>A	uc001epr.2	-	6	1143	c.679G>T	c.(679-681)GGA>TGA	p.G227*	ACP6_uc009wjj.1_Nonsense_Mutation_p.G184*	NM_016361	NP_057445	Q9NPH0	PPA6_HUMAN	acid phosphatase 6, lysophosphatidic precursor	227					lipid metabolic process	extracellular region|mitochondrion	acid phosphatase activity|protein binding			ovary(4)	4	all_hematologic(923;0.0276)					TCTGAGATTCCTGGCTGTAAA	0.353													6	57	---	---	---	---	PASS	A	147126410	A	A	147126410	4	1	77	1	0	0	0	0	0	1	0	0	165	690	24	3	627	3	ACP6	1	147126410	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1595388	147126410	102124211	26	29136										
FCGR1A	2209	broad.mit.edu	37	chr1	149761656	149761656	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcatctgtgacatccccactCctggaggggaatctggtcac	11	13	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:149761656C>T	uc001esp.3	+	5	656	c.606C>T	c.(604-606)CTC>CTT	p.L202L	HIST2H2BF_uc010pbj.1_Intron|FCGR1A_uc009wlg.2_Intron	NM_000566	NP_000557	P12314	FCGR1_HUMAN	Fc fragment of IgG, high affinity Ia, receptor	202	Extracellular (Potential).|Ig-like C2-type 3.				interferon-gamma-mediated signaling pathway|phagocytosis, engulfment	integral to membrane|plasma membrane	IgG binding|receptor activity|receptor signaling protein activity			ovary(1)	1	Breast(34;0.0124)|all_hematologic(923;0.127)				Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Methyl aminolevulinate(DB00992)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Porfimer(DB00707)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CATCCCCACTCCTGGAGGGGA	0.512													9	21	---	---	---	---	PASS	T	149761656	T	T	149761656	2	4	77	1	0	0	0	0	0	0	0	1	5779	842	30	2		2	FCGR1A	1	149761656	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	2635246	149761656	99488965	27	29137										
MTMR11	10903	broad.mit.edu	37	chr1	149905510	149905510	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aagcctccctcacctgatatCctccttgttagggtcactgg	8	14	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:149905510C>G	uc001etl.3	-	9	1104	c.853G>C	c.(853-855)GAT>CAT	p.D285H	MTMR11_uc001etm.1_Missense_Mutation_p.D213H|MTMR11_uc010pbm.1_Missense_Mutation_p.D257H|MTMR11_uc010pbn.1_Missense_Mutation_p.D127H	NM_001145862	NP_001139334	A4FU01	MTMRB_HUMAN	myotubularin related protein 11 isoform a	285	Myotubularin phosphatase.						phosphatase activity			central_nervous_system(1)	1	Breast(34;0.0009)|Ovarian(49;0.0377)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			CACCTGATATCCTCCTTGTTA	0.542													21	46	---	---	---	---	PASS	G	149905510	G	G	149905510	3	3	77	1	0	0	0	0	1	0	0	0	9940	855	30	2	1351	2	MTMR11	1	149905510	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	143854	149905510	99345111	28	29138										
HRNR	388697	broad.mit.edu	37	chr1	152190884	152190884	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaccgtgttgcccatgggtaGaggaatgacctgagctagat	13	8	0	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:152190884G>T	uc001ezt.1	-	3	3297	c.3221C>A	c.(3220-3222)TCT>TAT	p.S1074Y		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1074	12.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCCATGGGTAGAGGAATGACC	0.562													10	360	---	---	---	---	PASS	T	152190884	T	T	152190884	3	4	77	1	0	0	0	0	1	0	0	0	7359	942	33	2	5335	2	HRNR	1	152190884	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2285374	152190884	97059737	29	29139										
FLG	2312	broad.mit.edu	37	chr1	152285051	152285051	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctcttggtggctctgctgatGgtgaccagcctgtccatggc	13	12	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:152285051G>T	uc001ezu.1	-	3	2347	c.2311C>A	c.(2311-2313)CAT>AAT	p.H771N	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	771	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTCTGCTGATGGTGACCAGCC	0.562									Ichthyosis				9	305	---	---	---	---	PASS	T	152285051	T	T	152285051	3	4	77	1	0	0	0	0	1	0	0	0	5922	1348	47	3	9878	3	FLG	1	152285051	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	94167	152285051	96965570	30	29140										
KPRP	448834	broad.mit.edu	37	chr1	152732412	152732412	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caggctccatgccaatctgaGgtgtcctacgtgcagtgcga	12	12	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:152732412G>T	uc001fal.1	+	2	406	c.348G>T	c.(346-348)GAG>GAT	p.E116D		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	116	Gln-rich.					cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCCAATCTGAGGTGTCCTACG	0.502													10	395	---	---	---	---	PASS	T	152732412	T	T	152732412	3	4	77	1	0	0	0	0	1	0	0	0	8436	991	35	3	350	3	KPRP	1	152732412	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	447361	152732412	96518209	31	29141										
PGLYRP4	57115	broad.mit.edu	37	chr1	153318633	153318633	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tactggagcccctctgatacCtgtttagcttgtgttttgtt	9	9	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:153318633C>A	uc001fbo.2	-	3	149	c.84G>T	c.(82-84)CAG>CAT	p.Q28H	PGLYRP4_uc001fbp.2_Missense_Mutation_p.Q28H	NM_020393	NP_065126	Q96LB8	PGRP4_HUMAN	peptidoglycan recognition protein-I-beta	28					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(3)|skin(1)	4	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			CCTCTGATACCTGTTTAGCTT	0.488													7	190	---	---	---	---	PASS	A	153318633	A	A	153318633	3	1	77	1	0	0	0	0	1	0	0	0	11796	680	24	3	1065	3	PGLYRP4	1	153318633	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	586221	153318633	95931988	32	29142										
CLK2	1196	broad.mit.edu	37	chr1	155239429	155239429	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	taggcatctccccgatcccgGctataatcgttgcgtctgta	9	13	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:155239429G>T	uc001fjy.2	-	3	539	c.249C>A	c.(247-249)AGC>AGA	p.S83R	RAG1AP1_uc010pey.1_Intron|CLK2_uc001fjw.2_Missense_Mutation_p.S83R|CLK2_uc001fjx.2_5'UTR|CLK2_uc009wqm.2_Missense_Mutation_p.S83R	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	83						nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	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)			CCCGATCCCGGCTATAATCGT	0.527								Other_conserved_DNA_damage_response_genes					23	108	---	---	---	---	PASS	T	155239429	T	T	155239429	3	4	77	1	0	0	0	0	1	0	0	0	3537	1194	42	3	1291	3	CLK2	1	155239429	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1920796	155239429	94011192	33	29143										
ARHGEF11	9826	broad.mit.edu	37	chr1	156954202	156954202	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgaagccatgctggtcctttTggataatgacacagcgttga	11	9	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:156954202T>C	uc001fqo.2	-	3	1192	c.152A>G	c.(151-153)CAA>CGA	p.Q51R	ARHGEF11_uc001fqn.2_Missense_Mutation_p.Q51R	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	51	PDZ.				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)					CTGGTCCTTTTGGATAATGAC	0.557													3	5	---	---	---	---	PASS	C	156954202	C	C	156954202	3	2	77	1	0	0	0	0	1	0	0	0	896	1812	63	5	4692	5	ARHGEF11	1	156954202	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	1714773	156954202	92296419	34	29144										
FCRL5	83416	broad.mit.edu	37	chr1	157504490	157504490	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aattccctgaatgtccttcaGtcagagagaagctgaaggac	10	9	2	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:157504490G>A	uc001fqu.2	-	8	1753	c.1595C>T	c.(1594-1596)ACT>ATT	p.T532I	FCRL5_uc009wsm.2_Missense_Mutation_p.T532I|FCRL5_uc010phv.1_Missense_Mutation_p.T532I|FCRL5_uc010phw.1_Missense_Mutation_p.T447I|FCRL5_uc001fqv.1_Missense_Mutation_p.T532I|FCRL5_uc010phx.1_Missense_Mutation_p.T283I	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	532	Extracellular (Potential).|Ig-like C2-type 5.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				ATGTCCTTCAGTCAGAGAGAA	0.507													6	15	---	---	---	---	PASS	A	157504490	A	A	157504490	3	1	77	1	0	0	0	0	1	0	0	0	5798	1029	36	3	1378	3	FCRL5	1	157504490	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	550288	157504490	91746131	35	29145										
PYHIN1	149628	broad.mit.edu	37	chr1	158914791	158914791	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaagccatctcaagactcctCagatgccaccaacaacccca	4	17	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:158914791C>T	uc001ftb.2	+	7	1563	c.1318C>T	c.(1318-1320)CAG>TAG	p.Q440*	PYHIN1_uc001ftc.2_Nonsense_Mutation_p.Q431*|PYHIN1_uc001ftd.2_Nonsense_Mutation_p.Q440*|PYHIN1_uc001fte.2_Nonsense_Mutation_p.Q431*	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	440					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					CAAGACTCCTCAGATGCCACC	0.488													10	30	---	---	---	---	PASS	T	158914791	T	T	158914791	4	4	77	1	0	0	0	0	0	1	0	0	12865	827	29	2	1340	2	PYHIN1	1	158914791	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1410301	158914791	90335830	36	29146										
OLFML2B	25903	broad.mit.edu	37	chr1	161967615	161967615	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gccaggtacaatgaacttacCtatgacattccggatgtcat	8	10	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:161967615C>A	uc001gbu.2	-	6	1898	c.1474G>T	c.(1474-1476)GGA>TGA	p.G492*	OLFML2B_uc010pkq.1_Nonsense_Mutation_p.G493*	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	492										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			ATGAACTTACCTATGACATTC	0.542													9	304	---	---	---	---	PASS	A	161967615	A	A	161967615	4	1	77	1	0	0	0	0	0	1	0	0	10858	695	24	3	790	3	OLFML2B	1	161967615	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	3052824	161967615	87283006	37	29147										
ILDR2	387597	broad.mit.edu	37	chr1	166908752	166908752	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gagttaaatgaccgaataccTggcataatctccacagcaaa	7	10	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:166908752T>A	uc001gdx.1	-	4	611	c.555A>T	c.(553-555)CCA>CCT	p.P185P		NM_199351	NP_955383	Q71H61	ILDR2_HUMAN	immunoglobulin-like domain containing receptor	185	Extracellular (Potential).					integral to membrane				ovary(1)	1						ACCGAATACCTGGCATAATCT	0.413													12	30	---	---	---	---	PASS	A	166908752	A	A	166908752	2	1	77	1	0	0	0	0	0	0	0	1	7710	1594	55	5		5	ILDR2	1	166908752	Silent	SNP	T	TCGA-37-3789-01A-01D-0983-08	4941137	166908752	82341869	38	29148										
SMG7	9887	broad.mit.edu	37	chr1	183511607	183511607	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgcaccttagaaaagttacaGgaaacaggaaagcagaatgt	10	6	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:183511607G>T	uc001gqg.2	+	14	1934	c.1812G>T	c.(1810-1812)CAG>CAT	p.Q604H	SMG7_uc010pob.1_Intron|SMG7_uc001gqf.2_Intron|SMG7_uc001gqh.2_Intron|SMG7_uc001gqi.2_Intron|SMG7_uc010poc.1_Missense_Mutation_p.Q562H	NM_173156	NP_775179	Q92540	SMG7_HUMAN	SMG-7 homolog isoform 1	604					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|intermediate filament cytoskeleton|nucleus	protein phosphatase 2A binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						AAAAGTTACAGGAAACAGGAA	0.383													6	72	---	---	---	---	PASS	T	183511607	T	T	183511607	3	4	77	1	0	0	0	0	1	0	0	0	14798	991	35	3	1866	3	SMG7	1	183511607	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	16602855	183511607	65739014	39	29149										
TPR	7175	broad.mit.edu	37	chr1	186294905	186294905	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaaaatctcaccactgttttGagaatcagcagctctgtgat	7	9	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:186294905G>C	uc001grv.2	-	42	6400	c.6103C>G	c.(6103-6105)CAA>GAA	p.Q2035E		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	2035					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)		CCACTGTTTTGAGAATCAGCA	0.338			T	NTRK1	papillary thyroid								6	18	---	---	---	---	PASS	C	186294905	C	C	186294905	3	2	77	1	0	0	0	0	1	0	0	0	16413	1299	45	2	1028	2	TPR	1	186294905	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2783298	186294905	62955716	40	29150										
TPR	7175	broad.mit.edu	37	chr1	186324872	186324872	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cttggacgttttggagttgaTgcaagagaaacatcatctaa	10	6	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:186324872T>C	uc001grv.2	-	16	2214	c.1917A>G	c.(1915-1917)GCA>GCG	p.A639A		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	639					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)		TTGGAGTTGATGCAAGAGAAA	0.393			T	NTRK1	papillary thyroid								22	31	---	---	---	---	PASS	C	186324872	C	C	186324872	2	2	77	1	0	0	0	0	0	0	0	1	16413	1451	51	5		5	TPR	1	186324872	Silent	SNP	T	TCGA-37-3789-01A-01D-0983-08	29967	186324872	62925749	41	29151										
CFHR4	10877	broad.mit.edu	37	chr1	196882045	196882045	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggatggtcagcacaaccaatTtgcattagtaagtgatttac	9	7	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:196882045T>A	uc001gto.2	+	3	501	c.432T>A	c.(430-432)ATT>ATA	p.I144I	CFHR4_uc009wyy.2_Silent_p.I390I|CFHR4_uc001gtp.2_Silent_p.I391I	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	144	Sushi 2.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						CACAACCAATTTGCATTAGTA	0.308													13	23	---	---	---	---	PASS	A	196882045	A	A	196882045	2	1	77	1	0	0	0	0	0	0	0	1	3287	1829	64	5		5	CFHR4	1	196882045	Silent	SNP	T	TCGA-37-3789-01A-01D-0983-08	10557173	196882045	52368576	42	29152										
SHISA4	149345	broad.mit.edu	37	chr1	201859588	201859588	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttctttgtctaaagccccaaGaccatagcaggcatcgcctc	7	14	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:201859588G>A	uc001gxa.2	+	3	343	c.252G>A	c.(250-252)AAG>AAA	p.K84K		NM_198149	NP_937792	Q96DD7	SHSA4_HUMAN	shisa homolog 4 precursor	84	Extracellular (Potential).					integral to membrane					0						AAAGCCCCAAGACCATAGCAG	0.562													37	110	---	---	---	---	PASS	A	201859588	A	A	201859588	2	1	77	1	0	0	0	0	0	0	0	1	14282	933	33	2		2	SHISA4	1	201859588	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	4977543	201859588	47391033	43	29153										
SYT2	127833	broad.mit.edu	37	chr1	202571625	202571625	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ataagggtctgaggtgcctcCcatgtccagggcaggcagtt	14	10	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:202571625C>A	uc001gye.2	-	5	707	c.514G>T	c.(514-516)GGA>TGA	p.G172*	SYT2_uc010pqb.1_Nonsense_Mutation_p.G172*|SYT2_uc009xaf.2_Nonsense_Mutation_p.G2*	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	172	Phospholipid binding (By similarity).|C2 1.|Cytoplasmic (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	GAGGTGCCTCCCATGTCCAGG	0.537													6	86	---	---	---	---	PASS	A	202571625	A	A	202571625	4	1	77	1	0	0	0	0	0	1	0	0	15471	632	22	3	765	3	SYT2	1	202571625	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	712037	202571625	46678996	44	29154										
PPFIA4	8497	broad.mit.edu	37	chr1	203036822	203036822	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttgggggctgtgtgcctgcaGaaccagtcttcagtatggca	14	9	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:203036822G>C	uc001gyz.2	+	13	2126	c.1533_splice	c.e13-1	p.R511_splice	PPFIA4_uc009xaj.2_Splice_Site_p.R1142_splice|PPFIA4_uc010pqf.1_Splice_Site_p.R724_splice|PPFIA4_uc001gza.2_Splice_Site_p.R502_splice|PPFIA4_uc001gzb.1_Splice_Site_p.R197_splice|PPFIA4_uc001gzc.1_Splice_Site_p.R53_splice	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f						cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						TGTGCCTGCAGAACCAGTCTT	0.562													19	34	---	---	---	---	PASS	C	203036822	C	C	203036822	5	2	77	1	0	0	0	0	0	0	1	0	12312	956	33	2	1582	2	PPFIA4	1	203036822	Splice_Site	SNP	G	TCGA-37-3789-01A-01D-0983-08	465197	203036822	46213799	45	29155										
TMEM206	55248	broad.mit.edu	37	chr1	212558649	212558649	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gagaaggggtccgtgtagttGatcctctgggtggtgcaatt	16	6	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:212558649G>A	uc001hjc.3	-	4	630	c.462C>T	c.(460-462)ATC>ATT	p.I154I	TMEM206_uc010pte.1_Silent_p.I215I	NM_018252	NP_060722	Q9H813	TM206_HUMAN	transmembrane protein 206	154	Extracellular (Potential).					integral to membrane				breast(1)	1				all cancers(67;0.012)|OV - Ovarian serous cystadenocarcinoma(81;0.0121)|GBM - Glioblastoma multiforme(131;0.0377)|Epithelial(68;0.148)		CCGTGTAGTTGATCCTCTGGG	0.577													10	68	---	---	---	---	PASS	A	212558649	A	A	212558649	2	1	77	1	0	0	0	0	0	0	0	1	16128	1280	45	2		2	TMEM206	1	212558649	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	9521827	212558649	36691972	46	29156										
USH2A	7399	broad.mit.edu	37	chr1	216052233	216052233	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtgagtggtaacataggtagGtaaactctctgtgcaccctc	11	9	1	1	rs111033529		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:216052233G>A	uc001hku.1	-	42	8818	c.8431C>T	c.(8431-8433)CCT>TCT	p.P2811S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2811	Fibronectin type-III 14.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACATAGGTAGGTAAACTCTCT	0.443										HNSCC(13;0.011)			11	18	---	---	---	---	PASS	A	216052233	A	A	216052233	3	1	77	1	0	0	0	0	1	0	0	0	17033	1261	44	3	7301	3	USH2A	1	216052233	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3493584	216052233	33198388	47	29157										
ESRRG	2104	broad.mit.edu	37	chr1	216850693	216850693	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcatggttgaactgtagctcCcactggcgtctgaagagcca	11	11	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:216850693C>A	uc001hkw.1	-	2	363	c.197G>T	c.(196-198)GGG>GTG	p.G66V	ESRRG_uc001hky.1_Missense_Mutation_p.G43V|ESRRG_uc009xdp.1_Missense_Mutation_p.G43V|ESRRG_uc001hkz.1_Missense_Mutation_p.G43V|ESRRG_uc010puc.1_Missense_Mutation_p.G43V|ESRRG_uc001hla.1_Missense_Mutation_p.G43V|ESRRG_uc001hlb.1_Missense_Mutation_p.G43V|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Missense_Mutation_p.G43V|ESRRG_uc001hld.1_Missense_Mutation_p.G43V|ESRRG_uc001hkx.1_Missense_Mutation_p.G71V|ESRRG_uc009xdo.1_Missense_Mutation_p.G43V|ESRRG_uc001hle.1_Missense_Mutation_p.G43V	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	66					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	ACTGTAGCTCCCACTGGCGTC	0.577													10	21	---	---	---	---	PASS	A	216850693	A	A	216850693	3	1	77	1	0	0	0	0	1	0	0	0	5262	623	22	3	1203	3	ESRRG	1	216850693	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	798460	216850693	32399928	48	29158										
SIPA1L2	57568	broad.mit.edu	37	chr1	232607249	232607249	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agacgatggtgacgatgtcaTttcctatgtgccttttcctc	9	10	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:232607249T>C	uc001hvg.2	-	6	2269	c.2111A>G	c.(2110-2112)AAT>AGT	p.N704S		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	704	Rap-GAP.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GACGATGTCATTTCCTATGTG	0.383													16	33	---	---	---	---	PASS	C	232607249	C	C	232607249	3	2	77	1	0	0	0	0	1	0	0	0	14330	1493	52	5	3121	5	SIPA1L2	1	232607249	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	15756556	232607249	16643372	49	29159										
KIAA1383	54627	broad.mit.edu	37	chr1	232942333	232942333	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agaatataggagcaactaatCaaacatgtcaaactgaacaa	6	7	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:232942333C>G	uc001hvh.2	+	1	1696	c.1564C>G	c.(1564-1566)CAA>GAA	p.Q522E		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	380										ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				AGCAACTAATCAAACATGTCA	0.378													15	29	---	---	---	---	PASS	G	232942333	G	G	232942333	3	3	77	1	0	0	0	0	1	0	0	0	8228	827	29	2	1566	2	KIAA1383	1	232942333	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	335084	232942333	16308288	50	29160										
HEATR1	55127	broad.mit.edu	37	chr1	236727825	236727825	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agaaaattattggaagacagGagctgagacatgaaggacac	12	5	0	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:236727825G>C	uc001hyd.1	-	32	4697	c.4572C>G	c.(4570-4572)CTC>CTG	p.L1524L	HEATR1_uc009xgh.1_Silent_p.L686L	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1524					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			TGGAAGACAGGAGCTGAGACA	0.358													12	32	---	---	---	---	PASS	C	236727825	C	C	236727825	2	2	77	1	0	0	0	0	0	0	0	1	7027	1161	41	2		2	HEATR1	1	236727825	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	3785492	236727825	12522796	51	29161										
ACTN2	88	broad.mit.edu	37	chr1	236917316	236917316	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctcgccagcatgctaacgagCgtctgaggcgccagtttgct	12	13	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:236917316C>T	uc001hyf.2	+	16	2113	c.1909C>T	c.(1909-1911)CGT>TGT	p.R637C	ACTN2_uc001hyg.2_Missense_Mutation_p.R429C|ACTN2_uc009xgi.1_Missense_Mutation_p.R637C|ACTN2_uc010pxu.1_Missense_Mutation_p.R326C|ACTN2_uc001hyh.2_Missense_Mutation_p.R325C	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	637	Spectrin 4.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			TGCTAACGAGCGTCTGAGGCG	0.602													22	35	---	---	---	---	PASS	T	236917316	T	T	236917316	3	4	77	1	0	0	0	0	1	0	0	0	205	768	27	1	1971	1	ACTN2	1	236917316	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	189491	236917316	12333305	52	29162										
MTR	4548	broad.mit.edu	37	chr1	236973829	236973829	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agaggtttgtggcaggggctCtgggtccgactaataagaca	15	7	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:236973829C>G	uc001hyi.3	+	5	859	c.436C>G	c.(436-438)CTG>GTG	p.L146V	MTR_uc010pxv.1_RNA|MTR_uc010pxw.1_5'UTR|MTR_uc010pxx.1_Missense_Mutation_p.L146V|MTR_uc010pxy.1_Missense_Mutation_p.L146V|MTR_uc009xgj.1_5'UTR	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	146	Hcy-binding.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	GGCAGGGGCTCTGGGTCCGAC	0.373													12	27	---	---	---	---	PASS	G	236973829	G	G	236973829	3	3	77	1	0	0	0	0	1	0	0	0	9958	912	32	2	454	2	MTR	1	236973829	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	56513	236973829	12276792	53	29163										
FMN2	56776	broad.mit.edu	37	chr1	240341241	240341241	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caagatcaactttatacctgGgctgcagttagtcaacccac	7	12	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:240341241G>T	uc010pyd.1	+	3	2028	c.1803G>T	c.(1801-1803)TGG>TGT	p.W601C	FMN2_uc010pye.1_Missense_Mutation_p.W601C	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	601					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TTTATACCTGGGCTGCAGTTA	0.388													14	21	---	---	---	---	PASS	T	240341241	T	T	240341241	3	4	77	1	0	0	0	0	1	0	0	0	5950	1241	43	3	1813	3	FMN2	1	240341241	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3367412	240341241	8909380	54	29164										
KMO	8564	broad.mit.edu	37	chr1	241712164	241712164	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcatgctttcttgcaaagagGaatttccagattgatgtata	9	6	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:241712164G>C	uc009xgp.2	+	2	155	c.90G>C	c.(88-90)AGG>AGC	p.R30S	KMO_uc001hyy.2_Missense_Mutation_p.R30S|KMO_uc009xgo.1_Missense_Mutation_p.R30S	NM_003679	NP_003670	O15229	KMO_HUMAN	kynurenine 3-monooxygenase	30					pyridine nucleotide biosynthetic process|response to salt stress	cytosol|integral to membrane|mitochondrial outer membrane	electron carrier activity|flavin adenine dinucleotide binding|kynurenine 3-monooxygenase activity|NAD(P)H oxidase activity			ovary(2)	2	Ovarian(103;0.103)|all_lung(81;0.23)		OV - Ovarian serous cystadenocarcinoma(106;0.0176)			TTGCAAAGAGGAATTTCCAGA	0.279													9	31	---	---	---	---	PASS	C	241712164	C	C	241712164	3	2	77	1	0	0	0	0	1	0	0	0	8424	1165	41	2	96	2	KMO	1	241712164	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1370923	241712164	7538457	55	29165										
OR2T4	127074	broad.mit.edu	37	chr1	248525429	248525429	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgtcatcaggctgctggttcCtgggctcagtggatggcttc	14	10	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:248525429C>T	uc001ieh.1	+	1	547	c.547C>T	c.(547-549)CTG>TTG	p.L183L		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	183	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTGCTGGTTCCTGGGCTCAGT	0.542													27	77	---	---	---	---	PASS	T	248525429	T	T	248525429	2	4	77	1	0	0	0	0	0	0	0	1	11027	680	24	3		3	OR2T4	1	248525429	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	6813265	248525429	725192	56	29166										
OR2G6	391211	broad.mit.edu	37	chr1	248685389	248685389	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtgcgtctctggccggtggaGcatggctcagcggcctcatc	15	13	3	0	rs138151830		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr1:248685389G>A	uc001ien.1	+	1	442	c.442G>A	c.(442-444)GCA>ACA	p.A148T		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGCCGGTGGAGCATGGCTCAG	0.577													9	23	---	---	---	---	PASS	A	248685389	A	A	248685389	3	1	77	1	0	0	0	0	1	0	0	0	11000	971	34	3	444	3	OR2G6	1	248685389	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	159960	248685389	565232	57	29167										
ATP6V1C2	245973	broad.mit.edu	37	chr2	10912726	10912726	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tctcagacatggtggtccctCgatcaaccaagtaagtgaga	10	10	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:10912726C>A	uc002ras.2	+	8	737	c.628C>A	c.(628-630)CGA>AGA	p.R210R	ATP6V1C2_uc002rat.2_Silent_p.R210R	NM_001039362	NP_001034451	Q8NEY4	VATC2_HUMAN	vacuolar H+ ATPase C2 isoform a	210					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.15)|OV - Ovarian serous cystadenocarcinoma(76;0.152)		GGTGGTCCCTCGATCAACCAA	0.512													7	348	---	---	---	---	PASS	A	10912726	A	A	10912726	2	1	77	1	0	0	0	0	0	0	0	1	1181	876	31	2		2	ATP6V1C2	2	10912726	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08		10912726	232286647	58	29168										
DNMT3A	1788	broad.mit.edu	37	chr2	25462032	25462032	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gaaggttaccccagaagtagCgggccctgtgtgcagctgac	14	11	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:25462032C>T	uc002rgc.2	-	20	2632	c.2375G>A	c.(2374-2376)CGC>CAC	p.R792H	DNMT3A_uc002rgd.2_Missense_Mutation_p.R792H|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Missense_Mutation_p.R603H	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	792					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding	p.R792H(1)		haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCAGAAGTAGCGGGCCCTGTG	0.557			Mis|F|N|S		AML								6	12	---	---	---	---	PASS	T	25462032	T	T	25462032	3	4	77	1	0	0	0	0	1	0	0	0	4676	768	27	1	379	1	DNMT3A	2	25462032	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	14549306	25462032	217737341	59	29169										
SLC4A1AP	22950	broad.mit.edu	37	chr2	27900188	27900188	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaattaaatgatgctgaaagGgaactttctgaaatttctga	8	4	2	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:27900188G>C	uc002rlk.3	+	7	1815	c.1533G>C	c.(1531-1533)AGG>AGC	p.R511S		NM_018158	NP_060628	Q9BWU0	NADAP_HUMAN	solute carrier family 4 (anion exchanger),	511	Potential.					cytoplasm|nucleus	double-stranded RNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)					ATGCTGAAAGGGAACTTTCTG	0.259													4	23	---	---	---	---	PASS	C	27900188	C	C	27900188	3	2	77	1	0	0	0	0	1	0	0	0	14653	1223	43	4	1559	4	SLC4A1AP	2	27900188	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2438156	27900188	215299185	60	29170										
YIPF4	84272	broad.mit.edu	37	chr2	32517245	32517245	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atttttattttaaaattataGggaagaattggacattgatc	7	2	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:32517245G>T	uc002rok.2	+	3	501	c.234_splice	c.e3-1	p.L78_splice		NM_032312	NP_115688	Q9BSR8	YIPF4_HUMAN	Yip1 domain family, member 4							endoplasmic reticulum|integral to membrane	protein binding				0	Acute lymphoblastic leukemia(172;0.155)					taaaattataGGGAAGAATTG	0.284													4	9	---	---	---	---	PASS	T	32517245	T	T	32517245	5	4	77	1	0	0	0	0	0	0	1	0	17477	1014	35	3	243	3	YIPF4	2	32517245	Splice_Site	SNP	G	TCGA-37-3789-01A-01D-0983-08	4617057	32517245	210682128	61	29171										
BIRC6	57448	broad.mit.edu	37	chr2	32738083	32738083	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caggatgaactacatgtgtcCtaactcctcaacagtagagt	8	10	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:32738083C>T	uc010ezu.2	+	54	10564	c.10430C>T	c.(10429-10431)CCT>CTT	p.P3477L		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3477					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)					TACATGTGTCCTAACTCCTCA	0.433													14	31	---	---	---	---	PASS	T	32738083	T	T	32738083	3	4	77	1	0	0	0	0	1	0	0	0	1438	681	24	3	10644	3	BIRC6	2	32738083	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	220838	32738083	210461290	62	29172										
BIRC6	57448	broad.mit.edu	37	chr2	32740349	32740349	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cttcctcttctcaatctcctGaagctattaaacaattacta	2	12	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:32740349G>C	uc010ezu.2	+	55	10995	c.10861G>C	c.(10861-10863)GAA>CAA	p.E3621Q		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3621					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)					TCAATCTCCTGAAGCTATTAA	0.408													11	40	---	---	---	---	PASS	C	32740349	C	C	32740349	3	2	77	1	0	0	0	0	1	0	0	0	1438	1291	45	2	11079	2	BIRC6	2	32740349	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2266	32740349	210459024	63	29173										
BIRC6	57448	broad.mit.edu	37	chr2	32774431	32774431	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtgcggtaaatggagaagctCagtcatctcatgagactaga	12	7	3	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:32774431C>G	uc010ezu.2	+	65	13161	c.13027C>G	c.(13027-13029)CAG>GAG	p.Q4343E		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4343					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)					TGGAGAAGCTCAGTCATCTCA	0.418													3	41	---	---	---	---	PASS	G	32774431	G	G	32774431	3	3	77	1	0	0	0	0	1	0	0	0	1438	827	29	2	13285	2	BIRC6	2	32774431	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	34082	32774431	210424942	64	29174										
ABCG8	64241	broad.mit.edu	37	chr2	44099383	44099383	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcgtgaccccactagacacCaactgcctcccgagtcctac	7	18	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:44099383C>T	uc002rtq.2	+	8	1239	c.1149C>T	c.(1147-1149)ACC>ACT	p.T383T	ABCG8_uc010yoa.1_Silent_p.T382T	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	383	Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CACTAGACACCAACTGCCTCC	0.592													6	21	---	---	---	---	PASS	T	44099383	T	T	44099383	2	4	77	1	0	0	0	0	0	0	0	1	72	581	21	3		3	ABCG8	2	44099383	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	11324952	44099383	199099990	65	29175										
SIX3	6496	broad.mit.edu	37	chr2	45169910	45169910	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggactcggagcctgttgcggGagtggtacctacaggacccc	15	12	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:45169910G>C	uc002run.1	+	1	874	c.667G>C	c.(667-669)GAG>CAG	p.E223Q		NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3	223	Homeobox.				visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CCTGTTGCGGGAGTGGTACCT	0.607													12	21	---	---	---	---	PASS	C	45169910	C	C	45169910	3	2	77	1	0	0	0	0	1	0	0	0	14348	1175	41	2	669	2	SIX3	2	45169910	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1070527	45169910	198029463	66	29176										
EPCAM	4072	broad.mit.edu	37	chr2	47612328	47612328	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atttccagaaagaagagaatGgcaaagtatgagaaggctga	12	4	0	5			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:47612328G>T	uc002rvx.2	+	8	1240	c.882G>T	c.(880-882)ATG>ATT	p.M294I	EPCAM_uc002rvw.2_Missense_Mutation_p.M322I	NM_002354	NP_002345	P16422	EPCAM_HUMAN	epithelial cell adhesion molecule precursor	294	Cytoplasmic (Potential).				positive regulation of cell proliferation	apical plasma membrane|basolateral plasma membrane|integral to membrane|lateral plasma membrane|tight junction	protein binding			skin(1)	1						AGAAGAGAATGGCAAAGTATG	0.353									Lynch_syndrome				8	167	---	---	---	---	PASS	T	47612328	T	T	47612328	3	4	77	1	0	0	0	0	1	0	0	0	5162	1348	47	3	912	3	EPCAM	2	47612328	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2442418	47612328	195587045	67	29177										
MSH2	4436	broad.mit.edu	37	chr2	47637275	47637275	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agtttgaagacattctctttGgtaacaatgatatgtcagct	8	6	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:47637275G>T	uc002rvy.1	+	3	477	c.409G>T	c.(409-411)GGT>TGT	p.G137C	MSH2_uc010yoh.1_Missense_Mutation_p.G71C|MSH2_uc002rvz.2_Missense_Mutation_p.G137C|MSH2_uc010fbg.2_5'UTR|MSH2_uc010fbf.1_Intron	NM_000251	NP_000242	P43246	MSH2_HUMAN	mutS homolog 2	137					B cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|double-strand break repair|intra-S DNA damage checkpoint|isotype switching|maintenance of DNA repeat elements|male gonad development|meiotic gene conversion|meiotic mismatch repair|negative regulation of neuron apoptosis|negative regulation of reciprocal meiotic recombination|positive regulation of helicase activity|postreplication repair|response to UV-B|response to X-ray|somatic hypermutation of immunoglobulin genes	MutSalpha complex|MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|guanine/thymine mispair binding|loop DNA binding|protein C-terminus binding|protein homodimerization activity|protein kinase binding|Y-form DNA binding			large_intestine(33)|haematopoietic_and_lymphoid_tissue(6)|endometrium(4)|ovary(3)|cervix(2)|central_nervous_system(2)|stomach(1)|small_intestine(1)|breast(1)|skin(1)|prostate(1)	55		all_hematologic(82;0.0359)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			cattctctttggtaacaatga	0.284			D|Mis|N|F|S		colorectal|endometrial|ovarian	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				9	247	---	---	---	---	PASS	T	47637275	T	T	47637275	3	4	77	1	0	0	0	0	1	0	0	0	9870	1348	47	3	419	3	MSH2	2	47637275	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	24947	47637275	195562098	68	29178										
CCDC88A	55704	broad.mit.edu	37	chr2	55529038	55529038	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaccaactgcttggatctgaAgcctgcagaagagttgacag	11	9	1	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:55529038A>T	uc002ryv.2	-	27	5481	c.4639T>A	c.(4639-4641)TTC>ATC	p.F1547I	CCDC88A_uc010yoz.1_Missense_Mutation_p.F1520I|CCDC88A_uc010ypa.1_Missense_Mutation_p.F1547I|CCDC88A_uc010fbw.2_Intron|CCDC88A_uc002ryu.2_Missense_Mutation_p.F802I|CCDC88A_uc002rys.2_Missense_Mutation_p.F505I|CCDC88A_uc002ryw.2_Missense_Mutation_p.F831I|CCDC88A_uc010fby.1_Missense_Mutation_p.F399I	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	1548					activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						TTGGATCTGAAGCCTGCAGAA	0.393													24	46	---	---	---	---	PASS	T	55529038	T	T	55529038	3	4	77	1	0	0	0	0	1	0	0	0	2863	72	3	5	997	5	CCDC88A	2	55529038	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	7891763	55529038	187670335	69	29179										
CCDC104	112942	broad.mit.edu	37	chr2	55771501	55771501	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aggaaaacccactggggaggTagaggtatggctagccttaa	14	7	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:55771501T>C	uc002ryy.2	+	9	1121	c.923T>C	c.(922-924)GTA>GCA	p.V308A	CCDC104_uc002ryx.2_Missense_Mutation_p.V333A	NM_080667	NP_542398	Q96G28	CC104_HUMAN	coiled-coil domain containing 104	308										ovary(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			ACTGGGGAGGTAGAGGTATGG	0.378													7	19	---	---	---	---	PASS	C	55771501	C	C	55771501	3	2	77	1	0	0	0	0	1	0	0	0	2739	1638	57	5	957	5	CCDC104	2	55771501	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	242463	55771501	187427872	70	29180										
C2orf86	51057	broad.mit.edu	37	chr2	63631216	63631216	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagcacacccaaaggtcctcTttcaaacctgaggaagagga	9	12	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:63631216T>C	uc002sch.2	-	10	1848	c.1402A>G	c.(1402-1404)AGA>GGA	p.R468G	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Missense_Mutation_p.R309G|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Missense_Mutation_p.R276G|C2orf86_uc002sci.1_Missense_Mutation_p.R444G|C2orf86_uc010fcr.1_Missense_Mutation_p.R358G	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	468					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						AAAGGTCCTCTTTCAAACCTG	0.388													12	32	---	---	---	---	PASS	C	63631216	C	C	63631216	3	2	77	1	0	0	0	0	1	0	0	0	2201	1617	56	5	874	5	C2orf86	2	63631216	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	7859715	63631216	179568157	71	29181										
ALMS1	7840	broad.mit.edu	37	chr2	73717530	73717530	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agaaaaacccttagaaagatCagattttacaggcagtcatt	7	7	2	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:73717530C>G	uc002sje.1	+	12	8558	c.8447C>G	c.(8446-8448)TCA>TGA	p.S2816*	ALMS1_uc002sjf.1_Nonsense_Mutation_p.S2772*|ALMS1_uc002sjg.2_Nonsense_Mutation_p.S2202*|ALMS1_uc002sjh.1_Nonsense_Mutation_p.S2202*	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2814					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TTAGAAAGATCAGATTTTACA	0.378													7	40	---	---	---	---	PASS	G	73717530	G	G	73717530	4	3	77	1	0	0	0	0	0	1	0	0	535	838	29	2	8479	2	ALMS1	2	73717530	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	10086314	73717530	169481843	72	29182										
FER1L5	90342	broad.mit.edu	37	chr2	97329243	97329243	+	Frame_Shift_Del	DEL	A	-	-													0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gatcctgaccttccggattcAggtatggctcctccatcatg							TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:97329243delA	uc010fia.2	+	13	1088	c.1088delA	c.(1087-1089)CAGfs	p.Q363fs		NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	363	C2 3.					integral to membrane				ovary(1)	1						TTCCGGATTCAGGTATGGCTC	0.552													4	2	---	---	---	---		-	97329243	-	-	97329243	7	5	77	1	0	1	0	1	0	0	0	0	5814	202	7	0	1138	0	FER1L5	2	97329243	Frame_Shift_Del	DEL	A	TCGA-37-3789-01A-01D-0983-08	23611713	97329243	145870130	73	29183										
MFSD9	84804	broad.mit.edu	37	chr2	103353166	103353166	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctccgacggcaccggagtcgGcagcctccgcctcggttcct	12	18	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:103353166G>T	uc002tcb.2	-	1	172	c.104C>A	c.(103-105)GCC>GAC	p.A35D	TMEM182_uc002tcc.3_5'Flank|TMEM182_uc002tcd.3_5'Flank|MFSD9_uc010fja.2_RNA	NM_032718	NP_116107	Q8NBP5	MFSD9_HUMAN	major facilitator superfamily domain containing	35					transmembrane transport	integral to membrane|plasma membrane	transporter activity			ovary(2)|breast(2)	4						ACCGGAGTCGGCAGCCTCCGC	0.657													7	12	---	---	---	---	PASS	T	103353166	T	T	103353166	3	4	77	1	0	0	0	0	1	0	0	0	9539	1203	42	3	1344	3	MFSD9	2	103353166	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	6023923	103353166	139846207	74	29184										
NPHP1	4867	broad.mit.edu	37	chr2	110926116	110926116	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggttttttttcaattacaagGagaatttcccctttcttaaa	5	7	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:110926116G>T	uc002tfn.3	-	6	631	c.537C>A	c.(535-537)CTC>CTA	p.L179L	NPHP1_uc002tfm.3_Silent_p.L179L|NPHP1_uc002tfl.3_Silent_p.L179L|NPHP1_uc002tfo.3_Silent_p.L117L|NPHP1_uc010ywx.1_Silent_p.L179L|NPHP1_uc010fjv.1_Silent_p.L179L	NM_207181	NP_997064	O15259	NPHP1_HUMAN	nephrocystin 1 isoform 2	179	SH3.				actin cytoskeleton organization|cell projection organization|cell-cell adhesion|excretion|retina development in camera-type eye|signal transduction|spermatid differentiation|visual behavior	adherens junction|cell-cell junction|cilium axoneme|cytoplasm|cytoskeleton|motile cilium|photoreceptor connecting cilium	protein binding|structural molecule activity			ovary(2)	2						CAATTACAAGGAGAATTTCCC	0.338													5	29	---	---	---	---	PASS	T	110926116	T	T	110926116	2	4	77	1	0	0	0	0	0	0	0	1	10579	1161	41	2		2	NPHP1	2	110926116	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	7572950	110926116	132273257	75	29185										
NCKAP5	344148	broad.mit.edu	37	chr2	133618158	133618158	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaatcaaacactcttgttttCaacttcacacattcctctct	1	13	5	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:133618158C>G	uc002ttp.2	-	11	1088	c.714G>C	c.(712-714)TTG>TTC	p.L238F	NCKAP5_uc002ttq.2_Missense_Mutation_p.L238F	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	238	Potential.						protein binding				0						CTCTTGTTTTCAACTTCACAC	0.393													4	4	---	---	---	---	PASS	G	133618158	G	G	133618158	3	3	77	1	0	0	0	0	1	0	0	0	10223	825	29	2	5055	2	NCKAP5	2	133618158	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	22692042	133618158	109581215	76	29186										
STAM2	10254	broad.mit.edu	37	chr2	152977291	152977291	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gttctggttcatataagtagGattggaaacagtgtcttgtc	11	5	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:152977291G>C	uc002tyc.3	-	14	1725	c.1375C>G	c.(1375-1377)CCT>GCT	p.P459A		NM_005843	NP_005834	O75886	STAM2_HUMAN	signal transducing adaptor molecule 2	459					cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.22)		ATATAAGTAGGATTGGAAACA	0.353													3	30	---	---	---	---	PASS	C	152977291	C	C	152977291	3	2	77	1	0	0	0	0	1	0	0	0	15248	1174	41	2	206	2	STAM2	2	152977291	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	19359133	152977291	90222082	77	29187										
KCNJ3	3760	broad.mit.edu	37	chr2	155555379	155555379	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcagccccaggggccaggccAggaccctcagcagcagcttg	14	16	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:155555379A>T	uc002tyv.1	+	1	287	c.92A>T	c.(91-93)CAG>CTG	p.Q31L	KCNJ3_uc010zce.1_Missense_Mutation_p.Q31L	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	31	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	GGGCCAGGCCAGGACCCTCAG	0.597													5	21	---	---	---	---	PASS	T	155555379	T	T	155555379	3	4	77	1	0	0	0	0	1	0	0	0	8052	188	7	5	94	5	KCNJ3	2	155555379	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	2578088	155555379	87643994	78	29188										
ACVR1	90	broad.mit.edu	37	chr2	158622653	158622653	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cccatttcatgataatgtgtAattaaccacagctgggtact	7	9	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:158622653A>G	uc002tzm.3	-	9	1185	c.846T>C	c.(844-846)ATT>ATC	p.I282I	ACVR1_uc002tzn.3_Silent_p.I282I|ACVR1_uc010fog.2_Silent_p.I282I	NM_001111067	NP_001104537	Q04771	ACVR1_HUMAN	activin A receptor, type I precursor	282	Cytoplasmic (Potential).|Protein kinase.				BMP signaling pathway|G1/S transition of mitotic cell cycle|negative regulation of activin receptor signaling pathway|negative regulation of apoptosis|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	activin receptor complex	activin binding|ATP binding|follistatin binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta binding			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.104)	Adenosine triphosphate(DB00171)	GATAATGTGTAATTAACCACA	0.408													10	38	---	---	---	---	PASS	G	158622653	G	G	158622653	2	3	77	1	0	0	0	0	0	0	0	1	220	358	13	5		5	ACVR1	2	158622653	Silent	SNP	A	TCGA-37-3789-01A-01D-0983-08	3067274	158622653	84576720	79	29189										
MYO3B	140469	broad.mit.edu	37	chr2	171073828	171073828	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tctgatactctttccttataGgtgtttcagctcaactcacc	5	12	5	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:171073828G>T	uc002ufy.2	+	6	670	c.527_splice	c.e6-1	p.G176_splice	MYO3B_uc002ufv.2_Splice_Site_p.G163_splice|MYO3B_uc010fqb.1_Splice_Site_p.G163_splice|MYO3B_uc002ufz.2_Splice_Site_p.G176_splice|MYO3B_uc002ufw.2_Splice_Site|MYO3B_uc002ufx.2_Splice_Site|MYO3B_uc002uga.2_Splice_Site_p.G163_splice	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2						response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						TTTCCTTATAGGTGTTTCAGC	0.348													7	133	---	---	---	---	PASS	T	171073828	T	T	171073828	5	4	77	1	0	0	0	0	0	0	1	0	10077	1014	35	3	548	3	MYO3B	2	171073828	Splice_Site	SNP	G	TCGA-37-3789-01A-01D-0983-08	12451175	171073828	72125545	80	29190										
DIRC1	116093	broad.mit.edu	37	chr2	189599468	189599468	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	taaaagcatgtgtctgagatGatggaaggctccaatgttgc	12	6	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:189599468G>A	uc002uqi.1	-	2	451	c.180C>T	c.(178-180)ATC>ATT	p.I60I		NM_052952	NP_443184	Q969H9	DIRC1_HUMAN	disrupted in renal carcinoma 1	60											0			OV - Ovarian serous cystadenocarcinoma(117;0.00842)|Epithelial(96;0.102)			TGTCTGAGATGATGGAAGGCT	0.428													7	32	---	---	---	---	PASS	A	189599468	A	A	189599468	2	1	77	1	0	0	0	0	0	0	0	1	4533	1280	45	2		2	DIRC1	2	189599468	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	18525640	189599468	53599905	81	29191										
RAPH1	65059	broad.mit.edu	37	chr2	204305807	204305807	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acaactccattggggggtacCaggatctgaggcttcactga	12	10	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:204305807C>A	uc002vad.2	-	14	2331	c.2106G>T	c.(2104-2106)CTG>CTT	p.L702L		NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	702					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10						TGGGGGGTACCAGGATCTGAG	0.468													5	30	---	---	---	---	PASS	A	204305807	A	A	204305807	2	1	77	1	0	0	0	0	0	0	0	1	13050	581	21	3		3	RAPH1	2	204305807	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	14706339	204305807	38893566	82	29192										
MAP2	4133	broad.mit.edu	37	chr2	210559534	210559534	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aagtacacagtcccattgccAtcacctgttcaagacagtga	7	12	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:210559534A>G	uc002vde.1	+	7	2888	c.2640A>G	c.(2638-2640)CCA>CCG	p.P880P	MAP2_uc002vdc.1_Silent_p.P880P|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.P876P	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	880					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)	TCCCATTGCCATCACCTGTTC	0.458													5	21	---	---	---	---	PASS	G	210559534	G	G	210559534	2	3	77	1	0	0	0	0	0	0	0	1	9235	204	8	5		5	MAP2	2	210559534	Silent	SNP	A	TCGA-37-3789-01A-01D-0983-08	6253727	210559534	32639839	83	29193										
TNS1	7145	broad.mit.edu	37	chr2	218682908	218682908	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggaggccaggttgccttggtGagccccagggtgccggccca	17	13	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:218682908G>T	uc002vgt.2	-	24	4233	c.3835C>A	c.(3835-3837)CAC>AAC	p.H1279N	TNS1_uc002vgr.2_Missense_Mutation_p.H1266N|TNS1_uc002vgs.2_Missense_Mutation_p.H1258N|TNS1_uc010zjv.1_Missense_Mutation_p.H1258N	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1279						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		TTGCCTTGGTGAGCCCCAGGG	0.657													6	14	---	---	---	---	PASS	T	218682908	T	T	218682908	3	4	77	1	0	0	0	0	1	0	0	0	16340	1290	45	2	1412	2	TNS1	2	218682908	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	8123374	218682908	24516465	84	29194										
PRKAG3	53632	broad.mit.edu	37	chr2	219688495	219688495	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcagatcttctcaggccccgAgggcatcgatgccagcaggg	13	13	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:219688495A>T	uc002vjb.1	-	13	1479	c.1460T>A	c.(1459-1461)CTC>CAC	p.L487H		NM_017431	NP_059127	Q9UGI9	AAKG3_HUMAN	AMP-activated protein kinase, non-catalytic	487				ALGA -> PSGPEKI (in Ref. 1; CAB65117).	cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|intracellular protein kinase cascade|regulation of fatty acid oxidation	cytosol	AMP-activated protein kinase activity|protein kinase binding			ovary(1)|lung(1)	2		Renal(207;0.0474)		Epithelial(149;4.35e-07)|all cancers(144;8.96e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCAGGCCCCGAGGGCATCGAT	0.602													29	77	---	---	---	---	PASS	T	219688495	T	T	219688495	3	4	77	1	0	0	0	0	1	0	0	0	12502	304	11	5	13	5	PRKAG3	2	219688495	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	1005587	219688495	23510878	85	29195										
CCDC108	255101	broad.mit.edu	37	chr2	219878615	219878615	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttttaactccaccatctgctCctgcccaggactcaggctcc	6	17	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:219878615C>G	uc002vjl.1	-	22	3838	c.3754G>C	c.(3754-3756)GAG>CAG	p.E1252Q		NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	1252						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACCATCTGCTCCTGCCCAGGA	0.567													6	25	---	---	---	---	PASS	G	219878615	G	G	219878615	3	3	77	1	0	0	0	0	1	0	0	0	2743	864	30	2	2079	2	CCDC108	2	219878615	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	190120	219878615	23320758	86	29196										
TUBA4A	7277	broad.mit.edu	37	chr2	220115077	220115077	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggctccaggcagctgctttaTtcttctccctcatcctcgtc	7	16	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:220115077T>C	uc002vkt.1	-	4	1402	c.1344A>G	c.(1342-1344)GAA>GAG	p.E448E	TUBA4A_uc010zkz.1_Silent_p.E433E|TUBA4B_uc002vku.2_5'Flank|TUBA4B_uc002vkv.1_5'Flank	NM_006000	NP_005991	P68366	TBA4A_HUMAN	tubulin, alpha 4a	448					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|platelet activation|platelet degranulation|protein polymerization	cytosol|extracellular region|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)	3		Renal(207;0.0474)		Epithelial(149;1.16e-06)|all cancers(144;0.000191)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGCTGCTTTATTCTTCTCCCT	0.493													57	157	---	---	---	---	PASS	C	220115077	C	C	220115077	2	2	77	1	0	0	0	0	0	0	0	1	16746	1490	52	5		5	TUBA4A	2	220115077	Silent	SNP	T	TCGA-37-3789-01A-01D-0983-08	236462	220115077	23084296	87	29197										
PAX3	5077	broad.mit.edu	37	chr2	223066140	223066140	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agttcacttacgcgatatctGgcttgagataatgaaaggca	10	7	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:223066140G>T	uc002vmt.1	-	9	1808	c.1442C>A	c.(1441-1443)CCA>CAA	p.P481Q	PAX3_uc002vmy.1_Missense_Mutation_p.P480Q|PAX3_uc002vmv.1_Missense_Mutation_p.P481Q|PAX3_uc002vmw.1_Missense_Mutation_p.Q399K|PAX3_uc002vmx.1_Missense_Mutation_p.Q399K	NM_181459	NP_852124	P23760	PAX3_HUMAN	paired box 3 isoform PAX3e	Error:Variant_position_missing_in_P23760_after_alignment					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)		CGCGATATCTGGCTTGAGATA	0.453			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						16	59	---	---	---	---	PASS	T	223066140	T	T	223066140	3	4	77	1	0	0	0	0	1	0	0	0	11480	1357	47	3	91	3	PAX3	2	223066140	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2951063	223066140	20133233	88	29198										
KIAA1486	57624	broad.mit.edu	37	chr2	226446968	226446968	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agtaccctatctttgacgacTtgggccaagacgccaaatgt	9	11	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:226446968T>G	uc002voe.2	+	4	1010	c.835T>G	c.(835-837)TTG>GTG	p.L279V	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.L49V	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	279										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		CTTTGACGACTTGGGCCAAGA	0.547													27	84	---	---	---	---	PASS	G	226446968	G	G	226446968	3	3	77	1	0	0	0	0	1	0	0	0	8237	1606	56	5	845	5	KIAA1486	2	226446968	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	3380828	226446968	16752405	89	29199										
TRIP12	9320	broad.mit.edu	37	chr2	230678991	230678991	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgtctccgtgacaacatctcCaaggcagtcaaggcctgctc	9	14	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:230678991C>A	uc002vpw.1	-	11	1747	c.1638G>T	c.(1636-1638)TTG>TTT	p.L546F	TRIP12_uc002vpx.1_Missense_Mutation_p.L594F|TRIP12_uc002vpy.1_Missense_Mutation_p.L249F|TRIP12_uc010zlz.1_Intron|TRIP12_uc010fxh.1_Missense_Mutation_p.L552F	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	546					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)		ACAACATCTCCAAGGCAGTCA	0.393													6	61	---	---	---	---	PASS	A	230678991	A	A	230678991	3	1	77	1	0	0	0	0	1	0	0	0	16553	593	21	3	4464	3	TRIP12	2	230678991	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	4232023	230678991	12520382	90	29200										
SP100	6672	broad.mit.edu	37	chr2	231404037	231404037	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atggggacggctgttctgctGcgacacttgtccaagatcct	12	11	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:231404037G>T	uc002vqu.1	+	25	2291	c.2150G>T	c.(2149-2151)TGC>TTC	p.C717F	SP100_uc010fxp.1_Missense_Mutation_p.C35F	NM_001080391	NP_001073860	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 1	Error:Variant_position_missing_in_P23497_after_alignment					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CTGTTCTGCTGCGACACTTGT	0.507													16	49	---	---	---	---	PASS	T	231404037	T	T	231404037	3	4	77	1	0	0	0	0	1	0	0	0	14960	1319	46	3	2798	3	SP100	2	231404037	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	725046	231404037	11795336	91	29201										
DGKD	8527	broad.mit.edu	37	chr2	234356821	234356821	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcactcggtggtcatctcctCggccaagtgagtgcctggtg	14	12	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:234356821C>A	uc002vui.1	+	13	1520	c.1508C>A	c.(1507-1509)TCG>TAG	p.S503*	DGKD_uc002vuj.1_Nonsense_Mutation_p.S459*|DGKD_uc010fyh.1_Nonsense_Mutation_p.S370*|DGKD_uc010fyi.1_RNA	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	503					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	GTCATCTCCTCGGCCAAGTGA	0.582													4	56	---	---	---	---	PASS	A	234356821	A	A	234356821	4	1	77	1	0	0	0	0	0	1	0	0	4467	893	31	2	1582	2	DGKD	2	234356821	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2952784	234356821	8842552	92	29202										
ASB18	401036	broad.mit.edu	37	chr2	237172907	237172907	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atccctcactctctcctcatCtttggcatccagggcagact	6	16	4	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr2:237172907C>G	uc010znh.1	-	1	82	c.82G>C	c.(82-84)GAT>CAT	p.D28H		NM_212556	NP_997721	Q6ZVZ8	ASB18_HUMAN	ankyrin repeat and SOCS box-containing 18	28					intracellular signal transduction					ovary(1)	1		all_hematologic(139;0.00615)|Renal(207;0.00963)|Breast(86;0.0126)|Acute lymphoblastic leukemia(138;0.0815)		Epithelial(121;2.04e-26)|OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(100;2.88e-05)|Lung(119;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00644)|GBM - Glioblastoma multiforme(43;0.244)		CTCTCCTCATCTTTGGCATCC	0.488													24	47	---	---	---	---	PASS	G	237172907	G	G	237172907	3	3	77	1	0	0	0	0	1	0	0	0	1022	913	32	2	1341	2	ASB18	2	237172907	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2816086	237172907	6026466	93	29203										
GADL1	339896	broad.mit.edu	37	chr3	30842474	30842474	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acttgaatgcatctggtcttCtgctacactggatagacttg	9	9	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:30842474C>T	uc003cep.2	-	12	1204	c.1157G>A	c.(1156-1158)AGA>AAA	p.R386K	GADL1_uc003ceq.1_Missense_Mutation_p.R386K	NM_207359	NP_997242	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1	386					carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	ATCTGGTCTTCTGCTACACTG	0.438													12	14	---	---	---	---	PASS	T	30842474	T	T	30842474	3	4	77	1	0	0	0	0	1	0	0	0	6185	913	32	2	424	2	GADL1	3	30842474	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08		30842474	167179956	94	29204										
DYNC1LI1	51143	broad.mit.edu	37	chr3	32574570	32574570	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	taatattcctattttcttatCattatcccaccctgctggac	3	12	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:32574570C>G	uc003cfb.3	-	8	1076	c.988G>C	c.(988-990)GAT>CAT	p.D330H	DYNC1LI1_uc011axh.1_Missense_Mutation_p.D214H	NM_016141	NP_057225	Q9Y6G9	DC1L1_HUMAN	dynein, cytoplasmic 1, light intermediate chain	330					cell division|interspecies interaction between organisms|mitosis|positive regulation of mitotic cell cycle spindle assembly checkpoint|transport	centrosome|condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|plasma membrane|spindle pole	ATP binding|motor activity			ovary(1)	1						ATTTTCTTATCATTATCCCAC	0.303													9	25	---	---	---	---	PASS	G	32574570	G	G	32574570	3	3	77	1	0	0	0	0	1	0	0	0	4844	826	29	2	607	2	DYNC1LI1	3	32574570	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1732096	32574570	165447860	95	29205										
OXSR1	9943	broad.mit.edu	37	chr3	38207437	38207437	+	Frame_Shift_Del	DEL	G	-	-													0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acgagctgcaggaggtgatcGgtgagagcaggcgctgcgga							TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:38207437delG	uc003chy.2	+	1	412	c.70delG	c.(70-72)GGGfs	p.G24fs	OXSR1_uc010hhb.2_5'UTR|OXSR1_uc010hha.1_5'UTR	NM_005109	NP_005100	O95747	OXSR1_HUMAN	oxidative-stress responsive 1	24	Protein kinase.|ATP (By similarity).				intracellular protein kinase cascade|response to oxidative stress		ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		GGAGGTGATCGGTGAGAGCAG	0.716													4	2	---	---	---	---		-	38207437	-	-	38207437	7	5	77	1	0	1	0	1	0	0	0	0	11336	1130	39	0	72	0	OXSR1	3	38207437	Frame_Shift_Del	DEL	G	TCGA-37-3789-01A-01D-0983-08	5632867	38207437	159814993	96	29206										
CX3CR1	1524	broad.mit.edu	37	chr3	39306949	39306949	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cccttcagagaaggagcaatGcatctccatcactcgtgtgg	10	12	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:39306949G>A	uc003cjl.2	-	2	1144	c.1052C>T	c.(1051-1053)GCA>GTA	p.A351V		NM_001337	NP_001328	P49238	CX3C1_HUMAN	chemokine (C-X3-C motif) receptor 1	351	Cytoplasmic (Potential).				cell adhesion|cellular defense response|chemotaxis|interspecies interaction between organisms|response to wounding	integral to plasma membrane	chemokine receptor activity			lung(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.0557)|Kidney(284;0.0699)		AAGGAGCAATGCATCTCCATC	0.458													71	86	---	---	---	---	PASS	A	39306949	A	A	39306949	3	1	77	1	0	0	0	0	1	0	0	0	4075	1319	46	3	19	3	CX3CR1	3	39306949	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1099512	39306949	158715481	97	29207										
DOCK3	1795	broad.mit.edu	37	chr3	51400047	51400047	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcccttcttcctccagcctGagttccactcactcagcacc	5	19	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:51400047G>C	uc011bds.1	+	49	5258	c.5235G>C	c.(5233-5235)CTG>CTC	p.L1745L		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1745	Ser-rich.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		CCTCCAGCCTGAGTTCCACTC	0.572													13	20	---	---	---	---	PASS	C	51400047	C	C	51400047	2	2	77	1	0	0	0	0	0	0	0	1	4688	1277	45	2		2	DOCK3	3	51400047	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	12093098	51400047	146622383	98	29208										
WDR52	55779	broad.mit.edu	37	chr3	113135375	113135375	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tatgcttctggactcacctcGaaggactctgtatggtctca	9	11	4	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:113135375G>T	uc003eae.1	-	6	716	c.670C>A	c.(670-672)CGA>AGA	p.R224R		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	224										central_nervous_system(1)	1						GACTCACCTCGAAGGACTCTG	0.313													3	11	---	---	---	---	PASS	T	113135375	T	T	113135375	2	4	77	1	0	0	0	0	0	0	0	1	17301	1066	37	2		2	WDR52	3	113135375	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	61735328	113135375	84887055	99	29209										
ZNF80	7634	broad.mit.edu	37	chr3	113955552	113955552	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctctccagtgtgaatctggcGgtagcacaggaggtgcgacc	14	11	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:113955552G>C	uc010hqo.2	-	1	874	c.370C>G	c.(370-372)CGC>GGC	p.R124G	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	124	C2H2-type 3; atypical.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)				TGAATCTGGCGGTAGCACAGG	0.562													16	46	---	---	---	---	PASS	C	113955552	C	C	113955552	3	2	77	1	0	0	0	0	1	0	0	0	18165	1116	39	4	455	4	ZNF80	3	113955552	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	820177	113955552	84066878	100	29210										
NR1I2	8856	broad.mit.edu	37	chr3	119530414	119530414	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tccgacgaggccgtggaggaGaggcgggccttgatcaagcg	18	10	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:119530414G>C	uc003edj.2	+	4	2199	c.360G>C	c.(358-360)GAG>GAC	p.E120D	NR1I2_uc003edi.2_Missense_Mutation_p.E120D|NR1I2_uc003edk.2_Missense_Mutation_p.E159D|NR1I2_uc003edl.2_Missense_Mutation_p.E8D	NM_003889	NP_003880	O75469	NR1I2_HUMAN	nuclear receptor subfamily 1, group I, member 2	120	Hinge.				drug export|exogenous drug catabolic process|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid metabolic process|xenobiotic metabolic process|xenobiotic transport	nucleoplasm	drug binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(114;0.175)	Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Rifampin(DB01045)|Vitamin E(DB00163)	CCGTGGAGGAGAGGCGGGCCT	0.632													8	22	---	---	---	---	PASS	C	119530414	C	C	119530414	3	2	77	1	0	0	0	0	1	0	0	0	10620	933	33	2	491	2	NR1I2	3	119530414	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	5574862	119530414	78492016	101	29211										
STXBP5L	9515	broad.mit.edu	37	chr3	120876471	120876471	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctttccagaccacaattccaCatggtaagatgtatgctttc	6	11	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:120876471C>G	uc003eec.3	+	9	1014	c.874C>G	c.(874-876)CAT>GAT	p.H292D	STXBP5L_uc011bji.1_Missense_Mutation_p.H292D	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	292					exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		CACAATTCCACATGGTAAGAT	0.413													4	27	---	---	---	---	PASS	G	120876471	G	G	120876471	3	3	77	1	0	0	0	0	1	0	0	0	15356	478	17	4	904	4	STXBP5L	3	120876471	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1346057	120876471	77145959	102	29212										
PARP14	54625	broad.mit.edu	37	chr3	122447289	122447289	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttactggaatctatacacatGgaaatcattcattaattgtg	6	6	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:122447289G>T	uc003efq.3	+	17	5310	c.5251G>T	c.(5251-5253)GGA>TGA	p.G1751*	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Nonsense_Mutation_p.G1468*	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	1751	PARP catalytic.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		CTATACACATGGAAATCATTC	0.393													8	117	---	---	---	---	PASS	T	122447289	T	T	122447289	4	4	77	1	0	0	0	0	0	1	0	0	11458	1349	47	3	5317	3	PARP14	3	122447289	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1570818	122447289	75575141	103	29213										
PIK3R4	30849	broad.mit.edu	37	chr3	130463401	130463401	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgctatttaagtctacaagcGgagttgaaggatctctcata	9	7	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:130463401G>A	uc003enj.2	-	2	1243	c.662C>T	c.(661-663)CCG>CTG	p.P221L		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	221	Protein kinase.				fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						GTCTACAAGCGGAGTTGAAGG	0.428													22	73	---	---	---	---	PASS	A	130463401	A	A	130463401	3	1	77	1	0	0	0	0	1	0	0	0	11921	1116	39	1	3490	1	PIK3R4	3	130463401	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	8016112	130463401	67559029	104	29214										
MRPL3	11222	broad.mit.edu	37	chr3	131220414	131220414	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aggccatggttcatctttcaGaggacacagtttacttgcta	9	9	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:131220414G>T	uc003eoh.2	-	2	402	c.238C>A	c.(238-240)CTG>ATG	p.L80M	MRPL3_uc011blo.1_Translation_Start_Site|MRPL3_uc011blp.1_Missense_Mutation_p.L107M	NM_007208	NP_009139	P09001	RM03_HUMAN	mitochondrial ribosomal protein L3	80					translation	mitochondrial large ribosomal subunit	RNA binding|structural constituent of ribosome				0						TCATCTTTCAGAGGACACAGT	0.398													8	205	---	---	---	---	PASS	T	131220414	T	T	131220414	3	4	77	1	0	0	0	0	1	0	0	0	9793	933	33	2	844	2	MRPL3	3	131220414	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	757013	131220414	66802016	105	29215										
DNAJC13	23317	broad.mit.edu	37	chr3	132185186	132185186	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggaaagctcagatctcgtacCtgagaaggatgctgatcgga	13	8	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:132185186C>A	uc003eor.2	+	19	2077	c.2012C>A	c.(2011-2013)CCT>CAT	p.P671H	DNAJC13_uc010htq.1_Missense_Mutation_p.P671H	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	671							heat shock protein binding			ovary(1)|breast(1)	2						GATCTCGTACCTGAGAAGGAT	0.393													6	54	---	---	---	---	PASS	A	132185186	A	A	132185186	3	1	77	1	0	0	0	0	1	0	0	0	4632	681	24	3	2082	3	DNAJC13	3	132185186	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	964772	132185186	65837244	106	29216										
TF	7018	broad.mit.edu	37	chr3	133478162	133478162	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agaccaccgaagactgcatcGccaagatcatggtatgtcac	9	12	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:133478162G>T	uc003epu.1	+	14	2920	c.1192G>T	c.(1192-1194)GCC>TCC	p.A398S	TF_uc011blt.1_Missense_Mutation_p.A271S|TF_uc003epw.1_Intron|TF_uc003epv.1_Missense_Mutation_p.A398S	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	398	Transferrin-like 2.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	AGACTGCATCGCCAAGATCAT	0.547													53	64	---	---	---	---	PASS	T	133478162	T	T	133478162	3	4	77	1	0	0	0	0	1	0	0	0	15782	1087	38	1	1226	1	TF	3	133478162	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1292976	133478162	64544268	107	29217										
SLCO2A1	6578	broad.mit.edu	37	chr3	133666218	133666218	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcggggaatggcttgtagagAgaaaacaaagcgcttcatga	14	6	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:133666218A>G	uc003eqa.3	-	9	1451	c.1177T>C	c.(1177-1179)TCT>CCT	p.S393P	SLCO2A1_uc003eqb.3_Missense_Mutation_p.S317P|SLCO2A1_uc011blv.1_Missense_Mutation_p.S212P	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	393	Helical; Name=9; (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						GCTTGTAGAGAGAAAACAAAG	0.507													13	51	---	---	---	---	PASS	G	133666218	G	G	133666218	3	3	77	1	0	0	0	0	1	0	0	0	14726	304	11	5	778	5	SLCO2A1	3	133666218	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	188056	133666218	64356212	108	29218										
MSL2	55167	broad.mit.edu	37	chr3	135870092	135870092	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	accctgtgacatttattacaCtggtgctggtactagcgtta	9	9	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:135870092C>A	uc003eqx.1	-	2	2364	c.1631G>T	c.(1630-1632)AGT>ATT	p.S544I	MSL2_uc011bmb.1_Missense_Mutation_p.S470I	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	544					histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						ATTTATTACACTGGTGCTGGT	0.473													11	56	---	---	---	---	PASS	A	135870092	A	A	135870092	3	1	77	1	0	0	0	0	1	0	0	0	9878	565	20	3	106	3	MSL2	3	135870092	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2203874	135870092	62152338	109	29219										
A4GNT	51146	broad.mit.edu	37	chr3	137843236	137843236	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgcttcctctaatcacagccCgcccctcctggttcatgtgg	8	16	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:137843236C>T	uc003ers.2	-	3	1095	c.893G>A	c.(892-894)CGG>CAG	p.R298Q		NM_016161	NP_057245	Q9UNA3	A4GCT_HUMAN	alpha-1,4-N-acetylglucosaminyltransferase	298	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	acetylglucosaminyltransferase activity|galactosyltransferase activity			central_nervous_system(1)	1						AATCACAGCCCGCCCCTCCTG	0.517													16	66	---	---	---	---	PASS	T	137843236	T	T	137843236	3	4	77	1	0	0	0	0	1	0	0	0	7	652	23	1	133	1	A4GNT	3	137843236	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1973144	137843236	60179194	110	29220										
ESYT3	83850	broad.mit.edu	37	chr3	138183263	138183263	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tctggggctccgaggcaagtCagatccctacgccaaggtga	13	12	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:138183263C>G	uc003esk.2	+	9	1218	c.992C>G	c.(991-993)TCA>TGA	p.S331*	ESYT3_uc010hug.2_RNA	NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain	331	C2 1.					integral to membrane|plasma membrane					0						CGAGGCAAGTCAGATCCCTAC	0.572													20	37	---	---	---	---	PASS	G	138183263	G	G	138183263	4	3	77	1	0	0	0	0	0	1	0	0	5266	838	29	2	1026	2	ESYT3	3	138183263	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	340027	138183263	59839167	111	29221										
ZBTB38	253461	broad.mit.edu	37	chr3	141163129	141163129	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aacagtccagccatcccattGgaaacatctgcatgtcagga	8	12	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:141163129G>T	uc003etw.2	+	8	2881	c.1899G>T	c.(1897-1899)TTG>TTT	p.L633F	ZBTB38_uc010hun.2_Missense_Mutation_p.L630F|ZBTB38_uc010huo.2_Missense_Mutation_p.L633F|ZBTB38_uc003ety.2_Missense_Mutation_p.L633F|ZBTB38_uc010hup.2_Missense_Mutation_p.L634F	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	633					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CCATCCCATTGGAAACATCTG	0.448													7	114	---	---	---	---	PASS	T	141163129	T	T	141163129	3	4	77	1	0	0	0	0	1	0	0	0	17536	1339	47	3	1901	3	ZBTB38	3	141163129	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2979866	141163129	56859301	112	29222										
XRN1	54464	broad.mit.edu	37	chr3	142116193	142116193	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttctgaaattccttgtacttCttttgcccagttagattgtt	6	8	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:142116193C>G	uc003eus.2	-	20	2384	c.2317G>C	c.(2317-2319)GAA>CAA	p.E773Q	XRN1_uc010huu.2_Missense_Mutation_p.E239Q|XRN1_uc003eut.2_Missense_Mutation_p.E773Q|XRN1_uc003euu.2_Missense_Mutation_p.E773Q|XRN1_uc003euv.1_Missense_Mutation_p.E634Q	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	773					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						CCTTGTACTTCTTTTGCCCAG	0.358													5	21	---	---	---	---	PASS	G	142116193	G	G	142116193	3	3	77	1	0	0	0	0	1	0	0	0	17456	922	32	2	2895	2	XRN1	3	142116193	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	953064	142116193	55906237	113	29223										
TNIK	23043	broad.mit.edu	37	chr3	170811686	170811686	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgctgaaactgtccgcatgaGaggtctccagcccatgcgtc	11	14	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:170811686G>T	uc003fhh.2	-	23	3008	c.2663C>A	c.(2662-2664)TCT>TAT	p.S888Y	TNIK_uc003fhi.2_Missense_Mutation_p.S833Y|TNIK_uc003fhj.2_Missense_Mutation_p.S859Y|TNIK_uc003fhk.2_Missense_Mutation_p.S880Y|TNIK_uc003fhl.2_Missense_Mutation_p.S804Y|TNIK_uc003fhm.2_Missense_Mutation_p.S825Y|TNIK_uc003fhn.2_Missense_Mutation_p.S851Y|TNIK_uc003fho.2_Missense_Mutation_p.S796Y|TNIK_uc003fhg.2_Missense_Mutation_p.S66Y	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	888	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			GTCCGCATGAGAGGTCTCCAG	0.478													7	88	---	---	---	---	PASS	T	170811686	T	T	170811686	3	4	77	1	0	0	0	0	1	0	0	0	16310	942	33	2	1463	2	TNIK	3	170811686	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	28695493	170811686	27210744	114	29224										
MRPL47	57129	broad.mit.edu	37	chr3	179316559	179316559	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctttctttcagtaagacataCctatacaaaagaacacaaac	3	10	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:179316559C>A	uc003fjz.2	-	4	328	c.306G>T	c.(304-306)TGG>TGT	p.W102C	MRPL47_uc003fka.2_5'UTR|MRPL47_uc003fkb.2_Missense_Mutation_p.W82C	NM_020409	NP_065142	Q9HD33	RM47_HUMAN	mitochondrial ribosomal protein L47 isoform a	102					translation	mitochondrial ribosome	structural constituent of ribosome				0	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)			GTAAGACATACCTATACAAAA	0.383													10	62	---	---	---	---	PASS	A	179316559	A	A	179316559	3	1	77	1	0	0	0	0	1	0	0	0	9811	521	18	3	462	3	MRPL47	3	179316559	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	8504873	179316559	18705871	115	29225										
ABCF3	55324	broad.mit.edu	37	chr3	183905548	183905548	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgctcaagaccagcaaccctCtgtgagtgggggaagcatgg	14	11	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:183905548C>A	uc003fmz.2	+	5	578	c.445C>A	c.(445-447)CTA>ATA	p.L149I	ABCF3_uc003fna.2_Missense_Mutation_p.L143I|ABCF3_uc003fnb.2_5'Flank	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	149							ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CAGCAACCCTCTGTGAGTGGG	0.522													6	116	---	---	---	---	PASS	A	183905548	A	A	183905548	3	1	77	1	0	0	0	0	1	0	0	0	67	927	32	2	463	2	ABCF3	3	183905548	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	4588989	183905548	14116882	116	29226										
TMEM207	131920	broad.mit.edu	37	chr3	190165606	190165606	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cttcttcgcatggtaggtccGagagcaccaactgaaacaca	9	12	1	2	rs138370145		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:190165606G>T	uc003fsj.2	-	2	153	c.86C>A	c.(85-87)TCG>TAG	p.S29*		NM_207316	NP_997199	Q6UWW9	TM207_HUMAN	transmembrane protein 207 precursor	29						integral to membrane					0	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.0176)		TGGTAGGTCCGAGAGCACCAA	0.353													5	96	---	---	---	---	PASS	T	190165606	T	T	190165606	4	4	77	1	0	0	0	0	0	1	0	0	16129	1059	37	2	370	2	TMEM207	3	190165606	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	6260058	190165606	7856824	117	29227										
FGF12	2257	broad.mit.edu	37	chr3	191888416	191888416	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tagttttcaaacacagattcCttgaatttgcattctggagt	7	7	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:191888416C>A	uc003fsx.2	-	4	1270	c.444G>T	c.(442-444)AAG>AAT	p.K148N	FGF12_uc003fsy.2_Missense_Mutation_p.K86N	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	148					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		ACACAGATTCCTTGAATTTGC	0.373													7	152	---	---	---	---	PASS	A	191888416	A	A	191888416	3	1	77	1	0	0	0	0	1	0	0	0	5841	680	24	3	295	3	FGF12	3	191888416	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1722810	191888416	6134014	118	29228										
FYTTD1	84248	broad.mit.edu	37	chr3	197501077	197501077	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atgtagtagcaaagagaactCgtcagtaagtttccatttgt	9	6	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr3:197501077C>A	uc003fyi.2	+	6	871	c.652C>A	c.(652-654)CGT>AGT	p.R218S	FYTTD1_uc011bui.1_Missense_Mutation_p.R192S|FYTTD1_uc011buj.1_RNA|FYTTD1_uc011buk.1_Missense_Mutation_p.R151S	NM_032288	NP_115664	Q96QD9	UIF_HUMAN	forty-two-three domain containing 1 isoform 1	218					mRNA export from nucleus	nuclear speck	mRNA binding|protein binding				0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.175)		AAAGAGAACTCGTCAGTAAGT	0.383													6	200	---	---	---	---	PASS	A	197501077	A	A	197501077	3	1	77	1	0	0	0	0	1	0	0	0	6127	884	31	2	703	2	FYTTD1	3	197501077	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	5612661	197501077	521353	119	29229										
EVC	2121	broad.mit.edu	37	chr4	5733382	5733382	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cctgaagtgctggcctgcgaGaggtaaggagagcgggcaat	17	8	0	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:5733382G>A	uc003gil.1	+	4	799	c.615G>A	c.(613-615)GAG>GAA	p.E205E	EVC_uc003gim.1_RNA	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	205					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				TGGCCTGCGAGAGGTAAGGAG	0.517													7	10	---	---	---	---	PASS	A	5733382	A	A	5733382	2	1	77	1	0	0	0	0	0	0	0	1	5285	933	33	2		2	EVC	4	5733382	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08		5733382	185420894	120	29230										
SH3TC1	54436	broad.mit.edu	37	chr4	8226901	8226901	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttctcttttctcccttgccaGactcagtagaggaagctgag	9	11	3	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:8226901G>A	uc003gkv.3	+	11	1345	c.1244_splice	c.e11-1	p.D415_splice	SH3TC1_uc003gkw.3_Splice_Site_p.D339_splice|SH3TC1_uc003gkx.3_Splice_Site	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1								binding			large_intestine(2)|pancreas(1)	3						TCCCTTGCCAGACTCAGTAGA	0.562													6	8	---	---	---	---	PASS	A	8226901	A	A	8226901	5	1	77	1	0	0	0	0	0	0	1	0	14261	956	33	2	1281	2	SH3TC1	4	8226901	Splice_Site	SNP	G	TCGA-37-3789-01A-01D-0983-08	2493519	8226901	182927375	121	29231										
CLRN2	645104	broad.mit.edu	37	chr4	17517142	17517142	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gccgccaatcccaattcacgAgtgagtatattgggagcatg	11	10	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:17517142A>G	uc003gpg.1	+	1	355	c.253A>G	c.(253-255)ATC>GTC	p.I85V		NM_001079827	NP_001073296	A0PK11	CLRN2_HUMAN	clarin 2	85						integral to membrane					0						CCAATTCACGAGTGAGTATAT	0.488													5	15	---	---	---	---	PASS	G	17517142	G	G	17517142	3	3	77	1	0	0	0	0	1	0	0	0	3558	318	11	5	255	5	CLRN2	4	17517142	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	9290241	17517142	173637134	122	29232										
PCDH7	5099	broad.mit.edu	37	chr4	30723409	30723409	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggtgatcgggccctcgcagaGctgggtggacctgtttgagg	18	9	0	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:30723409G>T	uc003gsk.1	+	1	1373	c.365G>T	c.(364-366)AGC>ATC	p.S122I	PCDH7_uc011bxw.1_Missense_Mutation_p.S122I|PCDH7_uc011bxx.1_Missense_Mutation_p.S122I	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	122	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						CCCTCGCAGAGCTGGGTGGAC	0.612													7	5	---	---	---	---	PASS	T	30723409	T	T	30723409	3	4	77	1	0	0	0	0	1	0	0	0	11516	971	34	3	367	3	PCDH7	4	30723409	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	13206267	30723409	160430867	123	29233										
N4BP2	55728	broad.mit.edu	37	chr4	40123493	40123493	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagtcctttccaggtattctAaaagctactactcctaaaga	5	11	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:40123493A>G	uc003guy.3	+	9	4100	c.3762A>G	c.(3760-3762)CTA>CTG	p.L1254L	N4BP2_uc010ifq.2_Silent_p.L1174L|N4BP2_uc010ifr.2_Silent_p.L1174L	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	1254						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						CAGGTATTCTAAAAGCTACTA	0.373													17	15	---	---	---	---	PASS	G	40123493	G	G	40123493	2	3	77	1	0	0	0	0	0	0	0	1	10110	349	13	5		5	N4BP2	4	40123493	Silent	SNP	A	TCGA-37-3789-01A-01D-0983-08	9400084	40123493	151030783	124	29234										
GABRB1	2560	broad.mit.edu	37	chr4	47408751	47408751	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcacccacctcagggagacCctgccaaagatcccttatgt	8	15	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:47408751C>A	uc003gxh.2	+	8	1262	c.888C>A	c.(886-888)ACC>ACA	p.T296T	GABRB1_uc011bze.1_Silent_p.T226T	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	296					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			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TCAGGGAGACCCTGCCAAAGA	0.438													6	14	---	---	---	---	PASS	A	47408751	A	A	47408751	2	1	77	1	0	0	0	0	0	0	0	1	6166	610	22	3		3	GABRB1	4	47408751	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	7285258	47408751	143745525	125	29235										
CORIN	10699	broad.mit.edu	37	chr4	47765446	47765446	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaggcgagggtacagccaaaCagcatgatatgttgatagca	12	7	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:47765446C>A	uc003gxm.2	-	4	660	c.567G>T	c.(565-567)CTG>CTT	p.L189L	CORIN_uc011bzf.1_Silent_p.L50L|CORIN_uc011bzg.1_Silent_p.L122L|CORIN_uc011bzh.1_Silent_p.L189L|CORIN_uc011bzi.1_Silent_p.L189L|CORIN_uc003gxn.3_Silent_p.L189L	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	189	Extracellular (Potential).|FZ 1.				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						TACAGCCAAACAGCATGATAT	0.438													4	7	---	---	---	---	PASS	A	47765446	A	A	47765446	2	1	77	1	0	0	0	0	0	0	0	1	3752	465	17	3		3	CORIN	4	47765446	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	356695	47765446	143388830	126	29236										
UGT2B28	54490	broad.mit.edu	37	chr4	70156481	70156481	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	actggacttccacacaatgtCgagtacagacctgctgaatg	9	11	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:70156481C>T	uc003hej.2	+	5	1264	c.1262C>T	c.(1261-1263)TCG>TTG	p.S421L	UGT2B28_uc010ihr.2_Intron	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	421					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	CACACAATGTCGAGTACAGAC	0.423													7	19	---	---	---	---	PASS	T	70156481	T	T	70156481	3	4	77	1	0	0	0	0	1	0	0	0	16957	893	31	2	1280	2	UGT2B28	4	70156481	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	22391035	70156481	120997795	127	29237										
UTP3	57050	broad.mit.edu	37	chr4	71555257	71555257	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttatttgatcctgaaagctaGgagagtcccagcacatggac	10	9	0	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:71555257G>T	uc003hfo.2	+	1	1062	c.863G>T	c.(862-864)AGG>ATG	p.R288M		NM_020368	NP_065101	Q9NQZ2	SAS10_HUMAN	UTP3, small subunit processome component	288					brain development|chromatin modification|gene silencing	nucleolus					0			Lung(101;0.235)			CTGAAAGCTAGGAGAGTCCCA	0.433													10	364	---	---	---	---	PASS	T	71555257	T	T	71555257	3	4	77	1	0	0	0	0	1	0	0	0	17098	1000	35	3	865	3	UTP3	4	71555257	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1398776	71555257	119599019	128	29238										
MTHFD2L	441024	broad.mit.edu	37	chr4	75040299	75040299	+	Missense_Mutation	SNP	T	A	A													0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tacagcgaggtgtggaatcaTgggtttcccttggaaacaga							TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:75040299T>A	uc003hhn.1	+	5	564	c.46T>A	c.(46-48)TGG>AGG	p.W16R	MTHFD2L_uc011cbj.1_Missense_Mutation_p.W16R|MTHFD2L_uc011cbk.1_Missense_Mutation_p.W74R|MTHFD2L_uc003hho.2_RNA|MTHFD2L_uc003hhs.2_RNA	NM_001144978	NP_001138450	Q9H903	MTD2L_HUMAN	methylenetetrahydrofolate dehydrogenase 2-like	16					folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process		binding|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NAD+) activity			ovary(1)|central_nervous_system(1)	2			all cancers(17;0.0101)|Lung(101;0.196)			TGTGGAATCATGGGTTTCCCT	0.408													23	9	---	---	---	---	PASS	A	75040299	A	A	75040299	3	1	77	1	0	0	0	0	1	0	0	0	9930	1464	51	5	226	5	MTHFD2L	4	75040299	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	3485042	75040299	116113977	129	29239	600	2								
MTHFD2L	441024	broad.mit.edu	37	chr4	75040300	75040300	+	Missense_Mutation	SNP	G	T	T													0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acagcgaggtgtggaatcatGggtttcccttggaaacagaa							TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:75040300G>T	uc003hhn.1	+	5	565	c.47G>T	c.(46-48)TGG>TTG	p.W16L	MTHFD2L_uc011cbj.1_Missense_Mutation_p.W16L|MTHFD2L_uc011cbk.1_Missense_Mutation_p.W74L|MTHFD2L_uc003hho.2_RNA|MTHFD2L_uc003hhs.2_RNA	NM_001144978	NP_001138450	Q9H903	MTD2L_HUMAN	methylenetetrahydrofolate dehydrogenase 2-like	16					folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process		binding|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NAD+) activity			ovary(1)|central_nervous_system(1)	2			all cancers(17;0.0101)|Lung(101;0.196)			GTGGAATCATGGGTTTCCCTT	0.408													24	8	---	---	---	---	PASS	T	75040300	T	T	75040300	3	4	77	1	0	0	0	0	1	0	0	0	9930	1357	47	3	227	3	MTHFD2L	4	75040300	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1	75040300	116113976	130	29240	600	2								
BTC	685	broad.mit.edu	37	chr4	75675877	75675877	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctgtcctctgtctcctcttaGgtaaaacaagtcaactctct	5	13	5	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:75675877G>T	uc003hig.2	-	4	681	c.334C>A	c.(334-336)CTA>ATA	p.L112I		NM_001729	NP_001720	P35070	BTC_HUMAN	betacellulin precursor	112	Extracellular (Potential).				positive regulation of cell division|positive regulation of cell proliferation	extracellular space|integral to membrane|plasma membrane|soluble fraction	epidermal growth factor receptor binding|growth factor activity			central_nervous_system(1)|skin(1)	2			Lung(101;0.219)			TCTCCTCTTAGGTAAAACAAG	0.398													8	273	---	---	---	---	PASS	T	75675877	T	T	75675877	3	4	77	1	0	0	0	0	1	0	0	0	1549	991	35	3	210	3	BTC	4	75675877	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	635577	75675877	115478399	131	29241										
G3BP2	9908	broad.mit.edu	37	chr4	76582779	76582779	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggtttgcataaactttctttCtggttgtccactgttagaca	8	8	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:76582779C>G	uc003hir.2	-	4	478	c.313G>C	c.(313-315)GAA>CAA	p.E105Q	G3BP2_uc003his.2_Missense_Mutation_p.E105Q|G3BP2_uc003hit.2_Missense_Mutation_p.E105Q	NM_012297	NP_036429	Q9UN86	G3BP2_HUMAN	Ras-GTPase activating protein SH3 domain-binding	105	NTF2.				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)			AACTTTCTTTCTGGTTGTCCA	0.398													33	390	---	---	---	---	PASS	G	76582779	G	G	76582779	3	3	77	1	0	0	0	0	1	0	0	0	6142	922	32	2	1171	2	G3BP2	4	76582779	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	906902	76582779	114571497	132	29242										
PPEF2	5470	broad.mit.edu	37	chr4	76782018	76782018	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcatctgtaatgtcgatattCatgtgagagctgaacagctt	9	7	3	2	rs148045586		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:76782018C>A	uc003hix.2	-	17	2421	c.2064G>T	c.(2062-2064)ATG>ATT	p.M688I	PPEF2_uc003hiy.2_RNA	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	688					detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TGTCGATATTCATGTGAGAGC	0.453													23	284	---	---	---	---	PASS	A	76782018	A	A	76782018	3	1	77	1	0	0	0	0	1	0	0	0	12308	826	29	2	201	2	PPEF2	4	76782018	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	199239	76782018	114372258	133	29243										
SHROOM3	57619	broad.mit.edu	37	chr4	77661234	77661234	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttccaggaagaccacaatgcCaacctctggaggaggctgga	12	11	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:77661234C>G	uc011cbx.1	+	5	2861	c.1908C>G	c.(1906-1908)GCC>GCG	p.A636A	SHROOM3_uc011cbz.1_Silent_p.A460A|SHROOM3_uc003hkf.1_Silent_p.A511A|SHROOM3_uc003hkg.2_Silent_p.A414A	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	636					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			ACCACAATGCCAACCTCTGGA	0.567													8	445	---	---	---	---	PASS	G	77661234	G	G	77661234	2	3	77	1	0	0	0	0	0	0	0	1	14295	581	21	4		4	SHROOM3	4	77661234	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	879216	77661234	113493042	134	29244										
AFF1	4299	broad.mit.edu	37	chr4	88035792	88035792	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cggcacagcaggagcccccaCaaaggcaaaccgttggaacc	11	15	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:88035792C>G	uc003hqj.3	+	11	2193	c.1786C>G	c.(1786-1788)CAA>GAA	p.Q596E	AFF1_uc011ccz.1_Missense_Mutation_p.Q603E|AFF1_uc003hqk.3_Missense_Mutation_p.Q596E|AFF1_uc011cda.1_Missense_Mutation_p.Q234E	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	596						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		GGAGCCCCCACAAAGGCAAAC	0.637													16	27	---	---	---	---	PASS	G	88035792	G	G	88035792	3	3	77	1	0	0	0	0	1	0	0	0	356	479	17	4	1870	4	AFF1	4	88035792	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	10374558	88035792	103118484	135	29245										
SPP1	6696	broad.mit.edu	37	chr4	88903701	88903701	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tggaaagcgaggagttgaatGgtgcatacaaggccatcccc	13	9	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:88903701G>A	uc003hra.2	+	7	763	c.598G>A	c.(598-600)GGT>AGT	p.G200S	SPP1_uc003hrb.2_Missense_Mutation_p.G173S|SPP1_uc003hrc.2_Missense_Mutation_p.G186S|SPP1_uc011cde.1_Missense_Mutation_p.G213S|SPP1_uc003hrd.2_Missense_Mutation_p.G159S	NM_001040058	NP_001035147	P10451	OSTP_HUMAN	secreted phosphoprotein 1 isoform a	200					biomineral tissue development|cell adhesion|decidualization|embryo implantation|ossification|response to vitamin D	extracellular space	cytokine activity			ovary(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-05)		GGAGTTGAATGGTGCATACAA	0.507													17	37	---	---	---	---	PASS	A	88903701	A	A	88903701	3	1	77	1	0	0	0	0	1	0	0	0	15085	1348	47	3	620	3	SPP1	4	88903701	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	867909	88903701	102250575	136	29246										
SMARCAD1	56916	broad.mit.edu	37	chr4	95204388	95204388	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaatgttgttatacttcacgAtattgactgtaatccttata	5	6	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:95204388A>T	uc003htc.3	+	22	3098	c.2843A>T	c.(2842-2844)GAT>GTT	p.D948V	SMARCAD1_uc003htb.3_Missense_Mutation_p.D950V|SMARCAD1_uc003htd.3_Missense_Mutation_p.D950V|SMARCAD1_uc010ila.2_Missense_Mutation_p.D813V|SMARCAD1_uc011cdw.1_Missense_Mutation_p.D518V	NM_020159	NP_064544	Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated	948	Helicase C-terminal.				chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		ATACTTCACGATATTGACTGT	0.333													33	58	---	---	---	---	PASS	T	95204388	T	T	95204388	3	4	77	1	0	0	0	0	1	0	0	0	14772	333	12	5	2931	5	SMARCAD1	4	95204388	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	6300687	95204388	95949888	137	29247										
ANK2	287	broad.mit.edu	37	chr4	114280136	114280136	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcactacatcttcctgcagGgggggcacgagccccacaaa	11	14	1	0	rs55726422		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:114280136G>T	uc003ibe.3	+	38	10462	c.10362G>T	c.(10360-10362)AGG>AGT	p.R3454S	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.R756S|ANK2_uc011cgb.1_Missense_Mutation_p.R3469S	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3421					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CTTCCTGCAGGGGGGGCACGA	0.448													12	29	---	---	---	---	PASS	T	114280136	T	T	114280136	3	4	77	1	0	0	0	0	1	0	0	0	621	1223	43	3	10577	3	ANK2	4	114280136	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	19075748	114280136	76874140	138	29248										
UGT8	7368	broad.mit.edu	37	chr4	115544119	115544119	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caaaatcatcatcgtgccgcCaattatgtttgaaagccata	6	10	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:115544119C>A	uc003ibs.2	+	2	605	c.83C>A	c.(82-84)CCA>CAA	p.P28Q	UGT8_uc003ibt.2_Missense_Mutation_p.P28Q|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	28					central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		ATCGTGCCGCCAATTATGTTT	0.468													5	17	---	---	---	---	PASS	A	115544119	A	A	115544119	3	1	77	1	0	0	0	0	1	0	0	0	16962	594	21	3	85	3	UGT8	4	115544119	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1263983	115544119	75610157	139	29249										
TBC1D9	23158	broad.mit.edu	37	chr4	141578722	141578722	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tccccatcatccttgcagttCaacagtttgtccacatttgc	5	14	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:141578722C>G	uc010ioj.2	-	12	2438	c.2166G>C	c.(2164-2166)TTG>TTC	p.L722F		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	722						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				CCTTGCAGTTCAACAGTTTGT	0.438													38	110	---	---	---	---	PASS	G	141578722	G	G	141578722	3	3	77	1	0	0	0	0	1	0	0	0	15624	825	29	2	1674	2	TBC1D9	4	141578722	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	26034603	141578722	49575554	140	29250										
LRBA	987	broad.mit.edu	37	chr4	151604779	151604779	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctggattagttgagttgctgTcacgtggtcacgatattttg	12	6	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:151604779T>C	uc010ipj.2	-	37	6319	c.5845A>G	c.(5845-5847)ACA>GCA	p.T1949A	LRBA_uc003ilt.3_Missense_Mutation_p.T608A|LRBA_uc003ilu.3_Missense_Mutation_p.T1949A	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1949						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TGAGTTGCTGTCACGTGGTCA	0.428													10	28	---	---	---	---	PASS	C	151604779	C	C	151604779	3	2	77	1	0	0	0	0	1	0	0	0	8931	1667	58	5	2834	5	LRBA	4	151604779	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	10026057	151604779	39549497	141	29251										
WWC2	80014	broad.mit.edu	37	chr4	184233499	184233499	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tattcccttttccaggctgaAcagtccaaagaagagcagaa	8	10	0	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:184233499A>G	uc010irx.2	+	22	3572	c.3390A>G	c.(3388-3390)GAA>GAG	p.E1130E	WWC2_uc003ivk.3_Silent_p.E925E|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_Silent_p.E812E|WWC2_uc003ivn.3_Silent_p.E645E|WWC2_uc010irz.2_Silent_p.E471E|WWC2_uc003ivo.3_Silent_p.E258E	NM_024949	NP_079225	Q6AWC2	WWC2_HUMAN	WW and C2 domain containing 2	1130	Potential.									ovary(2)|lung(1)	3		all_lung(41;5.28e-14)|Lung NSC(41;1.35e-13)|Colorectal(36;0.00681)|Hepatocellular(41;0.00886)|Renal(120;0.00992)|Prostate(90;0.0237)|all_hematologic(60;0.0592)|Esophageal squamous(56;0.179)|all_neural(102;0.202)		all cancers(43;3.38e-24)|Epithelial(43;1.4e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.09e-09)|GBM - Glioblastoma multiforme(59;3.33e-05)|Colorectal(24;3.58e-05)|STAD - Stomach adenocarcinoma(60;4.21e-05)|COAD - Colon adenocarcinoma(29;0.000171)|LUSC - Lung squamous cell carcinoma(40;0.0145)|READ - Rectum adenocarcinoma(43;0.242)		TCCAGGCTGAACAGTCCAAAG	0.458													61	74	---	---	---	---	PASS	G	184233499	G	G	184233499	2	3	77	1	0	0	0	0	0	0	0	1	17409	40	2	5		5	WWC2	4	184233499	Silent	SNP	A	TCGA-37-3789-01A-01D-0983-08	32628720	184233499	6920777	142	29252										
TRIML1	339976	broad.mit.edu	37	chr4	189068016	189068016	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gccacagctaatgcctatctCgtgttgtcggaggatctgaa	11	10	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr4:189068016C>G	uc003izm.1	+	6	1012	c.897C>G	c.(895-897)CTC>CTG	p.L299L	TRIML1_uc003izn.1_Silent_p.L23L	NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	299	B30.2/SPRY.				multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		ATGCCTATCTCGTGTTGTCGG	0.512													52	83	---	---	---	---	PASS	G	189068016	G	G	189068016	2	3	77	1	0	0	0	0	0	0	0	1	16547	871	31	2		2	TRIML1	4	189068016	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	4834517	189068016	2086260	143	29253										
DNAH5	1767	broad.mit.edu	37	chr5	13766275	13766275	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgcgaacagtggcgatgtccGaaggcctgatggtctggggg	18	8	1	1	rs139821753		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:13766275G>A	uc003jfd.2	-	59	9953	c.9911C>T	c.(9910-9912)TCG>TTG	p.S3304L	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3304	Stalk (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GGCGATGTCCGAAGGCCTGAT	0.527									Kartagener_syndrome				11	28	---	---	---	---	PASS	A	13766275	A	A	13766275	3	1	77	1	0	0	0	0	1	0	0	0	4604	1059	37	2	4047	2	DNAH5	5	13766275	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08		13766275	167148985	144	29254										
DNAH5	1767	broad.mit.edu	37	chr5	13919404	13919404	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttttttccagtgctccagctCcgctcgtggcccaacgtcat	8	15	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:13919404C>T	uc003jfd.2	-	7	898	c.856G>A	c.(856-858)GAG>AAG	p.E286K	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	286	Potential.|Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TGCTCCAGCTCCGCTCGTGGC	0.537									Kartagener_syndrome				36	119	---	---	---	---	PASS	T	13919404	T	T	13919404	3	4	77	1	0	0	0	0	1	0	0	0	4604	864	30	2	13310	2	DNAH5	5	13919404	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	153129	13919404	166995856	145	29255										
CDH18	1016	broad.mit.edu	37	chr5	19483619	19483619	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aatacacatcctgaacagttCgactaaatctcctccgcctt	4	14	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:19483619C>A	uc003jgc.2	-	11	2050	c.1673G>T	c.(1672-1674)CGA>CTA	p.R558L	CDH18_uc003jgd.2_Missense_Mutation_p.R558L|CDH18_uc011cnm.1_Intron	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	558	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CTGAACAGTTCGACTAAATCT	0.458													6	20	---	---	---	---	PASS	A	19483619	A	A	19483619	3	1	77	1	0	0	0	0	1	0	0	0	3103	884	31	2	707	2	CDH18	5	19483619	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	5564215	19483619	161431641	146	29256										
C5orf34	375444	broad.mit.edu	37	chr5	43487154	43487154	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tggtttataatgatcaaaagActgttgttcatttttcttgt	7	4	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:43487154A>G	uc003jnz.1	-	14	2097	c.1780T>C	c.(1780-1782)TCT>CCT	p.S594P		NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	594										breast(1)	1	Lung NSC(6;2.07e-05)					TGATCAAAAGACTGTTGTTCA	0.333													9	12	---	---	---	---	PASS	G	43487154	G	G	43487154	3	3	77	1	0	0	0	0	1	0	0	0	2293	275	10	5	140	5	C5orf34	5	43487154	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	24003535	43487154	137428106	147	29257										
C5orf34	375444	broad.mit.edu	37	chr5	43506193	43506193	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	catgatctggcaatgaaactCattttctttattcttcagtc	5	9	5	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:43506193C>T	uc003jnz.1	-	5	906	c.589G>A	c.(589-591)GAG>AAG	p.E197K	C5orf34_uc011cpx.1_Missense_Mutation_p.E83K	NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	197										breast(1)	1	Lung NSC(6;2.07e-05)					CAATGAAACTCATTTTCTTTA	0.363													23	41	---	---	---	---	PASS	T	43506193	T	T	43506193	3	4	77	1	0	0	0	0	1	0	0	0	2293	835	29	2	1367	2	C5orf34	5	43506193	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	19039	43506193	137409067	148	29258										
PARP8	79668	broad.mit.edu	37	chr5	50123778	50123778	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtctttatcttaaatggcagCaattgaagtttatgcatact	7	6	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:50123778C>T	uc003jon.3	+	21	2160	c.1978C>T	c.(1978-1980)CAA>TAA	p.Q660*	PARP8_uc011cpz.1_Nonsense_Mutation_p.Q552*|PARP8_uc003joo.2_Nonsense_Mutation_p.Q660*|PARP8_uc003jop.2_Nonsense_Mutation_p.Q618*	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	660	PARP catalytic.					intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				TAAATGGCAGCAATTGAAGTT	0.338													6	12	---	---	---	---	PASS	T	50123778	T	T	50123778	4	4	77	1	0	0	0	0	0	1	0	0	11465	724	25	3	2056	3	PARP8	5	50123778	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	6617585	50123778	130791482	149	29259										
ITGA2	3673	broad.mit.edu	37	chr5	52358679	52358679	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ataaagacaccattacagacGtgctcttggtaggtgcacca	9	10	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:52358679G>T	uc003joy.2	+	13	1665	c.1522G>T	c.(1522-1524)GTG>TTG	p.V508L	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Missense_Mutation_p.V432L|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	508	FG-GAP 5.|Extracellular (Potential).				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				CATTACAGACGTGCTCTTGGT	0.368													13	22	---	---	---	---	PASS	T	52358679	T	T	52358679	3	4	77	1	0	0	0	0	1	0	0	0	7875	1145	40	1	1572	1	ITGA2	5	52358679	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2234901	52358679	128556581	150	29260										
UTP15	84135	broad.mit.edu	37	chr5	72872776	72872776	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaagcttttcctttttattaGgaaggtgaaagtatacagca	8	5	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:72872776G>T	uc003kcw.1	+	8	1033	c.810_splice	c.e8-1	p.R270_splice	UTP15_uc011cso.1_Splice_Site_p.R251_splice|UTP15_uc011csp.1_Splice_Site_p.R80_splice|UTP15_uc010ize.1_Splice_Site_p.R270_splice	NM_032175	NP_115551	Q8TED0	UTP15_HUMAN	UTP15, U3 small nucleolar ribonucleoprotein,						rRNA processing	cytoplasm|nucleolus					0		Lung NSC(167;0.00405)|Ovarian(174;0.0129)		OV - Ovarian serous cystadenocarcinoma(47;7.76e-55)		CTTTTTATTAGGAAGGTGAAA	0.323													6	95	---	---	---	---	PASS	T	72872776	T	T	72872776	5	4	77	1	0	0	0	0	0	0	1	0	17094	1014	35	3	835	3	UTP15	5	72872776	Splice_Site	SNP	G	TCGA-37-3789-01A-01D-0983-08	20514097	72872776	108042484	151	29261										
YTHDC2	64848	broad.mit.edu	37	chr5	112870077	112870077	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttgatggcaggagatagtacGttgtcgactgtgacacatgt	13	6	0	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:112870077G>A	uc003kqn.2	+	6	1101	c.918G>A	c.(916-918)ACG>ACA	p.T306T	YTHDC2_uc010jce.1_Silent_p.T306T|YTHDC2_uc010jcf.1_Silent_p.T6T	NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	306	Helicase ATP-binding.						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)		GAGATAGTACGTTGTCGACTG	0.348													18	34	---	---	---	---	PASS	A	112870077	A	A	112870077	2	1	77	1	0	0	0	0	0	0	0	1	17494	1132	40	1		1	YTHDC2	5	112870077	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	39997301	112870077	68045183	152	29262										
SEC24A	10802	broad.mit.edu	37	chr5	134002525	134002525	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttccataggtccttctgtacCtcccttagtgaatccacctc	5	15	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:134002525C>A	uc003kzs.2	+	3	866	c.578C>A	c.(577-579)CCT>CAT	p.P193H	SEC24A_uc011cxu.1_5'UTR	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A	193	Pro-rich.				COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CCTTCTGTACCTCCCTTAGTG	0.522													6	100	---	---	---	---	PASS	A	134002525	A	A	134002525	3	1	77	1	0	0	0	0	1	0	0	0	13994	681	24	3	588	3	SEC24A	5	134002525	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	21132448	134002525	46912735	153	29263										
FAM13B	51306	broad.mit.edu	37	chr5	137347574	137347574	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttaacaaactataattaacaGgtggaagctgttgcaagagg	10	5	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:137347574G>T	uc003lbz.2	-	5	965	c.431C>A	c.(430-432)CCT>CAT	p.P144H	FAM13B_uc003lcb.2_Missense_Mutation_p.P26H|FAM13B_uc003lca.2_Missense_Mutation_p.P144H	NM_016603	NP_057687	Q9NYF5	FA13B_HUMAN	hypothetical protein LOC51306 isoform 1	144	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						ATAATTAACAGGTGGAAGCTG	0.313													7	69	---	---	---	---	PASS	T	137347574	T	T	137347574	3	4	77	1	0	0	0	0	1	0	0	0	5453	1000	35	3	2462	3	FAM13B	5	137347574	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3345049	137347574	43567686	154	29264										
KIF20A	10112	broad.mit.edu	37	chr5	137520077	137520077	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcttcatgtggccaagttctCagccattgctagccaggtga	10	11	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:137520077C>G	uc003lcj.2	+	12	1998	c.1502C>G	c.(1501-1503)TCA>TGA	p.S501*	KIF20A_uc011cyo.1_Nonsense_Mutation_p.S483*	NM_005733	NP_005724	O95235	KI20A_HUMAN	kinesin family member 20A	501					cytokinesis|M phase of mitotic cell cycle|microtubule-based movement|protein transport|vesicle-mediated transport	Golgi apparatus|microtubule|nucleoplasm	ATP binding|microtubule motor activity|protein binding|transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GCCAAGTTCTCAGCCATTGCT	0.488													39	119	---	---	---	---	PASS	G	137520077	G	G	137520077	4	3	77	1	0	0	0	0	0	1	0	0	8286	838	29	2	1544	2	KIF20A	5	137520077	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	172503	137520077	43395183	155	29265										
HARS	3035	broad.mit.edu	37	chr5	140056260	140056260	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tctagtctctgttccacgatGgagaaaatccgctccacccc	7	15	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:140056260G>T	uc003lgv.2	-	10	1255	c.1173C>A	c.(1171-1173)TCC>TCA	p.S391S	HARS_uc003lgu.2_Silent_p.S322S|HARS_uc011czm.1_Silent_p.S351S|HARS_uc003lgw.2_Silent_p.S371S|HARS_uc011czn.1_Silent_p.S331S|HARS_uc010jfu.2_Silent_p.S391S|HARS_uc011czo.1_Silent_p.S317S|HARS_uc011czp.1_Silent_p.S277S|HARS_uc011czq.1_Silent_p.S281S	NM_002109	NP_002100	P12081	SYHC_HUMAN	histidyl-tRNA synthetase	391					histidyl-tRNA aminoacylation	cytosol	ATP binding|histidine-tRNA ligase activity			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		L-Histidine(DB00117)	GTTCCACGATGGAGAAAATCC	0.557													8	184	---	---	---	---	PASS	T	140056260	T	T	140056260	2	4	77	1	0	0	0	0	0	0	0	1	6959	1335	47	3		3	HARS	5	140056260	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	2536183	140056260	40859000	156	29266										
PCDHB2	56133	broad.mit.edu	37	chr5	140476341	140476341	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tggcgagcctccgcgctcggCcaccgccacgctgcacgtgc	13	19	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:140476341C>A	uc003lil.2	+	1	2105	c.1967C>A	c.(1966-1968)GCC>GAC	p.A656D	PCDHB2_uc003lim.1_Missense_Mutation_p.A317D	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	656	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCGCGCTCGGCCACCGCCACG	0.711													13	15	---	---	---	---	PASS	A	140476341	A	A	140476341	3	1	77	1	0	0	0	0	1	0	0	0	11542	739	26	3	1969	3	PCDHB2	5	140476341	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	420081	140476341	40438919	157	29267										
PCDHB13	56123	broad.mit.edu	37	chr5	140596022	140596022	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gattatccccaacttccctcCccagtgccctgggaaagaaa	7	15	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:140596022C>A	uc003lja.1	+	1	2514	c.2327C>A	c.(2326-2328)CCC>CAC	p.P776H		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	776	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AACTTCCCTCCCCAGTGCCCT	0.468													39	65	---	---	---	---	PASS	A	140596022	A	A	140596022	3	1	77	1	0	0	0	0	1	0	0	0	11538	623	22	3	2329	3	PCDHB13	5	140596022	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	119681	140596022	40319238	158	29268										
PCDHGA5	56110	broad.mit.edu	37	chr5	140746176	140746176	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttcccacgaggtctccctcaCcgcggactcgaggaagagtc	11	15	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:140746176C>G	uc003lju.1	+	1	2279	c.2279C>G	c.(2278-2280)ACC>AGC	p.T760S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.T760S	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	760	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTCTCCCTCACCGCGGACTCG	0.597													56	130	---	---	---	---	PASS	G	140746176	G	G	140746176	3	3	77	1	0	0	0	0	1	0	0	0	11557	507	18	4	2281	4	PCDHGA5	5	140746176	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	150154	140746176	40169084	159	29269										
NDST1	3340	broad.mit.edu	37	chr5	149925029	149925029	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cctcatcaaccccgcggaccGggcctattcctggtaccagg	10	17	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:149925029G>A	uc003lsk.3	+	11	2628	c.2126G>A	c.(2125-2127)CGG>CAG	p.R709Q	NDST1_uc011dcj.1_Missense_Mutation_p.R709Q	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	709	Heparan sulfate N-sulfotransferase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCCGCGGACCGGGCCTATTCC	0.557													33	92	---	---	---	---	PASS	A	149925029	A	A	149925029	3	1	77	1	0	0	0	0	1	0	0	0	10255	1116	39	1	2164	1	NDST1	5	149925029	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	9178853	149925029	30990231	160	29270										
ANXA6	309	broad.mit.edu	37	chr5	150496742	150496742	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cctccctcctcacgatgcccCtgcagcaggagcagcaagaa	9	17	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:150496742C>A	uc003ltl.1	-	20	1671	c.1519_splice	c.e20-1	p.G507_splice	ANXA6_uc011dcp.1_Splice_Site_p.G475_splice|ANXA6_uc003ltm.1_Splice_Site_p.G507_splice|ANXA6_uc003ltn.1_Splice_Site_p.G300_splice|ANXA6_uc003lto.1_Splice_Site_p.G94_splice	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1							melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CACGATGCCCCTGCAGCAGGA	0.537													16	39	---	---	---	---	PASS	A	150496742	A	A	150496742	5	1	77	1	0	0	0	0	0	0	1	0	722	695	24	3	531	3	ANXA6	5	150496742	Splice_Site	SNP	C	TCGA-37-3789-01A-01D-0983-08	571713	150496742	30418518	161	29271										
SLIT3	6586	broad.mit.edu	37	chr5	168199840	168199840	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gatgcgcttgttggcgagtcGgcgcgggctgctgcagcggg	20	10	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:168199840G>A	uc003mab.2	-	14	1825	c.1405C>T	c.(1405-1407)CGA>TGA	p.R469*	SLIT3_uc010jjg.2_Nonsense_Mutation_p.R469*|SLIT3_uc010jji.2_Nonsense_Mutation_p.R469*|SLIT3_uc003mac.1_Nonsense_Mutation_p.R266*	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	469	LRRCT 2.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TTGGCGAGTCGGCGCGGGCTG	0.602													9	26	---	---	---	---	PASS	A	168199840	A	A	168199840	4	1	77	1	0	0	0	0	0	1	0	0	14741	1124	39	1	3258	1	SLIT3	5	168199840	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	17703098	168199840	12715420	162	29272										
CNOT6	57472	broad.mit.edu	37	chr5	179991578	179991578	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atttgcttgataatttgtcaGgtactgcaaaaagaagtaag	9	4	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr5:179991578G>T	uc003mlx.2	+	5	824	c.475G>T	c.(475-477)GGT>TGT	p.G159C	CNOT6_uc010jld.2_Missense_Mutation_p.G159C|CNOT6_uc010jle.2_Missense_Mutation_p.V159F	NM_015455	NP_056270	Q9ULM6	CNOT6_HUMAN	CCR4-NOT transcription complex, subunit 6	159					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	exonuclease activity|metal ion binding|protein binding|RNA binding				0	all_cancers(89;3.3e-05)|all_epithelial(37;7.38e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00543)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.023)		TAATTTGTCAGGTACTGCAAA	0.338													6	85	---	---	---	---	PASS	T	179991578	T	T	179991578	3	4	77	1	0	0	0	0	1	0	0	0	3622	1000	35	3	489	3	CNOT6	5	179991578	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	11791738	179991578	923682	163	29273										
HIVEP1	3096	broad.mit.edu	37	chr6	12121781	12121781	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caaaggccatggatcccaagCctgaactttctagtgcacaa	8	12	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:12121781C>T	uc003nac.2	+	4	1932	c.1753C>T	c.(1753-1755)CCT>TCT	p.P585S	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	585					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				GGATCCCAAGCCTGAACTTTC	0.507													42	25	---	---	---	---	PASS	T	12121781	T	T	12121781	3	4	77	1	0	0	0	0	1	0	0	0	7186	739	26	3	1763	3	HIVEP1	6	12121781	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08		12121781	158993286	164	29274										
DCDC2	51473	broad.mit.edu	37	chr6	24178827	24178827	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atccttgtttgccttctctcCatcttcttcctcgtctacta	3	15	4	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:24178827C>A	uc003ndx.2	-	9	1359	c.1057G>T	c.(1057-1059)GGA>TGA	p.G353*	DCDC2_uc003ndy.2_Nonsense_Mutation_p.G353*|DCDC2_uc003ndw.2_Nonsense_Mutation_p.G104*	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	353					cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				GCCTTCTCTCCATCTTCTTCC	0.433													33	23	---	---	---	---	PASS	A	24178827	A	A	24178827	4	1	77	1	0	0	0	0	0	1	0	0	4285	603	21	3	381	3	DCDC2	6	24178827	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	12057046	24178827	146936240	165	29275										
ZNF391	346157	broad.mit.edu	37	chr6	27368847	27368847	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgggaaagccttcggtgaccGttcaaccataattcagcatc	9	11	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:27368847G>A	uc003njf.1	+	3	1216	c.698G>A	c.(697-699)CGT>CAT	p.R233H		NM_001076781	NP_001070249	Q9UJN7	ZN391_HUMAN	zinc finger protein 391	233	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(2)|skin(1)	3						TTCGGTGACCGTTCAACCATA	0.423													17	8	---	---	---	---	PASS	A	27368847	A	A	27368847	3	1	77	1	0	0	0	0	1	0	0	0	17876	1145	40	1	700	1	ZNF391	6	27368847	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3190020	27368847	143746220	166	29276										
HIST1H3H	8357	broad.mit.edu	37	chr6	27778110	27778110	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agaccgacttgcgcttccagAgctccgcggtgatggcgctg	14	13	0	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:27778110A>T	uc003njm.2	+	1	269	c.259A>T	c.(259-261)AGC>TGC	p.S87C	HIST1H2BL_uc003njl.2_5'Flank	NM_003536	NP_003527	P68431	H31_HUMAN	histone cluster 1, H3h	87					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1						GCGCTTCCAGAGCTCCGCGGT	0.607													38	34	---	---	---	---	PASS	T	27778110	T	T	27778110	3	4	77	1	0	0	0	0	1	0	0	0	7162	304	11	5	261	5	HIST1H3H	6	27778110	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	409263	27778110	143336957	167	29277										
HLA-DRB5	3127	broad.mit.edu	37	chr6	32487330	32487330	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gttccggaaccacctgacttCaatgctgcctggatagaaac	9	12	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:32487330C>T	uc003obj.2	-	3	474	c.469G>A	c.(469-471)GAA>AAA	p.E157K	HLA-DRB1_uc011dqa.1_Intron|HLA-DRB5_uc003obk.3_Missense_Mutation_p.E157K	NM_002125	NP_002116	Q30154	DRB5_HUMAN	major histocompatibility complex, class II, DR	157	Ig-like C1-type.|Beta-2.|Extracellular (Potential).				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|immune response	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0						CACCTGACTTCAATGCTGCCT	0.552													8	22	---	---	---	---	PASS	T	32487330	T	T	32487330	3	4	77	1	0	0	0	0	1	0	0	0	7209	835	29	2	347	2	HLA-DRB5	6	32487330	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	4709220	32487330	138627737	168	29278										
HLA-DRB1	3123	broad.mit.edu	37	chr6	32549517	32549517	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gttcaggaaccacctgacttCaatgctgcctggatagaaac	9	11	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:32549517C>T	uc003obp.3	-	3	512	c.469G>A	c.(469-471)GAA>AAA	p.E157K	HLA-DRB1_uc011dqa.1_5'UTR|HLA-DRB5_uc003obk.3_Intron|HLA-DRB6_uc003obo.1_Intron|HLA-DRB1_uc011dqb.1_5'UTR|HLA-DRB1_uc011dqc.1_5'UTR	NM_002124	NP_002115	P01911	2B1F_HUMAN	major histocompatibility complex, class II, DR	157	Ig-like C1-type.|Beta-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|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex				skin(1)	1						CACCTGACTTCAATGCTGCCT	0.547									Rheumatoid_Arthritis|Sj_gren_syndrome	Multiple Myeloma(14;0.17)			14	67	---	---	---	---	PASS	T	32549517	T	T	32549517	3	4	77	1	0	0	0	0	1	0	0	0	7208	835	29	2	347	2	HLA-DRB1	6	32549517	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	62187	32549517	138565550	169	29279										
COL11A2	1302	broad.mit.edu	37	chr6	33139299	33139299	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagcaggaccaggaagccccAcaggaccctgcactccatct	9	17	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:33139299A>T	uc003ocx.1	-	43	3431	c.3203T>A	c.(3202-3204)GTG>GAG	p.V1068E	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Missense_Mutation_p.V982E|COL11A2_uc003ocz.1_Missense_Mutation_p.V961E	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1068	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						AGGAAGCCCCACAGGACCCTG	0.632													8	22	---	---	---	---	PASS	T	33139299	T	T	33139299	3	4	77	1	0	0	0	0	1	0	0	0	3668	159	6	5	2103	5	COL11A2	6	33139299	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	589782	33139299	137975768	170	29280										
ZBTB9	221504	broad.mit.edu	37	chr6	33422975	33422975	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gttcccacagcatagctcgtCtctgctggaatctctgaacc	8	14	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:33422975C>G	uc003oeq.2	+	2	366	c.98C>G	c.(97-99)TCT>TGT	p.S33C		NM_152735	NP_689948	Q96C00	ZBTB9_HUMAN	zinc finger and BTB domain containing 9	33					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CATAGCTCGTCTCTGCTGGAA	0.582													37	56	---	---	---	---	PASS	G	33422975	G	G	33422975	3	3	77	1	0	0	0	0	1	0	0	0	17555	913	32	2	100	2	ZBTB9	6	33422975	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	283676	33422975	137692092	171	29281										
BAK1	578	broad.mit.edu	37	chr6	33541613	33541623	+	Frame_Shift_Del	DEL	GCCCAACAGAA	-	-													0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aatcttcgtaccacaaactgGcccaacagaaccacacccag							TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:33541613_33541623delGCCCAACAGAA	uc003oes.2	-	6	893_903	c.593_603delTTCTGTTGGGC	c.(592-603)GTTCTGTTGGGCfs	p.V198fs	BAK1_uc003oer.2_Frame_Shift_Del_p.V128fs|BAK1_uc003oet.2_RNA|BAK1_uc010jvb.2_Frame_Shift_Del_p.V198fs|BAK1_uc003oeu.2_Frame_Shift_Del_p.V139fs	NM_001188	NP_001179	Q16611	BAK_HUMAN	BCL2-antagonist/killer 1	198_201	Helical; (Potential).				activation of pro-apoptotic gene products|cellular response to mechanical stimulus|cellular response to UV|establishment or maintenance of transmembrane electrochemical gradient|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|release of cytochrome c from mitochondria	integral to mitochondrial outer membrane|pore complex	metal ion binding|protein heterodimerization activity			ovary(1)	1						CCACAAACTGGCCCAACAGAACCACACCCAG	0.559													12	20	---	---	---	---		-	33541623	-	-	33541613	7	5	77	1	0	1	0	1	0	0	0	0	1305	1190	42	0	36	0	BAK1	6	33541613	Frame_Shift_Del	DEL	GCCCAACAGAA	TCGA-37-3789-01A-01D-0983-08	118638	33541613	137573454	172	29282										
PEX6	5190	broad.mit.edu	37	chr6	42932076	42932076	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagaccctggggggctcctaGcaggcagcaaacttgcgctg	14	13	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:42932076G>T	uc003otf.2	-	17	3033	c.2940C>A	c.(2938-2940)TGC>TGA	p.C980*	uc003ote.1_5'Flank|PEX6_uc010jya.2_RNA	NM_000287	NP_000278	Q13608	PEX6_HUMAN	peroxisomal biogenesis factor 6	980					protein import into peroxisome matrix, translocation|protein stabilization	cytosol|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)	1			all cancers(41;0.00235)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0562)			GGGGCTCCTAGCAGGCAGCAA	0.637													6	31	---	---	---	---	PASS	T	42932076	T	T	42932076	4	4	77	1	0	0	0	0	0	1	0	0	11750	963	34	3	6	3	PEX6	6	42932076	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	9390463	42932076	128182991	173	29283										
AARS2	57505	broad.mit.edu	37	chr6	44279966	44279966	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggaagcctgccatctcgcttCgtggatccacggtgcccaga	12	14	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:44279966C>T	uc010jza.1	-	2	281	c.278G>A	c.(277-279)CGA>CAA	p.R93Q	SPATS1_uc003oxg.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	93					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	CATCTCGCTTCGTGGATCCAC	0.542													24	46	---	---	---	---	PASS	T	44279966	T	T	44279966	3	4	77	1	0	0	0	0	1	0	0	0	20	884	31	2	2763	2	AARS2	6	44279966	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1347890	44279966	126835101	174	29284										
CYP39A1	51302	broad.mit.edu	37	chr6	46620210	46620210	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caaatccaactccaatccaaGgaatccagcccttgatgcac	5	15	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:46620210G>T	uc003oyf.1	-	1	314	c.110C>A	c.(109-111)CCT>CAT	p.P37H	CYP39A1_uc011dwa.1_Missense_Mutation_p.P37H|CYP39A1_uc010jzd.1_5'UTR|SLC25A27_uc011dwb.1_5'Flank|SLC25A27_uc003oyg.2_5'Flank|SLC25A27_uc003oyh.2_5'Flank|SLC25A27_uc011dwc.1_5'Flank	NM_016593	NP_057677	Q9NYL5	CP39A_HUMAN	cytochrome P450, family 39, subfamily A,	37					bile acid biosynthetic process|bile acid catabolic process|digestion|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	24-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(1)	1						TCCAATCCAAGGAATCCAGCC	0.483													10	381	---	---	---	---	PASS	T	46620210	T	T	46620210	3	4	77	1	0	0	0	0	1	0	0	0	4177	1000	35	3	1347	3	CYP39A1	6	46620210	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2340244	46620210	124494857	175	29285										
RHAG	6005	broad.mit.edu	37	chr6	49587042	49587042	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aggtcatgaggaagccaaacCcaacaaatatcataacatgt	7	9	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:49587042C>G	uc003ozk.3	-	2	253	c.191G>C	c.(190-192)GGG>GCG	p.G64A	RHAG_uc010jzl.2_Missense_Mutation_p.G64A|RHAG_uc010jzm.2_Missense_Mutation_p.G64A	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein	64	Helical; (Potential).				carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					GAAGCCAAACCCAACAAATAT	0.418													14	12	---	---	---	---	PASS	G	49587042	G	G	49587042	3	3	77	1	0	0	0	0	1	0	0	0	13315	623	22	4	1074	4	RHAG	6	49587042	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2966832	49587042	121528025	176	29286										
PKHD1	5314	broad.mit.edu	37	chr6	51890331	51890331	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcacacaagtaaaaggacccGagaggtcaacccgaactgac	9	12	2	2	rs149167975		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:51890331G>T	uc003pah.1	-	32	4553	c.4277C>A	c.(4276-4278)TCG>TAG	p.S1426*	PKHD1_uc003pai.2_Nonsense_Mutation_p.S1426*	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1426	IPT/TIG 9.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AAAAGGACCCGAGAGGTCAAC	0.542													6	187	---	---	---	---	PASS	T	51890331	T	T	51890331	4	4	77	1	0	0	0	0	0	1	0	0	11971	1059	37	2	8130	2	PKHD1	6	51890331	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2303289	51890331	119224736	177	29287										
HCRTR2	3062	broad.mit.edu	37	chr6	55128539	55128539	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aagatgtaccacatctgtttCtttctggtgacatacatggc	8	9	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:55128539C>G	uc003pcl.2	+	4	996	c.681C>G	c.(679-681)TTC>TTG	p.F227L	HCRTR2_uc010jzv.2_RNA|HCRTR2_uc010jzw.1_Missense_Mutation_p.F162L	NM_001526	NP_001517	O43614	OX2R_HUMAN	orexin receptor 2	227	Helical; Name=5; (Potential).				feeding behavior	integral to plasma membrane	neuropeptide receptor activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|breast(1)	6	Lung NSC(77;0.107)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			ACATCTGTTTCTTTCTGGTGA	0.363													5	5	---	---	---	---	PASS	G	55128539	G	G	55128539	3	3	77	1	0	0	0	0	1	0	0	0	7002	912	32	2	695	2	HCRTR2	6	55128539	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	3238208	55128539	115986528	178	29288										
PHF3	23469	broad.mit.edu	37	chr6	64408187	64408187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atgtacatcctgctgcttctGcttccaagccttctgcagat	7	13	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:64408187G>T	uc003pep.1	+	6	2781	c.2755G>T	c.(2755-2757)GCT>TCT	p.A919S	PHF3_uc010kag.1_Missense_Mutation_p.A831S|PHF3_uc010kah.1_Missense_Mutation_p.A733S|PHF3_uc003pen.2_Missense_Mutation_p.A831S|PHF3_uc011dxs.1_Missense_Mutation_p.A188S	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	919					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			TGCTGCTTCTGCTTCCAAGCC	0.348													12	71	---	---	---	---	PASS	T	64408187	T	T	64408187	3	4	77	1	0	0	0	0	1	0	0	0	11836	1319	46	3	2777	3	PHF3	6	64408187	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	9279648	64408187	106706880	179	29289										
COL12A1	1303	broad.mit.edu	37	chr6	75848583	75848583	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggtgcccaagttattctgtaGagagacacatctgaagctcc	10	10	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:75848583G>C	uc003phs.2	-	28	5218	c.5052C>G	c.(5050-5052)CTC>CTG	p.L1684L	COL12A1_uc003pht.2_Silent_p.L520L	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1684	Fibronectin type-III 12.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTATTCTGTAGAGAGACACAT	0.423													6	24	---	---	---	---	PASS	C	75848583	C	C	75848583	2	2	77	1	0	0	0	0	0	0	0	1	3669	929	33	2		2	COL12A1	6	75848583	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	11440396	75848583	95266484	180	29290										
HTR1B	3351	broad.mit.edu	37	chr6	78172386	78172386	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtcaagcgcttgccggtcctGttgggcgtctgtttcaaaat	12	10	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:78172386G>T	uc003pil.1	-	1	735	c.735C>A	c.(733-735)AAC>AAA	p.N245K		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	245	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	TGCCGGTCCTGTTGGGCGTCT	0.622													21	28	---	---	---	---	PASS	T	78172386	T	T	78172386	3	4	77	1	0	0	0	0	1	0	0	0	7437	1368	48	3	441	3	HTR1B	6	78172386	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2323803	78172386	92942681	181	29291										
SLC35A1	10559	broad.mit.edu	37	chr6	88221170	88221170	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtgtttccatatatctctatGgattacccagacaagacact	6	10	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:88221170G>T	uc011dzj.1	+	8	1019	c.940G>T	c.(940-942)GGA>TGA	p.G314*	SLC35A1_uc003plx.2_RNA|SLC35A1_uc010kbw.2_Nonsense_Mutation_p.G162*|SLC35A1_uc003plz.2_RNA|SLC35A1_uc011dzi.1_Nonsense_Mutation_p.G180*|SLC35A1_uc003ply.2_RNA|SLC35A1_uc010kbx.2_Nonsense_Mutation_p.G255*|SLC35A1_uc010kby.2_RNA	NM_006416	NP_006407	P78382	S35A1_HUMAN	solute carrier family 35 (CMP-sialic acid	314	Helical; (Potential).				carbohydrate metabolic process|protein modification process	Golgi membrane|integral to plasma membrane	CMP-N-acetylneuraminate transmembrane transporter activity|sugar:hydrogen symporter activity				0		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		ATATCTCTATGGATTACCCAG	0.383													5	58	---	---	---	---	PASS	T	88221170	T	T	88221170	4	4	77	1	0	0	0	0	0	1	0	0	14570	1349	47	3	970	3	SLC35A1	6	88221170	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	10048784	88221170	82893897	182	29292										
MCHR2	84539	broad.mit.edu	37	chr6	100403965	100403965	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gataagcaaactctttattcCaggatttgtttaaaagttcg	7	6	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:100403965C>T	uc003pqh.1	-	2	374	c.59G>A	c.(58-60)TGG>TAG	p.W20*	MCHR2_uc003pqi.1_Nonsense_Mutation_p.W20*	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	20	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		CTCTTTATTCCAGGATTTGTT	0.423													20	41	---	---	---	---	PASS	T	100403965	T	T	100403965	4	4	77	1	0	0	0	0	0	1	0	0	9383	595	21	3	983	3	MCHR2	6	100403965	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	12182795	100403965	70711102	183	29293										
POPDC3	64208	broad.mit.edu	37	chr6	105609460	105609460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aagggagctgtacaacacttGgaattctcgggcaaaggtta	12	7	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:105609460G>T	uc003prb.2	-	2	727	c.325C>A	c.(325-327)CAA>AAA	p.Q109K	uc003pqz.2_Intron|POPDC3_uc003pra.2_Intron	NM_022361	NP_071756	Q9HBV1	POPD3_HUMAN	popeye protein 3	109						integral to membrane				skin(3)|ovary(2)	5		all_cancers(87;4.87e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0157)|Colorectal(196;0.202)|Lung NSC(302;0.238)				TACAACACTTGGAATTCTCGG	0.423													9	249	---	---	---	---	PASS	T	105609460	T	T	105609460	3	4	77	1	0	0	0	0	1	0	0	0	12256	1357	47	3	562	3	POPDC3	6	105609460	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	5205495	105609460	65505607	184	29294										
FOXO3	2309	broad.mit.edu	37	chr6	108985287	108985287	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agctctagcttcccgtatacCaccaagggctcgggcctggg	12	14	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:108985287C>A	uc003psk.2	+	3	1567	c.1251C>A	c.(1249-1251)ACC>ACA	p.T417T	FOXO3_uc003psn.2_Intron|FOXO3_uc003psm.2_Silent_p.T417T|FOXO3_uc011ean.1_Silent_p.T197T|FOXO3_uc010kdj.1_Silent_p.T197T	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A	417					antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|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 factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)		TCCCGTATACCACCAAGGGCT	0.597													6	84	---	---	---	---	PASS	A	108985287	A	A	108985287	2	1	77	1	0	0	0	0	0	0	0	1	6024	581	21	3		3	FOXO3	6	108985287	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	3375827	108985287	62129780	185	29295										
NCOA7	135112	broad.mit.edu	37	chr6	126206390	126206390	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcctctggttattgaaaatgGgtgtgaggagtatggtctca	13	5	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:126206390G>T	uc010kes.2	+	10	1234	c.785G>T	c.(784-786)GGG>GTG	p.G262V	NCOA7_uc003qae.3_Missense_Mutation_p.G262V|NCOA7_uc003qah.2_Missense_Mutation_p.G262V|NCOA7_uc003qai.2_Missense_Mutation_p.G262V|NCOA7_uc010ket.2_Missense_Mutation_p.G158V|NCOA7_uc003qag.2_Missense_Mutation_p.G262V	NM_181782	NP_861447	Q8NI08	NCOA7_HUMAN	nuclear receptor coactivator 7 isoform 1	262					cell wall macromolecule catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)		ATTGAAAATGGGTGTGAGGAG	0.453													6	87	---	---	---	---	PASS	T	126206390	T	T	126206390	3	4	77	1	0	0	0	0	1	0	0	0	10234	1232	43	3	811	3	NCOA7	6	126206390	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	17221103	126206390	44908677	186	29296										
MOXD1	26002	broad.mit.edu	37	chr6	132643820	132643820	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gaacaaaaacatgcatactgGtaagattgtttgttcttcct	7	7	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:132643820G>T	uc003qdf.2	-	8	1402	c.1303C>A	c.(1303-1305)CCA>ACA	p.P435T	MOXD1_uc003qde.2_Missense_Mutation_p.P367T	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	435	Lumenal (Potential).				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		ATGCATACTGGTAAGATTGTT	0.333													8	16	---	---	---	---	PASS	T	132643820	T	T	132643820	3	4	77	1	0	0	0	0	1	0	0	0	9720	1261	44	3	558	3	MOXD1	6	132643820	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	6437430	132643820	38471247	187	29297										
HIVEP2	3097	broad.mit.edu	37	chr6	143081135	143081135	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctctttgggacatctctcttCtcaatgcagcttcctttctt	5	13	5	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:143081135C>G	uc003qjd.2	-	9	7033	c.6290G>C	c.(6289-6291)AGA>ACA	p.R2097T		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	2097	10 X 4 AA tandem repeats of S-P-[RGMKC]- [RK].|Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CATCTCTCTTCTCAATGCAGC	0.458													10	16	---	---	---	---	PASS	G	143081135	G	G	143081135	3	3	77	1	0	0	0	0	1	0	0	0	7187	913	32	2	1058	2	HIVEP2	6	143081135	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	10437315	143081135	28033932	188	29298										
SASH1	23328	broad.mit.edu	37	chr6	148869683	148869683	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcaaactgccgccaggccctGaggccatgtagccaggcccg	12	16	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:148869683G>C	uc003qme.1	+	20	4208	c.3733G>C	c.(3733-3735)GAG>CAG	p.E1245Q	SASH1_uc003qmf.1_Missense_Mutation_p.E655Q	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	1245							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		GCCAGGCCCTGAGGCCATGTA	0.552													15	43	---	---	---	---	PASS	C	148869683	C	C	148869683	3	2	77	1	0	0	0	0	1	0	0	0	13848	1291	45	2	3811	2	SASH1	6	148869683	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	5788548	148869683	22245384	189	29299										
AKAP12	9590	broad.mit.edu	37	chr6	151671465	151671465	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcgctaccttgtcttccaccGagagcacagcctctgaaatg	9	14	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:151671465G>T	uc011eep.1	+	4	2179	c.1939G>T	c.(1939-1941)GAG>TAG	p.E647*	AKAP12_uc003qoe.2_Nonsense_Mutation_p.E647*|AKAP12_uc003qof.2_Nonsense_Mutation_p.E549*|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Nonsense_Mutation_p.E542*	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	647					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GTCTTCCACCGAGAGCACAGC	0.502													5	89	---	---	---	---	PASS	T	151671465	T	T	151671465	4	4	77	1	0	0	0	0	0	1	0	0	448	1059	37	2	1978	2	AKAP12	6	151671465	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2801782	151671465	19443602	190	29300										
CNKSR3	154043	broad.mit.edu	37	chr6	154744078	154744078	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctgattaacttgaatgacttCgtcaccagcatgaatcttct	6	10	3	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:154744078C>T	uc003qpy.2	-	8	1274	c.769G>A	c.(769-771)GAA>AAA	p.E257K		NM_173515	NP_775786	Q6P9H4	CNKR3_HUMAN	CNKSR family member 3	257	PDZ.				negative regulation of ERK1 and ERK2 cascade|negative regulation of peptidyl-serine phosphorylation|positive regulation of sodium ion transport	cytoplasm|membrane				ovary(2)|breast(1)|skin(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;5.03e-11)|BRCA - Breast invasive adenocarcinoma(81;0.00627)		TGAATGACTTCGTCACCAGCA	0.328													7	31	---	---	---	---	PASS	T	154744078	T	T	154744078	3	4	77	1	0	0	0	0	1	0	0	0	3608	893	31	2	922	2	CNKSR3	6	154744078	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	3072613	154744078	16370989	191	29301										
TFB1M	51106	broad.mit.edu	37	chr6	155579120	155579120	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagaggctcttaaagtgtgaGatggagagctggcggggccg	18	7	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:155579120G>C	uc003qqj.3	-	7	955	c.891C>G	c.(889-891)ATC>ATG	p.I297M	TFB1M_uc003qqk.2_Intron|uc003qqi.1_5'Flank	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	297					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		TAAAGTGTGAGATGGAGAGCT	0.463													27	63	---	---	---	---	PASS	C	155579120	C	C	155579120	3	2	77	1	0	0	0	0	1	0	0	0	15790	932	33	2	153	2	TFB1M	6	155579120	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	835042	155579120	15535947	192	29302										
TMEM181	57583	broad.mit.edu	37	chr6	158957791	158957791	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acgccgagtaccctgcctttGagcccccgctctgcagcgag	11	17	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:158957791G>C	uc003qrm.3	+	1	324	c.313G>C	c.(313-315)GAG>CAG	p.E105Q	TMEM181_uc010kjr.1_5'UTR	NM_020823	NP_065874	Q9P2C4	TM181_HUMAN	G protein-coupled receptor 178	105					pathogenesis	integral to membrane	toxin binding			ovary(2)|central_nervous_system(1)	3		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;8.15e-18)|BRCA - Breast invasive adenocarcinoma(81;1.38e-05)		CCCTGCCTTTGAGCCCCCGCT	0.697													3	3	---	---	---	---	PASS	C	158957791	C	C	158957791	3	2	77	1	0	0	0	0	1	0	0	0	16097	1291	45	2	315	2	TMEM181	6	158957791	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3378671	158957791	12157276	193	29303										
LPA	4018	broad.mit.edu	37	chr6	160953575	160953575	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tttcttacctggcaactgtcAgtgcctctggccaaatgctc	8	13	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:160953575A>G	uc003qtl.2	-	39	6069	c.5949T>C	c.(5947-5949)ACT>ACC	p.T1983T		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4491	Peptidase S1.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	GGCAACTGTCAGTGCCTCTGG	0.463													11	27	---	---	---	---	PASS	G	160953575	G	G	160953575	2	3	77	1	0	0	0	0	0	0	0	1	8903	175	7	5		5	LPA	6	160953575	Silent	SNP	A	TCGA-37-3789-01A-01D-0983-08	1995784	160953575	10161492	194	29304										
MAP3K4	4216	broad.mit.edu	37	chr6	161514085	161514085	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gctttaccagaagatgacttCttggtatggattattctaaa	8	6	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:161514085C>A	uc003qtn.2	+	14	3487	c.3345C>A	c.(3343-3345)TTC>TTA	p.F1115L	MAP3K4_uc010kkc.1_Missense_Mutation_p.F1115L|MAP3K4_uc003qto.2_Missense_Mutation_p.F1115L|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.F568L|MAP3K4_uc003qtp.2_Missense_Mutation_p.F105L	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	1115					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)		AAGATGACTTCTTGGTATGGA	0.323													4	20	---	---	---	---	PASS	A	161514085	A	A	161514085	3	1	77	1	0	0	0	0	1	0	0	0	9252	912	32	2	3399	2	MAP3K4	6	161514085	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	560510	161514085	9600982	195	29305										
AGPAT4	56895	broad.mit.edu	37	chr6	161653130	161653130	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agagctgcttgttaatgggcCagaggaggagagtgaagagc	17	5	0	5			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:161653130C>A	uc003qtr.1	-	2	343	c.116G>T	c.(115-117)TGG>TTG	p.W39L	AGPAT4_uc003qts.1_5'UTR|AGPAT4_uc011egb.1_Missense_Mutation_p.W39L|AGPAT4_uc003qtt.1_RNA|AGPAT4_uc011egc.1_Missense_Mutation_p.W39L|AGPAT4_uc011egd.1_Intron|AGPAT4_uc011ege.1_Missense_Mutation_p.W39L	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	39					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		GTTAATGGGCCAGAGGAGGAG	0.463													5	52	---	---	---	---	PASS	A	161653130	A	A	161653130	3	1	77	1	0	0	0	0	1	0	0	0	389	595	21	3	1052	3	AGPAT4	6	161653130	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	139045	161653130	9461937	196	29306										
MLLT4	4301	broad.mit.edu	37	chr6	168352586	168352586	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agctttcctcgggggacagtCtgtcccccgacccgtggaag	13	14	1	0	rs141139097		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr6:168352586C>T	uc003qwd.2	+	29	4670	c.4528C>T	c.(4528-4530)CTG>TTG	p.L1510L	MLLT4_uc003qwb.1_Silent_p.L1495L|MLLT4_uc003qwc.1_Silent_p.L1511L|MLLT4_uc003qwg.1_Silent_p.L820L	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1511					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		GGGGGACAGTCTGTCCCCCGA	0.602			T	MLL	AL								14	26	---	---	---	---	PASS	T	168352586	T	T	168352586	2	4	77	1	0	0	0	0	0	0	0	1	9629	912	32	2		2	MLLT4	6	168352586	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	6699456	168352586	2762481	197	29307										
SNX8	29886	broad.mit.edu	37	chr7	2297430	2297430	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tccaccacgtcgttctcttcCtgcttaccctggaaggcgag	9	15	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:2297430C>A	uc003slw.2	-	8	967	c.924G>T	c.(922-924)CAG>CAT	p.Q308H		NM_013321	NP_037453	Q9Y5X2	SNX8_HUMAN	sorting nexin 8	308					cell communication|early endosome to Golgi transport|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0853)|OV - Ovarian serous cystadenocarcinoma(56;3.79e-14)		CGTTCTCTTCCTGCTTACCCT	0.612													9	346	---	---	---	---	PASS	A	2297430	A	A	2297430	3	1	77	1	0	0	0	0	1	0	0	0	14908	680	24	3	489	3	SNX8	7	2297430	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08		2297430	156841233	198	29308										
MMD2	221938	broad.mit.edu	37	chr7	4959907	4959907	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagagatggtctcccagtcaTcgtccgacaggaagtagagg	13	10	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:4959907T>C	uc003sno.3	-	3	381	c.185A>G	c.(184-186)GAT>GGT	p.D62G	MMD2_uc003snl.1_RNA|MMD2_uc003snn.3_Missense_Mutation_p.D62G|MMD2_uc010ksq.2_Missense_Mutation_p.D62G	NM_001100600	NP_001094070	Q8IY49	PAQRA_HUMAN	monocyte to macrophage	62	Extracellular (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.097)|OV - Ovarian serous cystadenocarcinoma(56;3.4e-14)		CTCCCAGTCATCGTCCGACAG	0.617													15	5	---	---	---	---	PASS	C	4959907	C	C	4959907	3	2	77	1	0	0	0	0	1	0	0	0	9644	1435	50	5	647	5	MMD2	7	4959907	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	2662477	4959907	154178756	199	29309										
ZDHHC4	55146	broad.mit.edu	37	chr7	6628525	6628525	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgcctttccatgtcatgagaGgaagaaacaagaatgacaag	10	7	1	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:6628525G>T	uc003sqi.2	+	9	1377	c.1019G>T	c.(1018-1020)AGG>ATG	p.R340M	ZDHHC4_uc003sql.2_Missense_Mutation_p.R340M|ZDHHC4_uc003sqh.2_Missense_Mutation_p.R340M|ZDHHC4_uc003sqj.2_Missense_Mutation_p.R340M|ZDHHC4_uc003sqk.2_Missense_Mutation_p.R340M|ZDHHC4_uc003sqm.2_Missense_Mutation_p.R340M|uc011jwy.1_5'Flank|C7orf26_uc003sqo.1_5'Flank|C7orf26_uc003sqp.1_5'Flank|C7orf26_uc003sqq.1_5'Flank	NM_001134388	NP_001127860	Q9NPG8	ZDHC4_HUMAN	zinc finger, DHHC-type containing 4	340						integral to membrane	acyltransferase activity|zinc ion binding			breast(1)|pancreas(1)	2		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.1)		TGTCATGAGAGGAAGAAACAA	0.473													10	250	---	---	---	---	PASS	T	6628525	T	T	6628525	3	4	77	1	0	0	0	0	1	0	0	0	17614	1000	35	3	1041	3	ZDHHC4	7	6628525	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1668618	6628525	152510138	200	29310										
AHR	196	broad.mit.edu	37	chr7	17378616	17378616	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtacacaattttagagatgaGgaaggaacagagcatttacg	11	5	0	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:17378616G>T	uc011jxz.1	+	10	1780	c.1167G>T	c.(1165-1167)GAG>GAT	p.E389D	AHR_uc003stt.3_RNA	NM_001621	NP_001612	P35869	AHR_HUMAN	aryl hydrocarbon receptor precursor	389					apoptosis|blood vessel development|cell cycle|regulation of B cell proliferation|response to stress|transcription from RNA polymerase II promoter|xenobiotic metabolic process	cytosolic aryl hydrocarbon receptor complex|transcription factor complex	Hsp90 protein binding|ligand-dependent nuclear receptor activity|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			urinary_tract(1)|kidney(1)|pancreas(1)	3	Lung NSC(10;0.0392)|all_lung(11;0.0754)					TTAGAGATGAGGAAGGAACAG	0.303													6	113	---	---	---	---	PASS	T	17378616	T	T	17378616	3	4	77	1	0	0	0	0	1	0	0	0	416	991	35	3	1205	3	AHR	7	17378616	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	10750091	17378616	141760047	201	29311										
HOXA11	3207	broad.mit.edu	37	chr7	27224653	27224653	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtcattgggcgcgaagacggGgtctggggcagaaaagaagg	19	6	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:27224653G>T	uc003syx.2	-	1	183	c.111C>A	c.(109-111)ACC>ACA	p.T37T	HOXA11_uc003syy.2_Intron|HOXA11AS_uc003syz.1_5'Flank	NM_005523	NP_005514	P31270	HXA11_HUMAN	homeobox A11	37					branching involved in ureteric bud morphogenesis|cartilage development involved in endochondral bone morphogenesis|developmental growth|dorsal/ventral pattern formation|mesodermal cell fate specification|positive regulation of cell development|positive regulation of chondrocyte differentiation	protein-DNA complex|transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)	2						GCGAAGACGGGGTCTGGGGCA	0.562			T	NUP98	CML						OREG0003747	type=REGULATORY REGION|Gene=BC025338|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	49	44	---	---	---	---	PASS	T	27224653	T	T	27224653	2	4	77	1	0	0	0	0	0	0	0	1	7290	1219	43	3		3	HOXA11	7	27224653	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	9846037	27224653	131914010	202	29312										
MYO1G	64005	broad.mit.edu	37	chr7	45016187	45016187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccacctcagccctctggcttGgattggtgacagcagcgatg	12	13	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:45016187G>T	uc003tmh.2	-	3	518	c.374C>A	c.(373-375)CCA>CAA	p.P125Q	MYO1G_uc003tmg.2_5'Flank|MYO1G_uc010kym.2_Missense_Mutation_p.P10Q|MYO1G_uc003tmi.1_Missense_Mutation_p.P37Q|MYO1G_uc003tmj.2_5'UTR	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	125	Myosin head-like.					myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						CCTCTGGCTTGGATTGGTGAC	0.597													5	61	---	---	---	---	PASS	T	45016187	T	T	45016187	3	4	77	1	0	0	0	0	1	0	0	0	10074	1348	47	3	2762	3	MYO1G	7	45016187	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	17791534	45016187	114122476	203	29313										
SEC61G	23480	broad.mit.edu	37	chr7	54823496	54823496	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgatgttattaataggaataTggatcaatttcacaaagaag	8	3	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:54823496T>C	uc003tqf.2	-	3	264	c.173A>G	c.(172-174)CAT>CGT	p.H58R	SEC61G_uc003tqg.2_Missense_Mutation_p.H58R	NM_001012456	NP_001012474	P60059	SC61G_HUMAN	Sec61 gamma subunit	58	Helical; (Potential).				protein targeting to ER	endoplasmic reticulum membrane|integral to membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity			lung(1)	1	Esophageal squamous(2;7.55e-08)|Breast(14;0.0654)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)			AATAGGAATATGGATCAATTT	0.323													12	113	---	---	---	---	PASS	C	54823496	C	C	54823496	3	2	77	1	0	0	0	0	1	0	0	0	14003	1464	51	5	41	5	SEC61G	7	54823496	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	9807309	54823496	104315167	204	29314										
LANCL2	55915	broad.mit.edu	37	chr7	55493093	55493093	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tccctttaccgtctcacgcaGgataagaagtacctctaccg	7	14	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:55493093G>T	uc003tqp.2	+	7	1733	c.1155G>T	c.(1153-1155)CAG>CAT	p.Q385H		NM_018697	NP_061167	Q9NS86	LANC2_HUMAN	LanC lantibiotic synthetase component C-like 2	385					negative regulation of transcription, DNA-dependent|positive regulation of abscisic acid mediated signaling pathway	cortical actin cytoskeleton|cytosol|nucleus|plasma membrane	ATP binding|catalytic activity|GTP binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding			ovary(1)|skin(1)	2	Breast(14;0.0379)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00128)|Epithelial(13;0.0706)			GTCTCACGCAGGATAAGAAGT	0.537													10	327	---	---	---	---	PASS	T	55493093	T	T	55493093	3	4	77	1	0	0	0	0	1	0	0	0	8621	991	35	3	1181	3	LANCL2	7	55493093	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	669597	55493093	103645570	205	29315										
SEPT14	346288	broad.mit.edu	37	chr7	55863741	55863741	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcttcctcgagcttccttatCtcctcctgttgaatcatttt	4	13	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:55863741C>G	uc003tqz.2	-	10	1281	c.1164G>C	c.(1162-1164)GAG>GAC	p.E388D		NM_207366	NP_997249	Q6ZU15	SEP14_HUMAN	septin 14	388	Potential.				cell cycle|cell division	septin complex	GTP binding|protein binding				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			GCTTCCTTATCTCCTCCTGTT	0.438													62	24	---	---	---	---	PASS	G	55863741	G	G	55863741	3	3	77	1	0	0	0	0	1	0	0	0	14063	912	32	2	138	2	SEPT14	7	55863741	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	370648	55863741	103274922	206	29316										
DBF4	10926	broad.mit.edu	37	chr7	87526637	87526637	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctcaaaaagccttttgtaaaGgtggaagatatgagccagta	10	6	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:87526637G>T	uc003ujf.1	+	8	1167	c.663G>T	c.(661-663)AAG>AAT	p.K221N	DBF4_uc003ujh.1_Translation_Start_Site|DBF4_uc003ujg.1_Translation_Start_Site|DBF4_uc011khf.1_Intron	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	221					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				CTTTTGTAAAGGTGGAAGATA	0.313													9	245	---	---	---	---	PASS	T	87526637	T	T	87526637	3	4	77	1	0	0	0	0	1	0	0	0	4248	991	35	3	693	3	DBF4	7	87526637	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	31662896	87526637	71612026	207	29317										
AKAP9	10142	broad.mit.edu	37	chr7	91726596	91726596	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgactacaaggaatcatgcaGgaattccagaagcaagaact	9	9	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:91726596G>T	uc003ulg.2	+	41	10548	c.10323G>T	c.(10321-10323)CAG>CAT	p.Q3441H	AKAP9_uc003ulf.2_Missense_Mutation_p.Q3433H|AKAP9_uc003uli.2_Missense_Mutation_p.Q3064H|AKAP9_uc003ulj.2_Missense_Mutation_p.Q1211H|AKAP9_uc003ull.2_Missense_Mutation_p.Q337H	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3445	Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GAATCATGCAGGAATTCCAGA	0.393			T	BRAF	papillary thyroid								7	104	---	---	---	---	PASS	T	91726596	T	T	91726596	3	4	77	1	0	0	0	0	1	0	0	0	459	991	35	3	10485	3	AKAP9	7	91726596	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	4199959	91726596	67412067	208	29318										
TRRAP	8295	broad.mit.edu	37	chr7	98508832	98508832	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgaaccccttaacgttcaaaGaaatcttccaaactacggtc	5	12	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:98508832G>T	uc003upp.2	+	17	2154	c.1945G>T	c.(1945-1947)GAA>TAA	p.E649*	TRRAP_uc011kis.1_Nonsense_Mutation_p.E649*|TRRAP_uc003upr.2_Nonsense_Mutation_p.E341*	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	649					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			AACGTTCAAAGAAATCTTCCA	0.403													10	106	---	---	---	---	PASS	T	98508832	T	T	98508832	4	4	77	1	0	0	0	0	0	1	0	0	16598	943	33	2	2007	2	TRRAP	7	98508832	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	6782236	98508832	60629831	209	29319										
TRRAP	8295	broad.mit.edu	37	chr7	98588092	98588092	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tctcaggtgctgtggcttttGagttttgatgatgacaaaaa	11	5	1	4	rs77396759		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:98588092G>C	uc003upp.2	+	63	9827	c.9618G>C	c.(9616-9618)TTG>TTC	p.L3206F	TRRAP_uc011kis.1_Missense_Mutation_p.L3177F|TRRAP_uc003upr.2_Missense_Mutation_p.L2894F	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3206	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TGTGGCTTTTGAGTTTTGATG	0.473													14	222	---	---	---	---	PASS	C	98588092	C	C	98588092	3	2	77	1	0	0	0	0	1	0	0	0	16598	1281	45	2	9773	2	TRRAP	7	98588092	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	79260	98588092	60550571	210	29320										
TRRAP	8295	broad.mit.edu	37	chr7	98601931	98601931	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cccaaattcttcctcatagaGgaaaagtgccggttcttgag	9	10	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:98601931G>T	uc003upp.2	+	67	10595	c.10386G>T	c.(10384-10386)GAG>GAT	p.E3462D	TRRAP_uc011kis.1_Missense_Mutation_p.E3433D|TRRAP_uc003upr.2_Missense_Mutation_p.E3168D	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3462					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TCCTCATAGAGGAAAAGTGCC	0.428													15	588	---	---	---	---	PASS	T	98601931	T	T	98601931	3	4	77	1	0	0	0	0	1	0	0	0	16598	991	35	3	10557	3	TRRAP	7	98601931	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	13839	98601931	60536732	211	29321										
EPHB4	2050	broad.mit.edu	37	chr7	100404041	100404041	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtaggaccacgggacacttaCgtcctgattgctcatgtccc	10	13	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:100404041C>T	uc003uwn.1	-	14	2975	c.2484_splice	c.e14+1	p.D828_splice	EPHB4_uc003uwm.1_Splice_Site_p.D735_splice|EPHB4_uc010lhj.1_Splice_Site_p.D828_splice	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor						cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					GGGACACTTACGTCCTGATTG	0.542													23	25	---	---	---	---	PASS	T	100404041	T	T	100404041	5	4	77	1	0	0	0	0	0	0	1	0	5177	550	19	1	494	1	EPHB4	7	100404041	Splice_Site	SNP	C	TCGA-37-3789-01A-01D-0983-08	1802110	100404041	58734622	212	29322										
MUC17	140453	broad.mit.edu	37	chr7	100679392	100679392	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gacggtaccagcatgcaaacCtcaacttatagtgaaggaag	10	9	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:100679392C>A	uc003uxp.1	+	3	4748	c.4695C>A	c.(4693-4695)ACC>ACA	p.T1565T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1565	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|24.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GCATGCAAACCTCAACTTATA	0.488													8	189	---	---	---	---	PASS	A	100679392	A	A	100679392	2	1	77	1	0	0	0	0	0	0	0	1	9974	668	24	3		3	MUC17	7	100679392	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	275351	100679392	58459271	213	29323										
MUC17	140453	broad.mit.edu	37	chr7	100683654	100683654	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctcaactcctggcgaaagaaGaactccattaacaagtatgt	7	10	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:100683654G>A	uc003uxp.1	+	3	9010	c.8957G>A	c.(8956-8958)AGA>AAA	p.R2986K	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2986	Extracellular (Potential).|Ser-rich.|48.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GGCGAAAGAAGAACTCCATTA	0.517													101	107	---	---	---	---	PASS	A	100683654	A	A	100683654	3	1	77	1	0	0	0	0	1	0	0	0	9974	942	33	2	8967	2	MUC17	7	100683654	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	4262	100683654	58455009	214	29324										
IQUB	154865	broad.mit.edu	37	chr7	123104992	123104992	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcaaggttatgatgtttgacTcctctcatcataaggtcaac	7	9	4	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:123104992T>C	uc003vkn.2	-	10	2230	c.1653A>G	c.(1651-1653)GGA>GGG	p.G551G	IQUB_uc003vko.2_Silent_p.G551G|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Silent_p.G551G	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	551										ovary(3)|large_intestine(1)	4						GATGTTTGACTCCTCTCATCA	0.323													4	13	---	---	---	---	PASS	C	123104992	C	C	123104992	2	2	77	1	0	0	0	0	0	0	0	1	7820	1538	54	5		5	IQUB	7	123104992	Silent	SNP	T	TCGA-37-3789-01A-01D-0983-08	22421338	123104992	36033671	215	29325										
PLXNA4	91584	broad.mit.edu	37	chr7	131853105	131853105	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggttcttgctctccaggttcTtgtcaatgaggtcggccagc	12	11	4	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:131853105T>C	uc003vra.3	-	22	4473	c.4244A>G	c.(4243-4245)AAG>AGG	p.K1415R		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1415	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CTCCAGGTTCTTGTCAATGAG	0.607													6	15	---	---	---	---	PASS	C	131853105	C	C	131853105	3	2	77	1	0	0	0	0	1	0	0	0	12122	1609	56	5	1484	5	PLXNA4	7	131853105	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	8748113	131853105	27285558	216	29326										
PLXNA4	91584	broad.mit.edu	37	chr7	131872233	131872233	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggggccctctgagttacctgTggaagagacagggctgcttt	15	9	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:131872233T>C	uc003vra.3	-	15	3219	c.2990A>G	c.(2989-2991)CAC>CGC	p.H997R		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	997	IPT/TIG 2.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GAGTTACCTGTGGAAGAGACA	0.532													75	106	---	---	---	---	PASS	C	131872233	C	C	131872233	3	2	77	1	0	0	0	0	1	0	0	0	12122	1696	59	5	2766	5	PLXNA4	7	131872233	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	19128	131872233	27266430	217	29327										
SLC13A4	26266	broad.mit.edu	37	chr7	135387595	135387595	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaaaccccaaggccatacctCgttgtgcatcagagtggtga	10	11	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:135387595C>A	uc003vta.2	-	6	1317	c.628G>T	c.(628-630)GAG>TAG	p.E210*	SLC13A4_uc003vtb.2_Nonsense_Mutation_p.E211*	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	210						integral to plasma membrane	sodium:sulfate symporter activity				0						GGCCATACCTCGTTGTGCATC	0.522													5	95	---	---	---	---	PASS	A	135387595	A	A	135387595	4	1	77	1	0	0	0	0	0	1	0	0	14394	893	31	2	1296	2	SLC13A4	7	135387595	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	3515362	135387595	23751068	218	29328										
DENND2A	27147	broad.mit.edu	37	chr7	140301337	140301337	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cttttctctttcctgaagccGatgccaggcttcccatcttt	6	14	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:140301337G>T	uc010lnj.2	-	1	1006	c.861C>A	c.(859-861)ATC>ATA	p.I287I	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Silent_p.I287I|DENND2A_uc003vvw.2_Silent_p.I287I|DENND2A_uc003vvx.2_Silent_p.I287I	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	287										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					TCCTGAAGCCGATGCCAGGCT	0.378													4	50	---	---	---	---	PASS	T	140301337	T	T	140301337	2	4	77	1	0	0	0	0	0	0	0	1	4429	1048	37	2		2	DENND2A	7	140301337	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	4913742	140301337	18837326	219	29329										
EZH2	2146	broad.mit.edu	37	chr7	148512011	148512011	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcaacaaatacttacactctGaactacattgacaaaacttt	3	10	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:148512011G>C	uc003wfd.1	-	14	1818	c.1652C>G	c.(1651-1653)TCA>TGA	p.S551*	EZH2_uc011kug.1_Intron|EZH2_uc003wfb.1_Nonsense_Mutation_p.S556*|EZH2_uc003wfc.1_Nonsense_Mutation_p.S512*|EZH2_uc011kuh.1_Nonsense_Mutation_p.S542*	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	551	Cys-rich.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			CTTACACTCTGAACTACATTG	0.373			Mis		DLBCL								8	11	---	---	---	---	PASS	C	148512011	C	C	148512011	4	2	77	1	0	0	0	0	0	1	0	0	5334	1294	45	2	616	2	EZH2	7	148512011	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	8210674	148512011	10626652	220	29330										
ZNF425	155054	broad.mit.edu	37	chr7	148801651	148801651	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcactggaagggccgcttccCaatgtgctgcagcccgtggg	15	13	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:148801651C>T	uc003wfj.2	-	4	1385	c.1312G>A	c.(1312-1314)GGG>AGG	p.G438R		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	438					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			GGCCGCTTCCCAATGTGCTGC	0.607													28	26	---	---	---	---	PASS	T	148801651	T	T	148801651	3	4	77	1	0	0	0	0	1	0	0	0	17896	594	21	3	950	3	ZNF425	7	148801651	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	289640	148801651	10337012	221	29331										
SMARCD3	6604	broad.mit.edu	37	chr7	150939642	150939642	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gaatcctcagcatcaggcttCgcagggttaaaagtgttgga	12	8	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr7:150939642C>A	uc003wjs.2	-	5	605	c.504G>T	c.(502-504)GCG>GCT	p.A168A	SMARCD3_uc003wjt.2_Silent_p.A155A|SMARCD3_uc003wju.2_Silent_p.A155A|SMARCD3_uc011kvh.1_Silent_p.A168A|SMARCD3_uc010lqa.1_Silent_p.A168A	NM_001003801	NP_001003801	Q6STE5	SMRD3_HUMAN	SWI/SNF related, matrix associated, actin	168					cellular lipid metabolic process|chromatin modification|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	nuclear hormone receptor binding|protein binding|transcription coactivator activity|transcription factor binding			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CATCAGGCTTCGCAGGGTTAA	0.577													5	94	---	---	---	---	PASS	A	150939642	A	A	150939642	2	1	77	1	0	0	0	0	0	0	0	1	14779	871	31	2		2	SMARCD3	7	150939642	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	2137991	150939642	8199021	222	29332										
SGCZ	137868	broad.mit.edu	37	chr8	14412436	14412436	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atgtattgttctcgtgtcatCtgaaaaagaaaaaagaaaga	8	4	3	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:14412436C>T	uc003wwq.2	-	2	700	c.40_splice	c.e2-1	p.M14_splice	SGCZ_uc010lss.2_Splice_Site_p.M1_splice	NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta						cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		CTCGTGTCATCTGaaaaagaa	0.289													6	12	---	---	---	---	PASS	T	14412436	T	T	14412436	5	4	77	1	0	0	0	0	0	0	1	0	14204	927	32	2	927	2	SGCZ	8	14412436	Splice_Site	SNP	C	TCGA-37-3789-01A-01D-0983-08		14412436	131951586	223	29333										
XPO7	23039	broad.mit.edu	37	chr8	21848343	21848343	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcgagcacttttcatttttgGgtattaacaatcagtccaac	7	9	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:21848343G>T	uc003xaa.3	+	18	2056	c.1954G>T	c.(1954-1956)GGT>TGT	p.G652C	XPO7_uc010lti.2_Missense_Mutation_p.G661C|XPO7_uc010ltk.2_Missense_Mutation_p.G653C	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	652					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		TTCATTTTTGGGTATTAACAA	0.408													6	99	---	---	---	---	PASS	T	21848343	T	T	21848343	3	4	77	1	0	0	0	0	1	0	0	0	17446	1232	43	3	2076	3	XPO7	8	21848343	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	7435907	21848343	124515679	224	29334										
CHMP7	91782	broad.mit.edu	37	chr8	23114092	23114092	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgcaaagtggagtccttatcCcaggaagcagagaggtaact	12	9	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:23114092C>A	uc003xdc.2	+	5	1425	c.777C>A	c.(775-777)TCC>TCA	p.S259S	CHMP7_uc011kzs.1_RNA|CHMP7_uc003xdd.2_Silent_p.S149S|CHMP7_uc003xde.2_Silent_p.S117S	NM_152272	NP_689485	Q8WUX9	CHMP7_HUMAN	CHMP family, member 7	259	Potential.				cellular membrane organization|late endosome to vacuole transport	cytosol|ESCRT III complex	protein transporter activity				0		Prostate(55;0.0513)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		AGTCCTTATCCCAGGAAGCAG	0.512													8	144	---	---	---	---	PASS	A	23114092	A	A	23114092	2	1	77	1	0	0	0	0	0	0	0	1	3361	610	22	3		3	CHMP7	8	23114092	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	1265749	23114092	123249930	225	29335										
NRG1	3084	broad.mit.edu	37	chr8	32617716	32617716	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtctctcccatttcctccgcAgctggagcaacggacacact	8	16	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:32617716A>T	uc003xiv.2	+	11	1579	c.1062_splice	c.e11-2	p.S354_splice	NRG1_uc011lbf.1_Splice_Site_p.S351_splice|NRG1_uc010lvo.2_Splice_Site_p.S351_splice|NRG1_uc003xiu.2_Splice_Site_p.S359_splice|NRG1_uc003xiw.2_Splice_Site_p.S351_splice|NRG1_uc003xit.2_Splice_Site_p.S354_splice|NRG1_uc010lvr.2_Splice_Site_p.S96_splice|NRG1_uc010lvs.2_Splice_Site_p.S96_splice|NRG1_uc010lvp.2_Splice_Site_p.S308_splice|NRG1_uc010lvq.2_Splice_Site_p.S291_splice|NRG1_uc011lbg.1_Splice_Site_p.S200_splice|NRG1_uc011lbh.1_Splice_Site_p.S197_splice|NRG1_uc003xja.2_Splice_Site_p.S165_splice	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha						activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		TTTCCTCCGCAGCTGGAGCAA	0.433													14	24	---	---	---	---	PASS	T	32617716	T	T	32617716	5	4	77	1	0	0	0	0	0	0	1	0	10647	202	7	5	2698	5	NRG1	8	32617716	Splice_Site	SNP	A	TCGA-37-3789-01A-01D-0983-08	9503624	32617716	113746306	226	29336										
FUT10	84750	broad.mit.edu	37	chr8	33246586	33246586	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgcactccccatttccgttcCctgagagctgtcagaagtcg	9	14	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:33246586C>A	uc003xje.2	-	4	1463	c.1107G>T	c.(1105-1107)AGG>AGT	p.R369S	FUT10_uc003xjc.2_Missense_Mutation_p.R376S|FUT10_uc003xjd.2_Missense_Mutation_p.R341S|FUT10_uc011lbi.1_Missense_Mutation_p.R419S|FUT10_uc003xjf.2_Missense_Mutation_p.R307S|FUT10_uc003xjg.2_Missense_Mutation_p.R341S|FUT10_uc003xjh.2_Missense_Mutation_p.R369S	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	369	Lumenal (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		ATTTCCGTTCCCTGAGAGCTG	0.483													7	67	---	---	---	---	PASS	A	33246586	A	A	33246586	3	1	77	1	0	0	0	0	1	0	0	0	6102	622	22	3	340	3	FUT10	8	33246586	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	628870	33246586	113117436	227	29337										
BAG4	9530	broad.mit.edu	37	chr8	38067632	38067632	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gacagtgaacaatgatgattCagatcttttggattcccaag	9	7	2	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:38067632C>A	uc003xky.1	+	5	1277	c.995C>A	c.(994-996)TCA>TAA	p.S332*	BAG4_uc003xkz.1_Nonsense_Mutation_p.S296*	NM_004874	NP_004865	O95429	BAG4_HUMAN	BCL2-associated athanogene 4	332					anti-apoptosis|apoptosis|protein folding	cytoplasm|nucleus	receptor signaling protein activity			ovary(1)	1	Colorectal(12;0.000442)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.121)				AATGATGATTCAGATCTTTTG	0.458													28	43	---	---	---	---	PASS	A	38067632	A	A	38067632	4	1	77	1	0	0	0	0	0	1	0	0	1289	838	29	2	1013	2	BAG4	8	38067632	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	4821046	38067632	108296390	228	29338										
AGPAT6	137964	broad.mit.edu	37	chr8	41467233	41467233	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcaaagagattcgtcgaagtGgtagtagtaaggctctggac	13	6	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:41467233G>T	uc003xnz.2	+	4	1234	c.295G>T	c.(295-297)GGT>TGT	p.G99C		NM_178819	NP_848934	Q86UL3	GPAT4_HUMAN	lysophosphatidic acid acyltransferase zeta	99					acyl-CoA metabolic process|lactation|phosphatidylcholine biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|membrane fraction	glycerol-3-phosphate O-acyltransferase activity				0	Ovarian(28;0.00769)|Colorectal(14;0.0202)|Lung SC(25;0.211)	all_lung(54;0.0131)|Lung NSC(58;0.0363)|Hepatocellular(245;0.0462)|Esophageal squamous(32;0.0844)	OV - Ovarian serous cystadenocarcinoma(14;0.00126)|Colorectal(10;0.0014)|Lung(22;0.00177)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0147)			TCGTCGAAGTGGTAGTAGTAA	0.468													11	219	---	---	---	---	PASS	T	41467233	T	T	41467233	3	4	77	1	0	0	0	0	1	0	0	0	391	1348	47	3	305	3	AGPAT6	8	41467233	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3399601	41467233	104896789	229	29339										
ANK1	286	broad.mit.edu	37	chr8	41615563	41615563	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atcccacttacctggttacaGgtgttaatatctaccccatt	5	12	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:41615563G>T	uc003xok.2	-	2	204	c.120C>A	c.(118-120)ACC>ACA	p.T40T	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Silent_p.T40T|ANK1_uc003xoj.2_Silent_p.T40T|ANK1_uc003xol.2_Silent_p.T40T|ANK1_uc003xom.2_Silent_p.T73T	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	40	89 kDa domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			CCTGGTTACAGGTGTTAATAT	0.498													11	533	---	---	---	---	PASS	T	41615563	T	T	41615563	2	4	77	1	0	0	0	0	0	0	0	1	620	987	35	3		3	ANK1	8	41615563	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	148330	41615563	104748459	230	29340										
KIAA0146	23514	broad.mit.edu	37	chr8	48614343	48614343	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcacagctcatccaaatctgGgacaaattgatataattgac	6	9	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:48614343G>T	uc003xqd.2	+	13	1843	c.1834G>T	c.(1834-1836)GGA>TGA	p.G612*	KIAA0146_uc011ldb.1_Nonsense_Mutation_p.G612*|KIAA0146_uc010lxs.2_Nonsense_Mutation_p.G87*|KIAA0146_uc011ldc.1_Nonsense_Mutation_p.G542*|KIAA0146_uc011ldd.1_Nonsense_Mutation_p.G552*|KIAA0146_uc003xqe.2_Nonsense_Mutation_p.G87*|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc011lde.1_Nonsense_Mutation_p.G301*|KIAA0146_uc010lxt.2_Nonsense_Mutation_p.G301*|KIAA0146_uc011ldf.1_Nonsense_Mutation_p.G117*|KIAA0146_uc011ldg.1_Nonsense_Mutation_p.G102*|KIAA0146_uc010lxv.1_Nonsense_Mutation_p.G106*	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	612											0		Lung NSC(58;0.175)				TCCAAATCTGGGACAAATTGA	0.403													8	187	---	---	---	---	PASS	T	48614343	T	T	48614343	4	4	77	1	0	0	0	0	0	1	0	0	8157	1233	43	3	1884	3	KIAA0146	8	48614343	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	6998780	48614343	97749679	231	29341										
RP1	6101	broad.mit.edu	37	chr8	55533754	55533754	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttgtccaggaaggtgcccctCccttttggagtgaggaacat	12	10	0	1	rs142600056	byFrequency	TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:55533754C>A	uc003xsd.1	+	2	376	c.228C>A	c.(226-228)CTC>CTA	p.L76L	RP1_uc011ldy.1_Silent_p.L76L	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	76	Doublecortin 1.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			AGGTGCCCCTCCCTTTTGGAG	0.612													31	94	---	---	---	---	PASS	A	55533754	A	A	55533754	2	1	77	1	0	0	0	0	0	0	0	1	13532	842	30	2		2	RP1	8	55533754	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	6919411	55533754	90830268	232	29342										
KCNB2	9312	broad.mit.edu	37	chr8	73848373	73848373	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcaccaaataaatggaagttCttcaaaggcccactgaatgt	7	9	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:73848373C>G	uc003xzb.2	+	3	1371	c.783C>G	c.(781-783)TTC>TTG	p.F261L		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	261	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			AATGGAAGTTCTTCAAAGGCC	0.453													6	96	---	---	---	---	PASS	G	73848373	G	G	73848373	3	3	77	1	0	0	0	0	1	0	0	0	8013	912	32	2	789	2	KCNB2	8	73848373	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	18314619	73848373	72515649	233	29343										
LRRCC1	85444	broad.mit.edu	37	chr8	86050478	86050478	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agaaatcagaaaagcttacaGgtattatatagtacagtatt	7	4	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:86050478G>T	uc003ycw.2	+	16	2856	c.2702G>T	c.(2701-2703)AGT>ATT	p.S901I	LRRCC1_uc010maa.1_3'UTR|LRRCC1_uc003ycx.2_Missense_Mutation_p.S808I|LRRCC1_uc003ycy.2_Missense_Mutation_p.S881I	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	901					cell division|mitosis	centriole|nucleus					0						AAAGCTTACAGGTATTATATA	0.289													6	27	---	---	---	---	PASS	T	86050478	T	T	86050478	3	4	77	1	0	0	0	0	1	0	0	0	9026	1014	35	3	2764	3	LRRCC1	8	86050478	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	12202105	86050478	60313544	234	29344										
RPL30	6156	broad.mit.edu	37	chr8	99057209	99057209	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttagcgagaatgaccaatttCgctttgccttgtctgatcat	8	9	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:99057209C>A	uc003yif.2	-	3	199	c.129G>T	c.(127-129)GCG>GCT	p.A43A	RPL30_uc010mbk.1_Silent_p.A43A|SNORA72_uc003yig.1_5'Flank	NM_000989	NP_000980	P62888	RL30_HUMAN	ribosomal protein L30	43					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	RNA binding|structural constituent of ribosome				0	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.192)			TGACCAATTTCGCTTTGCCTT	0.488													7	303	---	---	---	---	PASS	A	99057209	A	A	99057209	2	1	77	1	0	0	0	0	0	0	0	1	13580	871	31	2		2	RPL30	8	99057209	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	13006731	99057209	47306813	235	29345										
DCAF13	25879	broad.mit.edu	37	chr8	104427350	104427350	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agtactgagggggcaagaacGgggcacagacactacgtcac	14	10	1	3	rs140179211	byFrequency	TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:104427350G>C	uc003yln.2	+	1	409	c.132G>C	c.(130-132)ACG>ACC	p.T44T	SLC25A32_uc003yll.2_5'UTR|SLC25A32_uc011lhr.1_5'UTR|DCAF13_uc003ylm.1_5'UTR|DCAF13_uc003ylo.2_5'UTR	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	Error:Variant_position_missing_in_Q9NV06_after_alignment					rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						GGGCAAGAACGGGGCACAGAC	0.657													23	34	---	---	---	---	PASS	C	104427350	C	C	104427350	2	2	77	1	0	0	0	0	0	0	0	1	4266	1103	39	4		4	DCAF13	8	104427350	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	5370141	104427350	41936672	236	29346										
KCNV1	27012	broad.mit.edu	37	chr8	110984530	110984530	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcatgcgcagagccctgagCagcctcaacacctggacaat	10	14	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:110984530C>G	uc003ynr.3	-	2	1290	c.948G>C	c.(946-948)CTG>CTC	p.L316L	KCNV1_uc010mcw.2_Silent_p.L316L	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	316	Helical; Voltage-sensor; Name=Segment S4; (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			GAGCCCTGAGCAGCCTCAACA	0.507													8	40	---	---	---	---	PASS	G	110984530	G	G	110984530	2	3	77	1	0	0	0	0	0	0	0	1	8094	697	25	4		4	KCNV1	8	110984530	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	6557180	110984530	35379492	237	29347										
CSMD3	114788	broad.mit.edu	37	chr8	113249469	113249469	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcagtgttgcgttaactctcCcagtggaagcattgaaacta	9	9	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:113249469C>A	uc003ynu.2	-	67	10736	c.10577G>T	c.(10576-10578)GGG>GTG	p.G3526V	CSMD3_uc003yns.2_Missense_Mutation_p.G2728V|CSMD3_uc003ynt.2_Missense_Mutation_p.G3486V|CSMD3_uc011lhx.1_Missense_Mutation_p.G3357V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3526	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GTTAACTCTCCCAGTGGAAGC	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			9	34	---	---	---	---	PASS	A	113249469	A	A	113249469	3	1	77	1	0	0	0	0	1	0	0	0	3946	623	22	3	566	3	CSMD3	8	113249469	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2264939	113249469	33114553	238	29348										
CSMD3	114788	broad.mit.edu	37	chr8	113301647	113301647	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cattcaattggcaggttcttGatgactggcctaaaagggaa	11	7	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:113301647G>C	uc003ynu.2	-	57	9254	c.9095C>G	c.(9094-9096)TCA>TGA	p.S3032*	CSMD3_uc003yns.2_Nonsense_Mutation_p.S2234*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.S2992*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.S2863*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3032	Sushi 21.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GCAGGTTCTTGATGACTGGCC	0.443										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			12	15	---	---	---	---	PASS	C	113301647	C	C	113301647	4	2	77	1	0	0	0	0	0	1	0	0	3946	1294	45	2	2088	2	CSMD3	8	113301647	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	52178	113301647	33062375	239	29349										
CSMD3	114788	broad.mit.edu	37	chr8	113332130	113332130	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaataatttaacagctttacCtatttcaaattcatcatctt	1	8	4	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:113332130C>A	uc003ynu.2	-	46	7405	c.7246G>T	c.(7246-7248)GGT>TGT	p.G2416C	CSMD3_uc003yns.2_Missense_Mutation_p.G1618C|CSMD3_uc003ynt.2_Missense_Mutation_p.G2376C|CSMD3_uc011lhx.1_Missense_Mutation_p.G2312C|CSMD3_uc003ynw.1_Missense_Mutation_p.G127C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2416	Extracellular (Potential).|Sushi 13.					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						ACAGCTTTACCTATTTCAAAT	0.363										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			8	30	---	---	---	---	PASS	A	113332130	A	A	113332130	3	1	77	1	0	0	0	0	1	0	0	0	3946	695	24	3	3981	3	CSMD3	8	113332130	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	30483	113332130	33031892	240	29350										
TRPS1	7227	broad.mit.edu	37	chr8	116631517	116631517	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tttgctgtccagctcagcatCttgcctggtgcggttatgca	11	11	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:116631517C>T	uc003ynz.2	-	2	1228	c.769G>A	c.(769-771)GAT>AAT	p.D257N	TRPS1_uc011lhy.1_Missense_Mutation_p.D261N|TRPS1_uc003yny.2_Missense_Mutation_p.D270N|TRPS1_uc010mcy.2_Missense_Mutation_p.D257N	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	257					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			AGCTCAGCATCTTGCCTGGTG	0.468									Langer-Giedion_syndrome				13	33	---	---	---	---	PASS	T	116631517	T	T	116631517	3	4	77	1	0	0	0	0	1	0	0	0	16590	913	32	2	3096	2	TRPS1	8	116631517	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	3299387	116631517	29732505	241	29351										
SLC45A4	57210	broad.mit.edu	37	chr8	142228416	142228416	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcaccacggcgttggcgcgCcggtagcggtagcagtggga	18	11	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr8:142228416C>G	uc003ywd.1	-	4	1478	c.1170G>C	c.(1168-1170)CGG>CGC	p.R390R	SLC45A4_uc003ywc.1_Silent_p.R390R|SLC45A4_uc010meq.1_Silent_p.R388R	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	441					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|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;0.0493)			CGTTGGCGCGCCGGTAGCGGT	0.687													18	18	---	---	---	---	PASS	G	142228416	G	G	142228416	2	3	77	1	0	0	0	0	0	0	0	1	14643	726	26	4		4	SLC45A4	8	142228416	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	25596899	142228416	4135606	242	29352										
GLIS3	169792	broad.mit.edu	37	chr9	3829318	3829318	+	Frame_Shift_Del	DEL	C	-	-													0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caaccaacacacctgtaatgCccgagtgagtcgagaaggct							TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:3829318delC	uc003zhw.1	-	9	2377	c.2183delG	c.(2182-2184)GGCfs	p.G728fs	GLIS3_uc003zhx.1_Frame_Shift_Del_p.G883fs|GLIS3_uc010mhf.1_Frame_Shift_Del_p.G277fs|GLIS3_uc003zhv.1_RNA	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	728					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		ACCTGTAATGCCCGAGTGAGT	0.552													16	13	---	---	---	---		-	3829318	-	-	3829318	7	5	77	1	0	1	0	1	0	0	0	0	6447	739	26	0	152	0	GLIS3	9	3829318	Frame_Shift_Del	DEL	C	TCGA-37-3789-01A-01D-0983-08		3829318	137384113	243	29353										
PTPRD	5789	broad.mit.edu	37	chr9	8436665	8436665	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggtctgcaagttccaagatgGgtattggaggatggctagcc	15	7	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:8436665G>T	uc003zkk.2	-	34	4724	c.4013C>A	c.(4012-4014)CCC>CAC	p.P1338H	PTPRD_uc003zkp.2_Missense_Mutation_p.P932H|PTPRD_uc003zkq.2_Missense_Mutation_p.P931H|PTPRD_uc003zkr.2_Missense_Mutation_p.P922H|PTPRD_uc003zks.2_Missense_Mutation_p.P931H|PTPRD_uc003zkl.2_Missense_Mutation_p.P1329H|PTPRD_uc003zkm.2_Missense_Mutation_p.P1325H|PTPRD_uc003zkn.2_Missense_Mutation_p.P927H|PTPRD_uc003zko.2_Missense_Mutation_p.P928H	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1338	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TTCCAAGATGGGTATTGGAGG	0.338										TSP Lung(15;0.13)			4	12	---	---	---	---	PASS	T	8436665	T	T	8436665	3	4	77	1	0	0	0	0	1	0	0	0	12799	1232	43	3	1773	3	PTPRD	9	8436665	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	4607347	8436665	132776766	244	29354										
TYRP1	7306	broad.mit.edu	37	chr9	12695714	12695714	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtttggacacactattactcAgtcaaaaagactttccttgg	7	9	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:12695714A>C	uc003zkv.3	+	3	763	c.585A>C	c.(583-585)TCA>TCC	p.S195S		NM_000550	NP_000541	P17643	TYRP1_HUMAN	tyrosinase-related protein 1 precursor	195	Lumenal, melanosome (Potential).				melanin biosynthetic process	clathrin-coated endocytic vesicle membrane|endosome membrane|integral to membrane|melanosome membrane	copper ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, another compound as one donor, and incorporation of one atom of oxygen|protein heterodimerization activity|protein homodimerization activity			lung(1)	1		all_cancers(3;3.1e-05)|all_lung(3;1.7e-06)|Lung NSC(3;2.09e-06)|all_epithelial(3;0.000695)|all_hematologic(3;0.0033)|Acute lymphoblastic leukemia(23;0.0744)		GBM - Glioblastoma multiforme(50;9.85e-06)		ACTATTACTCAGTCAAAAAGA	0.453									Oculocutaneous_Albinism				10	12	---	---	---	---	PASS	C	12695714	C	C	12695714	2	2	77	1	0	0	0	0	0	0	0	1	16813	175	7	5		5	TYRP1	9	12695714	Silent	SNP	A	TCGA-37-3789-01A-01D-0983-08	4259049	12695714	128517717	245	29355										
ELAVL2	1993	broad.mit.edu	37	chr9	23701421	23701421	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcggtcctggataccttctGtttggagactggtacagctg	13	9	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:23701421G>A	uc003zpu.2	-	5	944	c.669C>T	c.(667-669)AAC>AAT	p.N223N	ELAVL2_uc003zps.2_Silent_p.N223N|ELAVL2_uc003zpt.2_Silent_p.N223N|ELAVL2_uc003zpv.2_Silent_p.N223N|ELAVL2_uc003zpw.2_Silent_p.N223N	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	223					regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		GATACCTTCTGTTTGGAGACT	0.488													39	50	---	---	---	---	PASS	A	23701421	A	A	23701421	2	1	77	1	0	0	0	0	0	0	0	1	5050	1368	48	3		3	ELAVL2	9	23701421	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	11005707	23701421	117512010	246	29356										
HINT2	84681	broad.mit.edu	37	chr9	35813519	35813519	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caggaagtgcacaggagcctGaggggccacatcacggaaca	14	11	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:35813519G>A	uc003zyh.2	-	3	316	c.250C>T	c.(250-252)CAG>TAG	p.Q84*	SPAG8_uc003zye.2_5'Flank|SPAG8_uc003zyf.2_5'Flank|SPAG8_uc003zyg.2_5'Flank|HINT2_uc003zyi.2_Nonsense_Mutation_p.Q80*	NM_032593	NP_115982	Q9BX68	HINT2_HUMAN	PKCI-1-related HIT protein precursor	84	HIT.				apoptosis|steroid biosynthetic process	mitochondrion	hydrolase activity				0	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			ACAGGAGCCTGAGGGGCCACA	0.542											OREG0019179	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	22	---	---	---	---	PASS	A	35813519	A	A	35813519	4	1	77	1	0	0	0	0	0	1	0	0	7112	1299	45	2	253	2	HINT2	9	35813519	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	12112098	35813519	105399912	247	29357										
ECM2	1842	broad.mit.edu	37	chr9	95256390	95256390	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agagaggaaaggccacatctGatctgtttgtcactgtctct	10	9	4	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:95256390G>A	uc004asf.3	-	10	2057	c.1907C>T	c.(1906-1908)TCA>TTA	p.S636L	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron	NM_001393	NP_001384	O94769	ECM2_HUMAN	extracellular matrix protein 2 precursor	Error:Variant_position_missing_in_O94769_after_alignment					cell-matrix adhesion		integrin binding			ovary(1)|skin(1)	2						GGCCACATCTGATCTGTTTGT	0.423													26	60	---	---	---	---	PASS	A	95256390	A	A	95256390	3	1	77	1	0	0	0	0	1	0	0	0	4898	1305	45	2		2	ECM2	9	95256390	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	59442871	95256390	45957041	248	29358										
ZNF484	83744	broad.mit.edu	37	chr9	95609565	95609565	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cctgtcagtaaaggccttacCacacacagtacatatatagg	7	11	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:95609565C>A	uc004asu.1	-	5	1653	c.1504G>T	c.(1504-1506)GGT>TGT	p.G502C	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Missense_Mutation_p.G504C|ZNF484_uc010mrb.1_Missense_Mutation_p.G466C|ZNF484_uc004asv.1_Missense_Mutation_p.G466C	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	502	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAGGCCTTACCACACACAGTA	0.378													4	29	---	---	---	---	PASS	A	95609565	A	A	95609565	3	1	77	1	0	0	0	0	1	0	0	0	17934	594	21	3	1058	3	ZNF484	9	95609565	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	353175	95609565	45603866	249	29359										
KIAA1529	57653	broad.mit.edu	37	chr9	100124649	100124649	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccctcgtcacccaaaggcttCaagcgacatcggtgccagcc	9	17	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:100124649C>G	uc011lut.1	+	40	5150	c.4377C>G	c.(4375-4377)TTC>TTG	p.F1459L	KIAA1529_uc004axe.1_Missense_Mutation_p.F1254L|KIAA1529_uc004axg.1_Missense_Mutation_p.F1320L|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Missense_Mutation_p.F439L	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				CCAAAGGCTTCAAGCGACATC	0.617													63	47	---	---	---	---	PASS	G	100124649	G	G	100124649	3	3	77	1	0	0	0	0	1	0	0	0	8240	825	29	2	3876	2	KIAA1529	9	100124649	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	4515084	100124649	41088782	250	29360										
PPP3R2	5535	broad.mit.edu	37	chr9	104357046	104357046	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgatcactcgccgcaccaacGggttgtggcgcagctccggc	13	16	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:104357046G>A	uc004bbr.2	-	1	238	c.167C>T	c.(166-168)CCG>CTG	p.P56L	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_Intron	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	53	EF-hand 2.						calcium ion binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	CCGCACCAACGGGTTGTGGCG	0.562													38	28	---	---	---	---	PASS	A	104357046	A	A	104357046	3	1	77	1	0	0	0	0	1	0	0	0	12401	1116	39	1	358	1	PPP3R2	9	104357046	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	4232397	104357046	36856385	251	29361										
TNC	3371	broad.mit.edu	37	chr9	117853072	117853072	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctctgaaggcggtgccaggtCtttctccccactggctgact	11	14	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:117853072C>A	uc004bjj.3	-	2	588	c.226G>T	c.(226-228)GAC>TAC	p.D76Y	TNC_uc010mvf.2_Missense_Mutation_p.D76Y	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	76					cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GGTGCCAGGTCTTTCTCCCCA	0.547													80	56	---	---	---	---	PASS	A	117853072	A	A	117853072	3	1	77	1	0	0	0	0	1	0	0	0	16267	913	32	2	6487	2	TNC	9	117853072	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	13496026	117853072	23360359	252	29362										
BAT2L1	84726	broad.mit.edu	37	chr9	134305587	134305587	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggatgggaaaagcaagtactCgactctcagcctgtttgata	11	8	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:134305587C>T	uc004can.3	+	1	111	c.56C>T	c.(55-57)TCG>TTG	p.S19L	BAT2L1_uc004cam.1_Missense_Mutation_p.S19L	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	19							protein binding				0						AGCAAGTACTCGACTCTCAGC	0.458													22	20	---	---	---	---	PASS	T	134305587	T	T	134305587	3	4	77	1	0	0	0	0	1	0	0	0	1320	893	31	2	58	2	BAT2L1	9	134305587	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	16452515	134305587	6907844	253	29363										
POMT1	10585	broad.mit.edu	37	chr9	134393924	134393924	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aacacttccgctgtcttaaaGgtaaggacactgtccgtggc	10	11	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:134393924G>T	uc004cav.2	+	14	1633	c.1431G>T	c.(1429-1431)AAG>AAT	p.K477N	POMT1_uc004cax.2_Missense_Mutation_p.K455N|POMT1_uc011mcj.1_Missense_Mutation_p.K233N|POMT1_uc004cau.2_Missense_Mutation_p.K455N|POMT1_uc004caw.2_Missense_Mutation_p.K401N|POMT1_uc011mck.1_Missense_Mutation_p.K338N|POMT1_uc011mcl.1_Missense_Mutation_p.K303N|POMT1_uc011mcm.1_Missense_Mutation_p.K425N|POMT1_uc011mcn.1_Missense_Mutation_p.K180N	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	477	MIR 3.				multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		CTGTCTTAAAGGTAAGGACAC	0.552													9	194	---	---	---	---	PASS	T	134393924	T	T	134393924	3	4	77	1	0	0	0	0	1	0	0	0	12245	1014	35	3	1481	3	POMT1	9	134393924	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	88337	134393924	6819507	254	29364										
SETX	23064	broad.mit.edu	37	chr9	135204730	135204730	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acactttttccaaagcatcaGtgctagaatcagtcaacaaa	5	10	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr9:135204730G>A	uc004cbk.2	-	10	2438	c.2255C>T	c.(2254-2256)ACT>ATT	p.T752I	SETX_uc004cbj.2_Missense_Mutation_p.T371I|SETX_uc010mzt.2_Missense_Mutation_p.T371I	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	752					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		CAAAGCATCAGTGCTAGAATC	0.373													36	21	---	---	---	---	PASS	A	135204730	A	A	135204730	3	1	77	1	0	0	0	0	1	0	0	0	14141	1029	36	3	5846	3	SETX	9	135204730	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	810806	135204730	6008701	255	29365										
DIP2C	22982	broad.mit.edu	37	chr10	372998	372998	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgaacgaggtgctgacggccCgcgggtgaaggcccaggtcc	17	13	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:372998C>T	uc001ifp.2	-	31	3962	c.3872G>A	c.(3871-3873)CGG>CAG	p.R1291Q		NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	1291						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GCTGACGGCCCGCGGGTGAAG	0.607													10	17	---	---	---	---	PASS	T	372998	T	T	372998	3	4	77	1	0	0	0	0	1	0	0	0	4529	652	23	1	826	1	DIP2C	10	372998	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08		372998	135161749	256	29366										
ITIH5	80760	broad.mit.edu	37	chr10	7608015	7608015	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcagtccgtggcagttgctGgaaaggccctcgctgttggc	15	11	0	0	rs149503594		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:7608015G>T	uc001ijq.2	-	13	2584	c.2505C>A	c.(2503-2505)TCC>TCA	p.S835S	ITIH5_uc001ijp.2_Silent_p.S621S	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	835					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						GGCAGTTGCTGGAAAGGCCCT	0.557													23	30	---	---	---	---	PASS	T	7608015	T	T	7608015	2	4	77	1	0	0	0	0	0	0	0	1	7907	1335	47	3		3	ITIH5	10	7608015	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	7235017	7608015	127926732	257	29367										
ITIH5	80760	broad.mit.edu	37	chr10	7679442	7679442	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atatttcagtccccttctctCtgtcaggaaaaaggaaaagg	8	9	4	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:7679442C>G	uc001ijq.2	-	5	481	c.402_splice	c.e5-1	p.G134_splice	ITIH5_uc001ijr.1_Splice_Site_p.G134_splice	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain						hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CCCCTTCTCTCTGTCAGGAAA	0.547													19	22	---	---	---	---	PASS	G	7679442	G	G	7679442	5	3	77	1	0	0	0	0	0	0	1	0	7907	927	32	2	2604	2	ITIH5	10	7679442	Splice_Site	SNP	C	TCGA-37-3789-01A-01D-0983-08	71427	7679442	127855305	258	29368										
TAF3	83860	broad.mit.edu	37	chr10	8007024	8007024	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gagaaaaccaagctgccttcCtccgtggaggtaaagaagaa	11	9	0	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:8007024C>A	uc010qbd.1	+	3	1551	c.1551C>A	c.(1549-1551)TCC>TCA	p.S517S		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	517	Lys-rich.				maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						AGCTGCCTTCCTCCGTGGAGG	0.338													5	35	---	---	---	---	PASS	A	8007024	A	A	8007024	2	1	77	1	0	0	0	0	0	0	0	1	15522	668	24	3		3	TAF3	10	8007024	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	327582	8007024	127527723	259	29369										
ACBD7	414149	broad.mit.edu	37	chr10	15059240	15059240	+	Frame_Shift_Del	DEL	G	-	-													0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acttacctgacttggaatttGgtaaaatcttggatcacaca							TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:15059240delG	uc010qby.1	-	6	442	c.133delC	c.(133-135)CAAfs	p.Q45fs				Q8N6N7	ACBD7_HUMAN	SubName: Full=cDNA FLJ52263, highly similar to Artemis protein (EC 3.1.-.-);	Error:Variant_position_missing_in_Q8N6N7_after_alignment							fatty-acyl-CoA binding				0						CTTGGAATTTGGTAAAATCTT	0.368													31	19	---	---	---	---		-	15059240	-	-	15059240	7	5	77	1	0	1	0	1	0	0	0	0	127	1363	47	0		0	ACBD7	10	15059240	Frame_Shift_Del	DEL	G	TCGA-37-3789-01A-01D-0983-08	7052216	15059240	120475507	260	29370										
SPAG6	9576	broad.mit.edu	37	chr10	22675703	22675703	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aactgtcacaagctgtggtgGatgcaggagctgttcctctt	12	9	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:22675703G>C	uc001iri.2	+	5	635	c.493G>C	c.(493-495)GAT>CAT	p.D165H	SPAG6_uc001irj.2_Missense_Mutation_p.D165H|SPAG6_uc010qct.1_Missense_Mutation_p.D135H|SPAG6_uc009xkh.2_Missense_Mutation_p.D143H	NM_012443	NP_036575	O75602	SPAG6_HUMAN	sperm associated antigen 6 isoform 1	165	ARM 4.				cell projection organization|spermatid development	axoneme|cilium|cytoplasm|flagellum|microtubule	binding			breast(1)	1						AGCTGTGGTGGATGCAGGAGC	0.458													6	6	---	---	---	---	PASS	C	22675703	C	C	22675703	3	2	77	1	0	0	0	0	1	0	0	0	14982	1174	41	2	511	2	SPAG6	10	22675703	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	7616463	22675703	112859044	261	29371										
NRP1	8829	broad.mit.edu	37	chr10	33552639	33552639	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acatcccccctggaggatttGagtcaggctccaggtcaaag	11	12	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:33552639G>C	uc001iwx.3	-	4	1116	c.593C>G	c.(592-594)TCA>TGA	p.S198*	NRP1_uc001iwv.3_Nonsense_Mutation_p.S198*|NRP1_uc009xlz.2_Nonsense_Mutation_p.S198*|NRP1_uc001iww.3_Nonsense_Mutation_p.S17*|NRP1_uc001iwy.3_Nonsense_Mutation_p.S198*|NRP1_uc001iwz.2_Nonsense_Mutation_p.S198*|NRP1_uc001ixa.2_Nonsense_Mutation_p.S198*|NRP1_uc001ixb.1_Nonsense_Mutation_p.S198*|NRP1_uc001ixc.1_Nonsense_Mutation_p.S198*	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	198	Extracellular (Potential).|CUB 2.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	TGGAGGATTTGAGTCAGGCTC	0.463													5	32	---	---	---	---	PASS	C	33552639	C	C	33552639	4	2	77	1	0	0	0	0	0	1	0	0	10660	1294	45	2	2245	2	NRP1	10	33552639	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	10876936	33552639	101982108	262	29372										
AGAP7	653268	broad.mit.edu	37	chr10	51465352	51465352	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttggcatgaggagaggggggCgggttgagcttggggatggt	23	3	0	3	rs4043643		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:51465352C>A	uc001jio.2	-	7	1230	c.1104G>T	c.(1102-1104)CCG>CCT	p.P368P	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron	NM_001077685	NP_001071153	Q5VUJ5	AGAP7_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	368	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						GAGAGGGGGGCGGGTTGAGCT	0.512													83	117	---	---	---	---	PASS	A	51465352	A	A	51465352	2	1	77	1	0	0	0	0	0	0	0	1	373	755	27	1		1	AGAP7	10	51465352	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	17912713	51465352	84069395	263	29373										
TMEM26	219623	broad.mit.edu	37	chr10	63212763	63212763	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccttcttcacctcggtcactCgccagaccccgaccagcgag	8	19	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:63212763C>A	uc001jlo.2	-	1	446	c.77G>T	c.(76-78)CGA>CTA	p.R26L	TMEM26_uc010qij.1_RNA|TMEM26_uc001jlq.2_RNA|uc001jlr.2_RNA	NM_178505	NP_848600	Q6ZUK4	TMM26_HUMAN	transmembrane protein 26	26						integral to membrane					0	Prostate(12;0.0112)					CTCGGTCACTCGCCAGACCCC	0.632													5	71	---	---	---	---	PASS	A	63212763	A	A	63212763	3	1	77	1	0	0	0	0	1	0	0	0	16148	884	31	2	1053	2	TMEM26	10	63212763	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	11747411	63212763	72321984	264	29374										
CH25H	9023	broad.mit.edu	37	chr10	90966727	90966727	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcaggagggccgggctgcggGcccaatgcagcagcgtcacg	18	13	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:90966727G>A	uc001kfz.2	-	1	345	c.323C>T	c.(322-324)GCC>GTC	p.A108V		NM_003956	NP_003947	O95992	CH25H_HUMAN	cholesterol 25-hydroxylase	108					bile acid biosynthetic process|fatty acid biosynthetic process|sterol biosynthetic process	cytosol|endoplasmic reticulum membrane|integral to membrane	cholesterol 25-hydroxylase activity|iron ion binding				0		Colorectal(252;0.0161)		GBM - Glioblastoma multiforme(2;0.000133)		CGGGCTGCGGGCCCAATGCAG	0.627													15	6	---	---	---	---	PASS	A	90966727	A	A	90966727	3	1	77	1	0	0	0	0	1	0	0	0	3307	1203	42	3	499	3	CH25H	10	90966727	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	27753964	90966727	44568020	265	29375										
CPEB3	22849	broad.mit.edu	37	chr10	93841226	93841226	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gccagcatagcagacaccacCatacaaacggtccatgatca	7	14	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:93841226C>A	uc001khw.1	-	9	1893	c.1720G>T	c.(1720-1722)GGT>TGT	p.G574C	CPEB3_uc001khu.1_Missense_Mutation_p.G583C|CPEB3_uc001khv.1_Missense_Mutation_p.G560C|CPEB3_uc010qnn.1_Missense_Mutation_p.G560C	NM_014912	NP_055727	Q8NE35	CPEB3_HUMAN	cytoplasmic polyadenylation element binding	574	RRM 2.						nucleotide binding|RNA binding				0		Colorectal(252;0.0869)				CAGACACCACCATACAAACGG	0.473													4	45	---	---	---	---	PASS	A	93841226	A	A	93841226	3	1	77	1	0	0	0	0	1	0	0	0	3802	594	21	3	384	3	CPEB3	10	93841226	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2874499	93841226	41693521	266	29376										
TMEM20	159371	broad.mit.edu	37	chr10	95661025	95661025	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctatttctcatattcattggGctctttggtttggggggtca	11	7	4	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:95661025G>T	uc001kjg.1	+	3	937	c.876G>T	c.(874-876)GGG>GGT	p.G292G	TMEM20_uc001kji.2_Intron|TMEM20_uc001kjf.1_Silent_p.G291G|TMEM20_uc001kjh.2_Intron|TMEM20_uc010qnw.1_Silent_p.G275G|TMEM20_uc001kjj.2_Intron	NM_001134658	NP_001128130	Q2M3R5	TMM20_HUMAN	transmembrane protein 20 isoform 1	292	DUF6 2.|Helical; (Potential).					integral to membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;3.46e-05)|Renal(717;0.018)|Ovarian(717;0.0228)|all_hematologic(284;0.189)		STAD - Stomach adenocarcinoma(243;0.00345)		TATTCATTGGGCTCTTTGGTT	0.428													12	12	---	---	---	---	PASS	T	95661025	T	T	95661025	2	4	77	1	0	0	0	0	0	0	0	1	16119	1190	42	3		3	TMEM20	10	95661025	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	1819799	95661025	39873722	267	29377										
SORBS1	10580	broad.mit.edu	37	chr10	97170424	97170424	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aagagcacaatagtaggattGacaatcgttgtggagggata	13	4	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:97170424G>C	uc001kkp.2	-	8	966	c.921C>G	c.(919-921)GTC>GTG	p.V307V	SORBS1_uc001kkl.2_5'UTR|SORBS1_uc001kkn.2_Silent_p.V140V|SORBS1_uc001kkm.2_Silent_p.V163V|SORBS1_uc001kko.2_Silent_p.V307V|SORBS1_uc001kkq.2_Silent_p.V238V|SORBS1_uc001kkr.2_Silent_p.V143V|SORBS1_uc001kks.2_Silent_p.V143V|SORBS1_uc001kkt.2_RNA|SORBS1_uc001kku.2_Silent_p.V184V|SORBS1_uc001kkv.2_Silent_p.V275V|SORBS1_uc001kkw.2_Silent_p.V307V|SORBS1_uc010qoe.1_Silent_p.V152V|SORBS1_uc010qof.1_Silent_p.V505V	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	307					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)		TAGTAGGATTGACAATCGTTG	0.463													12	26	---	---	---	---	PASS	C	97170424	C	C	97170424	2	2	77	1	0	0	0	0	0	0	0	1	14927	1277	45	2		2	SORBS1	10	97170424	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	1509399	97170424	38364323	268	29378										
SORBS1	10580	broad.mit.edu	37	chr10	97174525	97174525	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gaggccccagaggtgttggaGgtctggcagtgccttcttgc	16	10	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:97174525G>C	uc001kkp.2	-	7	581	c.536C>G	c.(535-537)CCT>CGT	p.P179R	SORBS1_uc001kkl.2_5'UTR|SORBS1_uc001kkn.2_Intron|SORBS1_uc001kkm.2_Intron|SORBS1_uc001kko.2_Missense_Mutation_p.P179R|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.P147R|SORBS1_uc001kkw.2_Missense_Mutation_p.P179R|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Missense_Mutation_p.P377R|SORBS1_uc001kkx.1_Missense_Mutation_p.P147R	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	179					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)		AGGTGTTGGAGGTCTGGCAGT	0.582													40	17	---	---	---	---	PASS	C	97174525	C	C	97174525	3	2	77	1	0	0	0	0	1	0	0	0	14927	1000	35	4	3639	4	SORBS1	10	97174525	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	4101	97174525	38360222	269	29379										
PDCD11	22984	broad.mit.edu	37	chr10	105166544	105166544	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtggtcaaagctcaggtacaGaaggtaagctgttatgctac	12	7	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:105166544G>A	uc001kwy.1	+	7	954	c.867G>A	c.(865-867)CAG>CAA	p.Q289Q		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	289	S1 motif 3.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		CTCAGGTACAGAAGGTAAGCT	0.323													6	44	---	---	---	---	PASS	A	105166544	A	A	105166544	2	1	77	1	0	0	0	0	0	0	0	1	11617	933	33	2		2	PDCD11	10	105166544	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	7992019	105166544	30368203	270	29380										
ITPRIP	85450	broad.mit.edu	37	chr10	106074526	106074526	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtcttcaggtggtagctgctGagcccgctgggaccggtcag	16	11	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:106074526G>A	uc001kye.2	-	2	1357	c.1284C>T	c.(1282-1284)CTC>CTT	p.L428L	ITPRIP_uc001kyf.2_Silent_p.L428L|ITPRIP_uc001kyg.2_Silent_p.L428L	NM_033397	NP_203755	Q8IWB1	IPRI_HUMAN	inositol 1,4,5-triphosphate receptor interacting	428						plasma membrane					0						GGTAGCTGCTGAGCCCGCTGG	0.667													9	24	---	---	---	---	PASS	A	106074526	A	A	106074526	2	1	77	1	0	0	0	0	0	0	0	1	7923	1277	45	2		2	ITPRIP	10	106074526	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	907982	106074526	29460221	271	29381										
NRAP	4892	broad.mit.edu	37	chr10	115381824	115381824	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgaatcccttcttgtactccAgctcactctgcagcttggac	7	15	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:115381824A>T	uc001laj.2	-	24	2737	c.2573T>A	c.(2572-2574)CTG>CAG	p.L858Q	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Missense_Mutation_p.L823Q|NRAP_uc001lal.3_Missense_Mutation_p.L858Q	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	858	Nebulin 21.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		CTTGTACTCCAGCTCACTCTG	0.517													24	19	---	---	---	---	PASS	T	115381824	T	T	115381824	3	4	77	1	0	0	0	0	1	0	0	0	10638	188	7	5	2695	5	NRAP	10	115381824	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	9307298	115381824	20152923	272	29382										
DHX32	55760	broad.mit.edu	37	chr10	127555576	127555576	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aacctcaggattgtttcgttGgtacagcagttctcgaaagg	11	8	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:127555576G>T	uc001ljf.1	-	2	950	c.459C>A	c.(457-459)ACC>ACA	p.T153T	DHX32_uc001ljg.1_Silent_p.T153T	NM_018180	NP_060650	Q7L7V1	DHX32_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32	153	Helicase ATP-binding.					mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TTGTTTCGTTGGTACAGCAGT	0.502													6	108	---	---	---	---	PASS	T	127555576	T	T	127555576	2	4	77	1	0	0	0	0	0	0	0	1	4505	1335	47	3		3	DHX32	10	127555576	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	12173752	127555576	7979171	273	29383										
LRRC27	80313	broad.mit.edu	37	chr10	134175013	134175013	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gatagataacaggaaagtacCactgaatccgcctggaaaaa	9	8	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr10:134175013C>A	uc010quw.1	+	9	1418	c.1223C>A	c.(1222-1224)CCA>CAA	p.P408Q	LRRC27_uc001llg.2_RNA|LRRC27_uc001lli.2_Missense_Mutation_p.P408Q|LRRC27_uc001llj.2_Missense_Mutation_p.P346Q|LRRC27_uc001llk.3_Missense_Mutation_p.P281Q	NM_030626	NP_085129	Q9C0I9	LRC27_HUMAN	leucine rich repeat containing 27 isoform a	408										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)		AGGAAAGTACCACTGAATCCG	0.433													9	227	---	---	---	---	PASS	A	134175013	A	A	134175013	3	1	77	1	0	0	0	0	1	0	0	0	8981	594	21	3	1435	3	LRRC27	10	134175013	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	6619437	134175013	1359734	274	29384										
OR51G1	79324	broad.mit.edu	37	chr11	4945326	4945326	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccagaaaatgcccagcacagTgggcagtgtggaaaggcaaa	13	9	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:4945326T>C	uc010qyr.1	-	1	244	c.244A>G	c.(244-246)ACT>GCT	p.T82A		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	82	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		CCCAGCACAGTGGGCAGTGTG	0.493													11	13	---	---	---	---	PASS	C	4945326	C	C	4945326	3	2	77	1	0	0	0	0	1	0	0	0	11098	1696	59	5	723	5	OR51G1	11	4945326	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08		4945326	130061190	275	29385										
DCHS1	8642	broad.mit.edu	37	chr11	6648290	6648290	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagaatggaagcattggcacCagcatcacgatcttcagctc	9	12	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:6648290C>A	uc001mem.1	-	14	6390	c.5980G>T	c.(5980-5982)GGT>TGT	p.G1994C		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1994	Cadherin 19.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCATTGGCACCAGCATCACGA	0.622													5	37	---	---	---	---	PASS	A	6648290	A	A	6648290	3	1	77	1	0	0	0	0	1	0	0	0	4287	594	21	3	3948	3	DCHS1	11	6648290	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1702964	6648290	128358226	276	29386										
NLRP10	338322	broad.mit.edu	37	chr11	7982058	7982058	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acaactttgcctctctccatCtgcccctgcagccaggagca	7	17	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:7982058C>G	uc001mfv.1	-	2	1118	c.1101G>C	c.(1099-1101)CAG>CAC	p.Q367H		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	367	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CTCTCTCCATCTGCCCCTGCA	0.522													19	46	---	---	---	---	PASS	G	7982058	G	G	7982058	3	3	77	1	0	0	0	0	1	0	0	0	10472	912	32	2	870	2	NLRP10	11	7982058	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1333768	7982058	127024458	277	29387										
MICAL2	9645	broad.mit.edu	37	chr11	12280014	12280014	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgtgtgtgcctctttttacaGgcaaattttactgcaagcct	8	9	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:12280014G>T	uc001mjz.2	+	25	3431	c.3143_splice	c.e25-1	p.G1048_splice	MICAL2_uc010rch.1_Splice_Site_p.G858_splice|MICAL2_uc001mka.2_Splice_Site_p.G1048_splice|MICAL2_uc010rci.1_Splice_Site_p.G1027_splice|MICAL2_uc001mkb.2_Splice_Site_p.G822_splice|MICAL2_uc001mkc.2_Splice_Site_p.G801_splice|MICAL2_uc001mkd.2_Splice_Site_p.G630_splice|MICAL2_uc010rcj.1_Splice_Site_p.G260_splice|MICAL2_uc001mkf.2_Splice_Site	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin							cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		TCTTTTTACAGGCAAATTTTA	0.408													6	107	---	---	---	---	PASS	T	12280014	T	T	12280014	5	4	77	1	0	0	0	0	0	0	1	0	9570	1014	35	3	3232	3	MICAL2	11	12280014	Splice_Site	SNP	G	TCGA-37-3789-01A-01D-0983-08	4297956	12280014	122726502	278	29388										
C11orf58	10944	broad.mit.edu	37	chr11	16766187	16766187	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aggcagcagacttgggtaatGaagagagaaaacaaaagttc	12	5	0	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:16766187G>A	uc001mmk.2	+	2	281	c.103G>A	c.(103-105)GAA>AAA	p.E35K	C11orf58_uc010rct.1_5'UTR	NM_014267	NP_055082	O00193	SMAP_HUMAN	small acidic protein isoform a	35											0						CTTGGGTAATGAAGAGAGAAA	0.333													10	16	---	---	---	---	PASS	A	16766187	A	A	16766187	3	1	77	1	0	0	0	0	1	0	0	0	1651	1291	45	2	109	2	C11orf58	11	16766187	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	4486173	16766187	118240329	279	29389										
TRIM48	79097	broad.mit.edu	37	chr11	55032762	55032762	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccggtatcacagacactgtcCcgctgagtgggctgctgagg	14	12	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:55032762C>A	uc010rid.1	+	2	517	c.431C>A	c.(430-432)CCC>CAC	p.P144H		NM_024114	NP_077019	Q8IWZ4	TRI48_HUMAN	tripartite motif-containing 48	128	B box-type.					intracellular	zinc ion binding				0						AGACACTGTCCCGCTGAGTGG	0.493													11	24	---	---	---	---	PASS	A	55032762	A	A	55032762	3	1	77	1	0	0	0	0	1	0	0	0	16520	623	22	3	437	3	TRIM48	11	55032762	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	38266575	55032762	79973754	280	29390										
OR5D13	390142	broad.mit.edu	37	chr11	55541450	55541450	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tctaccttcataaataatttTatctgtgaccactctgtaat	3	9	4	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:55541450T>C	uc010ril.1	+	1	537	c.537T>C	c.(535-537)TTT>TTC	p.F179F		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	179	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				TAAATAATTTTATCTGTGACC	0.418													21	27	---	---	---	---	PASS	C	55541450	C	C	55541450	2	2	77	1	0	0	0	0	0	0	0	1	11154	1751	61	5		5	OR5D13	11	55541450	Silent	SNP	T	TCGA-37-3789-01A-01D-0983-08	508688	55541450	79465066	281	29391										
OR5R1	219479	broad.mit.edu	37	chr11	56184925	56184925	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caaggagtgatttgatttggGctgtaggtacataaagatca	12	4	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:56184925G>C	uc010rji.1	-	1	784	c.784C>G	c.(784-786)CCC>GCC	p.P262A		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TTTGATTTGGGCTGTAGGTAC	0.448													23	19	---	---	---	---	PASS	C	56184925	C	C	56184925	3	2	77	1	0	0	0	0	1	0	0	0	11180	1203	42	4	192	4	OR5R1	11	56184925	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	643475	56184925	78821591	282	29392										
OR5M1	390168	broad.mit.edu	37	chr11	56380709	56380709	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	catccagcgtaggagatggtCttctgttctgagaggaaatt	12	7	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:56380709C>A	uc001nja.1	-	1	270	c.270G>T	c.(268-270)AAG>AAT	p.K90N		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						AGGAGATGGTCTTCTGTTCTG	0.448													20	55	---	---	---	---	PASS	A	56380709	A	A	56380709	3	1	77	1	0	0	0	0	1	0	0	0	11172	912	32	2	681	2	OR5M1	11	56380709	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	195784	56380709	78625807	283	29393										
OR5AR1	219493	broad.mit.edu	37	chr11	56431846	56431846	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttgttgcaatcatcagaatgCgttcagctgaaggccgcctt	10	10	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:56431846C>T	uc010rjm.1	+	1	685	c.685C>T	c.(685-687)CGT>TGT	p.R229C		NM_001004730	NP_001004730	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CATCAGAATGCGTTCAGCTGA	0.478													21	24	---	---	---	---	PASS	T	56431846	T	T	56431846	3	4	77	1	0	0	0	0	1	0	0	0	11145	768	27	1	687	1	OR5AR1	11	56431846	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	51137	56431846	78574670	284	29394										
MS4A2	2206	broad.mit.edu	37	chr11	59857872	59857872	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagttgtctgctctgtacttGatatttcacacattgaggga	9	8	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:59857872G>C	uc001nop.2	+	3	352	c.250G>C	c.(250-252)GAT>CAT	p.D84H	MS4A2_uc009ymu.2_Missense_Mutation_p.D84H	NM_000139	NP_000130	Q01362	FCERB_HUMAN	membrane-spanning 4-domains, subfamily A, member	84	Extracellular (Potential).				cell proliferation|humoral immune response	integral to plasma membrane	calcium channel activity			ovary(1)	1		all_epithelial(135;0.245)			Omalizumab(DB00043)	CTCTGTACTTGATATTTCACA	0.323													30	38	---	---	---	---	PASS	C	59857872	C	C	59857872	3	2	77	1	0	0	0	0	1	0	0	0	9860	1290	45	2	260	2	MS4A2	11	59857872	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3426026	59857872	75148644	285	29395										
MS4A13	503497	broad.mit.edu	37	chr11	60310041	60310041	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tactgaggaagctgagagcaCtccttaaaaaccctagaaat	8	9	0	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:60310041C>T	uc001nps.2	+	7	775	c.452C>T	c.(451-453)ACT>ATT	p.T151I	MS4A13_uc009ync.2_Missense_Mutation_p.T111I|MS4A13_uc009ynd.2_Missense_Mutation_p.T92I	NM_001012417	NP_001012417	Q5J8X5	M4A13_HUMAN	membrane-spanning 4-domains, subfamily A, member	151						integral to membrane					0						GCTGAGAGCACTCCTTAAAAA	0.358													3	11	---	---	---	---	PASS	T	60310041	T	T	60310041	3	4	77	1	0	0	0	0	1	0	0	0	9857	565	20	3	470	3	MS4A13	11	60310041	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	452169	60310041	74696475	286	29396										
CCDC88B	283234	broad.mit.edu	37	chr11	64124516	64124516	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcctttccctctaggccctGaggtacaggaaccggagaaa	11	12	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:64124516G>T	uc001nzy.2	+	27	4425	c.4381G>T	c.(4381-4383)GAG>TAG	p.E1461*	CCDC88B_uc001oaa.2_Silent_p.L565L|CCDC88B_uc001oab.1_3'UTR|CCDC88B_uc001oac.2_Silent_p.L76L|RPS6KA4_uc001oad.2_5'Flank|RPS6KA4_uc001oae.2_5'Flank|RPS6KA4_uc010rnl.1_5'Flank|RPS6KA4_uc001oaf.2_5'Flank|RPS6KA4_uc009ypp.2_5'Flank	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	1461					microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						TCTAGGCCCTGAGGTACAGGA	0.637													6	122	---	---	---	---	PASS	T	64124516	T	T	64124516	4	4	77	1	0	0	0	0	0	1	0	0	2864	1291	45	2	4487	2	CCDC88B	11	64124516	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3814475	64124516	70882000	287	29397										
ATG2A	23130	broad.mit.edu	37	chr11	64664289	64664289	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagctggttcttgcggatgtCctgcagccactcgttgaggg	14	11	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:64664289C>T	uc001obx.2	-	38	5318	c.5203G>A	c.(5203-5205)GAC>AAC	p.D1735N	ATG2A_uc001obw.2_Missense_Mutation_p.D500N	NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1735							protein binding			ovary(1)|central_nervous_system(1)	2						TTGCGGATGTCCTGCAGCCAC	0.637											OREG0004026	type=REGULATORY REGION|Gene=BC027481|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	10	22	---	---	---	---	PASS	T	64664289	T	T	64664289	3	4	77	1	0	0	0	0	1	0	0	0	1093	855	30	2	629	2	ATG2A	11	64664289	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	539773	64664289	70342227	288	29398										
C11orf80	79703	broad.mit.edu	37	chr11	66555707	66555707	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggcagctattctcaggatatGacaggggtaacacccttcca	10	11	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:66555707G>A	uc001ojf.2	+	5	607	c.600G>A	c.(598-600)ATG>ATA	p.M200I	C11orf80_uc001ojg.2_5'UTR|C11orf80_uc001ojh.2_Intron|C11orf80_uc001oji.2_5'UTR|C11orf80_uc010rpk.1_Missense_Mutation_p.M34I	NM_024650	NP_078926	Q8N6T0	CK080_HUMAN	hypothetical protein LOC79703	45											0						CTCAGGATATGACAGGGGTAA	0.388													10	55	---	---	---	---	PASS	A	66555707	A	A	66555707	3	1	77	1	0	0	0	0	1	0	0	0	1664	1290	45	2	618	2	C11orf80	11	66555707	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1891418	66555707	68450809	289	29399										
PPFIA1	8500	broad.mit.edu	37	chr11	70171654	70171654	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaagatgtagtttgttagaaGaggaattaggtgccacacac	11	5	0	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:70171654G>T	uc001opo.2	+	5	778	c.580G>T	c.(580-582)GAG>TAG	p.E194*	PPFIA1_uc001opn.1_Nonsense_Mutation_p.E194*|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_5'Flank	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	194	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			TTTGTTAGAAGAGGAATTAGG	0.373													6	113	---	---	---	---	PASS	T	70171654	T	T	70171654	4	4	77	1	0	0	0	0	0	1	0	0	12309	943	33	2	594	2	PPFIA1	11	70171654	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3615947	70171654	64834862	290	29400										
ATG16L2	89849	broad.mit.edu	37	chr11	72539821	72539821	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctggaccaaagctgtgttcaGgtatgtccgtgagagcatat	12	8	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:72539821G>T	uc001otd.2	+	16	1710	c.1670G>T	c.(1669-1671)AGC>ATC	p.S557I	ATG16L2_uc001ote.2_Missense_Mutation_p.S451I|ATG16L2_uc009ytj.1_3'UTR|ATG16L2_uc001otf.2_Missense_Mutation_p.S312I|ATG16L2_uc001otg.2_Missense_Mutation_p.S291I|ATG16L2_uc009ytk.2_Missense_Mutation_p.S312I	NM_033388	NP_203746	Q8NAA4	A16L2_HUMAN	ATG16 autophagy related 16-like 2	557	WD 6.				autophagy|protein transport	cytoplasm	protein binding				0			BRCA - Breast invasive adenocarcinoma(5;2.73e-06)			GCTGTGTTCAGGTATGTCCGT	0.587													9	196	---	---	---	---	PASS	T	72539821	T	T	72539821	3	4	77	1	0	0	0	0	1	0	0	0	1092	1014	35	3	1732	3	ATG16L2	11	72539821	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2368167	72539821	62466695	291	29401										
SLCO2B1	11309	broad.mit.edu	37	chr11	74880411	74880411	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccctttggcatctcctacatCgatgactttgcccacaacag	6	15	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:74880411C>A	uc001owb.2	+	5	1029	c.642C>A	c.(640-642)ATC>ATA	p.I214I	SLCO2B1_uc010rrq.1_Intron|SLCO2B1_uc010rrr.1_Silent_p.I70I|SLCO2B1_uc010rrs.1_Silent_p.I98I|SLCO2B1_uc001owc.2_Intron|SLCO2B1_uc001owd.2_Silent_p.I192I	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	214	Helical; Name=4; (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	TCTCCTACATCGATGACTTTG	0.602													4	59	---	---	---	---	PASS	A	74880411	A	A	74880411	2	1	77	1	0	0	0	0	0	0	0	1	14727	874	31	2		2	SLCO2B1	11	74880411	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	2340590	74880411	60126105	292	29402										
AQP11	282679	broad.mit.edu	37	chr11	77301476	77301476	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcttgggtctgacccagtatCacgtcagcgagaggagcttc	13	11	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:77301476C>T	uc001oyj.2	+	1	797	c.439C>T	c.(439-441)CAC>TAC	p.H147Y	AQP11_uc009yuu.2_Intron	NM_173039	NP_766627	Q8NBQ7	AQP11_HUMAN	aquaporin 11	147						cell surface|integral to membrane	transporter activity				0	all_cancers(14;1.75e-17)|all_epithelial(13;4.7e-20)|Ovarian(111;0.249)		Epithelial(5;4.73e-49)|BRCA - Breast invasive adenocarcinoma(5;1.4e-30)			GACCCAGTATCACGTCAGCGA	0.592													19	51	---	---	---	---	PASS	T	77301476	T	T	77301476	3	4	77	1	0	0	0	0	1	0	0	0	823	826	29	2	441	2	AQP11	11	77301476	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2421065	77301476	57705040	293	29403										
GRM5	2915	broad.mit.edu	37	chr11	88780767	88780767	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggagtcccttatctcacagcCcagtgtgatgttgggcaaga	12	10	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:88780767C>A	uc001pcq.2	-	1	474	c.274G>T	c.(274-276)GGC>TGC	p.G92C	GRM5_uc009yvm.2_Missense_Mutation_p.G92C|GRM5_uc009yvn.1_Missense_Mutation_p.G92C	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	92	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity	p.G92R(1)		central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	ATCTCACAGCCCAGTGTGATG	0.522													7	16	---	---	---	---	PASS	A	88780767	A	A	88780767	3	1	77	1	0	0	0	0	1	0	0	0	6800	623	22	3	3400	3	GRM5	11	88780767	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	11479291	88780767	46225749	294	29404										
TRPC6	7225	broad.mit.edu	37	chr11	101362388	101362388	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atccccattcagaatggcctCgacttcttcagtgtttctgc	7	13	4	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:101362388C>A	uc001pgk.3	-	3	1452	c.1027G>T	c.(1027-1029)GAG>TAG	p.E343*	TRPC6_uc009ywy.2_Intron|TRPC6_uc009ywz.1_Nonsense_Mutation_p.E343*	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	343	Cytoplasmic (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		AGAATGGCCTCGACTTCTTCA	0.408													6	167	---	---	---	---	PASS	A	101362388	A	A	101362388	4	1	77	1	0	0	0	0	0	1	0	0	16580	893	31	2	1812	2	TRPC6	11	101362388	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	12581621	101362388	33644128	295	29405										
BIRC3	330	broad.mit.edu	37	chr11	102201750	102201750	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttatccattttgaacctggaGaagaccattcagaagatgca	8	8	1	5			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:102201750G>A	uc001pgx.2	+	7	1324	c.1102G>A	c.(1102-1104)GAA>AAA	p.E368K		NM_182962	NP_892007	Q13489	BIRC3_HUMAN	baculoviral IAP repeat-containing protein 3	368					anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|skin(1)	4	all_cancers(8;0.00044)|all_epithelial(12;0.00348)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0093)	Lung(13;0.109)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0146)		TGAACCTGGAGAAGACCATTC	0.333			T	MALT1	MALT								7	45	---	---	---	---	PASS	A	102201750	A	A	102201750	3	1	77	1	0	0	0	0	1	0	0	0	1436	943	33	2	1120	2	BIRC3	11	102201750	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	839362	102201750	32804766	296	29406										
BIRC3	330	broad.mit.edu	37	chr11	102201903	102201903	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tagtcaatgatcttgtgttaGacttactcaatgcagaagat	8	6	3	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:102201903G>C	uc001pgx.2	+	7	1477	c.1255G>C	c.(1255-1257)GAC>CAC	p.D419H		NM_182962	NP_892007	Q13489	BIRC3_HUMAN	baculoviral IAP repeat-containing protein 3	419					anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|skin(1)	4	all_cancers(8;0.00044)|all_epithelial(12;0.00348)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0093)	Lung(13;0.109)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0146)		TCTTGTGTTAGACTTACTCAA	0.363			T	MALT1	MALT								11	51	---	---	---	---	PASS	C	102201903	C	C	102201903	3	2	77	1	0	0	0	0	1	0	0	0	1436	942	33	2	1273	2	BIRC3	11	102201903	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	153	102201903	32804613	297	29407										
TMPRSS5	80975	broad.mit.edu	37	chr11	113568023	113568023	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acctgagatgcccaaggctcCagcagatctgcagccccagg	11	15	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:113568023C>A	uc001poc.3	-	5	568	c.446G>T	c.(445-447)TGG>TTG	p.W149L	TMPRSS5_uc009yys.2_Missense_Mutation_p.W140L|TMPRSS5_uc009yyt.2_Missense_Mutation_p.W105L|TMPRSS5_uc001pod.3_5'UTR|TMPRSS5_uc010rww.1_Missense_Mutation_p.W139L|TMPRSS5_uc009yyu.2_5'UTR|TMPRSS5_uc010rwx.1_Missense_Mutation_p.W105L	NM_030770	NP_110397	Q9H3S3	TMPS5_HUMAN	transmembrane protease, serine 5	149	SRCR.|Extracellular (Potential).				proteolysis	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(1)	1		all_cancers(61;2.71e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.75e-06)|Epithelial(105;6.34e-05)|all cancers(92;0.000502)		CCCAAGGCTCCAGCAGATCTG	0.617													6	76	---	---	---	---	PASS	A	113568023	A	A	113568023	3	1	77	1	0	0	0	0	1	0	0	0	16247	595	21	3	963	3	TMPRSS5	11	113568023	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	11366120	113568023	21438493	298	29408										
TMPRSS5	80975	broad.mit.edu	37	chr11	113570845	113570845	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cccaggtcctgggccctcctCtgcatactgggcctccatag	10	17	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:113570845C>T	uc001poc.3	-	2	171	c.49G>A	c.(49-51)GAG>AAG	p.E17K	TMPRSS5_uc009yys.2_5'UTR|TMPRSS5_uc009yyt.2_Intron|TMPRSS5_uc001pod.3_Intron|TMPRSS5_uc010rww.1_Missense_Mutation_p.E7K|TMPRSS5_uc009yyu.2_Intron|TMPRSS5_uc010rwx.1_Intron	NM_030770	NP_110397	Q9H3S3	TMPS5_HUMAN	transmembrane protease, serine 5	17	Cytoplasmic (Potential).				proteolysis	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(1)	1		all_cancers(61;2.71e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.75e-06)|Epithelial(105;6.34e-05)|all cancers(92;0.000502)		GGGCCCTCCTCTGCATACTGG	0.602													7	11	---	---	---	---	PASS	T	113570845	T	T	113570845	3	4	77	1	0	0	0	0	1	0	0	0	16247	922	32	2	1372	2	TMPRSS5	11	113570845	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2822	113570845	21435671	299	29409										
SIDT2	51092	broad.mit.edu	37	chr11	117063911	117063911	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgccccaatgatttcgcttcCtacttgttggccattggcat	8	13	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:117063911C>A	uc001pqh.1	+	23	2189	c.2148C>A	c.(2146-2148)TCC>TCA	p.S716S	SIDT2_uc010rxe.1_Silent_p.S716S|SIDT2_uc001pqg.2_Silent_p.S737S|SIDT2_uc001pqi.1_Silent_p.S713S|SIDT2_uc001pqj.1_Silent_p.S28S	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	716	Helical; (Potential).					integral to membrane|lysosomal membrane					0	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;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		ATTTCGCTTCCTACTTGTTGG	0.552													13	621	---	---	---	---	PASS	A	117063911	A	A	117063911	2	1	77	1	0	0	0	0	0	0	0	1	14303	668	24	3		3	SIDT2	11	117063911	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	3493066	117063911	17942605	300	29410										
RNF214	257160	broad.mit.edu	37	chr11	117153509	117153509	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cctgctccactggcccaaatCagtaccccaatgttcttgcc	6	17	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:117153509C>G	uc001pqt.2	+	13	1938	c.1893C>G	c.(1891-1893)ATC>ATG	p.I631M	RNF214_uc001pqu.2_Missense_Mutation_p.I631M|RNF214_uc010rxf.1_Missense_Mutation_p.I476M	NM_207343	NP_997226	Q8ND24	RN214_HUMAN	ring finger protein 214	631							zinc ion binding				0	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;1.88e-05)|Epithelial(105;0.000397)|all cancers(92;0.00258)		TGGCCCAAATCAGTACCCCAA	0.478													11	63	---	---	---	---	PASS	G	117153509	G	G	117153509	3	3	77	1	0	0	0	0	1	0	0	0	13478	816	29	2	1939	2	RNF214	11	117153509	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	89598	117153509	17853007	301	29411										
VSIG2	23584	broad.mit.edu	37	chr11	124617436	124617436	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agggatcgggagaagtcacaCgaccatagggagcttggact	15	8	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:124617436C>A	uc001qas.2	-	7	1055	c.979G>T	c.(979-981)GTG>TTG	p.V327L		NM_014312	NP_055127	Q96IQ7	VSIG2_HUMAN	V-set and immunoglobulin domain containing 2	327	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)		AGAAGTCACACGACCATAGGG	0.527													27	40	---	---	---	---	PASS	A	124617436	A	A	124617436	3	1	77	1	0	0	0	0	1	0	0	0	17221	536	19	1	8	1	VSIG2	11	124617436	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	7463927	124617436	10389080	302	29412										
ADAMTS8	11095	broad.mit.edu	37	chr11	130286835	130286835	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tttggcacagcaaatcttacCtagttcatgggccagggtgt	11	9	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr11:130286835C>G	uc001qgg.3	-	3	1454	c.1096G>C	c.(1096-1098)GGG>CGG	p.G366R		NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	366	Peptidase M12B.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		CAAATCTTACCTAGTTCATGG	0.562													49	47	---	---	---	---	PASS	G	130286835	G	G	130286835	3	3	77	1	0	0	0	0	1	0	0	0	272	695	24	4	1601	4	ADAMTS8	11	130286835	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	5669399	130286835	4719681	303	29413										
WNK1	65125	broad.mit.edu	37	chr12	1005676	1005676	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtcagagccttcacatctaaAtgggccgtcttctgacccgg	10	13	5	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:1005676A>G	uc001qio.3	+	24	6530	c.6023A>G	c.(6022-6024)AAT>AGT	p.N2008S	WNK1_uc001qip.3_Missense_Mutation_p.N1760S|WNK1_uc001qir.3_Missense_Mutation_p.N1181S	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	2008					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			TCACATCTAAATGGGCCGTCT	0.502													28	61	---	---	---	---	PASS	G	1005676	G	G	1005676	3	3	77	1	0	0	0	0	1	0	0	0	17374	101	4	5	7619	5	WNK1	12	1005676	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08		1005676	132846219	304	29414										
A2ML1	144568	broad.mit.edu	37	chr12	8975787	8975787	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcctttaatagaaactacctGgtgacattaccagcccggct	7	12	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:8975787G>T	uc001quz.3	+	2	170	c.72G>T	c.(70-72)CTG>CTT	p.L24L		NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	Error:Variant_position_missing_in_B3KVV6_after_alignment						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						GAAACTACCTGGTGACATTAC	0.368													5	58	---	---	---	---	PASS	T	8975787	T	T	8975787	2	4	77	1	0	0	0	0	0	0	0	1	5	1335	47	3		3	A2ML1	12	8975787	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	7970111	8975787	124876108	305	29415										
TAS2R42	353164	broad.mit.edu	37	chr12	11339450	11339450	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gttcttgatcccttcagagcAgtttaccagtccaatgaaca	7	11	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:11339450A>T	uc001qzr.1	-	1	94	c.94T>A	c.(94-96)TGC>AGC	p.C32S	PRB4_uc001qzf.1_Intron	NM_181429	NP_852094	Q7RTR8	T2R42_HUMAN	taste receptor, type 2, member 42	32	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.0455)			CCTTCAGAGCAGTTTACCAGT	0.448													14	32	---	---	---	---	PASS	T	11339450	T	T	11339450	3	4	77	1	0	0	0	0	1	0	0	0	15577	188	7	5	854	5	TAS2R42	12	11339450	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	2363663	11339450	122512445	306	29416										
PRB4	5545	broad.mit.edu	37	chr12	11461631	11461631	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tggtctttctggctttcctgGatgaggtgggggaccttggg	17	7	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:11461631G>C	uc001qzf.1	-	3	320	c.286C>G	c.(286-288)CCA>GCA	p.P96A	PRB4_uc001qzt.2_Missense_Mutation_p.P96A	NM_002723	NP_002714	P10163	PRB4_HUMAN	proline-rich protein BstNI subfamily 4	117	4.|9.5 X 21 AA tandem repeats of K-P-[EQ]- [GR]-[PR]-[PR]-P-Q-G-G-N-Q-[PS]-[QH]- [RG]-[PT]-P-P-[PH]-P-G.		Missing (in allele M and allele S).			extracellular region				ovary(1)	1						GGCTTTCCTGGATGAGGTGGG	0.597										HNSCC(22;0.051)			16	308	---	---	---	---	PASS	C	11461631	C	C	11461631	3	2	77	1	0	0	0	0	1	0	0	0	12445	1174	41	2	461	2	PRB4	12	11461631	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	122181	11461631	122390264	307	29417										
CMAS	55907	broad.mit.edu	37	chr12	22208428	22208428	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tattcaagctacttctccatGtttacatcctactgatcttc	3	12	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:22208428G>A	uc001rfm.2	+	3	522	c.443G>A	c.(442-444)TGT>TAT	p.C148Y	CMAS_uc001rfn.2_RNA	NM_018686	NP_061156	Q8NFW8	NEUA_HUMAN	cytidine monophospho-N-acetylneuraminic acid	148					lipopolysaccharide biosynthetic process	nucleus	N-acylneuraminate cytidylyltransferase activity			ovary(1)|pancreas(1)|skin(1)	3						ACTTCTCCATGTTTACATCCT	0.343													8	18	---	---	---	---	PASS	A	22208428	A	A	22208428	3	1	77	1	0	0	0	0	1	0	0	0	3575	1377	48	3	453	3	CMAS	12	22208428	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	10746797	22208428	111643467	308	29418										
PRICKLE1	144165	broad.mit.edu	37	chr12	42853690	42853690	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tctgaccaaactgaggggtgGgaagtgcagatggtggacta	16	6	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:42853690G>T	uc010skv.1	-	8	2704	c.2417C>A	c.(2416-2418)CCC>CAC	p.P806H	PRICKLE1_uc001rnl.2_Missense_Mutation_p.P806H|PRICKLE1_uc010skw.1_Missense_Mutation_p.P806H|PRICKLE1_uc001rnm.2_Missense_Mutation_p.P806H|PRICKLE1_uc001rnk.1_5'Flank	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	806					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		CTGAGGGGTGGGAAGTGCAGA	0.433													25	61	---	---	---	---	PASS	T	42853690	T	T	42853690	3	4	77	1	0	0	0	0	1	0	0	0	12486	1232	43	3	82	3	PRICKLE1	12	42853690	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	20645262	42853690	90998205	309	29419										
ADAMTS20	80070	broad.mit.edu	37	chr12	43833468	43833468	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcccatggtccataggggtcCcatgtgaacatgtcactcct	9	13	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:43833468C>A	uc010skx.1	-	18	2550	c.2550G>T	c.(2548-2550)TGG>TGT	p.W850C	ADAMTS20_uc001rno.1_Missense_Mutation_p.W4C|ADAMTS20_uc001rnp.1_Missense_Mutation_p.W4C	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	850	TSP type-1 2.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CATAGGGGTCCCATGTGAACA	0.423													5	48	---	---	---	---	PASS	A	43833468	A	A	43833468	3	1	77	1	0	0	0	0	1	0	0	0	266	624	22	3	3269	3	ADAMTS20	12	43833468	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	979778	43833468	90018427	310	29420										
MLL2	8085	broad.mit.edu	37	chr12	49441761	49441761	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aactcaccttgctgttgacaCagtaagggtgatagcactga	10	9	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:49441761C>A	uc001rta.3	-	14	4223	c.4223G>T	c.(4222-4224)TGT>TTT	p.C1408F		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1408	Cys-rich.|PHD-type 3.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GCTGTTGACACAGTAAGGGTG	0.552			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			13	24	---	---	---	---	PASS	A	49441761	A	A	49441761	3	1	77	1	0	0	0	0	1	0	0	0	9621	478	17	3	12554	3	MLL2	12	49441761	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	5608293	49441761	84410134	311	29421										
MLL2	8085	broad.mit.edu	37	chr12	49443899	49443899	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggtcacaggggccagctcctCggggtccaggagcacagggg	18	12	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:49443899C>A	uc001rta.3	-	11	3472	c.3472G>T	c.(3472-3474)GAG>TAG	p.E1158*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1158	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GCCAGCTCCTCGGGGTCCAGG	0.602			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			4	60	---	---	---	---	PASS	A	49443899	A	A	49443899	4	1	77	1	0	0	0	0	0	1	0	0	9621	893	31	2	13317	2	MLL2	12	49443899	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2138	49443899	84407996	312	29422										
SCN8A	6334	broad.mit.edu	37	chr12	52162746	52162746	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aatgaacaacctccagatctCagtgatccgtatcaagaagg	8	10	2	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:52162746C>A	uc001ryw.2	+	17	3177	c.2999C>A	c.(2998-3000)TCA>TAA	p.S1000*	SCN8A_uc010snl.1_Nonsense_Mutation_p.S865*	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	1000	II.				axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	CTCCAGATCTCAGTGATCCGT	0.537													6	61	---	---	---	---	PASS	A	52162746	A	A	52162746	4	1	77	1	0	0	0	0	0	1	0	0	13924	838	29	2	3061	2	SCN8A	12	52162746	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2718847	52162746	81689149	313	29423										
RDH5	5959	broad.mit.edu	37	chr12	56115129	56115129	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gctggaccagagaggcttccGagtcctggccagctgcctga	14	13	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:56115129G>C	uc001shk.2	+	2	344	c.161G>C	c.(160-162)CGA>CCA	p.R54P	BLOC1S1_uc001shj.3_Intron|RDH5_uc010spt.1_Missense_Mutation_p.R54P|RDH5_uc010spu.1_5'UTR|RDH5_uc001shl.2_Missense_Mutation_p.R54P	NM_002905	NP_002896	Q92781	RDH1_HUMAN	retinol dehydrogenase 5 (11-cis and 9-cis)	54	NADP (By similarity).				response to stimulus|visual perception	membrane	binding|retinol dehydrogenase activity			ovary(1)	1					NADH(DB00157)|Vitamin A(DB00162)	AGAGGCTTCCGAGTCCTGGCC	0.662											OREG0021907	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	29	---	---	---	---	PASS	C	56115129	C	C	56115129	3	2	77	1	0	0	0	0	1	0	0	0	13195	1058	37	2	163	2	RDH5	12	56115129	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3952383	56115129	77736766	314	29424										
DGKA	1606	broad.mit.edu	37	chr12	56347166	56347166	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccttcccatgcaaattgacgGagaaccctggatgcagacgc	10	13	0	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:56347166G>T	uc001sij.2	+	23	2360	c.2096G>T	c.(2095-2097)GGA>GTA	p.G699V	DGKA_uc001sik.2_Missense_Mutation_p.G699V|DGKA_uc001sil.2_Missense_Mutation_p.G699V|DGKA_uc001sim.2_Missense_Mutation_p.G699V|DGKA_uc001sin.2_Missense_Mutation_p.G699V|DGKA_uc009zof.2_Missense_Mutation_p.G345V|DGKA_uc001sio.2_Missense_Mutation_p.G441V	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	699				G -> V (in Ref. 1; CAA44396).	activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	CAAATTGACGGAGAACCCTGG	0.468													10	338	---	---	---	---	PASS	T	56347166	T	T	56347166	3	4	77	1	0	0	0	0	1	0	0	0	4465	1174	41	2	2182	2	DGKA	12	56347166	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	232037	56347166	77504729	315	29425										
ANKRD52	283373	broad.mit.edu	37	chr12	56645804	56645804	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctctctgctactcacaagaaGgcctccttcctgcgggactc	8	16	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:56645804G>A	uc001skm.3	-	15	1677	c.1587C>T	c.(1585-1587)GCC>GCT	p.A529A		NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	529	ANK 15.						protein binding			ovary(2)	2						CTCACAAGAAGGCCTCCTTCC	0.562													19	30	---	---	---	---	PASS	A	56645804	A	A	56645804	2	1	77	1	0	0	0	0	0	0	0	1	678	987	35	3		3	ANKRD52	12	56645804	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	298638	56645804	77206091	316	29426										
INHBC	3626	broad.mit.edu	37	chr12	57843575	57843575	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gctacgccatgaacttctgcAtagggcagtgcccactacac	9	14	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:57843575A>T	uc001snv.1	+	2	956	c.829A>T	c.(829-831)ATA>TTA	p.I277L		NM_005538	NP_005529	P55103	INHBC_HUMAN	inhibin beta C chain preproprotein	277					growth	extracellular region	growth factor activity|hormone activity|transforming growth factor beta receptor binding				0						GAACTTCTGCATAGGGCAGTG	0.542													14	37	---	---	---	---	PASS	T	57843575	T	T	57843575	3	4	77	1	0	0	0	0	1	0	0	0	7743	217	8	5	835	5	INHBC	12	57843575	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	1197771	57843575	76008320	317	29427										
MON2	23041	broad.mit.edu	37	chr12	62954451	62954451	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agttaatgtacctgtgcctgTtcttatagggcccatatcag	9	9	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:62954451T>C	uc001sre.2	+	26	3981	c.3590T>C	c.(3589-3591)GTT>GCT	p.V1197A	MON2_uc009zqj.2_Missense_Mutation_p.V1197A|MON2_uc010ssl.1_Missense_Mutation_p.V1125A|MON2_uc010ssm.1_Missense_Mutation_p.V1174A|MON2_uc010ssn.1_Missense_Mutation_p.V1197A|MON2_uc001srf.2_Missense_Mutation_p.V960A|MON2_uc001srg.2_Missense_Mutation_p.V72A	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	1198					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		CCTGTGCCTGTTCTTATAGGG	0.448													9	13	---	---	---	---	PASS	C	62954451	C	C	62954451	3	2	77	1	0	0	0	0	1	0	0	0	9700	1725	60	5	3692	5	MON2	12	62954451	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	5110876	62954451	70897444	318	29428										
PTPRB	5787	broad.mit.edu	37	chr12	70933760	70933760	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tggacagataatggtcgatcCctacgaatgctcagacgggc	12	10	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:70933760C>A	uc001swb.3	-	22	5013	c.4983G>T	c.(4981-4983)AGG>AGT	p.R1661S	PTPRB_uc010sto.1_Missense_Mutation_p.R1571S|PTPRB_uc010stp.1_Missense_Mutation_p.R1571S|PTPRB_uc001swc.3_Missense_Mutation_p.R1879S|PTPRB_uc001swa.3_Missense_Mutation_p.R1791S	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1661	Cytoplasmic (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			ATGGTCGATCCCTACGAATGC	0.408													8	17	---	---	---	---	PASS	A	70933760	A	A	70933760	3	1	77	1	0	0	0	0	1	0	0	0	12796	622	22	3	1054	3	PTPRB	12	70933760	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	7979309	70933760	62918135	319	29429										
SLC6A15	55117	broad.mit.edu	37	chr12	85255533	85255533	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttttcgataaatatttttacCaaaatttggagatggcatct	6	5	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:85255533C>A	uc001szv.2	-	12	2564	c.2071G>T	c.(2071-2073)GGT>TGT	p.G691C	SLC6A15_uc010sul.1_Missense_Mutation_p.G584C|SLC6A15_uc001szw.1_3'UTR	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	691	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						ATATTTTTACCAAAATTTGGA	0.443													8	16	---	---	---	---	PASS	A	85255533	A	A	85255533	3	1	77	1	0	0	0	0	1	0	0	0	14678	594	21	3	125	3	SLC6A15	12	85255533	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	14321773	85255533	48596362	320	29430										
CEP290	80184	broad.mit.edu	37	chr12	88449427	88449427	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttcttttacaagctgtttaaGgtcagtaatgctttgatttt	7	5	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:88449427G>T	uc001tar.2	-	50	7230	c.6886C>A	c.(6886-6888)CTT>ATT	p.L2296I	CEP290_uc001taq.2_Missense_Mutation_p.L1356I|uc001tas.2_Intron	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	2296	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						AGCTGTTTAAGGTCAGTAATG	0.294													4	10	---	---	---	---	PASS	T	88449427	T	T	88449427	3	4	77	1	0	0	0	0	1	0	0	0	3253	1000	35	3	573	3	CEP290	12	88449427	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3193894	88449427	45402468	321	29431										
CEP290	80184	broad.mit.edu	37	chr12	88479931	88479931	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcaaactagggtcagggattGatcctgtagcttcttcaaac	10	9	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:88479931G>C	uc001tar.2	-	34	4666	c.4322C>G	c.(4321-4323)TCA>TGA	p.S1441*	CEP290_uc001taq.2_Nonsense_Mutation_p.S501*	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1441	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						GTCAGGGATTGATCCTGTAGC	0.348													13	22	---	---	---	---	PASS	C	88479931	C	C	88479931	4	2	77	1	0	0	0	0	0	1	0	0	3253	1294	45	2	3201	2	CEP290	12	88479931	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	30504	88479931	45371964	322	29432										
BTG1	694	broad.mit.edu	37	chr12	92539232	92539232	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgctcgtgagccccttggtgCggagaaacttggagatgaag	15	9	0	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:92539232C>G	uc001tby.3	-	1	442	c.80G>C	c.(79-81)CGC>CCC	p.R27P	BTG1_uc001tbv.1_5'Flank|BTG1_uc001tbw.1_5'Flank|BTG1_uc001tbx.1_5'Flank|BTG1_uc009zss.1_5'Flank|uc001tca.2_5'Flank	NM_001731	NP_001722	P62324	BTG1_HUMAN	B-cell translocation protein 1	27					cell migration|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of angiogenesis|positive regulation of endothelial cell differentiation|positive regulation of myoblast differentiation|regulation of apoptosis|regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|transcription cofactor activity				0		Acute lymphoblastic leukemia(6;3.02e-13)|all_hematologic(6;4.32e-09)				CCCCTTGGTGCGGAGAAACTT	0.592			T	MYC	BCLL								9	39	---	---	---	---	PASS	G	92539232	G	G	92539232	3	3	77	1	0	0	0	0	1	0	0	0	1553	768	27	4	443	4	BTG1	12	92539232	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	4059301	92539232	41312663	323	29433										
ANO4	121601	broad.mit.edu	37	chr12	101490328	101490328	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccacagaacagcctcgcacaGagtctgagtgggagaacagc	12	12	1	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:101490328G>C	uc010svm.1	+	19	2325	c.1753G>C	c.(1753-1755)GAG>CAG	p.E585Q	ANO4_uc001thw.2_Missense_Mutation_p.E550Q|ANO4_uc001thx.2_Missense_Mutation_p.E585Q|ANO4_uc001thy.2_Missense_Mutation_p.E105Q	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	585	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						GCCTCGCACAGAGTCTGAGTG	0.478										HNSCC(74;0.22)			19	17	---	---	---	---	PASS	C	101490328	C	C	101490328	3	2	77	1	0	0	0	0	1	0	0	0	699	943	33	2	1714	2	ANO4	12	101490328	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	8951096	101490328	32361567	324	29434										
CIT	11113	broad.mit.edu	37	chr12	120139707	120139707	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tagaatttattggttccaatGaggatactgtaattggtgaa	10	3	0	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:120139707G>A	uc001txi.1	-	41	5288	c.5235C>T	c.(5233-5235)CTC>CTT	p.L1745L	CIT_uc001txh.1_Silent_p.L1264L|CIT_uc001txj.1_Silent_p.L1787L	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1745	CNH.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		TGGTTCCAATGAGGATACTGT	0.512													39	97	---	---	---	---	PASS	A	120139707	A	A	120139707	2	1	77	1	0	0	0	0	0	0	0	1	3438	1277	45	2		2	CIT	12	120139707	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	18649379	120139707	13712188	325	29435										
MLEC	9761	broad.mit.edu	37	chr12	121132899	121132899	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	actgtttcccttttcctaggGgtactatgacaatcccaagg	8	11	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:121132899G>T	uc001tyy.1	+	4	744	c.593G>T	c.(592-594)GGG>GTG	p.G198V		NM_014730	NP_055545	Q14165	MLEC_HUMAN	malectin precursor	198	Lumenal (Potential).				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	carbohydrate binding			ovary(1)	1						TTTTCCTAGGGGTACTATGAC	0.493													9	193	---	---	---	---	PASS	T	121132899	T	T	121132899	3	4	77	1	0	0	0	0	1	0	0	0	9613	1246	43	3	607	3	MLEC	12	121132899	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	993192	121132899	12718996	326	29436										
RAN	5901	broad.mit.edu	37	chr12	131359125	131359125	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ataatgtttgatgtaacatcGagagttacttacaagaatgt	8	4	0	3	rs1802283		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:131359125G>T	uc001uir.2	+	5	347	c.282G>T	c.(280-282)TCG>TCT	p.S94S	RAN_uc010tbk.1_Silent_p.S6S|RAN_uc010tbl.1_Silent_p.S6S|RAN_uc001uis.2_Silent_p.S114S	NM_006325	NP_006316	P62826	RAN_HUMAN	ras-related nuclear protein	94					androgen receptor signaling pathway|cell division|DNA metabolic process|mitosis|mitotic spindle organization|positive regulation of transcription, DNA-dependent|protein export from nucleus|RNA export from nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|melanosome|nuclear pore|nucleoplasm	androgen receptor binding|chromatin binding|GTP binding|GTPase activity|transcription coactivator activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	Lung NSC(355;7.46e-07)|all_epithelial(31;7.36e-06)		OV - Ovarian serous cystadenocarcinoma(86;9.18e-49)|Epithelial(86;1.42e-45)|all cancers(50;6.28e-40)		ATGTAACATCGAGAGTTACTT	0.408													4	40	---	---	---	---	PASS	T	131359125	T	T	131359125	2	4	77	1	0	0	0	0	0	0	0	1	13024	1045	37	2		2	RAN	12	131359125	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	10226226	131359125	2492770	327	29437										
ZNF10	7556	broad.mit.edu	37	chr12	133733275	133733275	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcccttattgtgcatcagagGatacacactggagagaaacc	10	10	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr12:133733275G>A	uc009zzb.2	+	5	1890	c.1443G>A	c.(1441-1443)AGG>AGA	p.R481R	ZNF268_uc010tbv.1_Intron|ZNF10_uc001ulq.2_Silent_p.R481R	NM_015394	NP_056209	P21506	ZNF10_HUMAN	zinc finger protein 10	481	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;1.28e-06)|all_epithelial(31;0.0051)|Lung NSC(355;0.00948)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		TGCATCAGAGGATACACACTG	0.428													9	27	---	---	---	---	PASS	A	133733275	A	A	133733275	2	1	77	1	0	0	0	0	0	0	0	1	17709	1165	41	2		2	ZNF10	12	133733275	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	2374150	133733275	118620	328	29438										
SACS	26278	broad.mit.edu	37	chr13	23912516	23912516	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cttcttccactctcactcagGgaaaacttcagagcctctcc	5	16	5	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr13:23912516G>T	uc001uon.2	-	10	6088	c.5499C>A	c.(5497-5499)TCC>TCA	p.S1833S	SACS_uc001uoo.2_Silent_p.S1686S|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1833					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TCTCACTCAGGGAAAACTTCA	0.478													6	56	---	---	---	---	PASS	T	23912516	T	T	23912516	2	4	77	1	0	0	0	0	0	0	0	1	13804	1219	43	3		3	SACS	13	23912516	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08		23912516	91257362	329	29439										
MTMR6	9107	broad.mit.edu	37	chr13	25835837	25835837	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tatccatgacgtacatatagCgattgactggattggcttta	9	7	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr13:25835837C>G	uc001uqf.3	-	6	1014	c.695G>C	c.(694-696)CGC>CCC	p.R232P	MTMR6_uc001uqe.1_Missense_Mutation_p.R232P	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	232	Myotubularin phosphatase.					cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		GTACATATAGCGATTGACTGG	0.383													13	29	---	---	---	---	PASS	G	25835837	G	G	25835837	3	3	77	1	0	0	0	0	1	0	0	0	9947	768	27	4	1206	4	MTMR6	13	25835837	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1923321	25835837	89334041	330	29440										
FLT1	2321	broad.mit.edu	37	chr13	28893635	28893635	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gctgtagattttgtcaaagaTagattcaggagccatccatt	9	7	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr13:28893635T>A	uc001usb.3	-	24	3496	c.3211A>T	c.(3211-3213)ATC>TTC	p.I1071F	FLT1_uc010aap.2_Missense_Mutation_p.I76F|FLT1_uc010aaq.2_Missense_Mutation_p.I196F|FLT1_uc001usa.3_Missense_Mutation_p.I289F	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	1071	Cytoplasmic (Potential).|Protein kinase.				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)	TTGTCAAAGATAGATTCAGGA	0.468													10	34	---	---	---	---	PASS	A	28893635	A	A	28893635	3	1	77	1	0	0	0	0	1	0	0	0	5941	1406	49	5	833	5	FLT1	13	28893635	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	3057798	28893635	86276243	331	29441										
NHLRC3	387921	broad.mit.edu	37	chr13	39621263	39621263	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggagcatggaataattgtttCacagaagagggaccttcttc	11	7	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr13:39621263C>T	uc001uxc.2	+	6	1087	c.765C>T	c.(763-765)TTC>TTT	p.F255F	NHLRC3_uc001uxd.2_Silent_p.F188F|NHLRC3_uc001uxe.2_Silent_p.F58F	NM_001012754	NP_001012772	Q5JS37	NHLC3_HUMAN	NHL repeat containing 3 isoform a	255						extracellular region				skin(1)	1		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;2.37e-08)|Epithelial(112;3.14e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00101)|BRCA - Breast invasive adenocarcinoma(63;0.00335)|GBM - Glioblastoma multiforme(144;0.0128)		ATAATTGTTTCACAGAAGAGG	0.393													23	44	---	---	---	---	PASS	T	39621263	T	T	39621263	2	4	77	1	0	0	0	0	0	0	0	1	10407	825	29	2		2	NHLRC3	13	39621263	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	10727628	39621263	75548615	332	29442										
LCP1	3936	broad.mit.edu	37	chr13	46730703	46730703	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gacaaaggcatacttttcttCctctgcaagtaaatgattaa	6	8	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr13:46730703C>A	uc001vaz.3	-	5	487	c.361G>T	c.(361-363)GAA>TAA	p.E121*	LCP1_uc001vba.3_Nonsense_Mutation_p.E121*	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	121	Actin-binding 1.|CH 1.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		TACTTTTCTTCCTCTGCAAGT	0.373			T	BCL6	NHL 								28	92	---	---	---	---	PASS	A	46730703	A	A	46730703	4	1	77	1	0	0	0	0	0	1	0	0	8691	864	30	2	1570	2	LCP1	13	46730703	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	7109440	46730703	68439175	333	29443										
SUCLA2	8803	broad.mit.edu	37	chr13	48563071	48563071	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tttcaaatgttccttttcctCtaccaccagctaaaacctgt	3	13	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr13:48563071C>G	uc001vbs.2	-	3	374	c.317G>C	c.(316-318)AGA>ACA	p.R106T	SUCLA2_uc010tgb.1_Missense_Mutation_p.R46T|SUCLA2_uc010tgc.1_5'UTR|SUCLA2_uc010tgd.1_Missense_Mutation_p.R46T|SUCLA2_uc001vbt.1_RNA|SUCLA2_uc001vbu.1_Missense_Mutation_p.R106T	NM_003850	NP_003841	Q9P2R7	SUCB1_HUMAN	succinate-CoA ligase, ADP-forming, beta subunit	106	ATP-grasp.				succinyl-CoA pathway|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			central_nervous_system(1)	1		all_cancers(8;1.13e-24)|all_epithelial(8;1.78e-13)|all_lung(13;2.85e-06)|Breast(56;0.000141)|Lung NSC(96;0.000226)|all_hematologic(8;0.000885)|Prostate(109;0.00132)|Acute lymphoblastic leukemia(8;0.0167)|Myeloproliferative disorder(33;0.039)|Hepatocellular(98;0.0556)|Lung SC(185;0.102)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(144;2.1e-06)	Succinic acid(DB00139)	TCCTTTTCCTCTACCACCAGC	0.373													40	81	---	---	---	---	PASS	G	48563071	G	G	48563071	3	3	77	1	0	0	0	0	1	0	0	0	15362	913	32	2	1110	2	SUCLA2	13	48563071	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1832368	48563071	66606807	334	29444										
CAB39L	81617	broad.mit.edu	37	chr13	49885033	49885033	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctgctcatcatccgtcctttCtttttggaagctgctcagaa	7	12	4	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr13:49885033C>G	uc001vcw.2	-	9	1429	c.931G>C	c.(931-933)GAA>CAA	p.E311Q	CAB39L_uc001vcx.2_Missense_Mutation_p.E311Q|CAB39L_uc010adf.2_Missense_Mutation_p.E308Q	NM_030925	NP_112187	Q9H9S4	CB39L_HUMAN	calcium binding protein 39-like	311					cell cycle arrest|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol	protein binding				0		Lung NSC(96;2.11e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.66e-09)|COAD - Colon adenocarcinoma(199;0.226)		TCCGTCCTTTCTTTTTGGAAG	0.473													47	125	---	---	---	---	PASS	G	49885033	G	G	49885033	3	3	77	1	0	0	0	0	1	0	0	0	2526	922	32	2	86	2	CAB39L	13	49885033	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1321962	49885033	65284845	335	29445										
SOX1	6656	broad.mit.edu	37	chr13	112722129	112722129	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccaaccaggaccgggtcaaaCggcccatgaacgccttcatg	10	15	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr13:112722129C>T	uc001vsb.1	+	1	217	c.157C>T	c.(157-159)CGG>TGG	p.R53W		NM_005986	NP_005977	O00570	SOX1_HUMAN	SRY (sex determining region Y)-box 1	53	HMG box.				chromatin organization	nucleus	core promoter sequence-specific DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	all_lung(23;0.000652)|Lung NSC(43;0.017)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	all_cancers(25;0.000331)|Lung NSC(25;0.0496)|all_lung(25;0.0831)|all_epithelial(44;0.0868)|Breast(118;0.231)		OV - Ovarian serous cystadenocarcinoma(48;0.132)		CCGGGTCAAACGGCCCATGAA	0.517													6	7	---	---	---	---	PASS	T	112722129	T	T	112722129	3	4	77	1	0	0	0	0	1	0	0	0	14940	527	19	1	159	1	SOX1	13	112722129	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	62837096	112722129	2447749	336	29446										
OR11H12	440153	broad.mit.edu	37	chr14	19377713	19377713	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgtgagtggacaattcagatCttcctcttctcactctttac	6	11	5	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:19377713C>A	uc010tkp.1	+	1	120	c.120C>A	c.(118-120)ATC>ATA	p.I40I		NM_001013354	NP_001013372	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H,	40	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CAATTCAGATCTTCCTCTTCT	0.428													17	15	---	---	---	---	PASS	A	19377713	A	A	19377713	2	1	77	1	0	0	0	0	0	0	0	1	10927	903	32	2		2	OR11H12	14	19377713	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08		19377713	87971827	337	29447										
CHD8	57680	broad.mit.edu	37	chr14	21884067	21884067	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tggcggtttgagcgtctcttCtgtagagcaaaaagtagtta	12	6	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:21884067C>T	uc001was.1	-	6	974	c.880_splice	c.e6-1	p.K294_splice	CHD8_uc001war.1_Splice_Site_p.K190_splice	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8						ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		AGCGTCTCTTCTGTAGAGCAA	0.368													21	76	---	---	---	---	PASS	T	21884067	T	T	21884067	5	4	77	1	0	0	0	0	0	0	1	0	3331	927	32	2	6161	2	CHD8	14	21884067	Splice_Site	SNP	C	TCGA-37-3789-01A-01D-0983-08	2506354	21884067	85465473	338	29448										
PRKD1	5587	broad.mit.edu	37	chr14	30105671	30105671	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	actcccttcttccatgaccaCatcagactctgccccagggc	6	18	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:30105671C>T	uc001wqh.2	-	7	1196	c.1015G>A	c.(1015-1017)GTG>ATG	p.V339M		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	339					cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TCCATGACCACATCAGACTCT	0.458													5	26	---	---	---	---	PASS	T	30105671	T	T	30105671	3	4	77	1	0	0	0	0	1	0	0	0	12518	478	17	3	1771	3	PRKD1	14	30105671	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	8221604	30105671	77243869	339	29449										
FANCM	57697	broad.mit.edu	37	chr14	45658053	45658053	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aggatagtttttgtgttgatGaagaggagtcttgcaaaggc	14	3	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:45658053G>A	uc001wwd.3	+	20	4927	c.4828G>A	c.(4828-4830)GAA>AAA	p.E1610K	FANCM_uc010anf.2_Missense_Mutation_p.E1584K|FANCM_uc001wwe.3_Missense_Mutation_p.E1146K|FANCM_uc010ang.2_Missense_Mutation_p.E824K	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1610					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						TTGTGTTGATGAAGAGGAGTC	0.294								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				7	23	---	---	---	---	PASS	A	45658053	A	A	45658053	3	1	77	1	0	0	0	0	1	0	0	0	5671	1291	45	2	4906	2	FANCM	14	45658053	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	15552382	45658053	61691487	340	29450										
MDGA2	161357	broad.mit.edu	37	chr14	47389363	47389363	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	attctggagcataggcctttCctgaaaacagaaagtgtgct	10	8	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:47389363C>A	uc001wwj.3	-	10	2079	c.1883G>T	c.(1882-1884)GGA>GTA	p.G628V	MDGA2_uc001wwi.3_Missense_Mutation_p.G399V|MDGA2_uc010ani.2_Missense_Mutation_p.G188V	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	628					spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						ATAGGCCTTTCCTGAAAACAG	0.358													8	43	---	---	---	---	PASS	A	47389363	A	A	47389363	3	1	77	1	0	0	0	0	1	0	0	0	9407	869	30	2	1019	2	MDGA2	14	47389363	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1731310	47389363	59960177	341	29451										
ACTR10	55860	broad.mit.edu	37	chr14	58678108	58678108	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgtggatatagggaaagcctGgtgttacccatatctttttt	10	6	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:58678108G>T	uc001xdf.2	+	5	544	c.441G>T	c.(439-441)CTG>CTT	p.L147L	C14orf37_uc010tro.1_Intron|ACTR10_uc001xdg.2_5'UTR|ACTR10_uc001xdh.2_5'UTR|ACTR10_uc010trp.1_5'Flank|ACTR10_uc010apc.2_5'Flank	NM_018477	NP_060947	Q9NZ32	ARP10_HUMAN	uncharacterized hypothalamus protein HARP11	147						cytoplasm				central_nervous_system(1)	1						GGGAAAGCCTGGTGTTACCCA	0.383													6	95	---	---	---	---	PASS	T	58678108	T	T	58678108	2	4	77	1	0	0	0	0	0	0	0	1	208	1335	47	3		3	ACTR10	14	58678108	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	11288745	58678108	48671432	342	29452										
SYNE2	23224	broad.mit.edu	37	chr14	64491954	64491954	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	catgtttgatggatagatacCagacattactgagacaacta	8	7	0	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:64491954C>A	uc001xgm.2	+	41	6297	c.6067C>A	c.(6067-6069)CAG>AAG	p.Q2023K	SYNE2_uc001xgl.2_Missense_Mutation_p.Q2023K	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2023	Potential.|Cytoplasmic (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)		GGATAGATACCAGACATTACT	0.373													6	41	---	---	---	---	PASS	A	64491954	A	A	64491954	3	1	77	1	0	0	0	0	1	0	0	0	15443	595	21	3	6225	3	SYNE2	14	64491954	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	5813846	64491954	42857586	343	29453										
C14orf50	145376	broad.mit.edu	37	chr14	65056048	65056048	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgtcctctcatacatcatgcCctaagtaacctggtacattc	5	13	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:65056048C>A	uc001xhl.1	+	12	1357	c.1261C>A	c.(1261-1263)CCT>ACT	p.P421T	C14orf50_uc001xhm.1_Missense_Mutation_p.P151T	NM_172365	NP_758953	Q96LQ0	CN050_HUMAN	hypothetical protein LOC145376	421										skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00382)|all cancers(60;0.00427)|BRCA - Breast invasive adenocarcinoma(234;0.0488)		TACATCATGCCCTAAGTAACC	0.333													16	41	---	---	---	---	PASS	A	65056048	A	A	65056048	3	1	77	1	0	0	0	0	1	0	0	0	1777	623	22	3	1307	3	C14orf50	14	65056048	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	564094	65056048	42293492	344	29454										
C14orf45	80127	broad.mit.edu	37	chr14	74516689	74516689	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctggatgagagaacagaagtGgaaagattctttttagatgc	12	4	1	5			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:74516689G>T	uc010tup.1	+	8	1200	c.1077G>T	c.(1075-1077)GTG>GTT	p.V359V	C14orf45_uc001xpm.1_RNA	NM_025057	NP_079333	Q8ND07	CN045_HUMAN	hypothetical protein LOC80127	359	Potential.										0				BRCA - Breast invasive adenocarcinoma(234;0.00351)		GAACAGAAGTGGAAAGATTCT	0.403													6	53	---	---	---	---	PASS	T	74516689	T	T	74516689	2	4	77	1	0	0	0	0	0	0	0	1	1775	1335	47	3		3	C14orf45	14	74516689	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	9460641	74516689	32832851	345	29455										
ATXN3	4287	broad.mit.edu	37	chr14	92549498	92549498	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttttagttgtgctaattcttCtccaataagttttggtcgat	7	6	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:92549498C>A	uc001yac.3	-	7	649	c.580G>T	c.(580-582)GAA>TAA	p.E194*	ATXN3_uc010aug.2_Nonsense_Mutation_p.E179*|ATXN3_uc001yad.3_Nonsense_Mutation_p.E139*|ATXN3_uc010auh.2_Nonsense_Mutation_p.E128*|ATXN3_uc001yae.3_Nonsense_Mutation_p.E96*|ATXN3_uc010twl.1_RNA	NM_004993	NP_004984	P54252	ATX3_HUMAN	ataxin 3 reference isoform	194					cell death|nervous system development|nucleotide-excision repair|regulation of transcription, DNA-dependent|synaptic transmission|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleoplasm	cysteine-type peptidase activity|protein binding				0		all_cancers(154;0.0768)		COAD - Colon adenocarcinoma(157;0.224)		GCTAATTCTTCTCCAATAAGT	0.373													22	64	---	---	---	---	PASS	A	92549498	A	A	92549498	4	1	77	1	0	0	0	0	0	1	0	0	1213	922	32	2	525	2	ATXN3	14	92549498	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	18032809	92549498	14800042	346	29456										
WDR25	79446	broad.mit.edu	37	chr14	100847918	100847918	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtgggcccgggagtgtctgaGtttattcagccatatttgaa	13	7	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:100847918G>T	uc010avx.2	+	2	750	c.657G>T	c.(655-657)GAG>GAT	p.E219D	WDR25_uc001yhm.2_Missense_Mutation_p.E211D|WDR25_uc001yhn.2_Missense_Mutation_p.E219D|WDR25_uc010avy.2_RNA|WDR25_uc001yho.2_5'Flank	NM_001161476	NP_001154948	Q64LD2	WDR25_HUMAN	WD repeat domain 25	219											0		Melanoma(154;0.212)				GAGTGTCTGAGTTTATTCAGC	0.562													11	11	---	---	---	---	PASS	T	100847918	T	T	100847918	3	4	77	1	0	0	0	0	1	0	0	0	17279	1020	36	3	659	3	WDR25	14	100847918	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	8298420	100847918	6501622	347	29457										
PPP2R5C	5527	broad.mit.edu	37	chr14	102276371	102276371	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgtggtccttctccatattcGaggtaagttattgtgtgttt	10	7	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:102276371G>A	uc001yko.2	+	1	232	c.92G>A	c.(91-93)CGA>CAA	p.R31Q	PPP2R5C_uc001ykj.3_Intron|PPP2R5C_uc010txr.1_Intron|PPP2R5C_uc001ykk.2_Intron|PPP2R5C_uc010txt.1_Missense_Mutation_p.R21Q|PPP2R5C_uc001ykn.2_Missense_Mutation_p.R31Q|PPP2R5C_uc001ykp.2_Missense_Mutation_p.R31Q|PPP2R5C_uc010txs.1_Missense_Mutation_p.R21Q	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	31					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|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						CTCCATATTCGAGGTAAGTTA	0.468													8	26	---	---	---	---	PASS	A	102276371	A	A	102276371	3	1	77	1	0	0	0	0	1	0	0	0	12394	1058	37	2	365	2	PPP2R5C	14	102276371	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1428453	102276371	5073169	348	29458										
DYNC1H1	1778	broad.mit.edu	37	chr14	102467534	102467534	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcacttaaagaccgccattGgaaacagctcatgaaaaggc	9	10	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:102467534G>T	uc001yks.2	+	20	4402	c.4238G>T	c.(4237-4239)TGG>TTG	p.W1413L		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1413	Stem (By similarity).				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						GACCGCCATTGGAAACAGCTC	0.423													16	581	---	---	---	---	PASS	T	102467534	T	T	102467534	3	4	77	1	0	0	0	0	1	0	0	0	4841	1357	47	3	4316	3	DYNC1H1	14	102467534	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	191163	102467534	4882006	349	29459										
DYNC1H1	1778	broad.mit.edu	37	chr14	102493548	102493548	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aaggccacttgcttctgattGgtgttagtggagcaggaaaa	13	6	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:102493548G>T	uc001yks.2	+	45	8973	c.8809G>T	c.(8809-8811)GGT>TGT	p.G2937C		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2937	AAA 4 (By similarity).|ATP (Potential).				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						GCTTCTGATTGGTGTTAGTGG	0.463													10	351	---	---	---	---	PASS	T	102493548	T	T	102493548	3	4	77	1	0	0	0	0	1	0	0	0	4841	1348	47	3	8987	3	DYNC1H1	14	102493548	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	26014	102493548	4855992	350	29460										
DYNC1H1	1778	broad.mit.edu	37	chr14	102515002	102515002	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acgctgatcaacgagctagtGaaaggtgcgtgagaggccga	15	8	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:102515002G>T	uc001yks.2	+	74	13532	c.13368G>T	c.(13366-13368)GTG>GTT	p.V4456V		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	4456					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						ACGAGCTAGTGAAAGGTGCGT	0.607													14	39	---	---	---	---	PASS	T	102515002	T	T	102515002	2	4	77	1	0	0	0	0	0	0	0	1	4841	1277	45	2		2	DYNC1H1	14	102515002	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	21454	102515002	4834538	351	29461										
ZNF839	55778	broad.mit.edu	37	chr14	102800977	102800977	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	accgtgtatgagtttcttctGatgaaggtgagtactcttag	11	6	3	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:102800977G>A	uc001ylo.2	+	4	1505	c.1155G>A	c.(1153-1155)CTG>CTA	p.L385L	ZNF839_uc010awk.1_Silent_p.L501L|ZNF839_uc001ylp.2_RNA|ZNF839_uc001ylq.1_Silent_p.L385L|ZNF839_uc001ylr.2_Silent_p.L310L|ZNF839_uc001yls.2_5'UTR|ZNF839_uc001ylt.2_5'Flank	NM_018335	NP_060805	A8K0R7	ZN839_HUMAN	zinc finger protein 839	385						intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)	2						AGTTTCTTCTGATGAAGGTGA	0.398													13	27	---	---	---	---	PASS	A	102800977	A	A	102800977	2	1	77	1	0	0	0	0	0	0	0	1	18185	1277	45	2		2	ZNF839	14	102800977	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	285975	102800977	4548563	352	29462										
AHNAK2	113146	broad.mit.edu	37	chr14	105410132	105410132	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gggcatctgcaccttgggcaGgtgtcctttgaggccggctt	15	11	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:105410132G>T	uc010axc.1	-	7	11776	c.11656C>A	c.(11656-11658)CTG>ATG	p.L3886M	AHNAK2_uc001ypx.2_Missense_Mutation_p.L3786M	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3886						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)			ACCTTGGGCAGGTGTCCTTTG	0.587													9	338	---	---	---	---	PASS	T	105410132	T	T	105410132	3	4	77	1	0	0	0	0	1	0	0	0	415	991	35	3	5735	3	AHNAK2	14	105410132	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2609155	105410132	1939408	353	29463										
GPR132	29933	broad.mit.edu	37	chr14	105517538	105517538	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acttcttggcgggaatggtcCgtggccagcacgtagataat	13	9	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:105517538C>T	uc001yqd.2	-	4	1835	c.936G>A	c.(934-936)ACG>ACA	p.T312T	GPR132_uc001yqc.2_Silent_p.T124T|GPR132_uc001yqe.2_Silent_p.T303T	NM_013345	NP_037477	Q9UNW8	GP132_HUMAN	G protein-coupled receptor 132	312	Cytoplasmic (Potential).				response to stress	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.0953)|Melanoma(154;0.155)|all_epithelial(191;0.219)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.02)|all cancers(159;0.0419)|OV - Ovarian serous cystadenocarcinoma(161;0.0521)		GGGAATGGTCCGTGGCCAGCA	0.582													12	26	---	---	---	---	PASS	T	105517538	T	T	105517538	2	4	77	1	0	0	0	0	0	0	0	1	6642	639	23	1		1	GPR132	14	105517538	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	107406	105517538	1832002	354	29464										
MTA1	9112	broad.mit.edu	37	chr14	105927231	105927231	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggtctgcatcagaggccaacCttttcgaggaagccctggaa	12	11	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr14:105927231C>A	uc001yqx.2	+	10	1070	c.883C>A	c.(883-885)CTT>ATT	p.L295I	MTA1_uc001yqy.2_RNA|MTA1_uc001yqz.1_Missense_Mutation_p.L209I|MTA1_uc001yra.1_Missense_Mutation_p.L209I|MTA1_uc001yrb.2_Missense_Mutation_p.L56I	NM_004689	NP_004680	Q13330	MTA1_HUMAN	metastasis associated protein	295	SANT.				signal transduction	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		AGAGGCCAACCTTTTCGAGGA	0.587													7	115	---	---	---	---	PASS	A	105927231	A	A	105927231	3	1	77	1	0	0	0	0	1	0	0	0	9908	681	24	3	921	3	MTA1	14	105927231	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	409693	105927231	1422309	355	29465										
C15orf2	23742	broad.mit.edu	37	chr15	24923588	24923588	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atggggcttcctggttctggGaacacactacacagtgacag	12	10	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:24923588G>A	uc001ywo.2	+	1	3048	c.2574G>A	c.(2572-2574)GGG>GGA	p.G858G		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	858					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CTGGTTCTGGGAACACACTAC	0.493													18	49	---	---	---	---	PASS	A	24923588	A	A	24923588	2	1	77	1	0	0	0	0	0	0	0	1	1784	1161	41	2		2	C15orf2	15	24923588	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08		24923588	77607804	356	29466										
RYR3	6263	broad.mit.edu	37	chr15	33833011	33833011	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcatctctcagtatcaaatgGtaacatacaagtggatgcct	8	9	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:33833011G>T	uc001zhi.2	+	7	636	c.566G>T	c.(565-567)GGT>GTT	p.G189V	RYR3_uc010bar.2_Missense_Mutation_p.G189V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	189	MIR 2.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GTATCAAATGGTAACATACAA	0.428													11	23	---	---	---	---	PASS	T	33833011	T	T	33833011	3	4	77	1	0	0	0	0	1	0	0	0	13770	1261	44	3	592	3	RYR3	15	33833011	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	8909423	33833011	68698381	357	29467										
PGBD4	161779	broad.mit.edu	37	chr15	34396159	34396159	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cctgttcaagaaggataatcCtgagcacacgatgagccata	9	10	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:34396159C>A	uc001zho.2	+	1	1886	c.1427C>A	c.(1426-1428)CCT>CAT	p.P476H	C15orf24_uc001zhm.2_5'Flank|C15orf24_uc001zhn.2_5'Flank	NM_152595	NP_689808	Q96DM1	PGBD4_HUMAN	piggyBac transposable element derived 4	476											0		all_lung(180;1.76e-08)		all cancers(64;1.22e-17)|GBM - Glioblastoma multiforme(113;1.78e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0242)		AAGGATAATCCTGAGCACACG	0.433													5	52	---	---	---	---	PASS	A	34396159	A	A	34396159	3	1	77	1	0	0	0	0	1	0	0	0	11783	681	24	3	1429	3	PGBD4	15	34396159	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	563148	34396159	68135233	358	29468										
SLC12A1	6557	broad.mit.edu	37	chr15	48539204	48539204	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcccttgtcagcgcacccaaAgtgttccaggtaatacaagc	8	13	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:48539204A>T	uc001zwn.3	+	12	1767	c.1551A>T	c.(1549-1551)AAA>AAT	p.K517N	SLC12A1_uc010uew.1_Missense_Mutation_p.K323N|SLC12A1_uc010bem.2_Missense_Mutation_p.K517N|SLC12A1_uc001zwq.3_Missense_Mutation_p.K288N|SLC12A1_uc001zwr.3_Missense_Mutation_p.K244N	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	517	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	GCGCACCCAAAGTGTTCCAGG	0.498													29	87	---	---	---	---	PASS	T	48539204	T	T	48539204	3	4	77	1	0	0	0	0	1	0	0	0	14382	69	3	5	1693	5	SLC12A1	15	48539204	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	14143045	48539204	53992188	359	29469										
FBN1	2200	broad.mit.edu	37	chr15	48782117	48782117	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcctctcggacacagctcctCgtactcaggagtatttctca	7	14	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:48782117C>A	uc001zwx.1	-	25	3341	c.3013G>T	c.(3013-3015)GAG>TAG	p.E1005*		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1005	TB 5.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CACAGCTCCTCGTACTCAGGA	0.537													4	54	---	---	---	---	PASS	A	48782117	A	A	48782117	4	1	77	1	0	0	0	0	0	1	0	0	5702	893	31	2	5770	2	FBN1	15	48782117	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	242913	48782117	53749275	360	29470										
C15orf33	196951	broad.mit.edu	37	chr15	49867260	49867260	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agtcatgcaaaagagcaatgGaggcttctgagagaaaatga	12	5	2	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:49867260G>A	uc001zxl.2	-	8	887	c.593C>T	c.(592-594)TCC>TTC	p.S198F	C15orf33_uc001zxm.2_Missense_Mutation_p.S198F	NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	198										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)		AAGAGCAATGGAGGCTTCTGA	0.303													10	15	---	---	---	---	PASS	A	49867260	A	A	49867260	3	1	77	1	0	0	0	0	1	0	0	0	1791	1174	41	2	969	2	C15orf33	15	49867260	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1085143	49867260	52664132	361	29471										
HERC1	8925	broad.mit.edu	37	chr15	63932475	63932475	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tggttgagaaacattctaacCaggcccattcatttggattc	8	9	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:63932475C>A	uc002amp.2	-	61	11925	c.11777G>T	c.(11776-11778)TGG>TTG	p.W3926L		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	3926					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						ACATTCTAACCAGGCCCATTC	0.498													20	45	---	---	---	---	PASS	A	63932475	A	A	63932475	3	1	77	1	0	0	0	0	1	0	0	0	7057	595	21	3	2880	3	HERC1	15	63932475	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	14065215	63932475	38598917	362	29472										
SNX1	6642	broad.mit.edu	37	chr15	64418374	64418374	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agctttccgagaagcactctCagaatggcttcattgtccct	8	12	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:64418374C>G	uc002amv.2	+	6	643	c.607C>G	c.(607-609)CAG>GAG	p.Q203E	SNX1_uc010bgv.2_5'UTR|SNX1_uc010uio.1_Missense_Mutation_p.Q203E|SNX1_uc002amw.2_Missense_Mutation_p.Q203E|SNX1_uc002amx.2_Missense_Mutation_p.Q138E|SNX1_uc002amy.2_Missense_Mutation_p.Q132E|SNX1_uc010bgw.2_Missense_Mutation_p.Q105E	NM_003099	NP_003090	Q13596	SNX1_HUMAN	sorting nexin 1 isoform a	203	PX.				cell communication|early endosome to Golgi transport|endocytosis|intracellular protein transport	early endosome membrane|Golgi apparatus	phosphatidylinositol binding|protein binding|protein transporter activity				0						GAAGCACTCTCAGAATGGCTT	0.443													13	43	---	---	---	---	PASS	G	64418374	G	G	64418374	3	3	77	1	0	0	0	0	1	0	0	0	14880	827	29	2	629	2	SNX1	15	64418374	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	485899	64418374	38113018	363	29473										
CELF6	60677	broad.mit.edu	37	chr15	72582506	72582507	+	Frame_Shift_Ins	INS	-	A	A													0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	actccgcaggaccgtgcactINScctcgatgtggccaaagggc							TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:72582506_72582507insA	uc002auh.2	-	4	794_795	c.484_485insT	c.(484-486)GAGfs	p.E162fs	uc002aug.2_Intron|CELF6_uc002auk.3_RNA|CELF6_uc010biv.1_RNA|CELF6_uc010biw.2_Frame_Shift_Ins_p.E49fs|CELF6_uc010ukl.1_Frame_Shift_Ins_p.E47fs|CELF6_uc010ukm.1_Frame_Shift_Ins_p.E162fs|CELF6_uc002aui.2_Frame_Shift_Ins_p.E268fs|CELF6_uc002auj.2_Frame_Shift_Ins_p.E49fs	NM_052840	NP_443072	Q96J87	CELF6_HUMAN	bruno-like 6, RNA binding protein	162	RRM 2.				mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3						GACCGTGCACTCCTCGATGTGG	0.599													36	20	---	---	---	---		A	72582507	A	A	72582506	7	5	77	1	0	1	1	0	0	0	0	0	3220	1551	54	0	996	0	CELF6	15	72582506	Frame_Shift_Ins	INS	-	TCGA-37-3789-01A-01D-0983-08	8164132	72582506	29948886	364	29474										
ISL2	64843	broad.mit.edu	37	chr15	76629258	76629258	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tttttcattatccttttctgGgtgctatgggtgatcattcc	8	8	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:76629258G>T	uc002bbw.1	+	1	112	c.34G>T	c.(34-36)GGT>TGT	p.G12C		NM_145805	NP_665804	Q96A47	ISL2_HUMAN	ISL LIM homeobox 2	12						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TCCTTTTCTGGGTGCTATGGG	0.468													9	348	---	---	---	---	PASS	T	76629258	T	T	76629258	3	4	77	1	0	0	0	0	1	0	0	0	7857	1232	43	3	36	3	ISL2	15	76629258	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	4046752	76629258	25902134	365	29475										
IDH3A	3419	broad.mit.edu	37	chr15	78454050	78454050	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tataaaaccccttacaccgaTgtaaatattgtgaccattcg	5	10	0	1	rs61752770	byFrequency	TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:78454050T>G	uc002bdd.2	+	5	444	c.417T>G	c.(415-417)GAT>GAG	p.D139E	IDH3A_uc010umt.1_Missense_Mutation_p.D104E|IDH3A_uc010umu.1_Missense_Mutation_p.D30E|IDH3A_uc002bde.2_Missense_Mutation_p.D89E|IDH3A_uc010umv.1_Missense_Mutation_p.D89E|IDH3A_uc002bdf.2_5'UTR|IDH3A_uc002bdg.2_Missense_Mutation_p.D52E	NM_005530	NP_005521	P50213	IDH3A_HUMAN	isocitrate dehydrogenase 3 (NAD+) alpha	139					carbohydrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0					NADH(DB00157)	CTTACACCGATGTAAATATTG	0.418													41	149	---	---	---	---	PASS	G	78454050	G	G	78454050	3	3	77	1	0	0	0	0	1	0	0	0	7496	1461	51	5	435	5	IDH3A	15	78454050	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	1824792	78454050	24077342	366	29476										
TMC3	342125	broad.mit.edu	37	chr15	81654635	81654635	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aggcgagacgagcaaatttcCgccagagctagacaagaggg	14	9	0	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:81654635C>T	uc002bgo.1	-	4	320	c.320G>A	c.(319-321)CGG>CAG	p.R107Q	TMC3_uc010blr.1_RNA|TMC3_uc002bgp.2_Missense_Mutation_p.R107Q	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	107	Cytoplasmic (Potential).					integral to membrane				ovary(1)|liver(1)	2						AGCAAATTTCCGCCAGAGCTA	0.468													18	22	---	---	---	---	PASS	T	81654635	T	T	81654635	3	4	77	1	0	0	0	0	1	0	0	0	15983	652	23	1	3058	1	TMC3	15	81654635	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	3200585	81654635	20876757	367	29477										
ALPK3	57538	broad.mit.edu	37	chr15	85405880	85405880	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cttcagttggagaagagattGagatgacccctatggtgttt	12	6	1	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:85405880G>A	uc002ble.2	+	10	4917	c.4750G>A	c.(4750-4752)GAG>AAG	p.E1584K	ALPK3_uc010upc.1_5'Flank	NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1584					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			AGAAGAGATTGAGATGACCCC	0.572													30	47	---	---	---	---	PASS	A	85405880	A	A	85405880	3	1	77	1	0	0	0	0	1	0	0	0	546	1291	45	2	4788	2	ALPK3	15	85405880	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3751245	85405880	17125512	368	29478										
WDR93	56964	broad.mit.edu	37	chr15	90260146	90260146	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcatttttcttctcagaactCccttggtcccatttctgcag	5	13	4	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:90260146C>T	uc002boj.2	+	7	862	c.761C>T	c.(760-762)TCC>TTC	p.S254F	WDR93_uc010bnr.2_Missense_Mutation_p.S254F	NM_020212	NP_064597	Q6P2C0	WDR93_HUMAN	WD repeat domain 93	254					electron transport chain	mitochondrial inner membrane	oxidoreductase activity, acting on NADH or NADPH			ovary(2)	2	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			TCTCAGAACTCCCTTGGTCCC	0.338													9	58	---	---	---	---	PASS	T	90260146	T	T	90260146	3	4	77	1	0	0	0	0	1	0	0	0	17337	855	30	2	783	2	WDR93	15	90260146	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	4854266	90260146	12271246	369	29479										
PCSK6	5046	broad.mit.edu	37	chr15	101970216	101970216	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tttcattgctggcatcatatCgtggagatgggtcataatca	10	7	4	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr15:101970216C>T	uc002bwy.2	-	6	1024	c.710G>A	c.(709-711)CGA>CAA	p.R237Q	PCSK6_uc010bpd.2_Missense_Mutation_p.R107Q|PCSK6_uc010bpe.2_Missense_Mutation_p.R237Q|PCSK6_uc002bxa.2_Missense_Mutation_p.R237Q|PCSK6_uc002bxb.2_Missense_Mutation_p.R237Q|PCSK6_uc002bxc.1_Missense_Mutation_p.R237Q|PCSK6_uc002bxd.1_Missense_Mutation_p.R237Q|PCSK6_uc002bxe.2_Missense_Mutation_p.R237Q|PCSK6_uc002bxg.1_Missense_Mutation_p.R237Q	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	237	Catalytic.				glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GGCATCATATCGTGGAGATGG	0.507													11	77	---	---	---	---	PASS	T	101970216	T	T	101970216	3	4	77	1	0	0	0	0	1	0	0	0	11604	884	31	2	2750	2	PCSK6	15	101970216	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	11710070	101970216	561176	370	29480										
CHTF18	63922	broad.mit.edu	37	chr16	847697	847697	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtccttcctcccatcagcctGagaaggacttctttggacgt	9	13	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:847697G>C	uc002cke.3	+	21	2800	c.2737G>C	c.(2737-2739)GAG>CAG	p.E913Q	CHTF18_uc002ckf.3_Missense_Mutation_p.E941Q|CHTF18_uc010brf.2_Missense_Mutation_p.E495Q|CHTF18_uc002ckg.3_Missense_Mutation_p.E431Q	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	913					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity			kidney(1)	1		Hepatocellular(780;0.00335)				CCATCAGCCTGAGAAGGACTT	0.612													15	39	---	---	---	---	PASS	C	847697	C	C	847697	3	2	77	1	0	0	0	0	1	0	0	0	3414	1291	45	2	2819	2	CHTF18	16	847697	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08		847697	89507056	371	29481										
SRRM2	23524	broad.mit.edu	37	chr16	2815495	2815495	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctgaaggaagcagcagtaccGagtcctctcctgaacatccg	10	13	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:2815495G>T	uc002crk.2	+	11	5515	c.4966G>T	c.(4966-4968)GAG>TAG	p.E1656*	SRRM2_uc002crj.1_Nonsense_Mutation_p.E1560*|SRRM2_uc002crl.1_Nonsense_Mutation_p.E1656*|SRRM2_uc010bsu.1_Nonsense_Mutation_p.E1560*	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1656	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CAGCAGTACCGAGTCCTCTCC	0.572													4	35	---	---	---	---	PASS	T	2815495	T	T	2815495	4	4	77	1	0	0	0	0	0	1	0	0	15168	1059	37	2	5004	2	SRRM2	16	2815495	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1967798	2815495	87539258	372	29482										
ZNF263	10127	broad.mit.edu	37	chr16	3339825	3339825	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccacaagtgccttgaatgtgGgaaatgcttcagtcagaaca	10	9	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:3339825G>T	uc002cuq.2	+	6	1651	c.1319G>T	c.(1318-1320)GGG>GTG	p.G440V	ZNF263_uc010uww.1_Missense_Mutation_p.G88V|ZNF263_uc002cur.2_Missense_Mutation_p.G88V	NM_005741	NP_005732	O14978	ZN263_HUMAN	zinc finger protein 263	440	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(3)|ovary(1)	4						CTTGAATGTGGGAAATGCTTC	0.532													7	69	---	---	---	---	PASS	T	3339825	T	T	3339825	3	4	77	1	0	0	0	0	1	0	0	0	17800	1232	43	3	1341	3	ZNF263	16	3339825	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	524330	3339825	87014928	373	29483										
BTBD12	84464	broad.mit.edu	37	chr16	3633448	3633448	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gagtccagggtctggtgagtGtactggaatatctccttcag	13	8	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:3633448G>T	uc002cvp.2	-	14	5430	c.4803C>A	c.(4801-4803)TAC>TAA	p.Y1601*		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1601	Interaction with MUS81.|Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TCTGGTGAGTGTACTGGAATA	0.597								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				5	126	---	---	---	---	PASS	T	3633448	T	T	3633448	4	4	77	1	0	0	0	0	0	1	0	0	1540	1372	48	3	709	3	BTBD12	16	3633448	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	293623	3633448	86721305	374	29484										
C16orf68	79091	broad.mit.edu	37	chr16	8722882	8722882	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcagggcctctgagagacaaGgtacatcccatgattctagc	11	11	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:8722882G>T	uc002cyz.2	+	3	705	c.429G>T	c.(427-429)AAG>AAT	p.K143N	C16orf68_uc002cza.2_Intron	NM_024109	NP_077014	Q9BUU2	MET22_HUMAN	hypothetical protein LOC79091	143							methyltransferase activity				0						TGAGAGACAAGGTACATCCCA	0.537													8	220	---	---	---	---	PASS	T	8722882	T	T	8722882	3	4	77	1	0	0	0	0	1	0	0	0	1827	991	35	3	435	3	C16orf68	16	8722882	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	5089434	8722882	81631871	375	29485										
GRIN2A	2903	broad.mit.edu	37	chr16	9857084	9857084	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tttaaaaccctgggggtagaGtacatattattcttatttgc	8	6	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:9857084G>T	uc002czo.3	-	13	4865	c.4317C>A	c.(4315-4317)TAC>TAA	p.Y1439*	GRIN2A_uc010uym.1_Nonsense_Mutation_p.Y1439*|GRIN2A_uc010uyn.1_3'UTR|GRIN2A_uc002czr.3_3'UTR	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1439	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TGGGGGTAGAGTACATATTAT	0.403													11	32	---	---	---	---	PASS	T	9857084	T	T	9857084	4	4	77	1	0	0	0	0	0	1	0	0	6779	1024	36	3	81	3	GRIN2A	16	9857084	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1134202	9857084	80497669	376	29486										
XYLT1	64131	broad.mit.edu	37	chr16	17292262	17292262	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gagcacttgccgatgcaggtAattagagcgcttttcccagg	12	10	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:17292262A>C	uc002dfa.2	-	5	1181	c.1096T>G	c.(1096-1098)TAC>GAC	p.Y366D		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	366	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						CGATGCAGGTAATTAGAGCGC	0.587													10	28	---	---	---	---	PASS	C	17292262	C	C	17292262	3	2	77	1	0	0	0	0	1	0	0	0	17460	362	13	5	1815	5	XYLT1	16	17292262	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	7435178	17292262	73062491	377	29487										
TMC5	79838	broad.mit.edu	37	chr16	19475265	19475265	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttctcattcatcctgaacttCagcttcatcataatccctca	2	14	6	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:19475265C>G	uc002dgc.3	+	8	2153	c.1404C>G	c.(1402-1404)TTC>TTG	p.F468L	TMC5_uc010vaq.1_Missense_Mutation_p.F468L|TMC5_uc002dgb.3_Missense_Mutation_p.F468L|TMC5_uc010var.1_Missense_Mutation_p.F468L|TMC5_uc002dgd.1_Missense_Mutation_p.F222L|TMC5_uc002dge.3_Missense_Mutation_p.F222L|TMC5_uc002dgf.3_Missense_Mutation_p.F151L|TMC5_uc002dgg.3_Missense_Mutation_p.F109L	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	468	Helical; (Potential).					integral to membrane				skin(1)	1						TCCTGAACTTCAGCTTCATCA	0.458													16	37	---	---	---	---	PASS	G	19475265	G	G	19475265	3	3	77	1	0	0	0	0	1	0	0	0	15985	825	29	2	1740	2	TMC5	16	19475265	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2183003	19475265	70879488	378	29488										
ACSM2B	348158	broad.mit.edu	37	chr16	20548587	20548587	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tctcctagacgcctcactgcGcacgggcttttccggacatc	9	16	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:20548587G>A	uc002dhj.3	-	15	1937	c.1727C>T	c.(1726-1728)GCG>GTG	p.A576V	ACSM2B_uc002dhk.3_Missense_Mutation_p.A576V	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	576					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						GCCTCACTGCGCACGGGCTTT	0.463													36	86	---	---	---	---	PASS	A	20548587	A	A	20548587	3	1	77	1	0	0	0	0	1	0	0	0	184	1087	38	1	10	1	ACSM2B	16	20548587	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1073322	20548587	69806166	379	29489										
DNAH3	55567	broad.mit.edu	37	chr16	21151983	21151983	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aacgtcaaagatgtctttacCtccttcttcatgggtgagaa	8	9	4	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:21151983C>A	uc010vbe.1	-	5	570	c.570G>T	c.(568-570)GAG>GAT	p.E190D	DNAH3_uc002die.2_Missense_Mutation_p.E161D	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	190	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ATGTCTTTACCTCCTTCTTCA	0.468													6	72	---	---	---	---	PASS	A	21151983	A	A	21151983	3	1	77	1	0	0	0	0	1	0	0	0	4603	680	24	3	12011	3	DNAH3	16	21151983	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	603396	21151983	69202770	380	29490										
DCTN5	84516	broad.mit.edu	37	chr16	23677023	23677023	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tccagaaactgtggttccacCattcactgtcttctcaggct	7	13	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:23677023C>A	uc002dly.1	+	5	482	c.425C>A	c.(424-426)CCA>CAA	p.P142Q		NM_032486	NP_115875	Q9BTE1	DCTN5_HUMAN	dynactin 5	142						centrosome	transferase activity			upper_aerodigestive_tract(1)	1				GBM - Glioblastoma multiforme(48;0.0156)		GTGGTTCCACCATTCACTGTC	0.393													5	34	---	---	---	---	PASS	A	23677023	A	A	23677023	3	1	77	1	0	0	0	0	1	0	0	0	4310	594	21	3	443	3	DCTN5	16	23677023	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2525040	23677023	66677730	381	29491										
PLK1	5347	broad.mit.edu	37	chr16	23701356	23701356	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caagctgctgagctcacgctCggccagcaaccgtctcaagg	11	15	2	1	rs34001032	byFrequency	TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:23701356C>T	uc002dlz.1	+	10	1837	c.1784C>T	c.(1783-1785)TCG>TTG	p.S595L		NM_005030	NP_005021	P53350	PLK1_HUMAN	polo-like kinase 1	595					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G2/M transition DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic prophase|negative regulation of cyclin-dependent protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|protein localization to chromatin|protein ubiquitination|regulation of mitotic anaphase|regulation of protein binding	centrosome|condensed nuclear chromosome outer kinetochore|cytosol|nucleoplasm|spindle microtubule|spindle midzone|spindle pole	anaphase-promoting complex binding|ATP binding|polo kinase kinase activity|protein kinase binding			lung(1)|skin(1)	2				GBM - Glioblastoma multiforme(48;0.0156)		AGCTCACGCTCGGCCAGCAAC	0.652													5	19	---	---	---	---	PASS	T	23701356	T	T	23701356	3	4	77	1	0	0	0	0	1	0	0	0	12094	893	31	2	1822	2	PLK1	16	23701356	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	24333	23701356	66653397	382	29492										
CD19	930	broad.mit.edu	37	chr16	28943342	28943342	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atgccacctcctcgcctcctCttcttcctcctcttcctcac	2	22	4	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:28943342C>A	uc002drs.2	+	1	83	c.21C>A	c.(19-21)CTC>CTA	p.L7L	uc010vct.1_Intron|CD19_uc010byo.1_Silent_p.L7L	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	7					cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						CTCGCCTCCTCTTCTTCCTCC	0.557													6	80	---	---	---	---	PASS	A	28943342	A	A	28943342	2	1	77	1	0	0	0	0	0	0	0	1	2973	900	32	2		2	CD19	16	28943342	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	5241986	28943342	61411411	383	29493										
ITGAD	3681	broad.mit.edu	37	chr16	31425870	31425870	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccaagaaccccactttgactCgaagaaaaaccctgggactg	8	13	0	3	rs149370240	by1000genomes	TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:31425870C>A	uc002ebv.1	+	17	2144	c.2095C>A	c.(2095-2097)CGA>AGA	p.R699R	ITGAD_uc010cap.1_Silent_p.R700R	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	699	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						CACTTTGACTCGAAGAAAAAC	0.522													8	366	---	---	---	---	PASS	A	31425870	A	A	31425870	2	1	77	1	0	0	0	0	0	0	0	1	7884	876	31	2		2	ITGAD	16	31425870	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	2482528	31425870	58928883	384	29494										
ABCC11	85320	broad.mit.edu	37	chr16	48212568	48212568	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcctctgtctccaagccaatCcgggcagtggcctggaagct	12	14	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:48212568C>A	uc002eff.1	-	23	3638	c.3288G>T	c.(3286-3288)CGG>CGT	p.R1096R	ABCC11_uc002efg.1_Silent_p.R1096R|ABCC11_uc002efh.1_Silent_p.R1096R|ABCC11_uc010cbg.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	1096	Cytoplasmic (Potential).|ABC transmembrane type-1 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				CCAAGCCAATCCGGGCAGTGG	0.582									Cerumen_Type				10	22	---	---	---	---	PASS	A	48212568	A	A	48212568	2	1	77	1	0	0	0	0	0	0	0	1	51	842	30	2		2	ABCC11	16	48212568	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	16786698	48212568	42142185	385	29495										
NOD2	64127	broad.mit.edu	37	chr16	50759418	50759418	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcctggaggagaaccatctCcaggatgaaggtgtatgttc	13	8	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:50759418C>G	uc002egm.1	+	10	3006	c.2901C>G	c.(2899-2901)CTC>CTG	p.L967L	NOD2_uc010vgq.1_Silent_p.L12L	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	967	LRR 7.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				AGAACCATCTCCAGGATGAAG	0.413													22	39	---	---	---	---	PASS	G	50759418	G	G	50759418	2	3	77	1	0	0	0	0	0	0	0	1	10517	842	30	2		2	NOD2	16	50759418	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	2546850	50759418	39595335	386	29496										
SLC6A2	6530	broad.mit.edu	37	chr16	55719166	55719166	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atcgtcttgtattttagcctCtggaaaggggtgaagacatc	11	7	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:55719166C>G	uc002eif.2	+	5	867	c.756C>G	c.(754-756)CTC>CTG	p.L252L	SLC6A2_uc010ccd.2_Silent_p.L252L|SLC6A2_uc002eig.2_Silent_p.L252L|SLC6A2_uc002eih.2_Silent_p.L252L|SLC6A2_uc002eii.2_Silent_p.L147L|SLC6A2_uc002eij.2_Silent_p.L11L	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	252	Helical; Name=4; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	ATTTTAGCCTCTGGAAAGGGG	0.483													19	67	---	---	---	---	PASS	G	55719166	G	G	55719166	2	3	77	1	0	0	0	0	0	0	0	1	14683	900	32	2		2	SLC6A2	16	55719166	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	4959748	55719166	34635587	387	29497										
SLC6A2	6530	broad.mit.edu	37	chr16	55731808	55731808	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acccctcctggttccctccaGatgggaggcatggaggctgt	13	13	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:55731808G>T	uc002eif.2	+	10	1372	c.1261_splice	c.e10-1	p.M421_splice	SLC6A2_uc010ccd.2_Splice_Site_p.M421_splice|SLC6A2_uc002eig.2_Splice_Site_p.M421_splice|SLC6A2_uc002eih.2_Splice_Site_p.M421_splice|SLC6A2_uc002eii.2_Splice_Site_p.M316_splice|SLC6A2_uc002eij.2_Splice_Site_p.M135_splice	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2						synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	GTTCCCTCCAGATGGGAGGCA	0.597													7	19	---	---	---	---	PASS	T	55731808	T	T	55731808	5	4	77	1	0	0	0	0	0	0	1	0	14683	956	33	2	1385	2	SLC6A2	16	55731808	Splice_Site	SNP	G	TCGA-37-3789-01A-01D-0983-08	12642	55731808	34622945	388	29498										
CDH8	1006	broad.mit.edu	37	chr16	61858997	61858997	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cccagacaggccaccagagtGtccacccatatctttggctt	8	15	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:61858997G>A	uc002eog.1	-	5	1006	c.754C>T	c.(754-756)CAC>TAC	p.H252Y	CDH8_uc002eoh.2_Missense_Mutation_p.H21Y	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	252	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		CCACCAGAGTGTCCACCCATA	0.453													13	13	---	---	---	---	PASS	A	61858997	A	A	61858997	3	1	77	1	0	0	0	0	1	0	0	0	3116	1377	48	3	1677	3	CDH8	16	61858997	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	6127189	61858997	28495756	389	29499										
TMCO7	79613	broad.mit.edu	37	chr16	68893908	68893908	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagtggaagaatctgaaactCctaagagatgaaattgctga	10	6	1	5			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:68893908C>A	uc002ewi.3	+	2	228	c.216C>A	c.(214-216)CTC>CTA	p.L72L	TMCO7_uc002ewh.2_Silent_p.L72L	NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	72						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		ATCTGAAACTCCTAAGAGATG	0.408													5	48	---	---	---	---	PASS	A	68893908	A	A	68893908	2	1	77	1	0	0	0	0	0	0	0	1	15998	842	30	2		2	TMCO7	16	68893908	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	7034911	68893908	21460845	390	29500										
ZNF23	7571	broad.mit.edu	37	chr16	71483756	71483756	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctcttttccttcatacatttCctttgtcaaatcattgtcag	3	11	5	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:71483756C>A	uc002faf.2	-	6	986	c.172G>T	c.(172-174)GAA>TAA	p.E58*	ZNF23_uc002fad.2_5'UTR|ZNF23_uc002fae.2_5'UTR|ZNF23_uc010vmf.1_5'UTR|ZNF23_uc002fag.2_5'UTR|ZNF23_uc002fah.2_Nonsense_Mutation_p.E58*|ZNF23_uc002fai.2_Nonsense_Mutation_p.E97*	NM_145911	NP_666016	P17027	ZNF23_HUMAN	zinc finger protein 23	58					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(137;0.00768)		BRCA - Breast invasive adenocarcinoma(221;0.0686)		TCATACATTTCCTTTGTCAAA	0.333													11	17	---	---	---	---	PASS	A	71483756	A	A	71483756	4	1	77	1	0	0	0	0	0	1	0	0	17780	864	30	2	1763	2	ZNF23	16	71483756	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2589848	71483756	18870997	391	29501										
ZFHX3	463	broad.mit.edu	37	chr16	72845851	72845851	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttttggtcgcttcgaagagaGgggagactctgagctacctg	14	8	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:72845851G>C	uc002fck.2	-	6	4289	c.3616C>G	c.(3616-3618)CTC>GTC	p.L1206V	ZFHX3_uc002fcl.2_Missense_Mutation_p.L292V	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1206					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TTCGAAGAGAGGGGAGACTCT	0.532													48	137	---	---	---	---	PASS	C	72845851	C	C	72845851	3	2	77	1	0	0	0	0	1	0	0	0	17631	1000	35	4	7515	4	ZFHX3	16	72845851	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1362095	72845851	17508902	392	29502										
CMIP	80790	broad.mit.edu	37	chr16	81641237	81641237	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gacgttcagctgctgtcctgGgagaatgccccgaagtactg	13	11	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr16:81641237G>T	uc002fgp.2	+	2	438	c.366G>T	c.(364-366)TGG>TGT	p.W122C	CMIP_uc002fgq.1_Missense_Mutation_p.W28C|CMIP_uc010vnq.1_5'Flank	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	88	PH.					cytoplasm|nucleus					0						TGCTGTCCTGGGAGAATGCCC	0.458													10	122	---	---	---	---	PASS	T	81641237	T	T	81641237	3	4	77	1	0	0	0	0	1	0	0	0	3578	1241	43	3	394	3	CMIP	16	81641237	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	8795386	81641237	8713516	393	29503										
VPS53	55275	broad.mit.edu	37	chr17	613825	613825	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caacagcattgaaatctgctCgatctagagggtcctggctt	10	10	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:613825C>A	uc002frn.2	-	2	263	c.116G>T	c.(115-117)CGA>CTA	p.R39L	VPS53_uc010cjo.1_Missense_Mutation_p.R39L|VPS53_uc002frl.2_RNA|VPS53_uc002frm.2_Missense_Mutation_p.R39L|VPS53_uc002fro.2_5'UTR|VPS53_uc010cjp.1_Missense_Mutation_p.R39L	NM_018289	NP_060759	Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 isoform 2	39					protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)		GAAATCTGCTCGATCTAGAGG	0.328													4	48	---	---	---	---	PASS	A	613825	A	A	613825	3	1	77	1	0	0	0	0	1	0	0	0	17212	884	31	2	2481	2	VPS53	17	613825	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08		613825	80581385	394	29504										
SMYD4	114826	broad.mit.edu	37	chr17	1703966	1703966	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgagacagcgaccttttaaaGgatctacgcataagccgatg	10	10	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:1703966G>T	uc002ftm.3	-	5	890	c.722C>A	c.(721-723)CCT>CAT	p.P241H	SMYD4_uc002ftn.1_Missense_Mutation_p.P96H	NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	241							zinc ion binding			skin(3)|kidney(2)	5						ACCTTTTAAAGGATCTACGCA	0.507													6	81	---	---	---	---	PASS	T	1703966	T	T	1703966	3	4	77	1	0	0	0	0	1	0	0	0	14824	1000	35	3	1720	3	SMYD4	17	1703966	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1090141	1703966	79491244	395	29505										
GABARAP	11337	broad.mit.edu	37	chr17	7144663	7144663	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acttcccagtcaccatacctGgtacagctgacccattgtgg	8	14	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:7144663G>T	uc002gfb.2	-	3	390	c.286C>A	c.(286-288)CAG>AAG	p.Q96K	PHF23_uc002gfa.2_5'Flank|PHF23_uc010vtt.1_5'Flank|PHF23_uc010cma.2_5'Flank	NM_007278	NP_009209	O95166	GBRAP_HUMAN	GABA(A) receptor-associated protein	96	Interaction with GPHN (By similarity).				protein targeting|synaptic transmission	autophagic vacuole membrane|Golgi membrane|microtubule|plasma membrane	beta-tubulin binding|GABA receptor binding				0						CACCATACCTGGTACAGCTGA	0.488													10	339	---	---	---	---	PASS	T	7144663	T	T	7144663	3	4	77	1	0	0	0	0	1	0	0	0	6152	1357	47	3	75	3	GABARAP	17	7144663	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	5440697	7144663	74050547	396	29506										
EIF4A1	1973	broad.mit.edu	37	chr17	7481668	7481668	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cttgttttccagaatcggtcGaggtggacggtttggccgta	14	8	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:7481668G>T	uc002gho.1	+	19	2410	c.1085G>T	c.(1084-1086)CGA>CTA	p.R362L	EIF4A1_uc002ghr.1_Silent_p.S341S|EIF4A1_uc002ghq.1_Silent_p.S335S|EIF4A1_uc002ghp.1_Missense_Mutation_p.R362L|CD68_uc002ghv.2_5'Flank|CD68_uc002ghu.2_5'Flank	NM_001416	NP_001407	P60842	IF4A1_HUMAN	eukaryotic translation initiation factor 4A	362	Helicase C-terminal.				nuclear-transcribed mRNA poly(A) tail shortening	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA cap binding|translation initiation factor activity			ovary(1)	1						AGAATCGGTCGAGGTGGACGG	0.507													4	58	---	---	---	---	PASS	T	7481668	T	T	7481668	3	4	77	1	0	0	0	0	1	0	0	0	5024	1058	37	2	1127	2	EIF4A1	17	7481668	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	337005	7481668	73713542	397	29507										
TP53	7157	broad.mit.edu	37	chr17	7579494	7579494	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gggagcagcctctggcattcTgggagcttcatctggacctg	14	11	4	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:7579494T>A	uc002gim.2	-	4	387	c.193A>T	c.(193-195)AGA>TGA	p.R65*	TP53_uc002gig.1_Nonsense_Mutation_p.R65*|TP53_uc002gih.2_Nonsense_Mutation_p.R65*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Nonsense_Mutation_p.R65*|TP53_uc010cni.1_Nonsense_Mutation_p.R65*|TP53_uc002gij.2_Nonsense_Mutation_p.R65*|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Nonsense_Mutation_p.R26*|TP53_uc010cnk.1_Nonsense_Mutation_p.R80*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	65	Interaction with HRMT1L2.		R -> T (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R65*(8)|p.0?(7)|p.G59fs*23(3)|p.264_265insSSGNL(1)|p.D48fs*55(1)|p.R65_P71delRMPEAAP(1)|p.P13fs*18(1)|p.R65fs*38(1)|p.D57_A76del20(1)|p.S33fs*23(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)		TCTGGCATTCTGGGAGCTTCA	0.617		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)			55	75	---	---	---	---	PASS	A	7579494	A	A	7579494	4	1	77	1	0	0	0	0	0	1	0	0	16378	1588	55	5	1109	5	TP53	17	7579494	Nonsense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	97826	7579494	73615716	398	29508										
PIK3R6	146850	broad.mit.edu	37	chr17	8738701	8738701	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggtgtctgctgcgcctgggcCgcctcgatctccagtagcag	14	14	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:8738701C>T	uc002glq.1	-	8	774	c.534G>A	c.(532-534)GCG>GCA	p.A178A	PIK3R6_uc002glr.1_RNA|PIK3R6_uc002gls.1_RNA	NM_001010855	NP_001010855	Q5UE93	PI3R6_HUMAN	phosphoinositide-3-kinase, regulatory subunit 6	178					platelet activation	cytosol					0						GCGCCTGGGCCGCCTCGATCT	0.652													8	17	---	---	---	---	PASS	T	8738701	T	T	8738701	2	4	77	1	0	0	0	0	0	0	0	1	11923	639	23	1		1	PIK3R6	17	8738701	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	1159207	8738701	72456509	399	29509										
MYH3	4621	broad.mit.edu	37	chr17	10542913	10542913	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgcttctccttctcaaccttGgccagggtcaactcaaggtc	8	14	4	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:10542913G>T	uc002gmq.1	-	22	2966	c.2889C>A	c.(2887-2889)GCC>GCA	p.A963A		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	963	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TCTCAACCTTGGCCAGGGTCA	0.433													40	78	---	---	---	---	PASS	T	10542913	T	T	10542913	2	4	77	1	0	0	0	0	0	0	0	1	10036	1335	47	3		3	MYH3	17	10542913	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	1804212	10542913	70652297	400	29510										
ELAC2	60528	broad.mit.edu	37	chr17	12897091	12897091	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tagcgctggctgaagtggttCagcataatgaactccgcgtt	12	9	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:12897091C>T	uc002gnz.3	-	23	2261	c.2166G>A	c.(2164-2166)CTG>CTA	p.L722L	ELAC2_uc002gnu.3_Silent_p.L119L|ELAC2_uc002gnv.3_Silent_p.L350L|ELAC2_uc002gnw.3_Silent_p.L378L|ELAC2_uc002gnx.3_Silent_p.L482L|ELAC2_uc010vvo.1_Silent_p.L520L|ELAC2_uc010vvp.1_Silent_p.L703L|ELAC2_uc010vvq.1_Silent_p.L721L|ELAC2_uc010vvr.1_Silent_p.L682L	NM_018127	NP_060597	Q9BQ52	RNZ2_HUMAN	elaC homolog 2 isoform 1	722					tRNA processing	nucleus	endonuclease activity|metal ion binding|protein binding				0						TGAAGTGGTTCAGCATAATGA	0.547									Hereditary_Prostate_Cancer				18	24	---	---	---	---	PASS	T	12897091	T	T	12897091	2	4	77	1	0	0	0	0	0	0	0	1	5047	813	29	2		2	ELAC2	17	12897091	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	2354178	12897091	68298119	401	29511										
FLCN	201163	broad.mit.edu	37	chr17	17127237	17127237	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acctcatctctgaattcaccTtgagcgccttgccctggagc	8	15	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:17127237T>C	uc002gra.3	-	6	1121	c.617A>G	c.(616-618)AAG>AGG	p.K206R	PLD6_uc010cpn.2_Intron|FLCN_uc002grb.3_Missense_Mutation_p.K206R	NM_144997	NP_659434	Q8NFG4	FLCN_HUMAN	folliculin isoform 1	206					regulation of protein phosphorylation	cytoplasm|nucleus|plasma membrane	protein binding			thyroid(1)|haematopoietic_and_lymphoid_tissue(1)|lung(1)	3						TGAATTCACCTTGAGCGCCTT	0.622									Birt-Hogg-Dub__syndrome|Familial_Non-VHL_Clear_Cell_Renal_Cancer				8	5	---	---	---	---	PASS	C	17127237	C	C	17127237	3	2	77	1	0	0	0	0	1	0	0	0	5921	1623	56	5	1316	5	FLCN	17	17127237	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	4230146	17127237	64067973	402	29512										
SHMT1	6470	broad.mit.edu	37	chr17	18250933	18250933	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	atgatgcgcccatggggttcCaccagggcagtgtacacagc	13	12	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:18250933C>A	uc002gta.2	-	5	586	c.396G>T	c.(394-396)GTG>GTT	p.V132V	SHMT1_uc002gtb.2_Silent_p.V132V|SHMT1_uc010cqb.2_Silent_p.V132V|SHMT1_uc010vxt.1_5'UTR|SHMT1_uc002gtd.1_Silent_p.V132V|SHMT1_uc010vxu.1_Silent_p.V132V	NM_004169	NP_004160	P34896	GLYC_HUMAN	serine hydroxymethyltransferase 1 (soluble)	132					carnitine biosynthetic process|folic acid metabolic process|L-serine catabolic process|one-carbon metabolic process|purine base biosynthetic process	cytosol|nucleus	glycine hydroxymethyltransferase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)	1					Glycine(DB00145)|Mimosine(DB01055)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CATGGGGTTCCACCAGGGCAG	0.552													31	22	---	---	---	---	PASS	A	18250933	A	A	18250933	2	1	77	1	0	0	0	0	0	0	0	1	14285	581	21	3		3	SHMT1	17	18250933	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	1123696	18250933	62944277	403	29513										
NEK8	284086	broad.mit.edu	37	chr17	27064326	27064326	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aacctggtgccttcacagaaCttgccagcactggtgctgaa	10	12	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:27064326C>G	uc002hcp.2	+	5	621	c.621C>G	c.(619-621)AAC>AAG	p.N207K		NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	207	Protein kinase.					cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					CTTCACAGAACTTGCCAGCAC	0.547													4	6	---	---	---	---	PASS	G	27064326	G	G	27064326	3	3	77	1	0	0	0	0	1	0	0	0	10330	564	20	4	639	4	NEK8	17	27064326	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	8813393	27064326	54130884	404	29514										
SRCIN1	80725	broad.mit.edu	37	chr17	36734771	36734771	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcatcctgtcctgctggcctCgcagggccagggcgtgctgt	15	14	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:36734771C>A	uc002hqd.2	-	2	521	c.296G>T	c.(295-297)CGA>CTA	p.R99L	SRCIN1_uc002hqh.1_Missense_Mutation_p.R133L	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						CTGCTGGCCTCGCAGGGCCAG	0.706													11	11	---	---	---	---	PASS	A	36734771	A	A	36734771	3	1	77	1	0	0	0	0	1	0	0	0	15135	884	31	2	3327	2	SRCIN1	17	36734771	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	9670445	36734771	44460439	405	29515										
KPNB1	3837	broad.mit.edu	37	chr17	45755688	45755688	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttacagtcagactatgacatGgtggattatctgaatgagct	10	6	2	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:45755688G>T	uc002ilt.1	+	19	2598	c.2262G>T	c.(2260-2262)ATG>ATT	p.M754I	KPNB1_uc010wkw.1_Missense_Mutation_p.M609I|KPNB1_uc010wkx.1_Missense_Mutation_p.M538I	NM_002265	NP_002256	Q14974	IMB1_HUMAN	karyopherin beta 1	754					DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|protein import into nucleus, translocation|ribosomal protein import into nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein domain specific binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						ACTATGACATGGTGGATTATC	0.438													6	54	---	---	---	---	PASS	T	45755688	T	T	45755688	3	4	77	1	0	0	0	0	1	0	0	0	8435	1348	47	3	2336	3	KPNB1	17	45755688	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	9020917	45755688	35439522	406	29516										
COL1A1	1277	broad.mit.edu	37	chr17	48278790	48278790	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	actgtcttcgtcttggccctCgacttggccttcctcttggc	9	15	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:48278790C>T	uc002iqm.2	-	1	211	c.85G>A	c.(85-87)GAG>AAG	p.E29K		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	29					axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	TCTTGGCCCTCGACTTGGCCT	0.587			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						8	22	---	---	---	---	PASS	T	48278790	T	T	48278790	3	4	77	1	0	0	0	0	1	0	0	0	3677	893	31	2	4513	2	COL1A1	17	48278790	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2523102	48278790	32916420	407	29517										
CA10	56934	broad.mit.edu	37	chr17	50008392	50008392	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cgaagaggtgtcagaaagggGtcgaagatcatgtgactggt	16	5	2	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:50008392G>T	uc002itw.3	-	3	1223	c.237C>A	c.(235-237)GAC>GAA	p.D79E	CA10_uc002itv.3_Missense_Mutation_p.D85E|CA10_uc002itx.3_Missense_Mutation_p.D79E|CA10_uc002ity.3_Missense_Mutation_p.D79E|CA10_uc002itz.2_Missense_Mutation_p.D79E	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	79					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			TCAGAAAGGGGTCGAAGATCA	0.498													32	72	---	---	---	---	PASS	T	50008392	T	T	50008392	3	4	77	1	0	0	0	0	1	0	0	0	2511	1252	44	3	777	3	CA10	17	50008392	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1729602	50008392	31186818	408	29518										
HLF	3131	broad.mit.edu	37	chr17	53392768	53392768	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	actgaagccacagcccatgaTcaagaaagctcgcaaagtct	8	12	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:53392768T>C	uc002iug.1	+	3	1157	c.632T>C	c.(631-633)ATC>ACC	p.I211T	HLF_uc010dce.1_Missense_Mutation_p.I126T|HLF_uc002iuh.2_Missense_Mutation_p.I126T|HLF_uc010wni.1_Missense_Mutation_p.I158T	NM_002126	NP_002117	Q16534	HLF_HUMAN	hepatic leukemia factor	211					multicellular organismal development|rhythmic process|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						CAGCCCATGATCAAGAAAGCT	0.493			T	TCF3	ALL								4	41	---	---	---	---	PASS	C	53392768	C	C	53392768	3	2	77	1	0	0	0	0	1	0	0	0	7214	1435	50	5	642	5	HLF	17	53392768	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	3384376	53392768	27802442	409	29519										
APPBP2	10513	broad.mit.edu	37	chr17	58538126	58538126	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tatttttgccaccaaacactGactgtctaatgtcaagggct	7	10	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:58538126G>A	uc002iys.1	-	9	1247	c.959C>T	c.(958-960)TCA>TTA	p.S320L	APPBP2_uc010ddl.1_Missense_Mutation_p.S249L	NM_006380	NP_006371	Q92624	APBP2_HUMAN	amyloid beta precursor protein-binding protein	320	TPR 4.				intracellular protein transport	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|nucleus	microtubule motor activity|protein binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.67e-13)|all cancers(12;1.44e-11)|Colorectal(3;0.01)			ACCAAACACTGACTGTCTAAT	0.358													8	47	---	---	---	---	PASS	A	58538126	A	A	58538126	3	1	77	1	0	0	0	0	1	0	0	0	816	1294	45	2	818	2	APPBP2	17	58538126	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	5145358	58538126	22657084	410	29520										
GPRC5C	55890	broad.mit.edu	37	chr17	72443069	72443069	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtgccaactcgaccctgcggGctgaagacatgtactcggcc	12	14	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:72443069G>T	uc002jks.2	+	3	1267	c.1228G>T	c.(1228-1230)GCT>TCT	p.A410S	GPRC5C_uc002jkp.2_Missense_Mutation_p.A455S|GPRC5C_uc002jkq.2_3'UTR|GPRC5C_uc002jkr.2_Missense_Mutation_p.A422S|GPRC5C_uc002jkt.2_Missense_Mutation_p.A410S|GPRC5C_uc002jku.2_Missense_Mutation_p.A165S	NM_018653	NP_061123	Q9NQ84	GPC5C_HUMAN	G protein-coupled receptor family C, group 5,	410	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to plasma membrane	G-protein coupled receptor activity|protein binding			ovary(2)|prostate(1)|central_nervous_system(1)|pancreas(1)	5						GACCCTGCGGGCTGAAGACAT	0.607													8	45	---	---	---	---	PASS	T	72443069	T	T	72443069	3	4	77	1	0	0	0	0	1	0	0	0	6726	1203	42	3	1385	3	GPRC5C	17	72443069	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	13904943	72443069	8752141	411	29521										
GRIN2C	2905	broad.mit.edu	37	chr17	72840421	72840421	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gggtgggcacccaccctgctGaaagccagcaggaagtccag	14	13	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:72840421G>A	uc002jlt.1	-	12	2733	c.2577C>T	c.(2575-2577)TTC>TTT	p.F859F	GRIN2C_uc010wrh.1_RNA|GRIN2C_uc002jlu.1_Silent_p.F859F	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	859	Cytoplasmic (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	CCACCCTGCTGAAAGCCAGCA	0.617													10	40	---	---	---	---	PASS	A	72840421	A	A	72840421	2	1	77	1	0	0	0	0	0	0	0	1	6781	1281	45	2		2	GRIN2C	17	72840421	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	397352	72840421	8354789	412	29522										
UBE2O	63893	broad.mit.edu	37	chr17	74394450	74394450	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcgtaaacactcacatcttcCtcttctccaatcagctgtgg	5	14	5	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:74394450C>A	uc002jrm.3	-	12	1976	c.1911G>T	c.(1909-1911)GAG>GAT	p.E637D	UBE2O_uc002jrn.3_Missense_Mutation_p.E637D|UBE2O_uc002jrl.3_Missense_Mutation_p.E240D	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	637							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						TCACATCTTCCTCTTCTCCAA	0.547											OREG0024751	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	420	---	---	---	---	PASS	A	74394450	A	A	74394450	3	1	77	1	0	0	0	0	1	0	0	0	16865	680	24	3	1995	3	UBE2O	17	74394450	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1554029	74394450	6800760	413	29523										
ENGASE	64772	broad.mit.edu	37	chr17	77077136	77077136	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggcagctcaaatggcaagacGaactcaaccagcacaacagg	10	12	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:77077136G>A	uc002jwv.2	+	6	861	c.853G>A	c.(853-855)GAA>AAA	p.E285K	ENGASE_uc002jwu.1_Missense_Mutation_p.E285K|ENGASE_uc010wtz.1_Missense_Mutation_p.E99K|ENGASE_uc002jww.2_5'UTR	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	285						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						ATGGCAAGACGAACTCAACCA	0.652													5	11	---	---	---	---	PASS	A	77077136	A	A	77077136	3	1	77	1	0	0	0	0	1	0	0	0	5118	1059	37	2	875	2	ENGASE	17	77077136	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2682686	77077136	4118074	414	29524										
ENPP7	339221	broad.mit.edu	37	chr17	77707323	77707323	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caggcaaatatatcgagaacCacggggtggttcacaacatg	11	9	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr17:77707323C>G	uc002jxa.2	+	2	291	c.271C>G	c.(271-273)CAC>GAC	p.H91D		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	91					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			TATCGAGAACCACGGGGTGGT	0.617													33	98	---	---	---	---	PASS	G	77707323	G	G	77707323	3	3	77	1	0	0	0	0	1	0	0	0	5135	594	21	4	277	4	ENPP7	17	77707323	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	630187	77707323	3487887	415	29525										
MYOM1	8736	broad.mit.edu	37	chr18	3129295	3129295	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gaggagccgctttctgtggtGgcggggtaagctcttcctga	16	9	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr18:3129295G>T	uc002klp.2	-	18	3063	c.2729C>A	c.(2728-2730)CCA>CAA	p.P910Q	MYOM1_uc002klq.2_Intron	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	910						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						TTTCTGTGGTGGCGGGGTAAG	0.488											OREG0024838	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	91	---	---	---	---	PASS	T	3129295	T	T	3129295	3	4	77	1	0	0	0	0	1	0	0	0	10091	1348	47	3	2412	3	MYOM1	18	3129295	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08		3129295	74947953	416	29526										
MYOM1	8736	broad.mit.edu	37	chr18	3187488	3187488	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gataacataccacgtgacacGaggttctggccagcctgcta	10	12	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr18:3187488G>T	uc002klp.2	-	5	1253	c.919C>A	c.(919-921)CGT>AGT	p.R307S	MYOM1_uc002klq.2_Missense_Mutation_p.R307S	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	307	Ig-like C2-type 1.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						CACGTGACACGAGGTTCTGGC	0.438													8	247	---	---	---	---	PASS	T	3187488	T	T	3187488	3	4	77	1	0	0	0	0	1	0	0	0	10091	1058	37	2	4274	2	MYOM1	18	3187488	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	58193	3187488	74889760	417	29527										
AFG3L2	10939	broad.mit.edu	37	chr18	12358705	12358705	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cctaggtcttgatactgcttTgggtttttcaagaaattcac	8	8	3	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr18:12358705T>A	uc002kqz.1	-	8	1103	c.990A>T	c.(988-990)CCA>CCT	p.P330P		NM_006796	NP_006787	Q9Y4W6	AFG32_HUMAN	AFG3 ATPase family gene 3-like 2	330					cell death|protein catabolic process|proteolysis	integral to membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0					Adenosine triphosphate(DB00171)	GATACTGCTTTGGGTTTTTCA	0.353													6	55	---	---	---	---	PASS	A	12358705	A	A	12358705	2	1	77	1	0	0	0	0	0	0	0	1	360	1799	63	5		5	AFG3L2	18	12358705	Silent	SNP	T	TCGA-37-3789-01A-01D-0983-08	9171217	12358705	65718543	418	29528										
PSMA8	143471	broad.mit.edu	37	chr18	23731821	23731821	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aagttttgacaatttttataGgacttactgctgatgctaga	8	5	0	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr18:23731821G>T	uc002kvq.2	+	3	361	c.247G>T	c.(247-249)GGA>TGA	p.G83*	PSMA8_uc002kvo.2_Splice_Site_p.G39_splice|PSMA8_uc002kvp.2_Splice_Site_p.G77_splice|PSMA8_uc002kvr.2_Splice_Site_p.G51_splice	NM_144662	NP_653263	Q8TAA3	PSA7L_HUMAN	proteasome alpha 8 subunit isoform 1	83					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|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	threonine-type endopeptidase activity			skin(1)	1	all_cancers(21;0.000585)|Lung NSC(5;0.00148)|all_lung(6;0.0038)|Ovarian(20;0.124)		OV - Ovarian serous cystadenocarcinoma(3;0.000324)|all cancers(3;0.000954)|LUSC - Lung squamous cell carcinoma(2;0.181)			AATTTTTATAGGACTTACTGC	0.353													7	147	---	---	---	---	PASS	T	23731821	T	T	23731821	4	4	77	1	0	0	0	0	0	1	0	0	12673	1014	35	3	257	3	PSMA8	18	23731821	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	11373116	23731821	54345427	419	29529										
CHST9	83539	broad.mit.edu	37	chr18	24722673	24722673	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctgtatgttgttcttcaatcCagacttgcaaatacatgaag	7	8	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr18:24722673C>A	uc002kwd.2	-	1	299	c.101G>T	c.(100-102)TGG>TTG	p.W34L	C18orf16_uc010xbm.1_Intron|CHST9_uc002kwe.2_Missense_Mutation_p.W34L	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	34	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					TTCTTCAATCCAGACTTGCAA	0.348													7	120	---	---	---	---	PASS	A	24722673	A	A	24722673	3	1	77	1	0	0	0	0	1	0	0	0	3411	595	21	3	1250	3	CHST9	18	24722673	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	990852	24722673	53354575	420	29530										
TCEB3C	162699	broad.mit.edu	37	chr18	44555132	44555132	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccagaacgggttcaagaaccGagtaggggaccccttccacg	12	13	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr18:44555132G>T	uc010xdb.1	-	1	1318	c.1082C>A	c.(1081-1083)TCG>TAG	p.S361*	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	361	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						TTCAAGAACCGAGTAGGGGAC	0.627													10	453	---	---	---	---	PASS	T	44555132	T	T	44555132	4	4	77	1	0	0	0	0	0	1	0	0	15680	1059	37	2	2205	2	TCEB3C	18	44555132	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	19832459	44555132	33522116	421	29531										
ALPK2	115701	broad.mit.edu	37	chr18	56202524	56202524	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccccaatttgaagcacctctAttttaggttcctccattttg	5	12	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr18:56202524A>G	uc002lhj.3	-	5	5109	c.4895T>C	c.(4894-4896)ATA>ACA	p.I1632T	ALPK2_uc002lhk.1_Missense_Mutation_p.I963T	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1632							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						AAGCACCTCTATTTTAGGTTC	0.448													9	29	---	---	---	---	PASS	G	56202524	G	G	56202524	3	3	77	1	0	0	0	0	1	0	0	0	545	449	16	5	1653	5	ALPK2	18	56202524	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	11647392	56202524	21874724	422	29532										
PHLPP1	23239	broad.mit.edu	37	chr18	60563036	60563036	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tacagacatttttgttggatGgaaactttctccaatccctt	6	9	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr18:60563036G>T	uc002lis.2	+	7	878	c.700G>T	c.(700-702)GGA>TGA	p.G234*		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	746	LRR 5.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						TTTGTTGGATGGAAACTTTCT	0.328													5	63	---	---	---	---	PASS	T	60563036	T	T	60563036	4	4	77	1	0	0	0	0	0	1	0	0	11854	1349	47	3	2258	3	PHLPP1	18	60563036	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	4360512	60563036	17514212	423	29533										
GALR1	2587	broad.mit.edu	37	chr18	74962936	74962936	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtgcactcgcggcgctcctcCtccctcagggtgtcccgcaa	11	18	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr18:74962936C>A	uc002lms.3	+	1	929	c.432C>A	c.(430-432)TCC>TCA	p.S144S		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	144	Cytoplasmic (Potential).				digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		GGCGCTCCTCCTCCCTCAGGG	0.667													12	18	---	---	---	---	PASS	A	74962936	A	A	74962936	2	1	77	1	0	0	0	0	0	0	0	1	6227	668	24	3		3	GALR1	18	74962936	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	14399900	74962936	3114312	424	29534										
SALL3	27164	broad.mit.edu	37	chr18	76753968	76753968	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctagactcgatgcaaacgtcGgaaacctcgaagctgcagca	10	12	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr18:76753968G>A	uc002lmt.2	+	2	1977	c.1977G>A	c.(1975-1977)TCG>TCA	p.S659S	SALL3_uc010dra.2_Silent_p.S266S	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	659					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		TGCAAACGTCGGAAACCTCGA	0.647													11	11	---	---	---	---	PASS	A	76753968	A	A	76753968	2	1	77	1	0	0	0	0	0	0	0	1	13812	1103	39	1		1	SALL3	18	76753968	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	1791032	76753968	1323280	425	29535										
CIRBP	1153	broad.mit.edu	37	chr19	1271623	1271623	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tacggaggctccagagactaCtatagcaggtgagggggagg	17	7	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:1271623C>A	uc002lrr.3	+	5	572	c.423C>A	c.(421-423)TAC>TAA	p.Y141*	C19orf23_uc010xgk.1_5'Flank|CIRBP_uc010dsg.1_Nonsense_Mutation_p.Y130*|CIRBP_uc002lrt.2_Nonsense_Mutation_p.Y141*|CIRBP_uc010xgl.1_Nonsense_Mutation_p.Y107*|CIRBP_uc002lrv.3_Nonsense_Mutation_p.Y141*|CIRBP_uc002lru.2_RNA	NM_001280	NP_001271	Q14011	CIRBP_HUMAN	cold inducible RNA binding protein	141	Gly-rich.				mRNA stabilization|positive regulation of translation|response to cold|response to UV|stress granule assembly	nucleoplasm|stress granule	mRNA 3'-UTR binding|nucleotide binding|protein binding|SSU rRNA binding|translation repressor activity				0		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000332)|all_lung(49;0.000498)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGAGACTACTATAGCAGGT	0.642													3	8	---	---	---	---	PASS	A	1271623	A	A	1271623	4	1	77	1	0	0	0	0	0	1	0	0	3433	576	20	3	437	3	CIRBP	19	1271623	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08		1271623	57857360	426	29536										
TJP3	27134	broad.mit.edu	37	chr19	3738570	3738570	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	caggtgaatgacgtgccattCcagaacctgacacgggagga	13	10	0	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:3738570C>G	uc010xhv.1	+	11	1401	c.1401C>G	c.(1399-1401)TTC>TTG	p.F467L	TJP3_uc010xhs.1_Missense_Mutation_p.F434L|TJP3_uc010xht.1_Missense_Mutation_p.F398L|TJP3_uc010xhu.1_Missense_Mutation_p.F443L|TJP3_uc010xhw.1_Missense_Mutation_p.F453L	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	448	PDZ 3.					tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGTGCCATTCCAGAACCTGA	0.577													28	47	---	---	---	---	PASS	G	3738570	G	G	3738570	3	3	77	1	0	0	0	0	1	0	0	0	15928	854	30	2	1443	2	TJP3	19	3738570	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2466947	3738570	55390413	427	29537										
TJP3	27134	broad.mit.edu	37	chr19	3738989	3738989	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccaccgtctggcctgggcttCacccgtggcgacgtcttcca	11	17	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:3738989C>T	uc010xhv.1	+	12	1587	c.1587C>T	c.(1585-1587)TTC>TTT	p.F529F	TJP3_uc010xhs.1_Silent_p.F496F|TJP3_uc010xht.1_Silent_p.F460F|TJP3_uc010xhu.1_Silent_p.F505F|TJP3_uc010xhw.1_Silent_p.F515F	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	510	SH3.					tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCTGGGCTTCACCCGTGGCG	0.662													18	16	---	---	---	---	PASS	T	3738989	T	T	3738989	2	4	77	1	0	0	0	0	0	0	0	1	15928	825	29	2		2	TJP3	19	3738989	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	419	3738989	55389994	428	29538										
KIAA1543	57662	broad.mit.edu	37	chr19	7675643	7675643	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gttttgaggtgctcaagcccGactttgtgcaagtgaaggac	13	8	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:7675643G>T	uc002mgv.3	+	7	1059	c.958G>T	c.(958-960)GAC>TAC	p.D320Y	KIAA1543_uc002mgu.3_Missense_Mutation_p.D347Y	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	320					epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						GCTCAAGCCCGACTTTGTGCA	0.667													6	87	---	---	---	---	PASS	T	7675643	T	T	7675643	3	4	77	1	0	0	0	0	1	0	0	0	8243	1058	37	2	1073	2	KIAA1543	19	7675643	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3936654	7675643	51453340	429	29539										
ZNF559	84527	broad.mit.edu	37	chr19	9449884	9449884	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tttaggactcagtgacctttGaggatgtggctgtggacttc	13	7	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:9449884G>C	uc002mlg.2	+	5	696	c.49G>C	c.(49-51)GAG>CAG	p.E17Q	ZNF559_uc002mlf.2_5'UTR|ZNF559_uc010dwl.1_5'UTR|ZNF559_uc010xkn.1_Intron|ZNF559_uc010dwm.1_Missense_Mutation_p.E17Q|ZNF559_uc002mle.3_Missense_Mutation_p.E81Q|ZNF559_uc010dwk.1_5'UTR|ZNF559_uc002mld.2_Missense_Mutation_p.E81Q|ZNF559_uc010dwo.1_Missense_Mutation_p.E45Q|ZNF559_uc002mlh.1_RNA|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	17	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGTGACCTTTGAGGATGTGGC	0.478													4	59	---	---	---	---	PASS	C	9449884	C	C	9449884	3	2	77	1	0	0	0	0	1	0	0	0	17987	1291	45	2	55	2	ZNF559	19	9449884	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1774241	9449884	49679099	430	29540										
ZSWIM4	65249	broad.mit.edu	37	chr19	13941475	13941475	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gccactccctgggccggcacGagctctctgccatcgtcccc	10	20	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:13941475G>T	uc002mxh.1	+	13	2770	c.2581G>T	c.(2581-2583)GAG>TAG	p.E861*	ZSWIM4_uc010xng.1_Nonsense_Mutation_p.E784*	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	861							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			GGGCCGGCACGAGCTCTCTGC	0.657													5	118	---	---	---	---	PASS	T	13941475	T	T	13941475	4	4	77	1	0	0	0	0	0	1	0	0	18240	1059	37	2	2631	2	ZSWIM4	19	13941475	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	4491591	13941475	45187508	431	29541										
RLN3	117579	broad.mit.edu	37	chr19	14141522	14141522	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	actctgttcatcttttgcagGagataccttcccggatgcag	9	11	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:14141522G>T	uc002mxw.1	+	2	191	c.191G>T	c.(190-192)GGA>GTA	p.G64V	IL27RA_uc002mxx.2_5'Flank|RLN3_uc010dzj.1_Missense_Mutation_p.E101D	NM_080864	NP_543140	Q8WXF3	REL3_HUMAN	relaxin 3 preproprotein	64						extracellular region	hormone activity				0						TCTTTTGCAGGAGATACCTTC	0.567													6	81	---	---	---	---	PASS	T	14141522	T	T	14141522	3	4	77	1	0	0	0	0	1	0	0	0	13393	1188	41	2	197	2	RLN3	19	14141522	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	200047	14141522	44987461	432	29542										
BRD4	23476	broad.mit.edu	37	chr19	15349944	15349944	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gccttcagggccttctcacgCtcctctttctcccgagcggc	9	18	4	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:15349944C>A	uc002nar.2	-	18	3930	c.3708G>T	c.(3706-3708)GAG>GAT	p.E1236D		NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	1236					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			CCTTCTCACGCTCCTCTTTCT	0.662			T	NUT|C15orf55	lethal midline carcinoma of young people								5	13	---	---	---	---	PASS	A	15349944	A	A	15349944	3	1	77	1	0	0	0	0	1	0	0	0	1504	796	28	3	392	3	BRD4	19	15349944	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1208422	15349944	43779039	433	29543										
TMEM38A	79041	broad.mit.edu	37	chr19	16791207	16791207	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcactgttctctccccaaaaGgtacttgattttcttctgcc	5	13	4	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:16791207G>T	uc002nes.2	+	3	373	c.282_splice	c.e3-1	p.W94_splice		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A							integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3						CTCCCCAAAAGGTACTTGATT	0.547													10	330	---	---	---	---	PASS	T	16791207	T	T	16791207	5	4	77	1	0	0	0	0	0	0	1	0	16156	1014	35	3	291	3	TMEM38A	19	16791207	Splice_Site	SNP	G	TCGA-37-3789-01A-01D-0983-08	1441263	16791207	42337776	434	29544										
ZNF85	7639	broad.mit.edu	37	chr19	21132556	21132556	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcttttaaacactcttcaacCcttactaaacataagataat	2	10	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:21132556C>A	uc002npg.3	+	4	1363	c.1236C>A	c.(1234-1236)ACC>ACA	p.T412T	ZNF85_uc010ecn.2_Silent_p.T347T|ZNF85_uc010eco.2_Silent_p.T360T|ZNF85_uc002npi.2_Silent_p.T353T	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	412	C2H2-type 10.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						ACTCTTCAACCCTTACTAAAC	0.308													5	13	---	---	---	---	PASS	A	21132556	A	A	21132556	2	1	77	1	0	0	0	0	0	0	0	1	18190	610	22	3		3	ZNF85	19	21132556	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	4341349	21132556	37996427	435	29545										
ZNF43	7594	broad.mit.edu	37	chr19	21990893	21990893	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cacattcttcacatttgtagGgtttctcctcagtgtgaatt	7	9	4	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:21990893G>C	uc002nqj.2	-	4	2076	c.1946C>G	c.(1945-1947)CCC>CGC	p.P649R	ZNF43_uc010ecv.2_Missense_Mutation_p.P643R|ZNF43_uc002nql.2_Missense_Mutation_p.P643R|ZNF43_uc002nqm.2_Missense_Mutation_p.P643R|ZNF43_uc002nqk.2_Missense_Mutation_p.P579R	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	649					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		ACATTTGTAGGGTTTCTCCTC	0.373													4	19	---	---	---	---	PASS	C	21990893	C	C	21990893	3	2	77	1	0	0	0	0	1	0	0	0	17900	1232	43	4	487	4	ZNF43	19	21990893	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	858337	21990893	37138090	436	29546										
ZNF675	171392	broad.mit.edu	37	chr19	23836935	23836935	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtgtagtaaggtgtgaggacTggttaaaggctttgccacat	14	5	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:23836935T>A	uc002nri.2	-	4	982	c.800A>T	c.(799-801)CAG>CTG	p.Q267L		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	267	C2H2-type 5.				bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				GTGTGAGGACTGGTTAAAGGC	0.358													6	28	---	---	---	---	PASS	A	23836935	A	A	23836935	3	1	77	1	0	0	0	0	1	0	0	0	18079	1580	55	5	910	5	ZNF675	19	23836935	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	1846042	23836935	35292048	437	29547										
ZNF681	148213	broad.mit.edu	37	chr19	23927658	23927658	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gaactggttacaggctttgcCacattcttcacatatgtacg	8	10	2	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:23927658C>A	uc002nrk.3	-	4	836	c.694G>T	c.(694-696)GGC>TGC	p.G232C	ZNF681_uc002nrl.3_Missense_Mutation_p.G163C|ZNF681_uc002nrj.3_Missense_Mutation_p.G163C	NM_138286	NP_612143	Q96N22	ZN681_HUMAN	zinc finger protein 681	232	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				CAGGCTTTGCCACATTCTTCA	0.343													5	12	---	---	---	---	PASS	A	23927658	A	A	23927658	3	1	77	1	0	0	0	0	1	0	0	0	18085	594	21	3	1247	3	ZNF681	19	23927658	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	90723	23927658	35201325	438	29548										
KIAA0355	9710	broad.mit.edu	37	chr19	34818703	34818703	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agatagctctggaaagcttaGgacactgtgaatatgcaatg	11	6	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:34818703G>T	uc002nvd.3	+	5	1733	c.874G>T	c.(874-876)GGA>TGA	p.G292*		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	292										ovary(1)	1	Esophageal squamous(110;0.162)					GGAAAGCTTAGGACACTGTGA	0.383													6	85	---	---	---	---	PASS	T	34818703	T	T	34818703	4	4	77	1	0	0	0	0	0	1	0	0	8170	1001	35	3	888	3	KIAA0355	19	34818703	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	10891045	34818703	24310280	439	29549										
SCGBL	284402	broad.mit.edu	37	chr19	35085114	35085114	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gagcaaatctttctgtcacgGagacattggcaaagcattgc	10	9	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:35085114G>T	uc002nvn.2	-	2	234	c.212C>A	c.(211-213)TCC>TAC	p.S71Y		NM_001025591	NP_001020762	Q4G0G5	SCGBL_HUMAN	secretoglobin-like precursor	71						extracellular region	binding				0						TTCTGTCACGGAGACATTGGC	0.547													6	104	---	---	---	---	PASS	T	35085114	T	T	35085114	3	4	77	1	0	0	0	0	1	0	0	0	13902	1174	41	2	86	2	SCGBL	19	35085114	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	266411	35085114	24043869	440	29550										
LIN37	55957	broad.mit.edu	37	chr19	36245203	36245203	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tatcgcaacatgcagcgctgGaaacgcatccgccagaggtg	12	12	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:36245203G>C	uc002obm.2	+	9	756	c.642G>C	c.(640-642)TGG>TGC	p.W214C	uc002obl.2_5'Flank	NM_019104	NP_061977	Q96GY3	LIN37_HUMAN	lin-37 homolog	214							protein binding				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGCAGCGCTGGAAACGCATCC	0.637													23	103	---	---	---	---	PASS	C	36245203	C	C	36245203	3	2	77	1	0	0	0	0	1	0	0	0	8807	1183	41	2	672	2	LIN37	19	36245203	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1160089	36245203	22883780	441	29551										
NPHS1	4868	broad.mit.edu	37	chr19	36335228	36335228	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccacttccctcacctggactGaggcgatagccgcggaaggt	12	14	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:36335228G>C	uc002oby.2	-	15	2064	c.2064C>G	c.(2062-2064)CTC>CTG	p.L688L		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	688	Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CACCTGGACTGAGGCGATAGC	0.697													6	18	---	---	---	---	PASS	C	36335228	C	C	36335228	2	2	77	1	0	0	0	0	0	0	0	1	10582	1277	45	2		2	NPHS1	19	36335228	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	90025	36335228	22793755	442	29552										
ZFP14	57677	broad.mit.edu	37	chr19	36832139	36832139	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cttacacttataaggtttctCaccagtatgaattctcaggt	6	9	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:36832139C>T	uc002odx.1	-	4	682	c.589G>A	c.(589-591)GAG>AAG	p.E197K	ZFP14_uc010xtd.1_Missense_Mutation_p.E198K|ZFP14_uc010eex.1_Missense_Mutation_p.E197K	NM_020917	NP_065968	Q9HCL3	ZFP14_HUMAN	zinc finger protein 14-like	197					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.162)					TAAGGTTTCTCACCAGTATGA	0.428													23	78	---	---	---	---	PASS	T	36832139	T	T	36832139	3	4	77	1	0	0	0	0	1	0	0	0	17636	835	29	2	1016	2	ZFP14	19	36832139	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	496911	36832139	22296844	443	29553										
ZNF420	147923	broad.mit.edu	37	chr19	37619911	37619911	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagtgagaaatcttttgaatAtaaggaatgtgggattgact	11	3	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:37619911A>G	uc002ofl.2	+	5	2233	c.2018A>G	c.(2017-2019)TAT>TGT	p.Y673C		NM_144689	NP_653290	Q8TAQ5	ZN420_HUMAN	zinc finger protein 420	673					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCTTTTGAATATAAGGAATGT	0.378													11	36	---	---	---	---	PASS	G	37619911	G	G	37619911	3	3	77	1	0	0	0	0	1	0	0	0	17894	449	16	5	2028	5	ZNF420	19	37619911	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	787772	37619911	21509072	444	29554										
SUPT5H	6829	broad.mit.edu	37	chr19	39950220	39950220	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gatcccaatctgtggactgtCaaatgtaaggtatgtgctct	10	8	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:39950220C>G	uc002olo.3	+	9	725	c.546C>G	c.(544-546)GTC>GTG	p.V182V	SUPT5H_uc002olp.3_Silent_p.V182V|SUPT5H_uc002olq.3_Silent_p.V178V|SUPT5H_uc002oln.3_Silent_p.V182V|SUPT5H_uc002olr.3_Silent_p.V182V	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	182	Interaction with SUPT4H1.				cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			TGTGGACTGTCAAATGTAAGG	0.557													37	81	---	---	---	---	PASS	G	39950220	G	G	39950220	2	3	77	1	0	0	0	0	0	0	0	1	15396	813	29	2		2	SUPT5H	19	39950220	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	2330309	39950220	19178763	445	29555										
TEX101	83639	broad.mit.edu	37	chr19	43922125	43922125	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cctgtcccaatggtacaactCgatgctatcaaggaaaactt	7	11	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:43922125C>A	uc010xwo.1	+	5	682	c.487C>A	c.(487-489)CGA>AGA	p.R163R	TEX101_uc002owk.2_Silent_p.R181R	NM_001130011	NP_001123483	Q9BY14	TX101_HUMAN	testis expressed 101 isoform 2	163						anchored to membrane|plasma membrane				ovary(1)	1		Prostate(69;0.0199)				TGGTACAACTCGATGCTATCA	0.473													5	83	---	---	---	---	PASS	A	43922125	A	A	43922125	2	1	77	1	0	0	0	0	0	0	0	1	15770	876	31	2		2	TEX101	19	43922125	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	3971905	43922125	15206858	446	29556										
TEX101	83639	broad.mit.edu	37	chr19	43922432	43922432	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtgagggaagcgtgcccacaTcagctgctcactcaacctcg	11	14	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:43922432T>A	uc010xwo.1	+	6	828	c.633T>A	c.(631-633)CAT>CAA	p.H211Q	TEX101_uc002owk.2_Missense_Mutation_p.H229Q	NM_001130011	NP_001123483	Q9BY14	TX101_HUMAN	testis expressed 101 isoform 2	211						anchored to membrane|plasma membrane				ovary(1)	1		Prostate(69;0.0199)				CGTGCCCACATCAGCTGCTCA	0.532													29	64	---	---	---	---	PASS	A	43922432	A	A	43922432	3	1	77	1	0	0	0	0	1	0	0	0	15770	1432	50	5	709	5	TEX101	19	43922432	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	307	43922432	15206551	447	29557										
ZNF45	7596	broad.mit.edu	37	chr19	44418134	44418134	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tacagtgtacattaagatctGagctccgactgaagcccttc	8	11	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:44418134G>C	uc002oxu.1	-	4	1553	c.1454C>G	c.(1453-1455)TCA>TGA	p.S485*	ZNF45_uc002oxw.1_Nonsense_Mutation_p.S485*|ZNF45_uc002oxv.1_Nonsense_Mutation_p.S485*	NM_003425	NP_003416	Q02386	ZNF45_HUMAN	zinc finger protein 45	485	C2H2-type 12.				multicellular organismal development	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						ATTAAGATCTGAGCTCCGACT	0.502													11	36	---	---	---	---	PASS	C	44418134	C	C	44418134	4	2	77	1	0	0	0	0	0	1	0	0	17918	1294	45	2	598	2	ZNF45	19	44418134	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	495702	44418134	14710849	448	29558										
ZNF229	7772	broad.mit.edu	37	chr19	44934257	44934257	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cacggcttgtctatttcaggGaatctgtgatcaacatgaca	9	9	4	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:44934257G>A	uc002oze.1	-	6	1133	c.699C>T	c.(697-699)TTC>TTT	p.F233F	ZNF229_uc010ejk.1_5'UTR|ZNF229_uc010ejl.1_Silent_p.F227F	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	233					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				CTATTTCAGGGAATCTGTGAT	0.378													18	47	---	---	---	---	PASS	A	44934257	A	A	44934257	2	1	77	1	0	0	0	0	0	0	0	1	17779	1165	41	2		2	ZNF229	19	44934257	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	516123	44934257	14194726	449	29559										
PPP1R13L	10848	broad.mit.edu	37	chr19	45885827	45885827	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tagccctcctggccgtgcagCgcggcccaccaccagtcggt	12	18	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:45885827C>A	uc002pbn.2	-	12	2483	c.2406G>T	c.(2404-2406)GCG>GCT	p.A802A	PPP1R13L_uc002pbm.2_Silent_p.A381A|PPP1R13L_uc002pbo.2_Silent_p.A802A	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	802	SH3.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		GGCCGTGCAGCGCGGCCCACC	0.697													11	28	---	---	---	---	PASS	A	45885827	A	A	45885827	2	1	77	1	0	0	0	0	0	0	0	1	12358	755	27	1		1	PPP1R13L	19	45885827	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	951570	45885827	13243156	450	29560										
LIG1	3978	broad.mit.edu	37	chr19	48631193	48631193	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tttgcgggtggtgagcacttGgaatggctggatctgcttct	15	7	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:48631193G>T	uc002pia.1	-	20	2026	c.1906C>A	c.(1906-1908)CAA>AAA	p.Q636K	LIG1_uc010xze.1_Missense_Mutation_p.Q329K|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.Q568K|LIG1_uc010xzg.1_Missense_Mutation_p.Q605K	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	636					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	GTGAGCACTTGGAATGGCTGG	0.572								NER					8	181	---	---	---	---	PASS	T	48631193	T	T	48631193	3	4	77	1	0	0	0	0	1	0	0	0	8781	1357	47	3	889	3	LIG1	19	48631193	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2745366	48631193	10497790	451	29561										
HRC	3270	broad.mit.edu	37	chr19	49657014	49657014	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tttcatcgtcttcctcatggGagccggggtcctcttccttc	9	14	4	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:49657014G>C	uc002pmv.2	-	1	1668	c.1481C>G	c.(1480-1482)TCC>TGC	p.S494C		NM_002152	NP_002143	P23327	SRCH_HUMAN	histidine rich calcium binding protein	494					muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			ovary(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		TTCCTCATGGGAGCCGGGGTC	0.547													8	53	---	---	---	---	PASS	C	49657014	C	C	49657014	3	2	77	1	0	0	0	0	1	0	0	0	7352	1174	41	2	642	2	HRC	19	49657014	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1025821	49657014	9471969	452	29562										
ETFB	2109	broad.mit.edu	37	chr19	51857558	51857558	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cggtcctgtcaggcttcactCggatctgcccagcaggaggg	14	13	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:51857558C>A	uc002pwh.2	-	2	154	c.62G>T	c.(61-63)CGA>CTA	p.R21L	ETFB_uc002pwg.2_Missense_Mutation_p.R112L	NM_001985	NP_001976	P38117	ETFB_HUMAN	electron-transfer-flavoprotein, beta polypeptide	21					respiratory electron transport chain|transport	mitochondrial matrix	electron carrier activity				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000226)|OV - Ovarian serous cystadenocarcinoma(262;0.00661)		AGGCTTCACTCGGATCTGCCC	0.532													4	58	---	---	---	---	PASS	A	51857558	A	A	51857558	3	1	77	1	0	0	0	0	1	0	0	0	5270	884	31	2	725	2	ETFB	19	51857558	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2200544	51857558	7271425	453	29563										
ZNF28	7576	broad.mit.edu	37	chr19	53302992	53302992	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tggtatacaaggtttgacatCtgactgaaggtcttgccaca	10	8	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:53302992C>A	uc002qad.2	-	4	2226	c.2106G>T	c.(2104-2106)CAG>CAT	p.Q702H	ZNF28_uc002qac.2_Missense_Mutation_p.Q649H|ZNF28_uc010eqe.2_Missense_Mutation_p.Q648H	NM_006969	NP_008900	P17035	ZNF28_HUMAN	zinc finger protein 28	702	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)		GGTTTGACATCTGACTGAAGG	0.413													18	40	---	---	---	---	PASS	A	53302992	A	A	53302992	3	1	77	1	0	0	0	0	1	0	0	0	17810	912	32	2	54	2	ZNF28	19	53302992	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	1445434	53302992	5825991	454	29564										
ZNF160	90338	broad.mit.edu	37	chr19	53571486	53571486	+	Frame_Shift_Del	DEL	C	-	-													0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gatcttaccctaaaggctttCccacactctgtacacctgta							TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:53571486delC	uc010eqk.2	-	7	2717	c.2301delG	c.(2299-2301)GGGfs	p.G767fs	ZNF160_uc002qaq.3_Frame_Shift_Del_p.G767fs|ZNF160_uc002qar.3_Frame_Shift_Del_p.G767fs	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	767	C2H2-type 19.				hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		TAAAGGCTTTCCCACACTCTG	0.433													45	23	---	---	---	---		-	53571486	-	-	53571486	7	5	77	1	0	1	0	1	0	0	0	0	17736	842	30	0	159	0	ZNF160	19	53571486	Frame_Shift_Del	DEL	C	TCGA-37-3789-01A-01D-0983-08	268494	53571486	5557497	455	29565										
KIR2DS4	3809	broad.mit.edu	37	chr19	55349259	55349259	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccttgcaggaacctacagatGctacggttctgttcctcact	8	13	2	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:55349259G>A	uc002qhm.1	+	3	345	c.299G>A	c.(298-300)TGC>TAC	p.C100Y	KIR2DS4_uc010yfj.1_Missense_Mutation_p.C93Y|KIR2DS4_uc010yfk.1_RNA|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_Missense_Mutation_p.C100Y|KIR2DS4_uc002qhn.1_Missense_Mutation_p.C47Y	NM_012314	NP_036446	P43632	KI2S4_HUMAN	killer cell immunoglobulin-like receptor, two	100	Extracellular (Potential).|Ig-like C2-type 1.					integral to plasma membrane	receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		ACCTACAGATGCTACGGTTCT	0.507													73	252	---	---	---	---	PASS	A	55349259	A	A	55349259	3	1	77	1	0	0	0	0	1	0	0	0	8319	1319	46	3	309	3	KIR2DS4	19	55349259	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1777773	55349259	3779724	456	29566										
NLRP4	147945	broad.mit.edu	37	chr19	56370258	56370258	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcacattggatttttttggGgtgttttctaactggccttt	10	6	1	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:56370258G>T	uc002qmd.3	+	3	1921	c.1499G>T	c.(1498-1500)GGG>GTG	p.G500V	NLRP4_uc002qmf.2_Missense_Mutation_p.G425V|NLRP4_uc010etf.2_Missense_Mutation_p.G331V	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	500							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)		ATTTTTTTGGGGTGTTTTCTA	0.408													48	75	---	---	---	---	PASS	T	56370258	T	T	56370258	3	4	77	1	0	0	0	0	1	0	0	0	10479	1232	43	3	1505	3	NLRP4	19	56370258	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1020999	56370258	2758725	457	29567										
NLRP4	147945	broad.mit.edu	37	chr19	56390162	56390162	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgtgtctttttattgcaggtTggaagaatgtgggttaacga	13	3	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr19:56390162T>G	uc002qmd.3	+	9	3121	c.2699T>G	c.(2698-2700)TTG>TGG	p.L900W	NLRP4_uc002qmf.2_Missense_Mutation_p.L825W|NLRP4_uc010etf.2_Missense_Mutation_p.L675W	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	900							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)		TATTGCAGGTTGGAAGAATGT	0.532													9	18	---	---	---	---	PASS	G	56390162	G	G	56390162	3	3	77	1	0	0	0	0	1	0	0	0	10479	1821	63	5	2729	5	NLRP4	19	56390162	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	19904	56390162	2738821	458	29568										
ESF1	51575	broad.mit.edu	37	chr20	13756704	13756704	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	actatcctcatcttcatcctCctcttcatcttcatcctcct	0	18	7	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:13756704C>A	uc002woj.2	-	3	958	c.850G>T	c.(850-852)GAG>TAG	p.E284*	ESF1_uc002wok.1_Nonsense_Mutation_p.E284*	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	284	Asp-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						tcttcatcctcctcttcatct	0.229													13	30	---	---	---	---	PASS	A	13756704	A	A	13756704	4	1	77	1	0	0	0	0	0	1	0	0	5251	864	30	2	1753	2	ESF1	20	13756704	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08		13756704	49268816	459	29569										
PCSK2	5126	broad.mit.edu	37	chr20	17208026	17208026	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcatggtttttgcatctgctGagcgaccggtcttcacgaat	10	10	4	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:17208026G>C	uc002wpm.2	+	1	396	c.76G>C	c.(76-78)GAG>CAG	p.E26Q	PCSK2_uc002wpl.2_Missense_Mutation_p.E7Q|PCSK2_uc010zrm.1_Missense_Mutation_p.E26Q	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	26					enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TGCATCTGCTGAGCGACCGGT	0.527													17	64	---	---	---	---	PASS	C	17208026	C	C	17208026	3	2	77	1	0	0	0	0	1	0	0	0	11601	1291	45	2	78	2	PCSK2	20	17208026	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	3451322	17208026	45817494	460	29570										
SUN5	140732	broad.mit.edu	37	chr20	31577469	31577469	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggcttttcgatgtaatctccGtgtatcatcttcattatttt	6	8	4	0	rs150666576		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:31577469G>T	uc002wyi.2	-	9	663	c.570C>A	c.(568-570)CAC>CAA	p.H190Q		NM_080675	NP_542406	Q8TC36	SUN5_HUMAN	sperm associated antigen 4-like	190					spermatogenesis					skin(1)	1						TGTAATCTCCGTGTATCATCT	0.488													14	43	---	---	---	---	PASS	T	31577469	T	T	31577469	3	4	77	1	0	0	0	0	1	0	0	0	15391	1136	40	1	589	1	SUN5	20	31577469	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	14369443	31577469	31448051	461	29571										
CDK5RAP1	51654	broad.mit.edu	37	chr20	31967387	31967387	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccttgcttggttttatagttGgtggtaaagccacgactgag	12	7	0	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:31967387G>T	uc010gek.2	-	9	1153	c.1029C>A	c.(1027-1029)ACC>ACA	p.T343T	CDK5RAP1_uc002wyy.2_Silent_p.T239T|CDK5RAP1_uc002wyz.2_Silent_p.T329T|CDK5RAP1_uc002wza.2_Silent_p.T329T|CDK5RAP1_uc010gel.2_Silent_p.T238T|CDK5RAP1_uc010gem.2_Intron|CDK5RAP1_uc002wzc.1_Silent_p.T329T	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	343					brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5						TTTTATAGTTGGTGGTAAAGC	0.463													5	46	---	---	---	---	PASS	T	31967387	T	T	31967387	2	4	77	1	0	0	0	0	0	0	0	1	3145	1335	47	3		3	CDK5RAP1	20	31967387	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	389918	31967387	31058133	462	29572										
CHMP4B	128866	broad.mit.edu	37	chr20	32399279	32399279	+	Frame_Shift_Del	DEL	C	-	-													0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcggcgagcagcaaccatgtCggtgttcgggaagctgttcg							TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:32399279delC	uc002xaa.2	+	1	161	c.5delC	c.(4-6)TCGfs	p.S2fs		NM_176812	NP_789782	Q9H444	CHM4B_HUMAN	chromatin modifying protein 4B	2					cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			ovary(1)|central_nervous_system(1)	2						GCAACCATGTCGGTGTTCGGG	0.403													4	2	---	---	---	---		-	32399279	-	-	32399279	7	5	77	1	0	1	0	1	0	0	0	0	3357	893	31	0	7	0	CHMP4B	20	32399279	Frame_Shift_Del	DEL	C	TCGA-37-3789-01A-01D-0983-08	431892	32399279	30626241	463	29573										
PHF20	51230	broad.mit.edu	37	chr20	34459591	34459591	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggtcagttgaagtctgctttGgaagctggccaggtctcatc	13	9	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:34459591G>T	uc002xek.1	+	9	1233	c.1122G>T	c.(1120-1122)TTG>TTT	p.L374F	PHF20_uc002xei.1_Missense_Mutation_p.L374F|PHF20_uc010gfo.1_Missense_Mutation_p.L374F|PHF20_uc002xej.1_Missense_Mutation_p.L258F	NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	374					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					AGTCTGCTTTGGAAGCTGGCC	0.448													6	107	---	---	---	---	PASS	T	34459591	T	T	34459591	3	4	77	1	0	0	0	0	1	0	0	0	11831	1339	47	3	1152	3	PHF20	20	34459591	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2060312	34459591	28565929	464	29574										
C20orf24	55969	broad.mit.edu	37	chr20	35240420	35240420	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gtctcctcactaggtcatttGgatcatcttttacactgcca	6	12	5	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:35240420G>T	uc002xfq.2	+	4	544	c.356G>T	c.(355-357)TGG>TTG	p.W119L	C20orf24_uc002xfo.2_Missense_Mutation_p.W145L|C20orf24_uc002xfp.2_3'UTR|C20orf24_uc002xft.2_RNA|C20orf24_uc002xfr.2_Nonsense_Mutation_p.G76*|C20orf24_uc002xfs.2_Missense_Mutation_p.L128F	NM_018840	NP_061328	Q9BUV8	CT024_HUMAN	RAB5-interacting protein isoform a	119				LFMVCVADSFTTGHLDHLLHCHPL -> IVHGHLLLLFTSH PYSMMVSDSK (in Ref. 6; AAB50849).			protein binding				0	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				TAGGTCATTTGGATCATCTTT	0.463													8	209	---	---	---	---	PASS	T	35240420	T	T	35240420	3	4	77	1	0	0	0	0	1	0	0	0	2105	1358	47	3	370	3	C20orf24	20	35240420	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	780829	35240420	27785100	465	29575										
C20orf117	140710	broad.mit.edu	37	chr20	35443568	35443568	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcttttgccagaagaatctcCttagagagcccctgggagcc	10	12	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:35443568C>A	uc002xgd.1	-	5	1890	c.1563G>T	c.(1561-1563)AAG>AAT	p.K521N	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	521											0		Myeloproliferative disorder(115;0.00874)				GAAGAATCTCCTTAGAGAGCC	0.463													8	150	---	---	---	---	PASS	A	35443568	A	A	35443568	3	1	77	1	0	0	0	0	1	0	0	0	2083	680	24	3	2814	3	C20orf117	20	35443568	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	203148	35443568	27581952	466	29576										
SEMG2	6407	broad.mit.edu	37	chr20	43851673	43851673	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ccataaggaaaataaaatgtCataccaatcttcaagtacag	5	8	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:43851673C>A	uc010ggz.2	+	2	1457	c.1400C>A	c.(1399-1401)TCA>TAA	p.S467*	SEMG2_uc002xnk.2_Nonsense_Mutation_p.S467*|SEMG2_uc002xnl.2_Intron	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	467	Repeat-rich region.|4 X 60 AA tandem repeats, type I.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				AATAAAATGTCATACCAATCT	0.368													24	37	---	---	---	---	PASS	A	43851673	A	A	43851673	4	1	77	1	0	0	0	0	0	1	0	0	14045	838	29	2	1406	2	SEMG2	20	43851673	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	8408105	43851673	19173847	467	29577										
ZSWIM3	140831	broad.mit.edu	37	chr20	44505923	44505923	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gctttcttggtggagaacaaGgaacgagaaagtcgagtggt	15	5	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:44505923G>T	uc002xqd.2	+	2	929	c.726G>T	c.(724-726)AAG>AAT	p.K242N	ZSWIM3_uc010zxg.1_Missense_Mutation_p.K236N	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	242							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				TGGAGAACAAGGAACGAGAAA	0.527													6	70	---	---	---	---	PASS	T	44505923	T	T	44505923	3	4	77	1	0	0	0	0	1	0	0	0	18239	991	35	3	732	3	ZSWIM3	20	44505923	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	654250	44505923	18519597	468	29578										
ZNF335	63925	broad.mit.edu	37	chr20	44586512	44586512	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tggcgccgcccagggtgtcaGaacagagcaatgagggagcc	16	11	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:44586512G>C	uc002xqw.2	-	16	2432	c.2309C>G	c.(2308-2310)TCT>TGT	p.S770C	ZNF335_uc010zxk.1_Missense_Mutation_p.S615C	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	770					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				CAGGGTGTCAGAACAGAGCAA	0.597													22	63	---	---	---	---	PASS	C	44586512	C	C	44586512	3	2	77	1	0	0	0	0	1	0	0	0	17849	942	33	2	1771	2	ZNF335	20	44586512	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	80589	44586512	18439008	469	29579										
SLC13A3	64849	broad.mit.edu	37	chr20	45192078	45192078	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctttgaccagcaagtgtccaGaggcgaaggcgatggagttg	15	8	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:45192078G>T	uc002xsf.1	-	12	1645	c.1607C>A	c.(1606-1608)TCT>TAT	p.S536Y	SLC13A3_uc010ghn.1_Missense_Mutation_p.S505Y|SLC13A3_uc010zxw.1_Missense_Mutation_p.S486Y|SLC13A3_uc002xsg.1_Missense_Mutation_p.S489Y|SLC13A3_uc010gho.1_Missense_Mutation_p.S454Y|SLC13A3_uc010zxx.1_Missense_Mutation_p.S438Y|SLC13A3_uc002xse.1_Missense_Mutation_p.S27Y|SLC13A3_uc010ghm.1_Missense_Mutation_p.S123Y|SLC13A3_uc010zxv.1_Missense_Mutation_p.S121Y	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	536	Cytoplasmic (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	CAAGTGTCCAGAGGCGAAGGC	0.622													5	38	---	---	---	---	PASS	T	45192078	T	T	45192078	3	4	77	1	0	0	0	0	1	0	0	0	14393	942	33	2	209	2	SLC13A3	20	45192078	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	605566	45192078	17833442	470	29580										
KCNG1	3755	broad.mit.edu	37	chr20	49626715	49626715	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggtcctcgggctgacagcccTggcggggctcatcctgcggc	16	15	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:49626715T>A	uc002xwa.3	-	2	456	c.161A>T	c.(160-162)CAG>CTG	p.Q54L	KCNG1_uc002xwb.2_Missense_Mutation_p.Q54L	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	54	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						CTGACAGCCCTGGCGGGGCTC	0.706													7	8	---	---	---	---	PASS	A	49626715	A	A	49626715	3	1	77	1	0	0	0	0	1	0	0	0	8027	1580	55	5	1388	5	KCNG1	20	49626715	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08	4434637	49626715	13398805	471	29581										
RAE1	8480	broad.mit.edu	37	chr20	55953067	55953067	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tggtgttttttgctctctttAgggacatgaattttataatc	8	5	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:55953067A>G	uc002xyg.2	+	12	1362	c.1021_splice	c.e12-2	p.G341_splice	RAE1_uc002xyh.2_Splice_Site_p.G341_splice|RAE1_uc002xyi.2_Splice_Site_p.G341_splice	NM_003610	NP_003601	P78406	RAE1L_HUMAN	RAE1 (RNA export 1, S.pombe) homolog						carbohydrate metabolic process|glucose transport|mRNA export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|cytoskeleton|nuclear outer membrane|nuclear pore	microtubule binding|RNA binding				0	Lung NSC(12;0.00263)|all_lung(29;0.00828)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;3.7e-14)|Epithelial(14;1.07e-09)|all cancers(14;1.11e-08)			TGCTCTCTTTAGGGACATGAA	0.373													11	33	---	---	---	---	PASS	G	55953067	G	G	55953067	5	3	77	1	0	0	0	0	0	0	1	0	12998	434	15	5	1061	5	RAE1	20	55953067	Splice_Site	SNP	A	TCGA-37-3789-01A-01D-0983-08	6326352	55953067	7072453	472	29582										
PHACTR3	116154	broad.mit.edu	37	chr20	58322835	58322835	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctggagaagaagatggccggCaggcaaggccgagaggagct	18	8	0	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:58322835C>A	uc002yau.2	+	3	770	c.303C>A	c.(301-303)GGC>GGA	p.G101G	PHACTR3_uc002yat.2_Silent_p.G98G|PHACTR3_uc010zzw.1_Silent_p.G60G|PHACTR3_uc002yav.2_Silent_p.G60G|PHACTR3_uc002yaw.2_Silent_p.G60G|PHACTR3_uc002yax.2_Silent_p.G60G	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	101	RPEL 1.					nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			AGATGGCCGGCAGGCAAGGCC	0.607													45	61	---	---	---	---	PASS	A	58322835	A	A	58322835	2	1	77	1	0	0	0	0	0	0	0	1	11811	697	25	3		3	PHACTR3	20	58322835	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	2369768	58322835	4702685	473	29583										
TAF4	6874	broad.mit.edu	37	chr20	60582658	60582658	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aattaagttctcggtataacCtgcttgtgaaatcttctgct	7	8	3	1	rs149456775		TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr20:60582658C>A	uc002ybs.2	-	6	1919	c.1919G>T	c.(1918-1920)AGG>ATG	p.R640M		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	640	TAFH.				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)			TCGGTATAACCTGCTTGTGAA	0.438													9	199	---	---	---	---	PASS	A	60582658	A	A	60582658	3	1	77	1	0	0	0	0	1	0	0	0	15523	681	24	3	1378	3	TAF4	20	60582658	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	2259823	60582658	2442862	474	29584										
LIPI	149998	broad.mit.edu	37	chr21	15537643	15537643	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aggaaatgaaataaaattgcAgtttgtttctaaagatgcca	8	4	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr21:15537643A>T	uc002yjm.2	-	6	875	c.865T>A	c.(865-867)TGC>AGC	p.C289S	LIPI_uc010gkw.1_Missense_Mutation_p.C192S	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	268					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		ATAAAATTGCAGTTTGTTTCT	0.353													7	13	---	---	---	---	PASS	T	15537643	T	T	15537643	3	4	77	1	0	0	0	0	1	0	0	0	8825	188	7	5	600	5	LIPI	21	15537643	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08		15537643	32592252	475	29585										
RUNX1	861	broad.mit.edu	37	chr21	36252918	36252918	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acctggttcttcatggctgcGgtagcatttctcagctcagc	10	12	4	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr21:36252918G>A	uc002yuh.2	-	2	1941	c.363C>T	c.(361-363)ACC>ACT	p.T121T	RUNX1_uc002yui.2_Silent_p.T121T|RUNX1_uc010gmu.2_Silent_p.T148T|RUNX1_uc010gmv.2_Silent_p.T148T|RUNX1_uc002yuj.3_Silent_p.T16T|RUNX1_uc002yuk.3_Silent_p.T148T|RUNX1_uc002yum.1_Silent_p.T16T|RUNX1_uc010gmw.1_Silent_p.T148T|RUNX1_uc002yuo.1_Silent_p.T121T|RUNX1_uc002yur.1_Silent_p.T16T	NM_001001890	NP_001001890	Q01196	RUNX1_HUMAN	runt-related transcription factor 1 isoform	121	Runt.				myeloid cell differentiation|negative regulation of granulocyte differentiation|positive regulation of angiogenesis|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus|nucleus	ATP binding|calcium ion binding|DNA binding|DNA binding|protein binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding	p.L121fs*2(1)|p.A149fs*2(1)		haematopoietic_and_lymphoid_tissue(383)|lung(2)|ovary(1)|central_nervous_system(1)	387						TCATGGCTGCGGTAGCATTTC	0.483			T	RPL22|MDS1|EVI1|CBFA2T3|CBFA2T1|ETV6|LAF4	AML|preB- ALL|T-ALL				Platelet_disorder_associated_with_Myeloid_Malignancies				7	6	---	---	---	---	PASS	A	36252918	A	A	36252918	2	1	77	1	0	0	0	0	0	0	0	1	13746	1103	39	1		1	RUNX1	21	36252918	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	20715275	36252918	11876977	476	29586										
KRTAP10-3	386682	broad.mit.edu	37	chr21	45978509	45978509	+	Frame_Shift_Del	DEL	G	-	-													0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cagcagctggtggcgcagcaGgggggctcacagcagctctc							TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr21:45978509delG	uc002zfj.1	-	1	135	c.90delC	c.(88-90)CCCfs	p.P30fs	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198696	NP_941969	P60369	KR103_HUMAN	keratin associated protein 10-3	30	1.|18 X 5 AA repeats of C-C-X(3).					keratin filament				skin(1)	1						TGGCGCAGCAGGGGGGCTCAC	0.697													16	9	---	---	---	---		-	45978509	-	-	45978509	7	5	77	1	0	1	0	1	0	0	0	0	8510	987	35	0	579	0	KRTAP10-3	21	45978509	Frame_Shift_Del	DEL	G	TCGA-37-3789-01A-01D-0983-08	9725591	45978509	2151386	477	29587										
CCT8L2	150160	broad.mit.edu	37	chr22	17072852	17072852	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	aacacgctcaggcttgaagcTgccgtctagttccttgatag	10	11	2	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr22:17072852T>C	uc002zlp.1	-	1	849	c.589A>G	c.(589-591)AGC>GGC	p.S197G		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	197					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				GGCTTGAAGCTGCCGTCTAGT	0.617													12	32	---	---	---	---	PASS	C	17072852	C	C	17072852	3	2	77	1	0	0	0	0	1	0	0	0	2961	1580	55	5	1088	5	CCT8L2	22	17072852	Missense_Mutation	SNP	T	TCGA-37-3789-01A-01D-0983-08		17072852	34231714	478	29588										
RFPL2	10739	broad.mit.edu	37	chr22	32598391	32598391	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	acagcacatagacagatcctGgattgggacactgcagtctc	10	11	1	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr22:32598391G>T	uc003amg.3	-	2	984	c.48C>A	c.(46-48)TCC>TCA	p.S16S	RFPL2_uc003amf.3_5'UTR|RFPL2_uc003amh.3_5'UTR	NM_001098527	NP_001091997	O75678	RFPL2_HUMAN	ret finger protein-like 2 isoform 2	16							zinc ion binding			skin(1)	1						gacagatcctggattgggaca	0.03													9	23	---	---	---	---	PASS	T	32598391	T	T	32598391	2	4	77	1	0	0	0	0	0	0	0	1	13254	1335	47	3		3	RFPL2	22	32598391	Silent	SNP	G	TCGA-37-3789-01A-01D-0983-08	15525539	32598391	18706175	479	29589										
EIF3L	51386	broad.mit.edu	37	chr22	38247364	38247364	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgatccctgaggtgatcaaaAacttcatccagtatttccac	6	11	2	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr22:38247364A>G	uc003auf.2	+	3	247	c.160A>G	c.(160-162)AAC>GAC	p.N54D	EIF3L_uc003aue.1_Missense_Mutation_p.N54D|EIF3L_uc011ann.1_Missense_Mutation_p.N54D|EIF3L_uc003aug.2_5'UTR	NM_016091	NP_057175	Q9Y262	EIF3L_HUMAN	eukaryotic translation initiation factor 3	54						eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1						GGTGATCAAAAACTTCATCCA	0.433													10	45	---	---	---	---	PASS	G	38247364	G	G	38247364	3	3	77	1	0	0	0	0	1	0	0	0	5022	14	1	5	170	5	EIF3L	22	38247364	Missense_Mutation	SNP	A	TCGA-37-3789-01A-01D-0983-08	5648973	38247364	13057202	480	29590										
L3MBTL2	83746	broad.mit.edu	37	chr22	41613159	41613159	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcttcgactgggggaagttcCtgaaggatcacagttacaag	13	8	1	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr22:41613159C>A	uc003azo.2	+	5	607	c.553C>A	c.(553-555)CTG>ATG	p.L185M	L3MBTL2_uc010gyi.1_Missense_Mutation_p.L94M|L3MBTL2_uc003azn.2_RNA|uc003azp.1_RNA	NM_031488	NP_113676	Q969R5	LMBL2_HUMAN	l(3)mbt-like 2	185	MBT 1.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	methylated histone residue binding|transcription corepressor activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3						GGGGAAGTTCCTGAAGGATCA	0.637													6	83	---	---	---	---	PASS	A	41613159	A	A	41613159	3	1	77	1	0	0	0	0	1	0	0	0	8592	680	24	3	571	3	L3MBTL2	22	41613159	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	3365795	41613159	9691407	481	29591										
ZBED4	9889	broad.mit.edu	37	chr22	50277561	50277561	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agagagtgaggatgactatgGcgcgctgttctcccagtaca	13	9	1	3			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chr22:50277561G>T	uc003bix.2	+	2	721	c.251G>T	c.(250-252)GGC>GTC	p.G84V		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	84						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		GATGACTATGGCGCGCTGTTC	0.627													28	57	---	---	---	---	PASS	T	50277561	T	T	50277561	3	4	77	1	0	0	0	0	1	0	0	0	17517	1203	42	3	253	3	ZBED4	22	50277561	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	8664402	50277561	1027005	482	29592										
RPGR	6103	broad.mit.edu	37	chrX	38146439	38146439	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ttcctcatttgcttctacctCttgctcctctattccatttc	2	15	4	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chrX:38146439C>G	uc004ded.1	-	15	1981	c.1813G>C	c.(1813-1815)GAG>CAG	p.E605Q	RPGR_uc004deb.2_Missense_Mutation_p.E605Q|RPGR_uc004dea.2_RNA|RPGR_uc004dec.2_Intron	NM_001034853	NP_001030025	Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator isoform C	605	Glu-rich.				intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						gcttctacctcttgctcctct	0.204													5	6	---	---	---	---	PASS	G	38146439	G	G	38146439	3	3	77	1	0	0	0	0	1	0	0	0	13548	922	32	2	2208	2	RPGR	23	38146439	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08		38146439	117124121	483	29593										
NHSL2	340527	broad.mit.edu	37	chrX	71360443	71360443	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	agcgtgctgtacctgcctctCacttctcccacagctcaaat	6	16	3	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chrX:71360443C>G	uc011mqa.1	+	6	3045	c.3045C>G	c.(3043-3045)CTC>CTG	p.L1015L	NHSL2_uc004eak.1_Silent_p.L649L|NHSL2_uc010nli.2_Silent_p.L784L	NM_001013627	NP_001013649	Q5HYW2	NHSL2_HUMAN	NHS-like 2	1015											0	Renal(35;0.156)					ACCTGCCTCTCACTTCTCCCA	0.542													6	11	---	---	---	---	PASS	G	71360443	G	G	71360443	2	3	77	1	0	0	0	0	0	0	0	1	10412	813	29	2		2	NHSL2	23	71360443	Silent	SNP	C	TCGA-37-3789-01A-01D-0983-08	33214004	71360443	83910117	484	29594										
TGIF2LX	90316	broad.mit.edu	37	chrX	89177748	89177748	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcagcttcctgctgctagtcGatgcagcagtacaaagggct	12	11	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chrX:89177748G>T	uc004efe.2	+	2	713	c.664G>T	c.(664-666)GAT>TAT	p.D222Y		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	222						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GCTGCTAGTCGATGCAGCAGT	0.507													13	12	---	---	---	---	PASS	T	89177748	T	T	89177748	3	4	77	1	0	0	0	0	1	0	0	0	15824	1058	37	2	666	2	TGIF2LX	23	89177748	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	17817305	89177748	66092812	485	29595										
PCDH11X	27328	broad.mit.edu	37	chrX	91133967	91133967	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tcacactagaccttcctattGatctagaagagcaaacaatg	6	10	2	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chrX:91133967G>T	uc004efk.1	+	2	3573	c.2728G>T	c.(2728-2730)GAT>TAT	p.D910Y	PCDH11X_uc004efl.1_Missense_Mutation_p.D910Y|PCDH11X_uc004efo.1_Missense_Mutation_p.D910Y|PCDH11X_uc010nmv.1_Missense_Mutation_p.D910Y|PCDH11X_uc004efm.1_Missense_Mutation_p.D910Y|PCDH11X_uc004efn.1_Missense_Mutation_p.D910Y|PCDH11X_uc004efh.1_Missense_Mutation_p.D910Y|PCDH11X_uc004efj.1_Missense_Mutation_p.D910Y	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	910	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CCTTCCTATTGATCTAGAAGA	0.428													17	14	---	---	---	---	PASS	T	91133967	T	T	91133967	3	4	77	1	0	0	0	0	1	0	0	0	11508	1290	45	2	2734	2	PCDH11X	23	91133967	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	1956219	91133967	64136593	486	29596										
BTK	695	broad.mit.edu	37	chrX	100611126	100611126	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ctctagcagctgctgagtctGgaagcggtggcgcatctccc	13	13	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chrX:100611126G>T	uc004ehg.2	-	15	1673	c.1480C>A	c.(1480-1482)CAG>AAG	p.Q494K	BTK_uc004ehf.2_Intron|BTK_uc010nnh.2_Intron|BTK_uc010nni.2_Intron|BTK_uc004ehe.2_Intron|BTK_uc010nnj.2_RNA|BTK_uc010nnk.2_Intron|BTK_uc010nnl.2_Intron|BTK_uc010nnm.2_Missense_Mutation_p.Q64K|BTK_uc010nnn.2_Intron|BTK_uc010nno.2_Missense_Mutation_p.Q528K|BTK_uc004ehh.1_Intron|BTK_uc004ehi.2_Missense_Mutation_p.Q494K	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	494	Protein kinase.				calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						TGCTGAGTCTGGAAGCGGTGG	0.547									Agammaglobulinemia_X-linked				6	41	---	---	---	---	PASS	T	100611126	T	T	100611126	3	4	77	1	0	0	0	0	1	0	0	0	1557	1357	47	3	519	3	BTK	23	100611126	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	9477159	100611126	54659434	487	29597										
IRS4	8471	broad.mit.edu	37	chrX	107977075	107977075	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	gcccctccccaggaactttcCaggtaacattggcacatact	7	15	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chrX:107977075C>T	uc004eoc.2	-	1	2533	c.2500G>A	c.(2500-2502)GGA>AGA	p.G834R		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	834						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						AGGAACTTTCCAGGTAACATT	0.488													96	71	---	---	---	---	PASS	T	107977075	T	T	107977075	3	4	77	1	0	0	0	0	1	0	0	0	7842	603	21	3	1277	3	IRS4	23	107977075	Missense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	7365949	107977075	47293485	488	29598										
PAK3	5063	broad.mit.edu	37	chrX	110439768	110439768	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	ggcacctgaggtggtgactcGaaaagcttatggtccgaaag	14	8	0	2			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chrX:110439768G>C	uc004epa.2	+	13	1379	c.1352G>C	c.(1351-1353)CGA>CCA	p.R451P	PAK3_uc010npt.1_Missense_Mutation_p.R436P|PAK3_uc010npu.1_Missense_Mutation_p.R436P|PAK3_uc004eoy.1_Missense_Mutation_p.R191P|PAK3_uc004eoz.2_Missense_Mutation_p.R436P|PAK3_uc011mst.1_RNA|PAK3_uc010npv.1_Missense_Mutation_p.R472P|PAK3_uc010npw.1_Missense_Mutation_p.R457P	NM_001128173	NP_001121645	O75914	PAK3_HUMAN	p21-activated kinase 3 isoform d	451	Protein kinase.				multicellular organismal development		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding			lung(6)|ovary(3)|large_intestine(1)	10						GTGGTGACTCGAAAAGCTTAT	0.473										TSP Lung(19;0.15)			11	16	---	---	---	---	PASS	C	110439768	C	C	110439768	3	2	77	1	0	0	0	0	1	0	0	0	11402	1058	37	2	1469	2	PAK3	23	110439768	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	2462693	110439768	44830792	489	29599										
KIAA1210	57481	broad.mit.edu	37	chrX	118220998	118220998	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	tgcaaaagcttcatctcttcCtaggaaccaattgtcagaat	6	10	3	1			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chrX:118220998C>A	uc004era.3	-	11	4195	c.4195G>T	c.(4195-4197)GGA>TGA	p.G1399*		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	1399										ovary(4)|skin(1)	5						TCATCTCTTCCTAGGAACCAA	0.443													6	86	---	---	---	---	PASS	A	118220998	A	A	118220998	4	1	77	1	0	0	0	0	0	1	0	0	8214	690	24	3	950	3	KIAA1210	23	118220998	Nonsense_Mutation	SNP	C	TCGA-37-3789-01A-01D-0983-08	7781230	118220998	37049562	490	29600										
PHF6	84295	broad.mit.edu	37	chrX	133512083	133512083	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	actctgataatgaaagtcttGgtggattttctattgaagat	9	4	3	4			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chrX:133512083G>T	uc004exj.2	+	3	389	c.187G>T	c.(187-189)GGT>TGT	p.G63C	PHF6_uc004exk.2_Missense_Mutation_p.G63C|PHF6_uc011mvk.1_Intron|PHF6_uc004exh.2_Missense_Mutation_p.G63C|PHF6_uc010nrr.2_Missense_Mutation_p.G63C|PHF6_uc004exi.2_Missense_Mutation_p.G63C	NM_001015877	NP_001015877	Q8IWS0	PHF6_HUMAN	PHD finger protein 6 isoform 1	63					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TGAAAGTCTTGGTGGATTTTC	0.294													5	25	---	---	---	---	PASS	T	133512083	T	T	133512083	3	4	77	1	0	0	0	0	1	0	0	0	11838	1348	47	3	193	3	PHF6	23	133512083	Missense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08	15291085	133512083	21758477	491	29601										
SRY	6736	broad.mit.edu	37	chrY	2655257	2655257	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.183299389002037	90	4.59185402817858e-23	3.03827238945144	3.82621995418829	2.3212401055409	0.0210190047193119	0.157643740096309	60	cttcgccttccgacgaggtcGatacttataattcgggtatt	9	10	0	0			TCGA-37-3789-01A-01D-0983-08	TCGA-37-3789-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	d732196f-ef85-43ea-aac7-7c9060bf19c5	7ad070ce-6ace-4f7a-97e5-e234783df2ec	g.chrY:2655257G>A	uc004fqg.1	-	1	536	c.388C>T	c.(388-390)CGA>TGA	p.R130*		NM_003140	NP_003131	Q05066	SRY_HUMAN	sex determining region Y	130	Sufficient for interaction with EP300.|Required for nuclear localization.|Sufficient for interaction with KPNB1.				cell differentiation|male sex determination|positive regulation of transcription, DNA-dependent|sex differentiation	cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding				0						CGACGAGGTCGATACTTATAA	0.498									Swyer_syndrome				5	1	---	---	---	---	PASS	A	2655257	A	A	2655257	4	1	77	1	0	0	0	0	0	1	0	0	15173	1066	37	2	230	2	SRY	24	2655257	Nonsense_Mutation	SNP	G	TCGA-37-3789-01A-01D-0983-08		2655257	56718309	492	29602										
MEGF6	1953	broad.mit.edu	37	chr1	3427347	3427347	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agtggcagggcagtgctcacCctcacagccgcagccatcgg	13	15	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:3427347C>G	uc001akl.2	-	10	1461	c.1234G>C	c.(1234-1236)GAT>CAT	p.D412H	MEGF6_uc001akk.2_Missense_Mutation_p.D307H	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	412	EGF-like 8; calcium-binding (Potential).					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		CAGTGCTCACCCTCACAGCCG	0.687													5	13	---	---	---	---	PASS	G	3427347	G	G	3427347	3	3	78	1	0	0	0	0	1	0	0	0	9462	637	22	4	3503	4	MEGF6	1	3427347	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08		3427347	245823274	1	29603										
CLSTN1	22883	broad.mit.edu	37	chr1	9791327	9791327	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tccatctcgttctccttcccGgtgtcctgatcccgcatggt	8	16	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:9791327G>A	uc001aqh.2	-	18	3444	c.2685C>T	c.(2683-2685)ACC>ACT	p.T895T	CLSTN1_uc001aqi.2_Silent_p.T885T|CLSTN1_uc010oag.1_Silent_p.T876T|CLSTN1_uc001aqf.2_Silent_p.T131T	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	895	Cytoplasmic (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		TCTCCTTCCCGGTGTCCTGAT	0.607													40	155	---	---	---	---	PASS	A	9791327	A	A	9791327	2	1	78	1	0	0	0	0	0	0	0	1	3561	1103	39	1		1	CLSTN1	1	9791327	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	6363980	9791327	239459294	2	29604										
PRDM2	7799	broad.mit.edu	37	chr1	14106310	14106310	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttcctcttagcatatcaacaAcagaggcagtgtctttccac	6	12	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:14106310A>G	uc001avi.2	+	8	2876	c.2020A>G	c.(2020-2022)ACA>GCA	p.T674A	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.T674A|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.T431A|PRDM2_uc001avk.2_Missense_Mutation_p.T473A|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	674						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		CATATCAACAACAGAGGCAGT	0.443													86	110	---	---	---	---	PASS	G	14106310	G	G	14106310	3	3	78	1	0	0	0	0	1	0	0	0	12458	43	2	5	2046	5	PRDM2	1	14106310	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	4314983	14106310	235144311	3	29605										
PADI6	353238	broad.mit.edu	37	chr1	17699703	17699703	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cacagtgaagatgacatcgcCcagcccttccgtggatgcgg	12	13	0	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:17699703C>A	uc001bak.1	+	2	269	c.269C>A	c.(268-270)CCC>CAC	p.P90H		NM_207421	NP_997304	Q6TGC4	PADI6_HUMAN	peptidylarginine deiminase type 6	82					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;7.59e-06)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.0134)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	ATGACATCGCCCAGCCCTTCC	0.607													11	76	---	---	---	---	PASS	A	17699703	A	A	17699703	3	1	78	1	0	0	0	0	1	0	0	0	11381	623	22	3	275	3	PADI6	1	17699703	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	3593393	17699703	231550918	4	29606										
RHD	6007	broad.mit.edu	37	chr1	25627554	25627554	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cggaggataaagatcagacaGcaacgatacccagtttgtct	10	9	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:25627554G>A	uc001bjz.2	+	4	662	c.604G>A	c.(604-606)GCA>ACA	p.A202T	RHD_uc010oep.1_Missense_Mutation_p.A202T|RHD_uc001bkc.2_Missense_Mutation_p.A202T|RHD_uc009vrm.2_Missense_Mutation_p.A34T|RHD_uc001bka.2_Missense_Mutation_p.A202T|RHD_uc001bkb.2_Missense_Mutation_p.A202T|RHD_uc009vrn.2_Missense_Mutation_p.A202T|RHD_uc009vro.2_Missense_Mutation_p.A202T|RHD_uc009vrp.2_Missense_Mutation_p.A202T	NM_016124	NP_057208	Q02161	RHD_HUMAN	Rh blood group D antigen isoform 1	202						integral to plasma membrane				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.39e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000332)|BRCA - Breast invasive adenocarcinoma(304;0.000438)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000908)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		AGATCAGACAGCAACGATACC	0.547													112	31	---	---	---	---	PASS	A	25627554	A	A	25627554	3	1	78	1	0	0	0	0	1	0	0	0	13327	971	34	3	618	3	RHD	1	25627554	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	7927851	25627554	223623067	5	29607										
TMEM57	55219	broad.mit.edu	37	chr1	25785216	25785216	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aaaaatgccagtggagttgtGaactcttcacctcgaagtca	9	9	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:25785216G>A	uc001bkk.2	+	6	1189	c.987G>A	c.(985-987)GTG>GTA	p.V329V	TMEM57_uc009vru.2_Intron|TMEM57_uc009vrv.2_Intron|TMEM57_uc009vrt.2_RNA	NM_018202	NP_060672	Q8N5G2	MACOI_HUMAN	transmembrane protein 57	329						axon|integral to membrane|neuron projection terminus|nuclear membrane|synapse part					0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00715)|all_lung(284;0.00989)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.201)		UCEC - Uterine corpus endometrioid carcinoma (279;0.042)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-26)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|GBM - Glioblastoma multiforme(114;0.0191)|READ - Rectum adenocarcinoma(331;0.0649)		GTGGAGTTGTGAACTCTTCAC	0.398													28	278	---	---	---	---	PASS	A	25785216	A	A	25785216	2	1	78	1	0	0	0	0	0	0	0	1	16181	1277	45	2		2	TMEM57	1	25785216	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	157662	25785216	223465405	6	29608										
EXTL1	2134	broad.mit.edu	37	chr1	26360264	26360264	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acgtcgagccatttctgggaCgaggcccatggtggctgggg	17	10	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:26360264C>T	uc001blf.2	+	9	2463	c.1596C>T	c.(1594-1596)GAC>GAT	p.D532D		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	532	Lumenal (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		ATTTCTGGGACGAGGCCCATG	0.587													45	132	---	---	---	---	PASS	T	26360264	T	T	26360264	2	4	78	1	0	0	0	0	0	0	0	1	5325	535	19	1		1	EXTL1	1	26360264	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	575048	26360264	222890357	7	29609										
INPP5B	3633	broad.mit.edu	37	chr1	38409540	38409540	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atcgtccccggtaatggccaTcctccggtgcgtatagagga	12	12	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:38409540T>C	uc001ccg.1	-	4	272	c.178A>G	c.(178-180)ATG>GTG	p.M60V	INPP5B_uc009vvk.1_Missense_Mutation_p.M1V|INPP5B_uc001cch.2_Missense_Mutation_p.M1V	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	60					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GTAATGGCCATCCTCCGGTGC	0.597													58	79	---	---	---	---	PASS	C	38409540	C	C	38409540	3	2	78	1	0	0	0	0	1	0	0	0	7755	1435	50	5	2647	5	INPP5B	1	38409540	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	12049276	38409540	210841081	8	29610										
MACF1	23499	broad.mit.edu	37	chr1	39800990	39800990	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aatgatacaaatgaagagcaGgaaaaagcagtgacaaaaat	9	4	0	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:39800990G>C	uc010oiu.1	+	1	4181	c.4050G>C	c.(4048-4050)CAG>CAC	p.Q1350H	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2915					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)			ATGAAGAGCAGGAAAAAGCAG	0.353													71	87	---	---	---	---	PASS	C	39800990	C	C	39800990	3	2	78	1	0	0	0	0	1	0	0	0	9144	991	35	4	8821	4	MACF1	1	39800990	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	1391450	39800990	209449631	9	29611										
HOOK1	51361	broad.mit.edu	37	chr1	60330309	60330309	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttttaaattttatagtccagCaaattaaagcagaagttgga	7	4	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:60330309C>A	uc009wad.2	+	18	1734	c.1632C>A	c.(1630-1632)AGC>AGA	p.S544R	HOOK1_uc001czo.2_Missense_Mutation_p.S544R|HOOK1_uc001czp.2_Intron|HOOK1_uc010oor.1_Missense_Mutation_p.S502R	NM_015888	NP_056972	Q9UJC3	HOOK1_HUMAN	hook homolog 1	544	Sufficient for interaction with microtubules.|Potential.				early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|multicellular organismal development|protein transport	FHF complex|microtubule	identical protein binding			ovary(1)|breast(1)	2	all_cancers(7;0.000129)					TATAGTCCAGCAAATTAAAGC	0.328													42	77	---	---	---	---	PASS	A	60330309	A	A	60330309	3	1	78	1	0	0	0	0	1	0	0	0	7282	709	25	3	1698	3	HOOK1	1	60330309	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	20529319	60330309	188920312	10	29612										
C1orf173	127254	broad.mit.edu	37	chr1	75114930	75114930	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cctgatcttaagagatgacgCcttatccttgtattgttaaa	7	8	1	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:75114930C>T	uc001dgg.2	-	2	312	c.93G>A	c.(91-93)AGG>AGA	p.R31R		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	31										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						AGAGATGACGCCTTATCCTTG	0.353													69	104	---	---	---	---	PASS	T	75114930	T	T	75114930	2	4	78	1	0	0	0	0	0	0	0	1	2014	738	26	3		3	C1orf173	1	75114930	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	14784621	75114930	174135691	11	29613										
LHX8	431707	broad.mit.edu	37	chr1	75606791	75606791	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctgcaaacttgattatttcaGgtatgctgtgaagctttttc	8	7	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:75606791G>T	uc001dgo.2	+	5	1053	c.389G>T	c.(388-390)AGA>ATA	p.R130I	LHX8_uc001dgq.2_Missense_Mutation_p.R69I	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	130	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						GATTATTTCAGGTATGCTGTG	0.358													31	141	---	---	---	---	PASS	T	75606791	T	T	75606791	3	4	78	1	0	0	0	0	1	0	0	0	8776	1014	35	3	403	3	LHX8	1	75606791	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	491861	75606791	173643830	12	29614										
ELTD1	64123	broad.mit.edu	37	chr1	79404919	79404919	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cagctatacagacattatctAaatggcagtttgcattcaca	6	9	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:79404919A>G	uc001diq.3	-	4	506	c.350T>C	c.(349-351)TTA>TCA	p.L117S		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	117	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)		GACATTATCTAAATGGCAGTT	0.244													10	10	---	---	---	---	PASS	G	79404919	G	G	79404919	3	3	78	1	0	0	0	0	1	0	0	0	5084	372	13	5	1770	5	ELTD1	1	79404919	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	3798128	79404919	169845702	13	29615										
ABCA4	24	broad.mit.edu	37	chr1	94564446	94564446	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gagcacagggcatagcgcacCgtctttgccccgcgtctctg	12	15	2	0	rs140972064	byFrequency	TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:94564446C>A	uc001dqh.2	-	6	776	c.672G>T	c.(670-672)ACG>ACT	p.T224T	ABCA4_uc010otn.1_Silent_p.T224T	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	224	Extracellular.		T -> M (in a breast cancer sample; somatic mutation).		phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances	p.T224M(1)		ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CATAGCGCACCGTCTTTGCCC	0.597													22	84	---	---	---	---	PASS	A	94564446	A	A	94564446	2	1	78	1	0	0	0	0	0	0	0	1	34	639	23	1		1	ABCA4	1	94564446	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	15159527	94564446	154686175	14	29616										
ARHGAP29	9411	broad.mit.edu	37	chr1	94685905	94685905	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	attatagactttaaaacacgGagcagttcctctagacgtat	7	8	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:94685905G>T	uc001dqj.3	-	3	618	c.249C>A	c.(247-249)CTC>CTA	p.L83L	ARHGAP29_uc009wdq.1_RNA|ARHGAP29_uc001dql.2_Silent_p.L83L	NM_004815	NP_004806	Q52LW3	RHG29_HUMAN	PTPL1-associated RhoGAP 1	83					Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|upper_aerodigestive_tract(1)|ovary(1)	11		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		TTAAAACACGGAGCAGTTCCT	0.308													95	92	---	---	---	---	PASS	T	94685905	T	T	94685905	2	4	78	1	0	0	0	0	0	0	0	1	878	1161	41	2		2	ARHGAP29	1	94685905	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	121459	94685905	154564716	15	29617										
SLC25A24	29957	broad.mit.edu	37	chr1	108681680	108681680	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttctgtaatcaaaaattcacCttgagcctgcatgcgagttc	7	10	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:108681680C>A	uc001dvn.3	-	9	1463	c.1249G>T	c.(1249-1251)GCC>TCC	p.A417S	SLC25A24_uc001dvm.2_Missense_Mutation_p.A398S	NM_013386	NP_037518	Q6NUK1	SCMC1_HUMAN	solute carrier family 25 member 24 isoform 1	417	Mitochondrial matrix (Potential).|Solcar 3.				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)	1		all_epithelial(167;3.72e-05)|all_lung(203;0.000567)|Lung NSC(277;0.0011)|Melanoma(281;0.211)		Colorectal(144;0.0345)|Lung(183;0.0971)|COAD - Colon adenocarcinoma(174;0.127)|Epithelial(280;0.134)		AAAAATTCACCTTGAGCCTGC	0.473													17	95	---	---	---	---	PASS	A	108681680	A	A	108681680	3	1	78	1	0	0	0	0	1	0	0	0	14487	695	24	3	192	3	SLC25A24	1	108681680	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	13995775	108681680	140568941	16	29618										
CSDE1	7812	broad.mit.edu	37	chr1	115275301	115275301	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttgctcgctctaatttgtcaCgtcggtctgttgaaatatta	8	8	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:115275301C>T	uc001efk.2	-	10	1440	c.974G>A	c.(973-975)CGT>CAT	p.R325H	CSDE1_uc001efi.2_Missense_Mutation_p.R371H|CSDE1_uc001efj.2_RNA|CSDE1_uc001efl.2_Missense_Mutation_p.R294H|CSDE1_uc001efm.2_Missense_Mutation_p.R340H|CSDE1_uc009wgv.2_Missense_Mutation_p.R325H|CSDE1_uc001efn.2_Missense_Mutation_p.R294H	NM_001007553	NP_001007554	O75534	CSDE1_HUMAN	upstream of NRAS isoform 1	325	CSD 4; truncated.				male gonad development|regulation of transcription, DNA-dependent	cytoplasm	DNA binding|protein binding|RNA binding			ovary(1)	1	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;2.21e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TAATTTGTCACGTCGGTCTGT	0.403													22	328	---	---	---	---	PASS	T	115275301	T	T	115275301	3	4	78	1	0	0	0	0	1	0	0	0	3929	536	19	1	1466	1	CSDE1	1	115275301	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	6593621	115275301	133975320	17	29619										
SYCP1	6847	broad.mit.edu	37	chr1	115537564	115537564	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tggagctataagaaaaatgcGggaggaccgttgggctgtaa	15	5	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:115537564G>A	uc001efr.2	+	32	3064	c.2855G>A	c.(2854-2856)CGG>CAG	p.R952Q	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.R952Q|SYCP1_uc009wgw.2_Missense_Mutation_p.R927Q	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	952					cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGAAAAATGCGGGAGGACCGT	0.333													7	214	---	---	---	---	PASS	A	115537564	A	A	115537564	3	1	78	1	0	0	0	0	1	0	0	0	15428	1116	39	1	2977	1	SYCP1	1	115537564	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	262263	115537564	133713057	18	29620										
TCHH	7062	broad.mit.edu	37	chr1	152084302	152084302	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tctcctgctcgtgcctctccGtctcctcctcgcgcttcagc	7	20	4	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:152084302G>C	uc001ezp.2	-	2	1391	c.1391C>G	c.(1390-1392)ACG>AGG	p.T464R	TCHH_uc009wne.1_Missense_Mutation_p.T464R	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	464	9 X 28 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			gtgcctctccgtctcctcctc	0.139													22	158	---	---	---	---	PASS	C	152084302	C	C	152084302	3	2	78	1	0	0	0	0	1	0	0	0	15697	1145	40	4	4444	4	TCHH	1	152084302	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	36546738	152084302	97166319	19	29621										
HRNR	388697	broad.mit.edu	37	chr1	152193243	152193243	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	caaagactgacgggaaccagAcccatgctgaccatagctgg	11	12	0	4	rs150800529	by1000genomes	TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:152193243A>T	uc001ezt.1	-	3	938	c.862T>A	c.(862-864)TCT>ACT	p.S288T		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	288	3.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGGGAACCAGACCCATGCTGA	0.597													77	733	---	---	---	---	PASS	T	152193243	T	T	152193243	3	4	78	1	0	0	0	0	1	0	0	0	7359	275	10	5	7694	5	HRNR	1	152193243	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	108941	152193243	97057378	20	29622										
LENEP	55891	broad.mit.edu	37	chr1	154966181	154966181	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ggtgcctgtcattaagatggGcacagggtgggagggcttcc	17	8	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:154966181G>A	uc001fgi.2	+	1	120	c.98G>A	c.(97-99)GGC>GAC	p.G33D		NM_018655	NP_061125	Q9Y5L5	LENEP_HUMAN	lens epithelial protein	33					multicellular organismal development		DNA binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			ATTAAGATGGGCACAGGGTGG	0.607													9	210	---	---	---	---	PASS	A	154966181	A	A	154966181	3	1	78	1	0	0	0	0	1	0	0	0	8722	1203	42	3	100	3	LENEP	1	154966181	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	2772938	154966181	94284440	21	29623										
MUC1	4582	broad.mit.edu	37	chr1	155162052	155162052	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tctccacctggggtagagctTgcatgaccagaacccgtaac	10	13	1	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:155162052T>A	uc010pft.1	-	2	147	c.81A>T	c.(79-81)GCA>GCT	p.A27A	RAG1AP1_uc010pey.1_Intron|MUC1_uc001fhy.2_5'Flank|MUC1_uc001fhz.2_5'Flank|MUC1_uc010pfb.1_5'UTR|MUC1_uc010pfc.1_RNA|MUC1_uc009wph.2_5'UTR|MUC1_uc010pfd.1_Missense_Mutation_p.Q2L|MUC1_uc010pfe.1_RNA|MUC1_uc010pff.1_Missense_Mutation_p.Q76L|MUC1_uc009wpi.2_5'UTR|MUC1_uc010pfg.1_RNA|MUC1_uc010pfh.1_Missense_Mutation_p.Q76L|MUC1_uc010pfi.1_Missense_Mutation_p.Q76L|MUC1_uc010pfj.1_Missense_Mutation_p.Q76L|MUC1_uc010pfk.1_RNA|MUC1_uc010pfl.1_RNA|MUC1_uc001fin.2_Silent_p.A36A|MUC1_uc009wpk.2_Intron|MUC1_uc001fip.2_Missense_Mutation_p.Q2L|MUC1_uc009wqg.2_Missense_Mutation_p.Q2L|MUC1_uc009wpo.2_Intron|MUC1_uc009wps.2_Silent_p.A36A|MUC1_uc009wpt.2_Silent_p.A36A|MUC1_uc001fic.2_Silent_p.A27A|MUC1_uc009wpu.2_RNA|MUC1_uc009wpq.2_Intron|MUC1_uc009wpv.2_Missense_Mutation_p.Q2L|MUC1_uc001fim.2_Silent_p.A27A|MUC1_uc001fib.2_Missense_Mutation_p.Q2L|MUC1_uc009wpw.2_Silent_p.A36A|MUC1_uc001fie.2_Silent_p.A27A|MUC1_uc009wpr.2_Intron|MUC1_uc001fig.2_Silent_p.A36A|MUC1_uc001fif.2_Silent_p.A27A|MUC1_uc009wpx.2_Silent_p.A36A|MUC1_uc001fid.2_Silent_p.A27A|MUC1_uc009wpj.2_RNA|MUC1_uc001fij.2_Silent_p.A36A|MUC1_uc009wpy.2_RNA|MUC1_uc010pfm.1_5'UTR|MUC1_uc001fiq.2_5'UTR|MUC1_uc009wpz.2_Silent_p.A36A|MUC1_uc010pfn.1_Silent_p.A27A|MUC1_uc009wqa.2_Missense_Mutation_p.Q2L|MUC1_uc010pfo.1_Missense_Mutation_p.Q2L|MUC1_uc010pfp.1_Missense_Mutation_p.Q2L|MUC1_uc001fii.2_RNA|MUC1_uc001fih.2_RNA|MUC1_uc001fia.2_Silent_p.A27A|MUC1_uc009wqc.2_Missense_Mutation_p.Q2L|MUC1_uc009wqd.2_Missense_Mutation_p.Q2L|MUC1_uc009wqb.2_5'UTR|MUC1_uc010pfq.1_Missense_Mutation_p.Q2L|MUC1_uc010pfr.1_Silent_p.A36A|MUC1_uc001fit.2_5'UTR|MUC1_uc009wqe.2_Silent_p.A36A|MUC1_uc001fil.2_Silent_p.A27A|MUC1_uc009wpm.2_Silent_p.A27A|MUC1_uc009wpp.2_Silent_p.A27A|MUC1_uc010pfs.1_RNA|MUC1_uc001fik.2_Silent_p.A27A|MUC1_uc001fio.2_Silent_p.A27A|MUC1_uc009wqf.2_Missense_Mutation_p.Q2L|MUC1_uc009wpl.2_Silent_p.A36A|MUC1_uc009wpn.2_Silent_p.A36A|MUC1_uc001fis.1_Silent_p.A27A|uc009wqh.2_5'Flank|MUC1_uc001fiv.1_Silent_p.A36A|MUC1_uc001fiw.1_Silent_p.A27A|MIR92B_hsa-mir-92b|MI0003560_5'Flank			P15941	MUC1_HUMAN	SubName: Full=MUC1 isoform M13;	27	Extracellular (Potential).					apical plasma membrane|cell surface|cytoplasm|extracellular region|integral to plasma membrane|nucleus	protein binding			large_intestine(1)|pancreas(1)|breast(1)|skin(1)	4	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;5.31e-10)|all cancers(21;2.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GGGTAGAGCTTGCATGACCAG	0.483			T	IGH@	B-NHL								10	424	---	---	---	---	PASS	A	155162052	A	A	155162052	2	1	78	1	0	0	0	0	0	0	0	1	9970	1799	63	5		5	MUC1	1	155162052	Silent	SNP	T	TCGA-37-4133-01A-01D-1352-08	195871	155162052	94088569	22	29624										
SPTA1	6708	broad.mit.edu	37	chr1	158613124	158613124	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ggcctgacctgtctagtacaCgttggagccgcgtagcaatc	12	12	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:158613124C>T	uc001fst.1	-	31	4629	c.4430G>A	c.(4429-4431)CGT>CAT	p.R1477H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1477	Spectrin 14.				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)					GTCTAGTACACGTTGGAGCCG	0.443													27	223	---	---	---	---	PASS	T	158613124	T	T	158613124	3	4	78	1	0	0	0	0	1	0	0	0	15115	536	19	1	2917	1	SPTA1	1	158613124	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	3451072	158613124	90637497	23	29625										
PYHIN1	149628	broad.mit.edu	37	chr1	158908901	158908901	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	accatctgaagaagagactgGaaccaaaaggagtaagatgt	11	6	1	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:158908901G>C	uc001ftb.2	+	4	688	c.443G>C	c.(442-444)GGA>GCA	p.G148A	PYHIN1_uc001fta.3_Missense_Mutation_p.G148A|PYHIN1_uc001ftc.2_Missense_Mutation_p.G139A|PYHIN1_uc001ftd.2_Missense_Mutation_p.G148A|PYHIN1_uc001fte.2_Missense_Mutation_p.G139A	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	148					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					GAAGAGACTGGAACCAAAAGG	0.453													22	177	---	---	---	---	PASS	C	158908901	C	C	158908901	3	2	78	1	0	0	0	0	1	0	0	0	12865	1174	41	2	453	2	PYHIN1	1	158908901	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	295777	158908901	90341720	24	29626										
TNN	63923	broad.mit.edu	37	chr1	175086168	175086168	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gcgggccaccattgacaggtAtgtggtgcgctacacctctg	13	12	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:175086168A>G	uc001gkl.1	+	10	2326	c.2213A>G	c.(2212-2214)TAT>TGT	p.Y738C		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	738	Fibronectin type-III 6.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		ATTGACAGGTATGTGGTGCGC	0.612													189	82	---	---	---	---	PASS	G	175086168	G	G	175086168	3	3	78	1	0	0	0	0	1	0	0	0	16320	449	16	5	2247	5	TNN	1	175086168	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	16177267	175086168	74164453	25	29627										
PAPPA2	60676	broad.mit.edu	37	chr1	176563832	176563832	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cgctaccaaccaggcacatgGacccatgtggcagccactta	9	15	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:176563832G>T	uc001gkz.2	+	3	2256	c.1092G>T	c.(1090-1092)TGG>TGT	p.W364C	PAPPA2_uc001gky.1_Missense_Mutation_p.W364C|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	364					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CAGGCACATGGACCCATGTGG	0.577													24	150	---	---	---	---	PASS	T	176563832	T	T	176563832	3	4	78	1	0	0	0	0	1	0	0	0	11433	1183	41	2	1098	2	PAPPA2	1	176563832	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	1477664	176563832	72686789	26	29628										
CEP350	9857	broad.mit.edu	37	chr1	179993629	179993629	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcctctgtggatgttacctcCcagcattcatcaggagccca	8	14	3	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:179993629C>T	uc001gnt.2	+	14	3845	c.3462C>T	c.(3460-3462)TCC>TCT	p.S1154S	CEP350_uc009wxl.2_Silent_p.S1153S|CEP350_uc001gnu.2_Silent_p.S987S	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1154	Ser-rich.					centrosome|nucleus|spindle				ovary(4)	4						ATGTTACCTCCCAGCATTCAT	0.413													36	232	---	---	---	---	PASS	T	179993629	T	T	179993629	2	4	78	1	0	0	0	0	0	0	0	1	3254	610	22	3		3	CEP350	1	179993629	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	3429797	179993629	69256992	27	29629										
LAMC1	3915	broad.mit.edu	37	chr1	183086726	183086726	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gaacctctccttctcctttcGagtggacaggcgagatactc	9	13	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:183086726G>T	uc001gpy.3	+	10	2002	c.1745G>T	c.(1744-1746)CGA>CTA	p.R582L		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	582	Laminin IV type A.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTCTCCTTTCGAGTGGACAGG	0.498													214	104	---	---	---	---	PASS	T	183086726	T	T	183086726	3	4	78	1	0	0	0	0	1	0	0	0	8614	1058	37	2	1783	2	LAMC1	1	183086726	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	3093097	183086726	66163895	28	29630										
CFH	3075	broad.mit.edu	37	chr1	196695983	196695983	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	actatggagattcagtggaaTtcaattgctcagaatcattt	8	6	4	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:196695983T>A	uc001gtj.3	+	14	2389	c.2149T>A	c.(2149-2151)TTC>ATC	p.F717I		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	717	Sushi 12.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						TTCAGTGGAATTCAATTGCTC	0.438													59	314	---	---	---	---	PASS	A	196695983	A	A	196695983	3	1	78	1	0	0	0	0	1	0	0	0	3283	1493	52	5	2221	5	CFH	1	196695983	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	13609257	196695983	52554638	29	29631										
KISS1	3814	broad.mit.edu	37	chr1	204159850	204159850	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gacggctcagcctggcagtaGcagctggcttcctctcggtg	14	13	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:204159850G>T	uc001har.2	-	3	333	c.179C>A	c.(178-180)GCT>GAT	p.A60D		NM_002256	NP_002247	Q15726	KISS1_HUMAN	KiSS-1 metastasis-suppressor	60					cytoskeleton organization	extracellular region	protein binding			ovary(1)	1	all_cancers(21;0.0165)|Breast(84;0.179)|all_epithelial(62;0.242)	Breast(1374;9.42e-05)	KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.069)|Kidney(21;0.0934)|Epithelial(59;0.239)	Colorectal(1306;0.0129)		CCTGGCAGTAGCAGCTGGCTT	0.721													12	11	---	---	---	---	PASS	T	204159850	T	T	204159850	3	4	78	1	0	0	0	0	1	0	0	0	8327	971	34	3	241	3	KISS1	1	204159850	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	7463867	204159850	45090771	30	29632										
NFASC	23114	broad.mit.edu	37	chr1	204951102	204951102	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	caggctgaaaatgacttcggGaagggccctgagccagagtc	14	10	0	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:204951102G>A	uc001hbj.2	+	21	2752	c.2424G>A	c.(2422-2424)GGG>GGA	p.G808G	NFASC_uc010pra.1_Silent_p.G804G|NFASC_uc001hbi.2_Silent_p.G804G|NFASC_uc010prb.1_Silent_p.G819G|NFASC_uc010prc.1_Silent_p.G375G|NFASC_uc001hbk.1_Silent_p.G614G|NFASC_uc001hbl.1_Silent_p.G58G	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	808	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			ATGACTTCGGGAAGGGCCCTG	0.602													5	80	---	---	---	---	PASS	A	204951102	A	A	204951102	2	1	78	1	0	0	0	0	0	0	0	1	10359	1161	41	2		2	NFASC	1	204951102	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	791252	204951102	44299519	31	29633										
USH2A	7399	broad.mit.edu	37	chr1	216166470	216166470	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtcctcgtcagttagggcctCactggcctcactcactgtgc	10	15	4	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:216166470C>T	uc001hku.1	-	35	7084	c.6697G>A	c.(6697-6699)GAG>AAG	p.E2233K		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2233	Extracellular (Potential).|Fibronectin type-III 8.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GTTAGGGCCTCACTGGCCTCA	0.502										HNSCC(13;0.011)	OREG0014251	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	82	368	---	---	---	---	PASS	T	216166470	T	T	216166470	3	4	78	1	0	0	0	0	1	0	0	0	17033	835	29	2	9063	2	USH2A	1	216166470	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	11215368	216166470	33084151	32	29634										
ESRRG	2104	broad.mit.edu	37	chr1	216737638	216737638	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acagtgtagtgagggctttgAtgtcactgtcggggacagta	15	6	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:216737638A>G	uc001hkw.1	-	5	951	c.785T>C	c.(784-786)ATC>ACC	p.I262T	ESRRG_uc001hky.1_Missense_Mutation_p.I239T|ESRRG_uc009xdp.1_Missense_Mutation_p.I239T|ESRRG_uc001hkz.1_Missense_Mutation_p.I200T|ESRRG_uc010puc.1_Missense_Mutation_p.I239T|ESRRG_uc001hla.1_Missense_Mutation_p.I239T|ESRRG_uc001hlb.1_Missense_Mutation_p.I239T|ESRRG_uc010pud.1_Missense_Mutation_p.I70T|ESRRG_uc001hlc.1_Missense_Mutation_p.I239T|ESRRG_uc001hld.1_Missense_Mutation_p.I239T|ESRRG_uc001hkx.1_Missense_Mutation_p.I274T|ESRRG_uc009xdo.1_Missense_Mutation_p.I239T|ESRRG_uc001hle.1_Missense_Mutation_p.I239T	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	262					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	GAGGGCTTTGATGTCACTGTC	0.478													54	265	---	---	---	---	PASS	G	216737638	G	G	216737638	3	3	78	1	0	0	0	0	1	0	0	0	5262	333	12	5	603	5	ESRRG	1	216737638	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	571168	216737638	32512983	33	29635										
IRF2BP2	359948	broad.mit.edu	37	chr1	234743448	234743448	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtgaggcagtgggtggtggcGgagacacaaaagaggatgta	19	4	0	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:234743448G>A	uc001hwg.2	-	2	1230	c.1199C>T	c.(1198-1200)CCG>CTG	p.P400L	IRF2BP2_uc009xfw.2_Missense_Mutation_p.P10L|IRF2BP2_uc001hwf.2_Missense_Mutation_p.P384L	NM_182972	NP_892017	Q7Z5L9	I2BP2_HUMAN	interferon regulatory factor 2 binding protein 2	400					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Ovarian(103;0.0303)	all_cancers(173;0.0236)|Prostate(94;0.0115)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)|Epithelial(3;6.2e-05)			GGGTGGTGGCGGAGACACAAA	0.612													24	148	---	---	---	---	PASS	A	234743448	A	A	234743448	3	1	78	1	0	0	0	0	1	0	0	0	7830	1116	39	1	568	1	IRF2BP2	1	234743448	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	18005810	234743448	14507173	34	29636										
RYR2	6262	broad.mit.edu	37	chr1	237905620	237905620	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtcatgatgaggaagatgacGatggtgaagaggaagtgaag	17	2	1	7			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:237905620G>A	uc001hyl.1	+	80	11236	c.11116G>A	c.(11116-11118)GAT>AAT	p.D3706N	RYR2_uc010pya.1_Missense_Mutation_p.D102N	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3706					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)			GGAAGATGACGATGGTGAAGA	0.318													4	25	---	---	---	---	PASS	A	237905620	A	A	237905620	3	1	78	1	0	0	0	0	1	0	0	0	13769	1058	37	2	11434	2	RYR2	1	237905620	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	3162172	237905620	11345001	35	29637										
RGS7	6000	broad.mit.edu	37	chr1	240975293	240975293	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	caactgggtctttcaatgccTcgtccatgccaaaaccccat	6	15	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:240975293T>A	uc001hyv.2	-	14	1337	c.1007A>T	c.(1006-1008)GAG>GTG	p.E336V	RGS7_uc010pyh.1_Missense_Mutation_p.E310V|RGS7_uc010pyj.1_Missense_Mutation_p.E252V|RGS7_uc001hyu.2_Missense_Mutation_p.E336V|RGS7_uc009xgn.1_Missense_Mutation_p.E283V|RGS7_uc001hyw.2_Missense_Mutation_p.E336V|RGS7_uc001hyt.2_Missense_Mutation_p.E168V	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	336	RGS.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			TTTCAATGCCTCGTCCATGCC	0.398													13	470	---	---	---	---	PASS	A	240975293	A	A	240975293	3	1	78	1	0	0	0	0	1	0	0	0	13310	1551	54	5	476	5	RGS7	1	240975293	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	3069673	240975293	8275328	36	29638										
RGS7	6000	broad.mit.edu	37	chr1	241262037	241262037	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gaattccatttttttcatctTgcatccgtgctatgacgtct	6	10	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:241262037T>C	uc001hyv.2	-	3	434	c.104A>G	c.(103-105)CAA>CGA	p.Q35R	RGS7_uc010pyh.1_Missense_Mutation_p.Q9R|RGS7_uc010pyj.1_5'UTR|RGS7_uc001hyu.2_Missense_Mutation_p.Q35R|RGS7_uc009xgn.1_Missense_Mutation_p.Q35R|RGS7_uc001hyw.2_Missense_Mutation_p.Q35R	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	35					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			TTTTTCATCTTGCATCCGTGC	0.338													28	231	---	---	---	---	PASS	C	241262037	C	C	241262037	3	2	78	1	0	0	0	0	1	0	0	0	13310	1812	63	5	1423	5	RGS7	1	241262037	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	286744	241262037	7988584	37	29639										
OPN3	23596	broad.mit.edu	37	chr1	241757787	241757787	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccattggttttgtcgctgtcGtcaactgacagtgattcatc	9	10	2	2	rs151169647		TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:241757787G>A	uc001hza.2	-	4	1297	c.1152C>T	c.(1150-1152)GAC>GAT	p.D384D	KMO_uc009xgp.2_3'UTR|OPN3_uc001hzb.2_RNA|OPN3_uc001hzc.2_RNA	NM_014322	NP_055137	Q9H1Y3	OPN3_HUMAN	opsin 3	384	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|visual perception	integral to plasma membrane	G-protein coupled photoreceptor activity				0	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			TGTCGCTGTCGTCAACTGACA	0.418													16	533	---	---	---	---	PASS	A	241757787	A	A	241757787	2	1	78	1	0	0	0	0	0	0	0	1	10881	1136	40	1		1	OPN3	1	241757787	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	495750	241757787	7492834	38	29640										
EXO1	9156	broad.mit.edu	37	chr1	242035439	242035439	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atcattgagcttttctgaagTgtttgtgcctgacctggtaa	10	7	2	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:242035439T>C	uc001hzh.2	+	12	1913	c.1373T>C	c.(1372-1374)GTG>GCG	p.V458A	EXO1_uc001hzi.2_Missense_Mutation_p.V458A|EXO1_uc001hzj.2_Missense_Mutation_p.V458A|EXO1_uc009xgq.2_Missense_Mutation_p.V457A	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	458	Interaction with MLH1.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			TTTTCTGAAGTGTTTGTGCCT	0.368								Direct_reversal_of_damage|Editing_and_processing_nucleases					5	257	---	---	---	---	PASS	C	242035439	C	C	242035439	3	2	78	1	0	0	0	0	1	0	0	0	5300	1696	59	5	1407	5	EXO1	1	242035439	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	277652	242035439	7215182	39	29641										
HNRNPU	3192	broad.mit.edu	37	chr1	245027151	245027151	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tccccgtgcccgttctcgtcGcccgcgccttcctcttcgtc	8	21	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:245027151G>A	uc001iaz.1	-	1	677	c.459C>T	c.(457-459)GGC>GGT	p.G153G	HNRNPU_uc001iay.1_5'Flank|HNRNPU_uc001iba.1_Silent_p.G153G|HNRNPU_uc001ibb.1_Intron	NM_031844	NP_114032	Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U	153	Asp/Glu-rich (acidic).				CRD-mediated mRNA stabilization	catalytic step 2 spliceosome|cell surface|CRD-mediated mRNA stability complex|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	ATP binding|DNA binding|protein binding|RNA binding				0	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			CGTTCTCGTCGCCCGCGCCTT	0.692													30	7	---	---	---	---	PASS	A	245027151	A	A	245027151	2	1	78	1	0	0	0	0	0	0	0	1	7273	1074	38	1		1	HNRNPU	1	245027151	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	2991712	245027151	4223470	40	29642										
OR2G2	81470	broad.mit.edu	37	chr1	247752207	247752207	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	caagtggatcatttcatctgCgaggtccctgtgctcatcaa	9	11	5	0	rs146695930	byFrequency	TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:247752207C>T	uc010pyy.1	+	1	546	c.546C>T	c.(544-546)TGC>TGT	p.C182C		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			ATTTCATCTGCGAGGTCCCTG	0.537													329	131	---	---	---	---	PASS	T	247752207	T	T	247752207	2	4	78	1	0	0	0	0	0	0	0	1	10998	776	27	1		1	OR2G2	1	247752207	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	2725056	247752207	1498414	41	29643										
OR2G3	81469	broad.mit.edu	37	chr1	247769576	247769576	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agctgtgctgaggatcaaatCagtagaggcaaggcacaaag	13	7	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:247769576C>A	uc010pyz.1	+	1	689	c.689C>A	c.(688-690)TCA>TAA	p.S230*		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	230	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			AGGATCAAATCAGTAGAGGCA	0.453													165	74	---	---	---	---	PASS	A	247769576	A	A	247769576	4	1	78	1	0	0	0	0	0	1	0	0	10999	838	29	2	691	2	OR2G3	1	247769576	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	17369	247769576	1481045	42	29644										
OR2T4	127074	broad.mit.edu	37	chr1	248525719	248525719	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgctcctcccacctgactgtGgtcatcctcttctatggggc	9	15	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr1:248525719G>T	uc001ieh.1	+	1	837	c.837G>T	c.(835-837)GTG>GTT	p.V279V		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	279	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ACCTGACTGTGGTCATCCTCT	0.532													69	416	---	---	---	---	PASS	T	248525719	T	T	248525719	2	4	78	1	0	0	0	0	0	0	0	1	11027	1335	47	3		3	OR2T4	1	248525719	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	756143	248525719	724902	43	29645										
OTOF	9381	broad.mit.edu	37	chr2	26741909	26741909	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cattgttgtcatcaatcagcGtgtcagtcacctccacatgg	8	12	5	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:26741909G>A	uc002rhk.2	-	4	423	c.296C>T	c.(295-297)ACG>ATG	p.T99M	OTOF_uc010ylb.1_5'Flank	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	99	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATCAATCAGCGTGTCAGTCAC	0.577													6	43	---	---	---	---	PASS	A	26741909	A	A	26741909	3	1	78	1	0	0	0	0	1	0	0	0	11303	1145	40	1	6198	1	OTOF	2	26741909	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08		26741909	216457464	44	29646										
RASGRP3	25780	broad.mit.edu	37	chr2	33783884	33783884	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agccaggccacccagactgaAcctgtctggtcagaggctgg	13	13	2	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:33783884A>T	uc002rox.2	+	18	2478	c.1851A>T	c.(1849-1851)GAA>GAT	p.E617D	RASGRP3_uc010ync.1_Missense_Mutation_p.E617D|RASGRP3_uc002roy.2_Missense_Mutation_p.E616D	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	617					MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					CCCAGACTGAACCTGTCTGGT	0.552													15	152	---	---	---	---	PASS	T	33783884	T	T	33783884	3	4	78	1	0	0	0	0	1	0	0	0	13076	40	2	5	1909	5	RASGRP3	2	33783884	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	7041975	33783884	209415489	45	29647										
PREPL	9581	broad.mit.edu	37	chr2	44569631	44569631	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctcgatatacgtcatgacagCgaaggttcctctggaaggtg	12	9	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:44569631C>T	uc002ruf.2	-	5	712	c.677G>A	c.(676-678)CGC>CAC	p.R226H	PREPL_uc002rug.2_Missense_Mutation_p.R226H|PREPL_uc002ruh.2_Missense_Mutation_p.R226H|PREPL_uc010fax.2_Missense_Mutation_p.R226H|PREPL_uc002rui.3_Missense_Mutation_p.R137H|PREPL_uc002ruj.1_Missense_Mutation_p.R137H|PREPL_uc002ruk.1_Missense_Mutation_p.R226H	NM_006036	NP_006027	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like isoform C	226					proteolysis	cytosol	serine-type endopeptidase activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GTCATGACAGCGAAGGTTCCT	0.348													153	177	---	---	---	---	PASS	T	44569631	T	T	44569631	3	4	78	1	0	0	0	0	1	0	0	0	12475	768	27	1	1546	1	PREPL	2	44569631	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	10785747	44569631	198629742	46	29648										
PSME4	23198	broad.mit.edu	37	chr2	54146300	54146300	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttacttacaagttagtaactGgctctcctttcaacggaggt	8	9	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:54146300G>A	uc002rxp.2	-	20	2560	c.2504C>T	c.(2503-2505)CCA>CTA	p.P835L	PSME4_uc010yop.1_Missense_Mutation_p.P721L|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Missense_Mutation_p.P210L|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	835					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|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|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			GTTAGTAACTGGCTCTCCTTT	0.323													61	21	---	---	---	---	PASS	A	54146300	A	A	54146300	3	1	78	1	0	0	0	0	1	0	0	0	12709	1348	47	3	3135	3	PSME4	2	54146300	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	9576669	54146300	189053073	47	29649										
SPTBN1	6711	broad.mit.edu	37	chr2	54859735	54859735	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gctcacactgaaatgcctacCaccttggaaggagctgaagc	10	12	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:54859735C>A	uc002rxu.2	+	17	3846	c.3597C>A	c.(3595-3597)ACC>ACA	p.T1199T	SPTBN1_uc002rxx.2_Silent_p.T1186T	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1199	Spectrin 9.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			AAATGCCTACCACCTTGGAAG	0.433													179	91	---	---	---	---	PASS	A	54859735	A	A	54859735	2	1	78	1	0	0	0	0	0	0	0	1	15118	581	21	3		3	SPTBN1	2	54859735	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	713435	54859735	188339638	48	29650										
LRRTM4	80059	broad.mit.edu	37	chr2	77746338	77746338	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ggaaaatgagcaaagttgatCttggaaaactggttgtgctc	12	5	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:77746338C>T	uc002snr.2	-	3	1072	c.657G>A	c.(655-657)AAG>AAA	p.K219K	LRRTM4_uc002snq.2_Silent_p.K219K|LRRTM4_uc002sns.2_Silent_p.K219K|LRRTM4_uc002snt.2_Silent_p.K220K	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	219	LRR 7.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		CAAAGTTGATCTTGGAAAACT	0.453													60	51	---	---	---	---	PASS	T	77746338	T	T	77746338	2	4	78	1	0	0	0	0	0	0	0	1	9042	912	32	2		2	LRRTM4	2	77746338	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	22886603	77746338	165453035	49	29651										
EIF2AK3	9451	broad.mit.edu	37	chr2	88890344	88890344	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ggtgttaggtacctggtactCccattccagatgtcctccct	9	13	0	1	rs121908570		TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:88890344C>T	uc002stc.3	-	5	1196	c.994G>A	c.(994-996)GAG>AAG	p.E332K		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	332	Lumenal (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						ACCTGGTACTCCCATTCCAGA	0.433													11	441	---	---	---	---	PASS	T	88890344	T	T	88890344	3	4	78	1	0	0	0	0	1	0	0	0	4998	864	30	2	2408	2	EIF2AK3	2	88890344	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	11144006	88890344	154309029	50	29652										
VWA3B	200403	broad.mit.edu	37	chr2	98914457	98914457	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cgtgtccacctccttcatcaCgcctgtggggggcgccatgc	12	16	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:98914457C>T	uc002syo.2	+	24	3509	c.3245C>T	c.(3244-3246)ACG>ATG	p.T1082M	VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.T739M|VWA3B_uc002syp.1_Missense_Mutation_p.T474M|VWA3B_uc002syq.1_Missense_Mutation_p.T358M|VWA3B_uc002syr.1_Missense_Mutation_p.T399M|VWA3B_uc002sys.2_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	1082										ovary(3)|large_intestine(2)|skin(1)	6						TCCTTCATCACGCCTGTGGGG	0.577													13	132	---	---	---	---	PASS	T	98914457	T	T	98914457	3	4	78	1	0	0	0	0	1	0	0	0	17238	536	19	1	3335	1	VWA3B	2	98914457	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	10024113	98914457	144284916	51	29653										
RNF149	284996	broad.mit.edu	37	chr2	101893736	101893736	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccatgccgagagtcactcctGccggcttctgcaagagagca	11	14	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:101893736G>A	uc002taz.1	-	7	1269	c.1167C>T	c.(1165-1167)GGC>GGT	p.G389G	RNF149_uc002tax.1_Intron	NM_173647	NP_775918	Q8NC42	RN149_HUMAN	ring finger protein 149 precursor	389						integral to membrane	ligase activity|zinc ion binding			ovary(1)|breast(1)	2						AGTCACTCCTGCCGGCTTCTG	0.468													16	42	---	---	---	---	PASS	A	101893736	A	A	101893736	2	1	78	1	0	0	0	0	0	0	0	1	13450	1306	46	3		3	RNF149	2	101893736	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	2979279	101893736	141305637	52	29654										
WDR33	55339	broad.mit.edu	37	chr2	128471314	128471314	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atcagggggaaacggaggccCagggccccctcgcctccact	13	16	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:128471314C>A	uc002tpg.1	-	18	3334	c.3151G>T	c.(3151-3153)GGG>TGG	p.G1051W		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	1051					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		AACGGAGGCCCAGGGCCCCCT	0.657													114	100	---	---	---	---	PASS	A	128471314	A	A	128471314	3	1	78	1	0	0	0	0	1	0	0	0	17284	594	21	3	879	3	WDR33	2	128471314	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	26577578	128471314	114728059	53	29655										
NCKAP5	344148	broad.mit.edu	37	chr2	133539998	133539998	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gagaggggggcttctgaactCacagcatcagtcgcggttgc	15	10	3	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:133539998C>A	uc002ttp.2	-	14	4760	c.4386G>T	c.(4384-4386)GTG>GTT	p.V1462V	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1462							protein binding				0						CTTCTGAACTCACAGCATCAG	0.498													19	51	---	---	---	---	PASS	A	133539998	A	A	133539998	2	1	78	1	0	0	0	0	0	0	0	1	10223	813	29	2		2	NCKAP5	2	133539998	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	5068684	133539998	109659375	54	29656										
FIGN	55137	broad.mit.edu	37	chr2	164467354	164467354	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtaatttccataactggagtCcatatctccttgccctgcca	6	13	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:164467354C>A	uc002uck.1	-	3	1299	c.988G>T	c.(988-990)GAC>TAC	p.D330Y		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	330						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						TAACTGGAGTCCATATCTCCT	0.468													105	232	---	---	---	---	PASS	A	164467354	A	A	164467354	3	1	78	1	0	0	0	0	1	0	0	0	5891	855	30	2	1295	2	FIGN	2	164467354	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	30927356	164467354	78732019	55	29657										
LRP2	4036	broad.mit.edu	37	chr2	170029717	170029717	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gaattctgtgaagttgtcacAgagatgggcagagctcactg	13	7	3	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:170029717A>G	uc002ues.2	-	57	11245	c.11032T>C	c.(11032-11034)TGT>CGT	p.C3678R		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3678	LDL-receptor class A 30.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AAGTTGTCACAGAGATGGGCA	0.473													34	83	---	---	---	---	PASS	G	170029717	G	G	170029717	3	3	78	1	0	0	0	0	1	0	0	0	8956	188	7	5	3027	5	LRP2	2	170029717	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	5562363	170029717	73169656	56	29658										
LRP2	4036	broad.mit.edu	37	chr2	170059405	170059405	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccattgtccacaatgcagtgCttcctgttgttggccaaata	8	11	0	0	rs144284604		TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:170059405C>T	uc002ues.2	-	43	8283	c.8070G>A	c.(8068-8070)AAG>AAA	p.K2690K		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2690	EGF-like 10.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CAATGCAGTGCTTCCTGTTGT	0.493													57	163	---	---	---	---	PASS	T	170059405	T	T	170059405	2	4	78	1	0	0	0	0	0	0	0	1	8956	796	28	3		3	LRP2	2	170059405	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	29688	170059405	73139968	57	29659										
UBR3	130507	broad.mit.edu	37	chr2	170936431	170936431	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agaaaaacctgtagtgtctgCaccaaggttcctaaagatcc	8	10	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:170936431C>T	uc010zdi.1	+	37	5307	c.5307C>T	c.(5305-5307)TGC>TGT	p.C1769C	UBR3_uc002ufr.3_RNA|UBR3_uc010fqa.2_Silent_p.C590C|UBR3_uc002uft.3_Silent_p.C626C|UBR3_uc010zdj.1_Silent_p.C460C|UBR3_uc002ufu.3_Silent_p.C275C	NM_172070	NP_742067	Q6ZT12	UBR3_HUMAN	E3 ubiquitin-protein ligase UBR3	1769	Cys-rich.				sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0						GTAGTGTCTGCACCAAGGTTC	0.403													143	144	---	---	---	---	PASS	T	170936431	T	T	170936431	2	4	78	1	0	0	0	0	0	0	0	1	16900	718	25	3		3	UBR3	2	170936431	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	877026	170936431	72262942	58	29660										
KIAA1715	80856	broad.mit.edu	37	chr2	176794704	176794704	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ggaagcatttactactctgcCgtcaaagattctccacttag	7	11	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:176794704C>T	uc002ukc.1	-	13	1471	c.1278G>A	c.(1276-1278)ACG>ACA	p.T426T	KIAA1715_uc010zer.1_Silent_p.T457T|KIAA1715_uc010fqw.1_Silent_p.T492T|KIAA1715_uc010zes.1_Silent_p.T428T|KIAA1715_uc002ukd.1_Silent_p.T303T|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	426	Cytoplasmic (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			ACTACTCTGCCGTCAAAGATT	0.428													37	153	---	---	---	---	PASS	T	176794704	T	T	176794704	2	4	78	1	0	0	0	0	0	0	0	1	8254	639	23	1		1	KIAA1715	2	176794704	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	5858273	176794704	66404669	59	29661										
TTN	7273	broad.mit.edu	37	chr2	179594173	179594173	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttttgctgcttcgaatttccCtgttattcttcagccaagtg	7	10	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:179594173C>T	uc010zfg.1	-	61	15202	c.14978G>A	c.(14977-14979)AGG>AAG	p.R4993K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.R1654K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5920							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)			TCGAATTTCCCTGTTATTCTT	0.458													66	222	---	---	---	---	PASS	T	179594173	T	T	179594173	3	4	78	1	0	0	0	0	1	0	0	0	16732	681	24	3	86015	3	TTN	2	179594173	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	2799469	179594173	63605200	60	29662										
TTN	7273	broad.mit.edu	37	chr2	179614216	179614216	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tttgaaaatagtcccttactGaatattcttttacatttgtc	4	7	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:179614216G>C	uc002unb.2	-	46	13135	c.12911C>G	c.(12910-12912)TCA>TGA	p.S4304*	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			GTCCCTTACTGAATATTCTTT	0.408													86	99	---	---	---	---	PASS	C	179614216	C	C	179614216	4	2	78	1	0	0	0	0	0	1	0	0	16732	1294	45	2	97386	2	TTN	2	179614216	Nonsense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	20043	179614216	63585157	61	29663										
NEUROD1	4760	broad.mit.edu	37	chr2	182543416	182543416	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctcatcttcgtcctcctcctCtcccccgttcctcagtgagt	5	19	4	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:182543416C>G	uc002uof.2	-	2	408	c.172G>C	c.(172-174)GAG>CAG	p.E58Q	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	58	Glu-rich (acidic).				amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			tcctcctcctcTCCCCCGTTC	0.398													15	14	---	---	---	---	PASS	G	182543416	G	G	182543416	3	3	78	1	0	0	0	0	1	0	0	0	10348	922	32	2	902	2	NEUROD1	2	182543416	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	2929200	182543416	60655957	62	29664										
FAM171B	165215	broad.mit.edu	37	chr2	187625902	187625902	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acacagtgtttcttacagccAtattaggaggaacaatagtc	8	8	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:187625902A>G	uc002ups.2	+	7	1187	c.1075A>G	c.(1075-1077)ATA>GTA	p.I359V	FAM171B_uc002upr.1_Missense_Mutation_p.I359V|FAM171B_uc002upt.2_5'Flank	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	359	Helical; (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						TCTTACAGCCATATTAGGAGG	0.328													37	114	---	---	---	---	PASS	G	187625902	G	G	187625902	3	3	78	1	0	0	0	0	1	0	0	0	5491	217	8	5	1101	5	FAM171B	2	187625902	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	5082486	187625902	55573471	63	29665										
GLS	2744	broad.mit.edu	37	chr2	191795219	191795219	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	attcttttagttgtccccaaTgttatgggtatgatgtgctg	10	6	1	1	rs3207595		TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:191795219T>A	uc002usf.2	+	13	1746	c.1482T>A	c.(1480-1482)AAT>AAA	p.N494K	GLS_uc002use.2_Missense_Mutation_p.N494K|GLS_uc002usg.1_Missense_Mutation_p.N155K|GLS_uc002ush.2_Missense_Mutation_p.N155K|GLS_uc010zgi.1_Missense_Mutation_p.N65K|GLS_uc010zgj.1_5'UTR	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	494					cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TTGTCCCCAATGTTATGGGTA	0.373													22	157	---	---	---	---	PASS	A	191795219	A	A	191795219	3	1	78	1	0	0	0	0	1	0	0	0	6463	1461	51	5	1532	5	GLS	2	191795219	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	4169317	191795219	51404154	64	29666										
ZDBF2	57683	broad.mit.edu	37	chr2	207173840	207173840	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	caaaggtggtacttgtggatCtggtgcccggtgatagtgat	15	6	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:207173840C>A	uc002vbp.2	+	5	4838	c.4588C>A	c.(4588-4590)CTG>ATG	p.L1530M		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1530							nucleic acid binding|zinc ion binding			ovary(3)	3						ACTTGTGGATCTGGTGCCCGG	0.398													8	65	---	---	---	---	PASS	A	207173840	A	A	207173840	3	1	78	1	0	0	0	0	1	0	0	0	17596	912	32	2	4598	2	ZDBF2	2	207173840	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	15378621	207173840	36025533	65	29667										
ZDBF2	57683	broad.mit.edu	37	chr2	207176077	207176077	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cttttgaactcttcagttccAccagctggtgccgaagagct	9	12	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:207176077A>T	uc002vbp.2	+	5	7075	c.6825A>T	c.(6823-6825)CCA>CCT	p.P2275P		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	2275							nucleic acid binding|zinc ion binding			ovary(3)	3						CTTCAGTTCCACCAGCTGGTG	0.493													6	21	---	---	---	---	PASS	T	207176077	T	T	207176077	2	4	78	1	0	0	0	0	0	0	0	1	17596	146	6	5		5	ZDBF2	2	207176077	Silent	SNP	A	TCGA-37-4133-01A-01D-1352-08	2237	207176077	36023296	66	29668										
CAB39	51719	broad.mit.edu	37	chr2	231658041	231658041	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aatattttgttcatgttattGaaagggtatgtacaatgtaa	8	2	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:231658041G>T	uc002vqx.2	+	4	825	c.393G>T	c.(391-393)TTG>TTT	p.L131F	CAB39_uc010fxr.2_Missense_Mutation_p.L131F|CAB39_uc010fxq.2_Missense_Mutation_p.L131F	NM_016289	NP_057373	Q9Y376	CAB39_HUMAN	calcium binding protein 39	131					cell cycle arrest|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol	kinase binding			central_nervous_system(1)	1		all_lung(227;4.63e-07)|all_hematologic(139;1.83e-06)|Lung NSC(271;2.11e-05)|Acute lymphoblastic leukemia(138;5.51e-05)|Hepatocellular(293;0.0207)|Lung SC(224;0.187)		all cancers(144;1.64e-12)|Epithelial(121;5.29e-11)|LUSC - Lung squamous cell carcinoma(224;0.0154)|Lung(119;0.0177)|COAD - Colon adenocarcinoma(134;0.226)		TCATGTTATTGAAAGGGTATG	0.343													26	81	---	---	---	---	PASS	T	231658041	T	T	231658041	3	4	78	1	0	0	0	0	1	0	0	0	2525	1281	45	2	403	2	CAB39	2	231658041	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	24481964	231658041	11541332	67	29669										
INPP5D	3635	broad.mit.edu	37	chr2	234112939	234112939	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aatgccgcggaaggaaccccCgccctgcccggaacccggca	12	18	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr2:234112939C>A	uc010zmo.1	+	25	3296	c.3143C>A	c.(3142-3144)CCG>CAG	p.P1048Q	INPP5D_uc010zmp.1_Missense_Mutation_p.P1047Q	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	1048	SH3-binding 3.|Pro-rich.				apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		AAGGAACCCCCGCCCTGCCCG	0.657													47	40	---	---	---	---	PASS	A	234112939	A	A	234112939	3	1	78	1	0	0	0	0	1	0	0	0	7756	652	23	1	2753	1	INPP5D	2	234112939	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	2454898	234112939	9086434	68	29670										
ATG7	10533	broad.mit.edu	37	chr3	11350508	11350508	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cttgaaaaccctgtactcctCaacaagttcctcctcttgac	4	15	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:11350508C>G	uc003bwc.2	+	5	501	c.384C>G	c.(382-384)CTC>CTG	p.L128L	ATG7_uc003bwd.2_Silent_p.L128L|ATG7_uc011aum.1_Silent_p.L128L	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	128					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						CTGTACTCCTCAACAAGTTCC	0.468													232	172	---	---	---	---	PASS	G	11350508	G	G	11350508	2	3	78	1	0	0	0	0	0	0	0	1	1101	813	29	2		2	ATG7	3	11350508	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08		11350508	186671922	69	29671										
ZCWPW2	152098	broad.mit.edu	37	chr3	28566160	28566160	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	taaatttaaagaaatagatgCtttgatgtctgagttttaga	8	2	1	5			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:28566160C>A	uc003ceh.2	+	10	1220	c.1052C>A	c.(1051-1053)GCT>GAT	p.A351D	ZCWPW2_uc003cei.2_Missense_Mutation_p.A351D|ZCWPW2_uc010hfo.2_Missense_Mutation_p.A156D	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	351							zinc ion binding			ovary(2)	2						GAAATAGATGCTTTGATGTCT	0.234													37	17	---	---	---	---	PASS	A	28566160	A	A	28566160	3	1	78	1	0	0	0	0	1	0	0	0	17595	797	28	3	1082	3	ZCWPW2	3	28566160	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	17215652	28566160	169456270	70	29672										
CNTN3	5067	broad.mit.edu	37	chr3	74383978	74383978	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gatgatgtctaacagcgggtCatgttgtacctggcagggca	14	8	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:74383978C>T	uc003dpm.1	-	12	1656	c.1576G>A	c.(1576-1578)GAC>AAC	p.D526N		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	526	Ig-like C2-type 6.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		AACAGCGGGTCATGTTGTACC	0.418													52	74	---	---	---	---	PASS	T	74383978	T	T	74383978	3	4	78	1	0	0	0	0	1	0	0	0	3642	826	29	2	1554	2	CNTN3	3	74383978	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	45817818	74383978	123638452	71	29673										
ROBO2	6092	broad.mit.edu	37	chr3	77571935	77571935	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tttctacacaggtatgacatCaaagacgattacacactaag	6	9	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:77571935C>T	uc003dpy.3	+	6	1459	c.816C>T	c.(814-816)ATC>ATT	p.I272I	ROBO2_uc003dpz.2_Silent_p.I272I|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Silent_p.I272I	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	272	Ig-like C2-type 3.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		GGTATGACATCAAAGACGATT	0.328													24	70	---	---	---	---	PASS	T	77571935	T	T	77571935	2	4	78	1	0	0	0	0	0	0	0	1	13514	816	29	2		2	ROBO2	3	77571935	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	3187957	77571935	120450495	72	29674										
ROBO2	6092	broad.mit.edu	37	chr3	77637988	77637988	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgaagcaaccagcctttataGctggtattggtggtgcctgc	12	9	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:77637988G>A	uc003dpy.3	+	17	3230	c.2587G>A	c.(2587-2589)GCT>ACT	p.A863T	ROBO2_uc003dpz.2_Missense_Mutation_p.A867T|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.A867T|ROBO2_uc003dqa.2_5'UTR	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	863	Helical; (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		AGCCTTTATAGCTGGTATTGG	0.418													39	47	---	---	---	---	PASS	A	77637988	A	A	77637988	3	1	78	1	0	0	0	0	1	0	0	0	13514	971	34	3	2655	3	ROBO2	3	77637988	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	66053	77637988	120384442	73	29675										
VGLL3	389136	broad.mit.edu	37	chr3	87018024	87018024	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cgtcatgcatatggctgtagGatgggctcacctgagatgtc	13	9	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:87018024G>C	uc003dqn.2	-	3	1017	c.653C>G	c.(652-654)TCC>TGC	p.S218C		NM_016206	NP_057290	A8MV65	VGLL3_HUMAN	colon carcinoma related protein	218					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)		ATGGCTGTAGGATGGGCTCAC	0.483													3	61	---	---	---	---	PASS	C	87018024	C	C	87018024	3	2	78	1	0	0	0	0	1	0	0	0	17157	1174	41	2	335	2	VGLL3	3	87018024	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	9380036	87018024	111004406	74	29676										
ST3GAL6	10402	broad.mit.edu	37	chr3	98512603	98512603	+	Nonstop_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	taatcaacttgactcaagatTgactctacagactcagaaga	6	9	4	6			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:98512603T>A	uc003dsz.2	+	10	1230	c.994T>A	c.(994-996)TGA>AGA	p.*332R	ST3GAL6_uc003dsy.2_Nonstop_Mutation_p.*246R|ST3GAL6_uc003dta.2_Nonstop_Mutation_p.*214R|ST3GAL6_uc003dtb.2_Nonstop_Mutation_p.*188R|ST3GAL6_uc003dtc.2_Nonstop_Mutation_p.*332R|ST3GAL6_uc010hpd.2_Nonstop_Mutation_p.*385R	NM_006100	NP_006091	Q9Y274	SIA10_HUMAN	alpha2,3-sialyltransferase VI	332					amino sugar metabolic process|glycolipid metabolic process|protein glycosylation|protein lipoylation	integral to Golgi membrane	sialyltransferase activity			ovary(1)	1						GACTCAAGATTGACTCTACAG	0.323													239	132	---	---	---	---	PASS	A	98512603	A	A	98512603	4	1	78	1	0	0	0	0	0	0	0	0	15218	1825	63	5	1028	5	ST3GAL6	3	98512603	Nonstop_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	11494579	98512603	99509827	75	29677										
MORC1	27136	broad.mit.edu	37	chr3	108776294	108776294	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cttcggttttctacgttcacTccatagaacagggagagcgt	10	10	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:108776294T>A	uc003dxl.2	-	13	1158	c.1071A>T	c.(1069-1071)GGA>GGT	p.G357G	MORC1_uc011bhn.1_Silent_p.G357G	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	357					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						CTACGTTCACTCCATAGAACA	0.338													42	382	---	---	---	---	PASS	A	108776294	A	A	108776294	2	1	78	1	0	0	0	0	0	0	0	1	9701	1538	54	5		5	MORC1	3	108776294	Silent	SNP	T	TCGA-37-4133-01A-01D-1352-08	10263691	108776294	89246136	76	29678										
BOC	91653	broad.mit.edu	37	chr3	112969595	112969595	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctcgtcatcactgcccttaaCaaccacactgtgggacggta	8	14	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:112969595C>A	uc003dzx.2	+	4	912	c.291C>A	c.(289-291)AAC>AAA	p.N97K	BOC_uc010hqi.2_Missense_Mutation_p.N97K|BOC_uc003dzy.2_Missense_Mutation_p.N97K|BOC_uc003dzz.2_Missense_Mutation_p.N97K|BOC_uc003dzw.1_Missense_Mutation_p.N97K|BOC_uc003eaa.1_Missense_Mutation_p.N97K	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	97	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			CTGCCCTTAACAACCACACTG	0.597													18	173	---	---	---	---	PASS	A	112969595	A	A	112969595	3	1	78	1	0	0	0	0	1	0	0	0	1481	477	17	3	297	3	BOC	3	112969595	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	4193301	112969595	85052835	77	29679										
WDR52	55779	broad.mit.edu	37	chr3	113145025	113145025	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccagagtcacaaaaggcatcGaagcaagctccatataatca	7	11	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:113145025G>A	uc003eae.1	-	4	399	c.353C>T	c.(352-354)TCG>TTG	p.S118L		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	118										central_nervous_system(1)	1						AAAAGGCATCGAAGCAAGCTC	0.413													79	821	---	---	---	---	PASS	A	113145025	A	A	113145025	3	1	78	1	0	0	0	0	1	0	0	0	17301	1059	37	2	5354	2	WDR52	3	113145025	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	175430	113145025	84877405	78	29680										
KIAA1407	57577	broad.mit.edu	37	chr3	113755617	113755617	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtactttcctcttcttcctcCaaatagccacataaatctgg	4	13	3	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:113755617C>T	uc003eax.2	-	5	579	c.432G>A	c.(430-432)TTG>TTA	p.L144L	KIAA1407_uc011bin.1_RNA|KIAA1407_uc011bio.1_Silent_p.L122L|KIAA1407_uc011bip.1_Silent_p.L131L	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	144										ovary(2)	2						CTTCTTCCTCCAAATAGCCAC	0.308													37	244	---	---	---	---	PASS	T	113755617	T	T	113755617	2	4	78	1	0	0	0	0	0	0	0	1	8229	593	21	3		3	KIAA1407	3	113755617	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	610592	113755617	84266813	79	29681										
ZBTB20	26137	broad.mit.edu	37	chr3	114070037	114070037	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gacaggtagcgctccatctgCtgcgagcgctcatggatgcg	14	12	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:114070037C>T	uc003ebi.2	-	4	1068	c.888G>A	c.(886-888)CAG>CAA	p.Q296Q	ZBTB20_uc003ebj.2_Silent_p.Q223Q|ZBTB20_uc010hqp.2_Silent_p.Q223Q|ZBTB20_uc003ebk.2_Silent_p.Q223Q|ZBTB20_uc003ebl.2_Silent_p.Q223Q|ZBTB20_uc003ebm.2_Silent_p.Q223Q|ZBTB20_uc003ebn.2_Silent_p.Q223Q|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	296					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GCTCCATCTGCTGCGAGCGCT	0.667													49	336	---	---	---	---	PASS	T	114070037	T	T	114070037	2	4	78	1	0	0	0	0	0	0	0	1	17526	796	28	3		3	ZBTB20	3	114070037	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	314420	114070037	83952393	80	29682										
KTELC1	56983	broad.mit.edu	37	chr3	119211230	119211230	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	attcctgtcttataatgtaaCgagaaggaaaggttatgatc	9	5	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:119211230C>T	uc003ecm.2	+	11	1208	c.1124C>T	c.(1123-1125)ACG>ATG	p.T375M	KTELC1_uc011bja.1_Missense_Mutation_p.T216M	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	375						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		TATAATGTAACGAGAAGGAAA	0.383													84	310	---	---	---	---	PASS	T	119211230	T	T	119211230	3	4	78	1	0	0	0	0	1	0	0	0	8583	536	19	1	1166	1	KTELC1	3	119211230	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	5141193	119211230	78811200	81	29683										
HGD	3081	broad.mit.edu	37	chr3	120394658	120394658	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cctgtccttctggcagggaaCctgggcagcgaggatcctct	13	13	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:120394658C>T	uc003edw.2	-	2	438	c.68G>A	c.(67-69)GGT>GAT	p.G23D		NM_000187	NP_000178	Q93099	HGD_HUMAN	homogentisate 1,2-dioxygenase	23					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	homogentisate 1,2-dioxygenase activity|metal ion binding				0				GBM - Glioblastoma multiforme(114;0.158)		TGGCAGGGAACCTGGGCAGCG	0.468													27	382	---	---	---	---	PASS	T	120394658	T	T	120394658	3	4	78	1	0	0	0	0	1	0	0	0	7084	507	18	3	1321	3	HGD	3	120394658	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	1183428	120394658	77627772	82	29684										
PARP15	165631	broad.mit.edu	37	chr3	122354820	122354820	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aggattagtcacccctccacCcaagaatcctcacaatccca	4	17	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:122354820C>T	uc003efm.2	+	12	1976	c.1910C>T	c.(1909-1911)CCC>CTC	p.P637L	PARP15_uc003efn.2_Missense_Mutation_p.P442L|PARP15_uc003efo.1_Missense_Mutation_p.P384L|PARP15_uc003efp.1_Missense_Mutation_p.P403L|PARP15_uc011bjt.1_Missense_Mutation_p.P334L	NM_001113523	NP_001106995	Q460N3	PAR15_HUMAN	poly (ADP-ribose) polymerase family, member 15	615	PARP catalytic.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	NAD+ ADP-ribosyltransferase activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)	5				GBM - Glioblastoma multiforme(114;0.0531)		ACCCCTCCACCCAAGAATCCT	0.458													32	258	---	---	---	---	PASS	T	122354820	T	T	122354820	3	4	78	1	0	0	0	0	1	0	0	0	11459	623	22	3	2025	3	PARP15	3	122354820	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	1960162	122354820	75667610	83	29685										
SEMA5B	54437	broad.mit.edu	37	chr3	122645393	122645393	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtcctccagcaggaatcggcCccccacgtcattcttgcaca	8	17	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:122645393C>T	uc003efz.1	-	9	1286	c.982G>A	c.(982-984)GGC>AGC	p.G328S	SEMA5B_uc011bju.1_Missense_Mutation_p.G270S|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.G328S|SEMA5B_uc010hro.1_Missense_Mutation_p.G270S|SEMA5B_uc010hrp.1_RNA	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	328	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		AGGAATCGGCCCCCCACGTCA	0.612													18	97	---	---	---	---	PASS	T	122645393	T	T	122645393	3	4	78	1	0	0	0	0	1	0	0	0	14038	623	22	3	2533	3	SEMA5B	3	122645393	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	290573	122645393	75377037	84	29686										
IFT122	55764	broad.mit.edu	37	chr3	129183505	129183505	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aatgatggtcagtacctggcGctggggatgttcaatgggat	15	6	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:129183505G>A	uc003emm.2	+	7	650	c.444G>A	c.(442-444)GCG>GCA	p.A148A	IFT122_uc003eml.2_Silent_p.A199A|IFT122_uc003emn.2_Silent_p.A148A|IFT122_uc003emo.2_Silent_p.A96A|IFT122_uc003emp.2_5'UTR|IFT122_uc010htc.2_Silent_p.A199A|IFT122_uc011bky.1_5'UTR|IFT122_uc003emq.2_Intron|IFT122_uc003emr.2_5'UTR|IFT122_uc011bla.1_5'UTR|IFT122_uc011bkx.1_Intron|IFT122_uc011bkz.1_RNA	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	148	WD 4.				camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						AGTACCTGGCGCTGGGGATGT	0.517													60	536	---	---	---	---	PASS	A	129183505	A	A	129183505	2	1	78	1	0	0	0	0	0	0	0	1	7555	1074	38	1		1	IFT122	3	129183505	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	6538112	129183505	68838925	85	29687										
ACAD11	84129	broad.mit.edu	37	chr3	132294745	132294745	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccaggtccaaggcggccttgGgaaatttcaaatcccctacc	9	14	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:132294745G>A	uc003eov.3	-	17	2252	c.1872C>T	c.(1870-1872)TCC>TCT	p.S624S		NM_032169	NP_115545	Q709F0	ACD11_HUMAN	putative acyl-CoA dehydrogenase	624						peroxisome	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|transferase activity, transferring phosphorus-containing groups			ovary(1)	1						GGCGGCCTTGGGAAATTTCAA	0.478													106	252	---	---	---	---	PASS	A	132294745	A	A	132294745	2	1	78	1	0	0	0	0	0	0	0	1	109	1219	43	3		3	ACAD11	3	132294745	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	3111240	132294745	65727685	86	29688										
ZIC1	7545	broad.mit.edu	37	chr3	147127973	147127973	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cgcgtcccgccaccactccgCgggcgacgtggccgaacgag	14	18	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:147127973C>T	uc003ewe.2	+	1	793	c.74C>T	c.(73-75)GCG>GTG	p.A25V		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	25					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CACCACTCCGCGGGCGACGTG	0.716													35	96	---	---	---	---	PASS	T	147127973	T	T	147127973	3	4	78	1	0	0	0	0	1	0	0	0	17675	768	27	1	76	1	ZIC1	3	147127973	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	14833228	147127973	50894457	87	29689										
AADACL2	344752	broad.mit.edu	37	chr3	151458463	151458463	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tttgaaaatatgcgtattatGagatatgaagagtttatatc	8	2	0	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:151458463G>A	uc003ezc.2	+	2	288	c.168G>A	c.(166-168)ATG>ATA	p.M56I	AADACL2_uc010hvn.2_Intron	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2 precursor	56						extracellular region|integral to membrane	carboxylesterase activity				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			TGCGTATTATGAGATATGAAG	0.274													84	209	---	---	---	---	PASS	A	151458463	A	A	151458463	3	1	78	1	0	0	0	0	1	0	0	0	11	1290	45	2	174	2	AADACL2	3	151458463	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	4330490	151458463	46563967	88	29690										
PLCH1	23007	broad.mit.edu	37	chr3	155199554	155199554	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tagataagaaatactttgagTtttgacatcttgaatattgt	7	3	1	5			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:155199554T>A	uc011bok.1	-	23	4562	c.4285A>T	c.(4285-4287)ACT>TCT	p.T1429S	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.T1391S	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1429					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			ATACTTTGAGTTTTGACATCT	0.418													44	487	---	---	---	---	PASS	A	155199554	A	A	155199554	3	1	78	1	0	0	0	0	1	0	0	0	12037	1725	60	5	800	5	PLCH1	3	155199554	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	3741091	155199554	42822876	89	29691										
SLC7A14	57709	broad.mit.edu	37	chr3	170198775	170198775	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccatcaatgtcactctcaggTtggtatcgaaggagcaagac	10	10	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:170198775T>C	uc003fgz.2	-	7	1612	c.1296A>G	c.(1294-1296)CAA>CAG	p.Q432Q	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	432						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			CACTCTCAGGTTGGTATCGAA	0.498													45	458	---	---	---	---	PASS	C	170198775	C	C	170198775	2	2	78	1	0	0	0	0	0	0	0	1	14696	1722	60	5		5	SLC7A14	3	170198775	Silent	SNP	T	TCGA-37-4133-01A-01D-1352-08	14999221	170198775	27823655	90	29692										
GHSR	2693	broad.mit.edu	37	chr3	172165997	172165997	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtgcgcagctcgcggaagcgCgacaccaccagcatggtgag	15	13	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:172165997C>A	uc003fib.1	-	1	207	c.207G>T	c.(205-207)TCG>TCT	p.S69S	GHSR_uc011bpv.1_Silent_p.S69S	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	69	Cytoplasmic (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)			CGCGGAAGCGCGACACCACCA	0.657													163	71	---	---	---	---	PASS	A	172165997	A	A	172165997	2	1	78	1	0	0	0	0	0	0	0	1	6375	755	27	1		1	GHSR	3	172165997	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	1967222	172165997	25856433	91	29693										
USP13	8975	broad.mit.edu	37	chr3	179460014	179460014	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atcggctcagaaaacccaagCgatgtttttcgttttttggt	9	8	1	1	rs140308745		TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:179460014C>T	uc003fkh.2	+	12	1491	c.1410C>T	c.(1408-1410)AGC>AGT	p.S470S	USP13_uc003fkf.2_Silent_p.S470S	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	470					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			AAAACCCAAGCGATGTTTTTC	0.453													67	192	---	---	---	---	PASS	T	179460014	T	T	179460014	2	4	78	1	0	0	0	0	0	0	0	1	17041	767	27	1		1	USP13	3	179460014	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	7294017	179460014	18562416	92	29694										
EHHADH	1962	broad.mit.edu	37	chr3	184910689	184910689	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tctacctcctctggtttgctGccttcttctaacaagaaata	5	12	4	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:184910689G>A	uc003fpf.2	-	7	1524	c.1497C>T	c.(1495-1497)GGC>GGT	p.G499G	EHHADH_uc011brs.1_Silent_p.G403G	NM_001966	NP_001957	Q08426	ECHP_HUMAN	enoyl-Coenzyme A, hydratase/3-hydroxyacyl	499	3-hydroxyacyl-CoA dehydrogenase.					peroxisome	3-hydroxyacyl-CoA dehydrogenase activity|coenzyme binding|dodecenoyl-CoA delta-isomerase activity|enoyl-CoA hydratase activity			ovary(3)	3	all_cancers(143;4.04e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.98e-32)|OV - Ovarian serous cystadenocarcinoma(80;5.55e-21)		NADH(DB00157)	CTGGTTTGCTGCCTTCTTCTA	0.418													73	531	---	---	---	---	PASS	A	184910689	A	A	184910689	2	1	78	1	0	0	0	0	0	0	0	1	4982	1306	46	3		3	EHHADH	3	184910689	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	5450675	184910689	13111741	93	29695										
TPRG1	285386	broad.mit.edu	37	chr3	188956628	188956628	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgagttgtgtgcagctgcagCggattcctctgagcgctgtc	14	10	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:188956628C>T	uc003frv.1	+	9	1636	c.409C>T	c.(409-411)CGG>TGG	p.R137W	TPRG1_uc003frw.1_Missense_Mutation_p.R137W	NM_198485	NP_940887	Q6ZUI0	TPRG1_HUMAN	tumor protein p63 regulated 1	137											0	all_cancers(143;6.12e-12)|all_hematologic(3;0.0359)|Ovarian(172;0.0925)	all_lung(153;8.23e-09)|Lung NSC(153;3.55e-06)|all_neural(597;0.0019)|Myeloproliferative disorder(1037;0.0255)	Lung(62;6.93e-06)	GBM - Glioblastoma multiforme(93;4.77e-14)		GCAGCTGCAGCGGATTCCTCT	0.478													16	581	---	---	---	---	PASS	T	188956628	T	T	188956628	3	4	78	1	0	0	0	0	1	0	0	0	16415	759	27	1	419	1	TPRG1	3	188956628	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	4045939	188956628	9065802	94	29696										
FYTTD1	84248	broad.mit.edu	37	chr3	197505211	197505211	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttaatatttttctaatagaaCtcagaaaccacgattaactc	3	8	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr3:197505211C>T	uc003fyi.2	+	8	953	c.734C>T	c.(733-735)ACT>ATT	p.T245I	FYTTD1_uc011bui.1_Missense_Mutation_p.T219I|FYTTD1_uc011buj.1_RNA|FYTTD1_uc011buk.1_Missense_Mutation_p.T178I	NM_032288	NP_115664	Q96QD9	UIF_HUMAN	forty-two-three domain containing 1 isoform 1	245					mRNA export from nucleus	nuclear speck	mRNA binding|protein binding				0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.175)		TCTAATAGAACTCAGAAACCA	0.343													22	155	---	---	---	---	PASS	T	197505211	T	T	197505211	3	4	78	1	0	0	0	0	1	0	0	0	6127	565	20	3	793	3	FYTTD1	3	197505211	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	8548583	197505211	517219	95	29697										
MAEA	10296	broad.mit.edu	37	chr4	1316281	1316281	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgacaacaagtcccggctccGgaagatgaaggtgcacggac	13	11	0	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr4:1316281G>A	uc003gda.2	+	4	599	c.569G>A	c.(568-570)CGG>CAG	p.R190Q	MAEA_uc010ibs.1_Intron|MAEA_uc003gdb.2_Intron|MAEA_uc011bvb.1_Missense_Mutation_p.R122Q|MAEA_uc003gdc.2_Intron|MAEA_uc003gdd.2_Intron|MAEA_uc011bvc.1_Missense_Mutation_p.R189Q|MAEA_uc011bvd.1_Missense_Mutation_p.R142Q|MAEA_uc010ibt.2_Intron	NM_001017405	NP_001017405	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher isoform 1	190	CTLH.				cell adhesion|cell cycle|cell division|erythrocyte maturation|negative regulation of myeloid cell apoptosis|regulation of mitotic cell cycle	actomyosin contractile ring|integral to plasma membrane|membrane fraction|nuclear matrix|spindle	actin binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0201)			TCCCGGCTCCGGAAGATGAAG	0.657													38	31	---	---	---	---	PASS	A	1316281	A	A	1316281	3	1	78	1	0	0	0	0	1	0	0	0	9153	1116	39	1	583	1	MAEA	4	1316281	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08		1316281	189837995	96	29698										
CEP135	9662	broad.mit.edu	37	chr4	56823455	56823455	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgatgaaccggttcctccctCtgaagtcagttcatatccag	8	12	3	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr4:56823455C>G	uc003hbi.2	+	5	773	c.539C>G	c.(538-540)TCT>TGT	p.S180C	CEP135_uc003hbh.1_Missense_Mutation_p.S180C|CEP135_uc010igz.1_Missense_Mutation_p.S10C	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	180					centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					GTTCCTCCCTCTGAAGTCAGT	0.418													55	177	---	---	---	---	PASS	G	56823455	G	G	56823455	3	3	78	1	0	0	0	0	1	0	0	0	3247	913	32	2	553	2	CEP135	4	56823455	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	55507174	56823455	134330821	97	29699										
WDFY3	23001	broad.mit.edu	37	chr4	85598453	85598453	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctgtcaccaccttcatccttCacccagtgatcagcagcaga	6	16	4	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr4:85598453C>G	uc003hpd.2	-	67	10764	c.10356G>C	c.(10354-10356)GTG>GTC	p.V3452V	WDFY3_uc003hpc.2_Silent_p.V207V	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	3452						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CTTCATCCTTCACCCAGTGAT	0.557													27	55	---	---	---	---	PASS	G	85598453	G	G	85598453	2	3	78	1	0	0	0	0	0	0	0	1	17267	813	29	2		2	WDFY3	4	85598453	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	28774998	85598453	105555823	98	29700										
PDHA2	5161	broad.mit.edu	37	chr4	96762125	96762125	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	taactactgtagatctggaaAggggcccatactgatggagc	12	8	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr4:96762125A>C	uc003htr.3	+	1	887	c.824A>C	c.(823-825)AAG>ACG	p.K275T		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	275					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	AGATCTGGAAAGGGGCCCATA	0.453													10	110	---	---	---	---	PASS	C	96762125	C	C	96762125	3	2	78	1	0	0	0	0	1	0	0	0	11665	72	3	5	826	5	PDHA2	4	96762125	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	11163672	96762125	94392151	99	29701										
NDST4	64579	broad.mit.edu	37	chr4	115997955	115997955	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gctctccacgaagagaaggaCagtagggtccgttttggatg	14	8	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr4:115997955C>A	uc003ibu.2	-	2	917	c.238G>T	c.(238-240)GTC>TTC	p.V80F	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	80	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		AAGAGAAGGACAGTAGGGTCC	0.443													47	108	---	---	---	---	PASS	A	115997955	A	A	115997955	3	1	78	1	0	0	0	0	1	0	0	0	10258	478	17	3	2432	3	NDST4	4	115997955	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	19235830	115997955	75156321	100	29702										
LRBA	987	broad.mit.edu	37	chr4	151749383	151749383	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccacagatagatcaccaaggGctccaaggcaggctggtggc	13	12	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr4:151749383G>A	uc010ipj.2	-	30	5594	c.5120C>T	c.(5119-5121)GCC>GTC	p.A1707V	LRBA_uc003ilt.3_Missense_Mutation_p.A366V|LRBA_uc003ilu.3_Missense_Mutation_p.A1707V	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1707						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					ATCACCAAGGGCTCCAAGGCA	0.433													73	70	---	---	---	---	PASS	A	151749383	A	A	151749383	3	1	78	1	0	0	0	0	1	0	0	0	8931	1203	42	3	3587	3	LRBA	4	151749383	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	35751428	151749383	39404893	101	29703										
GUCY1A3	2982	broad.mit.edu	37	chr4	156631983	156631983	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cccggcatcataaaggcagcTgctcacgtattatatgaaac	8	11	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr4:156631983T>C	uc003iov.2	+	7	1202	c.666T>C	c.(664-666)GCT>GCC	p.A222A	GUCY1A3_uc003iou.2_Silent_p.A222A|GUCY1A3_uc010iqc.2_Silent_p.A222A|GUCY1A3_uc003iow.2_Silent_p.A222A|GUCY1A3_uc010iqd.2_Silent_p.A221A|GUCY1A3_uc003iox.2_Silent_p.A222A|GUCY1A3_uc003ioz.2_5'UTR|GUCY1A3_uc003ioy.2_Silent_p.A222A|GUCY1A3_uc010iqe.2_5'UTR|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Silent_p.A222A	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	222					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		TAAAGGCAGCTGCTCACGTAT	0.443													42	66	---	---	---	---	PASS	C	156631983	C	C	156631983	2	2	78	1	0	0	0	0	0	0	0	1	6894	1567	55	5		5	GUCY1A3	4	156631983	Silent	SNP	T	TCGA-37-4133-01A-01D-1352-08	4882600	156631983	34522293	102	29704										
TRIM60	166655	broad.mit.edu	37	chr4	165961430	165961430	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	caagagcttcaggaggaaccCccagctccgtaatttgactg	10	12	1	2	rs148893149	byFrequency	TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr4:165961430C>T	uc003iqy.1	+	3	376	c.206C>T	c.(205-207)CCC>CTC	p.P69L	TRIM60_uc010iqx.1_Missense_Mutation_p.P69L	NM_152620	NP_689833	Q495X7	TRI60_HUMAN	ring finger protein 129	69						intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0844)		AGGAGGAACCCCCAGCTCCGT	0.468													50	52	---	---	---	---	PASS	T	165961430	T	T	165961430	3	4	78	1	0	0	0	0	1	0	0	0	16532	623	22	3	208	3	TRIM60	4	165961430	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	9329447	165961430	25192846	103	29705										
DNAH5	1767	broad.mit.edu	37	chr5	13864617	13864617	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agggtggttatcctttcccaGtgccgctccatcatggcttt	10	12	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr5:13864617G>T	uc003jfd.2	-	28	4527	c.4485C>A	c.(4483-4485)CAC>CAA	p.H1495Q		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1495	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TCCTTTCCCAGTGCCGCTCCA	0.473									Kartagener_syndrome				68	111	---	---	---	---	PASS	T	13864617	T	T	13864617	3	4	78	1	0	0	0	0	1	0	0	0	4604	1020	36	3	9597	3	DNAH5	5	13864617	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08		13864617	167050643	104	29706										
CDH10	1008	broad.mit.edu	37	chr5	24491937	24491937	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	taagattctggcagtattatCtaaaacaaattttaaaatat	4	4	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr5:24491937C>A	uc003jgr.1	-	11	1957	c.1625_splice	c.e11-1	p.D542_splice	CDH10_uc011cnu.1_Splice_Site	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		GCAGTATTATCTAAAACAAAT	0.274										HNSCC(23;0.051)			14	41	---	---	---	---	PASS	A	24491937	A	A	24491937	5	1	78	1	0	0	0	0	0	0	1	0	3096	927	32	2	750	2	CDH10	5	24491937	Splice_Site	SNP	C	TCGA-37-4133-01A-01D-1352-08	10627320	24491937	156423323	105	29707										
CDH10	1008	broad.mit.edu	37	chr5	24498596	24498596	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aacatccaaaattctcacaaAaacagccacgcgtgttgtct	5	12	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr5:24498596A>C	uc003jgr.1	-	9	1758	c.1426T>G	c.(1426-1428)TTT>GTT	p.F476V	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	476	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ATTCTCACAAAAACAGCCACG	0.393										HNSCC(23;0.051)			81	149	---	---	---	---	PASS	C	24498596	C	C	24498596	3	2	78	1	0	0	0	0	1	0	0	0	3096	14	1	5	956	5	CDH10	5	24498596	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	6659	24498596	156416664	106	29708										
PTGER4	5734	broad.mit.edu	37	chr5	40692343	40692343	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cagagacctcagactcttcaCagggtcaggactcagagagt	11	11	5	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr5:40692343C>G	uc003jlz.2	+	3	1922	c.1330C>G	c.(1330-1332)CAG>GAG	p.Q444E		NM_000958	NP_000949	P35408	PE2R4_HUMAN	prostaglandin E receptor 4, subtype EP4	444	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|immune response	integral to membrane|plasma membrane	prostaglandin E receptor activity			lung(2)	2						AGACTCTTCACAGGGTCAGGA	0.587													45	68	---	---	---	---	PASS	G	40692343	G	G	40692343	3	3	78	1	0	0	0	0	1	0	0	0	12745	479	17	4	1336	4	PTGER4	5	40692343	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	16193747	40692343	140222917	107	29709										
HEATR7B2	133558	broad.mit.edu	37	chr5	41004483	41004483	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccttgtttgcagcactatttCcttgaagtagaagctcacgt	8	10	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr5:41004483C>A	uc003jmj.3	-	37	4649	c.4159G>T	c.(4159-4161)GAA>TAA	p.E1387*	HEATR7B2_uc003jmi.3_Nonsense_Mutation_p.E942*	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1387	HEAT 15.						binding			ovary(6)|central_nervous_system(2)	8						AGCACTATTTCCTTGAAGTAG	0.458													133	235	---	---	---	---	PASS	A	41004483	A	A	41004483	4	1	78	1	0	0	0	0	0	1	0	0	7035	864	30	2	622	2	HEATR7B2	5	41004483	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	312140	41004483	139910777	108	29710										
HCN1	348980	broad.mit.edu	37	chr5	45396630	45396630	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cgcctcgaagaatccagagaCtggattaaagcggtggcatg	13	9	0	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr5:45396630C>T	uc003jok.2	-	4	1219	c.1194G>A	c.(1192-1194)CAG>CAA	p.Q398Q		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	398	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						AATCCAGAGACTGGATTAAAG	0.473													46	65	---	---	---	---	PASS	T	45396630	T	T	45396630	2	4	78	1	0	0	0	0	0	0	0	1	6996	564	20	3		3	HCN1	5	45396630	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	4392147	45396630	135518630	109	29711										
MAN2A1	4124	broad.mit.edu	37	chr5	109190950	109190950	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	taagttctcctcacctacccTtgagctgcaaggtgaattct	7	12	3	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr5:109190950T>C	uc003kou.1	+	20	4049	c.3086T>C	c.(3085-3087)CTT>CCT	p.L1029P		NM_002372	NP_002363	Q16706	MA2A1_HUMAN	mannosidase, alpha, class 2A, member 1	1029	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(142;8.66e-07)|all_epithelial(76;7.73e-09)|Prostate(80;0.000303)|Lung NSC(167;0.0186)|all_lung(232;0.0241)|Ovarian(225;0.0444)|Colorectal(57;0.0959)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;2.17e-10)|Epithelial(69;1.37e-09)|COAD - Colon adenocarcinoma(37;0.141)		TCACCTACCCTTGAGCTGCAA	0.398													3	102	---	---	---	---	PASS	C	109190950	C	C	109190950	3	2	78	1	0	0	0	0	1	0	0	0	9214	1609	56	5	3164	5	MAN2A1	5	109190950	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	63794320	109190950	71724310	110	29712										
PRR16	51334	broad.mit.edu	37	chr5	120021815	120021815	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gcttattaaacccccagcacAcccgtctgctatcctcacgg	6	17	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr5:120021815A>T	uc003ksq.2	+	2	489	c.326A>T	c.(325-327)CAC>CTC	p.H109L	PRR16_uc003ksp.2_Missense_Mutation_p.H86L|PRR16_uc003ksr.2_Missense_Mutation_p.H39L	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16	109	Pro-rich.									pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		CCCCCAGCACACCCGTCTGCT	0.527													135	56	---	---	---	---	PASS	T	120021815	T	T	120021815	3	4	78	1	0	0	0	0	1	0	0	0	12589	159	6	5	263	5	PRR16	5	120021815	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	10830865	120021815	60893445	111	29713										
PCDHB10	56126	broad.mit.edu	37	chr5	140574310	140574310	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cctcggtgggtcgctgctcgGtgcccgagggtccttttcca	14	14	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr5:140574310G>T	uc003lix.2	+	1	2359	c.2185G>T	c.(2185-2187)GTG>TTG	p.V729L		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	729	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGCTGCTCGGTGCCCGAGGG	0.672													88	48	---	---	---	---	PASS	T	140574310	T	T	140574310	3	4	78	1	0	0	0	0	1	0	0	0	11535	1261	44	3	2187	3	PCDHB10	5	140574310	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	20552495	140574310	40340950	112	29714										
PCDHGA1	56114	broad.mit.edu	37	chr5	140711925	140711925	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctgctggaccagaacgacaaCgcgcccgagatcctgtaccc	10	16	0	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr5:140711925C>T	uc003lji.1	+	1	1674	c.1674C>T	c.(1672-1674)AAC>AAT	p.N558N	PCDHGA1_uc011dan.1_Silent_p.N558N	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	558	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAACGACAACGCGCCCGAGA	0.647													10	254	---	---	---	---	PASS	T	140711925	T	T	140711925	2	4	78	1	0	0	0	0	0	0	0	1	11550	535	19	1		1	PCDHGA1	5	140711925	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	137615	140711925	40203335	113	29715										
PCDH1	5097	broad.mit.edu	37	chr5	141244788	141244788	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ggtcacaaccacctgggcacGggcactcttggggttggtgc	15	12	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr5:141244788G>A	uc003llq.2	-	3	1225	c.1108C>T	c.(1108-1110)CGT>TGT	p.R370C	PCDH1_uc003llp.2_Missense_Mutation_p.R370C|PCDH1_uc011dbf.1_Missense_Mutation_p.R348C	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	370	Extracellular (Potential).|Cadherin 3.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding	p.R370C(1)		ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		ACCTGGGCACGGGCACTCTTG	0.572													13	134	---	---	---	---	PASS	A	141244788	A	A	141244788	3	1	78	1	0	0	0	0	1	0	0	0	11506	1116	39	1	2701	1	PCDH1	5	141244788	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	532863	141244788	39670472	114	29716										
CYFIP2	26999	broad.mit.edu	37	chr5	156757807	156757807	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aattatggcgtcatcattccGtatccaccgtccaatcgcta	6	13	2	0	rs141399379	by1000genomes	TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr5:156757807G>A	uc003lwq.2	+	22	2352	c.2214G>A	c.(2212-2214)CCG>CCA	p.P738P	CYFIP2_uc011ddn.1_Silent_p.P712P|CYFIP2_uc011ddo.1_Silent_p.P542P|CYFIP2_uc003lwr.2_Silent_p.P738P|CYFIP2_uc003lws.2_Silent_p.P738P|CYFIP2_uc003lwt.2_Silent_p.P641P|CYFIP2_uc011ddp.1_Silent_p.P472P	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	763					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)			TCATCATTCCGTATCCACCGT	0.483													28	82	---	---	---	---	PASS	A	156757807	A	A	156757807	2	1	78	1	0	0	0	0	0	0	0	1	4138	1132	40	1		1	CYFIP2	5	156757807	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	15513019	156757807	24157453	115	29717										
HIVEP1	3096	broad.mit.edu	37	chr6	12120635	12120635	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcgatgtcttactgaaagcaAtggagccagaactgagcacc	10	10	1	3	rs140801617	by1000genomes	TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:12120635A>G	uc003nac.2	+	4	786	c.607A>G	c.(607-609)ATG>GTG	p.M203V	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	203					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				ACTGAAAGCAATGGAGCCAGA	0.448													122	94	---	---	---	---	PASS	G	12120635	G	G	12120635	3	3	78	1	0	0	0	0	1	0	0	0	7186	101	4	5	617	5	HIVEP1	6	12120635	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08		12120635	158994432	116	29718										
HIST1H4I	8294	broad.mit.edu	37	chr6	27107122	27107122	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	caaaggaggtaagggcctggGgaaagggggtgccaagcgcc	19	8	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:27107122G>A	uc003niy.1	+	1	35	c.35G>A	c.(34-36)GGG>GAG	p.G12E	HIST1H2BK_uc003nix.1_Intron	NM_003495	NP_003486	P62805	H4_HUMAN	histone cluster 1, H4i	12					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			lung(1)	1						AAGGGCCTGGGGAAAGGGGGT	0.592			T	BCL6	NHL								20	115	---	---	---	---	PASS	A	27107122	A	A	27107122	3	1	78	1	0	0	0	0	1	0	0	0	7173	1232	43	3	37	3	HIST1H4I	6	27107122	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	14986487	27107122	144007945	117	29719										
OR2J3	442186	broad.mit.edu	37	chr6	29079672	29079672	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tctcaggtaataggaaatgaAtgatgatggaaaagtcaatg	11	3	2	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:29079672A>T	uc011dll.1	+	1	5	c.5A>T	c.(4-6)AAT>ATT	p.N2I		NM_001005216	NP_001005216	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J,	2	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TAGGAAATGAATGATGATGGA	0.264													291	229	---	---	---	---	PASS	T	29079672	T	T	29079672	3	4	78	1	0	0	0	0	1	0	0	0	11004	101	4	5	7	5	OR2J3	6	29079672	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	1972550	29079672	142035395	118	29720										
ZFP57	346171	broad.mit.edu	37	chr6	29640930	29640930	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cactggtgcatggttcacatCcaaaagcccctggatggacc	10	13	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:29640930C>T	uc011dlw.1	-	4	1109	c.958G>A	c.(958-960)GAT>AAT	p.D320N	ZFP57_uc003nnl.3_Missense_Mutation_p.D300N	NM_001109809	NP_001103279	Q9NU63	ZFP57_HUMAN	zinc finger protein 57 homolog	236					DNA methylation involved in embryo development|regulation of gene expression by genetic imprinting|transcription, DNA-dependent		DNA binding|zinc ion binding			ovary(3)|skin(2)	5						TGGTTCACATCCAAAAGCCCC	0.537													236	173	---	---	---	---	PASS	T	29640930	T	T	29640930	3	4	78	1	0	0	0	0	1	0	0	0	17648	855	30	2	656	2	ZFP57	6	29640930	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	561258	29640930	141474137	119	29721										
CFB	629	broad.mit.edu	37	chr6	31914821	31914821	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccacacgacttcgagaacggGgaatactggccccggtctcc	11	15	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:31914821G>T	uc003nyj.3	+	3	614	c.336G>T	c.(334-336)GGG>GGT	p.G112G	CFB_uc011dor.1_Silent_p.G614G|CFB_uc011dos.1_3'UTR|CFB_uc003nyi.2_Silent_p.G112G	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	112	Sushi 2.				complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						TCGAGAACGGGGAATACTGGC	0.537													37	185	---	---	---	---	PASS	T	31914821	T	T	31914821	2	4	78	1	0	0	0	0	0	0	0	1	3278	1219	43	3		3	CFB	6	31914821	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	2273891	31914821	139200246	120	29722										
GLP1R	2740	broad.mit.edu	37	chr6	39046732	39046732	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgcatctctctccctccccaGctgctggaccaggaactcca	7	18	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:39046732G>A	uc003ooj.3	+	9	945	c.885_splice	c.e9-1	p.G295_splice	GLP1R_uc003ooh.2_Splice_Site|GLP1R_uc003ooi.2_Splice_Site	NM_002062	NP_002053	P43220	GLP1R_HUMAN	glucagon-like peptide 1 receptor precursor						activation of adenylate cyclase activity|cAMP-mediated signaling|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	glucagon receptor activity|peptide receptor activity, G-protein coupled			lung(3)|breast(1)|pancreas(1)	5					Exenatide(DB01276)|Glucagon recombinant(DB00040)	TCCCTCCCCAGCTGCTGGACC	0.582													80	348	---	---	---	---	PASS	A	39046732	A	A	39046732	5	1	78	1	0	0	0	0	0	0	1	0	6452	985	34	3	918	3	GLP1R	6	39046732	Splice_Site	SNP	G	TCGA-37-4133-01A-01D-1352-08	7131911	39046732	132068335	121	29723										
GCM1	8521	broad.mit.edu	37	chr6	52993720	52993720	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agttaaaggtaaactcccctGactttgtgtttcacctggaa	8	9	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:52993720G>T	uc003pbp.2	-	6	804	c.595C>A	c.(595-597)CAG>AAG	p.Q199K		NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	199						transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					AAACTCCCCTGACTTTGTGTT	0.433													175	132	---	---	---	---	PASS	T	52993720	T	T	52993720	3	4	78	1	0	0	0	0	1	0	0	0	6297	1299	45	2	719	2	GCM1	6	52993720	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	13946988	52993720	118121347	122	29724										
PRIM2	5558	broad.mit.edu	37	chr6	57472417	57472417	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	caaaagttgcagtcatacaaGatctctcctggagggataag	10	8	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:57472417G>T	uc003pdx.2	+	13	1293	c.1206G>T	c.(1204-1206)AAG>AAT	p.K402N		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	402					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		AGTCATACAAGATCTCTCCTG	0.433													9	112	---	---	---	---	PASS	T	57472417	T	T	57472417	3	4	78	1	0	0	0	0	1	0	0	0	12491	933	33	2	1248	2	PRIM2	6	57472417	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	4478697	57472417	113642650	123	29725										
IBTK	25998	broad.mit.edu	37	chr6	82924287	82924287	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	catgtcaggatgaaccttctCtaccacaaagagatggcacc	8	12	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:82924287C>A	uc003pjl.1	-	12	2388	c.1861G>T	c.(1861-1863)GAG>TAG	p.E621*	IBTK_uc011dyv.1_Nonsense_Mutation_p.E621*|IBTK_uc011dyw.1_Intron|IBTK_uc010kbi.1_Nonsense_Mutation_p.E315*|IBTK_uc003pjm.2_Nonsense_Mutation_p.E621*	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	621	BTB 1.				negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		TGAACCTTCTCTACCACAAAG	0.323													19	140	---	---	---	---	PASS	A	82924287	A	A	82924287	4	1	78	1	0	0	0	0	0	1	0	0	7476	922	32	2	2272	2	IBTK	6	82924287	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	25451870	82924287	88190780	124	29726										
TBX18	9096	broad.mit.edu	37	chr6	85446865	85446865	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctcacgcccacataggagggAgtcctgggcggggcaaaggt	16	11	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:85446865A>G	uc003pkl.1	-	8	1362	c.1362T>C	c.(1360-1362)ACT>ACC	p.T454T	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	454					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		CATAGGAGGGAGTCCTGGGCG	0.602													42	287	---	---	---	---	PASS	G	85446865	G	G	85446865	2	3	78	1	0	0	0	0	0	0	0	1	15650	291	11	5		5	TBX18	6	85446865	Silent	SNP	A	TCGA-37-4133-01A-01D-1352-08	2522578	85446865	85668202	125	29727										
SNX14	57231	broad.mit.edu	37	chr6	86253440	86253440	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aagagacagcatttcatcatTtgataattctggtcgtaaaa	7	6	3	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:86253440T>C	uc003pkr.2	-	13	1340	c.1147A>G	c.(1147-1149)AAT>GAT	p.N383D	SNX14_uc003pkp.2_Missense_Mutation_p.N246D|SNX14_uc003pkq.2_5'UTR|SNX14_uc011dzg.1_Missense_Mutation_p.N331D|SNX14_uc003pks.2_Missense_Mutation_p.N339D|SNX14_uc003pkt.2_Missense_Mutation_p.N383D	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a	383	RGS.				cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		ATTTCATCATTTGATAATTCT	0.254													9	59	---	---	---	---	PASS	C	86253440	C	C	86253440	3	2	78	1	0	0	0	0	1	0	0	0	14885	1841	64	5	1761	5	SNX14	6	86253440	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	806575	86253440	84861627	126	29728										
ZNF292	23036	broad.mit.edu	37	chr6	87965905	87965905	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttcatctggagattccattcAgccttctgaagtgaatcaga	8	9	5	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:87965905A>T	uc003plm.3	+	8	2599	c.2558A>T	c.(2557-2559)CAG>CTG	p.Q853L		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	853					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		GATTCCATTCAGCCTTCTGAA	0.413													19	154	---	---	---	---	PASS	T	87965905	T	T	87965905	3	4	78	1	0	0	0	0	1	0	0	0	17823	188	7	5	2588	5	ZNF292	6	87965905	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	1712465	87965905	83149162	127	29729										
CDC40	51362	broad.mit.edu	37	chr6	110541048	110541048	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atttgtgagcacatctgatgAtaaaagcctaagagtttggg	11	5	1	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:110541048A>T	uc003pua.2	+	12	1340	c.1316A>T	c.(1315-1317)GAT>GTT	p.D439V		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	439	WD 4.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		ACATCTGATGATAAAAGCCTA	0.378													45	91	---	---	---	---	PASS	T	110541048	T	T	110541048	3	4	78	1	0	0	0	0	1	0	0	0	3070	333	12	5	1362	5	CDC40	6	110541048	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	22575143	110541048	60574019	128	29730										
KIAA1244	57221	broad.mit.edu	37	chr6	138635047	138635047	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cagtgaggatggaattgaatCagtcctgtctgattttgatg	12	5	2	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:138635047C>T	uc003qhu.2	+	26	4316	c.4316C>T	c.(4315-4317)TCA>TTA	p.S1439L		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1439					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		GGAATTGAATCAGTCCTGTCT	0.428													18	29	---	---	---	---	PASS	T	138635047	T	T	138635047	3	4	78	1	0	0	0	0	1	0	0	0	8217	838	29	2	4418	2	KIAA1244	6	138635047	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	28093999	138635047	32480020	129	29731										
TFB1M	51106	broad.mit.edu	37	chr6	155635434	155635434	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctgctaagccatccacctgtCagcctcaagtccaggaggaa	9	14	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:155635434C>G	uc003qqj.3	-	1	193	c.129G>C	c.(127-129)CTG>CTC	p.L43L	TFB1M_uc003qqk.2_RNA	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	43					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		ATCCACCTGTCAGCCTCAAGT	0.612													9	30	---	---	---	---	PASS	G	155635434	G	G	155635434	2	3	78	1	0	0	0	0	0	0	0	1	15790	813	29	2		2	TFB1M	6	155635434	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	17000387	155635434	15479633	130	29732										
QKI	9444	broad.mit.edu	37	chr6	163956076	163956076	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gaagatttacatgtactaatCactgtggaagatgctcagaa	9	6	2	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:163956076C>T	uc003qui.2	+	4	1016	c.465C>T	c.(463-465)ATC>ATT	p.I155I	QKI_uc003que.2_Silent_p.I155I|QKI_uc003quf.2_Silent_p.I155I|QKI_uc003qug.2_Silent_p.I155I|QKI_uc003quh.2_Silent_p.I155I|QKI_uc003quj.2_Silent_p.I155I	NM_006775	NP_006766	Q96PU8	QKI_HUMAN	quaking homolog, KH domain RNA binding isoform	155					mRNA processing|mRNA transport|regulation of translation|RNA splicing	cytoplasm|nucleus|plasma membrane	RNA binding|SH3 domain binding			large_intestine(1)|ovary(1)	2		Breast(66;5e-05)|Prostate(117;0.0235)|all_neural(5;0.0416)|Ovarian(120;0.0448)|Glioma(2;0.203)		all cancers(1;4.4e-46)|OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|GBM - Glioblastoma multiforme(1;2.94e-19)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|Kidney(3;0.000199)|KIRC - Kidney renal clear cell carcinoma(3;0.000234)		ATGTACTAATCACTGTGGAAG	0.348													13	128	---	---	---	---	PASS	T	163956076	T	T	163956076	2	4	78	1	0	0	0	0	0	0	0	1	12873	816	29	2		2	QKI	6	163956076	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	8320642	163956076	7158991	131	29733										
C6orf70	55780	broad.mit.edu	37	chr6	170175438	170175438	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aagaactcactcggcaagccGtcaggtgcgtggcatcctgg	13	12	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr6:170175438G>T	uc003qxg.1	+	14	1423	c.1390G>T	c.(1390-1392)GTC>TTC	p.V464F	C6orf70_uc011ehb.1_Missense_Mutation_p.V338F|C6orf70_uc003qxh.1_Missense_Mutation_p.V464F|C6orf70_uc010kky.1_Missense_Mutation_p.V338F|C6orf70_uc003qxi.1_Missense_Mutation_p.V112F	NM_018341	NP_060811	Q5T6L9	CF070_HUMAN	hypothetical protein LOC55780	464						integral to membrane				ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.2e-22)|BRCA - Breast invasive adenocarcinoma(81;1.49e-07)|GBM - Glioblastoma multiforme(31;0.00191)		TCGGCAAGCCGTCAGGTGCGT	0.512													13	32	---	---	---	---	PASS	T	170175438	T	T	170175438	3	4	78	1	0	0	0	0	1	0	0	0	2370	1145	40	1	1444	1	C6orf70	6	170175438	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	6219362	170175438	939629	132	29734										
THSD7A	221981	broad.mit.edu	37	chr7	11422150	11422150	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gagaaactggaggtttacctGttacatttataccatctgac	8	8	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:11422150G>A	uc003ssf.3	-	23	4757	c.4505C>T	c.(4504-4506)ACA>ATA	p.T1502I	uc003ssb.2_Intron|THSD7A_uc003ssd.3_5'Flank	NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1502	Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		AGGTTTACCTGTTACATTTAT	0.403										HNSCC(18;0.044)			12	49	---	---	---	---	PASS	A	11422150	A	A	11422150	3	1	78	1	0	0	0	0	1	0	0	0	15876	1377	48	3	488	3	THSD7A	7	11422150	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08		11422150	147716513	133	29735										
DPY19L1	23333	broad.mit.edu	37	chr7	34971211	34971211	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttttacaacttctaggacttTgtaaacactgttctggaata	6	7	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:34971211T>C	uc003tem.3	-	22	2147	c.2002A>G	c.(2002-2004)AAA>GAA	p.K668E	DPY19L1_uc003tel.1_RNA	NM_015283	NP_056098	Q2PZI1	D19L1_HUMAN	dpy-19-like 1	668						integral to membrane					0						TCTAGGACTTTGTAAACACTG	0.408													23	137	---	---	---	---	PASS	C	34971211	C	C	34971211	3	2	78	1	0	0	0	0	1	0	0	0	4740	1821	63	5	29	5	DPY19L1	7	34971211	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	23549061	34971211	124167452	134	29736										
TXNDC3	51314	broad.mit.edu	37	chr7	37907413	37907413	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgaagaaaccgaaccacagaCtgacaccgaacctaacgaac	7	13	0	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:37907413C>T	uc003tfn.2	+	11	1103	c.731C>T	c.(730-732)ACT>ATT	p.T244I		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	244	NDK 1.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						GAACCACAGACTGACACCGAA	0.433									Kartagener_syndrome				24	84	---	---	---	---	PASS	T	37907413	T	T	37907413	3	4	78	1	0	0	0	0	1	0	0	0	16795	565	20	3	765	3	TXNDC3	7	37907413	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	2936202	37907413	121231250	135	29737										
GTF2IRD1	9569	broad.mit.edu	37	chr7	73969796	73969796	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tccggggaccctctggtggaCgagagcctgaagagacaggg	17	10	1	3	rs145914970	byFrequency	TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:73969796C>T	uc003uaq.2	+	19	2433	c.2040C>T	c.(2038-2040)GAC>GAT	p.D680D	GTF2IRD1_uc010lbq.2_Silent_p.D697D|GTF2IRD1_uc003uap.2_Silent_p.D665D|GTF2IRD1_uc003uar.1_Silent_p.D665D	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	680						nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CTCTGGTGGACGAGAGCCTGA	0.607													19	97	---	---	---	---	PASS	T	73969796	T	T	73969796	2	4	78	1	0	0	0	0	0	0	0	1	6868	535	19	1		1	GTF2IRD1	7	73969796	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	36062383	73969796	85168867	136	29738										
CACNA2D1	781	broad.mit.edu	37	chr7	81695831	81695831	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gagttctactattatcaaccCatggtgaagctaaaaaaaaa	6	7	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:81695831C>A	uc003uhr.1	-	8	924	c.668G>T	c.(667-669)TGG>TTG	p.W223L		NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	223	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	ATTATCAACCCATGGTGAAGC	0.279													14	33	---	---	---	---	PASS	A	81695831	A	A	81695831	3	1	78	1	0	0	0	0	1	0	0	0	2548	595	21	3	2735	3	CACNA2D1	7	81695831	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	7726035	81695831	77442832	137	29739										
SEMA3D	223117	broad.mit.edu	37	chr7	84649630	84649630	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctgacaactttgaggacagtTccaatgtctgaaaaaatgca	8	8	1	3	rs111882229		TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:84649630T>A	uc003uic.2	-	12	1462	c.1422A>T	c.(1420-1422)GGA>GGT	p.G474G	SEMA3D_uc010led.2_Silent_p.G474G|SEMA3D_uc003uib.2_Silent_p.G113G	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	474	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						TGAGGACAGTTCCAATGTCTG	0.403													75	56	---	---	---	---	PASS	A	84649630	A	A	84649630	2	1	78	1	0	0	0	0	0	0	0	1	14027	1770	62	5		5	SEMA3D	7	84649630	Silent	SNP	T	TCGA-37-4133-01A-01D-1352-08	2953799	84649630	74489033	138	29740										
CROT	54677	broad.mit.edu	37	chr7	87027922	87027923	+	Frame_Shift_Del	DEL	CA	-	-													0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agctgactttttgtgcttttCatgatatgatacagctgatg							TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:87027922_87027923delCA	uc003uit.2	+	18	2046_2047	c.1801_1802delCA	c.(1801-1803)CATfs	p.H601fs	CROT_uc003uiu.2_Frame_Shift_Del_p.H629fs	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	601					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	TTGTGCTTTTCATGATATGATA	0.396													107	133	---	---	---	---		-	87027923	-	-	87027922	7	5	78	1	0	1	0	1	0	0	0	0	3894	826	29	0	1951	0	CROT	7	87027922	Frame_Shift_Del	DEL	CA	TCGA-37-4133-01A-01D-1352-08	2378292	87027922	72110741	139	29741										
HEPACAM2	253012	broad.mit.edu	37	chr7	92848753	92848754	+	Frame_Shift_Ins	INS	-	A	A													0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ggcactgtcaccttcagcccINScgagcaagcacctgttgcaa							TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:92848753_92848754insA	uc003umm.2	-	2	113_114	c.90_91insT	c.(88-93)TCGGGGfs	p.S30fs	HEPACAM2_uc003uml.2_Frame_Shift_Ins_p.S18fs|HEPACAM2_uc010lff.2_Frame_Shift_Ins_p.S18fs|HEPACAM2_uc011khy.1_Frame_Shift_Ins_p.S53fs	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	30_31			G -> R (in a breast cancer sample; somatic mutation).			integral to membrane		p.G19R(1)		ovary(3)|breast(1)|kidney(1)	5						ACCTTCAGCCCCGAGCAAGCAC	0.515													198	190	---	---	---	---		A	92848754	A	A	92848753	7	5	78	1	0	1	1	0	0	0	0	0	7053	623	22	0	1333	0	HEPACAM2	7	92848753	Frame_Shift_Ins	INS	-	TCGA-37-4133-01A-01D-1352-08	5820831	92848753	66289910	140	29742										
DYNC1I1	1780	broad.mit.edu	37	chr7	95657515	95657515	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gatgtcggtctgcttcgcccGtttccatcctaacttggtgg	11	12	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:95657515G>A	uc003uoc.3	+	11	1326	c.1049G>A	c.(1048-1050)CGT>CAT	p.R350H	DYNC1I1_uc003uod.3_Missense_Mutation_p.R333H|DYNC1I1_uc003uob.2_Missense_Mutation_p.R313H|DYNC1I1_uc003uoe.3_Missense_Mutation_p.R330H|DYNC1I1_uc010lfl.2_Missense_Mutation_p.R339H	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	350	WD 2.				vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			TGCTTCGCCCGTTTCCATCCT	0.512													377	282	---	---	---	---	PASS	A	95657515	A	A	95657515	3	1	78	1	0	0	0	0	1	0	0	0	4842	1145	40	1	1087	1	DYNC1I1	7	95657515	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	2808762	95657515	63481148	141	29743										
ORC5L	5001	broad.mit.edu	37	chr7	103801611	103801611	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctagtggaaatggttttggcCcaaggagatgattgcttgtc	13	6	0	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:103801611C>A	uc003vcb.2	-	12	1169	c.1058G>T	c.(1057-1059)GGG>GTG	p.G353V	ORC5L_uc011klp.1_Missense_Mutation_p.G221V	NM_002553	NP_002544	O43913	ORC5_HUMAN	origin recognition complex subunit 5 isoform 1	353					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	cytoplasm|nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|identical protein binding				0						TGGTTTTGGCCCAAGGAGATG	0.363													136	122	---	---	---	---	PASS	A	103801611	A	A	103801611	3	1	78	1	0	0	0	0	1	0	0	0	11265	623	22	3	261	3	ORC5L	7	103801611	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	8144096	103801611	55337052	142	29744										
LHFPL3	375612	broad.mit.edu	37	chr7	103969662	103969662	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aagatatgtgcctggatgcaGctcacctccggtgagtgcgc	13	11	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:103969662G>T	uc003vce.2	+	1	559	c.435G>T	c.(433-435)CAG>CAT	p.Q145H	LHFPL3_uc003vcf.2_Missense_Mutation_p.Q145H	NM_199000	NP_945351	Q86UP9	LHPL3_HUMAN	lipoma HMGIC fusion partner-like 3	131	Helical; (Potential).					integral to membrane					0						CCTGGATGCAGCTCACCTCCG	0.642													35	131	---	---	---	---	PASS	T	103969662	T	T	103969662	3	4	78	1	0	0	0	0	1	0	0	0	8766	962	34	3	437	3	LHFPL3	7	103969662	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	168051	103969662	55169001	143	29745										
RINT1	60561	broad.mit.edu	37	chr7	105204390	105204390	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctgcaaaattgtataaaaaaGaaaggtatgtcctctatgta	7	5	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:105204390G>C	uc003vda.1	+	12	2113	c.1882G>C	c.(1882-1884)GAA>CAA	p.E628Q	RINT1_uc010ljj.1_Missense_Mutation_p.E203Q	NM_021930	NP_068749	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1	628	RINT1/TIP20.				cell cycle|G2/M transition DNA damage checkpoint|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane	protein binding			ovary(3)|central_nervous_system(1)	4						GTATAAAAAAGAAAGGTATGT	0.353													83	57	---	---	---	---	PASS	C	105204390	C	C	105204390	3	2	78	1	0	0	0	0	1	0	0	0	13376	943	33	2	1928	2	RINT1	7	105204390	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	1234728	105204390	53934273	144	29746										
FAM71F2	346653	broad.mit.edu	37	chr7	128317840	128317840	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	actcactgcctggtgcccaaGatgcccaccaactccacaga	7	17	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:128317840G>T	uc003vnk.3	+	3	694	c.588G>T	c.(586-588)AAG>AAT	p.K196N	FAM71F2_uc010llm.1_Missense_Mutation_p.K187N|FAM71F2_uc003vnl.2_RNA|FAM71F2_uc010lln.1_RNA	NM_001012454	NP_001012457	Q6NXP2	F71F2_HUMAN	hypothetical protein LOC346653 isoform a	196											0						TGGTGCCCAAGATGCCCACCA	0.453													12	45	---	---	---	---	PASS	T	128317840	T	T	128317840	3	4	78	1	0	0	0	0	1	0	0	0	5613	933	33	2	598	2	FAM71F2	7	128317840	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	23113450	128317840	30820823	145	29747										
WDR91	29062	broad.mit.edu	37	chr7	134878009	134878009	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cttcatggttttcgtgtcccAcagcagcagcctgccaggaa	10	13	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:134878009A>G	uc003vsp.2	-	11	1695	c.1633T>C	c.(1633-1635)TGG>CGG	p.W545R	WDR91_uc010lmq.2_Missense_Mutation_p.W134R|WDR91_uc010lmr.2_RNA	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91	545	WD 3.									breast(2)|ovary(1)|skin(1)	4						TTCGTGTCCCACAGCAGCAGC	0.607													30	80	---	---	---	---	PASS	G	134878009	G	G	134878009	3	3	78	1	0	0	0	0	1	0	0	0	17335	159	6	5	630	5	WDR91	7	134878009	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	6560169	134878009	24260654	146	29748										
KLRG2	346689	broad.mit.edu	37	chr7	139164406	139164406	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agcagggggagggtagcgtgGtaggctgagcagaaagcctg	20	6	0	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr7:139164406G>A	uc003vvb.2	-	3	1041	c.972C>T	c.(970-972)TAC>TAT	p.Y324Y	KLRG2_uc010lnc.2_Intron	NM_198508	NP_940910	A4D1S0	KLRG2_HUMAN	killer cell lectin-like receptor subfamily G,	324	C-type lectin.					integral to membrane	sugar binding			central_nervous_system(1)	1	Melanoma(164;0.233)					GGGTAGCGTGGTAGGCTGAGC	0.527													159	151	---	---	---	---	PASS	A	139164406	A	A	139164406	2	1	78	1	0	0	0	0	0	0	0	1	8422	1256	44	3		3	KLRG2	7	139164406	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	4286397	139164406	19974257	147	29749										
AMAC1L2	83650	broad.mit.edu	37	chr8	11189091	11189091	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gggtctcggtggctacgagtGgtgtggactgttgggcagca	19	7	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr8:11189091G>T	uc003wtp.1	+	1	597	c.476G>T	c.(475-477)TGG>TTG	p.W159L		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	159	DUF6 1.					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		GGCTACGAGTGGTGTGGACTG	0.597													297	103	---	---	---	---	PASS	T	11189091	T	T	11189091	3	4	78	1	0	0	0	0	1	0	0	0	560	1357	47	3	478	3	AMAC1L2	8	11189091	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08		11189091	135174931	148	29750										
TUSC3	7991	broad.mit.edu	37	chr8	15508305	15508305	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atggtggactatgatgagggGacagacgtttttcagcaggt	15	5	1	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr8:15508305G>T	uc003wwt.2	+	3	618	c.408G>T	c.(406-408)GGG>GGT	p.G136G	TUSC3_uc003wwr.2_Silent_p.G136G|TUSC3_uc003wws.2_Silent_p.G136G|TUSC3_uc003wwu.2_Silent_p.G136G|TUSC3_uc003wwv.2_Silent_p.G136G|TUSC3_uc003www.2_Silent_p.G136G|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Silent_p.G136G	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	136					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		ATGATGAGGGGACAGACGTTT	0.358													12	490	---	---	---	---	PASS	T	15508305	T	T	15508305	2	4	78	1	0	0	0	0	0	0	0	1	16775	1161	41	2		2	TUSC3	8	15508305	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	4319214	15508305	130855717	149	29751										
MSR1	4481	broad.mit.edu	37	chr8	16001066	16001066	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aacaaaatactatatacttaCttaatgtgtttccactcccc	2	11	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr8:16001066C>T	uc003wwz.2	-	8	1231	c.1033_splice	c.e8+1	p.T345_splice	MSR1_uc010lsu.2_Splice_Site_p.T363_splice|MSR1_uc003wxa.2_Splice_Site_p.S345_splice|MSR1_uc003wxb.2_Splice_Site_p.R345_splice|MSR1_uc011kxz.1_Splice_Site_p.R119_splice	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1						cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		TATATACTTACTTAATGTGTT	0.363													33	10	---	---	---	---	PASS	T	16001066	T	T	16001066	5	4	78	1	0	0	0	0	0	0	1	0	9886	579	20	3	381	3	MSR1	8	16001066	Splice_Site	SNP	C	TCGA-37-4133-01A-01D-1352-08	492761	16001066	130362956	150	29752										
SCARA5	286133	broad.mit.edu	37	chr8	27729452	27729452	+	Nonstop_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acttgggctctgcccactttCagtgtctgttgcatgtcacg	10	12	4	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr8:27729452C>A	uc003xgj.2	-	9	1927	c.1487G>T	c.(1486-1488)TGA>TTA	p.*496L	SCARA5_uc010luz.2_Nonstop_Mutation_p.*271L	NM_173833	NP_776194	Q6ZMJ2	SCAR5_HUMAN	scavenger receptor class A, member 5	496					cellular iron ion homeostasis|endocytosis|iron ion transmembrane transport|protein homotrimerization	integral to plasma membrane	ferritin receptor activity|scavenger receptor activity			central_nervous_system(1)|skin(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)|Colorectal(74;0.228)		TGCCCACTTTCAGTGTCTGTT	0.602													169	55	---	---	---	---	PASS	A	27729452	A	A	27729452	4	1	78	1	0	0	0	0	0	0	0	0	13880	837	29	2	4	2	SCARA5	8	27729452	Nonstop_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	11728386	27729452	118634570	151	29753										
PDP1	54704	broad.mit.edu	37	chr8	94935238	94935238	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tctaatgaccacaatgctcaAaatgaaagagaactagaacg	7	8	2	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr8:94935238A>T	uc003yge.2	+	2	1220	c.951A>T	c.(949-951)CAA>CAT	p.Q317H	PDP1_uc003ygf.2_Missense_Mutation_p.Q342H|PDP1_uc010max.2_Missense_Mutation_p.Q342H|PDP1_uc011lgm.1_Missense_Mutation_p.Q317H|PDP1_uc011lgn.1_Missense_Mutation_p.Q376H	NM_018444	NP_060914	Q9P0J1	PDP1_HUMAN	pyruvate dehyrogenase phosphatase catalytic	317					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						ACAATGCTCAAAATGAAAGAG	0.498													136	80	---	---	---	---	PASS	T	94935238	T	T	94935238	3	4	78	1	0	0	0	0	1	0	0	0	11685	11	1	5	1134	5	PDP1	8	94935238	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	67205786	94935238	51428784	152	29754										
KCNV1	27012	broad.mit.edu	37	chr8	110984722	110984722	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aggacaaactccccggtgaaCcagctaatgcacacatactc	7	14	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr8:110984722C>A	uc003ynr.3	-	2	1098	c.756G>T	c.(754-756)TGG>TGT	p.W252C	KCNV1_uc010mcw.2_Missense_Mutation_p.W252C	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	252	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			CCCCGGTGAACCAGCTAATGC	0.537													108	67	---	---	---	---	PASS	A	110984722	A	A	110984722	3	1	78	1	0	0	0	0	1	0	0	0	8094	508	18	3	754	3	KCNV1	8	110984722	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	16049484	110984722	35379300	153	29755										
CSMD3	114788	broad.mit.edu	37	chr8	113332151	113332151	+	Frame_Shift_Del	DEL	C	-	-													0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tatttcaaattcatcatcttCcgtcaaaatttcagcattgg							TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr8:113332151delC	uc003ynu.2	-	46	7384	c.7225delG	c.(7225-7227)GAAfs	p.E2409fs	CSMD3_uc003yns.2_Frame_Shift_Del_p.E1611fs|CSMD3_uc003ynt.2_Frame_Shift_Del_p.E2369fs|CSMD3_uc011lhx.1_Frame_Shift_Del_p.E2305fs|CSMD3_uc003ynw.1_Frame_Shift_Del_p.E120fs	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2409	Extracellular (Potential).|Sushi 13.					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						TCATCATCTTCCGTCAAAATT	0.358										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			157	195	---	---	---	---		-	113332151	-	-	113332151	7	5	78	1	0	1	0	1	0	0	0	0	3946	864	30	0	4002	0	CSMD3	8	113332151	Frame_Shift_Del	DEL	C	TCGA-37-4133-01A-01D-1352-08	2347429	113332151	33031871	154	29756										
CSMD3	114788	broad.mit.edu	37	chr8	113702181	113702181	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aattaattcaaacccaaactGgcattcaaaccttaaaacat	2	10	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr8:113702181G>T	uc003ynu.2	-	14	2230	c.2071C>A	c.(2071-2073)CAG>AAG	p.Q691K	CSMD3_uc003yns.2_5'UTR|CSMD3_uc003ynt.2_Missense_Mutation_p.Q651K|CSMD3_uc011lhx.1_Missense_Mutation_p.Q587K	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	691	Extracellular (Potential).|Sushi 3.					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						AACCCAAACTGGCATTCAAAC	0.373										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			72	395	---	---	---	---	PASS	T	113702181	T	T	113702181	3	4	78	1	0	0	0	0	1	0	0	0	3946	1357	47	3	9284	3	CSMD3	8	113702181	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	370030	113702181	32661841	155	29757										
HAS2	3037	broad.mit.edu	37	chr8	122641416	122641416	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aggctttggatgatgaggtgTgatgccaaaaaggcaccata	13	6	0	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr8:122641416T>C	uc003yph.2	-	2	703	c.165A>G	c.(163-165)TCA>TCG	p.S55S		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	55	Helical; Name=2; (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			TGATGAGGTGTGATGCCAAAA	0.408													7	601	---	---	---	---	PASS	C	122641416	C	C	122641416	2	2	78	1	0	0	0	0	0	0	0	1	6962	1683	59	5		5	HAS2	8	122641416	Silent	SNP	T	TCGA-37-4133-01A-01D-1352-08	8939235	122641416	23722606	156	29758										
FAM135B	51059	broad.mit.edu	37	chr8	139155320	139155320	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atttcatccaataaccgatcCgtcatagtatcaaaatctgc	4	11	4	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr8:139155320C>T	uc003yuy.2	-	16	3744	c.3573G>A	c.(3571-3573)ACG>ACA	p.T1191T	FAM135B_uc003yux.2_Silent_p.T1092T|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Silent_p.T753T|FAM135B_uc003yvb.2_3'UTR	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1191										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)			ATAACCGATCCGTCATAGTAT	0.463										HNSCC(54;0.14)			6	215	---	---	---	---	PASS	T	139155320	T	T	139155320	2	4	78	1	0	0	0	0	0	0	0	1	5449	639	23	1		1	FAM135B	8	139155320	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	16513904	139155320	7208702	157	29759										
MAPK15	225689	broad.mit.edu	37	chr8	144803720	144803720	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgacccactgaccccacagaGtccccccgtgcagccaagaa	8	18	0	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr8:144803720G>A	uc003yzj.2	+	12	1247	c.1206G>A	c.(1204-1206)GAG>GAA	p.E402E		NM_139021	NP_620590	Q8TD08	MK15_HUMAN	mitogen-activated protein kinase 15	402					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)			ACCCCACAGAGTCCCCCCGTG	0.647													28	147	---	---	---	---	PASS	A	144803720	A	A	144803720	2	1	78	1	0	0	0	0	0	0	0	1	9277	1043	36	3		3	MAPK15	8	144803720	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	5648400	144803720	1560302	158	29760										
SMARCA2	6595	broad.mit.edu	37	chr9	2081898	2081898	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acggaatcttagccgatgaaAtggggcttggaaagaccata	12	7	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr9:2081898A>G	uc003zhc.2	+	15	2350	c.2251A>G	c.(2251-2253)ATG>GTG	p.M751V	SMARCA2_uc003zhd.2_Missense_Mutation_p.M751V|SMARCA2_uc010mha.2_Missense_Mutation_p.M742V	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	751	ATP (Potential).|Helicase ATP-binding.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		AGCCGATGAAATGGGGCTTGG	0.433													438	105	---	---	---	---	PASS	G	2081898	G	G	2081898	3	3	78	1	0	0	0	0	1	0	0	0	14769	101	4	5	2305	5	SMARCA2	9	2081898	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08		2081898	139131533	159	29761										
FAM75A2	642265	broad.mit.edu	37	chr9	39887386	39887386	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccggtccagaccccccaggtGaagtgggcgaaagagcacct	13	14	0	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr9:39887386G>A	uc004abp.2	+	4	402	c.373G>A	c.(373-375)GAA>AAA	p.E125K		NM_001040065	NP_001035154	Q5RGS2	F75A2_HUMAN	hypothetical protein LOC642265	125	Pro-rich.					integral to membrane					0				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		CCCCCCAGGTGAAGTGGGCGA	0.602													30	139	---	---	---	---	PASS	A	39887386	A	A	39887386	3	1	78	1	0	0	0	0	1	0	0	0	5620	1291	45	2	4447	2	FAM75A2	9	39887386	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	37805488	39887386	101326045	160	29762										
TRPM6	140803	broad.mit.edu	37	chr9	77435287	77435287	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tggactgtttaagactaaagTtgaaagtgttctgaatcatg	10	4	2	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr9:77435287T>C	uc004ajl.1	-	9	1305	c.1067A>G	c.(1066-1068)AAC>AGC	p.N356S	TRPM6_uc004ajk.1_Missense_Mutation_p.N351S|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.N356S|TRPM6_uc010mpd.1_Missense_Mutation_p.N356S|TRPM6_uc010mpe.1_Intron	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	356	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						AAGACTAAAGTTGAAAGTGTT	0.423													29	126	---	---	---	---	PASS	C	77435287	C	C	77435287	3	2	78	1	0	0	0	0	1	0	0	0	16587	1725	60	5	5125	5	TRPM6	9	77435287	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	37547901	77435287	63778144	161	29763										
FLJ46321	389763	broad.mit.edu	37	chr9	84609543	84609543	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tccctgtcatcatgtgtgcaGaatattggtcgagttataag	10	7	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr9:84609543G>C	uc004amn.2	+	4	4205	c.4158G>C	c.(4156-4158)CAG>CAC	p.Q1386H		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1386						integral to membrane					0						CATGTGTGCAGAATATTGGTC	0.433													11	42	---	---	---	---	PASS	C	84609543	C	C	84609543	3	2	78	1	0	0	0	0	1	0	0	0	5932	933	33	2	4172	2	FLJ46321	9	84609543	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	7174256	84609543	56603888	162	29764										
NR4A3	8013	broad.mit.edu	37	chr9	102590726	102590726	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctgcccagcacctccatgtaCttcaagcagtccccaccgtc	6	19	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr9:102590726C>A	uc004baf.1	+	3	1131	c.402C>A	c.(400-402)TAC>TAA	p.Y134*	NR4A3_uc004bae.2_Nonsense_Mutation_p.Y134*|NR4A3_uc004bag.1_Nonsense_Mutation_p.Y134*|NR4A3_uc004bai.2_Nonsense_Mutation_p.Y145*	NM_006981	NP_008912	Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	134					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		EWSR1/NR4A3(140)|TAF15/NR4A3(33)	bone(173)	173		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				CCTCCATGTACTTCAAGCAGT	0.612			T	EWSR1	extraskeletal myxoid chondrosarcoma								37	86	---	---	---	---	PASS	A	102590726	A	A	102590726	4	1	78	1	0	0	0	0	0	1	0	0	10634	576	20	3	441	3	NR4A3	9	102590726	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	17981183	102590726	38622705	163	29765										
ZNF189	7743	broad.mit.edu	37	chr9	104171502	104171502	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cacactggtgaaaagccctaTctatgtactgtctgtgggaa	10	9	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr9:104171502T>C	uc004bbh.1	+	3	1728	c.1452T>C	c.(1450-1452)TAT>TAC	p.Y484Y	ZNF189_uc004bbg.1_Silent_p.Y442Y|ZNF189_uc004bbi.1_Silent_p.Y470Y|ZNF189_uc011lvk.1_Silent_p.Y469Y	NM_003452	NP_003443	O75820	ZN189_HUMAN	zinc finger protein 189 isoform 1	484	C2H2-type 12.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|kidney(1)|central_nervous_system(1)	6		Acute lymphoblastic leukemia(62;0.0559)				AAAAGCCCTATCTATGTACTG	0.413													11	256	---	---	---	---	PASS	C	104171502	C	C	104171502	2	2	78	1	0	0	0	0	0	0	0	1	17751	1442	50	5		5	ZNF189	9	104171502	Silent	SNP	T	TCGA-37-4133-01A-01D-1352-08	1580776	104171502	37041929	164	29766										
RNF20	56254	broad.mit.edu	37	chr9	104324201	104324201	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcctgccacaggaggacatcTctagacttcgcaggaagctg	11	12	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr9:104324201T>C	uc004bbn.2	+	19	2749	c.2659T>C	c.(2659-2661)TCT>CCT	p.S887P		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	887	Potential.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		GGAGGACATCTCTAGACTTCG	0.393													107	468	---	---	---	---	PASS	C	104324201	C	C	104324201	3	2	78	1	0	0	0	0	1	0	0	0	13473	1551	54	5	2729	5	RNF20	9	104324201	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	152699	104324201	36889230	165	29767										
DFNB31	25861	broad.mit.edu	37	chr9	117188639	117188639	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aagcagcctgacagcctcgtCgtgtaggatgttgagaaagc	13	9	0	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr9:117188639C>A	uc004biz.3	-	4	1667	c.1018G>T	c.(1018-1020)GAC>TAC	p.D340Y	DFNB31_uc004bix.2_5'Flank|DFNB31_uc004biy.3_5'UTR|DFNB31_uc004bja.3_Missense_Mutation_p.D340Y	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	340	PDZ 2.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						ACAGCCTCGTCGTGTAGGATG	0.567													25	128	---	---	---	---	PASS	A	117188639	A	A	117188639	3	1	78	1	0	0	0	0	1	0	0	0	4455	884	31	2	1741	2	DFNB31	9	117188639	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	12864438	117188639	24024792	166	29768										
PAPPA	5069	broad.mit.edu	37	chr9	118997639	118997639	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctgtcaatgacatcaaactgTtggctgtcagtgggaagaac	11	8	3	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr9:118997639T>A	uc004bjn.2	+	7	2836	c.2455T>A	c.(2455-2457)TTG>ATG	p.L819M	PAPPA_uc011lxp.1_Missense_Mutation_p.L514M|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	819					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CATCAAACTGTTGGCTGTCAG	0.537													51	81	---	---	---	---	PASS	A	118997639	A	A	118997639	3	1	78	1	0	0	0	0	1	0	0	0	11432	1722	60	5	2481	5	PAPPA	9	118997639	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	1809000	118997639	22215792	167	29769										
PAPPA	5069	broad.mit.edu	37	chr9	119033690	119033690	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acaagaagtctccttcaattGtattggtacgtctttttcat	6	8	4	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr9:119033690G>A	uc004bjn.2	+	9	3329	c.2948G>A	c.(2947-2949)TGT>TAT	p.C983Y	PAPPA_uc011lxp.1_Missense_Mutation_p.C678Y|PAPPA_uc011lxq.1_Missense_Mutation_p.C358Y	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	983					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						TCCTTCAATTGTATTGGTACG	0.413													79	290	---	---	---	---	PASS	A	119033690	A	A	119033690	3	1	78	1	0	0	0	0	1	0	0	0	11432	1377	48	3	2982	3	PAPPA	9	119033690	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	36051	119033690	22179741	168	29770										
OR1B1	347169	broad.mit.edu	37	chr9	125391441	125391441	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gggggtcacagatggccacaTagcgatccagagccatgaca	13	11	1	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr9:125391441T>A	uc011lyz.1	-	1	374	c.374A>T	c.(373-375)TAT>TTT	p.Y125F		NM_001004450	NP_001004450	Q8NGR6	OR1B1_HUMAN	olfactory receptor, family 1, subfamily B,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GATGGCCACATAGCGATCCAG	0.512													39	80	---	---	---	---	PASS	A	125391441	A	A	125391441	3	1	78	1	0	0	0	0	1	0	0	0	10951	1406	49	5	585	5	OR1B1	9	125391441	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	6357751	125391441	15821990	169	29771										
CACNA1B	774	broad.mit.edu	37	chr9	140772528	140772528	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gcgggtcctctacaagcaatCgatcgcgcagcgcgcgcgga	14	14	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr9:140772528C>A	uc004cog.2	+	1	288	c.143C>A	c.(142-144)TCG>TAG	p.S48*	uc004cof.1_Intron	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	48	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TACAAGCAATCGATCGCGCAG	0.428													7	15	---	---	---	---	PASS	A	140772528	A	A	140772528	4	1	78	1	0	0	0	0	0	1	0	0	2539	893	31	2	145	2	CACNA1B	9	140772528	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	15381087	140772528	440903	170	29772										
RSU1	6251	broad.mit.edu	37	chr10	16858988	16858988	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcacagaggccgttgacatcCagcatgttggagatgccccg	12	12	1	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr10:16858988C>T	uc001iok.2	-	1	395	c.93G>A	c.(91-93)CTG>CTA	p.L31L	RSU1_uc001iol.2_Silent_p.L31L|RSU1_uc001iom.2_Intron|RSU1_uc001ion.2_Silent_p.L31L	NM_152724	NP_689937	Q15404	RSU1_HUMAN	ras suppressor protein 1 isoform 2	31					cell junction assembly|signal transduction	cytosol	protein binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(1;7.54e-08)		CGTTGACATCCAGCATGTTGG	0.567													43	76	---	---	---	---	PASS	T	16858988	T	T	16858988	2	4	78	1	0	0	0	0	0	0	0	1	13716	581	21	3		3	RSU1	10	16858988	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08		16858988	118675759	171	29773										
PTCHD3	374308	broad.mit.edu	37	chr10	27702960	27702960	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	catcgacggccgggggggtgCatcgtccccctctggcaggg	17	14	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr10:27702960C>A	uc001itu.2	-	1	338	c.220G>T	c.(220-222)GCA>TCA	p.A74S		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	74					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CGGGGGGGTGCATCGTCCCCC	0.716													38	47	---	---	---	---	PASS	A	27702960	A	A	27702960	3	1	78	1	0	0	0	0	1	0	0	0	12734	710	25	3	2099	3	PTCHD3	10	27702960	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	10843972	27702960	107831787	172	29774										
ANKRD30A	91074	broad.mit.edu	37	chr10	37440998	37440998	+	Frame_Shift_Del	DEL	C	-	-													0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccttttatagatccgatgttCccaccagaatccaaacaaaa							TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr10:37440998delC	uc001iza.1	+	12	1587	c.1488delC	c.(1486-1488)TTCfs	p.F496fs		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	552						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						ATCCGATGTTCCCACCAGAAT	0.284													85	37	---	---	---	---		-	37440998	-	-	37440998	7	5	78	1	0	1	0	1	0	0	0	0	658	854	30	0	1534	0	ANKRD30A	10	37440998	Frame_Shift_Del	DEL	C	TCGA-37-4133-01A-01D-1352-08	9738038	37440998	98093749	173	29775										
SAMD8	142891	broad.mit.edu	37	chr10	76910296	76910296	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cggaggaggaaatggcaggtCctaatcaactctgcattcgc	12	10	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr10:76910296C>G	uc001jwx.1	+	2	113	c.10C>G	c.(10-12)CCT>GCT	p.P4A	SAMD8_uc001jwy.1_Missense_Mutation_p.P4A	NM_144660	NP_653261	Q96LT4	SAMD8_HUMAN	sterile alpha motif domain containing 8	4					sphingomyelin biosynthetic process	integral to membrane					0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					AATGGCAGGTCCTAATCAACT	0.418													4	72	---	---	---	---	PASS	G	76910296	G	G	76910296	3	3	78	1	0	0	0	0	1	0	0	0	13825	855	30	2	12	2	SAMD8	10	76910296	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	39469298	76910296	58624451	174	29776										
CYP2C18	1562	broad.mit.edu	37	chr10	96466684	96466684	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gacatgaacagtgctcgggaCtttattgattgtttcctgat	10	7	0	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr10:96466684C>G	uc001kjv.3	+	5	1112	c.786C>G	c.(784-786)GAC>GAG	p.D262E	CYP2C18_uc001kjw.3_Intron|CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_5'UTR	NM_000772	NP_000763	P33260	CP2CI_HUMAN	cytochrome P450 family 2 subfamily C polypeptide	262					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(3)|lung(1)|skin(1)	5		Colorectal(252;0.09)		all cancers(201;2.8e-06)|KIRC - Kidney renal clear cell carcinoma(50;0.0646)|Kidney(138;0.0805)		GTGCTCGGGACTTTATTGATT	0.318													3	162	---	---	---	---	PASS	G	96466684	G	G	96466684	3	3	78	1	0	0	0	0	1	0	0	0	4165	564	20	4	804	4	CYP2C18	10	96466684	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	19556388	96466684	39068063	175	29777										
TECTB	6975	broad.mit.edu	37	chr10	114061861	114061861	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tctctttactcactacaggcAggggattttccagtctctat	7	11	3	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr10:114061861A>T	uc001kzr.1	+	9	910	c.910A>T	c.(910-912)AGG>TGG	p.R304W		NM_058222	NP_478129	Q96PL2	TECTB_HUMAN	tectorin beta precursor	304						anchored to membrane|plasma membrane|proteinaceous extracellular matrix					0		Colorectal(252;0.198)		Epithelial(162;0.0143)|all cancers(201;0.0242)		CACTACAGGCAGGGGATTTTC	0.393													110	158	---	---	---	---	PASS	T	114061861	T	T	114061861	3	4	78	1	0	0	0	0	1	0	0	0	15745	179	7	5	944	5	TECTB	10	114061861	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	17595177	114061861	21472886	176	29778										
PNLIP	5406	broad.mit.edu	37	chr10	118307905	118307905	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	attcatcaagcatcagtggcTccaatttcaaaacaaataga	5	9	4	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr10:118307905T>A	uc001lcm.2	+	4	278	c.235T>A	c.(235-237)TCC>ACC	p.S79T		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	79					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	CATCAGTGGCTCCAATTTCAA	0.398													98	243	---	---	---	---	PASS	A	118307905	A	A	118307905	3	1	78	1	0	0	0	0	1	0	0	0	12149	1551	54	5	245	5	PNLIP	10	118307905	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	4246044	118307905	17226842	177	29779										
TACC2	10579	broad.mit.edu	37	chr10	123845190	123845190	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctctcctggatgcagttcccTgcctgccagccctggcgccc	10	19	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr10:123845190T>C	uc001lfv.2	+	4	3535	c.3175T>C	c.(3175-3177)TGC>CGC	p.C1059R	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.C1059R|TACC2_uc010qtv.1_Missense_Mutation_p.C1059R	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1059						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				TGCAGTTCCCTGCCTGCCAGC	0.632													13	59	---	---	---	---	PASS	C	123845190	C	C	123845190	3	2	78	1	0	0	0	0	1	0	0	0	15499	1580	55	5	3185	5	TACC2	10	123845190	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	5537285	123845190	11689557	178	29780										
TRIM68	55128	broad.mit.edu	37	chr11	4626667	4626667	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	caatgctcatgggctccctcAggaaggtcatacagatggga	12	10	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:4626667A>T	uc001lzf.1	-	2	306	c.68T>A	c.(67-69)CTG>CAG	p.L23Q	TRIM68_uc001lzg.1_5'UTR|TRIM68_uc010qyj.1_Intron|TRIM68_uc009yek.1_Missense_Mutation_p.L23Q	NM_018073	NP_060543	Q6AZZ1	TRI68_HUMAN	ring finger protein 137	23	RING-type.				protein autoubiquitination|regulation of androgen receptor signaling pathway	Golgi apparatus|nucleolus|perinuclear region of cytoplasm	androgen receptor binding|histone acetyltransferase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;9.49e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		GGGCTCCCTCAGGAAGGTCAT	0.547													40	96	---	---	---	---	PASS	T	4626667	T	T	4626667	3	4	78	1	0	0	0	0	1	0	0	0	16538	188	7	5	1413	5	TRIM68	11	4626667	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08		4626667	130379849	179	29781										
NLRP14	338323	broad.mit.edu	37	chr11	7083729	7083729	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccaaactgtaacattcagagGctcgggtgagttcatagttt	10	8	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:7083729G>T	uc001mfb.1	+	10	3293	c.2970G>T	c.(2968-2970)AGG>AGT	p.R990S		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	990	LRR 10.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		ACATTCAGAGGCTCGGGTGAG	0.398													55	144	---	---	---	---	PASS	T	7083729	T	T	7083729	3	4	78	1	0	0	0	0	1	0	0	0	10476	1194	42	3	3004	3	NLRP14	11	7083729	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	2457062	7083729	127922787	180	29782										
SOX6	55553	broad.mit.edu	37	chr11	16340072	16340072	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cggcaagactccctttgcggCgctctggggttccaaaagta	12	12	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:16340072C>T	uc001mme.2	-	3	437	c.404G>A	c.(403-405)CGC>CAC	p.R135H	SOX6_uc001mmd.2_Missense_Mutation_p.R125H|SOX6_uc001mmf.2_Missense_Mutation_p.R122H|SOX6_uc001mmg.2_Missense_Mutation_p.R122H|SOX6_uc001mmh.1_RNA|SOX6_uc009ygs.2_RNA|SOX6_uc001mmi.3_Missense_Mutation_p.R122H|SOX6_uc001mmj.2_Missense_Mutation_p.R122H	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	122					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						CCCTTTGCGGCGCTCTGGGGT	0.498													18	335	---	---	---	---	PASS	T	16340072	T	T	16340072	3	4	78	1	0	0	0	0	1	0	0	0	14955	768	27	1	2219	1	SOX6	11	16340072	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	9256343	16340072	118666444	181	29783										
GTF2H1	2965	broad.mit.edu	37	chr11	18380126	18380126	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acacttatatgtagctgttgGagaacttctacgacatttct	7	8	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:18380126G>C	uc001moi.2	+	14	2100	c.1406G>C	c.(1405-1407)GGA>GCA	p.G469A	GTF2H1_uc001moh.2_Missense_Mutation_p.G469A|GTF2H1_uc009yhm.2_Missense_Mutation_p.G353A|GTF2H1_uc001moj.2_Missense_Mutation_p.G157A	NM_001142307	NP_001135779	P32780	TF2H1_HUMAN	general transcription factor IIH, polypeptide 1,	469					mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	protein binding				0						GTAGCTGTTGGAGAACTTCTA	0.383								NER					127	185	---	---	---	---	PASS	C	18380126	C	C	18380126	3	2	78	1	0	0	0	0	1	0	0	0	6860	1174	41	2	1452	2	GTF2H1	11	18380126	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	2040054	18380126	116626390	182	29784										
FIBIN	387758	broad.mit.edu	37	chr11	27016253	27016253	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctgctcttcagggtgagtgaCcacaggcgctgctcccaggg	14	13	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:27016253C>A	uc001mrd.2	+	1	626	c.180C>A	c.(178-180)GAC>GAA	p.D60E		NM_203371	NP_976249	Q8TAL6	FIBIN_HUMAN	fin bud initiation factor homolog precursor	60						extracellular region|Golgi apparatus					0						GGGTGAGTGACCACAGGCGCT	0.637													11	46	---	---	---	---	PASS	A	27016253	A	A	27016253	3	1	78	1	0	0	0	0	1	0	0	0	5885	506	18	3	182	3	FIBIN	11	27016253	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	8636127	27016253	107990263	183	29785										
LRRC4C	57689	broad.mit.edu	37	chr11	40136054	40136054	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agatttgtatgagttatagtGatttaggtgctcatgctcga	11	4	1	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:40136054G>T	uc001mxa.1	-	2	3753	c.1789C>A	c.(1789-1791)CAC>AAC	p.H597N	LRRC4C_uc001mxc.1_Missense_Mutation_p.H593N|LRRC4C_uc001mxd.1_Missense_Mutation_p.H593N|LRRC4C_uc001mxb.1_Missense_Mutation_p.H593N	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	597					regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				GAGTTATAGTGATTTAGGTGC	0.408													65	231	---	---	---	---	PASS	T	40136054	T	T	40136054	3	4	78	1	0	0	0	0	1	0	0	0	9008	1290	45	2	137	2	LRRC4C	11	40136054	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	13119801	40136054	94870462	184	29786										
KBTBD4	55709	broad.mit.edu	37	chr11	47597189	47597189	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgcaaaagcctctctttcctCtttattaaagttgatccagg	6	10	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:47597189C>T	uc001nfx.2	-	3	823	c.652G>A	c.(652-654)GAG>AAG	p.E218K	NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_Missense_Mutation_p.E243K|KBTBD4_uc001nfz.2_Missense_Mutation_p.E234K|KBTBD4_uc001nfy.2_Missense_Mutation_p.E218K	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4	218	BACK.									ovary(1)|central_nervous_system(1)	2						TCTCTTTCCTCTTTATTAAAG	0.448													65	200	---	---	---	---	PASS	T	47597189	T	T	47597189	3	4	78	1	0	0	0	0	1	0	0	0	7995	922	32	2	912	2	KBTBD4	11	47597189	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	7461135	47597189	87409327	185	29787										
OR4C6	219432	broad.mit.edu	37	chr11	55433570	55433570	+	Nonstop_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gggaggctttggctgggaaaTaactgcaatgctgagaacat	14	6	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:55433570T>A	uc001nht.3	+	3	1193	c.928T>A	c.(928-930)TAA>AAA	p.*310K	OR4C6_uc010rik.1_3'UTR	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	310					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GGCTGGGAAATAACTGCAATG	0.423													4	137	---	---	---	---	PASS	A	55433570	A	A	55433570	4	1	78	1	0	0	0	0	0	0	0	0	11052	1420	49	5	930	5	OR4C6	11	55433570	Nonstop_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	7836381	55433570	79572946	186	29788										
OR5M3	219482	broad.mit.edu	37	chr11	56237459	56237459	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctgcacagtagaaatggttgAtctcaatttttccacagaag	8	8	1	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:56237459A>T	uc010rjk.1	-	1	515	c.515T>A	c.(514-516)ATC>AAC	p.I172N		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	172	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GAAATGGTTGATCTCAATTTT	0.403													74	252	---	---	---	---	PASS	T	56237459	T	T	56237459	3	4	78	1	0	0	0	0	1	0	0	0	11175	333	12	5	410	5	OR5M3	11	56237459	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	803889	56237459	78769057	187	29789										
FERMT3	83706	broad.mit.edu	37	chr11	63990580	63990580	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aacaaccgactgatccgcatCgacttggccgtgggcgacgt	12	13	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:63990580C>T	uc001nyl.2	+	14	1892	c.1743C>T	c.(1741-1743)ATC>ATT	p.I581I	FERMT3_uc001nym.2_Silent_p.I577I	NM_178443	NP_848537	Q86UX7	URP2_HUMAN	fermitin family homolog 3 long form	581					integrin activation|leukocyte cell-cell adhesion|platelet aggregation|regulation of cell-cell adhesion mediated by integrin	cell junction|cell projection|podosome	integrin binding			ovary(1)	1						TGATCCGCATCGACTTGGCCG	0.627													30	118	---	---	---	---	PASS	T	63990580	T	T	63990580	2	4	78	1	0	0	0	0	0	0	0	1	5819	874	31	2		2	FERMT3	11	63990580	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	7753121	63990580	71015936	188	29790										
FOSL1	8061	broad.mit.edu	37	chr11	65660434	65660434	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gctgctactcttgcgatgagCtgaggcacaaggctcaggag	14	10	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:65660434C>T	uc001ogg.1	-	4	926	c.739G>A	c.(739-741)GCT>ACT	p.A247T	FOSL1_uc010ros.1_Missense_Mutation_p.A145T	NM_005438	NP_005429	P15407	FOSL1_HUMAN	FOS-like antigen 1	247					cellular defense response|chemotaxis|positive regulation of cell proliferation|response to virus|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				READ - Rectum adenocarcinoma(159;0.168)		TTGCGATGAGCTGAGGCACAA	0.622													11	107	---	---	---	---	PASS	T	65660434	T	T	65660434	3	4	78	1	0	0	0	0	1	0	0	0	5987	797	28	3	80	3	FOSL1	11	65660434	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	1669854	65660434	69346082	189	29791										
SUV420H1	51111	broad.mit.edu	37	chr11	67926107	67926107	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cactgtcggggcaaggttccGtcacactgcttttatagcca	10	12	1	0	rs144521985	byFrequency	TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:67926107G>T	uc001onm.1	-	11	1962	c.1706C>A	c.(1705-1707)ACG>AAG	p.T569K	SUV420H1_uc009yse.1_Missense_Mutation_p.T155K|SUV420H1_uc001onn.1_Missense_Mutation_p.T397K|SUV420H1_uc009ysf.2_Missense_Mutation_p.T329K	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	569					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						GCAAGGTTCCGTCACACTGCT	0.507													143	141	---	---	---	---	PASS	T	67926107	T	T	67926107	3	4	78	1	0	0	0	0	1	0	0	0	15411	1145	40	1	955	1	SUV420H1	11	67926107	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	2265673	67926107	67080409	190	29792										
MRPL21	219927	broad.mit.edu	37	chr11	68664068	68664068	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cagaggtcaccttccactggCggctggcaaagtgcaccacg	12	14	1	1	rs148535951	byFrequency	TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:68664068C>T	uc001ooi.2	-	4	336	c.311G>A	c.(310-312)CGC>CAC	p.R104H	MRPL21_uc001ooh.2_Missense_Mutation_p.R19H|MRPL21_uc010rqe.1_Missense_Mutation_p.R104H	NM_181514	NP_852615	Q7Z2W9	RM21_HUMAN	mitochondrial ribosomal protein L21 isoform d	104					translation	mitochondrion|ribosome	RNA binding|structural constituent of ribosome				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CTTCCACTGGCGGCTGGCAAA	0.552													132	91	---	---	---	---	PASS	T	68664068	T	T	68664068	3	4	78	1	0	0	0	0	1	0	0	0	9787	768	27	1	322	1	MRPL21	11	68664068	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	737961	68664068	66342448	191	29793										
PPFIA1	8500	broad.mit.edu	37	chr11	70178186	70178186	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cggagctggcccagagggtgGcagcgctttccaaggtagtg	17	10	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:70178186G>C	uc001opo.2	+	9	1396	c.1198G>C	c.(1198-1200)GCA>CCA	p.A400P	PPFIA1_uc001opn.1_Missense_Mutation_p.A400P|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	400	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			CCAGAGGGTGGCAGCGCTTTC	0.562													122	157	---	---	---	---	PASS	C	70178186	C	C	70178186	3	2	78	1	0	0	0	0	1	0	0	0	12309	1203	42	4	1228	4	PPFIA1	11	70178186	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	1514118	70178186	64828330	192	29794										
PRSS23	11098	broad.mit.edu	37	chr11	86519229	86519229	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	actgcatacacgatggaaaaAcctatgtgaaaggaacccag	9	9	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:86519229A>T	uc001pcb.2	+	2	760	c.544A>T	c.(544-546)ACC>TCC	p.T182S	PRSS23_uc001pcc.1_Intron|PRSS23_uc010rts.1_Missense_Mutation_p.T150S	NM_007173	NP_009104	O95084	PRS23_HUMAN	protease, serine, 23 precursor	182					proteolysis	extracellular region|nucleus	serine-type endopeptidase activity	p.I177fs*17(1)		central_nervous_system(1)|pancreas(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CGATGGAAAAACCTATGTGAA	0.542													23	86	---	---	---	---	PASS	T	86519229	T	T	86519229	3	4	78	1	0	0	0	0	1	0	0	0	12620	43	2	5	546	5	PRSS23	11	86519229	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	16341043	86519229	48487287	193	29795										
NAALAD2	10003	broad.mit.edu	37	chr11	89896501	89896501	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ggtatgttattctgggaggtCaccgggactcctgggtattt	14	7	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:89896501C>A	uc001pdf.3	+	10	1208	c.1099C>A	c.(1099-1101)CAC>AAC	p.H367N	NAALAD2_uc009yvx.2_Missense_Mutation_p.H334N|NAALAD2_uc009yvy.2_Intron|NAALAD2_uc001pde.2_Missense_Mutation_p.H274N	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	367	Extracellular (Potential).|NAALADase.	Zinc 2; catalytic.			proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				TCTGGGAGGTCACCGGGACTC	0.353													93	287	---	---	---	---	PASS	A	89896501	A	A	89896501	3	1	78	1	0	0	0	0	1	0	0	0	10128	826	29	2	1137	2	NAALAD2	11	89896501	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	3377272	89896501	45110015	194	29796										
MMP8	4317	broad.mit.edu	37	chr11	102595586	102595586	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aagcgtcttcagggagaacaTgatcttctcttcaaactcta	7	10	6	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:102595586T>G	uc001phe.2	-	1	100	c.1A>C	c.(1-3)ATG>CTG	p.M1L	MMP8_uc010rut.1_5'Flank|MMP8_uc010ruu.1_5'UTR	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	1					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		AGGGAGAACATGATCTTCTCT	0.473													10	262	---	---	---	---	PASS	G	102595586	G	G	102595586	3	3	78	1	0	0	0	0	1	0	0	0	9668	1464	51	5	1442	5	MMP8	11	102595586	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	12699085	102595586	32410930	195	29797										
GUCY1A2	2977	broad.mit.edu	37	chr11	106810256	106810256	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acggggtagacagtcgcagcAggaccctttcaaaggtggca	14	10	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:106810256A>G	uc001pjg.1	-	4	1526	c.1136T>C	c.(1135-1137)CTG>CCG	p.L379P	GUCY1A2_uc010rvo.1_Missense_Mutation_p.L379P|GUCY1A2_uc009yxn.1_Missense_Mutation_p.L379P	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	379					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CAGTCGCAGCAGGACCCTTTC	0.468													9	234	---	---	---	---	PASS	G	106810256	G	G	106810256	3	3	78	1	0	0	0	0	1	0	0	0	6893	188	7	5	1082	5	GUCY1A2	11	106810256	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	4214670	106810256	28196260	196	29798										
HTR3A	3359	broad.mit.edu	37	chr11	113848605	113848605	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gactggaggaagccaaccacCgtatccattgacgtcattgt	10	11	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:113848605C>A	uc010rxb.1	+	2	431	c.198C>A	c.(196-198)ACC>ACA	p.T66T	HTR3A_uc010rxa.1_Silent_p.T66T|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Silent_p.T45T	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	60	Extracellular (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	AGCCAACCACCGTATCCATTG	0.587													28	102	---	---	---	---	PASS	A	113848605	A	A	113848605	2	1	78	1	0	0	0	0	0	0	0	1	7444	639	23	1		1	HTR3A	11	113848605	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	7038349	113848605	21157911	197	29799										
SIK3	23387	broad.mit.edu	37	chr11	116734532	116734532	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgttggagtccttgtaggtaGagctgaatatatgggaagag	15	3	0	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:116734532G>C	uc001ppy.2	-	15	1673	c.1637C>G	c.(1636-1638)TCT>TGT	p.S546C	SIK3_uc001ppz.2_Missense_Mutation_p.S445C|SIK3_uc001pqa.2_Missense_Mutation_p.S546C|SIK3_uc001ppw.2_5'UTR|SIK3_uc001ppx.2_Missense_Mutation_p.L21V|SIK3_uc001pqb.2_5'Flank	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	546						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						CTTGTAGGTAGAGCTGAATAT	0.542													55	205	---	---	---	---	PASS	C	116734532	C	C	116734532	3	2	78	1	0	0	0	0	1	0	0	0	14319	942	33	2	2190	2	SIK3	11	116734532	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	2885927	116734532	18271984	198	29800										
UBASH3B	84959	broad.mit.edu	37	chr11	122650303	122650303	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccgctgcccctggagctctaTacgtcgtccaacttcatcgg	9	16	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:122650303T>A	uc001pyi.3	+	4	861	c.501T>A	c.(499-501)TAT>TAA	p.Y167*		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	167						cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		TGGAGCTCTATACGTCGTCCA	0.572													40	135	---	---	---	---	PASS	A	122650303	A	A	122650303	4	1	78	1	0	0	0	0	0	1	0	0	16837	1413	49	5	515	5	UBASH3B	11	122650303	Nonsense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	5915771	122650303	12356213	199	29801										
OR6T1	219874	broad.mit.edu	37	chr11	123814150	123814150	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tggccattcatcagggtctcAtagcggagtggtcggcagat	14	9	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:123814150A>G	uc010sab.1	-	1	396	c.396T>C	c.(394-396)TAT>TAC	p.Y132Y		NM_001005187	NP_001005187	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T,	132	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		TCAGGGTCTCATAGCGGAGTG	0.557													15	59	---	---	---	---	PASS	G	123814150	G	G	123814150	2	3	78	1	0	0	0	0	0	0	0	1	11210	224	8	5		5	OR6T1	11	123814150	Silent	SNP	A	TCGA-37-4133-01A-01D-1352-08	1163847	123814150	11192366	200	29802										
OR10G4	390264	broad.mit.edu	37	chr11	123886690	123886690	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ggtacaccagcatgatgagtGggagcaggtgtgccctcctg	15	10	0	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:123886690G>T	uc010sac.1	+	1	409	c.409G>T	c.(409-411)GGG>TGG	p.G137W		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		CATGATGAGTGGGAGCAGGTG	0.562													212	281	---	---	---	---	PASS	T	123886690	T	T	123886690	3	4	78	1	0	0	0	0	1	0	0	0	10901	1348	47	3	411	3	OR10G4	11	123886690	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	72540	123886690	11119826	201	29803										
OR10G9	219870	broad.mit.edu	37	chr11	123893724	123893724	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccaagggtgagaagaaatgtCcaagaccagcctcgtgacag	12	10	0	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:123893724C>T	uc010sad.1	+	1	5	c.5C>T	c.(4-6)TCC>TTC	p.S2F		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	2	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GAAGAAATGTCCAAGACCAGC	0.512													7	237	---	---	---	---	PASS	T	123893724	T	T	123893724	3	4	78	1	0	0	0	0	1	0	0	0	10904	855	30	2	7	2	OR10G9	11	123893724	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	7034	123893724	11112792	202	29804										
ESAM	90952	broad.mit.edu	37	chr11	124623856	124623856	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccggggagcaatggcatcctCcctagtcatcaaagaaataa	9	11	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:124623856C>A	uc001qav.3	-	7	1032	c.859G>T	c.(859-861)GAG>TAG	p.E287*	VSIG2_uc001qas.2_5'Flank|VSIG2_uc001qat.2_5'Flank|ESAM_uc010sao.1_Intron|ESAM_uc001qau.3_Nonsense_Mutation_p.E214*|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Intron	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	287	Cytoplasmic (Potential).				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		ATGGCATCCTCCCTAGTCATC	0.552													14	35	---	---	---	---	PASS	A	124623856	A	A	124623856	4	1	78	1	0	0	0	0	0	1	0	0	5247	869	30	2	317	2	ESAM	11	124623856	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	730132	124623856	10382660	203	29805										
ROBO4	54538	broad.mit.edu	37	chr11	124765379	124765379	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccggcagcctcaggagcagcAcgttgctgtcagggcctcga	14	14	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:124765379A>T	uc001qbg.2	-	6	1150	c.1010T>A	c.(1009-1011)GTG>GAG	p.V337E	ROBO4_uc010sas.1_Missense_Mutation_p.V192E|ROBO4_uc001qbh.2_Missense_Mutation_p.V227E|ROBO4_uc001qbi.2_5'Flank|ROBO4_uc010sat.1_5'Flank	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	337	Fibronectin type-III 1.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		CAGGAGCAGCACGTTGCTGTC	0.602													30	106	---	---	---	---	PASS	T	124765379	T	T	124765379	3	4	78	1	0	0	0	0	1	0	0	0	13516	159	6	5	2065	5	ROBO4	11	124765379	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	141523	124765379	10241137	204	29806										
SNX19	399979	broad.mit.edu	37	chr11	130784449	130784449	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agcaaagctgtaacagaggcGgtaacatctccttgttctat	9	9	2	1	rs146738120	byFrequency	TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr11:130784449G>A	uc001qgk.3	-	1	1934	c.1386C>T	c.(1384-1386)ACC>ACT	p.T462T	SNX19_uc010sce.1_Intron|SNX19_uc010scf.1_Intron|SNX19_uc010scg.1_Intron|SNX19_uc001qgl.3_Silent_p.T462T|SNX19_uc009zcx.1_Intron	NM_014758	NP_055573	Q92543	SNX19_HUMAN	sorting nexin 19	462					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|lung(2)	4	all_hematologic(175;0.0597)	Lung NSC(97;0.000272)|all_lung(97;0.000608)|Breast(109;0.000962)|all_neural(223;0.0298)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;0.0195)|Lung(977;0.233)		TAACAGAGGCGGTAACATCTC	0.527													43	114	---	---	---	---	PASS	A	130784449	A	A	130784449	2	1	78	1	0	0	0	0	0	0	0	1	14890	1103	39	1		1	SNX19	11	130784449	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	6019070	130784449	4222067	205	29807										
C12orf4	57102	broad.mit.edu	37	chr12	4627411	4627411	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctcaaattatgcatggtcttCaactgggctcctgggggtag	12	9	3	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:4627411C>A	uc001qms.2	-	8	934	c.846G>T	c.(844-846)TTG>TTT	p.L282F	C12orf4_uc001qmt.2_Missense_Mutation_p.L282F	NM_020374	NP_065107	Q9NQ89	CL004_HUMAN	hypothetical protein LOC57102	282											0			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)	BRCA - Breast invasive adenocarcinoma(232;0.0281)		GCATGGTCTTCAACTGGGCTC	0.428													139	138	---	---	---	---	PASS	A	4627411	A	A	4627411	3	1	78	1	0	0	0	0	1	0	0	0	1685	825	29	2	840	2	C12orf4	12	4627411	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08		4627411	129224484	206	29808										
VWF	7450	broad.mit.edu	37	chr12	6131144	6131144	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aacgccggccagccacctcaCacactggacagtcttcaggg	10	16	3	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:6131144C>T	uc001qnn.1	-	27	3846	c.3596G>A	c.(3595-3597)TGT>TAT	p.C1199Y	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1199					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)	AGCCACCTCACACACTGGACA	0.502													88	326	---	---	---	---	PASS	T	6131144	T	T	6131144	3	4	78	1	0	0	0	0	1	0	0	0	17243	478	17	3	4949	3	VWF	12	6131144	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	1503733	6131144	127720751	207	29809										
SLCO1B1	10599	broad.mit.edu	37	chr12	21391925	21391925	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttctacagaagggtctacttGggcttgtcttcaatgttaag	10	7	4	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:21391925G>C	uc001req.3	+	15	1982	c.1878G>C	c.(1876-1878)TTG>TTC	p.L626F		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	626	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	GGGTCTACTTGGGCTTGTCTT	0.284													33	52	---	---	---	---	PASS	C	21391925	C	C	21391925	3	2	78	1	0	0	0	0	1	0	0	0	14723	1339	47	4	1932	4	SLCO1B1	12	21391925	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	15260781	21391925	112459970	208	29810										
KCNJ8	3764	broad.mit.edu	37	chr12	21919054	21919054	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccactccttccagaataactAtgacctccaagtcttggttg	6	13	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:21919054A>G	uc001rff.2	-	3	1216	c.878T>C	c.(877-879)ATA>ACA	p.I293T		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	293	Cytoplasmic (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	CAGAATAACTATGACCTCCAA	0.517													79	79	---	---	---	---	PASS	G	21919054	G	G	21919054	3	3	78	1	0	0	0	0	1	0	0	0	8056	449	16	5	400	5	KCNJ8	12	21919054	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	527129	21919054	111932841	209	29811										
MLL2	8085	broad.mit.edu	37	chr12	49420841	49420841	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aggacgggaatcttcaccttCttcagggggccgggcacggg	16	11	4	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:49420841C>A	uc001rta.3	-	48	14908	c.14908G>T	c.(14908-14910)GAA>TAA	p.E4970*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4970	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TCTTCACCTTCTTCAGGGGGC	0.647			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			75	77	---	---	---	---	PASS	A	49420841	A	A	49420841	4	1	78	1	0	0	0	0	0	1	0	0	9621	922	32	2	1733	2	MLL2	12	49420841	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	27501787	49420841	84431054	210	29812										
DIP2B	57609	broad.mit.edu	37	chr12	51079640	51079640	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctggaggtcagcagattggcTtcttgctaggaagctgtggt	15	7	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:51079640T>G	uc001rwv.2	+	11	1498	c.1342T>G	c.(1342-1344)TTC>GTC	p.F448V	DIP2B_uc009zlt.2_5'UTR	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	448						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						GCAGATTGGCTTCTTGCTAGG	0.438													19	61	---	---	---	---	PASS	G	51079640	G	G	51079640	3	3	78	1	0	0	0	0	1	0	0	0	4528	1609	56	5	1384	5	DIP2B	12	51079640	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	1658799	51079640	82772255	211	29813										
KRT83	3889	broad.mit.edu	37	chr12	52715021	52715021	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atgccgcggtagggggcggcGgtgatgcagcagcggcttgg	21	9	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:52715021G>T	uc001saf.2	-	1	162	c.99C>A	c.(97-99)ACC>ACA	p.T33T		NM_002282	NP_002273	P78385	KRT83_HUMAN	keratin 83	33	Head.				epidermis development	keratin filament	structural molecule activity			skin(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		AGGGGGCGGCGGTGATGCAGC	0.692													6	27	---	---	---	---	PASS	T	52715021	T	T	52715021	2	4	78	1	0	0	0	0	0	0	0	1	8497	1103	39	1		1	KRT83	12	52715021	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	1635381	52715021	81136874	212	29814										
TPH2	121278	broad.mit.edu	37	chr12	72388230	72388230	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttttgtcagagacacatgccAtgaactcttgggacatgttc	9	9	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:72388230A>G	uc009zrw.1	+	8	1094	c.953A>G	c.(952-954)CAT>CGT	p.H318R	TPH2_uc001swy.2_Missense_Mutation_p.H228R	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	318		Iron (By similarity).			aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	GACACATGCCATGAACTCTTG	0.393													86	222	---	---	---	---	PASS	G	72388230	G	G	72388230	3	3	78	1	0	0	0	0	1	0	0	0	16399	217	8	5	983	5	TPH2	12	72388230	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	19673209	72388230	61463665	213	29815										
NTS	4922	broad.mit.edu	37	chr12	86272219	86272219	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cagctgaggaaacaggagaaGttcatgaagaggagcttgtt	14	5	1	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:86272219G>A	uc001tag.2	+	3	339	c.232G>A	c.(232-234)GTT>ATT	p.V78I		NM_006183	NP_006174	P30990	NEUT_HUMAN	neurotensin/neuromedin N preproprotein	78					regulation of blood vessel size|signal transduction	extracellular region|soluble fraction|transport vesicle	neuropeptide hormone activity				0						AACAGGAGAAGTTCATGAAGA	0.408													92	214	---	---	---	---	PASS	A	86272219	A	A	86272219	3	1	78	1	0	0	0	0	1	0	0	0	10709	1029	36	3	242	3	NTS	12	86272219	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	13883989	86272219	47579676	214	29816										
SLC25A3	5250	broad.mit.edu	37	chr12	98987856	98987856	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gggacctccgcagcagctccCcagggcccacgggccagccc	13	20	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:98987856C>G	uc001tfo.2	+	2	220	c.100C>G	c.(100-102)CCA>GCA	p.P34A	SLC25A3_uc001tfm.2_Missense_Mutation_p.P34A|SLC25A3_uc001tfn.2_Missense_Mutation_p.P34A|SLC25A3_uc001tfp.2_Missense_Mutation_p.P34A|SLC25A3_uc001tfq.2_5'UTR|SLC25A3_uc001tfr.2_Missense_Mutation_p.P34A|SLC25A3_uc001tfs.2_5'UTR|SLC25A3_uc009ztn.2_Missense_Mutation_p.P34A|SLC25A3_uc001tft.2_Missense_Mutation_p.P34A	NM_005888	NP_005879	Q00325	MPCP_HUMAN	solute carrier family 25 member 3 isoform a	34					generation of precursor metabolites and energy	integral to plasma membrane|mitochondrial inner membrane	phosphate carrier activity|symporter activity				0		Lung NSC(355;4.08e-05)|Breast(359;0.00191)|Colorectal(145;0.00205)|Myeloproliferative disorder(1001;0.0255)		GBM - Glioblastoma multiforme(134;1.36e-23)|BRCA - Breast invasive adenocarcinoma(302;0.000115)		CAGCAGCTCCCCAGGGCCCAC	0.677													6	12	---	---	---	---	PASS	G	98987856	G	G	98987856	3	3	78	1	0	0	0	0	1	0	0	0	14493	623	22	4	102	4	SLC25A3	12	98987856	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	12715637	98987856	34864039	215	29817										
ACTR6	64431	broad.mit.edu	37	chr12	100617652	100617652	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	taacaagagaagattacgaaGaaaatggacatagcgtctgt	10	5	1	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:100617652G>A	uc001thb.1	+	11	1206	c.1150G>A	c.(1150-1152)GAA>AAA	p.E384K	ACTR6_uc001thc.1_Missense_Mutation_p.E276K|ACTR6_uc001thd.1_Missense_Mutation_p.E364K|ACTR6_uc009ztu.1_Intron|ACTR6_uc001the.1_Missense_Mutation_p.E302K|ACTR6_uc001thf.1_Missense_Mutation_p.E282K|uc001thg.1_5'Flank	NM_022496	NP_071941	Q9GZN1	ARP6_HUMAN	ARP6 actin-related protein 6 homolog	384						cytoplasm|cytoskeleton				ovary(1)	1						AGATTACGAAGAAAATGGACA	0.318													6	243	---	---	---	---	PASS	A	100617652	A	A	100617652	3	1	78	1	0	0	0	0	1	0	0	0	216	943	33	2	1192	2	ACTR6	12	100617652	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	1629796	100617652	33234243	216	29818										
RFX4	5992	broad.mit.edu	37	chr12	107080755	107080755	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gcctgggtgagtgagacgggCaagaaagaagtgagcaaaca	16	6	0	5			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:107080755C>A	uc001tlr.2	+	6	537	c.471C>A	c.(469-471)GGC>GGA	p.G157G	RFX4_uc010swv.1_RNA|RFX4_uc001tls.2_Silent_p.G166G|RFX4_uc001tlt.2_Silent_p.G166G|RFX4_uc001tlv.2_Silent_p.G63G|uc001tlu.3_5'Flank	NM_213594	NP_998759	Q33E94	RFX4_HUMAN	regulatory factor X4 isoform c	157					transcription, DNA-dependent	nucleus	DNA binding			upper_aerodigestive_tract(1)	1						GTGAGACGGGCAAGAAAGAAG	0.473													162	239	---	---	---	---	PASS	A	107080755	A	A	107080755	2	1	78	1	0	0	0	0	0	0	0	1	13265	697	25	3		3	RFX4	12	107080755	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	6463103	107080755	26771140	217	29819										
CUX2	23316	broad.mit.edu	37	chr12	111758477	111758477	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccgctgacccccgagcagtaCgagctgtacatgtaccgtga	11	14	0	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:111758477C>T	uc001tsa.1	+	17	2817	c.2664C>T	c.(2662-2664)TAC>TAT	p.Y888Y		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	888	CUT 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						CCGAGCAGTACGAGCTGTACA	0.682													15	41	---	---	---	---	PASS	T	111758477	T	T	111758477	2	4	78	1	0	0	0	0	0	0	0	1	4065	547	19	1		1	CUX2	12	111758477	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	4677722	111758477	22093418	218	29820										
GCN1L1	10985	broad.mit.edu	37	chr12	120567262	120567262	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccaccagatcatcttctcagCcaccagcctgatgtcgctgg	8	16	3	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:120567262C>T	uc001txo.2	-	57	7721	c.7708G>A	c.(7708-7710)GCT>ACT	p.A2570T		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	2570	HEAT 23.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ATCTTCTCAGCCACCAGCCTG	0.522													122	399	---	---	---	---	PASS	T	120567262	T	T	120567262	3	4	78	1	0	0	0	0	1	0	0	0	6299	739	26	3	315	3	GCN1L1	12	120567262	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	8808785	120567262	13284633	219	29821										
GCN1L1	10985	broad.mit.edu	37	chr12	120587435	120587435	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttggtccgccacgattcctcCtccagggcagccagtaagga	11	14	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:120587435C>T	uc001txo.2	-	36	4534	c.4521G>A	c.(4519-4521)GAG>GAA	p.E1507E		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	1507	HEAT 8.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ACGATTCCTCCTCCAGGGCAG	0.587													22	130	---	---	---	---	PASS	T	120587435	T	T	120587435	2	4	78	1	0	0	0	0	0	0	0	1	6299	680	24	3		3	GCN1L1	12	120587435	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	20173	120587435	13264460	220	29822										
MLEC	9761	broad.mit.edu	37	chr12	121132908	121132908	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cttttcctaggggtactatgAcaatcccaaggtctgtgcac	9	11	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:121132908A>G	uc001tyy.1	+	4	753	c.602A>G	c.(601-603)GAC>GGC	p.D201G		NM_014730	NP_055545	Q14165	MLEC_HUMAN	malectin precursor	201	Lumenal (Potential).	Carbohydrate (By similarity).			post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	carbohydrate binding			ovary(1)	1						GGGTACTATGACAATCCCAAG	0.498													18	784	---	---	---	---	PASS	G	121132908	G	G	121132908	3	3	78	1	0	0	0	0	1	0	0	0	9613	275	10	5	616	5	MLEC	12	121132908	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	545473	121132908	12718987	221	29823										
DHX37	57647	broad.mit.edu	37	chr12	125473500	125473500	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acggggggcggctcggggggGcccttcgagggtccggggcc	23	12	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:125473500G>T	uc001ugy.2	-	1	168	c.69C>A	c.(67-69)GGC>GGA	p.G23G		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	23							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		GCTCGGGGGGGCCCTTCGAGG	0.721													11	19	---	---	---	---	PASS	T	125473500	T	T	125473500	2	4	78	1	0	0	0	0	0	0	0	1	4510	1190	42	3		3	DHX37	12	125473500	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	4340592	125473500	8378395	222	29824										
PIWIL1	9271	broad.mit.edu	37	chr12	130831046	130831046	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gaagactccgttcagctcttCtttttcaacacgaagatcta	6	11	5	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr12:130831046C>A	uc001uik.2	+	5	538	c.448C>A	c.(448-450)CTT>ATT	p.L150I	PIWIL1_uc001uij.1_Missense_Mutation_p.L150I	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	150					gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		TTCAGCTCTTCTTTTTCAACA	0.413													61	174	---	---	---	---	PASS	A	130831046	A	A	130831046	3	1	78	1	0	0	0	0	1	0	0	0	11957	913	32	2	462	2	PIWIL1	12	130831046	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	5357546	130831046	3020849	223	29825										
PARP4	143	broad.mit.edu	37	chr13	25000673	25000673	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cctctttttccaacctggtgCgaataaactgtagtaccagc	7	12	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr13:25000673C>T	uc001upl.2	-	33	5016	c.4910G>A	c.(4909-4911)CGC>CAC	p.R1637H		NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	1637	Interaction with the major vault protein.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		CAACCTGGTGCGAATAAACTG	0.383													78	135	---	---	---	---	PASS	T	25000673	T	T	25000673	3	4	78	1	0	0	0	0	1	0	0	0	11463	768	27	1	272	1	PARP4	13	25000673	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08		25000673	90169205	224	29826										
PDS5B	23047	broad.mit.edu	37	chr13	33223009	33223009	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctaaagaggagatggtgagaCgattaaaggtgagtaaaatt	13	2	0	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr13:33223009C>T	uc010abf.2	+	2	258	c.100C>T	c.(100-102)CGA>TGA	p.R34*	PDS5B_uc001uun.2_Nonsense_Mutation_p.R34*|PDS5B_uc001uuo.2_Nonsense_Mutation_p.R34*|PDS5B_uc010abg.2_RNA|PDS5B_uc001uuq.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	34					cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		GATGGTGAGACGATTAAAGGT	0.398													27	103	---	---	---	---	PASS	T	33223009	T	T	33223009	4	4	78	1	0	0	0	0	0	1	0	0	11692	528	19	1	102	1	PDS5B	13	33223009	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	8222336	33223009	81946869	225	29827										
GPC5	2262	broad.mit.edu	37	chr13	93518682	93518682	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgtggtgatgttacttcccgGgatttggtaactgaactctt	11	7	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr13:93518682G>T	uc010tif.1	+	8	2075	c.1709G>T	c.(1708-1710)GGG>GTG	p.G570V		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	570						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				TTACTTCCCGGGATTTGGTAA	0.433													87	61	---	---	---	---	PASS	T	93518682	T	T	93518682	3	4	78	1	0	0	0	0	1	0	0	0	6601	1232	43	3	1739	3	GPC5	13	93518682	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	60295673	93518682	21651196	226	29828										
OR4K5	79317	broad.mit.edu	37	chr14	20389500	20389500	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acgctggcttcccatattgcAgtagtaatattattctttgg	8	8	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr14:20389500A>G	uc010tkw.1	+	1	735	c.735A>G	c.(733-735)GCA>GCG	p.A245A		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CCCATATTGCAGTAGTAATAT	0.398													287	148	---	---	---	---	PASS	G	20389500	G	G	20389500	2	3	78	1	0	0	0	0	0	0	0	1	11073	175	7	5		5	OR4K5	14	20389500	Silent	SNP	A	TCGA-37-4133-01A-01D-1352-08		20389500	86960040	227	29829										
RNF31	55072	broad.mit.edu	37	chr14	24619858	24619858	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtcaagtctggtactgtattCactgtaccttctgcaactcg	8	11	4	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr14:24619858C>A	uc001wmn.1	+	8	1498	c.1249C>A	c.(1249-1251)CAC>AAC	p.H417N	RNF31_uc001wml.1_Missense_Mutation_p.H266N|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_Missense_Mutation_p.H232N|RNF31_uc001wmo.1_5'Flank|RNF31_uc001wmp.2_5'Flank	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	417	Polyubiquitin-binding.|RanBP2-type 3.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		GTACTGTATTCACTGTACCTT	0.562													6	335	---	---	---	---	PASS	A	24619858	A	A	24619858	3	1	78	1	0	0	0	0	1	0	0	0	13487	826	29	2	1279	2	RNF31	14	24619858	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	4230358	24619858	82729682	228	29830										
FOXG1	2290	broad.mit.edu	37	chr14	29237227	29237227	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aggtgccgcgccactacgacGacccgggcaagggcaactac	13	15	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr14:29237227G>A	uc001wqe.2	+	1	941	c.742G>A	c.(742-744)GAC>AAC	p.D248N		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	248	Fork-head.				axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		CCACTACGACGACCCGGGCAA	0.642													56	18	---	---	---	---	PASS	A	29237227	A	A	29237227	3	1	78	1	0	0	0	0	1	0	0	0	6007	1058	37	2	744	2	FOXG1	14	29237227	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	4617369	29237227	78112313	229	29831										
GPR135	64582	broad.mit.edu	37	chr14	59930635	59930635	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcctgttgcaggcccccagcCggttggcatagcggtttcga	13	13	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr14:59930635C>T	uc010apj.2	-	1	1425	c.1310G>A	c.(1309-1311)CGG>CAG	p.R437Q	GPR135_uc001xed.2_RNA	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	437	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		GGCCCCCAGCCGGTTGGCATA	0.632													18	11	---	---	---	---	PASS	T	59930635	T	T	59930635	3	4	78	1	0	0	0	0	1	0	0	0	6644	652	23	1	178	1	GPR135	14	59930635	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	30693408	59930635	47418905	230	29832										
PLEKHG3	26030	broad.mit.edu	37	chr14	65203602	65203602	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cacctgctcaggcaactcaaCgagaaaggtgagtgtgtgag	13	9	2	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr14:65203602C>T	uc001xho.1	+	13	1646	c.1377C>T	c.(1375-1377)AAC>AAT	p.N459N	PLEKHG3_uc001xhn.1_Silent_p.N403N|PLEKHG3_uc001xhp.2_Silent_p.N459N|PLEKHG3_uc010aqh.1_Translation_Start_Site|PLEKHG3_uc001xhq.1_5'Flank	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	459				QGRRQSEPTKHLLRQLNEKARAAGMK -> KGAGPEPPGSE EEEEEQEESLAVAEQ (in Ref. 2; AAH04298).	regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GGCAACTCAACGAGAAAGGTG	0.617													24	15	---	---	---	---	PASS	T	65203602	T	T	65203602	2	4	78	1	0	0	0	0	0	0	0	1	12070	535	19	1		1	PLEKHG3	14	65203602	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	5272967	65203602	42145938	231	29833										
STON2	85439	broad.mit.edu	37	chr14	81743259	81743259	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acccacctgagtttttgtccGgcagtcggtttatcctccac	8	14	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr14:81743259G>C	uc010tvu.1	-	4	2597	c.2396C>G	c.(2395-2397)CCG>CGG	p.P799R	STON2_uc001xvk.1_Missense_Mutation_p.P799R|STON2_uc010tvt.1_Missense_Mutation_p.P596R	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	799	MHD.				endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		GTTTTTGTCCGGCAGTCGGTT	0.463													237	62	---	---	---	---	PASS	C	81743259	C	C	81743259	3	2	78	1	0	0	0	0	1	0	0	0	15317	1116	39	4	327	4	STON2	14	81743259	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	16539657	81743259	25606281	232	29834										
CATSPERB	79820	broad.mit.edu	37	chr14	92088265	92088265	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttctctatatctgtatcttcAaacaaggcctgaacaactgg	6	10	4	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr14:92088265A>G	uc001xzs.1	-	19	2087	c.1947T>C	c.(1945-1947)TTT>TTC	p.F649F	CATSPERB_uc010aub.1_Silent_p.F171F	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	649					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				CTGTATCTTCAAACAAGGCCT	0.383													28	47	---	---	---	---	PASS	G	92088265	G	G	92088265	2	3	78	1	0	0	0	0	0	0	0	1	2691	127	5	5		5	CATSPERB	14	92088265	Silent	SNP	A	TCGA-37-4133-01A-01D-1352-08	10345006	92088265	15261275	233	29835										
SERPINA9	327657	broad.mit.edu	37	chr14	94935676	94935676	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cctcgcctgggcaatggaggGgttggagaaatctgtagaaa	15	7	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr14:94935676G>T	uc001ydf.2	-	2	717	c.556C>A	c.(556-558)CCC>ACC	p.P186T	SERPINA9_uc001yde.2_Intron|SERPINA9_uc010avc.2_Missense_Mutation_p.P37T|SERPINA9_uc001ydg.2_Missense_Mutation_p.P150T|SERPINA9_uc001ydh.1_Missense_Mutation_p.P186T|SERPINA9_uc001ydi.1_Missense_Mutation_p.P150T	NM_175739	NP_783866	Q86WD7	SPA9_HUMAN	serine (or cysteine) proteinase inhibitor, clade	168					regulation of proteolysis	cytoplasm|extracellular region|membrane	serine-type endopeptidase inhibitor activity			lung(1)|central_nervous_system(1)	2		all_cancers(154;0.0691)|all_epithelial(191;0.233)		Epithelial(152;0.144)|COAD - Colon adenocarcinoma(157;0.224)|all cancers(159;0.24)		GCAATGGAGGGGTTGGAGAAA	0.498													65	415	---	---	---	---	PASS	T	94935676	T	T	94935676	3	4	78	1	0	0	0	0	1	0	0	0	14095	1232	43	3	767	3	SERPINA9	14	94935676	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	2847411	94935676	12413864	234	29836										
SERPINA3	12	broad.mit.edu	37	chr14	95081219	95081219	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atgtttgtcaaagagcaactCagtctgctggacaggttcac	10	9	4	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr14:95081219C>T	uc001ydp.2	+	2	520	c.441C>T	c.(439-441)CTC>CTT	p.L147L	SERPINA3_uc001ydo.3_Silent_p.L172L|SERPINA3_uc010avf.1_RNA|SERPINA3_uc001ydr.2_RNA|SERPINA3_uc001ydq.2_Silent_p.L147L|SERPINA3_uc001yds.2_Silent_p.L147L|SERPINA3_uc010avg.2_Silent_p.L147L	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3	147					acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		AAGAGCAACTCAGTCTGCTGG	0.532													23	114	---	---	---	---	PASS	T	95081219	T	T	95081219	2	4	78	1	0	0	0	0	0	0	0	1	14090	813	29	2		2	SERPINA3	14	95081219	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	145543	95081219	12268321	235	29837										
CLMN	79789	broad.mit.edu	37	chr14	95670677	95670677	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gctggtttcatggttaacagTgtaggtacgctccccatttt	10	9	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr14:95670677T>G	uc001yef.2	-	9	1125	c.1009A>C	c.(1009-1011)ACT>CCT	p.T337P		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	337						integral to membrane	actin binding				0				Epithelial(152;0.193)		TGGTTAACAGTGTAGGTACGC	0.483													58	309	---	---	---	---	PASS	G	95670677	G	G	95670677	3	3	78	1	0	0	0	0	1	0	0	0	3542	1696	59	5	2019	5	CLMN	14	95670677	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	589458	95670677	11678863	236	29838										
GABRA5	2558	broad.mit.edu	37	chr15	27188527	27188527	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	caattactttaccaagagagGctgggcctgggatggcaaaa	12	8	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr15:27188527G>A	uc001zbd.1	+	11	1382	c.1043G>A	c.(1042-1044)GGC>GAC	p.G348D	GABRA5_uc001zbe.1_5'Flank	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	348	Cytoplasmic (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ACCAAGAGAGGCTGGGCCTGG	0.527													4	9	---	---	---	---	PASS	A	27188527	A	A	27188527	3	1	78	1	0	0	0	0	1	0	0	0	6164	1203	42	3	1073	3	GABRA5	15	27188527	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08		27188527	75342865	237	29839										
CASC5	57082	broad.mit.edu	37	chr15	40933128	40933128	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agtttactgtaaacacaccaCctactccagaagacctgatg	6	12	0	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr15:40933128C>G	uc010bbs.1	+	15	5940	c.5779C>G	c.(5779-5781)CCT>GCT	p.P1927A	CASC5_uc010bbt.1_Missense_Mutation_p.P1901A	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	1927	Necessary for kinetochore localization and for interaction with NSL1 and DSN1.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		AAACACACCACCTACTCCAGA	0.373													61	189	---	---	---	---	PASS	G	40933128	G	G	40933128	3	3	78	1	0	0	0	0	1	0	0	0	2663	507	18	4	5833	4	CASC5	15	40933128	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	13744601	40933128	61598264	238	29840										
AKAP13	11214	broad.mit.edu	37	chr15	86284378	86284378	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cgcccgagctccctcattgaGcaggagaagcagcgcagcct	12	15	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr15:86284378G>T	uc002blv.1	+	35	7880	c.7710G>T	c.(7708-7710)GAG>GAT	p.E2570D	AKAP13_uc002blu.1_Missense_Mutation_p.E2574D|AKAP13_uc002blw.1_Missense_Mutation_p.E1035D|AKAP13_uc002blx.1_Missense_Mutation_p.E815D	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2570	Interaction with ESR1.|Potential.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CCCTCATTGAGCAGGAGAAGC	0.642													13	21	---	---	---	---	PASS	T	86284378	T	T	86284378	3	4	78	1	0	0	0	0	1	0	0	0	449	962	34	3	7914	3	AKAP13	15	86284378	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	45351250	86284378	16247014	239	29841										
SLCO3A1	28232	broad.mit.edu	37	chr15	92690227	92690227	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctttcagaatctcacgggctGtgcgtgcctcaccaccgtcc	9	16	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr15:92690227G>C	uc002bqx.2	+	8	1727	c.1526G>C	c.(1525-1527)TGT>TCT	p.C509S	SLCO3A1_uc002bqy.2_Missense_Mutation_p.C509S|SLCO3A1_uc010boc.1_RNA|SLCO3A1_uc002bqz.1_Missense_Mutation_p.C451S	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,	509	Extracellular (Potential).|Kazal-like.				sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			CTCACGGGCTGTGCGTGCCTC	0.562													18	48	---	---	---	---	PASS	C	92690227	C	C	92690227	3	2	78	1	0	0	0	0	1	0	0	0	14728	1377	48	4	1556	4	SLCO3A1	15	92690227	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	6405849	92690227	9841165	240	29842										
WDR90	197335	broad.mit.edu	37	chr16	708258	708258	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccatggctgtgtgctttggcCctgcagctctgggccacctg	13	14	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr16:708258C>T	uc002cii.1	+	22	2734	c.2680C>T	c.(2680-2682)CCT>TCT	p.P894S	WDR90_uc002cij.1_Intron|WDR90_uc002cik.1_Missense_Mutation_p.P421S|WDR90_uc002cil.1_RNA|WDR90_uc002cim.1_Missense_Mutation_p.P68S|WDR90_uc002cin.1_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	894	WD 9.									ovary(1)	1		Hepatocellular(780;0.0218)				GTGCTTTGGCCCTGCAGCTCT	0.652													11	136	---	---	---	---	PASS	T	708258	T	T	708258	3	4	78	1	0	0	0	0	1	0	0	0	17334	623	22	3	2766	3	WDR90	16	708258	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08		708258	89646495	241	29843										
MSLNL	401827	broad.mit.edu	37	chr16	819471	819471	+	Nonsense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtgggcgtccagctgaatctAacacctctgtttttcctgca	9	12	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr16:819471A>C	uc002cjz.1	-	16	3119	c.3119T>G	c.(3118-3120)TTA>TGA	p.L1040*	MIR662_hsa-mir-662|MI0003670_5'Flank	NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	689	Cytoplasmic (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						AGCTGAATCTAACACCTCTGT	0.627													52	53	---	---	---	---	PASS	C	819471	C	C	819471	4	2	78	1	0	0	0	0	0	1	0	0	9882	372	13	5	46	5	MSLNL	16	819471	Nonsense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	111213	819471	89535282	242	29844										
TMC7	79905	broad.mit.edu	37	chr16	19033051	19033051	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atctttatgctggttttgctCccagtcttactcacgaaata	6	10	3	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr16:19033051C>T	uc002dfq.2	+	4	691	c.561C>T	c.(559-561)CTC>CTT	p.L187L	TMC7_uc010vao.1_Silent_p.L187L|TMC7_uc002dfp.2_Silent_p.L187L|TMC7_uc010vap.1_Silent_p.L77L	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	187	Helical; (Potential).					integral to membrane				skin(2)|ovary(1)	3						TGGTTTTGCTCCCAGTCTTAC	0.433													45	144	---	---	---	---	PASS	T	19033051	T	T	19033051	2	4	78	1	0	0	0	0	0	0	0	1	15987	842	30	2		2	TMC7	16	19033051	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	18213580	19033051	71321702	243	29845										
CACNG3	10368	broad.mit.edu	37	chr16	24373168	24373168	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	taataatccggccaacaggcGcaccacgcccgtctgaactg	9	15	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr16:24373168G>A	uc002dmf.2	+	4	2132	c.932G>A	c.(931-933)CGC>CAC	p.R311H		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	311					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0				GBM - Glioblastoma multiforme(48;0.0809)		GCCAACAGGCGCACCACGCCC	0.562													29	105	---	---	---	---	PASS	A	24373168	A	A	24373168	3	1	78	1	0	0	0	0	1	0	0	0	2558	1087	38	1	946	1	CACNG3	16	24373168	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	5340117	24373168	65981585	244	29846										
TMEM219	124446	broad.mit.edu	37	chr16	29979362	29979362	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acaggatcttctgcaggacaActggtccttatcacagccag	9	12	3	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr16:29979362A>G	uc002duw.2	+	4	539	c.372A>G	c.(370-372)CAA>CAG	p.Q124Q	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TMEM219_uc002duy.2_Silent_p.Q124Q|TMEM219_uc010bzk.1_Silent_p.Q124Q|TMEM219_uc002duz.2_Silent_p.Q124Q|TMEM219_uc010bzl.1_RNA	NM_194280	NP_919256	Q86XT9	TM219_HUMAN	transmembrane protein 219	124						integral to membrane					0						CTGCAGGACAACTGGTCCTTA	0.483													147	179	---	---	---	---	PASS	G	29979362	G	G	29979362	2	3	78	1	0	0	0	0	0	0	0	1	16139	40	2	5		5	TMEM219	16	29979362	Silent	SNP	A	TCGA-37-4133-01A-01D-1352-08	5606194	29979362	60375391	245	29847										
SALL1	6299	broad.mit.edu	37	chr16	51171083	51171083	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtgaagcggaagttggttccGttctcactgcttgccatttt	11	9	1	1	rs140524372		TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr16:51171083G>T	uc010vgs.1	-	3	3946	c.3915C>A	c.(3913-3915)AAC>AAA	p.N1305K	SALL1_uc010vgr.1_Missense_Mutation_p.N1208K|SALL1_uc010cbv.2_Missense_Mutation_p.N157K	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	1305					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			AGTTGGTTCCGTTCTCACTGC	0.567													140	100	---	---	---	---	PASS	T	51171083	T	T	51171083	3	4	78	1	0	0	0	0	1	0	0	0	13810	1136	40	1	63	1	SALL1	16	51171083	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	21191721	51171083	39183670	246	29848										
CHD9	80205	broad.mit.edu	37	chr16	53243469	53243469	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cccaggtgagggtcatgtctGagaagaagcagagaaaaaag	14	6	2	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr16:53243469G>C	uc002ehb.2	+	2	1692	c.1528G>C	c.(1528-1530)GAG>CAG	p.E510Q	CHD9_uc002egy.2_Missense_Mutation_p.E510Q|CHD9_uc002egz.1_Missense_Mutation_p.E510Q|CHD9_uc002eha.1_Missense_Mutation_p.E510Q|CHD9_uc002ehc.2_Missense_Mutation_p.E510Q|CHD9_uc002ehd.2_Missense_Mutation_p.E36Q	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	510					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)				GGTCATGTCTGAGAAGAAGCA	0.418													20	138	---	---	---	---	PASS	C	53243469	C	C	53243469	3	2	78	1	0	0	0	0	1	0	0	0	3332	1291	45	2	1534	2	CHD9	16	53243469	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	2072386	53243469	37111284	247	29849										
CNGB1	1258	broad.mit.edu	37	chr16	57991254	57991254	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtgtcacttactggtctgcaCatcacatatcccaggggagt	10	11	3	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr16:57991254C>A	uc002emt.2	-	12	930	c.865G>T	c.(865-867)GTG>TTG	p.V289L	CNGB1_uc010cdh.2_Missense_Mutation_p.V283L|CNGB1_uc002emu.2_Missense_Mutation_p.V289L	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	289					sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						CTGGTCTGCACATCACATATC	0.522													45	141	---	---	---	---	PASS	A	57991254	A	A	57991254	3	1	78	1	0	0	0	0	1	0	0	0	3600	478	17	3	3008	3	CNGB1	16	57991254	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	4747785	57991254	32363499	248	29850										
PLEKHG4	25894	broad.mit.edu	37	chr16	67318231	67318231	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccgctgactggctgggaggcGgctgaactggacccccctgg	16	14	0	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr16:67318231G>T	uc002eso.3	+	11	4098	c.1563G>T	c.(1561-1563)GCG>GCT	p.A521A	PLEKHG4_uc002esp.3_Silent_p.A328A|PLEKHG4_uc002esq.3_Silent_p.A521A|PLEKHG4_uc010cef.2_Silent_p.A521A|PLEKHG4_uc002ess.3_Silent_p.A521A|PLEKHG4_uc010ceg.2_Silent_p.A440A	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	521					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		GCTGGGAGGCGGCTGAACTGG	0.657													19	26	---	---	---	---	PASS	T	67318231	T	T	67318231	2	4	78	1	0	0	0	0	0	0	0	1	12071	1103	39	1		1	PLEKHG4	16	67318231	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	9326977	67318231	23036522	249	29851										
SF3B3	23450	broad.mit.edu	37	chr16	70602973	70602973	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcccacctaacaccaatgatGaagtagatgaggatcctaca	7	11	0	4			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr16:70602973G>A	uc002ezf.2	+	23	3404	c.3193G>A	c.(3193-3195)GAA>AAA	p.E1065K		NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3	1065					protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				CACCAATGATGAAGTAGATGA	0.557													5	35	---	---	---	---	PASS	A	70602973	A	A	70602973	3	1	78	1	0	0	0	0	1	0	0	0	14152	1291	45	2	3279	2	SF3B3	16	70602973	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	3284742	70602973	19751780	250	29852										
GLG1	2734	broad.mit.edu	37	chr16	74499645	74499645	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	catcatctctgtctcctgcaGcttaaatactttttggtggc	7	11	3	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr16:74499645G>A	uc002fcy.3	-	19	2646	c.2596C>T	c.(2596-2598)CTG>TTG	p.L866L	GLG1_uc002fcx.2_Silent_p.L866L|GLG1_uc002fcw.3_Silent_p.L855L|GLG1_uc002fcz.3_Silent_p.L283L	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	866	Cys-rich GLG1 13.|Extracellular (Potential).					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						GTCTCCTGCAGCTTAAATACT	0.463													246	356	---	---	---	---	PASS	A	74499645	A	A	74499645	2	1	78	1	0	0	0	0	0	0	0	1	6436	962	34	3		3	GLG1	16	74499645	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	3896672	74499645	15855108	251	29853										
GLG1	2734	broad.mit.edu	37	chr16	74511410	74511410	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtgtaggatcctttggacttCagctcggcactcccgtgaga	12	11	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr16:74511410C>T	uc002fcy.3	-	12	1899	c.1849G>A	c.(1849-1851)GAA>AAA	p.E617K	GLG1_uc002fcx.2_Missense_Mutation_p.E617K|GLG1_uc002fcw.3_Missense_Mutation_p.E606K|GLG1_uc002fcz.3_Missense_Mutation_p.E34K	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	617	Cys-rich GLG1 9.|Extracellular (Potential).					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						CTTTGGACTTCAGCTCGGCAC	0.453													50	156	---	---	---	---	PASS	T	74511410	T	T	74511410	3	4	78	1	0	0	0	0	1	0	0	0	6436	835	29	2	1830	2	GLG1	16	74511410	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	11765	74511410	15843343	252	29854										
SPEM1	374768	broad.mit.edu	37	chr17	7324849	7324849	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gaggccctgtccggctgctaCcccctagcctctggatccag	11	17	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:7324849C>A	uc002ggv.2	+	3	880	c.855C>A	c.(853-855)TAC>TAA	p.Y285*	FGF11_uc010vtw.1_Nonsense_Mutation_p.Y19*	NM_199339	NP_955371	Q8N4L4	SPEM1_HUMAN	spermatid maturation 1	285	Potential.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|integral to membrane					0		Prostate(122;0.173)				CCGGCTGCTACCCCCTAGCCT	0.592													15	34	---	---	---	---	PASS	A	7324849	A	A	7324849	4	1	78	1	0	0	0	0	0	1	0	0	15036	518	18	3	865	3	SPEM1	17	7324849	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08		7324849	73870361	253	29855										
TP53	7157	broad.mit.edu	37	chr17	7578195	7578197	+	In_Frame_Del	DEL	CAC	-	-													0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acctcaggcggctcatagggCaccaccacactatgtcgaaa							TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:7578195_7578197delCAC	uc002gim.2	-	6	846_848	c.652_654delGTG	c.(652-654)GTGdel	p.V218del	TP53_uc002gig.1_In_Frame_Del_p.V218del|TP53_uc002gih.2_In_Frame_Del_p.V218del|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_In_Frame_Del_p.V86del|TP53_uc010cng.1_In_Frame_Del_p.V86del|TP53_uc002gii.1_In_Frame_Del_p.V86del|TP53_uc010cnh.1_In_Frame_Del_p.V218del|TP53_uc010cni.1_In_Frame_Del_p.V218del|TP53_uc002gij.2_In_Frame_Del_p.V218del|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_In_Frame_Del_p.V125del|TP53_uc002gio.2_In_Frame_Del_p.V86del|TP53_uc010vug.1_In_Frame_Del_p.V179del	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	218	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> A (in sporadic cancers; somatic mutation).|V -> M (in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).|V -> L (in sporadic cancers; somatic mutation).|V -> E (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.V218E(8)|p.V218M(7)|p.0?(7)|p.V218G(5)|p.V218del(5)|p.V218A(3)|p.K164_P219del(1)|p.S215fs*27(1)|p.S215fs*29(1)|p.V218_P219insX(1)|p.V218_Y220delVPY(1)|p.V216_Y220delVVVPY(1)|p.D208fs*1(1)|p.V216fs*28(1)|p.?(1)|p.V218L(1)|p.V218_E221delVPYE(1)|p.V218V(1)|p.V218fs*26(1)|p.S215_V218>R(1)|p.T211fs*28(1)|p.V218_E224delVPYEPPE(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)		GCTCATAGGGCACCACCACACTA	0.552		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)			25	45	---	---	---	---		-	7578197	-	-	7578195	7	5	78	1	0	1	0	1	0	0	0	0	16378	697	25	0	640	0	TP53	17	7578195	In_Frame_Del	DEL	CAC	TCGA-37-4133-01A-01D-1352-08	253346	7578195	73617015	254	29856										
MYH8	4626	broad.mit.edu	37	chr17	10322230	10322230	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	catccaggctgcatagcgctCtttgaggttgtacagcactc	10	12	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:10322230C>G	uc002gmm.2	-	4	423	c.328G>C	c.(328-330)GAG>CAG	p.E110Q	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	110	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GCATAGCGCTCTTTGAGGTTG	0.428									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				223	108	---	---	---	---	PASS	G	10322230	G	G	10322230	3	3	78	1	0	0	0	0	1	0	0	0	10041	922	32	2	5633	2	MYH8	17	10322230	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	2744035	10322230	70872980	255	29857										
MYH1	4619	broad.mit.edu	37	chr17	10408730	10408730	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgtgaccaaatttatactggGtgtggtcaatgtcaatggac	11	6	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:10408730G>T	uc002gmo.2	-	20	2367	c.2273C>A	c.(2272-2274)ACC>AAC	p.T758N	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	758	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TTTATACTGGGTGTGGTCAAT	0.398													182	68	---	---	---	---	PASS	T	10408730	T	T	10408730	3	4	78	1	0	0	0	0	1	0	0	0	10029	1261	44	3	3630	3	MYH1	17	10408730	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	86500	10408730	70786480	256	29858										
RAI1	10743	broad.mit.edu	37	chr17	17696440	17696440	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cgcagccttacccgagctatGagggtggcgctggcacgccc	14	15	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:17696440G>C	uc002grm.2	+	3	647	c.178G>C	c.(178-180)GAG>CAG	p.E60Q	RAI1_uc002grn.1_Missense_Mutation_p.E60Q	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	60						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CCCGAGCTATGAGGGTGGCGC	0.662													26	9	---	---	---	---	PASS	C	17696440	C	C	17696440	3	2	78	1	0	0	0	0	1	0	0	0	13007	1291	45	2	180	2	RAI1	17	17696440	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	7287710	17696440	63498770	257	29859										
C17orf53	78995	broad.mit.edu	37	chr17	42225981	42225981	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctccactgggaagtctgtccGcaacgctcccctgttcaagc	9	16	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:42225981G>A	uc002ifi.1	+	3	995	c.810G>A	c.(808-810)CCG>CCA	p.P270P	C17orf53_uc010czq.1_Silent_p.P270P|C17orf53_uc002ifj.1_Silent_p.P270P|C17orf53_uc002ifk.1_RNA	NM_024032	NP_076937	Q8N3J3	CQ053_HUMAN	hypothetical protein LOC78995	270											0		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		AAGTCTGTCCGCAACGCTCCC	0.562													80	311	---	---	---	---	PASS	A	42225981	A	A	42225981	2	1	78	1	0	0	0	0	0	0	0	1	1862	1074	38	1		1	C17orf53	17	42225981	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	24529541	42225981	38969229	258	29860										
ANKFN1	162282	broad.mit.edu	37	chr17	54428148	54428148	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aattgtcgtgtgaaaatgacGcaacaaatgcaaaatttaca	7	6	0	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:54428148G>C	uc002iun.1	+	4	254	c.219G>C	c.(217-219)ACG>ACC	p.T73T		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	73										large_intestine(1)|ovary(1)	2						TGAAAATGACGCAACAAATGC	0.388													46	243	---	---	---	---	PASS	C	54428148	C	C	54428148	2	2	78	1	0	0	0	0	0	0	0	1	625	1074	38	4		4	ANKFN1	17	54428148	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	12202167	54428148	26767062	259	29861										
USP32	84669	broad.mit.edu	37	chr17	58260814	58260814	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aaatcgcttaaggtgaataaTctggagaagtaaaggtagaa	11	3	1	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:58260814T>C	uc002iyo.1	-	31	4121	c.3835A>G	c.(3835-3837)ATT>GTT	p.I1279V	USP32_uc002iyn.1_Missense_Mutation_p.I949V	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	1279					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			AGGTGAATAATCTGGAGAAGT	0.323													118	97	---	---	---	---	PASS	C	58260814	C	C	58260814	3	2	78	1	0	0	0	0	1	0	0	0	17060	1449	50	5	995	5	USP32	17	58260814	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	3832666	58260814	22934396	260	29862										
ABCA8	10351	broad.mit.edu	37	chr17	66871872	66871872	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	taaaggtggcccggatggccTgcctataatgtcaagagatt	12	8	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:66871872T>C	uc002jhp.2	-	34	4432	c.4253A>G	c.(4252-4254)CAG>CGG	p.Q1418R	ABCA8_uc002jhq.2_Missense_Mutation_p.Q1458R|ABCA8_uc010wqq.1_Missense_Mutation_p.Q1453R	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	1418	ABC transporter 2.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					CCGGATGGCCTGCCTATAATG	0.453													12	102	---	---	---	---	PASS	C	66871872	C	C	66871872	3	2	78	1	0	0	0	0	1	0	0	0	38	1580	55	5	512	5	ABCA8	17	66871872	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	8611058	66871872	14323338	261	29863										
TSEN54	283989	broad.mit.edu	37	chr17	73512834	73512834	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccttctcccccagcgcccggGagctcttcgccgcccgctcg	10	22	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:73512834G>T	uc002jof.1	+	2	97	c.64G>T	c.(64-66)GAG>TAG	p.E22*	CASKIN2_uc002joc.2_5'Flank|CASKIN2_uc002jod.2_5'Flank|TSEN54_uc002joe.1_Nonsense_Mutation_p.E22*	NM_207346	NP_997229	Q7Z6J9	SEN54_HUMAN	tRNA splicing endonuclease 54 homolog	22					mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	nucleolus				ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			CAGCGCCCGGGAGCTCTTCGC	0.776													12	9	---	---	---	---	PASS	T	73512834	T	T	73512834	4	4	78	1	0	0	0	0	0	1	0	0	16611	1175	41	2	70	2	TSEN54	17	73512834	Nonsense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	6640962	73512834	7682376	262	29864										
SFRS2	6427	broad.mit.edu	37	chr17	74732326	74732326	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tttggattccctcttggacaCtgggggaggactcctggacc	13	11	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:74732326C>G	uc002jsv.2	-	2	753	c.583G>C	c.(583-585)GTG>CTG	p.V195L	SFRS2_uc002jsw.1_RNA|SFRS2_uc002jsx.1_RNA|SFRS2_uc002jsy.3_Missense_Mutation_p.V195L|SFRS2_uc010wtg.1_Missense_Mutation_p.V183L|MFSD11_uc002jsz.1_RNA|MFSD11_uc002jta.2_5'UTR|MFSD11_uc002jtb.2_5'Flank|MFSD11_uc010dha.2_5'Flank|MFSD11_uc002jtc.2_5'Flank|MFSD11_uc002jtd.3_5'Flank|MFSD11_uc010dhb.2_5'Flank|MFSD11_uc002jte.2_5'Flank	NM_003016	NP_003007	Q01130	SRSF2_HUMAN	splicing factor, arginine/serine-rich 2	195	Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|protein binding|RNA binding|transcription corepressor activity				0						CTCTTGGACACTGGGGGAGGA	0.572													6	332	---	---	---	---	PASS	G	74732326	G	G	74732326	3	3	78	1	0	0	0	0	1	0	0	0	14175	565	20	4	86	4	SFRS2	17	74732326	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	1219492	74732326	6462884	263	29865										
USP36	57602	broad.mit.edu	37	chr17	76795029	76795029	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcgtcccagtcatcaaccacGgtctcagtccgggcctgtct	9	16	4	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:76795029G>A	uc002jvz.1	-	19	3526	c.3201C>T	c.(3199-3201)ACC>ACT	p.T1067T	USP36_uc002jwa.1_Silent_p.T1067T|USP36_uc002jvy.1_Silent_p.T127T	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	1065					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			CATCAACCACGGTCTCAGTCC	0.587													68	343	---	---	---	---	PASS	A	76795029	A	A	76795029	2	1	78	1	0	0	0	0	0	0	0	1	17064	1103	39	1		1	USP36	17	76795029	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	2062703	76795029	4400181	264	29866										
TBCD	6904	broad.mit.edu	37	chr17	80828207	80828207	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acgtgtgctgggccttcgcgCgtgcctatgagcctcaggag	15	12	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr17:80828207C>T	uc002kfz.2	+	14	1556	c.1426C>T	c.(1426-1428)CGT>TGT	p.R476C	TBCD_uc002kfx.1_Missense_Mutation_p.R459C|TBCD_uc002kfy.1_Missense_Mutation_p.R476C	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	476					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			GGCCTTCGCGCGTGCCTATGA	0.652													45	41	---	---	---	---	PASS	T	80828207	T	T	80828207	3	4	78	1	0	0	0	0	1	0	0	0	15630	768	27	1	1480	1	TBCD	17	80828207	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	4033178	80828207	367003	265	29867										
ASXL3	80816	broad.mit.edu	37	chr18	31320005	31320005	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gaaaaaaaagtgttaccttcAccattggaattatctgtctt	6	7	3	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr18:31320005A>C	uc010dmg.1	+	11	2692	c.2637A>C	c.(2635-2637)TCA>TCC	p.S879S	ASXL3_uc002kxq.2_Silent_p.S586S	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	879					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TGTTACCTTCACCATTGGAAT	0.368													10	97	---	---	---	---	PASS	C	31320005	C	C	31320005	2	2	78	1	0	0	0	0	0	0	0	1	1068	146	6	5		5	ASXL3	18	31320005	Silent	SNP	A	TCGA-37-4133-01A-01D-1352-08		31320005	46757243	266	29868										
NOL4	8715	broad.mit.edu	37	chr18	31673472	31673472	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tggggactttgcattctttcTtcaagattggagctaagatc	10	7	3	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr18:31673472T>C	uc010dmi.2	-	5	958	c.729A>G	c.(727-729)GAA>GAG	p.E243E	NOL4_uc002kxr.3_Silent_p.E79E|NOL4_uc010xbt.1_Silent_p.E169E|NOL4_uc010dmh.2_Silent_p.E169E|NOL4_uc010xbu.1_Silent_p.E243E|NOL4_uc002kxt.3_Silent_p.E243E|NOL4_uc010xbw.1_Silent_p.E129E	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	243						nucleolus	RNA binding			ovary(3)	3						GCATTCTTTCTTCAAGATTGG	0.373													49	158	---	---	---	---	PASS	C	31673472	C	C	31673472	2	2	78	1	0	0	0	0	0	0	0	1	10524	1606	56	5		5	NOL4	18	31673472	Silent	SNP	T	TCGA-37-4133-01A-01D-1352-08	353467	31673472	46403776	267	29869										
SLC14A1	6563	broad.mit.edu	37	chr18	43329865	43329865	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gttacttatcctgaagaaaaCcgcatcttctacctgcaagc	6	12	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr18:43329865C>T	uc010xcn.1	+	11	1438	c.1119C>T	c.(1117-1119)AAC>AAT	p.N373N	SLC14A1_uc010dnk.2_Silent_p.N429N|SLC14A1_uc002lbf.3_Silent_p.N373N|SLC14A1_uc002lbg.3_RNA|SLC14A1_uc010xco.1_Silent_p.N268N|SLC14A1_uc002lbh.3_Silent_p.N265N|SLC14A1_uc002lbi.3_Silent_p.N241N|SLC14A1_uc002lbj.3_Silent_p.N429N|SLC14A1_uc002lbk.3_Silent_p.N373N	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	373						integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						CTGAAGAAAACCGCATCTTCT	0.463													83	122	---	---	---	---	PASS	T	43329865	T	T	43329865	2	4	78	1	0	0	0	0	0	0	0	1	14396	506	18	3		3	SLC14A1	18	43329865	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	11656393	43329865	34747383	268	29870										
MAPK4	5596	broad.mit.edu	37	chr18	48190555	48190555	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcggcgcctggaccacgacaAcatcgtcaaagtgtacgagg	12	12	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr18:48190555A>G	uc002lev.2	+	2	1227	c.227A>G	c.(226-228)AAC>AGC	p.N76S	MAPK4_uc010xdm.1_Intron|MAPK4_uc010doz.2_Missense_Mutation_p.N76S	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	76	Protein kinase.				cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		GACCACGACAACATCGTCAAA	0.582													29	75	---	---	---	---	PASS	G	48190555	G	G	48190555	3	3	78	1	0	0	0	0	1	0	0	0	9280	43	2	5	229	5	MAPK4	18	48190555	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	4860690	48190555	29886693	269	29871										
ALPK2	115701	broad.mit.edu	37	chr18	56196470	56196470	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tctttttcagtaatactggaGctagaaacaagatatttgaa	7	5	2	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr18:56196470G>A	uc002lhj.3	-	6	5568	c.5354C>T	c.(5353-5355)GCT>GTT	p.A1785V	ALPK2_uc002lhk.1_Missense_Mutation_p.A1116V	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1785							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						TAATACTGGAGCTAGAAACAA	0.219													48	132	---	---	---	---	PASS	A	56196470	A	A	56196470	3	1	78	1	0	0	0	0	1	0	0	0	545	985	34	3	1190	3	ALPK2	18	56196470	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	8005915	56196470	21880778	270	29872										
ZNF532	55205	broad.mit.edu	37	chr18	56620813	56620813	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgggtataaacttgcctttgAgcattaagcctgcaactcaa	8	9	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr18:56620813A>G	uc002lho.2	+	8	3479	c.2932A>G	c.(2932-2934)AGC>GGC	p.S978G	ZNF532_uc002lhp.2_Missense_Mutation_p.S976G|ZNF532_uc010xeg.1_Missense_Mutation_p.S976G|ZNF532_uc002lhr.2_Missense_Mutation_p.S976G|ZNF532_uc002lhs.2_Missense_Mutation_p.S976G|ZNF532_uc010xeh.1_Missense_Mutation_p.S70G	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	978					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						CTTGCCTTTGAGCATTAAGCC	0.353													30	96	---	---	---	---	PASS	G	56620813	G	G	56620813	3	3	78	1	0	0	0	0	1	0	0	0	17969	304	11	5	2950	5	ZNF532	18	56620813	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	424343	56620813	21456435	271	29873										
GIPC3	126326	broad.mit.edu	37	chr19	3586840	3586840	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ggaaggcagtatcatcaaccGgatcgaggcagtgtgcgtgg	16	8	2	0	rs141293401		TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:3586840G>A	uc002lyd.3	+	3	467	c.440G>A	c.(439-441)CGG>CAG	p.R147Q		NM_133261	NP_573568	Q8TF64	GIPC3_HUMAN	GIPC PDZ domain containing family, member 3	147	PDZ.									breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0025)|STAD - Stomach adenocarcinoma(1328;0.18)		ATCATCAACCGGATCGAGGCA	0.622											OREG0025154	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	13	---	---	---	---	PASS	A	3586840	A	A	3586840	3	1	78	1	0	0	0	0	1	0	0	0	6394	1116	39	1	450	1	GIPC3	19	3586840	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08		3586840	55542143	272	29874										
ZNF317	57693	broad.mit.edu	37	chr19	9267288	9267288	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aaccctgttttctcctccagCcacgtccacccaggattcca	5	18	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:9267288C>G	uc002mku.2	+	3	301	c.26C>G	c.(25-27)GCC>GGC	p.A9G	ZNF317_uc010xkm.1_Silent_p.V50V|ZNF317_uc002mkv.2_5'UTR|ZNF317_uc002mkw.2_Missense_Mutation_p.A9G|ZNF317_uc002mkx.2_5'UTR|ZNF317_uc002mky.2_5'UTR	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	9					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTCCTCCAGCCACGTCCACC	0.483													116	171	---	---	---	---	PASS	G	9267288	G	G	9267288	3	3	78	1	0	0	0	0	1	0	0	0	17832	753	26	4	32	4	ZNF317	19	9267288	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	5680448	9267288	49861695	273	29875										
TYK2	7297	broad.mit.edu	37	chr19	10469918	10469918	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aagccatgggcacatggcccCgctccctccgcagccacaca	9	19	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:10469918C>A	uc002moc.3	-	15	2486	c.2108G>T	c.(2107-2109)CGG>CTG	p.R703L	TYK2_uc010dxe.2_Missense_Mutation_p.R518L|TYK2_uc002mod.2_Missense_Mutation_p.R703L	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	703	Protein kinase 1.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			CACATGGCCCCGCTCCCTCCG	0.637													8	7	---	---	---	---	PASS	A	10469918	A	A	10469918	3	1	78	1	0	0	0	0	1	0	0	0	16807	652	23	1	1499	1	TYK2	19	10469918	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	1202630	10469918	48659065	274	29876										
KEAP1	9817	broad.mit.edu	37	chr19	10602850	10602850	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgcaggcgtggaagacctcgGactcgcagcgcacgttcagg	15	12	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:10602850G>C	uc002moq.1	-	3	884	c.728C>G	c.(727-729)TCC>TGC	p.S243C	KEAP1_uc002mop.1_5'UTR|KEAP1_uc002mor.1_Missense_Mutation_p.S243C	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	243	BACK.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			GAAGACCTCGGACTCGCAGCG	0.632													45	24	---	---	---	---	PASS	C	10602850	C	C	10602850	3	2	78	1	0	0	0	0	1	0	0	0	8141	1174	41	2	1162	2	KEAP1	19	10602850	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	132932	10602850	48526133	275	29877										
KANK2	25959	broad.mit.edu	37	chr19	11304076	11304076	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tctggctcttaagttgtactGtgagctgccgcttttcctcc	9	12	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:11304076G>A	uc010dxv.2	-	6	1238	c.680C>T	c.(679-681)ACA>ATA	p.T227I	KANK2_uc002mqm.2_Missense_Mutation_p.T227I|KANK2_uc002mqo.3_Missense_Mutation_p.T227I|KANK2_uc002mqp.1_Missense_Mutation_p.T36I|KANK2_uc002mqq.2_Missense_Mutation_p.T227I	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	227	Potential.										0						AAGTTGTACTGTGAGCTGCCG	0.652													9	40	---	---	---	---	PASS	A	11304076	A	A	11304076	3	1	78	1	0	0	0	0	1	0	0	0	7977	1377	48	3	1939	3	KANK2	19	11304076	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	701226	11304076	47824907	276	29878										
NWD1	284434	broad.mit.edu	37	chr19	16910814	16910814	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctgcttccccacagtcctcaTctttcaaggtctgggatctc	7	15	5	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:16910814T>G	uc002neu.3	+	17	3999	c.3577T>G	c.(3577-3579)TCT>GCT	p.S1193A	NWD1_uc002net.3_Missense_Mutation_p.S1058A|NWD1_uc002nev.3_Missense_Mutation_p.S987A			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1193	WD 9.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						ACAGTCCTCATCTTTCAAGGT	0.637													24	182	---	---	---	---	PASS	G	16910814	G	G	16910814	3	3	78	1	0	0	0	0	1	0	0	0	10781	1435	50	5	3222	5	NWD1	19	16910814	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	5606738	16910814	42218169	277	29879										
CPAMD8	27151	broad.mit.edu	37	chr19	17085976	17085976	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acagaggagcgccggcgtcgTtgtgccgtcagcccagccca	14	15	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:17085976T>C	uc002nfb.2	-	17	2174	c.2142A>G	c.(2140-2142)CAA>CAG	p.Q714Q		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	667						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						GCCGGCGTCGTTGTGCCGTCA	0.577													17	31	---	---	---	---	PASS	C	17085976	C	C	17085976	2	2	78	1	0	0	0	0	0	0	0	1	3795	1722	60	5		5	CPAMD8	19	17085976	Silent	SNP	T	TCGA-37-4133-01A-01D-1352-08	175162	17085976	42043007	278	29880										
UNC13A	23025	broad.mit.edu	37	chr19	17720816	17720816	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tttggtcgcaaacttgcgttTcttgtcgctgagctggggcc	13	10	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:17720816T>C	uc002nhd.2	-	42	5008	c.5008A>G	c.(5008-5010)AAA>GAA	p.K1670E		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1582	C2 3.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						AACTTGCGTTTCTTGTCGCTG	0.527													126	226	---	---	---	---	PASS	C	17720816	C	C	17720816	3	2	78	1	0	0	0	0	1	0	0	0	16981	1792	62	5	375	5	UNC13A	19	17720816	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	634840	17720816	41408167	279	29881										
ZNF626	199777	broad.mit.edu	37	chr19	20828524	20828524	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atcatctcatttctcttcatGgtcaaaggttttcttccttg	5	10	6	0	rs3209057		TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:20828524G>A	uc002npb.1	-	3	342	c.192C>T	c.(190-192)ACC>ACT	p.T64T	ZNF626_uc002npc.1_Intron|ZNF626_uc002npd.1_Silent_p.T64T	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	64	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TTCTCTTCATGGTCAAAGGTT	0.383													134	121	---	---	---	---	PASS	A	20828524	A	A	20828524	2	1	78	1	0	0	0	0	0	0	0	1	18047	1335	47	3		3	ZNF626	19	20828524	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	3107708	20828524	38300459	280	29882										
ZNF676	163223	broad.mit.edu	37	chr19	22375821	22375821	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tattcactctcacctacctgGgggttcttccaccatctcat	5	15	4	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:22375821G>T	uc002nqs.1	-	2	445	c.127C>A	c.(127-129)CCA>ACA	p.P43T		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	43	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CACCTACCTGGGGGTTCTTCC	0.433													109	279	---	---	---	---	PASS	T	22375821	T	T	22375821	3	4	78	1	0	0	0	0	1	0	0	0	18080	1232	43	3	1647	3	ZNF676	19	22375821	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	1547297	22375821	36753162	281	29883										
ZNF254	9534	broad.mit.edu	37	chr19	24309055	24309055	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttatttttatttttttttcaGgtatgtgtcctcattttgct	5	5	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:24309055G>C	uc002nru.2	+	4	388	c.254_splice	c.e4-1	p.G85_splice	ZNF254_uc010xrk.1_Splice_Site	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254						negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				ttttttttCAGGTATGTGTCC	0.303													4	68	---	---	---	---	PASS	C	24309055	C	C	24309055	5	2	78	1	0	0	0	0	0	0	1	0	17795	1014	35	4	267	4	ZNF254	19	24309055	Splice_Site	SNP	G	TCGA-37-4133-01A-01D-1352-08	1933234	24309055	34819928	282	29884										
ANKRD27	84079	broad.mit.edu	37	chr19	33113383	33113383	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcagtctgttctggatctcgGtggacgctccgttctgcagc	12	12	5	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:33113383G>A	uc002ntn.1	-	18	1928	c.1772C>T	c.(1771-1773)ACC>ATC	p.T591I		NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	591	ANK 5.				early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					CTGGATCTCGGTGGACGCTCC	0.522													111	343	---	---	---	---	PASS	A	33113383	A	A	33113383	3	1	78	1	0	0	0	0	1	0	0	0	655	1261	44	3	1428	3	ANKRD27	19	33113383	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	8804328	33113383	26015600	283	29885										
DPF1	8193	broad.mit.edu	37	chr19	38713068	38713068	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tccgtttcttcctccaacagCgggcggggtacgtgtaaatc	11	12	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:38713068C>A	uc002ohl.2	-	3	335	c.308G>T	c.(307-309)CGC>CTC	p.R103L	DPF1_uc002ohm.2_Missense_Mutation_p.R103L|DPF1_uc002ohn.2_Missense_Mutation_p.R21L|DPF1_uc010xtu.1_Missense_Mutation_p.R77L|DPF1_uc010xtv.1_Missense_Mutation_p.R77L|DPF1_uc010xtw.1_Missense_Mutation_p.R77L	NM_004647	NP_004638	Q92782	DPF1_HUMAN	D4, zinc and double PHD fingers family 1 isoform	103					induction of apoptosis|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nBAF complex	zinc ion binding				0	all_cancers(60;1.24e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CCTCCAACAGCGGGCGGGGTA	0.517													126	144	---	---	---	---	PASS	A	38713068	A	A	38713068	3	1	78	1	0	0	0	0	1	0	0	0	4716	768	27	1	1006	1	DPF1	19	38713068	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	5599685	38713068	20415915	284	29886										
EGLN2	112398	broad.mit.edu	37	chr19	41306706	41306706	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctaccactgccagccctcttCgggacggttttggcgggcag	13	14	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:41306706C>T	uc010ehd.2	+	8	1230	c.229C>T	c.(229-231)CGG>TGG	p.R77W	EGLN2_uc002opg.3_Missense_Mutation_p.R77W|EGLN2_uc002oph.2_Missense_Mutation_p.R77W|EGLN2_uc002opi.2_Missense_Mutation_p.R77W	NM_080732	NP_542770	Q96KS0	EGLN2_HUMAN	EGL nine (C.elegans) homolog 2	77					cell redox homeostasis|estrogen receptor signaling pathway|positive regulation of protein catabolic process|regulation of cell growth|response to hypoxia	cytoplasm|nucleus	ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|oxygen sensor activity			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Vitamin C(DB00126)	CAGCCCTCTTCGGGACGGTTT	0.672													8	19	---	---	---	---	PASS	T	41306706	T	T	41306706	3	4	78	1	0	0	0	0	1	0	0	0	4969	875	31	2	231	2	EGLN2	19	41306706	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	2593638	41306706	17822277	285	29887										
ZNF155	7711	broad.mit.edu	37	chr19	44500911	44500911	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	taagaccttctattttaggtCaagacttaagagccattcca	6	9	2	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:44500911C>G	uc002oxy.1	+	5	1107	c.902C>G	c.(901-903)TCA>TGA	p.S301*	ZNF155_uc002oxz.1_Nonsense_Mutation_p.S301*|ZNF155_uc010xwt.1_Nonsense_Mutation_p.S312*	NM_003445	NP_003436	Q12901	ZN155_HUMAN	zinc finger protein 155	301	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)	2		Prostate(69;0.0352)				TATTTTAGGTCAAGACTTAAG	0.388													69	204	---	---	---	---	PASS	G	44500911	G	G	44500911	4	3	78	1	0	0	0	0	0	1	0	0	17733	838	29	2	916	2	ZNF155	19	44500911	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	3194205	44500911	14628072	286	29888										
TBC1D17	79735	broad.mit.edu	37	chr19	50384664	50384664	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gctggaggttccctgcccgcActgcacttccaccgcggggg	14	16	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:50384664A>C	uc002pqo.2	+	5	611	c.459A>C	c.(457-459)GCA>GCC	p.A153A	TBC1D17_uc010enn.1_RNA|TBC1D17_uc010ybg.1_Silent_p.A120A|TBC1D17_uc002pqp.2_5'UTR|TBC1D17_uc002pqq.1_RNA|TBC1D17_uc002pqr.2_5'UTR|TBC1D17_uc002pqs.2_5'Flank	NM_024682	NP_078958	Q9HA65	TBC17_HUMAN	TBC1 domain family, member 17	153						intracellular	Rab GTPase activator activity				0		all_lung(116;0.000338)|Lung NSC(112;0.000446)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.017)		CCCTGCCCGCACTGCACTTCC	0.672													15	75	---	---	---	---	PASS	C	50384664	C	C	50384664	2	2	78	1	0	0	0	0	0	0	0	1	15603	146	6	5		5	TBC1D17	19	50384664	Silent	SNP	A	TCGA-37-4133-01A-01D-1352-08	5883753	50384664	8744319	287	29889										
SHANK1	50944	broad.mit.edu	37	chr19	51169587	51169587	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agcccccaaactgctgaagcTtggagctgagttcactgatg	11	11	1	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:51169587T>G	uc002psx.1	-	22	5649	c.5630A>C	c.(5629-5631)AAG>ACG	p.K1877T	SHANK1_uc002psw.1_Missense_Mutation_p.K1261T	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1877					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		CTGCTGAAGCTTGGAGCTGAG	0.697													19	19	---	---	---	---	PASS	G	51169587	G	G	51169587	3	3	78	1	0	0	0	0	1	0	0	0	14264	1609	56	5	863	5	SHANK1	19	51169587	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	784923	51169587	7959396	288	29890										
ZNF175	7728	broad.mit.edu	37	chr19	52076626	52076626	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccagaagcctcaggtcctggGtccagagaagcaggatggat	14	10	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:52076626G>T	uc002pxb.2	+	2	422	c.44G>T	c.(43-45)GGT>GTT	p.G15V		NM_007147	NP_009078	Q9Y473	ZN175_HUMAN	zinc finger protein 175	15					response to virus	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000426)|OV - Ovarian serous cystadenocarcinoma(262;0.0257)		CAGGTCCTGGGTCCAGAGAAG	0.557													43	207	---	---	---	---	PASS	T	52076626	T	T	52076626	3	4	78	1	0	0	0	0	1	0	0	0	17742	1261	44	3	46	3	ZNF175	19	52076626	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	907039	52076626	7052357	289	29891										
ZNF836	162962	broad.mit.edu	37	chr19	52660359	52660359	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aaactcattctcatatttttTagaaatgttggtttggacac	6	6	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:52660359T>C	uc010ydi.1	-	5	951	c.577A>G	c.(577-579)AAA>GAA	p.K193E	ZNF836_uc010ydj.1_Missense_Mutation_p.K193E	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	193					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCATATTTTTTAGAAATGTTG	0.363													53	41	---	---	---	---	PASS	C	52660359	C	C	52660359	3	2	78	1	0	0	0	0	1	0	0	0	18184	1763	61	5	2235	5	ZNF836	19	52660359	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	583733	52660359	6468624	290	29892										
ZNF610	162963	broad.mit.edu	37	chr19	52869896	52869896	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aaccaaccatcagagaattcAtactggagagagaccttaca	7	10	2	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:52869896A>G	uc002pyx.3	+	6	1671	c.1265A>G	c.(1264-1266)CAT>CGT	p.H422R	ZNF610_uc002pyy.3_Missense_Mutation_p.H422R|ZNF610_uc002pyz.3_Missense_Mutation_p.H379R|ZNF610_uc002pza.2_Missense_Mutation_p.H422R	NM_001161426	NP_001154898	Q8N9Z0	ZN610_HUMAN	zinc finger protein 610 isoform a	422	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3				OV - Ovarian serous cystadenocarcinoma(262;0.00396)|GBM - Glioblastoma multiforme(134;0.00434)		CAGAGAATTCATACTGGAGAG	0.403													64	104	---	---	---	---	PASS	G	52869896	G	G	52869896	3	3	78	1	0	0	0	0	1	0	0	0	18033	217	8	5	1279	5	ZNF610	19	52869896	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	209537	52869896	6259087	291	29893										
ZNF813	126017	broad.mit.edu	37	chr19	53994103	53994103	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttcgttactcacacaaaaacAggaggtacacatgagagaaa	8	8	1	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:53994103A>T	uc002qbu.2	+	4	745	c.617A>T	c.(616-618)CAG>CTG	p.Q206L	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	206					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		ACACAAAAACAGGAGGTACAC	0.348													52	180	---	---	---	---	PASS	T	53994103	T	T	53994103	3	4	78	1	0	0	0	0	1	0	0	0	18172	188	7	5	627	5	ZNF813	19	53994103	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	1124207	53994103	5134880	292	29894										
NCR1	9437	broad.mit.edu	37	chr19	55418006	55418006	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agctgcactttgaaggaagcCtttttgccgtggacagacca	11	10	0	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:55418006C>A	uc002qib.2	+	3	234	c.196C>A	c.(196-198)CTT>ATT	p.L66I	NCR1_uc002qic.2_Missense_Mutation_p.L66I|NCR1_uc002qie.2_Missense_Mutation_p.L66I|NCR1_uc002qid.2_Intron|NCR1_uc002qif.2_Intron|NCR1_uc010esj.2_Intron	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1	66	Ig-like 1.|Extracellular (Potential).				cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		TGAAGGAAGCCTTTTTGCCGT	0.502													45	140	---	---	---	---	PASS	A	55418006	A	A	55418006	3	1	78	1	0	0	0	0	1	0	0	0	10237	681	24	3	206	3	NCR1	19	55418006	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	1423903	55418006	3710977	293	29895										
NLRP2	55655	broad.mit.edu	37	chr19	55493679	55493679	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccagggtgcttcccgggcccTtctcatacacggtggtgctg	13	14	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr19:55493679T>G	uc002qij.2	+	6	699	c.613T>G	c.(613-615)TTC>GTC	p.F205V	NLRP2_uc010yfp.1_Missense_Mutation_p.F182V|NLRP2_uc010esn.2_Missense_Mutation_p.F181V|NLRP2_uc010eso.2_Missense_Mutation_p.F202V|NLRP2_uc010esp.2_Missense_Mutation_p.F183V	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	205					apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		TCCCGGGCCCTTCTCATACAC	0.552													50	196	---	---	---	---	PASS	G	55493679	G	G	55493679	3	3	78	1	0	0	0	0	1	0	0	0	10477	1609	56	5	631	5	NLRP2	19	55493679	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	75673	55493679	3635304	294	29896										
ANGPT4	51378	broad.mit.edu	37	chr20	896737	896737	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gaaggtgtagctacagtggcCgtgctggactacaagtgtct	14	8	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:896737C>T	uc002wei.2	-	1	224	c.121G>A	c.(121-123)GGC>AGC	p.G41S	ANGPT4_uc010zpn.1_Missense_Mutation_p.G35S	NM_015985	NP_057069	Q9Y264	ANGP4_HUMAN	angiopoietin 4 precursor	41					anti-apoptosis|blood coagulation|cellular response to hypoxia|leukocyte migration|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of peptidyl-tyrosine phosphorylation|signal transduction	extracellular space	receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			ovary(2)	2						CTACAGTGGCCGTGCTGGACT	0.617													63	78	---	---	---	---	PASS	T	896737	T	T	896737	3	4	78	1	0	0	0	0	1	0	0	0	612	652	23	1	1426	1	ANGPT4	20	896737	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08		896737	62128783	295	29897										
SNPH	9751	broad.mit.edu	37	chr20	1277791	1277791	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcttcttcctgcctccaggcGcacctctccacctgtgagcg	8	18	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:1277791G>T	uc002wes.2	+	4	289	c.53G>T	c.(52-54)CGC>CTC	p.R18L	SNPH_uc002wet.2_Missense_Mutation_p.R62L	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	18					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						GCCTCCAGGCGCACCTCTCCA	0.662													7	46	---	---	---	---	PASS	T	1277791	T	T	1277791	3	4	78	1	0	0	0	0	1	0	0	0	14850	1087	38	1	59	1	SNPH	20	1277791	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	381054	1277791	61747729	296	29898										
SNPH	9751	broad.mit.edu	37	chr20	1286156	1286156	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gcatgcaggagcgtgccatcCagacagacttcgtgcagtac	12	12	0	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:1286156C>G	uc002wes.2	+	6	1179	c.943C>G	c.(943-945)CAG>GAG	p.Q315E	SNPH_uc002wet.2_Missense_Mutation_p.Q359E	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	315					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						GCGTGCCATCCAGACAGACTT	0.627													63	150	---	---	---	---	PASS	G	1286156	G	G	1286156	3	3	78	1	0	0	0	0	1	0	0	0	14850	595	21	4	957	4	SNPH	20	1286156	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	8365	1286156	61739364	297	29899										
C20orf79	140856	broad.mit.edu	37	chr20	18794887	18794887	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gagtggcaaggttctgcttaGctggaagctggaaagggttt	16	5	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:18794887G>A	uc002wrk.2	+	1	518	c.428G>A	c.(427-429)AGC>AAC	p.S143N	uc002wrj.1_Intron	NM_178483	NP_848578	Q9UJQ7	CT079_HUMAN	hypothetical protein LOC140856	143	SCP2.						sterol binding			skin(3)	3						GTTCTGCTTAGCTGGAAGCTG	0.443													6	172	---	---	---	---	PASS	A	18794887	A	A	18794887	3	1	78	1	0	0	0	0	1	0	0	0	2119	971	34	3	430	3	C20orf79	20	18794887	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	17508731	18794887	44230633	298	29900										
RALGAPA2	57186	broad.mit.edu	37	chr20	20552580	20552580	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tatccaggcttattgctagaTtatcccgtatctaattcaca	5	10	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:20552580T>C	uc002wrz.2	-	22	3055	c.2912A>G	c.(2911-2913)AAT>AGT	p.N971S	RALGAPA2_uc010gcx.2_Missense_Mutation_p.N675S|RALGAPA2_uc010zsg.1_Missense_Mutation_p.N419S	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	971					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						TATTGCTAGATTATCCCGTAT	0.403													20	16	---	---	---	---	PASS	C	20552580	C	C	20552580	3	2	78	1	0	0	0	0	1	0	0	0	13014	1493	52	5	2781	5	RALGAPA2	20	20552580	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	1757693	20552580	42472940	299	29901										
CD93	22918	broad.mit.edu	37	chr20	23065010	23065010	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccctcttcgctctccgcttgCgatagaccagtagccccaga	8	17	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:23065010C>T	uc002wsv.2	-	1	1968	c.1820G>A	c.(1819-1821)CGC>CAC	p.R607H		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	607	Cytoplasmic (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					TCTCCGCTTGCGATAGACCAG	0.582													101	288	---	---	---	---	PASS	T	23065010	T	T	23065010	3	4	78	1	0	0	0	0	1	0	0	0	3047	768	27	1	146	1	CD93	20	23065010	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	2512430	23065010	39960510	300	29902										
NINL	22981	broad.mit.edu	37	chr20	25434199	25434199	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctcgctgcttctcctcggtgGcctgaagtgctctcaccagg	11	15	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:25434199G>T	uc002wux.1	-	24	4111	c.4037C>A	c.(4036-4038)GCC>GAC	p.A1346D	NINL_uc010gdn.1_Missense_Mutation_p.A997D|NINL_uc002wuw.1_Missense_Mutation_p.A137D	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1346	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CTCCTCGGTGGCCTGAAGTGC	0.567													7	118	---	---	---	---	PASS	T	25434199	T	T	25434199	3	4	78	1	0	0	0	0	1	0	0	0	10420	1203	42	3	115	3	NINL	20	25434199	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	2369189	25434199	37591321	301	29903										
POFUT1	23509	broad.mit.edu	37	chr20	30822339	30822339	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgtacatcctcggccaagccGaccactttattggcaactgt	8	13	0	0	rs35259534	byFrequency	TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:30822339G>T	uc002wxp.2	+	7	1091	c.1042G>T	c.(1042-1044)GAC>TAC	p.D348Y	POFUT1_uc010ztt.1_Missense_Mutation_p.D240Y|POFUT1_uc010ztu.1_Missense_Mutation_p.D137Y	NM_015352	NP_056167	Q9H488	OFUT1_HUMAN	protein O-fucosyltransferase 1 isoform 1	348					fucose metabolic process|Notch signaling pathway|O-glycan processing|regulation of transcription, DNA-dependent	endoplasmic reticulum|membrane	peptide-O-fucosyltransferase activity			breast(1)	1			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CGGCCAAGCCGACCACTTTAT	0.592													254	104	---	---	---	---	PASS	T	30822339	T	T	30822339	3	4	78	1	0	0	0	0	1	0	0	0	12183	1058	37	2	1115	2	POFUT1	20	30822339	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	5388140	30822339	32203181	302	29904										
BPIL3	128859	broad.mit.edu	37	chr20	31622902	31622902	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tctagcatgctccccaagatGgtcaacaagttcctggacag	9	12	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:31622902G>T	uc010zuc.1	+	5	468	c.468G>T	c.(466-468)ATG>ATT	p.M156I	BPIL3_uc010zud.1_Missense_Mutation_p.M95I	NM_174897	NP_777557	Q8NFQ5	BPIL3_HUMAN	bactericidal/permeability-increasing	156						extracellular region	lipid binding			ovary(1)|pancreas(1)	2						TCCCCAAGATGGTCAACAAGT	0.572													11	253	---	---	---	---	PASS	T	31622902	T	T	31622902	3	4	78	1	0	0	0	0	1	0	0	0	1493	1348	47	3	486	3	BPIL3	20	31622902	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	800563	31622902	31402618	303	29905										
KIAA0406	9675	broad.mit.edu	37	chr20	36611922	36611922	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ggttctgctgcccgctggccCcgtgcagctgcacagggtgg	16	14	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:36611922C>A	uc002xhl.2	-	9	3415	c.3206G>T	c.(3205-3207)GGG>GTG	p.G1069V	KIAA0406_uc002xhm.2_Missense_Mutation_p.G1069V	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	1069							binding				0		Myeloproliferative disorder(115;0.00874)				CCCGCTGGCCCCGTGCAGCTG	0.652													12	35	---	---	---	---	PASS	A	36611922	A	A	36611922	3	1	78	1	0	0	0	0	1	0	0	0	8173	623	22	3	67	3	KIAA0406	20	36611922	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	4989020	36611922	26413598	304	29906										
ZSWIM3	140831	broad.mit.edu	37	chr20	44506879	44506879	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	acaatggtaccacctgccatGccgacacattttggctctgc	8	14	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:44506879G>A	uc002xqd.2	+	2	1885	c.1682G>A	c.(1681-1683)TGC>TAC	p.C561Y	ZSWIM3_uc010zxg.1_Missense_Mutation_p.C555Y|ZSWIM1_uc010zxh.1_5'Flank|ZSWIM1_uc010ghi.2_5'Flank	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	561	SWIM-type.						zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				CACCTGCCATGCCGACACATT	0.572													20	54	---	---	---	---	PASS	A	44506879	A	A	44506879	3	1	78	1	0	0	0	0	1	0	0	0	18239	1319	46	3	1688	3	ZSWIM3	20	44506879	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	7894957	44506879	18518641	305	29907										
SLC12A5	57468	broad.mit.edu	37	chr20	44685078	44685078	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccaggggaggagcctgagggGgaaggggagacagatccgga	21	7	0	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:44685078G>A	uc010zxl.1	+	23	3130	c.3054G>A	c.(3052-3054)GGG>GGA	p.G1018G	SLC12A5_uc002xrb.2_Silent_p.G995G	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	1018	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	AGCCTGAGGGGGAAGGGGAGA	0.617													21	43	---	---	---	---	PASS	A	44685078	A	A	44685078	2	1	78	1	0	0	0	0	0	0	0	1	14386	1219	43	3		3	SLC12A5	20	44685078	Silent	SNP	G	TCGA-37-4133-01A-01D-1352-08	178199	44685078	18340442	306	29908										
SLC13A3	64849	broad.mit.edu	37	chr20	45228639	45228639	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctggcgagaaactgcatctcCgtgggcacagtgtgtaggcc	14	11	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:45228639C>T	uc002xsf.1	-	4	617	c.579G>A	c.(577-579)ACG>ACA	p.T193T	SLC13A3_uc010ghn.1_Silent_p.T162T|SLC13A3_uc010zxw.1_Intron|SLC13A3_uc002xsg.1_Silent_p.T146T|SLC13A3_uc010gho.1_Silent_p.T146T|SLC13A3_uc010zxx.1_Silent_p.T95T	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	193	Cytoplasmic (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	ACTGCATCTCCGTGGGCACAG	0.468													36	121	---	---	---	---	PASS	T	45228639	T	T	45228639	2	4	78	1	0	0	0	0	0	0	0	1	14393	639	23	1		1	SLC13A3	20	45228639	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	543561	45228639	17796881	307	29909										
MC3R	4159	broad.mit.edu	37	chr20	54823995	54823995	+	Frame_Shift_Del	DEL	C	-	-													0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttcagcaaccagagcagcagCgccttctgtgagcaggtctt							TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:54823995delC	uc002xxb.2	+	1	208	c.96delC	c.(94-96)AGCfs	p.S32fs		NM_019888	NP_063941	P41968	MC3R_HUMAN	melanocortin 3 receptor	69	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|protein binding			ovary(2)|breast(2)	4			Colorectal(105;0.202)			AGAGCAGCAGCGCCTTCTGTG	0.562													195	86	---	---	---	---		-	54823995	-	-	54823995	7	5	78	1	0	1	0	1	0	0	0	0	9365	767	27	0	98	0	MC3R	20	54823995	Frame_Shift_Del	DEL	C	TCGA-37-4133-01A-01D-1352-08	9595356	54823995	8201525	308	29910										
GNAS	2778	broad.mit.edu	37	chr20	57415276	57415276	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcctctggctctcctgctccAtcgcgctcctccgcgccctt	7	21	2	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:57415276A>G	uc002xzt.2	+	1	482	c.115A>G	c.(115-117)ATC>GTC	p.I39V	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CTCCTGCTCCATCGCGCTCCT	0.716			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			22	34	---	---	---	---	PASS	G	57415276	G	G	57415276	3	3	78	1	0	0	0	0	1	0	0	0	6510	217	8	5	117	5	GNAS	20	57415276	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	2591281	57415276	5610244	309	29911										
CTSZ	1522	broad.mit.edu	37	chr20	57576578	57576578	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gggatgccgtgctggtgggcGtagtcccacacggacaggtc	17	11	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr20:57576578G>T	uc002yai.2	-	3	555	c.429C>A	c.(427-429)TAC>TAA	p.Y143*	CTSZ_uc002yaj.3_Nonsense_Mutation_p.Y143*	NM_001336	NP_001327	Q9UBR2	CATZ_HUMAN	cathepsin Z preproprotein	143					proteolysis	endoplasmic reticulum|extracellular space|lysosome	cysteine-type endopeptidase activity			kidney(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)			GCTGGTGGGCGTAGTCCCACA	0.652													19	32	---	---	---	---	PASS	T	57576578	T	T	57576578	4	4	78	1	0	0	0	0	0	1	0	0	4043	1140	40	1	498	1	CTSZ	20	57576578	Nonsense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	161302	57576578	5448942	310	29912										
BAGE2	85319	broad.mit.edu	37	chr21	11097576	11097576	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	catcttcaggctccaacctcCagctcaccacaggggactcc	7	18	3	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr21:11097576C>T	uc002yit.1	-	2	294	c.86G>A	c.(85-87)TGG>TAG	p.W29*	BAGE_uc002yix.2_RNA	NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ctccaacctccagctcaccac	0.095													11	123	---	---	---	---	PASS	T	11097576	T	T	11097576	4	4	78	1	0	0	0	0	0	1	0	0	1292	595	21	3	255	3	BAGE2	21	11097576	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08		11097576	37032319	311	29913										
SFRS15	57466	broad.mit.edu	37	chr21	33044665	33044665	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	accaggggcaactccttgagTgcctaaaagacgacaaaaat	9	10	0	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr21:33044665T>A	uc002ypd.2	-	20	2917	c.2491A>T	c.(2491-2493)ACT>TCT	p.T831S	SFRS15_uc002ype.2_Missense_Mutation_p.T809S|SFRS15_uc010glu.2_Missense_Mutation_p.T816S	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	831						nucleus	nucleotide binding|RNA binding				0						ACTCCTTGAGTGCCTAAAAGA	0.507													51	25	---	---	---	---	PASS	A	33044665	A	A	33044665	3	1	78	1	0	0	0	0	1	0	0	0	14171	1696	59	5	956	5	SFRS15	21	33044665	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	21947089	33044665	15085230	312	29914										
BRWD1	54014	broad.mit.edu	37	chr21	40558971	40558971	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	actattgtgcattttctttcCaggatctgaacccccttaaa	5	11	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr21:40558971C>A	uc002yxk.1	-	42	7083	c.6944G>T	c.(6943-6945)TGG>TTG	p.W2315L	BRWD1_uc010goc.1_Missense_Mutation_p.W958L	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	2315					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				ATTTTCTTTCCAGGATCTGAA	0.343													5	211	---	---	---	---	PASS	A	40558971	A	A	40558971	3	1	78	1	0	0	0	0	1	0	0	0	1525	595	21	3	22	3	BRWD1	21	40558971	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	7514306	40558971	7570924	313	29915										
TFF1	7031	broad.mit.edu	37	chr21	43783371	43783371	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	aaaaaggccataccttctggAgggacgtcgatggtattagg	13	7	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr21:43783371A>G	uc002zax.1	-	2	271	c.231T>C	c.(229-231)CCT>CCC	p.P77P		NM_003225	NP_003216	P04155	TFF1_HUMAN	trefoil factor 1 precursor	77					carbohydrate metabolic process|response to estradiol stimulus		growth factor activity				0						TACCTTCTGGAGGGACGTCGA	0.483													29	64	---	---	---	---	PASS	G	43783371	G	G	43783371	2	3	78	1	0	0	0	0	0	0	0	1	15800	291	11	5		5	TFF1	21	43783371	Silent	SNP	A	TCGA-37-4133-01A-01D-1352-08	3224400	43783371	4346524	314	29916										
WDR4	10785	broad.mit.edu	37	chr21	44273748	44273748	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cagtcctggagcacccacagCccctgggtctcctcgaaagc	10	17	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr21:44273748C>T	uc002zci.2	-	9	979	c.906G>A	c.(904-906)GGG>GGA	p.G302G	WDR4_uc002zck.1_Silent_p.G302G|WDR4_uc002zcl.1_Silent_p.G156G|WDR4_uc010gpg.1_Silent_p.G301G|WDR4_uc011aew.1_Silent_p.G156G|WDR4_uc010gph.1_Silent_p.G156G	NM_033661	NP_387510	P57081	WDR4_HUMAN	WD repeat domain 4 protein	302	WD 4.				tRNA modification	cytoplasm|nucleoplasm	protein binding			ovary(1)	1				Colorectal(79;0.0165)|Lung(125;0.0484)|STAD - Stomach adenocarcinoma(101;0.0624)|COAD - Colon adenocarcinoma(84;0.128)|LUSC - Lung squamous cell carcinoma(216;0.244)		GCACCCACAGCCCCTGGGTCT	0.632													15	7	---	---	---	---	PASS	T	44273748	T	T	44273748	2	4	78	1	0	0	0	0	0	0	0	1	17290	726	26	3		3	WDR4	21	44273748	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	490377	44273748	3856147	315	29917										
KRTAP10-12	386685	broad.mit.edu	37	chr21	46117824	46117824	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcctgcgggtccctcctctgCcgccccacatgttcccgcct	8	21	1	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr21:46117824C>A	uc002zfw.1	+	1	738	c.708C>A	c.(706-708)TGC>TGA	p.C236*	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198699	NP_941972	P60413	KR10C_HUMAN	keratin associated protein 10-12	236						keratin filament					0						CCCTCCTCTGCCGCCCCACAT	0.716													30	29	---	---	---	---	PASS	A	46117824	A	A	46117824	4	1	78	1	0	0	0	0	0	1	0	0	8508	747	26	3	710	3	KRTAP10-12	21	46117824	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	1844076	46117824	2012071	316	29918										
DEPDC5	9681	broad.mit.edu	37	chr22	32242824	32242824	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctcttctctgctttagaaagGgaccgccatgaaaggcttgc	10	11	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr22:32242824G>A	uc003als.2	+	31	3141	c.2999G>A	c.(2998-3000)GGG>GAG	p.G1000E	DEPDC5_uc011als.1_Missense_Mutation_p.G931E|DEPDC5_uc011alu.1_Missense_Mutation_p.G1009E|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.G1000E|DEPDC5_uc003alu.2_Missense_Mutation_p.G449E|DEPDC5_uc003alv.2_RNA|DEPDC5_uc011alw.1_Missense_Mutation_p.G330E|DEPDC5_uc003alw.2_Missense_Mutation_p.G298E|DEPDC5_uc011alx.1_Intron|DEPDC5_uc010gwk.2_Missense_Mutation_p.G4E	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1000					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						CTTTAGAAAGGGACCGCCATG	0.582													14	92	---	---	---	---	PASS	A	32242824	A	A	32242824	3	1	78	1	0	0	0	0	1	0	0	0	4442	1232	43	3	3135	3	DEPDC5	22	32242824	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08		32242824	19061742	317	29919										
FOXRED2	80020	broad.mit.edu	37	chr22	36886290	36886290	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agggtggcaacttctggcgcGtgagggcgaacaggaagcag	18	8	1	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr22:36886290G>A	uc003apn.3	-	8	1928	c.1820C>T	c.(1819-1821)ACG>ATG	p.T607M	FOXRED2_uc003apm.3_Missense_Mutation_p.T159M|FOXRED2_uc003apo.3_Missense_Mutation_p.T607M|FOXRED2_uc003app.3_Missense_Mutation_p.T607M	NM_024955	NP_079231	Q8IWF2	FXRD2_HUMAN	FAD-dependent oxidoreductase domain containing 2	607				T -> A (in Ref. 2; BAB15227).	ER-associated protein catabolic process	endoplasmic reticulum lumen	flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			lung(1)|kidney(1)	2						CTTCTGGCGCGTGAGGGCGAA	0.582													187	280	---	---	---	---	PASS	A	36886290	A	A	36886290	3	1	78	1	0	0	0	0	1	0	0	0	6034	1145	40	1	238	1	FOXRED2	22	36886290	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	4643466	36886290	14418276	318	29920										
SSTR3	6753	broad.mit.edu	37	chr22	37603578	37603578	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cagcatgaagagctcgtcggCcagcgccaggttgaggatgt	15	10	0	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr22:37603578C>T	uc003ara.2	-	2	327	c.265G>A	c.(265-267)GCC>ACC	p.A89T	SSTR3_uc003arb.2_Missense_Mutation_p.A89T	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	89	Helical; Name=2; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						AGCTCGTCGGCCAGCGCCAGG	0.652													72	89	---	---	---	---	PASS	T	37603578	T	T	37603578	3	4	78	1	0	0	0	0	1	0	0	0	15198	739	26	3	995	3	SSTR3	22	37603578	Missense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	717288	37603578	13700988	319	29921										
FAM83F	113828	broad.mit.edu	37	chr22	40417597	40417597	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ccggaggggcaggaggagggCgccagcggtggcgagtcggc	23	10	0	0			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chr22:40417597C>T	uc003ayk.1	+	4	1177	c.1083C>T	c.(1081-1083)GGC>GGT	p.G361G		NM_138435	NP_612444	Q8NEG4	FA83F_HUMAN	hypothetical protein LOC113828	361										breast(1)	1						AGGAGGAGGGCGCCAGCGGTG	0.721													14	25	---	---	---	---	PASS	T	40417597	T	T	40417597	2	4	78	1	0	0	0	0	0	0	0	1	5638	755	27	1		1	FAM83F	22	40417597	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	2814019	40417597	10886969	320	29922										
PLCXD1	55344	broad.mit.edu	37	chrX	205453	205453	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agaagtcccccatttcgcacGaggagtcccggctgctgcag	12	14	0	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:205453G>T	uc004cpc.2	+	3	493	c.181G>T	c.(181-183)GAG>TAG	p.E61*	PLCXD1_uc011mgx.1_RNA	NM_018390	NP_060860	Q9NUJ7	PLCX1_HUMAN	phosphatidylinositol-specific phospholipase C, X	61	PI-PLC X-box.				intracellular signal transduction|lipid metabolic process		phospholipase C activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CATTTCGCACGAGGAGTCCCG	0.622													100	115	---	---	---	---	PASS	T	205453	T	T	205453	4	4	78	1	0	0	0	0	0	1	0	0	12041	1059	37	2	187	2	PLCXD1	23	205453	Nonsense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08		205453	155065107	321	29923										
CD99	4267	broad.mit.edu	37	chrX	2637713	2637713	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ctcttttaggggatgactttGacttaggagatgctgttgtt	12	5	1	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:2637713G>C	uc004cqm.2	+	4	334	c.160G>C	c.(160-162)GAC>CAC	p.D54H	CD99_uc010nda.2_Missense_Mutation_p.D38H|CD99_uc004cqn.2_RNA|CD99_uc004cqo.2_Missense_Mutation_p.D54H	NM_002414	NP_002405	P14209	CD99_HUMAN	CD99 antigen isoform a precursor	54	Extracellular (Potential).				cell adhesion	cytoplasm|integral to plasma membrane				skin(1)	1						GGATGACTTTGACTTAGGAGA	0.403													9	891	---	---	---	---	PASS	C	2637713	C	C	2637713	3	2	78	1	0	0	0	0	1	0	0	0	3050	1290	45	2	174	2	CD99	23	2637713	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	2432260	2637713	152632847	322	29924										
CNKSR2	22866	broad.mit.edu	37	chrX	21450923	21450923	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agccaagagtctgcttgcctGgttggacaggtaaagtcttc	12	9	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:21450923G>T	uc004czx.1	+	3	458	c.422G>T	c.(421-423)TGG>TTG	p.W141L	CNKSR2_uc004czw.2_Missense_Mutation_p.W141L|CNKSR2_uc011mjn.1_Missense_Mutation_p.W141L|CNKSR2_uc011mjo.1_Missense_Mutation_p.W141L	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	141	CRIC.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						CTGCTTGCCTGGTTGGACAGG	0.443													109	33	---	---	---	---	PASS	T	21450923	T	T	21450923	3	4	78	1	0	0	0	0	1	0	0	0	3607	1357	47	3	432	3	CNKSR2	23	21450923	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	18813210	21450923	133819637	323	29925										
MAGEB18	286514	broad.mit.edu	37	chrX	26158006	26158006	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tccctagtgccttcccatccTgctatgaagaggctttgagg	10	12	0	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:26158006T>G	uc004dbq.1	+	2	1091	c.904T>G	c.(904-906)TGC>GGC	p.C302G		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	302	MAGE.						protein binding			central_nervous_system(1)	1						CTTCCCATCCTGCTATGAAGA	0.522													26	3	---	---	---	---	PASS	G	26158006	G	G	26158006	3	3	78	1	0	0	0	0	1	0	0	0	9175	1580	55	5	906	5	MAGEB18	23	26158006	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	4707083	26158006	129112554	324	29926										
FAM47A	158724	broad.mit.edu	37	chrX	34148451	34148451	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	cttcagctctgaggaacactCctttactttcttaaactttt	4	11	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:34148451C>A	uc004ddg.2	-	1	1978	c.1945G>T	c.(1945-1947)GAG>TAG	p.E649*		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	649										ovary(4)|central_nervous_system(1)	5						GAGGAACACTCCTTTACTTTC	0.453													115	33	---	---	---	---	PASS	A	34148451	A	A	34148451	4	1	78	1	0	0	0	0	0	1	0	0	5569	864	30	2	434	2	FAM47A	23	34148451	Nonsense_Mutation	SNP	C	TCGA-37-4133-01A-01D-1352-08	7990445	34148451	121122109	325	29927										
FAM47C	442444	broad.mit.edu	37	chrX	37029404	37029404	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tgatgaacccgacattcttgAcggtctttatggaccaatcg	9	10	2	3			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:37029404A>T	uc004ddl.1	+	1	2935	c.2921A>T	c.(2920-2922)GAC>GTC	p.D974V		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	974										ovary(3)	3						GACATTCTTGACGGTCTTTAT	0.458													190	58	---	---	---	---	PASS	T	37029404	T	T	37029404	3	4	78	1	0	0	0	0	1	0	0	0	5571	275	10	5	2923	5	FAM47C	23	37029404	Missense_Mutation	SNP	A	TCGA-37-4133-01A-01D-1352-08	2880953	37029404	118241156	326	29928										
ZNF81	347344	broad.mit.edu	37	chrX	47774987	47774987	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gtaaatgtttttacacagaaGccactactcagtatatatct	5	8	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:47774987G>T	uc010nhy.1	+	6	1310	c.942G>T	c.(940-942)AAG>AAT	p.K314N		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	314						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				TTACACAGAAGCCACTACTCA	0.358													63	15	---	---	---	---	PASS	T	47774987	T	T	47774987	3	4	78	1	0	0	0	0	1	0	0	0	18171	962	34	3	956	3	ZNF81	23	47774987	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	10745583	47774987	107495573	327	29929										
SSX7	280658	broad.mit.edu	37	chrX	52679419	52679419	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	tcaccttcgggaagattctcTggagcctgcaaaaagtcatc	9	11	3	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:52679419T>C	uc004dqx.1	-	5	473	c.314A>G	c.(313-315)CAG>CGG	p.Q105R		NM_173358	NP_775494	Q7RTT5	SSX7_HUMAN	synovial sarcoma, X breakpoint 7	105					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding			skin(1)	1	Ovarian(276;0.236)					GAAGATTCTCTGGAGCCTGCA	0.408													12	172	---	---	---	---	PASS	C	52679419	C	C	52679419	3	2	78	1	0	0	0	0	1	0	0	0	15208	1580	55	5	264	5	SSX7	23	52679419	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	4904432	52679419	102591141	328	29930										
RPS6KA6	27330	broad.mit.edu	37	chrX	83419352	83419352	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	ttacatgacaagaatctgctTctccctcttccattggctca	5	13	4	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:83419352T>C	uc004eej.1	-	2	202	c.125A>G	c.(124-126)GAA>GGA	p.E42G	RPS6KA6_uc011mqt.1_Missense_Mutation_p.E42G|RPS6KA6_uc011mqu.1_5'UTR	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	42					axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						AGAATCTGCTTCTCCCTCTTC	0.313													4	117	---	---	---	---	PASS	C	83419352	C	C	83419352	3	2	78	1	0	0	0	0	1	0	0	0	13655	1783	62	5	2196	5	RPS6KA6	23	83419352	Missense_Mutation	SNP	T	TCGA-37-4133-01A-01D-1352-08	30739933	83419352	71851208	329	29931										
TCEAL2	140597	broad.mit.edu	37	chrX	101382147	101382147	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	gaaagagagccagagagtgaGggagagccagaaagtgaaac	16	5	0	6			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:101382147G>T	uc004eip.2	+	3	564	c.345G>T	c.(343-345)GAG>GAT	p.E115D		NM_080390	NP_525129	Q9H3H9	TCAL2_HUMAN	transcription elongation factor A (SII)-like 2	115					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						cagagagtgagggagagCCAG	0.239													64	13	---	---	---	---	PASS	T	101382147	T	T	101382147	3	4	78	1	0	0	0	0	1	0	0	0	15668	991	35	3	347	3	TCEAL2	23	101382147	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	17962795	101382147	53888413	330	29932										
NRK	203447	broad.mit.edu	37	chrX	105152720	105152720	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atttgtgtgtttattttagaGgaccctcttgcactcacgag	9	8	2	1			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:105152720G>A	uc004emd.2	+	13	1390	c.1087G>A	c.(1087-1089)GGA>AGA	p.G363R	NRK_uc010npc.1_Missense_Mutation_p.G31R	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	363							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						TTATTTTAGAGGACCCTCTTG	0.443										HNSCC(51;0.14)			39	16	---	---	---	---	PASS	A	105152720	A	A	105152720	3	1	78	1	0	0	0	0	1	0	0	0	10655	1014	35	3	1137	3	NRK	23	105152720	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	3770573	105152720	50117840	331	29933										
MCF2	4168	broad.mit.edu	37	chrX	138671994	138671994	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	agaattttcaaatgaccaacCtggacaatataaacttcttc	4	9	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:138671994C>T	uc004fau.2	-	20	2664	c.2370G>A	c.(2368-2370)CAG>CAA	p.Q790Q	MCF2_uc004fav.2_Silent_p.Q806Q|MCF2_uc011mwl.1_Silent_p.Q767Q|MCF2_uc010nsh.1_Silent_p.Q790Q|MCF2_uc011mwm.1_Silent_p.Q751Q|MCF2_uc011mwn.1_Silent_p.Q935Q|MCF2_uc004faw.2_Silent_p.Q850Q|MCF2_uc011mwo.1_Silent_p.Q866Q	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	790	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					AATGACCAACCTGGACAATAT	0.318													72	19	---	---	---	---	PASS	T	138671994	T	T	138671994	2	4	78	1	0	0	0	0	0	0	0	1	9378	695	24	3		3	MCF2	23	138671994	Silent	SNP	C	TCGA-37-4133-01A-01D-1352-08	33519274	138671994	16598566	332	29934										
MAGEC1	9947	broad.mit.edu	37	chrX	140995192	140995192	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0870870870870871	29	0.0862832672054575	1.3482722513089	2.88251308900524	0.900785340314136	1	1	0	atagtcctcagagccctcctGaggggatgcactcccaatct	9	14	2	2			TCGA-37-4133-01A-01D-1352-08	TCGA-37-4133-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	a678cc49-9009-4027-826f-e17f4533538d	843162db-7cdc-45db-b873-ff066eb78fcf	g.chrX:140995192G>A	uc004fbt.2	+	4	2288	c.2002G>A	c.(2002-2004)GAG>AAG	p.E668K	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	668							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GAGCCCTCCTGAGGGGATGCA	0.577										HNSCC(15;0.026)			6	417	---	---	---	---	PASS	A	140995192	A	A	140995192	3	1	78	1	0	0	0	0	1	0	0	0	9180	1291	45	2	2008	2	MAGEC1	23	140995192	Missense_Mutation	SNP	G	TCGA-37-4133-01A-01D-1352-08	2323198	140995192	14275368	333	29935										
CASZ1	54897	broad.mit.edu	37	chr1	10714050	10714050	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cggcgctcatgcttgcgcttGtgagaggtcatctggctggt	15	10	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:10714050G>C	uc001aro.2	-	11	2384	c.2064C>G	c.(2062-2064)CAC>CAG	p.H688Q	CASZ1_uc001arp.1_Missense_Mutation_p.H688Q|CASZ1_uc009vmx.2_Missense_Mutation_p.H712Q	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	688	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GCTTGCGCTTGTGAGAGGTCA	0.667													16	49	---	---	---	---	PASS	C	10714050	C	C	10714050	3	2	79	1	0	0	0	0	1	0	0	0	2685	1368	48	4	3263	4	CASZ1	1	10714050	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08		10714050	238536571	1	29936										
MTOR	2475	broad.mit.edu	37	chr1	11298013	11298013	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aaacacctggtcattcagagCcacaaacaaggcctgcaagt	8	12	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:11298013C>G	uc001asd.2	-	13	2216	c.2095G>C	c.(2095-2097)GCT>CCT	p.A699P		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	699					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TCATTCAGAGCCACAAACAAG	0.572													93	65	---	---	---	---	PASS	G	11298013	G	G	11298013	3	3	79	1	0	0	0	0	1	0	0	0	9954	739	26	4	5738	4	MTOR	1	11298013	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	583963	11298013	237952608	2	29937										
CLCNKB	1188	broad.mit.edu	37	chr1	16374837	16374837	+	Splice_Site	DEL	G	-	-													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggcccacccttctctctgcaGggccctttcgtgcacctgtc							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:16374837delG	uc001axw.3	+	6	579	c.499_splice	c.e6-1	p.G167_splice	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Splice_Site_p.G167_splice|CLCNKB_uc001axy.3_5'Flank	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1						excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		TCTCTCTGCAGGGCCCTTTCG	0.662													72	46	---	---	---	---		-	16374837	-	-	16374837	8	5	79	1	0	1	0	1	0	0	1	0	3470	1014	35	0	516	0	CLCNKB	1	16374837	Splice_Site	DEL	G	TCGA-37-4135-01A-01D-1352-08	5076824	16374837	232875784	3	29938										
ARHGEF10L	55160	broad.mit.edu	37	chr1	17964465	17964465	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gccgtggtggagcagatcacGcttctcatcagcacgctgca	12	13	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:17964465G>T	uc001ban.2	+	19	2169	c.2010G>T	c.(2008-2010)ACG>ACT	p.T670T	ARHGEF10L_uc009vpe.1_Silent_p.T631T|ARHGEF10L_uc001bao.2_Silent_p.T631T|ARHGEF10L_uc001bap.2_Silent_p.T626T|ARHGEF10L_uc010ocr.1_Silent_p.T428T|ARHGEF10L_uc001baq.2_Silent_p.T431T|ARHGEF10L_uc010ocs.1_Silent_p.T443T|ARHGEF10L_uc001bar.2_Silent_p.T373T|ARHGEF10L_uc009vpf.2_RNA	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	670					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		AGCAGATCACGCTTCTCATCA	0.617													13	7	---	---	---	---	PASS	T	17964465	T	T	17964465	2	4	79	1	0	0	0	0	0	0	0	1	895	1074	38	1		1	ARHGEF10L	1	17964465	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	1589628	17964465	231286156	4	29939										
MYOM3	127294	broad.mit.edu	37	chr1	24384078	24384078	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cttcagccaagagatttcagGggtggggtctcctgagacga	14	9	3	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:24384078G>T	uc001bin.3	-	37	4253	c.4090C>A	c.(4090-4092)CCT>ACT	p.P1364T	MYOM3_uc001bil.3_Missense_Mutation_p.P257T|MYOM3_uc001bim.3_Missense_Mutation_p.P1021T	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	1364	Ig-like C2-type 4.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		GAGATTTCAGGGGTGGGGTCT	0.507													53	37	---	---	---	---	PASS	T	24384078	T	T	24384078	3	4	79	1	0	0	0	0	1	0	0	0	10093	1232	43	3	227	3	MYOM3	1	24384078	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	6419613	24384078	224866543	5	29940										
EXTL1	2134	broad.mit.edu	37	chr1	26359739	26359739	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggttagtgatcgcttctaccCatatagcaccatcagaacag	8	11	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:26359739C>A	uc001blf.2	+	8	2318	c.1451C>A	c.(1450-1452)CCA>CAA	p.P484Q		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	484	Lumenal (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		CGCTTCTACCCATATAGCACC	0.572													49	48	---	---	---	---	PASS	A	26359739	A	A	26359739	3	1	79	1	0	0	0	0	1	0	0	0	5325	594	21	3	1481	3	EXTL1	1	26359739	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	1975661	26359739	222890882	6	29941										
CCDC21	64793	broad.mit.edu	37	chr1	26581751	26581751	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atgtgatgccttctactttaGggacctctcctgccaagcca	8	13	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:26581751G>T	uc001bls.1	+	4	429	c.298G>T	c.(298-300)GGG>TGG	p.G100W	CCDC21_uc001blr.2_Missense_Mutation_p.G100W|CCDC21_uc010ofa.1_Missense_Mutation_p.G49W	NM_022778	NP_073615	Q6P2H3	CEP85_HUMAN	coiled-coil domain containing 21	100						centrosome|nucleolus|spindle pole					0		all_cancers(24;7e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.6e-26)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;9.48e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00155)|GBM - Glioblastoma multiforme(114;0.00917)|READ - Rectum adenocarcinoma(331;0.0649)		TTCTACTTTAGGGACCTCTCC	0.498													119	279	---	---	---	---	PASS	T	26581751	T	T	26581751	3	4	79	1	0	0	0	0	1	0	0	0	2796	1000	35	3	308	3	CCDC21	1	26581751	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	222012	26581751	222668870	7	29942										
CLSPN	63967	broad.mit.edu	37	chr1	36226273	36226273	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cccaggtgaaggtctaatgtCactctgcttctgtttctcct	8	12	5	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:36226273C>A	uc001bzi.2	-	8	1329	c.1249G>T	c.(1249-1251)GAC>TAC	p.D417Y	CLSPN_uc009vux.2_Missense_Mutation_p.D417Y	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	417					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GGTCTAATGTCACTCTGCTTC	0.453													126	323	---	---	---	---	PASS	A	36226273	A	A	36226273	3	1	79	1	0	0	0	0	1	0	0	0	3560	826	29	2	2842	2	CLSPN	1	36226273	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	9644522	36226273	213024348	8	29943										
GJA9	81025	broad.mit.edu	37	chr1	39341485	39341485	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aactctcagtcggtacaatgCatggcccatgtagaccaggg	11	11	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:39341485C>T	uc001cct.1	-	2	567	c.286G>A	c.(286-288)GCA>ACA	p.A96T	RRAGC_uc001ccr.2_5'Flank|MYCBP_uc001ccs.2_5'Flank	NM_030772	NP_110399	P57773	CXA9_HUMAN	gap junction protein, alpha 9, 59kDa	96	Helical; (Potential).				cell communication	connexon complex|integral to membrane					0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			CGGTACAATGCATGGCCCATG	0.468													169	354	---	---	---	---	PASS	T	39341485	T	T	39341485	3	4	79	1	0	0	0	0	1	0	0	0	6406	710	25	3	1265	3	GJA9	1	39341485	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	3115212	39341485	209909136	9	29944										
KCNQ4	9132	broad.mit.edu	37	chr1	41304020	41304020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	caagctggacctgctgttggGcttctattcgcgctgcctgc	12	13	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:41304020G>T	uc001cgh.1	+	14	1995	c.1913G>T	c.(1912-1914)GGC>GTC	p.G638V	KCNQ4_uc001cgi.1_Missense_Mutation_p.G584V	NM_004700	NP_004691	P56696	KCNQ4_HUMAN	potassium voltage-gated channel KQT-like protein	638	|Cytoplasmic.|A-domain (Tetramerization).				sensory perception of sound	basal plasma membrane|voltage-gated potassium channel complex				central_nervous_system(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.38e-17)			CTGCTGTTGGGCTTCTATTCG	0.706													130	124	---	---	---	---	PASS	T	41304020	T	T	41304020	3	4	79	1	0	0	0	0	1	0	0	0	8085	1203	42	3	1967	3	KCNQ4	1	41304020	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1962535	41304020	207946601	10	29945										
TIE1	7075	broad.mit.edu	37	chr1	43782945	43782945	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	caaaactgcagcccgagcccCtgagctacccagtgctagag	10	15	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:43782945C>A	uc001ciu.2	+	15	2564	c.2485C>A	c.(2485-2487)CTG>ATG	p.L829M	TIE1_uc010oke.1_Missense_Mutation_p.L784M|TIE1_uc009vwq.2_Missense_Mutation_p.L785M|TIE1_uc010okg.1_Missense_Mutation_p.L474M	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	829	Cytoplasmic (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GCCCGAGCCCCTGAGCTACCC	0.602													65	128	---	---	---	---	PASS	A	43782945	A	A	43782945	3	1	79	1	0	0	0	0	1	0	0	0	15890	680	24	3	2543	3	TIE1	1	43782945	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2478925	43782945	205467676	11	29946										
AGBL4	84871	broad.mit.edu	37	chr1	49332895	49332895	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tcgtcaggaggtcaagctttCgttgttgctgcaaaagaaaa	11	7	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:49332895C>A	uc001cru.2	-	6	760	c.602G>T	c.(601-603)CGA>CTA	p.R201L	AGBL4_uc010omw.1_5'UTR|AGBL4_uc010omx.1_Missense_Mutation_p.R213L|AGBL4_uc001crv.1_Missense_Mutation_p.R54L|AGBL4_uc010omy.1_Missense_Mutation_p.R54L	NM_032785	NP_116174	Q5VU57	CBPC6_HUMAN	ATP/GTP binding protein-like 4	201					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2				Colorectal(2;0.00349)|COAD - Colon adenocarcinoma(2;0.0037)		GTCAAGCTTTCGTTGTTGCTG	0.498													29	24	---	---	---	---	PASS	A	49332895	A	A	49332895	3	1	79	1	0	0	0	0	1	0	0	0	377	884	31	2	945	2	AGBL4	1	49332895	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	5549950	49332895	199917726	12	29947										
PRKAA2	5563	broad.mit.edu	37	chr1	57173172	57173172	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agtagtggagcagagatctgGttcctcaacacctcagcgtt	11	10	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:57173172G>C	uc001cyk.3	+	9	1516	c.1445G>C	c.(1444-1446)GGT>GCT	p.G482A		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	482					carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						CAGAGATCTGGTTCCTCAACA	0.428													71	237	---	---	---	---	PASS	C	57173172	C	C	57173172	3	2	79	1	0	0	0	0	1	0	0	0	12494	1261	44	4	1479	4	PRKAA2	1	57173172	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	7840277	57173172	192077449	13	29948										
EFCAB7	84455	broad.mit.edu	37	chr1	64027381	64027381	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cttttggttgtttaaacagaGaattttgatacaaagaggaa	9	3	0	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:64027381G>C	uc001dbf.2	+	11	1644	c.1350G>C	c.(1348-1350)GAG>GAC	p.E450D		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	450							calcium ion binding				0						TTTAAACAGAGAATTTTGATA	0.224													39	73	---	---	---	---	PASS	C	64027381	C	C	64027381	3	2	79	1	0	0	0	0	1	0	0	0	4940	956	33	2	1388	2	EFCAB7	1	64027381	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	6854209	64027381	185223240	14	29949										
LRRIQ3	127255	broad.mit.edu	37	chr1	74540356	74540356	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ataactaacctttttgaatgAgatgtcttgatgtttttgat	7	4	1	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:74540356A>T	uc001dfy.3	-	6	1178	c.986T>A	c.(985-987)CTC>CAC	p.L329H	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	329										ovary(2)	2						TTTTTGAATGAGATGTCTTGA	0.239													8	2	---	---	---	---	PASS	T	74540356	T	T	74540356	3	4	79	1	0	0	0	0	1	0	0	0	9030	304	11	5	900	5	LRRIQ3	1	74540356	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	10512975	74540356	174710265	15	29950										
FPGT	8790	broad.mit.edu	37	chr1	74670658	74670658	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gactttctgcaggctttgggAcctggagcaactgtggagta	14	8	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:74670658A>G	uc001dgb.1	+	4	964	c.927A>G	c.(925-927)GGA>GGG	p.G309G	TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron|FPGT_uc010oqt.1_Intron|FPGT_uc010oqu.1_Intron|FPGT_uc010oqv.1_Intron	NM_003838	NP_003829	O14772	FPGT_HUMAN	fucose-1-phosphate guanyltransferase	309					fucose metabolic process	cytoplasm	fucose-1-phosphate guanylyltransferase activity|GTP binding			skin(1)	1						AGGCTTTGGGACCTGGAGCAA	0.383													41	133	---	---	---	---	PASS	G	74670658	G	G	74670658	2	3	79	1	0	0	0	0	0	0	0	1	6037	262	10	5		5	FPGT	1	74670658	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08	130302	74670658	174579963	16	29951										
C1orf173	127254	broad.mit.edu	37	chr1	75037587	75037587	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tcagcaacagcttcctgggtCcttagcacgacatccactcc	7	16	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:75037587C>A	uc001dgg.2	-	14	4026	c.3807G>T	c.(3805-3807)AGG>AGT	p.R1269S		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1269	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTTCCTGGGTCCTTAGCACGA	0.572													180	147	---	---	---	---	PASS	A	75037587	A	A	75037587	3	1	79	1	0	0	0	0	1	0	0	0	2014	854	30	2	789	2	C1orf173	1	75037587	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	366929	75037587	174213034	17	29952										
GFI1	2672	broad.mit.edu	37	chr1	92941612	92941612	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gagcccatgctgcgtctcccGgtgccttcggaggtccacct	12	16	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:92941612G>A	uc001dou.3	-	7	1407	c.1243C>T	c.(1243-1245)CGG>TGG	p.R415W	GFI1_uc001dov.3_Missense_Mutation_p.R415W|GFI1_uc001dow.3_Missense_Mutation_p.R415W	NM_001127215	NP_001120687	Q99684	GFI1_HUMAN	growth factor independent 1	415	C2H2-type 6.				negative regulation of calcidiol 1-monooxygenase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1/S phase of mitotic cell cycle|transcription, DNA-dependent|viral reproduction	nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)	1		all_lung(203;0.00292)|Lung NSC(277;0.0115)|all_neural(321;0.185)|Glioma(108;0.203)		OV - Ovarian serous cystadenocarcinoma(397;9.04e-07)|Epithelial(280;1.17e-05)|all cancers(265;5.61e-05)|GBM - Glioblastoma multiforme(16;0.0191)		TGCGTCTCCCGGTGCCTTCGG	0.607													11	30	---	---	---	---	PASS	A	92941612	A	A	92941612	3	1	79	1	0	0	0	0	1	0	0	0	6339	1115	39	1	29	1	GFI1	1	92941612	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	17904025	92941612	156309009	18	29953										
OVGP1	5016	broad.mit.edu	37	chr1	111957655	111957655	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aggggtcagggccttctctcCaggggtcatggactgatgac	15	10	3	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:111957655C>A	uc001eba.2	-	11	1524	c.1468G>T	c.(1468-1470)GGA>TGA	p.G490*	OVGP1_uc001eaz.2_Nonsense_Mutation_p.G452*|OVGP1_uc010owb.1_Nonsense_Mutation_p.G138*	NM_002557	NP_002548	Q12889	OVGP1_HUMAN	oviductal glycoprotein 1 precursor	490					chitin catabolic process|female pregnancy|single fertilization	transport vesicle	cation binding|chitinase activity			ovary(4)|large_intestine(1)	5		all_cancers(81;8.18e-06)|all_epithelial(167;5.64e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000302)		Lung(183;0.0253)|Colorectal(144;0.033)|all cancers(265;0.0552)|Epithelial(280;0.0802)|COAD - Colon adenocarcinoma(174;0.123)|LUSC - Lung squamous cell carcinoma(189;0.14)		GCCTTCTCTCCAGGGGTCATG	0.532													55	124	---	---	---	---	PASS	A	111957655	A	A	111957655	4	1	79	1	0	0	0	0	0	1	0	0	11325	603	21	3	572	3	OVGP1	1	111957655	Nonsense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	19016043	111957655	137292966	19	29954										
SPAG17	200162	broad.mit.edu	37	chr1	118635849	118635849	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gaacattaataagctgcatgCtttccaaatagtgctggtgc	9	8	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:118635849C>A	uc001ehk.2	-	8	1171	c.1103G>T	c.(1102-1104)AGC>ATC	p.S368I		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	368						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		AAGCTGCATGCTTTCCAAATA	0.418													35	68	---	---	---	---	PASS	A	118635849	A	A	118635849	3	1	79	1	0	0	0	0	1	0	0	0	14979	797	28	3	5732	3	SPAG17	1	118635849	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	6678194	118635849	130614772	20	29955										
PDE4DIP	9659	broad.mit.edu	37	chr1	144915519	144915519	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttcatgttccagcacttgttTatttcgatcacttagaaggt	7	8	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:144915519T>A	uc001elw.3	-	14	2197	c.1906A>T	c.(1906-1908)AAA>TAA	p.K636*	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Nonsense_Mutation_p.K702*|PDE4DIP_uc001emc.1_Nonsense_Mutation_p.K636*|PDE4DIP_uc001emd.1_Nonsense_Mutation_p.K636*|PDE4DIP_uc001emb.1_Nonsense_Mutation_p.K799*|PDE4DIP_uc001eme.1_Nonsense_Mutation_p.K165*|PDE4DIP_uc001emf.1_Nonsense_Mutation_p.K421*	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	636	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		AGCACTTGTTTATTTCGATCA	0.493			T	PDGFRB	MPD								73	654	---	---	---	---	PASS	A	144915519	A	A	144915519	4	1	79	1	0	0	0	0	0	1	0	0	11643	1763	61	5	5268	5	PDE4DIP	1	144915519	Nonsense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	26279670	144915519	104335102	21	29956										
NOTCH2NL	388677	broad.mit.edu	37	chr1	145281550	145281550	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cagcatggtggcacctgcctCaacctgcctggttcctacca	9	16	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:145281550C>T	uc001emn.3	+	4	850	c.480C>T	c.(478-480)CTC>CTT	p.L160L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_5'UTR|NOTCH2NL_uc001emm.3_Silent_p.L160L|NOTCH2NL_uc001emo.2_Silent_p.L160L|NOTCH2NL_uc010oyh.1_RNA	NM_203458	NP_982283	Q7Z3S9	NT2NL_HUMAN	Notch homolog 2 N-terminal like protein	160	EGF-like 5; calcium-binding (Potential).				cell differentiation|multicellular organismal development|Notch signaling pathway	cytoplasm|extracellular region	calcium ion binding			ovary(1)	1						GCACCTGCCTCAACCTGCCTG	0.562													56	435	---	---	---	---	PASS	T	145281550	T	T	145281550	2	4	79	1	0	0	0	0	0	0	0	1	10549	813	29	2		2	NOTCH2NL	1	145281550	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	366031	145281550	103969071	22	29957										
TARS2	80222	broad.mit.edu	37	chr1	150477403	150477403	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccactgtggctgtccccgttCcaggtggtggtcatccctgt	12	14	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:150477403C>T	uc001euq.2	+	16	1849	c.1842C>T	c.(1840-1842)TTC>TTT	p.F614F	TARS2_uc001eur.2_Silent_p.F532F|TARS2_uc009wlt.2_Silent_p.F240F|TARS2_uc009wls.2_Silent_p.F484F	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	614					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	TGTCCCCGTTCCAGGTGGTGG	0.547													22	147	---	---	---	---	PASS	T	150477403	T	T	150477403	2	4	79	1	0	0	0	0	0	0	0	1	15557	854	30	2		2	TARS2	1	150477403	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	5195853	150477403	98773218	23	29958										
TDRKH	11022	broad.mit.edu	37	chr1	151752598	151752598	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgtgtccacatcaatccgagCacctgtctgtttccgcagct	8	14	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:151752598C>A	uc009wnb.1	-	4	432	c.250G>T	c.(250-252)GCT>TCT	p.A84S	TDRKH_uc001eyy.2_5'UTR|TDRKH_uc001ezb.3_Missense_Mutation_p.A80S|TDRKH_uc001ezc.3_Missense_Mutation_p.A84S|TDRKH_uc001eza.3_Missense_Mutation_p.A84S|TDRKH_uc001ezd.3_Missense_Mutation_p.A84S|TDRKH_uc010pdn.1_5'UTR	NM_006862	NP_006853	Q9Y2W6	TDRKH_HUMAN	tudor and KH domain containing isoform a	84	KH 1.						RNA binding			ovary(1)|pancreas(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			TCAATCCGAGCACCTGTCTGT	0.493													182	149	---	---	---	---	PASS	A	151752598	A	A	151752598	3	1	79	1	0	0	0	0	1	0	0	0	15734	710	25	3	1475	3	TDRKH	1	151752598	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	1275195	151752598	97498023	24	29959										
PRCC	5546	broad.mit.edu	37	chr1	156756874	156756874	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agatggcagcaggttcaagtGgggccccttggatgcctaag	15	9	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:156756874G>T	uc001fqa.2	+	3	1281	c.991G>T	c.(991-993)GGG>TGG	p.G331W	PRCC_uc001fqb.2_Missense_Mutation_p.G331W	NM_005973	NP_005964	Q92733	PRCC_HUMAN	papillary renal cell carcinoma	331					cell cycle|mitotic cell cycle checkpoint	nucleus	protein binding		PRCC/TFE3(25)	kidney(25)|central_nervous_system(2)	27	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					AGGTTCAAGTGGGGCCCCTTG	0.562			T	TFE3	papillary renal 								465	372	---	---	---	---	PASS	T	156756874	T	T	156756874	3	4	79	1	0	0	0	0	1	0	0	0	12447	1348	47	3	1001	3	PRCC	1	156756874	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	5004276	156756874	92493747	25	29960										
FCRL3	115352	broad.mit.edu	37	chr1	157659610	157659610	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggtttccttcgggccctggcGtaatgcagcagagcagcagc	14	12	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:157659610G>A	uc001frb.2	-	10	2080	c.1788C>T	c.(1786-1788)TAC>TAT	p.Y596Y	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Silent_p.Y596Y|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Silent_p.Y322Y|FCRL3_uc001frc.1_Silent_p.Y596Y	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	596	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					GGGCCCTGGCGTAATGCAGCA	0.537													56	114	---	---	---	---	PASS	A	157659610	A	A	157659610	2	1	79	1	0	0	0	0	0	0	0	1	5796	1140	40	1		1	FCRL3	1	157659610	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	902736	157659610	91591011	26	29961										
KCNT2	343450	broad.mit.edu	37	chr1	196459055	196459055	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgagagaaaaattgaacaggCgtatccttagacctttaaac	8	7	0	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:196459055C>G	uc001gtd.1	-	3	248	c.188G>C	c.(187-189)CGC>CCC	p.R63P	KCNT2_uc001gte.1_Missense_Mutation_p.R63P|KCNT2_uc001gtf.1_Missense_Mutation_p.R63P|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.R63P|KCNT2_uc009wyv.1_Missense_Mutation_p.R63P	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	63	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						ATTGAACAGGCGTATCCTTAG	0.289													114	241	---	---	---	---	PASS	G	196459055	G	G	196459055	3	3	79	1	0	0	0	0	1	0	0	0	8092	768	27	4	3323	4	KCNT2	1	196459055	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	38799445	196459055	52791566	27	29962										
F13B	2165	broad.mit.edu	37	chr1	197019841	197019841	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acatacctaaacacaatggtGgtgtagtccacattccatct	6	11	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:197019841G>A	uc001gtt.1	-	10	1768	c.1724C>T	c.(1723-1725)CCA>CTA	p.P575L		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	575	Sushi 9.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						ACACAATGGTGGTGTAGTCCA	0.328													86	95	---	---	---	---	PASS	A	197019841	A	A	197019841	3	1	79	1	0	0	0	0	1	0	0	0	5341	1348	47	3	273	3	F13B	1	197019841	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	560786	197019841	52230780	28	29963										
NR5A2	2494	broad.mit.edu	37	chr1	200017659	200017659	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccatcaagtctgagtacccaGacccctataccagctcaccc	5	18	3	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:200017659G>A	uc001gvb.2	+	5	1029	c.823G>A	c.(823-825)GAC>AAC	p.D275N	NR5A2_uc001gvc.2_Missense_Mutation_p.D229N|NR5A2_uc009wzh.2_Missense_Mutation_p.D235N|NR5A2_uc010pph.1_Missense_Mutation_p.D203N	NM_205860	NP_995582	O00482	NR5A2_HUMAN	nuclear receptor subfamily 5, group A, member 2	275					embryo development|positive regulation of viral genome replication|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	lipid binding|protein binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Prostate(682;0.19)					TGAGTACCCAGACCCCTATAC	0.512													100	151	---	---	---	---	PASS	A	200017659	A	A	200017659	3	1	79	1	0	0	0	0	1	0	0	0	10636	942	33	2	841	2	NR5A2	1	200017659	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	2997818	200017659	49232962	29	29964										
IGFN1	91156	broad.mit.edu	37	chr1	201195001	201195001	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctgcaggagaacgtgcctggGacggtgacggccgagtggga	19	9	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:201195001G>T	uc001gwc.2	+	11	2788	c.2016G>T	c.(2014-2016)GGG>GGT	p.G672G	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						ACGTGCCTGGGACGGTGACGG	0.687													35	41	---	---	---	---	PASS	T	201195001	T	T	201195001	2	4	79	1	0	0	0	0	0	0	0	1	7590	1161	41	2		2	IGFN1	1	201195001	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	1177342	201195001	48055620	30	29965										
PIK3C2B	5287	broad.mit.edu	37	chr1	204409374	204409374	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gaccatgcgcatgtccagccCctcctggacccagatcttgc	9	17	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:204409374C>A	uc001haw.2	-	23	3804	c.3325G>T	c.(3325-3327)GGG>TGG	p.G1109W	PIK3C2B_uc010pqv.1_Missense_Mutation_p.G1081W	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	1109	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			ATGTCCAGCCCCTCCTGGACC	0.607													131	122	---	---	---	---	PASS	A	204409374	A	A	204409374	3	1	79	1	0	0	0	0	1	0	0	0	11910	623	22	3	1627	3	PIK3C2B	1	204409374	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	3214373	204409374	44841247	31	29966										
LRRN2	10446	broad.mit.edu	37	chr1	204587979	204587979	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggacacgggtgcccgtggcaTtggcccagcggatgacacag	16	12	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:204587979T>C	uc001hbe.1	-	3	1530	c.1142A>G	c.(1141-1143)AAT>AGT	p.N381S	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Missense_Mutation_p.N381S|LRRN2_uc009xbf.1_Missense_Mutation_p.N381S|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	381	Extracellular (Potential).|LRRCT.				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			GCCCGTGGCATTGGCCCAGCG	0.672													64	85	---	---	---	---	PASS	C	204587979	C	C	204587979	3	2	79	1	0	0	0	0	1	0	0	0	9035	1493	52	5	1003	5	LRRN2	1	204587979	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	178605	204587979	44662642	32	29967										
RCOR3	55758	broad.mit.edu	37	chr1	211452590	211452590	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttcttctcagtgatgatgatGtagaagaaacacatccaatg	8	7	2	5			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:211452590G>C	uc001hig.2	+	6	647	c.478G>C	c.(478-480)GTA>CTA	p.V160L	RCOR3_uc010psv.1_RNA|RCOR3_uc001hie.2_Missense_Mutation_p.V218L|RCOR3_uc010psw.1_Missense_Mutation_p.V218L|RCOR3_uc001hif.2_Missense_Mutation_p.V218L	NM_018254	NP_060724	Q9P2K3	RCOR3_HUMAN	REST corepressor 3 isoform d	160					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		TGATGATGATGTAGAAGAAAC	0.249													66	147	---	---	---	---	PASS	C	211452590	C	C	211452590	3	2	79	1	0	0	0	0	1	0	0	0	13184	1377	48	4	678	4	RCOR3	1	211452590	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	6864611	211452590	37798031	33	29968										
RPS6KC1	26750	broad.mit.edu	37	chr1	213251154	213251155	+	Frame_Shift_Ins	INS	-	T	T													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	catttgctaaaggaatagtgINStttggtaagtgattattttg							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:213251154_213251155insT	uc010ptr.1	+	3	417_418	c.258_259insT	c.(256-261)GTGTTTfs	p.V86fs	RPS6KC1_uc001hkd.2_Frame_Shift_Ins_p.V74fs|RPS6KC1_uc010pts.1_5'UTR|RPS6KC1_uc010ptt.1_5'UTR|RPS6KC1_uc010ptu.1_Intron|RPS6KC1_uc010ptv.1_5'UTR|RPS6KC1_uc001hke.2_5'UTR	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	86_87	PX.				cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		AAGGAATAGTGTTTGGTAAGTG	0.267													100	52	---	---	---	---		T	213251155	T	T	213251154	7	5	79	1	0	1	1	0	0	0	0	0	13658	1364	48	0	268	0	RPS6KC1	1	213251154	Frame_Shift_Ins	INS	-	TCGA-37-4135-01A-01D-1352-08	1798564	213251154	35999467	34	29969										
USH2A	7399	broad.mit.edu	37	chr1	215844328	215844328	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tcttacctgatactcatactCtgtgaaaggcaatagttcgg	8	9	3	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:215844328C>G	uc001hku.1	-	64	14506	c.14119G>C	c.(14119-14121)GAG>CAG	p.E4707Q		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4707	Fibronectin type-III 32.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TACTCATACTCTGTGAAAGGC	0.383										HNSCC(13;0.011)			109	468	---	---	---	---	PASS	G	215844328	G	G	215844328	3	3	79	1	0	0	0	0	1	0	0	0	17033	922	32	2	1525	2	USH2A	1	215844328	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2593174	215844328	33406293	35	29970										
LYST	1130	broad.mit.edu	37	chr1	235969541	235969541	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atgtagatccaacgacacatAgaccaaatgtctgctgcttg	8	10	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:235969541A>T	uc001hxj.2	-	6	3070	c.2895T>A	c.(2893-2895)TCT>TCA	p.S965S	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Silent_p.S965S	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	965					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			AACGACACATAGACCAAATGT	0.423									Chediak-Higashi_syndrome				208	187	---	---	---	---	PASS	T	235969541	T	T	235969541	2	4	79	1	0	0	0	0	0	0	0	1	9128	407	15	5		5	LYST	1	235969541	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08	20125213	235969541	13281080	36	29971										
RYR2	6262	broad.mit.edu	37	chr1	237711812	237711812	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccatcacaagaagcaatggtGgacaagttggcagaaaatgc	11	8	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:237711812G>A	uc001hyl.1	+	26	3108	c.2988G>A	c.(2986-2988)GTG>GTA	p.V996V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	996	Cytoplasmic (By similarity).|2.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AAGCAATGGTGGACAAGTTGG	0.488													70	44	---	---	---	---	PASS	A	237711812	A	A	237711812	2	1	79	1	0	0	0	0	0	0	0	1	13769	1335	47	3		3	RYR2	1	237711812	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	1742271	237711812	11538809	37	29972										
CNST	163882	broad.mit.edu	37	chr1	246797278	246797278	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgattgtatcatgagcaattGctcgcaaatctttctgccat	7	10	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:246797278G>A	uc001ibp.2	+	5	1047	c.669G>A	c.(667-669)TTG>TTA	p.L223L	CNST_uc001ibo.3_Silent_p.L223L	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	223					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						ATGAGCAATTGCTCGCAAATC	0.343													89	83	---	---	---	---	PASS	A	246797278	A	A	246797278	2	1	79	1	0	0	0	0	0	0	0	1	3634	1310	46	3		3	CNST	1	246797278	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	9085466	246797278	2453343	38	29973										
OR2G3	81469	broad.mit.edu	37	chr1	247769302	247769302	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atgtagtcatcatgaacccaCggctttgccaacagctggca	9	12	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:247769302C>A	uc010pyz.1	+	1	415	c.415C>A	c.(415-417)CGG>AGG	p.R139R		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			CATGAACCCACGGCTTTGCCA	0.512													211	353	---	---	---	---	PASS	A	247769302	A	A	247769302	2	1	79	1	0	0	0	0	0	0	0	1	10999	527	19	1		1	OR2G3	1	247769302	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	972024	247769302	1481319	39	29974										
OR11L1	391189	broad.mit.edu	37	chr1	248004491	248004491	+	Missense_Mutation	SNP	C	A	A													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gagccacatgtggaaaaggtCtttctccggccagaggtgga							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:248004491C>A	uc001idn.1	-	1	708	c.708G>T	c.(706-708)AAG>AAT	p.K236N		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TGGAAAAGGTCTTTCTCCGGC	0.502													81	149	---	---	---	---	PASS	A	248004491	A	A	248004491	3	1	79	1	0	0	0	0	1	0	0	0	10930	912	32	2	264	2	OR11L1	1	248004491	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	235189	248004491	1246130	40	29975	601	2								
OR11L1	391189	broad.mit.edu	37	chr1	248004498	248004498	+	Missense_Mutation	SNP	C	T	T													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atgtggaaaaggtctttctcCggccagaggtggaagggatt							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:248004498C>T	uc001idn.1	-	1	701	c.701G>A	c.(700-702)CGG>CAG	p.R234Q		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GGTCTTTCTCCGGCCAGAGGT	0.502													140	107	---	---	---	---	PASS	T	248004498	T	T	248004498	3	4	79	1	0	0	0	0	1	0	0	0	10930	652	23	1	271	1	OR11L1	1	248004498	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	7	248004498	1246123	41	29976	601	2								
OR2M5	127059	broad.mit.edu	37	chr1	248308605	248308605	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gttctcctcatctacctggaCacccagctccacacccccat	4	20	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:248308605C>G	uc010pze.1	+	1	156	c.156C>G	c.(154-156)GAC>GAG	p.D52E		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	52	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			TCTACCTGGACACCCAGCTCC	0.527													268	577	---	---	---	---	PASS	G	248308605	G	G	248308605	3	3	79	1	0	0	0	0	1	0	0	0	11013	477	17	4	158	4	OR2M5	1	248308605	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	304107	248308605	942016	42	29977										
OR2T4	127074	broad.mit.edu	37	chr1	248525260	248525260	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggtgtgaataagatctcagcCcctgagtgtgggatgcagat	14	7	1	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:248525260C>T	uc001ieh.1	+	1	378	c.378C>T	c.(376-378)GCC>GCT	p.A126A		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	126	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AGATCTCAGCCCCTGAGTGTG	0.498													417	318	---	---	---	---	PASS	T	248525260	T	T	248525260	2	4	79	1	0	0	0	0	0	0	0	1	11027	610	22	3		3	OR2T4	1	248525260	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	216655	248525260	725361	43	29978										
OR2G6	391211	broad.mit.edu	37	chr1	248685489	248685489	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggatcatattttctgtgaggTgccagtgctcatcaaactgg	11	8	4	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr1:248685489T>C	uc001ien.1	+	1	542	c.542T>C	c.(541-543)GTG>GCG	p.V181A		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTCTGTGAGGTGCCAGTGCTC	0.522													127	84	---	---	---	---	PASS	C	248685489	C	C	248685489	3	2	79	1	0	0	0	0	1	0	0	0	11000	1696	59	5	544	5	OR2G6	1	248685489	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	160229	248685489	565132	44	29979										
RSAD2	91543	broad.mit.edu	37	chr2	7036064	7036064	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agtaaggctgatctgaagctGgattggtagagcggaaagtg	16	4	1	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:7036064G>C	uc002qyp.1	+	6	1213	c.1077G>C	c.(1075-1077)CTG>CTC	p.L359L		NM_080657	NP_542388	Q8WXG1	RSAD2_HUMAN	radical S-adenosyl methionine domain containing	359					defense response to virus	endoplasmic reticulum membrane|Golgi apparatus	catalytic activity|iron-sulfur cluster binding|metal ion binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			OV - Ovarian serous cystadenocarcinoma(76;0.191)		ATCTGAAGCTGGATTGGTAGA	0.423													66	88	---	---	---	---	PASS	C	7036064	C	C	7036064	2	2	79	1	0	0	0	0	0	0	0	1	13695	1335	47	4		4	RSAD2	2	7036064	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08		7036064	236163309	45	29980										
APOB	338	broad.mit.edu	37	chr2	21225147	21225147	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aaaatattcttcacgaagggCcataatgtattgatggatct	8	6	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:21225147C>A	uc002red.2	-	29	13275	c.13147G>T	c.(13147-13149)GCC>TCC	p.A4383S		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	4383					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TCACGAAGGGCCATAATGTAT	0.353													4	170	---	---	---	---	PASS	A	21225147	A	A	21225147	3	1	79	1	0	0	0	0	1	0	0	0	785	739	26	3	548	3	APOB	2	21225147	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	14189083	21225147	221974226	46	29981										
CAD	790	broad.mit.edu	37	chr2	27465570	27465570	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccagtatcgtgtcagcctgcGctacgtggcacctcccagcc	10	17	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:27465570G>T	uc002rji.2	+	41	6467	c.6305G>T	c.(6304-6306)CGC>CTC	p.R2102L	CAD_uc010eyw.2_Missense_Mutation_p.R2039L	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	2102	ATCase (Aspartate transcarbamylase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	GTCAGCCTGCGCTACGTGGCA	0.637													47	34	---	---	---	---	PASS	T	27465570	T	T	27465570	3	4	79	1	0	0	0	0	1	0	0	0	2565	1087	38	1	6467	1	CAD	2	27465570	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	6240423	27465570	215733803	47	29982										
LCLAT1	253558	broad.mit.edu	37	chr2	30863187	30863187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agagaaagaagagaggctgcGttccttctatcaaggggaga	14	6	2	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:30863187G>T	uc002rnj.2	+	7	1156	c.947G>T	c.(946-948)CGT>CTT	p.R316L	LCLAT1_uc010ymp.1_Missense_Mutation_p.R154L|LCLAT1_uc002rnl.2_Missense_Mutation_p.R278L|LCLAT1_uc010ymq.1_Missense_Mutation_p.R278L	NM_182551	NP_872357	Q6UWP7	LCLT1_HUMAN	lysocardiolipin acyltransferase 1 isoform 1	316					multicellular organismal development|phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			ovary(2)	2						GAGAGGCTGCGTTCCTTCTAT	0.488													95	97	---	---	---	---	PASS	T	30863187	T	T	30863187	3	4	79	1	0	0	0	0	1	0	0	0	8677	1145	40	1	969	1	LCLAT1	2	30863187	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	3397617	30863187	212336186	48	29983										
RASGRP3	25780	broad.mit.edu	37	chr2	33745744	33745744	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acgtcagcctcatcgacataTccagcatgtaagagtggcac	9	12	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:33745744T>C	uc002rox.2	+	7	988	c.361T>C	c.(361-363)TCC>CCC	p.S121P	RASGRP3_uc010ync.1_Missense_Mutation_p.S121P|RASGRP3_uc002roy.2_Missense_Mutation_p.S121P	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	121	N-terminal Ras-GEF.				MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					CATCGACATATCCAGCATGTA	0.453													88	223	---	---	---	---	PASS	C	33745744	C	C	33745744	3	2	79	1	0	0	0	0	1	0	0	0	13076	1435	50	5	375	5	RASGRP3	2	33745744	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	2882557	33745744	209453629	49	29984										
SLC8A1	6546	broad.mit.edu	37	chr2	40656773	40656773	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gacaaaataatgtaaagccaGgtgtaggcaaagatgctcca	10	7	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:40656773G>T	uc002rrx.2	-	1	672	c.648C>A	c.(646-648)ACC>ACA	p.T216T	SLC8A1_uc002rry.2_Silent_p.T216T|SLC8A1_uc002rrz.2_Silent_p.T216T|SLC8A1_uc002rsa.2_Silent_p.T216T|SLC8A1_uc002rsd.3_Silent_p.T216T|SLC8A1_uc002rsb.1_Silent_p.T216T|SLC8A1_uc010fan.1_Silent_p.T216T|SLC8A1_uc002rsc.1_Silent_p.T216T	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	216	Helical; (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	TGTAAAGCCAGGTGTAGGCAA	0.453													39	92	---	---	---	---	PASS	T	40656773	T	T	40656773	2	4	79	1	0	0	0	0	0	0	0	1	14706	987	35	3		3	SLC8A1	2	40656773	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	6911029	40656773	202542600	50	29985										
ZFP36L2	678	broad.mit.edu	37	chr2	43452044	43452044	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aacaggaggaggcggaggagGagcaggacgaggccgaagag	21	6	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:43452044G>C	uc002rsv.3	-	2	1190	c.899C>G	c.(898-900)TCC>TGC	p.S300C	LOC100129726_uc010ynx.1_5'Flank	NM_006887	NP_008818	P47974	TISD_HUMAN	zinc finger protein 36, C3H type-like 2	300					cell proliferation	nucleus	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(82;0.00323)|all_hematologic(82;0.00824)				ggcggaggaggagcaggacga	0.607													6	8	---	---	---	---	PASS	C	43452044	C	C	43452044	3	2	79	1	0	0	0	0	1	0	0	0	17644	1174	41	2	589	2	ZFP36L2	2	43452044	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	2795271	43452044	199747329	51	29986										
TIA1	7072	broad.mit.edu	37	chr2	70443373	70443373	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atcctttatctggaaagactCgaatttccattatttgtcca	5	9	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:70443373C>T	uc002sgj.3	-	10	948	c.731G>A	c.(730-732)CGA>CAA	p.R244Q	TIA1_uc002sgk.3_Missense_Mutation_p.R233Q|TIA1_uc002sgl.3_RNA	NM_022173	NP_071505	P31483	TIA1_HUMAN	TIA1 cytotoxic granule-associated RNA binding	244	RRM 3.				apoptosis|induction of apoptosis|regulation of nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|poly(A) RNA binding|protein binding				0						TGGAAAGACTCGAATTTCCAT	0.289													20	25	---	---	---	---	PASS	T	70443373	T	T	70443373	3	4	79	1	0	0	0	0	1	0	0	0	15884	884	31	2	445	2	TIA1	2	70443373	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	26991329	70443373	172756000	52	29987										
EXOC6B	23233	broad.mit.edu	37	chr2	72719551	72719551	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccgaatcatgtcatcaacttCagttgagctgaaaaagaagc	8	9	4	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:72719551C>A	uc010fep.2	-	16	1699	c.1561G>T	c.(1561-1563)GAA>TAA	p.E521*	EXOC6B_uc002sij.2_Nonsense_Mutation_p.E521*	NM_015189	NP_056004	Q9Y2D4	EXC6B_HUMAN	SEC15-like 2	521					protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2						TCATCAACTTCAGTTGAGCTG	0.388													93	177	---	---	---	---	PASS	A	72719551	A	A	72719551	4	1	79	1	0	0	0	0	0	1	0	0	5309	835	29	2	902	2	EXOC6B	2	72719551	Nonsense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2276178	72719551	170479822	53	29988										
BOLA3	388962	broad.mit.edu	37	chr2	74372367	74372367	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tcgtggaaacttttctttgaGaatttgggtcactctgagct	10	7	3	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:74372367G>C	uc002skc.1	-	2	156	c.118C>G	c.(118-120)CTC>GTC	p.L40V	BOLA3_uc002skd.1_Missense_Mutation_p.L40V|uc002ske.2_5'Flank|uc002skf.2_5'Flank|uc002skg.2_5'Flank	NM_212552	NP_997717	Q53S33	BOLA3_HUMAN	bolA-like 3 isoform 1	40						extracellular region					0						TTTTCTTTGAGAATTTGGGTC	0.483													51	127	---	---	---	---	PASS	C	74372367	C	C	74372367	3	2	79	1	0	0	0	0	1	0	0	0	1486	942	33	2	288	2	BOLA3	2	74372367	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1652816	74372367	168827006	54	29989										
TEKT4	150483	broad.mit.edu	37	chr2	95540614	95540614	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tcggccaacctgcgggtgctGgtggactgcatccttcgcga	14	13	0	0	rs111598357		TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:95540614G>A	uc002stw.1	+	4	900	c.807G>A	c.(805-807)CTG>CTA	p.L269L	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	269					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						TGCGGGTGCTGGTGGACTGCA	0.716													13	34	---	---	---	---	PASS	A	95540614	A	A	95540614	2	1	79	1	0	0	0	0	0	0	0	1	15752	1335	47	3		3	TEKT4	2	95540614	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	21168247	95540614	147658759	55	29990										
ITPRIPL1	150771	broad.mit.edu	37	chr2	96993075	96993075	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tccatgagacccagaaatttGatatcctggtgcccattgtc	8	11	0	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:96993075G>C	uc002svx.2	+	3	1041	c.706G>C	c.(706-708)GAT>CAT	p.D236H	ITPRIPL1_uc010yuk.1_Missense_Mutation_p.D228H|ITPRIPL1_uc002svy.2_Missense_Mutation_p.D244H|ITPRIPL1_uc010yul.1_Missense_Mutation_p.D228H	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	236	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(2)|ovary(1)	3						CCAGAAATTTGATATCCTGGT	0.607													32	241	---	---	---	---	PASS	C	96993075	C	C	96993075	3	2	79	1	0	0	0	0	1	0	0	0	7924	1290	45	2	746	2	ITPRIPL1	2	96993075	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1452461	96993075	146206298	56	29991			1	35		3	3	357	G		7.425116e-06
ITPRIPL1	150771	broad.mit.edu	37	chr2	96993224	96993224	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctaggggacgtgctgtgcctGgtgcaccaccacagggaccc	14	14	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:96993224G>C	uc002svx.2	+	3	1190	c.855G>C	c.(853-855)CTG>CTC	p.L285L	ITPRIPL1_uc010yuk.1_Silent_p.L277L|ITPRIPL1_uc002svy.2_Silent_p.L293L|ITPRIPL1_uc010yul.1_Silent_p.L277L	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	285	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(2)|ovary(1)	3						TGCTGTGCCTGGTGCACCACC	0.612													14	103	---	---	---	---	PASS	C	96993224	C	C	96993224	2	2	79	1	0	0	0	0	0	0	0	1	7924	1335	47	4		4	ITPRIPL1	2	96993224	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	149	96993224	146206149	57	29992			1	35		3	3	357	G		7.425116e-06
ITPRIPL1	150771	broad.mit.edu	37	chr2	96993431	96993431	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acctcctgcaagctccggctGgactatcgctcaggccgctt	10	16	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:96993431G>T	uc002svx.2	+	3	1397	c.1062G>T	c.(1060-1062)CTG>CTT	p.L354L	ITPRIPL1_uc010yuk.1_Silent_p.L346L|ITPRIPL1_uc002svy.2_Silent_p.L362L|ITPRIPL1_uc010yul.1_Silent_p.L346L	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	354	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(2)|ovary(1)	3						AGCTCCGGCTGGACTATCGCT	0.577													44	376	---	---	---	---	PASS	T	96993431	T	T	96993431	2	4	79	1	0	0	0	0	0	0	0	1	7924	1335	47	3		3	ITPRIPL1	2	96993431	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	207	96993431	146205942	58	29993			1	35		3	3	357	G		7.425116e-06
MYO7B	4648	broad.mit.edu	37	chr2	128389944	128389944	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agggggaagctgctggccccCgactgcagccgccgaatcca	14	15	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:128389944C>A	uc002top.2	+	38	5348	c.5295C>A	c.(5293-5295)CCC>CCA	p.P1765P	MYO7B_uc002tos.1_5'Flank|MYO7B_uc002tot.2_5'Flank	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	1765	MyTH4 2.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		TGCTGGCCCCCGACTGCAGCC	0.677													23	22	---	---	---	---	PASS	A	128389944	A	A	128389944	2	1	79	1	0	0	0	0	0	0	0	1	10083	639	23	1		1	MYO7B	2	128389944	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	31396513	128389944	114809429	59	29994										
GPR148	344561	broad.mit.edu	37	chr2	131487618	131487618	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	attgactctgggactcacacAtggctcctggcagctaacag	10	12	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:131487618A>G	uc002trv.1	+	1	896	c.894A>G	c.(892-894)ACA>ACG	p.T298T		NM_207364	NP_997247	Q8TDV2	GP148_HUMAN	G protein-coupled receptor 148	298	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1	Colorectal(110;0.1)					GGACTCACACATGGCTCCTGG	0.567													47	161	---	---	---	---	PASS	G	131487618	G	G	131487618	2	3	79	1	0	0	0	0	0	0	0	1	6653	204	8	5		5	GPR148	2	131487618	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08	3097674	131487618	111711755	60	29995										
ZRANB3	84083	broad.mit.edu	37	chr2	135988217	135988217	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gggccttggcctcctgtacaCtttccacgagtggagttcgg	13	12	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:135988217C>A	uc002tum.2	-	13	1937	c.1820G>T	c.(1819-1821)AGT>ATT	p.S607I	ZRANB3_uc002tuk.2_Missense_Mutation_p.S150I|ZRANB3_uc002tul.2_Missense_Mutation_p.S607I	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	607						intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		CTCCTGTACACTTTCCACGAG	0.498													75	178	---	---	---	---	PASS	A	135988217	A	A	135988217	3	1	79	1	0	0	0	0	1	0	0	0	18221	565	20	3	1455	3	ZRANB3	2	135988217	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	4500599	135988217	107211156	61	29996										
LRP1B	53353	broad.mit.edu	37	chr2	140995827	140995827	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgccaatttctacatttattCctccattgataataggttgt	5	8	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:140995827C>A	uc002tvj.1	-	89	14426	c.13454G>T	c.(13453-13455)GGA>GTA	p.G4485V		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4485	Cytoplasmic (Potential).				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)		TACATTTATTCCTCCATTGAT	0.318										TSP Lung(27;0.18)			35	90	---	---	---	---	PASS	A	140995827	A	A	140995827	3	1	79	1	0	0	0	0	1	0	0	0	8955	855	30	2	357	2	LRP1B	2	140995827	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	5007610	140995827	102203546	62	29997										
ITGB6	3694	broad.mit.edu	37	chr2	161052922	161052922	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttcgccaactccagatggatGagtaaaattctaaaaaagaa	7	7	1	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:161052922G>A	uc002ubh.2	-	3	167	c.151C>T	c.(151-153)CAT>TAT	p.H51Y	ITGB6_uc010fow.1_RNA|ITGB6_uc010fou.2_Missense_Mutation_p.H51Y|ITGB6_uc010zcq.1_Missense_Mutation_p.H9Y|ITGB6_uc010fov.1_Missense_Mutation_p.H51Y	NM_000888	NP_000879	P18564	ITB6_HUMAN	integrin, beta 6 precursor	51	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|multicellular organismal development	integrin complex	receptor activity			ovary(1)|lung(1)|skin(1)	3						CCAGATGGATGAGTAAAATTC	0.333													258	189	---	---	---	---	PASS	A	161052922	A	A	161052922	3	1	79	1	0	0	0	0	1	0	0	0	7899	1290	45	2	2267	2	ITGB6	2	161052922	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	20057095	161052922	82146451	63	29998										
TBR1	10716	broad.mit.edu	37	chr2	162273453	162273453	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cggccggctacccctacccaCagcagtacggccactcctac	8	20	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:162273453C>T	uc002ubw.1	+	1	834	c.532C>T	c.(532-534)CAG>TAG	p.Q178*	TBR1_uc010foy.2_5'Flank	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	178						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CCCCTACCCACAGCAGTACGG	0.637													38	79	---	---	---	---	PASS	T	162273453	T	T	162273453	4	4	79	1	0	0	0	0	0	1	0	0	15644	479	17	3	534	3	TBR1	2	162273453	Nonsense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	1220531	162273453	80925920	64	29999										
SLC4A10	57282	broad.mit.edu	37	chr2	162799319	162799319	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	caggtgtaactgtgtggaacCgcataatcccagcaatggca	11	10	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:162799319C>G	uc002ubx.3	+	16	2199	c.2015C>G	c.(2014-2016)CCG>CGG	p.P672R	SLC4A10_uc002uby.3_Missense_Mutation_p.P642R|SLC4A10_uc010zcs.1_Missense_Mutation_p.P653R	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	672	Extracellular (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						TGTGTGGAACCGCATAATCCC	0.393													14	13	---	---	---	---	PASS	G	162799319	G	G	162799319	3	3	79	1	0	0	0	0	1	0	0	0	14651	652	23	4	2162	4	SLC4A10	2	162799319	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	525866	162799319	80400054	65	30000										
GRB14	2888	broad.mit.edu	37	chr2	165365270	165365270	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	accttaaagcagaatccataGttagtcggtgctccatgttt	8	9	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:165365270G>C	uc002ucl.2	-	7	1450	c.909C>G	c.(907-909)AAC>AAG	p.N303K	GRB14_uc010zcv.1_Missense_Mutation_p.N216K|GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	303	PH.				blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						AGAATCCATAGTTAGTCGGTG	0.373													76	168	---	---	---	---	PASS	C	165365270	C	C	165365270	3	2	79	1	0	0	0	0	1	0	0	0	6757	1020	36	4	745	4	GRB14	2	165365270	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	2565951	165365270	77834103	66	30001										
XIRP2	129446	broad.mit.edu	37	chr2	167760191	167760191	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	caagtctgccctacagtacaGgggaagagatgtggagttcg	14	8	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:167760191G>A	uc002udx.2	+	1	217	c.199G>A	c.(199-201)GGG>AGG	p.G67R	XIRP2_uc010fpn.2_Missense_Mutation_p.G67R|XIRP2_uc010fpo.2_Missense_Mutation_p.G67R|XIRP2_uc010fpp.2_Missense_Mutation_p.G67R	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	Error:Variant_position_missing_in_A4UGR9_after_alignment					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CTACAGTACAGGGGAAGAGAT	0.493													57	50	---	---	---	---	PASS	A	167760191	A	A	167760191	3	1	79	1	0	0	0	0	1	0	0	0	17427	1000	35	3	201	3	XIRP2	2	167760191	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	2394921	167760191	75439182	67	30002										
HOXD3	3232	broad.mit.edu	37	chr2	177033999	177033999	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cccaccagccctacccacccCctgctgctgccagctccctg	6	24	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:177033999C>A	uc002ukt.1	+	2	333	c.157C>A	c.(157-159)CCT>ACT	p.P53T		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	53					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		CTACCCACCCCCTGCTGCTGC	0.587													33	46	---	---	---	---	PASS	A	177033999	A	A	177033999	3	1	79	1	0	0	0	0	1	0	0	0	7323	623	22	3	159	3	HOXD3	2	177033999	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	9273808	177033999	66165374	68	30003										
NFE2L2	4780	broad.mit.edu	37	chr2	178098968	178098968	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttactccaagatctatatctTgcctccaaagtatgtcaatc	4	11	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:178098968T>A	uc002ulh.3	-	2	632	c.77A>T	c.(76-78)CAA>CTA	p.Q26L	NFE2L2_uc002ulg.3_Missense_Mutation_p.Q10L|NFE2L2_uc010zfa.1_Missense_Mutation_p.Q10L|NFE2L2_uc002uli.3_Missense_Mutation_p.Q10L|NFE2L2_uc010fra.2_Missense_Mutation_p.Q10L|NFE2L2_uc010frb.2_Missense_Mutation_p.Q10L	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	26					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			ATCTATATCTTGCCTCCAAAG	0.348			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			29	61	---	---	---	---	PASS	A	178098968	A	A	178098968	3	1	79	1	0	0	0	0	1	0	0	0	10368	1812	63	5	1756	5	NFE2L2	2	178098968	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	1064969	178098968	65100405	69	30004										
FKBP7	51661	broad.mit.edu	37	chr2	179334381	179334381	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gaaattggtttgaattacctCggctttagagagctgcctgt	11	7	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:179334381C>G	uc002umk.2	-	3	634	c.505G>C	c.(505-507)GAG>CAG	p.E169Q	FKBP7_uc002umm.2_Missense_Mutation_p.E168Q|FKBP7_uc002uml.2_RNA|FKBP7_uc010zff.1_Intron	NM_181342	NP_851939	Q9Y680	FKBP7_HUMAN	FK506 binding protein 7 isoform a precursor	206	1 (Potential).|EF-hand 1.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			TGAATTACCTCGGCTTTAGAG	0.353													158	135	---	---	---	---	PASS	G	179334381	G	G	179334381	3	3	79	1	0	0	0	0	1	0	0	0	5913	893	31	2	171	2	FKBP7	2	179334381	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	1235413	179334381	63864992	70	30005										
TTN	7273	broad.mit.edu	37	chr2	179615473	179615473	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tttcttcaacatttacaagtGtaccaaaagattcgctggca	6	9	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:179615473G>T	uc002unb.2	-	46	11878	c.11654C>A	c.(11653-11655)ACA>AAA	p.T3885K	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			ATTTACAAGTGTACCAAAAGA	0.353													42	94	---	---	---	---	PASS	T	179615473	T	T	179615473	3	4	79	1	0	0	0	0	1	0	0	0	16732	1377	48	3	98643	3	TTN	2	179615473	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	281092	179615473	63583900	71	30006										
ANKRD44	91526	broad.mit.edu	37	chr2	197990703	197990703	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccacatgaagaggggtctgcCagttcttgtcccttgcattg	11	11	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:197990703C>A	uc002uuc.2	-	5	487	c.320G>T	c.(319-321)TGG>TTG	p.W107L	ANKRD44_uc002uua.1_Missense_Mutation_p.W82L|ANKRD44_uc002uub.2_Missense_Mutation_p.W107L|ANKRD44_uc010zgw.1_Missense_Mutation_p.W35L	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	107	ANK 4.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			AGGGGTCTGCCAGTTCTTGTC	0.507													74	142	---	---	---	---	PASS	A	197990703	A	A	197990703	3	1	79	1	0	0	0	0	1	0	0	0	672	595	21	3	2602	3	ANKRD44	2	197990703	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	18375230	197990703	45208670	72	30007										
CFLAR	8837	broad.mit.edu	37	chr2	202025532	202025532	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aattcaaggctcagaagcgaGggctgtgcacagttcaccga	12	10	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:202025532G>T	uc002uxb.3	+	9	1623	c.1171G>T	c.(1171-1173)GGG>TGG	p.G391W	CFLAR_uc010zhk.1_Missense_Mutation_p.G295W|CFLAR_uc002uxc.3_Missense_Mutation_p.G356W|CFLAR_uc010zhl.1_Missense_Mutation_p.G295W|CFLAR_uc010fsw.1_RNA|CFLAR_uc002uxd.3_Missense_Mutation_p.G391W|CFLAR_uc002uxf.2_Missense_Mutation_p.G391W|CFLAR_uc010fsy.2_RNA|CFLAR_uc010fsx.2_Intron|CFLAR_uc010zhm.1_Missense_Mutation_p.G295W|CFLAR_uc010fsz.2_Missense_Mutation_p.G146W|CFLAR_uc002uxg.2_Missense_Mutation_p.G146W	NM_003879	NP_003870	O15519	CFLAR_HUMAN	CASP8 and FADD-like apoptosis regulator isoform	391	Interaction with caspase-8.|Interaction with caspase-3.|Interaction with TRAF1 and TRAF2.|Not proteolytically processed and involved in apoptosis inhibition.|Interaction with caspase-8 subunits p18 and p10.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis		cysteine-type endopeptidase activity|protein binding				0						TCAGAAGCGAGGGCTGTGCAC	0.562													46	47	---	---	---	---	PASS	T	202025532	T	T	202025532	3	4	79	1	0	0	0	0	1	0	0	0	3292	1000	35	3	1265	3	CFLAR	2	202025532	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	4034829	202025532	41173841	73	30008										
ACCN4	55515	broad.mit.edu	37	chr2	220379768	220379768	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tggaccccgctgccccagccCcagtggcgggcttcccggct	13	19	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:220379768C>T	uc002vma.2	+	1	717	c.703C>T	c.(703-705)CCA>TCA	p.P235S	ACCN4_uc010fwi.1_Missense_Mutation_p.P235S|ACCN4_uc010fwj.1_Missense_Mutation_p.P235S|ACCN4_uc002vly.1_Missense_Mutation_p.P235S|ACCN4_uc002vlz.2_Missense_Mutation_p.P235S|ACCN4_uc002vmb.2_5'Flank	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	235	Extracellular (Potential).					integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		TGCCCCAGCCCCAGTGGCGGG	0.667													8	25	---	---	---	---	PASS	T	220379768	T	T	220379768	3	4	79	1	0	0	0	0	1	0	0	0	131	623	22	3	705	3	ACCN4	2	220379768	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	18354236	220379768	22819605	74	30009										
EPHA4	2043	broad.mit.edu	37	chr2	222301171	222301171	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	caagcactcgggacatgccaAaatcagacactttgcagacc	8	13	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:222301171A>G	uc002vmq.2	-	13	2336	c.2294T>C	c.(2293-2295)TTT>TCT	p.F765S	EPHA4_uc002vmr.2_Missense_Mutation_p.F765S|EPHA4_uc010zlm.1_Missense_Mutation_p.F706S|EPHA4_uc010zln.1_Missense_Mutation_p.F765S	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	765	Protein kinase.|Cytoplasmic (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)		GGACATGCCAAAATCAGACAC	0.488													39	116	---	---	---	---	PASS	G	222301171	G	G	222301171	3	3	79	1	0	0	0	0	1	0	0	0	5169	14	1	5	686	5	EPHA4	2	222301171	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	1921403	222301171	20898202	75	30010										
SPHKAP	80309	broad.mit.edu	37	chr2	228883485	228883485	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agaatttcagatgaatgcctGttgtcattggggtcgattat	11	5	2	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr2:228883485G>C	uc002vpq.2	-	7	2132	c.2085C>G	c.(2083-2085)AAC>AAG	p.N695K	SPHKAP_uc002vpp.2_Missense_Mutation_p.N695K|SPHKAP_uc010zlx.1_Missense_Mutation_p.N695K	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	695						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		ATGAATGCCTGTTGTCATTGG	0.393													359	240	---	---	---	---	PASS	C	228883485	C	C	228883485	3	2	79	1	0	0	0	0	1	0	0	0	15047	1368	48	4	3041	4	SPHKAP	2	228883485	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	6582314	228883485	14315888	76	30011										
SETD5	55209	broad.mit.edu	37	chr3	9517717	9517717	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgggagtgggggtgtgcaccAgtaccgactccagccactgc	15	12	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:9517717A>T	uc003brt.2	+	23	4706	c.4271A>T	c.(4270-4272)CAG>CTG	p.Q1424L	SETD5_uc003bru.2_Missense_Mutation_p.Q1326L|SETD5_uc003brv.2_Missense_Mutation_p.Q1313L|SETD5_uc010hck.2_Missense_Mutation_p.Q906L|SETD5_uc003brx.2_Missense_Mutation_p.Q1093L	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	1424										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		GGTGTGCACCAGTACCGACTC	0.577													29	3	---	---	---	---	PASS	T	9517717	T	T	9517717	3	4	79	1	0	0	0	0	1	0	0	0	14134	188	7	5	4353	5	SETD5	3	9517717	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08		9517717	188504713	77	30012										
TOP2B	7155	broad.mit.edu	37	chr3	25648771	25648771	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgttatgggagatgctttaaCtttcaattcctctaaatcat	6	7	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:25648771C>G	uc003cdj.2	-	31	4174	c.4174G>C	c.(4174-4176)GTT>CTT	p.V1392L	TOP2B_uc011awm.1_Missense_Mutation_p.V249L|TOP2B_uc010hff.1_Missense_Mutation_p.V258L	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	1397					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						GATGCTTTAACTTTCAATTCC	0.289													15	2	---	---	---	---	PASS	G	25648771	G	G	25648771	3	3	79	1	0	0	0	0	1	0	0	0	16363	565	20	4	715	4	TOP2B	3	25648771	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	16131054	25648771	172373659	78	30013										
VILL	50853	broad.mit.edu	37	chr3	38044024	38044024	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctcaactccagtgacatcttCttgctggtcacagccagcgt	8	14	4	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:38044024C>G	uc003chj.2	+	14	1903	c.1617C>G	c.(1615-1617)TTC>TTG	p.F539L	VILL_uc003chl.2_Missense_Mutation_p.F539L	NM_015873	NP_056957	O15195	VILL_HUMAN	villin-like protein	539	Gelsolin-like 5.				actin filament capping|cytoskeleton organization	actin cytoskeleton	actin binding|structural constituent of cytoskeleton				0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		GTGACATCTTCTTGCTGGTCA	0.577													54	73	---	---	---	---	PASS	G	38044024	G	G	38044024	3	3	79	1	0	0	0	0	1	0	0	0	17162	912	32	2	1667	2	VILL	3	38044024	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	12395253	38044024	159978406	79	30014										
C3orf39	84892	broad.mit.edu	37	chr3	43121436	43121436	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gtgaggcgggcctcggaggcGccatgcactgacgcctggca	17	13	0	2	rs35207939	byFrequency	TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:43121436G>T	uc003cmq.1	-	2	1629	c.1488C>A	c.(1486-1488)GGC>GGA	p.G496G	C3orf39_uc003cmr.1_Silent_p.G496G	NM_032806	NP_116195	Q8NAT1	AGO61_HUMAN	glycosyltransferase precursor	496						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)|skin(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0571)|Kidney(284;0.0718)		CCTCGGAGGCGCCATGCACTG	0.632													26	42	---	---	---	---	PASS	T	43121436	T	T	43121436	2	4	79	1	0	0	0	0	0	0	0	1	2229	1074	38	1		1	C3orf39	3	43121436	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	5077412	43121436	154900994	80	30015										
CCR1	1230	broad.mit.edu	37	chr3	46244914	46244914	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acgaaggcgtagatcactggGttgacacagcagtgcgtgta	14	8	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:46244914G>A	uc003cph.1	-	2	962	c.891C>T	c.(889-891)AAC>AAT	p.N297N	CCR3_uc003cpg.1_Intron	NM_001295	NP_001286	P32246	CCR1_HUMAN	chemokine (C-C motif) receptor 1	297	Helical; Name=7; (Potential).				cell adhesion|cell-cell signaling|cytokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	integral to plasma membrane	C-C chemokine receptor activity			skin(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		AGATCACTGGGTTGACACAGC	0.562													62	16	---	---	---	---	PASS	A	46244914	A	A	46244914	2	1	79	1	0	0	0	0	0	0	0	1	2939	1252	44	3		3	CCR1	3	46244914	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	3123478	46244914	151777516	81	30016										
MST1	4485	broad.mit.edu	37	chr3	49723334	49723334	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gcggaccagcgctggcactgGacacccttgcgggtcttgct	14	14	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:49723334G>A	uc003cxg.2	-	10	1281	c.1209C>T	c.(1207-1209)GTC>GTT	p.V403V	MST1_uc011bcs.1_Missense_Mutation_p.S442F	NM_020998	NP_066278	P26927	HGFL_HUMAN	macrophage stimulating 1 (hepatocyte growth	389	Kringle 4.				proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GCTGGCACTGGACACCCTTGC	0.711													19	152	---	---	---	---	PASS	A	49723334	A	A	49723334	2	1	79	1	0	0	0	0	0	0	0	1	9890	1161	41	2		2	MST1	3	49723334	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	3478420	49723334	148299096	82	30017										
HYAL1	3373	broad.mit.edu	37	chr3	50339528	50339528	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tcgtgtcatagaagatctggAcatagggcagcaccggcaga	13	9	2	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:50339528A>T	uc003czp.2	-	2	992	c.860T>A	c.(859-861)GTC>GAC	p.V287D	HYAL3_uc003czd.1_5'Flank|HYAL3_uc003cze.1_5'Flank|HYAL3_uc003czf.1_5'Flank|HYAL3_uc003czg.1_5'Flank|NAT6_uc003czj.2_5'Flank|NAT6_uc003czk.3_5'Flank|NAT6_uc003czl.1_5'Flank|HYAL1_uc003czm.2_Missense_Mutation_p.V105D|HYAL1_uc003czo.2_Missense_Mutation_p.V28D|HYAL1_uc003czq.2_Missense_Mutation_p.V287D|HYAL1_uc003czr.2_Missense_Mutation_p.V287D|HYAL1_uc003czn.2_Intron|HYAL1_uc003czs.2_Missense_Mutation_p.V287D|HYAL1_uc003czt.2_Missense_Mutation_p.V287D	NM_033159	NP_149349	Q12794	HYAL1_HUMAN	hyaluronoglucosaminidase 1 isoform 1	287						extracellular space|lysosome	hyalurononglucosaminidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)	Hyaluronidase(DB00070)	GAAGATCTGGACATAGGGCAG	0.557													65	11	---	---	---	---	PASS	T	50339528	T	T	50339528	3	4	79	1	0	0	0	0	1	0	0	0	7463	275	10	5	459	5	HYAL1	3	50339528	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	616194	50339528	147682902	83	30018										
PLA1A	51365	broad.mit.edu	37	chr3	119325702	119325702	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aggcaccgatctcaaagtccAgtttctcctctttgtccctt	6	14	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:119325702A>C	uc003ecu.2	+	2	194	c.155A>C	c.(154-156)CAG>CCG	p.Q52P	PLA1A_uc003ecv.2_Missense_Mutation_p.Q52P|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_Intron	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	52					lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CTCAAAGTCCAGTTTCTCCTC	0.512													138	696	---	---	---	---	PASS	C	119325702	C	C	119325702	3	2	79	1	0	0	0	0	1	0	0	0	11988	188	7	5	161	5	PLA1A	3	119325702	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	68986174	119325702	78696728	84	30019										
PARP15	165631	broad.mit.edu	37	chr3	122354719	122354719	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agttattctgccaaggacacCtactccaagccagacagcaa	7	13	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:122354719C>A	uc003efm.2	+	12	1875	c.1809C>A	c.(1807-1809)ACC>ACA	p.T603T	PARP15_uc003efn.2_Silent_p.T408T|PARP15_uc003efo.1_Silent_p.T350T|PARP15_uc003efp.1_Silent_p.T369T|PARP15_uc011bjt.1_Silent_p.T300T	NM_001113523	NP_001106995	Q460N3	PAR15_HUMAN	poly (ADP-ribose) polymerase family, member 15	581	PARP catalytic.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	NAD+ ADP-ribosyltransferase activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)	5				GBM - Glioblastoma multiforme(114;0.0531)		CCAAGGACACCTACTCCAAGC	0.453													133	253	---	---	---	---	PASS	A	122354719	A	A	122354719	2	1	79	1	0	0	0	0	0	0	0	1	11459	668	24	3		3	PARP15	3	122354719	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	3029017	122354719	75667711	85	30020										
HEG1	57493	broad.mit.edu	37	chr3	124720847	124720847	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgcagtgagatcaccaccgcGttggactccctataggcaaa	10	12	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:124720847G>A	uc003ehs.3	-	11	3434	c.3366C>T	c.(3364-3366)AAC>AAT	p.N1122N	HEG1_uc003ehr.3_Translation_Start_Site|HEG1_uc011bke.1_Silent_p.N1222N	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	1122	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						TCACCACCGCGTTGGACTCCC	0.483													30	110	---	---	---	---	PASS	A	124720847	A	A	124720847	2	1	79	1	0	0	0	0	0	0	0	1	7044	1136	40	1		1	HEG1	3	124720847	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	2366128	124720847	73301583	86	30021										
GP9	2815	broad.mit.edu	37	chr3	128780998	128780998	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gggcagctgtggctggcagcTgcaggcgtcctgggtgcgcc	19	12	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:128780998T>A	uc003elm.2	+	3	603	c.416T>A	c.(415-417)CTG>CAG	p.L139Q		NM_000174	NP_000165	P14770	GPIX_HUMAN	glycoprotein IX (platelet) precursor	139	Extracellular (Potential).				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane	protein binding				0					Quinine(DB00468)	GGCTGGCAGCTGCAGGCGTCC	0.741													3	8	---	---	---	---	PASS	A	128780998	A	A	128780998	3	1	79	1	0	0	0	0	1	0	0	0	6585	1580	55	5	418	5	GP9	3	128780998	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	4060151	128780998	69241432	87	30022										
IFT122	55764	broad.mit.edu	37	chr3	129225321	129225321	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gctcacaaacaatgccgtggCggagagcaggtttaatgatg	13	8	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:129225321C>T	uc003emm.2	+	22	2926	c.2720C>T	c.(2719-2721)GCG>GTG	p.A907V	IFT122_uc003eml.2_Missense_Mutation_p.A958V|IFT122_uc003emn.2_Missense_Mutation_p.A848V|IFT122_uc003emo.2_Missense_Mutation_p.A796V|IFT122_uc003emp.2_Missense_Mutation_p.A757V|IFT122_uc010htc.2_Missense_Mutation_p.A899V|IFT122_uc011bky.1_Missense_Mutation_p.A698V|IFT122_uc003emq.2_Missense_Mutation_p.A747V|IFT122_uc003emr.2_Missense_Mutation_p.A659V|IFT122_uc011bla.1_Missense_Mutation_p.A680V|IFT122_uc010hte.2_Missense_Mutation_p.A233V|IFT122_uc003ems.2_Missense_Mutation_p.A288V|IFT122_uc011bkx.1_Missense_Mutation_p.A747V|IFT122_uc010htd.1_Missense_Mutation_p.A386V	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	907					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						AATGCCGTGGCGGAGAGCAGG	0.522													13	585	---	---	---	---	PASS	T	129225321	T	T	129225321	3	4	79	1	0	0	0	0	1	0	0	0	7555	768	27	1	2963	1	IFT122	3	129225321	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	444323	129225321	68797109	88	30023										
DZIP1L	199221	broad.mit.edu	37	chr3	137816615	137816615	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctggactcaccaccttctgcCacgcctgcatgcctgcgctg	9	18	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:137816615C>T	uc003erq.2	-	3	939	c.576G>A	c.(574-576)GTG>GTA	p.V192V	DZIP1L_uc003err.1_Silent_p.V192V	NM_173543	NP_775814	Q8IYY4	DZI1L_HUMAN	DAZ interacting protein 1-like	192						intracellular	zinc ion binding			ovary(1)|pancreas(1)	2						caccttctgccacgcctgcat	0.418											OREG0015831	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	38	---	---	---	---	PASS	T	137816615	T	T	137816615	2	4	79	1	0	0	0	0	0	0	0	1	4864	581	21	3		3	DZIP1L	3	137816615	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	8591294	137816615	60205815	89	30024										
TRIM42	287015	broad.mit.edu	37	chr3	140406900	140406900	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gatcgaggacggcatccagaCcacctacaggcctgacccac	10	16	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:140406900C>A	uc003eto.1	+	3	1567	c.1376C>A	c.(1375-1377)ACC>AAC	p.T459N		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	459	COS.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						GGCATCCAGACCACCTACAGG	0.572													57	122	---	---	---	---	PASS	A	140406900	A	A	140406900	3	1	79	1	0	0	0	0	1	0	0	0	16514	507	18	3	1386	3	TRIM42	3	140406900	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2590285	140406900	57615530	90	30025										
CLDN11	5010	broad.mit.edu	37	chr3	170150353	170150353	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccatctggttccctgtgtgcGcccaccgtgagaccaccatc	9	17	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:170150353G>A	uc003fgx.2	+	3	635	c.433G>A	c.(433-435)GCC>ACC	p.A145T	CLDN11_uc011bpt.1_Intron|CLDN11_uc003fgy.2_Missense_Mutation_p.A61T	NM_005602	NP_005593	O75508	CLD11_HUMAN	claudin 11	145	Extracellular (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			central_nervous_system(1)	1	all_cancers(22;5.62e-23)|all_epithelial(15;7.54e-28)|all_lung(20;2.51e-17)|Lung NSC(18;1.02e-16)|Ovarian(172;0.000567)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			CCCTGTGTGCGCCCACCGTGA	0.607													146	466	---	---	---	---	PASS	A	170150353	A	A	170150353	3	1	79	1	0	0	0	0	1	0	0	0	3473	1087	38	1	443	1	CLDN11	3	170150353	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	29743453	170150353	27872077	91	30026										
SLC2A2	6514	broad.mit.edu	37	chr3	170744448	170744448	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atataatgctgctttaccttAtcttctgtcattgtactagt	5	8	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:170744448A>G	uc003fhe.1	-	1	321	c.12T>C	c.(10-12)GAT>GAC	p.D4D	SLC2A2_uc003fhf.1_5'UTR|SLC2A2_uc011bpu.1_5'UTR	NM_000340	NP_000331	P11168	GTR2_HUMAN	solute carrier family 2 (facilitated glucose	4	Cytoplasmic (Potential).				carbohydrate metabolic process|cellular lipid metabolic process|endocrine pancreas development|energy reserve metabolic process|regulation of insulin secretion	integral to plasma membrane|membrane fraction	D-glucose transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2	all_cancers(22;1.41e-19)|all_lung(20;1.59e-15)|Lung NSC(18;7.08e-15)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;1.1e-14)|Lung(28;2.99e-14)			GCTTTACCTTATCTTCTGTCA	0.448													363	428	---	---	---	---	PASS	G	170744448	G	G	170744448	2	3	79	1	0	0	0	0	0	0	0	1	14544	446	16	5		5	SLC2A2	3	170744448	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08	594095	170744448	27277982	92	30027										
FNDC3B	64778	broad.mit.edu	37	chr3	171969199	171969199	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tctacaaaagcagctgcacaAcagtatacaatggctatggg	9	9	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:171969199A>G	uc003fhy.2	+	6	830	c.658A>G	c.(658-660)ACA>GCA	p.T220A	FNDC3B_uc003fhz.3_Missense_Mutation_p.T220A|FNDC3B_uc003fia.2_Missense_Mutation_p.T151A	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	220						endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		CAGCTGCACAACAGTATACAA	0.532													104	111	---	---	---	---	PASS	G	171969199	G	G	171969199	3	3	79	1	0	0	0	0	1	0	0	0	5970	43	2	5	676	5	FNDC3B	3	171969199	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	1224751	171969199	26053231	93	30028										
SPATA16	83893	broad.mit.edu	37	chr3	172834952	172834952	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cctgctgccaaggcgtatttCttttgtctatagcaagagct	9	10	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:172834952C>G	uc003fin.3	-	2	728	c.570G>C	c.(568-570)AAG>AAC	p.K190N		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	190					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			AGGCGTATTTCTTTTGTCTAT	0.408													174	704	---	---	---	---	PASS	G	172834952	G	G	172834952	3	3	79	1	0	0	0	0	1	0	0	0	15000	912	32	2	1179	2	SPATA16	3	172834952	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	865753	172834952	25187478	94	30029										
MRPL47	57129	broad.mit.edu	37	chr3	179311590	179311590	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gatgtctcttctccaagcacCaggtctagctctttcttgac	7	13	5	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:179311590C>G	uc003fjz.2	-	5	518	c.496G>C	c.(496-498)GGT>CGT	p.G166R	MRPL47_uc003fka.2_Missense_Mutation_p.G56R|MRPL47_uc003fkb.2_Missense_Mutation_p.G146R	NM_020409	NP_065142	Q9HD33	RM47_HUMAN	mitochondrial ribosomal protein L47 isoform a	166					translation	mitochondrial ribosome	structural constituent of ribosome				0	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)			CTCCAAGCACCAGGTCTAGCT	0.438													43	346	---	---	---	---	PASS	G	179311590	G	G	179311590	3	3	79	1	0	0	0	0	1	0	0	0	9811	594	21	4	268	4	MRPL47	3	179311590	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	6476638	179311590	18710840	95	30030										
LAMP3	27074	broad.mit.edu	37	chr3	182841929	182841929	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	attttatagacacccataccCataaggcagagaccaaccac	5	13	0	2	rs113287351		TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:182841929C>A	uc003flh.3	-	6	1415	c.1191G>T	c.(1189-1191)ATG>ATT	p.M397I		NM_014398	NP_055213	Q9UQV4	LAMP3_HUMAN	lysosomal-associated membrane protein 3	397	Helical; (Potential).				cell proliferation	integral to membrane|lysosomal membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;9.14e-14)|Ovarian(172;0.0355)		all cancers(12;2.91e-44)|Epithelial(37;5.52e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;4.16e-21)			CACCCATACCCATAAGGCAGA	0.433													154	298	---	---	---	---	PASS	A	182841929	A	A	182841929	3	1	79	1	0	0	0	0	1	0	0	0	8619	594	21	3	63	3	LAMP3	3	182841929	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	3530339	182841929	15180501	96	30031										
AP2M1	1173	broad.mit.edu	37	chr3	183899529	183899529	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gactgcaccttccaccagtgTgtgcgactcagcaagtttga	10	12	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:183899529T>C	uc011bqx.1	+	8	910	c.753T>C	c.(751-753)TGT>TGC	p.C251C	AP2M1_uc003fmw.2_Silent_p.C249C|AP2M1_uc003fmx.2_Silent_p.C179C|AP2M1_uc003fmy.2_Silent_p.C249C|AP2M1_uc011bqy.1_Silent_p.C121C|AP2M1_uc011bqz.1_Silent_p.C67C	NM_004068	NP_004059	Q96CW1	AP2M1_HUMAN	adaptor-related protein complex 2, mu 1 subunit	251	MHD.				axon guidance|cellular membrane organization|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|clathrin coat of coated pit|cytosol|endocytic vesicle membrane|peroxisomal membrane	lipid binding|protein binding|transporter activity				0	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.92e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCCACCAGTGTGTGCGACTCA	0.527													14	366	---	---	---	---	PASS	C	183899529	C	C	183899529	2	2	79	1	0	0	0	0	0	0	0	1	742	1702	59	5		5	AP2M1	3	183899529	Silent	SNP	T	TCGA-37-4135-01A-01D-1352-08	1057600	183899529	14122901	97	30032										
FAM43A	131583	broad.mit.edu	37	chr3	194408707	194408707	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gtgacgcgcctgctgtcaggCgacagcacgggcagcgagag	17	12	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:194408707C>A	uc003fuj.2	+	1	2086	c.1152C>A	c.(1150-1152)GGC>GGA	p.G384G		NM_153690	NP_710157	Q8N2R8	FA43A_HUMAN	hypothetical protein LOC131583	384										central_nervous_system(1)	1	all_cancers(143;2.04e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.147)	OV - Ovarian serous cystadenocarcinoma(49;8.37e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;1.78e-05)		TGCTGTCAGGCGACAGCACGG	0.711													10	26	---	---	---	---	PASS	A	194408707	A	A	194408707	2	1	79	1	0	0	0	0	0	0	0	1	5562	755	27	1		1	FAM43A	3	194408707	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	10509178	194408707	3613723	98	30033										
PAK2	5062	broad.mit.edu	37	chr3	196509561	196509561	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agataagcctccagcacctcCtgtgcgaatgagcagcacca	9	14	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr3:196509561C>A	uc003fwy.3	+	2	366	c.44C>A	c.(43-45)CCT>CAT	p.P15H		NM_002577	NP_002568	Q13177	PAK2_HUMAN	p21-activated kinase 2	15					axon guidance|cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of apoptosis|regulation of defense response to virus by virus|regulation of growth|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|nucleus|perinuclear region of cytoplasm|plasma membrane	ATP binding|identical protein binding|protein kinase binding|protein serine/threonine kinase activity|protein tyrosine kinase activator activity			ovary(1)|lung(1)	2	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00405)		CCAGCACCTCCTGTGCGAATG	0.423													11	685	---	---	---	---	PASS	A	196509561	A	A	196509561	3	1	79	1	0	0	0	0	1	0	0	0	11401	681	24	3	46	3	PAK2	3	196509561	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2100854	196509561	1512869	99	30034										
WFS1	7466	broad.mit.edu	37	chr4	6303493	6303493	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gtgtaccgctcagagggcatGaaggtctacaactccacact	10	12	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr4:6303493G>C	uc003giy.2	+	8	2137	c.1971G>C	c.(1969-1971)ATG>ATC	p.M657I	WFS1_uc003gix.2_Missense_Mutation_p.M657I|WFS1_uc003giz.2_Missense_Mutation_p.M475I	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	657					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		CAGAGGGCATGAAGGTCTACA	0.602													12	402	---	---	---	---	PASS	C	6303493	C	C	6303493	3	2	79	1	0	0	0	0	1	0	0	0	17357	1290	45	2	1997	2	WFS1	4	6303493	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08		6303493	184850783	100	30035										
KLHL5	51088	broad.mit.edu	37	chr4	39064185	39064185	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tttgttgtgtacagcagggcAtatacttctcttgtcttggt	10	7	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr4:39064185A>G	uc003gts.2	+	1	126	c.51A>G	c.(49-51)GCA>GCG	p.A17A	KLHL5_uc003gtp.2_5'UTR|KLHL5_uc003gtq.2_Intron|KLHL5_uc003gtr.1_Silent_p.A17A|KLHL5_uc003gtt.2_Silent_p.A17A	NM_015990	NP_057074	Q96PQ7	KLHL5_HUMAN	kelch-like 5 isoform 1	17						cytoplasm|cytoskeleton	actin binding			ovary(1)	1						ACAGCAGGGCATATACTTCTC	0.358													105	31	---	---	---	---	PASS	G	39064185	G	G	39064185	2	3	79	1	0	0	0	0	0	0	0	1	8392	204	8	5		5	KLHL5	4	39064185	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08	32760692	39064185	152090091	101	30036										
LIMCH1	22998	broad.mit.edu	37	chr4	41640961	41640961	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tcttatagatacggtccgagAactcctgtgtctgatgacgc	10	10	2	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr4:41640961A>T	uc003gvu.3	+	9	1002	c.948A>T	c.(946-948)AGA>AGT	p.R316S	LIMCH1_uc003gvv.3_Missense_Mutation_p.R316S|LIMCH1_uc003gvw.3_Missense_Mutation_p.R316S|LIMCH1_uc003gvx.3_Intron|LIMCH1_uc003gwe.3_Missense_Mutation_p.R316S|LIMCH1_uc003gvy.3_Intron|LIMCH1_uc003gwa.3_Missense_Mutation_p.R157S|LIMCH1_uc003gvz.3_Missense_Mutation_p.R701S|LIMCH1_uc011byu.1_Intron|LIMCH1_uc003gwc.3_Missense_Mutation_p.R162S|LIMCH1_uc003gwd.3_Intron|LIMCH1_uc011byv.1_Missense_Mutation_p.R67S	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	316					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						ACGGTCCGAGAACTCCTGTGT	0.388													95	33	---	---	---	---	PASS	T	41640961	T	T	41640961	3	4	79	1	0	0	0	0	1	0	0	0	8797	243	9	5	1010	5	LIMCH1	4	41640961	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	2576776	41640961	149513315	102	30037										
GUF1	60558	broad.mit.edu	37	chr4	44685270	44685270	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agatagatctgaagaatgctGatcctgaaagggttgaaaac	11	5	1	7			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr4:44685270G>A	uc003gww.3	+	6	811	c.604G>A	c.(604-606)GAT>AAT	p.D202N	GUF1_uc010ifz.1_RNA	NM_021927	NP_068746	Q8N442	GUF1_HUMAN	GUF1 GTPase homolog	202					translation	mitochondrial inner membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)	1						GAAGAATGCTGATCCTGAAAG	0.264													16	51	---	---	---	---	PASS	A	44685270	A	A	44685270	3	1	79	1	0	0	0	0	1	0	0	0	6899	1290	45	2	626	2	GUF1	4	44685270	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	3044309	44685270	146469006	103	30038										
GNPDA2	132789	broad.mit.edu	37	chr4	44724131	44724131	+	Frame_Shift_Del	DEL	C	-	-													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acccagtgtaaaatatctgtCctgtccaggtttgaactgaa							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr4:44724131delC	uc003gwy.2	-	2	251	c.94delG	c.(94-96)GACfs	p.D32fs	GNPDA2_uc010iga.2_Frame_Shift_Del_p.D32fs|GNPDA2_uc011bzb.1_Intron|GNPDA2_uc003gwz.1_Frame_Shift_Del_p.D32fs	NM_138335	NP_612208	Q8TDQ7	GNPI2_HUMAN	glucosamine-6-phosphate deaminase 2	32					N-acetylglucosamine metabolic process	cytoplasm	glucosamine-6-phosphate deaminase activity|hydrolase activity			ovary(1)	1						AAATATCTGTCCTGTCCAGGT	0.348													59	38	---	---	---	---		-	44724131	-	-	44724131	7	5	79	1	0	1	0	1	0	0	0	0	6543	855	30	0	760	0	GNPDA2	4	44724131	Frame_Shift_Del	DEL	C	TCGA-37-4135-01A-01D-1352-08	38861	44724131	146430145	104	30039										
PKD2	5311	broad.mit.edu	37	chr4	88996004	88996004	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggatggagcattccatcggcAgcatagtgtccaagattgac	12	9	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr4:88996004A>G	uc003hre.2	+	14	2629	c.2563A>G	c.(2563-2565)AGC>GGC	p.S855G	PKD2_uc011cdf.1_Missense_Mutation_p.S273G|PKD2_uc011cdg.1_Missense_Mutation_p.S181G|PKD2_uc011cdh.1_Missense_Mutation_p.S78G	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	855	Potential.|C-terminal coiled coil domain.|Cytoplasmic (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		TTCCATCGGCAGCATAGTGTC	0.532													52	14	---	---	---	---	PASS	G	88996004	G	G	88996004	3	3	79	1	0	0	0	0	1	0	0	0	11966	188	7	5	2617	5	PKD2	4	88996004	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	44271873	88996004	102158272	105	30040										
ARHGEF38	54848	broad.mit.edu	37	chr4	106534585	106534585	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttgtttagcaacattgagtcCgtgcatcagatatcagccaa	8	9	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr4:106534585C>G	uc003hxu.2	+	3	575	c.429C>G	c.(427-429)TCC>TCG	p.S143S		NM_017700	NP_060170	Q9NXL2	ARH38_HUMAN	hypothetical protein LOC54848	143	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|breast(1)	3						ACATTGAGTCCGTGCATCAGA	0.433													78	104	---	---	---	---	PASS	G	106534585	G	G	106534585	2	3	79	1	0	0	0	0	0	0	0	1	907	639	23	4		4	ARHGEF38	4	106534585	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	17538581	106534585	84619691	106	30041										
PRDM5	11107	broad.mit.edu	37	chr4	121702330	121702330	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tctaagcactgaaggtgtaaCaaaggccttattacatagct	8	8	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr4:121702330C>A	uc003idn.2	-	12	1661	c.1411G>T	c.(1411-1413)GTT>TTT	p.V471F	PRDM5_uc003ido.2_Missense_Mutation_p.V440F|PRDM5_uc010ine.2_Missense_Mutation_p.V440F	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	471	C2H2-type 11.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						GAAGGTGTAACAAAGGCCTTA	0.368													106	31	---	---	---	---	PASS	A	121702330	A	A	121702330	3	1	79	1	0	0	0	0	1	0	0	0	12460	478	17	3	501	3	PRDM5	4	121702330	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	15167745	121702330	69451946	107	30042										
KIAA1109	84162	broad.mit.edu	37	chr4	123270434	123270434	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	attctaaaggaggagtagttGgagggaccatagatgtcaat	13	4	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr4:123270434G>T	uc003ieh.2	+	76	13447	c.13402G>T	c.(13402-13404)GGA>TGA	p.G4468*	KIAA1109_uc003iem.2_Nonsense_Mutation_p.G824*	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4468					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGGAGTAGTTGGAGGGACCAT	0.393													33	60	---	---	---	---	PASS	T	123270434	T	T	123270434	4	4	79	1	0	0	0	0	0	1	0	0	8208	1349	47	3	13704	3	KIAA1109	4	123270434	Nonsense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1568104	123270434	67883842	108	30043										
NAF1	92345	broad.mit.edu	37	chr4	164050110	164050110	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agggtggaggaggcagtggtGgagggggagggggtgggggt	29	1	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr4:164050110G>A	uc003iqj.2	-	8	1618	c.1424C>T	c.(1423-1425)CCA>CTA	p.P475L	NAF1_uc010iqw.1_Intron	NM_138386	NP_612395	Q96HR8	NAF1_HUMAN	nuclear assembly factor 1 homolog isoform a	475	Pro-rich.				rRNA processing|snRNA pseudouridine synthesis	cytoplasm|nucleus|small nucleolar ribonucleoprotein complex	protein binding|snoRNA binding			ovary(2)	2	all_hematologic(180;0.166)	Prostate(90;0.109)				aggcagtggtggagggggagg	0.264													12	9	---	---	---	---	PASS	A	164050110	A	A	164050110	3	1	79	1	0	0	0	0	1	0	0	0	10140	1348	47	3	205	3	NAF1	4	164050110	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	40779676	164050110	27104166	109	30044										
FAT1	2195	broad.mit.edu	37	chr4	187628543	187628543	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggtggattatcattggcatcGacaaccacgacatgtagaag	11	8	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr4:187628543G>A	uc003izf.2	-	2	2627	c.2439C>T	c.(2437-2439)GTC>GTT	p.V813V	FAT1_uc010iso.1_Silent_p.V813V	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	813	Extracellular (Potential).|Cadherin 6.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CATTGGCATCGACAACCACGA	0.458										HNSCC(5;0.00058)			110	164	---	---	---	---	PASS	A	187628543	A	A	187628543	2	1	79	1	0	0	0	0	0	0	0	1	5689	1045	37	2		2	FAT1	4	187628543	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	23578433	187628543	3525733	110	30045										
PLEKHG4B	153478	broad.mit.edu	37	chr5	182161	182161	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agcggtgtcctcctctgaccAcgccgcccccttcaagcgac	9	19	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:182161A>T	uc003jak.2	+	18	3589	c.3539A>T	c.(3538-3540)CAC>CTC	p.H1180L		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	1180	Ser-rich.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		TCCTCTGACCACGCCGCCCCC	0.612													81	132	---	---	---	---	PASS	T	182161	T	T	182161	3	4	79	1	0	0	0	0	1	0	0	0	12072	159	6	5	3609	5	PLEKHG4B	5	182161	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08		182161	180733099	111	30046										
SLC6A18	348932	broad.mit.edu	37	chr5	1232415	1232415	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgagctcgccatcggccagcGgctgcggaagggcagcgtcg	17	14	0	0	rs148359610		TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:1232415G>T	uc003jby.1	+	2	365	c.242G>T	c.(241-243)CGG>CTG	p.R81L		NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18	81	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			ATCGGCCAGCGGCTGCGGAAG	0.667													6	7	---	---	---	---	PASS	T	1232415	T	T	1232415	3	4	79	1	0	0	0	0	1	0	0	0	14681	1116	39	1	248	1	SLC6A18	5	1232415	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1050254	1232415	179682845	112	30047										
ADAMTS16	170690	broad.mit.edu	37	chr5	5306799	5306799	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	caccccccatttgctgctgcGggaccctcgaggggcagctg	13	16	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:5306799G>A	uc003jdl.2	+	21	3507	c.3369G>A	c.(3367-3369)GCG>GCA	p.A1123A		NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1123					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TTGCTGCTGCGGGACCCTCGA	0.662													22	38	---	---	---	---	PASS	A	5306799	A	A	5306799	2	1	79	1	0	0	0	0	0	0	0	1	261	1103	39	1		1	ADAMTS16	5	5306799	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	4074384	5306799	175608461	113	30048										
KIAA0947	23379	broad.mit.edu	37	chr5	5463581	5463581	+	Missense_Mutation	SNP	G	T	T													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttgtgctctgactctgtgatGgagccatccatagagcaaag							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:5463581G>T	uc003jdm.3	+	13	4356	c.4134G>T	c.(4132-4134)ATG>ATT	p.M1378I		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1378										ovary(1)|central_nervous_system(1)	2						ACTCTGTGATGGAGCCATCCA	0.493													19	21	---	---	---	---	PASS	T	5463581	T	T	5463581	3	4	79	1	0	0	0	0	1	0	0	0	8202	1348	47	3	4184	3	KIAA0947	5	5463581	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	156782	5463581	175451679	114	30049	602	2								
KIAA0947	23379	broad.mit.edu	37	chr5	5463582	5463582	+	Missense_Mutation	SNP	G	C	C													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgtgctctgactctgtgatgGagccatccatagagcaaagt							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:5463582G>C	uc003jdm.3	+	13	4357	c.4135G>C	c.(4135-4137)GAG>CAG	p.E1379Q		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1379										ovary(1)|central_nervous_system(1)	2						CTCTGTGATGGAGCCATCCAT	0.488													20	21	---	---	---	---	PASS	C	5463582	C	C	5463582	3	2	79	1	0	0	0	0	1	0	0	0	8202	1175	41	2	4185	2	KIAA0947	5	5463582	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1	5463582	175451678	115	30050	602	2								
NSUN2	54888	broad.mit.edu	37	chr5	6607388	6607388	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctatttctgtgtcaccagttCctgtgaatgacggactttcc	8	11	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:6607388C>A	uc003jdu.2	-	13	1498	c.1433G>T	c.(1432-1434)GGA>GTA	p.G478V	NSUN2_uc003jds.2_5'Flank|NSUN2_uc003jdt.2_Missense_Mutation_p.G242V|NSUN2_uc011cmk.1_Missense_Mutation_p.G443V|NSUN2_uc003jdv.2_Missense_Mutation_p.G242V	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	478						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						GTCACCAGTTCCTGTGAATGA	0.458													326	403	---	---	---	---	PASS	A	6607388	A	A	6607388	3	1	79	1	0	0	0	0	1	0	0	0	10678	855	30	2	898	2	NSUN2	5	6607388	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	1143806	6607388	174307872	116	30051										
CDH18	1016	broad.mit.edu	37	chr5	19591263	19591263	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgatggagtaggtcatgtcaGcatttgagccagtgtcagca	13	7	3	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:19591263G>A	uc003jgc.2	-	6	1279	c.902C>T	c.(901-903)GCT>GTT	p.A301V	CDH18_uc003jgd.2_Missense_Mutation_p.A301V|CDH18_uc011cnm.1_Missense_Mutation_p.A301V	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	301	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					GGTCATGTCAGCATTTGAGCC	0.423													148	154	---	---	---	---	PASS	A	19591263	A	A	19591263	3	1	79	1	0	0	0	0	1	0	0	0	3103	971	34	3	1498	3	CDH18	5	19591263	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	12983875	19591263	161323997	117	30052										
CDH6	1004	broad.mit.edu	37	chr5	31323238	31323238	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gaccccactgccccgccataCgactccttggccacttacgc	7	20	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:31323238C>T	uc003jhe.1	+	12	2522	c.2196C>T	c.(2194-2196)TAC>TAT	p.Y732Y		NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	732	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						CCCCGCCATACGACTCCTTGG	0.542													15	65	---	---	---	---	PASS	T	31323238	T	T	31323238	2	4	79	1	0	0	0	0	0	0	0	1	3114	547	19	1		1	CDH6	5	31323238	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	11731975	31323238	149592022	118	30053										
SLC1A3	6507	broad.mit.edu	37	chr5	36684019	36684019	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tggaattcctcaggcgggccTggtcactatggtcattgtgc	13	10	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:36684019T>A	uc003jkj.3	+	9	1819	c.1343T>A	c.(1342-1344)CTG>CAG	p.L448Q	SLC1A3_uc011cox.1_Missense_Mutation_p.L341Q|SLC1A3_uc010iuy.2_Intron	NM_004172	NP_004163	P43003	EAA1_HUMAN	solute carrier family 1 (glial high affinity	448					D-aspartate import|L-glutamate import|neurotransmitter uptake	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0	all_lung(31;0.000245)		Epithelial(62;0.0444)|Lung(74;0.111)|all cancers(62;0.128)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)		L-Glutamic Acid(DB00142)	CAGGCGGGCCTGGTCACTATG	0.542													83	99	---	---	---	---	PASS	A	36684019	A	A	36684019	3	1	79	1	0	0	0	0	1	0	0	0	14433	1580	55	5	1390	5	SLC1A3	5	36684019	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	5360781	36684019	144231241	119	30054										
HEATR7B2	133558	broad.mit.edu	37	chr5	41008872	41008872	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acagaggtgcccattgagatCacttcatacatagcacaggc	9	11	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:41008872C>A	uc003jmj.3	-	33	3934	c.3444G>T	c.(3442-3444)GTG>GTT	p.V1148V	HEATR7B2_uc003jmi.3_Silent_p.V703V	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1148	HEAT 12.						binding			ovary(6)|central_nervous_system(2)	8						CCATTGAGATCACTTCATACA	0.527													17	56	---	---	---	---	PASS	A	41008872	A	A	41008872	2	1	79	1	0	0	0	0	0	0	0	1	7035	813	29	2		2	HEATR7B2	5	41008872	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	4324853	41008872	139906388	120	30055										
C5orf34	375444	broad.mit.edu	37	chr5	43506365	43506365	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgtactgtaaattcatgctgAgatctgggcaggcagaggta	13	6	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:43506365A>G	uc003jnz.1	-	5	734	c.417T>C	c.(415-417)TCT>TCC	p.S139S	C5orf34_uc011cpx.1_Silent_p.S25S	NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	139										breast(1)	1	Lung NSC(6;2.07e-05)					ATTCATGCTGAGATCTGGGCA	0.398													73	244	---	---	---	---	PASS	G	43506365	G	G	43506365	2	3	79	1	0	0	0	0	0	0	0	1	2293	291	11	5		5	C5orf34	5	43506365	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08	2497493	43506365	137408895	121	30056										
EDIL3	10085	broad.mit.edu	37	chr5	83360518	83360518	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aatagttaatttgagacttaCccgacagttcacagccaaga	7	9	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:83360518C>T	uc003kio.1	-	8	1371	c.952_splice	c.e8+1	p.G318_splice	EDIL3_uc003kip.1_Splice_Site_p.G308_splice|EDIL3_uc011ctt.1_Splice_Site_p.G95_splice	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like						cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)		TTGAGACTTACCCGACAGTTC	0.363													62	11	---	---	---	---	PASS	T	83360518	T	T	83360518	5	4	79	1	0	0	0	0	0	0	1	0	4915	521	18	3	505	3	EDIL3	5	83360518	Splice_Site	SNP	C	TCGA-37-4135-01A-01D-1352-08	39854153	83360518	97554742	122	30057										
HSPA4	3308	broad.mit.edu	37	chr5	132409706	132409706	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgctcttgcatatggaatctAtaagcaggatcttcctgcct	8	10	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:132409706A>G	uc003kyj.2	+	6	832	c.551A>G	c.(550-552)TAT>TGT	p.Y184C		NM_002154	NP_002145	P34932	HSP74_HUMAN	heat shock 70kDa protein 4	184					cellular chaperone-mediated protein complex assembly|protein import into mitochondrial outer membrane|response to unfolded protein	cytoplasm|nucleus	ATP binding			lung(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TATGGAATCTATAAGCAGGAT	0.318													59	12	---	---	---	---	PASS	G	132409706	G	G	132409706	3	3	79	1	0	0	0	0	1	0	0	0	7412	449	16	5	573	5	HSPA4	5	132409706	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	49049188	132409706	48505554	123	30058										
FAM53C	51307	broad.mit.edu	37	chr5	137680859	137680859	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgggccgcaggtgcctcaccAgagccccccaaagcgggtct	13	16	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:137680859A>G	uc003lcv.2	+	4	952	c.482A>G	c.(481-483)CAG>CGG	p.Q161R	FAM53C_uc003lcw.2_Missense_Mutation_p.Q161R|FAM53C_uc011cyq.1_Intron|FAM53C_uc011cyr.1_Intron	NM_001135647	NP_001129119	Q9NYF3	FA53C_HUMAN	hypothetical protein LOC51307	161										ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			GTGCCTCACCAGAGCCCCCCA	0.662													106	19	---	---	---	---	PASS	G	137680859	G	G	137680859	3	3	79	1	0	0	0	0	1	0	0	0	5581	188	7	5	492	5	FAM53C	5	137680859	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	5271153	137680859	43234401	124	30059										
ADAM19	8728	broad.mit.edu	37	chr5	156957872	156957872	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gttctgtctccctcaccgtgCcgtggtaaaagcagtgatcc	10	13	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr5:156957872C>A	uc003lwz.2	-	5	414	c.350G>T	c.(349-351)GGC>GTC	p.G117V	ADAM19_uc003lww.1_5'UTR|ADAM19_uc011ddr.1_Missense_Mutation_p.G48V	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	117					proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CCTCACCGTGCCGTGGTAAAA	0.537													76	19	---	---	---	---	PASS	A	156957872	A	A	156957872	3	1	79	1	0	0	0	0	1	0	0	0	240	739	26	3	2482	3	ADAM19	5	156957872	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	19277013	156957872	23957388	125	30060										
F13A1	2162	broad.mit.edu	37	chr6	6318807	6318807	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gggcaccacgccctgaagctCcactgtgggcaggtcatctt	12	14	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:6318807C>A	uc003mwv.2	-	2	214	c.91G>T	c.(91-93)GAG>TAG	p.E31*	F13A1_uc011dib.1_Nonsense_Mutation_p.E31*	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	31					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	CCCTGAAGCTCCACTGTGGGC	0.592													182	145	---	---	---	---	PASS	A	6318807	A	A	6318807	4	1	79	1	0	0	0	0	0	1	0	0	5340	864	30	2	2163	2	F13A1	6	6318807	Nonsense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08		6318807	164796260	126	30061										
HIST1H3I	8354	broad.mit.edu	37	chr6	27839938	27839938	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gtcgacttctggtagcggcgGatctcgcgcagggccacggt	16	12	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:27839938G>A	uc003njy.2	-	1	162	c.156C>T	c.(154-156)ATC>ATT	p.I52I		NM_003533	NP_003524	P68431	H31_HUMAN	histone cluster 1, H3i	52					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1						GGTAGCGGCGGATCTCGCGCA	0.652													28	95	---	---	---	---	PASS	A	27839938	A	A	27839938	2	1	79	1	0	0	0	0	0	0	0	1	7163	1164	41	2		2	HIST1H3I	6	27839938	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	21521131	27839938	143275129	127	30062										
TRIM26	7726	broad.mit.edu	37	chr6	30166457	30166457	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gcttaccctgtggggctgggCggccttctccatgaggacgg	16	12	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:30166457C>T	uc003npr.2	-	3	633	c.424G>A	c.(424-426)GCC>ACC	p.A142T	TRIM26_uc003nps.2_Missense_Mutation_p.A142T|TRIM26_uc010jry.2_5'UTR|TRIM26_uc003npt.2_Missense_Mutation_p.A142T|TRIM26_uc003npu.1_Missense_Mutation_p.A142T	NM_003449	NP_003440	Q12899	TRI26_HUMAN	tripartite motif-containing 26	142							DNA binding|zinc ion binding			ovary(2)|lung(1)	3						TGGGGCTGGGCGGCCTTCTCC	0.647													29	17	---	---	---	---	PASS	T	30166457	T	T	30166457	3	4	79	1	0	0	0	0	1	0	0	0	16497	768	27	1	1223	1	TRIM26	6	30166457	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2326519	30166457	140948610	128	30063										
KCNK17	89822	broad.mit.edu	37	chr6	39272395	39272395	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	caaagaagatgcagaagaggCgggcagccatcgtgttgggg	17	7	0	4	rs142227833		TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:39272395C>A	uc003ooo.2	-	3	529	c.389G>T	c.(388-390)CGC>CTC	p.R130L	KCNK17_uc003oop.2_Missense_Mutation_p.R130L	NM_031460	NP_113648	Q96T54	KCNKH_HUMAN	potassium channel, subfamily K, member 17	130	Helical; (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2						GCAGAAGAGGCGGGCAGCCAT	0.612													64	200	---	---	---	---	PASS	A	39272395	A	A	39272395	3	1	79	1	0	0	0	0	1	0	0	0	8064	768	27	1	753	1	KCNK17	6	39272395	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	9105938	39272395	131842672	129	30064										
APOBEC2	10930	broad.mit.edu	37	chr6	41029512	41029512	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atgtctggcagaattttgtgGagcaagaagagggtgaatcc	14	5	1	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:41029512G>T	uc003opl.2	+	2	724	c.577G>T	c.(577-579)GAG>TAG	p.E193*	UNC5CL_uc010jxe.1_Intron|APOBEC2_uc010jxf.2_RNA	NM_006789	NP_006780	Q9Y235	ABEC2_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	193					DNA demethylation|mRNA processing		cytidine deaminase activity|RNA binding|zinc ion binding				0	Ovarian(28;0.0418)|Colorectal(47;0.196)					GAATTTTGTGGAGCAAGAAGA	0.522													14	277	---	---	---	---	PASS	T	41029512	T	T	41029512	4	4	79	1	0	0	0	0	0	1	0	0	788	1175	41	2	583	2	APOBEC2	6	41029512	Nonsense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1757117	41029512	130085555	130	30065										
KIAA0240	23506	broad.mit.edu	37	chr6	42821415	42821415	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agttatatccgcatccttagGaaccgcacaaccacagcagg	8	13	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:42821415G>C	uc003osn.1	+	8	2136	c.1985G>C	c.(1984-1986)GGA>GCA	p.G662A	KIAA0240_uc011duw.1_Missense_Mutation_p.G662A|KIAA0240_uc003osp.1_Missense_Mutation_p.G662A	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	662										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			GCATCCTTAGGAACCGCACAA	0.428													60	139	---	---	---	---	PASS	C	42821415	C	C	42821415	3	2	79	1	0	0	0	0	1	0	0	0	8164	1174	41	2	2007	2	KIAA0240	6	42821415	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1791903	42821415	128293652	131	30066										
TINAG	27283	broad.mit.edu	37	chr6	54173458	54173458	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cctagaggcttatttcactaGgaatcacaccgttttgcaag	8	10	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:54173458G>A	uc003pcj.2	+	1	256	c.110G>A	c.(109-111)AGG>AAG	p.R37K	TINAG_uc003pci.2_Missense_Mutation_p.R37K|TINAG_uc010jzt.2_RNA	NM_014464	NP_055279	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	37					cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			TATTTCACTAGGAATCACACC	0.388													82	226	---	---	---	---	PASS	A	54173458	A	A	54173458	3	1	79	1	0	0	0	0	1	0	0	0	15918	1000	35	3	112	3	TINAG	6	54173458	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	11352043	54173458	116941609	132	30067										
GFRAL	389400	broad.mit.edu	37	chr6	55264052	55264052	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	caaacaaaatcactttaactGgatttcattcccccttcaat	2	12	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:55264052G>T	uc003pcm.1	+	7	1113	c.1027G>T	c.(1027-1029)GGA>TGA	p.G343*		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	343	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			CACTTTAACTGGATTTCATTC	0.289													13	25	---	---	---	---	PASS	T	55264052	T	T	55264052	4	4	79	1	0	0	0	0	0	1	0	0	6351	1349	47	3	1053	3	GFRAL	6	55264052	Nonsense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1090594	55264052	115851015	133	30068										
TTK	7272	broad.mit.edu	37	chr6	80744784	80744784	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agcagataaccaaactcttgAtagttaccggaacgaaatag	8	8	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:80744784A>G	uc003pjc.2	+	15	1771	c.1697A>G	c.(1696-1698)GAT>GGT	p.D566G	TTK_uc003pjb.3_Missense_Mutation_p.D565G	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	566	Protein kinase.				mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		CAAACTCTTGATAGTTACCGG	0.289													36	124	---	---	---	---	PASS	G	80744784	G	G	80744784	3	3	79	1	0	0	0	0	1	0	0	0	16717	333	12	5	1751	5	TTK	6	80744784	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	25480732	80744784	90370283	134	30069										
CNR1	1268	broad.mit.edu	37	chr6	88853833	88853833	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gggttcacggtggagttcagCaggcagagcatactgcagaa	15	8	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:88853833C>T	uc011dzq.1	-	2	4724	c.1161G>A	c.(1159-1161)CTG>CTA	p.L387L	CNR1_uc010kbz.2_Silent_p.L387L|CNR1_uc011dzr.1_Silent_p.L387L|CNR1_uc011dzs.1_Silent_p.L387L|CNR1_uc003pmq.3_Silent_p.L387L|CNR1_uc011dzt.1_Silent_p.L387L|CNR1_uc010kca.2_Silent_p.L354L	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	387	Helical; Name=7; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	TGGAGTTCAGCAGGCAGAGCA	0.522													50	190	---	---	---	---	PASS	T	88853833	T	T	88853833	2	4	79	1	0	0	0	0	0	0	0	1	3631	697	25	3		3	CNR1	6	88853833	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	8109049	88853833	82261234	135	30070										
MDN1	23195	broad.mit.edu	37	chr6	90450019	90450019	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgaaattttttcccagcagtCaacagctctatttcactatc	4	12	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:90450019C>T	uc003pnn.1	-	32	4643	c.4527G>A	c.(4525-4527)TTG>TTA	p.L1509L		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1509					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)		TCCCAGCAGTCAACAGCTCTA	0.388													57	222	---	---	---	---	PASS	T	90450019	T	T	90450019	2	4	79	1	0	0	0	0	0	0	0	1	9415	825	29	2		2	MDN1	6	90450019	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	1596186	90450019	80665048	136	30071										
ZBTB24	9841	broad.mit.edu	37	chr6	109797403	109797403	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgaactcggtaatggctcttTagctgtctgttctggctgaa	11	8	3	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:109797403T>C	uc003ptl.1	-	4	1347	c.1179A>G	c.(1177-1179)CTA>CTG	p.L393L	ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Silent_p.L337L|ZBTB24_uc010kdt.1_RNA	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	393	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		AATGGCTCTTTAGCTGTCTGT	0.348													79	248	---	---	---	---	PASS	C	109797403	C	C	109797403	2	2	79	1	0	0	0	0	0	0	0	1	17528	1741	61	5		5	ZBTB24	6	109797403	Silent	SNP	T	TCGA-37-4135-01A-01D-1352-08	19347384	109797403	61317664	137	30072										
STXBP5	134957	broad.mit.edu	37	chr6	147581765	147581765	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttgcagggttacattttgccAtctgcctttccagagtaagt	9	9	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:147581765A>T	uc003qlz.2	+	5	607	c.446A>T	c.(445-447)CAT>CTT	p.H149L	STXBP5_uc010khz.1_Missense_Mutation_p.H149L|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_5'UTR	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	149	WD 3.				exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		ACATTTTGCCATCTGCCTTTC	0.358													165	102	---	---	---	---	PASS	T	147581765	T	T	147581765	3	4	79	1	0	0	0	0	1	0	0	0	15355	217	8	5	464	5	STXBP5	6	147581765	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	37784362	147581765	23533302	138	30073										
ULBP1	80329	broad.mit.edu	37	chr6	150289920	150289920	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	caatgtcacaaaaacctgggAagaacaaactgaaacactaa	6	9	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:150289920A>T	uc003qnp.2	+	2	306	c.263A>T	c.(262-264)GAA>GTA	p.E88V		NM_025218	NP_079494	Q9BZM6	N2DL1_HUMAN	UL16 binding protein 1 precursor	88	MHC class I alpha-1 like.				antigen processing and presentation|immune response|natural killer cell activation|regulation of immune response	anchored to membrane|endoplasmic reticulum|MHC class I protein complex	MHC class I receptor activity			pancreas(1)	1		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.14e-11)		AAAACCTGGGAAGAACAAACT	0.413													194	339	---	---	---	---	PASS	T	150289920	T	T	150289920	3	4	79	1	0	0	0	0	1	0	0	0	16969	246	9	5	269	5	ULBP1	6	150289920	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	2708155	150289920	20825147	139	30074										
VIP	7432	broad.mit.edu	37	chr6	153076434	153076434	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	catgctgatggagttttcacCagtgacttcagtaaactctt	8	9	3	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:153076434C>A	uc003qpe.2	+	4	433	c.261C>A	c.(259-261)ACC>ACA	p.T87T	VIP_uc003qpf.2_Silent_p.T87T|VIP_uc010kjd.2_Silent_p.T87T	NM_003381	NP_003372	P01282	VIP_HUMAN	vasoactive intestinal peptide isoform 1	87					body fluid secretion|G-protein coupled receptor protein signaling pathway|positive regulation of cell proliferation	extracellular region	neuropeptide hormone activity				0		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;4.5e-11)|BRCA - Breast invasive adenocarcinoma(81;0.144)		GAGTTTTCACCAGTGACTTCA	0.318													89	179	---	---	---	---	PASS	A	153076434	A	A	153076434	2	1	79	1	0	0	0	0	0	0	0	1	17164	581	21	3		3	VIP	6	153076434	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	2786514	153076434	18038633	140	30075										
SOD2	6648	broad.mit.edu	37	chr6	160105988	160105988	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccaacctgagccttggacacCaacagatgcagccgtcagct	9	15	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:160105988C>A	uc003qsg.2	-	4	575	c.421G>T	c.(421-423)GGT>TGT	p.G141C	SOD2_uc003qsh.2_Missense_Mutation_p.G102C|SOD2_uc003qsi.1_Missense_Mutation_p.G141C|SOD2_uc011efu.1_Intron|SOD2_uc011efv.1_Missense_Mutation_p.G102C	NM_001024465	NP_001019636	P04179	SODM_HUMAN	manganese superoxide dismutase isoform A	141					age-dependent response to reactive oxygen species|negative regulation of neuron apoptosis|oxygen homeostasis|protein homotetramerization|regulation of transcription from RNA polymerase II promoter|release of cytochrome c from mitochondria|removal of superoxide radicals|vasodilation by acetylcholine involved in regulation of systemic arterial blood pressure		manganese ion binding|superoxide dismutase activity				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.103)		OV - Ovarian serous cystadenocarcinoma(65;1.4e-18)|BRCA - Breast invasive adenocarcinoma(81;5.77e-06)		CCTTGGACACCAACAGATGCA	0.453													6	426	---	---	---	---	PASS	A	160105988	A	A	160105988	3	1	79	1	0	0	0	0	1	0	0	0	14921	594	21	3	255	3	SOD2	6	160105988	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	7029554	160105988	11009079	141	30076										
PACRG	135138	broad.mit.edu	37	chr6	163510295	163510295	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttcttttaccatatagatgcCttgaacctccgaaaccgaca	5	12	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:163510295C>T	uc003qua.2	+	5	692	c.468C>T	c.(466-468)GCC>GCT	p.A156A	PACRG_uc003qub.2_Silent_p.A156A|PACRG_uc003quc.2_Silent_p.A156A	NM_152410	NP_689623	Q96M98	PACRG_HUMAN	parkin co-regulated gene protein isoform 1	156											0		Breast(66;2.41e-05)|Ovarian(120;0.0245)|Prostate(117;0.0273)|all_neural(5;0.0416)|Glioma(2;0.203)		OV - Ovarian serous cystadenocarcinoma(33;4.31e-19)|GBM - Glioblastoma multiforme(2;7.42e-11)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)|KIRC - Kidney renal clear cell carcinoma(3;0.205)|Kidney(3;0.242)		ATATAGATGCCTTGAACCTCC	0.433													248	297	---	---	---	---	PASS	T	163510295	T	T	163510295	2	4	79	1	0	0	0	0	0	0	0	1	11370	668	24	3		3	PACRG	6	163510295	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	3404307	163510295	7604772	142	30077										
T	6862	broad.mit.edu	37	chr6	166580194	166580194	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tggatgtagacgcagctgggCgcctgcggctccggcttgcc	16	13	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:166580194C>T	uc003quu.1	-	3	850	c.357G>A	c.(355-357)GCG>GCA	p.A119A	T_uc003qut.1_Silent_p.A119A|T_uc003quv.1_Silent_p.A119A	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	119	T-box.				anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		CGCAGCTGGGCGCCTGCGGCT	0.637									Chordoma_Familial_Clustering_of				33	84	---	---	---	---	PASS	T	166580194	T	T	166580194	2	4	79	1	0	0	0	0	0	0	0	1	15485	755	27	1		1	T	6	166580194	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	3069899	166580194	4534873	143	30078										
GPR31	2853	broad.mit.edu	37	chr6	167570777	167570777	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aggacaaactgaaggcaggaGagtgcttcctgccagatgat	13	8	0	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr6:167570777G>C	uc011egq.1	-	1	543	c.543C>G	c.(541-543)CTC>CTG	p.L181L		NM_005299	NP_005290	O00270	GPR31_HUMAN	G protein-coupled receptor 31	181	Helical; Name=5; (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;4.81e-20)|BRCA - Breast invasive adenocarcinoma(81;4.45e-06)|GBM - Glioblastoma multiforme(31;0.00492)		GAAGGCAGGAGAGTGCTTCCT	0.577													285	320	---	---	---	---	PASS	C	167570777	C	C	167570777	2	2	79	1	0	0	0	0	0	0	0	1	6687	929	33	2		2	GPR31	6	167570777	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	990583	167570777	3544290	144	30079										
IQCE	23288	broad.mit.edu	37	chr7	2617950	2617950	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctggaggaggaaaacagcagGaaggaccggcagatagagca	16	7	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:2617950G>T	uc003smo.3	+	7	724	c.540G>T	c.(538-540)AGG>AGT	p.R180S	IQCE_uc010ksm.1_Missense_Mutation_p.R180S|IQCE_uc003sml.1_Missense_Mutation_p.R180S|IQCE_uc011jvy.1_Missense_Mutation_p.R164S|IQCE_uc011jvz.1_Missense_Mutation_p.R115S|IQCE_uc003smk.3_Missense_Mutation_p.R164S|IQCE_uc003smn.3_Missense_Mutation_p.R115S	NM_152558	NP_689771	Q6IPM2	IQCE_HUMAN	IQ motif containing E isoform 1	180	Potential.										0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.23e-13)		AAAACAGCAGGAAGGACCGGC	0.617													27	143	---	---	---	---	PASS	T	2617950	T	T	2617950	3	4	79	1	0	0	0	0	1	0	0	0	7806	1165	41	2	566	2	IQCE	7	2617950	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08		2617950	156520713	145	30080										
RADIL	55698	broad.mit.edu	37	chr7	4856057	4856057	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acggcgctccgtctggaatgGcgggcactccaggagtgccg	16	13	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:4856057G>T	uc003snj.1	-	8	1941	c.1768C>A	c.(1768-1770)CCA>ACA	p.P590T	RADIL_uc003sng.1_RNA|RADIL_uc003sni.1_Missense_Mutation_p.P95T|RADIL_uc011jwc.1_Missense_Mutation_p.P350T|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	590	Dilute.				cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		GTCTGGAATGGCGGGCACTCC	0.682													15	8	---	---	---	---	PASS	T	4856057	T	T	4856057	3	4	79	1	0	0	0	0	1	0	0	0	12997	1203	42	3	1491	3	RADIL	7	4856057	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	2238107	4856057	154282606	146	30081										
ZNRF2	223082	broad.mit.edu	37	chr7	30363339	30363339	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aatgtgtttaacaaagccacGaataacctataatggtaagt	7	6	0	0	rs142290977		TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:30363339G>T	uc003tat.2	+	2	1602	c.551G>T	c.(550-552)CGA>CTA	p.R184L		NM_147128	NP_667339	Q8NHG8	ZNRF2_HUMAN	zinc finger/RING finger 2	184						cell junction|endosome membrane|lysosomal membrane|presynaptic membrane	ligase activity|zinc ion binding				0						ACAAAGCCACGAATAACCTAT	0.269													58	19	---	---	---	---	PASS	T	30363339	T	T	30363339	3	4	79	1	0	0	0	0	1	0	0	0	18209	1058	37	2	557	2	ZNRF2	7	30363339	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	25507282	30363339	128775324	147	30082										
CRCP	27297	broad.mit.edu	37	chr7	65599298	65599298	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	catatcaaaaacaccatgcaGgcaccagagtcctgaaattg	7	11	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:65599298G>A	uc003tus.2	+	4	321	c.176G>A	c.(175-177)AGG>AAG	p.R59K	CRCP_uc003tuv.2_RNA|CRCP_uc011kdw.1_Missense_Mutation_p.R52K|CRCP_uc003tut.2_Missense_Mutation_p.R26K|CRCP_uc003tuu.2_Intron	NM_014478	NP_055293	O75575	RPC9_HUMAN	calcitonin gene-related peptide-receptor	59					acrosome reaction|innate immune response|response to virus|transcription from RNA polymerase III promoter	DNA polymerase III complex|nucleus|plasma membrane	calcitonin receptor activity|DNA-directed RNA polymerase activity|nucleotide binding				0						ACACCATGCAGGCACCAGAGT	0.358													100	349	---	---	---	---	PASS	A	65599298	A	A	65599298	3	1	79	1	0	0	0	0	1	0	0	0	3852	1000	35	3	280	3	CRCP	7	65599298	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	35235959	65599298	93539365	148	30083										
CALN1	83698	broad.mit.edu	37	chr7	71488709	71488709	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cttctgaagacaccagtttgGggccaagaatggtcatgaat	11	8	2	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:71488709G>T	uc003twa.3	-	4	835	c.308C>A	c.(307-309)CCC>CAC	p.P103H	CALN1_uc003twb.3_Missense_Mutation_p.P145H|CALN1_uc003twc.3_Missense_Mutation_p.P103H	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2	103	EF-hand 2.|Cytoplasmic (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				CACCAGTTTGGGGCCAAGAAT	0.428													186	78	---	---	---	---	PASS	T	71488709	T	T	71488709	3	4	79	1	0	0	0	0	1	0	0	0	2591	1232	43	3	363	3	CALN1	7	71488709	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	5889411	71488709	87649954	149	30084										
COL1A2	1278	broad.mit.edu	37	chr7	94053664	94053664	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttagggacctcctggcactcCaggtcctcagggtcttcttg	11	13	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:94053664C>T	uc003ung.1	+	41	3053	c.2582C>T	c.(2581-2583)CCA>CTA	p.P861L	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_RNA	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	861					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CCTGGCACTCCAGGTCCTCAG	0.498										HNSCC(75;0.22)			258	135	---	---	---	---	PASS	T	94053664	T	T	94053664	3	4	79	1	0	0	0	0	1	0	0	0	3678	594	21	3	2744	3	COL1A2	7	94053664	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	22564955	94053664	65084999	150	30085										
MUC17	140453	broad.mit.edu	37	chr7	100686302	100686302	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctaccatacgtatttcaattAccagtgaaagaagcactcca	5	11	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:100686302A>T	uc003uxp.1	+	3	11658	c.11605A>T	c.(11605-11607)ACC>TCC	p.T3869S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3869	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TATTTCAATTACCAGTGAAAG	0.483													73	307	---	---	---	---	PASS	T	100686302	T	T	100686302	3	4	79	1	0	0	0	0	1	0	0	0	9974	391	14	5	11615	5	MUC17	7	100686302	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	6632638	100686302	58452361	151	30086										
RELN	5649	broad.mit.edu	37	chr7	103270438	103270438	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gaacatttccaaggtagaatCccagagactgagtgacctcc	9	11	0	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:103270438C>G	uc003vca.2	-	20	2811	c.2651G>C	c.(2650-2652)GGA>GCA	p.G884A	RELN_uc010liz.2_Missense_Mutation_p.G884A	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	884					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		AAGGTAGAATCCCAGAGACTG	0.403													205	101	---	---	---	---	PASS	G	103270438	G	G	103270438	3	3	79	1	0	0	0	0	1	0	0	0	13220	855	30	2	7915	2	RELN	7	103270438	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2584136	103270438	55868225	152	30087										
PLXNA4	91584	broad.mit.edu	37	chr7	131831444	131831444	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggctgtcggggctgcccgtgTaccggatcatgttttctgcc	14	12	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:131831444T>A	uc003vra.3	-	28	5109	c.4880A>T	c.(4879-4881)TAC>TTC	p.Y1627F	PLXNA4_uc003vqz.3_5'Flank	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1627	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GCTGCCCGTGTACCGGATCAT	0.577													73	263	---	---	---	---	PASS	A	131831444	A	A	131831444	3	1	79	1	0	0	0	0	1	0	0	0	12122	1638	57	5	824	5	PLXNA4	7	131831444	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	28561006	131831444	27307219	153	30088										
CHRM2	1129	broad.mit.edu	37	chr7	136700215	136700215	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttctatttgccagtgatcatCatgactgtgctatattggca	8	8	3	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:136700215C>G	uc003vtf.1	+	4	1226	c.603C>G	c.(601-603)ATC>ATG	p.I201M	CHRM2_uc003vtg.1_Missense_Mutation_p.I201M|CHRM2_uc003vtj.1_Missense_Mutation_p.I201M|CHRM2_uc003vtk.1_Missense_Mutation_p.I201M|CHRM2_uc003vtl.1_Missense_Mutation_p.I201M|CHRM2_uc003vtm.1_Missense_Mutation_p.I201M|CHRM2_uc003vti.1_Missense_Mutation_p.I201M|CHRM2_uc003vto.1_Missense_Mutation_p.I201M|CHRM2_uc003vtn.1_Missense_Mutation_p.I201M|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	201	Helical; Name=5; (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	CAGTGATCATCATGACTGTGC	0.483													41	149	---	---	---	---	PASS	G	136700215	G	G	136700215	3	3	79	1	0	0	0	0	1	0	0	0	3377	816	29	2	605	2	CHRM2	7	136700215	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	4868771	136700215	22438448	154	30089										
KIAA1549	57670	broad.mit.edu	37	chr7	138522834	138522834	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttcccggaaggagctgagggCtccctgcctgaagtccttgg	14	12	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:138522834C>T	uc011kql.1	-	20	5719	c.5670G>A	c.(5668-5670)GAG>GAA	p.E1890E	KIAA1549_uc011kqi.1_Silent_p.E658E|KIAA1549_uc003vuk.3_Silent_p.E1824E|KIAA1549_uc011kqj.1_Silent_p.E1874E|KIAA1549_uc011kqk.1_Silent_p.E674E	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1890						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GAGCTGAGGGCTCCCTGCCTG	0.587			O	BRAF	pilocytic astrocytoma								16	6	---	---	---	---	PASS	T	138522834	T	T	138522834	2	4	79	1	0	0	0	0	0	0	0	1	8244	796	28	3		3	KIAA1549	7	138522834	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	1822619	138522834	20615829	155	30090										
EPHA1	2041	broad.mit.edu	37	chr7	143096796	143096796	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tagccaggctcacagtggcaCcgtcctacaggcaccagcca	10	16	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:143096796C>T	uc003wcz.2	-	4	870	c.783G>A	c.(781-783)CGG>CGA	p.R261R		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	261	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				CACAGTGGCACCGTCCTACAG	0.657													17	55	---	---	---	---	PASS	T	143096796	T	T	143096796	2	4	79	1	0	0	0	0	0	0	0	1	5165	494	18	3		3	EPHA1	7	143096796	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	4573962	143096796	16041867	156	30091										
OR2A14	135941	broad.mit.edu	37	chr7	143826379	143826379	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgtaagcttcacacacccatGtacttcttcctctcacacct	3	16	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:143826379G>C	uc011kua.1	+	1	174	c.174G>C	c.(172-174)ATG>ATC	p.M58I		NM_001001659	NP_001001659	Q96R47	O2A14_HUMAN	olfactory receptor, family 2, subfamily A,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					ACACACCCATGTACTTCTTCC	0.478													471	227	---	---	---	---	PASS	C	143826379	C	C	143826379	3	2	79	1	0	0	0	0	1	0	0	0	10976	1377	48	4	176	4	OR2A14	7	143826379	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	729583	143826379	15312284	157	30092										
GIMAP4	55303	broad.mit.edu	37	chr7	150269350	150269350	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tctggcactgcagcaaaatcCattaccaagaagtgtgagaa	9	9	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr7:150269350C>T	uc003whl.2	+	3	274	c.192C>T	c.(190-192)TCC>TCT	p.S64S	GIMAP4_uc011kuu.1_5'UTR|GIMAP4_uc011kuv.1_Silent_p.S78S	NM_018326	NP_060796	Q9NUV9	GIMA4_HUMAN	GTPase, IMAP family member 4	64							GTP binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0179)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CAGCAAAATCCATTACCAAGA	0.473													30	11	---	---	---	---	PASS	T	150269350	T	T	150269350	2	4	79	1	0	0	0	0	0	0	0	1	6381	581	21	3		3	GIMAP4	7	150269350	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	6442971	150269350	8869313	158	30093										
SPAG11A	653423	broad.mit.edu	37	chr8	7721034	7721034	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgggaacagggacaggccagCagcacagacaacgctgtgga	15	10	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr8:7721034C>T	uc003wsa.2	+	3	393	c.358C>T	c.(358-360)CAG>TAG	p.Q120*	SPAG11A_uc003wrz.2_Nonsense_Mutation_p.Q102*|SPAG11A_uc003wsb.2_RNA	NM_058202	NP_478109	Q6PDA7	SG11A_HUMAN	sperm associated antigen 11B isoform H	Error:Variant_position_missing_in_Q6PDA7_after_alignment						extracellular region					0				COAD - Colon adenocarcinoma(149;0.0162)|READ - Rectum adenocarcinoma(644;0.236)		GACAGGCCAGCAGCACAGACA	0.527													23	156	---	---	---	---	PASS	T	7721034	T	T	7721034	4	4	79	1	0	0	0	0	0	1	0	0	14976	711	25	3	318	3	SPAG11A	8	7721034	Nonsense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08		7721034	138642988	159	30094										
HR	55806	broad.mit.edu	37	chr8	21978727	21978727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gtcctctgctggggtctcagCggaatcgggggtctctgtca	15	11	4	0	rs139027208		TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr8:21978727C>A	uc003xas.2	-	10	2883	c.2218G>T	c.(2218-2220)GCT>TCT	p.A740S	HR_uc003xat.2_Missense_Mutation_p.A740S	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	740							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		GGGGTCTCAGCGGAATCGGGG	0.642													80	140	---	---	---	---	PASS	A	21978727	A	A	21978727	3	1	79	1	0	0	0	0	1	0	0	0	7347	768	27	1	1391	1	HR	8	21978727	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	14257693	21978727	124385295	160	30095										
DCTN6	10671	broad.mit.edu	37	chr8	30040645	30040645	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tcttgccaaattaccaccacCtaaagaagactatgaaagga	6	10	1	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr8:30040645C>T	uc003xhy.2	+	7	616	c.529C>T	c.(529-531)CTA>TTA	p.L177L		NM_006571	NP_006562	O00399	DCTN6_HUMAN	dynactin 6	177						centrosome	transferase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.099)|Kidney(114;0.119)		TTACCACCACCTAAAGAAGAC	0.378													62	25	---	---	---	---	PASS	T	30040645	T	T	30040645	2	4	79	1	0	0	0	0	0	0	0	1	4311	680	24	3		3	DCTN6	8	30040645	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	8061918	30040645	116323377	161	30096										
EYA1	2138	broad.mit.edu	37	chr8	72211919	72211919	+	Frame_Shift_Del	DEL	C	-	-													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aatttgtgagtgaattatttCctgtatatattcctgatgat							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr8:72211919delC	uc003xys.3	-	7	880	c.593delG	c.(592-594)GGAfs	p.G198fs	EYA1_uc003xyr.3_Frame_Shift_Del_p.G193fs|EYA1_uc003xyt.3_Frame_Shift_Del_p.G165fs|EYA1_uc010lzf.2_Frame_Shift_Del_p.G125fs|EYA1_uc003xyu.2_Frame_Shift_Del_p.G198fs|EYA1_uc011lfe.1_Frame_Shift_Del_p.G192fs|EYA1_uc003xyv.2_Frame_Shift_Del_p.G76fs	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	198					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			TGAATTATTTCCTGTATATAT	0.308													38	115	---	---	---	---		-	72211919	-	-	72211919	7	5	79	1	0	1	0	1	0	0	0	0	5328	855	30	0	1229	0	EYA1	8	72211919	Frame_Shift_Del	DEL	C	TCGA-37-4135-01A-01D-1352-08	42171274	72211919	74152103	162	30097										
ZFHX4	79776	broad.mit.edu	37	chr8	77763722	77763722	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgaaccaaagcggaccttacCttttagaaaagggcccaatt	8	10	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr8:77763722C>A	uc003yav.2	+	10	4817	c.4430C>A	c.(4429-4431)CCT>CAT	p.P1477H	ZFHX4_uc003yau.1_Missense_Mutation_p.P1522H|ZFHX4_uc003yaw.1_Missense_Mutation_p.P1477H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1477						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CGGACCTTACCTTTTAGAAAA	0.423										HNSCC(33;0.089)			36	9	---	---	---	---	PASS	A	77763722	A	A	77763722	3	1	79	1	0	0	0	0	1	0	0	0	17632	681	24	3	4599	3	ZFHX4	8	77763722	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	5551803	77763722	68600300	163	30098										
PEX2	5828	broad.mit.edu	37	chr8	77895774	77895774	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acagcttggctttcaacttcTggacattgataagtggtaag	10	7	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr8:77895774T>A	uc003yax.2	-	4	1099	c.641A>T	c.(640-642)CAG>CTG	p.Q214L	PEX2_uc003yay.2_Missense_Mutation_p.Q214L|PEX2_uc003yaz.2_Missense_Mutation_p.Q214L	NM_000318	NP_000309	P28328	PEX2_HUMAN	peroxin 2	214					peroxisome organization	integral to peroxisomal membrane	protein binding|zinc ion binding			ovary(1)	1						TTTCAACTTCTGGACATTGAT	0.398													172	25	---	---	---	---	PASS	A	77895774	A	A	77895774	3	1	79	1	0	0	0	0	1	0	0	0	11745	1580	55	5	280	5	PEX2	8	77895774	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	132052	77895774	68468248	164	30099										
CNGB3	54714	broad.mit.edu	37	chr8	87588148	87588163	+	Frame_Shift_Del	DEL	TTCTAACTGAGTGGGG	-	-													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccctctgggtaaaactgtccTtctaactgagtggggttctt					rs78239264		TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr8:87588148_87588163delTTCTAACTGAGTGGGG	uc003ydx.2	-	18	2345_2360	c.2299_2314delCCCCACTCAGTTAGAA	c.(2299-2316)CCCCACTCAGTTAGAAGGfs	p.P767fs	CNGB3_uc010maj.2_Frame_Shift_Del_p.P624fs	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	767_772	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						AAAACTGTCCTTCTAACTGAGTGGGGTTCTTCCTCC	0.426													88	89	---	---	---	---		-	87588163	-	-	87588148	7	5	79	1	0	1	0	1	0	0	0	0	3601	1608	56	0	119	0	CNGB3	8	87588148	Frame_Shift_Del	DEL	TTCTAACTGAGTGGGG	TCGA-37-4135-01A-01D-1352-08	9692374	87588148	58775874	165	30100										
CNGB3	54714	broad.mit.edu	37	chr8	87588225	87588225	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgtccagtggcttctcttctGgctctcttcctttatcttta	6	12	4	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr8:87588225G>T	uc003ydx.2	-	18	2283	c.2237C>A	c.(2236-2238)CCA>CAA	p.P746Q	CNGB3_uc010maj.2_Missense_Mutation_p.P603Q	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	746	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						CTTCTCTTCTGGCTCTCTTCC	0.284													95	38	---	---	---	---	PASS	T	87588225	T	T	87588225	3	4	79	1	0	0	0	0	1	0	0	0	3601	1348	47	3	196	3	CNGB3	8	87588225	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	77	87588225	58775797	166	30101										
CCNE2	9134	broad.mit.edu	37	chr8	95897363	95897363	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tttaggagcatctttaagagCatcaacttggagaaagagat	10	5	2	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr8:95897363C>A	uc003yhc.2	-	9	872	c.763G>T	c.(763-765)GCT>TCT	p.A255S	CCNE2_uc003yhd.2_Missense_Mutation_p.A255S	NM_057749	NP_477097	O96020	CCNE2_HUMAN	cyclin E2	255					cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	cytosol|nucleoplasm	protein kinase binding				0	Breast(36;8.75e-07)					TCTTTAAGAGCATCAACTTGG	0.333													4	140	---	---	---	---	PASS	A	95897363	A	A	95897363	3	1	79	1	0	0	0	0	1	0	0	0	2921	710	25	3	467	3	CCNE2	8	95897363	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	8309138	95897363	50466659	167	30102										
EPPK1	83481	broad.mit.edu	37	chr8	144941086	144941086	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttctggcctctgaaccttccCactgtgatttccacttgctc	6	15	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr8:144941086C>T	uc003zaa.1	-	1	6349	c.6336G>A	c.(6334-6336)GTG>GTA	p.V2112V		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	2112						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TGAACCTTCCCACTGTGATTT	0.547													153	404	---	---	---	---	PASS	T	144941086	T	T	144941086	2	4	79	1	0	0	0	0	0	0	0	1	5190	581	21	3		3	EPPK1	8	144941086	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	49043723	144941086	1422936	168	30103										
OPLAH	26873	broad.mit.edu	37	chr8	145108014	145108014	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggcacgcaacatgtctcgcaCggccagctcagcgtttgcct	11	15	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr8:145108014C>T	uc003zar.3	-	21	2972	c.2890G>A	c.(2890-2892)GTG>ATG	p.V964M		NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	964							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	ATGTCTCGCACGGCCAGCTCA	0.682													3	13	---	---	---	---	PASS	T	145108014	T	T	145108014	3	4	79	1	0	0	0	0	1	0	0	0	10876	536	19	1	1006	1	OPLAH	8	145108014	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	166928	145108014	1256008	169	30104										
DMRT3	58524	broad.mit.edu	37	chr9	990075	990075	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgacttggagacggcaagtcGgcagacaatacagaggtctt	13	9	1	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr9:990075G>C	uc003zgw.1	+	2	527	c.489G>C	c.(487-489)TCG>TCC	p.S163S		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	163					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		ACGGCAAGTCGGCAGACAATA	0.493													131	9	---	---	---	---	PASS	C	990075	C	C	990075	2	2	79	1	0	0	0	0	0	0	0	1	4587	1103	39	4		4	DMRT3	9	990075	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08		990075	140223356	170	30105										
FREM1	158326	broad.mit.edu	37	chr9	14842532	14842532	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgttgatggggaatttgtgaCggatgctgtgatggccatca	15	6	1	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr9:14842532C>T	uc003zlm.2	-	9	2110	c.1520G>A	c.(1519-1521)CGT>CAT	p.R507H	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	507	CSPG 3.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GAATTTGTGACGGATGCTGTG	0.507													144	21	---	---	---	---	PASS	T	14842532	T	T	14842532	3	4	79	1	0	0	0	0	1	0	0	0	6044	536	19	1	5185	1	FREM1	9	14842532	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	13852457	14842532	126370899	171	30106										
CDKN2A	1029	broad.mit.edu	37	chr9	21971199	21971199	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gccactcgggcgctgcccatCatcatgacctgccagagaga	11	15	2	3	rs104894095		TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr9:21971199C>G	uc003zpk.2	-	2	371	c.159G>C	c.(157-159)ATG>ATC	p.M53I	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.D109H	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	53	ANK 2.		M -> I (in CMM2).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(14)|p.M53_R58del(3)|p.M53*(1)|p.V28_V51del(1)|p.M53T(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CGCTGCCCATCATCATGACCT	0.677		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			9	2	---	---	---	---	PASS	G	21971199	G	G	21971199	3	3	79	1	0	0	0	0	1	0	0	0	3161	826	29	2	319	2	CDKN2A	9	21971199	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	7128667	21971199	119242232	172	30107										
AUH	549	broad.mit.edu	37	chr9	93979600	93979600	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	taattttgccactctcattgCaacaggtccctaaaattcaa	4	11	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr9:93979600C>A	uc004arf.3	-	8	888	c.853G>T	c.(853-855)GCA>TCA	p.A285S	AUH_uc004arg.3_Missense_Mutation_p.A256S	NM_001698	NP_001689	Q13825	AUHM_HUMAN	AU RNA binding protein/enoyl-Coenzyme A	285					branched chain family amino acid catabolic process|mRNA catabolic process	mitochondrial matrix	enoyl-CoA hydratase activity|methylglutaconyl-CoA hydratase activity|mRNA 3'-UTR binding				0						ACTCTCATTGCAACAGGTCCC	0.333													67	12	---	---	---	---	PASS	A	93979600	A	A	93979600	3	1	79	1	0	0	0	0	1	0	0	0	1219	710	25	3	178	3	AUH	9	93979600	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	72008401	93979600	47233831	173	30108										
DBC1	1620	broad.mit.edu	37	chr9	121971069	121971069	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgaaaagcttgcgggcagtgCgttggatcttttgtctctgt	13	8	2	0	rs17476783	byFrequency	TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr9:121971069C>G	uc004bkc.2	-	7	1529	c.1073G>C	c.(1072-1074)CGC>CCC	p.R358P		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	358					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GCGGGCAGTGCGTTGGATCTT	0.577													77	12	---	---	---	---	PASS	G	121971069	G	G	121971069	3	3	79	1	0	0	0	0	1	0	0	0	4247	768	27	4	1220	4	DBC1	9	121971069	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	27991469	121971069	19242362	174	30109										
LRSAM1	90678	broad.mit.edu	37	chr9	130258289	130258289	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggccctcctggaggagctgtCggctgagcactacctgccca	13	15	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr9:130258289C>A	uc004brb.1	+	23	2090	c.1745C>A	c.(1744-1746)TCG>TAG	p.S582*	LRSAM1_uc010mxk.1_Nonsense_Mutation_p.S555*|LRSAM1_uc004brc.1_Nonsense_Mutation_p.S582*|LRSAM1_uc004brd.1_Nonsense_Mutation_p.S582*|LRSAM1_uc004bre.1_Nonsense_Mutation_p.S162*|uc004brf.1_5'Flank|LRSAM1_uc004brg.1_Nonsense_Mutation_p.S13*	NM_001005373	NP_001005373	Q6UWE0	LRSM1_HUMAN	leucine rich repeat and sterile alpha motif	582	SAM.				negative regulation of endocytosis|non-lytic virus budding|protein autoubiquitination|protein catabolic process|protein polyubiquitination|protein transport|ubiquitin-dependent endocytosis	cytoplasm|extracellular region|membrane part	hormone activity|ubiquitin-protein ligase activity|zinc ion binding				0						GAGGAGCTGTCGGCTGAGCAC	0.607													35	4	---	---	---	---	PASS	A	130258289	A	A	130258289	4	1	79	1	0	0	0	0	0	1	0	0	9043	893	31	2	1827	2	LRSAM1	9	130258289	Nonsense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	8287220	130258289	10955142	175	30110										
FUBP3	8939	broad.mit.edu	37	chr9	133507353	133507353	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tttcctccaaggagctccggGtgcttcccaaacatggctgc	10	14	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr9:133507353G>T	uc004bzr.1	+	15	1485	c.1377G>T	c.(1375-1377)GGG>GGT	p.G459G	FUBP3_uc004bzs.1_Silent_p.G372G	NM_003934	NP_003925	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	459					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		GGAGCTCCGGGTGCTTCCCAA	0.592													90	15	---	---	---	---	PASS	T	133507353	T	T	133507353	2	4	79	1	0	0	0	0	0	0	0	1	6093	1248	44	3		3	FUBP3	9	133507353	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	3249064	133507353	7706078	176	30111										
DNAJC1	64215	broad.mit.edu	37	chr10	22094922	22094922	+	Missense_Mutation	SNP	C	A	A													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aactcacatctgtcacagatCgacccaattcgtgggcaatc							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:22094922C>A	uc001irc.2	-	9	1372	c.1085G>T	c.(1084-1086)CGA>CTA	p.R362L	DNAJC1_uc001ird.2_Missense_Mutation_p.R248L	NM_022365	NP_071760	Q96KC8	DNJC1_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 1	362	Cytoplasmic (By similarity).|SANT 1.				negative regulation of proteolysis|regulation of protein secretion|regulation of transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	ATPase activator activity|DNA binding|heat shock protein binding|unfolded protein binding			lung(1)	1		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)				TGTCACAGATCGACCCAATTC	0.468													35	31	---	---	---	---	PASS	A	22094922	A	A	22094922	3	1	79	1	0	0	0	0	1	0	0	0	4628	884	31	2	595	2	DNAJC1	10	22094922	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08		22094922	113439825	177	30112	603	3								
DNAJC1	64215	broad.mit.edu	37	chr10	22094923	22094923	+	Nonsense_Mutation	SNP	G	A	A													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	actcacatctgtcacagatcGacccaattcgtgggcaatct							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:22094923G>A	uc001irc.2	-	9	1371	c.1084C>T	c.(1084-1086)CGA>TGA	p.R362*	DNAJC1_uc001ird.2_Nonsense_Mutation_p.R248*	NM_022365	NP_071760	Q96KC8	DNJC1_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 1	362	Cytoplasmic (By similarity).|SANT 1.				negative regulation of proteolysis|regulation of protein secretion|regulation of transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	ATPase activator activity|DNA binding|heat shock protein binding|unfolded protein binding			lung(1)	1		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)				GTCACAGATCGACCCAATTCG	0.468													38	30	---	---	---	---	PASS	A	22094923	A	A	22094923	4	1	79	1	0	0	0	0	0	1	0	0	4628	1066	37	2	596	2	DNAJC1	10	22094923	Nonsense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1	22094923	113439824	178	30113	603	3								
DNAJC1	64215	broad.mit.edu	37	chr10	22094924	22094924	+	Silent	SNP	A	C	C													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctcacatctgtcacagatcgAcccaattcgtgggcaatctt							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:22094924A>C	uc001irc.2	-	9	1370	c.1083T>G	c.(1081-1083)GGT>GGG	p.G361G	DNAJC1_uc001ird.2_Silent_p.G247G	NM_022365	NP_071760	Q96KC8	DNJC1_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 1	361	Cytoplasmic (By similarity).|SANT 1.				negative regulation of proteolysis|regulation of protein secretion|regulation of transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	ATPase activator activity|DNA binding|heat shock protein binding|unfolded protein binding			lung(1)	1		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)				TCACAGATCGACCCAATTCGT	0.468													34	33	---	---	---	---	PASS	C	22094924	C	C	22094924	2	2	79	1	0	0	0	0	0	0	0	1	4628	262	10	5		5	DNAJC1	10	22094924	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08	1	22094924	113439823	179	30114	603	3								
GPR158	57512	broad.mit.edu	37	chr10	25886740	25886740	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atgcccaactggaaatatatAaaagaaagaagatgatcaca	7	6	1	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:25886740A>G	uc001isj.2	+	11	2245	c.2185A>G	c.(2185-2187)AAA>GAA	p.K729E	GPR158_uc001isk.2_Missense_Mutation_p.K104E	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	729	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GGAAATATATAAAAGAAAGAA	0.433													84	120	---	---	---	---	PASS	G	25886740	G	G	25886740	3	3	79	1	0	0	0	0	1	0	0	0	6663	363	13	5	2227	5	GPR158	10	25886740	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	3791816	25886740	109648007	180	30115										
ZNF37A	7587	broad.mit.edu	37	chr10	38404208	38404208	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gaggaaaaatttccaagccaGagtcatctgggtgagttagt	12	6	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:38404208G>A	uc001izk.2	+	7	1047	c.228G>A	c.(226-228)CAG>CAA	p.Q76Q	ZNF37A_uc001izl.2_Silent_p.Q76Q|ZNF37A_uc001izm.2_Silent_p.Q76Q	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	76	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						TTCCAAGCCAGAGTCATCTGG	0.393													36	9	---	---	---	---	PASS	A	38404208	A	A	38404208	2	1	79	1	0	0	0	0	0	0	0	1	17869	933	33	2		2	ZNF37A	10	38404208	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	12517468	38404208	97130539	181	30116										
BMS1	9790	broad.mit.edu	37	chr10	43285856	43285856	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tcaagtacatggctttcctaAaattatgggagttctcaccc	7	10	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:43285856A>T	uc001jaj.2	+	5	891	c.533A>T	c.(532-534)AAA>ATA	p.K178I		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	178					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						GGCTTTCCTAAAATTATGGGA	0.403													156	39	---	---	---	---	PASS	T	43285856	T	T	43285856	3	4	79	1	0	0	0	0	1	0	0	0	1472	14	1	5	547	5	BMS1	10	43285856	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	4881648	43285856	92248891	182	30117										
FRMPD2	143162	broad.mit.edu	37	chr10	49448458	49448458	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gctgggctctcgctgcttgtCccacgcagcctcttcctgag	11	16	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:49448458C>T	uc001jgi.2	-	6	752	c.645G>A	c.(643-645)GGG>GGA	p.G215G	FRMPD2_uc001jgh.2_Silent_p.G184G|FRMPD2_uc001jgj.2_Silent_p.G193G	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	215					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		CGCTGCTTGTCCCACGCAGCC	0.602													38	47	---	---	---	---	PASS	T	49448458	T	T	49448458	2	4	79	1	0	0	0	0	0	0	0	1	6058	842	30	2		2	FRMPD2	10	49448458	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	6162602	49448458	86086289	183	30118										
PCDH15	65217	broad.mit.edu	37	chr10	55698651	55698651	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgaagtacatagcttgtcctGgtctcataatccagaggtcc	9	11	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:55698651G>T	uc001jju.1	-	25	3692	c.3297C>A	c.(3295-3297)ACC>ACA	p.T1099T	PCDH15_uc010qhq.1_Silent_p.T1104T|PCDH15_uc010qhr.1_Silent_p.T1099T|PCDH15_uc010qhs.1_Silent_p.T1111T|PCDH15_uc010qht.1_Silent_p.T1106T|PCDH15_uc010qhu.1_Silent_p.T1099T|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.T1099T|PCDH15_uc010qhw.1_Silent_p.T1062T|PCDH15_uc010qhx.1_Silent_p.T1028T|PCDH15_uc010qhy.1_Silent_p.T1104T|PCDH15_uc010qhz.1_Silent_p.T1099T|PCDH15_uc010qia.1_Silent_p.T1077T|PCDH15_uc010qib.1_Silent_p.T1077T	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1099	Cadherin 10.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AGCTTGTCCTGGTCTCATAAT	0.373										HNSCC(58;0.16)			123	17	---	---	---	---	PASS	T	55698651	T	T	55698651	2	4	79	1	0	0	0	0	0	0	0	1	11511	1335	47	3		3	PCDH15	10	55698651	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	6250193	55698651	79836096	184	30119										
NDST2	8509	broad.mit.edu	37	chr10	75567217	75567217	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atgtctaccaagatgtagcgGtcaaggtccaggcagaggcg	14	9	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:75567217G>A	uc001jvk.2	-	3	1734	c.930C>T	c.(928-930)GAC>GAT	p.D310D	NDST2_uc010qks.1_5'Flank|NDST2_uc010qkt.1_Silent_p.D187D|NDST2_uc009xro.2_5'Flank|NDST2_uc010qku.1_Silent_p.D187D	NM_003635	NP_003626	P52849	NDST2_HUMAN	heparan glucosaminyl	310	Lumenal (Potential).|Heparan sulfate N-deacetylase 2.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			ovary(1)	1	Prostate(51;0.0112)					AGATGTAGCGGTCAAGGTCCA	0.493													95	19	---	---	---	---	PASS	A	75567217	A	A	75567217	2	1	79	1	0	0	0	0	0	0	0	1	10256	1252	44	3		3	NDST2	10	75567217	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	19868566	75567217	59967530	185	30120										
KAZALD1	81621	broad.mit.edu	37	chr10	102822791	102822809	+	Frame_Shift_Del	DEL	CTGCAGGAGGCGGCCCGCG	-	-													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cctactcccagatctgccgcCtgcaggaggcggcccgcgct					rs145868353	byFrequency	TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:102822791_102822809delCTGCAGGAGGCGGCCCGCG	uc001ksr.2	+	2	1367_1385	c.442_460delCTGCAGGAGGCGGCCCGCG	c.(442-462)CTGCAGGAGGCGGCCCGCGCTfs	p.L148fs	KAZALD1_uc001kss.3_RNA|KAZALD1_uc001kst.1_Frame_Shift_Del_p.L148fs	NM_030929	NP_112191	Q96I82	KAZD1_HUMAN	Kazal-type serine peptidase inhibitor domain 1	148_154	Kazal-like.				cell differentiation|multicellular organismal development|ossification|regulation of cell growth		insulin-like growth factor binding				0				Epithelial(162;6.21e-09)|all cancers(201;3.14e-07)		GATCTGCCGCCTGCAGGAGGCGGCCCGCGCTCGGCCCGA	0.694													2	8	---	---	---	---		-	102822809	-	-	102822791	7	5	79	1	0	1	0	1	0	0	0	0	7989	680	24	0	444	0	KAZALD1	10	102822791	Frame_Shift_Del	DEL	CTGCAGGAGGCGGCCCGCG	TCGA-37-4135-01A-01D-1352-08	27255574	102822791	32711956	186	30121										
SLK	9748	broad.mit.edu	37	chr10	105758924	105758924	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aacatctaaggacagaccctAtgactacaaagctgatgttt	7	9	1	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:105758924A>G	uc001kxo.1	+	6	669	c.635A>G	c.(634-636)TAT>TGT	p.Y212C	SLK_uc001kxp.1_Missense_Mutation_p.Y212C	NM_014720	NP_055535	Q9H2G2	SLK_HUMAN	serine/threonine kinase 2	212	Protein kinase.				apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GACAGACCCTATGACTACAAA	0.383													113	7	---	---	---	---	PASS	G	105758924	G	G	105758924	3	3	79	1	0	0	0	0	1	0	0	0	14748	449	16	5	657	5	SLK	10	105758924	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	2936133	105758924	29775823	187	30122										
PLEKHA1	59338	broad.mit.edu	37	chr10	124177426	124177426	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tctctggtagatgaaaaactGgaagagaagatattttcaat	9	4	2	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:124177426G>A	uc001lge.1	+	8	746	c.623G>A	c.(622-624)TGG>TAG	p.W208*	PLEKHA1_uc001lgf.1_Nonsense_Mutation_p.W208*|PLEKHA1_uc001lgg.1_Nonsense_Mutation_p.W208*|PLEKHA1_uc001lgh.2_Nonsense_Mutation_p.W208*	NM_001001974	NP_001001974	Q9HB21	PKHA1_HUMAN	pleckstrin homology domain containing, family A	208	PH 2.				B cell receptor signaling pathway|cellular response to hydrogen peroxide|establishment of protein localization|negative regulation of protein kinase B signaling cascade|phosphatidylinositol 3-kinase cascade|ruffle organization	cytoplasm|nucleus|ruffle membrane	PDZ domain binding|phosphatidylinositol-3,4-bisphosphate binding			kidney(1)	1		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				ATGAAAAACTGGAAGAGAAGA	0.333													66	17	---	---	---	---	PASS	A	124177426	A	A	124177426	4	1	79	1	0	0	0	0	0	1	0	0	12055	1357	47	3	649	3	PLEKHA1	10	124177426	Nonsense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	18418502	124177426	11357321	188	30123										
ADAM12	8038	broad.mit.edu	37	chr10	127806611	127806611	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	caggtatcccccttacccttCttgcccatgtctgagagggt	9	14	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:127806611C>T	uc001ljk.2	-	6	1021	c.608G>A	c.(607-609)AGA>AAA	p.R203K	ADAM12_uc010qul.1_Missense_Mutation_p.R200K|ADAM12_uc001ljm.2_Missense_Mutation_p.R203K|ADAM12_uc001ljn.2_Missense_Mutation_p.R200K|ADAM12_uc001ljl.3_Missense_Mutation_p.R200K	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	203					cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		CCTTACCCTTCTTGCCCATGT	0.488													237	45	---	---	---	---	PASS	T	127806611	T	T	127806611	3	4	79	1	0	0	0	0	1	0	0	0	236	913	32	2	2301	2	ADAM12	10	127806611	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	3629185	127806611	7728136	189	30124										
TUBGCP2	10844	broad.mit.edu	37	chr10	135099108	135099108	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gacgcgcaagagctgagtgaTgaggtcatggggcatcaggt	17	7	2	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr10:135099108T>C	uc001lmg.1	-	12	2104	c.1747A>G	c.(1747-1749)ATC>GTC	p.I583V	TUBGCP2_uc001lmf.1_Missense_Mutation_p.I176V|TUBGCP2_uc010qvc.1_Missense_Mutation_p.I611V|TUBGCP2_uc009ybk.1_Intron|TUBGCP2_uc010qvd.1_Missense_Mutation_p.I453V|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	583					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		AGCTGAGTGATGAGGTCATGG	0.592													31	7	---	---	---	---	PASS	C	135099108	C	C	135099108	3	2	79	1	0	0	0	0	1	0	0	0	16763	1464	51	5	989	5	TUBGCP2	10	135099108	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	7292497	135099108	435639	190	30125										
NUP98	4928	broad.mit.edu	37	chr11	3789812	3789812	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	taagggtctgtttccttaccAtggtgttggtgcttggctgt	13	7	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:3789812A>G	uc001lyh.2	-	8	1238	c.947T>C	c.(946-948)ATG>ACG	p.M316T	NUP98_uc001lyi.2_Missense_Mutation_p.M316T|NUP98_uc001lyj.1_Missense_Mutation_p.M316T|NUP98_uc001lyk.1_Missense_Mutation_p.M316T	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	316	Gly/Thr-rich.				carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		TTTCCTTACCATGGTGTTGGT	0.433			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								254	38	---	---	---	---	PASS	G	3789812	G	G	3789812	3	3	79	1	0	0	0	0	1	0	0	0	10773	231	8	5	4631	5	NUP98	11	3789812	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08		3789812	131216704	191	30126										
MMP26	56547	broad.mit.edu	37	chr11	5010971	5010971	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgcaacaattccatcggaatGggacagacctacttgacatg	9	10	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:5010971G>C	uc001lzv.2	+	2	211	c.193G>C	c.(193-195)GGG>CGG	p.G65R		NM_021801	NP_068573	Q9NRE1	MMP26_HUMAN	matrix metalloproteinase 26 preproprotein	65					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Medulloblastoma(188;0.0025)|Breast(177;0.0204)|all_neural(188;0.0227)		Epithelial(150;1.33e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0287)|LUSC - Lung squamous cell carcinoma(625;0.191)		CCATCGGAATGGGACAGACCT	0.527													49	13	---	---	---	---	PASS	C	5010971	C	C	5010971	3	2	79	1	0	0	0	0	1	0	0	0	9663	1348	47	4	199	4	MMP26	11	5010971	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1221159	5010971	129995545	192	30127										
OR51L1	119682	broad.mit.edu	37	chr11	5020271	5020271	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atttatcctgaggggttttcCtggactggagtatgttcatt	11	6	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:5020271C>T	uc010qyu.1	+	1	59	c.59C>T	c.(58-60)CCT>CTT	p.P20L		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGGGGTTTTCCTGGACTGGAG	0.428													260	46	---	---	---	---	PASS	T	5020271	T	T	5020271	3	4	79	1	0	0	0	0	1	0	0	0	11102	681	24	3	61	3	OR51L1	11	5020271	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	9300	5020271	129986245	193	30128										
OR52A5	390054	broad.mit.edu	37	chr11	5153222	5153222	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atttggacataggacaaggtTataaatattatgtcaaaccc	7	6	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:5153222T>C	uc010qyx.1	-	1	651	c.651A>G	c.(649-651)ATA>ATG	p.I217M		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	217	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		AGGACAAGGTTATAAATATTA	0.418													152	18	---	---	---	---	PASS	C	5153222	C	C	5153222	3	2	79	1	0	0	0	0	1	0	0	0	11110	1744	61	5	302	5	OR52A5	11	5153222	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	132951	5153222	129853294	194	30129										
UBQLN3	50613	broad.mit.edu	37	chr11	5529151	5529151	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cccgtccctgctaggcaaggCatgaaccagagtaggaggcg	14	12	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:5529151C>T	uc001may.1	-	2	1724	c.1638G>A	c.(1636-1638)ATG>ATA	p.M546I	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	546										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTAGGCAAGGCATGAACCAGA	0.572													64	9	---	---	---	---	PASS	T	5529151	T	T	5529151	3	4	79	1	0	0	0	0	1	0	0	0	16895	710	25	3	333	3	UBQLN3	11	5529151	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	375929	5529151	129477365	195	30130										
FAM160A2	84067	broad.mit.edu	37	chr11	6244402	6244402	+	Frame_Shift_Del	DEL	C	-	-													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccgtcgcagacagtgccaatCatcccctggaacctcaatct							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:6244402delC	uc001mcl.3	-	4	1203	c.844delG	c.(844-846)GATfs	p.D282fs	FAM160A2_uc001mck.3_Frame_Shift_Del_p.D282fs|FAM160A2_uc001mcm.2_Frame_Shift_Del_p.D282fs	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	282					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						CAGTGCCAATCATCCCCTGGA	0.507													81	321	---	---	---	---		-	6244402	-	-	6244402	7	5	79	1	0	1	0	1	0	0	0	0	5469	826	29	0	2152	0	FAM160A2	11	6244402	Frame_Shift_Del	DEL	C	TCGA-37-4135-01A-01D-1352-08	715251	6244402	128762114	196	30131										
MRVI1	10335	broad.mit.edu	37	chr11	10622583	10622583	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acatactgcatcatcacttcCgttgctttcgacatgcgctt	6	13	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:10622583C>T	uc010rcc.1	-	15	2285	c.1899G>A	c.(1897-1899)ACG>ACA	p.T633T	MRVI1_uc001miw.2_Silent_p.T624T|MRVI1_uc010rcb.1_Silent_p.T625T|MRVI1_uc009ygb.1_Silent_p.T318T|MRVI1_uc001mix.2_Silent_p.T318T|MRVI1_uc001miz.2_Silent_p.T542T|MRVI1_uc009ygc.1_Silent_p.T542T|MRVI1_uc010rcd.1_Silent_p.T427T|MRVI1_uc009ygd.1_Silent_p.T318T|MRVI1_uc010rce.1_RNA	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	606	Potential.				platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum				ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		TCATCACTTCCGTTGCTTTCG	0.493													195	312	---	---	---	---	PASS	T	10622583	T	T	10622583	2	4	79	1	0	0	0	0	0	0	0	1	9853	639	23	1		1	MRVI1	11	10622583	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	4378181	10622583	124383933	197	30132										
NAV2	89797	broad.mit.edu	37	chr11	20101645	20101645	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agtctgcagacctccgcatcCgcaggcagcactcctcagac	9	17	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:20101645C>T	uc010rdm.1	+	27	5744	c.5383C>T	c.(5383-5385)CGC>TGC	p.R1795C	NAV2_uc001mpp.2_Missense_Mutation_p.R1675C|NAV2_uc001mpr.3_Missense_Mutation_p.R1739C|NAV2_uc001mpt.2_Missense_Mutation_p.R788C|NAV2_uc009yhx.2_Missense_Mutation_p.R803C|NAV2_uc009yhy.1_Missense_Mutation_p.R701C|NAV2_uc009yhz.2_Missense_Mutation_p.R384C|NAV2_uc001mpu.2_Missense_Mutation_p.R177C	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1795						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						CCTCCGCATCCGCAGGCAGCA	0.562													29	6	---	---	---	---	PASS	T	20101645	T	T	20101645	3	4	79	1	0	0	0	0	1	0	0	0	10184	652	23	1	5422	1	NAV2	11	20101645	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	9479062	20101645	114904871	198	30133										
LRRC4C	57689	broad.mit.edu	37	chr11	40136637	40136637	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccatcactgagcacagctatCcgcactttgtacgccccatg	7	16	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:40136637C>A	uc001mxa.1	-	2	3170	c.1206G>T	c.(1204-1206)CGG>CGT	p.R402R	LRRC4C_uc001mxc.1_Silent_p.R398R|LRRC4C_uc001mxd.1_Silent_p.R398R|LRRC4C_uc001mxb.1_Silent_p.R398R	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	402	Ig-like C2-type.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				GCACAGCTATCCGCACTTTGT	0.453													309	54	---	---	---	---	PASS	A	40136637	A	A	40136637	2	1	79	1	0	0	0	0	0	0	0	1	9008	842	30	2		2	LRRC4C	11	40136637	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	20034992	40136637	94869879	199	30134										
CHST1	8534	broad.mit.edu	37	chr11	45671652	45671652	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttggagaagtcctcgcacacCgtggtcagctgcgtcacgtc	12	13	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:45671652C>A	uc001mys.1	-	4	1493	c.822G>T	c.(820-822)ACG>ACT	p.T274T		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	274	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CCTCGCACACCGTGGTCAGCT	0.652													108	16	---	---	---	---	PASS	A	45671652	A	A	45671652	2	1	79	1	0	0	0	0	0	0	0	1	3397	639	23	1		1	CHST1	11	45671652	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	5535015	45671652	89334864	200	30135										
OR4S1	256148	broad.mit.edu	37	chr11	48328166	48328166	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctgtaggcccctgcactacaCagccatcatggattgccgga	10	14	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:48328166C>A	uc010rhu.1	+	1	392	c.392C>A	c.(391-393)ACA>AAA	p.T131K		NM_001004725	NP_001004725	Q8NGB4	OR4S1_HUMAN	olfactory receptor, family 4, subfamily S,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTGCACTACACAGCCATCATG	0.577													64	146	---	---	---	---	PASS	A	48328166	A	A	48328166	3	1	79	1	0	0	0	0	1	0	0	0	11082	478	17	3	394	3	OR4S1	11	48328166	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2656514	48328166	86678350	201	30136										
OR4C3	256144	broad.mit.edu	37	chr11	48347034	48347034	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gcttgggggcttcctgcattCattggttcagctcctcctgg	12	12	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:48347034C>T	uc010rhv.1	+	1	542	c.542C>T	c.(541-543)TCA>TTA	p.S181L		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TTCCTGCATTCATTGGTTCAG	0.532													33	202	---	---	---	---	PASS	T	48347034	T	T	48347034	3	4	79	1	0	0	0	0	1	0	0	0	11050	838	29	2	544	2	OR4C3	11	48347034	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	18868	48347034	86659482	202	30137										
OR4C15	81309	broad.mit.edu	37	chr11	55321832	55321832	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	taattttgcacttggatgtaCcaacttgttaatgactatga	7	6	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:55321832C>T	uc010rig.1	+	1	50	c.50C>T	c.(49-51)ACC>ATC	p.T17I		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	Error:Variant_position_missing_in_Q8NGM1_after_alignment					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CTTGGATGTACCAACTTGTTA	0.328										HNSCC(20;0.049)			186	30	---	---	---	---	PASS	T	55321832	T	T	55321832	3	4	79	1	0	0	0	0	1	0	0	0	11048	507	18	3	52	3	OR4C15	11	55321832	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	6974798	55321832	79684684	203	30138										
OR5M3	219482	broad.mit.edu	37	chr11	56237250	56237250	+	Frame_Shift_Del	DEL	G	-	-													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tataatgacagctgtcagatGggacccacatgtggaaaagg							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:56237250delG	uc010rjk.1	-	1	724	c.724delC	c.(724-726)CATfs	p.H242fs		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GCTGTCAGATGGGACCCACAT	0.473													31	97	---	---	---	---		-	56237250	-	-	56237250	7	5	79	1	0	1	0	1	0	0	0	0	11175	1348	47	0	201	0	OR5M3	11	56237250	Frame_Shift_Del	DEL	G	TCGA-37-4135-01A-01D-1352-08	915418	56237250	78769266	204	30139										
OR5M1	390168	broad.mit.edu	37	chr11	56380848	56380848	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tcctgatcagcaggatcatgCacaggttgcctgccagtgtg	12	11	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:56380848C>A	uc001nja.1	-	1	131	c.131G>T	c.(130-132)TGC>TTC	p.C44F		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	44	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						CAGGATCATGCACAGGTTGCC	0.473													146	27	---	---	---	---	PASS	A	56380848	A	A	56380848	3	1	79	1	0	0	0	0	1	0	0	0	11172	710	25	3	820	3	OR5M1	11	56380848	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	143598	56380848	78625668	205	30140										
OR5B12	390191	broad.mit.edu	37	chr11	58207613	58207613	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atgaattcagtcacctctgtGttgttctccattgggaatta	8	8	4	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:58207613G>T	uc010rkh.1	-	1	12	c.12C>A	c.(10-12)AAC>AAA	p.N4K		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	4	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TCACCTCTGTGTTGTTCTCCA	0.443													124	79	---	---	---	---	PASS	T	58207613	T	T	58207613	3	4	79	1	0	0	0	0	1	0	0	0	11148	1368	48	3	936	3	OR5B12	11	58207613	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1826765	58207613	76798903	206	30141										
C11orf9	745	broad.mit.edu	37	chr11	61545903	61545903	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gcctgaggctgtgaaagacaCcggagacatggtctttgcca	13	10	1	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:61545903C>G	uc001nsc.1	+	14	2051	c.1955C>G	c.(1954-1956)ACC>AGC	p.T652S	C11orf9_uc001nse.1_Missense_Mutation_p.T643S|C11orf9_uc010rll.1_Missense_Mutation_p.T43S	NM_001127392	NP_001120864	Q9Y2G1	MRF_HUMAN	myelin gene regulatory factor isoform 2	652					central nervous system myelination|positive regulation of myelination|positive regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						GTGAAAGACACCGGAGACATG	0.577													147	35	---	---	---	---	PASS	G	61545903	G	G	61545903	3	3	79	1	0	0	0	0	1	0	0	0	1671	507	18	4	2032	4	C11orf9	11	61545903	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	3338290	61545903	73460613	207	30142										
ZFPL1	7542	broad.mit.edu	37	chr11	64855447	64855447	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gctgaccctgctccagcgggCggggctgctgctactcttgg	15	14	1	1	rs35212666	byFrequency	TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:64855447C>T	uc001ocq.1	+	8	959	c.794C>T	c.(793-795)GCG>GTG	p.A265V		NM_006782	NP_006773	O95159	ZFPL1_HUMAN	zinc finger protein-like 1	265	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|vesicle-mediated transport	Golgi apparatus|integral to membrane|nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTCCAGCGGGCGGGGCTGCTG	0.701													11	24	---	---	---	---	PASS	T	64855447	T	T	64855447	3	4	79	1	0	0	0	0	1	0	0	0	17653	768	27	1	820	1	ZFPL1	11	64855447	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	3309544	64855447	70151069	208	30143										
CAPN1	823	broad.mit.edu	37	chr11	64972295	64972295	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccgcgagcgccgcttcggccGcgacatggagactattggct	14	14	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:64972295G>T	uc009yqd.1	+	11	1418	c.1307G>T	c.(1306-1308)CGC>CTC	p.R436L	CAPN1_uc001odf.1_Missense_Mutation_p.R436L|CAPN1_uc001odg.1_Missense_Mutation_p.R436L|CAPN1_uc010roa.1_Missense_Mutation_p.R177L	NM_005186	NP_005177	P07384	CAN1_HUMAN	calpain 1, large subunit	436	Domain III.				positive regulation of cell proliferation|proteolysis	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Lung NSC(402;0.094)|Melanoma(852;0.16)		Lung(977;0.00168)|LUSC - Lung squamous cell carcinoma(976;0.00813)		CGCTTCGGCCGCGACATGGAG	0.667											OREG0021073	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	8	---	---	---	---	PASS	T	64972295	T	T	64972295	3	4	79	1	0	0	0	0	1	0	0	0	2622	1087	38	1	1345	1	CAPN1	11	64972295	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	116848	64972295	70034221	209	30144										
CABP4	57010	broad.mit.edu	37	chr11	67223114	67223114	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cggggagcagcaataaccctCccagcactggagaggggccg	15	13	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:67223114C>A	uc001olo.2	+	1	297	c.220C>A	c.(220-222)CCC>ACC	p.P74T	GPR152_uc001olm.2_5'Flank|CABP4_uc001oln.2_Intron	NM_145200	NP_660201	P57796	CABP4_HUMAN	calcium binding protein 4	74					visual perception	cytoplasm|extracellular region|terminal button	calcium ion binding				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			CAATAACCCTCCCAGCACTGG	0.701													10	0	---	---	---	---	PASS	A	67223114	A	A	67223114	3	1	79	1	0	0	0	0	1	0	0	0	2533	855	30	2	222	2	CABP4	11	67223114	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2250819	67223114	67783402	210	30145										
ANO1	55107	broad.mit.edu	37	chr11	70007316	70007316	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgtcatcatctacagaatctCcatggccgccgccttggcca	8	16	4	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:70007316C>G	uc001opj.2	+	17	1933	c.1628C>G	c.(1627-1629)TCC>TGC	p.S543C	ANO1_uc001opk.1_Missense_Mutation_p.S485C|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.S252C	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	543	Extracellular (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						TACAGAATCTCCATGGCCGCC	0.607													17	812	---	---	---	---	PASS	G	70007316	G	G	70007316	3	3	79	1	0	0	0	0	1	0	0	0	695	855	30	2	1694	2	ANO1	11	70007316	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2784202	70007316	64999200	211	30146										
KCNE3	10008	broad.mit.edu	37	chr11	74168368	74168368	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cttgtccactttgcgggagcGggtgtatcccaggatgaggc	15	10	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:74168368G>A	uc001ovc.2	-	3	588	c.241C>T	c.(241-243)CGC>TGC	p.R81C	KCNE3_uc001ovd.2_Missense_Mutation_p.R81C	NM_005472	NP_005463	Q9Y6H6	KCNE3_HUMAN	potassium voltage-gated channel, Isk-related	81	Cytoplasmic (Potential).					integral to membrane	voltage-gated potassium channel activity			ovary(1)	1	Breast(11;2.86e-06)					TTGCGGGAGCGGGTGTATCCC	0.512													32	34	---	---	---	---	PASS	A	74168368	A	A	74168368	3	1	79	1	0	0	0	0	1	0	0	0	8024	1116	39	1	74	1	KCNE3	11	74168368	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	4161052	74168368	60838148	212	30147										
ME3	10873	broad.mit.edu	37	chr11	86209149	86209149	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aggcccaggatgcgctccccAtcagtcaccaccacggcctg	10	18	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:86209149A>G	uc001pbz.2	-	5	815	c.561T>C	c.(559-561)GAT>GAC	p.D187D	ME3_uc001pca.2_Silent_p.D187D|ME3_uc009yvk.2_Silent_p.D187D|ME3_uc010rtr.1_RNA	NM_001014811	NP_001014811	Q16798	MAON_HUMAN	mitochondrial malic enzyme 3 precursor	187					aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)	TGCGCTCCCCATCAGTCACCA	0.632													114	92	---	---	---	---	PASS	G	86209149	G	G	86209149	2	3	79	1	0	0	0	0	0	0	0	1	9419	214	8	5		5	ME3	11	86209149	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08	12040781	86209149	48797367	213	30148										
DDI1	414301	broad.mit.edu	37	chr11	103907805	103907805	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aatgtgggacctcgggctccAgggcgtgccccgaaccagcc	14	15	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:103907805A>G	uc001phr.2	+	1	498	c.255A>G	c.(253-255)CCA>CCG	p.P85P	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	85					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		CTCGGGCTCCAGGGCGTGCCC	0.617													14	824	---	---	---	---	PASS	G	103907805	G	G	103907805	2	3	79	1	0	0	0	0	0	0	0	1	4328	175	7	5		5	DDI1	11	103907805	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08	17698656	103907805	31098711	214	30149										
DDX10	1662	broad.mit.edu	37	chr11	108712165	108712165	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aggaagaggacaaatttgacAaagaagaatataggaaaaaa	10	2	0	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:108712165A>G	uc001pkm.2	+	15	2274	c.2209A>G	c.(2209-2211)AAA>GAA	p.K737E	DDX10_uc001pkl.1_Missense_Mutation_p.K737E	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	737							ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		CAAATTTGACAAAGAAGAATA	0.363			T	NUP98	AML*								517	19	---	---	---	---	PASS	G	108712165	G	G	108712165	3	3	79	1	0	0	0	0	1	0	0	0	4342	131	5	5	2267	5	DDX10	11	108712165	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	4804360	108712165	26294351	215	30150										
OR8B2	26595	broad.mit.edu	37	chr11	124253019	124253019	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttttgggagtgaaaacagagGagtaacagagatcaatgaag	13	3	1	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:124253019G>T	uc010sai.1	-	1	221	c.221C>A	c.(220-222)TCC>TAC	p.S74Y	OR8B2_uc001qab.3_RNA	NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GAAAACAGAGGAGTAACAGAG	0.393													6	127	---	---	---	---	PASS	T	124253019	T	T	124253019	3	4	79	1	0	0	0	0	1	0	0	0	11227	1174	41	2	723	2	OR8B2	11	124253019	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	15540854	124253019	10753497	216	30151										
OR8B3	390271	broad.mit.edu	37	chr11	124267027	124267027	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttttgggagtgaaaacagagGagtaacagagatcaatgaag	13	3	1	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:124267027G>T	uc010saj.1	-	1	221	c.221C>A	c.(220-222)TCC>TAC	p.S74Y	OR8B2_uc001qab.3_Intron	NM_001005467	NP_001005467	Q8NGG8	OR8B3_HUMAN	olfactory receptor, family 8, subfamily B,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GAAAACAGAGGAGTAACAGAG	0.373													64	29	---	---	---	---	PASS	T	124267027	T	T	124267027	3	4	79	1	0	0	0	0	1	0	0	0	11228	1174	41	2	722	2	OR8B3	11	124267027	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	14008	124267027	10739489	217	30152										
CHEK1	1111	broad.mit.edu	37	chr11	125505413	125505413	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tcaacccttggaaaaaaatcGattctgctcctctaggtaac	6	11	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr11:125505413G>T	uc009zbo.2	+	7	1595	c.703G>T	c.(703-705)GAT>TAT	p.D235Y	CHEK1_uc010sbh.1_Missense_Mutation_p.D251Y|CHEK1_uc010sbi.1_Missense_Mutation_p.D235Y|CHEK1_uc001qcf.3_Missense_Mutation_p.D235Y|CHEK1_uc009zbp.2_Missense_Mutation_p.D235Y|CHEK1_uc001qcg.3_Missense_Mutation_p.D235Y|CHEK1_uc009zbq.2_Missense_Mutation_p.D235Y|CHEK1_uc001qci.1_RNA	NM_001114122	NP_001107594	O14757	CHK1_HUMAN	checkpoint kinase 1	235	Protein kinase.				cellular response to mechanical stimulus|DNA repair|DNA replication|gamete generation|negative regulation of cell proliferation|reciprocal meiotic recombination|regulation of cyclin-dependent protein kinase activity|replicative senescence	condensed nuclear chromosome|microtubule organizing center|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|skin(1)	6	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0748)		GAAAAAAATCGATTCTGCTCC	0.353								Other_conserved_DNA_damage_response_genes					75	26	---	---	---	---	PASS	T	125505413	T	T	125505413	3	4	79	1	0	0	0	0	1	0	0	0	3334	1058	37	2	725	2	CHEK1	11	125505413	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1238386	125505413	9501103	218	30153										
STYK1	55359	broad.mit.edu	37	chr12	10783902	10783902	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cctaggtggaggaacaggggCaatgcctagaacagagagat	15	7	0	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:10783902C>A	uc001qys.2	-	5	714	c.193G>T	c.(193-195)GCC>TCC	p.A65S		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	65						integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						GGAACAGGGGCAATGCCTAGA	0.527										HNSCC(73;0.22)			153	23	---	---	---	---	PASS	A	10783902	A	A	10783902	3	1	79	1	0	0	0	0	1	0	0	0	15358	710	25	3	1103	3	STYK1	12	10783902	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08		10783902	123067993	219	30154										
LRRK2	120892	broad.mit.edu	37	chr12	40722188	40722188	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gcagttttggatcagtttacCgagcagcctatgaaggagaa	12	7	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:40722188C>G	uc001rmg.3	+	39	5804	c.5683C>G	c.(5683-5685)CGA>GGA	p.R1895G	LRRK2_uc009zjw.2_Missense_Mutation_p.R733G|LRRK2_uc001rmi.2_Missense_Mutation_p.R728G	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1895	Protein kinase.				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)				ATCAGTTTACCGAGCAGCCTA	0.313													23	172	---	---	---	---	PASS	G	40722188	G	G	40722188	3	3	79	1	0	0	0	0	1	0	0	0	9033	644	23	4	5837	4	LRRK2	12	40722188	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	29938286	40722188	93129707	220	30155										
PRICKLE1	144165	broad.mit.edu	37	chr12	42853747	42853747	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agtaggcaaatctctgtggcCggggttgagggattggttgt	17	5	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:42853747C>T	uc010skv.1	-	8	2647	c.2360G>A	c.(2359-2361)CGG>CAG	p.R787Q	PRICKLE1_uc001rnl.2_Missense_Mutation_p.R787Q|PRICKLE1_uc010skw.1_Missense_Mutation_p.R787Q|PRICKLE1_uc001rnm.2_Missense_Mutation_p.R787Q|PRICKLE1_uc001rnk.1_5'Flank	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	787					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		TCTCTGTGGCCGGGGTTGAGG	0.488													37	255	---	---	---	---	PASS	T	42853747	T	T	42853747	3	4	79	1	0	0	0	0	1	0	0	0	12486	652	23	1	139	1	PRICKLE1	12	42853747	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2131559	42853747	90998148	221	30156										
OR10AD1	121275	broad.mit.edu	37	chr12	48596351	48596351	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccacagtcaggtgagaggcaCaagtagagaaagtcttcccc	11	11	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:48596351C>G	uc001rrl.1	-	1	725	c.725G>C	c.(724-726)TGT>TCT	p.C242S		NM_001004134	NP_001004134	Q8NGE0	O10AD_HUMAN	olfactory receptor, family 10, subfamily AD,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTGAGAGGCACAAGTAGAGAA	0.522													76	91	---	---	---	---	PASS	G	48596351	G	G	48596351	3	3	79	1	0	0	0	0	1	0	0	0	10896	478	17	4	232	4	OR10AD1	12	48596351	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	5742604	48596351	85255544	222	30157										
MLL2	8085	broad.mit.edu	37	chr12	49444120	49444120	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tggcactgggttccaaggctGggcattcaggttctgaaact	13	9	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:49444120G>A	uc001rta.3	-	11	3251	c.3251C>T	c.(3250-3252)CCA>CTA	p.P1084L		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1084	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TTCCAAGGCTGGGCATTCAGG	0.612			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			17	12	---	---	---	---	PASS	A	49444120	A	A	49444120	3	1	79	1	0	0	0	0	1	0	0	0	9621	1348	47	3	13538	3	MLL2	12	49444120	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	847769	49444120	84407775	223	30158										
HNRNPA1	3178	broad.mit.edu	37	chr12	54675662	54675662	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gaggaggtggatgcagctatGaatgcaaggccacacaaggt	15	7	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:54675662G>C	uc001sfl.2	+	3	320	c.216G>C	c.(214-216)ATG>ATC	p.M72I	CBX5_uc001sfk.3_5'Flank|CBX5_uc001sfi.3_5'Flank|HNRNPA1_uc001sfm.2_Missense_Mutation_p.M72I|HNRNPA1_uc009zng.2_Missense_Mutation_p.M72I|HNRNPA1_uc009znh.2_Missense_Mutation_p.M72I|HNRNPA1_uc009zni.2_Missense_Mutation_p.M72I|HNRNPA1_uc001sfn.2_Missense_Mutation_p.M72I|HNRNPA1_uc001sfo.3_RNA|HNRNPA1_uc001sfp.1_Missense_Mutation_p.M27I|HNRNPA1_uc009znj.1_Missense_Mutation_p.M27I	NM_031157	NP_112420	P09651	ROA1_HUMAN	heterogeneous nuclear ribonucleoprotein A1	72	Globular A domain.|RRM 1.				interspecies interaction between organisms|mRNA transport|nuclear import	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	nucleotide binding|protein binding|single-stranded DNA binding			skin(2)|ovary(1)	3						ATGCAGCTATGAATGCAAGGC	0.463													65	181	---	---	---	---	PASS	C	54675662	C	C	54675662	3	2	79	1	0	0	0	0	1	0	0	0	7257	1290	45	2	226	2	HNRNPA1	12	54675662	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	5231542	54675662	79176233	224	30159										
TIMELESS	8914	broad.mit.edu	37	chr12	56811541	56811541	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aatctggtatcgtttcttctTttggattcctggagctccca	8	10	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:56811541T>G	uc001slf.2	-	29	3754	c.3586A>C	c.(3586-3588)AAG>CAG	p.K1196Q		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	1196					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						CGTTTCTTCTTTTGGATTCCT	0.458													166	119	---	---	---	---	PASS	G	56811541	G	G	56811541	3	3	79	1	0	0	0	0	1	0	0	0	15901	1850	64	5	44	5	TIMELESS	12	56811541	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	2135879	56811541	77040354	225	30160										
PTPRB	5787	broad.mit.edu	37	chr12	71029792	71029792	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgcatgagcccacgaccactTtctcatttttgaaaagacac	6	12	1	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:71029792T>C	uc001swc.3	-	2	154	c.110A>G	c.(109-111)AAA>AGA	p.K37R	PTPRB_uc001swa.3_Missense_Mutation_p.K37R|PTPRB_uc001swd.3_Missense_Mutation_p.K36R|PTPRB_uc009zrr.1_Missense_Mutation_p.K37R|PTPRB_uc001swe.2_Missense_Mutation_p.K37R	NM_001109754	NP_001103224	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	Error:Variant_position_missing_in_P23467_after_alignment					angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CACGACCACTTTCTCATTTTT	0.443													45	31	---	---	---	---	PASS	C	71029792	C	C	71029792	3	2	79	1	0	0	0	0	1	0	0	0	12796	1841	64	5	6727	5	PTPRB	12	71029792	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	14218251	71029792	62822103	226	30161										
KCNC2	3747	broad.mit.edu	37	chr12	75444647	75444647	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tatcagcagcaaaaattcatTagtactagctcgaagagtat	7	7	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:75444647T>A	uc001sxg.1	-	3	1682	c.1138A>T	c.(1138-1140)AAT>TAT	p.N380Y	KCNC2_uc009zry.2_Missense_Mutation_p.N380Y|KCNC2_uc001sxe.2_Missense_Mutation_p.N380Y|KCNC2_uc001sxf.2_Missense_Mutation_p.N380Y|KCNC2_uc010stw.1_Missense_Mutation_p.N380Y	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	380	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						AAAAATTCATTAGTACTAGCT	0.458													41	99	---	---	---	---	PASS	A	75444647	A	A	75444647	3	1	79	1	0	0	0	0	1	0	0	0	8015	1754	61	5	856	5	KCNC2	12	75444647	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	4414855	75444647	58407248	227	30162										
NAV3	89795	broad.mit.edu	37	chr12	78400393	78400393	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agtcaagtacagccacctccCccacaccatcttcagacaga	5	17	3	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:78400393C>T	uc001syp.2	+	8	1248	c.1075C>T	c.(1075-1077)CCC>TCC	p.P359S	NAV3_uc001syo.2_Missense_Mutation_p.P359S	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	359						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AGCCACCTCCCCCACACCATC	0.512										HNSCC(70;0.22)			62	40	---	---	---	---	PASS	T	78400393	T	T	78400393	3	4	79	1	0	0	0	0	1	0	0	0	10185	623	22	3	1105	3	NAV3	12	78400393	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2955746	78400393	55451502	228	30163										
ATP2B1	490	broad.mit.edu	37	chr12	90013882	90013882	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aacagaattgaaggtgtagaCtttgtacagtgcttcttctg	10	6	2	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:90013882C>G	uc001tbh.2	-	10	1904	c.1723G>C	c.(1723-1725)GTC>CTC	p.V575L	ATP2B1_uc001tbg.2_Missense_Mutation_p.V575L|ATP2B1_uc001tbf.2_Missense_Mutation_p.V245L	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	575	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						AAGGTGTAGACTTTGTACAGT	0.368													73	190	---	---	---	---	PASS	G	90013882	G	G	90013882	3	3	79	1	0	0	0	0	1	0	0	0	1139	565	20	4	2141	4	ATP2B1	12	90013882	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	11613489	90013882	43838013	229	30164										
C12orf74	338809	broad.mit.edu	37	chr12	93100489	93100489	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggccctcgctgaggagcctgCcaaagaaccaggggagtctc	14	13	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:93100489C>T	uc001tch.1	+	2	312	c.82C>T	c.(82-84)CCA>TCA	p.P28S	C12orf74_uc001tci.2_Missense_Mutation_p.P28S	NM_001037671	NP_001032760	Q32Q52	CL074_HUMAN	hypothetical protein LOC338809	28											0						GAGGAGCCTGCCAAAGAACCA	0.582													18	45	---	---	---	---	PASS	T	93100489	T	T	93100489	3	4	79	1	0	0	0	0	1	0	0	0	1714	739	26	3	84	3	C12orf74	12	93100489	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	3086607	93100489	40751406	230	30165										
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100444968	100444968	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttcacactttctgctgtgccCctgtaatttgtagttgagtt	8	9	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:100444968C>A	uc001tgq.2	-	16	3685	c.3456G>T	c.(3454-3456)AGG>AGT	p.R1152S	UHRF1BP1L_uc001tgp.2_Missense_Mutation_p.R802S	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	1152										ovary(2)	2						CTGCTGTGCCCCTGTAATTTG	0.353													43	133	---	---	---	---	PASS	A	100444968	A	A	100444968	3	1	79	1	0	0	0	0	1	0	0	0	16966	622	22	3	962	3	UHRF1BP1L	12	100444968	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	7344479	100444968	33406927	231	30166										
GPR109B	8843	broad.mit.edu	37	chr12	123200902	123200902	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgtggtggggatggaccaccCggaaatacctgtctaccgcc	13	13	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:123200902C>A	uc001ucy.3	-	1	538	c.383G>T	c.(382-384)CGG>CTG	p.R128L	GPR81_uc001ucw.1_Intron	NM_006018	NP_006009	P49019	HCAR3_HUMAN	G protein-coupled receptor 109B	128	Cytoplasmic (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	ATGGACCACCCGGAAATACCT	0.562													68	41	---	---	---	---	PASS	A	123200902	A	A	123200902	3	1	79	1	0	0	0	0	1	0	0	0	6626	652	23	1	784	1	GPR109B	12	123200902	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	22755934	123200902	10650993	232	30167										
TMEM132B	114795	broad.mit.edu	37	chr12	125834780	125834780	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agtggtccctggtgagcttgGacgagaatgtggtcatctcg	15	8	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:125834780G>C	uc001uhe.1	+	2	843	c.835G>C	c.(835-837)GAC>CAC	p.D279H		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	279	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		GGTGAGCTTGGACGAGAATGT	0.567													146	426	---	---	---	---	PASS	C	125834780	C	C	125834780	3	2	79	1	0	0	0	0	1	0	0	0	16043	1174	41	2	841	2	TMEM132B	12	125834780	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	2633878	125834780	8017115	233	30168										
PIWIL1	9271	broad.mit.edu	37	chr12	130827577	130827577	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agcctaggcctcagccgccaCcagcagagggggaattattt	12	12	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:130827577C>A	uc001uik.2	+	3	211	c.121C>A	c.(121-123)CCA>ACA	p.P41T	PIWIL1_uc001uij.1_Missense_Mutation_p.P41T	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	41					gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		TCAGCCGCCACCAGCAGAGGG	0.478													63	46	---	---	---	---	PASS	A	130827577	A	A	130827577	3	1	79	1	0	0	0	0	1	0	0	0	11957	507	18	3	127	3	PIWIL1	12	130827577	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	4992797	130827577	3024318	234	30169										
RIMBP2	23504	broad.mit.edu	37	chr12	130926407	130926407	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gctcacctgcaggcaacgtgGagaactccacaaaggcctcc	10	15	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr12:130926407G>C	uc001uil.2	-	8	1603	c.1439C>G	c.(1438-1440)TCC>TGC	p.S480C	RIMBP2_uc001uim.2_Missense_Mutation_p.S388C|RIMBP2_uc001uin.1_Missense_Mutation_p.S139C	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	480						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		AGGCAACGTGGAGAACTCCAC	0.612													53	38	---	---	---	---	PASS	C	130926407	C	C	130926407	3	2	79	1	0	0	0	0	1	0	0	0	13363	1174	41	2	1767	2	RIMBP2	12	130926407	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	98830	130926407	2925488	235	30170										
B3GALTL	145173	broad.mit.edu	37	chr13	31891773	31891773	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgtttctgggagagcgctacGgctacggcctgggcactggt	16	10	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr13:31891773G>T	uc010aaz.2	+	13	1245	c.1135G>T	c.(1135-1137)GGC>TGC	p.G379C	B3GALTL_uc001utn.3_RNA	NM_194318	NP_919299	Q6Y288	B3GLT_HUMAN	beta 1,3-galactosyltransferase-like	379	Lumenal (Potential).				fucose metabolic process	endoplasmic reticulum membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2		Lung SC(185;0.0257)		all cancers(112;0.00436)|Epithelial(112;0.0285)|OV - Ovarian serous cystadenocarcinoma(117;0.0512)|GBM - Glioblastoma multiforme(144;0.184)		AGAGCGCTACGGCTACGGCCT	0.502													90	12	---	---	---	---	PASS	T	31891773	T	T	31891773	3	4	79	1	0	0	0	0	1	0	0	0	1252	1116	39	1	1185	1	B3GALTL	13	31891773	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08		31891773	83278105	236	30171										
PHF11	51131	broad.mit.edu	37	chr13	50096223	50096223	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aaagaggaaggaagaaacccCtctcaggcaatcatgtacag	10	9	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr13:50096223C>A	uc001vdb.2	+	6	887	c.550C>A	c.(550-552)CTC>ATC	p.L184I	PHF11_uc001vdc.2_Missense_Mutation_p.L145I|PHF11_uc001vdd.2_RNA	NM_001040443	NP_001035533	Q9UIL8	PHF11_HUMAN	PHD finger protein 11 isoform a	184					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding				0		Lung NSC(96;2.1e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.38e-09)		GAAGAAACCCCTCTCAGGCAA	0.323													55	9	---	---	---	---	PASS	A	50096223	A	A	50096223	3	1	79	1	0	0	0	0	1	0	0	0	11822	681	24	3	572	3	PHF11	13	50096223	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	18204450	50096223	65073655	237	30172										
MYCBP2	23077	broad.mit.edu	37	chr13	77748550	77748550	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acaccatcagggcactgaacTgtggtcattcctccatctcc	7	15	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr13:77748550T>A	uc001vkf.2	-	38	5524	c.5433A>T	c.(5431-5433)ACA>ACT	p.T1811T	MYCBP2_uc010aev.2_Silent_p.T1215T	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1811					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GGCACTGAACTGTGGTCATTC	0.448													143	18	---	---	---	---	PASS	A	77748550	A	A	77748550	2	1	79	1	0	0	0	0	0	0	0	1	10018	1567	55	5		5	MYCBP2	13	77748550	Silent	SNP	T	TCGA-37-4135-01A-01D-1352-08	27652327	77748550	37421328	238	30173										
ING1	3621	broad.mit.edu	37	chr13	111368196	111368196	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgctcagcccggccactttcGggcgcggatttatagcagta	12	13	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr13:111368196G>T	uc001vri.2	+	1	838	c.406G>T	c.(406-408)GGG>TGG	p.G136W	CARS2_uc010tjm.1_5'Flank|uc001vre.2_5'Flank|ING1_uc001vrf.2_Intron|ING1_uc001vrg.2_Intron|ING1_uc001vrh.2_Intron	NM_005537	NP_005528	Q9UK53	ING1_HUMAN	inhibitor of growth family, member 1 isoform D	136					cell cycle|negative regulation of cell growth|negative regulation of cell proliferation	nucleus	zinc ion binding			ovary(1)	1	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.188)			GGCCACTTTCGGGCGCGGATT	0.746													14	1	---	---	---	---	PASS	T	111368196	T	T	111368196	3	4	79	1	0	0	0	0	1	0	0	0	7735	1116	39	1	556	1	ING1	13	111368196	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	33619646	111368196	3801682	239	30174										
C14orf115	55237	broad.mit.edu	37	chr14	74824821	74824821	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tggcggcgaaaggccctccgGaggaaccccagcttcaagcc	13	15	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr14:74824821G>T	uc001xpw.3	+	2	1526	c.1335G>T	c.(1333-1335)CGG>CGT	p.R445R		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	445					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		AGGCCCTCCGGAGGAACCCCA	0.577													55	17	---	---	---	---	PASS	T	74824821	T	T	74824821	2	4	79	1	0	0	0	0	0	0	0	1	1740	1161	41	2		2	C14orf115	14	74824821	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08		74824821	32524719	240	30175										
C14orf166B	145497	broad.mit.edu	37	chr14	77318716	77318716	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tccctgtttcagccatcaacGtggggctcacgtcactggat	10	13	4	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr14:77318716G>C	uc001xsx.2	+	8	850	c.736G>C	c.(736-738)GTG>CTG	p.V246L	C14orf166B_uc010asn.1_Missense_Mutation_p.V6L|C14orf166B_uc001xsw.2_RNA|C14orf166B_uc010tvg.1_RNA|C14orf166B_uc010tvh.1_RNA	NM_194287	NP_919263	Q0VAA2	CN16B_HUMAN	hypothetical protein LOC145497	246											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0306)		AGCCATCAACGTGGGGCTCAC	0.527													23	10	---	---	---	---	PASS	C	77318716	C	C	77318716	3	2	79	1	0	0	0	0	1	0	0	0	1757	1145	40	4	766	4	C14orf166B	14	77318716	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	2493895	77318716	30030824	241	30176										
OCA2	4948	broad.mit.edu	37	chr15	28202871	28202871	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aggcgccagacgtgaatctcGtgcttcagttctgcagagaa	12	10	3	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:28202871G>T	uc001zbh.3	-	16	1757	c.1647C>A	c.(1645-1647)CAC>CAA	p.H549Q	OCA2_uc010ayv.2_Missense_Mutation_p.H525Q	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	549	Cytoplasmic (Potential).		H -> Q (in OCA2).		eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		CGTGAATCTCGTGCTTCAGTT	0.617									Oculocutaneous_Albinism				15	49	---	---	---	---	PASS	T	28202871	T	T	28202871	3	4	79	1	0	0	0	0	1	0	0	0	10815	1136	40	1	905	1	OCA2	15	28202871	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08		28202871	74328521	242	30177										
BUB1B	701	broad.mit.edu	37	chr15	40498502	40498502	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttgccagagcagctcgttttGtatccactccttttcatgag	8	11	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:40498502G>C	uc001zkx.3	+	15	2064	c.1852G>C	c.(1852-1854)GTA>CTA	p.V618L	BUB1B_uc010ucl.1_Missense_Mutation_p.V486L	NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	618					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		AGCTCGTTTTGTATCCACTCC	0.443			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				29	83	---	---	---	---	PASS	C	40498502	C	C	40498502	3	2	79	1	0	0	0	0	1	0	0	0	1571	1377	48	4	1910	4	BUB1B	15	40498502	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	12295631	40498502	62032890	243	30178										
FBN1	2200	broad.mit.edu	37	chr15	48789500	48789500	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gttgaatccacttcatatccTgaattgcatatacatttata	4	8	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:48789500T>C	uc001zwx.1	-	19	2584	c.2256A>G	c.(2254-2256)TCA>TCG	p.S752S		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	752	EGF-like 11; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CTTCATATCCTGAATTGCATA	0.383													145	106	---	---	---	---	PASS	C	48789500	C	C	48789500	2	2	79	1	0	0	0	0	0	0	0	1	5702	1567	55	5		5	FBN1	15	48789500	Silent	SNP	T	TCGA-37-4135-01A-01D-1352-08	8290998	48789500	53741892	244	30179										
GABPB1	2553	broad.mit.edu	37	chr15	50570937	50570937	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgctgtcgatatttttgtgcTtctcgatttgcttcatccag	8	9	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:50570937T>G	uc001zyb.2	-	9	1504	c.1080A>C	c.(1078-1080)GAA>GAC	p.E360D	GABPB1_uc001zya.2_Missense_Mutation_p.E348D|GABPB1_uc010ufg.1_Missense_Mutation_p.E284D	NM_005254	NP_005245	Q06547	GABP1_HUMAN	GA binding protein transcription factor, beta	360					positive regulation of transcription from RNA polymerase II promoter	nucleus	protein binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)	1						ATTTTTGTGCTTCTCGATTTG	0.363													10	264	---	---	---	---	PASS	G	50570937	G	G	50570937	3	3	79	1	0	0	0	0	1	0	0	0	6158	1606	56	5	111	5	GABPB1	15	50570937	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	1781437	50570937	51960455	245	30180										
UNC13C	440279	broad.mit.edu	37	chr15	54825265	54825265	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	atggattttttggacaaaacGtaagtttttttgcccagttt	8	5	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:54825265G>T	uc002ack.2	+	24	5696	c.5696_splice	c.e24+1	p.T1899_splice		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C						exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TGGACAAAACGTAAGTTTTTT	0.338													7	7	---	---	---	---	PASS	T	54825265	T	T	54825265	5	4	79	1	0	0	0	0	0	0	1	0	16983	1159	40	1	5791	1	UNC13C	15	54825265	Splice_Site	SNP	G	TCGA-37-4135-01A-01D-1352-08	4254328	54825265	47706127	246	30181										
DIS3L	115752	broad.mit.edu	37	chr15	66604126	66604126	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gctttgtgattctatccttcAgtctcgacgggagagagaga	12	8	3	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:66604126A>T	uc010ujm.1	+	5	638	c.623A>T	c.(622-624)CAG>CTG	p.Q208L	DIS3L_uc010ujl.1_5'UTR|DIS3L_uc002app.2_Missense_Mutation_p.Q125L|DIS3L_uc002apq.2_Missense_Mutation_p.Q208L|DIS3L_uc010bho.2_Missense_Mutation_p.Q74L	NM_001143688	NP_001137160	Q8TF46	DI3L1_HUMAN	DIS3 mitotic control homolog (S.	208					rRNA catabolic process	cytoplasm|exosome (RNase complex)	exonuclease activity|protein binding|ribonuclease activity|RNA binding			ovary(2)	2						TCTATCCTTCAGTCTCGACGG	0.458													226	177	---	---	---	---	PASS	T	66604126	T	T	66604126	3	4	79	1	0	0	0	0	1	0	0	0	4536	188	7	5	641	5	DIS3L	15	66604126	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	11778861	66604126	35927266	247	30182										
MAP2K1	5604	broad.mit.edu	37	chr15	66727503	66727503	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gactttgagaagatcagtgaGctgggggctggcaatggcgg	18	6	1	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:66727503G>A	uc010bhq.2	+	2	694	c.219G>A	c.(217-219)GAG>GAA	p.E73E	MAP2K1_uc010ujp.1_Silent_p.E51E	NM_002755	NP_002746	Q02750	MP2K1_HUMAN	mitogen-activated protein kinase kinase 1	73	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|Ras protein signal transduction|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|plasma membrane	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						AGATCAGTGAGCTGGGGGCTG	0.522									Cardiofaciocutaneous_syndrome				311	229	---	---	---	---	PASS	A	66727503	A	A	66727503	2	1	79	1	0	0	0	0	0	0	0	1	9236	962	34	3		3	MAP2K1	15	66727503	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	123377	66727503	35803889	248	30183										
IQCH	64799	broad.mit.edu	37	chr15	67681239	67681239	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttagtgctgtattacaaaaaAatcctaagtctacatgcagc	6	8	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:67681239A>G	uc002aqo.1	+	12	1574	c.1527A>G	c.(1525-1527)AAA>AAG	p.K509K	IQCH_uc002aqq.1_Silent_p.K257K|IQCH_uc002aqp.1_Silent_p.K261K	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	509										skin(3)|ovary(1)	4				Colorectal(3;0.0856)		ATTACAAAAAAATCCTAAGTC	0.398													158	111	---	---	---	---	PASS	G	67681239	G	G	67681239	2	3	79	1	0	0	0	0	0	0	0	1	7811	11	1	5		5	IQCH	15	67681239	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08	953736	67681239	34850153	249	30184										
PAQR5	54852	broad.mit.edu	37	chr15	69677203	69677203	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acttcctggactatggtgccGtcaacctcttcagcctgggt	10	13	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:69677203G>A	uc002arz.2	+	5	745	c.367G>A	c.(367-369)GTC>ATC	p.V123I	PAQR5_uc002asa.2_Missense_Mutation_p.V123I	NM_017705	NP_060175	Q9NXK6	MPRG_HUMAN	progestin and adipoQ receptor family member V	123	Helical; Name=3; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane	receptor activity|steroid binding			ovary(2)	2						CTATGGTGCCGTCAACCTCTT	0.562													62	37	---	---	---	---	PASS	A	69677203	A	A	69677203	3	1	79	1	0	0	0	0	1	0	0	0	11438	1145	40	1	377	1	PAQR5	15	69677203	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1995964	69677203	32854189	250	30185										
MYO9A	4649	broad.mit.edu	37	chr15	72170530	72170530	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttccagaatctgttcaaataGtgcatagaggtctttatacc	7	8	3	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:72170530G>T	uc002atl.3	-	31	6255	c.5782C>A	c.(5782-5784)CTA>ATA	p.L1928I	MYO9A_uc002atk.2_Missense_Mutation_p.L723I|MYO9A_uc002atm.1_Missense_Mutation_p.L724I	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	1928	Tail.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						TGTTCAAATAGTGCATAGAGG	0.363													44	112	---	---	---	---	PASS	T	72170530	T	T	72170530	3	4	79	1	0	0	0	0	1	0	0	0	10084	1020	36	3	1912	3	MYO9A	15	72170530	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	2493327	72170530	30360862	251	30186										
PARP6	56965	broad.mit.edu	37	chr15	72533854	72533854	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tttccttctgtatcttggggTcctgagtattaatgttggca	10	7	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:72533854T>C	uc002auc.2	-	23	2294	c.1835A>G	c.(1834-1836)GAC>GGC	p.D612G	PARP6_uc002aua.2_Missense_Mutation_p.D458G|PARP6_uc002aub.2_RNA|PARP6_uc002aud.3_RNA	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	612	PARP catalytic.						NAD+ ADP-ribosyltransferase activity				0						TATCTTGGGGTCCTGAGTATT	0.502													68	60	---	---	---	---	PASS	C	72533854	C	C	72533854	3	2	79	1	0	0	0	0	1	0	0	0	11464	1667	58	5	61	5	PARP6	15	72533854	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	363324	72533854	29997538	252	30187										
HCN4	10021	broad.mit.edu	37	chr15	73635889	73635889	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agatgtagtccacggggatgGaggaaatgaaatctaccatg	13	6	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:73635889G>A	uc002avp.2	-	2	2040	c.1046C>T	c.(1045-1047)TCC>TTC	p.S349F		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	349	Helical; Name=Segment S3; (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		CACGGGGATGGAGGAAATGAA	0.527													57	49	---	---	---	---	PASS	A	73635889	A	A	73635889	3	1	79	1	0	0	0	0	1	0	0	0	6999	1174	41	2	2593	2	HCN4	15	73635889	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1102035	73635889	28895503	253	30188										
C15orf59	388135	broad.mit.edu	37	chr15	74032896	74032896	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gcccgccttgtcactgctagAggtgctgctcacagtggccg	13	14	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:74032896A>T	uc002avy.2	-	2	589	c.244T>A	c.(244-246)TCT>ACT	p.S82T		NM_001039614	NP_001034703	Q2T9L4	CO059_HUMAN	hypothetical protein LOC388135	82										pancreas(1)	1						TCACTGCTAGAGGTGCTGCTC	0.587													124	349	---	---	---	---	PASS	T	74032896	T	T	74032896	3	4	79	1	0	0	0	0	1	0	0	0	1807	304	11	5	641	5	C15orf59	15	74032896	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	397007	74032896	28498496	254	30189										
LINGO1	84894	broad.mit.edu	37	chr15	77906692	77906692	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttgggctgatggggccagtcGggcgagtagctgcgcacatg	18	9	0	1	rs61737307	by1000genomes	TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:77906692G>C	uc002bct.1	-	2	1609	c.1557C>G	c.(1555-1557)CCC>CCG	p.P519P	LINGO1_uc002bcu.1_Silent_p.P513P	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	519	Extracellular (Potential).				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						GGGGCCAGTCGGGCGAGTAGC	0.662													19	60	---	---	---	---	PASS	C	77906692	C	C	77906692	2	2	79	1	0	0	0	0	0	0	0	1	8814	1103	39	4		4	LINGO1	15	77906692	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	3873796	77906692	24624700	255	30190										
IL16	3603	broad.mit.edu	37	chr15	81601090	81601090	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acctgtcacgattgtcatcaGgagaaaaagcctccagtcca	8	12	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr15:81601090G>A	uc002bgh.3	+	19	4326	c.3950G>A	c.(3949-3951)AGG>AAG	p.R1317K	IL16_uc002bge.3_RNA|IL16_uc010unp.1_Missense_Mutation_p.R1358K|IL16_uc002bgg.2_Missense_Mutation_p.R1316K|IL16_uc002bgj.2_Missense_Mutation_p.R810K|IL16_uc002bgk.2_Missense_Mutation_p.R616K	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	1317	PDZ 4.				immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						ATTGTCATCAGGAGAAAAAGC	0.532													63	52	---	---	---	---	PASS	A	81601090	A	A	81601090	3	1	79	1	0	0	0	0	1	0	0	0	7633	1000	35	3	4020	3	IL16	15	81601090	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	3694398	81601090	20930302	256	30191										
HBA2	3040	broad.mit.edu	37	chr16	227341	227341	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctccccgccgagttcaccccTgcggtgcacgcctccctgga	10	20	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr16:227341T>C	uc002cfw.2	+	3	426	c.360T>C	c.(358-360)CCT>CCC	p.P120P	HBA1_uc002cfx.1_Silent_p.P120P|HBA1_uc002cfy.1_Silent_p.P88P|HBQ1_uc002cfz.2_5'Flank	NM_000558	NP_000549	P69905	HBA_HUMAN	alpha 1 globin	120					hydrogen peroxide catabolic process|positive regulation of cell death|protein heterooligomerization	cytosolic small ribosomal subunit|haptoglobin-hemoglobin complex|hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity|protein binding				0		all_cancers(16;2.03e-06)|all_epithelial(16;5.16e-06)|Hepatocellular(16;0.000325)|Lung NSC(18;0.0138)|all_lung(18;0.0306)			Amodiaquine(DB00613)|Chloroquine(DB00608)|Iron Dextran(DB00893)|Mefloquine(DB00358)|Primaquine(DB01087)|Quinine(DB00468)	AGTTCACCCCTGCGGTGCACG	0.657											OREG0003687	type=REGULATORY REGION|Gene=SERPINB9|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	14	21	---	---	---	---	PASS	C	227341	C	C	227341	2	2	79	1	0	0	0	0	0	0	0	1	6977	1567	55	5		5	HBA2	16	227341	Silent	SNP	T	TCGA-37-4135-01A-01D-1352-08		227341	90127412	257	30192										
PDIA2	64714	broad.mit.edu	37	chr16	335151	335151	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggacctgggggatctgtcgcGcttcctggtcacacacagca	13	13	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr16:335151G>C	uc002cgn.1	+	10	1854	c.746G>C	c.(745-747)CGC>CCC	p.R249P	PDIA2_uc010bqt.1_Missense_Mutation_p.R94P|PDIA2_uc002cgo.1_Missense_Mutation_p.R249P	NM_006849	NP_006840	Q13087	PDIA2_HUMAN	protein disulfide isomerase A2 precursor	249					apoptosis|cell redox homeostasis|glycerol ether metabolic process|protein folding|protein retention in ER lumen|response to hypoxia	endoplasmic reticulum lumen	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity|steroid binding			central_nervous_system(1)|skin(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				GATCTGTCGCGCTTCCTGGTC	0.657													35	48	---	---	---	---	PASS	C	335151	C	C	335151	3	2	79	1	0	0	0	0	1	0	0	0	11668	1087	38	4	764	4	PDIA2	16	335151	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	107810	335151	90019602	258	30193										
WDR90	197335	broad.mit.edu	37	chr16	708597	708597	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cccgcttcctgctgattgccGccggccggaccatcaaggtg	12	16	1	1	rs142498602	by1000genomes	TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr16:708597G>T	uc002cii.1	+	23	2893	c.2839G>T	c.(2839-2841)GCC>TCC	p.A947S	WDR90_uc002cij.1_Intron|WDR90_uc002cik.1_Missense_Mutation_p.A474S|WDR90_uc002cil.1_RNA|WDR90_uc002cim.1_Missense_Mutation_p.A121S|WDR90_uc002cin.1_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	947	WD 10.									ovary(1)	1		Hepatocellular(780;0.0218)				GCTGATTGCCGCCGGCCGGAC	0.672													65	67	---	---	---	---	PASS	T	708597	T	T	708597	3	4	79	1	0	0	0	0	1	0	0	0	17334	1087	38	1	2929	1	WDR90	16	708597	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	373446	708597	89646156	259	30194										
TBL3	10607	broad.mit.edu	37	chr16	2026220	2026220	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccctgtccccaggatcagagCgtccgtatctggagaatgaa	11	12	2	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr16:2026220C>A	uc002cnu.1	+	13	1299	c.1197C>A	c.(1195-1197)AGC>AGA	p.S399R	TBL3_uc002cnv.1_Missense_Mutation_p.S285R|TBL3_uc010bsb.1_Missense_Mutation_p.S188R|TBL3_uc010bsc.1_Missense_Mutation_p.S285R|TBL3_uc010uvt.1_5'UTR|TBL3_uc002cnw.1_5'Flank	NM_006453	NP_006444	Q12788	TBL3_HUMAN	transducin beta-like 3	399	WD 8.				G-protein signaling, coupled to cGMP nucleotide second messenger|rRNA processing	nucleolus|small-subunit processome	receptor signaling protein activity				0						AGGATCAGAGCGTCCGTATCT	0.632													45	44	---	---	---	---	PASS	A	2026220	A	A	2026220	3	1	79	1	0	0	0	0	1	0	0	0	15640	767	27	1	1247	1	TBL3	16	2026220	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	1317623	2026220	88328533	260	30195										
SALL1	6299	broad.mit.edu	37	chr16	51175301	51175301	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgtggacaaggggttggcagAtgttcgtaaagtaccttgag	15	6	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr16:51175301A>G	uc010vgs.1	-	2	863	c.832T>C	c.(832-834)TCT>CCT	p.S278P	SALL1_uc010vgr.1_Missense_Mutation_p.S181P|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	278					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GGGTTGGCAGATGTTCGTAAA	0.493													150	151	---	---	---	---	PASS	G	51175301	G	G	51175301	3	3	79	1	0	0	0	0	1	0	0	0	13810	333	12	5	3150	5	SALL1	16	51175301	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	49149081	51175301	39179452	261	30196										
CDH11	1009	broad.mit.edu	37	chr16	65022115	65022115	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agtccgttgtgatttcaaacGattccataccatctccatca	5	12	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr16:65022115G>T	uc002eoi.2	-	7	1378	c.944C>A	c.(943-945)TCG>TAG	p.S315*	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Nonsense_Mutation_p.S315*|CDH11_uc010vin.1_Nonsense_Mutation_p.S189*	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	315	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		GATTTCAAACGATTCCATACC	0.443			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			340	419	---	---	---	---	PASS	T	65022115	T	T	65022115	4	4	79	1	0	0	0	0	0	1	0	0	3097	1059	37	2	1474	2	CDH11	16	65022115	Nonsense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	13846814	65022115	25332638	262	30197										
FUK	197258	broad.mit.edu	37	chr16	70505156	70505156	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cactccaaggccctgcatggCcgggagctgcgtgaccttgt	13	14	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr16:70505156C>A	uc002eyy.2	+	13	1300	c.1242C>A	c.(1240-1242)GGC>GGA	p.G414G	FUK_uc010cft.2_Silent_p.G446G|FUK_uc002eyz.2_5'UTR	NM_145059	NP_659496	Q8N0W3	FUK_HUMAN	fucokinase	414						cytoplasm	ATP binding|fucokinase activity			ovary(1)	1		Ovarian(137;0.0694)				CCCTGCATGGCCGGGAGCTGC	0.682													21	24	---	---	---	---	PASS	A	70505156	A	A	70505156	2	1	79	1	0	0	0	0	0	0	0	1	6096	726	26	3		3	FUK	16	70505156	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	5483041	70505156	19849597	263	30198										
MON1B	22879	broad.mit.edu	37	chr16	77228951	77228951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cctcatcagccagtgctcctGcctacagcgtgcaggctgtc	10	16	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr16:77228951G>T	uc002fez.2	+	4	1525	c.1195G>T	c.(1195-1197)GCC>TCC	p.A399S	MON1B_uc010vnf.1_Missense_Mutation_p.A290S|MON1B_uc010vng.1_Missense_Mutation_p.A253S|MON1B_uc002ffa.2_Missense_Mutation_p.A279S	NM_014940	NP_055755	Q7L1V2	MON1B_HUMAN	MON1 homolog B	399							protein binding				0						CAGTGCTCCTGCCTACAGCGT	0.642													13	14	---	---	---	---	PASS	T	77228951	T	T	77228951	3	4	79	1	0	0	0	0	1	0	0	0	9699	1319	46	3	1205	3	MON1B	16	77228951	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	6723795	77228951	13125802	264	30199										
FOXC2	2303	broad.mit.edu	37	chr16	86601098	86601098	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agcagtacagcgcggggatgGgccgctcctacgcgccctac	14	15	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr16:86601098G>A	uc002fjq.2	+	1	242	c.157G>A	c.(157-159)GGC>AGC	p.G53S		NM_005251	NP_005242	Q99958	FOXC2_HUMAN	forkhead box C2	53					anti-apoptosis|artery morphogenesis|blood vessel remodeling|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|embryonic viscerocranium morphogenesis|insulin receptor signaling pathway|lymphangiogenesis|metanephros development|negative regulation of transcription from RNA polymerase II promoter|neural crest cell fate commitment|Notch signaling pathway|ossification|paraxial mesodermal cell fate commitment|patterning of blood vessels|positive regulation of cell adhesion mediated by integrin|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of vascular wound healing|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|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 factor binding|transcription regulatory region DNA binding				0						CGCGGGGATGGGCCGCTCCTA	0.677									Late-onset_Hereditary_Lymphedema				37	50	---	---	---	---	PASS	A	86601098	A	A	86601098	3	1	79	1	0	0	0	0	1	0	0	0	5995	1232	43	3	159	3	FOXC2	16	86601098	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	9372147	86601098	3753655	265	30200										
TP53	7157	broad.mit.edu	37	chr17	7579485	7579485	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggccacggggggagcagcctCtggcattctgggagcttcat	16	11	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:7579485C>A	uc002gim.2	-	4	396	c.202G>T	c.(202-204)GAG>TAG	p.E68*	TP53_uc002gig.1_Nonsense_Mutation_p.E68*|TP53_uc002gih.2_Nonsense_Mutation_p.E68*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Nonsense_Mutation_p.E68*|TP53_uc010cni.1_Nonsense_Mutation_p.E68*|TP53_uc002gij.2_Nonsense_Mutation_p.E68*|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Nonsense_Mutation_p.E29*|TP53_uc010cnk.1_Nonsense_Mutation_p.E83*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	68	Interaction with WWOX.|Interaction with HRMT1L2.		E -> Q (in a sporadic cancer; somatic mutation).|E -> G (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.E68*(4)|p.G59fs*23(3)|p.E68G(2)|p.E68fs*55(2)|p.E68fs*76(1)|p.D48fs*55(1)|p.R65_P71delRMPEAAP(1)|p.E68fs*81(1)|p.P13fs*18(1)|p.R65fs*38(1)|p.D57_A76del20(1)|p.E68Q(1)|p.S33fs*23(1)|p.M66fs*80(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)		GGAGCAGCCTCTGGCATTCTG	0.607		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)			206	36	---	---	---	---	PASS	A	7579485	A	A	7579485	4	1	79	1	0	0	0	0	0	1	0	0	16378	922	32	2	1100	2	TP53	17	7579485	Nonsense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08		7579485	73615725	266	30201										
MYH1	4619	broad.mit.edu	37	chr17	10400464	10400464	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	attttttccagttcatggatGcgctttcctccttctgcaat	6	11	2	0	rs61730796		TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:10400464G>T	uc002gmo.2	-	33	4672	c.4578C>A	c.(4576-4578)CGC>CGA	p.R1526R	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1526	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						GTTCATGGATGCGCTTTCCTC	0.378													80	12	---	---	---	---	PASS	T	10400464	T	T	10400464	2	4	79	1	0	0	0	0	0	0	0	1	10029	1306	46	3		3	MYH1	17	10400464	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	2820979	10400464	70794746	267	30202										
KCNJ12	3768	broad.mit.edu	37	chr17	21319347	21319347	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gaggcccatgtgcgcgcgcaGctcatcaagccgcgggtcac	14	15	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:21319347G>T	uc002gyv.1	+	3	1398	c.693G>T	c.(691-693)CAG>CAT	p.Q231H		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	231	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	TGCGCGCGCAGCTCATCAAGC	0.637										Prostate(3;0.18)			4	42	---	---	---	---	PASS	T	21319347	T	T	21319347	3	4	79	1	0	0	0	0	1	0	0	0	8046	962	34	3	695	3	KCNJ12	17	21319347	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	10918883	21319347	59875863	268	30203										
SUPT6H	6830	broad.mit.edu	37	chr17	27011603	27011603	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctgttgtgtctcttccctcaGgcctgtagtcgaaagctcta	9	12	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:27011603G>T	uc002hby.2	+	18	2320	c.2230_splice	c.e18-1	p.A744_splice	SUPT6H_uc010crt.2_Splice_Site_p.A744_splice	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog						chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					TCTTCCCTCAGGCCTGTAGTC	0.478													84	122	---	---	---	---	PASS	T	27011603	T	T	27011603	5	4	79	1	0	0	0	0	0	0	1	0	15397	1014	35	3	2295	3	SUPT6H	17	27011603	Splice_Site	SNP	G	TCGA-37-4135-01A-01D-1352-08	5692256	27011603	54183607	269	30204										
SPACA3	124912	broad.mit.edu	37	chr17	31324532	31324532	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aacccaagagcctcagggtcTgggttactggtaagtaactt	11	9	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:31324532T>A	uc002hhs.1	+	4	647	c.572T>A	c.(571-573)CTG>CAG	p.L191Q	SPACA3_uc010cte.1_RNA	NM_173847	NP_776246	Q8IXA5	SACA3_HUMAN	sperm acrosome associated 3	191	Extracellular (Potential).				cell wall macromolecule catabolic process|defense response to Gram-positive bacterium|monocyte activation|peptidoglycan catabolic process|positive regulation of macrophage activation|positive regulation of phagocytosis|response to virus	acrosomal membrane|extracellular region|integral to membrane|lysosome	bacterial cell surface binding|lysozyme activity|protein binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.193)			CCTCAGGGTCTGGGTTACTGG	0.507													205	213	---	---	---	---	PASS	A	31324532	A	A	31324532	3	1	79	1	0	0	0	0	1	0	0	0	14973	1580	55	5	586	5	SPACA3	17	31324532	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	4312929	31324532	49870678	270	30205										
ACACA	31	broad.mit.edu	37	chr17	35598928	35598928	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aagacttcccgttcagatttCcggttcaatgtagctgcatg	9	10	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:35598928C>G	uc002hnm.2	-	23	3053	c.2862G>C	c.(2860-2862)CGG>CGC	p.R954R	ACACA_uc002hnk.2_Silent_p.R876R|ACACA_uc002hnl.2_Silent_p.R896R|ACACA_uc002hnn.2_Silent_p.R954R|ACACA_uc002hno.2_Silent_p.R991R|ACACA_uc010cuz.2_Silent_p.R954R	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	954					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	GTTCAGATTTCCGGTTCAATG	0.423													123	165	---	---	---	---	PASS	G	35598928	G	G	35598928	2	3	79	1	0	0	0	0	0	0	0	1	106	842	30	2		2	ACACA	17	35598928	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	4274396	35598928	45596282	271	30206										
MED1	5469	broad.mit.edu	37	chr17	37564252	37564252	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cccaggtttctgcaaagtcaCtttggctttaatgctagggg	11	9	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:37564252C>T	uc002hrv.3	-	17	4434	c.4222G>A	c.(4222-4224)GTG>ATG	p.V1408M	MED1_uc010wee.1_Missense_Mutation_p.V1236M|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1408	Ser-rich.|Interaction with TP53.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		TGCAAAGTCACTTTGGCTTTA	0.458										HNSCC(31;0.082)			72	220	---	---	---	---	PASS	T	37564252	T	T	37564252	3	4	79	1	0	0	0	0	1	0	0	0	9425	565	20	3	527	3	MED1	17	37564252	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	1965324	37564252	43630958	272	30207										
KRT36	8689	broad.mit.edu	37	chr17	39645861	39645861	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gctgccgttgaaggagccctCgcagaaccagcccccgctcc	11	18	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:39645861C>T	uc002hwt.2	-	1	256	c.256G>A	c.(256-258)GAG>AAG	p.E86K		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	86	Head.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)				AAGGAGCCCTCGCAGAACCAG	0.627													4	103	---	---	---	---	PASS	T	39645861	T	T	39645861	3	4	79	1	0	0	0	0	1	0	0	0	8473	893	31	2	1175	2	KRT36	17	39645861	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2081609	39645861	41549349	273	30208										
EZH1	2145	broad.mit.edu	37	chr17	40880898	40880898	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gtcgaagtcgcatgtattcaGatttcacttttcttttccag	7	9	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:40880898G>T	uc002iaz.2	-	3	207	c.62C>A	c.(61-63)TCT>TAT	p.S21Y	EZH1_uc002iba.2_Missense_Mutation_p.S21Y|EZH1_uc010wgt.1_Intron|EZH1_uc010wgu.1_Missense_Mutation_p.S27Y|EZH1_uc010wgv.1_Missense_Mutation_p.S21Y|EZH1_uc010wgw.1_Translation_Start_Site|EZH1_uc010cyp.2_Translation_Start_Site|EZH1_uc010cyq.2_Missense_Mutation_p.S21Y|EZH1_uc010cys.2_Missense_Mutation_p.S21Y	NM_001991	NP_001982	Q92800	EZH1_HUMAN	enhancer of zeste homolog 1	21					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	chromatin binding|DNA binding			ovary(3)	3		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0784)		CATGTATTCAGATTTCACTTT	0.353													180	224	---	---	---	---	PASS	T	40880898	T	T	40880898	3	4	79	1	0	0	0	0	1	0	0	0	5333	942	33	2	2257	2	EZH1	17	40880898	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1235037	40880898	40314312	274	30209										
KCNH6	81033	broad.mit.edu	37	chr17	61613156	61613156	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgctcatgtgcaccttcgcgCtcatagcgcactggctggcc	11	15	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:61613156C>A	uc002jay.2	+	6	1308	c.1228C>A	c.(1228-1230)CTC>ATC	p.L410I	KCNH6_uc002jax.1_Missense_Mutation_p.L410I|KCNH6_uc010wpl.1_Missense_Mutation_p.L287I|KCNH6_uc010wpm.1_Missense_Mutation_p.L410I|KCNH6_uc002jaz.1_Missense_Mutation_p.L410I	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	410	Helical; Name=Segment S5; (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	CACCTTCGCGCTCATAGCGCA	0.632													27	109	---	---	---	---	PASS	A	61613156	A	A	61613156	3	1	79	1	0	0	0	0	1	0	0	0	8036	797	28	3	1250	3	KCNH6	17	61613156	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	20732258	61613156	19582054	275	30210										
RNF157	114804	broad.mit.edu	37	chr17	74157722	74157722	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctcggatctgaagcagtgccCggaaggctgtgaaggagaaa	15	8	1	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:74157722C>T	uc002jqz.2	-	11	1028	c.959G>A	c.(958-960)CGG>CAG	p.R320Q	RNF157_uc002jra.2_Missense_Mutation_p.R320Q	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	320							zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			AAGCAGTGCCCGGAAGGCTGT	0.512													72	143	---	---	---	---	PASS	T	74157722	T	T	74157722	3	4	79	1	0	0	0	0	1	0	0	0	13454	652	23	1	1116	1	RNF157	17	74157722	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	12544566	74157722	7037488	276	30211										
RNF213	57674	broad.mit.edu	37	chr17	78335564	78335564	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gaagttcgtggacatctttcAgcagactcctctgggcaggt	12	10	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:78335564A>C	uc002jyh.1	+	14	5673	c.5450A>C	c.(5449-5451)CAG>CCG	p.Q1817P	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.Q199P	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)			GACATCTTTCAGCAGACTCCT	0.562													38	163	---	---	---	---	PASS	C	78335564	C	C	78335564	3	2	79	1	0	0	0	0	1	0	0	0	13477	188	7	5	11700	5	RNF213	17	78335564	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	4177842	78335564	2859646	277	30212										
CHMP6	79643	broad.mit.edu	37	chr17	78972932	78972932	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aaggccaggcccaggcaggcGgagctggtggcagcttcgta	17	11	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:78972932G>T	uc002jyw.3	+	8	663	c.585G>T	c.(583-585)GCG>GCT	p.A195A		NM_024591	NP_078867	Q96FZ7	CHMP6_HUMAN	chromatin modifying protein 6	195				Missing: Membrane association; releases autoinhibition.	cellular membrane organization|endosome transport|protein transport	cytosol|endomembrane system|late endosome membrane	protein N-terminus binding	p.A195V(1)		ovary(1)	1	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0175)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CCAGGCAGGCGGAGCTGGTGG	0.612													98	108	---	---	---	---	PASS	T	78972932	T	T	78972932	2	4	79	1	0	0	0	0	0	0	0	1	3360	1103	39	1		1	CHMP6	17	78972932	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	637368	78972932	2222278	278	30213										
BAHCC1	57597	broad.mit.edu	37	chr17	79430641	79430641	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgcgccttgcccccagaatgCgctgtaccagtcctgccacg	10	18	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:79430641C>T	uc002kaf.2	+	26	7625	c.7625C>T	c.(7624-7626)GCG>GTG	p.A2542V		NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	2542	BAH.						DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			CCCCAGAATGCGCTGTACCAG	0.667													17	78	---	---	---	---	PASS	T	79430641	T	T	79430641	3	4	79	1	0	0	0	0	1	0	0	0	1296	768	27	1	7566	1	BAHCC1	17	79430641	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	457709	79430641	1764569	279	30214										
NOTUM	147111	broad.mit.edu	37	chr17	79915782	79915782	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggcgcccatgaaggcgtactCgtctgcaagagggagggggt	18	9	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr17:79915782C>G	uc010wvg.1	-	6	867	c.595G>C	c.(595-597)GAG>CAG	p.E199Q		NM_178493	NP_848588	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog precursor	199						extracellular region	hydrolase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			AAGGCGTACTCGTCTGCAAGA	0.657													15	17	---	---	---	---	PASS	G	79915782	G	G	79915782	3	3	79	1	0	0	0	0	1	0	0	0	10552	893	31	2	919	2	NOTUM	17	79915782	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	485141	79915782	1279428	280	30215										
MYOM1	8736	broad.mit.edu	37	chr18	3079303	3079303	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gatctgctctccagtgacccCggtcttaactctgtctgagt	9	13	5	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr18:3079303C>A	uc002klp.2	-	34	4856	c.4522G>T	c.(4522-4524)GGG>TGG	p.G1508W	MYOM1_uc002klq.2_Missense_Mutation_p.G1412W	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	1508						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						CCAGTGACCCCGGTCTTAACT	0.473													66	112	---	---	---	---	PASS	A	3079303	A	A	3079303	3	1	79	1	0	0	0	0	1	0	0	0	10091	652	23	1	555	1	MYOM1	18	3079303	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08		3079303	74997945	281	30216										
LRRC30	339291	broad.mit.edu	37	chr18	7231852	7231852	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cagcctggagctgctgaaccTcaacaacaatgacatccaga	8	13	1	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr18:7231852T>A	uc010wzk.1	+	1	716	c.716T>A	c.(715-717)CTC>CAC	p.L239H		NM_001105581	NP_001099051	A6NM36	LRC30_HUMAN	leucine rich repeat containing 30	239	LRR 8.									ovary(1)|liver(1)	2						CTGCTGAACCTCAACAACAAT	0.577													111	20	---	---	---	---	PASS	A	7231852	A	A	7231852	3	1	79	1	0	0	0	0	1	0	0	0	8985	1551	54	5	718	5	LRRC30	18	7231852	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	4152549	7231852	70845396	282	30217										
KIAA0802	23255	broad.mit.edu	37	chr18	8824917	8824917	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acctttgggccgacaggaccGaggtggggcgggcagggcac	19	11	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr18:8824917G>A	uc002knr.2	+	15	3551	c.3409G>A	c.(3409-3411)GAG>AAG	p.E1137K	KIAA0802_uc002knq.2_Missense_Mutation_p.E1096K|KIAA0802_uc002kns.2_Missense_Mutation_p.E477K	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1447											0						CGACAGGACCGAGGTGGGGCG	0.612													39	93	---	---	---	---	PASS	A	8824917	A	A	8824917	3	1	79	1	0	0	0	0	1	0	0	0	8194	1059	37	2	3459	2	KIAA0802	18	8824917	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1593065	8824917	69252331	283	30218										
ABHD3	171586	broad.mit.edu	37	chr18	19244139	19244139	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggtacaggctgtgtacatggTgaataactgtctccaagtct	11	8	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr18:19244139T>A	uc002ktl.2	-	5	748	c.608A>T	c.(607-609)CAC>CTC	p.H203L	ABHD3_uc002ktm.2_Intron|ABHD3_uc010xao.1_RNA|ABHD3_uc002ktk.2_5'UTR	NM_138340	NP_612213	Q8WU67	ABHD3_HUMAN	alpha/beta hydrolase domain containing protein	203						integral to membrane	carboxylesterase activity			central_nervous_system(1)	1						GTGTACATGGTGAATAACTGT	0.433													30	76	---	---	---	---	PASS	A	19244139	A	A	19244139	3	1	79	1	0	0	0	0	1	0	0	0	83	1696	59	5	641	5	ABHD3	18	19244139	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	10419222	19244139	58833109	284	30219										
ZNF521	25925	broad.mit.edu	37	chr18	22671936	22671936	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gtaaagcagactggacacttGaaggtgcctcccatcccttc	9	13	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr18:22671936G>T	uc002kvk.2	-	6	4015	c.3768C>A	c.(3766-3768)TTC>TTA	p.F1256L	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.F1256L|ZNF521_uc002kvl.2_Missense_Mutation_p.F1036L	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	1256	C2H2-type 29.				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)					CTGGACACTTGAAGGTGCCTC	0.498			T	PAX5	ALL								61	45	---	---	---	---	PASS	T	22671936	T	T	22671936	3	4	79	1	0	0	0	0	1	0	0	0	17962	1281	45	2	179	2	ZNF521	18	22671936	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	3427797	22671936	55405312	285	30220										
CHST9	83539	broad.mit.edu	37	chr18	24496372	24496372	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggaagagtgcctatccttaaAgttgggaaatttcagctcct	10	8	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr18:24496372A>G	uc002kwd.2	-	5	1381	c.1183T>C	c.(1183-1185)TTT>CTT	p.F395L	C18orf16_uc002kwb.2_Intron|C18orf16_uc010xbm.1_Intron|CHST9_uc002kwc.2_Missense_Mutation_p.F310L|CHST9_uc002kwe.2_Missense_Mutation_p.F395L	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	395	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					CTATCCTTAAAGTTGGGAAAT	0.378													56	393	---	---	---	---	PASS	G	24496372	G	G	24496372	3	3	79	1	0	0	0	0	1	0	0	0	3411	72	3	5	152	5	CHST9	18	24496372	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	1824436	24496372	53580876	286	30221										
DSG1	1828	broad.mit.edu	37	chr18	28911754	28911754	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	caagattataagacaagaacCttcagattcaccaatgttta	5	8	2	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr18:28911754C>T	uc002kwp.2	+	6	820	c.608C>T	c.(607-609)CCT>CTT	p.P203L		NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	203	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			AGACAAGAACCTTCAGATTCA	0.333													98	132	---	---	---	---	PASS	T	28911754	T	T	28911754	3	4	79	1	0	0	0	0	1	0	0	0	4776	681	24	3	630	3	DSG1	18	28911754	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	4415382	28911754	49165494	287	30222										
RIT2	6014	broad.mit.edu	37	chr18	40695447	40695447	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctctggacccgcctgatgcgCtgcccggggagcagctggct	15	15	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr18:40695447C>A	uc002lav.2	-	1	211	c.38G>T	c.(37-39)AGC>ATC	p.S13I	RIT2_uc010dnf.2_Missense_Mutation_p.S13I	NM_002930	NP_002921	Q99578	RIT2_HUMAN	Ras-like without CAAX 2	13					nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1						GCCTGATGCGCTGCCCGGGGA	0.552													103	123	---	---	---	---	PASS	A	40695447	A	A	40695447	3	1	79	1	0	0	0	0	1	0	0	0	13387	797	28	3	635	3	RIT2	18	40695447	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	11783693	40695447	37381801	288	30223										
SERPINB11	89778	broad.mit.edu	37	chr18	61379905	61379905	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgccaacaggctctacgggaCaaagacgatggcatttcatc	10	11	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr18:61379905C>A	uc002ljk.3	+	5	397	c.335C>A	c.(334-336)ACA>AAA	p.T112K	SERPINB11_uc010xes.1_5'UTR|SERPINB11_uc010dqd.2_5'UTR|SERPINB11_uc002ljj.3_5'UTR|SERPINB11_uc010dqe.2_5'UTR|SERPINB11_uc010dqf.2_Intron	NM_080475	NP_536723	Q96P15	SPB11_HUMAN	serpin peptidase inhibitor, clade B, member 11	112					regulation of proteolysis	cytoplasm	serine-type endopeptidase inhibitor activity			breast(1)	1		Esophageal squamous(42;0.129)				CTCTACGGGACAAAGACGATG	0.438													48	174	---	---	---	---	PASS	A	61379905	A	A	61379905	3	1	79	1	0	0	0	0	1	0	0	0	14098	478	17	3	345	3	SERPINB11	18	61379905	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	20684458	61379905	16697343	289	30224										
CCDC102B	79839	broad.mit.edu	37	chr18	66678275	66678275	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgagtggatcaaaatgaagcAgaagtaaagaaactaagatt	10	4	1	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr18:66678275A>T	uc002lkk.2	+	9	1591	c.1368A>T	c.(1366-1368)GCA>GCT	p.A456A	CCDC102B_uc002lki.2_Silent_p.A456A	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	456	Potential.									ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				AAAATGAAGCAGAAGTAAAGA	0.393													86	72	---	---	---	---	PASS	T	66678275	T	T	66678275	2	4	79	1	0	0	0	0	0	0	0	1	2737	175	7	5		5	CCDC102B	18	66678275	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08	5298370	66678275	11398973	290	30225										
ZNF557	79230	broad.mit.edu	37	chr19	7082909	7082909	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gagaggaatcatcttggagcAacactcaacgaatgtaatca	9	8	4	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:7082909A>G	uc002mgb.2	+	8	911	c.426A>G	c.(424-426)GCA>GCG	p.A142A	ZNF557_uc002mga.2_Silent_p.A149A|ZNF557_uc002mgc.2_Silent_p.A149A	NM_001044388	NP_001037853	Q8N988	ZN557_HUMAN	zinc finger protein 557 isoform b	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2				Lung(535;0.179)		ATCTTGGAGCAACACTCAACG	0.383													96	23	---	---	---	---	PASS	G	7082909	G	G	7082909	2	3	79	1	0	0	0	0	0	0	0	1	17985	117	5	5		5	ZNF557	19	7082909	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08		7082909	52046074	291	30226										
MAP2K7	5609	broad.mit.edu	37	chr19	7975984	7975984	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctctgcgacttcggcatcagCggccgcctggtggactccaa	12	15	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:7975984C>A	uc002mit.2	+	7	860	c.795C>A	c.(793-795)AGC>AGA	p.S265R	MAP2K7_uc002miv.2_Missense_Mutation_p.S265R|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.S265R|MAP2K7_uc010dvv.2_Missense_Mutation_p.S140R	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	265	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|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|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	TCGGCATCAGCGGCCGCCTGG	0.682													33	7	---	---	---	---	PASS	A	7975984	A	A	7975984	3	1	79	1	0	0	0	0	1	0	0	0	9242	767	27	1	821	1	MAP2K7	19	7975984	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	893075	7975984	51152999	292	30227										
MUC16	94025	broad.mit.edu	37	chr19	9011492	9011492	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tggctgccccattcttctcaGgcctggggaaggaaggtggg	16	10	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:9011492G>T	uc002mkp.2	-	36	38945	c.38741C>A	c.(38740-38742)CCT>CAT	p.P12914H	MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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						ATTCTTCTCAGGCCTGGGGAA	0.527													134	27	---	---	---	---	PASS	T	9011492	T	T	9011492	3	4	79	1	0	0	0	0	1	0	0	0	9973	1000	35	3	4978	3	MUC16	19	9011492	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1035508	9011492	50117491	293	30228										
RDH8	50700	broad.mit.edu	37	chr19	10132324	10132324	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cctctggcagcctgtatgtgCgaacgacccaccgcctcctc	9	18	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:10132324C>A	uc002mmr.2	+	6	1084	c.835C>A	c.(835-837)CGA>AGA	p.R279R		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	279					estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	CCTGTATGTGCGAACGACCCA	0.632													42	8	---	---	---	---	PASS	A	10132324	A	A	10132324	2	1	79	1	0	0	0	0	0	0	0	1	13196	760	27	1		1	RDH8	19	10132324	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	1120832	10132324	48996659	294	30229										
FDX1L	112812	broad.mit.edu	37	chr19	10421531	10421531	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cagggctgacccactcacctCtcctcgggaggaggcaggag	14	14	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:10421531C>A	uc002mny.1	-	4	412	c.393G>T	c.(391-393)GAG>GAT	p.E131D	ZGLP1_uc002mnw.3_5'Flank|FDX1L_uc002mnx.1_RNA	NM_001031734	NP_001026904	Q6P4F2	ADXL_HUMAN	ferredoxin 1-like precursor	131	2Fe-2S ferredoxin-type.				electron transport chain|transport	mitochondrial matrix	2 iron, 2 sulfur cluster binding|electron carrier activity|metal ion binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(20;9.5e-10)|Epithelial(33;2.11e-06)|all cancers(31;5.06e-06)			CCACTCACCTCTCCTCGGGAG	0.622													35	5	---	---	---	---	PASS	A	10421531	A	A	10421531	3	1	79	1	0	0	0	0	1	0	0	0	5805	912	32	2	166	2	FDX1L	19	10421531	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	289207	10421531	48707452	295	30230										
ILVBL	10994	broad.mit.edu	37	chr19	15234199	15234199	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccctcaccggacaggcgggcCatagcatcagcagcaaagac	11	15	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:15234199C>T	uc002nam.2	-	3	445	c.324G>A	c.(322-324)ATG>ATA	p.M108I	ILVBL_uc010dzw.2_Missense_Mutation_p.M1I|ILVBL_uc010dzx.1_Missense_Mutation_p.M108I	NM_006844	NP_006835	A1L0T0	ILVBL_HUMAN	ilvB (bacterial acetolactate synthase)-like	108						integral to membrane	magnesium ion binding|thiamine pyrophosphate binding|transferase activity			ovary(2)	2						ACAGGCGGGCCATAGCATCAG	0.602													69	52	---	---	---	---	PASS	T	15234199	T	T	15234199	3	4	79	1	0	0	0	0	1	0	0	0	7715	594	21	3	1630	3	ILVBL	19	15234199	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	4812668	15234199	43894784	296	30231										
OR10H2	26538	broad.mit.edu	37	chr19	15839214	15839214	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgctcaccgtcatgggctacGaccgctacgtggccatctgc	11	15	3	0	rs113885700	byFrequency	TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:15839214G>T	uc002nbm.2	+	1	381	c.361G>T	c.(361-363)GAC>TAC	p.D121Y		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					CATGGGCTACGACCGCTACGT	0.652													36	84	---	---	---	---	PASS	T	15839214	T	T	15839214	3	4	79	1	0	0	0	0	1	0	0	0	10906	1058	37	2	363	2	OR10H2	19	15839214	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	605015	15839214	43289769	297	30232										
KCNN1	3780	broad.mit.edu	37	chr19	18100568	18100568	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tctcagggagacgtggctcaTctacaaacataccaggctgg	11	11	3	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:18100568T>C	uc002nht.2	+	8	1524	c.1214T>C	c.(1213-1215)ATC>ACC	p.I405T	KCNN1_uc010xqa.1_Missense_Mutation_p.I405T	NM_002248	NP_002239	Q92952	KCNN1_HUMAN	potassium intermediate/small conductance	405	Calmodulin-binding (By similarity).				synaptic transmission	voltage-gated potassium channel complex	calmodulin binding|small conductance calcium-activated potassium channel activity				0						ACGTGGCTCATCTACAAACAT	0.522													149	22	---	---	---	---	PASS	C	18100568	C	C	18100568	3	2	79	1	0	0	0	0	1	0	0	0	8078	1435	50	5	1236	5	KCNN1	19	18100568	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	2261354	18100568	41028415	298	30233										
ATP13A1	57130	broad.mit.edu	37	chr19	19762598	19762598	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agcgggttgtctcccgtgatCatgaccaccttgggtaaaga	12	10	2	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:19762598C>T	uc002nnh.3	-	17	2263	c.2235G>A	c.(2233-2235)ATG>ATA	p.M745I	ATP13A1_uc002nne.2_5'UTR|ATP13A1_uc002nnf.3_Missense_Mutation_p.M113I|ATP13A1_uc002nng.2_Missense_Mutation_p.M627I	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	745	Cytoplasmic (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(3)|large_intestine(2)|central_nervous_system(1)	6						CTCCCGTGATCATGACCACCT	0.597													36	9	---	---	---	---	PASS	T	19762598	T	T	19762598	3	4	79	1	0	0	0	0	1	0	0	0	1123	826	29	2	1419	2	ATP13A1	19	19762598	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	1662030	19762598	39366385	299	30234										
ZNF91	7644	broad.mit.edu	37	chr19	23542464	23542464	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgccacattctccacatttgTagggtttctctccggtgtgc	9	12	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:23542464T>C	uc002nre.2	-	4	3430	c.3317A>G	c.(3316-3318)TAC>TGC	p.Y1106C	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.Y1074C	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	1106	C2H2-type 35.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				TCCACATTTGTAGGGTTTCTC	0.398													100	19	---	---	---	---	PASS	C	23542464	C	C	23542464	3	2	79	1	0	0	0	0	1	0	0	0	18197	1638	57	5	262	5	ZNF91	19	23542464	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	3779866	23542464	35586519	300	30235										
LRP3	4037	broad.mit.edu	37	chr19	33698431	33698431	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gcaggaaccccccgccccccTgctccccaatgctggaggcc	10	21	0	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:33698431T>G	uc010edh.2	+	7	2356	c.2263T>G	c.(2263-2265)TGC>GGC	p.C755G	LRP3_uc002nuk.3_Missense_Mutation_p.C629G	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	755	Cytoplasmic (Potential).				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					CCCGCCCCCCTGCTCCCCAAT	0.687													13	1	---	---	---	---	PASS	G	33698431	G	G	33698431	3	3	79	1	0	0	0	0	1	0	0	0	8958	1580	55	5	2289	5	LRP3	19	33698431	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	10155967	33698431	25430552	301	30236										
SBSN	374897	broad.mit.edu	37	chr19	36019135	36019135	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgcccatccagacagggcccCcagtagcagaaggagggagc	14	14	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:36019135C>T	uc002oae.1	-	1	119	c.49G>A	c.(49-51)GGG>AGG	p.G17R	SBSN_uc002oad.1_Missense_Mutation_p.G17R	NM_198538	NP_940940	Q6UWP8	SBSN_HUMAN	suprabasin isoform 2 precursor	17						extracellular region				ovary(1)	1	all_lung(56;1.62e-08)|Lung NSC(56;2.47e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GACAGGGCCCCCAGTAGCAGA	0.607													39	46	---	---	---	---	PASS	T	36019135	T	T	36019135	3	4	79	1	0	0	0	0	1	0	0	0	13864	623	22	3	1739	3	SBSN	19	36019135	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	2320704	36019135	23109848	302	30237										
ZFP14	57677	broad.mit.edu	37	chr19	36831795	36831795	+	Frame_Shift_Del	DEL	G	-	-													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccacattccttacattcataGagcttttcagcagtatgaag							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:36831795delG	uc002odx.1	-	4	1026	c.933delC	c.(931-933)CTCfs	p.L311fs	ZFP14_uc010xtd.1_Frame_Shift_Del_p.L312fs|ZFP14_uc010eex.1_Frame_Shift_Del_p.L311fs	NM_020917	NP_065968	Q9HCL3	ZFP14_HUMAN	zinc finger protein 14-like	311					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.162)					TACATTCATAGAGCTTTTCAG	0.418													34	192	---	---	---	---		-	36831795	-	-	36831795	7	5	79	1	0	1	0	1	0	0	0	0	17636	929	33	0	672	0	ZFP14	19	36831795	Frame_Shift_Del	DEL	G	TCGA-37-4135-01A-01D-1352-08	812660	36831795	22297188	303	30238										
PSG9	5678	broad.mit.edu	37	chr19	43766118	43766118	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gtgacaccaaatagatagagGgtcctgttggttttggacag	13	6	0	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:43766118G>C	uc002owd.3	-	3	702	c.603C>G	c.(601-603)ACC>ACG	p.T201T	PSG9_uc002owe.3_Silent_p.T201T|PSG9_uc010xwm.1_Intron|PSG9_uc002owf.3_Intron|PSG9_uc002owg.2_Silent_p.T201T|PSG9_uc002owh.2_Intron	NM_002784	NP_002775	Q00887	PSG9_HUMAN	pregnancy specific beta-1-glycoprotein 9	201	Ig-like C2-type 1.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				ATAGATAGAGGGTCCTGTTGG	0.502													426	75	---	---	---	---	PASS	C	43766118	C	C	43766118	2	2	79	1	0	0	0	0	0	0	0	1	12662	1219	43	4		4	PSG9	19	43766118	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	6934323	43766118	15362865	304	30239										
ZNF235	9310	broad.mit.edu	37	chr19	44792476	44792476	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cacatctatagggcttctctCctgtgtgaataggcaaatga	9	9	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:44792476C>G	uc002oza.3	-	5	1215	c.1112G>C	c.(1111-1113)GGA>GCA	p.G371A	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF235_uc002ozb.3_Missense_Mutation_p.G367A|ZNF235_uc010xwx.1_Missense_Mutation_p.G285A	NM_004234	NP_004225	Q14590	ZN235_HUMAN	zinc finger protein 93 homolog	371					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)	3		Prostate(69;0.0352)|all_neural(266;0.116)				GGGCTTCTCTCCTGTGTGAAT	0.448													81	7	---	---	---	---	PASS	G	44792476	G	G	44792476	3	3	79	1	0	0	0	0	1	0	0	0	17785	855	30	2	1108	2	ZNF235	19	44792476	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	1026358	44792476	14336507	305	30240										
LMTK3	114783	broad.mit.edu	37	chr19	49001464	49001464	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttctccagcactttctcttcTctctcgggggaccccagggc	9	16	4	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:49001464T>C	uc002pjk.2	-	12	2949	c.2949A>G	c.(2947-2949)AGA>AGG	p.R983R		NM_001080434	NP_001073903			lemur tyrosine kinase 3											lung(5)|central_nervous_system(1)	6		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;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)		CTTTCTCTTCTCTCTCGGGGG	0.647													140	22	---	---	---	---	PASS	C	49001464	C	C	49001464	2	2	79	1	0	0	0	0	0	0	0	1	8860	1548	54	5		5	LMTK3	19	49001464	Silent	SNP	T	TCGA-37-4135-01A-01D-1352-08	4208988	49001464	10127519	306	30241										
SIGLEC14	100049587	broad.mit.edu	37	chr19	52148761	52148761	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccatttctgaagaagatgctGatggcgaggttctgtggagc	14	7	2	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:52148761G>C	uc002pxf.3	-	4	843	c.723C>G	c.(721-723)ATC>ATG	p.I241M		NM_001098612	NP_001092082	Q08ET2	SIG14_HUMAN	sialic acid binding Ig-like lectin 14 precursor	241	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to membrane|plasma membrane	protein binding|sugar binding			ovary(1)	1		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000965)|OV - Ovarian serous cystadenocarcinoma(262;0.0195)		AGAAGATGCTGATGGCGAGGT	0.562													68	24	---	---	---	---	PASS	C	52148761	C	C	52148761	3	2	79	1	0	0	0	0	1	0	0	0	14309	1280	45	2	483	2	SIGLEC14	19	52148761	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	3147297	52148761	6980222	307	30242										
ZNF808	388558	broad.mit.edu	37	chr19	53067638	53067638	+	RNA	DEL	G	-	-													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctgttatgaacgcattggttGggtgggttcagtaataaaca							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:53067638delG	uc002pzq.2	+	4		c.4150delG						Q8N4W9	ZN808_HUMAN	Homo sapiens zinc finger protein 808, mRNA (cDNA clone IMAGE:3542548), complete cds.						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		CGCATTGGTTGGGTGGGTTCA	0.308													2	10	---	---	---	---		-	53067638	-	-	53067638	6	5	79	0	1	1	0	1	0	0	0	0	18170	1363	47	0		0	ZNF808	19	53067638	RNA	DEL	G	TCGA-37-4135-01A-01D-1352-08	918877	53067638	6061345	308	30243										
VSTM1	284415	broad.mit.edu	37	chr19	54561751	54561751	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tgcgcagcacaaatgtcacaTtctgggaatgagcctgacac	10	11	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:54561751T>C	uc002qcw.3	-	3	340	c.164A>G	c.(163-165)AAT>AGT	p.N55S	VSTM1_uc010erb.2_RNA|VSTM1_uc002qcx.3_Missense_Mutation_p.N55S	NM_198481	NP_940883	Q6UX27	VSTM1_HUMAN	V-set and transmembrane domain containing 1	55	Ig-like V-type.					integral to membrane					0	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.165)		AAATGTCACATTCTGGGAATG	0.562													171	45	---	---	---	---	PASS	C	54561751	C	C	54561751	3	2	79	1	0	0	0	0	1	0	0	0	17225	1493	52	5	574	5	VSTM1	19	54561751	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	1494113	54561751	4567232	309	30244										
LILRB2	10288	broad.mit.edu	37	chr19	54783745	54783745	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gtgttcccaggtgatggatgGgatgtggaactggccgttct	16	7	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:54783745G>A	uc002qfb.2	-	4	522	c.256C>T	c.(256-258)CCA>TCA	p.P86S	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Missense_Mutation_p.P86S|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Missense_Mutation_p.P86S|LILRB2_uc010yet.1_5'UTR|LILRB2_uc010yeu.1_RNA	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	86	Extracellular (Potential).|Ig-like C2-type 1.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GTGATGGATGGGATGTGGAAC	0.537													198	34	---	---	---	---	PASS	A	54783745	A	A	54783745	3	1	79	1	0	0	0	0	1	0	0	0	8791	1232	43	3	1584	3	LILRB2	19	54783745	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	221994	54783745	4345238	310	30245										
ZNF787	126208	broad.mit.edu	37	chr19	56600346	56600346	+	Frame_Shift_Del	DEL	G	-	-													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccacactcgttgcagatgtaGggggcgggcggccgcggccg							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:56600346delG	uc010eth.1	-	3	314	c.195delC	c.(193-195)CCCfs	p.P65fs		NM_001002836	NP_001002836	Q6DD87	ZN787_HUMAN	zinc finger protein 787	65	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0559)		TGCAGATGTAgggggcgggcg	0.507													5	13	---	---	---	---		-	56600346	-	-	56600346	7	5	79	1	0	1	0	1	0	0	0	0	18156	987	35	0	960	0	ZNF787	19	56600346	Frame_Shift_Del	DEL	G	TCGA-37-4135-01A-01D-1352-08	1816601	56600346	2528637	311	30246										
ZSCAN5B	342933	broad.mit.edu	37	chr19	56701621	56701621	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	attgcacacgtcacatgcaaAgggcggcagggccttggctt	13	11	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr19:56701621A>G	uc010ygh.1	-	4	1063	c.1063T>C	c.(1063-1065)TTT>CTT	p.F355L		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	355	C2H2-type 1.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TCACATGCAAAGGGCGGCAGG	0.527													106	15	---	---	---	---	PASS	G	56701621	G	G	56701621	3	3	79	1	0	0	0	0	1	0	0	0	18236	72	3	5	428	5	ZSCAN5B	19	56701621	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08	101275	56701621	2427362	312	30247										
FLRT3	23767	broad.mit.edu	37	chr20	14307905	14307905	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggtatattctttctactttcAgcaagtttttcaaatctgaa	5	7	5	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr20:14307905A>T	uc002wov.1	-	3	715	c.248T>A	c.(247-249)CTG>CAG	p.L83Q	MACROD2_uc002wot.2_Intron|MACROD2_uc002wou.2_Intron|FLRT3_uc002wow.1_Missense_Mutation_p.L83Q	NM_198391	NP_938205	Q9NZU0	FLRT3_HUMAN	fibronectin leucine rich transmembrane protein 3	83	Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			kidney(1)	1		Colorectal(1;0.0464)	COAD - Colon adenocarcinoma(2;0.129)	Colorectal(1;0.0393)		TTCTACTTTCAGCAAGTTTTT	0.348													129	187	---	---	---	---	PASS	T	14307905	T	T	14307905	3	4	79	1	0	0	0	0	1	0	0	0	5940	188	7	5	1705	5	FLRT3	20	14307905	Missense_Mutation	SNP	A	TCGA-37-4135-01A-01D-1352-08		14307905	48717615	313	30248										
PCSK2	5126	broad.mit.edu	37	chr20	17341277	17341277	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aggtgttaccattggaattaTggatgatggtgagtattttg	13	2	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr20:17341277T>C	uc002wpm.2	+	4	817	c.497T>C	c.(496-498)ATG>ACG	p.M166T	PCSK2_uc002wpl.2_Missense_Mutation_p.M147T|PCSK2_uc010zrm.1_Missense_Mutation_p.M131T	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	166	Catalytic.				enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ATTGGAATTATGGATGATGGT	0.443													11	25	---	---	---	---	PASS	C	17341277	C	C	17341277	3	2	79	1	0	0	0	0	1	0	0	0	11601	1464	51	5	511	5	PCSK2	20	17341277	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	3033372	17341277	45684243	314	30249										
ZNF341	84905	broad.mit.edu	37	chr20	32349741	32349741	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agaagtctaatgttaagaaaCacatgcagacccacaaggtg	9	8	1	3			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr20:32349741C>G	uc002wzy.2	+	8	1122	c.1102C>G	c.(1102-1104)CAC>GAC	p.H368D	ZNF341_uc002wzx.2_Missense_Mutation_p.H361D|ZNF341_uc010geq.2_Missense_Mutation_p.H278D|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	368	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TGTTAAGAAACACATGCAGAC	0.567													113	372	---	---	---	---	PASS	G	32349741	G	G	32349741	3	3	79	1	0	0	0	0	1	0	0	0	17854	478	17	4	1111	4	ZNF341	20	32349741	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	15008464	32349741	30675779	315	30250										
CHMP4B	128866	broad.mit.edu	37	chr20	32438839	32438839	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gagatttcaacagcaatttcGaaacctgtagggtttggaga	11	6	1	2	rs146262818	byFrequency	TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr20:32438839G>A	uc002xaa.2	+	3	606	c.450G>A	c.(448-450)TCG>TCA	p.S150S		NM_176812	NP_789782	Q9H444	CHM4B_HUMAN	chromatin modifying protein 4B	150	Potential.				cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			ovary(1)|central_nervous_system(1)	2						CAGCAATTTCGAAACCTGTAG	0.438													74	261	---	---	---	---	PASS	A	32438839	A	A	32438839	2	1	79	1	0	0	0	0	0	0	0	1	3357	1045	37	2		2	CHMP4B	20	32438839	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	89098	32438839	30586681	316	30251										
FAM83C	128876	broad.mit.edu	37	chr20	33875407	33875407	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acagttggcgatgtagggagGgctggccactggcctcacgg	17	10	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr20:33875407G>T	uc010zux.1	-	4	1293	c.1175C>A	c.(1174-1176)CCC>CAC	p.P392H	EIF6_uc002xbv.1_5'Flank|EIF6_uc002xbx.1_5'Flank|EIF6_uc002xbz.1_5'Flank|EIF6_uc002xby.1_5'Flank|FAM83C_uc002xcb.1_Intron	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	392										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			ATGTAGGGAGGGCTGGCCACT	0.637													47	13	---	---	---	---	PASS	T	33875407	T	T	33875407	3	4	79	1	0	0	0	0	1	0	0	0	5635	1232	43	3	1072	3	FAM83C	20	33875407	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1436568	33875407	29150113	317	30252										
CHD6	84181	broad.mit.edu	37	chr20	40050343	40050343	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gtcctactcatttgagaataTgtaagagattcatataactt	6	6	2	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr20:40050343T>C	uc002xka.1	-	31	5110	c.4932A>G	c.(4930-4932)ACA>ACG	p.T1644T		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1644					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TTTGAGAATATGTAAGAGATT	0.423													85	41	---	---	---	---	PASS	C	40050343	C	C	40050343	2	2	79	1	0	0	0	0	0	0	0	1	3329	1451	51	5		5	CHD6	20	40050343	Silent	SNP	T	TCGA-37-4135-01A-01D-1352-08	6174936	40050343	22975177	318	30253										
LAMA5	3911	broad.mit.edu	37	chr20	60893579	60893579	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tcccgtgtggcgtccactgcCcggttcaaagcctctcgcag	11	16	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr20:60893579C>A	uc002ycq.2	-	53	7237	c.7170G>T	c.(7168-7170)CGG>CGT	p.R2390R		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2390	Domain II and I.|Potential.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CGTCCACTGCCCGGTTCAAAG	0.677													76	67	---	---	---	---	PASS	A	60893579	A	A	60893579	2	1	79	1	0	0	0	0	0	0	0	1	8609	610	22	3		3	LAMA5	20	60893579	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	20843236	60893579	2131941	319	30254										
TNFRSF6B	8771	broad.mit.edu	37	chr20	62329762	62329762	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tccgacaccaagggcgggccGcgcggccttgcagctgaagc	15	15	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr20:62329762G>A	uc002yfy.2	+	7	1183	c.749G>A	c.(748-750)CGC>CAC	p.R250H	RTEL1_uc002yfw.2_RNA|TNFRSF6B_uc002yfz.2_Missense_Mutation_p.R250H	NM_032945	NP_116563	O95407	TNF6B_HUMAN	tumor necrosis factor receptor superfamily,	250					anti-apoptosis|apoptosis	extracellular region|soluble fraction	protein binding|receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.66e-12)|all_epithelial(29;2.56e-13)|Lung NSC(23;1.06e-08)|all_lung(23;3.34e-08)		Epithelial(9;1.78e-08)|all cancers(9;7.89e-08)|OV - Ovarian serous cystadenocarcinoma(5;0.00504)			AGGGCGGGCCGCGCGGCCTTG	0.726													8	19	---	---	---	---	PASS	A	62329762	A	A	62329762	3	1	79	1	0	0	0	0	1	0	0	0	16295	1087	38	1	759	1	TNFRSF6B	20	62329762	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	1436183	62329762	695758	320	30255										
RNF160	26046	broad.mit.edu	37	chr21	30354687	30354687	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ttttataagatgatcctgcaGcacctacaaaggggggaaat	10	7	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr21:30354687G>A	uc002ymr.2	-	5	731	c.718C>T	c.(718-720)CTG>TTG	p.L240L	RNF160_uc010gll.1_RNA	NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	194							ligase activity|zinc ion binding				0						TGATCCTGCAGCACCTACAAA	0.373													51	23	---	---	---	---	PASS	A	30354687	A	A	30354687	2	1	79	1	0	0	0	0	0	0	0	1	13455	962	34	3		3	RNF160	21	30354687	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08		30354687	17775208	321	30256										
MKL1	57591	broad.mit.edu	37	chr22	40815102	40815102	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acacggggggcgtggagcccGtgctgccaaacttcaccacc	13	15	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chr22:40815102G>A	uc003ayv.1	-	9	1547	c.1340C>T	c.(1339-1341)ACG>ATG	p.T447M	MKL1_uc003ayw.1_Missense_Mutation_p.T447M|MKL1_uc010gye.1_Missense_Mutation_p.T447M|MKL1_uc010gyf.1_Missense_Mutation_p.T397M	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	447					positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CGTGGAGCCCGTGCTGCCAAA	0.692			T	RBM15	acute megakaryocytic leukemia								8	0	---	---	---	---	PASS	A	40815102	A	A	40815102	3	1	79	1	0	0	0	0	1	0	0	0	9601	1145	40	1	1471	1	MKL1	22	40815102	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08		40815102	10489464	322	30257										
GYG2	8908	broad.mit.edu	37	chrX	2778086	2778087	+	Frame_Shift_Del	DEL	CG	-	-													0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gcgtccaagcgggggaagcaCgcgcgtctcctggtcacaca							TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:2778086_2778087delCG	uc004cqs.1	+	8	1192_1193	c.910_911delCG	c.(910-912)CGCfs	p.R304fs	GYG2_uc004cqt.1_Frame_Shift_Del_p.R273fs|GYG2_uc004cqu.1_Frame_Shift_Del_p.R273fs|GYG2_uc004cqv.1_Frame_Shift_Del_p.R118fs|GYG2_uc004cqw.1_Frame_Shift_Del_p.R264fs|GYG2_uc004cqx.1_Frame_Shift_Del_p.R273fs|GYG2_uc010ndc.1_Frame_Shift_Del_p.R118fs	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b	304					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GGGGGAAGCACGCGCGTCTCCT	0.554													4	11	---	---	---	---		-	2778087	-	-	2778086	7	5	79	1	0	1	0	1	0	0	0	0	6906	536	19	0	936	0	GYG2	23	2778086	Frame_Shift_Del	DEL	CG	TCGA-37-4135-01A-01D-1352-08		2778086	152492474	323	30258										
PRPS2	5634	broad.mit.edu	37	chrX	12827451	12827451	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ctgcatgcttctcagatacaGgtatccgtgttttccttctg	8	11	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:12827451G>A	uc004cvb.2	+	3	529	c.405G>A	c.(403-405)CAG>CAA	p.Q135Q	PRPS2_uc004cva.2_Silent_p.Q138Q|PRPS2_uc010nec.2_Silent_p.Q71Q	NM_002765	NP_002756	P11908	PRPS2_HUMAN	phosphoribosyl pyrophosphate synthetase 2	135					nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity				0						CTCAGATACAGGTATCCGTGT	0.418													78	85	---	---	---	---	PASS	A	12827451	A	A	12827451	2	1	79	1	0	0	0	0	0	0	0	1	12580	1014	35	3		3	PRPS2	23	12827451	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	10049365	12827451	142443109	324	30259										
CTPS2	56474	broad.mit.edu	37	chrX	16685639	16685639	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gataaacaagccacttaccaGaggaactggggcatttggcc	11	10	0	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:16685639G>C	uc004cxk.2	-	13	2038	c.1294C>G	c.(1294-1296)CTG>GTG	p.L432V	CTPS2_uc004cxl.2_Missense_Mutation_p.L432V|CTPS2_uc004cxm.2_Missense_Mutation_p.L432V	NM_001144002	NP_001137474	Q9NRF8	PYRG2_HUMAN	cytidine triphosphate synthase II	432	Glutamine amidotransferase type-1.				glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine nucleotide biosynthetic process	cytosol	ATP binding|CTP synthase activity			ovary(1)	1	Hepatocellular(33;0.0997)					CCACTTACCAGAGGAACTGGG	0.378													191	11	---	---	---	---	PASS	C	16685639	C	C	16685639	3	2	79	1	0	0	0	0	1	0	0	0	4023	933	33	2	490	2	CTPS2	23	16685639	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	3858188	16685639	138584921	325	30260										
CNKSR2	22866	broad.mit.edu	37	chrX	21627350	21627350	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	agtcagcgccgctcctggcaGgatttaattgagacgccact	11	12	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:21627350G>C	uc004czx.1	+	20	2343	c.2307G>C	c.(2305-2307)CAG>CAC	p.Q769H	CNKSR2_uc004czw.2_Missense_Mutation_p.Q769H|CNKSR2_uc011mjn.1_Missense_Mutation_p.Q720H|CNKSR2_uc011mjo.1_Missense_Mutation_p.Q739H|CNKSR2_uc004czy.2_Missense_Mutation_p.Q361H	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	769					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						GCTCCTGGCAGGATTTAATTG	0.547													168	12	---	---	---	---	PASS	C	21627350	C	C	21627350	3	2	79	1	0	0	0	0	1	0	0	0	3607	991	35	4	2385	4	CNKSR2	23	21627350	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	4941711	21627350	133643210	326	30261										
CYBB	1536	broad.mit.edu	37	chrX	37663199	37663199	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggttcaaaatggaagtgggaCaatacatttttgtcaagtgc	11	5	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:37663199C>A	uc004ddr.2	+	9	1028	c.967C>A	c.(967-969)CAA>AAA	p.Q323K	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Missense_Mutation_p.Q291K|CYBB_uc011mkg.1_Missense_Mutation_p.Q56K	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	323	Cytoplasmic (Potential).|FAD-binding FR-type.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						GGAAGTGGGACAATACATTTT	0.443													113	18	---	---	---	---	PASS	A	37663199	A	A	37663199	3	1	79	1	0	0	0	0	1	0	0	0	4133	479	17	3	1001	3	CYBB	23	37663199	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	16035849	37663199	117607361	327	30262										
BCOR	54880	broad.mit.edu	37	chrX	39933862	39933862	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	cgtagtgaggtggcggcaggTagagaaagcgctccccattg	16	9	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:39933862T>G	uc004den.3	-	4	1029	c.737A>C	c.(736-738)TAC>TCC	p.Y246S	BCOR_uc004dep.3_Missense_Mutation_p.Y246S|BCOR_uc004deo.3_Missense_Mutation_p.Y246S|BCOR_uc004dem.3_Missense_Mutation_p.Y246S|BCOR_uc004deq.3_Missense_Mutation_p.Y246S	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	246					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						TGGCGGCAGGTAGAGAAAGCG	0.592													6	23	---	---	---	---	PASS	G	39933862	G	G	39933862	3	3	79	1	0	0	0	0	1	0	0	0	1386	1638	57	5	4578	5	BCOR	23	39933862	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	2270663	39933862	115336698	328	30263										
DGKK	139189	broad.mit.edu	37	chrX	50129357	50129357	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	acaaccctggccaccttaccTtgttcaacttgaaatatgat	5	12	1	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:50129357T>A	uc010njr.1	-	15	2406	c.2346A>T	c.(2344-2346)CAA>CAT	p.Q782H		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	782					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					CCACCTTACCTTGTTCAACTT	0.473													34	54	---	---	---	---	PASS	A	50129357	A	A	50129357	3	1	79	1	0	0	0	0	1	0	0	0	4472	1623	56	5	1524	5	DGKK	23	50129357	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	10195495	50129357	105141203	329	30264										
MED12	9968	broad.mit.edu	37	chrX	70343465	70343465	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gttgtggagaatcagaagccGcagatgagaagggttccatc	14	7	1	4			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:70343465G>C	uc004dyy.2	+	12	1838	c.1639G>C	c.(1639-1641)GCA>CCA	p.A547P	MED12_uc011mpq.1_Missense_Mutation_p.A547P|MED12_uc004dyz.2_Missense_Mutation_p.A547P|MED12_uc004dza.2_Missense_Mutation_p.A394P	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	547					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					ATCAGAAGCCGCAGATGAGAA	0.493													52	3	---	---	---	---	PASS	C	70343465	C	C	70343465	3	2	79	1	0	0	0	0	1	0	0	0	9428	1087	38	4	1685	4	MED12	23	70343465	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	20214108	70343465	84927095	330	30265										
TBX22	50945	broad.mit.edu	37	chrX	79277824	79277824	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ggaagccttggtggggagacCcagcaaaagaaaactccaag	13	9	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:79277824C>A	uc010nmg.1	+	2	190	c.56C>A	c.(55-57)CCC>CAC	p.P19H	TBX22_uc004edi.1_5'UTR|TBX22_uc004edj.1_Missense_Mutation_p.P19H	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	19					multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						GTGGGGAGACCCAGCAAAAGA	0.587													26	4	---	---	---	---	PASS	A	79277824	A	A	79277824	3	1	79	1	0	0	0	0	1	0	0	0	15655	623	22	3	58	3	TBX22	23	79277824	Missense_Mutation	SNP	C	TCGA-37-4135-01A-01D-1352-08	8934359	79277824	75992736	331	30266										
TBX22	50945	broad.mit.edu	37	chrX	79281106	79281106	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gcatgtgttttttcaggtacGtctatcacagctcacagtgg	10	9	4	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:79281106G>C	uc010nmg.1	+	5	597	c.463G>C	c.(463-465)GTC>CTC	p.V155L	TBX22_uc004edi.1_Missense_Mutation_p.V35L|TBX22_uc004edj.1_Missense_Mutation_p.V155L	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	155	T-box.				multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						TTTCAGGTACGTCTATCACAG	0.507													108	7	---	---	---	---	PASS	C	79281106	C	C	79281106	3	2	79	1	0	0	0	0	1	0	0	0	15655	1145	40	4	477	4	TBX22	23	79281106	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	3282	79281106	75989454	332	30267										
TRPC5	7224	broad.mit.edu	37	chrX	111024417	111024417	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	taatgttgattttgtatcagGctgtcagcattgcgttccta	9	7	2	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:111024417G>T	uc004epl.1	-	9	3037	c.2118C>A	c.(2116-2118)AGC>AGA	p.S706R	TRPC5_uc004epm.1_Missense_Mutation_p.S706R	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	706	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						TTTGTATCAGGCTGTCAGCAT	0.423													133	23	---	---	---	---	PASS	T	111024417	T	T	111024417	3	4	79	1	0	0	0	0	1	0	0	0	16579	1194	42	3	815	3	TRPC5	23	111024417	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	31743311	111024417	44246143	333	30268										
ENOX2	10495	broad.mit.edu	37	chrX	129801610	129801610	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aggcggcggacatggctgttGgccgactggatcatggagta	17	8	1	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:129801610G>C	uc004evw.2	-	9	1306	c.888C>G	c.(886-888)GCC>GCG	p.A296A	ENOX2_uc004evx.2_Silent_p.A267A|ENOX2_uc004evy.2_Silent_p.A267A|ENOX2_uc004evv.2_Silent_p.A123A	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	296	Potential.				cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						CATGGCTGTTGGCCGACTGGA	0.507													139	179	---	---	---	---	PASS	C	129801610	C	C	129801610	2	2	79	1	0	0	0	0	0	0	0	1	5127	1335	47	4		4	ENOX2	23	129801610	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	18777193	129801610	25468950	334	30269										
HTATSF1	27336	broad.mit.edu	37	chrX	135593704	135593704	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gaaaatgactctgaaaactcCgaatttgaagatgacggctc	9	8	1	5			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:135593704C>T	uc004ezw.2	+	10	2222	c.1800C>T	c.(1798-1800)TCC>TCT	p.S600S	HTATSF1_uc004ezx.2_Silent_p.S600S	NM_001163280	NP_001156752	O43719	HTSF1_HUMAN	HIV-1 Tat specific factor 1	600	Asp/Glu-rich (acidic).|Mediates interaction with the P-TEFb complex.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|viral genome replication	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CTGAAAACTCCGAATTTGAAG	0.393													88	106	---	---	---	---	PASS	T	135593704	T	T	135593704	2	4	79	1	0	0	0	0	0	0	0	1	7433	639	23	1		1	HTATSF1	23	135593704	Silent	SNP	C	TCGA-37-4135-01A-01D-1352-08	5792094	135593704	19676856	335	30270										
MAGEA11	4110	broad.mit.edu	37	chrX	148797850	148797850	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tttggttcatttattgctccGcaagtatcgagtcaaggggc	11	8	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:148797850G>T	uc004fdq.2	+	5	806	c.704G>T	c.(703-705)CGC>CTC	p.R235L	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Missense_Mutation_p.R206L	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	235	MAGE.					cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					TTATTGCTCCGCAAGTATCGA	0.443													284	14	---	---	---	---	PASS	T	148797850	T	T	148797850	3	4	79	1	0	0	0	0	1	0	0	0	9165	1087	38	1	731	1	MAGEA11	23	148797850	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	13204146	148797850	6472710	336	30271										
GABRA3	2556	broad.mit.edu	37	chrX	151366222	151366222	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	aaagtagccaatttttcgctTgagatggaagtgggttgtca	12	5	1	1			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:151366222T>G	uc010ntk.1	-	8	1054	c.814A>C	c.(814-816)AAG>CAG	p.K272Q		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	272	Extracellular (Probable).				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(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ATTTTTCGCTTGAGATGGAAG	0.428													141	17	---	---	---	---	PASS	G	151366222	G	G	151366222	3	3	79	1	0	0	0	0	1	0	0	0	6162	1821	63	5	676	5	GABRA3	23	151366222	Missense_Mutation	SNP	T	TCGA-37-4135-01A-01D-1352-08	2568372	151366222	3904338	337	30272										
BCAP31	10134	broad.mit.edu	37	chrX	152981080	152981080	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	tggaagtgctccatggccccGggattgttctggaggttcac	14	10	2	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:152981080G>A	uc011myz.1	-	4	414	c.258C>T	c.(256-258)CCC>CCT	p.P86P	BCAP31_uc011myy.1_5'UTR|BCAP31_uc004fid.2_Silent_p.P153P|BCAP31_uc011mza.1_Silent_p.P86P|BCAP31_uc004fie.2_Silent_p.P86P	NM_001139441	NP_001132913	P51572	BAP31_HUMAN	B-cell receptor-associated protein 31 isoform b	86	Lumenal (Potential).				cellular component disassembly involved in apoptosis|immune response|intracellular protein transport|vesicle-mediated transport	cytosol|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to plasma membrane	receptor binding				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCATGGCCCCGGGATTGTTCT	0.537													195	17	---	---	---	---	PASS	A	152981080	A	A	152981080	2	1	79	1	0	0	0	0	0	0	0	1	1347	1103	39	1		1	BCAP31	23	152981080	Silent	SNP	G	TCGA-37-4135-01A-01D-1352-08	1614858	152981080	2289480	338	30273										
SPRY3	10251	broad.mit.edu	37	chrX	155003858	155003858	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	gcattacaccctcaccttcaGgccaatccatcatccgaacc	4	18	3	0			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrX:155003858G>T	uc004fnq.1	+	2	779	c.325G>T	c.(325-327)GGC>TGC	p.G109C	SPRY3_uc010nvl.1_Intron	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	109					multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CTCACCTTCAGGCCAATCCAT	0.557													125	16	---	---	---	---	PASS	T	155003858	T	T	155003858	3	4	79	1	0	0	0	0	1	0	0	0	15106	1000	35	3	327	3	SPRY3	23	155003858	Missense_Mutation	SNP	G	TCGA-37-4135-01A-01D-1352-08	2022778	155003858	266702	339	30274										
AMELY	266	broad.mit.edu	37	chrY	6736492	6736492	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654761904761905	22	0.276733626924815	1.19960493046776	1.80436444086887	0.808289953149401	0.417274449673559	0.801770950033723	0	ccacccatgggctcgtaaccAtaggaagagtactggtgaga	12	10	0	2			TCGA-37-4135-01A-01D-1352-08	TCGA-37-4135-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	754dda66-fceb-4f63-bc99-c98aaa86b0c2	8e835eb7-d797-4516-b2be-acc7800d2b0a	g.chrY:6736492A>G	uc004fra.1	-	5	213	c.201T>C	c.(199-201)TAT>TAC	p.Y67Y	AMELY_uc004fqz.2_Silent_p.Y53Y	NM_001143	NP_001134	Q99218	AMELY_HUMAN	amelogenin, Y-linked precursor	67					biomineral tissue development	proteinaceous extracellular matrix	structural constituent of tooth enamel				0						GCTCGTAACCATAGGAAGAGT	0.532													151	11	---	---	---	---	PASS	G	6736492	G	G	6736492	2	3	79	1	0	0	0	0	0	0	0	1	570	224	8	5		5	AMELY	24	6736492	Silent	SNP	A	TCGA-37-4135-01A-01D-1352-08		6736492	52637074	340	30275										
DVL1	1855	broad.mit.edu	37	chr1	1274966	1274966	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cccgagggccactcaccccgTgggacggtgaagtagcttcg	14	14	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:1274966T>C	uc001aer.3	-	10	1097	c.1050A>G	c.(1048-1050)CCA>CCG	p.P350P	DVL1_uc002quu.2_Silent_p.P67P|DVL1_uc009vka.2_Silent_p.P33P|DVL1_uc001aeu.1_Missense_Mutation_p.H37R	NM_004421	NP_004412	O14640	DVL1_HUMAN	dishevelled 1	350					canonical Wnt receptor signaling pathway|dendrite morphogenesis|intracellular signal transduction|negative regulation of protein binding|negative regulation of protein kinase activity|neural tube development|neuromuscular junction development|neurotransmitter secretion|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein localization to nucleus|receptor clustering|transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, planar cell polarity pathway	cytoplasmic membrane-bounded vesicle|cytosol|plasma membrane|synapse|synaptosome	frizzled binding|identical protein binding|protein kinase binding|signal transducer activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		ACTCACCCCGTGGGACGGTGA	0.687													7	14	---	---	---	---	PASS	C	1274966	C	C	1274966	2	2	80	1	0	0	0	0	0	0	0	1	4835	1683	59	5		5	DVL1	1	1274966	Silent	SNP	T	TCGA-37-4141-01A-02D-1352-08		1274966	247975655	1	30276										
AJAP1	55966	broad.mit.edu	37	chr1	4772101	4772101	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tggctcctgccgcggtcgccGccccggccgccccggctgtg	15	20	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:4772101G>A	uc001alm.1	+	2	552	c.171G>A	c.(169-171)CCG>CCA	p.P57P	AJAP1_uc001aln.2_Silent_p.P57P	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	57	Extracellular (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		cgcggtcgccgccccggccgc	0.592													20	30	---	---	---	---	PASS	A	4772101	A	A	4772101	2	1	80	1	0	0	0	0	0	0	0	1	438	1074	38	1		1	AJAP1	1	4772101	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	3497135	4772101	244478520	2	30277										
GPR153	387509	broad.mit.edu	37	chr1	6311556	6311556	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agagtgccatccagggcgctGaggcgtcggcccgcaggctg	17	13	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:6311556G>A	uc001amp.1	-	4	1081	c.821C>T	c.(820-822)TCA>TTA	p.S274L	GPR153_uc001amo.1_5'Flank	NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	274	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		CCAGGGCGCTGAGGCGTCGGC	0.697													22	34	---	---	---	---	PASS	A	6311556	A	A	6311556	3	1	80	1	0	0	0	0	1	0	0	0	6659	1294	45	2	1020	2	GPR153	1	6311556	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1539455	6311556	242939065	3	30278										
CROCC	9696	broad.mit.edu	37	chr1	17271961	17271961	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	accctttgtcccacagccatAgacaactagagcagctggaa	8	13	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:17271961A>G	uc001azt.2	+	15	2065	c.1996A>G	c.(1996-1998)AGA>GGA	p.R666G	CROCC_uc009voz.1_Missense_Mutation_p.R429G|CROCC_uc001azu.2_Translation_Start_Site	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	666	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		CCACAGCCATAGACAACTAGA	0.642													7	43	---	---	---	---	PASS	G	17271961	G	G	17271961	3	3	80	1	0	0	0	0	1	0	0	0	3893	412	15	5	2054	5	CROCC	1	17271961	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	10960405	17271961	231978660	4	30279										
KLHDC7A	127707	broad.mit.edu	37	chr1	18808885	18808885	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	caggtgctgcgcagcccggaCatctacgggtgcctgagcgg	16	13	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:18808885C>G	uc001bax.2	+	1	1462	c.1410C>G	c.(1408-1410)GAC>GAG	p.D470E	KLHDC7A_uc009vpg.2_Missense_Mutation_p.D252E	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	470						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GCAGCCCGGACATCTACGGGT	0.657													60	98	---	---	---	---	PASS	G	18808885	G	G	18808885	3	3	80	1	0	0	0	0	1	0	0	0	8360	477	17	4	1412	4	KLHDC7A	1	18808885	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1536924	18808885	230441736	5	30280										
EPHA8	2046	broad.mit.edu	37	chr1	22913059	22913059	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gccactccgcagctccagccGcccaagcctgccactgtgac	9	20	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:22913059G>A	uc001bfx.1	+	4	1035	c.910G>A	c.(910-912)GCC>ACC	p.A304T	EPHA8_uc001bfw.2_Missense_Mutation_p.A304T	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	304	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		AGCTCCAGCCGCCCAAGCCTG	0.657													5	69	---	---	---	---	PASS	A	22913059	A	A	22913059	3	1	80	1	0	0	0	0	1	0	0	0	5173	1087	38	1	924	1	EPHA8	1	22913059	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	4104174	22913059	226337562	6	30281										
RHCE	6006	broad.mit.edu	37	chr1	25717382	25717382	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gagcagagttgacacttggcCagaacatccacaagaagagg	12	9	0	5			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:25717382C>A	uc001bkf.2	-	5	745	c.659G>T	c.(658-660)TGG>TTG	p.W220L	RHCE_uc001bkg.2_Missense_Mutation_p.W220L|RHCE_uc001bkh.2_Intron|RHCE_uc001bki.2_Intron|RHCE_uc001bkj.2_Missense_Mutation_p.W204L	NM_020485	NP_065231	P18577	RHCE_HUMAN	Rhesus blood group, CcEe antigens isoform 1	220	Helical; (Potential).					integral to plasma membrane					0		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0426)|OV - Ovarian serous cystadenocarcinoma(117;2.12e-27)|Colorectal(126;3.16e-08)|COAD - Colon adenocarcinoma(152;1.72e-06)|STAD - Stomach adenocarcinoma(196;0.00035)|KIRC - Kidney renal clear cell carcinoma(1967;0.000769)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|GBM - Glioblastoma multiforme(114;0.00458)|READ - Rectum adenocarcinoma(331;0.0649)		GACACTTGGCCAGAACATCCA	0.537													123	254	---	---	---	---	PASS	A	25717382	A	A	25717382	3	1	80	1	0	0	0	0	1	0	0	0	13325	595	21	3	618	3	RHCE	1	25717382	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	2804323	25717382	223533239	7	30282										
MACF1	23499	broad.mit.edu	37	chr1	39818716	39818716	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	actggcagagaacaagaagaAgatcgatgctctcctggatt	11	8	1	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:39818716A>G	uc010oiu.1	+	8	6688	c.6557A>G	c.(6556-6558)AAG>AGG	p.K2186R	MACF1_uc010ois.1_Missense_Mutation_p.K1684R|MACF1_uc001cda.1_Missense_Mutation_p.K1592R|MACF1_uc001cdc.1_Missense_Mutation_p.K771R|MACF1_uc001cdb.1_Missense_Mutation_p.K771R	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3751					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)			AACAAGAAGAAGATCGATGCT	0.488													56	91	---	---	---	---	PASS	G	39818716	G	G	39818716	3	3	80	1	0	0	0	0	1	0	0	0	9144	72	3	5	11356	5	MACF1	1	39818716	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	14101334	39818716	209431905	8	30283										
HIVEP3	59269	broad.mit.edu	37	chr1	42041309	42041309	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cctctcttcttccttctccaCtctagctagatctttctggc	4	16	6	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:42041309C>A	uc001cgz.3	-	5	6326	c.5113G>T	c.(5113-5115)GTG>TTG	p.V1705L	HIVEP3_uc001cha.3_Missense_Mutation_p.V1705L|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1705					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				TCCTTCTCCACTCTAGCTAGA	0.552													104	212	---	---	---	---	PASS	A	42041309	A	A	42041309	3	1	80	1	0	0	0	0	1	0	0	0	7188	565	20	3	2127	3	HIVEP3	1	42041309	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	2222593	42041309	207209312	9	30284										
MYSM1	114803	broad.mit.edu	37	chr1	59147875	59147875	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttcatcttgcttttcattttGaagacagcccctggaagact	7	10	3	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:59147875G>C	uc009wab.1	-	8	864	c.841C>G	c.(841-843)CAA>GAA	p.Q281E	MYSM1_uc001czc.2_RNA	NM_001085487	NP_001078956	Q5VVJ2	MYSM1_HUMAN	Myb-like, SWIRM and MPN domains 1	281					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin remodeling complex	DNA binding|histone binding|metal ion binding|metallopeptidase activity|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(1)	1	all_cancers(7;9.36e-06)					TTTTCATTTTGAAGACAGCCC	0.368													26	552	---	---	---	---	PASS	C	59147875	C	C	59147875	3	2	80	1	0	0	0	0	1	0	0	0	10101	1299	45	2	1697	2	MYSM1	1	59147875	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	17106566	59147875	190102746	10	30285										
ANGPTL3	27329	broad.mit.edu	37	chr1	63066783	63066783	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctagtattcaagaacccacaGaaatttctctatcttccaag	4	11	3	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:63066783G>T	uc001das.1	+	3	688	c.637G>T	c.(637-639)GAA>TAA	p.E213*	DOCK7_uc001dan.2_Intron|DOCK7_uc001dao.2_Intron|DOCK7_uc001dap.2_Intron|DOCK7_uc001daq.2_Intron|DOCK7_uc009wah.1_Intron	NM_014495	NP_055310	Q9Y5C1	ANGL3_HUMAN	angiopoietin-like 3 precursor	213					acylglycerol homeostasis|artery morphogenesis|cell-matrix adhesion|cholesterol homeostasis|cholesterol metabolic process|fatty acid metabolic process|glycerol metabolic process|integrin-mediated signaling pathway|lipid storage|negative regulation of lipoprotein lipase activity|negative regulation of phospholipase activity|phospholipid catabolic process|phospholipid homeostasis|positive regulation of angiogenesis|positive regulation of cell migration|positive regulation of lipid catabolic process|triglyceride homeostasis	extracellular space	cell surface binding|growth factor activity|integrin binding|phospholipase inhibitor activity				0						AGAACCCACAGAAATTTCTCT	0.338													54	98	---	---	---	---	PASS	T	63066783	T	T	63066783	4	4	80	1	0	0	0	0	0	1	0	0	615	943	33	2	647	2	ANGPTL3	1	63066783	Nonsense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	3918908	63066783	186183838	11	30286										
SGIP1	84251	broad.mit.edu	37	chr1	67142743	67142743	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aaccaattaatccaagcatgGagtcgccaaagttaacaagg	8	9	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:67142743G>T	uc001dcr.2	+	13	920	c.703G>T	c.(703-705)GAG>TAG	p.E235*	SGIP1_uc010opd.1_Nonsense_Mutation_p.E2*|SGIP1_uc001dcs.2_Nonsense_Mutation_p.E2*|SGIP1_uc001dct.2_Nonsense_Mutation_p.E2*|uc010ope.1_5'Flank|SGIP1_uc009wat.2_Nonsense_Mutation_p.E2*	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	235	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						TCCAAGCATGGAGTCGCCAAA	0.398													107	185	---	---	---	---	PASS	T	67142743	T	T	67142743	4	4	80	1	0	0	0	0	0	1	0	0	14206	1175	41	2	753	2	SGIP1	1	67142743	Nonsense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	4075960	67142743	182107878	12	30287										
MIER1	57708	broad.mit.edu	37	chr1	67411870	67411870	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gatgaccatgaatttgatccAtcagctgacatgctggttca	9	9	2	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:67411870A>T	uc001dde.2	+	4	365	c.231A>T	c.(229-231)CCA>CCT	p.P77P	MIER1_uc001dda.3_Missense_Mutation_p.H102L|MIER1_uc010opf.1_Silent_p.P41P|MIER1_uc009way.2_Silent_p.P41P|MIER1_uc001ddc.2_Silent_p.P77P|MIER1_uc001ddh.2_Intron|MIER1_uc001ddf.2_Silent_p.P41P|MIER1_uc001ddg.2_5'UTR|MIER1_uc010opg.1_Silent_p.P41P|MIER1_uc001ddj.1_Silent_p.P24P|MIER1_uc001ddi.2_Silent_p.P24P	NM_001077700	NP_001071168	Q8N108	MIER1_HUMAN	mesoderm induction early response 1 isoform b	48					positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity	p.P24P(1)		ovary(1)	1						AATTTGATCCATCAGCTGACA	0.343													116	201	---	---	---	---	PASS	T	67411870	T	T	67411870	2	4	80	1	0	0	0	0	0	0	0	1	9580	204	8	5		5	MIER1	1	67411870	Silent	SNP	A	TCGA-37-4141-01A-02D-1352-08	269127	67411870	181838751	13	30288										
LRRC7	57554	broad.mit.edu	37	chr1	70504563	70504563	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cttaggaagccacgaacgacCggataagatgctgggaccag	13	10	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:70504563C>A	uc001dep.2	+	19	2972	c.2942C>A	c.(2941-2943)CCG>CAG	p.P981Q	LRRC7_uc009wbg.2_Missense_Mutation_p.P265Q|LRRC7_uc001deq.2_Missense_Mutation_p.P222Q	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	981						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CACGAACGACCGGATAAGATG	0.453													45	97	---	---	---	---	PASS	A	70504563	A	A	70504563	3	1	80	1	0	0	0	0	1	0	0	0	9020	652	23	1	3016	1	LRRC7	1	70504563	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	3092693	70504563	178746058	14	30289										
SLC44A5	204962	broad.mit.edu	37	chr1	75672357	75672357	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tccatgcaggttaggggttaCgaagtagggtttttctgtag	14	5	1	0	rs78856933	byFrequency	TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:75672357C>G	uc001dgu.2	-	24	2239	c.2095G>C	c.(2095-2097)GTA>CTA	p.V699L	SLC44A5_uc001dgt.2_Intron|SLC44A5_uc001dgs.2_Intron|SLC44A5_uc001dgr.2_Intron|SLC44A5_uc010oqz.1_Intron|SLC44A5_uc010ora.1_Missense_Mutation_p.V693L|SLC44A5_uc010orb.1_Missense_Mutation_p.V569L	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	699	Cytoplasmic (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						TTAGGGGTTACGAAGTAGGGT	0.413													164	376	---	---	---	---	PASS	G	75672357	G	G	75672357	3	3	80	1	0	0	0	0	1	0	0	0	14639	536	19	4	179	4	SLC44A5	1	75672357	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	5167794	75672357	173578264	15	30290										
ST6GALNAC5	81849	broad.mit.edu	37	chr1	77510188	77510188	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggcaagggccaggtctacaaCaacctgcatctcctgagcca	10	14	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:77510188C>A	uc001dhi.2	+	3	736	c.561C>A	c.(559-561)AAC>AAA	p.N187K	ST6GALNAC5_uc010ori.1_Intron|ST6GALNAC5_uc009wbw.2_RNA	NM_030965	NP_112227	Q9BVH7	SIA7E_HUMAN	sialyltransferase 7E	187	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			pancreas(1)|skin(1)	2						AGGTCTACAACAACCTGCATC	0.597													84	157	---	---	---	---	PASS	A	77510188	A	A	77510188	3	1	80	1	0	0	0	0	1	0	0	0	15226	477	17	3	571	3	ST6GALNAC5	1	77510188	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1837831	77510188	171740433	16	30291										
AK5	26289	broad.mit.edu	37	chr1	77763405	77763405	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	taattacaactggagaattgGccccacaggtactgctgtat	9	9	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:77763405G>T	uc001dhn.2	+	4	834	c.577G>T	c.(577-579)GCC>TCC	p.A193S	AK5_uc001dho.2_Missense_Mutation_p.A167S|AK5_uc001dhm.1_Missense_Mutation_p.A169S	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	193					ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						TGGAGAATTGGCCCCACAGGT	0.353													82	158	---	---	---	---	PASS	T	77763405	T	T	77763405	3	4	80	1	0	0	0	0	1	0	0	0	443	1203	42	3	591	3	AK5	1	77763405	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	253217	77763405	171487216	17	30292										
NEXN	91624	broad.mit.edu	37	chr1	78392291	78392291	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aagcaaagtgtctttcattaGttatggtaaatttttgtttg	8	3	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:78392291G>T	uc001dic.3	+	7	979	c.682G>T	c.(682-684)GTT>TTT	p.V228F	NEXN_uc001dia.3_Missense_Mutation_p.V214F|NEXN_uc009wcb.1_Missense_Mutation_p.V150F|NEXN_uc001dib.3_Missense_Mutation_p.V164F|NEXN_uc001did.1_Missense_Mutation_p.V138F|NEXN_uc001dif.1_Missense_Mutation_p.V120F	NM_144573	NP_653174	Q0ZGT2	NEXN_HUMAN	nexilin (F actin binding protein)	228	Glu-rich.				regulation of cell migration|regulation of cytoskeleton organization	cytoskeleton|Z disc	actin filament binding|structural constituent of muscle			ovary(2)	2				Colorectal(170;0.114)		TCTTTCATTAGTTATGGTAAA	0.333													11	221	---	---	---	---	PASS	T	78392291	T	T	78392291	3	4	80	1	0	0	0	0	1	0	0	0	10355	1029	36	3	704	3	NEXN	1	78392291	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	628886	78392291	170858330	18	30293										
CTBS	1486	broad.mit.edu	37	chr1	85028993	85028993	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atcccataggtttccagaaaTagaactatttatttgcttca	5	8	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:85028993T>G	uc001dka.2	-	6	969	c.904A>C	c.(904-906)ATT>CTT	p.I302L	SPATA1_uc001djz.1_Intron|CTBS_uc001dkc.2_Missense_Mutation_p.I211L|CTBS_uc001dkd.2_Missense_Mutation_p.I96L|CTBS_uc001dkb.2_Missense_Mutation_p.I96L	NM_004388	NP_004379	Q01459	DIAC_HUMAN	chitobiase, di-N-acetyl- precursor	302						lysosome	cation binding				0				all cancers(265;0.00727)|Epithelial(280;0.0192)|OV - Ovarian serous cystadenocarcinoma(397;0.166)		TTTCCAGAAATAGAACTATTT	0.393													37	59	---	---	---	---	PASS	G	85028993	G	G	85028993	3	3	80	1	0	0	0	0	1	0	0	0	3999	1406	49	5	261	5	CTBS	1	85028993	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	6636702	85028993	164221628	19	30294										
SLC30A7	148867	broad.mit.edu	37	chr1	101377756	101377756	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aaacctaataggaatatttgTtttcaaacatggaggtcatg	8	5	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:101377756T>G	uc001dtn.2	+	5	660	c.473T>G	c.(472-474)GTT>GGT	p.V158G	SLC30A7_uc001dto.2_Missense_Mutation_p.V158G	NM_001144884	NP_001138356	Q8NEW0	ZNT7_HUMAN	zinc transporter like 2	158	Helical; (Potential).				zinc ion transport	Golgi apparatus|integral to membrane	cation transmembrane transporter activity|protein binding				0		all_epithelial(167;0.000445)|all_lung(203;0.00645)|Lung NSC(277;0.0119)		Epithelial(280;0.0437)|all cancers(265;0.0498)|COAD - Colon adenocarcinoma(174;0.162)|Colorectal(144;0.19)|Lung(183;0.201)		GGAATATTTGTTTTCAAACAT	0.388													288	538	---	---	---	---	PASS	G	101377756	G	G	101377756	3	3	80	1	0	0	0	0	1	0	0	0	14560	1725	60	5	491	5	SLC30A7	1	101377756	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	16348763	101377756	147872865	20	30295										
COL11A1	1301	broad.mit.edu	37	chr1	103345240	103345240	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aagcagaacttatactcaccGcacaaccatcatacagtgtt	5	12	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:103345240G>T	uc001dul.2	-	66	5591	c.5273C>A	c.(5272-5274)GCG>GAG	p.A1758E	COL11A1_uc001duk.2_Missense_Mutation_p.A954E|COL11A1_uc001dum.2_Missense_Mutation_p.A1770E|COL11A1_uc001dun.2_Missense_Mutation_p.A1719E|COL11A1_uc009weh.2_Missense_Mutation_p.A1642E	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1758	Fibrillar collagen NC1.			A -> T (in Ref. 1; AAA51891).	collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging	p.A1770V(1)		ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TATACTCACCGCACAACCATC	0.428													66	128	---	---	---	---	PASS	T	103345240	T	T	103345240	3	4	80	1	0	0	0	0	1	0	0	0	3667	1101	38	1	155	1	COL11A1	1	103345240	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1967484	103345240	145905381	21	30296										
COL11A1	1301	broad.mit.edu	37	chr1	103481252	103481252	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcaacatagtaccaggaggaCcaggtagaccatcagcccct	9	13	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:103481252C>A	uc001dul.2	-	12	1778	c.1460G>T	c.(1459-1461)GGT>GTT	p.G487V	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Missense_Mutation_p.G499V|COL11A1_uc001dun.2_Missense_Mutation_p.G448V|COL11A1_uc009weh.2_Missense_Mutation_p.G371V	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	487	Triple-helical region (interrupted).				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		ACCAGGAGGACCAGGTAGACC	0.353													7	17	---	---	---	---	PASS	A	103481252	A	A	103481252	3	1	80	1	0	0	0	0	1	0	0	0	3667	507	18	3	4184	3	COL11A1	1	103481252	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	136012	103481252	145769369	22	30297										
TMEM167B	56900	broad.mit.edu	37	chr1	109637043	109637043	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctcttttgcctgctagccgcTgtgattggaaccaggctgca	11	12	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:109637043T>C	uc001dwn.2	+	3	239	c.147T>C	c.(145-147)GCT>GCC	p.A49A	TMEM167B_uc009weu.2_RNA	NM_020141	NP_064526	Q9NRX6	KISHB_HUMAN	transmembrane protein 167B precursor	49	Extracellular (Potential).					Golgi membrane|integral to membrane					0						TGCTAGCCGCTGTGATTGGAA	0.453													10	270	---	---	---	---	PASS	C	109637043	C	C	109637043	2	2	80	1	0	0	0	0	0	0	0	1	16079	1567	55	5		5	TMEM167B	1	109637043	Silent	SNP	T	TCGA-37-4141-01A-02D-1352-08	6155791	109637043	139613578	23	30298										
CD101	9398	broad.mit.edu	37	chr1	117561007	117561007	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcccggttccaaaagaagacGaaagtgtcgcagtctttatt	9	9	1	2	rs79996128	by1000genomes	TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:117561007G>T	uc010oxb.1	+	6	1900	c.1842G>T	c.(1840-1842)ACG>ACT	p.T614T	CD101_uc009whd.2_Silent_p.T614T|CD101_uc010oxc.1_Silent_p.T614T|CD101_uc010oxd.1_Silent_p.T552T	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	614	Extracellular (Potential).|Ig-like C2-type 5.				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						AAAAGAAGACGAAAGTGTCGC	0.453													4	401	---	---	---	---	PASS	T	117561007	T	T	117561007	2	4	80	1	0	0	0	0	0	0	0	1	2962	1045	37	2		2	CD101	1	117561007	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	7923964	117561007	131689614	24	30299										
PDE4DIP	9659	broad.mit.edu	37	chr1	144917580	144917580	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tctctcacagcaagacgaagCtggcgcagttctttttcttt	8	11	4	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:144917580C>G	uc001elw.3	-	12	1815	c.1524G>C	c.(1522-1524)CAG>CAC	p.Q508H	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.Q574H|PDE4DIP_uc001emc.1_Missense_Mutation_p.Q508H|PDE4DIP_uc001emd.1_Missense_Mutation_p.Q508H|PDE4DIP_uc001emb.1_Missense_Mutation_p.Q671H|PDE4DIP_uc001eme.1_Missense_Mutation_p.Q37H|PDE4DIP_uc001emf.1_Missense_Mutation_p.Q295H	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	508	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CAAGACGAAGCTGGCGCAGTT	0.438			T	PDGFRB	MPD								185	723	---	---	---	---	PASS	G	144917580	G	G	144917580	3	3	80	1	0	0	0	0	1	0	0	0	11643	796	28	4	5658	4	PDE4DIP	1	144917580	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	27356573	144917580	104333041	25	30300										
ITGA10	8515	broad.mit.edu	37	chr1	145534931	145534931	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cacatgccctcagctactttGgccgaagtgtggatggtcgg	13	11	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:145534931G>A	uc001eoa.2	+	15	1910	c.1834G>A	c.(1834-1836)GGC>AGC	p.G612S	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.G481S|ITGA10_uc009wiw.2_Missense_Mutation_p.G469S|ITGA10_uc010oyw.1_Missense_Mutation_p.G557S	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	612	Extracellular (Potential).|FG-GAP 7.				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CAGCTACTTTGGCCGAAGTGT	0.582													93	195	---	---	---	---	PASS	A	145534931	A	A	145534931	3	1	80	1	0	0	0	0	1	0	0	0	7873	1348	47	3	1892	3	ITGA10	1	145534931	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	617351	145534931	103715690	26	30301										
HRNR	388697	broad.mit.edu	37	chr1	152191689	152191689	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcctgagccagactcataatGgccacagctggaagaacaac	10	12	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:152191689G>A	uc001ezt.1	-	3	2492	c.2416C>T	c.(2416-2418)CAT>TAT	p.H806Y		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	806	8.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GACTCATAATGGCCACAGCTG	0.582													29	75	---	---	---	---	PASS	A	152191689	A	A	152191689	3	1	80	1	0	0	0	0	1	0	0	0	7359	1348	47	3	6140	3	HRNR	1	152191689	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	6656758	152191689	97058932	27	30302										
RGS5	8490	broad.mit.edu	37	chr1	163117134	163117134	+	Nonstop_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	catagcctggctaaattactActtgattaactcctgataaa	5	9	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:163117134A>G	uc001gcn.2	-	5	791	c.544T>C	c.(544-546)TAG>CAG	p.*182Q	RGS5_uc009wvb.2_RNA	NM_003617	NP_003608	O15539	RGS5_HUMAN	regulator of G-protein signalling 5	182					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity				0			LUSC - Lung squamous cell carcinoma(543;0.187)			CTAAATTACTACTTGATTAAC	0.428													68	100	---	---	---	---	PASS	G	163117134	G	G	163117134	4	3	80	1	0	0	0	0	0	0	0	0	13308	404	14	5	5	5	RGS5	1	163117134	Nonstop_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	10925445	163117134	86133487	28	30303										
RXRG	6258	broad.mit.edu	37	chr1	165386447	165386447	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccttcacaactgtataccccGtagtgctttcctggttagaa	7	12	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:165386447G>T	uc001gda.2	-	4	753	c.453C>A	c.(451-453)TAC>TAA	p.Y151*		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	151	NR C4-type.|Nuclear receptor.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	TGTATACCCCGTAGTGCTTTC	0.428													151	214	---	---	---	---	PASS	T	165386447	T	T	165386447	4	4	80	1	0	0	0	0	0	1	0	0	13765	1140	40	1	966	1	RXRG	1	165386447	Nonsense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	2269313	165386447	83864174	29	30304										
GPA33	10223	broad.mit.edu	37	chr1	167038337	167038337	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttataaagctcaccatggatGtagtttttgtttgaaaacgg	9	5	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:167038337G>A	uc001gea.1	-	3	581	c.237C>T	c.(235-237)TAC>TAT	p.Y79Y		NM_005814	NP_005805	Q99795	GPA33_HUMAN	transmembrane glycoprotein A33 precursor	79	Ig-like V-type.|Extracellular (Potential).					integral to plasma membrane	receptor activity				0						CACCATGGATGTAGTTTTTGT	0.507													41	96	---	---	---	---	PASS	A	167038337	A	A	167038337	2	1	80	1	0	0	0	0	0	0	0	1	6586	1372	48	3		3	GPA33	1	167038337	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	1651890	167038337	82212284	30	30305										
TNR	7143	broad.mit.edu	37	chr1	175324640	175324640	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctttccagcaaaatctcaccTtgcggcttccatcggtggat	8	13	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:175324640T>G	uc001gkp.1	-	15	3329	c.3248A>C	c.(3247-3249)AAG>ACG	p.K1083T	TNR_uc009wwu.1_Missense_Mutation_p.K1083T	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1083	Fibronectin type-III 9.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					AAATCTCACCTTGCGGCTTCC	0.502													74	131	---	---	---	---	PASS	G	175324640	G	G	175324640	3	3	80	1	0	0	0	0	1	0	0	0	16335	1623	56	5	856	5	TNR	1	175324640	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	8286303	175324640	73925981	31	30306										
DHX9	1660	broad.mit.edu	37	chr1	182846038	182846038	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttatgtcattgactcctgcaAgtaagttactgggaaaccta	8	8	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:182846038A>G	uc001gpr.2	+	19	2361	c.2198A>G	c.(2197-2199)AAG>AGG	p.K733R	DHX9_uc001gps.2_Missense_Mutation_p.K519R|DHX9_uc001gpt.2_5'Flank	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9	733	Helicase C-terminal.				CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						GACTCCTGCAAGTAAGTTACT	0.348													44	83	---	---	---	---	PASS	G	182846038	G	G	182846038	3	3	80	1	0	0	0	0	1	0	0	0	4516	86	3	5	2268	5	DHX9	1	182846038	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	7521398	182846038	66404583	32	30307										
CDC73	79577	broad.mit.edu	37	chr1	193172942	193172942	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aaggagggtgcatctgcccgGaagactcagactcctgcagc	13	12	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:193172942G>T	uc001gtb.2	+	11	1233	c.990G>T	c.(988-990)CGG>CGT	p.R330R		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	330					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						CATCTGCCCGGAAGACTCAGA	0.343									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				23	111	---	---	---	---	PASS	T	193172942	T	T	193172942	2	4	80	1	0	0	0	0	0	0	0	1	3085	1161	41	2		2	CDC73	1	193172942	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	10326904	193172942	56077679	33	30308										
CFHR3	10878	broad.mit.edu	37	chr1	196748446	196748446	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agttactgggattacattcaTtgcacacaaaatgggtggtc	10	7	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:196748446T>C	uc001gtl.2	+	2	300	c.213T>C	c.(211-213)CAT>CAC	p.H71H	CFHR3_uc001gtk.2_Silent_p.H71H|CFHR3_uc010poy.1_Silent_p.H71H|CFHR1_uc001gtm.2_Silent_p.H34H	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	71	Sushi 1.					extracellular space					0						ATTACATTCATTGCACACAAA	0.383													116	164	---	---	---	---	PASS	C	196748446	C	C	196748446	2	2	80	1	0	0	0	0	0	0	0	1	3286	1490	52	5		5	CFHR3	1	196748446	Silent	SNP	T	TCGA-37-4141-01A-02D-1352-08	3575504	196748446	52502175	34	30309										
LAMB3	3914	broad.mit.edu	37	chr1	209791299	209791299	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aagggagcggctggtgccttGcatggtgtcctgagcttcct	15	10	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:209791299G>T	uc001hhg.2	-	19	3394	c.3004C>A	c.(3004-3006)CAA>AAA	p.Q1002K	LAMB3_uc009xco.2_Missense_Mutation_p.Q1002K|LAMB3_uc001hhh.2_Missense_Mutation_p.Q1002K	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	1002	Domain I.|Potential.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		CTGGTGCCTTGCATGGTGTCC	0.587													39	68	---	---	---	---	PASS	T	209791299	T	T	209791299	3	4	80	1	0	0	0	0	1	0	0	0	8612	1328	46	3	530	3	LAMB3	1	209791299	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	13042853	209791299	39459322	35	30310										
PROX1	5629	broad.mit.edu	37	chr1	214171384	214171384	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccattaggtgctccctccggCtccttctctggaaaagacag	9	14	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:214171384C>T	uc001hkh.2	+	2	1778	c.1506C>T	c.(1504-1506)GGC>GGT	p.G502G	PROX1_uc001hkg.1_Silent_p.G502G	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	502					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		CTCCCTCCGGCTCCTTCTCTG	0.562													16	325	---	---	---	---	PASS	T	214171384	T	T	214171384	2	4	80	1	0	0	0	0	0	0	0	1	12560	784	28	3		3	PROX1	1	214171384	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	4380085	214171384	35079237	36	30311										
USH2A	7399	broad.mit.edu	37	chr1	216074145	216074145	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acctcatctggagttggtatCtgggagagccaggagcgtta	14	8	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:216074145C>A	uc001hku.1	-	39	7790	c.7403G>T	c.(7402-7404)AGA>ATA	p.R2468I		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2468	Extracellular (Potential).|Fibronectin type-III 11.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GAGTTGGTATCTGGGAGAGCC	0.502										HNSCC(13;0.011)			96	170	---	---	---	---	PASS	A	216074145	A	A	216074145	3	1	80	1	0	0	0	0	1	0	0	0	17033	913	32	2	8341	2	USH2A	1	216074145	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1902761	216074145	33176476	37	30312										
SLC30A10	55532	broad.mit.edu	37	chr1	220091756	220091756	+	Frame_Shift_Del	DEL	G	-	-													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acacgggtcctcactcttcaGgggaagcacatagaatatga							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:220091756delG	uc001hlw.2	-	3	1010	c.799delC	c.(799-801)CTGfs	p.L267fs	SLC30A10_uc001hlu.1_RNA|SLC30A10_uc001hlv.2_Frame_Shift_Del_p.L22fs|SLC30A10_uc001hlx.2_Frame_Shift_Del_p.L42fs	NM_018713	NP_061183	Q6XR72	ZNT10_HUMAN	solute carrier family 30 (zinc transporter),	267	Extracellular (Potential).				zinc ion transport	integral to membrane|plasma membrane	cation transmembrane transporter activity				0				GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.209)		TCACTCTTCAGGGGAAGCACA	0.507													326	162	---	---	---	---		-	220091756	-	-	220091756	7	5	80	1	0	1	0	1	0	0	0	0	14554	991	35	0	666	0	SLC30A10	1	220091756	Frame_Shift_Del	DEL	G	TCGA-37-4141-01A-02D-1352-08	4017611	220091756	29158865	38	30313										
SLC35F3	148641	broad.mit.edu	37	chr1	234445022	234445022	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcaacaaagcttttgtgttcTtgctctcatggatcgttctc	8	10	3	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:234445022T>C	uc001hwa.1	+	3	805	c.577T>C	c.(577-579)TTG>CTG	p.L193L	SLC35F3_uc001hvy.1_Silent_p.L262L	NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	193	Helical; (Potential).				transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			TTTTGTGTTCTTGCTCTCATG	0.428													75	139	---	---	---	---	PASS	C	234445022	C	C	234445022	2	2	80	1	0	0	0	0	0	0	0	1	14590	1606	56	5		5	SLC35F3	1	234445022	Silent	SNP	T	TCGA-37-4141-01A-02D-1352-08	14353266	234445022	14805599	39	30314										
RYR2	6262	broad.mit.edu	37	chr1	237961380	237961380	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctacggccgagacagaatcaGtgaattacttggcatggaca	11	9	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:237961380G>T	uc001hyl.1	+	97	14120	c.14000G>T	c.(13999-14001)AGT>ATT	p.S4667I	RYR2_uc010pyb.1_Missense_Mutation_p.S100I	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4667					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)			GACAGAATCAGTGAATTACTT	0.413													15	34	---	---	---	---	PASS	T	237961380	T	T	237961380	3	4	80	1	0	0	0	0	1	0	0	0	13769	1029	36	3	14386	3	RYR2	1	237961380	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	3516358	237961380	11289241	40	30315										
OR6F1	343169	broad.mit.edu	37	chr1	247875538	247875538	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtcacagaagaagtggttgaTggcacgggggccacagaagg	17	7	1	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:247875538T>C	uc001idj.1	-	1	520	c.520A>G	c.(520-522)ATC>GTC	p.I174V		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	174	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			AAGTGGTTGATGGCACGGGGG	0.587													100	198	---	---	---	---	PASS	C	247875538	C	C	247875538	3	2	80	1	0	0	0	0	1	0	0	0	11201	1464	51	5	410	5	OR6F1	1	247875538	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	9914158	247875538	1375083	41	30316										
OR2AK2	391191	broad.mit.edu	37	chr1	248129609	248129609	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgttgggatattggatatgcTgtagaaaatatgacttcaga	11	3	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:248129609T>A	uc010pzd.1	+	1	976	c.976T>A	c.(976-978)TGT>AGT	p.C326S	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	326	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TTGGATATGCTGTAGAAAATA	0.378													83	194	---	---	---	---	PASS	A	248129609	A	A	248129609	3	1	80	1	0	0	0	0	1	0	0	0	10986	1580	55	5	978	5	OR2AK2	1	248129609	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	254071	248129609	1121012	42	30317										
OR2T4	127074	broad.mit.edu	37	chr1	248525364	248525364	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctacgtggccatctgccatcCtctccgttaccctgtcctca	6	18	3	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr1:248525364C>A	uc001ieh.1	+	1	482	c.482C>A	c.(481-483)CCT>CAT	p.P161H		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	161	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATCTGCCATCCTCTCCGTTAC	0.527													7	561	---	---	---	---	PASS	A	248525364	A	A	248525364	3	1	80	1	0	0	0	0	1	0	0	0	11027	681	24	3	484	3	OR2T4	1	248525364	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	395755	248525364	725257	43	30318										
PXDN	7837	broad.mit.edu	37	chr2	1680797	1680797	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acatctgcgtcctggggctcGgaggtgatccggggcctttc	15	12	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:1680797G>A	uc002qxa.2	-	8	814	c.750C>T	c.(748-750)TCC>TCT	p.S250S	PXDN_uc002qxb.1_Silent_p.S250S|PXDN_uc002qxc.1_Silent_p.S67S	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	250	Ig-like C2-type 1.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity	p.S250S(1)		pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CCTGGGGCTCGGAGGTGATCC	0.517													23	33	---	---	---	---	PASS	A	1680797	A	A	1680797	2	1	80	1	0	0	0	0	0	0	0	1	12847	1103	39	1		1	PXDN	2	1680797	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08		1680797	241518576	44	30319										
MYT1L	23040	broad.mit.edu	37	chr2	1812863	1812863	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctcaccgttgctggcccgctGtttgatggtcagcatctgct	11	13	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:1812863G>C	uc002qxe.2	-	22	3984	c.3157C>G	c.(3157-3159)CAG>GAG	p.Q1053E	MYT1L_uc002qxd.2_Missense_Mutation_p.Q1051E|MYT1L_uc010ewk.2_Missense_Mutation_p.Q49E	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	1053					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CTGGCCCGCTGTTTGATGGTC	0.612													86	141	---	---	---	---	PASS	C	1812863	C	C	1812863	3	2	80	1	0	0	0	0	1	0	0	0	10107	1386	48	4	419	4	MYT1L	2	1812863	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	132066	1812863	241386510	45	30320										
MYT1L	23040	broad.mit.edu	37	chr2	1915841	1915841	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atgcccgcgccccgtgcagcCcggagtggggcacttgagga	16	14	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:1915841C>A	uc002qxe.2	-	12	2487	c.1660G>T	c.(1660-1662)GGC>TGC	p.G554C	MYT1L_uc002qxd.2_Missense_Mutation_p.G552C|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	554	C2HC-type 3.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CCCGTGCAGCCCGGAGTGGGG	0.602													16	22	---	---	---	---	PASS	A	1915841	A	A	1915841	3	1	80	1	0	0	0	0	1	0	0	0	10107	623	22	3	1956	3	MYT1L	2	1915841	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	102978	1915841	241283532	46	30321										
CMPK2	129607	broad.mit.edu	37	chr2	6991813	6991813	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggtggccgtgctgtgccagtAcctgagaaggaatggggtag	18	7	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:6991813A>T	uc002qyo.2	-	4	1103	c.994T>A	c.(994-996)TAC>AAC	p.Y332N	CMPK2_uc002qyn.1_RNA|CMPK2_uc010yis.1_Intron|CMPK2_uc010ewv.2_Missense_Mutation_p.Y332N	NM_207315	NP_997198	Q5EBM0	CMPK2_HUMAN	UMP-CMP kinase 2 precursor	332					dTDP biosynthetic process	mitochondrion	ATP binding|cytidylate kinase activity|thymidylate kinase activity|UMP kinase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					CTGTGCCAGTACCTGAGAAGG	0.552													32	76	---	---	---	---	PASS	T	6991813	T	T	6991813	3	4	80	1	0	0	0	0	1	0	0	0	3581	405	14	5	363	5	CMPK2	2	6991813	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	5075972	6991813	236207560	47	30322										
KIDINS220	57498	broad.mit.edu	37	chr2	8871992	8871992	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttctaactgggacatctgagCaatgtattctctataggcat	8	8	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:8871992C>A	uc002qzc.2	-	30	4356	c.4174G>T	c.(4174-4176)GCT>TCT	p.A1392S	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Missense_Mutation_p.A1293S|KIDINS220_uc002qzb.2_Missense_Mutation_p.A246S	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1392	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GACATCTGAGCAATGTATTCT	0.458													145	321	---	---	---	---	PASS	A	8871992	A	A	8871992	3	1	80	1	0	0	0	0	1	0	0	0	8271	710	25	3	1145	3	KIDINS220	2	8871992	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1880179	8871992	234327381	48	30323										
GREB1	9687	broad.mit.edu	37	chr2	11733133	11733133	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cgagtgtgcttactccctggCcgagggcctctccgagatgt	13	13	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:11733133C>G	uc002rbk.1	+	11	1877	c.1577C>G	c.(1576-1578)GCC>GGC	p.A526G	GREB1_uc002rbo.1_Missense_Mutation_p.A160G	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	526						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)		TACTCCCTGGCCGAGGGCCTC	0.672													5	16	---	---	---	---	PASS	G	11733133	G	G	11733133	3	3	80	1	0	0	0	0	1	0	0	0	6760	739	26	4	1723	4	GREB1	2	11733133	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	2861141	11733133	231466240	49	30324										
OTOF	9381	broad.mit.edu	37	chr2	26699110	26699110	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctccttgcgctgtttgctgaGgcccagccacaggtacagct	11	14	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:26699110G>T	uc002rhk.2	-	23	2879	c.2752C>A	c.(2752-2754)CTC>ATC	p.L918I	OTOF_uc010yla.1_5'Flank|OTOF_uc002rhh.2_Missense_Mutation_p.L171I|OTOF_uc002rhi.2_Missense_Mutation_p.L228I|OTOF_uc002rhj.2_Missense_Mutation_p.L171I	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	918	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGTTTGCTGAGGCCCAGCCAC	0.682													28	55	---	---	---	---	PASS	T	26699110	T	T	26699110	3	4	80	1	0	0	0	0	1	0	0	0	11303	1000	35	3	3522	3	OTOF	2	26699110	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	14965977	26699110	216500263	50	30325										
PLB1	151056	broad.mit.edu	37	chr2	28828788	28828788	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aatcagaaattccactcccaGctggccagagccctttggac	8	14	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:28828788G>C	uc002rmb.1	+	42	3030	c.3030G>C	c.(3028-3030)CAG>CAC	p.Q1010H	PLB1_uc010ezj.1_Missense_Mutation_p.Q999H|PLB1_uc002rme.1_Intron|PLB1_uc002rmf.1_RNA	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	1010	4 X 308-326 AA approximate repeats.|Extracellular (Potential).|3.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					TCCACTCCCAGCTGGCCAGAG	0.517													217	383	---	---	---	---	PASS	C	28828788	C	C	28828788	3	2	80	1	0	0	0	0	1	0	0	0	12024	962	34	4	3229	4	PLB1	2	28828788	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	2129678	28828788	214370585	51	30326										
C2orf71	388939	broad.mit.edu	37	chr2	29294247	29294247	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agatggagggccggagtggtGccaggcgatggccttccggg	20	9	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:29294247G>T	uc002rmt.1	-	1	2881	c.2881C>A	c.(2881-2883)CAC>AAC	p.H961N		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	961					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						CCGGAGTGGTGCCAGGCGATG	0.647													4	83	---	---	---	---	PASS	T	29294247	T	T	29294247	3	4	80	1	0	0	0	0	1	0	0	0	2191	1319	46	3	993	3	C2orf71	2	29294247	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	465459	29294247	213905126	52	30327										
FBXO11	80204	broad.mit.edu	37	chr2	48063100	48063100	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tccaggttcaggatgcatcaTagggcgagtatattcaaata	10	7	3	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:48063100T>C	uc010fbl.2	-	5	490	c.376A>G	c.(376-378)ATG>GTG	p.M126V	FBXO11_uc002rwe.2_Missense_Mutation_p.M126V|FBXO11_uc002rwf.2_Missense_Mutation_p.M126V|FBXO11_uc002rwg.1_Missense_Mutation_p.M126V	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	210					ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GGATGCATCATAGGGCGAGTA	0.333													43	69	---	---	---	---	PASS	C	48063100	C	C	48063100	3	2	80	1	0	0	0	0	1	0	0	0	5727	1406	49	5	2321	5	FBXO11	2	48063100	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	18768853	48063100	195136273	53	30328										
USP34	9736	broad.mit.edu	37	chr2	61607309	61607309	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acaaatacagcttactgttaTctgactcaatccagccaacc	4	13	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:61607309T>A	uc002sbe.2	-	7	1031	c.1009A>T	c.(1009-1011)ATA>TTA	p.I337L		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	337					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			CTTACTGTTATCTGACTCAAT	0.264													37	61	---	---	---	---	PASS	A	61607309	A	A	61607309	3	1	80	1	0	0	0	0	1	0	0	0	17062	1435	50	5	9927	5	USP34	2	61607309	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	13544209	61607309	181592064	54	30329										
EHBP1	23301	broad.mit.edu	37	chr2	63264694	63264694	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gaacacagaagaagaagaagCtatgatgcaggaatggttta	12	4	0	5			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:63264694C>A	uc002sby.2	+	22	3823	c.3341C>A	c.(3340-3342)GCT>GAT	p.A1114D	EHBP1_uc010fcp.2_Missense_Mutation_p.A1043D|EHBP1_uc002sbz.2_Missense_Mutation_p.A1043D|EHBP1_uc002scb.2_Missense_Mutation_p.A1079D	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	1114						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			GAAGAAGAAGCTATGATGCAG	0.323									Hereditary_Prostate_Cancer				5	103	---	---	---	---	PASS	A	63264694	A	A	63264694	3	1	80	1	0	0	0	0	1	0	0	0	4975	797	28	3	3423	3	EHBP1	2	63264694	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1657385	63264694	179934679	55	30330										
ARHGAP25	9938	broad.mit.edu	37	chr2	69049996	69049996	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aagcaaatgtatgaggaacaGattaaaaagtaagtcagaca	9	4	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:69049996G>C	uc002seu.2	+	10	2086	c.1722G>C	c.(1720-1722)CAG>CAC	p.Q574H	ARHGAP25_uc010fdg.2_Missense_Mutation_p.Q575H|ARHGAP25_uc010yql.1_Missense_Mutation_p.Q535H|ARHGAP25_uc002sew.2_Missense_Mutation_p.Q567H|ARHGAP25_uc002sex.2_Missense_Mutation_p.Q568H|ARHGAP25_uc002sey.2_Missense_Mutation_p.Q301H	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	574	Potential.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						ATGAGGAACAGATTAAAAAGT	0.428													4	196	---	---	---	---	PASS	C	69049996	C	C	69049996	3	2	80	1	0	0	0	0	1	0	0	0	874	933	33	2	1803	2	ARHGAP25	2	69049996	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	5785302	69049996	174149377	56	30331										
CLEC4F	165530	broad.mit.edu	37	chr2	71043874	71043874	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tctaagcctctgcttagcacGtggagctcaatgctggtgtt	11	10	3	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:71043874G>T	uc002shf.2	-	4	716	c.639C>A	c.(637-639)CAC>CAA	p.H213Q	CLEC4F_uc010yqv.1_Missense_Mutation_p.H213Q	NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	213	Extracellular (Potential).				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5						TGCTTAGCACGTGGAGCTCAA	0.428													69	107	---	---	---	---	PASS	T	71043874	T	T	71043874	3	4	80	1	0	0	0	0	1	0	0	0	3516	1136	40	1	1146	1	CLEC4F	2	71043874	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1993878	71043874	172155499	57	30332										
LOXL3	84695	broad.mit.edu	37	chr2	74763510	74763510	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctgcatgcaggtcccacttgCggtcacagactgtgccccat	10	15	1	1	rs138480120		TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:74763510C>T	uc002smp.1	-	6	1073	c.1001G>A	c.(1000-1002)CGC>CAC	p.R334H	LOXL3_uc002smo.1_5'UTR|LOXL3_uc010ffm.1_Missense_Mutation_p.R334H|LOXL3_uc002smq.1_Missense_Mutation_p.R189H|LOXL3_uc010ffn.1_Missense_Mutation_p.R189H	NM_032603	NP_115992	P58215	LOXL3_HUMAN	lysyl oxidase-like 3 precursor	334	SRCR 3.					extracellular space|membrane	copper ion binding|protein-lysine 6-oxidase activity|scavenger receptor activity				0						GTCCCACTTGCGGTCACAGAC	0.647													5	277	---	---	---	---	PASS	T	74763510	T	T	74763510	3	4	80	1	0	0	0	0	1	0	0	0	8901	768	27	1	1296	1	LOXL3	2	74763510	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	3719636	74763510	168435863	58	30333										
HK2	3099	broad.mit.edu	37	chr2	75118043	75118043	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	catcactgctgtggcctgccGcatccgtgaggctggacagc	13	14	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:75118043G>A	uc002snd.2	+	18	4655	c.2729G>A	c.(2728-2730)CGC>CAC	p.R910H		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	910	Catalytic.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						GTGGCCTGCCGCATCCGTGAG	0.542													26	38	---	---	---	---	PASS	A	75118043	A	A	75118043	3	1	80	1	0	0	0	0	1	0	0	0	7191	1087	38	1	2799	1	HK2	2	75118043	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	354533	75118043	168081330	59	30334										
REG3G	130120	broad.mit.edu	37	chr2	79253881	79253881	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gccctctccacggatcagctGtcccaaaggctccaaggcct	9	17	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:79253881G>A	uc002snw.2	+	3	204	c.119G>A	c.(118-120)TGT>TAT	p.C40Y	REG3G_uc002snx.2_Missense_Mutation_p.C40Y|REG3G_uc010ffu.2_Missense_Mutation_p.C40Y	NM_198448	NP_940850	Q6UW15	REG3G_HUMAN	regenerating islet-derived 3 gamma precursor	40					acute-phase response	extracellular region	sugar binding				0						CGGATCAGCTGTCCCAAAGGC	0.527													66	97	---	---	---	---	PASS	A	79253881	A	A	79253881	3	1	80	1	0	0	0	0	1	0	0	0	13213	1377	48	3	125	3	REG3G	2	79253881	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	4135838	79253881	163945492	60	30335										
CTNNA2	1496	broad.mit.edu	37	chr2	80085205	80085205	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctcgtcggtaaagcgcggcaCcatggtacgggcggcaaggg	17	11	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:80085205C>T	uc010ysh.1	+	3	370	c.365C>T	c.(364-366)ACC>ATC	p.T122I	CTNNA2_uc010yse.1_Missense_Mutation_p.T122I|CTNNA2_uc010ysf.1_Missense_Mutation_p.T122I|CTNNA2_uc010ysg.1_Missense_Mutation_p.T122I	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	122				T -> A (in Ref. 3; BAH12003).	axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						AAGCGCGGCACCATGGTACGG	0.567													88	151	---	---	---	---	PASS	T	80085205	T	T	80085205	3	4	80	1	0	0	0	0	1	0	0	0	4013	507	18	3	375	3	CTNNA2	2	80085205	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	831324	80085205	163114168	61	30336										
TRIM43	129868	broad.mit.edu	37	chr2	96260880	96260880	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atatgaggagggaagaacagCcttcctctggagggtaagta	14	6	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:96260880C>T	uc002suv.2	+	3	630	c.494C>T	c.(493-495)GCC>GTC	p.A165V		NM_138800	NP_620155	Q96BQ3	TRI43_HUMAN	tripartite motif-containing 43	165						intracellular	zinc ion binding			ovary(1)	1						GGAAGAACAGCCTTCCTCTGG	0.388													21	55	---	---	---	---	PASS	T	96260880	T	T	96260880	3	4	80	1	0	0	0	0	1	0	0	0	16515	739	26	3	500	3	TRIM43	2	96260880	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	16175675	96260880	146938493	62	30337										
ADRA2B	151	broad.mit.edu	37	chr2	96780641	96780641	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tagataacagggttcagtgaGctgttgcagtagccgatcca	12	8	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:96780641G>C	uc002svi.2	-	3	1257	c.1257C>G	c.(1255-1257)AGC>AGG	p.S419R		NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor	419	Helical; Name=7; (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	GGTTCAGTGAGCTGTTGCAGT	0.597													3	17	---	---	---	---	PASS	C	96780641	C	C	96780641	3	2	80	1	0	0	0	0	1	0	0	0	338	962	34	4	99	4	ADRA2B	2	96780641	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	519761	96780641	146418732	63	30338										
VWA3B	200403	broad.mit.edu	37	chr2	98928769	98928769	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gccctgtactctccaagccaCccacagcagcaaagggctga	9	16	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:98928769C>A	uc002syo.2	+	28	4106	c.3842C>A	c.(3841-3843)ACC>AAC	p.T1281N	VWA3B_uc002syr.1_3'UTR|VWA3B_uc002sys.2_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	1281										ovary(3)|large_intestine(2)|skin(1)	6						CTCCAAGCCACCCACAGCAGC	0.617													30	67	---	---	---	---	PASS	A	98928769	A	A	98928769	3	1	80	1	0	0	0	0	1	0	0	0	17238	507	18	3	3948	3	VWA3B	2	98928769	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	2148128	98928769	144270604	64	30339										
LONRF2	164832	broad.mit.edu	37	chr2	100906843	100906843	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cttccatcaggaaacgttctCacgtccttaatctccagcat	5	14	3	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:100906843C>G	uc002tal.3	-	10	2437	c.1797G>C	c.(1795-1797)GTG>GTC	p.V599V	LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	599	Lon.				proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						GAAACGTTCTCACGTCCTTAA	0.473													106	219	---	---	---	---	PASS	G	100906843	G	G	100906843	2	3	80	1	0	0	0	0	0	0	0	1	8895	813	29	2		2	LONRF2	2	100906843	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	1978074	100906843	142292530	65	30340										
TGFBRAP1	9392	broad.mit.edu	37	chr2	105900831	105900831	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aaactgtataaatcccgcctGctgcagaatccttctgtaca	6	12	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:105900831G>C	uc002tcq.2	-	5	1147	c.1063C>G	c.(1063-1065)CAG>GAG	p.Q355E	TGFBRAP1_uc010fjc.2_Missense_Mutation_p.Q125E|TGFBRAP1_uc002tcr.3_Missense_Mutation_p.Q355E	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	355					regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						AATCCCGCCTGCTGCAGAATC	0.453													58	105	---	---	---	---	PASS	C	105900831	C	C	105900831	3	2	80	1	0	0	0	0	1	0	0	0	15821	1328	46	4	1551	4	TGFBRAP1	2	105900831	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	4993988	105900831	137298542	66	30341										
ANKRD57	65124	broad.mit.edu	37	chr2	110373346	110373346	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctcgcatctcatcacctacaAactctcacacgccctagaag	4	17	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:110373346A>G	uc002tfb.2	+	1	1436	c.1280A>G	c.(1279-1281)AAA>AGA	p.K427R	SEPT10_uc010ywu.1_5'Flank|SEPT10_uc002tew.2_5'Flank|SEPT10_uc002tex.2_5'Flank|SEPT10_uc002tey.2_5'Flank|SEPT10_uc010ywv.1_5'Flank	NM_023016	NP_075392	Q53LP3	ANR57_HUMAN	ankyrin repeat domain 57	427											0						ATCACCTACAAACTCTCACAC	0.642													9	140	---	---	---	---	PASS	G	110373346	G	G	110373346	3	3	80	1	0	0	0	0	1	0	0	0	683	14	1	5	1282	5	ANKRD57	2	110373346	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	4472515	110373346	132826027	67	30342										
ANAPC1	64682	broad.mit.edu	37	chr2	112608443	112608443	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cgaggcattgtgttggacatCgtcagagagggagctggcag	17	7	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:112608443C>A	uc002thi.2	-	14	1807	c.1560G>T	c.(1558-1560)ACG>ACT	p.T520T		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	520					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						TGTTGGACATCGTCAGAGAGG	0.428													4	200	---	---	---	---	PASS	A	112608443	A	A	112608443	2	1	80	1	0	0	0	0	0	0	0	1	598	871	31	2		2	ANAPC1	2	112608443	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	2235097	112608443	130590930	68	30343										
DPP10	57628	broad.mit.edu	37	chr2	116534783	116534783	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atattttctatttctttgcaGagtaaaagtgagcaaattac	6	5	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:116534783G>T	uc002tla.1	+	14	1679	c.1222_splice	c.e14-1	p.S408_splice	DPP10_uc002tlb.1_Splice_Site_p.S358_splice|DPP10_uc002tlc.1_Splice_Site_p.S404_splice|DPP10_uc002tle.2_Splice_Site_p.S412_splice|DPP10_uc002tlf.1_Splice_Site_p.S401_splice	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long						proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TTTCTTTGCAGAGTAAAAGTG	0.368													58	73	---	---	---	---	PASS	T	116534783	T	T	116534783	5	4	80	1	0	0	0	0	0	0	1	0	4727	956	33	2	1446	2	DPP10	2	116534783	Splice_Site	SNP	G	TCGA-37-4141-01A-02D-1352-08	3926340	116534783	126664590	69	30344										
MARCO	8685	broad.mit.edu	37	chr2	119735500	119735500	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	taagggagagaaaggagaccTgggtctcccaggtgagggcc	17	8	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:119735500T>G	uc002tln.1	+	8	887	c.755T>G	c.(754-756)CTG>CGG	p.L252R	MARCO_uc010yyf.1_Missense_Mutation_p.L174R	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	252	Collagen-like.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						AAAGGAGACCTGGGTCTCCCA	0.607													5	23	---	---	---	---	PASS	G	119735500	G	G	119735500	3	3	80	1	0	0	0	0	1	0	0	0	9311	1580	55	5	785	5	MARCO	2	119735500	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	3200717	119735500	123463873	70	30345										
CNTNAP5	129684	broad.mit.edu	37	chr2	125175154	125175154	+	Nonsense_Mutation	SNP	C	A	A													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggcatgagagtcgaggtctaCggatgttcctatagtaagta							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:125175154C>A	uc002tno.2	+	4	880	c.516C>A	c.(514-516)TAC>TAA	p.Y172*	CNTNAP5_uc010flu.2_Nonsense_Mutation_p.Y172*	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	172	F5/8 type C.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TCGAGGTCTACGGATGTTCCT	0.473													22	24	---	---	---	---	PASS	A	125175154	A	A	125175154	4	1	80	1	0	0	0	0	0	1	0	0	3650	547	19	1	530	1	CNTNAP5	2	125175154	Nonsense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	5439654	125175154	118024219	71	30346	604	2								
CNTNAP5	129684	broad.mit.edu	37	chr2	125175156	125175156	+	Missense_Mutation	SNP	G	A	A													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	catgagagtcgaggtctacgGatgttcctatagtaagtact							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:125175156G>A	uc002tno.2	+	4	882	c.518G>A	c.(517-519)GGA>GAA	p.G173E	CNTNAP5_uc010flu.2_Missense_Mutation_p.G173E	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	173	F5/8 type C.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GAGGTCTACGGATGTTCCTAT	0.473													23	23	---	---	---	---	PASS	A	125175156	A	A	125175156	3	1	80	1	0	0	0	0	1	0	0	0	3650	1174	41	2	532	2	CNTNAP5	2	125175156	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	2	125175156	118024217	72	30347	604	2								
POTEE	445582	broad.mit.edu	37	chr2	131976356	131976356	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggagactacgatgacagcgcCttcatggagcccaggtacca	12	12	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:131976356C>A	uc002tsn.2	+	1	433	c.381C>A	c.(379-381)GCC>GCA	p.A127A	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	127							ATP binding				0						ATGACAGCGCCTTCATGGAGC	0.597													124	102	---	---	---	---	PASS	A	131976356	A	A	131976356	2	1	80	1	0	0	0	0	0	0	0	1	12264	668	24	3		3	POTEE	2	131976356	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	6801200	131976356	111223017	73	30348										
LCT	3938	broad.mit.edu	37	chr2	136575347	136575347	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cgctggccacctccagcgtcGcttggccctcagtggtgttc	12	16	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:136575347G>T	uc002tuu.1	-	6	1282	c.1271C>A	c.(1270-1272)GCG>GAG	p.A424E		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	424	Extracellular (Potential).|4 X approximate repeats.|2.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CTCCAGCGTCGCTTGGCCCTC	0.632													57	83	---	---	---	---	PASS	T	136575347	T	T	136575347	3	4	80	1	0	0	0	0	1	0	0	0	8693	1087	38	1	4560	1	LCT	2	136575347	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	4598991	136575347	106624026	74	30349										
LRP1B	53353	broad.mit.edu	37	chr2	141215062	141215062	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tctataagaatgatacacctGgatatctgtgatggcatgcc	9	8	2	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:141215062G>C	uc002tvj.1	-	61	10756	c.9784C>G	c.(9784-9786)CAG>GAG	p.Q3262E		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3262	Extracellular (Potential).|LDL-receptor class B 32.				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)		TGATACACCTGGATATCTGTG	0.383										TSP Lung(27;0.18)			59	229	---	---	---	---	PASS	C	141215062	C	C	141215062	3	2	80	1	0	0	0	0	1	0	0	0	8955	1357	47	4	4139	4	LRP1B	2	141215062	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	4639715	141215062	101984311	75	30350										
LRP1B	53353	broad.mit.edu	37	chr2	141771249	141771249	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccattcatataatcagtccaGaacacataatttccatgatg	4	10	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:141771249G>T	uc002tvj.1	-	14	3228	c.2256C>A	c.(2254-2256)TTC>TTA	p.F752L	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	752	Extracellular (Potential).				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)		AATCAGTCCAGAACACATAAT	0.388										TSP Lung(27;0.18)			28	184	---	---	---	---	PASS	T	141771249	T	T	141771249	3	4	80	1	0	0	0	0	1	0	0	0	8955	933	33	2	11855	2	LRP1B	2	141771249	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	556187	141771249	101428124	76	30351										
FIGN	55137	broad.mit.edu	37	chr2	164467369	164467369	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggagtccatatctccttgccCtgccatgtagaaagctttcc	8	13	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:164467369C>A	uc002uck.1	-	3	1284	c.973G>T	c.(973-975)GGG>TGG	p.G325W		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	325						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						TCTCCTTGCCCTGCCATGTAG	0.468													138	118	---	---	---	---	PASS	A	164467369	A	A	164467369	3	1	80	1	0	0	0	0	1	0	0	0	5891	681	24	3	1310	3	FIGN	2	164467369	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	22696120	164467369	78732004	77	30352										
SCN2A	6326	broad.mit.edu	37	chr2	166231454	166231454	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctttgataacgtaggacttgGatatctgtctctacttcaag	8	8	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:166231454G>C	uc002udc.2	+	22	4522	c.4232G>C	c.(4231-4233)GGA>GCA	p.G1411A	SCN2A_uc002udd.2_Missense_Mutation_p.G1411A|SCN2A_uc002ude.2_Missense_Mutation_p.G1411A	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1411	III.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	GTAGGACTTGGATATCTGTCT	0.328													15	60	---	---	---	---	PASS	C	166231454	C	C	166231454	3	2	80	1	0	0	0	0	1	0	0	0	13916	1174	41	2	4410	2	SCN2A	2	166231454	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1764085	166231454	76967919	78	30353										
TTN	7273	broad.mit.edu	37	chr2	179397670	179397670	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gggcacgaactgcttgatgcGttggtcttcttctatggtag	13	8	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:179397670G>A	uc010zfg.1	-	307	96192	c.95968C>T	c.(95968-95970)CGC>TGC	p.R31990C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R25685C|TTN_uc010zfi.1_Missense_Mutation_p.R25618C|TTN_uc010zfj.1_Missense_Mutation_p.R25493C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32917							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)			TGCTTGATGCGTTGGTCTTCT	0.433													182	189	---	---	---	---	PASS	A	179397670	A	A	179397670	3	1	80	1	0	0	0	0	1	0	0	0	16732	1145	40	1	4327	1	TTN	2	179397670	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	13166216	179397670	63801703	79	30354										
TTN	7273	broad.mit.edu	37	chr2	179578804	179578804	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tccatccttaaaccacttagTactgagttcaggggtgccag	9	11	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:179578804T>C	uc010zfg.1	-	89	23073	c.22849A>G	c.(22849-22851)ACT>GCT	p.T7617A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T4278A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8544							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)			AACCACTTAGTACTGAGTTCA	0.423													18	53	---	---	---	---	PASS	C	179578804	C	C	179578804	3	2	80	1	0	0	0	0	1	0	0	0	16732	1638	57	5	78032	5	TTN	2	179578804	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	181134	179578804	63620569	80	30355										
TTN	7273	broad.mit.edu	37	chr2	179612908	179612908	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cagtttcttctatatctgcaGatgaggttggaagtagggca	12	6	3	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:179612908G>A	uc002unb.2	-	46	14443	c.14219C>T	c.(14218-14220)TCT>TTT	p.S4740F	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	851							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)			TATATCTGCAGATGAGGTTGG	0.358													56	81	---	---	---	---	PASS	A	179612908	A	A	179612908	3	1	80	1	0	0	0	0	1	0	0	0	16732	942	33	2	96078	2	TTN	2	179612908	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	34104	179612908	63586465	81	30356										
ZNF385B	151126	broad.mit.edu	37	chr2	180634308	180634308	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cagctgcttcactcgtttgcGgtgggatttgccgttggaat	13	9	1	0	rs138550246		TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:180634308G>A	uc002unn.3	-	3	779	c.175C>T	c.(175-177)CGC>TGC	p.R59C		NM_152520	NP_689733	Q569K4	Z385B_HUMAN	zinc finger protein 385B isoform 1	59	Matrin-type 1.					nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			ACTCGTTTGCGGTGGGATTTG	0.577													4	85	---	---	---	---	PASS	A	180634308	A	A	180634308	3	1	80	1	0	0	0	0	1	0	0	0	17874	1116	39	1	1301	1	ZNF385B	2	180634308	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1021400	180634308	62565065	82	30357										
ASNSD1	54529	broad.mit.edu	37	chr2	190532263	190532263	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtgcagtctggtttgcttctAgaggaattggttggttagtg	15	4	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:190532263A>G	uc002uqt.2	+	4	1839	c.1405A>G	c.(1405-1407)AGA>GGA	p.R469G		NM_019048	NP_061921	Q9NWL6	ASND1_HUMAN	asparagine synthetase domain containing 1	469	Asparagine synthetase.				asparagine biosynthetic process|glutamine metabolic process		asparagine synthase (glutamine-hydrolyzing) activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0449)|all cancers(119;0.118)			GTTTGCTTCTAGAGGAATTGG	0.428													169	171	---	---	---	---	PASS	G	190532263	G	G	190532263	3	3	80	1	0	0	0	0	1	0	0	0	1049	412	15	5	1407	5	ASNSD1	2	190532263	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	9897955	190532263	52667110	83	30358										
HECW2	57520	broad.mit.edu	37	chr2	197184220	197184220	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	actcgtgatcttcttcatctGaatcaatatgaagcatggca	7	9	5	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:197184220G>C	uc002utm.1	-	9	1577	c.1394C>G	c.(1393-1395)TCA>TGA	p.S465*	HECW2_uc002utl.1_Nonsense_Mutation_p.S109*	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	465					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						TTCTTCATCTGAATCAATATG	0.517													33	31	---	---	---	---	PASS	C	197184220	C	C	197184220	4	2	80	1	0	0	0	0	0	1	0	0	7043	1294	45	2	3408	2	HECW2	2	197184220	Nonsense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	6651957	197184220	46015153	84	30359										
FN1	2335	broad.mit.edu	37	chr2	216300472	216300472	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cccgtggagggcaccgctgtCcccaggcactggacggccag	15	16	0	0	rs149268490	byFrequency	TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:216300472C>G	uc002vfa.2	-	1	320	c.54G>C	c.(52-54)GGG>GGC	p.G18G	FN1_uc002vfb.2_Silent_p.G18G|FN1_uc002vfc.2_Silent_p.G18G|FN1_uc002vfd.2_Silent_p.G18G|FN1_uc002vfe.2_Silent_p.G18G|FN1_uc002vff.2_Silent_p.G18G|FN1_uc002vfg.2_Silent_p.G18G|FN1_uc002vfh.2_Silent_p.G18G|FN1_uc002vfi.2_Silent_p.G18G|FN1_uc002vfj.2_Silent_p.G18G|FN1_uc002vfl.2_Silent_p.G18G	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	18					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCACCGCTGTCCCCAGGCACT	0.667													4	4	---	---	---	---	PASS	G	216300472	G	G	216300472	2	3	80	1	0	0	0	0	0	0	0	1	5962	842	30	2		2	FN1	2	216300472	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	19116252	216300472	26898901	85	30360										
CTDSP1	58190	broad.mit.edu	37	chr2	219267090	219267090	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agccagtgaacaacgcggacTtcatcatccctgtggagatt	10	11	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:219267090T>G	uc002vhy.2	+	4	676	c.340T>G	c.(340-342)TTC>GTC	p.F114V	CTDSP1_uc002vhx.2_Missense_Mutation_p.F113V|CTDSP1_uc002vhz.2_5'UTR|uc010zkd.1_5'Flank|MIR26B_hsa-mir-26b|MI0000084_5'Flank	NM_021198	NP_067021	Q9GZU7	CTDS1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	114	FCP1 homology.				protein dephosphorylation|regulation of transcription from RNA polymerase II promoter	nucleus	CTD phosphatase activity|metal ion binding|protein binding			ovary(1)	1		Renal(207;0.0915)		Epithelial(149;9.96e-07)|all cancers(144;0.00017)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAACGCGGACTTCATCATCCC	0.632													74	99	---	---	---	---	PASS	G	219267090	G	G	219267090	3	3	80	1	0	0	0	0	1	0	0	0	4003	1609	56	5	354	5	CTDSP1	2	219267090	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	2966618	219267090	23932283	86	30361										
DES	1674	broad.mit.edu	37	chr2	220283366	220283366	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccaggtgtcgcgcacgtcggGcggggccgggggcctggggt	22	12	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:220283366G>T	uc002vll.2	+	1	268	c.182G>T	c.(181-183)GGC>GTC	p.G61V		NM_001927	NP_001918	P17661	DESM_HUMAN	desmin	61	Head.				cytoskeleton organization|muscle filament sliding|regulation of heart contraction	cytosol|Z disc	protein binding|structural constituent of cytoskeleton			central_nervous_system(2)	2		Renal(207;0.0183)		Epithelial(149;5.25e-07)|all cancers(144;0.000103)|Lung(261;0.00533)|LUSC - Lung squamous cell carcinoma(224;0.008)		CGCACGTCGGGCGGGGCCGGG	0.741													3	7	---	---	---	---	PASS	T	220283366	T	T	220283366	3	4	80	1	0	0	0	0	1	0	0	0	4449	1203	42	3	184	3	DES	2	220283366	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1016276	220283366	22916007	87	30362										
CUL3	8452	broad.mit.edu	37	chr2	225339077	225339077	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gacttggtaagaatcgcgccTtcaactgctgagttacctaa	9	10	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:225339077T>A	uc002vny.2	-	16	2576	c.2192A>T	c.(2191-2193)AAG>ATG	p.K731M	CUL3_uc010zls.1_Missense_Mutation_p.K665M|CUL3_uc010fwy.1_Missense_Mutation_p.K737M	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	731					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		GAATCGCGCCTTCAACTGCTG	0.333													58	48	---	---	---	---	PASS	A	225339077	A	A	225339077	3	1	80	1	0	0	0	0	1	0	0	0	4056	1609	56	5	118	5	CUL3	2	225339077	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	5055711	225339077	17860296	88	30363										
IRS1	3667	broad.mit.edu	37	chr2	227660841	227660841	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctgctgctctcgggcccgagGtaaggtgctggccttgggat	16	11	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:227660841G>T	uc002voh.3	-	1	2666	c.2614C>A	c.(2614-2616)CCT>ACT	p.P872T		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	872					fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		CGGGCCCGAGGTAAGGTGCTG	0.557													17	37	---	---	---	---	PASS	T	227660841	T	T	227660841	3	4	80	1	0	0	0	0	1	0	0	0	7840	1261	44	3	1118	3	IRS1	2	227660841	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	2321764	227660841	15538532	89	30364										
SPHKAP	80309	broad.mit.edu	37	chr2	228884548	228884548	+	Missense_Mutation	SNP	G	T	T													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tggagaaataagcatcttttGgaatatacagtgcctgtgat							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:228884548G>T	uc002vpq.2	-	7	1069	c.1022C>A	c.(1021-1023)CCA>CAA	p.P341Q	SPHKAP_uc002vpp.2_Missense_Mutation_p.P341Q|SPHKAP_uc010zlx.1_Missense_Mutation_p.P341Q	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	341						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		AGCATCTTTTGGAATATACAG	0.418													71	374	---	---	---	---	PASS	T	228884548	T	T	228884548	3	4	80	1	0	0	0	0	1	0	0	0	15047	1348	47	3	4104	3	SPHKAP	2	228884548	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1223707	228884548	14314825	90	30365	605	2								
SPHKAP	80309	broad.mit.edu	37	chr2	228884549	228884549	+	Missense_Mutation	SNP	G	T	T													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggagaaataagcatcttttgGaatatacagtgcctgtgatt							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:228884549G>T	uc002vpq.2	-	7	1068	c.1021C>A	c.(1021-1023)CCA>ACA	p.P341T	SPHKAP_uc002vpp.2_Missense_Mutation_p.P341T|SPHKAP_uc010zlx.1_Missense_Mutation_p.P341T	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	341						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GCATCTTTTGGAATATACAGT	0.423													72	379	---	---	---	---	PASS	T	228884549	T	T	228884549	3	4	80	1	0	0	0	0	1	0	0	0	15047	1174	41	2	4105	2	SPHKAP	2	228884549	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1	228884549	14314824	91	30366	605	2								
ANKMY1	51281	broad.mit.edu	37	chr2	241463551	241463551	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccacatggccaaggctgcccTtcaccaacggggagtccccc	10	18	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr2:241463551T>C	uc002vyz.1	-	7	1545	c.1316A>G	c.(1315-1317)AAG>AGG	p.K439R	ANKMY1_uc002vza.1_Missense_Mutation_p.K298R|ANKMY1_uc010fzd.1_Missense_Mutation_p.K528R|ANKMY1_uc002vzb.1_Intron|ANKMY1_uc002vzc.1_Missense_Mutation_p.K298R|ANKMY1_uc002vzd.1_Missense_Mutation_p.K298R|ANKMY1_uc010fze.1_Missense_Mutation_p.K108R|ANKMY1_uc002vze.2_Missense_Mutation_p.K200R	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	439							zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		AAGGCTGCCCTTCACCAACGG	0.617													51	53	---	---	---	---	PASS	C	241463551	C	C	241463551	3	2	80	1	0	0	0	0	1	0	0	0	634	1609	56	5	1553	5	ANKMY1	2	241463551	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	12579002	241463551	1735822	92	30367										
TRIM71	131405	broad.mit.edu	37	chr3	32933223	32933223	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcggctttgggcagatggacCgcccttccggcatcgccatc	13	15	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:32933223C>T	uc003cff.2	+	4	2590	c.2527C>T	c.(2527-2529)CGC>TGC	p.R843C		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	843	NHL 6.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						GCAGATGGACCGCCCTTCCGG	0.537													12	245	---	---	---	---	PASS	T	32933223	T	T	32933223	3	4	80	1	0	0	0	0	1	0	0	0	16541	652	23	1	2541	1	TRIM71	3	32933223	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08		32933223	165089207	93	30368										
UBP1	7342	broad.mit.edu	37	chr3	33437660	33437660	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccctcaatacctaccataggGtgccccactgccattctcgc	6	18	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:33437660G>A	uc003cfq.3	-	13	1914	c.1384C>T	c.(1384-1386)CCC>TCC	p.P462S	FBXL2_uc011axq.1_Intron|FBXL2_uc011axr.1_Intron|UBP1_uc003cfr.3_Missense_Mutation_p.P426S|UBP1_uc010hga.2_Missense_Mutation_p.P462S	NM_014517	NP_055332	Q9NZI7	UBIP1_HUMAN	upstream binding protein 1 (LBP-1a) isoform a	462					negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|viral genome replication	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			kidney(2)	2						CTACCATAGGGTGCCCCACTG	0.532													121	90	---	---	---	---	PASS	A	33437660	A	A	33437660	3	1	80	1	0	0	0	0	1	0	0	0	16892	1261	44	3	254	3	UBP1	3	33437660	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	504437	33437660	164584770	94	30369										
SMARCC1	6599	broad.mit.edu	37	chr3	47742825	47742825	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aggtgttgggtcttccatatCcttggttagatcttcttgct	10	8	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:47742825C>A	uc003crq.2	-	11	1226	c.1108G>T	c.(1108-1110)GAT>TAT	p.D370Y	SMARCC1_uc011bbd.1_Missense_Mutation_p.D261Y	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	370					chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		TCTTCCATATCCTTGGTTAGA	0.368													103	54	---	---	---	---	PASS	A	47742825	A	A	47742825	3	1	80	1	0	0	0	0	1	0	0	0	14775	855	30	2	2281	2	SMARCC1	3	47742825	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	14305165	47742825	150279605	95	30370										
CADPS	8618	broad.mit.edu	37	chr3	62464080	62464080	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aaaacagatcttctgaggtgCctgacccattactggcagga	10	10	2	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:62464080C>T	uc003dll.2	-	23	3545	c.3185G>A	c.(3184-3186)GGC>GAC	p.G1062D	CADPS_uc003dlj.1_Missense_Mutation_p.G12D|CADPS_uc003dlk.1_Missense_Mutation_p.G510D|CADPS_uc003dlm.2_Missense_Mutation_p.G1023D|CADPS_uc003dln.2_Missense_Mutation_p.G983D	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	1062	MHD1.|Interaction with DRD2.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		TTCTGAGGTGCCTGACCCATT	0.498													28	26	---	---	---	---	PASS	T	62464080	T	T	62464080	3	4	80	1	0	0	0	0	1	0	0	0	2570	739	26	3	908	3	CADPS	3	62464080	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	14721255	62464080	135558350	96	30371										
COL8A1	1295	broad.mit.edu	37	chr3	99514202	99514202	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cggacctaagggagagccagGaatcccaggggatcagggtt	16	9	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:99514202G>A	uc003dtg.1	+	5	1702	c.1457G>A	c.(1456-1458)GGA>GAA	p.G486E	COL8A1_uc003dth.1_Missense_Mutation_p.G486E|COL8A1_uc003dti.1_Missense_Mutation_p.G487E	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	486	Triple-helical region (COL1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						GGAGAGCCAGGAATCCCAGGG	0.627													8	28	---	---	---	---	PASS	A	99514202	A	A	99514202	3	1	80	1	0	0	0	0	1	0	0	0	3705	1174	41	2	1463	2	COL8A1	3	99514202	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	37050122	99514202	98508228	97	30372										
CBLB	868	broad.mit.edu	37	chr3	105438956	105438956	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atcatcatcgtcgtccaagtCtagcatcggcatgccaaagg	9	12	3	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:105438956C>A	uc003dwc.2	-	10	1664	c.1342G>T	c.(1342-1344)GAC>TAC	p.D448Y	CBLB_uc011bhi.1_Missense_Mutation_p.D470Y|CBLB_uc003dwd.1_Missense_Mutation_p.D448Y|CBLB_uc003dwe.1_Missense_Mutation_p.D448Y|CBLB_uc011bhj.1_RNA	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	448					cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						TCGTCCAAGTCTAGCATCGGC	0.468			Mis S		AML								40	103	---	---	---	---	PASS	A	105438956	A	A	105438956	3	1	80	1	0	0	0	0	1	0	0	0	2701	913	32	2	1646	2	CBLB	3	105438956	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	5924754	105438956	92583474	98	30373										
SNX4	8723	broad.mit.edu	37	chr3	125216958	125216958	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gatagtaaactaaaaggtagCttctcaacaactcaaattca	5	8	3	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:125216958C>A	uc003eib.2	-	3	386	c.344G>T	c.(343-345)AGC>ATC	p.S115I	SNX4_uc011bkf.1_5'UTR	NM_003794	NP_003785	O95219	SNX4_HUMAN	sorting nexin 4	115	PX.				cell communication|endocytic recycling|endocytosis|protein transport	cytoplasmic dynein complex|early endosome membrane	phosphatidylinositol binding|protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4						TAAAAGGTAGCTTCTCAACAA	0.413													57	191	---	---	---	---	PASS	A	125216958	A	A	125216958	3	1	80	1	0	0	0	0	1	0	0	0	14904	797	28	3	1056	3	SNX4	3	125216958	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	19778002	125216958	72805472	99	30374										
COPG	22820	broad.mit.edu	37	chr3	128976393	128976393	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atgatcagcaaggtcacacgGcatggccttaagtctccctt	9	12	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:128976393G>A	uc003els.2	+	9	760	c.660G>A	c.(658-660)CGG>CGA	p.R220R	COPG_uc010htb.2_Silent_p.R126R	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	220					COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						AGGTCACACGGCATGGCCTTA	0.542													6	769	---	---	---	---	PASS	A	128976393	A	A	128976393	2	1	80	1	0	0	0	0	0	0	0	1	3731	1190	42	3		3	COPG	3	128976393	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	3759435	128976393	69046037	100	30375										
SLCO2A1	6578	broad.mit.edu	37	chr3	133670154	133670154	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cctagccaccaggctccaatCcatcgggggtcacccgggac	11	17	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:133670154C>T	uc003eqa.3	-	6	1033	c.759G>A	c.(757-759)TGG>TGA	p.W253*	SLCO2A1_uc003eqb.3_Nonsense_Mutation_p.W177*|SLCO2A1_uc011blv.1_Intron|SLCO2A1_uc010htw.1_Nonsense_Mutation_p.W85*	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	253	Extracellular (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						AGGCTCCAATCCATCGGGGGT	0.478													106	136	---	---	---	---	PASS	T	133670154	T	T	133670154	4	4	80	1	0	0	0	0	0	1	0	0	14726	856	30	2	1208	2	SLCO2A1	3	133670154	Nonsense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	4693761	133670154	64352276	101	30376										
EPHB1	2047	broad.mit.edu	37	chr3	134911504	134911504	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcaagaccctgaaggcagggTactcggagaagcagcgtcgg	15	10	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:134911504T>G	uc003eqt.2	+	11	2189	c.1969T>G	c.(1969-1971)TAC>GAC	p.Y657D	EPHB1_uc003equ.2_Missense_Mutation_p.Y218D	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	657	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GAAGGCAGGGTACTCGGAGAA	0.547													30	119	---	---	---	---	PASS	G	134911504	G	G	134911504	3	3	80	1	0	0	0	0	1	0	0	0	5174	1638	57	5	2011	5	EPHB1	3	134911504	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	1241350	134911504	63110926	102	30377										
A4GNT	51146	broad.mit.edu	37	chr3	137849900	137849900	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agactctacggaacaggagaCcaaatggggtggctccattc	12	10	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:137849900C>A	uc003ers.2	-	2	401	c.199G>T	c.(199-201)GTC>TTC	p.V67F		NM_016161	NP_057245	Q9UNA3	A4GCT_HUMAN	alpha-1,4-N-acetylglucosaminyltransferase	67	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	acetylglucosaminyltransferase activity|galactosyltransferase activity			central_nervous_system(1)	1						GAACAGGAGACCAAATGGGGT	0.527													58	205	---	---	---	---	PASS	A	137849900	A	A	137849900	3	1	80	1	0	0	0	0	1	0	0	0	7	507	18	3	831	3	A4GNT	3	137849900	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	2938396	137849900	60172530	103	30378										
SLC9A9	285195	broad.mit.edu	37	chr3	142985611	142985611	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agcctcccaggccgaggtctCcctcataaatgttttccttg	8	14	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:142985611C>A	uc003evn.2	-	16	2053	c.1871G>T	c.(1870-1872)GGA>GTA	p.G624V		NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	624					regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						GCCGAGGTCTCCCTCATAAAT	0.502													115	371	---	---	---	---	PASS	A	142985611	A	A	142985611	3	1	80	1	0	0	0	0	1	0	0	0	14721	855	30	2	70	2	SLC9A9	3	142985611	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	5135711	142985611	55036819	104	30379										
ZIC1	7545	broad.mit.edu	37	chr3	147128643	147128643	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgcaacaaaactttcagcacCatgcacgagctagttacgca	7	12	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:147128643C>A	uc003ewe.2	+	1	1463	c.744C>A	c.(742-744)ACC>ACA	p.T248T		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	248	C2H2-type 1; atypical.				behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CTTTCAGCACCATGCACGAGC	0.577													57	141	---	---	---	---	PASS	A	147128643	A	A	147128643	2	1	80	1	0	0	0	0	0	0	0	1	17675	581	21	3		3	ZIC1	3	147128643	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	4143032	147128643	50893787	105	30380										
AADACL2	344752	broad.mit.edu	37	chr3	151463307	151463307	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttctttaaagctataggctgGctcctcaacaccactttcct	5	13	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:151463307G>C	uc003ezc.2	+	4	562	c.442G>C	c.(442-444)GCT>CCT	p.A148P	AADACL2_uc010hvn.2_5'UTR	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2 precursor	148						extracellular region|integral to membrane	carboxylesterase activity				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			CTATAGGCTGGCTCCTCAACA	0.353													176	500	---	---	---	---	PASS	C	151463307	C	C	151463307	3	2	80	1	0	0	0	0	1	0	0	0	11	1203	42	4	456	4	AADACL2	3	151463307	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	4334664	151463307	46559123	106	30381										
VEPH1	79674	broad.mit.edu	37	chr3	157034971	157034971	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	caggtgaagaacaactttgcTacacaacttctcacagtgtc	7	11	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:157034971T>G	uc003fbj.1	-	10	2072	c.1755A>C	c.(1753-1755)GTA>GTC	p.V585V	VEPH1_uc003fbk.1_Silent_p.V585V|VEPH1_uc010hvu.1_Silent_p.V585V	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	585						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			ACAACTTTGCTACACAACTTC	0.398													11	346	---	---	---	---	PASS	G	157034971	G	G	157034971	2	3	80	1	0	0	0	0	0	0	0	1	17151	1509	53	5		5	VEPH1	3	157034971	Silent	SNP	T	TCGA-37-4141-01A-02D-1352-08	5571664	157034971	40987459	107	30382										
ZBBX	79740	broad.mit.edu	37	chr3	167023679	167023679	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gctttcctcaattttttcaaTgtcagaagaatacacatcag	5	9	4	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:167023679T>A	uc003fep.2	-	17	1800	c.1477A>T	c.(1477-1479)ATT>TTT	p.I493F	ZBBX_uc011bpc.1_Missense_Mutation_p.I493F|ZBBX_uc003feq.2_Missense_Mutation_p.I464F	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	493						intracellular	zinc ion binding			ovary(2)	2						ATTTTTTCAATGTCAGAAGAA	0.313													30	94	---	---	---	---	PASS	A	167023679	A	A	167023679	3	1	80	1	0	0	0	0	1	0	0	0	17513	1464	51	5	945	5	ZBBX	3	167023679	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	9988708	167023679	30998751	108	30383										
SERPINI1	5274	broad.mit.edu	37	chr3	167510553	167510553	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	caaattccaatgatgtatcaGcaaggagaattttattatgg	8	5	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:167510553G>A	uc003ffa.3	+	4	855	c.657G>A	c.(655-657)CAG>CAA	p.Q219Q	SERPINI1_uc003ffb.3_Silent_p.Q219Q	NM_001122752	NP_001116224	Q99574	NEUS_HUMAN	neuroserpin precursor	219					central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1						TGATGTATCAGCAAGGAGAAT	0.333													80	280	---	---	---	---	PASS	A	167510553	A	A	167510553	2	1	80	1	0	0	0	0	0	0	0	1	14118	962	34	3		3	SERPINI1	3	167510553	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	486874	167510553	30511877	109	30384										
MYNN	55892	broad.mit.edu	37	chr3	169492342	169492342	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tatacacaggaactttaaatCttgacaggtaaagtacacat	6	7	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:169492342C>A	uc003fft.2	+	2	688	c.259C>A	c.(259-261)CTT>ATT	p.L87I	MYNN_uc011bpm.1_Intron|MYNN_uc003ffu.2_Missense_Mutation_p.L87I|MYNN_uc003ffv.2_5'UTR|MYNN_uc010hwo.2_Missense_Mutation_p.L87I	NM_018657	NP_061127	Q9NPC7	MYNN_HUMAN	myoneurin	87	BTB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;2.19e-58)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			AACTTTAAATCTTGACAGGTA	0.343													70	551	---	---	---	---	PASS	A	169492342	A	A	169492342	3	1	80	1	0	0	0	0	1	0	0	0	10061	913	32	2	261	2	MYNN	3	169492342	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1981789	169492342	28530088	110	30385										
LRRC15	131578	broad.mit.edu	37	chr3	194080379	194080379	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	caacgttgacattgatgataAtgagggactggcctcggaca	12	8	0	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:194080379A>T	uc003ftu.2	-	2	1480	c.1394T>A	c.(1393-1395)ATT>AAT	p.I465N	LRRC15_uc003ftt.2_Missense_Mutation_p.I471N	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	465	LRRCT.|Extracellular (Potential).					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		ATTGATGATAATGAGGGACTG	0.557													25	35	---	---	---	---	PASS	T	194080379	T	T	194080379	3	4	80	1	0	0	0	0	1	0	0	0	8970	101	4	5	355	5	LRRC15	3	194080379	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	24588037	194080379	3942051	111	30386										
FYTTD1	84248	broad.mit.edu	37	chr3	197503814	197503814	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctagatggcggacttccaccAcaaatggagggattttgact	11	9	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr3:197503814A>T	uc003fyi.2	+	7	892	c.673A>T	c.(673-675)ACA>TCA	p.T225S	FYTTD1_uc011bui.1_Missense_Mutation_p.T199S|FYTTD1_uc011buj.1_RNA|FYTTD1_uc011buk.1_Missense_Mutation_p.T158S	NM_032288	NP_115664	Q96QD9	UIF_HUMAN	forty-two-three domain containing 1 isoform 1	225					mRNA export from nucleus	nuclear speck	mRNA binding|protein binding				0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.175)		GACTTCCACCACAAATGGAGG	0.303													77	198	---	---	---	---	PASS	T	197503814	T	T	197503814	3	4	80	1	0	0	0	0	1	0	0	0	6127	159	6	5	728	5	FYTTD1	3	197503814	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	3423435	197503814	518616	112	30387										
HTRA3	94031	broad.mit.edu	37	chr4	8271847	8271847	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcccgacctctgcaactgctGcctggtgtgcgccgccagcg	13	17	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr4:8271847G>T	uc003gla.2	+	1	356	c.152G>T	c.(151-153)TGC>TTC	p.C51F	HTRA3_uc003gkz.2_Missense_Mutation_p.C51F	NM_053044	NP_444272	P83110	HTRA3_HUMAN	HtrA serine peptidase 3 precursor	51	IGFBP N-terminal.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity			ovary(1)	1						TGCAACTGCTGCCTGGTGTGC	0.771													10	6	---	---	---	---	PASS	T	8271847	T	T	8271847	3	4	80	1	0	0	0	0	1	0	0	0	7455	1319	46	3	154	3	HTRA3	4	8271847	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08		8271847	182882429	113	30388										
GPR125	166647	broad.mit.edu	37	chr4	22390767	22390767	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttcgctgctgcagttatgccGcaaacaatgatggggatacc	11	10	0	1	rs138178541	byFrequency	TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr4:22390767G>A	uc003gqm.1	-	18	2932	c.2667C>T	c.(2665-2667)TGC>TGT	p.C889C	GPR125_uc010ieo.1_Silent_p.C745C|GPR125_uc003gql.1_Silent_p.C16C	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	889	Helical; Name=4; (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				CAGTTATGCCGCAAACAATGA	0.423													5	432	---	---	---	---	PASS	A	22390767	A	A	22390767	2	1	80	1	0	0	0	0	0	0	0	1	6639	1079	38	1		1	GPR125	4	22390767	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	14118920	22390767	168763509	114	30389										
GRXCR1	389207	broad.mit.edu	37	chr4	42895576	42895576	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttttggtacaagaagagtcaAcattttaagcaaaaatggca	8	5	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr4:42895576A>G	uc003gwt.2	+	1	293	c.293A>G	c.(292-294)AAC>AGC	p.N98S		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	98					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						AGAAGAGTCAACATTTTAAGC	0.428													147	119	---	---	---	---	PASS	G	42895576	G	G	42895576	3	3	80	1	0	0	0	0	1	0	0	0	6812	43	2	5	295	5	GRXCR1	4	42895576	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	20504809	42895576	148258700	115	30390										
LRRC66	339977	broad.mit.edu	37	chr4	52861681	52861681	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gagaatggaatagactgcacCatcatttccacttcctgccc	7	13	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr4:52861681C>A	uc003gzi.2	-	4	1520	c.1507G>T	c.(1507-1509)GGT>TGT	p.G503C		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	503						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						TAGACTGCACCATCATTTCCA	0.522													104	93	---	---	---	---	PASS	A	52861681	A	A	52861681	3	1	80	1	0	0	0	0	1	0	0	0	9018	594	21	3	1139	3	LRRC66	4	52861681	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	9966105	52861681	138292595	116	30391										
C4orf14	84273	broad.mit.edu	37	chr4	57842861	57842861	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttcggcggattcggattctcCccgtcctgtggctcgtcctt	11	14	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr4:57842861C>A	uc003hck.2	-	1	966	c.891G>T	c.(889-891)GGG>GGT	p.G297G	POLR2B_uc003hcl.1_5'Flank|POLR2B_uc011cae.1_5'Flank|POLR2B_uc011caf.1_5'Flank	NM_032313	NP_115689	Q8NC60	CD014_HUMAN	hypothetical protein LOC84273	297							GTP binding			ovary(1)|breast(1)	2	Glioma(25;0.08)|all_neural(26;0.181)					TCGGATTCTCCCCGTCCTGTG	0.677													28	18	---	---	---	---	PASS	A	57842861	A	A	57842861	2	1	80	1	0	0	0	0	0	0	0	1	2251	610	22	3		3	C4orf14	4	57842861	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	4981180	57842861	133311415	117	30392										
TECRL	253017	broad.mit.edu	37	chr4	65188413	65188413	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aaattaacacttactgtggtCcaactgacttgttgacctag	7	9	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr4:65188413C>G	uc003hcv.2	-	4	538	c.429G>C	c.(427-429)TGG>TGC	p.W143C	TECRL_uc003hcw.2_Missense_Mutation_p.W143C	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	143	Helical; (Potential).				lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						TTACTGTGGTCCAACTGACTT	0.343													30	20	---	---	---	---	PASS	G	65188413	G	G	65188413	3	3	80	1	0	0	0	0	1	0	0	0	15743	856	30	2	698	2	TECRL	4	65188413	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	7345552	65188413	125965863	118	30393										
TRPC3	7222	broad.mit.edu	37	chr4	122833102	122833102	+	Frame_Shift_Del	DEL	G	-	-													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttcaccctgaagatctgtttGggatagtcagtaactgtgat							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr4:122833102delG	uc003ieg.2	-	5	1562	c.1488delC	c.(1486-1488)CCCfs	p.P496fs	TRPC3_uc010inr.2_Frame_Shift_Del_p.P368fs|TRPC3_uc003ief.2_Frame_Shift_Del_p.P423fs|TRPC3_uc011cgl.1_Frame_Shift_Del_p.P160fs	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	411	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						AGATCTGTTTGGGATAGTCAG	0.418													114	121	---	---	---	---		-	122833102	-	-	122833102	7	5	80	1	0	1	0	1	0	0	0	0	16576	1335	47	0	1309	0	TRPC3	4	122833102	Frame_Shift_Del	DEL	G	TCGA-37-4141-01A-02D-1352-08	57644689	122833102	68321174	119	30394										
GRIA2	2891	broad.mit.edu	37	chr4	158242640	158242640	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cagtttggaggtgcaaatgtCtctggatttcagatagtgga	13	5	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr4:158242640C>G	uc003ipm.3	+	6	1230	c.771C>G	c.(769-771)GTC>GTG	p.V257V	GRIA2_uc011cit.1_Silent_p.V210V|GRIA2_uc003ipl.3_Silent_p.V257V|GRIA2_uc003ipk.3_Silent_p.V210V|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	257	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	GTGCAAATGTCTCTGGATTTC	0.363													166	120	---	---	---	---	PASS	G	158242640	G	G	158242640	2	3	80	1	0	0	0	0	0	0	0	1	6768	900	32	2		2	GRIA2	4	158242640	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	35409538	158242640	32911636	120	30395										
ZFP42	132625	broad.mit.edu	37	chr4	188924487	188924487	+	Frame_Shift_Del	DEL	C	-	-													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cagaatttgctagaaagaagCcccccataaataaagaatat							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr4:188924487delC	uc003izg.1	+	3	771	c.526delC	c.(526-528)CCCfs	p.P176fs	ZFP42_uc003izh.1_Frame_Shift_Del_p.P176fs|ZFP42_uc003izi.1_Frame_Shift_Del_p.P176fs	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	176					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		TAGAAAGAAGCCCCCCATAAA	0.468													177	187	---	---	---	---		-	188924487	-	-	188924487	7	5	80	1	0	1	0	1	0	0	0	0	17647	739	26	0	528	0	ZFP42	4	188924487	Frame_Shift_Del	DEL	C	TCGA-37-4141-01A-02D-1352-08	30681847	188924487	2229789	121	30396										
IRX4	50805	broad.mit.edu	37	chr5	1879718	1879718	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cgcttctcgtctgcgcacttGttccgcggcggccacgtcat	11	16	3	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:1879718G>T	uc003jcz.2	-	4	755	c.636C>A	c.(634-636)AAC>AAA	p.N212K	IRX4_uc011cmf.1_Missense_Mutation_p.N73K	NM_016358	NP_057442	P78413	IRX4_HUMAN	iroquois homeobox 4	212					heart development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(108;0.242)		CTGCGCACTTGTTCCGCGGCG	0.483													24	67	---	---	---	---	PASS	T	1879718	T	T	1879718	3	4	80	1	0	0	0	0	1	0	0	0	7846	1368	48	3	931	3	IRX4	5	1879718	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08		1879718	179035542	122	30397										
NSUN2	54888	broad.mit.edu	37	chr5	6616870	6616870	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttccagtaaagatgctatgaCtgcttcatcctcaatagggt	8	9	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:6616870C>G	uc003jdu.2	-	9	1056	c.991G>C	c.(991-993)GTC>CTC	p.V331L	NSUN2_uc003jdt.2_Missense_Mutation_p.V95L|NSUN2_uc011cmk.1_Missense_Mutation_p.V296L|NSUN2_uc003jdv.2_Missense_Mutation_p.V95L	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	331						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						GATGCTATGACTGCTTCATCC	0.423													79	212	---	---	---	---	PASS	G	6616870	G	G	6616870	3	3	80	1	0	0	0	0	1	0	0	0	10678	565	20	4	1356	4	NSUN2	5	6616870	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	4737152	6616870	174298390	123	30398										
TAS2R1	50834	broad.mit.edu	37	chr5	9629613	9629613	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgagaactcagcaacaaaagAgaaaatctgtatagccagtg	9	7	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:9629613A>T	uc003jem.1	-	1	851	c.532T>A	c.(532-534)TCT>ACT	p.S178T		NM_019599	NP_062545	Q9NYW7	TA2R1_HUMAN	taste receptor T2R1	178	Extracellular (Potential).				chemosensory behavior|sensory perception of taste	integral to membrane	taste receptor activity			ovary(3)	3						GCAACAAAAGAGAAAATCTGT	0.403													115	332	---	---	---	---	PASS	T	9629613	T	T	9629613	3	4	80	1	0	0	0	0	1	0	0	0	15562	304	11	5	371	5	TAS2R1	5	9629613	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	3012743	9629613	171285647	124	30399										
CCT5	22948	broad.mit.edu	37	chr5	10254914	10254914	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tggaactgtccaagtctcagGatgatgaaattggagatgga	13	5	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:10254914G>T	uc003jeq.2	+	3	466	c.295G>T	c.(295-297)GAT>TAT	p.D99Y	CCT5_uc011cmq.1_Intron|CCT5_uc003jer.2_Missense_Mutation_p.D99Y|CCT5_uc010its.2_Missense_Mutation_p.D99Y|CCT5_uc011cmr.1_Intron|CCT5_uc011cms.1_Missense_Mutation_p.D61Y|CCT5_uc011cmt.1_Intron	NM_012073	NP_036205	P48643	TCPE_HUMAN	chaperonin containing TCP1, subunit 5 (epsilon)	99					'de novo' posttranslational protein folding|response to virus	microtubule organizing center|nucleolus	ATP binding|unfolded protein binding			ovary(2)	2						CAAGTCTCAGGATGATGAAAT	0.428													92	300	---	---	---	---	PASS	T	10254914	T	T	10254914	3	4	80	1	0	0	0	0	1	0	0	0	2956	1174	41	2	305	2	CCT5	5	10254914	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	625301	10254914	170660346	125	30400										
CDH18	1016	broad.mit.edu	37	chr5	19747071	19747071	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccatatctgacatttcaggcAcagtaacaatgtatggtcca	7	10	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:19747071A>T	uc003jgc.2	-	3	880	c.503T>A	c.(502-504)GTG>GAG	p.V168E	CDH18_uc003jgd.2_Missense_Mutation_p.V168E|CDH18_uc011cnm.1_Missense_Mutation_p.V168E	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	168	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CATTTCAGGCACAGTAACAAT	0.333													178	187	---	---	---	---	PASS	T	19747071	T	T	19747071	3	4	80	1	0	0	0	0	1	0	0	0	3103	159	6	5	1909	5	CDH18	5	19747071	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	9492157	19747071	161168189	126	30401										
CDH18	1016	broad.mit.edu	37	chr5	19747228	19747228	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggtcttctgctctctgtctaGgctttttgttgagtggatat	11	7	4	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:19747228G>T	uc003jgc.2	-	3	723	c.346C>A	c.(346-348)CTA>ATA	p.L116I	CDH18_uc003jgd.2_Missense_Mutation_p.L116I|CDH18_uc011cnm.1_Missense_Mutation_p.L116I	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	116	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TCTCTGTCTAGGCTTTTTGTT	0.438													123	418	---	---	---	---	PASS	T	19747228	T	T	19747228	3	4	80	1	0	0	0	0	1	0	0	0	3103	991	35	3	2066	3	CDH18	5	19747228	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	157	19747228	161168032	127	30402										
CDH12	1010	broad.mit.edu	37	chr5	21975332	21975332	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctttctggtttctatgtccaCagcctgagcacgaagagtgt	10	10	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:21975332C>G	uc010iuc.2	-	3	852	c.394G>C	c.(394-396)GTG>CTG	p.V132L	CDH12_uc011cno.1_Missense_Mutation_p.V132L|CDH12_uc003jgk.2_Missense_Mutation_p.V132L	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	132	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TCTATGTCCACAGCCTGAGCA	0.428										HNSCC(59;0.17)			92	243	---	---	---	---	PASS	G	21975332	G	G	21975332	3	3	80	1	0	0	0	0	1	0	0	0	3098	478	17	4	2030	4	CDH12	5	21975332	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	2228104	21975332	158939928	128	30403										
CDH10	1008	broad.mit.edu	37	chr5	24488134	24488134	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cagggtgccgatatcaaaggCctgggtgtcctcctctccac	11	14	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:24488134C>A	uc003jgr.1	-	12	2337	c.2005G>T	c.(2005-2007)GCC>TCC	p.A669S	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	669	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ATATCAAAGGCCTGGGTGTCC	0.463										HNSCC(23;0.051)			55	186	---	---	---	---	PASS	A	24488134	A	A	24488134	3	1	80	1	0	0	0	0	1	0	0	0	3096	739	26	3	365	3	CDH10	5	24488134	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	2512802	24488134	156427126	129	30404										
CDH9	1007	broad.mit.edu	37	chr5	26915908	26915908	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgtacagagatttttcttctCtgtctagtttctttgcagca	7	8	4	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:26915908C>A	uc003jgs.1	-	3	522	c.353G>T	c.(352-354)AGA>ATA	p.R118I	CDH9_uc010iug.2_Missense_Mutation_p.R118I	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	118	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TTTTTCTTCTCTGTCTAGTTT	0.383													6	639	---	---	---	---	PASS	A	26915908	A	A	26915908	3	1	80	1	0	0	0	0	1	0	0	0	3117	913	32	2	2056	2	CDH9	5	26915908	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	2427774	26915908	153999352	130	30405										
C5orf22	55322	broad.mit.edu	37	chr5	31551433	31551433	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtttaacctgcgattattcaGaacttcctcaccatatcagc	5	12	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:31551433G>C	uc003jhj.3	+	8	1220	c.1093G>C	c.(1093-1095)GAA>CAA	p.E365Q	C5orf22_uc011cnw.1_RNA|C5orf22_uc003jhk.3_Missense_Mutation_p.E100Q|C5orf22_uc010iuj.2_Missense_Mutation_p.E100Q	NM_018356	NP_060826	Q49AR2	CE022_HUMAN	hypothetical protein LOC55322	365										ovary(2)	2						CGATTATTCAGAACTTCCTCA	0.323													83	225	---	---	---	---	PASS	C	31551433	C	C	31551433	3	2	80	1	0	0	0	0	1	0	0	0	2285	943	33	2	1123	2	C5orf22	5	31551433	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	4635525	31551433	149363827	131	30406										
NNT	23530	broad.mit.edu	37	chr5	43628327	43628327	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cagctttggaacagttcaagTctcttggtgctgagcccttg	11	10	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:43628327T>A	uc003joe.2	+	7	1057	c.802T>A	c.(802-804)TCT>ACT	p.S268T	NNT_uc003jof.2_Missense_Mutation_p.S268T	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	268	Mitochondrial matrix.				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	ACAGTTCAAGTCTCTTGGTGC	0.418													168	409	---	---	---	---	PASS	A	43628327	A	A	43628327	3	1	80	1	0	0	0	0	1	0	0	0	10510	1667	58	5	824	5	NNT	5	43628327	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	12076894	43628327	137286933	132	30407										
FAM170A	340069	broad.mit.edu	37	chr5	118970272	118970272	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acatggaatcagagagcaccCaagatgagcaggaggaggaa	14	7	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:118970272C>G	uc003ksm.2	+	3	1039	c.829C>G	c.(829-831)CAA>GAA	p.Q277E	FAM170A_uc003ksl.2_Intron|FAM170A_uc003ksn.2_Missense_Mutation_p.Q277E|FAM170A_uc003kso.2_Missense_Mutation_p.Q230E	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	277	Glu-rich.					intracellular	zinc ion binding			skin(1)	1						AGAGAGCACCCaagatgagca	0.343													163	159	---	---	---	---	PASS	G	118970272	G	G	118970272	3	3	80	1	0	0	0	0	1	0	0	0	5489	595	21	4	839	4	FAM170A	5	118970272	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	75341945	118970272	61944988	133	30408										
IL9	3578	broad.mit.edu	37	chr5	135229765	135229765	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tttcacccgactgaaaatcaGtgggtatcttgtttgcatgg	10	8	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:135229765G>A	uc003lbb.1	-	4	270	c.259C>T	c.(259-261)CTG>TTG	p.L87L		NM_000590	NP_000581	P15248	IL9_HUMAN	interleukin 9 precursor	87					immune response|inflammatory response|positive regulation of cell proliferation|positive regulation of interleukin-5 biosynthetic process	extracellular space	cytokine activity|cytokine receptor binding|growth factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CTGAAAATCAGTGGGTATCTT	0.388													71	46	---	---	---	---	PASS	A	135229765	A	A	135229765	2	1	80	1	0	0	0	0	0	0	0	1	7707	1020	36	3		3	IL9	5	135229765	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	16259493	135229765	45685495	134	30409										
TMEM173	340061	broad.mit.edu	37	chr5	138857016	138857016	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggcctgctcaagcctatcctCccggctaaagccagcttgac	9	16	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:138857016C>A	uc003lep.2	-	7	1095	c.844G>T	c.(844-846)GAG>TAG	p.E282*		NM_198282	NP_938023	Q86WV6	TM173_HUMAN	transmembrane protein 173	282	Cytoplasmic (Potential).				activation of innate immune response|apoptosis|cellular response to exogenous dsRNA|defense response to virus|innate immune response|interferon-beta production|positive regulation of defense response to virus by host|positive regulation of protein binding|positive regulation of protein import into nucleus, translocation|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane|perinuclear region of cytoplasm|plasma membrane	protein homodimerization activity|protein kinase binding|transcription factor binding			upper_aerodigestive_tract(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AGCCTATCCTCCCGGCTAAAG	0.562													113	52	---	---	---	---	PASS	A	138857016	A	A	138857016	4	1	80	1	0	0	0	0	0	1	0	0	16086	864	30	2	303	2	TMEM173	5	138857016	Nonsense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	3627251	138857016	42058244	135	30410										
PCDHB4	56131	broad.mit.edu	37	chr5	140502219	140502219	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttcagcttaaccctcgtggcGctggatggtgggtcaccacc	12	13	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:140502219G>C	uc003lip.1	+	1	639	c.639G>C	c.(637-639)GCG>GCC	p.A213A		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	213	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCCTCGTGGCGCTGGATGGTG	0.512													153	67	---	---	---	---	PASS	C	140502219	C	C	140502219	2	2	80	1	0	0	0	0	0	0	0	1	11544	1074	38	4		4	PCDHB4	5	140502219	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	1645203	140502219	40413041	136	30411										
PCDHB7	56129	broad.mit.edu	37	chr5	140554282	140554282	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggcgtgtgggcgcacaatggCgaggtgcgtaccgccaggct	18	11	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:140554282C>T	uc003lit.2	+	1	2040	c.1866C>T	c.(1864-1866)GGC>GGT	p.G622G		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	622	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCACAATGGCGAGGTGCGTA	0.697													6	112	---	---	---	---	PASS	T	140554282	T	T	140554282	2	4	80	1	0	0	0	0	0	0	0	1	11547	755	27	1		1	PCDHB7	5	140554282	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	52063	140554282	40360978	137	30412										
CSNK1A1	1452	broad.mit.edu	37	chr5	148930407	148930407	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cccaccccagatgattacctCgccgttggtgatgttgatcg	10	13	0	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr5:148930407C>A	uc003lqx.1	-	1	601	c.121G>T	c.(121-123)GAG>TAG	p.E41*	CSNK1A1_uc011dcc.1_5'Flank|CSNK1A1_uc003lqv.1_5'Flank|CSNK1A1_uc003lqw.1_Nonsense_Mutation_p.E41*|CSNK1A1_uc003lqy.1_Nonsense_Mutation_p.E41*|CSNK1A1_uc010jha.1_Nonsense_Mutation_p.E41*	NM_001892	NP_001883	P48729	KC1A_HUMAN	casein kinase 1, alpha 1 isoform 2	41	Protein kinase.				cell division|mitosis|Wnt receptor signaling pathway	centrosome|condensed chromosome kinetochore|cytosol|nuclear speck	ATP binding|protein binding|protein binding|protein serine/threonine kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.0407)		ATGATTACCTCGCCGTTGGTG	0.547													86	39	---	---	---	---	PASS	A	148930407	A	A	148930407	4	1	80	1	0	0	0	0	0	1	0	0	3950	893	31	2	1020	2	CSNK1A1	5	148930407	Nonsense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	8376125	148930407	31984853	138	30413										
BTN3A2	11118	broad.mit.edu	37	chr6	26368907	26368907	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agagaccatggagctgaagtGggtaagttccagcctaaggc	14	8	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:26368907G>T	uc010jqh.1	+	4	459	c.200G>T	c.(199-201)TGG>TTG	p.W67L	BTN3A2_uc003nho.1_Missense_Mutation_p.W65L|BTN3A2_uc003nhp.2_Missense_Mutation_p.W67L|BTN3A2_uc011dkd.1_Missense_Mutation_p.W25L|BTN3A2_uc011dke.1_Missense_Mutation_p.W44L|BTN3A2_uc010jqi.1_Missense_Mutation_p.W65L	NM_007047	NP_008978	P78410	BT3A2_HUMAN	butyrophilin, subfamily 3, member A2 precursor	67	Ig-like V-type.|Extracellular (Potential).					integral to membrane					0						GAGCTGAAGTGGGTAAGTTCC	0.562													188	468	---	---	---	---	PASS	T	26368907	T	T	26368907	3	4	80	1	0	0	0	0	1	0	0	0	1563	1357	47	3	206	3	BTN3A2	6	26368907	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08		26368907	144746160	139	30414										
ZNF192	7745	broad.mit.edu	37	chr6	28120957	28120957	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tatcaggggtcttgagcatgAagaagcccgagaccttctgg	13	9	3	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:28120957A>G	uc003nkn.1	+	6	1083	c.899A>G	c.(898-900)GAA>GGA	p.E300G	ZNF192_uc010jqx.1_Missense_Mutation_p.E300G|ZNF192_uc010jqy.1_Missense_Mutation_p.E113G|ZNF192_uc011dkz.1_Missense_Mutation_p.E113G	NM_006298	NP_006289	Q15776	ZN192_HUMAN	zinc finger protein 192	300	KRAB.				viral reproduction	cytoplasm|nucleolus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTTGAGCATGAAGAAGCCCGA	0.483													73	129	---	---	---	---	PASS	G	28120957	G	G	28120957	3	3	80	1	0	0	0	0	1	0	0	0	17753	246	9	5	917	5	ZNF192	6	28120957	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	1752050	28120957	142994110	140	30415										
COL11A2	1302	broad.mit.edu	37	chr6	33147525	33147525	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctgcaggatcgcctgggcctGagcctcctgggccgccacca	13	17	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:33147525G>A	uc003ocx.1	-	13	1645	c.1417C>T	c.(1417-1419)CAG>TAG	p.Q473*	COL11A2_uc010jul.1_5'Flank|COL11A2_uc003ocy.1_Nonsense_Mutation_p.Q387*|COL11A2_uc003ocz.1_Nonsense_Mutation_p.Q366*	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	473	Nonhelical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						GCCTGGGCCTGAGCCTCCTGG	0.637													41	90	---	---	---	---	PASS	A	33147525	A	A	33147525	4	1	80	1	0	0	0	0	0	1	0	0	3668	1299	45	2	4009	2	COL11A2	6	33147525	Nonsense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	5026568	33147525	137967542	141	30416										
MLN	4295	broad.mit.edu	37	chr6	33768842	33768842	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acctgcatcctctggagttcGccataggtgaagatggggac	13	10	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:33768842G>A	uc003off.1	-	2	170	c.99C>T	c.(97-99)GGC>GGT	p.G33G	MLN_uc003ofg.1_Silent_p.G33G|MLN_uc011drn.1_Silent_p.G33G	NM_002418	NP_002409	P12872	MOTI_HUMAN	motilin isoform 1 preproprotein	33					cell-cell signaling|G-protein coupled receptor protein signaling pathway	extracellular region|soluble fraction	hormone activity				0						TCTGGAGTTCGCCATAGGTGA	0.567													219	312	---	---	---	---	PASS	A	33768842	A	A	33768842	2	1	80	1	0	0	0	0	0	0	0	1	9631	1074	38	1		1	MLN	6	33768842	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	621317	33768842	137346225	142	30417										
DNAH8	1769	broad.mit.edu	37	chr6	38835933	38835933	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gaagatagtgaattaagcatTgtcatgagaggactaagaga	12	3	1	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:38835933T>A	uc003ooe.1	+	46	6738	c.6138T>A	c.(6136-6138)ATT>ATA	p.I2046I		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AATTAAGCATTGTCATGAGAG	0.353													120	154	---	---	---	---	PASS	A	38835933	A	A	38835933	2	1	80	1	0	0	0	0	0	0	0	1	4607	1800	63	5		5	DNAH8	6	38835933	Silent	SNP	T	TCGA-37-4141-01A-02D-1352-08	5067091	38835933	132279134	143	30418										
DNAH8	1769	broad.mit.edu	37	chr6	38835954	38835954	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtcatgagaggactaagagaTatgaacctttccaaactggt	10	7	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:38835954T>C	uc003ooe.1	+	46	6759	c.6159T>C	c.(6157-6159)GAT>GAC	p.D2053D		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GACTAAGAGATATGAACCTTT	0.363													62	168	---	---	---	---	PASS	C	38835954	C	C	38835954	2	2	80	1	0	0	0	0	0	0	0	1	4607	1403	49	5		5	DNAH8	6	38835954	Silent	SNP	T	TCGA-37-4141-01A-02D-1352-08	21	38835954	132279113	144	30419										
DNAH8	1769	broad.mit.edu	37	chr6	38891790	38891790	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgtaggtgatattctgctgtGcacgggattcctttcctacc	10	10	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:38891790G>T	uc003ooe.1	+	71	10763	c.10163G>T	c.(10162-10164)TGC>TTC	p.C3388F	uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ATTCTGCTGTGCACGGGATTC	0.428													158	310	---	---	---	---	PASS	T	38891790	T	T	38891790	3	4	80	1	0	0	0	0	1	0	0	0	4607	1319	46	3	10437	3	DNAH8	6	38891790	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	55836	38891790	132223277	145	30420										
DNAH8	1769	broad.mit.edu	37	chr6	38980082	38980082	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aatgcaaagagtcatttcaaTactccgcagtagcctgagtg	9	9	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:38980082T>C	uc003ooe.1	+	88	13412	c.12812T>C	c.(12811-12813)ATA>ACA	p.I4271T		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GTCATTTCAATACTCCGCAGT	0.358													106	220	---	---	---	---	PASS	C	38980082	C	C	38980082	3	2	80	1	0	0	0	0	1	0	0	0	4607	1406	49	5	13154	5	DNAH8	6	38980082	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	88292	38980082	132134985	146	30421										
LRFN2	57497	broad.mit.edu	37	chr6	40400370	40400370	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gagtcccacggcaggccatgGaggttgttgtaggagaggtc	17	8	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:40400370G>C	uc003oph.1	-	2	948	c.483C>G	c.(481-483)CTC>CTG	p.L161L		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	161	LRR 5.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GCAGGCCATGGAGGTTGTTGT	0.582													65	98	---	---	---	---	PASS	C	40400370	C	C	40400370	2	2	80	1	0	0	0	0	0	0	0	1	8938	1161	41	2		2	LRFN2	6	40400370	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	1420288	40400370	130714697	147	30422										
APOBEC2	10930	broad.mit.edu	37	chr6	41029329	41029329	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccagcccctgtgcagcgtgtGctgaccgcattatcaaaacc	9	15	1	1	rs142866037	by1000genomes	TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:41029329G>A	uc003opl.2	+	2	541	c.394G>A	c.(394-396)GCT>ACT	p.A132T	UNC5CL_uc010jxe.1_Intron|APOBEC2_uc010jxf.2_RNA	NM_006789	NP_006780	Q9Y235	ABEC2_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	132					DNA demethylation|mRNA processing		cytidine deaminase activity|RNA binding|zinc ion binding				0	Ovarian(28;0.0418)|Colorectal(47;0.196)					TGCAGCGTGTGCTGACCGCAT	0.567													222	333	---	---	---	---	PASS	A	41029329	A	A	41029329	3	1	80	1	0	0	0	0	1	0	0	0	788	1319	46	3	400	3	APOBEC2	6	41029329	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	628959	41029329	130085738	148	30423										
CRISP1	167	broad.mit.edu	37	chr6	49825094	49825094	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aagcagcagcaaccaaaaacAagaggtgtttaatttccatc	7	9	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:49825094A>C	uc003ozw.2	-	2	99	c.20T>G	c.(19-21)TTG>TGG	p.L7W	CRISP1_uc003ozx.2_Missense_Mutation_p.L7W	NM_001131	NP_001122	P54107	CRIS1_HUMAN	acidic epididymal glycoprotein-like 1 isoform 1	7					fusion of sperm to egg plasma membrane	extracellular space					0	Lung NSC(77;0.0358)					AACCAAAAACAAGAGGTGTTT	0.303													35	105	---	---	---	---	PASS	C	49825094	C	C	49825094	3	2	80	1	0	0	0	0	1	0	0	0	3879	131	5	5	757	5	CRISP1	6	49825094	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	8795765	49825094	121289973	149	30424										
TFAP2D	83741	broad.mit.edu	37	chr6	50718997	50718997	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gatcctccagacccactccaAttctagaccttgacatccag	5	16	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:50718997A>G	uc003paf.2	+	7	1611	c.1099A>G	c.(1099-1101)ATT>GTT	p.I367V	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	367	H-S-H (helix-span-helix), dimerization.						DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					ACCCACTCCAATTCTAGACCT	0.368													60	135	---	---	---	---	PASS	G	50718997	G	G	50718997	3	3	80	1	0	0	0	0	1	0	0	0	15787	101	4	5	1125	5	TFAP2D	6	50718997	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	893903	50718997	120396070	150	30425										
COL21A1	81578	broad.mit.edu	37	chr6	55925758	55925758	+	Frame_Shift_Del	DEL	C	-	-													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgccccttaggacctgcgggCcccatcaagccatccacccc							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:55925758delC	uc003pcs.2	-	26	2515	c.2283delG	c.(2281-2283)GGGfs	p.G761fs	COL21A1_uc010jzz.2_Frame_Shift_Del_p.G146fs|COL21A1_uc011dxg.1_Frame_Shift_Del_p.G134fs|COL21A1_uc011dxh.1_Frame_Shift_Del_p.G146fs|COL21A1_uc003pcr.2_Frame_Shift_Del_p.G118fs	NM_030820	NP_110447	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1 precursor	761	Collagen-like 5.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(2)	2	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			GACCTGCGGGCCCCATCAAGC	0.517													78	50	---	---	---	---		-	55925758	-	-	55925758	7	5	80	1	0	1	0	1	0	0	0	0	3680	726	26	0	610	0	COL21A1	6	55925758	Frame_Shift_Del	DEL	C	TCGA-37-4141-01A-02D-1352-08	5206761	55925758	115189309	151	30426										
EYS	346007	broad.mit.edu	37	chr6	66053931	66053931	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	actacataaaattaccttacCtcttttgtgccttcatgtgg	5	10	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:66053931C>A	uc011dxu.1	-	10	2137	c.1599G>T	c.(1597-1599)GAG>GAT	p.E533D	EYS_uc003peq.2_Missense_Mutation_p.E533D|EYS_uc003per.1_Missense_Mutation_p.E533D	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	533					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						ATTACCTTACCTCTTTTGTGC	0.328													54	110	---	---	---	---	PASS	A	66053931	A	A	66053931	3	1	80	1	0	0	0	0	1	0	0	0	5332	695	24	3	7933	3	EYS	6	66053931	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	10128173	66053931	105061136	152	30427										
COL19A1	1310	broad.mit.edu	37	chr6	70866579	70866579	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tagggaagcaaaggagagcgGggctaccctgggatacctgg	17	8	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:70866579G>T	uc003pfc.1	+	34	2373	c.2256G>T	c.(2254-2256)CGG>CGT	p.R752R	COL19A1_uc010kam.1_Silent_p.R648R	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	752	Triple-helical region 4 (COL4).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						AAGGAGAGCGGGGCTACCCTG	0.388													27	64	---	---	---	---	PASS	T	70866579	T	T	70866579	2	4	80	1	0	0	0	0	0	0	0	1	3676	1219	43	3		3	COL19A1	6	70866579	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	4812648	70866579	100248488	153	30428										
SYNCRIP	10492	broad.mit.edu	37	chr6	86324793	86324793	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtgaataaccggctctaccgCggggaggagcagccccacga	14	13	1	1	rs146447694		TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:86324793C>A	uc003pla.2	-	11	2094	c.1553G>T	c.(1552-1554)CGC>CTC	p.R518L	SYNCRIP_uc003pku.2_Missense_Mutation_p.R518L|SYNCRIP_uc003pkw.2_Missense_Mutation_p.R483L|SYNCRIP_uc003pky.2_Missense_Mutation_p.R420L|SYNCRIP_uc003pkv.2_Missense_Mutation_p.R518L|SYNCRIP_uc003pkx.2_Missense_Mutation_p.R366L|SYNCRIP_uc003pkz.2_Missense_Mutation_p.R483L	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	518	Interaction with SMN.|Interaction with APOBEC1.|8 X 3 AA repeats of R-G-G.				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		GGCTCTACCGCGGGGAGGAGC	0.577													128	214	---	---	---	---	PASS	A	86324793	A	A	86324793	3	1	80	1	0	0	0	0	1	0	0	0	15441	768	27	1	368	1	SYNCRIP	6	86324793	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	15458214	86324793	84790274	154	30429										
GJA10	84694	broad.mit.edu	37	chr6	90604959	90604959	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttgaggatgaaacaggccctCcattccatttgaagaaatat	8	8	0	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:90604959C>A	uc011eaa.1	+	1	772	c.772C>A	c.(772-774)CCA>ACA	p.P258T		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	258	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		AACAGGCCCTCCATTCCATTT	0.393													101	161	---	---	---	---	PASS	A	90604959	A	A	90604959	3	1	80	1	0	0	0	0	1	0	0	0	6401	855	30	2	774	2	GJA10	6	90604959	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	4280166	90604959	80510108	155	30430										
LAMA4	3910	broad.mit.edu	37	chr6	112451081	112451081	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	taataaaaatattatacctgGtaaagtaggcattacttatg	6	4	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:112451081G>A	uc003pvu.2	-	30	4439	c.4130C>T	c.(4129-4131)ACC>ATC	p.T1377I	LAMA4_uc003pvv.2_Missense_Mutation_p.T1370I|LAMA4_uc003pvt.2_Missense_Mutation_p.T1370I	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1377	Laminin G-like 3.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		attataCCTGGTAAAGTAGGC	0.323													23	34	---	---	---	---	PASS	A	112451081	A	A	112451081	3	1	80	1	0	0	0	0	1	0	0	0	8608	1261	44	3	1381	3	LAMA4	6	112451081	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	21846122	112451081	58663986	156	30431										
LAMA2	3908	broad.mit.edu	37	chr6	129609151	129609151	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acaacaggccggtactgtgaGctctgtgctgatggatattt	12	8	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:129609151G>T	uc003qbn.2	+	19	2802	c.2697G>T	c.(2695-2697)GAG>GAT	p.E899D	LAMA2_uc003qbo.2_Missense_Mutation_p.E899D	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	899	Laminin EGF-like 8.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GGTACTGTGAGCTCTGTGCTG	0.473													214	446	---	---	---	---	PASS	T	129609151	T	T	129609151	3	4	80	1	0	0	0	0	1	0	0	0	8606	962	34	3	2771	3	LAMA2	6	129609151	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	17158070	129609151	41505916	157	30432										
L3MBTL3	84456	broad.mit.edu	37	chr6	130374031	130374031	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aaggaagaaagggacgtagaAgaagacaatgaggaagaaga	15	2	0	7			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:130374031A>C	uc003qbt.2	+	7	647	c.477A>C	c.(475-477)GAA>GAC	p.E159D	L3MBTL3_uc003qbu.2_Missense_Mutation_p.E134D	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	159					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		GGGACGTAGAAGAAGACAATG	0.378													28	80	---	---	---	---	PASS	C	130374031	C	C	130374031	3	2	80	1	0	0	0	0	1	0	0	0	8593	69	3	5	495	5	L3MBTL3	6	130374031	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	764880	130374031	40741036	158	30433										
TAAR5	9038	broad.mit.edu	37	chr6	132910451	132910451	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cggtcaatggaaatgaaacaGagatggaagatggaggtgag	16	3	1	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:132910451G>T	uc003qdk.2	-	1	427	c.375C>A	c.(373-375)CTC>CTA	p.L125L		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	125	Helical; Name=3; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		AAATGAAACAGAGATGGAAGA	0.567													73	117	---	---	---	---	PASS	T	132910451	T	T	132910451	2	4	80	1	0	0	0	0	0	0	0	1	15488	929	33	2		2	TAAR5	6	132910451	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	2536420	132910451	38204616	159	30434										
ECT2L	345930	broad.mit.edu	37	chr6	139164314	139164314	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atgaggaactactggagagaCaaagagaaaagtgcctgagg	14	5	0	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:139164314C>G	uc003qif.1	+	4	644	c.541C>G	c.(541-543)CAA>GAA	p.Q181E	ECT2L_uc011edq.1_Missense_Mutation_p.Q112E	NM_001077706	NP_001071174	Q008S8	ECT2L_HUMAN	epithelial cell transforming sequence 2	181					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0						ACTGGAGAGACAAAGAGAAAA	0.413													11	237	---	---	---	---	PASS	G	139164314	G	G	139164314	3	3	80	1	0	0	0	0	1	0	0	0	4902	479	17	4	555	4	ECT2L	6	139164314	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	6253863	139164314	31950753	160	30435										
STX11	8676	broad.mit.edu	37	chr6	144508138	144508138	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cggcccgcactcggcagtggCgcgcatttcgcgggcgcagt	16	15	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:144508138C>G	uc003qks.3	+	2	566	c.374C>G	c.(373-375)GCG>GGG	p.A125G		NM_003764	NP_003755	O75558	STX11_HUMAN	syntaxin 11	125				HSAVAR -> ALGSGG (in Ref. 1; AAD02107).	cellular membrane fusion|intracellular protein transport|vesicle-mediated transport	Golgi apparatus|membrane	SNAP receptor activity			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(155;2.17e-06)|GBM - Glioblastoma multiforme(68;0.0492)		TCGGCAGTGGCGCGCATTTCG	0.672									Familial_Hemophagocytic_Lymphohistiocytosis				11	23	---	---	---	---	PASS	G	144508138	G	G	144508138	3	3	80	1	0	0	0	0	1	0	0	0	15336	768	27	4	376	4	STX11	6	144508138	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	5343824	144508138	26606929	161	30436										
SHPRH	257218	broad.mit.edu	37	chr6	146262959	146262959	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aatgataactatatcctgttCtgccaaaaaatgaggttgta	7	6	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:146262959C>A	uc003qlf.2	-	10	2689	c.2290G>T	c.(2290-2292)GAA>TAA	p.E764*	SHPRH_uc003qld.2_Nonsense_Mutation_p.E764*|SHPRH_uc003qle.2_Nonsense_Mutation_p.E764*|SHPRH_uc003qlg.1_Nonsense_Mutation_p.E320*|SHPRH_uc003qlj.1_Nonsense_Mutation_p.E653*	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	764	Helicase ATP-binding; second part.				DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		ATATCCTGTTCTGCCAAAAAA	0.383													58	79	---	---	---	---	PASS	A	146262959	A	A	146262959	4	1	80	1	0	0	0	0	0	1	0	0	14291	922	32	2	2889	2	SHPRH	6	146262959	Nonsense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1754821	146262959	24852108	162	30437										
AKAP12	9590	broad.mit.edu	37	chr6	151672421	151672421	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gaggcccggggcgacacggtCgttagtgaggcggaattgac	18	9	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:151672421C>T	uc011eep.1	+	4	3135	c.2895C>T	c.(2893-2895)GTC>GTT	p.V965V	AKAP12_uc003qoe.2_Silent_p.V965V|AKAP12_uc003qof.2_Silent_p.V867V|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Silent_p.V860V	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	965					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GCGACACGGTCGTTAGTGAGG	0.547													61	156	---	---	---	---	PASS	T	151672421	T	T	151672421	2	4	80	1	0	0	0	0	0	0	0	1	448	871	31	2		2	AKAP12	6	151672421	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	5409462	151672421	19442646	163	30438										
SNX9	51429	broad.mit.edu	37	chr6	158349731	158349731	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agcactggaagcgctgcacgGgccgtaagtccactcctcac	11	15	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr6:158349731G>T	uc003qqv.1	+	12	1458	c.1285G>T	c.(1285-1287)GGC>TGC	p.G429C		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	429	BAR.				cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)		GCGCTGCACGGGCCGTAAGTC	0.597													11	14	---	---	---	---	PASS	T	158349731	T	T	158349731	3	4	80	1	0	0	0	0	1	0	0	0	14909	1232	43	3	1331	3	SNX9	6	158349731	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	6677310	158349731	12765336	164	30439										
SUN1	23353	broad.mit.edu	37	chr7	895996	895996	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tatttctcatactttttaggCcatccagaaggaactagaac	6	9	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:895996C>T	uc011jvp.1	+	13	1431	c.1352C>T	c.(1351-1353)GCC>GTC	p.A451V	GET4_uc003sjj.1_RNA|SUN1_uc003sjf.2_Missense_Mutation_p.A368V|SUN1_uc011jvq.1_Missense_Mutation_p.A348V|SUN1_uc003sjg.2_Missense_Mutation_p.A356V|SUN1_uc011jvr.1_Missense_Mutation_p.A249V|SUN1_uc003sji.2_Missense_Mutation_p.A289V|SUN1_uc003sjk.2_Missense_Mutation_p.A90V	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	478	Perinuclear space.|Potential.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						ACTTTTTAGGCCATCCAGAAG	0.348													4	235	---	---	---	---	PASS	T	895996	T	T	895996	3	4	80	1	0	0	0	0	1	0	0	0	15388	753	26	3	1581	3	SUN1	7	895996	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08		895996	158242667	165	30440										
C7orf50	84310	broad.mit.edu	37	chr7	1166901	1166901	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aggcggccttaccttggagcCggctccttcgccacttggtg	13	14	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:1166901C>T	uc003sju.2	-	2	191	c.121G>A	c.(121-123)GGC>AGC	p.G41S	C7orf50_uc011jvt.1_Missense_Mutation_p.G41S|C7orf50_uc011jvu.1_Missense_Mutation_p.G41S	NM_032350	NP_115726	Q9BRJ6	CG050_HUMAN	hypothetical protein LOC84310	41							protein binding				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0216)|OV - Ovarian serous cystadenocarcinoma(56;1.3e-15)		ACCTTGGAGCCGGCTCCTTCG	0.597													12	21	---	---	---	---	PASS	T	1166901	T	T	1166901	3	4	80	1	0	0	0	0	1	0	0	0	2399	652	23	1	479	1	C7orf50	7	1166901	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	270905	1166901	157971762	166	30441										
TTYH3	80727	broad.mit.edu	37	chr7	2691859	2691859	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tggcctgctcgccccgcgccGccaaccccttccagcaggtg	11	20	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:2691859G>T	uc003smp.2	+	8	1097	c.910G>T	c.(910-912)GCC>TCC	p.A304S	TTYH3_uc010ksn.2_Missense_Mutation_p.A24S|TTYH3_uc003smq.2_Missense_Mutation_p.A133S	NM_025250	NP_079526	Q9C0H2	TTYH3_HUMAN	tweety 3	304	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.04e-14)		GCCCCGCGCCGCCAACCCCTT	0.652													15	38	---	---	---	---	PASS	T	2691859	T	T	2691859	3	4	80	1	0	0	0	0	1	0	0	0	16738	1087	38	1	940	1	TTYH3	7	2691859	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1524958	2691859	156446804	167	30442										
THSD7A	221981	broad.mit.edu	37	chr7	11464387	11464387	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	attcacaaaggtcaccttgcAgatgctccagggctctgtga	10	11	3	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:11464387A>T	uc003ssf.3	-	15	3571	c.3319T>A	c.(3319-3321)TGC>AGC	p.C1107S		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1107	TSP type-1 11.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		GTCACCTTGCAGATGCTCCAG	0.488										HNSCC(18;0.044)			177	323	---	---	---	---	PASS	T	11464387	T	T	11464387	3	4	80	1	0	0	0	0	1	0	0	0	15876	188	7	5	1706	5	THSD7A	7	11464387	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	8772528	11464387	147674276	168	30443										
DNAH11	8701	broad.mit.edu	37	chr7	21744074	21744074	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	actcatgagagcattaagggAtttcaatatgcccaaaatag	8	7	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:21744074A>T	uc003svc.2	+	39	6348	c.6317A>T	c.(6316-6318)GAT>GTT	p.D2106V		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2106					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GCATTAAGGGATTTCAATATG	0.413									Kartagener_syndrome				20	49	---	---	---	---	PASS	T	21744074	T	T	21744074	3	4	80	1	0	0	0	0	1	0	0	0	4599	333	12	5	6468	5	DNAH11	7	21744074	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	10279687	21744074	137394589	169	30444										
DNAH11	8701	broad.mit.edu	37	chr7	21824066	21824066	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgacagccattcagactgaaGtgttccagaaacagagagaa	10	8	1	6			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:21824066G>T	uc003svc.2	+	59	9557	c.9526G>T	c.(9526-9528)GTG>TTG	p.V3176L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3176	Stalk (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TCAGACTGAAGTGTTCCAGAA	0.418									Kartagener_syndrome				21	45	---	---	---	---	PASS	T	21824066	T	T	21824066	3	4	80	1	0	0	0	0	1	0	0	0	4599	1029	36	3	9757	3	DNAH11	7	21824066	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	79992	21824066	137314597	170	30445										
NFE2L3	9603	broad.mit.edu	37	chr7	26225342	26225342	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgatggaagtatcttgatagTacccaaagaactggtggcct	11	7	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:26225342T>C	uc003sxq.2	+	4	2296	c.2024T>C	c.(2023-2025)GTA>GCA	p.V675A		NM_004289	NP_004280	Q9Y4A8	NF2L3_HUMAN	nuclear factor erythroid 2-like 3	675					transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			skin(3)|ovary(1)	4						ATCTTGATAGTACCCAAAGAA	0.408													13	247	---	---	---	---	PASS	C	26225342	C	C	26225342	3	2	80	1	0	0	0	0	1	0	0	0	10369	1638	57	5	2038	5	NFE2L3	7	26225342	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	4401276	26225342	132913321	171	30446										
HOXA10	3206	broad.mit.edu	37	chr7	27211732	27211732	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggtgcttcgtgtaggggcagCgcttcttccgaccactcttt	12	12	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:27211732C>A	uc011jzm.1	-	2	1049	c.1019G>T	c.(1018-1020)CGC>CTC	p.R340L	MIR196B_hsa-mir-196b|MI0001150_5'Flank|HOXA10_uc003syw.3_Missense_Mutation_p.R24L	NM_018951	NP_061824	P31260	HXA10_HUMAN	homeobox A10 isoform a	340	Homeobox.				spermatogenesis		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GTAGGGGCAGCGCTTCTTCCG	0.522													64	135	---	---	---	---	PASS	A	27211732	A	A	27211732	3	1	80	1	0	0	0	0	1	0	0	0	7289	768	27	1	217	1	HOXA10	7	27211732	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	986390	27211732	131926931	172	30447										
NEUROD6	63974	broad.mit.edu	37	chr7	31378572	31378572	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgaggccgtgcatcctgttcCtctcgcgcgcgttcgcttcc	11	16	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:31378572C>T	uc003tch.2	-	2	664	c.311G>A	c.(310-312)AGG>AAG	p.R104K		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	104	Basic motif.				cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						CATCCTGTTCCTCTCGCGCGC	0.478													228	328	---	---	---	---	PASS	T	31378572	T	T	31378572	3	4	80	1	0	0	0	0	1	0	0	0	10351	681	24	3	706	3	NEUROD6	7	31378572	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	4166840	31378572	127760091	173	30448										
PDE1C	5137	broad.mit.edu	37	chr7	31887681	31887681	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggtgattctccagtacagatCtgtcattatacagaatagct	8	8	3	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:31887681C>A	uc003tcm.1	-	9	1350	c.881G>T	c.(880-882)AGA>ATA	p.R294I	PDE1C_uc003tcn.1_Missense_Mutation_p.R294I|PDE1C_uc003tco.1_Missense_Mutation_p.R354I|PDE1C_uc003tcr.2_Missense_Mutation_p.R294I|PDE1C_uc003tcs.2_Missense_Mutation_p.R294I	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	294	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			CAGTACAGATCTGTCATTATA	0.388													84	180	---	---	---	---	PASS	A	31887681	A	A	31887681	3	1	80	1	0	0	0	0	1	0	0	0	11635	913	32	2	1059	2	PDE1C	7	31887681	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	509109	31887681	127250982	174	30449										
ABCA13	154664	broad.mit.edu	37	chr7	48311842	48311842	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctttacacttttaaatttttCtgttccagaaaatgagattc	4	7	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:48311842C>T	uc003toq.2	+	17	2604	c.2579C>T	c.(2578-2580)TCT>TTT	p.S860F	ABCA13_uc010kyr.2_Missense_Mutation_p.S363F	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	860					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TTAAATTTTTCTGTTCCAGAA	0.318													70	97	---	---	---	---	PASS	T	48311842	T	T	48311842	3	4	80	1	0	0	0	0	1	0	0	0	31	913	32	2	2474	2	ABCA13	7	48311842	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	16424161	48311842	110826821	175	30450										
DLX5	1749	broad.mit.edu	37	chr7	96650125	96650125	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	caggtgggaattgattgagcTggctgcacttgtgtaccagg	15	7	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:96650125T>C	uc003uon.2	-	3	1001	c.793A>G	c.(793-795)AGC>GGC	p.S265G		NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	265					cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					TTGATTGAGCTGGCTGCACTT	0.622													30	79	---	---	---	---	PASS	C	96650125	C	C	96650125	3	2	80	1	0	0	0	0	1	0	0	0	4574	1580	55	5	80	5	DLX5	7	96650125	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	48338283	96650125	62488538	176	30451										
ZAN	7455	broad.mit.edu	37	chr7	100389695	100389695	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggcgagcaacagcacccaggCctgtagggtgctggcagacc	15	13	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:100389695C>A	uc003uwj.2	+	42	7802	c.7637C>A	c.(7636-7638)GCC>GAC	p.A2546D	ZAN_uc003uwk.2_Missense_Mutation_p.A2546D|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.P539T	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2546	Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AGCACCCAGGCCTGTAGGGTG	0.677													12	24	---	---	---	---	PASS	A	100389695	A	A	100389695	3	1	80	1	0	0	0	0	1	0	0	0	17510	739	26	3	7794	3	ZAN	7	100389695	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	3739570	100389695	58748968	177	30452										
SLC12A9	56996	broad.mit.edu	37	chr7	100459152	100459152	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctggctgccctgctcaccgcGcgaggaggccccagtagctg	14	16	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:100459152G>T	uc003uwp.2	+	11	1624	c.1482G>T	c.(1480-1482)GCG>GCT	p.A494A	SLC12A9_uc003uwq.2_Silent_p.A405A|SLC12A9_uc011kki.1_Silent_p.A25A|SLC12A9_uc003uwr.2_Silent_p.A230A|SLC12A9_uc003uws.2_Silent_p.A25A|SLC12A9_uc003uwt.2_Silent_p.A230A|SLC12A9_uc003uwv.2_Silent_p.A25A	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	494	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					TGCTCACCGCGCGAGGAGGCC	0.652													64	99	---	---	---	---	PASS	T	100459152	T	T	100459152	2	4	80	1	0	0	0	0	0	0	0	1	14390	1074	38	1		1	SLC12A9	7	100459152	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	69457	100459152	58679511	178	30453										
MUC17	140453	broad.mit.edu	37	chr7	100675524	100675524	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcctagtggaggaagcactcCattaacaagaatgcctctca	8	11	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:100675524C>G	uc003uxp.1	+	3	880	c.827C>G	c.(826-828)CCA>CGA	p.P276R	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	276	Extracellular (Potential).|59 X approximate tandem repeats.|2.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GGAAGCACTCCATTAACAAGA	0.507													150	380	---	---	---	---	PASS	G	100675524	G	G	100675524	3	3	80	1	0	0	0	0	1	0	0	0	9974	594	21	4	837	4	MUC17	7	100675524	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	216372	100675524	58463139	179	30454										
MUC17	140453	broad.mit.edu	37	chr7	100679577	100679577	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	catgacaatctcaactcctaGtgaaggaagtcctctattaa	6	10	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:100679577G>T	uc003uxp.1	+	3	4933	c.4880G>T	c.(4879-4881)AGT>ATT	p.S1627I	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1627	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|25.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TCAACTCCTAGTGAAGGAAGT	0.493													295	479	---	---	---	---	PASS	T	100679577	T	T	100679577	3	4	80	1	0	0	0	0	1	0	0	0	9974	1029	36	3	4890	3	MUC17	7	100679577	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	4053	100679577	58459086	180	30455										
RELN	5649	broad.mit.edu	37	chr7	103183247	103183247	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cttcattgaaaaagaggttgTttccactagaaaggattcca	8	7	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:103183247T>C	uc003vca.2	-	43	6762	c.6602A>G	c.(6601-6603)AAC>AGC	p.N2201S	RELN_uc010liz.2_Missense_Mutation_p.N2201S	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2201					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		AAAGAGGTTGTTTCCACTAGA	0.373													93	179	---	---	---	---	PASS	C	103183247	C	C	103183247	3	2	80	1	0	0	0	0	1	0	0	0	13220	1725	60	5	3872	5	RELN	7	103183247	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	2503670	103183247	55955416	181	30456										
FOXP2	93986	broad.mit.edu	37	chr7	114302136	114302136	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttagaatgcagtacgtcataAtcttagcctgcacaagtgtt	8	8	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:114302136A>G	uc003vhb.2	+	14	2038	c.1664A>G	c.(1663-1665)AAT>AGT	p.N555S	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Missense_Mutation_p.N580S|FOXP2_uc003vha.2_Missense_Mutation_p.N463S|FOXP2_uc011kmu.1_Missense_Mutation_p.N572S|FOXP2_uc011kmv.1_Missense_Mutation_p.N554S|FOXP2_uc010ljz.1_Missense_Mutation_p.N370S|FOXP2_uc003vhe.1_Missense_Mutation_p.N125S	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	555	Fork-head.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	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(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						GTACGTCATAATCTTAGCCTG	0.363													49	74	---	---	---	---	PASS	G	114302136	G	G	114302136	3	3	80	1	0	0	0	0	1	0	0	0	6027	101	4	5	1881	5	FOXP2	7	114302136	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	11118889	114302136	44836527	182	30457										
TSPAN12	23554	broad.mit.edu	37	chr7	120428872	120428872	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tggccaggatttgtgtcaccCcaatggagattcccagaaac	10	11	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:120428872C>A	uc003vjk.2	-	8	1066	c.692G>T	c.(691-693)GGG>GTG	p.G231V	TSPAN12_uc010lkj.2_Missense_Mutation_p.G104V	NM_012338	NP_036470	O95859	TSN12_HUMAN	transmembrane 4 superfamily member 12	231	Helical; (Potential).				angiogenesis|cell surface receptor linked signaling pathway|regulation of angiogenesis|retina layer formation	integral to plasma membrane|membrane fraction					0	all_neural(327;0.117)					TTGTGTCACCCCAATGGAGAT	0.458													99	136	---	---	---	---	PASS	A	120428872	A	A	120428872	3	1	80	1	0	0	0	0	1	0	0	0	16633	623	22	3	229	3	TSPAN12	7	120428872	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	6126736	120428872	38709791	183	30458										
ARF5	381	broad.mit.edu	37	chr7	127231089	127231089	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aggacatgcccaacgccatgCccgtgagcgagctgactgac	12	14	0	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:127231089C>T	uc003vmb.1	+	5	439	c.403C>T	c.(403-405)CCC>TCC	p.P135S	FSCN3_uc003vmc.1_5'Flank|FSCN3_uc011kog.1_5'Flank|FSCN3_uc011koh.1_5'Flank|FSCN3_uc003vmd.1_5'Flank|FSCN3_uc010llc.1_5'Flank	NM_001662	NP_001653	P84085	ARF5_HUMAN	ADP-ribosylation factor 5	135					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	Golgi apparatus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1						CAACGCCATGCCCGTGAGCGA	0.612													6	333	---	---	---	---	PASS	T	127231089	T	T	127231089	3	4	80	1	0	0	0	0	1	0	0	0	847	739	26	3	421	3	ARF5	7	127231089	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	6802217	127231089	31907574	184	30459										
FAM180A	389558	broad.mit.edu	37	chr7	135418840	135418840	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccgtgggacagggctgtgcgGtaggctgtgtaggccagggt	20	8	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:135418840G>C	uc003vtd.2	-	3	671	c.405C>G	c.(403-405)TAC>TAG	p.Y135*	FAM180A_uc010lmt.2_RNA|FAM180A_uc010lmu.2_Nonsense_Mutation_p.Y135*	NM_205855	NP_995327	Q6UWF9	F180A_HUMAN	hypothetical protein LOC389558 precursor	135						extracellular region				ovary(2)	2						GGGCTGTGCGGTAGGCTGTGT	0.617													49	88	---	---	---	---	PASS	C	135418840	C	C	135418840	4	2	80	1	0	0	0	0	0	1	0	0	5507	1256	44	4	120	4	FAM180A	7	135418840	Nonsense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	8187751	135418840	23719823	185	30460										
BRAF	673	broad.mit.edu	37	chr7	140453108	140453108	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gatccagacaactgttcaaaCtgatgggacccactccatcg	8	13	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:140453108C>A	uc003vwc.3	-	15	1888	c.1827G>T	c.(1825-1827)CAG>CAT	p.Q609H		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	609	Protein kinase.				activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.Q609R(1)|p.Q609Q(1)|p.Q609*(1)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	ACTGTTCAAACTGATGGGACC	0.393		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				83	176	---	---	---	---	PASS	A	140453108	A	A	140453108	3	1	80	1	0	0	0	0	1	0	0	0	1496	564	20	3	489	3	BRAF	7	140453108	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	5034268	140453108	18685555	186	30461										
WEE2	494551	broad.mit.edu	37	chr7	141427144	141427144	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cgaacagagaccttctgcagCagctctggccagaaatacag	10	12	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:141427144C>A	uc003vwn.2	+	10	1839	c.1433C>A	c.(1432-1434)GCA>GAA	p.A478E	FLJ40852_uc011krh.1_RNA|FLJ40852_uc010lnm.2_RNA|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028	P0C1S8	WEE2_HUMAN	WEE1 homolog 2	478	Protein kinase.				egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)					CCTTCTGCAGCAGCTCTGGCC	0.468													6	414	---	---	---	---	PASS	A	141427144	A	A	141427144	3	1	80	1	0	0	0	0	1	0	0	0	17342	710	25	3	1471	3	WEE2	7	141427144	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	974036	141427144	17711519	187	30462										
OR2A2	442361	broad.mit.edu	37	chr7	143806781	143806781	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcttctctgtcttctatacaCtcaccctgctggggaatggg	9	12	5	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:143806781C>A	uc011ktz.1	+	1	106	c.106C>A	c.(106-108)CTC>ATC	p.L36I		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					CTTCTATACACTCACCCTGCT	0.517													161	291	---	---	---	---	PASS	A	143806781	A	A	143806781	3	1	80	1	0	0	0	0	1	0	0	0	10977	565	20	3	108	3	OR2A2	7	143806781	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	2379637	143806781	15331882	188	30463										
CNTNAP2	26047	broad.mit.edu	37	chr7	148112556	148112556	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcctgtgcaccctggtcttcCtgatccggtacatgttccgc	9	15	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:148112556C>T	uc003weu.1	+	24	4360	c.3844C>T	c.(3844-3846)CTG>TTG	p.L1282L	CNTNAP2_uc003wev.1_Silent_p.L59L	NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	1282	Helical; (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CCTGGTCTTCCTGATCCGGTA	0.582										HNSCC(39;0.1)			52	85	---	---	---	---	PASS	T	148112556	T	T	148112556	2	4	80	1	0	0	0	0	0	0	0	1	3647	680	24	3		3	CNTNAP2	7	148112556	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	4305775	148112556	11026107	189	30464										
KRBA1	84626	broad.mit.edu	37	chr7	149426415	149426415	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gccaccagcgggggttcaaaGaccctggggccaccaggcca	14	15	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:149426415G>C	uc003wfz.2	+	14	2164	c.1765G>C	c.(1765-1767)GAC>CAC	p.D589H	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_Intron|KRBA1_uc003wgb.2_Intron	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	589										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GGGGTTCAAAGACCCTGGGGC	0.652													11	26	---	---	---	---	PASS	C	149426415	C	C	149426415	3	2	80	1	0	0	0	0	1	0	0	0	8439	933	33	2	1810	2	KRBA1	7	149426415	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1313859	149426415	9712248	190	30465										
REPIN1	29803	broad.mit.edu	37	chr7	150069554	150069554	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cccttcacctgcgccgagtgCgggaagaacttcggcaagaa	12	13	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:150069554C>T	uc010lpq.1	+	4	1713	c.1224C>T	c.(1222-1224)TGC>TGT	p.C408C	REPIN1_uc003whd.2_Silent_p.C397C|REPIN1_uc010lpr.1_Silent_p.C465C|REPIN1_uc003whc.2_Silent_p.C408C|REPIN1_uc003whe.2_Silent_p.C408C	NM_013400	NP_037532	Q9BWE0	REPI1_HUMAN	replication initiator 1 isoform 1	408	C2H2-type 10.				DNA replication	nuclear origin of replication recognition complex	DNA binding|zinc ion binding			pancreas(1)	1	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)			GCGCCGAGTGCGGGAAGAACT	0.721													5	6	---	---	---	---	PASS	T	150069554	T	T	150069554	2	4	80	1	0	0	0	0	0	0	0	1	13227	776	27	1		1	REPIN1	7	150069554	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	643139	150069554	9069109	191	30466										
ACCN3	9311	broad.mit.edu	37	chr7	150747277	150747277	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccactactaggggtggcatgGgcaatgggctggacatcatg	15	9	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr7:150747277G>A	uc003win.2	+	2	987	c.619G>A	c.(619-621)GGC>AGC	p.G207S	ACCN3_uc003wio.2_Missense_Mutation_p.G207S|ACCN3_uc003wip.2_Missense_Mutation_p.G207S|ACCN3_uc003wiq.2_RNA	NM_004769	NP_004760	Q9UHC3	ACCN3_HUMAN	amiloride-sensitive cation channel 3 isoform a	207	Extracellular (Potential).				sensory perception|signal transduction	cytoplasm|integral to plasma membrane	ligand-gated sodium channel activity			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGGTGGCATGGGCAATGGGCT	0.577													34	107	---	---	---	---	PASS	A	150747277	A	A	150747277	3	1	80	1	0	0	0	0	1	0	0	0	130	1232	43	3	625	3	ACCN3	7	150747277	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	677723	150747277	8391386	192	30467										
SPAG11B	10407	broad.mit.edu	37	chr8	7320355	7320355	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gagagcctcagtggctgagtGgttcacatgtctggcttgag	15	8	3	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr8:7320355G>T	uc003wrk.2	-	2	255	c.88C>A	c.(88-90)CAC>AAC	p.H30N	SPAG11B_uc003wrg.1_Missense_Mutation_p.H30N|SPAG11B_uc003wrh.1_Missense_Mutation_p.H30N|SPAG11B_uc003wrl.2_Missense_Mutation_p.H30N|SPAG11B_uc003wrm.2_Missense_Mutation_p.H30N	NM_016512	NP_057596	Q08648	SG11B_HUMAN	sperm associated antigen 11B isoform A	30					spermatogenesis	extracellular region					0				COAD - Colon adenocarcinoma(149;0.0162)|READ - Rectum adenocarcinoma(644;0.236)		GTGGCTGAGTGGTTCACATGT	0.587													30	136	---	---	---	---	PASS	T	7320355	T	T	7320355	3	4	80	1	0	0	0	0	1	0	0	0	14977	1348	47	3	631	3	SPAG11B	8	7320355	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08		7320355	139043667	193	30468										
DOK2	9046	broad.mit.edu	37	chr8	21769830	21769830	+	Silent	SNP	G	A	A													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aggcgctccttggtctccagGaagaaggcactggtgtcccg							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr8:21769830G>A	uc003wzy.1	-	2	348	c.255C>T	c.(253-255)TTC>TTT	p.F85F	DOK2_uc003wzx.1_Silent_p.F85F|DOK2_uc003wzz.1_5'UTR|DOK2_uc010lth.1_Intron	NM_003974	NP_003965	O60496	DOK2_HUMAN	docking protein 2	85	PH.				blood coagulation|leukocyte migration	cytosol	identical protein binding|insulin receptor binding				0				Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		TGGTCTCCAGGAAGAAGGCAC	0.716													3	2	---	---	---	---	PASS	A	21769830	A	A	21769830	2	1	80	1	0	0	0	0	0	0	0	1	4697	1165	41	2		2	DOK2	8	21769830	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	14449475	21769830	124594192	194	30469	606	2								
DOK2	9046	broad.mit.edu	37	chr8	21769833	21769833	+	Missense_Mutation	SNP	G	T	T													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cgctccttggtctccaggaaGaaggcactggtgtcccgggg							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr8:21769833G>T	uc003wzy.1	-	2	345	c.252C>A	c.(250-252)TTC>TTA	p.F84L	DOK2_uc003wzx.1_Missense_Mutation_p.F84L|DOK2_uc003wzz.1_5'UTR|DOK2_uc010lth.1_Intron	NM_003974	NP_003965	O60496	DOK2_HUMAN	docking protein 2	84	PH.				blood coagulation|leukocyte migration	cytosol	identical protein binding|insulin receptor binding				0				Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		TCTCCAGGAAGAAGGCACTGG	0.711													3	1	---	---	---	---	PASS	T	21769833	T	T	21769833	3	4	80	1	0	0	0	0	1	0	0	0	4697	933	33	2	1002	2	DOK2	8	21769833	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	3	21769833	124594189	195	30470	606	2								
EIF4EBP1	1978	broad.mit.edu	37	chr8	37914609	37914609	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcccttctaggtaccaggatCatctatgaccggaaattcct	7	12	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr8:37914609C>T	uc003xks.2	+	2	228	c.156C>T	c.(154-156)ATC>ATT	p.I52I		NM_004095	NP_004086	Q13541	4EBP1_HUMAN	eukaryotic translation initiation factor 4E	52					G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|positive regulation of mitotic cell cycle|TOR signaling cascade|translation	cytosol					0	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)				GTACCAGGATCATCTATGACC	0.552													44	42	---	---	---	---	PASS	T	37914609	T	T	37914609	2	4	80	1	0	0	0	0	0	0	0	1	5032	816	29	2		2	EIF4EBP1	8	37914609	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	16144776	37914609	108449413	196	30471										
XKR4	114786	broad.mit.edu	37	chr8	56436018	56436018	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acgtttgccctctttgcctcGgttttccagctgtactttgg	9	12	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr8:56436018G>A	uc003xsf.2	+	3	1217	c.1185G>A	c.(1183-1185)TCG>TCA	p.S395S		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	395						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			TCTTTGCCTCGGTTTTCCAGC	0.512													105	385	---	---	---	---	PASS	A	56436018	A	A	56436018	2	1	80	1	0	0	0	0	0	0	0	1	17430	1103	39	1		1	XKR4	8	56436018	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	18521409	56436018	89928004	197	30472										
TRPA1	8989	broad.mit.edu	37	chr8	72942187	72942187	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttctggacctcagcaatgtcGccaactgccaaaccaatctg	7	14	3	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr8:72942187G>A	uc003xza.2	-	24	3061	c.2886C>T	c.(2884-2886)GGC>GGT	p.G962G	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	962	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	CAGCAATGTCGCCAACTGCCA	0.299													16	65	---	---	---	---	PASS	A	72942187	A	A	72942187	2	1	80	1	0	0	0	0	0	0	0	1	16574	1074	38	1		1	TRPA1	8	72942187	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	16506169	72942187	73421835	198	30473										
GDF6	392255	broad.mit.edu	37	chr8	97172832	97172832	+	Missense_Mutation	SNP	G	A	A													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gctcggcggacgacgaggagGatgagatggaagcctgctgg							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr8:97172832G>A	uc003yhp.2	-	1	189	c.89C>T	c.(88-90)TCC>TTC	p.S30F		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	30	Poly-Ser.				activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					CGACGAGGAGGATGAGATGGA	0.642													65	73	---	---	---	---	PASS	A	97172832	A	A	97172832	3	1	80	1	0	0	0	0	1	0	0	0	6317	1174	41	2	1286	2	GDF6	8	97172832	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	24230645	97172832	49191190	199	30474	607	2								
GDF6	392255	broad.mit.edu	37	chr8	97172833	97172833	+	Missense_Mutation	SNP	A	T	T													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctcggcggacgacgaggaggAtgagatggaagcctgctgga							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr8:97172833A>T	uc003yhp.2	-	1	188	c.88T>A	c.(88-90)TCC>ACC	p.S30T		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	30	Poly-Ser.				activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GACGAGGAGGATGAGATGGAA	0.642													65	73	---	---	---	---	PASS	T	97172833	T	T	97172833	3	4	80	1	0	0	0	0	1	0	0	0	6317	333	12	5	1287	5	GDF6	8	97172833	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	1	97172833	49191189	200	30475	607	2								
TRPS1	7227	broad.mit.edu	37	chr8	116616283	116616303	+	In_Frame_Del	DEL	TCAGGGGTGGTGAATGAACAC	-	-													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gaaagaggagtacatctacgTcaggggtggtgaatgaacac					rs13282485		TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr8:116616283_116616303delTCAGGGGTGGTGAATGAACAC	uc003ynz.2	-	3	2313_2333	c.1854_1874delGTGTTCATTCACCACCCCTGA	c.(1852-1875)CAGTGTTCATTCACCACCCCTGAC>CAC	p.618_625QCSFTTPD>H	TRPS1_uc011lhy.1_In_Frame_Del_p.622_629QCSFTTPD>H|TRPS1_uc003yny.2_In_Frame_Del_p.631_638QCSFTTPD>H|TRPS1_uc010mcy.2_In_Frame_Del_p.618_625QCSFTTPD>H	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	618_625	C2H2-type 3; atypical.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TACATCTACGTCAGGGGTGGTGAATGAACACTGATGGCACT	0.493									Langer-Giedion_syndrome				68	31	---	---	---	---		-	116616303	-	-	116616283	7	5	80	1	0	1	0	1	0	0	0	0	16590	1667	58	0	1987	0	TRPS1	8	116616283	In_Frame_Del	DEL	TCAGGGGTGGTGAATGAACAC	TCGA-37-4141-01A-02D-1352-08	19443450	116616283	29747739	201	30476										
LYNX1	66004	broad.mit.edu	37	chr8	143846491	143846491	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cagtgggtggagtccctcagGcatctggatccatgggagca	15	10	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr8:143846491G>C	uc003yxb.2	-	4	849	c.222C>G	c.(220-222)TGC>TGG	p.C74W	LYNX1_uc003yxa.2_Missense_Mutation_p.C40W	NM_023946	NP_076435	Q9BZG9	LYNX1_HUMAN	Ly-6 neurotoxin-like protein 1 isoform a	Error:Variant_position_missing_in_Q9BZG9_after_alignment						anchored to membrane|plasma membrane					0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					AGTCCCTCAGGCATCTGGATC	0.617													3	29	---	---	---	---	PASS	C	143846491	C	C	143846491	3	2	80	1	0	0	0	0	1	0	0	0	9108	1195	42	4	181	4	LYNX1	8	143846491	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	27230208	143846491	2517531	202	30477										
CYC1	1537	broad.mit.edu	37	chr8	145151504	145151504	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	taggcatggtggtgaggactAcgtcttctccctgctcacgg	13	11	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr8:145151504A>T	uc003zaz.3	+	5	672	c.629A>T	c.(628-630)TAC>TTC	p.Y210F	CYC1_uc003zay.2_Missense_Mutation_p.Y151F	NM_001916	NP_001907	P08574	CY1_HUMAN	cytochrome c-1	210					respiratory electron transport chain|transport	cell junction|integral to membrane|mitochondrial inner membrane|respiratory chain	electron transporter, transferring electrons from CoQH2-cytochrome c reductase complex and cytochrome c oxidase complex activity|heme binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;8.71e-40)|all cancers(56;3e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGTGAGGACTACGTCTTCTCC	0.612											OREG0019052	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	105	---	---	---	---	PASS	T	145151504	T	T	145151504	3	4	80	1	0	0	0	0	1	0	0	0	4135	391	14	5	647	5	CYC1	8	145151504	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	1305013	145151504	1212518	203	30478										
RLN2	6019	broad.mit.edu	37	chr9	5300201	5300201	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttcgagaatgagtatccaagCctaagtattttaattctgaa	7	6	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr9:5300201C>A	uc003zja.1	-	2	455	c.455G>T	c.(454-456)GGC>GTC	p.G152V	RLN2_uc003ziz.1_3'UTR	NM_134441	NP_604390	P04090	REL2_HUMAN	relaxin 2 isoform 1 preproprotein	152					female pregnancy	extracellular region	hormone activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0201)|Lung(218;0.0987)		AGTATCCAAGCCTAAGTATTT	0.363													120	75	---	---	---	---	PASS	A	5300201	A	A	5300201	3	1	80	1	0	0	0	0	1	0	0	0	13392	739	26	3	106	3	RLN2	9	5300201	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08		5300201	135913230	204	30479										
TOPORS	10210	broad.mit.edu	37	chr9	32541488	32541488	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gaagagacacaatgttactgGgctggttctccaaatcagaa	10	8	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr9:32541488G>A	uc003zrb.2	-	3	3202	c.3035C>T	c.(3034-3036)CCC>CTC	p.P1012L	TOPORS_uc003zrc.2_Missense_Mutation_p.P945L	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	1012					DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		AATGTTACTGGGCTGGTTCTC	0.423													64	155	---	---	---	---	PASS	A	32541488	A	A	32541488	3	1	80	1	0	0	0	0	1	0	0	0	16367	1232	43	3	106	3	TOPORS	9	32541488	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	27241287	32541488	108671943	205	30480										
PRUNE2	158471	broad.mit.edu	37	chr9	79321366	79321366	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctcatcaccagcagcagacaCaaaggtttgctctcttgagt	8	12	3	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr9:79321366C>T	uc010mpk.2	-	8	5948	c.5824G>A	c.(5824-5826)GTG>ATG	p.V1942M	PRUNE2_uc004akj.3_5'Flank|PRUNE2_uc010mpl.1_5'Flank	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1942					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						GCAGCAGACACAAAGGTTTGC	0.483													78	49	---	---	---	---	PASS	T	79321366	T	T	79321366	3	4	80	1	0	0	0	0	1	0	0	0	12641	478	17	3	3490	3	PRUNE2	9	79321366	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	46779878	79321366	61892065	206	30481										
KIAA0368	23392	broad.mit.edu	37	chr9	114246757	114246757	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cggcgctgactcagtcccggAcgagcccctgcgccgcagcg	14	18	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr9:114246757A>C	uc004bfe.1	-	2	156	c.156T>G	c.(154-156)CGT>CGG	p.R52R	KIAA0368_uc010muc.1_5'Flank	NM_001080398	NP_001073867			KIAA0368 protein												0						TCAGTCCCGGACGAGCCCCTG	0.711													6	9	---	---	---	---	PASS	C	114246757	C	C	114246757	2	2	80	1	0	0	0	0	0	0	0	1	8171	262	10	5		5	KIAA0368	9	114246757	Silent	SNP	A	TCGA-37-4141-01A-02D-1352-08	34925391	114246757	26966674	207	30482										
TRAF1	7185	broad.mit.edu	37	chr9	123675781	123675781	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccttcatgaagtgctgcaggGccagctcctcctggctctcg	11	15	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr9:123675781G>A	uc004bku.1	-	5	1102	c.530C>T	c.(529-531)GCC>GTC	p.A177V	TRAF1_uc011lyg.1_Missense_Mutation_p.A55V|TRAF1_uc010mvl.1_Missense_Mutation_p.A177V	NM_005658	NP_005649	Q13077	TRAF1_HUMAN	TNF receptor-associated factor 1	177					apoptosis|positive regulation of NF-kappaB transcription factor activity|protein complex assembly|regulation of apoptosis|signal transduction	cytoplasm	protein binding|zinc ion binding			skin(2)|ovary(1)	3						GTGCTGCAGGGCCAGCTCCTC	0.612													55	29	---	---	---	---	PASS	A	123675781	A	A	123675781	3	1	80	1	0	0	0	0	1	0	0	0	16434	1203	42	3	736	3	TRAF1	9	123675781	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	9429024	123675781	17537650	208	30483										
DENND1A	57706	broad.mit.edu	37	chr9	126439038	126439038	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tctgccaggatgttaagcagCttataaaatacctcgaacca	7	10	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr9:126439038C>A	uc004bnz.1	-	6	566	c.333G>T	c.(331-333)AAG>AAT	p.K111N	DENND1A_uc004bny.1_Intron|DENND1A_uc011lzm.1_Missense_Mutation_p.K79N|DENND1A_uc004boa.1_Missense_Mutation_p.K111N|DENND1A_uc004bob.1_Missense_Mutation_p.K81N|DENND1A_uc004boc.2_Missense_Mutation_p.K79N	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	111	DENN.					cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						TGTTAAGCAGCTTATAAAATA	0.318													52	56	---	---	---	---	PASS	A	126439038	A	A	126439038	3	1	80	1	0	0	0	0	1	0	0	0	4426	796	28	3	2871	3	DENND1A	9	126439038	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	2763257	126439038	14774393	209	30484										
SEC16A	9919	broad.mit.edu	37	chr9	139369734	139369734	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atgccacctcggctctgcacCggggccgccgagcttgggtt	14	15	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr9:139369734C>G	uc004chx.2	-	3	2643	c.2334G>C	c.(2332-2334)CCG>CCC	p.P778P	SEC16A_uc004chv.3_Silent_p.P405P|SEC16A_uc004chw.2_Silent_p.P778P|SEC16A_uc010nbn.2_Silent_p.P778P|SEC16A_uc010nbo.1_Silent_p.P778P	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	600					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GGCTCTGCACCGGGGCCGCCG	0.592													9	16	---	---	---	---	PASS	G	139369734	G	G	139369734	2	3	80	1	0	0	0	0	0	0	0	1	13986	639	23	4		4	SEC16A	9	139369734	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	12930696	139369734	1843697	210	30485										
KIAA1984	84960	broad.mit.edu	37	chr9	139693672	139693672	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	caggactgggctttggccaaGaaggtacacaaacgccgccc	12	13	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr9:139693672G>A	uc004cjf.2	+	2	237	c.189G>A	c.(187-189)AAG>AAA	p.K63K		NM_001039374	NP_001034463	Q5T5S1	K1984_HUMAN	hypothetical protein LOC84960	63										ovary(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.33e-06)|Epithelial(140;0.000124)		CTTTGGCCAAGAAGGTACACA	0.652													17	18	---	---	---	---	PASS	A	139693672	A	A	139693672	2	1	80	1	0	0	0	0	0	0	0	1	8266	933	33	2		2	KIAA1984	9	139693672	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	323938	139693672	1519759	211	30486										
C9orf172	389813	broad.mit.edu	37	chr9	139739515	139739515	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccgaggccgcgcactgggccCgccccgccccgcagttccac	12	22	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr9:139739515C>A	uc011meh.1	+	1	649	c.649C>A	c.(649-651)CGC>AGC	p.R217S	PHPT1_uc004cjp.2_5'Flank	NM_001080482	NP_001073951	C9J069	CI172_HUMAN	chromosome 9 open reading frame 172	217	Pro-rich.										0						GCACTGGGCCCGCCCCGCCCC	0.761													2	0	---	---	---	---	PASS	A	139739515	A	A	139739515	3	1	80	1	0	0	0	0	1	0	0	0	2471	652	23	1	651	1	C9orf172	9	139739515	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	45843	139739515	1473916	212	30487										
FBXW5	54461	broad.mit.edu	37	chr9	139835710	139835710	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccgcgccctgcacctggccaCgaagtccctgctgacgtcca	10	19	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr9:139835710C>A	uc004cjx.2	-	8	1601	c.1450G>T	c.(1450-1452)GTG>TTG	p.V484L	FBXW5_uc010nbx.2_RNA|FBXW5_uc004cjy.2_Missense_Mutation_p.V232L|FBXW5_uc004cjz.2_Missense_Mutation_p.V214L	NM_018998	NP_061871	Q969U6	FBXW5_HUMAN	F-box and WD repeat domain containing 5	484	WD 2.						catalytic activity|protein binding				0	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.19)	OV - Ovarian serous cystadenocarcinoma(145;7.8e-06)|Epithelial(140;0.000106)		CACCTGGCCACGAAGTCCCTG	0.716													18	9	---	---	---	---	PASS	A	139835710	A	A	139835710	3	1	80	1	0	0	0	0	1	0	0	0	5768	536	19	1	258	1	FBXW5	9	139835710	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	96195	139835710	1377721	213	30488										
TAF3	83860	broad.mit.edu	37	chr10	7860717	7860717	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttgttgagggtctcggtggcGcagatctgccaggcgctggg	18	9	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:7860717G>T	uc010qbd.1	+	1	45	c.45G>T	c.(43-45)GCG>GCT	p.A15A		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	15					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						TCTCGGTGGCGCAGATCTGCC	0.692													21	13	---	---	---	---	PASS	T	7860717	T	T	7860717	2	4	80	1	0	0	0	0	0	0	0	1	15522	1074	38	1		1	TAF3	10	7860717	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08		7860717	127674030	214	30489										
ITGA8	8516	broad.mit.edu	37	chr10	15614302	15614302	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atagagaagaaattcatcccGggcagagaaaggccagccca	11	10	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:15614302G>T	uc001ioc.1	-	25	2545	c.2545C>A	c.(2545-2547)CGG>AGG	p.R849R	ITGA8_uc010qcb.1_Silent_p.R834R	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	849	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						AATTCATCCCGGGCAGAGAAA	0.443													123	195	---	---	---	---	PASS	T	15614302	T	T	15614302	2	4	80	1	0	0	0	0	0	0	0	1	7882	1115	39	1		1	ITGA8	10	15614302	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	7753585	15614302	119920445	215	30490										
CUBN	8029	broad.mit.edu	37	chr10	17152948	17152948	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggcctggcagtgggaagaccCaggtgtattcacacactcaa	12	11	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:17152948C>G	uc001ioo.2	-	9	1037	c.985G>C	c.(985-987)GGG>CGG	p.G329R		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	329	EGF-like 4; calcium-binding (Potential).				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)	TGGGAAGACCCAGGTGTATTC	0.512													59	157	---	---	---	---	PASS	G	17152948	G	G	17152948	3	3	80	1	0	0	0	0	1	0	0	0	4051	594	21	4	10122	4	CUBN	10	17152948	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1538646	17152948	118381799	216	30491										
DNAJC1	64215	broad.mit.edu	37	chr10	22209861	22209861	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gaatacaggctgtcgccaatCtggaagtccattgatcagaa	10	9	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:22209861C>G	uc001irc.2	-	4	690	c.403G>C	c.(403-405)GAT>CAT	p.D135H	DNAJC1_uc001ird.2_Missense_Mutation_p.D21H	NM_022365	NP_071760	Q96KC8	DNJC1_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 1	135	Lumenal (By similarity).				negative regulation of proteolysis|regulation of protein secretion|regulation of transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	ATPase activator activity|DNA binding|heat shock protein binding|unfolded protein binding			lung(1)	1		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)				TGTCGCCAATCTGGAAGTCCA	0.378													46	100	---	---	---	---	PASS	G	22209861	G	G	22209861	3	3	80	1	0	0	0	0	1	0	0	0	4628	913	32	2	1297	2	DNAJC1	10	22209861	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	5056913	22209861	113324886	217	30492										
YME1L1	10730	broad.mit.edu	37	chr10	27425295	27425295	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cttgatttcaaagttttaaaAccccgagactgtatgaaaac	6	8	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:27425295A>C	uc001iti.2	-	6	803	c.621T>G	c.(619-621)GGT>GGG	p.G207G	YME1L1_uc001itj.2_Silent_p.G150G|YME1L1_uc010qdl.1_Silent_p.G117G|YME1L1_uc009xkv.2_RNA	NM_139312	NP_647473	Q96TA2	YMEL1_HUMAN	YME1-like 1 isoform 1	207					protein catabolic process|proteolysis	membrane|mitochondrion	ATP binding|metal ion binding|metalloendopeptidase activity|nucleoside-triphosphatase activity			ovary(1)	1						AAGTTTTAAAACCCCGAGACT	0.373													14	116	---	---	---	---	PASS	C	27425295	C	C	27425295	2	2	80	1	0	0	0	0	0	0	0	1	17484	30	2	5		5	YME1L1	10	27425295	Silent	SNP	A	TCGA-37-4141-01A-02D-1352-08	5215434	27425295	108109452	218	30493										
ANUBL1	93550	broad.mit.edu	37	chr10	46121631	46121631	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tagtcatttctgtgatatccCgagcctcaactttggaaata	7	9	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:46121631C>A	uc001jcp.3	-	7	1882	c.1640G>T	c.(1639-1641)CGG>CTG	p.R547L	ANUBL1_uc001jcl.3_Missense_Mutation_p.R67L|ANUBL1_uc001jcm.3_Missense_Mutation_p.R547L|ANUBL1_uc009xmu.2_Missense_Mutation_p.R473L|ANUBL1_uc001jcn.3_Missense_Mutation_p.R473L|ANUBL1_uc001jco.3_Intron	NM_001128324	NP_001121796	Q86XD8	ANUB1_HUMAN	AN1, ubiquitin-like, homolog	547							zinc ion binding				0						TGTGATATCCCGAGCCTCAAC	0.398													136	201	---	---	---	---	PASS	A	46121631	A	A	46121631	3	1	80	1	0	0	0	0	1	0	0	0	713	652	23	1	559	1	ANUBL1	10	46121631	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	18696336	46121631	89413116	219	30494										
CDH23	64072	broad.mit.edu	37	chr10	73563143	73563143	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	caaccgccctgtctttgtgcGcccacccaacggcaccatcc	7	20	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:73563143G>A	uc001jrx.3	+	53	8215	c.7838G>A	c.(7837-7839)CGC>CAC	p.R2613H	CDH23_uc001jsg.3_Missense_Mutation_p.R373H|CDH23_uc001jsh.3_Missense_Mutation_p.R373H|CDH23_uc001jsi.3_Missense_Mutation_p.R373H	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	2613	Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GTCTTTGTGCGCCCACCCAAC	0.612													3	7	---	---	---	---	PASS	A	73563143	A	A	73563143	3	1	80	1	0	0	0	0	1	0	0	0	3108	1087	38	1	8397	1	CDH23	10	73563143	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	27441512	73563143	61971604	220	30495										
CYP2C19	1557	broad.mit.edu	37	chr10	96534956	96534956	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gaggccatttcccactggctGaaagagctaacagaggattt	11	9	0	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:96534956G>C	uc010qnz.1	+	2	310	c.310G>C	c.(310-312)GAA>CAA	p.E104Q	CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Missense_Mutation_p.E82Q	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	104					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	CCCACTGGCTGAAAGAGCTAA	0.517													138	266	---	---	---	---	PASS	C	96534956	C	C	96534956	3	2	80	1	0	0	0	0	1	0	0	0	4166	1291	45	2	316	2	CYP2C19	10	96534956	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	22971813	96534956	38999791	221	30496										
TCTN3	26123	broad.mit.edu	37	chr10	97440360	97440360	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gagacagcaggaagtacagtTtatagcctgcagaagggtaa	13	6	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:97440360T>G	uc001klb.3	-	13	1703	c.1459A>C	c.(1459-1461)AAC>CAC	p.N487H	TCTN3_uc001kla.3_Missense_Mutation_p.N331H|TCTN3_uc010qoi.1_Missense_Mutation_p.N339H	NM_015631	NP_056446	Q6NUS6	TECT3_HUMAN	tectonic 3 isoform a precursor	487	Extracellular (Potential).				apoptosis	integral to membrane					0		Colorectal(252;0.0815)		Epithelial(162;1.69e-07)|all cancers(201;5.63e-06)		GAAGTACAGTTTATAGCCTGC	0.448													157	213	---	---	---	---	PASS	G	97440360	G	G	97440360	3	3	80	1	0	0	0	0	1	0	0	0	15721	1841	64	5	372	5	TCTN3	10	97440360	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	905404	97440360	38094387	222	30497										
CRTAC1	55118	broad.mit.edu	37	chr10	99695956	99695956	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cattattggtgttgaggaagTagatctcctcccggccgtcc	11	11	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:99695956T>C	uc001kou.1	-	3	748	c.392A>G	c.(391-393)TAC>TGC	p.Y131C	CRTAC1_uc001kov.2_Missense_Mutation_p.Y120C|CRTAC1_uc001kot.1_5'UTR	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	131	FG-GAP 2; atypical.					proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		GTTGAGGAAGTAGATCTCCTC	0.632													30	78	---	---	---	---	PASS	C	99695956	C	C	99695956	3	2	80	1	0	0	0	0	1	0	0	0	3896	1638	57	5	1645	5	CRTAC1	10	99695956	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	2255596	99695956	35838791	223	30498										
PDZD7	79955	broad.mit.edu	37	chr10	102781698	102781698	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctcggccagcccaccatggtCcactctgaggccagacaggc	11	17	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:102781698C>T	uc001kso.1	-	6	939	c.724G>A	c.(724-726)GAC>AAC	p.D242N	PDZD7_uc001ksn.2_Missense_Mutation_p.D242N	NM_024895	NP_079171	Q9H5P4	PDZD7_HUMAN	PDZ domain containing 7	242	PDZ 2.					cilium|nucleus	protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3				Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		CCACCATGGTCCACTCTGAGG	0.627													42	77	---	---	---	---	PASS	T	102781698	T	T	102781698	3	4	80	1	0	0	0	0	1	0	0	0	11704	855	30	2	849	2	PDZD7	10	102781698	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	3085742	102781698	32753049	224	30499										
LBX1	10660	broad.mit.edu	37	chr10	102987051	102987051	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcgtccacgtcgatctcttcGtcttcctcgtcctccgagca	7	17	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:102987051G>A	uc001ksx.2	-	2	967	c.822C>T	c.(820-822)GAC>GAT	p.D274D	uc010qpy.1_5'Flank	NM_006562	NP_006553	P52954	LBX1_HUMAN	ladybird homeobox 1	274	Asp/Glu-rich (highly acidic).				muscle organ development		sequence-specific DNA binding				0		Colorectal(252;0.234)		Epithelial(162;3.22e-09)|all cancers(201;1.79e-07)		CGATCTCTTCGTCTTCCTCGT	0.726													67	73	---	---	---	---	PASS	A	102987051	A	A	102987051	2	1	80	1	0	0	0	0	0	0	0	1	8653	1136	40	1		1	LBX1	10	102987051	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	205353	102987051	32547696	225	30500										
PNLIPRP3	119548	broad.mit.edu	37	chr10	118203937	118203937	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aaattgcattaatttagattGgatcaacggttcacgggaat	9	5	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:118203937G>T	uc001lcl.3	+	4	469	c.368G>T	c.(367-369)TGG>TTG	p.W123L		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	123					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		AATTTAGATTGGATCAACGGT	0.363													98	186	---	---	---	---	PASS	T	118203937	T	T	118203937	3	4	80	1	0	0	0	0	1	0	0	0	12152	1357	47	3	382	3	PNLIPRP3	10	118203937	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	15216886	118203937	17330810	226	30501										
HSPA12A	259217	broad.mit.edu	37	chr10	118434813	118434813	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtcctgggggatgatgatccGgcactggtccccaaaagcag	14	11	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:118434813G>T	uc001lct.2	-	12	1612	c.1507C>A	c.(1507-1509)CGG>AGG	p.R503R	HSPA12A_uc001lcu.2_Silent_p.R420R	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	503							ATP binding			ovary(1)	1				all cancers(201;0.0158)		ATGATGATCCGGCACTGGTCC	0.672													24	32	---	---	---	---	PASS	T	118434813	T	T	118434813	2	4	80	1	0	0	0	0	0	0	0	1	7404	1115	39	1		1	HSPA12A	10	118434813	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	230876	118434813	17099934	227	30502										
PTPRE	5791	broad.mit.edu	37	chr10	129877825	129877825	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aagcgctttttctctgcagtGccggagctgggcgaacaggt	14	10	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr10:129877825G>A	uc001lkb.2	+	20	2173	c.1894G>A	c.(1894-1896)GCC>ACC	p.A632T	PTPRE_uc009yat.2_Missense_Mutation_p.A643T|PTPRE_uc009yau.2_Missense_Mutation_p.A632T|PTPRE_uc001lkd.2_Missense_Mutation_p.A574T|PTPRE_uc010quq.1_Intron	NM_006504	NP_006495	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E	632	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)				TCTCTGCAGTGCCGGAGCTGG	0.483													71	169	---	---	---	---	PASS	A	129877825	A	A	129877825	3	1	80	1	0	0	0	0	1	0	0	0	12800	1333	46	3	2003	3	PTPRE	10	129877825	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	11443012	129877825	5656922	228	30503										
DCHS1	8642	broad.mit.edu	37	chr11	6648382	6648382	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcagacgtaggcgcagaggaCtggtggggaaggtgggtgca	21	6	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:6648382C>T	uc001mem.1	-	14	6298	c.5888G>A	c.(5887-5889)AGT>AAT	p.S1963N		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1963	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCGCAGAGGACTGGTGGGGAA	0.617													48	33	---	---	---	---	PASS	T	6648382	T	T	6648382	3	4	80	1	0	0	0	0	1	0	0	0	4287	565	20	3	4040	3	DCHS1	11	6648382	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08		6648382	128358134	229	30504										
DCHS1	8642	broad.mit.edu	37	chr11	6652605	6652605	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atccttcgcctgcagagtcgTcaccagtgttcccggaggca	11	14	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:6652605T>A	uc001mem.1	-	8	4119	c.3709A>T	c.(3709-3711)ACG>TCG	p.T1237S		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1237	Cadherin 12.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGCAGAGTCGTCACCAGTGTT	0.537													143	98	---	---	---	---	PASS	A	6652605	A	A	6652605	3	1	80	1	0	0	0	0	1	0	0	0	4287	1667	58	5	6243	5	DCHS1	11	6652605	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	4223	6652605	128353911	230	30505										
GALNTL4	374378	broad.mit.edu	37	chr11	11292798	11292798	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtcgctattctcctgcagctCcagacagcgcttagacttgc	9	14	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:11292798C>A	uc001mjo.2	-	11	2138	c.1717G>T	c.(1717-1719)GAG>TAG	p.E573*		NM_198516	NP_940918	Q6P9A2	GLTL4_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	573	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)		TCCTGCAGCTCCAGACAGCGC	0.602													96	70	---	---	---	---	PASS	A	11292798	A	A	11292798	4	1	80	1	0	0	0	0	0	1	0	0	6223	864	30	2	110	2	GALNTL4	11	11292798	Nonsense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	4640193	11292798	123713718	231	30506										
RRAS2	22800	broad.mit.edu	37	chr11	14380349	14380349	+	Frame_Shift_Del	DEL	C	-	-													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcgccgacttgcccacgccgCccccgccgaccaccacgagc							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:14380349delC	uc001mlf.3	-	1	381	c.68delG	c.(67-69)GGCfs	p.G23fs	RRAS2_uc009ygq.2_5'Flank|RRAS2_uc010rco.1_Frame_Shift_Del_p.G23fs	NM_012250	NP_036382	P62070	RRAS2_HUMAN	related RAS viral (r-ras) oncogene homolog 2	23	GTP.					endoplasmic reticulum|plasma membrane	GTP binding|GTPase activity|protein binding			breast(1)	1				Epithelial(150;0.203)		GCCCACGCCGCCCCCGCCGAC	0.537													5	7	---	---	---	---		-	14380349	-	-	14380349	7	5	80	1	0	1	0	1	0	0	0	0	13677	739	26	0	570	0	RRAS2	11	14380349	Frame_Shift_Del	DEL	C	TCGA-37-4141-01A-02D-1352-08	3087551	14380349	120626167	232	30507										
OR4A16	81327	broad.mit.edu	37	chr11	55111377	55111377	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcaggaagagaggcataaagCcctgcctacctgcatctccc	9	14	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:55111377C>A	uc010rie.1	+	1	701	c.701C>A	c.(700-702)GCC>GAC	p.A234D		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	234	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						AGGCATAAAGCCCTGCCTACC	0.413													80	180	---	---	---	---	PASS	A	55111377	A	A	55111377	3	1	80	1	0	0	0	0	1	0	0	0	11041	739	26	3	703	3	OR4A16	11	55111377	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	40731028	55111377	79895139	233	30508										
OR5I1	10798	broad.mit.edu	37	chr11	55703186	55703186	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cttcctcccactgaaagagcGgatctttaagactgagagaa	9	10	1	5			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:55703186G>A	uc010ris.1	-	1	691	c.691C>T	c.(691-693)CGC>TGC	p.R231C		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTGAAAGAGCGGATCTTTAAG	0.453													21	26	---	---	---	---	PASS	A	55703186	A	A	55703186	3	1	80	1	0	0	0	0	1	0	0	0	11164	1116	39	1	256	1	OR5I1	11	55703186	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	591809	55703186	79303330	234	30509										
OR8J3	81168	broad.mit.edu	37	chr11	55904850	55904850	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cggtcataggccatcacagcCagcatcattacctccgatac	7	15	3	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:55904850C>T	uc010riz.1	-	1	345	c.345G>A	c.(343-345)CTG>CTA	p.L115L		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					CCATCACAGCCAGCATCATTA	0.483													112	205	---	---	---	---	PASS	T	55904850	T	T	55904850	2	4	80	1	0	0	0	0	0	0	0	1	11242	581	21	3		3	OR8J3	11	55904850	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	201664	55904850	79101666	235	30510										
OR5B17	219965	broad.mit.edu	37	chr11	58125912	58125912	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cagataggaaatcaaggtaaCaagaagtgcaaaaaagacat	9	5	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:58125912C>G	uc010rke.1	-	1	631	c.631G>C	c.(631-633)GTT>CTT	p.V211L		NM_001005489	NP_001005489	Q8NGF7	OR5BH_HUMAN	olfactory receptor, family 5, subfamily B,	211	Helical; Name=5; (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)				ATCAAGGTAACAAGAAGTGCA	0.383													65	92	---	---	---	---	PASS	G	58125912	G	G	58125912	3	3	80	1	0	0	0	0	1	0	0	0	11149	478	17	4	315	4	OR5B17	11	58125912	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	2221062	58125912	76880604	236	30511										
OR5A2	219981	broad.mit.edu	37	chr11	59189633	59189633	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccctgtttagggagtagctgGaactgggtcgcatgtacatg	14	8	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:59189633G>C	uc010rkt.1	-	1	794	c.794C>G	c.(793-795)TCC>TGC	p.S265C		NM_001001954	NP_001001954	Q8NGI9	OR5A2_HUMAN	olfactory receptor, family 5, subfamily A,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGAGTAGCTGGAACTGGGTCG	0.488													51	101	---	---	---	---	PASS	C	59189633	C	C	59189633	3	2	80	1	0	0	0	0	1	0	0	0	11140	1174	41	2	182	2	OR5A2	11	59189633	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1063721	59189633	75816883	237	30512										
MS4A8B	83661	broad.mit.edu	37	chr11	60470880	60470880	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atcatcattggcctggctcaCatcggcctcggctccatcat	8	15	4	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:60470880C>A	uc001npv.2	+	3	452	c.249C>A	c.(247-249)CAC>CAA	p.H83Q	MS4A8B_uc009yne.1_Missense_Mutation_p.H83Q	NM_031457	NP_113645	Q9BY19	M4A8B_HUMAN	membrane-spanning 4-domains, subfamily A, member	83	Helical; (Potential).			H -> R (in Ref. 3; AAH22895).		integral to membrane	receptor activity				0						GCCTGGCTCACATCGGCCTCG	0.552													76	119	---	---	---	---	PASS	A	60470880	A	A	60470880	3	1	80	1	0	0	0	0	1	0	0	0	9867	477	17	3	255	3	MS4A8B	11	60470880	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1281247	60470880	74535636	238	30513										
RAB3IL1	5866	broad.mit.edu	37	chr11	61672267	61672267	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcaggggcccacgtcctctcGgtacaccctttccaggaagg	12	15	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:61672267G>C	uc001nso.2	-	6	903	c.745C>G	c.(745-747)CGA>GGA	p.R249G	RAB3IL1_uc001nsp.2_Missense_Mutation_p.R223G	NM_013401	NP_037533	Q8TBN0	R3GEF_HUMAN	RAB3A interacting protein (rabin3)-like 1	249							protein binding			skin(2)|central_nervous_system(1)	3						ACGTCCTCTCGGTACACCCTT	0.667													4	18	---	---	---	---	PASS	C	61672267	C	C	61672267	3	2	80	1	0	0	0	0	1	0	0	0	12937	1124	39	4	423	4	RAB3IL1	11	61672267	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1201387	61672267	73334249	239	30514										
MUS81	80198	broad.mit.edu	37	chr11	65630596	65630596	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttggccgagtcagaaggcctGagcttgctgaatgtgggcat	15	8	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:65630596G>T	uc001ofv.3	+	7	1019	c.666G>T	c.(664-666)CTG>CTT	p.L222L	MUS81_uc001ofw.3_RNA|MUS81_uc001ofx.3_5'UTR	NM_025128	NP_079404	Q96NY9	MUS81_HUMAN	MUS81 endonuclease homolog	222	Interaction with BLM.				DNA recombination|DNA repair	nucleolus	3'-flap endonuclease activity|DNA binding|metal ion binding|protein binding				0				READ - Rectum adenocarcinoma(159;0.166)		CAGAAGGCCTGAGCTTGCTGA	0.622								Homologous_recombination					52	96	---	---	---	---	PASS	T	65630596	T	T	65630596	2	4	80	1	0	0	0	0	0	0	0	1	9988	1277	45	2		2	MUS81	11	65630596	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	3958329	65630596	69375920	240	30515										
LRP5	4041	broad.mit.edu	37	chr11	68174200	68174200	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aacaacgacgtggccatcccGctcacgggcgtcaaggaggc	13	14	2	0	rs143304197		TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:68174200G>T	uc001ont.2	+	9	2085	c.2010G>T	c.(2008-2010)CCG>CCT	p.P670P	LRP5_uc009ysg.2_Silent_p.P80P	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	670	Beta-propeller 3.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						TGGCCATCCCGCTCACGGGCG	0.582													41	59	---	---	---	---	PASS	T	68174200	T	T	68174200	2	4	80	1	0	0	0	0	0	0	0	1	8960	1074	38	1		1	LRP5	11	68174200	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	2543604	68174200	66832316	241	30516										
MRGPRF	116535	broad.mit.edu	37	chr11	68773465	68773465	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aaacgtgcccaggaagccccCcgtgttcaggatggagaaca	12	12	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:68773465C>A	uc001ooo.3	-	3	680	c.313G>T	c.(313-315)GGG>TGG	p.G105W	MRGPRF_uc001oop.3_Missense_Mutation_p.G105W	NM_001098515	NP_001091985	Q96AM1	MRGRF_HUMAN	MAS-related GPR, member F	105	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			AGGAAGCCCCCCGTGTTCAGG	0.632													5	6	---	---	---	---	PASS	A	68773465	A	A	68773465	3	1	80	1	0	0	0	0	1	0	0	0	9765	623	22	3	722	3	MRGPRF	11	68773465	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	599265	68773465	66233051	242	30517										
OR2AT4	341152	broad.mit.edu	37	chr11	74800303	74800303	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aggagggcagttagccaggcActggctgccaaggtagcatt	15	9	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:74800303A>T	uc010rro.1	-	1	456	c.456T>A	c.(454-456)AGT>AGA	p.S152R		NM_001005285	NP_001005285	A6NND4	O2AT4_HUMAN	olfactory receptor, family 2, subfamily AT,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTAGCCAGGCACTGGCTGCCA	0.552													89	105	---	---	---	---	PASS	T	74800303	T	T	74800303	3	4	80	1	0	0	0	0	1	0	0	0	10987	156	6	5	509	5	OR2AT4	11	74800303	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	6026838	74800303	60206213	243	30518										
CAPN5	726	broad.mit.edu	37	chr11	76826625	76826625	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcgggagtggaacgggccctGgagtgacacgtgaggcctgg	20	9	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:76826625G>A	uc001oxx.2	+	6	1069	c.884G>A	c.(883-885)TGG>TAG	p.W295*	CAPN5_uc009yup.2_Nonsense_Mutation_p.W335*|CAPN5_uc009yuq.2_Nonsense_Mutation_p.W331*|CAPN5_uc001oxy.2_Nonsense_Mutation_p.W335*	NM_004055	NP_004046	O15484	CAN5_HUMAN	calpain 5	295	Calpain catalytic.				proteolysis|signal transduction	intracellular	calcium-dependent cysteine-type endopeptidase activity				0						AACGGGCCCTGGAGTGACACG	0.662													29	31	---	---	---	---	PASS	A	76826625	A	A	76826625	4	1	80	1	0	0	0	0	0	1	0	0	2629	1357	47	3	902	3	CAPN5	11	76826625	Nonsense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	2026322	76826625	58179891	244	30519										
KCTD14	65987	broad.mit.edu	37	chr11	77727702	77727702	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcgtttcttttggtggggtaCgtcaggtagaacttggagaa	14	5	2	2	rs151197596	byFrequency	TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:77727702C>T	uc001oyw.3	-	2	730	c.705G>A	c.(703-705)ACG>ACA	p.T235T		NM_023930	NP_076419	Q9BQ13	KCD14_HUMAN	potassium channel tetramerisation domain	235						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1e-24)			TGGTGGGGTACGTCAGGTAGA	0.498													98	117	---	---	---	---	PASS	T	77727702	T	T	77727702	2	4	80	1	0	0	0	0	0	0	0	1	8101	523	19	1		1	KCTD14	11	77727702	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	901077	77727702	57278814	245	30520										
PCF11	51585	broad.mit.edu	37	chr11	82880718	82880718	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcctcttggtcttcaaggcaCaagatttgacaatcatcctt	6	11	4	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:82880718C>A	uc001ozx.3	+	8	3686	c.3341C>A	c.(3340-3342)ACA>AAA	p.T1114K	PCF11_uc010rsu.1_Missense_Mutation_p.T1245K	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	1114					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						CTTCAAGGCACAAGATTTGAC	0.428													4	245	---	---	---	---	PASS	A	82880718	A	A	82880718	3	1	80	1	0	0	0	0	1	0	0	0	11573	478	17	3	3371	3	PCF11	11	82880718	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	5153016	82880718	52125798	246	30521										
CCDC83	220047	broad.mit.edu	37	chr11	85627088	85627088	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aagaagagaagtcagaattgCaacccacagaagtagaaagt	10	6	1	5			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:85627088C>G	uc001pbh.1	+	10	1404	c.892C>G	c.(892-894)CAA>GAA	p.Q298E	CCDC83_uc001pbg.1_Missense_Mutation_p.Q329E|CCDC83_uc001pbi.1_RNA|CCDC83_uc001pbj.1_Missense_Mutation_p.Q198E	NM_173556	NP_775827	Q8IWF9	CCD83_HUMAN	coiled-coil domain containing 83	298										skin(1)	1		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				GTCAGAATTGCAACCCACAGA	0.318													73	157	---	---	---	---	PASS	G	85627088	G	G	85627088	3	3	80	1	0	0	0	0	1	0	0	0	2857	711	25	4	1023	4	CCDC83	11	85627088	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	2746370	85627088	49379428	247	30522										
FOLH1B	219595	broad.mit.edu	37	chr11	89424614	89424614	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgatcccaatttctatttcaGattcacttttttctgcagta	4	9	4	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:89424614G>T	uc001pda.2	+	12	1491	c.965_splice	c.e12-1	p.D322_splice		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B						proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TTCTATTTCAGATTCACTTTT	0.313													37	67	---	---	---	---	PASS	T	89424614	T	T	89424614	5	4	80	1	0	0	0	0	0	0	1	0	5980	956	33	2	1002	2	FOLH1B	11	89424614	Splice_Site	SNP	G	TCGA-37-4141-01A-02D-1352-08	3797526	89424614	45581902	248	30523										
TRIM49	57093	broad.mit.edu	37	chr11	89531664	89531664	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gaggtgaaagtctgaacaccCcatgcaagaaaacttctagg	10	9	2	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:89531664C>A	uc001pdb.2	-	8	1322	c.993G>T	c.(991-993)TGG>TGT	p.W331C		NM_020358	NP_065091	P0CI25	TRI49_HUMAN	ring finger protein 18	331	B30.2/SPRY.					intracellular	zinc ion binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				TCTGAACACCCCATGCAAGAA	0.418													42	90	---	---	---	---	PASS	A	89531664	A	A	89531664	3	1	80	1	0	0	0	0	1	0	0	0	16521	624	22	3	369	3	TRIM49	11	89531664	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	107050	89531664	45474852	249	30524										
EXPH5	23086	broad.mit.edu	37	chr11	108384166	108384166	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttctgtgaccaagatattggGctggcttttggcaagaggca	13	7	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:108384166G>C	uc001pkk.2	-	6	2179	c.2068C>G	c.(2068-2070)CCC>GCC	p.P690A	EXPH5_uc010rvy.1_Missense_Mutation_p.P502A|EXPH5_uc010rvz.1_Missense_Mutation_p.P534A|EXPH5_uc010rwa.1_Missense_Mutation_p.P614A	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	690					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		AAGATATTGGGCTGGCTTTTG	0.418													146	207	---	---	---	---	PASS	C	108384166	C	C	108384166	3	2	80	1	0	0	0	0	1	0	0	0	5322	1203	42	4	3905	4	EXPH5	11	108384166	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	18852502	108384166	26622350	250	30525										
NCAM1	4684	broad.mit.edu	37	chr11	113102370	113102370	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccccccacccccggcagactCtggatgggcacatggtggtg	13	16	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:113102370C>T	uc009yyq.1	+	11	1511	c.817C>T	c.(817-819)CTG>TTG	p.L273L		NM_001076682	NP_001070150	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1 isoform 3	365	Ig-like C2-type 4.|Extracellular (Potential).				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		CCGGCAGACTCTGGATGGGCA	0.627													16	55	---	---	---	---	PASS	T	113102370	T	T	113102370	2	4	80	1	0	0	0	0	0	0	0	1	10202	912	32	2		2	NCAM1	11	113102370	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	4718204	113102370	21904146	251	30526										
ZBTB16	7704	broad.mit.edu	37	chr11	114113012	114113012	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctgcagtgagtgcaaccgcaCcttccccagccacacggctc	9	18	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:114113012C>A	uc001pop.2	+	5	1841	c.1577C>A	c.(1576-1578)ACC>AAC	p.T526N	ZBTB16_uc001poq.2_Missense_Mutation_p.T526N	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	526	C2H2-type 5.				apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		TGCAACCGCACCTTCCCCAGC	0.627													12	23	---	---	---	---	PASS	A	114113012	A	A	114113012	3	1	80	1	0	0	0	0	1	0	0	0	17523	507	18	3	1591	3	ZBTB16	11	114113012	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1010642	114113012	20893504	252	30527										
ADAMTS15	170689	broad.mit.edu	37	chr11	130341141	130341141	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgctctcctgactccacctcCgtctgtgtccaaggcaagtg	9	15	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:130341141C>T	uc010scd.1	+	7	1941	c.1941C>T	c.(1939-1941)TCC>TCT	p.S647S		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	647	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		ACTCCACCTCCGTCTGTGTCC	0.587													51	79	---	---	---	---	PASS	T	130341141	T	T	130341141	2	4	80	1	0	0	0	0	0	0	0	1	260	639	23	1		1	ADAMTS15	11	130341141	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	16228129	130341141	4665375	253	30528										
OPCML	4978	broad.mit.edu	37	chr11	132398959	132398959	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	caggtcagcaccttacccttGactgacaggtgtctccatgt	9	13	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr11:132398959G>T	uc001qgs.2	-	3	572	c.522C>A	c.(520-522)GTC>GTA	p.V174V	OPCML_uc001qgu.2_Silent_p.V167V|OPCML_uc010sck.1_Silent_p.V174V|OPCML_uc001qgt.2_Silent_p.V174V|OPCML_uc010scl.1_Silent_p.V133V	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	174	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		CCTTACCCTTGACTGACAGGT	0.473													64	116	---	---	---	---	PASS	T	132398959	T	T	132398959	2	4	80	1	0	0	0	0	0	0	0	1	10874	1277	45	2		2	OPCML	11	132398959	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	2057818	132398959	2607557	254	30529										
CACNA1C	775	broad.mit.edu	37	chr12	2692027	2692027	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggaattcggtgatgtatgatGggatcatggcttatggcggc	16	5	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:2692027G>T	uc009zdu.1	+	15	2456	c.2143G>T	c.(2143-2145)GGG>TGG	p.G715W	CACNA1C_uc009zdv.1_Missense_Mutation_p.G712W|CACNA1C_uc001qkb.2_Missense_Mutation_p.G715W|CACNA1C_uc001qkc.2_Missense_Mutation_p.G715W|CACNA1C_uc001qke.2_Missense_Mutation_p.G715W|CACNA1C_uc001qkf.2_Missense_Mutation_p.G715W|CACNA1C_uc001qjz.2_Missense_Mutation_p.G715W|CACNA1C_uc001qkd.2_Missense_Mutation_p.G715W|CACNA1C_uc001qkg.2_Missense_Mutation_p.G715W|CACNA1C_uc009zdw.1_Missense_Mutation_p.G715W|CACNA1C_uc001qkh.2_Missense_Mutation_p.G715W|CACNA1C_uc001qkl.2_Missense_Mutation_p.G715W|CACNA1C_uc001qkn.2_Missense_Mutation_p.G715W|CACNA1C_uc001qko.2_Missense_Mutation_p.G715W|CACNA1C_uc001qkp.2_Missense_Mutation_p.G715W|CACNA1C_uc001qkr.2_Missense_Mutation_p.G715W|CACNA1C_uc001qku.2_Missense_Mutation_p.G715W|CACNA1C_uc001qkq.2_Missense_Mutation_p.G715W|CACNA1C_uc001qks.2_Missense_Mutation_p.G715W|CACNA1C_uc001qkt.2_Missense_Mutation_p.G715W|CACNA1C_uc001qka.1_Missense_Mutation_p.G250W|CACNA1C_uc001qki.1_Missense_Mutation_p.G451W|CACNA1C_uc001qkj.1_Missense_Mutation_p.G451W|CACNA1C_uc001qkk.1_Missense_Mutation_p.G451W|CACNA1C_uc001qkm.1_Missense_Mutation_p.G451W|CACNA1C_uc001qkw.2_Missense_Mutation_p.G4W	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	715	II.|Extracellular (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GATGTATGATGGGATCATGGC	0.488													33	20	---	---	---	---	PASS	T	2692027	T	T	2692027	3	4	80	1	0	0	0	0	1	0	0	0	2540	1348	47	3	2309	3	CACNA1C	12	2692027	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08		2692027	131159868	255	30530										
ZNF384	171017	broad.mit.edu	37	chr12	6778300	6778300	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aggctgcatccgtgtacgccCgatgacagttgtggcacttg	13	11	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:6778300C>T	uc010sfh.1	-	10	1437	c.1229G>A	c.(1228-1230)CGG>CAG	p.R410Q	ZNF384_uc001qpz.2_Missense_Mutation_p.R349Q|ZNF384_uc001qqa.2_Missense_Mutation_p.R349Q|ZNF384_uc001qqb.2_Missense_Mutation_p.R333Q|ZNF384_uc001qqc.2_Missense_Mutation_p.R349Q|ZNF384_uc001qqd.2_Missense_Mutation_p.R294Q|ZNF384_uc001qqe.2_Missense_Mutation_p.R333Q	NM_001135734	NP_001129206	Q8TF68	ZN384_HUMAN	nuclear matrix transcription factor 4 isoform d	410	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/ZNF384(4)	haematopoietic_and_lymphoid_tissue(4)|central_nervous_system(3)|kidney(1)	8						CGTGTACGCCCGATGACAGTT	0.493			T	EWSR1|TAF15 	ALL								67	49	---	---	---	---	PASS	T	6778300	T	T	6778300	3	4	80	1	0	0	0	0	1	0	0	0	17872	652	23	1	512	1	ZNF384	12	6778300	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	4086273	6778300	127073595	256	30531										
SLC2A3	6515	broad.mit.edu	37	chr12	8075586	8075586	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctacaaagaccaagatagccCcaatacagacaaagctcatc	5	13	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:8075586C>A	uc001qtr.2	-	9	1365	c.1103G>T	c.(1102-1104)GGG>GTG	p.G368V		NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	368	Extracellular (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		CAAGATAGCCCCAATACAGAC	0.468													24	22	---	---	---	---	PASS	A	8075586	A	A	8075586	3	1	80	1	0	0	0	0	1	0	0	0	14545	623	22	3	395	3	SLC2A3	12	8075586	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1297286	8075586	125776309	257	30532										
ZNF705A	440077	broad.mit.edu	37	chr12	8330040	8330040	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aactcaccttggaaaaaagtGttatgaatgtgataaaagtg	9	4	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:8330040G>A	uc001qud.1	+	5	836	c.764G>A	c.(763-765)TGT>TAT	p.C255Y	FAM66C_uc001que.3_5'Flank|FAM66C_uc001quf.3_5'Flank|FAM66C_uc009zgc.2_5'Flank|FAM66C_uc001qug.3_5'Flank	NM_001004328	NP_001004328	Q6ZN79	Z705A_HUMAN	zinc finger protein 705A	255					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				Kidney(36;0.0877)		GGAAAAAAGTGTTATGAATGT	0.393													148	116	---	---	---	---	PASS	A	8330040	A	A	8330040	3	1	80	1	0	0	0	0	1	0	0	0	18105	1377	48	3	782	3	ZNF705A	12	8330040	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	254454	8330040	125521855	258	30533										
PTPRO	5800	broad.mit.edu	37	chr12	15702147	15702147	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agtgtccctacgttcatagcCgtctcaacaatgggtaatta	8	10	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:15702147C>A	uc001rcv.1	+	14	2598	c.2424C>A	c.(2422-2424)GCC>GCA	p.A808A	PTPRO_uc001rcw.1_Silent_p.A808A|PTPRO_uc001rcx.1_5'UTR|PTPRO_uc001rcy.1_5'UTR|PTPRO_uc001rcz.1_5'UTR|PTPRO_uc001rda.1_5'UTR	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	808	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)				CGTTCATAGCCGTCTCAACAA	0.383													146	97	---	---	---	---	PASS	A	15702147	A	A	15702147	2	1	80	1	0	0	0	0	0	0	0	1	12809	639	23	1		1	PTPRO	12	15702147	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	7372107	15702147	118149748	259	30534										
SLCO1B3	28234	broad.mit.edu	37	chr12	21229394	21229394	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctcatgttgcaggaggtattCtagttccaatatattttggg	10	6	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:21229394C>G	uc010sil.1	+	15	2004	c.1939C>G	c.(1939-1941)CTA>GTA	p.L647V	LST-3TM12_uc010sim.1_Missense_Mutation_p.L586V|LST-3TM12_uc010sin.1_Missense_Mutation_p.L539V			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity	p.M647L(1)		large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					AGGAGGTATTCTAGTTCCAAT	0.368													165	98	---	---	---	---	PASS	G	21229394	G	G	21229394	3	3	80	1	0	0	0	0	1	0	0	0	14724	912	32	2		2	SLCO1B3	12	21229394	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	5527247	21229394	112622501	260	30535										
C12orf40	283461	broad.mit.edu	37	chr12	40037721	40037721	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgcaagaagaaaattcctggTaagtcattccaattgcattc	7	8	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:40037721T>A	uc001rmc.2	+	3	369	c.202_splice	c.e3+2	p.E68_splice	C12orf40_uc009zjv.1_Intron	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461											ovary(6)	6						AAATTCCTGGTAAGTCATTCC	0.323													30	39	---	---	---	---	PASS	A	40037721	A	A	40037721	5	1	80	1	0	0	0	0	0	0	1	0	1686	1652	57	5	214	5	C12orf40	12	40037721	Splice_Site	SNP	T	TCGA-37-4141-01A-02D-1352-08	18808327	40037721	93814174	261	30536										
LARP4	113251	broad.mit.edu	37	chr12	50860745	50860745	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttatttgttcattttagagaCctcatccttcaacagctgaa	5	9	3	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:50860745C>G	uc001rwp.1	+	13	1531	c.1387C>G	c.(1387-1389)CCT>GCT	p.P463A	LARP4_uc001rwo.1_Missense_Mutation_p.P469A|LARP4_uc001rwq.1_Missense_Mutation_p.P392A|LARP4_uc001rwr.1_Missense_Mutation_p.P392A|LARP4_uc001rws.1_Missense_Mutation_p.P462A|LARP4_uc009zlr.1_Missense_Mutation_p.P282A|LARP4_uc001rwt.1_Missense_Mutation_p.P54A	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a	463							nucleotide binding|RNA binding			ovary(1)	1						ATTTTAGAGACCTCATCCTTC	0.393													95	85	---	---	---	---	PASS	G	50860745	G	G	50860745	3	3	80	1	0	0	0	0	1	0	0	0	8630	507	18	4	1441	4	LARP4	12	50860745	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	10823024	50860745	82991150	262	30537										
NCKAP1L	3071	broad.mit.edu	37	chr12	54912486	54912486	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcatcatgtcctcattcgtcAgtatcctctcctctctgaat	4	14	6	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:54912486A>T	uc001sgc.3	+	14	1469	c.1390A>T	c.(1390-1392)AGT>TGT	p.S464C	NCKAP1L_uc010sox.1_Missense_Mutation_p.S6C|NCKAP1L_uc010soy.1_Missense_Mutation_p.S414C	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	464					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						CTCATTCGTCAGTATCCTCTC	0.473													95	76	---	---	---	---	PASS	T	54912486	T	T	54912486	3	4	80	1	0	0	0	0	1	0	0	0	10222	188	7	5	1444	5	NCKAP1L	12	54912486	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	4051741	54912486	78939409	263	30538										
OR6C75	390323	broad.mit.edu	37	chr12	55759647	55759647	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gttgtctccatctcttacagTagctgtatcttcatgtacat	6	10	4	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:55759647T>A	uc010spk.1	+	1	753	c.753T>A	c.(751-753)AGT>AGA	p.S251R		NM_001005497	NP_001005497	A6NL08	O6C75_HUMAN	olfactory receptor, family 6, subfamily C,	251	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3						TCTCTTACAGTAGCTGTATCT	0.418													89	70	---	---	---	---	PASS	A	55759647	A	A	55759647	3	1	80	1	0	0	0	0	1	0	0	0	11199	1635	57	5	755	5	OR6C75	12	55759647	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	847161	55759647	78092248	264	30539										
PIP4K2C	79837	broad.mit.edu	37	chr12	57989764	57989764	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctctggtcatcaaagaagtaTccagtgaggacattgctgac	10	9	3	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:57989764T>C	uc001sou.2	+	4	594	c.463T>C	c.(463-465)TCC>CCC	p.S155P	PIP4K2C_uc001sot.2_Missense_Mutation_p.S155P|PIP4K2C_uc010srs.1_Missense_Mutation_p.S137P|PIP4K2C_uc010srt.1_Intron	NM_001146258	NP_001139730	Q8TBX8	PI42C_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	155	PIPK.					cytoplasm|membrane	1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|identical protein binding			central_nervous_system(2)|lung(1)	3	Melanoma(17;0.122)					CAAAGAAGTATCCAGTGAGGA	0.527													125	65	---	---	---	---	PASS	C	57989764	C	C	57989764	3	2	80	1	0	0	0	0	1	0	0	0	11938	1435	50	5	477	5	PIP4K2C	12	57989764	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	2230117	57989764	75862131	265	30540										
TRHDE	29953	broad.mit.edu	37	chr12	73046262	73046262	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcagtgatgacaggaatttaTtaaacaggtaggccgactga	12	6	0	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:73046262T>A	uc001sxa.2	+	16	2731	c.2701T>A	c.(2701-2703)TTA>ATA	p.L901I		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	901	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						CAGGAATTTATTAAACAGGTA	0.333													11	96	---	---	---	---	PASS	A	73046262	A	A	73046262	3	1	80	1	0	0	0	0	1	0	0	0	16476	1490	52	5	2763	5	TRHDE	12	73046262	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	15056498	73046262	60805633	266	30541										
ANKS1B	56899	broad.mit.edu	37	chr12	99640279	99640279	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aggctctctccacaaatcccCctgcgttcataacccactgg	6	17	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:99640279C>A	uc001tge.1	-	13	2537	c.2120G>T	c.(2119-2121)GGG>GTG	p.G707V	ANKS1B_uc001tgf.1_Missense_Mutation_p.G287V|ANKS1B_uc001tgk.2_Missense_Mutation_p.G4V|ANKS1B_uc009ztt.1_Missense_Mutation_p.G673V	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	707						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		CACAAATCCCCCTGCGTTCAT	0.448													67	61	---	---	---	---	PASS	A	99640279	A	A	99640279	3	1	80	1	0	0	0	0	1	0	0	0	689	623	22	3	1970	3	ANKS1B	12	99640279	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	26594017	99640279	34211616	267	30542										
SLC17A8	246213	broad.mit.edu	37	chr12	100795605	100795605	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccctggctggggtgttggtgCagtacattggatggtcctct	15	9	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:100795605C>A	uc010svi.1	+	6	1040	c.727C>A	c.(727-729)CAG>AAG	p.Q243K	SLC17A8_uc009ztx.2_Missense_Mutation_p.Q243K	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	243	Vesicular (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						GGTGTTGGTGCAGTACATTGG	0.453													176	186	---	---	---	---	PASS	A	100795605	A	A	100795605	3	1	80	1	0	0	0	0	1	0	0	0	14423	711	25	3	749	3	SLC17A8	12	100795605	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1155326	100795605	33056290	268	30543										
STAB2	55576	broad.mit.edu	37	chr12	104149394	104149394	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgcctctgccctccagatgtGaactgcacctgcaaggtggg	12	13	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:104149394G>A	uc001tjw.2	+	63	7071	c.6885G>A	c.(6883-6885)GTG>GTA	p.V2295V	STAB2_uc009zug.2_Intron	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2295	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTCCAGATGTGAACTGCACCT	0.587													119	73	---	---	---	---	PASS	A	104149394	A	A	104149394	2	1	80	1	0	0	0	0	0	0	0	1	15237	1277	45	2		2	STAB2	12	104149394	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	3353789	104149394	29702501	269	30544										
ASCL4	121549	broad.mit.edu	37	chr12	108169159	108169159	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtgggcgcgcagcggctgcgCacggggatggcagtacttgc	19	11	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:108169159C>G	uc001tmr.2	+	1	998	c.167C>G	c.(166-168)GCA>GGA	p.A56G		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	55					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						AGCGGCTGCGCACGGGGATGG	0.756													9	6	---	---	---	---	PASS	G	108169159	G	G	108169159	3	3	80	1	0	0	0	0	1	0	0	0	1036	710	25	4	169	4	ASCL4	12	108169159	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	4019765	108169159	25682736	270	30545										
RIMBP2	23504	broad.mit.edu	37	chr12	130919366	130919366	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gagtcataggcgtcctcctcGtctgaggcggcgtactgccc	13	14	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr12:130919366G>A	uc001uil.2	-	11	2279	c.2115C>T	c.(2113-2115)GAC>GAT	p.D705D	RIMBP2_uc001uim.2_Silent_p.D613D|RIMBP2_uc001uin.1_Silent_p.D364D	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	705						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		CGTCCTCCTCGTCTGAGGCGG	0.597													107	54	---	---	---	---	PASS	A	130919366	A	A	130919366	2	1	80	1	0	0	0	0	0	0	0	1	13363	1136	40	1		1	RIMBP2	12	130919366	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	22750207	130919366	2932529	271	30546										
MTUS2	23281	broad.mit.edu	37	chr13	29599829	29599829	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aggcagcccaggaagggtatCtgggatgccacaaggaagag	16	8	1	1	rs182740	by1000genomes	TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr13:29599829C>A	uc001usl.3	+	1	1082	c.1024C>A	c.(1024-1026)CTG>ATG	p.L342M		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	332						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						GGAAGGGTATCTGGGATGCCA	0.547													53	79	---	---	---	---	PASS	A	29599829	A	A	29599829	3	1	80	1	0	0	0	0	1	0	0	0	9966	912	32	2	1026	2	MTUS2	13	29599829	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08		29599829	85570049	272	30547										
FREM2	341640	broad.mit.edu	37	chr13	39264593	39264593	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cttttaacctgagtctgtcaGatatgtctcaagaatggaga	9	7	3	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr13:39264593G>T	uc001uwv.2	+	1	3421	c.3112G>T	c.(3112-3114)GAT>TAT	p.D1038Y		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1038	CSPG 6.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GAGTCTGTCAGATATGTCTCA	0.453													165	285	---	---	---	---	PASS	T	39264593	T	T	39264593	3	4	80	1	0	0	0	0	1	0	0	0	6045	942	33	2	3114	2	FREM2	13	39264593	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	9664764	39264593	75905285	273	30548										
FREM2	341640	broad.mit.edu	37	chr13	39454818	39454818	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgtcattgcagtgctgatgtGcaggggcaaggaaagtttca	14	6	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr13:39454818G>T	uc001uwv.2	+	24	9713	c.9404G>T	c.(9403-9405)TGC>TTC	p.C3135F		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	3135	Cytoplasmic (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GTGCTGATGTGCAGGGGCAAG	0.587													29	71	---	---	---	---	PASS	T	39454818	T	T	39454818	3	4	80	1	0	0	0	0	1	0	0	0	6045	1319	46	3	9498	3	FREM2	13	39454818	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	190225	39454818	75715060	274	30549										
COG3	83548	broad.mit.edu	37	chr13	46067577	46067577	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gactctgtcggaactttgtgGgattcttaaaaatgaggtgc	12	6	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr13:46067577G>A	uc001vak.2	+	12	1384	c.1283G>A	c.(1282-1284)GGG>GAG	p.G428E	COG3_uc001vai.2_Missense_Mutation_p.G428E|COG3_uc001vaj.1_Missense_Mutation_p.G428E|COG3_uc010tfv.1_Missense_Mutation_p.G265E|COG3_uc010aci.2_Missense_Mutation_p.G204E	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3	428					ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)		GAACTTTGTGGGATTCTTAAA	0.353													82	210	---	---	---	---	PASS	A	46067577	A	A	46067577	3	1	80	1	0	0	0	0	1	0	0	0	3659	1232	43	3	1329	3	COG3	13	46067577	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	6612759	46067577	69102301	275	30550										
EBPL	84650	broad.mit.edu	37	chr13	50265552	50265552	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcggcccccagctcccactcAgcgcccatgcttcaggcttc	8	20	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr13:50265552A>G	uc001vdg.2	-	1	72	c.9T>C	c.(7-9)GCT>GCC	p.A3A	EBPL_uc001vdh.2_RNA|EBPL_uc001vdi.2_Silent_p.A3A	NM_032565	NP_115954	Q9BY08	EBPL_HUMAN	emopamil binding related protein, delta8-delta7	3					sterol metabolic process	endoplasmic reticulum membrane|integral to membrane	cholestenol delta-isomerase activity				0		Lung NSC(96;0.000468)|Breast(56;0.0011)|Prostate(109;0.00243)|Hepatocellular(98;0.0556)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.06e-09)		GCTCCCACTCAGCGCCCATGC	0.433													6	16	---	---	---	---	PASS	G	50265552	G	G	50265552	2	3	80	1	0	0	0	0	0	0	0	1	4887	175	7	5		5	EBPL	13	50265552	Silent	SNP	A	TCGA-37-4141-01A-02D-1352-08	4197975	50265552	64904326	276	30551										
C13orf1	57213	broad.mit.edu	37	chr13	50495673	50495673	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctggacaatgcatgttttttCcattcaagtatacatttaat	5	7	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr13:50495673C>A	uc001vdl.2	-	4	696	c.434G>T	c.(433-435)GGA>GTA	p.G145V	C13orf1_uc001vdm.2_Missense_Mutation_p.G106V|C13orf1_uc010tgm.1_RNA|C13orf1_uc010adj.2_Missense_Mutation_p.G145V	NM_020456	NP_065189	Q5W111	SPRY7_HUMAN	chromosome 13 open reading frame 1 isoform 1	145	B30.2/SPRY.										0		Lung NSC(96;7.5e-06)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Acute lymphoblastic leukemia(7;0.117)		GBM - Glioblastoma multiforme(99;1.72e-10)|COAD - Colon adenocarcinoma(199;0.208)		CATGTTTTTTCCATTCAAGTA	0.343													63	134	---	---	---	---	PASS	A	50495673	A	A	50495673	3	1	80	1	0	0	0	0	1	0	0	0	1717	855	30	2	164	2	C13orf1	13	50495673	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	230121	50495673	64674205	277	30552										
EDNRB	1910	broad.mit.edu	37	chr13	78474726	78474726	+	Frame_Shift_Del	DEL	G	-	-													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cagaatcctgctgaggtgaaGgggaagccagcagagggcaa							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr13:78474726delG	uc001vko.2	-	5	1273	c.1015delC	c.(1015-1017)CTTfs	p.L339fs	EDNRB_uc001vkq.1_Frame_Shift_Del_p.L339fs|uc001vkn.1_Intron|EDNRB_uc010aez.1_Frame_Shift_Del_p.L339fs|EDNRB_uc001vkp.1_Frame_Shift_Del_p.L422fs	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	339	Helical; Name=6; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	CTGAGGTGAAGGGGAAGCCAG	0.433													85	42	---	---	---	---		-	78474726	-	-	78474726	7	5	80	1	0	1	0	1	0	0	0	0	4920	1000	35	0	446	0	EDNRB	13	78474726	Frame_Shift_Del	DEL	G	TCGA-37-4141-01A-02D-1352-08	27979053	78474726	36695152	278	30553										
SPRY2	10253	broad.mit.edu	37	chr13	80911698	80911698	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	actcattggtgtttcggatgGctctgatctgatccagagac	11	9	3	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr13:80911698G>C	uc001vli.2	-	2	1121	c.143C>G	c.(142-144)GCC>GGC	p.A48G	SPRY2_uc001vlj.2_Missense_Mutation_p.A48G	NM_005842	NP_005833	O43597	SPY2_HUMAN	sprouty 2	48					epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of ERK1 and ERK2 cascade|positive regulation of gene expression|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein kinase B signaling cascade	cytosol|microtubule|ruffle membrane	protein serine/threonine kinase activator activity			ovary(1)|lung(1)	2	Medulloblastoma(90;0.18)	Acute lymphoblastic leukemia(28;0.218)|Breast(118;0.244)		GBM - Glioblastoma multiforme(99;0.0318)		GTTTCGGATGGCTCTGATCTG	0.612													86	151	---	---	---	---	PASS	C	80911698	C	C	80911698	3	2	80	1	0	0	0	0	1	0	0	0	15105	1203	42	4	808	4	SPRY2	13	80911698	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	2436972	80911698	34258180	279	30554										
SLITRK5	26050	broad.mit.edu	37	chr13	88327697	88327697	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	caggaccttcacagaaaaatGcatagctggatgctgcagac	10	10	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr13:88327697G>A	uc001vln.2	+	2	273	c.54G>A	c.(52-54)ATG>ATA	p.M18I	SLITRK5_uc010tic.1_Intron	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	18						integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					ACAGAAAAATGCATAGCTGGA	0.438													88	165	---	---	---	---	PASS	A	88327697	A	A	88327697	3	1	80	1	0	0	0	0	1	0	0	0	14746	1319	46	3	56	3	SLITRK5	13	88327697	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	7415999	88327697	26842181	280	30555										
FARP1	10160	broad.mit.edu	37	chr13	99047633	99047633	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agccccgcgggtaacaagcaGgcggacggagccgcctcggc	16	15	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr13:99047633G>T	uc001vnj.2	+	13	1653	c.1317G>T	c.(1315-1317)CAG>CAT	p.Q439H	FARP1_uc001vnh.2_Missense_Mutation_p.Q439H	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	439					regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			GTAACAAGCAGGCGGACGGAG	0.687													34	28	---	---	---	---	PASS	T	99047633	T	T	99047633	3	4	80	1	0	0	0	0	1	0	0	0	5676	991	35	3	1586	3	FARP1	13	99047633	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	10719936	99047633	16122245	281	30556										
NALCN	259232	broad.mit.edu	37	chr13	101890194	101890194	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtagttcgaatttgtggagaGatgagctaatatatccagta	11	4	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr13:101890194G>T	uc001vox.1	-	12	1535	c.1346C>A	c.(1345-1347)TCT>TAT	p.S449Y	NALCN_uc001voy.2_Missense_Mutation_p.S164Y|NALCN_uc001voz.2_Missense_Mutation_p.S449Y|NALCN_uc001vpa.2_Missense_Mutation_p.S449Y	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	449	Helical; Name=S3 of repeat II; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TTTGTGGAGAGATGAGCTAAT	0.338													70	118	---	---	---	---	PASS	T	101890194	T	T	101890194	3	4	80	1	0	0	0	0	1	0	0	0	10148	942	33	2	4002	2	NALCN	13	101890194	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	2842561	101890194	13279684	282	30557										
ITGBL1	9358	broad.mit.edu	37	chr13	102367913	102367913	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctatatgtattttattgcagGgaatggaatatgtagctgtg	11	3	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr13:102367913G>A	uc001vpb.2	+	11	1613	c.1394G>A	c.(1393-1395)GGG>GAG	p.G465E	ITGBL1_uc010agb.2_Missense_Mutation_p.G416E|ITGBL1_uc001vpc.3_Missense_Mutation_p.G324E	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	465	X.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TTTATTGCAGGGAATGGAATA	0.338													140	330	---	---	---	---	PASS	A	102367913	A	A	102367913	3	1	80	1	0	0	0	0	1	0	0	0	7902	1246	43	3	1436	3	ITGBL1	13	102367913	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	477719	102367913	12801965	283	30558										
AKAP6	9472	broad.mit.edu	37	chr14	33291723	33291723	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttatctcatagttcatctatTgagtccctttctccaggggg	8	10	4	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr14:33291723T>G	uc001wrq.2	+	13	4874	c.4704T>G	c.(4702-4704)ATT>ATG	p.I1568M		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1568	Ser-rich.				protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		GTTCATCTATTGAGTCCCTTT	0.403													153	315	---	---	---	---	PASS	G	33291723	G	G	33291723	3	3	80	1	0	0	0	0	1	0	0	0	455	1800	63	5	4750	5	AKAP6	14	33291723	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08		33291723	74057817	284	30559										
SLC25A21	89874	broad.mit.edu	37	chr14	37180664	37180664	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tccttcttaatgatttgtctTgcataacccacagtggatgg	8	9	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr14:37180664T>A	uc001wtz.1	-	7	772	c.462A>T	c.(460-462)GCA>GCT	p.A154A		NM_030631	NP_085134	Q9BQT8	ODC_HUMAN	solute carrier family 25 (mitochondrial	154	Solcar 2.				lysine catabolic process	integral to membrane|mitochondrial inner membrane	alpha-ketoglutarate transmembrane transporter activity|binding			skin(1)	1	Esophageal squamous(585;0.164)|Breast(36;0.179)|Hepatocellular(127;0.213)		Lung(8;2.16e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.0112)|all cancers(34;0.0274)|LUSC - Lung squamous cell carcinoma(13;0.149)	GBM - Glioblastoma multiforme(112;0.00204)		TGATTTGTCTTGCATAACCCA	0.438													56	101	---	---	---	---	PASS	A	37180664	A	A	37180664	2	1	80	1	0	0	0	0	0	0	0	1	14484	1799	63	5		5	SLC25A21	14	37180664	Silent	SNP	T	TCGA-37-4141-01A-02D-1352-08	3888941	37180664	70168876	285	30560										
GCH1	2643	broad.mit.edu	37	chr14	55312518	55312518	+	Silent	SNP	C	A	A													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	actaccccgactccagcaggCcgcaaggcttccgtgattgc							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr14:55312518C>A	uc001xbh.1	-	5	755	c.594G>T	c.(592-594)CGG>CGT	p.R198R	GCH1_uc001xbi.1_Silent_p.R198R|GCH1_uc001xbj.1_Silent_p.R198R|GCH1_uc001xbk.1_Silent_p.R198R|GCH1_uc010aol.1_Intron|GCH1_uc001xbl.1_Silent_p.R198R	NM_001024024	NP_001019195	P30793	GCH1_HUMAN	GTP cyclohydrolase 1 isoform 1	198					dopamine biosynthetic process|GTP catabolic process|neuromuscular process controlling posture|nitric oxide biosynthetic process|positive regulation of nitric-oxide synthase activity|protein homooligomerization|response to interferon-gamma|response to lipopolysaccharide|response to pain|response to tumor necrosis factor|tetrahydrobiopterin biosynthetic process|tetrahydrofolate biosynthetic process	cytoplasmic vesicle|cytosol|nuclear membrane|protein complex	GTP binding|GTP cyclohydrolase I activity|protein homodimerization activity|zinc ion binding			skin(1)	1						CTCCAGCAGGCCGCAAGGCTT	0.468													76	184	---	---	---	---	PASS	A	55312518	A	A	55312518	2	1	80	1	0	0	0	0	0	0	0	1	6291	726	26	3		3	GCH1	14	55312518	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	18131854	55312518	52037022	286	30561	608	2								
GCH1	2643	broad.mit.edu	37	chr14	55312519	55312519	+	Missense_Mutation	SNP	C	A	A													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctaccccgactccagcaggcCgcaaggcttccgtgattgct							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr14:55312519C>A	uc001xbh.1	-	5	754	c.593G>T	c.(592-594)CGG>CTG	p.R198L	GCH1_uc001xbi.1_Missense_Mutation_p.R198L|GCH1_uc001xbj.1_Missense_Mutation_p.R198L|GCH1_uc001xbk.1_Missense_Mutation_p.R198L|GCH1_uc010aol.1_Intron|GCH1_uc001xbl.1_Missense_Mutation_p.R198L	NM_001024024	NP_001019195	P30793	GCH1_HUMAN	GTP cyclohydrolase 1 isoform 1	198					dopamine biosynthetic process|GTP catabolic process|neuromuscular process controlling posture|nitric oxide biosynthetic process|positive regulation of nitric-oxide synthase activity|protein homooligomerization|response to interferon-gamma|response to lipopolysaccharide|response to pain|response to tumor necrosis factor|tetrahydrobiopterin biosynthetic process|tetrahydrofolate biosynthetic process	cytoplasmic vesicle|cytosol|nuclear membrane|protein complex	GTP binding|GTP cyclohydrolase I activity|protein homodimerization activity|zinc ion binding			skin(1)	1						TCCAGCAGGCCGCAAGGCTTC	0.473													76	184	---	---	---	---	PASS	A	55312519	A	A	55312519	3	1	80	1	0	0	0	0	1	0	0	0	6291	652	23	1	267	1	GCH1	14	55312519	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1	55312519	52037021	287	30562	608	2								
SIX1	6495	broad.mit.edu	37	chr14	61115580	61115580	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tggaaattttcggcgcacccGatatttgcccacggcgccca	10	14	0	0	rs80356459		TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr14:61115580G>C	uc001xfb.3	-	1	576	c.328C>G	c.(328-330)CGG>GGG	p.R110G		NM_005982	NP_005973	Q15475	SIX1_HUMAN	SIX homeobox 1	110			R -> Q (in BOS3).|R -> W (in BOS3; crucial for EYA1-SIX1 interaction).		branching involved in ureteric bud morphogenesis|embryonic cranial skeleton morphogenesis|epithelial cell differentiation|inner ear morphogenesis|mesonephric tubule formation|metanephric mesenchyme development|myoblast migration|negative regulation of neuron apoptosis|organ induction|pattern specification process|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|protein localization to nucleus|regulation of branch elongation involved in ureteric bud branching|regulation of neuron differentiation|skeletal muscle tissue development|thymus development|thyroid gland development	nucleolus|transcription factor complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.0201)		CGGCGCACCCGATATTTGCCC	0.632													64	83	---	---	---	---	PASS	C	61115580	C	C	61115580	3	2	80	1	0	0	0	0	1	0	0	0	14346	1057	37	2	534	2	SIX1	14	61115580	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	5803061	61115580	46233960	288	30563										
PAPLN	89932	broad.mit.edu	37	chr14	73718432	73718432	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctggaccatcgaggcggcccGggccctgccagcagccagca	14	17	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr14:73718432G>T	uc010ttx.1	+	8	894	c.731G>T	c.(730-732)CGG>CTG	p.R244L	PAPLN_uc001xnw.3_Missense_Mutation_p.R217L|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.R244L	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	244						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GAGGCGGCCCGGGCCCTGCCA	0.672													25	39	---	---	---	---	PASS	T	73718432	T	T	73718432	3	4	80	1	0	0	0	0	1	0	0	0	11428	1116	39	1	676	1	PAPLN	14	73718432	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	12602852	73718432	33631108	289	30564										
NRXN3	9369	broad.mit.edu	37	chr14	79433705	79433705	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tggacaccaaagtggtcactCaggttatcaatggtgccaaa	10	9	3	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr14:79433705C>G	uc001xun.2	+	10	2304	c.1813C>G	c.(1813-1815)CAG>GAG	p.Q605E	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.Q730E	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	978	Extracellular (Potential).|Laminin G-like 5.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		AGTGGTCACTCAGGTTATCAA	0.403													50	68	---	---	---	---	PASS	G	79433705	G	G	79433705	3	3	80	1	0	0	0	0	1	0	0	0	10667	827	29	2	1843	2	NRXN3	14	79433705	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	5715273	79433705	27915835	290	30565										
C15orf53	400359	broad.mit.edu	37	chr15	38990597	38990597	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cctcctacctaactgtgcccCgccgttcaccacttcctgtc	5	20	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr15:38990597C>G	uc001zkf.1	+	2	401	c.391C>G	c.(391-393)CGC>GGC	p.R131G		NM_207444	NP_997327	Q8NAA6	CO053_HUMAN	hypothetical protein LOC400359	131											0		all_cancers(109;1.75e-13)|all_epithelial(112;1.02e-11)|Lung NSC(122;1.9e-09)|all_lung(180;4.04e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;8.39e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0321)		AACTGTGCCCCGCCGTTCACC	0.547													24	15	---	---	---	---	PASS	G	38990597	G	G	38990597	3	3	80	1	0	0	0	0	1	0	0	0	1801	652	23	4	397	4	C15orf53	15	38990597	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08		38990597	63540795	291	30566										
DUOX2	50506	broad.mit.edu	37	chr15	45390241	45390241	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aagaaccaccaatagaacttCtggggaagcttggacctggg	12	9	1	2	rs144254445		TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr15:45390241C>A	uc010bea.2	-	27	3734	c.3531G>T	c.(3529-3531)CAG>CAT	p.Q1177H	DUOX2_uc001zun.2_Missense_Mutation_p.Q1177H	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1177	Extracellular (Potential).|Interaction with TXNDC11 (By similarity).|Ferric oxidoreductase.				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		AATAGAACTTCTGGGGAAGCT	0.562													55	36	---	---	---	---	PASS	A	45390241	A	A	45390241	3	1	80	1	0	0	0	0	1	0	0	0	4801	912	32	2	1147	2	DUOX2	15	45390241	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	6399644	45390241	57141151	292	30567										
FBN1	2200	broad.mit.edu	37	chr15	48766523	48766523	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aagatcccatggtattcttgCagtctgcatgctggctgcac	10	11	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr15:48766523C>T	uc001zwx.1	-	34	4467	c.4139G>A	c.(4138-4140)TGC>TAC	p.C1380Y		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1380	EGF-like 23; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GGTATTCTTGCAGTCTGCATG	0.423													57	33	---	---	---	---	PASS	T	48766523	T	T	48766523	3	4	80	1	0	0	0	0	1	0	0	0	5702	710	25	3	4608	3	FBN1	15	48766523	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	3376282	48766523	53764869	293	30568										
DMXL2	23312	broad.mit.edu	37	chr15	51750748	51750748	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctccgatccatatgtatgacTgacaggccagtagagaagta	10	9	0	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr15:51750748T>A	uc002abf.2	-	35	8312	c.8087A>T	c.(8086-8088)CAG>CTG	p.Q2696L	DMXL2_uc002abd.2_Missense_Mutation_p.Q788L|DMXL2_uc010ufy.1_Missense_Mutation_p.Q2697L|DMXL2_uc010bfa.2_Missense_Mutation_p.Q2060L	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	2696						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		TATGTATGACTGACAGGCCAG	0.358													63	36	---	---	---	---	PASS	A	51750748	A	A	51750748	3	1	80	1	0	0	0	0	1	0	0	0	4595	1580	55	5	1059	5	DMXL2	15	51750748	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	2984225	51750748	50780644	294	30569										
UACA	55075	broad.mit.edu	37	chr15	70957052	70957052	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgctgcagagtgtcaatcagCtggctctgcctcttggtggg	14	10	4	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr15:70957052C>G	uc002asr.2	-	17	4166	c.4062G>C	c.(4060-4062)CAG>CAC	p.Q1354H	UACA_uc010uke.1_Missense_Mutation_p.Q1245H|UACA_uc002asq.2_Missense_Mutation_p.Q1341H	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	1354	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						TGTCAATCAGCTGGCTCTGCC	0.512													58	35	---	---	---	---	PASS	G	70957052	G	G	70957052	3	3	80	1	0	0	0	0	1	0	0	0	16821	796	28	4	200	4	UACA	15	70957052	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	19206304	70957052	31574340	295	30570										
CYP11A1	1583	broad.mit.edu	37	chr15	74632057	74632057	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cctgcaccttcaggttgcgtGccatctcatacaagtgccac	8	15	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr15:74632057G>A	uc002axt.2	-	6	1183	c.1028C>T	c.(1027-1029)GCA>GTA	p.A343V	CYP11A1_uc002axs.2_Missense_Mutation_p.A185V|CYP11A1_uc010bjm.1_Missense_Mutation_p.A185V|CYP11A1_uc010bjn.1_RNA|CYP11A1_uc010bjo.1_Intron|CYP11A1_uc010bjp.1_RNA|CYP11A1_uc010ulj.1_Missense_Mutation_p.A123V	NM_000781	NP_000772	P05108	CP11A_HUMAN	cytochrome P450, family 11, subfamily A,	343					C21-steroid hormone biosynthetic process|cholesterol metabolic process|vitamin D metabolic process|xenobiotic metabolic process	mitochondrial matrix	cholesterol monooxygenase (side-chain-cleaving) activity|electron carrier activity|heme binding			ovary(2)	2					Aminoglutethimide(DB00357)|Cholecalciferol(DB00169)|Cimetidine(DB00501)|Clotrimazole(DB00257)|Digitoxin(DB01396)|Digoxin(DB00390)|Medroxyprogesterone(DB00603)|Ouabain(DB01092)|Progesterone(DB00396)|Testosterone(DB00624)|Trilostane(DB01108)	CAGGTTGCGTGCCATCTCATA	0.627													42	28	---	---	---	---	PASS	A	74632057	A	A	74632057	3	1	80	1	0	0	0	0	1	0	0	0	4144	1319	46	3	553	3	CYP11A1	15	74632057	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	3675005	74632057	27899335	296	30571										
ZSCAN2	54993	broad.mit.edu	37	chr15	85164140	85164140	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agccggaaatcccacctcatCacacacgagaggacccacac	7	17	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr15:85164140C>A	uc002bkr.2	+	3	940	c.714C>A	c.(712-714)ATC>ATA	p.I238I	ZSCAN2_uc010bmz.1_Silent_p.I236I|ZSCAN2_uc010bna.2_Silent_p.I88I|ZSCAN2_uc010uox.1_Intron|ZSCAN2_uc010uoy.1_Intron|ZSCAN2_uc010uoz.1_Intron	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	238	C2H2-type 1.				cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		CCCACCTCATCACACACGAGA	0.493													5	319	---	---	---	---	PASS	A	85164140	A	A	85164140	2	1	80	1	0	0	0	0	0	0	0	1	18228	816	29	2		2	ZSCAN2	15	85164140	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	10532083	85164140	17367252	297	30572										
SNX29	92017	broad.mit.edu	37	chr16	12571616	12571616	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cgatgaatggaatatttatcGccggtatacagagttcagga	11	6	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr16:12571616G>T	uc002dby.3	+	12	979	c.923G>T	c.(922-924)CGC>CTC	p.R308L		NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	308	PX.				cell communication		phosphatidylinositol binding			ovary(1)	1						AATATTTATCGCCGGTATACA	0.403													25	83	---	---	---	---	PASS	T	12571616	T	T	12571616	3	4	80	1	0	0	0	0	1	0	0	0	14898	1087	38	1	965	1	SNX29	16	12571616	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08		12571616	77783137	298	30573										
C16orf62	57020	broad.mit.edu	37	chr16	19659206	19659206	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcttgtgcagttgattcatgTaagtattttcattcattagt	7	5	4	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr16:19659206T>G	uc002dgn.1	+	24	2040	c.2028_splice	c.e24+2	p.H676_splice	C16orf62_uc002dgo.1_Splice_Site_p.H609_splice|C16orf62_uc002dgp.1_Splice_Site_p.H425_splice	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020							integral to membrane				ovary(1)	1						TTGATTCATGTAAGTATTTTC	0.299													159	255	---	---	---	---	PASS	G	19659206	G	G	19659206	5	3	80	1	0	0	0	0	0	0	1	0	1825	1652	57	5	2124	5	C16orf62	16	19659206	Splice_Site	SNP	T	TCGA-37-4141-01A-02D-1352-08	7087590	19659206	70695547	299	30574										
PDILT	204474	broad.mit.edu	37	chr16	20387453	20387453	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tctgccacctgctcgctgctGttgaacaaaaatgctttctg	8	12	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr16:20387453G>T	uc002dhc.1	-	4	703	c.480C>A	c.(478-480)AAC>AAA	p.N160K		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	160					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						GCTCGCTGCTGTTGAACAAAA	0.488													61	124	---	---	---	---	PASS	T	20387453	T	T	20387453	3	4	80	1	0	0	0	0	1	0	0	0	11674	1368	48	3	1310	3	PDILT	16	20387453	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	728247	20387453	69967300	300	30575										
DNAH3	55567	broad.mit.edu	37	chr16	21065766	21065766	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acatcgatgaccgtgagggcCccgagagtgagtcgagctcc	14	12	0	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr16:21065766C>A	uc010vbe.1	-	28	4014	c.4014G>T	c.(4012-4014)GGG>GGT	p.G1338G		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1338	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CCGTGAGGGCCCCGAGAGTGA	0.547													26	53	---	---	---	---	PASS	A	21065766	A	A	21065766	2	1	80	1	0	0	0	0	0	0	0	1	4603	610	22	3		3	DNAH3	16	21065766	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	678313	21065766	69288987	301	30576										
POLR3E	55718	broad.mit.edu	37	chr16	22314317	22314317	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atgaagaggatgacccagttGtacaggaggtaactgctgct	13	7	0	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr16:22314317G>T	uc002dkk.2	+	2	184	c.28G>T	c.(28-30)GTA>TTA	p.V10L	POLR3E_uc002dkj.1_Missense_Mutation_p.V10L|POLR3E_uc002dkm.2_Intron|POLR3E_uc010vbr.1_Missense_Mutation_p.V10L|POLR3E_uc002dkl.2_Missense_Mutation_p.V10L|POLR3E_uc010vbs.1_Missense_Mutation_p.V10L|POLR3E_uc010vbt.1_5'UTR	NM_018119	NP_060589	Q9NVU0	RPC5_HUMAN	RNA polymerase III polypeptide E	10					innate immune response|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA-directed RNA polymerase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.012)		TGACCCAGTTGTACAGGAGGT	0.572													127	170	---	---	---	---	PASS	T	22314317	T	T	22314317	3	4	80	1	0	0	0	0	1	0	0	0	12232	1377	48	3	30	3	POLR3E	16	22314317	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1248551	22314317	68040436	302	30577										
SRCAP	10847	broad.mit.edu	37	chr16	30734316	30734316	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tggtgaataatacaggcgtgGtgaagattgtagtgagacaa	14	3	0	4			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr16:30734316G>C	uc002dze.1	+	24	4310	c.3925G>C	c.(3925-3927)GTG>CTG	p.V1309L	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.V1104L|SRCAP_uc010bzz.1_Missense_Mutation_p.V879L	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1309	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			TACAGGCGTGGTGAAGATTGT	0.527													22	174	---	---	---	---	PASS	C	30734316	C	C	30734316	3	2	80	1	0	0	0	0	1	0	0	0	15134	1261	44	4	4011	4	SRCAP	16	30734316	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	8419999	30734316	59620437	303	30578										
PRSS36	146547	broad.mit.edu	37	chr16	31160456	31160456	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atgagggagcccccgcagatGtggccacctccatggtgcag	14	13	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr16:31160456G>C	uc002ebd.2	-	4	269	c.210C>G	c.(208-210)CAC>CAG	p.H70Q	PRSS36_uc010vff.1_5'UTR|PRSS36_uc010vfg.1_Missense_Mutation_p.H70Q|PRSS36_uc010vfh.1_Missense_Mutation_p.H70Q	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	70	Peptidase S1 1.				proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						CCCCGCAGATGTGGCCACCTC	0.682													4	3	---	---	---	---	PASS	C	31160456	C	C	31160456	3	2	80	1	0	0	0	0	1	0	0	0	12625	1368	48	4	2405	4	PRSS36	16	31160456	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	426140	31160456	59194297	304	30579										
CYLD	1540	broad.mit.edu	37	chr16	50828243	50828243	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agaatatggagttatttgctGttctctgcatagaaacaagc	9	6	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr16:50828243G>T	uc002egp.1	+	18	3005	c.2590G>T	c.(2590-2592)GTT>TTT	p.V864F	CYLD_uc010cbs.1_Missense_Mutation_p.V861F|CYLD_uc002egq.1_Missense_Mutation_p.V861F|CYLD_uc002egr.1_Missense_Mutation_p.V861F	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	864					cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				GTTATTTGCTGTTCTCTGCAT	0.478			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				146	256	---	---	---	---	PASS	T	50828243	T	T	50828243	3	4	80	1	0	0	0	0	1	0	0	0	4143	1377	48	3	2652	3	CYLD	16	50828243	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	19667787	50828243	39526510	305	30580										
RBL2	5934	broad.mit.edu	37	chr16	53524205	53524205	+	Frame_Shift_Del	DEL	C	-	-													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgtagctaatgaccgtggttCccactgaggttagtctcttg							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr16:53524205delC	uc002ehi.3	+	22	3531	c.3413delC	c.(3412-3414)TCCfs	p.S1138fs	RBL2_uc002ehj.2_Frame_Shift_Del_p.S848fs|RBL2_uc010vgw.1_Frame_Shift_Del_p.S517fs	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	1138					cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						GACCGTGGTTCCCACTGAGGT	0.403													282	158	---	---	---	---		-	53524205	-	-	53524205	7	5	80	1	0	1	0	1	0	0	0	0	13110	855	30	0	3499	0	RBL2	16	53524205	Frame_Shift_Del	DEL	C	TCGA-37-4141-01A-02D-1352-08	2695962	53524205	36830548	306	30581										
RSPRY1	89970	broad.mit.edu	37	chr16	57243027	57243027	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtccagtctttaattagagtTattccactggaagatccact	7	9	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr16:57243027T>G	uc002elb.2	+	4	722	c.444T>G	c.(442-444)GTT>GTG	p.V148V	RSPRY1_uc002elc.2_Silent_p.V148V|RSPRY1_uc002eld.2_Silent_p.V148V	NM_133368	NP_588609	Q96DX4	RSPRY_HUMAN	ring finger and SPRY domain containing 1	148						extracellular region	zinc ion binding			ovary(1)	1						TAATTAGAGTTATTCCACTGG	0.333													6	515	---	---	---	---	PASS	G	57243027	G	G	57243027	2	3	80	1	0	0	0	0	0	0	0	1	13713	1741	61	5		5	RSPRY1	16	57243027	Silent	SNP	T	TCGA-37-4141-01A-02D-1352-08	3718822	57243027	33111726	307	30582										
BCAR1	9564	broad.mit.edu	37	chr16	75268934	75268934	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttgtcagtggggttggggtgCagggtgccacccccctcagg	17	11	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr16:75268934C>G	uc002fdv.2	-	5	1986	c.1863G>C	c.(1861-1863)CTG>CTC	p.L621L	BCAR1_uc002fdt.2_Silent_p.L74L|BCAR1_uc002fdu.2_Silent_p.L411L|BCAR1_uc010cgu.2_Silent_p.L610L|BCAR1_uc010vna.1_Silent_p.L619L|BCAR1_uc010vnb.1_Silent_p.L667L|BCAR1_uc002fdw.2_Silent_p.L621L|BCAR1_uc010vnc.1_Silent_p.L473L|BCAR1_uc010vnd.1_Silent_p.L639L|BCAR1_uc002fdx.2_Silent_p.L639L	NM_014567	NP_055382	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	621					actin filament organization|B cell receptor signaling pathway|blood coagulation|cell adhesion|cell division|cell migration|cell proliferation|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|integrin-mediated signaling pathway|nerve growth factor receptor signaling pathway|platelet-derived growth factor receptor signaling pathway|positive regulation of cell migration|regulation of apoptosis|regulation of cell growth|T cell receptor signaling pathway	cytosol|focal adhesion|membrane fraction|ruffle	protein kinase binding|protein phosphatase binding|SH3 domain binding|signal transducer activity			central_nervous_system(5)|breast(2)|prostate(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.169)		GGTTGGGGTGCAGGGTGCCAC	0.652													39	73	---	---	---	---	PASS	G	75268934	G	G	75268934	2	3	80	1	0	0	0	0	0	0	0	1	1348	697	25	4		4	BCAR1	16	75268934	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	18025907	75268934	15085819	308	30583										
KARS	3735	broad.mit.edu	37	chr16	75669923	75669923	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cttggttttaccaggattccCctgaactccaattatgtctc	6	12	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr16:75669923C>A	uc002feq.2	-	5	604	c.556G>T	c.(556-558)GGG>TGG	p.G186W	KARS_uc002fer.2_Missense_Mutation_p.G214W|KARS_uc002fes.2_Missense_Mutation_p.G30W|KARS_uc010cgz.2_Missense_Mutation_p.G30W	NM_005548	NP_005539	Q15046	SYK_HUMAN	lysyl-tRNA synthetase isoform 2	186					interspecies interaction between organisms|lysyl-tRNA aminoacylation|tRNA processing	cytosol|extracellular region|mitochondrial matrix|nucleus|plasma membrane|soluble fraction	ATP binding|lysine-tRNA ligase activity|metal ion binding|tRNA binding			ovary(2)	2					L-Lysine(DB00123)	CCAGGATTCCCCTGAACTCCA	0.383													38	92	---	---	---	---	PASS	A	75669923	A	A	75669923	3	1	80	1	0	0	0	0	1	0	0	0	7980	623	22	3	1277	3	KARS	16	75669923	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	400989	75669923	14684830	309	30584										
TP53	7157	broad.mit.edu	37	chr17	7577556	7577556	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tccggttcatgccgcccatgCaggaactgttacacatgtag	10	12	1	0	rs121912655		TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr17:7577556C>A	uc002gim.2	-	7	919	c.725G>T	c.(724-726)TGC>TTC	p.C242F	TP53_uc002gig.1_Missense_Mutation_p.C242F|TP53_uc002gih.2_Missense_Mutation_p.C242F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C110F|TP53_uc010cng.1_Missense_Mutation_p.C110F|TP53_uc002gii.1_Missense_Mutation_p.C110F|TP53_uc010cnh.1_Missense_Mutation_p.C242F|TP53_uc010cni.1_Missense_Mutation_p.C242F|TP53_uc002gij.2_Missense_Mutation_p.C242F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C149F|TP53_uc002gio.2_Missense_Mutation_p.C110F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	242	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).	Zinc.	C -> F (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C242F(63)|p.C242Y(37)|p.C242S(25)|p.C242fs*5(16)|p.C242R(11)|p.C242W(7)|p.0?(7)|p.N239_C242delNSSC(3)|p.C242*(3)|p.C242C(2)|p.C242G(2)|p.C242fs*20(1)|p.C242fs*23(1)|p.Y236_M243delYMCNSSCM(1)|p.C242_M246>L(1)|p.N239fs*4(1)|p.C238_M246delCNSSCMGGM(1)|p.S241_C242insX(1)|p.C238fs*21(1)|p.C242fs*98(1)|p.H233_C242del10(1)|p.N239_C242>S(1)|p.S241_G245delSCMGG(1)|p.N239_C242del(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)		GCCGCCCATGCAGGAACTGTT	0.577		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)			53	55	---	---	---	---	PASS	A	7577556	A	A	7577556	3	1	80	1	0	0	0	0	1	0	0	0	16378	710	25	3	565	3	TP53	17	7577556	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08		7577556	73617654	310	30585										
RAI1	10743	broad.mit.edu	37	chr17	17700660	17700660	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aaaggcccgctggagaagcgGccctatcttggcccggctct	13	14	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr17:17700660G>A	uc002grm.2	+	3	4867	c.4398G>A	c.(4396-4398)CGG>CGA	p.R1466R	RAI1_uc002grn.1_Silent_p.R1466R	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1466						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		TGGAGAAGCGGCCCTATCTTG	0.667													18	13	---	---	---	---	PASS	A	17700660	A	A	17700660	2	1	80	1	0	0	0	0	0	0	0	1	13007	1190	42	3		3	RAI1	17	17700660	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	10123104	17700660	63494550	311	30586										
TBC1D29	26083	broad.mit.edu	37	chr17	28887175	28887175	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acagggttcctcattcagctGgcttctccgggtgctgaatg	12	11	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr17:28887175G>T	uc002hfh.2	+	2	202	c.53G>T	c.(52-54)TGG>TTG	p.W18L	TBC1D29_uc002hfi.2_RNA|uc002hfj.1_5'Flank	NM_015594	NP_056409	Q9UFV1	TBC29_HUMAN	TBC1 domain family, member 29	18	Rab-GAP TBC; truncated.					intracellular	Rab GTPase activator activity				0		Myeloproliferative disorder(56;0.0255)				TCATTCAGCTGGCTTCTCCGG	0.612													8	18	---	---	---	---	PASS	T	28887175	T	T	28887175	3	4	80	1	0	0	0	0	1	0	0	0	15615	1357	47	3	59	3	TBC1D29	17	28887175	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	11186515	28887175	52308035	312	30587										
ATAD5	79915	broad.mit.edu	37	chr17	29221655	29221655	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttctctatgtgggtaatagaCaagctagtataattgaatac	8	5	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr17:29221655C>A	uc002hfs.1	+	22	5717	c.5371C>A	c.(5371-5373)CAA>AAA	p.Q1791K		NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	1791					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				GGGTAATAGACAAGCTAGTAT	0.338													4	94	---	---	---	---	PASS	A	29221655	A	A	29221655	3	1	80	1	0	0	0	0	1	0	0	0	1076	479	17	3	5457	3	ATAD5	17	29221655	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	334480	29221655	51973555	313	30588										
KRT27	342574	broad.mit.edu	37	chr17	38938435	38938435	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cagcgttggcctcctctaggGctcgaacattctccaggtag	11	13	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr17:38938435G>T	uc002hvg.2	-	1	352	c.311C>A	c.(310-312)GCC>GAC	p.A104D		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	104	Rod.|Coil 1A.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				CTCCTCTAGGGCTCGAACATT	0.542													8	242	---	---	---	---	PASS	T	38938435	T	T	38938435	3	4	80	1	0	0	0	0	1	0	0	0	8464	1203	42	3	1100	3	KRT27	17	38938435	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	9716780	38938435	42256775	314	30589										
STAT3	6774	broad.mit.edu	37	chr17	40474352	40474352	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tctggccgacaatactttccGaatgcctcctccttgggaat	8	13	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr17:40474352G>T	uc002hzl.1	-	21	2289	c.2049C>A	c.(2047-2049)TTC>TTA	p.F683L	STAT3_uc002hzk.1_Missense_Mutation_p.F683L|STAT3_uc002hzm.1_Missense_Mutation_p.F683L|STAT3_uc010wgh.1_Missense_Mutation_p.F585L|STAT3_uc002hzn.1_Missense_Mutation_p.F683L	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	683					cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		AATACTTTCCGAATGCCTCCT	0.458									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				4	222	---	---	---	---	PASS	T	40474352	T	T	40474352	3	4	80	1	0	0	0	0	1	0	0	0	15265	1049	37	2	279	2	STAT3	17	40474352	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1535917	40474352	40720858	315	30590										
NPEPPS	9520	broad.mit.edu	37	chr17	45668158	45668158	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgtgtgtagaccactgcttcCcagagtatgatatttggact	10	8	0	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr17:45668158C>T	uc002ilr.3	+	10	1394	c.1171C>T	c.(1171-1173)CCA>TCA	p.P391S	NPEPPS_uc010wkt.1_Missense_Mutation_p.P387S|NPEPPS_uc010wku.1_Missense_Mutation_p.P355S|NPEPPS_uc010wkv.1_5'UTR	NM_006310	NP_006301	P55786	PSA_HUMAN	aminopeptidase puromycin sensitive	391					proteolysis	cytosol|nucleus	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0						CCACTGCTTCCCAGAGTATGA	0.413													31	290	---	---	---	---	PASS	T	45668158	T	T	45668158	3	4	80	1	0	0	0	0	1	0	0	0	10575	623	22	3	1209	3	NPEPPS	17	45668158	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	5193806	45668158	35527052	316	30591										
SP2	6668	broad.mit.edu	37	chr17	45994334	45994334	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggccagccagctgtggtccaGcaggtccaggtggtgccccc	15	15	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr17:45994334G>C	uc002imk.2	+	3	1034	c.897G>C	c.(895-897)CAG>CAC	p.Q299H	SP2_uc002iml.2_Missense_Mutation_p.Q292H|uc002imm.2_Intron	NM_003110	NP_003101	Q02086	SP2_HUMAN	Sp2 transcription factor	299					immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|histone deacetylase binding|zinc ion binding				0						CTGTGGTCCAGCAGGTCCAGG	0.647													9	119	---	---	---	---	PASS	C	45994334	C	C	45994334	3	2	80	1	0	0	0	0	1	0	0	0	14964	962	34	4	907	4	SP2	17	45994334	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	326176	45994334	35200876	317	30592										
ABCA5	23461	broad.mit.edu	37	chr17	67282383	67282383	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcaggcggtagccgatccccCatttacttttgaggaacatt	9	11	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr17:67282383C>T	uc002jif.2	-	15	3329	c.2111G>A	c.(2110-2112)TGG>TAG	p.W704*	ABCA5_uc002jic.2_5'UTR|ABCA5_uc002jid.2_5'UTR|ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Nonsense_Mutation_p.W704*|ABCA5_uc002jih.2_Nonsense_Mutation_p.W704*|ABCA5_uc010dfe.2_Nonsense_Mutation_p.W704*	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	704	ABC transporter 1.				cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					GCCGATCCCCCATTTACTTTT	0.338													33	27	---	---	---	---	PASS	T	67282383	T	T	67282383	4	4	80	1	0	0	0	0	0	1	0	0	35	595	21	3	2913	3	ABCA5	17	67282383	Nonsense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	21288049	67282383	13912827	318	30593										
TMEM104	54868	broad.mit.edu	37	chr17	72832362	72832362	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acatgtacaccctcaacttcGcgcgctgtgacgtcgtgggc	11	14	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr17:72832362G>A	uc002jls.3	+	10	1189	c.1027G>A	c.(1027-1029)GCG>ACG	p.A343T	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Missense_Mutation_p.A343T	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	343	Extracellular (Potential).					integral to membrane					0	all_lung(278;0.23)					CCTCAACTTCGCGCGCTGTGA	0.612													207	300	---	---	---	---	PASS	A	72832362	A	A	72832362	3	1	80	1	0	0	0	0	1	0	0	0	16015	1087	38	1	1061	1	TMEM104	17	72832362	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	5549979	72832362	8362848	319	30594										
FDXR	2232	broad.mit.edu	37	chr17	72860614	72860614	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cccctcacccttgatcttgtCctggagacccaagaaatcca	6	16	2	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr17:72860614C>A	uc002jly.2	-	8	877	c.790G>T	c.(790-792)GAC>TAC	p.D264Y	FDXR_uc010wri.1_Missense_Mutation_p.D212Y|FDXR_uc010wrj.1_Missense_Mutation_p.D262Y|FDXR_uc002jlw.2_Missense_Mutation_p.D21Y|FDXR_uc002jlx.2_Missense_Mutation_p.D270Y|FDXR_uc002jmc.2_Intron|FDXR_uc010wrk.1_Missense_Mutation_p.D295Y|FDXR_uc010wrl.1_Missense_Mutation_p.D307Y|FDXR_uc002jma.2_Missense_Mutation_p.D265Y|FDXR_uc010wrm.1_Missense_Mutation_p.D224Y|FDXR_uc002jlz.2_Missense_Mutation_p.D256Y|FDXR_uc002jmb.2_Intron	NM_024417	NP_077728	P22570	ADRO_HUMAN	ferredoxin reductase isoform 1 precursor	264					cholesterol metabolic process|electron transport chain|steroid biosynthetic process|transport	mitochondrial matrix	ferredoxin-NADP+ reductase activity|protein binding				0	all_lung(278;0.172)|Lung NSC(278;0.207)					TTGATCTTGTCCTGGAGACCC	0.607											OREG0024720	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	67	---	---	---	---	PASS	A	72860614	A	A	72860614	3	1	80	1	0	0	0	0	1	0	0	0	5807	855	30	2	705	2	FDXR	17	72860614	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	28252	72860614	8334596	320	30595										
SIRT7	51547	broad.mit.edu	37	chr17	79870473	79870473	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcaggggagtcgccagtgagAaaatgggatcctgccacctg	15	10	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr17:79870473A>C	uc002kcj.1	-	10	1055	c.1022T>G	c.(1021-1023)TTC>TGC	p.F341C	PCYT2_uc010wva.1_5'Flank|PCYT2_uc010wvb.1_5'Flank|PCYT2_uc002kce.1_5'Flank|PCYT2_uc002kcf.1_5'Flank|PCYT2_uc002kcg.1_5'Flank|PCYT2_uc002kch.1_5'Flank|PCYT2_uc002kci.1_5'Flank|PCYT2_uc010dii.1_5'Flank|PCYT2_uc010wvc.1_5'Flank|SIRT7_uc002kck.1_Missense_Mutation_p.F192C|SIRT7_uc002kcl.1_Missense_Mutation_p.F259C	NM_016538	NP_057622	Q9NRC8	SIRT7_HUMAN	sirtuin 7	341					chromatin silencing|positive regulation of transcription on exit from mitosis|protein deacetylation|rRNA transcription	cytoplasm|nucleolus organizer region	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ binding|protein binding|zinc ion binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0165)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CGCCAGTGAGAAAATGGGATC	0.647													4	24	---	---	---	---	PASS	C	79870473	C	C	79870473	3	2	80	1	0	0	0	0	1	0	0	0	14343	246	9	5	184	5	SIRT7	17	79870473	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	7009859	79870473	1324737	321	30596										
ZNF521	25925	broad.mit.edu	37	chr18	22807238	22807238	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcatgtgtccgtgtaaggaaCtagaggacagaaacccacgg	13	9	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr18:22807238C>G	uc002kvk.2	-	4	891	c.644G>C	c.(643-645)AGT>ACT	p.S215T	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.S215T|ZNF521_uc002kvl.2_5'UTR	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	215	C2H2-type 5.				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)					GTGTAAGGAACTAGAGGACAG	0.493			T	PAX5	ALL								60	73	---	---	---	---	PASS	G	22807238	G	G	22807238	3	3	80	1	0	0	0	0	1	0	0	0	17962	565	20	4	3311	4	ZNF521	18	22807238	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08		22807238	55270010	322	30597										
TCEB3B	51224	broad.mit.edu	37	chr18	44561184	44561184	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggcactttctctcagctctgGgctcgcgactgtgagacctc	11	14	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr18:44561184G>T	uc002lcr.1	-	1	805	c.452C>A	c.(451-453)CCC>CAC	p.P151H	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	151					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						CTCAGCTCTGGGCTCGCGACT	0.662													79	174	---	---	---	---	PASS	T	44561184	T	T	44561184	3	4	80	1	0	0	0	0	1	0	0	0	15679	1232	43	3	1813	3	TCEB3B	18	44561184	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	21753946	44561184	33516064	323	30598										
CDH7	1005	broad.mit.edu	37	chr18	63548089	63548089	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gacctcgctttaaacgactcGcggacatgtatgggactggc	12	11	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr18:63548089G>A	uc002ljz.2	+	12	2642	c.2317G>A	c.(2317-2319)GCG>ACG	p.A773T	CDH7_uc002lkb.2_Missense_Mutation_p.A773T	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	773	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.A773T(1)		ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				TAAACGACTCGCGGACATGTA	0.408													80	139	---	---	---	---	PASS	A	63548089	A	A	63548089	3	1	80	1	0	0	0	0	1	0	0	0	3115	1087	38	1	2359	1	CDH7	18	63548089	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	18986905	63548089	14529159	324	30599										
C18orf62	284274	broad.mit.edu	37	chr18	73130763	73130763	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcgaaatatgctgttggcccTtttccagtcttcagaaaccc	7	12	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr18:73130763T>C	uc002lma.1	-	2	309	c.238A>G	c.(238-240)AGG>GGG	p.R80G	C18orf62_uc010dqw.1_Intron|C18orf62_uc002lmb.1_RNA	NM_001037331	NP_001032408	Q3B7S5	CR062_HUMAN	hypothetical protein LOC284274	80						integral to membrane					0		Esophageal squamous(42;0.131)|Prostate(75;0.155)		OV - Ovarian serous cystadenocarcinoma(15;6.21e-06)		ctgttggcccttttccagtct	0.109													4	445	---	---	---	---	PASS	C	73130763	C	C	73130763	3	2	80	1	0	0	0	0	1	0	0	0	1906	1608	56	5	75	5	C18orf62	18	73130763	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	9582674	73130763	4946485	325	30600										
MAP2K2	5605	broad.mit.edu	37	chr19	4099227	4099227	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gggcgcccggggggcctcggCcgaggcgagatgctgtgagg	22	11	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:4099227C>A	uc002lzk.2	-	7	1145	c.891G>T	c.(889-891)CGG>CGT	p.R297R	MAP2K2_uc002lzj.2_Silent_p.R107R	NM_030662	NP_109587	P36507	MP2K2_HUMAN	mitogen-activated protein kinase kinase 2	297	Protein kinase.|Pro-rich.				activation of MAPK activity|activation of MAPKK activity|axon guidance|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|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|extracellular region	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGGCCTCGGCCGAGGCGAGA	0.711									Cardiofaciocutaneous_syndrome				8	7	---	---	---	---	PASS	A	4099227	A	A	4099227	2	1	80	1	0	0	0	0	0	0	0	1	9237	726	26	3		3	MAP2K2	19	4099227	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08		4099227	55029756	326	30601										
MUC16	94025	broad.mit.edu	37	chr19	9087266	9087266	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gattcctaggtgctgatccaAcgttgttgaatctgtatttc	9	8	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:9087266A>T	uc002mkp.2	-	1	4753	c.4549T>A	c.(4549-4551)TTG>ATG	p.L1517M		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1517	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGCTGATCCAACGTTGTTGAA	0.448													20	385	---	---	---	---	PASS	T	9087266	T	T	9087266	3	4	80	1	0	0	0	0	1	0	0	0	9973	40	2	5	39310	5	MUC16	19	9087266	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	4988039	9087266	50041717	327	30602										
ZNF560	147741	broad.mit.edu	37	chr19	9581175	9581175	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gggtgaactccacagccacaCtgtcaaaggttaccaggtcc	10	13	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:9581175C>T	uc002mlp.1	-	7	551	c.341G>A	c.(340-342)AGT>AAT	p.S114N	ZNF560_uc010dwr.1_Missense_Mutation_p.S8N	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	114	KRAB 2.				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						CACAGCCACACTGTCAAAGGT	0.498													109	58	---	---	---	---	PASS	T	9581175	T	T	9581175	3	4	80	1	0	0	0	0	1	0	0	0	17988	565	20	3	2047	3	ZNF560	19	9581175	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	493909	9581175	49547808	328	30603										
TYK2	7297	broad.mit.edu	37	chr19	10468502	10468502	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcagatctccaggagggtggCgccaaacccccacttgtcca	11	15	1	1	rs148148659		TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:10468502C>A	uc002moc.3	-	17	2782	c.2404G>T	c.(2404-2406)GCC>TCC	p.A802S	TYK2_uc010dxe.2_Missense_Mutation_p.A617S|TYK2_uc002mod.2_Missense_Mutation_p.A802S	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	802	Protein kinase 1.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			AGGAGGGTGGCGCCAAACCCC	0.667													19	25	---	---	---	---	PASS	A	10468502	A	A	10468502	3	1	80	1	0	0	0	0	1	0	0	0	16807	768	27	1	1195	1	TYK2	19	10468502	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	887327	10468502	48660481	329	30604										
SMARCA4	6597	broad.mit.edu	37	chr19	11114047	11114047	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctccgaggtctgatagtgaaGaaagtggctcagaagaagag	14	6	2	6			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:11114047G>T	uc002mqf.3	+	13	2259	c.1975G>T	c.(1975-1977)GAA>TAA	p.E659*	SMARCA4_uc010dxp.2_Nonsense_Mutation_p.E659*|SMARCA4_uc010dxo.2_Nonsense_Mutation_p.E659*|SMARCA4_uc002mqg.1_Nonsense_Mutation_p.E659*|SMARCA4_uc010dxq.2_Nonsense_Mutation_p.E659*|SMARCA4_uc010dxr.2_Nonsense_Mutation_p.E659*|SMARCA4_uc002mqj.3_Nonsense_Mutation_p.E659*|SMARCA4_uc010dxs.2_Nonsense_Mutation_p.E659*	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	659					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				TGATAGTGAAGAAAGTGGCTC	0.473			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				147	153	---	---	---	---	PASS	T	11114047	T	T	11114047	4	4	80	1	0	0	0	0	0	1	0	0	14770	943	33	2	2021	2	SMARCA4	19	11114047	Nonsense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	645545	11114047	48014936	330	30605										
B3GNT3	10331	broad.mit.edu	37	chr19	17918884	17918884	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcctcctgtacagacactgcCgccactttcccctgctgcag	7	18	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:17918884C>T	uc002nhk.1	+	2	353	c.268C>T	c.(268-270)CGC>TGC	p.R90C	B3GNT3_uc002nhl.1_Missense_Mutation_p.R90C|B3GNT3_uc010ebd.1_Missense_Mutation_p.R90C|B3GNT3_uc010ebe.1_Missense_Mutation_p.R90C	NM_014256	NP_055071	Q9Y2A9	B3GN3_HUMAN	UDP-GlcNAc:betaGal	90	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to plasma membrane	galactosyltransferase activity			upper_aerodigestive_tract(1)	1						CAGACACTGCCGCCACTTTCC	0.642													14	9	---	---	---	---	PASS	T	17918884	T	T	17918884	3	4	80	1	0	0	0	0	1	0	0	0	1258	652	23	1	270	1	B3GNT3	19	17918884	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	6804837	17918884	41210099	331	30606										
TMEM59L	25789	broad.mit.edu	37	chr19	18726810	18726810	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggtcctggaggctccaagtgGggccctctccctcttggact	13	14	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:18726810G>T	uc002njy.3	+	4	521	c.434G>T	c.(433-435)GGG>GTG	p.G145V	TMEM59L_uc010ebu.1_Missense_Mutation_p.G145V	NM_012109	NP_036241	Q9UK28	TM59L_HUMAN	brain-specific membrane-anchored protein	145						Golgi membrane|integral to membrane|membrane fraction				ovary(2)|skin(2)	4						GCTCCAAGTGGGGCCCTCTCC	0.493													147	111	---	---	---	---	PASS	T	18726810	T	T	18726810	3	4	80	1	0	0	0	0	1	0	0	0	16183	1232	43	3	448	3	TMEM59L	19	18726810	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	807926	18726810	40402173	332	30607										
ZNF93	81931	broad.mit.edu	37	chr19	20044388	20044388	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atttgtgaagaatgtggcaaAgcctttaagtactcctctgc	9	8	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:20044388A>T	uc002non.2	+	4	735	c.624A>T	c.(622-624)AAA>AAT	p.K208N		NM_031218	NP_112495	P35789	ZNF93_HUMAN	zinc finger protein 93	208	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1						AATGTGGCAAAGCCTTTAAGT	0.373													40	26	---	---	---	---	PASS	T	20044388	T	T	20044388	3	4	80	1	0	0	0	0	1	0	0	0	18199	69	3	5	638	5	ZNF93	19	20044388	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	1317578	20044388	39084595	333	30608										
SBSN	374897	broad.mit.edu	37	chr19	36017741	36017741	+	Frame_Shift_Del	DEL	G	-	-													0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccagcctggtggaccccagtGtggaacccttggaccgcttt							TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:36017741delG	uc002oae.1	-	2	484	c.414delC	c.(412-414)CACfs	p.H138fs	SBSN_uc002oad.1_Frame_Shift_Del_p.H481fs	NM_198538	NP_940940	Q6UWP8	SBSN_HUMAN	suprabasin isoform 2 precursor	138	Ala/Gly/His-rich.					extracellular region				ovary(1)	1	all_lung(56;1.62e-08)|Lung NSC(56;2.47e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GGACCCCAGTGTGGAACCCTT	0.597													39	47	---	---	---	---		-	36017741	-	-	36017741	7	5	80	1	0	1	0	1	0	0	0	0	13864	1368	48	0	345	0	SBSN	19	36017741	Frame_Shift_Del	DEL	G	TCGA-37-4141-01A-02D-1352-08	15973353	36017741	23111242	334	30609										
SHKBP1	92799	broad.mit.edu	37	chr19	41086391	41086391	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aaacccctccctcaccctcaGgtacgtttctatctcgtgga	6	16	4	0	rs145900196		TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:41086391G>A	uc002oob.2	+	7	611	c.562G>A	c.(562-564)GGA>AGA	p.G188R	SHKBP1_uc002ooc.2_Missense_Mutation_p.G188R|SHKBP1_uc002ood.2_Missense_Mutation_p.G188R|SHKBP1_uc010xvl.1_Missense_Mutation_p.G111R|SHKBP1_uc002ooe.2_Missense_Mutation_p.G25R|SHKBP1_uc002oof.2_Missense_Mutation_p.G25R|SHKBP1_uc010xvm.1_Missense_Mutation_p.G25R|SHKBP1_uc010xvn.1_Missense_Mutation_p.G66R	NM_138392	NP_612401	Q8TBC3	SHKB1_HUMAN	SH3KBP1 binding protein 1	188						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|pancreas(1)	2			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CTCACCCTCAGGTACGTTTCT	0.617													33	56	---	---	---	---	PASS	A	41086391	A	A	41086391	3	1	80	1	0	0	0	0	1	0	0	0	14284	1014	35	3	588	3	SHKBP1	19	41086391	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	5068650	41086391	18042592	335	30610										
DMRTC2	63946	broad.mit.edu	37	chr19	42353006	42353006	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ccagtggtgtgccgcctgctGtaccaagaacctgctgtctc	11	14	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:42353006G>C	uc002ors.2	+	5	674	c.591G>C	c.(589-591)CTG>CTC	p.L197L	DMRTC2_uc002orr.1_Silent_p.L74L|DMRTC2_uc010xwe.1_Silent_p.L197L	NM_001040283	NP_001035373	Q8IXT2	DMRTD_HUMAN	DMRT-like family C2	197	Pro-rich.				cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0						GCCGCCTGCTGTACCAAGAAC	0.468													78	60	---	---	---	---	PASS	C	42353006	C	C	42353006	2	2	80	1	0	0	0	0	0	0	0	1	4591	1364	48	4		4	DMRTC2	19	42353006	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	1266615	42353006	16775977	336	30611										
PSG9	5678	broad.mit.edu	37	chr19	43762597	43762597	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgaagggtaaattctggggaGgtctggaccatctggaggaa	16	5	3	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:43762597G>T	uc002owd.3	-	5	1099	c.1000C>A	c.(1000-1002)CTC>ATC	p.L334I	PSG9_uc002owe.3_Missense_Mutation_p.L241I|PSG9_uc010xwm.1_Missense_Mutation_p.L241I|PSG9_uc002owf.3_Missense_Mutation_p.L148I|PSG9_uc002owg.2_Missense_Mutation_p.L241I|PSG9_uc002owh.2_Missense_Mutation_p.L148I	NM_002784	NP_002775	Q00887	PSG9_HUMAN	pregnancy specific beta-1-glycoprotein 9	334					female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				ATTCTGGGGAGGTCTGGACCA	0.493													213	91	---	---	---	---	PASS	T	43762597	T	T	43762597	3	4	80	1	0	0	0	0	1	0	0	0	12662	1000	35	3	288	3	PSG9	19	43762597	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	1409591	43762597	15366386	337	30612										
ZNF284	342909	broad.mit.edu	37	chr19	44590676	44590676	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tatacaaatgtgaagaatgtGgaaggagcttcacttgtagg	12	4	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:44590676G>A	uc002oyg.1	+	5	1261	c.1045G>A	c.(1045-1047)GGA>AGA	p.G349R	ZNF284_uc010ejd.2_RNA	NM_001037813	NP_001032902	Q2VY69	ZN284_HUMAN	zinc finger protein 284	349	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				TGAAGAATGTGGAAGGAGCTT	0.398													85	54	---	---	---	---	PASS	A	44590676	A	A	44590676	3	1	80	1	0	0	0	0	1	0	0	0	17818	1349	47	3	1059	3	ZNF284	19	44590676	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	828079	44590676	14538307	338	30613										
ZNF611	81856	broad.mit.edu	37	chr19	53210037	53210037	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtgatgactttcatgtctttGcaatgtccctgtgtggatca	10	8	3	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:53210037G>C	uc002pzz.2	-	7	588	c.271C>G	c.(271-273)CAA>GAA	p.Q91E	ZNF611_uc010eqc.2_Missense_Mutation_p.Q21E|ZNF611_uc010ydo.1_Missense_Mutation_p.Q21E|ZNF611_uc010ydr.1_Missense_Mutation_p.Q22E|ZNF611_uc010ydp.1_Missense_Mutation_p.Q91E|ZNF611_uc010ydq.1_Missense_Mutation_p.Q91E|ZNF611_uc002qaa.3_Missense_Mutation_p.Q21E	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	91	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		TCATGTCTTTGCAATGTCCCT	0.378													310	203	---	---	---	---	PASS	C	53210037	C	C	53210037	3	2	80	1	0	0	0	0	1	0	0	0	18034	1328	46	4	1850	4	ZNF611	19	53210037	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	8619361	53210037	5918946	339	30614										
LILRA1	11024	broad.mit.edu	37	chr19	55107869	55107869	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtcctgtgacctcagcccacTcggggacctacaggtgctac	11	15	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:55107869T>A	uc002qgh.1	+	7	1356	c.1174T>A	c.(1174-1176)TCG>ACG	p.S392T	LILRA2_uc010yfg.1_Missense_Mutation_p.S390T|LILRA1_uc010yfh.1_Missense_Mutation_p.S392T	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	392	Ig-like C2-type 4.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		CTCAGCCCACTCGGGGACCTA	0.587													159	86	---	---	---	---	PASS	A	55107869	A	A	55107869	3	1	80	1	0	0	0	0	1	0	0	0	8784	1551	54	5	1196	5	LILRA1	19	55107869	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	1897832	55107869	4021114	340	30615										
ZSCAN5A	79149	broad.mit.edu	37	chr19	56733262	56733262	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctaataagctgcatgaagcgCttcccacagagattacattg	8	10	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:56733262C>A	uc002qmq.2	-	5	1339	c.1173G>T	c.(1171-1173)AAG>AAT	p.K391N	ZSCAN5A_uc010ygi.1_Missense_Mutation_p.K274N|ZSCAN5A_uc002qmr.2_Missense_Mutation_p.K391N|ZSCAN5A_uc002qms.1_Missense_Mutation_p.K390N	NM_024303	NP_077279	Q9BUG6	ZSA5A_HUMAN	zinc finger and SCAN domain containing 5A	391	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						GCATGAAGCGCTTCCCACAGA	0.507													35	23	---	---	---	---	PASS	A	56733262	A	A	56733262	3	1	80	1	0	0	0	0	1	0	0	0	18235	796	28	3	321	3	ZSCAN5A	19	56733262	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	1625393	56733262	2395721	341	30616										
ZSCAN1	284312	broad.mit.edu	37	chr19	58565155	58565155	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cgcgaggaagggccctttccGtgccccgagtgtggcaaggt	16	12	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:58565155G>A	uc002qrc.1	+	6	1210	c.963G>A	c.(961-963)CCG>CCA	p.P321P		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	321	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		GGCCCTTTCCGTGCCCCGAGT	0.627													64	30	---	---	---	---	PASS	A	58565155	A	A	58565155	2	1	80	1	0	0	0	0	0	0	0	1	18223	1132	40	1		1	ZSCAN1	19	58565155	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	1831893	58565155	563828	342	30617										
ZNF135	7694	broad.mit.edu	37	chr19	58579304	58579304	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agcacacacctcacccaacaCcagcgaatccacacagggga	7	17	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr19:58579304C>A	uc010yhq.1	+	5	1584	c.1488C>A	c.(1486-1488)CAC>CAA	p.H496Q	ZNF135_uc002qre.2_Missense_Mutation_p.H484Q|ZNF135_uc002qrd.1_Intron|ZNF135_uc002qrf.2_Missense_Mutation_p.H442Q|ZNF135_uc002qrg.2_Missense_Mutation_p.H454Q|ZNF135_uc010yhr.1_Missense_Mutation_p.H305Q	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	496					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		TCACCCAACACCAGCGAATCC	0.567													72	46	---	---	---	---	PASS	A	58579304	A	A	58579304	3	1	80	1	0	0	0	0	1	0	0	0	17722	506	18	3	1655	3	ZNF135	19	58579304	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	14149	58579304	549679	343	30618										
TGM6	343641	broad.mit.edu	37	chr20	2380260	2380260	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggacagtggcagggcaagtaCggcggcggcaccagcccgct	17	13	0	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:2380260C>A	uc002wfy.1	+	6	787	c.726C>A	c.(724-726)TAC>TAA	p.Y242*	TGM6_uc010gal.1_Nonsense_Mutation_p.Y242*	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	242					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	AGGGCAAGTACGGCGGCGGCA	0.652													38	82	---	---	---	---	PASS	A	2380260	A	A	2380260	4	1	80	1	0	0	0	0	0	1	0	0	15831	547	19	1	748	1	TGM6	20	2380260	Nonsense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08		2380260	60645260	344	30619										
C20orf94	128710	broad.mit.edu	37	chr20	10603960	10603960	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aaccggcttagccacaaacaCtgaaagattatctacaattc	5	11	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:10603960C>G	uc010zre.1	+	8	1340	c.1160C>G	c.(1159-1161)ACT>AGT	p.T387S		NM_001009608	NP_001009608	Q5VYV7	CT094_HUMAN	hypothetical protein LOC128710	387							protein binding				0						GCCACAAACACTGAAAGATTA	0.433													61	118	---	---	---	---	PASS	G	10603960	G	G	10603960	3	3	80	1	0	0	0	0	1	0	0	0	2121	565	20	4	1186	4	C20orf94	20	10603960	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	8223700	10603960	52421560	345	30620										
SSTR4	6754	broad.mit.edu	37	chr20	23016993	23016993	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtgaccagccttgatgccacCgtcaaccacgtgtcccttat	8	15	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:23016993C>T	uc002wsr.2	+	1	937	c.873C>T	c.(871-873)ACC>ACT	p.T291T		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	291	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					TTGATGCCACCGTCAACCACG	0.572													39	157	---	---	---	---	PASS	T	23016993	T	T	23016993	2	4	80	1	0	0	0	0	0	0	0	1	15199	639	23	1		1	SSTR4	20	23016993	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	12413033	23016993	40008527	346	30621										
CST5	1473	broad.mit.edu	37	chr20	23858245	23858245	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cattgaagtagtagttcaccCcacccacgatctacacgcgt	7	14	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:23858245C>T	uc002wtr.1	-	2	309	c.242G>A	c.(241-243)GGG>GAG	p.G81E		NM_001900	NP_001891	P28325	CYTD_HUMAN	cystatin D precursor	81						extracellular region	cysteine-type endopeptidase inhibitor activity|protein binding				0						GTAGTTCACCCCACCCACGAT	0.527													96	137	---	---	---	---	PASS	T	23858245	T	T	23858245	3	4	80	1	0	0	0	0	1	0	0	0	3975	623	22	3	194	3	CST5	20	23858245	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	841252	23858245	39167275	347	30622										
TMEM90B	79953	broad.mit.edu	37	chr20	24646078	24646078	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgtccatcaccattgggactGgcgtctatgtgggcgtggcc	14	11	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:24646078G>A	uc002wtw.1	+	4	1348	c.715G>A	c.(715-717)GGC>AGC	p.G239S		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	239					response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						CATTGGGACTGGCGTCTATGT	0.647													91	194	---	---	---	---	PASS	A	24646078	A	A	24646078	3	1	80	1	0	0	0	0	1	0	0	0	16216	1348	47	3	725	3	TMEM90B	20	24646078	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	787833	24646078	38379442	348	30623										
DNMT3B	1789	broad.mit.edu	37	chr20	31394017	31394017	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgtcattttgttctccagttAaagaaagtacagacaataac	6	7	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:31394017A>G	uc002wyc.2	+	22	2625	c.2304A>G	c.(2302-2304)TTA>TTG	p.L768L	DNMT3B_uc002wyd.2_Silent_p.L748L|DNMT3B_uc002wye.2_Intron|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_Intron|DNMT3B_uc010ztz.1_Intron|DNMT3B_uc010zua.1_Intron|DNMT3B_uc002wyf.2_Silent_p.L760L|DNMT3B_uc002wyg.2_Intron|DNMT3B_uc010geg.2_Intron|DNMT3B_uc010geh.2_RNA	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	768					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						TTCTCCAGTTAAAGAAAGTAC	0.453													90	124	---	---	---	---	PASS	G	31394017	G	G	31394017	2	3	80	1	0	0	0	0	0	0	0	1	4677	359	13	5		5	DNMT3B	20	31394017	Silent	SNP	A	TCGA-37-4141-01A-02D-1352-08	6747939	31394017	31631503	349	30624										
CTNNBL1	56259	broad.mit.edu	37	chr20	36500353	36500353	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cagagaacatcggggacggcCggagcccggagttccgggag	18	11	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:36500353C>T	uc010zvw.1	+	17	1721	c.1630C>T	c.(1630-1632)CGG>TGG	p.R544W	CTNNBL1_uc002xhh.2_Missense_Mutation_p.R357W|CTNNBL1_uc002xhi.2_RNA|CTNNBL1_uc002xhj.2_Missense_Mutation_p.R292W	NM_030877	NP_110517	Q8WYA6	CTBL1_HUMAN	beta catenin-like 1	544					apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)				CGGGGACGGCCGGAGCCCGGA	0.587													55	119	---	---	---	---	PASS	T	36500353	T	T	36500353	3	4	80	1	0	0	0	0	1	0	0	0	4018	643	23	1	1692	1	CTNNBL1	20	36500353	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	5106336	36500353	26525167	350	30625										
SGK2	10110	broad.mit.edu	37	chr20	42196603	42196603	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggggcgttctatgcagtgaaGgtactacagaaaaagtccat	12	7	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:42196603G>T	uc002xkv.2	+	4	591	c.372G>T	c.(370-372)AAG>AAT	p.K124N	SGK2_uc002xkt.2_RNA|SGK2_uc002xkr.2_Missense_Mutation_p.K64N|SGK2_uc010ggm.2_Missense_Mutation_p.K64N|SGK2_uc002xks.2_Missense_Mutation_p.K64N|SGK2_uc002xku.2_Missense_Mutation_p.K64N|SGK2_uc002xkq.1_Missense_Mutation_p.K64N	NM_016276	NP_057360	Q9HBY8	SGK2_HUMAN	serum/glucocorticoid regulated kinase 2 isoform	124	Protein kinase.	ATP (By similarity).			intracellular protein kinase cascade|response to oxidative stress		ATP binding|potassium channel regulator activity|protein serine/threonine kinase activity|sodium channel regulator activity			lung(3)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	6		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			ATGCAGTGAAGGTACTACAGA	0.493													82	153	---	---	---	---	PASS	T	42196603	T	T	42196603	3	4	80	1	0	0	0	0	1	0	0	0	14209	991	35	3	386	3	SGK2	20	42196603	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	5696250	42196603	20828917	351	30626										
JPH2	57158	broad.mit.edu	37	chr20	42744475	42744475	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggcgggggtctcgcgtgcagGctcggggcctcggagcgtgg	22	11	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:42744475G>T	uc002xli.1	-	4	2713	c.1840C>A	c.(1840-1842)CCT>ACT	p.P614T		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	614	Pro-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			TCGCGTGCAGGCTCGGGGCCT	0.731													8	14	---	---	---	---	PASS	T	42744475	T	T	42744475	3	4	80	1	0	0	0	0	1	0	0	0	7961	1203	42	3	258	3	JPH2	20	42744475	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	547872	42744475	20281045	352	30627										
SULF2	55959	broad.mit.edu	37	chr20	46313280	46313280	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	atgggccccgtgtagcgcatGatccagtgtttgtccgggtt	14	10	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:46313280G>T	uc002xto.2	-	6	1113	c.783C>A	c.(781-783)ATC>ATA	p.I261I	SULF2_uc002xtr.2_Silent_p.I261I|SULF2_uc002xtq.2_Silent_p.I261I	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	261					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						TGTAGCGCATGATCCAGTGTT	0.602													29	45	---	---	---	---	PASS	T	46313280	T	T	46313280	2	4	80	1	0	0	0	0	0	0	0	1	15370	1280	45	2		2	SULF2	20	46313280	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	3568805	46313280	16712240	353	30628										
PREX1	57580	broad.mit.edu	37	chr20	47259002	47259002	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcctgcttgtcagatgggatCcgcatgtcacagggcagctc	12	12	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:47259002C>T	uc002xtw.1	-	28	3650	c.3627G>A	c.(3625-3627)CGG>CGA	p.R1209R	PREX1_uc002xtv.1_Silent_p.R506R	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1209					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			CAGATGGGATCCGCATGTCAC	0.572													25	71	---	---	---	---	PASS	T	47259002	T	T	47259002	2	4	80	1	0	0	0	0	0	0	0	1	12476	842	30	2		2	PREX1	20	47259002	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	945722	47259002	15766518	354	30629										
PREX1	57580	broad.mit.edu	37	chr20	47269240	47269240	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgtggtagatccactggtacAggccctgccagaagccagag	13	11	0	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:47269240A>T	uc002xtw.1	-	21	2374	c.2351T>A	c.(2350-2352)CTG>CAG	p.L784Q	PREX1_uc002xtv.1_Missense_Mutation_p.L81Q	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	784					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			CCACTGGTACAGGCCCTGCCA	0.647													20	45	---	---	---	---	PASS	T	47269240	T	T	47269240	3	4	80	1	0	0	0	0	1	0	0	0	12476	188	7	5	2708	5	PREX1	20	47269240	Missense_Mutation	SNP	A	TCGA-37-4141-01A-02D-1352-08	10238	47269240	15756280	355	30630										
SNAI1	6615	broad.mit.edu	37	chr20	48600469	48600469	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	aatgctcatctgggactctgTcctggcgccccaagcccagc	10	16	3	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:48600469T>A	uc002xuz.2	+	2	261	c.191T>A	c.(190-192)GTC>GAC	p.V64D		NM_005985	NP_005976	O95863	SNAI1_HUMAN	snail 1 homolog	64					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)			TGGGACTCTGTCCTGGCGCCC	0.657													43	77	---	---	---	---	PASS	A	48600469	A	A	48600469	3	1	80	1	0	0	0	0	1	0	0	0	14826	1667	58	5	197	5	SNAI1	20	48600469	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	1331229	48600469	14425051	356	30631										
PPP1R3D	5509	broad.mit.edu	37	chr20	58514404	58514404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctcgaaggccacgttgcacaCgcgcaccgtaccgctgatgc	11	16	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr20:58514404C>A	uc002ybb.2	-	1	949	c.583G>T	c.(583-585)GTG>TTG	p.V195L	C20orf177_uc002yba.2_Intron|C20orf177_uc010zzx.1_5'Flank|C20orf177_uc002ybc.2_5'Flank	NM_006242	NP_006233	O95685	PPR3D_HUMAN	protein phosphatase 1, regulatory subunit 3D	195	CBM21.				glycogen metabolic process		protein binding|protein serine/threonine phosphatase activity				0	all_lung(29;0.00391)		BRCA - Breast invasive adenocarcinoma(7;5.12e-09)			ACGTTGCACACGCGCACCGTA	0.701													18	27	---	---	---	---	PASS	A	58514404	A	A	58514404	3	1	80	1	0	0	0	0	1	0	0	0	12374	536	19	1	320	1	PPP1R3D	20	58514404	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	9913935	58514404	4511116	357	30632										
ADAMTS5	11096	broad.mit.edu	37	chr21	28315775	28315775	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ttagatgcatcaatgctggtAaggatggaagacattaagcg	12	5	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr21:28315775A>T	uc002ymg.2	-	3	2058	c.1329T>A	c.(1327-1329)CTT>CTA	p.L443L		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	443	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CAATGCTGGTAAGGATGGAAG	0.453													34	75	---	---	---	---	PASS	T	28315775	T	T	28315775	2	4	80	1	0	0	0	0	0	0	0	1	269	349	13	5		5	ADAMTS5	21	28315775	Silent	SNP	A	TCGA-37-4141-01A-02D-1352-08		28315775	19814120	358	30633										
KRTAP24-1	643803	broad.mit.edu	37	chr21	31654547	31654547	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcagaggtggaaaggtactgGgtatatagctcagagatctg	14	5	3	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr21:31654547G>T	uc002ynv.2	-	1	730	c.704C>A	c.(703-705)CCC>CAC	p.P235H		NM_001085455	NP_001078924	Q3LI83	KR241_HUMAN	keratin associated protein 24-1	235	6 X 10 AA repeats of Y-[ILR]-[SVPC]- [NRTS]-[SNTG]-X-[QHRP]-[PSY]-[QSL]-[SRK].|5.					keratin filament	structural molecule activity				0						AAAGGTACTGGGTATATAGCT	0.428													97	168	---	---	---	---	PASS	T	31654547	T	T	31654547	3	4	80	1	0	0	0	0	1	0	0	0	8542	1232	43	3	64	3	KRTAP24-1	21	31654547	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	3338772	31654547	16475348	359	30634										
CHAF1B	8208	broad.mit.edu	37	chr21	37763859	37763859	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	caccctgcagatgctgtcatCctattgtggaaggtgaatga	11	9	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr21:37763859C>A	uc002yvj.2	+	4	408	c.270C>A	c.(268-270)ATC>ATA	p.I90I		NM_005441	NP_005432	Q13112	CAF1B_HUMAN	chromatin assembly factor 1 subunit B	90	WD 2.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|cytoplasm	chromatin binding|histone binding|unfolded protein binding			ovary(1)|skin(1)	2						ATGCTGTCATCCTATTGTGGA	0.418													26	73	---	---	---	---	PASS	A	37763859	A	A	37763859	2	1	80	1	0	0	0	0	0	0	0	1	3312	845	30	2		2	CHAF1B	21	37763859	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	6109312	37763859	10366036	360	30635										
XKR3	150165	broad.mit.edu	37	chr22	17288960	17288960	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	catctcttcaaacactgtctCcattctcagggtgctgctaa	6	13	4	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr22:17288960C>A	uc002zlv.2	-	2	102	c.4G>T	c.(4-6)GAG>TAG	p.E2*	XKR3_uc011agf.1_Nonsense_Mutation_p.E2*	NM_175878	NP_787074	Q5GH77	XKR3_HUMAN	X Kell blood group precursor-related family,	2						integral to membrane|plasma membrane				large_intestine(1)|ovary(1)|skin(1)	3	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				AACACTGTCTCCATTCTCAGG	0.383													83	164	---	---	---	---	PASS	A	17288960	A	A	17288960	4	1	80	1	0	0	0	0	0	1	0	0	17429	864	30	2	1387	2	XKR3	22	17288960	Nonsense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08		17288960	34015606	361	30636										
MICAL3	57553	broad.mit.edu	37	chr22	18300435	18300435	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tcctcgctggtggcttcatgCttcagggtgggctcctcgga	14	12	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr22:18300435C>T	uc002zng.3	-	26	5345	c.4992G>A	c.(4990-4992)AAG>AAA	p.K1664K	MICAL3_uc011agl.1_Silent_p.K1580K|MICAL3_uc010gre.1_5'Flank	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	1664						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		TGGCTTCATGCTTCAGGGTGG	0.682													13	17	---	---	---	---	PASS	T	18300435	T	T	18300435	2	4	80	1	0	0	0	0	0	0	0	1	9571	796	28	3		3	MICAL3	22	18300435	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	1011475	18300435	33004131	362	30637										
SEZ6L	23544	broad.mit.edu	37	chr22	26701973	26701973	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ggaggggcagtgcacaatgcCaccatcggccgcgtcctctc	13	15	1	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr22:26701973C>T	uc003acb.2	+	6	1533	c.1377C>T	c.(1375-1377)GCC>GCT	p.A459A	SEZ6L_uc003acc.2_Silent_p.A459A|SEZ6L_uc011akc.1_Silent_p.A459A|SEZ6L_uc003acd.2_Silent_p.A459A|SEZ6L_uc011akd.1_Silent_p.A459A|SEZ6L_uc003ace.2_Silent_p.A459A|SEZ6L_uc003acf.1_Silent_p.A232A|SEZ6L_uc010gvc.1_Silent_p.A232A	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	459	CUB 2.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						TGCACAATGCCACCATCGGCC	0.458													32	70	---	---	---	---	PASS	T	26701973	T	T	26701973	2	4	80	1	0	0	0	0	0	0	0	1	14143	581	21	3		3	SEZ6L	22	26701973	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	8401538	26701973	24602593	363	30638										
EFCAB6	64800	broad.mit.edu	37	chr22	43950942	43950942	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgggagaggtaggcggcgggCctttgggcattttctcagcc	17	9	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chr22:43950942C>T	uc003bdy.1	-	27	3670	c.3455G>A	c.(3454-3456)GGC>GAC	p.G1152D	EFCAB6_uc003bdz.1_Missense_Mutation_p.G1000D|EFCAB6_uc010gzi.1_Missense_Mutation_p.G1000D|EFCAB6_uc010gzj.1_Missense_Mutation_p.G378D	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1152					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				AGGCGGCGGGCCTTTGGGCAT	0.532													71	41	---	---	---	---	PASS	T	43950942	T	T	43950942	3	4	80	1	0	0	0	0	1	0	0	0	4939	739	26	3	1074	3	EFCAB6	22	43950942	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	17248969	43950942	7353624	364	30639										
KLHL34	257240	broad.mit.edu	37	chrX	21675117	21675117	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gccctgcatgagcggctggcGggagggcgtcgtgtggtagt	20	9	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:21675117G>A	uc004czz.1	-	1	1332	c.790C>T	c.(790-792)CGC>TGC	p.R264C		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	264										ovary(1)	1						AGCGGCTGGCGGGAGGGCGTC	0.692													12	7	---	---	---	---	PASS	A	21675117	A	A	21675117	3	1	80	1	0	0	0	0	1	0	0	0	8387	1116	39	1	1148	1	KLHL34	23	21675117	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08		21675117	133595443	365	30640										
MAGEB4	4115	broad.mit.edu	37	chrX	30260892	30260892	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgatcttcttaaatggcaacTgtgcccgtgaagaggaaatc	10	8	2	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:30260892T>A	uc004dcb.2	+	1	724	c.640T>A	c.(640-642)TGT>AGT	p.C214S	MAGEB1_uc004dcc.2_5'Flank|MAGEB1_uc004dcd.2_5'Flank	NM_002367	NP_002358	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	214	MAGE.									ovary(1)	1						AAATGGCAACTGTGCCCGTGA	0.507													99	58	---	---	---	---	PASS	A	30260892	A	A	30260892	3	1	80	1	0	0	0	0	1	0	0	0	9178	1580	55	5	642	5	MAGEB4	23	30260892	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	8585775	30260892	125009668	366	30641										
TMEM47	83604	broad.mit.edu	37	chrX	34657478	34657478	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gatggcagcgccgcccaggaGtaaagccagagtagcaatct	13	11	1	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:34657478G>A	uc004ddh.2	-	2	512	c.253C>T	c.(253-255)CTC>TTC	p.L85F	TMEM47_uc010ngs.2_RNA	NM_031442	NP_113630	Q9BQJ4	TMM47_HUMAN	transmembrane protein 47	85	Helical; (Potential).					integral to membrane				lung(1)	1						CCGCCCAGGAGTAAAGCCAGA	0.448													13	10	---	---	---	---	PASS	A	34657478	A	A	34657478	3	1	80	1	0	0	0	0	1	0	0	0	16168	1029	36	3	300	3	TMEM47	23	34657478	Missense_Mutation	SNP	G	TCGA-37-4141-01A-02D-1352-08	4396586	34657478	120613082	367	30642										
IQSEC2	23096	broad.mit.edu	37	chrX	53277929	53277929	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acgtctctgttgaactgcttCtgccggttccctaggaattc	9	12	2	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:53277929C>A	uc004dsd.2	-	6	2634	c.2433G>T	c.(2431-2433)CAG>CAT	p.Q811H	IQSEC2_uc004dsc.2_Missense_Mutation_p.Q606H	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	801	SEC7.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						TGAACTGCTTCTGCCGGTTCC	0.607													5	127	---	---	---	---	PASS	A	53277929	A	A	53277929	3	1	80	1	0	0	0	0	1	0	0	0	7818	912	32	2	2073	2	IQSEC2	23	53277929	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	18620451	53277929	101992631	368	30643										
GDPD2	54857	broad.mit.edu	37	chrX	69647202	69647202	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	ctcatgcatgatgagcacctCagcaggaccacgaatgtagc	10	12	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:69647202C>A	uc004dyh.2	+	10	1076	c.825C>A	c.(823-825)CTC>CTA	p.L275L	GDPD2_uc010nkx.1_Intron|GDPD2_uc010nky.1_Silent_p.L61L|GDPD2_uc011mpk.1_Silent_p.L275L|GDPD2_uc011mpl.1_Silent_p.L196L|GDPD2_uc011mpm.1_Silent_p.L196L	NM_017711	NP_060181	Q9HCC8	GDPD2_HUMAN	osteoblast differentiation promoting factor	275	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol inositolphosphodiesterase activity|metal ion binding			ovary(2)	2	Renal(35;0.156)					ATGAGCACCTCAGCAGGACCA	0.567													59	28	---	---	---	---	PASS	A	69647202	A	A	69647202	2	1	80	1	0	0	0	0	0	0	0	1	6324	813	29	2		2	GDPD2	23	69647202	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	16369273	69647202	85623358	369	30644										
ATRX	546	broad.mit.edu	37	chrX	76937345	76937345	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	acttaaatttcttctttcccTcaattctattcttttcagtc	1	11	6	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:76937345T>A	uc004ecp.3	-	9	3635	c.3403A>T	c.(3403-3405)AGG>TGG	p.R1135W	ATRX_uc004ecq.3_Missense_Mutation_p.R1097W|ATRX_uc004eco.3_Missense_Mutation_p.R920W|ATRX_uc004ecr.2_Missense_Mutation_p.R1067W|ATRX_uc010nlx.1_Missense_Mutation_p.R1106W|ATRX_uc010nly.1_Missense_Mutation_p.R1080W	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1135					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	CTTCTTTCCCTCAATTCTATT	0.323			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						146	72	---	---	---	---	PASS	A	76937345	A	A	76937345	3	1	80	1	0	0	0	0	1	0	0	0	1208	1550	54	5	4183	5	ATRX	23	76937345	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	7290143	76937345	78333215	370	30645										
BRWD3	254065	broad.mit.edu	37	chrX	79999572	79999572	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	tgaatggccctgaaggactgCaacgggtgcacaagttcgaa	13	9	0	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:79999572C>A	uc004edt.2	-	8	1035	c.772G>T	c.(772-774)GCA>TCA	p.A258S	BRWD3_uc004edo.2_5'UTR|BRWD3_uc004edp.2_Missense_Mutation_p.A87S|BRWD3_uc004edq.2_5'UTR|BRWD3_uc010nmj.1_5'UTR|BRWD3_uc004edr.2_5'UTR|BRWD3_uc004eds.2_5'UTR|BRWD3_uc004edu.2_5'UTR|BRWD3_uc004edv.2_5'UTR|BRWD3_uc004edw.2_5'UTR|BRWD3_uc004edx.2_5'UTR|BRWD3_uc004edy.2_5'UTR|BRWD3_uc004edz.2_5'UTR|BRWD3_uc004eea.2_5'UTR|BRWD3_uc004eeb.2_Intron	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	258	WD 3.									ovary(4)	4						TGAAGGACTGCAACGGGTGCA	0.388													98	92	---	---	---	---	PASS	A	79999572	A	A	79999572	3	1	80	1	0	0	0	0	1	0	0	0	1526	710	25	3	4772	3	BRWD3	23	79999572	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	3062227	79999572	75270988	371	30646										
PCDH11X	27328	broad.mit.edu	37	chrX	91134266	91134266	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gtacctgtgtccgtacacacCagaccggtaggtatccaagt	10	12	0	1			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:91134266C>G	uc004efk.1	+	2	3872	c.3027C>G	c.(3025-3027)ACC>ACG	p.T1009T	PCDH11X_uc004efl.1_Silent_p.T1009T|PCDH11X_uc004efo.1_Silent_p.T1009T|PCDH11X_uc010nmv.1_Silent_p.T1009T|PCDH11X_uc004efm.1_Silent_p.T1009T|PCDH11X_uc004efn.1_Silent_p.T1009T|PCDH11X_uc004efh.1_Silent_p.T1009T|PCDH11X_uc004efj.1_Silent_p.T1009T	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1009	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CCGTACACACCAGACCGGTAG	0.398													128	130	---	---	---	---	PASS	G	91134266	G	G	91134266	2	3	80	1	0	0	0	0	0	0	0	1	11508	581	21	4		4	PCDH11X	23	91134266	Silent	SNP	C	TCGA-37-4141-01A-02D-1352-08	11134694	91134266	64136294	372	30647										
TMEM164	84187	broad.mit.edu	37	chrX	109388078	109388078	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gcatgttatgctctacgtggTacccatctacctgctttgga	9	11	2	0			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:109388078T>C	uc004eom.2	+	5	879	c.560T>C	c.(559-561)GTA>GCA	p.V187A	TMEM164_uc004eol.2_Missense_Mutation_p.V38A|TMEM164_uc010npq.2_Missense_Mutation_p.V148A	NM_032227	NP_115603	Q5U3C3	TM164_HUMAN	transmembrane protein 164 isoform b	187	Helical; (Potential).					integral to membrane				large_intestine(1)|lung(1)|skin(1)	3						CTCTACGTGGTACCCATCTAC	0.473													6	157	---	---	---	---	PASS	C	109388078	C	C	109388078	3	2	80	1	0	0	0	0	1	0	0	0	16076	1638	57	5	574	5	TMEM164	23	109388078	Missense_Mutation	SNP	T	TCGA-37-4141-01A-02D-1352-08	18253812	109388078	45882482	373	30648										
SAGE1	55511	broad.mit.edu	37	chrX	134989135	134989135	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	agaagatggaaaagggccaaCcccaacctgataacatcttg	9	10	1	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:134989135C>A	uc004ezh.2	+	8	954	c.787C>A	c.(787-789)CCC>ACC	p.P263T	SAGE1_uc010nry.1_Missense_Mutation_p.P232T|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	263										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AAAGGGCCAACCCCAACCTGA	0.463													188	133	---	---	---	---	PASS	A	134989135	A	A	134989135	3	1	80	1	0	0	0	0	1	0	0	0	13809	507	18	3	813	3	SAGE1	23	134989135	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	25601057	134989135	20281425	374	30649										
ATP11C	286410	broad.mit.edu	37	chrX	138882219	138882219	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	taaagaaacagcaaacttacCtggcaacagcctcaagacta	6	11	1	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:138882219C>G	uc004faz.2	-	8	818	c.719G>C	c.(718-720)AGG>ACG	p.R240T	ATP11C_uc004fay.2_5'Flank|ATP11C_uc004fba.2_Missense_Mutation_p.R240T	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	240	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					GCAAACTTACCTGGCAACAGC	0.353													66	40	---	---	---	---	PASS	G	138882219	G	G	138882219	3	3	80	1	0	0	0	0	1	0	0	0	1121	695	24	4	2834	4	ATP11C	23	138882219	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	3893084	138882219	16388341	375	30650										
SPANXN2	494119	broad.mit.edu	37	chrX	142795397	142795397	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	cttcgtcctcctgtgaagatCcttcagctgagtctaggcct	9	13	2	3			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:142795397C>A	uc004fbz.2	-	2	1035	c.281G>T	c.(280-282)GGA>GTA	p.G94V		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	94										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CTGTGAAGATCCTTCAGCTGA	0.502													389	319	---	---	---	---	PASS	A	142795397	A	A	142795397	3	1	80	1	0	0	0	0	1	0	0	0	14991	855	30	2	265	2	SPANXN2	23	142795397	Missense_Mutation	SNP	C	TCGA-37-4141-01A-02D-1352-08	3913178	142795397	12475163	376	30651										
GAB3	139716	broad.mit.edu	37	chrX	153940970	153940970	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510752688172043	19	0.583133170374662	1.01306944444444	1.48171929824561	0.706022988505747	0.601458808712604	0.902188213068906	0	gaccagctatcacatctggtGggtagactggggaagaaaag	14	7	2	2			TCGA-37-4141-01A-02D-1352-08	TCGA-37-4141-10A-01D-1352-08									Somatic	Phase_I	Capture				Illumina GAIIx	3d4f4555-d71a-4c7d-8667-c42dcc20c076	ce965afc-6c45-495a-aeb9-a14fb76b067e	g.chrX:153940970G>A	uc004fmj.1	-	4	648	c.600C>T	c.(598-600)CCC>CCT	p.P200P	GAB3_uc004fmk.1_Silent_p.P201P|GAB3_uc010nve.1_Silent_p.P201P|GAB3_uc004fml.1_Intron	NM_080612	NP_542179	Q8WWW8	GAB3_HUMAN	Gab3 protein isoform 2	200										ovary(1)	1	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CACATCTGGTGGGTAGACTGG	0.502													18	47	---	---	---	---	PASS	A	153940970	A	A	153940970	2	1	80	1	0	0	0	0	0	0	0	1	6150	1335	47	3		3	GAB3	23	153940970	Silent	SNP	G	TCGA-37-4141-01A-02D-1352-08	11145573	153940970	1329590	377	30652										
NOC2L	26155	broad.mit.edu	37	chr1	880525	880525	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtgctcaggggcctcagtatCcctgaggaacaagaagcaga	13	10	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:880525C>A	uc001abz.3	-	18	2114	c.2055G>T	c.(2053-2055)GGG>GGT	p.G685G	NOC2L_uc001aby.3_Silent_p.G482G|NOC2L_uc009vjq.2_Silent_p.G685G	NM_015658	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog	685	Asp/Glu-rich (acidic).					nucleolus	protein binding			ovary(1)|skin(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.86e-38)|OV - Ovarian serous cystadenocarcinoma(86;6.08e-23)|Colorectal(212;0.000161)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(365;0.000475)|Kidney(185;0.00231)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		GCCTCAGTATCCCTGAGGAAC	0.463													5	5	---	---	---	---	PASS	A	880525	A	A	880525	2	1	81	1	0	0	0	0	0	0	0	1	10513	869	30	2		2	NOC2L	1	880525	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08		880525	248370096	1	30653										
ACAP3	116983	broad.mit.edu	37	chr1	1233771	1233771	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttgagcttcttctggtagacCagctggctgttctgaatgga	12	8	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:1233771C>A	uc001aeb.2	-	12	968	c.894G>T	c.(892-894)CTG>CTT	p.L298L	ACAP3_uc001ady.2_Silent_p.L28L|ACAP3_uc001aea.2_Silent_p.L256L	NM_030649	NP_085152	Q96P50	ACAP3_HUMAN	ArfGAP with coiled-coil, ankyrin repeat and PH	298	PH.				filopodium assembly|regulation of ARF GTPase activity|signal transduction		ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding				0						TCTGGTAGACCAGCTGGCTGT	0.677													45	56	---	---	---	---	PASS	A	1233771	A	A	1233771	2	1	81	1	0	0	0	0	0	0	0	1	120	581	21	3		3	ACAP3	1	1233771	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	353246	1233771	248016850	2	30654										
CDK11B	984	broad.mit.edu	37	chr1	1647830	1647830	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccatttcccttctcttctgtCtttcccattcccggcgagct	5	17	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:1647830C>G	uc001agv.1	-	9	560	c.449G>C	c.(448-450)AGA>ACA	p.R150T	CDK11B_uc001ags.1_5'UTR|CDK11B_uc001agt.1_5'UTR|CDK11B_uc001aha.1_Missense_Mutation_p.R116T|CDK11B_uc001agw.1_Missense_Mutation_p.R105T|CDK11B_uc001agy.1_Missense_Mutation_p.R139T|CDK11B_uc001agx.1_Missense_Mutation_p.R139T|CDK11B_uc001agz.1_5'UTR|SLC35E2B_uc001ahh.3_Intron|SLC35E2_uc009vkm.1_Intron|CDK11A_uc009vkr.2_Missense_Mutation_p.R138T|CDK11A_uc009vks.2_Missense_Mutation_p.R148T|CDK11A_uc010nys.1_Missense_Mutation_p.R138T|CDK11A_uc010nyt.1_Missense_Mutation_p.R148T|CDK11A_uc010nyu.1_RNA|CDK11A_uc009vkt.1_Missense_Mutation_p.R138T|CDK11A_uc009vku.1_Missense_Mutation_p.R138T|CDK11A_uc009vkv.1_Missense_Mutation_p.R148T|CDK11A_uc001aht.1_Missense_Mutation_p.R138T|CDK11B_uc001ahu.1_Missense_Mutation_p.R138T|CDK11B_uc001ahv.1_Missense_Mutation_p.R148T|CDK11B_uc001ahw.1_Missense_Mutation_p.R148T	NM_033486	NP_277021	P21127	CD11B_HUMAN	cell division cycle 2-like 1 (PITSLRE proteins)	150	Glu-rich.				apoptosis|cell proliferation|mitosis|regulation of cell growth|regulation of mRNA processing|regulation of transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity|protein binding			skin(1)	1						TCTCTTCTGTCTTTCCCATTC	0.493													25	90	---	---	---	---	PASS	G	1647830	G	G	1647830	3	3	81	1	0	0	0	0	1	0	0	0	3127	913	32	2	1990	2	CDK11B	1	1647830	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	414059	1647830	247602791	3	30655										
LRRC47	57470	broad.mit.edu	37	chr1	3701698	3701698	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtacagcaggggccctttgaCggcacggagctcgtgggtgg	18	10	0	1	rs147533898		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:3701698C>A	uc001akx.1	-	3	1175	c.1147G>T	c.(1147-1149)GTC>TTC	p.V383F		NM_020710	NP_065761	Q8N1G4	LRC47_HUMAN	leucine rich repeat containing 47	383					translation		phenylalanine-tRNA ligase activity|RNA binding			large_intestine(1)|ovary(1)	2	all_cancers(77;0.0375)|Ovarian(185;0.0634)|all_lung(157;0.208)|Lung NSC(156;0.21)	all_epithelial(116;1.34e-16)|all_lung(118;2.53e-06)|Lung NSC(185;0.00028)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;5.49e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.43e-22)|GBM - Glioblastoma multiforme(42;3.69e-16)|Colorectal(212;1.21e-05)|COAD - Colon adenocarcinoma(227;5.87e-05)|Kidney(185;0.000367)|BRCA - Breast invasive adenocarcinoma(365;0.000704)|KIRC - Kidney renal clear cell carcinoma(229;0.00567)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		GGCCCTTTGACGGCACGGAGC	0.602													18	38	---	---	---	---	PASS	A	3701698	A	A	3701698	3	1	81	1	0	0	0	0	1	0	0	0	9004	536	19	1	624	1	LRRC47	1	3701698	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2053868	3701698	245548923	4	30656										
PHF13	148479	broad.mit.edu	37	chr1	6680350	6680350	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gggaaagcaggtggtgttccGagatgaggacagcactggca	17	7	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:6680350G>T	uc001aob.3	+	3	1000	c.629G>T	c.(628-630)CGA>CTA	p.R210L		NM_153812	NP_722519	Q86YI8	PHF13_HUMAN	PHD finger protein 13	210					cell division|chromatin modification|mitotic chromosome condensation	nucleoplasm	chromatin binding|methylated histone residue binding|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;1.46e-33)|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;1.19e-07)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000501)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|STAD - Stomach adenocarcinoma(132;0.0165)|READ - Rectum adenocarcinoma(331;0.0642)		GTGGTGTTCCGAGATGAGGAC	0.507													11	5	---	---	---	---	PASS	T	6680350	T	T	6680350	3	4	81	1	0	0	0	0	1	0	0	0	11824	1058	37	2	639	2	PHF13	1	6680350	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2978652	6680350	242570271	5	30657										
CAMTA1	23261	broad.mit.edu	37	chr1	7792569	7792569	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atggagaggaggatggccgaGatgacggggtcccagcagca	18	8	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:7792569G>C	uc001aoi.2	+	12	3183	c.2976G>C	c.(2974-2976)GAG>GAC	p.E992D	CAMTA1_uc010nzv.1_Missense_Mutation_p.E79D|CAMTA1_uc001aok.3_Missense_Mutation_p.E35D	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	992					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		GGATGGCCGAGATGACGGGGT	0.627													9	6	---	---	---	---	PASS	C	7792569	C	C	7792569	3	2	81	1	0	0	0	0	1	0	0	0	2613	933	33	2	3022	2	CAMTA1	1	7792569	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1112219	7792569	241458052	6	30658										
PLOD1	5351	broad.mit.edu	37	chr1	12027050	12027050	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctgccctccccagccctgcCcggatgtctattggttcccc	8	20	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:12027050C>G	uc001atm.2	+	16	1748	c.1657C>G	c.(1657-1659)CCG>GCG	p.P553A	PLOD1_uc010obb.1_Missense_Mutation_p.P600A	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	553					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	CCAGCCCTGCCCGGATGTCTA	0.607													16	31	---	---	---	---	PASS	G	12027050	G	G	12027050	3	3	81	1	0	0	0	0	1	0	0	0	12101	623	22	4	1719	4	PLOD1	1	12027050	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	4234481	12027050	237223571	7	30659										
TNFRSF8	943	broad.mit.edu	37	chr1	12169669	12169669	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagccggcttccccaggggtCagccctgcctgtgccagccc	13	18	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:12169669C>T	uc001atq.2	+	5	690	c.468C>T	c.(466-468)GTC>GTT	p.V156V	TNFRSF8_uc010obc.1_Silent_p.V45V	NM_001243	NP_001234	P28908	TNR8_HUMAN	tumor necrosis factor receptor superfamily,	156	Extracellular (Potential).				cellular response to mechanical stimulus|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of TRAIL biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	cytoplasm|integral to membrane|plasma membrane				skin(2)|ovary(1)|pancreas(1)|central_nervous_system(1)	5	Ovarian(185;0.249)	Lung NSC(185;8.71e-05)|all_lung(284;9.89e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)		CCCCAGGGGTCAGCCCTGCCT	0.622													11	12	---	---	---	---	PASS	T	12169669	T	T	12169669	2	4	81	1	0	0	0	0	0	0	0	1	16296	813	29	2		2	TNFRSF8	1	12169669	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	142619	12169669	237080952	8	30660										
SPEN	23013	broad.mit.edu	37	chr1	16259408	16259408	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccatcggctccatcatcaatGacatttctggggagccagaa	9	12	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:16259408G>A	uc001axk.1	+	11	6877	c.6673G>A	c.(6673-6675)GAC>AAC	p.D2225N	SPEN_uc010obp.1_Missense_Mutation_p.D2184N	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2225	RID.|Interaction with MSX2 (By similarity).				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CATCATCAATGACATTTCTGG	0.597													33	34	---	---	---	---	PASS	A	16259408	A	A	16259408	3	1	81	1	0	0	0	0	1	0	0	0	15037	1290	45	2	6715	2	SPEN	1	16259408	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4089739	16259408	232991213	9	30661										
MFAP2	4237	broad.mit.edu	37	chr1	17302211	17302211	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaggcgggtgcacgggtactGttcctcacggcagtctggtg	17	10	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:17302211G>T	uc001azw.2	-	7	434	c.301C>A	c.(301-303)CAG>AAG	p.Q101K	MFAP2_uc001azx.2_Missense_Mutation_p.Q100K|MFAP2_uc001azy.2_Missense_Mutation_p.Q101K|MFAP2_uc010ocl.1_Missense_Mutation_p.Q100K	NM_002403	NP_002394	P55001	MFAP2_HUMAN	microfibrillar-associated protein 2 isoform a	101						microfibril					0		Colorectal(325;3.46e-05)|Breast(348;0.000118)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000538)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|COAD - Colon adenocarcinoma(227;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;3.04e-05)|Kidney(64;0.000377)|KIRC - Kidney renal clear cell carcinoma(64;0.00544)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		CACGGGTACTGTTCCTCACGG	0.627													3	4	---	---	---	---	PASS	T	17302211	T	T	17302211	3	4	81	1	0	0	0	0	1	0	0	0	9514	1386	48	3	262	3	MFAP2	1	17302211	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1042803	17302211	231948410	10	30662										
HTR6	3362	broad.mit.edu	37	chr1	20005658	20005658	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agcaggtgctgccgctgcccCtgccgccggactcagattcg	13	16	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:20005658C>A	uc001bcl.2	+	3	1587	c.1120C>A	c.(1120-1122)CTG>ATG	p.L374M		NM_000871	NP_000862	P50406	5HT6R_HUMAN	5-hydroxytryptamine (serotonin) receptor 6	374	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	histamine receptor activity|protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;5.81e-05)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00117)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)	Granisetron(DB00889)|Ondansetron(DB00904)|Sertindole(DB06144)	GCCGCTGCCCCTGCCGCCGGA	0.731													9	1	---	---	---	---	PASS	A	20005658	A	A	20005658	3	1	81	1	0	0	0	0	1	0	0	0	7451	680	24	3	1130	3	HTR6	1	20005658	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2703447	20005658	229244963	11	30663										
SH2D5	400745	broad.mit.edu	37	chr1	21051028	21051028	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcttcaggggcacctcccctGtgggccctgggcagggctct	15	15	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:21051028G>C	uc001bdt.1	-	5	864	c.239C>G	c.(238-240)ACA>AGA	p.T80R	SH2D5_uc009vpy.1_Missense_Mutation_p.T164R|SH2D5_uc001bdu.1_RNA	NM_001103160	NP_001096630	Q6ZV89	SH2D5_HUMAN	SH2 domain containing 5 isoform 2	80											0		Colorectal(325;3.46e-05)|all_lung(284;5.32e-05)|Lung NSC(340;5.51e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(152;1.17e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000142)|GBM - Glioblastoma multiforme(114;0.000465)|Kidney(64;0.000476)|STAD - Stomach adenocarcinoma(196;0.00303)|KIRC - Kidney renal clear cell carcinoma(64;0.00634)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CACCTCCCCTGTGGGCCCTGG	0.667													10	3	---	---	---	---	PASS	C	21051028	C	C	21051028	3	2	81	1	0	0	0	0	1	0	0	0	14237	1377	48	4	800	4	SH2D5	1	21051028	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1045370	21051028	228199593	12	30664										
HSPG2	3339	broad.mit.edu	37	chr1	22155925	22155925	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggccgcccaccatcgccagGgacacgaagtcctccacagg	11	17	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:22155925G>A	uc001bfj.2	-	87	11983	c.11943C>T	c.(11941-11943)TCC>TCT	p.S3981S	HSPG2_uc001bfi.2_5'UTR|HSPG2_uc009vqd.2_Silent_p.S3982S	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3981	Laminin G-like 2.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CCATCGCCAGGGACACGAAGT	0.652													26	11	---	---	---	---	PASS	A	22155925	A	A	22155925	2	1	81	1	0	0	0	0	0	0	0	1	7430	1219	43	3		3	HSPG2	1	22155925	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1104897	22155925	227094696	13	30665										
HMGCL	3155	broad.mit.edu	37	chr1	24143179	24143179	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcttaccgctgcctcgaagcCtttcaaatttggggtcagga	10	11	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:24143179C>A	uc001bib.2	-	4	378	c.334G>T	c.(334-336)GGC>TGC	p.G112C	HMGCL_uc010oec.1_Missense_Mutation_p.G112C|HMGCL_uc009vqr.2_Intron|HMGCL_uc001bic.2_Missense_Mutation_p.G87C|HMGCL_uc009vqs.1_Missense_Mutation_p.G112C|HMGCL_uc001bid.1_Missense_Mutation_p.G112C	NM_000191	NP_000182	P35914	HMGCL_HUMAN	3-hydroxy-3-methylglutaryl CoA lyase isoform 1	112					acetoacetic acid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA lyase activity|metal ion binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.0044)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.38e-24)|Colorectal(126;5.58e-08)|COAD - Colon adenocarcinoma(152;3.12e-06)|GBM - Glioblastoma multiforme(114;4.9e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000982)|KIRC - Kidney renal clear cell carcinoma(1967;0.0034)|STAD - Stomach adenocarcinoma(196;0.0128)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0856)|LUSC - Lung squamous cell carcinoma(448;0.188)		GCCTCGAAGCCTTTCAAATTT	0.527													67	32	---	---	---	---	PASS	A	24143179	A	A	24143179	3	1	81	1	0	0	0	0	1	0	0	0	7229	681	24	3	667	3	HMGCL	1	24143179	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1987254	24143179	225107442	14	30666										
UBXN11	91544	broad.mit.edu	37	chr1	26612496	26612496	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caggctggccagcagcctgtCaaagtccacctcagggggcg	14	14	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:26612496C>T	uc001blw.2	-	10	865	c.592G>A	c.(592-594)GAC>AAC	p.D198N	UBXN11_uc001blz.1_Missense_Mutation_p.D165N|UBXN11_uc001blv.2_Missense_Mutation_p.D160N|UBXN11_uc001bly.2_Missense_Mutation_p.D78N|UBXN11_uc001blx.2_5'UTR|UBXN11_uc001bma.2_Missense_Mutation_p.D165N|UBXN11_uc001bmb.1_Missense_Mutation_p.D198N|UBXN11_uc010ofb.1_Missense_Mutation_p.D123N|UBXN11_uc010ofc.1_Missense_Mutation_p.D40N	NM_183008	NP_892120	Q5T124	UBX11_HUMAN	socius isoform 2	198						cytoplasm|cytoskeleton				ovary(1)	1						AGCAGCCTGTCAAAGTCCACC	0.627											OREG0013265	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	4	---	---	---	---	PASS	T	26612496	T	T	26612496	3	4	81	1	0	0	0	0	1	0	0	0	16910	826	29	2	998	2	UBXN11	1	26612496	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2469317	26612496	222638125	15	30667										
CSMD2	114784	broad.mit.edu	37	chr1	34076847	34076847	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agttcaggaactggatgtgaGctcctgggagcaagacagag	15	7	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:34076847G>A	uc001bxn.1	-	41	6046	c.6017C>T	c.(6016-6018)GCT>GTT	p.A2006V	CSMD2_uc001bxm.1_Missense_Mutation_p.A2046V|CSMD2_uc001bxo.1_Missense_Mutation_p.A919V	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2006	CUB 12.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CTGGATGTGAGCTCCTGGGAG	0.552													15	3	---	---	---	---	PASS	A	34076847	A	A	34076847	3	1	81	1	0	0	0	0	1	0	0	0	3945	971	34	3	4562	3	CSMD2	1	34076847	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	7464351	34076847	215173774	16	30668										
OSBPL9	114883	broad.mit.edu	37	chr1	52227552	52227552	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcctagaacctgttcagttGtgtaagtcagagcagcgtcc	10	11	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:52227552G>T	uc001cst.2	+	11	706	c.687G>T	c.(685-687)TTG>TTT	p.L229F	OSBPL9_uc001css.2_Missense_Mutation_p.L234F|OSBPL9_uc001csx.2_RNA|OSBPL9_uc009vza.2_Missense_Mutation_p.L230F|OSBPL9_uc001csu.2_Missense_Mutation_p.L239F|OSBPL9_uc001csv.2_Missense_Mutation_p.L64F|OSBPL9_uc001csw.2_Missense_Mutation_p.L216F|OSBPL9_uc001csy.2_Missense_Mutation_p.L51F|OSBPL9_uc001csz.2_Missense_Mutation_p.L51F|OSBPL9_uc001cta.2_Missense_Mutation_p.L119F|OSBPL9_uc001ctb.2_Missense_Mutation_p.L14F	NM_024586	NP_078862	Q96SU4	OSBL9_HUMAN	oxysterol binding protein-like 9 isoform e	229					lipid transport		lipid binding			central_nervous_system(1)	1						CTGTTCAGTTGTGTAAGTCAG	0.418													61	18	---	---	---	---	PASS	T	52227552	T	T	52227552	3	4	81	1	0	0	0	0	1	0	0	0	11284	1368	48	3	833	3	OSBPL9	1	52227552	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	18150705	52227552	197023069	17	30669										
CC2D1B	200014	broad.mit.edu	37	chr1	52828278	52828278	+	Frame_Shift_Del	DEL	C	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgtgtccaaactcaccctgCcccttgggtgctggcttctt							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:52828278delC	uc001ctq.1	-	3	348	c.210delG	c.(208-210)GGGfs	p.G70fs	CC2D1B_uc001cts.2_5'Flank	NM_032449	NP_115825	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B	70										ovary(2)	2						ACTCACCCTGCCCCTTGGGTG	0.607													65	115	---	---	---	---		-	52828278	-	-	52828278	7	5	81	1	0	1	0	1	0	0	0	0	2727	726	26	0	2454	0	CC2D1B	1	52828278	Frame_Shift_Del	DEL	C	TCGA-37-5819-01A-01D-1632-08	600726	52828278	196422343	18	30670										
LRRC7	57554	broad.mit.edu	37	chr1	70226034	70226034	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aacttcgaacgaacattagaGgagctttatctagatgccaa	8	8	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:70226034G>A	uc001dep.2	+	1	177	c.147G>A	c.(145-147)GAG>GAA	p.E49E	LRRC7_uc001deo.1_Silent_p.E87E|LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	49	LRR 2.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GAACATTAGAGGAGCTTTATC	0.358													11	11	---	---	---	---	PASS	A	70226034	A	A	70226034	2	1	81	1	0	0	0	0	0	0	0	1	9020	991	35	3		3	LRRC7	1	70226034	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	17397756	70226034	179024587	19	30671										
PTGER3	5733	broad.mit.edu	37	chr1	71512735	71512735	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccacacgccgagcagcacagCgcgggtggcacgcgtcttca	13	16	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:71512735C>A	uc001dfg.1	-	1	757	c.526G>T	c.(526-528)GCT>TCT	p.A176S	PTGER3_uc001dfh.1_RNA|PTGER3_uc001dfi.1_RNA|PTGER3_uc001dfj.1_RNA|PTGER3_uc001dfk.1_Missense_Mutation_p.A176S|PTGER3_uc001dfl.1_Missense_Mutation_p.A176S|PTGER3_uc009wbm.1_Missense_Mutation_p.A176S|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Missense_Mutation_p.A176S|PTGER3_uc009wbn.1_Missense_Mutation_p.A176S|PTGER3_uc009wbo.2_Missense_Mutation_p.A176S|PTGER3_uc001dfo.2_Missense_Mutation_p.A176S|PTGER3_uc001dfp.1_Missense_Mutation_p.A176S|PTGER3_uc001dfq.2_Missense_Mutation_p.A176S|uc001dfr.2_RNA	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	176	Helical; Name=4; (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	AGCAGCACAGCGCGGGTGGCA	0.706													14	5	---	---	---	---	PASS	A	71512735	A	A	71512735	3	1	81	1	0	0	0	0	1	0	0	0	12744	768	27	1	965	1	PTGER3	1	71512735	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1286701	71512735	177737886	20	30672										
C1orf173	127254	broad.mit.edu	37	chr1	75038632	75038632	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atgtcgctgcctctctcaggGctgctacttcatgaagatgc	10	12	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:75038632G>T	uc001dgg.2	-	14	2981	c.2762C>A	c.(2761-2763)GCC>GAC	p.A921D		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	921	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTCTCTCAGGGCTGCTACTTC	0.537													79	34	---	---	---	---	PASS	T	75038632	T	T	75038632	3	4	81	1	0	0	0	0	1	0	0	0	2014	1203	42	3	1834	3	C1orf173	1	75038632	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3525897	75038632	174211989	21	30673										
MCOLN3	55283	broad.mit.edu	37	chr1	85484903	85484903	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgcattctgatataaatgtaCgaagttcagtctctgggaag	10	6	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:85484903C>A	uc001dkp.2	-	13	1658	c.1565G>T	c.(1564-1566)CGT>CTT	p.R522L	MCOLN3_uc001dko.2_Missense_Mutation_p.R141L|MCOLN3_uc001dkq.2_Missense_Mutation_p.R466L	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	522						integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		TATAAATGTACGAAGTTCAGT	0.348													29	6	---	---	---	---	PASS	A	85484903	A	A	85484903	3	1	81	1	0	0	0	0	1	0	0	0	9397	536	19	1	100	1	MCOLN3	1	85484903	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	10446271	85484903	163765718	22	30674										
MCOLN3	55283	broad.mit.edu	37	chr1	85486820	85486820	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaatcatatatataaagaggCtgatgaatgagtagaggtaa	10	2	1	5			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:85486820C>T	uc001dkp.2	-	12	1553	c.1460G>A	c.(1459-1461)AGC>AAC	p.S487N	MCOLN3_uc001dko.2_Missense_Mutation_p.S106N|MCOLN3_uc001dkq.2_Missense_Mutation_p.S431N	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	487	Helical; (Potential).					integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		TATAAAGAGGCTGATGAATGA	0.333													24	7	---	---	---	---	PASS	T	85486820	T	T	85486820	3	4	81	1	0	0	0	0	1	0	0	0	9397	797	28	3	209	3	MCOLN3	1	85486820	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1917	85486820	163763801	23	30675										
COL24A1	255631	broad.mit.edu	37	chr1	86581015	86581015	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccatctacttacccgtggaCctctcttccctgacggacct	6	18	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:86581015C>A	uc001dlj.2	-	4	1580	c.1538G>T	c.(1537-1539)GGT>GTT	p.G513V	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.G513V	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	513	Collagen-like 1.				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)		TACCCGTGGACCTCTCTTCCC	0.428													11	4	---	---	---	---	PASS	A	86581015	A	A	86581015	3	1	81	1	0	0	0	0	1	0	0	0	3683	507	18	3	3834	3	COL24A1	1	86581015	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1094195	86581015	162669606	24	30676										
GBP5	115362	broad.mit.edu	37	chr1	89729589	89729589	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ataatccgaggatgcttccaGgttccgtttacaaatgtcat	8	9	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:89729589G>T	uc001dnc.2	-	9	1729	c.1192C>A	c.(1192-1194)CTG>ATG	p.L398M	GBP5_uc001dnd.2_Missense_Mutation_p.L398M|GBP5_uc001dne.1_Missense_Mutation_p.L398M	NM_052942	NP_443174	Q96PP8	GBP5_HUMAN	guanylate-binding protein 5	398						plasma membrane	GTP binding|GTPase activity			ovary(1)	1				all cancers(265;0.00784)|Epithelial(280;0.0286)		GATGCTTCCAGGTTCCGTTTA	0.398													59	25	---	---	---	---	PASS	T	89729589	T	T	89729589	3	4	81	1	0	0	0	0	1	0	0	0	6277	991	35	3	584	3	GBP5	1	89729589	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3148574	89729589	159521032	25	30677										
GLMN	11146	broad.mit.edu	37	chr1	92737095	92737095	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgccagagaagccattgagtCtgctaactgtttattttctt	8	8	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:92737095C>A	uc001dor.2	-	8	965	c.850G>T	c.(850-852)GAC>TAC	p.D284Y	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Missense_Mutation_p.D284Y	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	284	Potential.				muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		GCCATTGAGTCTGCTAACTGT	0.353									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				47	23	---	---	---	---	PASS	A	92737095	A	A	92737095	3	1	81	1	0	0	0	0	1	0	0	0	6448	913	32	2	982	2	GLMN	1	92737095	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3007506	92737095	156513526	26	30678										
FRRS1	391059	broad.mit.edu	37	chr1	100203641	100203641	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atgtaagtgagaggtaccaaCcatccactgatcatgagaca	9	9	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:100203641C>A	uc001dsh.1	-	7	1361	c.759_splice	c.e7+1	p.M253_splice		NM_001013660	NP_001013682	Q6ZNA5	FRRS1_HUMAN	stromal cell derived factor receptor 2 homolog						electron transport chain|transport	integral to membrane	ferric-chelate reductase activity|metal ion binding			skin(1)	1		all_epithelial(167;2.09e-06)|all_lung(203;0.000435)|Lung NSC(277;0.00201)		Epithelial(280;0.0718)|all cancers(265;0.126)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.206)		GAGGTACCAACCATCCACTGA	0.313													36	14	---	---	---	---	PASS	A	100203641	A	A	100203641	5	1	81	1	0	0	0	0	0	0	1	0	6060	521	18	3	1164	3	FRRS1	1	100203641	Splice_Site	SNP	C	TCGA-37-5819-01A-01D-1632-08	7466546	100203641	149046980	27	30679										
CELSR2	1952	broad.mit.edu	37	chr1	109792869	109792869	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcctgcgcccccatgggctgGctctgtccatcctcagcgtc	11	18	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:109792869G>C	uc001dxa.3	+	1	229	c.168G>C	c.(166-168)TGG>TGC	p.W56C		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	56	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		CCATGGGCTGGCTCTGTCCAT	0.617													23	6	---	---	---	---	PASS	C	109792869	C	C	109792869	3	2	81	1	0	0	0	0	1	0	0	0	3222	1212	42	4	170	4	CELSR2	1	109792869	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	9589228	109792869	139457752	28	30680										
SPAG17	200162	broad.mit.edu	37	chr1	118548175	118548175	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttgactcatggcagtacacAgctgaacaatccttgtcaat	7	11	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:118548175A>T	uc001ehk.2	-	32	4706	c.4638T>A	c.(4636-4638)GCT>GCA	p.A1546A		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1546						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GGCAGTACACAGCTGAACAAT	0.383													12	10	---	---	---	---	PASS	T	118548175	T	T	118548175	2	4	81	1	0	0	0	0	0	0	0	1	14979	175	7	5		5	SPAG17	1	118548175	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	8755306	118548175	130702446	29	30681										
LIX1L	128077	broad.mit.edu	37	chr1	145497486	145497486	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcaaatcaatgttggagttcCaggtactttcccatgtactt	8	9	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:145497486C>A	uc001enr.2	+	4	765	c.691C>A	c.(691-693)CAG>AAG	p.Q231K	NBPF10_uc001emp.3_Intron|LIX1L_uc009wiu.1_5'Flank	NM_153713	NP_714924	Q8IVB5	LIX1L_HUMAN	Lix1 homolog (mouse) like	231										ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GTTGGAGTTCCAGGTACTTTC	0.453													9	11	---	---	---	---	PASS	A	145497486	A	A	145497486	3	1	81	1	0	0	0	0	1	0	0	0	8832	595	21	3	705	3	LIX1L	1	145497486	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	26949311	145497486	103753135	30	30682										
CHD1L	9557	broad.mit.edu	37	chr1	146766105	146766105	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	taatagcaagtgttcatcttCcacgtattggacatgccacg	8	10	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:146766105C>T	uc001epm.3	+	22	2584	c.2521C>T	c.(2521-2523)CCA>TCA	p.P841S	uc001epp.2_Intron|CHD1L_uc001epn.3_Missense_Mutation_p.P728S|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Missense_Mutation_p.P747S|CHD1L_uc010ozp.1_Missense_Mutation_p.P560S|CHD1L_uc001epo.3_Missense_Mutation_p.P637S|CHD1L_uc009wji.2_Missense_Mutation_p.P560S	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	841	Macro.				chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)					TGTTCATCTTCCACGTATTGG	0.388													21	115	---	---	---	---	PASS	T	146766105	T	T	146766105	3	4	81	1	0	0	0	0	1	0	0	0	3324	855	30	2	2607	2	CHD1L	1	146766105	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1268619	146766105	102484516	31	30683										
ZNF687	57592	broad.mit.edu	37	chr1	151263255	151263255	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggagcctgacagcacgacacCgccagccaagtcccccaggg	12	17	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:151263255C>T	uc001exq.2	+	9	3382	c.3284C>T	c.(3283-3285)CCG>CTG	p.P1095L	ZNF687_uc009wmo.2_Missense_Mutation_p.P1095L|ZNF687_uc009wmp.2_3'UTR	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	1095					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			AGCACGACACCGCCAGCCAAG	0.617													36	61	---	---	---	---	PASS	T	151263255	T	T	151263255	3	4	81	1	0	0	0	0	1	0	0	0	18089	652	23	1	3314	1	ZNF687	1	151263255	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	4497150	151263255	97987366	32	30684										
TCHH	7062	broad.mit.edu	37	chr1	152081509	152081509	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggcagcgcagctgctgttccTccttaaggaattttctctcc	9	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:152081509T>C	uc001ezp.2	-	2	4184	c.4184A>G	c.(4183-4185)GAG>GGG	p.E1395G	TCHH_uc009wne.1_Missense_Mutation_p.E1395G	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1395	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGCTGTTCCTCCTTAAGGAA	0.597													26	155	---	---	---	---	PASS	C	152081509	C	C	152081509	3	2	81	1	0	0	0	0	1	0	0	0	15697	1551	54	5	1651	5	TCHH	1	152081509	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	818254	152081509	97169112	33	30685										
TCHH	7062	broad.mit.edu	37	chr1	152084022	152084022	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctcgcctctcctgctcgagCctcttctcctcctcgcgctt	6	20	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:152084022C>A	uc001ezp.2	-	2	1671	c.1671G>T	c.(1669-1671)AGG>AGT	p.R557S	TCHH_uc009wne.1_Missense_Mutation_p.R557S	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	557	9 X 28 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGCTCGAGCCTCTTCTCCT	0.657													56	89	---	---	---	---	PASS	A	152084022	A	A	152084022	3	1	81	1	0	0	0	0	1	0	0	0	15697	738	26	3	4164	3	TCHH	1	152084022	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2513	152084022	97166599	34	30686										
FLG	2312	broad.mit.edu	37	chr1	152275728	152275728	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctggaagcagactcagatcgCctctcagagtcctctgggta	11	12	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:152275728C>A	uc001ezu.1	-	3	11670	c.11634G>T	c.(11632-11634)AGG>AGT	p.R3878S		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3878	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACTCAGATCGCCTCTCAGAGT	0.592									Ichthyosis				62	130	---	---	---	---	PASS	A	152275728	A	A	152275728	3	1	81	1	0	0	0	0	1	0	0	0	5922	738	26	3	555	3	FLG	1	152275728	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	191706	152275728	96974893	35	30687										
FLG2	388698	broad.mit.edu	37	chr1	152325907	152325907	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atcctgactctccatgttgaGatccggcttggccatgagtt	10	11	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:152325907G>C	uc001ezw.3	-	3	4428	c.4355C>G	c.(4354-4356)TCT>TGT	p.S1452C	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1452							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCATGTTGAGATCCGGCTTG	0.502													70	348	---	---	---	---	PASS	C	152325907	C	C	152325907	3	2	81	1	0	0	0	0	1	0	0	0	5923	942	33	2	2824	2	FLG2	1	152325907	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	50179	152325907	96924714	36	30688										
FLG2	388698	broad.mit.edu	37	chr1	152329581	152329581	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctttcccaactgtttgatccAgatccagattcatactcctc	4	14	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:152329581A>T	uc001ezw.3	-	3	754	c.681T>A	c.(679-681)TCT>TCA	p.S227S	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	227	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTTTGATCCAGATCCAGATT	0.438													89	156	---	---	---	---	PASS	T	152329581	T	T	152329581	2	4	81	1	0	0	0	0	0	0	0	1	5923	175	7	5		5	FLG2	1	152329581	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	3674	152329581	96921040	37	30689										
LCE1C	353133	broad.mit.edu	37	chr1	152777758	152777758	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcccccagaactgcagcatCccccagagctggagccacag	9	18	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:152777758C>T	uc001fap.1	-	2	248	c.197G>A	c.(196-198)GGA>GAA	p.G66E		NM_178351	NP_848128	Q5T751	LCE1C_HUMAN	late cornified envelope 1C	66	Gly-rich.				keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			ACTGCAGCATCCCCCAGAGCT	0.632													42	66	---	---	---	---	PASS	T	152777758	T	T	152777758	3	4	81	1	0	0	0	0	1	0	0	0	8661	855	30	2	163	2	LCE1C	1	152777758	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	448177	152777758	96472863	38	30690										
S100A8	6279	broad.mit.edu	37	chr1	153362927	153362927	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttcaggtcatccctgtagaCggcatggaaattccccttta	8	12	2	1	rs138295475	by1000genomes	TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:153362927C>G	uc001fbs.2	-	2	140	c.85G>C	c.(85-87)GTC>CTC	p.V29L		NM_002964	NP_002955	P05109	S10A8_HUMAN	S100 calcium-binding protein A8	29	1; low affinity.|EF-hand 1.				chemotaxis	cytoplasm|cytoskeleton|plasma membrane	calcium ion binding|protein binding				0	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			TCCCTGTAGACGGCATGGAAA	0.542													80	149	---	---	---	---	PASS	G	153362927	G	G	153362927	3	3	81	1	0	0	0	0	1	0	0	0	13786	536	19	4	204	4	S100A8	1	153362927	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	585169	153362927	95887694	39	30691										
NUP210L	91181	broad.mit.edu	37	chr1	154076576	154076576	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtgaatgccatggcttctttGgtctctttatttatgtgata	9	6	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:154076576G>A	uc001fdw.2	-	13	1803	c.1731C>T	c.(1729-1731)ACC>ACT	p.T577T	NUP210L_uc009woq.2_5'UTR|NUP210L_uc010peh.1_Silent_p.T577T	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	577						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TGGCTTCTTTGGTCTCTTTAT	0.378													25	141	---	---	---	---	PASS	A	154076576	A	A	154076576	2	1	81	1	0	0	0	0	0	0	0	1	10761	1335	47	3		3	NUP210L	1	154076576	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	713649	154076576	95174045	40	30692										
PKLR	5313	broad.mit.edu	37	chr1	155264347	155264347	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tccggacccagagcagccctGacggcagccacgtcgctggc	13	17	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:155264347G>T	uc001fkb.3	-	6	930	c.891C>A	c.(889-891)GTC>GTA	p.V297V	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Silent_p.V266V	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	297					endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	GAGCAGCCCTGACGGCAGCCA	0.602													33	28	---	---	---	---	PASS	T	155264347	T	T	155264347	2	4	81	1	0	0	0	0	0	0	0	1	11976	1277	45	2		2	PKLR	1	155264347	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1187771	155264347	93986274	41	30693										
SMG5	23381	broad.mit.edu	37	chr1	156236169	156236169	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggttccttggactctggttCatctgcggaaagaggaaggt	14	7	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:156236169C>G	uc001foc.3	-	12	1407	c.1258G>C	c.(1258-1260)GAA>CAA	p.E420Q	SMG5_uc009wrv.2_5'UTR	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	420					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)					GACTCTGGTTCATCTGCGGAA	0.567													18	40	---	---	---	---	PASS	G	156236169	G	G	156236169	3	3	81	1	0	0	0	0	1	0	0	0	14796	835	29	2	1836	2	SMG5	1	156236169	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	971822	156236169	93014452	42	30694										
TMEM79	84283	broad.mit.edu	37	chr1	156256105	156256105	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttctgcccttcggccctttgGggagccacggcgggaggtgg	17	12	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:156256105G>A	uc010phi.1	+	3	1008	c.812G>A	c.(811-813)GGG>GAG	p.G271E	TMEM79_uc001fod.2_Missense_Mutation_p.G112E|TMEM79_uc009wrw.2_Missense_Mutation_p.G271E	NM_032323	NP_115699	Q9BSE2	TMM79_HUMAN	transmembrane protein 79	271						integral to membrane				central_nervous_system(1)	1	Hepatocellular(266;0.158)					CGGCCCTTTGGGGAGCCACGG	0.577													27	116	---	---	---	---	PASS	A	156256105	A	A	156256105	3	1	81	1	0	0	0	0	1	0	0	0	16200	1232	43	3	818	3	TMEM79	1	156256105	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	19936	156256105	92994516	43	30695										
BCAN	63827	broad.mit.edu	37	chr1	156627501	156627501	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	taccagtggatcggactcaaCgacaggaccatcgaaggcga	12	11	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:156627501C>G	uc001fpp.2	+	11	2580	c.2244C>G	c.(2242-2244)AAC>AAG	p.N748K		NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	748	C-type lectin.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCGGACTCAACGACAGGACCA	0.642											OREG0013880	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	19	---	---	---	---	PASS	G	156627501	G	G	156627501	3	3	81	1	0	0	0	0	1	0	0	0	1345	535	19	4	2356	4	BCAN	1	156627501	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	371396	156627501	92623120	44	30696										
NES	10763	broad.mit.edu	37	chr1	156642660	156642660	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggctcctctggtccaggcagGacgctggcaggaatggccac	15	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:156642660G>A	uc001fpq.2	-	4	1453	c.1320C>T	c.(1318-1320)GTC>GTT	p.V440V		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	440	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTCCAGGCAGGACGCTGGCAG	0.672													14	63	---	---	---	---	PASS	A	156642660	A	A	156642660	2	1	81	1	0	0	0	0	0	0	0	1	10337	1161	41	2		2	NES	1	156642660	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	15159	156642660	92607961	45	30697										
NTRK1	4914	broad.mit.edu	37	chr1	156834197	156834197	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctggagctccgtgatctgagGggcctgggggagctgagaaa	18	8	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:156834197G>A	uc001fqh.1	+	2	320	c.264G>A	c.(262-264)AGG>AGA	p.R88R	NTRK1_uc001fqf.1_Silent_p.R58R|NTRK1_uc009wsi.1_5'UTR|NTRK1_uc001fqi.1_Silent_p.R88R|NTRK1_uc009wsk.1_Silent_p.R88R	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	88	Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	GTGATCTGAGGGGCCTGGGGG	0.622			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			20	31	---	---	---	---	PASS	A	156834197	A	A	156834197	2	1	81	1	0	0	0	0	0	0	0	1	10706	1223	43	3		3	NTRK1	1	156834197	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	191537	156834197	92416424	46	30698										
FCRL1	115350	broad.mit.edu	37	chr1	157767980	157767980	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atataggctgtagctgccctGgggtaggtgagttgaggtag	17	5	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:157767980G>C	uc001frg.2	-	8	1198	c.1085C>G	c.(1084-1086)CCA>CGA	p.P362R	FCRL1_uc001frf.2_RNA|FCRL1_uc001frh.2_Missense_Mutation_p.P362R|FCRL1_uc001fri.2_Missense_Mutation_p.P323R|FCRL1_uc001frj.2_RNA	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	362	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TAGCTGCCCTGGGGTAGGTGA	0.498													9	24	---	---	---	---	PASS	C	157767980	C	C	157767980	3	2	81	1	0	0	0	0	1	0	0	0	5794	1348	47	4	286	4	FCRL1	1	157767980	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	933783	157767980	91482641	47	30699										
SPTA1	6708	broad.mit.edu	37	chr1	158613164	158613164	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcttctttggcatagtgttCatcagcaatgaggctctcag	9	10	5	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:158613164C>A	uc001fst.1	-	31	4589	c.4390G>T	c.(4390-4392)GAA>TAA	p.E1464*		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1464	Spectrin 14.				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)					GCATAGTGTTCATCAGCAATG	0.443													26	29	---	---	---	---	PASS	A	158613164	A	A	158613164	4	1	81	1	0	0	0	0	0	1	0	0	15115	835	29	2	2957	2	SPTA1	1	158613164	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	845184	158613164	90637457	48	30700										
IFI16	3428	broad.mit.edu	37	chr1	159021696	159021696	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	accccaaagaagatcattgcCatagcaaattatgtttgccg	7	10	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:159021696C>G	uc001ftg.2	+	9	2015	c.1725C>G	c.(1723-1725)GCC>GCG	p.A575A	IFI16_uc010pis.1_Silent_p.A575A|IFI16_uc001fth.2_Silent_p.A118A|IFI16_uc010pit.1_Silent_p.A174A	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	631	HIN-200 2.				cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					AGATCATTGCCATAGCAAATT	0.423													16	91	---	---	---	---	PASS	G	159021696	G	G	159021696	2	3	81	1	0	0	0	0	0	0	0	1	7511	581	21	4		4	IFI16	1	159021696	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	408532	159021696	90228925	49	30701										
CADM3	57863	broad.mit.edu	37	chr1	159170624	159170624	+	Missense_Mutation	SNP	C	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gacacatgaggcaaaaggctCcgacgatgctccagacgcgg							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:159170624C>T	uc001ftl.2	+	9	1251	c.1109C>T	c.(1108-1110)TCC>TTC	p.S370F	CADM3_uc001ftk.2_Missense_Mutation_p.S404F|uc001ftm.1_RNA	NM_001127173	NP_001120645	Q8N126	CADM3_HUMAN	cell adhesion molecule 3 isoform 2	370	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|heterophilic cell-cell adhesion|homophilic cell adhesion	cell-cell junction|integral to membrane	protein homodimerization activity			ovary(2)	2	all_hematologic(112;0.0429)					GCAAAAGGCTCCGACGATGCT	0.572													27	46	---	---	---	---	PASS	T	159170624	T	T	159170624	3	4	81	1	0	0	0	0	1	0	0	0	2568	855	30	2	1249	2	CADM3	1	159170624	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	148928	159170624	90079997	50	30702	609	2								
CADM3	57863	broad.mit.edu	37	chr1	159170626	159170626	+	Missense_Mutation	SNP	G	C	C													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cacatgaggcaaaaggctccGacgatgctccagacgcggac							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:159170626G>C	uc001ftl.2	+	9	1253	c.1111G>C	c.(1111-1113)GAC>CAC	p.D371H	CADM3_uc001ftk.2_Missense_Mutation_p.D405H|uc001ftm.1_RNA	NM_001127173	NP_001120645	Q8N126	CADM3_HUMAN	cell adhesion molecule 3 isoform 2	371	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|heterophilic cell-cell adhesion|homophilic cell adhesion	cell-cell junction|integral to membrane	protein homodimerization activity			ovary(2)	2	all_hematologic(112;0.0429)					AAAAGGCTCCGACGATGCTCC	0.572													27	48	---	---	---	---	PASS	C	159170626	C	C	159170626	3	2	81	1	0	0	0	0	1	0	0	0	2568	1058	37	2	1251	2	CADM3	1	159170626	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2	159170626	90079995	51	30703	609	2								
IGSF9	57549	broad.mit.edu	37	chr1	159900956	159900956	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtaccagacactgaatctctGcagataaccaccatcaaagc	6	13	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:159900956G>A	uc001fur.2	-	13	1807	c.1609C>T	c.(1609-1611)CAG>TAG	p.Q537*	IGSF9_uc001fuq.2_Nonsense_Mutation_p.Q521*|IGSF9_uc001fup.2_5'UTR	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	537	Fibronectin type-III 1.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			CTGAATCTCTGCAGATAACCA	0.542													3	14	---	---	---	---	PASS	A	159900956	A	A	159900956	4	1	81	1	0	0	0	0	0	1	0	0	7605	1328	46	3	1966	3	IGSF9	1	159900956	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	730330	159900956	89349665	52	30704										
ATP1A2	477	broad.mit.edu	37	chr1	160094994	160094994	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccgagttcacccatgagaaCcccctggagacccgcaatat	8	16	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:160094994C>A	uc001fvc.2	+	7	831	c.699C>A	c.(697-699)AAC>AAA	p.N233K	ATP1A2_uc001fvb.2_Missense_Mutation_p.N233K|ATP1A2_uc010piz.1_Missense_Mutation_p.N78K|ATP1A2_uc001fvd.2_5'Flank	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	233	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CCCATGAGAACCCCCTGGAGA	0.537													3	49	---	---	---	---	PASS	A	160094994	A	A	160094994	3	1	81	1	0	0	0	0	1	0	0	0	1129	506	18	3	725	3	ATP1A2	1	160094994	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	194038	160094994	89155627	53	30705										
ATP1A4	480	broad.mit.edu	37	chr1	160124847	160124847	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgcacagggccatagccacCaaagggcaaaggaaatcctg	11	12	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:160124847C>A	uc001fve.3	+	3	699	c.220C>A	c.(220-222)CAA>AAA	p.Q74K	ATP1A4_uc001fvf.3_RNA	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	74	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CCATAGCCACCAAAGGGCAAA	0.512													20	123	---	---	---	---	PASS	A	160124847	A	A	160124847	3	1	81	1	0	0	0	0	1	0	0	0	1131	595	21	3	230	3	ATP1A4	1	160124847	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	29853	160124847	89125774	54	30706										
COPA	1314	broad.mit.edu	37	chr1	160281809	160281809	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aatcataccaccatcatggcCtgggggacagggagaggagg	15	9	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:160281809C>A	uc009wti.2	-	11	1320	c.926_splice	c.e11-1	p.G309_splice	COPA_uc001fvv.3_Splice_Site_p.G309_splice|COPA_uc009wtj.1_Splice_Site_p.G255_splice	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform						COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CCATCATGGCCTGGGGGACAG	0.443													7	22	---	---	---	---	PASS	A	160281809	A	A	160281809	5	1	81	1	0	0	0	0	0	0	1	0	3727	695	24	3	2868	3	COPA	1	160281809	Splice_Site	SNP	C	TCGA-37-5819-01A-01D-1632-08	156962	160281809	88968812	55	30707										
HSPA6	3310	broad.mit.edu	37	chr1	161495433	161495433	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccctgcgggatgccaagctgGacaaggcccagattcatgac	12	13	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:161495433G>A	uc001gap.2	+	2	1645	c.985G>A	c.(985-987)GAC>AAC	p.D329N	HSPA6_uc001gaq.2_Missense_Mutation_p.D329N	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	329					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			TGCCAAGCTGGACAAGGCCCA	0.607													17	19	---	---	---	---	PASS	A	161495433	A	A	161495433	3	1	81	1	0	0	0	0	1	0	0	0	7415	1174	41	2	987	2	HSPA6	1	161495433	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1213624	161495433	87755188	56	30708										
UAP1	6675	broad.mit.edu	37	chr1	162536109	162536109	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggcagtgctacaagggatcAagatcagctccaggcctggg	14	10	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:162536109A>G	uc001gce.3	+	2	580	c.251A>G	c.(250-252)CAA>CGA	p.Q84R		NM_003115	NP_003106	Q16222	UAP1_HUMAN	UDP-N-acetylglucosamine pyrophosphorylase 1	84					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol|nucleus|plasma membrane	UDP-N-acetylglucosamine diphosphorylase activity			ovary(2)|skin(2)|kidney(1)	5	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			ACAAGGGATCAAGATCAGCTC	0.433													14	27	---	---	---	---	PASS	G	162536109	G	G	162536109	3	3	81	1	0	0	0	0	1	0	0	0	16822	130	5	5	253	5	UAP1	1	162536109	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1040676	162536109	86714512	57	30709										
DDR2	4921	broad.mit.edu	37	chr1	162724627	162724627	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	actcgctggatctcttggcgGaaccgtcatgggaaacaggt	13	10	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:162724627G>T	uc001gcf.2	+	6	864	c.399G>T	c.(397-399)CGG>CGT	p.R133R	DDR2_uc001gcg.2_Silent_p.R133R	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	133	Extracellular (Potential).|F5/8 type C.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			TCTCTTGGCGGAACCGTCATG	0.522													18	28	---	---	---	---	PASS	T	162724627	T	T	162724627	2	4	81	1	0	0	0	0	0	0	0	1	4337	1161	41	2		2	DDR2	1	162724627	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	188518	162724627	86525994	58	30710										
DUSP27	92235	broad.mit.edu	37	chr1	167095205	167095205	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagctcaatgagaagttgatGgaggagagagaagaggacta	16	3	1	5			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:167095205G>A	uc001geb.1	+	5	837	c.837G>A	c.(835-837)ATG>ATA	p.M279I		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	279					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						AGAAGTTGATGGAGGAGAGAG	0.617													23	19	---	---	---	---	PASS	A	167095205	A	A	167095205	3	1	81	1	0	0	0	0	1	0	0	0	4824	1348	47	3	855	3	DUSP27	1	167095205	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4370578	167095205	82155416	59	30711										
FMO3	2328	broad.mit.edu	37	chr1	171086551	171086551	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctctttgcaattcctattcTgttaatcgctgttttccttg	6	10	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:171086551T>C	uc001ghi.2	+	9	1679	c.1568T>C	c.(1567-1569)CTG>CCG	p.L523P	FMO3_uc001ghh.2_Missense_Mutation_p.L523P|FMO3_uc010pmb.1_Missense_Mutation_p.L503P|FMO3_uc010pmc.1_Missense_Mutation_p.L460P	NM_001002294	NP_001002294	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	523					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					ATTCCTATTCTGTTAATCGCT	0.428													29	44	---	---	---	---	PASS	C	171086551	C	C	171086551	3	2	81	1	0	0	0	0	1	0	0	0	5956	1580	55	5	1598	5	FMO3	1	171086551	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	3991346	171086551	78164070	60	30712										
METTL13	51603	broad.mit.edu	37	chr1	171755175	171755175	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaagctgagctgtcggctaGagtcatggagctggccccag	14	12	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:171755175G>T	uc001ghz.2	+	3	1417	c.1070G>T	c.(1069-1071)AGA>ATA	p.R357I	METTL13_uc001gia.2_Missense_Mutation_p.R271I|METTL13_uc001gib.2_Missense_Mutation_p.R201I|METTL13_uc010pml.1_Missense_Mutation_p.R356I	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	357							methyltransferase activity|protein binding			kidney(1)	1						CTGTCGGCTAGAGTCATGGAG	0.572													5	18	---	---	---	---	PASS	T	171755175	T	T	171755175	3	4	81	1	0	0	0	0	1	0	0	0	9497	942	33	2	1080	2	METTL13	1	171755175	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	668624	171755175	77495446	61	30713										
DNM3	26052	broad.mit.edu	37	chr1	172376937	172376937	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaccacccccatcaccaactCgtcccactataatccgccca	3	21	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:172376937C>A	uc001gie.2	+	21	2724	c.2548C>A	c.(2548-2550)CGT>AGT	p.R850S	DNM3_uc001gif.2_Missense_Mutation_p.R846S|DNM3_uc001gih.1_Intron|PIGC_uc001gii.1_Intron|PIGC_uc001gij.1_Intron	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	856					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						ATCACCAACTCGTCCCACTAT	0.418													48	54	---	---	---	---	PASS	A	172376937	A	A	172376937	3	1	81	1	0	0	0	0	1	0	0	0	4673	884	31	2	2630	2	DNM3	1	172376937	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	621762	172376937	76873684	62	30714										
GPR52	9293	broad.mit.edu	37	chr1	174417612	174417612	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caggtttttggatatatcatCtcagttctaaaaagtgtttc	7	6	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:174417612C>G	uc001gka.1	+	1	401	c.363C>G	c.(361-363)ATC>ATG	p.I121M	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron|uc010pmu.1_RNA	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	121	Helical; Name=3; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						GATATATCATCTCAGTTCTAA	0.438													8	248	---	---	---	---	PASS	G	174417612	G	G	174417612	3	3	81	1	0	0	0	0	1	0	0	0	6698	903	32	2	365	2	GPR52	1	174417612	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2040675	174417612	74833009	63	30715										
TNR	7143	broad.mit.edu	37	chr1	175362977	175362977	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agaagggctcccactgcaccTccacggtggtctctgtgatc	11	14	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:175362977T>A	uc001gkp.1	-	4	1376	c.1295A>T	c.(1294-1296)GAG>GTG	p.E432V	TNR_uc009wwu.1_Missense_Mutation_p.E432V|TNR_uc010pmz.1_3'UTR	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	432	Fibronectin type-III 2.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CCACTGCACCTCCACGGTGGT	0.483													11	157	---	---	---	---	PASS	A	175362977	A	A	175362977	3	1	81	1	0	0	0	0	1	0	0	0	16335	1551	54	5	2853	5	TNR	1	175362977	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	945365	175362977	73887644	64	30716										
SEC16B	89866	broad.mit.edu	37	chr1	177906595	177906595	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccacagagctgagcggtaccCaggggcttcagagtagcctt	13	12	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:177906595C>A	uc001gli.1	-	19	2347	c.2257G>T	c.(2257-2259)GGG>TGG	p.G753W	SEC16B_uc001glk.1_Missense_Mutation_p.G430W|SEC16B_uc009wwy.1_Missense_Mutation_p.G308W|SEC16B_uc001glh.1_Missense_Mutation_p.G412W|SEC16B_uc009wwz.1_Missense_Mutation_p.G412W|SEC16B_uc001glj.1_Missense_Mutation_p.G754W	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	753					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4						GAGCGGTACCCAGGGGCTTCA	0.572													13	8	---	---	---	---	PASS	A	177906595	A	A	177906595	3	1	81	1	0	0	0	0	1	0	0	0	13987	594	21	3	957	3	SEC16B	1	177906595	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2543618	177906595	71344026	65	30717										
ABL2	27	broad.mit.edu	37	chr1	179078241	179078242	+	Frame_Shift_Ins	INS	-	C	C													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggttcctctgtgcaaagctINSccccccatagcacttgggtg							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:179078241_179078242insC	uc001gmj.3	-	12	2447_2448	c.2160_2161insG	c.(2158-2163)GGGAGCfs	p.G720fs	ABL2_uc010pnf.1_Intron|ABL2_uc010png.1_Intron|ABL2_uc010pnh.1_Frame_Shift_Ins_p.G699fs|ABL2_uc001gmg.3_Intron|ABL2_uc001gmi.3_Frame_Shift_Ins_p.G705fs|ABL2_uc001gmh.3_Frame_Shift_Ins_p.G684fs|ABL2_uc010pne.1_Intron	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	720_721	F-actin-binding (By similarity).				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	TGTGCAAAGCTCCCCCCATAGC	0.569			T	ETV6	AML								31	25	---	---	---	---		C	179078242	C	C	179078241	7	5	81	1	0	1	1	0	0	0	0	0	93	1551	54	0	1391	0	ABL2	1	179078241	Frame_Shift_Ins	INS	-	TCGA-37-5819-01A-01D-1632-08	1171646	179078241	70172380	66	30718										
KIAA1614	57710	broad.mit.edu	37	chr1	180886141	180886141	+	Frame_Shift_Del	DEL	G	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgatcgggtggagagaaaccGcctgttgctgcaggagatgc							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:180886141delG	uc001gok.2	+	2	969	c.902delG	c.(901-903)CGCfs	p.R301fs		NM_020950	NP_066001	Q5VZ46	K1614_HUMAN	hypothetical protein LOC57710	301										ovary(3)|skin(1)	4						GAGAGAAACCGCCTGTTGCTG	0.637													67	33	---	---	---	---		-	180886141	-	-	180886141	7	5	81	1	0	1	0	1	0	0	0	0	8248	1087	38	0	908	0	KIAA1614	1	180886141	Frame_Shift_Del	DEL	G	TCGA-37-5819-01A-01D-1632-08	1807900	180886141	68364480	67	30719										
HMCN1	83872	broad.mit.edu	37	chr1	185939523	185939523	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttgaccctctcttgggacttTtgaagattcaagaaacacaa	7	9	2	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:185939523T>C	uc001grq.1	+	15	2498	c.2269T>C	c.(2269-2271)TTG>CTG	p.L757L	HMCN1_uc001grr.1_Silent_p.L98L	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	757	Ig-like C2-type 4.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CTTGGGACTTTTGAAGATTCA	0.418													118	121	---	---	---	---	PASS	C	185939523	C	C	185939523	2	2	81	1	0	0	0	0	0	0	0	1	7220	1838	64	5		5	HMCN1	1	185939523	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	5053382	185939523	63311098	68	30720										
HMCN1	83872	broad.mit.edu	37	chr1	185987391	185987391	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atggacgcaaactggttattGctcaggctcaagtgtcaaac	10	9	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:185987391G>T	uc001grq.1	+	34	5606	c.5377G>T	c.(5377-5379)GCT>TCT	p.A1793S		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1793	Ig-like C2-type 15.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						ACTGGTTATTGCTCAGGCTCA	0.423													27	83	---	---	---	---	PASS	T	185987391	T	T	185987391	3	4	81	1	0	0	0	0	1	0	0	0	7220	1319	46	3	5511	3	HMCN1	1	185987391	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	47868	185987391	63263230	69	30721										
HMCN1	83872	broad.mit.edu	37	chr1	186088426	186088426	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cgacacgtgacccttcatgtTcatggtatggaaggctattt	10	9	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:186088426T>G	uc001grq.1	+	78	12181	c.11952T>G	c.(11950-11952)GTT>GTG	p.V3984V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3984					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CCCTTCATGTTCATGGTATGG	0.443													18	111	---	---	---	---	PASS	G	186088426	G	G	186088426	2	3	81	1	0	0	0	0	0	0	0	1	7220	1770	62	5		5	HMCN1	1	186088426	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	101035	186088426	63162195	70	30722										
HMCN1	83872	broad.mit.edu	37	chr1	186122917	186122917	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tacattcaaacaggtcctggGcagctgtacgcctactcaac	8	13	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:186122917G>T	uc001grq.1	+	97	15283	c.15054G>T	c.(15052-15054)GGG>GGT	p.G5018G	HMCN1_uc001grs.1_Silent_p.G587G	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5018	Nidogen G2 beta-barrel.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CAGGTCCTGGGCAGCTGTACG	0.453													20	46	---	---	---	---	PASS	T	186122917	T	T	186122917	2	4	81	1	0	0	0	0	0	0	0	1	7220	1190	42	3		3	HMCN1	1	186122917	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	34491	186122917	63127704	71	30723										
PRG4	10216	broad.mit.edu	37	chr1	186278003	186278003	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaaaccaaagacgacaccaaCtccccgcaagatgacatcaa	5	14	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:186278003C>T	uc001gru.3	+	7	3203	c.3152C>T	c.(3151-3153)ACT>ATT	p.T1051I	PRG4_uc001grt.3_Missense_Mutation_p.T1010I|PRG4_uc009wyl.2_Missense_Mutation_p.T958I|PRG4_uc009wym.2_Missense_Mutation_p.T917I|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	1051					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						ACGACACCAACTCCCCGCAAG	0.453													11	70	---	---	---	---	PASS	T	186278003	T	T	186278003	3	4	81	1	0	0	0	0	1	0	0	0	12481	565	20	3	3174	3	PRG4	1	186278003	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	155086	186278003	62972618	72	30724										
TPR	7175	broad.mit.edu	37	chr1	186305817	186305817	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcttgcttctgtctctttttCagataatgtctttaaaggaa	6	7	5	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:186305817C>T	uc001grv.2	-	33	4813	c.4516G>A	c.(4516-4518)GAA>AAA	p.E1506K		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1506	Potential.				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)		GTCTCTTTTTCAGATAATGTC	0.343			T	NTRK1	papillary thyroid								8	37	---	---	---	---	PASS	T	186305817	T	T	186305817	3	4	81	1	0	0	0	0	1	0	0	0	16413	835	29	2	2651	2	TPR	1	186305817	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	27814	186305817	62944804	73	30725										
KCNT2	343450	broad.mit.edu	37	chr1	196309614	196309614	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	taatataaaagcatatgtctGtagaattcataatgtatcga	6	4	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:196309614G>T	uc001gtd.1	-	16	1700	c.1640C>A	c.(1639-1641)ACA>AAA	p.T547K	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.T497K|KCNT2_uc001gtf.1_Missense_Mutation_p.T547K|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.T547K|KCNT2_uc001gth.1_Missense_Mutation_p.T68K	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	547	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						GCATATGTCTGTAGAATTCAT	0.338													31	72	---	---	---	---	PASS	T	196309614	T	T	196309614	3	4	81	1	0	0	0	0	1	0	0	0	8092	1377	48	3	1819	3	KCNT2	1	196309614	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	10003797	196309614	52941007	74	30726										
CRB1	23418	broad.mit.edu	37	chr1	197398679	197398679	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaaagcctgtgaggaggttcAgtggtgtggattcagcccgt	16	7	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:197398679A>T	uc001gtz.2	+	8	2912	c.2777A>T	c.(2776-2778)CAG>CTG	p.Q926L	CRB1_uc010poz.1_Missense_Mutation_p.Q902L|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.Q814L|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.Q407L|CRB1_uc001gub.1_Missense_Mutation_p.Q575L	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	926	Extracellular (Potential).|EGF-like 14.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						GAGGAGGTTCAGTGGTGTGGA	0.542													50	45	---	---	---	---	PASS	T	197398679	T	T	197398679	3	4	81	1	0	0	0	0	1	0	0	0	3848	188	7	5	2807	5	CRB1	1	197398679	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1089065	197398679	51851942	75	30727										
CRB1	23418	broad.mit.edu	37	chr1	197398732	197398732	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccagtgccagccggtgcttCaaggatttgaatgtaggtag	13	9	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:197398732C>T	uc001gtz.2	+	8	2965	c.2830C>T	c.(2830-2832)CAA>TAA	p.Q944*	CRB1_uc010poz.1_Nonsense_Mutation_p.Q920*|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Nonsense_Mutation_p.Q832*|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Nonsense_Mutation_p.Q425*|CRB1_uc001gub.1_Nonsense_Mutation_p.Q593*	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	944	Extracellular (Potential).|EGF-like 14.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						GCCGGTGCTTCAAGGATTTGA	0.498													5	53	---	---	---	---	PASS	T	197398732	T	T	197398732	4	4	81	1	0	0	0	0	0	1	0	0	3848	827	29	2	2860	2	CRB1	1	197398732	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	53	197398732	51851889	76	30728										
NR5A2	2494	broad.mit.edu	37	chr1	200017935	200017935	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaggagtagtatcttcttcAgagaacttaaggtatgccac	9	9	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:200017935A>T	uc001gvb.2	+	5	1305	c.1099A>T	c.(1099-1101)AGA>TGA	p.R367*	NR5A2_uc001gvc.2_Nonsense_Mutation_p.R321*|NR5A2_uc009wzh.2_Nonsense_Mutation_p.R327*|NR5A2_uc010pph.1_Nonsense_Mutation_p.R295*	NM_205860	NP_995582	O00482	NR5A2_HUMAN	nuclear receptor subfamily 5, group A, member 2	367	Ligand-binding.				embryo development|positive regulation of viral genome replication|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	lipid binding|protein binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Prostate(682;0.19)					TATCTTCTTCAGAGAACTTAA	0.418													33	59	---	---	---	---	PASS	T	200017935	T	T	200017935	4	4	81	1	0	0	0	0	0	1	0	0	10636	180	7	5	1117	5	NR5A2	1	200017935	Nonsense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	2619203	200017935	49232686	77	30729										
CACNA1S	779	broad.mit.edu	37	chr1	201029835	201029835	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgatgagggcaaacatcaggTattcaaagtaggaggaggtg	15	4	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:201029835T>A	uc001gvv.2	-	26	3592	c.3365A>T	c.(3364-3366)TAC>TTC	p.Y1122F		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1122	IV.|Helical; Name=S1 of repeat IV; (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	AAACATCAGGTATTCAAAGTA	0.527													76	73	---	---	---	---	PASS	A	201029835	A	A	201029835	3	1	81	1	0	0	0	0	1	0	0	0	2547	1638	57	5	2332	5	CACNA1S	1	201029835	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	1011900	201029835	48220786	78	30730										
CACNA1S	779	broad.mit.edu	37	chr1	201047033	201047033	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atcttgaagatcctcaggagGcggatgcagcggagcacgga	15	9	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:201047033G>T	uc001gvv.2	-	11	1820	c.1593C>A	c.(1591-1593)CGC>CGA	p.R531R		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	531	II.|Helical; Name=S4 of repeat II; (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TCCTCAGGAGGCGGATGCAGC	0.642													10	14	---	---	---	---	PASS	T	201047033	T	T	201047033	2	4	81	1	0	0	0	0	0	0	0	1	2547	1190	42	3		3	CACNA1S	1	201047033	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	17198	201047033	48203588	79	30731										
UBE2T	29089	broad.mit.edu	37	chr1	202302223	202302223	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tatatttaaattctgaggacTgagatgaaatcaaagaaaag	8	3	2	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:202302223T>A	uc001gxx.3	-	6	521	c.385_splice	c.e6-1	p.S129_splice		NM_014176	NP_054895	Q9NPD8	UBE2T_HUMAN	ubiquitin-conjugating enzyme E2T						DNA repair|protein K11-linked ubiquitination|protein K27-linked ubiquitination|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|protein K63-linked ubiquitination	nucleoplasm	ATP binding|ubiquitin-protein ligase activity				0						TTCTGAGGACTGAGATGAAAT	0.403													38	42	---	---	---	---	PASS	A	202302223	A	A	202302223	5	1	81	1	0	0	0	0	0	0	1	0	16870	1594	55	5	218	5	UBE2T	1	202302223	Splice_Site	SNP	T	TCGA-37-5819-01A-01D-1632-08	1255190	202302223	46948398	80	30732										
KDM5B	10765	broad.mit.edu	37	chr1	202727593	202727593	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agtacggagggtatagtcccTggctgcttgttcaaagccaa	12	9	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:202727593T>A	uc001gyf.2	-	9	1239	c.1123A>T	c.(1123-1125)AGG>TGG	p.R375W	KDM5B_uc009xag.2_Missense_Mutation_p.R411W|KDM5B_uc001gyg.1_Missense_Mutation_p.R217W	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	375					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						GTATAGTCCCTGGCTGCTTGT	0.388													13	23	---	---	---	---	PASS	A	202727593	A	A	202727593	3	1	81	1	0	0	0	0	1	0	0	0	8134	1579	55	5	3587	5	KDM5B	1	202727593	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	425370	202727593	46523028	81	30733										
PRELP	5549	broad.mit.edu	37	chr1	203452366	203452366	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcatcttggcctcagtggcCcaaggccagccaacaagacg	10	15	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:203452366C>T	uc001gzs.2	+	2	254	c.54C>T	c.(52-54)GCC>GCT	p.A18A	PRELP_uc001gzt.2_Silent_p.A18A	NM_002725	NP_002716	P51888	PRELP_HUMAN	proline arginine-rich end leucine-rich repeat	18					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent			ovary(1)|central_nervous_system(1)|pancreas(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.109)			CCTCAGTGGCCCAAGGCCAGC	0.617													25	57	---	---	---	---	PASS	T	203452366	T	T	203452366	2	4	81	1	0	0	0	0	0	0	0	1	12473	610	22	3		3	PRELP	1	203452366	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	724773	203452366	45798255	82	30734										
PIK3C2B	5287	broad.mit.edu	37	chr1	204426972	204426972	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gatggccttgacggactggaCcaccctgtcagccttcagtg	12	13	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:204426972C>A	uc001haw.2	-	10	2076	c.1597G>T	c.(1597-1599)GTC>TTC	p.V533F	PIK3C2B_uc010pqv.1_Missense_Mutation_p.V533F|PIK3C2B_uc001hax.1_Missense_Mutation_p.V533F|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	533					cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			ACGGACTGGACCACCCTGTCA	0.647													9	21	---	---	---	---	PASS	A	204426972	A	A	204426972	3	1	81	1	0	0	0	0	1	0	0	0	11910	507	18	3	3407	3	PIK3C2B	1	204426972	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	974606	204426972	44823649	83	30735										
C1orf74	148304	broad.mit.edu	37	chr1	209956925	209956925	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catgccaagggtctgctgagCagctgccaccagcagctgag	13	13	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:209956925C>T	uc001hhp.1	-	2	298	c.55G>A	c.(55-57)GCT>ACT	p.A19T		NM_152485	NP_689698	Q96LT6	CA074_HUMAN	hypothetical protein LOC148304	19										skin(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0328)		GTCTGCTGAGCAGCTGCCACC	0.597													27	71	---	---	---	---	PASS	T	209956925	T	T	209956925	3	4	81	1	0	0	0	0	1	0	0	0	2058	710	25	3	758	3	C1orf74	1	209956925	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5529953	209956925	39293696	84	30736										
C1orf107	27042	broad.mit.edu	37	chr1	210006670	210006670	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaattttctggaagaggaaAgtggagacaactcttctttg	10	7	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:210006670A>T	uc001hhr.1	+	4	605	c.529A>T	c.(529-531)AGT>TGT	p.S177C	C1orf107_uc009xcu.1_Translation_Start_Site	NM_014388	NP_055203	Q68CQ4	DIEXF_HUMAN	digestive-organ expansion factor homolog	177					multicellular organismal development	nucleus					0				OV - Ovarian serous cystadenocarcinoma(81;0.0367)		GGAAGAGGAAAGTGGAGACAA	0.448													13	56	---	---	---	---	PASS	T	210006670	T	T	210006670	3	4	81	1	0	0	0	0	1	0	0	0	1981	72	3	5	543	5	C1orf107	1	210006670	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	49745	210006670	39243951	85	30737										
INTS7	25896	broad.mit.edu	37	chr1	212151614	212151614	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	attcaaaatgggctttttacCagaagttcttgttgcttgtc	8	7	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:212151614C>A	uc001hiw.1	-	11	1575	c.1470G>T	c.(1468-1470)CTG>CTT	p.L490L	INTS7_uc009xdb.1_Silent_p.L490L|INTS7_uc001hix.1_Silent_p.L366L|INTS7_uc001hiy.1_Silent_p.L490L|INTS7_uc010pta.1_Silent_p.L441L	NM_015434	NP_056249	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	490					snRNA processing	integrator complex	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		GGCTTTTTACCAGAAGTTCTT	0.428													23	100	---	---	---	---	PASS	A	212151614	A	A	212151614	2	1	81	1	0	0	0	0	0	0	0	1	7783	608	21	3		3	INTS7	1	212151614	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	2144944	212151614	37099007	86	30738										
CAPN2	824	broad.mit.edu	37	chr1	223943351	223943351	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atcggctttggcatctatgaGgtgcagagcgcaggggctcc	15	10	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:223943351G>T	uc001hob.3	+	10	1529	c.1305G>T	c.(1303-1305)GAG>GAT	p.E435D	CAPN2_uc010puy.1_Missense_Mutation_p.E357D|CAPN2_uc001hoc.2_5'Flank	NM_001748	NP_001739	P17655	CAN2_HUMAN	calpain 2 isoform 1	435	Domain III.				proteolysis	cytoplasm|plasma membrane				lung(3)|breast(1)|skin(1)	5				GBM - Glioblastoma multiforme(131;0.109)		GCATCTATGAGGTGCAGAGCG	0.612													10	10	---	---	---	---	PASS	T	223943351	T	T	223943351	3	4	81	1	0	0	0	0	1	0	0	0	2627	1014	35	3	1350	3	CAPN2	1	223943351	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	11791737	223943351	25307270	87	30739										
PRSS38	339501	broad.mit.edu	37	chr1	228005074	228005074	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctggtgcagctgaagacccGcattgtgttttctgagtccg	12	11	1	3	rs74588116	byFrequency	TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:228005074G>T	uc001hrh.2	+	3	476	c.476G>T	c.(475-477)CGC>CTC	p.R159L		NM_183062	NP_898885	A1L453	PRS38_HUMAN	marapsin 2 precursor	159	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)|pancreas(1)	2						CTGAAGACCCGCATTGTGTTT	0.562													20	26	---	---	---	---	PASS	T	228005074	T	T	228005074	3	4	81	1	0	0	0	0	1	0	0	0	12627	1087	38	1	486	1	PRSS38	1	228005074	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4061723	228005074	21245547	88	30740										
ABCB10	23456	broad.mit.edu	37	chr1	229676360	229676360	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtgatctacttactgctccaAagaaaccagcccgggcgaat	9	12	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:229676360A>C	uc001htp.3	-	5	1239	c.1196T>G	c.(1195-1197)TTT>TGT	p.F399C		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	399	Mitochondrial intermembrane (Potential).|Mitochondrial matrix (Potential).|ABC transmembrane type-1.					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)				TACTGCTCCAAAGAAACCAGC	0.393													33	44	---	---	---	---	PASS	C	229676360	C	C	229676360	3	2	81	1	0	0	0	0	1	0	0	0	41	14	1	5	1056	5	ABCB10	1	229676360	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1671286	229676360	19574261	89	30741										
ERO1LB	56605	broad.mit.edu	37	chr1	236396138	236396138	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttttgctcaccatcatcttcGcctaaaagagaaaataatag	5	9	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:236396138G>A	uc001hxt.2	-	9	931	c.675C>T	c.(673-675)GGC>GGT	p.G225G		NM_019891	NP_063944	Q86YB8	ERO1B_HUMAN	endoplasmic reticulum oxidoreductin 1-Lbeta	225					electron transport chain|protein thiol-disulfide exchange|transport	endoplasmic reticulum membrane	flavin adenine dinucleotide binding|oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor|unfolded protein binding				0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.123)|Acute lymphoblastic leukemia(190;0.205)|Prostate(94;0.219)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			CATCATCTTCGCCTAAAAGAG	0.274													6	17	---	---	---	---	PASS	A	236396138	A	A	236396138	2	1	81	1	0	0	0	0	0	0	0	1	5240	1101	38	1		1	ERO1LB	1	236396138	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	6719778	236396138	12854483	90	30742										
HEATR1	55127	broad.mit.edu	37	chr1	236746380	236746380	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaggaaaatacaagaaaaacCgagtcctccacggccaccct	7	13	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:236746380C>G	uc001hyd.1	-	18	2483	c.2358G>C	c.(2356-2358)TCG>TCC	p.S786S	HEATR1_uc009xgh.1_Silent_p.S29S	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	786					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CAAGAAAAACCGAGTCCTCCA	0.413													39	94	---	---	---	---	PASS	G	236746380	G	G	236746380	2	3	81	1	0	0	0	0	0	0	0	1	7027	639	23	4		4	HEATR1	1	236746380	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	350242	236746380	12504241	91	30743										
RYR2	6262	broad.mit.edu	37	chr1	237755149	237755149	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgatttcttgatgcaaacgtCcacggtatgaggttgcagct	11	8	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:237755149C>A	uc001hyl.1	+	32	4391	c.4271C>A	c.(4270-4272)TCC>TAC	p.S1424Y		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1424	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			ATGCAAACGTCCACGGTATGA	0.398													9	8	---	---	---	---	PASS	A	237755149	A	A	237755149	3	1	81	1	0	0	0	0	1	0	0	0	13769	855	30	2	4397	2	RYR2	1	237755149	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1008769	237755149	11495472	92	30744										
RYR2	6262	broad.mit.edu	37	chr1	237777541	237777541	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgcgtgctggctactatgacCtgctgattgacatccacctg	10	12	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:237777541C>A	uc001hyl.1	+	37	5233	c.5113C>A	c.(5113-5115)CTG>ATG	p.L1705M		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1705	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CTACTATGACCTGCTGATTGA	0.542													7	8	---	---	---	---	PASS	A	237777541	A	A	237777541	3	1	81	1	0	0	0	0	1	0	0	0	13769	680	24	3	5259	3	RYR2	1	237777541	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	22392	237777541	11473080	93	30745										
RYR2	6262	broad.mit.edu	37	chr1	237817615	237817615	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agatgctggaaatattactgCctgcctggagggtggggaaa	15	6	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:237817615C>A	uc001hyl.1	+	52	7986	c.7866C>A	c.(7864-7866)TGC>TGA	p.C2622*		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2622	Modulator (Potential).|Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AATATTACTGCCTGCCTGGAG	0.378													10	32	---	---	---	---	PASS	A	237817615	A	A	237817615	4	1	81	1	0	0	0	0	0	1	0	0	13769	747	26	3	8072	3	RYR2	1	237817615	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	40074	237817615	11433006	94	30746										
RYR2	6262	broad.mit.edu	37	chr1	237947411	237947411	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aattatttccagccctttctGggccgcatcgaaatcatggg	9	11	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:237947411G>T	uc001hyl.1	+	90	12519	c.12399G>T	c.(12397-12399)CTG>CTT	p.L4133L	RYR2_uc010pya.1_Silent_p.L548L	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4133					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)			AGCCCTTTCTGGGCCGCATCG	0.517													15	16	---	---	---	---	PASS	T	237947411	T	T	237947411	2	4	81	1	0	0	0	0	0	0	0	1	13769	1335	47	3		3	RYR2	1	237947411	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	129796	237947411	11303210	95	30747										
RYR2	6262	broad.mit.edu	37	chr1	237947456	237947456	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gccaaacgcatcgagagggtCtattttgaaatcagtgagtc	11	8	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:237947456C>A	uc001hyl.1	+	90	12564	c.12444C>A	c.(12442-12444)GTC>GTA	p.V4148V	RYR2_uc010pya.1_Silent_p.V563V	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4148					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)			TCGAGAGGGTCTATTTTGAAA	0.502													12	24	---	---	---	---	PASS	A	237947456	A	A	237947456	2	1	81	1	0	0	0	0	0	0	0	1	13769	900	32	2		2	RYR2	1	237947456	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	45	237947456	11303165	96	30748										
RGS7	6000	broad.mit.edu	37	chr1	240939492	240939492	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgagcaaggcttgttaaccTcttggacgtgagagatttcc	11	9	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:240939492T>G	uc001hyv.2	-	18	1765	c.1435A>C	c.(1435-1437)AGG>CGG	p.R479R	RGS7_uc010pyh.1_Intron|RGS7_uc010pyj.1_3'UTR|RGS7_uc001hyu.2_3'UTR|RGS7_uc009xgn.1_3'UTR|RGS7_uc001hyw.2_Silent_p.R461R|RGS7_uc010pyi.1_RNA|RGS7_uc001hyt.2_3'UTR	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	Error:Variant_position_missing_in_P49802_after_alignment					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			CTTGTTAACCTCTTGGACGTG	0.398													15	53	---	---	---	---	PASS	G	240939492	G	G	240939492	2	3	81	1	0	0	0	0	0	0	0	1	13310	1550	54	5		5	RGS7	1	240939492	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	2992036	240939492	8311129	97	30749										
AHCTF1	25909	broad.mit.edu	37	chr1	247024390	247024390	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atactctaaggtagtctcatCggatgtgattgaaacactgc	9	8	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:247024390C>A	uc001ibu.1	-	28	3950	c.3943G>T	c.(3943-3945)GAT>TAT	p.D1315Y	AHCTF1_uc001ibv.1_Missense_Mutation_p.D1324Y|AHCTF1_uc009xgs.1_Missense_Mutation_p.D176Y|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	1315	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			GTAGTCTCATCGGATGTGATT	0.468													13	32	---	---	---	---	PASS	A	247024390	A	A	247024390	3	1	81	1	0	0	0	0	1	0	0	0	408	884	31	2	2889	2	AHCTF1	1	247024390	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	6084898	247024390	2226231	98	30750										
TRIM58	25893	broad.mit.edu	37	chr1	248039721	248039721	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttgccacccacaacaatagCagggtcaggaaattgggcat	10	11	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:248039721C>T	uc001ido.2	+	6	1439	c.1391C>T	c.(1390-1392)GCA>GTA	p.A464V	OR2W3_uc001idp.1_Intron	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	464						intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			ACAACAATAGCAGGGTCAGGA	0.428													19	66	---	---	---	---	PASS	T	248039721	T	T	248039721	3	4	81	1	0	0	0	0	1	0	0	0	16528	710	25	3	1413	3	TRIM58	1	248039721	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1015331	248039721	1210900	99	30751										
OR2T8	343172	broad.mit.edu	37	chr1	248085221	248085221	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggtgaagggagccctgacaaGgtgtatgggtcggtgtgtgg	20	5	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:248085221G>A	uc010pzc.1	+	1	902	c.902G>A	c.(901-903)AGG>AAG	p.R301K		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GCCCTGACAAGGTGTATGGGT	0.443													25	57	---	---	---	---	PASS	A	248085221	A	A	248085221	3	1	81	1	0	0	0	0	1	0	0	0	11030	1000	35	3	904	3	OR2T8	1	248085221	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	45500	248085221	1165400	100	30752										
OR2T6	254879	broad.mit.edu	37	chr1	248551326	248551326	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctgtcctcatcagctggcgGgtctgctggatgatcctggc	13	13	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:248551326G>T	uc001iei.1	+	1	417	c.417G>T	c.(415-417)CGG>CGT	p.R139R		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCAGCTGGCGGGTCTGCTGGA	0.582													14	35	---	---	---	---	PASS	T	248551326	T	T	248551326	2	4	81	1	0	0	0	0	0	0	0	1	11029	1219	43	3		3	OR2T6	1	248551326	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	466105	248551326	699295	101	30753										
OR2T2	401992	broad.mit.edu	37	chr1	248616139	248616139	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccagaactccactaacttcgTcctcacaggcctcatcaccc	4	19	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr1:248616139T>C	uc001iek.1	+	1	41	c.41T>C	c.(40-42)GTC>GCC	p.V14A		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ACTAACTTCGTCCTCACAGGC	0.502													9	52	---	---	---	---	PASS	C	248616139	C	C	248616139	3	2	81	1	0	0	0	0	1	0	0	0	11020	1667	58	5	43	5	OR2T2	1	248616139	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	64813	248616139	634482	102	30754										
APOB	338	broad.mit.edu	37	chr2	21230480	21230480	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgaacctagcacttacttgcCaacttgcttgctgggcactg	9	12	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:21230480C>A	uc002red.2	-	26	9388	c.9260G>T	c.(9259-9261)TGG>TTG	p.W3087L		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3087					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ACTTACTTGCCAACTTGCTTG	0.408													12	65	---	---	---	---	PASS	A	21230480	A	A	21230480	3	1	81	1	0	0	0	0	1	0	0	0	785	595	21	3	4447	3	APOB	2	21230480	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08		21230480	221968893	103	30755										
APOB	338	broad.mit.edu	37	chr2	21255445	21255445	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	actgaaccaaggcttgtaaaGtgatggggctgagaagaaag	14	5	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:21255445G>A	uc002red.2	-	10	1261	c.1133C>T	c.(1132-1134)ACT>ATT	p.T378I		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	378	Vitellogenin.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GGCTTGTAAAGTGATGGGGCT	0.498													8	8	---	---	---	---	PASS	A	21255445	A	A	21255445	3	1	81	1	0	0	0	0	1	0	0	0	785	1029	36	3	12638	3	APOB	2	21255445	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	24965	21255445	221943928	104	30756										
OTOF	9381	broad.mit.edu	37	chr2	26696407	26696407	+	Missense_Mutation	SNP	T	C	C													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctgggccaggttcacccgcTttaggtcccgtaggccccag							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:26696407T>C	uc002rhk.2	-	28	3564	c.3437A>G	c.(3436-3438)AAG>AGG	p.K1146R	OTOF_uc010yla.1_5'UTR|OTOF_uc002rhh.2_Missense_Mutation_p.K399R|OTOF_uc002rhi.2_Missense_Mutation_p.K456R|OTOF_uc002rhj.2_Missense_Mutation_p.K399R	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1146	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTTCACCCGCTTTAGGTCCCG	0.622													11	20	---	---	---	---	PASS	C	26696407	C	C	26696407	3	2	81	1	0	0	0	0	1	0	0	0	11303	1609	56	5	2817	5	OTOF	2	26696407	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	5440962	26696407	216502966	105	30757	610	2								
OTOF	9381	broad.mit.edu	37	chr2	26696417	26696417	+	Silent	SNP	G	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttcacccgctttaggtcccGtaggccccagaacagcacct							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:26696417G>T	uc002rhk.2	-	28	3554	c.3427C>A	c.(3427-3429)CGG>AGG	p.R1143R	OTOF_uc010yla.1_5'UTR|OTOF_uc002rhh.2_Silent_p.R396R|OTOF_uc002rhi.2_Silent_p.R453R|OTOF_uc002rhj.2_Silent_p.R396R	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1143	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTTAGGTCCCGTAGGCCCCAG	0.612													11	19	---	---	---	---	PASS	T	26696417	T	T	26696417	2	4	81	1	0	0	0	0	0	0	0	1	11303	1144	40	1		1	OTOF	2	26696417	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	10	26696417	216502956	106	30758	610	2								
LCLAT1	253558	broad.mit.edu	37	chr2	30863433	30863433	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggagatcatagaacttgcatGttaccgacttttacacaaac	7	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:30863433G>A	uc002rnj.2	+	7	1402	c.1193G>A	c.(1192-1194)TGT>TAT	p.C398Y	LCLAT1_uc010ymp.1_Missense_Mutation_p.C236Y|LCLAT1_uc002rnl.2_Missense_Mutation_p.C360Y|LCLAT1_uc010ymq.1_Missense_Mutation_p.C360Y	NM_182551	NP_872357	Q6UWP7	LCLT1_HUMAN	lysocardiolipin acyltransferase 1 isoform 1	398					multicellular organismal development|phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			ovary(2)	2						GAACTTGCATGTTACCGACTT	0.328													40	28	---	---	---	---	PASS	A	30863433	A	A	30863433	3	1	81	1	0	0	0	0	1	0	0	0	8677	1377	48	3	1215	3	LCLAT1	2	30863433	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4167016	30863433	212335940	107	30759										
XDH	7498	broad.mit.edu	37	chr2	31595154	31595154	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagacagctcattctcgtagCgaggaatgtcgtcacagtac	11	10	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:31595154C>G	uc002rnv.1	-	17	1875	c.1796G>C	c.(1795-1797)CGC>CCC	p.R599P		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	599					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	ATTCTCGTAGCGAGGAATGTC	0.632													59	78	---	---	---	---	PASS	G	31595154	G	G	31595154	3	3	81	1	0	0	0	0	1	0	0	0	17423	768	27	4	2285	4	XDH	2	31595154	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	731721	31595154	211604219	108	30760										
BIRC6	57448	broad.mit.edu	37	chr2	32750675	32750675	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tactgtcccagtgtttcaccTgtttcacaaactcttggcag	7	12	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:32750675T>C	uc010ezu.2	+	59	12034	c.11900T>C	c.(11899-11901)CTG>CCG	p.L3967P		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3967					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)					GTGTTTCACCTGTTTCACAAA	0.413													6	21	---	---	---	---	PASS	C	32750675	C	C	32750675	3	2	81	1	0	0	0	0	1	0	0	0	1438	1580	55	5	12134	5	BIRC6	2	32750675	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	1155521	32750675	210448698	109	30761										
LTBP1	4052	broad.mit.edu	37	chr2	33589321	33589321	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	accccagtagttgtattgatGgccagtgtgttaatacagag	11	7	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:33589321G>T	uc002ros.2	+	30	4441	c.4441G>T	c.(4441-4443)GGC>TGC	p.G1481C	LTBP1_uc002rot.2_Missense_Mutation_p.G1155C|LTBP1_uc002rou.2_Missense_Mutation_p.G1154C|LTBP1_uc002rov.2_Missense_Mutation_p.G1101C|LTBP1_uc010ymz.1_Missense_Mutation_p.G1112C|LTBP1_uc010yna.1_Missense_Mutation_p.G1059C|LTBP1_uc010ynb.1_Missense_Mutation_p.G378C	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1480	EGF-like 16; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				TTGTATTGATGGCCAGTGTGT	0.413													20	35	---	---	---	---	PASS	T	33589321	T	T	33589321	3	4	81	1	0	0	0	0	1	0	0	0	9073	1348	47	3	4611	3	LTBP1	2	33589321	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	838646	33589321	209610052	110	30762										
RASGRP3	25780	broad.mit.edu	37	chr2	33752399	33752399	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgaaaatgcaccagctctccGttaccctgagtgaactagtc	8	12	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:33752399G>C	uc002rox.2	+	11	1630	c.1003G>C	c.(1003-1005)GTT>CTT	p.V335L	RASGRP3_uc010ync.1_Missense_Mutation_p.V335L|RASGRP3_uc002roy.2_Missense_Mutation_p.V335L	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	335	Ras-GEF.				MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					CCAGCTCTCCGTTACCCTGAG	0.478													15	11	---	---	---	---	PASS	C	33752399	C	C	33752399	3	2	81	1	0	0	0	0	1	0	0	0	13076	1145	40	4	1033	4	RASGRP3	2	33752399	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	163078	33752399	209446974	111	30763										
KCNK12	56660	broad.mit.edu	37	chr2	47748783	47748783	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggcgggcagcaggccgctgcGgcgcagctggcgctcccggc	19	16	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:47748783G>T	uc002rwb.2	-	2	556	c.556C>A	c.(556-558)CGC>AGC	p.R186S	MSH2_uc002rvz.2_Intron	NM_022055	NP_071338	Q9HB15	KCNKC_HUMAN	potassium channel, subfamily K, member 12	186	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_hematologic(82;0.0495)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AGGCCGCTGCGGCGCAGCTGG	0.701													3	4	---	---	---	---	PASS	T	47748783	T	T	47748783	3	4	81	1	0	0	0	0	1	0	0	0	8060	1116	39	1	740	1	KCNK12	2	47748783	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	13996384	47748783	195450590	112	30764										
NRXN1	9378	broad.mit.edu	37	chr2	50149125	50149125	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgtttttcttatttttgttgGagcttttcgcactgctgggt	10	6	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:50149125G>T	uc010fbp.2	-	6	2093	c.1286C>A	c.(1285-1287)TCC>TAC	p.S429Y	NRXN1_uc002rxb.3_Missense_Mutation_p.S1163Y|NRXN1_uc010fbq.2_Missense_Mutation_p.S1534Y|NRXN1_uc002rxe.3_Missense_Mutation_p.S1464Y|NRXN1_uc010yon.1_Missense_Mutation_p.S129Y|NRXN1_uc002rxa.3_Missense_Mutation_p.S126Y	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	429	Cytoplasmic (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			ATTTTTGTTGGAGCTTTTCGC	0.393													8	33	---	---	---	---	PASS	T	50149125	T	T	50149125	3	4	81	1	0	0	0	0	1	0	0	0	10665	1174	41	2	46	2	NRXN1	2	50149125	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2400342	50149125	193050248	113	30765										
ASB3	51130	broad.mit.edu	37	chr2	53941600	53941600	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtctgggctgtagccattccGgagtaatatttctaggcaat	11	8	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:53941600G>A	uc002rxg.1	-	7	1036	c.901C>T	c.(901-903)CGG>TGG	p.R301W	ASB3_uc002rxh.1_Missense_Mutation_p.R228W|ASB3_uc002rxi.3_Missense_Mutation_p.R339W|ASB3_uc010yoo.1_Missense_Mutation_p.R218W	NM_016115	NP_057199	Q9Y575	ASB3_HUMAN	ankyrin repeat and SOCS box-containing protein 3	301	ANK 9.				intracellular signal transduction					ovary(1)|kidney(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TAGCCATTCCGGAGTAATATT	0.468													43	55	---	---	---	---	PASS	A	53941600	A	A	53941600	3	1	81	1	0	0	0	0	1	0	0	0	1024	1115	39	1	671	1	ASB3	2	53941600	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3792475	53941600	189257773	114	30766										
USP34	9736	broad.mit.edu	37	chr2	61522091	61522091	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catatgatcaaaccttgcaaCtccaggaatttttactattt	4	9	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:61522091C>A	uc002sbe.2	-	32	4476	c.4454G>T	c.(4453-4455)AGT>ATT	p.S1485I		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	1485					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			AACCTTGCAACTCCAGGAATT	0.294													6	21	---	---	---	---	PASS	A	61522091	A	A	61522091	3	1	81	1	0	0	0	0	1	0	0	0	17062	565	20	3	6382	3	USP34	2	61522091	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	7580491	61522091	181677282	115	30767										
GKN1	56287	broad.mit.edu	37	chr2	69207139	69207139	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctgagcaagttcggaaaaaAcattgcaaacatgtgtcgtg	10	8	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:69207139A>T	uc002sfc.2	+	5	515	c.452A>T	c.(451-453)AAC>ATC	p.N151I		NM_019617	NP_062563	Q9NS71	GKN1_HUMAN	18 kDa antrum mucosa protein precursor	151	BRICHOS.				digestion|positive regulation of cell division	extracellular region				breast(1)	1						TTCGGAAAAAACATTGCAAAC	0.507													21	29	---	---	---	---	PASS	T	69207139	T	T	69207139	3	4	81	1	0	0	0	0	1	0	0	0	6424	43	2	5	470	5	GKN1	2	69207139	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	7685048	69207139	173992234	116	30768										
ADD2	119	broad.mit.edu	37	chr2	70922931	70922931	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcctgctccttgctgactctCaactggaggaaagacacaag	9	12	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:70922931C>A	uc002sgz.2	-	6	942	c.477G>T	c.(475-477)TTG>TTT	p.L159F	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Missense_Mutation_p.L159F|ADD2_uc002sha.2_Missense_Mutation_p.L159F|ADD2_uc002sgx.2_Missense_Mutation_p.L159F|ADD2_uc010fdt.1_Missense_Mutation_p.L159F|ADD2_uc002shc.1_Missense_Mutation_p.L159F|ADD2_uc002shd.1_Missense_Mutation_p.L159F|ADD2_uc010fdu.1_Missense_Mutation_p.L175F	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	159					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						TGCTGACTCTCAACTGGAGGA	0.527													6	10	---	---	---	---	PASS	A	70922931	A	A	70922931	3	1	81	1	0	0	0	0	1	0	0	0	305	825	29	2	1928	2	ADD2	2	70922931	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1715792	70922931	172276442	117	30769										
REG3G	130120	broad.mit.edu	37	chr2	79255037	79255037	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atcttaaaccctggccactgTgggagcctgtcaagaagcac	10	12	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:79255037T>A	uc002snw.2	+	5	523	c.438T>A	c.(436-438)TGT>TGA	p.C146*	REG3G_uc002snx.2_Nonsense_Mutation_p.C146*|REG3G_uc010ffu.2_Nonsense_Mutation_p.C100*	NM_198448	NP_940850	Q6UW15	REG3G_HUMAN	regenerating islet-derived 3 gamma precursor	146	C-type lectin.				acute-phase response	extracellular region	sugar binding				0						CTGGCCACTGTGGGAGCCTGT	0.493													25	35	---	---	---	---	PASS	A	79255037	A	A	79255037	4	1	81	1	0	0	0	0	0	1	0	0	13213	1702	59	5	452	5	REG3G	2	79255037	Nonsense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	8332106	79255037	163944336	118	30770										
THNSL2	55258	broad.mit.edu	37	chr2	88474199	88474199	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcagattccgtcacagagaaGtggtccatctgtccaggttg	12	10	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:88474199G>T	uc002ssz.3	+	3	418	c.265G>T	c.(265-267)GTG>TTG	p.V89L	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_Missense_Mutation_p.V89L|THNSL2_uc002ssx.3_Missense_Mutation_p.V57L|THNSL2_uc002sta.3_Intron|THNSL2_uc002ssy.3_Missense_Mutation_p.V89L|THNSL2_uc010fhe.2_5'UTR	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	89					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						TCACAGAGAAGTGGTCCATCT	0.537													14	26	---	---	---	---	PASS	T	88474199	T	T	88474199	3	4	81	1	0	0	0	0	1	0	0	0	15860	1029	36	3	271	3	THNSL2	2	88474199	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	9219162	88474199	154725174	119	30771										
VWA3B	200403	broad.mit.edu	37	chr2	98809499	98809499	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aagatcattcagttcatacaGgttagatggaactgtcggtt	10	6	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:98809499G>T	uc002syo.2	+	11	1869	c.1605G>T	c.(1603-1605)CAG>CAT	p.Q535H	VWA3B_uc010yvh.1_Missense_Mutation_p.Q385H|VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Missense_Mutation_p.Q54H|VWA3B_uc002sym.2_Missense_Mutation_p.Q535H|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.Q192H|VWA3B_uc002syp.1_Translation_Start_Site	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	535	VWFA.									ovary(3)|large_intestine(2)|skin(1)	6						AGTTCATACAGGTTAGATGGA	0.413													47	43	---	---	---	---	PASS	T	98809499	T	T	98809499	3	4	81	1	0	0	0	0	1	0	0	0	17238	1014	35	3	1643	3	VWA3B	2	98809499	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	10335300	98809499	144389874	120	30772										
INPP4A	3631	broad.mit.edu	37	chr2	99170832	99170832	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tacattgcctccaaggcctcTcccacttcgactgaggagga	9	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:99170832T>G	uc002syy.2	+	16	1854	c.1461T>G	c.(1459-1461)TCT>TCG	p.S487S	INPP4A_uc010yvj.1_Silent_p.S487S|INPP4A_uc010yvk.1_Silent_p.S487S|INPP4A_uc002syx.2_Silent_p.S482S|INPP4A_uc010fik.2_Intron	NM_001134224	NP_001127696	Q96PE3	INP4A_HUMAN	inositol polyphosphate-4-phosphatase, type 1	487					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			kidney(1)	1						CCAAGGCCTCTCCCACTTCGA	0.602													3	7	---	---	---	---	PASS	G	99170832	G	G	99170832	2	3	81	1	0	0	0	0	0	0	0	1	7752	1538	54	5		5	INPP4A	2	99170832	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	361333	99170832	144028541	121	30773										
PDCL3	79031	broad.mit.edu	37	chr2	101188050	101188050	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttttctatgtgtgttttatAgaattcccctctgtgccctg	8	9	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:101188050A>G	uc002tao.2	+	5	481	c.369_splice	c.e5-2	p.G123_splice		NM_024065	NP_076970	Q9H2J4	PDCL3_HUMAN	phosducin-like 3						apoptosis|interspecies interaction between organisms	cytoplasm	protein binding				0						TGTGTTTTATAGAATTCCCCT	0.388													17	32	---	---	---	---	PASS	G	101188050	G	G	101188050	5	3	81	1	0	0	0	0	0	0	1	0	11628	434	15	5	385	5	PDCL3	2	101188050	Splice_Site	SNP	A	TCGA-37-5819-01A-01D-1632-08	2017218	101188050	142011323	122	30774										
MAP4K4	9448	broad.mit.edu	37	chr2	102475492	102475492	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acagctagaagaggagcagcGgcacttggaagtccttcagc	13	10	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:102475492G>A	uc002tbg.2	+	14	1485	c.1430G>A	c.(1429-1431)CGG>CAG	p.R477Q	MAP4K4_uc002tbc.2_Missense_Mutation_p.R477Q|MAP4K4_uc002tbd.2_Missense_Mutation_p.R477Q|MAP4K4_uc002tbe.2_Missense_Mutation_p.R477Q|MAP4K4_uc002tbf.2_Missense_Mutation_p.R477Q|MAP4K4_uc010yvy.1_Missense_Mutation_p.R477Q|MAP4K4_uc002tbh.2_Missense_Mutation_p.R477Q|MAP4K4_uc002tbi.2_Missense_Mutation_p.R330Q|MAP4K4_uc010yvz.1_Missense_Mutation_p.R457Q|MAP4K4_uc002tbk.2_5'UTR|MAP4K4_uc002tbj.1_Missense_Mutation_p.R373Q	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	477					intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GAGGAGCAGCGGCACTTGGAA	0.507													11	41	---	---	---	---	PASS	A	102475492	A	A	102475492	3	1	81	1	0	0	0	0	1	0	0	0	9262	1116	39	1	1484	1	MAP4K4	2	102475492	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1287442	102475492	140723881	123	30775										
SLC9A4	389015	broad.mit.edu	37	chr2	103095403	103095403	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttcggcaccgaccacaaatCgcctccggtcatggactcca	8	17	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:103095403C>A	uc002tbz.3	+	2	819	c.362C>A	c.(361-363)TCG>TAG	p.S121*		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	121	Extracellular (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						GACCACAAATCGCCTCCGGTC	0.612													33	19	---	---	---	---	PASS	A	103095403	A	A	103095403	4	1	81	1	0	0	0	0	0	1	0	0	14716	893	31	2	368	2	SLC9A4	2	103095403	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	619911	103095403	140103970	124	30776										
CNTNAP5	129684	broad.mit.edu	37	chr2	125530578	125530578	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cattttcgactgcagctgaaCagccagttgtttgtaggtag	11	8	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:125530578C>A	uc002tno.2	+	17	3097	c.2733C>A	c.(2731-2733)AAC>AAA	p.N911K	CNTNAP5_uc010flu.2_Missense_Mutation_p.N912K	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	911	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TGCAGCTGAACAGCCAGTTGT	0.517													32	31	---	---	---	---	PASS	A	125530578	A	A	125530578	3	1	81	1	0	0	0	0	1	0	0	0	3650	477	17	3	2799	3	CNTNAP5	2	125530578	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	22435175	125530578	117668795	125	30777										
GPR17	2840	broad.mit.edu	37	chr2	128409084	128409084	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acgtcaaccgctccgtctacGtgctgcactaccgcagccat	8	17	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:128409084G>A	uc010yzn.1	+	4	1470	c.859G>A	c.(859-861)GTG>ATG	p.V287M	LIMS2_uc002tox.2_Intron|LIMS2_uc010fmb.2_Intron|LIMS2_uc002toy.2_Intron|LIMS2_uc010yzm.1_Intron|LIMS2_uc002tpa.2_Intron|LIMS2_uc002toz.2_Intron|LIMS2_uc002tpb.2_Intron|GPR17_uc002tpc.2_Missense_Mutation_p.V287M|GPR17_uc010yzo.1_Missense_Mutation_p.V259M|GPR17_uc002tpd.2_Missense_Mutation_p.V259M	NM_001161415	NP_001154887	Q13304	GPR17_HUMAN	G protein-coupled receptor 17 isoform a	287	Extracellular (Potential).					integral to plasma membrane	chemokine receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	Colorectal(110;0.1)	Ovarian(717;0.15)		BRCA - Breast invasive adenocarcinoma(221;0.0677)		CTCCGTCTACGTGCTGCACTA	0.642													25	20	---	---	---	---	PASS	A	128409084	A	A	128409084	3	1	81	1	0	0	0	0	1	0	0	0	6667	1145	40	1	865	1	GPR17	2	128409084	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2878506	128409084	114790289	126	30778										
UGGT1	56886	broad.mit.edu	37	chr2	128865517	128865517	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttcttccttgacaggtaccGattattcctactatcatgca	6	11	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:128865517G>T	uc002tps.2	+	4	461	c.283G>T	c.(283-285)GAT>TAT	p.D95Y	UGGT1_uc010fme.1_Intron|UGGT1_uc002tpr.2_Missense_Mutation_p.D71Y	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	95					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						GACAGGTACCGATTATTCCTA	0.378													55	65	---	---	---	---	PASS	T	128865517	T	T	128865517	3	4	81	1	0	0	0	0	1	0	0	0	16938	1058	37	2	297	2	UGGT1	2	128865517	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	456433	128865517	114333856	127	30779										
POTEF	728378	broad.mit.edu	37	chr2	130832536	130832536	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtacagggacagcacagcctGgatggccacgtacatggctg	14	11	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:130832536G>T	uc010fmh.2	-	17	2909	c.2509C>A	c.(2509-2511)CAG>AAG	p.Q837K		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	837	Actin-like.					cell cortex	ATP binding			skin(3)|ovary(2)	5						AGCACAGCCTGGATGGCCACG	0.587													38	103	---	---	---	---	PASS	T	130832536	T	T	130832536	3	4	81	1	0	0	0	0	1	0	0	0	12265	1357	47	3	722	3	POTEF	2	130832536	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1967019	130832536	112366837	128	30780										
POTEF	728378	broad.mit.edu	37	chr2	130877781	130877781	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgcagcaggggaagcagtggCagcaccacttgcccatcttg	13	12	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:130877781C>A	uc010fmh.2	-	3	708	c.308G>T	c.(307-309)TGC>TTC	p.C103F		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	103						cell cortex	ATP binding			skin(3)|ovary(2)	5						GAAGCAGTGGCAGCACCACTT	0.612													11	153	---	---	---	---	PASS	A	130877781	A	A	130877781	3	1	81	1	0	0	0	0	1	0	0	0	12265	710	25	3	2979	3	POTEF	2	130877781	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	45245	130877781	112321592	129	30781										
PTPN18	26469	broad.mit.edu	37	chr2	131130736	131130736	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccttcttctcccaggtttcaAcctgcgcattgggaggccga	10	14	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:131130736A>G	uc002trc.2	+	15	1423	c.1322A>G	c.(1321-1323)AAC>AGC	p.N441S	PTPN18_uc002trd.2_Missense_Mutation_p.N420S|PTPN18_uc002trb.2_Missense_Mutation_p.N334S|PTPN18_uc002tre.2_Missense_Mutation_p.N92S	NM_014369	NP_055184	Q99952	PTN18_HUMAN	protein tyrosine phosphatase, non-receptor type	441						cytoplasm|nucleus	non-membrane spanning protein tyrosine phosphatase activity			ovary(3)|kidney(1)	4	Colorectal(110;0.1)					CCAGGTTTCAACCTGCGCATT	0.622													5	9	---	---	---	---	PASS	G	131130736	G	G	131130736	3	3	81	1	0	0	0	0	1	0	0	0	12784	43	2	5	1380	5	PTPN18	2	131130736	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	252955	131130736	112068637	130	30782										
FAM123C	205147	broad.mit.edu	37	chr2	131520610	131520610	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcagtgcgtcagcagcagcGtgccctcctaggcccgtggc	13	16	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:131520610G>A	uc002trw.2	+	2	1155	c.965G>A	c.(964-966)CGT>CAT	p.R322H	FAM123C_uc010fmv.2_Missense_Mutation_p.R322H|FAM123C_uc010fms.1_Missense_Mutation_p.R322H|FAM123C_uc010fmt.1_Missense_Mutation_p.R322H|FAM123C_uc010fmu.1_Missense_Mutation_p.R322H	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	322										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		CAGCAGCAGCGTGCCCTCCTA	0.662													21	19	---	---	---	---	PASS	A	131520610	A	A	131520610	3	1	81	1	0	0	0	0	1	0	0	0	5424	1145	40	1	967	1	FAM123C	2	131520610	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	389874	131520610	111678763	131	30783										
POTEE	445582	broad.mit.edu	37	chr2	131976283	131976283	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caagatggggaagtggtgctGccactgcttcccctgctgca	13	12	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:131976283G>T	uc002tsn.2	+	1	360	c.308G>T	c.(307-309)TGC>TTC	p.C103F	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	103							ATP binding				0						AAGTGGTGCTGCCACTGCTTC	0.622													12	49	---	---	---	---	PASS	T	131976283	T	T	131976283	3	4	81	1	0	0	0	0	1	0	0	0	12264	1319	46	3	310	3	POTEE	2	131976283	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	455673	131976283	111223090	132	30784										
POTEE	445582	broad.mit.edu	37	chr2	132021537	132021537	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagccatgtacgtggccatcCaggccgtgccgtccctgtac	11	16	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:132021537C>A	uc002tsn.2	+	15	2561	c.2509C>A	c.(2509-2511)CAG>AAG	p.Q837K	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.Q437K|POTEE_uc002tsl.2_Missense_Mutation_p.Q419K|POTEE_uc010fmy.1_Missense_Mutation_p.Q301K	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	837	Actin-like.						ATP binding				0						CGTGGCCATCCAGGCCGTGCC	0.607													7	199	---	---	---	---	PASS	A	132021537	A	A	132021537	3	1	81	1	0	0	0	0	1	0	0	0	12264	595	21	3	2567	3	POTEE	2	132021537	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	45254	132021537	111177836	133	30785										
MCM6	4175	broad.mit.edu	37	chr2	136626375	136626375	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aactgggtgagtccgcaccaCctgcccactgatgcgagtga	12	13	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:136626375C>A	uc002tuw.2	-	4	497	c.421G>T	c.(421-423)GTG>TTG	p.V141L		NM_005915	NP_005906	Q14566	MCM6_HUMAN	minichromosome maintenance complex component 6	141					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|identical protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.166)	Atorvastatin(DB01076)	GTCCGCACCACCTGCCCACTG	0.468													61	36	---	---	---	---	PASS	A	136626375	A	A	136626375	3	1	81	1	0	0	0	0	1	0	0	0	9391	507	18	3	2100	3	MCM6	2	136626375	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	4604838	136626375	106572998	134	30786										
THSD7B	80731	broad.mit.edu	37	chr2	138320815	138320815	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atgaggcagtcccatgttacAgtgagtgcaatcagtattcc	10	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:138320815A>T	uc002tva.1	+	15	3076	c.3076A>T	c.(3076-3078)AGT>TGT	p.S1026C	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CCCATGTTACAGTGAGTGCAA	0.413													17	13	---	---	---	---	PASS	T	138320815	T	T	138320815	3	4	81	1	0	0	0	0	1	0	0	0	15877	188	7	5	3133	5	THSD7B	2	138320815	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1694440	138320815	104878558	135	30787										
SPOPL	339745	broad.mit.edu	37	chr2	139310249	139310249	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acaagcttacattattttgtGaggtgggtacatcttttatt	8	5	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:139310249G>T	uc002tvh.2	+	5	878	c.478G>T	c.(478-480)GAG>TAG	p.E160*		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	160	MATH.					nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		ATTATTTTGTGAGGTGGGTAC	0.328													25	32	---	---	---	---	PASS	T	139310249	T	T	139310249	4	4	81	1	0	0	0	0	0	1	0	0	15084	1291	45	2	492	2	SPOPL	2	139310249	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	989434	139310249	103889124	136	30788										
NXPH2	11249	broad.mit.edu	37	chr2	139429108	139429108	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgggcaccggagactgtttaAcaaacaggcgcaggggactg	15	9	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:139429108A>T	uc002tvi.2	-	2	179	c.179T>A	c.(178-180)GTT>GAT	p.V60D		NM_007226	NP_009157	O95156	NXPH2_HUMAN	neurexophilin 2 precursor	60	II.				neuropeptide signaling pathway	extracellular region				ovary(3)|skin(1)	4				BRCA - Breast invasive adenocarcinoma(221;0.101)		AGACTGTTTAACAAACAGGCG	0.577													54	50	---	---	---	---	PASS	T	139429108	T	T	139429108	3	4	81	1	0	0	0	0	1	0	0	0	10791	43	2	5	619	5	NXPH2	2	139429108	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	118859	139429108	103770265	137	30789										
LRP1B	53353	broad.mit.edu	37	chr2	141110623	141110623	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gatgggaacatgtgccaaacAccaaacattcattaaggtct	8	9	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:141110623A>G	uc002tvj.1	-	76	12521	c.11549T>C	c.(11548-11550)GTG>GCG	p.V3850A		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3850	Extracellular (Potential).|EGF-like 9.				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)		TGTGCCAAACACCAAACATTC	0.353										TSP Lung(27;0.18)			38	28	---	---	---	---	PASS	G	141110623	G	G	141110623	3	3	81	1	0	0	0	0	1	0	0	0	8955	159	6	5	2314	5	LRP1B	2	141110623	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1681515	141110623	102088750	138	30790										
LRP1B	53353	broad.mit.edu	37	chr2	141243075	141243075	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gacagcaagtgcattggggaCcgctgtgttatgaactacct	12	9	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:141243075C>A	uc002tvj.1	-	59	10234	c.9262G>T	c.(9262-9264)GTC>TTC	p.V3088F		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3088	Extracellular (Potential).|LDL-receptor class B 28.				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)		GCATTGGGGACCGCTGTGTTA	0.373										TSP Lung(27;0.18)			20	17	---	---	---	---	PASS	A	141243075	A	A	141243075	3	1	81	1	0	0	0	0	1	0	0	0	8955	507	18	3	4669	3	LRP1B	2	141243075	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	132452	141243075	101956298	139	30791										
ZEB2	9839	broad.mit.edu	37	chr2	145157292	145157292	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggatccttcatgtgataacCtttcaactttgaaatttctt	5	8	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:145157292C>T	uc002tvu.2	-	8	1942	c.1462G>A	c.(1462-1464)GGT>AGT	p.G488S	ZEB2_uc002tvv.2_Missense_Mutation_p.G482S|ZEB2_uc010zbm.1_Missense_Mutation_p.G459S|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.G517S	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	488						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		ATGTGATAACCTTTCAACTTT	0.413													37	35	---	---	---	---	PASS	T	145157292	T	T	145157292	3	4	81	1	0	0	0	0	1	0	0	0	17621	681	24	3	2194	3	ZEB2	2	145157292	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3914217	145157292	98042081	140	30792										
NEB	4703	broad.mit.edu	37	chr2	152521924	152521924	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtaagtgaacttcagcttctCggggtgctggcgatacttct	12	9	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:152521924C>A	uc010fnx.2	-	42	5352	c.5161G>T	c.(5161-5163)GAG>TAG	p.E1721*		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1721	Nebulin 44.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TTCAGCTTCTCGGGGTGCTGG	0.507													23	13	---	---	---	---	PASS	A	152521924	A	A	152521924	4	1	81	1	0	0	0	0	0	1	0	0	10302	893	31	2	21089	2	NEB	2	152521924	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	7364632	152521924	90677449	141	30793										
NEB	4703	broad.mit.edu	37	chr2	152522777	152522777	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtggtacttggtcttgctggCttcatagccctttttgtact	10	9	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:152522777C>A	uc010fnx.2	-	41	5049	c.4858G>T	c.(4858-4860)GCC>TCC	p.A1620S		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1620	Nebulin 41.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GTCTTGCTGGCTTCATAGCCC	0.463													47	111	---	---	---	---	PASS	A	152522777	A	A	152522777	3	1	81	1	0	0	0	0	1	0	0	0	10302	797	28	3	21396	3	NEB	2	152522777	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	853	152522777	90676596	142	30794										
CCDC148	130940	broad.mit.edu	37	chr2	159107382	159107382	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctggcagaaatttccatttCcagtcttgctacctcttctt	5	12	4	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:159107382C>A	uc002tzq.2	-	10	1416	c.1153G>T	c.(1153-1155)GAA>TAA	p.E385*	CCDC148_uc002tzr.2_Nonsense_Mutation_p.E233*|CCDC148_uc010foh.2_Nonsense_Mutation_p.E98*	NM_138803	NP_620158	Q8NFR7	CC148_HUMAN	coiled-coil domain containing 148	385	Potential.									ovary(2)	2						ATTTCCATTTCCAGTCTTGCT	0.239													3	31	---	---	---	---	PASS	A	159107382	A	A	159107382	4	1	81	1	0	0	0	0	0	1	0	0	2782	864	30	2	642	2	CCDC148	2	159107382	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	6584605	159107382	84091991	143	30795										
PKP4	8502	broad.mit.edu	37	chr2	159536994	159536994	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aacagaaagaactttgatgcAtacagattgtatttgcagtc	8	6	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:159536994A>G	uc002tzv.2	+	22	3644	c.3384A>G	c.(3382-3384)GCA>GCG	p.A1128A	PKP4_uc002tzw.2_Silent_p.A1085A|PKP4_uc002tzx.2_Silent_p.A785A|PKP4_uc002uaa.2_Silent_p.A937A|uc002uab.1_Intron|PKP4_uc002uac.2_Silent_p.A309A|PKP4_uc002uad.2_RNA	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	1128					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						ACTTTGATGCATACAGATTGT	0.343										HNSCC(62;0.18)			56	42	---	---	---	---	PASS	G	159536994	G	G	159536994	2	3	81	1	0	0	0	0	0	0	0	1	11987	204	8	5		5	PKP4	2	159536994	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	429612	159536994	83662379	144	30796										
GCG	2641	broad.mit.edu	37	chr2	163003868	163003868	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggcttagactcttacctgttCctcttggtattcatcaacca	6	12	4	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:163003868C>A	uc002ucc.2	-	3	348	c.249G>T	c.(247-249)AGG>AGT	p.R83S		NM_002054	NP_002045	P01275	GLUC_HUMAN	glucagon preproprotein	83		Cleavage; by PCSK1 and PCSK2.			cell proliferation|cellular response to glucagon stimulus|energy reserve metabolic process|feeding behavior|regulation of insulin secretion	plasma membrane|soluble fraction	hormone activity				0					Exenatide(DB01276)|Phentolamine(DB00692)	CTTACCTGTTCCTCTTGGTAT	0.408													46	107	---	---	---	---	PASS	A	163003868	A	A	163003868	3	1	81	1	0	0	0	0	1	0	0	0	6290	854	30	2	309	2	GCG	2	163003868	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3466874	163003868	80195505	145	30797										
SCN2A	6326	broad.mit.edu	37	chr2	166152382	166152382	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gacctgacagcttccgcttcTttaccagggaatcccttgct	8	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:166152382T>A	uc002udc.2	+	2	339	c.49T>A	c.(49-51)TTT>ATT	p.F17I	SCN2A_uc002udd.2_Missense_Mutation_p.F17I|SCN2A_uc002ude.2_Missense_Mutation_p.F17I	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	17					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	CTTCCGCTTCTTTACCAGGGA	0.483													5	25	---	---	---	---	PASS	A	166152382	A	A	166152382	3	1	81	1	0	0	0	0	1	0	0	0	13916	1609	56	5	51	5	SCN2A	2	166152382	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	3148514	166152382	77046991	146	30798										
SCN2A	6326	broad.mit.edu	37	chr2	166245260	166245260	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggagcaaaggggatccgcacGctgctctttgctttgatgat	13	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:166245260G>T	uc002udc.2	+	27	5234	c.4944G>T	c.(4942-4944)ACG>ACT	p.T1648T	SCN2A_uc002udd.2_Silent_p.T1648T|SCN2A_uc002ude.2_Silent_p.T1648T	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1648	IV.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	GGATCCGCACGCTGCTCTTTG	0.488													18	63	---	---	---	---	PASS	T	166245260	T	T	166245260	2	4	81	1	0	0	0	0	0	0	0	1	13916	1074	38	1		1	SCN2A	2	166245260	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	92878	166245260	76954113	147	30799										
SCN1A	6323	broad.mit.edu	37	chr2	166848103	166848103	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	accttggaaggattggaagcCatgaatcgctcttccatctg	10	10	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:166848103C>A	uc010zcz.1	-	26	5667	c.5649G>T	c.(5647-5649)ATG>ATT	p.M1883I		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1894						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GATTGGAAGCCATGAATCGCT	0.428													15	41	---	---	---	---	PASS	A	166848103	A	A	166848103	3	1	81	1	0	0	0	0	1	0	0	0	13914	594	21	3	351	3	SCN1A	2	166848103	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	602843	166848103	76351270	148	30800										
XIRP2	129446	broad.mit.edu	37	chr2	168102849	168102849	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agatcaactgaatttcatgcTgaaaaagaagagatagtgaa	9	4	2	6			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:168102849T>A	uc002udx.2	+	8	4965	c.4947T>A	c.(4945-4947)GCT>GCA	p.A1649A	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.A1474A|XIRP2_uc010fpq.2_Silent_p.A1427A|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1474					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AATTTCATGCTGAAAAAGAAG	0.333													13	36	---	---	---	---	PASS	A	168102849	A	A	168102849	2	1	81	1	0	0	0	0	0	0	0	1	17427	1567	55	5		5	XIRP2	2	168102849	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	1254746	168102849	75096524	149	30801										
ITGA6	3655	broad.mit.edu	37	chr2	173362747	173362747	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aagactgtagctcagtattcGggagtaccttggtggatcat	12	7	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:173362747G>A	uc002uhp.1	+	24	3236	c.3033G>A	c.(3031-3033)TCG>TCA	p.S1011S	ITGA6_uc010zdy.1_Silent_p.S892S|ITGA6_uc002uho.1_Silent_p.S1011S|ITGA6_uc010fqm.1_Silent_p.S642S	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a	1050	Extracellular (Potential).				blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			CTCAGTATTCGGGAGTACCTT	0.443													24	51	---	---	---	---	PASS	A	173362747	A	A	173362747	2	1	81	1	0	0	0	0	0	0	0	1	7880	1103	39	1		1	ITGA6	2	173362747	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	5259898	173362747	69836626	150	30802										
RBM45	129831	broad.mit.edu	37	chr2	178977276	178977276	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcattcgggtggagcaccatGgacgaagctggcagctctgc	15	11	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:178977276G>A	uc002ulv.2	+	1	95	c.3G>A	c.(1-3)ATG>ATA	p.M1I		NM_152945	NP_694453	Q8IUH3	RBM45_HUMAN	RNA binding motif protein 45	1					cell differentiation|nervous system development	cytoplasm|nucleus	nucleotide binding|RNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.00957)|all cancers(119;0.037)			GGAGCACCATGGACGAAGCTG	0.647											OREG0015102|OREG0006960	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)|type=TRANSCRIPTION FACTOR BINDING SITE|Gene=DRB1|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	15	13	---	---	---	---	PASS	A	178977276	A	A	178977276	3	1	81	1	0	0	0	0	1	0	0	0	13139	1348	47	3	5	3	RBM45	2	178977276	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5614529	178977276	64222097	151	30803										
TTN	7273	broad.mit.edu	37	chr2	179453271	179453271	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caaggacatcctacctatggGgtcttttgccaccaccggtc	9	14	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:179453271G>T	uc010zfg.1	-	253	55701	c.55477C>A	c.(55477-55479)CCC>ACC	p.P18493T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P12188T|TTN_uc010zfi.1_Missense_Mutation_p.P12121T|TTN_uc010zfj.1_Missense_Mutation_p.P11996T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19420							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)			CTACCTATGGGGTCTTTTGCC	0.398													60	91	---	---	---	---	PASS	T	179453271	T	T	179453271	3	4	81	1	0	0	0	0	1	0	0	0	16732	1232	43	3	45034	3	TTN	2	179453271	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	475995	179453271	63746102	152	30804										
TTN	7273	broad.mit.edu	37	chr2	179598064	179598064	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcagctcagctgaataaaatTtgagctgggcaacattgttt	10	7	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:179598064T>C	uc010zfg.1	-	51	12448	c.12224A>G	c.(12223-12225)AAA>AGA	p.K4075R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K736R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5002							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)			TGAATAAAATTTGAGCTGGGC	0.443													36	38	---	---	---	---	PASS	C	179598064	C	C	179598064	3	2	81	1	0	0	0	0	1	0	0	0	16732	1841	64	5	88809	5	TTN	2	179598064	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	144793	179598064	63601309	153	30805										
CCDC141	285025	broad.mit.edu	37	chr2	179742707	179742707	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttaccatatttattaaattaAggaactcaagccctagatct	4	8	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:179742707A>T	uc002unf.1	-	2	215	c.158T>A	c.(157-159)CTT>CAT	p.L53H	CCDC141_uc002ung.2_Missense_Mutation_p.L628H	NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	53							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			TATTAAATTAAGGAACTCAAG	0.363													23	65	---	---	---	---	PASS	T	179742707	T	T	179742707	3	4	81	1	0	0	0	0	1	0	0	0	2775	72	3	5	2517	5	CCDC141	2	179742707	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	144643	179742707	63456666	154	30806										
NCKAP1	10787	broad.mit.edu	37	chr2	183866885	183866885	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagtcatttcatgggcatagTtgtataatccaatgattgcc	9	7	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:183866885T>C	uc002upc.2	-	5	884	c.482A>G	c.(481-483)AAC>AGC	p.N161S	NCKAP1_uc002upb.2_Missense_Mutation_p.N167S	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	161					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			ATGGGCATAGTTGTATAATCC	0.313													31	64	---	---	---	---	PASS	C	183866885	C	C	183866885	3	2	81	1	0	0	0	0	1	0	0	0	10221	1725	60	5	3012	5	NCKAP1	2	183866885	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	4124178	183866885	59332488	155	30807										
COL3A1	1281	broad.mit.edu	37	chr2	189861179	189861179	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgggccatctggtccccgagGtcagcctggtgtcatgggct	15	12	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:189861179G>A	uc002uqj.1	+	24	1835	c.1718G>A	c.(1717-1719)GGT>GAT	p.G573D		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	573	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	GGTCCCCGAGGTCAGCCTGGT	0.418													18	18	---	---	---	---	PASS	A	189861179	A	A	189861179	3	1	81	1	0	0	0	0	1	0	0	0	3688	1261	44	3	1812	3	COL3A1	2	189861179	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5994294	189861179	53338194	156	30808										
COL3A1	1281	broad.mit.edu	37	chr2	189872290	189872290	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggagctgctggcatcaaagGacatcgaggattccctggta	13	9	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:189872290G>A	uc002uqj.1	+	45	3437	c.3320G>A	c.(3319-3321)GGA>GAA	p.G1107E		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	1107	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	GGCATCAAAGGACATCGAGGA	0.428													4	11	---	---	---	---	PASS	A	189872290	A	A	189872290	3	1	81	1	0	0	0	0	1	0	0	0	3688	1174	41	2	3498	2	COL3A1	2	189872290	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	11111	189872290	53327083	157	30809										
DNAH7	56171	broad.mit.edu	37	chr2	196726627	196726627	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgacatttcaatttcttccAagaatcgtgaggcaactgcc	7	11	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:196726627A>T	uc002utj.3	-	42	7651	c.7550T>A	c.(7549-7551)TTG>TAG	p.L2517*		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2517	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AATTTCTTCCAAGAATCGTGA	0.368													5	45	---	---	---	---	PASS	T	196726627	T	T	196726627	4	4	81	1	0	0	0	0	0	1	0	0	4606	131	5	5	4620	5	DNAH7	2	196726627	Nonsense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	6854337	196726627	46472746	158	30810										
DNAH7	56171	broad.mit.edu	37	chr2	196729219	196729219	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctgcatctcaccttccgcaCatttccttaagatcactttt	3	15	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:196729219C>A	uc002utj.3	-	41	7261	c.7160G>T	c.(7159-7161)TGT>TTT	p.C2387F		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2387	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						ACCTTCCGCACATTTCCTTAA	0.403													3	56	---	---	---	---	PASS	A	196729219	A	A	196729219	3	1	81	1	0	0	0	0	1	0	0	0	4606	478	17	3	5014	3	DNAH7	2	196729219	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2592	196729219	46470154	159	30811										
ORC2L	4999	broad.mit.edu	37	chr2	201796149	201796149	+	Missense_Mutation	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaaaggaaggggaaaccttgCtcaataagttacgcaaagtt							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:201796149C>A	uc002uwr.2	-	11	1087	c.830G>T	c.(829-831)AGC>ATC	p.S277I	ORC2L_uc010zhj.1_Missense_Mutation_p.S277I	NM_006190	NP_006181	Q13416	ORC2_HUMAN	origin recognition complex, subunit 2	277					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0						GGAAACCTTGCTCAATAAGTT	0.333													16	40	---	---	---	---	PASS	A	201796149	A	A	201796149	3	1	81	1	0	0	0	0	1	0	0	0	11262	797	28	3	935	3	ORC2L	2	201796149	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5066930	201796149	41403224	160	30812	611	2								
ORC2L	4999	broad.mit.edu	37	chr2	201796151	201796151	+	Silent	SNP	C	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaggaaggggaaaccttgctCaataagttacgcaaagtttg							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:201796151C>T	uc002uwr.2	-	11	1085	c.828G>A	c.(826-828)TTG>TTA	p.L276L	ORC2L_uc010zhj.1_Silent_p.L276L	NM_006190	NP_006181	Q13416	ORC2_HUMAN	origin recognition complex, subunit 2	276					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0						AAACCTTGCTCAATAAGTTAC	0.333													15	41	---	---	---	---	PASS	T	201796151	T	T	201796151	2	4	81	1	0	0	0	0	0	0	0	1	11262	825	29	2		2	ORC2L	2	201796151	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	2	201796151	41403222	161	30813	611	2								
TRAK2	66008	broad.mit.edu	37	chr2	202252712	202252712	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagggtcctggttggcccatCttctgggagctcctatagga	14	10	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:202252712C>A	uc002uyb.3	-	13	1856	c.1410G>T	c.(1408-1410)AAG>AAT	p.K470N		NM_015049	NP_055864	O60296	TRAK2_HUMAN	trafficking protein, kinesin binding 2	470	Interaction with HGS (By similarity).			Missing (in Ref. 2).		early endosome|plasma membrane	GABA receptor binding				0						GTTGGCCCATCTTCTGGGAGC	0.458													28	68	---	---	---	---	PASS	A	202252712	A	A	202252712	3	1	81	1	0	0	0	0	1	0	0	0	16447	912	32	2	1350	2	TRAK2	2	202252712	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	456561	202252712	40946661	162	30814										
PIKFYVE	200576	broad.mit.edu	37	chr2	209188864	209188864	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atttctgatttatcttacttAggaaagggaattcttgaaga	8	4	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:209188864A>T	uc002vcz.2	+	18	2349	c.2191_splice	c.e18-2	p.E731_splice	PIKFYVE_uc010fun.1_Splice_Site_p.E412_splice|PIKFYVE_uc002vcy.1_Splice_Site_p.E675_splice	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type						cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						TATCTTACTTAGGAAAGGGAA	0.303													30	34	---	---	---	---	PASS	T	209188864	T	T	209188864	5	4	81	1	0	0	0	0	0	0	1	0	11924	434	15	5	2266	5	PIKFYVE	2	209188864	Splice_Site	SNP	A	TCGA-37-5819-01A-01D-1632-08	6936152	209188864	34010509	163	30815										
ERBB4	2066	broad.mit.edu	37	chr2	212566892	212566892	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggataagcaaggacaggccaCtaaggagggggaagtgagaa	17	5	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:212566892C>A	uc002veg.1	-	12	1388	c.1290_splice	c.e12-1	p.S430_splice	ERBB4_uc002veh.1_Splice_Site_p.S430_splice|ERBB4_uc010zji.1_Splice_Site_p.S430_splice|ERBB4_uc010zjj.1_Splice_Site_p.S430_splice|ERBB4_uc010fut.1_Splice_Site_p.S430_splice	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene						cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		GGACAGGCCACTAAGGAGGGG	0.418										TSP Lung(8;0.080)			38	24	---	---	---	---	PASS	A	212566892	A	A	212566892	5	1	81	1	0	0	0	0	0	0	1	0	5209	579	20	3	2705	3	ERBB4	2	212566892	Splice_Site	SNP	C	TCGA-37-5819-01A-01D-1632-08	3378028	212566892	30632481	164	30816										
SPAG16	79582	broad.mit.edu	37	chr2	214181977	214181977	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agaaaggagtgactgaacttAgaactgttgggaatgttcca	12	5	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:214181977A>C	uc002veq.2	+	5	525	c.433A>C	c.(433-435)AGA>CGA	p.R145R	SPAG16_uc010fuz.1_Intron|SPAG16_uc002ver.2_Silent_p.R91R|SPAG16_uc010zjk.1_Silent_p.R51R|SPAG16_uc002veo.2_Silent_p.R145R|SPAG16_uc002vep.1_Intron|SPAG16_uc002ves.1_Silent_p.R114R	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	145					cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		GACTGAACTTAGAACTGTTGG	0.333													5	46	---	---	---	---	PASS	C	214181977	C	C	214181977	2	2	81	1	0	0	0	0	0	0	0	1	14978	412	15	5		5	SPAG16	2	214181977	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	1615085	214181977	29017396	165	30817										
SPAG16	79582	broad.mit.edu	37	chr2	215274863	215274863	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctcctctctgtctccctcaGgtcgagttttagctcaggca	8	14	5	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:215274863G>T	uc002veq.2	+	16	1813	c.1721_splice	c.e16-1	p.G574_splice	SPAG16_uc002ver.2_Splice_Site_p.G520_splice|SPAG16_uc010zjk.1_Splice_Site_p.G480_splice|VWC2L_uc002vet.2_5'Flank|VWC2L_uc010zjl.1_5'Flank	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1						cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		GTCTCCCTCAGGTCGAGTTTT	0.393													30	29	---	---	---	---	PASS	T	215274863	T	T	215274863	5	4	81	1	0	0	0	0	0	0	1	0	14978	1014	35	3	1798	3	SPAG16	2	215274863	Splice_Site	SNP	G	TCGA-37-5819-01A-01D-1632-08	1092886	215274863	27924510	166	30818										
CXCR1	3577	broad.mit.edu	37	chr2	219029727	219029727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gacatcagtgacggagcggcCgaccctgctgtataagatga	13	10	1	3	rs149163975		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:219029727C>A	uc002vhc.2	-	2	327	c.208G>T	c.(208-210)GGC>TGC	p.G70C		NM_000634	NP_000625	P25024	CXCR1_HUMAN	interleukin 8 receptor alpha	70	Cytoplasmic (Potential).				dendritic cell chemotaxis|inflammatory response	integral to membrane|plasma membrane	interleukin-8 receptor activity			lung(2)	2						ACGGAGCGGCCGACCCTGCTG	0.567													47	46	---	---	---	---	PASS	A	219029727	A	A	219029727	3	1	81	1	0	0	0	0	1	0	0	0	4090	652	23	1	848	1	CXCR1	2	219029727	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3754864	219029727	24169646	167	30819										
PTPRN	5798	broad.mit.edu	37	chr2	220167145	220167145	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agggcaggggcttcagccttGggcagggggccgacactgac	18	11	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:220167145G>T	uc002vkz.2	-	6	797	c.708C>A	c.(706-708)CCC>CCA	p.P236P	PTPRN_uc010zlc.1_Silent_p.P146P|PTPRN_uc002vla.2_Silent_p.P236P	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	236	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		CTTCAGCCTTGGGCAGGGGGC	0.622													10	23	---	---	---	---	PASS	T	220167145	T	T	220167145	2	4	81	1	0	0	0	0	0	0	0	1	12807	1335	47	3		3	PTPRN	2	220167145	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1137418	220167145	23032228	168	30820										
OBSL1	23363	broad.mit.edu	37	chr2	220422617	220422617	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctggcaggtgtagagccctgCatgggctgggcctgcagcct	16	12	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:220422617C>G	uc010fwk.2	-	11	3775	c.3718G>C	c.(3718-3720)GCA>CCA	p.A1240P	OBSL1_uc002vmh.1_Missense_Mutation_p.A231P|OBSL1_uc010zli.1_Missense_Mutation_p.A139P|OBSL1_uc010fwl.1_Missense_Mutation_p.A715P	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	1240	Ig-like 10.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		TAGAGCCCTGCATGGGCTGGG	0.677													3	14	---	---	---	---	PASS	G	220422617	G	G	220422617	3	3	81	1	0	0	0	0	1	0	0	0	10813	710	25	4	2039	4	OBSL1	2	220422617	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	255472	220422617	22776756	169	30821										
SLC4A3	6508	broad.mit.edu	37	chr2	220501124	220501124	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggagctcagccgctgcttgtGgttggcttctctgggccgct	15	12	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:220501124G>T	uc002vmp.3	+	15	2561	c.2292G>T	c.(2290-2292)GTG>GTT	p.V764V	SLC4A3_uc002vmo.3_Silent_p.V791V|SLC4A3_uc010fwm.2_Silent_p.V314V|SLC4A3_uc010fwn.1_Silent_p.V273V	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	764	Helical; (Potential).|Membrane (anion exchange).				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CGCTGCTTGTGGTTGGCTTCT	0.607													12	28	---	---	---	---	PASS	T	220501124	T	T	220501124	2	4	81	1	0	0	0	0	0	0	0	1	14655	1335	47	3		3	SLC4A3	2	220501124	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	78507	220501124	22698249	170	30822										
PER2	8864	broad.mit.edu	37	chr2	239155051	239155051	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gatcctgtgattcaagggggAtccattttcgtcttctttgg	11	8	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:239155051A>T	uc002vyc.2	-	23	3970	c.3733T>A	c.(3733-3735)TCC>ACC	p.S1245T		NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	1245	CRY binding domain (By similarity).				circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		TTCAAGGGGGATCCATTTTCG	0.498													4	8	---	---	---	---	PASS	T	239155051	T	T	239155051	3	4	81	1	0	0	0	0	1	0	0	0	11730	333	12	5	38	5	PER2	2	239155051	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	18653927	239155051	4044322	171	30823										
D2HGDH	728294	broad.mit.edu	37	chr2	242674879	242674879	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtgcccggcggggtcgtcacGgacccggaagcgctgcaggc	18	14	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:242674879G>A	uc002wce.1	+	2	413	c.240G>A	c.(238-240)ACG>ACA	p.T80T	D2HGDH_uc010zpc.1_RNA|D2HGDH_uc010fzq.1_Intron|D2HGDH_uc002wcg.1_RNA	NM_152783	NP_689996	Q8N465	D2HDH_HUMAN	D-2-hydroxyglutarate dehydrogenase precursor	80					2-oxoglutarate metabolic process|cellular protein metabolic process|response to cobalt ion|response to manganese ion|response to zinc ion	mitochondrial matrix	(R)-2-hydroxyglutarate dehydrogenase activity|flavin adenine dinucleotide binding|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		GGGTCGTCACGGACCCGGAAG	0.697													4	9	---	---	---	---	PASS	A	242674879	A	A	242674879	2	1	81	1	0	0	0	0	0	0	0	1	4213	1103	39	1		1	D2HGDH	2	242674879	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	3519828	242674879	524494	172	30824										
GAL3ST2	64090	broad.mit.edu	37	chr2	242738525	242738525	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcctggccctgactctgctCctgctggccggattcctgca	10	17	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr2:242738525C>A	uc002wcj.1	+	2	206	c.75C>A	c.(73-75)CTC>CTA	p.L25L		NM_022134	NP_071417	Q9H3Q3	G3ST2_HUMAN	galactose-3-O-sulfotransferase 2	25	Helical; Signal-anchor for type II membrane protein; (Potential).				biosynthetic process	Golgi cisterna membrane|integral to membrane	galactosylceramide sulfotransferase activity				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		TGACTCTGCTCCTGCTGGCCG	0.647													16	42	---	---	---	---	PASS	A	242738525	A	A	242738525	2	1	81	1	0	0	0	0	0	0	0	1	6198	842	30	2		2	GAL3ST2	2	242738525	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	63646	242738525	460848	173	30825										
CHL1	10752	broad.mit.edu	37	chr3	432814	432814	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggagctggtcctgaaagtgaGccttatatatttcaaacacc	9	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:432814G>T	uc003bou.2	+	21	2986	c.2715G>T	c.(2713-2715)GAG>GAT	p.E905D	CHL1_uc003bot.2_Missense_Mutation_p.E921D|CHL1_uc003bow.1_Missense_Mutation_p.E905D|CHL1_uc011asi.1_Missense_Mutation_p.E921D	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	905	Fibronectin type-III 3.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix		p.H905Y(1)		skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		CTGAAAGTGAGCCTTATATAT	0.383													39	8	---	---	---	---	PASS	T	432814	T	T	432814	3	4	81	1	0	0	0	0	1	0	0	0	3349	962	34	3	2841	3	CHL1	3	432814	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08		432814	197589616	174	30826										
SETD5	55209	broad.mit.edu	37	chr3	9490271	9490271	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctttatccctgagagacgtcGaaggccccttctgcctgatg	10	13	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:9490271G>T	uc003brt.2	+	16	2738	c.2303G>T	c.(2302-2304)CGA>CTA	p.R768L	SETD5_uc003brs.1_Missense_Mutation_p.R749L|SETD5_uc003bru.2_Missense_Mutation_p.R670L|SETD5_uc003brv.2_Missense_Mutation_p.R657L|SETD5_uc010hck.2_Missense_Mutation_p.R250L|SETD5_uc003brx.2_Missense_Mutation_p.R437L	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	768										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		GAGAGACGTCGAAGGCCCCTT	0.363													20	7	---	---	---	---	PASS	T	9490271	T	T	9490271	3	4	81	1	0	0	0	0	1	0	0	0	14134	1058	37	2	2357	2	SETD5	3	9490271	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	9057457	9490271	188532159	175	30827										
IL17RE	132014	broad.mit.edu	37	chr3	9955643	9955643	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctctttgtttctacaggccCggggctcaagcccagtgtca	11	13	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:9955643C>T	uc003btu.2	+	14	1348	c.1231C>T	c.(1231-1233)CGG>TGG	p.R411W	CIDEC_uc003bto.2_Intron|IL17RE_uc003btw.2_Missense_Mutation_p.R411W|IL17RE_uc003btx.2_Missense_Mutation_p.R295W|IL17RE_uc010hcq.2_Missense_Mutation_p.R411W|IL17RE_uc003bty.2_RNA	NM_153483	NP_705616	Q8NFR9	I17RE_HUMAN	interleukin 17 receptor E isoform 1	411	Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane	receptor activity			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(96;5.34e-64)		TCTACAGGCCCGGGGCTCAAG	0.453													85	20	---	---	---	---	PASS	T	9955643	T	T	9955643	3	4	81	1	0	0	0	0	1	0	0	0	7643	643	23	1	1281	1	IL17RE	3	9955643	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	465372	9955643	188066787	176	30828										
FGD5	152273	broad.mit.edu	37	chr3	14862055	14862055	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgggaaggtggccggctatGtcccagaaaccgtccctgaa	13	12	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:14862055G>T	uc003bzc.2	+	1	1587	c.1477G>T	c.(1477-1479)GTC>TTC	p.V493F	FGD5_uc011avk.1_Missense_Mutation_p.V493F	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	493					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						GGCCGGCTATGTCCCAGAAAC	0.612													31	10	---	---	---	---	PASS	T	14862055	T	T	14862055	3	4	81	1	0	0	0	0	1	0	0	0	5836	1377	48	3	1479	3	FGD5	3	14862055	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4906412	14862055	183160375	177	30829										
UBE2E2	7325	broad.mit.edu	37	chr3	23541127	23541127	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaaaggagacaacatttatGaatggaggtcaactatattg	9	6	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:23541127G>T	uc003ccg.2	+	4	436	c.256G>T	c.(256-258)GAA>TAA	p.E86*	UBE2E2_uc010hfc.2_Intron	NM_152653	NP_689866	Q96LR5	UB2E2_HUMAN	ubiquitin-conjugating enzyme E2E 2	86					ISG15-protein conjugation|protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination	nucleolus	ATP binding|ISG15 ligase activity|ubiquitin-protein ligase activity				0						CAACATTTATGAATGGAGGTC	0.383													11	13	---	---	---	---	PASS	T	23541127	T	T	23541127	4	4	81	1	0	0	0	0	0	1	0	0	16850	1291	45	2	266	2	UBE2E2	3	23541127	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	8679072	23541127	174481303	178	30830										
OSBPL10	114884	broad.mit.edu	37	chr3	31871714	31871714	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagacttcggcttcgggagcTtggagcactctagaataagc	13	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:31871714T>C	uc003cev.2	-	5	928	c.547A>G	c.(547-549)AGC>GGC	p.S183G	OSBPL10_uc003ceu.1_5'UTR|OSBPL10_uc011axf.1_Intron	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	183					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		CTTCGGGAGCTTGGAGCACTC	0.502													4	9	---	---	---	---	PASS	C	31871714	C	C	31871714	3	2	81	1	0	0	0	0	1	0	0	0	11275	1609	56	5	1783	5	OSBPL10	3	31871714	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	8330587	31871714	166150716	179	30831										
GOLGA4	2803	broad.mit.edu	37	chr3	37340341	37340341	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tagtggaagatggaacttctGtaaaaacactggaaacactc	9	7	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:37340341G>T	uc003cgv.2	+	8	1136	c.832G>T	c.(832-834)GTA>TTA	p.V278L	GOLGA4_uc010hgr.1_Intron|GOLGA4_uc003cgw.2_Missense_Mutation_p.V300L|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.V159L	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	278	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TGGAACTTCTGTAAAAACACT	0.313													29	12	---	---	---	---	PASS	T	37340341	T	T	37340341	3	4	81	1	0	0	0	0	1	0	0	0	6555	1377	48	3	932	3	GOLGA4	3	37340341	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5468627	37340341	160682089	180	30832										
ZNF197	10168	broad.mit.edu	37	chr3	44685539	44685539	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttttaggcaaagaaaaaacCttactgtacatcagaaaatc	5	7	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:44685539C>G	uc003cnm.2	+	6	3123	c.2917C>G	c.(2917-2919)CTT>GTT	p.L973V	ZNF197_uc003cnn.2_Intron|ZNF197_uc003cno.2_Intron|ZNF197_uc003cnp.2_Intron	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	973	C2H2-type 22.				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)		AAGAAAAAACCTTACTGTACA	0.373													15	24	---	---	---	---	PASS	G	44685539	G	G	44685539	3	3	81	1	0	0	0	0	1	0	0	0	17756	681	24	4	2935	4	ZNF197	3	44685539	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	7345198	44685539	153336891	181	30833										
CLEC3B	7123	broad.mit.edu	37	chr3	45077309	45077309	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcaccgcgcaacccgatggcGgcaagaccgagaactgcgcg	13	15	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:45077309G>C	uc003cok.3	+	3	598	c.502G>C	c.(502-504)GGC>CGC	p.G168R	CLEC3B_uc003col.2_Missense_Mutation_p.G126R	NM_003278	NP_003269	P05452	TETN_HUMAN	C-type lectin domain family 3, member B	168	C-type lectin.				skeletal system development	extracellular space	protein binding|sugar binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00863)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACCCGATGGCGGCAAGACCGA	0.652													9	26	---	---	---	---	PASS	C	45077309	C	C	45077309	3	2	81	1	0	0	0	0	1	0	0	0	3511	1116	39	4	512	4	CLEC3B	3	45077309	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	391770	45077309	152945121	182	30834										
COL7A1	1294	broad.mit.edu	37	chr3	48611122	48611122	+	Splice_Site	DEL	C	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagtgttccctggtcactcaCcggggcaccaggtggtccag							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:48611122delC	uc003ctz.2	-	81	6574	c.6573_splice	c.e81+1	p.P2191_splice		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor						cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TGGTCACTCACCGGGGCACCA	0.597													5	13	---	---	---	---		-	48611122	-	-	48611122	8	5	81	1	0	1	0	1	0	0	1	0	3704	521	18	0	2412	0	COL7A1	3	48611122	Splice_Site	DEL	C	TCGA-37-5819-01A-01D-1632-08	3533813	48611122	149411308	183	30835										
CELSR3	1951	broad.mit.edu	37	chr3	48677666	48677666	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctccgtggcagggtgctgcCccgatctttgggctccagtc	13	15	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:48677666C>A	uc003cul.2	-	34	9633	c.9352G>T	c.(9352-9354)GGC>TGC	p.G3118C	CELSR3_uc003cuf.1_Missense_Mutation_p.G3216C|CELSR3_uc010hkf.2_Missense_Mutation_p.G408C|CELSR3_uc010hkg.2_Missense_Mutation_p.G1101C	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	3118	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AGGGTGCTGCCCCGATCTTTG	0.672													23	11	---	---	---	---	PASS	A	48677666	A	A	48677666	3	1	81	1	0	0	0	0	1	0	0	0	3223	623	22	3	594	3	CELSR3	3	48677666	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	66544	48677666	149344764	184	30836										
CELSR3	1951	broad.mit.edu	37	chr3	48677681	48677681	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctgccccgatctttgggctCcagtcggcctggtgcagcat	13	14	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:48677681C>A	uc003cul.2	-	34	9618	c.9337G>T	c.(9337-9339)GAG>TAG	p.E3113*	CELSR3_uc003cuf.1_Nonsense_Mutation_p.E3211*|CELSR3_uc010hkf.2_Nonsense_Mutation_p.E403*|CELSR3_uc010hkg.2_Nonsense_Mutation_p.E1096*	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	3113	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TCTTTGGGCTCCAGTCGGCCT	0.672													31	9	---	---	---	---	PASS	A	48677681	A	A	48677681	4	1	81	1	0	0	0	0	0	1	0	0	3223	864	30	2	609	2	CELSR3	3	48677681	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	15	48677681	149344749	185	30837										
FEZF2	55079	broad.mit.edu	37	chr3	62358019	62358019	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggcgggtacgcggtcgagtcCaggtagttgaagtagtagag	18	6	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:62358019C>A	uc003dlh.2	-	1	732	c.525G>T	c.(523-525)CTG>CTT	p.L175L	FEZF2_uc003dli.2_Silent_p.L175L	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	175					transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		CGGTCGAGTCCAGGTAGTTGA	0.701													7	4	---	---	---	---	PASS	A	62358019	A	A	62358019	2	1	81	1	0	0	0	0	0	0	0	1	5826	581	21	3		3	FEZF2	3	62358019	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	13680338	62358019	135664411	186	30838										
UBA3	9039	broad.mit.edu	37	chr3	69112255	69112255	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agggacaatggagcttggatCtaagacaccatcttcataat	9	8	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:69112255C>A	uc003dno.2	-	9	591	c.571G>T	c.(571-573)GAT>TAT	p.D191Y	UBA3_uc003dnq.2_Missense_Mutation_p.D177Y|UBA3_uc011bfy.1_Missense_Mutation_p.D14Y|UBA3_uc011bfz.1_Missense_Mutation_p.D14Y	NM_003968	NP_003959	Q8TBC4	UBA3_HUMAN	ubiquitin-activating enzyme 3 isoform 1	191					protein neddylation|proteolysis	nucleus	acid-amino acid ligase activity|ATP binding|protein heterodimerization activity			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.98e-05)|Epithelial(33;0.000363)|LUSC - Lung squamous cell carcinoma(21;0.012)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.206)|Kidney(39;0.241)		GAGCTTGGATCTAAGACACCA	0.403													34	12	---	---	---	---	PASS	A	69112255	A	A	69112255	3	1	81	1	0	0	0	0	1	0	0	0	16826	913	32	2	860	2	UBA3	3	69112255	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	6754236	69112255	128910175	187	30839										
CNTN3	5067	broad.mit.edu	37	chr3	74411136	74411136	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tccaagctgaccaggctgccCacctgcacctgaaccaactt	7	17	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:74411136C>A	uc003dpm.1	-	10	1349	c.1269G>T	c.(1267-1269)GTG>GTT	p.V423V		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	423	Ig-like C2-type 5.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		CCAGGCTGCCCACCTGCACCT	0.488													22	15	---	---	---	---	PASS	A	74411136	A	A	74411136	2	1	81	1	0	0	0	0	0	0	0	1	3642	581	21	3		3	CNTN3	3	74411136	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	5298881	74411136	123611294	188	30840										
ROBO1	6091	broad.mit.edu	37	chr3	78666832	78666832	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctactttcagaccagcatacTctgccgctgctgcgactgcc	8	16	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:78666832T>A	uc003dqe.2	-	27	4443	c.4235A>T	c.(4234-4236)GAG>GTG	p.E1412V	ROBO1_uc003dqb.2_Missense_Mutation_p.E1373V|ROBO1_uc003dqc.2_Missense_Mutation_p.E1312V|ROBO1_uc003dqd.2_Missense_Mutation_p.E1367V|ROBO1_uc010hoh.2_Missense_Mutation_p.E604V|ROBO1_uc011bgl.1_Missense_Mutation_p.E984V	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1412	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		ACCAGCATACTCTGCCGCTGC	0.507													26	13	---	---	---	---	PASS	A	78666832	A	A	78666832	3	1	81	1	0	0	0	0	1	0	0	0	13513	1551	54	5	740	5	ROBO1	3	78666832	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	4255696	78666832	119355598	189	30841										
EPHA3	2042	broad.mit.edu	37	chr3	89259571	89259571	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acaattctaaggaggaagatCctccaaggatgtactgcagt	10	8	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:89259571C>A	uc003dqy.2	+	3	940	c.715C>A	c.(715-717)CCT>ACT	p.P239T	EPHA3_uc003dqx.1_Missense_Mutation_p.P239T|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	239	Extracellular (Potential).|Cys-rich.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		GGAGGAAGATCCTCCAAGGAT	0.488										TSP Lung(6;0.00050)			80	32	---	---	---	---	PASS	A	89259571	A	A	89259571	3	1	81	1	0	0	0	0	1	0	0	0	5168	855	30	2	725	2	EPHA3	3	89259571	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	10592739	89259571	108762859	190	30842										
OR5H2	79310	broad.mit.edu	37	chr3	98001811	98001811	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggacttacatatcagccagAgtggaaaatgcccctgttct	9	10	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:98001811A>T	uc003dsj.1	+	1	80	c.80A>T	c.(79-81)GAG>GTG	p.E27V		NM_001005482	NP_001005482	Q8NGV7	OR5H2_HUMAN	olfactory receptor, family 5, subfamily H,	27	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3						TATCAGCCAGAGTGGAAAATG	0.423													94	103	---	---	---	---	PASS	T	98001811	T	T	98001811	3	4	81	1	0	0	0	0	1	0	0	0	11162	304	11	5	82	5	OR5H2	3	98001811	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	8742240	98001811	100020619	191	30843										
OR5K1	26339	broad.mit.edu	37	chr3	98188985	98188985	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttcccttgtatagactctctTgtgttgatccttatatcaat	5	9	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:98188985T>A	uc003dsm.2	+	1	565	c.565T>A	c.(565-567)TGT>AGT	p.C189S		NM_001004736	NP_001004736	Q8NHB7	OR5K1_HUMAN	olfactory receptor, family 5, subfamily K,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)	1						TAGACTCTCTTGTGTTGATCC	0.348													51	123	---	---	---	---	PASS	A	98188985	A	A	98188985	3	1	81	1	0	0	0	0	1	0	0	0	11166	1812	63	5	567	5	OR5K1	3	98188985	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	187174	98188985	99833445	192	30844										
IMPG2	50939	broad.mit.edu	37	chr3	101038473	101038473	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atttgccacagcctctgcaaCactttcatctgggcagattt	7	12	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:101038473C>A	uc003duq.1	-	2	492	c.289G>T	c.(289-291)GTT>TTT	p.V97F	IMPG2_uc011bhe.1_5'UTR	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	97	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GCCTCTGCAACACTTTCATCT	0.413													48	105	---	---	---	---	PASS	A	101038473	A	A	101038473	3	1	81	1	0	0	0	0	1	0	0	0	7729	478	17	3	3508	3	IMPG2	3	101038473	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2849488	101038473	96983957	193	30845										
CBLB	868	broad.mit.edu	37	chr3	105389121	105389121	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agtcctgtgatgttctgttaGttttgacattttcacctggt	9	7	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:105389121G>C	uc003dwc.2	-	18	2967	c.2645C>G	c.(2644-2646)ACT>AGT	p.T882S	CBLB_uc003dwa.2_Missense_Mutation_p.T97S|CBLB_uc011bhi.1_Missense_Mutation_p.T860S	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	882	Pro-rich.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						TGTTCTGTTAGTTTTGACATT	0.368			Mis S		AML								26	45	---	---	---	---	PASS	C	105389121	C	C	105389121	3	2	81	1	0	0	0	0	1	0	0	0	2701	1029	36	4	311	4	CBLB	3	105389121	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4350648	105389121	92633309	194	30846										
PHLDB2	90102	broad.mit.edu	37	chr3	111603485	111603485	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aatggaagttccctgagtgaTgctggcccgcctcctatcag	11	12	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:111603485T>C	uc010hqa.2	+	2	972	c.561T>C	c.(559-561)GAT>GAC	p.D187D	PHLDB2_uc003dyc.2_Silent_p.D214D|PHLDB2_uc003dyd.2_Silent_p.D187D|PHLDB2_uc003dyg.2_Silent_p.D187D|PHLDB2_uc003dyh.2_Silent_p.D187D|PHLDB2_uc003dye.3_Silent_p.D187D|PHLDB2_uc003dyf.3_Silent_p.D187D	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	187						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						CCCTGAGTGATGCTGGCCCGC	0.562													27	27	---	---	---	---	PASS	C	111603485	C	C	111603485	2	2	81	1	0	0	0	0	0	0	0	1	11852	1461	51	5		5	PHLDB2	3	111603485	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	6214364	111603485	86418945	195	30847										
CCDC80	151887	broad.mit.edu	37	chr3	112328845	112328845	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caaaattgcacgcctgaccaCtgagggcagagagctgctgt	12	11	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:112328845C>T	uc003dzf.2	-	6	2623	c.2405G>A	c.(2404-2406)AGT>AAT	p.S802N	CCDC80_uc011bhv.1_Missense_Mutation_p.S802N|CCDC80_uc003dzg.2_Missense_Mutation_p.S802N|CCDC80_uc003dzh.1_Missense_Mutation_p.S802N	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	802										ovary(2)	2						CGCCTGACCACTGAGGGCAGA	0.498													19	30	---	---	---	---	PASS	T	112328845	T	T	112328845	3	4	81	1	0	0	0	0	1	0	0	0	2854	565	20	3	459	3	CCDC80	3	112328845	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	725360	112328845	85693585	196	30848										
ZBTB20	26137	broad.mit.edu	37	chr3	114069245	114069245	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgtggcctgcggatgaggcCaggggctgtggcgctggcag	20	10	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:114069245C>A	uc003ebi.2	-	4	1860	c.1680G>T	c.(1678-1680)CTG>CTT	p.L560L	ZBTB20_uc003ebj.2_Silent_p.L487L|ZBTB20_uc010hqp.2_Silent_p.L487L|ZBTB20_uc003ebk.2_Silent_p.L487L|ZBTB20_uc003ebl.2_Silent_p.L487L|ZBTB20_uc003ebm.2_Silent_p.L487L|ZBTB20_uc003ebn.2_Silent_p.L487L|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	560					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		CGGATGAGGCCAGGGGCTGTG	0.602													40	72	---	---	---	---	PASS	A	114069245	A	A	114069245	2	1	81	1	0	0	0	0	0	0	0	1	17526	581	21	3		3	ZBTB20	3	114069245	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1740400	114069245	83953185	197	30849										
KTELC1	56983	broad.mit.edu	37	chr3	119209540	119209540	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catgggttcactatatcccaGtcaaaacagatctctccaat	5	12	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:119209540G>T	uc003ecm.2	+	9	1024	c.940G>T	c.(940-942)GTC>TTC	p.V314F	KTELC1_uc011biz.1_RNA|KTELC1_uc011bja.1_Missense_Mutation_p.V155F	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	314						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		CTATATCCCAGTCAAAACAGA	0.423													48	103	---	---	---	---	PASS	T	119209540	T	T	119209540	3	4	81	1	0	0	0	0	1	0	0	0	8583	1029	36	3	974	3	KTELC1	3	119209540	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5140295	119209540	78812890	198	30850										
RABL3	285282	broad.mit.edu	37	chr3	120417269	120417269	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgcattagtgaaaatacataCcaaattaatttcttctggat	5	6	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:120417269C>A	uc003edx.2	-	5	564	c.534_splice	c.e5+1	p.L178_splice		NM_173825	NP_776186	Q5HYI8	RABL3_HUMAN	RAB, member of RAS oncogene family-like 3						small GTPase mediated signal transduction		GTP binding				0				GBM - Glioblastoma multiforme(114;0.151)		AAAATACATACCAAATTAATT	0.338													77	137	---	---	---	---	PASS	A	120417269	A	A	120417269	5	1	81	1	0	0	0	0	0	0	1	0	12972	521	18	3	191	3	RABL3	3	120417269	Splice_Site	SNP	C	TCGA-37-5819-01A-01D-1632-08	1207729	120417269	77605161	199	30851										
KLF15	28999	broad.mit.edu	37	chr3	126062660	126062660	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcgctccgcgcgaacttcttCtcgcacacaggacactggta	9	15	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:126062660C>T	uc011bkk.1	-	3	1343	c.1161G>A	c.(1159-1161)GAG>GAA	p.E387E		NM_014079	NP_054798	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	387	C2H2-type 3.					nucleus	DNA binding|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(114;0.147)		CGAACTTCTTCTCGCACACAG	0.657													10	17	---	---	---	---	PASS	T	126062660	T	T	126062660	2	4	81	1	0	0	0	0	0	0	0	1	8343	912	32	2		2	KLF15	3	126062660	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	5645391	126062660	71959770	200	30852										
KLF15	28999	broad.mit.edu	37	chr3	126070882	126070882	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cggcagggccaggccccaggGgtcccgatccaacaggcttg	15	15	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:126070882G>A	uc011bkk.1	-	2	1066	c.884C>T	c.(883-885)CCC>CTC	p.P295L		NM_014079	NP_054798	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	295						nucleus	DNA binding|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(114;0.147)		AGGCCCCAGGGGTCCCGATCC	0.607													2	4	---	---	---	---	PASS	A	126070882	A	A	126070882	3	1	81	1	0	0	0	0	1	0	0	0	8343	1232	43	3	374	3	KLF15	3	126070882	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	8222	126070882	71951548	201	30853										
UROC1	131669	broad.mit.edu	37	chr3	126229583	126229583	+	Missense_Mutation	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcctgggcaaactctggggCcagcagctcctggacatccg							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:126229583C>A	uc003eiz.1	-	2	213	c.181G>T	c.(181-183)GCC>TCC	p.A61S	UROC1_uc010hsi.1_Missense_Mutation_p.A61S	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	61					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		AACTCTGGGGCCAGCAGCTCC	0.617													14	21	---	---	---	---	PASS	A	126229583	A	A	126229583	3	1	81	1	0	0	0	0	1	0	0	0	17025	739	26	3	2109	3	UROC1	3	126229583	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	158701	126229583	71792847	202	30854	612	2								
UROC1	131669	broad.mit.edu	37	chr3	126229584	126229584	+	Silent	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcctgggcaaactctggggcCagcagctcctggacatccgg							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:126229584C>A	uc003eiz.1	-	2	212	c.180G>T	c.(178-180)CTG>CTT	p.L60L	UROC1_uc010hsi.1_Silent_p.L60L	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	60					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		ACTCTGGGGCCAGCAGCTCCT	0.622													13	21	---	---	---	---	PASS	A	126229584	A	A	126229584	2	1	81	1	0	0	0	0	0	0	0	1	17025	581	21	3		3	UROC1	3	126229584	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1	126229584	71792846	203	30855	612	2								
GATA2	2624	broad.mit.edu	37	chr3	128204697	128204697	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gccggcacataggaggggtaGgtggggatggggtggtgtgt	23	4	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:128204697G>A	uc003ekm.3	-	4	1179	c.744C>T	c.(742-744)ACC>ACT	p.T248T	GATA2_uc003ekn.3_Silent_p.T248T|GATA2_uc003eko.2_Silent_p.T248T	NM_001145661	NP_001139133	P23769	GATA2_HUMAN	GATA binding protein 2 isoform 1	248					blood coagulation|negative regulation of fat cell differentiation|negative regulation of fat cell proliferation|negative regulation of neural precursor cell proliferation|negative regulation of Notch signaling pathway|phagocytosis|positive regulation of angiogenesis|positive regulation of phagocytosis|positive regulation of transcription from RNA polymerase II promoter	nucleoplasm	C2H2 zinc finger domain binding|chromatin binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(13)|lung(1)|skin(1)	15				GBM - Glioblastoma multiforme(114;0.173)		AGGAGGGGTAGGTGGGGATGG	0.647			Mis		AML(CML blast transformation)								18	23	---	---	---	---	PASS	A	128204697	A	A	128204697	2	1	81	1	0	0	0	0	0	0	0	1	6254	987	35	3		3	GATA2	3	128204697	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1975113	128204697	69817733	204	30856										
RAB7A	7879	broad.mit.edu	37	chr3	128526389	128526389	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctgcttcttctttcaggtgGccacaaagcgggcacaggcc	11	14	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:128526389G>T	uc003eks.1	+	5	635	c.403G>T	c.(403-405)GCC>TCC	p.A135S	RAB7A_uc010hsv.1_Missense_Mutation_p.A88S|RAB7A_uc003ekt.2_Missense_Mutation_p.A111S	NM_004637	NP_004628	P51149	RAB7A_HUMAN	RAB7, member RAS oncogene family	135					endocytosis|endosome to lysosome transport|epidermal growth factor catabolic process|protein transport|small GTPase mediated signal transduction	Golgi apparatus|late endosome|lysosome|melanosome|phagocytic vesicle	GDP binding|GTP binding|GTPase activity|protein binding				0				GBM - Glioblastoma multiforme(114;0.231)		CTTTCAGGTGGCCACAAAGCG	0.562													33	47	---	---	---	---	PASS	T	128526389	T	T	128526389	3	4	81	1	0	0	0	0	1	0	0	0	12954	1203	42	3	417	3	RAB7A	3	128526389	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	321692	128526389	69496041	205	30857										
COL6A6	131873	broad.mit.edu	37	chr3	130292820	130292820	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	attgtgaaattgacaaagtaGatcttgttttccttatggat	8	4	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:130292820G>T	uc010htl.2	+	7	3029	c.2998G>T	c.(2998-3000)GAT>TAT	p.D1000Y		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1000	Nonhelical region.|VWFA 6.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TGACAAAGTAGATCTTGTTTT	0.353													14	19	---	---	---	---	PASS	T	130292820	T	T	130292820	3	4	81	1	0	0	0	0	1	0	0	0	3703	942	33	2	3024	2	COL6A6	3	130292820	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1766431	130292820	67729610	206	30858										
CCRL1	51554	broad.mit.edu	37	chr3	132319692	132319692	+	Nonsense_Mutation	SNP	G	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tccccagccaatcaggagtgGgaaaaccatgctggatcatc							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:132319692G>T	uc003eow.2	+	2	534	c.451G>T	c.(451-453)GGA>TGA	p.G151*	ACAD11_uc003eov.3_Intron|ACAD11_uc011blr.1_Intron|CCRL1_uc003eox.2_Nonsense_Mutation_p.G151*	NM_016557	NP_057641	Q9NPB9	CCRL1_HUMAN	chemokine (C-C motif) receptor-like 1	151	Cytoplasmic (Potential).				chemotaxis|immune response	integral to plasma membrane	C-C chemokine receptor activity				0						ATCAGGAGTGGGAAAACCATG	0.448													25	46	---	---	---	---	PASS	T	132319692	T	T	132319692	4	4	81	1	0	0	0	0	0	1	0	0	2949	1233	43	3	453	3	CCRL1	3	132319692	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2026872	132319692	65702738	207	30859	613	2								
CCRL1	51554	broad.mit.edu	37	chr3	132319693	132319693	+	Missense_Mutation	SNP	G	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccccagccaatcaggagtggGaaaaccatgctggatcatct							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:132319693G>T	uc003eow.2	+	2	535	c.452G>T	c.(451-453)GGA>GTA	p.G151V	ACAD11_uc003eov.3_Intron|ACAD11_uc011blr.1_Intron|CCRL1_uc003eox.2_Missense_Mutation_p.G151V	NM_016557	NP_057641	Q9NPB9	CCRL1_HUMAN	chemokine (C-C motif) receptor-like 1	151	Cytoplasmic (Potential).				chemotaxis|immune response	integral to plasma membrane	C-C chemokine receptor activity				0						TCAGGAGTGGGAAAACCATGC	0.448													24	46	---	---	---	---	PASS	T	132319693	T	T	132319693	3	4	81	1	0	0	0	0	1	0	0	0	2949	1174	41	2	454	2	CCRL1	3	132319693	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1	132319693	65702737	208	30860	613	2								
TOPBP1	11073	broad.mit.edu	37	chr3	133371465	133371465	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aatattgctgacatctgaaaGagtacgacctacatattttg	7	7	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:133371465G>A	uc003eps.2	-	8	1063	c.931C>T	c.(931-933)CTT>TTT	p.L311F		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	311					DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						ACATCTGAAAGAGTACGACCT	0.308								Other_conserved_DNA_damage_response_genes					21	39	---	---	---	---	PASS	A	133371465	A	A	133371465	3	1	81	1	0	0	0	0	1	0	0	0	16366	942	33	2	3721	2	TOPBP1	3	133371465	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1051772	133371465	64650965	209	30861										
SOX14	8403	broad.mit.edu	37	chr3	137484093	137484093	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccagaagatgggcgaagtgcCccacaccttggctaccggcg	13	14	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:137484093C>G	uc003erm.1	+	1	515	c.467C>G	c.(466-468)CCC>CGC	p.P156R		NM_004189	NP_004180	O95416	SOX14_HUMAN	SRY-box 14	156					negative regulation of transcription from RNA polymerase II promoter|nervous system development|transcription, DNA-dependent	nucleus	sequence-specific DNA binding				0						GGCGAAGTGCCCCACACCTTG	0.692													7	5	---	---	---	---	PASS	G	137484093	G	G	137484093	3	3	81	1	0	0	0	0	1	0	0	0	14945	623	22	4	469	4	SOX14	3	137484093	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	4112628	137484093	60538337	210	30862										
CEP70	80321	broad.mit.edu	37	chr3	138289268	138289268	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	attttggatttcacactttcCataatttgttccaagtcatt	4	8	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:138289268C>A	uc003esl.2	-	6	555	c.357G>T	c.(355-357)ATG>ATT	p.M119I	CEP70_uc011bmk.1_Missense_Mutation_p.M99I|CEP70_uc011bml.1_Missense_Mutation_p.M101I|CEP70_uc011bmm.1_Intron|CEP70_uc003esm.2_Missense_Mutation_p.M119I|CEP70_uc003esn.2_Missense_Mutation_p.M119I	NM_024491	NP_077817	Q8NHQ1	CEP70_HUMAN	centrosomal protein 70 kDa	119	Potential.				G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding			skin(1)	1						TCACACTTTCCATAATTTGTT	0.368													38	61	---	---	---	---	PASS	A	138289268	A	A	138289268	3	1	81	1	0	0	0	0	1	0	0	0	3259	594	21	3	1488	3	CEP70	3	138289268	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	805175	138289268	59733162	211	30863										
PIK3CB	5291	broad.mit.edu	37	chr3	138400810	138400810	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaaaaagactagatctcaccGaagatccaaaccagcttctt	5	11	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:138400810G>A	uc011bmq.1	-	17	2503	c.2503C>T	c.(2503-2505)CGG>TGG	p.R835W	PIK3CB_uc011bmn.1_Missense_Mutation_p.R347W|PIK3CB_uc011bmo.1_Missense_Mutation_p.R286W|PIK3CB_uc011bmp.1_Missense_Mutation_p.R422W	NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta	835	PI3K/PI4K.				activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						AGATCTCACCGAAGATCCAAA	0.348													8	15	---	---	---	---	PASS	A	138400810	A	A	138400810	3	1	81	1	0	0	0	0	1	0	0	0	11914	1072	37	2	731	2	PIK3CB	3	138400810	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	111542	138400810	59621620	212	30864										
CLSTN2	64084	broad.mit.edu	37	chr3	140282980	140282980	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctgactatcacagtcaaccCcatggaggtgatcctcatgc	9	13	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:140282980C>A	uc003etn.2	+	16	2850	c.2660C>A	c.(2659-2661)CCC>CAC	p.P887H		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	887	Cytoplasmic (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						ACAGTCAACCCCATGGAGGTG	0.592										HNSCC(16;0.037)			26	41	---	---	---	---	PASS	A	140282980	A	A	140282980	3	1	81	1	0	0	0	0	1	0	0	0	3562	623	22	3	2722	3	CLSTN2	3	140282980	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1882170	140282980	57739450	213	30865										
ZIC4	84107	broad.mit.edu	37	chr3	147108857	147108857	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctgggcggcggcgagcgccCgtgcaccttcatgtgcttac	15	14	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:147108857C>A	uc003ewd.1	-	4	1138	c.865G>T	c.(865-867)GGG>TGG	p.G289W	ZIC4_uc003ewc.1_Missense_Mutation_p.G219W|ZIC4_uc011bno.1_Missense_Mutation_p.G339W	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	289						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						GGCGAGCGCCCGTGCACCTTC	0.662													22	29	---	---	---	---	PASS	A	147108857	A	A	147108857	3	1	81	1	0	0	0	0	1	0	0	0	17678	652	23	1	147	1	ZIC4	3	147108857	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	6825877	147108857	50913573	214	30866										
SGEF	26084	broad.mit.edu	37	chr3	153905539	153905539	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agatgacataagtgacattgTggaaaaacacacagcatcca	8	8	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:153905539T>C	uc011bog.1	+	7	1764	c.1553T>C	c.(1552-1554)GTG>GCG	p.V518A	SGEF_uc011boh.1_Missense_Mutation_p.V518A	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	518	DH.				regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			AGTGACATTGTGGAAAAACAC	0.343													9	18	---	---	---	---	PASS	C	153905539	C	C	153905539	3	2	81	1	0	0	0	0	1	0	0	0	14205	1696	59	5	1575	5	SGEF	3	153905539	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	6796682	153905539	44116891	215	30867										
IQCJ	654502	broad.mit.edu	37	chr3	158983161	158983161	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tactctcaaggagccccagaTagaaagacttggttttctca	8	10	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:158983161T>C	uc003fcp.1	+	5	554	c.449T>C	c.(448-450)ATA>ACA	p.I150T	SCHIP1_uc003fcq.1_Intron|SCHIP1_uc003fcr.1_Intron|IQCJ_uc010hvy.1_Missense_Mutation_p.I123T	NM_001042705	NP_001036170	Q1A5X6	IQCJ_HUMAN	IQ motif containing J isoform CaMBPv1	150											0			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			GAGCCCCAGATAGAAAGACTT	0.498													29	37	---	---	---	---	PASS	C	158983161	C	C	158983161	3	2	81	1	0	0	0	0	1	0	0	0	7812	1406	49	5	515	5	IQCJ	3	158983161	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	5077622	158983161	39039269	216	30868										
PPM1L	151742	broad.mit.edu	37	chr3	160474419	160474419	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagagaccacatggaggaccGcttcgaagttctcacggatc	12	11	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:160474419G>C	uc003fdr.2	+	1	424	c.323G>C	c.(322-324)CGC>CCC	p.R108P		NM_139245	NP_640338	Q5SGD2	PPM1L_HUMAN	protein phosphatase 1 (formerly 2C)-like	108	Cytoplasmic (Potential).|PP2C-like.				protein dephosphorylation|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(1)	1			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			ATGGAGGACCGCTTCGAAGTT	0.597													12	25	---	---	---	---	PASS	C	160474419	C	C	160474419	3	2	81	1	0	0	0	0	1	0	0	0	12344	1087	38	4	325	4	PPM1L	3	160474419	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1491258	160474419	37548011	217	30869										
GHSR	2693	broad.mit.edu	37	chr3	172165633	172165633	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcgttggtgtcccaagggtCggtgccgttctcgtgctcca	13	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:172165633C>A	uc003fib.1	-	1	571	c.571G>T	c.(571-573)GAC>TAC	p.D191Y	GHSR_uc011bpv.1_Missense_Mutation_p.D191Y	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	191	Extracellular (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)			TCCCAAGGGTCGGTGCCGTTC	0.642													21	22	---	---	---	---	PASS	A	172165633	A	A	172165633	3	1	81	1	0	0	0	0	1	0	0	0	6375	884	31	2	611	2	GHSR	3	172165633	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	11691214	172165633	25856797	218	30870										
NLGN1	22871	broad.mit.edu	37	chr3	173525585	173525585	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttggcaagttatggcaatgtGatcgtcatcacagtcaacta	9	8	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:173525585G>T	uc003fio.1	+	4	1032	c.609G>T	c.(607-609)GTG>GTT	p.V203V	NLGN1_uc010hww.1_Silent_p.V243V|NLGN1_uc003fip.1_Silent_p.V203V	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	220	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			ATGGCAATGTGATCGTCATCA	0.398													42	54	---	---	---	---	PASS	T	173525585	T	T	173525585	2	4	81	1	0	0	0	0	0	0	0	1	10461	1277	45	2		2	NLGN1	3	173525585	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1359952	173525585	24496845	219	30871										
NLGN1	22871	broad.mit.edu	37	chr3	173998396	173998396	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctccatattggattaaaacCaagagttaaagaacattaca	5	7	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:173998396C>T	uc003fio.1	+	7	2198	c.1775C>T	c.(1774-1776)CCA>CTA	p.P592L	NLGN1_uc003fip.1_Missense_Mutation_p.P592L	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	609	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			GGATTAAAACCAAGAGTTAAA	0.388													30	49	---	---	---	---	PASS	T	173998396	T	T	173998396	3	4	81	1	0	0	0	0	1	0	0	0	10461	594	21	3	1793	3	NLGN1	3	173998396	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	472811	173998396	24024034	220	30872										
PIK3CA	5290	broad.mit.edu	37	chr3	178916930	178916930	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaaagtaattgaaccagtagGcaaccgtgaagaaaagatcc	9	7	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:178916930G>T	uc003fjk.2	+	2	474	c.317G>T	c.(316-318)GGC>GTC	p.G106V		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	106	PI3K-ABD.		G -> V (in cancer; shows an increase in lipid kinase activity).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.G106V(4)|p.G106_R108del(2)|p.G106R(1)|p.P104_G106>R(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GAACCAGTAGGCAACCGTGAA	0.348		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			29	86	---	---	---	---	PASS	T	178916930	T	T	178916930	3	4	81	1	0	0	0	0	1	0	0	0	11913	1203	42	3	319	3	PIK3CA	3	178916930	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4918534	178916930	19105500	221	30873										
ZNF639	51193	broad.mit.edu	37	chr3	179050862	179050862	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aacagaaatcagaactacctGgttcccagtcctgtacttag	7	11	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:179050862G>C	uc003fjq.1	+	5	598	c.255G>C	c.(253-255)CTG>CTC	p.L85L	ZNF639_uc003fjr.1_Silent_p.L85L	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	85					initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			agaactacctggttcccagtc	0.085													6	15	---	---	---	---	PASS	C	179050862	C	C	179050862	2	2	81	1	0	0	0	0	0	0	0	1	18053	1335	47	4		4	ZNF639	3	179050862	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	133932	179050862	18971568	222	30874										
ATP11B	23200	broad.mit.edu	37	chr3	182602633	182602633	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaaattgctttttgttcatGgtcatttttattatattaga	5	5	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:182602633G>T	uc003flb.2	+	22	2859	c.2602G>T	c.(2602-2604)GGT>TGT	p.G868C	ATP11B_uc003flc.2_Missense_Mutation_p.G452C|ATP11B_uc011bqm.1_Missense_Mutation_p.G172C|ATP11B_uc010hxf.1_Missense_Mutation_p.G30C	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	868	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			TTTTGTTCATGGTCATTTTTA	0.303													38	67	---	---	---	---	PASS	T	182602633	T	T	182602633	3	4	81	1	0	0	0	0	1	0	0	0	1120	1348	47	3	2688	3	ATP11B	3	182602633	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3551771	182602633	15419797	223	30875										
HTR3E	285242	broad.mit.edu	37	chr3	183824114	183824114	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaataagggcccgggtctcaCccccacccacctgcccggtg	10	18	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:183824114C>A	uc010hxq.2	+	8	1590	c.1124C>A	c.(1123-1125)ACC>AAC	p.T375N	HTR3E_uc003fml.3_Missense_Mutation_p.T360N|HTR3E_uc003fmm.2_Missense_Mutation_p.T390N|HTR3E_uc010hxr.2_Missense_Mutation_p.T401N|HTR3E_uc003fmn.2_Missense_Mutation_p.T375N	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	375	Cytoplasmic (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			CCGGGTCTCACCCCCACCCAC	0.468													11	5	---	---	---	---	PASS	A	183824114	A	A	183824114	3	1	81	1	0	0	0	0	1	0	0	0	7448	507	18	3	1195	3	HTR3E	3	183824114	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1221481	183824114	14198316	224	30876										
ECE2	9718	broad.mit.edu	37	chr3	184003353	184003353	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagtctgcacaagagaagctGctggagaccctctatggcac	12	11	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:184003353G>T	uc003fni.3	+	10	1628	c.1590G>T	c.(1588-1590)CTG>CTT	p.L530L	ECE2_uc011brh.1_Silent_p.L383L|ECE2_uc003fnl.3_Silent_p.L458L|ECE2_uc003fnm.3_Silent_p.L412L|ECE2_uc003fnk.3_Silent_p.L383L|ECE2_uc011bri.1_Silent_p.L445L|ECE2_uc010hxv.2_Silent_p.L174L	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	530	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AAGAGAAGCTGCTGGAGACCC	0.507													42	38	---	---	---	---	PASS	T	184003353	T	T	184003353	2	4	81	1	0	0	0	0	0	0	0	1	4890	1306	46	3		3	ECE2	3	184003353	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	179239	184003353	14019077	225	30877										
TMEM41A	90407	broad.mit.edu	37	chr3	185209360	185209360	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	actgtgtatatgattagcagTacttgtttcattcaattgca	7	6	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:185209360T>A	uc003fpj.2	-	5	856	c.760A>T	c.(760-762)ACT>TCT	p.T254S	TMEM41A_uc003fpk.2_3'UTR	NM_080652	NP_542383	Q96HV5	TM41A_HUMAN	transmembrane protein 41A precursor	254						integral to membrane					0	all_cancers(143;7.78e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			TGATTAGCAGTACTTGTTTCA	0.393													24	75	---	---	---	---	PASS	A	185209360	A	A	185209360	3	1	81	1	0	0	0	0	1	0	0	0	16161	1638	57	5	38	5	TMEM41A	3	185209360	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	1206007	185209360	12813070	226	30878										
IGF2BP2	10644	broad.mit.edu	37	chr3	185414409	185414409	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcacttattaccttgttccaCattctccactgtcccatatt	2	14	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:185414409C>T	uc003fpo.2	-	4	410	c.331G>A	c.(331-333)GTG>ATG	p.V111M	IGF2BP2_uc010hyi.2_Missense_Mutation_p.V48M|IGF2BP2_uc010hyj.2_Missense_Mutation_p.V48M|IGF2BP2_uc010hyk.2_Translation_Start_Site|IGF2BP2_uc010hyl.2_Missense_Mutation_p.V48M|IGF2BP2_uc003fpp.2_Missense_Mutation_p.V111M|IGF2BP2_uc003fpq.2_Missense_Mutation_p.V110M	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	111	RRM 2.				anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			CCTTGTTCCACATTCTCCACT	0.383													59	36	---	---	---	---	PASS	T	185414409	T	T	185414409	3	4	81	1	0	0	0	0	1	0	0	0	7574	478	17	3	1520	3	IGF2BP2	3	185414409	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	205049	185414409	12608021	227	30879										
PYDC2	152138	broad.mit.edu	37	chr3	191179134	191179134	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctggtagaaatcttcaccagCcactcctgcagctactgggc	9	14	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:191179134C>G	uc011bso.1	+	1	183	c.183C>G	c.(181-183)AGC>AGG	p.S61R		NM_001083308	NP_001076777	Q56P42	PYDC2_HUMAN	pyrin domain containing 2	61	DAPIN.					cytoplasm|nucleus					0						TCTTCACCAGCCACTCCTGCA	0.517													35	60	---	---	---	---	PASS	G	191179134	G	G	191179134	3	3	81	1	0	0	0	0	1	0	0	0	12859	738	26	4	185	4	PYDC2	3	191179134	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5764725	191179134	6843296	228	30880										
LRRC33	375387	broad.mit.edu	37	chr3	196386836	196386836	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tccaggagcaaggtcacctgCgcagcctggtcctgggggac	15	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:196386836C>T	uc003fwv.2	+	3	426	c.322C>T	c.(322-324)CGC>TGC	p.R108C		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	108	Extracellular (Potential).|LRR 3.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		AGGTCACCTGCGCAGCCTGGT	0.672													8	57	---	---	---	---	PASS	T	196386836	T	T	196386836	3	4	81	1	0	0	0	0	1	0	0	0	8988	768	27	1	328	1	LRRC33	3	196386836	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5207702	196386836	1635594	229	30881										
LRCH3	84859	broad.mit.edu	37	chr3	197556525	197556525	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgccggattatgataggagaCcgttgggttttggctcctgg	15	7	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr3:197556525C>G	uc011bul.1	+	6	873	c.868C>G	c.(868-870)CCG>GCG	p.P290A	LRCH3_uc003fyj.1_Missense_Mutation_p.P290A|LRCH3_uc011bum.1_Missense_Mutation_p.P290A|LRCH3_uc011bun.1_Missense_Mutation_p.P164A|LRCH3_uc003fyk.2_5'UTR	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	290	LRR 9.					extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		TGATAGGAGACCGTTGGGTTT	0.338													54	36	---	---	---	---	PASS	G	197556525	G	G	197556525	3	3	81	1	0	0	0	0	1	0	0	0	8934	507	18	4	890	4	LRCH3	3	197556525	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1169689	197556525	465905	230	30882										
ADRA2C	152	broad.mit.edu	37	chr4	3768709	3768709	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcgggcaggtgtggtgcggcGtgtacctggcgctcgatgtg	19	9	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:3768709G>C	uc003ghm.2	+	1	414	c.376G>C	c.(376-378)GTG>CTG	p.V126L	ADRA2C_uc010icx.2_Missense_Mutation_p.V126L	NM_000683	NP_000674	P18825	ADA2C_HUMAN	alpha-2C-adrenergic receptor	126	Helical; Name=3; (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation|regulation of insulin secretion	endosome|integral to plasma membrane	alpha-2A adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|protein heterodimerization activity|protein homodimerization activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)	Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	GTGGTGCGGCGTGTACCTGGC	0.632													12	7	---	---	---	---	PASS	C	3768709	C	C	3768709	3	2	81	1	0	0	0	0	1	0	0	0	339	1145	40	4	378	4	ADRA2C	4	3768709	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08		3768709	187385567	231	30883										
OTOP1	133060	broad.mit.edu	37	chr4	4228266	4228266	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cggagctgcggcccacgtacCacagcatccacagcagctgc	11	17	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:4228266C>A	uc003ghp.1	-	1	356	c.326G>T	c.(325-327)TGG>TTG	p.W109L		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	109	Helical; (Potential).				biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GCCCACGTACCACAGCATCCA	0.726													5	5	---	---	---	---	PASS	A	4228266	A	A	4228266	3	1	81	1	0	0	0	0	1	0	0	0	11305	595	21	3	1536	3	OTOP1	4	4228266	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	459557	4228266	186926010	232	30884										
CD38	952	broad.mit.edu	37	chr4	15818263	15818263	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagaccgtaccttgcaacaaGgtaattgggggcatgccatt	11	10	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:15818263G>T	uc011bxc.1	+	2	470	c.363G>T	c.(361-363)AAG>AAT	p.K121N	CD38_uc003goj.1_Missense_Mutation_p.K121N|CD38_uc003gol.1_Missense_Mutation_p.K121N	NM_001775	NP_001766	P28907	CD38_HUMAN	CD38 antigen	121	Extracellular (Potential).				B cell receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of apoptosis|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of transcription, DNA-dependent|response to drug	integral to membrane|plasma membrane	binding|NAD+ nucleosidase activity|receptor activity			ovary(2)	2						CTTGCAACAAGGTAATTGGGG	0.373													27	15	---	---	---	---	PASS	T	15818263	T	T	15818263	3	4	81	1	0	0	0	0	1	0	0	0	3009	1014	35	3	369	3	CD38	4	15818263	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	11589997	15818263	175336013	233	30885										
PCDH7	5099	broad.mit.edu	37	chr4	30724272	30724272	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttaacatcaaagacgagaacGacaacgtgccgtccattgaa	8	10	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:30724272G>C	uc003gsk.1	+	1	2236	c.1228G>C	c.(1228-1230)GAC>CAC	p.D410H	PCDH7_uc011bxw.1_Missense_Mutation_p.D363H|PCDH7_uc011bxx.1_Missense_Mutation_p.D410H	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	410	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						AGACGAGAACGACAACGTGCC	0.637													12	8	---	---	---	---	PASS	C	30724272	C	C	30724272	3	2	81	1	0	0	0	0	1	0	0	0	11516	1058	37	2	1230	2	PCDH7	4	30724272	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	14906009	30724272	160430004	234	30886										
FAM114A1	92689	broad.mit.edu	37	chr4	38879895	38879895	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agggtgcaggggctgccgccAttgggccccctgtgcagcct	16	14	0	0	rs139197115	byFrequency	TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:38879895A>G	uc003gtn.2	+	3	372	c.196A>G	c.(196-198)ATT>GTT	p.I66V	FAM114A1_uc011byh.1_Intron|FAM114A1_uc011byg.1_Missense_Mutation_p.I66V	NM_138389	NP_612398	Q8IWE2	NXP20_HUMAN	hypothetical protein LOC92689	66						cytoplasm				ovary(1)	1						GGCTGCCGCCATTGGGCCCCC	0.582													16	9	---	---	---	---	PASS	G	38879895	G	G	38879895	3	3	81	1	0	0	0	0	1	0	0	0	5403	217	8	5	198	5	FAM114A1	4	38879895	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	8155623	38879895	152274381	235	30887										
CHRNA9	55584	broad.mit.edu	37	chr4	40356465	40356465	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaggtggcgaaagtcatagaCcgattcttcatgtggatttt	11	6	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:40356465C>G	uc003gva.1	+	5	1384	c.1368C>G	c.(1366-1368)GAC>GAG	p.D456E		NM_017581	NP_060051	Q9UGM1	ACHA9_HUMAN	cholinergic receptor, nicotinic, alpha 9	456	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|synaptic transmission	cell junction|postsynaptic membrane	calcium channel activity|receptor activity			breast(3)|skin(3)|central_nervous_system(1)	7					Nicotine(DB00184)	AAGTCATAGACCGATTCTTCA	0.433													13	51	---	---	---	---	PASS	G	40356465	G	G	40356465	3	3	81	1	0	0	0	0	1	0	0	0	3389	506	18	4	1386	4	CHRNA9	4	40356465	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1476570	40356465	150797811	236	30888										
ATP8A1	10396	broad.mit.edu	37	chr4	42554597	42554597	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtgacagactgccatcattgTaagaaattcacatattatag	7	7	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:42554597T>G	uc003gwr.2	-	17	1676	c.1444A>C	c.(1444-1446)ACA>CCA	p.T482P	ATP8A1_uc003gws.2_Missense_Mutation_p.T467P|ATP8A1_uc011byz.1_Missense_Mutation_p.T467P	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	482	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	GCCATCATTGTAAGAAATTCA	0.368													22	11	---	---	---	---	PASS	G	42554597	G	G	42554597	3	3	81	1	0	0	0	0	1	0	0	0	1192	1638	57	5	2134	5	ATP8A1	4	42554597	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	2198132	42554597	148599679	237	30889										
ATP8A1	10396	broad.mit.edu	37	chr4	42588390	42588390	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtccatcaagccttatgtttCcaacaaaatcgtagagatgt	7	9	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:42588390C>A	uc003gwr.2	-	9	930	c.698G>T	c.(697-699)GGA>GTA	p.G233V	ATP8A1_uc003gws.2_Missense_Mutation_p.G233V|ATP8A1_uc011byz.1_Missense_Mutation_p.G233V	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	233	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	CCTTATGTTTCCAACAAAATC	0.383													27	17	---	---	---	---	PASS	A	42588390	A	A	42588390	3	1	81	1	0	0	0	0	1	0	0	0	1192	855	30	2	2912	2	ATP8A1	4	42588390	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	33793	42588390	148565886	238	30890										
LRRC66	339977	broad.mit.edu	37	chr4	52860817	52860817	+	Nonsense_Mutation	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atcagtgtcagaggcattttCcagatgagtcttgtacatgc							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:52860817C>A	uc003gzi.2	-	4	2384	c.2371G>T	c.(2371-2373)GAA>TAA	p.E791*		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	791						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						GAGGCATTTTCCAGATGAGTC	0.478													18	6	---	---	---	---	PASS	A	52860817	A	A	52860817	4	1	81	1	0	0	0	0	0	1	0	0	9018	864	30	2	275	2	LRRC66	4	52860817	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	10272427	52860817	138293459	239	30891	614	2								
LRRC66	339977	broad.mit.edu	37	chr4	52860818	52860818	+	Silent	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcagtgtcagaggcattttcCagatgagtcttgtacatgcc							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:52860818C>A	uc003gzi.2	-	4	2383	c.2370G>T	c.(2368-2370)CTG>CTT	p.L790L		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	790						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						AGGCATTTTCCAGATGAGTCT	0.478													19	6	---	---	---	---	PASS	A	52860818	A	A	52860818	2	1	81	1	0	0	0	0	0	0	0	1	9018	581	21	3		3	LRRC66	4	52860818	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1	52860818	138293458	240	30892	614	2								
LPHN3	23284	broad.mit.edu	37	chr4	62599252	62599252	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaaatattctttggattttgGacctctggatagtagatcag	10	5	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:62599252G>T	uc010ihh.2	+	5	1348	c.1175G>T	c.(1174-1176)GGA>GTA	p.G392V	LPHN3_uc003hcq.3_Missense_Mutation_p.G392V|LPHN3_uc010ihg.1_Missense_Mutation_p.G460V|LPHN3_uc003hcs.1_Missense_Mutation_p.G221V	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	392	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						TTGGATTTTGGACCTCTGGAT	0.358													10	1	---	---	---	---	PASS	T	62599252	T	T	62599252	3	4	81	1	0	0	0	0	1	0	0	0	8917	1174	41	2	1193	2	LPHN3	4	62599252	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	9738434	62599252	128555024	241	30893										
EPHA5	2044	broad.mit.edu	37	chr4	66535395	66535395	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gccagggacgctggggtgatGggggtgtcgccgccgccgct	20	12	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:66535395G>T	uc003hcy.2	-	1	259	c.66C>A	c.(64-66)CCC>CCA	p.P22P	EPHA5_uc003hcx.2_5'Flank|EPHA5_uc003hcz.2_Silent_p.P22P|EPHA5_uc011cah.1_Silent_p.P22P|EPHA5_uc011cai.1_Silent_p.P22P|EPHA5_uc003hda.2_Silent_p.P22P|uc003hdb.2_5'Flank	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	22					cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CTGGGGTGATGGGGGTGTCGC	0.562										TSP Lung(17;0.13)			6	0	---	---	---	---	PASS	T	66535395	T	T	66535395	2	4	81	1	0	0	0	0	0	0	0	1	5170	1335	47	3		3	EPHA5	4	66535395	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	3936143	66535395	124618881	242	30894										
TMPRSS11B	132724	broad.mit.edu	37	chr4	69093705	69093705	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cacctggcttattctttttaCcacatccatcaccccagctt	3	16	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:69093705C>A	uc003hdw.3	-	10	1311	c.1175G>T	c.(1174-1176)GGT>GTT	p.G392V		NM_182502	NP_872308	Q86T26	TM11B_HUMAN	transmembrane protease, serine 11B	392	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						ATTCTTTTTACCACATCCATC	0.393													32	11	---	---	---	---	PASS	A	69093705	A	A	69093705	3	1	81	1	0	0	0	0	1	0	0	0	16237	507	18	3	79	3	TMPRSS11B	4	69093705	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2558310	69093705	122060571	243	30895										
TMPRSS11B	132724	broad.mit.edu	37	chr4	69101752	69101752	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acctcagatttgacatattcCttatatatactggaattttg	5	7	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:69101752C>T	uc003hdw.3	-	4	412	c.276G>A	c.(274-276)AAG>AAA	p.K92K		NM_182502	NP_872308	Q86T26	TM11B_HUMAN	transmembrane protease, serine 11B	92	SEA.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						TGACATATTCCTTATATATAC	0.249													23	10	---	---	---	---	PASS	T	69101752	T	T	69101752	2	4	81	1	0	0	0	0	0	0	0	1	16237	680	24	3		3	TMPRSS11B	4	69101752	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	8047	69101752	122052524	244	30896										
SULT1B1	27284	broad.mit.edu	37	chr4	70620797	70620797	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acagaactcacctgatttagGataagtggctatcacaatgt	8	8	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:70620797G>T	uc003hen.2	-	2	437	c.139C>A	c.(139-141)CCT>ACT	p.P47T		NM_014465	NP_055280	O43704	ST1B1_HUMAN	sulfotransferase family, cytosolic, 1B, member	47					3'-phosphoadenosine 5'-phosphosulfate metabolic process|cellular biogenic amine metabolic process|flavonoid metabolic process|steroid metabolic process|sulfation|thyroid hormone metabolic process|xenobiotic metabolic process	cytosol					0						CCTGATTTAGGATAAGTGGCT	0.398													79	24	---	---	---	---	PASS	T	70620797	T	T	70620797	3	4	81	1	0	0	0	0	1	0	0	0	15373	1174	41	2	779	2	SULT1B1	4	70620797	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1519045	70620797	120533479	245	30897										
AFM	173	broad.mit.edu	37	chr4	74350016	74350016	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtatgttcaggaagcaacctTtgaagaaatggaaaagctgg	12	5	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:74350016T>A	uc003hhb.2	+	3	210	c.179T>A	c.(178-180)TTT>TAT	p.F60Y		NM_001133	NP_001124	P43652	AFAM_HUMAN	afamin precursor	60	Albumin 1.				vitamin transport		vitamin E binding			ovary(2)|central_nervous_system(1)	3	Breast(15;0.00102)		Epithelial(6;5.69e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|all cancers(17;0.000555)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GAAGCAACCTTTGAAGAAATG	0.403													28	15	---	---	---	---	PASS	A	74350016	A	A	74350016	3	1	81	1	0	0	0	0	1	0	0	0	361	1841	64	5	189	5	AFM	4	74350016	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	3729219	74350016	116804260	246	30898										
GK2	2712	broad.mit.edu	37	chr4	80329252	80329252	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cactttgtgatgactaagtaGttccgctgtttttgaattga	9	6	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:80329252G>T	uc003hlu.2	-	1	121	c.103C>A	c.(103-105)CTA>ATA	p.L35I		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	35					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						TGACTAAGTAGTTCCGCTGTT	0.488													44	18	---	---	---	---	PASS	T	80329252	T	T	80329252	3	4	81	1	0	0	0	0	1	0	0	0	6421	1020	36	3	1562	3	GK2	4	80329252	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5979236	80329252	110825024	247	30899										
DSPP	1834	broad.mit.edu	37	chr4	88532089	88532089	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aattacatatttttgcatttGggcagtagcatgggccattc	9	7	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:88532089G>A	uc003hqu.2	+	2	149	c.29G>A	c.(28-30)TGG>TAG	p.W10*		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	10					biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		TTTTGCATTTGGGCAGTAGCA	0.279													31	12	---	---	---	---	PASS	A	88532089	A	A	88532089	4	1	81	1	0	0	0	0	0	1	0	0	4782	1357	47	3	31	3	DSPP	4	88532089	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	8202837	88532089	102622187	248	30900										
GRID2	2895	broad.mit.edu	37	chr4	94343994	94343994	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	accagggcttctccattgatGttttggatgccttatctaac	8	10	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:94343994G>T	uc011cdt.1	+	10	1678	c.1420G>T	c.(1420-1422)GTT>TTT	p.V474F	GRID2_uc011cdu.1_Missense_Mutation_p.V379F	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	474	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CTCCATTGATGTTTTGGATGC	0.413													29	13	---	---	---	---	PASS	T	94343994	T	T	94343994	3	4	81	1	0	0	0	0	1	0	0	0	6772	1377	48	3	1458	3	GRID2	4	94343994	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5811905	94343994	96810282	249	30901										
METAP1	23173	broad.mit.edu	37	chr4	99982392	99982392	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcagtttgagcacaccctccTggtcacagacactggctgtg	10	13	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:99982392T>G	uc003huf.3	+	11	1202	c.1085T>G	c.(1084-1086)CTG>CGG	p.L362R	METAP1_uc003hug.2_RNA|METAP1_uc010ild.2_RNA	NM_015143	NP_055958	P53582	AMPM1_HUMAN	methionyl aminopeptidase 1	362					N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis|regulation of translation	cytoplasm	aminopeptidase activity|metal ion binding|metalloexopeptidase activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;3.12e-07)		CACACCCTCCTGGTCACAGAC	0.517													53	18	---	---	---	---	PASS	G	99982392	G	G	99982392	3	3	81	1	0	0	0	0	1	0	0	0	9486	1580	55	5	1127	5	METAP1	4	99982392	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	5638398	99982392	91171884	250	30902										
SEC24B	10427	broad.mit.edu	37	chr4	110384608	110384608	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttaaagataattcattctctGgtcaaaatacagctatcagc	5	8	4	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:110384608G>A	uc003hzk.2	+	2	740	c.685G>A	c.(685-687)GGT>AGT	p.G229S	SEC24B_uc003hzl.2_Missense_Mutation_p.G229S|SEC24B_uc011cfp.1_Missense_Mutation_p.G260S|SEC24B_uc011cfq.1_Missense_Mutation_p.G229S|SEC24B_uc011cfr.1_Missense_Mutation_p.G229S	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	229					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		TTCATTCTCTGGTCAAAATAC	0.453													38	24	---	---	---	---	PASS	A	110384608	A	A	110384608	3	1	81	1	0	0	0	0	1	0	0	0	13995	1348	47	3	691	3	SEC24B	4	110384608	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	10402216	110384608	80769668	251	30903										
UGT8	7368	broad.mit.edu	37	chr4	115544082	115544082	+	Missense_Mutation	SNP	G	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttctcctgtggagtgctgttGggatagcgaaggctgccaaa							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:115544082G>A	uc003ibs.2	+	2	568	c.46G>A	c.(46-48)GGG>AGG	p.G16R	UGT8_uc003ibt.2_Missense_Mutation_p.G16R|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	16					central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		GAGTGCTGTTGGGATAGCGAA	0.418													26	5	---	---	---	---	PASS	A	115544082	A	A	115544082	3	1	81	1	0	0	0	0	1	0	0	0	16962	1348	47	3	48	3	UGT8	4	115544082	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5159474	115544082	75610194	252	30904	615	2								
UGT8	7368	broad.mit.edu	37	chr4	115544083	115544083	+	Missense_Mutation	SNP	G	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctcctgtggagtgctgttgGgatagcgaaggctgccaaaa							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:115544083G>T	uc003ibs.2	+	2	569	c.47G>T	c.(46-48)GGG>GTG	p.G16V	UGT8_uc003ibt.2_Missense_Mutation_p.G16V|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	16					central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		AGTGCTGTTGGGATAGCGAAG	0.423													26	5	---	---	---	---	PASS	T	115544083	T	T	115544083	3	4	81	1	0	0	0	0	1	0	0	0	16962	1232	43	3	49	3	UGT8	4	115544083	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1	115544083	75610193	253	30905	615	2								
NDST4	64579	broad.mit.edu	37	chr4	115858509	115858509	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aatgaagccctttctgtaccGggcaggtttcagatgtggat	12	8	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:115858509G>T	uc003ibu.2	-	5	2051	c.1372C>A	c.(1372-1374)CGG>AGG	p.R458R	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	458	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TTTCTGTACCGGGCAGGTTTC	0.458													28	14	---	---	---	---	PASS	T	115858509	T	T	115858509	2	4	81	1	0	0	0	0	0	0	0	1	10258	1115	39	1		1	NDST4	4	115858509	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	314426	115858509	75295767	254	30906										
C4orf31	79625	broad.mit.edu	37	chr4	121961197	121961197	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggagtattgtcttcttcaacCacaaagaaatacctgtggga	9	8	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:121961197C>G	uc003idq.1	-	3	728	c.201G>C	c.(199-201)GTG>GTC	p.V67V		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	67											0						CTTCTTCAACCACAAAGAAAT	0.443													26	15	---	---	---	---	PASS	G	121961197	G	G	121961197	2	3	81	1	0	0	0	0	0	0	0	1	2261	581	21	4		4	C4orf31	4	121961197	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	6102688	121961197	69193079	255	30907										
POU4F2	5458	broad.mit.edu	37	chr4	147561088	147561088	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctctggcagccgtggacatcGtctcccagagcaagagccac	11	15	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:147561088G>A	uc003ikv.2	+	2	606	c.358G>A	c.(358-360)GTC>ATC	p.V120I		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	120					estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					CGTGGACATCGTCTCCCAGAG	0.592													3	30	---	---	---	---	PASS	A	147561088	A	A	147561088	3	1	81	1	0	0	0	0	1	0	0	0	12279	1145	40	1	364	1	POU4F2	4	147561088	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	25599891	147561088	43593188	256	30908										
TRIM2	23321	broad.mit.edu	37	chr4	154217020	154217020	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcagcccgtttaagctgaaaGtgatccgatccgctgatgtg	12	10	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:154217020G>A	uc003ing.2	+	6	1462	c.1261G>A	c.(1261-1263)GTG>ATG	p.V421M	TRIM2_uc003inh.2_Missense_Mutation_p.V448M	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	421	Filamin.					cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		TAAGCTGAAAGTGATCCGATC	0.542													25	9	---	---	---	---	PASS	A	154217020	A	A	154217020	3	1	81	1	0	0	0	0	1	0	0	0	16491	1029	36	3	1364	3	TRIM2	4	154217020	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	6655932	154217020	36937256	257	30909										
FGA	2243	broad.mit.edu	37	chr4	155507571	155507571	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tacttccagttccagagctcCcagagttccagcttccagta	7	14	0	2	rs145956993		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:155507571C>A	uc003iod.1	-	5	1068	c.1010G>T	c.(1009-1011)GGG>GTG	p.G337V	FGA_uc003ioe.1_Missense_Mutation_p.G337V|FGA_uc003iof.1_Intron	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	337	By similarity.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	TCCAGAGCTCCCAGAGTTCCA	0.567													75	19	---	---	---	---	PASS	A	155507571	A	A	155507571	3	1	81	1	0	0	0	0	1	0	0	0	5830	623	22	3	1642	3	FGA	4	155507571	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1290551	155507571	35646705	258	30910										
NPY5R	4889	broad.mit.edu	37	chr4	164271880	164271880	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcccatatctaataatttaaCagcaaaccatggctactttc	3	11	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:164271880C>T	uc003iqn.2	+	4	637	c.455C>T	c.(454-456)ACA>ATA	p.T152I		NM_006174	NP_006165	Q15761	NPY5R_HUMAN	neuropeptide Y receptor Y5	152	Cytoplasmic (Potential).				cardiac left ventricle morphogenesis|outflow tract morphogenesis	integral to plasma membrane				lung(6)|skin(1)	7	all_hematologic(180;0.166)	Prostate(90;0.109)				AATAATTTAACAGCAAACCAT	0.358													75	44	---	---	---	---	PASS	T	164271880	T	T	164271880	3	4	81	1	0	0	0	0	1	0	0	0	10610	478	17	3	457	3	NPY5R	4	164271880	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	8764309	164271880	26882396	259	30911										
ACSL1	2180	broad.mit.edu	37	chr4	185694258	185694258	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgttgctttcacaaaagctgAacaatcgctcactatgtttc	6	10	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:185694258A>G	uc003iww.2	-	10	1186	c.892T>C	c.(892-894)TCA>CCA	p.S298P	ACSL1_uc011ckm.1_Missense_Mutation_p.S127P|ACSL1_uc003iwt.1_Missense_Mutation_p.S298P|ACSL1_uc003iwu.1_Missense_Mutation_p.S298P|ACSL1_uc011ckn.1_Missense_Mutation_p.S264P|ACSL1_uc003iwv.1_Missense_Mutation_p.S298P|ACSL1_uc010ise.1_RNA	NM_001995	NP_001986	P33121	ACSL1_HUMAN	acyl-CoA synthetase long-chain family member 1	298	Cytoplasmic (Potential).				digestion|fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|regulation of fatty acid oxidation|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			ovary(2)	2		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Colorectal(36;0.00172)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0315)|all_neural(102;0.107)|Medulloblastoma(177;0.146)		all cancers(43;1.33e-28)|Epithelial(43;5.3e-25)|OV - Ovarian serous cystadenocarcinoma(60;4.88e-11)|Colorectal(24;3.59e-06)|STAD - Stomach adenocarcinoma(60;2.72e-05)|GBM - Glioblastoma multiforme(59;2.83e-05)|BRCA - Breast invasive adenocarcinoma(30;7.66e-05)|COAD - Colon adenocarcinoma(29;0.000538)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.0419)	Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	ACAAAAGCTGAACAATCGCTC	0.423													6	4	---	---	---	---	PASS	G	185694258	G	G	185694258	3	3	81	1	0	0	0	0	1	0	0	0	177	246	9	5	1252	5	ACSL1	4	185694258	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	21422378	185694258	5460018	260	30912										
TRIML1	339976	broad.mit.edu	37	chr4	189065190	189065190	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acctctctgctctcttgcagGagcgagccactcttgcttca	8	15	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr4:189065190G>T	uc003izm.1	+	5	874	c.759G>T	c.(757-759)AGG>AGT	p.R253S	TRIML1_uc003izn.1_5'UTR	NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	253					multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		TCTCTTGCAGGAGCGAGCCAC	0.572													7	4	---	---	---	---	PASS	T	189065190	T	T	189065190	3	4	81	1	0	0	0	0	1	0	0	0	16547	1188	41	2	777	2	TRIML1	4	189065190	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3370932	189065190	2089086	261	30913										
ADAMTS16	170690	broad.mit.edu	37	chr5	5237172	5237172	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caaagatgggactccatgctCggaggatagccgtaatgttt	12	8	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:5237172C>A	uc003jdl.2	+	14	2252	c.2114C>A	c.(2113-2115)TCG>TAG	p.S705*	ADAMTS16_uc003jdk.1_Nonsense_Mutation_p.S705*|ADAMTS16_uc010itk.1_Intron	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	705	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						ACTCCATGCTCGGAGGATAGC	0.289													29	69	---	---	---	---	PASS	A	5237172	A	A	5237172	4	1	81	1	0	0	0	0	0	1	0	0	261	893	31	2	2168	2	ADAMTS16	5	5237172	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08		5237172	175678088	262	30914										
NSUN2	54888	broad.mit.edu	37	chr5	6600126	6600126	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcatctgggctgttgggctcTcctgctctctgtccctcagt	11	14	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:6600126T>A	uc003jdu.2	-	19	2282	c.2217A>T	c.(2215-2217)GGA>GGT	p.G739G	NSUN2_uc003jds.2_Silent_p.G185G|NSUN2_uc003jdt.2_Silent_p.G503G|NSUN2_uc011cmk.1_Silent_p.G704G|NSUN2_uc003jdv.2_Silent_p.G503G	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	739						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						TGTTGGGCTCTCCTGCTCTCT	0.592													43	36	---	---	---	---	PASS	A	6600126	A	A	6600126	2	1	81	1	0	0	0	0	0	0	0	1	10678	1538	54	5		5	NSUN2	5	6600126	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	1362954	6600126	174315134	263	30915										
MARCH6	10299	broad.mit.edu	37	chr5	10402206	10402206	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttgaaggcctaatcacaacCatagttgggtatatactttt	7	7	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:10402206C>T	uc003jet.1	+	12	1191	c.1008C>T	c.(1006-1008)ACC>ACT	p.T336T	MARCH6_uc011cmu.1_Silent_p.T288T|MARCH6_uc003jeu.1_Silent_p.T34T|MARCH6_uc011cmv.1_Silent_p.T231T	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	336	Extracellular (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						TAATCACAACCATAGTTGGGT	0.323													23	31	---	---	---	---	PASS	T	10402206	T	T	10402206	2	4	81	1	0	0	0	0	0	0	0	1	9305	581	21	3		3	MARCH6	5	10402206	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	3802080	10402206	170513054	264	30916										
FBXL7	23194	broad.mit.edu	37	chr5	15936631	15936631	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtcacccttgcatggcaaacAgatttccatccgctacctgg	8	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:15936631A>G	uc003jfn.1	+	4	1293	c.812A>G	c.(811-813)CAG>CGG	p.Q271R		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	271	LRR 4.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						CATGGCAAACAGATTTCCATC	0.572													8	23	---	---	---	---	PASS	G	15936631	G	G	15936631	3	3	81	1	0	0	0	0	1	0	0	0	5724	188	7	5	826	5	FBXL7	5	15936631	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	5534425	15936631	164978629	265	30917										
BASP1	10409	broad.mit.edu	37	chr5	17275828	17275828	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaccaaaagtgacggggcccCagcttcagactcaaaacccg	10	14	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:17275828C>A	uc003jfx.2	+	2	682	c.503C>A	c.(502-504)CCA>CAA	p.P168Q		NM_006317	NP_006308	P80723	BASP1_HUMAN	brain abundant, membrane attached signal protein	168					glomerular visceral epithelial cell differentiation|negative regulation of transcription, DNA-dependent	cytoplasm|cytoskeleton|growth cone|nuclear speck|plasma membrane	protein domain specific binding|transcription corepressor activity|transcription regulatory region DNA binding				0						GACGGGGCCCCAGCTTCAGAC	0.617													7	5	---	---	---	---	PASS	A	17275828	A	A	17275828	3	1	81	1	0	0	0	0	1	0	0	0	1317	594	21	3	505	3	BASP1	5	17275828	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1339197	17275828	163639432	266	30918										
CDH18	1016	broad.mit.edu	37	chr5	19473458	19473458	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttgctgaatccagcgagctGatagacccagcttctgatct	10	11	2	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:19473458G>A	uc003jgc.2	-	12	2627	c.2250C>T	c.(2248-2250)ATC>ATT	p.I750I	CDH18_uc003jgd.2_Silent_p.I750I|CDH18_uc011cnm.1_3'UTR	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	750	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CCAGCGAGCTGATAGACCCAG	0.483													28	31	---	---	---	---	PASS	A	19473458	A	A	19473458	2	1	81	1	0	0	0	0	0	0	0	1	3103	1280	45	2		2	CDH18	5	19473458	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	2197630	19473458	161441802	267	30919										
CDH12	1010	broad.mit.edu	37	chr5	21975299	21975299	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttgatgatgaattctgattCaggctccaggggctttctgg	12	7	3	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:21975299C>A	uc010iuc.2	-	3	885	c.427G>T	c.(427-429)GAA>TAA	p.E143*	CDH12_uc011cno.1_Nonsense_Mutation_p.E143*|CDH12_uc003jgk.2_Nonsense_Mutation_p.E143*	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	143	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						AATTCTGATTCAGGCTCCAGG	0.433										HNSCC(59;0.17)			18	60	---	---	---	---	PASS	A	21975299	A	A	21975299	4	1	81	1	0	0	0	0	0	1	0	0	3098	835	29	2	1997	2	CDH12	5	21975299	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2501841	21975299	158939961	268	30920										
CDH12	1010	broad.mit.edu	37	chr5	21975442	21975442	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaacggtgccagcgccatctCctgagagggtgtatttcaca	11	11	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:21975442C>A	uc010iuc.2	-	3	742	c.284G>T	c.(283-285)GGA>GTA	p.G95V	CDH12_uc011cno.1_Missense_Mutation_p.G95V|CDH12_uc003jgk.2_Missense_Mutation_p.G95V	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	95	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						AGCGCCATCTCCTGAGAGGGT	0.383										HNSCC(59;0.17)			27	88	---	---	---	---	PASS	A	21975442	A	A	21975442	3	1	81	1	0	0	0	0	1	0	0	0	3098	855	30	2	2140	2	CDH12	5	21975442	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	143	21975442	158939818	269	30921										
CDH9	1007	broad.mit.edu	37	chr5	26916021	26916021	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttccatctcctttatcttgGtcagtgtgaagctttagaga	8	8	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:26916021G>A	uc003jgs.1	-	3	409	c.240C>T	c.(238-240)GAC>GAT	p.D80D	CDH9_uc010iug.2_Silent_p.D80D	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	80	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						CTTTATCTTGGTCAGTGTGAA	0.338													36	37	---	---	---	---	PASS	A	26916021	A	A	26916021	2	1	81	1	0	0	0	0	0	0	0	1	3117	1252	44	3		3	CDH9	5	26916021	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	4940579	26916021	153999239	270	30922										
ADAMTS12	81792	broad.mit.edu	37	chr5	33588736	33588736	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcccactgtccagtccgaggGgcacaggatgtctctgttgc	13	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:33588736G>T	uc003jia.1	-	18	2996	c.2833C>A	c.(2833-2835)CCC>ACC	p.P945T	ADAMTS12_uc010iuq.1_Missense_Mutation_p.P860T	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	945	TSP type-1 4.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CAGTCCGAGGGGCACAGGATG	0.597										HNSCC(64;0.19)			30	121	---	---	---	---	PASS	T	33588736	T	T	33588736	3	4	81	1	0	0	0	0	1	0	0	0	257	1232	43	3	1979	3	ADAMTS12	5	33588736	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	6672715	33588736	147326524	271	30923										
ADAMTS12	81792	broad.mit.edu	37	chr5	33637841	33637841	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tccagtgcaatatttccctcCaaactttggcctgcaaatga	6	12	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:33637841C>A	uc003jia.1	-	12	1892	c.1729G>T	c.(1729-1731)GGA>TGA	p.G577*	ADAMTS12_uc010iuq.1_Nonsense_Mutation_p.G577*	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	577	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TATTTCCCTCCAAACTTTGGC	0.463										HNSCC(64;0.19)			21	21	---	---	---	---	PASS	A	33637841	A	A	33637841	4	1	81	1	0	0	0	0	0	1	0	0	257	603	21	3	3107	3	ADAMTS12	5	33637841	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	49105	33637841	147277419	272	30924										
NIPBL	25836	broad.mit.edu	37	chr5	37006572	37006572	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	attatgacatcccctaacatGccaaaagctgtgtacattga	6	10	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:37006572G>T	uc003jkl.3	+	17	4468	c.3969G>T	c.(3967-3969)ATG>ATT	p.M1323I	NIPBL_uc003jkk.3_Missense_Mutation_p.M1323I	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1323					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			CCCCTAACATGCCAAAAGCTG	0.353													24	29	---	---	---	---	PASS	T	37006572	T	T	37006572	3	4	81	1	0	0	0	0	1	0	0	0	10428	1319	46	3	4031	3	NIPBL	5	37006572	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3368731	37006572	143908688	273	30925										
FYB	2533	broad.mit.edu	37	chr5	39203058	39203058	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgccccccgtgttatatttcGccatgagggactttacatct	8	12	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:39203058G>A	uc003jls.2	-	1	72	c.5C>T	c.(4-6)GCG>GTG	p.A2V	FYB_uc003jlt.2_Missense_Mutation_p.A2V|FYB_uc003jlu.2_Missense_Mutation_p.A2V|FYB_uc011cpl.1_Missense_Mutation_p.A12V	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	2					cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			GTTATATTTCGCCATGAGGGA	0.438													16	59	---	---	---	---	PASS	A	39203058	A	A	39203058	3	1	81	1	0	0	0	0	1	0	0	0	6124	1087	38	1	2556	1	FYB	5	39203058	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2196486	39203058	141712202	274	30926										
HEATR7B2	133558	broad.mit.edu	37	chr5	41000935	41000935	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caatctcacatcatcctgctCctgtggtgacgaatgcatgt	8	12	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:41000935C>A	uc003jmj.3	-	38	4685	c.4195G>T	c.(4195-4197)GAG>TAG	p.E1399*	HEATR7B2_uc003jmi.3_Nonsense_Mutation_p.E954*	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1399	HEAT 15.						binding			ovary(6)|central_nervous_system(2)	8						TCATCCTGCTCCTGTGGTGAC	0.473													3	6	---	---	---	---	PASS	A	41000935	A	A	41000935	4	1	81	1	0	0	0	0	0	1	0	0	7035	869	30	2	582	2	HEATR7B2	5	41000935	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1797877	41000935	139914325	275	30927										
ANKRD55	79722	broad.mit.edu	37	chr5	55396067	55396067	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctctcttctgctgctgtgctGtgtcttcgttgacttggaat	10	10	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:55396067G>A	uc003jqu.2	-	12	1940	c.1788C>T	c.(1786-1788)CAC>CAT	p.H596H	ANKRD55_uc003jqt.2_Silent_p.H308H	NM_024669	NP_078945	Q3KP44	ANR55_HUMAN	ankyrin repeat domain 55 isoform 1	595										skin(1)	1		Lung NSC(810;8.69e-05)|Prostate(74;0.00634)|Breast(144;0.0334)|Ovarian(174;0.223)				CTGCTGTGCTGTGTCTTCGTT	0.443													8	88	---	---	---	---	PASS	A	55396067	A	A	55396067	2	1	81	1	0	0	0	0	0	0	0	1	681	1368	48	3		3	ANKRD55	5	55396067	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	14395132	55396067	125519193	276	30928										
ERCC8	1161	broad.mit.edu	37	chr5	60194177	60194177	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aacagtgaggaggtgaagtcCatcacttgtaaaacataagc	10	7	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:60194177C>A	uc003jsm.3	-	9	839	c.769G>T	c.(769-771)GGA>TGA	p.G257*	ERCC8_uc003jsk.2_RNA|ERCC8_uc003jsl.3_Nonsense_Mutation_p.G199*|ERCC8_uc011cqp.1_Nonsense_Mutation_p.G104*	NM_000082	NP_000073	Q13216	ERCC8_HUMAN	excision repair cross-complementing rodent	257	WD 4.				positive regulation of DNA repair|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein polyubiquitination|response to oxidative stress|response to UV|response to UV|transcription-coupled nucleotide-excision repair	Cul4A-RING ubiquitin ligase complex|nuclear matrix|nucleoplasm|nucleotide-excision repair complex|soluble fraction	protein binding|protein complex binding				0		Lung NSC(810;1.51e-06)|Prostate(74;0.0322)|Ovarian(174;0.0481)|Breast(144;0.077)				AGGTGAAGTCCATCACTTGTA	0.353								Direct_reversal_of_damage|NER					32	14	---	---	---	---	PASS	A	60194177	A	A	60194177	4	1	81	1	0	0	0	0	0	1	0	0	5219	603	21	3	437	3	ERCC8	5	60194177	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	4798110	60194177	120721083	277	30929										
IPO11	51194	broad.mit.edu	37	chr5	61783622	61783622	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcactgaagtattatttataGatatattccatgaatataat	5	4	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:61783622G>C	uc003jtc.2	+	13	1433	c.1243G>C	c.(1243-1245)GAT>CAT	p.D415H	IPO11_uc011cqr.1_Missense_Mutation_p.D455H|IPO11_uc003jtb.1_Missense_Mutation_p.D415H	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	415						cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		ATTATTTATAGATATATTCCA	0.294													60	24	---	---	---	---	PASS	C	61783622	C	C	61783622	3	2	81	1	0	0	0	0	1	0	0	0	7793	942	33	2	1413	2	IPO11	5	61783622	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1589445	61783622	119131638	278	30930										
ERBB2IP	55914	broad.mit.edu	37	chr5	65288601	65288601	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	taccatgtcgctgtctacgaGgggaagaggagactgtcact	13	9	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:65288601G>A	uc003juk.1	+	3	363	c.55G>A	c.(55-57)GGG>AGG	p.G19R	ERBB2IP_uc003juh.1_Missense_Mutation_p.G19R|ERBB2IP_uc003jui.1_Missense_Mutation_p.G19R|ERBB2IP_uc003juj.1_Missense_Mutation_p.G19R|ERBB2IP_uc011cqx.1_Missense_Mutation_p.G19R|ERBB2IP_uc011cqy.1_Missense_Mutation_p.G19R|ERBB2IP_uc011cqz.1_Missense_Mutation_p.G19R|ERBB2IP_uc010iwx.1_Missense_Mutation_p.G19R|ERBB2IP_uc003jul.1_Missense_Mutation_p.G19R	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	19					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		CTGTCTACGAGGGGAAGAGGA	0.363													46	18	---	---	---	---	PASS	A	65288601	A	A	65288601	3	1	81	1	0	0	0	0	1	0	0	0	5207	1000	35	3	57	3	ERBB2IP	5	65288601	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3504979	65288601	115626659	279	30931										
ERBB2IP	55914	broad.mit.edu	37	chr5	65288623	65288623	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggaagaggagactgtcactaCtcttgattattctcattgca	9	8	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:65288623C>A	uc003juk.1	+	3	385	c.77C>A	c.(76-78)ACT>AAT	p.T26N	ERBB2IP_uc003juh.1_Missense_Mutation_p.T26N|ERBB2IP_uc003jui.1_Missense_Mutation_p.T26N|ERBB2IP_uc003juj.1_Missense_Mutation_p.T26N|ERBB2IP_uc011cqx.1_Missense_Mutation_p.T26N|ERBB2IP_uc011cqy.1_Missense_Mutation_p.T26N|ERBB2IP_uc011cqz.1_Missense_Mutation_p.T26N|ERBB2IP_uc010iwx.1_Missense_Mutation_p.T26N|ERBB2IP_uc003jul.1_Missense_Mutation_p.T26N	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	26	LRR 1.				basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		ACTGTCACTACTCTTGATTAT	0.378													4	53	---	---	---	---	PASS	A	65288623	A	A	65288623	3	1	81	1	0	0	0	0	1	0	0	0	5207	565	20	3	79	3	ERBB2IP	5	65288623	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	22	65288623	115626637	280	30932										
FCHO2	115548	broad.mit.edu	37	chr5	72348261	72348261	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcctatgcatccaaataactCacatcacacaatggcttctt	4	13	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:72348261C>T	uc003kcl.2	+	13	1216	c.1100C>T	c.(1099-1101)TCA>TTA	p.S367L	FCHO2_uc011csl.1_Missense_Mutation_p.S334L|FCHO2_uc010izb.2_5'UTR	NM_138782	NP_620137	Q0JRZ9	FCHO2_HUMAN	FCH domain only 2 isoform a	367										ovary(1)	1		Lung NSC(167;0.0465)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;4.6e-53)		CCAAATAACTCACATCACACA	0.363													6	0	---	---	---	---	PASS	T	72348261	T	T	72348261	3	4	81	1	0	0	0	0	1	0	0	0	5788	838	29	2	1150	2	FCHO2	5	72348261	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	7059638	72348261	108566999	281	30933										
FAM169A	26049	broad.mit.edu	37	chr5	74091907	74091907	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gggtttccagtgctggccgtGcatctctatcactgctttca	10	12	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:74091907G>T	uc003kdm.2	-	11	1251	c.1208C>A	c.(1207-1209)GCA>GAA	p.A403E	FAM169A_uc010izm.2_Missense_Mutation_p.A343E|FAM169A_uc003kdl.2_Missense_Mutation_p.A221E	NM_015566	NP_056381	Q9Y6X4	F169A_HUMAN	hypothetical protein LOC26049	403	Asp/Glu-rich.										0						TGCTGGCCGTGCATCTCTATC	0.428													83	27	---	---	---	---	PASS	T	74091907	T	T	74091907	3	4	81	1	0	0	0	0	1	0	0	0	5487	1319	46	3	816	3	FAM169A	5	74091907	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1743646	74091907	106823353	282	30934										
ZFYVE16	9765	broad.mit.edu	37	chr5	79733783	79733783	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtgttgttctaggtggggaaCcattcaaagagaatgatctt	12	5	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:79733783C>T	uc003kgr.3	+	4	1581	c.1279C>T	c.(1279-1281)CCA>TCA	p.P427S	ZFYVE16_uc010jak.1_Missense_Mutation_p.P427S|ZFYVE16_uc003kgp.2_Missense_Mutation_p.P427S|ZFYVE16_uc003kgq.3_Missense_Mutation_p.P427S|ZFYVE16_uc003kgs.3_Missense_Mutation_p.P427S	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	427					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		AGGTGGGGAACCATTCAAAGA	0.363													4	38	---	---	---	---	PASS	T	79733783	T	T	79733783	3	4	81	1	0	0	0	0	1	0	0	0	17661	507	18	3	1285	3	ZFYVE16	5	79733783	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5641876	79733783	101181477	283	30935										
VCAN	1462	broad.mit.edu	37	chr5	82789635	82789635	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttccccagatatcccatccgGgctcccagagtaggctgtta	9	14	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:82789635G>T	uc003kii.3	+	5	989	c.633G>T	c.(631-633)CGG>CGT	p.R211R	VCAN_uc003kij.3_Silent_p.R211R|VCAN_uc010jau.2_Silent_p.R211R|VCAN_uc003kik.3_Silent_p.R211R|VCAN_uc003kih.3_Silent_p.R211R	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	211	Link 1.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ATCCCATCCGGGCTCCCAGAG	0.473													5	73	---	---	---	---	PASS	T	82789635	T	T	82789635	2	4	81	1	0	0	0	0	0	0	0	1	17135	1219	43	3		3	VCAN	5	82789635	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	3055852	82789635	98125625	284	30936										
VCAN	1462	broad.mit.edu	37	chr5	82818033	82818033	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggaagacaaagaggcctttgGacctcaggcgctttctacgc	12	11	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:82818033G>T	uc003kii.3	+	7	4264	c.3908G>T	c.(3907-3909)GGA>GTA	p.G1303V	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.G1303V|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1303	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GAGGCCTTTGGACCTCAGGCG	0.448													55	15	---	---	---	---	PASS	T	82818033	T	T	82818033	3	4	81	1	0	0	0	0	1	0	0	0	17135	1174	41	2	3930	2	VCAN	5	82818033	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	28398	82818033	98097227	285	30937										
VCAN	1462	broad.mit.edu	37	chr5	82849264	82849264	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccatcgacgcacatgggatgCagctgaacgggaatgccgtc	13	12	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:82849264C>A	uc003kii.3	+	11	9931	c.9575C>A	c.(9574-9576)GCA>GAA	p.A3192E	VCAN_uc003kij.3_Missense_Mutation_p.A2205E|VCAN_uc010jau.2_Missense_Mutation_p.A1438E|VCAN_uc003kik.3_Missense_Mutation_p.A451E|VCAN_uc003kil.3_Missense_Mutation_p.A1856E	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3192	C-type lectin.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ACATGGGATGCAGCTGAACGG	0.483													6	70	---	---	---	---	PASS	A	82849264	A	A	82849264	3	1	81	1	0	0	0	0	1	0	0	0	17135	710	25	3	9613	3	VCAN	5	82849264	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	31231	82849264	98065996	286	30938										
HAPLN1	1404	broad.mit.edu	37	chr5	82948403	82948403	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cactatcactgcctcccttcAgaaacactctaccctggtag	5	16	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:82948403A>G	uc003kim.2	-	2	412	c.341T>C	c.(340-342)CTG>CCG	p.L114P	HAPLN1_uc003kin.2_Missense_Mutation_p.L114P	NM_001884	NP_001875	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	114	Ig-like V-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)		GCCTCCCTTCAGAAACACTCT	0.438													8	79	---	---	---	---	PASS	G	82948403	G	G	82948403	3	3	81	1	0	0	0	0	1	0	0	0	6954	188	7	5	735	5	HAPLN1	5	82948403	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	99139	82948403	97966857	287	30939										
GPR98	84059	broad.mit.edu	37	chr5	89918485	89918485	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttactctcatcagggaaaaGggaacctatggaatggtcat	10	8	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:89918485G>T	uc003kju.2	+	5	621	c.525G>T	c.(523-525)AAG>AAT	p.K175N	GPR98_uc003kjt.2_Translation_Start_Site	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	175	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TCAGGGAAAAGGGAACCTATG	0.348													4	0	---	---	---	---	PASS	T	89918485	T	T	89918485	3	4	81	1	0	0	0	0	1	0	0	0	6721	991	35	3	543	3	GPR98	5	89918485	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	6970082	89918485	90996775	288	30940										
DMXL1	1657	broad.mit.edu	37	chr5	118440944	118440944	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tagcacacaatataacctggGatcccacaggtaagaaaata	7	9	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:118440944G>T	uc003ksd.2	+	4	536	c.355G>T	c.(355-357)GAT>TAT	p.D119Y	DMXL1_uc010jcl.1_Missense_Mutation_p.D119Y|DMXL1_uc003ksc.1_Missense_Mutation_p.D119Y	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	119	WD 1.									ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		TATAACCTGGGATCCCACAGG	0.328													31	14	---	---	---	---	PASS	T	118440944	T	T	118440944	3	4	81	1	0	0	0	0	1	0	0	0	4594	1174	41	2	369	2	DMXL1	5	118440944	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	28522459	118440944	62474316	289	30941										
SRFBP1	153443	broad.mit.edu	37	chr5	121356226	121356226	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aatattttgatgatagcacaGaagaaaggttttacaagcag	9	4	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:121356226G>C	uc003kst.1	+	6	868	c.796G>C	c.(796-798)GAA>CAA	p.E266Q		NM_152546	NP_689759	Q8NEF9	SRFB1_HUMAN	serum response factor binding protein 1	266					regulation of transcription, DNA-dependent|transcription, DNA-dependent	perinuclear region of cytoplasm					0		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000227)|Epithelial(69;0.000365)|all cancers(49;0.00517)		TGATAGCACAGAAGAAAGGTT	0.408													50	22	---	---	---	---	PASS	C	121356226	C	C	121356226	3	2	81	1	0	0	0	0	1	0	0	0	15143	943	33	2	818	2	SRFBP1	5	121356226	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2915282	121356226	59559034	290	30942										
FBN2	2201	broad.mit.edu	37	chr5	127710431	127710432	+	Frame_Shift_Ins	INS	-	G	G													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcagattcctggggtctggcINSattcatcaacatctgtgcag							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:127710431_127710432insG	uc003kuu.2	-	15	2423_2424	c.1984_1985insC	c.(1984-1986)TGCfs	p.C662fs	FBN2_uc003kuv.2_Frame_Shift_Ins_p.C629fs	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	662	EGF-like 10; calcium-binding.				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)		TGGGGTCTGGCATTCATCAACA	0.51													16	27	---	---	---	---		G	127710432	G	G	127710431	7	5	81	1	0	1	1	0	0	0	0	0	5703	710	25	0	6957	0	FBN2	5	127710431	Frame_Shift_Ins	INS	-	TCGA-37-5819-01A-01D-1632-08	6354205	127710431	53204829	291	30943										
TRPC7	57113	broad.mit.edu	37	chr5	135610393	135610393	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agcaatccaataggctatggCgagaaaagggaggcctatgg	14	7	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:135610393C>A	uc003lbn.1	-	3	1096	c.1093G>T	c.(1093-1095)GCC>TCC	p.A365S	TRPC7_uc010jef.1_Intron|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.A296S|TRPC7_uc010jei.1_Intron|TRPC7_uc010jej.1_Intron	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	366	Helical; (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TAGGCTATGGCGAGAAAAGGG	0.463													7	1	---	---	---	---	PASS	A	135610393	A	A	135610393	3	1	81	1	0	0	0	0	1	0	0	0	16581	768	27	1	1528	1	TRPC7	5	135610393	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	7899962	135610393	45304867	292	30944										
HNRNPA0	10949	broad.mit.edu	37	chr5	137089649	137089649	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggggattcaccaccaccacgCagtccgtcagagtcccaaag	10	15	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:137089649C>A	uc003lbt.2	-	1	391	c.107G>T	c.(106-108)TGC>TTC	p.C36F	MYOT_uc011cye.1_Intron|HNRNPA0_uc010jeo.2_Intron	NM_006805	NP_006796	Q13151	ROA0_HUMAN	heterogeneous nuclear ribonucleoprotein A0	36	RRM 1.				nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|RNA binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CACCACCACGCAGTCCGTCAG	0.617													16	2	---	---	---	---	PASS	A	137089649	A	A	137089649	3	1	81	1	0	0	0	0	1	0	0	0	7256	710	25	3	814	3	HNRNPA0	5	137089649	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1479256	137089649	43825611	293	30945										
PCDHA9	9752	broad.mit.edu	37	chr5	140229700	140229700	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caggtgagcgcgcgcgacgcGggcgtgccgcctctgggcag	19	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:140229700G>T	uc003lhu.2	+	1	2344	c.1620G>T	c.(1618-1620)GCG>GCT	p.A540A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Silent_p.A540A	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	540	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGCGACGCGGGCGTGCCGC	0.672													66	21	---	---	---	---	PASS	T	140229700	T	T	140229700	2	4	81	1	0	0	0	0	0	0	0	1	11531	1103	39	1		1	PCDHA9	5	140229700	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	3140051	140229700	40685560	294	30946										
PCDHA11	56138	broad.mit.edu	37	chr5	140249689	140249689	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccaatggcaggtcactgtaCagtctgggtggaaatcttgg	13	9	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:140249689C>A	uc003lia.2	+	1	1859	c.1001C>A	c.(1000-1002)ACA>AAA	p.T334K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.T334K	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	334	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTCACTGTACAGTCTGGGTG	0.488													27	8	---	---	---	---	PASS	A	140249689	A	A	140249689	3	1	81	1	0	0	0	0	1	0	0	0	11521	478	17	3	1003	3	PCDHA11	5	140249689	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	19989	140249689	40665571	295	30947										
PCDHAC2	56134	broad.mit.edu	37	chr5	140348236	140348236	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	accatctagcccagacttctGacctggacctctttaaggta	7	13	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:140348236G>A	uc003lii.2	+	1	2125	c.1885G>A	c.(1885-1887)GAC>AAC	p.D629N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Missense_Mutation_p.D629N	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	629	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGACTTCTGACCTGGACCT	0.502													19	18	---	---	---	---	PASS	A	140348236	A	A	140348236	3	1	81	1	0	0	0	0	1	0	0	0	11533	1290	45	2	1887	2	PCDHAC2	5	140348236	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	98547	140348236	40567024	296	30948										
PCDHB2	56133	broad.mit.edu	37	chr5	140476696	140476696	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttcctgaagccaattatcccCaacttcgttgctcagggtgc	8	13	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:140476696C>T	uc003lil.2	+	1	2460	c.2322C>T	c.(2320-2322)CCC>CCT	p.P774P	PCDHB2_uc003lim.1_Silent_p.P435P	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	774	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAATTATCCCCAACTTCGTTG	0.512													61	18	---	---	---	---	PASS	T	140476696	T	T	140476696	2	4	81	1	0	0	0	0	0	0	0	1	11542	581	21	3		3	PCDHB2	5	140476696	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	128460	140476696	40438564	297	30949										
PCDHB4	56131	broad.mit.edu	37	chr5	140501817	140501817	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cgtttgcagctggatcgtcaGactggagatttgcttctgag	13	8	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:140501817G>T	uc003lip.1	+	1	237	c.237G>T	c.(235-237)CAG>CAT	p.Q79H		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	79	Cadherin 1.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGATCGTCAGACTGGAGATT	0.557													35	13	---	---	---	---	PASS	T	140501817	T	T	140501817	3	4	81	1	0	0	0	0	1	0	0	0	11544	933	33	2	239	2	PCDHB4	5	140501817	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	25121	140501817	40413443	298	30950										
PCDHB11	56125	broad.mit.edu	37	chr5	140580181	140580181	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggaacaaatggtgaaatatgCtataccttttcccatgcctc	7	10	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:140580181C>G	uc003liy.2	+	1	834	c.834C>G	c.(832-834)TGC>TGG	p.C278W	PCDHB11_uc011daj.1_5'UTR	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	278	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTGAAATATGCTATACCTTTT	0.383													36	99	---	---	---	---	PASS	G	140580181	G	G	140580181	3	3	81	1	0	0	0	0	1	0	0	0	11536	805	28	4	836	4	PCDHB11	5	140580181	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	78364	140580181	40335079	299	30951										
PCDHGA6	56109	broad.mit.edu	37	chr5	140753711	140753711	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcctgctcctcacgctcctgGggacgctgtggggggccgcg	16	15	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:140753711G>T	uc003ljy.1	+	1	61	c.61G>T	c.(61-63)GGG>TGG	p.G21W	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.G21W	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	21					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACGCTCCTGGGGACGCTGTG	0.602													10	3	---	---	---	---	PASS	T	140753711	T	T	140753711	3	4	81	1	0	0	0	0	1	0	0	0	11558	1232	43	3	63	3	PCDHGA6	5	140753711	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	173530	140753711	40161549	300	30952										
PCDHGA8	9708	broad.mit.edu	37	chr5	140773410	140773410	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggaagatgtaaatgacaatAgaccagaagtgatcattacg	10	5	1	5			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:140773410A>T	uc003lkd.1	+	1	1928	c.1030A>T	c.(1030-1032)AGA>TGA	p.R344*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Nonsense_Mutation_p.R344*	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	344	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAATGACAATAGACCAGAAGT	0.428													72	22	---	---	---	---	PASS	T	140773410	T	T	140773410	4	4	81	1	0	0	0	0	0	1	0	0	11560	412	15	5	1032	5	PCDHGA8	5	140773410	Nonsense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	19699	140773410	40141850	301	30953										
ZNF300	91975	broad.mit.edu	37	chr5	150275522	150275522	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	accagtgtgaattcttttatGtataatgaggtgggacttct	10	5	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:150275522G>T	uc003lsy.1	-	6	1546	c.1279C>A	c.(1279-1281)CAT>AAT	p.H427N	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	427	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATTCTTTTATGTATAATGAGG	0.438													31	45	---	---	---	---	PASS	T	150275522	T	T	150275522	3	4	81	1	0	0	0	0	1	0	0	0	17828	1377	48	3	539	3	ZNF300	5	150275522	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	9502112	150275522	30639738	302	30954										
FAT2	2196	broad.mit.edu	37	chr5	150948104	150948104	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggaccaccacacgggtcaaaGcttccaactccaaggtcttc	8	15	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:150948104G>T	uc003lue.3	-	1	402	c.389C>A	c.(388-390)GCT>GAT	p.A130D	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.A130D	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	130	Extracellular (Potential).|Cadherin 1.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACGGGTCAAAGCTTCCAACTC	0.527													98	21	---	---	---	---	PASS	T	150948104	T	T	150948104	3	4	81	1	0	0	0	0	1	0	0	0	5690	971	34	3	12752	3	FAT2	5	150948104	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	672582	150948104	29967156	303	30955										
FAM71B	153745	broad.mit.edu	37	chr5	156589583	156589583	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctctatgttttgcttctccaCcatcttagccacgatatcta	4	13	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:156589583C>A	uc003lwn.2	-	2	1793	c.1693G>T	c.(1693-1695)GTG>TTG	p.V565L		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	565						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TGCTTCTCCACCATCTTAGCC	0.493													130	34	---	---	---	---	PASS	A	156589583	A	A	156589583	3	1	81	1	0	0	0	0	1	0	0	0	5608	507	18	3	128	3	FAM71B	5	156589583	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5641479	156589583	24325677	304	30956										
SLIT3	6586	broad.mit.edu	37	chr5	168216564	168216564	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccaactcgggccccacttaCagcgatgtgagtgatttcag	10	13	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:168216564C>A	uc003mab.2	-	11	1499	c.1079_splice	c.e11+1	p.L360_splice	SLIT3_uc010jjg.2_Splice_Site_p.L360_splice|SLIT3_uc010jji.2_Splice_Site_p.L360_splice|SLIT3_uc003mac.1_Splice_Site_p.L157_splice	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor						apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCCCCACTTACAGCGATGTGA	0.512													5	4	---	---	---	---	PASS	A	168216564	A	A	168216564	5	1	81	1	0	0	0	0	0	0	1	0	14741	492	17	3	3595	3	SLIT3	5	168216564	Splice_Site	SNP	C	TCGA-37-5819-01A-01D-1632-08	11626981	168216564	12698696	305	30957										
DOCK2	1794	broad.mit.edu	37	chr5	169463541	169463541	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttctacaaagataacaacaGggaggagatgtacataaggt	10	5	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:169463541G>C	uc003maf.2	+	36	3727	c.3647G>C	c.(3646-3648)AGG>ACG	p.R1216T	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.R708T	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1216	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GATAACAACAGGGAGGAGATG	0.308													29	10	---	---	---	---	PASS	C	169463541	C	C	169463541	3	2	81	1	0	0	0	0	1	0	0	0	4687	1000	35	4	3789	4	DOCK2	5	169463541	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1246977	169463541	11451719	306	30958										
STK10	6793	broad.mit.edu	37	chr5	171471959	171471959	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggaggggtttgggcactccGcctcctcgctcagcttgaag	14	12	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr5:171471959G>A	uc003mbo.1	-	19	3134	c.2834C>T	c.(2833-2835)GCG>GTG	p.A945V		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	945	Potential.						ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TGGGCACTCCGCCTCCTCGCT	0.592													19	6	---	---	---	---	PASS	A	171471959	A	A	171471959	3	1	81	1	0	0	0	0	1	0	0	0	15285	1087	38	1	76	1	STK10	5	171471959	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2008418	171471959	9443301	307	30959										
PRPF4B	8899	broad.mit.edu	37	chr6	4053064	4053064	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggcattgaaactccttaaaaGatgcaatatcctacatgcag	7	9	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:4053064G>A	uc003mvv.2	+	11	2514	c.2423G>A	c.(2422-2424)AGA>AAA	p.R808K	PRPF4B_uc003mvw.2_RNA|C6orf146_uc010jnq.1_Intron|PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	808	Protein kinase.					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				CTCCTTAAAAGATGCAATATC	0.378													15	8	---	---	---	---	PASS	A	4053064	A	A	4053064	3	1	81	1	0	0	0	0	1	0	0	0	12573	942	33	2	2465	2	PRPF4B	6	4053064	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08		4053064	167062003	308	30960										
F13A1	2162	broad.mit.edu	37	chr6	6152085	6152085	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtcttgttactccaggaccaTccaggtgtacccagacattt	8	12	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:6152085T>A	uc003mwv.2	-	14	2129	c.2006A>T	c.(2005-2007)GAT>GTT	p.D669V	F13A1_uc011dib.1_Intron	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	669					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	TCCAGGACCATCCAGGTGTAC	0.507													41	22	---	---	---	---	PASS	A	6152085	A	A	6152085	3	1	81	1	0	0	0	0	1	0	0	0	5340	1435	50	5	200	5	F13A1	6	6152085	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	2099021	6152085	164962982	309	30961										
SLC17A2	10246	broad.mit.edu	37	chr6	25914827	25914827	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctgactgatgaggaatccaGtggcagtggaagagatgatt	14	6	0	5			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:25914827G>T	uc011dkb.1	-	10	1366	c.1283C>A	c.(1282-1284)ACT>AAT	p.T428N	SLC17A2_uc011dkc.1_Missense_Mutation_p.L379M|SLC17A2_uc003nfl.2_Missense_Mutation_p.L379M			O00624	NPT3_HUMAN	SubName: Full=Solute carrier family 17 (Sodium phosphate), member 2, isoform CRA_b; SubName: Full=Putative uncharacterized protein SLC17A2;	428	Helical; (Potential).				phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			ovary(1)	1						GAGGAATCCAGTGGCAGTGGA	0.318													17	7	---	---	---	---	PASS	T	25914827	T	T	25914827	3	4	81	1	0	0	0	0	1	0	0	0	14417	1020	36	3	183	3	SLC17A2	6	25914827	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	19762742	25914827	145200240	310	30962										
HIST1H2BK	85236	broad.mit.edu	37	chr6	27114553	27114553	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cgagcccttcttgggcgcggGagcggacttcgctggttccg	16	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:27114553G>C	uc003nix.1	-	1	67	c.25C>G	c.(25-27)CCC>GCC	p.P9A	HIST1H2AH_uc003niz.2_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080593	NP_542160	O60814	H2B1K_HUMAN	histone cluster 1, H2bk	9					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						TTGGGCGCGGGAGCGGACTTC	0.582													9	49	---	---	---	---	PASS	C	27114553	C	C	27114553	3	2	81	1	0	0	0	0	1	0	0	0	7150	1174	41	2	359	2	HIST1H2BK	6	27114553	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1199726	27114553	144000514	311	30963										
OR2J2	26707	broad.mit.edu	37	chr6	29141583	29141583	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tacgtggactcccatctccaCacaccaatgtacttcttcct	4	16	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:29141583C>A	uc011dlm.1	+	1	273	c.171C>A	c.(169-171)CAC>CAA	p.H57Q		NM_030905	NP_112167	O76002	OR2J2_HUMAN	olfactory receptor, family 2, subfamily J,	57	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCCATCTCCACACACCAATGT	0.473													60	29	---	---	---	---	PASS	A	29141583	A	A	29141583	3	1	81	1	0	0	0	0	1	0	0	0	11003	477	17	3	173	3	OR2J2	6	29141583	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2027030	29141583	141973484	312	30964										
HLA-A	3105	broad.mit.edu	37	chr6	29911978	29911978	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgctgggccctgggcttctaCcctgcggagatcacactgac	12	14	2	2	rs61760922		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:29911978C>A	uc003nol.2	+	4	699	c.699C>A	c.(697-699)TAC>TAA	p.Y233*	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_5'Flank|HLA-A_uc010jrq.2_Nonsense_Mutation_p.Y112*|HLA-A_uc003nok.2_Nonsense_Mutation_p.Y112*|HLA-A_uc003non.2_Nonsense_Mutation_p.Y233*|HLA-A_uc003noo.2_Nonsense_Mutation_p.Y233*|HLA-A_uc010jrr.2_Nonsense_Mutation_p.Y233*|HLA-A_uc003nom.2_Nonsense_Mutation_p.Y112*|HLA-A_uc010klp.2_Nonsense_Mutation_p.Y205*|HLA-A_uc011dmc.1_Nonsense_Mutation_p.Y112*|HLA-A_uc011dmd.1_Nonsense_Mutation_p.Y112*	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A	233	Extracellular (Potential).|Alpha-3.|Ig-like C1-type.				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						TGGGCTTCTACCCTGCGGAGA	0.622									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)			17	34	---	---	---	---	PASS	A	29911978	A	A	29911978	4	1	81	1	0	0	0	0	0	1	0	0	7195	518	18	3	713	3	HLA-A	6	29911978	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	770395	29911978	141203089	313	30965										
HLA-A	3105	broad.mit.edu	37	chr6	29912172	29912172	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caagcccctcaccctgagatGgggtaaggagggagatgggg	17	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:29912172G>A	uc003nol.2	+	4	893	c.893G>A	c.(892-894)TGG>TAG	p.W298*	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_5'Flank|HLA-A_uc010jrq.2_Nonsense_Mutation_p.W177*|HLA-A_uc003nok.2_Nonsense_Mutation_p.W177*|HLA-A_uc003non.2_Nonsense_Mutation_p.W298*|HLA-A_uc003noo.2_Nonsense_Mutation_p.W298*|HLA-A_uc010jrr.2_Nonsense_Mutation_p.W298*|HLA-A_uc003nom.2_Nonsense_Mutation_p.W177*|HLA-A_uc010klp.2_Nonsense_Mutation_p.W270*|HLA-A_uc011dmc.1_Nonsense_Mutation_p.W177*|HLA-A_uc011dmd.1_Nonsense_Mutation_p.W177*	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A	298	Extracellular (Potential).|Alpha-3.				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						ACCCTGAGATGGGGTAAGGAG	0.592									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)			10	13	---	---	---	---	PASS	A	29912172	A	A	29912172	4	1	81	1	0	0	0	0	0	1	0	0	7195	1357	47	3	907	3	HLA-A	6	29912172	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	194	29912172	141202895	314	30966										
C6orf15	29113	broad.mit.edu	37	chr6	31079509	31079509	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acactgggattcagggtaccCcaggggtgatcaggcagaac	14	10	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:31079509C>G	uc003nsk.1	-	2	627	c.627G>C	c.(625-627)TGG>TGC	p.W209C		NM_014070	NP_054789	Q6UXA7	CF015_HUMAN	STG protein precursor	209											0						TCAGGGTACCCCAGGGGTGAT	0.602													23	6	---	---	---	---	PASS	G	31079509	G	G	31079509	3	3	81	1	0	0	0	0	1	0	0	0	2336	624	22	4	354	4	C6orf15	6	31079509	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1167337	31079509	140035558	315	30967										
ITPR3	3710	broad.mit.edu	37	chr6	33632657	33632657	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccacctgcaggaactcgtacGtccggctgcggcacctctgc	11	17	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:33632657G>T	uc011drk.1	+	12	1378	c.1159G>T	c.(1159-1161)GTC>TTC	p.V387F		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	387	Cytoplasmic (Potential).|MIR 5.				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GAACTCGTACGTCCGGCTGCG	0.632													12	11	---	---	---	---	PASS	T	33632657	T	T	33632657	3	4	81	1	0	0	0	0	1	0	0	0	7922	1145	40	1	1205	1	ITPR3	6	33632657	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2553148	33632657	137482410	316	30968										
STK38	11329	broad.mit.edu	37	chr6	36475298	36475298	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaaatcactggggaggctgtGgttcagattcctataaaatt	11	6	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:36475298G>A	uc003omg.2	-	7	1339	c.751C>T	c.(751-753)CAC>TAC	p.H251Y	STK38_uc003omh.2_Missense_Mutation_p.H251Y|STK38_uc003omi.2_Missense_Mutation_p.H251Y	NM_007271	NP_009202	Q15208	STK38_HUMAN	serine/threonine kinase 38	251	Protein kinase.				intracellular protein kinase cascade|negative regulation of MAP kinase activity	cytoplasm|MLL5-L complex	ATP binding|magnesium ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6						GGGAGGCTGTGGTTCAGATTC	0.423													125	52	---	---	---	---	PASS	A	36475298	A	A	36475298	3	1	81	1	0	0	0	0	1	0	0	0	15302	1348	47	3	674	3	STK38	6	36475298	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2842641	36475298	134639769	317	30969										
SLC22A7	10864	broad.mit.edu	37	chr6	43269340	43269340	+	Frame_Shift_Del	DEL	C	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggctgtgagcaaagtggccgCcggggaacgggtggtccgaa							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:43269340delC	uc003out.2	+	7	1070	c.971delC	c.(970-972)GCCfs	p.A324fs	SLC22A7_uc010jyl.1_Frame_Shift_Del_p.A325fs|SLC22A7_uc003ous.2_Frame_Shift_Del_p.A322fs	NM_153320	NP_696961	Q9Y694	S22A7_HUMAN	solute carrier family 22 member 7 isoform b	324						basolateral plasma membrane|integral to plasma membrane|membrane fraction	anion:anion antiporter activity|sodium-independent organic anion transmembrane transporter activity				0			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00998)|OV - Ovarian serous cystadenocarcinoma(102;0.0305)			AAAGTGGCCGCCGGGGAACGG	0.587													11	11	---	---	---	---		-	43269340	-	-	43269340	7	5	81	1	0	1	0	1	0	0	0	0	14459	739	26	0	993	0	SLC22A7	6	43269340	Frame_Shift_Del	DEL	C	TCGA-37-5819-01A-01D-1632-08	6794042	43269340	127845727	318	30970										
FAM83B	222584	broad.mit.edu	37	chr6	54804515	54804515	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttccccagttatatgtggtCatttgagaaagctcacctca	7	10	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:54804515C>T	uc003pck.2	+	5	862	c.746C>T	c.(745-747)TCA>TTA	p.S249L		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	249										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					TATATGTGGTCATTTGAGAAA	0.318													21	15	---	---	---	---	PASS	T	54804515	T	T	54804515	3	4	81	1	0	0	0	0	1	0	0	0	5634	838	29	2	760	2	FAM83B	6	54804515	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	11535175	54804515	116310552	319	30971										
BMP5	653	broad.mit.edu	37	chr6	55739518	55739518	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaatttccctttgtatttccCgtctttcgtggttccgtagt	8	10	1	0	rs140823469		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:55739518C>G	uc003pcq.2	-	1	858	c.146G>C	c.(145-147)CGG>CCG	p.R49P	BMP5_uc011dxf.1_Missense_Mutation_p.R49P	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	49					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			TTGTATTTCCCGTCTTTCGTG	0.453													50	18	---	---	---	---	PASS	G	55739518	G	G	55739518	3	3	81	1	0	0	0	0	1	0	0	0	1463	652	23	4	1246	4	BMP5	6	55739518	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	935003	55739518	115375549	320	30972										
BEND6	221336	broad.mit.edu	37	chr6	56880145	56880145	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaagagcatcagactgatgaGaaacaggtcagttgtaatac	11	6	2	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:56880145G>C	uc010kab.2	+	4	1099	c.513G>C	c.(511-513)GAG>GAC	p.E171D	BEND6_uc003pdi.3_Missense_Mutation_p.E73D	NM_152731	NP_689944	Q5SZJ8	BEND6_HUMAN	BEN domain containing 6	171	BEN.										0						AGACTGATGAGAAACAGGTCA	0.363													34	16	---	---	---	---	PASS	C	56880145	C	C	56880145	3	2	81	1	0	0	0	0	1	0	0	0	1402	933	33	2	523	2	BEND6	6	56880145	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1140627	56880145	114234922	321	30973										
BAI3	577	broad.mit.edu	37	chr6	69349182	69349182	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctcagcatttgggagagtgGgggatcgacgaccagtcgct	15	10	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:69349182G>T	uc003pev.3	+	3	1063	c.615G>T	c.(613-615)TGG>TGT	p.W205C	BAI3_uc010kak.2_Missense_Mutation_p.W205C	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	205	Extracellular (Potential).				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)				TGGGAGAGTGGGGGATCGACG	0.493													23	18	---	---	---	---	PASS	T	69349182	T	T	69349182	3	4	81	1	0	0	0	0	1	0	0	0	1300	1241	43	3	617	3	BAI3	6	69349182	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	12469037	69349182	101765885	322	30974										
COL9A1	1297	broad.mit.edu	37	chr6	70926698	70926698	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccaggaggtcccgggggtcCaggcactccaggaattcctg	14	14	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:70926698C>G	uc003pfg.3	-	38	2827	c.2668G>C	c.(2668-2670)GGA>CGA	p.G890R	COL9A1_uc003pfe.3_Missense_Mutation_p.G439R|COL9A1_uc003pff.3_Missense_Mutation_p.G647R	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	890	Triple-helical region (COL1).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						CCCGGGGGTCCAGGCACTCCA	0.622													22	6	---	---	---	---	PASS	G	70926698	G	G	70926698	3	3	81	1	0	0	0	0	1	0	0	0	3707	603	21	4	101	4	COL9A1	6	70926698	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1577516	70926698	100188369	323	30975										
MANEA	79694	broad.mit.edu	37	chr6	96054245	96054245	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaatacagtaaggaaagagcAacttatgcattagatcgcca	8	7	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:96054245A>G	uc003poo.1	+	5	1493	c.1353A>G	c.(1351-1353)GCA>GCG	p.A451A		NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	451	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		AGGAAAGAGCAACTTATGCAT	0.353													4	34	---	---	---	---	PASS	G	96054245	G	G	96054245	2	3	81	1	0	0	0	0	0	0	0	1	9221	117	5	5		5	MANEA	6	96054245	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	25127547	96054245	75060822	324	30976										
GRIK2	2898	broad.mit.edu	37	chr6	102503425	102503425	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcagtgggagaatttttataCaaatccaaaaaaaacgctca	7	7	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:102503425C>A	uc003pqp.3	+	15	2781	c.2532C>A	c.(2530-2532)TAC>TAA	p.Y844*	GRIK2_uc003pqo.3_Nonsense_Mutation_p.Y844*|GRIK2_uc010kcw.2_Nonsense_Mutation_p.Y844*	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	844	Cytoplasmic (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	AATTTTTATACAAATCCAAAA	0.368													55	24	---	---	---	---	PASS	A	102503425	A	A	102503425	4	1	81	1	0	0	0	0	0	1	0	0	6774	489	17	3	2590	3	GRIK2	6	102503425	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	6449180	102503425	68611642	325	30977										
ZBTB24	9841	broad.mit.edu	37	chr6	109796671	109796671	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcgatggcagtctttgcattCcggtaatgagtggccttgtc	13	9	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:109796671C>A	uc003ptl.1	-	5	1387	c.1219G>T	c.(1219-1221)GAA>TAA	p.E407*	ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Nonsense_Mutation_p.E351*|ZBTB24_uc010kdt.1_RNA	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	407	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		TCTTTGCATTCCGGTAATGAG	0.448													4	57	---	---	---	---	PASS	A	109796671	A	A	109796671	4	1	81	1	0	0	0	0	0	1	0	0	17528	864	30	2	886	2	ZBTB24	6	109796671	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	7293246	109796671	61318396	326	30978										
AKD1	221264	broad.mit.edu	37	chr6	109954162	109954162	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctgcaagcatattgcaaagTgttgttttccctgaatattg	8	7	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:109954162T>A	uc003ptn.2	-	12	1295	c.1218A>T	c.(1216-1218)ACA>ACT	p.T406T	AKD1_uc003ptr.3_Silent_p.T406T	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	406					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TATTGCAAAGTGTTGTTTTCC	0.294													27	8	---	---	---	---	PASS	A	109954162	A	A	109954162	2	1	81	1	0	0	0	0	0	0	0	1	460	1683	59	5		5	AKD1	6	109954162	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	157491	109954162	61160905	327	30979										
WASF1	8936	broad.mit.edu	37	chr6	110424670	110424670	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggtctgactaataccctttcCtcagctctagtcagaagctc	7	13	4	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:110424670C>T	uc003ptv.1	-	9	1641	c.804G>A	c.(802-804)GAG>GAA	p.E268E	WASF1_uc003ptw.1_Silent_p.E268E|WASF1_uc003ptx.1_Silent_p.E268E|WASF1_uc003pty.1_Silent_p.E268E	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	268					actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)		ATACCCTTTCCTCAGCTCTAG	0.458													5	80	---	---	---	---	PASS	T	110424670	T	T	110424670	2	4	81	1	0	0	0	0	0	0	0	1	17249	680	24	3		3	WASF1	6	110424670	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	470508	110424670	60690397	328	30980										
COL10A1	1300	broad.mit.edu	37	chr6	116441971	116441971	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctcttgggccagcctctccAttgtgtccgggcattccctt	9	16	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:116441971A>G	uc003pwm.2	-	3	1404	c.1308T>C	c.(1306-1308)AAT>AAC	p.N436N	NT5DC1_uc003pwj.2_Intron|NT5DC1_uc003pwk.2_Intron|NT5DC1_uc003pwl.2_Intron	NM_000493	NP_000484	Q03692	COAA1_HUMAN	type X collagen alpha 1 precursor	436	Triple-helical region.				skeletal system development	collagen	metal ion binding			central_nervous_system(1)	1		all_cancers(87;0.0176)|all_epithelial(87;0.0263)|Colorectal(196;0.234)		all cancers(137;0.0157)|OV - Ovarian serous cystadenocarcinoma(136;0.0325)|GBM - Glioblastoma multiforme(226;0.0446)|Epithelial(106;0.0711)		CAGCCTCTCCATTGTGTCCGG	0.602													5	55	---	---	---	---	PASS	G	116441971	G	G	116441971	2	3	81	1	0	0	0	0	0	0	0	1	3666	214	8	5		5	COL10A1	6	116441971	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	6017301	116441971	54673096	329	30981										
RSPH4A	345895	broad.mit.edu	37	chr6	116938131	116938131	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagtcggacaggaccacgagTgtgattcctgaagctgggac	14	10	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:116938131T>C	uc003pxe.2	+	1	490	c.345T>C	c.(343-345)AGT>AGC	p.S115S	RSPH4A_uc010kee.2_Silent_p.S115S	NM_001010892	NP_001010892	Q5TD94	RSH4A_HUMAN	radial spoke head 4 homolog A isoform 1	115					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton|radial spoke					0						GGACCACGAGTGTGATTCCTG	0.547									Kartagener_syndrome				6	46	---	---	---	---	PASS	C	116938131	C	C	116938131	2	2	81	1	0	0	0	0	0	0	0	1	13706	1693	59	5		5	RSPH4A	6	116938131	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	496160	116938131	54176936	330	30982										
ROS1	6098	broad.mit.edu	37	chr6	117665372	117665372	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgtgaggctagtgttagtggCattaagtatagttggttcca	13	4	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:117665372C>T	uc003pxp.1	-	27	4574	c.4375G>A	c.(4375-4377)GCC>ACC	p.A1459T	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1459	Extracellular (Potential).|Fibronectin type-III 6.				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		GTGTTAGTGGCATTAAGTATA	0.378			T	GOPC|ROS1	glioblastoma|NSCLC								46	21	---	---	---	---	PASS	T	117665372	T	T	117665372	3	4	81	1	0	0	0	0	1	0	0	0	13531	710	25	3	2736	3	ROS1	6	117665372	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	727241	117665372	53449695	331	30983										
MAN1A1	4121	broad.mit.edu	37	chr6	119510840	119510840	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgtactcacatgttcgattaTatgattcatgacaagtacgg	8	7	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:119510840T>C	uc003pym.1	-	10	1977	c.1535A>G	c.(1534-1536)TAT>TGT	p.Y512C		NM_005907	NP_005898	P33908	MA1A1_HUMAN	mannosidase, alpha, class 1A, member 1	512	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_epithelial(87;0.173)		OV - Ovarian serous cystadenocarcinoma(136;0.0612)|GBM - Glioblastoma multiforme(226;0.0702)|all cancers(137;0.115)		TGTTCGATTATATGATTCATG	0.463													6	109	---	---	---	---	PASS	C	119510840	C	C	119510840	3	2	81	1	0	0	0	0	1	0	0	0	9210	1406	49	5	442	5	MAN1A1	6	119510840	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	1845468	119510840	51604227	332	30984										
TMEM200A	114801	broad.mit.edu	37	chr6	130761936	130761936	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagcagcatttgcattctgaTaagatgaaaatgcttggccc	10	8	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:130761936T>C	uc003qca.2	+	3	1240	c.369T>C	c.(367-369)GAT>GAC	p.D123D	TMEM200A_uc010kfh.2_Silent_p.D123D|TMEM200A_uc010kfi.2_Silent_p.D123D|TMEM200A_uc003qcb.2_Silent_p.D123D	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	123	Extracellular (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		TGCATTCTGATAAGATGAAAA	0.408													41	12	---	---	---	---	PASS	C	130761936	C	C	130761936	2	2	81	1	0	0	0	0	0	0	0	1	16120	1403	49	5		5	TMEM200A	6	130761936	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	11251096	130761936	40353131	333	30985										
C6orf192	116843	broad.mit.edu	37	chr6	133100533	133100533	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttccagaatgagtgttcaccTggatcagactctttagggaa	10	8	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:133100533T>A	uc003qdw.1	-	7	821	c.669A>T	c.(667-669)CCA>CCT	p.P223P	C6orf192_uc010kgd.1_RNA|C6orf192_uc011eco.1_Silent_p.P97P	NM_052831	NP_439896	Q6NT16	CF192_HUMAN	hypothetical protein LOC116843	223	Cytoplasmic (Potential).				transmembrane transport	integral to membrane				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;0.00303)|GBM - Glioblastoma multiforme(226;0.0265)		AGTGTTCACCTGGATCAGACT	0.363													56	17	---	---	---	---	PASS	A	133100533	A	A	133100533	2	1	81	1	0	0	0	0	0	0	0	1	2349	1567	55	5		5	C6orf192	6	133100533	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	2338597	133100533	38014534	334	30986										
C6orf192	116843	broad.mit.edu	37	chr6	133118167	133118167	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tagaatagcacatcatggaaCctaagttcaccgaagctgcc	8	11	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:133118167C>A	uc003qdw.1	-	2	289	c.137G>T	c.(136-138)GGT>GTT	p.G46V	C6orf192_uc011eco.1_5'UTR	NM_052831	NP_439896	Q6NT16	CF192_HUMAN	hypothetical protein LOC116843	46	Helical; (Potential).				transmembrane transport	integral to membrane				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;0.00303)|GBM - Glioblastoma multiforme(226;0.0265)		CATCATGGAACCTAAGTTCAC	0.423													50	25	---	---	---	---	PASS	A	133118167	A	A	133118167	3	1	81	1	0	0	0	0	1	0	0	0	2349	507	18	3	1285	3	C6orf192	6	133118167	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	17634	133118167	37996900	335	30987										
MYB	4602	broad.mit.edu	37	chr6	135521455	135521455	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caccctctcatctagtagaaGatctgcaggatgtgatcaaa	8	10	4	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:135521455G>T	uc003qfc.2	+	12	1688	c.1489G>T	c.(1489-1491)GAT>TAT	p.D497Y	MYB_uc003qfh.2_Missense_Mutation_p.D618Y|MYB_uc003qfi.2_Missense_Mutation_p.D602Y|MYB_uc010kgi.2_Missense_Mutation_p.D497Y|MYB_uc003qfq.2_Missense_Mutation_p.D615Y|MYB_uc010kgj.2_Missense_Mutation_p.D462Y|MYB_uc003qfo.2_Missense_Mutation_p.D412Y|MYB_uc003qfu.2_Missense_Mutation_p.D494Y|MYB_uc003qfl.2_RNA|MYB_uc003qfv.2_RNA|MYB_uc003qfz.2_RNA|MYB_uc003qfx.2_RNA|MYB_uc003qga.2_RNA|MYB_uc003qgb.2_RNA|MYB_uc010kgk.2_RNA|MYB_uc003qfd.2_RNA|MYB_uc003qfe.2_RNA|MYB_uc003qfg.2_RNA|MYB_uc003qff.2_RNA|MYB_uc003qfj.2_RNA|MYB_uc003qfm.2_RNA|MYB_uc003qfp.2_RNA|MYB_uc003qfn.2_RNA|MYB_uc003qfk.2_RNA|MYB_uc003qfr.2_RNA|MYB_uc003qfs.2_Missense_Mutation_p.D123Y|MYB_uc003qft.2_RNA|MYB_uc003qfw.2_Missense_Mutation_p.D309Y|MYB_uc003qfy.2_RNA|MYB_uc003qgc.2_RNA|MYB_uc003qfb.1_Missense_Mutation_p.D497Y	NM_005375	NP_005366	P10242	MYB_HUMAN	v-myb myeloblastosis viral oncogene homolog	497					blood coagulation|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone H3-K4 methylation|positive regulation of histone H3-K9 methylation|positive regulation of T-helper cell differentiation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear matrix	DNA binding|protein binding			lung(1)	1	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)		TCTAGTAGAAGATCTGCAGGA	0.398			T	NFIB	adenoid cystic carcinoma								51	22	---	---	---	---	PASS	T	135521455	T	T	135521455	3	4	81	1	0	0	0	0	1	0	0	0	10007	942	33	2	1902	2	MYB	6	135521455	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2403288	135521455	35593612	336	30988										
TAB2	23118	broad.mit.edu	37	chr6	149699963	149699963	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	attcattcatctggtagctcAcagtcttctgcccatagcca	6	13	6	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:149699963A>G	uc003qmj.2	+	3	1090	c.912A>G	c.(910-912)TCA>TCG	p.S304S	TAB2_uc011eec.1_Silent_p.S272S|TAB2_uc010kia.1_Silent_p.S304S|TAB2_uc010kib.1_Silent_p.S304S|TAB2_uc003qmk.3_RNA	NM_015093	NP_055908	Q9NYJ8	TAB2_HUMAN	mitogen-activated protein kinase kinase kinase 7	304					activation of MAPK activity|heart development|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	K63-linked polyubiquitin binding|zinc ion binding				0						CTGGTAGCTCACAGTCTTCTG	0.413													35	40	---	---	---	---	PASS	G	149699963	G	G	149699963	2	3	81	1	0	0	0	0	0	0	0	1	15493	146	6	5		5	TAB2	6	149699963	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	14178508	149699963	21415104	337	30989										
PLEKHG1	57480	broad.mit.edu	37	chr6	151152718	151152718	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggtaacttgtctatgcctcAtaagcctgtatctgataaac	7	9	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:151152718A>T	uc003qny.1	+	16	2783	c.2471A>T	c.(2470-2472)CAT>CTT	p.H824L	PLEKHG1_uc011eel.1_Missense_Mutation_p.H864L|PLEKHG1_uc011eem.1_Missense_Mutation_p.H883L|PLEKHG1_uc003qnz.2_Missense_Mutation_p.H824L	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	824					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		TCTATGCCTCATAAGCCTGTA	0.458													7	115	---	---	---	---	PASS	T	151152718	T	T	151152718	3	4	81	1	0	0	0	0	1	0	0	0	12068	217	8	5	2525	5	PLEKHG1	6	151152718	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1452755	151152718	19962349	338	30990										
ESR1	2099	broad.mit.edu	37	chr6	152332811	152332811	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctttgtggatttgaccctcCatgatcaggtccaccttcta	8	12	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:152332811C>A	uc003qom.3	+	7	1487	c.1117C>A	c.(1117-1119)CAT>AAT	p.H373N	ESR1_uc010kin.2_Missense_Mutation_p.H373N|ESR1_uc010kio.2_Missense_Mutation_p.H375N|ESR1_uc010kip.2_Missense_Mutation_p.H372N|ESR1_uc003qon.3_Missense_Mutation_p.H373N|ESR1_uc003qoo.3_Missense_Mutation_p.H373N|ESR1_uc010kiq.2_Intron|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Intron|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Missense_Mutation_p.H42N|ESR1_uc011eex.1_Missense_Mutation_p.H154N|ESR1_uc010kit.1_Intron|ESR1_uc011eey.1_Missense_Mutation_p.H110N	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	373	Steroid-binding.|Interaction with AKAP13.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	TTTGACCCTCCATGATCAGGT	0.468													64	26	---	---	---	---	PASS	A	152332811	A	A	152332811	3	1	81	1	0	0	0	0	1	0	0	0	5256	594	21	3	1135	3	ESR1	6	152332811	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1180093	152332811	18782256	339	30991										
C6orf118	168090	broad.mit.edu	37	chr6	165715692	165715692	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gattcagaagtttcttcagaTtacacagggtcttcactcct	7	10	5	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr6:165715692T>A	uc003qum.3	-	2	155	c.119A>T	c.(118-120)AAT>ATT	p.N40I	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	40											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		TTTCTTCAGATTACACAGGGT	0.542													7	48	---	---	---	---	PASS	A	165715692	A	A	165715692	3	1	81	1	0	0	0	0	1	0	0	0	2323	1493	52	5	1322	5	C6orf118	6	165715692	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	13382881	165715692	5399375	340	30992										
C7orf70	84792	broad.mit.edu	37	chr7	6370547	6370547	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcacatatggaagcactgggCcgccactgtgaagccagagg	13	11	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:6370547C>A	uc003spu.2	-	2	707	c.239G>T	c.(238-240)GGC>GTC	p.G80V		NM_001037163	NP_001032240	Q7Z4H9	SIPAR_HUMAN	hypothetical protein LOC84792	80						nucleus					0						AAGCACTGGGCCGCCACTGTG	0.517													20	20	---	---	---	---	PASS	A	6370547	A	A	6370547	3	1	81	1	0	0	0	0	1	0	0	0	2415	739	26	3	544	3	C7orf70	7	6370547	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08		6370547	152768116	341	30993										
MIOS	54468	broad.mit.edu	37	chr7	7645637	7645637	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaattagcccaatttaacaaCtggtttacatggtgtcataa	6	7	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:7645637C>T	uc003srf.2	+	12	2774	c.2466C>T	c.(2464-2466)AAC>AAT	p.N822N	MIOS_uc003srg.2_Silent_p.N357N|MIOS_uc010ktq.2_Silent_p.N217N	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	822											0						AATTTAACAACTGGTTTACAT	0.378													66	56	---	---	---	---	PASS	T	7645637	T	T	7645637	2	4	81	1	0	0	0	0	0	0	0	1	9589	564	20	3		3	MIOS	7	7645637	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1275090	7645637	151493026	342	30994										
DGKB	1607	broad.mit.edu	37	chr7	14722261	14722261	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcacttatcacacttggttgGgcagttaccttcaacccagt	8	12	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:14722261G>T	uc003ssz.2	-	11	1139	c.952C>A	c.(952-954)CCA>ACA	p.P318T	DGKB_uc011jxt.1_Missense_Mutation_p.P311T|DGKB_uc003sta.2_Missense_Mutation_p.P318T|DGKB_uc011jxu.1_Missense_Mutation_p.P318T	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	318	Phorbol-ester/DAG-type 2.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	CACTTGGTTGGGCAGTTACCT	0.433													29	49	---	---	---	---	PASS	T	14722261	T	T	14722261	3	4	81	1	0	0	0	0	1	0	0	0	4466	1232	43	3	1537	3	DGKB	7	14722261	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	7076624	14722261	144416402	343	30995										
TMEM195	392636	broad.mit.edu	37	chr7	15599845	15599845	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggtggctttcctttgagaaTccagctgacaacaagttcaa	9	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:15599845T>A	uc003stb.1	-	2	348	c.178A>T	c.(178-180)ATT>TTT	p.I60F		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	60	Helical; (Potential).				ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						CCTTTGAGAATCCAGCTGACA	0.428													23	47	---	---	---	---	PASS	A	15599845	A	A	15599845	3	1	81	1	0	0	0	0	1	0	0	0	16114	1435	50	5	1207	5	TMEM195	7	15599845	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	877584	15599845	143538818	344	30996										
ANKMY2	57037	broad.mit.edu	37	chr7	16642048	16642048	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttggcagcctccaactgttgCttttcgtaaatgtccttcag	8	11	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:16642048C>A	uc003sti.2	-	9	1298	c.1098G>T	c.(1096-1098)AAG>AAT	p.K366N	ANKMY2_uc010ktz.2_RNA	NM_020319	NP_064715	Q8IV38	ANKY2_HUMAN	ankyrin repeat and MYND domain containing 2	366						cilium	zinc ion binding			central_nervous_system(1)	1	Lung NSC(10;0.103)|all_lung(11;0.204)			UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		CCAACTGTTGCTTTTCGTAAA	0.373													53	78	---	---	---	---	PASS	A	16642048	A	A	16642048	3	1	81	1	0	0	0	0	1	0	0	0	635	796	28	3	235	3	ANKMY2	7	16642048	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1042203	16642048	142496615	345	30997										
ABCB5	340273	broad.mit.edu	37	chr7	20691071	20691071	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggatgagaatgacatcagagCtttaaatgtgcggcattatc	11	6	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:20691071C>G	uc003suw.3	+	4	572	c.26C>G	c.(25-27)GCT>GGT	p.A9G	ABCB5_uc010kuh.2_Missense_Mutation_p.A454G|ABCB5_uc003suv.3_Missense_Mutation_p.A9G|ABCB5_uc011jyi.1_Missense_Mutation_p.A9G	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	9	ABC transporter 1.|Extracellular (Potential).				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						GACATCAGAGCTTTAAATGTG	0.403													18	18	---	---	---	---	PASS	G	20691071	G	G	20691071	3	3	81	1	0	0	0	0	1	0	0	0	44	797	28	4	1407	4	ABCB5	7	20691071	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	4049023	20691071	138447592	346	30998										
KLHL7	55975	broad.mit.edu	37	chr7	23213843	23213843	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttgccaactccaaagttcgtGcttttccagtcacaagttgt	7	11	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:23213843G>T	uc003svs.3	+	11	1980	c.1687G>T	c.(1687-1689)GCT>TCT	p.A563S	KLHL7_uc003svr.3_Missense_Mutation_p.A541S|KLHL7_uc011jys.1_Missense_Mutation_p.A487S|KLHL7_uc011jyt.1_Missense_Mutation_p.A338S|KLHL7_uc003svt.2_Missense_Mutation_p.A515S|KLHL7_uc011jyv.1_Missense_Mutation_p.A293S	NM_001031710	NP_001026880	Q8IXQ5	KLHL7_HUMAN	kelch-like 7 isoform 1	563	Kelch 6.					Golgi apparatus|nucleolus|plasma membrane					0						CAAAGTTCGTGCTTTTCCAGT	0.403													27	45	---	---	---	---	PASS	T	23213843	T	T	23213843	3	4	81	1	0	0	0	0	1	0	0	0	8394	1319	46	3	1792	3	KLHL7	7	23213843	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2522772	23213843	135924820	347	30999										
FAM188B	84182	broad.mit.edu	37	chr7	30830854	30830854	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaaccccaagaagagagccGgaaggtccctgagctctttg	11	13	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:30830854G>A	uc003tbt.2	+	5	814	c.737G>A	c.(736-738)CGG>CAG	p.R246Q	FAM188B_uc010kwe.2_Missense_Mutation_p.R217Q	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	246				R -> G (in Ref. 1; AAQ10898).							0						GAAGAGAGCCGGAAGGTCCCT	0.547													54	104	---	---	---	---	PASS	A	30830854	A	A	30830854	3	1	81	1	0	0	0	0	1	0	0	0	5515	1116	39	1	755	1	FAM188B	7	30830854	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	7617011	30830854	128307809	348	31000										
SEPT7	989	broad.mit.edu	37	chr7	35903268	35903268	+	Missense_Mutation	SNP	G	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agaattaaaaagactgtacaGgtatggatattagtattgtt							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:35903268G>T	uc010kxc.2	+	3	469	c.276G>T	c.(274-276)CAG>CAT	p.Q92H	SEPT7_uc011kat.1_Missense_Mutation_p.Q91H|SEPT7_uc011kau.1_Missense_Mutation_p.Q56H|SEPT7_uc011kav.1_Missense_Mutation_p.Q39H|SEPT7_uc003tey.2_Translation_Start_Site	NM_001788	NP_001779	Q16181	SEPT7_HUMAN	cell division cycle 10 isoform 1	92					cilium morphogenesis|cytokinesis|mitosis|protein heterooligomerization|regulation of embryonic cell shape	cilium axoneme|cleavage furrow|condensed chromosome kinetochore|midbody|nucleus|septin complex|spindle|stress fiber	GTP binding|protein binding|structural molecule activity				0						AGACTGTACAGGTATGGATAT	0.338													10	22	---	---	---	---	PASS	T	35903268	T	T	35903268	3	4	81	1	0	0	0	0	1	0	0	0	14069	1014	35	3	284	3	SEPT7	7	35903268	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5072414	35903268	123235395	349	31001	616	2								
SEPT7	989	broad.mit.edu	37	chr7	35903269	35903269	+	Splice_Site	SNP	G	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaattaaaaagactgtacagGtatggatattagtattgtta							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:35903269G>T	uc010kxc.2	+	3	469	c.276_splice	c.e3+1	p.Q92_splice	SEPT7_uc011kat.1_Splice_Site_p.Q91_splice|SEPT7_uc011kau.1_Splice_Site_p.Q56_splice|SEPT7_uc011kav.1_Splice_Site_p.Q39_splice|SEPT7_uc003tey.2_Splice_Site	NM_001788	NP_001779	Q16181	SEPT7_HUMAN	cell division cycle 10 isoform 1						cilium morphogenesis|cytokinesis|mitosis|protein heterooligomerization|regulation of embryonic cell shape	cilium axoneme|cleavage furrow|condensed chromosome kinetochore|midbody|nucleus|septin complex|spindle|stress fiber	GTP binding|protein binding|structural molecule activity				0						GACTGTACAGGTATGGATATT	0.333													10	22	---	---	---	---	PASS	T	35903269	T	T	35903269	5	4	81	1	0	0	0	0	0	0	1	0	14069	1275	44	3	285	3	SEPT7	7	35903269	Splice_Site	SNP	G	TCGA-37-5819-01A-01D-1632-08	1	35903269	123235394	350	31002	616	2								
AOAH	313	broad.mit.edu	37	chr7	36662852	36662852	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaatggcacagactgttccaTagctctaggaaaaagaaaac	9	8	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:36662852T>C	uc003tfh.3	-	7	927	c.526A>G	c.(526-528)ATG>GTG	p.M176V	AOAH_uc010kxf.2_Missense_Mutation_p.M176V|AOAH_uc011kba.1_Missense_Mutation_p.M144V	NM_001637	NP_001628	P28039	AOAH_HUMAN	acyloxyacyl hydrolase precursor	176					inflammatory response|lipid metabolic process	extracellular region	acyloxyacyl hydrolase activity|lipoprotein lipase activity			skin(1)	1						GACTGTTCCATAGCTCTAGGA	0.358													18	27	---	---	---	---	PASS	C	36662852	C	C	36662852	3	2	81	1	0	0	0	0	1	0	0	0	726	1406	49	5	1602	5	AOAH	7	36662852	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	759583	36662852	122475811	351	31003										
MYL7	58498	broad.mit.edu	37	chr7	44179956	44179956	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaaagagcgtgaggaagacGgtgaagttgatggggccctt	16	7	0	5			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:44179956G>C	uc003tkg.2	-	4	276	c.264C>G	c.(262-264)ACC>ACG	p.T88T		NM_021223	NP_067046	Q01449	MLRA_HUMAN	myosin light chain 2a	88					actin filament-based movement|smooth muscle contraction	A band|myosin complex	ATPase activity, coupled|calcium ion binding|microfilament motor activity				0						TGAGGAAGACGGTGAAGTTGA	0.557													4	92	---	---	---	---	PASS	C	44179956	C	C	44179956	2	2	81	1	0	0	0	0	0	0	0	1	10053	1103	39	4		4	MYL7	7	44179956	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	7517104	44179956	114958707	352	31004										
CAMK2B	816	broad.mit.edu	37	chr7	44323773	44323773	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttgatgatcttggctgcataCtcatggccggtgcagagctt	12	9	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:44323773C>T	uc003tkq.2	-	2	327	c.117G>A	c.(115-117)GAG>GAA	p.E39E	CAMK2B_uc003tkp.2_Silent_p.E39E|CAMK2B_uc003tkx.2_Silent_p.E39E|CAMK2B_uc010kyd.2_RNA|CAMK2B_uc003tkr.2_Silent_p.E39E|CAMK2B_uc003tks.2_Silent_p.E39E|CAMK2B_uc003tku.2_Silent_p.E39E|CAMK2B_uc003tkv.2_Silent_p.E39E|CAMK2B_uc003tkt.2_Silent_p.E39E|CAMK2B_uc003tkw.2_Silent_p.E39E|CAMK2B_uc010kyc.2_Silent_p.E39E	NM_001220	NP_001211	Q13554	KCC2B_HUMAN	calcium/calmodulin-dependent protein kinase II	39	Protein kinase.				interferon-gamma-mediated signaling pathway|synaptic transmission	cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)|ovary(1)	2						TGGCTGCATACTCATGGCCGG	0.532													5	28	---	---	---	---	PASS	T	44323773	T	T	44323773	2	4	81	1	0	0	0	0	0	0	0	1	2600	564	20	3		3	CAMK2B	7	44323773	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	143817	44323773	114814890	353	31005										
PKD1L1	168507	broad.mit.edu	37	chr7	47851492	47851492	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctccaccagggatgaggggaCgagactccccgtagggagga	16	11	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:47851492C>T	uc003tny.1	-	50	7504	c.7504G>A	c.(7504-7506)GTC>ATC	p.V2502I	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron|PKD1L1_uc003tob.2_Missense_Mutation_p.V229I	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2502	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GATGAGGGGACGAGACTCCCC	0.592													4	9	---	---	---	---	PASS	T	47851492	T	T	47851492	3	4	81	1	0	0	0	0	1	0	0	0	11964	536	19	1	1077	1	PKD1L1	7	47851492	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3527719	47851492	111287171	354	31006										
ABCA13	154664	broad.mit.edu	37	chr7	48312761	48312761	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	accatatctcaattatttaaGtttgacatgaatgttttcac	4	7	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:48312761G>C	uc003toq.2	+	17	3523	c.3498G>C	c.(3496-3498)AAG>AAC	p.K1166N	ABCA13_uc010kyr.2_Missense_Mutation_p.K669N	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1166					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AATTATTTAAGTTTGACATGA	0.373													13	52	---	---	---	---	PASS	C	48312761	C	C	48312761	3	2	81	1	0	0	0	0	1	0	0	0	31	1020	36	4	3393	4	ABCA13	7	48312761	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	461269	48312761	110825902	355	31007										
ABCA13	154664	broad.mit.edu	37	chr7	48317834	48317834	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aagttcatttatattagacaAtggagaattttattttgata	6	2	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:48317834A>G	uc003toq.2	+	18	7068	c.7043A>G	c.(7042-7044)AAT>AGT	p.N2348S		NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2348					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ATATTAGACAATGGAGAATTT	0.294													8	13	---	---	---	---	PASS	G	48317834	G	G	48317834	3	3	81	1	0	0	0	0	1	0	0	0	31	101	4	5	6942	5	ABCA13	7	48317834	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	5073	48317834	110820829	356	31008										
VSTM2A	222008	broad.mit.edu	37	chr7	54617574	54617574	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcccacaagcttcagatttcCaaagtgaggaaaaaggatga	9	8	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:54617574C>T	uc010kzf.2	+	4	750	c.345C>T	c.(343-345)TCC>TCT	p.S115S	VSTM2A_uc010kze.2_Silent_p.S115S|VSTM2A_uc003tqc.3_Silent_p.S115S	NM_182546	NP_872352	Q8TAG5	VTM2A_HUMAN	V-set and transmembrane domain containing 2	115	Ig-like V-type.					extracellular region					0			STAD - Stomach adenocarcinoma(5;0.0525)			TTCAGATTTCCAAAGTGAGGA	0.423													9	18	---	---	---	---	PASS	T	54617574	T	T	54617574	2	4	81	1	0	0	0	0	0	0	0	1	17226	581	21	3		3	VSTM2A	7	54617574	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	6299740	54617574	104521089	357	31009										
SEPT14	346288	broad.mit.edu	37	chr7	55874819	55874819	+	Missense_Mutation	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttggacccacatctgtaaagCccattttctgcagtttttgg							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:55874819C>A	uc003tqz.2	-	8	1067	c.950G>T	c.(949-951)GGC>GTC	p.G317V		NM_207366	NP_997249	Q6ZU15	SEP14_HUMAN	septin 14	317					cell cycle|cell division	septin complex	GTP binding|protein binding				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			ATCTGTAAAGCCCATTTTCTG	0.383													21	33	---	---	---	---	PASS	A	55874819	A	A	55874819	3	1	81	1	0	0	0	0	1	0	0	0	14063	739	26	3	360	3	SEPT14	7	55874819	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1257245	55874819	103263844	358	31010	617	2								
SEPT14	346288	broad.mit.edu	37	chr7	55874820	55874820	+	Missense_Mutation	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggacccacatctgtaaagcCcattttctgcagtttttggt							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:55874820C>A	uc003tqz.2	-	8	1066	c.949G>T	c.(949-951)GGC>TGC	p.G317C		NM_207366	NP_997249	Q6ZU15	SEP14_HUMAN	septin 14	317					cell cycle|cell division	septin complex	GTP binding|protein binding				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TCTGTAAAGCCCATTTTCTGC	0.388													21	32	---	---	---	---	PASS	A	55874820	A	A	55874820	3	1	81	1	0	0	0	0	1	0	0	0	14063	623	22	3	361	3	SEPT14	7	55874820	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1	55874820	103263843	359	31011	617	2								
ZNF479	90827	broad.mit.edu	37	chr7	57193725	57193725	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttcattcgctctcacctacCtgggtgtttggctaccatct	7	14	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:57193725C>G	uc010kzo.2	-	4	533	c.262G>C	c.(262-264)GTT>CTT	p.V88L		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	88					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TCTCACCTACCTGGGTGTTTG	0.458													35	57	---	---	---	---	PASS	G	57193725	G	G	57193725	3	3	81	1	0	0	0	0	1	0	0	0	17930	695	24	4	1320	4	ZNF479	7	57193725	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1318905	57193725	101944938	360	31012										
CALN1	83698	broad.mit.edu	37	chr7	71488657	71488657	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcacctgccagaatatgctGtctatcgtgttcccaagaaa	7	12	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:71488657G>T	uc003twa.3	-	4	887	c.360C>A	c.(358-360)GAC>GAA	p.D120E	CALN1_uc003twb.3_Missense_Mutation_p.D162E|CALN1_uc003twc.3_Missense_Mutation_p.D120E	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2	120	Cytoplasmic (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				AGAATATGCTGTCTATCGTGT	0.408													18	7	---	---	---	---	PASS	T	71488657	T	T	71488657	3	4	81	1	0	0	0	0	1	0	0	0	2591	1368	48	3	311	3	CALN1	7	71488657	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	14294932	71488657	87650006	361	31013										
VPS37D	155382	broad.mit.edu	37	chr7	73085563	73085564	+	Frame_Shift_Ins	INS	-	G	G													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctgcccactggggccgcccINSgggggccaccagcagtgccc							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:73085563_73085564insG	uc003tyr.2	+	4	728_729	c.613_614insG	c.(613-615)CGGfs	p.R205fs		NM_001077621	NP_001071089	Q86XT2	VP37D_HUMAN	vacuolar protein sorting 37D	205					cellular membrane organization|endosome transport|protein transport	late endosome membrane					0		Lung NSC(55;0.0908)|all_lung(88;0.198)				TGGGGCCGCCCGGGGGCCACCA	0.772													2	10	---	---	---	---		G	73085564	G	G	73085563	7	5	81	1	0	1	1	0	0	0	0	0	17205	643	23	0	627	0	VPS37D	7	73085563	Frame_Shift_Ins	INS	-	TCGA-37-5819-01A-01D-1632-08	1596906	73085563	86053100	362	31014										
SRRM3	222183	broad.mit.edu	37	chr7	75894703	75894703	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctcacacagagtccccaggCcggaggtctcatcgccatag	10	16	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:75894703C>A	uc010ldi.2	+	10	956	c.747C>A	c.(745-747)GGC>GGA	p.G249G	SRRM3_uc011kgi.1_5'UTR	NM_001110199	NP_001103669			serine/arginine repetitive matrix 3												0						AGTCCCCAGGCCGGAGGTCTC	0.642													4	9	---	---	---	---	PASS	A	75894703	A	A	75894703	2	1	81	1	0	0	0	0	0	0	0	1	15169	726	26	3		3	SRRM3	7	75894703	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	2809140	75894703	83243960	363	31015										
PCLO	27445	broad.mit.edu	37	chr7	82583557	82583557	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acttatttcttctggatagtCtataatgctgcctggaaaat	7	7	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:82583557C>A	uc003uhx.2	-	5	7001	c.6712G>T	c.(6712-6714)GAC>TAC	p.D2238Y	PCLO_uc003uhv.2_Missense_Mutation_p.D2238Y|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2169					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TCTGGATAGTCTATAATGCTG	0.373													15	8	---	---	---	---	PASS	A	82583557	A	A	82583557	3	1	81	1	0	0	0	0	1	0	0	0	11583	913	32	2	8817	2	PCLO	7	82583557	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	6688854	82583557	76555106	364	31016										
ABCB1	5243	broad.mit.edu	37	chr7	87150161	87150161	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctgagtcaaagaaacaacgGttcggaagttttctattgct	9	8	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:87150161G>T	uc003uiz.1	-	23	3135	c.2717C>A	c.(2716-2718)ACC>AAC	p.T906N	ABCB1_uc011khc.1_Missense_Mutation_p.T842N	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	906	ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	AGAAACAACGGTTCGGAAGTT	0.418													31	12	---	---	---	---	PASS	T	87150161	T	T	87150161	3	4	81	1	0	0	0	0	1	0	0	0	40	1261	44	3	1153	3	ABCB1	7	87150161	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4566604	87150161	71988502	365	31017										
SAMD9L	219285	broad.mit.edu	37	chr7	92763119	92763119	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggagactctgcccagcagtgTattaaatctttaagcttttc	8	9	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:92763119T>C	uc003umh.1	-	5	3382	c.2166A>G	c.(2164-2166)ATA>ATG	p.I722M	SAMD9L_uc003umj.1_Missense_Mutation_p.I722M|SAMD9L_uc003umi.1_Missense_Mutation_p.I722M|SAMD9L_uc010lfb.1_Missense_Mutation_p.I722M|SAMD9L_uc003umk.1_Missense_Mutation_p.I722M|SAMD9L_uc010lfc.1_Missense_Mutation_p.I722M|SAMD9L_uc010lfd.1_Missense_Mutation_p.I722M|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	722										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			CCCAGCAGTGTATTAAATCTT	0.378													57	32	---	---	---	---	PASS	C	92763119	C	C	92763119	3	2	81	1	0	0	0	0	1	0	0	0	13827	1628	57	5	2592	5	SAMD9L	7	92763119	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	5612958	92763119	66375544	366	31018										
ZSCAN21	7589	broad.mit.edu	37	chr7	99654654	99654654	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgaccaaggtactaggcatgGccccagttctgggccctagg	13	12	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:99654654G>T	uc003uso.2	+	2	169	c.25G>T	c.(25-27)GCC>TCC	p.A9S	ZSCAN21_uc011kje.1_Missense_Mutation_p.A8S|ZSCAN21_uc003usn.1_Missense_Mutation_p.A8S	NM_145914	NP_666019	Q9Y5A6	ZSC21_HUMAN	zinc finger protein 38	9					positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			ACTAGGCATGGCCCCAGTTCT	0.527													96	34	---	---	---	---	PASS	T	99654654	T	T	99654654	3	4	81	1	0	0	0	0	1	0	0	0	18230	1203	42	3	27	3	ZSCAN21	7	99654654	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	6891535	99654654	59484009	367	31019										
ZAN	7455	broad.mit.edu	37	chr7	100364685	100364685	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cactacctgaccttcgatggCgccttgcaccacttcatggg	9	15	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:100364685C>A	uc003uwj.2	+	25	4830	c.4665C>A	c.(4663-4665)GGC>GGA	p.G1555G	ZAN_uc003uwk.2_Silent_p.G1555G|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kkd.1_Silent_p.G132G	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1555	Extracellular (Potential).|VWFD 2.				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CCTTCGATGGCGCCTTGCACC	0.602													34	18	---	---	---	---	PASS	A	100364685	A	A	100364685	2	1	81	1	0	0	0	0	0	0	0	1	17510	755	27	1		1	ZAN	7	100364685	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	710031	100364685	58773978	368	31020										
MUC17	140453	broad.mit.edu	37	chr7	100678893	100678894	+	Frame_Shift_Ins	INS	-	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaaggaaccactccgttaacINSaagtatacctgtcagcacca							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:100678893_100678894insA	uc003uxp.1	+	3	4249_4250	c.4196_4197insA	c.(4195-4197)ACAfs	p.T1399fs	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1399	Extracellular (Potential).|59 X approximate tandem repeats.|21.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ACTCCGTTAACAAGTATACCTG	0.51													88	127	---	---	---	---		A	100678894	A	A	100678893	7	5	81	1	0	1	1	0	0	0	0	0	9974	478	17	0	4206	0	MUC17	7	100678893	Frame_Shift_Ins	INS	-	TCGA-37-5819-01A-01D-1632-08	314208	100678893	58459770	369	31021										
PLOD3	8985	broad.mit.edu	37	chr7	100855820	100855820	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gggagtctcacgttgttgtgCaggaaaagggtgaccctgtc	15	8	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:100855820C>G	uc003uyd.2	-	9	1452	c.996G>C	c.(994-996)CTG>CTC	p.L332L	PLOD3_uc010lhs.2_5'UTR	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	332					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	CGTTGTTGTGCAGGAAAAGGG	0.607													20	19	---	---	---	---	PASS	G	100855820	G	G	100855820	2	3	81	1	0	0	0	0	0	0	0	1	12103	697	25	4		4	PLOD3	7	100855820	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	176927	100855820	58282843	370	31022										
FBXL13	222235	broad.mit.edu	37	chr7	102667932	102667932	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttttactcttatgtcttgcTgtattccgccattttgttag	6	8	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:102667932T>C	uc003vaq.2	-	5	718	c.291A>G	c.(289-291)ACA>ACG	p.T97T	FBXL13_uc010liq.1_5'Flank|FBXL13_uc010lir.1_Silent_p.T97T|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Silent_p.T97T|FBXL13_uc003vav.2_RNA	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	97											0						TATGTCTTGCTGTATTCCGCC	0.318													28	12	---	---	---	---	PASS	C	102667932	C	C	102667932	2	2	81	1	0	0	0	0	0	0	0	1	5709	1567	55	5		5	FBXL13	7	102667932	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	1812112	102667932	56470731	371	31023										
FBXL13	222235	broad.mit.edu	37	chr7	102669158	102669158	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttcattttttcagccaggaCgacattttcatttgtacgag	8	8	3	0	rs147832645	byFrequency	TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:102669158C>A	uc003vaq.2	-	4	533	c.106G>T	c.(106-108)GTC>TTC	p.V36F	FBXL13_uc010lir.1_Missense_Mutation_p.V36F|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Missense_Mutation_p.V36F|FBXL13_uc003vav.2_Intron	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	36											0						TCAGCCAGGACGACATTTTCA	0.343													21	14	---	---	---	---	PASS	A	102669158	A	A	102669158	3	1	81	1	0	0	0	0	1	0	0	0	5709	536	19	1	2169	1	FBXL13	7	102669158	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1226	102669158	56469505	372	31024										
NRCAM	4897	broad.mit.edu	37	chr7	107866747	107866747	+	Frame_Shift_Del	DEL	G	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agtcttcgcgggtgtcctctGggaggacattggaaaaataa							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:107866747delG	uc003vfb.2	-	9	1097	c.626delC	c.(625-627)CCAfs	p.P209fs	NRCAM_uc003vfc.2_Frame_Shift_Del_p.P203fs|NRCAM_uc011kmk.1_Frame_Shift_Del_p.P204fs|NRCAM_uc003vfd.2_Frame_Shift_Del_p.P204fs|NRCAM_uc003vfe.2_Frame_Shift_Del_p.P204fs	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	209	Ig-like 2.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						GGTGTCCTCTGGGAGGACATT	0.413													46	88	---	---	---	---		-	107866747	-	-	107866747	7	5	81	1	0	1	0	1	0	0	0	0	10644	1348	47	0	3418	0	NRCAM	7	107866747	Frame_Shift_Del	DEL	G	TCGA-37-5819-01A-01D-1632-08	5197589	107866747	51271916	373	31025										
CAV2	858	broad.mit.edu	37	chr7	116139935	116139935	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acgccgaccccgagaagttcGcggactcggaccaggaccgg	14	15	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:116139935G>T	uc003vid.2	+	1	492	c.100G>T	c.(100-102)GCG>TCG	p.A34S	CAV2_uc003vhv.2_Intron|CAV2_uc003vhw.2_Intron|CAV2_uc003vhx.2_Intron|CAV2_uc010lkb.1_Intron|CAV2_uc010lkc.2_RNA|CAV2_uc003vib.2_Intron|CAV2_uc003vhz.2_RNA|CAV2_uc003via.2_RNA|CAV1_uc010lkd.1_Intron|CAV1_uc010lke.1_Intron|CAV2_uc003vie.2_Missense_Mutation_p.A34S	NM_001233	NP_001224	P51636	CAV2_HUMAN	caveolin 2 isoform a and b	34	Cytoplasmic (Potential).				caveola assembly|endoplasmic reticulum organization|mitochondrion organization|negative regulation of endothelial cell proliferation|positive regulation of dopamine receptor signaling pathway|regulation of mitosis|skeletal muscle fiber development|vesicle docking|vesicle fusion	caveola|extrinsic to internal side of plasma membrane|Golgi membrane|integral to plasma membrane|membrane fraction|nucleus|perinuclear region of cytoplasm|transport vesicle	D1 dopamine receptor binding|protein homodimerization activity				0	all_epithelial(6;1.53e-06)|Lung NSC(10;0.00592)|all_lung(10;0.00642)		STAD - Stomach adenocarcinoma(10;0.00878)			CGAGAAGTTCGCGGACTCGGA	0.682													8	1	---	---	---	---	PASS	T	116139935	T	T	116139935	3	4	81	1	0	0	0	0	1	0	0	0	2694	1087	38	1	102	1	CAV2	7	116139935	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	8273188	116139935	42998728	374	31026										
RNF148	378925	broad.mit.edu	37	chr7	122342616	122342616	+	Frame_Shift_Del	DEL	C	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctttccagaggagaatgattCccgaacactccactctctcc							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:122342616delC	uc003vkk.1	-	1	406	c.189delG	c.(187-189)GGGfs	p.G63fs	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron|RNF148_uc010lkr.1_Intron	NM_198085	NP_932351	Q8N7C7	RN148_HUMAN	ring finger protein 148 precursor	63						integral to membrane	zinc ion binding				0						GAGAATGATTCCCGAACACTC	0.468													18	20	---	---	---	---		-	122342616	-	-	122342616	7	5	81	1	0	1	0	1	0	0	0	0	13449	842	30	0	732	0	RNF148	7	122342616	Frame_Shift_Del	DEL	C	TCGA-37-5819-01A-01D-1632-08	6202681	122342616	36796047	375	31027										
LMOD2	442721	broad.mit.edu	37	chr7	123302254	123302254	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gattgaggacgctttggacaAgattaaaagcaatgaccctg	11	7	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:123302254A>G	uc003vky.2	+	2	771	c.614A>G	c.(613-615)AAG>AGG	p.K205R		NM_207163	NP_997046	Q6P5Q4	LMOD2_HUMAN	leiomodin 2 (cardiac)	205						cytoskeleton	actin binding|tropomyosin binding				0						GCTTTGGACAAGATTAAAAGC	0.463													5	6	---	---	---	---	PASS	G	123302254	G	G	123302254	3	3	81	1	0	0	0	0	1	0	0	0	8857	72	3	5	620	5	LMOD2	7	123302254	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	959638	123302254	35836409	376	31028										
WASL	8976	broad.mit.edu	37	chr7	123332787	123332787	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggaggcggtggtggaggtgCagctgtgggagctcttgaag	21	5	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:123332787C>A	uc003vkz.2	-	9	1289	c.961G>T	c.(961-963)GCA>TCA	p.A321S		NM_003941	NP_003932	O00401	WASL_HUMAN	Wiskott-Aldrich syndrome gene-like protein	321	Pro-rich.				actin polymerization or depolymerization|axon guidance|cellular component movement|nitric oxide metabolic process|protein complex assembly|regulation of nitric-oxide synthase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|cytosol|nucleolus|plasma membrane	actin binding|small GTPase regulator activity				0						GGTGGAGGTGCAGCTGTGGGA	0.473													42	13	---	---	---	---	PASS	A	123332787	A	A	123332787	3	1	81	1	0	0	0	0	1	0	0	0	17253	710	25	3	568	3	WASL	7	123332787	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	30533	123332787	35805876	377	31029										
PAX4	5078	broad.mit.edu	37	chr7	127253810	127253810	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catctgtcccagcccagcacCtttctccagtgcctctgctt	6	18	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:127253810C>T	uc010lld.1	-	4	744	c.538G>A	c.(538-540)GAG>AAG	p.E180K	PAX4_uc003vmf.2_Missense_Mutation_p.E178K|PAX4_uc003vmg.1_Missense_Mutation_p.E180K|PAX4_uc003vmh.2_Missense_Mutation_p.E178K	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	188	Homeobox.				cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGCCCAGCACCTTTCTCCAGT	0.622													46	11	---	---	---	---	PASS	T	127253810	T	T	127253810	3	4	81	1	0	0	0	0	1	0	0	0	11481	695	24	3	517	3	PAX4	7	127253810	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3921023	127253810	31884853	378	31030										
CCDC136	64753	broad.mit.edu	37	chr7	128452222	128452222	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agcaccagtgccagtgaggcCtatgggaagagttactgcac	13	10	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:128452222C>T	uc003vnv.1	+	13	2764	c.2397C>T	c.(2395-2397)GCC>GCT	p.A799A	CCDC136_uc003vnu.1_Intron|CCDC136_uc003vnw.1_Intron|CCDC136_uc003vnx.1_Silent_p.A615A|CCDC136_uc010llq.1_Silent_p.A168A|CCDC136_uc003vny.1_Silent_p.A409A	NM_022742	NP_073579	Q96JN2	CC136_HUMAN	coiled-coil domain containing 136	799	Ser-rich.					integral to membrane	protein binding			ovary(2)	2						CCAGTGAGGCCTATGGGAAGA	0.493													12	10	---	---	---	---	PASS	T	128452222	T	T	128452222	2	4	81	1	0	0	0	0	0	0	0	1	2770	668	24	3		3	CCDC136	7	128452222	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1198412	128452222	30686441	379	31031										
CREB3L2	64764	broad.mit.edu	37	chr7	137570171	137570171	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgaggcaggtgccagtctgcGtgccagctaacttgcaggtt	14	10	1	1	rs148366639		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:137570171G>A	uc003vtw.2	-	9	1516	c.1121C>T	c.(1120-1122)ACG>ATG	p.T374M	CREB3L2_uc003vtx.1_Missense_Mutation_p.T374M|CREB3L2_uc003vtv.2_Missense_Mutation_p.T311M	NM_194071	NP_919047	Q70SY1	CR3L2_HUMAN	cAMP responsive element binding protein 3-like	374	Cytoplasmic (Potential).				chondrocyte differentiation|positive regulation of transcription, DNA-dependent|response to endoplasmic reticulum stress|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	cAMP response element binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		FUS/CREB3L2(158)	soft_tissue(158)|upper_aerodigestive_tract(1)|ovary(1)	160						GCCAGTCTGCGTGCCAGCTAA	0.587			T	FUS	fibromyxoid sarcoma								12	25	---	---	---	---	PASS	A	137570171	A	A	137570171	3	1	81	1	0	0	0	0	1	0	0	0	3857	1145	40	1	457	1	CREB3L2	7	137570171	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	9117949	137570171	21568492	380	31032										
DENND2A	27147	broad.mit.edu	37	chr7	140301267	140301267	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttcacagaggaaggtggggGagaggagggcagaggcgggg	24	4	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:140301267G>T	uc010lnj.2	-	1	1076	c.931C>A	c.(931-933)CCC>ACC	p.P311T	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.P311T|DENND2A_uc003vvw.2_Missense_Mutation_p.P311T|DENND2A_uc003vvx.2_Missense_Mutation_p.P311T	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	311										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					gaaggtgggggagaggagggc	0.398													17	6	---	---	---	---	PASS	T	140301267	T	T	140301267	3	4	81	1	0	0	0	0	1	0	0	0	4429	1174	41	2	2170	2	DENND2A	7	140301267	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2731096	140301267	18837396	381	31033										
CLEC5A	23601	broad.mit.edu	37	chr7	141631620	141631620	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agcatcagttatgtcctgaaGaaacttctggaaataaaaaa	7	6	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:141631620G>C	uc003vwv.1	-	6	549	c.352C>G	c.(352-354)CTT>GTT	p.L118V	CLEC5A_uc011krm.1_Missense_Mutation_p.L95V|CLEC5A_uc003vww.1_Missense_Mutation_p.L117V|CLEC5A_uc010lnq.1_Missense_Mutation_p.L95V|CLEC5A_uc010lnr.1_RNA	NM_013252	NP_037384	Q9NY25	CLC5A_HUMAN	C-type lectin, superfamily member 5	118	C-type lectin.|Extracellular (Potential).				anti-apoptosis|cellular defense response|innate immune response|interspecies interaction between organisms|osteoblast development	cell surface|integral to plasma membrane	sugar binding|viral receptor activity				0	Melanoma(164;0.0171)					ATGTCCTGAAGAAACTTCTGG	0.373													27	8	---	---	---	---	PASS	C	141631620	C	C	141631620	3	2	81	1	0	0	0	0	1	0	0	0	3519	942	33	2	222	2	CLEC5A	7	141631620	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1330353	141631620	17507043	382	31034										
TAS2R39	259285	broad.mit.edu	37	chr7	142881460	142881460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tactgattcaagataaccctGggctgagaagagcctggaag	12	8	1	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:142881460G>T	uc011ksw.1	+	1	949	c.949G>T	c.(949-951)GGG>TGG	p.G317W		NM_176881	NP_795362	P59534	T2R39_HUMAN	taste receptor, type 2, member 39	317	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			skin(1)	1	Melanoma(164;0.059)					AGATAACCCTGGGCTGAGAAG	0.498													12	2	---	---	---	---	PASS	T	142881460	T	T	142881460	3	4	81	1	0	0	0	0	1	0	0	0	15573	1348	47	3	951	3	TAS2R39	7	142881460	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1249840	142881460	16257203	383	31035										
CLCN1	1180	broad.mit.edu	37	chr7	143039500	143039500	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgttgaggacatcatggtacGtgatgtgaagtttgtttcag	13	4	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:143039500G>A	uc003wcr.1	+	16	1919	c.1832G>A	c.(1831-1833)CGT>CAT	p.R611H	CLCN1_uc011ktc.1_Missense_Mutation_p.R223H	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	611	CBS 1.|Cytoplasmic (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					ATCATGGTACGTGATGTGAAG	0.468													8	15	---	---	---	---	PASS	A	143039500	A	A	143039500	3	1	81	1	0	0	0	0	1	0	0	0	3462	1145	40	1	1894	1	CLCN1	7	143039500	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	158040	143039500	16099163	384	31036										
CNTNAP2	26047	broad.mit.edu	37	chr7	147914586	147914586	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acatcagctccttcaccacaGacttcttggcagtcctcgtc	6	16	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:147914586G>T	uc003weu.1	+	19	3733	c.3217G>T	c.(3217-3219)GAC>TAC	p.D1073Y		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	1073	Laminin G-like 4.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CTTCACCACAGACTTCTTGGC	0.537										HNSCC(39;0.1)			43	20	---	---	---	---	PASS	T	147914586	T	T	147914586	3	4	81	1	0	0	0	0	1	0	0	0	3647	942	33	2	3291	2	CNTNAP2	7	147914586	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4875086	147914586	11224077	385	31037										
ZNF862	643641	broad.mit.edu	37	chr7	149545084	149545084	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctctgcttgccgagaatacCcctccatcagggacaaacgg	10	14	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr7:149545084C>T	uc010lpn.2	+	4	694	c.502C>T	c.(502-504)CCC>TCC	p.P168S	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	168	TTF-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						CCGAGAATACCCCTCCATCAG	0.517													3	3	---	---	---	---	PASS	T	149545084	T	T	149545084	3	4	81	1	0	0	0	0	1	0	0	0	18192	623	22	3	516	3	ZNF862	7	149545084	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1630498	149545084	9593579	386	31038										
RP1L1	94137	broad.mit.edu	37	chr8	10467053	10467053	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttcttcagtaacacggacaCccagatggggtcgcagtcca	10	13	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:10467053C>T	uc003wtc.2	-	4	4784	c.4555G>A	c.(4555-4557)GTG>ATG	p.V1519M		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1519					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		AACACGGACACCCAGATGGGG	0.652													19	40	---	---	---	---	PASS	T	10467053	T	T	10467053	3	4	81	1	0	0	0	0	1	0	0	0	13533	507	18	3	2651	3	RP1L1	8	10467053	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08		10467053	135896969	387	31039										
RP1L1	94137	broad.mit.edu	37	chr8	10470527	10470527	+	Frame_Shift_Del	DEL	C	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acagcagagggggtctacctCccccagaacggggtcttccc							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:10470527delC	uc003wtc.2	-	4	1310	c.1081delG	c.(1081-1083)GAGfs	p.E361fs		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	361					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GGGTCTACCTCCCCCAGAACG	0.692													26	61	---	---	---	---		-	10470527	-	-	10470527	7	5	81	1	0	1	0	1	0	0	0	0	13533	864	30	0	6125	0	RP1L1	8	10470527	Frame_Shift_Del	DEL	C	TCGA-37-5819-01A-01D-1632-08	3474	10470527	135893495	388	31040										
NPM2	10361	broad.mit.edu	37	chr8	21882972	21882972	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagctcagtcaggagaggcgGacttggaccttcagacccca	13	12	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:21882972G>T	uc003xab.2	+	3	742	c.84G>T	c.(82-84)CGG>CGT	p.R28R	NPM2_uc003xac.2_Silent_p.R28R|NPM2_uc003xad.2_Silent_p.R28R|NPM2_uc003xae.2_Silent_p.R28R|NPM2_uc003xaf.2_Silent_p.R28R	NM_182795	NP_877724	Q86SE8	NPM2_HUMAN	nucleoplasmin 2	28					chromatin remodeling|embryo development|oocyte differentiation|positive regulation of meiosis|regulation of exit from mitosis|single fertilization	cytoplasmic chromatin|nuclear chromatin	histone binding|nucleic acid binding				0				Colorectal(74;8.48e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0618)		AGGAGAGGCGGACTTGGACCT	0.622													13	11	---	---	---	---	PASS	T	21882972	T	T	21882972	2	4	81	1	0	0	0	0	0	0	0	1	10588	1161	41	2		2	NPM2	8	21882972	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	11412445	21882972	124481050	389	31041										
PIWIL2	55124	broad.mit.edu	37	chr8	22162343	22162343	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aagaggaccagccattgctgAttcacaggcccagtgagaga	12	10	1	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:22162343A>G	uc003xbn.2	+	12	1565	c.1417A>G	c.(1417-1419)ATT>GTT	p.I473V	PIWIL2_uc011kzf.1_Missense_Mutation_p.I473V|PIWIL2_uc010ltv.2_Missense_Mutation_p.I473V	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2	473	PAZ.				DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		GCCATTGCTGATTCACAGGCC	0.443													20	5	---	---	---	---	PASS	G	22162343	G	G	22162343	3	3	81	1	0	0	0	0	1	0	0	0	11958	333	12	5	1459	5	PIWIL2	8	22162343	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	279371	22162343	124201679	390	31042										
FZD3	7976	broad.mit.edu	37	chr8	28413259	28413259	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctattttgttgtctaggataGtgaatgagagccgacaggta	12	5	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:28413259G>T	uc003xgx.2	+	7	2036	c.1558G>T	c.(1558-1560)GTG>TTG	p.V520L	FZD3_uc010lvb.2_Missense_Mutation_p.V520L	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	520	Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		GTCTAGGATAGTGAATGAGAG	0.383													44	14	---	---	---	---	PASS	T	28413259	T	T	28413259	3	4	81	1	0	0	0	0	1	0	0	0	6131	1029	36	3	1576	3	FZD3	8	28413259	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	6250916	28413259	117950763	391	31043										
TEX15	56154	broad.mit.edu	37	chr8	30702240	30702240	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	taaaagcagagaactatcacTggaagataattccactatat	6	7	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:30702240T>G	uc003xil.2	-	1	4294	c.4294A>C	c.(4294-4296)AGT>CGT	p.S1432R		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1432										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		GAACTATCACTGGAAGATAAT	0.348													51	14	---	---	---	---	PASS	G	30702240	G	G	30702240	3	3	81	1	0	0	0	0	1	0	0	0	15776	1580	55	5	4091	5	TEX15	8	30702240	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	2288981	30702240	115661782	392	31044										
NRG1	3084	broad.mit.edu	37	chr8	32621881	32621881	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaagaaatccaggccaggctGtctagtgtaattgctaacca	10	9	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:32621881G>T	uc003xiv.2	+	12	2401	c.1884G>T	c.(1882-1884)CTG>CTT	p.L628L	NRG1_uc010lvo.2_3'UTR|NRG1_uc003xiu.2_Silent_p.L633L|NRG1_uc003xiw.2_Silent_p.L625L|NRG1_uc003xit.2_3'UTR|NRG1_uc010lvr.2_Silent_p.L370L|NRG1_uc010lvs.2_Silent_p.L370L|NRG1_uc010lvp.2_Silent_p.L582L|NRG1_uc010lvq.2_Silent_p.L565L|NRG1_uc011lbg.1_3'UTR|NRG1_uc011lbh.1_Silent_p.L471L|NRG1_uc003xja.2_Silent_p.L439L	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	628	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		AGGCCAGGCTGTCTAGTGTAA	0.448													20	2	---	---	---	---	PASS	T	32621881	T	T	32621881	2	4	81	1	0	0	0	0	0	0	0	1	10647	1364	48	3		3	NRG1	8	32621881	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1919641	32621881	113742141	393	31045										
UNC5D	137970	broad.mit.edu	37	chr8	35579850	35579850	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agagtgactatggcgtggacGtcattgactcttctgcattg	12	8	3	3	rs149536132		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:35579850G>T	uc003xjr.1	+	9	1568	c.1240G>T	c.(1240-1242)GTC>TTC	p.V414F	UNC5D_uc003xjs.1_Missense_Mutation_p.V409F|UNC5D_uc003xju.1_5'Flank|UNC5D_uc003xjt.1_Missense_Mutation_p.V172F	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	414	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		TGGCGTGGACGTCATTGACTC	0.557													102	30	---	---	---	---	PASS	T	35579850	T	T	35579850	3	4	81	1	0	0	0	0	1	0	0	0	16992	1145	40	1	1274	1	UNC5D	8	35579850	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2957969	35579850	110784172	394	31046										
KCNU1	157855	broad.mit.edu	37	chr8	36663799	36663799	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttcatagtttatggcagctGatgacaagatcaagttctgg	10	6	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:36663799G>T	uc010lvw.2	+	5	568	c.481G>T	c.(481-483)GAT>TAT	p.D161Y	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	161	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		TATGGCAGCTGATGACAAGAT	0.353													11	3	---	---	---	---	PASS	T	36663799	T	T	36663799	3	4	81	1	0	0	0	0	1	0	0	0	8093	1290	45	2	499	2	KCNU1	8	36663799	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1083949	36663799	109700223	395	31047										
PRKDC	5591	broad.mit.edu	37	chr8	48809844	48809844	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	taaacacaatgatgcggaagGtggaaatcctctgcacagag	11	8	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:48809844G>A	uc003xqi.2	-	30	3532	c.3475C>T	c.(3475-3477)CCT>TCT	p.P1159S	PRKDC_uc003xqj.2_Missense_Mutation_p.P1159S|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1159					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				GATGCGGAAGGTGGAAATCCT	0.433								NHEJ					64	53	---	---	---	---	PASS	A	48809844	A	A	48809844	3	1	81	1	0	0	0	0	1	0	0	0	12521	1261	44	3	9138	3	PRKDC	8	48809844	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	12146045	48809844	97554178	396	31048										
PXDNL	137902	broad.mit.edu	37	chr8	52322090	52322090	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttggcgatgaggctgagggaGcgcggggacaccaagtcatt	17	8	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:52322090G>C	uc003xqu.3	-	17	2195	c.2094C>G	c.(2092-2094)CGC>CGG	p.R698R	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	698					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GGCTGAGGGAGCGCGGGGACA	0.617													5	25	---	---	---	---	PASS	C	52322090	C	C	52322090	2	2	81	1	0	0	0	0	0	0	0	1	12848	958	34	4		4	PXDNL	8	52322090	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	3512246	52322090	94041932	397	31049										
ST18	9705	broad.mit.edu	37	chr8	53079509	53079509	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtgccatcacatccagggatCgggcacttggtctccctctt	10	14	3	0	rs139354986	byFrequency	TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:53079509C>T	uc003xqz.2	-	6	1263	c.1107G>A	c.(1105-1107)CCG>CCA	p.P369P	ST18_uc011ldq.1_Silent_p.P16P|ST18_uc011ldr.1_Silent_p.P334P|ST18_uc011lds.1_Silent_p.P274P|ST18_uc003xra.2_Silent_p.P369P|ST18_uc003xrb.2_Silent_p.P369P	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	369	C2HC-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				ATCCAGGGATCGGGCACTTGG	0.522													23	94	---	---	---	---	PASS	T	53079509	T	T	53079509	2	4	81	1	0	0	0	0	0	0	0	1	15211	871	31	2		2	ST18	8	53079509	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	757419	53079509	93284513	398	31050										
PLAG1	5324	broad.mit.edu	37	chr8	57079512	57079512	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggacatcaccggaaggagctCgtcttttataggcacagaca	11	10	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:57079512C>A	uc003xsq.3	-	3	1244	c.793G>T	c.(793-795)GAG>TAG	p.E265*	PLAG1_uc003xsr.3_Nonsense_Mutation_p.E265*|PLAG1_uc010lyi.2_Nonsense_Mutation_p.E265*|PLAG1_uc010lyj.2_Nonsense_Mutation_p.E183*	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	265	Activates transcription; Inhibition of nuclear import due to lack of NLS and KPNA2 interaction.|Repression domain; contains 3 sumoylation motifs and massively decrease transcription activity.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			GGAAGGAGCTCGTCTTTTATA	0.423			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								59	150	---	---	---	---	PASS	A	57079512	A	A	57079512	4	1	81	1	0	0	0	0	0	1	0	0	12018	893	31	2	713	2	PLAG1	8	57079512	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	4000003	57079512	89284510	399	31051										
CHD7	55636	broad.mit.edu	37	chr8	61749490	61749490	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttcctcctgtgtacaagggcAggaggtttaggcattaacct	11	9	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:61749490A>T	uc003xue.2	+	17	4581	c.4104A>T	c.(4102-4104)GCA>GCT	p.A1368A		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1368	Helicase C-terminal.				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)			GTACAAGGGCAGGAGGTTTAG	0.488													42	115	---	---	---	---	PASS	T	61749490	T	T	61749490	2	4	81	1	0	0	0	0	0	0	0	1	3330	175	7	5		5	CHD7	8	61749490	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	4669978	61749490	84614532	400	31052										
SGK3	23678	broad.mit.edu	37	chr8	67743512	67743512	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caaaccaactgactttgattTcttaaaagttattggaaaag	6	6	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:67743512T>C	uc003xwr.2	+	8	790	c.491T>C	c.(490-492)TTC>TCC	p.F164S	SGK3_uc003xwp.2_Missense_Mutation_p.F158S|SGK3_uc003xwt.2_Missense_Mutation_p.F164S|SGK3_uc003xwu.2_Missense_Mutation_p.F164S	NM_001033578	NP_001028750	Q96BR1	SGK3_HUMAN	serum/glucocorticoid regulated kinase 3 isoform	164	Protein kinase.				cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GACTTTGATTTCTTAAAAGTT	0.289													3	153	---	---	---	---	PASS	C	67743512	C	C	67743512	3	2	81	1	0	0	0	0	1	0	0	0	14212	1783	62	5	517	5	SGK3	8	67743512	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	5994022	67743512	78620510	401	31053										
CPA6	57094	broad.mit.edu	37	chr8	68430214	68430214	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agggctcgggaaccattttgGgggatatggacatcagtaac	14	7	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:68430214G>T	uc003xxq.3	-	3	517	c.261C>A	c.(259-261)CCC>CCA	p.P87P	CPA6_uc003xxr.3_Intron|CPA6_uc003xxs.2_Silent_p.P87P	NM_020361	NP_065094	Q8N4T0	CBPA6_HUMAN	carboxypeptidase A6 isoform 1 precursor	87					proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)			AACCATTTTGGGGGATATGGA	0.433													24	68	---	---	---	---	PASS	T	68430214	T	T	68430214	2	4	81	1	0	0	0	0	0	0	0	1	3794	1219	43	3		3	CPA6	8	68430214	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	686702	68430214	77933808	402	31054										
PREX2	80243	broad.mit.edu	37	chr8	68984805	68984805	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atagactggttaattgcacaGgtaaatagacaaatagaagt	9	4	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:68984805G>A	uc003xxv.1	+	14	1596	c.1569G>A	c.(1567-1569)CAG>CAA	p.Q523Q	PREX2_uc003xxu.1_Silent_p.Q523Q|PREX2_uc011lez.1_Silent_p.Q458Q	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	523	DEP 2.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TAATTGCACAGGTAAATAGAC	0.348													20	51	---	---	---	---	PASS	A	68984805	A	A	68984805	2	1	81	1	0	0	0	0	0	0	0	1	12477	1014	35	3		3	PREX2	8	68984805	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	554591	68984805	77379217	403	31055										
PRDM14	63978	broad.mit.edu	37	chr8	70981441	70981441	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcctgaaatcgcatggtgcaGgctggctgggtgctccaggc	16	11	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:70981441G>A	uc003xym.2	-	2	857	c.655C>T	c.(655-657)CTG>TTG	p.L219L		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	219					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			GCATGGTGCAGGCTGGCTGGG	0.597													26	53	---	---	---	---	PASS	A	70981441	A	A	70981441	2	1	81	1	0	0	0	0	0	0	0	1	12455	991	35	3		3	PRDM14	8	70981441	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1996636	70981441	75382581	404	31056										
ZNF704	619279	broad.mit.edu	37	chr8	81599491	81599491	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgggaatgggctcgtcgaaGagcaggttgctggcctccgc	16	11	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:81599491G>C	uc003yby.1	-	4	760	c.528C>G	c.(526-528)CTC>CTG	p.L176L		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	176						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			GCTCGTCGAAGAGCAGGTTGC	0.637											OREG0018841	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	66	---	---	---	---	PASS	C	81599491	C	C	81599491	2	2	81	1	0	0	0	0	0	0	0	1	18104	929	33	2		2	ZNF704	8	81599491	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	10618050	81599491	64764531	405	31057										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885208	88885208	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgtagcagtcctggcccacgGccgccacgactccttcttct	9	17	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:88885208G>A	uc003ydz.2	-	1	1089	c.992C>T	c.(991-993)GCC>GTC	p.A331V		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	331	WD 2.									ovary(1)	1						CTGGCCCACGGCCGCCACGAC	0.567													23	38	---	---	---	---	PASS	A	88885208	A	A	88885208	3	1	81	1	0	0	0	0	1	0	0	0	4272	1203	42	3	199	3	DCAF4L2	8	88885208	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	7285717	88885208	57478814	406	31058										
MMP16	4325	broad.mit.edu	37	chr8	89128908	89128908	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agcggtgtgggggcactgtcGgtagaggtcttgtaggtgga	20	5	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:89128908G>A	uc003yeb.3	-	6	1193	c.911C>T	c.(910-912)CCG>CTG	p.P304L	MMP16_uc003yec.2_Missense_Mutation_p.P304L	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	304	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						GGGCACTGTCGGTAGAGGTCT	0.517													19	87	---	---	---	---	PASS	A	89128908	A	A	89128908	3	1	81	1	0	0	0	0	1	0	0	0	9655	1116	39	1	1088	1	MMP16	8	89128908	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	243700	89128908	57235114	407	31059										
CDH17	1015	broad.mit.edu	37	chr8	95186446	95186446	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctggccattgggagtggccGgatcatccaggtctgtggca	16	10	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:95186446G>T	uc003ygh.2	-	6	592	c.467C>A	c.(466-468)CCG>CAG	p.P156Q	CDH17_uc011lgo.1_Intron|CDH17_uc011lgp.1_Missense_Mutation_p.P156Q	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	156	Extracellular (Potential).|Cadherin 2.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			GGGAGTGGCCGGATCATCCAG	0.413													46	104	---	---	---	---	PASS	T	95186446	T	T	95186446	3	4	81	1	0	0	0	0	1	0	0	0	3102	1116	39	1	2083	1	CDH17	8	95186446	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	6057538	95186446	51177576	408	31060										
MATN2	4147	broad.mit.edu	37	chr8	99045299	99045299	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagtcaccataaatatccaaGacctactttcctgttctaat	3	12	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:99045299G>T	uc003yic.2	+	17	2842	c.2611G>T	c.(2611-2613)GAC>TAC	p.D871Y	MATN2_uc010mbh.1_Missense_Mutation_p.D830Y|MATN2_uc003yid.2_Intron|MATN2_uc003yie.1_Missense_Mutation_p.D871Y|MATN2_uc010mbi.1_Intron|MATN2_uc010mbj.1_Missense_Mutation_p.D232Y|RPL30_uc010mbk.1_Intron	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	871						proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			AAATATCCAAGACCTACTTTC	0.378													3	18	---	---	---	---	PASS	T	99045299	T	T	99045299	3	4	81	1	0	0	0	0	1	0	0	0	9334	942	33	2	2673	2	MATN2	8	99045299	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3858853	99045299	47318723	409	31061										
VPS13B	157680	broad.mit.edu	37	chr8	100589769	100589769	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgaatataaccacaaacctgGacttcttcctaagtgtggct	7	10	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:100589769G>C	uc003yiv.2	+	33	5314	c.5203G>C	c.(5203-5205)GAC>CAC	p.D1735H	VPS13B_uc003yiw.2_Missense_Mutation_p.D1710H	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1735					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CACAAACCTGGACTTCTTCCT	0.393													43	53	---	---	---	---	PASS	C	100589769	C	C	100589769	3	2	81	1	0	0	0	0	1	0	0	0	17187	1174	41	2	5523	2	VPS13B	8	100589769	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1544470	100589769	45774253	410	31062										
VPS13B	157680	broad.mit.edu	37	chr8	100831708	100831708	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cattaagcaaatagccactaAggtacaccctggaggcacag	9	11	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:100831708A>T	uc003yiv.2	+	48	8876	c.8765A>T	c.(8764-8766)AAG>ATG	p.K2922M	VPS13B_uc003yiw.2_Missense_Mutation_p.K2897M	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2922					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			ATAGCCACTAAGGTACACCCT	0.398													38	47	---	---	---	---	PASS	T	100831708	T	T	100831708	3	4	81	1	0	0	0	0	1	0	0	0	17187	72	3	5	9145	5	VPS13B	8	100831708	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	241939	100831708	45532314	411	31063										
UBR5	51366	broad.mit.edu	37	chr8	103312247	103312247	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaggatccatcgcaggaggGtcaggaacccaactaggggg	15	11	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:103312247G>A	uc003ykr.1	-	23	3120	c.3087C>T	c.(3085-3087)GAC>GAT	p.D1029D	UBR5_uc003yks.1_Silent_p.D1029D	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1029					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TCGCAGGAGGGTCAGGAACCC	0.443													23	38	---	---	---	---	PASS	A	103312247	A	A	103312247	2	1	81	1	0	0	0	0	0	0	0	1	16902	1252	44	3		3	UBR5	8	103312247	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	2480539	103312247	43051775	412	31064										
DCAF13	25879	broad.mit.edu	37	chr8	104442907	104442907	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cgatatgaggcaagctactcCtttgaaaaaggtgagtttca	10	7	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:104442907C>A	uc003yln.2	+	6	1425	c.1148C>A	c.(1147-1149)CCT>CAT	p.P383H	DCAF13_uc003ylm.1_Missense_Mutation_p.P116H|DCAF13_uc003ylo.2_Missense_Mutation_p.P94H	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	231	WD 4.				rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						CAAGCTACTCCTTTGAAAAAG	0.333													11	136	---	---	---	---	PASS	A	104442907	A	A	104442907	3	1	81	1	0	0	0	0	1	0	0	0	4266	681	24	3	1170	3	DCAF13	8	104442907	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1130660	104442907	41921115	413	31065										
RIMS2	9699	broad.mit.edu	37	chr8	104898348	104898348	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcaaagaaaggcggtaaaatGcgccagatttcgttgagcag	12	7	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:104898348G>A	uc003yls.2	+	2	1096	c.855G>A	c.(853-855)ATG>ATA	p.M285I	RIMS2_uc003ylp.2_Missense_Mutation_p.M507I|RIMS2_uc003ylw.2_Missense_Mutation_p.M315I|RIMS2_uc003ylq.2_Missense_Mutation_p.M315I|RIMS2_uc003ylr.2_Missense_Mutation_p.M315I	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	538					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GCGGTAAAATGCGCCAGATTT	0.428										HNSCC(12;0.0054)			21	21	---	---	---	---	PASS	A	104898348	A	A	104898348	3	1	81	1	0	0	0	0	1	0	0	0	13368	1319	46	3	1661	3	RIMS2	8	104898348	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	455441	104898348	41465674	414	31066										
CSMD3	114788	broad.mit.edu	37	chr8	113871489	113871489	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttgaagattagagccacacGttttcactaaaagagaaatt	7	7	1	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:113871489G>A	uc003ynu.2	-	11	1799	c.1640C>T	c.(1639-1641)ACG>ATG	p.T547M	CSMD3_uc003ynt.2_Missense_Mutation_p.T507M|CSMD3_uc011lhx.1_Missense_Mutation_p.T443M	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	547	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGAGCCACACGTTTTCACTAA	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			8	48	---	---	---	---	PASS	A	113871489	A	A	113871489	3	1	81	1	0	0	0	0	1	0	0	0	3946	1145	40	1	9727	1	CSMD3	8	113871489	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	8973141	113871489	32492533	415	31067										
CSMD3	114788	broad.mit.edu	37	chr8	114031360	114031360	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtaacaaaatgcagtctgagCcagtttttgttgctgataat	9	6	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:114031360C>T	uc003ynu.2	-	6	1125	c.966G>A	c.(964-966)TGG>TGA	p.W322*	CSMD3_uc003ynt.2_Nonsense_Mutation_p.W282*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.W322*|CSMD3_uc010mcx.1_Nonsense_Mutation_p.W322*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	322	Extracellular (Potential).|CUB 2.		W -> G (in a colorectal cancer sample; somatic mutation).			integral to membrane|plasma membrane		p.W322G(1)		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						GCAGTCTGAGCCAGTTTTTGT	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			34	65	---	---	---	---	PASS	T	114031360	T	T	114031360	4	4	81	1	0	0	0	0	0	1	0	0	3946	740	26	3	10421	3	CSMD3	8	114031360	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	159871	114031360	32332662	416	31068										
TRPS1	7227	broad.mit.edu	37	chr8	116631903	116631903	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catctgcctctgctctttgcGgagacttcaagggctcacag	10	13	5	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:116631903G>A	uc003ynz.2	-	2	842	c.383C>T	c.(382-384)CCG>CTG	p.P128L	TRPS1_uc011lhy.1_Missense_Mutation_p.P132L|TRPS1_uc003yny.2_Missense_Mutation_p.P141L|TRPS1_uc010mcy.2_Missense_Mutation_p.P128L	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	128					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TGCTCTTTGCGGAGACTTCAA	0.522									Langer-Giedion_syndrome				21	44	---	---	---	---	PASS	A	116631903	A	A	116631903	3	1	81	1	0	0	0	0	1	0	0	0	16590	1116	39	1	3482	1	TRPS1	8	116631903	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2600543	116631903	29732119	417	31069										
ENPP2	5168	broad.mit.edu	37	chr8	120605998	120605998	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaacaaagctttaccatggtCtccgacaaagatgacgttga	8	9	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:120605998C>T	uc003yot.1	-	12	1161	c.1075G>A	c.(1075-1077)GAC>AAC	p.D359N	ENPP2_uc003yor.1_5'Flank|ENPP2_uc003yos.1_Missense_Mutation_p.D411N|ENPP2_uc010mdd.1_Missense_Mutation_p.D359N	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	359		Zinc 1 (By similarity).			cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TTACCATGGTCTCCGACAAAG	0.398													56	218	---	---	---	---	PASS	T	120605998	T	T	120605998	3	4	81	1	0	0	0	0	1	0	0	0	5130	913	32	2	1651	2	ENPP2	8	120605998	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3974095	120605998	25758024	418	31070										
TAF2	6873	broad.mit.edu	37	chr8	120810067	120810067	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcagcaatggaagaagttggGgcaaacaaaaatgagtaacc	11	6	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:120810067G>C	uc003you.2	-	7	1082	c.812C>G	c.(811-813)CCC>CGC	p.P271R		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	271					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			AAGAAGTTGGGGCAAACAAAA	0.323													12	33	---	---	---	---	PASS	C	120810067	C	C	120810067	3	2	81	1	0	0	0	0	1	0	0	0	15521	1232	43	4	2867	4	TAF2	8	120810067	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	204069	120810067	25553955	419	31071										
TRIB1	10221	broad.mit.edu	37	chr8	126445615	126445615	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccttacatccagctgccatcGcacagcaacattactggcat	6	15	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:126445615G>T	uc003yrx.2	+	2	999	c.417G>T	c.(415-417)TCG>TCT	p.S139S	TRIB1_uc011lis.1_5'UTR|TRIB1_uc010mdn.2_5'Flank	NM_025195	NP_079471	Q96RU8	TRIB1_HUMAN	G-protein-coupled receptor induced protein	139	Protein kinase.				JNK cascade|negative regulation of lipopolysaccharide-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|regulation of MAP kinase activity|response to lipopolysaccharide	cytoplasm|nucleus	ATP binding|mitogen-activated protein kinase kinase binding|protein kinase activity|protein kinase inhibitor activity|transcription factor binding|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			lung(1)	1	all_hematologic(1;4.97e-05)|Ovarian(258;0.00167)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)			AGCTGCCATCGCACAGCAACA	0.493													80	225	---	---	---	---	PASS	T	126445615	T	T	126445615	2	4	81	1	0	0	0	0	0	0	0	1	16479	1074	38	1		1	TRIB1	8	126445615	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	5635548	126445615	19918407	420	31072										
EFR3A	23167	broad.mit.edu	37	chr8	133015515	133015515	+	Frame_Shift_Del	DEL	A	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catgatagacttgcccaaatAttggaactcaccatacggta							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:133015515delA	uc003yte.2	+	22	2544	c.2343delA	c.(2341-2343)ATAfs	p.I781fs		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	781						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			TTGCCCAAATATTGGAACTCA	0.318													67	58	---	---	---	---		-	133015515	-	-	133015515	7	5	81	1	0	1	0	1	0	0	0	0	4958	439	16	0	2429	0	EFR3A	8	133015515	Frame_Shift_Del	DEL	A	TCGA-37-5819-01A-01D-1632-08	6569900	133015515	13348507	421	31073										
TG	7038	broad.mit.edu	37	chr8	133895148	133895148	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gccgaaatggcgactatcagGcggtgcagtgccagacggaa	15	10	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:133895148G>T	uc003ytw.2	+	8	1020	c.979G>T	c.(979-981)GCG>TCG	p.A327S		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	327	Thyroglobulin type-1 4.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CGACTATCAGGCGGTGCAGTG	0.592													5	33	---	---	---	---	PASS	T	133895148	T	T	133895148	3	4	81	1	0	0	0	0	1	0	0	0	15810	1203	42	3	1009	3	TG	8	133895148	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	879633	133895148	12468874	422	31074										
ST3GAL1	6482	broad.mit.edu	37	chr8	134478270	134478270	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agggtccacattcccaggcaCcactctgaacagctccttga	8	15	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:134478270C>A	uc003yuk.2	-	6	1199	c.370G>T	c.(370-372)GTG>TTG	p.V124L	ST3GAL1_uc003yum.2_Missense_Mutation_p.V124L	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	124	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			TTCCCAGGCACCACTCTGAAC	0.587													17	67	---	---	---	---	PASS	A	134478270	A	A	134478270	3	1	81	1	0	0	0	0	1	0	0	0	15213	507	18	3	672	3	ST3GAL1	8	134478270	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	583122	134478270	11885752	423	31075										
COL22A1	169044	broad.mit.edu	37	chr8	139890506	139890506	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcaaagtcctccttgcccaCgctggaggaggtgtccagga	12	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:139890506C>T	uc003yvd.2	-	3	592	c.145G>A	c.(145-147)GTG>ATG	p.V49M		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	49	VWFA.				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)			TCCTTGCCCACGCTGGAGGAG	0.622										HNSCC(7;0.00092)			6	2	---	---	---	---	PASS	T	139890506	T	T	139890506	3	4	81	1	0	0	0	0	1	0	0	0	3681	536	19	1	4987	1	COL22A1	8	139890506	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5412236	139890506	6473516	424	31076										
FLJ43860	389690	broad.mit.edu	37	chr8	142458036	142458036	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgggcacggccgcctcctgGgcctgctgcttgggctaggg	17	14	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:142458036G>T	uc003ywi.2	-	23	2871	c.2790C>A	c.(2788-2790)GCC>GCA	p.A930A	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	930							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CCGCCTCCTGGGCCTGCTGCT	0.652													6	7	---	---	---	---	PASS	T	142458036	T	T	142458036	2	4	81	1	0	0	0	0	0	0	0	1	5930	1219	43	3		3	FLJ43860	8	142458036	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	2567530	142458036	3905986	425	31077										
LY6K	54742	broad.mit.edu	37	chr8	143784555	143784555	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcgaagcagtgctccgctggTtgtgcagcgatggagagacc	16	10	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:143784555T>C	uc011ljv.1	+	3	681	c.264T>C	c.(262-264)GGT>GGC	p.G88G	LY6K_uc011ljw.1_3'UTR|LY6K_uc011ljx.1_Silent_p.L78L	NM_017527	NP_059997	Q17RY6	LY6K_HUMAN	lymphocyte antigen 6 complex, locus K isoform 1	88	UPAR/Ly6.					anchored to membrane|cytoplasm|extracellular region|nucleolus|plasma membrane				central_nervous_system(1)	1	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					GCTCCGCTGGTTGTGCAGCGA	0.473													23	37	---	---	---	---	PASS	C	143784555	C	C	143784555	2	2	81	1	0	0	0	0	0	0	0	1	9098	1722	60	5		5	LY6K	8	143784555	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	1326519	143784555	2579467	426	31078										
CYP11B2	1585	broad.mit.edu	37	chr8	143999104	143999104	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tccctccagatctgcagcagCctcagccacctgttgcctgg	9	17	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr8:143999104C>A	uc003yxk.1	-	1	156	c.153G>T	c.(151-153)AGG>AGT	p.R51S		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	51					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	TCTGCAGCAGCCTCAGCCACC	0.627									Familial_Hyperaldosteronism_type_I				26	55	---	---	---	---	PASS	A	143999104	A	A	143999104	3	1	81	1	0	0	0	0	1	0	0	0	4146	738	26	3	1394	3	CYP11B2	8	143999104	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	214549	143999104	2364918	427	31079										
DMRT1	1761	broad.mit.edu	37	chr9	894055	894055	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	attacaacaatctatacaacTgcccgcagtactccatggcc	5	14	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:894055T>C	uc003zgv.2	+	3	831	c.682T>C	c.(682-684)TGC>CGC	p.C228R	DMRT1_uc003zgu.1_Missense_Mutation_p.C228R	NM_021951	NP_068770	Q9Y5R6	DMRT1_HUMAN	doublesex and mab-3 related transcription factor	228					cell differentiation|male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(10;2.66e-10)|Lung NSC(10;2.82e-10)|Breast(48;0.232)		Lung(218;0.037)		TCTATACAACTGCCCGCAGTA	0.552											OREG0019071	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	44	9	---	---	---	---	PASS	C	894055	C	C	894055	3	2	81	1	0	0	0	0	1	0	0	0	4585	1580	55	5	692	5	DMRT1	9	894055	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08		894055	140319376	428	31080										
BNC2	54796	broad.mit.edu	37	chr9	16552644	16552644	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtccagcaggatctttagccGcacaggcactgcttgtgtcc	11	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:16552644G>A	uc003zml.2	-	5	693	c.553C>T	c.(553-555)CGG>TGG	p.R185W	BNC2_uc011lmw.1_Missense_Mutation_p.R90W|BNC2_uc003zmm.2_Missense_Mutation_p.R143W|BNC2_uc003zmq.1_Missense_Mutation_p.R199W|BNC2_uc003zmr.1_Missense_Mutation_p.R222W|BNC2_uc003zmp.1_Missense_Mutation_p.R213W|BNC2_uc010mij.1_Missense_Mutation_p.R107W|BNC2_uc011lmv.1_Missense_Mutation_p.R11W|BNC2_uc003zmo.1_Missense_Mutation_p.R107W	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	185					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		ATCTTTAGCCGCACAGGCACT	0.572													13	17	---	---	---	---	PASS	A	16552644	A	A	16552644	3	1	81	1	0	0	0	0	1	0	0	0	1475	1086	38	1	2758	1	BNC2	9	16552644	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	15658589	16552644	124660787	429	31081										
KIAA1797	54914	broad.mit.edu	37	chr9	20764907	20764907	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caaataatggcaccatttctGtggtatctgtattgtgaacc	8	8	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:20764907G>T	uc003zog.1	+	9	897	c.534G>T	c.(532-534)CTG>CTT	p.L178L		NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	178						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		CACCATTTCTGTGGTATCTGT	0.378													24	51	---	---	---	---	PASS	T	20764907	T	T	20764907	2	4	81	1	0	0	0	0	0	0	0	1	8258	1364	48	3		3	KIAA1797	9	20764907	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	4212263	20764907	120448524	430	31082										
IFNA1	3439	broad.mit.edu	37	chr9	21441038	21441038	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcatgagatccctctctttaTcaacaaacttgcaagaaaga	5	10	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:21441038T>A	uc003zpd.1	+	1	599	c.532T>A	c.(532-534)TCA>ACA	p.S178T		NM_024013	NP_076918	P01562	IFNA1_HUMAN	interferon, alpha 1 precursor	178					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			ovary(2)	2				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.0173)		CCTCTCTTTATCAACAAACTT	0.403													68	34	---	---	---	---	PASS	A	21441038	A	A	21441038	3	1	81	1	0	0	0	0	1	0	0	0	7531	1435	50	5	534	5	IFNA1	9	21441038	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	676131	21441038	119772393	431	31083										
TAF1L	138474	broad.mit.edu	37	chr9	32631014	32631014	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaaagaaaatgccacttggtCatcatcatccagcaaggggt	10	9	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:32631014C>A	uc003zrg.1	-	1	4654	c.4564G>T	c.(4564-4566)GAC>TAC	p.D1522Y	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1522					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		GCCACTTGGTCATCATCATCC	0.403													55	19	---	---	---	---	PASS	A	32631014	A	A	32631014	3	1	81	1	0	0	0	0	1	0	0	0	15520	826	29	2	920	2	TAF1L	9	32631014	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	11189976	32631014	108582417	432	31084										
NFX1	4799	broad.mit.edu	37	chr9	33344173	33344173	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acctgcgctagagtccatgaGtgtgaccatccaggtgagta	12	10	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:33344173G>T	uc003zsq.2	+	14	2392	c.2331G>T	c.(2329-2331)GAG>GAT	p.E777D	SUGT1P1_uc010mjq.1_Intron|NFX1_uc011lnw.1_Missense_Mutation_p.E777D|NFX1_uc003zso.2_Missense_Mutation_p.E777D|NFX1_uc003zsp.1_Missense_Mutation_p.E777D|NFX1_uc010mjr.1_Missense_Mutation_p.E778D|NFX1_uc003zsr.2_Missense_Mutation_p.E778D	NM_002504	NP_002495	Q12986	NFX1_HUMAN	nuclear transcription factor, X-box binding 1	777					inflammatory response|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|ligase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)	GBM - Glioblastoma multiforme(74;0.224)		GAGTCCATGAGTGTGACCATC	0.493													31	13	---	---	---	---	PASS	T	33344173	T	T	33344173	3	4	81	1	0	0	0	0	1	0	0	0	10387	1020	36	3	2385	3	NFX1	9	33344173	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	713159	33344173	107869258	433	31085										
FRMPD1	22844	broad.mit.edu	37	chr9	37744832	37744832	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggaaaccaaatcagtcatcGactctcgagtgtcttctatt	7	10	5	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:37744832G>C	uc004aag.1	+	16	2847	c.2803G>C	c.(2803-2805)GAC>CAC	p.D935H	FRMPD1_uc004aah.1_Missense_Mutation_p.D935H	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	935						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		ATCAGTCATCGACTCTCGAGT	0.542													46	64	---	---	---	---	PASS	C	37744832	C	C	37744832	3	2	81	1	0	0	0	0	1	0	0	0	6057	1058	37	2	2861	2	FRMPD1	9	37744832	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4400659	37744832	103468599	434	31086										
TLE1	7088	broad.mit.edu	37	chr9	84249063	84249063	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtcatcttttattgccaagtGagactgcccactcagagcac	8	12	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:84249063G>A	uc004aly.2	-	7	967	c.526C>T	c.(526-528)CAC>TAC	p.H176Y	TLE1_uc004alz.2_Missense_Mutation_p.H186Y|TLE1_uc011lsr.1_Missense_Mutation_p.H176Y|TLE1_uc004ama.1_Missense_Mutation_p.H176Y|TLE1_uc011lss.1_Intron|TLE1_uc004amb.2_Missense_Mutation_p.H176Y	NM_005077	NP_005068	Q04724	TLE1_HUMAN	transducin-like enhancer protein 1	176	Gly/Pro-rich.				negative regulation of Wnt receptor signaling pathway|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway		transcription factor binding			ovary(1)|skin(1)	2						ATTGCCAAGTGAGACTGCCCA	0.572													5	3	---	---	---	---	PASS	A	84249063	A	A	84249063	3	1	81	1	0	0	0	0	1	0	0	0	15935	1290	45	2	1842	2	TLE1	9	84249063	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	46504231	84249063	56964368	435	31087										
C9orf79	286234	broad.mit.edu	37	chr9	90501662	90501662	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aatcagtaagttccacacccAgggacccagacaaggagcat	9	12	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:90501662A>G	uc004app.3	+	4	2295	c.2260A>G	c.(2260-2262)AGG>GGG	p.R754G	C9orf79_uc004apo.1_Missense_Mutation_p.R566G	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	754						integral to membrane				ovary(3)	3						TTCCACACCCAGGGACCCAGA	0.552													6	26	---	---	---	---	PASS	G	90501662	G	G	90501662	3	3	81	1	0	0	0	0	1	0	0	0	2497	179	7	5	2274	5	C9orf79	9	90501662	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	6252599	90501662	50711769	436	31088										
C9orf79	286234	broad.mit.edu	37	chr9	90501901	90501901	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctccatccctgcacccagcaGatactggaagtacatcttgt	7	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:90501901G>T	uc004app.3	+	4	2534	c.2499G>T	c.(2497-2499)CAG>CAT	p.Q833H	C9orf79_uc004apo.1_Missense_Mutation_p.Q645H	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	833						integral to membrane				ovary(3)	3						GCACCCAGCAGATACTGGAAG	0.572													19	6	---	---	---	---	PASS	T	90501901	T	T	90501901	3	4	81	1	0	0	0	0	1	0	0	0	2497	933	33	2	2513	2	C9orf79	9	90501901	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	239	90501901	50711530	437	31089										
C9orf79	286234	broad.mit.edu	37	chr9	90502545	90502545	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcccccaacttgggaagtcaCcttgggagccagtgtgaggg	15	11	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:90502545C>A	uc004app.3	+	4	3178	c.3143C>A	c.(3142-3144)ACC>AAC	p.T1048N		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	1048						integral to membrane				ovary(3)	3						TGGGAAGTCACCTTGGGAGCC	0.602													50	10	---	---	---	---	PASS	A	90502545	A	A	90502545	3	1	81	1	0	0	0	0	1	0	0	0	2497	507	18	3	3157	3	C9orf79	9	90502545	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	644	90502545	50710886	438	31090										
PHF2	5253	broad.mit.edu	37	chr9	96407921	96407921	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttccctgcagtgctgaagacGtggtggcccgtgtgccagga	15	11	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:96407921G>C	uc004aub.2	+	4	457	c.310G>C	c.(310-312)GTG>CTG	p.V104L	PHF2_uc011lug.1_5'UTR	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	104					liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		TGCTGAAGACGTGGTGGCCCG	0.647													47	17	---	---	---	---	PASS	C	96407921	C	C	96407921	3	2	81	1	0	0	0	0	1	0	0	0	11830	1145	40	4	324	4	PHF2	9	96407921	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5905376	96407921	44805510	439	31091										
OR13C9	286362	broad.mit.edu	37	chr9	107379788	107379788	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tagagaaagctttgcttctcCcctcagaggagtgaatcttg	10	9	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:107379788C>A	uc011lvr.1	-	1	698	c.698G>T	c.(697-699)GGG>GTG	p.G233V		NM_001001956	NP_001001956	Q8NGT0	O13C9_HUMAN	olfactory receptor, family 13, subfamily C,	233	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTTGCTTCTCCCCTCAGAGGA	0.428													10	40	---	---	---	---	PASS	A	107379788	A	A	107379788	3	1	81	1	0	0	0	0	1	0	0	0	10939	623	22	3	261	3	OR13C9	9	107379788	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	10971867	107379788	33833643	440	31092										
FKTN	2218	broad.mit.edu	37	chr9	108366510	108366510	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttctaggaaggctggtttcgGatagctgagaatatgggatt	14	4	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:108366510G>T	uc004bcr.2	+	6	600	c.384G>T	c.(382-384)CGG>CGT	p.R128R	FKTN_uc011lvx.1_Silent_p.R128R|FKTN_uc004bcs.2_Silent_p.R128R|FKTN_uc011lvy.1_Silent_p.R128R|FKTN_uc010mtm.2_5'UTR	NM_001079802	NP_001073270	O75072	FKTN_HUMAN	fukutin	128	Lumenal (Potential).				muscle organ development|negative regulation of cell proliferation|negative regulation of JNK cascade|nervous system development|regulation of protein glycosylation	cis-Golgi network|endoplasmic reticulum|extracellular space|Golgi membrane|integral to membrane|nucleus	transferase activity			breast(2)|ovary(1)	3						GCTGGTTTCGGATAGCTGAGA	0.408													40	15	---	---	---	---	PASS	T	108366510	T	T	108366510	2	4	81	1	0	0	0	0	0	0	0	1	5919	1161	41	2		2	FKTN	9	108366510	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	986722	108366510	32846921	441	31093										
AKNA	80709	broad.mit.edu	37	chr9	117103887	117103887	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggaggggctggtgctgggggCgctgttgccagataccacag	19	9	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:117103887C>T	uc004biq.3	-	20	4128	c.3993G>A	c.(3991-3993)GCG>GCA	p.A1331A	AKNA_uc004bin.3_Silent_p.A578A|AKNA_uc004bio.3_Silent_p.A791A|AKNA_uc004bip.3_Silent_p.A1250A|AKNA_uc004bir.3_Silent_p.A1331A|AKNA_uc004bis.3_Silent_p.A1331A|AKNA_uc010mve.2_Silent_p.A1212A	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	1331					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(2)	6						GTGCTGGGGGCGCTGTTGCCA	0.617													13	39	---	---	---	---	PASS	T	117103887	T	T	117103887	2	4	81	1	0	0	0	0	0	0	0	1	463	755	27	1		1	AKNA	9	117103887	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	8737377	117103887	24109544	442	31094										
TNC	3371	broad.mit.edu	37	chr9	117846600	117846600	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggatgatggtggacgtctgGtccccaggcacacggaactg	15	10	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:117846600G>C	uc004bjj.3	-	4	2381	c.2019C>G	c.(2017-2019)GAC>GAG	p.D673E	TNC_uc010mvf.2_Missense_Mutation_p.D673E	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	673	Fibronectin type-III 1.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TGGACGTCTGGTCCCCAGGCA	0.567													27	18	---	---	---	---	PASS	C	117846600	C	C	117846600	3	2	81	1	0	0	0	0	1	0	0	0	16267	1252	44	4	4686	4	TNC	9	117846600	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	742713	117846600	23366831	443	31095										
LHX2	9355	broad.mit.edu	37	chr9	126783547	126783547	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gccaaggacttgaagcagctCgcgcaaaagacgggcctcac	12	13	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:126783547C>G	uc004boe.1	+	4	1636	c.897C>G	c.(895-897)CTC>CTG	p.L299L	LHX2_uc010mwi.1_Silent_p.L307L	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	299	Homeobox.					nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TGAAGCAGCTCGCGCAAAAGA	0.622													23	6	---	---	---	---	PASS	G	126783547	G	G	126783547	2	3	81	1	0	0	0	0	0	0	0	1	8771	871	31	2		2	LHX2	9	126783547	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	8936947	126783547	14429884	444	31096										
LMX1B	4010	broad.mit.edu	37	chr9	129458164	129458164	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atgatggcttcctacacgccGctggccccaccacagcagca	9	17	0	1	rs145052881	byFrequency	TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:129458164G>T	uc004bqj.2	+	7	914	c.864G>T	c.(862-864)CCG>CCT	p.P288P	LMX1B_uc004bqi.2_Silent_p.P288P|LMX1B_uc011maa.1_Silent_p.P299P	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	288					dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCTACACGCCGCTGGCCCCAC	0.677									Nail-Patella_Syndrome				23	6	---	---	---	---	PASS	T	129458164	T	T	129458164	2	4	81	1	0	0	0	0	0	0	0	1	8862	1074	38	1		1	LMX1B	9	129458164	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	2674617	129458164	11755267	445	31097										
FAM129B	64855	broad.mit.edu	37	chr9	130293981	130293981	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtgccctcaatctcatggcgCatgctgttgaagagagccac	11	12	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:130293981C>T	uc004brh.2	-	2	334	c.132G>A	c.(130-132)ATG>ATA	p.M44I	FAM129B_uc004bri.2_Missense_Mutation_p.M31I|FAM129B_uc004brj.3_Missense_Mutation_p.M44I	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	44							protein binding				0						TCTCATGGCGCATGCTGTTGA	0.493													54	15	---	---	---	---	PASS	T	130293981	T	T	130293981	3	4	81	1	0	0	0	0	1	0	0	0	5437	710	25	3	2160	3	FAM129B	9	130293981	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	835817	130293981	10919450	446	31098										
TBC1D13	54662	broad.mit.edu	37	chr9	131568188	131568188	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gccttccgctggctgacactGctgctgtcccaggagttctt	11	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:131568188G>T	uc010myj.2	+	10	1092	c.969G>T	c.(967-969)CTG>CTT	p.L323L	TBC1D13_uc010myk.2_Silent_p.L198L|TBC1D13_uc010myl.2_Silent_p.L142L	NM_018201	NP_060671	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	323	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0						GGCTGACACTGCTGCTGTCCC	0.607													16	8	---	---	---	---	PASS	T	131568188	T	T	131568188	2	4	81	1	0	0	0	0	0	0	0	1	15599	1306	46	3		3	TBC1D13	9	131568188	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1274207	131568188	9645243	447	31099										
BAT2L1	84726	broad.mit.edu	37	chr9	134351810	134351810	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gacccgtggttgacagacagAgccgaaagctggagccggga	16	10	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:134351810A>C	uc004can.3	+	15	4349	c.4294A>C	c.(4294-4296)AGC>CGC	p.S1432R	BAT2L1_uc010mzj.1_Missense_Mutation_p.S1015R|BAT2L1_uc004cao.3_Missense_Mutation_p.S790R	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1432							protein binding				0						TGACAGACAGAGCCGAAAGCT	0.607											OREG0019561	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	3	---	---	---	---	PASS	C	134351810	C	C	134351810	3	2	81	1	0	0	0	0	1	0	0	0	1320	304	11	5	4352	5	BAT2L1	9	134351810	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	2783622	134351810	6861621	448	31100										
GFI1B	8328	broad.mit.edu	37	chr9	135863634	135863634	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atggggactctccactgtccGactcacccccattctacaag	7	16	3	0	rs145562579		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:135863634G>T	uc004ccg.2	+	4	440	c.289G>T	c.(289-291)GAC>TAC	p.D97Y	GFI1B_uc010mzy.2_Missense_Mutation_p.D97Y	NM_004188	NP_004179	Q5VTD9	GFI1B_HUMAN	growth factor independent 1B transcription	97	Interaction with ARIH2.				cell proliferation|chromatin modification|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;9.04e-07)|Epithelial(140;1.17e-05)		TCCACTGTCCGACTCACCCCC	0.587													20	24	---	---	---	---	PASS	T	135863634	T	T	135863634	3	4	81	1	0	0	0	0	1	0	0	0	6340	1058	37	2	299	2	GFI1B	9	135863634	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1511824	135863634	5349797	449	31101										
C9orf96	169436	broad.mit.edu	37	chr9	136259504	136259504	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctggtccctgggctgcatcAttctggacatgaccagctgc	11	13	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:136259504A>C	uc004cdk.2	+	8	731	c.670A>C	c.(670-672)ATT>CTT	p.I224L	C9orf96_uc004cdl.2_RNA	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	224	Protein kinase.						ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		GGGCTGCATCATTCTGGACAT	0.587													9	76	---	---	---	---	PASS	C	136259504	C	C	136259504	3	2	81	1	0	0	0	0	1	0	0	0	2508	217	8	5	700	5	C9orf96	9	136259504	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	395870	136259504	4953927	450	31102										
ADAMTS13	11093	broad.mit.edu	37	chr9	136305595	136305595	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	accgaggaccggctgccccgCctggaggagatccgcatctg	14	15	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr9:136305595C>G	uc004cdv.3	+	16	2361	c.1917C>G	c.(1915-1917)CGC>CGG	p.R639R	ADAMTS13_uc004cdp.3_Missense_Mutation_p.A17G|ADAMTS13_uc004cdt.1_Silent_p.R639R|ADAMTS13_uc004cdu.1_Silent_p.R608R|ADAMTS13_uc004cdw.3_Silent_p.R639R|ADAMTS13_uc004cdx.3_Silent_p.R608R|ADAMTS13_uc004cdy.1_RNA|ADAMTS13_uc004cdz.3_Silent_p.R309R|ADAMTS13_uc004cds.1_Silent_p.R164R|ADAMTS13_uc004cdr.1_RNA	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	639	Spacer.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		GGCTGCCCCGCCTGGAGGAGA	0.647													6	19	---	---	---	---	PASS	G	136305595	G	G	136305595	2	3	81	1	0	0	0	0	0	0	0	1	258	726	26	4		4	ADAMTS13	9	136305595	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	46091	136305595	4907836	451	31103										
ADARB2	105	broad.mit.edu	37	chr10	1421274	1421274	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agggaagttgcttactgaggGtgtcgtcatcctccgtgttt	13	8	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:1421274G>T	uc009xhq.2	-	2	556	c.182C>A	c.(181-183)ACC>AAC	p.T61N		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	61					mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		CTTACTGAGGGTGTCGTCATC	0.512													26	6	---	---	---	---	PASS	T	1421274	T	T	1421274	3	4	81	1	0	0	0	0	1	0	0	0	283	1261	44	3	2073	3	ADARB2	10	1421274	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08		1421274	134113473	452	31104										
UPF2	26019	broad.mit.edu	37	chr10	12046643	12046643	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttctcataaaaattccgagCatcttcatcttcccatatac	3	12	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:12046643C>A	uc001ila.2	-	4	1864	c.1390G>T	c.(1390-1392)GCT>TCT	p.A464S	UPF2_uc001ilb.2_Missense_Mutation_p.A464S|UPF2_uc001ilc.2_Missense_Mutation_p.A464S|UPF2_uc009xiz.1_Missense_Mutation_p.A464S	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	464					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				AAATTCCGAGCATCTTCATCT	0.363													53	8	---	---	---	---	PASS	A	12046643	A	A	12046643	3	1	81	1	0	0	0	0	1	0	0	0	17001	710	25	3	2500	3	UPF2	10	12046643	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	10625369	12046643	123488104	453	31105										
MLLT10	8028	broad.mit.edu	37	chr10	22002759	22002759	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aatgtagtatctggctcgggAtctagtactcctgtctccag	10	10	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:22002759A>G	uc001iqs.2	+	15	2154	c.1806A>G	c.(1804-1806)GGA>GGG	p.G602G	MLLT10_uc001iqt.2_Silent_p.G586G|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Silent_p.G586G|MLLT10_uc001ira.2_Silent_p.G43G|MLLT10_uc001irb.2_RNA	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	602	DNA-binding.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						CTGGCTCGGGATCTAGTACTC	0.433			T	MLL|PICALM|CDK6	AL								28	16	---	---	---	---	PASS	G	22002759	G	G	22002759	2	3	81	1	0	0	0	0	0	0	0	1	9626	320	12	5		5	MLLT10	10	22002759	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	9956116	22002759	113531988	454	31106										
APBB1IP	54518	broad.mit.edu	37	chr10	26789940	26789940	+	Missense_Mutation	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttatggaacaaatgttgctgCcactggtatcagccaatatg							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:26789940C>A	uc001iss.2	+	5	674	c.353C>A	c.(352-354)GCC>GAC	p.A118D	APBB1IP_uc001isr.2_Missense_Mutation_p.A118D|APBB1IP_uc009xks.1_Missense_Mutation_p.A118D	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	118					blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						AATGTTGCTGCCACTGGTATC	0.488													102	28	---	---	---	---	PASS	A	26789940	A	A	26789940	3	1	81	1	0	0	0	0	1	0	0	0	760	739	26	3	363	3	APBB1IP	10	26789940	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	4787181	26789940	108744807	455	31107	618	2								
APBB1IP	54518	broad.mit.edu	37	chr10	26789941	26789941	+	Silent	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tatggaacaaatgttgctgcCactggtatcagccaatatga							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:26789941C>A	uc001iss.2	+	5	675	c.354C>A	c.(352-354)GCC>GCA	p.A118A	APBB1IP_uc001isr.2_Silent_p.A118A|APBB1IP_uc009xks.1_Silent_p.A118A	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	118					blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						ATGTTGCTGCCACTGGTATCA	0.488													99	28	---	---	---	---	PASS	A	26789941	A	A	26789941	2	1	81	1	0	0	0	0	0	0	0	1	760	581	21	3		3	APBB1IP	10	26789941	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1	26789941	108744806	456	31108	618	2								
ZNF33A	7581	broad.mit.edu	37	chr10	38344973	38344973	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agaaaccctataaatgtaatGagtgtggaaaagctttctgc	9	6	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:38344973G>T	uc001izh.2	+	5	2096	c.1918G>T	c.(1918-1920)GAG>TAG	p.E640*	ZNF33A_uc001izg.2_Nonsense_Mutation_p.E641*|ZNF33A_uc010qev.1_Nonsense_Mutation_p.E647*|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	640	C2H2-type 12.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						TAAATGTAATGAGTGTGGAAA	0.378													36	25	---	---	---	---	PASS	T	38344973	T	T	38344973	4	4	81	1	0	0	0	0	0	1	0	0	17851	1291	45	2	1935	2	ZNF33A	10	38344973	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	11555032	38344973	97189774	457	31109										
ZNF488	118738	broad.mit.edu	37	chr10	48370984	48370984	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagcaaagtcttctctgtgtGgcccagcggagcacgaagtg	13	11	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:48370984G>T	uc001jex.2	+	2	614	c.452G>T	c.(451-453)TGG>TTG	p.W151L	ZNF488_uc001jey.2_Missense_Mutation_p.W44L	NM_153034	NP_694579	Q96MN9	ZN488_HUMAN	zinc finger protein 488	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTCTCTGTGTGGCCCAGCGGA	0.602													6	19	---	---	---	---	PASS	T	48370984	T	T	48370984	3	4	81	1	0	0	0	0	1	0	0	0	17937	1357	47	3	454	3	ZNF488	10	48370984	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	10026011	48370984	87163763	458	31110										
OGDHL	55753	broad.mit.edu	37	chr10	50944083	50944083	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atgtaccatatgggccgtgcGcgcctcaggatggtcatgaa	13	10	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:50944083G>T	uc001jie.2	-	22	3037	c.2895C>A	c.(2893-2895)CGC>CGA	p.R965R	OGDHL_uc009xog.2_Silent_p.R992R|OGDHL_uc010qgt.1_Silent_p.R908R|OGDHL_uc010qgu.1_Silent_p.R756R	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	965					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						TGGGCCGTGCGCGCCTCAGGA	0.607													11	20	---	---	---	---	PASS	T	50944083	T	T	50944083	2	4	81	1	0	0	0	0	0	0	0	1	10840	1074	38	1		1	OGDHL	10	50944083	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	2573099	50944083	84590664	459	31111										
CTNNA3	29119	broad.mit.edu	37	chr10	68040354	68040354	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaggcttccaaggcaacattCacttgtgttacaaattcagg	8	9	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:68040354C>A	uc009xpn.1	-	13	1881	c.1758G>T	c.(1756-1758)GTG>GTT	p.V586V	CTNNA3_uc001jmw.2_Silent_p.V586V	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	586					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						AGGCAACATTCACTTGTGTTA	0.318													19	56	---	---	---	---	PASS	A	68040354	A	A	68040354	2	1	81	1	0	0	0	0	0	0	0	1	4014	813	29	2		2	CTNNA3	10	68040354	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	17096271	68040354	67494393	460	31112										
MYPN	84665	broad.mit.edu	37	chr10	69881370	69881370	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaggaggcggaggccaagatGaccttccagatctttcagcc	12	11	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:69881370G>T	uc001jnm.3	+	3	360	c.175G>T	c.(175-177)GAC>TAC	p.D59Y	MYPN_uc001jnl.1_Missense_Mutation_p.D59Y|MYPN_uc001jnn.3_Intron|MYPN_uc001jno.3_Missense_Mutation_p.D59Y|MYPN_uc001jnp.1_Missense_Mutation_p.D59Y|MYPN_uc009xps.2_Missense_Mutation_p.D59Y|MYPN_uc009xpt.2_Missense_Mutation_p.D59Y|MYPN_uc010qit.1_5'UTR|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	59	Interaction with CARP.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						AGGCCAAGATGACCTTCCAGA	0.532													30	40	---	---	---	---	PASS	T	69881370	T	T	69881370	3	4	81	1	0	0	0	0	1	0	0	0	10098	1290	45	2	177	2	MYPN	10	69881370	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1841016	69881370	65653377	461	31113										
MYPN	84665	broad.mit.edu	37	chr10	69908132	69908132	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tccagaagccaaatgaggtgTcatctcctcccactacctct	6	15	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:69908132T>C	uc001jnm.3	+	6	1338	c.1153T>C	c.(1153-1155)TCA>CCA	p.S385P	MYPN_uc001jnl.1_Missense_Mutation_p.S385P|MYPN_uc001jnn.3_Missense_Mutation_p.S110P|MYPN_uc001jno.3_Missense_Mutation_p.S385P|MYPN_uc001jnp.1_Missense_Mutation_p.S385P|MYPN_uc009xps.2_Missense_Mutation_p.S385P|MYPN_uc009xpt.2_Missense_Mutation_p.S385P|MYPN_uc010qit.1_Missense_Mutation_p.S91P|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	385	Interaction with CARP.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						AAATGAGGTGTCATCTCCTCC	0.413													3	77	---	---	---	---	PASS	C	69908132	C	C	69908132	3	2	81	1	0	0	0	0	1	0	0	0	10098	1667	58	5	1167	5	MYPN	10	69908132	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	26762	69908132	65626615	462	31114										
TET1	80312	broad.mit.edu	37	chr10	70426853	70426853	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttctttgtttggtccggcagCgtacaggccaccactgtcca	10	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:70426853C>T	uc001jok.3	+	7	5018	c.4513C>T	c.(4513-4515)CGT>TGT	p.R1505C		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1505					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding	p.R1505C(1)		ovary(5)|lung(2)|prostate(1)|breast(1)	9						GGTCCGGCAGCGTACAGGCCA	0.463													5	29	---	---	---	---	PASS	T	70426853	T	T	70426853	3	4	81	1	0	0	0	0	1	0	0	0	15766	768	27	1	4535	1	TET1	10	70426853	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	518721	70426853	65107894	463	31115										
PANK1	53354	broad.mit.edu	37	chr10	91353613	91353613	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaggccaaatcgttcatagtCtcctccgtaaatgtccttca	6	12	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:91353613C>T	uc001kgp.1	-	4	1600	c.1444G>A	c.(1444-1446)GAC>AAC	p.D482N	PANK1_uc001kgn.1_Missense_Mutation_p.D257N|PANK1_uc001kgo.1_Intron|PANK1_uc009xtu.1_Missense_Mutation_p.D284N|uc001kgq.1_5'Flank|MIR107_hsa-mir-107|MI0000114_5'Flank	NM_148977	NP_683878	Q8TE04	PANK1_HUMAN	pantothenate kinase 1 isoform alpha	482					coenzyme A biosynthetic process|pantothenate metabolic process	cytosol|nucleus	ATP binding|pantothenate kinase activity				0					Bezafibrate(DB01393)	CGTTCATAGTCTCCTCCGTAA	0.468													6	116	---	---	---	---	PASS	T	91353613	T	T	91353613	3	4	81	1	0	0	0	0	1	0	0	0	11416	913	32	2	368	2	PANK1	10	91353613	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	20926760	91353613	44181134	464	31116										
KIF20B	9585	broad.mit.edu	37	chr10	91497668	91497668	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggaggataatttgccaaatAcacagttagaccttttaggt	9	6	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:91497668A>G	uc001kgs.1	+	20	3142	c.3070A>G	c.(3070-3072)ACA>GCA	p.T1024A	KIF20B_uc001kgr.1_Missense_Mutation_p.T984A|KIF20B_uc001kgt.1_Missense_Mutation_p.T235A|KIF20B_uc009xtw.1_RNA	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	1024					cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						TTTGCCAAATACACAGTTAGA	0.348													43	80	---	---	---	---	PASS	G	91497668	G	G	91497668	3	3	81	1	0	0	0	0	1	0	0	0	8287	391	14	5	3024	5	KIF20B	10	91497668	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	144055	91497668	44037079	465	31117										
HECTD2	143279	broad.mit.edu	37	chr10	93244288	93244288	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcccagaagaggttcaaacaAttggtagagagattgctgca	11	7	1	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:93244288A>G	uc001khl.2	+	9	946	c.846A>G	c.(844-846)CAA>CAG	p.Q282Q	LOC100188947_uc010qnl.1_Intron|HECTD2_uc010qnm.1_Silent_p.Q286Q|HECTD2_uc001khm.2_RNA|HECTD2_uc009xty.1_5'UTR|HECTD2_uc001khn.1_5'UTR	NM_182765	NP_877497	Q5U5R9	HECD2_HUMAN	HECT domain containing 2 isoform a	282					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			skin(1)	1						GGTTCAAACAATTGGTAGAGA	0.338													43	18	---	---	---	---	PASS	G	93244288	G	G	93244288	2	3	81	1	0	0	0	0	0	0	0	1	7040	98	4	5		5	HECTD2	10	93244288	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	1746620	93244288	42290459	466	31118										
MYOF	26509	broad.mit.edu	37	chr10	95126238	95126238	+	Silent	SNP	G	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttgagttttatttttcctgtGacatcagaaaacttatgacg							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:95126238G>A	uc001kin.2	-	26	2787	c.2664C>T	c.(2662-2664)GTC>GTT	p.V888V	MYOF_uc001kio.2_Silent_p.V875V|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	888	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						TTTTTCCTGTGACATCAGAAA	0.378													34	66	---	---	---	---	PASS	A	95126238	A	A	95126238	2	1	81	1	0	0	0	0	0	0	0	1	10089	1277	45	2		2	MYOF	10	95126238	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1881950	95126238	40408509	467	31119	619	2								
MYOF	26509	broad.mit.edu	37	chr10	95126239	95126239	+	Missense_Mutation	SNP	A	C	C													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgagttttatttttcctgtgAcatcagaaaacttatgacgt							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:95126239A>C	uc001kin.2	-	26	2786	c.2663T>G	c.(2662-2664)GTC>GGC	p.V888G	MYOF_uc001kio.2_Missense_Mutation_p.V875G|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	888	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						TTTTCCTGTGACATCAGAAAA	0.373													33	66	---	---	---	---	PASS	C	95126239	C	C	95126239	3	2	81	1	0	0	0	0	1	0	0	0	10089	275	10	5	3638	5	MYOF	10	95126239	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1	95126239	40408508	468	31120	619	2								
SORCS3	22986	broad.mit.edu	37	chr10	106974319	106974319	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgtggtgacgaccgatgggcGgctggtggcagagcaggggc	21	8	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:106974319G>T	uc001kyi.1	+	18	2722	c.2495G>T	c.(2494-2496)CGG>CTG	p.R832L	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	832	PKD.|Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		ACCGATGGGCGGCTGGTGGCA	0.582													21	11	---	---	---	---	PASS	T	106974319	T	T	106974319	3	4	81	1	0	0	0	0	1	0	0	0	14932	1116	39	1	2565	1	SORCS3	10	106974319	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	11848080	106974319	28560428	469	31121										
EIF3A	8661	broad.mit.edu	37	chr10	120801850	120801850	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccggtcatcatcagcattaCgccaggatgatcgctcatca	8	14	5	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:120801850C>A	uc001ldu.2	-	19	3328	c.3182G>T	c.(3181-3183)CGT>CTT	p.R1061L	EIF3A_uc010qsu.1_Missense_Mutation_p.R1027L|EIF3A_uc009xzg.1_Missense_Mutation_p.R100L	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	1061	14.|Asp-rich.|25 X 10 AA approximate tandem repeats of [DE]-[DE]-[DE]-R-[SEVGFPILV]-[HPSN]- [RSW]-[RL]-[DRGTIHN]-[EPMANLGDT].				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		ATCAGCATTACGCCAGGATGA	0.622													82	38	---	---	---	---	PASS	A	120801850	A	A	120801850	3	1	81	1	0	0	0	0	1	0	0	0	5012	536	19	1	982	1	EIF3A	10	120801850	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	13827531	120801850	14732897	470	31122										
FOXI2	399823	broad.mit.edu	37	chr10	129537212	129537212	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtcacctcctctacagccggGaagggaccgaagtttgaagg	13	11	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:129537212G>T	uc009yas.2	+	2	940	c.940G>T	c.(940-942)GAA>TAA	p.E314*	uc009yar.1_5'Flank	NM_207426	NP_997309	Q6ZQN5	FOXI2_HUMAN	forkhead box I2	314					epidermal cell fate specification|otic placode formation|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0		all_epithelial(44;0.0021)|all_lung(145;0.0586)|Lung NSC(174;0.0765)|all_neural(114;0.201)|Glioma(114;0.222)				CTACAGCCGGGAAGGGACCGA	0.687													5	6	---	---	---	---	PASS	T	129537212	T	T	129537212	4	4	81	1	0	0	0	0	0	1	0	0	6010	1175	41	2	946	2	FOXI2	10	129537212	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	8735362	129537212	5997535	471	31123										
TUBGCP2	10844	broad.mit.edu	37	chr10	135112951	135112951	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgctgcagcgtggagcctgTggccacgctgccaagctgct	14	14	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:135112951T>A	uc001lmg.1	-	4	793	c.436A>T	c.(436-438)ACA>TCA	p.T146S	TUBGCP2_uc010qvc.1_Missense_Mutation_p.T146S|TUBGCP2_uc009ybk.1_Missense_Mutation_p.T146S|TUBGCP2_uc010qvd.1_Missense_Mutation_p.T16S|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	146					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		GTGGAGCCTGTGGCCACGCTG	0.632													35	8	---	---	---	---	PASS	A	135112951	A	A	135112951	3	1	81	1	0	0	0	0	1	0	0	0	16763	1696	59	5	2332	5	TUBGCP2	10	135112951	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	5575739	135112951	421796	472	31124										
ECHS1	1892	broad.mit.edu	37	chr10	135179530	135179530	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctacaattttagaattgctgGcaattttttctgcacactgg	7	8	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr10:135179530G>A	uc001lmu.2	-	6	760	c.689C>T	c.(688-690)GCC>GTC	p.A230V		NM_004092	NP_004083	P30084	ECHM_HUMAN	mitochondrial short-chain enoyl-coenzyme A	230					fatty acid beta-oxidation	mitochondrial matrix	enoyl-CoA hydratase activity|protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;1.62e-06)|OV - Ovarian serous cystadenocarcinoma(35;5.75e-06)|Epithelial(32;7.58e-06)		AGAATTGCTGGCAATTTTTTC	0.473													18	86	---	---	---	---	PASS	A	135179530	A	A	135179530	3	1	81	1	0	0	0	0	1	0	0	0	4896	1203	42	3	195	3	ECHS1	10	135179530	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	66579	135179530	355217	473	31125										
MUC6	4588	broad.mit.edu	37	chr11	1016835	1016835	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gataggtagtggtggtctggAaggatgttgcagtcatagga	17	3	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:1016835A>T	uc001lsw.2	-	31	6017	c.5966T>A	c.(5965-5967)TTC>TAC	p.F1989Y		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1989	Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGTGGTCTGGAAGGATGTTGC	0.567													16	663	---	---	---	---	PASS	T	1016835	T	T	1016835	3	4	81	1	0	0	0	0	1	0	0	0	9980	246	9	5	1365	5	MUC6	11	1016835	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08		1016835	133989681	474	31126										
MUC5B	727897	broad.mit.edu	37	chr11	1271328	1271328	+	Silent	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	actacaactgcagccactggCcccacggccaccccgtcctc							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:1271328C>A	uc009ycr.1	+	51	14763	c.14637C>A	c.(14635-14637)GGC>GGA	p.G4879G	MUC5B_uc001ltb.2_Silent_p.G4409G	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4406	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CAGCCACTGGCCCCACGGCCA	0.657													27	11	---	---	---	---	PASS	A	1271328	A	A	1271328	2	1	81	1	0	0	0	0	0	0	0	1	9979	726	26	3		3	MUC5B	11	1271328	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	254493	1271328	133735188	475	31127	620	2								
MUC5B	727897	broad.mit.edu	37	chr11	1271329	1271329	+	Missense_Mutation	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctacaactgcagccactggcCccacggccaccccgtcctcc							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:1271329C>A	uc009ycr.1	+	51	14764	c.14638C>A	c.(14638-14640)CCC>ACC	p.P4880T	MUC5B_uc001ltb.2_Missense_Mutation_p.P4410T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4407	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		AGCCACTGGCCCCACGGCCAC	0.657													25	11	---	---	---	---	PASS	A	1271329	A	A	1271329	3	1	81	1	0	0	0	0	1	0	0	0	9979	623	22	3	13350	3	MUC5B	11	1271329	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1	1271329	133735187	476	31128	620	2								
TNNT3	7140	broad.mit.edu	37	chr11	1955670	1955670	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaactacagcagctacctgGccaaggtgtgtgccgctgct	11	14	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:1955670G>C	uc001luu.3	+	12	687	c.475G>C	c.(475-477)GCC>CCC	p.A159P	TNNT3_uc001lun.2_Missense_Mutation_p.A55P|TNNT3_uc001luw.3_Missense_Mutation_p.A151P|TNNT3_uc001luo.3_Missense_Mutation_p.A151P|TNNT3_uc001lup.3_Missense_Mutation_p.A157P|TNNT3_uc001luq.3_Missense_Mutation_p.A151P|TNNT3_uc001lur.2_Missense_Mutation_p.A151P|TNNT3_uc010qxf.1_Missense_Mutation_p.A157P|TNNT3_uc010qxg.1_Missense_Mutation_p.A91P	NM_006757	NP_006748	P45378	TNNT3_HUMAN	troponin T3, skeletal, fast isoform 1	170					muscle filament sliding|regulation of ATPase activity|regulation of striated muscle contraction|skeletal muscle contraction	cytosol|troponin complex	calcium-dependent protein binding|tropomyosin binding|troponin C binding|troponin I binding			ovary(1)	1		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00253)|Lung(200;0.0333)|LUSC - Lung squamous cell carcinoma(625;0.0826)		CAGCTACCTGGCCAAGGTGTG	0.622													19	4	---	---	---	---	PASS	C	1955670	C	C	1955670	3	2	81	1	0	0	0	0	1	0	0	0	16329	1203	42	4	558	4	TNNT3	11	1955670	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	684341	1955670	133050846	477	31129										
OR52B4	143496	broad.mit.edu	37	chr11	4388922	4388922	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cgtcgacattagaatggaaaAcccataccaaatgtttattc	6	9	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:4388922A>T	uc010qye.1	-	1	604	c.604T>A	c.(604-606)TTT>ATT	p.F202I		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	202	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0249)|all_neural(188;0.0577)		Epithelial(150;1.57e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0826)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGAATGGAAAACCCATACCAA	0.383													37	11	---	---	---	---	PASS	T	4388922	T	T	4388922	3	4	81	1	0	0	0	0	1	0	0	0	11112	43	2	5	344	5	OR52B4	11	4388922	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	2433252	4388922	130617594	478	31130										
OR52A5	390054	broad.mit.edu	37	chr11	5153566	5153566	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaatgagtgaataagccacaTttgaaaaagacaggcatcaa	9	6	1	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:5153566T>A	uc010qyx.1	-	1	307	c.307A>T	c.(307-309)ATG>TTG	p.M103L		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		ATAAGCCACATTTGAAAAAGA	0.453													24	7	---	---	---	---	PASS	A	5153566	A	A	5153566	3	1	81	1	0	0	0	0	1	0	0	0	11110	1493	52	5	646	5	OR52A5	11	5153566	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	764644	5153566	129852950	479	31131										
OR51B5	282763	broad.mit.edu	37	chr11	5364332	5364332	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atcagaactcccagcccaatCttcactactcgagtattagt	5	13	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:5364332C>A	uc001map.1	-	1	423	c.423G>T	c.(421-423)AAG>AAT	p.K141N	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Missense_Mutation_p.K141N	NM_001005567	NP_001005567	Q9H339	O51B5_HUMAN	olfactory receptor, family 51, subfamily B,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.05e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCAGCCCAATCTTCACTACTC	0.453													41	16	---	---	---	---	PASS	A	5364332	A	A	5364332	3	1	81	1	0	0	0	0	1	0	0	0	11091	912	32	2	519	2	OR51B5	11	5364332	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	210766	5364332	129642184	480	31132										
OR52N1	79473	broad.mit.edu	37	chr11	5809645	5809645	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaattagtgaggatggtggcAtaacgcagagggaagcagat	16	4	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:5809645A>T	uc010qzo.1	-	1	402	c.402T>A	c.(400-402)TAT>TAA	p.Y134*	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001913	NP_001001913	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N,	134	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)		GGATGGTGGCATAACGCAGAG	0.527													43	10	---	---	---	---	PASS	T	5809645	T	T	5809645	4	4	81	1	0	0	0	0	0	1	0	0	11127	224	8	5	563	5	OR52N1	11	5809645	Nonsense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	445313	5809645	129196871	481	31133										
OR56A4	120793	broad.mit.edu	37	chr11	6023520	6023520	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caaggccttggccacagcacCctcggccttgatcctaagca	9	16	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:6023520C>T	uc010qzv.1	-	1	859	c.859G>A	c.(859-861)GGT>AGT	p.G287S		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCCACAGCACCCTCGGCCTTG	0.498													20	3	---	---	---	---	PASS	T	6023520	T	T	6023520	3	4	81	1	0	0	0	0	1	0	0	0	11135	623	22	3	240	3	OR56A4	11	6023520	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	213875	6023520	128982996	482	31134										
OR56A1	120796	broad.mit.edu	37	chr11	6048746	6048746	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agcaggtagtacaggggctgGtgcagagaggcctccagctg	17	9	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:6048746G>T	uc010qzw.1	-	1	189	c.189C>A	c.(187-189)CAC>CAA	p.H63Q		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	63	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACAGGGGCTGGTGCAGAGAGG	0.607													39	9	---	---	---	---	PASS	T	6048746	T	T	6048746	3	4	81	1	0	0	0	0	1	0	0	0	11133	1252	44	3	771	3	OR56A1	11	6048746	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	25226	6048746	128957770	483	31135										
DCHS1	8642	broad.mit.edu	37	chr11	6645060	6645060	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcagcagctcagctccaacaGgtgtgtcctcaggtactgtc	11	13	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:6645060G>C	uc001mem.1	-	21	8257	c.7847C>G	c.(7846-7848)CCT>CGT	p.P2616R		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	2616	Cadherin 25.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGCTCCAACAGGTGTGTCCTC	0.572													5	124	---	---	---	---	PASS	C	6645060	C	C	6645060	3	2	81	1	0	0	0	0	1	0	0	0	4287	1000	35	4	2053	4	DCHS1	11	6645060	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	596314	6645060	128361456	484	31136										
DCHS1	8642	broad.mit.edu	37	chr11	6651120	6651120	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctcgttgttcgcggtccaaCggccgcaccacggacagcgc	13	16	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:6651120C>A	uc001mem.1	-	11	5228	c.4818G>T	c.(4816-4818)CCG>CCT	p.P1606P		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1606	Cadherin 15.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CGCGGTCCAACGGCCGCACCA	0.662													37	10	---	---	---	---	PASS	A	6651120	A	A	6651120	2	1	81	1	0	0	0	0	0	0	0	1	4287	523	19	1		1	DCHS1	11	6651120	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	6060	6651120	128355396	485	31137										
DCHS1	8642	broad.mit.edu	37	chr11	6661977	6661977	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccggttgatctcgtaagtcaCagccccattgacaccagcat	8	14	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:6661977C>A	uc001mem.1	-	2	1278	c.868G>T	c.(868-870)GTG>TTG	p.V290L		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	290	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCGTAAGTCACAGCCCCATTG	0.597													10	36	---	---	---	---	PASS	A	6661977	A	A	6661977	3	1	81	1	0	0	0	0	1	0	0	0	4287	478	17	3	9108	3	DCHS1	11	6661977	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	10857	6661977	128344539	486	31138										
OR5P3	120066	broad.mit.edu	37	chr11	7847153	7847153	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gggtgagcagatggccacatAgcgatcataggccatggcag	15	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:7847153A>G	uc010rbg.1	-	1	367	c.367T>C	c.(367-369)TAT>CAT	p.Y123H		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	123	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ATGGCCACATAGCGATCATAG	0.562													47	10	---	---	---	---	PASS	G	7847153	G	G	7847153	3	3	81	1	0	0	0	0	1	0	0	0	11179	420	15	5	571	5	OR5P3	11	7847153	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1185176	7847153	127159363	487	31139										
FAR1	84188	broad.mit.edu	37	chr11	13729621	13729621	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccaagaagctgattgattcTttagagtatgtttgtttgaa	9	5	1	5			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:13729621T>C	uc001mld.2	+	4	695	c.540T>C	c.(538-540)TCT>TCC	p.S180S	FAR1_uc009ygp.2_Silent_p.S180S	NM_032228	NP_115604	Q8WVX9	FACR1_HUMAN	fatty acyl CoA reductase 1	180					ether lipid biosynthetic process	integral to membrane|peroxisomal matrix|peroxisomal membrane	protein binding			ovary(1)|skin(1)	2						TGATTGATTCTTTAGAGTATG	0.264													34	17	---	---	---	---	PASS	C	13729621	C	C	13729621	2	2	81	1	0	0	0	0	0	0	0	1	5674	1596	56	5		5	FAR1	11	13729621	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	5882468	13729621	121276895	488	31140										
NAV2	89797	broad.mit.edu	37	chr11	19970369	19970369	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctcggctccaagcaggagaCgccccctcaatgggcaatgg	12	15	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:19970369C>T	uc010rdm.1	+	11	2818	c.2457C>T	c.(2455-2457)GAC>GAT	p.D819D	NAV2_uc001mpp.2_Silent_p.D732D|NAV2_uc001mpr.3_Silent_p.D796D	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	819						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						AAGCAGGAGACGCCCCCTCAA	0.617													5	39	---	---	---	---	PASS	T	19970369	T	T	19970369	2	4	81	1	0	0	0	0	0	0	0	1	10184	535	19	1		1	NAV2	11	19970369	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	6240748	19970369	115036147	489	31141										
SLC17A6	57084	broad.mit.edu	37	chr11	22391595	22391595	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggaatttcagaaattcaagaCtccatggaggaagtttttta	9	5	2	2	rs142120566		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:22391595C>A	uc001mqk.2	+	8	1315	c.902C>A	c.(901-903)ACT>AAT	p.T301N		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	301	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						AAATTCAAGACTCCATGGAGG	0.338													23	11	---	---	---	---	PASS	A	22391595	A	A	22391595	3	1	81	1	0	0	0	0	1	0	0	0	14421	565	20	3	932	3	SLC17A6	11	22391595	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2421226	22391595	112614921	490	31142										
SLC17A6	57084	broad.mit.edu	37	chr11	22399182	22399182	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agtcttatggtgccacaacaCaggccaatggaggttggcct	12	10	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:22399182C>T	uc001mqk.2	+	12	2058	c.1645C>T	c.(1645-1647)CAG>TAG	p.Q549*		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	549	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						TGCCACAACACAGGCCAATGG	0.393													26	5	---	---	---	---	PASS	T	22399182	T	T	22399182	4	4	81	1	0	0	0	0	0	1	0	0	14421	479	17	3	1691	3	SLC17A6	11	22399182	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	7587	22399182	112607334	491	31143										
FSHB	2488	broad.mit.edu	37	chr11	30253514	30253514	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aatctgctgcaatagctgtgAgctgaccaacatcaccattg	8	11	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:30253514A>T	uc001msl.2	+	2	134	c.65A>T	c.(64-66)GAG>GTG	p.E22V	FSHB_uc001msm.2_Missense_Mutation_p.E22V|FSHB_uc001msn.2_Missense_Mutation_p.E22V	NM_000510	NP_000501	P01225	FSHB_HUMAN	follicle stimulating hormone, beta polypeptide	22					cellular nitrogen compound metabolic process|female gamete generation|female pregnancy|ovarian follicle development|peptide hormone processing|progesterone biosynthetic process|spermatogenesis|transforming growth factor beta receptor signaling pathway	cytoplasm|extracellular region|soluble fraction	follicle-stimulating hormone activity|protein heterodimerization activity			ovary(3)	3					Follitropin beta(DB00066)|Thyrotropin Alfa(DB00024)|Urofollitropin(DB00094)	AATAGCTGTGAGCTGACCAAC	0.458													47	12	---	---	---	---	PASS	T	30253514	T	T	30253514	3	4	81	1	0	0	0	0	1	0	0	0	6072	304	11	5	67	5	FSHB	11	30253514	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	7854332	30253514	104753002	492	31144										
C11orf41	25758	broad.mit.edu	37	chr11	33620386	33620386	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caggtcgcccagtgagaatgGctctgtcatcagcaacgaat	11	11	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:33620386G>T	uc001mup.3	+	12	4023	c.3899G>T	c.(3898-3900)GGC>GTC	p.G1300V	C11orf41_uc001mun.1_3'UTR	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	1294						integral to membrane				ovary(2)	2						AGTGAGAATGGCTCTGTCATC	0.522													18	10	---	---	---	---	PASS	T	33620386	T	T	33620386	3	4	81	1	0	0	0	0	1	0	0	0	1640	1203	42	3	3945	3	C11orf41	11	33620386	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3366872	33620386	101386130	493	31145										
LMO2	4005	broad.mit.edu	37	chr11	33886199	33886199	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccagtttgtagtagaggcgcCgccccacctcacccagccgg	11	17	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:33886199C>A	uc001mve.2	-	2	645	c.206G>T	c.(205-207)CGG>CTG	p.R69L	LMO2_uc001mvc.2_Missense_Mutation_p.R62L|LMO2_uc001mvd.2_Missense_Mutation_p.R62L|LMO2_uc010rel.1_Missense_Mutation_p.R69L|LMO2_uc010rem.1_Missense_Mutation_p.R138L	NM_001142316	NP_001135788	P25791	RBTN2_HUMAN	LIM domain only 2 isoform 2	69	LIM zinc-binding 1.				multicellular organismal development	nucleus	protein binding|zinc ion binding			lung(1)	1						GTAGAGGCGCCGCCCCACCTC	0.647			T	TRD@	T-ALL								17	3	---	---	---	---	PASS	A	33886199	A	A	33886199	3	1	81	1	0	0	0	0	1	0	0	0	8852	652	23	1	278	1	LMO2	11	33886199	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	265813	33886199	101120317	494	31146										
SYT13	57586	broad.mit.edu	37	chr11	45274009	45274009	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctcgccccactgggcagccCctagaggcacagatgtcccg	12	17	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:45274009C>T	uc001myq.2	-	4	935	c.809G>A	c.(808-810)GGG>GAG	p.G270E	SYT13_uc009yku.1_Missense_Mutation_p.G126E	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	270	Cytoplasmic (Potential).					transport vesicle				ovary(1)	1						CTGGGCAGCCCCTAGAGGCAC	0.642											OREG0020928	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	48	15	---	---	---	---	PASS	T	45274009	T	T	45274009	3	4	81	1	0	0	0	0	1	0	0	0	15466	623	22	3	483	3	SYT13	11	45274009	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	11387810	45274009	89732507	495	31147										
OR5L2	26338	broad.mit.edu	37	chr11	55594910	55594910	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttgtcctttgtagatttctgCtactcctcaataattgtgcc	6	10	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:55594910C>A	uc001nhy.1	+	1	216	c.216C>A	c.(214-216)TGC>TGA	p.C72*		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	72	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				TAGATTTCTGCTACTCCTCAA	0.458										HNSCC(27;0.073)			118	30	---	---	---	---	PASS	A	55594910	A	A	55594910	4	1	81	1	0	0	0	0	0	1	0	0	11171	805	28	3	218	3	OR5L2	11	55594910	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	10320901	55594910	79411606	496	31148										
OR8H3	390152	broad.mit.edu	37	chr11	55890494	55890494	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgtcccttatcacaatatctGcatcctatgtgtccattctc	4	13	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:55890494G>T	uc001nii.1	+	1	646	c.646G>T	c.(646-648)GCA>TCA	p.A216S		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	216	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CACAATATCTGCATCCTATGT	0.438													87	27	---	---	---	---	PASS	T	55890494	T	T	55890494	3	4	81	1	0	0	0	0	1	0	0	0	11239	1319	46	3	648	3	OR8H3	11	55890494	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	295584	55890494	79116022	497	31149										
OR5T1	390155	broad.mit.edu	37	chr11	56043882	56043882	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttctctacatgtggagctcaCctaactggagtgacaattta	8	9	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:56043882C>T	uc001nio.1	+	1	768	c.768C>T	c.(766-768)CAC>CAT	p.H256H		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	256	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					GTGGAGCTCACCTAACTGGAG	0.423													111	33	---	---	---	---	PASS	T	56043882	T	T	56043882	2	4	81	1	0	0	0	0	0	0	0	1	11181	506	18	3		3	OR5T1	11	56043882	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	153388	56043882	78962634	498	31150										
OR8K3	219473	broad.mit.edu	37	chr11	56086400	56086400	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgatctttgcagctattgaTttgatttcatctcttctgat	6	8	4	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:56086400T>A	uc010rjf.1	+	1	618	c.618T>A	c.(616-618)GAT>GAA	p.D206E		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	206	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					CAGCTATTGATTTGATTTCAT	0.358													6	67	---	---	---	---	PASS	A	56086400	A	A	56086400	3	1	81	1	0	0	0	0	1	0	0	0	11244	1490	52	5	620	5	OR8K3	11	56086400	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	42518	56086400	78920116	499	31151										
MPEG1	219972	broad.mit.edu	37	chr11	58980283	58980283	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctctcccgaaggcttgcctGatttagcccatgctgccgct	9	15	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:58980283G>C	uc001nnu.3	-	1	212	c.56C>G	c.(55-57)TCA>TGA	p.S19*		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	19						integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				AGGCTTGCCTGATTTAGCCCA	0.572													88	24	---	---	---	---	PASS	C	58980283	C	C	58980283	4	2	81	1	0	0	0	0	0	1	0	0	9723	1294	45	2	2098	2	MPEG1	11	58980283	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2893883	58980283	76026233	500	31152										
GIF	2694	broad.mit.edu	37	chr11	59611377	59611377	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttgtcgctggacatgagctgGtaagtcaggagcttctgggc	15	8	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:59611377G>T	uc001noi.2	-	2	279	c.231C>A	c.(229-231)TAC>TAA	p.Y77*	GIF_uc010rkz.1_Nonsense_Mutation_p.Y77*	NM_005142	NP_005133	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	77					cobalamin metabolic process|cobalamin transport|cobalt ion transport	apical plasma membrane|endosome|extracellular space|microvillus	cobalamin binding			ovary(1)|liver(1)	2						ACATGAGCTGGTAAGTCAGGA	0.537													15	7	---	---	---	---	PASS	T	59611377	T	T	59611377	4	4	81	1	0	0	0	0	0	1	0	0	6376	1256	44	3	1054	3	GIF	11	59611377	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	631094	59611377	75395139	501	31153										
SLC22A10	387775	broad.mit.edu	37	chr11	63059062	63059062	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaatcagtggttcaattcctActtctgactggaatgctggt	9	8	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:63059062A>T	uc009yor.2	+	2	661	c.453A>T	c.(451-453)CTA>CTT	p.L151L	SLC22A10_uc010rmo.1_Intron|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_Silent_p.L99L	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	151	Helical; (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						TTCAATTCCTACTTCTGACTG	0.458													10	88	---	---	---	---	PASS	T	63059062	T	T	63059062	2	4	81	1	0	0	0	0	0	0	0	1	14441	378	14	5		5	SLC22A10	11	63059062	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	3447685	63059062	71947454	502	31154										
RTN3	10313	broad.mit.edu	37	chr11	63449137	63449137	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gccgtcggcggccactcagtCccattccatctcctcgtcgt	9	18	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:63449137C>T	uc001nxq.2	+	1	216	c.29C>T	c.(28-30)TCC>TTC	p.S10F	RTN3_uc001nxo.2_Missense_Mutation_p.S10F|RTN3_uc001nxm.2_Missense_Mutation_p.S10F|RTN3_uc001nxn.2_Missense_Mutation_p.S10F|RTN3_uc001nxp.2_Missense_Mutation_p.S10F|RTN3_uc009yov.2_Missense_Mutation_p.S10F|RTN3_uc010rmt.1_RNA|RTN3_uc010rmu.1_Missense_Mutation_p.S10F	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	10					apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						GCCACTCAGTCCCATTCCATC	0.687													36	9	---	---	---	---	PASS	T	63449137	T	T	63449137	3	4	81	1	0	0	0	0	1	0	0	0	13727	855	30	2	31	2	RTN3	11	63449137	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	390075	63449137	71557379	503	31155										
ATG2A	23130	broad.mit.edu	37	chr11	64681895	64681895	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agcagagcagcccagggcacGgccacctcgatggagcccac	13	16	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:64681895G>A	uc001obx.2	-	2	364	c.249C>T	c.(247-249)GCC>GCT	p.A83A	ATG2A_uc010rnt.1_Silent_p.A83A	NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	83							protein binding			ovary(1)|central_nervous_system(1)	2						CCCAGGGCACGGCCACCTCGA	0.652													5	5	---	---	---	---	PASS	A	64681895	A	A	64681895	2	1	81	1	0	0	0	0	0	0	0	1	1093	1103	39	1		1	ATG2A	11	64681895	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1232758	64681895	70324621	504	31156										
ACY3	91703	broad.mit.edu	37	chr11	67410278	67410278	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcagtctggacaaaggcaaCgcccttctcatagtaggcag	10	12	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:67410278C>T	uc001omq.2	-	8	1048	c.877G>A	c.(877-879)GTT>ATT	p.V293I		NM_080658	NP_542389	Q96HD9	ACY3_HUMAN	aspartoacylase 3	293					interspecies interaction between organisms	apical plasma membrane|cytoplasm	hydrolase activity, acting on ester bonds|metal ion binding				0					L-Aspartic Acid(DB00128)	ACAAAGGCAACGCCCTTCTCA	0.582													83	14	---	---	---	---	PASS	T	67410278	T	T	67410278	3	4	81	1	0	0	0	0	1	0	0	0	227	536	19	1	86	1	ACY3	11	67410278	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2728383	67410278	67596238	505	31157										
FOLR3	2352	broad.mit.edu	37	chr11	71850028	71850028	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcagtccctggaagaagaatGcctgctgcacggccagcacc	12	14	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:71850028G>A	uc001ory.1	+	3	368	c.318G>A	c.(316-318)ATG>ATA	p.M106I	FOLR3_uc001orx.1_Missense_Mutation_p.A64T			P41439	FOLR3_HUMAN	SubName: Full=FOLR3 protein; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					folic acid transport	extracellular region|extrinsic to membrane|membrane fraction	folic acid binding|receptor activity				0					Folic Acid(DB00158)	GAAGAAGAATGCCTGCTGCAC	0.572													20	4	---	---	---	---	PASS	A	71850028	A	A	71850028	3	1	81	1	0	0	0	0	1	0	0	0	5983	1319	46	3	196	3	FOLR3	11	71850028	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4439750	71850028	63156488	506	31158										
SERPINH1	871	broad.mit.edu	37	chr11	75282989	75282989	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgaccaggacatctacgggcGcgaggagctgcgcagcccca	14	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:75282989G>C	uc001owr.2	+	5	1347	c.1118G>C	c.(1117-1119)CGC>CCC	p.R373P	SERPINH1_uc009yug.2_Missense_Mutation_p.R373P|SERPINH1_uc001ows.2_Missense_Mutation_p.R373P|SERPINH1_uc001owt.2_Missense_Mutation_p.R156P	NM_001235	NP_001226	P50454	SERPH_HUMAN	serine (or cysteine) proteinase inhibitor, clade	373					regulation of proteolysis|response to unfolded protein	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	collagen binding|serine-type endopeptidase inhibitor activity			ovary(2)	2	Ovarian(111;0.11)					ATCTACGGGCGCGAGGAGCTG	0.607													20	2	---	---	---	---	PASS	C	75282989	C	C	75282989	3	2	81	1	0	0	0	0	1	0	0	0	14117	1087	38	4	1132	4	SERPINH1	11	75282989	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3432961	75282989	59723527	507	31159										
DLG2	1740	broad.mit.edu	37	chr11	83962335	83962335	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	attataggagcaggactggcCtgaaaaaagaaatagaaaaa	10	4	0	3	rs147726548		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:83962335C>A	uc001paj.2	-	3	508	c.205_splice	c.e3-1	p.A69_splice	DLG2_uc001pai.2_Intron|DLG2_uc010rsy.1_Splice_Site_p.A36_splice|DLG2_uc010rsz.1_Splice_Site_p.A69_splice|DLG2_uc010rta.1_Splice_Site_p.A69_splice|DLG2_uc001pak.2_Splice_Site_p.A174_splice|DLG2_uc010rtb.1_Splice_Site_p.A36_splice|DLG2_uc001pal.1_Splice_Site_p.A69_splice|DLG2_uc001pam.1_Splice_Site_p.A108_splice	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2							cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				CAGGACTGGCCTGAAAAAAGA	0.269													13	3	---	---	---	---	PASS	A	83962335	A	A	83962335	5	1	81	1	0	0	0	0	0	0	1	0	4555	695	24	3	2542	3	DLG2	11	83962335	Splice_Site	SNP	C	TCGA-37-5819-01A-01D-1632-08	8679346	83962335	51044181	508	31160										
NOX4	50507	broad.mit.edu	37	chr11	89073306	89073306	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgcatacccaaataaagtaTagtcttctaagcttgtatgg	7	8	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:89073306T>C	uc001pct.2	-	15	1610	c.1371A>G	c.(1369-1371)CTA>CTG	p.L457L	NOX4_uc009yvr.2_Silent_p.L432L|NOX4_uc001pcu.2_Silent_p.L383L|NOX4_uc001pcw.2_Silent_p.L150L|NOX4_uc001pcx.2_Silent_p.L110L|NOX4_uc001pcv.2_Silent_p.L417L|NOX4_uc009yvo.2_RNA|NOX4_uc010rtu.1_Silent_p.L291L|NOX4_uc009yvp.2_Silent_p.L221L|NOX4_uc010rtv.1_Silent_p.L393L|NOX4_uc009yvq.2_Silent_p.L433L	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	457	Cytoplasmic (Potential).|Mediates interaction with TLR4.				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				AAATAAAGTATAGTCTTCTAA	0.338													91	18	---	---	---	---	PASS	C	89073306	C	C	89073306	2	2	81	1	0	0	0	0	0	0	0	1	10558	1393	49	5		5	NOX4	11	89073306	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	5110971	89073306	45933210	509	31161										
HEPHL1	341208	broad.mit.edu	37	chr11	93837756	93837756	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaaggagtcttgaatgaaaaGggaagaagaagtgacgttga	14	2	1	6			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:93837756G>A	uc001pep.2	+	16	2902	c.2745G>A	c.(2743-2745)AAG>AAA	p.K915K	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	915	Extracellular (Potential).|Plastocyanin-like 6.				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				TGAATGAAAAGGGAAGAAGAA	0.348													35	14	---	---	---	---	PASS	A	93837756	A	A	93837756	2	1	81	1	0	0	0	0	0	0	0	1	7055	991	35	3		3	HEPHL1	11	93837756	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	4764450	93837756	41168760	510	31162										
SESN3	143686	broad.mit.edu	37	chr11	94924617	94924617	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaggaaggggaccatccatgCgcaacatgtaaaactggctc	12	10	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:94924617C>A	uc001pfk.1	-	3	515	c.293G>T	c.(292-294)CGC>CTC	p.R98L	SESN3_uc010rug.1_Missense_Mutation_p.R20L|SESN3_uc001pfl.2_Missense_Mutation_p.R98L	NM_144665	NP_653266	P58005	SESN3_HUMAN	sestrin 3	98					cell cycle arrest	nucleus					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.234)		ACCATCCATGCGCAACATGTA	0.443													26	104	---	---	---	---	PASS	A	94924617	A	A	94924617	3	1	81	1	0	0	0	0	1	0	0	0	14126	768	27	1	1217	1	SESN3	11	94924617	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1086861	94924617	40081899	511	31163										
MAML2	84441	broad.mit.edu	37	chr11	95825687	95825687	+	Frame_Shift_Del	DEL	C	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttactttcgactggccgctgCcgccagctaccccaggcatg							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:95825687delC	uc001pfw.1	-	2	2793	c.1508delG	c.(1507-1509)GGCfs	p.G503fs		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	503					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				CTGGCCGCTGCCGCCAGCTAC	0.582			T	MECT1|CRTC3	salivary gland mucoepidermoid								20	37	---	---	---	---		-	95825687	-	-	95825687	7	5	81	1	0	1	0	1	0	0	0	0	9206	739	26	0	1978	0	MAML2	11	95825687	Frame_Shift_Del	DEL	C	TCGA-37-5819-01A-01D-1632-08	901070	95825687	39180829	512	31164										
CNTN5	53942	broad.mit.edu	37	chr11	99944961	99944961	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttgtcatagagtgcaaaccCcaaggctctccaaaaccaac	7	13	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:99944961C>T	uc001pga.2	+	13	1854	c.1515C>T	c.(1513-1515)CCC>CCT	p.P505P	CNTN5_uc009ywv.1_Silent_p.P505P|CNTN5_uc001pfz.2_Silent_p.P505P|CNTN5_uc001pgb.2_Silent_p.P431P	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	505	Ig-like C2-type 5.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		AGTGCAAACCCCAAGGCTCTC	0.358													13	3	---	---	---	---	PASS	T	99944961	T	T	99944961	2	4	81	1	0	0	0	0	0	0	0	1	3644	610	22	3		3	CNTN5	11	99944961	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	4119274	99944961	35061555	513	31165										
ELMOD1	55531	broad.mit.edu	37	chr11	107501187	107501187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttttactgtaaatttctgtGgcgctgcctgaaatttgtaa	8	6	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:107501187G>T	uc010rvs.1	+	3	466	c.62G>T	c.(61-63)TGG>TTG	p.W21L	ELMOD1_uc001pjm.2_Missense_Mutation_p.W21L|ELMOD1_uc010rvt.1_Missense_Mutation_p.W15L	NM_018712	NP_061182	Q8N336	ELMD1_HUMAN	ELMO/CED-12 domain containing 1 isoform 1	21					phagocytosis	cytoskeleton	GTPase activator activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00304)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Epithelial(105;0.00027)|all cancers(92;0.00481)		AAATTTCTGTGGCGCTGCCTG	0.403													9	3	---	---	---	---	PASS	T	107501187	T	T	107501187	3	4	81	1	0	0	0	0	1	0	0	0	5068	1357	47	3	68	3	ELMOD1	11	107501187	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	7556226	107501187	27505329	514	31166										
ABCG4	64137	broad.mit.edu	37	chr11	119025544	119025544	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cacgaggacagccctgctctCtggcgggcagaggaagcgtc	15	13	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:119025544C>A	uc001pvs.2	+	6	941	c.605C>A	c.(604-606)TCT>TAT	p.S202Y	ABCG4_uc009zar.2_Missense_Mutation_p.S202Y	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	202	Cytoplasmic (Potential).|ABC transporter.				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		GCCCTGCTCTCTGGCGGGCAG	0.622													64	13	---	---	---	---	PASS	A	119025544	A	A	119025544	3	1	81	1	0	0	0	0	1	0	0	0	70	913	32	2	623	2	ABCG4	11	119025544	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	11524357	119025544	15980972	515	31167										
PDZD3	79849	broad.mit.edu	37	chr11	119059486	119059486	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccttctgtccctcttggctcCcgacagtgcttcctgtaccc	7	18	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:119059486C>A	uc001pwb.2	+	7	1919	c.1395C>A	c.(1393-1395)TCC>TCA	p.S465S	PDZD3_uc001pvy.2_Silent_p.S385S|PDZD3_uc001pvz.2_Silent_p.S399S|PDZD3_uc010rzd.1_Silent_p.S386S|PDZD3_uc001pwa.2_Silent_p.S95S			Q86UT5	NHRF4_HUMAN	RecName: Full=Na(+)/H(+) exchange regulatory cofactor NHE-RF4;          Short=NHERF-4; AltName: Full=PDZ domain-containing protein 3; AltName: Full=PDZ domain-containing protein 2; AltName: Full=Intestinal and kidney-enriched PDZ protein; AltName: Full=Sodium-hydrogen exchanger regulatory factor 4;	465					cGMP-mediated signaling|ion transport|negative regulation of cGMP biosynthetic process|response to toxin|water transport	apical part of cell|brush border|cytosol|membrane fraction|subapical complex	guanylate cyclase inhibitor activity|ion channel inhibitor activity|protein C-terminus binding			breast(1)	1	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;7.52e-05)		CTCTTGGCTCCCGACAGTGCT	0.617													72	13	---	---	---	---	PASS	A	119059486	A	A	119059486	2	1	81	1	0	0	0	0	0	0	0	1	11702	610	22	3		3	PDZD3	11	119059486	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	33942	119059486	15947030	516	31168										
ROBO3	64221	broad.mit.edu	37	chr11	124744123	124744123	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gccccgtctctgagcctgtcCgtacacagggtaaggtcaga	12	13	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:124744123C>A	uc001qbc.2	+	12	2134	c.1942C>A	c.(1942-1944)CGT>AGT	p.R648S	ROBO3_uc010saq.1_5'Flank|ROBO3_uc001qbd.2_5'Flank|ROBO3_uc010sar.1_5'Flank|ROBO3_uc001qbe.2_5'Flank	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	648	Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		TGAGCCTGTCCGTACACAGGG	0.557													40	7	---	---	---	---	PASS	A	124744123	A	A	124744123	3	1	81	1	0	0	0	0	1	0	0	0	13515	652	23	1	1988	1	ROBO3	11	124744123	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5684637	124744123	10262393	517	31169										
GLB1L2	89944	broad.mit.edu	37	chr11	134237152	134237152	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcattttgtggtgtccaggGgactcagcccaagatggtga	13	9	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr11:134237152G>C	uc001qhp.2	+	9	994	c.806G>C	c.(805-807)GGG>GCG	p.G269A	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	269					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		GGTGTCCAGGGGACTCAGCCC	0.423													24	4	---	---	---	---	PASS	C	134237152	C	C	134237152	3	2	81	1	0	0	0	0	1	0	0	0	6429	1246	43	4	840	4	GLB1L2	11	134237152	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	9493029	134237152	769364	518	31170										
CACNA1C	775	broad.mit.edu	37	chr12	2757671	2757671	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atacccaatgctctccctctAtggtaagaccaaccctcccg	5	17	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:2757671A>T	uc009zdu.1	+	33	4400	c.4087A>T	c.(4087-4089)ATG>TTG	p.M1363L	CACNA1C_uc009zdv.1_Missense_Mutation_p.M1312L|CACNA1C_uc001qkb.2_Missense_Mutation_p.M1315L|CACNA1C_uc001qkc.2_Missense_Mutation_p.M1315L|CACNA1C_uc001qke.2_Intron|CACNA1C_uc001qkf.2_Intron|CACNA1C_uc001qjz.2_Missense_Mutation_p.M1315L|CACNA1C_uc001qkd.2_Missense_Mutation_p.M1315L|CACNA1C_uc001qkg.2_Intron|CACNA1C_uc009zdw.1_Missense_Mutation_p.M1315L|CACNA1C_uc001qkh.2_Intron|CACNA1C_uc001qkl.2_Missense_Mutation_p.M1363L|CACNA1C_uc001qkn.2_Missense_Mutation_p.M1315L|CACNA1C_uc001qko.2_Missense_Mutation_p.M1335L|CACNA1C_uc001qkp.2_Missense_Mutation_p.M1315L|CACNA1C_uc001qkr.2_Intron|CACNA1C_uc001qku.2_Missense_Mutation_p.M1315L|CACNA1C_uc001qkq.2_Missense_Mutation_p.M1343L|CACNA1C_uc001qks.2_Missense_Mutation_p.M1315L|CACNA1C_uc001qkt.2_Missense_Mutation_p.M1315L|CACNA1C_uc001qki.1_Missense_Mutation_p.M1051L|CACNA1C_uc001qkj.1_Missense_Mutation_p.M1051L|CACNA1C_uc001qkk.1_Missense_Mutation_p.M1051L|CACNA1C_uc001qkm.1_Intron|CACNA1C_uc010sea.1_Intron	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1363	Extracellular (Potential).|IV.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CTCTCCCTCTATGGTAAGACC	0.552													34	6	---	---	---	---	PASS	T	2757671	T	T	2757671	3	4	81	1	0	0	0	0	1	0	0	0	2540	449	16	5	4325	5	CACNA1C	12	2757671	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08		2757671	131094224	519	31171										
SCNN1A	6337	broad.mit.edu	37	chr12	6483596	6483596	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agcttgtccgagttgaggttGatgttgaggctgacggggta	17	5	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:6483596G>A	uc001qnx.2	-	2	643	c.354C>T	c.(352-354)ATC>ATT	p.I118I	SCNN1A_uc001qnw.2_Silent_p.I177I|SCNN1A_uc010sfb.1_Silent_p.I141I|LTBR_uc010sfc.1_5'Flank	NM_001038	NP_001029	P37088	SCNNA_HUMAN	sodium channel, nonvoltage-gated 1 alpha isoform	118	Extracellular (By similarity).				excretion|response to stimulus|sensory perception of taste	apical plasma membrane	WW domain binding				0					Amiloride(DB00594)|Triamterene(DB00384)	AGTTGAGGTTGATGTTGAGGC	0.582													11	25	---	---	---	---	PASS	A	6483596	A	A	6483596	2	1	81	1	0	0	0	0	0	0	0	1	13927	1280	45	2		2	SCNN1A	12	6483596	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	3725925	6483596	127368299	520	31172										
CD4	920	broad.mit.edu	37	chr12	6927603	6927603	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcagttctgcccacatggtcCaccccggtgcagccaatggc	11	16	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:6927603C>T	uc001qqv.1	+	8	1418	c.1173C>T	c.(1171-1173)TCC>TCT	p.S391S	CD4_uc010sfj.1_Silent_p.S118S|CD4_uc009zfc.1_Silent_p.S212S|CD4_uc010sfk.1_Silent_p.S118S|CD4_uc010sfl.1_Silent_p.S118S|CD4_uc010sfm.1_Silent_p.S118S	NM_000616	NP_000607	P01730	CD4_HUMAN	CD4 antigen precursor	391	Extracellular (Potential).				cell adhesion|entry into host cell|immune response|induction by virus of host cell-cell fusion|initiation of viral infection|maintenance of protein location in cell|positive regulation of interleukin-2 biosynthetic process|positive regulation of protein kinase activity|protein palmitoleylation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|T cell selection|transmembrane receptor protein tyrosine kinase signaling pathway	early endosome|endoplasmic reticulum membrane|integral to membrane|T cell receptor complex	coreceptor activity|extracellular matrix structural constituent|glycoprotein binding|MHC class II protein binding|protein homodimerization activity|protein kinase binding|transmembrane receptor activity|zinc ion binding				0		Myeloproliferative disorder(1001;0.0122)				CCACATGGTCCACCCCGGTGC	0.637													16	65	---	---	---	---	PASS	T	6927603	T	T	6927603	2	4	81	1	0	0	0	0	0	0	0	1	3014	581	21	3		3	CD4	12	6927603	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	444007	6927603	126924292	521	31173										
GPR162	27239	broad.mit.edu	37	chr12	6933862	6933862	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcggagtctgccaagacatcCctgcaggtcaccaacttggt	10	13	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:6933862C>A	uc001qqw.1	+	2	1333	c.798C>A	c.(796-798)TCC>TCA	p.S266S	LEPREL2_uc001qqz.1_5'Flank|GPR162_uc010sfn.1_Silent_p.S266S|GPR162_uc001qqx.1_Intron|GPR162_uc009zfd.1_Intron|GPR162_uc001qqy.1_5'UTR	NM_019858	NP_062832	Q16538	GP162_HUMAN	G protein-coupled receptor 162 isoform 2	266	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCAAGACATCCCTGCAGGTCA	0.607													33	26	---	---	---	---	PASS	A	6933862	A	A	6933862	2	1	81	1	0	0	0	0	0	0	0	1	6666	610	22	3		3	GPR162	12	6933862	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	6259	6933862	126918033	522	31174										
A2M	2	broad.mit.edu	37	chr12	9242509	9242509	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttacttacttcaaccaacaGaggcttgatgactgtgtctt	7	9	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:9242509G>A	uc001qvk.1	-	21	2820	c.2707C>T	c.(2707-2709)CTG>TTG	p.L903L	A2M_uc009zgk.1_Silent_p.L753L	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	903					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	TCAACCAACAGAGGCTTGATG	0.348													33	27	---	---	---	---	PASS	A	9242509	A	A	9242509	2	1	81	1	0	0	0	0	0	0	0	1	4	933	33	2		2	A2M	12	9242509	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	2308647	9242509	124609386	523	31175										
PZP	5858	broad.mit.edu	37	chr12	9346700	9346700	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaaagtttattaaccgagatActggtagtattgattgaaaa	8	3	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:9346700A>T	uc001qvl.2	-	11	1256	c.1227T>A	c.(1225-1227)AGT>AGA	p.S409R	PZP_uc009zgl.2_Missense_Mutation_p.S278R	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						TAACCGAGATACTGGTAGTAT	0.373													48	58	---	---	---	---	PASS	T	9346700	T	T	9346700	3	4	81	1	0	0	0	0	1	0	0	0	12869	388	14	5	3325	5	PZP	12	9346700	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	104191	9346700	124505195	524	31176										
KLRC4	8302	broad.mit.edu	37	chr12	10560282	10560282	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagatcagagttcttcgaagCacaggccagcaaactctttc	8	12	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:10560282C>A	uc001qye.2	-	4	629	c.447G>T	c.(445-447)GTG>GTT	p.V149V	KLRK1_uc001qyc.2_5'UTR|KLRK1_uc009zhk.2_5'UTR|KLRK1_uc001qyd.2_5'UTR	NM_013431	NP_038459	O43908	NKG2F_HUMAN	killer cell lectin-like receptor subfamily C,	149	Extracellular (Potential).				cellular defense response	integral to membrane	binding|receptor activity				0						TTCTTCGAAGCACAGGCCAGC	0.338													75	191	---	---	---	---	PASS	A	10560282	A	A	10560282	2	1	81	1	0	0	0	0	0	0	0	1	8418	697	25	3		3	KLRC4	12	10560282	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1213582	10560282	123291613	525	31177										
TAS2R9	50835	broad.mit.edu	37	chr12	10961936	10961936	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agaggtcataacaagaaagaCtgggtagtacacgatgagga	13	5	1	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:10961936C>A	uc001qyx.2	-	1	832	c.739G>T	c.(739-741)GTC>TTC	p.V247F	TAS2R8_uc010shh.1_5'Flank	NM_023917	NP_076406	Q9NYW1	TA2R9_HUMAN	taste receptor, type 2, member 9	247	Helical; Name=6; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			skin(1)	1						ACAAGAAAGACTGGGTAGTAC	0.463													21	58	---	---	---	---	PASS	A	10961936	A	A	10961936	3	1	81	1	0	0	0	0	1	0	0	0	15585	565	20	3	203	3	TAS2R9	12	10961936	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	401654	10961936	122889959	526	31178										
PIK3C2G	5288	broad.mit.edu	37	chr12	18716391	18716391	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagcagttttcaaaacttcaCagccaacttcagaagcagtt	7	10	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:18716391C>A	uc001rdt.2	+	27	3854	c.3738C>A	c.(3736-3738)CAC>CAA	p.H1246Q	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.H1287Q|PIK3C2G_uc010sic.1_Missense_Mutation_p.H1065Q	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	1246	PX.				cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				CAAAACTTCACAGCCAACTTC	0.408													28	8	---	---	---	---	PASS	A	18716391	A	A	18716391	3	1	81	1	0	0	0	0	1	0	0	0	11911	477	17	3	3840	3	PIK3C2G	12	18716391	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	7754455	18716391	115135504	527	31179										
PDE3A	5139	broad.mit.edu	37	chr12	20769273	20769273	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggagcctgcaccagtacggaGagaccgcagcaccagcatca	12	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:20769273G>T	uc001reh.1	+	4	1401	c.1379G>T	c.(1378-1380)AGA>ATA	p.R460I		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	460					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	CCAGTACGGAGAGACCGCAGC	0.537													40	13	---	---	---	---	PASS	T	20769273	T	T	20769273	3	4	81	1	0	0	0	0	1	0	0	0	11637	942	33	2	1393	2	PDE3A	12	20769273	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2052882	20769273	113082622	528	31180										
SSPN	8082	broad.mit.edu	37	chr12	26383792	26383792	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	actgccctcctcggagccgcTcagcaggacctttgtttacc	9	16	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:26383792T>A	uc001rhe.2	+	3	615	c.515T>A	c.(514-516)CTC>CAC	p.L172H	SSPN_uc001rhd.2_Missense_Mutation_p.L69H|SSPN_uc009zjf.2_Intron|SSPN_uc001rhf.3_Intron	NM_005086	NP_005077	Q14714	SSPN_HUMAN	sarcospan isoform 1	172	Extracellular (Potential).				cell adhesion|muscle contraction	cell junction|dystrophin-associated glycoprotein complex|integral to plasma membrane|postsynaptic membrane|sarcolemma|transport vesicle					0	Colorectal(261;0.0847)					TCGGAGCCGCTCAGCAGGACC	0.537													50	14	---	---	---	---	PASS	A	26383792	A	A	26383792	3	1	81	1	0	0	0	0	1	0	0	0	15187	1551	54	5	525	5	SSPN	12	26383792	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	5614519	26383792	107468103	529	31181										
ITPR2	3709	broad.mit.edu	37	chr12	26809298	26809298	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cgaacaggcaccacggactcCtggggatcccggtcaacgtg	13	14	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:26809298C>A	uc001rhg.2	-	19	2793	c.2376G>T	c.(2374-2376)CAG>CAT	p.Q792H		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	792	Cytoplasmic (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)					CCACGGACTCCTGGGGATCCC	0.552													42	13	---	---	---	---	PASS	A	26809298	A	A	26809298	3	1	81	1	0	0	0	0	1	0	0	0	7921	680	24	3	5885	3	ITPR2	12	26809298	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	425506	26809298	107042597	530	31182										
ALG10B	144245	broad.mit.edu	37	chr12	38714685	38714685	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtgtggaaaagagtttttcaAagatatgcaattctgaaata	9	3	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:38714685A>G	uc001rln.3	+	3	1231	c.1092A>G	c.(1090-1092)CAA>CAG	p.Q364Q	ALG10B_uc001rlo.3_Silent_p.Q334Q|ALG10B_uc010skk.1_Silent_p.Q304Q	NM_001013620	NP_001013642	Q5I7T1	AG10B_HUMAN	asparagine-linked glycosylation 10 homolog B	364	Extracellular (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|plasma membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			ovary(2)|skin(1)	3	Esophageal squamous(101;0.187)	Lung NSC(34;0.204)|all_lung(34;0.235)				GAGTTTTTCAAAGATATGCAA	0.308													73	53	---	---	---	---	PASS	G	38714685	G	G	38714685	2	3	81	1	0	0	0	0	0	0	0	1	512	11	1	5		5	ALG10B	12	38714685	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	11905387	38714685	95137210	531	31183										
LRRK2	120892	broad.mit.edu	37	chr12	40715839	40715839	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aatggctccattttttagaaCgagcacttcgcccaaacaga	7	11	0	2	rs11564176		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:40715839C>G	uc001rmg.3	+	36	5294	c.5173C>G	c.(5173-5175)CGA>GGA	p.R1725G	LRRK2_uc009zjw.2_Missense_Mutation_p.R563G|LRRK2_uc001rmi.2_Missense_Mutation_p.R558G	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1725					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)				TTTTTTAGAACGAGCACTTCG	0.363													4	62	---	---	---	---	PASS	G	40715839	G	G	40715839	3	3	81	1	0	0	0	0	1	0	0	0	9033	528	19	4	5315	4	LRRK2	12	40715839	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2001154	40715839	93136056	532	31184										
PRICKLE1	144165	broad.mit.edu	37	chr12	42864063	42864063	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttacctcattatcatgtggTggtaactggtacaaaagctg	9	7	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:42864063T>G	uc010skv.1	-	3	518	c.231A>C	c.(229-231)CCA>CCC	p.P77P	PRICKLE1_uc001rnl.2_Silent_p.P77P|PRICKLE1_uc010skw.1_Silent_p.P77P|PRICKLE1_uc001rnm.2_Silent_p.P77P|PRICKLE1_uc009zka.2_Silent_p.P73P	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	77	PET.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		TATCATGTGGTGGTAACTGGT	0.403													13	49	---	---	---	---	PASS	G	42864063	G	G	42864063	2	3	81	1	0	0	0	0	0	0	0	1	12486	1683	59	5		5	PRICKLE1	12	42864063	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	2148224	42864063	90987832	533	31185										
HDAC7	51564	broad.mit.edu	37	chr12	48185723	48185723	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggatgcggccggcgtgctcCgggtgcctgctgttgtcacc	16	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:48185723C>G	uc010slo.1	-	14	1938	c.1743G>C	c.(1741-1743)CCG>CCC	p.P581P	HDAC7_uc009zku.2_RNA|HDAC7_uc001rqe.2_Silent_p.P15P|HDAC7_uc001rqj.3_Silent_p.P544P|HDAC7_uc001rqk.3_Silent_p.P564P	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	542	Histone deacetylase.|Transcription repression 2 (By similarity).				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		CGGCGTGCTCCGGGTGCCTGC	0.682													15	13	---	---	---	---	PASS	G	48185723	G	G	48185723	2	3	81	1	0	0	0	0	0	0	0	1	7012	639	23	4		4	HDAC7	12	48185723	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	5321660	48185723	85666172	534	31186										
ANP32D	23519	broad.mit.edu	37	chr12	48866596	48866596	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	actggaattattaaatacaaTcaacataggcctcacctcaa	4	10	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:48866596T>C	uc010slt.1	+	1	149	c.149T>C	c.(148-150)ATC>ACC	p.I50T		NM_012404	NP_036536	O95626	AN32D_HUMAN	acidic nuclear phosphoprotein 32D	50	LRR 2.									ovary(1)|central_nervous_system(1)	2						TTAAATACAATCAACATAGGC	0.393													9	102	---	---	---	---	PASS	C	48866596	C	C	48866596	3	2	81	1	0	0	0	0	1	0	0	0	708	1435	50	5	151	5	ANP32D	12	48866596	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	680873	48866596	84985299	535	31187										
WNT10B	7480	broad.mit.edu	37	chr12	49364267	49364267	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caacgccaggaacaggagacCcgcgaggcccgagggcggag	17	13	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:49364267C>T	uc001rss.2	-	2	392	c.46G>A	c.(46-48)GGT>AGT	p.G16S	WNT10B_uc001rst.2_Missense_Mutation_p.G16S	NM_003394	NP_003385	O00744	WN10B_HUMAN	wingless-type MMTV integration site family,	16					axis specification|bone trabecula formation|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|chondrocyte differentiation|female gonad development|hemopoietic stem cell proliferation|midbrain-hindbrain boundary development|myoblast cell differentiation involved in skeletal muscle regeneration|negative regulation of epithelial cell proliferation|negative regulation of fat cell differentiation|neuron differentiation|positive regulation of anagen|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cell proliferation|positive regulation of epithelial cell differentiation|positive regulation of osteoblast differentiation|protein stabilization|regulation of skeletal muscle tissue development|skeletal muscle fiber development|smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			skin(4)|lung(3)	7						AACAGGAGACCCGCGAGGCCC	0.687													7	2	---	---	---	---	PASS	T	49364267	T	T	49364267	3	4	81	1	0	0	0	0	1	0	0	0	17380	623	22	3	1139	3	WNT10B	12	49364267	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	497671	49364267	84487628	536	31188										
TROAP	10024	broad.mit.edu	37	chr12	49723186	49723186	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttctgtgccaggcccagtgGctgcgtggtgtctcccctca	12	15	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:49723186G>T	uc001rtx.3	+	11	1280	c.1113G>T	c.(1111-1113)TGG>TGT	p.W371C	TROAP_uc009zlh.2_Missense_Mutation_p.W371C|TROAP_uc001rty.2_Missense_Mutation_p.W79C	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	371					cell adhesion	cytoplasm				ovary(1)	1						AGGCCCAGTGGCTGCGTGGTG	0.592													11	40	---	---	---	---	PASS	T	49723186	T	T	49723186	3	4	81	1	0	0	0	0	1	0	0	0	16572	1212	42	3	1253	3	TROAP	12	49723186	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	358919	49723186	84128709	537	31189										
SCN8A	6334	broad.mit.edu	37	chr12	52200923	52200923	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttccaaagtgtcttacgagCcaatcacaaccacactgcgt	6	14	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:52200923C>A	uc001ryw.2	+	27	5831	c.5653C>A	c.(5653-5655)CCA>ACA	p.P1885T	uc001rzb.1_5'Flank	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	1885					axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	GTCTTACGAGCCAATCACAAC	0.587													33	147	---	---	---	---	PASS	A	52200923	A	A	52200923	3	1	81	1	0	0	0	0	1	0	0	0	13924	739	26	3	5755	3	SCN8A	12	52200923	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2477737	52200923	81650972	538	31190										
SCN8A	6334	broad.mit.edu	37	chr12	52201149	52201149	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgaaaaggagaaacagcagcGggcagaggaaggaagaaggg	18	4	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:52201149G>C	uc001ryw.2	+	27	6057	c.5879G>C	c.(5878-5880)CGG>CCG	p.R1960P	uc001rzb.1_5'Flank	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	1960					axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	AAACAGCAGCGGGCAGAGGAA	0.448													4	7	---	---	---	---	PASS	C	52201149	C	C	52201149	3	2	81	1	0	0	0	0	1	0	0	0	13924	1116	39	4	5981	4	SCN8A	12	52201149	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	226	52201149	81650746	539	31191										
KRT84	3890	broad.mit.edu	37	chr12	52774941	52774941	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttgatctcgttccgtatgtTgcgcaggttgtcacagtgtt	12	8	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:52774941T>A	uc001sah.1	-	6	1174	c.1126A>T	c.(1126-1128)AAC>TAC	p.N376Y		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	376	Rod.|Coil 2.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		TTCCGTATGTTGCGCAGGTTG	0.542													104	57	---	---	---	---	PASS	A	52774941	A	A	52774941	3	1	81	1	0	0	0	0	1	0	0	0	8498	1812	63	5	692	5	KRT84	12	52774941	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	573792	52774941	81076954	540	31192										
KRT73	319101	broad.mit.edu	37	chr12	53004594	53004594	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccccccgctgctcggcgtcaGcgatggccgtctccaggttg	13	17	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:53004594G>T	uc001sas.2	-	7	1171	c.1136C>A	c.(1135-1137)GCT>GAT	p.A379D		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	379	Rod.|Coil 2.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CTCGGCGTCAGCGATGGCCGT	0.652													32	13	---	---	---	---	PASS	T	53004594	T	T	53004594	3	4	81	1	0	0	0	0	1	0	0	0	8486	971	34	3	498	3	KRT73	12	53004594	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	229653	53004594	80847301	541	31193										
ESPL1	9700	broad.mit.edu	37	chr12	53671296	53671296	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccaggcccctggtaacttgGaggaatttgaagtcaatgac	11	10	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:53671296G>T	uc001sck.2	+	10	2219	c.2128G>T	c.(2128-2130)GAG>TAG	p.E710*	ESPL1_uc001scj.2_Nonsense_Mutation_p.E385*|ESPL1_uc010soe.1_5'Flank	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	710					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						TGGTAACTTGGAGGAATTTGA	0.413													5	35	---	---	---	---	PASS	T	53671296	T	T	53671296	4	4	81	1	0	0	0	0	0	1	0	0	5253	1175	41	2	2162	2	ESPL1	12	53671296	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	666702	53671296	80180599	542	31194										
ATP5G2	517	broad.mit.edu	37	chr12	54059154	54059154	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acaaaagagccccatggcctCcgagagggcaaagcccagaa	11	13	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:54059154C>G	uc009znc.2	-	6	1071	c.370G>C	c.(370-372)GAG>CAG	p.E124Q	ATP5G2_uc001sec.2_Missense_Mutation_p.E181Q|ATP5G2_uc001sed.2_Missense_Mutation_p.E140Q	NM_001002031	NP_001002031	Q06055	AT5G2_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	124	Helical; (Potential).	Reversibly protonated during proton transport (By similarity).			ATP hydrolysis coupled proton transport|ATP synthesis coupled proton transport	integral to membrane|mitochondrial proton-transporting ATP synthase complex|proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity|lipid binding			ovary(1)	1						CCCATGGCCTCCGAGAGGGCA	0.522													5	34	---	---	---	---	PASS	G	54059154	G	G	54059154	3	3	81	1	0	0	0	0	1	0	0	0	1154	864	30	2	59	2	ATP5G2	12	54059154	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	387858	54059154	79792741	543	31195										
INHBC	3626	broad.mit.edu	37	chr12	57843589	57843589	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttctgcatagggcagtgcccActacacatagcaggcatgcc	10	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:57843589A>G	uc001snv.1	+	2	970	c.843A>G	c.(841-843)CCA>CCG	p.P281P		NM_005538	NP_005529	P55103	INHBC_HUMAN	inhibin beta C chain preproprotein	281					growth	extracellular region	growth factor activity|hormone activity|transforming growth factor beta receptor binding				0						GGCAGTGCCCACTACACATAG	0.552													7	28	---	---	---	---	PASS	G	57843589	G	G	57843589	2	3	81	1	0	0	0	0	0	0	0	1	7743	146	6	5		5	INHBC	12	57843589	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	3784435	57843589	76008306	544	31196										
ARHGAP9	64333	broad.mit.edu	37	chr12	57868736	57868736	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccgctggcagagtgattccaActggcagccgaacacctggt	12	13	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:57868736A>T	uc001sod.2	-	16	2036	c.1843T>A	c.(1843-1845)TTG>ATG	p.L615M	ARHGAP9_uc001sny.2_RNA|ARHGAP9_uc001snz.2_Missense_Mutation_p.L341M|ARHGAP9_uc001soa.2_Missense_Mutation_p.L214M|ARHGAP9_uc001sob.2_Missense_Mutation_p.L525M|ARHGAP9_uc001soc.2_Missense_Mutation_p.L525M|ARHGAP9_uc001soe.1_Missense_Mutation_p.L604M	NM_032496	NP_115885	Q9BRR9	RHG09_HUMAN	Rho GTPase activating protein 9 isoform 1	544	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			lung(1)	1			GBM - Glioblastoma multiforme(3;3.37e-34)			AGTGATTCCAACTGGCAGCCG	0.547													21	14	---	---	---	---	PASS	T	57868736	T	T	57868736	3	4	81	1	0	0	0	0	1	0	0	0	889	40	2	5	646	5	ARHGAP9	12	57868736	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	25147	57868736	75983159	545	31197										
HELB	92797	broad.mit.edu	37	chr12	66700232	66700232	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcatagggtcaggttctaaaGagatgttgaaagagatagaa	12	3	3	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:66700232G>T	uc001sti.2	+	3	743	c.715G>T	c.(715-717)GAG>TAG	p.E239*	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	239					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		AGGTTCTAAAGAGATGTTGAA	0.363													21	64	---	---	---	---	PASS	T	66700232	T	T	66700232	4	4	81	1	0	0	0	0	0	1	0	0	7045	943	33	2	725	2	HELB	12	66700232	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	8831496	66700232	67151663	546	31198										
NAV3	89795	broad.mit.edu	37	chr12	78583938	78583938	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgaatatgtaataaccaaatCtggaaggaaaaaaacagagg	9	4	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:78583938C>T	uc001syp.2	+	34	6403	c.6230C>T	c.(6229-6231)TCT>TTT	p.S2077F	NAV3_uc001syo.2_Missense_Mutation_p.S2055F|NAV3_uc010sub.1_Missense_Mutation_p.S1534F|NAV3_uc009zsf.2_Missense_Mutation_p.S886F	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2077						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						ATAACCAAATCTGGAAGGAAA	0.373										HNSCC(70;0.22)			7	34	---	---	---	---	PASS	T	78583938	T	T	78583938	3	4	81	1	0	0	0	0	1	0	0	0	10185	913	32	2	6294	2	NAV3	12	78583938	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	11883706	78583938	55267957	547	31199										
NAV3	89795	broad.mit.edu	37	chr12	78593258	78593258	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agattggattccgaagacgtGgcatcatctcaacagttttt	9	8	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:78593258G>T	uc001syp.2	+	37	6835	c.6662G>T	c.(6661-6663)TGG>TTG	p.W2221L	NAV3_uc001syo.2_Missense_Mutation_p.W2199L|NAV3_uc010sub.1_Missense_Mutation_p.W1678L|NAV3_uc009zsf.2_Missense_Mutation_p.W1030L	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2221						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CCGAAGACGTGGCATCATCTC	0.363										HNSCC(70;0.22)			43	38	---	---	---	---	PASS	T	78593258	T	T	78593258	3	4	81	1	0	0	0	0	1	0	0	0	10185	1357	47	3	6738	3	NAV3	12	78593258	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	9320	78593258	55258637	548	31200										
MYF5	4617	broad.mit.edu	37	chr12	81111114	81111114	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcggaaggcagccactatgcGcgagcggaggcgcctgaaga	17	11	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:81111114G>A	uc001szg.2	+	1	407	c.272G>A	c.(271-273)CGC>CAC	p.R91H		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	91	Basic motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GCCACTATGCGCGAGCGGAGG	0.617													11	44	---	---	---	---	PASS	A	81111114	A	A	81111114	3	1	81	1	0	0	0	0	1	0	0	0	10027	1087	38	1	274	1	MYF5	12	81111114	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2517856	81111114	52740781	549	31201										
ALX1	8092	broad.mit.edu	37	chr12	85694949	85694949	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccagattcagaacaatttgtGggcaggaaatgcaagtggtg	13	6	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:85694949G>T	uc001tae.3	+	4	681	c.677G>T	c.(676-678)TGG>TTG	p.W226L		NM_006982	NP_008913	Q15699	ALX1_HUMAN	cartilage paired-class homeoprotein 1	226					brain development|cartilage condensation|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(134;0.134)		AACAATTTGTGGGCAGGAAAT	0.363													38	35	---	---	---	---	PASS	T	85694949	T	T	85694949	3	4	81	1	0	0	0	0	1	0	0	0	556	1357	47	3	691	3	ALX1	12	85694949	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4583835	85694949	48156946	550	31202										
NTS	4922	broad.mit.edu	37	chr12	86272298	86272298	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttggaagcaatgttgacaaTataccagctccacaaaatct	6	10	1	1	rs141571076		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:86272298T>C	uc001tag.2	+	3	418	c.311T>C	c.(310-312)ATA>ACA	p.I104T		NM_006183	NP_006174	P30990	NEUT_HUMAN	neurotensin/neuromedin N preproprotein	104					regulation of blood vessel size|signal transduction	extracellular region|soluble fraction|transport vesicle	neuropeptide hormone activity				0						ATGTTGACAATATACCAGCTC	0.398													29	71	---	---	---	---	PASS	C	86272298	C	C	86272298	3	2	81	1	0	0	0	0	1	0	0	0	10709	1406	49	5	321	5	NTS	12	86272298	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	577349	86272298	47579597	551	31203										
TMTC3	160418	broad.mit.edu	37	chr12	88554483	88554483	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgccattactatgtactactGctggacagtttctccgtgga	9	10	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:88554483G>T	uc001tau.2	+	6	872	c.652G>T	c.(652-654)GCT>TCT	p.A218S	TMTC3_uc009zsm.2_RNA	NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat	218						integral to membrane	binding			skin(1)	1						ATGTACTACTGCTGGACAGTT	0.338													21	73	---	---	---	---	PASS	T	88554483	T	T	88554483	3	4	81	1	0	0	0	0	1	0	0	0	16259	1319	46	3	670	3	TMTC3	12	88554483	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2282185	88554483	45297412	552	31204										
CLLU1OS	574016	broad.mit.edu	37	chr12	92821902	92821902	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttaaggcattccttaagttcGttgtgccccaatttgttcat	7	9	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:92821902G>T	uc001tcb.1	-	1	23	c.21C>A	c.(19-21)AAC>AAA	p.N7K	CLLU1_uc001tcc.2_Intron|CLLU1_uc001tcd.2_Intron|CLLU1_uc001tce.1_Intron|CLLU1_uc001tcf.2_Intron	NM_001025232	NP_001020403	Q5K130	CLU1O_HUMAN	chronic lymphocytic leukemia up-regulated 1	7											0						ccttaagttcgttgtgcccca	0.06													12	62	---	---	---	---	PASS	T	92821902	T	T	92821902	3	4	81	1	0	0	0	0	1	0	0	0	3541	1136	40	1	296	1	CLLU1OS	12	92821902	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4267419	92821902	41029993	553	31205										
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100451504	100451504	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaggagccaggttgggtgggCaacgttccttaggctttcca	15	9	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:100451504C>A	uc001tgq.2	-	15	3498	c.3269G>T	c.(3268-3270)TGC>TTC	p.C1090F	UHRF1BP1L_uc001tgp.2_Missense_Mutation_p.C740F	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	1090										ovary(2)	2						GTTGGGTGGGCAACGTTCCTT	0.318													8	26	---	---	---	---	PASS	A	100451504	A	A	100451504	3	1	81	1	0	0	0	0	1	0	0	0	16966	710	25	3	1153	3	UHRF1BP1L	12	100451504	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	7629602	100451504	33400391	554	31206										
SLC5A8	160728	broad.mit.edu	37	chr12	101552093	101552093	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atgtatctggggtctaagttCtgttttcttcctcctggaaa	9	8	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:101552093C>A	uc001thz.3	-	14	2034	c.1644G>T	c.(1642-1644)CAG>CAT	p.Q548H		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	548	Cytoplasmic (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						GGTCTAAGTTCTGTTTTCTTC	0.333													26	79	---	---	---	---	PASS	A	101552093	A	A	101552093	3	1	81	1	0	0	0	0	1	0	0	0	14671	912	32	2	196	2	SLC5A8	12	101552093	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1100589	101552093	32299802	555	31207										
SPIC	121599	broad.mit.edu	37	chr12	101876641	101876641	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aacataactgaaaaccagctGgtacaacccactcttctcca	4	14	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:101876641G>T	uc001tid.2	+	5	441	c.282G>T	c.(280-282)CTG>CTT	p.L94L	SPIC_uc009zua.2_5'UTR|SPIC_uc010svp.1_Silent_p.L93L	NM_152323	NP_689536	Q8N5J4	SPIC_HUMAN	Spi-C transcription factor (Spi-1/PU.1 related)	94						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						AAAACCAGCTGGTACAACCCA	0.358													33	130	---	---	---	---	PASS	T	101876641	T	T	101876641	2	4	81	1	0	0	0	0	0	0	0	1	15050	1335	47	3		3	SPIC	12	101876641	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	324548	101876641	31975254	556	31208										
PMCH	5367	broad.mit.edu	37	chr12	102591330	102591330	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttattttcctcttcgttcatGaaactgctctcatcattttt	3	10	4	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:102591330G>T	uc001tjl.2	-	1	285	c.219C>A	c.(217-219)TTC>TTA	p.F73L		NM_002674	NP_002665	P20382	MCH_HUMAN	pro-melanin-concentrating hormone	73					cell differentiation|neuropeptide signaling pathway|spermatogenesis|synaptic transmission		melanin-concentrating hormone activity				0						CTTCGTTCATGAAACTGCTCT	0.348													17	68	---	---	---	---	PASS	T	102591330	T	T	102591330	3	4	81	1	0	0	0	0	1	0	0	0	12131	1281	45	2	290	2	PMCH	12	102591330	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	714689	102591330	31260565	557	31209										
C12orf42	374470	broad.mit.edu	37	chr12	103700042	103700042	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catcaaaagaaactgtgcttAcagaacacctggggactatg	9	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:103700042A>T	uc001tjt.2	-	5	429	c.341T>A	c.(340-342)GTA>GAA	p.V114E	C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Missense_Mutation_p.V114E|C12orf42_uc001tju.2_Missense_Mutation_p.V19E	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	114										ovary(1)|central_nervous_system(1)	2						AACTGTGCTTACAGAACACCT	0.408													8	21	---	---	---	---	PASS	T	103700042	T	T	103700042	3	4	81	1	0	0	0	0	1	0	0	0	1688	391	14	5	749	5	C12orf42	12	103700042	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1108712	103700042	30151853	558	31210										
TDG	6996	broad.mit.edu	37	chr12	104376979	104376979	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaaatatcagccacgaatagCagtgtttaatggaaaatgta	9	5	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:104376979C>A	uc001tkg.2	+	6	903	c.680C>A	c.(679-681)GCA>GAA	p.A227E	TDG_uc009zuk.2_Missense_Mutation_p.A223E|TDG_uc010swi.1_Missense_Mutation_p.A84E|TDG_uc010swj.1_Intron	NM_003211	NP_003202	Q13569	TDG_HUMAN	thymine-DNA glycosylase	227					depyrimidination|mismatch repair	nucleoplasm	damaged DNA binding|mismatched DNA binding|protein binding|pyrimidine-specific mismatch base pair DNA N-glycosylase activity			ovary(3)|lung(3)	6				BRCA - Breast invasive adenocarcinoma(302;0.00114)		CCACGAATAGCAGTGTTTAAT	0.249								BER_DNA_glycosylases					53	170	---	---	---	---	PASS	A	104376979	A	A	104376979	3	1	81	1	0	0	0	0	1	0	0	0	15722	710	25	3	702	3	TDG	12	104376979	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	676937	104376979	29474916	559	31211										
ACACB	32	broad.mit.edu	37	chr12	109696829	109696829	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagactcagcctacaaaaccGcccaggccgtcaaggacttc	8	16	2	1	rs145553418		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:109696829G>T	uc001tob.2	+	47	6531	c.6412G>T	c.(6412-6414)GCC>TCC	p.A2138S	ACACB_uc001toc.2_Missense_Mutation_p.A2138S|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.A804S	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	2138	Carboxyltransferase.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CTACAAAACCGCCCAGGCCGT	0.572													85	101	---	---	---	---	PASS	T	109696829	T	T	109696829	3	4	81	1	0	0	0	0	1	0	0	0	107	1087	38	1	6594	1	ACACB	12	109696829	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5319850	109696829	24155066	560	31212										
MYO1H	283446	broad.mit.edu	37	chr12	109835560	109835560	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttggaaatgccagaacgctCcggaatgacaactccagcag	10	11	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:109835560C>A	uc010sxn.1	+	4	465	c.465C>A	c.(463-465)CTC>CTA	p.L155L		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						CCAGAACGCTCCGGAATGACA	0.378													15	24	---	---	---	---	PASS	A	109835560	A	A	109835560	2	1	81	1	0	0	0	0	0	0	0	1	10075	842	30	2		2	MYO1H	12	109835560	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	138731	109835560	24016335	561	31213										
RPH3A	22895	broad.mit.edu	37	chr12	113314509	113314509	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggagagaacagggggagtcGggggctacccagcagttgga	19	7	0	1	rs144497607	byFrequency	TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:113314509G>A	uc010syl.1	+	13	1371	c.1009G>A	c.(1009-1011)GGG>AGG	p.G337R	RPH3A_uc001ttz.2_Missense_Mutation_p.G337R|RPH3A_uc001tty.2_Missense_Mutation_p.G333R|RPH3A_uc009zwe.1_Missense_Mutation_p.G333R|RPH3A_uc010sym.1_Missense_Mutation_p.G288R|RPH3A_uc001tua.2_Missense_Mutation_p.G97R	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	337	Pro-rich.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		AGGGGGAGTCGGGGGCTACCC	0.652													7	27	---	---	---	---	PASS	A	113314509	A	A	113314509	3	1	81	1	0	0	0	0	1	0	0	0	13551	1116	39	1	1051	1	RPH3A	12	113314509	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3478949	113314509	20537386	562	31214										
TBX5	6910	broad.mit.edu	37	chr12	114836486	114836486	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagtctgggtgcacgtacagGcggccaggcatggcgggctc	18	11	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:114836486G>T	uc001tvo.2	-	5	897	c.402C>A	c.(400-402)CGC>CGA	p.R134R	TBX5_uc001tvp.2_Silent_p.R134R|TBX5_uc001tvq.2_Silent_p.R84R|TBX5_uc010syv.1_Silent_p.R134R	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	134	T-box.				cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		GCACGTACAGGCGGCCAGGCA	0.617													6	15	---	---	---	---	PASS	T	114836486	T	T	114836486	2	4	81	1	0	0	0	0	0	0	0	1	15658	1190	42	3		3	TBX5	12	114836486	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1521977	114836486	19015409	563	31215										
NOS1	4842	broad.mit.edu	37	chr12	117726024	117726024	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtactcagtgcatcccgtttCctggaagatcaagagatttg	10	9	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:117726024C>T	uc001twm.1	-	5	1668	c.982G>A	c.(982-984)GAA>AAA	p.E328K		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	328					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CATCCCGTTTCCTGGAAGATC	0.507													21	54	---	---	---	---	PASS	T	117726024	T	T	117726024	3	4	81	1	0	0	0	0	1	0	0	0	10541	869	30	2	3422	2	NOS1	12	117726024	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2889538	117726024	16125871	564	31216										
ORAI1	84876	broad.mit.edu	37	chr12	122079195	122079195	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttctccaccgtcatcggcacGctgctcttcctagctgaggt	9	15	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:122079195G>A	uc010szz.1	+	3	745	c.552G>A	c.(550-552)ACG>ACA	p.T184T		NM_032790	NP_116179	Q96D31	CRCM1_HUMAN	calcium release-activated calcium channel	184	Helical; (Potential).				platelet activation|positive regulation of calcium ion transport	integral to plasma membrane	protein binding|store-operated calcium channel activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000415)|Epithelial(86;0.00148)		TCATCGGCACGCTGCTCTTCC	0.632													7	41	---	---	---	---	PASS	A	122079195	A	A	122079195	2	1	81	1	0	0	0	0	0	0	0	1	11257	1074	38	1		1	ORAI1	12	122079195	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	4353171	122079195	11772700	565	31217										
CLIP1	6249	broad.mit.edu	37	chr12	122862333	122862333	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catctaaaacaattccagccCactggcctggtgcaaactgg	8	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:122862333C>A	uc001ucg.1	-	2	366	c.260G>T	c.(259-261)TGG>TTG	p.W87L	CLIP1_uc001uch.1_Missense_Mutation_p.W87L|CLIP1_uc001uci.1_Missense_Mutation_p.W87L|CLIP1_uc010tae.1_Missense_Mutation_p.W87L	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	87	CAP-Gly 1.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		AATTCCAGCCCACTGGCCTGG	0.468													116	97	---	---	---	---	PASS	A	122862333	A	A	122862333	3	1	81	1	0	0	0	0	1	0	0	0	3532	595	21	3	4115	3	CLIP1	12	122862333	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	783138	122862333	10989562	566	31218										
MPHOSPH9	10198	broad.mit.edu	37	chr12	123687432	123687432	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttgtgtgtgagggatattttGgaaatccaggtaactgagaa	13	3	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:123687432G>A	uc001uel.2	-	6	1171	c.1064C>T	c.(1063-1065)CCA>CTA	p.P355L	MPHOSPH9_uc010tal.1_Intron|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Intron	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	355					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		GGGATATTTTGGAAATCCAGG	0.428													67	70	---	---	---	---	PASS	A	123687432	A	A	123687432	3	1	81	1	0	0	0	0	1	0	0	0	9728	1348	47	3	2091	3	MPHOSPH9	12	123687432	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	825099	123687432	10164463	567	31219										
MPHOSPH9	10198	broad.mit.edu	37	chr12	123687514	123687514	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	actagacatactaggctctaGaacagagtccggggaaaagg	12	8	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:123687514G>A	uc001uel.2	-	6	1089	c.982C>T	c.(982-984)CTA>TTA	p.L328L	MPHOSPH9_uc010tal.1_Intron|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Intron	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	328					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		CTAGGCTCTAGAACAGAGTCC	0.448													42	86	---	---	---	---	PASS	A	123687514	A	A	123687514	2	1	81	1	0	0	0	0	0	0	0	1	9728	933	33	2		2	MPHOSPH9	12	123687514	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	82	123687514	10164381	568	31220										
FZD10	11211	broad.mit.edu	37	chr12	130648664	130648664	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgggcagcatggacgtcaacGcgctcaccggcttcgtgctc	13	14	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:130648664G>T	uc001uii.2	+	1	1633	c.1177G>T	c.(1177-1179)GCG>TCG	p.A393S	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	393	Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		GGACGTCAACGCGCTCACCGG	0.657													37	30	---	---	---	---	PASS	T	130648664	T	T	130648664	3	4	81	1	0	0	0	0	1	0	0	0	6129	1087	38	1	1179	1	FZD10	12	130648664	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	6961150	130648664	3203231	569	31221										
RIMBP2	23504	broad.mit.edu	37	chr12	130892301	130892301	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acgttgggcgagctttctctGgggtcgtagtcatacagggc	15	9	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr12:130892301G>T	uc001uil.2	-	16	3059	c.2895C>A	c.(2893-2895)CCC>CCA	p.P965P		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	965	SH3 3.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		AGCTTTCTCTGGGGTCGTAGT	0.552													123	129	---	---	---	---	PASS	T	130892301	T	T	130892301	2	4	81	1	0	0	0	0	0	0	0	1	13363	1335	47	3		3	RIMBP2	12	130892301	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	243637	130892301	2959594	570	31222										
TPTE2	93492	broad.mit.edu	37	chr13	20024413	20024413	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	taaaacttactgtagagtggGgacattatgatcatcaatca	8	6	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr13:20024413G>T	uc001umd.2	-	13	1085	c.874C>A	c.(874-876)CCC>ACC	p.P292T	TPTE2_uc009zzk.2_RNA|TPTE2_uc009zzl.2_Missense_Mutation_p.P181T|TPTE2_uc001ume.2_Missense_Mutation_p.P215T|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	292	Phosphatase tensin-type.					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		TGTAGAGTGGGGACATTATGA	0.294													26	26	---	---	---	---	PASS	T	20024413	T	T	20024413	3	4	81	1	0	0	0	0	1	0	0	0	16428	1232	43	3	730	3	TPTE2	13	20024413	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08		20024413	95145465	571	31223										
RNF17	56163	broad.mit.edu	37	chr13	25448297	25448297	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgatggcttatggtatagagCgaagattgttgccattaaag	12	4	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr13:25448297C>A	uc001upr.2	+	33	4534	c.4493C>A	c.(4492-4494)GCG>GAG	p.A1498E	RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.A1494E|RNF17_uc001ups.2_Missense_Mutation_p.A1437E|RNF17_uc010aac.2_Missense_Mutation_p.A690E|RNF17_uc010aad.2_Missense_Mutation_p.A508E	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	1498	Tudor 4.				multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		TGGTATAGAGCGAAGATTGTT	0.299													20	20	---	---	---	---	PASS	A	25448297	A	A	25448297	3	1	81	1	0	0	0	0	1	0	0	0	13461	768	27	1	4623	1	RNF17	13	25448297	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5423884	25448297	89721581	572	31224										
STARD13	90627	broad.mit.edu	37	chr13	33704176	33704176	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggttgtctgtacagcactggCccggctggctgcgactgtcg	15	12	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr13:33704176C>A	uc001uuw.2	-	5	764	c.638G>T	c.(637-639)GGC>GTC	p.G213V	STARD13_uc001uuu.2_Missense_Mutation_p.G205V|STARD13_uc001uuv.2_Missense_Mutation_p.G95V|STARD13_uc001uux.2_Missense_Mutation_p.G178V|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Missense_Mutation_p.G198V	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	213					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		ACAGCACTGGCCCGGCTGGCT	0.637													14	9	---	---	---	---	PASS	A	33704176	A	A	33704176	3	1	81	1	0	0	0	0	1	0	0	0	15255	739	26	3	2743	3	STARD13	13	33704176	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	8255879	33704176	81465702	573	31225										
C13orf23	80209	broad.mit.edu	37	chr13	39597192	39597192	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ataagggaactccttacttgGtgcaatagttgcatgtggtc	11	7	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr13:39597192G>A	uc001uwy.2	-	8	1513	c.640C>T	c.(640-642)CCA>TCA	p.P214S	C13orf23_uc001uwz.2_Missense_Mutation_p.P192S	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	214	Pro-rich.									ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		TCCTTACTTGGTGCAATAGTT	0.368													30	12	---	---	---	---	PASS	A	39597192	A	A	39597192	3	1	81	1	0	0	0	0	1	0	0	0	1721	1261	44	3	2218	3	C13orf23	13	39597192	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5893016	39597192	75572686	574	31226										
C13orf18	80183	broad.mit.edu	37	chr13	46946479	46946479	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctttgtgcctcatgagcctGatgtctaattggcaaggagg	13	8	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr13:46946479G>C	uc010acl.2	-	3	737	c.132C>G	c.(130-132)ATC>ATG	p.I44M	C13orf18_uc001vbf.3_Intron|C13orf18_uc001vbg.3_Translation_Start_Site|C13orf18_uc010tfz.1_Intron|C13orf18_uc010acm.2_Intron|C13orf18_uc010acn.2_Intron|C13orf18_uc001vbe.3_Missense_Mutation_p.I44M|C13orf18_uc001vbh.3_Missense_Mutation_p.I44M|C13orf18_uc001vbi.3_Intron|C13orf18_uc010aco.1_Missense_Mutation_p.I44M|C13orf18_uc010tga.1_Intron	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	44											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		TCATGAGCCTGATGTCTAATT	0.552													11	3	---	---	---	---	PASS	C	46946479	C	C	46946479	3	2	81	1	0	0	0	0	1	0	0	0	1720	1280	45	2	1908	2	C13orf18	13	46946479	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	7349287	46946479	68223399	575	31227										
RCBTB1	55213	broad.mit.edu	37	chr13	50123776	50123776	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagagtgacaggctgcaatcTctaccaccctgaaaagtttt	8	11	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr13:50123776T>A	uc001vde.1	-	9	1124	c.863A>T	c.(862-864)GAG>GTG	p.E288V		NM_018191	NP_060661	Q8NDN9	RCBT1_HUMAN	regulator of chromosome condensation (RCC1) and	288	RCC1 5.				cell cycle|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(1)	1		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)		GGCTGCAATCTCTACCACCCT	0.517													21	8	---	---	---	---	PASS	A	50123776	A	A	50123776	3	1	81	1	0	0	0	0	1	0	0	0	13171	1551	54	5	752	5	RCBTB1	13	50123776	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	3177297	50123776	65046102	576	31228										
KLHL1	57626	broad.mit.edu	37	chr13	70370953	70370953	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aacattcaacagtgttcaatGtctttaagccatctcgacct	5	11	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr13:70370953G>T	uc001vip.2	-	7	2350	c.1556C>A	c.(1555-1557)ACA>AAA	p.T519K	KLHL1_uc010thm.1_Missense_Mutation_p.T458K	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	519	Kelch 2.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		AGTGTTCAATGTCTTTAAGCC	0.423													37	17	---	---	---	---	PASS	T	70370953	T	T	70370953	3	4	81	1	0	0	0	0	1	0	0	0	8365	1377	48	3	710	3	KLHL1	13	70370953	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	20247177	70370953	44798925	577	31229										
PIBF1	10464	broad.mit.edu	37	chr13	73428239	73428239	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgctgtggctgaaaaggaacGagcagtgatggctgaaaagg	16	5	0	3	rs141453174	by1000genomes	TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr13:73428239G>A	uc001vjc.2	+	10	1573	c.1268G>A	c.(1267-1269)CGA>CAA	p.R423Q	PIBF1_uc001vja.1_Missense_Mutation_p.R423Q|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Missense_Mutation_p.R423Q|PIBF1_uc010aep.2_Intron	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	423						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		GAAAAGGAACGAGCAGTGATG	0.343													13	23	---	---	---	---	PASS	A	73428239	A	A	73428239	3	1	81	1	0	0	0	0	1	0	0	0	11879	1058	37	2	1302	2	PIBF1	13	73428239	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3057286	73428239	41741639	578	31230										
ITGBL1	9358	broad.mit.edu	37	chr13	102366859	102366859	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctggggagttctgtgactgtGatgacagagactgcgacaaa	14	7	1	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr13:102366859G>A	uc001vpb.2	+	10	1570	c.1351G>A	c.(1351-1353)GAT>AAT	p.D451N	ITGBL1_uc010agb.2_Missense_Mutation_p.D402N|ITGBL1_uc001vpc.3_Missense_Mutation_p.D310N	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	451	IX.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CTGTGACTGTGATGACAGAGA	0.408													49	25	---	---	---	---	PASS	A	102366859	A	A	102366859	3	1	81	1	0	0	0	0	1	0	0	0	7902	1290	45	2	1389	2	ITGBL1	13	102366859	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	28938620	102366859	12803019	579	31231										
TPP2	7174	broad.mit.edu	37	chr13	103288052	103288052	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caaggacatggtattattcaGgtattgttgcctatatgaaa	9	5	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr13:103288052G>T	uc001vpi.3	+	12	1612	c.1509G>T	c.(1507-1509)CAG>CAT	p.Q503H		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	503					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GTATTATTCAGGTATTGTTGC	0.323													13	8	---	---	---	---	PASS	T	103288052	T	T	103288052	3	4	81	1	0	0	0	0	1	0	0	0	16409	1014	35	3	1555	3	TPP2	13	103288052	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	921193	103288052	11881826	580	31232										
ARHGEF7	8874	broad.mit.edu	37	chr13	111932896	111932896	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcctatagggagcatgattGagcggatattagtgtcgtgc	13	7	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr13:111932896G>T	uc001vrs.2	+	16	1910	c.1660G>T	c.(1660-1662)GAG>TAG	p.E554*	ARHGEF7_uc001vrr.2_Nonsense_Mutation_p.E533*|ARHGEF7_uc001vrt.2_Nonsense_Mutation_p.E504*|ARHGEF7_uc010tjn.1_RNA|ARHGEF7_uc001vru.1_Nonsense_Mutation_p.E376*|ARHGEF7_uc001vrv.3_Nonsense_Mutation_p.E376*|ARHGEF7_uc001vrw.3_Nonsense_Mutation_p.E376*|ARHGEF7_uc001vrx.3_Nonsense_Mutation_p.E376*|ARHGEF7_uc010tjo.1_Nonsense_Mutation_p.E451*|ARHGEF7_uc010tjp.1_Nonsense_Mutation_p.E298*|ARHGEF7_uc001vry.1_5'Flank	NM_001113511	NP_001106983	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform c	554	PH.				apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			GAGCATGATTGAGCGGATATT	0.512													33	55	---	---	---	---	PASS	T	111932896	T	T	111932896	4	4	81	1	0	0	0	0	0	1	0	0	911	1291	45	2	1722	2	ARHGEF7	13	111932896	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	8644844	111932896	3236982	581	31233										
GRK1	6011	broad.mit.edu	37	chr13	114325953	114325953	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcgacctcaagcccgagaacGtgctgctggacaatgacggt	13	12	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr13:114325953G>T	uc010tkf.1	+	3	1075	c.967G>T	c.(967-969)GTG>TTG	p.V323L		NM_002929	NP_002920	Q15835	RK_HUMAN	rhodopsin kinase precursor	323	Protein kinase.				regulation of G-protein coupled receptor protein signaling pathway|rhodopsin mediated phototransduction|rhodopsin mediated signaling pathway	membrane	ATP binding|G-protein coupled receptor kinase activity|rhodopsin kinase activity|signal transducer activity			ovary(2)	2	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.00696)|all_epithelial(44;0.00347)|all_lung(25;0.0221)|Breast(118;0.0411)|Lung NSC(25;0.0839)	all cancers(43;0.234)			GCCCGAGAACGTGCTGCTGGA	0.473													4	8	---	---	---	---	PASS	T	114325953	T	T	114325953	3	4	81	1	0	0	0	0	1	0	0	0	6790	1145	40	1	977	1	GRK1	13	114325953	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2393057	114325953	843925	582	31234										
OSGEP	55644	broad.mit.edu	37	chr14	20916116	20916116	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agccacaatgtgccatggctCgctctgtgatctctaccagc	9	14	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:20916116C>T	uc001vxf.2	-	8	1096	c.740G>A	c.(739-741)CGA>CAA	p.R247Q		NM_017807	NP_060277	Q9NPF4	OSGEP_HUMAN	O-sialoglycoprotein endopeptidase	247					proteolysis|tRNA processing		metal ion binding|metalloendopeptidase activity|protein binding				0	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;1.09e-07)|all cancers(55;1.19e-06)	GBM - Glioblastoma multiforme(265;0.0231)|READ - Rectum adenocarcinoma(17;0.196)		TGCCATGGCTCGCTCTGTGAT	0.458													11	32	---	---	---	---	PASS	T	20916116	T	T	20916116	3	4	81	1	0	0	0	0	1	0	0	0	11287	884	31	2	283	2	OSGEP	14	20916116	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08		20916116	86433424	583	31235										
RNASE2	6036	broad.mit.edu	37	chr14	21424307	21424307	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tatttcaaactgcaggtatgCgcagacaccagcaaacatgt	8	10	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:21424307C>A	uc010aif.2	+	2	446	c.377C>A	c.(376-378)GCG>GAG	p.A126E	RNASE2_uc001vyl.1_Missense_Mutation_p.A126E	NM_002934	NP_002925	P10153	RNAS2_HUMAN	ribonuclease, RNase A family, 2 (liver,	126					chemotaxis|RNA catabolic process	extracellular region|lysosome	nucleic acid binding|pancreatic ribonuclease activity			ovary(1)	1	all_cancers(95;0.00381)		OV - Ovarian serous cystadenocarcinoma(11;6.3e-09)|Epithelial(56;1.42e-07)|all cancers(55;5.48e-07)	GBM - Glioblastoma multiforme(265;0.0187)		TGCAGGTATGCGCAGACACCA	0.458													44	14	---	---	---	---	PASS	A	21424307	A	A	21424307	3	1	81	1	0	0	0	0	1	0	0	0	13404	768	27	1	379	1	RNASE2	14	21424307	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	508191	21424307	85925233	584	31236										
RNF31	55072	broad.mit.edu	37	chr14	24624472	24624472	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cacagacatggtgtgccctgCctgtggccgccccgacctca	11	17	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:24624472C>T	uc001wmn.1	+	12	2486	c.2237C>T	c.(2236-2238)GCC>GTC	p.A746V	RNF31_uc001wml.1_Missense_Mutation_p.A595V|RNF31_uc001wmm.1_RNA|RNF31_uc010alg.1_Missense_Mutation_p.A505V|RNF31_uc001wmo.1_Missense_Mutation_p.A213V|RNF31_uc001wmp.2_RNA|RNF31_uc010alh.1_5'Flank	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	746	RING-type; degenerate.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		GTGTGCCCTGCCTGTGGCCGC	0.582													35	25	---	---	---	---	PASS	T	24624472	T	T	24624472	3	4	81	1	0	0	0	0	1	0	0	0	13487	739	26	3	2283	3	RNF31	14	24624472	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3200165	24624472	82725068	585	31237										
AKAP6	9472	broad.mit.edu	37	chr14	33292105	33292105	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagaacttagcagcagtgacGagctctctctttgctcagag	10	11	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:33292105G>T	uc001wrq.2	+	13	5256	c.5086G>T	c.(5086-5088)GAG>TAG	p.E1696*		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1696	Ser-rich.				protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CAGCAGTGACGAGCTCTCTCT	0.458													19	47	---	---	---	---	PASS	T	33292105	T	T	33292105	4	4	81	1	0	0	0	0	0	1	0	0	455	1059	37	2	5132	2	AKAP6	14	33292105	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	8667633	33292105	74057435	586	31238										
RALGAPA1	253959	broad.mit.edu	37	chr14	36039857	36039857	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggaatcagagatttcagagCacggcttgcatttatagctg	11	7	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:36039857C>T	uc001wti.2	-	38	6335	c.5944G>A	c.(5944-5946)GCT>ACT	p.A1982T	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Missense_Mutation_p.A1982T|RALGAPA1_uc010tpv.1_Missense_Mutation_p.A1995T|RALGAPA1_uc010tpw.1_Missense_Mutation_p.A2029T	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1982	Minimal domain that binds to TCF3/E12 (By similarity).|Rap-GAP.				activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						GATTTCAGAGCACGGCTTGCA	0.368													8	28	---	---	---	---	PASS	T	36039857	T	T	36039857	3	4	81	1	0	0	0	0	1	0	0	0	13013	710	25	3	331	3	RALGAPA1	14	36039857	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2747752	36039857	71309683	587	31239										
MIPOL1	145282	broad.mit.edu	37	chr14	37969326	37969326	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agagaggcctcccaagtggcCaatgaaaaagttcaaaagta	10	8	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:37969326C>A	uc001wuc.2	+	13	1748	c.1245C>A	c.(1243-1245)GCC>GCA	p.A415A	MIPOL1_uc010amr.2_RNA|MIPOL1_uc001wub.3_Silent_p.A384A|MIPOL1_uc001wud.2_Silent_p.A415A|MIPOL1_uc010ams.2_Silent_p.A415A|MIPOL1_uc001wue.2_Silent_p.A384A|MIPOL1_uc010amt.2_Silent_p.A234A	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	415	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		CCCAAGTGGCCAATGAAAAAG	0.363													19	30	---	---	---	---	PASS	A	37969326	A	A	37969326	2	1	81	1	0	0	0	0	0	0	0	1	9593	581	21	3		3	MIPOL1	14	37969326	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1929469	37969326	69380214	588	31240										
CLEC14A	161198	broad.mit.edu	37	chr14	38723962	38723962	+	Frame_Shift_Del	DEL	C	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gggctttcgtgaaagcagagCttgacaagccccagtactgt							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:38723962delC	uc001wum.1	-	1	1613	c.1266delG	c.(1264-1266)AAGfs	p.K422fs		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	422	Cytoplasmic (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)		GAAAGCAGAGCTTGACAAGCC	0.562													29	22	---	---	---	---		-	38723962	-	-	38723962	7	5	81	1	0	1	0	1	0	0	0	0	3499	796	28	0	210	0	CLEC14A	14	38723962	Frame_Shift_Del	DEL	C	TCGA-37-5819-01A-01D-1632-08	754636	38723962	68625578	589	31241										
MDGA2	161357	broad.mit.edu	37	chr14	47351344	47351344	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctggtttaattagctctgtCaagttatatgtaattaattc	6	5	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:47351344C>A	uc001wwj.3	-	11	2308	c.2112G>T	c.(2110-2112)TTG>TTT	p.L704F	MDGA2_uc001wwh.3_5'UTR|MDGA2_uc001wwi.3_Missense_Mutation_p.L475F|MDGA2_uc010ani.2_Missense_Mutation_p.L264F	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	704					spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						TTAGCTCTGTCAAGTTATATG	0.373													12	18	---	---	---	---	PASS	A	47351344	A	A	47351344	3	1	81	1	0	0	0	0	1	0	0	0	9407	825	29	2	786	2	MDGA2	14	47351344	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	8627382	47351344	59998196	590	31242										
MDGA2	161357	broad.mit.edu	37	chr14	47426788	47426788	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agtactctgcaactcatagtGacacttcgatcctgtccttg	7	12	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:47426788G>T	uc001wwj.3	-	9	1867	c.1671C>A	c.(1669-1671)GTC>GTA	p.V557V	MDGA2_uc001wwi.3_Silent_p.V328V|MDGA2_uc010ani.2_Silent_p.V117V	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	557	Ig-like 6.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						AACTCATAGTGACACTTCGAT	0.458													19	47	---	---	---	---	PASS	T	47426788	T	T	47426788	2	4	81	1	0	0	0	0	0	0	0	1	9407	1277	45	2		2	MDGA2	14	47426788	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	75444	47426788	59922752	591	31243										
SOS2	6655	broad.mit.edu	37	chr14	50597419	50597419	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtaaagtacctgaggtagagCcatgtcggcctgtgttaggc	14	8	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:50597419C>T	uc001wxs.3	-	20	3235	c.3137G>A	c.(3136-3138)GGC>GAC	p.G1046D	SOS2_uc010ans.2_5'UTR|SOS2_uc010tql.1_Missense_Mutation_p.G1013D	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	1046					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TGAGGTAGAGCCATGTCGGCC	0.398													28	41	---	---	---	---	PASS	T	50597419	T	T	50597419	3	4	81	1	0	0	0	0	1	0	0	0	14937	739	26	3	877	3	SOS2	14	50597419	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3170631	50597419	56752121	592	31244										
PYGL	5836	broad.mit.edu	37	chr14	51398395	51398395	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aagatggctcacacacctgcCatccatctcggatcttctga	7	14	4	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:51398395C>A	uc001wyu.2	-	4	651	c.524G>T	c.(523-525)TGG>TTG	p.W175L	PYGL_uc010tqq.1_Missense_Mutation_p.W141L|PYGL_uc001wyv.2_5'UTR|PYGL_uc001wyw.3_Missense_Mutation_p.W175L	NM_002863	NP_002854	P06737	PYGL_HUMAN	liver glycogen phosphorylase isoform 1	175					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding			skin(1)	1	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	ACACACCTGCCATCCATCTCG	0.423													16	44	---	---	---	---	PASS	A	51398395	A	A	51398395	3	1	81	1	0	0	0	0	1	0	0	0	12861	595	21	3	2087	3	PYGL	14	51398395	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	800976	51398395	55951145	593	31245										
PELI2	57161	broad.mit.edu	37	chr14	56763638	56763638	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agggagtgtcccatgtgcagGactgtgggcccctatgtgcc	15	11	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:56763638G>T	uc001xch.2	+	6	1303	c.1017G>T	c.(1015-1017)AGG>AGT	p.R339S		NM_021255	NP_067078	Q9HAT8	PELI2_HUMAN	pellino 2	339					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1						CCATGTGCAGGACTGTGGGCC	0.592													35	41	---	---	---	---	PASS	T	56763638	T	T	56763638	3	4	81	1	0	0	0	0	1	0	0	0	11722	1165	41	2	1039	2	PELI2	14	56763638	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5365243	56763638	50585902	594	31246										
DACT1	51339	broad.mit.edu	37	chr14	59112968	59112968	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgccttggatttcaagagcGagggctcttcccaaagcctg	11	12	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:59112968G>T	uc001xdw.2	+	4	1791	c.1627G>T	c.(1627-1629)GAG>TAG	p.E543*	DACT1_uc010trv.1_Nonsense_Mutation_p.E262*|DACT1_uc001xdx.2_Nonsense_Mutation_p.E506*|DACT1_uc010trw.1_Nonsense_Mutation_p.E262*	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	543					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						TTTCAAGAGCGAGGGCTCTTC	0.627													37	34	---	---	---	---	PASS	T	59112968	T	T	59112968	4	4	81	1	0	0	0	0	0	1	0	0	4222	1059	37	2	1641	2	DACT1	14	59112968	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2349330	59112968	48236572	595	31247										
DACT1	51339	broad.mit.edu	37	chr14	59113532	59113532	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccgagtactcggccgagtgcGagtccctgttccactccacc	10	17	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:59113532G>T	uc001xdw.2	+	4	2355	c.2191G>T	c.(2191-2193)GAG>TAG	p.E731*	DACT1_uc010trv.1_Nonsense_Mutation_p.E450*|DACT1_uc001xdx.2_Nonsense_Mutation_p.E694*|DACT1_uc010trw.1_Nonsense_Mutation_p.E450*	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	731					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						GGCCGAGTGCGAGTCCCTGTT	0.647													21	40	---	---	---	---	PASS	T	59113532	T	T	59113532	4	4	81	1	0	0	0	0	0	1	0	0	4222	1059	37	2	2205	2	DACT1	14	59113532	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	564	59113532	48236008	596	31248										
KIAA0317	9870	broad.mit.edu	37	chr14	75134184	75134184	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaccttttaggaaatgttcCacctcctctttcacttgact	4	14	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:75134184C>A	uc001xqb.2	-	16	2533	c.2028G>T	c.(2026-2028)GTG>GTT	p.V676V	KIAA0317_uc010tut.1_Silent_p.V515V	NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870	676	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		GGAAATGTTCCACCTCCTCTT	0.428													30	17	---	---	---	---	PASS	A	75134184	A	A	75134184	2	1	81	1	0	0	0	0	0	0	0	1	8167	581	21	3		3	KIAA0317	14	75134184	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	16020652	75134184	32215356	597	31249										
FCF1	51077	broad.mit.edu	37	chr14	75181615	75181615	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aacctaaaaagaaagaaaagAaggatcccagcgcattaaag	8	7	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:75181615A>G	uc001xqh.2	+	3	163	c.112A>G	c.(112-114)AAG>GAG	p.K38E	KIAA0317_uc001xqb.2_5'Flank|KIAA0317_uc010tut.1_5'Flank|KIAA0317_uc001xqc.2_5'Flank|KIAA0317_uc001xqd.1_5'Flank|FCF1_uc001xqe.1_RNA|FCF1_uc001xqf.1_Missense_Mutation_p.K23E|FCF1_uc001xqg.2_RNA|FCF1_uc001xqi.2_RNA	NM_015962	NP_057046	Q9Y324	FCF1_HUMAN	FCF1 small subunit	38					rRNA processing	nucleolus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0037)		GAAAGAAAAGAAGGATCCCAG	0.338													6	8	---	---	---	---	PASS	G	75181615	G	G	75181615	3	3	81	1	0	0	0	0	1	0	0	0	5777	247	9	5	122	5	FCF1	14	75181615	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	47431	75181615	32167925	598	31250										
YLPM1	56252	broad.mit.edu	37	chr14	75265978	75265978	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaatcacagtttcgtgaacgGgatattccatctcttccacc	7	12	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:75265978G>T	uc001xqj.3	+	5	4102	c.3978G>T	c.(3976-3978)CGG>CGT	p.R1326R	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1131	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		TTCGTGAACGGGATATTCCAT	0.438													25	41	---	---	---	---	PASS	T	75265978	T	T	75265978	2	4	81	1	0	0	0	0	0	0	0	1	17483	1219	43	3		3	YLPM1	14	75265978	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	84363	75265978	32083562	599	31251										
YLPM1	56252	broad.mit.edu	37	chr14	75284933	75284933	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	accatctgaatttttcaataGatggctgatcactgggaaac	8	8	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:75284933G>A	uc001xqj.3	+	16	6071	c.5947_splice	c.e16-1	p.M1983_splice	YLPM1_uc001xql.3_Splice_Site|YLPM1_uc001xqm.1_Splice_Site_p.M466_splice	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		TTTTTCAATAGATGGCTGATC	0.358													11	6	---	---	---	---	PASS	A	75284933	A	A	75284933	5	1	81	1	0	0	0	0	0	0	1	0	17483	956	33	2	6008	2	YLPM1	14	75284933	Splice_Site	SNP	G	TCGA-37-5819-01A-01D-1632-08	18955	75284933	32064607	600	31252										
GSTZ1	2954	broad.mit.edu	37	chr14	77791264	77791264	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctcatggagagttcgaattGgtaagagatgtgcctcctcc	12	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:77791264G>T	uc001xtj.2	+	2	349	c.67G>T	c.(67-69)GCT>TCT	p.A23S	GSTZ1_uc001xtk.2_Missense_Mutation_p.A23S|GSTZ1_uc010ass.2_5'UTR|GSTZ1_uc001xtm.2_5'UTR	NM_145870	NP_665877	O43708	MAAI_HUMAN	glutathione transferase zeta 1 isoform 1	23	GST N-terminal.				glutathione metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol|mitochondrion	glutathione peroxidase activity|glutathione transferase activity|maleylacetoacetate isomerase activity|protein homodimerization activity				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)	Glutathione(DB00143)	AGTTCGAATTGGTAAGAGATG	0.572													29	24	---	---	---	---	PASS	T	77791264	T	T	77791264	3	4	81	1	0	0	0	0	1	0	0	0	6848	1362	47	3	73	3	GSTZ1	14	77791264	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2506331	77791264	29558276	601	31253										
NRXN3	9369	broad.mit.edu	37	chr14	79270147	79270147	+	Frame_Shift_Del	DEL	C	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagctggatggggggcgtgtCaagctcatggttaacttagg							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:79270147delC	uc001xun.2	+	6	1601	c.1110delC	c.(1108-1110)GTCfs	p.V370fs	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Frame_Shift_Del_p.V504fs	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	743	Laminin G-like 4.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GGGGGCGTGTCAAGCTCATGG	0.522													32	31	---	---	---	---		-	79270147	-	-	79270147	7	5	81	1	0	1	0	1	0	0	0	0	10667	813	29	0	1124	0	NRXN3	14	79270147	Frame_Shift_Del	DEL	C	TCGA-37-5819-01A-01D-1632-08	1478883	79270147	28079393	602	31254										
C14orf145	145508	broad.mit.edu	37	chr14	81227834	81227834	+	Frame_Shift_Del	DEL	C	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttacaagctgcatcaatttCctttcctatcacaccaagaa							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:81227834delC	uc001xux.2	-	16	2671	c.2500delG	c.(2500-2502)GAAfs	p.E834fs	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	834						centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		GCATCAATTTCCTTTCCTATC	0.393													91	43	---	---	---	---		-	81227834	-	-	81227834	7	5	81	1	0	1	0	1	0	0	0	0	1749	864	30	0	820	0	C14orf145	14	81227834	Frame_Shift_Del	DEL	C	TCGA-37-5819-01A-01D-1632-08	1957687	81227834	26121706	603	31255										
C14orf145	145508	broad.mit.edu	37	chr14	81251450	81251450	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	attttgcctgtgcagtgaggTcagaaaggtccttaagcact	11	8	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:81251450T>A	uc001xux.2	-	14	2171	c.2000A>T	c.(1999-2001)GAC>GTC	p.D667V	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	667	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TGCAGTGAGGTCAGAAAGGTC	0.478													50	85	---	---	---	---	PASS	A	81251450	A	A	81251450	3	1	81	1	0	0	0	0	1	0	0	0	1749	1667	58	5	1328	5	C14orf145	14	81251450	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	23616	81251450	26098090	604	31256										
TRIP11	9321	broad.mit.edu	37	chr14	92470935	92470935	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tttgataagagctgcttcctTggcagcaacaatatccatca	7	10	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:92470935T>C	uc001xzy.2	-	11	4173	c.3385A>G	c.(3385-3387)AAG>GAG	p.K1129E	TRIP11_uc010auf.1_Missense_Mutation_p.K865E	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	1129	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		GCTGCTTCCTTGGCAGCAACA	0.328			T	PDGFRB	AML								21	24	---	---	---	---	PASS	C	92470935	C	C	92470935	3	2	81	1	0	0	0	0	1	0	0	0	16552	1821	63	5	2598	5	TRIP11	14	92470935	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	11219485	92470935	14878605	605	31257										
ITPK1	3705	broad.mit.edu	37	chr14	93483148	93483148	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcggccggctaaggttcagcTgtgaggcagggaacacagac	15	10	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:93483148T>A	uc001ybg.2	-	4	410	c.121_splice	c.e4-1	p.L41_splice	ITPK1_uc001ybe.2_Splice_Site_p.L41_splice|ITPK1_uc001ybf.2_Splice_Site|ITPK1_uc001ybh.2_Splice_Site_p.L41_splice	NM_014216	NP_055031	Q13572	ITPK1_HUMAN	inositol 1,3,4-triphosphate 5/6 kinase isoform						blood coagulation|inositol trisphosphate metabolic process|signal transduction	cytosol	ATP binding|hydrolase activity|inositol tetrakisphosphate 1-kinase activity|inositol-1,3,4-trisphosphate 5/6-kinase activity|isomerase activity|ligase activity|magnesium ion binding				0		all_cancers(154;0.077)|all_epithelial(191;0.247)		Epithelial(152;0.124)|all cancers(159;0.169)		AAGGTTCAGCTGTGAGGCAGG	0.577													12	36	---	---	---	---	PASS	A	93483148	A	A	93483148	5	1	81	1	0	0	0	0	0	0	1	0	7916	1594	55	5	1205	5	ITPK1	14	93483148	Splice_Site	SNP	T	TCGA-37-5819-01A-01D-1632-08	1012213	93483148	13866392	606	31258										
PRIMA1	145270	broad.mit.edu	37	chr14	94245617	94245617	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agacgtgtcggcagctgtcaGtcactttggagcaggacttc	13	10	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:94245617G>T	uc001ybw.1	-	3	176	c.134C>A	c.(133-135)ACT>AAT	p.T45N	PRIMA1_uc001ybx.1_RNA	NM_178013	NP_821092	Q86XR5	PRIMA_HUMAN	proline rich membrane anchor 1 precursor	45	Extracellular (Potential).				neurotransmitter catabolic process	cell junction|integral to membrane|synapse				large_intestine(1)|skin(1)	2		all_cancers(154;0.127)		Epithelial(152;0.138)|COAD - Colon adenocarcinoma(157;0.229)		GCAGCTGTCAGTCACTTTGGA	0.368													11	8	---	---	---	---	PASS	T	94245617	T	T	94245617	3	4	81	1	0	0	0	0	1	0	0	0	12492	1029	36	3	339	3	PRIMA1	14	94245617	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	762469	94245617	13103923	607	31259										
SERPINA6	866	broad.mit.edu	37	chr14	94780383	94780383	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtgggaatacctttgaagaaGatatagttgaccaggacgag	13	5	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:94780383G>T	uc001ycv.2	-	2	707	c.603C>A	c.(601-603)ATC>ATA	p.I201I	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	201					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	CTTTGAAGAAGATATAGTTGA	0.488													27	37	---	---	---	---	PASS	T	94780383	T	T	94780383	2	4	81	1	0	0	0	0	0	0	0	1	14093	932	33	2		2	SERPINA6	14	94780383	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	534766	94780383	12569157	608	31260										
SERPINA12	145264	broad.mit.edu	37	chr14	94962827	94962827	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgtgatatttttctggtagGgtatttccaggatggtgcaa	12	5	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:94962827G>T	uc001ydj.2	-	4	1584	c.788C>A	c.(787-789)CCC>CAC	p.P263H		NM_173850	NP_776249	Q8IW75	SPA12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	263					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			central_nervous_system(2)|ovary(1)|lung(1)	4				COAD - Colon adenocarcinoma(157;0.235)		TTTCTGGTAGGGTATTTCCAG	0.468													47	60	---	---	---	---	PASS	T	94962827	T	T	94962827	3	4	81	1	0	0	0	0	1	0	0	0	14089	1232	43	3	468	3	SERPINA12	14	94962827	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	182444	94962827	12386713	609	31261										
BDKRB1	623	broad.mit.edu	37	chr14	96730602	96730602	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctgcatcctgctcctccccCatgaggcctggcactttgca	8	18	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:96730602C>A	uc001yfh.2	+	3	791	c.583C>A	c.(583-585)CAT>AAT	p.H195N	BDKRB1_uc010avn.2_Missense_Mutation_p.H195N	NM_000710	NP_000701	P46663	BKRB1_HUMAN	bradykinin receptor B1	195	Extracellular (Potential).				elevation of cytosolic calcium ion concentration	endoplasmic reticulum|integral to plasma membrane	bradykinin receptor activity			ovary(3)	3		all_cancers(154;0.0677)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.208)|Epithelial(152;0.226)		GCTCCTCCCCCATGAGGCCTG	0.562													25	50	---	---	---	---	PASS	A	96730602	A	A	96730602	3	1	81	1	0	0	0	0	1	0	0	0	1392	594	21	3	585	3	BDKRB1	14	96730602	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1767775	96730602	10618938	610	31262										
DYNC1H1	1778	broad.mit.edu	37	chr14	102505346	102505346	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tattcatttaaggggaatttCagctccgtttgcgtcagctg	10	8	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:102505346C>T	uc001yks.2	+	60	11379	c.11215C>T	c.(11215-11217)CAG>TAG	p.Q3739*		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3739	Potential.|AAA 5 (By similarity).				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						AGGGGAATTTCAGCTCCGTTT	0.433													13	66	---	---	---	---	PASS	T	102505346	T	T	102505346	4	4	81	1	0	0	0	0	0	1	0	0	4841	827	29	2	11453	2	DYNC1H1	14	102505346	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5774744	102505346	4844194	611	31263										
KLC1	3831	broad.mit.edu	37	chr14	104145867	104145867	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggggaggaagtgagtatgagCgtagagtggaacggggtaag	21	2	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:104145867C>A	uc001yno.2	+	13	1943	c.1635C>A	c.(1633-1635)AGC>AGA	p.S545R	KLC1_uc010tyd.1_Missense_Mutation_p.S704R|KLC1_uc010tye.1_Intron|KLC1_uc001ynm.1_Missense_Mutation_p.S545R|KLC1_uc001ynn.1_Intron|KLC1_uc010tyf.1_Missense_Mutation_p.S545R|KLC1_uc001ynp.1_RNA|KLC1_uc001ynr.1_Missense_Mutation_p.S55R|KLC1_uc010awu.1_Intron|KLC1_uc001ynq.1_Intron|KLC1_uc001yns.2_Intron	NM_182923	NP_891553	Q07866	KLC1_HUMAN	kinesin light chain 1 isoform 2	545					blood coagulation|microtubule-based movement|stress granule disassembly	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0		Melanoma(154;0.155)|all_epithelial(191;0.19)				TGAGTATGAGCGTAGAGTGGA	0.612													9	34	---	---	---	---	PASS	A	104145867	A	A	104145867	3	1	81	1	0	0	0	0	1	0	0	0	8333	767	27	1	1681	1	KLC1	14	104145867	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1640521	104145867	3203673	612	31264										
NUDT14	256281	broad.mit.edu	37	chr14	105642975	105642975	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agcgagagcccaggctggtcCacgaggccggcacacagctc	14	15	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr14:105642975C>A	uc010tyn.1	-	4	438	c.324G>T	c.(322-324)GTG>GTT	p.V108V	NUDT14_uc001yqi.2_RNA	NM_177533	NP_803877	O95848	NUD14_HUMAN	nudix-type motif 14	108	Nudix hydrolase.					cytoplasm	metal ion binding|protein binding|UDP-sugar diphosphatase activity			skin(1)	1		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		CAGGCTGGTCCACGAGGCCGG	0.672										HNSCC(42;0.11)			18	37	---	---	---	---	PASS	A	105642975	A	A	105642975	2	1	81	1	0	0	0	0	0	0	0	1	10730	581	21	3		3	NUDT14	14	105642975	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1497108	105642975	1706565	613	31265										
HERC2	8924	broad.mit.edu	37	chr15	28491925	28491925	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acaatgtaagccacctccgcGaagtgccgccagctggtaga	11	13	0	1	rs112980995	byFrequency	TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:28491925G>A	uc001zbj.2	-	22	3460	c.3354C>T	c.(3352-3354)TTC>TTT	p.F1118F		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1118					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CCACCTCCGCGAAGTGCCGCC	0.488													15	7	---	---	---	---	PASS	A	28491925	A	A	28491925	2	1	81	1	0	0	0	0	0	0	0	1	7058	1049	37	2		2	HERC2	15	28491925	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08		28491925	74039467	614	31266										
RYR3	6263	broad.mit.edu	37	chr15	33925290	33925290	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agacagaataaaacaaggatGgacctatggcatccaacagg	10	8	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:33925290G>T	uc001zhi.2	+	24	3078	c.3008G>T	c.(3007-3009)TGG>TTG	p.W1003L	RYR3_uc010bar.2_Missense_Mutation_p.W1003L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1003	2.|4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AAACAAGGATGGACCTATGGC	0.413													14	8	---	---	---	---	PASS	T	33925290	T	T	33925290	3	4	81	1	0	0	0	0	1	0	0	0	13770	1357	47	3	3102	3	RYR3	15	33925290	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5433365	33925290	68606102	615	31267										
RYR3	6263	broad.mit.edu	37	chr15	33999221	33999221	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccattgaaggggaacgctaCctgtccttcctgaggtttgc	11	12	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:33999221C>A	uc001zhi.2	+	43	6655	c.6585C>A	c.(6583-6585)TAC>TAA	p.Y2195*	RYR3_uc010bar.2_Nonsense_Mutation_p.Y2195*	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2195	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGGAACGCTACCTGTCCTTCC	0.517													10	4	---	---	---	---	PASS	A	33999221	A	A	33999221	4	1	81	1	0	0	0	0	0	1	0	0	13770	518	18	3	6755	3	RYR3	15	33999221	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	73931	33999221	68532171	616	31268										
GPR176	11245	broad.mit.edu	37	chr15	40099429	40099429	+	Missense_Mutation	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagatttgaacacggttgtgCggcaagttgaccataacacc							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:40099429C>A	uc001zkj.1	-	2	1069	c.203G>T	c.(202-204)CGC>CTC	p.R68L	GPR176_uc010uck.1_Missense_Mutation_p.R8L	NM_007223	NP_009154	Q14439	GP176_HUMAN	G protein-coupled receptor 176	68	Cytoplasmic (Potential).			GNFMVLWSTCRTTVFKSVTN -> EFGNMEVTRKLDKSRLP GI (in Ref. 2).	synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		all_cancers(109;4.05e-15)|all_epithelial(112;2.96e-13)|Lung NSC(122;8.53e-11)|all_lung(180;2.71e-09)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;4.4e-06)|BRCA - Breast invasive adenocarcinoma(123;0.123)		CACGGTTGTGCGGCAAGTTGA	0.393													24	7	---	---	---	---	PASS	A	40099429	A	A	40099429	3	1	81	1	0	0	0	0	1	0	0	0	6673	768	27	1	1352	1	GPR176	15	40099429	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	6100208	40099429	62431963	617	31269	621	2								
GPR176	11245	broad.mit.edu	37	chr15	40099430	40099430	+	Missense_Mutation	SNP	G	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agatttgaacacggttgtgcGgcaagttgaccataacacca							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:40099430G>A	uc001zkj.1	-	2	1068	c.202C>T	c.(202-204)CGC>TGC	p.R68C	GPR176_uc010uck.1_Missense_Mutation_p.R8C	NM_007223	NP_009154	Q14439	GP176_HUMAN	G protein-coupled receptor 176	68	Cytoplasmic (Potential).			GNFMVLWSTCRTTVFKSVTN -> EFGNMEVTRKLDKSRLP GI (in Ref. 2).	synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		all_cancers(109;4.05e-15)|all_epithelial(112;2.96e-13)|Lung NSC(122;8.53e-11)|all_lung(180;2.71e-09)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;4.4e-06)|BRCA - Breast invasive adenocarcinoma(123;0.123)		ACGGTTGTGCGGCAAGTTGAC	0.388													24	7	---	---	---	---	PASS	A	40099430	A	A	40099430	3	1	81	1	0	0	0	0	1	0	0	0	6673	1116	39	1	1353	1	GPR176	15	40099430	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1	40099430	62431962	618	31270	621	2								
FBN1	2200	broad.mit.edu	37	chr15	48714206	48714206	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acatttgcatgtgaagccgcCaatggtgttaacacatagga	10	8	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:48714206C>A	uc001zwx.1	-	61	7841	c.7513G>T	c.(7513-7515)GGC>TGC	p.G2505C	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2505	EGF-like 43; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GTGAAGCCGCCAATGGTGTTA	0.453													18	6	---	---	---	---	PASS	A	48714206	A	A	48714206	3	1	81	1	0	0	0	0	1	0	0	0	5702	594	21	3	1126	3	FBN1	15	48714206	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	8614776	48714206	53817186	619	31271										
WDR72	256764	broad.mit.edu	37	chr15	53998163	53998163	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttggatacaggaacatcagGgatgtgccacaaagtaattc	10	8	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:53998163G>T	uc002acj.2	-	10	1105	c.1063C>A	c.(1063-1065)CCT>ACT	p.P355T	WDR72_uc010bfi.1_Missense_Mutation_p.P355T	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	355	WD 4.									lung(1)|skin(1)	2				all cancers(107;0.0511)		GGAACATCAGGGATGTGCCAC	0.383													10	54	---	---	---	---	PASS	T	53998163	T	T	53998163	3	4	81	1	0	0	0	0	1	0	0	0	17319	1232	43	3	2289	3	WDR72	15	53998163	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5283957	53998163	48533229	620	31272										
RFX7	64864	broad.mit.edu	37	chr15	56387339	56387339	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggaaacagaaggctcaaactCcttcagttcagattgcagag	10	9	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:56387339C>A	uc010bfn.2	-	9	2587	c.2587G>T	c.(2587-2589)GAG>TAG	p.E863*	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Nonsense_Mutation_p.E677*	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	766					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						GGCTCAAACTCCTTCAGTTCA	0.398													11	38	---	---	---	---	PASS	A	56387339	A	A	56387339	4	1	81	1	0	0	0	0	0	1	0	0	13268	864	30	2	1799	2	RFX7	15	56387339	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2389176	56387339	46144053	621	31273										
CILP	8483	broad.mit.edu	37	chr15	65490241	65490241	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgtgatgacactgtcaaagcGgccccaggccctagggttgg	14	11	1	2	rs146342304		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:65490241G>T	uc002aon.2	-	9	2564	c.2383C>A	c.(2383-2385)CGC>AGC	p.R795S		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	795					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						CTGTCAAAGCGGCCCCAGGCC	0.572													45	13	---	---	---	---	PASS	T	65490241	T	T	65490241	3	4	81	1	0	0	0	0	1	0	0	0	3429	1116	39	1	1175	1	CILP	15	65490241	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	9102902	65490241	37041151	622	31274										
DPP8	54878	broad.mit.edu	37	chr15	65766574	65766574	+	Missense_Mutation	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccatgccggccaagaacttcCcattcaccactggtaattgc							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:65766574C>A	uc002aov.2	-	12	3135	c.1557G>T	c.(1555-1557)TGG>TGT	p.W519C	DPP8_uc002aow.2_Missense_Mutation_p.W519C|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.W503C|DPP8_uc002aoy.2_Missense_Mutation_p.W519C|DPP8_uc002aoz.2_Missense_Mutation_p.W503C|DPP8_uc010bhj.2_Missense_Mutation_p.W519C|DPP8_uc002apa.2_Missense_Mutation_p.W416C|DPP8_uc010bhk.1_Intron	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	519					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						CAAGAACTTCCCATTCACCAC	0.338													25	12	---	---	---	---	PASS	A	65766574	A	A	65766574	3	1	81	1	0	0	0	0	1	0	0	0	4732	624	22	3	1175	3	DPP8	15	65766574	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	276333	65766574	36764818	623	31275	622	2								
DPP8	54878	broad.mit.edu	37	chr15	65766575	65766575	+	Missense_Mutation	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catgccggccaagaacttccCattcaccactggtaattgct							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:65766575C>A	uc002aov.2	-	12	3134	c.1556G>T	c.(1555-1557)TGG>TTG	p.W519L	DPP8_uc002aow.2_Missense_Mutation_p.W519L|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.W503L|DPP8_uc002aoy.2_Missense_Mutation_p.W519L|DPP8_uc002aoz.2_Missense_Mutation_p.W503L|DPP8_uc010bhj.2_Missense_Mutation_p.W519L|DPP8_uc002apa.2_Missense_Mutation_p.W416L|DPP8_uc010bhk.1_Intron	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	519					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						AAGAACTTCCCATTCACCACT	0.343													25	11	---	---	---	---	PASS	A	65766575	A	A	65766575	3	1	81	1	0	0	0	0	1	0	0	0	4732	595	21	3	1176	3	DPP8	15	65766575	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1	65766575	36764817	624	31276	622	2								
MYO9A	4649	broad.mit.edu	37	chr15	72146721	72146721	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agagggcactatcttacctgTatctagaccctgccgaagct	9	12	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:72146721T>A	uc002atl.3	-	35	6816	c.6343A>T	c.(6343-6345)ACA>TCA	p.T2115S	MYO9A_uc002atj.2_Missense_Mutation_p.T28S|MYO9A_uc002atk.2_Missense_Mutation_p.T910S	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	2115	Phorbol-ester/DAG-type 2.|Tail.|Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						ATCTTACCTGTATCTAGACCC	0.338													74	28	---	---	---	---	PASS	A	72146721	A	A	72146721	3	1	81	1	0	0	0	0	1	0	0	0	10084	1638	57	5	1335	5	MYO9A	15	72146721	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	6380146	72146721	30384671	625	31277										
MYO9A	4649	broad.mit.edu	37	chr15	72252431	72252431	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atgatctgtatttttttcccGgaaatcctatatgaaaaaag	6	6	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:72252431G>A	uc002atl.3	-	14	2466	c.1993C>T	c.(1993-1995)CGG>TGG	p.R665W	MYO9A_uc010biq.2_Missense_Mutation_p.R260W|MYO9A_uc002ato.2_Missense_Mutation_p.R665W|MYO9A_uc002atn.1_Missense_Mutation_p.R646W	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	665	Myosin head-like 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						TTTTTTTCCCGGAAATCCTAT	0.323													15	24	---	---	---	---	PASS	A	72252431	A	A	72252431	3	1	81	1	0	0	0	0	1	0	0	0	10084	1115	39	1	5769	1	MYO9A	15	72252431	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	105710	72252431	30278961	626	31278										
STRA6	64220	broad.mit.edu	37	chr15	74476241	74476241	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggcactgaagctcatccaaCagaatatggcttggcgggag	13	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:74476241C>A	uc002axk.2	-	14	1438	c.1256G>T	c.(1255-1257)TGT>TTT	p.C419F	STRA6_uc002axi.2_Missense_Mutation_p.C228F|STRA6_uc010ulh.1_Missense_Mutation_p.C457F|STRA6_uc002axj.2_Missense_Mutation_p.C458F|STRA6_uc010bji.2_Missense_Mutation_p.C419F|STRA6_uc002axl.2_Missense_Mutation_p.C351F|STRA6_uc002axm.2_Missense_Mutation_p.C419F|STRA6_uc002axn.2_Missense_Mutation_p.C410F|STRA6_uc010uli.1_Missense_Mutation_p.C456F|STRA6_uc010bjj.1_RNA	NM_022369	NP_071764	Q9BX79	STRA6_HUMAN	stimulated by retinoic acid gene 6 homolog	419	Extracellular (Potential).				adrenal gland development|alveolar primary septum development|developmental growth|diaphragm development|digestive tract morphogenesis|ear development|embryonic camera-type eye formation|embryonic digestive tract development|eyelid development in camera-type eye|face morphogenesis|feeding behavior|female genitalia development|kidney development|lung vasculature development|neuromuscular process|nose morphogenesis|paramesonephric duct development|positive regulation of behavior|pulmonary artery morphogenesis|pulmonary valve morphogenesis|smooth muscle tissue development|transport|uterus morphogenesis|ventricular septum development|vocal learning	integral to membrane|plasma membrane|protein complex	receptor activity			central_nervous_system(1)	1						GCTCATCCAACAGAATATGGC	0.617													38	16	---	---	---	---	PASS	A	74476241	A	A	74476241	3	1	81	1	0	0	0	0	1	0	0	0	15321	478	17	3	771	3	STRA6	15	74476241	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2223810	74476241	28055151	627	31279										
CPLX3	594855	broad.mit.edu	37	chr15	75122513	75122513	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tccagatggcaggtggagacGtggagctgccccgggagctg	18	10	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:75122513G>T	uc002ayu.1	+	3	389	c.295G>T	c.(295-297)GTG>TTG	p.V99L		NM_001030005	NP_001025176	Q8WVH0	CPLX3_HUMAN	complexin 3 precursor	99						cell junction|synapse	syntaxin binding				0						AGGTGGAGACGTGGAGCTGCC	0.617													18	8	---	---	---	---	PASS	T	75122513	T	T	75122513	3	4	81	1	0	0	0	0	1	0	0	0	3806	1145	40	1	305	1	CPLX3	15	75122513	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	646272	75122513	27408879	628	31280										
SH3GL3	6457	broad.mit.edu	37	chr15	84245363	84245363	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaaaaagctggaaggccgccGcctggattacgattataaaa	11	8	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:84245363G>T	uc002bjw.2	+	6	689	c.494G>T	c.(493-495)CGC>CTC	p.R165L	SH3GL3_uc010uot.1_Missense_Mutation_p.R165L|SH3GL3_uc002bjx.2_Missense_Mutation_p.R96L|SH3GL3_uc002bju.2_Missense_Mutation_p.R173L|SH3GL3_uc002bjv.2_RNA	NM_003027	NP_003018	Q99963	SH3G3_HUMAN	SH3-domain GRB2-like 3	165	BAR.				central nervous system development|endocytosis|signal transduction	early endosome membrane	identical protein binding|lipid binding			pancreas(1)|central_nervous_system(1)|skin(1)	3						GAAGGCCGCCGCCTGGATTAC	0.403													8	6	---	---	---	---	PASS	T	84245363	T	T	84245363	3	4	81	1	0	0	0	0	1	0	0	0	14252	1087	38	1	516	1	SH3GL3	15	84245363	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	9122850	84245363	18286029	629	31281										
HAPLN3	145864	broad.mit.edu	37	chr15	89421336	89421336	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tagcggacgctaccatctgcCagccagccagcgtcgcagcg	12	16	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr15:89421336C>T	uc002bnc.2	-	5	1076	c.948G>A	c.(946-948)CTG>CTA	p.L316L	HAPLN3_uc002bne.2_RNA|HAPLN3_uc002bnd.2_Silent_p.L378L	NM_178232	NP_839946	Q96S86	HPLN3_HUMAN	hyaluronan and proteoglycan link protein 3	316	Link 2.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	Lung NSC(78;0.0392)|all_lung(78;0.077)					TACCATCTGCCAGCCAGCCAG	0.657													25	49	---	---	---	---	PASS	T	89421336	T	T	89421336	2	4	81	1	0	0	0	0	0	0	0	1	6956	581	21	3		3	HAPLN3	15	89421336	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	5175973	89421336	13110056	630	31282										
TMEM8A	58986	broad.mit.edu	37	chr16	424044	424044	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agccgtgccatgcacaggatGgtgacccagatggccgcccc	13	15	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:424044G>A	uc002cgu.3	-	11	1992	c.1863C>T	c.(1861-1863)ACC>ACT	p.T621T	TMEM8A_uc002cgv.3_Silent_p.T428T	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	621	Helical; (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						TGCACAGGATGGTGACCCAGA	0.667											OREG0003702	type=REGULATORY REGION|Gene=TMEM8|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	12	5	---	---	---	---	PASS	A	424044	A	A	424044	2	1	81	1	0	0	0	0	0	0	0	1	16211	1335	47	3		3	TMEM8A	16	424044	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08		424044	89930709	631	31283										
GRIN2A	2903	broad.mit.edu	37	chr16	9923493	9923493	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atagcttttccaattgtaaaAgaaggcccatggggtgctgc	11	8	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:9923493A>C	uc002czo.3	-	9	2342	c.1794T>G	c.(1792-1794)TCT>TCG	p.S598S	GRIN2A_uc010uym.1_Silent_p.S598S|GRIN2A_uc010uyn.1_Silent_p.S441S|GRIN2A_uc002czr.3_Silent_p.S598S	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	598	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding	p.S598F(1)		skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CAATTGTAAAAGAAGGCCCAT	0.463													19	25	---	---	---	---	PASS	C	9923493	C	C	9923493	2	2	81	1	0	0	0	0	0	0	0	1	6779	59	3	5		5	GRIN2A	16	9923493	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	9499449	9923493	80431260	632	31284										
RRN3	54700	broad.mit.edu	37	chr16	15155611	15155611	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atttctgccgtcagaggggaCtgggttgcatgtacaacacg	13	9	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:15155611C>A	uc002dde.2	-	18	2014	c.1946G>T	c.(1945-1947)AGT>ATT	p.S649I	PDXDC1_uc002ddc.2_Intron|RRN3_uc010uzp.1_Missense_Mutation_p.S517I|RRN3_uc010uzq.1_Missense_Mutation_p.S619I	NM_018427	NP_060897	Q9NYV6	RRN3_HUMAN	RRN3 RNA polymerase I transcription factor	649	Interaction with EIF3L.|Interaction with TWISTNB.				regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm				ovary(1)	1						TCAGAGGGGACTGGGTTGCAT	0.512													19	33	---	---	---	---	PASS	A	15155611	A	A	15155611	3	1	81	1	0	0	0	0	1	0	0	0	13684	565	20	3	13	3	RRN3	16	15155611	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5232118	15155611	75199142	633	31285										
MYH11	4629	broad.mit.edu	37	chr16	15876249	15876249	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctttgctacttacgaatcgtGaggagttgtcgttcttcact	9	9	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:15876249G>T	uc002ddy.2	-	6	826	c.719C>A	c.(718-720)TCA>TAA	p.S240*	MYH11_uc002ddv.2_Nonsense_Mutation_p.S247*|MYH11_uc002ddw.2_Nonsense_Mutation_p.S240*|MYH11_uc002ddx.2_Nonsense_Mutation_p.S247*|MYH11_uc010bvg.2_Nonsense_Mutation_p.S72*|MYH11_uc002dea.1_5'UTR	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	240	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						TACGAATCGTGAGGAGTTGTC	0.502			T	CBFB	AML								29	43	---	---	---	---	PASS	T	15876249	T	T	15876249	4	4	81	1	0	0	0	0	0	1	0	0	10031	1294	45	2	5378	2	MYH11	16	15876249	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	720638	15876249	74478504	634	31286										
SMG1	23049	broad.mit.edu	37	chr16	18887445	18887445	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcattacaattaaagactcaCccctattagtgagtttttgg	6	8	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:18887445C>A	uc002dfm.2	-	13	2253	c.1890_splice	c.e13+1	p.G630_splice	SMG1_uc010bwb.2_Splice_Site_p.G490_splice	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1						DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TAAAGACTCACCCCTATTAGT	0.333													36	55	---	---	---	---	PASS	A	18887445	A	A	18887445	5	1	81	1	0	0	0	0	0	0	1	0	14795	521	18	3	9298	3	SMG1	16	18887445	Splice_Site	SNP	C	TCGA-37-5819-01A-01D-1632-08	3011196	18887445	71467308	635	31287										
PDILT	204474	broad.mit.edu	37	chr16	20371903	20371903	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccttacctcatcctcatccTcaatcttagttttgatgtgg	5	13	4	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:20371903T>C	uc002dhc.1	-	11	1716	c.1493A>G	c.(1492-1494)GAG>GGG	p.E498G		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	498					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						ATCCTCATCCTCAATCTTAGT	0.453													107	139	---	---	---	---	PASS	C	20371903	C	C	20371903	3	2	81	1	0	0	0	0	1	0	0	0	11674	1551	54	5	269	5	PDILT	16	20371903	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	1484458	20371903	69982850	636	31288										
ACSM1	116285	broad.mit.edu	37	chr16	20638573	20638573	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atgtagccctcttcatccatCttacctctgtccccagtgtt	5	15	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:20638573C>T	uc002dhm.1	-	10	1433	c.1365G>A	c.(1363-1365)AAG>AAA	p.K455K	ACSM1_uc002dhn.1_Intron|ACSM1_uc010bwg.1_Silent_p.K455K	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	455					benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						CTTCATCCATCTTACCTCTGT	0.507													163	259	---	---	---	---	PASS	T	20638573	T	T	20638573	2	4	81	1	0	0	0	0	0	0	0	1	182	912	32	2		2	ACSM1	16	20638573	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	266670	20638573	69716180	637	31289										
DNAH3	55567	broad.mit.edu	37	chr16	21145703	21145703	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caggggcccggatcactcttTgaggaaacaagcgggggatg	16	9	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:21145703T>C	uc010vbe.1	-	7	959	c.959A>G	c.(958-960)CAA>CGA	p.Q320R	DNAH3_uc002die.2_Missense_Mutation_p.Q291R	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	320	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GATCACTCTTTGAGGAAACAA	0.542													33	66	---	---	---	---	PASS	C	21145703	C	C	21145703	3	2	81	1	0	0	0	0	1	0	0	0	4603	1812	63	5	11614	5	DNAH3	16	21145703	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	507130	21145703	69209050	638	31290										
ARHGAP17	55114	broad.mit.edu	37	chr16	24950823	24950823	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccacggtgctgccatctgtgGgcggaagtggcggctggaaa	17	10	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:24950823G>A	uc002dnb.2	-	17	1679	c.1586C>T	c.(1585-1587)CCC>CTC	p.P529L	ARHGAP17_uc002dmy.2_5'Flank|ARHGAP17_uc002dmz.2_Missense_Mutation_p.P53L|ARHGAP17_uc002dna.2_Missense_Mutation_p.P256L|ARHGAP17_uc002dnc.2_Intron|ARHGAP17_uc010vcf.1_Intron	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	529	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		GCCATCTGTGGGCGGAAGTGG	0.632													4	11	---	---	---	---	PASS	A	24950823	A	A	24950823	3	1	81	1	0	0	0	0	1	0	0	0	867	1232	43	3	1075	3	ARHGAP17	16	24950823	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3805120	24950823	65403930	639	31291										
NSMCE1	197370	broad.mit.edu	37	chr16	27246603	27246603	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttgatgaagtcctccaactTatctacggtggcattgcctg	10	10	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:27246603T>A	uc002doi.1	-	3	252	c.154A>T	c.(154-156)AAG>TAG	p.K52*	NSMCE1_uc002doj.1_RNA	NM_145080	NP_659547	Q8WV22	NSE1_HUMAN	non-SMC element 1 homolog	52					DNA recombination|DNA repair|intracellular signal transduction	nucleus	zinc ion binding				0						TCCTCCAACTTATCTACGGTG	0.438											OREG0023693	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	16	---	---	---	---	PASS	A	27246603	A	A	27246603	4	1	81	1	0	0	0	0	0	1	0	0	10675	1763	61	5	670	5	NSMCE1	16	27246603	Nonsense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	2295780	27246603	63108150	640	31292										
IL21R	50615	broad.mit.edu	37	chr16	27441400	27441400	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cgtgggagtcagcatgccgcGtggctgggccgcccccttgc	16	15	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:27441400G>T	uc002doq.1	+	2	241	c.8G>T	c.(7-9)CGT>CTT	p.R3L	IL21R_uc002dor.1_Missense_Mutation_p.R3L|IL21R_uc002dos.1_Missense_Mutation_p.R3L	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	3					natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						AGCATGCCGCGTGGCTGGGCC	0.701			T	BCL6	NHL								3	19	---	---	---	---	PASS	T	27441400	T	T	27441400	3	4	81	1	0	0	0	0	1	0	0	0	7671	1145	40	1	10	1	IL21R	16	27441400	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	194797	27441400	62913353	641	31293										
GTF3C1	2975	broad.mit.edu	37	chr16	27480717	27480717	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttgaggttgcgggtgctgaCgatgccgggggagtagtagc	20	6	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:27480717C>T	uc002dov.1	-	32	5009	c.4969G>A	c.(4969-4971)GTC>ATC	p.V1657I	GTF3C1_uc002dou.2_Missense_Mutation_p.V1657I	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1657						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CGGGTGCTGACGATGCCGGGG	0.637													3	16	---	---	---	---	PASS	T	27480717	T	T	27480717	3	4	81	1	0	0	0	0	1	0	0	0	6872	536	19	1	1384	1	GTF3C1	16	27480717	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	39317	27480717	62874036	642	31294										
GTF3C1	2975	broad.mit.edu	37	chr16	27503961	27503961	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atctttatcctgaaacttttCcgtgggaccaaactgtagca	7	10	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:27503961C>A	uc002dov.1	-	18	2990	c.2950G>T	c.(2950-2952)GAA>TAA	p.E984*	GTF3C1_uc002dou.2_Nonsense_Mutation_p.E984*	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	984						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TGAAACTTTTCCGTGGGACCA	0.498													58	63	---	---	---	---	PASS	A	27503961	A	A	27503961	4	1	81	1	0	0	0	0	0	1	0	0	6872	864	30	2	3459	2	GTF3C1	16	27503961	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	23244	27503961	62850792	643	31295										
CCDC101	112869	broad.mit.edu	37	chr16	28592408	28592408	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acaatggccctcgtgtctgcCgattcccgcattgcagaact	9	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:28592408C>G	uc002dqf.2	+	2	203	c.18C>G	c.(16-18)GCC>GCG	p.A6A	uc010vct.1_Intron	NM_138414	NP_612423	Q96ES7	SGF29_HUMAN	coiled-coil domain containing 101	6	Potential.				establishment of protein localization to chromatin|histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ada2/Gcn5/Ada3 transcription activator complex|SAGA-type complex	methylated histone residue binding			central_nervous_system(1)	1						TCGTGTCTGCCGATTCCCGCA	0.473													3	24	---	---	---	---	PASS	G	28592408	G	G	28592408	2	3	81	1	0	0	0	0	0	0	0	1	2735	639	23	4		4	CCDC101	16	28592408	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1088447	28592408	61762345	644	31296										
TAOK2	9344	broad.mit.edu	37	chr16	29990517	29990517	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgtactttgcctctggcaggGatgtgaaggctggaaacatc	13	8	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:29990517G>T	uc002dva.1	+	7	1234	c.451G>T	c.(451-453)GAT>TAT	p.D151Y	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Missense_Mutation_p.D151Y|TAOK2_uc002dvc.1_Missense_Mutation_p.D151Y|TAOK2_uc010bzm.1_Missense_Mutation_p.D151Y|TAOK2_uc002dvd.1_5'Flank	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	151	Protein kinase.	Proton acceptor (By similarity).			actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CTCTGGCAGGGATGTGAAGGC	0.562													12	32	---	---	---	---	PASS	T	29990517	T	T	29990517	3	4	81	1	0	0	0	0	1	0	0	0	15545	1188	41	2	473	2	TAOK2	16	29990517	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1398109	29990517	60364236	645	31297										
MYST1	84148	broad.mit.edu	37	chr16	31131698	31131698	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agtgggtagacaagaaccggCtggcgctgaccaagacagtg	15	9	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:31131698C>T	uc002eay.2	+	3	343	c.325C>T	c.(325-327)CTG>TTG	p.L109L	MYST1_uc002eax.2_Silent_p.L109L	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	109	Chromo.				histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						CAAGAACCGGCTGGCGCTGAC	0.577													21	41	---	---	---	---	PASS	T	31131698	T	T	31131698	2	4	81	1	0	0	0	0	0	0	0	1	10102	796	28	3		3	MYST1	16	31131698	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1141181	31131698	59223055	646	31298										
ITGAX	3687	broad.mit.edu	37	chr16	31373414	31373414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggatggccccgttctggggGctgtggggagcttcacctgg	18	10	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:31373414G>T	uc002ebu.1	+	11	1172	c.1105G>T	c.(1105-1107)GCT>TCT	p.A369S	ITGAX_uc002ebt.2_Missense_Mutation_p.A369S|ITGAX_uc010vfk.1_Missense_Mutation_p.A19S	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	369	FG-GAP 3.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CGTTCTGGGGGCTGTGGGGAG	0.582													5	150	---	---	---	---	PASS	T	31373414	T	T	31373414	3	4	81	1	0	0	0	0	1	0	0	0	7889	1203	42	3	1147	3	ITGAX	16	31373414	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	241716	31373414	58981339	647	31299										
ITGAD	3681	broad.mit.edu	37	chr16	31434716	31434716	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctggccatcagcattaactTctgggttcctgtcctgctga	9	12	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:31434716T>G	uc002ebv.1	+	25	2952	c.2903T>G	c.(2902-2904)TTC>TGC	p.F968C	ITGAD_uc010cap.1_Missense_Mutation_p.F969C	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	968	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						AGCATTAACTTCTGGGTTCCT	0.527													35	46	---	---	---	---	PASS	G	31434716	G	G	31434716	3	3	81	1	0	0	0	0	1	0	0	0	7884	1783	62	5	3001	5	ITGAD	16	31434716	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	61302	31434716	58920037	648	31300										
SALL1	6299	broad.mit.edu	37	chr16	51174429	51174429	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggctcttccgtcttgatgaaGggtatgaggcttgggagggt	17	6	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:51174429G>C	uc010vgs.1	-	2	1735	c.1704C>G	c.(1702-1704)CCC>CCG	p.P568P	SALL1_uc010vgr.1_Silent_p.P471P|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	568					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TCTTGATGAAGGGTATGAGGC	0.612													13	33	---	---	---	---	PASS	C	51174429	C	C	51174429	2	2	81	1	0	0	0	0	0	0	0	1	13810	987	35	4		4	SALL1	16	51174429	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	19739713	51174429	39180324	649	31301										
SLC6A2	6530	broad.mit.edu	37	chr16	55733543	55733543	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	actggagactgtgctggaagTtcgtcagtcctgccttcctc	11	12	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:55733543T>C	uc002eif.2	+	12	1678	c.1567T>C	c.(1567-1569)TTC>CTC	p.F523L	SLC6A2_uc010ccd.2_Missense_Mutation_p.F523L|SLC6A2_uc002eig.2_Missense_Mutation_p.F523L|SLC6A2_uc002eih.2_Missense_Mutation_p.F523L|SLC6A2_uc002eii.2_Missense_Mutation_p.F418L|SLC6A2_uc002eij.2_Missense_Mutation_p.F237L	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	523	Helical; Name=11; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	GTGCTGGAAGTTCGTCAGTCC	0.582													7	23	---	---	---	---	PASS	C	55733543	C	C	55733543	3	2	81	1	0	0	0	0	1	0	0	0	14683	1725	60	5	1700	5	SLC6A2	16	55733543	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	4559114	55733543	34621210	650	31302										
SLC12A3	6559	broad.mit.edu	37	chr16	56904619	56904619	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcactgtgctgctggccatcTccctggctggcatggagtgg	14	12	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:56904619T>C	uc010ccm.2	+	6	852	c.823T>C	c.(823-825)TCC>CCC	p.S275P	SLC12A3_uc002ekd.3_Missense_Mutation_p.S275P|SLC12A3_uc010ccn.2_Missense_Mutation_p.S274P	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	275	Helical; (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	GCTGGCCATCTCCCTGGCTGG	0.637													8	24	---	---	---	---	PASS	C	56904619	C	C	56904619	3	2	81	1	0	0	0	0	1	0	0	0	14384	1551	54	5	845	5	SLC12A3	16	56904619	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	1171076	56904619	33450134	651	31303										
ARL2BP	23568	broad.mit.edu	37	chr16	57284369	57284369	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acatattcgacatgctgctcAccttcacagattttctggct	6	12	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:57284369A>T	uc002elf.1	+	5	582	c.340A>T	c.(340-342)ACC>TCC	p.T114S	ARL2BP_uc010vhl.1_Missense_Mutation_p.T114S	NM_012106	NP_036238	Q9Y2Y0	AR2BP_HUMAN	binder of Arl Two	114					maintenance of protein location in nucleus|positive regulation of tyrosine phosphorylation of Stat3 protein|signal transduction	centrosome|midbody|mitochondrial intermembrane space|nucleus|spindle	protein binding|small GTPase regulator activity|transcription coactivator activity				0						CATGCTGCTCACCTTCACAGA	0.408													12	42	---	---	---	---	PASS	T	57284369	T	T	57284369	3	4	81	1	0	0	0	0	1	0	0	0	934	159	6	5	358	5	ARL2BP	16	57284369	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	379750	57284369	33070384	652	31304										
CDH5	1003	broad.mit.edu	37	chr16	66424464	66424464	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccattgagacaaaccccgccCacaacgagggcatcatcaag	8	15	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:66424464C>A	uc002eom.3	+	6	1096	c.940C>A	c.(940-942)CAC>AAC	p.H314N	CDH5_uc002eon.1_Missense_Mutation_p.H314N	NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	314	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		AAACCCCGCCCACAACGAGGG	0.562													14	32	---	---	---	---	PASS	A	66424464	A	A	66424464	3	1	81	1	0	0	0	0	1	0	0	0	3113	594	21	3	958	3	CDH5	16	66424464	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	9140095	66424464	23930289	653	31305										
SLC7A6OS	84138	broad.mit.edu	37	chr16	68338008	68338008	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggccgtctccaagtagtaaAtgtcatacacatagtcatcg	8	10	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:68338008A>C	uc002evw.1	-	3	618	c.599T>G	c.(598-600)ATT>AGT	p.I200S		NM_032178	NP_115554	Q96CW6	S7A6O_HUMAN	solute carrier family 7, member 6 opposite	200					protein transport	cytoplasm|nucleus				ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.106)		CAAGTAGTAAATGTCATACAC	0.517													51	55	---	---	---	---	PASS	C	68338008	C	C	68338008	3	2	81	1	0	0	0	0	1	0	0	0	14702	101	4	5	342	5	SLC7A6OS	16	68338008	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1913544	68338008	22016745	654	31306										
HYDIN	54768	broad.mit.edu	37	chr16	70891612	70891612	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atcaggacagccttaccaatGaggagagagctgaagttgag	13	7	1	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:70891612G>T	uc002ezr.2	-	72	12416	c.12288C>A	c.(12286-12288)CTC>CTA	p.L4096L	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4097										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CCTTACCAATGAGGAGAGAGC	0.493													8	40	---	---	---	---	PASS	T	70891612	T	T	70891612	2	4	81	1	0	0	0	0	0	0	0	1	7467	1277	45	2		2	HYDIN	16	70891612	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	2553604	70891612	19463141	655	31307										
HYDIN	54768	broad.mit.edu	37	chr16	71098610	71098610	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaggagaaaggaactcacctGaggctggacctcatagaatc	11	9	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:71098610G>A	uc002ezr.2	-	16	2337	c.2209C>T	c.(2209-2211)CAG>TAG	p.Q737*	HYDIN_uc010cfz.1_Nonsense_Mutation_p.Q482*|HYDIN_uc002ezv.2_Nonsense_Mutation_p.Q737*|HYDIN_uc010vmc.1_Nonsense_Mutation_p.Q754*|HYDIN_uc010vmd.1_Nonsense_Mutation_p.Q764*	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	737										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GAACTCACCTGAGGCTGGACC	0.458													5	13	---	---	---	---	PASS	A	71098610	A	A	71098610	4	1	81	1	0	0	0	0	0	1	0	0	7467	1299	45	2	13449	2	HYDIN	16	71098610	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	206998	71098610	19256143	656	31308										
ZFHX3	463	broad.mit.edu	37	chr16	72984563	72984563	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agctggtacttctgcacgtgCttgtctgtcttgcagtgcag	12	10	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:72984563C>T	uc002fck.2	-	3	3694	c.3021G>A	c.(3019-3021)AAG>AAA	p.K1007K	ZFHX3_uc002fcl.2_Silent_p.K93K	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1007	C2H2-type 7; atypical.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TCTGCACGTGCTTGTCTGTCT	0.602													9	30	---	---	---	---	PASS	T	72984563	T	T	72984563	2	4	81	1	0	0	0	0	0	0	0	1	17631	796	28	3		3	ZFHX3	16	72984563	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1885953	72984563	17370190	657	31309										
CHST6	4166	broad.mit.edu	37	chr16	75513561	75513561	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctggttgaagagttggcccaCgaaggacgagcccgagcgcc	15	12	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:75513561C>A	uc002fef.2	-	3	346	c.166G>T	c.(166-168)GTG>TTG	p.V56L	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Missense_Mutation_p.V56L	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	56	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						AGTTGGCCCACGAAGGACGAG	0.682													5	14	---	---	---	---	PASS	A	75513561	A	A	75513561	3	1	81	1	0	0	0	0	1	0	0	0	3408	536	19	1	1025	1	CHST6	16	75513561	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2528998	75513561	14841192	658	31310										
OSGIN1	29948	broad.mit.edu	37	chr16	83998779	83998779	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccggtgctgtagtcacagccGtggagtgggggacccccgat	16	12	1	0	rs138968808		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:83998779G>A	uc002fha.2	+	7	1233	c.850G>A	c.(850-852)GTG>ATG	p.V284M	OSGIN1_uc002fhb.2_Missense_Mutation_p.V201M|OSGIN1_uc002fhc.2_Missense_Mutation_p.V201M	NM_013370	NP_037502	Q9UJX0	OSGI1_HUMAN	oxidative stress induced growth inhibitor 1	284					cell differentiation|multicellular organismal development|negative regulation of cell growth		growth factor activity				0						AGTCACAGCCGTGGAGTGGGG	0.657													24	52	---	---	---	---	PASS	A	83998779	A	A	83998779	3	1	81	1	0	0	0	0	1	0	0	0	11289	1145	40	1	876	1	OSGIN1	16	83998779	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	8485218	83998779	6355974	659	31311										
KIAA0513	9764	broad.mit.edu	37	chr16	85111073	85111073	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggagtcccgggagaagcccgCgggcagcatcgactcctacc	14	15	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:85111073C>T	uc002fiu.2	+	6	837	c.617C>T	c.(616-618)GCG>GTG	p.A206V	KIAA0513_uc002fis.3_Missense_Mutation_p.A206V|KIAA0513_uc010voj.1_Missense_Mutation_p.A206V|KIAA0513_uc002fit.2_Missense_Mutation_p.A206V	NM_014732	NP_055547	O60268	K0513_HUMAN	hypothetical protein LOC9764	206						cytoplasm				breast(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.234)		GAGAAGCCCGCGGGCAGCATC	0.617													10	45	---	---	---	---	PASS	T	85111073	T	T	85111073	3	4	81	1	0	0	0	0	1	0	0	0	8181	768	27	1	635	1	KIAA0513	16	85111073	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1112294	85111073	5243680	660	31312										
JPH3	57338	broad.mit.edu	37	chr16	87717830	87717830	+	Missense_Mutation	SNP	A	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggcgcggatcgccaggatcActgccaaagagttctcccct							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:87717830A>T	uc002fkd.2	+	3	1497	c.1243A>T	c.(1243-1245)ACT>TCT	p.T415S	JPH3_uc010vou.1_RNA	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	415	Ala-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		CGCCAGGATCACTGCCAAAGA	0.657													11	17	---	---	---	---	PASS	T	87717830	T	T	87717830	3	4	81	1	0	0	0	0	1	0	0	0	7962	159	6	5	1253	5	JPH3	16	87717830	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	2606757	87717830	2636923	661	31313	623	2								
JPH3	57338	broad.mit.edu	37	chr16	87717831	87717831	+	Missense_Mutation	SNP	C	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggcgcggatcgccaggatcaCtgccaaagagttctcccctt							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr16:87717831C>T	uc002fkd.2	+	3	1498	c.1244C>T	c.(1243-1245)ACT>ATT	p.T415I	JPH3_uc010vou.1_RNA	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	415	Ala-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		GCCAGGATCACTGCCAAAGAG	0.657													12	17	---	---	---	---	PASS	T	87717831	T	T	87717831	3	4	81	1	0	0	0	0	1	0	0	0	7962	565	20	3	1254	3	JPH3	16	87717831	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1	87717831	2636922	662	31314	623	2								
OR1D2	4991	broad.mit.edu	37	chr17	2995615	2995615	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agagactgagggtattctgaGgatggctctgataatcagca	13	6	3	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:2995615G>T	uc010vrb.1	-	1	676	c.676C>A	c.(676-678)CTC>ATC	p.L226I		NM_002548	NP_002539	P34982	OR1D2_HUMAN	olfactory receptor, family 1, subfamily D,	226	Cytoplasmic (Potential).				cellular component movement|chemotaxis|protein import into nucleus, translocation|sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						GGTATTCTGAGGATGGCTCTG	0.453													30	13	---	---	---	---	PASS	T	2995615	T	T	2995615	3	4	81	1	0	0	0	0	1	0	0	0	10953	1000	35	3	265	3	OR1D2	17	2995615	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08		2995615	78199595	663	31315										
OR1E1	8387	broad.mit.edu	37	chr17	3300975	3300975	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagtgacaccacagacaggtGggagccacaagtagagaagg	14	9	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:3300975G>T	uc002fvj.1	-	1	730	c.730C>A	c.(730-732)CAC>AAC	p.H244N		NM_003553	NP_003544	P30953	OR1E1_HUMAN	olfactory receptor, family 1, subfamily E,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACAGACAGGTGGGAGCCACAA	0.458													21	13	---	---	---	---	PASS	T	3300975	T	T	3300975	3	4	81	1	0	0	0	0	1	0	0	0	10954	1348	47	3	218	3	OR1E1	17	3300975	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	305360	3300975	77894235	664	31316										
PHF23	79142	broad.mit.edu	37	chr17	7139892	7139892	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcactgtcgggggcctgcagAcgagagaaagtggaccttgg	17	9	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:7139892A>G	uc002gfa.2	-	4	581	c.354T>C	c.(352-354)CGT>CGC	p.R118R	DVL2_uc002gez.1_5'Flank|DVL2_uc010vtr.1_5'Flank|DVL2_uc010clz.1_5'Flank|PHF23_uc010vtt.1_Intron|PHF23_uc010cma.2_5'UTR	NM_024297	NP_077273	Q9BUL5	PHF23_HUMAN	PHD finger protein 23	118							zinc ion binding				0						GGGCCTGCAGACGAGAGAAAG	0.537													26	42	---	---	---	---	PASS	G	7139892	G	G	7139892	2	3	81	1	0	0	0	0	0	0	0	1	11835	262	10	5		5	PHF23	17	7139892	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	3838917	7139892	74055318	665	31317										
FXR2	9513	broad.mit.edu	37	chr17	7495861	7495861	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gatagagccatcagtccgatTaccacggttacggcggcggc	13	12	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:7495861T>C	uc002gia.1	-	15	2013	c.1786A>G	c.(1786-1788)AAT>GAT	p.N596D	MPDU1_uc010vuc.1_3'UTR|SOX15_uc002ghy.1_5'Flank|SOX15_uc002ghz.1_5'Flank	NM_004860	NP_004851	P51116	FXR2_HUMAN	fragile X mental retardation syndrome related	596						cytosolic large ribosomal subunit	protein binding|RNA binding				0				READ - Rectum adenocarcinoma(115;0.17)		TCAGTCCGATTACCACGGTTA	0.552													57	31	---	---	---	---	PASS	C	7495861	C	C	7495861	3	2	81	1	0	0	0	0	1	0	0	0	6116	1754	61	5	147	5	FXR2	17	7495861	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	355969	7495861	73699349	666	31318										
TP53	7157	broad.mit.edu	37	chr17	7577556	7577556	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tccggttcatgccgcccatgCaggaactgttacacatgtag	10	12	1	0	rs121912655		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:7577556C>A	uc002gim.2	-	7	919	c.725G>T	c.(724-726)TGC>TTC	p.C242F	TP53_uc002gig.1_Missense_Mutation_p.C242F|TP53_uc002gih.2_Missense_Mutation_p.C242F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C110F|TP53_uc010cng.1_Missense_Mutation_p.C110F|TP53_uc002gii.1_Missense_Mutation_p.C110F|TP53_uc010cnh.1_Missense_Mutation_p.C242F|TP53_uc010cni.1_Missense_Mutation_p.C242F|TP53_uc002gij.2_Missense_Mutation_p.C242F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C149F|TP53_uc002gio.2_Missense_Mutation_p.C110F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	242	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).	Zinc.	C -> F (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C242F(63)|p.C242Y(37)|p.C242S(25)|p.C242fs*5(16)|p.C242R(11)|p.C242W(7)|p.0?(7)|p.N239_C242delNSSC(3)|p.C242*(3)|p.C242C(2)|p.C242G(2)|p.C242fs*20(1)|p.C242fs*23(1)|p.Y236_M243delYMCNSSCM(1)|p.C242_M246>L(1)|p.N239fs*4(1)|p.C238_M246delCNSSCMGGM(1)|p.S241_C242insX(1)|p.C238fs*21(1)|p.C242fs*98(1)|p.H233_C242del10(1)|p.N239_C242>S(1)|p.S241_G245delSCMGG(1)|p.N239_C242del(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)		GCCGCCCATGCAGGAACTGTT	0.577		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)			12	6	---	---	---	---	PASS	A	7577556	A	A	7577556	3	1	81	1	0	0	0	0	1	0	0	0	16378	710	25	3	565	3	TP53	17	7577556	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	81695	7577556	73617654	667	31319										
WRAP53	55135	broad.mit.edu	37	chr17	7606164	7606164	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catctacttcgatctggaccCgtgagtggctgtgactcctt	10	12	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:7606164C>T	uc010vuh.1	+	9	1423	c.1268C>T	c.(1267-1269)CCG>CTG	p.P423L	WRAP53_uc010vui.1_Missense_Mutation_p.P423L|WRAP53_uc002gip.2_Missense_Mutation_p.P423L|WRAP53_uc002gir.2_Missense_Mutation_p.P423L|WRAP53_uc002giq.2_RNA|WRAP53_uc010cnl.2_Missense_Mutation_p.P390L|EFNB3_uc002gis.2_5'Flank	NM_001143990	NP_001137462	Q9BUR4	WAP53_HUMAN	WD repeat domain 79 isoform 2	423	WD 6.				positive regulation of telomerase activity|telomere formation via telomerase	Cajal body|cytoplasm|telomerase holoenzyme complex	protein binding|RNA binding				0						GATCTGGACCCGTGAGTGGCT	0.607													24	5	---	---	---	---	PASS	T	7606164	T	T	7606164	3	4	81	1	0	0	0	0	1	0	0	0	17397	666	23	1	1298	1	WRAP53	17	7606164	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	28608	7606164	73589046	668	31320										
ARHGEF15	22899	broad.mit.edu	37	chr17	8215926	8215926	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggagagagaagctcccctcaCcgggagtgggtcccaggaga	16	11	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:8215926C>A	uc002glc.2	+	2	690	c.569C>A	c.(568-570)ACC>AAC	p.T190N	ARHGEF15_uc002glb.1_Missense_Mutation_p.T190N|ARHGEF15_uc002gld.2_Missense_Mutation_p.T190N|ARHGEF15_uc010vuw.1_Missense_Mutation_p.T190N	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	190					negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						GCTCCCCTCACCGGGAGTGGG	0.622													14	8	---	---	---	---	PASS	A	8215926	A	A	8215926	3	1	81	1	0	0	0	0	1	0	0	0	898	507	18	3	571	3	ARHGEF15	17	8215926	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	609762	8215926	72979284	669	31321										
GLP2R	9340	broad.mit.edu	37	chr17	9792900	9792900	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgcgaggtcttggggagctgGgcgcccagccccaacaggac	16	13	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:9792900G>T	uc002gmd.1	+	13	1540	c.1540G>T	c.(1540-1542)GGC>TGC	p.G514C		NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	514	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	TGGGGAGCTGGGCGCCCAGCC	0.637													3	20	---	---	---	---	PASS	T	9792900	T	T	9792900	3	4	81	1	0	0	0	0	1	0	0	0	6453	1232	43	3	1590	3	GLP2R	17	9792900	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1576974	9792900	71402310	670	31322										
MYH8	4626	broad.mit.edu	37	chr17	10318833	10318833	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttcttctctccagtaactgCaattgttgcaaagtattgga	7	9	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:10318833C>A	uc002gmm.2	-	7	699	c.604G>T	c.(604-606)GCA>TCA	p.A202S	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	202	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						CCAGTAACTGCAATTGTTGCA	0.458									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				29	16	---	---	---	---	PASS	A	10318833	A	A	10318833	3	1	81	1	0	0	0	0	1	0	0	0	10041	710	25	3	5345	3	MYH8	17	10318833	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	525933	10318833	70876377	671	31323										
MYH3	4621	broad.mit.edu	37	chr17	10549330	10549330	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aacgggtagtcgtaagggttGgtcgtaataagcagcagctc	14	7	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:10549330G>A	uc002gmq.1	-	10	995	c.918C>T	c.(916-918)ACC>ACT	p.T306T		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	306	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CGTAAGGGTTGGTCGTAATAA	0.512											OREG0024181	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	11	---	---	---	---	PASS	A	10549330	A	A	10549330	2	1	81	1	0	0	0	0	0	0	0	1	10036	1335	47	3		3	MYH3	17	10549330	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	230497	10549330	70645880	672	31324										
NOS2	4843	broad.mit.edu	37	chr17	26092696	26092696	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcccccggcaggtagttcaGgccttggccatcctcacagg	11	16	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:26092696G>T	uc002gzu.2	-	20	2557	c.2293C>A	c.(2293-2295)CTG>ATG	p.L765M		NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	765	FAD-binding FR-type.				arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	AGGTAGTTCAGGCCTTGGCCA	0.622													24	18	---	---	---	---	PASS	T	26092696	T	T	26092696	3	4	81	1	0	0	0	0	1	0	0	0	10543	991	35	3	1200	3	NOS2	17	26092696	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	15543366	26092696	55102514	673	31325										
SSH2	85464	broad.mit.edu	37	chr17	27958650	27958650	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agggctctcctgactttcttCccagctaacctgttctgcag	8	14	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:27958650C>A	uc002heo.1	-	15	3481	c.3481G>T	c.(3481-3483)GAA>TAA	p.E1161*	SSH2_uc010wbh.1_Nonsense_Mutation_p.E1188*	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1161					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TGACTTTCTTCCCAGCTAACC	0.512													10	35	---	---	---	---	PASS	A	27958650	A	A	27958650	4	1	81	1	0	0	0	0	0	1	0	0	15184	864	30	2	794	2	SSH2	17	27958650	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1865954	27958650	53236560	674	31326										
SSH2	85464	broad.mit.edu	37	chr17	27958751	27958751	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gatgcaggtaatccaaactgGcagacagtaaatgggttgta	12	6	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:27958751G>A	uc002heo.1	-	15	3380	c.3380C>T	c.(3379-3381)GCC>GTC	p.A1127V	SSH2_uc010wbh.1_Missense_Mutation_p.A1154V	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1127					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						ATCCAAACTGGCAGACAGTAA	0.542													11	44	---	---	---	---	PASS	A	27958751	A	A	27958751	3	1	81	1	0	0	0	0	1	0	0	0	15184	1203	42	3	895	3	SSH2	17	27958751	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	101	27958751	53236459	675	31327										
UNC45B	146862	broad.mit.edu	37	chr17	33475336	33475336	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaaggaaaccggcatttccaGctccaggactacaaggccgc	11	13	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:33475336G>T	uc002hja.2	+	2	151	c.54G>T	c.(52-54)CAG>CAT	p.Q18H	UNC45B_uc002hjb.2_Missense_Mutation_p.Q18H|UNC45B_uc002hjc.2_Missense_Mutation_p.Q18H|UNC45B_uc010cto.2_Missense_Mutation_p.Q18H	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	18	TPR 1.				cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				GGCATTTCCAGCTCCAGGACT	0.597													34	28	---	---	---	---	PASS	T	33475336	T	T	33475336	3	4	81	1	0	0	0	0	1	0	0	0	16986	962	34	3	56	3	UNC45B	17	33475336	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	5516585	33475336	47719874	676	31328										
SRCIN1	80725	broad.mit.edu	37	chr17	36705431	36705431	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcttctctgtgcggtatcggGgcacggtcaactcatctgca	12	12	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:36705431G>C	uc002hqd.2	-	16	3203	c.2978C>G	c.(2977-2979)CCC>CGC	p.P993R	SRCIN1_uc002hqf.1_Missense_Mutation_p.P865R|SRCIN1_uc002hqe.2_Missense_Mutation_p.P847R	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	865	Pro-rich.				exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						GCGGTATCGGGGCACGGTCAA	0.632													15	3	---	---	---	---	PASS	C	36705431	C	C	36705431	3	2	81	1	0	0	0	0	1	0	0	0	15135	1232	43	4	589	4	SRCIN1	17	36705431	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3230095	36705431	44489779	677	31329										
KRTAP9-4	85280	broad.mit.edu	37	chr17	39406116	39406116	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgctgtgtttccagctgctgCcagccttgctgccgcccaac	10	16	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:39406116C>A	uc002hwi.2	+	1	178	c.144C>A	c.(142-144)TGC>TGA	p.C48*	KRTAP9-9_uc010wfq.1_Intron	NM_033191	NP_149461	Q9BYQ2	KRA94_HUMAN	keratin associated protein 9-4	48	15 X 5 AA repeats of C-C-[RQVGE]-[SPTN]- [TASPF].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			CCAGCTGCTGCCAGCCTTGCT	0.647													5	24	---	---	---	---	PASS	A	39406116	A	A	39406116	4	1	81	1	0	0	0	0	0	1	0	0	8575	747	26	3	146	3	KRTAP9-4	17	39406116	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2700685	39406116	41789094	678	31330										
NBR1	4077	broad.mit.edu	37	chr17	41341086	41341086	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cacttgttccatgtgacacaGaccagcctcaagacaagccc	7	15	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:41341086G>C	uc010czd.2	+	7	570	c.430G>C	c.(430-432)GAC>CAC	p.D144H	NBR1_uc010diz.2_Missense_Mutation_p.D144H|NBR1_uc010whu.1_Missense_Mutation_p.D144H|NBR1_uc010whv.1_Missense_Mutation_p.D144H|NBR1_uc010whw.1_Missense_Mutation_p.D123H|NBR1_uc010whx.1_5'Flank	NM_031862	NP_114068	Q14596	NBR1_HUMAN	neighbor of BRCA1 gene 1	144					macroautophagy|protein oligomerization	autophagic vacuole|cytoplasmic vesicle|cytosol|late endosome|lysosome|sarcomere	ubiquitin binding|zinc ion binding			skin(1)	1		Breast(137;0.00086)		BRCA - Breast invasive adenocarcinoma(366;0.0934)		ATGTGACACAGACCAGCCTCA	0.468													6	48	---	---	---	---	PASS	C	41341086	C	C	41341086	3	2	81	1	0	0	0	0	1	0	0	0	10200	942	33	2	452	2	NBR1	17	41341086	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1934970	41341086	39854124	679	31331										
GRN	2896	broad.mit.edu	37	chr17	42430088	42430088	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggcttccgctgcgcagccagGggtaccaagtgtttgcgcag	15	12	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:42430088G>C	uc002igp.1	+	13	1923	c.1704G>C	c.(1702-1704)AGG>AGC	p.R568S	GRN_uc002igr.1_3'UTR	NM_002087	NP_002078	P28799	GRN_HUMAN	granulin precursor	568					signal transduction	extracellular space	cytokine activity|growth factor activity			ovary(2)|central_nervous_system(2)|skin(1)	5		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		GCGCAGCCAGGGGTACCAAGT	0.657													31	50	---	---	---	---	PASS	C	42430088	C	C	42430088	3	2	81	1	0	0	0	0	1	0	0	0	6804	1223	43	4	1750	4	GRN	17	42430088	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1089002	42430088	38765122	680	31332										
CRHR1	1394	broad.mit.edu	37	chr17	43912051	43912051	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caagcactcgatccgtgcccGagtggcccgtgccatgtcca	11	16	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:43912051G>T	uc010dap.2	+	14	1521	c.1256G>T	c.(1255-1257)CGA>CTA	p.R419L	CRHR1_uc010wjx.1_Missense_Mutation_p.R215L|CRHR1_uc002ijp.2_Nonsense_Mutation_p.E244*|CRHR1_uc002ijm.2_Missense_Mutation_p.R390L|CRHR1_uc002ijn.2_Missense_Mutation_p.R350L|CRHR1_uc010dar.2_Missense_Mutation_p.R376L|CRHR1_uc010dao.2_Missense_Mutation_p.R289L|CRHR1_uc010daq.2_Missense_Mutation_p.R215L	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	419	Cytoplasmic (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		ATCCGTGCCCGAGTGGCCCGT	0.632													13	11	---	---	---	---	PASS	T	43912051	T	T	43912051	3	4	81	1	0	0	0	0	1	0	0	0	3871	1058	37	2	1310	2	CRHR1	17	43912051	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1481963	43912051	37283159	681	31333										
SP6	80320	broad.mit.edu	37	chr17	45924907	45924907	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcgctgcagctcgtccgagcGcgtgaagcgcttgccgcaga	15	14	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:45924907G>A	uc002img.1	-	2	1221	c.889C>T	c.(889-891)CGC>TGC	p.R297C	SP6_uc002imh.1_Missense_Mutation_p.R297C	NM_199262	NP_954871	Q3SY56	SP6_HUMAN	Sp6 transcription factor	297	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TCGTCCGAGCGCGTGAAGCGC	0.667													4	29	---	---	---	---	PASS	A	45924907	A	A	45924907	3	1	81	1	0	0	0	0	1	0	0	0	14968	1087	38	1	245	1	SP6	17	45924907	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2012856	45924907	35270303	682	31334										
ITGA3	3675	broad.mit.edu	37	chr17	48145587	48145587	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aacacagactacctggagacGggcatgtgccagctgggcac	13	12	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:48145587G>T	uc010dbl.2	+	4	1046	c.582G>T	c.(580-582)ACG>ACT	p.T194T	ITGA3_uc010dbm.2_Silent_p.T194T	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	194	FG-GAP 3.|Extracellular (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						ACCTGGAGACGGGCATGTGCC	0.592													32	26	---	---	---	---	PASS	T	48145587	T	T	48145587	2	4	81	1	0	0	0	0	0	0	0	1	7877	1103	39	1		1	ITGA3	17	48145587	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	2220680	48145587	33049623	683	31335										
CA10	56934	broad.mit.edu	37	chr17	50149697	50149697	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acctggaacaaagcttccctGgaccacctccttgtatgccc	7	16	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:50149697G>A	uc002itw.3	-	2	1104	c.118C>T	c.(118-120)CAG>TAG	p.Q40*	CA10_uc002itv.3_Nonsense_Mutation_p.Q46*|CA10_uc002itx.3_Nonsense_Mutation_p.Q40*|CA10_uc002ity.3_Nonsense_Mutation_p.Q40*|CA10_uc002itz.2_Nonsense_Mutation_p.Q40*	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	40					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			AAGCTTCCCTGGACCACCTCC	0.353													21	33	---	---	---	---	PASS	A	50149697	A	A	50149697	4	1	81	1	0	0	0	0	0	1	0	0	2511	1357	47	3	900	3	CA10	17	50149697	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2004110	50149697	31045513	684	31336										
ANKFN1	162282	broad.mit.edu	37	chr17	54428241	54428241	+	Silent	SNP	T	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cgcctgtacaggaacctctcTgagaaactgaaagggagcca							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:54428241T>A	uc002iun.1	+	4	347	c.312T>A	c.(310-312)TCT>TCA	p.S104S		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	104										large_intestine(1)|ovary(1)	2						GGAACCTCTCTGAGAAACTGA	0.458													27	37	---	---	---	---	PASS	A	54428241	A	A	54428241	2	1	81	1	0	0	0	0	0	0	0	1	625	1567	55	5		5	ANKFN1	17	54428241	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	4278544	54428241	26766969	685	31337	624	2								
ANKFN1	162282	broad.mit.edu	37	chr17	54428242	54428242	+	Nonsense_Mutation	SNP	G	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcctgtacaggaacctctctGagaaactgaaagggagccac							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:54428242G>T	uc002iun.1	+	4	348	c.313G>T	c.(313-315)GAG>TAG	p.E105*		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	105										large_intestine(1)|ovary(1)	2						GAACCTCTCTGAGAAACTGAA	0.458													28	38	---	---	---	---	PASS	T	54428242	T	T	54428242	4	4	81	1	0	0	0	0	0	1	0	0	625	1291	45	2	327	2	ANKFN1	17	54428242	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1	54428242	26766968	686	31338	624	2								
EPX	8288	broad.mit.edu	37	chr17	56277639	56277639	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccacccctgccaagctgaacCgtcaggatgccatgttagtg	10	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:56277639C>G	uc002ivq.2	+	10	1677	c.1591C>G	c.(1591-1593)CGT>GGT	p.R531G		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	531					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						CAAGCTGAACCGTCAGGATGC	0.622											OREG0024608	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	61	---	---	---	---	PASS	G	56277639	G	G	56277639	3	3	81	1	0	0	0	0	1	0	0	0	5200	652	23	4	1629	4	EPX	17	56277639	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1849397	56277639	24917571	687	31339										
BCAS3	54828	broad.mit.edu	37	chr17	59024696	59024696	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atctgtatactcttcacaggGgagaaactgaagccaaagta	9	8	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:59024696G>T	uc002iyv.3	+	14	1313	c.1204G>T	c.(1204-1206)GGA>TGA	p.G402*	BCAS3_uc010wow.1_Nonsense_Mutation_p.G189*|BCAS3_uc002iyu.3_Nonsense_Mutation_p.G402*|BCAS3_uc002iyw.3_Nonsense_Mutation_p.G398*|BCAS3_uc002iyx.1_Nonsense_Mutation_p.G217*|BCAS3_uc002iyy.3_Nonsense_Mutation_p.G173*	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	402						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)			TCTTCACAGGGGAGAAACTGA	0.413													81	92	---	---	---	---	PASS	T	59024696	T	T	59024696	4	4	81	1	0	0	0	0	0	1	0	0	1352	1233	43	3	1254	3	BCAS3	17	59024696	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2747057	59024696	22170514	688	31340										
NACA2	342538	broad.mit.edu	37	chr17	59668336	59668336	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccctcttttcactccgactcTgttttgctttaccgactggt	6	14	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:59668336T>G	uc002izj.2	-	1	232	c.206A>C	c.(205-207)CAG>CCG	p.Q69P		NM_199290	NP_954984	Q9H009	NACA2_HUMAN	nascent-polypeptide-associated complex alpha	69					protein transport	cytoplasm|nucleus				ovary(1)	1	all_epithelial(1;3.12e-14)					ACTCCGACTCTGTTTTGCTTT	0.473													100	163	---	---	---	---	PASS	G	59668336	G	G	59668336	3	3	81	1	0	0	0	0	1	0	0	0	10134	1580	55	5	445	5	NACA2	17	59668336	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	643640	59668336	21526874	689	31341										
MED13	9969	broad.mit.edu	37	chr17	60028323	60028323	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aatattaggtacttcctcatGaggttctgttgatagtagcc	9	7	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:60028323G>T	uc002izo.2	-	28	6231	c.6154C>A	c.(6154-6156)CAT>AAT	p.H2052N		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	2052					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						ACTTCCTCATGAGGTTCTGTT	0.393													8	58	---	---	---	---	PASS	T	60028323	T	T	60028323	3	4	81	1	0	0	0	0	1	0	0	0	9430	1290	45	2	382	2	MED13	17	60028323	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	359987	60028323	21166887	690	31342										
MRC2	9902	broad.mit.edu	37	chr17	60742270	60742270	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cgcagtggccagtggcgcatCtacggcagcgaggaggacct	16	12	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:60742270C>A	uc002jad.2	+	2	882	c.480C>A	c.(478-480)ATC>ATA	p.I160I	MRC2_uc002jac.2_Silent_p.I160I	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	160	Extracellular (Potential).|Ricin B-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						AGTGGCGCATCTACGGCAGCG	0.667													33	26	---	---	---	---	PASS	A	60742270	A	A	60742270	2	1	81	1	0	0	0	0	0	0	0	1	9758	903	32	2		2	MRC2	17	60742270	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	713947	60742270	20452940	691	31343										
TANC2	26115	broad.mit.edu	37	chr17	61391859	61391859	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gccgagattgggttttccacGaaatagatgctcaacttcaa	9	9	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:61391859G>A	uc002jal.3	+	8	1071	c.1048G>A	c.(1048-1050)GAA>AAA	p.E350K	TANC2_uc010wpe.1_Missense_Mutation_p.E260K	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	350							binding			ovary(2)	2						GGTTTTCCACGAAATAGATGC	0.463													10	78	---	---	---	---	PASS	A	61391859	A	A	61391859	3	1	81	1	0	0	0	0	1	0	0	0	15542	1059	37	2	1078	2	TANC2	17	61391859	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	649589	61391859	19803351	692	31344										
LRRC37A3	374819	broad.mit.edu	37	chr17	62855863	62855863	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcaaactgatcacctggggaCgagagcaatgggtaattgaa	12	7	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:62855863C>T	uc002jey.2	-	11	4932	c.4401G>A	c.(4399-4401)TCG>TCA	p.S1467S	LRRC37A3_uc010wqg.1_Silent_p.S585S|LRRC37A3_uc002jex.1_Silent_p.S444S|LRRC37A3_uc010wqf.1_Silent_p.S505S|LRRC37A3_uc010dek.1_Silent_p.S473S	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1467	Extracellular (Potential).					integral to membrane					0						CACCTGGGGACGAGAGCAATG	0.488													13	180	---	---	---	---	PASS	T	62855863	T	T	62855863	2	4	81	1	0	0	0	0	0	0	0	1	8993	523	19	1		1	LRRC37A3	17	62855863	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	1464004	62855863	18339347	693	31345										
APOH	350	broad.mit.edu	37	chr17	64210608	64210608	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acttcgatagtgccatctatAcactgagcatcctctgtata	6	11	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:64210608A>T	uc002jfn.3	-	7	1004	c.945T>A	c.(943-945)TGT>TGA	p.C315*		NM_000042	NP_000033	P02749	APOH_HUMAN	apolipoprotein H precursor	315	Sushi-like.				blood coagulation, intrinsic pathway|negative regulation of angiogenesis|negative regulation of blood coagulation|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of myeloid cell apoptosis|negative regulation of smooth muscle cell apoptosis|plasminogen activation|positive regulation of lipoprotein lipase activity|triglyceride metabolic process|triglyceride transport	cell surface|chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	eukaryotic cell surface binding|glycoprotein binding|heparin binding|lipoprotein lipase activator activity|phospholipid binding				0			BRCA - Breast invasive adenocarcinoma(6;9.74e-08)			TGCCATCTATACACTGAGCAT	0.403													40	65	---	---	---	---	PASS	T	64210608	T	T	64210608	4	4	81	1	0	0	0	0	0	1	0	0	804	389	14	5	100	5	APOH	17	64210608	Nonsense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1354745	64210608	16984602	694	31346										
HELZ	9931	broad.mit.edu	37	chr17	65083074	65083074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agaagattggttactgtggtCctgaagctctttacactgag	11	7	1	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:65083074C>A	uc010wqk.1	-	32	5555	c.5368G>T	c.(5368-5370)GAC>TAC	p.D1790Y	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.D1789Y	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					TTACTGTGGTCCTGAAGCTCT	0.458													35	83	---	---	---	---	PASS	A	65083074	A	A	65083074	3	1	81	1	0	0	0	0	1	0	0	0	7049	855	30	2	471	2	HELZ	17	65083074	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	872466	65083074	16112136	695	31347										
HELZ	9931	broad.mit.edu	37	chr17	65163616	65163616	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gccgaagattaagttcttcaCagcattccctagatagcctt	7	11	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:65163616C>G	uc010wqk.1	-	14	1914	c.1727G>C	c.(1726-1728)TGT>TCT	p.C576S	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.C576S	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					AAGTTCTTCACAGCATTCCCT	0.393													18	77	---	---	---	---	PASS	G	65163616	G	G	65163616	3	3	81	1	0	0	0	0	1	0	0	0	7049	478	17	4	4181	4	HELZ	17	65163616	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	80542	65163616	16031594	696	31348										
ABCA10	10349	broad.mit.edu	37	chr17	67197714	67197714	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agaggaatgctcaggatttaTttcattctcaaagatttcat	7	6	4	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:67197714T>C	uc010dfa.1	-	11	1981	c.1102A>G	c.(1102-1104)ATA>GTA	p.I368V	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_5'UTR|ABCA10_uc010dfc.1_Intron	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	368					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TCAGGATTTATTTCATTCTCA	0.348													33	67	---	---	---	---	PASS	C	67197714	C	C	67197714	3	2	81	1	0	0	0	0	1	0	0	0	29	1493	52	5	3649	5	ABCA10	17	67197714	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	2034098	67197714	13997496	697	31349										
USH1G	124590	broad.mit.edu	37	chr17	72915908	72915908	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctctgcagccgaccccgcggCgctcccaccccatccagacc	8	23	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:72915908C>A	uc002jme.1	-	2	1206	c.1023G>T	c.(1021-1023)GCG>GCT	p.A341A	USH1G_uc010wro.1_Silent_p.A238A	NM_173477	NP_775748	Q495M9	USH1G_HUMAN	Usher syndrome 1G protein	341					equilibrioception|photoreceptor cell maintenance|sensory perception of sound	actin cytoskeleton				skin(2)	2	all_lung(278;0.172)|Lung NSC(278;0.207)					GACCCCGCGGCGCTCCCACCC	0.701													20	112	---	---	---	---	PASS	A	72915908	A	A	72915908	2	1	81	1	0	0	0	0	0	0	0	1	17032	755	27	1		1	USH1G	17	72915908	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	5718194	72915908	8279302	698	31350										
QRICH2	84074	broad.mit.edu	37	chr17	74288383	74288383	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	accaggttgcaccaaaccacGctgaactgcaccaggttgca	9	14	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:74288383G>A	uc002jrd.1	-	4	2107	c.1927C>T	c.(1927-1929)CGT>TGT	p.R643C	QRICH2_uc010wsz.1_Missense_Mutation_p.R569C|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	643	Gln-rich.						protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						accaaaccacgctgaactgca	0.075													13	28	---	---	---	---	PASS	A	74288383	A	A	74288383	3	1	81	1	0	0	0	0	1	0	0	0	12880	1087	38	1	3128	1	QRICH2	17	74288383	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1372475	74288383	6906827	699	31351										
DNAH17	8632	broad.mit.edu	37	chr17	76451813	76451813	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tagcccacgtaggacacgaaGgcagagatgagcaggacgtc	14	10	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:76451813G>C	uc010dhp.1	-	8	1305	c.1083C>G	c.(1081-1083)GCC>GCG	p.A361A	DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			AGGACACGAAGGCAGAGATGA	0.522													4	10	---	---	---	---	PASS	C	76451813	C	C	76451813	2	2	81	1	0	0	0	0	0	0	0	1	4601	987	35	4		4	DNAH17	17	76451813	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	2163430	76451813	4743397	700	31352										
USP36	57602	broad.mit.edu	37	chr17	76831527	76831527	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagtcgctccgtggggaaaaGcactttctgcggggctggga	16	10	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:76831527G>A	uc002jvz.1	-	4	635	c.310C>T	c.(310-312)CTT>TTT	p.L104F	USP36_uc002jwa.1_Missense_Mutation_p.L104F|USP36_uc002jwd.1_Missense_Mutation_p.L104F	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	104					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			GTGGGGAAAAGCACTTTCTGC	0.572													6	19	---	---	---	---	PASS	A	76831527	A	A	76831527	3	1	81	1	0	0	0	0	1	0	0	0	17064	971	34	3	3129	3	USP36	17	76831527	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	379714	76831527	4363683	701	31353										
SGSH	6448	broad.mit.edu	37	chr17	78185956	78185956	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtaagggttcagcagtgcccGgccagtacaggttggtcctg	15	10	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:78185956G>A	uc002jxz.3	-	7	950	c.863C>T	c.(862-864)CCG>CTG	p.P288L	SGSH_uc002jya.3_Missense_Mutation_p.P85L|SGSH_uc002jxy.2_3'UTR|SGSH_uc010wue.1_3'UTR	NM_000199	NP_000190	P51688	SPHM_HUMAN	N-sulfoglucosamine sulfohydrolase precursor	288			P -> S (in MPS3A).		proteoglycan metabolic process	lysosome	metal ion binding|N-sulfoglucosamine sulfohydrolase activity|sulfuric ester hydrolase activity			ovary(1)|central_nervous_system(1)	2	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			AGCAGTGCCCGGCCAGTACAG	0.617													13	29	---	---	---	---	PASS	A	78185956	A	A	78185956	3	1	81	1	0	0	0	0	1	0	0	0	14221	1116	39	1	653	1	SGSH	17	78185956	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1354429	78185956	3009254	702	31354										
SLC38A10	124565	broad.mit.edu	37	chr17	79219575	79219575	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cgccgtcgcctccggaggtcGgagccagcctgcagtttcag	14	15	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:79219575G>A	uc002jzz.1	-	16	3516	c.3141C>T	c.(3139-3141)TCC>TCT	p.S1047S	SLC38A10_uc002jzy.1_Silent_p.S965S	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	1047					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			TCCGGAGGTCGGAGCCAGCCT	0.672													7	47	---	---	---	---	PASS	A	79219575	A	A	79219575	2	1	81	1	0	0	0	0	0	0	0	1	14602	1103	39	1		1	SLC38A10	17	79219575	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1033619	79219575	1975635	703	31355										
TSPAN10	83882	broad.mit.edu	37	chr17	79612390	79612390	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tggtcagcgcagtgagcctgGctggctacctgggcgccctc	15	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:79612390G>T	uc010die.2	+	2	499	c.409G>T	c.(409-411)GCT>TCT	p.A137S	TSPAN10_uc002kaw.1_Missense_Mutation_p.A137S|TSPAN10_uc010did.1_RNA	NM_031945	NP_114151	Q9H1Z9	TSN10_HUMAN	tetraspanin 10	137	Helical; (Potential).					integral to membrane				ovary(1)	1	all_neural(118;0.0878)|all_lung(278;0.175)|Lung NSC(278;0.192)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			AGTGAGCCTGGCTGGCTACCT	0.677													11	12	---	---	---	---	PASS	T	79612390	T	T	79612390	3	4	81	1	0	0	0	0	1	0	0	0	16631	1203	42	3	415	3	TSPAN10	17	79612390	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	392815	79612390	1582820	704	31356										
WDR45L	56270	broad.mit.edu	37	chr17	80579613	80579613	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtccacaagctgcacatggcCcgtgtgcgtgcccggaaagg	14	13	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr17:80579613C>A	uc002kfq.2	-	6	685	c.490G>T	c.(490-492)GGC>TGC	p.G164C	WDR45L_uc002kfr.2_RNA	NM_019613	NP_062559	Q5MNZ6	WIPI3_HUMAN	WDR45-like	164					autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1	Breast(20;0.00106)|all_neural(118;0.0952)	all_cancers(8;0.101)|all_epithelial(8;0.198)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.0835)			TGCACATGGCCCGTGTGCGTG	0.592													16	12	---	---	---	---	PASS	A	80579613	A	A	80579613	3	1	81	1	0	0	0	0	1	0	0	0	17295	623	22	3	564	3	WDR45L	17	80579613	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	967223	80579613	615597	705	31357										
LAMA1	284217	broad.mit.edu	37	chr18	7016502	7016502	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggcttacgtgtacagctacCatcctggtaggcgtagaagc	12	10	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:7016502C>A	uc002knm.2	-	21	3071	c.2977G>T	c.(2977-2979)GGT>TGT	p.G993C	LAMA1_uc010wzj.1_Missense_Mutation_p.G469C	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	993	Laminin EGF-like 10.				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)	GTACAGCTACCATCCTGGTAG	0.512													23	17	---	---	---	---	PASS	A	7016502	A	A	7016502	3	1	81	1	0	0	0	0	1	0	0	0	8605	594	21	3	6422	3	LAMA1	18	7016502	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08		7016502	71060746	706	31358										
AFG3L2	10939	broad.mit.edu	37	chr18	12358809	12358809	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttcatcctttaagaccttggCagtggtttctccgacactga	8	11	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:12358809C>A	uc002kqz.1	-	8	999	c.886G>T	c.(886-888)GCC>TCC	p.A296S		NM_006796	NP_006787	Q9Y4W6	AFG32_HUMAN	AFG3 ATPase family gene 3-like 2	296					cell death|protein catabolic process|proteolysis	integral to membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0					Adenosine triphosphate(DB00171)	AAGACCTTGGCAGTGGTTTCT	0.498													10	40	---	---	---	---	PASS	A	12358809	A	A	12358809	3	1	81	1	0	0	0	0	1	0	0	0	360	710	25	3	1547	3	AFG3L2	18	12358809	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5342307	12358809	65718439	707	31359										
CTAGE1	64693	broad.mit.edu	37	chr18	19995556	19995556	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttcagaatgtgggggctgggGggaaaaatgcaggtcttggg	19	4	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:19995556G>A	uc002ktv.1	-	1	2323	c.2219C>T	c.(2218-2220)CCC>CTC	p.P740L		NM_172241	NP_758441	Q96RT6	CTGE2_HUMAN	cutaneous T-cell lymphoma-associated antigen 1	740	Pro-rich.					integral to membrane				ovary(1)	1	all_cancers(21;0.000361)|all_epithelial(16;9.61e-06)|Colorectal(14;0.0533)|Lung NSC(20;0.0605)|Ovarian(2;0.116)|all_lung(20;0.135)					GGGGGCTGGGGGGAAAAATGC	0.502													8	9	---	---	---	---	PASS	A	19995556	A	A	19995556	3	1	81	1	0	0	0	0	1	0	0	0	3992	1232	43	3	22	3	CTAGE1	18	19995556	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	7636747	19995556	58081692	708	31360										
TAF4B	6875	broad.mit.edu	37	chr18	23895265	23895265	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaagaaaatgcctgcatcttAgcaacaaactctgaattggt	8	8	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:23895265A>G	uc002kvu.3	+	10	2394	c.1905A>G	c.(1903-1905)TTA>TTG	p.L635L	TAF4B_uc002kvs.3_RNA|TAF4B_uc002kvt.3_Silent_p.L640L	NM_005640	NP_005631	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding	635					transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			CCTGCATCTTAGCAACAAACT	0.343													11	31	---	---	---	---	PASS	G	23895265	G	G	23895265	2	3	81	1	0	0	0	0	0	0	0	1	15524	417	15	5		5	TAF4B	18	23895265	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	3899709	23895265	54181983	709	31361										
DSC3	1825	broad.mit.edu	37	chr18	28604414	28604414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctgatgggtagtgggagggGcagatctgctgaatatccat	15	7	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:28604414G>T	uc002kwj.3	-	6	831	c.676C>A	c.(676-678)CCC>ACC	p.P226T	DSC3_uc002kwi.3_Missense_Mutation_p.P226T	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	226	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			AGTGGGAGGGGCAGATCTGCT	0.408													26	28	---	---	---	---	PASS	T	28604414	T	T	28604414	3	4	81	1	0	0	0	0	1	0	0	0	4767	1203	42	3	2089	3	DSC3	18	28604414	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4709149	28604414	49472834	710	31362										
DSG4	147409	broad.mit.edu	37	chr18	28979253	28979253	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agatgctggattatgaacaaGcacctaacattcagcttagt	8	8	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:28979253G>A	uc002kwq.2	+	9	1159	c.1024G>A	c.(1024-1026)GCA>ACA	p.A342T	DSG4_uc002kwr.2_Missense_Mutation_p.A342T	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	342	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TTATGAACAAGCACCTAACAT	0.378													21	88	---	---	---	---	PASS	A	28979253	A	A	28979253	3	1	81	1	0	0	0	0	1	0	0	0	4779	971	34	3	1058	3	DSG4	18	28979253	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	374839	28979253	49097995	711	31363										
SLC39A6	25800	broad.mit.edu	37	chr18	33706432	33706432	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cttcactagcactaacactgTccttgacattccttctacca	3	15	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:33706432T>A	uc010dmy.2	-	2	829	c.539A>T	c.(538-540)GAC>GTC	p.D180V	SLC39A6_uc002kzj.2_Intron	NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	180	Extracellular (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						ACTAACACTGTCCTTGACATT	0.468													41	102	---	---	---	---	PASS	A	33706432	A	A	33706432	3	1	81	1	0	0	0	0	1	0	0	0	14622	1667	58	5	1776	5	SLC39A6	18	33706432	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	4727179	33706432	44370816	712	31364										
SETBP1	26040	broad.mit.edu	37	chr18	42281564	42281564	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agaaatgggtggcaggagatGgtttggaagagcaggaattt	17	2	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:42281564G>T	uc010dni.2	+	2	549	c.253G>T	c.(253-255)GGT>TGT	p.G85C	SETBP1_uc002lay.2_Missense_Mutation_p.G85C	NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	85						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GGCAGGAGATGGTTTGGAAGA	0.522									Schinzel-Giedion_syndrome				20	26	---	---	---	---	PASS	T	42281564	T	T	42281564	3	4	81	1	0	0	0	0	1	0	0	0	14129	1348	47	3	255	3	SETBP1	18	42281564	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	8575132	42281564	35795684	713	31365										
SETBP1	26040	broad.mit.edu	37	chr18	42281695	42281695	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aactatatatgtccacctgaGatcaagatcaccatcaagca	5	11	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:42281695G>T	uc010dni.2	+	2	680	c.384G>T	c.(382-384)GAG>GAT	p.E128D	SETBP1_uc002lay.2_Missense_Mutation_p.E128D	NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	128						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GTCCACCTGAGATCAAGATCA	0.463									Schinzel-Giedion_syndrome				10	35	---	---	---	---	PASS	T	42281695	T	T	42281695	3	4	81	1	0	0	0	0	1	0	0	0	14129	933	33	2	386	2	SETBP1	18	42281695	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	131	42281695	35795553	714	31366										
TCEB3B	51224	broad.mit.edu	37	chr18	44561037	44561037	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcagaggcccgccctgagccGcgtgagtgtggcctcttccg	15	15	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:44561037G>T	uc002lcr.1	-	1	952	c.599C>A	c.(598-600)GCG>GAG	p.A200E	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	200					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GCCCTGAGCCGCGTGAGTGTG	0.692													5	31	---	---	---	---	PASS	T	44561037	T	T	44561037	3	4	81	1	0	0	0	0	1	0	0	0	15679	1087	38	1	1666	1	TCEB3B	18	44561037	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2279342	44561037	33516211	715	31367										
CXXC1	30827	broad.mit.edu	37	chr18	47813008	47813008	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcattgcagttgtcacaccCgctgcagaggatggggcagg	14	11	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:47813008C>A	uc002leq.3	-	3	857	c.124G>T	c.(124-126)GGG>TGG	p.G42W	CXXC1_uc002lep.3_5'UTR|CXXC1_uc002ler.3_Missense_Mutation_p.G42W|CXXC1_uc010doy.2_Missense_Mutation_p.G42W|CXXC1_uc002les.2_Missense_Mutation_p.G42W	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	42	PHD-type.				histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						TTGTCACACCCGCTGCAGAGG	0.647													39	37	---	---	---	---	PASS	A	47813008	A	A	47813008	3	1	81	1	0	0	0	0	1	0	0	0	4097	666	23	1	1910	1	CXXC1	18	47813008	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3251971	47813008	30264240	716	31368										
ME2	4200	broad.mit.edu	37	chr18	48446850	48446850	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggccggaacacactcattcaGttcgaagactttggaaatca	9	10	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:48446850G>T	uc002ley.2	+	8	1015	c.759G>T	c.(757-759)CAG>CAT	p.Q253H	ME2_uc010dpd.2_Missense_Mutation_p.Q253H	NM_002396	NP_002387	P23368	MAOM_HUMAN	malic enzyme 2, NAD(+)-dependent, mitochondrial	253					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)	CACTCATTCAGTTCGAAGACT	0.338													12	31	---	---	---	---	PASS	T	48446850	T	T	48446850	3	4	81	1	0	0	0	0	1	0	0	0	9418	1020	36	3	785	3	ME2	18	48446850	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	633842	48446850	29630398	717	31369										
ST8SIA3	51046	broad.mit.edu	37	chr18	55024578	55024578	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cggggccattctttggatccCtgcatttttcttccacactt	7	13	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:55024578C>A	uc002lgn.2	+	3	1094	c.737C>A	c.(736-738)CCT>CAT	p.P246H		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	246	Lumenal (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		CTTTGGATCCCTGCATTTTTC	0.418													33	34	---	---	---	---	PASS	A	55024578	A	A	55024578	3	1	81	1	0	0	0	0	1	0	0	0	15232	681	24	3	747	3	ST8SIA3	18	55024578	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	6577728	55024578	23052670	718	31370										
ST8SIA3	51046	broad.mit.edu	37	chr18	55027251	55027251	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggaaaaacaaacatttgtcaCctaaacggctgagcacaggt	9	9	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:55027251C>A	uc002lgn.2	+	4	1243	c.886C>A	c.(886-888)CCT>ACT	p.P296T		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	296	Lumenal (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		ACATTTGTCACCTAAACGGCT	0.423													20	9	---	---	---	---	PASS	A	55027251	A	A	55027251	3	1	81	1	0	0	0	0	1	0	0	0	15232	507	18	3	900	3	ST8SIA3	18	55027251	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2673	55027251	23049997	719	31371										
NARS	4677	broad.mit.edu	37	chr18	55270055	55270055	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaaactgacagattcagtaaGacgggaatcctcaggacatc	10	9	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:55270055G>C	uc002lgs.2	-	12	1600	c.1372C>G	c.(1372-1374)CTT>GTT	p.L458V	NARS_uc002lgt.2_Missense_Mutation_p.L457V|NARS_uc010xea.1_Missense_Mutation_p.L209V	NM_004539	NP_004530	O43776	SYNC_HUMAN	asparaginyl-tRNA synthetase	458					asparaginyl-tRNA aminoacylation	cytosol|soluble fraction	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding				0		Colorectal(73;0.227)			L-Asparagine(DB00174)	GATTCAGTAAGACGGGAATCC	0.428													23	23	---	---	---	---	PASS	C	55270055	C	C	55270055	3	2	81	1	0	0	0	0	1	0	0	0	10170	942	33	2	286	2	NARS	18	55270055	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	242804	55270055	22807193	720	31372										
NEDD4L	23327	broad.mit.edu	37	chr18	56033437	56033437	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gagatgttcaacccctactaCggcctctttgagtactctgc	8	13	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:56033437C>T	uc002lgy.2	+	21	2314	c.2040C>T	c.(2038-2040)TAC>TAT	p.Y680Y	NEDD4L_uc002lgz.2_Silent_p.Y616Y|NEDD4L_uc002lgx.2_Silent_p.Y660Y|NEDD4L_uc010xee.1_Silent_p.Y559Y|NEDD4L_uc002lhc.2_Silent_p.Y672Y|NEDD4L_uc002lhd.2_Silent_p.Y559Y|NEDD4L_uc002lhb.2_Silent_p.Y539Y|NEDD4L_uc002lhe.2_Silent_p.Y652Y|NEDD4L_uc002lhf.2_Silent_p.Y539Y|NEDD4L_uc002lhg.2_Silent_p.Y559Y|NEDD4L_uc002lhh.2_Silent_p.Y455Y|NEDD4L_uc010dpn.2_Translation_Start_Site	NM_001144967	NP_001138439	Q96PU5	NED4L_HUMAN	neural precursor cell expressed, developmentally	680	HECT.				cellular sodium ion homeostasis|excretion|interspecies interaction between organisms|positive regulation of endocytosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of protein catabolic process|response to metal ion|sodium ion transport|water homeostasis	cytoplasm	protein binding|sodium channel regulator activity|ubiquitin-protein ligase activity			lung(4)	4						ACCCCTACTACGGCCTCTTTG	0.458													5	7	---	---	---	---	PASS	T	56033437	T	T	56033437	2	4	81	1	0	0	0	0	0	0	0	1	10311	547	19	1		1	NEDD4L	18	56033437	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	763382	56033437	22043811	721	31373										
CCBE1	147372	broad.mit.edu	37	chr18	57103262	57103262	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttcctgaggtaaagggaactCctctgctgaagagtgagtcc	12	9	1	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:57103262C>A	uc002lib.2	-	11	1169	c.1099G>T	c.(1099-1101)GAG>TAG	p.E367*	CCBE1_uc010dpq.2_Nonsense_Mutation_p.E96*|CCBE1_uc002lia.2_Nonsense_Mutation_p.E220*	NM_133459	NP_597716	Q6UXH8	CCBE1_HUMAN	collagen and calcium binding EGF domains 1	367					lymphangiogenesis|sprouting angiogenesis|venous blood vessel morphogenesis	collagen	calcium ion binding			skin(2)|ovary(1)	3		Colorectal(73;0.175)				AAAGGGAACTCCTCTGCTGAA	0.517													66	59	---	---	---	---	PASS	A	57103262	A	A	57103262	4	1	81	1	0	0	0	0	0	1	0	0	2731	864	30	2	125	2	CCBE1	18	57103262	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1069825	57103262	20973986	722	31374										
SERPINB12	89777	broad.mit.edu	37	chr18	61232760	61232760	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggaggtgaaggcacagatccTggaaatgaggtacaccaagg	15	7	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:61232760T>C	uc010xen.1	+	6	728	c.728T>C	c.(727-729)CTG>CCG	p.L243P	SERPINB12_uc010xeo.1_Missense_Mutation_p.L263P	NM_080474	NP_536722	Q96P63	SPB12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	243					negative regulation of protein catabolic process|regulation of proteolysis	cytoplasm	enzyme binding|serine-type endopeptidase inhibitor activity				0						GCACAGATCCTGGAAATGAGG	0.453													12	47	---	---	---	---	PASS	C	61232760	C	C	61232760	3	2	81	1	0	0	0	0	1	0	0	0	14099	1580	55	5	750	5	SERPINB12	18	61232760	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	4129498	61232760	16844488	723	31375										
CDH7	1005	broad.mit.edu	37	chr18	63525062	63525062	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttcaattaggtactcaattGacagaaacacagacttggag	9	7	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:63525062G>C	uc002ljz.2	+	8	1571	c.1246G>C	c.(1246-1248)GAC>CAC	p.D416H	CDH7_uc002lka.2_Missense_Mutation_p.D416H|CDH7_uc002lkb.2_Missense_Mutation_p.D416H	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	416	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GTACTCAATTGACAGAAACAC	0.353													29	65	---	---	---	---	PASS	C	63525062	C	C	63525062	3	2	81	1	0	0	0	0	1	0	0	0	3115	1290	45	2	1272	2	CDH7	18	63525062	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2292302	63525062	14552186	724	31376										
NETO1	81832	broad.mit.edu	37	chr18	70526277	70526277	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttcaatagagtacttttcatCaaagtaaagttcaatgcact	5	7	4	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:70526277C>A	uc002lkw.2	-	4	537	c.253G>T	c.(253-255)GAT>TAT	p.D85Y	NETO1_uc002lkx.1_Missense_Mutation_p.D84Y|NETO1_uc002lky.1_Missense_Mutation_p.D85Y|NETO1_uc002lkz.2_Missense_Mutation_p.D84Y	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	85	CUB 1.|Extracellular (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		TACTTTTCATCAAAGTAAAGT	0.383													15	43	---	---	---	---	PASS	A	70526277	A	A	70526277	3	1	81	1	0	0	0	0	1	0	0	0	10339	826	29	2	1385	2	NETO1	18	70526277	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	7001215	70526277	7550971	725	31377										
FBXO15	201456	broad.mit.edu	37	chr18	71740911	71740911	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcacaccggggaactgaaacAccaaaagggtttcccatgtt	10	11	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:71740911A>C	uc002lle.2	-	10	1426	c.1090T>G	c.(1090-1092)TGT>GGT	p.C364G	FBXO15_uc002lld.2_RNA|FBXO15_uc002llf.2_Missense_Mutation_p.C440G	NM_152676	NP_689889	Q8NCQ5	FBX15_HUMAN	F-box protein 15 isoform 1	364										ovary(2)|pancreas(1)	3		Esophageal squamous(42;0.103)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.143)		GAACTGAAACACCAAAAGGGT	0.478													59	62	---	---	---	---	PASS	C	71740911	C	C	71740911	3	2	81	1	0	0	0	0	1	0	0	0	5728	159	6	5	218	5	FBXO15	18	71740911	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1214634	71740911	6336337	726	31378										
CNDP1	84735	broad.mit.edu	37	chr18	72251777	72251777	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttatttgctgcctttttcttAgagatggcccagctccatta	7	10	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:72251777A>T	uc002llq.2	+	12	1714	c.1503A>T	c.(1501-1503)TTA>TTT	p.L501F	CNDP1_uc002lls.2_Missense_Mutation_p.L304F	NM_032649	NP_116038	Q96KN2	CNDP1_HUMAN	carnosinase 1 precursor	501					proteolysis	extracellular region	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity|tripeptidase activity				0		Esophageal squamous(42;0.129)|Prostate(75;0.157)|Melanoma(33;0.211)		BRCA - Breast invasive adenocarcinoma(31;0.109)		CCTTTTTCTTAGAGATGGCCC	0.403													29	25	---	---	---	---	PASS	T	72251777	T	T	72251777	3	4	81	1	0	0	0	0	1	0	0	0	3593	417	15	5	1549	5	CNDP1	18	72251777	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	510866	72251777	5825471	727	31379										
ZNF407	55628	broad.mit.edu	37	chr18	72345798	72345798	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctggctcagcagtgaccatGtcagatgaacatgctaacaa	10	10	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:72345798G>A	uc002llw.2	+	1	2880	c.2823G>A	c.(2821-2823)ATG>ATA	p.M941I	ZNF407_uc010xfc.1_Missense_Mutation_p.M941I|ZNF407_uc010dqu.1_Missense_Mutation_p.M941I|ZNF407_uc002llu.2_Missense_Mutation_p.M940I	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	941					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		CAGTGACCATGTCAGATGAAC	0.438													4	24	---	---	---	---	PASS	A	72345798	A	A	72345798	3	1	81	1	0	0	0	0	1	0	0	0	17884	1377	48	3	2825	3	ZNF407	18	72345798	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	94021	72345798	5731450	728	31380										
SALL3	27164	broad.mit.edu	37	chr18	76753817	76753817	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgcaccaacgccagggccgGggacgctcccgtgggcgcgc	16	17	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:76753817G>T	uc002lmt.2	+	2	1826	c.1826G>T	c.(1825-1827)GGG>GTG	p.G609V	SALL3_uc010dra.2_Missense_Mutation_p.G216V	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	609					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		GCCAGGGCCGGGGACGCTCCC	0.761													3	5	---	---	---	---	PASS	T	76753817	T	T	76753817	3	4	81	1	0	0	0	0	1	0	0	0	13812	1232	43	3	1832	3	SALL3	18	76753817	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4408019	76753817	1323431	729	31381										
CTDP1	9150	broad.mit.edu	37	chr18	77477825	77477825	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gacagggagaacagccctgcGgcctttcccgaccgggaggg	16	13	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr18:77477825G>A	uc002lnh.1	+	10	2373	c.2226G>A	c.(2224-2226)GCG>GCA	p.A742A	CTDP1_uc002lni.1_Silent_p.A742A|CTDP1_uc010drd.1_Silent_p.A742A	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	742					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		ACAGCCCTGCGGCCTTTCCCG	0.667													15	47	---	---	---	---	PASS	A	77477825	A	A	77477825	2	1	81	1	0	0	0	0	0	0	0	1	4002	1103	39	1		1	CTDP1	18	77477825	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	724008	77477825	599423	730	31382										
RNF126	55658	broad.mit.edu	37	chr19	652863	652863	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcctcgataaaaccagactCgcatcttggacagatataat	6	11	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:652863C>A	uc010drs.2	-	2	203	c.97G>T	c.(97-99)GAG>TAG	p.E33*	RNF126_uc002lpi.2_5'Flank	NM_194460	NP_919442	Q9BV68	RN126_HUMAN	ring finger protein 126	33							protein binding|zinc ion binding				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAACCAGACTCGCATCTTGGA	0.592													8	2	---	---	---	---	PASS	A	652863	A	A	652863	4	1	81	1	0	0	0	0	0	1	0	0	13435	893	31	2	870	2	RNF126	19	652863	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08		652863	58476120	731	31383										
STK11	6794	broad.mit.edu	37	chr19	1221314	1221314	+	Frame_Shift_Del	DEL	C	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gccatcccgggcgactgtggCcccccgctctctgacctgct					rs67873004		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:1221314delC	uc002lrl.1	+	6	1952	c.837delC	c.(835-837)GGCfs	p.G279fs		NM_000455	NP_000446	Q15831	STK11_HUMAN	serine/threonine protein kinase 11	279	Protein kinase.				anoikis|cell cycle arrest|energy reserve metabolic process|insulin receptor signaling pathway|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.0?(19)|p.P281fs*6(2)|p.?(2)|p.Y246fs*3(1)|p.G279F(1)		lung(174)|cervix(35)|skin(15)|large_intestine(12)|pancreas(6)|gastrointestinal_tract_(site_indeterminate)(5)|stomach(4)|ovary(4)|breast(2)|upper_aerodigestive_tract(1)|testis(1)|liver(1)|biliary_tract(1)|small_intestine(1)|urinary_tract(1)|oesophagus(1)|prostate(1)|kidney(1)	266		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Renal(1328;0.0183)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.00942)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGACTGTGGCCCCCCGCTCT	0.607		14	D|Mis|N|F|S		NSCLC|pancreatic	jejunal harmartoma|ovarian|testicular|pancreatic			Peutz-Jeghers_syndrome	TSP Lung(3;<1E-08)			5	5	---	---	---	---		-	1221314	-	-	1221314	7	5	81	1	0	1	0	1	0	0	0	0	15286	726	26	0	859	0	STK11	19	1221314	Frame_Shift_Del	DEL	C	TCGA-37-5819-01A-01D-1632-08	568451	1221314	57907669	732	31384										
DOT1L	84444	broad.mit.edu	37	chr19	2191145	2191145	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aactacgagcccttctccccCgaggtgtacggggagacctc	11	15	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:2191145C>G	uc002lvb.3	+	5	435	c.399C>G	c.(397-399)CCC>CCG	p.P133P		NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	133						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTTCTCCCCCGAGGTGTACG	0.602													3	33	---	---	---	---	PASS	G	2191145	G	G	2191145	2	3	81	1	0	0	0	0	0	0	0	1	4709	639	23	4		4	DOT1L	19	2191145	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	969831	2191145	56937838	733	31385										
PNPLA6	10908	broad.mit.edu	37	chr19	7618810	7618810	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaactcaccaacccagccagCaacctggcaactgtggcaat	8	15	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:7618810C>A	uc010xjq.1	+	21	2535	c.2340C>A	c.(2338-2340)AGC>AGA	p.S780R	PNPLA6_uc002mgq.1_Missense_Mutation_p.S732R|PNPLA6_uc010xjp.1_Missense_Mutation_p.S705R|PNPLA6_uc002mgr.1_Missense_Mutation_p.S732R|PNPLA6_uc002mgs.2_Missense_Mutation_p.S770R|PNPLA6_uc002mgt.1_5'Flank	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	771	Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						ACCCAGCCAGCAACCTGGCAA	0.607													8	19	---	---	---	---	PASS	A	7618810	A	A	7618810	3	1	81	1	0	0	0	0	1	0	0	0	12169	709	25	3	2418	3	PNPLA6	19	7618810	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	5427665	7618810	51510173	734	31386										
KIAA1543	57662	broad.mit.edu	37	chr19	7677726	7677726	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agtcaccccgcagcccgaaaCacacgcggccagcggagctg	12	17	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:7677726C>T	uc002mgv.3	+	11	2448	c.2347C>T	c.(2347-2349)CAC>TAC	p.H783Y	KIAA1543_uc002mgu.3_Missense_Mutation_p.H810Y|KIAA1543_uc002mgw.2_5'Flank	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	783	Pro-rich.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						CAGCCCGAAACACACGCGGCC	0.741													4	4	---	---	---	---	PASS	T	7677726	T	T	7677726	3	4	81	1	0	0	0	0	1	0	0	0	8243	478	17	3	2478	3	KIAA1543	19	7677726	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	58916	7677726	51451257	735	31387										
C19orf59	199675	broad.mit.edu	37	chr19	7743012	7743012	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccagcccagtgcaggccgccCtcagactccacccaggtccc	9	21	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:7743012C>A	uc002mhh.1	+	3	232	c.207C>A	c.(205-207)CCC>CCA	p.P69P	TRAPPC5_uc002mhi.1_5'Flank|TRAPPC5_uc002mhj.1_5'Flank|TRAPPC5_uc002mhk.1_5'Flank	NM_174918	NP_777578	Q8IX19	MCEM1_HUMAN	mast cell-expressed membrane protein 1	69	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						GCAGGCCGCCCTCAGACTCCA	0.592											OREG0025208	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	66	33	---	---	---	---	PASS	A	7743012	A	A	7743012	2	1	81	1	0	0	0	0	0	0	0	1	1940	668	24	3		3	C19orf59	19	7743012	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	65286	7743012	51385971	736	31388										
MUC16	94025	broad.mit.edu	37	chr19	8966791	8966791	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttacacagggagtccacccCggtgtggtgcctgttgggga	16	10	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:8966791C>A	uc002mkp.2	-	81	43366	c.43162G>T	c.(43162-43164)GGG>TGG	p.G14388W	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.G1188W|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	14484	SEA 16.|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						GAGTCCACCCCGGTGTGGTGC	0.517													3	2	---	---	---	---	PASS	A	8966791	A	A	8966791	3	1	81	1	0	0	0	0	1	0	0	0	9973	652	23	1	377	1	MUC16	19	8966791	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1223779	8966791	50162192	737	31389										
MUC16	94025	broad.mit.edu	37	chr19	9060167	9060167	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttgaagtgtccaaggtaagGgtaccccttgatgtagcccc	12	10	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:9060167G>A	uc002mkp.2	-	3	27483	c.27279C>T	c.(27277-27279)ACC>ACT	p.T9093T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9095	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCAAGGTAAGGGTACCCCTTG	0.473													50	15	---	---	---	---	PASS	A	9060167	A	A	9060167	2	1	81	1	0	0	0	0	0	0	0	1	9973	1219	43	3		3	MUC16	19	9060167	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	93376	9060167	50068816	738	31390										
MUC16	94025	broad.mit.edu	37	chr19	9091069	9091069	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttccaggcttgtttcacctCtggaatttggggtcccttta	10	10	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:9091069C>A	uc002mkp.2	-	1	950	c.746G>T	c.(745-747)AGA>ATA	p.R249I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	249	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTTTCACCTCTGGAATTTGG	0.473													17	7	---	---	---	---	PASS	A	9091069	A	A	9091069	3	1	81	1	0	0	0	0	1	0	0	0	9973	913	32	2	43113	2	MUC16	19	9091069	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	30902	9091069	50037914	739	31391										
MRPL4	51073	broad.mit.edu	37	chr19	10370337	10370337	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agcaccagacgctggtcctgAcgctgcccaccgtcgccttc	10	18	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:10370337A>T	uc002mnm.2	+	10	938	c.784A>T	c.(784-786)ACG>TCG	p.T262S	MRPL4_uc002mnn.2_Missense_Mutation_p.T262S|MRPL4_uc002mno.2_3'UTR	NM_146387	NP_666499	Q9BYD3	RM04_HUMAN	mitochondrial ribosomal protein L4 isoform a	262					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1		Renal(1328;0.0112)	OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;1.99e-06)|all cancers(31;4.81e-06)	Lung(535;0.00705)		GCTGGTCCTGACGCTGCCCAC	0.532													10	6	---	---	---	---	PASS	T	10370337	T	T	10370337	3	4	81	1	0	0	0	0	1	0	0	0	9803	275	10	5	871	5	MRPL4	19	10370337	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1279268	10370337	48758646	740	31392										
KEAP1	9817	broad.mit.edu	37	chr19	10600417	10600417	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgaattaaggcggtttgtccCgtcaaagccccccacggcat	10	13	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:10600417C>A	uc002moq.1	-	4	1594	c.1438G>T	c.(1438-1440)GGG>TGG	p.G480W	KEAP1_uc002mop.1_Missense_Mutation_p.G198W|KEAP1_uc002mor.1_Missense_Mutation_p.G480W	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	480	Kelch 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CGGTTTGTCCCGTCAAAGCCC	0.582													22	3	---	---	---	---	PASS	A	10600417	A	A	10600417	3	1	81	1	0	0	0	0	1	0	0	0	8141	652	23	1	448	1	KEAP1	19	10600417	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	230080	10600417	48528566	741	31393										
PRKCSH	5589	broad.mit.edu	37	chr19	11559427	11559427	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tacctgtacagccagtgctaCgagctcaccaccaacgagtg	9	14	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:11559427C>T	uc002mrt.2	+	14	1584	c.1248C>T	c.(1246-1248)TAC>TAT	p.Y416Y	PRKCSH_uc002mru.2_Silent_p.Y413Y|PRKCSH_uc010xlz.1_Silent_p.Y423Y|PRKCSH_uc010dya.2_Silent_p.Y198Y|PRKCSH_uc010dyb.2_Silent_p.Y413Y	NM_002743	NP_002734	P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H isoform 1	416	PRKCSH.				innate immune response|intracellular protein kinase cascade|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen	calcium ion binding|protein kinase C binding				0						GCCAGTGCTACGAGCTCACCA	0.622													36	10	---	---	---	---	PASS	T	11559427	T	T	11559427	2	4	81	1	0	0	0	0	0	0	0	1	12516	547	19	1		1	PRKCSH	19	11559427	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	959010	11559427	47569556	742	31394										
GCDH	2639	broad.mit.edu	37	chr19	13010343	13010343	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acgggaatccaggcgttcacGgccagcaagtgagccgctcc	13	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:13010343G>T	uc002mvq.2	+	12	1382	c.1305G>T	c.(1303-1305)ACG>ACT	p.T435T	GCDH_uc002mvp.2_Intron|GCDH_uc010xmt.1_Silent_p.T269T|GCDH_uc010xmu.1_Silent_p.T391T|SYCE2_uc002mvr.2_Intron	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a	435					lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						AGGCGTTCACGGCCAGCAAGT	0.547													18	4	---	---	---	---	PASS	T	13010343	T	T	13010343	2	4	81	1	0	0	0	0	0	0	0	1	6287	1103	39	1		1	GCDH	19	13010343	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1450916	13010343	46118640	743	31395										
PKN1	5585	broad.mit.edu	37	chr19	14552023	14552023	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcagacctggcggcccccggGgtacagcagcagctggagct	16	14	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:14552023G>T	uc002myp.2	+	2	258	c.90G>T	c.(88-90)GGG>GGT	p.G30G	PKN1_uc002myq.2_Silent_p.G36G	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	30					activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						CGGCCCCCGGGGTACAGCAGC	0.687													10	2	---	---	---	---	PASS	T	14552023	T	T	14552023	2	4	81	1	0	0	0	0	0	0	0	1	11979	1219	43	3		3	PKN1	19	14552023	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	1541680	14552023	44576960	744	31396										
JAK3	3718	broad.mit.edu	37	chr19	17949164	17949164	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caaggatgatgtgggtgggcTgtgacctctctggaccacga	15	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:17949164T>G	uc002nhn.3	-	11	1577	c.1477A>C	c.(1477-1479)AGC>CGC	p.S493R	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Missense_Mutation_p.S493R|JAK3_uc010xpx.1_3'UTR	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	493					B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding	p.S493C(1)		haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						GTGGGTGGGCTGTGACCTCTC	0.512		2	Mis		acute megakaryocytic leukemia|								49	58	---	---	---	---	PASS	G	17949164	G	G	17949164	3	3	81	1	0	0	0	0	1	0	0	0	7939	1580	55	5	1953	5	JAK3	19	17949164	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	3397141	17949164	41179819	745	31397										
SFRS14	10147	broad.mit.edu	37	chr19	19115271	19115271	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagctcagcctcccgcggagGgggctcgtcttcaaactctg	12	15	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:19115271G>A	uc002nkx.2	-	7	2781	c.2635C>T	c.(2635-2637)CCT>TCT	p.P879S	SFRS14_uc002nkz.1_Missense_Mutation_p.P893S|SFRS14_uc002nla.1_Missense_Mutation_p.P879S|SFRS14_uc002nlb.2_Missense_Mutation_p.P879S|SFRS14_uc010xqk.1_Missense_Mutation_p.P648S	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	879	Asp/Glu-rich.				mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			TCCCGCGGAGGGGGCTCGTCT	0.517													24	27	---	---	---	---	PASS	A	19115271	A	A	19115271	3	1	81	1	0	0	0	0	1	0	0	0	14170	1232	43	3	629	3	SFRS14	19	19115271	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1166107	19115271	40013712	746	31398										
ZNF257	113835	broad.mit.edu	37	chr19	22271876	22271876	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agtgtggcaaagcctttaacCggtcttcataccttattcga	8	10	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:22271876C>T	uc010ecx.2	+	4	1493	c.1324C>T	c.(1324-1326)CGG>TGG	p.R442W	ZNF257_uc010ecy.2_Missense_Mutation_p.R410W	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	442	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				AGCCTTTAACCGGTCTTCATA	0.403													7	29	---	---	---	---	PASS	T	22271876	T	T	22271876	3	4	81	1	0	0	0	0	1	0	0	0	17797	643	23	1	1338	1	ZNF257	19	22271876	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3156605	22271876	36857107	747	31399										
ZNF536	9745	broad.mit.edu	37	chr19	30935911	30935911	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagcatggcccacggcgtccCggagggggacaagcactccc	14	16	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:30935911C>T	uc002nsu.1	+	2	1580	c.1442C>T	c.(1441-1443)CCG>CTG	p.P481L	ZNF536_uc010edd.1_Missense_Mutation_p.P481L	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	481					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CACGGCGTCCCGGAGGGGGAC	0.662													10	54	---	---	---	---	PASS	T	30935911	T	T	30935911	3	4	81	1	0	0	0	0	1	0	0	0	17971	652	23	1	1444	1	ZNF536	19	30935911	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	8664035	30935911	28193072	748	31400										
ZNF536	9745	broad.mit.edu	37	chr19	30936632	30936632	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccgcacccctcctcgccatcCtcctcaggtaggttagctga	8	18	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:30936632C>A	uc002nsu.1	+	2	2301	c.2163C>A	c.(2161-2163)TCC>TCA	p.S721S	ZNF536_uc010edd.1_Silent_p.S721S	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	721					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CCTCGCCATCCTCCTCAGGTA	0.667													9	11	---	---	---	---	PASS	A	30936632	A	A	30936632	2	1	81	1	0	0	0	0	0	0	0	1	17971	668	24	3		3	ZNF536	19	30936632	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	721	30936632	28192351	749	31401										
FXYD5	53827	broad.mit.edu	37	chr19	35657195	35657195	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gggggctgttggtcgcagctGtgctgttcatcacaggcatc	15	10	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:35657195G>C	uc002nyg.1	+	8	540	c.454G>C	c.(454-456)GTG>CTG	p.V152L	FXYD5_uc010xsq.1_Missense_Mutation_p.V152L|FXYD5_uc002nyh.1_Missense_Mutation_p.V152L|FXYD5_uc002nyi.1_Missense_Mutation_p.V89L|FXYD5_uc002nyj.1_5'Flank	NM_014164	NP_054883	Q96DB9	FXYD5_HUMAN	FXYD domain-containing ion transport regulator 5	152	Helical; (Potential).				microvillus assembly|negative regulation of calcium-dependent cell-cell adhesion	integral to membrane	actin binding|cadherin binding|ion channel activity				0	all_lung(56;9.4e-09)|Lung NSC(56;1.4e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.75e-22)|OV - Ovarian serous cystadenocarcinoma(14;3.17e-20)|all cancers(14;7.07e-19)|LUSC - Lung squamous cell carcinoma(66;0.0221)			GGTCGCAGCTGTGCTGTTCAT	0.567													118	176	---	---	---	---	PASS	C	35657195	C	C	35657195	3	2	81	1	0	0	0	0	1	0	0	0	6121	1377	48	4	480	4	FXYD5	19	35657195	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4720563	35657195	23471788	750	31402										
CD22	933	broad.mit.edu	37	chr19	35829214	35829214	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggaaagaaatgcagggaaggAcagaggagaaagtccacatc	14	6	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:35829214A>T	uc010edt.2	+	6	1206	c.1129A>T	c.(1129-1131)ACA>TCA	p.T377S	CD22_uc010xst.1_Missense_Mutation_p.T205S|CD22_uc010edu.2_Intron|CD22_uc010edv.2_Missense_Mutation_p.T377S|CD22_uc002nzb.3_Intron|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	377	Extracellular (Potential).|Ig-like C2-type 3.				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)	GCAGGGAAGGACAGAGGAGAA	0.512													32	44	---	---	---	---	PASS	T	35829214	T	T	35829214	3	4	81	1	0	0	0	0	1	0	0	0	2985	275	10	5	1147	5	CD22	19	35829214	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	172019	35829214	23299769	751	31403										
SBSN	374897	broad.mit.edu	37	chr19	36017720	36017720	+	Frame_Shift_Del	DEL	C	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaagtttctctgcttccttCccagcctggtggaccccagt							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:36017720delC	uc002oae.1	-	2	505	c.435delG	c.(433-435)GGGfs	p.G145fs	SBSN_uc002oad.1_Frame_Shift_Del_p.G488fs	NM_198538	NP_940940	Q6UWP8	SBSN_HUMAN	suprabasin isoform 2 precursor	145	Ala/Gly/His-rich.					extracellular region				ovary(1)	1	all_lung(56;1.62e-08)|Lung NSC(56;2.47e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CTGCTTCCTTCCCAGCCTGGT	0.597													41	34	---	---	---	---		-	36017720	-	-	36017720	7	5	81	1	0	1	0	1	0	0	0	0	13864	842	30	0	324	0	SBSN	19	36017720	Frame_Shift_Del	DEL	C	TCGA-37-5819-01A-01D-1632-08	188506	36017720	23111263	752	31404										
RBM42	79171	broad.mit.edu	37	chr19	36122069	36122069	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agactctggaggcccgagcaGctgctgcagccacagtagtt	13	12	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:36122069G>T	uc002oan.2	+	3	386	c.310G>T	c.(310-312)GCT>TCT	p.A104S	RBM42_uc010xsx.1_Missense_Mutation_p.A104S|RBM42_uc010eef.2_Missense_Mutation_p.A104S|RBM42_uc002oao.2_Missense_Mutation_p.A104S|RBM42_uc002oap.2_Missense_Mutation_p.A104S|RBM42_uc002oaq.2_Missense_Mutation_p.A104S|RBM42_uc010eeg.2_Missense_Mutation_p.A104S	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	104						cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GGCCCGAGCAGCTGCTGCAGC	0.607													44	91	---	---	---	---	PASS	T	36122069	T	T	36122069	3	4	81	1	0	0	0	0	1	0	0	0	13136	971	34	3	320	3	RBM42	19	36122069	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	104349	36122069	23006914	753	31405										
PRODH2	58510	broad.mit.edu	37	chr19	36303119	36303119	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggggggctccaggaggccccGtgacaggtccacacaccgca	15	15	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:36303119G>A	uc002obx.1	-	4	673	c.655C>T	c.(655-657)CGG>TGG	p.R219W		NM_021232	NP_067055	Q9UF12	PROD2_HUMAN	kidney and liver proline oxidase 1	219					glutamate biosynthetic process|proline catabolic process		proline dehydrogenase activity			ovary(2)	2	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGGAGGCCCCGTGACAGGTCC	0.642													45	64	---	---	---	---	PASS	A	36303119	A	A	36303119	3	1	81	1	0	0	0	0	1	0	0	0	12549	1144	40	1	987	1	PRODH2	19	36303119	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	181050	36303119	22825864	754	31406										
NPHS1	4868	broad.mit.edu	37	chr19	36334412	36334412	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catgcccgggaggatgggatTggcatcgacagtgcagacta	15	9	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:36334412T>A	uc002oby.2	-	17	2296	c.2296A>T	c.(2296-2298)AAT>TAT	p.N766Y		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	766	Ig-like C2-type 7.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGGATGGGATTGGCATCGACA	0.552													72	87	---	---	---	---	PASS	A	36334412	A	A	36334412	3	1	81	1	0	0	0	0	1	0	0	0	10582	1812	63	5	1481	5	NPHS1	19	36334412	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	31293	36334412	22794571	755	31407										
CLIP3	25999	broad.mit.edu	37	chr19	36515422	36515422	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gggcgcaagatagtggcactGcctcttccagaagcgtccgc	13	13	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:36515422G>T	uc010eeq.1	-	6	1076	c.794C>A	c.(793-795)GCA>GAA	p.A265E	uc002ocy.2_Intron|CLIP3_uc002ocz.1_Missense_Mutation_p.A265E	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	265					chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TAGTGGCACTGCCTCTTCCAG	0.622													6	93	---	---	---	---	PASS	T	36515422	T	T	36515422	3	4	81	1	0	0	0	0	1	0	0	0	3534	1319	46	3	881	3	CLIP3	19	36515422	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	181010	36515422	22613561	756	31408										
ZNF569	148266	broad.mit.edu	37	chr19	37904928	37904928	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tactacattcatagggcttcTctccagtatgaattctcaga	6	10	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:37904928T>G	uc002ogi.2	-	6	1190	c.632A>C	c.(631-633)GAG>GCG	p.E211A	ZNF569_uc002ogh.2_Missense_Mutation_p.E52A|ZNF569_uc002ogj.2_Missense_Mutation_p.E235A	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	211					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ATAGGGCTTCTCTCCAGTATG	0.368													24	113	---	---	---	---	PASS	G	37904928	G	G	37904928	3	3	81	1	0	0	0	0	1	0	0	0	17997	1551	54	5	1432	5	ZNF569	19	37904928	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	1389506	37904928	21224055	757	31409										
SPRED3	399473	broad.mit.edu	37	chr19	38880956	38880956	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caggtacatggtgcgggtccGagctgtggtgatggcccgag	18	9	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:38880956G>A	uc002oim.2	+	1	18	c.14G>A	c.(13-15)CGA>CAA	p.R5Q	GGN_uc002oij.1_5'Flank|GGN_uc002oik.1_5'Flank|GGN_uc010efy.1_5'Flank|SPRED3_uc002oil.1_Missense_Mutation_p.R5Q	NM_001042522	NP_001035987	Q2MJR0	SPRE3_HUMAN	sprouty-related, EVH1 domain containing 3	5	WH1.				multicellular organismal development					central_nervous_system(2)|lung(1)|skin(1)	4	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GTGCGGGTCCGAGCTGTGGTG	0.657													10	47	---	---	---	---	PASS	A	38880956	A	A	38880956	3	1	81	1	0	0	0	0	1	0	0	0	15093	1058	37	2	16	2	SPRED3	19	38880956	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	976028	38880956	20248027	758	31410										
SPRED3	399473	broad.mit.edu	37	chr19	38886320	38886320	+	Frame_Shift_Del	DEL	G	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctgccctgggtcccccagcGgcactacctgcccctttgac							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:38886320delG	uc002oim.2	+	5	772	c.768delG	c.(766-768)GCGfs	p.A256fs		NM_001042522	NP_001035987	Q2MJR0	SPRE3_HUMAN	sprouty-related, EVH1 domain containing 3	256	Pro-rich.				multicellular organismal development					central_nervous_system(2)|lung(1)|skin(1)	4	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GTCCCCCAGCGGCACTACCTG	0.582													8	4	---	---	---	---		-	38886320	-	-	38886320	7	5	81	1	0	1	0	1	0	0	0	0	15093	1103	39	0	826	0	SPRED3	19	38886320	Frame_Shift_Del	DEL	G	TCGA-37-5819-01A-01D-1632-08	5364	38886320	20242663	759	31411										
RYR1	6261	broad.mit.edu	37	chr19	38956762	38956762	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcaatgggtacaagccggctCcgctggacctgagccacgtg	14	13	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:38956762C>A	uc002oit.2	+	24	3032	c.2902C>A	c.(2902-2904)CCG>ACG	p.P968T	RYR1_uc002oiu.2_Missense_Mutation_p.P968T	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	968	2.|Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CAAGCCGGCTCCGCTGGACCT	0.637													11	23	---	---	---	---	PASS	A	38956762	A	A	38956762	3	1	81	1	0	0	0	0	1	0	0	0	13768	855	30	2	2996	2	RYR1	19	38956762	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	70442	38956762	20172221	760	31412										
SIRT2	22933	broad.mit.edu	37	chr19	39374369	39374369	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caagtcctcctgttccagccCggctattcgctccagggtat	9	15	0	0	rs74490433	by1000genomes	TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:39374369C>A	uc002ojt.1	-	9	729	c.529G>T	c.(529-531)GGG>TGG	p.G177W	SIRT2_uc010egh.1_Missense_Mutation_p.G140W|SIRT2_uc010egi.1_Missense_Mutation_p.G140W|SIRT2_uc002ojs.1_Missense_Mutation_p.G157W|SIRT2_uc002oju.1_Missense_Mutation_p.G140W|SIRT2_uc010egj.1_Missense_Mutation_p.G140W|SIRT2_uc002ojv.1_Missense_Mutation_p.G175W	NM_012237	NP_036369	Q8IXJ6	SIRT2_HUMAN	sirtuin 2 isoform 1	177	Deacetylase sirtuin-type.				cell division|chromatin silencing at rDNA|chromatin silencing at telomere|mitosis|negative regulation of striated muscle tissue development|protein ADP-ribosylation|regulation of exit from mitosis|regulation of phosphorylation|response to redox state	chromatin silencing complex|cytoplasm|microtubule	histone acetyltransferase binding|histone deacetylase binding|NAD+ binding|NAD-dependent histone deacetylase activity|transcription factor binding|tubulin deacetylase activity|ubiquitin binding|zinc ion binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00125)|LUSC - Lung squamous cell carcinoma(53;0.00191)			TGTTCCAGCCCGGCTATTCGC	0.592													26	33	---	---	---	---	PASS	A	39374369	A	A	39374369	3	1	81	1	0	0	0	0	1	0	0	0	14338	652	23	1	672	1	SIRT2	19	39374369	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	417607	39374369	19754614	761	31413										
PSG6	5675	broad.mit.edu	37	chr19	43414792	43414792	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cactgggttccgtatttcacAttcatagggtcctgcaatat	8	10	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:43414792A>T	uc002ovj.1	-	3	698	c.646T>A	c.(646-648)TGT>AGT	p.C216S	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Missense_Mutation_p.C223S|PSG6_uc002ovi.2_Missense_Mutation_p.C217S|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG6_uc002ove.1_5'UTR|PSG6_uc002ovf.1_Missense_Mutation_p.C216S|PSG6_uc002ovg.1_Missense_Mutation_p.C216S	NM_002782	NP_002773	Q00889	PSG6_HUMAN	pregnancy specific beta-1-glycoprotein 6 isoform	216	Ig-like C2-type 1.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				CGTATTTCACATTCATAGGGT	0.512													149	18	---	---	---	---	PASS	T	43414792	T	T	43414792	3	4	81	1	0	0	0	0	1	0	0	0	12659	217	8	5	716	5	PSG6	19	43414792	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	4040423	43414792	15714191	762	31414										
PSG6	5675	broad.mit.edu	37	chr19	43585075	43585075	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tccagttactcctctagtccCatcacctcgctttatgatgt	5	14	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:43585075C>T	uc002ovi.2	-	2	481	c.388G>A	c.(388-390)GGG>AGG	p.G130R	PSG6_uc010xwk.1_Intron|PSG2_uc002ovr.2_Missense_Mutation_p.G130R|PSG2_uc002ovq.3_Missense_Mutation_p.G130R|PSG2_uc010eiq.1_Missense_Mutation_p.G130R|PSG2_uc002ovs.3_Missense_Mutation_p.G130R|PSG2_uc002ovt.3_Missense_Mutation_p.G130R			Q00889	PSG6_HUMAN	SubName: Full=Putative uncharacterized protein PSG6;	129	Ig-like V-type.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				CCTCTAGTCCCATCACCTCGC	0.488													5	247	---	---	---	---	PASS	T	43585075	T	T	43585075	3	4	81	1	0	0	0	0	1	0	0	0	12659	594	21	3		3	PSG6	19	43585075	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	170283	43585075	15543908	763	31415										
PSG4	5672	broad.mit.edu	37	chr19	43702369	43702369	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcacaggttaagatcacagcCtccatggcctccctgggatt	9	13	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:43702369C>A	uc002ovy.2	-	3	591	c.489G>T	c.(487-489)GAG>GAT	p.E163D	PSG6_uc010xwk.1_Missense_Mutation_p.E2D|PSG4_uc002owa.2_RNA|PSG4_uc002owb.2_Intron|PSG4_uc002ovz.2_Missense_Mutation_p.E163D	NM_002780	NP_002771	Q00888	PSG4_HUMAN	pregnancy specific beta-1-glycoprotein 4 isoform	163	Ig-like C2-type 1.				defense response|female pregnancy	extracellular region				ovary(1)	1		Prostate(69;0.00682)				AGATCACAGCCTCCATGGCCT	0.547													127	172	---	---	---	---	PASS	A	43702369	A	A	43702369	3	1	81	1	0	0	0	0	1	0	0	0	12657	680	24	3	786	3	PSG4	19	43702369	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	117294	43702369	15426614	764	31416										
IRGC	56269	broad.mit.edu	37	chr19	44223577	44223577	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccagggctggcggccgcctaCgatgatgcgttgctcatcca	13	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:44223577C>A	uc002oxh.2	+	2	1014	c.867C>A	c.(865-867)TAC>TAA	p.Y289*		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	289						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				CGGCCGCCTACGATGATGCGT	0.632													56	84	---	---	---	---	PASS	A	44223577	A	A	44223577	4	1	81	1	0	0	0	0	0	1	0	0	7838	547	19	1	869	1	IRGC	19	44223577	Nonsense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	521208	44223577	14905406	765	31417										
C5AR1	728	broad.mit.edu	37	chr19	47823944	47823944	+	Missense_Mutation	SNP	G	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccatcatctacgtggtggccGgccagggcttccagggccga							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:47823944G>A	uc002pgj.1	+	2	959	c.910G>A	c.(910-912)GGC>AGC	p.G304S		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	304	Cytoplasmic (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		CGTGGTGGCCGGCCAGGGCTT	0.587													45	64	---	---	---	---	PASS	A	47823944	A	A	47823944	3	1	81	1	0	0	0	0	1	0	0	0	2281	1116	39	1	915	1	C5AR1	19	47823944	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3600367	47823944	11305039	766	31418	625	2								
C5AR1	728	broad.mit.edu	37	chr19	47823945	47823945	+	Missense_Mutation	SNP	G	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catcatctacgtggtggccgGccagggcttccagggccgac							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:47823945G>T	uc002pgj.1	+	2	960	c.911G>T	c.(910-912)GGC>GTC	p.G304V		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	304	Cytoplasmic (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		GTGGTGGCCGGCCAGGGCTTC	0.592													44	63	---	---	---	---	PASS	T	47823945	T	T	47823945	3	4	81	1	0	0	0	0	1	0	0	0	2281	1203	42	3	916	3	C5AR1	19	47823945	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1	47823945	11305038	767	31419	625	2								
GRWD1	83743	broad.mit.edu	37	chr19	48953979	48953979	+	Missense_Mutation	SNP	G	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acctctggacacctacggacGgcggctcctggcacgtggac							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:48953979G>T	uc002pjd.2	+	5	972	c.739G>T	c.(739-741)GGC>TGC	p.G247C		NM_031485	NP_113673	Q9BQ67	GRWD1_HUMAN	glutamate-rich WD repeat containing 1	247	WD 1.					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)		ACCTACGGACGGCGGCTCCTG	0.597													25	43	---	---	---	---	PASS	T	48953979	T	T	48953979	3	4	81	1	0	0	0	0	1	0	0	0	6811	1116	39	1	757	1	GRWD1	19	48953979	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1130034	48953979	10175004	768	31420	626	2								
GRWD1	83743	broad.mit.edu	37	chr19	48953980	48953980	+	Missense_Mutation	SNP	G	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cctctggacacctacggacgGcggctcctggcacgtggacc							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:48953980G>T	uc002pjd.2	+	5	973	c.740G>T	c.(739-741)GGC>GTC	p.G247V		NM_031485	NP_113673	Q9BQ67	GRWD1_HUMAN	glutamate-rich WD repeat containing 1	247	WD 1.					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)		CCTACGGACGGCGGCTCCTGG	0.597													24	42	---	---	---	---	PASS	T	48953980	T	T	48953980	3	4	81	1	0	0	0	0	1	0	0	0	6811	1203	42	3	758	3	GRWD1	19	48953980	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1	48953980	10175003	769	31421	626	2								
PIH1D1	55011	broad.mit.edu	37	chr19	49950682	49950682	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccgagcggatgttctgctgcGagatggagcccatgaatggc	15	10	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:49950682G>T	uc002pns.2	-	6	808	c.524C>A	c.(523-525)TCG>TAG	p.S175*		NM_017916	NP_060386	Q9NWS0	PIHD1_HUMAN	NOP17	175					box C/D snoRNP assembly	pre-snoRNP complex					0		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00152)|GBM - Glioblastoma multiforme(486;0.0244)		GTTCTGCTGCGAGATGGAGCC	0.637													16	75	---	---	---	---	PASS	T	49950682	T	T	49950682	4	4	81	1	0	0	0	0	0	1	0	0	11906	1059	37	2	364	2	PIH1D1	19	49950682	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	996702	49950682	9178301	770	31422										
PTOV1	53635	broad.mit.edu	37	chr19	50361891	50361891	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gacactgaagagcctgtgccGgatcatggacaatggcttcg	13	10	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:50361891G>T	uc002pqf.1	+	10	1192	c.1022G>T	c.(1021-1023)CGG>CTG	p.R341L	PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Missense_Mutation_p.R309L|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	341	Interaction with FLOT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		AGCCTGTGCCGGATCATGGAC	0.667													7	9	---	---	---	---	PASS	T	50361891	T	T	50361891	3	4	81	1	0	0	0	0	1	0	0	0	12769	1116	39	1	1060	1	PTOV1	19	50361891	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	411209	50361891	8767092	771	31423										
SIGLEC11	114132	broad.mit.edu	37	chr19	50462099	50462099	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgtgggtgacacagaccagGcgcaggctttggccctccag	14	13	0	2	rs150050230		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:50462099G>A	uc010ybh.1	-	7	1255	c.1164C>T	c.(1162-1164)CGC>CGT	p.R388R	SIGLEC11_uc010ybi.1_Silent_p.R388R	NM_052884	NP_443116	Q96RL6	SIG11_HUMAN	sialic acid binding Ig-like lectin 11 isoform 1	388	Ig-like C2-type 3.|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)		CACAGACCAGGCGCAGGCTTT	0.682													18	55	---	---	---	---	PASS	A	50462099	A	A	50462099	2	1	81	1	0	0	0	0	0	0	0	1	14307	1190	42	3		3	SIGLEC11	19	50462099	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	100208	50462099	8666884	772	31424										
ZNF473	25888	broad.mit.edu	37	chr19	50548559	50548559	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgtggcatcagaaaactcacActggagaaaaaccatgtaag	9	8	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:50548559A>T	uc002prn.2	+	5	1096	c.859A>T	c.(859-861)ACT>TCT	p.T287S	ZNF473_uc002prm.2_Missense_Mutation_p.T287S|ZNF473_uc010ybo.1_Missense_Mutation_p.T275S	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	287					histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		GAAAACTCACACTGGAGAAAA	0.428													77	90	---	---	---	---	PASS	T	50548559	T	T	50548559	3	4	81	1	0	0	0	0	1	0	0	0	17928	159	6	5	873	5	ZNF473	19	50548559	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	86460	50548559	8580424	773	31425										
C19orf63	284361	broad.mit.edu	37	chr19	50984169	50984169	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cggcggccttcattgagcgcCtggagatggaacaggcccag	15	12	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:50984169C>T	uc002psl.2	+	6	679	c.613C>T	c.(613-615)CTG>TTG	p.L205L	C19orf63_uc002psj.2_Silent_p.L205L|C19orf63_uc002psk.2_Silent_p.L205L	NM_206538	NP_996261	Q5UCC4	INM02_HUMAN	hematopoietic signal peptide-containing isoform	205	Extracellular (Potential).					extracellular region|integral to membrane					0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00733)|GBM - Glioblastoma multiforme(134;0.0252)		CATTGAGCGCCTGGAGATGGA	0.652													28	52	---	---	---	---	PASS	T	50984169	T	T	50984169	2	4	81	1	0	0	0	0	0	0	0	1	1945	680	24	3		3	C19orf63	19	50984169	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	435610	50984169	8144814	774	31426										
CEACAM18	729767	broad.mit.edu	37	chr19	51981852	51981852	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agggagcagaggaggtggctGtgtctctggagggacccctc	18	9	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:51981852G>C	uc002pwv.1	+	2	139	c.139G>C	c.(139-141)GTG>CTG	p.V47L		NM_001080405	NP_001073874	A8MTB9	CEA18_HUMAN	carcinoembryonic antigen-related cell adhesion	47						integral to membrane				skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		GGAGGTGGCTGTGTCTCTGGA	0.637													13	18	---	---	---	---	PASS	C	51981852	C	C	51981852	3	2	81	1	0	0	0	0	1	0	0	0	3189	1377	48	4	145	4	CEACAM18	19	51981852	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	997683	51981852	7147131	775	31427										
ZNF350	59348	broad.mit.edu	37	chr19	52468188	52468188	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	actgcattcacaaggtttctGtcctgtgcaaatcctctgtt	7	11	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:52468188G>A	uc002pyd.2	-	5	1746	c.1518C>T	c.(1516-1518)GAC>GAT	p.D506D	uc002pyb.2_Intron|uc002pyc.2_Intron	NM_021632	NP_067645	Q9GZX5	ZN350_HUMAN	zinc finger protein 350	506					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix|transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			breast(1)	1		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0179)		CAAGGTTTCTGTCCTGTGCAA	0.448													27	43	---	---	---	---	PASS	A	52468188	A	A	52468188	2	1	81	1	0	0	0	0	0	0	0	1	17860	1368	48	3		3	ZNF350	19	52468188	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	486336	52468188	6660795	776	31428										
ZNF616	90317	broad.mit.edu	37	chr19	52619561	52619561	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggtatgaattctctgatgaaCtgcaaggtgggaacttttac	11	6	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:52619561C>A	uc002pym.2	-	4	1139	c.856G>T	c.(856-858)GTT>TTT	p.V286F	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	286	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		CTCTGATGAACTGCAAGGTGG	0.388													48	49	---	---	---	---	PASS	A	52619561	A	A	52619561	3	1	81	1	0	0	0	0	1	0	0	0	18038	565	20	3	1493	3	ZNF616	19	52619561	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	151373	52619561	6509422	777	31429										
ZNF761	388561	broad.mit.edu	37	chr19	53959361	53959361	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcggcaagacctttagttggAagtcatcccttacctgccat	9	12	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:53959361A>T	uc010eqp.2	+	7	2058	c.1600A>T	c.(1600-1602)AAG>TAG	p.K534*	ZNF761_uc010ydy.1_Nonsense_Mutation_p.K480*|ZNF761_uc002qbt.1_Nonsense_Mutation_p.K480*	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	534	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		CTTTAGTTGGAAGTCATCCCT	0.443													57	87	---	---	---	---	PASS	T	53959361	T	T	53959361	4	4	81	1	0	0	0	0	0	1	0	0	18133	247	9	5	1611	5	ZNF761	19	53959361	Nonsense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	1339800	53959361	5169622	778	31430										
PRKCG	5582	broad.mit.edu	37	chr19	54406349	54406349	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cattgcctaccagccctatgGgaagtctgtcgattggtggt	12	10	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:54406349G>T	uc002qcq.1	+	15	1880	c.1598G>T	c.(1597-1599)GGG>GTG	p.G533V	PRKCG_uc010yeg.1_Missense_Mutation_p.G533V|PRKCG_uc010yeh.1_Missense_Mutation_p.G420V	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	533	Protein kinase.				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)		CAGCCCTATGGGAAGTCTGTC	0.547													175	178	---	---	---	---	PASS	T	54406349	T	T	54406349	3	4	81	1	0	0	0	0	1	0	0	0	12512	1232	43	3	1656	3	PRKCG	19	54406349	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	446988	54406349	4722634	779	31431										
LILRB4	11006	broad.mit.edu	37	chr19	55179209	55179209	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aattcctggacacaaaggacAgacaggcagaagaggacaga	12	8	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:55179209A>C	uc002qgp.2	+	11	1527	c.1165A>C	c.(1165-1167)AGA>CGA	p.R389R	LILRB4_uc002qgq.2_Silent_p.R388R|LILRB4_uc002qgr.2_Silent_p.R431R|LILRB4_uc010ert.2_Silent_p.R430R|LILRB4_uc010eru.2_Silent_p.R419R	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	389	Cytoplasmic (Potential).					integral to membrane|plasma membrane	antigen binding|receptor activity			ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)		CACAAAGGACAGACAGGCAGA	0.587													3	30	---	---	---	---	PASS	C	55179209	C	C	55179209	2	2	81	1	0	0	0	0	0	0	0	1	8793	180	7	5		5	LILRB4	19	55179209	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	772860	55179209	3949774	780	31432										
KIR3DL1	3811	broad.mit.edu	37	chr19	55377877	55377877	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gacagaacagtgaataggcaGgtaggtcctcctcggcccag	13	11	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:55377877G>C	uc002qhl.3	+	8	1221	c.1158G>C	c.(1156-1158)CAG>CAC	p.Q386H	KIR3DL2_uc010esh.2_Missense_Mutation_p.Q369H|KIR3DL2_uc002qho.3_Missense_Mutation_p.Q386H			P43629	KI3L1_HUMAN	SubName: Full=KIR3DS1;	386	Cytoplasmic (Potential).				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		TGAATAGGCAGGTAGGTCCTC	0.547													75	56	---	---	---	---	PASS	C	55377877	C	C	55377877	3	2	81	1	0	0	0	0	1	0	0	0	8320	1014	35	4		4	KIR3DL1	19	55377877	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	198668	55377877	3751106	781	31433										
ZNF579	163033	broad.mit.edu	37	chr19	56090015	56090015	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtcgtccttcttgcccgccgCgggcagcggggccagcaggc	16	16	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:56090015C>T	uc002qlh.2	-	2	1044	c.991G>A	c.(991-993)GCG>ACG	p.A331T		NM_152600	NP_689813	Q8NAF0	ZN579_HUMAN	zinc finger protein 579	331	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.106)		TTGCCCGCCGCGGGCAGCGGG	0.751													5	30	---	---	---	---	PASS	T	56090015	T	T	56090015	3	4	81	1	0	0	0	0	1	0	0	0	18008	768	27	1	701	1	ZNF579	19	56090015	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	712138	56090015	3038968	782	31434										
NLRP9	338321	broad.mit.edu	37	chr19	56243490	56243490	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctatgttaccaatataaatGaaaacttcttcaaagaaatt	3	6	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:56243490G>A	uc002qly.2	-	2	1735	c.1707C>T	c.(1705-1707)TTC>TTT	p.F569F		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	569						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		CAATATAAATGAAAACTTCTT	0.343													12	65	---	---	---	---	PASS	A	56243490	A	A	56243490	2	1	81	1	0	0	0	0	0	0	0	1	10484	1281	45	2		2	NLRP9	19	56243490	Silent	SNP	G	TCGA-37-5819-01A-01D-1632-08	153475	56243490	2885493	783	31435										
NLRP11	204801	broad.mit.edu	37	chr19	56321237	56321237	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aactttctgggtgctgttacTacacaaagcactttcattga	7	9	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:56321237T>A	uc010ygf.1	-	5	1450	c.739A>T	c.(739-741)AGT>TGT	p.S247C	NLRP11_uc002qlz.2_Missense_Mutation_p.S148C|NLRP11_uc002qmb.2_Missense_Mutation_p.S148C|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	247	NACHT.						ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		GTGCTGTTACTACACAAAGCA	0.463													17	64	---	---	---	---	PASS	A	56321237	A	A	56321237	3	1	81	1	0	0	0	0	1	0	0	0	10473	1522	53	5	2394	5	NLRP11	19	56321237	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	77747	56321237	2807746	784	31436										
NLRP11	204801	broad.mit.edu	37	chr19	56329297	56329297	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctgccaatgatcttcctacAaagatcttccttacgcatca	4	13	4	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:56329297A>G	uc010ygf.1	-	4	955	c.244T>C	c.(244-246)TGT>CGT	p.C82R	NLRP11_uc002qmb.2_Intron|NLRP11_uc002qmc.2_Intron|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	82	DAPIN.						ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		ATCTTCCTACAAAGATCTTCC	0.448													27	39	---	---	---	---	PASS	G	56329297	G	G	56329297	3	3	81	1	0	0	0	0	1	0	0	0	10473	130	5	5	2893	5	NLRP11	19	56329297	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	8060	56329297	2799686	785	31437										
NLRP4	147945	broad.mit.edu	37	chr19	56379151	56379151	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaacaacaagaagctgacgTatctgaatgtatcctgcaac	7	11	1	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:56379151T>A	uc002qmd.3	+	6	2685	c.2263T>A	c.(2263-2265)TAT>AAT	p.Y755N	NLRP4_uc002qmf.2_Missense_Mutation_p.Y680N|NLRP4_uc010etf.2_Intron	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	755	LRR 4.						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)		GAAGCTGACGTATCTGAATGT	0.498													36	84	---	---	---	---	PASS	A	56379151	A	A	56379151	3	1	81	1	0	0	0	0	1	0	0	0	10479	1638	57	5	2281	5	NLRP4	19	56379151	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	49854	56379151	2749832	786	31438										
NLRP13	126204	broad.mit.edu	37	chr19	56424343	56424343	+	Frame_Shift_Del	DEL	G	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaagaaatcaattcagcaaaGgtagtttccttcatgtacct							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:56424343delG	uc010ygg.1	-	5	865	c.840delC	c.(838-840)ACCfs	p.T280fs		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	280	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)		ATTCAGCAAAGGTAGTTTCCT	0.418													56	53	---	---	---	---		-	56424343	-	-	56424343	7	5	81	1	0	1	0	1	0	0	0	0	10475	987	35	0	2317	0	NLRP13	19	56424343	Frame_Shift_Del	DEL	G	TCGA-37-5819-01A-01D-1632-08	45192	56424343	2704640	787	31439										
NLRP8	126205	broad.mit.edu	37	chr19	56487650	56487650	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggccctgaagaaccctgacTgtacattacagatcctggag	10	11	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:56487650T>A	uc002qmh.2	+	8	2928	c.2857T>A	c.(2857-2859)TGT>AGT	p.C953S	NLRP8_uc010etg.2_Missense_Mutation_p.C934S	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	953						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)		GAACCCTGACTGTACATTACA	0.448													9	56	---	---	---	---	PASS	A	56487650	A	A	56487650	3	1	81	1	0	0	0	0	1	0	0	0	10483	1580	55	5	2887	5	NLRP8	19	56487650	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	63307	56487650	2641333	788	31440										
PEG3	5178	broad.mit.edu	37	chr19	57327553	57327553	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttttcataggggttagagcTaatggtgaacgccttttcgt	12	6	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:57327553T>A	uc002qnu.2	-	7	2608	c.2257A>T	c.(2257-2259)AGC>TGC	p.S753C	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.S724C|PEG3_uc002qnv.2_Missense_Mutation_p.S753C|PEG3_uc002qnw.2_Missense_Mutation_p.S629C|PEG3_uc002qnx.2_Missense_Mutation_p.S627C|PEG3_uc010etr.2_Missense_Mutation_p.S753C	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	753					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GGGTTAGAGCTAATGGTGAAC	0.408													88	173	---	---	---	---	PASS	A	57327553	A	A	57327553	3	1	81	1	0	0	0	0	1	0	0	0	11720	1522	53	5	2513	5	PEG3	19	57327553	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	839903	57327553	1801430	789	31441										
DUXA	503835	broad.mit.edu	37	chr19	57670559	57670559	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaactccacaccaggttgatCttgcccctggctctggcttg	9	14	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:57670559C>G	uc002qoa.1	-	3	313	c.268G>C	c.(268-270)GAT>CAT	p.D90H		NM_001012729	NP_001012747	A6NLW8	DUXA_HUMAN	double homeobox A	90						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0123)		CCAGGTTGATCTTGCCCCTGG	0.458													10	127	---	---	---	---	PASS	G	57670559	G	G	57670559	3	3	81	1	0	0	0	0	1	0	0	0	4834	913	32	2	362	2	DUXA	19	57670559	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	343006	57670559	1458424	790	31442										
ZNF135	7694	broad.mit.edu	37	chr19	58578313	58578313	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggccttcacgcctgtgaagaCgcctgttctggagcagtggc	14	12	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:58578313C>A	uc010yhq.1	+	5	593	c.497C>A	c.(496-498)ACG>AAG	p.T166K	ZNF135_uc002qre.2_Missense_Mutation_p.T154K|ZNF135_uc002qrd.1_Missense_Mutation_p.T112K|ZNF135_uc002qrf.2_Missense_Mutation_p.T112K|ZNF135_uc002qrg.2_Missense_Mutation_p.T124K|ZNF135_uc010yhr.1_5'UTR	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	166					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		CCTGTGAAGACGCCTGTTCTG	0.557													29	24	---	---	---	---	PASS	A	58578313	A	A	58578313	3	1	81	1	0	0	0	0	1	0	0	0	17722	536	19	1	664	1	ZNF135	19	58578313	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	907754	58578313	550670	791	31443										
ZNF274	10782	broad.mit.edu	37	chr19	58724257	58724257	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaatgtcaggagtgtgggagGaccttcaatgatcgctcagc	14	8	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:58724257G>T	uc002qrq.1	+	10	2169	c.1710G>T	c.(1708-1710)AGG>AGT	p.R570S	ZNF274_uc002qrr.1_Missense_Mutation_p.R538S|ZNF274_uc002qrs.1_Missense_Mutation_p.R465S|ZNF274_uc010eum.1_Missense_Mutation_p.R329S	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	570	C2H2-type 3.				viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		AGTGTGGGAGGACCTTCAATG	0.522													31	33	---	---	---	---	PASS	T	58724257	T	T	58724257	3	4	81	1	0	0	0	0	1	0	0	0	17806	1165	41	2	1735	2	ZNF274	19	58724257	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	145944	58724257	404726	792	31444										
ZNF324B	388569	broad.mit.edu	37	chr19	58966989	58966989	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agggatcgcagaatgggcgcAgcttggcaggagcctcatag	16	9	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr19:58966989A>G	uc002qsv.1	+	4	785	c.678A>G	c.(676-678)GCA>GCG	p.A226A	ZNF324B_uc002qsu.1_Silent_p.A216A|ZNF324B_uc010euq.1_Silent_p.A226A	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	226					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		GAATGGGCGCAGCTTGGCAGG	0.647													10	26	---	---	---	---	PASS	G	58966989	G	G	58966989	2	3	81	1	0	0	0	0	0	0	0	1	17842	175	7	5		5	ZNF324B	19	58966989	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	242732	58966989	161994	793	31445										
TRIB3	57761	broad.mit.edu	37	chr20	368924	368924	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caggccctgcactgccctacAggcactgagtatacctgcaa	9	15	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:368924A>T	uc002wdm.2	+	2	776	c.270A>T	c.(268-270)ACA>ACT	p.T90T	TRIB3_uc002wdn.2_Silent_p.T117T	NM_021158	NP_066981	Q96RU7	TRIB3_HUMAN	tribbles 3	90	Protein kinase.				apoptosis|cellular lipid metabolic process|insulin receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fatty acid biosynthetic process|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein binding|positive regulation of ubiquitin-protein ligase activity|regulation of glucose transport|regulation of MAP kinase activity|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	ATP binding|protein kinase activity|protein kinase binding|protein kinase inhibitor activity|transcription corepressor activity|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			central_nervous_system(2)	2		all_epithelial(17;0.165)|Lung NSC(37;0.191)|Breast(17;0.231)		Colorectal(46;0.101)|COAD - Colon adenocarcinoma(99;0.112)		ACTGCCCTACAGGCACTGAGT	0.662													30	47	---	---	---	---	PASS	T	368924	T	T	368924	2	4	81	1	0	0	0	0	0	0	0	1	16481	175	7	5		5	TRIB3	20	368924	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08		368924	62656596	794	31446										
SIRPB2	284759	broad.mit.edu	37	chr20	1458025	1458025	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggttcactggtgaattctgCctctttggaagaggtagatt	12	6	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:1458025C>A	uc002wfg.2	-	4	1045	c.817G>T	c.(817-819)GCA>TCA	p.A273S	SIRPB2_uc002wfh.3_Missense_Mutation_p.A175S|SIRPB2_uc010zpr.1_Missense_Mutation_p.A135S	NM_001122962	NP_001116434	Q5JXA9	SIRB2_HUMAN	signal-regulatory protein beta 2 isoform 1	273	Extracellular (Potential).					integral to membrane					0						GTGAATTCTGCCTCTTTGGAA	0.512													56	70	---	---	---	---	PASS	A	1458025	A	A	1458025	3	1	81	1	0	0	0	0	1	0	0	0	14334	739	26	3	219	3	SIRPB2	20	1458025	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1089101	1458025	61567495	795	31447										
SMOX	54498	broad.mit.edu	37	chr20	4163291	4163291	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acagcctacagtttgtgtggGaggacgaagcagagagccac	14	9	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:4163291G>C	uc002wkm.1	+	5	1366	c.1165G>C	c.(1165-1167)GAG>CAG	p.E389Q	SMOX_uc002wkk.1_Missense_Mutation_p.E336Q|SMOX_uc002wkl.1_Missense_Mutation_p.E336Q|SMOX_uc002wkn.1_Intron|SMOX_uc002wkp.2_Missense_Mutation_p.E389Q|SMOX_uc010zqo.1_Missense_Mutation_p.E313Q|SMOX_uc002wko.1_Missense_Mutation_p.E389Q	NM_175839	NP_787033	Q9NWM0	SMOX_HUMAN	spermine oxidase isoform 1	389					polyamine biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	polyamine oxidase activity			breast(1)	1					Spermine(DB00127)	GTTTGTGTGGGAGGACGAAGC	0.597													18	18	---	---	---	---	PASS	C	4163291	C	C	4163291	3	2	81	1	0	0	0	0	1	0	0	0	14803	1175	41	2	1179	2	SMOX	20	4163291	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2705266	4163291	58862229	796	31448										
PROKR2	128674	broad.mit.edu	37	chr20	5294857	5294857	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agtgcaatgccaatgacgatCttggctgcgaagaaggtccg	13	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:5294857C>A	uc010zqw.1	-	1	159	c.159G>T	c.(157-159)AAG>AAT	p.K53N	PROKR2_uc010zqx.1_Missense_Mutation_p.K53N|PROKR2_uc010zqy.1_Missense_Mutation_p.K53N|uc002wly.1_5'Flank	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	53	Extracellular (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						CAATGACGATCTTGGCTGCGA	0.517										HNSCC(71;0.22)			39	54	---	---	---	---	PASS	A	5294857	A	A	5294857	3	1	81	1	0	0	0	0	1	0	0	0	12553	912	32	2	1002	2	PROKR2	20	5294857	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1131566	5294857	57730663	797	31449										
PLCB4	5332	broad.mit.edu	37	chr20	9388677	9388677	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	atcaactacgcccagcctgtAaagtttcaaggtttccatgt	7	11	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:9388677A>T	uc002wnf.2	+	20	1861	c.1725A>T	c.(1723-1725)GTA>GTT	p.V575V	PLCB4_uc010gbw.1_Silent_p.V575V|PLCB4_uc010gbx.2_Silent_p.V587V|PLCB4_uc002wne.2_Silent_p.V575V|PLCB4_uc002wnh.2_Silent_p.V422V	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	575	PI-PLC Y-box.				intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						CCCAGCCTGTAAAGTTTCAAG	0.403													71	108	---	---	---	---	PASS	T	9388677	T	T	9388677	2	4	81	1	0	0	0	0	0	0	0	1	12030	349	13	5		5	PLCB4	20	9388677	Silent	SNP	A	TCGA-37-5819-01A-01D-1632-08	4093820	9388677	53636843	798	31450										
PAK7	57144	broad.mit.edu	37	chr20	9538323	9538323	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aatcactccttggttatgaaGgtaggagagagctctcagaa	11	7	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:9538323G>T	uc002wnl.2	-	8	2220	c.1675C>A	c.(1675-1677)CTT>ATT	p.L559I	PAK7_uc002wnk.2_Missense_Mutation_p.L559I|PAK7_uc002wnj.2_Missense_Mutation_p.L559I|PAK7_uc010gby.1_Missense_Mutation_p.L559I	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	559	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			TGGTTATGAAGGTAGGAGAGA	0.438													35	29	---	---	---	---	PASS	T	9538323	T	T	9538323	3	4	81	1	0	0	0	0	1	0	0	0	11405	1000	35	3	500	3	PAK7	20	9538323	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	149646	9538323	53487197	799	31451										
ISM1	140862	broad.mit.edu	37	chr20	13260384	13260385	+	Frame_Shift_Ins	INS	-	T	T													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcccccgactggcgggcctgINSgtggcagaggtccctgtcct							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:13260384_13260385insT	uc010gce.1	+	3	488_489	c.482_483insT	c.(481-483)TGGfs	p.W161fs	TASP1_uc010zri.1_Intron	NM_080826	NP_543016	B1AKI9	ISM1_HUMAN	isthmin 1 homolog precursor	161						extracellular region					0						TGGCGGGCCTGGTGGCAGAGGT	0.599													40	27	---	---	---	---		T	13260385	T	T	13260384	7	5	81	1	0	1	1	0	0	0	0	0	7860	1357	47	0	492	0	ISM1	20	13260384	Frame_Shift_Ins	INS	-	TCGA-37-5819-01A-01D-1632-08	3722061	13260384	49765136	800	31452										
DEFB118	117285	broad.mit.edu	37	chr20	29960684	29960684	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tagtggtgaaaaaaaatgctGgaacagatcagggcactgca	12	6	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:29960684G>T	uc002wvr.2	+	2	109	c.83G>T	c.(82-84)TGG>TTG	p.W28L		NM_054112	NP_473453	Q96PH6	DB118_HUMAN	beta-defensin 118 precursor	28					cell-matrix adhesion|defense response to bacterium|innate immune response|spermatogenesis	extracellular region				ovary(3)|pancreas(1)	4	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			AAAAAATGCTGGAACAGATCA	0.398													15	22	---	---	---	---	PASS	T	29960684	T	T	29960684	3	4	81	1	0	0	0	0	1	0	0	0	4406	1357	47	3	89	3	DEFB118	20	29960684	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	16700300	29960684	33064836	801	31453										
NCOA6	23054	broad.mit.edu	37	chr20	33329845	33329845	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acaacacccccaactgcagcCacagacacagtagaattctg	6	15	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:33329845C>A	uc002xav.2	-	12	6786	c.4215G>T	c.(4213-4215)GTG>GTT	p.V1405V	NCOA6_uc002xaw.2_Silent_p.V1405V	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1405					brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						CAACTGCAGCCACAGACACAG	0.498													36	47	---	---	---	---	PASS	A	33329845	A	A	33329845	2	1	81	1	0	0	0	0	0	0	0	1	10233	581	21	3		3	NCOA6	20	33329845	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	3369161	33329845	29695675	802	31454										
PTPRT	11122	broad.mit.edu	37	chr20	41408888	41408888	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agcaaggacccggacctcgtCcacggcgatgtagccaggat	13	13	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:41408888C>A	uc002xkg.2	-	4	722	c.538G>T	c.(538-540)GAC>TAC	p.D180Y	PTPRT_uc010ggj.2_Missense_Mutation_p.D180Y	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	180	Extracellular (Potential).|MAM.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CGGACCTCGTCCACGGCGATG	0.527													24	36	---	---	---	---	PASS	A	41408888	A	A	41408888	3	1	81	1	0	0	0	0	1	0	0	0	12812	855	30	2	3960	2	PTPRT	20	41408888	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	8079043	41408888	21616632	803	31455										
L3MBTL	26013	broad.mit.edu	37	chr20	42158983	42158983	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tctgagtgccatgacttctgGgtcaatgccaactcccctga	9	13	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:42158983G>T	uc010zwh.1	+	10	1096	c.1050G>T	c.(1048-1050)TGG>TGT	p.W350C	L3MBTL_uc002xkl.2_Missense_Mutation_p.W282C|L3MBTL_uc002xkm.2_Missense_Mutation_p.W282C|L3MBTL_uc010ggl.2_Missense_Mutation_p.W282C|L3MBTL_uc002xkn.1_Missense_Mutation_p.W41C|L3MBTL_uc002xko.2_5'Flank	NM_015478	NP_056293	Q9Y468	LMBL1_HUMAN	l(3)mbt-like isoform I	282	MBT 1.				chromatin modification|hemopoiesis|negative regulation of transcription, DNA-dependent|regulation of megakaryocyte differentiation|regulation of mitosis	chromatin|condensed chromosome|nucleoplasm	identical protein binding|methylated histone residue binding|nucleosomal histone binding|SAM domain binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			ATGACTTCTGGGTCAATGCCA	0.562													42	70	---	---	---	---	PASS	T	42158983	T	T	42158983	3	4	81	1	0	0	0	0	1	0	0	0	8591	1241	43	3	872	3	L3MBTL	20	42158983	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	750095	42158983	20866537	804	31456										
YWHAB	7529	broad.mit.edu	37	chr20	43530314	43530314	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cgaagagagaaatctgctctCtgttgcctacaagaatgtgg	11	8	2	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:43530314C>T	uc002xmt.2	+	3	422	c.140C>T	c.(139-141)TCT>TTT	p.S47F	YWHAB_uc002xmu.2_Missense_Mutation_p.S47F	NM_003404	NP_003395	P31946	1433B_HUMAN	tyrosine 3-monooxygenase/tryptophan	47					activation of MAPKK activity|activation of pro-apoptotic gene products|axon guidance|cytoplasmic sequestering of protein|epidermal growth factor receptor signaling pathway|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|mRNA metabolic process|negative regulation of protein dephosphorylation|nerve growth factor receptor signaling pathway|Ras protein signal transduction	centrosome|cytosol|melanosome|perinuclear region of cytoplasm	histone deacetylase binding|phosphoserine binding|protein domain specific binding			kidney(2)|ovary(1)|breast(1)	4		Myeloproliferative disorder(115;0.0122)				AATCTGCTCTCTGTTGCCTAC	0.527													25	36	---	---	---	---	PASS	T	43530314	T	T	43530314	3	4	81	1	0	0	0	0	1	0	0	0	17498	913	32	2	142	2	YWHAB	20	43530314	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1371331	43530314	19495206	805	31457										
CD40	958	broad.mit.edu	37	chr20	44751260	44751260	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcttctcagacctagggcttCgggtccagcagaagggcacc	12	13	2	2	rs144542285		TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:44751260C>T	uc002xrg.1	+	4	345	c.268C>T	c.(268-270)CGG>TGG	p.R90W	CD40_uc002xrf.1_Missense_Mutation_p.R90W|CD40_uc002xrh.1_Missense_Mutation_p.R90W|CD40_uc002xri.1_Missense_Mutation_p.R90W|CD40_uc002xrj.1_RNA|CD40_uc002xrk.1_RNA	NM_001250	NP_001241	P25942	TNR5_HUMAN	CD40 antigen isoform 1 precursor	90	TNFR-Cys 2.|Extracellular (Potential).				B cell proliferation|cellular response to mechanical stimulus|inflammatory response|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein complex assembly	CD40 receptor complex|extracellular region	enzyme binding|receptor activity			lung(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)			Simvastatin(DB00641)	CCTAGGGCTTCGGGTCCAGCA	0.587									Immune_Deficiency_with_Hyper-IgM				22	31	---	---	---	---	PASS	T	44751260	T	T	44751260	3	4	81	1	0	0	0	0	1	0	0	0	3015	875	31	2	282	2	CD40	20	44751260	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1220946	44751260	18274260	806	31458										
ZMYND8	23613	broad.mit.edu	37	chr20	45905058	45905058	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcccccgcacggagctgacCtgtgctcttatccaggaagt	10	15	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:45905058C>A	uc002xta.1	-	11	1674	c.1420G>T	c.(1420-1422)GCT>TCT	p.A474S	ZMYND8_uc010ghq.1_Missense_Mutation_p.A151S|ZMYND8_uc010ghr.1_Missense_Mutation_p.A449S|ZMYND8_uc002xst.1_Missense_Mutation_p.D449Y|ZMYND8_uc002xsu.1_Missense_Mutation_p.A474S|ZMYND8_uc002xsv.1_Missense_Mutation_p.D449Y|ZMYND8_uc002xsw.1_Missense_Mutation_p.A226S|ZMYND8_uc002xsx.1_Missense_Mutation_p.A226S|ZMYND8_uc002xsy.1_Missense_Mutation_p.A449S|ZMYND8_uc002xsz.1_Missense_Mutation_p.A411S|ZMYND8_uc010zxy.1_Missense_Mutation_p.A501S|ZMYND8_uc002xtb.1_Missense_Mutation_p.A494S|ZMYND8_uc002xss.2_Missense_Mutation_p.A474S|ZMYND8_uc010zxz.1_Missense_Mutation_p.A469S|ZMYND8_uc002xtc.1_Missense_Mutation_p.A494S|ZMYND8_uc002xtd.1_Missense_Mutation_p.A469S|ZMYND8_uc002xte.1_Missense_Mutation_p.A474S|ZMYND8_uc010zya.1_Missense_Mutation_p.A474S|ZMYND8_uc002xtf.1_Missense_Mutation_p.A494S|ZMYND8_uc002xtg.2_Missense_Mutation_p.A468S|ZMYND8_uc010ghs.1_Missense_Mutation_p.A468S	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	474							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			CGGAGCTGACCTGTGCTCTTA	0.632													9	17	---	---	---	---	PASS	A	45905058	A	A	45905058	3	1	81	1	0	0	0	0	1	0	0	0	17708	695	24	3	2138	3	ZMYND8	20	45905058	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1153798	45905058	17120462	807	31459										
SPATA2	9825	broad.mit.edu	37	chr20	48522559	48522559	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gggaggagctgcaggacagcCcgcagctttggcacttggag	17	10	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:48522559C>A	uc010gie.2	-	3	1510	c.1160G>T	c.(1159-1161)GGG>GTG	p.G387V	SPATA2_uc002xuw.2_Missense_Mutation_p.G387V|SPATA2_uc010zyn.1_Missense_Mutation_p.G250V	NM_001135773	NP_001129245	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	387					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			GCAGGACAGCCCGCAGCTTTG	0.647													14	27	---	---	---	---	PASS	A	48522559	A	A	48522559	3	1	81	1	0	0	0	0	1	0	0	0	15004	623	22	3	406	3	SPATA2	20	48522559	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2617501	48522559	14502961	808	31460										
BCAS1	8537	broad.mit.edu	37	chr20	52645317	52645317	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cactgatccaagggatgaatCtgcggcttggtctccggtac	12	11	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:52645317C>A	uc002xws.2	-	4	675	c.337G>T	c.(337-339)GAT>TAT	p.D113Y	BCAS1_uc010zzb.1_Missense_Mutation_p.D16Y|BCAS1_uc010gim.2_Missense_Mutation_p.D16Y|BCAS1_uc002xwt.2_Missense_Mutation_p.D113Y|BCAS1_uc010gil.1_Missense_Mutation_p.D113Y|BCAS1_uc010zzc.1_Missense_Mutation_p.D16Y	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	113						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			AGGGATGAATCTGCGGCTTGG	0.537													21	45	---	---	---	---	PASS	A	52645317	A	A	52645317	3	1	81	1	0	0	0	0	1	0	0	0	1350	913	32	2	1453	2	BCAS1	20	52645317	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	4122758	52645317	10380203	809	31461										
CASS4	57091	broad.mit.edu	37	chr20	55027069	55027069	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccagttccagctccactttCtacaatcctccaagtggcag	6	16	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:55027069C>A	uc002xxp.2	+	6	1062	c.837C>A	c.(835-837)TTC>TTA	p.F279L	CASS4_uc002xxq.3_Missense_Mutation_p.F279L|CASS4_uc002xxr.2_Missense_Mutation_p.F279L|CASS4_uc010zze.1_Missense_Mutation_p.F225L|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	279					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						GCTCCACTTTCTACAATCCTC	0.517													21	38	---	---	---	---	PASS	A	55027069	A	A	55027069	3	1	81	1	0	0	0	0	1	0	0	0	2683	912	32	2	855	2	CASS4	20	55027069	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2381752	55027069	7998451	810	31462										
EDN3	1908	broad.mit.edu	37	chr20	57896191	57896191	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	acacttgcgctgcgcttgtgTggggagatatgacaaggcct	14	9	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:57896191T>C	uc002yap.2	+	3	854	c.485T>C	c.(484-486)GTG>GCG	p.V162A	EDN3_uc002yao.1_Missense_Mutation_p.V162A|EDN3_uc002yaq.2_Missense_Mutation_p.V162A|EDN3_uc002yar.2_Missense_Mutation_p.V162A|EDN3_uc002yas.2_Missense_Mutation_p.V162A	NM_000114	NP_000105	P14138	EDN3_HUMAN	endothelin 3 isoform 1 preproprotein	162	Endothelin-like.				cell surface receptor linked signaling pathway|inositol phosphate-mediated signaling|neutrophil chemotaxis|peptide hormone secretion|positive regulation of heart rate|positive regulation of hormone secretion|positive regulation of leukocyte chemotaxis|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	extracellular space|soluble fraction	endothelin B receptor binding|hormone activity			skin(1)	1	all_lung(29;0.0115)					TGCGCTTGTGTGGGGAGATAT	0.557													61	72	---	---	---	---	PASS	C	57896191	C	C	57896191	3	2	81	1	0	0	0	0	1	0	0	0	4918	1696	59	5	495	5	EDN3	20	57896191	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	2869122	57896191	5129329	811	31463										
CDH26	60437	broad.mit.edu	37	chr20	58571763	58571763	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctctgtatccaatgatgaaGgccaccaaacactggtcatg	9	11	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr20:58571763G>T	uc002ybe.2	+	13	2266	c.1966G>T	c.(1966-1968)GGC>TGC	p.G656C	CDH26_uc002ybf.1_Missense_Mutation_p.G236C|CDH26_uc010zzy.1_RNA|CDH26_uc002ybg.2_Missense_Mutation_p.G170C|CDH26_uc002ybh.2_Intron|CDH26_uc002ybi.2_Intron	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	656	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			CAATGATGAAGGCCACCAAAC	0.438													76	82	---	---	---	---	PASS	T	58571763	T	T	58571763	3	4	81	1	0	0	0	0	1	0	0	0	3110	1000	35	3	2038	3	CDH26	20	58571763	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	675572	58571763	4453757	812	31464										
SON	6651	broad.mit.edu	37	chr21	34921983	34921983	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcatgatgatgggaacatagAtttagaatctgattcctttt	8	5	2	5			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr21:34921983A>G	uc002yse.1	+	3	495	c.446A>G	c.(445-447)GAT>GGT	p.D149G	SON_uc002ysb.1_Missense_Mutation_p.D149G|SON_uc002ysc.2_Missense_Mutation_p.D149G|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	149					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						GGGAACATAGATTTAGAATCT	0.328													22	10	---	---	---	---	PASS	G	34921983	G	G	34921983	3	3	81	1	0	0	0	0	1	0	0	0	14926	333	12	5	456	5	SON	21	34921983	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08		34921983	13207912	813	31465										
KCNJ15	3772	broad.mit.edu	37	chr21	39671792	39671792	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	attcaggtagccaatatgagGaagagcctcttgattcagtg	11	7	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr21:39671792G>T	uc002ywv.2	+	4	911	c.609G>T	c.(607-609)AGG>AGT	p.R203S	KCNJ15_uc002yww.2_Missense_Mutation_p.R203S|KCNJ15_uc002ywx.2_Missense_Mutation_p.R203S	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	203	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						CCAATATGAGGAAGAGCCTCT	0.537													20	16	---	---	---	---	PASS	T	39671792	T	T	39671792	3	4	81	1	0	0	0	0	1	0	0	0	8049	1165	41	2	611	2	KCNJ15	21	39671792	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	4749809	39671792	8458103	814	31466										
MMP11	4320	broad.mit.edu	37	chr22	24121573	24121573	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaggttcgtgctttctggcgGgcgctgggagaagacggacc	18	9	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr22:24121573G>T	uc002zxx.2	+	2	330	c.308G>T	c.(307-309)GGG>GTG	p.G103V	MMP11_uc002zxy.2_Intron|MMP11_uc002zxz.2_5'Flank	NM_005940	NP_005931	P24347	MMP11_HUMAN	matrix metalloproteinase 11 preproprotein	103					collagen catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|large_intestine(1)	3		Medulloblastoma(6;9.86e-08)|all_neural(6;0.000318)				CTTTCTGGCGGGCGCTGGGAG	0.662													8	10	---	---	---	---	PASS	T	24121573	T	T	24121573	3	4	81	1	0	0	0	0	1	0	0	0	9650	1232	43	3	314	3	MMP11	22	24121573	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08		24121573	27182993	815	31467										
MYO18B	84700	broad.mit.edu	37	chr22	26231381	26231381	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gctcgagcgtctgtgtgctgCtttcgagaagaaaggagctg	15	8	1	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr22:26231381C>A	uc003abz.1	+	17	3429	c.3179C>A	c.(3178-3180)GCT>GAT	p.A1060D	MYO18B_uc003aca.1_Missense_Mutation_p.A941D|MYO18B_uc010guy.1_Missense_Mutation_p.A942D|MYO18B_uc010guz.1_Missense_Mutation_p.A941D|MYO18B_uc011aka.1_Missense_Mutation_p.A214D|MYO18B_uc011akb.1_Missense_Mutation_p.A573D	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1060	Myosin head-like.			A -> T (in Ref. 3; AAL75811).		nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CTGTGTGCTGCTTTCGAGAAG	0.567													25	47	---	---	---	---	PASS	A	26231381	A	A	26231381	3	1	81	1	0	0	0	0	1	0	0	0	10066	797	28	3	3241	3	MYO18B	22	26231381	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2109808	26231381	25073185	816	31468										
TFIP11	24144	broad.mit.edu	37	chr22	26906143	26906143	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cggttggggttgaactcattCtggagatcccagtcagtgat	13	8	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr22:26906143C>G	uc003acr.2	-	3	470	c.96G>C	c.(94-96)CAG>CAC	p.Q32H	TFIP11_uc003acs.2_Missense_Mutation_p.Q32H|TFIP11_uc003act.2_Missense_Mutation_p.Q32H	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	32					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						TGAACTCATTCTGGAGATCCC	0.562													43	61	---	---	---	---	PASS	G	26906143	G	G	26906143	3	3	81	1	0	0	0	0	1	0	0	0	15804	912	32	2	2465	2	TFIP11	22	26906143	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	674762	26906143	24398423	817	31469										
MN1	4330	broad.mit.edu	37	chr22	28195100	28195100	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	attatccagagcgccgttgtGcatgctgccgttccacgaag	11	12	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr22:28195100G>T	uc003adj.2	-	1	2387	c.1432C>A	c.(1432-1434)CAC>AAC	p.H478N		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	478							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						GCGCCGTTGTGCATGCTGCCG	0.672			T	ETV6	AML|meningioma								7	10	---	---	---	---	PASS	T	28195100	T	T	28195100	3	4	81	1	0	0	0	0	1	0	0	0	9673	1319	46	3	2538	3	MN1	22	28195100	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	1288957	28195100	23109466	818	31470										
DEPDC5	9681	broad.mit.edu	37	chr22	32293623	32293623	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgcttgctcaaggagggcagCgagcacctgtttgatagtaa	13	8	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr22:32293623C>T	uc003als.2	+	39	4408	c.4266C>T	c.(4264-4266)AGC>AGT	p.S1422S	DEPDC5_uc011als.1_Silent_p.S1353S|DEPDC5_uc011alu.1_Silent_p.S1453S|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Silent_p.S1444S|DEPDC5_uc003alu.2_Silent_p.S871S|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Silent_p.S720S|DEPDC5_uc011alx.1_Silent_p.S270S|DEPDC5_uc010gwk.2_Silent_p.S448S|DEPDC5_uc011aly.1_Silent_p.S270S	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1422					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						AGGAGGGCAGCGAGCACCTGT	0.537													30	51	---	---	---	---	PASS	T	32293623	T	T	32293623	2	4	81	1	0	0	0	0	0	0	0	1	4442	767	27	1		1	DEPDC5	22	32293623	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	4098523	32293623	19010943	819	31471										
LARGE	9215	broad.mit.edu	37	chr22	34046429	34046429	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgccagcccgaaggttctcgCtgtctccagtgccctcctcc	9	18	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr22:34046429C>A	uc003and.3	-	4	911	c.332G>T	c.(331-333)AGC>ATC	p.S111I	LARGE_uc003ane.3_Missense_Mutation_p.S111I|LARGE_uc010gwp.2_Missense_Mutation_p.S111I|LARGE_uc011ame.1_Missense_Mutation_p.S43I|LARGE_uc011amf.1_Missense_Mutation_p.S111I	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	111	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				AAGGTTCTCGCTGTCTCCAGT	0.662													40	57	---	---	---	---	PASS	A	34046429	A	A	34046429	3	1	81	1	0	0	0	0	1	0	0	0	8627	797	28	3	1990	3	LARGE	22	34046429	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1752806	34046429	17258137	820	31472										
CSF2RB	1439	broad.mit.edu	37	chr22	37333900	37333900	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgctcttgggccaagggtgGgaggacaggaccaaaaggac	16	9	1	0	rs150659075	byFrequency	TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr22:37333900G>T	uc003aqa.3	+	14	2267	c.2050G>T	c.(2050-2052)GGA>TGA	p.G684*	CSF2RB_uc003aqc.3_Nonsense_Mutation_p.G690*	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	684	Cytoplasmic (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	GCCAAGGGTGGGAGGACAGGA	0.652													12	2	---	---	---	---	PASS	T	37333900	T	T	37333900	4	4	81	1	0	0	0	0	0	1	0	0	3935	1233	43	3	2100	3	CSF2RB	22	37333900	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3287471	37333900	13970666	821	31473										
APOBEC3F	200316	broad.mit.edu	37	chr22	39448112	39448112	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cccattgtcatgcagaaaggTgcttcctctcttggttctgt	9	11	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr22:39448112T>G	uc003aww.2	+	6	1050	c.757T>G	c.(757-759)TGC>GGC	p.C253G		NM_145298	NP_660341	Q9HC16	ABC3G_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	261					base conversion or substitution editing|DNA cytosine deamination|innate immune response|interspecies interaction between organisms|negative regulation of retroviral genome replication|negative regulation of transposition|positive regulation of defense response to virus by host|response to virus|viral reproduction	apolipoprotein B mRNA editing enzyme complex|cytosol|mitochondrion	cytidine deaminase activity|dCTP deaminase activity|protein homodimerization activity|RNA binding|zinc ion binding				0	Melanoma(58;0.04)					TGCAGAAAGGTGCTTCCTCTC	0.577													60	19	---	---	---	---	PASS	G	39448112	G	G	39448112	3	3	81	1	0	0	0	0	1	0	0	0	793	1696	59	5	918	5	APOBEC3F	22	39448112	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	2114212	39448112	11856454	822	31474										
TEF	7008	broad.mit.edu	37	chr22	41783378	41783378	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggaaaaggggaaggaaaagCtggaggaggacgaggccgca	19	5	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr22:41783378C>G	uc003azy.2	+	2	267	c.181C>G	c.(181-183)CTG>GTG	p.L61V	TEF_uc003azx.2_Missense_Mutation_p.L31V|TEF_uc011apa.1_Missense_Mutation_p.L66V	NM_003216	NP_003207	Q10587	TEF_HUMAN	thyrotrophic embryonic factor isoform 1	61					rhythmic process	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GAAGGAAAAGCTGGAGGAGGA	0.532													11	29	---	---	---	---	PASS	G	41783378	G	G	41783378	3	3	81	1	0	0	0	0	1	0	0	0	15747	796	28	4	258	4	TEF	22	41783378	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2335266	41783378	9521188	823	31475										
TTLL1	25809	broad.mit.edu	37	chr22	43465699	43465699	+	Frame_Shift_Del	DEL	C	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cagaggactcccttctttctCcagctccttcctgtatcttt							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr22:43465699delC	uc003bdi.2	-	4	506	c.265delG	c.(265-267)GAGfs	p.E89fs	TTLL1_uc010gzh.2_Frame_Shift_Del_p.E89fs|TTLL1_uc003bdj.2_5'UTR|TTLL1_uc003bdh.2_Frame_Shift_Del_p.E51fs	NM_012263	NP_036395	O95922	TTLL1_HUMAN	tubulin tyrosine ligase-like family, member 1	89	TTL.				protein polyglutamylation	cytoplasm|microtubule	ATP binding|tubulin-glutamic acid ligase activity|tubulin-tyrosine ligase activity			skin(1)	1		Ovarian(80;0.0694)		BRCA - Breast invasive adenocarcinoma(115;0.00461)		CCTTCTTTCTCCAGCTCCTTC	0.448													40	58	---	---	---	---		-	43465699	-	-	43465699	7	5	81	1	0	1	0	1	0	0	0	0	16719	864	30	0	1038	0	TTLL1	22	43465699	Frame_Shift_Del	DEL	C	TCGA-37-5819-01A-01D-1632-08	1682321	43465699	7838867	824	31476										
PARVG	64098	broad.mit.edu	37	chr22	44592283	44592283	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctgggcctgtctgtgcagaaTctggacacccaggtagggac	14	11	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chr22:44592283T>C	uc011aqe.1	+	11	1123	c.699T>C	c.(697-699)AAT>AAC	p.N233N	PARVG_uc003bep.2_Silent_p.N233N|PARVG_uc011aqf.1_Silent_p.N233N|PARVG_uc003beq.2_RNA|PARVG_uc003ber.2_RNA	NM_001137605	NP_001131077	Q9HBI0	PARVG_HUMAN	parvin, gamma	233	CH 2.				cell-matrix adhesion	cytoplasm|cytoskeleton|focal adhesion	actin binding				0		Ovarian(80;0.024)|all_neural(38;0.0299)				CTGTGCAGAATCTGGACACCC	0.612													18	39	---	---	---	---	PASS	C	44592283	C	C	44592283	2	2	81	1	0	0	0	0	0	0	0	1	11470	1432	50	5		5	PARVG	22	44592283	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	1126584	44592283	6712283	825	31477										
ARSH	347527	broad.mit.edu	37	chrX	2933302	2933302	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctttctgtttttcacttcctGgtactctagttatggattta	6	8	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:2933302G>T	uc011mhj.1	+	4	632	c.632G>T	c.(631-633)TGG>TTG	p.W211L		NM_001011719	NP_001011719	Q5FYA8	ARSH_HUMAN	arylsulfatase family, member H	211						integral to membrane	arylsulfatase activity|metal ion binding			lung(1)	1		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				TTCACTTCCTGGTACTCTAGT	0.458													10	4	---	---	---	---	PASS	T	2933302	T	T	2933302	3	4	81	1	0	0	0	0	1	0	0	0	993	1357	47	3	646	3	ARSH	23	2933302	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08		2933302	152337258	826	31478										
MXRA5	25878	broad.mit.edu	37	chrX	3229352	3229352	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaagacgacatagcgcttggTgcgtccaccgctgtcatccg	12	13	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:3229352T>G	uc004crg.3	-	7	7049	c.6892A>C	c.(6892-6894)ACC>CCC	p.T2298P		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2298	Ig-like C2-type 7.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TAGCGCTTGGTGCGTCCACCG	0.562													25	8	---	---	---	---	PASS	G	3229352	G	G	3229352	3	3	81	1	0	0	0	0	1	0	0	0	10003	1696	59	5	1598	5	MXRA5	23	3229352	Missense_Mutation	SNP	T	TCGA-37-5819-01A-01D-1632-08	296050	3229352	152041208	827	31479										
NLGN4X	57502	broad.mit.edu	37	chrX	5821361	5821361	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcaggtcggcggtggccacgGcgggggccacccactggtgg	20	13	0	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:5821361G>T	uc010ndh.2	-	5	1859	c.1358C>A	c.(1357-1359)GCC>GAC	p.A453D	NLGN4X_uc004crp.2_Missense_Mutation_p.A473D|NLGN4X_uc004crq.2_Missense_Mutation_p.A453D|NLGN4X_uc010ndi.2_Missense_Mutation_p.A490D|NLGN4X_uc004crr.2_Missense_Mutation_p.A453D|NLGN4X_uc010ndj.2_Missense_Mutation_p.A453D	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	453	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						GGTGGCCACGGCGGGGGCCAC	0.592													16	4	---	---	---	---	PASS	T	5821361	T	T	5821361	3	4	81	1	0	0	0	0	1	0	0	0	10464	1203	42	3	1100	3	NLGN4X	23	5821361	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	2592009	5821361	149449199	828	31480										
SH3KBP1	30011	broad.mit.edu	37	chrX	19568202	19568202	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggagtcaaaaccttctaagtCtaaaacaaaagtaaaacagt	6	7	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:19568202C>T	uc004czm.2	-	14	1701	c.1385_splice	c.e14-1	p.D462_splice	SH3KBP1_uc011mje.1_Splice_Site_p.D201_splice|SH3KBP1_uc011mjf.1_Splice_Site_p.D224_splice|SH3KBP1_uc004czl.2_Splice_Site_p.D425_splice|SH3KBP1_uc010nfm.2_Splice_Site	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a						apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						CCTTCTAAGTCTAAAACAAAA	0.423													23	5	---	---	---	---	PASS	T	19568202	T	T	19568202	5	4	81	1	0	0	0	0	0	0	1	0	14255	927	32	2	633	2	SH3KBP1	23	19568202	Splice_Site	SNP	C	TCGA-37-5819-01A-01D-1632-08	13746841	19568202	135702358	829	31481										
RPS6KA3	6197	broad.mit.edu	37	chrX	20194426	20194426	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aatgtatcttcaggcctgccCgttgcaggtttaaatggcgg	12	9	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:20194426C>A	uc004czu.2	-	13	1044	c.1044G>T	c.(1042-1044)ACG>ACT	p.T348T	RPS6KA3_uc011mjk.1_Silent_p.T319T|RPS6KA3_uc004czv.2_Silent_p.T336T|RPS6KA3_uc011mjl.1_Silent_p.T320T|RPS6KA3_uc011mjm.1_Silent_p.T320T	NM_004586	NP_004577	P51812	KS6A3_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	348	AGC-kinase C-terminal.				axon guidance|central nervous system development|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|skeletal system development|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(4)|stomach(1)|ovary(1)|lung(1)|breast(1)	8						CAGGCCTGCCCGTTGCAGGTT	0.328													10	8	---	---	---	---	PASS	A	20194426	A	A	20194426	2	1	81	1	0	0	0	0	0	0	0	1	13652	639	23	1		1	RPS6KA3	23	20194426	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	626224	20194426	135076134	830	31482										
MAGEB2	4113	broad.mit.edu	37	chrX	30237315	30237315	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aggagaaagcttctgatgccTctcctgggtgtgatcttctt	11	9	4	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:30237315T>A	uc004dbz.2	+	2	721	c.618T>A	c.(616-618)CCT>CCA	p.P206P		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	206	MAGE.						protein binding			ovary(1)	1						TTCTGATGCCTCTCCTGGGTG	0.498													9	3	---	---	---	---	PASS	A	30237315	A	A	30237315	2	1	81	1	0	0	0	0	0	0	0	1	9176	1538	54	5		5	MAGEB2	23	30237315	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	10042889	30237315	125033245	831	31483										
FAM47A	158724	broad.mit.edu	37	chrX	34148669	34148669	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gttcttttatgtaggatgctCgaatcttgggaggctccgag	13	7	2	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:34148669C>T	uc004ddg.2	-	1	1760	c.1727G>A	c.(1726-1728)CGA>CAA	p.R576Q		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	576										ovary(4)|central_nervous_system(1)	5						GTAGGATGCTCGAATCTTGGG	0.512													30	8	---	---	---	---	PASS	T	34148669	T	T	34148669	3	4	81	1	0	0	0	0	1	0	0	0	5569	884	31	2	652	2	FAM47A	23	34148669	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3911354	34148669	121121891	832	31484										
CYBB	1536	broad.mit.edu	37	chrX	37670107	37670107	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gaaaccctgagtaaacaaagCatctccaactctgagtctgg	8	11	3	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:37670107C>A	uc004ddr.2	+	13	1711	c.1650C>A	c.(1648-1650)AGC>AGA	p.S550R	CYBB_uc011mkf.1_Missense_Mutation_p.S518R|CYBB_uc011mkg.1_Missense_Mutation_p.S283R	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	550	Cytoplasmic (Potential).				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						GTAAACAAAGCATCTCCAACT	0.418													27	6	---	---	---	---	PASS	A	37670107	A	A	37670107	3	1	81	1	0	0	0	0	1	0	0	0	4133	709	25	3	1700	3	CYBB	23	37670107	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3521438	37670107	117600453	833	31485										
SRPX	8406	broad.mit.edu	37	chrX	38008974	38008974	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	aaccatcatgtcaggtgttaCaggtctggctcatttcggct	10	10	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:38008974C>A	uc004ddy.1	-	10	1471	c.1385G>T	c.(1384-1386)TGT>TTT	p.C462F	SRPX_uc004ddz.1_Missense_Mutation_p.C442F|SRPX_uc011mkh.1_Missense_Mutation_p.C403F|SRPX_uc011mki.1_3'UTR	NM_006307	NP_006298	P78539	SRPX_HUMAN	sushi-repeat-containing protein, X-linked	462					cell adhesion	cell surface|membrane					0						TCAGGTGTTACAGGTCTGGCT	0.453													12	1	---	---	---	---	PASS	A	38008974	A	A	38008974	3	1	81	1	0	0	0	0	1	0	0	0	15163	478	17	3	13	3	SRPX	23	38008974	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	338867	38008974	117261586	834	31486										
ZC3H12B	340554	broad.mit.edu	37	chrX	64709195	64709195	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctcgtgggcccagctccagaGagattgcaagccctgaattg	12	12	0	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:64709195G>T	uc010nko.2	+	1	490	c.481G>T	c.(481-483)GAG>TAG	p.E161*		NM_001010888	NP_001010888	Q5HYM0	ZC12B_HUMAN	zinc finger CCCH-type containing 12B	161							endonuclease activity|nucleic acid binding|zinc ion binding			lung(1)|kidney(1)|pancreas(1)	3						CAGCTCCAGAGAGATTGCAAG	0.448													39	11	---	---	---	---	PASS	T	64709195	T	T	64709195	4	4	81	1	0	0	0	0	0	1	0	0	17559	943	33	2	516	2	ZC3H12B	23	64709195	Nonsense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	26700221	64709195	90561365	835	31487										
HEPH	9843	broad.mit.edu	37	chrX	65423209	65423209	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctctgatcctccctcagggaCatttgagatttattgccagg	9	11	2	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:65423209C>T	uc011moz.1	+	13	2150	c.2090C>T	c.(2089-2091)ACA>ATA	p.T697I	HEPH_uc004dwn.2_Missense_Mutation_p.T697I|HEPH_uc004dwo.2_Missense_Mutation_p.T427I|HEPH_uc010nkr.2_Missense_Mutation_p.T505I|HEPH_uc011mpa.1_Missense_Mutation_p.T697I|HEPH_uc010nks.2_5'UTR	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	694	Plastocyanin-like 4.|Extracellular (Potential).				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						CCCTCAGGGACATTTGAGATT	0.527													9	22	---	---	---	---	PASS	T	65423209	T	T	65423209	3	4	81	1	0	0	0	0	1	0	0	0	7054	478	17	3	2293	3	HEPH	23	65423209	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	714014	65423209	89847351	836	31488										
ZCCHC5	203430	broad.mit.edu	37	chrX	77912828	77912828	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ttgtatagaactggcaagacCttcttgaaattggatccaga	9	7	1	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:77912828C>A	uc004edc.1	-	2	1386	c.1090G>T	c.(1090-1092)GGT>TGT	p.G364C		NM_152694	NP_689907	Q8N8U3	ZCHC5_HUMAN	zinc finger, CCHC domain containing 5	364							nucleic acid binding|zinc ion binding			ovary(1)	1						CTGGCAAGACCTTCTTGAAAT	0.493													26	7	---	---	---	---	PASS	A	77912828	A	A	77912828	3	1	81	1	0	0	0	0	1	0	0	0	17588	681	24	3	341	3	ZCCHC5	23	77912828	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	12489619	77912828	77357732	837	31489										
PCDH11X	27328	broad.mit.edu	37	chrX	91642888	91642888	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gtactttgatcgtgctacacCcagcaatcgcactgaagggg	11	11	0	2			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:91642888C>T	uc004efk.1	+	5	4144	c.3299C>T	c.(3298-3300)CCC>CTC	p.P1100L	PCDH11X_uc004efl.1_Missense_Mutation_p.P1090L|PCDH11X_uc004efo.1_Missense_Mutation_p.P1063L|PCDH11X_uc010nmv.1_Intron|PCDH11X_uc004efm.1_Missense_Mutation_p.P1100L|PCDH11X_uc004efn.1_Missense_Mutation_p.P1090L	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1100	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CGTGCTACACCCAGCAATCGC	0.517													25	4	---	---	---	---	PASS	T	91642888	T	T	91642888	3	4	81	1	0	0	0	0	1	0	0	0	11508	623	22	3	3439	3	PCDH11X	23	91642888	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	13730060	91642888	63627672	838	31490										
TNMD	64102	broad.mit.edu	37	chrX	99854696	99854696	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tgtaactggtgggtggcccgCatgctggggagggtctaata	17	7	1	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:99854696C>A	uc004efy.3	+	7	1162	c.936C>A	c.(934-936)CGC>CGA	p.R312R	TNMD_uc004efz.2_3'UTR	NM_022144	NP_071427	Q9H2S6	TNMD_HUMAN	tenomodulin	312	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						GGGTGGCCCGCATGCTGGGGA	0.463													10	2	---	---	---	---	PASS	A	99854696	A	A	99854696	2	1	81	1	0	0	0	0	0	0	0	1	16319	697	25	3		3	TNMD	23	99854696	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	8211808	99854696	55415864	839	31491										
GLRA4	441509	broad.mit.edu	37	chrX	102977157	102977157	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ggggcagagtcagcccctcaGccacttggacagcaggagca	14	13	2	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:102977157G>T	uc011mse.1	-	6	1062	c.641C>A	c.(640-642)GCT>GAT	p.A214D	GLRA4_uc010nou.2_Missense_Mutation_p.A214D	NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	214	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						CAGCCCCTCAGCCACTTGGAC	0.502													90	23	---	---	---	---	PASS	T	102977157	T	T	102977157	3	4	81	1	0	0	0	0	1	0	0	0	6457	971	34	3	723	3	GLRA4	23	102977157	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	3122461	102977157	52293403	840	31492										
NRK	203447	broad.mit.edu	37	chrX	105190366	105190366	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ctggctattggttctgaaaaAagactaaagattttcttcag	8	6	3	3			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:105190366A>T	uc004emd.2	+	26	4566	c.4263A>T	c.(4261-4263)AAA>AAT	p.K1421N	NRK_uc011msi.1_5'Flank	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1421	CNH.						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						GTTCTGAAAAAAGACTAAAGA	0.393										HNSCC(51;0.14)			12	28	---	---	---	---	PASS	T	105190366	T	T	105190366	3	4	81	1	0	0	0	0	1	0	0	0	10655	11	1	5	4365	5	NRK	23	105190366	Missense_Mutation	SNP	A	TCGA-37-5819-01A-01D-1632-08	2213209	105190366	50080194	841	31493										
COL4A6	1288	broad.mit.edu	37	chrX	107448925	107448925	+	Missense_Mutation	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	accaggaggccctggaggacCctagattttttttaaaaata							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:107448925C>A	uc004enw.3	-	10	716	c.613G>T	c.(613-615)GGT>TGT	p.G205C	COL4A6_uc004env.3_Missense_Mutation_p.G204C|COL4A6_uc011msn.1_Missense_Mutation_p.G204C|COL4A6_uc010npk.2_Missense_Mutation_p.G204C	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	205	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						CCTGGAGGACCCTAGATTTTT	0.428									Alport_syndrome_with_Diffuse_Leiomyomatosis				16	7	---	---	---	---	PASS	A	107448925	A	A	107448925	3	1	81	1	0	0	0	0	1	0	0	0	3695	637	22	3	4606	3	COL4A6	23	107448925	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	2258559	107448925	47821635	842	31494	627	2								
COL4A6	1288	broad.mit.edu	37	chrX	107448926	107448926	+	Splice_Site	SNP	C	A	A													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccaggaggccctggaggaccCtagattttttttaaaaataa							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:107448926C>A	uc004enw.3	-	10	716	c.613_splice	c.e10-1	p.G205_splice	COL4A6_uc004env.3_Splice_Site_p.G204_splice|COL4A6_uc011msn.1_Splice_Site_p.G204_splice|COL4A6_uc010npk.2_Splice_Site_p.G204_splice	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor						cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						CTGGAGGACCCTAGATTTTTT	0.423									Alport_syndrome_with_Diffuse_Leiomyomatosis				16	6	---	---	---	---	PASS	A	107448926	A	A	107448926	5	1	81	1	0	0	0	0	0	0	1	0	3695	695	24	3	4607	3	COL4A6	23	107448926	Splice_Site	SNP	C	TCGA-37-5819-01A-01D-1632-08	1	107448926	47821634	843	31495	627	2								
GUCY2F	2986	broad.mit.edu	37	chrX	108619153	108619153	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	gcttgtttctcaccaactgcCtttctgcttttcttctttgg	6	12	4	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:108619153C>T	uc004eod.3	-	19	3578	c.3302G>A	c.(3301-3303)AGG>AAG	p.R1101K	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	1101	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						CACCAACTGCCTTTCTGCTTT	0.502													59	21	---	---	---	---	PASS	T	108619153	T	T	108619153	3	4	81	1	0	0	0	0	1	0	0	0	6898	681	24	3	28	3	GUCY2F	23	108619153	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	1170227	108619153	46651407	844	31496										
ACTRT1	139741	broad.mit.edu	37	chrX	127185755	127185755	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	cacaggcagaggcatagagcGctgccaccgcatgattagac	12	12	0	4			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:127185755G>A	uc004eum.2	-	1	628	c.431C>T	c.(430-432)GCG>GTG	p.A144V		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	144						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						GGCATAGAGCGCTGCCACCGC	0.527													36	75	---	---	---	---	PASS	A	127185755	A	A	127185755	3	1	81	1	0	0	0	0	1	0	0	0	218	1087	38	1	703	1	ACTRT1	23	127185755	Missense_Mutation	SNP	G	TCGA-37-5819-01A-01D-1632-08	18566602	127185755	28084805	845	31497										
ARHGAP36	158763	broad.mit.edu	37	chrX	130218252	130218252	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	ccctgctgctgcagaccctgCagctttcaaaaatttccttt	6	14	1	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:130218252C>G	uc004evz.2	+	5	964	c.619C>G	c.(619-621)CAG>GAG	p.Q207E	ARHGAP36_uc004ewa.2_Missense_Mutation_p.Q195E|ARHGAP36_uc004ewb.2_Missense_Mutation_p.Q176E|ARHGAP36_uc004ewc.2_Missense_Mutation_p.Q71E	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	207					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						GCAGACCCTGCAGCTTTCAAA	0.473													25	4	---	---	---	---	PASS	G	130218252	G	G	130218252	3	3	81	1	0	0	0	0	1	0	0	0	883	711	25	4	633	4	ARHGAP36	23	130218252	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3032497	130218252	25052308	846	31498										
GPR112	139378	broad.mit.edu	37	chrX	135432348	135432348	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	tcatggaacagaattccaacTgcatcatcaccctctacttt	4	13	4	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:135432348T>C	uc004ezu.1	+	6	6774	c.6483T>C	c.(6481-6483)ACT>ACC	p.T2161T	GPR112_uc010nsb.1_Silent_p.T1956T|GPR112_uc010nsc.1_Silent_p.T1928T	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	2161	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					GAATTCCAACTGCATCATCAC	0.433													41	6	---	---	---	---	PASS	C	135432348	C	C	135432348	2	2	81	1	0	0	0	0	0	0	0	1	6629	1567	55	5		5	GPR112	23	135432348	Silent	SNP	T	TCGA-37-5819-01A-01D-1632-08	5214096	135432348	19838212	847	31499										
MCF2	4168	broad.mit.edu	37	chrX	138713648	138713648	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caatgtatgtcagcaaatcaCtaactgagctcagcataaca	6	10	3	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:138713648C>A	uc004fau.2	-	3	488	c.194G>T	c.(193-195)AGT>ATT	p.S65I	MCF2_uc004fav.2_Missense_Mutation_p.S65I|MCF2_uc011mwl.1_Intron|MCF2_uc010nsh.1_Missense_Mutation_p.S65I|MCF2_uc011mwm.1_Intron|MCF2_uc011mwn.1_Missense_Mutation_p.S210I|MCF2_uc004faw.2_Missense_Mutation_p.S125I|MCF2_uc011mwo.1_Missense_Mutation_p.S125I	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	65	CRAL-TRIO.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					CAGCAAATCACTAACTGAGCT	0.398													41	13	---	---	---	---	PASS	A	138713648	A	A	138713648	3	1	81	1	0	0	0	0	1	0	0	0	9378	565	20	3	2755	3	MCF2	23	138713648	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	3281300	138713648	16556912	848	31500										
MAGEC3	139081	broad.mit.edu	37	chrX	140969385	140969385	+	Frame_Shift_Del	DEL	G	-	-													0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	agttcatagagattctttttGgcatttccctgacagaagtg							TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:140969385delG	uc011mwp.1	+	4	712	c.712delG	c.(712-714)GGCfs	p.G238fs		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	238	MAGE 1.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GATTCTTTTTGGCATTTCCCT	0.468													30	87	---	---	---	---		-	140969385	-	-	140969385	7	5	81	1	0	1	0	1	0	0	0	0	9182	1348	47	0	726	0	MAGEC3	23	140969385	Frame_Shift_Del	DEL	G	TCGA-37-5819-01A-01D-1632-08	2255737	140969385	14301175	849	31501										
MAGEC3	139081	broad.mit.edu	37	chrX	140985491	140985491	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	catccctagtgcctttccatCctggtacatggatgctttga	8	12	0	1			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:140985491C>A	uc011mwp.1	+	8	1805	c.1805C>A	c.(1804-1806)TCC>TAC	p.S602Y	MAGEC3_uc004fbs.2_3'UTR|MAGEC3_uc010nsj.2_3'UTR	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	602	MAGE 2.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GCCTTTCCATCCTGGTACATG	0.478													47	6	---	---	---	---	PASS	A	140985491	A	A	140985491	3	1	81	1	0	0	0	0	1	0	0	0	9182	855	30	2	2202	2	MAGEC3	23	140985491	Missense_Mutation	SNP	C	TCGA-37-5819-01A-01D-1632-08	16106	140985491	14285069	850	31502										
GABRQ	55879	broad.mit.edu	37	chrX	151818973	151818973	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0528846153846154	44	0.106326697144856	1.24512866279935	1.56793979759918	1.1022450457568	0.117291770695331	0.420728408894326	0	caagtctactggcctactgtCctcaccactattacctcttg	5	15	3	0			TCGA-37-5819-01A-01D-1632-08	TCGA-37-5819-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	edf2a2c0-3829-4da2-8960-598fbd5c4c07	3f4b2249-68d7-4044-988c-66d89a2ae0e1	g.chrX:151818973C>A	uc004ffp.1	+	7	851	c.831C>A	c.(829-831)GTC>GTA	p.V277V		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	277	Helical; (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGCCTACTGTCCTCACCACTA	0.473													156	20	---	---	---	---	PASS	A	151818973	A	A	151818973	2	1	81	1	0	0	0	0	0	0	0	1	6175	842	30	2		2	GABRQ	23	151818973	Silent	SNP	C	TCGA-37-5819-01A-01D-1632-08	10833482	151818973	3451587	851	31503										
PRKCZ	5590	broad.mit.edu	37	chr1	2077516	2077516	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtagacgacaagaacgaggaCgccgaccttccttccgagga	12	12	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:2077516C>T	uc001aiq.2	+	7	764	c.603C>T	c.(601-603)GAC>GAT	p.D201D	PRKCZ_uc001air.2_Silent_p.D18D|PRKCZ_uc010nyw.1_Silent_p.D97D|PRKCZ_uc001ais.2_Silent_p.D18D|PRKCZ_uc009vla.2_Silent_p.D25D|PRKCZ_uc010nyx.1_RNA|PRKCZ_uc009vlb.2_Silent_p.D14D	NM_002744	NP_002735	Q05513	KPCZ_HUMAN	protein kinase C, zeta isoform 1	201					anti-apoptosis|intracellular signal transduction|negative regulation of insulin receptor signaling pathway|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein complex assembly|peptidyl-serine phosphorylation|platelet activation	endosome	ATP binding|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(2)	6	all_cancers(77;0.000177)|all_epithelial(69;6.41e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;1.14e-19)|all_lung(118;1.22e-08)|Lung NSC(185;1.24e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;2.96e-37)|OV - Ovarian serous cystadenocarcinoma(86;3.3e-23)|GBM - Glioblastoma multiforme(42;2.85e-08)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.00294)|BRCA - Breast invasive adenocarcinoma(365;0.00493)|STAD - Stomach adenocarcinoma(132;0.00669)|KIRC - Kidney renal clear cell carcinoma(229;0.0411)|Lung(427;0.213)		AGAACGAGGACGCCGACCTTC	0.582													15	72	---	---	---	---	PASS	T	2077516	T	T	2077516	2	4	82	1	0	0	0	0	0	0	0	1	12517	535	19	1		1	PRKCZ	1	2077516	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08		2077516	247173105	1	31504										
AGTRAP	57085	broad.mit.edu	37	chr1	11807558	11807558	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcaccatcctggccttgggcGtgtgggctgtggctcagcgg	16	12	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:11807558G>A	uc001asv.2	+	3	248	c.124G>A	c.(124-126)GTG>ATG	p.V42M	AGTRAP_uc001ast.2_Missense_Mutation_p.R74H|AGTRAP_uc001asu.2_Missense_Mutation_p.R74H|AGTRAP_uc001asw.2_Missense_Mutation_p.V42M|AGTRAP_uc001asx.2_Missense_Mutation_p.R30H	NM_020350	NP_065083	Q6RW13	ATRAP_HUMAN	angiotensin II receptor-associated protein	42	Helical; (Potential).					cytoplasmic vesicle membrane|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein binding		AGTRAP/BRAF(2)	stomach(2)	2	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.46e-06)|COAD - Colon adenocarcinoma(227;0.000256)|BRCA - Breast invasive adenocarcinoma(304;0.0003)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		GGCCTTGGGCGTGTGGGCTGT	0.642													5	195	---	---	---	---	PASS	A	11807558	A	A	11807558	3	1	82	1	0	0	0	0	1	0	0	0	403	1145	40	1	235	1	AGTRAP	1	11807558	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	9730042	11807558	237443063	2	31505										
RNF186	54546	broad.mit.edu	37	chr1	20141183	20141183	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttcatcctgtccatcctctcCcaccaagctggggtgtcctg	8	16	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:20141183C>A	uc001bcr.2	-	1	589	c.412G>T	c.(412-414)GGA>TGA	p.G138*		NM_019062	NP_061935	Q9NXI6	RN186_HUMAN	ring finger protein 186	138						integral to membrane	zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;7.77e-05)|Kidney(64;0.000162)|GBM - Glioblastoma multiforme(114;0.00036)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CCATCCTCTCCCACCAAGCTG	0.637													50	31	---	---	---	---	PASS	A	20141183	A	A	20141183	4	1	82	1	0	0	0	0	0	1	0	0	13469	632	22	3	275	3	RNF186	1	20141183	Nonsense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	8333625	20141183	229109438	3	31506										
GPATCH3	63906	broad.mit.edu	37	chr1	27226883	27226883	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aacacggaggggataccgctCactaccaggtaaactgtcgc	11	12	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:27226883C>T	uc001bne.2	-	1	80	c.51G>A	c.(49-51)GTG>GTA	p.V17V	GPATCH3_uc009vsp.1_5'UTR	NM_022078	NP_071361	Q96I76	GPTC3_HUMAN	G patch domain containing 3	17						intracellular	nucleic acid binding				0		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.97e-51)|OV - Ovarian serous cystadenocarcinoma(117;9.55e-30)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|STAD - Stomach adenocarcinoma(196;0.000595)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|READ - Rectum adenocarcinoma(331;0.0419)		GGATACCGCTCACTACCAGGT	0.597													37	30	---	---	---	---	PASS	T	27226883	T	T	27226883	2	4	82	1	0	0	0	0	0	0	0	1	6592	813	29	2		2	GPATCH3	1	27226883	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	7085700	27226883	222023738	4	31507										
LEPR	3953	broad.mit.edu	37	chr1	66087122	66087122	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccatcttattgcttggaacaTtattaatatcacaccaaagg	5	9	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:66087122T>A	uc001dci.2	+	18	2780	c.2578T>A	c.(2578-2580)TTA>ATA	p.L860I	LEPR_uc001dcg.2_Missense_Mutation_p.L860I|LEPR_uc001dch.2_Missense_Mutation_p.L860I|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Missense_Mutation_p.L860I|LEPR_uc001dck.2_Missense_Mutation_p.L860I	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	860	Helical; (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)		GCTTGGAACATTATTAATATC	0.323													40	46	---	---	---	---	PASS	A	66087122	A	A	66087122	3	1	82	1	0	0	0	0	1	0	0	0	8728	1490	52	5	2640	5	LEPR	1	66087122	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	38860239	66087122	183163499	5	31508										
RBMXL1	494115	broad.mit.edu	37	chr1	89448597	89448597	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atcatagcgactgcttccacCataagatggcgggggccctc	11	13	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:89448597C>A	uc009wcx.2	-	3	1629	c.913G>T	c.(913-915)GGT>TGT	p.G305C	CCBL2_uc001dmp.2_Intron|CCBL2_uc001dmq.2_Intron|CCBL2_uc001dmr.2_Intron|RBMXL1_uc001dms.2_Missense_Mutation_p.G305C	NM_001162536	NP_001156008	Q96E39	RBMXL_HUMAN	RNA binding motif protein, X-linked-like 1	305	Ser-rich.						nucleotide binding|RNA binding				0						CTGCTTCCACCATAAGATGGC	0.473													114	102	---	---	---	---	PASS	A	89448597	A	A	89448597	3	1	82	1	0	0	0	0	1	0	0	0	13153	594	21	3	263	3	RBMXL1	1	89448597	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	23361475	89448597	159802024	6	31509										
SLC30A7	148867	broad.mit.edu	37	chr1	101383663	101383663	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cttaaaagaaacaacaggacCcagcagacagattttacaag	7	9	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:101383663C>A	uc001dtn.2	+	7	873	c.686C>A	c.(685-687)CCC>CAC	p.P229H	SLC30A7_uc001dto.2_Missense_Mutation_p.P229H	NM_001144884	NP_001138356	Q8NEW0	ZNT7_HUMAN	zinc transporter like 2	229	Cytoplasmic (Potential).				zinc ion transport	Golgi apparatus|integral to membrane	cation transmembrane transporter activity|protein binding				0		all_epithelial(167;0.000445)|all_lung(203;0.00645)|Lung NSC(277;0.0119)		Epithelial(280;0.0437)|all cancers(265;0.0498)|COAD - Colon adenocarcinoma(174;0.162)|Colorectal(144;0.19)|Lung(183;0.201)		ACAACAGGACCCAGCAGACAG	0.313													41	46	---	---	---	---	PASS	A	101383663	A	A	101383663	3	1	82	1	0	0	0	0	1	0	0	0	14560	623	22	3	712	3	SLC30A7	1	101383663	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	11935066	101383663	147866958	7	31510										
COL11A1	1301	broad.mit.edu	37	chr1	103468777	103468777	+	Frame_Shift_Del	DEL	C	-	-													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccagcaatacatacaggctgCcctggagctcctggagttcc							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:103468777delC	uc001dul.2	-	21	2310	c.1992delG	c.(1990-1992)GGGfs	p.G664fs	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Frame_Shift_Del_p.G676fs|COL11A1_uc001dun.2_Frame_Shift_Del_p.G625fs|COL11A1_uc009weh.2_Frame_Shift_Del_p.G548fs	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	664	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		ATACAGGCTGCCCTGGAGCTC	0.443													28	25	---	---	---	---		-	103468777	-	-	103468777	7	5	82	1	0	1	0	1	0	0	0	0	3667	726	26	0	3616	0	COL11A1	1	103468777	Frame_Shift_Del	DEL	C	TCGA-39-5016-01A-01D-1441-08	2085114	103468777	145781844	8	31511										
WARS2	10352	broad.mit.edu	37	chr1	119575589	119575589	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acacagtgtatgctaattctTtggcttttgctgatccaatt	7	8	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:119575589T>C	uc001ehn.2	-	6	1056	c.1028A>G	c.(1027-1029)AAA>AGA	p.K343R	WARS2_uc010oxf.1_Missense_Mutation_p.K249R|WARS2_uc001ehm.2_3'UTR|WARS2_uc010oxg.1_Missense_Mutation_p.K286R|WARS2_uc010oxh.1_3'UTR	NM_015836	NP_056651	Q9UGM6	SYWM_HUMAN	mitochondrial tryptophanyl tRNA synthetase 2	343					tryptophanyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|tryptophan-tRNA ligase activity				0	all_neural(166;0.187)	all_lung(203;2.48e-06)|Lung NSC(69;1.74e-05)|all_epithelial(167;0.000564)		Lung(183;0.0629)	L-Tryptophan(DB00150)	TGCTAATTCTTTGGCTTTTGC	0.413													64	65	---	---	---	---	PASS	C	119575589	C	C	119575589	3	2	82	1	0	0	0	0	1	0	0	0	17247	1841	64	5	58	5	WARS2	1	119575589	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	16106812	119575589	129675032	9	31512										
FLG	2312	broad.mit.edu	37	chr1	152280813	152280813	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cttgcacttctggatcctgaCtgcccacgggaggcatcaga	11	13	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:152280813C>G	uc001ezu.1	-	3	6585	c.6549G>C	c.(6547-6549)CAG>CAC	p.Q2183H		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2183	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGGATCCTGACTGCCCACGGG	0.537									Ichthyosis				15	608	---	---	---	---	PASS	G	152280813	G	G	152280813	3	3	82	1	0	0	0	0	1	0	0	0	5922	564	20	4	5640	4	FLG	1	152280813	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	32705224	152280813	96969808	10	31513										
SPTA1	6708	broad.mit.edu	37	chr1	158651325	158651325	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	taagttcgataccttgtctcCaatccactctaagatgtcag	6	11	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:158651325C>A	uc001fst.1	-	4	722	c.523G>T	c.(523-525)GGA>TGA	p.G175*		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	175	Spectrin 3.				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)					ACCTTGTCTCCAATCCACTCT	0.517													373	184	---	---	---	---	PASS	A	158651325	A	A	158651325	4	1	82	1	0	0	0	0	0	1	0	0	15115	603	21	3	6932	3	SPTA1	1	158651325	Nonsense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	6370512	158651325	90599296	11	31514										
DARC	2532	broad.mit.edu	37	chr1	159175318	159175318	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agatgtatggaattcttcctAtggtgtgaatgattccttcc	9	7	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:159175318A>G	uc001fto.2	+	2	329	c.89A>G	c.(88-90)TAT>TGT	p.Y30C	DARC_uc001ftp.3_Missense_Mutation_p.Y32C	NM_002036	NP_002027	Q16570	DUFFY_HUMAN	Duffy blood group antigen isoform b	30	Extracellular (Potential).				defense response	integral to membrane|plasma membrane	C-C chemokine binding|chemokine receptor activity			ovary(1)|lung(1)	2	all_hematologic(112;0.0429)					AATTCTTCCTATGGTGTGAAT	0.547													74	37	---	---	---	---	PASS	G	159175318	G	G	159175318	3	3	82	1	0	0	0	0	1	0	0	0	4240	449	16	5	122	5	DARC	1	159175318	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	523993	159175318	90075303	12	31515										
IGSF9	57549	broad.mit.edu	37	chr1	159897217	159897217	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tagtagcatctcggcggcggCggaaggccaggaattcctcc	14	12	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:159897217C>T	uc001fur.2	-	21	3656	c.3458G>A	c.(3457-3459)CGC>CAC	p.R1153H	IGSF9_uc001fuq.2_Missense_Mutation_p.R1137H|CCDC19_uc001ful.2_5'Flank|TAGLN2_uc001fun.1_5'Flank|TAGLN2_uc001fuo.1_5'Flank|TAGLN2_uc010piy.1_5'Flank|IGSF9_uc001fup.2_Missense_Mutation_p.R299H	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	1153	Cytoplasmic (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			TCGGCGGCGGCGGAAGGCCAG	0.637													18	86	---	---	---	---	PASS	T	159897217	T	T	159897217	3	4	82	1	0	0	0	0	1	0	0	0	7605	768	27	1	85	1	IGSF9	1	159897217	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	721899	159897217	89353404	13	31516										
PCP4L1	654790	broad.mit.edu	37	chr1	161254154	161254154	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gctggcaatgtcaagaaggcGgaggaggaggaggagattga	19	4	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:161254154G>A	uc001gad.2	+	3	338	c.90G>A	c.(88-90)GCG>GCA	p.A30A		NM_001102566	NP_001096036	A6NKN8	PC4L1_HUMAN	Purkinje cell protein 4 like 1	30											0	all_cancers(52;4.16e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			TCAAGAAGGCGGAGGAGGAGG	0.488													19	124	---	---	---	---	PASS	A	161254154	A	A	161254154	2	1	82	1	0	0	0	0	0	0	0	1	11599	1103	39	1		1	PCP4L1	1	161254154	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	1356937	161254154	87996467	14	31517										
RXRG	6258	broad.mit.edu	37	chr1	165376129	165376129	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tctcgcagagtctccacctcAgaggggttggacaggccctt	12	13	3	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:165376129A>G	uc001gda.2	-	9	1464	c.1164T>C	c.(1162-1164)TCT>TCC	p.S388S		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	388	Ligand-binding (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	TCTCCACCTCAGAGGGGTTGG	0.547													82	49	---	---	---	---	PASS	G	165376129	G	G	165376129	2	3	82	1	0	0	0	0	0	0	0	1	13765	175	7	5		5	RXRG	1	165376129	Silent	SNP	A	TCGA-39-5016-01A-01D-1441-08	4121975	165376129	83874492	15	31518										
RXRG	6258	broad.mit.edu	37	chr1	165386326	165386326	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cttctgatagcgacagtactGgcagcggttgcgctgacgct	13	11	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:165386326G>A	uc001gda.2	-	4	874	c.574C>T	c.(574-576)CAG>TAG	p.Q192*		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	192	NR C4-type.|Nuclear receptor.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	CGACAGTACTGGCAGCGGTTG	0.507													44	62	---	---	---	---	PASS	A	165386326	A	A	165386326	4	1	82	1	0	0	0	0	0	1	0	0	13765	1357	47	3	845	3	RXRG	1	165386326	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	10197	165386326	83864295	16	31519										
RC3H1	149041	broad.mit.edu	37	chr1	173931198	173931198	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tggtggaggtcggacaaagcGggacacacattgtggtggtg	18	6	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:173931198G>A	uc001gju.3	-	11	1954	c.1867C>T	c.(1867-1869)CGC>TGC	p.R623C	RC3H1_uc010pms.1_Missense_Mutation_p.R623C|RC3H1_uc001gjv.2_Missense_Mutation_p.R623C|RC3H1_uc010pmt.1_Missense_Mutation_p.R623C	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	623	Pro-rich.				cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CGGACAAAGCGGGACACACAT	0.438													17	98	---	---	---	---	PASS	A	173931198	A	A	173931198	3	1	82	1	0	0	0	0	1	0	0	0	13166	1116	39	1	1570	1	RC3H1	1	173931198	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	8544872	173931198	75319423	17	31520										
TNR	7143	broad.mit.edu	37	chr1	175355405	175355405	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agccacagtgtccgagacatCgcgaaccaggatctgcgtgg	13	12	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:175355405C>A	uc001gkp.1	-	6	1621	c.1540G>T	c.(1540-1542)GAT>TAT	p.D514Y	TNR_uc009wwu.1_Missense_Mutation_p.D514Y	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	514	Fibronectin type-III 3.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TCCGAGACATCGCGAACCAGG	0.498													4	73	---	---	---	---	PASS	A	175355405	A	A	175355405	3	1	82	1	0	0	0	0	1	0	0	0	16335	884	31	2	2600	2	TNR	1	175355405	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	1424207	175355405	73895216	18	31521										
FAM5B	57795	broad.mit.edu	37	chr1	177225101	177225101	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acttggctctggaaaggaagGacttcttcagtttgccattg	11	8	3	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:177225101G>C	uc001glf.2	+	3	628	c.316G>C	c.(316-318)GAC>CAC	p.D106H	FAM5B_uc010pna.1_5'UTR|FAM5B_uc001glg.2_5'Flank	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	106						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						GGAAAGGAAGGACTTCTTCAG	0.498											OREG0014006	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	103	---	---	---	---	PASS	C	177225101	C	C	177225101	3	2	82	1	0	0	0	0	1	0	0	0	5593	1174	41	2	322	2	FAM5B	1	177225101	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1869696	177225101	72025520	19	31522										
HMCN1	83872	broad.mit.edu	37	chr1	186034406	186034406	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aattacatggcacaaagatgGgcagcccctccaagaagatg	10	10	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:186034406G>T	uc001grq.1	+	49	7779	c.7550G>T	c.(7549-7551)GGG>GTG	p.G2517V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2517	Ig-like C2-type 23.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CACAAAGATGGGCAGCCCCTC	0.398													34	21	---	---	---	---	PASS	T	186034406	T	T	186034406	3	4	82	1	0	0	0	0	1	0	0	0	7220	1232	43	3	7744	3	HMCN1	1	186034406	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	8809305	186034406	63216215	20	31523										
PLA2G4A	5321	broad.mit.edu	37	chr1	186919850	186919850	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gacagtgatgatgaatcacaCgaacccaaaggtgagtgagc	12	8	1	5			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:186919850C>G	uc001gsc.2	+	13	1531	c.1326C>G	c.(1324-1326)CAC>CAG	p.H442Q	PLA2G4A_uc010pos.1_Missense_Mutation_p.H382Q	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	442	PLA2c.		H -> Q (in a breast cancer sample; somatic mutation).		phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity	p.H442Q(1)		lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	ATGAATCACACGAACCCAAAG	0.398													14	109	---	---	---	---	PASS	G	186919850	G	G	186919850	3	3	82	1	0	0	0	0	1	0	0	0	12001	535	19	4	1372	4	PLA2G4A	1	186919850	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	885444	186919850	62330771	21	31524										
PLXNA2	5362	broad.mit.edu	37	chr1	208219238	208219238	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cctaccttcagaatgatgggCgatcctggcttttgatccaa	9	11	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:208219238C>T	uc001hgz.2	-	18	4238	c.3480G>A	c.(3478-3480)TCG>TCA	p.S1160S		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1160	IPT/TIG 4.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GAATGATGGGCGATCCTGGCT	0.537													31	173	---	---	---	---	PASS	T	208219238	T	T	208219238	2	4	82	1	0	0	0	0	0	0	0	1	12120	755	27	1		1	PLXNA2	1	208219238	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	21299388	208219238	41031383	22	31525										
USH2A	7399	broad.mit.edu	37	chr1	216500970	216500970	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttggtataatcgaaaatcttGcattcttccgacaaactgct	6	9	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:216500970G>A	uc001hku.1	-	5	1198	c.811C>T	c.(811-813)CAA>TAA	p.Q271*	USH2A_uc001hkv.2_Nonsense_Mutation_p.Q271*	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	271	Laminin N-terminal.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CGAAAATCTTGCATTCTTCCG	0.358										HNSCC(13;0.011)			110	56	---	---	---	---	PASS	A	216500970	A	A	216500970	4	1	82	1	0	0	0	0	0	1	0	0	17033	1328	46	3	15083	3	USH2A	1	216500970	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	8281732	216500970	32749651	23	31526										
ACBD3	64746	broad.mit.edu	37	chr1	226352579	226352579	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctatttaagagcttgacaaaCtccaccatggcatcctcttt	5	12	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:226352579C>A	uc001hpy.2	-	3	527	c.480G>T	c.(478-480)GAG>GAT	p.E160D		NM_022735	NP_073572	Q9H3P7	GCP60_HUMAN	acyl-Coenzyme A binding domain containing 3	160	ACB.				steroid biosynthetic process|transport	Golgi membrane|integral to membrane|mitochondrion	fatty-acyl-CoA binding|protein binding				0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.121)		GCTTGACAAACTCCACCATGG	0.408													3	152	---	---	---	---	PASS	A	226352579	A	A	226352579	3	1	82	1	0	0	0	0	1	0	0	0	123	564	20	3	1130	3	ACBD3	1	226352579	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	9851609	226352579	22898042	24	31527										
ACTA1	58	broad.mit.edu	37	chr1	229567639	229567639	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtggtctcgtgaatgcccgcCgactccatacctggggaccg	13	14	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:229567639C>A	uc001htm.2	-	6	924	c.819G>T	c.(817-819)TCG>TCT	p.S273S		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	273					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	GAATGCCCGCCGACTCCATAC	0.493													38	87	---	---	---	---	PASS	A	229567639	A	A	229567639	2	1	82	1	0	0	0	0	0	0	0	1	191	639	23	1		1	ACTA1	1	229567639	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	3215060	229567639	19682982	25	31528										
EXO1	9156	broad.mit.edu	37	chr1	242021897	242021897	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cagcttggggatgtattcacGgaagagaagtttcgttacat	12	6	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:242021897G>C	uc001hzh.2	+	8	1173	c.633G>C	c.(631-633)ACG>ACC	p.T211T	EXO1_uc001hzi.2_Silent_p.T211T|EXO1_uc001hzj.2_Silent_p.T211T|EXO1_uc009xgq.2_Silent_p.T211T	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	211	I-domain.|Interaction with MSH3.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			ATGTATTCACGGAAGAGAAGT	0.423								Direct_reversal_of_damage|Editing_and_processing_nucleases					27	256	---	---	---	---	PASS	C	242021897	C	C	242021897	2	2	82	1	0	0	0	0	0	0	0	1	5300	1103	39	4		4	EXO1	1	242021897	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	12454258	242021897	7228724	26	31529										
ZNF238	10472	broad.mit.edu	37	chr1	244218625	244218625	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aagcactgagcttgcctactGtcagagactggaccttagaa	10	10	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr1:244218625G>A	uc001iae.2	+	1	2044	c.1522G>A	c.(1522-1524)GTC>ATC	p.V508I	ZNF238_uc001iad.3_Missense_Mutation_p.V517I|ZNF238_uc001iaf.1_3'UTR	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	508					negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			CTTGCCTACTGTCAGAGACTG	0.358													26	203	---	---	---	---	PASS	A	244218625	A	A	244218625	3	1	82	1	0	0	0	0	1	0	0	0	17787	1377	48	3	1555	3	ZNF238	1	244218625	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	2196728	244218625	5031996	27	31530										
CMPK2	129607	broad.mit.edu	37	chr2	7003614	7003614	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cccgtggcatccagtccttcGatggcaacaacctggaactt	9	14	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:7003614G>A	uc002qyo.2	-	2	880	c.771C>T	c.(769-771)ATC>ATT	p.I257I	CMPK2_uc010yis.1_Silent_p.I257I|CMPK2_uc010ewv.2_Silent_p.I257I	NM_207315	NP_997198	Q5EBM0	CMPK2_HUMAN	UMP-CMP kinase 2 precursor	257					dTDP biosynthetic process	mitochondrion	ATP binding|cytidylate kinase activity|thymidylate kinase activity|UMP kinase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					CCAGTCCTTCGATGGCAACAA	0.448													55	96	---	---	---	---	PASS	A	7003614	A	A	7003614	2	1	82	1	0	0	0	0	0	0	0	1	3581	1048	37	2		2	CMPK2	2	7003614	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08		7003614	236195759	28	31531										
NTSR2	23620	broad.mit.edu	37	chr2	11809674	11809674	+	Nonsense_Mutation	SNP	G	T	T													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtgcggctcaccagcaccgtGcacactcgcgaggcgggctc							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:11809674G>T	uc002rbq.3	-	1	656	c.582C>A	c.(580-582)TGC>TGA	p.C194*		NM_012344	NP_036476	O95665	NTR2_HUMAN	neurotensin receptor 2	194	Extracellular (Potential).				sensory perception	integral to plasma membrane					0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.129)|OV - Ovarian serous cystadenocarcinoma(76;0.24)	Levocabastine(DB01106)	CCAGCACCGTGCACACTCGCG	0.721													9	22	---	---	---	---	PASS	T	11809674	T	T	11809674	4	4	82	1	0	0	0	0	0	1	0	0	10711	1311	46	3	666	3	NTSR2	2	11809674	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	4806060	11809674	231389699	29	31532	628	2								
NTSR2	23620	broad.mit.edu	37	chr2	11809675	11809675	+	Missense_Mutation	SNP	C	T	T													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgcggctcaccagcaccgtgCacactcgcgaggcgggctcc							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:11809675C>T	uc002rbq.3	-	1	655	c.581G>A	c.(580-582)TGC>TAC	p.C194Y		NM_012344	NP_036476	O95665	NTR2_HUMAN	neurotensin receptor 2	194	Extracellular (Potential).				sensory perception	integral to plasma membrane					0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.129)|OV - Ovarian serous cystadenocarcinoma(76;0.24)	Levocabastine(DB01106)	CAGCACCGTGCACACTCGCGA	0.721													9	22	---	---	---	---	PASS	T	11809675	T	T	11809675	3	4	82	1	0	0	0	0	1	0	0	0	10711	710	25	3	667	3	NTSR2	2	11809675	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	1	11809675	231389698	30	31533	628	2								
FAM49A	81553	broad.mit.edu	37	chr2	16740772	16740772	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agctcccacagggtggacatGgtcatagaggatgatgactc	13	9	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:16740772G>A	uc010exm.1	-	9	941	c.793C>T	c.(793-795)CAT>TAT	p.H265Y	FAM49A_uc002rck.1_Missense_Mutation_p.H265Y	NM_030797	NP_110424	Q9H0Q0	FA49A_HUMAN	family with sequence similarity 49, member A	265						intracellular					0	Acute lymphoblastic leukemia(172;0.0734)|all_hematologic(175;0.088)		GBM - Glioblastoma multiforme(3;0.00969)			GGGTGGACATGGTCATAGAGG	0.468													69	126	---	---	---	---	PASS	A	16740772	A	A	16740772	3	1	82	1	0	0	0	0	1	0	0	0	5575	1348	47	3	190	3	FAM49A	2	16740772	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	4931097	16740772	226458601	31	31534										
SDC1	6382	broad.mit.edu	37	chr2	20403985	20403985	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tctggagacgtgggaatagcCgtcaggagctgcgtgtcctt	15	9	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:20403985C>T	uc002rdo.1	-	3	515	c.216G>A	c.(214-216)ACG>ACA	p.T72T	SDC1_uc002rdp.1_Silent_p.T72T|SDC1_uc010exv.2_Silent_p.T72T|SDC1_uc010exw.1_RNA	NM_002997	NP_002988	P18827	SDC1_HUMAN	syndecan 1 precursor	72	Extracellular (Potential).				lipid metabolic process|lipoprotein metabolic process|myoblast development|striated muscle cell development	cytoplasm|extracellular region|focal adhesion|integral to plasma membrane	cytoskeletal protein binding|protein C-terminus binding			ovary(4)|skin(1)	5	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)			OV - Ovarian serous cystadenocarcinoma(76;0.221)		TGGGAATAGCCGTCAGGAGCT	0.622													37	183	---	---	---	---	PASS	T	20403985	T	T	20403985	2	4	82	1	0	0	0	0	0	0	0	1	13951	639	23	1		1	SDC1	2	20403985	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	3663213	20403985	222795388	32	31535										
APOB	338	broad.mit.edu	37	chr2	21226033	21226033	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cctgtgtgttcccagtggtaCttgttgacataatcataaag	9	8	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:21226033C>A	uc002red.2	-	29	12389	c.12261G>T	c.(12259-12261)AAG>AAT	p.K4087N		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	4087					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CCCAGTGGTACTTGTTGACAT	0.473													99	189	---	---	---	---	PASS	A	21226033	A	A	21226033	3	1	82	1	0	0	0	0	1	0	0	0	785	564	20	3	1434	3	APOB	2	21226033	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	822048	21226033	221973340	33	31536										
VIT	5212	broad.mit.edu	37	chr2	36986128	36986128	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcagaaagtaaacccaaaaaGggtgtaacctacccatcagc	8	11	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:36986128G>A	uc002rpl.2	+	6	647	c.426G>A	c.(424-426)AAG>AAA	p.K142K	VIT_uc002rpk.2_Silent_p.K135K|VIT_uc010ynf.1_Silent_p.K135K|VIT_uc002rpm.2_Silent_p.K135K|VIT_uc010ezv.2_Silent_p.K135K|VIT_uc010ezw.2_Silent_p.K135K	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	142						proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				AACCCAAAAAGGGTGTAACCT	0.393													84	177	---	---	---	---	PASS	A	36986128	A	A	36986128	2	1	82	1	0	0	0	0	0	0	0	1	17168	991	35	3		3	VIT	2	36986128	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	15760095	36986128	206213245	34	31537										
ATL2	64225	broad.mit.edu	37	chr2	38570414	38570414	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttaaaagactattcaccttgTtatacatgtatctaagcatg	5	7	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:38570414T>C	uc002rqq.2	-	2	389	c.359A>G	c.(358-360)AAC>AGC	p.N120S	ATL2_uc010ynm.1_Missense_Mutation_p.N102S|ATL2_uc010ynn.1_Missense_Mutation_p.N102S|ATL2_uc010yno.1_Intron|ATL2_uc002rqs.2_Missense_Mutation_p.N120S|ATL2_uc002rqr.2_Intron	NM_001135673	NP_001129145	Q8NHH9	ATLA2_HUMAN	atlastin GTPase 2 isoform 2	120	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			ovary(1)|kidney(1)|skin(1)	3						ATTCACCTTGTTATACATGTA	0.333													55	87	---	---	---	---	PASS	C	38570414	C	C	38570414	3	2	82	1	0	0	0	0	1	0	0	0	1107	1725	60	5	1552	5	ATL2	2	38570414	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	1584286	38570414	204628959	35	31538										
PSME4	23198	broad.mit.edu	37	chr2	54135695	54135695	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcatcttctgaattatcaagTatgtggtctataatggaaga	8	5	5	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:54135695T>C	uc002rxp.2	-	23	2693	c.2637A>G	c.(2635-2637)ATA>ATG	p.I879M	PSME4_uc010yop.1_Missense_Mutation_p.I765M|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Missense_Mutation_p.I254M|PSME4_uc010fbv.1_Missense_Mutation_p.I23M	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	879					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|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|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			AATTATCAAGTATGTGGTCTA	0.269													58	125	---	---	---	---	PASS	C	54135695	C	C	54135695	3	2	82	1	0	0	0	0	1	0	0	0	12709	1628	57	5	2990	5	PSME4	2	54135695	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	15565281	54135695	189063678	36	31539										
CCDC85A	114800	broad.mit.edu	37	chr2	56419918	56419918	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acagccaggccagcctgtgcCaactcacagcctccaccgca	8	19	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:56419918C>T	uc002rzn.2	+	2	1085	c.583C>T	c.(583-585)CAA>TAA	p.Q195*		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	195										breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			CAGCCTGTGCCAACTCACAGC	0.637													11	23	---	---	---	---	PASS	T	56419918	T	T	56419918	4	4	82	1	0	0	0	0	0	1	0	0	2859	595	21	3	589	3	CCDC85A	2	56419918	Nonsense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	2284223	56419918	186779455	37	31540										
ADD2	119	broad.mit.edu	37	chr2	70906069	70906069	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctcttgaacaaaggggtggcGatacgtgtaacctgttctgt	12	8	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:70906069G>C	uc002sgz.2	-	11	1615	c.1150C>G	c.(1150-1152)CGC>GGC	p.R384G	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Missense_Mutation_p.R384G|ADD2_uc002sha.2_Intron|ADD2_uc002sgx.2_Missense_Mutation_p.R384G|ADD2_uc010fdt.1_Missense_Mutation_p.R384G|ADD2_uc002shc.1_Missense_Mutation_p.R384G|ADD2_uc002shd.1_Intron|ADD2_uc010fdu.1_Missense_Mutation_p.R400G	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	384					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						AAGGGGTGGCGATACGTGTAA	0.498													23	164	---	---	---	---	PASS	C	70906069	C	C	70906069	3	2	82	1	0	0	0	0	1	0	0	0	305	1058	37	2	1231	2	ADD2	2	70906069	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	14486151	70906069	172293304	38	31541										
FIGLA	344018	broad.mit.edu	37	chr2	71012601	71012601	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gacatcacactgtggcgacaAgcgtgtgctggctcaccact	11	13	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:71012601A>G	uc002she.1	-	3	560	c.555T>C	c.(553-555)GCT>GCC	p.A185A		NM_001004311	NP_001004311	Q6QHK4	FIGLA_HUMAN	factor in the germline alpha	185					multicellular organismal development|oocyte development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcription factor complex	DNA binding|transcription factor binding				0						TGTGGCGACAAGCGTGTGCTG	0.458													131	300	---	---	---	---	PASS	G	71012601	G	G	71012601	2	3	82	1	0	0	0	0	0	0	0	1	5890	59	3	5		5	FIGLA	2	71012601	Silent	SNP	A	TCGA-39-5016-01A-01D-1441-08	106532	71012601	172186772	39	31542										
LRRTM1	347730	broad.mit.edu	37	chr2	80529580	80529580	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgtctgagctgcctgaggctGgctgggaaacacttccagga	14	10	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:80529580G>T	uc002sok.1	-	2	1635	c.1365C>A	c.(1363-1365)GCC>GCA	p.A455A	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	455	Cytoplasmic (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GCCTGAGGCTGGCTGGGAAAC	0.567										HNSCC(69;0.2)			32	67	---	---	---	---	PASS	T	80529580	T	T	80529580	2	4	82	1	0	0	0	0	0	0	0	1	9039	1335	47	3		3	LRRTM1	2	80529580	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	9516979	80529580	162669793	40	31543										
TMEM131	23505	broad.mit.edu	37	chr2	98422075	98422075	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtaatcgtttatagtaaaatCgcacatcttctgacaaagat	6	7	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:98422075C>G	uc002syh.3	-	20	2376	c.2147G>C	c.(2146-2148)CGA>CCA	p.R716P		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	716						integral to membrane				ovary(4)|central_nervous_system(2)	6						ATAGTAAAATCGCACATCTTC	0.333													116	337	---	---	---	---	PASS	G	98422075	G	G	98422075	3	3	82	1	0	0	0	0	1	0	0	0	16041	884	31	2	3592	2	TMEM131	2	98422075	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	17892495	98422075	144777298	41	31544										
SCTR	6344	broad.mit.edu	37	chr2	120252024	120252024	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctggcactggctgctccgtgCccaggtctcctgtctgctct	11	16	3	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:120252024C>A	uc002tma.2	-	2	399	c.173G>T	c.(172-174)GGC>GTC	p.G58V		NM_002980	NP_002971	P47872	SCTR_HUMAN	secretin receptor precursor	58	Extracellular (Potential).				digestion|excretion	integral to plasma membrane	secretin receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3					Secretin(DB00021)	CTGCTCCGTGCCCAGGTCTCC	0.612													24	31	---	---	---	---	PASS	A	120252024	A	A	120252024	3	1	82	1	0	0	0	0	1	0	0	0	13943	739	26	3	1197	3	SCTR	2	120252024	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	21829949	120252024	122947349	42	31545										
CCDC115	84317	broad.mit.edu	37	chr2	131096751	131096751	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggagtccccggagctggcttCgaccccagtcaatgcggttc	13	14	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:131096751C>A	uc002tqy.1	-	5	709	c.485G>T	c.(484-486)CGA>CTA	p.R162L	CCDC115_uc002tqw.1_3'UTR|CCDC115_uc010zaf.1_3'UTR|CCDC115_uc002tqx.2_Missense_Mutation_p.R157L|CCDC115_uc002tqz.1_3'UTR	NM_032357	NP_115733	Q96NT0	CC115_HUMAN	coiled-coil domain containing 115	162	Potential.					endosome|lysosome					0	Colorectal(110;0.1)					GAGCTGGCTTCGACCCCAGTC	0.602													3	103	---	---	---	---	PASS	A	131096751	A	A	131096751	3	1	82	1	0	0	0	0	1	0	0	0	2752	884	31	2	61	2	CCDC115	2	131096751	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	10844727	131096751	112102622	43	31546										
ZEB2	9839	broad.mit.edu	37	chr2	145157027	145157027	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atgaaaatggagtggatatgTtgtggttctcaatcattttg	11	3	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:145157027T>C	uc002tvu.2	-	8	2207	c.1727A>G	c.(1726-1728)AAC>AGC	p.N576S	ZEB2_uc002tvv.2_Missense_Mutation_p.N570S|ZEB2_uc010zbm.1_Missense_Mutation_p.N547S|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.N605S	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	576						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		AGTGGATATGTTGTGGTTCTC	0.383													92	106	---	---	---	---	PASS	C	145157027	C	C	145157027	3	2	82	1	0	0	0	0	1	0	0	0	17621	1725	60	5	1929	5	ZEB2	2	145157027	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	14060276	145157027	98042346	44	31547										
UPP2	151531	broad.mit.edu	37	chr2	158980362	158980362	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtgtcaggaatattgaaatgGaatctacagtgtttgcagct	11	5	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:158980362G>T	uc002tzp.2	+	6	960	c.766G>T	c.(766-768)GAA>TAA	p.E256*	UPP2_uc002tzo.2_Nonsense_Mutation_p.E313*	NM_173355	NP_775491	O95045	UPP2_HUMAN	uridine phosphorylase 2 isoform a	256				ESTVFAA -> GIYSVCS (in Ref. 1; AAO61681).	nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage|uridine metabolic process	cytosol|type III intermediate filament	uridine phosphorylase activity				0						TATTGAAATGGAATCTACAGT	0.413													35	174	---	---	---	---	PASS	T	158980362	T	T	158980362	4	4	82	1	0	0	0	0	0	1	0	0	17010	1175	41	2	967	2	UPP2	2	158980362	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	13823335	158980362	84219011	45	31548										
FAP	2191	broad.mit.edu	37	chr2	163072485	163072485	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtggtatcgataataaatatCcgaacaacgggattcttagc	9	7	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:163072485C>A	uc002ucd.2	-	10	997	c.789G>T	c.(787-789)CGG>CGT	p.R263R	FAP_uc010zct.1_Silent_p.R238R|FAP_uc010fpd.2_Intron|FAP_uc010fpe.1_Silent_p.R230R	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	263	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						TAATAAATATCCGAACAACGG	0.408													30	49	---	---	---	---	PASS	A	163072485	A	A	163072485	2	1	82	1	0	0	0	0	0	0	0	1	5673	842	30	2		2	FAP	2	163072485	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	4092123	163072485	80126888	46	31549										
KCNH7	90134	broad.mit.edu	37	chr2	163361029	163361029	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tggttttatctgaagaaggaGgtgatgaattctttttctca	10	4	3	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:163361029G>T	uc002uch.1	-	6	1264	c.1052C>A	c.(1051-1053)CCT>CAT	p.P351H	KCNH7_uc002uci.2_Missense_Mutation_p.P344H	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	351	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	TGAAGAAGGAGGTGATGAATT	0.373													84	139	---	---	---	---	PASS	T	163361029	T	T	163361029	3	4	82	1	0	0	0	0	1	0	0	0	8037	1000	35	3	2648	3	KCNH7	2	163361029	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	288544	163361029	79838344	47	31550										
FIGN	55137	broad.mit.edu	37	chr2	164467420	164467420	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acttgctgaactgtttgtcaGagccgacggtgcaataggtg	13	8	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:164467420G>C	uc002uck.1	-	3	1233	c.922C>G	c.(922-924)CTG>GTG	p.L308V		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	308						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						CTGTTTGTCAGAGCCGACGGT	0.522													48	90	---	---	---	---	PASS	C	164467420	C	C	164467420	3	2	82	1	0	0	0	0	1	0	0	0	5891	933	33	2	1361	2	FIGN	2	164467420	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1106391	164467420	78731953	48	31551										
SCN1A	6323	broad.mit.edu	37	chr2	166866283	166866283	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggtctcagagctcttagtgtCctgagagatttgatggctcc	12	9	2	4	rs149579028	byFrequency	TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:166866283C>T	uc010zcz.1	-	20	3933	c.3915G>A	c.(3913-3915)AGG>AGA	p.R1305R	SCN1A_uc002udo.3_Silent_p.R1185R|SCN1A_uc010fpk.2_Silent_p.R1157R	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1316	Helical; Voltage-sensor; Name=S4 of repeat III; (By similarity).|III.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CTCTTAGTGTCCTGAGAGATT	0.368													28	103	---	---	---	---	PASS	T	166866283	T	T	166866283	2	4	82	1	0	0	0	0	0	0	0	1	13914	854	30	2		2	SCN1A	2	166866283	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	2398863	166866283	76333090	49	31552										
XIRP2	129446	broad.mit.edu	37	chr2	168104241	168104241	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aaggatgatgtctttaattcCatccaatctgctggtaaaac	7	8	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:168104241C>A	uc002udx.2	+	8	6357	c.6339C>A	c.(6337-6339)TCC>TCA	p.S2113S	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.S1938S|XIRP2_uc010fpq.2_Silent_p.S1891S|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1938					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TCTTTAATTCCATCCAATCTG	0.378													18	58	---	---	---	---	PASS	A	168104241	A	A	168104241	2	1	82	1	0	0	0	0	0	0	0	1	17427	581	21	3		3	XIRP2	2	168104241	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	1237958	168104241	75095132	50	31553										
FASTKD1	79675	broad.mit.edu	37	chr2	170387128	170387128	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gataccccagaatttccaaaTgtcgttttttcatagcagat	6	9	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:170387128T>C	uc002uev.3	-	14	2799	c.2411A>G	c.(2410-2412)CAT>CGT	p.H804R	FASTKD1_uc002uew.3_RNA|FASTKD1_uc002uex.3_Missense_Mutation_p.H747R	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	804	RAP.				apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4						AATTTCCAAATGTCGTTTTTT	0.343													122	182	---	---	---	---	PASS	C	170387128	C	C	170387128	3	2	82	1	0	0	0	0	1	0	0	0	5685	1464	51	5	140	5	FASTKD1	2	170387128	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	2282887	170387128	72812245	51	31554										
METTL8	79828	broad.mit.edu	37	chr2	172195693	172195693	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tttgtcccttgagcacaataCctctagtatcctgaaagtgg	8	10	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:172195693C>G	uc010zdo.1	-	4	747	c.606_splice	c.e4+1	p.E202_splice	METTL8_uc002ugu.3_Splice_Site_p.E202_splice|METTL8_uc002ugv.3_Splice_Site_p.E202_splice|METTL8_uc002ugt.3_Splice_Site_p.E202_splice|METTL8_uc002ugs.3_Splice_Site_p.E152_splice|METTL8_uc010zdp.1_Splice_Site_p.E157_splice	NM_024770	NP_079046	B3KW44	B3KW44_HUMAN	methyltransferase like 8								methyltransferase activity			ovary(1)	1						GAGCACAATACCTCTAGTATC	0.343													44	196	---	---	---	---	PASS	G	172195693	G	G	172195693	5	3	82	1	0	0	0	0	0	0	1	0	9507	521	18	4	644	4	METTL8	2	172195693	Splice_Site	SNP	C	TCGA-39-5016-01A-01D-1441-08	1808565	172195693	71003680	52	31555										
ATF2	1386	broad.mit.edu	37	chr2	175962228	175962228	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgactgcggtcgagattcctCtgactgagtcctaaccaatc	9	12	1	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:175962228C>G	uc002ujl.2	-	11	1184	c.922G>C	c.(922-924)GAG>CAG	p.E308Q	ATF2_uc010fqv.2_Missense_Mutation_p.E259Q|ATF2_uc002ujv.2_Missense_Mutation_p.E55Q|ATF2_uc002ujm.2_Missense_Mutation_p.E250Q|ATF2_uc002ujn.2_RNA|ATF2_uc002ujo.2_Intron|ATF2_uc002ujp.2_RNA|ATF2_uc002ujq.2_Missense_Mutation_p.E308Q|ATF2_uc002ujr.2_RNA|ATF2_uc010fqu.2_Missense_Mutation_p.E290Q|ATF2_uc002ujs.2_Missense_Mutation_p.E250Q|ATF2_uc002ujt.2_RNA|ATF2_uc002uju.2_RNA|ATF2_uc002ujw.1_Missense_Mutation_p.E250Q|ATF2_uc002ujx.1_RNA	NM_001880	NP_001871	P15336	ATF2_HUMAN	activating transcription factor 2	308					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|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	nucleoplasm	protein dimerization activity|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(1)|breast(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.125)			CGAGATTCCTCTGACTGAGTC	0.438													23	131	---	---	---	---	PASS	G	175962228	G	G	175962228	3	3	82	1	0	0	0	0	1	0	0	0	1080	922	32	2	611	2	ATF2	2	175962228	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	3766535	175962228	67237145	53	31556										
TTN	7273	broad.mit.edu	37	chr2	179447023	179447023	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccaccgggaaatgttcctacCatatgggtttttggcaattg	10	9	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:179447023C>T	uc010zfg.1	-	263	58680	c.58456G>A	c.(58456-58458)GAC>AAC	p.D19486N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D13181N|TTN_uc010zfi.1_Missense_Mutation_p.D13114N|TTN_uc010zfj.1_Missense_Mutation_p.D12989N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20413							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)			ATGTTCCTACCATATGGGTTT	0.383													21	91	---	---	---	---	PASS	T	179447023	T	T	179447023	3	4	82	1	0	0	0	0	1	0	0	0	16732	608	21	3	42015	3	TTN	2	179447023	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	3484795	179447023	63752350	54	31557										
TTN	7273	broad.mit.edu	37	chr2	179464030	179464030	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctggagacatggacccatgtCttcctgttagcttctctttt	8	11	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:179464030C>T	uc010zfg.1	-	239	49010	c.48786G>A	c.(48784-48786)AAG>AAA	p.K16262K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.K9957K|TTN_uc010zfi.1_Silent_p.K9890K|TTN_uc010zfj.1_Silent_p.K9765K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17189							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)			GGACCCATGTCTTCCTGTTAG	0.413													33	169	---	---	---	---	PASS	T	179464030	T	T	179464030	2	4	82	1	0	0	0	0	0	0	0	1	16732	912	32	2		2	TTN	2	179464030	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	17007	179464030	63735343	55	31558										
TTN	7273	broad.mit.edu	37	chr2	179476369	179476369	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aatgtgttttctcccagcatCagtcacatgtaggtcaaggg	10	9	4	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:179476369C>T	uc010zfg.1	-	218	43107	c.42883G>A	c.(42883-42885)GAT>AAT	p.D14295N	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D7990N|TTN_uc010zfi.1_Missense_Mutation_p.D7923N|TTN_uc010zfj.1_Missense_Mutation_p.D7798N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15222							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)			CTCCCAGCATCAGTCACATGT	0.433													25	153	---	---	---	---	PASS	T	179476369	T	T	179476369	3	4	82	1	0	0	0	0	1	0	0	0	16732	826	29	2	57482	2	TTN	2	179476369	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	12339	179476369	63723004	56	31559										
TTN	7273	broad.mit.edu	37	chr2	179477512	179477512	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgacttacatagcttctcccGgcaaagcacagggtcactgg	10	12	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:179477512G>A	uc010zfg.1	-	214	42456	c.42232C>T	c.(42232-42234)CGG>TGG	p.R14078W	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R7773W|TTN_uc010zfi.1_Missense_Mutation_p.R7706W|TTN_uc010zfj.1_Missense_Mutation_p.R7581W	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15005							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)			AGCTTCTCCCGGCAAAGCACA	0.438													8	33	---	---	---	---	PASS	A	179477512	A	A	179477512	3	1	82	1	0	0	0	0	1	0	0	0	16732	1115	39	1	58149	1	TTN	2	179477512	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1143	179477512	63721861	57	31560										
TTN	7273	broad.mit.edu	37	chr2	179501173	179501173	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cttttctttgtttcccaaacGtaaaacacaggtgtattcac	5	10	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:179501173G>A	uc010zfg.1	-	174	33801	c.33577C>T	c.(33577-33579)CGT>TGT	p.R11193C	TTN_uc010zfh.1_Missense_Mutation_p.R4888C|TTN_uc010zfi.1_Missense_Mutation_p.R4821C|TTN_uc010zfj.1_Missense_Mutation_p.R4696C|TTN_uc010fre.1_Missense_Mutation_p.R1054C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12120							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)			TTTCCCAAACGTAAAACACAG	0.373													10	77	---	---	---	---	PASS	A	179501173	A	A	179501173	3	1	82	1	0	0	0	0	1	0	0	0	16732	1145	40	1	66964	1	TTN	2	179501173	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	23661	179501173	63698200	58	31561										
TTN	7273	broad.mit.edu	37	chr2	179611819	179611819	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggggtgtggaatatcgctctAgagtctctcctgggggtgtg	17	7	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:179611819A>T	uc002unb.2	-	46	15532	c.15308T>A	c.(15307-15309)CTA>CAA	p.L5103Q	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			ATATCGCTCTAGAGTCTCTCC	0.498													32	162	---	---	---	---	PASS	T	179611819	T	T	179611819	3	4	82	1	0	0	0	0	1	0	0	0	16732	420	15	5	94989	5	TTN	2	179611819	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	110646	179611819	63587554	59	31562										
TTN	7273	broad.mit.edu	37	chr2	179669357	179669357	+	Frame_Shift_Del	DEL	C	-	-													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cggctgcgtaaacgtcggtgCttgagttgtcatctttctag							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:179669357delC	uc002und.2	-	2	238	c.13delG	c.(13-15)GCAfs	p.A5fs	TTN_uc010zfg.1_Frame_Shift_Del_p.A5fs|TTN_uc010zfh.1_Frame_Shift_Del_p.A5fs|TTN_uc010zfi.1_Frame_Shift_Del_p.A5fs|TTN_uc010zfj.1_Frame_Shift_Del_p.A5fs|TTN_uc002unb.2_Frame_Shift_Del_p.A5fs			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	5							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)			AACGTCGGTGCTTGAGTTGTC	0.468													55	57	---	---	---	---		-	179669357	-	-	179669357	7	5	82	1	0	1	0	1	0	0	0	0	16732	797	28	0	111419	0	TTN	2	179669357	Frame_Shift_Del	DEL	C	TCGA-39-5016-01A-01D-1441-08	57538	179669357	63530016	60	31563										
CCDC141	285025	broad.mit.edu	37	chr2	179718318	179718318	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atattttccaactcttacaaCtgtggcacttgcatcttcgt	5	11	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:179718318C>T	uc002unf.1	-	10	1426	c.1369G>A	c.(1369-1371)GTT>ATT	p.V457I		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	457							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			ACTCTTACAACTGTGGCACTT	0.378													17	140	---	---	---	---	PASS	T	179718318	T	T	179718318	3	4	82	1	0	0	0	0	1	0	0	0	2775	565	20	3	1274	3	CCDC141	2	179718318	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	48961	179718318	63481055	61	31564										
DNAH7	56171	broad.mit.edu	37	chr2	196729651	196729651	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gaaaaagctcatgaaaatctTcatacatgtagtttctcaaa	5	7	4	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:196729651T>A	uc002utj.3	-	41	6829	c.6728A>T	c.(6727-6729)GAA>GTA	p.E2243V		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2243					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						ATGAAAATCTTCATACATGTA	0.393													23	165	---	---	---	---	PASS	A	196729651	A	A	196729651	3	1	82	1	0	0	0	0	1	0	0	0	4606	1783	62	5	5446	5	DNAH7	2	196729651	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	17011333	196729651	46469722	62	31565										
SATB2	23314	broad.mit.edu	37	chr2	200233368	200233368	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttataccatctcccaaactcCtggcacttggttgctgacac	6	14	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:200233368C>G	uc002uuy.1	-	6	1477	c.660G>C	c.(658-660)CAG>CAC	p.Q220H	SATB2_uc010fsq.1_Intron|SATB2_uc002uuz.1_Missense_Mutation_p.Q220H|SATB2_uc002uva.1_Missense_Mutation_p.Q220H	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	220						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						TCCCAAACTCCTGGCACTTGG	0.313													9	143	---	---	---	---	PASS	G	200233368	G	G	200233368	3	3	82	1	0	0	0	0	1	0	0	0	13854	680	24	4	1565	4	SATB2	2	200233368	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	3503717	200233368	42966005	63	31566										
ZDBF2	57683	broad.mit.edu	37	chr2	207173228	207173228	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ataagggctatgtgcccagtGattctgaaataatttatgtt	9	5	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:207173228G>A	uc002vbp.2	+	5	4226	c.3976G>A	c.(3976-3978)GAT>AAT	p.D1326N		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1326							nucleic acid binding|zinc ion binding			ovary(3)	3						TGTGCCCAGTGATTCTGAAAT	0.393													38	31	---	---	---	---	PASS	A	207173228	A	A	207173228	3	1	82	1	0	0	0	0	1	0	0	0	17596	1290	45	2	3986	2	ZDBF2	2	207173228	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	6939860	207173228	36026145	64	31567										
MAP2	4133	broad.mit.edu	37	chr2	210560172	210560172	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggaggcagatgcatttatggGtgttgagtctggccacatga	15	6	1	3	rs139654422	byFrequency	TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:210560172G>T	uc002vde.1	+	7	3526	c.3278G>T	c.(3277-3279)GGT>GTT	p.G1093V	MAP2_uc002vdc.1_Missense_Mutation_p.G1093V|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.G1089V	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1093					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)	GCATTTATGGGTGTTGAGTCT	0.493													105	95	---	---	---	---	PASS	T	210560172	T	T	210560172	3	4	82	1	0	0	0	0	1	0	0	0	9235	1261	44	3	3292	3	MAP2	2	210560172	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	3386944	210560172	32639201	65	31568										
CPS1	1373	broad.mit.edu	37	chr2	211438084	211438084	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aaaggttactcctttggccaTccatcctctgttgctggtga	9	11	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:211438084T>G	uc002vee.3	+	2	321	c.189T>G	c.(187-189)CAT>CAG	p.H63Q	CPS1_uc010fur.2_Missense_Mutation_p.H69Q	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	63	Anthranilate phosphoribosyltransferase homolog.				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)		CCTTTGGCCATCCATCCTCTG	0.423													23	180	---	---	---	---	PASS	G	211438084	G	G	211438084	3	3	82	1	0	0	0	0	1	0	0	0	3823	1432	50	5	217	5	CPS1	2	211438084	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	877912	211438084	31761289	66	31569										
ERBB4	2066	broad.mit.edu	37	chr2	212248560	212248560	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agtagtcagggttgtcaaacGctttcttggccttctctggc	11	10	4	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:212248560G>T	uc002veg.1	-	28	3805	c.3707C>A	c.(3706-3708)GCG>GAG	p.A1236E	ERBB4_uc002veh.1_Missense_Mutation_p.A1220E|ERBB4_uc010zji.1_Missense_Mutation_p.A1226E|ERBB4_uc010zjj.1_Missense_Mutation_p.A1210E	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1236	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		GTTGTCAAACGCTTTCTTGGC	0.483										TSP Lung(8;0.080)			40	205	---	---	---	---	PASS	T	212248560	T	T	212248560	3	4	82	1	0	0	0	0	1	0	0	0	5209	1087	38	1	223	1	ERBB4	2	212248560	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	810476	212248560	30950813	67	31570										
ABCA12	26154	broad.mit.edu	37	chr2	215875075	215875075	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cttttccattattgcctttgTgactgggttatatggtgcat	9	7	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:215875075T>C	uc002vew.2	-	18	2672	c.2452A>G	c.(2452-2454)ACA>GCA	p.T818A	ABCA12_uc002vev.2_Missense_Mutation_p.T500A|ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	818					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		ATTGCCTTTGTGACTGGGTTA	0.338													20	154	---	---	---	---	PASS	C	215875075	C	C	215875075	3	2	82	1	0	0	0	0	1	0	0	0	30	1696	59	5	5479	5	ABCA12	2	215875075	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	3626515	215875075	27324298	68	31571										
TNS1	7145	broad.mit.edu	37	chr2	218679638	218679638	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cagagcccagcactcaccctGctccctggagatctcaggct	9	17	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:218679638G>T	uc002vgt.2	-	25	4812	c.4414C>A	c.(4414-4416)CAG>AAG	p.Q1472K	TNS1_uc002vgr.2_Missense_Mutation_p.Q1459K|TNS1_uc002vgs.2_Missense_Mutation_p.Q1451K|TNS1_uc002vgq.2_5'Flank	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1472	SH2.					cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		CACTCACCCTGCTCCCTGGAG	0.547													20	18	---	---	---	---	PASS	T	218679638	T	T	218679638	3	4	82	1	0	0	0	0	1	0	0	0	16340	1328	46	3	829	3	TNS1	2	218679638	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	2804563	218679638	24519735	69	31572										
PRKAG3	53632	broad.mit.edu	37	chr2	219694732	219694732	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgtcgaagatgactagcttgGagctagttgccatggcatcg	13	8	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:219694732G>T	uc002vjb.1	-	4	621	c.602C>A	c.(601-603)TCC>TAC	p.S201Y	PRKAG3_uc010zkn.1_RNA|PRKAG3_uc010fvy.1_Missense_Mutation_p.S201Y|PRKAG3_uc010zko.1_Missense_Mutation_p.S197Y	NM_017431	NP_059127	Q9UGI9	AAKG3_HUMAN	AMP-activated protein kinase, non-catalytic	201	CBS 1.				cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|intracellular protein kinase cascade|regulation of fatty acid oxidation	cytosol	AMP-activated protein kinase activity|protein kinase binding			ovary(1)|lung(1)	2		Renal(207;0.0474)		Epithelial(149;4.35e-07)|all cancers(144;8.96e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GACTAGCTTGGAGCTAGTTGC	0.607													19	115	---	---	---	---	PASS	T	219694732	T	T	219694732	3	4	82	1	0	0	0	0	1	0	0	0	12502	1174	41	2	907	2	PRKAG3	2	219694732	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1015094	219694732	23504641	70	31573										
WNT6	7475	broad.mit.edu	37	chr2	219735919	219735919	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gttccagttccgcttccgccGctggaattgctccagccaca	9	16	0	0	rs140404341		TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:219735919G>T	uc002vjc.1	+	2	466	c.251G>T	c.(250-252)CGC>CTC	p.R84L		NM_006522	NP_006513	Q9Y6F9	WNT6_HUMAN	wingless-type MMTV integration site family,	84					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|cornea development in camera-type eye|neuron differentiation|odontogenesis of dentine-containing tooth|positive regulation of gene expression|positive regulation of tooth mineralization|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			ovary(2)|skin(1)	3		Renal(207;0.0474)		Epithelial(149;4.53e-07)|all cancers(144;9.3e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CGCTTCCGCCGCTGGAATTGC	0.667													14	67	---	---	---	---	PASS	T	219735919	T	T	219735919	3	4	82	1	0	0	0	0	1	0	0	0	17390	1087	38	1	257	1	WNT6	2	219735919	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	41187	219735919	23463454	71	31574										
CUL3	8452	broad.mit.edu	37	chr2	225346609	225346609	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aaaaatataattccagatacCtgtttgaatcttgactctgt	5	7	2	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:225346609C>A	uc002vny.2	-	14	2413	c.2029G>T	c.(2029-2031)GTT>TTT	p.V677F	CUL3_uc010zls.1_Missense_Mutation_p.V611F|CUL3_uc010fwy.1_Missense_Mutation_p.V683F	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	677					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		TTCCAGATACCTGTTTGAATC	0.264													75	101	---	---	---	---	PASS	A	225346609	A	A	225346609	3	1	82	1	0	0	0	0	1	0	0	0	4056	695	24	3	289	3	CUL3	2	225346609	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	5610690	225346609	17852764	72	31575										
KIAA1486	57624	broad.mit.edu	37	chr2	226273811	226273818	+	Splice_Site	DEL	TAAAGCGG	-	-													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccgaagacaagaagaagcaaTaaagcggtaaatataaataa							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:226273811_226273818delTAAAGCGG	uc002voe.2	+	2	396	c.221_splice	c.e2+1	p.R74_splice	KIAA1486_uc010fxa.1_Splice_Site_p.R69_splice	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624											ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		GAAGAAGCAATAAAGCGGtaaatataaa	0.38													19	11	---	---	---	---		-	226273818	-	-	226273811	8	5	82	1	0	1	0	1	0	0	1	0	8237	1406	49	0	217	0	KIAA1486	2	226273811	Splice_Site	DEL	TAAAGCGG	TCGA-39-5016-01A-01D-1441-08	927202	226273811	16925562	73	31576										
COL4A3	1285	broad.mit.edu	37	chr2	228162414	228162414	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	caaaggagacaggggagcccCaggttttcctggcctcccgg	14	13	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:228162414C>A	uc002vom.1	+	42	3752	c.3590C>A	c.(3589-3591)CCA>CAA	p.P1197Q	COL4A3_uc002von.1_Missense_Mutation_p.P1197Q|COL4A3_uc002voo.1_Missense_Mutation_p.P1197Q|COL4A3_uc002vop.1_Missense_Mutation_p.P1197Q|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	1197	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)		AGGGGAGCCCCAGGTTTTCCT	0.522													12	15	---	---	---	---	PASS	A	228162414	A	A	228162414	3	1	82	1	0	0	0	0	1	0	0	0	3691	594	21	3	3756	3	COL4A3	2	228162414	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	1888603	228162414	15036959	74	31577										
SPHKAP	80309	broad.mit.edu	37	chr2	228884363	228884363	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttgagataatctaataaatgCatcctgcagcacggattctg	8	8	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:228884363C>A	uc002vpq.2	-	7	1254	c.1207G>T	c.(1207-1209)GCA>TCA	p.A403S	SPHKAP_uc002vpp.2_Missense_Mutation_p.A403S|SPHKAP_uc010zlx.1_Missense_Mutation_p.A403S	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	403						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CTAATAAATGCATCCTGCAGC	0.443													18	155	---	---	---	---	PASS	A	228884363	A	A	228884363	3	1	82	1	0	0	0	0	1	0	0	0	15047	710	25	3	3919	3	SPHKAP	2	228884363	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	721949	228884363	14315010	75	31578										
SLC16A14	151473	broad.mit.edu	37	chr2	230910733	230910733	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcaagtcggctatgacgcccAggatcacttttccaaagatg	10	11	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:230910733A>G	uc002vqd.1	-	4	1472	c.1109T>C	c.(1108-1110)CTG>CCG	p.L370P	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Missense_Mutation_p.L370P|SLC16A14_uc002vqf.2_Missense_Mutation_p.L370P	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	370	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		TATGACGCCCAGGATCACTTT	0.433													14	110	---	---	---	---	PASS	G	230910733	G	G	230910733	3	3	82	1	0	0	0	0	1	0	0	0	14407	188	7	5	431	5	SLC16A14	2	230910733	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	2026370	230910733	12288640	76	31579										
TRPM8	79054	broad.mit.edu	37	chr2	234869590	234869590	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtgtaccggaatctgcagatCgccaagaattcctataatga	9	9	1	3	rs139460470		TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr2:234869590C>T	uc002vvh.2	+	12	1573	c.1533C>T	c.(1531-1533)ATC>ATT	p.I511I	TRPM8_uc010fyj.2_Silent_p.I199I	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	511	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	ATCTGCAGATCGCCAAGAATT	0.507													13	87	---	---	---	---	PASS	T	234869590	T	T	234869590	2	4	82	1	0	0	0	0	0	0	0	1	16589	874	31	2		2	TRPM8	2	234869590	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	3958857	234869590	8329783	77	31580										
SETD5	55209	broad.mit.edu	37	chr3	9490205	9490205	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	accaggtcttatccattcccCgttaatttgcaccaccccca	4	17	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:9490205C>T	uc003brt.2	+	16	2672	c.2237C>T	c.(2236-2238)CCG>CTG	p.P746L	SETD5_uc003brs.1_Missense_Mutation_p.P727L|SETD5_uc003bru.2_Missense_Mutation_p.P648L|SETD5_uc003brv.2_Missense_Mutation_p.P635L|SETD5_uc010hck.2_Missense_Mutation_p.P228L|SETD5_uc003brx.2_Missense_Mutation_p.P415L	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	746										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		ATCCATTCCCCGTTAATTTGC	0.512													34	36	---	---	---	---	PASS	T	9490205	T	T	9490205	3	4	82	1	0	0	0	0	1	0	0	0	14134	652	23	1	2291	1	SETD5	3	9490205	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08		9490205	188532225	78	31581										
ZFYVE20	64145	broad.mit.edu	37	chr3	15118644	15118644	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggatgtggtggagggtcctgGttcaagcccaaggttaagat	16	6	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:15118644G>T	uc003bzm.1	-	12	1640	c.1026C>A	c.(1024-1026)AAC>AAA	p.N342K	ZFYVE20_uc010hek.1_Missense_Mutation_p.N342K	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	342	Necessary for the interaction with RAB4A.|Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						GAGGGTCCTGGTTCAAGCCCA	0.433													4	118	---	---	---	---	PASS	T	15118644	T	T	15118644	3	4	82	1	0	0	0	0	1	0	0	0	17663	1252	44	3	1340	3	ZFYVE20	3	15118644	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	5628439	15118644	182903786	79	31582										
PRSS42	339906	broad.mit.edu	37	chr3	46871929	46871929	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gatgccccagctcacaatccCtacctggacccatgtgtcat	7	16	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:46871929C>T	uc011bap.1	-	5	847	c.847G>A	c.(847-849)GGG>AGG	p.G283R	PRSS42_uc003cqj.2_3'UTR	NM_182702	NP_874361	Q7Z5A4	PRS42_HUMAN	testis serine protease 2 precursor	283	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			pancreas(1)	1						CTCACAATCCCTACCTGGACC	0.483													7	6	---	---	---	---	PASS	T	46871929	T	T	46871929	3	4	82	1	0	0	0	0	1	0	0	0	12628	681	24	3	37	3	PRSS42	3	46871929	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	31753285	46871929	151150501	80	31583										
COL7A1	1294	broad.mit.edu	37	chr3	48628960	48628960	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gactgggctccaggacactcGcacccgctgcccgggcagct	13	17	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:48628960G>A	uc003ctz.2	-	12	1574	c.1573C>T	c.(1573-1575)CGA>TGA	p.R525*		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	525	Fibronectin type-III 4.|Nonhelical region (NC1).				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CAGGACACTCGCACCCGCTGC	0.662													59	45	---	---	---	---	PASS	A	48628960	A	A	48628960	4	1	82	1	0	0	0	0	0	1	0	0	3704	1095	38	1	7689	1	COL7A1	3	48628960	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1757031	48628960	149393470	81	31584										
BSN	8927	broad.mit.edu	37	chr3	49689698	49689698	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctgccccacaatgccaccacGggctatgaggagctgctccc	10	17	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:49689698G>T	uc003cxe.3	+	5	2823	c.2709G>T	c.(2707-2709)ACG>ACT	p.T903T		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	903					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		ATGCCACCACGGGCTATGAGG	0.637													8	11	---	---	---	---	PASS	T	49689698	T	T	49689698	2	4	82	1	0	0	0	0	0	0	0	1	1530	1103	39	1		1	BSN	3	49689698	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	1060738	49689698	148332732	82	31585										
SEMA3B	7869	broad.mit.edu	37	chr3	50311390	50311390	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcgtgtacagcatgaacgacGtgcgccgggccttcttggga	15	11	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:50311390G>A	uc003cyu.2	+	12	1281	c.1039G>A	c.(1039-1041)GTG>ATG	p.V347M	SEMA3B_uc003cyt.2_Missense_Mutation_p.V346M|SEMA3B_uc003cyv.2_Missense_Mutation_p.V234M|SEMA3B_uc003cyw.2_Missense_Mutation_p.V70M|SEMA3B_uc010hli.2_Missense_Mutation_p.V239M|SEMA3B_uc003cyx.2_Missense_Mutation_p.V233M|SEMA3B_uc003cyy.2_Missense_Mutation_p.V4M|SEMA3B_uc011bdo.1_Missense_Mutation_p.V4M	NM_004636	NP_004627	Q13214	SEM3B_HUMAN	semaphorin 3B isoform 1 precursor	347	Sema.				axon guidance|cell-cell signaling	endoplasmic reticulum|extracellular region|membrane	receptor activity			lung(2)|central_nervous_system(2)|kidney(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		CATGAACGACGTGCGCCGGGC	0.682											OREG0015583	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	15	---	---	---	---	PASS	A	50311390	A	A	50311390	3	1	82	1	0	0	0	0	1	0	0	0	14025	1145	40	1	1076	1	SEMA3B	3	50311390	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	621692	50311390	147711040	83	31586										
PRICKLE2	166336	broad.mit.edu	37	chr3	64133035	64133035	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tggctggacaggctgagcatGtccatctgcagtgacagggg	16	9	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:64133035G>A	uc003dmf.2	-	7	1717	c.1131C>T	c.(1129-1131)GAC>GAT	p.D377D		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	377						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)		GGCTGAGCATGTCCATCTGCA	0.602													72	58	---	---	---	---	PASS	A	64133035	A	A	64133035	2	1	82	1	0	0	0	0	0	0	0	1	12487	1368	48	3		3	PRICKLE2	3	64133035	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	13821645	64133035	133889395	84	31587										
TMF1	7110	broad.mit.edu	37	chr3	69097222	69097222	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gagagactgcgtagacgtatTagatatactttccatagttg	10	6	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:69097222T>A	uc003dnn.2	-	2	881	c.634A>T	c.(634-636)AAT>TAT	p.N212Y	TMF1_uc011bfx.1_Missense_Mutation_p.N212Y	NM_007114	NP_009045	P82094	TMF1_HUMAN	TATA element modulatory factor 1	212					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi membrane|nucleus	DNA binding|protein binding|transcription cofactor activity				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;4.48e-05)|Epithelial(33;0.000274)|LUSC - Lung squamous cell carcinoma(21;0.0123)|KIRC - Kidney renal clear cell carcinoma(39;0.211)|Kidney(39;0.247)		GTAGACGTATTAGATATACTT	0.378													110	93	---	---	---	---	PASS	A	69097222	A	A	69097222	3	1	82	1	0	0	0	0	1	0	0	0	16225	1754	61	5	2711	5	TMF1	3	69097222	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	4964187	69097222	128925208	85	31588										
C3orf15	89876	broad.mit.edu	37	chr3	119426380	119426380	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggaagggacataaggagaaaCacagagaagccctccggcag	14	9	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:119426380C>G	uc010hqx.1	+	3	408	c.331C>G	c.(331-333)CAC>GAC	p.H111D	C3orf15_uc003edc.2_Missense_Mutation_p.H111D|C3orf15_uc010hqy.1_Missense_Mutation_p.H111D|C3orf15_uc003ede.3_Missense_Mutation_p.H111D|C3orf15_uc010hqz.2_Missense_Mutation_p.H49D|C3orf15_uc011bjd.1_Intron|C3orf15_uc011bje.1_Missense_Mutation_p.H91D|C3orf15_uc010hra.1_5'UTR			Q7Z4T9	AAT1_HUMAN	RecName: Full=AMY-1-associating protein expressed in testis 1;          Short=AAT-1;	111						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		TAAGGAGAAACACAGAGAAGC	0.438													16	84	---	---	---	---	PASS	G	119426380	G	G	119426380	3	3	82	1	0	0	0	0	1	0	0	0	2209	478	17	4	341	4	C3orf15	3	119426380	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	50329158	119426380	78596050	86	31589										
HCLS1	3059	broad.mit.edu	37	chr3	121351918	121351918	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttgggggtttgcttacctccGggagagtctgcctaatgggc	15	9	1	1	rs150723074	byFrequency	TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:121351918G>A	uc003eeh.3	-	11	1129	c.1004C>T	c.(1003-1005)CCG>CTG	p.P335L	HCLS1_uc011bjj.1_Missense_Mutation_p.P298L|HCLS1_uc011bjk.1_RNA	NM_005335	NP_005326	P14317	HCLS1_HUMAN	hematopoietic cell-specific Lyn substrate 1	335					erythrocyte differentiation|intracellular signal transduction|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of STAT protein|response to hormone stimulus	mitochondrion|nucleus|plasma membrane	DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(114;0.0912)		GCTTACCTCCGGGAGAGTCTG	0.502													14	22	---	---	---	---	PASS	A	121351918	A	A	121351918	3	1	82	1	0	0	0	0	1	0	0	0	6995	1116	39	1	472	1	HCLS1	3	121351918	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1925538	121351918	76670512	87	31590										
CASR	846	broad.mit.edu	37	chr3	121976229	121976229	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgctggggctcttctacattCcccaggtactcaagccttct	8	14	4	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:121976229C>T	uc003eev.3	+	3	859	c.487C>T	c.(487-489)CCC>TCC	p.P163S	CASR_uc003eew.3_Missense_Mutation_p.P163S	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	163	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	CTTCTACATTCCCCAGGTACT	0.567													48	59	---	---	---	---	PASS	T	121976229	T	T	121976229	3	4	82	1	0	0	0	0	1	0	0	0	2682	855	30	2	493	2	CASR	3	121976229	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	624311	121976229	76046201	88	31591										
KALRN	8997	broad.mit.edu	37	chr3	124356067	124356067	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcttgcagtcctcctctttgCtagcagcccggcaggcttcc	9	16	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:124356067C>A	uc003ehg.2	+	37	5705	c.5578C>A	c.(5578-5580)CTA>ATA	p.L1860I	KALRN_uc003ehi.2_Intron|KALRN_uc003ehk.2_Missense_Mutation_p.L163I|KALRN_uc011bjz.1_5'UTR|KALRN_uc003ehj.2_Intron	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1859					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						CTCCTCTTTGCTAGCAGCCCG	0.473													35	115	---	---	---	---	PASS	A	124356067	A	A	124356067	3	1	82	1	0	0	0	0	1	0	0	0	7975	796	28	3	5880	3	KALRN	3	124356067	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	2379838	124356067	73666363	89	31592										
COL6A6	131873	broad.mit.edu	37	chr3	130293249	130293249	+	Missense_Mutation	SNP	C	A	A													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcattggggatgtggatgacCagcagctcattcagatcacc							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:130293249C>A	uc010htl.2	+	7	3458	c.3427C>A	c.(3427-3429)CAG>AAG	p.Q1143K		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1143	Nonhelical region.|VWFA 6.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TGTGGATGACCAGCAGCTCAT	0.527													39	59	---	---	---	---	PASS	A	130293249	A	A	130293249	3	1	82	1	0	0	0	0	1	0	0	0	3703	595	21	3	3453	3	COL6A6	3	130293249	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	5937182	130293249	67729181	90	31593	629	2								
COL6A6	131873	broad.mit.edu	37	chr3	130293250	130293250	+	Missense_Mutation	SNP	A	G	G													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cattggggatgtggatgaccAgcagctcattcagatcaccg							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:130293250A>G	uc010htl.2	+	7	3459	c.3428A>G	c.(3427-3429)CAG>CGG	p.Q1143R		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1143	Nonhelical region.|VWFA 6.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GTGGATGACCAGCAGCTCATT	0.527													38	60	---	---	---	---	PASS	G	130293250	G	G	130293250	3	3	82	1	0	0	0	0	1	0	0	0	3703	188	7	5	3454	5	COL6A6	3	130293250	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	1	130293250	67729180	91	31594	629	2								
TMEM108	66000	broad.mit.edu	37	chr3	133099870	133099870	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcctggtccccgccgggaccTggaagcctgggacagcaggg	17	14	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:133099870T>C	uc003eph.2	+	4	1589	c.1315T>C	c.(1315-1317)TGG>CGG	p.W439R	TMEM108_uc003epi.2_Missense_Mutation_p.W439R|TMEM108_uc003epj.1_Missense_Mutation_p.W439R|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_Missense_Mutation_p.W390R	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	439	Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						CGCCGGGACCTGGAAGCCTGG	0.632													12	84	---	---	---	---	PASS	C	133099870	C	C	133099870	3	2	82	1	0	0	0	0	1	0	0	0	16021	1580	55	5	1321	5	TMEM108	3	133099870	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	2806620	133099870	64922560	92	31595										
XRN1	54464	broad.mit.edu	37	chr3	142037719	142037719	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgtaccagtaagccattagaTaattttacttggcaaacggt	8	7	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:142037719T>C	uc003eus.2	-	38	4495	c.4428A>G	c.(4426-4428)TTA>TTG	p.L1476L	XRN1_uc010huu.2_Silent_p.L943L|XRN1_uc003eut.2_Silent_p.L1476L|XRN1_uc003euu.2_Silent_p.L1477L	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	1476					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						AGCCATTAGATAATTTTACTT	0.378													16	136	---	---	---	---	PASS	C	142037719	C	C	142037719	2	2	82	1	0	0	0	0	0	0	0	1	17456	1403	49	5		5	XRN1	3	142037719	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	8937849	142037719	55984711	93	31596										
CP	1356	broad.mit.edu	37	chr3	148895720	148895720	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cagttgacttcatctcccacGtgcattgtgaggccttgtag	10	11	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:148895720G>A	uc003ewy.3	-	17	3178	c.2925C>T	c.(2923-2925)CAC>CAT	p.H975H	CP_uc011bnr.1_RNA|CP_uc003eww.3_Silent_p.H127H|CP_uc003ewx.3_Silent_p.H756H|CP_uc003ewz.2_Silent_p.H975H	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	975	F5/8 type A 3.|Plastocyanin-like 6.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	CATCTCCCACGTGCATTGTGA	0.393													25	217	---	---	---	---	PASS	A	148895720	A	A	148895720	2	1	82	1	0	0	0	0	0	0	0	1	3787	1136	40	1		1	CP	3	148895720	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	6858001	148895720	49126710	94	31597										
MED12L	116931	broad.mit.edu	37	chr3	150908645	150908645	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agatttgtcagtcactgcctCaactcggccgcggtcaccag	10	14	4	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:150908645C>A	uc003eyp.2	+	13	1933	c.1895C>A	c.(1894-1896)TCA>TAA	p.S632*	MED12L_uc011bnz.1_Nonsense_Mutation_p.S492*|MED12L_uc003eyn.2_Nonsense_Mutation_p.S632*|MED12L_uc003eyo.2_Nonsense_Mutation_p.S632*	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	632					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)			GTCACTGCCTCAACTCGGCCG	0.507													4	117	---	---	---	---	PASS	A	150908645	A	A	150908645	4	1	82	1	0	0	0	0	0	1	0	0	9429	838	29	2	1945	2	MED12L	3	150908645	Nonsense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	2012925	150908645	47113785	95	31598										
PPM1L	151742	broad.mit.edu	37	chr3	160474330	160474330	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctcggggggcttgatgtgctCgaggccgagttttccaagac	15	10	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:160474330C>G	uc003fdr.2	+	1	335	c.234C>G	c.(232-234)CTC>CTG	p.L78L		NM_139245	NP_640338	Q5SGD2	PPM1L_HUMAN	protein phosphatase 1 (formerly 2C)-like	78	Cytoplasmic (Potential).				protein dephosphorylation|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(1)	1			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			TTGATGTGCTCGAGGCCGAGT	0.582													12	56	---	---	---	---	PASS	G	160474330	G	G	160474330	2	3	82	1	0	0	0	0	0	0	0	1	12344	871	31	2		2	PPM1L	3	160474330	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	9565685	160474330	37548100	96	31599										
MECOM	2122	broad.mit.edu	37	chr3	168819910	168819910	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggcagggcattgggaggcgcCctgaagttgaacatagaggg	18	7	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:168819910C>A	uc003ffi.3	-	10	2414	c.2145G>T	c.(2143-2145)AGG>AGT	p.R715S	MECOM_uc010hwk.1_Missense_Mutation_p.R729S|MECOM_uc003ffj.3_Missense_Mutation_p.R780S|MECOM_uc011bpi.1_Missense_Mutation_p.R707S|MECOM_uc003ffn.3_Missense_Mutation_p.R715S|MECOM_uc003ffk.2_Missense_Mutation_p.R706S|MECOM_uc003ffl.2_Missense_Mutation_p.R866S|MECOM_uc011bpj.1_Missense_Mutation_p.R903S|MECOM_uc011bpk.1_Missense_Mutation_p.R705S|MECOM_uc010hwn.2_Missense_Mutation_p.R894S	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	715					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						TGGGAGGCGCCCTGAAGTTGA	0.502													125	74	---	---	---	---	PASS	A	168819910	A	A	168819910	3	1	82	1	0	0	0	0	1	0	0	0	9422	622	22	3	1038	3	MECOM	3	168819910	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	8345580	168819910	29202520	97	31600										
NLGN1	22871	broad.mit.edu	37	chr3	173999027	173999027	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acattcaatacatttactggAggacagaacaatactctgcc	6	10	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:173999027A>G	uc003fio.1	+	7	2829	c.2406A>G	c.(2404-2406)GGA>GGG	p.G802G	NLGN1_uc003fip.1_Silent_p.G802G	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	819	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			CATTTACTGGAGGACAGAACA	0.433													35	107	---	---	---	---	PASS	G	173999027	G	G	173999027	2	3	82	1	0	0	0	0	0	0	0	1	10461	291	11	5		5	NLGN1	3	173999027	Silent	SNP	A	TCGA-39-5016-01A-01D-1441-08	5179117	173999027	24023403	98	31601										
CCDC39	339829	broad.mit.edu	37	chr3	180332791	180332791	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aagggctgcctactagtgaaGaggaggccgggaatttaagc	15	7	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:180332791G>T	uc010hxe.2	-	20	2859	c.2744C>A	c.(2743-2745)TCT>TAT	p.S915Y	CCDC39_uc003fkn.2_RNA|TTC14_uc003fkm.2_Intron	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	915	Ser-rich.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TACTAGTGAAGAGGAGGCCGG	0.383													19	11	---	---	---	---	PASS	T	180332791	T	T	180332791	3	4	82	1	0	0	0	0	1	0	0	0	2811	942	33	2	85	2	CCDC39	3	180332791	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	6333764	180332791	17689639	99	31602										
LRRC15	131578	broad.mit.edu	37	chr3	194080711	194080711	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aagacgttcccgtccaggtcCtgcagtgcgttggtgtggag	15	10	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:194080711C>T	uc003ftu.2	-	2	1148	c.1062G>A	c.(1060-1062)CAG>CAA	p.Q354Q	LRRC15_uc003ftt.2_Silent_p.Q360Q	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	354	LRR 13.|Extracellular (Potential).					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		CGTCCAGGTCCTGCAGTGCGT	0.582													76	18	---	---	---	---	PASS	T	194080711	T	T	194080711	2	4	82	1	0	0	0	0	0	0	0	1	8970	680	24	3		3	LRRC15	3	194080711	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	13747920	194080711	3941719	100	31603										
TNK2	10188	broad.mit.edu	37	chr3	195599179	195599179	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tccgggaagccccagcagtgGcgggggtcactgtcgccatg	16	13	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:195599179G>A	uc003fvu.1	-	10	1962	c.1419C>T	c.(1417-1419)CGC>CGT	p.R473R	TNK2_uc003fvq.1_5'Flank|TNK2_uc003fvr.1_5'UTR|TNK2_uc003fvs.1_Silent_p.R505R|TNK2_uc003fvt.1_Silent_p.R536R|TNK2_uc010hzw.1_RNA|TNK2_uc003fvv.1_Silent_p.R303R	NM_005781	NP_005772	Q07912	ACK1_HUMAN	tyrosine kinase, non-receptor, 2 isoform 1	473				Missing (in Ref. 4; AAH08884).	positive regulation of peptidyl-tyrosine phosphorylation|protein ubiquitination|small GTPase mediated signal transduction	adherens junction|cytoplasmic vesicle membrane|endosome|nucleus	ATP binding|GTPase inhibitor activity|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|central_nervous_system(3)|lung(2)|stomach(1)|skin(1)	10	all_cancers(143;6.48e-09)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;1.46e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.3e-19)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;0.000757)	Adenosine triphosphate(DB00171)	CCCAGCAGTGGCGGGGGTCAC	0.677													37	36	---	---	---	---	PASS	A	195599179	A	A	195599179	2	1	82	1	0	0	0	0	0	0	0	1	16315	1190	42	3		3	TNK2	3	195599179	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	1518468	195599179	2423251	101	31604										
PIGX	54965	broad.mit.edu	37	chr3	196449387	196449387	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgcaggactttatgtggatcCgtatgagttggcttcattac	11	7	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr3:196449387C>T	uc010iaj.2	+	3	436	c.155C>T	c.(154-156)CCG>CTG	p.P52L	PIGX_uc003fwx.3_Missense_Mutation_p.P52L|PIGX_uc011btx.1_RNA	NM_017861	NP_060331	Q8TBF5	PIGX_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	93	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane					0	all_cancers(143;1.41e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;1.08e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00322)		TATGTGGATCCGTATGAGTTG	0.408													23	406	---	---	---	---	PASS	T	196449387	T	T	196449387	3	4	82	1	0	0	0	0	1	0	0	0	11903	652	23	1	288	1	PIGX	3	196449387	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	850208	196449387	1573043	102	31605										
NKX3-2	579	broad.mit.edu	37	chr4	13544056	13544056	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cctccgcgacgcctgccggcCcgctgccgcccccgccgccg	12	25	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:13544056C>A	uc003gmx.2	-	2	639	c.563G>T	c.(562-564)GGG>GTG	p.G188V		NM_001189	NP_001180	P78367	NKX32_HUMAN	NK3 homeobox 2	188	Poly-Gly.				negative regulation of chondrocyte differentiation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						gcctgccggcccgctgccgcc	0.448													4	3	---	---	---	---	PASS	A	13544056	A	A	13544056	3	1	82	1	0	0	0	0	1	0	0	0	10456	623	22	3	442	3	NKX3-2	4	13544056	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08		13544056	177610220	103	31606										
MED28	80306	broad.mit.edu	37	chr4	17625255	17625255	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	actaaggaatgaattacagcGgaaagatgcactagtccaga	10	7	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:17625255G>A	uc003gpi.1	+	4	383	c.371G>A	c.(370-372)CGG>CAG	p.R124Q	MED28_uc003gpj.2_RNA	NM_025205	NP_079481	Q9H204	MED28_HUMAN	mediator complex subunit 28	124	Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|membrane|nucleus	actin binding				0						GAATTACAGCGGAAAGATGCA	0.473													15	58	---	---	---	---	PASS	A	17625255	A	A	17625255	3	1	82	1	0	0	0	0	1	0	0	0	9446	1116	39	1	385	1	MED28	4	17625255	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	4081199	17625255	173529021	104	31607										
C4orf19	55286	broad.mit.edu	37	chr4	37591946	37591946	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gctcccacagggggacgctgGaggggaacaccatgcctgcg	16	13	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:37591946G>T	uc003gsw.3	+	4	452	c.269G>T	c.(268-270)GGA>GTA	p.G90V	C4orf19_uc003gsy.3_Missense_Mutation_p.G90V	NM_001104629	NP_001098099	Q8IY42	CD019_HUMAN	hypothetical protein LOC55286	90											0						GGGGACGCTGGAGGGGAACAC	0.657													22	29	---	---	---	---	PASS	T	37591946	T	T	37591946	3	4	82	1	0	0	0	0	1	0	0	0	2253	1174	41	2	275	2	C4orf19	4	37591946	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	19966691	37591946	153562330	105	31608										
FRYL	285527	broad.mit.edu	37	chr4	48584548	48584548	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttttattatgcatttgggctGcttgtttccactgatttatt	7	6	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:48584548G>T	uc003gyh.1	-	20	2557	c.1952C>A	c.(1951-1953)GCA>GAA	p.A651E	FRYL_uc003gyk.2_Missense_Mutation_p.A651E	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	651					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						CATTTGGGCTGCTTGTTTCCA	0.353													20	38	---	---	---	---	PASS	T	48584548	T	T	48584548	3	4	82	1	0	0	0	0	1	0	0	0	6064	1319	46	3	7269	3	FRYL	4	48584548	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	10992602	48584548	142569728	106	31609										
CWH43	80157	broad.mit.edu	37	chr4	49005876	49005876	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggacaccttattaactcaggGacaaaccctgggaaaaccat	8	11	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:49005876G>A	uc003gyv.2	+	7	1109	c.927G>A	c.(925-927)GGG>GGA	p.G309G	CWH43_uc011bzl.1_Silent_p.G282G	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	309					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						TTAACTCAGGGACAAACCCTG	0.463													4	170	---	---	---	---	PASS	A	49005876	A	A	49005876	2	1	82	1	0	0	0	0	0	0	0	1	4073	1161	41	2		2	CWH43	4	49005876	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	421328	49005876	142148400	107	31610										
UGT2B4	7363	broad.mit.edu	37	chr4	70346381	70346381	+	Missense_Mutation	SNP	T	C	C													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tttccccttctttcctgttcTaacaaacttccagacacaaa							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:70346381T>C	uc003hek.3	-	6	1605	c.1558A>G	c.(1558-1560)AGA>GGA	p.R520G	UGT2B4_uc011cap.1_Missense_Mutation_p.R384G|UGT2B4_uc003hel.3_3'UTR	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	520					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						TTTCCTGTTCTAACAAACTTC	0.418													29	140	---	---	---	---	PASS	C	70346381	C	C	70346381	3	2	82	1	0	0	0	0	1	0	0	0	16958	1530	53	5	32	5	UGT2B4	4	70346381	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	21340505	70346381	120807895	108	31611	630	2								
UGT2B4	7363	broad.mit.edu	37	chr4	70346383	70346383	+	Missense_Mutation	SNP	A	G	G													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tccccttctttcctgttctaAcaaacttccagacacaaaac							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:70346383A>G	uc003hek.3	-	6	1603	c.1556T>C	c.(1555-1557)GTT>GCT	p.V519A	UGT2B4_uc011cap.1_Missense_Mutation_p.V383A|UGT2B4_uc003hel.3_3'UTR	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	519					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						TCCTGTTCTAACAAACTTCCA	0.418													29	141	---	---	---	---	PASS	G	70346383	G	G	70346383	3	3	82	1	0	0	0	0	1	0	0	0	16958	43	2	5	34	5	UGT2B4	4	70346383	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	2	70346383	120807893	109	31612	630	2								
UGT2A1	10941	broad.mit.edu	37	chr4	70512823	70512823	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggtaccttcccacagtgcttTtccactgttgaggctggaga	11	11	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:70512823T>C	uc003hem.3	-	1	603	c.540A>G	c.(538-540)GAA>GAG	p.E180E	UGT2A1_uc011caq.1_Silent_p.E180E|UGT2A1_uc010ihu.2_Silent_p.E180E|UGT2A1_uc010iht.2_Silent_p.E180E	NM_006798	NP_006789	Q9Y4X1	UD2A1_HUMAN	UDP glucuronosyltransferase 2 family,	180	Extracellular (Potential).				detection of chemical stimulus|sensory perception of smell	integral to membrane	glucuronosyltransferase activity|glucuronosyltransferase activity			ovary(1)	1						CACAGTGCTTTTCCACTGTTG	0.413													20	59	---	---	---	---	PASS	C	70512823	C	C	70512823	2	2	82	1	0	0	0	0	0	0	0	1	16950	1838	64	5		5	UGT2A1	4	70512823	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	166440	70512823	120641453	110	31613										
SMR3A	26952	broad.mit.edu	37	chr4	71227859	71227859	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcactgacttggatcttgggCctttgggctcttgcagcgtg	13	10	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:71227859C>A	uc003hfg.1	+	2	108	c.27C>A	c.(25-27)GGC>GGA	p.G9G	SMR3B_uc011cas.1_Silent_p.G9G	NM_012390	NP_036522	Q99954	SMR3A_HUMAN	submaxillary gland androgen regulated protein 3	9						extracellular region					0		all_hematologic(202;0.196)				GGATCTTGGGCCTTTGGGCTC	0.338													15	197	---	---	---	---	PASS	A	71227859	A	A	71227859	2	1	82	1	0	0	0	0	0	0	0	1	14811	726	26	3		3	SMR3A	4	71227859	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	715036	71227859	119926417	111	31614										
CXCL5	6374	broad.mit.edu	37	chr4	74863950	74863950	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccaccttggagcactgtgggCctatggcgaacacttgcaga	12	12	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:74863950C>A	uc003hhk.2	-	2	333	c.215G>T	c.(214-216)GGC>GTC	p.G72V		NM_002994	NP_002985	P42830	CXCL5_HUMAN	chemokine (C-X-C motif) ligand 5 precursor	72					cell-cell signaling|chemotaxis|immune response|positive regulation of cell proliferation|signal transduction	extracellular space	chemokine activity				0	Breast(15;0.00136)		all cancers(17;0.00273)|Lung(101;0.196)			GCACTGTGGGCCTATGGCGAA	0.532													41	69	---	---	---	---	PASS	A	74863950	A	A	74863950	3	1	82	1	0	0	0	0	1	0	0	0	4087	739	26	3	141	3	CXCL5	4	74863950	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	3636091	74863950	116290326	112	31615										
SHROOM3	57619	broad.mit.edu	37	chr4	77662653	77662653	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggctgcagcctccaggagccCgggccactgcgtgagcgcgc	16	16	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:77662653C>A	uc011cbx.1	+	5	4280	c.3327C>A	c.(3325-3327)CCC>CCA	p.P1109P	SHROOM3_uc011cbz.1_Silent_p.P933P|SHROOM3_uc003hkf.1_Silent_p.P984P|SHROOM3_uc003hkg.2_Silent_p.P887P	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	1109					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			TCCAGGAGCCCGGGCCACTGC	0.726													2	1	---	---	---	---	PASS	A	77662653	A	A	77662653	2	1	82	1	0	0	0	0	0	0	0	1	14295	639	23	1		1	SHROOM3	4	77662653	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	2798703	77662653	113491623	113	31616										
BMPR1B	658	broad.mit.edu	37	chr4	96075765	96075765	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atcctgcatcaaggctgacaGccctgcgggttaagaaaaca	10	11	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:96075765G>A	uc003htm.3	+	13	1724	c.1450G>A	c.(1450-1452)GCC>ACC	p.A484T	BMPR1B_uc010ilb.2_Missense_Mutation_p.A484T|BMPR1B_uc003htn.3_Missense_Mutation_p.A484T	NM_001203	NP_001194	O00238	BMR1B_HUMAN	bone morphogenetic protein receptor, type IB	484	Cytoplasmic (Potential).|Protein kinase.				BMP signaling pathway|cartilage condensation|eye development|limb morphogenesis|ovarian cumulus expansion|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	receptor complex	ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta receptor activity			lung(4)|skin(2)|stomach(1)|breast(1)	8		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.51e-07)		AAGGCTGACAGCCCTGCGGGT	0.448													23	89	---	---	---	---	PASS	A	96075765	A	A	96075765	3	1	82	1	0	0	0	0	1	0	0	0	1470	971	34	3	1488	3	BMPR1B	4	96075765	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	18413112	96075765	95078511	114	31617										
COL25A1	84570	broad.mit.edu	37	chr4	109767295	109767295	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aacagaaagtataaacatacCggtaatccaggaagtccaat	7	8	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:109767295C>T	uc003hze.1	-	27	2046	c.1515G>A	c.(1513-1515)CCG>CCA	p.P505P	COL25A1_uc003hzg.2_Silent_p.P505P|COL25A1_uc003hzd.2_Intron|COL25A1_uc003hzf.2_Silent_p.P263P	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	505	Extracellular (Potential).|Collagen-like 6.					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		ATAAACATACCGGTAATCCAG	0.343													26	96	---	---	---	---	PASS	T	109767295	T	T	109767295	2	4	82	1	0	0	0	0	0	0	0	1	3684	666	23	1		1	COL25A1	4	109767295	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	13691530	109767295	81386981	115	31618										
FAT4	79633	broad.mit.edu	37	chr4	126336607	126336607	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gctttgtataaagtggagatTaatgaaaacacacttactgg	9	5	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:126336607T>C	uc003ifj.3	+	5	6489	c.6489T>C	c.(6487-6489)ATT>ATC	p.I2163I	FAT4_uc011cgp.1_Silent_p.I461I	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2163	Cadherin 21.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AAGTGGAGATTAATGAAAACA	0.393													52	104	---	---	---	---	PASS	C	126336607	C	C	126336607	2	2	82	1	0	0	0	0	0	0	0	1	5692	1742	61	5		5	FAT4	4	126336607	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	16569312	126336607	64817669	116	31619										
FAT4	79633	broad.mit.edu	37	chr4	126370860	126370860	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aagtaactcaggtatttgcaAcagatcctgatgagggatca	10	7	2	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:126370860A>G	uc003ifj.3	+	9	8689	c.8689A>G	c.(8689-8691)ACA>GCA	p.T2897A	FAT4_uc011cgp.1_Missense_Mutation_p.T1195A|FAT4_uc003ifi.1_Missense_Mutation_p.T375A	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2897	Cadherin 28.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GGTATTTGCAACAGATCCTGA	0.363													68	130	---	---	---	---	PASS	G	126370860	G	G	126370860	3	3	82	1	0	0	0	0	1	0	0	0	5692	43	2	5	8723	5	FAT4	4	126370860	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	34253	126370860	64783416	117	31620										
LRBA	987	broad.mit.edu	37	chr4	151765280	151765280	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgaaaacaactgccctaagcCgattaatatccatgtcctgt	6	11	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:151765280C>T	uc010ipj.2	-	28	5015	c.4541G>A	c.(4540-4542)CGG>CAG	p.R1514Q	LRBA_uc003ilt.3_Missense_Mutation_p.R173Q|LRBA_uc003ilu.3_Missense_Mutation_p.R1514Q	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1514						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TGCCCTAAGCCGATTAATATC	0.368													8	218	---	---	---	---	PASS	T	151765280	T	T	151765280	3	4	82	1	0	0	0	0	1	0	0	0	8931	652	23	1	4174	1	LRBA	4	151765280	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	25394420	151765280	39388996	118	31621										
ASB5	140458	broad.mit.edu	37	chr4	177136798	177136798	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	taacgttggcagctggagttGtgggataaggtgcaatcttg	15	5	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr4:177136798G>C	uc003iuq.1	-	7	959	c.943C>G	c.(943-945)CAA>GAA	p.Q315E	ASB5_uc003iup.1_Missense_Mutation_p.Q262E	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	315	SOCS box.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		AGCTGGAGTTGTGGGATAAGG	0.373													19	82	---	---	---	---	PASS	C	177136798	C	C	177136798	3	2	82	1	0	0	0	0	1	0	0	0	1026	1386	48	4	50	4	ASB5	4	177136798	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	25371518	177136798	14017478	119	31622										
SLC6A18	348932	broad.mit.edu	37	chr5	1244359	1244359	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cctggtctgcttcctctccgCcacctgcttcacgctgcagt	8	18	3	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:1244359C>G	uc003jby.1	+	10	1490	c.1367C>G	c.(1366-1368)GCC>GGC	p.A456G		NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18	456	Helical; Name=9; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			TTCCTCTCCGCCACCTGCTTC	0.607													82	97	---	---	---	---	PASS	G	1244359	G	G	1244359	3	3	82	1	0	0	0	0	1	0	0	0	14681	739	26	4	1405	4	SLC6A18	5	1244359	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08		1244359	179670901	120	31623										
FBXL7	23194	broad.mit.edu	37	chr5	15936904	15936904	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gagcatcgcgcactgcggccGggtcaccgacgtgggcatcc	15	15	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:15936904G>T	uc003jfn.1	+	4	1566	c.1085G>T	c.(1084-1086)CGG>CTG	p.R362L		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	362	LRR 8.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						CACTGCGGCCGGGTCACCGAC	0.677													9	11	---	---	---	---	PASS	T	15936904	T	T	15936904	3	4	82	1	0	0	0	0	1	0	0	0	5724	1116	39	1	1099	1	FBXL7	5	15936904	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	14692545	15936904	164978356	121	31624										
CDH18	1016	broad.mit.edu	37	chr5	19571730	19571730	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	caggatcttgtgccaaaactGtaccaacgacggtcccaatc	8	13	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:19571730G>C	uc003jgc.2	-	7	1588	c.1211C>G	c.(1210-1212)ACA>AGA	p.T404R	CDH18_uc003jgd.2_Missense_Mutation_p.T404R|CDH18_uc011cnm.1_Missense_Mutation_p.T404R	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	404	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TGCCAAAACTGTACCAACGAC	0.408													64	119	---	---	---	---	PASS	C	19571730	C	C	19571730	3	2	82	1	0	0	0	0	1	0	0	0	3103	1377	48	4	1185	4	CDH18	5	19571730	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	3634826	19571730	161343530	122	31625										
CDH10	1008	broad.mit.edu	37	chr5	24535933	24535933	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acttgcaccacagaagtaccTgaagtatccaaattcagctt	6	11	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:24535933T>C	uc003jgr.1	-	4	859	c.527_splice	c.e4-1	p.G176_splice	CDH10_uc011cnu.1_Splice_Site	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CAGAAGTACCTGAAGTATCCA	0.443										HNSCC(23;0.051)			30	63	---	---	---	---	PASS	C	24535933	C	C	24535933	5	2	82	1	0	0	0	0	0	0	1	0	3096	1594	55	5	1877	5	CDH10	5	24535933	Splice_Site	SNP	T	TCGA-39-5016-01A-01D-1441-08	4964203	24535933	156379327	123	31626										
C5orf22	55322	broad.mit.edu	37	chr5	31538493	31538493	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tataaactctgtaacaatcaAgaagaaaacgatgcagtgtc	7	7	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:31538493A>G	uc003jhj.3	+	4	631	c.504A>G	c.(502-504)CAA>CAG	p.Q168Q	C5orf22_uc011cnw.1_Intron|C5orf22_uc003jhk.3_Intron	NM_018356	NP_060826	Q49AR2	CE022_HUMAN	hypothetical protein LOC55322	168										ovary(2)	2						GTAACAATCAAGAAGAAAACG	0.393													49	111	---	---	---	---	PASS	G	31538493	G	G	31538493	2	3	82	1	0	0	0	0	0	0	0	1	2285	69	3	5		5	C5orf22	5	31538493	Silent	SNP	A	TCGA-39-5016-01A-01D-1441-08	7002560	31538493	149376767	124	31627										
POLK	51426	broad.mit.edu	37	chr5	74892912	74892912	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	accctgttcaatgtgcatgtGgatgtttgcttaaataaaag	9	6	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:74892912G>T	uc003kdw.2	+	13	2490	c.2394G>T	c.(2392-2394)GTG>GTT	p.V798V	POLK_uc003kdx.2_RNA|POLK_uc003kdy.2_RNA|POLK_uc010izq.2_Silent_p.V600V|POLK_uc003kec.2_Silent_p.V708V|POLK_uc010izr.2_RNA|POLK_uc010izs.2_RNA|POLK_uc003ked.2_Intron|POLK_uc003kee.2_Intron|POLK_uc003kef.2_Silent_p.V708V	NM_016218	NP_057302	Q9UBT6	POLK_HUMAN	DNA-directed DNA polymerase kappa	798	UBZ-type 2.				DNA replication|nucleotide-excision repair, DNA gap filling	nucleus	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|kidney(2)	4		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;2.9e-54)|all cancers(79;1.27e-42)		ATGTGCATGTGGATGTTTGCT	0.363								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					67	68	---	---	---	---	PASS	T	74892912	T	T	74892912	2	4	82	1	0	0	0	0	0	0	0	1	12204	1335	47	3		3	POLK	5	74892912	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	43354419	74892912	106022348	125	31628										
MAN2A1	4124	broad.mit.edu	37	chr5	109181686	109181686	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgctctctgctcagtcattaGgggtttcgagtttgaatagt	11	7	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:109181686G>T	uc003kou.1	+	18	3784	c.2821G>T	c.(2821-2823)GGG>TGG	p.G941W		NM_002372	NP_002363	Q16706	MA2A1_HUMAN	mannosidase, alpha, class 2A, member 1	941	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(142;8.66e-07)|all_epithelial(76;7.73e-09)|Prostate(80;0.000303)|Lung NSC(167;0.0186)|all_lung(232;0.0241)|Ovarian(225;0.0444)|Colorectal(57;0.0959)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;2.17e-10)|Epithelial(69;1.37e-09)|COAD - Colon adenocarcinoma(37;0.141)		TCAGTCATTAGGGGTTTCGAG	0.418													96	110	---	---	---	---	PASS	T	109181686	T	T	109181686	3	4	82	1	0	0	0	0	1	0	0	0	9214	1000	35	3	2891	3	MAN2A1	5	109181686	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	34288774	109181686	71733574	126	31629										
RAD50	10111	broad.mit.edu	37	chr5	131953808	131953808	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tagacaatataaaaagaaatCataatttggcattagggcga	8	4	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:131953808C>T	uc003kxi.2	+	21	3598	c.3211C>T	c.(3211-3213)CAT>TAT	p.H1071Y	RAD50_uc003kxh.2_Missense_Mutation_p.H932Y	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	1071	Potential.				DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AAAAAGAAATCATAATTTGGC	0.323								Homologous_recombination					121	93	---	---	---	---	PASS	T	131953808	T	T	131953808	3	4	82	1	0	0	0	0	1	0	0	0	12984	826	29	2	3293	2	RAD50	5	131953808	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	22772122	131953808	48961452	127	31630										
PCDHA1	56147	broad.mit.edu	37	chr5	140167658	140167658	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtcatgtggtggcgaaggtgCgcgcagtggacgccgactcg	18	10	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:140167658C>T	uc003lhb.2	+	1	1783	c.1783C>T	c.(1783-1785)CGC>TGC	p.R595C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.R595C	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	595	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGAAGGTGCGCGCAGTGGA	0.692													37	41	---	---	---	---	PASS	T	140167658	T	T	140167658	3	4	82	1	0	0	0	0	1	0	0	0	11519	768	27	1	1785	1	PCDHA1	5	140167658	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	8213850	140167658	40747602	128	31631										
PCDHB5	26167	broad.mit.edu	37	chr5	140516576	140516576	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gccctcaggtcgctggactaCgaggccctgcaggcgttcga	14	14	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:140516576C>T	uc003liq.2	+	1	1777	c.1560C>T	c.(1558-1560)TAC>TAT	p.Y520Y		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	520	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCTGGACTACGAGGCCCTGC	0.701													24	64	---	---	---	---	PASS	T	140516576	T	T	140516576	2	4	82	1	0	0	0	0	0	0	0	1	11545	547	19	1		1	PCDHB5	5	140516576	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	348918	140516576	40398684	129	31632										
PCDHGA5	56110	broad.mit.edu	37	chr5	140745458	140745458	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgtatgctctgagatccttcGactatgagcagttgagagac	11	8	1	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:140745458G>T	uc003lju.1	+	1	1561	c.1561G>T	c.(1561-1563)GAC>TAC	p.D521Y	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.D521Y	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	521	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGATCCTTCGACTATGAGCA	0.542													146	130	---	---	---	---	PASS	T	140745458	T	T	140745458	3	4	82	1	0	0	0	0	1	0	0	0	11557	1058	37	2	1563	2	PCDHGA5	5	140745458	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	228882	140745458	40169802	130	31633										
PCDHGA12	26025	broad.mit.edu	37	chr5	140811929	140811929	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgcaagtgaaagtgatggcgCgggacaacgggcacccgccc	15	12	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:140811929C>T	uc003lkt.1	+	1	1772	c.1603C>T	c.(1603-1605)CGG>TGG	p.R535W	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.R535W	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	535	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTGATGGCGCGGGACAACGG	0.602													80	72	---	---	---	---	PASS	T	140811929	T	T	140811929	3	4	82	1	0	0	0	0	1	0	0	0	11553	759	27	1	1605	1	PCDHGA12	5	140811929	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	66471	140811929	40103331	131	31634										
KCNIP1	30820	broad.mit.edu	37	chr5	170139878	170139878	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acatcgcctggtggtattacCagtatcagagaggtaaaaaa	10	7	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:170139878C>A	uc003mas.2	+	2	611	c.82C>A	c.(82-84)CAG>AAG	p.Q28K	KCNIP1_uc003map.2_Intron|KCNIP1_uc003mat.2_Intron|KCNIP1_uc010jjp.2_Intron|KCNIP1_uc010jjq.2_Intron	NM_001034837	NP_001030009	Q9NZI2	KCIP1_HUMAN	Kv channel interacting protein 1 isoform 1	28					detection of calcium ion|signal transduction|synaptic transmission	plasma membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0191)|all_lung(126;0.0297)	Medulloblastoma(196;0.0109)|all_neural(177;0.0177)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GTGGTATTACCAGTATCAGAG	0.378													64	55	---	---	---	---	PASS	A	170139878	A	A	170139878	3	1	82	1	0	0	0	0	1	0	0	0	8039	595	21	3	180	3	KCNIP1	5	170139878	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	29327949	170139878	10775382	132	31635										
STC2	8614	broad.mit.edu	37	chr5	172752872	172752872	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gctctggatggatttttaccTgggcatcaaattttccagcg	10	9	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr5:172752872T>C	uc003mco.1	-	2	1603	c.293A>G	c.(292-294)CAG>CGG	p.Q98R	STC2_uc003mcn.1_Missense_Mutation_p.Q13R	NM_003714	NP_003705	O76061	STC2_HUMAN	stanniocalcin 2 precursor	98					cell surface receptor linked signaling pathway|cell-cell signaling	extracellular region	hormone activity			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.223)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GATTTTTACCTGGGCATCAAA	0.428													257	234	---	---	---	---	PASS	C	172752872	C	C	172752872	3	2	82	1	0	0	0	0	1	0	0	0	15275	1594	55	5	627	5	STC2	5	172752872	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	2612994	172752872	8162388	133	31636										
HIVEP1	3096	broad.mit.edu	37	chr6	12123174	12123174	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acttcagcaaaatgaaagtgGaacatctccaaaaagttctg	7	8	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:12123174G>T	uc003nac.2	+	4	3325	c.3146G>T	c.(3145-3147)GGA>GTA	p.G1049V	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1049					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				AATGAAAGTGGAACATCTCCA	0.448													35	109	---	---	---	---	PASS	T	12123174	T	T	12123174	3	4	82	1	0	0	0	0	1	0	0	0	7186	1174	41	2	3156	2	HIVEP1	6	12123174	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08		12123174	158991893	134	31637										
RNF182	221687	broad.mit.edu	37	chr6	13977368	13977368	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aagatggccagtcaacctccTgaagacactgcggagtctca	10	12	2	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:13977368T>G	uc003nbe.2	+	3	436	c.18T>G	c.(16-18)CCT>CCG	p.P6P	RNF182_uc003nbf.2_Silent_p.P6P|RNF182_uc003nbg.2_Silent_p.P6P	NM_152737	NP_689950	Q8N6D2	RN182_HUMAN	ring finger protein 182	6						cytoplasm|integral to membrane|intracellular membrane-bounded organelle	protein binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Breast(50;0.00405)|Ovarian(93;0.0964)	all_hematologic(90;0.135)	Epithelial(50;0.195)			GTCAACCTCCTGAAGACACTG	0.453													36	121	---	---	---	---	PASS	G	13977368	G	G	13977368	2	3	82	1	0	0	0	0	0	0	0	1	13466	1567	55	5		5	RNF182	6	13977368	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	1854194	13977368	157137699	135	31638										
HLA-G	3135	broad.mit.edu	37	chr6	29797253	29797253	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gactatgaggccaccctgagGtgctgggccctgggcttcta	14	12	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:29797253G>T	uc003nnw.2	+	5	856	c.678G>T	c.(676-678)AGG>AGT	p.R226S	HLA-G_uc011dmb.1_Missense_Mutation_p.R198S|HLA-G_uc003raj.3_Missense_Mutation_p.R231S|HLA-G_uc003nnz.3_Missense_Mutation_p.R134S|HLA-G_uc010jrn.2_Intron|HLA-G_uc003nny.3_RNA|HLA-G_uc003ran.1_5'Flank	NM_002127	NP_002118	P17693	HLAG_HUMAN	major histocompatibility complex, class I, G	226	Extracellular (Potential).|Ig-like C1-type.|Alpha-3.				antigen processing and presentation of peptide antigen via MHC class I|cellular defense response|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			ovary(3)|central_nervous_system(1)	4						CCACCCTGAGGTGCTGGGCCC	0.592													46	116	---	---	---	---	PASS	T	29797253	T	T	29797253	3	4	82	1	0	0	0	0	1	0	0	0	7212	1252	44	3	692	3	HLA-G	6	29797253	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	15819885	29797253	141317814	136	31639										
CCHCR1	54535	broad.mit.edu	37	chr6	31110877	31110877	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcaacagtcgctgctgcttgTaacgggagaggagaccttcc	12	11	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:31110877T>C	uc003nsr.3	-	17	2210	c.2087A>G	c.(2086-2088)TAC>TGC	p.Y696C	CCHCR1_uc011dne.1_Intron|CCHCR1_uc003nsq.3_Missense_Mutation_p.Y749C|CCHCR1_uc003nsp.3_Missense_Mutation_p.Y785C	NM_019052	NP_061925	Q8TD31	CCHCR_HUMAN	coiled-coil alpha-helical rod protein 1 isoform	696					cell differentiation|multicellular organismal development	cytoplasm|nucleus	protein binding			skin(1)	1						CTGCTGCTTGTAACGGGAGAG	0.552													52	207	---	---	---	---	PASS	C	31110877	C	C	31110877	3	2	82	1	0	0	0	0	1	0	0	0	2877	1638	57	5	269	5	CCHCR1	6	31110877	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	1313624	31110877	140004190	137	31640										
BAT3	7917	broad.mit.edu	37	chr6	31608925	31608925	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aagctccatctgctgtccccCcaagcagtgcaggtttaggg	11	13	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:31608925C>A	uc003nvg.3	-	19	2967	c.2653G>T	c.(2653-2655)GGG>TGG	p.G885W	BAT3_uc003nvf.3_Missense_Mutation_p.G879W|BAT3_uc003nvh.3_Missense_Mutation_p.G879W|BAT3_uc003nvi.3_Missense_Mutation_p.G879W|BAT3_uc011dnw.1_Missense_Mutation_p.G879W|BAT3_uc011dnx.1_Missense_Mutation_p.G753W	NM_004639	NP_004630	P46379	BAG6_HUMAN	HLA-B associated transcript-3 isoform a	885					apoptosis in response to endoplasmic reticulum stress|brain development|cell differentiation|chromatin modification|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|embryo development|internal peptidyl-lysine acetylation|kidney development|lung development|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|protein stabilization|spermatogenesis|synaptonemal complex assembly|tail-anchored membrane protein insertion into ER membrane|transport|ubiquitin-dependent protein catabolic process	BAT3 complex|nucleus	polyubiquitin binding|proteasome binding|ribosome binding				0						TGCTGTCCCCCCAAGCAGTGC	0.512													34	107	---	---	---	---	PASS	A	31608925	A	A	31608925	3	1	82	1	0	0	0	0	1	0	0	0	1322	623	22	3	773	3	BAT3	6	31608925	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	498048	31608925	139506142	138	31641										
PI16	221476	broad.mit.edu	37	chr6	36929663	36929663	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcctcctgacctcctgtaggGggaacgtgaaggggaaacgg	15	10	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:36929663G>A	uc003ona.2	+	4	833	c.505G>A	c.(505-507)GGG>AGG	p.G169R	PI16_uc003omz.1_Missense_Mutation_p.G169R|PI16_uc003onb.2_Missense_Mutation_p.G169R|PI16_uc011dts.1_5'UTR	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	169	Extracellular (Potential).					extracellular region|integral to membrane	peptidase inhibitor activity				0						CTCCTGTAGGGGGAACGTGAA	0.617													18	93	---	---	---	---	PASS	A	36929663	A	A	36929663	3	1	82	1	0	0	0	0	1	0	0	0	11869	1246	43	3	519	3	PI16	6	36929663	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	5320738	36929663	134185404	139	31642										
TRERF1	55809	broad.mit.edu	37	chr6	42227438	42227438	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcctcggctttgggcacactCggctgatgcttcctggggat	13	12	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:42227438C>A	uc003osd.2	-	9	2471	c.1908G>T	c.(1906-1908)CCG>CCT	p.P636P	TRERF1_uc011duq.1_Silent_p.P553P|TRERF1_uc003osb.2_Silent_p.P392P|TRERF1_uc003osc.2_Silent_p.P392P|TRERF1_uc003ose.2_Silent_p.P656P	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	636	Pro-rich.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TGGGCACACTCGGCTGATGCT	0.587													35	117	---	---	---	---	PASS	A	42227438	A	A	42227438	2	1	82	1	0	0	0	0	0	0	0	1	16472	871	31	2		2	TRERF1	6	42227438	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	5297775	42227438	128887629	140	31643										
C6orf154	221424	broad.mit.edu	37	chr6	43475243	43475243	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctctggtgggcagcaggctcCcgccctctctcccattcctg	10	18	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:43475243C>T	uc003ovk.1	-	5	1732	c.831G>A	c.(829-831)CGG>CGA	p.R277R	C6orf154_uc003ovj.1_Silent_p.R86R	NM_001012974	NP_001012992	Q5JTD7	CF154_HUMAN	hypothetical protein LOC221424	277											0	all_cancers(18;3.79e-05)|Lung NSC(15;0.00217)|all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00736)|OV - Ovarian serous cystadenocarcinoma(102;0.0711)			CAGCAGGCTCCCGCCCTCTCT	0.632													14	41	---	---	---	---	PASS	T	43475243	T	T	43475243	2	4	82	1	0	0	0	0	0	0	0	1	2339	610	22	3		3	C6orf154	6	43475243	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	1247805	43475243	127639824	141	31644										
TDRD6	221400	broad.mit.edu	37	chr6	46658129	46658129	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttttcctcttatgcagaattGcttggaaattaagccaggct	8	8	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:46658129G>T	uc003oyj.2	+	1	2264	c.2264G>T	c.(2263-2265)TGC>TTC	p.C755F	TDRD6_uc010jze.2_Missense_Mutation_p.C749F	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	755					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			ATGCAGAATTGCTTGGAAATT	0.403													15	53	---	---	---	---	PASS	T	46658129	T	T	46658129	3	4	82	1	0	0	0	0	1	0	0	0	15731	1319	46	3	2266	3	TDRD6	6	46658129	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	3182886	46658129	124456938	142	31645										
GPR116	221395	broad.mit.edu	37	chr6	46828476	46828476	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atcatttctgaatttacttgGgttggaactgttgagagcag	11	5	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:46828476G>C	uc003oyo.3	-	16	2644	c.2355C>G	c.(2353-2355)ACC>ACG	p.T785T	GPR116_uc011dwj.1_Silent_p.T340T|GPR116_uc011dwk.1_Silent_p.T214T|GPR116_uc003oyp.3_Silent_p.T643T|GPR116_uc003oyq.3_Silent_p.T785T|GPR116_uc010jzi.1_Silent_p.T457T	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	785	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			AATTTACTTGGGTTGGAACTG	0.408													22	87	---	---	---	---	PASS	C	46828476	C	C	46828476	2	2	82	1	0	0	0	0	0	0	0	1	6633	1219	43	4		4	GPR116	6	46828476	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	170347	46828476	124286591	143	31646										
GPR110	266977	broad.mit.edu	37	chr6	46991822	46991822	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	actctggctgaggttgttgaGatgacattcacagcttggga	13	7	2	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:46991822G>C	uc003oyt.2	-	5	608	c.409C>G	c.(409-411)CTC>GTC	p.L137V	GPR110_uc011dwl.1_Translation_Start_Site|GPR110_uc003oyu.1_Missense_Mutation_p.L137V	NM_153840	NP_722582	Q5T601	GP110_HUMAN	G-protein coupled receptor 110 isoform 1	137	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|pancreas(1)	3						AGGTTGTTGAGATGACATTCA	0.512													11	51	---	---	---	---	PASS	C	46991822	C	C	46991822	3	2	82	1	0	0	0	0	1	0	0	0	6627	942	33	2	2417	2	GPR110	6	46991822	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	163346	46991822	124123245	144	31647										
CRISP2	7180	broad.mit.edu	37	chr6	49665584	49665584	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tctacttacgcaggacaataTtggcaaacatagtagtattt	7	7	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:49665584T>A	uc003ozq.2	-	8	760	c.504A>T	c.(502-504)CAA>CAT	p.Q168H	CRISP2_uc003ozl.2_Missense_Mutation_p.Q168H|CRISP2_uc003ozn.2_Missense_Mutation_p.Q168H|CRISP2_uc003ozr.2_Missense_Mutation_p.Q168H|CRISP2_uc003ozo.2_Missense_Mutation_p.Q168H|CRISP2_uc003ozm.2_Missense_Mutation_p.Q168H|CRISP2_uc003ozp.2_Missense_Mutation_p.Q168H	NM_001142408	NP_001135880	P16562	CRIS2_HUMAN	cysteine-rich secretory protein 2 precursor	168						extracellular space				skin(1)	1	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			CAGGACAATATTGGCAAACAT	0.333													28	125	---	---	---	---	PASS	A	49665584	A	A	49665584	3	1	82	1	0	0	0	0	1	0	0	0	3880	1490	52	5	239	5	CRISP2	6	49665584	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	2673762	49665584	121449483	145	31648										
PKHD1	5314	broad.mit.edu	37	chr6	51920404	51920404	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cgtgtgtatactgatctagcCgatagcccttctgggcagcc	11	12	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:51920404C>G	uc003pah.1	-	19	2093	c.1817G>C	c.(1816-1818)CGG>CCG	p.R606P	PKHD1_uc003pai.2_Missense_Mutation_p.R606P	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	606	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CTGATCTAGCCGATAGCCCTT	0.552													10	36	---	---	---	---	PASS	G	51920404	G	G	51920404	3	3	82	1	0	0	0	0	1	0	0	0	11971	652	23	4	10642	4	PKHD1	6	51920404	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	2254820	51920404	119194663	146	31649										
PAQR8	85315	broad.mit.edu	37	chr6	52268189	52268189	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccggctaccgccccacggggCacgagtggcgctactacttc	12	17	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:52268189C>A	uc003pao.3	+	2	352	c.178C>A	c.(178-180)CAC>AAC	p.H60N		NM_133367	NP_588608	Q8TEZ7	MPRB_HUMAN	progestin and adipoQ receptor family member	60	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding				0	Lung NSC(77;0.0875)					CCCCACGGGGCACGAGTGGCG	0.597													21	42	---	---	---	---	PASS	A	52268189	A	A	52268189	3	1	82	1	0	0	0	0	1	0	0	0	11441	710	25	3	180	3	PAQR8	6	52268189	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	347785	52268189	118846878	147	31650										
LGSN	51557	broad.mit.edu	37	chr6	63995609	63995609	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgtctaatgtgtttcattctAgaagagagttgaggtggggt	14	3	3	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:63995609A>G	uc003peh.2	-	3	247	c.213T>C	c.(211-213)TCT>TCC	p.S71S	LGSN_uc003pei.2_Silent_p.S71S|LGSN_uc003pej.1_Intron	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	71					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	GTTTCATTCTAGAAGAGAGTT	0.438													16	39	---	---	---	---	PASS	G	63995609	G	G	63995609	2	3	82	1	0	0	0	0	0	0	0	1	8759	407	15	5		5	LGSN	6	63995609	Silent	SNP	A	TCGA-39-5016-01A-01D-1441-08	11727420	63995609	107119458	148	31651										
COL19A1	1310	broad.mit.edu	37	chr6	70639375	70639375	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atttatgtttcaagccacagAgggagatgtgttgaactaca	10	6	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:70639375A>C	uc003pfc.1	+	6	566	c.449A>C	c.(448-450)GAG>GCG	p.E150A	COL19A1_uc010kam.1_Missense_Mutation_p.E46A	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	150	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CAAGCCACAGAGGGAGATGTG	0.353													21	56	---	---	---	---	PASS	C	70639375	C	C	70639375	3	2	82	1	0	0	0	0	1	0	0	0	3676	304	11	5	467	5	COL19A1	6	70639375	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	6643766	70639375	100475692	149	31652										
MYO6	4646	broad.mit.edu	37	chr6	76545620	76545620	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atcctatattttaaacagatAcctgactgaatcctatggaa	5	8	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:76545620A>T	uc003pih.1	+	7	779	c.500A>T	c.(499-501)TAC>TTC	p.Y167F	MYO6_uc003pig.1_Missense_Mutation_p.Y167F|MYO6_uc003pii.1_Missense_Mutation_p.Y167F	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	167	Myosin head-like.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		TTAAACAGATACCTGACTGAA	0.284													15	51	---	---	---	---	PASS	T	76545620	T	T	76545620	3	4	82	1	0	0	0	0	1	0	0	0	10081	391	14	5	522	5	MYO6	6	76545620	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	5906245	76545620	94569447	150	31653										
ZNF292	23036	broad.mit.edu	37	chr6	87969153	87969153	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acactccagaaatgattcttGaaattaagaagaatcaattg	6	6	2	5			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:87969153G>C	uc003plm.3	+	8	5847	c.5806G>C	c.(5806-5808)GAA>CAA	p.E1936Q		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1936					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		AATGATTCTTGAAATTAAGAA	0.348													5	7	---	---	---	---	PASS	C	87969153	C	C	87969153	3	2	82	1	0	0	0	0	1	0	0	0	17823	1291	45	2	5836	2	ZNF292	6	87969153	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	11423533	87969153	83145914	151	31654										
SPACA1	81833	broad.mit.edu	37	chr6	88769251	88769251	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttggctttcgagtgtgacacActggataataatgaaatagt	10	5	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:88769251A>C	uc003pmn.2	+	5	672	c.555A>C	c.(553-555)ACA>ACC	p.T185T		NM_030960	NP_112222	Q9HBV2	SACA1_HUMAN	sperm acrosome associated 1 precursor	185	Extracellular (Potential).					integral to membrane					0		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.11)		AGTGTGACACACTGGATAATA	0.343													19	48	---	---	---	---	PASS	C	88769251	C	C	88769251	2	2	82	1	0	0	0	0	0	0	0	1	14972	146	6	5		5	SPACA1	6	88769251	Silent	SNP	A	TCGA-39-5016-01A-01D-1441-08	800098	88769251	82345816	152	31655										
GPR6	2830	broad.mit.edu	37	chr6	110300817	110300817	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccattacggtggaccgctacCtgtccctgtataacgcgctc	9	15	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:110300817C>A	uc011eaw.1	+	2	682	c.502C>A	c.(502-504)CTG>ATG	p.L168M	GPR6_uc011eav.1_Missense_Mutation_p.L183M|GPR6_uc003ptu.2_Missense_Mutation_p.L168M	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	168	Cytoplasmic (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		GGACCGCTACCTGTCCCTGTA	0.652													15	65	---	---	---	---	PASS	A	110300817	A	A	110300817	3	1	82	1	0	0	0	0	1	0	0	0	6701	680	24	3	504	3	GPR6	6	110300817	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	21531566	110300817	60814250	153	31656										
FRK	2444	broad.mit.edu	37	chr6	116289834	116289834	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgttgaaaagattcttcttcGcgtgagaaaaaatccccctt	7	9	2	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:116289834G>A	uc003pwi.1	-	3	982	c.535C>T	c.(535-537)CGA>TGA	p.R179*		NM_002031	NP_002022	P42685	FRK_HUMAN	fyn-related kinase	179	SH2.				negative regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|lung(3)	6		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)		ATTCTTCTTCGCGTGAGAAAA	0.403													38	133	---	---	---	---	PASS	A	116289834	A	A	116289834	4	1	82	1	0	0	0	0	0	1	0	0	6048	1095	38	1	1006	1	FRK	6	116289834	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	5989017	116289834	54825233	154	31657										
C6orf174	387104	broad.mit.edu	37	chr6	127797137	127797137	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccggacttgtacttgtacttGttgagctccgccgtgatgcg	12	11	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:127797137G>T	uc003qbd.2	-	6	2899	c.2034C>A	c.(2032-2034)AAC>AAA	p.N678K	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	678	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		ACTTGTACTTGTTGAGCTCCG	0.662													32	94	---	---	---	---	PASS	T	127797137	T	T	127797137	3	4	82	1	0	0	0	0	1	0	0	0	2345	1368	48	3	817	3	C6orf174	6	127797137	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	11507303	127797137	43317930	155	31658										
LAMA2	3908	broad.mit.edu	37	chr6	129807696	129807696	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcacgaacaatgaggaaaatTgtgatcagaccagagccgaa	11	8	1	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:129807696T>A	uc003qbn.2	+	55	7932	c.7827T>A	c.(7825-7827)ATT>ATA	p.I2609I	LAMA2_uc003qbo.2_Silent_p.I2605I|uc003qbq.2_RNA	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2609	Laminin G-like 3.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TGAGGAAAATTGTGATCAGAC	0.433													31	70	---	---	---	---	PASS	A	129807696	A	A	129807696	2	1	82	1	0	0	0	0	0	0	0	1	8606	1800	63	5		5	LAMA2	6	129807696	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	2010559	129807696	41307371	156	31659										
IL20RA	53832	broad.mit.edu	37	chr6	137323265	137323265	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	caaaaaatttccatcaaatgCgaagcataccctaaatgttt	4	9	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:137323265C>T	uc003qhj.2	-	7	1525	c.1092G>A	c.(1090-1092)TCG>TCA	p.S364S	IL20RA_uc011edl.1_Silent_p.S315S|IL20RA_uc003qhk.2_Silent_p.S253S|IL20RA_uc003qhi.2_Silent_p.S96S	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	364	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)		CCATCAAATGCGAAGCATACC	0.483													34	85	---	---	---	---	PASS	T	137323265	T	T	137323265	2	4	82	1	0	0	0	0	0	0	0	1	7668	755	27	1		1	IL20RA	6	137323265	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	7515569	137323265	33791802	157	31660										
FNDC1	84624	broad.mit.edu	37	chr6	159653564	159653564	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggccagccctgtcccccagcCgccagtccccgtccagcgtt	10	21	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr6:159653564C>G	uc010kjv.2	+	11	2220	c.2020C>G	c.(2020-2022)CGC>GGC	p.R674G	FNDC1_uc010kjw.1_Missense_Mutation_p.R559G	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	674	Ser-rich.					extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		GTCCCCCAGCCGCCAGTCCCC	0.706													6	9	---	---	---	---	PASS	G	159653564	G	G	159653564	3	3	82	1	0	0	0	0	1	0	0	0	5968	652	23	4	2062	4	FNDC1	6	159653564	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	22330299	159653564	11461503	158	31661										
NUDT1	4521	broad.mit.edu	37	chr7	2290629	2290629	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cacactccgcgaggtggacaCggtctagcgggagcccaggg	16	13	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:2290629C>T	uc003slp.1	+	5	635	c.533C>T	c.(532-534)ACG>ATG	p.T178M	NUDT1_uc003slq.1_Missense_Mutation_p.T155M|NUDT1_uc003slr.1_Missense_Mutation_p.T155M|NUDT1_uc003sls.1_Missense_Mutation_p.T178M|NUDT1_uc003slt.1_Missense_Mutation_p.T155M|NUDT1_uc003slu.1_Missense_Mutation_p.T178M|NUDT1_uc003slv.1_Missense_Mutation_p.T155M	NM_198949	NP_945187	P36639	8ODP_HUMAN	nudix-type motif 1 isoform p22	196					DNA protection|DNA repair|response to oxidative stress	cytoplasm	8-oxo-7,8-dihydrodeoxyguanosine triphosphate pyrophosphatase activity|8-oxo-7,8-dihydroguanosine triphosphate pyrophosphatase activity|GTPase activity|metal ion binding|protein binding				0		Ovarian(82;0.0253)|Melanoma(862;0.155)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0822)|OV - Ovarian serous cystadenocarcinoma(56;2.8e-14)|BRCA - Breast invasive adenocarcinoma(126;0.15)		GAGGTGGACACGGTCTAGCGG	0.602								Direct_reversal_of_damage|Modulation_of_nucleotide_pools					28	169	---	---	---	---	PASS	T	2290629	T	T	2290629	3	4	82	1	0	0	0	0	1	0	0	0	10725	536	19	1	547	1	NUDT1	7	2290629	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08		2290629	156848034	159	31662										
GPR141	353345	broad.mit.edu	37	chr7	37780012	37780012	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aagtatgcctggccacaataCctccaggaattcctcttgcg	8	13	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:37780012C>A	uc003tfm.1	+	1	17	c.17C>A	c.(16-18)ACC>AAC	p.T6N	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	6	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						GGCCACAATACCTCCAGGAAT	0.468													90	235	---	---	---	---	PASS	A	37780012	A	A	37780012	3	1	82	1	0	0	0	0	1	0	0	0	6649	507	18	3	19	3	GPR141	7	37780012	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	35489383	37780012	121358651	160	31663										
POM121L12	285877	broad.mit.edu	37	chr7	53103474	53103474	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggctcccatgagcaggtcacCcagcacgccccagaccacgc	10	19	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:53103474C>T	uc003tpz.2	+	1	126	c.110C>T	c.(109-111)CCC>CTC	p.P37L		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	37											0						AGCAGGTCACCCAGCACGCCC	0.682													16	35	---	---	---	---	PASS	T	53103474	T	T	53103474	3	4	82	1	0	0	0	0	1	0	0	0	12241	623	22	3	112	3	POM121L12	7	53103474	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	15323462	53103474	106035189	161	31664										
STAG3L4	64940	broad.mit.edu	37	chr7	66774573	66774573	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atgaaactgatgacctccctGgtaagagttgccctccaact	8	12	0	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:66774573G>T	uc003tvt.3	+	4	582	c.315G>T	c.(313-315)CTG>CTT	p.L105L	STAG3L4_uc010laj.2_RNA	NM_022906	NP_075057	Q8TBR4	STG34_HUMAN	stromal antigen 3-like 4	105											0		Lung NSC(55;0.0839)|all_lung(88;0.181)				TGACCTCCCTGGTAAGAGTTG	0.468													166	148	---	---	---	---	PASS	T	66774573	T	T	66774573	2	4	82	1	0	0	0	0	0	0	0	1	15246	1335	47	3		3	STAG3L4	7	66774573	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	13671099	66774573	92364090	162	31665										
FKBP6	8468	broad.mit.edu	37	chr7	72742586	72742586	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	attctccatcagtccctgtaCgagcggttaagtcagaggat	10	10	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:72742586C>T	uc003tya.2	+	2	198	c.66C>T	c.(64-66)TAC>TAT	p.Y22Y	FKBP6_uc003twz.2_Intron|FKBP6_uc011kew.1_Silent_p.Y17Y|FKBP6_uc010lbe.1_RNA|TRIM50_uc003txy.1_5'Flank|TRIM50_uc003txz.1_5'Flank	NM_003602	NP_003593	O75344	FKBP6_HUMAN	FK506 binding protein 6 isoform a	22					protein folding	membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				AGTCCCTGTACGAGCGGTTAA	0.632													9	62	---	---	---	---	PASS	T	72742586	T	T	72742586	2	4	82	1	0	0	0	0	0	0	0	1	5912	547	19	1		1	FKBP6	7	72742586	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	5968013	72742586	86396077	163	31666										
SEMA3E	9723	broad.mit.edu	37	chr7	83023654	83023654	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agaaataataggaactggatCctgaaattttaaaaaagttt	7	3	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:83023654C>A	uc003uhy.1	-	13	1925	c.1459G>T	c.(1459-1461)GAT>TAT	p.D487Y		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	487	Sema.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				GGAACTGGATCCTGAAATTTT	0.249													59	62	---	---	---	---	PASS	A	83023654	A	A	83023654	3	1	82	1	0	0	0	0	1	0	0	0	14028	869	30	2	888	2	SEMA3E	7	83023654	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	10281068	83023654	76115009	164	31667										
CDK14	5218	broad.mit.edu	37	chr7	90226026	90226026	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctttgtcggagagtttcagtCgcattggtgagtagcgcgct	14	8	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:90226026C>A	uc003uky.2	+	1	307	c.85C>A	c.(85-87)CGC>AGC	p.R29S	CDK14_uc003ukt.1_Intron|CDK14_uc003ukv.1_Intron|CDK14_uc003uku.1_Intron|CDK14_uc003ukx.1_Intron	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	29					cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						GAGTTTCAGTCGCATTGGTGA	0.448													13	50	---	---	---	---	PASS	A	90226026	A	A	90226026	3	1	82	1	0	0	0	0	1	0	0	0	3130	899	31	2		2	CDK14	7	90226026	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	7202372	90226026	68912637	165	31668										
HEPACAM2	253012	broad.mit.edu	37	chr7	92837893	92837893	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tccttgtatgtcacacatacCtacggaagtgatgataactg	8	9	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:92837893C>T	uc003umm.2	-	4	1035	c.1012G>A	c.(1012-1014)GGA>AGA	p.G338R	HEPACAM2_uc003uml.2_Missense_Mutation_p.G326R|HEPACAM2_uc010lff.2_Missense_Mutation_p.G326R|HEPACAM2_uc011khy.1_Missense_Mutation_p.G361R	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	338	Extracellular (Potential).					integral to membrane				ovary(3)|breast(1)|kidney(1)	5						TCACACATACCTACGGAAGTG	0.413													58	175	---	---	---	---	PASS	T	92837893	T	T	92837893	3	4	82	1	0	0	0	0	1	0	0	0	7053	695	24	3	404	3	HEPACAM2	7	92837893	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	2611867	92837893	66300770	166	31669										
BUD31	8896	broad.mit.edu	37	chr7	99013774	99013774	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tccccagctgaaacagaaccGcatgagggaaagaggaaagt	12	9	0	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:99013774G>A	uc003uqf.2	+	4	309	c.108G>A	c.(106-108)CCG>CCA	p.P36P	BUD31_uc011kiu.1_Silent_p.P36P|BUD31_uc011kiv.1_Silent_p.P36P|BUD31_uc003uqg.3_Silent_p.P36P	NM_003910	NP_003901	P41223	BUD31_HUMAN	G10 protein	36					regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_cancers(62;1.76e-08)|all_epithelial(64;1.63e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			AAACAGAACCGCATGAGGGAA	0.433													13	138	---	---	---	---	PASS	A	99013774	A	A	99013774	2	1	82	1	0	0	0	0	0	0	0	1	1574	1074	38	1		1	BUD31	7	99013774	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	6175881	99013774	60124889	167	31670										
CYP3A43	64816	broad.mit.edu	37	chr7	99441866	99441866	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctgtcttcacaaaccagatgGtaggcctatattttcaaatg	7	9	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:99441866G>A	uc003urx.1	+	4	421	c.318_splice	c.e4+1	p.M106_splice	CYP3A43_uc003ury.1_Splice_Site_p.M106_splice|CYP3A43_uc003urz.1_Splice_Site_p.M106_splice|CYP3A43_uc003usa.1_Splice_Site|CYP3A43_uc010lgi.1_Intron|CYP3A43_uc003usb.1_Intron	NM_057095	NP_476436	Q9HB55	CP343_HUMAN	cytochrome P450, family 3, subfamily A,						xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)				Cetirizine(DB00341)|Doxycycline(DB00254)	AAACCAGATGGTAGGCCTATA	0.264													9	139	---	---	---	---	PASS	A	99441866	A	A	99441866	5	1	82	1	0	0	0	0	0	0	1	0	4179	1275	44	3	333	3	CYP3A43	7	99441866	Splice_Site	SNP	G	TCGA-39-5016-01A-01D-1441-08	428092	99441866	59696797	168	31671										
ZAN	7455	broad.mit.edu	37	chr7	100385658	100385658	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcccctcctcgtggaaggacGcaacaagatggatccgccca	11	15	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:100385658G>A	uc003uwj.2	+	39	7292	c.7127G>A	c.(7126-7128)CGC>CAC	p.R2376H	ZAN_uc003uwk.2_Missense_Mutation_p.R2376H|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.R426H	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2376	VWFD 4.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GTGGAAGGACGCAACAAGATG	0.567													19	140	---	---	---	---	PASS	A	100385658	A	A	100385658	3	1	82	1	0	0	0	0	1	0	0	0	17510	1087	38	1	7272	1	ZAN	7	100385658	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	943792	100385658	58753005	169	31672										
ST7	7982	broad.mit.edu	37	chr7	116739883	116739883	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acaggcacttcctcactaatAtcagggcttattttggtaag	8	9	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:116739883A>T	uc003vin.2	+	2	433	c.219A>T	c.(217-219)ATA>ATT	p.I73I	ST7_uc011knl.1_Silent_p.I73I|ST7_uc003vio.2_Silent_p.I73I|ST7_uc003viq.2_Silent_p.I27I|ST7_uc011knm.1_Silent_p.I30I|ST7_uc003vir.2_Silent_p.I21I|ST7OT2_uc003viu.2_Intron|ST7_uc011knn.1_Silent_p.I21I	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b	73	Helical; (Potential).					integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		CCTCACTAATATCAGGGCTTA	0.318													41	54	---	---	---	---	PASS	T	116739883	T	T	116739883	2	4	82	1	0	0	0	0	0	0	0	1	15228	439	16	5		5	ST7	7	116739883	Silent	SNP	A	TCGA-39-5016-01A-01D-1441-08	16354225	116739883	42398780	170	31673										
WASL	8976	broad.mit.edu	37	chr7	123332580	123332580	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtccccatcagaaggcaggcCaggcgggggcggtggcccag	18	13	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:123332580C>A	uc003vkz.2	-	9	1496	c.1168G>T	c.(1168-1170)GGC>TGC	p.G390C		NM_003941	NP_003932	O00401	WASL_HUMAN	Wiskott-Aldrich syndrome gene-like protein	390	Pro-rich.				actin polymerization or depolymerization|axon guidance|cellular component movement|nitric oxide metabolic process|protein complex assembly|regulation of nitric-oxide synthase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|cytosol|nucleolus|plasma membrane	actin binding|small GTPase regulator activity				0						GAAGGCAGGCCAGGCGGGGGC	0.592													26	75	---	---	---	---	PASS	A	123332580	A	A	123332580	3	1	82	1	0	0	0	0	1	0	0	0	17253	594	21	3	361	3	WASL	7	123332580	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	6592697	123332580	35806083	171	31674										
PLXNA4	91584	broad.mit.edu	37	chr7	131865381	131865381	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccgatgaggttgggggactcGcagagcagctggacatctga	16	9	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:131865381G>T	uc003vra.3	-	19	3832	c.3603C>A	c.(3601-3603)TGC>TGA	p.C1201*		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1201	IPT/TIG 4.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TGGGGGACTCGCAGAGCAGCT	0.612													5	53	---	---	---	---	PASS	T	131865381	T	T	131865381	4	4	82	1	0	0	0	0	0	1	0	0	12122	1079	38	1	2137	1	PLXNA4	7	131865381	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	8532801	131865381	27273282	172	31675										
DGKI	9162	broad.mit.edu	37	chr7	137531210	137531210	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccggctccccgcacctacctGtacgagacctgcttccggaa	9	18	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:137531210G>T	uc003vtt.2	-	1	400	c.399C>A	c.(397-399)TAC>TAA	p.Y133*	DGKI_uc003vtu.2_5'UTR	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	133					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						GCACCTACCTGTACGAGACCT	0.647													3	30	---	---	---	---	PASS	T	137531210	T	T	137531210	4	4	82	1	0	0	0	0	0	1	0	0	4471	1372	48	3	2934	3	DGKI	7	137531210	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	5665829	137531210	21607453	173	31676										
ATP6V0A4	50617	broad.mit.edu	37	chr7	138394385	138394385	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttaccagtgcagtcgcagggCgtgcaggaaagcagagaggc	16	9	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:138394385C>T	uc003vuf.2	-	20	2651	c.2413G>A	c.(2413-2415)GCC>ACC	p.A805T	ATP6V0A4_uc003vug.2_Missense_Mutation_p.A805T|ATP6V0A4_uc003vuh.2_Missense_Mutation_p.A805T	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	805	Cytoplasmic (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						AGTCGCAGGGCGTGCAGGAAA	0.378													66	253	---	---	---	---	PASS	T	138394385	T	T	138394385	3	4	82	1	0	0	0	0	1	0	0	0	1170	768	27	1	117	1	ATP6V0A4	7	138394385	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	863175	138394385	20744278	174	31677										
KIAA1549	57670	broad.mit.edu	37	chr7	138566135	138566135	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cagaaagcccaataataaccTtcctctgtgacgaacattct	5	12	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:138566135T>G	uc011kql.1	-	11	4277	c.4228A>C	c.(4228-4230)AGA>CGA	p.R1410R	KIAA1549_uc011kqi.1_Silent_p.R194R|KIAA1549_uc003vuk.3_Silent_p.R1360R|KIAA1549_uc011kqj.1_Silent_p.R1410R|KIAA1549_uc011kqk.1_Silent_p.R194R	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1410						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						AATAATAACCTTCCTCTGTGA	0.502			O	BRAF	pilocytic astrocytoma								18	80	---	---	---	---	PASS	G	138566135	G	G	138566135	2	3	82	1	0	0	0	0	0	0	0	1	8244	1623	56	5		5	KIAA1549	7	138566135	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	171750	138566135	20572528	175	31678										
HIPK2	28996	broad.mit.edu	37	chr7	139257879	139257879	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgggtaggcagtgtgctgcaCggtgtggcgcgcagagcctt	18	9	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:139257879C>T	uc003vvf.3	-	15	3565	c.3391G>A	c.(3391-3393)GTG>ATG	p.V1131M	HIPK2_uc003vvd.3_Missense_Mutation_p.V1104M	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	1131	Autoinhibitory domain (AID).				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					GTGTGCTGCACGGTGTGGCGC	0.711													5	11	---	---	---	---	PASS	T	139257879	T	T	139257879	3	4	82	1	0	0	0	0	1	0	0	0	7117	536	19	1	209	1	HIPK2	7	139257879	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	691744	139257879	19880784	176	31679										
TAS2R60	338398	broad.mit.edu	37	chr7	143141257	143141257	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cctcaggattccgagagcccAgtgtgcaggcacacataaag	11	12	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:143141257A>G	uc011ktg.1	+	1	712	c.712A>G	c.(712-714)AGT>GGT	p.S238G	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	238	Helical; Name=6; (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					CCGAGAGCCCAGTGTGCAGGC	0.483													36	127	---	---	---	---	PASS	G	143141257	G	G	143141257	3	3	82	1	0	0	0	0	1	0	0	0	15582	188	7	5	714	5	TAS2R60	7	143141257	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	3883378	143141257	15997406	177	31680										
OR2A5	393046	broad.mit.edu	37	chr7	143748276	143748276	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cgccattgtcatgtacatggCccccaagtcccgccaccctg	8	18	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:143748276C>T	uc011ktw.1	+	1	782	c.782C>T	c.(781-783)GCC>GTC	p.A261V		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					ATGTACATGGCCCCCAAGTCC	0.567													71	95	---	---	---	---	PASS	T	143748276	T	T	143748276	3	4	82	1	0	0	0	0	1	0	0	0	10981	739	26	3	784	3	OR2A5	7	143748276	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	607019	143748276	15390387	178	31681										
ABP1	26	broad.mit.edu	37	chr7	150554701	150554701	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggctggggcctgggcagcgtCactcatgagttagcccccgg	16	13	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:150554701C>T	uc003why.1	+	3	5361	c.1143C>T	c.(1141-1143)GTC>GTT	p.V381V	ABP1_uc003whz.1_Silent_p.V381V|ABP1_uc003wia.1_Silent_p.V381V	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	381					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	TGGGCAGCGTCACTCATGAGT	0.607													23	100	---	---	---	---	PASS	T	150554701	T	T	150554701	2	4	82	1	0	0	0	0	0	0	0	1	98	813	29	2		2	ABP1	7	150554701	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	6806425	150554701	8583962	179	31682										
KCNH2	3757	broad.mit.edu	37	chr7	150644067	150644067	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtggtcacagcactgtaggcGggcgggaccagcgtcatctg	16	11	3	0	rs41312087	byFrequency	TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:150644067G>A	uc003wic.2	-	14	3241	c.3228C>T	c.(3226-3228)CCC>CCT	p.P1076P	KCNH2_uc003wib.2_Silent_p.P736P|KCNH2_uc011kux.1_Silent_p.P980P	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	1076	Cytoplasmic (Potential).				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	CACTGTAGGCGGGCGGGACCA	0.672													26	42	---	---	---	---	PASS	A	150644067	A	A	150644067	2	1	82	1	0	0	0	0	0	0	0	1	8032	1103	39	1		1	KCNH2	7	150644067	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	89366	150644067	8494596	180	31683										
ABCF2	10061	broad.mit.edu	37	chr7	150916197	150916197	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccagtgaaacctcttcatctGgttctcctccagctctagcc	6	16	5	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr7:150916197G>A	uc003wjp.2	-	8	1081	c.970C>T	c.(970-972)CAG>TAG	p.Q324*	ABCF2_uc003wjo.1_Nonsense_Mutation_p.Q324*	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	324	ABC transporter 1.					ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTCTTCATCTGGTTCTCCTCC	0.512													42	218	---	---	---	---	PASS	A	150916197	A	A	150916197	4	1	82	1	0	0	0	0	0	1	0	0	66	1357	47	3	974	3	ABCF2	7	150916197	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	272130	150916197	8222466	181	31684										
CSMD1	64478	broad.mit.edu	37	chr8	4495076	4495076	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tggactaagcctccacagttCtgacctggaagagaaaacac	9	11	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:4495076C>A	uc011kwk.1	-	2	480	c.90G>T	c.(88-90)CAG>CAT	p.Q30H		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	30	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)		CTCCACAGTTCTGACCTGGAA	0.408													7	36	---	---	---	---	PASS	A	4495076	A	A	4495076	3	1	82	1	0	0	0	0	1	0	0	0	3944	912	32	2	10693	2	CSMD1	8	4495076	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08		4495076	141868946	182	31685										
DLC1	10395	broad.mit.edu	37	chr8	12957314	12957314	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aggctgatgtggccagggccGtggaagcttcccgtcctcca	14	13	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:12957314G>A	uc003wwm.2	-	9	2976	c.2532C>T	c.(2530-2532)CAC>CAT	p.H844H	DLC1_uc003wwk.1_Silent_p.H407H|DLC1_uc003wwl.1_Silent_p.H441H|DLC1_uc011kxx.1_Silent_p.H333H	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	844					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GGCCAGGGCCGTGGAAGCTTC	0.572													40	32	---	---	---	---	PASS	A	12957314	A	A	12957314	2	1	82	1	0	0	0	0	0	0	0	1	4550	1136	40	1		1	DLC1	8	12957314	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	8462238	12957314	133406708	183	31686										
SLC7A2	6542	broad.mit.edu	37	chr8	17415842	17415842	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttgacctgaaggcgcttgtgGacatgatgtccattggcaca	12	9	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:17415842G>T	uc011kyc.1	+	8	1403	c.1234G>T	c.(1234-1236)GAC>TAC	p.D412Y	SLC7A2_uc011kyd.1_Missense_Mutation_p.D451Y|SLC7A2_uc011kye.1_Missense_Mutation_p.D452Y|SLC7A2_uc011kyf.1_Missense_Mutation_p.D412Y	NM_001008539	NP_001008539	P52569	CTR2_HUMAN	solute carrier family 7, member 2 isoform 2	412	Helical; (Potential).				cellular amino acid metabolic process|ion transport	cytoplasm|integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity			ovary(2)|skin(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	L-Lysine(DB00123)|L-Ornithine(DB00129)	GGCGCTTGTGGACATGATGTC	0.512													25	62	---	---	---	---	PASS	T	17415842	T	T	17415842	3	4	82	1	0	0	0	0	1	0	0	0	14697	1174	41	2	1525	2	SLC7A2	8	17415842	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	4458528	17415842	128948180	184	31687										
LZTS1	11178	broad.mit.edu	37	chr8	20112359	20112359	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cccgcttaccatttctagctGattggagaagggcatgagct	11	10	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:20112359G>C	uc003wzr.2	-	1	445	c.334C>G	c.(334-336)CAG>GAG	p.Q112E	LZTS1_uc010ltg.1_Missense_Mutation_p.Q112E	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	112					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		ATTTCTAGCTGATTGGAGAAG	0.597													5	32	---	---	---	---	PASS	C	20112359	C	C	20112359	3	2	82	1	0	0	0	0	1	0	0	0	9138	1299	45	2	1468	2	LZTS1	8	20112359	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	2696517	20112359	126251663	185	31688										
TMEM66	51669	broad.mit.edu	37	chr8	29927377	29927377	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cgaggaccacttataataatAatcagagaaagaggcaaagc	9	7	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:29927377A>T	uc003xhs.2	-	3	665	c.481T>A	c.(481-483)TAT>AAT	p.Y161N	TMEM66_uc003xht.2_Missense_Mutation_p.Y161N|TMEM66_uc003xhu.2_Missense_Mutation_p.Y125N|TMEM66_uc003xhv.2_5'UTR	NM_016127	NP_057211	Q96BY9	TMM66_HUMAN	transmembrane protein 66 precursor	161						integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(542;0.0993)|Kidney(114;0.119)		TTATAATAATAATCAGAGAAA	0.433													34	63	---	---	---	---	PASS	T	29927377	T	T	29927377	3	4	82	1	0	0	0	0	1	0	0	0	16192	362	13	5	554	5	TMEM66	8	29927377	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	9815018	29927377	116436645	186	31689										
WHSC1L1	54904	broad.mit.edu	37	chr8	38189054	38189054	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acccgtttttcatgaacccaCgccctctctggctggttgct	8	15	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:38189054C>A	uc003xli.2	-	5	1478	c.960G>T	c.(958-960)GCG>GCT	p.A320A	WHSC1L1_uc011lbm.1_Silent_p.A320A|WHSC1L1_uc010lwe.2_Silent_p.A320A|WHSC1L1_uc003xlj.2_Silent_p.A320A	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	320	PWWP 1.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			CATGAACCCACGCCCTCTCTG	0.408			T	NUP98	AML								52	39	---	---	---	---	PASS	A	38189054	A	A	38189054	2	1	82	1	0	0	0	0	0	0	0	1	17360	523	19	1		1	WHSC1L1	8	38189054	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	8261677	38189054	108174968	187	31690										
RP1	6101	broad.mit.edu	37	chr8	55542501	55542501	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggggttagaggaagaaggtaAtttaaagaaatttcaaccag	12	3	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:55542501A>C	uc003xsd.1	+	4	6207	c.6059A>C	c.(6058-6060)AAT>ACT	p.N2020T	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	2020					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GAAGAAGGTAATTTAAAGAAA	0.308													21	111	---	---	---	---	PASS	C	55542501	C	C	55542501	3	2	82	1	0	0	0	0	1	0	0	0	13532	101	4	5	6069	5	RP1	8	55542501	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	17353447	55542501	90821521	188	31691										
ARMC1	55156	broad.mit.edu	37	chr8	66525572	66525572	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gctttccttcgacgtgaattCatctcattaaaactatcacc	4	12	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:66525572C>T	uc003xvl.2	-	4	607	c.372G>A	c.(370-372)ATG>ATA	p.M124I	ARMC1_uc011leo.1_Intron	NM_018120	NP_060590	Q9NVT9	ARMC1_HUMAN	armadillo repeat-containing protein	124					metal ion transport		metal ion binding			skin(1)	1			Epithelial(68;0.103)|OV - Ovarian serous cystadenocarcinoma(28;0.235)			GACGTGAATTCATCTCATTAA	0.398													36	134	---	---	---	---	PASS	T	66525572	T	T	66525572	3	4	82	1	0	0	0	0	1	0	0	0	949	826	29	2	492	2	ARMC1	8	66525572	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	10983071	66525572	79838450	189	31692										
CSPP1	79848	broad.mit.edu	37	chr8	68049816	68049816	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggaggtggtgctcctctcagGgatgcaaaaggaaatctgat	14	7	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:68049816G>T	uc003xxi.2	+	17	2074	c.2043G>T	c.(2041-2043)AGG>AGT	p.R681S	CSPP1_uc003xxg.1_Missense_Mutation_p.R673S|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Missense_Mutation_p.R646S|CSPP1_uc003xxk.2_Missense_Mutation_p.R352S	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	681						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			CTCCTCTCAGGGATGCAAAAG	0.328													11	22	---	---	---	---	PASS	T	68049816	T	T	68049816	3	4	82	1	0	0	0	0	1	0	0	0	3962	1223	43	3	2109	3	CSPP1	8	68049816	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1524244	68049816	78314206	190	31693										
ZFHX4	79776	broad.mit.edu	37	chr8	77616580	77616580	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gataccctgcaacgaatgtgCcacttcttttcccagtttac	6	13	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:77616580C>T	uc003yav.2	+	2	644	c.257C>T	c.(256-258)GCC>GTC	p.A86V	ZFHX4_uc003yat.1_Missense_Mutation_p.A86V|ZFHX4_uc003yau.1_Missense_Mutation_p.A86V|ZFHX4_uc003yaw.1_Missense_Mutation_p.A86V	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	86						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AACGAATGTGCCACTTCTTTT	0.507										HNSCC(33;0.089)			30	168	---	---	---	---	PASS	T	77616580	T	T	77616580	3	4	82	1	0	0	0	0	1	0	0	0	17632	739	26	3	259	3	ZFHX4	8	77616580	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	9566764	77616580	68747442	191	31694										
CNBD1	168975	broad.mit.edu	37	chr8	87917320	87917320	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctttttaagccggagtatgaGcaatatcttatcagctcacg	8	9	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:87917320G>A	uc003ydy.2	+	3	218	c.170G>A	c.(169-171)AGC>AAC	p.S57N		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	57										ovary(3)	3						CGGAGTATGAGCAATATCTTA	0.333													5	17	---	---	---	---	PASS	A	87917320	A	A	87917320	3	1	82	1	0	0	0	0	1	0	0	0	3591	971	34	3	180	3	CNBD1	8	87917320	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	10300740	87917320	58446702	192	31695										
VPS13B	157680	broad.mit.edu	37	chr8	100821701	100821701	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	attagaacaattcagtacagGggtcgaactgcttctctcat	8	9	3	1	rs145899918		TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:100821701G>T	uc003yiv.2	+	44	8226	c.8115G>T	c.(8113-8115)AGG>AGT	p.R2705S	VPS13B_uc003yiw.2_Missense_Mutation_p.R2680S	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2705					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TTCAGTACAGGGGTCGAACTG	0.438													48	99	---	---	---	---	PASS	T	100821701	T	T	100821701	3	4	82	1	0	0	0	0	1	0	0	0	17187	1223	43	3	8479	3	VPS13B	8	100821701	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	12904381	100821701	45542321	193	31696										
KLF10	7071	broad.mit.edu	37	chr8	103664217	103664217	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgacttgaagtgtacagtagAtggcgctggtgccatcagat	13	7	1	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:103664217A>C	uc011lhk.1	-	3	497	c.343T>G	c.(343-345)TCT>GCT	p.S115A	KLF10_uc011lhj.1_Missense_Mutation_p.S104A	NM_005655	NP_005646	Q13118	KLF10_HUMAN	Kruppel-like factor 10 isoform a	115					cell proliferation|cell-cell signaling|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|skeletal system development|transforming growth factor beta receptor signaling pathway	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_epithelial(15;5.63e-07)|Lung NSC(17;8.18e-05)|all_lung(17;0.000169)		OV - Ovarian serous cystadenocarcinoma(57;0.000112)|STAD - Stomach adenocarcinoma(118;0.0826)			TGTACAGTAGATGGCGCTGGT	0.463											OREG0018913	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	48	85	---	---	---	---	PASS	C	103664217	C	C	103664217	3	2	82	1	0	0	0	0	1	0	0	0	8338	333	12	5	1107	5	KLF10	8	103664217	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	2842516	103664217	42699805	194	31697										
EIF3H	8667	broad.mit.edu	37	chr8	117669519	117669519	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggagtcagtctgtatgccttTagtgagagagatccttgggc	14	7	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:117669519T>C	uc003yoa.2	-	4	518	c.492A>G	c.(490-492)CTA>CTG	p.L164L	EIF3H_uc003yob.2_Silent_p.L178L	NM_003756	NP_003747	O15372	EIF3H_HUMAN	eukaryotic translation initiation factor 3,	164					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(3)	3	all_cancers(13;3.98e-22)|Lung NSC(37;0.000183)|Ovarian(258;0.0172)					TGTATGCCTTTAGTGAGAGAG	0.413													42	77	---	---	---	---	PASS	C	117669519	C	C	117669519	2	2	82	1	0	0	0	0	0	0	0	1	5018	1741	61	5		5	EIF3H	8	117669519	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	14005302	117669519	28694503	195	31698										
TG	7038	broad.mit.edu	37	chr8	133925455	133925455	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aggacatggtttgggtgctcGgaaggattctaccaagtctt	13	7	2	0	rs141350511		TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:133925455G>C	uc003ytw.2	+	20	4364	c.4323G>C	c.(4321-4323)TCG>TCC	p.S1441S	TG_uc010mdw.2_Silent_p.S200S	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1441					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TTGGGTGCTCGGAAGGATTCT	0.567													14	98	---	---	---	---	PASS	C	133925455	C	C	133925455	2	2	82	1	0	0	0	0	0	0	0	1	15810	1103	39	4		4	TG	8	133925455	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	16255936	133925455	12438567	196	31699										
FAM135B	51059	broad.mit.edu	37	chr8	139149433	139149433	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gttttacacatttcaatcctGgctgaatgaaatggcacata	7	8	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:139149433G>T	uc003yuy.2	-	19	4143	c.3972C>A	c.(3970-3972)GCC>GCA	p.A1324A	FAM135B_uc003yux.2_Silent_p.A1225A|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1324										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)			TTTCAATCCTGGCTGAATGAA	0.388										HNSCC(54;0.14)			28	81	---	---	---	---	PASS	T	139149433	T	T	139149433	2	4	82	1	0	0	0	0	0	0	0	1	5449	1335	47	3		3	FAM135B	8	139149433	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	5223978	139149433	7214589	197	31700										
FAM135B	51059	broad.mit.edu	37	chr8	139190828	139190828	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agtggtcacttgggagtgcaGagtgactgtgtccaggaact	15	7	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:139190828G>T	uc003yuy.2	-	10	1150	c.979C>A	c.(979-981)CTG>ATG	p.L327M	FAM135B_uc003yux.2_Missense_Mutation_p.L228M|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	327										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)			TGGGAGTGCAGAGTGACTGTG	0.517										HNSCC(54;0.14)			29	78	---	---	---	---	PASS	T	139190828	T	T	139190828	3	4	82	1	0	0	0	0	1	0	0	0	5449	933	33	2	3285	2	FAM135B	8	139190828	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	41395	139190828	7173194	198	31701										
COL22A1	169044	broad.mit.edu	37	chr8	139603721	139603721	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gccaactccaggtgcacctgGgtcacctttggctcctcgct	10	16	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:139603721G>T	uc003yvd.2	-	64	5086	c.4639C>A	c.(4639-4641)CCA>ACA	p.P1547T	COL22A1_uc011ljo.1_Missense_Mutation_p.P827T	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1547	Pro-rich.|Gly-rich.|Collagen-like 15.				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)			GGTGCACCTGGGTCACCTTTG	0.602										HNSCC(7;0.00092)			6	32	---	---	---	---	PASS	T	139603721	T	T	139603721	3	4	82	1	0	0	0	0	1	0	0	0	3681	1232	43	3	249	3	COL22A1	8	139603721	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	412893	139603721	6760301	199	31702										
COL22A1	169044	broad.mit.edu	37	chr8	139825186	139825186	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcgagagtctgctcaccggaCccgaggggatatcacaacaa	12	12	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:139825186C>T	uc003yvd.2	-	8	1769	c.1322G>A	c.(1321-1323)GGT>GAT	p.G441D		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	441					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)			GCTCACCGGACCCGAGGGGAT	0.537										HNSCC(7;0.00092)			20	79	---	---	---	---	PASS	T	139825186	T	T	139825186	3	4	82	1	0	0	0	0	1	0	0	0	3681	507	18	3	3790	3	COL22A1	8	139825186	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	221465	139825186	6538836	200	31703										
FAM83H	286077	broad.mit.edu	37	chr8	144809619	144809619	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gctggaccagggggttcaggCgcgagcggaatgagtcctgc	18	10	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:144809619C>A	uc003yzk.2	-	5	2081	c.2012G>T	c.(2011-2013)CGC>CTC	p.R671L	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	671					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	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)			GGGGTTCAGGCGCGAGCGGAA	0.741													3	8	---	---	---	---	PASS	A	144809619	A	A	144809619	3	1	82	1	0	0	0	0	1	0	0	0	5640	768	27	1	1531	1	FAM83H	8	144809619	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	4984433	144809619	1554403	201	31704										
NFKBIL2	4796	broad.mit.edu	37	chr8	145659530	145659530	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tccctgccaggcgcagctccCggagtgctgtgtgcagcttg	14	14	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr8:145659530C>A	uc011llg.1	-	21	3233	c.3218G>T	c.(3217-3219)CGG>CTG	p.R1073L	uc011llh.1_5'Flank	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	1073	LRR 1.				cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			GCGCAGCTCCCGGAGTGCTGT	0.697													11	17	---	---	---	---	PASS	A	145659530	A	A	145659530	3	1	82	1	0	0	0	0	1	0	0	0	10382	652	23	1	942	1	NFKBIL2	8	145659530	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	849911	145659530	704492	202	31705										
MLLT3	4300	broad.mit.edu	37	chr9	20413751	20413751	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggatatattctcctccacatCtgaatcattgggatccacaa	6	11	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr9:20413751C>G	uc003zoe.2	-	5	1352	c.1093G>C	c.(1093-1095)GAT>CAT	p.D365H	MLLT3_uc011lne.1_Missense_Mutation_p.D333H|MLLT3_uc011lnf.1_Missense_Mutation_p.D362H|MLLT3_uc003zof.2_Missense_Mutation_p.D166H	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	365					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		TCCTCCACATCTGAATCATTG	0.358			T	MLL	ALL								49	59	---	---	---	---	PASS	G	20413751	G	G	20413751	3	3	82	1	0	0	0	0	1	0	0	0	9628	913	32	2	641	2	MLLT3	9	20413751	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08		20413751	120799680	203	31706										
LINGO2	158038	broad.mit.edu	37	chr9	27949218	27949218	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttcccagcagcattgctagcGatgcaaacatacatcccgct	7	14	0	0	rs150860330		TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr9:27949218G>T	uc003zqu.1	-	2	1646	c.1452C>A	c.(1450-1452)ATC>ATA	p.I484I	LINGO2_uc010mjf.1_Silent_p.I484I|LINGO2_uc003zqv.1_Silent_p.I484I	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	484	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)		CATTGCTAGCGATGCAAACAT	0.493													27	36	---	---	---	---	PASS	T	27949218	T	T	27949218	2	4	82	1	0	0	0	0	0	0	0	1	8815	1048	37	2		2	LINGO2	9	27949218	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	7535467	27949218	113264213	204	31707										
PRKACG	5568	broad.mit.edu	37	chr9	71628641	71628641	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acatctccccacccggcacgTactccatcaccaggtacagg	7	18	2	0	rs145926335		TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr9:71628641T>C	uc004agy.2	-	1	399	c.368A>G	c.(367-369)TAC>TGC	p.Y123C		NM_002732	NP_002723	P22612	KAPCG_HUMAN	protein kinase, cAMP-dependent, catalytic,	123	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|gluconeogenesis|intracellular protein kinase cascade|male gonad development|nerve growth factor receptor signaling pathway|regulation of insulin secretion|spermatogenesis|transmembrane transport|triglyceride catabolic process|water transport	cytosol|nucleoplasm	ATP binding|cAMP-dependent protein kinase activity			ovary(1)|pancreas(1)|skin(1)	3						ACCCGGCACGTACTCCATCAC	0.592													28	72	---	---	---	---	PASS	C	71628641	C	C	71628641	3	2	82	1	0	0	0	0	1	0	0	0	12499	1638	57	5	691	5	PRKACG	9	71628641	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	43679423	71628641	69584790	205	31708										
GDA	9615	broad.mit.edu	37	chr9	74842916	74842916	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aactgaacgtattccatgaaCgaggagcatccatcgcacac	8	12	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr9:74842916C>T	uc004aiq.2	+	9	1063	c.880C>T	c.(880-882)CGA>TGA	p.R294*	GDA_uc011lse.1_Nonsense_Mutation_p.R220*|GDA_uc011lsf.1_Nonsense_Mutation_p.R220*|GDA_uc004air.2_Nonsense_Mutation_p.R294*|GDA_uc010mow.1_RNA|GDA_uc004ais.2_Nonsense_Mutation_p.R216*|GDA_uc004ait.1_Nonsense_Mutation_p.R220*	NM_004293	NP_004284	Q9Y2T3	GUAD_HUMAN	guanine deaminase	294					nervous system development|purine base metabolic process|purine nucleotide catabolic process	cytosol	guanine deaminase activity|zinc ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		ATTCCATGAACGAGGAGCATC	0.458													22	36	---	---	---	---	PASS	T	74842916	T	T	74842916	4	4	82	1	0	0	0	0	0	1	0	0	6306	528	19	1	914	1	GDA	9	74842916	Nonsense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	3214275	74842916	66370515	206	31709										
C9orf79	286234	broad.mit.edu	37	chr9	90503242	90503242	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctacaccccaggaaaggaggCacacggtgggaagatgtcct	13	11	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr9:90503242C>A	uc004app.3	+	4	3875	c.3840C>A	c.(3838-3840)GGC>GGA	p.G1280G		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	1280						integral to membrane				ovary(3)	3						GGAAAGGAGGCACACGGTGGG	0.567													47	88	---	---	---	---	PASS	A	90503242	A	A	90503242	2	1	82	1	0	0	0	0	0	0	0	1	2497	697	25	3		3	C9orf79	9	90503242	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	15660326	90503242	50710189	207	31710										
NFIL3	4783	broad.mit.edu	37	chr9	94172985	94172985	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	catcaagagacgcctgctccTttttgacggtctgcattttt	8	11	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr9:94172985T>A	uc004arh.2	-	2	427	c.32A>T	c.(31-33)AAG>ATG	p.K11M		NM_005384	NP_005375	Q16649	NFIL3_HUMAN	nuclear factor, interleukin 3 regulated	11					circadian rhythm|immune response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						CGCCTGCTCCTTTTTGACGGT	0.438													67	133	---	---	---	---	PASS	A	94172985	A	A	94172985	3	1	82	1	0	0	0	0	1	0	0	0	10373	1609	56	5	1360	5	NFIL3	9	94172985	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	3669743	94172985	47040446	208	31711										
RNF20	56254	broad.mit.edu	37	chr9	104297792	104297792	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcagctgttgaagattcaggGaccacagtggaaacaattaa	11	7	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr9:104297792G>A	uc004bbn.2	+	2	177	c.87G>A	c.(85-87)GGG>GGA	p.G29G		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	29					histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		AAGATTCAGGGACCACAGTGG	0.463													27	27	---	---	---	---	PASS	A	104297792	A	A	104297792	2	1	82	1	0	0	0	0	0	0	0	1	13473	1161	41	2		2	RNF20	9	104297792	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	10124807	104297792	36915639	209	31712										
PRDM12	59335	broad.mit.edu	37	chr9	133542181	133542181	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	caagaacaacaacctcatgtGggaggtacgcgcgggctggg	15	10	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr9:133542181G>A	uc004bzt.1	+	2	470	c.410G>A	c.(409-411)TGG>TAG	p.W137*		NM_021619	NP_067632	Q9H4Q4	PRD12_HUMAN	PR domain containing 12	137	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_hematologic(13;0.0433)|Acute lymphoblastic leukemia(5;0.0534)		OV - Ovarian serous cystadenocarcinoma(145;0.000344)		AACCTCATGTGGGAGGTACGC	0.706													41	55	---	---	---	---	PASS	A	133542181	A	A	133542181	4	1	82	1	0	0	0	0	0	1	0	0	12453	1357	47	3	416	3	PRDM12	9	133542181	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	29244389	133542181	7671250	210	31713										
ABL1	25	broad.mit.edu	37	chr9	133750280	133750280	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttgctgcccgaaactgcctgGtaggggagaaccacttggtg	14	10	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr9:133750280G>T	uc004bzw.2	+	7	1114	c.1111G>T	c.(1111-1113)GTA>TTA	p.V371L	ABL1_uc004bzv.2_Missense_Mutation_p.V390L	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	371	Protein kinase.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding	p.V371A(1)		haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	AAACTGCCTGGTAGGGGAGAA	0.522			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								52	96	---	---	---	---	PASS	T	133750280	T	T	133750280	3	4	82	1	0	0	0	0	1	0	0	0	92	1261	44	3	1277	3	ABL1	9	133750280	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	208099	133750280	7463151	211	31714										
TTF1	7270	broad.mit.edu	37	chr9	135251316	135251316	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctgacctcagatgatccaccGgccttggcctcccaaagtac	8	16	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr9:135251316G>A	uc004cbl.2	-	11	2756	c.2704C>T	c.(2704-2706)CGG>TGG	p.R902W	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Missense_Mutation_p.R387W	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	902					negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		atgatccaccggccttggcct	0.085													12	13	---	---	---	---	PASS	A	135251316	A	A	135251316	3	1	82	1	0	0	0	0	1	0	0	0	16715	1115	39	1	17	1	TTF1	9	135251316	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1501036	135251316	5962115	212	31715										
TSC1	7248	broad.mit.edu	37	chr9	135772037	135772037	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctctgcttccactactgcccCgggcgctgctgggcctgggg	14	16	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr9:135772037C>T	uc004cca.2	-	23	3314	c.3080G>A	c.(3079-3081)CGG>CAG	p.R1027Q	TSC1_uc004ccb.3_Missense_Mutation_p.R1026Q|TSC1_uc011mcq.1_Missense_Mutation_p.R976Q|TSC1_uc011mcr.1_Missense_Mutation_p.G220R	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	1027					activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding	p.?(1)		lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		ACTACTGCCCCGGGCGCTGCT	0.542			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				17	35	---	---	---	---	PASS	T	135772037	T	T	135772037	3	4	82	1	0	0	0	0	1	0	0	0	16602	652	23	1	418	1	TSC1	9	135772037	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	520721	135772037	5441394	213	31716										
SURF4	6836	broad.mit.edu	37	chr9	136234199	136234199	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aggtagccgcagttccaggtGgtgtcgatgtagtcgcgctg	16	9	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr9:136234199G>A	uc004cdj.2	-	2	301	c.171C>T	c.(169-171)ACC>ACT	p.T57T	SURF4_uc011mda.1_Silent_p.T48T|SURF4_uc010nal.2_Silent_p.T89T|SURF4_uc011mdb.1_Silent_p.T14T|SURF4_uc011mdc.1_Silent_p.T14T|SURF4_uc011mdd.1_Silent_p.T57T	NM_033161	NP_149351	O15260	SURF4_HUMAN	surfeit 4	57						endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;5.32e-07)|Epithelial(140;4.56e-06)|all cancers(34;4.25e-05)		AGTTCCAGGTGGTGTCGATGT	0.617													14	47	---	---	---	---	PASS	A	136234199	A	A	136234199	2	1	82	1	0	0	0	0	0	0	0	1	15402	1335	47	3		3	SURF4	9	136234199	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	462162	136234199	4979232	214	31717										
GTPBP4	23560	broad.mit.edu	37	chr10	1061748	1061748	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	catcactaggaaaagaaagcGggaagactctgctcccccgt	10	12	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:1061748G>A	uc001ift.2	+	16	1735	c.1664G>A	c.(1663-1665)CGG>CAG	p.R555Q	GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Missense_Mutation_p.R439Q|GTPBP4_uc010qae.1_Missense_Mutation_p.R508Q	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	555					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		AAAAGAAAGCGGGAAGACTCT	0.542													36	154	---	---	---	---	PASS	A	1061748	A	A	1061748	3	1	82	1	0	0	0	0	1	0	0	0	6882	1116	39	1	1726	1	GTPBP4	10	1061748	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08		1061748	134472999	215	31718										
WAC	51322	broad.mit.edu	37	chr10	28900818	28900818	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acagtccctatcaaacctttGatcagtactcctcctgtttc	4	14	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:28900818G>A	uc001iuf.2	+	10	1489	c.1404G>A	c.(1402-1404)TTG>TTA	p.L468L	WAC_uc001iud.2_Silent_p.L423L|WAC_uc001iue.2_Silent_p.L158L|WAC_uc001iug.2_Silent_p.L365L|WAC_uc001iuh.2_Silent_p.L420L	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	468					cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						TCAAACCTTTGATCAGTACTC	0.398													80	116	---	---	---	---	PASS	A	28900818	A	A	28900818	2	1	82	1	0	0	0	0	0	0	0	1	17244	1281	45	2		2	WAC	10	28900818	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	27839070	28900818	106633929	216	31719										
ZEB1	6935	broad.mit.edu	37	chr10	31803581	31803581	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aaattcaaatgcactgagtgTggaaaagctttcaaatacaa	7	6	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:31803581T>C	uc001ivs.3	+	6	798	c.735T>C	c.(733-735)TGT>TGC	p.C245C	ZEB1_uc001ivr.3_Silent_p.C27C|ZEB1_uc010qee.1_Silent_p.C27C|ZEB1_uc010qef.1_Silent_p.C27C|ZEB1_uc009xlh.1_RNA|ZEB1_uc009xli.1_RNA|ZEB1_uc009xlj.1_Silent_p.C171C|ZEB1_uc010qeg.1_Silent_p.C104C|ZEB1_uc009xlk.1_Silent_p.C27C|ZEB1_uc001ivt.3_Silent_p.C27C|ZEB1_uc001ivu.3_Silent_p.C246C|ZEB1_uc001ivv.3_Silent_p.C225C|ZEB1_uc010qeh.1_Silent_p.C178C|ZEB1_uc009xll.2_RNA|ZEB1_uc009xlm.1_RNA|ZEB1_uc009xln.1_RNA|ZEB1_uc009xlo.1_Silent_p.C228C|ZEB1_uc009xlp.2_Silent_p.C229C	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	245	C2H2-type 3.				cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				GCACTGAGTGTGGAAAAGCTT	0.328													41	62	---	---	---	---	PASS	C	31803581	C	C	31803581	2	2	82	1	0	0	0	0	0	0	0	1	17620	1702	59	5		5	ZEB1	10	31803581	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	2902763	31803581	103731166	217	31720										
PRKG1	5592	broad.mit.edu	37	chr10	53814260	53814260	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcagacccactatgaaaatgGagaatatattatcaggcaag	8	7	2	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:53814260G>T	uc001jjm.2	+	6	928	c.734G>T	c.(733-735)GGA>GTA	p.G245V	PRKG1_uc001jjn.2_Missense_Mutation_p.G260V|PRKG1_uc001jjo.2_Missense_Mutation_p.G260V|PRKG1_uc009xow.1_5'UTR	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	245	cGMP 2.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		TATGAAAATGGAGAATATATT	0.413													18	51	---	---	---	---	PASS	T	53814260	T	T	53814260	3	4	82	1	0	0	0	0	1	0	0	0	12522	1174	41	2	1071	2	PRKG1	10	53814260	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	22010679	53814260	81720487	218	31721										
PCDH15	65217	broad.mit.edu	37	chr10	55955514	55955514	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gagactgtccgaaatggttgCtcccactggggcagattcca	12	11	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:55955514C>T	uc001jju.1	-	11	1629	c.1234G>A	c.(1234-1236)GCA>ACA	p.A412T	PCDH15_uc010qhq.1_Missense_Mutation_p.A417T|PCDH15_uc010qhr.1_Missense_Mutation_p.A412T|PCDH15_uc010qhs.1_Missense_Mutation_p.A417T|PCDH15_uc010qht.1_Missense_Mutation_p.A412T|PCDH15_uc010qhu.1_Missense_Mutation_p.A412T|PCDH15_uc001jjv.1_Missense_Mutation_p.A390T|PCDH15_uc010qhv.1_Missense_Mutation_p.A412T|PCDH15_uc010qhw.1_Missense_Mutation_p.A375T|PCDH15_uc010qhx.1_Missense_Mutation_p.A412T|PCDH15_uc010qhy.1_Missense_Mutation_p.A417T|PCDH15_uc010qhz.1_Missense_Mutation_p.A412T|PCDH15_uc010qia.1_Missense_Mutation_p.A390T|PCDH15_uc010qib.1_Missense_Mutation_p.A390T|PCDH15_uc001jjw.2_Missense_Mutation_p.A412T	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	412	Cadherin 4.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GAAATGGTTGCTCCCACTGGG	0.388										HNSCC(58;0.16)			25	94	---	---	---	---	PASS	T	55955514	T	T	55955514	3	4	82	1	0	0	0	0	1	0	0	0	11511	797	28	3	6369	3	PCDH15	10	55955514	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	2141254	55955514	79579233	219	31722										
FAM13C	220965	broad.mit.edu	37	chr10	61022302	61022302	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggctccgggcccgcagcttcCggtttcccattttctctggg	12	15	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:61022302C>G	uc001jkn.2	-	11	1262	c.1128G>C	c.(1126-1128)CCG>CCC	p.P376P	FAM13C_uc001jko.2_Intron|FAM13C_uc010qid.1_Silent_p.P293P|FAM13C_uc010qie.1_Silent_p.P293P|FAM13C_uc010qif.1_Silent_p.P398P|FAM13C_uc001jkp.2_Silent_p.P293P	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	376										ovary(2)	2						CCGCAGCTTCCGGTTTCCCAT	0.547													23	62	---	---	---	---	PASS	G	61022302	G	G	61022302	2	3	82	1	0	0	0	0	0	0	0	1	5454	639	23	4		4	FAM13C	10	61022302	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	5066788	61022302	74512445	220	31723										
PIK3AP1	118788	broad.mit.edu	37	chr10	98369517	98369517	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccagtctcctcgtctcagctCcgtcctagggggaatgacac	10	15	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:98369517C>T	uc001kmq.2	-	14	2250	c.2122G>A	c.(2122-2124)GAG>AAG	p.E708K	PIK3AP1_uc001kmo.2_Missense_Mutation_p.E307K|PIK3AP1_uc001kmp.2_Missense_Mutation_p.E530K	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	708						cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		CGTCTCAGCTCCGTCCTAGGG	0.587													77	196	---	---	---	---	PASS	T	98369517	T	T	98369517	3	4	82	1	0	0	0	0	1	0	0	0	11908	864	30	2	311	2	PIK3AP1	10	98369517	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	37347215	98369517	37165230	221	31724										
PPRC1	23082	broad.mit.edu	37	chr10	103898705	103898705	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcaccccagttgacccactgGggcccagtacaggcagcagt	11	15	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:103898705G>A	uc001kum.2	+	4	598	c.559G>A	c.(559-561)GGG>AGG	p.G187R	PPRC1_uc001kun.2_Missense_Mutation_p.G67R|PPRC1_uc010qqj.1_Missense_Mutation_p.G187R|PPRC1_uc009xxa.2_5'Flank	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	187					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		TGACCCACTGGGGCCCAGTAC	0.572													23	45	---	---	---	---	PASS	A	103898705	A	A	103898705	3	1	82	1	0	0	0	0	1	0	0	0	12410	1232	43	3	573	3	PPRC1	10	103898705	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	5529188	103898705	31636042	222	31725										
NOLC1	9221	broad.mit.edu	37	chr10	103921618	103921618	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aagggcatcatccccattccGaagggtcagggaggaggaaa	14	9	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:103921618G>T	uc001kuo.2	+	12	2112	c.1877G>T	c.(1876-1878)CGA>CTA	p.R626L	NOLC1_uc001kup.2_Missense_Mutation_p.R636L|NOLC1_uc001kuq.2_Missense_Mutation_p.R627L|NOLC1_uc009xxb.1_Missense_Mutation_p.R345L|NOLC1_uc001kur.2_Missense_Mutation_p.R345L	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	626					mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		TCCCCATTCCGAAGGGTCAGG	0.483													3	54	---	---	---	---	PASS	T	103921618	T	T	103921618	3	4	82	1	0	0	0	0	1	0	0	0	10529	1058	37	2	1923	2	NOLC1	10	103921618	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	22913	103921618	31613129	223	31726										
ZDHHC6	64429	broad.mit.edu	37	chr10	114202056	114202056	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgaacgaagcatgattttggTaaccacaacagttgttgatc	9	7	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:114202056T>A	uc001kzv.2	-	4	837	c.413A>T	c.(412-414)TAC>TTC	p.Y138F	ZDHHC6_uc001kzw.2_Missense_Mutation_p.Y134F|ZDHHC6_uc009xya.1_Missense_Mutation_p.Y138F	NM_022494	NP_071939	Q9H6R6	ZDHC6_HUMAN	zinc finger, DHHC-type containing 6	138	DHHC-type.					integral to membrane	acyltransferase activity|zinc ion binding				0		Colorectal(252;0.198)		Epithelial(162;0.0291)|all cancers(201;0.117)		ATGATTTTGGTAACCACAACA	0.383													6	28	---	---	---	---	PASS	A	114202056	A	A	114202056	3	1	82	1	0	0	0	0	1	0	0	0	17616	1638	57	5	860	5	ZDHHC6	10	114202056	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	10280438	114202056	21332691	224	31727										
NRAP	4892	broad.mit.edu	37	chr10	115388679	115388679	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gccccagtgcaggttacctcGctgaccagctgtccagcctt	10	16	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:115388679G>C	uc001laj.2	-	20	2306	c.2142C>G	c.(2140-2142)AGC>AGG	p.S714R	NRAP_uc009xyb.2_Missense_Mutation_p.S25R|NRAP_uc001lak.2_Missense_Mutation_p.S679R|NRAP_uc001lal.3_Missense_Mutation_p.S714R	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	714	Nebulin 17.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		AGGTTACCTCGCTGACCAGCT	0.552													22	56	---	---	---	---	PASS	C	115388679	C	C	115388679	3	2	82	1	0	0	0	0	1	0	0	0	10638	1078	38	4	3142	4	NRAP	10	115388679	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1186623	115388679	20146068	225	31728										
HSPA12A	259217	broad.mit.edu	37	chr10	118451897	118451897	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tctcatgaactgcttggccgGctgcttccagatggcaggca	12	12	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:118451897G>A	uc001lct.2	-	6	733	c.628C>T	c.(628-630)CCG>TCG	p.P210S	HSPA12A_uc001lcu.2_Missense_Mutation_p.P127S	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	210							ATP binding			ovary(1)	1				all cancers(201;0.0158)		TGCTTGGCCGGCTGCTTCCAG	0.582													5	252	---	---	---	---	PASS	A	118451897	A	A	118451897	3	1	82	1	0	0	0	0	1	0	0	0	7404	1203	42	3	1427	3	HSPA12A	10	118451897	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	3063218	118451897	17082850	226	31729										
SEC23IP	11196	broad.mit.edu	37	chr10	121658165	121658165	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	actggatcccaagatgtctcGaatgcattttcaccatccat	6	12	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr10:121658165G>A	uc001leu.1	+	2	462	c.390G>A	c.(388-390)TCG>TCA	p.S130S	SEC23IP_uc010qtc.1_Intron	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	130	Interaction with SEC23A.				Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		AAGATGTCTCGAATGCATTTT	0.483													40	177	---	---	---	---	PASS	A	121658165	A	A	121658165	2	1	82	1	0	0	0	0	0	0	0	1	13993	1045	37	2		2	SEC23IP	10	121658165	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	3206268	121658165	13876582	227	31730										
MUC5B	727897	broad.mit.edu	37	chr11	1273591	1273591	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aggggaagtcatctacaataAgaccgaccgagccggctgcc	12	12	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:1273591A>T	uc009ycr.1	+	53	15974	c.15848A>T	c.(15847-15849)AAG>ATG	p.K5283M	MUC5B_uc001ltb.2_Missense_Mutation_p.K4964M	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4961					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ATCTACAATAAGACCGACCGA	0.557													21	69	---	---	---	---	PASS	T	1273591	T	T	1273591	3	4	82	1	0	0	0	0	1	0	0	0	9979	72	3	5	15017	5	MUC5B	11	1273591	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08		1273591	133732925	228	31731										
CTSD	1509	broad.mit.edu	37	chr11	1774798	1774798	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtcaaacacagtgtagtagcGgccgatgaagacgtcgccca	12	11	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:1774798G>A	uc001luc.1	-	9	1307	c.1174C>T	c.(1174-1176)CGC>TGC	p.R392C	uc001lub.1_5'Flank|CTSD_uc009yda.1_RNA	NM_001909	NP_001900	P07339	CATD_HUMAN	cathepsin D preproprotein	392					cell death|proteolysis	extracellular space|lysosome|melanosome	aspartic-type endopeptidase activity				0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GTGTAGTAGCGGCCGATGAAG	0.647													9	53	---	---	---	---	PASS	A	1774798	A	A	1774798	3	1	82	1	0	0	0	0	1	0	0	0	4032	1116	39	1	68	1	CTSD	11	1774798	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	501207	1774798	133231718	229	31732										
OR52R1	119695	broad.mit.edu	37	chr11	4825550	4825550	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctggaaactctccaggcctgGgattccaagcaggatgaagg	13	10	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:4825550G>T	uc010qym.1	-	1	298	c.298C>A	c.(298-300)CCA>ACA	p.P100T		NM_001005177	NP_001005177	Q8NGF1	O52R1_HUMAN	olfactory receptor, family 52, subfamily R,	21	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0184)|all_neural(188;0.0227)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCCAGGCCTGGGATTCCAAGC	0.493													8	49	---	---	---	---	PASS	T	4825550	T	T	4825550	3	4	82	1	0	0	0	0	1	0	0	0	11131	1232	43	3	889	3	OR52R1	11	4825550	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	3050752	4825550	130180966	230	31733										
OR51A7	119687	broad.mit.edu	37	chr11	4929170	4929170	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccatgaagctggcctgctctGacaacaagaccaatgtcatc	8	13	2	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:4929170G>A	uc010qyq.1	+	1	571	c.571G>A	c.(571-573)GAC>AAC	p.D191N		NM_001004749	NP_001004749	Q8NH64	O51A7_HUMAN	olfactory receptor, family 51, subfamily A,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGCCTGCTCTGACAACAAGAC	0.398													26	128	---	---	---	---	PASS	A	4929170	A	A	4929170	3	1	82	1	0	0	0	0	1	0	0	0	11088	1290	45	2	573	2	OR51A7	11	4929170	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	103620	4929170	130077346	231	31734										
OR52J3	119679	broad.mit.edu	37	chr11	5068359	5068359	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtatcaatggtatctatgggCtttttgtagtttctttcttt	8	5	4	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:5068359C>A	uc010qyv.1	+	1	604	c.604C>A	c.(604-606)CTT>ATT	p.L202I		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	202	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		TATCTATGGGCTTTTTGTAGT	0.443													52	122	---	---	---	---	PASS	A	5068359	A	A	5068359	3	1	82	1	0	0	0	0	1	0	0	0	11122	797	28	3	606	3	OR52J3	11	5068359	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	139189	5068359	129938157	232	31735										
HBD	3045	broad.mit.edu	37	chr11	5255338	5255338	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctaaaggcacctagcaccttCttgccatgagccttcacctt	6	15	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:5255338C>A	uc001maf.1	-	2	393	c.198G>T	c.(196-198)AAG>AAT	p.K66N		NM_000519	NP_000510	P02042	HBD_HUMAN	delta globin	66					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;5.69e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTAGCACCTTCTTGCCATGAG	0.542													44	91	---	---	---	---	PASS	A	5255338	A	A	5255338	3	1	82	1	0	0	0	0	1	0	0	0	6979	912	32	2	253	2	HBD	11	5255338	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	186979	5255338	129751178	233	31736										
HBE1	3046	broad.mit.edu	37	chr11	5289800	5289800	+	Missense_Mutation	SNP	G	T	T													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cttgccaaagtgagtagccaGaataatcaccatcacgttac							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:5289800G>T	uc001mal.1	-	3	596	c.343C>A	c.(343-345)CTG>ATG	p.L115M	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Missense_Mutation_p.L115M	NM_005330	NP_005321	P02100	HBE_HUMAN	epsilon globin	115					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.34e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGAGTAGCCAGAATAATCACC	0.483													40	186	---	---	---	---	PASS	T	5289800	T	T	5289800	3	4	82	1	0	0	0	0	1	0	0	0	6980	933	33	2	104	2	HBE1	11	5289800	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	34462	5289800	129716716	234	31737	631	2								
HBE1	3046	broad.mit.edu	37	chr11	5289801	5289801	+	Silent	SNP	A	G	G													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttgccaaagtgagtagccagAataatcaccatcacgttacc							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:5289801A>G	uc001mal.1	-	3	595	c.342T>C	c.(340-342)ATT>ATC	p.I114I	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Silent_p.I114I	NM_005330	NP_005321	P02100	HBE_HUMAN	epsilon globin	114					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.34e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAGTAGCCAGAATAATCACCA	0.478													41	187	---	---	---	---	PASS	G	5289801	G	G	5289801	2	3	82	1	0	0	0	0	0	0	0	1	6980	242	9	5		5	HBE1	11	5289801	Silent	SNP	A	TCGA-39-5016-01A-01D-1441-08	1	5289801	129716715	235	31738	631	2								
NLRP14	338323	broad.mit.edu	37	chr11	7059848	7059848	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	catcatcatcttctttctttCctgattttgggctgctattg	6	10	5	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:7059848C>T	uc001mfb.1	+	2	354	c.31C>T	c.(31-33)CCT>TCT	p.P11S		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	11	DAPIN.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		TTCTTTCTTTCCTGATTTTGG	0.398													40	125	---	---	---	---	PASS	T	7059848	T	T	7059848	3	4	82	1	0	0	0	0	1	0	0	0	10476	855	30	2	33	2	NLRP14	11	7059848	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	1770047	7059848	127946668	236	31739										
PLEKHA7	144100	broad.mit.edu	37	chr11	16812380	16812380	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tctggtacctgctctcagggCccacaagtcctagggagggc	13	13	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:16812380C>A	uc001mmo.2	-	21	3032	c.3017G>T	c.(3016-3018)GGC>GTC	p.G1006V	PLEKHA7_uc010rcu.1_Missense_Mutation_p.G1007V|PLEKHA7_uc001mmm.2_Missense_Mutation_p.G109V|PLEKHA7_uc010rcv.1_Missense_Mutation_p.G581V|PLEKHA7_uc001mmn.2_Missense_Mutation_p.G715V	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	1006					epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3						GCTCTCAGGGCCCACAAGTCC	0.642													3	13	---	---	---	---	PASS	A	16812380	A	A	16812380	3	1	82	1	0	0	0	0	1	0	0	0	12061	739	26	3	360	3	PLEKHA7	11	16812380	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	9752532	16812380	118194136	237	31740										
KCNA4	3739	broad.mit.edu	37	chr11	30033008	30033008	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aaaatggagacaatgtcaatGatgttcatgatgtttttgaa	9	3	2	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:30033008G>A	uc001msk.2	-	2	2370	c.1218C>T	c.(1216-1218)ATC>ATT	p.I406I		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	406	Helical; Name=Segment S3; (Potential).					voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CAATGTCAATGATGTTCATGA	0.488													35	66	---	---	---	---	PASS	A	30033008	A	A	30033008	2	1	82	1	0	0	0	0	0	0	0	1	8005	1280	45	2		2	KCNA4	11	30033008	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	13220628	30033008	104973508	238	31741										
C11orf74	119710	broad.mit.edu	37	chr11	36680701	36680701	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcaagcagcagaagagaaagGacaccagcccagacttagag	12	10	0	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:36680701G>A	uc001mwy.1	+	6	704	c.631G>A	c.(631-633)GAC>AAC	p.D211N	C11orf74_uc010rfd.1_RNA|C11orf74_uc001mww.1_Missense_Mutation_p.D137N|C11orf74_uc001mwx.1_Intron|C11orf74_uc001mwz.1_Missense_Mutation_p.D137N|C11orf74_uc010rfe.1_Intron	NM_138787	NP_620142	Q86VG3	CK074_HUMAN	hypothetical protein LOC119710	211											0	all_lung(20;0.226)	all_hematologic(20;0.0118)				GAAGAGAAAGGACACCAGCCC	0.383													30	52	---	---	---	---	PASS	A	36680701	A	A	36680701	3	1	82	1	0	0	0	0	1	0	0	0	1662	1174	41	2	649	2	C11orf74	11	36680701	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	6647693	36680701	98325815	239	31742										
HSD17B12	51144	broad.mit.edu	37	chr11	43772487	43772487	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	caggtagtactgatggaattGgaaaatcatatgcagaagag	12	4	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:43772487G>T	uc001mxq.3	+	2	422	c.187G>T	c.(187-189)GGA>TGA	p.G63*	HSD17B12_uc001mxp.2_RNA	NM_016142	NP_057226	Q53GQ0	DHB12_HUMAN	hydroxysteroid (17-beta) dehydrogenase 12	63	NADP (By similarity).				long-chain fatty-acyl-CoA biosynthetic process|steroid biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	estradiol 17-beta-dehydrogenase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity				0						TGATGGAATTGGAAAATCATA	0.313													16	81	---	---	---	---	PASS	T	43772487	T	T	43772487	4	4	82	1	0	0	0	0	0	1	0	0	7381	1349	47	3	193	3	HSD17B12	11	43772487	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	7091786	43772487	91234029	240	31743										
ACCSL	390110	broad.mit.edu	37	chr11	44076801	44076801	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tttacatgctgtctgtgtttGatgaatccatcacattccac	6	10	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:44076801G>C	uc001mxw.1	+	9	1155	c.1099G>C	c.(1099-1101)GAT>CAT	p.D367H	ACCSL_uc009ykr.2_Missense_Mutation_p.D186H	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	367							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						GTCTGTGTTTGATGAATCCAT	0.418													8	75	---	---	---	---	PASS	C	44076801	C	C	44076801	3	2	82	1	0	0	0	0	1	0	0	0	134	1290	45	2	1133	2	ACCSL	11	44076801	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	304314	44076801	90929715	241	31744										
SYT13	57586	broad.mit.edu	37	chr11	45265772	45265772	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cttccagctccacactggagGcctgcagcaggtcgtcaggc	12	15	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:45265772G>A	uc001myq.2	-	6	1238	c.1112C>T	c.(1111-1113)GCC>GTC	p.A371V	SYT13_uc009yku.1_Missense_Mutation_p.A227V	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	371	C2 2.|Cytoplasmic (Potential).					transport vesicle				ovary(1)	1						CACACTGGAGGCCTGCAGCAG	0.597													20	34	---	---	---	---	PASS	A	45265772	A	A	45265772	3	1	82	1	0	0	0	0	1	0	0	0	15466	1203	42	3	172	3	SYT13	11	45265772	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1188971	45265772	89740744	242	31745										
PHF21A	51317	broad.mit.edu	37	chr11	46001392	46001392	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgctgctgttgttgtagttgCtgtagtggttgctgctgtgc	15	6	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:46001392C>A	uc001ncc.3	-	6	903	c.279G>T	c.(277-279)CAG>CAT	p.Q93H	PHF21A_uc001ncb.3_Missense_Mutation_p.Q93H|PHF21A_uc009ykx.2_Missense_Mutation_p.Q93H|PHF21A_uc001nce.2_Missense_Mutation_p.Q93H	NM_001101802	NP_001095272	Q96BD5	PF21A_HUMAN	BRAF35/HDAC2 complex isoform a	93	Gln-rich.				blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						gttgtagttgctgtagtggtt	0.259													12	41	---	---	---	---	PASS	A	46001392	A	A	46001392	3	1	82	1	0	0	0	0	1	0	0	0	11833	796	28	3	1845	3	PHF21A	11	46001392	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	735620	46001392	89005124	243	31746										
CHRM4	1132	broad.mit.edu	37	chr11	46408056	46408056	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtgggatgatgacgtgaccaGgcgcacggactgattgcccg	16	10	0	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:46408056G>A	uc001nct.1	-	1	52	c.52C>T	c.(52-54)CTG>TTG	p.L18L		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	18	Extracellular (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	GACGTGACCAGGCGCACGGAC	0.582													51	101	---	---	---	---	PASS	A	46408056	A	A	46408056	2	1	82	1	0	0	0	0	0	0	0	1	3379	991	35	3		3	CHRM4	11	46408056	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	406664	46408056	88598460	244	31747										
OR4C12	283093	broad.mit.edu	37	chr11	50003423	50003423	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aagataaggaagtttaataaGcagataaacccactgttcac	7	7	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:50003423G>T	uc010ria.1	-	1	615	c.615C>A	c.(613-615)TGC>TGA	p.C205*		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	205	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						AGTTTAATAAGCAGATAAACC	0.413													28	73	---	---	---	---	PASS	T	50003423	T	T	50003423	4	4	82	1	0	0	0	0	0	1	0	0	11046	963	34	3	318	3	OR4C12	11	50003423	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	3595367	50003423	85003093	245	31748										
OR4A5	81318	broad.mit.edu	37	chr11	51411541	51411541	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctcatctctgaatttctcaaCgtatatattaaaggactcag	5	9	4	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:51411541C>G	uc001nhi.1	-	1	855	c.855G>C	c.(853-855)ACG>ACC	p.T285T		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				AATTTCTCAACGTATATATTA	0.328													25	40	---	---	---	---	PASS	G	51411541	G	G	51411541	2	3	82	1	0	0	0	0	0	0	0	1	11043	523	19	4		4	OR4A5	11	51411541	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	1408118	51411541	83594975	246	31749										
OR4A16	81327	broad.mit.edu	37	chr11	55111131	55111131	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggccatgattggaggttttgTgcactctgtggttcaaattg	13	6	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:55111131T>A	uc010rie.1	+	1	455	c.455T>A	c.(454-456)GTG>GAG	p.V152E		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						GGAGGTTTTGTGCACTCTGTG	0.458													45	91	---	---	---	---	PASS	A	55111131	A	A	55111131	3	1	82	1	0	0	0	0	1	0	0	0	11041	1696	59	5	457	5	OR4A16	11	55111131	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	3699590	55111131	79895385	247	31750										
OR4C11	219429	broad.mit.edu	37	chr11	55371078	55371078	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggggaaagtggtcggggggcGtgtatatatgaatatacatg	17	3	0	1	rs140582621	byFrequency	TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:55371078G>T	uc010rii.1	-	1	772	c.772C>A	c.(772-774)CGC>AGC	p.R258S		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	258	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTCGGGGGGCGTGTATATATG	0.443													18	103	---	---	---	---	PASS	T	55371078	T	T	55371078	3	4	82	1	0	0	0	0	1	0	0	0	11045	1145	40	1	162	1	OR4C11	11	55371078	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	259947	55371078	79635438	248	31751										
OR4P4	81300	broad.mit.edu	37	chr11	55406052	55406052	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tccgacctttgctacacatcCacagtgacccccaaattaat	4	15	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:55406052C>A	uc010rij.1	+	1	219	c.219C>A	c.(217-219)TCC>TCA	p.S73S		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	73	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						GCTACACATCCACAGTGACCC	0.403													39	143	---	---	---	---	PASS	A	55406052	A	A	55406052	2	1	82	1	0	0	0	0	0	0	0	1	11080	581	21	3		3	OR4P4	11	55406052	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	34974	55406052	79600464	249	31752										
OR4C6	219432	broad.mit.edu	37	chr11	55432749	55432749	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcttgtcatgtatgtagccaCagtgctggaaaatctactta	8	8	3	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:55432749C>A	uc001nht.3	+	3	372	c.107C>A	c.(106-108)ACA>AAA	p.T36K	OR4C6_uc010rik.1_Missense_Mutation_p.T36K	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TATGTAGCCACAGTGCTGGAA	0.383													96	166	---	---	---	---	PASS	A	55432749	A	A	55432749	3	1	82	1	0	0	0	0	1	0	0	0	11052	478	17	3	109	3	OR4C6	11	55432749	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	26697	55432749	79573767	250	31753										
OR5F1	338674	broad.mit.edu	37	chr11	55761812	55761812	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agaagtacatctgtaggaagCagccagcaaaagagatggtt	12	6	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:55761812C>A	uc010riv.1	-	1	290	c.290G>T	c.(289-291)TGC>TTC	p.C97F		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	97	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					CTGTAGGAAGCAGCCAGCAAA	0.473													24	58	---	---	---	---	PASS	A	55761812	A	A	55761812	3	1	82	1	0	0	0	0	1	0	0	0	11158	710	25	3	657	3	OR5F1	11	55761812	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	329063	55761812	79244704	251	31754										
CTNND1	1500	broad.mit.edu	37	chr11	57571193	57571193	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtgatcattcctcattctggTtgggagcgggaacctaatga	12	8	3	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:57571193T>G	uc001nmc.3	+	8	2092	c.1521T>G	c.(1519-1521)GGT>GGG	p.G507G	CTNND1_uc001nlh.1_Silent_p.G507G|CTNND1_uc001nlu.3_Silent_p.G406G|CTNND1_uc001nlt.3_Silent_p.G406G|CTNND1_uc001nls.3_Silent_p.G406G|CTNND1_uc001nlw.3_Silent_p.G406G|CTNND1_uc001nmf.3_Silent_p.G507G|CTNND1_uc001nmd.3_Silent_p.G453G|CTNND1_uc001nlk.3_Silent_p.G453G|CTNND1_uc001nme.3_Silent_p.G507G|CTNND1_uc001nll.3_Silent_p.G453G|CTNND1_uc001nmg.3_Silent_p.G453G|CTNND1_uc001nlj.3_Silent_p.G453G|CTNND1_uc001nlr.3_Silent_p.G453G|CTNND1_uc001nlp.3_Silent_p.G453G|CTNND1_uc001nlx.3_Silent_p.G184G|CTNND1_uc001nlz.3_Silent_p.G184G|CTNND1_uc009ymn.2_Silent_p.G184G|CTNND1_uc001nlm.3_Silent_p.G507G|CTNND1_uc001nly.3_Silent_p.G184G|CTNND1_uc001nmb.3_Silent_p.G184G|CTNND1_uc001nma.3_Silent_p.G184G|CTNND1_uc001nmi.3_Silent_p.G406G|CTNND1_uc001nmh.3_Silent_p.G507G|CTNND1_uc001nlq.3_Silent_p.G406G|CTNND1_uc001nln.3_Silent_p.G507G|CTNND1_uc001nli.3_Silent_p.G507G|CTNND1_uc001nlo.3_Silent_p.G406G|CTNND1_uc001nlv.3_Silent_p.G406G	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	507	ARM 4.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				CTCATTCTGGTTGGGAGCGGG	0.488													9	29	---	---	---	---	PASS	G	57571193	G	G	57571193	2	3	82	1	0	0	0	0	0	0	0	1	4019	1712	60	5		5	CTNND1	11	57571193	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	1809381	57571193	77435323	252	31755										
VWCE	220001	broad.mit.edu	37	chr11	61048362	61048362	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gagagggccctgctgccagtCggggggactcagggcccctg	18	13	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:61048362C>A	uc001nra.2	-	8	1412	c.1133G>T	c.(1132-1134)CGA>CTA	p.R378L	VWCE_uc001nrb.2_RNA	NM_152718	NP_689931	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains	378						extracellular region	calcium ion binding			ovary(1)	1						TGCTGCCAGTCGGGGGGACTC	0.667													4	10	---	---	---	---	PASS	A	61048362	A	A	61048362	3	1	82	1	0	0	0	0	1	0	0	0	17242	884	31	2	1786	2	VWCE	11	61048362	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	3477169	61048362	73958154	253	31756										
SLC22A10	387775	broad.mit.edu	37	chr11	63065100	63065100	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atctggtgcccttagtattgGacagataatcctgggaggct	12	8	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:63065100G>T	uc009yor.2	+	4	939	c.731G>T	c.(730-732)GGA>GTA	p.G244V	SLC22A10_uc010rmo.1_RNA|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_Intron	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	244	Helical; (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						CTTAGTATTGGACAGATAATC	0.453													36	97	---	---	---	---	PASS	T	63065100	T	T	63065100	3	4	82	1	0	0	0	0	1	0	0	0	14441	1174	41	2	745	2	SLC22A10	11	63065100	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	2016738	63065100	71941416	254	31757										
CATSPER1	117144	broad.mit.edu	37	chr11	65786374	65786374	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	actcgccacctctttgggctCtggatgtagagaaagaaggg	13	9	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:65786374C>A	uc001ogt.2	-	10	2264	c.2126_splice	c.e10-1	p.E709_splice		NM_053054	NP_444282	Q8NEC5	CTSR1_HUMAN	sperm-associated cation channel 1						cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	protein binding			ovary(2)	2						TCTTTGGGCTCTGGATGTAGA	0.537													17	38	---	---	---	---	PASS	A	65786374	A	A	65786374	5	1	82	1	0	0	0	0	0	0	1	0	2687	927	32	2	229	2	CATSPER1	11	65786374	Splice_Site	SNP	C	TCGA-39-5016-01A-01D-1441-08	2721274	65786374	69220142	255	31758										
TMEM151A	256472	broad.mit.edu	37	chr11	66062539	66062539	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gagtcgctcatggtcttcgcCgacccccgcagcccgccctg	11	19	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:66062539C>A	uc001ohl.2	+	2	934	c.822C>A	c.(820-822)GCC>GCA	p.A274A		NM_153266	NP_694998	Q8N4L1	T151A_HUMAN	transmembrane protein 151A	274						integral to membrane				central_nervous_system(1)	1						TGGTCTTCGCCGACCCCCGCA	0.697													10	21	---	---	---	---	PASS	A	66062539	A	A	66062539	2	1	82	1	0	0	0	0	0	0	0	1	16067	639	23	1		1	TMEM151A	11	66062539	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	276165	66062539	68943977	256	31759										
GRM5	2915	broad.mit.edu	37	chr11	88780992	88780992	+	Missense_Mutation	SNP	G	A	A													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	actggactgtgcactcccacGgacatcttctttcaaaagta							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:88780992G>A	uc001pcq.2	-	1	249	c.49C>T	c.(49-51)CGT>TGT	p.R17C	GRM5_uc009yvm.2_Missense_Mutation_p.R17C|GRM5_uc009yvn.1_Missense_Mutation_p.R17C	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	17					activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	GCACTCCCACGGACATCTTCT	0.473													18	67	---	---	---	---	PASS	A	88780992	A	A	88780992	3	1	82	1	0	0	0	0	1	0	0	0	6800	1116	39	1	3625	1	GRM5	11	88780992	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	22718453	88780992	46225524	257	31760	632	2								
GRM5	2915	broad.mit.edu	37	chr11	88780993	88780993	+	Silent	SNP	G	T	T													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctggactgtgcactcccacgGacatcttctttcaaaagtaa							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:88780993G>T	uc001pcq.2	-	1	248	c.48C>A	c.(46-48)GTC>GTA	p.V16V	GRM5_uc009yvm.2_Silent_p.V16V|GRM5_uc009yvn.1_Silent_p.V16V	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	16					activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CACTCCCACGGACATCTTCTT	0.473													18	66	---	---	---	---	PASS	T	88780993	T	T	88780993	2	4	82	1	0	0	0	0	0	0	0	1	6800	1161	41	2		2	GRM5	11	88780993	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	1	88780993	46225523	258	31761	632	2								
ANKK1	255239	broad.mit.edu	37	chr11	113266892	113266892	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gaggcccagcagatggtggaCctgatgaaacgctgctggga	16	9	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:113266892C>T	uc001pny.2	+	5	880	c.786C>T	c.(784-786)GAC>GAT	p.D262D		NM_178510	NP_848605	Q8NFD2	ANKK1_HUMAN	ankyrin repeat and kinase domain containing 1	262	Protein kinase.						ATP binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|ovary(1)|breast(1)	8		all_cancers(61;1.53e-11)|all_epithelial(67;3e-06)|Melanoma(852;4.04e-05)|all_hematologic(158;0.000315)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0461)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Prostate(24;0.194)		BRCA - Breast invasive adenocarcinoma(274;4.82e-06)|Epithelial(105;5.41e-05)|all cancers(92;0.000442)|OV - Ovarian serous cystadenocarcinoma(223;0.238)		AGATGGTGGACCTGATGAAAC	0.597													20	76	---	---	---	---	PASS	T	113266892	T	T	113266892	2	4	82	1	0	0	0	0	0	0	0	1	631	506	18	3		3	ANKK1	11	113266892	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	24485899	113266892	21739624	259	31762										
FAM55D	54827	broad.mit.edu	37	chr11	114442168	114442168	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gctggtgttgcaattttccaGattcatgcagatccactgac	9	10	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:114442168G>A	uc001ppc.2	-	6	1308	c.1127C>T	c.(1126-1128)TCT>TTT	p.S376F	FAM55D_uc001ppd.2_Missense_Mutation_p.S92F	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	376						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		CAATTTTCCAGATTCATGCAG	0.373													69	224	---	---	---	---	PASS	A	114442168	A	A	114442168	3	1	82	1	0	0	0	0	1	0	0	0	5587	942	33	2	511	2	FAM55D	11	114442168	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1175276	114442168	20564348	260	31763										
ABCG4	64137	broad.mit.edu	37	chr11	119025563	119025563	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tctggcgggcagaggaagcgTctggccatcgccctggagct	16	12	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:119025563T>C	uc001pvs.2	+	6	960	c.624T>C	c.(622-624)CGT>CGC	p.R208R	ABCG4_uc009zar.2_Silent_p.R208R	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	208	Cytoplasmic (Potential).|ABC transporter.				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		AGAGGAAGCGTCTGGCCATCG	0.627													43	114	---	---	---	---	PASS	C	119025563	C	C	119025563	2	2	82	1	0	0	0	0	0	0	0	1	70	1654	58	5		5	ABCG4	11	119025563	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	4583395	119025563	15980953	261	31764										
OR4D5	219875	broad.mit.edu	37	chr11	123810676	123810676	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gatcttcctgctgactgtcaTggcgtatgaccgctacattg	10	11	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:123810676T>C	uc001pzk.1	+	1	353	c.353T>C	c.(352-354)ATG>ACG	p.M118T		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	118	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CTGACTGTCATGGCGTATGAC	0.517													26	94	---	---	---	---	PASS	C	123810676	C	C	123810676	3	2	82	1	0	0	0	0	1	0	0	0	11057	1464	51	5	355	5	OR4D5	11	123810676	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	4785113	123810676	11195840	262	31765										
OR10G9	219870	broad.mit.edu	37	chr11	123893785	123893785	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccccatgccccagggctggaCgccccactctttggaatctt	9	17	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:123893785C>A	uc010sad.1	+	1	66	c.66C>A	c.(64-66)GAC>GAA	p.D22E		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CAGGGCTGGACGCCCCACTCT	0.587													55	173	---	---	---	---	PASS	A	123893785	A	A	123893785	3	1	82	1	0	0	0	0	1	0	0	0	10904	535	19	1	68	1	OR10G9	11	123893785	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	83109	123893785	11112731	263	31766										
ROBO4	54538	broad.mit.edu	37	chr11	124761273	124761273	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gagtcccctgcggctgcagaGgctgtctgagctggaacagg	16	11	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:124761273G>A	uc001qbg.2	-	12	2010	c.1870C>T	c.(1870-1872)CTC>TTC	p.L624F	ROBO4_uc010sas.1_Missense_Mutation_p.L479F|ROBO4_uc001qbh.2_Missense_Mutation_p.L514F|ROBO4_uc001qbi.2_Missense_Mutation_p.L182F|ROBO4_uc010sat.1_Missense_Mutation_p.L182F	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	624					angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		CGGCTGCAGAGGCTGTCTGAG	0.642													15	18	---	---	---	---	PASS	A	124761273	A	A	124761273	3	1	82	1	0	0	0	0	1	0	0	0	13516	1000	35	3	1181	3	ROBO4	11	124761273	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	867488	124761273	10245243	264	31767										
ROBO4	54538	broad.mit.edu	37	chr11	124765457	124765457	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cttggccccagtggaggcctCcaagctctgcgctctgccag	12	16	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:124765457C>A	uc001qbg.2	-	6	1072	c.932G>T	c.(931-933)GGA>GTA	p.G311V	ROBO4_uc010sas.1_Missense_Mutation_p.G166V|ROBO4_uc001qbh.2_Missense_Mutation_p.G201V|ROBO4_uc001qbi.2_5'Flank|ROBO4_uc010sat.1_5'Flank	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	311	Fibronectin type-III 1.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		GTGGAGGCCTCCAAGCTCTGC	0.652													28	69	---	---	---	---	PASS	A	124765457	A	A	124765457	3	1	82	1	0	0	0	0	1	0	0	0	13516	855	30	2	2143	2	ROBO4	11	124765457	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	4184	124765457	10241059	265	31768										
IGSF9B	22997	broad.mit.edu	37	chr11	133790636	133790636	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcaggggcggggacgacatgAcggagctcagggggctgccc	20	11	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:133790636A>T	uc001qgx.3	-	18	3215	c.2984T>A	c.(2983-2985)GTC>GAC	p.V995D		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	995	Pro-rich.|Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		GGACGACATGACGGAGCTCAG	0.652													10	17	---	---	---	---	PASS	T	133790636	T	T	133790636	3	4	82	1	0	0	0	0	1	0	0	0	7606	275	10	5	1073	5	IGSF9B	11	133790636	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	9025179	133790636	1215880	266	31769										
IGSF9B	22997	broad.mit.edu	37	chr11	133790808	133790808	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttccaggccaccggggccctCcagcccgcggggctggaacc	14	18	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:133790808C>T	uc001qgx.3	-	18	3043	c.2812G>A	c.(2812-2814)GAG>AAG	p.E938K		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	938	Pro-rich.|Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		CCGGGGCCCTCCAGCCCGCGG	0.692													20	24	---	---	---	---	PASS	T	133790808	T	T	133790808	3	4	82	1	0	0	0	0	1	0	0	0	7606	864	30	2	1245	2	IGSF9B	11	133790808	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	172	133790808	1215708	267	31770										
GLB1L3	112937	broad.mit.edu	37	chr11	134180992	134180992	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cgagtacccaaacttcctccCaaggctgtgtatccccccgt	7	17	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr11:134180992C>A	uc009zdf.2	+	13	1575	c.1215C>A	c.(1213-1215)CCC>CCA	p.P405P	GLB1L3_uc010scu.1_3'UTR|GLB1L3_uc001qho.3_RNA	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3	405					carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		AACTTCCTCCCAAGGCTGTGT	0.612													73	239	---	---	---	---	PASS	A	134180992	A	A	134180992	2	1	82	1	0	0	0	0	0	0	0	1	6430	581	21	3		3	GLB1L3	11	134180992	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	390184	134180992	825524	268	31771										
NINJ2	4815	broad.mit.edu	37	chr12	675285	675285	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agcatgctctccgccacgctCttcttggtggcgtaatggtt	11	12	3	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:675285C>T	uc001qil.2	-	2	322	c.231G>A	c.(229-231)AAG>AAA	p.K77K	NINJ2_uc010sdr.1_5'UTR|NINJ2_uc010sds.1_Silent_p.K77K	NM_016533	NP_057617	Q9NZG7	NINJ2_HUMAN	ninjurin 2	31	Extracellular (Potential).				nervous system development|neuron cell-cell adhesion|tissue regeneration	integral to plasma membrane				ovary(2)	2	all_cancers(10;0.0101)|all_epithelial(11;0.0174)|Ovarian(42;0.0512)|all_lung(10;0.103)|Lung NSC(10;0.185)		OV - Ovarian serous cystadenocarcinoma(31;3.26e-05)|BRCA - Breast invasive adenocarcinoma(9;0.0508)			CCGCCACGCTCTTCTTGGTGG	0.602													9	41	---	---	---	---	PASS	T	675285	T	T	675285	2	4	82	1	0	0	0	0	0	0	0	1	10419	912	32	2		2	NINJ2	12	675285	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08		675285	133176610	269	31772										
CLEC4C	170482	broad.mit.edu	37	chr12	7894077	7894077	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atgatactgttgatactctcGtaacttggacagcctcttga	8	9	2	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:7894077G>A	uc001qtg.1	-	3	349	c.175C>T	c.(175-177)CGA>TGA	p.R59*	CLEC4C_uc001qth.1_Nonsense_Mutation_p.R59*|CLEC4C_uc001qti.1_Nonsense_Mutation_p.R28*	NM_130441	NP_569708	Q8WTT0	CLC4C_HUMAN	C-type lectin domain family 4, member C isoform	59	Extracellular (Potential).				innate immune response	integral to membrane	sugar binding			ovary(2)|skin(1)	3				Kidney(36;0.0915)		TGATACTCTCGTAACTTGGAC	0.423													33	106	---	---	---	---	PASS	A	7894077	A	A	7894077	4	1	82	1	0	0	0	0	0	1	0	0	3513	1153	40	1	482	1	CLEC4C	12	7894077	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	7218792	7894077	125957818	270	31773										
SLC2A14	144195	broad.mit.edu	37	chr12	7984328	7984328	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggaggggcatttgccttgtcCgtcaaagttttattgataaa	11	6	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:7984328C>T	uc001qtk.2	-	9	1006	c.213G>A	c.(211-213)ACG>ACA	p.T71T	SLC2A14_uc001qtl.2_Silent_p.T48T|SLC2A14_uc001qtm.2_Silent_p.T48T|SLC2A14_uc010sgg.1_Intron|SLC2A14_uc001qtn.2_Silent_p.T71T|SLC2A14_uc001qto.2_Intron|SLC2A14_uc010sgh.1_Silent_p.T86T	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14	71	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		TTGCCTTGTCCGTCAAAGTTT	0.428											OREG0021654	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	74	---	---	---	---	PASS	T	7984328	T	T	7984328	2	4	82	1	0	0	0	0	0	0	0	1	14543	639	23	1		1	SLC2A14	12	7984328	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	90251	7984328	125867567	271	31774										
SLCO1B3	28234	broad.mit.edu	37	chr12	21028332	21028332	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aaaatttcactatcattgcaTgtgctgaaaacaaatgatga	6	6	2	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:21028332T>C	uc001rek.2	+	8	1017	c.891T>C	c.(889-891)CAT>CAC	p.H297H	SLCO1B3_uc001rel.2_Silent_p.H297H|SLCO1B3_uc010sil.1_Silent_p.H297H|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Silent_p.H122H	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	297	Cytoplasmic (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TATCATTGCATGTGCTGAAAA	0.308													13	73	---	---	---	---	PASS	C	21028332	C	C	21028332	2	2	82	1	0	0	0	0	0	0	0	1	14724	1461	51	5		5	SLCO1B3	12	21028332	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	13044004	21028332	112823563	272	31775										
SLCO1B1	10599	broad.mit.edu	37	chr12	21331510	21331510	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acactctcttatctacatagGttgtttaaaggaatctgggt	8	7	3	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:21331510G>T	uc001req.3	+	6	586	c.482G>T	c.(481-483)GGT>GTT	p.G161V		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	161	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	ATCTACATAGGTTGTTTAAAG	0.313													28	145	---	---	---	---	PASS	T	21331510	T	T	21331510	3	4	82	1	0	0	0	0	1	0	0	0	14723	1275	44	3	500	3	SLCO1B1	12	21331510	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	303178	21331510	112520385	273	31776										
FAR2	55711	broad.mit.edu	37	chr12	29469880	29469880	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acatcacagtactggaatgcGgtcagccaccgggcccctgc	11	15	2	0	rs142086556	byFrequency	TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:29469880G>A	uc001ris.3	+	9	1209	c.1062G>A	c.(1060-1062)GCG>GCA	p.A354A	FAR2_uc001rit.2_Silent_p.A354A|FAR2_uc009zjm.2_Silent_p.A257A|uc001riu.1_Intron	NM_018099	NP_060569	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	354					ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0						ACTGGAATGCGGTCAGCCACC	0.493													46	267	---	---	---	---	PASS	A	29469880	A	A	29469880	2	1	82	1	0	0	0	0	0	0	0	1	5675	1103	39	1		1	FAR2	12	29469880	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	8138370	29469880	104382015	274	31777										
CAPRIN2	65981	broad.mit.edu	37	chr12	30867967	30867967	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tacatcctctaacagatcccCggctattgacaaatggctga	7	12	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:30867967C>T	uc001rji.1	-	15	3327	c.2576G>A	c.(2575-2577)CGG>CAG	p.R859Q	CAPRIN2_uc001rjf.1_Missense_Mutation_p.R655Q|CAPRIN2_uc001rjg.1_Missense_Mutation_p.R526Q|CAPRIN2_uc001rjh.1_Missense_Mutation_p.R809Q|CAPRIN2_uc001rjj.1_Missense_Mutation_p.R525Q|CAPRIN2_uc001rjk.3_Missense_Mutation_p.R858Q|CAPRIN2_uc001rjl.3_Missense_Mutation_p.R803Q|CAPRIN2_uc001rjm.1_3'UTR	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	859					negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					AACAGATCCCCGGCTATTGAC	0.438													67	89	---	---	---	---	PASS	T	30867967	T	T	30867967	3	4	82	1	0	0	0	0	1	0	0	0	2636	652	23	1	823	1	CAPRIN2	12	30867967	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	1398087	30867967	102983928	275	31778										
IGFBP6	3489	broad.mit.edu	37	chr12	53495851	53495851	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccgctcctcccaggggcagcGccgaggtccctgctggtgtg	15	16	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:53495851G>T	uc001sbu.1	+	4	689	c.623G>T	c.(622-624)CGC>CTC	p.R208L	SOAT2_uc001sbv.2_5'Flank|SOAT2_uc009zms.2_5'Flank	NM_002178	NP_002169	P24592	IBP6_HUMAN	insulin-like growth factor binding protein 6	208	Thyroglobulin type-1.				negative regulation of cell proliferation|regulation of cell growth|signal transduction					ovary(1)	1						CAGGGGCAGCGCCGAGGTCCC	0.627													11	90	---	---	---	---	PASS	T	53495851	T	T	53495851	3	4	82	1	0	0	0	0	1	0	0	0	7583	1087	38	1	637	1	IGFBP6	12	53495851	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	22627884	53495851	80356044	276	31779										
POLR3B	55703	broad.mit.edu	37	chr12	106903246	106903246	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtgtcttccctccgtattccGtatgcctgcaagctgctctt	8	14	2	0	rs113017214		TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:106903246G>A	uc001tlp.2	+	28	3543	c.3321G>A	c.(3319-3321)CCG>CCA	p.P1107P	POLR3B_uc001tlq.2_Silent_p.P1049P	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	1107					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						TCCGTATTCCGTATGCCTGCA	0.463													5	150	---	---	---	---	PASS	A	106903246	A	A	106903246	2	1	82	1	0	0	0	0	0	0	0	1	12229	1132	40	1		1	POLR3B	12	106903246	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	53407395	106903246	26948649	277	31780										
C12orf23	90488	broad.mit.edu	37	chr12	107364965	107364965	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttcagtgttacaaagggagcTgttggtgccaccattggtgg	14	7	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:107364965T>A	uc001tmb.2	+	4	521	c.147T>A	c.(145-147)GCT>GCA	p.A49A	C12orf23_uc001tmc.2_Silent_p.A49A|C12orf23_uc001tmd.2_Silent_p.A49A	NM_152261	NP_689474	Q8WUH6	CL023_HUMAN	hypothetical protein LOC90488	49	Helical; (Potential).					integral to membrane					0						CAAAGGGAGCTGTTGGTGCCA	0.498													39	136	---	---	---	---	PASS	A	107364965	A	A	107364965	2	1	82	1	0	0	0	0	0	0	0	1	1677	1567	55	5		5	C12orf23	12	107364965	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	461719	107364965	26486930	278	31781										
ATP6V0A2	23545	broad.mit.edu	37	chr12	124242547	124242547	+	Missense_Mutation	SNP	T	A	A													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tctcattcagtctactttcaTcaaagttcaataacgacgac							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:124242547T>A	uc001ufr.2	+	20	2787	c.2539T>A	c.(2539-2541)TCA>ACA	p.S847T		NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	847	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		TCTACTTTCATCAAAGTTCAA	0.348													12	73	---	---	---	---	PASS	A	124242547	A	A	124242547	3	1	82	1	0	0	0	0	1	0	0	0	1169	1435	50	5	2617	5	ATP6V0A2	12	124242547	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	16877582	124242547	9609348	279	31782	633	2								
ATP6V0A2	23545	broad.mit.edu	37	chr12	124242548	124242548	+	Missense_Mutation	SNP	C	T	T													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctcattcagtctactttcatCaaagttcaataacgacgaca							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:124242548C>T	uc001ufr.2	+	20	2788	c.2540C>T	c.(2539-2541)TCA>TTA	p.S847L		NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	847	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		CTACTTTCATCAAAGTTCAAT	0.348													13	73	---	---	---	---	PASS	T	124242548	T	T	124242548	3	4	82	1	0	0	0	0	1	0	0	0	1169	838	29	2	2618	2	ATP6V0A2	12	124242548	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	1	124242548	9609347	280	31783	633	2								
DNAH10	196385	broad.mit.edu	37	chr12	124395159	124395159	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gggctggggatgctgaaattTgttgaagctgtaatgggcta	16	4	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:124395159T>A	uc001uft.3	+	58	9745	c.9720T>A	c.(9718-9720)TTT>TTA	p.F3240L		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	3240	Stalk (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)		TGCTGAAATTTGTTGAAGCTG	0.448													27	88	---	---	---	---	PASS	A	124395159	A	A	124395159	3	1	82	1	0	0	0	0	1	0	0	0	4598	1809	63	5	9950	5	DNAH10	12	124395159	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	152611	124395159	9456736	281	31784										
BRI3BP	140707	broad.mit.edu	37	chr12	125497114	125497114	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gactgagagatttgtgctggGagtggatatgttcgtggaga	17	3	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:125497114G>T	uc001uha.1	+	2	391	c.248G>T	c.(247-249)GGA>GTA	p.G83V		NM_080626	NP_542193	Q8WY22	BRI3B_HUMAN	BRI3-binding protein	83						integral to membrane|mitochondrial outer membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.35e-05)|Epithelial(86;0.000426)|all cancers(50;0.00576)		TTTGTGCTGGGAGTGGATATG	0.498													36	210	---	---	---	---	PASS	T	125497114	T	T	125497114	3	4	82	1	0	0	0	0	1	0	0	0	1513	1174	41	2	254	2	BRI3BP	12	125497114	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1101955	125497114	8354781	282	31785										
GOLGA3	2802	broad.mit.edu	37	chr12	133384974	133384974	+	Frame_Shift_Del	DEL	C	-	-													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tccctaggatgtgccggaagCcccaggctgcccaccttagg							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr12:133384974delC	uc001ukz.1	-	5	1240	c.681delG	c.(679-681)GGGfs	p.G227fs	GOLGA3_uc001ula.1_Frame_Shift_Del_p.G227fs|GOLGA3_uc001ulb.2_Frame_Shift_Del_p.G227fs	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	227	Golgi-targeting domain.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GTGCCGGAAGCCCCAGGCTGC	0.522													238	170	---	---	---	---		-	133384974	-	-	133384974	7	5	82	1	0	1	0	1	0	0	0	0	6554	726	26	0	4033	0	GOLGA3	12	133384974	Frame_Shift_Del	DEL	C	TCGA-39-5016-01A-01D-1441-08	7887860	133384974	466921	283	31786										
MTUS2	23281	broad.mit.edu	37	chr13	29599084	29599084	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gaatttcaccaacttcagggCtttgggaaaggctctcaggc	11	10	3	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr13:29599084C>A	uc001usl.3	+	1	337	c.279C>A	c.(277-279)GGC>GGA	p.G93G		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	83						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						AACTTCAGGGCTTTGGGAAAG	0.453													10	22	---	---	---	---	PASS	A	29599084	A	A	29599084	2	1	82	1	0	0	0	0	0	0	0	1	9966	784	28	3		3	MTUS2	13	29599084	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08		29599084	85570794	284	31787										
FRY	10129	broad.mit.edu	37	chr13	32653058	32653058	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agggccgccaaccatgctacCcatcaatgtggacccagaca	9	15	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr13:32653058C>T	uc001utx.2	+	2	654	c.158C>T	c.(157-159)CCC>CTC	p.P53L	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	53					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		ACCATGCTACCCATCAATGTG	0.488													207	164	---	---	---	---	PASS	T	32653058	T	T	32653058	3	4	82	1	0	0	0	0	1	0	0	0	6063	623	22	3	164	3	FRY	13	32653058	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	3053974	32653058	82516820	285	31788										
PCDH17	27253	broad.mit.edu	37	chr13	58208780	58208780	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cgggtgaatggcgagcagcaCcactgggacatgtcgctgcc	15	12	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr13:58208780C>T	uc001vhq.1	+	1	2992	c.2100C>T	c.(2098-2100)CAC>CAT	p.H700H	PCDH17_uc010aec.1_Silent_p.H700H	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	700	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GCGAGCAGCACCACTGGGACA	0.617													67	41	---	---	---	---	PASS	T	58208780	T	T	58208780	2	4	82	1	0	0	0	0	0	0	0	1	11512	506	18	3		3	PCDH17	13	58208780	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	25555722	58208780	56961098	286	31789										
GPC5	2262	broad.mit.edu	37	chr13	92380825	92380825	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gccctgtaagaacacccacaCaaagcccccgttgttctttt	6	15	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr13:92380825C>G	uc010tif.1	+	4	1426	c.1060C>G	c.(1060-1062)CAA>GAA	p.Q354E		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	354						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				AACACCCACACAAAGCCCCCG	0.418													65	99	---	---	---	---	PASS	G	92380825	G	G	92380825	3	3	82	1	0	0	0	0	1	0	0	0	6601	479	17	4	1074	4	GPC5	13	92380825	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	34172045	92380825	22789053	287	31790										
KDELC1	79070	broad.mit.edu	37	chr13	103440247	103440247	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agattatttcttgcaaattcTtgtcctgcttttgctatctt	5	8	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr13:103440247T>C	uc001vpq.3	-	8	1704	c.1320A>G	c.(1318-1320)CAA>CAG	p.Q440Q	KDELC1_uc001vpr.3_Silent_p.Q221Q	NM_024089	NP_076994	Q6UW63	KDEL1_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 1 precursor	440						endoplasmic reticulum lumen				ovary(1)	1	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					TTGCAAATTCTTGTCCTGCTT	0.363													54	55	---	---	---	---	PASS	C	103440247	C	C	103440247	2	2	82	1	0	0	0	0	0	0	0	1	8117	1606	56	5		5	KDELC1	13	103440247	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	11059422	103440247	11729631	288	31791										
FAM155A	728215	broad.mit.edu	37	chr13	108518154	108518154	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agtcctggtaagcctcgacgCactgcctgcaagtggtcatc	11	13	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr13:108518154C>G	uc001vql.2	-	1	1307	c.791G>C	c.(790-792)TGC>TCC	p.C264S		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	264						integral to membrane	binding			skin(1)	1						AGCCTCGACGCACTGCCTGCA	0.522													46	53	---	---	---	---	PASS	G	108518154	G	G	108518154	3	3	82	1	0	0	0	0	1	0	0	0	5465	710	25	4	597	4	FAM155A	13	108518154	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	5077907	108518154	6651724	289	31792										
CARKD	55739	broad.mit.edu	37	chr13	111290756	111290756	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcctggtggccgcgtttggcGcctgctctctcaccaggcag	13	15	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr13:111290756G>T	uc001vrb.2	+	10	939	c.925G>T	c.(925-927)GCC>TCC	p.A309S	CARKD_uc010tjj.1_Missense_Mutation_p.A291S|CARKD_uc001vqz.2_RNA|CARKD_uc001vra.2_RNA|CARKD_uc010tjk.1_Missense_Mutation_p.A199S|CARKD_uc010tjl.1_Missense_Mutation_p.A178S|CARKD_uc001vrc.2_Missense_Mutation_p.R354L			Q8IW45	CARKD_HUMAN	RecName: Full=Carbohydrate kinase domain-containing protein; Flags: Precursor;	309	YjeF C-terminal.									skin(1)	1						CGCGTTTGGCGCCTGCTCTCT	0.687													35	30	---	---	---	---	PASS	T	111290756	T	T	111290756	3	4	82	1	0	0	0	0	1	0	0	0	2654	1087	38	1	1099	1	CARKD	13	111290756	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	2772602	111290756	3879122	290	31793										
POTEG	404785	broad.mit.edu	37	chr14	19553647	19553647	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tggtgcagggggagcagcaaGagcaacgtgggcacttctgg	18	8	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:19553647G>T	uc001vuz.1	+	1	283	c.231G>T	c.(229-231)AAG>AAT	p.K77N	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	77										ovary(1)	1						GGAGCAGCAAGAGCAACGTGG	0.592													56	200	---	---	---	---	PASS	T	19553647	T	T	19553647	3	4	82	1	0	0	0	0	1	0	0	0	12266	933	33	2	233	2	POTEG	14	19553647	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08		19553647	87795893	291	31794										
OR4N2	390429	broad.mit.edu	37	chr14	20295661	20295661	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttcatcctccttggtctgacCcagtctcaagatattcagct	6	13	4	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:20295661C>T	uc010tkv.1	+	1	54	c.54C>T	c.(52-54)ACC>ACT	p.T18T		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TTGGTCTGACCCAGTCTCAAG	0.383													55	237	---	---	---	---	PASS	T	20295661	T	T	20295661	2	4	82	1	0	0	0	0	0	0	0	1	11077	610	22	3		3	OR4N2	14	20295661	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	742014	20295661	87053879	292	31795										
OR4K1	79544	broad.mit.edu	37	chr14	20404461	20404461	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atatcattgagctgtttcctGgctttaattatttcctacac	5	9	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:20404461G>C	uc001vwj.1	+	1	636	c.636G>C	c.(634-636)CTG>CTC	p.L212L		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	212	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		GCTGTTTCCTGGCTTTAATTA	0.448													19	101	---	---	---	---	PASS	C	20404461	C	C	20404461	2	2	82	1	0	0	0	0	0	0	0	1	11067	1335	47	4		4	OR4K1	14	20404461	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	108800	20404461	86945079	293	31796										
CHD8	57680	broad.mit.edu	37	chr14	21876521	21876521	+	Missense_Mutation	SNP	C	A	A													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttgaatcatctgcctgctggCcagactgccatggtacacaa							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:21876521C>A	uc001was.1	-	13	1937	c.1843G>T	c.(1843-1845)GCC>TCC	p.A615S	CHD8_uc001war.1_Missense_Mutation_p.A511S|CHD8_uc001wav.1_Missense_Mutation_p.A57S	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	894	Helicase ATP-binding.				ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		TGCCTGCTGGCCAGACTGCCA	0.448													31	84	---	---	---	---	PASS	A	21876521	A	A	21876521	3	1	82	1	0	0	0	0	1	0	0	0	3331	739	26	3	5169	3	CHD8	14	21876521	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	1472060	21876521	85473019	294	31797	634	2								
CHD8	57680	broad.mit.edu	37	chr14	21876522	21876522	+	Silent	SNP	C	A	A													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgaatcatctgcctgctggcCagactgccatggtacacaat							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:21876522C>A	uc001was.1	-	13	1936	c.1842G>T	c.(1840-1842)CTG>CTT	p.L614L	CHD8_uc001war.1_Silent_p.L510L|CHD8_uc001wav.1_Silent_p.L56L	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	893	Helicase ATP-binding.				ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		GCCTGCTGGCCAGACTGCCAT	0.448													32	85	---	---	---	---	PASS	A	21876522	A	A	21876522	2	1	82	1	0	0	0	0	0	0	0	1	3331	581	21	3		3	CHD8	14	21876522	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	1	21876522	85473018	295	31798	634	2								
CHD8	57680	broad.mit.edu	37	chr14	21876595	21876595	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gctcccagttagtaattgtgGacagtggggcaatgaccaag	13	8	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:21876595G>A	uc001was.1	-	13	1863	c.1769C>T	c.(1768-1770)TCC>TTC	p.S590F	CHD8_uc001war.1_Missense_Mutation_p.S486F|CHD8_uc001wav.1_Missense_Mutation_p.S32F	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	869	Helicase ATP-binding.				ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		AGTAATTGTGGACAGTGGGGC	0.448													35	113	---	---	---	---	PASS	A	21876595	A	A	21876595	3	1	82	1	0	0	0	0	1	0	0	0	3331	1174	41	2	5243	2	CHD8	14	21876595	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	73	21876595	85472945	296	31799										
MYH7	4625	broad.mit.edu	37	chr14	23900812	23900812	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acgaagcgggaggagttgtcGttccggacggtcttggcatt	16	8	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:23900812G>C	uc001wjx.2	-	8	820	c.714C>G	c.(712-714)AAC>AAG	p.N238K		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	238	Myosin head-like.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		AGGAGTTGTCGTTCCGGACGG	0.597													56	189	---	---	---	---	PASS	C	23900812	C	C	23900812	3	2	82	1	0	0	0	0	1	0	0	0	10039	1136	40	4	5225	4	MYH7	14	23900812	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	2024217	23900812	83448728	297	31800										
NID2	22795	broad.mit.edu	37	chr14	52478332	52478332	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	accagcacggctgattgtccGtccagcaacatctgtccagt	9	14	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:52478332G>T	uc001wzo.2	-	17	3724	c.3490C>A	c.(3490-3492)CGG>AGG	p.R1164R	NID2_uc010tqs.1_Silent_p.R1116R|NID2_uc010tqt.1_Silent_p.R1164R	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	1164	LDL-receptor class B 1.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CTGATTGTCCGTCCAGCAACA	0.488													51	131	---	---	---	---	PASS	T	52478332	T	T	52478332	2	4	82	1	0	0	0	0	0	0	0	1	10415	1144	40	1		1	NID2	14	52478332	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	28577520	52478332	54871208	298	31801										
SPTB	6710	broad.mit.edu	37	chr14	65237682	65237682	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acgggccatgctgaagaagcGgaatttatccgccgtgtcca	12	11	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:65237682G>C	uc001xht.2	-	26	5773	c.5719C>G	c.(5719-5721)CGC>GGC	p.R1907G	SPTB_uc001xhr.2_Missense_Mutation_p.R1907G|SPTB_uc001xhs.2_Missense_Mutation_p.R1907G|SPTB_uc001xhu.2_Missense_Mutation_p.R1907G|SPTB_uc010aqi.2_Missense_Mutation_p.R568G	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1907	Spectrin 16.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		CTGAAGAAGCGGAATTTATCC	0.637													12	47	---	---	---	---	PASS	C	65237682	C	C	65237682	3	2	82	1	0	0	0	0	1	0	0	0	15117	1116	39	4	1376	4	SPTB	14	65237682	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	12759350	65237682	42111858	299	31802										
GALNTL1	57452	broad.mit.edu	37	chr14	69787472	69787472	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tttgatgagaaggcctacctGtcggccaagcagctgaaggc	13	10	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:69787472G>T	uc010aqu.1	+	2	315	c.222G>T	c.(220-222)CTG>CTT	p.L74L	GALNTL1_uc001xla.1_Silent_p.L74L|GALNTL1_uc001xlb.1_Silent_p.L74L	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	74	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		AGGCCTACCTGTCGGCCAAGC	0.597													24	91	---	---	---	---	PASS	T	69787472	T	T	69787472	2	4	82	1	0	0	0	0	0	0	0	1	6221	1364	48	3		3	GALNTL1	14	69787472	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	4549790	69787472	37562068	300	31803										
PCNX	22990	broad.mit.edu	37	chr14	71572105	71572105	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agcattggaaatcctgggcaGggatcaggaactggactcca	13	9	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:71572105G>A	uc001xmo.2	+	33	6695	c.6249G>A	c.(6247-6249)CAG>CAA	p.Q2083Q	PCNX_uc010are.1_Silent_p.Q1972Q|PCNX_uc010arf.1_Silent_p.Q871Q|PCNX_uc001xmp.2_Silent_p.Q167Q	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	2083						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)		ATCCTGGGCAGGGATCAGGAA	0.478													18	54	---	---	---	---	PASS	A	71572105	A	A	71572105	2	1	82	1	0	0	0	0	0	0	0	1	11591	991	35	3		3	PCNX	14	71572105	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	1784633	71572105	35777435	301	31804										
FLRT2	23768	broad.mit.edu	37	chr14	86088821	86088821	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gactgcagtattaaatgggtCacagaatggctcaaatatat	9	6	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:86088821C>T	uc001xvr.2	+	2	1730	c.963C>T	c.(961-963)GTC>GTT	p.V321V	FLRT2_uc010atd.2_Silent_p.V321V	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	321	Extracellular (Potential).|LRRCT.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		TTAAATGGGTCACAGAATGGC	0.478													56	216	---	---	---	---	PASS	T	86088821	T	T	86088821	2	4	82	1	0	0	0	0	0	0	0	1	5939	813	29	2		2	FLRT2	14	86088821	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	14516716	86088821	21260719	302	31805			1	36		3	3	785	N	G_C	5.269262e-05
FLRT2	23768	broad.mit.edu	37	chr14	86088895	86088895	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccaaggtcctgaacaagtccGggggatggccgtcagggaat	15	10	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:86088895G>T	uc001xvr.2	+	2	1804	c.1037G>T	c.(1036-1038)CGG>CTG	p.R346L	FLRT2_uc010atd.2_Missense_Mutation_p.R346L	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	346	Extracellular (Potential).|LRRCT.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GAACAAGTCCGGGGGATGGCC	0.517													54	172	---	---	---	---	PASS	T	86088895	T	T	86088895	3	4	82	1	0	0	0	0	1	0	0	0	5939	1116	39	1	1039	1	FLRT2	14	86088895	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	74	86088895	21260645	303	31806			1	36		3	3	785	N	G_C	5.269262e-05
FLRT2	23768	broad.mit.edu	37	chr14	86089605	86089605	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agtggaaatacaaccggggcCggcggaaagatgattattgc	14	7	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:86089605C>T	uc001xvr.2	+	2	2514	c.1747C>T	c.(1747-1749)CGG>TGG	p.R583W	FLRT2_uc010atd.2_Missense_Mutation_p.R583W	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	583	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		CAACCGGGGCCGGCGGAAAGA	0.502													46	133	---	---	---	---	PASS	T	86089605	T	T	86089605	3	4	82	1	0	0	0	0	1	0	0	0	5939	643	23	1	1749	1	FLRT2	14	86089605	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	710	86089605	21259935	304	31807			1	36		3	3	785	N	G_C	5.269262e-05
FBLN5	10516	broad.mit.edu	37	chr14	92347671	92347671	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agataaggctcctcacagcgGatggggtcaatgcatttgaa	12	8	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:92347671G>C	uc001xzx.3	-	9	1427	c.954C>G	c.(952-954)ATC>ATG	p.I318M	FBLN5_uc010aud.2_Missense_Mutation_p.I323M|FBLN5_uc010aue.2_Missense_Mutation_p.I359M	NM_006329	NP_006320	Q9UBX5	FBLN5_HUMAN	fibulin 5 precursor	318	EGF-like 6; calcium-binding (Potential).				cell-matrix adhesion|elastic fiber assembly|protein localization at cell surface|regulation of removal of superoxide radicals	extracellular space|proteinaceous extracellular matrix|soluble fraction	calcium ion binding|integrin binding|protein C-terminus binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6		all_cancers(154;0.0722)				CCTCACAGCGGATGGGGTCAA	0.527													18	57	---	---	---	---	PASS	C	92347671	C	C	92347671	3	2	82	1	0	0	0	0	1	0	0	0	5700	1164	41	2	404	2	FBLN5	14	92347671	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	6258066	92347671	15001869	305	31808										
GOLGA5	9950	broad.mit.edu	37	chr14	93301991	93301991	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aaaagttcgcaaagctgctaGttcaattgatcagtttaggt	9	6	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:93301991G>T	uc001yaz.1	+	11	2215	c.2033G>T	c.(2032-2034)AGT>ATT	p.S678I	GOLGA5_uc001yba.1_Missense_Mutation_p.S75I	NM_005113	NP_005104	Q8TBA6	GOGA5_HUMAN	Golgi autoantigen, golgin subfamily a, 5	678	Cytoplasmic (Potential).				Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		AAAGCTGCTAGTTCAATTGAT	0.413			T	RET	papillary thyroid								13	30	---	---	---	---	PASS	T	93301991	T	T	93301991	3	4	82	1	0	0	0	0	1	0	0	0	6556	1029	36	3	2071	3	GOLGA5	14	93301991	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	954320	93301991	14047549	306	31809										
EML1	2009	broad.mit.edu	37	chr14	100344847	100344847	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcaagaggaccagctcttctGaacgagtgtctcctgggggt	13	10	4	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:100344847G>A	uc001ygs.2	+	4	478	c.409G>A	c.(409-411)GAA>AAA	p.E137K	EML1_uc010avt.1_Missense_Mutation_p.E124K|EML1_uc010tww.1_Missense_Mutation_p.E125K|EML1_uc001ygq.2_Missense_Mutation_p.E156K|EML1_uc001ygr.2_Missense_Mutation_p.E156K	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	137						cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				CAGCTCTTCTGAACGAGTGTC	0.458													39	86	---	---	---	---	PASS	A	100344847	A	A	100344847	3	1	82	1	0	0	0	0	1	0	0	0	5096	1291	45	2	484	2	EML1	14	100344847	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	7042856	100344847	7004693	307	31810										
AHNAK2	113146	broad.mit.edu	37	chr14	105410523	105410523	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acatcaggggctgtgacttcCgccttggagacttttaggtc	12	10	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:105410523C>A	uc010axc.1	-	7	11385	c.11265G>T	c.(11263-11265)GCG>GCT	p.A3755A	AHNAK2_uc001ypx.2_Silent_p.A3655A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3755						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)			CTGTGACTTCCGCCTTGGAGA	0.607													60	196	---	---	---	---	PASS	A	105410523	A	A	105410523	2	1	82	1	0	0	0	0	0	0	0	1	415	639	23	1		1	AHNAK2	14	105410523	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	5065676	105410523	1939017	308	31811										
AHNAK2	113146	broad.mit.edu	37	chr14	105412995	105412995	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tccacgtcgggggccgtcacCtccgccttggggcctttcag	13	16	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:105412995C>A	uc010axc.1	-	7	8913	c.8793G>T	c.(8791-8793)GAG>GAT	p.E2931D	AHNAK2_uc001ypx.2_Missense_Mutation_p.E2831D	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2931						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)			GGGCCGTCACCTCCGCCTTGG	0.637													60	172	---	---	---	---	PASS	A	105412995	A	A	105412995	3	1	82	1	0	0	0	0	1	0	0	0	415	680	24	3	8598	3	AHNAK2	14	105412995	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	2472	105412995	1936545	309	31812										
PACS2	23241	broad.mit.edu	37	chr14	105860966	105860966	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtggtcctcgcacgtgaagcActtccccatctgcatcttcg	9	15	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr14:105860966A>C	uc001yqt.2	+	24	2802	c.2627A>C	c.(2626-2628)CAC>CCC	p.H876P	PACS2_uc001yqs.2_Missense_Mutation_p.H801P|PACS2_uc001yqv.2_Missense_Mutation_p.H880P|PACS2_uc001yqu.2_Missense_Mutation_p.H891P	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	876					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		CACGTGAAGCACTTCCCCATC	0.607													32	86	---	---	---	---	PASS	C	105860966	C	C	105860966	3	2	82	1	0	0	0	0	1	0	0	0	11373	159	6	5	2733	5	PACS2	14	105860966	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	447971	105860966	1488574	310	31813										
NDN	4692	broad.mit.edu	37	chr15	23932302	23932302	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	accccagggctgctgtgcacCtcggagttgggggcctcggc	16	14	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr15:23932302C>A	uc001ywk.2	-	1	149	c.63G>T	c.(61-63)GAG>GAT	p.E21D		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	21					negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		TGCTGTGCACCTCGGAGTTGG	0.672									Prader-Willi_syndrome				16	22	---	---	---	---	PASS	A	23932302	A	A	23932302	3	1	82	1	0	0	0	0	1	0	0	0	10247	680	24	3	906	3	NDN	15	23932302	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08		23932302	78599090	311	31814										
GABRB3	2562	broad.mit.edu	37	chr15	26866506	26866506	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cagggtgaagacggatcatgCggtttttcactgtcactcca	11	10	3	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr15:26866506C>A	uc001zaz.2	-	4	558	c.416G>T	c.(415-417)CGC>CTC	p.R139L	GABRB3_uc010uae.1_Missense_Mutation_p.R54L|GABRB3_uc001zba.2_Missense_Mutation_p.R139L|GABRB3_uc001zbb.2_Missense_Mutation_p.R195L|GABRB3_uc001zbc.2_RNA	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	139	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	ACGGATCATGCGGTTTTTCAC	0.488													28	119	---	---	---	---	PASS	A	26866506	A	A	26866506	3	1	82	1	0	0	0	0	1	0	0	0	6168	768	27	1	1029	1	GABRB3	15	26866506	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	2934204	26866506	75664886	312	31815										
RYR3	6263	broad.mit.edu	37	chr15	33927921	33927921	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tattttgagtttgaagtggtGactggaggagacatgcgagt	15	3	0	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr15:33927921G>A	uc001zhi.2	+	26	3352	c.3282G>A	c.(3280-3282)GTG>GTA	p.V1094V	RYR3_uc010bar.2_Silent_p.V1094V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1094	B30.2/SPRY 2.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTGAAGTGGTGACTGGAGGAG	0.542													6	24	---	---	---	---	PASS	A	33927921	A	A	33927921	2	1	82	1	0	0	0	0	0	0	0	1	13770	1277	45	2		2	RYR3	15	33927921	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	7061415	33927921	68603471	313	31816										
C15orf24	56851	broad.mit.edu	37	chr15	34376672	34376672	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gttggaattcagcatattcaTtgactgctccatttcctgca	7	10	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr15:34376672T>C	uc001zhm.2	-	5	605	c.592A>G	c.(592-594)ATG>GTG	p.M198V	C15orf24_uc001zhn.2_Missense_Mutation_p.M81V	NM_020154	NP_064539	Q9NPA0	CO024_HUMAN	chromosome 15 open reading frame 24 precursor	198	Cytoplasmic (Potential).					cytoplasm|integral to membrane	carbohydrate binding|carboxypeptidase activity|purine nucleotide binding				0		all_lung(180;1.76e-08)		all cancers(64;2.02e-17)|GBM - Glioblastoma multiforme(113;2.15e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)		AGCATATTCATTGACTGCTCC	0.408													48	113	---	---	---	---	PASS	C	34376672	C	C	34376672	3	2	82	1	0	0	0	0	1	0	0	0	1786	1493	52	5	140	5	C15orf24	15	34376672	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	448751	34376672	68154720	314	31817										
BUB1B	701	broad.mit.edu	37	chr15	40504848	40504848	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tataaactgcttcacccttcAggtctgtaatactaaaaaca	4	10	3	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr15:40504848A>C	uc001zkx.3	+	19	2746	c.2534A>C	c.(2533-2535)CAG>CCG	p.Q845P		NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	845	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		TTCACCCTTCAGGTCTGTAAT	0.328			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				23	64	---	---	---	---	PASS	C	40504848	C	C	40504848	3	2	82	1	0	0	0	0	1	0	0	0	1571	202	7	5	2608	5	BUB1B	15	40504848	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	6128176	40504848	62026544	315	31818										
DISP2	85455	broad.mit.edu	37	chr15	40660491	40660491	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atcgccggagtcagcccccgCctgcggctgcccacgctgcc	12	20	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr15:40660491C>T	uc001zlk.1	+	8	2267	c.2178C>T	c.(2176-2178)CGC>CGT	p.R726R		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	726					smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		TCAGCCCCCGCCTGCGGCTGC	0.706													5	10	---	---	---	---	PASS	T	40660491	T	T	40660491	2	4	82	1	0	0	0	0	0	0	0	1	4540	726	26	3		3	DISP2	15	40660491	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	155643	40660491	61870901	316	31819										
TYRO3	7301	broad.mit.edu	37	chr15	41857275	41857275	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gacaaagctttccagcagcaAcgctagtgtggcctggatgc	12	11	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr15:41857275A>T	uc001zof.1	+	6	943	c.719A>T	c.(718-720)AAC>ATC	p.N240I		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	240	Fibronectin type-III 1.|Extracellular (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		TCCAGCAGCAACGCTAGTGTG	0.597													17	43	---	---	---	---	PASS	T	41857275	T	T	41857275	3	4	82	1	0	0	0	0	1	0	0	0	16811	43	2	5	741	5	TYRO3	15	41857275	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	1196784	41857275	60674117	317	31820										
MGA	23269	broad.mit.edu	37	chr15	42028655	42028655	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttcttctcgtgtgaaaatctCtatgccatcatgtcaagacc	6	11	5	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr15:42028655C>T	uc010ucy.1	+	13	4374	c.4193C>T	c.(4192-4194)TCT>TTT	p.S1398F	MGA_uc010ucz.1_Missense_Mutation_p.S1398F|MGA_uc010uda.1_Intron	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1398						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		GTGAAAATCTCTATGCCATCA	0.468													15	37	---	---	---	---	PASS	T	42028655	T	T	42028655	3	4	82	1	0	0	0	0	1	0	0	0	9540	913	32	2	4239	2	MGA	15	42028655	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	171380	42028655	60502737	318	31821										
ANP32A	8125	broad.mit.edu	37	chr15	69113052	69113052	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctcacatcagagggcgtcctGttccgcagctctaaatgaat	9	12	3	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr15:69113052G>T	uc002arl.2	-	1	210	c.39C>A	c.(37-39)AAC>AAA	p.N13K		NM_006305	NP_006296	P39687	AN32A_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32	13					intracellular signal transduction|mRNA metabolic process|nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleoplasm|perinuclear region of cytoplasm	protein binding				0						AGGGCGTCCTGTTCCGCAGCT	0.498													9	42	---	---	---	---	PASS	T	69113052	T	T	69113052	3	4	82	1	0	0	0	0	1	0	0	0	705	1368	48	3	738	3	ANP32A	15	69113052	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	27084397	69113052	33418340	319	31822										
KIF23	9493	broad.mit.edu	37	chr15	69709736	69709736	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cttcaggtatactgtagggtGcgcccactgggctttcctga	12	11	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr15:69709736G>A	uc002asb.2	+	3	213	c.96G>A	c.(94-96)GTG>GTA	p.V32V	KIF23_uc002asc.2_Silent_p.V32V|KIF23_uc010bii.2_5'UTR|KIF23_uc010bih.1_RNA	NM_138555	NP_612565	Q02241	KIF23_HUMAN	kinesin family member 23 isoform 1	32	Kinesin-motor.				blood coagulation|cytokinesis|microtubule-based movement|mitosis|mitotic spindle elongation	cytosol|kinesin complex|microtubule|midbody|nucleoplasm|spindle	ATP binding|microtubule motor activity|protein binding				0						ACTGTAGGGTGCGCCCACTGG	0.413													40	99	---	---	---	---	PASS	A	69709736	A	A	69709736	2	1	82	1	0	0	0	0	0	0	0	1	8291	1306	46	3		3	KIF23	15	69709736	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	596684	69709736	32821656	320	31823										
NEO1	4756	broad.mit.edu	37	chr15	73562757	73562757	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	caaaggtcgaagatcaagtaCatggagtatgacagcccatg	11	8	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr15:73562757C>T	uc002avm.3	+	18	2961	c.2819C>T	c.(2818-2820)ACA>ATA	p.T940I	NEO1_uc010ukx.1_Missense_Mutation_p.T940I|NEO1_uc010uky.1_Missense_Mutation_p.T940I|NEO1_uc010ukz.1_Missense_Mutation_p.T364I|NEO1_uc002avn.3_Missense_Mutation_p.T589I	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	940	Extracellular (Potential).|Fibronectin type-III 5.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						AGATCAAGTACATGGAGTATG	0.423													21	37	---	---	---	---	PASS	T	73562757	T	T	73562757	3	4	82	1	0	0	0	0	1	0	0	0	10336	478	17	3	2889	3	NEO1	15	73562757	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	3853021	73562757	28968635	321	31824										
SV2B	9899	broad.mit.edu	37	chr15	91769672	91769672	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccctcacccagatgatgtcaAggccaagcaggccaagatgg	11	13	2	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr15:91769672A>G	uc002bqv.2	+	1	570	c.179A>G	c.(178-180)AAG>AGG	p.K60R	SV2B_uc002bqt.2_Missense_Mutation_p.K60R|SV2B_uc010uqv.1_Intron|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	60	Cytoplasmic (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			GATGATGTCAAGGCCAAGCAG	0.572													18	48	---	---	---	---	PASS	G	91769672	G	G	91769672	3	3	82	1	0	0	0	0	1	0	0	0	15415	72	3	5	181	5	SV2B	15	91769672	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	18206915	91769672	10761720	322	31825										
PDIA2	64714	broad.mit.edu	37	chr16	335627	335627	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgaaaccactaagaagtatgCgcctgtggatgggggccctg	14	9	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:335627C>A	uc002cgn.1	+	12	2151	c.1043C>A	c.(1042-1044)GCG>GAG	p.A348E	PDIA2_uc010bqt.1_Missense_Mutation_p.A193E|PDIA2_uc002cgo.1_Missense_Mutation_p.A348E	NM_006849	NP_006840	Q13087	PDIA2_HUMAN	protein disulfide isomerase A2 precursor	348					apoptosis|cell redox homeostasis|glycerol ether metabolic process|protein folding|protein retention in ER lumen|response to hypoxia	endoplasmic reticulum lumen	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity|steroid binding			central_nervous_system(1)|skin(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				AAGAAGTATGCGCCTGTGGAT	0.582													7	64	---	---	---	---	PASS	A	335627	A	A	335627	3	1	82	1	0	0	0	0	1	0	0	0	11668	768	27	1	1069	1	PDIA2	16	335627	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08		335627	90019126	323	31826										
WDR24	84219	broad.mit.edu	37	chr16	735761	735761	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aggtagtcggcaggtacgtcGctgccctcggtttcctcgtt	13	12	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:735761G>A	uc002ciz.1	-	6	2356	c.1596C>T	c.(1594-1596)AGC>AGT	p.S532S	JMJD8_uc002ciw.1_5'Flank|JMJD8_uc002cix.1_5'Flank|JMJD8_uc002ciy.1_5'Flank	NM_032259	NP_115635	Q96S15	WDR24_HUMAN	WD repeat domain 24	662										ovary(1)|central_nervous_system(1)	2		Hepatocellular(780;0.0218)				CAGGTACGTCGCTGCCCTCGG	0.662													7	91	---	---	---	---	PASS	A	735761	A	A	735761	2	1	82	1	0	0	0	0	0	0	0	1	17278	1078	38	1		1	WDR24	16	735761	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	400134	735761	89618992	324	31827										
MAPK8IP3	23162	broad.mit.edu	37	chr16	1756652	1756652	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aaggcgctgcgcaggcaggcGgaggaggtgcgtgggccgcg	22	10	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:1756652G>A	uc002cmk.2	+	1	432	c.312G>A	c.(310-312)GCG>GCA	p.A104A	MAPK8IP3_uc002cmi.1_Silent_p.A104A|MAPK8IP3_uc002cmj.1_RNA|MAPK8IP3_uc002cml.2_Silent_p.A104A|MAPK8IP3_uc010uvl.1_Silent_p.A104A	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	104	Potential.				vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						GCAGGCAGGCGGAGGAGGTGC	0.428													3	3	---	---	---	---	PASS	A	1756652	A	A	1756652	2	1	82	1	0	0	0	0	0	0	0	1	9286	1103	39	1		1	MAPK8IP3	16	1756652	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	1020891	1756652	88598101	325	31828										
AMDHD2	51005	broad.mit.edu	37	chr16	2579538	2579538	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acatctcgggtgagctggtgTggcaggcggacgcagctagg	18	9	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:2579538T>C	uc002cqq.2	+	11	1301	c.1204T>C	c.(1204-1206)TGG>CGG	p.W402R	AMDHD2_uc002cqp.2_Missense_Mutation_p.W432R|AMDHD2_uc010uwc.1_Intron|AMDHD2_uc010uwd.1_Intron	NM_015944	NP_057028	Q9Y303	NAGA_HUMAN	amidohydrolase domain containing 2 isoform 1	402					N-acetylglucosamine metabolic process		N-acetylglucosamine-6-phosphate deacetylase activity			skin(2)|large_intestine(1)|breast(1)	4						TGAGCTGGTGTGGCAGGCGGA	0.657													11	118	---	---	---	---	PASS	C	2579538	C	C	2579538	3	2	82	1	0	0	0	0	1	0	0	0	568	1696	59	5	1332	5	AMDHD2	16	2579538	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	822886	2579538	87775215	326	31829										
KIAA0430	9665	broad.mit.edu	37	chr16	15716946	15716946	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgcaatgttgaaagcaagcgGggatgctctgtttaaaaggt	13	5	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:15716946G>A	uc002ddr.2	-	11	2498	c.2305C>T	c.(2305-2307)CCG>TCG	p.P769S	KIAA0430_uc002ddq.2_Intron|KIAA0430_uc010uzv.1_Missense_Mutation_p.P765S|KIAA0430_uc010uzw.1_Missense_Mutation_p.P768S	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	768						peroxisome	nucleotide binding|RNA binding				0						AAAGCAAGCGGGGATGCTCTG	0.383													31	70	---	---	---	---	PASS	A	15716946	A	A	15716946	3	1	82	1	0	0	0	0	1	0	0	0	8177	1232	43	3	2991	3	KIAA0430	16	15716946	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	13137408	15716946	74637807	327	31830										
C16orf88	400506	broad.mit.edu	37	chr16	19722719	19722719	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctatgtgcgcctcatccatgTtgccttttttttccaacacc	5	14	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:19722719T>A	uc002dgq.2	-	3	977	c.962A>T	c.(961-963)AAC>ATC	p.N321I		NM_001012991	NP_001013009	Q1ED39	CP088_HUMAN	hypothetical protein LOC400506	321	Interaction with ZFP106 (By similarity).					nucleolus					0						CTCATCCATGTTGCCTTTTTT	0.567													8	73	---	---	---	---	PASS	A	19722719	A	A	19722719	3	1	82	1	0	0	0	0	1	0	0	0	1841	1725	60	5	426	5	C16orf88	16	19722719	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	4005773	19722719	70632034	328	31831										
CRYM	1428	broad.mit.edu	37	chr16	21278978	21278978	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cctgccacagcctcctggacCgaagaacagacccgtacctc	8	18	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:21278978C>T	uc002dik.2	-	5	655	c.570G>A	c.(568-570)TCG>TCA	p.S190S	CRYM_uc010bwq.1_RNA|CRYM_uc002dil.2_Silent_p.S148S|CRYM_uc002dim.2_Silent_p.S190S	NM_001888	NP_001879	Q14894	CRYM_HUMAN	crystallin, mu isoform 1	190					negative regulation of transcription from RNA polymerase II promoter|sensory perception of sound|thyroid hormone transport	cytoplasm|nucleus|plasma membrane	NADP binding|protein homodimerization activity|thyroid hormone binding|transcription corepressor activity				0				GBM - Glioblastoma multiforme(48;0.0573)	Levothyroxine(DB00451)	CCTCCTGGACCGAAGAACAGA	0.512													9	54	---	---	---	---	PASS	T	21278978	T	T	21278978	2	4	82	1	0	0	0	0	0	0	0	1	3921	639	23	1		1	CRYM	16	21278978	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	1556259	21278978	69075775	329	31832										
SCNN1B	6338	broad.mit.edu	37	chr16	23383105	23383105	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctctaaacacaggacaagctTcagcgcatgggggagcccta	11	12	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:23383105T>C	uc002dln.2	+	7	1229	c.1053T>C	c.(1051-1053)CTT>CTC	p.L351L		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	351	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	AGGACAAGCTTCAGCGCATGG	0.567													61	84	---	---	---	---	PASS	C	23383105	C	C	23383105	2	2	82	1	0	0	0	0	0	0	0	1	13928	1770	62	5		5	SCNN1B	16	23383105	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	2104127	23383105	66971648	330	31833										
XPO6	23214	broad.mit.edu	37	chr16	28124345	28124345	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agtgagaccagtaagtggcaCgcagatagcagcagcttgtc	13	9	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:28124345C>T	uc002dpa.1	-	16	2532	c.2031G>A	c.(2029-2031)GCG>GCA	p.A677A	XPO6_uc002dpb.1_Silent_p.A663A|XPO6_uc010vcp.1_Silent_p.A677A	NM_015171	NP_055986	Q96QU8	XPO6_HUMAN	exportin 6	677					protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2						GTAAGTGGCACGCAGATAGCA	0.552													4	42	---	---	---	---	PASS	T	28124345	T	T	28124345	2	4	82	1	0	0	0	0	0	0	0	1	17445	523	19	1		1	XPO6	16	28124345	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	4741240	28124345	62230408	331	31834										
HIRIP3	8479	broad.mit.edu	37	chr16	30004865	30004865	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttcagggcccgacacttcccTagggaaggggtacctggggc	15	12	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:30004865T>G	uc002dve.2	-	6	1883	c.1422A>C	c.(1420-1422)CTA>CTC	p.L474L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|INO80E_uc002dvg.1_5'Flank|INO80E_uc002dvh.1_5'Flank|INO80E_uc002dvi.1_5'Flank|INO80E_uc002dvj.1_5'Flank|INO80E_uc002dvk.1_5'Flank|HIRIP3_uc002dvf.2_Silent_p.R162R	NM_003609	NP_003600	Q9BW71	HIRP3_HUMAN	HIRA interacting protein 3	474					chromatin assembly or disassembly	nucleus	protein binding			central_nervous_system(1)	1						GACACTTCCCTAGGGAAGGGG	0.637													13	55	---	---	---	---	PASS	G	30004865	G	G	30004865	2	3	82	1	0	0	0	0	0	0	0	1	7121	1509	53	5		5	HIRIP3	16	30004865	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	1880520	30004865	60349888	332	31835										
MYLPF	29895	broad.mit.edu	37	chr16	30387949	30387949	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgacccccacaggtgccgacCctgaggatgtgatcaccgga	12	14	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:30387949C>T	uc002dxv.1	+	5	342	c.286C>T	c.(286-288)CCT>TCT	p.P96S		NM_013292	NP_037424	Q96A32	MLRS_HUMAN	myosin light chain, phosphorylatable, fast	96	EF-hand 2.				skeletal muscle tissue development	muscle myosin complex	calcium ion binding|structural constituent of muscle				0			Colorectal(24;0.193)			AGGTGCCGACCCTGAGGATGT	0.607													29	31	---	---	---	---	PASS	T	30387949	T	T	30387949	3	4	82	1	0	0	0	0	1	0	0	0	10060	623	22	3	304	3	MYLPF	16	30387949	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	383084	30387949	59966804	333	31836										
SRCAP	10847	broad.mit.edu	37	chr16	30722077	30722077	+	Silent	SNP	A	T	T													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttatcttttgccatacagatAaagcccccaccctctgctgt							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:30722077A>T	uc002dze.1	+	9	1522	c.1137A>T	c.(1135-1137)ATA>ATT	p.I379I	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Silent_p.I236I|SRCAP_uc010bzz.1_5'UTR	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	379	Glu-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CCATACAGATAAAGCCCCCAC	0.468													6	72	---	---	---	---	PASS	T	30722077	T	T	30722077	2	4	82	1	0	0	0	0	0	0	0	1	15134	352	13	5		5	SRCAP	16	30722077	Silent	SNP	A	TCGA-39-5016-01A-01D-1441-08	334128	30722077	59632676	334	31837	635	2								
SRCAP	10847	broad.mit.edu	37	chr16	30722079	30722079	+	Missense_Mutation	SNP	A	C	C													0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atcttttgccatacagataaAgcccccaccctctgctgtca							TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:30722079A>C	uc002dze.1	+	9	1524	c.1139A>C	c.(1138-1140)AAG>ACG	p.K380T	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.K237T|SRCAP_uc010bzz.1_5'UTR	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	380	Glu-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			ATACAGATAAAGCCCCCACCC	0.468													6	70	---	---	---	---	PASS	C	30722079	C	C	30722079	3	2	82	1	0	0	0	0	1	0	0	0	15134	72	3	5	1165	5	SRCAP	16	30722079	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	2	30722079	59632674	335	31838	635	2								
MMP15	4324	broad.mit.edu	37	chr16	58072217	58072217	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gccagaccagttcggggtacGagtgaaagccaacctgcggc	14	12	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:58072217G>T	uc002ena.2	+	3	1332	c.359G>T	c.(358-360)CGA>CTA	p.R120L		NM_002428	NP_002419	P51511	MMP15_HUMAN	matrix metalloproteinase 15 preproprotein	120					protein modification process|proteolysis	extracellular matrix|integral to plasma membrane	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|protein binding|zinc ion binding			central_nervous_system(2)|breast(1)	3						TTCGGGGTACGAGTGAAAGCC	0.652													66	58	---	---	---	---	PASS	T	58072217	T	T	58072217	3	4	82	1	0	0	0	0	1	0	0	0	9654	1058	37	2	369	2	MMP15	16	58072217	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	27350138	58072217	32282536	336	31839										
NOB1	28987	broad.mit.edu	37	chr16	69788568	69788568	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggacagcgagccgcctgcgtGtggccttgtcccgaatctca	13	14	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:69788568G>A	uc002exs.2	-	2	141	c.125C>T	c.(124-126)ACA>ATA	p.T42I		NM_014062	NP_054781	Q9ULX3	NOB1_HUMAN	nin one binding protein	42	PINc.					nucleus	metal ion binding|protein binding				0						CCGCCTGCGTGTGGCCTTGTC	0.632													33	35	---	---	---	---	PASS	A	69788568	A	A	69788568	3	1	82	1	0	0	0	0	1	0	0	0	10511	1377	48	3	1145	3	NOB1	16	69788568	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	11716351	69788568	20566185	337	31840										
HYDIN	54768	broad.mit.edu	37	chr16	71101194	71101194	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcaagctggggagcaataccTtgctgtaattaagagcgcca	12	9	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:71101194T>A	uc002ezr.2	-	15	2202	c.2074A>T	c.(2074-2076)AGG>TGG	p.R692W	HYDIN_uc010cfz.1_Missense_Mutation_p.R437W|HYDIN_uc002ezv.2_Missense_Mutation_p.R692W|HYDIN_uc010vmc.1_Missense_Mutation_p.R709W|HYDIN_uc010vmd.1_Missense_Mutation_p.R719W|HYDIN_uc002ezw.3_Missense_Mutation_p.R709W	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	692										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GAGCAATACCTTGCTGTAATT	0.582													24	19	---	---	---	---	PASS	A	71101194	A	A	71101194	3	1	82	1	0	0	0	0	1	0	0	0	7467	1623	56	5	13588	5	HYDIN	16	71101194	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	1312626	71101194	19253559	338	31841										
CLEC18B	497190	broad.mit.edu	37	chr16	74446697	74446697	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agtatctgcccgtgtagccaGggggacagtggcagtggcag	17	9	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:74446697G>A	uc002fct.2	-	6	958	c.758C>T	c.(757-759)CCT>CTT	p.P253L	CLEC18B_uc002fcu.2_Missense_Mutation_p.P253L|CLEC18B_uc010vmu.1_Missense_Mutation_p.P173L|CLEC18B_uc010vmv.1_Missense_Mutation_p.P20L	NM_001011880	NP_001011880	Q6UXF7	CL18B_HUMAN	C-type lectin domain family 18, member B	253	EGF-like.					extracellular region	sugar binding				0						CGTGTAGCCAGGGGGACAGTG	0.622													8	63	---	---	---	---	PASS	A	74446697	A	A	74446697	3	1	82	1	0	0	0	0	1	0	0	0	3503	1000	35	3	641	3	CLEC18B	16	74446697	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	3345503	74446697	15908056	339	31842										
ADAD2	161931	broad.mit.edu	37	chr16	84224969	84224969	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aggcccaaagtgcctgggggCccgcgcccgcgcccgcgacg	16	18	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:84224969C>A	uc002fhr.2	+	1	247	c.133C>A	c.(133-135)CCC>ACC	p.P45T	ADAD2_uc002fhq.2_Missense_Mutation_p.P45T	NM_001145400	NP_001138872	Q8NCV1	ADAD2_HUMAN	adenosine deaminase domain containing 2 isoform	45					RNA processing	intracellular	adenosine deaminase activity|double-stranded RNA binding				0						TGCCTgggggcccgcgcccgc	0.637													6	4	---	---	---	---	PASS	A	84224969	A	A	84224969	3	1	82	1	0	0	0	0	1	0	0	0	232	739	26	3	135	3	ADAD2	16	84224969	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	9778272	84224969	6129784	340	31843										
GALNS	2588	broad.mit.edu	37	chr16	88904108	88904108	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aaggtccaaagtggcagttgGgggatccaaaccactcatca	11	10	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:88904108G>A	uc002fly.3	-	5	577	c.488C>T	c.(487-489)CCC>CTC	p.P163L	GALNS_uc010cid.2_Missense_Mutation_p.P169L|GALNS_uc002flz.3_Intron	NM_000512	NP_000503	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfate sulfatase	163						lysosome	metal ion binding|N-acetylgalactosamine-4-sulfatase activity|N-acetylgalactosamine-6-sulfatase activity			large_intestine(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0496)	Hyaluronidase(DB00070)	GTGGCAGTTGGGGGATCCAAA	0.582													61	56	---	---	---	---	PASS	A	88904108	A	A	88904108	3	1	82	1	0	0	0	0	1	0	0	0	6206	1232	43	3	1120	3	GALNS	16	88904108	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	4679139	88904108	1450645	341	31844										
CPNE7	27132	broad.mit.edu	37	chr16	89662918	89662918	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cctgcggcgctggccaagtgCgtgctggccgaggtcccgaa	16	14	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr16:89662918C>A	uc002fnp.2	+	17	1921	c.1791C>A	c.(1789-1791)TGC>TGA	p.C597*	CPNE7_uc002fnq.2_Nonsense_Mutation_p.C522*	NM_014427	NP_055242	Q9UBL6	CPNE7_HUMAN	copine 7 isoform b	597					lipid metabolic process		transporter activity				0		all_hematologic(23;0.0748)		all cancers(4;3.63e-08)|OV - Ovarian serous cystadenocarcinoma(4;1.7e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0147)		TGGCCAAGTGCGTGCTGGCCG	0.642													4	72	---	---	---	---	PASS	A	89662918	A	A	89662918	4	1	82	1	0	0	0	0	0	1	0	0	3817	776	27	1	1857	1	CPNE7	16	89662918	Nonsense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	758810	89662918	691835	342	31845										
TP53	7157	broad.mit.edu	37	chr17	7578407	7578407	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcgctcatggtgggggcagcGcctcacaacctccgtcatgt	13	14	3	0	rs138729528		TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:7578407G>C	uc002gim.2	-	5	717	c.523C>G	c.(523-525)CGC>GGC	p.R175G	TP53_uc002gig.1_Missense_Mutation_p.R175G|TP53_uc002gih.2_Missense_Mutation_p.R175G|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R43G|TP53_uc010cng.1_Missense_Mutation_p.R43G|TP53_uc002gii.1_Missense_Mutation_p.R43G|TP53_uc010cnh.1_Missense_Mutation_p.R175G|TP53_uc010cni.1_Missense_Mutation_p.R175G|TP53_uc002gij.2_Missense_Mutation_p.R175G|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R82G|TP53_uc002gio.2_Missense_Mutation_p.R43G|TP53_uc010vug.1_Missense_Mutation_p.R136G	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	175	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R175H(721)|p.R175L(19)|p.R175C(12)|p.R175G(11)|p.0?(7)|p.R175P(5)|p.R175S(5)|p.R175R(4)|p.R174fs*24(3)|p.R175_E180delRCPHHE(3)|p.R175fs*5(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V173fs*69(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R174_H178>S(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R175fs*6(1)|p.R42fs*24(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R175fs*72(1)|p.R174fs*70(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.S149fs*72(1)|p.R174_E180>K(1)|p.R174fs*3(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)		TGGGGGCAGCGCCTCACAACC	0.657		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)			24	27	---	---	---	---	PASS	C	7578407	C	C	7578407	3	2	82	1	0	0	0	0	1	0	0	0	16378	1087	38	4	775	4	TP53	17	7578407	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08		7578407	73616803	343	31846										
PER1	5187	broad.mit.edu	37	chr17	8045139	8045139	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcaccatcacatcaagagccCgaggcagttggcccttccgg	10	15	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:8045139C>A	uc002gkd.2	-	22	3822	c.3584G>T	c.(3583-3585)CGG>CTG	p.R1195L	PER1_uc010cns.2_Missense_Mutation_p.R69L|PER1_uc010vuq.1_RNA	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	1195	CRY binding domain (By similarity).				circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						ATCAAGAGCCCGAGGCAGTTG	0.567			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					65	64	---	---	---	---	PASS	A	8045139	A	A	8045139	3	1	82	1	0	0	0	0	1	0	0	0	11729	652	23	1	296	1	PER1	17	8045139	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	466732	8045139	73150071	344	31847										
DNAH9	1770	broad.mit.edu	37	chr17	11642264	11642264	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cttccttggggaggagatcaGcctgaatccttctgtcggta	12	10	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:11642264G>T	uc002gne.2	+	29	5950	c.5882G>T	c.(5881-5883)AGC>ATC	p.S1961I	DNAH9_uc010coo.2_Missense_Mutation_p.S1255I	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1961	AAA 1 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GAGGAGATCAGCCTGAATCCT	0.483													44	46	---	---	---	---	PASS	T	11642264	T	T	11642264	3	4	82	1	0	0	0	0	1	0	0	0	4608	971	34	3	5996	3	DNAH9	17	11642264	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	3597125	11642264	69552946	345	31848										
NCOR1	9611	broad.mit.edu	37	chr17	15952254	15952254	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tggggtggggagatgggctcGtagggctccgaagagacgtg	21	6	0	2	rs144480346	byFrequency	TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:15952254G>T	uc002gpo.2	-	41	6681	c.6441C>A	c.(6439-6441)TAC>TAA	p.Y2147*	NCOR1_uc002gpn.2_Nonsense_Mutation_p.Y2044*|NCOR1_uc002gpl.2_Nonsense_Mutation_p.Y162*|NCOR1_uc002gpm.2_Nonsense_Mutation_p.Y667*|NCOR1_uc010vwb.1_Nonsense_Mutation_p.Y731*|NCOR1_uc010coy.2_Nonsense_Mutation_p.Y1055*|NCOR1_uc010vwc.1_Nonsense_Mutation_p.Y957*	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	2147	Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		AGATGGGCTCGTAGGGCTCCG	0.522													19	74	---	---	---	---	PASS	T	15952254	T	T	15952254	4	4	82	1	0	0	0	0	0	1	0	0	10235	1140	40	1	905	1	NCOR1	17	15952254	Nonsense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	4309990	15952254	65242956	346	31849										
FAM18B	51030	broad.mit.edu	37	chr17	18694245	18694245	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tttttccacttattctttcgAgtcagtgcaatcatcgtcta	5	10	4	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:18694245A>T	uc002gum.2	+	3	157	c.132A>T	c.(130-132)CGA>CGT	p.R44R	FAM18B_uc002gun.2_5'UTR	NM_016078	NP_057162	Q9NYZ1	F18B1_HUMAN	hypothetical protein LOC51030	44	Helical; (Potential).					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (53;0.0872)|READ - Rectum adenocarcinoma(1115;0.0967)		TATTCTTTCGAGTCAGTGCAA	0.388													108	91	---	---	---	---	PASS	T	18694245	T	T	18694245	2	4	82	1	0	0	0	0	0	0	0	1	5519	291	11	5		5	FAM18B	17	18694245	Silent	SNP	A	TCGA-39-5016-01A-01D-1441-08	2741991	18694245	62500965	347	31850										
PIGS	94005	broad.mit.edu	37	chr17	26881995	26881995	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcccagagcagccggtctagCtcccaggtcattagcccttc	10	16	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:26881995C>T	uc002hbo.2	-	11	1639	c.1266G>A	c.(1264-1266)GAG>GAA	p.E422E	UNC119_uc002hbk.2_5'Flank|UNC119_uc002hbm.2_5'Flank|PIGS_uc002hbn.2_Silent_p.E414E|PIGS_uc010wap.1_Silent_p.E361E	NM_033198	NP_149975	Q96S52	PIGS_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	422	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			breast(2)|urinary_tract(1)|kidney(1)	4	Lung NSC(42;0.00431)					GCCGGTCTAGCTCCCAGGTCA	0.587													9	35	---	---	---	---	PASS	T	26881995	T	T	26881995	2	4	82	1	0	0	0	0	0	0	0	1	11898	796	28	3		3	PIGS	17	26881995	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	8187750	26881995	54313215	348	31851										
TMEM132E	124842	broad.mit.edu	37	chr17	32961865	32961865	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgaggaggaggaggagcggcGgcagagtgcaagccgtggct	21	7	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:32961865G>A	uc002hif.2	+	8	1794	c.1466G>A	c.(1465-1467)CGG>CAG	p.R489Q		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	489	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		GAGGAGCGGCGGCAGAGTGCA	0.622													6	15	---	---	---	---	PASS	A	32961865	A	A	32961865	3	1	82	1	0	0	0	0	1	0	0	0	16045	1116	39	1	1496	1	TMEM132E	17	32961865	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	6079870	32961865	48233345	349	31852										
CNTNAP1	8506	broad.mit.edu	37	chr17	40845547	40845547	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcttttgatgggccatactgCaaccacggtaagtgctgctg	12	10	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:40845547C>A	uc002iay.2	+	18	3201	c.2985C>A	c.(2983-2985)TGC>TGA	p.C995*	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	995	EGF-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		GGCCATACTGCAACCACGGTA	0.562													22	131	---	---	---	---	PASS	A	40845547	A	A	40845547	4	1	82	1	0	0	0	0	0	1	0	0	3646	718	25	3	3055	3	CNTNAP1	17	40845547	Nonsense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	7883682	40845547	40349663	350	31853										
COL1A1	1277	broad.mit.edu	37	chr17	48267439	48267439	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agcaccagcatcaccaggttCgcctttagcaccaggttggc	10	14	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:48267439C>T	uc002iqm.2	-	36	2608	c.2482G>A	c.(2482-2484)GAA>AAA	p.E828K		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	828	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	TCACCAGGTTCGCCTTTAGCA	0.657			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						13	81	---	---	---	---	PASS	T	48267439	T	T	48267439	3	4	82	1	0	0	0	0	1	0	0	0	3677	893	31	2	1976	2	COL1A1	17	48267439	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	7421892	48267439	32927771	351	31854										
C17orf71	55181	broad.mit.edu	37	chr17	57288727	57288727	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gcaggaacccacagccttccCattttgaacttcctacttat	5	14	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:57288727C>T	uc002ixi.2	+	1	1357	c.1315C>T	c.(1315-1317)CAT>TAT	p.H439Y		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	439					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					ACAGCCTTCCCATTTTGAACT	0.478													36	107	---	---	---	---	PASS	T	57288727	T	T	57288727	3	4	82	1	0	0	0	0	1	0	0	0	1878	594	21	3	1317	3	C17orf71	17	57288727	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	9021288	57288727	23906483	352	31855										
ABCA8	10351	broad.mit.edu	37	chr17	66873754	66873754	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgtcaggttgggccacagcgCgttctcctgagggcagtacc	14	12	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:66873754C>T	uc002jhp.2	-	31	4164	c.3985G>A	c.(3985-3987)GCG>ACG	p.A1329T	ABCA8_uc002jhq.2_Missense_Mutation_p.A1369T|ABCA8_uc010wqq.1_Missense_Mutation_p.A1364T	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	1329	ABC transporter 2.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					GGCCACAGCGCGTTCTCCTGA	0.597													40	210	---	---	---	---	PASS	T	66873754	T	T	66873754	3	4	82	1	0	0	0	0	1	0	0	0	38	768	27	1	792	1	ABCA8	17	66873754	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	9585027	66873754	14321456	353	31856										
SDK2	54549	broad.mit.edu	37	chr17	71427679	71427679	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctgaggcctcatcgacccccCgagagttggtggccaggcag	14	14	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:71427679C>G	uc010dfm.2	-	11	1442	c.1442G>C	c.(1441-1443)CGG>CCG	p.R481P	SDK2_uc010dfn.2_Missense_Mutation_p.R160P	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	481	Ig-like C2-type 5.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						ATCGACCCCCCGAGAGTTGGT	0.602													36	361	---	---	---	---	PASS	G	71427679	G	G	71427679	3	3	82	1	0	0	0	0	1	0	0	0	13969	652	23	4	5216	4	SDK2	17	71427679	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	4553925	71427679	9767531	354	31857										
EVPL	2125	broad.mit.edu	37	chr17	74004655	74004655	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gccgggccgtgcgctccctgTtgagcatctcccacacgcgg	13	17	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:74004655T>C	uc002jqi.2	-	22	4859	c.4631A>G	c.(4630-4632)AAC>AGC	p.N1544S	EVPL_uc010wss.1_Missense_Mutation_p.N1566S|EVPL_uc010wst.1_Missense_Mutation_p.N1014S	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1544	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						GCGCTCCCTGTTGAGCATCTC	0.672													10	48	---	---	---	---	PASS	C	74004655	C	C	74004655	3	2	82	1	0	0	0	0	1	0	0	0	5292	1725	60	5	1474	5	EVPL	17	74004655	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	2576976	74004655	7190555	355	31858										
FOXK2	3607	broad.mit.edu	37	chr17	80477930	80477930	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgaagaagcgctcggtgaccAtcggccgcaactcgtcgcag	13	13	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr17:80477930A>T	uc002kfn.2	+	1	337	c.166A>T	c.(166-168)ATC>TTC	p.I56F	FOXK2_uc002kfm.1_Missense_Mutation_p.I56F|FOXK2_uc010diu.2_Missense_Mutation_p.I56F	NM_004514	NP_004505	Q01167	FOXK2_HUMAN	forkhead box K2	56	FHA.|Gly-rich.			AAAAALSGAGTPPAGGGAGGGGAGGGGSPPGGWAVARLEGR EFEYLMKKRSVTIGRNSSQGSVDVSMGHSSFISRRHLEIFT PPGGGGHGGAAPELPPAQPRPDAGGDFYLRCLGKNG -> Q (in Ref. 1; CAA43200).	embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|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				0	Breast(20;0.00106)|all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.0371)|BRCA - Breast invasive adenocarcinoma(99;0.0415)			CTCGGTGACCATCGGCCGCAA	0.557													29	44	---	---	---	---	PASS	T	80477930	T	T	80477930	3	4	82	1	0	0	0	0	1	0	0	0	6015	217	8	5	168	5	FOXK2	17	80477930	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	6473275	80477930	717280	356	31859										
CIDEA	1149	broad.mit.edu	37	chr18	12277260	12277260	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	caagccaagggcaggttcacGtgtggatagggatgcaggct	16	8	1	0	rs147817564	byFrequency	TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr18:12277260G>T	uc002kqt.3	+	5	716	c.651G>T	c.(649-651)ACG>ACT	p.T217T	CIDEA_uc002kqu.3_Silent_p.T251T|CIDEA_uc010dlc.2_RNA	NM_001279	NP_001270	O60543	CIDEA_HUMAN	cell death-inducing DFFA-like effector a isoform	217					DNA damage response, signal transduction resulting in induction of apoptosis|DNA fragmentation involved in apoptotic nuclear change|lipid metabolic process|lipid storage|negative regulation of apoptosis|negative regulation of cytokine secretion|negative regulation of lipid catabolic process|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of sequestering of triglyceride|temperature homeostasis	mitochondrial envelope|nucleus	protein homodimerization activity			ovary(1)|central_nervous_system(1)	2						GCAGGTTCACGTGTGGATAGG	0.537													31	59	---	---	---	---	PASS	T	12277260	T	T	12277260	2	4	82	1	0	0	0	0	0	0	0	1	3425	1132	40	1		1	CIDEA	18	12277260	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08		12277260	65799988	357	31860										
KIAA1012	22878	broad.mit.edu	37	chr18	29496235	29496235	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aaactaaaataaaaacttacCtctgttcatctcctgcactt	2	11	3	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr18:29496235C>T	uc002kxc.3	-	4	981	c.617G>A	c.(616-618)AGA>AAA	p.R206K	KIAA1012_uc002kxb.3_Missense_Mutation_p.R152K|KIAA1012_uc002kxd.3_RNA|KIAA1012_uc002kxe.2_Missense_Mutation_p.R206K	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	206					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						AAAAACTTACCTCTGTTCATC	0.284													24	25	---	---	---	---	PASS	T	29496235	T	T	29496235	3	4	82	1	0	0	0	0	1	0	0	0	8204	695	24	3	3794	3	KIAA1012	18	29496235	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	17218975	29496235	48581013	358	31861										
ASXL3	80816	broad.mit.edu	37	chr18	31326458	31326458	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tggaactgaaatgctcttgcCggctgaaagccatgattgtg	12	8	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr18:31326458C>A	uc010dmg.1	+	12	6701	c.6646C>A	c.(6646-6648)CGG>AGG	p.R2216R	ASXL3_uc002kxq.2_Silent_p.R1923R	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	2216	PHD-type; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						ATGCTCTTGCCGGCTGAAAGC	0.507													35	47	---	---	---	---	PASS	A	31326458	A	A	31326458	2	1	82	1	0	0	0	0	0	0	0	1	1068	643	23	1		1	ASXL3	18	31326458	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	1830223	31326458	46750790	359	31862										
NOL4	8715	broad.mit.edu	37	chr18	31463262	31463262	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccctcctagccctctgtaacTatggtaactataggtcccat	6	14	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr18:31463262T>A	uc010dmi.2	-	10	1898	c.1669A>T	c.(1669-1671)AGT>TGT	p.S557C	NOL4_uc010xbs.1_Missense_Mutation_p.S272C|NOL4_uc002kxr.3_Missense_Mutation_p.S329C|NOL4_uc010xbt.1_Missense_Mutation_p.S483C|NOL4_uc010dmh.2_Missense_Mutation_p.S419C|NOL4_uc010xbu.1_Missense_Mutation_p.S493C|NOL4_uc002kxt.3_Missense_Mutation_p.S455C	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	557						nucleolus	RNA binding			ovary(3)	3						CCTCTGTAACTATGGTAACTA	0.423													96	108	---	---	---	---	PASS	A	31463262	A	A	31463262	3	1	82	1	0	0	0	0	1	0	0	0	10524	1522	53	5	255	5	NOL4	18	31463262	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	136804	31463262	46613986	360	31863										
SIGLEC15	284266	broad.mit.edu	37	chr18	43418836	43418836	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cgtgcggagcccgcgtgaggGtcacggccacctagtgaccg	16	14	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr18:43418836G>A	uc002lbl.1	+	4	799	c.650G>A	c.(649-651)GGT>GAT	p.G217D	SIGLEC15_uc010xcp.1_RNA	NM_213602	NP_998767	Q6ZMC9	SIG15_HUMAN	sialic acid binding Ig-like lectin 15 precursor	217	Extracellular (Potential).|Ig-like C2-type.					integral to membrane					0						CCGCGTGAGGGTCACGGCCAC	0.746													7	0	---	---	---	---	PASS	A	43418836	A	A	43418836	3	1	82	1	0	0	0	0	1	0	0	0	14310	1261	44	3	664	3	SIGLEC15	18	43418836	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	11955574	43418836	34658412	361	31864										
TCEB3C	162699	broad.mit.edu	37	chr18	44555221	44555221	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cgcagcgtcggcacctggagCtggcaggcaggcctggagcc	17	14	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr18:44555221C>A	uc010xdb.1	-	1	1229	c.993G>T	c.(991-993)CAG>CAT	p.Q331H	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	331	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						GCACCTGGAGCTGGCAGGCAG	0.657													24	505	---	---	---	---	PASS	A	44555221	A	A	44555221	3	1	82	1	0	0	0	0	1	0	0	0	15680	796	28	3	2294	3	TCEB3C	18	44555221	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	1136385	44555221	33522027	362	31865										
SERPINB2	5055	broad.mit.edu	37	chr18	61570219	61570219	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atgaagttgaggtatacataCcccagttcaaattagaagag	9	6	1	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr18:61570219C>G	uc010xeu.1	+	9	1261	c.928C>G	c.(928-930)CCC>GCC	p.P310A	SERPINB2_uc002ljo.2_Missense_Mutation_p.P310A|SERPINB2_uc010dqh.2_Missense_Mutation_p.P240A|SERPINB2_uc002ljp.1_Intron|SERPINB2_uc002ljq.1_Intron	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	310					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	GGTATACATACCCCAGTTCAA	0.413													26	79	---	---	---	---	PASS	G	61570219	G	G	61570219	3	3	82	1	0	0	0	0	1	0	0	0	14101	507	18	4	954	4	SERPINB2	18	61570219	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	17014998	61570219	16507029	363	31866										
C18orf55	29090	broad.mit.edu	37	chr18	71816224	71816224	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctagatgtattcttggagtcAcccagaaaaccatctggacg	9	10	3	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr18:71816224A>T	uc010dqr.1	+	1	479	c.181A>T	c.(181-183)ACC>TCC	p.T61S	FBXO15_uc002lle.2_5'Flank|FBXO15_uc002llf.2_5'Flank	NM_014177	NP_054896	Q9BVV7	TI21L_HUMAN	hypothetical protein LOC29090 precursor	61					protein transport|transmembrane transport	integral to membrane|mitochondrial membrane					0		Esophageal squamous(42;0.0746)|Prostate(75;0.157)|Melanoma(33;0.211)				TCTTGGAGTCACCCAGAAAAC	0.517													11	136	---	---	---	---	PASS	T	71816224	T	T	71816224	3	4	82	1	0	0	0	0	1	0	0	0	1905	159	6	5	183	5	C18orf55	18	71816224	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	10246005	71816224	6261024	364	31867										
AES	166	broad.mit.edu	37	chr19	3053947	3053947	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cggtgcctgcgctgaccgccGgcagcgaaggcggctgcagc	17	15	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:3053947G>C	uc002lwy.1	-	7	637	c.464C>G	c.(463-465)CCG>CGG	p.P155R	AES_uc002lwx.1_3'UTR|AES_uc002lwz.1_Missense_Mutation_p.P154R|AES_uc002lxa.1_Missense_Mutation_p.P99R|AES_uc002lxb.1_Missense_Mutation_p.P222R|AES_uc002lxc.2_Silent_p.A248A	NM_001130	NP_001121	Q08117	AES_HUMAN	amino-terminal enhancer of split isoform b	155	Gly/Pro-rich (GP domain).				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of response to cytokine stimulus|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|response to interleukin-1|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTGACCGCCGGCAGCGAAGG	0.701													7	8	---	---	---	---	PASS	C	3053947	C	C	3053947	3	2	82	1	0	0	0	0	1	0	0	0	352	1116	39	4	133	4	AES	19	3053947	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08		3053947	56075036	365	31868										
DENND1C	79958	broad.mit.edu	37	chr19	6479048	6479048	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggcgaaggtgaaatgctgcaCggcggggctggggggctccc	20	10	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:6479048C>G	uc002mfe.2	-	5	288	c.196G>C	c.(196-198)GTG>CTG	p.V66L	DENND1C_uc002mfb.2_5'Flank|DENND1C_uc002mfc.2_5'Flank|DENND1C_uc002mfd.2_5'UTR|DENND1C_uc010xje.1_Missense_Mutation_p.V22L	NM_024898	NP_079174	Q8IV53	DEN1C_HUMAN	DENN/MADD domain containing 1C	66	UDENN.					clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity			large_intestine(1)	1						AAATGCTGCACGGCGGGGCTG	0.632													32	87	---	---	---	---	PASS	G	6479048	G	G	6479048	3	3	82	1	0	0	0	0	1	0	0	0	4428	536	19	4	2285	4	DENND1C	19	6479048	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	3425101	6479048	52649935	366	31869										
ZNF177	7730	broad.mit.edu	37	chr19	9492293	9492293	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aacctatgagtgtaaagaatGtgggaaggcctttaggaatt	12	4	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:9492293G>A	uc002mli.2	+	12	1469	c.806G>A	c.(805-807)TGT>TAT	p.C269Y	ZNF177_uc002mlj.2_Missense_Mutation_p.C219Y|ZNF177_uc002mlk.2_Missense_Mutation_p.C269Y	NM_003451	NP_003442	Q13360	ZN177_HUMAN	zinc finger protein 177	269	C2H2-type 6.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGTAAAGAATGTGGGAAGGCC	0.438													78	126	---	---	---	---	PASS	A	9492293	A	A	9492293	3	1	82	1	0	0	0	0	1	0	0	0	17743	1377	48	3	1304	3	ZNF177	19	9492293	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	3013245	9492293	49636690	367	31870										
ZNF121	7675	broad.mit.edu	37	chr19	9677208	9677208	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gataaggtttctctccagtaTgaattcttacatgttcaact	6	8	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:9677208T>A	uc010xkp.1	-	4	813	c.581A>T	c.(580-582)CAT>CTT	p.H194L	ZNF121_uc010dwt.2_Missense_Mutation_p.H194L|ZNF121_uc010xkq.1_Missense_Mutation_p.H194L	NM_001008727	NP_001008727	P58317	ZN121_HUMAN	zinc finger protein 121	194	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTCTCCAGTATGAATTCTTAC	0.448													3	130	---	---	---	---	PASS	A	9677208	A	A	9677208	3	1	82	1	0	0	0	0	1	0	0	0	17716	1464	51	5	595	5	ZNF121	19	9677208	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	184915	9677208	49451775	368	31871										
RDH8	50700	broad.mit.edu	37	chr19	10131415	10131415	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	caacgatgtctatgcagcttCcaagttcgccctggagggat	11	11	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:10131415C>T	uc002mmr.2	+	4	722	c.473C>T	c.(472-474)TCC>TTC	p.S158F		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	158					estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	TATGCAGCTTCCAAGTTCGCC	0.577													5	39	---	---	---	---	PASS	T	10131415	T	T	10131415	3	4	82	1	0	0	0	0	1	0	0	0	13196	855	30	2	487	2	RDH8	19	10131415	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	454207	10131415	48997568	369	31872										
ILF3	3609	broad.mit.edu	37	chr19	10782046	10782046	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tccctcagggaacagaagacGgagcacatgaccagaaccct	10	13	1	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:10782046G>A	uc002mpn.2	+	4	563	c.246G>A	c.(244-246)ACG>ACA	p.T82T	ILF3_uc002mpm.2_Silent_p.T82T|ILF3_uc002mpl.2_Silent_p.T82T|ILF3_uc002mpk.2_Silent_p.T82T|ILF3_uc010xli.1_Intron|ILF3_uc002mpo.2_Silent_p.T82T	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	82					M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			AACAGAAGACGGAGCACATGA	0.582													78	185	---	---	---	---	PASS	A	10782046	A	A	10782046	2	1	82	1	0	0	0	0	0	0	0	1	7712	1103	39	1		1	ILF3	19	10782046	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	650631	10782046	48346937	370	31873										
ZNF625	90589	broad.mit.edu	37	chr19	12256217	12256217	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctcgaggcacatccaaaggcTttaccacattgtttacattc	6	12	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:12256217T>C	uc002mth.2	-	4	1166	c.816A>G	c.(814-816)AAA>AAG	p.K272K	ZNF20_uc002mtg.1_Intron|ZNF625_uc010dyn.1_RNA|ZNF625_uc010dyo.1_Silent_p.K306K	NM_145233	NP_660276	Q96I27	ZN625_HUMAN	zinc finger protein 625	272	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATCCAAAGGCTTTACCACATT	0.473													3	174	---	---	---	---	PASS	C	12256217	C	C	12256217	2	2	82	1	0	0	0	0	0	0	0	1	18046	1606	56	5		5	ZNF625	19	12256217	Silent	SNP	T	TCGA-39-5016-01A-01D-1441-08	1474171	12256217	46872766	371	31874										
FBXW9	84261	broad.mit.edu	37	chr19	12805660	12805660	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	agccacgtggccttcggccaGgcagaagtattcgacccagc	12	14	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:12805660G>C	uc010dyx.2	-	2	472	c.472C>G	c.(472-474)CTG>GTG	p.L158V	FBXW9_uc010xmp.1_Intron|FBXW9_uc002mum.1_Missense_Mutation_p.L168V|FBXW9_uc002mun.1_Intron	NM_032301	NP_115677	Q5XUX1	FBXW9_HUMAN	F-box and WD-40 domain protein 9	168							protein binding			ovary(1)	1						CCTTCGGCCAGGCAGAAGTAT	0.657													12	31	---	---	---	---	PASS	C	12805660	C	C	12805660	3	2	82	1	0	0	0	0	1	0	0	0	5771	991	35	4	910	4	FBXW9	19	12805660	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	549443	12805660	46323323	372	31875										
PLVAP	83483	broad.mit.edu	37	chr19	17487871	17487871	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tggactgggaggccgtgagcCctaggagctgactgtatagg	17	8	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:17487871C>T	uc002ngk.1	-	1	277	c.227G>A	c.(226-228)GGG>GAG	p.G76E		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	76	Potential.|Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						GGCCGTGAGCCCTAGGAGCTG	0.612													11	64	---	---	---	---	PASS	T	17487871	T	T	17487871	3	4	82	1	0	0	0	0	1	0	0	0	12116	623	22	3	1125	3	PLVAP	19	17487871	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	4682211	17487871	41641112	373	31876										
FCHO1	23149	broad.mit.edu	37	chr19	17875189	17875189	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cattctcctccccagggccaCcatcgaggagacctactcga	8	17	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:17875189C>A	uc010ebb.2	+	5	314	c.125C>A	c.(124-126)ACC>AAC	p.T42N	FCHO1_uc002nhg.3_Missense_Mutation_p.T42N|FCHO1_uc002nhh.2_Missense_Mutation_p.T42N|FCHO1_uc010xpw.1_5'UTR|FCHO1_uc010ebc.1_Missense_Mutation_p.T49N	NM_001161358	NP_001154830	O14526	FCHO1_HUMAN	FCH domain only 1 isoform b	42	FCH.									breast(1)	1						CCCAGGGCCACCATCGAGGAG	0.423													24	63	---	---	---	---	PASS	A	17875189	A	A	17875189	3	1	82	1	0	0	0	0	1	0	0	0	5787	507	18	3	135	3	FCHO1	19	17875189	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	387318	17875189	41253794	374	31877										
KLHL26	55295	broad.mit.edu	37	chr19	18778613	18778613	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acctggactgcgtgcaggacGtgctgggcgcggccgtgttc	17	12	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:18778613G>T	uc002njz.1	+	3	433	c.406G>T	c.(406-408)GTG>TTG	p.V136L		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	136										ovary(1)	1						CGTGCAGGACGTGCTGGGCGC	0.657													37	65	---	---	---	---	PASS	T	18778613	T	T	18778613	3	4	82	1	0	0	0	0	1	0	0	0	8381	1145	40	1	416	1	KLHL26	19	18778613	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	903424	18778613	40350370	375	31878										
DMKN	93099	broad.mit.edu	37	chr19	36002311	36002311	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tccacagaggtgccaaactcAcccaggaggactcactgccg	10	15	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:36002311A>T	uc002nzm.3	-	5	1101	c.918_splice	c.e5+1	p.W306_splice	DMKN_uc002nzj.2_5'Flank|DMKN_uc002nzk.3_5'Flank|DMKN_uc002nzl.3_5'Flank|DMKN_uc002nzo.3_Intron|DMKN_uc002nzn.3_Intron|DMKN_uc002nzw.2_5'Flank|DMKN_uc002nzr.2_5'Flank|DMKN_uc002nzp.2_5'Flank|DMKN_uc002nzq.2_5'Flank|DMKN_uc002nzt.2_5'Flank|DMKN_uc002nzs.2_5'Flank|DMKN_uc002nzu.2_5'Flank|DMKN_uc002nzv.2_5'Flank|DMKN_uc010xsv.1_5'Flank|DMKN_uc010xsw.1_5'Flank|DMKN_uc002nzx.3_5'Flank|DMKN_uc002nzy.3_5'Flank|DMKN_uc002nzz.2_Intron|DMKN_uc002oac.3_Splice_Site_p.W306_splice|DMKN_uc010eeb.2_Splice_Site_p.W306_splice|DMKN_uc002oaa.3_Splice_Site_p.W306_splice|DMKN_uc002oab.3_Splice_Site_p.W306_splice	NM_033317	NP_201574	Q6E0U4	DMKN_HUMAN	dermokine isoform 2 precursor							extracellular region				large_intestine(1)|ovary(1)|skin(1)	3	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			TGCCAAACTCACCCAGGAGGA	0.408													14	45	---	---	---	---	PASS	T	36002311	T	T	36002311	5	4	82	1	0	0	0	0	0	0	1	0	4582	173	6	5	875	5	DMKN	19	36002311	Splice_Site	SNP	A	TCGA-39-5016-01A-01D-1441-08	17223698	36002311	23126672	376	31879										
ZNF540	163255	broad.mit.edu	37	chr19	38102578	38102578	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtgagtttgagggtcaacagGgacttaaagaaagatctatc	12	5	2	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:38102578G>A	uc002ogq.2	+	5	729	c.397G>A	c.(397-399)GGA>AGA	p.G133R	ZNF540_uc002ogu.2_Missense_Mutation_p.G133R|ZNF540_uc010efq.2_Missense_Mutation_p.G101R	NM_152606	NP_689819	Q8NDQ6	ZN540_HUMAN	zinc finger protein 540	133					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GGGTCAACAGGGACTTAAAGA	0.338													39	247	---	---	---	---	PASS	A	38102578	A	A	38102578	3	1	82	1	0	0	0	0	1	0	0	0	17972	1233	43	3	411	3	ZNF540	19	38102578	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	2100267	38102578	21026405	377	31880										
ZNF540	163255	broad.mit.edu	37	chr19	38103723	38103723	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttctaccttactgaacaccaGagaattcacactggtgaaaa	6	10	2	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:38103723G>C	uc002ogq.2	+	5	1874	c.1542G>C	c.(1540-1542)CAG>CAC	p.Q514H	ZNF540_uc002ogu.2_Missense_Mutation_p.Q514H|ZNF540_uc010efq.2_Missense_Mutation_p.Q482H	NM_152606	NP_689819	Q8NDQ6	ZN540_HUMAN	zinc finger protein 540	514	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTGAACACCAGAGAATTCACA	0.358													23	132	---	---	---	---	PASS	C	38103723	C	C	38103723	3	2	82	1	0	0	0	0	1	0	0	0	17972	933	33	2	1556	2	ZNF540	19	38103723	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1145	38103723	21025260	378	31881										
CEACAM6	4680	broad.mit.edu	37	chr19	42260847	42260847	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcttgtgaatgaagaagcaaCcggacagttccatgtatacc	9	9	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:42260847C>A	uc002orm.2	+	2	553	c.404C>A	c.(403-405)ACC>AAC	p.T135N		NM_002483	NP_002474	P40199	CEAM6_HUMAN	carcinoembryonic antigen-related cell adhesion	135	Ig-like V-type.				cell-cell signaling|signal transduction	anchored to membrane|integral to plasma membrane				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(3;0.00575)|all cancers(3;0.0352)|Epithelial(262;0.0797)		GAAGAAGCAACCGGACAGTTC	0.488													139	333	---	---	---	---	PASS	A	42260847	A	A	42260847	3	1	82	1	0	0	0	0	1	0	0	0	3196	507	18	3	410	3	CEACAM6	19	42260847	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	4157124	42260847	16868136	379	31882										
ZNF229	7772	broad.mit.edu	37	chr19	44933308	44933308	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gctccggccaaagctcttccCgcactcgcatttgtagggtt	10	14	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:44933308C>G	uc002oze.1	-	6	2082	c.1648G>C	c.(1648-1650)GGG>CGG	p.G550R	ZNF229_uc010ejk.1_Missense_Mutation_p.G204R|ZNF229_uc010ejl.1_Missense_Mutation_p.G544R	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	550	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				AAGCTCTTCCCGCACTCGCAT	0.527													25	90	---	---	---	---	PASS	G	44933308	G	G	44933308	3	3	82	1	0	0	0	0	1	0	0	0	17779	652	23	4	833	4	ZNF229	19	44933308	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	2672461	44933308	14195675	380	31883										
PPFIA3	8541	broad.mit.edu	37	chr19	49636538	49636538	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gccgagtggttggacgacgcCaagcagaagctgcagcagac	15	11	0	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:49636538C>T	uc002pmr.2	+	9	1403	c.1071C>T	c.(1069-1071)GCC>GCT	p.A357A	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_Silent_p.A281A|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_Silent_p.A225A	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	357	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		TGGACGACGCCAAGCAGAAGC	0.682													9	34	---	---	---	---	PASS	T	49636538	T	T	49636538	2	4	82	1	0	0	0	0	0	0	0	1	12311	581	21	3		3	PPFIA3	19	49636538	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	4703230	49636538	9492445	381	31884										
U2AF2	11338	broad.mit.edu	37	chr19	56180887	56180887	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtgcagatgggcggccacccGactgaggtcctgtgcctcat	14	13	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:56180887G>C	uc002qlu.2	+	11	2177	c.1122G>C	c.(1120-1122)CCG>CCC	p.P374P	U2AF2_uc002qlt.2_Silent_p.P370P	NM_007279	NP_009210	P26368	U2AF2_HUMAN	U2 (RNU2) small nuclear RNA auxiliary factor 2	374					mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	nucleoplasm|spliceosomal complex	enzyme binding|nucleotide binding|RNA binding			ovary(1)	1		Colorectal(82;0.00244)|Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		GCGGCCACCCGACTGAGGTCC	0.637													12	9	---	---	---	---	PASS	C	56180887	C	C	56180887	2	2	82	1	0	0	0	0	0	0	0	1	16820	1045	37	2		2	U2AF2	19	56180887	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	6544349	56180887	2948096	382	31885										
NLRP5	126206	broad.mit.edu	37	chr19	56539242	56539242	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	taggaagtcagtgtttgacgGtgacgacctcatggttcaag	13	7	3	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr19:56539242G>A	uc002qmj.2	+	7	1643	c.1643G>A	c.(1642-1644)GGT>GAT	p.G548D	NLRP5_uc002qmi.2_Missense_Mutation_p.G529D	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	548	NACHT.					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)		GTGTTTGACGGTGACGACCTC	0.547													16	9	---	---	---	---	PASS	A	56539242	A	A	56539242	3	1	82	1	0	0	0	0	1	0	0	0	10480	1261	44	3	1669	3	NLRP5	19	56539242	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	358355	56539242	2589741	383	31886										
TMC2	117532	broad.mit.edu	37	chr20	2560663	2560663	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	atgtatggagttaaccttgtCctttttggcttaatatttgg	9	5	0	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:2560663C>A	uc002wgf.1	+	7	810	c.795C>A	c.(793-795)GTC>GTA	p.V265V	TMC2_uc002wgg.1_Silent_p.V249V|TMC2_uc010zpw.1_Silent_p.V97V|TMC2_uc010zpx.1_Silent_p.V96V	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	265	Helical; (Potential).					integral to membrane				ovary(3)	3						TTAACCTTGTCCTTTTTGGCT	0.403													46	139	---	---	---	---	PASS	A	2560663	A	A	2560663	2	1	82	1	0	0	0	0	0	0	0	1	15982	842	30	2		2	TMC2	20	2560663	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08		2560663	60464857	384	31887										
PRND	23627	broad.mit.edu	37	chr20	4705266	4705266	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ctcttcagccacctctctgcGgtccagacgaggggcatcaa	10	15	4	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:4705266G>T	uc002wkz.2	+	2	140	c.69G>T	c.(67-69)GCG>GCT	p.A23A		NM_012409	NP_036541	Q9UKY0	PRND_HUMAN	prion-like protein doppel preproprotein	23					protein homooligomerization	anchored to membrane|plasma membrane					0						ACCTCTCTGCGGTCCAGACGA	0.632													35	65	---	---	---	---	PASS	T	4705266	T	T	4705266	2	4	82	1	0	0	0	0	0	0	0	1	12543	1103	39	1		1	PRND	20	4705266	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	2144603	4705266	58320254	385	31888										
SNX5	27131	broad.mit.edu	37	chr20	17930812	17930812	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gctcttctaaagccaggctaTgtaagcaggctgcggtgtgg	14	9	2	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:17930812T>C	uc002wqc.2	-	8	841	c.755A>G	c.(754-756)CAT>CGT	p.H252R	SNX5_uc002wqb.2_RNA|SNX5_uc002wqd.2_Missense_Mutation_p.H252R|SNX5_uc002wqe.2_Missense_Mutation_p.H147R|SNX5_uc010zrt.1_Missense_Mutation_p.H252R	NM_014426	NP_055241	Q9Y5X3	SNX5_HUMAN	sorting nexin 5	252	BAR.				cell communication|pinocytosis|protein transport	cytoplasmic vesicle membrane|early endosome membrane|extrinsic to endosome membrane|extrinsic to internal side of plasma membrane|macropinocytic cup|phagocytic cup|ruffle	phosphatidylinositol binding			large_intestine(1)	1						AGCCAGGCTATGTAAGCAGGC	0.438													54	95	---	---	---	---	PASS	C	17930812	C	C	17930812	3	2	82	1	0	0	0	0	1	0	0	0	14905	1464	51	5	483	5	SNX5	20	17930812	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	13225546	17930812	45094708	386	31889										
CST4	1472	broad.mit.edu	37	chr20	23666577	23666577	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccagggacattctgtcctccCagggaacttcgtagatctcg	10	13	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:23666577C>A	uc002wto.1	-	3	436	c.380G>T	c.(379-381)TGG>TTG	p.W127L		NM_001899	NP_001890	P01036	CYTS_HUMAN	cystatin S precursor	127						extracellular region	cysteine-type endopeptidase inhibitor activity			breast(1)	1	Lung NSC(19;0.0789)|Colorectal(13;0.0993)|all_lung(19;0.169)					TCTGTCCTCCCAGGGAACTTC	0.542													29	44	---	---	---	---	PASS	A	23666577	A	A	23666577	3	1	82	1	0	0	0	0	1	0	0	0	3974	595	21	3	49	3	CST4	20	23666577	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	5735765	23666577	39358943	387	31890										
GGTLC1	92086	broad.mit.edu	37	chr20	23967233	23967233	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggcccggagctgggcagagaAgaactcggaggtcatgtcgc	17	10	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:23967233A>C	uc002wts.2	-	2	149	c.16T>G	c.(16-18)TTC>GTC	p.F6V	GGTLC1_uc002wtu.2_Missense_Mutation_p.F6V	NM_178312	NP_842564	Q9BX51	GGTL1_HUMAN	gamma-glutamyltransferase light chain 1	6							gamma-glutamyltransferase activity			ovary(1)	1						TGGGCAGAGAAGAACTCGGAG	0.647													19	90	---	---	---	---	PASS	C	23967233	C	C	23967233	3	2	82	1	0	0	0	0	1	0	0	0	6365	72	3	5	681	5	GGTLC1	20	23967233	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	300656	23967233	39058287	388	31891										
ABHD12	26090	broad.mit.edu	37	chr20	25284237	25284237	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcgtcctcagcgtgcaggatGagcaggggacaggagatgtg	17	8	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:25284237G>T	uc002wus.1	-	11	1116	c.978C>A	c.(976-978)CTC>CTA	p.L326L	ABHD12_uc002wuq.2_Silent_p.L326L|ABHD12_uc002wur.2_Silent_p.L325L|ABHD12_uc002wut.1_Silent_p.L325L|ABHD12_uc002wuu.1_Silent_p.L106L	NM_001042472	NP_001035937	Q8N2K0	ABD12_HUMAN	abhydrolase domain containing 12 isoform a	326	Extracellular (Potential).					integral to membrane	acylglycerol lipase activity			skin(1)	1						CGTGCAGGATGAGCAGGGGAC	0.612													34	83	---	---	---	---	PASS	T	25284237	T	T	25284237	2	4	82	1	0	0	0	0	0	0	0	1	76	1277	45	2		2	ABHD12	20	25284237	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	1317004	25284237	37741283	389	31892										
KIF3B	9371	broad.mit.edu	37	chr20	30898384	30898384	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttaaaagaagctaccaagatCaacctctccctttccgcttt	4	13	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:30898384C>A	uc002wxq.2	+	2	971	c.804C>A	c.(802-804)ATC>ATA	p.I268I	KIF3B_uc010ztv.1_Silent_p.I268I|KIF3B_uc010ztw.1_Silent_p.I268I	NM_004798	NP_004789	O15066	KIF3B_HUMAN	kinesin family member 3B	268	Kinesin-motor.				anterograde axon cargo transport|blood coagulation|determination of left/right symmetry|mitotic centrosome separation|plus-end-directed vesicle transport along microtubule|spindle assembly involved in mitosis	centrosome|cytosol|kinesin II complex|plus-end kinesin complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|Rho GTPase binding			central_nervous_system(3)|ovary(2)	5			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CTACCAAGATCAACCTCTCCC	0.502													16	118	---	---	---	---	PASS	A	30898384	A	A	30898384	2	1	82	1	0	0	0	0	0	0	0	1	8301	816	29	2		2	KIF3B	20	30898384	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	5614147	30898384	32127136	390	31893										
PPP1R16B	26051	broad.mit.edu	37	chr20	37464809	37464809	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aggcctcgctgaggaacgacGccgaggaaggtaggcccctc	15	13	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:37464809G>A	uc002xje.2	+	2	430	c.241G>A	c.(241-243)GCC>ACC	p.A81T	PPP1R16B_uc010ggc.2_Missense_Mutation_p.A81T	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	81					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GAGGAACGACGCCGAGGAAGG	0.647													11	71	---	---	---	---	PASS	A	37464809	A	A	37464809	3	1	82	1	0	0	0	0	1	0	0	0	12366	1087	38	1	243	1	PPP1R16B	20	37464809	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	6566425	37464809	25560711	391	31894										
L3MBTL	26013	broad.mit.edu	37	chr20	42161437	42161437	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccccacccctgggcttccagGtgggcatgaagctggaggct	14	14	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:42161437G>A	uc010zwh.1	+	12	1289	c.1243G>A	c.(1243-1245)GTG>ATG	p.V415M	L3MBTL_uc002xkl.2_Missense_Mutation_p.V347M|L3MBTL_uc002xkm.2_Missense_Mutation_p.V347M|L3MBTL_uc010ggl.2_Missense_Mutation_p.V347M|L3MBTL_uc002xkn.1_Missense_Mutation_p.V106M|L3MBTL_uc002xko.2_Translation_Start_Site	NM_015478	NP_056293	Q9Y468	LMBL1_HUMAN	l(3)mbt-like isoform I	347	MBT 2.				chromatin modification|hemopoiesis|negative regulation of transcription, DNA-dependent|regulation of megakaryocyte differentiation|regulation of mitosis	chromatin|condensed chromosome|nucleoplasm	identical protein binding|methylated histone residue binding|nucleosomal histone binding|SAM domain binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			GGGCTTCCAGGTGGGCATGAA	0.607													124	200	---	---	---	---	PASS	A	42161437	A	A	42161437	3	1	82	1	0	0	0	0	1	0	0	0	8591	1261	44	3	1073	3	L3MBTL	20	42161437	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	4696628	42161437	20864083	392	31895										
SPATA2	9825	broad.mit.edu	37	chr20	48522387	48522387	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttggatttggagtgaaggtgCgggaggcggtcgaggccctg	20	6	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:48522387C>T	uc010gie.2	-	3	1682	c.1332G>A	c.(1330-1332)CCG>CCA	p.P444P	SPATA2_uc002xuw.2_Silent_p.P444P|SPATA2_uc010zyn.1_Silent_p.P307P	NM_001135773	NP_001129245	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	444					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			AGTGAAGGTGCGGGAGGCGGT	0.652													27	133	---	---	---	---	PASS	T	48522387	T	T	48522387	2	4	82	1	0	0	0	0	0	0	0	1	15004	755	27	1		1	SPATA2	20	48522387	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	6360950	48522387	14503133	393	31896										
ATP9A	10079	broad.mit.edu	37	chr20	50245527	50245527	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	catcacacttacctcttcctCcaaccagtcattgtactgca	3	16	3	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:50245527C>T	uc002xwg.1	-	16	1753	c.1753G>A	c.(1753-1755)GAG>AAG	p.E585K	ATP9A_uc010gih.1_Missense_Mutation_p.E449K|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	585	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						ACCTCTTCCTCCAACCAGTCA	0.478													21	160	---	---	---	---	PASS	T	50245527	T	T	50245527	3	4	82	1	0	0	0	0	1	0	0	0	1198	864	30	2	1442	2	ATP9A	20	50245527	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	1723140	50245527	12779993	394	31897										
CABLES2	81928	broad.mit.edu	37	chr20	60967462	60967462	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cacctcctgattttgctcagCgtcagtttgacatgggggaa	11	10	2	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:60967462C>T	uc002ycv.2	-	8	1081	c.1074G>A	c.(1072-1074)ACG>ACA	p.T358T		NM_031215	NP_112492	Q9BTV7	CABL2_HUMAN	Cdk5 and Abl enzyme substrate 2	358					cell cycle|cell division|regulation of cell cycle|regulation of cell division		cyclin-dependent protein kinase regulator activity			pancreas(1)	1	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			TTTTGCTCAGCGTCAGTTTGA	0.527													27	122	---	---	---	---	PASS	T	60967462	T	T	60967462	2	4	82	1	0	0	0	0	0	0	0	1	2530	755	27	1		1	CABLES2	20	60967462	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	10721935	60967462	2058058	395	31898										
CABLES2	81928	broad.mit.edu	37	chr20	60967492	60967492	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	acatgggggaacttctccctGaaggtctcgttcatgtcctt	10	11	3	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:60967492G>A	uc002ycv.2	-	8	1051	c.1044C>T	c.(1042-1044)TTC>TTT	p.F348F		NM_031215	NP_112492	Q9BTV7	CABL2_HUMAN	Cdk5 and Abl enzyme substrate 2	348					cell cycle|cell division|regulation of cell cycle|regulation of cell division		cyclin-dependent protein kinase regulator activity			pancreas(1)	1	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			ACTTCTCCCTGAAGGTCTCGT	0.572													33	137	---	---	---	---	PASS	A	60967492	A	A	60967492	2	1	82	1	0	0	0	0	0	0	0	1	2530	1281	45	2		2	CABLES2	20	60967492	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	30	60967492	2058028	396	31899										
C20orf151	140893	broad.mit.edu	37	chr20	60987708	60987708	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ccaggctccgaggcccgcttCctcttccgtggtggaccctg	12	17	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr20:60987708C>T	uc002ycw.1	-	13	2005	c.1848G>A	c.(1846-1848)AGG>AGA	p.R616R		NM_080833	NP_543023	Q8NC74	CT151_HUMAN	hypothetical protein LOC140893	616											0	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;6.43e-06)			AGGCCCGCTTCCTCTTCCGTG	0.697													23	75	---	---	---	---	PASS	T	60987708	T	T	60987708	2	4	82	1	0	0	0	0	0	0	0	1	2091	854	30	2		2	C20orf151	20	60987708	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	20216	60987708	2037812	397	31900										
TPTE	7179	broad.mit.edu	37	chr21	10921956	10921956	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttgcagttgaacatatttcaGaggcaataaggaaggcacaa	10	6	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr21:10921956G>T	uc002yip.1	-	18	1435	c.1067C>A	c.(1066-1068)TCT>TAT	p.S356Y	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.S338Y|TPTE_uc002yir.1_Missense_Mutation_p.S318Y|TPTE_uc010gkv.1_Missense_Mutation_p.S218Y	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	356	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ACATATTTCAGAGGCAATAAG	0.343													17	191	---	---	---	---	PASS	T	10921956	T	T	10921956	3	4	82	1	0	0	0	0	1	0	0	0	16427	942	33	2	616	2	TPTE	21	10921956	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08		10921956	37207939	398	31901										
HUNK	30811	broad.mit.edu	37	chr21	33368230	33368230	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	aaagccctcctgaaggaccgGaaggcctccaagtccagctt	10	14	0	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr21:33368230G>T	uc002yph.2	+	10	1815	c.1455G>T	c.(1453-1455)CGG>CGT	p.R485R		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	485					multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						TGAAGGACCGGAAGGCCTCCA	0.572													8	31	---	---	---	---	PASS	T	33368230	T	T	33368230	2	4	82	1	0	0	0	0	0	0	0	1	7458	1161	41	2		2	HUNK	21	33368230	Silent	SNP	G	TCGA-39-5016-01A-01D-1441-08	22446274	33368230	14761665	399	31902										
KRTAP10-5	386680	broad.mit.edu	37	chr21	45999822	45999822	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggagggtctgcagcaggaggTggtgcagcaagccggctgac	19	9	1	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr21:45999822T>C	uc002zfl.1	-	1	660	c.634A>G	c.(634-636)ACC>GCC	p.T212A	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198694	NP_941967	P60370	KR105_HUMAN	keratin associated protein 10-5	212	22 X 5 AA repeats of C-C-X(3).|18.					keratin filament					0						CAGCAGGAGGTGGTGCAGCAA	0.647													7	143	---	---	---	---	PASS	C	45999822	C	C	45999822	3	2	82	1	0	0	0	0	1	0	0	0	8512	1696	59	5	185	5	KRTAP10-5	21	45999822	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	12631592	45999822	2130073	400	31903										
LARGE	9215	broad.mit.edu	37	chr22	33960856	33960856	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ttgaacttgtggaacacagcCcacagctctgcaatgtcagt	9	11	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr22:33960856C>A	uc003and.3	-	7	1344	c.765G>T	c.(763-765)TGG>TGT	p.W255C	LARGE_uc011amd.1_Missense_Mutation_p.W54C|LARGE_uc003ane.3_Missense_Mutation_p.W255C|LARGE_uc010gwp.2_Missense_Mutation_p.W255C|LARGE_uc011ame.1_Missense_Mutation_p.W187C|LARGE_uc011amf.1_Missense_Mutation_p.W255C|LARGE_uc010gwq.1_RNA	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	255	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				GGAACACAGCCCACAGCTCTG	0.468													94	80	---	---	---	---	PASS	A	33960856	A	A	33960856	3	1	82	1	0	0	0	0	1	0	0	0	8627	624	22	3	1545	3	LARGE	22	33960856	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08		33960856	17343710	401	31904										
CACNA1I	8911	broad.mit.edu	37	chr22	39996588	39996588	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgctcaagatggtggccctgGggatttttggcaagaagtgc	15	7	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr22:39996588G>A	uc003ayc.2	+	3	412	c.412G>A	c.(412-414)GGG>AGG	p.G138R	CACNA1I_uc003ayd.2_Missense_Mutation_p.G138R|CACNA1I_uc003aye.2_Missense_Mutation_p.G53R|CACNA1I_uc003ayf.2_Missense_Mutation_p.G53R	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	138	I.|Helical; Name=S2 of repeat I; (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	GGTGGCCCTGGGGATTTTTGG	0.562													18	28	---	---	---	---	PASS	A	39996588	A	A	39996588	3	1	82	1	0	0	0	0	1	0	0	0	2546	1232	43	3	422	3	CACNA1I	22	39996588	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	6035732	39996588	11307978	402	31905										
MOV10L1	54456	broad.mit.edu	37	chr22	50564637	50564637	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tattttttaactaggtgataAactgattttaaaaactcaag	5	4	1	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chr22:50564637A>T	uc003bjj.2	+	12	1837	c.1754A>T	c.(1753-1755)AAA>ATA	p.K585I	MOV10L1_uc003bjk.3_Missense_Mutation_p.K585I|MOV10L1_uc011arp.1_Missense_Mutation_p.K565I|MOV10L1_uc011arq.1_Missense_Mutation_p.K346I|MOV10L1_uc010hao.1_Intron	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	585					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		CTAGGTGATAAACTGATTTTA	0.348													13	45	---	---	---	---	PASS	T	50564637	T	T	50564637	3	4	82	1	0	0	0	0	1	0	0	0	9719	14	1	5	1841	5	MOV10L1	22	50564637	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	10568049	50564637	739929	403	31906										
MAGEB6	158809	broad.mit.edu	37	chrX	26212893	26212893	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gaagaggaggtctgggagttCctgggtctgttggggatata	18	4	2	1			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chrX:26212893C>G	uc004dbr.2	+	2	1079	c.930C>G	c.(928-930)TTC>TTG	p.F310L	MAGEB6_uc010ngc.1_Missense_Mutation_p.F90L	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	310	MAGE.									ovary(3)	3						TCTGGGAGTTCCTGGGTCTGT	0.498													142	67	---	---	---	---	PASS	G	26212893	G	G	26212893	3	3	82	1	0	0	0	0	1	0	0	0	9179	854	30	2	932	2	MAGEB6	23	26212893	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08		26212893	129057667	404	31907										
DGKK	139189	broad.mit.edu	37	chrX	50213033	50213033	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tcagggggtcttttgcttacCtttattctggaccacgacat	9	10	3	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chrX:50213033C>T	uc010njr.1	-	1	705	c.645G>A	c.(643-645)AAG>AAA	p.K215K		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	215					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					TTTTGCTTACCTTTATTCTGG	0.478													19	14	---	---	---	---	PASS	T	50213033	T	T	50213033	2	4	82	1	0	0	0	0	0	0	0	1	4472	695	24	3		3	DGKK	23	50213033	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	24000140	50213033	105057527	405	31908										
TRO	7216	broad.mit.edu	37	chrX	54955360	54955360	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtaccagggctggcttcagcGatggtgctagtattagcttc	13	9	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chrX:54955360G>A	uc004dtq.2	+	12	2310	c.2203G>A	c.(2203-2205)GAT>AAT	p.D735N	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Missense_Mutation_p.D266N|TRO_uc004dtw.2_Missense_Mutation_p.D338N|TRO_uc004dtx.2_Missense_Mutation_p.D118N	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	735					embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						TGGCTTCAGCGATGGTGCTAG	0.527													11	8	---	---	---	---	PASS	A	54955360	A	A	54955360	3	1	82	1	0	0	0	0	1	0	0	0	16571	1058	37	2	2245	2	TRO	23	54955360	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	4742327	54955360	100315200	406	31909										
MTMR8	55613	broad.mit.edu	37	chrX	63488712	63488712	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cacaacagttatggtggaggTctgcaccctggctttttact	10	10	1	0	rs137876373		TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chrX:63488712T>C	uc004dvs.2	-	14	1888	c.1820A>G	c.(1819-1821)GAC>GGC	p.D607G	MTMR8_uc011mou.1_Intron	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	607						nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						ATGGTGGAGGTCTGCACCCTG	0.527													29	17	---	---	---	---	PASS	C	63488712	C	C	63488712	3	2	82	1	0	0	0	0	1	0	0	0	9949	1667	58	5	298	5	MTMR8	23	63488712	Missense_Mutation	SNP	T	TCGA-39-5016-01A-01D-1441-08	8533352	63488712	91781848	407	31910										
LAS1L	81887	broad.mit.edu	37	chrX	64749594	64749594	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	cccatcatcctgaggctctgGtttctgttctgtgatgtcat	9	11	5	2			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chrX:64749594G>C	uc004dwa.1	-	5	751	c.679C>G	c.(679-681)CCA>GCA	p.P227A	LAS1L_uc004dwc.1_Missense_Mutation_p.P227A|LAS1L_uc004dwd.1_Missense_Mutation_p.P185A	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	227						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						TGAGGCTCTGGTTTCTGTTCT	0.483													119	69	---	---	---	---	PASS	C	64749594	C	C	64749594	3	2	82	1	0	0	0	0	1	0	0	0	8636	1261	44	4	1565	4	LAS1L	23	64749594	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	1260882	64749594	90520966	408	31911										
PHKA1	5255	broad.mit.edu	37	chrX	71830999	71830999	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gctctctcactgtagcactcCgttcattatacaattcagtg	6	12	4	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chrX:71830999C>T	uc004eax.3	-	22	2706	c.2405G>A	c.(2404-2406)CGG>CAG	p.R802Q	PHKA1_uc004eay.3_Missense_Mutation_p.R802Q|PHKA1_uc011mqi.1_Missense_Mutation_p.R743Q	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	802					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity	p.R802W(1)		ovary(3)|skin(1)	4	Renal(35;0.156)					TGTAGCACTCCGTTCATTATA	0.428													20	45	---	---	---	---	PASS	T	71830999	T	T	71830999	3	4	82	1	0	0	0	0	1	0	0	0	11843	652	23	1	1310	1	PHKA1	23	71830999	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	7081405	71830999	83439561	409	31912										
MAGEE1	57692	broad.mit.edu	37	chrX	75650025	75650025	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	taaacaaactgggacctgtgCcctttgaagggttagaagag	12	7	0	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chrX:75650025C>T	uc004ecm.1	+	1	1909	c.1702C>T	c.(1702-1704)CCC>TCC	p.P568S		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	568	MAGE 1.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						GGGACCTGTGCCCTTTGAAGG	0.498													21	12	---	---	---	---	PASS	T	75650025	T	T	75650025	3	4	82	1	0	0	0	0	1	0	0	0	9185	739	26	3	1704	3	MAGEE1	23	75650025	Missense_Mutation	SNP	C	TCGA-39-5016-01A-01D-1441-08	3819026	75650025	79620535	410	31913										
PCDH11X	27328	broad.mit.edu	37	chrX	91134115	91134115	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tgaaactcccctgaattcgaAgcaccacatcatccaagaac	5	14	1	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chrX:91134115A>T	uc004efk.1	+	2	3721	c.2876A>T	c.(2875-2877)AAG>ATG	p.K959M	PCDH11X_uc004efl.1_Missense_Mutation_p.K959M|PCDH11X_uc004efo.1_Missense_Mutation_p.K959M|PCDH11X_uc010nmv.1_Missense_Mutation_p.K959M|PCDH11X_uc004efm.1_Missense_Mutation_p.K959M|PCDH11X_uc004efn.1_Missense_Mutation_p.K959M|PCDH11X_uc004efh.1_Missense_Mutation_p.K959M|PCDH11X_uc004efj.1_Missense_Mutation_p.K959M	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	959	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CTGAATTCGAAGCACCACATC	0.502													4	171	---	---	---	---	PASS	T	91134115	T	T	91134115	3	4	82	1	0	0	0	0	1	0	0	0	11508	72	3	5	2882	5	PCDH11X	23	91134115	Missense_Mutation	SNP	A	TCGA-39-5016-01A-01D-1441-08	15484090	91134115	64136445	411	31914										
GUCY2F	2986	broad.mit.edu	37	chrX	108625392	108625392	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	tccacttcatagccctcactCagattttgaagaattgtaac	5	11	3	3			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chrX:108625392C>A	uc004eod.3	-	17	3381	c.3105G>T	c.(3103-3105)CTG>CTT	p.L1035L	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	1035	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						AGCCCTCACTCAGATTTTGAA	0.423													113	69	---	---	---	---	PASS	A	108625392	A	A	108625392	2	1	82	1	0	0	0	0	0	0	0	1	6898	813	29	2		2	GUCY2F	23	108625392	Silent	SNP	C	TCGA-39-5016-01A-01D-1441-08	17491277	108625392	46645168	412	31915										
SPANXN2	494119	broad.mit.edu	37	chrX	142795233	142795233	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtccaggtcttcgtcctcctGtgaagatccttcagatgagt	10	11	2	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chrX:142795233G>T	uc004fbz.2	-	2	1199	c.445C>A	c.(445-447)CAG>AAG	p.Q149K		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	149										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TCGTCCTCCTGTGAAGATCCT	0.527													198	131	---	---	---	---	PASS	T	142795233	T	T	142795233	3	4	82	1	0	0	0	0	1	0	0	0	14991	1386	48	3	101	3	SPANXN2	23	142795233	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	34169841	142795233	12475327	413	31916										
SPANXN2	494119	broad.mit.edu	37	chrX	142795311	142795311	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	gtccaggtcttcgtcctcctGtgaagatccttcagatgagt	10	11	2	4			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chrX:142795311G>T	uc004fbz.2	-	2	1121	c.367C>A	c.(367-369)CAG>AAG	p.Q123K		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	123										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TCGTCCTCCTGTGAAGATCCT	0.522													14	275	---	---	---	---	PASS	T	142795311	T	T	142795311	3	4	82	1	0	0	0	0	1	0	0	0	14991	1386	48	3	179	3	SPANXN2	23	142795311	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	78	142795311	12475249	414	31917										
IRAK1	3654	broad.mit.edu	37	chrX	153279561	153279561	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0614250614250614	25	0.42074476027059	1.09652495795907	1.47372954349699	0.978648524978467	0.0466149783764657	0.26615648943982	0	ggccagctggcccaggcccaGgcccagctcaggtgggcagg	17	15	1	0			TCGA-39-5016-01A-01D-1441-08	TCGA-39-5016-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d63a0a46-7676-40f5-8e03-b8317d243c73	03c66691-71bc-4595-a00b-af12b4a12d93	g.chrX:153279561G>C	uc004fjs.1	-	11	1550	c.1471C>G	c.(1471-1473)CTG>GTG	p.L491V	IRAK1_uc004fjr.1_Missense_Mutation_p.L491V|IRAK1_uc004fjt.1_Intron|IRAK1_uc010nur.2_Intron|IRAK1_uc004fju.2_Missense_Mutation_p.L517V	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	491	Protein kinase.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|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|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCCAGGCCCAGGCCCAGCTCA	0.692													19	8	---	---	---	---	PASS	C	153279561	C	C	153279561	3	2	82	1	0	0	0	0	1	0	0	0	7821	991	35	4	683	4	IRAK1	23	153279561	Missense_Mutation	SNP	G	TCGA-39-5016-01A-01D-1441-08	10484250	153279561	1990999	415	31918										
PADI2	11240	broad.mit.edu	37	chr1	17422416	17422416	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctaggtaccttctttgggttGttcttctccaccacaccatc	6	14	3	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:17422416G>T	uc001baf.2	-	4	481	c.399C>A	c.(397-399)AAC>AAA	p.N133K	PADI2_uc010ocm.1_Missense_Mutation_p.N133K|PADI2_uc001bag.1_Missense_Mutation_p.N133K	NM_007365	NP_031391	Q9Y2J8	PADI2_HUMAN	peptidyl arginine deiminase, type II	133					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(3)|pancreas(1)|central_nervous_system(1)|skin(1)	6		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000422)|Renal(390;0.000518)|all_lung(284;0.000546)|Ovarian(437;0.00671)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;1.49e-05)|COAD - Colon adenocarcinoma(227;1.54e-05)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)	L-Citrulline(DB00155)	TCTTTGGGTTGTTCTTCTCCA	0.602													74	103	---	---	---	---	PASS	T	17422416	T	T	17422416	3	4	83	1	0	0	0	0	1	0	0	0	11378	1368	48	3	1650	3	PADI2	1	17422416	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08		17422416	231828205	1	31919										
CLCA2	9635	broad.mit.edu	37	chr1	86905984	86905984	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gttcatctgcagccccaaatCtggaggaattatcacgtctt	8	11	5	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:86905984C>A	uc001dlr.3	+	8	1519	c.1357C>A	c.(1357-1359)CTG>ATG	p.L453M		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor	453	VWFA.|Extracellular (Potential).				cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		AGCCCCAAATCTGGAGGAATT	0.423													5	66	---	---	---	---	PASS	A	86905984	A	A	86905984	3	1	83	1	0	0	0	0	1	0	0	0	3458	912	32	2	1387	2	CLCA2	1	86905984	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	69483568	86905984	162344637	2	31920										
LPPR5	163404	broad.mit.edu	37	chr1	99470041	99470041	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtagaggagcacggggggcaCggcgctgctgtcctccgggc	19	12	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:99470041C>A	uc001dsb.2	-	1	409	c.187G>T	c.(187-189)GTG>TTG	p.V63L	uc001dsd.1_RNA|LPPR5_uc001dsc.2_Missense_Mutation_p.V63L	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	63	Helical; (Potential).					integral to membrane	hydrolase activity				0						ACGGGGGGCACGGCGCTGCTG	0.697													13	28	---	---	---	---	PASS	A	99470041	A	A	99470041	3	1	83	1	0	0	0	0	1	0	0	0	8928	536	19	1	802	1	LPPR5	1	99470041	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	12564057	99470041	149780580	3	31921										
SYCP1	6847	broad.mit.edu	37	chr1	115420804	115420804	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gaatccagagataaagttaaTcaattagaggaaaagacaag	9	4	1	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:115420804T>A	uc001efr.2	+	12	1100	c.891T>A	c.(889-891)AAT>AAA	p.N297K	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.N297K|SYCP1_uc009wgw.2_Missense_Mutation_p.N297K	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	297	Potential.				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATAAAGTTAATCAATTAGAGG	0.269													8	73	---	---	---	---	PASS	A	115420804	A	A	115420804	3	1	83	1	0	0	0	0	1	0	0	0	15428	1432	50	5	933	5	SYCP1	1	115420804	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	15950763	115420804	133829817	4	31922										
FLG	2312	broad.mit.edu	37	chr1	152278012	152278012	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	acccctgccttcctcctctgCttgaccccgggtgtccacga	8	19	1	1	rs112911439		TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:152278012C>A	uc001ezu.1	-	3	9386	c.9350G>T	c.(9349-9351)AGC>ATC	p.S3117I		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3117	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCTCCTCTGCTTGACCCCGG	0.582									Ichthyosis				195	138	---	---	---	---	PASS	A	152278012	A	A	152278012	3	1	83	1	0	0	0	0	1	0	0	0	5922	797	28	3	2839	3	FLG	1	152278012	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	36857208	152278012	96972609	5	31923										
HAX1	10456	broad.mit.edu	37	chr1	154245822	154245822	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ccactctcagccacagagatCccttttttggagggatgact	9	12	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:154245822C>T	uc001fes.2	+	2	225	c.64C>T	c.(64-66)CCC>TCC	p.P22S	HAX1_uc001fet.2_Intron|HAX1_uc010peo.1_Missense_Mutation_p.P22S|HAX1_uc009wou.2_5'UTR|HAX1_uc009wov.2_5'UTR	NM_006118	NP_006109	O00165	HAX1_HUMAN	HCLS1 associated protein X-1 isoform a	22	Required for localization in mitochondria (By similarity).					actin cytoskeleton|cytoplasmic membrane-bounded vesicle|lamellipodium|mitochondrion|nuclear membrane|sarcoplasmic reticulum|soluble fraction	interleukin-1 binding|protein N-terminus binding				0	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CCACAGAGATCCCTTTTTTGG	0.488									Kostmann_syndrome				5	125	---	---	---	---	PASS	T	154245822	T	T	154245822	3	4	83	1	0	0	0	0	1	0	0	0	6975	855	30	2	70	2	HAX1	1	154245822	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	1967810	154245822	95004799	6	31924										
KCNN3	3782	broad.mit.edu	37	chr1	154680513	154680513	+	Frame_Shift_Del	DEL	C	-	-													0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tggagctgaccccaatggggCtatcggagattggggtgtgg							TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:154680513delC	uc001ffp.2	-	8	2449	c.2135delG	c.(2134-2136)AGCfs	p.S712fs	KCNN3_uc001ffo.2_Frame_Shift_Del_p.S407fs	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	717						integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			CCCAATGGGGCTATCGGAGAT	0.592													157	89	---	---	---	---		-	154680513	-	-	154680513	7	5	83	1	0	1	0	1	0	0	0	0	8080	797	28	0	64	0	KCNN3	1	154680513	Frame_Shift_Del	DEL	C	TCGA-39-5019-01A-01D-1817-08	434691	154680513	94570108	7	31925										
OR6K2	81448	broad.mit.edu	37	chr1	158669893	158669893	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtctgtgcaggccagacgcaGcactgggaggaagtcacaga	15	10	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:158669893G>A	uc001fsu.1	-	1	550	c.550C>T	c.(550-552)CTG>TTG	p.L184L		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	184	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					GCCAGACGCAGCACTGGGAGG	0.478													25	62	---	---	---	---	PASS	A	158669893	A	A	158669893	2	1	83	1	0	0	0	0	0	0	0	1	11202	962	34	3		3	OR6K2	1	158669893	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	3989380	158669893	90580728	8	31926										
OR6K2	81448	broad.mit.edu	37	chr1	158670088	158670088	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tatggccaggtagtggtcaaAggccataactgtcaagagac	12	8	2	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:158670088A>T	uc001fsu.1	-	1	355	c.355T>A	c.(355-357)TTT>ATT	p.F119I		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TAGTGGTCAAAGGCCATAACT	0.473													26	43	---	---	---	---	PASS	T	158670088	T	T	158670088	3	4	83	1	0	0	0	0	1	0	0	0	11202	72	3	5	623	5	OR6K2	1	158670088	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	195	158670088	90580533	9	31927										
DARC	2532	broad.mit.edu	37	chr1	159175750	159175750	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggggctcactgtgggaatttGgggagtggctgccctactga	17	8	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:159175750G>T	uc001fto.2	+	2	761	c.521G>T	c.(520-522)TGG>TTG	p.W174L	DARC_uc001ftp.3_Missense_Mutation_p.W176L	NM_002036	NP_002027	Q16570	DUFFY_HUMAN	Duffy blood group antigen isoform b	174	Helical; Name=4; (Potential).				defense response	integral to membrane|plasma membrane	C-C chemokine binding|chemokine receptor activity			ovary(1)|lung(1)	2	all_hematologic(112;0.0429)					GTGGGAATTTGGGGAGTGGCT	0.622													3	44	---	---	---	---	PASS	T	159175750	T	T	159175750	3	4	83	1	0	0	0	0	1	0	0	0	4240	1357	47	3	554	3	DARC	1	159175750	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	505662	159175750	90074871	10	31928										
DUSP27	92235	broad.mit.edu	37	chr1	167097527	167097527	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gagtcctcagaaagggaagaGtccccagaaccacagcgccc	11	14	1	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:167097527G>T	uc001geb.1	+	5	3159	c.3159G>T	c.(3157-3159)GAG>GAT	p.E1053D		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	1053					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						AAAGGGAAGAGTCCCCAGAAC	0.562													20	41	---	---	---	---	PASS	T	167097527	T	T	167097527	3	4	83	1	0	0	0	0	1	0	0	0	4824	1020	36	3	3177	3	DUSP27	1	167097527	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	7921777	167097527	82153094	11	31929										
SELP	6403	broad.mit.edu	37	chr1	169565276	169565276	+	Frame_Shift_Del	DEL	C	-	-													0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	agtaacaagtggtattaaaaCcaaaggttcccggatgatgc							TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:169565276delC	uc001ggi.3	-	12	2053	c.1988delG	c.(1987-1989)GGTfs	p.G663fs	SELP_uc001ggh.2_Frame_Shift_Del_p.G498fs|SELP_uc009wvr.2_Frame_Shift_Del_p.G663fs	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	663	Extracellular (Potential).|Sushi 8.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	GGTATTAAAACCAAAGGTTCC	0.512													184	106	---	---	---	---		-	169565276	-	-	169565276	7	5	83	1	0	1	0	1	0	0	0	0	14019	507	18	0	524	0	SELP	1	169565276	Frame_Shift_Del	DEL	C	TCGA-39-5019-01A-01D-1817-08	2467749	169565276	79685345	12	31930										
SELE	6401	broad.mit.edu	37	chr1	169702053	169702053	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aaccaggtgtgtgtacctttGctgacaataagcactggcct	10	10	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:169702053G>C	uc001ggm.3	-	3	281	c.124C>G	c.(124-126)CAA>GAA	p.Q42E	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	42	Extracellular (Potential).|C-type lectin.				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					GTGTACCTTTGCTGACAATAA	0.418													30	60	---	---	---	---	PASS	C	169702053	C	C	169702053	3	2	83	1	0	0	0	0	1	0	0	0	14013	1328	46	4	1752	4	SELE	1	169702053	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	136777	169702053	79548568	13	31931										
MYOC	4653	broad.mit.edu	37	chr1	171621272	171621272	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gccagattctcattttcttgCcttagtcgcttcttctcttc	5	13	4	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:171621272C>T	uc001ghu.2	-	1	502	c.480G>A	c.(478-480)AGG>AGA	p.R160R	MYOC_uc010pmk.1_Silent_p.R102R	NM_000261	NP_000252	Q99972	MYOC_HUMAN	myocilin precursor	160	Potential.				anatomical structure morphogenesis	cilium|extracellular space|rough endoplasmic reticulum	structural molecule activity			lung(1)	1	all_cancers(6;5.47e-10)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					CATTTTCTTGCCTTAGTCGCT	0.567													34	349	---	---	---	---	PASS	T	171621272	T	T	171621272	2	4	83	1	0	0	0	0	0	0	0	1	10086	738	26	3		3	MYOC	1	171621272	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	1919219	171621272	77629349	14	31932										
CEP350	9857	broad.mit.edu	37	chr1	179965809	179965809	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggatgataggcagtcgagaaGaacggaatatacggagctgt	15	5	0	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:179965809G>T	uc001gnt.2	+	6	900	c.517G>T	c.(517-519)GAA>TAA	p.E173*	CEP350_uc001gnr.1_Nonsense_Mutation_p.E147*|CEP350_uc009wxl.2_Nonsense_Mutation_p.E172*|CEP350_uc001gnu.2_Nonsense_Mutation_p.E7*	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	173						centrosome|nucleus|spindle				ovary(4)	4						CAGTCGAGAAGAACGGAATAT	0.403													6	27	---	---	---	---	PASS	T	179965809	T	T	179965809	4	4	83	1	0	0	0	0	0	1	0	0	3254	943	33	2	535	2	CEP350	1	179965809	Nonsense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	8344537	179965809	69284812	15	31933										
CDC73	79577	broad.mit.edu	37	chr1	193218963	193218963	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tatcacaaacgtcatttggaTagaccagtgttcttacggtt	8	8	3	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:193218963T>C	uc001gtb.2	+	16	1764	c.1521T>C	c.(1519-1521)GAT>GAC	p.D507D		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	507					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						GTCATTTGGATAGACCAGTGT	0.363									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				3	29	---	---	---	---	PASS	C	193218963	C	C	193218963	2	2	83	1	0	0	0	0	0	0	0	1	3085	1403	49	5		5	CDC73	1	193218963	Silent	SNP	T	TCGA-39-5019-01A-01D-1817-08	13253154	193218963	56031658	16	31934										
PTPRC	5788	broad.mit.edu	37	chr1	198721755	198721755	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cgaactgtgtaccagtaccaAtatacaaactggagtgtgga	10	8	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:198721755A>G	uc001gur.1	+	31	3537	c.3357A>G	c.(3355-3357)CAA>CAG	p.Q1119Q	PTPRC_uc001gus.1_Silent_p.Q1071Q|PTPRC_uc001gut.1_Silent_p.Q958Q	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	1119	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						ACCAGTACCAATATACAAACT	0.393													9	15	---	---	---	---	PASS	G	198721755	G	G	198721755	2	3	83	1	0	0	0	0	0	0	0	1	12797	98	4	5		5	PTPRC	1	198721755	Silent	SNP	A	TCGA-39-5019-01A-01D-1817-08	5502792	198721755	50528866	17	31935										
CR1	1378	broad.mit.edu	37	chr1	207680060	207680060	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttctgtttctttcctgtaggTaaatcatgtcgtaatcctcc	6	10	3	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:207680060T>C	uc001hfy.2	+	3	443	c.303T>C	c.(301-303)CGT>CGC	p.R101R	CR1_uc009xcl.1_Silent_p.R101R|CR1_uc001hfx.2_Silent_p.R101R|CR1_uc010psg.1_Silent_p.R101R|CR1_uc009xcj.1_Silent_p.R101R|CR1_uc009xck.1_Silent_p.R101R	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	101	Sushi 1.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TTCCTGTAGGTAAATCATGTC	0.393													11	76	---	---	---	---	PASS	C	207680060	C	C	207680060	2	2	83	1	0	0	0	0	0	0	0	1	3840	1652	57	5		5	CR1	1	207680060	Silent	SNP	T	TCGA-39-5019-01A-01D-1817-08	8958305	207680060	41570561	18	31936										
FAM71A	149647	broad.mit.edu	37	chr1	212798756	212798756	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctcttgcggccacccatggaGagtaacagcagtacctgtgg	12	12	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:212798756G>T	uc001hjk.2	+	1	941	c.537G>T	c.(535-537)GAG>GAT	p.E179D	uc010pth.1_RNA	NM_153606	NP_705834	Q8IYT1	FA71A_HUMAN	hypothetical protein LOC149647	179										skin(3)|ovary(1)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00631)|all cancers(67;0.00981)|GBM - Glioblastoma multiforme(131;0.0715)|Epithelial(68;0.094)		CACCCATGGAGAGTAACAGCA	0.507													20	209	---	---	---	---	PASS	T	212798756	T	T	212798756	3	4	83	1	0	0	0	0	1	0	0	0	5607	933	33	2	539	2	FAM71A	1	212798756	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	5118696	212798756	36451865	19	31937										
PROX1	5629	broad.mit.edu	37	chr1	214209146	214209146	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ccctgagattttcaaatcccCgaactgcctacaagagctgc	7	14	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:214209146C>T	uc001hkh.2	+	5	2455	c.2183C>T	c.(2182-2184)CCG>CTG	p.P728L		NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	728	Prospero-like.				aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		TTCAAATCCCCGAACTGCCTA	0.428													4	45	---	---	---	---	PASS	T	214209146	T	T	214209146	3	4	83	1	0	0	0	0	1	0	0	0	12560	652	23	1	2197	1	PROX1	1	214209146	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	1410390	214209146	35041475	20	31938										
TARBP1	6894	broad.mit.edu	37	chr1	234561477	234561477	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	acttgtgggacatattggagCcatctaataaacacaggaat	9	7	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:234561477C>A	uc001hwd.2	-	20	3386	c.3386G>T	c.(3385-3387)GGC>GTC	p.G1129V		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	1129					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			CATATTGGAGCCATCTAATAA	0.274													20	35	---	---	---	---	PASS	A	234561477	A	A	234561477	3	1	83	1	0	0	0	0	1	0	0	0	15552	739	26	3	1523	3	TARBP1	1	234561477	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	20352331	234561477	14689144	21	31939										
OR2L2	26246	broad.mit.edu	37	chr1	248201738	248201738	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tggacatccatctccacacaCctatgtatttcctacttagt	4	13	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:248201738C>G	uc001idw.2	+	1	265	c.169C>G	c.(169-171)CCT>GCT	p.P57A	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TCTCCACACACCTATGTATTT	0.323													22	170	---	---	---	---	PASS	G	248201738	G	G	248201738	3	3	83	1	0	0	0	0	1	0	0	0	11007	507	18	4	171	4	OR2L2	1	248201738	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	13640261	248201738	1048883	22	31940										
OR2T1	26696	broad.mit.edu	37	chr1	248570189	248570189	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tcatcccacatgactgtggtGtccttgttctacggggctgc	11	12	2	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr1:248570189G>A	uc010pzm.1	+	1	894	c.894G>A	c.(892-894)GTG>GTA	p.V298V		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	298	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGACTGTGGTGTCCTTGTTCT	0.512													43	59	---	---	---	---	PASS	A	248570189	A	A	248570189	2	1	83	1	0	0	0	0	0	0	0	1	11016	1364	48	3		3	OR2T1	1	248570189	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	368451	248570189	680432	23	31941										
TMEM18	129787	broad.mit.edu	37	chr2	669658	669658	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tcagtcatcacattcaaagtCttccatacccacataaccta	2	14	5	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:669658C>T	uc002qwl.2	-	5	439	c.345G>A	c.(343-345)AAG>AAA	p.K115K	TMEM18_uc002qwk.2_RNA	NM_152834	NP_690047	Q96B42	TMM18_HUMAN	transmembrane protein 18	115					cell migration	integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;5.27e-05)|all_epithelial(98;2.11e-06)|Ovarian(717;0.0253)		all cancers(51;1.95e-21)|Epithelial(75;9.47e-21)|OV - Ovarian serous cystadenocarcinoma(76;8.15e-18)|GBM - Glioblastoma multiforme(21;0.0285)		CATTCAAAGTCTTCCATACCC	0.328													22	53	---	---	---	---	PASS	T	669658	T	T	669658	2	4	83	1	0	0	0	0	0	0	0	1	16095	912	32	2		2	TMEM18	2	669658	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08		669658	242529715	24	31942										
RNF144A	9781	broad.mit.edu	37	chr2	7137071	7137071	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttctgcgatgaccacaacaaGgtaccggcccacctgggacc	10	15	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:7137071G>C	uc002qys.2	+	3	456	c.14G>C	c.(13-15)AGG>ACG	p.R5T	RNF144A_uc002qyt.2_Intron	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	5						Golgi apparatus|integral to membrane	ligase activity|zinc ion binding	p.R5R(1)		ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		ACCACAACAAGGTACCGGCCC	0.607													4	63	---	---	---	---	PASS	C	7137071	C	C	7137071	3	2	83	1	0	0	0	0	1	0	0	0	13445	1000	35	4	16	4	RNF144A	2	7137071	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	6467413	7137071	236062302	25	31943										
GREB1	9687	broad.mit.edu	37	chr2	11758996	11758996	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cggcaaccgggccgagggccGcgtggacggcttccaccccc	15	18	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:11758996G>T	uc002rbk.1	+	22	4295	c.3995G>T	c.(3994-3996)CGC>CTC	p.R1332L	GREB1_uc002rbp.1_Missense_Mutation_p.R330L	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1332						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)		GCCGAGGGCCGCGTGGACGGC	0.701													7	21	---	---	---	---	PASS	T	11758996	T	T	11758996	3	4	83	1	0	0	0	0	1	0	0	0	6760	1087	38	1	4185	1	GREB1	2	11758996	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	4621925	11758996	231440377	26	31944										
WDR35	57539	broad.mit.edu	37	chr2	20131147	20131147	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	acacgtaaaggtttacttccTttctttgcctcttcatctgc	5	12	4	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:20131147T>C	uc002rdi.2	-	25	2988	c.2880A>G	c.(2878-2880)AAA>AAG	p.K960K	WDR35_uc002rdj.2_Silent_p.K949K|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Silent_p.K433K	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	960										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTTTACTTCCTTTCTTTGCCT	0.343													3	39	---	---	---	---	PASS	C	20131147	C	C	20131147	2	2	83	1	0	0	0	0	0	0	0	1	17286	1606	56	5		5	WDR35	2	20131147	Silent	SNP	T	TCGA-39-5019-01A-01D-1817-08	8372151	20131147	223068226	27	31945										
SNX17	9784	broad.mit.edu	37	chr2	27599539	27599539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cagatgccagtgccagtgatGtccacggcaatttcgccttc	10	13	0	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:27599539G>T	uc002rkg.1	+	15	1588	c.1366G>T	c.(1366-1368)GTC>TTC	p.V456F	SNX17_uc010ylj.1_Missense_Mutation_p.V436F|SNX17_uc010ylk.1_Missense_Mutation_p.V242F|SNX17_uc010eza.1_Missense_Mutation_p.V242F|SNX17_uc002rki.1_RNA|SNX17_uc002rkh.1_Missense_Mutation_p.V242F|SNX17_uc010yll.1_Missense_Mutation_p.V242F|SNX17_uc010ylm.1_Missense_Mutation_p.V242F|SNX17_uc010yln.1_Missense_Mutation_p.V444F|SNX17_uc010ylo.1_Missense_Mutation_p.V374F|SNX17_uc010ylp.1_Missense_Mutation_p.V431F|SNX17_uc010ylq.1_Missense_Mutation_p.V242F	NM_014748	NP_055563	Q15036	SNX17_HUMAN	sorting nexin 17	456					cell communication|endosome transport|intracellular protein transport|regulation of endocytosis|signal transduction	cytoplasmic vesicle membrane|cytosol|early endosome|Golgi apparatus	low-density lipoprotein particle receptor binding|phosphatidylinositol binding|protein C-terminus binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGCCAGTGATGTCCACGGCAA	0.532													39	48	---	---	---	---	PASS	T	27599539	T	T	27599539	3	4	83	1	0	0	0	0	1	0	0	0	14888	1377	48	3	1424	3	SNX17	2	27599539	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	7468392	27599539	215599834	28	31946										
SPAST	6683	broad.mit.edu	37	chr2	32361662	32361662	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gagagaaattggtgagggctCtttttgctgtggctcgagaa	15	5	1	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:32361662C>G	uc002roc.2	+	10	1497	c.1276C>G	c.(1276-1278)CTT>GTT	p.L426V	SPAST_uc002rod.2_Missense_Mutation_p.L394V	NM_014946	NP_055761	Q9UBP0	SPAST_HUMAN	spastin isoform 1	426	Sufficient for microtubule severing.		L -> V (in SPG4; promotes microtubule binding and the formation of thick microtubule bundles).		cell cycle|cell death|cell differentiation|cytokinesis, completion of separation|ER to Golgi vesicle-mediated transport|microtubule bundle formation|microtubule severing|nervous system development|protein hexamerization|protein homooligomerization	endoplasmic reticulum|endosome|integral to membrane|microtubule|microtubule organizing center|nucleus|perinuclear region of cytoplasm|spindle	alpha-tubulin binding|ATP binding|beta-tubulin binding|microtubule binding|microtubule-severing ATPase activity			breast(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					GGTGAGGGCTCTTTTTGCTGT	0.323													12	94	---	---	---	---	PASS	G	32361662	G	G	32361662	3	3	83	1	0	0	0	0	1	0	0	0	14996	913	32	2	1314	2	SPAST	2	32361662	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	4762123	32361662	210837711	29	31947										
SLC8A1	6546	broad.mit.edu	37	chr2	40656652	40656652	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtagacatacttgtaaaacaGaagtctcctatccgctaccc	6	12	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:40656652G>A	uc002rrx.2	-	1	793	c.769C>T	c.(769-771)CTG>TTG	p.L257L	SLC8A1_uc002rry.2_Silent_p.L257L|SLC8A1_uc002rrz.2_Silent_p.L257L|SLC8A1_uc002rsa.2_Silent_p.L257L|SLC8A1_uc002rsd.3_Silent_p.L257L|SLC8A1_uc002rsb.1_Silent_p.L257L|SLC8A1_uc010fan.1_Silent_p.L257L|SLC8A1_uc002rsc.1_Silent_p.L257L	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	257	Calmodulin-binding (Potential).|Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	TTGTAAAACAGAAGTCTCCTA	0.448													15	128	---	---	---	---	PASS	A	40656652	A	A	40656652	2	1	83	1	0	0	0	0	0	0	0	1	14706	933	33	2		2	SLC8A1	2	40656652	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	8294990	40656652	202542721	30	31948										
ZFP36L2	678	broad.mit.edu	37	chr2	43452225	43452225	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gaagcccaggtgcaacgcatCgcgcgtgccaaaggcacgca	13	14	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:43452225C>T	uc002rsv.3	-	2	1009	c.718G>A	c.(718-720)GAT>AAT	p.D240N	LOC100129726_uc010ynx.1_5'Flank	NM_006887	NP_008818	P47974	TISD_HUMAN	zinc finger protein 36, C3H type-like 2	240					cell proliferation	nucleus	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(82;0.00323)|all_hematologic(82;0.00824)				TGCAACGCATCGCGCGTGCCA	0.612													5	43	---	---	---	---	PASS	T	43452225	T	T	43452225	3	4	83	1	0	0	0	0	1	0	0	0	17644	884	31	2	770	2	ZFP36L2	2	43452225	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	2795573	43452225	199747148	31	31949										
THADA	63892	broad.mit.edu	37	chr2	43520205	43520205	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctccactcttggctgccgcgGcccacactgcagcaatggct	10	17	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:43520205G>A	uc002rsw.3	-	32	4938	c.4586C>T	c.(4585-4587)GCC>GTC	p.A1529V	THADA_uc010far.2_Missense_Mutation_p.A724V|THADA_uc002rsx.3_Missense_Mutation_p.A1529V|THADA_uc002rsy.3_RNA	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1529	Poly-Ala.						binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				GGCTGCCGCGGCCCACACTGC	0.577													11	91	---	---	---	---	PASS	A	43520205	A	A	43520205	3	1	83	1	0	0	0	0	1	0	0	0	15837	1203	42	3	1303	3	THADA	2	43520205	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	67980	43520205	199679168	32	31950										
SOCS5	9655	broad.mit.edu	37	chr2	46986955	46986955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	caacagatccctgcatgcccGaattgagcagtggaatcaca	9	12	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:46986955G>T	uc002rvf.2	+	2	1450	c.1286G>T	c.(1285-1287)CGA>CTA	p.R429L	SOCS5_uc010yoe.1_Missense_Mutation_p.R398L|SOCS5_uc002rvg.2_Missense_Mutation_p.R429L	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	429	SH2.				cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth			p.R429*(1)|p.R429Q(1)		ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			CTGCATGCCCGAATTGAGCAG	0.498													63	77	---	---	---	---	PASS	T	46986955	T	T	46986955	3	4	83	1	0	0	0	0	1	0	0	0	14917	1058	37	2	1288	2	SOCS5	2	46986955	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	3466750	46986955	196212418	33	31951										
SMEK2	57223	broad.mit.edu	37	chr2	55795348	55795348	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	accactcttataaattcaaaCaactcaataacagctgaatt	2	10	3	1	rs143418918	byFrequency	TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:55795348C>G	uc002rzc.2	-	13	2292	c.1917G>C	c.(1915-1917)TTG>TTC	p.L639F	SMEK2_uc002rzb.2_Missense_Mutation_p.L554F|SMEK2_uc002rzd.2_Missense_Mutation_p.L607F|SMEK2_uc002ryz.2_Missense_Mutation_p.L73F|SMEK2_uc002rza.2_Missense_Mutation_p.L430F	NM_001122964	NP_001116436	Q5MIZ7	P4R3B_HUMAN	SMEK homolog 2, suppressor of mek1 isoform 1	639						microtubule organizing center|nucleus	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TAAATTCAAACAACTCAATAA	0.269													6	30	---	---	---	---	PASS	G	55795348	G	G	55795348	3	3	83	1	0	0	0	0	1	0	0	0	14794	477	17	4	652	4	SMEK2	2	55795348	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	8808393	55795348	187404025	34	31952										
IMMT	10989	broad.mit.edu	37	chr2	86374846	86374846	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tgctcaaattcagacttcaaTtcctgttcttgtaccctaag	5	11	4	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:86374846T>A	uc002sqz.3	-	13	1900	c.1512A>T	c.(1510-1512)GAA>GAT	p.E504D	IMMT_uc002sqy.3_Missense_Mutation_p.E245D|IMMT_uc002srb.3_Missense_Mutation_p.E493D|IMMT_uc002sra.3_Missense_Mutation_p.E503D|IMMT_uc010ytd.1_Missense_Mutation_p.E492D|IMMT_uc010yte.1_Missense_Mutation_p.E457D|IMMT_uc002src.1_Missense_Mutation_p.E240D	NM_006839	NP_006830	Q16891	IMMT_HUMAN	inner membrane protein, mitochondrial isoform 1	504	Mitochondrial intermembrane (Potential).					integral to mitochondrial inner membrane	protein binding			skin(1)	1						CAGACTTCAATTCCTGTTCTT	0.488													10	87	---	---	---	---	PASS	A	86374846	A	A	86374846	3	1	83	1	0	0	0	0	1	0	0	0	7718	1490	52	5	776	5	IMMT	2	86374846	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	30579498	86374846	156824527	35	31953										
ITPRIPL1	150771	broad.mit.edu	37	chr2	96993095	96993095	+	Frame_Shift_Del	DEL	C	-	-													0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gatatcctggtgcccattgtCcccccacagggcaccatgtt							TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:96993095delC	uc002svx.2	+	3	1061	c.726delC	c.(724-726)GTCfs	p.V242fs	ITPRIPL1_uc010yuk.1_Frame_Shift_Del_p.V234fs|ITPRIPL1_uc002svy.2_Frame_Shift_Del_p.V250fs|ITPRIPL1_uc010yul.1_Frame_Shift_Del_p.V234fs	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	242	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(2)|ovary(1)	3						TGCCCATTGTCCCCCCACAGG	0.587													41	20	---	---	---	---		-	96993095	-	-	96993095	7	5	83	1	0	1	0	1	0	0	0	0	7924	842	30	0	766	0	ITPRIPL1	2	96993095	Frame_Shift_Del	DEL	C	TCGA-39-5019-01A-01D-1817-08	10618249	96993095	146206278	36	31954										
ARID5A	10865	broad.mit.edu	37	chr2	97217930	97217930	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gctggcctgatgcacttcccCccaacgtccttcgacagtgc	9	17	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:97217930C>T	uc002swe.2	+	7	1765	c.1665C>T	c.(1663-1665)CCC>CCT	p.P555P	ARID5A_uc010yuq.1_Silent_p.P503P|ARID5A_uc002swf.2_Silent_p.P391P|ARID5A_uc002swg.2_Silent_p.P503P	NM_212481	NP_997646	Q03989	ARI5A_HUMAN	AT rich interactive domain 5A	555					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding				0						TGCACTTCCCCCCAACGTCCT	0.677													50	102	---	---	---	---	PASS	T	97217930	T	T	97217930	2	4	83	1	0	0	0	0	0	0	0	1	921	610	22	3		3	ARID5A	2	97217930	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	224835	97217930	145981443	37	31955										
IL1R2	7850	broad.mit.edu	37	chr2	102644717	102644717	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cgttctcctggggcattgtgCtggccccactttcactggcc	11	15	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:102644717C>T	uc002tbm.2	+	9	1289	c.1060C>T	c.(1060-1062)CTG>TTG	p.L354L	IL1R2_uc002tbn.2_Silent_p.L354L	NM_004633	NP_004624	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II precursor	354	Helical; (Potential).				immune response	integral to membrane|plasma membrane	interleukin-1, Type II, blocking receptor activity			ovary(1)|breast(1)	2					Anakinra(DB00026)	GGGCATTGTGCTGGCCCCACT	0.532													56	69	---	---	---	---	PASS	T	102644717	T	T	102644717	2	4	83	1	0	0	0	0	0	0	0	1	7659	796	28	3		3	IL1R2	2	102644717	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	5426787	102644717	140554656	38	31956										
GTDC1	79712	broad.mit.edu	37	chr2	144764930	144764930	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gttacccaaatattcttgtcGtgcagtatcaaggccacagt	8	10	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:144764930G>C	uc002tvp.2	-	7	973	c.694C>G	c.(694-696)CGA>GGA	p.R232G	GTDC1_uc002tvo.2_Missense_Mutation_p.R232G|GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Missense_Mutation_p.R232G|GTDC1_uc010fnn.2_Missense_Mutation_p.R232G|GTDC1_uc002tvs.2_Missense_Mutation_p.R200G|GTDC1_uc010fno.2_Missense_Mutation_p.R103G|GTDC1_uc002tvt.1_Missense_Mutation_p.R232G	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	232					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		TATTCTTGTCGTGCAGTATCA	0.388													27	49	---	---	---	---	PASS	C	144764930	C	C	144764930	3	2	83	1	0	0	0	0	1	0	0	0	6851	1153	40	4	706	4	GTDC1	2	144764930	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	42120213	144764930	98434443	39	31957										
RIF1	55183	broad.mit.edu	37	chr2	152289653	152289653	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctttgagttccatccatgtgAgaacagaaactctagcatta	7	9	1	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:152289653A>G	uc002txm.2	+	10	1118	c.988A>G	c.(988-990)AGA>GGA	p.R330G	RIF1_uc002txl.2_Missense_Mutation_p.R330G|RIF1_uc010fnv.1_Missense_Mutation_p.R294G|RIF1_uc002txn.2_Missense_Mutation_p.R330G|RIF1_uc002txo.2_Missense_Mutation_p.R330G|RIF1_uc010zby.1_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	330					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		CATCCATGTGAGAACAGAAAC	0.363													20	50	---	---	---	---	PASS	G	152289653	G	G	152289653	3	3	83	1	0	0	0	0	1	0	0	0	13359	296	11	5	1022	5	RIF1	2	152289653	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	7524723	152289653	90909720	40	31958										
FIGN	55137	broad.mit.edu	37	chr2	164466434	164466434	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tacctccgaagggattcatcTatttcttctggtttactggt	8	9	4	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:164466434T>A	uc002uck.1	-	3	2219	c.1908A>T	c.(1906-1908)ATA>ATT	p.I636I		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	636						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						GGGATTCATCTATTTCTTCTG	0.453													10	108	---	---	---	---	PASS	A	164466434	A	A	164466434	2	1	83	1	0	0	0	0	0	0	0	1	5891	1512	53	5		5	FIGN	2	164466434	Silent	SNP	T	TCGA-39-5019-01A-01D-1817-08	12176781	164466434	78732939	41	31959										
TTN	7273	broad.mit.edu	37	chr2	179396364	179396364	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ccagggtgaggactccactcGtgttggtgtaatgaatctta	12	8	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:179396364G>T	uc010zfg.1	-	307	97498	c.97274C>A	c.(97273-97275)ACG>AAG	p.T32425K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T26120K|TTN_uc010zfi.1_Missense_Mutation_p.T26053K|TTN_uc010zfj.1_Missense_Mutation_p.T25928K|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33352							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)			GACTCCACTCGTGTTGGTGTA	0.453													35	63	---	---	---	---	PASS	T	179396364	T	T	179396364	3	4	83	1	0	0	0	0	1	0	0	0	16732	1145	40	1	3021	1	TTN	2	179396364	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	14929930	179396364	63803009	42	31960										
TTN	7273	broad.mit.edu	37	chr2	179413276	179413276	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cagatccccgggtcacatctTtgaaggtaattgggccaggt	12	10	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:179413276T>C	uc010zfg.1	-	288	85597	c.85373A>G	c.(85372-85374)AAA>AGA	p.K28458R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K22153R|TTN_uc010zfi.1_Missense_Mutation_p.K22086R|TTN_uc010zfj.1_Missense_Mutation_p.K21961R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29385							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)			GGTCACATCTTTGAAGGTAAT	0.483													29	206	---	---	---	---	PASS	C	179413276	C	C	179413276	3	2	83	1	0	0	0	0	1	0	0	0	16732	1841	64	5	14998	5	TTN	2	179413276	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	16912	179413276	63786097	43	31961										
TTN	7273	broad.mit.edu	37	chr2	179443382	179443382	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tcttggggtcagtccaagttAgagatactgaatcgtgtctg	12	7	3	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:179443382A>T	uc010zfg.1	-	270	60805	c.60581T>A	c.(60580-60582)CTA>CAA	p.L20194Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.L13889Q|TTN_uc010zfi.1_Missense_Mutation_p.L13822Q|TTN_uc010zfj.1_Missense_Mutation_p.L13697Q|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21121							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)			AGTCCAAGTTAGAGATACTGA	0.378													5	28	---	---	---	---	PASS	T	179443382	T	T	179443382	3	4	83	1	0	0	0	0	1	0	0	0	16732	420	15	5	39862	5	TTN	2	179443382	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	30106	179443382	63755991	44	31962										
TTN	7273	broad.mit.edu	37	chr2	179451523	179451523	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cacttctaatttccttggggGatccggctcacctagaagaa	9	11	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:179451523G>A	uc010zfg.1	-	257	56625	c.56401C>T	c.(56401-56403)CCC>TCC	p.P18801S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P12496S|TTN_uc010zfi.1_Missense_Mutation_p.P12429S|TTN_uc010zfj.1_Missense_Mutation_p.P12304S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19728							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)			TTCCTTGGGGGATCCGGCTCA	0.408													35	71	---	---	---	---	PASS	A	179451523	A	A	179451523	3	1	83	1	0	0	0	0	1	0	0	0	16732	1174	41	2	44094	2	TTN	2	179451523	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	8141	179451523	63747850	45	31963										
PARD3B	117583	broad.mit.edu	37	chr2	205969167	205969167	+	Missense_Mutation	SNP	G	T	T													0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	taggattccacgcagaacttGgaagacagagaagttttgaa							TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:205969167G>T	uc002var.1	+	5	729	c.522G>T	c.(520-522)TTG>TTT	p.L174F	PARD3B_uc010fub.1_Missense_Mutation_p.L174F|PARD3B_uc002vao.1_Missense_Mutation_p.L174F|PARD3B_uc002vap.1_Missense_Mutation_p.L174F|PARD3B_uc002vaq.1_Missense_Mutation_p.L174F	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	174					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		CGCAGAACTTGGAAGACAGAG	0.358													34	77	---	---	---	---	PASS	T	205969167	T	T	205969167	3	4	83	1	0	0	0	0	1	0	0	0	11444	1339	47	3	540	3	PARD3B	2	205969167	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	26517644	205969167	37230206	46	31964	636	2								
PARD3B	117583	broad.mit.edu	37	chr2	205969168	205969168	+	Nonsense_Mutation	SNP	G	T	T													0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aggattccacgcagaacttgGaagacagagaagttttgaat							TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:205969168G>T	uc002var.1	+	5	730	c.523G>T	c.(523-525)GAA>TAA	p.E175*	PARD3B_uc010fub.1_Nonsense_Mutation_p.E175*|PARD3B_uc002vao.1_Nonsense_Mutation_p.E175*|PARD3B_uc002vap.1_Nonsense_Mutation_p.E175*|PARD3B_uc002vaq.1_Nonsense_Mutation_p.E175*	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	175					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		GCAGAACTTGGAAGACAGAGA	0.363													34	76	---	---	---	---	PASS	T	205969168	T	T	205969168	4	4	83	1	0	0	0	0	0	1	0	0	11444	1175	41	2	541	2	PARD3B	2	205969168	Nonsense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	1	205969168	37230205	47	31965	636	2								
FN1	2335	broad.mit.edu	37	chr2	216284091	216284091	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttgataaaacgtcccagtctCtgaatcctggcattggtcta	8	10	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:216284091C>G	uc002vfa.2	-	12	1959	c.1693G>C	c.(1693-1695)GAG>CAG	p.E565Q	FN1_uc002vfb.2_Missense_Mutation_p.E565Q|FN1_uc002vfc.2_Missense_Mutation_p.E565Q|FN1_uc002vfd.2_Missense_Mutation_p.E565Q|FN1_uc002vfe.2_Missense_Mutation_p.E565Q|FN1_uc002vff.2_Missense_Mutation_p.E565Q|FN1_uc002vfg.2_Missense_Mutation_p.E565Q|FN1_uc002vfh.2_Missense_Mutation_p.E565Q|FN1_uc002vfi.2_Missense_Mutation_p.E565Q|FN1_uc002vfj.2_Missense_Mutation_p.E565Q|FN1_uc002vfl.2_Missense_Mutation_p.E565Q	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	565	Fibronectin type-I 9.|Collagen-binding.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTCCCAGTCTCTGAATCCTGG	0.423													5	49	---	---	---	---	PASS	G	216284091	G	G	216284091	3	3	83	1	0	0	0	0	1	0	0	0	5962	922	32	2	5913	2	FN1	2	216284091	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	10314923	216284091	26915282	48	31966										
COL4A4	1286	broad.mit.edu	37	chr2	228009244	228009244	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtacttaccccatatacataTtgtacagaaaagagaatgag	7	7	0	3	rs3817617	byFrequency	TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:228009244T>G	uc010zlt.1	-	3	756	c.102A>C	c.(100-102)CAA>CAC	p.Q34H		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	34					axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CATATACATATTGTACAGAAA	0.279													22	74	---	---	---	---	PASS	G	228009244	G	G	228009244	3	3	83	1	0	0	0	0	1	0	0	0	3693	1490	52	5	5154	5	COL4A4	2	228009244	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	11725153	228009244	15190129	49	31967										
WDR69	164781	broad.mit.edu	37	chr2	228770965	228770965	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gttgtaggaaggtaaatatcTtaattggtcattgtgctgag	12	3	2	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:228770965T>A	uc002vpn.1	+	9	848	c.769T>A	c.(769-771)TTA>ATA	p.L257I	WDR69_uc010zlw.1_Missense_Mutation_p.L242I|WDR69_uc002vpo.1_RNA	NM_178821	NP_849143	Q8N136	WDR69_HUMAN	WD repeat domain 69	257										breast(1)	1		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;1.22e-10)|all cancers(144;8.11e-08)|Lung(261;0.011)|LUSC - Lung squamous cell carcinoma(224;0.0148)		GGTAAATATCTTAATTGGTCA	0.358													39	61	---	---	---	---	PASS	A	228770965	A	A	228770965	3	1	83	1	0	0	0	0	1	0	0	0	17316	1606	56	5	803	5	WDR69	2	228770965	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	761721	228770965	14428408	50	31968										
SPHKAP	80309	broad.mit.edu	37	chr2	228881326	228881326	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aaagtgatcgccttttgtggTttattggtacagggtcctgg	13	6	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr2:228881326T>A	uc002vpq.2	-	7	4291	c.4244A>T	c.(4243-4245)AAC>ATC	p.N1415I	SPHKAP_uc002vpp.2_Missense_Mutation_p.N1415I|SPHKAP_uc010zlx.1_Missense_Mutation_p.N1415I	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1415						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CCTTTTGTGGTTTATTGGTAC	0.468													59	90	---	---	---	---	PASS	A	228881326	A	A	228881326	3	1	83	1	0	0	0	0	1	0	0	0	15047	1725	60	5	882	5	SPHKAP	2	228881326	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	110361	228881326	14318047	51	31969										
NISCH	11188	broad.mit.edu	37	chr3	52526092	52526092	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctgcaggggccccctgcgccCcaagacactcctgctcacca	9	20	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr3:52526092C>G	uc011beg.1	+	22	4181	c.4109C>G	c.(4108-4110)CCC>CGC	p.P1370R	NISCH_uc003ded.3_Missense_Mutation_p.P1370R|NISCH_uc003dee.3_Missense_Mutation_p.P859R|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_Missense_Mutation_p.P119R	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	1370					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		CCCCTGCGCCCCAAGACACTC	0.652													18	39	---	---	---	---	PASS	G	52526092	G	G	52526092	3	3	83	1	0	0	0	0	1	0	0	0	10432	623	22	4	4191	4	NISCH	3	52526092	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08		52526092	145496338	52	31970										
ACTR8	93973	broad.mit.edu	37	chr3	53908307	53908307	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tccattttatttgttaactgGcattctctgtaagggaaccc	7	9	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr3:53908307G>C	uc003dhd.2	-	8	1055	c.996C>G	c.(994-996)TGC>TGG	p.C332W	ACTR8_uc003dhb.2_Intron|ACTR8_uc003dhc.2_Missense_Mutation_p.C221W	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	332					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		TTGTTAACTGGCATTCTCTGT	0.383													6	46	---	---	---	---	PASS	C	53908307	C	C	53908307	3	2	83	1	0	0	0	0	1	0	0	0	217	1195	42	4	902	4	ACTR8	3	53908307	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	1382215	53908307	144114123	53	31971										
ABI3BP	25890	broad.mit.edu	37	chr3	100594406	100594406	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggatttagctgaatccttgtGagtaacattctgaatcactg	9	7	2	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr3:100594406G>C	uc003dun.2	-	8	869	c.784C>G	c.(784-786)CAC>GAC	p.H262D	ABI3BP_uc003duo.2_Missense_Mutation_p.H255D|ABI3BP_uc003dup.3_Missense_Mutation_p.H255D	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	262						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						GAATCCTTGTGAGTAACATTC	0.443													16	38	---	---	---	---	PASS	C	100594406	C	C	100594406	3	2	83	1	0	0	0	0	1	0	0	0	91	1290	45	2	2555	2	ABI3BP	3	100594406	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	46686099	100594406	97428024	54	31972										
PRR23B	389151	broad.mit.edu	37	chr3	138739077	138739077	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggcgatctctgggacagatgCgcagaattccagctcgacga	13	11	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr3:138739077C>T	uc003esy.1	-	1	692	c.427G>A	c.(427-429)GCA>ACA	p.A143T		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	143										breast(1)	1						GGGACAGATGCGCAGAATTCC	0.667													18	86	---	---	---	---	PASS	T	138739077	T	T	138739077	3	4	83	1	0	0	0	0	1	0	0	0	12595	768	27	1	374	1	PRR23B	3	138739077	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	38144671	138739077	59283353	55	31973										
ZIC1	7545	broad.mit.edu	37	chr3	147128271	147128271	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cacagcctctttgctgcatcGgccgggggcttcgggggccc	15	15	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr3:147128271G>A	uc003ewe.2	+	1	1091	c.372G>A	c.(370-372)TCG>TCA	p.S124S		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	124					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TTGCTGCATCGGCCGGGGGCT	0.716													15	54	---	---	---	---	PASS	A	147128271	A	A	147128271	2	1	83	1	0	0	0	0	0	0	0	1	17675	1103	39	1		1	ZIC1	3	147128271	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	8389194	147128271	50894159	56	31974										
PLCH1	23007	broad.mit.edu	37	chr3	155206556	155206556	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aagctatttctggcatgtgtActgtaaatgtcagtgtttct	9	6	3	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr3:155206556A>T	uc011bok.1	-	19	2673	c.2396T>A	c.(2395-2397)GTA>GAA	p.V799E	PLCH1_uc011boj.1_Missense_Mutation_p.V799E|PLCH1_uc011bol.1_Missense_Mutation_p.V781E	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	799	C2.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TGGCATGTGTACTGTAAATGT	0.428													17	59	---	---	---	---	PASS	T	155206556	T	T	155206556	3	4	83	1	0	0	0	0	1	0	0	0	12037	391	14	5	2720	5	PLCH1	3	155206556	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	8078285	155206556	42815874	57	31975										
ARL14	80117	broad.mit.edu	37	chr3	160395630	160395630	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tcacaggggaggggctggccCaggggttcaggaaattaact	16	8	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr3:160395630C>T	uc003fdq.2	+	1	683	c.496C>T	c.(496-498)CAG>TAG	p.Q166*		NM_025047	NP_079323	Q8N4G2	ARL14_HUMAN	ADP-ribosylation factor-like 14	166					small GTPase mediated signal transduction	intracellular	GTP binding				0			Lung(72;7.02e-05)|LUSC - Lung squamous cell carcinoma(72;7.23e-05)			GGGGCTGGCCCAGGGGTTCAG	0.502													4	113	---	---	---	---	PASS	T	160395630	T	T	160395630	4	4	83	1	0	0	0	0	0	1	0	0	930	595	21	3	498	3	ARL14	3	160395630	Nonsense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	5189074	160395630	37626800	58	31976										
STK32B	55351	broad.mit.edu	37	chr4	5418612	5418612	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttcaacatagcgacggtagtGaaaggagcagaaagggcttc	13	7	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr4:5418612G>T	uc003gih.1	+	6	577	c.513G>T	c.(511-513)GTG>GTT	p.V171V	STK32B_uc010ida.1_Silent_p.V124V	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	171	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						CGACGGTAGTGAAAGGAGCAG	0.502													10	16	---	---	---	---	PASS	T	5418612	T	T	5418612	2	4	83	1	0	0	0	0	0	0	0	1	15297	1277	45	2		2	STK32B	4	5418612	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08		5418612	185735664	59	31977										
GPR78	27201	broad.mit.edu	37	chr4	8588916	8588916	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ccgttccgccaagtcctggcCggcatggtgcaccggctgct	13	16	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr4:8588916C>T	uc003glk.2	+	3	1337	c.918C>T	c.(916-918)GCC>GCT	p.A306A	CPZ_uc003gll.2_Intron	NM_080819	NP_543009	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	306	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(4)|ovary(2)	6						AAGTCCTGGCCGGCATGGTGC	0.652													14	32	---	---	---	---	PASS	T	8588916	T	T	8588916	2	4	83	1	0	0	0	0	0	0	0	1	6710	639	23	1		1	GPR78	4	8588916	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	3170304	8588916	182565360	60	31978										
CWH43	80157	broad.mit.edu	37	chr4	49063890	49063890	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	atcattttcatatgaatactCccaaatactttttatgaaac	2	8	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr4:49063890C>G	uc003gyv.2	+	16	2265	c.2083C>G	c.(2083-2085)CCC>GCC	p.P695A	CWH43_uc011bzl.1_Missense_Mutation_p.P668A	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	695					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						TATGAATACTCCCAAATACTT	0.254													5	24	---	---	---	---	PASS	G	49063890	G	G	49063890	3	3	83	1	0	0	0	0	1	0	0	0	4073	855	30	2	2145	2	CWH43	4	49063890	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	40474974	49063890	142090386	61	31979										
SRP72	6731	broad.mit.edu	37	chr4	57357606	57357606	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttctatcacagtcttagtaaAcacttgccatcgtcagatag	6	10	4	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr4:57357606A>G	uc003hbv.2	+	16	1552	c.1512A>G	c.(1510-1512)AAA>AAG	p.K504K	SRP72_uc010ihe.2_Silent_p.K443K|SRP72_uc003hbw.1_Silent_p.K265K	NM_006947	NP_008878	O76094	SRP72_HUMAN	signal recognition particle 72kDa	504					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|nucleolus|plasma membrane|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding			ovary(1)	1	Glioma(25;0.08)|all_neural(26;0.101)					GTCTTAGTAAACACTTGCCAT	0.358													37	112	---	---	---	---	PASS	G	57357606	G	G	57357606	2	3	83	1	0	0	0	0	0	0	0	1	15156	40	2	5		5	SRP72	4	57357606	Silent	SNP	A	TCGA-39-5019-01A-01D-1817-08	8293716	57357606	133796670	62	31980										
ADAMTS3	9508	broad.mit.edu	37	chr4	73186501	73186501	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tcatggtgttcagagtggttGagatcagatctttgctgttg	13	5	4	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr4:73186501G>C	uc003hgk.1	-	7	1069	c.1032C>G	c.(1030-1032)CTC>CTG	p.L344L		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	344	Peptidase M12B.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CAGAGTGGTTGAGATCAGATC	0.443													22	65	---	---	---	---	PASS	C	73186501	C	C	73186501	2	2	83	1	0	0	0	0	0	0	0	1	267	1277	45	2		2	ADAMTS3	4	73186501	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	15828895	73186501	117967775	63	31981										
BMP3	651	broad.mit.edu	37	chr4	81952680	81952680	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gacaccgggctccctggaggGaggctcgcagccctggcgcc	16	16	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr4:81952680G>A	uc003hmg.3	+	1	562	c.242G>A	c.(241-243)GGA>GAA	p.G81E		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	81					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						TCCCTGGAGGGAGGCTCGCAG	0.672													7	27	---	---	---	---	PASS	A	81952680	A	A	81952680	3	1	83	1	0	0	0	0	1	0	0	0	1461	1174	41	2	244	2	BMP3	4	81952680	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	8766179	81952680	109201596	64	31982										
AFF1	4299	broad.mit.edu	37	chr4	88035845	88035845	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aaacctgtcaaggcctctgcCcgggcaggttcacggaccag	12	14	3	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr4:88035845C>G	uc003hqj.3	+	11	2246	c.1839C>G	c.(1837-1839)GCC>GCG	p.A613A	AFF1_uc011ccz.1_Silent_p.A620A|AFF1_uc003hqk.3_Silent_p.A613A|AFF1_uc011cda.1_Silent_p.A251A	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	613						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		AGGCCTCTGCCCGGGCAGGTT	0.587													4	70	---	---	---	---	PASS	G	88035845	G	G	88035845	2	3	83	1	0	0	0	0	0	0	0	1	356	610	22	4		4	AFF1	4	88035845	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	6083165	88035845	103118431	65	31983										
DCHS2	54798	broad.mit.edu	37	chr4	155237114	155237114	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tgagttttcatttcataatcCaaaggacaggttgtggttag	10	5	2	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr4:155237114C>T	uc003inw.2	-	15	3681	c.3681G>A	c.(3679-3681)TTG>TTA	p.L1227L		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1227	Cadherin 10.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TTTCATAATCCAAAGGACAGG	0.383													7	17	---	---	---	---	PASS	T	155237114	T	T	155237114	2	4	83	1	0	0	0	0	0	0	0	1	4288	593	21	3		3	DCHS2	4	155237114	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	67201269	155237114	35917162	66	31984										
FGG	2266	broad.mit.edu	37	chr4	155531250	155531250	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	atatcatggatttgcaccgtGtctttgcaaggttcctggca	10	9	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr4:155531250G>T	uc003ioj.2	-	5	642	c.501C>A	c.(499-501)GAC>GAA	p.D167E	FGG_uc003iog.2_Missense_Mutation_p.D167E|FGG_uc003ioh.2_Missense_Mutation_p.D167E|FGG_uc010ipx.2_Intron|FGG_uc010ipy.2_Intron|FGG_uc003ioi.2_5'UTR|FGG_uc003iok.2_Missense_Mutation_p.D167E	NM_021870	NP_068656	P02679	FIBG_HUMAN	fibrinogen, gamma chain isoform gamma-B	167					platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding				0	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	TTTGCACCGTGTCTTTGCAAG	0.368													25	41	---	---	---	---	PASS	T	155531250	T	T	155531250	3	4	83	1	0	0	0	0	1	0	0	0	5870	1368	48	3	899	3	FGG	4	155531250	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	294136	155531250	35623026	67	31985										
ADAMTS16	170690	broad.mit.edu	37	chr5	5237099	5237099	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aagatcaggacttatgcaaaCtctactgtatcgcagaagga	9	8	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:5237099C>A	uc003jdl.2	+	14	2179	c.2041C>A	c.(2041-2043)CTC>ATC	p.L681I	ADAMTS16_uc003jdk.1_Missense_Mutation_p.L681I|ADAMTS16_uc010itk.1_Intron	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	681	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CTTATGCAAACTCTACTGTAT	0.333													10	94	---	---	---	---	PASS	A	5237099	A	A	5237099	3	1	83	1	0	0	0	0	1	0	0	0	261	565	20	3	2095	3	ADAMTS16	5	5237099	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08		5237099	175678161	68	31986										
ADAMTS12	81792	broad.mit.edu	37	chr5	33588803	33588803	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aggtgctggcagtctgtgggCgggagagcctgctcgtcaga	18	9	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:33588803C>A	uc003jia.1	-	18	2929	c.2766G>T	c.(2764-2766)CCG>CCT	p.P922P	ADAMTS12_uc010iuq.1_Silent_p.P837P	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	922	TSP type-1 3.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						AGTCTGTGGGCGGGAGAGCCT	0.632										HNSCC(64;0.19)			18	102	---	---	---	---	PASS	A	33588803	A	A	33588803	2	1	83	1	0	0	0	0	0	0	0	1	257	755	27	1		1	ADAMTS12	5	33588803	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	28351704	33588803	147326457	69	31987										
RXFP3	51289	broad.mit.edu	37	chr5	33937435	33937435	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ccaccggacccgaggacacgGccggggcgactgctgcggcc	16	17	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:33937435G>T	uc003jic.1	+	1	947	c.590G>T	c.(589-591)GGC>GTC	p.G197V		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	197	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CGAGGACACGGCCGGGGCGAC	0.662													12	54	---	---	---	---	PASS	T	33937435	T	T	33937435	3	4	83	1	0	0	0	0	1	0	0	0	13761	1203	42	3	592	3	RXFP3	5	33937435	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	348632	33937435	146977825	70	31988										
NIPBL	25836	broad.mit.edu	37	chr5	36995735	36995735	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cattaataggtagtatagatCaatcagtgttaaaagaatta	7	3	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:36995735C>G	uc003jkl.3	+	11	3632	c.3133C>G	c.(3133-3135)CAA>GAA	p.Q1045E	NIPBL_uc003jkk.3_Missense_Mutation_p.Q1045E|NIPBL_uc003jkm.1_Missense_Mutation_p.Q924E	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1045					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			TAGTATAGATCAATCAGTGTT	0.313													5	43	---	---	---	---	PASS	G	36995735	G	G	36995735	3	3	83	1	0	0	0	0	1	0	0	0	10428	827	29	2	3171	2	NIPBL	5	36995735	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	3058300	36995735	143919525	71	31989										
EGFLAM	133584	broad.mit.edu	37	chr5	38350605	38350605	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttgtttggtcattgacaggaGgaagtgattggagatttgaa	14	2	1	4			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:38350605G>A	uc003jlc.1	+	4	618	c.294G>A	c.(292-294)GAG>GAA	p.E98E	EGFLAM_uc003jlb.1_Silent_p.E98E	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	98	Fibronectin type-III 1.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					ATTGACAGGAGGAAGTGATTG	0.468													19	87	---	---	---	---	PASS	A	38350605	A	A	38350605	2	1	83	1	0	0	0	0	0	0	0	1	4966	991	35	3		3	EGFLAM	5	38350605	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	1354870	38350605	142564655	72	31990										
PLCXD3	345557	broad.mit.edu	37	chr5	41382282	41382282	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggaccagtttttcatggtgaTatttctgcatcccataaaag	8	8	2	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:41382282T>C	uc003jmm.1	-	2	560	c.458A>G	c.(457-459)TAT>TGT	p.Y153C		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	153	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						TTCATGGTGATATTTCTGCAT	0.413													12	125	---	---	---	---	PASS	C	41382282	C	C	41382282	3	2	83	1	0	0	0	0	1	0	0	0	12043	1406	49	5	515	5	PLCXD3	5	41382282	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	3031677	41382282	139532978	73	31991										
HCN1	348980	broad.mit.edu	37	chr5	45262686	45262686	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttgctgtgagacaggctggtCgctgtgtacaccggtggaga	16	8	0	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:45262686C>A	uc003jok.2	-	8	2035	c.2010G>T	c.(2008-2010)GCG>GCT	p.A670A		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	670	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						ACAGGCTGGTCGCTGTGTACA	0.582													19	80	---	---	---	---	PASS	A	45262686	A	A	45262686	2	1	83	1	0	0	0	0	0	0	0	1	6996	871	31	2		2	HCN1	5	45262686	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	3880404	45262686	135652574	74	31992										
SLCO4C1	353189	broad.mit.edu	37	chr5	101583092	101583092	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	agcttcaaaaccaaaagtttCtgcagtggatgttatttctg	8	7	3	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:101583092C>A	uc003knm.2	-	10	1962	c.1675G>T	c.(1675-1677)GAA>TAA	p.E559*		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	559	Extracellular (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		CCAAAAGTTTCTGCAGTGGAT	0.294													22	41	---	---	---	---	PASS	A	101583092	A	A	101583092	4	1	83	1	0	0	0	0	0	1	0	0	14730	922	32	2	515	2	SLCO4C1	5	101583092	Nonsense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	56320406	101583092	79332168	75	31993										
PHF15	23338	broad.mit.edu	37	chr5	133901824	133901824	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	agtgttccatgccttcctgcGtcacagcgttccatgtcaca	8	14	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:133901824G>A	uc003kzo.1	+	9	1167	c.988G>A	c.(988-990)GTC>ATC	p.V330I	PHF15_uc011cxt.1_Missense_Mutation_p.V330I|PHF15_uc003kzk.2_Missense_Mutation_p.V346I|PHF15_uc003kzl.2_Missense_Mutation_p.V330I|PHF15_uc003kzm.2_Missense_Mutation_p.V330I|PHF15_uc003kzn.2_Missense_Mutation_p.V330I|PHF15_uc003kzp.2_Missense_Mutation_p.V38I	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	330					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GCCTTCCTGCGTCACAGCGTT	0.572													13	113	---	---	---	---	PASS	A	133901824	A	A	133901824	3	1	83	1	0	0	0	0	1	0	0	0	11826	1145	40	1	1018	1	PHF15	5	133901824	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	32318732	133901824	47013436	76	31994										
PCDHB5	26167	broad.mit.edu	37	chr5	140515709	140515709	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	accaccacaattcgcattgtCgtcttggataataatgacaa	6	10	1	1	rs145844360		TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:140515709C>A	uc003liq.2	+	1	910	c.693C>A	c.(691-693)GTC>GTA	p.V231V		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	231	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCGCATTGTCGTCTTGGATA	0.547													105	180	---	---	---	---	PASS	A	140515709	A	A	140515709	2	1	83	1	0	0	0	0	0	0	0	1	11545	871	31	2		2	PCDHB5	5	140515709	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	6613885	140515709	40399551	77	31995										
PCDHB10	56126	broad.mit.edu	37	chr5	140574340	140574340	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtccttttccagggcatctgGtggacgtgaggggcgctgag	17	9	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:140574340G>T	uc003lix.2	+	1	2389	c.2215G>T	c.(2215-2217)GTG>TTG	p.V739L		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	739	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGGCATCTGGTGGACGTGAG	0.647													18	173	---	---	---	---	PASS	T	140574340	T	T	140574340	3	4	83	1	0	0	0	0	1	0	0	0	11535	1261	44	3	2217	3	PCDHB10	5	140574340	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	58631	140574340	40340920	78	31996										
PCDHGA10	56106	broad.mit.edu	37	chr5	140793265	140793265	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tgaactccctgcagagctatCagctcagccccaataagcac	7	15	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:140793265C>A	uc003lkl.1	+	1	523	c.523C>A	c.(523-525)CAG>AAG	p.Q175K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.Q175K	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	175	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAGAGCTATCAGCTCAGCCC	0.527													16	29	---	---	---	---	PASS	A	140793265	A	A	140793265	3	1	83	1	0	0	0	0	1	0	0	0	11551	827	29	2	525	2	PCDHGA10	5	140793265	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	218925	140793265	40121995	79	31997										
RARS	5917	broad.mit.edu	37	chr5	167933834	167933834	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggtgtggtgctaggggaagaCaagtaagtctggaaaatctg	16	4	2	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:167933834C>A	uc003lzx.2	+	11	1385	c.1344C>A	c.(1342-1344)GAC>GAA	p.D448E	RARS_uc011deo.1_Missense_Mutation_p.D242E	NM_002887	NP_002878	P54136	SYRC_HUMAN	arginyl-tRNA synthetase	448					arginyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|skin(1)	3	Renal(175;0.000159)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0208)|all_neural(177;0.0227)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0693)|Epithelial(171;0.131)|OV - Ovarian serous cystadenocarcinoma(192;0.156)		TAGGGGAAGACAAGTAAGTCT	0.393													15	49	---	---	---	---	PASS	A	167933834	A	A	167933834	3	1	83	1	0	0	0	0	1	0	0	0	13058	477	17	3	1386	3	RARS	5	167933834	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	27140569	167933834	12981426	80	31998										
CDHR2	54825	broad.mit.edu	37	chr5	176018407	176018407	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	accaggctttctctccagagCcaaccccatgctgaacctcc	6	18	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:176018407C>A	uc003mem.1	+	30	3722	c.3656C>A	c.(3655-3657)GCC>GAC	p.A1219D	CDHR2_uc003men.1_Missense_Mutation_p.A1219D	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	1219	Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						CTCTCCAGAGCCAACCCCATG	0.592													7	49	---	---	---	---	PASS	A	176018407	A	A	176018407	3	1	83	1	0	0	0	0	1	0	0	0	3119	739	26	3	3770	3	CDHR2	5	176018407	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	8084573	176018407	4896853	81	31999										
GRK6	2870	broad.mit.edu	37	chr5	176859271	176859271	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cccggatgacaagcggaaggCatgtgggcggcagctaacgc	16	11	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr5:176859271C>T	uc011dfz.1	+	4	459	c.299C>T	c.(298-300)GCA>GTA	p.A100V	GRK6_uc003mgp.2_Missense_Mutation_p.A100V|GRK6_uc003mgq.2_Missense_Mutation_p.A100V|GRK6_uc003mgs.1_Missense_Mutation_p.A70V	NM_002082	NP_002073	P43250	GRK6_HUMAN	G protein-coupled receptor kinase 6 isoform B	100	N-terminal.|RGS.				regulation of G-protein coupled receptor protein signaling pathway	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)|stomach(1)|breast(1)	3	all_cancers(89;1.15e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAGCGGAAGGCATGTGGGCGG	0.602													6	89	---	---	---	---	PASS	T	176859271	T	T	176859271	3	4	83	1	0	0	0	0	1	0	0	0	6793	710	25	3	313	3	GRK6	5	176859271	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	840864	176859271	4055989	82	32000										
MRS2	57380	broad.mit.edu	37	chr6	24418421	24418421	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cagctcgtgagcttagggtgCtgattgatgattcacaaagt	12	7	1	4			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr6:24418421C>G	uc003neb.2	+	8	1068	c.946C>G	c.(946-948)CTG>GTG	p.L316V	MRS2_uc003nea.2_Missense_Mutation_p.L316V|MRS2_uc011djl.1_Missense_Mutation_p.L319V|MRS2_uc011djm.1_RNA|MRS2_uc011djn.1_Missense_Mutation_p.L266V|MRS2_uc003nec.2_Missense_Mutation_p.L193V	NM_020662	NP_065713	Q9HD23	MRS2_HUMAN	MRS2-like, magnesium homeostasis factor	316	Mitochondrial matrix (Potential).				ion transport	integral to membrane|mitochondrial inner membrane					0						GCTTAGGGTGCTGATTGATGA	0.348													3	94	---	---	---	---	PASS	G	24418421	G	G	24418421	3	3	83	1	0	0	0	0	1	0	0	0	9851	796	28	4	976	4	MRS2	6	24418421	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08		24418421	146696646	83	32001										
TMEM63B	55362	broad.mit.edu	37	chr6	44116675	44116675	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cgtcaccaagcctgtggagtAcctcaacgtgaggcctcatg	11	13	3	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr6:44116675A>T	uc003owr.2	+	15	1470	c.1406A>T	c.(1405-1407)TAC>TTC	p.Y469F	TMEM63B_uc003owq.1_Missense_Mutation_p.Y469F|TMEM63B_uc003ows.2_Missense_Mutation_p.Y372F|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	469						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			CCTGTGGAGTACCTCAACGTG	0.557													35	92	---	---	---	---	PASS	T	44116675	T	T	44116675	3	4	83	1	0	0	0	0	1	0	0	0	16188	391	14	5	1460	5	TMEM63B	6	44116675	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	19698254	44116675	126998392	84	32002										
NT5E	4907	broad.mit.edu	37	chr6	86181079	86181079	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tttgaaatggataaactcatCgctcagaaagtgaggggtgt	12	5	2	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr6:86181079C>A	uc003pko.3	+	3	1243	c.687C>A	c.(685-687)ATC>ATA	p.I229I	NT5E_uc003pkn.2_Silent_p.I229I|NT5E_uc010kbr.2_Silent_p.I229I	NM_002526	NP_002517	P21589	5NTD_HUMAN	5' nucleotidase, ecto precursor	229					DNA metabolic process|purine base metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	5'-nucleotidase activity|nucleotide binding			ovary(3)|central_nervous_system(1)	4		all_cancers(76;0.000215)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0427)		BRCA - Breast invasive adenocarcinoma(108;0.0417)	Pentoxifylline(DB00806)	ATAAACTCATCGCTCAGAAAG	0.408													3	84	---	---	---	---	PASS	A	86181079	A	A	86181079	2	1	83	1	0	0	0	0	0	0	0	1	10693	874	31	2		2	NT5E	6	86181079	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	42064404	86181079	84933988	85	32003										
AIM1	202	broad.mit.edu	37	chr6	106968897	106968897	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctatgaccacggctttcagtActtctcagaacggttcccta	7	13	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr6:106968897A>G	uc003prh.2	+	2	3077	c.2590A>G	c.(2590-2592)ACT>GCT	p.T864A		NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	864							sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		GGCTTTCAGTACTTCTCAGAA	0.453													28	73	---	---	---	---	PASS	G	106968897	G	G	106968897	3	3	83	1	0	0	0	0	1	0	0	0	430	391	14	5	2596	5	AIM1	6	106968897	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	20787818	106968897	64146170	86	32004										
SMPDL3A	10924	broad.mit.edu	37	chr6	123116872	123116872	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tagaccctacttaccacatcAcagatgaccacacaaaagtg	5	13	1	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr6:123116872A>G	uc003pzg.2	+	2	684	c.163A>G	c.(163-165)ACA>GCA	p.T55A	SMPDL3A_uc003pzh.2_Intron	NM_006714	NP_006705	Q92484	ASM3A_HUMAN	acid sphingomyelinase-like phosphodiesterase 3A	55					sphingomyelin catabolic process	extracellular space	hydrolase activity, acting on glycosyl bonds|protein binding|sphingomyelin phosphodiesterase activity				0				GBM - Glioblastoma multiforme(226;0.236)		TTACCACATCACAGATGACCA	0.403													24	57	---	---	---	---	PASS	G	123116872	G	G	123116872	3	3	83	1	0	0	0	0	1	0	0	0	14808	159	6	5	169	5	SMPDL3A	6	123116872	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	16147975	123116872	47998195	87	32005										
TMEM200A	114801	broad.mit.edu	37	chr6	130762297	130762297	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	agagttctgggcatcttatgCcccctttgctctctgacagc	9	13	3	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr6:130762297C>T	uc003qca.2	+	3	1601	c.730C>T	c.(730-732)CCC>TCC	p.P244S	TMEM200A_uc010kfh.2_Missense_Mutation_p.P244S|TMEM200A_uc010kfi.2_Missense_Mutation_p.P244S|TMEM200A_uc003qcb.2_Missense_Mutation_p.P244S	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	244	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		GCATCTTATGCCCCCTTTGCT	0.483													4	106	---	---	---	---	PASS	T	130762297	T	T	130762297	3	4	83	1	0	0	0	0	1	0	0	0	16120	739	26	3	732	3	TMEM200A	6	130762297	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	7645425	130762297	40352770	88	32006										
MED23	9439	broad.mit.edu	37	chr6	131946127	131946127	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tggatacactgttcatgagaCtcctggaaaatgagagaatg	11	6	1	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr6:131946127C>T	uc003qcs.1	-	4	336	c.162G>A	c.(160-162)GAG>GAA	p.E54E	MED23_uc003qcq.2_Silent_p.E54E|MED23_uc003qct.1_Silent_p.E54E|MED23_uc011ecb.1_RNA	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	54					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		GTTCATGAGACTCCTGGAAAA	0.338													14	57	---	---	---	---	PASS	T	131946127	T	T	131946127	2	4	83	1	0	0	0	0	0	0	0	1	9441	564	20	3		3	MED23	6	131946127	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	1183830	131946127	39168940	89	32007										
SYNE1	23345	broad.mit.edu	37	chr6	152576797	152576797	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aacaaataaacgttcttcaaCgtcatccaaccaagtagagg	6	10	3	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr6:152576797C>T	uc010kiw.2	-	103	19791	c.19189G>A	c.(19189-19191)GTT>ATT	p.V6397I	SYNE1_uc010kiv.2_Missense_Mutation_p.V921I|SYNE1_uc003qos.3_Missense_Mutation_p.V921I|SYNE1_uc003qot.3_Missense_Mutation_p.V6326I|SYNE1_uc003qou.3_Missense_Mutation_p.V6397I	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6397	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)		CGTTCTTCAACGTCATCCAAC	0.458										HNSCC(10;0.0054)			17	93	---	---	---	---	PASS	T	152576797	T	T	152576797	3	4	83	1	0	0	0	0	1	0	0	0	15442	536	19	1	7453	1	SYNE1	6	152576797	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	20630670	152576797	18538270	90	32008										
FNDC1	84624	broad.mit.edu	37	chr6	159653483	159653483	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	atgacaacgacttggtggacTcagacgaagatgagcgcgct	13	9	1	4			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr6:159653483T>C	uc010kjv.2	+	11	2139	c.1939T>C	c.(1939-1941)TCA>CCA	p.S647P	FNDC1_uc010kjw.1_Missense_Mutation_p.S532P	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	647						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		CTTGGTGGACTCAGACGAAGA	0.692													23	61	---	---	---	---	PASS	C	159653483	C	C	159653483	3	2	83	1	0	0	0	0	1	0	0	0	5968	1551	54	5	1981	5	FNDC1	6	159653483	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	7076686	159653483	11461584	91	32009										
CYTH3	9265	broad.mit.edu	37	chr7	6213320	6213320	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggttgagatcagcaaactcaTggagttcaacaaaggcttga	11	7	3	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:6213320T>C	uc003spt.2	-	6	517	c.413A>G	c.(412-414)CAT>CGT	p.H138R	CYTH3_uc011jws.1_5'Flank	NM_004227	NP_004218	O43739	CYH3_HUMAN	cytohesin 3	138	SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|membrane fraction|plasma membrane	1-phosphatidylinositol binding|ARF guanyl-nucleotide exchange factor activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity				0						AGCAAACTCATGGAGTTCAAC	0.398													35	79	---	---	---	---	PASS	C	6213320	C	C	6213320	3	2	83	1	0	0	0	0	1	0	0	0	4205	1464	51	5	818	5	CYTH3	7	6213320	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08		6213320	152925343	92	32010										
BMPER	168667	broad.mit.edu	37	chr7	34009998	34009998	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttcattgtaaaaaccctttgGagcatctgggaatgtgctgc	10	8	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:34009998G>A	uc011kap.1	+	5	574	c.460G>A	c.(460-462)GAG>AAG	p.E154K		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	154	VWFC 2.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						AAACCCTTTGGAGCATCTGGG	0.498													58	189	---	---	---	---	PASS	A	34009998	A	A	34009998	3	1	83	1	0	0	0	0	1	0	0	0	1468	1175	41	2	478	2	BMPER	7	34009998	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	27796678	34009998	125128665	93	32011										
AMPH	273	broad.mit.edu	37	chr7	38505102	38505102	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	atggtgaaggccttgtcggcGtgctggtcacccagttttgt	14	9	1	1	rs146457438	byFrequency	TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:38505102G>C	uc003tgu.2	-	9	783	c.714C>G	c.(712-714)CAC>CAG	p.H238Q	AMPH_uc003tgv.2_Missense_Mutation_p.H238Q|AMPH_uc003tgt.2_5'Flank	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	238	BAR.				endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						CCTTGTCGGCGTGCTGGTCAC	0.502													6	13	---	---	---	---	PASS	C	38505102	C	C	38505102	3	2	83	1	0	0	0	0	1	0	0	0	588	1136	40	4	1425	4	AMPH	7	38505102	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	4495104	38505102	120633561	94	32012										
C7orf10	79783	broad.mit.edu	37	chr7	40314128	40314128	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tcagaatggagatccagttcGcccaggagtagctatgactg	12	9	1	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:40314128G>T	uc003thn.1	+	8	638	c.593G>T	c.(592-594)CGC>CTC	p.R198L	C7orf10_uc003thm.1_Missense_Mutation_p.R168L|C7orf10_uc003tho.1_Intron	NM_024728	NP_079004	Q9HAC7	CG010_HUMAN	dermal papilla derived protein 13	205							transferase activity			ovary(2)	2						GATCCAGTTCGCCCAGGAGTA	0.368													17	56	---	---	---	---	PASS	T	40314128	T	T	40314128	3	4	83	1	0	0	0	0	1	0	0	0	2376	1087	38	1	533	1	C7orf10	7	40314128	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	1809026	40314128	118824535	95	32013										
PCLO	27445	broad.mit.edu	37	chr7	82582540	82582540	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aataactacataagtttctgTgagggatttggaaaatcttg	9	4	2	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:82582540T>C	uc003uhx.2	-	5	8018	c.7729A>G	c.(7729-7731)ACA>GCA	p.T2577A	PCLO_uc003uhv.2_Missense_Mutation_p.T2577A|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2508					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TAAGTTTCTGTGAGGGATTTG	0.438													92	176	---	---	---	---	PASS	C	82582540	C	C	82582540	3	2	83	1	0	0	0	0	1	0	0	0	11583	1696	59	5	7800	5	PCLO	7	82582540	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	42268412	82582540	76556123	96	32014										
DYNC1I1	1780	broad.mit.edu	37	chr7	95709710	95709710	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtggccattgagggggcatcCgccctaaaccgtgttcgttg	14	11	0	1	rs145003989		TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:95709710C>A	uc003uoc.3	+	16	2014	c.1737C>A	c.(1735-1737)TCC>TCA	p.S579S	DYNC1I1_uc003uod.3_Silent_p.S562S|DYNC1I1_uc003uob.2_Silent_p.S542S|DYNC1I1_uc003uoe.3_Silent_p.S559S|DYNC1I1_uc010lfl.2_Silent_p.S568S	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	579	WD 7.				vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			AGGGGGCATCCGCCCTAAACC	0.468													27	192	---	---	---	---	PASS	A	95709710	A	A	95709710	2	1	83	1	0	0	0	0	0	0	0	1	4842	639	23	1		1	DYNC1I1	7	95709710	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	13127170	95709710	63428953	97	32015										
AP4M1	9179	broad.mit.edu	37	chr7	99701047	99701047	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	actaggactatggctatgtaCagaccacatccacggagatg	10	10	0	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:99701047C>A	uc003utb.3	+	5	575	c.367C>A	c.(367-369)CAG>AAG	p.Q123K	MCM7_uc003usv.1_5'Flank|MCM7_uc003usw.1_5'Flank|MCM7_uc003usx.1_5'Flank|AP4M1_uc011kjg.1_Intron|AP4M1_uc010lgl.1_Missense_Mutation_p.Q123K|AP4M1_uc003utc.3_Missense_Mutation_p.Q130K|AP4M1_uc010lgm.2_5'UTR|AP4M1_uc003utd.2_Missense_Mutation_p.Q123K|AP4M1_uc011kjh.1_Missense_Mutation_p.Q75K|AP4M1_uc003ute.3_5'UTR|AP4M1_uc003utf.3_5'UTR	NM_004722	NP_004713	O00189	AP4M1_HUMAN	adaptor-related protein complex 4, mu 1 subunit	123					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|coated pit|Golgi trans cisterna	transporter activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TGGCTATGTACAGACCACATC	0.478													47	66	---	---	---	---	PASS	A	99701047	A	A	99701047	3	1	83	1	0	0	0	0	1	0	0	0	753	479	17	3	385	3	AP4M1	7	99701047	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	3991337	99701047	59437616	98	32016										
PMPCB	9512	broad.mit.edu	37	chr7	102939977	102939977	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tggagcatatggctttcaagGcaagttgtaagactttacaa	10	6	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:102939977G>T	uc003vbl.2	+	3	361	c.327_splice	c.e3+1	p.K109_splice	PMPCB_uc010liu.1_Splice_Site_p.K109_splice|PMPCB_uc003vbk.1_Splice_Site_p.K109_splice|PMPCB_uc003vbm.2_Missense_Mutation_p.R17S|PMPCB_uc010liv.2_Missense_Mutation_p.R17S|PMPCB_uc010liw.2_Missense_Mutation_p.R17S|PMPCB_uc011kll.1_Splice_Site_p.K4_splice|PMPCB_uc011klm.1_5'Flank	NM_004279	NP_004270	O75439	MPPB_HUMAN	mitochondrial processing peptidase beta subunit						proteolysis	mitochondrial matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)	4						GGCTTTCAAGGCAAGTTGTAA	0.383													4	48	---	---	---	---	PASS	T	102939977	T	T	102939977	5	4	83	1	0	0	0	0	0	0	1	0	12141	1217	42	3	338	3	PMPCB	7	102939977	Splice_Site	SNP	G	TCGA-39-5019-01A-01D-1817-08	3238930	102939977	56198686	99	32017										
PSMC2	5701	broad.mit.edu	37	chr7	103002523	103002523	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	acctactgacattgaagaagGgatgagagtggggtaagatt	14	4	0	5			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:103002523G>A	uc003vbs.2	+	5	480	c.410G>A	c.(409-411)GGG>GAG	p.G137E	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011kln.1_Missense_Mutation_p.G137E|PSMC2_uc011klo.1_5'UTR	NM_002803	NP_002794	P35998	PRS7_HUMAN	proteasome 26S ATPase subunit 2	137					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|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0						ATTGAAGAAGGGATGAGAGTG	0.393													15	61	---	---	---	---	PASS	A	103002523	A	A	103002523	3	1	83	1	0	0	0	0	1	0	0	0	12686	1232	43	3	428	3	PSMC2	7	103002523	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	62546	103002523	56136140	100	32018										
PLXNA4	91584	broad.mit.edu	37	chr7	131864544	131864544	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cgcgggacttgcgtttatagGcaatgagcacggccacgatg	14	10	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:131864544G>A	uc003vra.3	-	20	4005	c.3776C>T	c.(3775-3777)GCC>GTC	p.A1259V		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1259	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GCGTTTATAGGCAATGAGCAC	0.607													13	41	---	---	---	---	PASS	A	131864544	A	A	131864544	3	1	83	1	0	0	0	0	1	0	0	0	12122	1203	42	3	1960	3	PLXNA4	7	131864544	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	28862021	131864544	27274119	101	32019										
EXOC4	60412	broad.mit.edu	37	chr7	132973849	132973849	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tgcatggccagcaagcactaTctcagtgccactgacatgtt	9	12	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:132973849T>C	uc003vrk.2	+	3	485	c.450T>C	c.(448-450)TAT>TAC	p.Y150Y	EXOC4_uc011kpo.1_Silent_p.Y49Y|EXOC4_uc003vri.2_Silent_p.Y150Y|EXOC4_uc003vrj.2_Silent_p.Y150Y	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	150					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				GCAAGCACTATCTCAGTGCCA	0.413													20	28	---	---	---	---	PASS	C	132973849	C	C	132973849	2	2	83	1	0	0	0	0	0	0	0	1	5306	1442	50	5		5	EXOC4	7	132973849	Silent	SNP	T	TCGA-39-5019-01A-01D-1817-08	1109305	132973849	26164814	102	32020										
TAS2R5	54429	broad.mit.edu	37	chr7	141491042	141491042	+	Frame_Shift_Del	DEL	G	-	-													0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtggaagacagtgtgtgctcGgagatgctggggcccatgat					rs2234016	byFrequency	TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:141491042delG	uc003vwr.1	+	1	1026	c.881delG	c.(880-882)CGGfs	p.R294fs		NM_018980	NP_061853	Q9NYW4	TA2R5_HUMAN	taste receptor T2R5	294	Cytoplasmic (Potential).				chemosensory behavior|sensory perception of taste		taste receptor activity				0	Melanoma(164;0.0171)					GTGTGTGCTCGGAGATGCTGG	0.488													219	98	---	---	---	---		-	141491042	-	-	141491042	7	5	83	1	0	1	0	1	0	0	0	0	15580	1116	39	0	883	0	TAS2R5	7	141491042	Frame_Shift_Del	DEL	G	TCGA-39-5019-01A-01D-1817-08	8517193	141491042	17647621	103	32021										
ZNF777	27153	broad.mit.edu	37	chr7	149148159	149148159	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctgcatggtgggccgctcccCgcgctccatctgtgacatga	12	15	1	2	rs73166023	by1000genomes	TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:149148159C>A	uc003wfv.2	-	4	1181	c.1018G>T	c.(1018-1020)GGG>TGG	p.G340W		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	340	Glu-rich.|KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GGCCGCTCCCCGCGCTCCATC	0.547													40	122	---	---	---	---	PASS	A	149148159	A	A	149148159	3	1	83	1	0	0	0	0	1	0	0	0	18147	652	23	1	1489	1	ZNF777	7	149148159	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	7657117	149148159	9990504	104	32022										
UBE3C	9690	broad.mit.edu	37	chr7	156967697	156967697	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	agagacttacatgcttatttCagataaaaagattgatgagc	8	5	1	5			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:156967697C>T	uc010lqs.2	+	5	739	c.427C>T	c.(427-429)CAG>TAG	p.Q143*	UBE3C_uc003wnf.2_Nonsense_Mutation_p.Q100*|UBE3C_uc003wng.2_Nonsense_Mutation_p.Q143*	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	143					protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		ATGCTTATTTCAGATAAAAAG	0.363													23	70	---	---	---	---	PASS	T	156967697	T	T	156967697	4	4	83	1	0	0	0	0	0	1	0	0	16878	827	29	2	445	2	UBE3C	7	156967697	Nonsense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	7819538	156967697	2170966	105	32023										
PTPRN2	5799	broad.mit.edu	37	chr7	157926637	157926637	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	agacagggaagactcagggtGctcggacttcttcctctcca	11	12	3	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr7:157926637G>T	uc003wno.2	-	9	1409	c.1288C>A	c.(1288-1290)CAC>AAC	p.H430N	PTPRN2_uc003wnp.2_Missense_Mutation_p.H413N|PTPRN2_uc003wnq.2_Missense_Mutation_p.H430N|PTPRN2_uc003wnr.2_Missense_Mutation_p.H392N|PTPRN2_uc011kwa.1_Missense_Mutation_p.H453N	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	430	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		GACTCAGGGTGCTCGGACTTC	0.602													15	178	---	---	---	---	PASS	T	157926637	T	T	157926637	3	4	83	1	0	0	0	0	1	0	0	0	12808	1319	46	3	1819	3	PTPRN2	7	157926637	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	958940	157926637	1212026	106	32024										
SLC25A37	51312	broad.mit.edu	37	chr8	23428853	23428853	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cggttccaaccacagtggtgAagcagcgcttgcagatgtac	12	11	0	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr8:23428853A>T	uc003xdo.2	+	4	655	c.502A>T	c.(502-504)AAG>TAG	p.K168*	SLC25A37_uc003xdp.2_RNA|SLC25A37_uc010ltz.2_RNA|SLC25A37_uc003xdq.2_RNA|SLC25A37_uc003xdr.1_RNA|uc003xds.2_5'Flank	NM_016612	NP_057696	Q9NYZ2	MFRN1_HUMAN	solute carrier family 25, member 37	168	Solcar 2.				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Prostate(55;0.114)		Colorectal(74;0.0198)|COAD - Colon adenocarcinoma(73;0.0751)		CACAGTGGTGAAGCAGCGCTT	0.627													3	8	---	---	---	---	PASS	T	23428853	T	T	23428853	4	4	83	1	0	0	0	0	0	1	0	0	14501	247	9	5	516	5	SLC25A37	8	23428853	Nonsense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08		23428853	122935169	107	32025										
UNC5D	137970	broad.mit.edu	37	chr8	35648047	35648047	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	agaatcccagcttgatgaagCcgacttcaactacagcaggc	9	12	1	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr8:35648047C>A	uc003xjr.1	+	17	3156	c.2828C>A	c.(2827-2829)GCC>GAC	p.A943D	UNC5D_uc003xjs.1_Missense_Mutation_p.A938D|UNC5D_uc003xju.1_Missense_Mutation_p.A519D	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	943	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CTTGATGAAGCCGACTTCAAC	0.493													64	31	---	---	---	---	PASS	A	35648047	A	A	35648047	3	1	83	1	0	0	0	0	1	0	0	0	16992	739	26	3	2894	3	UNC5D	8	35648047	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	12219194	35648047	110715975	108	32026										
ADAM18	8749	broad.mit.edu	37	chr8	39525515	39525515	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttatttttccttttcctcccAgttgtcaatagcaggcactc	5	12	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr8:39525515A>T	uc003xni.2	+	14	1327	c.1327_splice	c.e14-2	p.L443_splice	ADAM18_uc010lww.2_Splice_Site|ADAM18_uc010lwx.2_Splice_Site_p.L419_splice	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18						cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TTTTCCTCCCAGTTGTCAATA	0.318													76	39	---	---	---	---	PASS	T	39525515	T	T	39525515	5	4	83	1	0	0	0	0	0	0	1	0	239	202	7	5	1379	5	ADAM18	8	39525515	Splice_Site	SNP	A	TCGA-39-5019-01A-01D-1817-08	3877468	39525515	106838507	109	32027										
ANK1	286	broad.mit.edu	37	chr8	41615632	41615632	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttacctgatcttgctgctctCagaaagctggtagcagcatc	9	11	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr8:41615632C>G	uc003xok.2	-	2	135	c.51G>C	c.(49-51)CTG>CTC	p.L17L	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Silent_p.L17L|ANK1_uc003xoj.2_Silent_p.L17L|ANK1_uc003xol.2_Silent_p.L17L|ANK1_uc003xom.2_Silent_p.L50L	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	17	89 kDa domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TTGCTGCTCTCAGAAAGCTGG	0.527													8	605	---	---	---	---	PASS	G	41615632	G	G	41615632	2	3	83	1	0	0	0	0	0	0	0	1	620	813	29	2		2	ANK1	8	41615632	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	2090117	41615632	104748390	110	32028										
RB1CC1	9821	broad.mit.edu	37	chr8	53586629	53586629	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggacacatgttccactgactTgggaaatgaggttaacaaag	11	7	0	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr8:53586629T>A	uc003xre.3	-	7	1336	c.778A>T	c.(778-780)AAG>TAG	p.K260*	RB1CC1_uc003xrf.3_Nonsense_Mutation_p.K260*	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	260					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				TCCACTGACTTGGGAAATGAG	0.418													133	100	---	---	---	---	PASS	A	53586629	A	A	53586629	4	1	83	1	0	0	0	0	0	1	0	0	13099	1821	63	5	4078	5	RB1CC1	8	53586629	Nonsense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	11970997	53586629	92777393	111	32029										
ATP6V0D2	245972	broad.mit.edu	37	chr8	87126017	87126017	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cctcttactgtttccaaaatTgacactgagatgaggaaaag	8	8	1	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr8:87126017T>G	uc003ydp.1	+	2	279	c.210T>G	c.(208-210)ATT>ATG	p.I70M		NM_152565	NP_689778	Q8N8Y2	VA0D2_HUMAN	ATPase, H+ transporting, lysosomal 38kDa, V0	70					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	apical plasma membrane|endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex	hydrogen ion transmembrane transporter activity|protein binding				0						TTTCCAAAATTGACACTGAGA	0.388													96	165	---	---	---	---	PASS	G	87126017	G	G	87126017	3	3	83	1	0	0	0	0	1	0	0	0	1174	1800	63	5	216	5	ATP6V0D2	8	87126017	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	33539388	87126017	59238005	112	32030										
ZC3H3	23144	broad.mit.edu	37	chr8	144550572	144550572	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctggtgcacacggccaccttCtcgggatcgtggatgtaggg	15	11	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr8:144550572C>T	uc003yyd.2	-	7	2114	c.2085G>A	c.(2083-2085)GAG>GAA	p.E695E		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	695	C3H1-type 1.				mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			CGGCCACCTTCTCGGGATCGT	0.667													19	14	---	---	---	---	PASS	T	144550572	T	T	144550572	2	4	83	1	0	0	0	0	0	0	0	1	17566	912	32	2		2	ZC3H3	8	144550572	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	57424555	144550572	1813450	113	32031										
C9orf93	203238	broad.mit.edu	37	chr9	15745613	15745613	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tctatggctgaattacaagaCgtcattggtaaagcaggtat	10	6	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr9:15745613C>T	uc003zmd.2	+	18	2970	c.2655C>T	c.(2653-2655)GAC>GAT	p.D885D	C9orf93_uc003zme.2_Silent_p.D800D|C9orf93_uc011lmu.1_Silent_p.D893D|C9orf93_uc003zmf.1_Silent_p.D193D	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	885											0				GBM - Glioblastoma multiforme(50;4.84e-07)		AATTACAAGACGTCATTGGTA	0.363													20	177	---	---	---	---	PASS	T	15745613	T	T	15745613	2	4	83	1	0	0	0	0	0	0	0	1	2506	535	19	1		1	C9orf93	9	15745613	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08		15745613	125467818	114	32032										
TAF1L	138474	broad.mit.edu	37	chr9	32634826	32634826	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cttttccaggtcgaaattctGgaaaaagttcggtgacactt	9	8	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr9:32634826G>T	uc003zrg.1	-	1	842	c.752C>A	c.(751-753)CCA>CAA	p.P251Q	uc003zrh.1_RNA	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	251					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TCGAAATTCTGGAAAAAGTTC	0.488													59	101	---	---	---	---	PASS	T	32634826	T	T	32634826	3	4	83	1	0	0	0	0	1	0	0	0	15520	1348	47	3	4732	3	TAF1L	9	32634826	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	16889213	32634826	108578605	115	32033										
ZNF79	7633	broad.mit.edu	37	chr9	130206949	130206949	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtgcaaacctcacgaaccatCagaggactcacaccggggag	11	13	3	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr9:130206949C>T	uc004bqw.3	+	5	1384	c.970C>T	c.(970-972)CAG>TAG	p.Q324*	ZNF79_uc011maf.1_Nonsense_Mutation_p.Q300*|ZNF79_uc011mag.1_Nonsense_Mutation_p.Q300*	NM_007135	NP_009066	Q15937	ZNF79_HUMAN	zinc finger protein 79	324	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						CACGAACCATCAGAGGACTCA	0.552													4	99	---	---	---	---	PASS	T	130206949	T	T	130206949	4	4	83	1	0	0	0	0	0	1	0	0	18158	827	29	2	988	2	ZNF79	9	130206949	Nonsense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	97572123	130206949	11006482	116	32034										
C9orf96	169436	broad.mit.edu	37	chr9	136253268	136253268	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctgcctggtgatggagttcaAtgagctcagcttccaggagg	14	9	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr9:136253268A>T	uc004cdk.2	+	5	393	c.332A>T	c.(331-333)AAT>ATT	p.N111I	C9orf96_uc004cdl.2_RNA	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	111	Protein kinase.						ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		ATGGAGTTCAATGAGCTCAGC	0.577													14	123	---	---	---	---	PASS	T	136253268	T	T	136253268	3	4	83	1	0	0	0	0	1	0	0	0	2508	101	4	5	350	5	C9orf96	9	136253268	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	6046319	136253268	4960163	117	32035										
COL5A1	1289	broad.mit.edu	37	chr9	137642656	137642656	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttccggtttggaggtggcggCgatgcgggctccaaaggccc	17	11	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr9:137642656C>A	uc004cfe.2	+	13	1972	c.1590C>A	c.(1588-1590)GGC>GGA	p.G530G		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	530	Interrupted collagenous 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)		GAGGTGGCGGCGATGCGGGCT	0.632													13	28	---	---	---	---	PASS	A	137642656	A	A	137642656	2	1	83	1	0	0	0	0	0	0	0	1	3696	755	27	1		1	COL5A1	9	137642656	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	1389388	137642656	3570775	118	32036										
SPAG6	9576	broad.mit.edu	37	chr10	22676859	22676859	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtacttacctgtctgaaggaCaaggatgaatacgtgaagaa	11	6	1	4			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr10:22676859C>A	uc001iri.2	+	6	928	c.786C>A	c.(784-786)GAC>GAA	p.D262E	SPAG6_uc001irj.2_Missense_Mutation_p.D262E|SPAG6_uc010qct.1_Missense_Mutation_p.D232E|SPAG6_uc009xkh.2_Missense_Mutation_p.D240E	NM_012443	NP_036575	O75602	SPAG6_HUMAN	sperm associated antigen 6 isoform 1	262	ARM 6.				cell projection organization|spermatid development	axoneme|cilium|cytoplasm|flagellum|microtubule	binding			breast(1)	1						GTCTGAAGGACAAGGATGAAT	0.388													13	19	---	---	---	---	PASS	A	22676859	A	A	22676859	3	1	83	1	0	0	0	0	1	0	0	0	14982	477	17	3	808	3	SPAG6	10	22676859	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08		22676859	112857888	119	32037										
CTNNA3	29119	broad.mit.edu	37	chr10	68979440	68979440	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtcatattctggatcccttgTgaagcatttgaaattacatt	7	7	2	2	rs140926333	byFrequency	TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr10:68979440T>G	uc009xpn.1	-	6	891	c.768A>C	c.(766-768)TCA>TCC	p.S256S	CTNNA3_uc001jmw.2_Silent_p.S256S|CTNNA3_uc001jmx.3_Silent_p.S256S|CTNNA3_uc009xpo.1_Silent_p.S116S|CTNNA3_uc001jna.2_Silent_p.S268S	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	256					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						GGATCCCTTGTGAAGCATTTG	0.458													62	107	---	---	---	---	PASS	G	68979440	G	G	68979440	2	3	83	1	0	0	0	0	0	0	0	1	4014	1683	59	5		5	CTNNA3	10	68979440	Silent	SNP	T	TCGA-39-5019-01A-01D-1817-08	46302581	68979440	66555307	120	32038										
PBLD	64081	broad.mit.edu	37	chr10	70051922	70051922	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	taaagaggcaagtccaggacGatgccatcctctgctcgtct	10	12	2	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr10:70051922G>T	uc001jns.1	-	5	560	c.357C>A	c.(355-357)ATC>ATA	p.I119I	PBLD_uc001jnr.1_Silent_p.I86I|PBLD_uc001jnt.1_Silent_p.I119I|PBLD_uc001jnu.1_Silent_p.I119I|PBLD_uc001jnv.1_Silent_p.I86I	NM_022129	NP_071412	P30039	PBLD_HUMAN	MAWD binding protein isoform a	119					biosynthetic process		isomerase activity			skin(2)|ovary(1)	3						AGTCCAGGACGATGCCATCCT	0.468													15	79	---	---	---	---	PASS	T	70051922	T	T	70051922	2	4	83	1	0	0	0	0	0	0	0	1	11489	1048	37	2		2	PBLD	10	70051922	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	1072482	70051922	65482825	121	32039										
ZMIZ1	57178	broad.mit.edu	37	chr10	81070737	81070737	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tccatacaacaaggtttgcaCgtaccacaccccagcagcca	6	16	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr10:81070737C>A	uc001kaf.2	+	24	3464	c.2892C>A	c.(2890-2892)CAC>CAA	p.H964Q	ZMIZ1_uc001kag.2_Missense_Mutation_p.H840Q|ZMIZ1_uc010qlq.1_Intron	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	964	Pro-rich.				transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			AAGGTTTGCACGTACCACACC	0.522													47	86	---	---	---	---	PASS	A	81070737	A	A	81070737	3	1	83	1	0	0	0	0	1	0	0	0	17693	535	19	1	2970	1	ZMIZ1	10	81070737	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	11018815	81070737	54464010	122	32040										
PRKCDBP	112464	broad.mit.edu	37	chr11	6340731	6340731	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctctgggcccagctcggactGgtccgccgggcccaagggct	15	16	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:6340731G>A	uc001mcu.1	-	2	482	c.448C>T	c.(448-450)CAG>TAG	p.Q150*		NM_145040	NP_659477	Q969G5	PRDBP_HUMAN	protein kinase C, delta binding protein	150											0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AGCTCGGACTGGTCCGCCGGG	0.677													8	16	---	---	---	---	PASS	A	6340731	A	A	6340731	4	1	83	1	0	0	0	0	0	1	0	0	12510	1357	47	3	341	3	PRKCDBP	11	6340731	Nonsense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08		6340731	128665785	123	32041										
USH1C	10083	broad.mit.edu	37	chr11	17542900	17542900	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ccgaggtactcactgttccaTctccttccggtatctctcat	6	15	4	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:17542900T>C	uc001mnf.2	-	13	1187	c.1078A>G	c.(1078-1080)ATG>GTG	p.M360V	USH1C_uc001mne.2_Missense_Mutation_p.M360V|USH1C_uc009yhb.2_Missense_Mutation_p.M341V|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_Missense_Mutation_p.M324V	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	360	Potential.				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						CACTGTTCCATCTCCTTCCGG	0.512													90	138	---	---	---	---	PASS	C	17542900	C	C	17542900	3	2	83	1	0	0	0	0	1	0	0	0	17031	1435	50	5	1759	5	USH1C	11	17542900	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	11202169	17542900	117463616	124	32042										
OR5D18	219438	broad.mit.edu	37	chr11	55587340	55587340	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tctgctattcctccatcattGctcccaagatgttggtgaac	7	12	2	2	rs142474714	byFrequency	TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:55587340G>T	uc010rin.1	+	1	235	c.235G>T	c.(235-237)GCT>TCT	p.A79S		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	79	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				CTCCATCATTGCTCCCAAGAT	0.408													63	133	---	---	---	---	PASS	T	55587340	T	T	55587340	3	4	83	1	0	0	0	0	1	0	0	0	11157	1319	46	3	237	3	OR5D18	11	55587340	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	38044440	55587340	79419176	125	32043										
OR5D16	390144	broad.mit.edu	37	chr11	55607000	55607000	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	catcttccatggcaccatccTcttcctctactgtgtaccca	4	17	3	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:55607000T>C	uc010rio.1	+	1	773	c.773T>C	c.(772-774)CTC>CCC	p.L258P		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	258	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				GGCACCATCCTCTTCCTCTAC	0.537													7	110	---	---	---	---	PASS	C	55607000	C	C	55607000	3	2	83	1	0	0	0	0	1	0	0	0	11156	1551	54	5	775	5	OR5D16	11	55607000	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	19660	55607000	79399516	126	32044										
OR8J3	81168	broad.mit.edu	37	chr11	55904449	55904449	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gcattgtcccatagaaaaccGtgactgctatcatatgcgaa	8	10	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:55904449G>T	uc010riz.1	-	1	746	c.746C>A	c.(745-747)ACG>AAG	p.T249K		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					ATAGAAAACCGTGACTGCTAT	0.398													5	77	---	---	---	---	PASS	T	55904449	T	T	55904449	3	4	83	1	0	0	0	0	1	0	0	0	11242	1145	40	1	203	1	OR8J3	11	55904449	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	297449	55904449	79102067	127	32045										
P2RX3	5024	broad.mit.edu	37	chr11	57117346	57117346	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	acgtggtcaagtttgcggggCaggattttgccaaactggcg	15	8	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:57117346C>A	uc001nju.2	+	7	755	c.679C>A	c.(679-681)CAG>AAG	p.Q227K		NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3	227	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						GTTTGCGGGGCAGGATTTTGC	0.602											OREG0020966	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	36	---	---	---	---	PASS	A	57117346	A	A	57117346	3	1	83	1	0	0	0	0	1	0	0	0	11341	711	25	3	705	3	P2RX3	11	57117346	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	1212897	57117346	77889170	128	32046										
HNRNPUL2	221092	broad.mit.edu	37	chr11	62483404	62483404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtcgtagcctcggcgctgccCgcccactggaagagaaatgg	14	13	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:62483404C>A	uc001nuw.2	-	12	2180	c.1987G>T	c.(1987-1989)GGG>TGG	p.G663W	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	663					cell killing	nucleus	ATP binding|nucleic acid binding				0						CGGCGCTGCCCGCCCACTGGA	0.602													8	22	---	---	---	---	PASS	A	62483404	A	A	62483404	3	1	83	1	0	0	0	0	1	0	0	0	7275	652	23	1	268	1	HNRNPUL2	11	62483404	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	5366058	62483404	72523112	129	32047										
SLC22A10	387775	broad.mit.edu	37	chr11	63071614	63071614	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cgtgtggctttggcatgtctGggaatcggctgttctgctgc	15	9	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:63071614G>T	uc009yor.2	+	8	1528	c.1320G>T	c.(1318-1320)CTG>CTT	p.L440L	SLC22A10_uc010rmo.1_Intron|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_Missense_Mutation_p.W234L	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	440	Helical; (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						TGGCATGTCTGGGAATCGGCT	0.488													56	113	---	---	---	---	PASS	T	63071614	T	T	63071614	2	4	83	1	0	0	0	0	0	0	0	1	14441	1335	47	3		3	SLC22A10	11	63071614	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	588210	63071614	71934902	130	32048										
TMEM151A	256472	broad.mit.edu	37	chr11	66062455	66062455	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gcgcgcttcttcagcgccaaCgagggcctggacgactatct	12	14	3	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:66062455C>T	uc001ohl.2	+	2	850	c.738C>T	c.(736-738)AAC>AAT	p.N246N		NM_153266	NP_694998	Q8N4L1	T151A_HUMAN	transmembrane protein 151A	246						integral to membrane				central_nervous_system(1)	1						TCAGCGCCAACGAGGGCCTGG	0.692													6	8	---	---	---	---	PASS	T	66062455	T	T	66062455	2	4	83	1	0	0	0	0	0	0	0	1	16067	535	19	1		1	TMEM151A	11	66062455	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	2990841	66062455	68944061	131	32049										
PELI3	246330	broad.mit.edu	37	chr11	66243384	66243384	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cccaggagcgcgaatgtcctCtctgccgccttgtggggcct	13	15	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:66243384C>G	uc001oic.3	+	8	1320	c.1156C>G	c.(1156-1158)CTC>GTC	p.L386V	PELI3_uc001oid.3_Missense_Mutation_p.L362V|PELI3_uc001oie.3_Missense_Mutation_p.L237V	NM_145065	NP_659502	Q8N2H9	PELI3_HUMAN	pellino 3 alpha isoform 1	386						cytosol	protein binding			ovary(1)	1						CGAATGTCCTCTCTGCCGCCT	0.697													10	21	---	---	---	---	PASS	G	66243384	G	G	66243384	3	3	83	1	0	0	0	0	1	0	0	0	11723	913	32	2	1182	2	PELI3	11	66243384	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	180929	66243384	68763132	132	32050										
XRRA1	143570	broad.mit.edu	37	chr11	74644890	74644890	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	attaatggtgcacagatctgAtggcttcctcacacagtggt	10	9	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:74644890A>G	uc009yub.2	-	5	639	c.307T>C	c.(307-309)TCA>CCA	p.S103P	XRRA1_uc001ovm.2_RNA|XRRA1_uc001ovo.2_5'UTR|XRRA1_uc001ovq.3_Missense_Mutation_p.S103P|XRRA1_uc001ovp.3_5'UTR|XRRA1_uc001ovr.2_5'UTR	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	103					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						CACAGATCTGATGGCTTCCTC	0.478													9	8	---	---	---	---	PASS	G	74644890	G	G	74644890	3	3	83	1	0	0	0	0	1	0	0	0	17458	333	12	5	2131	5	XRRA1	11	74644890	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	8401506	74644890	60361626	133	32051										
KCTD21	283219	broad.mit.edu	37	chr11	77885071	77885071	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggtggttggggtcctgcaagTggctggtgatggaggagaga	21	4	0	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:77885071T>C	uc001ozb.2	-	2	605	c.530A>G	c.(529-531)CAC>CGC	p.H177R		NM_001029859	NP_001025030	Q4G0X4	KCD21_HUMAN	potassium channel tetramerisation domain	177						voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.46e-24)			GTCCTGCAAGTGGCTGGTGAT	0.567													60	85	---	---	---	---	PASS	C	77885071	C	C	77885071	3	2	83	1	0	0	0	0	1	0	0	0	8109	1696	59	5	256	5	KCTD21	11	77885071	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	3240181	77885071	57121445	134	32052										
DLG2	1740	broad.mit.edu	37	chr11	83809999	83809999	+	Missense_Mutation	SNP	G	T	T													0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cctctgctgcagcacctcctGgtataatcttcgtaataaat							TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:83809999G>T	uc001paj.2	-	5	704	c.401C>A	c.(400-402)CCA>CAA	p.P134Q	DLG2_uc001pai.2_Missense_Mutation_p.P83Q|DLG2_uc010rsy.1_Missense_Mutation_p.P101Q|DLG2_uc010rsz.1_Missense_Mutation_p.P134Q|DLG2_uc010rta.1_Missense_Mutation_p.P134Q|DLG2_uc001pak.2_Missense_Mutation_p.P239Q|DLG2_uc010rtb.1_Missense_Mutation_p.P101Q|DLG2_uc001pal.1_Missense_Mutation_p.P134Q|DLG2_uc001pam.1_Missense_Mutation_p.P173Q	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	134	PDZ 1.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				AGCACCTCCTGGTATAATCTT	0.428													5	9	---	---	---	---	PASS	T	83809999	T	T	83809999	3	4	83	1	0	0	0	0	1	0	0	0	4555	1348	47	3	2337	3	DLG2	11	83809999	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	5924928	83809999	51196517	135	32053	637	2								
DLG2	1740	broad.mit.edu	37	chr11	83810000	83810000	+	Missense_Mutation	SNP	G	T	T													0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctctgctgcagcacctcctgGtataatcttcgtaataaata							TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:83810000G>T	uc001paj.2	-	5	703	c.400C>A	c.(400-402)CCA>ACA	p.P134T	DLG2_uc001pai.2_Missense_Mutation_p.P83T|DLG2_uc010rsy.1_Missense_Mutation_p.P101T|DLG2_uc010rsz.1_Missense_Mutation_p.P134T|DLG2_uc010rta.1_Missense_Mutation_p.P134T|DLG2_uc001pak.2_Missense_Mutation_p.P239T|DLG2_uc010rtb.1_Missense_Mutation_p.P101T|DLG2_uc001pal.1_Missense_Mutation_p.P134T|DLG2_uc001pam.1_Missense_Mutation_p.P173T	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	134	PDZ 1.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				GCACCTCCTGGTATAATCTTC	0.428													5	9	---	---	---	---	PASS	T	83810000	T	T	83810000	3	4	83	1	0	0	0	0	1	0	0	0	4555	1261	44	3	2338	3	DLG2	11	83810000	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	1	83810000	51196516	136	32054	637	2								
VWA5A	4013	broad.mit.edu	37	chr11	124005701	124005701	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tgcccgggcatcagggggcaCctcagaatttatcacaggca	12	12	3	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr11:124005701C>T	uc001pzu.2	+	12	1528	c.1319C>T	c.(1318-1320)ACC>ATC	p.T440I	VWA5A_uc001pzt.2_Missense_Mutation_p.T440I	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	440	VWFA.									upper_aerodigestive_tract(1)|ovary(1)	2						TCAGGGGGCACCTCAGAATTT	0.507													13	75	---	---	---	---	PASS	T	124005701	T	T	124005701	3	4	83	1	0	0	0	0	1	0	0	0	17239	507	18	3	1361	3	VWA5A	11	124005701	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	40195701	124005701	11000815	137	32055										
CHD4	1108	broad.mit.edu	37	chr12	6700653	6700653	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	attgaagcggtcaatggcctCttgccgcatgttcccagtga	11	11	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:6700653C>G	uc001qpo.2	-	22	3483	c.3319G>C	c.(3319-3321)GAG>CAG	p.E1107Q	CHD4_uc001qpn.2_Missense_Mutation_p.E1100Q|CHD4_uc001qpp.2_Missense_Mutation_p.E1104Q	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1107	Helicase C-terminal.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TCAATGGCCTCTTGCCGCATG	0.443													14	112	---	---	---	---	PASS	G	6700653	G	G	6700653	3	3	83	1	0	0	0	0	1	0	0	0	3327	922	32	2	2495	2	CHD4	12	6700653	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08		6700653	127151242	138	32056										
PRB4	5545	broad.mit.edu	37	chr12	11461806	11461806	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cctccttgtgggcgtcgtccTtctggctttcctggaggagg	14	12	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:11461806T>C	uc001qzf.1	-	3	145	c.111A>G	c.(109-111)GAA>GAG	p.E37E	PRB4_uc001qzt.2_Silent_p.E37E	NM_002723	NP_002714	P10163	PRB4_HUMAN	proline-rich protein BstNI subfamily 4	37	9.5 X 21 AA tandem repeats of K-P-[EQ]- [GR]-[PR]-[PR]-P-Q-G-G-N-Q-[PS]-[QH]- [RG]-[PT]-P-P-[PH]-P-G.|1.			LISGKPEGR -> IIPPKPPG (in Ref. 5; AA sequence).|E -> Q (in Ref. 2; CAA30543 and 7; CAA30542).		extracellular region				ovary(1)	1						GGCGTCGTCCTTCTGGCTTTC	0.532										HNSCC(22;0.051)			45	416	---	---	---	---	PASS	C	11461806	C	C	11461806	2	2	83	1	0	0	0	0	0	0	0	1	12445	1606	56	5		5	PRB4	12	11461806	Silent	SNP	T	TCGA-39-5019-01A-01D-1817-08	4761153	11461806	122390089	139	32057										
ABCC9	10060	broad.mit.edu	37	chr12	22068692	22068692	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ccaattgccttcagatcaatAggctttttgtgagcagatat	8	8	2	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:22068692A>T	uc001rfi.1	-	5	746	c.726T>A	c.(724-726)CCT>CCA	p.P242P	ABCC9_uc001rfh.2_Silent_p.P242P|ABCC9_uc001rfj.1_Silent_p.P242P	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	242	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TCAGATCAATAGGCTTTTTGT	0.368													9	110	---	---	---	---	PASS	T	22068692	T	T	22068692	2	4	83	1	0	0	0	0	0	0	0	1	59	407	15	5		5	ABCC9	12	22068692	Silent	SNP	A	TCGA-39-5019-01A-01D-1817-08	10606886	22068692	111783203	140	32058										
ITPR2	3709	broad.mit.edu	37	chr12	26636760	26636760	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ccggttgtacttccacaaatGcagtccagaaactgaagggt	10	10	0	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:26636760G>T	uc001rhg.2	-	42	6300	c.5883C>A	c.(5881-5883)TGC>TGA	p.C1961*	ITPR2_uc009zjg.1_Nonsense_Mutation_p.C112*	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1961	Cytoplasmic (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)					TTCCACAAATGCAGTCCAGAA	0.438													5	230	---	---	---	---	PASS	T	26636760	T	T	26636760	4	4	83	1	0	0	0	0	0	1	0	0	7921	1311	46	3	2286	3	ITPR2	12	26636760	Nonsense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	4568068	26636760	107215135	141	32059										
TENC1	23371	broad.mit.edu	37	chr12	53448212	53448212	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tgtgctgcaatccaagcaccGggacaagtacctggtgaggg	14	10	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:53448212G>C	uc001sbp.2	+	7	644	c.509G>C	c.(508-510)CGG>CCG	p.R170P	uc001sbk.1_RNA|TENC1_uc001sbl.2_Missense_Mutation_p.R46P|TENC1_uc001sbm.2_Missense_Mutation_p.R180P|TENC1_uc001sbn.2_Missense_Mutation_p.R180P|TENC1_uc001sbo.1_Missense_Mutation_p.R170P	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	170	Phosphatase tensin-type.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding	p.R170P(1)		ovary(1)|pancreas(1)	2						TCCAAGCACCGGGACAAGTAC	0.672													4	34	---	---	---	---	PASS	C	53448212	C	C	53448212	3	2	83	1	0	0	0	0	1	0	0	0	15755	1116	39	4	644	4	TENC1	12	53448212	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	26811452	53448212	80403683	142	32060										
TENC1	23371	broad.mit.edu	37	chr12	53453230	53453230	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ccagggctaccgggagccctGcggggttcccaatgggggct	17	13	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:53453230G>T	uc001sbp.2	+	18	1940	c.1805G>T	c.(1804-1806)TGC>TTC	p.C602F	TENC1_uc001sbl.2_Missense_Mutation_p.C478F|TENC1_uc001sbn.2_Missense_Mutation_p.C612F|TENC1_uc001sbq.2_Missense_Mutation_p.C97F|TENC1_uc001sbr.2_RNA|TENC1_uc009zmr.2_Missense_Mutation_p.C97F|TENC1_uc001sbs.2_5'Flank	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	602					intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						CGGGAGCCCTGCGGGGTTCCC	0.706													6	11	---	---	---	---	PASS	T	53453230	T	T	53453230	3	4	83	1	0	0	0	0	1	0	0	0	15755	1319	46	3	1984	3	TENC1	12	53453230	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	5018	53453230	80398665	143	32061										
TENC1	23371	broad.mit.edu	37	chr12	53454751	53454751	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	acgccccctggcaaggccctCgaggcccccccgacagccca	10	22	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:53454751C>T	uc001sbp.2	+	20	3196	c.3061C>T	c.(3061-3063)CGA>TGA	p.R1021*	TENC1_uc001sbl.2_Nonsense_Mutation_p.R897*|TENC1_uc001sbn.2_Nonsense_Mutation_p.R1031*|TENC1_uc001sbq.2_Nonsense_Mutation_p.R419*|TENC1_uc001sbr.2_RNA|TENC1_uc009zmr.2_Nonsense_Mutation_p.R516*|TENC1_uc001sbs.2_5'Flank	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	1021	Pro-rich.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						GCAAGGCCCTCGAGGCCCCCC	0.687													9	15	---	---	---	---	PASS	T	53454751	T	T	53454751	4	4	83	1	0	0	0	0	0	1	0	0	15755	876	31	2	3248	2	TENC1	12	53454751	Nonsense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	1521	53454751	80397144	144	32062										
HOXC5	3222	broad.mit.edu	37	chr12	54427002	54427002	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aactatggatcggcctcagaGgtgcaggcatccaggtactg	13	10	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:54427002G>A	uc001sew.2	+	1	171	c.96G>A	c.(94-96)GAG>GAA	p.E32E	HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron|MIR615_hsa-mir-615|MI0003628_5'Flank	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	32					regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CGGCCTCAGAGGTGCAGGCAT	0.542													49	58	---	---	---	---	PASS	A	54427002	A	A	54427002	2	1	83	1	0	0	0	0	0	0	0	1	7314	991	35	3		3	HOXC5	12	54427002	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	972251	54427002	79424893	145	32063										
IFNG	3458	broad.mit.edu	37	chr12	68551865	68551865	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tttggctctgcattatttttCtgtcactctccttggaagga	8	9	4	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:68551865C>G	uc001stw.1	-	3	320	c.194G>C	c.(193-195)AGA>ACA	p.R65T		NM_000619	NP_000610	P01579	IFNG_HUMAN	interferon, gamma precursor	65					cell cycle arrest|interferon-gamma-mediated signaling pathway|negative regulation of interleukin-17 production|negative regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of metanephric nephron tubule epithelial cell differentiation|negative regulation of smooth muscle cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of fructose 1,6-bisphosphate 1-phosphatase activity|positive regulation of fructose 1,6-bisphosphate metabolic process|positive regulation of interleukin-12 production|positive regulation of interleukin-23 production|positive regulation of killing of cells of other organism|positive regulation of membrane protein ectodomain proteolysis|positive regulation of mesenchymal cell proliferation|positive regulation of nitric oxide biosynthetic process|positive regulation of osteoclast differentiation|positive regulation of peptidyl-serine phosphorylation of STAT protein|positive regulation of smooth muscle cell apoptosis|positive regulation of tumor necrosis factor (ligand) superfamily member 11 production|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of vitamin D biosynthetic process|protein import into nucleus, translocation|regulation of insulin secretion|regulation of interferon-gamma-mediated signaling pathway|response to virus	extracellular space	cytokine activity|interferon-gamma receptor binding				0			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000829)	Glucosamine(DB01296)|Interferon gamma-1b(DB00033)|Simvastatin(DB00641)	CATTATTTTTCTGTCACTCTC	0.373													12	12	---	---	---	---	PASS	G	68551865	G	G	68551865	3	3	83	1	0	0	0	0	1	0	0	0	7548	913	32	2	314	2	IFNG	12	68551865	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	14124863	68551865	65300030	146	32064										
UBE2N	7334	broad.mit.edu	37	chr12	93804845	93804845	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttacctttcaaaatatctaaAcatattcttcccaacttgtc	1	11	3	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:93804845A>G	uc001tcp.2	-	2	627	c.261T>C	c.(259-261)TGT>TGC	p.C87C		NM_003348	NP_003339	P61088	UBE2N_HUMAN	ubiquitin-conjugating enzyme E2N	87		Glycyl thioester intermediate.		C->A: Loss of polyubiquitination of PCNA. Impairs interaction with SHPRH.	DNA double-strand break processing|double-strand break repair via homologous recombination|histone ubiquitination|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of DNA repair|positive regulation of histone modification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity|postreplication repair|protein K63-linked ubiquitination|proteolysis|regulation of histone ubiquitination|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus|UBC13-MMS2 complex|UBC13-UEV1A complex|ubiquitin ligase complex	ATP binding|ubiquitin binding|ubiquitin-protein ligase activity				0						AAATATCTAAACATATTCTTC	0.323								Direct_reversal_of_damage|Rad6_pathway					15	41	---	---	---	---	PASS	G	93804845	G	G	93804845	2	3	83	1	0	0	0	0	0	0	0	1	16863	41	2	5		5	UBE2N	12	93804845	Silent	SNP	A	TCGA-39-5019-01A-01D-1817-08	25252980	93804845	40047050	147	32065										
PLXNC1	10154	broad.mit.edu	37	chr12	94697543	94697543	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tttccccaggaagcaccaacTaataagcttctctatgccaa	5	13	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:94697543T>A	uc001tdc.2	+	29	4647	c.4398T>A	c.(4396-4398)ACT>ACA	p.T1466T	PLXNC1_uc010sut.1_Silent_p.T513T|PLXNC1_uc009zsv.2_Silent_p.T205T	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1466	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						AAGCACCAACTAATAAGCTTC	0.274													3	28	---	---	---	---	PASS	A	94697543	A	A	94697543	2	1	83	1	0	0	0	0	0	0	0	1	12126	1509	53	5		5	PLXNC1	12	94697543	Silent	SNP	T	TCGA-39-5019-01A-01D-1817-08	892698	94697543	39154352	148	32066										
FGD6	55785	broad.mit.edu	37	chr12	95602706	95602706	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	catacacatttgcatcagcgTcctccatgctgctggaattc	7	13	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:95602706T>C	uc001tdp.3	-	2	2578	c.2354A>G	c.(2353-2355)GAC>GGC	p.D785G	FGD6_uc009zsx.2_Intron	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	785					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						TGCATCAGCGTCCTCCATGCT	0.463													12	104	---	---	---	---	PASS	C	95602706	C	C	95602706	3	2	83	1	0	0	0	0	1	0	0	0	5837	1667	58	5	2018	5	FGD6	12	95602706	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	905163	95602706	38249189	149	32067										
VEZT	55591	broad.mit.edu	37	chr12	95656769	95656769	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tggagctgattgagctacttGatcccagtatcctgtctgca	10	10	1	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:95656769G>C	uc001tdz.2	+	4	451	c.346G>C	c.(346-348)GAT>CAT	p.D116H	VEZT_uc009zsy.1_Intron|VEZT_uc001tdr.2_Intron|VEZT_uc001tds.2_Missense_Mutation_p.D68H|VEZT_uc001tdt.2_Missense_Mutation_p.D68H|VEZT_uc009zsz.1_Missense_Mutation_p.D116H|VEZT_uc001tdv.2_Missense_Mutation_p.D85H|VEZT_uc001tdw.1_Missense_Mutation_p.D68H|VEZT_uc009zta.1_Missense_Mutation_p.D68H	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	116						acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						TGAGCTACTTGATCCCAGTAT	0.458													5	186	---	---	---	---	PASS	C	95656769	C	C	95656769	3	2	83	1	0	0	0	0	1	0	0	0	17153	1290	45	2	360	2	VEZT	12	95656769	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	54063	95656769	38195126	150	32068										
C12orf63	374467	broad.mit.edu	37	chr12	97093757	97093757	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tttcctttacagatagaagtCcttatagatttgagattctt	6	6	1	4			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:97093757C>A	uc001tet.1	+	13	1713	c.1635C>A	c.(1633-1635)GTC>GTA	p.V545V		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	545										skin(6)|ovary(1)	7						AGATAGAAGTCCTTATAGATT	0.313													21	49	---	---	---	---	PASS	A	97093757	A	A	97093757	2	1	83	1	0	0	0	0	0	0	0	1	1706	842	30	2		2	C12orf63	12	97093757	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	1436988	97093757	36758138	151	32069										
ISCU	23479	broad.mit.edu	37	chr12	108960978	108960978	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cctctcaggtggaggaagccTtgactatcaaaaacacagat	9	10	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:108960978T>C	uc010sxc.1	+	4	457	c.352T>C	c.(352-354)TTG>CTG	p.L118L	ISCU_uc010sxa.1_Silent_p.L118L|ISCU_uc010sxb.1_Silent_p.L118L|ISCU_uc001tnc.3_Silent_p.L93L|ISCU_uc009zuy.2_Silent_p.L93L|ISCU_uc010sxd.1_Silent_p.L118L	NM_213595	NP_998760	Q9H1K1	ISCU_HUMAN	iron-sulfur cluster assembly enzyme isoform	118					iron-sulfur cluster assembly|nitrogen fixation	cytosol|mitochondrion|nucleus	iron ion binding|iron-sulfur cluster binding|protein complex scaffold				0						GGAGGAAGCCTTGACTATCAA	0.498													5	152	---	---	---	---	PASS	C	108960978	C	C	108960978	2	2	83	1	0	0	0	0	0	0	0	1	7852	1606	56	5		5	ISCU	12	108960978	Silent	SNP	T	TCGA-39-5019-01A-01D-1817-08	11867221	108960978	24890917	152	32070										
DNAH10	196385	broad.mit.edu	37	chr12	124311350	124311350	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctacctcggccagtccgtggCttatcagtgacctactactt	8	14	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:124311350C>T	uc001uft.3	+	24	3967	c.3942C>T	c.(3940-3942)GGC>GGT	p.G1314G		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1314	Stem (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)		CAGTCCGTGGCTTATCAGTGA	0.458													60	83	---	---	---	---	PASS	T	124311350	T	T	124311350	2	4	83	1	0	0	0	0	0	0	0	1	4598	784	28	3		3	DNAH10	12	124311350	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	15350372	124311350	9540545	153	32071										
GLT1D1	144423	broad.mit.edu	37	chr12	129431905	129431905	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ccgctggggtacgattgattGgagagatgcctcaagaagat	14	7	1	4			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:129431905G>T	uc010tbh.1	+	11	706	c.697G>T	c.(697-699)GGA>TGA	p.G233*	GLT1D1_uc001uhx.1_Nonsense_Mutation_p.G148*|GLT1D1_uc001uhy.1_RNA	NM_144669	NP_653270	Q96MS3	GL1D1_HUMAN	glycosyltransferase 1 domain containing 1	228					biosynthetic process	extracellular region	transferase activity, transferring glycosyl groups				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.97e-06)|Epithelial(86;3.97e-05)|all cancers(50;0.00019)		ACGATTGATTGGAGAGATGCC	0.512													9	65	---	---	---	---	PASS	T	129431905	T	T	129431905	4	4	83	1	0	0	0	0	0	1	0	0	6465	1349	47	3	464	3	GLT1D1	12	129431905	Nonsense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	5120555	129431905	4419990	154	32072										
FZD10	11211	broad.mit.edu	37	chr12	130649114	130649114	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gccgtaggttaaagaagaagAgccggagaaaaccggccagc	14	9	0	4			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr12:130649114A>T	uc001uii.2	+	1	2083	c.1627A>T	c.(1627-1629)AGC>TGC	p.S543C	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	543	Cytoplasmic (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		AAAGAAGAAGAGCCGGAGAAA	0.552													28	42	---	---	---	---	PASS	T	130649114	T	T	130649114	3	4	83	1	0	0	0	0	1	0	0	0	6129	304	11	5	1629	5	FZD10	12	130649114	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	1217209	130649114	3202781	155	32073										
TUBA3C	7278	broad.mit.edu	37	chr13	19751242	19751242	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gattggctggctcgaagcagGcattggtgatctcagccacg	14	10	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr13:19751242G>C	uc009zzj.2	-	4	930	c.881C>G	c.(880-882)GCC>GGC	p.A294G		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	294					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		CTCGAAGCAGGCATTGGTGAT	0.612													7	178	---	---	---	---	PASS	C	19751242	C	C	19751242	3	2	83	1	0	0	0	0	1	0	0	0	16743	1203	42	4	479	4	TUBA3C	13	19751242	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08		19751242	95418636	156	32074										
MTUS2	23281	broad.mit.edu	37	chr13	29599515	29599515	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gccagaccacgctgtcccggCagctttccctgcaactgaca	9	17	0	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr13:29599515C>A	uc001usl.3	+	1	768	c.710C>A	c.(709-711)GCA>GAA	p.A237E		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	227						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						GCTGTCCCGGCAGCTTTCCCT	0.582													24	38	---	---	---	---	PASS	A	29599515	A	A	29599515	3	1	83	1	0	0	0	0	1	0	0	0	9966	710	25	3	712	3	MTUS2	13	29599515	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	9848273	29599515	85570363	157	32075										
NBEA	26960	broad.mit.edu	37	chr13	35769999	35769999	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aacctagtttctttcattacAgaaacacctgctgcatttcc	4	12	2	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr13:35769999A>G	uc001uvb.2	+	31	5134	c.4928_splice	c.e31-2	p.E1643_splice	NBEA_uc010abi.2_Splice_Site_p.E299_splice	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin							cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CTTTCATTACAGAAACACCTG	0.308													24	47	---	---	---	---	PASS	G	35769999	G	G	35769999	5	3	83	1	0	0	0	0	0	0	1	0	10187	202	7	5	5048	5	NBEA	13	35769999	Splice_Site	SNP	A	TCGA-39-5019-01A-01D-1817-08	6170484	35769999	79399879	158	32076										
MYCBP2	23077	broad.mit.edu	37	chr13	77743836	77743836	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctggaagaactcagcagttcTggaatgtcatcagctaaaaa	9	8	4	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr13:77743836T>C	uc001vkf.2	-	40	5785	c.5694A>G	c.(5692-5694)CCA>CCG	p.P1898P	MYCBP2_uc010aev.2_Silent_p.P1302P	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1898					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TCAGCAGTTCTGGAATGTCAT	0.383													33	35	---	---	---	---	PASS	C	77743836	C	C	77743836	2	2	83	1	0	0	0	0	0	0	0	1	10018	1567	55	5		5	MYCBP2	13	77743836	Silent	SNP	T	TCGA-39-5019-01A-01D-1817-08	41973837	77743836	37426042	159	32077										
MYO16	23026	broad.mit.edu	37	chr13	109365035	109365035	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggctcctgaaggagggggcaGacccccacaccctcgtctcc	12	17	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr13:109365035G>T	uc001vqt.1	+	3	379	c.253G>T	c.(253-255)GAC>TAC	p.D85Y	MYO16_uc010agk.1_Missense_Mutation_p.D107Y	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	85	ANK 1.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			GGAGGGGGCAGACCCCCACAC	0.567													43	76	---	---	---	---	PASS	T	109365035	T	T	109365035	3	4	83	1	0	0	0	0	1	0	0	0	10064	942	33	2	259	2	MYO16	13	109365035	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	31621199	109365035	5804843	160	32078										
POTEG	404785	broad.mit.edu	37	chr14	19553578	19553578	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gaccacgacgattctgctatGaagacactcaggagcaagat	10	10	2	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr14:19553578G>A	uc001vuz.1	+	1	214	c.162G>A	c.(160-162)ATG>ATA	p.M54I	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	54										ovary(1)	1						ATTCTGCTATGAAGACACTCA	0.617													52	561	---	---	---	---	PASS	A	19553578	A	A	19553578	3	1	83	1	0	0	0	0	1	0	0	0	12266	1290	45	2	164	2	POTEG	14	19553578	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08		19553578	87795962	161	32079										
OR4M1	441670	broad.mit.edu	37	chr14	20249408	20249408	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtggtcaccaaatatattttGtgtgaagagaagtgaaagat	11	3	1	4			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr14:20249408G>A	uc010tku.1	+	1	927	c.927G>A	c.(925-927)TTG>TTA	p.L309L		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	309	Cytoplasmic (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)		AATATATTTTGTGTGAAGAGA	0.343													9	15	---	---	---	---	PASS	A	20249408	A	A	20249408	2	1	83	1	0	0	0	0	0	0	0	1	11075	1368	48	3		3	OR4M1	14	20249408	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	695830	20249408	87100132	162	32080										
MMP14	4323	broad.mit.edu	37	chr14	23313949	23313949	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	agattgatgctgctctcttcTggatgcccaatggaaagacc	10	10	2	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr14:23313949T>C	uc001whc.2	+	8	1495	c.1261T>C	c.(1261-1263)TGG>CGG	p.W421R		NM_004995	NP_004986	P50281	MMP14_HUMAN	matrix metalloproteinase 14 preproprotein	421	Hemopexin-like 3.|Extracellular (Potential).					extracellular matrix|integral to plasma membrane|melanosome	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0	all_cancers(95;9.47e-05)			GBM - Glioblastoma multiforme(265;0.00551)		TGCTCTCTTCTGGATGCCCAA	0.547													6	148	---	---	---	---	PASS	C	23313949	C	C	23313949	3	2	83	1	0	0	0	0	1	0	0	0	9653	1580	55	5	1291	5	MMP14	14	23313949	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	3064541	23313949	84035591	163	32081										
MYH6	4624	broad.mit.edu	37	chr14	23855298	23855298	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggcgatgttctccttcaggtCgtcgttggcacggaccgcat	13	12	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr14:23855298C>A	uc001wjv.2	-	34	5069	c.5002G>T	c.(5002-5004)GAC>TAC	p.D1668Y		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1668	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TCCTTCAGGTCGTCGTTGGCA	0.642													27	41	---	---	---	---	PASS	A	23855298	A	A	23855298	3	1	83	1	0	0	0	0	1	0	0	0	10038	884	31	2	841	2	MYH6	14	23855298	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	541349	23855298	83494242	164	32082										
RTN1	6252	broad.mit.edu	37	chr14	60193847	60193847	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtagtcgaggaaggaacccgGctcggccaggccccgccggc	16	15	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr14:60193847G>T	uc001xen.1	-	3	1764	c.1555C>A	c.(1555-1557)CCG>ACG	p.P519T	RTN1_uc001xem.1_Missense_Mutation_p.P99T	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	519					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		AAGGAACCCGGCTCGGCCAGG	0.721													7	8	---	---	---	---	PASS	T	60193847	T	T	60193847	3	4	83	1	0	0	0	0	1	0	0	0	13725	1203	42	3	868	3	RTN1	14	60193847	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	36338549	60193847	47155693	165	32083										
EXD2	55218	broad.mit.edu	37	chr14	69704299	69704299	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gggcttgttccaggaagaacGtgattccacatgagtaccgg	13	9	0	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr14:69704299G>A	uc001xkt.2	+	10	1584	c.925G>A	c.(925-927)GTG>ATG	p.V309M	EXD2_uc001xku.2_Missense_Mutation_p.V179M|EXD2_uc001xkv.2_Missense_Mutation_p.V434M|EXD2_uc001xkw.2_Missense_Mutation_p.V309M|EXD2_uc010aqt.2_Missense_Mutation_p.V434M|EXD2_uc010tte.1_Missense_Mutation_p.V434M|EXD2_uc001xky.2_Missense_Mutation_p.V309M	NM_018199	NP_060669	Q9NVH0	EXD2_HUMAN	exonuclease 3'-5' domain containing 2	309					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						CAGGAAGAACGTGATTCCACA	0.547													30	44	---	---	---	---	PASS	A	69704299	A	A	69704299	3	1	83	1	0	0	0	0	1	0	0	0	5298	1145	40	1	947	1	EXD2	14	69704299	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	9510452	69704299	37645241	166	32084										
ACOT2	10965	broad.mit.edu	37	chr14	74036246	74036246	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cacgctgcgcgcgtccctgcGcgacgagaagggcgcgcttt	15	15	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr14:74036246G>T	uc001xon.3	+	1	475	c.302G>T	c.(301-303)CGC>CTC	p.R101L	ACOT1_uc010tuc.1_Intron|ACOT2_uc001xom.2_Intron	NM_006821	NP_006812	P49753	ACOT2_HUMAN	acyl-CoA thioesterase 2	101					acyl-CoA metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process	mitochondrion	carboxylesterase activity|palmitoyl-CoA hydrolase activity|protein binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0033)|OV - Ovarian serous cystadenocarcinoma(108;0.0639)		GCGTCCCTGCGCGACGAGAAG	0.746													6	10	---	---	---	---	PASS	T	74036246	T	T	74036246	3	4	83	1	0	0	0	0	1	0	0	0	152	1087	38	1	304	1	ACOT2	14	74036246	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	4331947	74036246	33313294	167	32085										
STON2	85439	broad.mit.edu	37	chr14	81744701	81744701	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggctgtacatcctgcagagtCtcattcaggaaagggttggt	13	8	2	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr14:81744701C>T	uc010tvu.1	-	4	1155	c.954G>A	c.(952-954)GAG>GAA	p.E318E	STON2_uc001xvk.1_Silent_p.E318E|STON2_uc010tvt.1_Silent_p.E115E	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	318					endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		CCTGCAGAGTCTCATTCAGGA	0.502													5	101	---	---	---	---	PASS	T	81744701	T	T	81744701	2	4	83	1	0	0	0	0	0	0	0	1	15317	912	32	2		2	STON2	14	81744701	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	7708455	81744701	25604839	168	32086										
AKAP13	11214	broad.mit.edu	37	chr15	86124576	86124576	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	atgtgacggtggatgttacaGgggttaatgctctacaaggt	14	5	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr15:86124576G>T	uc002blv.1	+	7	3447	c.3277G>T	c.(3277-3279)GGG>TGG	p.G1093W	AKAP13_uc002blt.1_Missense_Mutation_p.G1093W|AKAP13_uc002blu.1_Missense_Mutation_p.G1093W|AKAP13_uc010bne.1_5'Flank	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1093					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						GGATGTTACAGGGGTTAATGC	0.478													51	75	---	---	---	---	PASS	T	86124576	T	T	86124576	3	4	83	1	0	0	0	0	1	0	0	0	449	1000	35	3	3299	3	AKAP13	15	86124576	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08		86124576	16406816	169	32087										
EEF2K	29904	broad.mit.edu	37	chr16	22261999	22261999	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tcggccgaggagcaatgaggGagtgcttccggacgtaagtg	17	8	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr16:22261999G>T	uc002dki.2	+	5	918	c.433G>T	c.(433-435)GAG>TAG	p.E145*	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	145	Alpha-type protein kinase.				insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		AGCAATGAGGGAGTGCTTCCG	0.597													19	91	---	---	---	---	PASS	T	22261999	T	T	22261999	4	4	83	1	0	0	0	0	0	1	0	0	4930	1175	41	2	447	2	EEF2K	16	22261999	Nonsense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08		22261999	68092754	170	32088										
USP10	9100	broad.mit.edu	37	chr16	84778370	84778370	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctgaatttattctcggttgtAcagcttccaaaataacccct	5	11	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr16:84778370A>G	uc002fii.2	+	4	425	c.283A>G	c.(283-285)ACA>GCA	p.T95A	USP10_uc010voe.1_Missense_Mutation_p.T99A|USP10_uc010vof.1_Intron|USP10_uc002fij.2_5'UTR	NM_005153	NP_005144	Q14694	UBP10_HUMAN	ubiquitin specific protease 10	95	Interaction with p53/TP53.				DNA damage response, signal transduction by p53 class mediator|DNA repair|protein deubiquitination|ubiquitin-dependent protein catabolic process	early endosome|intermediate filament cytoskeleton|nucleus	cystic fibrosis transmembrane conductance regulator binding|p53 binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						TCTCGGTTGTACAGCTTCCAA	0.498													5	101	---	---	---	---	PASS	G	84778370	G	G	84778370	3	3	83	1	0	0	0	0	1	0	0	0	17038	391	14	5	297	5	USP10	16	84778370	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	62516371	84778370	5576383	171	32089										
CA5A	763	broad.mit.edu	37	chr16	87960490	87960490	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	acgctgtccctccactggatGttaataggagactgccgggt	12	11	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr16:87960490G>T	uc002fkn.1	-	2	260	c.204C>A	c.(202-204)AAC>AAA	p.N68K		NM_001739	NP_001730	P35218	CAH5A_HUMAN	carbonic anhydrase VA, mitochondrial precursor	68					one-carbon metabolic process	mitochondrial matrix	carbonate dehydratase activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0513)		TCCACTGGATGTTAATAGGAG	0.607													6	18	---	---	---	---	PASS	T	87960490	T	T	87960490	3	4	83	1	0	0	0	0	1	0	0	0	2519	1368	48	3	737	3	CA5A	16	87960490	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	3182120	87960490	2394263	172	32090										
FXR2	9513	broad.mit.edu	37	chr17	7504844	7504844	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	acaggggcttctgtggttgaCtgggaggaaaccagtgggaa	17	6	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr17:7504844C>T	uc002gia.1	-	7	771	c.544_splice	c.e7-1	p.S182_splice	FXR2_uc010vud.1_Splice_Site_p.S182_splice	NM_004860	NP_004851	P51116	FXR2_HUMAN	fragile X mental retardation syndrome related							cytosolic large ribosomal subunit	protein binding|RNA binding	p.?(1)			0				READ - Rectum adenocarcinoma(115;0.17)		CTGTGGTTGACTGGGAGGAAA	0.502													38	152	---	---	---	---	PASS	T	7504844	T	T	7504844	5	4	83	1	0	0	0	0	0	0	1	0	6116	579	20	3	1422	3	FXR2	17	7504844	Splice_Site	SNP	C	TCGA-39-5019-01A-01D-1817-08		7504844	73690366	173	32091										
TP53	7157	broad.mit.edu	37	chr17	7577127	7577127	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	acaggcacaaacacgcacctCaaagctgttccgtcccagta	7	15	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr17:7577127C>A	uc002gim.2	-	8	1005	c.811G>T	c.(811-813)GAG>TAG	p.E271*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.E271*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.E139*|TP53_uc010cng.1_Nonsense_Mutation_p.E139*|TP53_uc002gii.1_Nonsense_Mutation_p.E139*|TP53_uc010cnh.1_Nonsense_Mutation_p.E271*|TP53_uc010cni.1_Nonsense_Mutation_p.E271*|TP53_uc002gij.2_Nonsense_Mutation_p.E271*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	271	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> D (in sporadic cancers; somatic mutation).|E -> G (in sporadic cancers; somatic mutation).|E -> V (in an osteosarcoma with no family history; germline mutation and in sporadic cancers; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).|E -> R (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|E -> A (in sporadic cancers; somatic mutation).|E -> Q (in sporadic cancers; somatic mutation).|E -> 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.E271K(22)|p.E271*(14)|p.0?(7)|p.E271V(5)|p.E271Q(3)|p.E271G(3)|p.E271D(3)|p.?(2)|p.G266_E271delGRNSFE(2)|p.E271E(2)|p.E271fs*73(1)|p.E258fs*71(1)|p.E271_R273delEVR(1)|p.F270fs*72(1)|p.S269fs*21(1)|p.L265_K305del41(1)|p.F270_D281del12(1)|p.E271P(1)|p.E271del(1)|p.S269fs*34(1)|p.E271fs*34(1)|p.E271fs*35(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)		ACACGCACCTCAAAGCTGTTC	0.537		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)			7	19	---	---	---	---	PASS	A	7577127	A	A	7577127	4	1	83	1	0	0	0	0	0	1	0	0	16378	835	29	2	475	2	TP53	17	7577127	Nonsense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	72283	7577127	73618083	174	32092										
MYH1	4619	broad.mit.edu	37	chr17	10400460	10400460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctttattttttccagttcatGgatgcgctttcctccttctg	6	11	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr17:10400460G>T	uc002gmo.2	-	33	4676	c.4582C>A	c.(4582-4584)CAT>AAT	p.H1528N	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1528	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TCCAGTTCATGGATGCGCTTT	0.373													17	37	---	---	---	---	PASS	T	10400460	T	T	10400460	3	4	83	1	0	0	0	0	1	0	0	0	10029	1348	47	3	1269	3	MYH1	17	10400460	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	2823333	10400460	70794750	175	32093										
WSB1	26118	broad.mit.edu	37	chr17	25637137	25637137	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tgctggaggagcaaatgaccGgtgggtacgatctgtatctt	14	7	2	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr17:25637137G>C	uc002gzd.1	+	7	1251	c.935G>C	c.(934-936)CGG>CCG	p.R312P	WSB1_uc002gze.1_Missense_Mutation_p.R166P|WSB1_uc002gzf.1_RNA	NM_015626	NP_056441	Q9Y6I7	WSB1_HUMAN	WD repeat and SOCS box-containing 1 isoform 1	312	WD 6.				intracellular signal transduction	intracellular	protein binding				0	all_cancers(1;2e-13)|all_epithelial(1;4.8e-15)|Lung NSC(42;0.00152)		BRCA - Breast invasive adenocarcinoma(3;0.0152)	UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		GCAAATGACCGGTGGGTACGA	0.418													5	107	---	---	---	---	PASS	C	25637137	C	C	25637137	3	2	83	1	0	0	0	0	1	0	0	0	17401	1116	39	4	961	4	WSB1	17	25637137	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	15236677	25637137	55558073	176	32094										
EFCAB5	374786	broad.mit.edu	37	chr17	28419089	28419089	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aagccaacgtgaaactagtgCgtgacatcctgaaggcggtt	12	9	0	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr17:28419089C>T	uc002het.2	+	21	4330	c.4138C>T	c.(4138-4140)CGT>TGT	p.R1380C	EFCAB5_uc010cse.2_Missense_Mutation_p.R1135C|EFCAB5_uc010csf.2_Intron	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	1380							calcium ion binding			ovary(1)|skin(1)	2						GAAACTAGTGCGTGACATCCT	0.388													24	48	---	---	---	---	PASS	T	28419089	T	T	28419089	3	4	83	1	0	0	0	0	1	0	0	0	4938	768	27	1	4387	1	EFCAB5	17	28419089	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	2781952	28419089	52776121	177	32095										
NSF	4905	broad.mit.edu	37	chr17	44806225	44806225	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aatgtttcttttccagattaCgtccctattggccctcgatt	6	11	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr17:44806225C>T	uc002iku.2	+	17	1937	c.1833C>T	c.(1831-1833)TAC>TAT	p.Y611Y	NSF_uc010wke.1_Silent_p.Y517Y|NSF_uc010wkf.1_Silent_p.Y517Y|NSF_uc010wkg.1_Silent_p.Y606Y	NM_006178	NP_006169	P46459	NSF_HUMAN	vesicle-fusing ATPase	611					protein transport|synaptic transmission	cytosol	ATP binding|metal ion binding			ovary(1)	1		Melanoma(429;0.203)	BRCA - Breast invasive adenocarcinoma(9;0.0257)	BRCA - Breast invasive adenocarcinoma(366;0.241)		TTCCAGATTACGTCCCTATTG	0.318													8	27	---	---	---	---	PASS	T	44806225	T	T	44806225	2	4	83	1	0	0	0	0	0	0	0	1	10671	547	19	1		1	NSF	17	44806225	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	16387136	44806225	36388985	178	32096										
PSMD12	5718	broad.mit.edu	37	chr17	65353488	65353488	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	agtaaatcccattctttagcCtcatagcacatcttcactac	3	13	4	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr17:65353488C>T	uc002jfy.2	-	3	314	c.228G>A	c.(226-228)GAG>GAA	p.E76E	PSMD12_uc002jga.2_Silent_p.E56E|PSMD12_uc002jfz.2_Silent_p.E17E|PSMD12_uc010det.1_Silent_p.E76E	NM_002816	NP_002807	O00232	PSD12_HUMAN	proteasome 26S non-ATPase subunit 12 isoform 1	76					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding				0	all_cancers(12;2.38e-11)|all_epithelial(3;8.27e-13)					ATTCTTTAGCCTCATAGCACA	0.368													7	79	---	---	---	---	PASS	T	65353488	T	T	65353488	2	4	83	1	0	0	0	0	0	0	0	1	12695	680	24	3		3	PSMD12	17	65353488	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	20547263	65353488	15841722	179	32097										
ABCA10	10349	broad.mit.edu	37	chr17	67170799	67170799	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aatcccagaaatatgaagtaGtaaattaaatgtattgaaaa	6	3	0	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr17:67170799G>A	uc010dfa.1	-	25	3876	c.2997C>T	c.(2995-2997)TAC>TAT	p.Y999Y	ABCA10_uc010wqs.1_Intron|ABCA10_uc010wqt.1_RNA	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	999	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					ATATGAAGTAGTAAATTAAAT	0.363													15	63	---	---	---	---	PASS	A	67170799	A	A	67170799	2	1	83	1	0	0	0	0	0	0	0	1	29	1024	36	3		3	ABCA10	17	67170799	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	1817311	67170799	14024411	180	32098										
PGS1	9489	broad.mit.edu	37	chr17	76400029	76400029	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aggtgaatggcttctttgggGccaagggggtggccggcgcc	19	9	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr17:76400029G>T	uc002jvm.2	+	7	1273	c.1261G>T	c.(1261-1263)GCC>TCC	p.A421S	PGS1_uc010wtt.1_RNA|PGS1_uc010dho.2_RNA|PGS1_uc002jvn.2_Missense_Mutation_p.A134S|PGS1_uc002jvo.2_RNA|PGS1_uc002jvp.1_Missense_Mutation_p.A134S	NM_024419	NP_077733	Q32NB8	PGPS1_HUMAN	phosphatidylglycerophosphate synthase 1	421					phospholipid biosynthetic process	endoplasmic reticulum|mitochondrion	ATP binding|CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activity				0			BRCA - Breast invasive adenocarcinoma(99;0.00144)|OV - Ovarian serous cystadenocarcinoma(97;0.031)			CTTCTTTGGGGCCAAGGGGGT	0.617													11	159	---	---	---	---	PASS	T	76400029	T	T	76400029	3	4	83	1	0	0	0	0	1	0	0	0	11808	1203	42	3	1287	3	PGS1	17	76400029	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	9229230	76400029	4795181	181	32099										
DNAH17	8632	broad.mit.edu	37	chr17	76446779	76446779	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctgaccttctcctcgatctcGctggctgtgtgcttggtggt	12	12	2	1	rs138142447		TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr17:76446779G>A	uc010dhp.1	-	12	2106	c.1884C>T	c.(1882-1884)AGC>AGT	p.S628S	DNAH17_uc002jvq.2_5'Flank|DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			CCTCGATCTCGCTGGCTGTGT	0.642													21	17	---	---	---	---	PASS	A	76446779	A	A	76446779	2	1	83	1	0	0	0	0	0	0	0	1	4601	1078	38	1		1	DNAH17	17	76446779	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	46750	76446779	4748431	182	32100										
DLGAP1	9229	broad.mit.edu	37	chr18	3879555	3879555	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	atagcgcgccgcctgcgcctCgtcagggctggccttgcccc	13	18	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr18:3879555C>T	uc002kmf.2	-	1	581	c.514G>A	c.(514-516)GAG>AAG	p.E172K	DLGAP1_uc010wyz.1_Missense_Mutation_p.E172K|DLGAP1_uc002kmk.2_Missense_Mutation_p.E172K|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	172					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				GCCTGCGCCTCGTCAGGGCTG	0.711													36	188	---	---	---	---	PASS	T	3879555	T	T	3879555	3	4	83	1	0	0	0	0	1	0	0	0	4559	893	31	2	2514	2	DLGAP1	18	3879555	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08		3879555	74197693	183	32101										
TMEM200C	645369	broad.mit.edu	37	chr18	5891759	5891759	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gccactgctactgctgttggCcgtggttgggacccggtggc	16	12	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr18:5891759C>T	uc002kmx.1	-	1	345	c.304G>A	c.(304-306)GCC>ACC	p.A102T		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	102						integral to membrane					0						CTGCTGTTGGCCGTGGTTGGG	0.697													4	104	---	---	---	---	PASS	T	5891759	T	T	5891759	3	4	83	1	0	0	0	0	1	0	0	0	16122	739	26	3	1565	3	TMEM200C	18	5891759	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	2012204	5891759	72185489	184	32102										
PIAS2	9063	broad.mit.edu	37	chr18	44416462	44416462	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cactgcacggcatgggattgTcagcctcatttttcctaact	8	12	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr18:44416462T>A	uc002lck.2	-	9	1218	c.1060A>T	c.(1060-1062)ACA>TCA	p.T354S	PIAS2_uc010dnp.2_Missense_Mutation_p.T52S|PIAS2_uc002lcl.2_Missense_Mutation_p.T354S|PIAS2_uc010xda.1_Missense_Mutation_p.T52S|PIAS2_uc002lcm.2_Missense_Mutation_p.T354S|PIAS2_uc002lcn.1_Missense_Mutation_p.T358S	NM_004671	NP_004662	O75928	PIAS2_HUMAN	protein inhibitor of activated STAT X isoform	354	SP-RING-type.				androgen receptor signaling pathway|negative regulation of androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|PML body	androgen receptor binding|DNA binding|protein binding|SUMO ligase activity|transcription coactivator activity|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						CATGGGATTGTCAGCCTCATT	0.438													19	34	---	---	---	---	PASS	A	44416462	A	A	44416462	3	1	83	1	0	0	0	0	1	0	0	0	11876	1667	58	5	904	5	PIAS2	18	44416462	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	38524703	44416462	33660786	185	32103										
TCEB3B	51224	broad.mit.edu	37	chr18	44561068	44561068	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gcctcttccgggttgcttccCgggcgcagcgggctcagggc	16	15	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr18:44561068C>A	uc002lcr.1	-	1	921	c.568G>T	c.(568-570)GGG>TGG	p.G190W	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	190					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GGTTGCTTCCCGGGCGCAGCG	0.701													4	59	---	---	---	---	PASS	A	44561068	A	A	44561068	3	1	83	1	0	0	0	0	1	0	0	0	15679	652	23	1	1697	1	TCEB3B	18	44561068	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	144606	44561068	33516180	186	32104										
LIPG	9388	broad.mit.edu	37	chr18	47108800	47108800	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gagaaattgagcccacctttTacgtcaccctttatggcact	7	12	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr18:47108800T>C	uc002ldv.2	+	7	1357	c.1105T>C	c.(1105-1107)TAC>CAC	p.Y369H	LIPG_uc010xdh.1_Missense_Mutation_p.Y295H	NM_006033	NP_006024	Q9Y5X9	LIPE_HUMAN	endothelial lipase precursor	369	PLAT.				cholesterol homeostasis|high-density lipoprotein particle remodeling|phospholipid catabolic process|phospholipid homeostasis|positive regulation of cholesterol transport|positive regulation of high-density lipoprotein particle clearance|reverse cholesterol transport	extracellular space	heparin binding|lipoprotein lipase activity|phospholipase A1 activity|protein binding|triglyceride lipase activity			ovary(1)|skin(1)	2						GCCCACCTTTTACGTCACCCT	0.448													16	100	---	---	---	---	PASS	C	47108800	C	C	47108800	3	2	83	1	0	0	0	0	1	0	0	0	8823	1754	61	5	1131	5	LIPG	18	47108800	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	2547732	47108800	30968448	187	32105										
DCAF15	90379	broad.mit.edu	37	chr19	14070631	14070631	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	agacttcgaatatgttatcaAtgaggtcatccgccacgacg	9	10	2	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr19:14070631A>G	uc002mxt.2	+	9	1370	c.1364A>G	c.(1363-1365)AAT>AGT	p.N455S	DCAF15_uc002mxu.2_RNA	NM_138353	NP_612362	Q66K64	DCA15_HUMAN	DDB1 and CUL4 associated factor 15	455										central_nervous_system(1)	1						TATGTTATCAATGAGGTCATC	0.607											OREG0025301	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	76	---	---	---	---	PASS	G	14070631	G	G	14070631	3	3	83	1	0	0	0	0	1	0	0	0	4267	101	4	5	1398	5	DCAF15	19	14070631	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08		14070631	45058352	188	32106										
CYP4F11	57834	broad.mit.edu	37	chr19	16034683	16034683	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	actttgccttgttcttgaggAaatcatcaataccctgagtg	8	9	3	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr19:16034683A>G	uc002nbu.2	-	7	893	c.857T>C	c.(856-858)TTC>TCC	p.F286S	CYP4F11_uc010eab.1_Missense_Mutation_p.F286S|CYP4F11_uc002nbt.2_Missense_Mutation_p.F286S	NM_001128932	NP_001122404	Q9HBI6	CP4FB_HUMAN	cytochrome P450 family 4 subfamily F polypeptide	286					inflammatory response|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)	1						GTTCTTGAGGAAATCATCAAT	0.537													80	151	---	---	---	---	PASS	G	16034683	G	G	16034683	3	3	83	1	0	0	0	0	1	0	0	0	4186	246	9	5	745	5	CYP4F11	19	16034683	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	1964052	16034683	43094300	189	32107										
ANO8	57719	broad.mit.edu	37	chr19	17435528	17435528	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cgagttaaagcttgtgacctGagccttcctcttcgggccgg	12	12	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr19:17435528G>T	uc002ngf.2	-	17	3488	c.3329C>A	c.(3328-3330)TCA>TAA	p.S1110*	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	1110	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						CTTGTGACCTGAGCCTTCCTC	0.697													12	188	---	---	---	---	PASS	T	17435528	T	T	17435528	4	4	83	1	0	0	0	0	0	1	0	0	703	1294	45	2	377	2	ANO8	19	17435528	Nonsense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	1400845	17435528	41693455	190	32108										
ELL	8178	broad.mit.edu	37	chr19	18561418	18561418	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	acttcttcttgggcttgctgCgcgaggggctgccgtgtggc	16	11	2	0	rs138181189		TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr19:18561418C>T	uc002njh.2	-	8	1406	c.1334G>A	c.(1333-1335)CGC>CAC	p.R445H	ELL_uc010ebq.2_Missense_Mutation_p.R388H|ELL_uc002njg.2_Missense_Mutation_p.R312H	NM_006532	NP_006523	P55199	ELL_HUMAN	elongation factor RNA polymerase II	445	Nuclear localization signal (Potential).				positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	Cajal body|nuclear speck|transcription elongation factor complex	protein binding			lung(1)	1				GBM - Glioblastoma multiforme(1328;7.81e-07)		GGGCTTGCTGCGCGAGGGGCT	0.682			T	MLL	AL								4	45	---	---	---	---	PASS	T	18561418	T	T	18561418	3	4	83	1	0	0	0	0	1	0	0	0	5062	768	27	1	551	1	ELL	19	18561418	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	1125890	18561418	40567565	191	32109										
LGALS13	29124	broad.mit.edu	37	chr19	40097910	40097910	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggctttgtccatcgaatcccGccatcatttgtgaagatggt	10	10	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr19:40097910G>A	uc002omb.2	+	4	391	c.351G>A	c.(349-351)CCG>CCA	p.P117P		NM_013268	NP_037400	Q9UHV8	PP13_HUMAN	galectin-13	117	Galectin.				lipid catabolic process|phospholipid metabolic process		carboxylesterase activity|lysophospholipase activity|sugar binding			ovary(1)	1	all_cancers(60;1.77e-05)|all_lung(34;5.38e-08)|Lung NSC(34;6.37e-08)|Ovarian(47;0.116)		Epithelial(26;3.28e-26)|OV - Ovarian serous cystadenocarcinoma(5;7.31e-25)|all cancers(26;1.15e-23)|LUSC - Lung squamous cell carcinoma(53;0.00281)			ATCGAATCCCGCCATCATTTG	0.448													30	77	---	---	---	---	PASS	A	40097910	A	A	40097910	2	1	83	1	0	0	0	0	0	0	0	1	8740	1074	38	1		1	LGALS13	19	40097910	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	21536492	40097910	19031073	192	32110										
ERF	2077	broad.mit.edu	37	chr19	42754489	42754489	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cagcccgtcctcaccgcaggGcccggctcagcttgtcgtaa	11	17	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr19:42754489G>A	uc002ote.3	-	2	409	c.251C>T	c.(250-252)GCC>GTC	p.A84V	ERF_uc002otd.3_5'UTR	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	84	ETS.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				TCACCGCAGGGCCCGGCTCAG	0.557													32	58	---	---	---	---	PASS	A	42754489	A	A	42754489	3	1	83	1	0	0	0	0	1	0	0	0	5221	1203	42	3	1407	3	ERF	19	42754489	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	2656579	42754489	16374494	193	32111										
EML2	24139	broad.mit.edu	37	chr19	46124521	46124521	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctgcaggatggaattgcgggTggtccccacgtacagtgtgt	15	9	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr19:46124521T>G	uc002pcn.2	-	11	1101	c.1066A>C	c.(1066-1068)ACC>CCC	p.T356P	EML2_uc002pco.2_RNA|EML2_uc002pcp.2_Missense_Mutation_p.T240P|EML2_uc010xxl.1_Missense_Mutation_p.T503P|EML2_uc010xxm.1_Missense_Mutation_p.T557P|EML2_uc010xxn.1_RNA|EML2_uc010xxo.1_Missense_Mutation_p.T356P|EML2_uc010ekj.2_Silent_p.P322P	NM_012155	NP_036287	O95834	EMAL2_HUMAN	echinoderm microtubule associated protein like	356					sensory perception of sound|visual perception	cytoplasm|intracellular membrane-bounded organelle|microtubule|microtubule associated complex	catalytic activity|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00553)|GBM - Glioblastoma multiforme(486;0.131)|Epithelial(262;0.197)		GAATTGCGGGTGGTCCCCACG	0.498													13	72	---	---	---	---	PASS	G	46124521	G	G	46124521	3	3	83	1	0	0	0	0	1	0	0	0	5097	1696	59	5	919	5	EML2	19	46124521	Missense_Mutation	SNP	T	TCGA-39-5019-01A-01D-1817-08	3370032	46124521	13004462	194	32112										
CD37	951	broad.mit.edu	37	chr19	49842048	49842048	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggcgcaccgcgtgccctgctCctgctacaacttgtcggcga	12	16	0	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr19:49842048C>A	uc002pnd.2	+	6	660	c.539C>A	c.(538-540)TCC>TAC	p.S180Y	uc002pnb.1_Intron|CD37_uc002pnc.2_RNA|CD37_uc010yam.1_Missense_Mutation_p.S180Y|CD37_uc010yan.1_Missense_Mutation_p.S112Y|CD37_uc002pnf.3_Missense_Mutation_p.S152Y|CD37_uc002pne.2_Missense_Mutation_p.S112Y	NM_001774	NP_001765	P11049	CD37_HUMAN	CD37 antigen isoform A	180	Extracellular (Potential).					integral to membrane					0		all_lung(116;2.81e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00088)|GBM - Glioblastoma multiforme(486;0.0443)		GTGCCCTGCTCCTGCTACAAC	0.622													40	91	---	---	---	---	PASS	A	49842048	A	A	49842048	3	1	83	1	0	0	0	0	1	0	0	0	3008	855	30	2	561	2	CD37	19	49842048	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	3717527	49842048	9286935	195	32113										
MYH14	79784	broad.mit.edu	37	chr19	50812387	50812387	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ctggaagatgtcacagagtcGgccgagtccatgaaccgtga	13	10	1	4			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr19:50812387G>T	uc002prr.1	+	40	5837	c.5790G>T	c.(5788-5790)TCG>TCT	p.S1930S	MYH14_uc010enu.1_Silent_p.S1971S|MYH14_uc002prq.1_Silent_p.S1938S|MYH14_uc010ycb.1_Silent_p.S281S|MYH14_uc002prs.1_Silent_p.S281S	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1930	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		TCACAGAGTCGGCCGAGTCCA	0.642													20	103	---	---	---	---	PASS	T	50812387	T	T	50812387	2	4	83	1	0	0	0	0	0	0	0	1	10033	1103	39	1		1	MYH14	19	50812387	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	970339	50812387	8316596	196	32114										
NLRP13	126204	broad.mit.edu	37	chr19	56419275	56419275	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gcttgctgttaccctgaaggGcaataatgaggtcctgcaga	12	9	0	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr19:56419275G>T	uc010ygg.1	-	7	2355	c.2330C>A	c.(2329-2331)GCC>GAC	p.A777D		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	777							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)		ACCCTGAAGGGCAATAATGAG	0.502													40	156	---	---	---	---	PASS	T	56419275	T	T	56419275	3	4	83	1	0	0	0	0	1	0	0	0	10475	1203	42	3	819	3	NLRP13	19	56419275	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	5606888	56419275	2709708	197	32115										
VN1R1	57191	broad.mit.edu	37	chr19	57967296	57967296	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tgggccattcactaatagaaGaacagatgcattcatcaaga	8	8	3	4			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr19:57967296G>A	uc002qos.1	-	1	559	c.559C>T	c.(559-561)CTT>TTT	p.L187F	ZNF547_uc002qpm.3_Intron	NM_020633	NP_065684	Q9GZP7	VN1R1_HUMAN	vomeronasal 1 receptor 1	187	Helical; Name=4; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)|Breast(46;0.222)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)|Lung(386;0.171)		ACTAATAGAAGAACAGATGCA	0.398													6	72	---	---	---	---	PASS	A	57967296	A	A	57967296	3	1	83	1	0	0	0	0	1	0	0	0	17175	942	33	2	506	2	VN1R1	19	57967296	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	1548021	57967296	1161687	198	32116										
TRIM28	10155	broad.mit.edu	37	chr19	59061390	59061390	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	catcagctggctaccgactcCaccttctccctggtgagtcc	8	17	2	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr19:59061390C>T	uc002qtg.1	+	15	2470	c.2181C>T	c.(2179-2181)TCC>TCT	p.S727S	TRIM28_uc010eut.1_Silent_p.S645S|TRIM28_uc002qth.1_Silent_p.S342S	NM_005762	NP_005753	Q13263	TIF1B_HUMAN	tripartite motif-containing 28 protein	727	Bromo.				epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	nucleoplasm	chromo shadow domain binding|ligase activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0434)|all cancers(4;1.39e-13)|Epithelial(4;1.01e-10)|OV - Ovarian serous cystadenocarcinoma(4;2.34e-09)|GBM - Glioblastoma multiforme(193;0.0102)|Lung(386;0.179)		CTACCGACTCCACCTTCTCCC	0.498													12	52	---	---	---	---	PASS	T	59061390	T	T	59061390	2	4	83	1	0	0	0	0	0	0	0	1	16499	581	21	3		3	TRIM28	19	59061390	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	1094094	59061390	67593	199	32117										
MCM8	84515	broad.mit.edu	37	chr20	5953813	5953813	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	acatccttgttgttggagatCcaggcctaggaaaaagtcaa	10	8	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr20:5953813C>G	uc002wmi.2	+	12	1743	c.1366C>G	c.(1366-1368)CCA>GCA	p.P456A	MCM8_uc002wmj.2_Missense_Mutation_p.P440A|MCM8_uc002wmk.2_Missense_Mutation_p.P496A|MCM8_uc002wml.2_Missense_Mutation_p.P456A|MCM8_uc010gbp.2_Intron|MCM8_uc002wmm.2_Translation_Start_Site	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	456	ATP (Potential).|MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						TGTTGGAGATCCAGGCCTAGG	0.403													28	69	---	---	---	---	PASS	G	5953813	G	G	5953813	3	3	83	1	0	0	0	0	1	0	0	0	9393	855	30	2	1408	2	MCM8	20	5953813	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08		5953813	57071707	200	32118										
PLCB4	5332	broad.mit.edu	37	chr20	9417754	9417754	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	agagtagctctgagctcagaCcaaccaccacggctgccctg	10	15	2	3			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr20:9417754C>T	uc002wnf.2	+	28	2819	c.2683C>T	c.(2683-2685)CCA>TCA	p.P895S	PLCB4_uc010gbw.1_Missense_Mutation_p.P895S|PLCB4_uc010gbx.2_Missense_Mutation_p.P907S|PLCB4_uc002wne.2_Missense_Mutation_p.P895S|PLCB4_uc002wnh.2_Missense_Mutation_p.P742S	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	895					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						TGAGCTCAGACCAACCACCAC	0.532													10	31	---	---	---	---	PASS	T	9417754	T	T	9417754	3	4	83	1	0	0	0	0	1	0	0	0	12030	507	18	3	2825	3	PLCB4	20	9417754	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	3463941	9417754	53607766	201	32119										
KIF16B	55614	broad.mit.edu	37	chr20	16359697	16359697	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ttcctttttcctcactttttCctcctgacgtgcaatgttgg	6	12	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr20:16359697C>T	uc002wpg.1	-	19	3108	c.2950G>A	c.(2950-2952)GAA>AAA	p.E984K	KIF16B_uc002wpe.1_Missense_Mutation_p.E366K|KIF16B_uc002wpf.1_Missense_Mutation_p.E366K|KIF16B_uc010gch.1_Missense_Mutation_p.E984K|KIF16B_uc010gci.1_Missense_Mutation_p.E984K|KIF16B_uc010gcj.1_Missense_Mutation_p.E995K	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	984	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			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						CTCACTTTTTCCTCCTGACGT	0.512													20	234	---	---	---	---	PASS	T	16359697	T	T	16359697	3	4	83	1	0	0	0	0	1	0	0	0	8278	864	30	2	1035	2	KIF16B	20	16359697	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	6941943	16359697	46665823	202	32120										
C20orf26	26074	broad.mit.edu	37	chr20	20177230	20177230	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtaggacattgagtacatacGgtcccattacaacattgaag	9	8	0	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr20:20177230G>T	uc002wru.2	+	16	1683	c.1607G>T	c.(1606-1608)CGG>CTG	p.R536L	C20orf26_uc010zse.1_Missense_Mutation_p.R516L	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	536										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GAGTACATACGGTCCCATTAC	0.413													9	62	---	---	---	---	PASS	T	20177230	T	T	20177230	3	4	83	1	0	0	0	0	1	0	0	0	2106	1116	39	1	1697	1	C20orf26	20	20177230	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	3817533	20177230	42848290	203	32121										
DEFB118	117285	broad.mit.edu	37	chr20	29960893	29960893	+	Missense_Mutation	SNP	A	C	C													0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cagactactttgaagtaagcAgcaagaaagatatggttgaa							TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr20:29960893A>C	uc002wvr.2	+	2	318	c.292A>C	c.(292-294)AGC>CGC	p.S98R		NM_054112	NP_473453	Q96PH6	DB118_HUMAN	beta-defensin 118 precursor	98					cell-matrix adhesion|defense response to bacterium|innate immune response|spermatogenesis	extracellular region				ovary(3)|pancreas(1)	4	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			TGAAGTAAGCAGCAAGAAAGA	0.453													13	98	---	---	---	---	PASS	C	29960893	C	C	29960893	3	2	83	1	0	0	0	0	1	0	0	0	4406	188	7	5	298	5	DEFB118	20	29960893	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	9783663	29960893	33064627	204	32122	638	2								
DEFB118	117285	broad.mit.edu	37	chr20	29960894	29960894	+	Missense_Mutation	SNP	G	T	T													0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	agactactttgaagtaagcaGcaagaaagatatggttgaag							TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr20:29960894G>T	uc002wvr.2	+	2	319	c.293G>T	c.(292-294)AGC>ATC	p.S98I		NM_054112	NP_473453	Q96PH6	DB118_HUMAN	beta-defensin 118 precursor	98					cell-matrix adhesion|defense response to bacterium|innate immune response|spermatogenesis	extracellular region				ovary(3)|pancreas(1)	4	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			GAAGTAAGCAGCAAGAAAGAT	0.453													13	98	---	---	---	---	PASS	T	29960894	T	T	29960894	3	4	83	1	0	0	0	0	1	0	0	0	4406	971	34	3	299	3	DEFB118	20	29960894	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	1	29960894	33064626	205	32123	638	2								
SAMHD1	25939	broad.mit.edu	37	chr20	35533876	35533876	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cgtctttcaatttgggatcaGtagagtataaaatctccaga	8	7	4	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr20:35533876G>A	uc002xgh.1	-	12	1431	c.1301C>T	c.(1300-1302)ACT>ATT	p.T434I	SAMHD1_uc010gft.1_RNA	NM_015474	NP_056289	Q9Y3Z3	SAMH1_HUMAN	SAM domain- and HD domain-containing protein 1	434					defense response to virus|innate immune response|regulation of innate immune response	nucleus	metal ion binding|phosphoric diester hydrolase activity				0		Myeloproliferative disorder(115;0.00878)				TTTGGGATCAGTAGAGTATAA	0.308													12	109	---	---	---	---	PASS	A	35533876	A	A	35533876	3	1	83	1	0	0	0	0	1	0	0	0	13828	1029	36	3	599	3	SAMHD1	20	35533876	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	5572982	35533876	27491644	206	32124										
R3HDML	140902	broad.mit.edu	37	chr20	42969953	42969953	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	acctctccatccattctggcCagtgagtgaccctctgccct	7	17	3	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr20:42969953C>A	uc002xls.1	+	2	551	c.379C>A	c.(379-381)CAG>AAG	p.Q127K		NM_178491	NP_848586	Q9H3Y0	CRSPL_HUMAN	R3H domain containing-like precursor	127						extracellular region	peptidase inhibitor activity				0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			CCATTCTGGCCAGTGAGTGAC	0.393													33	44	---	---	---	---	PASS	A	42969953	A	A	42969953	3	1	83	1	0	0	0	0	1	0	0	0	12889	608	21	3	385	3	R3HDML	20	42969953	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	7436077	42969953	20055567	207	32125										
ZNF831	128611	broad.mit.edu	37	chr20	57769077	57769077	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	ggcccctccccaggtgaggcGgacagcatcctggaggaccc	14	16	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr20:57769077G>A	uc002yan.2	+	1	3003	c.3003G>A	c.(3001-3003)GCG>GCA	p.A1001A		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1001						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CAGGTGAGGCGGACAGCATCC	0.647													28	36	---	---	---	---	PASS	A	57769077	A	A	57769077	2	1	83	1	0	0	0	0	0	0	0	1	18182	1103	39	1		1	ZNF831	20	57769077	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	14799124	57769077	5256443	208	32126										
HUNK	30811	broad.mit.edu	37	chr21	33371224	33371224	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	actctggtctcttttgctcaCgaagataagaacagcccccc	7	14	3	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr21:33371224C>T	uc002yph.2	+	11	2232	c.1872C>T	c.(1870-1872)CAC>CAT	p.H624H		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	624					multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						CTTTTGCTCACGAAGATAAGA	0.582													16	32	---	---	---	---	PASS	T	33371224	T	T	33371224	2	4	83	1	0	0	0	0	0	0	0	1	7458	535	19	1		1	HUNK	21	33371224	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08		33371224	14758671	209	32127										
ZDHHC8	29801	broad.mit.edu	37	chr22	20128226	20128226	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gtgctgtgtagccccctggcGccccggtgaggcccggcctg	16	16	0	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr22:20128226G>T	uc002zrq.2	+	6	853	c.747G>T	c.(745-747)GCG>GCT	p.A249A	ZDHHC8_uc002zrr.1_Silent_p.A249A|ZDHHC8_uc010gsa.2_Silent_p.A55A	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	249	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					GCCCCCTGGCGCCCCGGTGAG	0.672													12	22	---	---	---	---	PASS	T	20128226	T	T	20128226	2	4	83	1	0	0	0	0	0	0	0	1	17618	1074	38	1		1	ZDHHC8	22	20128226	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08		20128226	31176340	210	32128										
LZTR1	8216	broad.mit.edu	37	chr22	21348291	21348291	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gcaggaagatcacgcaggcgCgggagaggctggcccaggtg	19	10	1	2	rs150365548		TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr22:21348291C>A	uc002zto.2	+	13	1535	c.1432C>A	c.(1432-1434)CGG>AGG	p.R478R	LZTR1_uc002ztn.2_Silent_p.R437R|LZTR1_uc011ahy.1_Silent_p.R459R|LZTR1_uc010gsr.1_Silent_p.R349R|LZTR1_uc002ztp.2_5'Flank	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	478	BTB 1.				anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			CACGCAGGCGCGGGAGAGGCT	0.642													3	63	---	---	---	---	PASS	A	21348291	A	A	21348291	2	1	83	1	0	0	0	0	0	0	0	1	9137	759	27	1		1	LZTR1	22	21348291	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	1220065	21348291	29956275	211	32129										
NIPSNAP1	8508	broad.mit.edu	37	chr22	29956798	29956798	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tgcctcctggttctcctgccGgtacttgatggcccgagccc	11	16	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chr22:29956798G>A	uc003afx.3	-	8	704	c.631C>T	c.(631-633)CGG>TGG	p.R211W	NIPSNAP1_uc011akp.1_Missense_Mutation_p.R191W	NM_003634	NP_003625	Q9BPW8	NIPS1_HUMAN	nipsnap homolog 1	211								p.?(1)		skin(1)	1						TTCTCCTGCCGGTACTTGATG	0.587													19	162	---	---	---	---	PASS	A	29956798	A	A	29956798	3	1	83	1	0	0	0	0	1	0	0	0	10429	1115	39	1	235	1	NIPSNAP1	22	29956798	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	8608507	29956798	21347768	212	32130										
MTMR8	55613	broad.mit.edu	37	chrX	63445290	63445290	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	gctcaagtggccataagaagCagccaagcgcaagggtgtcc	13	11	1	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chrX:63445290C>A	uc011mou.1	-	10	1434	c.1366G>T	c.(1366-1368)GCT>TCT	p.A456S	ASB12_uc004dvp.1_Missense_Mutation_p.A72S|ASB12_uc004dvq.1_Missense_Mutation_p.A81S|ASB12_uc004dvr.1_Missense_Mutation_p.A81S	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	Error:Variant_position_missing_in_Q96EF0_after_alignment						nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						CCATAAGAAGCAGCCAAGCGC	0.527													5	13	---	---	---	---	PASS	A	63445290	A	A	63445290	3	1	83	1	0	0	0	0	1	0	0	0	9949	710	25	3		3	MTMR8	23	63445290	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08		63445290	91825270	213	32131										
MSN	4478	broad.mit.edu	37	chrX	64956699	64956699	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	aagaagcgtgaaatggcagaGaaggagaaagagaagattga	15	2	0	7	rs113359990		TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chrX:64956699G>A	uc004dwf.2	+	9	1200	c.1002G>A	c.(1000-1002)GAG>GAA	p.E334E		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	334					leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						aaatggcagagaaggagaaag	0.214			T	ALK	ALCL								2	2	---	---	---	---	PASS	A	64956699	A	A	64956699	2	1	83	1	0	0	0	0	0	0	0	1	9885	933	33	2		2	MSN	23	64956699	Silent	SNP	G	TCGA-39-5019-01A-01D-1817-08	1511409	64956699	90313861	214	32132										
CENPI	2491	broad.mit.edu	37	chrX	100364557	100364557	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cagtctcctggctttgtgttGgcaagtgttctggtagcacc	12	10	2	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chrX:100364557G>A	uc004egx.2	+	4	730	c.460G>A	c.(460-462)GGC>AGC	p.G154S	CENPI_uc011mrg.1_Missense_Mutation_p.G154S|CENPI_uc004egy.2_Missense_Mutation_p.G154S	NM_006733	NP_006724	Q92674	CENPI_HUMAN	centromere protein I	154					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	cytosol|kinetochore|nucleoplasm	protein binding			skin(1)	1						GCTTTGTGTTGGCAAGTGTTC	0.428													10	266	---	---	---	---	PASS	A	100364557	A	A	100364557	3	1	83	1	0	0	0	0	1	0	0	0	3233	1348	47	3	470	3	CENPI	23	100364557	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	35407858	100364557	54906003	215	32133										
ODZ1	10178	broad.mit.edu	37	chrX	123514710	123514710	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tggagctgaatatctgcaaaCcgtctagtcctcccattcaa	7	12	3	1			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chrX:123514710C>T	uc004euj.2	-	31	7918	c.7854G>A	c.(7852-7854)CGG>CGA	p.R2618R	ODZ1_uc011muj.1_Silent_p.R2624R|ODZ1_uc010nqy.2_Silent_p.R2625R	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2618	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TATCTGCAAACCGTCTAGTCC	0.512													27	50	---	---	---	---	PASS	T	123514710	T	T	123514710	2	4	83	1	0	0	0	0	0	0	0	1	10834	494	18	3		3	ODZ1	23	123514710	Silent	SNP	C	TCGA-39-5019-01A-01D-1817-08	23150153	123514710	31755850	216	32134										
BCORL1	63035	broad.mit.edu	37	chrX	129148208	129148208	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	cctgccgtcctacctgcaggAcaggtgtctcccaggcgtgc	12	16	1	0			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chrX:129148208A>C	uc004evb.1	+	4	1574	c.1460A>C	c.(1459-1461)GAC>GCC	p.D487A	BCORL1_uc010nrd.1_Missense_Mutation_p.D389A	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	487	Pro-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						TACCTGCAGGACAGGTGTCTC	0.602													7	103	---	---	---	---	PASS	C	129148208	C	C	129148208	3	2	83	1	0	0	0	0	1	0	0	0	1387	275	10	5	1470	5	BCORL1	23	129148208	Missense_Mutation	SNP	A	TCGA-39-5019-01A-01D-1817-08	5633498	129148208	26122352	217	32135										
GABRQ	55879	broad.mit.edu	37	chrX	151821421	151821421	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tgcttcaccatggcgagaagGgtgtgcaagaagcaggctgg	16	8	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chrX:151821421G>T	uc004ffp.1	+	9	1596	c.1576G>T	c.(1576-1578)GGT>TGT	p.G526C		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	526						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TGGCGAGAAGGGTGTGCAAGA	0.527													18	16	---	---	---	---	PASS	T	151821421	T	T	151821421	3	4	83	1	0	0	0	0	1	0	0	0	6175	1232	43	3	1610	3	GABRQ	23	151821421	Missense_Mutation	SNP	G	TCGA-39-5019-01A-01D-1817-08	22673213	151821421	3449139	218	32136										
AVPR2	554	broad.mit.edu	37	chrX	153171312	153171312	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.087962962962963	19	0.0408782694177382	1.61026159243441	2.98322147651007	1.06543624161074	1	1	7	tgtgtcgggccgtgaagtatCtgcagatggtgggcatgtat	16	6	1	2			TCGA-39-5019-01A-01D-1817-08	TCGA-39-5019-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aecd71e-84f1-4b4d-bff6-ede33026f58b	e94dbec9-5564-4154-8da0-7ce1fc53da82	g.chrX:153171312C>A	uc004fjh.3	+	2	423	c.352C>A	c.(352-354)CTG>ATG	p.L118M	AVPR2_uc004fjg.3_Intron|AVPR2_uc004fji.2_Missense_Mutation_p.L118M	NM_000054	NP_000045	P30518	V2R_HUMAN	arginine vasopressin receptor 2 isoform 1	118	Helical; Name=3; (Potential).				activation of adenylate cyclase activity|excretion|G-protein signaling, coupled to cAMP nucleotide second messenger|hemostasis|positive regulation of gene expression|transmembrane transport|water transport	endoplasmic reticulum|endosome|Golgi apparatus|integral to plasma membrane	vasopressin receptor activity			breast(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Conivaptan(DB00872)|Terlipressin(DB02638)|Vasopressin(DB00067)	CGTGAAGTATCTGCAGATGGT	0.652													25	26	---	---	---	---	PASS	A	153171312	A	A	153171312	3	1	83	1	0	0	0	0	1	0	0	0	1233	912	32	2	358	2	AVPR2	23	153171312	Missense_Mutation	SNP	C	TCGA-39-5019-01A-01D-1817-08	1349891	153171312	2099248	219	32137										
TMEM51	55092	broad.mit.edu	37	chr1	15545933	15545933	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	aggggagaggagcagaacccGaggttgagcatctctctccc	14	11	2	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:15545933G>A	uc001avw.3	+	4	975	c.456G>A	c.(454-456)CCG>CCA	p.P152P	TMEM51_uc010obk.1_Silent_p.P152P|TMEM51_uc001avz.2_3'UTR|TMEM51_uc001avy.2_Silent_p.P152P|TMEM51_uc001avx.2_Silent_p.P152P	NM_001136216	NP_001129688	Q9NW97	TMM51_HUMAN	transmembrane protein 51	152						integral to membrane					0		Renal(390;0.00145)|Breast(348;0.00186)|Colorectal(325;0.00215)|all_lung(284;0.00459)|Lung NSC(340;0.0104)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;2.07e-06)|COAD - Colon adenocarcinoma(227;7.14e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000175)|KIRC - Kidney renal clear cell carcinoma(229;0.00141)|STAD - Stomach adenocarcinoma(313;0.00644)|READ - Rectum adenocarcinoma(331;0.0751)		AGCAGAACCCGAGGTTGAGCA	0.582													17	94	---	---	---	---	PASS	A	15545933	A	A	15545933	2	1	84	1	0	0	0	0	0	0	0	1	16174	1045	37	2		2	TMEM51	1	15545933	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08		15545933	233704688	1	32138										
NBPF3	84224	broad.mit.edu	37	chr1	21797204	21797204	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gaagagaagcttgcagaggaGctcgggcaagctgaggagct	17	7	0	3	rs72872292	byFrequency	TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:21797204G>T	uc001ber.2	+	4	773	c.423G>T	c.(421-423)GAG>GAT	p.E141D	NBPF3_uc001bes.2_Missense_Mutation_p.E85D|NBPF3_uc009vqb.2_Missense_Mutation_p.E141D|NBPF3_uc010odm.1_Missense_Mutation_p.E71D	NM_032264	NP_115640	Q9H094	NBPF3_HUMAN	neuroblastoma breakpoint family, member 3	141	Potential.					cytoplasm				upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(284;2.16e-05)|Lung NSC(340;2.19e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|OV - Ovarian serous cystadenocarcinoma(117;7.53e-27)|COAD - Colon adenocarcinoma(152;1.18e-05)|GBM - Glioblastoma multiforme(114;3.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000143)|STAD - Stomach adenocarcinoma(196;0.00306)|KIRC - Kidney renal clear cell carcinoma(1967;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TTGCAGAGGAGCTCGGGCAAG	0.547													11	68	---	---	---	---	PASS	T	21797204	T	T	21797204	3	4	84	1	0	0	0	0	1	0	0	0	10197	962	34	3	433	3	NBPF3	1	21797204	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	6251271	21797204	227453417	2	32139										
PODN	127435	broad.mit.edu	37	chr1	53535731	53535731	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggcccagccgcggtcagctgCccccgagactgtgcctgttc	13	17	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:53535731C>T	uc001cuv.2	+	2	355	c.348C>T	c.(346-348)TGC>TGT	p.C116C	PODN_uc001cuw.2_Silent_p.C97C|PODN_uc010onr.1_Silent_p.C97C|PODN_uc010ons.1_Silent_p.C116C	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	68	LRRNT.				negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding			ovary(1)|pancreas(1)	2						CGGTCAGCTGCCCCCGAGACT	0.667													6	39	---	---	---	---	PASS	T	53535731	T	T	53535731	2	4	84	1	0	0	0	0	0	0	0	1	12178	747	26	3		3	PODN	1	53535731	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	31738527	53535731	195714890	3	32140										
INADL	10207	broad.mit.edu	37	chr1	62330011	62330011	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	caaaaagagatagagcaaagCaaggaggcctgggagatgca	14	6	0	3	rs139134153	byFrequency	TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:62330011C>A	uc001dab.2	+	20	2655	c.2541C>A	c.(2539-2541)AGC>AGA	p.S847R	INADL_uc009waf.1_Missense_Mutation_p.S847R|INADL_uc001daa.2_Missense_Mutation_p.S847R|INADL_uc001dad.3_Missense_Mutation_p.S544R|INADL_uc001dac.2_RNA	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	847					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						TAGAGCAAAGCAAGGAGGCCT	0.368													6	97	---	---	---	---	PASS	A	62330011	A	A	62330011	3	1	84	1	0	0	0	0	1	0	0	0	7731	709	25	3	2615	3	INADL	1	62330011	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	8794280	62330011	186920610	4	32141										
SFRS11	9295	broad.mit.edu	37	chr1	70700378	70700378	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ataaaatttgccatttcacaGattggcgctgttccactggc	8	10	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:70700378G>T	uc001des.2	+	5	572	c.448_splice	c.e5-1	p.I150_splice	SFRS11_uc001det.2_Splice_Site_p.I150_splice|SFRS11_uc001deu.2_Splice_Site_p.I150_splice|SFRS11_uc001dev.2_Splice_Site|SFRS11_uc001dew.2_Splice_Site_p.I90_splice	NM_004768	NP_004759	Q05519	SRS11_HUMAN	splicing factor, arginine/serine-rich 11						mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0						CCATTTCACAGATTGGCGCTG	0.338													29	102	---	---	---	---	PASS	T	70700378	T	T	70700378	5	4	84	1	0	0	0	0	0	0	1	0	14166	956	33	2	461	2	SFRS11	1	70700378	Splice_Site	SNP	G	TCGA-39-5021-01A-01D-1441-08	8370367	70700378	178550243	5	32142										
ABCA4	24	broad.mit.edu	37	chr1	94480239	94480239	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tgggtacatcatgggaatgaCcgcccatctgtgtgaaatga	12	8	2	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:94480239C>T	uc001dqh.2	-	38	5424	c.5320G>A	c.(5320-5322)GTC>ATC	p.V1774I	ABCA4_uc009wdp.1_Missense_Mutation_p.V42I	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1774	Helical; (Potential).				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		ATGGGAATGACCGCCCATCTG	0.478													37	171	---	---	---	---	PASS	T	94480239	T	T	94480239	3	4	84	1	0	0	0	0	1	0	0	0	34	507	18	3	1553	3	ABCA4	1	94480239	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	23779861	94480239	154770382	6	32143										
ISG20L2	81875	broad.mit.edu	37	chr1	156694041	156694041	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gaggggggggatatgggaggTgtcacgggtgagggacttgg	24	3	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:156694041T>A	uc001fps.1	-	2	1108	c.847A>T	c.(847-849)ACC>TCC	p.T283S	ISG20L2_uc001fpt.1_Missense_Mutation_p.T283S	NM_030980	NP_112242	Q9H9L3	I20L2_HUMAN	interferon stimulated exonuclease gene	283	Exonuclease.				ribosome biogenesis	nucleolus	exonuclease activity|nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					ATATGGGAGGTGTCACGGGTG	0.542													24	113	---	---	---	---	PASS	A	156694041	A	A	156694041	3	1	84	1	0	0	0	0	1	0	0	0	7855	1696	59	5	222	5	ISG20L2	1	156694041	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	62213802	156694041	92556580	7	32144										
FCRL5	83416	broad.mit.edu	37	chr1	157494301	157494301	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	agcaggtcccccaccacagcCtgggccctgggagccctgaa	12	17	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:157494301C>A	uc001fqu.2	-	10	2165	c.2007G>T	c.(2005-2007)CAG>CAT	p.Q669H	FCRL5_uc009wsm.2_Missense_Mutation_p.Q669H|FCRL5_uc010phv.1_Missense_Mutation_p.Q669H|FCRL5_uc010phw.1_Missense_Mutation_p.Q584H	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	669	Extracellular (Potential).|Ig-like C2-type 7.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				CCACCACAGCCTGGGCCCTGG	0.527													18	67	---	---	---	---	PASS	A	157494301	A	A	157494301	3	1	84	1	0	0	0	0	1	0	0	0	5798	680	24	3	958	3	FCRL5	1	157494301	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	800260	157494301	91756320	8	32145										
OR6N1	128372	broad.mit.edu	37	chr1	158735878	158735878	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gcaggaatttataacaaaatCtactaggacatttatagacg	7	6	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:158735878C>A	uc010piq.1	-	1	595	c.595G>T	c.(595-597)GAT>TAT	p.D199Y		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	199	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					ATAACAAAATCTACTAGGACA	0.483													40	141	---	---	---	---	PASS	A	158735878	A	A	158735878	3	1	84	1	0	0	0	0	1	0	0	0	11206	913	32	2	346	2	OR6N1	1	158735878	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	1241577	158735878	90514743	9	32146										
F5	2153	broad.mit.edu	37	chr1	169510281	169510281	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggcatctgaccgagggctggGgaaaggtttgtttgactgag	17	6	1	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:169510281G>T	uc001ggg.1	-	13	4192	c.4047C>A	c.(4045-4047)TCC>TCA	p.S1349S		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1349	2-19.|35 X 9 AA approximate tandem repeats of [TNP]-L-S-P-D-L-S-Q-T.|B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	CGAGGGCTGGGGAAAGGTTTG	0.517													59	205	---	---	---	---	PASS	T	169510281	T	T	169510281	2	4	84	1	0	0	0	0	0	0	0	1	5348	1219	43	3		3	F5	1	169510281	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	10774403	169510281	79740340	10	32147										
FASLG	356	broad.mit.edu	37	chr1	172628635	172628635	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gttgccttggtaggattgggCctggggatgtttcagctctt	15	7	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:172628635C>A	uc001gis.2	+	1	451	c.294C>A	c.(292-294)GGC>GGA	p.G98G	FASLG_uc001git.2_Silent_p.G98G	NM_000639	NP_000630	P48023	TNFL6_HUMAN	fas ligand	98	Helical; Signal-anchor for type II membrane protein; (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of necroptosis by extracellular signals|induction of necroptosis of activated-T cells|necrotic cell death|negative regulation of angiogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane	cytokine activity			lung(2)|breast(1)	3						TAGGATTGGGCCTGGGGATGT	0.512													18	59	---	---	---	---	PASS	A	172628635	A	A	172628635	2	1	84	1	0	0	0	0	0	0	0	1	5682	726	26	3		3	FASLG	1	172628635	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	3118354	172628635	76621986	11	32148										
PAPPA2	60676	broad.mit.edu	37	chr1	176709279	176709279	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tcctcccgcattggtctttcGgctcccagtaactgcatctc	7	16	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:176709279G>T	uc001gkz.2	+	14	5262	c.4098G>T	c.(4096-4098)TCG>TCT	p.S1366S	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1366					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TTGGTCTTTCGGCTCCCAGTA	0.507													22	64	---	---	---	---	PASS	T	176709279	T	T	176709279	2	4	84	1	0	0	0	0	0	0	0	1	11433	1103	39	1		1	PAPPA2	1	176709279	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	4080644	176709279	72541342	12	32149										
ASTN1	460	broad.mit.edu	37	chr1	176903472	176903472	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	agcgagtggagagcattgctGagggctatggagaggcatca	17	6	1	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:176903472G>A	uc001glc.2	-	16	2699	c.2487C>T	c.(2485-2487)CTC>CTT	p.L829L	ASTN1_uc001glb.1_Silent_p.L829L|ASTN1_uc001gld.1_Silent_p.L829L	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	837					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GAGCATTGCTGAGGGCTATGG	0.522													11	52	---	---	---	---	PASS	A	176903472	A	A	176903472	2	1	84	1	0	0	0	0	0	0	0	1	1064	1277	45	2		2	ASTN1	1	176903472	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	194193	176903472	72347149	13	32150										
FAM20B	9917	broad.mit.edu	37	chr1	179019460	179019460	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gggaaccgtatgctggttatGatagacacaatgcagaggta	13	6	0	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:179019460G>A	uc001gmc.2	+	3	717	c.424G>A	c.(424-426)GAT>AAT	p.D142N		NM_014864	NP_055679	O75063	XYLK_HUMAN	hypothetical protein LOC9917 precursor	142	Lumenal (Potential).					Golgi membrane|integral to membrane	ATP binding|kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(3)	3						TGCTGGTTATGATAGACACAA	0.448													61	165	---	---	---	---	PASS	A	179019460	A	A	179019460	3	1	84	1	0	0	0	0	1	0	0	0	5538	1290	45	2	430	2	FAM20B	1	179019460	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	2115988	179019460	70231161	14	32151										
C1orf125	126859	broad.mit.edu	37	chr1	179398712	179398712	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	taccttaatgaaaaaggctgGaataaatacactaagcattt	6	6	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:179398712G>C	uc001gmo.2	+	13	1417	c.1290G>C	c.(1288-1290)TGG>TGC	p.W430C	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmn.1_Missense_Mutation_p.W218C|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.W430C	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	430											0						AAAAAGGCTGGAATAAATACA	0.323													9	52	---	---	---	---	PASS	C	179398712	C	C	179398712	3	2	84	1	0	0	0	0	1	0	0	0	1993	1183	41	2	1336	2	C1orf125	1	179398712	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	379252	179398712	69851909	15	32152										
TP53BP2	7159	broad.mit.edu	37	chr1	224009057	224009057	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ctcattgttactgagatacaCggtaagaaacatctaaaaat	6	7	2	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:224009057C>A	uc010pvb.1	-	2	332	c.40G>T	c.(40-42)GTG>TTG	p.V14L	TP53BP2_uc001hod.2_5'UTR	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	8					apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		CTGAGATACACGGTAAGAAAC	0.413													64	270	---	---	---	---	PASS	A	224009057	A	A	224009057	3	1	84	1	0	0	0	0	1	0	0	0	16381	536	19	1	3432	1	TP53BP2	1	224009057	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	44610345	224009057	25241564	16	32153										
ITPKB	3707	broad.mit.edu	37	chr1	226822451	226822451	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ccgagaggtagccatcctccCggttcccctcctgccagggg	12	17	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:226822451C>G	uc010pvo.1	-	8	3102	c.2762G>C	c.(2761-2763)CGG>CCG	p.R921P		NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	921							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				GCCATCCTCCCGGTTCCCCTC	0.632													11	41	---	---	---	---	PASS	G	226822451	G	G	226822451	3	3	84	1	0	0	0	0	1	0	0	0	7918	652	23	4	82	4	ITPKB	1	226822451	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	2813394	226822451	22428170	17	32154										
GUK1	2987	broad.mit.edu	37	chr1	228335335	228335335	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggagcagcggctgcggcagcGcaacactgaaaccgaggaga	16	11	0	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:228335335G>C	uc001hsh.2	+	7	713	c.410G>C	c.(409-411)CGC>CCC	p.R137P	GUK1_uc001hsi.2_Missense_Mutation_p.R158P|GUK1_uc001hsj.2_Missense_Mutation_p.R77P|GUK1_uc010pvv.1_Missense_Mutation_p.R137P|GJC2_uc001hsk.2_5'Flank	NM_000858	NP_000849	Q16774	KGUA_HUMAN	guanylate kinase 1 isoform b	137	Guanylate kinase-like.				nucleobase, nucleoside and nucleotide interconversion|purine nucleotide metabolic process	cytosol	ATP binding|guanylate kinase activity				0		Prostate(94;0.0405)				CTGCGGCAGCGCAACACTGAA	0.657													13	38	---	---	---	---	PASS	C	228335335	C	C	228335335	3	2	84	1	0	0	0	0	1	0	0	0	6900	1087	38	4	495	4	GUK1	1	228335335	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	1512884	228335335	20915286	18	32155										
RYR2	6262	broad.mit.edu	37	chr1	237794791	237794791	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tgagggcactggggatgcacGagactgtgatggaggtcatg	18	6	1	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:237794791G>T	uc001hyl.1	+	42	6625	c.6505G>T	c.(6505-6507)GAG>TAG	p.E2169*		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2169	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GGGGATGCACGAGACTGTGAT	0.458													6	25	---	---	---	---	PASS	T	237794791	T	T	237794791	4	4	84	1	0	0	0	0	0	1	0	0	13769	1059	37	2	6671	2	RYR2	1	237794791	Nonsense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	9459456	237794791	11455830	19	32156										
SMYD3	64754	broad.mit.edu	37	chr1	246498753	246498753	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ttaaggcatttgcattcccgCttgtggtctggccaagcttt	10	10	1	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:246498753C>T	uc001ibl.2	-	3	347	c.252G>A	c.(250-252)AAG>AAA	p.K84K	SMYD3_uc001ibk.2_Silent_p.K25K	NM_022743	NP_073580	Q9H7B4	SMYD3_HUMAN	SET and MYND domain containing 3	84	MYND-type.					cytoplasm|nucleus	histone-lysine N-methyltransferase activity|protein binding|zinc ion binding				0	all_cancers(71;0.000291)|all_epithelial(71;0.000174)|Ovarian(71;0.0377)|all_lung(81;0.0568)|Lung NSC(105;0.0804)|Breast(184;0.173)|Melanoma(84;0.242)	all_cancers(173;0.0496)|Acute lymphoblastic leukemia(190;0.164)	OV - Ovarian serous cystadenocarcinoma(106;0.0129)	all cancers(4;0.028)|GBM - Glioblastoma multiforme(49;0.0537)		TGCATTCCCGCTTGTGGTCTG	0.398													29	177	---	---	---	---	PASS	T	246498753	T	T	246498753	2	4	84	1	0	0	0	0	0	0	0	1	14823	796	28	3		3	SMYD3	1	246498753	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	8703962	246498753	2751868	20	32157										
OR2C3	81472	broad.mit.edu	37	chr1	247695727	247695727	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	taaaaactcaagacaactatGaagaggacagtttctagtga	8	6	2	4			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr1:247695727G>A	uc009xgy.2	-	2	449	c.87C>T	c.(85-87)TTC>TTT	p.F29F	C1orf150_uc009xgw.2_Intron|C1orf150_uc001ida.3_Intron|C1orf150_uc001idb.3_Intron|C1orf150_uc009xgx.2_Intron|LOC148824_uc001idd.2_5'Flank	NM_198074	NP_932340	Q8N628	OR2C3_HUMAN	olfactory receptor, family 2, subfamily C,	29	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0242)	OV - Ovarian serous cystadenocarcinoma(106;0.0241)			AGACAACTATGAAGAGGACAG	0.463													31	71	---	---	---	---	PASS	A	247695727	A	A	247695727	2	1	84	1	0	0	0	0	0	0	0	1	10993	1281	45	2		2	OR2C3	1	247695727	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	1196974	247695727	1554894	21	32158										
SNX17	9784	broad.mit.edu	37	chr2	27596776	27596776	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tgtccttggaagtgctgctcAgcaacgggcagaaagttctg	13	9	2	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:27596776A>T	uc002rkg.1	+	5	592	c.370A>T	c.(370-372)AGC>TGC	p.S124C	SNX17_uc010ylj.1_Missense_Mutation_p.S104C|SNX17_uc010ylk.1_5'UTR|SNX17_uc010eza.1_5'UTR|SNX17_uc002rki.1_RNA|SNX17_uc002rkh.1_5'UTR|SNX17_uc010yll.1_5'UTR|SNX17_uc010ylm.1_5'UTR|SNX17_uc010yln.1_Missense_Mutation_p.S112C|SNX17_uc010ylo.1_Missense_Mutation_p.S42C|SNX17_uc010ylp.1_Missense_Mutation_p.S99C|SNX17_uc010ylq.1_5'UTR	NM_014748	NP_055563	Q15036	SNX17_HUMAN	sorting nexin 17	124	Ras-associating.				cell communication|endosome transport|intracellular protein transport|regulation of endocytosis|signal transduction	cytoplasmic vesicle membrane|cytosol|early endosome|Golgi apparatus	low-density lipoprotein particle receptor binding|phosphatidylinositol binding|protein C-terminus binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGTGCTGCTCAGCAACGGGCA	0.557													7	41	---	---	---	---	PASS	T	27596776	T	T	27596776	3	4	84	1	0	0	0	0	1	0	0	0	14888	188	7	5	388	5	SNX17	2	27596776	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08		27596776	215602597	22	32159										
PLB1	151056	broad.mit.edu	37	chr2	28741349	28741349	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gcagaccctgaagaattctcCattcccatgcaacccaaata	5	14	1	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:28741349C>T	uc002rmb.1	+	3	134	c.134C>T	c.(133-135)CCA>CTA	p.P45L	PLB1_uc010ezj.1_Missense_Mutation_p.P45L	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	45	4 X 308-326 AA approximate repeats.|Extracellular (Potential).|1.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					AAGAATTCTCCATTCCCATGC	0.408													45	95	---	---	---	---	PASS	T	28741349	T	T	28741349	3	4	84	1	0	0	0	0	1	0	0	0	12024	594	21	3	144	3	PLB1	2	28741349	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	1144573	28741349	214458024	23	32160										
EHD3	30845	broad.mit.edu	37	chr2	31472300	31472300	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	agcgtcatcgacacaccaggGatcctctctggggagaagca	12	12	2	1	rs138864640		TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:31472300G>A	uc002rnu.2	+	3	1076	c.468G>A	c.(466-468)GGG>GGA	p.G156G	EHD3_uc010ymt.1_Silent_p.G156G	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	156					blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					ACACACCAGGGATCCTCTCTG	0.592													15	56	---	---	---	---	PASS	A	31472300	A	A	31472300	2	1	84	1	0	0	0	0	0	0	0	1	4979	1161	41	2		2	EHD3	2	31472300	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	2730951	31472300	211727073	24	32161										
GGCX	2677	broad.mit.edu	37	chr2	85780514	85780514	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggctgaggggctgccttgagGggcaacagttgttgcaacct	16	9	0	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:85780514G>A	uc002sps.2	-	8	1102	c.996C>T	c.(994-996)CCC>CCT	p.P332P	GGCX_uc010yss.1_Silent_p.P171P|GGCX_uc010yst.1_Silent_p.P275P	NM_000821	NP_000812	P38435	VKGC_HUMAN	gamma-glutamyl carboxylase isoform 1	332	Cytoplasmic (Potential).				blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification	endoplasmic reticulum membrane|integral to membrane|membrane fraction	gamma-glutamyl carboxylase activity			ovary(1)	1					Anisindione(DB01125)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Drotrecogin alfa(DB00055)|L-Glutamic Acid(DB00142)|Menadione(DB00170)|Phytonadione(DB01022)	CTGCCTTGAGGGGCAACAGTT	0.617													25	123	---	---	---	---	PASS	A	85780514	A	A	85780514	2	1	84	1	0	0	0	0	0	0	0	1	6356	1219	43	3		3	GGCX	2	85780514	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	54308214	85780514	157418859	25	32162										
VWA3B	200403	broad.mit.edu	37	chr2	98846666	98846666	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cagaaaaagaaagtccttcaCgcaggtatcagtgaacaaaa	8	8	2	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:98846666C>A	uc002syo.2	+	16	2568	c.2304C>A	c.(2302-2304)CAC>CAA	p.H768Q	VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Missense_Mutation_p.H287Q|VWA3B_uc002sym.2_Missense_Mutation_p.H768Q|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.H425Q|VWA3B_uc002syp.1_Missense_Mutation_p.H160Q|VWA3B_uc002syq.1_Missense_Mutation_p.H44Q|VWA3B_uc002syr.1_Missense_Mutation_p.H85Q	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	768										ovary(3)|large_intestine(2)|skin(1)	6						AAGTCCTTCACGCAGGTATCA	0.383													11	62	---	---	---	---	PASS	A	98846666	A	A	98846666	3	1	84	1	0	0	0	0	1	0	0	0	17238	535	19	1	2362	1	VWA3B	2	98846666	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	13066152	98846666	144352707	26	32163										
ACOXL	55289	broad.mit.edu	37	chr2	111598951	111598951	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tctctttttaattacagcttGggttgacgatagccattcgc	8	9	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:111598951G>C	uc002tgr.3	+	10	981	c.757G>C	c.(757-759)GGG>CGG	p.G253R	ACOXL_uc010fkc.2_Missense_Mutation_p.G253R|ACOXL_uc010yxk.1_Missense_Mutation_p.G253R	NM_001105516	NP_001098986	Q9NUZ1	ACOXL_HUMAN	acyl-Coenzyme A oxidase-like 2	253					fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0						ATTACAGCTTGGGTTGACGAT	0.313													5	32	---	---	---	---	PASS	C	111598951	C	C	111598951	3	2	84	1	0	0	0	0	1	0	0	0	161	1348	47	4	791	4	ACOXL	2	111598951	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	12752285	111598951	131600422	27	32164										
DPP10	57628	broad.mit.edu	37	chr2	116593772	116593772	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	catcaatgatcttaaaatcaGatgaaaagctttttaaatgt	5	5	3	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:116593772G>T	uc002tla.1	+	22	2447	c.1990G>T	c.(1990-1992)GAT>TAT	p.D664Y	DPP10_uc002tlb.1_Missense_Mutation_p.D614Y|DPP10_uc002tlc.1_Missense_Mutation_p.D660Y|DPP10_uc002tle.2_Missense_Mutation_p.D668Y|DPP10_uc002tlf.1_Missense_Mutation_p.D657Y	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	664	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						CTTAAAATCAGATGAAAAGCT	0.294													11	57	---	---	---	---	PASS	T	116593772	T	T	116593772	3	4	84	1	0	0	0	0	1	0	0	0	4727	942	33	2	2247	2	DPP10	2	116593772	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	4994821	116593772	126605601	28	32165										
TMEM37	140738	broad.mit.edu	37	chr2	120194538	120194538	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	catccggaccctcatcatcaCgtgtgtggccctggctgtgg	12	14	3	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:120194538C>T	uc002tly.2	+	2	129	c.95C>T	c.(94-96)ACG>ATG	p.T32M		NM_183240	NP_899063	Q8WXS4	CCGL_HUMAN	transmembrane protein 37	32	Helical; (Potential).					integral to membrane	calcium channel activity|voltage-gated ion channel activity			breast(1)	1						CTCATCATCACGTGTGTGGCC	0.612													27	124	---	---	---	---	PASS	T	120194538	T	T	120194538	3	4	84	1	0	0	0	0	1	0	0	0	16155	536	19	1	101	1	TMEM37	2	120194538	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	3600766	120194538	123004835	29	32166										
POTEE	445582	broad.mit.edu	37	chr2	131976176	131976176	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	atgggcaagtggtgccaccaCtgcttcccctgctgcagggg	14	13	0	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:131976176C>T	uc002tsn.2	+	1	253	c.201C>T	c.(199-201)CAC>CAT	p.H67H	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	67							ATP binding				0						GGTGCCACCACTGCTTCCCCT	0.582													58	222	---	---	---	---	PASS	T	131976176	T	T	131976176	2	4	84	1	0	0	0	0	0	0	0	1	12264	564	20	3		3	POTEE	2	131976176	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	11781638	131976176	111223197	30	32167										
CCDC74A	90557	broad.mit.edu	37	chr2	132288288	132288288	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggctcctcacggacacacagGccaggaggcaagcgtgggcg	16	13	1	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:132288288G>T	uc002tta.2	+	3	484	c.432G>T	c.(430-432)AGG>AGT	p.R144S	CCDC74A_uc002ttb.2_Intron	NM_138770	NP_620125	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	144										skin(1)	1						GGACACACAGGCCAGGAGGCA	0.652													13	117	---	---	---	---	PASS	T	132288288	T	T	132288288	3	4	84	1	0	0	0	0	1	0	0	0	2847	1194	42	3	442	3	CCDC74A	2	132288288	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	312112	132288288	110911085	31	32168										
FAP	2191	broad.mit.edu	37	chr2	163059422	163059422	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gaatatatttatggcctcccActtgccacttgtaatttgaa	6	9	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:163059422A>G	uc002ucd.2	-	14	1391	c.1183T>C	c.(1183-1185)TGG>CGG	p.W395R	FAP_uc010zct.1_Missense_Mutation_p.W370R|FAP_uc010fpd.2_Intron	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	395	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						ATGGCCTCCCACTTGCCACTT	0.373													26	138	---	---	---	---	PASS	G	163059422	G	G	163059422	3	3	84	1	0	0	0	0	1	0	0	0	5673	159	6	5	1151	5	FAP	2	163059422	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08	30771134	163059422	80139951	32	32169										
XIRP2	129446	broad.mit.edu	37	chr2	168099528	168099528	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tcagcagatgtgcaacaagcCcggtatgtttttgaaaacac	9	9	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:168099528C>A	uc002udx.2	+	8	1644	c.1626C>A	c.(1624-1626)GCC>GCA	p.A542A	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.A367A|XIRP2_uc010fpq.2_Silent_p.A320A|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	367	Xin 1.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TGCAACAAGCCCGGTATGTTT	0.368													12	48	---	---	---	---	PASS	A	168099528	A	A	168099528	2	1	84	1	0	0	0	0	0	0	0	1	17427	610	22	3		3	XIRP2	2	168099528	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	5040106	168099528	75099845	33	32170										
TTN	7273	broad.mit.edu	37	chr2	179517248	179517248	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cactttcttttcaggaacaaCttctttcggagcctctggca	7	12	4	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:179517248C>T	uc010zfg.1	-	156	31986	c.31762G>A	c.(31762-31764)GTT>ATT	p.V10588I	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc010fre.1_Intron|TTN_uc002umw.1_5'Flank|TTN_uc002umx.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11515							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)			TCAGGAACAACTTCTTTCGGA	0.368													15	99	---	---	---	---	PASS	T	179517248	T	T	179517248	3	4	84	1	0	0	0	0	1	0	0	0	16732	565	20	3	68851	3	TTN	2	179517248	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	11417720	179517248	63682125	34	32171										
ZDBF2	57683	broad.mit.edu	37	chr2	207175031	207175031	+	Missense_Mutation	SNP	C	A	A													0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	atcctccagcagagaggcctCctaagcaaaaggggcgtgtg							TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:207175031C>A	uc002vbp.2	+	5	6029	c.5779C>A	c.(5779-5781)CCT>ACT	p.P1927T		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1927							nucleic acid binding|zinc ion binding			ovary(3)	3						AGAGAGGCCTCCTAAGCAAAA	0.443													20	64	---	---	---	---	PASS	A	207175031	A	A	207175031	3	1	84	1	0	0	0	0	1	0	0	0	17596	855	30	2	5789	2	ZDBF2	2	207175031	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	27657783	207175031	36024342	35	32172	639	2								
ZDBF2	57683	broad.mit.edu	37	chr2	207175032	207175032	+	Missense_Mutation	SNP	C	A	A													0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tcctccagcagagaggcctcCtaagcaaaaggggcgtgtgg							TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:207175032C>A	uc002vbp.2	+	5	6030	c.5780C>A	c.(5779-5781)CCT>CAT	p.P1927H		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1927							nucleic acid binding|zinc ion binding			ovary(3)	3						GAGAGGCCTCCTAAGCAAAAG	0.438													20	66	---	---	---	---	PASS	A	207175032	A	A	207175032	3	1	84	1	0	0	0	0	1	0	0	0	17596	681	24	3	5790	3	ZDBF2	2	207175032	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	1	207175032	36024341	36	32173	639	2								
PTH2R	5746	broad.mit.edu	37	chr2	209324667	209324667	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	caagtggatttatcaagcacCgatcttagcagctattgggg	11	8	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:209324667C>T	uc002vdb.2	+	9	1175	c.962C>T	c.(961-963)CCG>CTG	p.P321L	PTH2R_uc010zjb.1_Missense_Mutation_p.P332L	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	321	Helical; Name=5; (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		TATCAAGCACCGATCTTAGCA	0.388													7	177	---	---	---	---	PASS	T	209324667	T	T	209324667	3	4	84	1	0	0	0	0	1	0	0	0	12760	652	23	1	996	1	PTH2R	2	209324667	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	2149635	209324667	33874706	37	32174										
CUL3	8452	broad.mit.edu	37	chr2	225346608	225346608	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gaaaaatataattccagataCctgtttgaatcttgactctg	6	7	2	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:225346608C>T	uc002vny.2	-	14	2413	c.2029_splice	c.e14+1	p.V677_splice	CUL3_uc010zls.1_Splice_Site_p.V611_splice|CUL3_uc010fwy.1_Splice_Site_p.V683_splice	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3						cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		ATTCCAGATACCTGTTTGAAT	0.269													24	119	---	---	---	---	PASS	T	225346608	T	T	225346608	5	4	84	1	0	0	0	0	0	0	1	0	4056	521	18	3	288	3	CUL3	2	225346608	Splice_Site	SNP	C	TCGA-39-5021-01A-01D-1441-08	16021941	225346608	17852765	38	32175										
CUL3	8452	broad.mit.edu	37	chr2	225376227	225376227	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	catcactcgttctatttcttCattaattctagcttctactt	2	11	6	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:225376227C>T	uc002vny.2	-	6	1111	c.727G>A	c.(727-729)GAA>AAA	p.E243K	CUL3_uc010zls.1_Missense_Mutation_p.E177K|CUL3_uc010fwy.1_Missense_Mutation_p.E249K	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	243					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		TCTATTTCTTCATTAATTCTA	0.323													26	163	---	---	---	---	PASS	T	225376227	T	T	225376227	3	4	84	1	0	0	0	0	1	0	0	0	4056	835	29	2	1623	2	CUL3	2	225376227	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	29619	225376227	17823146	39	32176										
PDCD1	5133	broad.mit.edu	37	chr2	242795003	242795003	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tctggttgctggggctcatgCggtaccagtttagcacgaag	14	9	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr2:242795003C>T	uc002wcq.3	-	2	274	c.206G>A	c.(205-207)CGC>CAC	p.R69H	PDCD1_uc010fzs.2_5'UTR|PDCD1_uc010fzt.2_Intron	NM_005018	NP_005009	Q15116	PDCD1_HUMAN	programmed cell death 1 precursor	69	Ig-like V-type.|Extracellular (Potential).				apoptosis|humoral immune response|multicellular organismal development|T cell costimulation	integral to membrane	protein tyrosine phosphatase activity|signal transducer activity			ovary(1)	1		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;3.84e-33)|all cancers(36;8.08e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.41e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0219)		GGGGCTCATGCGGTACCAGTT	0.637													8	32	---	---	---	---	PASS	T	242795003	T	T	242795003	3	4	84	1	0	0	0	0	1	0	0	0	11615	768	27	1	676	1	PDCD1	2	242795003	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	17418776	242795003	404370	40	32177										
KIAA1407	57577	broad.mit.edu	37	chr3	113761550	113761550	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	acaatcaggtaagttcttacCatcaaacttgtcatatttca	4	9	5	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr3:113761550C>A	uc003eax.2	-	4	562	c.415G>T	c.(415-417)GAT>TAT	p.D139Y	KIAA1407_uc011bin.1_RNA|KIAA1407_uc011bio.1_Missense_Mutation_p.D117Y|KIAA1407_uc011bip.1_Missense_Mutation_p.D126Y	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	139										ovary(2)	2						AAGTTCTTACCATCAAACTTG	0.318													9	73	---	---	---	---	PASS	A	113761550	A	A	113761550	3	1	84	1	0	0	0	0	1	0	0	0	8229	608	21	3	2451	3	KIAA1407	3	113761550	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08		113761550	84260880	41	32178										
ZNF80	7634	broad.mit.edu	37	chr3	113955592	113955592	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ctgcggttgaagaccttcccGcactccacgcacttacaggg	10	15	0	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr3:113955592G>T	uc010hqo.2	-	1	834	c.330C>A	c.(328-330)TGC>TGA	p.C110*	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	110	C2H2-type 3; atypical.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)				AGACCTTCCCGCACTCCACGC	0.547													10	32	---	---	---	---	PASS	T	113955592	T	T	113955592	4	4	84	1	0	0	0	0	0	1	0	0	18165	1079	38	1	495	1	ZNF80	3	113955592	Nonsense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	194042	113955592	84066838	42	32179										
ARHGAP31	57514	broad.mit.edu	37	chr3	119133421	119133421	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggaggatgtaacccattcagTacaggagccttcagactgtg	12	9	2	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr3:119133421T>G	uc003ecj.3	+	12	3177	c.2645T>G	c.(2644-2646)GTA>GGA	p.V882G		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	882					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						ACCCATTCAGTACAGGAGCCT	0.542													31	117	---	---	---	---	PASS	G	119133421	G	G	119133421	3	3	84	1	0	0	0	0	1	0	0	0	880	1638	57	5	2691	5	ARHGAP31	3	119133421	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	5177829	119133421	78889009	43	32180										
KALRN	8997	broad.mit.edu	37	chr3	124209608	124209608	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gcctttcaagtgtgggacccGaagtcgctgatccggaaggg	15	10	1	1	rs139928910		TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr3:124209608G>T	uc003ehg.2	+	30	4585	c.4458G>T	c.(4456-4458)CCG>CCT	p.P1486P	KALRN_uc010hrv.1_Silent_p.P1477P|KALRN_uc003ehf.1_Silent_p.P1486P|KALRN_uc011bjy.1_Silent_p.P1477P	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1486	PH 1.				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						TGTGGGACCCGAAGTCGCTGA	0.507													22	111	---	---	---	---	PASS	T	124209608	T	T	124209608	2	4	84	1	0	0	0	0	0	0	0	1	7975	1045	37	2		2	KALRN	3	124209608	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	5076187	124209608	73812822	44	32181										
NPHP3	27031	broad.mit.edu	37	chr3	132423171	132423171	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggaatggaatcctcactgccCaaatccttagtctccaagtc	7	13	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr3:132423171C>G	uc003epe.1	-	9	1472	c.1395G>C	c.(1393-1395)TTG>TTC	p.L465F	NPHP3_uc003epf.1_Missense_Mutation_p.L220F	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	465					maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						CCTCACTGCCCAAATCCTTAG	0.388													15	393	---	---	---	---	PASS	G	132423171	G	G	132423171	3	3	84	1	0	0	0	0	1	0	0	0	10580	593	21	4	2673	4	NPHP3	3	132423171	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	8213563	132423171	65599259	45	32182										
VPS8	23355	broad.mit.edu	37	chr3	184586825	184586825	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	aaaagcaaaagcagtagtggGtgagtaggcagaattccagt	13	5	0	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr3:184586825G>T	uc003fpb.1	+	18	1762	c.1591_splice	c.e18+1	p.G531_splice	VPS8_uc010hyd.1_Splice_Site_p.G531_splice	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b								zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			GCAGTAGTGGGTGAGTAGGCA	0.458													28	16	---	---	---	---	PASS	T	184586825	T	T	184586825	5	4	84	1	0	0	0	0	0	0	1	0	17215	1275	44	3	1664	3	VPS8	3	184586825	Splice_Site	SNP	G	TCGA-39-5021-01A-01D-1441-08	52163654	184586825	13435605	46	32183										
BCL6	604	broad.mit.edu	37	chr3	187442826	187442826	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tttcacagggatagggcttcTcaccagtgtggataagcaca	11	9	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr3:187442826T>C	uc003frp.3	-	9	2337	c.1880A>G	c.(1879-1881)GAG>GGG	p.E627G	BCL6_uc011bsf.1_Missense_Mutation_p.E571G|BCL6_uc010hza.2_Missense_Mutation_p.E525G|BCL6_uc003frq.1_Missense_Mutation_p.E627G	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	627					negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		ATAGGGCTTCTCACCAGTGTG	0.572			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								82	222	---	---	---	---	PASS	C	187442826	C	C	187442826	3	2	84	1	0	0	0	0	1	0	0	0	1376	1551	54	5	248	5	BCL6	3	187442826	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	2856001	187442826	10579604	47	32184										
ADAD1	132612	broad.mit.edu	37	chr4	123336548	123336548	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ttctaggtgatgggaattgcAgtgataccagaggcttagaa	13	5	1	4			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr4:123336548A>G	uc003ieo.2	+	11	1496	c.1264A>G	c.(1264-1266)AGT>GGT	p.S422G	ADAD1_uc003iep.2_Missense_Mutation_p.S411G|ADAD1_uc003ieq.2_Missense_Mutation_p.S404G	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	422	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						TGGGAATTGCAGTGATACCAG	0.333													20	74	---	---	---	---	PASS	G	123336548	G	G	123336548	3	3	84	1	0	0	0	0	1	0	0	0	231	188	7	5	1298	5	ADAD1	4	123336548	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08		123336548	67817728	48	32185										
BBS12	166379	broad.mit.edu	37	chr4	123663366	123663366	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	aagaatgtcttcatcttggtGtccccatttccataatagta	6	9	3	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr4:123663366G>T	uc003ieu.2	+	2	512	c.319G>T	c.(319-321)GTC>TTC	p.V107F		NM_152618	NP_689831	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	107					cellular protein metabolic process	cilium	ATP binding			ovary(2)	2						TCATCTTGGTGTCCCCATTTC	0.373									Bardet-Biedl_syndrome				31	96	---	---	---	---	PASS	T	123663366	T	T	123663366	3	4	84	1	0	0	0	0	1	0	0	0	1337	1377	48	3	321	3	BBS12	4	123663366	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	326818	123663366	67490910	49	32186										
BBS12	166379	broad.mit.edu	37	chr4	123663906	123663906	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	acagcagcatgaagttagtaGaagaagcagtacagctgcaa	11	7	0	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr4:123663906G>T	uc003ieu.2	+	2	1052	c.859G>T	c.(859-861)GAA>TAA	p.E287*		NM_152618	NP_689831	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	287					cellular protein metabolic process	cilium	ATP binding			ovary(2)	2						GAAGTTAGTAGAAGAAGCAGT	0.388									Bardet-Biedl_syndrome				16	47	---	---	---	---	PASS	T	123663906	T	T	123663906	4	4	84	1	0	0	0	0	0	1	0	0	1337	943	33	2	861	2	BBS12	4	123663906	Nonsense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	540	123663906	67490370	50	32187										
PCDH10	57575	broad.mit.edu	37	chr4	134071494	134071494	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggaccccttacttagacctcAacctggagacaggggtgctg	12	12	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr4:134071494A>T	uc003iha.2	+	1	1025	c.199A>T	c.(199-201)AAC>TAC	p.N67Y	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.N67Y	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	67	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CTTAGACCTCAACCTGGAGAC	0.532													29	99	---	---	---	---	PASS	T	134071494	T	T	134071494	3	4	84	1	0	0	0	0	1	0	0	0	11507	130	5	5	201	5	PCDH10	4	134071494	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08	10407588	134071494	57082782	51	32188										
TKTL2	84076	broad.mit.edu	37	chr4	164393523	164393523	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tagcatgctctgtcgagatgGcatcacttggatagaaaaca	10	8	2	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr4:164393523G>T	uc003iqp.3	-	1	1525	c.1364C>A	c.(1363-1365)GCC>GAC	p.A455D		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	455						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TGTCGAGATGGCATCACTTGG	0.478													30	70	---	---	---	---	PASS	T	164393523	T	T	164393523	3	4	84	1	0	0	0	0	1	0	0	0	15933	1203	42	3	520	3	TKTL2	4	164393523	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	30322029	164393523	26760753	52	32189										
MAP1B	4131	broad.mit.edu	37	chr5	71493130	71493130	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tgtgctagtcctgaggacaaGactctggaagtggtgtcacc	13	9	2	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr5:71493130G>A	uc003kbw.3	+	5	4189	c.3948G>A	c.(3946-3948)AAG>AAA	p.K1316K	MAP1B_uc010iyw.1_Silent_p.K1333K|MAP1B_uc010iyx.1_Silent_p.K1190K|MAP1B_uc010iyy.1_Silent_p.K1190K	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1316						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		CTGAGGACAAGACTCTGGAAG	0.498													9	32	---	---	---	---	PASS	A	71493130	A	A	71493130	2	1	84	1	0	0	0	0	0	0	0	1	9228	933	33	2		2	MAP1B	5	71493130	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08		71493130	109422130	53	32190										
FAM170A	340069	broad.mit.edu	37	chr5	118968463	118968463	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gaatgtcaaagtcccaagagGatgccctgcagcctggatcc	11	12	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr5:118968463G>C	uc003ksm.2	+	2	301	c.91G>C	c.(91-93)GAT>CAT	p.D31H	FAM170A_uc003ksl.2_Missense_Mutation_p.D31H|FAM170A_uc003ksn.2_Missense_Mutation_p.D31H|FAM170A_uc003kso.2_Intron	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	31						intracellular	zinc ion binding			skin(1)	1						GTCCCAAGAGGATGCCCTGCA	0.433													25	56	---	---	---	---	PASS	C	118968463	C	C	118968463	3	2	84	1	0	0	0	0	1	0	0	0	5489	1174	41	2	97	2	FAM170A	5	118968463	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	47475333	118968463	61946797	54	32191										
ATP10B	23120	broad.mit.edu	37	chr5	160097670	160097670	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cttctgcacataggtctgctCttttcttgggtgagagaaag	11	8	4	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr5:160097670C>G	uc003lym.1	-	7	1322	c.475G>C	c.(475-477)GAG>CAG	p.E159Q	ATP10B_uc003lyp.2_Missense_Mutation_p.E159Q|ATP10B_uc011deg.1_Missense_Mutation_p.E203Q|ATP10B_uc003lyo.2_Missense_Mutation_p.E131Q	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	159	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TAGGTCTGCTCTTTTCTTGGG	0.463													31	70	---	---	---	---	PASS	G	160097670	G	G	160097670	3	3	84	1	0	0	0	0	1	0	0	0	1117	922	32	2	3990	2	ATP10B	5	160097670	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	41129207	160097670	20817590	55	32192										
LRFN2	57497	broad.mit.edu	37	chr6	40399704	40399704	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gcagtgcggctggtgctgttGctgaggtgtggcagctggac	19	8	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr6:40399704G>C	uc003oph.1	-	2	1614	c.1149C>G	c.(1147-1149)AGC>AGG	p.S383R		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	383	Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					TGGTGCTGTTGCTGAGGTGTG	0.652													11	39	---	---	---	---	PASS	C	40399704	C	C	40399704	3	2	84	1	0	0	0	0	1	0	0	0	8938	1310	46	4	1228	4	LRFN2	6	40399704	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08		40399704	130715363	56	32193										
EYS	346007	broad.mit.edu	37	chr6	66204811	66204811	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ctgtttcactgtcacatttaGtcgaagtcccagtggacaag	9	10	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr6:66204811G>C	uc011dxu.1	-	4	1031	c.493C>G	c.(493-495)CTA>GTA	p.L165V	EYS_uc003peq.2_Missense_Mutation_p.L165V|EYS_uc003per.1_Missense_Mutation_p.L165V|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	165					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						GTCACATTTAGTCGAAGTCCC	0.428													24	64	---	---	---	---	PASS	C	66204811	C	C	66204811	3	2	84	1	0	0	0	0	1	0	0	0	5332	1020	36	4	9063	4	EYS	6	66204811	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	25805107	66204811	104910256	57	32194										
IMPG1	3617	broad.mit.edu	37	chr6	76715078	76715078	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tgctgatcagccttttgaggTctgtagctgtgagatagatt	12	6	2	4			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr6:76715078T>G	uc003pik.1	-	10	1191	c.1061A>C	c.(1060-1062)GAC>GCC	p.D354A		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	354					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				CCTTTTGAGGTCTGTAGCTGT	0.423													28	106	---	---	---	---	PASS	G	76715078	G	G	76715078	3	3	84	1	0	0	0	0	1	0	0	0	7728	1667	58	5	1364	5	IMPG1	6	76715078	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	10510267	76715078	94399989	58	32195										
NT5E	4907	broad.mit.edu	37	chr6	86181076	86181076	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggttttgaaatggataaactCatcgctcagaaagtgagggg	13	5	2	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr6:86181076C>A	uc003pko.3	+	3	1240	c.684C>A	c.(682-684)CTC>CTA	p.L228L	NT5E_uc003pkn.2_Silent_p.L228L|NT5E_uc010kbr.2_Silent_p.L228L	NM_002526	NP_002517	P21589	5NTD_HUMAN	5' nucleotidase, ecto precursor	228					DNA metabolic process|purine base metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	5'-nucleotidase activity|nucleotide binding			ovary(3)|central_nervous_system(1)	4		all_cancers(76;0.000215)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0427)		BRCA - Breast invasive adenocarcinoma(108;0.0417)	Pentoxifylline(DB00806)	TGGATAAACTCATCGCTCAGA	0.408													19	86	---	---	---	---	PASS	A	86181076	A	A	86181076	2	1	84	1	0	0	0	0	0	0	0	1	10693	813	29	2		2	NT5E	6	86181076	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	9465998	86181076	84933991	59	32196										
ORC3L	23595	broad.mit.edu	37	chr6	88331094	88331094	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ttctctattagagcatttctAttcccagcccttaagtgtcc	5	12	2	1	rs147755470		TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr6:88331094A>G	uc003pmh.2	+	10	1054	c.1010A>G	c.(1009-1011)TAT>TGT	p.Y337C	ORC3L_uc011dzl.1_Missense_Mutation_p.Y337C|ORC3L_uc011dzm.1_Missense_Mutation_p.Y337C|ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Missense_Mutation_p.Y337C|ORC3L_uc003pmi.2_Missense_Mutation_p.Y299C|ORC3L_uc011dzo.1_Missense_Mutation_p.Y194C|ORC3L_uc011dzp.1_Missense_Mutation_p.Y194C	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	337					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)		GAGCATTTCTATTCCCAGCCC	0.333													8	128	---	---	---	---	PASS	G	88331094	G	G	88331094	3	3	84	1	0	0	0	0	1	0	0	0	11263	449	16	5	1048	5	ORC3L	6	88331094	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08	2150018	88331094	82783973	60	32197										
MANEA	79694	broad.mit.edu	37	chr6	96053766	96053766	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cagggtctcggagtattcgcAattctccttatgatggactg	11	9	2	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr6:96053766A>T	uc003poo.1	+	5	1014	c.874A>T	c.(874-876)AAT>TAT	p.N292Y		NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	292	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		GAGTATTCGCAATTCTCCTTA	0.373													29	80	---	---	---	---	PASS	T	96053766	T	T	96053766	3	4	84	1	0	0	0	0	1	0	0	0	9221	130	5	5	888	5	MANEA	6	96053766	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08	7722672	96053766	75061301	61	32198										
C6orf204	387119	broad.mit.edu	37	chr6	118887060	118887060	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tgatgaccgttttttatttaTttccttgtcctctaacctaa	4	9	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr6:118887060T>C	uc003pxz.1	-	3	1240	c.652A>G	c.(652-654)ATA>GTA	p.I218V	C6orf204_uc003pya.1_Missense_Mutation_p.I221V|C6orf204_uc003pyb.2_Missense_Mutation_p.I218V|C6orf204_uc011ebj.1_Missense_Mutation_p.I116V|C6orf204_uc003pyc.2_Missense_Mutation_p.I221V|C6orf204_uc011ebl.1_Missense_Mutation_p.I116V	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	218						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		TTTTTATTTATTTCCTTGTCC	0.423													10	158	---	---	---	---	PASS	C	118887060	C	C	118887060	3	2	84	1	0	0	0	0	1	0	0	0	2353	1493	52	5	1863	5	C6orf204	6	118887060	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	22833294	118887060	52228007	62	32199										
TCP10	6953	broad.mit.edu	37	chr6	167786681	167786681	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggccccatgtcctgtctggaGggagcggcgtgcagagctcc	16	13	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr6:167786681G>A	uc003qvv.1	-	8	1169	c.957C>T	c.(955-957)CCC>CCT	p.P319P	TCP10_uc003qvu.2_Intron	NM_004610	NP_004601	Q12799	TCP10_HUMAN	t-complex 10	346						cytosol				breast(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;4.05e-20)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)|GBM - Glioblastoma multiforme(31;0.0386)		CCTGTCTGGAGGGAGCGGCGT	0.537													21	114	---	---	---	---	PASS	A	167786681	A	A	167786681	2	1	84	1	0	0	0	0	0	0	0	1	15707	987	35	3		3	TCP10	6	167786681	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	48899621	167786681	3328386	63	32200										
GLCCI1	113263	broad.mit.edu	37	chr7	8095089	8095089	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gccaaactgaggcagcaactAcaacgcagtaaacagagtag	10	10	0	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr7:8095089A>G	uc003srk.2	+	4	1282	c.723A>G	c.(721-723)CTA>CTG	p.L241L		NM_138426	NP_612435	Q86VQ1	GLCI1_HUMAN	glucocorticoid induced transcript 1	241	Potential.										0		Ovarian(82;0.0608)		UCEC - Uterine corpus endometrioid carcinoma (126;0.206)		GGCAGCAACTACAACGCAGTA	0.408													19	97	---	---	---	---	PASS	G	8095089	G	G	8095089	2	3	84	1	0	0	0	0	0	0	0	1	6431	378	14	5		5	GLCCI1	7	8095089	Silent	SNP	A	TCGA-39-5021-01A-01D-1441-08		8095089	151043574	64	32201										
ADCYAP1R1	117	broad.mit.edu	37	chr7	31126093	31126093	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ctgtacctcttcactctgctGgtggagaccttcttccctga	8	14	4	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr7:31126093G>T	uc003tca.1	+	10	988	c.765G>T	c.(763-765)CTG>CTT	p.L255L	ADCYAP1R1_uc003tcb.1_Silent_p.L234L|ADCYAP1R1_uc003tcc.1_Silent_p.L255L|ADCYAP1R1_uc003tcd.1_Silent_p.L255L|ADCYAP1R1_uc003tce.1_Silent_p.L255L|ADCYAP1R1_uc003tcf.1_5'Flank	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	255	Cytoplasmic (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						TCACTCTGCTGGTGGAGACCT	0.527													13	72	---	---	---	---	PASS	T	31126093	T	T	31126093	2	4	84	1	0	0	0	0	0	0	0	1	303	1335	47	3		3	ADCYAP1R1	7	31126093	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	23031004	31126093	128012570	65	32202										
PDE1C	5137	broad.mit.edu	37	chr7	31793118	31793118	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gagactgaaggtgcataggaGctagatgcgtaagcagggcg	17	6	0	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr7:31793118G>A	uc003tcm.1	-	18	2479	c.2010C>T	c.(2008-2010)AGC>AGT	p.S670S	PDE1C_uc003tcn.1_Silent_p.S670S|PDE1C_uc003tco.1_Silent_p.S730S	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	670					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			GTGCATAGGAGCTAGATGCGT	0.468													36	142	---	---	---	---	PASS	A	31793118	A	A	31793118	2	1	84	1	0	0	0	0	0	0	0	1	11635	986	34	3		3	PDE1C	7	31793118	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	667025	31793118	127345545	66	32203										
POU6F2	11281	broad.mit.edu	37	chr7	39125632	39125632	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cactcccagcaagctcttcgGtaagtctgtctaggtatttc	8	12	3	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr7:39125632G>T	uc003thb.1	+	2	232	c.190_splice	c.e2+1	p.G64_splice	POU6F2_uc010kxo.2_Splice_Site_p.G56_splice	NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1						central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						AAGCTCTTCGGTAAGTCTGTC	0.502													13	42	---	---	---	---	PASS	T	39125632	T	T	39125632	5	4	84	1	0	0	0	0	0	0	1	0	12285	1275	44	3	197	3	POU6F2	7	39125632	Splice_Site	SNP	G	TCGA-39-5021-01A-01D-1441-08	7332514	39125632	120013031	67	32204										
CDK13	8621	broad.mit.edu	37	chr7	40102656	40102656	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	aactcttcactaaaaaacctAtatttcaagcaaatcaggaa	3	9	4	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr7:40102656A>G	uc003thh.3	+	9	3019	c.2737A>G	c.(2737-2739)ATA>GTA	p.I913V	CDK13_uc003thi.3_Missense_Mutation_p.I913V|CDK13_uc011kbf.1_Missense_Mutation_p.I299V|CDK13_uc003thj.2_5'UTR	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	913	Protein kinase.				alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						TAAAAAACCTATATTTCAAGC	0.348													37	94	---	---	---	---	PASS	G	40102656	G	G	40102656	3	3	84	1	0	0	0	0	1	0	0	0	3129	449	16	5	2771	5	CDK13	7	40102656	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08	977024	40102656	119036007	68	32205										
CAMK2B	816	broad.mit.edu	37	chr7	44286779	44286779	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	agaacggcctccaggatctgCtggatacagtgactgtggca	13	10	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr7:44286779C>A	uc003tkq.2	-	6	564	c.354G>T	c.(352-354)CAG>CAT	p.Q118H	CAMK2B_uc003tkp.2_Missense_Mutation_p.Q118H|CAMK2B_uc003tkx.2_Missense_Mutation_p.Q118H|CAMK2B_uc010kyd.2_RNA|CAMK2B_uc003tkr.2_Missense_Mutation_p.Q118H|CAMK2B_uc003tks.2_Missense_Mutation_p.Q118H|CAMK2B_uc003tku.2_Missense_Mutation_p.Q118H|CAMK2B_uc003tkv.2_Missense_Mutation_p.Q118H|CAMK2B_uc003tkt.2_Missense_Mutation_p.Q118H|CAMK2B_uc003tkw.2_Missense_Mutation_p.Q118H|CAMK2B_uc010kyc.2_Missense_Mutation_p.Q118H	NM_001220	NP_001211	Q13554	KCC2B_HUMAN	calcium/calmodulin-dependent protein kinase II	118	Protein kinase.				interferon-gamma-mediated signaling pathway|synaptic transmission	cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)|ovary(1)	2						CCAGGATCTGCTGGATACAGT	0.602													8	40	---	---	---	---	PASS	A	44286779	A	A	44286779	3	1	84	1	0	0	0	0	1	0	0	0	2600	796	28	3	1721	3	CAMK2B	7	44286779	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	4184123	44286779	114851884	69	32206										
MGC26647	219557	broad.mit.edu	37	chr7	88424128	88424128	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	atcctatcaagaaggaatttCtttaggtgtagtcgttgttt	9	5	2	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr7:88424128C>A	uc003ujv.2	-	2	311	c.129G>T	c.(127-129)AAG>AAT	p.K43N	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	43											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			GAAGGAATTTCTTTAGGTGTA	0.398													32	187	---	---	---	---	PASS	A	88424128	A	A	88424128	3	1	84	1	0	0	0	0	1	0	0	0	9550	912	32	2	636	2	MGC26647	7	88424128	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	44137349	88424128	70714535	70	32207										
TAS2R16	50833	broad.mit.edu	37	chr7	122635075	122635075	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tgctatgatgttgtatctgcTtggtcagtgatgccatgaga	12	6	2	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr7:122635075T>C	uc003vkl.1	-	1	680	c.614A>G	c.(613-615)AAG>AGG	p.K205R		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	205	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						TTGTATCTGCTTGGTCAGTGA	0.458													27	89	---	---	---	---	PASS	C	122635075	C	C	122635075	3	2	84	1	0	0	0	0	1	0	0	0	15566	1609	56	5	265	5	TAS2R16	7	122635075	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	34210947	122635075	36503588	71	32208										
SSPO	23145	broad.mit.edu	37	chr7	149502517	149502517	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	agaggtgttcggctggacgcCctggacttcctggtcctcct	13	13	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr7:149502517C>T	uc010lpk.2	+	58	8330	c.8330C>T	c.(8329-8331)CCC>CTC	p.P2777L		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2777	TSP type-1 7.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GGCTGGACGCCCTGGACTTCC	0.662													8	37	---	---	---	---	PASS	T	149502517	T	T	149502517	3	4	84	1	0	0	0	0	1	0	0	0	15188	623	22	3	8552	3	SSPO	7	149502517	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	26867442	149502517	9636146	72	32209										
CSMD1	64478	broad.mit.edu	37	chr8	3000083	3000083	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gctcagcagggccgcggggaGatccgtgccgctaaattgtc	15	12	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr8:3000083G>T	uc011kwk.1	-	41	6538	c.6148C>A	c.(6148-6150)CTC>ATC	p.L2050I	CSMD1_uc011kwj.1_Missense_Mutation_p.L1442I|CSMD1_uc010lrg.2_Missense_Mutation_p.L118I	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2050	Extracellular (Potential).|CUB 12.					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)		GCCGCGGGGAGATCCGTGCCG	0.458													8	80	---	---	---	---	PASS	T	3000083	T	T	3000083	3	4	84	1	0	0	0	0	1	0	0	0	3944	942	33	2	4669	2	CSMD1	8	3000083	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08		3000083	143363939	73	32210										
RP1L1	94137	broad.mit.edu	37	chr8	10468360	10468360	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tcagcgccctcatgatctgcGtggaggcagacacccggcca	12	15	3	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr8:10468360G>T	uc003wtc.2	-	4	3477	c.3248C>A	c.(3247-3249)ACG>AAG	p.T1083K		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1083					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CATGATCTGCGTGGAGGCAGA	0.697													7	37	---	---	---	---	PASS	T	10468360	T	T	10468360	3	4	84	1	0	0	0	0	1	0	0	0	13533	1145	40	1	3958	1	RP1L1	8	10468360	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	7468277	10468360	135895662	74	32211										
UNC5D	137970	broad.mit.edu	37	chr8	35648048	35648048	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gaatcccagcttgatgaagcCgacttcaactacagcaggca	9	12	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr8:35648048C>T	uc003xjr.1	+	17	3157	c.2829C>T	c.(2827-2829)GCC>GCT	p.A943A	UNC5D_uc003xjs.1_Silent_p.A938A|UNC5D_uc003xju.1_Silent_p.A519A	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	943	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		TTGATGAAGCCGACTTCAACT	0.493													8	61	---	---	---	---	PASS	T	35648048	T	T	35648048	2	4	84	1	0	0	0	0	0	0	0	1	16992	639	23	1		1	UNC5D	8	35648048	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	25179688	35648048	110715974	75	32212										
CHRNA6	8973	broad.mit.edu	37	chr8	42611340	42611340	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	acccacctgggcattgtgtgCgtggttggggtgcggtagtg	18	8	0	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr8:42611340C>A	uc003xpj.2	-	5	1048	c.1002G>T	c.(1000-1002)ACG>ACT	p.T334T	CHRNA6_uc011lcw.1_Silent_p.T319T	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	334	Cytoplasmic.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GCATTGTGTGCGTGGTTGGGG	0.552													8	92	---	---	---	---	PASS	A	42611340	A	A	42611340	2	1	84	1	0	0	0	0	0	0	0	1	3387	755	27	1		1	CHRNA6	8	42611340	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	6963292	42611340	103752682	76	32213										
ARMC1	55156	broad.mit.edu	37	chr8	66525497	66525497	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	accgtatcatcaaggccatcTatatgcaaaaccactgtttt	5	11	3	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr8:66525497T>C	uc003xvl.2	-	4	682	c.447A>G	c.(445-447)ATA>ATG	p.I149M	ARMC1_uc011leo.1_Intron	NM_018120	NP_060590	Q9NVT9	ARMC1_HUMAN	armadillo repeat-containing protein	149					metal ion transport		metal ion binding			skin(1)	1			Epithelial(68;0.103)|OV - Ovarian serous cystadenocarcinoma(28;0.235)			CAAGGCCATCTATATGCAAAA	0.378													37	98	---	---	---	---	PASS	C	66525497	C	C	66525497	3	2	84	1	0	0	0	0	1	0	0	0	949	1512	53	5	417	5	ARMC1	8	66525497	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	23914157	66525497	79838525	77	32214										
PREX2	80243	broad.mit.edu	37	chr8	68939520	68939520	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tggaaggatatttagtaacaCcaatacaaagaatatgcaag	8	5	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr8:68939520C>A	uc003xxv.1	+	5	532	c.505C>A	c.(505-507)CCA>ACA	p.P169T	PREX2_uc003xxu.1_Missense_Mutation_p.P169T|PREX2_uc011lez.1_Missense_Mutation_p.P104T	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	169	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TTTAGTAACACCAATACAAAG	0.348													4	127	---	---	---	---	PASS	A	68939520	A	A	68939520	3	1	84	1	0	0	0	0	1	0	0	0	12477	507	18	3	523	3	PREX2	8	68939520	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	2414023	68939520	77424502	78	32215										
HEY1	23462	broad.mit.edu	37	chr8	80677843	80677843	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tgggcgccgctcgcggcttcCcgctgggaagcgtagttgtt	16	12	0	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr8:80677843C>A	uc003ybm.2	-	5	695	c.495G>T	c.(493-495)CGG>CGT	p.R165R	HEY1_uc010lzq.2_Silent_p.R46R|HEY1_uc003ybl.2_Silent_p.R169R	NM_012258	NP_036390	Q9Y5J3	HEY1_HUMAN	hairy/enhancer-of-split related with YRPW motif	165					angiogenesis|negative regulation of Notch signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|Notch signaling pathway|transcription, DNA-dependent	nucleus	DNA binding|protein binding			lung(3)	3	all_lung(9;5.1e-05)		Epithelial(68;0.076)|all cancers(69;0.179)			TCGCGGCTTCCCGCTGGGAAG	0.617											OREG0018837	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	53	---	---	---	---	PASS	A	80677843	A	A	80677843	2	1	84	1	0	0	0	0	0	0	0	1	7078	610	22	3		3	HEY1	8	80677843	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	11738323	80677843	65686179	79	32216										
HEY1	23462	broad.mit.edu	37	chr8	80677875	80677875	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gtagttgttgagatgcgaaaCcagtcgaactcgaagcgggt	14	7	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr8:80677875C>T	uc003ybm.2	-	5	663	c.463G>A	c.(463-465)GTT>ATT	p.V155I	HEY1_uc010lzq.2_Missense_Mutation_p.V36I|HEY1_uc003ybl.2_Missense_Mutation_p.V159I	NM_012258	NP_036390	Q9Y5J3	HEY1_HUMAN	hairy/enhancer-of-split related with YRPW motif	155	Orange.				angiogenesis|negative regulation of Notch signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|Notch signaling pathway|transcription, DNA-dependent	nucleus	DNA binding|protein binding			lung(3)	3	all_lung(9;5.1e-05)		Epithelial(68;0.076)|all cancers(69;0.179)			AGATGCGAAACCAGTCGAACT	0.592											OREG0018837	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	65	---	---	---	---	PASS	T	80677875	T	T	80677875	3	4	84	1	0	0	0	0	1	0	0	0	7078	507	18	3	455	3	HEY1	8	80677875	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	32	80677875	65686147	80	32217										
RIMS2	9699	broad.mit.edu	37	chr8	104922413	104922413	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gtcttggcatagcagtgaggCatccccaatgtctttggtga	12	9	2	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr8:104922413C>A	uc003yls.2	+	3	1251	c.1010C>A	c.(1009-1011)GCA>GAA	p.A337E	RIMS2_uc003ylp.2_Missense_Mutation_p.A559E|RIMS2_uc003ylw.2_Missense_Mutation_p.A367E|RIMS2_uc003ylq.2_Missense_Mutation_p.A367E|RIMS2_uc003ylr.2_Intron|RIMS2_uc003ylt.2_5'Flank	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGCAGTGAGGCATCCCCAATG	0.388										HNSCC(12;0.0054)			28	101	---	---	---	---	PASS	A	104922413	A	A	104922413	3	1	84	1	0	0	0	0	1	0	0	0	13368	710	25	3	1820	3	RIMS2	8	104922413	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	24244538	104922413	41441609	81	32218										
CSMD3	114788	broad.mit.edu	37	chr8	113563039	113563039	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	aaaagcatatcattttctggTggaccgtcccagactcggag	10	10	2	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr8:113563039T>A	uc003ynu.2	-	27	4584	c.4425A>T	c.(4423-4425)CCA>CCT	p.P1475P	CSMD3_uc003yns.2_Silent_p.P747P|CSMD3_uc003ynt.2_Silent_p.P1435P|CSMD3_uc011lhx.1_Silent_p.P1371P	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1475	Extracellular (Potential).|CUB 8.					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						CATTTTCTGGTGGACCGTCCC	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			26	84	---	---	---	---	PASS	A	113563039	A	A	113563039	2	1	84	1	0	0	0	0	0	0	0	1	3946	1683	59	5		5	CSMD3	8	113563039	Silent	SNP	T	TCGA-39-5021-01A-01D-1441-08	8640626	113563039	32800983	82	32219										
TEK	7010	broad.mit.edu	37	chr9	27168569	27168569	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	atatctttcaaaaaggtattGattaaagaagaagatgcagt	8	3	2	4			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr9:27168569G>C	uc003zqi.3	+	3	883	c.441G>C	c.(439-441)TTG>TTC	p.L147F	TEK_uc010mjc.1_Intron|TEK_uc011lnn.1_Missense_Mutation_p.L147F|TEK_uc011lno.1_Missense_Mutation_p.L147F|TEK_uc011lnp.1_Missense_Mutation_p.L43F|TEK_uc003zqj.1_Missense_Mutation_p.L124F	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	147	Extracellular (Potential).				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		AAAAGGTATTGATTAAAGAAG	0.333													18	46	---	---	---	---	PASS	C	27168569	C	C	27168569	3	2	84	1	0	0	0	0	1	0	0	0	15748	1281	45	2	451	2	TEK	9	27168569	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08		27168569	114044862	83	32220										
VPS13A	23230	broad.mit.edu	37	chr9	79917868	79917868	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	atgcataccaggaagtactgGatctactcctgccattaaat	7	10	1	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr9:79917868G>T	uc004akr.2	+	34	4110	c.3850G>T	c.(3850-3852)GAT>TAT	p.D1284Y	VPS13A_uc004akp.3_Missense_Mutation_p.D1284Y|VPS13A_uc004akq.3_Missense_Mutation_p.D1284Y|VPS13A_uc004aks.2_Missense_Mutation_p.D1245Y|VPS13A_uc010mpo.1_5'UTR	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1284	TPR 4.				Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GGAAGTACTGGATCTACTCCT	0.338													34	108	---	---	---	---	PASS	T	79917868	T	T	79917868	3	4	84	1	0	0	0	0	1	0	0	0	17186	1174	41	2	3984	2	VPS13A	9	79917868	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	52749299	79917868	61295563	84	32221										
ZCCHC6	79670	broad.mit.edu	37	chr9	88903620	88903620	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cctgctgggtcctcttcgctGaggcttttccctgagtcata	10	13	2	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr9:88903620G>A	uc004aoq.2	-	27	4675	c.4460C>T	c.(4459-4461)TCA>TTA	p.S1487L	ZCCHC6_uc010mqe.2_Missense_Mutation_p.S387L|ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.S1251L|ZCCHC6_uc004aou.2_Missense_Mutation_p.S1487L	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	1487					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						CCTCTTCGCTGAGGCTTTTCC	0.433													19	73	---	---	---	---	PASS	A	88903620	A	A	88903620	3	1	84	1	0	0	0	0	1	0	0	0	17589	1294	45	2	31	2	ZCCHC6	9	88903620	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	8985752	88903620	52309811	85	32222										
ASTN2	23245	broad.mit.edu	37	chr9	119976866	119976866	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cggaagctctcccgcgcctgGggacccagcagcacagatgg	14	15	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr9:119976866G>C	uc004bjs.1	-	3	887	c.786C>G	c.(784-786)CCC>CCG	p.P262P	ASTN2_uc004bjr.1_Silent_p.P262P|ASTN2_uc004bjt.1_Silent_p.P262P	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	262	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CCCGCGCCTGGGGACCCAGCA	0.607													19	51	---	---	---	---	PASS	C	119976866	C	C	119976866	2	2	84	1	0	0	0	0	0	0	0	1	1065	1219	43	4		4	ASTN2	9	119976866	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	31073246	119976866	21236565	86	32223										
DCLRE1C	64421	broad.mit.edu	37	chr10	14995911	14995911	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cctcactcacctttgtggcaGtgggacaggaagtaggcgcg	14	11	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr10:14995911G>C	uc001inn.2	-	1	184	c.99C>G	c.(97-99)CAC>CAG	p.H33Q	DCLRE1C_uc010qbx.1_Missense_Mutation_p.H33Q|DCLRE1C_uc001inl.2_5'UTR|DCLRE1C_uc009xji.2_5'UTR|DCLRE1C_uc001inm.2_5'UTR|DCLRE1C_uc001ino.2_5'UTR|DCLRE1C_uc009xjh.2_RNA|DCLRE1C_uc001inp.2_5'UTR|DCLRE1C_uc001inq.2_5'UTR|DCLRE1C_uc001inr.2_5'UTR	NM_001033855	NP_001029027	Q96SD1	DCR1C_HUMAN	artemis protein isoform a	33				H->A: Abolishes PRKDC-dependent endonuclease activity and V(D)J recombination.	DNA recombination	nucleus	5'-3' exonuclease activity|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)	1						CTTTGTGGCAGTGGGACAGGA	0.647								Involved_in_tolerance_or_repair_of_DNA_crosslinks|NHEJ					13	53	---	---	---	---	PASS	C	14995911	C	C	14995911	3	2	84	1	0	0	0	0	1	0	0	0	4296	1020	36	4	2035	4	DCLRE1C	10	14995911	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08		14995911	120538836	87	32224										
VIM	7431	broad.mit.edu	37	chr10	17276803	17276803	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ccctcacctgtgaagtggatGcccttaaaggaaccgtgagt	11	11	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr10:17276803G>T	uc001iou.2	+	6	1407	c.994G>T	c.(994-996)GCC>TCC	p.A332S	VIM_uc001iov.1_Missense_Mutation_p.A332S|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.A332S|VIM_uc001ioy.1_Missense_Mutation_p.A332S|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Intron|VIM_uc001ipc.1_Missense_Mutation_p.A332S	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	332	Rod.|Coil 2.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						TGAAGTGGATGCCCTTAAAGG	0.517													11	89	---	---	---	---	PASS	T	17276803	T	T	17276803	3	4	84	1	0	0	0	0	1	0	0	0	17163	1319	46	3	1012	3	VIM	10	17276803	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	2280892	17276803	118257944	88	32225										
ANKRD26	22852	broad.mit.edu	37	chr10	27326951	27326951	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	catacaacgtatcagcatttCttctcttctcttcttcttgg	4	12	6	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr10:27326951C>T	uc001ith.2	-	22	2577	c.2405G>A	c.(2404-2406)AGA>AAA	p.R802K	ANKRD26_uc001itg.2_Missense_Mutation_p.R489K|ANKRD26_uc009xku.1_Missense_Mutation_p.R803K	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	802	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						ATCAGCATTTCTTCTCTTCTC	0.303													4	57	---	---	---	---	PASS	T	27326951	T	T	27326951	3	4	84	1	0	0	0	0	1	0	0	0	654	913	32	2	2776	2	ANKRD26	10	27326951	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	10050148	27326951	108207796	89	32226										
PTCHD3	374308	broad.mit.edu	37	chr10	27687254	27687254	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	atattttctttttggctgagGaagaaacatctgttgtctga	9	5	3	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr10:27687254G>T	uc001itu.2	-	4	2391	c.2273C>A	c.(2272-2274)TCC>TAC	p.S758Y		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	758					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						TTTGGCTGAGGAAGAAACATC	0.318													13	42	---	---	---	---	PASS	T	27687254	T	T	27687254	3	4	84	1	0	0	0	0	1	0	0	0	12734	1174	41	2	34	2	PTCHD3	10	27687254	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	360303	27687254	107847493	90	32227										
ZEB1	6935	broad.mit.edu	37	chr10	31809110	31809110	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gcttttcccattctggctccTatagctcacacataagcagt	6	13	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr10:31809110T>C	uc001ivs.3	+	7	910	c.847T>C	c.(847-849)TAT>CAT	p.Y283H	ZEB1_uc001ivr.3_Missense_Mutation_p.Y65H|ZEB1_uc010qee.1_Missense_Mutation_p.Y65H|ZEB1_uc010qef.1_Missense_Mutation_p.Y65H|ZEB1_uc009xlj.1_Missense_Mutation_p.Y209H|ZEB1_uc010qeg.1_Missense_Mutation_p.Y142H|ZEB1_uc009xlk.1_Missense_Mutation_p.Y65H|ZEB1_uc001ivt.3_Missense_Mutation_p.Y65H|ZEB1_uc001ivu.3_Missense_Mutation_p.Y284H|ZEB1_uc001ivv.3_Missense_Mutation_p.Y263H|ZEB1_uc010qeh.1_Missense_Mutation_p.Y216H|ZEB1_uc009xlo.1_Missense_Mutation_p.Y266H|ZEB1_uc009xlp.2_Missense_Mutation_p.Y267H	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	283	C2H2-type 4; atypical.				cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				TTCTGGCTCCTATAGCTCACA	0.398													7	53	---	---	---	---	PASS	C	31809110	C	C	31809110	3	2	84	1	0	0	0	0	1	0	0	0	17620	1522	53	5	887	5	ZEB1	10	31809110	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	4121856	31809110	103725637	91	32228										
ANKRD30A	91074	broad.mit.edu	37	chr10	37508496	37508496	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tggtttcagaacatgcacaaAgagaccaacgtgaaacacag	9	9	1	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr10:37508496A>T	uc001iza.1	+	34	3787	c.3688A>T	c.(3688-3690)AGA>TGA	p.R1230*		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1286	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						ACATGCACAAAGAGACCAACG	0.373													7	39	---	---	---	---	PASS	T	37508496	T	T	37508496	4	4	84	1	0	0	0	0	0	1	0	0	658	64	3	5	3822	5	ANKRD30A	10	37508496	Nonsense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08	5699386	37508496	98026251	92	32229										
SEC24C	9632	broad.mit.edu	37	chr10	75519790	75519790	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tctcaggcccaccaacatcgCtggcttcagcctcaggaagt	9	15	3	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr10:75519790C>T	uc001juw.2	+	6	675	c.496C>T	c.(496-498)CTG>TTG	p.L166L	SEC24C_uc010qkn.1_RNA|SEC24C_uc009xrj.1_Silent_p.L24L|SEC24C_uc001jux.2_Silent_p.L166L|SEC24C_uc010qko.1_Silent_p.L24L|SEC24C_uc010qkp.1_Intron|SEC24C_uc010qkq.1_Intron	NM_004922	NP_004913	P53992	SC24C_HUMAN	SEC24-related protein C	166					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|zinc ion binding			skin(2)|central_nervous_system(1)	3	Prostate(51;0.0112)					ACCAACATCGCTGGCTTCAGC	0.532													26	170	---	---	---	---	PASS	T	75519790	T	T	75519790	2	4	84	1	0	0	0	0	0	0	0	1	13996	796	28	3		3	SEC24C	10	75519790	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	38011294	75519790	60014957	93	32230										
C10orf79	80217	broad.mit.edu	37	chr10	105905258	105905258	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gtcggcgtttaaaaagtttgTagagtatatccacttgatga	10	5	0	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr10:105905258T>C	uc001kxw.2	-	31	4036	c.3920A>G	c.(3919-3921)TAC>TGC	p.Y1307C	C10orf79_uc009xxq.2_Missense_Mutation_p.Y586C	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1307											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		AAAAAGTTTGTAGAGTATATC	0.363													5	36	---	---	---	---	PASS	C	105905258	C	C	105905258	3	2	84	1	0	0	0	0	1	0	0	0	1618	1638	57	5	1109	5	C10orf79	10	105905258	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	30385468	105905258	29629489	94	32231										
CUZD1	50624	broad.mit.edu	37	chr10	124605305	124605305	+	Missense_Mutation	SNP	C	T	T													0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ctccgccattgtcagctccgCcaaacaggagagaattaaga							TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr10:124605305C>T	uc001lgq.2	-	1	387	c.55G>A	c.(55-57)GCG>ACG	p.A19T	CUZD1_uc009yaf.2_5'UTR|CUZD1_uc001lgr.2_5'UTR|CUZD1_uc010qty.1_5'UTR|CUZD1_uc009yae.2_5'UTR|CUZD1_uc001lgs.2_Missense_Mutation_p.A19T|CUZD1_uc010qtz.1_Missense_Mutation_p.A19T	NM_022034	NP_071317	Q86UP6	CUZD1_HUMAN	CUB and zona pellucida-like domains 1 precursor	19					cell cycle|cell division|cell proliferation|substrate-dependent cell migration, cell attachment to substrate|trypsinogen activation	integral to membrane|transport vesicle membrane|zymogen granule membrane				ovary(1)|skin(1)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.126)|COAD - Colon adenocarcinoma(40;0.141)		GTCAGCTCCGCCAAACAGGAG	0.448													9	41	---	---	---	---	PASS	T	124605305	T	T	124605305	3	4	84	1	0	0	0	0	1	0	0	0	4066	739	26	3	1804	3	CUZD1	10	124605305	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	18700047	124605305	10929442	95	32232	640	2								
CUZD1	50624	broad.mit.edu	37	chr10	124605306	124605306	+	Silent	SNP	C	T	T													0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tccgccattgtcagctccgcCaaacaggagagaattaagag							TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr10:124605306C>T	uc001lgq.2	-	1	386	c.54G>A	c.(52-54)TTG>TTA	p.L18L	CUZD1_uc009yaf.2_5'UTR|CUZD1_uc001lgr.2_5'UTR|CUZD1_uc010qty.1_5'UTR|CUZD1_uc009yae.2_5'UTR|CUZD1_uc001lgs.2_Silent_p.L18L|CUZD1_uc010qtz.1_Silent_p.L18L	NM_022034	NP_071317	Q86UP6	CUZD1_HUMAN	CUB and zona pellucida-like domains 1 precursor	18					cell cycle|cell division|cell proliferation|substrate-dependent cell migration, cell attachment to substrate|trypsinogen activation	integral to membrane|transport vesicle membrane|zymogen granule membrane				ovary(1)|skin(1)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.126)|COAD - Colon adenocarcinoma(40;0.141)		TCAGCTCCGCCAAACAGGAGA	0.453													9	41	---	---	---	---	PASS	T	124605306	T	T	124605306	2	4	84	1	0	0	0	0	0	0	0	1	4066	593	21	3		3	CUZD1	10	124605306	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	1	124605306	10929441	96	32233	640	2								
FAM196A	642938	broad.mit.edu	37	chr10	128973697	128973697	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggggtgtgagtctgcgacggCtgctcactacattcggggga	17	9	2	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr10:128973697C>T	uc001lju.1	-	1	1004	c.963G>A	c.(961-963)CAG>CAA	p.Q321Q	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Silent_p.Q321Q|FAM196A_uc001ljv.1_Silent_p.Q321Q|FAM196A_uc009yap.1_Silent_p.Q321Q	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	321										ovary(2)	2						TCTGCGACGGCTGCTCACTAC	0.642													21	88	---	---	---	---	PASS	T	128973697	T	T	128973697	2	4	84	1	0	0	0	0	0	0	0	1	5528	796	28	3		3	FAM196A	10	128973697	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	4368391	128973697	6561050	97	32234										
OR51M1	390059	broad.mit.edu	37	chr11	5411216	5411216	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ttttgcctgcaccaggaagtGatacagctggcctgcacaga	11	11	0	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:5411216G>C	uc010qzc.1	+	1	588	c.588G>C	c.(586-588)GTG>GTC	p.V196V	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,	196						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)		ACCAGGAAGTGATACAGCTGG	0.517													5	148	---	---	---	---	PASS	C	5411216	C	C	5411216	2	2	84	1	0	0	0	0	0	0	0	1	11103	1277	45	2		2	OR51M1	11	5411216	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08		5411216	129595300	98	32235										
SCUBE2	57758	broad.mit.edu	37	chr11	9051542	9051542	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gtatgttcccactgggcaacGaatacatcggtgagtggtgg	14	8	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:9051542G>A	uc001mhh.1	-	18	2385	c.2305C>T	c.(2305-2307)CGT>TGT	p.R769C	SCUBE2_uc001mhi.1_Missense_Mutation_p.R741C|SCUBE2_uc001mhj.1_Missense_Mutation_p.R643C	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	769						extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		ACTGGGCAACGAATACATCGG	0.403													34	47	---	---	---	---	PASS	A	9051542	A	A	9051542	3	1	84	1	0	0	0	0	1	0	0	0	13945	1058	37	2	714	2	SCUBE2	11	9051542	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	3640326	9051542	125954974	99	32236										
NAV2	89797	broad.mit.edu	37	chr11	19955304	19955304	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggagaaaagcaaggaccttgCcaagagagcctctgtgacgg	14	9	1	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:19955304C>T	uc010rdm.1	+	8	1944	c.1583C>T	c.(1582-1584)GCC>GTC	p.A528V	NAV2_uc001mpp.2_Missense_Mutation_p.A441V|NAV2_uc001mpr.3_Missense_Mutation_p.A505V	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	528	Potential.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						aaggaCCTTGCCAAGAGAGCC	0.388													24	27	---	---	---	---	PASS	T	19955304	T	T	19955304	3	4	84	1	0	0	0	0	1	0	0	0	10184	739	26	3	1619	3	NAV2	11	19955304	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	10903762	19955304	115051212	100	32237										
CKAP5	9793	broad.mit.edu	37	chr11	46797843	46797843	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	attttcctttttgagctcttCagaaagatcttctccttcca	4	11	4	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:46797843C>T	uc001ndi.1	-	24	3063	c.2953G>A	c.(2953-2955)GAA>AAA	p.E985K	CKAP5_uc009ylg.1_Missense_Mutation_p.E871K|CKAP5_uc001ndj.1_Missense_Mutation_p.E985K	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	985					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						TTGAGCTCTTCAGAAAGATCT	0.438													10	50	---	---	---	---	PASS	T	46797843	T	T	46797843	3	4	84	1	0	0	0	0	1	0	0	0	3445	835	29	2	3229	2	CKAP5	11	46797843	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	26842539	46797843	88208673	101	32238										
OR4B1	119765	broad.mit.edu	37	chr11	48238812	48238812	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ctggttcctggctggggggcTtttgtcactccataattcag	12	10	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:48238812T>G	uc010rhs.1	+	1	451	c.451T>G	c.(451-453)TTT>GTT	p.F151V		NM_001005470	NP_001005470	Q8NGF8	OR4B1_HUMAN	olfactory receptor, family 4, subfamily B,	151	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|pancreas(1)	4						GCTGGGGGGCTTTTGTCACTC	0.453													26	60	---	---	---	---	PASS	G	48238812	G	G	48238812	3	3	84	1	0	0	0	0	1	0	0	0	11044	1609	56	5	453	5	OR4B1	11	48238812	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	1440969	48238812	86767704	102	32239										
LRRC55	219527	broad.mit.edu	37	chr11	56949576	56949576	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gatctccctcctcttggcagCcgggttgatgcactcggatg	12	13	2	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:56949576C>A	uc001njl.1	+	1	356	c.209C>A	c.(208-210)GCC>GAC	p.A70D		NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	40						integral to membrane					0						CTCTTGGCAGCCGGGTTGATG	0.637													8	40	---	---	---	---	PASS	A	56949576	A	A	56949576	3	1	84	1	0	0	0	0	1	0	0	0	9011	739	26	3	211	3	LRRC55	11	56949576	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	8710764	56949576	78056940	103	32240										
CTNND1	1500	broad.mit.edu	37	chr11	57569663	57569663	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tatggaccttactgaagttaTtaccggtgagttctaggcct	10	8	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:57569663T>G	uc001nmc.3	+	7	1986	c.1415T>G	c.(1414-1416)ATT>AGT	p.I472S	CTNND1_uc001nlh.1_Missense_Mutation_p.I472S|CTNND1_uc001nlu.3_Missense_Mutation_p.I371S|CTNND1_uc001nlt.3_Missense_Mutation_p.I371S|CTNND1_uc001nls.3_Missense_Mutation_p.I371S|CTNND1_uc001nlw.3_Missense_Mutation_p.I371S|CTNND1_uc001nmf.3_Missense_Mutation_p.I472S|CTNND1_uc001nmd.3_Missense_Mutation_p.I418S|CTNND1_uc001nlk.3_Missense_Mutation_p.I418S|CTNND1_uc001nme.3_Missense_Mutation_p.I472S|CTNND1_uc001nll.3_Missense_Mutation_p.I418S|CTNND1_uc001nmg.3_Missense_Mutation_p.I418S|CTNND1_uc001nlj.3_Missense_Mutation_p.I418S|CTNND1_uc001nlr.3_Missense_Mutation_p.I418S|CTNND1_uc001nlp.3_Missense_Mutation_p.I418S|CTNND1_uc001nlx.3_Missense_Mutation_p.I149S|CTNND1_uc001nlz.3_Missense_Mutation_p.I149S|CTNND1_uc009ymn.2_Missense_Mutation_p.I149S|CTNND1_uc001nlm.3_Missense_Mutation_p.I472S|CTNND1_uc001nly.3_Missense_Mutation_p.I149S|CTNND1_uc001nmb.3_Missense_Mutation_p.I149S|CTNND1_uc001nma.3_Missense_Mutation_p.I149S|CTNND1_uc001nmi.3_Missense_Mutation_p.I371S|CTNND1_uc001nmh.3_Missense_Mutation_p.I472S|CTNND1_uc001nlq.3_Missense_Mutation_p.I371S|CTNND1_uc001nln.3_Missense_Mutation_p.I472S|CTNND1_uc001nli.3_Missense_Mutation_p.I472S|CTNND1_uc001nlo.3_Missense_Mutation_p.I371S|CTNND1_uc001nlv.3_Missense_Mutation_p.I371S	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	472	ARM 3.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				ACTGAAGTTATTACCGGTGAG	0.428													68	189	---	---	---	---	PASS	G	57569663	G	G	57569663	3	3	84	1	0	0	0	0	1	0	0	0	4019	1493	52	5	1433	5	CTNND1	11	57569663	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	620087	57569663	77436853	104	32241										
MS4A6A	64231	broad.mit.edu	37	chr11	59943081	59943081	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gcttccaaccaggctgctatGcacctgaaagagaaatgttg	10	10	0	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:59943081G>A	uc001nor.2	-	5	581	c.343C>T	c.(343-345)CAT>TAT	p.H115Y	MS4A6A_uc001noq.2_Missense_Mutation_p.H115Y|MS4A6A_uc001nos.3_Missense_Mutation_p.H143Y|MS4A6A_uc009ymv.2_Missense_Mutation_p.H115Y|MS4A6A_uc001not.2_Missense_Mutation_p.H115Y|MS4A6A_uc010rla.1_Missense_Mutation_p.H143Y|MS4A6A_uc010rlb.1_Missense_Mutation_p.H70Y	NM_152852	NP_690591	Q9H2W1	M4A6A_HUMAN	membrane-spanning 4-domains, subfamily A, member	115	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						AGGCTGCTATGCACCTGAAAG	0.443													11	53	---	---	---	---	PASS	A	59943081	A	A	59943081	3	1	84	1	0	0	0	0	1	0	0	0	9864	1319	46	3	442	3	MS4A6A	11	59943081	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	2373418	59943081	75063435	105	32242										
MS4A14	84689	broad.mit.edu	37	chr11	60182994	60182994	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	atcaattacaatttgtgcttCaagaagagttttccagtgat	7	6	2	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:60182994C>A	uc001npj.2	+	5	1118	c.553C>A	c.(553-555)CAA>AAA	p.Q185K	MS4A14_uc001npi.2_Missense_Mutation_p.Q73K|MS4A14_uc001npn.2_5'UTR|MS4A14_uc001npk.2_Missense_Mutation_p.Q168K|MS4A14_uc001npl.2_5'UTR|MS4A14_uc001npm.2_5'UTR	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	185						integral to membrane	receptor activity			breast(1)	1						ATTTGTGCTTCAAGAAGAGTT	0.368													12	108	---	---	---	---	PASS	A	60182994	A	A	60182994	3	1	84	1	0	0	0	0	1	0	0	0	9858	827	29	2	571	2	MS4A14	11	60182994	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	239913	60182994	74823522	106	32243										
SYT7	9066	broad.mit.edu	37	chr11	61290739	61290739	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tacatcagccataccttcacGtaggggtctaggggagggag	14	9	3	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:61290739G>T	uc001nrv.2	-	8	921	c.915C>A	c.(913-915)TAC>TAA	p.Y305*	SYT7_uc009ynr.2_Nonsense_Mutation_p.Y380*	NM_004200	NP_004191	O43581	SYT7_HUMAN	synaptotagmin VII	305	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|pancreas(1)	4						ATACCTTCACGTAGGGGTCTA	0.557													11	75	---	---	---	---	PASS	T	61290739	T	T	61290739	4	4	84	1	0	0	0	0	0	1	0	0	15476	1140	40	1	304	1	SYT7	11	61290739	Nonsense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	1107745	61290739	73715777	107	32244										
SLC22A12	116085	broad.mit.edu	37	chr11	64368969	64368969	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ttcctgaacagggcagtaaaGaaggcaacacatggcacgct	11	10	0	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:64368969G>C	uc001oam.1	+	10	2355	c.1608G>C	c.(1606-1608)AAG>AAC	p.K536N	SLC22A12_uc001oal.1_Missense_Mutation_p.K315N|SLC22A12_uc009yps.1_Missense_Mutation_p.K502N|SLC22A12_uc001oan.1_Missense_Mutation_p.K428N	NM_144585	NP_653186	Q96S37	S22AC_HUMAN	urate anion exchanger 1 isoform a	536					cellular homeostasis|response to drug|urate metabolic process	apical plasma membrane|brush border membrane|integral to membrane	PDZ domain binding|urate transmembrane transporter activity			ovary(1)	1						GGGCAGTAAAGAAGGCAACAC	0.572													4	41	---	---	---	---	PASS	C	64368969	C	C	64368969	3	2	84	1	0	0	0	0	1	0	0	0	14443	933	33	2	1646	2	SLC22A12	11	64368969	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	3078230	64368969	70637547	108	32245										
NRXN2	9379	broad.mit.edu	37	chr11	64374839	64374839	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cgattgcggtacttatacatGgcgtagaggaggatgaggat	15	5	0	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:64374839G>A	uc001oap.2	-	8	2341	c.1830C>T	c.(1828-1830)GCC>GCT	p.A610A	NRXN2_uc001oar.2_Silent_p.A1656A|NRXN2_uc001oas.2_Silent_p.A1586A|NRXN2_uc001oao.2_Silent_p.A296A|NRXN2_uc001oaq.2_Silent_p.A1323A	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	610	Helical; (Potential).				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						ACTTATACATGGCGTAGAGGA	0.617													7	56	---	---	---	---	PASS	A	64374839	A	A	64374839	2	1	84	1	0	0	0	0	0	0	0	1	10666	1335	47	3		3	NRXN2	11	64374839	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	5870	64374839	70631677	109	32246										
NADSYN1	55191	broad.mit.edu	37	chr11	71193945	71193945	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tcgtgaaccagatcagctacAccccccaggatccccgagac	8	17	1	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:71193945A>G	uc001oqn.2	+	14	1327	c.1201A>G	c.(1201-1203)ACC>GCC	p.T401A	NADSYN1_uc001oqo.2_Missense_Mutation_p.T141A|NADSYN1_uc001oqp.2_Missense_Mutation_p.T30A	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	401	Ligase (By similarity).				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GATCAGCTACACCCCCCAGGA	0.577													10	58	---	---	---	---	PASS	G	71193945	G	G	71193945	3	3	84	1	0	0	0	0	1	0	0	0	10138	159	6	5	1255	5	NADSYN1	11	71193945	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08	6819106	71193945	63812571	110	32247										
NUMA1	4926	broad.mit.edu	37	chr11	71719783	71719783	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gcagctcagatccaggctgtCaatactcaagtccagctggg	11	12	3	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:71719783C>G	uc001orl.1	-	20	5339	c.5167G>C	c.(5167-5169)GAC>CAC	p.D1723H	NUMA1_uc001orj.2_5'UTR|NUMA1_uc009ysw.1_Missense_Mutation_p.D1272H|NUMA1_uc001ork.1_Missense_Mutation_p.D587H|NUMA1_uc001orm.1_Missense_Mutation_p.D1709H|NUMA1_uc001orn.2_Missense_Mutation_p.D1286H	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1723					G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						TCCAGGCTGTCAATACTCAAG	0.562			T	RARA	APL								21	88	---	---	---	---	PASS	G	71719783	G	G	71719783	3	3	84	1	0	0	0	0	1	0	0	0	10750	826	29	2	1212	2	NUMA1	11	71719783	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	525838	71719783	63286733	111	32248										
ODZ4	26011	broad.mit.edu	37	chr11	78467899	78467899	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tatgtgcgtgctgtccctgcCcacgaggaacttgatgcggt	13	11	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:78467899C>A	uc001ozl.3	-	19	3170	c.2707G>T	c.(2707-2709)GGC>TGC	p.G903C		NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	903	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CTGTCCCTGCCCACGAGGAAC	0.592													6	34	---	---	---	---	PASS	A	78467899	A	A	78467899	3	1	84	1	0	0	0	0	1	0	0	0	10837	623	22	3	5666	3	ODZ4	11	78467899	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	6748116	78467899	56538617	112	32249										
TYR	7299	broad.mit.edu	37	chr11	88911308	88911308	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	agaatatccttctgtccaatGcaccacttgggcctcaattt	6	12	2	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:88911308G>A	uc001pcs.2	+	1	269	c.187G>A	c.(187-189)GCA>ACA	p.A63T		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	63	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	TCTGTCCAATGCACCACTTGG	0.552									Oculocutaneous_Albinism				5	39	---	---	---	---	PASS	A	88911308	A	A	88911308	3	1	84	1	0	0	0	0	1	0	0	0	16810	1319	46	3	189	3	TYR	11	88911308	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	10443409	88911308	46095208	113	32250										
ARHGAP20	57569	broad.mit.edu	37	chr11	110450560	110450560	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tggccacaccatttctcaacCatgtgctgggatgaagagtt	10	10	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr11:110450560C>A	uc001pkz.1	-	16	3395	c.3110G>T	c.(3109-3111)TGG>TTG	p.W1037L	ARHGAP20_uc001pky.1_Missense_Mutation_p.W1014L|ARHGAP20_uc009yyb.1_Missense_Mutation_p.W1001L|ARHGAP20_uc001pla.1_Missense_Mutation_p.W1001L|ARHGAP20_uc001plb.2_Missense_Mutation_p.W580L	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	1037					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		ATTTCTCAACCATGTGCTGGG	0.493													18	138	---	---	---	---	PASS	A	110450560	A	A	110450560	3	1	84	1	0	0	0	0	1	0	0	0	870	595	21	3	469	3	ARHGAP20	11	110450560	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	21539252	110450560	24555956	114	32251										
KCNA5	3741	broad.mit.edu	37	chr12	5154720	5154720	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	catttctctagcatccctgaCgccttctggtgggcagtggt	11	12	2	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr12:5154720C>A	uc001qni.2	+	1	1636	c.1407C>A	c.(1405-1407)GAC>GAA	p.D469E		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	469						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GCATCCCTGACGCCTTCTGGT	0.582													16	120	---	---	---	---	PASS	A	5154720	A	A	5154720	3	1	84	1	0	0	0	0	1	0	0	0	8006	535	19	1	1409	1	KCNA5	12	5154720	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08		5154720	128697175	115	32252										
NTF3	4908	broad.mit.edu	37	chr12	5603793	5603793	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cagaacatcacggcggaaacGgtacgcggagcataagagtc	13	10	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr12:5603793G>A	uc001qnl.3	+	1	496	c.413G>A	c.(412-414)CGG>CAG	p.R138Q	NTF3_uc001qnk.3_Missense_Mutation_p.R151Q	NM_002527	NP_002518	P20783	NTF3_HUMAN	neurotrophin 3 isoform 2 preproprotein	138					signal transduction	extracellular region	growth factor activity|neurotrophin receptor binding			pancreas(1)	1						CGGCGGAAACGGTACGCGGAG	0.602													6	180	---	---	---	---	PASS	A	5603793	A	A	5603793	3	1	84	1	0	0	0	0	1	0	0	0	10696	1116	39	1	458	1	NTF3	12	5603793	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	449073	5603793	128248102	116	32253										
A2M	2	broad.mit.edu	37	chr12	9251320	9251320	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	aggtgggcgtgtgaggctggGagactttgtgatgggctgaa	20	4	0	4			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr12:9251320G>C	uc001qvk.1	-	15	1847	c.1734C>G	c.(1732-1734)CTC>CTG	p.L578L	A2M_uc009zgk.1_Silent_p.L428L	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	578					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GTGAGGCTGGGAGACTTTGTG	0.537													7	10	---	---	---	---	PASS	C	9251320	C	C	9251320	2	2	84	1	0	0	0	0	0	0	0	1	4	1161	41	2		2	A2M	12	9251320	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	3647527	9251320	124600575	117	32254										
LRRK2	120892	broad.mit.edu	37	chr12	40681168	40681168	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ttcagatatagcatctacacTagcaagaatggtgatcagat	8	7	3	4			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr12:40681168T>C	uc001rmg.3	+	20	2637	c.2516T>C	c.(2515-2517)CTA>CCA	p.L839P	LRRK2_uc001rmh.1_Missense_Mutation_p.L461P	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	839					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)				GCATCTACACTAGCAAGAATG	0.358													8	66	---	---	---	---	PASS	C	40681168	C	C	40681168	3	2	84	1	0	0	0	0	1	0	0	0	9033	1522	53	5	2594	5	LRRK2	12	40681168	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	31429848	40681168	93170727	118	32255										
PRICKLE1	144165	broad.mit.edu	37	chr12	42858718	42858718	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gactcagatcatccaattttCgagaaagggtgtcatcagca	9	9	4	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr12:42858718C>A	uc010skv.1	-	7	1405	c.1118G>T	c.(1117-1119)CGA>CTA	p.R373L	PRICKLE1_uc001rnl.2_Missense_Mutation_p.R373L|PRICKLE1_uc010skw.1_Missense_Mutation_p.R373L|PRICKLE1_uc001rnm.2_Missense_Mutation_p.R373L	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	373					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		ATCCAATTTTCGAGAAAGGGT	0.478													10	58	---	---	---	---	PASS	A	42858718	A	A	42858718	3	1	84	1	0	0	0	0	1	0	0	0	12486	884	31	2	1385	2	PRICKLE1	12	42858718	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	2177550	42858718	90993177	119	32256										
COL2A1	1280	broad.mit.edu	37	chr12	48387245	48387245	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gggtgtccatacttaccattGggcccggagatccgttctca	11	12	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr12:48387245G>A	uc001rqu.2	-	15	1146	c.965C>T	c.(964-966)CCA>CTA	p.P322L	COL2A1_uc001rqv.2_Missense_Mutation_p.P253L	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	322	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	ACTTACCATTGGGCCCGGAGA	0.512													16	62	---	---	---	---	PASS	A	48387245	A	A	48387245	3	1	84	1	0	0	0	0	1	0	0	0	3687	1348	47	3	3658	3	COL2A1	12	48387245	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	5528527	48387245	85464650	120	32257										
SILV	6490	broad.mit.edu	37	chr12	56355204	56355204	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	aaggaggcatttgcaccaatCagtgtaggcccatcattact	9	10	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr12:56355204C>T	uc001sip.2	-	3	262	c.231G>A	c.(229-231)CTG>CTA	p.L77L	SILV_uc001siq.2_Silent_p.L77L|SILV_uc010spx.1_Intron|SILV_uc001sir.2_Silent_p.L77L	NM_006928	NP_008859	P40967	PMEL_HUMAN	silver homolog	77					melanin biosynthetic process|melanosome organization	endoplasmic reticulum membrane|extracellular region|Golgi apparatus|integral to membrane|melanosome|multivesicular body membrane|plasma membrane	protein binding				0						TTGCACCAATCAGTGTAGGCC	0.498													12	79	---	---	---	---	PASS	T	56355204	T	T	56355204	2	4	84	1	0	0	0	0	0	0	0	1	14322	813	29	2		2	SILV	12	56355204	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	7967959	56355204	77496691	121	32258										
LEMD3	23592	broad.mit.edu	37	chr12	65564642	65564642	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gtggccgcctctagttcactCaggatcaatcacgccaatca	8	14	6	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr12:65564642C>T	uc001ssl.1	+	1	1272	c.1266C>T	c.(1264-1266)CTC>CTT	p.L422L	LEMD3_uc009zqo.1_Silent_p.L422L	NM_014319	NP_055134	Q9Y2U8	MAN1_HUMAN	LEM domain containing 3	422					negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway	integral to nuclear inner membrane|membrane fraction	DNA binding|nucleotide binding|protein binding			central_nervous_system(3)|ovary(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0104)		CTAGTTCACTCAGGATCAATC	0.517													31	111	---	---	---	---	PASS	T	65564642	T	T	65564642	2	4	84	1	0	0	0	0	0	0	0	1	8721	813	29	2		2	LEMD3	12	65564642	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	9209438	65564642	68287253	122	32259										
SOCS2	8835	broad.mit.edu	37	chr12	93968892	93968892	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	aacaaatgtaccggtgccatCtggggactgcctttaccaac	9	12	1	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr12:93968892C>T	uc001tcw.1	+	3	1124	c.534C>T	c.(532-534)ATC>ATT	p.I178I	SOCS2_uc001tcx.1_Silent_p.I178I|SOCS2_uc009zsu.2_3'UTR|SOCS2_uc001tcy.1_Silent_p.I178I|SOCS2_uc001tcz.2_3'UTR	NM_003877	NP_003868	O14508	SOCS2_HUMAN	suppressor of cytokine signaling-2	178	SOCS box.				anti-apoptosis|growth hormone receptor signaling pathway|JAK-STAT cascade|negative regulation of signal transduction|regulation of cell growth|response to estradiol stimulus	cytoplasm	growth hormone receptor binding|insulin-like growth factor receptor binding|JAK pathway signal transduction adaptor activity|prolactin receptor binding|SH3/SH2 adaptor activity			lung(1)	1						CCGGTGCCATCTGGGGACTGC	0.413													21	87	---	---	---	---	PASS	T	93968892	T	T	93968892	2	4	84	1	0	0	0	0	0	0	0	1	14914	903	32	2		2	SOCS2	12	93968892	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	28404250	93968892	39883003	123	32260										
TCTN1	79600	broad.mit.edu	37	chr12	111079360	111079360	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ctttcaggaaaatacccagcCagtccctctcagtggaaacc	7	14	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr12:111079360C>T	uc009zvs.2	+	10	1226	c.1118C>T	c.(1117-1119)CCA>CTA	p.P373L	TCTN1_uc009zvr.1_RNA|TCTN1_uc001trl.2_RNA|TCTN1_uc001trm.2_Missense_Mutation_p.P313L|TCTN1_uc010syc.1_RNA|TCTN1_uc001tro.2_RNA|TCTN1_uc001trp.3_Missense_Mutation_p.P359L|TCTN1_uc001trn.3_Missense_Mutation_p.P373L|TCTN1_uc001trj.1_Missense_Mutation_p.P317L|TCTN1_uc001trk.3_Intron|HVCN1_uc001trq.1_Intron	NM_001082537	NP_001076006	Q2MV58	TECT1_HUMAN	tectonic family member 1 isoform 2	373					multicellular organismal development	extracellular region					0						AATACCCAGCCAGTCCCTCTC	0.423													24	102	---	---	---	---	PASS	T	111079360	T	T	111079360	3	4	84	1	0	0	0	0	1	0	0	0	15719	594	21	3	1328	3	TCTN1	12	111079360	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	17110468	111079360	22772535	124	32261										
ALG5	29880	broad.mit.edu	37	chr13	37573414	37573414	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	agcgccgcgccgagcaccgcCagctgcaacagaagcggagc	14	16	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr13:37573414C>T	uc001uvy.2	-	1	91	c.24G>A	c.(22-24)CTG>CTA	p.L8L	ALG5_uc010teq.1_Silent_p.L8L|ALG5_uc010ter.1_RNA|EXOSC8_uc001uvz.2_5'Flank|EXOSC8_uc001uwb.2_5'Flank|EXOSC8_uc001uwa.2_5'Flank|EXOSC8_uc001uwc.2_5'Flank	NM_013338	NP_037470	Q9Y673	ALG5_HUMAN	dolichyl-phosphate beta-glucosyltransferase	8	Helical; Signal-anchor for type II membrane protein; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate beta-glucosyltransferase activity|oligosaccharyl transferase activity				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)		all cancers(112;5.79e-07)|Epithelial(112;1.81e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00785)|BRCA - Breast invasive adenocarcinoma(63;0.0127)|GBM - Glioblastoma multiforme(144;0.0472)		CGAGCACCGCCAGCTGCAACA	0.602													16	20	---	---	---	---	PASS	T	37573414	T	T	37573414	2	4	84	1	0	0	0	0	0	0	0	1	521	581	21	3		3	ALG5	13	37573414	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08		37573414	77596464	125	32262										
RB1	5925	broad.mit.edu	37	chr13	48881542	48881542	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tcatctgtggatggagtattGgtaaggattttcttaaaacg	11	4	3	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr13:48881542G>T	uc001vcb.2	+	2	430	c.264G>T	c.(262-264)TTG>TTT	p.L88F	RB1_uc010acs.1_Intron	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	88					androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.0?(13)|p.?(3)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ATGGAGTATTGGTAAGGATTT	0.224		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			61	84	---	---	---	---	PASS	T	48881542	T	T	48881542	3	4	84	1	0	0	0	0	1	0	0	0	13098	1362	47	3	270	3	RB1	13	48881542	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	11308128	48881542	66288336	126	32263										
OR4K5	79317	broad.mit.edu	37	chr14	20389096	20389096	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ttcacctttttactggagggGagatggtgctacttgtttcg	12	7	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr14:20389096G>T	uc010tkw.1	+	1	331	c.331G>T	c.(331-333)GAG>TAG	p.E111*		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	111	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TACTGGAGGGGAGATGGTGCT	0.433													47	580	---	---	---	---	PASS	T	20389096	T	T	20389096	4	4	84	1	0	0	0	0	0	1	0	0	11073	1175	41	2	333	2	OR4K5	14	20389096	Nonsense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08		20389096	86960444	127	32264										
IPO4	79711	broad.mit.edu	37	chr14	24652691	24652691	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tttaaatacttcttcaaagaCactttccatgtatggaagga	6	7	2	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr14:24652691C>A	uc001wmv.1	-	21	2223	c.2092G>T	c.(2092-2094)GTC>TTC	p.V698F	IPO4_uc001wmt.1_Missense_Mutation_p.V176F|IPO4_uc001wmu.2_Missense_Mutation_p.V360F|IPO4_uc001wmx.1_Missense_Mutation_p.V562F|IPO4_uc001wmy.1_Missense_Mutation_p.V562F|IPO4_uc010tnz.1_RNA|IPO4_uc001wmw.1_RNA|IPO4_uc001wmz.1_Missense_Mutation_p.V698F	NM_024658	NP_078934	Q8TEX9	IPO4_HUMAN	importin 4	698					intracellular protein transport	cytoplasm|nucleus	protein binding|protein transporter activity			kidney(1)	1				GBM - Glioblastoma multiforme(265;0.0087)		TCTTCAAAGACACTTTCCATG	0.587													3	55	---	---	---	---	PASS	A	24652691	A	A	24652691	3	1	84	1	0	0	0	0	1	0	0	0	7795	478	17	3	1193	3	IPO4	14	24652691	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	4263595	24652691	82696849	128	32265										
KLHDC2	23588	broad.mit.edu	37	chr14	50246318	50246318	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	atgtgcctctaatagggtaaAgcaccttcacctcgtgctgc	9	12	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr14:50246318A>G	uc001wwx.2	+	7	1039	c.639A>G	c.(637-639)AAA>AAG	p.K213K	SDCCAG1_uc010anj.1_Intron|KLHDC2_uc001wwy.2_Silent_p.K213K|KLHDC2_uc010anp.2_Silent_p.K213K	NM_014315	NP_055130	Q9Y2U9	KLDC2_HUMAN	kelch domain containing 2	213						nucleus	protein binding			ovary(1)	1	all_epithelial(31;0.000959)|Breast(41;0.0117)					AATAGGGTAAAGCACCTTCAC	0.418													17	22	---	---	---	---	PASS	G	50246318	G	G	50246318	2	3	84	1	0	0	0	0	0	0	0	1	8356	69	3	5		5	KLHDC2	14	50246318	Silent	SNP	A	TCGA-39-5021-01A-01D-1441-08	25593627	50246318	57103222	129	32266										
HERC2	8924	broad.mit.edu	37	chr15	28456229	28456229	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ctggtgggagagcagcgcccGacctgctttcaggatgtata	14	10	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr15:28456229G>A	uc001zbj.2	-	44	7094	c.6988C>T	c.(6988-6990)CGG>TGG	p.R2330W		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2330					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		AGCAGCGCCCGACCTGCTTTC	0.547													5	130	---	---	---	---	PASS	A	28456229	A	A	28456229	3	1	84	1	0	0	0	0	1	0	0	0	7058	1057	37	2	7716	2	HERC2	15	28456229	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08		28456229	74075163	130	32267										
CD19	930	broad.mit.edu	37	chr16	28944428	28944428	+	Silent	SNP	C	A	A													0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gacagcctgaaccagagcctCagccagggtatggtgatgac							TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr16:28944428C>A	uc002drs.2	+	3	614	c.552C>A	c.(550-552)CTC>CTA	p.L184L	uc010vct.1_Intron|CD19_uc010byo.1_Silent_p.L184L	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	184	Extracellular (Potential).|Ig-like C2-type 2.				cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						ACCAGAGCCTCAGCCAGGGTA	0.607													11	56	---	---	---	---	PASS	A	28944428	A	A	28944428	2	1	84	1	0	0	0	0	0	0	0	1	2973	813	29	2		2	CD19	16	28944428	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08		28944428	61410325	131	32268	641	2								
CD19	930	broad.mit.edu	37	chr16	28944429	28944429	+	Missense_Mutation	SNP	A	C	C													0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	acagcctgaaccagagcctcAgccagggtatggtgatgact							TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr16:28944429A>C	uc002drs.2	+	3	615	c.553A>C	c.(553-555)AGC>CGC	p.S185R	uc010vct.1_Intron|CD19_uc010byo.1_Missense_Mutation_p.S185R	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	185	Extracellular (Potential).|Ig-like C2-type 2.				cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						CCAGAGCCTCAGCCAGGGTAT	0.612													12	55	---	---	---	---	PASS	C	28944429	C	C	28944429	3	2	84	1	0	0	0	0	1	0	0	0	2973	188	7	5	563	5	CD19	16	28944429	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08	1	28944429	61410324	132	32269	641	2								
CLEC18B	497190	broad.mit.edu	37	chr16	74443468	74443468	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	caaactggcagatgtaacggTttcgggttttgcagcgctgg	14	8	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr16:74443468T>G	uc002fct.2	-	12	1510	c.1310A>C	c.(1309-1311)AAC>ACC	p.N437T	CLEC18B_uc002fcu.2_Missense_Mutation_p.N428T	NM_001011880	NP_001011880	Q6UXF7	CL18B_HUMAN	C-type lectin domain family 18, member B	437	C-type lectin.					extracellular region	sugar binding				0						GATGTAACGGTTTCGGGTTTT	0.602													4	104	---	---	---	---	PASS	G	74443468	G	G	74443468	3	3	84	1	0	0	0	0	1	0	0	0	3503	1725	60	5	65	5	CLEC18B	16	74443468	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	45499039	74443468	15911285	133	32270										
CLEC18B	497190	broad.mit.edu	37	chr16	74443487	74443487	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gtttcgggttttgcagcgctGgtcgttccagttgaaggcag	15	8	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr16:74443487G>C	uc002fct.2	-	12	1491	c.1291C>G	c.(1291-1293)CAG>GAG	p.Q431E	CLEC18B_uc002fcu.2_Missense_Mutation_p.Q422E	NM_001011880	NP_001011880	Q6UXF7	CL18B_HUMAN	C-type lectin domain family 18, member B	431	C-type lectin.					extracellular region	sugar binding				0						TTGCAGCGCTGGTCGTTCCAG	0.592													5	115	---	---	---	---	PASS	C	74443487	C	C	74443487	3	2	84	1	0	0	0	0	1	0	0	0	3503	1357	47	4	84	4	CLEC18B	16	74443487	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	19	74443487	15911266	134	32271										
BCAR1	9564	broad.mit.edu	37	chr16	75263782	75263782	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tggcctcacactgctccaggTagaagagcagcagctgccgg	13	13	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr16:75263782T>C	uc002fdv.2	-	7	2363	c.2240A>G	c.(2239-2241)TAC>TGC	p.Y747C	BCAR1_uc002fdt.2_Missense_Mutation_p.Y200C|BCAR1_uc002fdu.2_Missense_Mutation_p.Y537C|BCAR1_uc010cgu.2_Missense_Mutation_p.Y736C|BCAR1_uc010vna.1_Missense_Mutation_p.Y745C|BCAR1_uc010vnb.1_Missense_Mutation_p.Y793C|BCAR1_uc002fdw.2_Missense_Mutation_p.Y747C|BCAR1_uc010vnc.1_Missense_Mutation_p.Y599C|BCAR1_uc010vnd.1_Missense_Mutation_p.Y765C|BCAR1_uc002fdx.2_Missense_Mutation_p.Y765C	NM_014567	NP_055382	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	747	Divergent helix-loop-helix motif.				actin filament organization|B cell receptor signaling pathway|blood coagulation|cell adhesion|cell division|cell migration|cell proliferation|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|integrin-mediated signaling pathway|nerve growth factor receptor signaling pathway|platelet-derived growth factor receptor signaling pathway|positive regulation of cell migration|regulation of apoptosis|regulation of cell growth|T cell receptor signaling pathway	cytosol|focal adhesion|membrane fraction|ruffle	protein kinase binding|protein phosphatase binding|SH3 domain binding|signal transducer activity			central_nervous_system(5)|breast(2)|prostate(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.169)		CTGCTCCAGGTAGAAGAGCAG	0.672													13	64	---	---	---	---	PASS	C	75263782	C	C	75263782	3	2	84	1	0	0	0	0	1	0	0	0	1348	1638	57	5	376	5	BCAR1	16	75263782	Missense_Mutation	SNP	T	TCGA-39-5021-01A-01D-1441-08	820295	75263782	15090971	135	32272										
TP53	7157	broad.mit.edu	37	chr17	7578507	7578507	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tcaacccacagctgcacaggGcaggtcttggccagttggca	12	13	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr17:7578507G>C	uc002gim.2	-	5	617	c.423C>G	c.(421-423)TGC>TGG	p.C141W	TP53_uc002gig.1_Missense_Mutation_p.C141W|TP53_uc002gih.2_Missense_Mutation_p.C141W|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C9W|TP53_uc010cng.1_Missense_Mutation_p.C9W|TP53_uc002gii.1_Missense_Mutation_p.C9W|TP53_uc010cnh.1_Missense_Mutation_p.C141W|TP53_uc010cni.1_Missense_Mutation_p.C141W|TP53_uc002gij.2_Missense_Mutation_p.C141W|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C48W|TP53_uc002gio.2_Missense_Mutation_p.C9W|TP53_uc010vug.1_Missense_Mutation_p.C102W	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	141	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		C -> A (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|C -> R (in sporadic cancers; somatic mutation).|C -> Y (in LFS; germline mutation and in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> F (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C141Y(61)|p.C141*(11)|p.C141R(10)|p.C141W(10)|p.0?(7)|p.C141C(4)|p.C141F(4)|p.C141fs*29(3)|p.N131fs*27(2)|p.C141S(2)|p.C141fs*8(2)|p.L137_W146del10(1)|p.K139fs*4(1)|p.C141fs*34(1)|p.C141fs*30(1)|p.A138_V143delAKTCPV(1)|p.A138_P142delAKTCP(1)|p.C141A(1)|p.C141G(1)|p.C141_P142insXX(1)|p.K139_C141>N(1)|p.C141fs*5(1)|p.P142del(1)|p.P142fs*7(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)		GCTGCACAGGGCAGGTCTTGG	0.577		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)			26	34	---	---	---	---	PASS	C	7578507	C	C	7578507	3	2	84	1	0	0	0	0	1	0	0	0	16378	1195	42	4	875	4	TP53	17	7578507	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08		7578507	73616703	136	32273										
CHD3	1107	broad.mit.edu	37	chr17	7793959	7793959	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	agagagtgggggcagtgaatAtggaaccggaccgggtcgga	19	6	0	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr17:7793959A>G	uc002gje.2	+	3	434	c.284A>G	c.(283-285)TAT>TGT	p.Y95C	CHD3_uc002gjd.2_Missense_Mutation_p.Y154C|CHD3_uc002gjf.2_Missense_Mutation_p.Y95C|CHD3_uc002gjg.1_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	95					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GGCAGTGAATATGGAACCGGA	0.478													4	21	---	---	---	---	PASS	G	7793959	G	G	7793959	3	3	84	1	0	0	0	0	1	0	0	0	3326	449	16	5	575	5	CHD3	17	7793959	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08	215452	7793959	73401251	137	32274										
MYH2	4620	broad.mit.edu	37	chr17	10429113	10429113	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cattctgcagccgctgcttcGtcttttcgagggaagcacat	10	12	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr17:10429113G>T	uc010coi.2	-	31	4396	c.4268C>A	c.(4267-4269)ACG>AAG	p.T1423K	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.T1423K|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1423	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CCGCTGCTTCGTCTTTTCGAG	0.512													29	39	---	---	---	---	PASS	T	10429113	T	T	10429113	3	4	84	1	0	0	0	0	1	0	0	0	10035	1145	40	1	1597	1	MYH2	17	10429113	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	2635154	10429113	70766097	138	32275										
CLTC	1213	broad.mit.edu	37	chr17	57733276	57733276	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tggttatatccacctctatgAtcttgagactggtacctgca	8	10	2	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr17:57733276A>T	uc002ixq.1	+	6	1300	c.857A>T	c.(856-858)GAT>GTT	p.D286V	CLTC_uc002ixp.2_Missense_Mutation_p.D286V|CLTC_uc002ixr.1_Missense_Mutation_p.D290V	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	286	Globular terminal domain.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					CACCTCTATGATCTTGAGACT	0.358			T	ALK|TFE3	ALCL|renal 								28	132	---	---	---	---	PASS	T	57733276	T	T	57733276	3	4	84	1	0	0	0	0	1	0	0	0	3566	333	12	5	879	5	CLTC	17	57733276	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08	47304163	57733276	23461934	139	32276										
ABCA10	10349	broad.mit.edu	37	chr17	67215713	67215713	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ctgactctcggagacccatcActgtcatcagtttcttaaat	6	12	5	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr17:67215713A>T	uc010dfa.1	-	7	1382	c.503T>A	c.(502-504)GTG>GAG	p.V168E	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfc.1_Missense_Mutation_p.V60E	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	168					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					GAGACCCATCACTGTCATCAG	0.308													46	63	---	---	---	---	PASS	T	67215713	T	T	67215713	3	4	84	1	0	0	0	0	1	0	0	0	29	159	6	5	4264	5	ABCA10	17	67215713	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08	9482437	67215713	13979497	140	32277										
ICT1	3396	broad.mit.edu	37	chr17	73008861	73008861	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	accgcccgcacggtgcccacGccgggcgctgcacaagcaga	13	18	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr17:73008861G>A	uc002jmm.2	+	1	82	c.80G>A	c.(79-81)CGC>CAC	p.R27H		NM_001545	NP_001536	Q14197	ICT1_HUMAN	immature colon carcinoma transcript 1 precursor	27					mitochondrial translational termination	mitochondrial large ribosomal subunit	aminoacyl-tRNA hydrolase activity|translation release factor activity, codon nonspecific			ovary(1)|central_nervous_system(1)	2	all_lung(278;0.226)					CGGTGCCCACGCCGGGCGCTG	0.667											OREG0024724	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	12	---	---	---	---	PASS	A	73008861	A	A	73008861	3	1	84	1	0	0	0	0	1	0	0	0	7488	1087	38	1	82	1	ICT1	17	73008861	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	5793148	73008861	8186349	141	32278										
NOTUM	147111	broad.mit.edu	37	chr17	79914879	79914879	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ccaggcctcgcacctggatgGctgggtagcccagcttctcc	12	16	1	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr17:79914879G>T	uc010wvg.1	-	7	1039	c.767C>A	c.(766-768)GCC>GAC	p.A256D		NM_178493	NP_848588	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog precursor	256						extracellular region	hydrolase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CACCTGGATGGCTGGGTAGCC	0.667													20	17	---	---	---	---	PASS	T	79914879	T	T	79914879	3	4	84	1	0	0	0	0	1	0	0	0	10552	1203	42	3	743	3	NOTUM	17	79914879	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	6906018	79914879	1280331	142	32279										
TCEB3B	51224	broad.mit.edu	37	chr18	44559910	44559910	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gtctgtctctctaacgagtgCgtgattgtctttctttctgc	9	10	6	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr18:44559910C>T	uc002lcr.1	-	1	2079	c.1726G>A	c.(1726-1728)GCA>ACA	p.A576T	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	576	Activation domain (By similarity).				regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						CTAACGAGTGCGTGATTGTCT	0.512													36	68	---	---	---	---	PASS	T	44559910	T	T	44559910	3	4	84	1	0	0	0	0	1	0	0	0	15679	768	27	1	539	1	TCEB3B	18	44559910	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08		44559910	33517338	143	32280										
ZCCHC2	54877	broad.mit.edu	37	chr18	60223462	60223462	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	attttcaagttcatcacaagCttttctacaaagtcagaaag	5	8	5	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr18:60223462C>G	uc002lip.3	+	6	1340	c.1340C>G	c.(1339-1341)GCT>GGT	p.A447G	ZCCHC2_uc002lio.2_RNA	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	447					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding			lung(1)|prostate(1)	2						TCATCACAAGCTTTTCTACAA	0.363													6	21	---	---	---	---	PASS	G	60223462	G	G	60223462	3	3	84	1	0	0	0	0	1	0	0	0	17584	797	28	4	1362	4	ZCCHC2	18	60223462	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	15663552	60223462	17853786	144	32281										
NFATC1	4772	broad.mit.edu	37	chr18	77193660	77193660	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	attgaggtgcagcccaagtcCcaccaccgagcccactacga	9	16	0	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr18:77193660C>G	uc010xfg.1	+	3	1761	c.1308C>G	c.(1306-1308)TCC>TCG	p.S436S	NFATC1_uc002lnc.1_Silent_p.S436S|NFATC1_uc010xff.1_Silent_p.S436S|NFATC1_uc002lnd.2_Silent_p.S436S|NFATC1_uc002lne.2_5'UTR|NFATC1_uc010xfh.1_Silent_p.S436S|NFATC1_uc010xfi.1_Silent_p.S423S|NFATC1_uc010xfj.1_5'UTR|NFATC1_uc002lnf.2_Silent_p.S423S|NFATC1_uc002lng.2_Silent_p.S423S|NFATC1_uc010xfk.1_Silent_p.S423S	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	436	RHD.				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		AGCCCAAGTCCCACCACCGAG	0.692													40	88	---	---	---	---	PASS	G	77193660	G	G	77193660	2	3	84	1	0	0	0	0	0	0	0	1	10361	610	22	4		4	NFATC1	18	77193660	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	16970198	77193660	883588	145	32282										
ABCA7	10347	broad.mit.edu	37	chr19	1051539	1051539	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cctacggctggcgtggatccTgcttcccgccgcggtatttg	13	14	0	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr19:1051539T>C	uc002lqw.3	+	21	3147	c.2916T>C	c.(2914-2916)CCT>CCC	p.P972P	ABCA7_uc010dsb.1_Silent_p.P834P	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	972	ABC transporter 1.				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGTGGATCCTGCTTCCCGCC	0.473													8	29	---	---	---	---	PASS	C	1051539	C	C	1051539	2	2	84	1	0	0	0	0	0	0	0	1	37	1567	55	5		5	ABCA7	19	1051539	Silent	SNP	T	TCGA-39-5021-01A-01D-1441-08		1051539	58077444	146	32283										
MUC16	94025	broad.mit.edu	37	chr19	9063785	9063785	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gatgtagagaaccagctgacGgttcttgtggagatgtctgg	15	6	2	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr19:9063785G>A	uc002mkp.2	-	3	23865	c.23661C>T	c.(23659-23661)ACC>ACT	p.T7887T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7889	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACCAGCTGACGGTTCTTGTGG	0.502													34	86	---	---	---	---	PASS	A	9063785	A	A	9063785	2	1	84	1	0	0	0	0	0	0	0	1	9973	1103	39	1		1	MUC16	19	9063785	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	8012246	9063785	50065198	147	32284										
FARSA	2193	broad.mit.edu	37	chr19	13035919	13035919	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ctcacccctgtgagccgtagCcgccctgagagtgggtccgc	13	16	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr19:13035919C>T	uc002mvs.2	-	8	959	c.911G>A	c.(910-912)GGC>GAC	p.G304D	FARSA_uc002mvt.2_RNA|FARSA_uc010xmv.1_Missense_Mutation_p.G273D|FARSA_uc010dyy.1_Missense_Mutation_p.G225D	NM_004461	NP_004452	Q9Y285	SYFA_HUMAN	phenylalanyl-tRNA synthetase, alpha subunit	304					phenylalanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|phenylalanine-tRNA ligase activity|protein binding|tRNA binding			ovary(1)	1					L-Phenylalanine(DB00120)	TGAGCCGTAGCCGCCCTGAGA	0.622													6	14	---	---	---	---	PASS	T	13035919	T	T	13035919	3	4	84	1	0	0	0	0	1	0	0	0	5679	739	26	3	639	3	FARSA	19	13035919	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	3972134	13035919	46093064	148	32285										
EMR3	84658	broad.mit.edu	37	chr19	14765947	14765947	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	taaagtctgattggtgagaaGtgactcaaatttgtccacaa	9	6	2	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr19:14765947G>A	uc002mzi.3	-	6	572	c.424C>T	c.(424-426)CTT>TTT	p.L142F	EMR3_uc010dzp.2_Missense_Mutation_p.L90F|EMR3_uc010xnv.1_Intron	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	142	Extracellular (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						TTGGTGAGAAGTGACTCAAAT	0.368													16	144	---	---	---	---	PASS	A	14765947	A	A	14765947	3	1	84	1	0	0	0	0	1	0	0	0	5106	1029	36	3	1578	3	EMR3	19	14765947	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	1730028	14765947	44363036	149	32286										
B3GNT3	10331	broad.mit.edu	37	chr19	17922703	17922703	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gacatcttccccattgatgaTgtcttcctgggtatgtgtct	9	10	3	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr19:17922703T>C	uc002nhk.1	+	3	976	c.891T>C	c.(889-891)GAT>GAC	p.D297D	B3GNT3_uc002nhl.1_Silent_p.D297D|B3GNT3_uc010ebd.1_Silent_p.D297D|B3GNT3_uc010ebe.1_Silent_p.D297D	NM_014256	NP_055071	Q9Y2A9	B3GN3_HUMAN	UDP-GlcNAc:betaGal	297	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to plasma membrane	galactosyltransferase activity			upper_aerodigestive_tract(1)	1						CCATTGATGATGTCTTCCTGG	0.627													74	194	---	---	---	---	PASS	C	17922703	C	C	17922703	2	2	84	1	0	0	0	0	0	0	0	1	1258	1461	51	5		5	B3GNT3	19	17922703	Silent	SNP	T	TCGA-39-5021-01A-01D-1441-08	3156756	17922703	41206280	150	32287										
JUND	3727	broad.mit.edu	37	chr19	18391543	18391543	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	acggcgggctctcgccgaagCtcggcacgtcgggcaccgtc	15	16	1	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr19:18391543C>T	uc002nip.2	-	1	890	c.752G>A	c.(751-753)AGC>AAC	p.S251N	hsa-mir-3188|MI0014232_5'Flank	NM_005354	NP_005345	P17535	JUND_HUMAN	jun D proto-oncogene	251					regulation of transcription from RNA polymerase II promoter	chromatin|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						CTCGCCGAAGCTCGGCACGTC	0.726													14	27	---	---	---	---	PASS	T	18391543	T	T	18391543	3	4	84	1	0	0	0	0	1	0	0	0	7971	797	28	3	295	3	JUND	19	18391543	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	468840	18391543	40737440	151	32288										
ZNF99	7652	broad.mit.edu	37	chr19	22941130	22941130	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tttccagtatgaattatcttAtgttttctaagggctgagaa	8	5	2	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr19:22941130A>T	uc010xrh.1	-	5	1308	c.1308T>A	c.(1306-1308)CAT>CAA	p.H436Q		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)				GAATTATCTTATGTTTTCTAA	0.333													24	68	---	---	---	---	PASS	T	22941130	T	T	22941130	3	4	84	1	0	0	0	0	1	0	0	0	18201	446	16	5	1816	5	ZNF99	19	22941130	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08	4549587	22941130	36187853	152	32289										
ZNF585B	92285	broad.mit.edu	37	chr19	37677356	37677356	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tctgacctgtaggtaaaggcCttcccacactcagtacatat	7	12	2	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr19:37677356C>T	uc002ofq.2	-	5	1337	c.1083G>A	c.(1081-1083)AAG>AAA	p.K361K	uc002ofp.1_5'Flank|ZNF585B_uc002ofr.1_Silent_p.K175K	NM_152279	NP_689492	Q52M93	Z585B_HUMAN	zinc finger protein 585B	361	C2H2-type 7.				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)			AGGTAAAGGCCTTCCCACACT	0.418													9	156	---	---	---	---	PASS	T	37677356	T	T	37677356	2	4	84	1	0	0	0	0	0	0	0	1	18015	680	24	3		3	ZNF585B	19	37677356	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	14736226	37677356	21451627	153	32290										
DHDH	27294	broad.mit.edu	37	chr19	49442786	49442786	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	actctaggagacctccgggtGgctcgggcagaatttgggaa	15	9	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr19:49442786G>T	uc002ple.1	+	4	487	c.447G>T	c.(445-447)GTG>GTT	p.V149V		NM_014475	NP_055290	Q9UQ10	DHDH_HUMAN	dimeric dihydrodiol dehydrogenase	149					carbohydrate metabolic process		binding|D-xylose 1-dehydrogenase (NADP+) activity|electron carrier activity|NAD(P)+ transhydrogenase activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000158)|all cancers(93;0.000258)|Epithelial(262;0.0173)|GBM - Glioblastoma multiforme(486;0.0179)		ACCTCCGGGTGGCTCGGGCAG	0.627													25	100	---	---	---	---	PASS	T	49442786	T	T	49442786	2	4	84	1	0	0	0	0	0	0	0	1	4479	1335	47	3		3	DHDH	19	49442786	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	11765430	49442786	9686197	154	32291										
LILRA3	11026	broad.mit.edu	37	chr19	54803248	54803248	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gccacctgtgagtcacactgGatggtcacattccctcctga	9	14	2	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr19:54803248G>A	uc002qfd.2	-	4	494	c.429C>T	c.(427-429)ATC>ATT	p.I143I	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Silent_p.I143I	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	143	Ig-like C2-type 2.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		AGTCACACTGGATGGTCACAT	0.542													31	57	---	---	---	---	PASS	A	54803248	A	A	54803248	2	1	84	1	0	0	0	0	0	0	0	1	8786	1164	41	2		2	LILRA3	19	54803248	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	5360462	54803248	4325735	155	32292										
NLRP7	199713	broad.mit.edu	37	chr19	55450740	55450740	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gtcctccccctcctccttctCcagggcgtagaacagggcag	10	17	1	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr19:55450740C>A	uc002qih.3	-	4	1523	c.1447G>T	c.(1447-1449)GAG>TAG	p.E483*	NLRP7_uc002qig.3_Nonsense_Mutation_p.E483*|NLRP7_uc002qii.3_Nonsense_Mutation_p.E483*|NLRP7_uc010esk.2_Nonsense_Mutation_p.E483*|NLRP7_uc010esl.2_Nonsense_Mutation_p.E511*	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	483	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		TCCTCCTTCTCCAGGGCGTAG	0.592													13	64	---	---	---	---	PASS	A	55450740	A	A	55450740	4	1	84	1	0	0	0	0	0	1	0	0	10482	864	30	2	1698	2	NLRP7	19	55450740	Nonsense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	647492	55450740	3678243	156	32293										
SEC23B	10483	broad.mit.edu	37	chr20	18529263	18529263	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gtgaatgcagtttatgttccAtctgagaagatctccatttc	8	8	2	3			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr20:18529263A>T	uc002wqz.1	+	16	2197	c.1754A>T	c.(1753-1755)CAT>CTT	p.H585L	SEC23B_uc002wra.1_Missense_Mutation_p.H585L|SEC23B_uc002wrb.1_Missense_Mutation_p.H585L|SEC23B_uc010zsb.1_Missense_Mutation_p.H567L|SEC23B_uc002wrc.1_Missense_Mutation_p.H585L	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	585					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						TTTATGTTCCATCTGAGAAGA	0.423													20	79	---	---	---	---	PASS	T	18529263	T	T	18529263	3	4	84	1	0	0	0	0	1	0	0	0	13992	217	8	5	1812	5	SEC23B	20	18529263	Missense_Mutation	SNP	A	TCGA-39-5021-01A-01D-1441-08		18529263	44496257	157	32294										
C20orf26	26074	broad.mit.edu	37	chr20	20257983	20257983	+	Frame_Shift_Del	DEL	G	-	-													0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tggcggacgcgctaggagccGccggagtcactatgtaccgg							TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr20:20257983delG	uc002wru.2	+	22	2753	c.2677delG	c.(2677-2679)GCCfs	p.A893fs	C20orf26_uc010zse.1_Frame_Shift_Del_p.A873fs|C20orf26_uc002wrw.2_RNA	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	893										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GCTAGGAGCCGCCGGAGTCAC	0.667													86	51	---	---	---	---		-	20257983	-	-	20257983	7	5	84	1	0	1	0	1	0	0	0	0	2106	1087	38	0	2791	0	C20orf26	20	20257983	Frame_Shift_Del	DEL	G	TCGA-39-5021-01A-01D-1441-08	1728720	20257983	42767537	158	32295										
SNTA1	6640	broad.mit.edu	37	chr20	32005618	32005618	+	Frame_Shift_Del	DEL	C	-	-													0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tgaagttccggggtgtggggCcaggggaggaaggctgccgc							TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr20:32005618delC	uc002wzd.1	-	3	880	c.608delG	c.(607-609)GGCfs	p.G203fs	SNTA1_uc010zuf.1_Frame_Shift_Del_p.G203fs	NM_003098	NP_003089	Q13424	SNTA1_HUMAN	acidic alpha 1 syntrophin	203	PH 1.				muscle contraction	cell junction|cytoplasm|cytoskeleton|sarcolemma	actin binding|calmodulin binding			skin(1)	1						GGGTGTGGGGCCAGGGGAGGA	0.602													91	55	---	---	---	---		-	32005618	-	-	32005618	7	5	84	1	0	1	0	1	0	0	0	0	14871	739	26	0	933	0	SNTA1	20	32005618	Frame_Shift_Del	DEL	C	TCGA-39-5021-01A-01D-1441-08	11747635	32005618	31019902	159	32296										
KIAA1755	85449	broad.mit.edu	37	chr20	36841984	36841984	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	cctgcccggctcagggaggcCacctgcagccccacggctgc	13	19	1	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr20:36841984C>G	uc002xhy.1	-	14	3335	c.3063G>C	c.(3061-3063)GTG>GTC	p.V1021V	KIAA1755_uc002xhv.1_Silent_p.V85V|KIAA1755_uc002xhw.1_Silent_p.V76V|KIAA1755_uc002xhx.1_Silent_p.V299V	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	1021										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				TCAGGGAGGCCACCTGCAGCC	0.672													9	25	---	---	---	---	PASS	G	36841984	G	G	36841984	2	3	84	1	0	0	0	0	0	0	0	1	8257	581	21	4		4	KIAA1755	20	36841984	Silent	SNP	C	TCGA-39-5021-01A-01D-1441-08	4836366	36841984	26183536	160	32297										
DDX27	55661	broad.mit.edu	37	chr20	47838119	47838119	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ggccctggctgatgtcatgaGccaactcaagaagaaggtga	13	9	2	5			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr20:47838119G>A	uc002xuh.2	+	2	378	c.317G>A	c.(316-318)AGC>AAC	p.S106N		NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	106	Asp/Glu/Lys-rich.					nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GATGTCATGAGCCAACTCAAG	0.522													17	43	---	---	---	---	PASS	A	47838119	A	A	47838119	3	1	84	1	0	0	0	0	1	0	0	0	4354	971	34	3	323	3	DDX27	20	47838119	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	10996135	47838119	15187401	161	32298										
ZFP64	55734	broad.mit.edu	37	chr20	50701752	50701752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gatcatgtgccttttcaagtCcgagctgattttgaacttgg	10	8	2	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr20:50701752C>A	uc002xwk.2	-	9	1631	c.1282G>T	c.(1282-1284)GAC>TAC	p.D428Y	ZFP64_uc002xwj.2_Missense_Mutation_p.D209Y	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTTTTCAAGTCCGAGCTGATT	0.522													11	27	---	---	---	---	PASS	A	50701752	A	A	50701752	3	1	84	1	0	0	0	0	1	0	0	0	17649	855	30	2	659	2	ZFP64	20	50701752	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08	2863633	50701752	12323768	162	32299										
SAMSN1	64092	broad.mit.edu	37	chr21	15882692	15882692	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	aatccgtatgcactctggcaCggccacagaatggtcctgaa	10	12	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr21:15882692C>A	uc002yju.1	-	5	582	c.500G>T	c.(499-501)CGT>CTT	p.R167L	SAMSN1_uc010gky.1_Intron|SAMSN1_uc002yjv.1_Missense_Mutation_p.R235L	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	167	SH3.				negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		CACTCTGGCACGGCCACAGAA	0.502													27	77	---	---	---	---	PASS	A	15882692	A	A	15882692	3	1	84	1	0	0	0	0	1	0	0	0	13830	536	19	1	637	1	SAMSN1	21	15882692	Missense_Mutation	SNP	C	TCGA-39-5021-01A-01D-1441-08		15882692	32247203	163	32300										
MGAT3	4248	broad.mit.edu	37	chr22	39884019	39884019	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	acgagttcgacctgctggacGtgcgcttccacgagctgggc	14	13	0	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chr22:39884019G>T	uc003axv.3	+	2	906	c.667G>T	c.(667-669)GTG>TTG	p.V223L	MGAT3_uc010gxy.2_Missense_Mutation_p.V223L	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	223	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					CCTGCTGGACGTGCGCTTCCA	0.647													16	21	---	---	---	---	PASS	T	39884019	T	T	39884019	3	4	84	1	0	0	0	0	1	0	0	0	9544	1145	40	1	669	1	MGAT3	22	39884019	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08		39884019	11420547	164	32301										
FRMPD4	9758	broad.mit.edu	37	chrX	12734276	12734276	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tttattggcgaaggggaacaAgaagcccagataacatacat	10	7	0	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chrX:12734276A>G	uc004cuz.1	+	15	2204	c.1698A>G	c.(1696-1698)CAA>CAG	p.Q566Q	FRMPD4_uc011mij.1_Silent_p.Q558Q	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	566					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						AAGGGGAACAAGAAGCCCAGA	0.463													27	58	---	---	---	---	PASS	G	12734276	G	G	12734276	2	3	84	1	0	0	0	0	0	0	0	1	6059	69	3	5		5	FRMPD4	23	12734276	Silent	SNP	A	TCGA-39-5021-01A-01D-1441-08		12734276	142536284	165	32302										
KLHL4	56062	broad.mit.edu	37	chrX	86919919	86919919	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	tgagtcatatgatgcacagaGaaatgaatggaaagaggtat	12	3	1	5			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chrX:86919919G>T	uc004efb.2	+	10	2263	c.2081G>T	c.(2080-2082)AGA>ATA	p.R694I	KLHL4_uc004efa.2_Missense_Mutation_p.R694I	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	694	Kelch 6.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GATGCACAGAGAAATGAATGG	0.318													19	26	---	---	---	---	PASS	T	86919919	T	T	86919919	3	4	84	1	0	0	0	0	1	0	0	0	8391	942	33	2	2119	2	KLHL4	23	86919919	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	74185643	86919919	68350641	166	32303										
XPNPEP2	7512	broad.mit.edu	37	chrX	128885770	128885770	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	ccctataaccccttcttctaTtcctacacgctgctcacaga	3	17	3	1			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chrX:128885770T>C	uc004eut.1	+	9	1033	c.789T>C	c.(787-789)TAT>TAC	p.Y263Y		NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound	263					cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						CCTTCTTCTATTCCTACACGC	0.478													24	162	---	---	---	---	PASS	C	128885770	C	C	128885770	2	2	84	1	0	0	0	0	0	0	0	1	17440	1500	52	5		5	XPNPEP2	23	128885770	Silent	SNP	T	TCGA-39-5021-01A-01D-1441-08	41965851	128885770	26384790	167	32304										
MAP7D3	79649	broad.mit.edu	37	chrX	135303015	135303015	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	atatgtttttggctctttacGgacctggctggtaccatctt	9	9	2	0			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chrX:135303015G>T	uc004ezt.2	-	16	2486	c.2395C>A	c.(2395-2397)CGT>AGT	p.R799S	MAP7D3_uc004ezs.2_Missense_Mutation_p.R763S|MAP7D3_uc011mwc.1_Missense_Mutation_p.R781S|MAP7D3_uc010nsa.1_Missense_Mutation_p.R757S	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	799						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					GGCTCTTTACGGACCTGGCTG	0.388													99	116	---	---	---	---	PASS	T	135303015	T	T	135303015	3	4	84	1	0	0	0	0	1	0	0	0	9269	1116	39	1	247	1	MAP7D3	23	135303015	Missense_Mutation	SNP	G	TCGA-39-5021-01A-01D-1441-08	6417245	135303015	19967545	168	32305										
F9	2158	broad.mit.edu	37	chrX	138619203	138619203	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.102409638554217	17	0.0498592789956855	1.61150632339657	1.86141906873614	1.50154471544715	0.236706211941847	0.616132345789808	6	gaaaacgccaacaaaattctGaatcggccaaagaggtataa	8	8	1	2			TCGA-39-5021-01A-01D-1441-08	TCGA-39-5021-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	4d8b4c6f-e6eb-4799-b64d-119afc691e3d	473e6ff7-6808-48ce-b586-05a46ea9f72e	g.chrX:138619203G>C	uc004fas.1	+	2	152	c.123G>C	c.(121-123)CTG>CTC	p.L41L	F9_uc004fat.1_Silent_p.L41L	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	41					blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	ACAAAATTCTGAATCGGCCAA	0.313													11	128	---	---	---	---	PASS	C	138619203	C	C	138619203	2	2	84	1	0	0	0	0	0	0	0	1	5351	1277	45	2		2	F9	23	138619203	Silent	SNP	G	TCGA-39-5021-01A-01D-1441-08	3316188	138619203	16651357	169	32306										
TAS1R2	80834	broad.mit.edu	37	chr1	19168341	19168341	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctcttggaacacatggacatAgggatctggagggaggaggg	17	6	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:19168341A>T	uc001bba.1	-	5	1474	c.1473T>A	c.(1471-1473)CCT>CCA	p.P491P		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	491	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	ACATGGACATAGGGATCTGGA	0.592													14	103	---	---	---	---	PASS	T	19168341	T	T	19168341	2	4	85	1	0	0	0	0	0	0	0	1	15560	407	15	5		5	TAS1R2	1	19168341	Silent	SNP	A	TCGA-39-5022-01A-21D-1817-08		19168341	230082280	1	32307										
ARID1A	8289	broad.mit.edu	37	chr1	27094437	27094437	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctgctgtgggtaggaaacctCtggacctctatcgcctctat	10	12	3	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:27094437C>G	uc001bmv.1	+	11	3518	c.3145C>G	c.(3145-3147)CTG>GTG	p.L1049V	ARID1A_uc001bmt.1_Missense_Mutation_p.L1049V|ARID1A_uc001bmu.1_Missense_Mutation_p.L1049V|ARID1A_uc001bmw.1_Missense_Mutation_p.L666V	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1049	ARID.				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)		TAGGAAACCTCTGGACCTCTA	0.547			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								6	175	---	---	---	---	PASS	G	27094437	G	G	27094437	3	3	85	1	0	0	0	0	1	0	0	0	913	912	32	2	3187	2	ARID1A	1	27094437	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	7926096	27094437	222156184	2	32308										
SYTL1	84958	broad.mit.edu	37	chr1	27675619	27675619	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccctaaaggcttcagatcctGaggaggcgtcccaggcccag	12	14	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:27675619G>C	uc001bnw.1	+	6	675	c.508G>C	c.(508-510)GAG>CAG	p.E170Q	SYTL1_uc001bnv.1_Missense_Mutation_p.E158Q|SYTL1_uc009vsu.1_Missense_Mutation_p.E158Q|SYTL1_uc001bnx.2_Missense_Mutation_p.E170Q|SYTL1_uc009vsv.1_Missense_Mutation_p.E170Q	NM_032872	NP_116261	Q8IYJ3	SYTL1_HUMAN	synaptotagmin-like 1	170					exocytosis|intracellular protein transport	extrinsic to plasma membrane|melanosome|soluble fraction	neurexin binding|Rab GTPase binding			ovary(1)	1		Colorectal(325;0.000147)|all_lung(284;0.000366)|Lung NSC(340;0.000548)|Renal(390;0.00211)|Breast(348;0.0115)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0908)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.5e-28)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.0013)|KIRC - Kidney renal clear cell carcinoma(1967;0.00158)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		TTCAGATCCTGAGGAGGCGTC	0.617													6	97	---	---	---	---	PASS	C	27675619	C	C	27675619	3	2	85	1	0	0	0	0	1	0	0	0	15479	1291	45	2	490	2	SYTL1	1	27675619	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	581182	27675619	221575002	3	32309										
AHDC1	27245	broad.mit.edu	37	chr1	27877043	27877043	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gggaagaccactaccacgttCcgcccattgttcttcatctt	7	14	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:27877043C>G	uc009vsy.2	-	6	2553	c.1584G>C	c.(1582-1584)CGG>CGC	p.R528R	AHDC1_uc009vsz.1_Silent_p.R528R	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	528							DNA binding			central_nervous_system(1)	1		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		CTACCACGTTCCGCCCATTGT	0.622													5	78	---	---	---	---	PASS	G	27877043	G	G	27877043	2	3	85	1	0	0	0	0	0	0	0	1	412	842	30	2		2	AHDC1	1	27877043	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	201424	27877043	221373578	4	32310										
EYA3	2140	broad.mit.edu	37	chr1	28343723	28343723	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tggcaattgtagaagaagtaGatatcaggctggcatttgtg	13	4	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:28343723G>C	uc001bpi.1	-	8	692	c.527C>G	c.(526-528)TCT>TGT	p.S176C	EYA3_uc010ofs.1_Missense_Mutation_p.S123C|EYA3_uc010oft.1_Missense_Mutation_p.S130C|EYA3_uc001bpj.2_Missense_Mutation_p.S130C|EYA3_uc001bpk.1_RNA|EYA3_uc010ofu.1_RNA	NM_001990	NP_001981	Q99504	EYA3_HUMAN	eyes absent 3	176					anatomical structure morphogenesis|double-strand break repair|histone dephosphorylation|multicellular organismal development|positive regulation of DNA repair|regulation of transcription, DNA-dependent|response to ionizing radiation|transcription, DNA-dependent|visual perception	cytoplasm	metal ion binding|protein binding|protein tyrosine phosphatase activity			ovary(2)|skin(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000414)|Lung NSC(340;0.000432)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0484)|OV - Ovarian serous cystadenocarcinoma(117;1.25e-24)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;2.8e-06)|STAD - Stomach adenocarcinoma(196;0.00364)|KIRC - Kidney renal clear cell carcinoma(1967;0.00378)|BRCA - Breast invasive adenocarcinoma(304;0.00718)|READ - Rectum adenocarcinoma(331;0.0642)		AGAAGAAGTAGATATCAGGCT	0.378													5	221	---	---	---	---	PASS	C	28343723	C	C	28343723	3	2	85	1	0	0	0	0	1	0	0	0	5330	942	33	2	1238	2	EYA3	1	28343723	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	466680	28343723	220906898	5	32311										
HMGB4	127540	broad.mit.edu	37	chr1	34329862	34329862	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttcactttttgctgaattacAgaaacaaattcaaggagcag	7	7	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:34329862A>G	uc001bxp.2	+	2	1813	c.70A>G	c.(70-72)AGA>GGA	p.R24G	CSMD2_uc001bxm.1_Intron|CSMD2_uc001bxn.1_Intron|HMGB4_uc001bxq.2_Splice_Site	NM_145205	NP_660206	Q8WW32	HMGB4_HUMAN	HMG2 like isoform 1	24						nucleus	DNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				GCTGAATTACAGAAACAAATT	0.378													10	112	---	---	---	---	PASS	G	34329862	G	G	34329862	3	3	85	1	0	0	0	0	1	0	0	0	7228	180	7	5	72	5	HMGB4	1	34329862	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	5986139	34329862	214920759	6	32312										
CLSPN	63967	broad.mit.edu	37	chr1	36226162	36226162	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gccttcaccctccagggcatGaggttcaaatgctacaagcc	9	14	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:36226162G>A	uc001bzi.2	-	8	1440	c.1360C>T	c.(1360-1362)CAT>TAT	p.H454Y	CLSPN_uc009vux.2_Missense_Mutation_p.H454Y	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	454					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TCCAGGGCATGAGGTTCAAAT	0.502													5	177	---	---	---	---	PASS	A	36226162	A	A	36226162	3	1	85	1	0	0	0	0	1	0	0	0	3560	1290	45	2	2731	2	CLSPN	1	36226162	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1896300	36226162	213024459	7	32313										
MACF1	23499	broad.mit.edu	37	chr1	39851507	39851507	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cagacactgtgcgatgaactCtcagtgctcattggtgagca	11	10	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:39851507C>G	uc010oiu.1	+	21	9701	c.9570C>G	c.(9568-9570)CTC>CTG	p.L3190L	MACF1_uc010ois.1_Silent_p.L2688L|MACF1_uc001cda.1_Silent_p.L2575L|MACF1_uc001cdc.1_Silent_p.L1754L	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	4755					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)			GCGATGAACTCTCAGTGCTCA	0.488													3	134	---	---	---	---	PASS	G	39851507	G	G	39851507	2	3	85	1	0	0	0	0	0	0	0	1	9144	900	32	2		2	MACF1	1	39851507	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	3625345	39851507	209399114	8	32314										
SMAP2	64744	broad.mit.edu	37	chr1	40881009	40881009	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccctagagaaggatttagatCtgttggcctctgttccatcc	9	11	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:40881009C>G	uc001cfj.2	+	7	702	c.637C>G	c.(637-639)CTG>GTG	p.L213V	SMAP2_uc010ojh.1_Missense_Mutation_p.L213V|SMAP2_uc001cfk.2_Missense_Mutation_p.L183V|SMAP2_uc010oji.1_Missense_Mutation_p.L130V|SMAP2_uc010ojj.1_Missense_Mutation_p.L29V	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	213	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)			GGATTTAGATCTGTTGGCCTC	0.453													18	349	---	---	---	---	PASS	G	40881009	G	G	40881009	3	3	85	1	0	0	0	0	1	0	0	0	14767	912	32	2	663	2	SMAP2	1	40881009	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1029502	40881009	208369612	9	32315										
CYP4A22	284541	broad.mit.edu	37	chr1	47610264	47610264	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cagacaaggacctccgtgctGaggtggacacgttcatgttt	12	10	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:47610264G>C	uc001cqv.1	+	8	991	c.940G>C	c.(940-942)GAG>CAG	p.E314Q	CYP4A22_uc009vyo.2_Missense_Mutation_p.E314Q|CYP4A22_uc009vyp.2_Intron	NM_001010969	NP_001010969	Q5TCH4	CP4AM_HUMAN	cytochrome P450, family 4, subfamily A,	314						endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding			skin(2)|ovary(1)|breast(1)	4						CCTCCGTGCTGAGGTGGACAC	0.552													4	172	---	---	---	---	PASS	C	47610264	C	C	47610264	3	2	85	1	0	0	0	0	1	0	0	0	4184	1291	45	2	970	2	CYP4A22	1	47610264	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	6729255	47610264	201640357	10	32316										
SLC44A5	204962	broad.mit.edu	37	chr1	75716933	75716933	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	taggtttagcaacacggaggGactggtacagcgtaacaggt	14	7	0	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:75716933G>A	uc001dgu.2	-	7	451	c.307C>T	c.(307-309)CCC>TCC	p.P103S	SLC44A5_uc001dgt.2_Missense_Mutation_p.P103S|SLC44A5_uc001dgs.2_Missense_Mutation_p.P61S|SLC44A5_uc001dgr.2_Missense_Mutation_p.P61S|SLC44A5_uc010oqz.1_Missense_Mutation_p.P142S|SLC44A5_uc010ora.1_Missense_Mutation_p.P97S|SLC44A5_uc010orb.1_5'UTR	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	103	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						AACACGGAGGGACTGGTACAG	0.408													5	109	---	---	---	---	PASS	A	75716933	A	A	75716933	3	1	85	1	0	0	0	0	1	0	0	0	14639	1174	41	2	2035	2	SLC44A5	1	75716933	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	28106669	75716933	173533688	11	32317										
ST6GALNAC3	256435	broad.mit.edu	37	chr1	76779647	76779647	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cacatacaggcggccccttcGaactcactatggatacataa	7	13	1	0	rs142835503		TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:76779647G>T	uc001dhh.2	+	2	339	c.176G>T	c.(175-177)CGA>CTA	p.R59L	ST6GALNAC3_uc001dhg.3_Missense_Mutation_p.R59L|ST6GALNAC3_uc010orh.1_Intron	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	59	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						CGGCCCCTTCGAACTCACTAT	0.433													6	98	---	---	---	---	PASS	T	76779647	T	T	76779647	3	4	85	1	0	0	0	0	1	0	0	0	15224	1058	37	2	182	2	ST6GALNAC3	1	76779647	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1062714	76779647	172470974	12	32318										
BCAR3	8412	broad.mit.edu	37	chr1	94049605	94049605	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtagctctctgactggtgggCtttgagggacaaggctcttc	14	9	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:94049605C>G	uc001dpz.2	-	6	1278	c.1003G>C	c.(1003-1005)GCC>CCC	p.A335P	BCAR3_uc001dqa.2_Missense_Mutation_p.A335P|BCAR3_uc001dqb.2_Missense_Mutation_p.A335P|BCAR3_uc001dpx.3_Missense_Mutation_p.A11P|BCAR3_uc001dpy.2_Missense_Mutation_p.A244P|BCAR3_uc009wdm.1_Missense_Mutation_p.A11P	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	335					response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		GACTGGTGGGCTTTGAGGGAC	0.512													5	81	---	---	---	---	PASS	G	94049605	G	G	94049605	3	3	85	1	0	0	0	0	1	0	0	0	1349	797	28	4	1502	4	BCAR3	1	94049605	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	17269958	94049605	155201016	13	32319										
AGL	178	broad.mit.edu	37	chr1	100368264	100368264	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gccattgtttgaagtcatacAggaagcaatgcaaaaacaca	8	8	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:100368264A>G	uc001dsi.1	+	27	4014	c.3614A>G	c.(3613-3615)CAG>CGG	p.Q1205R	AGL_uc001dsj.1_Missense_Mutation_p.Q1205R|AGL_uc001dsk.1_Missense_Mutation_p.Q1205R|AGL_uc001dsl.1_Missense_Mutation_p.Q1205R|AGL_uc001dsm.1_Missense_Mutation_p.Q1189R|AGL_uc001dsn.1_Missense_Mutation_p.Q1188R	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	1205	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		GAAGTCATACAGGAAGCAATG	0.408													4	107	---	---	---	---	PASS	G	100368264	G	G	100368264	3	3	85	1	0	0	0	0	1	0	0	0	384	188	7	5	3785	5	AGL	1	100368264	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	6318659	100368264	148882357	14	32320										
CD58	965	broad.mit.edu	37	chr1	117087219	117087219	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	atttgttgggaaaaacagctGatgaaacctaggagagaaaa	11	4	0	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:117087219G>A	uc001egm.2	-	2	199	c.78C>T	c.(76-78)ATC>ATT	p.I26I	CD58_uc001egn.2_RNA|CD58_uc010owy.1_Silent_p.I26I|CD58_uc001ego.1_RNA|CD58_uc001egp.3_Silent_p.I26I	NM_001779	NP_001770	P19256	LFA3_HUMAN	CD58 molecule isoform 1	26					blood coagulation|cell-cell adhesion|leukocyte migration	anchored to membrane|integral to plasma membrane	protein binding				0	Lung SC(450;0.225)	all_cancers(81;0.000363)|all_lung(203;0.000118)|all_epithelial(167;0.000149)|Lung NSC(69;0.000577)		Lung(183;0.0086)|LUSC - Lung squamous cell carcinoma(189;0.0528)|Colorectal(144;0.0775)|all cancers(265;0.109)|Epithelial(280;0.118)|COAD - Colon adenocarcinoma(174;0.121)		AAAAACAGCTGATGAAACCTA	0.348													5	25	---	---	---	---	PASS	A	117087219	A	A	117087219	2	1	85	1	0	0	0	0	0	0	0	1	3025	1280	45	2		2	CD58	1	117087219	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	16718955	117087219	132163402	15	32321										
TRIM45	80263	broad.mit.edu	37	chr1	117660749	117660749	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gcactggcctgctttctcctGaggacagaagcgtatcttat	10	11	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:117660749G>C	uc001egz.2	-	2	1717	c.1129C>G	c.(1129-1131)CAG>GAG	p.Q377E	TRIM45_uc009whe.2_Missense_Mutation_p.Q377E|TRIM45_uc001eha.2_Missense_Mutation_p.Q273E	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	377						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		GCTTTCTCCTGAGGACAGAAG	0.468													4	189	---	---	---	---	PASS	C	117660749	C	C	117660749	3	2	85	1	0	0	0	0	1	0	0	0	16517	1299	45	2	633	2	TRIM45	1	117660749	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	573530	117660749	131589872	16	32322										
PPIAL4G	644591	broad.mit.edu	37	chr1	143767819	143767819	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aagggcttgccgtcgacggtGatgtcaaaaaagatgacgga	14	7	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:143767819G>A	uc001ejt.2	-	1	63	c.30C>T	c.(28-30)ATC>ATT	p.I10I		NM_001123068	NP_001116540	A2BFH1	PAL4G_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	10	PPIase cyclophilin-type.				protein folding	cytoplasm	peptidyl-prolyl cis-trans isomerase activity				0						CGTCGACGGTGATGTCAAAAA	0.443													6	284	---	---	---	---	PASS	A	143767819	A	A	143767819	2	1	85	1	0	0	0	0	0	0	0	1	12318	1280	45	2		2	PPIAL4G	1	143767819	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	26107070	143767819	105482802	17	32323										
PDE4DIP	9659	broad.mit.edu	37	chr1	144952297	144952297	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgactcccttcagtttctctGagagctccaggttacactcc	7	14	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:144952297G>C	uc001elw.3	-	4	713	c.422C>G	c.(421-423)TCA>TGA	p.S141*	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Nonsense_Mutation_p.S207*|PDE4DIP_uc001emc.1_Nonsense_Mutation_p.S141*|PDE4DIP_uc001emd.1_Nonsense_Mutation_p.S141*|PDE4DIP_uc001emg.1_Nonsense_Mutation_p.S141*|PDE4DIP_uc001emh.2_Nonsense_Mutation_p.S278*	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	141					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CAGTTTCTCTGAGAGCTCCAG	0.522			T	PDGFRB	MPD								3	109	---	---	---	---	PASS	C	144952297	C	C	144952297	4	2	85	1	0	0	0	0	0	1	0	0	11643	1294	45	2	7925	2	PDE4DIP	1	144952297	Nonsense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1184478	144952297	104298324	18	32324										
VPS45	11311	broad.mit.edu	37	chr1	150048382	150048382	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	atgaacaggaagttgtggctGaggttcaggtaaacatattg	13	4	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:150048382G>C	uc001etp.2	+	4	934	c.361G>C	c.(361-363)GAG>CAG	p.E121Q	VPS45_uc010pbp.1_RNA|VPS45_uc010pbq.1_Missense_Mutation_p.E85Q|VPS45_uc010pbs.1_Missense_Mutation_p.E85Q|VPS45_uc001etq.2_5'Flank|VPS45_uc009wlm.1_Missense_Mutation_p.E121Q|VPS45_uc010pbr.1_Missense_Mutation_p.E85Q	NM_007259	NP_009190	Q9NRW7	VPS45_HUMAN	vacuolar protein sorting 45A	121					blood coagulation|intracellular protein transport|vesicle docking involved in exocytosis	endosome membrane|Golgi membrane|integral to membrane of membrane fraction				central_nervous_system(1)|skin(1)	2	Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			AGTTGTGGCTGAGGTTCAGGT	0.388													6	152	---	---	---	---	PASS	C	150048382	C	C	150048382	3	2	85	1	0	0	0	0	1	0	0	0	17208	1291	45	2	375	2	VPS45	1	150048382	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	5096085	150048382	99202239	19	32325										
CDC42SE1	56882	broad.mit.edu	37	chr1	151026774	151026774	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tctcggtttcccttggatctCatctgctcctgaactgcacc	7	15	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:151026774C>G	uc001ewo.2	-	5	759	c.189G>C	c.(187-189)ATG>ATC	p.M63I	CDC42SE1_uc001ewp.2_Missense_Mutation_p.M63I	NM_001038707	NP_001033796	Q9NRR8	C42S1_HUMAN	CDC42 small effector 1	63					phagocytosis|regulation of cell shape|signal transduction	cytoplasm|cytoskeleton|plasma membrane	GTPase inhibitor activity				0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CCTTGGATCTCATCTGCTCCT	0.448													9	294	---	---	---	---	PASS	G	151026774	G	G	151026774	3	3	85	1	0	0	0	0	1	0	0	0	3079	826	29	2	54	2	CDC42SE1	1	151026774	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	978392	151026774	98223847	20	32326										
SEMA6C	10500	broad.mit.edu	37	chr1	151108092	151108092	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agggctgtaggcatcaatctCttccaggaggatgggctcag	14	9	3	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:151108092C>G	uc001ewu.2	-	14	1708	c.1408G>C	c.(1408-1410)GAG>CAG	p.E470Q	SEMA6C_uc001ewv.2_Missense_Mutation_p.E470Q|SEMA6C_uc001eww.2_Missense_Mutation_p.E430Q|SEMA6C_uc010pcq.1_Missense_Mutation_p.E470Q	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	470	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GCATCAATCTCTTCCAGGAGG	0.602													4	180	---	---	---	---	PASS	G	151108092	G	G	151108092	3	3	85	1	0	0	0	0	1	0	0	0	14041	922	32	2	1508	2	SEMA6C	1	151108092	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	81318	151108092	98142529	21	32327										
PIP5K1A	8394	broad.mit.edu	37	chr1	151196730	151196730	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttcccccctagcagcatctgGaatcaagagacccatggcat	8	14	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:151196730G>T	uc001exj.2	+	2	547	c.95G>T	c.(94-96)GGA>GTA	p.G32V	PIP5K1A_uc001exi.2_Missense_Mutation_p.G31V|PIP5K1A_uc010pcu.1_Missense_Mutation_p.G32V|PIP5K1A_uc001exk.2_Missense_Mutation_p.G31V	NM_001135638	NP_001129110	Q99755	PI51A_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	32					phospholipid biosynthetic process|signal transduction	endomembrane system|Golgi stack|lamellipodium|nuclear speck	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|kinase binding			ovary(1)|central_nervous_system(1)|skin(1)	3	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.181)			GCAGCATCTGGAATCAAGAGA	0.383													8	186	---	---	---	---	PASS	T	151196730	T	T	151196730	3	4	85	1	0	0	0	0	1	0	0	0	11939	1174	41	2	101	2	PIP5K1A	1	151196730	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	88638	151196730	98053891	22	32328										
FLG	2312	broad.mit.edu	37	chr1	152281874	152281874	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agaactatctaccgattgctCatagtgggatccctgccttc	8	12	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:152281874C>G	uc001ezu.1	-	3	5524	c.5488G>C	c.(5488-5490)GAG>CAG	p.E1830Q		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1830	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACCGATTGCTCATAGTGGGAT	0.582									Ichthyosis				7	802	---	---	---	---	PASS	G	152281874	G	G	152281874	3	3	85	1	0	0	0	0	1	0	0	0	5922	835	29	2	6701	2	FLG	1	152281874	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1085144	152281874	96968747	23	32329										
FLG2	388698	broad.mit.edu	37	chr1	152329650	152329650	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gacttgtttattctttctctCagttctacagagctggaacc	7	10	4	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:152329650C>T	uc001ezw.3	-	3	685	c.612G>A	c.(610-612)CTG>CTA	p.L204L	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	204	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCTTTCTCTCAGTTCTACAG	0.468													11	358	---	---	---	---	PASS	T	152329650	T	T	152329650	2	4	85	1	0	0	0	0	0	0	0	1	5923	813	29	2		2	FLG2	1	152329650	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	47776	152329650	96920971	24	32330										
CHRNB2	1141	broad.mit.edu	37	chr1	154542077	154542077	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtgtcactggcccagctcatCagtgtggtgagtagaggtcc	14	10	3	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:154542077C>T	uc001ffg.2	+	2	468	c.204C>T	c.(202-204)ATC>ATT	p.I68I		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	68	Extracellular (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	CCCAGCTCATCAGTGTGGTGA	0.542													7	63	---	---	---	---	PASS	T	154542077	T	T	154542077	2	4	85	1	0	0	0	0	0	0	0	1	3391	816	29	2		2	CHRNB2	1	154542077	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	2212427	154542077	94708544	25	32331										
KCNN3	3782	broad.mit.edu	37	chr1	154794573	154794573	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gggggcacctacctggacttCacgtgtgtggtaggcgatga	16	9	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:154794573C>T	uc001ffp.2	-	2	1335	c.1021G>A	c.(1021-1023)GAA>AAA	p.E341K	KCNN3_uc001ffo.2_Missense_Mutation_p.E36K|KCNN3_uc009wox.1_Missense_Mutation_p.E341K	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	346						integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			ACCTGGACTTCACGTGTGTGG	0.562													3	70	---	---	---	---	PASS	T	154794573	T	T	154794573	3	4	85	1	0	0	0	0	1	0	0	0	8080	835	29	2	1202	2	KCNN3	1	154794573	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	252496	154794573	94456048	26	32332										
CCT3	7203	broad.mit.edu	37	chr1	156304662	156304662	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggaagagataagcctaccttCatcatggacttgggtcccaa	10	10	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:156304662C>T	uc001fol.1	-	3	361	c.141G>A	c.(139-141)ATG>ATA	p.M47I	CCT3_uc001fom.1_Missense_Mutation_p.M47I|CCT3_uc001fon.1_Intron|CCT3_uc010phj.1_Missense_Mutation_p.M1I|CCT3_uc010phk.1_Missense_Mutation_p.M1I|CCT3_uc010phl.1_Missense_Mutation_p.M1I|C1orf182_uc001foo.2_5'Flank	NM_005998	NP_005989	P49368	TCPG_HUMAN	chaperonin containing TCP1, subunit 3 isoform a	47					'de novo' posttranslational protein folding	cytoskeleton|cytosol|plasma membrane	ATP binding|unfolded protein binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					AGCCTACCTTCATCATGGACT	0.373													4	138	---	---	---	---	PASS	T	156304662	T	T	156304662	3	4	85	1	0	0	0	0	1	0	0	0	2954	826	29	2	1544	2	CCT3	1	156304662	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1510089	156304662	92945959	27	32333										
OR6N2	81442	broad.mit.edu	37	chr1	158747222	158747222	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gctgtataccacaactccaaGaaggaaagaacactgacaaa	7	10	0	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:158747222G>A	uc010pir.1	-	1	204	c.204C>T	c.(202-204)TTC>TTT	p.F68F		NM_001005278	NP_001005278	Q8NGY6	OR6N2_HUMAN	olfactory receptor, family 6, subfamily N,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_hematologic(112;0.0378)					ACAACTCCAAGAAGGAAAGAA	0.443													12	233	---	---	---	---	PASS	A	158747222	A	A	158747222	2	1	85	1	0	0	0	0	0	0	0	1	11207	933	33	2		2	OR6N2	1	158747222	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	2442560	158747222	90503399	28	32334										
FCGR2A	2212	broad.mit.edu	37	chr1	161487879	161487879	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	accccagggcacctactgacGatgataaaaacatctacctg	7	13	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:161487879G>A	uc001gan.2	+	7	948	c.895G>A	c.(895-897)GAT>AAT	p.D299N	FCGR2A_uc001gam.2_Missense_Mutation_p.D298N|FCGR2A_uc001gao.2_RNA	NM_001136219	NP_001129691	P12318	FCG2A_HUMAN	Fc fragment of IgG, low affinity IIa, receptor	299	Cytoplasmic (Potential).					integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	ACCTACTGACGATGATAAAAA	0.383													4	148	---	---	---	---	PASS	A	161487879	A	A	161487879	3	1	85	1	0	0	0	0	1	0	0	0	5781	1058	37	2	921	2	FCGR2A	1	161487879	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2740657	161487879	87762742	29	32335										
FAM5B	57795	broad.mit.edu	37	chr1	177250629	177250629	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcaattctaagctgccaaacCctgtggaatatgagaccggc	9	11	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:177250629C>G	uc001glf.2	+	8	2629	c.2317C>G	c.(2317-2319)CCT>GCT	p.P773A	FAM5B_uc001glg.2_Missense_Mutation_p.P668A	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	773						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						GCTGCCAAACCCTGTGGAATA	0.532													5	150	---	---	---	---	PASS	G	177250629	G	G	177250629	3	3	85	1	0	0	0	0	1	0	0	0	5593	623	22	4	2343	4	FAM5B	1	177250629	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	15762750	177250629	71999992	30	32336										
GLUL	2752	broad.mit.edu	37	chr1	182353797	182353797	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtccaggcctcccttgggatCataggcacggatgtggtact	13	11	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:182353797C>G	uc001gpa.1	-	7	1077	c.865G>C	c.(865-867)GAT>CAT	p.D289H	GLUL_uc010pnt.1_Missense_Mutation_p.D76H|GLUL_uc001gpb.1_Missense_Mutation_p.D289H|GLUL_uc001gpc.1_Missense_Mutation_p.D289H|GLUL_uc001gpd.1_Missense_Mutation_p.D289H	NM_001033056	NP_001028228	P15104	GLNA_HUMAN	glutamine synthetase	289					cell proliferation|glutamine biosynthetic process|neurotransmitter uptake	cytosol|Golgi apparatus|mitochondrion	ATP binding|glutamate decarboxylase activity|glutamate-ammonia ligase activity|identical protein binding				0					Asparaginase(DB00023)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)|L-Methionine(DB00134)	CCCTTGGGATCATAGGCACGG	0.512													4	148	---	---	---	---	PASS	G	182353797	G	G	182353797	3	3	85	1	0	0	0	0	1	0	0	0	6478	826	29	2	260	2	GLUL	1	182353797	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	5103168	182353797	66896824	31	32337										
RNASEL	6041	broad.mit.edu	37	chr1	182551334	182551334	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcttcattactttgagctttCagatcctcaaatgagatgct	6	9	4	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:182551334C>G	uc001gpj.1	-	3	1793	c.1626G>C	c.(1624-1626)CTG>CTC	p.L542L	RNASEL_uc009wxz.1_Silent_p.L542L|RNASEL_uc001gpk.2_Silent_p.L542L|RNASEL_uc009wya.1_3'UTR	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	542	Protein kinase.				mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						TTTGAGCTTTCAGATCCTCAA	0.368									Hereditary_Prostate_Cancer				7	248	---	---	---	---	PASS	G	182551334	G	G	182551334	2	3	85	1	0	0	0	0	0	0	0	1	13416	813	29	2		2	RNASEL	1	182551334	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	197537	182551334	66699287	32	32338										
LGR6	59352	broad.mit.edu	37	chr1	202288069	202288069	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tctctgatgtggatctcattCtggaagcttctgaagctggg	12	8	4	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:202288069C>G	uc001gxu.2	+	18	2638	c.2638C>G	c.(2638-2640)CTG>GTG	p.L880V	LGR6_uc001gxv.2_Missense_Mutation_p.L828V|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Missense_Mutation_p.L741V	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	880	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						GGATCTCATTCTGGAAGCTTC	0.632													3	130	---	---	---	---	PASS	G	202288069	G	G	202288069	3	3	85	1	0	0	0	0	1	0	0	0	8758	912	32	2	2855	2	LGR6	1	202288069	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	19736735	202288069	46962552	33	32339										
C1orf116	79098	broad.mit.edu	37	chr1	207196391	207196391	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggcttctgaaggagtctgctCtctttcctgggagctggatg	14	9	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:207196391C>G	uc001hfd.2	-	4	977	c.718G>C	c.(718-720)GAG>CAG	p.E240Q	C1orf116_uc009xcb.1_5'UTR	NM_023938	NP_076427	Q9BW04	SARG_HUMAN	specifically androgen-regulated protein isoform	240						cytoplasm|plasma membrane	receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Prostate(682;0.19)					GGAGTCTGCTCTCTTTCCTGG	0.602													10	292	---	---	---	---	PASS	G	207196391	G	G	207196391	3	3	85	1	0	0	0	0	1	0	0	0	1989	922	32	2	1091	2	C1orf116	1	207196391	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	4908322	207196391	42054230	34	32340										
CR2	1380	broad.mit.edu	37	chr1	207644397	207644397	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acaaaaccccagcaccaattTgttagaccagatgtcaactc	5	13	1	2	rs147378770	byFrequency	TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:207644397T>G	uc001hfw.2	+	8	1552	c.1458T>G	c.(1456-1458)TTT>TTG	p.F486L	CR2_uc001hfv.2_Missense_Mutation_p.F486L|CR2_uc009xch.2_Missense_Mutation_p.F486L|CR2_uc009xci.1_5'UTR	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	486	Sushi 8.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						AGCACCAATTTGTTAGACCAG	0.453													6	158	---	---	---	---	PASS	G	207644397	G	G	207644397	3	3	85	1	0	0	0	0	1	0	0	0	3842	1809	63	5	1488	5	CR2	1	207644397	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	448006	207644397	41606224	35	32341										
USH2A	7399	broad.mit.edu	37	chr1	215847680	215847680	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgctgaggggctggttcgatCtttgacaagaggactcaaaa	13	7	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:215847680C>G	uc001hku.1	-	63	13960	c.13573G>C	c.(13573-13575)GAT>CAT	p.D4525H		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4525	Fibronectin type-III 30.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTGGTTCGATCTTTGACAAGA	0.522										HNSCC(13;0.011)			5	152	---	---	---	---	PASS	G	215847680	G	G	215847680	3	3	85	1	0	0	0	0	1	0	0	0	17033	913	32	2	2075	2	USH2A	1	215847680	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	8203283	215847680	33402941	36	32342										
MIA3	375056	broad.mit.edu	37	chr1	222828095	222828095	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgaggcagaaagtggagattCtgaatgagctctatcagcag	13	6	3	5			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:222828095C>T	uc001hnl.2	+	18	4576	c.4567C>T	c.(4567-4569)CTG>TTG	p.L1523L	MIA3_uc001hnm.2_Silent_p.L401L	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	1523	Cytoplasmic (Potential).|Potential.				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		AGTGGAGATTCTGAATGAGCT	0.393													4	88	---	---	---	---	PASS	T	222828095	T	T	222828095	2	4	85	1	0	0	0	0	0	0	0	1	9565	912	32	2		2	MIA3	1	222828095	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	6980415	222828095	26422526	37	32343										
DISC1	27185	broad.mit.edu	37	chr1	231830302	231830302	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cgatgtctctctcggcccttCagtctcttggctacacgggt	10	14	4	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:231830302C>T	uc001huz.2	+	2	851	c.798C>T	c.(796-798)TTC>TTT	p.F266F	TSNAX-DISC1_uc010pwe.1_Silent_p.F221F|TSNAX-DISC1_uc010pwf.1_Silent_p.F221F|TSNAX-DISC1_uc010pwg.1_Silent_p.F255F|TSNAX-DISC1_uc010pwh.1_Silent_p.F221F|TSNAX-DISC1_uc010pwi.1_Silent_p.F221F|TSNAX-DISC1_uc010pwj.1_Silent_p.F255F|TSNAX-DISC1_uc010pwk.1_Silent_p.F255F|TSNAX-DISC1_uc010pwl.1_RNA|DISC1_uc010pwo.1_Silent_p.F266F|DISC1_uc010pwp.1_Silent_p.F266F|DISC1_uc010pwq.1_Silent_p.F266F|DISC1_uc010pwr.1_Silent_p.F266F|DISC1_uc010pws.1_Silent_p.F266F|DISC1_uc010pwt.1_Silent_p.F266F|DISC1_uc010pwu.1_Intron|DISC1_uc010pwv.1_RNA|DISC1_uc010pww.1_Silent_p.F266F|DISC1_uc010pwx.1_RNA|DISC1_uc010pwy.1_RNA|DISC1_uc010pwz.1_RNA|DISC1_uc010pxa.1_RNA|DISC1_uc001huy.2_Silent_p.F266F|DISC1_uc010pxb.1_Silent_p.F266F|DISC1_uc010pxc.1_Silent_p.F266F|DISC1_uc010pxd.1_5'UTR|DISC1_uc010pxe.1_Silent_p.F266F|DISC1_uc009xfr.2_Silent_p.F221F|DISC1_uc010pxf.1_Silent_p.F266F|DISC1_uc010pxg.1_Silent_p.F266F|DISC1_uc010pxh.1_Silent_p.F266F|DISC1_uc010pxi.1_RNA|DISC1_uc010pxj.1_5'UTR|DISC1_uc010pxk.1_RNA|DISC1_uc010pxl.1_RNA|DISC1_uc010pxm.1_Silent_p.F266F|DISC1_uc010pxn.1_5'UTR|DISC1_uc001hva.2_Silent_p.F266F|DISC1_uc010pwm.1_Silent_p.F266F|DISC1_uc001hux.1_Silent_p.F266F|DISC1_uc001hvc.3_Silent_p.F266F|DISC1_uc010pwn.1_Silent_p.F266F	NM_018662	NP_061132	Q9NRI5	DISC1_HUMAN	disrupted in schizophrenia 1 isoform L	266	Interaction with MAP1A.				microtubule cytoskeleton organization|neuron migration|positive regulation of neuroblast proliferation|positive regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	centrosome|microtubule	protein binding			skin(1)	1		all_cancers(173;0.0208)|Prostate(94;0.0975)				CTCGGCCCTTCAGTCTCTTGG	0.617													4	74	---	---	---	---	PASS	T	231830302	T	T	231830302	2	4	85	1	0	0	0	0	0	0	0	1	4538	825	29	2		2	DISC1	1	231830302	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	9002207	231830302	17420319	38	32344										
RYR2	6262	broad.mit.edu	37	chr1	237886440	237886440	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttctgcagttggaggatcctGctattagatggcaaatggct	12	7	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:237886440G>A	uc001hyl.1	+	74	10687	c.10567G>A	c.(10567-10569)GCT>ACT	p.A3523T	RYR2_uc010pxz.1_Missense_Mutation_p.A478T	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3523					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)			GGAGGATCCTGCTATTAGATG	0.393													53	200	---	---	---	---	PASS	A	237886440	A	A	237886440	3	1	85	1	0	0	0	0	1	0	0	0	13769	1319	46	3	10861	3	RYR2	1	237886440	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	6056138	237886440	11364181	39	32345										
OR2L13	284521	broad.mit.edu	37	chr1	248263470	248263470	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	atcttcggcccaggaatctcCgctcaccagctgaagacaag	9	14	3	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr1:248263470C>T	uc001ids.2	+	3	1130	c.793C>T	c.(793-795)CGC>TGC	p.R265C		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			CAGGAATCTCCGCTCACCAGC	0.473													38	107	---	---	---	---	PASS	T	248263470	T	T	248263470	3	4	85	1	0	0	0	0	1	0	0	0	11006	652	23	1	795	1	OR2L13	1	248263470	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	10377030	248263470	987151	40	32346										
TAF1B	9014	broad.mit.edu	37	chr2	10050867	10050867	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tactgttttgttcttcagatGaaatgcatagcttaacttgc	7	7	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:10050867G>A	uc002qzz.2	+	10	1058	c.958G>A	c.(958-960)GAA>AAA	p.E320K	TAF1B_uc010exc.2_Missense_Mutation_p.E320K|TAF1B_uc002qzy.3_Missense_Mutation_p.E320K|TAF1B_uc010yja.1_Missense_Mutation_p.E65K|TAF1B_uc010exd.2_Missense_Mutation_p.E65K	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	320					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TTCTTCAGATGAAATGCATAG	0.328													5	64	---	---	---	---	PASS	A	10050867	A	A	10050867	3	1	85	1	0	0	0	0	1	0	0	0	15517	1291	45	2	996	2	TAF1B	2	10050867	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08		10050867	233148506	41	32347										
NT5C1B	93034	broad.mit.edu	37	chr2	18768395	18768395	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cacgacgagtgaccctggaaGgggcaacatctcagcgagtg	14	11	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:18768395G>C	uc002rcz.2	-	3	269	c.165C>G	c.(163-165)CCC>CCG	p.P55P	NT5C1B_uc002rcy.2_Silent_p.P55P|NT5C1B_uc010exr.2_Intron|NT5C1B_uc010yju.1_Intron|NT5C1B_uc002rda.2_Intron|NT5C1B_uc010yjv.1_Silent_p.P55P|NT5C1B_uc010yjw.1_Intron|NT5C1B_uc010exs.2_Silent_p.P55P|NT5C1B_uc002rdb.1_5'Flank	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	55					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				GACCCTGGAAGGGGCAACATC	0.547													5	29	---	---	---	---	PASS	C	18768395	C	C	18768395	2	2	85	1	0	0	0	0	0	0	0	1	10686	987	35	4		4	NT5C1B	2	18768395	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	8717528	18768395	224430978	42	32348										
DPYSL5	56896	broad.mit.edu	37	chr2	27167566	27167566	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	accgcactccctacctggggGatgtcgctgttgtcgtgcac	12	14	0	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:27167566G>T	uc002rhu.3	+	12	1641	c.1483G>T	c.(1483-1485)GAT>TAT	p.D495Y	DPYSL5_uc002rhv.3_Missense_Mutation_p.D495Y	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	495					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTACCTGGGGGATGTCGCTGT	0.567													23	78	---	---	---	---	PASS	T	27167566	T	T	27167566	3	4	85	1	0	0	0	0	1	0	0	0	4750	1174	41	2	1525	2	DPYSL5	2	27167566	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	8399171	27167566	216031807	43	32349										
C2orf16	84226	broad.mit.edu	37	chr2	27801100	27801100	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	atatgtgagaccttcagagcAccacacagggccatgtttgc	10	11	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:27801100A>G	uc002rkz.3	+	1	1712	c.1661A>G	c.(1660-1662)CAC>CGC	p.H554R		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	554										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					CCTTCAGAGCACCACACAGGG	0.393													4	74	---	---	---	---	PASS	G	27801100	G	G	27801100	3	3	85	1	0	0	0	0	1	0	0	0	2157	159	6	5	1663	5	C2orf16	2	27801100	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	633534	27801100	215398273	44	32350										
ALK	238	broad.mit.edu	37	chr2	29416544	29416544	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcacgtgtcccccttccacgGccggccctctagggactcga	10	18	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:29416544G>A	uc002rmy.2	-	29	5316	c.4409C>T	c.(4408-4410)GCC>GTC	p.A1470V	ALK_uc010ymo.1_Missense_Mutation_p.A402V	NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	1470	Cytoplasmic (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity	p.V1471fs*45(1)	NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	CCCTTCCACGGCCGGCCCTCT	0.592			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				4	145	---	---	---	---	PASS	A	29416544	A	A	29416544	3	1	85	1	0	0	0	0	1	0	0	0	525	1203	42	3	457	3	ALK	2	29416544	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1615444	29416544	213782829	45	32351										
HEATR5B	54497	broad.mit.edu	37	chr2	37268374	37268374	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tattccaccaacataacgatGcaaacaaccaagagccaatg	5	12	0	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:37268374G>A	uc002rpp.1	-	19	2854	c.2758C>T	c.(2758-2760)CAT>TAT	p.H920Y		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	920							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				ACATAACGATGCAAACAACCA	0.433													4	82	---	---	---	---	PASS	A	37268374	A	A	37268374	3	1	85	1	0	0	0	0	1	0	0	0	7032	1319	46	3	3529	3	HEATR5B	2	37268374	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	7851830	37268374	205930999	46	32352										
HNRPLL	92906	broad.mit.edu	37	chr2	38809072	38809072	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tacctcgtcttcccaaatatGgtttagtgtagtcccaactg	7	11	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:38809072G>T	uc002rqw.2	-	6	1195	c.785C>A	c.(784-786)CCA>CAA	p.P262Q	HNRPLL_uc002rqv.2_5'UTR|HNRPLL_uc002rqx.2_Missense_Mutation_p.P257Q	NM_138394	NP_612403	Q8WVV9	HNRLL_HUMAN	heterogeneous nuclear ribonucleoprotein L-like	262					mRNA processing|positive regulation of RNA splicing	nucleus|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding			skin(1)	1		all_hematologic(82;0.248)				TCCCAAATATGGTTTAGTGTA	0.328													3	68	---	---	---	---	PASS	T	38809072	T	T	38809072	3	4	85	1	0	0	0	0	1	0	0	0	7277	1348	47	3	875	3	HNRPLL	2	38809072	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1540698	38809072	204390301	47	32353										
USP34	9736	broad.mit.edu	37	chr2	61441575	61441575	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgtggaaaacatcagcttctCagttttggaaattaaacagt	8	6	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:61441575C>G	uc002sbe.2	-	68	8324	c.8302G>C	c.(8302-8304)GAG>CAG	p.E2768Q		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2768					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ATCAGCTTCTCAGTTTTGGAA	0.383													14	54	---	---	---	---	PASS	G	61441575	G	G	61441575	3	3	85	1	0	0	0	0	1	0	0	0	17062	835	29	2	2390	2	USP34	2	61441575	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	22632503	61441575	181757798	48	32354										
ARHGAP25	9938	broad.mit.edu	37	chr2	69046260	69046260	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcttctgtctttcagggactCctcagatccaaagagtgatg	9	10	5	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:69046260C>A	uc002seu.2	+	9	1370	c.1006C>A	c.(1006-1008)CCT>ACT	p.P336T	ARHGAP25_uc010fdg.2_Missense_Mutation_p.P337T|ARHGAP25_uc010yql.1_Missense_Mutation_p.P297T|ARHGAP25_uc002sev.2_Missense_Mutation_p.P330T|ARHGAP25_uc002sew.2_Missense_Mutation_p.P329T|ARHGAP25_uc002sex.2_Missense_Mutation_p.P330T|ARHGAP25_uc002sey.2_Missense_Mutation_p.P63T	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	336	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						TTCAGGGACTCCTCAGATCCA	0.493													19	314	---	---	---	---	PASS	A	69046260	A	A	69046260	3	1	85	1	0	0	0	0	1	0	0	0	874	855	30	2	1083	2	ARHGAP25	2	69046260	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	7604685	69046260	174153113	49	32355										
SMYD1	150572	broad.mit.edu	37	chr2	88407937	88407937	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	actgggcatggccgtgatgcGggcagggctgaccaactggc	17	11	0	2	rs146456865	byFrequency	TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:88407937G>C	uc002ssr.2	+	9	1195	c.1193G>C	c.(1192-1194)CGG>CCG	p.R398P	SMYD1_uc002ssq.1_Intron|SMYD1_uc002sss.2_Missense_Mutation_p.R94P	NM_198274	NP_938015	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	398					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						GCCGTGATGCGGGCAGGGCTG	0.542													4	68	---	---	---	---	PASS	C	88407937	C	C	88407937	3	2	85	1	0	0	0	0	1	0	0	0	14821	1116	39	4	1227	4	SMYD1	2	88407937	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	19361677	88407937	154791436	50	32356										
TUBA3E	112714	broad.mit.edu	37	chr2	130951855	130951855	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcgtgtgggtggttaggatgGagttgtagggctccaccacg	17	7	0	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:130951855G>A	uc002tqv.2	-	4	661	c.560C>T	c.(559-561)TCC>TTC	p.S187F		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	187					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					GGTTAGGATGGAGTTGTAGGG	0.532													21	201	---	---	---	---	PASS	A	130951855	A	A	130951855	3	1	85	1	0	0	0	0	1	0	0	0	16745	1174	41	2	800	2	TUBA3E	2	130951855	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	42543918	130951855	112247518	51	32357										
TNFAIP6	7130	broad.mit.edu	37	chr2	152214240	152214240	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gacactcaaggatggggattCaaggatggaatttttcataa	11	5	3	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:152214240C>T	uc002txk.2	+	1	136	c.60C>T	c.(58-60)TTC>TTT	p.F20F		NM_007115	NP_009046	P98066	TSG6_HUMAN	tumor necrosis factor, alpha-induced protein 6	20					cell adhesion|cell-cell signaling|inflammatory response|signal transduction		hyaluronic acid binding				0				BRCA - Breast invasive adenocarcinoma(221;0.131)		GATGGGGATTCAAGGATGGAA	0.388													11	102	---	---	---	---	PASS	T	152214240	T	T	152214240	2	4	85	1	0	0	0	0	0	0	0	1	16272	825	29	2		2	TNFAIP6	2	152214240	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	21262385	152214240	90985133	52	32358										
LY75	4065	broad.mit.edu	37	chr2	160755255	160755255	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctcctttcttccagacatcaGatgcatttgagattgctgtg	8	10	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:160755255G>C	uc002ubc.3	-	2	479	c.410C>G	c.(409-411)TCT>TGT	p.S137C	LY75_uc002ubb.3_Missense_Mutation_p.S137C|LY75_uc010fos.2_Missense_Mutation_p.S137C|LY75_uc010fot.1_Missense_Mutation_p.S137C	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	137	Extracellular (Potential).|Ricin B-type lectin.				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		CCAGACATCAGATGCATTTGA	0.517													6	125	---	---	---	---	PASS	C	160755255	C	C	160755255	3	2	85	1	0	0	0	0	1	0	0	0	9099	942	33	2	4894	2	LY75	2	160755255	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	8541015	160755255	82444118	53	32359										
KCNH7	90134	broad.mit.edu	37	chr2	163393571	163393571	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttcactggaattatgtgagtGttacaaataaaagtggaccc	9	6	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:163393571G>A	uc002uch.1	-	3	539	c.327C>T	c.(325-327)AAC>AAT	p.N109N	KCNH7_uc002uci.2_Silent_p.N109N	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	109	Cytoplasmic (Potential).|PAC.				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	TTATGTGAGTGTTACAAATAA	0.333													5	66	---	---	---	---	PASS	A	163393571	A	A	163393571	2	1	85	1	0	0	0	0	0	0	0	1	8037	1368	48	3		3	KCNH7	2	163393571	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	2638316	163393571	79805802	54	32360										
LRP2	4036	broad.mit.edu	37	chr2	170089935	170089935	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	actcacaatttggttgtttcGaaggatgaaccgcaacaatc	8	9	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:170089935G>A	uc002ues.2	-	30	5297	c.5084C>T	c.(5083-5085)TCG>TTG	p.S1695L		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1695	LDL-receptor class B 14.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TGGTTGTTTCGAAGGATGAAC	0.468													11	75	---	---	---	---	PASS	A	170089935	A	A	170089935	3	1	85	1	0	0	0	0	1	0	0	0	8956	1059	37	2	9083	2	LRP2	2	170089935	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	6696364	170089935	73109438	55	32361										
NFE2L2	4780	broad.mit.edu	37	chr2	178098810	178098810	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgggagaaattcacctgtctCttcatctagttgtaactgag	9	8	4	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:178098810C>G	uc002ulh.3	-	2	790	c.235G>C	c.(235-237)GAG>CAG	p.E79Q	NFE2L2_uc002ulg.3_Missense_Mutation_p.E63Q|NFE2L2_uc010zfa.1_Missense_Mutation_p.E63Q|NFE2L2_uc002uli.3_Missense_Mutation_p.E63Q|NFE2L2_uc010fra.2_Missense_Mutation_p.E63Q|NFE2L2_uc010frb.2_Missense_Mutation_p.E63Q	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	79					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			TCACCTGTCTCTTCATCTAGT	0.443			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			10	90	---	---	---	---	PASS	G	178098810	G	G	178098810	3	3	85	1	0	0	0	0	1	0	0	0	10368	922	32	2	1598	2	NFE2L2	2	178098810	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	8008875	178098810	65100563	56	32362										
TTN	7273	broad.mit.edu	37	chr2	179438359	179438359	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctacatttgtccatgccaatCtgctggtttcacgtttctgt	7	11	3	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:179438359C>G	uc010zfg.1	-	275	65020	c.64796G>C	c.(64795-64797)AGA>ACA	p.R21599T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R15294T|TTN_uc010zfi.1_Missense_Mutation_p.R15227T|TTN_uc010zfj.1_Missense_Mutation_p.R15102T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22526							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)			CCATGCCAATCTGCTGGTTTC	0.413													7	458	---	---	---	---	PASS	G	179438359	G	G	179438359	3	3	85	1	0	0	0	0	1	0	0	0	16732	913	32	2	35627	2	TTN	2	179438359	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1339549	179438359	63761014	57	32363										
TTN	7273	broad.mit.edu	37	chr2	179486014	179486014	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggactggaaagctttcttttGatatagagcagacaaattca	9	6	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:179486014G>C	uc010zfg.1	-	195	37951	c.37727C>G	c.(37726-37728)TCA>TGA	p.S12576*	TTN_uc010zfh.1_Nonsense_Mutation_p.S6271*|TTN_uc010zfi.1_Nonsense_Mutation_p.S6204*|TTN_uc010zfj.1_Nonsense_Mutation_p.S6079*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13503							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)			GCTTTCTTTTGATATAGAGCA	0.383													4	47	---	---	---	---	PASS	C	179486014	C	C	179486014	4	2	85	1	0	0	0	0	0	1	0	0	16732	1294	45	2	62730	2	TTN	2	179486014	Nonsense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	47655	179486014	63713359	58	32364										
CASP8	841	broad.mit.edu	37	chr2	202149860	202149860	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tatacctgttgagactgattCagaggagcaaccctatttag	9	8	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:202149860C>G	uc002uxr.1	+	9	1333	c.1124C>G	c.(1123-1125)TCA>TGA	p.S375*	CASP8_uc002uxp.1_Nonsense_Mutation_p.S392*|CASP8_uc002uxq.1_Nonsense_Mutation_p.S360*|CASP8_uc002uxt.1_Nonsense_Mutation_p.S434*|CASP8_uc002uxu.1_RNA|CASP8_uc002uxw.1_Nonsense_Mutation_p.S360*|CASP8_uc002uxy.1_Intron|CASP8_uc002uxx.1_Intron|CASP8_uc010ftf.2_Nonsense_Mutation_p.S291*	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	375					activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						GAGACTGATTCAGAGGAGCAA	0.448										HNSCC(4;0.00038)			11	114	---	---	---	---	PASS	G	202149860	G	G	202149860	4	3	85	1	0	0	0	0	0	1	0	0	2677	838	29	2	1431	2	CASP8	2	202149860	Nonsense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	22663846	202149860	41049513	59	32365										
RAPH1	65059	broad.mit.edu	37	chr2	204305815	204305815	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	attggggggtaccaggatctGaggcttcactgactgtgact	14	8	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:204305815G>A	uc002vad.2	-	14	2323	c.2098C>T	c.(2098-2100)CAG>TAG	p.Q700*		NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	700					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10						ACCAGGATCTGAGGCTTCACT	0.463													11	58	---	---	---	---	PASS	A	204305815	A	A	204305815	4	1	85	1	0	0	0	0	0	1	0	0	13050	1299	45	2	1658	2	RAPH1	2	204305815	Nonsense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2155955	204305815	38893558	60	32366										
PLEKHM3	389072	broad.mit.edu	37	chr2	208841936	208841936	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctgtgtatagtcatcatgatGgccaagccctggtgagattg	12	8	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:208841936G>A	uc002vcl.2	-	3	1475	c.985C>T	c.(985-987)CAT>TAT	p.H329Y	PLEKHM3_uc002vcm.2_Missense_Mutation_p.H329Y	NM_001080475	NP_001073944	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M,	329					intracellular signal transduction		metal ion binding			ovary(1)	1						TCATCATGATGGCCAAGCCCT	0.527													11	115	---	---	---	---	PASS	A	208841936	A	A	208841936	3	1	85	1	0	0	0	0	1	0	0	0	12082	1348	47	3	1324	3	PLEKHM3	2	208841936	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	4536121	208841936	34357437	61	32367										
TNS1	7145	broad.mit.edu	37	chr2	218713332	218713332	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtgcccatgctgcccgcactGtgaccatcctggtttggcaa	11	14	0	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr2:218713332G>C	uc002vgt.2	-	17	1931	c.1533C>G	c.(1531-1533)CAC>CAG	p.H511Q	TNS1_uc002vgr.2_Missense_Mutation_p.H511Q|TNS1_uc002vgs.2_Missense_Mutation_p.H511Q|TNS1_uc010zjv.1_Missense_Mutation_p.H511Q|TNS1_uc010fvj.1_Missense_Mutation_p.H579Q|TNS1_uc010fvk.1_Missense_Mutation_p.H636Q|TNS1_uc010fvi.1_Missense_Mutation_p.H198Q	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	511						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		TGCCCGCACTGTGACCATCCT	0.607													22	79	---	---	---	---	PASS	C	218713332	C	C	218713332	3	2	85	1	0	0	0	0	1	0	0	0	16340	1368	48	4	3742	4	TNS1	2	218713332	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	9871396	218713332	24486041	62	32368										
TMPPE	643853	broad.mit.edu	37	chr3	33134446	33134446	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtagcctgggccacctggtaGagaccagcaaagaagggatt	14	9	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:33134446G>C	uc003cfk.2	-	2	1433	c.1242C>G	c.(1240-1242)CTC>CTG	p.L414L	GLB1_uc003cfh.1_Intron|GLB1_uc003cfi.1_Intron|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Intron|TMPPE_uc011axl.1_Silent_p.L277L	NM_001039770	NP_001034859	Q6ZT21	TMPPE_HUMAN	transmembrane protein with	414						integral to membrane	metal ion binding				0						CCACCTGGTAGAGACCAGCAA	0.552													3	52	---	---	---	---	PASS	C	33134446	C	C	33134446	2	2	85	1	0	0	0	0	0	0	0	1	16235	929	33	2		2	TMPPE	3	33134446	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08		33134446	164887984	63	32369										
TGM4	7047	broad.mit.edu	37	chr3	44945440	44945440	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgcccaagggctacgacggcTggcaggctgtggacgcaacg	16	12	0	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:44945440T>C	uc003coc.3	+	9	1109	c.1036T>C	c.(1036-1038)TGG>CGG	p.W346R		NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)	346					peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	CTACGACGGCTGGCAGGCTGT	0.642													12	125	---	---	---	---	PASS	C	44945440	C	C	44945440	3	2	85	1	0	0	0	0	1	0	0	0	15829	1580	55	5	1070	5	TGM4	3	44945440	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	11810994	44945440	153076990	64	32370										
CDCP1	64866	broad.mit.edu	37	chr3	45152242	45152242	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acgacaaactgccacgtcatGagctcatcctcagggaagcc	9	14	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:45152242G>A	uc003com.2	-	4	882	c.747C>T	c.(745-747)CTC>CTT	p.L249L	CDCP1_uc003con.2_Silent_p.L249L	NM_022842	NP_073753	Q9H5V8	CDCP1_HUMAN	CUB domain-containing protein 1 isoform 1	249	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		GCCACGTCATGAGCTCATCCT	0.552													13	190	---	---	---	---	PASS	A	45152242	A	A	45152242	2	1	85	1	0	0	0	0	0	0	0	1	3093	1277	45	2		2	CDCP1	3	45152242	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	206802	45152242	152870188	65	32371										
TMIE	259236	broad.mit.edu	37	chr3	46750623	46750623	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtcctccctacagtcatcacGctgtgctgtgtcttcaactg	8	14	4	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:46750623G>A	uc010hjk.1	+	3	374	c.219G>A	c.(217-219)ACG>ACA	p.T73T	TMIE_uc010hjj.1_Missense_Mutation_p.A113T	NM_147196	NP_671729	Q8NEW7	TMIE_HUMAN	transmembrane inner ear protein precursor	73	Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(193;0.000688)|KIRC - Kidney renal clear cell carcinoma(197;0.0177)|Kidney(197;0.0208)		CAGTCATCACGCTGTGCTGTG	0.612													4	62	---	---	---	---	PASS	A	46750623	A	A	46750623	2	1	85	1	0	0	0	0	0	0	0	1	16226	1074	38	1		1	TMIE	3	46750623	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	1598381	46750623	151271807	66	32372										
COL7A1	1294	broad.mit.edu	37	chr3	48602858	48602858	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctcaccttcctcctctgcatGagagacgcggagcacaggca	10	15	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:48602858G>A	uc003ctz.2	-	115	8513	c.8512C>T	c.(8512-8514)CAT>TAT	p.H2838Y	UCN2_uc003cty.1_5'Flank	NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2838	Nonhelical region (NC2).				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TCCTCTGCATGAGAGACGCGG	0.642													4	17	---	---	---	---	PASS	A	48602858	A	A	48602858	3	1	85	1	0	0	0	0	1	0	0	0	3704	1290	45	2	338	2	COL7A1	3	48602858	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1852235	48602858	149419572	67	32373										
DOCK3	1795	broad.mit.edu	37	chr3	51392382	51392382	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tccagcagaggatgctcagtGagtttccgcaggctgtcgcc	13	12	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:51392382G>C	uc011bds.1	+	41	4200	c.4177G>C	c.(4177-4179)GAG>CAG	p.E1393Q		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1393	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		GATGCTCAGTGAGTTTCCGCA	0.552													6	121	---	---	---	---	PASS	C	51392382	C	C	51392382	3	2	85	1	0	0	0	0	1	0	0	0	4688	1291	45	2	4339	2	DOCK3	3	51392382	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2789524	51392382	146630048	68	32374										
STX19	415117	broad.mit.edu	37	chr3	93733279	93733279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acaacacagtactctgcaagGatttctttttttgtatttta	5	7	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:93733279G>T	uc003drh.1	-	2	1092	c.835C>A	c.(835-837)CCT>ACT	p.P279T	ARL13B_uc003drc.2_Intron|ARL13B_uc010hop.2_Intron|ARL13B_uc003drd.2_Intron|ARL13B_uc003dre.2_Intron|ARL13B_uc003drf.2_Intron|ARL13B_uc003drg.2_Intron	NM_001001850	NP_001001850	Q8N4C7	STX19_HUMAN	syntaxin 19	279					intracellular protein transport|vesicle-mediated transport	membrane	SNAP receptor activity				0						ACTCTGCAAGGATTTCTTTTT	0.318													6	45	---	---	---	---	PASS	T	93733279	T	T	93733279	3	4	85	1	0	0	0	0	1	0	0	0	15341	1174	41	2	53	2	STX19	3	93733279	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	42340897	93733279	104289151	69	32375										
CD96	10225	broad.mit.edu	37	chr3	111356973	111356973	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cattttcagaagtccccacaActgccaatggatctacgaaa	6	12	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:111356973A>T	uc003dxw.2	+	13	1653	c.1483A>T	c.(1483-1485)ACT>TCT	p.T495S	CD96_uc003dxx.2_Missense_Mutation_p.T479S|CD96_uc010hpy.1_Missense_Mutation_p.T478S	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor	495	Extracellular (Potential).|Pro/Ser/Thr-rich.				cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						AGTCCCCACAACTGCCAATGG	0.368									Opitz_Trigonocephaly_syndrome				4	118	---	---	---	---	PASS	T	111356973	T	T	111356973	3	4	85	1	0	0	0	0	1	0	0	0	3048	43	2	5	1533	5	CD96	3	111356973	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	17623694	111356973	86665457	70	32376										
DRD3	1814	broad.mit.edu	37	chr3	113847632	113847632	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtggtatagatcacagggttGagggcgctattcacgtagcc	14	8	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:113847632G>A	uc003ebd.2	-	8	1557	c.1134C>T	c.(1132-1134)CTC>CTT	p.L378L	DRD3_uc010hqn.1_Silent_p.L378L|DRD3_uc003ebb.1_Silent_p.L345L|DRD3_uc003ebc.1_Silent_p.L378L	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	378	Helical; Name=7.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	TCACAGGGTTGAGGGCGCTAT	0.522													11	449	---	---	---	---	PASS	A	113847632	A	A	113847632	2	1	85	1	0	0	0	0	0	0	0	1	4758	1277	45	2		2	DRD3	3	113847632	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	2490659	113847632	84174798	71	32377										
CD86	942	broad.mit.edu	37	chr3	121822377	121822377	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aggtgctgctcctctgaagaTtcaagcttatttcaatgaga	9	8	3	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:121822377T>C	uc003eet.2	+	3	199	c.83T>C	c.(82-84)ATT>ACT	p.I28T	CD86_uc011bjo.1_5'UTR|CD86_uc011bjp.1_Intron|CD86_uc003eeu.2_Missense_Mutation_p.I22T	NM_175862	NP_787058	P42081	CD86_HUMAN	CD86 antigen isoform 1	28	Extracellular (Potential).				interspecies interaction between organisms|positive regulation of cell proliferation|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of lymphotoxin A biosynthetic process|positive regulation of T-helper 2 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation		coreceptor activity|protein binding			pancreas(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.156)	Abatacept(DB01281)	CCTCTGAAGATTCAAGCTTAT	0.423													9	88	---	---	---	---	PASS	C	121822377	C	C	121822377	3	2	85	1	0	0	0	0	1	0	0	0	3043	1493	52	5	93	5	CD86	3	121822377	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	7974745	121822377	76200053	72	32378										
KALRN	8997	broad.mit.edu	37	chr3	124053267	124053267	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	catcaccagcgacggctggaGagcatctggcagcaccgcaa	12	14	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:124053267G>C	uc003ehg.2	+	9	1693	c.1566G>C	c.(1564-1566)GAG>GAC	p.E522D	KALRN_uc010hrv.1_Missense_Mutation_p.E522D|KALRN_uc003ehf.1_Missense_Mutation_p.E522D|KALRN_uc011bjy.1_Missense_Mutation_p.E522D	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	522					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						GACGGCTGGAGAGCATCTGGC	0.622													4	85	---	---	---	---	PASS	C	124053267	C	C	124053267	3	2	85	1	0	0	0	0	1	0	0	0	7975	933	33	2	1600	2	KALRN	3	124053267	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2230890	124053267	73969163	73	32379										
COL6A6	131873	broad.mit.edu	37	chr3	130285672	130285672	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agggatgttcaacattgctcCccataaggtgcgggttgggg	15	8	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:130285672C>T	uc010htl.2	+	4	1440	c.1409C>T	c.(1408-1410)CCC>CTC	p.P470L		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	470	VWFA 3.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						AACATTGCTCCCCATAAGGTG	0.488													17	184	---	---	---	---	PASS	T	130285672	T	T	130285672	3	4	85	1	0	0	0	0	1	0	0	0	3703	623	22	3	1423	3	COL6A6	3	130285672	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	6232405	130285672	67736758	74	32380										
COL6A6	131873	broad.mit.edu	37	chr3	130300468	130300468	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggagaaagggcagactttgcTtgaaggtcagccttggatgg	16	6	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:130300468T>C	uc010htl.2	+	8	3642	c.3611T>C	c.(3610-3612)CTT>CCT	p.L1204P	COL6A6_uc003eni.3_5'Flank	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1204	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CAGACTTTGCTTGAAGGTCAG	0.463													14	170	---	---	---	---	PASS	C	130300468	C	C	130300468	3	2	85	1	0	0	0	0	1	0	0	0	3703	1609	56	5	3641	5	COL6A6	3	130300468	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	14796	130300468	67721962	75	32381										
AMOTL2	51421	broad.mit.edu	37	chr3	134084662	134084662	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtggggcccctactcactctGagcaagcagcttggccacca	11	15	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:134084662G>A	uc003eqf.2	-	5	1567	c.1450C>T	c.(1450-1452)CAG>TAG	p.Q484*	AMOTL2_uc003eqg.1_Nonsense_Mutation_p.Q426*|AMOTL2_uc003eqh.1_Nonsense_Mutation_p.Q426*|AMOTL2_uc003eqe.1_Nonsense_Mutation_p.Q51*	NM_016201	NP_057285	Q9Y2J4	AMOL2_HUMAN	angiomotin like 2	426	Potential.									large_intestine(1)	1						TACTCACTCTGAGCAAGCAGC	0.582													10	117	---	---	---	---	PASS	A	134084662	A	A	134084662	4	1	85	1	0	0	0	0	0	1	0	0	584	1299	45	2	1090	2	AMOTL2	3	134084662	Nonsense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	3784194	134084662	63937768	76	32382										
SR140	23350	broad.mit.edu	37	chr3	142741417	142741417	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aaatcatgtggcctagaactGatgaagaaagagccagagag	12	6	1	6			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:142741417G>A	uc003evh.1	+	11	1030	c.931G>A	c.(931-933)GAT>AAT	p.D311N	SR140_uc003evi.1_5'UTR|SR140_uc011bnj.1_Missense_Mutation_p.D311N|SR140_uc003evj.1_RNA|SR140_uc003evk.1_Missense_Mutation_p.D310N	NM_001080415	NP_001073884	O15042	SR140_HUMAN	U2-associated SR140 protein	311	RRM.				RNA processing	nucleus	nucleotide binding|RNA binding				0						GCCTAGAACTGATGAAGAAAG	0.363													4	154	---	---	---	---	PASS	A	142741417	A	A	142741417	3	1	85	1	0	0	0	0	1	0	0	0	15130	1290	45	2	973	2	SR140	3	142741417	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	8656755	142741417	55281013	77	32383										
MED12L	116931	broad.mit.edu	37	chr3	151131013	151131013	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgcacatccaaaccttccctCcgtgcccctgcctcaggatc	6	19	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:151131013C>G	uc003eyp.2	+	40	6160	c.6122C>G	c.(6121-6123)TCC>TGC	p.S2041C	MED12L_uc011bnz.1_Intron	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	2041	Gln-rich.				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)			AACCTTCCCTCCGTGCCCCTG	0.582													6	105	---	---	---	---	PASS	G	151131013	G	G	151131013	3	3	85	1	0	0	0	0	1	0	0	0	9429	855	30	2	6280	2	MED12L	3	151131013	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	8389596	151131013	46891417	78	32384										
MME	4311	broad.mit.edu	37	chr3	154884713	154884713	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttcccagccggcattctgcaGccccccttctttagtgccca	7	18	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:154884713G>T	uc010hvr.1	+	18	1894	c.1683G>T	c.(1681-1683)CAG>CAT	p.Q561H	MME_uc003fab.1_Missense_Mutation_p.Q561H|MME_uc003fac.1_Missense_Mutation_p.Q561H|MME_uc003fad.1_Missense_Mutation_p.Q561H|MME_uc003fae.1_Missense_Mutation_p.Q561H	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	561	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	GCATTCTGCAGCCCCCCTTCT	0.428													11	93	---	---	---	---	PASS	T	154884713	T	T	154884713	3	4	85	1	0	0	0	0	1	0	0	0	9645	962	34	3	1749	3	MME	3	154884713	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	3753700	154884713	43137717	79	32385										
PHC3	80012	broad.mit.edu	37	chr3	169815104	169815104	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgcactcatgagatggtcttCtttcagcaagagaagggcct	11	9	4	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:169815104C>A	uc010hws.1	-	15	2930	c.2866G>T	c.(2866-2868)GAA>TAA	p.E956*	PHC3_uc003fgl.2_Nonsense_Mutation_p.E968*	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	956	SAM.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			AGATGGTCTTCTTTCAGCAAG	0.468													8	325	---	---	---	---	PASS	A	169815104	A	A	169815104	4	1	85	1	0	0	0	0	0	1	0	0	11818	922	32	2	89	2	PHC3	3	169815104	Nonsense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	14930391	169815104	28207326	80	32386										
SLC7A14	57709	broad.mit.edu	37	chr3	170198250	170198250	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acaaacaccagggtgctgatCagcagcaccatcagaacaac	8	13	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:170198250C>T	uc003fgz.2	-	7	2137	c.1821G>A	c.(1819-1821)CTG>CTA	p.L607L	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	607	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			GGGTGCTGATCAGCAGCACCA	0.542													7	139	---	---	---	---	PASS	T	170198250	T	T	170198250	2	4	85	1	0	0	0	0	0	0	0	1	14696	813	29	2		2	SLC7A14	3	170198250	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	383146	170198250	27824180	81	32387										
YEATS2	55689	broad.mit.edu	37	chr3	183439723	183439723	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtttttaatcatcctgctatCaagaaatttttggaatcacc	5	8	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:183439723C>G	uc003fly.2	+	5	531	c.336C>G	c.(334-336)ATC>ATG	p.I112M		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	112					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)			ATCCTGCTATCAAGAAATTTT	0.358													8	268	---	---	---	---	PASS	G	183439723	G	G	183439723	3	3	85	1	0	0	0	0	1	0	0	0	17469	816	29	2	350	2	YEATS2	3	183439723	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	13241473	183439723	14582707	82	32388										
ABCF3	55324	broad.mit.edu	37	chr3	183905220	183905220	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttccaggactgctaaagaggGaacagtcctcggtgaggagg	15	8	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:183905220G>A	uc003fmz.2	+	4	470	c.337G>A	c.(337-339)GAA>AAA	p.E113K	ABCF3_uc003fna.2_Missense_Mutation_p.E107K|ABCF3_uc003fnb.2_5'Flank	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	113							ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCTAAAGAGGGAACAGTCCTC	0.463													51	109	---	---	---	---	PASS	A	183905220	A	A	183905220	3	1	85	1	0	0	0	0	1	0	0	0	67	1175	41	2	351	2	ABCF3	3	183905220	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	465497	183905220	14117210	83	32389			1	37		4	4	2433	G		2.793705e-06
ABCF3	55324	broad.mit.edu	37	chr3	183905691	183905691	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agccaggcaggcagcagaaaGgagagtcggttggaatcatc	15	8	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:183905691G>C	uc003fmz.2	+	6	622	c.489G>C	c.(487-489)AAG>AAC	p.K163N	ABCF3_uc003fna.2_Missense_Mutation_p.K157N|ABCF3_uc003fnb.2_5'Flank	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	163							ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCAGCAGAAAGGAGAGTCGGT	0.488													86	135	---	---	---	---	PASS	C	183905691	C	C	183905691	3	2	85	1	0	0	0	0	1	0	0	0	67	991	35	4	511	4	ABCF3	3	183905691	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	471	183905691	14116739	84	32390			1	37		4	4	2433	G		2.793705e-06
ABCF3	55324	broad.mit.edu	37	chr3	183906897	183906897	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gagttctcaggtggctggagGatgaggctggccctggcccg	18	10	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:183906897G>A	uc003fmz.2	+	10	1132	c.999G>A	c.(997-999)AGG>AGA	p.R333R	ABCF3_uc003fna.2_Silent_p.R327R|ABCF3_uc003fnb.2_Silent_p.R14R	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	333	ABC transporter 1.						ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GTGGCTGGAGGATGAGGCTGG	0.557													32	79	---	---	---	---	PASS	A	183906897	A	A	183906897	2	1	85	1	0	0	0	0	0	0	0	1	67	1165	41	2		2	ABCF3	3	183906897	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	1206	183906897	14115533	85	32391			1	37		4	4	2433	G		2.793705e-06
ABCF3	55324	broad.mit.edu	37	chr3	183907652	183907652	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tccacctgcaggttttcattGaccggtttcgctacaatgcc	8	13	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:183907652G>A	uc003fmz.2	+	14	1457	c.1324G>A	c.(1324-1326)GAC>AAC	p.D442N	ABCF3_uc003fna.2_Missense_Mutation_p.D436N|ABCF3_uc003fnb.2_Missense_Mutation_p.D123N	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	442							ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GGTTTTCATTGACCGGTTTCG	0.572													60	124	---	---	---	---	PASS	A	183907652	A	A	183907652	3	1	85	1	0	0	0	0	1	0	0	0	67	1290	45	2	1378	2	ABCF3	3	183907652	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	755	183907652	14114778	86	32392			1	37		4	4	2433	G		2.793705e-06
OPA1	4976	broad.mit.edu	37	chr3	193361385	193361385	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	atcagcaaagcttacatgcaGaatcctaatgccatcatact	5	11	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:193361385G>C	uc003ftm.2	+	13	1515	c.1281G>C	c.(1279-1281)CAG>CAC	p.Q427H	OPA1_uc003ftg.2_Missense_Mutation_p.Q482H|OPA1_uc003fth.2_Missense_Mutation_p.Q446H|OPA1_uc003fti.2_Missense_Mutation_p.Q464H|OPA1_uc003ftj.2_Missense_Mutation_p.Q445H|OPA1_uc003ftk.2_Missense_Mutation_p.Q428H|OPA1_uc003ftl.2_Missense_Mutation_p.Q409H|OPA1_uc003ftn.2_Missense_Mutation_p.Q391H	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1	427	Mitochondrial intermembrane (By similarity).				apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		CTTACATGCAGAATCCTAATG	0.323													3	62	---	---	---	---	PASS	C	193361385	C	C	193361385	3	2	85	1	0	0	0	0	1	0	0	0	10871	933	33	2	1504	2	OPA1	3	193361385	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	9453733	193361385	4661045	87	32393										
MUC20	200958	broad.mit.edu	37	chr3	195453355	195453355	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acgaacagcaccttagccaaGatcacaacctcagcgaagac	7	14	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:195453355G>C	uc010hzo.2	+	3	1494	c.1368G>C	c.(1366-1368)AAG>AAC	p.K456N	MUC20_uc010hzp.2_Missense_Mutation_p.K421N|MUC20_uc011bte.1_RNA	NM_152673	NP_689886	Q8N307	MUC20_HUMAN	mucin 20 isoform L	627	Involved in oligomerization.|Thr-rich.				protein homooligomerization	apical plasma membrane|basal plasma membrane|extracellular region|microvillus membrane					0	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.191)	Epithelial(36;1e-21)|all cancers(36;9.02e-20)|OV - Ovarian serous cystadenocarcinoma(49;1.6e-18)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;1.66e-05)		CCTTAGCCAAGATCACAACCT	0.622													6	148	---	---	---	---	PASS	C	195453355	C	C	195453355	3	2	85	1	0	0	0	0	1	0	0	0	9976	933	33	2	1378	2	MUC20	3	195453355	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2091970	195453355	2569075	88	32394										
SENP5	205564	broad.mit.edu	37	chr3	196612242	196612242	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tccagggtagaaagaaagctCttcaaatccagaaaacgtgg	10	8	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:196612242C>G	uc003fwz.3	+	2	439	c.190C>G	c.(190-192)CTT>GTT	p.L64V	SENP5_uc011bty.1_Missense_Mutation_p.L64V	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	64					cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		AAAGAAAGCTCTTCAAATCCA	0.403													3	68	---	---	---	---	PASS	G	196612242	G	G	196612242	3	3	85	1	0	0	0	0	1	0	0	0	14049	913	32	2	192	2	SENP5	3	196612242	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1158887	196612242	1410188	89	32395										
LMLN	89782	broad.mit.edu	37	chr3	197712674	197712674	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctttttcttacagggtttctCtgctgggctgtttgcattct	9	9	3	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr3:197712674C>T	uc011buo.1	+	8	864	c.842C>T	c.(841-843)TCT>TTT	p.S281F	LMLN_uc003fyt.2_Missense_Mutation_p.S229F|LMLN_uc010iar.2_Missense_Mutation_p.S281F|LMLN_uc010ias.2_Missense_Mutation_p.S229F|LMLN_uc003fyu.2_Missense_Mutation_p.S41F	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2	281					cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		CAGGGTTTCTCTGCTGGGCTG	0.398													5	141	---	---	---	---	PASS	T	197712674	T	T	197712674	3	4	85	1	0	0	0	0	1	0	0	0	8847	913	32	2	872	2	LMLN	3	197712674	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1100432	197712674	309756	90	32396										
FAM193A	8603	broad.mit.edu	37	chr4	2701692	2701692	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acatccacaatggctcactaGagcaaactgaagaaccagaa	7	11	1	4			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:2701692G>C	uc010icl.2	+	17	3271	c.2920G>C	c.(2920-2922)GAG>CAG	p.E974Q	FAM193A_uc010ick.2_Missense_Mutation_p.E1174Q|FAM193A_uc003gfd.2_Missense_Mutation_p.E974Q|FAM193A_uc011bvm.1_Missense_Mutation_p.E996Q|FAM193A_uc011bvn.1_Missense_Mutation_p.E974Q|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Missense_Mutation_p.E828Q	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	974										ovary(3)	3						TGGCTCACTAGAGCAAACTGA	0.517													15	108	---	---	---	---	PASS	C	2701692	C	C	2701692	3	2	85	1	0	0	0	0	1	0	0	0	5524	943	33	2	2978	2	FAM193A	4	2701692	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08		2701692	188452584	91	32397										
HS3ST1	9957	broad.mit.edu	37	chr4	11401378	11401378	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcgaagaagtggacctcgttCtccgcggccgccacgtcggg	14	14	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:11401378C>T	uc003gmq.2	-	2	575	c.252G>A	c.(250-252)GAG>GAA	p.E84E		NM_005114	NP_005105	O14792	HS3S1_HUMAN	heparan sulfate D-glucosaminyl	84						Golgi lumen|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			skin(1)	1						GGACCTCGTTCTCCGCGGCCG	0.657													11	69	---	---	---	---	PASS	T	11401378	T	T	11401378	2	4	85	1	0	0	0	0	0	0	0	1	7363	912	32	2		2	HS3ST1	4	11401378	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	8699686	11401378	179752898	92	32398										
C1QTNF7	114905	broad.mit.edu	37	chr4	15444362	15444362	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggcagacagcttattctccgGgtttctcttatacgttgaca	9	10	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:15444362G>C	uc011bxb.1	+	3	1036	c.809G>C	c.(808-810)GGG>GCG	p.G270A	C1QTNF7_uc003gno.2_Missense_Mutation_p.G277A|C1QTNF7_uc003gnp.2_Missense_Mutation_p.G270A	NM_001135171	NP_001128643	Q9BXJ2	C1QT7_HUMAN	C1q and tumor necrosis factor related protein 7	270	C1q.					collagen					0						TTATTCTCCGGGTTTCTCTTA	0.443													5	118	---	---	---	---	PASS	C	15444362	C	C	15444362	3	2	85	1	0	0	0	0	1	0	0	0	1968	1232	43	4	840	4	C1QTNF7	4	15444362	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	4042984	15444362	175709914	93	32399										
LDB2	9079	broad.mit.edu	37	chr4	16510277	16510277	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggtggaatttttcctttttcTccgtttggttgttggttgcc	11	7	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:16510277T>C	uc003goz.2	-	7	1088	c.772A>G	c.(772-774)AGA>GGA	p.R258G	LDB2_uc003gpa.2_Missense_Mutation_p.R258G|LDB2_uc003gpb.2_Missense_Mutation_p.R258G|LDB2_uc011bxh.1_Missense_Mutation_p.R230G|LDB2_uc010iee.2_Missense_Mutation_p.R258G|LDB2_uc003goy.2_Missense_Mutation_p.R133G|LDB2_uc011bxi.1_Missense_Mutation_p.R134G	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	258							LIM domain binding|transcription cofactor activity				0						TTCCTTTTTCTCCGTTTGGTT	0.483													12	93	---	---	---	---	PASS	C	16510277	C	C	16510277	3	2	85	1	0	0	0	0	1	0	0	0	8696	1559	54	5	466	5	LDB2	4	16510277	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	1065915	16510277	174643999	94	32400										
SLIT2	9353	broad.mit.edu	37	chr4	20493390	20493390	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tatttcttttttaggtcaccAgtcatttatggctccttctt	5	9	4	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:20493390A>G	uc003gpr.1	+	9	986	c.782A>G	c.(781-783)CAG>CGG	p.Q261R	SLIT2_uc003gps.1_Missense_Mutation_p.Q261R	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	261					apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TTAGGTCACCAGTCATTTATG	0.393													4	130	---	---	---	---	PASS	G	20493390	G	G	20493390	3	3	85	1	0	0	0	0	1	0	0	0	14740	188	7	5	816	5	SLIT2	4	20493390	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	3983113	20493390	170660886	95	32401										
PCDH7	5099	broad.mit.edu	37	chr4	30725257	30725257	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgtgatggatgaaaatgacaAtgctcccacagttacccttc	8	10	0	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:30725257A>G	uc003gsk.1	+	1	3221	c.2213A>G	c.(2212-2214)AAT>AGT	p.N738S	PCDH7_uc011bxw.1_Missense_Mutation_p.N691S|PCDH7_uc011bxx.1_Missense_Mutation_p.N738S	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	738	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GAAAATGACAATGCTCCCACA	0.473													6	104	---	---	---	---	PASS	G	30725257	G	G	30725257	3	3	85	1	0	0	0	0	1	0	0	0	11516	101	4	5	2215	5	PCDH7	4	30725257	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	10231867	30725257	160429019	96	32402										
GRXCR1	389207	broad.mit.edu	37	chr4	42895496	42895496	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cacatagagtcagaaggtgaTgagaatgagaatgaccagga	13	5	1	6			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:42895496T>G	uc003gwt.2	+	1	213	c.213T>G	c.(211-213)GAT>GAG	p.D71E		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	71					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						CAGAAGGTGATGAGAATGAGA	0.468													18	182	---	---	---	---	PASS	G	42895496	G	G	42895496	3	3	85	1	0	0	0	0	1	0	0	0	6812	1461	51	5	215	5	GRXCR1	4	42895496	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	12170239	42895496	148258780	97	32403										
AFM	173	broad.mit.edu	37	chr4	74364940	74364940	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cttgctgtacgctaagtgaaGagtttgcctgtgttgataat	11	6	0	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:74364940G>C	uc003hhb.2	+	11	1430	c.1399G>C	c.(1399-1401)GAG>CAG	p.E467Q		NM_001133	NP_001124	P43652	AFAM_HUMAN	afamin precursor	467	Albumin 3.				vitamin transport		vitamin E binding			ovary(2)|central_nervous_system(1)	3	Breast(15;0.00102)		Epithelial(6;5.69e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|all cancers(17;0.000555)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GCTAAGTGAAGAGTTTGCCTG	0.403													3	68	---	---	---	---	PASS	C	74364940	C	C	74364940	3	2	85	1	0	0	0	0	1	0	0	0	361	943	33	2	1441	2	AFM	4	74364940	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	31469444	74364940	116789336	98	32404										
FRAS1	80144	broad.mit.edu	37	chr4	79308543	79308543	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccacaggccccctatgtgctGagaaatgaagttctccacat	8	13	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:79308543G>C	uc003hlb.2	+	29	4103	c.3663G>C	c.(3661-3663)CTG>CTC	p.L1221L	FRAS1_uc003hkw.2_Silent_p.L1221L	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	1220	CSPG 2.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						CCTATGTGCTGAGAAATGAAG	0.473													3	85	---	---	---	---	PASS	C	79308543	C	C	79308543	2	2	85	1	0	0	0	0	0	0	0	1	6042	1277	45	2		2	FRAS1	4	79308543	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	4943603	79308543	111845733	99	32405										
GK2	2712	broad.mit.edu	37	chr4	80328291	80328291	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggacaaagtaacagccataaGaagttcctacttctttagca	7	9	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:80328291G>A	uc003hlu.2	-	1	1082	c.1064C>T	c.(1063-1065)TCT>TTT	p.S355F		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	355					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						ACAGCCATAAGAAGTTCCTAC	0.438													5	95	---	---	---	---	PASS	A	80328291	A	A	80328291	3	1	85	1	0	0	0	0	1	0	0	0	6421	942	33	2	601	2	GK2	4	80328291	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1019748	80328291	110825985	100	32406										
WDFY3	23001	broad.mit.edu	37	chr4	85687027	85687027	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcaagccatcctccaccactGagtccttctttaaacttgat	4	14	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:85687027G>A	uc003hpd.2	-	32	5532	c.5124C>T	c.(5122-5124)CTC>CTT	p.L1708L		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1708						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CTCCACCACTGAGTCCTTCTT	0.403													4	94	---	---	---	---	PASS	A	85687027	A	A	85687027	2	1	85	1	0	0	0	0	0	0	0	1	17267	1277	45	2		2	WDFY3	4	85687027	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	5358736	85687027	105467249	101	32407										
PTPN13	5783	broad.mit.edu	37	chr4	87655973	87655973	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gcactgtgatgatgagacttCcttattgctggcatccttgg	11	9	0	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:87655973C>A	uc003hpz.2	+	14	2576	c.2096C>A	c.(2095-2097)TCC>TAC	p.S699Y	PTPN13_uc003hpy.2_Missense_Mutation_p.S699Y|PTPN13_uc003hqa.2_Missense_Mutation_p.S699Y|PTPN13_uc003hqb.2_Missense_Mutation_p.S699Y	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	699	FERM.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		GATGAGACTTCCTTATTGCTG	0.408													7	223	---	---	---	---	PASS	A	87655973	A	A	87655973	3	1	85	1	0	0	0	0	1	0	0	0	12782	855	30	2	2146	2	PTPN13	4	87655973	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1968946	87655973	103498303	102	32408										
HERC3	8916	broad.mit.edu	37	chr4	89574214	89574214	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gctgggggatgaataatgccGggcagctagggctcagtgat	17	7	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:89574214G>A	uc003hrw.1	+	6	824	c.658G>A	c.(658-660)GGG>AGG	p.G220R	HERC3_uc003hrv.2_Missense_Mutation_p.G220R|HERC3_uc011cdn.1_Missense_Mutation_p.G102R	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	220	RCC1 5.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		GAATAATGCCGGGCAGCTAGG	0.438													9	91	---	---	---	---	PASS	A	89574214	A	A	89574214	3	1	85	1	0	0	0	0	1	0	0	0	7059	1116	39	1	672	1	HERC3	4	89574214	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1918241	89574214	101580062	103	32409										
HPGDS	27306	broad.mit.edu	37	chr4	95220778	95220778	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtactgcaaatctcccagtaGaagtctgcccaagttaccta	7	12	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:95220778G>A	uc003hte.1	-	6	544	c.453C>T	c.(451-453)TTC>TTT	p.F151F		NM_014485	NP_055300	O60760	HPGDS_HUMAN	prostaglandin D2 synthase, hematopoietic	151	GST C-terminal.				locomotory behavior|prostaglandin biosynthetic process|signal transduction	cytoplasm|nucleus	calcium ion binding|glutathione transferase activity|magnesium ion binding|prostaglandin-D synthase activity|protein homodimerization activity			ovary(1)	1					Glutathione(DB00143)	TCTCCCAGTAGAAGTCTGCCC	0.388													10	57	---	---	---	---	PASS	A	95220778	A	A	95220778	2	1	85	1	0	0	0	0	0	0	0	1	7335	933	33	2		2	HPGDS	4	95220778	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	5646564	95220778	95933498	104	32410										
ADH4	127	broad.mit.edu	37	chr4	100057749	100057749	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acagtgtactgagagaatgtActggttccaaagaaatggta	11	5	0	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:100057749A>T	uc003hun.2	-	5	526	c.450T>A	c.(448-450)AGT>AGA	p.S150R	uc003hum.1_Intron|ADH4_uc011ced.1_Missense_Mutation_p.S169R	NM_000670	NP_000661	P08319	ADH4_HUMAN	class II alcohol dehydrogenase, pi subunit	150					alcohol catabolic process|cellular aldehyde metabolic process|ethanol oxidation|quinone cofactor metabolic process|retinol metabolic process|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	alcohol dehydrogenase activity, zinc-dependent|all-trans retinal binding|benzaldehyde dehydrogenase activity|NAD binding|NADPH:quinone reductase activity|retinol binding|retinol dehydrogenase activity|zinc ion binding			skin(2)	2				OV - Ovarian serous cystadenocarcinoma(123;4.48e-08)	NADH(DB00157)	GAGAGAATGTACTGGTTCCAA	0.388													13	79	---	---	---	---	PASS	T	100057749	T	T	100057749	3	4	85	1	0	0	0	0	1	0	0	0	310	388	14	5	712	5	ADH4	4	100057749	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	4836971	100057749	91096527	105	32411										
FAT4	79633	broad.mit.edu	37	chr4	126336234	126336234	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aagcactgctcaagtctccaTtattttgttggatgtaaatg	8	7	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:126336234T>C	uc003ifj.3	+	5	6116	c.6116T>C	c.(6115-6117)ATT>ACT	p.I2039T	FAT4_uc011cgp.1_Missense_Mutation_p.I337T	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2039	Cadherin 19.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAAGTCTCCATTATTTTGTTG	0.408													21	181	---	---	---	---	PASS	C	126336234	C	C	126336234	3	2	85	1	0	0	0	0	1	0	0	0	5692	1493	52	5	6134	5	FAT4	4	126336234	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	26278485	126336234	64818042	106	32412										
UCP1	7350	broad.mit.edu	37	chr4	141489037	141489037	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccgcaggcagcccgctgtagAgtttcatccgcccttctgtt	10	15	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:141489037A>T	uc011chj.1	-	2	297	c.221T>A	c.(220-222)CTC>CAC	p.L74H	UCP1_uc011chk.1_Missense_Mutation_p.L74H	NM_021833	NP_068605	P25874	UCP1_HUMAN	uncoupling protein 1	74	Solcar 1.|Helical; Name=2; (Potential).				brown fat cell differentiation|cellular lipid metabolic process|respiratory electron transport chain	integral to membrane|mitochondrial inner membrane	binding			ovary(1)	1	all_hematologic(180;0.162)					CCCGCTGTAGAGTTTCATCCG	0.562													9	127	---	---	---	---	PASS	T	141489037	T	T	141489037	3	4	85	1	0	0	0	0	1	0	0	0	16927	304	11	5	720	5	UCP1	4	141489037	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	15152803	141489037	49665239	107	32413										
FHDC1	85462	broad.mit.edu	37	chr4	153896413	153896413	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgagccggtgagcctgggctCagcacagtcccctcctctct	11	16	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:153896413C>T	uc003inf.2	+	11	2045	c.1970C>T	c.(1969-1971)TCA>TTA	p.S657L		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	657					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					AGCCTGGGCTCAGCACAGTCC	0.637													4	55	---	---	---	---	PASS	T	153896413	T	T	153896413	3	4	85	1	0	0	0	0	1	0	0	0	5876	838	29	2	2012	2	FHDC1	4	153896413	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	12407376	153896413	37257863	108	32414										
DDX60L	91351	broad.mit.edu	37	chr4	169305853	169305853	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctgagagggaactgtcctctCagctcaggaacactggatgc	12	11	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:169305853C>G	uc003irq.3	-	30	4247	c.4026G>C	c.(4024-4026)CTG>CTC	p.L1342L		NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	1342	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		ACTGTCCTCTCAGCTCAGGAA	0.502													5	40	---	---	---	---	PASS	G	169305853	G	G	169305853	2	3	85	1	0	0	0	0	0	0	0	1	4379	813	29	2		2	DDX60L	4	169305853	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	15409440	169305853	21848423	109	32415										
DCTD	1635	broad.mit.edu	37	chr4	183812586	183812586	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gactcggtctgctgttaattGaatcaaagtcaatgacaatc	8	8	3	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:183812586G>A	uc003ivf.2	-	6	677	c.503C>T	c.(502-504)TCA>TTA	p.S168L	DCTD_uc003ivg.2_Missense_Mutation_p.S179L|DCTD_uc010irw.2_Missense_Mutation_p.S109L|DCTD_uc003ivh.2_Missense_Mutation_p.S109L	NM_001921	NP_001912	P32321	DCTD_HUMAN	dCMP deaminase isoform b	168					nucleotide biosynthetic process|pyrimidine base metabolic process|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide metabolic process	cytosol	dCMP deaminase activity|zinc ion binding				0		all_lung(41;5.16e-14)|Lung NSC(41;1.33e-13)|Colorectal(36;0.00666)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.202)		all cancers(43;1.65e-24)|Epithelial(43;3.44e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.39e-10)|Colorectal(24;4.69e-07)|COAD - Colon adenocarcinoma(29;7.07e-05)|STAD - Stomach adenocarcinoma(60;0.000118)|GBM - Glioblastoma multiforme(59;0.000472)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.0419)		GCTGTTAATTGAATCAAAGTC	0.348													5	208	---	---	---	---	PASS	A	183812586	A	A	183812586	3	1	85	1	0	0	0	0	1	0	0	0	4305	1294	45	2	37	2	DCTD	4	183812586	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	14506733	183812586	7341690	110	32416										
FAT1	2195	broad.mit.edu	37	chr4	187540391	187540391	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gggcgtgccggtgcaggtttGagagggtgataatccctgtt	17	7	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr4:187540391G>C	uc003izf.2	-	10	7537	c.7349C>G	c.(7348-7350)TCA>TGA	p.S2450*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2450	Extracellular (Potential).|Cadherin 22.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GTGCAGGTTTGAGAGGGTGAT	0.433										HNSCC(5;0.00058)			24	214	---	---	---	---	PASS	C	187540391	C	C	187540391	4	2	85	1	0	0	0	0	0	1	0	0	5689	1294	45	2	6489	2	FAT1	4	187540391	Nonsense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	3727805	187540391	3613885	111	32417										
CDH9	1007	broad.mit.edu	37	chr5	26886084	26886084	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttttcttatacctttattatCtacaatggtgaaattcggat	5	6	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:26886084C>T	uc003jgs.1	-	10	1790	c.1621G>A	c.(1621-1623)GAT>AAT	p.D541N	CDH9_uc011cnv.1_Missense_Mutation_p.D134N	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	541	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						CCTTTATTATCTACAATGGTG	0.303													6	195	---	---	---	---	PASS	T	26886084	T	T	26886084	3	4	85	1	0	0	0	0	1	0	0	0	3117	913	32	2	760	2	CDH9	5	26886084	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08		26886084	154029176	112	32418										
RNASEN	29102	broad.mit.edu	37	chr5	31464342	31464342	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgtcctcagaagtctccccaCctgacagacatcagaacgga	8	14	3	4			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:31464342C>A	uc003jhg.2	-	19	2933	c.2574_splice	c.e19+1	p.Q858_splice	RNASEN_uc003jhh.2_Splice_Site_p.Q821_splice|RNASEN_uc003jhi.2_Splice_Site_p.Q821_splice	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1						gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						AGTCTCCCCACCTGACAGACA	0.408													13	59	---	---	---	---	PASS	A	31464342	A	A	31464342	5	1	85	1	0	0	0	0	0	0	1	0	13417	521	18	3	1617	3	RNASEN	5	31464342	Splice_Site	SNP	C	TCGA-39-5022-01A-21D-1817-08	4578258	31464342	149450918	113	32419										
SUB1	10923	broad.mit.edu	37	chr5	32599095	32599095	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aatgaggtacgttagtgttcGcgattttaaaggcaaagtgc	12	5	0	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:32599095G>A	uc003jhs.2	+	4	352	c.224G>A	c.(223-225)CGC>CAC	p.R75H	SUB1_uc003jht.2_RNA	NM_006713	NP_006704	P53999	TCP4_HUMAN	activated RNA polymerase II transcription	75				R->G: Reduced ssDNA binding.	regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleolus|transcription factor complex	protein binding|single-stranded DNA binding|transcription coactivator activity				0						GTTAGTGTTCGCGATTTTAAA	0.353													7	86	---	---	---	---	PASS	A	32599095	A	A	32599095	3	1	85	1	0	0	0	0	1	0	0	0	15361	1087	38	1	234	1	SUB1	5	32599095	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1134753	32599095	148316165	114	32420										
C9	735	broad.mit.edu	37	chr5	39306829	39306829	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttctttcagttcaaatgcatAttttctggttccacctctta	4	10	5	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:39306829A>T	uc003jlv.3	-	9	1395	c.1306T>A	c.(1306-1308)TAT>AAT	p.Y436N		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	436	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			TCAAATGCATATTTTCTGGTT	0.403													30	113	---	---	---	---	PASS	T	39306829	T	T	39306829	3	4	85	1	0	0	0	0	1	0	0	0	2443	449	16	5	385	5	C9	5	39306829	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	6707734	39306829	141608431	115	32421										
CARD6	84674	broad.mit.edu	37	chr5	40852847	40852847	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttctctaagtccagaatcctCaacacacttctcagccctgc	4	16	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:40852847C>G	uc003jmg.2	+	3	1488	c.1413C>G	c.(1411-1413)CTC>CTG	p.L471L		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	471					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						CCAGAATCCTCAACACACTTC	0.453													15	125	---	---	---	---	PASS	G	40852847	G	G	40852847	2	3	85	1	0	0	0	0	0	0	0	1	2650	813	29	2		2	CARD6	5	40852847	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	1546018	40852847	140062413	116	32422										
OTP	23440	broad.mit.edu	37	chr5	76932787	76932787	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtccggtggcgcttctgcttCtgttggccctgctgctggcc	14	14	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:76932787C>T	uc003kfg.2	-	2	454	c.306G>A	c.(304-306)CAG>CAA	p.Q102Q		NM_032109	NP_115485	Q5XKR4	OTP_HUMAN	orthopedia homeobox	102						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.000601)|Ovarian(174;0.0105)|Prostate(461;0.214)		OV - Ovarian serous cystadenocarcinoma(54;9.04e-51)|Epithelial(54;1.62e-45)|all cancers(79;4.4e-41)		GCTTCTGCTTCTGTTGGCCCT	0.677													9	147	---	---	---	---	PASS	T	76932787	T	T	76932787	2	4	85	1	0	0	0	0	0	0	0	1	11310	912	32	2		2	OTP	5	76932787	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	36079940	76932787	103982473	117	32423										
TTC37	9652	broad.mit.edu	37	chr5	94852864	94852864	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aattaccttcctccaaggtgGaggagctcatttttctttaa	7	9	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:94852864G>C	uc003klb.2	-	21	2547	c.2277C>G	c.(2275-2277)CTC>CTG	p.L759L		NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	759							binding			ovary(3)|pancreas(1)	4						CTCCAAGGTGGAGGAGCTCAT	0.358													5	52	---	---	---	---	PASS	C	94852864	C	C	94852864	2	2	85	1	0	0	0	0	0	0	0	1	16702	1161	41	2		2	TTC37	5	94852864	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	17920077	94852864	86062396	118	32424										
PCSK1	5122	broad.mit.edu	37	chr5	95759116	95759116	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cctttttgccaaacaggtatCacatgaaggtccagcttggg	10	10	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:95759116C>G	uc003kls.1	-	4	650	c.444G>C	c.(442-444)GTG>GTC	p.V148V		NM_000439	NP_000430	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	148	Catalytic.				cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity			ovary(2)	2		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AAACAGGTATCACATGAAGGT	0.438													4	46	---	---	---	---	PASS	G	95759116	G	G	95759116	2	3	85	1	0	0	0	0	0	0	0	1	11600	813	29	2		2	PCSK1	5	95759116	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	906252	95759116	85156144	119	32425										
MATR3	9782	broad.mit.edu	37	chr5	138654711	138654711	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttcatttatcccagaagtatAaaagaataaaggtaatgttt	6	4	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:138654711A>T	uc003ldu.2	+	11	1850	c.1423A>T	c.(1423-1425)AAA>TAA	p.K475*	MATR3_uc010jfb.2_Nonsense_Mutation_p.K475*|MATR3_uc003ldt.2_Nonsense_Mutation_p.K137*|MATR3_uc003ldw.2_Nonsense_Mutation_p.K475*|MATR3_uc003ldx.2_Nonsense_Mutation_p.K475*|MATR3_uc010jfc.2_Nonsense_Mutation_p.K475*|MATR3_uc003ldy.2_Nonsense_Mutation_p.K152*|MATR3_uc011czb.1_Nonsense_Mutation_p.K187*|MATR3_uc003ldz.2_Nonsense_Mutation_p.K475*|MATR3_uc003lea.2_Nonsense_Mutation_p.K475*|MATR3_uc003leb.2_Nonsense_Mutation_p.K137*|MATR3_uc003lec.2_Nonsense_Mutation_p.K152*	NM_199189	NP_954659	P43243	MATR3_HUMAN	matrin 3	475						nuclear inner membrane|nuclear matrix	nucleotide binding|protein binding|RNA binding|structural molecule activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CCAGAAGTATAAAAGAATAAA	0.338													4	45	---	---	---	---	PASS	T	138654711	T	T	138654711	4	4	85	1	0	0	0	0	0	1	0	0	9337	363	13	5	1449	5	MATR3	5	138654711	Nonsense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	42895595	138654711	42260549	120	32426										
PCDHAC2	56134	broad.mit.edu	37	chr5	140346482	140346482	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tggccctgcggcctcccagcTgcgatactctgtgccagagg	13	15	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:140346482T>A	uc003lii.2	+	1	371	c.131T>A	c.(130-132)CTG>CAG	p.L44Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Missense_Mutation_p.L44Q	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	44	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCTCCCAGCTGCGATACTCT	0.572													5	12	---	---	---	---	PASS	A	140346482	A	A	140346482	3	1	85	1	0	0	0	0	1	0	0	0	11533	1580	55	5	133	5	PCDHAC2	5	140346482	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	1691771	140346482	40568778	121	32427										
PCDHB7	56129	broad.mit.edu	37	chr5	140554092	140554092	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggacgccaacgacaactcgcCcttcgtgctgtacccgctgc	10	17	0	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:140554092C>A	uc003lit.2	+	1	1850	c.1676C>A	c.(1675-1677)CCC>CAC	p.P559H		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	559	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GACAACTCGCCCTTCGTGCTG	0.726													8	90	---	---	---	---	PASS	A	140554092	A	A	140554092	3	1	85	1	0	0	0	0	1	0	0	0	11547	623	22	3	1678	3	PCDHB7	5	140554092	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	207610	140554092	40361168	122	32428										
TIMD4	91937	broad.mit.edu	37	chr5	156390205	156390205	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agagaatgagaggttctttgGacattttgacggttgaccgg	14	5	1	4			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:156390205G>C	uc003lwh.2	-	1	62	c.5C>G	c.(4-6)TCC>TGC	p.S2C	TIMD4_uc010jii.2_Missense_Mutation_p.S2C	NM_138379	NP_612388	Q96H15	TIMD4_HUMAN	T-cell immunoglobulin and mucin domain	2						integral to membrane				ovary(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AGGTTCTTTGGACATTTTGAC	0.448													13	138	---	---	---	---	PASS	C	156390205	C	C	156390205	3	2	85	1	0	0	0	0	1	0	0	0	15900	1174	41	2	1167	2	TIMD4	5	156390205	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	15836113	156390205	24525055	123	32429										
THG1L	54974	broad.mit.edu	37	chr5	157158520	157158520	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	atcactctgagacggtacctGagattgggggcgaccatggc	14	10	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:157158520G>C	uc003lxd.2	+	1	198	c.72G>C	c.(70-72)CTG>CTC	p.L24L	THG1L_uc011ddu.1_5'UTR	NM_017872	NP_060342	Q9NWX6	THG1_HUMAN	interphase cytoplasmic foci protein 45	24					protein homotetramerization|tRNA modification	mitochondrion	GTP binding|metal ion binding|tRNA guanylyltransferase activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GACGGTACCTGAGATTGGGGG	0.557													4	167	---	---	---	---	PASS	C	157158520	C	C	157158520	2	2	85	1	0	0	0	0	0	0	0	1	15858	1277	45	2		2	THG1L	5	157158520	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	768315	157158520	23756740	124	32430										
RNF145	153830	broad.mit.edu	37	chr5	158585685	158585685	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgctgcttctcctctaggctGattcaacaggatgtgcttca	9	11	4	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:158585685G>A	uc003lxp.2	-	11	2298	c.1985C>T	c.(1984-1986)TCA>TTA	p.S662L	RNF145_uc011ddy.1_Missense_Mutation_p.S676L|RNF145_uc003lxo.1_Missense_Mutation_p.S690L|RNF145_uc011ddz.1_Missense_Mutation_p.S679L|RNF145_uc010jiq.1_Missense_Mutation_p.S692L	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	662						integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCTCTAGGCTGATTCAACAGG	0.423													18	213	---	---	---	---	PASS	A	158585685	A	A	158585685	3	1	85	1	0	0	0	0	1	0	0	0	13447	1294	45	2	10	2	RNF145	5	158585685	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1427165	158585685	22329575	125	32431										
ATP10B	23120	broad.mit.edu	37	chr5	160047610	160047610	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agggcggcctcatcagggctCtcagcctcgtaacagaactc	11	14	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:160047610C>G	uc003lym.1	-	15	3007	c.2160G>C	c.(2158-2160)GAG>GAC	p.E720D	ATP10B_uc010jit.1_Missense_Mutation_p.E37D|ATP10B_uc003lyn.2_Missense_Mutation_p.E278D	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	720	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CATCAGGGCTCTCAGCCTCGT	0.642													5	63	---	---	---	---	PASS	G	160047610	G	G	160047610	3	3	85	1	0	0	0	0	1	0	0	0	1117	912	32	2	2273	2	ATP10B	5	160047610	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1461925	160047610	20867650	126	32432										
ZNF346	23567	broad.mit.edu	37	chr5	176477774	176477774	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttgcaccagaatagagagatGatagacccagacaagttctg	10	8	1	6			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr5:176477774G>C	uc003mfi.2	+	5	583	c.540G>C	c.(538-540)ATG>ATC	p.M180I	ZNF346_uc011dfr.1_Missense_Mutation_p.M148I|ZNF346_uc011dfs.1_Missense_Mutation_p.M82I|ZNF346_uc003mfj.2_Intron|ZNF346_uc003mfk.1_Missense_Mutation_p.M205I|ZNF346_uc011dft.1_Intron	NM_012279	NP_036411	Q9UL40	ZN346_HUMAN	zinc finger protein 346	180						cytoplasm|nucleolus	double-stranded RNA binding|zinc ion binding				0	all_cancers(89;6.3e-05)|Renal(175;0.000269)|Lung NSC(126;0.00476)|all_lung(126;0.00806)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ATAGAGAGATGATAGACCCAG	0.463													11	90	---	---	---	---	PASS	C	176477774	C	C	176477774	3	2	85	1	0	0	0	0	1	0	0	0	17857	1290	45	2	558	2	ZNF346	5	176477774	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	16430164	176477774	4437486	127	32433										
SERPINB6	5269	broad.mit.edu	37	chr6	2948803	2948803	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	catcagtcatgcccaggttgCgcaggacactctccatgtcg	10	14	3	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:2948803C>T	uc003muk.2	-	6	2855	c.860G>A	c.(859-861)CGC>CAC	p.R287H	SERPINB6_uc003mui.2_Missense_Mutation_p.R170H|SERPINB6_uc003muj.2_RNA|SERPINB6_uc003mul.2_Missense_Mutation_p.R287H|SERPINB6_uc003mum.2_Missense_Mutation_p.R287H|SERPINB6_uc003mun.2_Missense_Mutation_p.R287H|SERPINB6_uc003muo.2_Missense_Mutation_p.R287H	NM_004568	NP_004559	P35237	SPB6_HUMAN	serine (or cysteine) proteinase inhibitor, clade	287					regulation of proteolysis	centrosome|cytosol|protein complex	protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Drotrecogin alfa(DB00055)	GCCCAGGTTGCGCAGGACACT	0.537													10	207	---	---	---	---	PASS	T	2948803	T	T	2948803	3	4	85	1	0	0	0	0	1	0	0	0	14105	768	27	1	274	1	SERPINB6	6	2948803	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08		2948803	168166264	128	32434										
MYLIP	29116	broad.mit.edu	37	chr6	16130818	16130818	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gactgggaatcatagaagttGactattttggactgcagttt	11	5	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:16130818G>A	uc003nbq.2	+	2	355	c.118G>A	c.(118-120)GAC>AAC	p.D40N	MYLIP_uc003nbr.2_Intron	NM_013262	NP_037394	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting	40	FERM.				cellular component movement|nervous system development	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)			CATAGAAGTTGACTATTTTGG	0.478													9	148	---	---	---	---	PASS	A	16130818	A	A	16130818	3	1	85	1	0	0	0	0	1	0	0	0	10055	1290	45	2	124	2	MYLIP	6	16130818	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	13182015	16130818	154984249	129	32435										
FAM65B	9750	broad.mit.edu	37	chr6	24865603	24865603	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tttgctggcaggggatgttgCgaaggcttgcttcattttgc	14	7	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:24865603C>T	uc003neo.1	-	7	666	c.490G>A	c.(490-492)GCA>ACA	p.A164T	FAM65B_uc011djs.1_Missense_Mutation_p.A193T|FAM65B_uc011dju.1_Missense_Mutation_p.A198T|FAM65B_uc003nep.2_Missense_Mutation_p.A164T|FAM65B_uc011djt.1_Missense_Mutation_p.A164T	NM_014722	NP_055537	Q9Y4F9	FA65B_HUMAN	hypothetical protein LOC9750 isoform 1	164					cell differentiation|muscle organ development	cytoskeleton|filopodium|mitochondrion	binding			ovary(1)	1						GGGGATGTTGCGAAGGCTTGC	0.493													4	73	---	---	---	---	PASS	T	24865603	T	T	24865603	3	4	85	1	0	0	0	0	1	0	0	0	5600	768	27	1	2794	1	FAM65B	6	24865603	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	8734785	24865603	146249464	130	32436										
HIST1H2BI	8346	broad.mit.edu	37	chr6	26273483	26273483	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gctcgaccatcacttccaggGagatccaaacggctgtgcgc	11	14	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:26273483G>C	uc003nhk.2	+	1	280	c.280G>C	c.(280-282)GAG>CAG	p.E94Q	HIST1H3G_uc003nhi.2_5'Flank	NM_003525	NP_003516	P62807	H2B1C_HUMAN	histone cluster 1, H2bi	94					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0						CACTTCCAGGGAGATCCAAAC	0.592													3	127	---	---	---	---	PASS	C	26273483	C	C	26273483	3	2	85	1	0	0	0	0	1	0	0	0	7148	1175	41	2	282	2	HIST1H2BI	6	26273483	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1407880	26273483	144841584	131	32437										
MOG	4340	broad.mit.edu	37	chr6	29627140	29627140	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gacaccctatccgggctctgGtcggggatgaagtggaattg	15	9	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:29627140G>A	uc003nnf.2	+	2	311	c.133G>A	c.(133-135)GTC>ATC	p.V45I	MOG_uc003qzk.1_Missense_Mutation_p.V45I|MOG_uc010kle.1_Intron|MOG_uc010klf.1_Intron|MOG_uc003nmy.1_Missense_Mutation_p.V45I|MOG_uc003nmz.2_Missense_Mutation_p.V45I|MOG_uc011dlt.1_5'UTR|MOG_uc003nna.2_Intron|MOG_uc011dlu.1_Intron|MOG_uc011dlv.1_Intron|MOG_uc003nnd.2_Missense_Mutation_p.V45I|MOG_uc003nne.2_Missense_Mutation_p.V45I|MOG_uc003nng.2_Missense_Mutation_p.V45I|MOG_uc003nnh.2_Missense_Mutation_p.V45I|MOG_uc003nni.2_Missense_Mutation_p.V45I|MOG_uc003nnj.2_Missense_Mutation_p.V45I|MOG_uc003nnk.2_Missense_Mutation_p.V45I	NM_206809	NP_996532	Q16653	MOG_HUMAN	myelin oligodendrocyte glycoprotein isoform	45	Ig-like V-type.|Extracellular (Potential).				cell adhesion|central nervous system development|positive regulation of MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)	1						CCGGGCTCTGGTCGGGGATGA	0.547													70	189	---	---	---	---	PASS	A	29627140	A	A	29627140	3	1	85	1	0	0	0	0	1	0	0	0	9693	1261	44	3	139	3	MOG	6	29627140	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	3353657	29627140	141487927	132	32438										
C6orf27	80737	broad.mit.edu	37	chr6	31733830	31733830	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cgactcattcagttccaggtGagccctggagagaggatata	12	9	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:31733830G>A	uc011dog.1	-	16	2567	c.2329C>T	c.(2329-2331)CAC>TAC	p.H777Y		NM_025258	NP_079534	Q9Y334	G7C_HUMAN	G7c protein precursor	777						extracellular region				ovary(3)	3						AGTTCCAGGTGAGCCCTGGAG	0.647													10	126	---	---	---	---	PASS	A	31733830	A	A	31733830	3	1	85	1	0	0	0	0	1	0	0	0	2362	1290	45	2	353	2	C6orf27	6	31733830	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2106690	31733830	139381237	133	32439										
HSPA1L	3305	broad.mit.edu	37	chr6	31778604	31778604	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttctcagacttgtcccccatCaggatggctgcttgtaccgc	9	14	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:31778604C>G	uc003nxh.2	-	2	1329	c.1146G>C	c.(1144-1146)CTG>CTC	p.L382L	HSPA1L_uc010jte.2_Silent_p.L382L	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	382					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						TGTCCCCCATCAGGATGGCTG	0.597													4	101	---	---	---	---	PASS	G	31778604	G	G	31778604	2	3	85	1	0	0	0	0	0	0	0	1	7410	813	29	2		2	HSPA1L	6	31778604	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	44774	31778604	139336463	134	32440										
SLC39A7	7922	broad.mit.edu	37	chr6	33169260	33169260	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	atggacatacccacgatcacGaccatggacattcacatgag	8	12	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:33169260G>C	uc003odf.2	+	2	355	c.238G>C	c.(238-240)GAC>CAC	p.D80H	RXRB_uc003odb.2_5'Flank|RXRB_uc003odc.2_5'Flank|RXRB_uc003odd.2_5'Flank|RXRB_uc011dqr.1_5'Flank|RXRB_uc011dqs.1_5'Flank|RXRB_uc003ode.1_5'Flank|RXRB_uc011dqt.1_5'Flank|RXRB_uc011dqu.1_5'Flank|SLC39A7_uc003odg.2_Missense_Mutation_p.D80H|SLC39A7_uc011dqv.1_Intron|SLC39A7_uc003odh.2_5'Flank	NM_001077516	NP_001070984	Q92504	S39A7_HUMAN	solute carrier family 39, member 7	80	His-rich.					endoplasmic reticulum membrane|integral to membrane|membrane fraction	protein binding|zinc ion transmembrane transporter activity			large_intestine(1)	1						CCACGATCACGACCATGGACA	0.537													3	128	---	---	---	---	PASS	C	33169260	C	C	33169260	3	2	85	1	0	0	0	0	1	0	0	0	14623	1058	37	2	240	2	SLC39A7	6	33169260	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1390656	33169260	137945807	135	32441										
ETV7	51513	broad.mit.edu	37	chr6	36336811	36336811	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggctcatatcgggtatcaagGagcagctgatacacgtaatc	11	9	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:36336811G>A	uc003omb.2	-	6	851	c.702C>T	c.(700-702)CTC>CTT	p.L234L	ETV7_uc003olz.1_Silent_p.L234L|ETV7_uc003oma.1_Silent_p.L179L|ETV7_uc010jwg.2_RNA|ETV7_uc003omc.2_Silent_p.L179L|ETV7_uc010jwj.2_Silent_p.L175L|ETV7_uc010jwh.2_Silent_p.L153L|ETV7_uc010jwi.2_Silent_p.L157L|ETV7_uc011dtl.1_Silent_p.L83L	NM_016135	NP_057219	Q9Y603	ETV7_HUMAN	ets variant 7	234	ETS.				organ morphogenesis|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GGGTATCAAGGAGCAGCTGAT	0.537													5	109	---	---	---	---	PASS	A	36336811	A	A	36336811	2	1	85	1	0	0	0	0	0	0	0	1	5284	1161	41	2		2	ETV7	6	36336811	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	3167551	36336811	134778256	136	32442										
TJAP1	93643	broad.mit.edu	37	chr6	43472651	43472651	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aagccggagtctctactgctCaattcagcccagtcaggcag	10	13	4	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:43472651C>G	uc003ovd.2	+	11	1108	c.732C>G	c.(730-732)CTC>CTG	p.L244L	TJAP1_uc003ovf.2_Silent_p.L234L|TJAP1_uc003ove.2_Silent_p.L234L|TJAP1_uc003ovc.2_Silent_p.L234L|TJAP1_uc010jyp.2_Silent_p.L203L|TJAP1_uc011dvh.1_Silent_p.L234L|TJAP1_uc003ovg.2_Silent_p.L110L|TJAP1_uc011dvi.1_Silent_p.L244L|TJAP1_uc011dvj.1_Silent_p.L44L|TJAP1_uc003ovi.2_Silent_p.L110L	NM_001146016	NP_001139488	Q5JTD0	TJAP1_HUMAN	tight junction associated protein 1 isoform a	244						Golgi apparatus|tight junction	protein binding				0	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0122)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CTCTACTGCTCAATTCAGCCC	0.632													6	152	---	---	---	---	PASS	G	43472651	G	G	43472651	2	3	85	1	0	0	0	0	0	0	0	1	15925	813	29	2		2	TJAP1	6	43472651	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	7135840	43472651	127642416	137	32443										
MUT	4594	broad.mit.edu	37	chr6	49416531	49416531	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	actttctcactatcttaccaGaatctattctagcttgtctt	3	11	5	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:49416531G>C	uc003ozg.3	-	7	1697	c.1442C>G	c.(1441-1443)TCT>TGT	p.S481C		NM_000255	NP_000246	P22033	MUTA_HUMAN	methylmalonyl Coenzyme A mutase precursor	481					fatty acid beta-oxidation	mitochondrial matrix	cobalamin binding|metal ion binding|methylmalonyl-CoA mutase activity				0	Lung NSC(77;0.0376)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TATCTTACCAGAATCTATTCT	0.333													4	169	---	---	---	---	PASS	C	49416531	C	C	49416531	3	2	85	1	0	0	0	0	1	0	0	0	9991	942	33	2	838	2	MUT	6	49416531	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	5943880	49416531	121698536	138	32444										
CRISP3	10321	broad.mit.edu	37	chr6	49704215	49704215	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gttaacaaagcagtaaaagcGggatcctaagggaaaataaa	10	5	0	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:49704215G>T	uc003ozs.2	-	3	93	c.78C>A	c.(76-78)CCC>CCA	p.P26P		NM_006061	NP_006052	P54108	CRIS3_HUMAN	cysteine-rich secretory protein 3 precursor	26					innate immune response	proteinaceous extracellular matrix|specific granule		p.P26P(1)		skin(2)	2	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			CAGTAAAAGCGGGATCCTAAG	0.368													39	192	---	---	---	---	PASS	T	49704215	T	T	49704215	2	4	85	1	0	0	0	0	0	0	0	1	3881	1103	39	1		1	CRISP3	6	49704215	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	287684	49704215	121410852	139	32445										
PKHD1	5314	broad.mit.edu	37	chr6	51890607	51890607	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtgtctcaacatcacagttcAggttccccagaaggatgact	9	11	3	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:51890607A>G	uc003pah.1	-	32	4277	c.4001T>C	c.(4000-4002)CTG>CCG	p.L1334P	PKHD1_uc003pai.2_Missense_Mutation_p.L1334P	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1334	IPT/TIG 8; atypical.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					ATCACAGTTCAGGTTCCCCAG	0.527													3	113	---	---	---	---	PASS	G	51890607	G	G	51890607	3	3	85	1	0	0	0	0	1	0	0	0	11971	188	7	5	8406	5	PKHD1	6	51890607	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	2186392	51890607	119224460	140	32446										
PKHD1	5314	broad.mit.edu	37	chr6	51900492	51900492	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggctaacaccttccaaactaGagcctcggatggtggcccag	11	13	0	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:51900492G>A	uc003pah.1	-	28	3401	c.3125C>T	c.(3124-3126)TCT>TTT	p.S1042F	PKHD1_uc003pai.2_Missense_Mutation_p.S1042F	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1042	IPT/TIG 5.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TTCCAAACTAGAGCCTCGGAT	0.433													11	142	---	---	---	---	PASS	A	51900492	A	A	51900492	3	1	85	1	0	0	0	0	1	0	0	0	11971	942	33	2	9298	2	PKHD1	6	51900492	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	9885	51900492	119214575	141	32447										
PHIP	55023	broad.mit.edu	37	chr6	79655828	79655828	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctacaaccactcggttgcttCtggttcgaaccacagaacta	7	13	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:79655828C>T	uc003pir.2	-	38	4746	c.4520G>A	c.(4519-4521)AGA>AAA	p.R1507K	PHIP_uc003piq.2_Missense_Mutation_p.R531K|PHIP_uc011dyp.1_Missense_Mutation_p.R1506K|IRAK1BP1_uc010kbg.1_RNA|PHIP_uc003pio.3_Missense_Mutation_p.R393K	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1507					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)		TCGGTTGCTTCTGGTTCGAAC	0.428													4	92	---	---	---	---	PASS	T	79655828	T	T	79655828	3	4	85	1	0	0	0	0	1	0	0	0	11842	913	32	2	957	2	PHIP	6	79655828	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	27755336	79655828	91459239	142	32448										
TBX18	9096	broad.mit.edu	37	chr6	85446684	85446684	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aaaagtattataggaaccctGatgggtctggttagtggcga	13	5	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:85446684G>A	uc003pkl.1	-	8	1543	c.1543C>T	c.(1543-1545)CAG>TAG	p.Q515*	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	515					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TAGGAACCCTGATGGGTCTGG	0.483													15	247	---	---	---	---	PASS	A	85446684	A	A	85446684	4	1	85	1	0	0	0	0	0	1	0	0	15650	1299	45	2	284	2	TBX18	6	85446684	Nonsense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	5790856	85446684	85668383	143	32449										
FAM162B	221303	broad.mit.edu	37	chr6	117086374	117086374	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccacagcaggattttcttgtCgaactgcgaaggcctgcgct	11	12	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:117086374C>A	uc003pxi.2	-	2	364	c.217G>T	c.(217-219)GAC>TAC	p.D73Y		NM_001085480	NP_001078949	Q5T6X4	F162B_HUMAN	hypothetical protein LOC221303	73						integral to membrane					0						ATTTTCTTGTCGAACTGCGAA	0.617													6	56	---	---	---	---	PASS	A	117086374	A	A	117086374	3	1	85	1	0	0	0	0	1	0	0	0	5475	884	31	2	283	2	FAM162B	6	117086374	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	31639690	117086374	54028693	144	32450										
MCM9	254394	broad.mit.edu	37	chr6	119243248	119243248	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acttccaacagatagcctttGaacctagcaaagaaaagaaa	6	9	0	4			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:119243248G>T	uc003pyh.2	-	4	888	c.625C>A	c.(625-627)CAA>AAA	p.Q209K		NM_153255	NP_694987	Q9NXL9	MCM9_HUMAN	minichromosome maintenance complex component 9	209					DNA replication		ATP binding|DNA binding|nucleoside-triphosphatase activity			ovary(1)	1		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0676)|OV - Ovarian serous cystadenocarcinoma(136;0.194)		GATAGCCTTTGAACCTAGCAA	0.338													9	140	---	---	---	---	PASS	T	119243248	T	T	119243248	3	4	85	1	0	0	0	0	1	0	0	0	9394	1299	45	2	566	2	MCM9	6	119243248	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2156874	119243248	51871819	145	32451										
C6orf174	387104	broad.mit.edu	37	chr6	127837647	127837647	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtctagcgggtgactgagctCgctgctgctttctgctgctg	14	11	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:127837647C>T	uc003qbd.2	-	2	978	c.113G>A	c.(112-114)CGA>CAA	p.R38Q		NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	38						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		TGACTGAGCTCGCTGCTGCTT	0.662													6	40	---	---	---	---	PASS	T	127837647	T	T	127837647	3	4	85	1	0	0	0	0	1	0	0	0	2345	884	31	2	2754	2	C6orf174	6	127837647	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	8594399	127837647	43277420	146	32452										
C6orf191	253582	broad.mit.edu	37	chr6	130164698	130164698	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tatagtttatgttgagccatGagggatttgttttgaaatca	10	3	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:130164698G>A	uc003qbs.2	-	3	253	c.170C>T	c.(169-171)TCA>TTA	p.S57L		NM_001010876	NP_001010876	Q5VVB8	CF191_HUMAN	hypothetical protein LOC253582	57						integral to membrane				large_intestine(1)	1				GBM - Glioblastoma multiforme(226;0.0387)|all cancers(137;0.115)|OV - Ovarian serous cystadenocarcinoma(155;0.131)		GTTGAGCCATGAGGGATTTGT	0.299													17	147	---	---	---	---	PASS	A	130164698	A	A	130164698	3	1	85	1	0	0	0	0	1	0	0	0	2348	1294	45	2	228	2	C6orf191	6	130164698	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2327051	130164698	40950369	147	32453										
PDCD2	5134	broad.mit.edu	37	chr6	170892684	170892684	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gctttgtggcatctggagcaCgttttggggcctaaacagcc	13	10	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr6:170892684C>A	uc003qxw.2	-	2	514	c.435G>T	c.(433-435)ACG>ACT	p.T145T	PDCD2_uc003qxv.2_Silent_p.T112T|PDCD2_uc003qxx.1_Silent_p.T145T|PDCD2_uc003qxy.2_Silent_p.T112T|PDCD2_uc003qxz.2_Silent_p.T145T|PDCD2_uc003qya.2_Silent_p.T112T|PDCD2_uc003qyb.1_Silent_p.T68T	NM_002598	NP_002589	Q16342	PDCD2_HUMAN	programmed cell death 2 isoform 1	145	MYND-type.				apoptosis	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding				0		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|BRCA - Breast invasive adenocarcinoma(81;4.82e-06)|GBM - Glioblastoma multiforme(31;0.142)		ATCTGGAGCACGTTTTGGGGC	0.507													3	83	---	---	---	---	PASS	A	170892684	A	A	170892684	2	1	85	1	0	0	0	0	0	0	0	1	11619	523	19	1		1	PDCD2	6	170892684	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	40727986	170892684	222383	148	32454										
ACTB	60	broad.mit.edu	37	chr7	5567445	5567445	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcctgcttgctgatccacatCtgctggaaggtggacagcga	12	11	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr7:5567445C>G	uc003sos.3	-	5	1098	c.1062G>C	c.(1060-1062)CAG>CAC	p.Q354H	ACTB_uc003sor.3_Missense_Mutation_p.Q232H|ACTB_uc003sot.3_Missense_Mutation_p.Q354H|ACTB_uc003soq.3_Missense_Mutation_p.Q232H|ACTB_uc010ksy.2_Missense_Mutation_p.Q232H	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	354					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		TGATCCACATCTGCTGGAAGG	0.577													13	145	---	---	---	---	PASS	G	5567445	G	G	5567445	3	3	85	1	0	0	0	0	1	0	0	0	193	912	32	2	69	2	ACTB	7	5567445	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08		5567445	153571218	149	32455										
THSD7A	221981	broad.mit.edu	37	chr7	11675950	11675950	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccgttctttattcttcccgcGtctccttgcttgtcttactt	5	14	4	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr7:11675950G>A	uc003ssf.3	-	2	1081	c.829C>T	c.(829-831)CGC>TGC	p.R277C		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	277	Extracellular (Potential).|Potential.					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TTCTTCCCGCGTCTCCTTGCT	0.537										HNSCC(18;0.044)			19	137	---	---	---	---	PASS	A	11675950	A	A	11675950	3	1	85	1	0	0	0	0	1	0	0	0	15876	1145	40	1	4248	1	THSD7A	7	11675950	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	6108505	11675950	147462713	150	32456										
HIP1	3092	broad.mit.edu	37	chr7	75186969	75186969	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cccactcaccttccgctggcCctggtcactgatgcgctcca	8	19	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr7:75186969C>A	uc003uds.1	-	16	1611	c.1570G>T	c.(1570-1572)GGC>TGC	p.G524C	HIP1_uc011kfz.1_Missense_Mutation_p.G401C	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	524	Potential.				activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						TTCCGCTGGCCCTGGTCACTG	0.582			T	PDGFRB	CMML								18	184	---	---	---	---	PASS	A	75186969	A	A	75186969	3	1	85	1	0	0	0	0	1	0	0	0	7114	623	22	3	1607	3	HIP1	7	75186969	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	63511019	75186969	83951694	151	32457										
PCLO	27445	broad.mit.edu	37	chr7	82764823	82764823	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gcatccttctttggggaagtCtgctgtggctgtggggatga	16	7	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr7:82764823C>A	uc003uhx.2	-	3	2332	c.2043G>T	c.(2041-2043)CAG>CAT	p.Q681H	PCLO_uc003uhv.2_Missense_Mutation_p.Q681H	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	627	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTGGGGAAGTCTGCTGTGGCT	0.527													6	70	---	---	---	---	PASS	A	82764823	A	A	82764823	3	1	85	1	0	0	0	0	1	0	0	0	11583	912	32	2	13494	2	PCLO	7	82764823	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	7577854	82764823	76373840	152	32458										
BAIAP2L1	55971	broad.mit.edu	37	chr7	97944898	97944898	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	atgaatttctggatttcactCtgacgagaagtaacggtctc	9	8	4	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr7:97944898C>G	uc003upj.2	-	7	776	c.513G>C	c.(511-513)CAG>CAC	p.Q171H		NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1	171	IMD.				filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			GGATTTCACTCTGACGAGAAG	0.393													3	119	---	---	---	---	PASS	G	97944898	G	G	97944898	3	3	85	1	0	0	0	0	1	0	0	0	1302	912	32	2	1054	2	BAIAP2L1	7	97944898	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	15180075	97944898	61193765	153	32459										
MUC17	140453	broad.mit.edu	37	chr7	100684326	100684326	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	atctacaactgctgaaggtaCcagcattccaacctcaactc	5	14	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr7:100684326C>T	uc003uxp.1	+	3	9682	c.9629C>T	c.(9628-9630)ACC>ATC	p.T3210I	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3210	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|52.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GCTGAAGGTACCAGCATTCCA	0.498													10	406	---	---	---	---	PASS	T	100684326	T	T	100684326	3	4	85	1	0	0	0	0	1	0	0	0	9974	507	18	3	9639	3	MUC17	7	100684326	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	2739428	100684326	58454337	154	32460										
RELN	5649	broad.mit.edu	37	chr7	103290727	103290727	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gcataaacactaaccattatCaattgcccacatgtttccaa	3	12	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr7:103290727C>G	uc003vca.2	-	16	2156	c.1996G>C	c.(1996-1998)GAT>CAT	p.D666H	RELN_uc010liz.2_Missense_Mutation_p.D666H	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	666					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TAACCATTATCAATTGCCCAC	0.438													13	102	---	---	---	---	PASS	G	103290727	G	G	103290727	3	3	85	1	0	0	0	0	1	0	0	0	13220	826	29	2	8586	2	RELN	7	103290727	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	2606401	103290727	55847936	155	32461										
FOXP2	93986	broad.mit.edu	37	chr7	114282526	114282526	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtgactggagttcacagtatGgaagacaatggcattaaaca	11	6	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr7:114282526G>C	uc003vhb.2	+	7	1211	c.837G>C	c.(835-837)ATG>ATC	p.M279I	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Missense_Mutation_p.M304I|FOXP2_uc003vha.2_Missense_Mutation_p.M187I|FOXP2_uc011kmu.1_Missense_Mutation_p.M296I|FOXP2_uc011kmv.1_Missense_Mutation_p.M278I|FOXP2_uc010ljz.1_Missense_Mutation_p.M187I|FOXP2_uc003vgx.2_Missense_Mutation_p.M279I|FOXP2_uc003vhd.2_Missense_Mutation_p.M279I|FOXP2_uc003vhc.2_Missense_Mutation_p.M304I	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	279					camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	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(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						TTCACAGTATGGAAGACAATG	0.428													8	54	---	---	---	---	PASS	C	114282526	C	C	114282526	3	2	85	1	0	0	0	0	1	0	0	0	6027	1348	47	4	993	4	FOXP2	7	114282526	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	10991799	114282526	44856137	156	32462										
IQUB	154865	broad.mit.edu	37	chr7	123150018	123150018	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtgtgaaaaatggtccttaaGatatttaagaatggtatcaa	9	3	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr7:123150018G>C	uc003vkn.2	-	3	1046	c.469C>G	c.(469-471)CTT>GTT	p.L157V	IQUB_uc003vko.2_Missense_Mutation_p.L157V|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Missense_Mutation_p.L157V|IQUB_uc003vkq.2_Missense_Mutation_p.L157V	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	157	Ubiquitin-like.									ovary(3)|large_intestine(1)	4						TGGTCCTTAAGATATTTAAGA	0.308													26	258	---	---	---	---	PASS	C	123150018	C	C	123150018	3	2	85	1	0	0	0	0	1	0	0	0	7820	942	33	2	1950	2	IQUB	7	123150018	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	8867492	123150018	35988645	157	32463										
LRGUK	136332	broad.mit.edu	37	chr7	133861738	133861738	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	attttaaataggaaaagtctGaatattggttcttcgtaatt	7	3	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr7:133861738G>C	uc003vrm.1	+	9	1046	c.1030G>C	c.(1030-1032)GAA>CAA	p.E344Q		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	344	LRRCT.						ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						GGAAAAGTCTGAATATTGGTT	0.353													3	94	---	---	---	---	PASS	C	133861738	C	C	133861738	3	2	85	1	0	0	0	0	1	0	0	0	8943	1291	45	2	1064	2	LRGUK	7	133861738	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	10711720	133861738	25276925	158	32464										
INSIG1	3638	broad.mit.edu	37	chr7	155094081	155094081	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tggggatcaccatagcttttCtagctacgctgatcacgcag	10	11	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr7:155094081C>G	uc003wly.2	+	4	869	c.658C>G	c.(658-660)CTA>GTA	p.L220V	INSIG1_uc011kvu.1_Missense_Mutation_p.L68V|INSIG1_uc003wlz.2_Intron	NM_005542	NP_005533	O15503	INSI1_HUMAN	insulin induced gene 1 isoform 1	220	Helical; (Potential).				cell proliferation|ER-nuclear sterol response pathway	endoplasmic reticulum membrane|integral to membrane	protein binding				0	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CATAGCTTTTCTAGCTACGCT	0.438													6	91	---	---	---	---	PASS	G	155094081	G	G	155094081	3	3	85	1	0	0	0	0	1	0	0	0	7765	912	32	2	668	2	INSIG1	7	155094081	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	21232343	155094081	4044582	159	32465										
EGR3	1960	broad.mit.edu	37	chr8	22548418	22548418	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agcggcggctggggcaggctGccaaagcccgggtggatctg	19	11	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr8:22548418G>T	uc003xcm.1	-	2	1090	c.732C>A	c.(730-732)GGC>GGA	p.G244G	EGR3_uc011kzn.1_Silent_p.G206G|EGR3_uc011kzo.1_Silent_p.G190G	NM_004430	NP_004421	Q06889	EGR3_HUMAN	early growth response 3	244					circadian rhythm|muscle organ development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Prostate(55;0.0421)|Breast(100;0.102)		Colorectal(74;0.0145)|BRCA - Breast invasive adenocarcinoma(99;0.053)|COAD - Colon adenocarcinoma(73;0.0608)		GGGGCAGGCTGCCAAAGCCCG	0.662													13	102	---	---	---	---	PASS	T	22548418	T	T	22548418	2	4	85	1	0	0	0	0	0	0	0	1	4973	1306	46	3		3	EGR3	8	22548418	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08		22548418	123815604	160	32466										
HOOK3	84376	broad.mit.edu	37	chr8	42868513	42868513	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agtcagagagagatggaagaGaaatatattgttagtgcctg	13	3	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr8:42868513G>C	uc003xpr.2	+	21	2228	c.1986G>C	c.(1984-1986)GAG>GAC	p.E662D		NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	662	Potential.|Required for interaction with MSR1.|Required for association with Golgi.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			AGATGGAAGAGAAATATATTG	0.249			T	RET	papillary thyroid								5	118	---	---	---	---	PASS	C	42868513	C	C	42868513	3	2	85	1	0	0	0	0	1	0	0	0	7284	933	33	2	2068	2	HOOK3	8	42868513	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	20320095	42868513	103495509	161	32467										
SDC2	6383	broad.mit.edu	37	chr8	97621715	97621715	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgaaggaagctatgaccttgGagaacgcaaaccatccagtg	11	9	0	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr8:97621715G>A	uc003yhv.1	+	5	1163	c.545G>A	c.(544-546)GGA>GAA	p.G182E	SDC2_uc011lgu.1_Missense_Mutation_p.G153E	NM_002998	NP_002989	P34741	SDC2_HUMAN	syndecan 2 precursor	182	Cytoplasmic (Potential).					integral to plasma membrane	cytoskeletal protein binding|PDZ domain binding			ovary(2)	2	Breast(36;3.41e-05)				Sargramostim(DB00020)	TATGACCTTGGAGAACGCAAA	0.418													4	82	---	---	---	---	PASS	A	97621715	A	A	97621715	3	1	85	1	0	0	0	0	1	0	0	0	13952	1174	41	2	563	2	SDC2	8	97621715	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	54753202	97621715	48742307	162	32468										
RGS22	26166	broad.mit.edu	37	chr8	100994303	100994303	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttgataatagttgtaatcttCttctggatgacagactcatc	7	7	4	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr8:100994303C>T	uc003yjb.1	-	22	3417	c.3222G>A	c.(3220-3222)AAG>AAA	p.K1074K	RGS22_uc003yja.1_Silent_p.K893K|RGS22_uc003yjc.1_Silent_p.K1062K	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	1074	RGS 2.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			TTGTAATCTTCTTCTGGATGA	0.358													3	74	---	---	---	---	PASS	T	100994303	T	T	100994303	2	4	85	1	0	0	0	0	0	0	0	1	13305	912	32	2		2	RGS22	8	100994303	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	3372588	100994303	45369719	163	32469										
COL22A1	169044	broad.mit.edu	37	chr8	139833588	139833588	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcggaagaccaccctgacagCatctttcatggcacccacag	8	15	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr8:139833588C>T	uc003yvd.2	-	7	1483	c.1036G>A	c.(1036-1038)GCT>ACT	p.A346T		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	346	TSP N-terminal.				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)			ACCCTGACAGCATCTTTCATG	0.572										HNSCC(7;0.00092)			10	179	---	---	---	---	PASS	T	139833588	T	T	139833588	3	4	85	1	0	0	0	0	1	0	0	0	3681	710	25	3	4080	3	COL22A1	8	139833588	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	38839285	139833588	6530434	164	32470										
DOCK8	81704	broad.mit.edu	37	chr9	368110	368110	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aaagatccagtttatgtgtgGagaagatgctagcaatgcga	12	5	0	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:368110G>C	uc003zgf.2	+	15	1884	c.1772G>C	c.(1771-1773)GGA>GCA	p.G591A	DOCK8_uc010mgu.2_5'UTR|DOCK8_uc010mgv.2_Missense_Mutation_p.G523A|DOCK8_uc010mgw.1_5'UTR|DOCK8_uc003zgk.2_5'UTR|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	591					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		TTTATGTGTGGAGAAGATGCT	0.473													11	112	---	---	---	---	PASS	C	368110	C	C	368110	3	2	85	1	0	0	0	0	1	0	0	0	4693	1174	41	2	1830	2	DOCK8	9	368110	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08		368110	140845321	165	32471										
PTPRD	5789	broad.mit.edu	37	chr9	8523518	8523518	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aaaaaacacaccaaccttctCgcagctctgagggatgtagg	9	11	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:8523518C>T	uc003zkk.2	-	18	1397	c.686G>A	c.(685-687)CGA>CAA	p.R229Q	PTPRD_uc003zkp.2_Missense_Mutation_p.R229Q|PTPRD_uc003zkq.2_Missense_Mutation_p.R229Q|PTPRD_uc003zkr.2_Missense_Mutation_p.R223Q|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Missense_Mutation_p.R229Q|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Missense_Mutation_p.R229Q|PTPRD_uc003zko.2_Missense_Mutation_p.R226Q	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	229	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CCAACCTTCTCGCAGCTCTGA	0.368										TSP Lung(15;0.13)			3	29	---	---	---	---	PASS	T	8523518	T	T	8523518	3	4	85	1	0	0	0	0	1	0	0	0	12799	884	31	2	5232	2	PTPRD	9	8523518	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	8155408	8523518	132689913	166	32472										
MOBKL2B	79817	broad.mit.edu	37	chr9	27455464	27455464	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctgagcccgtttgtgcagctCaaacctctgtgtgccaggtt	11	12	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:27455464C>G	uc003zqn.2	-	2	581	c.85G>C	c.(85-87)GAG>CAG	p.E29Q		NM_024761	NP_079037	Q86TA1	MOL2B_HUMAN	MOB1, Mps One Binder kinase activator-like 2B	29							metal ion binding|protein binding			ovary(1)|pleura(1)	2		all_neural(11;9.12e-11)		Lung(218;6.54e-05)|LUSC - Lung squamous cell carcinoma(38;0.000397)		TTGTGCAGCTCAAACCTCTGT	0.552													10	218	---	---	---	---	PASS	G	27455464	G	G	27455464	3	3	85	1	0	0	0	0	1	0	0	0	9685	835	29	2	577	2	MOBKL2B	9	27455464	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	18931946	27455464	113757967	167	32473										
TAF1L	138474	broad.mit.edu	37	chr9	32634386	32634386	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aaattcctccatcattctagAttttatcacaggttcatgtt	4	9	4	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:32634386A>G	uc003zrg.1	-	1	1282	c.1192T>C	c.(1192-1194)TCT>CCT	p.S398P	uc003zrh.1_RNA	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	398					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		ATCATTCTAGATTTTATCACA	0.458													34	191	---	---	---	---	PASS	G	32634386	G	G	32634386	3	3	85	1	0	0	0	0	1	0	0	0	15520	333	12	5	4292	5	TAF1L	9	32634386	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	5178922	32634386	108579045	168	32474										
ABCA1	19	broad.mit.edu	37	chr9	107581073	107581073	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agaaacagggaggagcccacAcagcacagcttcccatggga	12	12	0	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:107581073A>T	uc004bcl.2	-	23	3646	c.3333T>A	c.(3331-3333)TGT>TGA	p.C1111*		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1111	ABC transporter 1.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AGGAGCCCACACAGCACAGCT	0.547													12	73	---	---	---	---	PASS	T	107581073	T	T	107581073	4	4	85	1	0	0	0	0	0	1	0	0	28	157	6	5	3564	5	ABCA1	9	107581073	Nonsense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	74946687	107581073	33632358	169	32475										
EPB41L4B	54566	broad.mit.edu	37	chr9	112018447	112018447	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gcctattttgttagctccttCaaagattaatatgcctgtcg	7	9	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:112018447C>G	uc004bdz.1	-	9	1193	c.898G>C	c.(898-900)GAA>CAA	p.E300Q	EPB41L4B_uc004bea.2_Missense_Mutation_p.E300Q	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	300	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						TTAGCTCCTTCAAAGATTAAT	0.368													3	152	---	---	---	---	PASS	G	112018447	G	G	112018447	3	3	85	1	0	0	0	0	1	0	0	0	5156	835	29	2	2028	2	EPB41L4B	9	112018447	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	4437374	112018447	29194984	170	32476										
TNFSF15	9966	broad.mit.edu	37	chr9	117552889	117552889	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgctacctacttcgcatacaGacttggtccccatgaggagc	9	13	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:117552889G>C	uc004bjh.2	-	4	715	c.599C>G	c.(598-600)TCT>TGT	p.S200C	TNFSF15_uc004bjg.2_Missense_Mutation_p.S141C	NM_005118	NP_005109	O95150	TNF15_HUMAN	tumor necrosis factor (ligand) superfamily,	200	Extracellular (Potential).				activation of caspase activity|activation of NF-kappaB-inducing kinase activity|cytokine metabolic process|immune response	extracellular space|integral to plasma membrane	cytokine activity|tumor necrosis factor receptor binding				0						TTCGCATACAGACTTGGTCCC	0.537													4	48	---	---	---	---	PASS	C	117552889	C	C	117552889	3	2	85	1	0	0	0	0	1	0	0	0	16305	942	33	2	160	2	TNFSF15	9	117552889	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	5534442	117552889	23660542	171	32477										
TLR4	7099	broad.mit.edu	37	chr9	120476482	120476482	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gactgggtaaggaatgagctAgtaaagaatttagaagaagg	14	2	0	4			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:120476482A>G	uc004bjz.2	+	3	2367	c.2076A>G	c.(2074-2076)CTA>CTG	p.L692L	TLR4_uc004bka.2_Silent_p.L652L|TLR4_uc004bkb.2_Silent_p.L492L	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	692	Cytoplasmic (Potential).|TIR.				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						GGAATGAGCTAGTAAAGAATT	0.453													16	93	---	---	---	---	PASS	G	120476482	G	G	120476482	2	3	85	1	0	0	0	0	0	0	0	1	15950	407	15	5		5	TLR4	9	120476482	Silent	SNP	A	TCGA-39-5022-01A-21D-1817-08	2923593	120476482	20736949	172	32478										
CRB2	286204	broad.mit.edu	37	chr9	126132615	126132615	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttacgtctgccactgcccacCtggtacccatggaccgttct	8	16	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:126132615C>T	uc004bnx.1	+	7	1375	c.1283C>T	c.(1282-1284)CCT>CTT	p.P428L	CRB2_uc004bnw.1_Missense_Mutation_p.P428L	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	428	Extracellular (Potential).|EGF-like 9.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						CACTGCCCACCTGGTACCCAT	0.632													4	61	---	---	---	---	PASS	T	126132615	T	T	126132615	3	4	85	1	0	0	0	0	1	0	0	0	3849	681	24	3	1309	3	CRB2	9	126132615	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	5656133	126132615	15080816	173	32479										
DENND1A	57706	broad.mit.edu	37	chr9	126219678	126219678	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aaaaacatcactgaaaccttCgccggaattgagaagatcta	7	9	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:126219678C>T	uc004bnz.1	-	15	1368	c.1135G>A	c.(1135-1137)GAA>AAA	p.E379K	DENND1A_uc011lzl.1_Missense_Mutation_p.E154K|DENND1A_uc004bny.1_Intron|DENND1A_uc011lzm.1_Missense_Mutation_p.E347K|DENND1A_uc004boa.1_Missense_Mutation_p.E379K|DENND1A_uc004bob.1_Missense_Mutation_p.E349K|DENND1A_uc004boc.2_Missense_Mutation_p.E347K	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	379						cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						CTGAAACCTTCGCCGGAATTG	0.433													4	130	---	---	---	---	PASS	T	126219678	T	T	126219678	3	4	85	1	0	0	0	0	1	0	0	0	4426	893	31	2	2033	2	DENND1A	9	126219678	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	87063	126219678	14993753	174	32480										
TRUB2	26995	broad.mit.edu	37	chr9	131084583	131084583	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggttcgaggcactcacccttCagaagttgtagctccactgt	10	12	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:131084583C>G	uc004buq.1	-	1	115	c.105G>C	c.(103-105)CTG>CTC	p.L35L	COQ4_uc011max.1_5'Flank|COQ4_uc004bur.3_5'Flank|COQ4_uc004bus.2_5'Flank|COQ4_uc010mxy.2_5'Flank	NM_015679	NP_056494	O95900	TRUB2_HUMAN	TruB pseudouridine (psi) synthase homolog 2	35					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(1)	1						ACTCACCCTTCAGAAGTTGTA	0.562													5	76	---	---	---	---	PASS	G	131084583	G	G	131084583	2	3	85	1	0	0	0	0	0	0	0	1	16600	813	29	2		2	TRUB2	9	131084583	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	4864905	131084583	10128848	175	32481										
NUP188	23511	broad.mit.edu	37	chr9	131765157	131765157	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gccaggagtctaccgcctgtCcatgtccctgatggagcagc	12	14	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:131765157C>A	uc004bws.1	+	37	4221	c.4199C>A	c.(4198-4200)TCC>TAC	p.S1400Y	NUP188_uc004bwu.2_Missense_Mutation_p.S743Y	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1400					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						TACCGCCTGTCCATGTCCCTG	0.582													4	86	---	---	---	---	PASS	A	131765157	A	A	131765157	3	1	85	1	0	0	0	0	1	0	0	0	10758	855	30	2	4345	2	NUP188	9	131765157	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	680574	131765157	9448274	176	32482										
GLT6D1	360203	broad.mit.edu	37	chr9	138516149	138516149	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgctgaggtcggcctcctctCataagggaagttcttggtgt	13	9	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr9:138516149C>T	uc010nbd.1	-	5	879	c.625G>A	c.(625-627)GAG>AAG	p.E209K		NM_182974	NP_892019	Q7Z4J2	GL6D1_HUMAN	glycosyltransferase 6 domain containing 1	209	Lumenal (Potential).				carbohydrate metabolic process	integral to membrane	transferase activity, transferring hexosyl groups			ovary(1)	1		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;4.3e-07)|Epithelial(140;1.58e-06)|all cancers(34;5.36e-05)		GGCCTCCTCTCATAAGGGAAG	0.527													7	102	---	---	---	---	PASS	T	138516149	T	T	138516149	3	4	85	1	0	0	0	0	1	0	0	0	6468	835	29	2	209	2	GLT6D1	9	138516149	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	6750992	138516149	2697282	177	32483										
NET1	10276	broad.mit.edu	37	chr10	5496952	5496952	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctctctgatatcaacttgaaGaaaggtgaatccgagtgcca	9	9	2	4			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr10:5496952G>C	uc001iia.2	+	10	1206	c.1068G>C	c.(1066-1068)AAG>AAC	p.K356N	NET1_uc010qar.1_Missense_Mutation_p.K175N|NET1_uc001iib.2_Missense_Mutation_p.K302N|NET1_uc010qas.1_Missense_Mutation_p.K175N	NM_001047160	NP_001040625	Q7Z628	ARHG8_HUMAN	neuroepithelial cell transforming gene 1 isoform	356	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1						TCAACTTGAAGAAAGGTGAAT	0.428													3	84	---	---	---	---	PASS	C	5496952	C	C	5496952	3	2	85	1	0	0	0	0	1	0	0	0	10338	933	33	2	1203	2	NET1	10	5496952	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08		5496952	130037795	178	32484										
KIAA1217	56243	broad.mit.edu	37	chr10	24783456	24783456	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	atgcaagccatggagaaacaGattgccagtttaactggcct	10	9	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr10:24783456G>A	uc001iru.3	+	7	2110	c.1707G>A	c.(1705-1707)CAG>CAA	p.Q569Q	KIAA1217_uc001irs.2_Silent_p.Q489Q|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron|KIAA1217_uc001irv.1_Intron|KIAA1217_uc010qda.1_Intron|KIAA1217_uc001irw.2_Intron|KIAA1217_uc001irz.2_Intron|KIAA1217_uc001irx.2_Intron|KIAA1217_uc001iry.2_Intron	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	569	Potential.				embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						TGGAGAAACAGATTGCCAGTT	0.413													5	80	---	---	---	---	PASS	A	24783456	A	A	24783456	2	1	85	1	0	0	0	0	0	0	0	1	8216	933	33	2		2	KIAA1217	10	24783456	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	19286504	24783456	110751291	179	32485										
LYZL2	119180	broad.mit.edu	37	chr10	30915842	30915842	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtcagaatgcccgcagccttCatcctcaaagcctgccggag	10	15	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr10:30915842C>A	uc001ivk.2	-	2	154	c.141G>T	c.(139-141)ATG>ATT	p.M47I		NM_183058	NP_898881	Q7Z4W2	LYZL2_HUMAN	lysozyme-like 2	1					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Prostate(175;0.151)				CCGCAGCCTTCATCCTCAAAG	0.537													5	78	---	---	---	---	PASS	A	30915842	A	A	30915842	3	1	85	1	0	0	0	0	1	0	0	0	9132	826	29	2	459	2	LYZL2	10	30915842	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	6132386	30915842	104618905	180	32486										
RASGEF1A	221002	broad.mit.edu	37	chr10	43695154	43695154	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcagtggccaccagcatgctCaggcagttgaaccagttgtc	11	12	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr10:43695154C>G	uc001jap.1	-	7	900	c.819G>C	c.(817-819)CTG>CTC	p.L273L	RASGEF1A_uc001jao.1_Silent_p.L281L	NM_145313	NP_660356	Q8N9B8	RGF1A_HUMAN	RasGEF domain family, member 1A	273	Ras-GEF.				cell migration|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						CCAGCATGCTCAGGCAGTTGA	0.617													6	41	---	---	---	---	PASS	G	43695154	G	G	43695154	2	3	85	1	0	0	0	0	0	0	0	1	13069	813	29	2		2	RASGEF1A	10	43695154	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	12779312	43695154	91839593	181	32487										
C10orf107	219621	broad.mit.edu	37	chr10	63519826	63519826	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cttcccatcagcaagtgataGaggttgtcaagtctgcatgt	10	9	3	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr10:63519826G>C	uc010qik.1	+	5	603	c.298G>C	c.(298-300)GAG>CAG	p.E100Q		NM_173554	NP_775825	Q8IVU9	CJ107_HUMAN	hypothetical protein LOC219621	100											0	Prostate(12;0.016)					GCAAGTGATAGAGGTTGTCAA	0.413													10	66	---	---	---	---	PASS	C	63519826	C	C	63519826	3	2	85	1	0	0	0	0	1	0	0	0	1581	943	33	2	312	2	C10orf107	10	63519826	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	19824672	63519826	72014921	182	32488										
SUPV3L1	6832	broad.mit.edu	37	chr10	70960210	70960210	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acaatgaatcatgaagatctCagtttattaaaggaaatttt	6	4	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr10:70960210C>T	uc001jpe.1	+	11	1528	c.1473C>T	c.(1471-1473)CTC>CTT	p.L491L	SUPV3L1_uc010qjd.1_Silent_p.L360L	NM_003171	NP_003162	Q8IYB8	SUV3_HUMAN	suppressor of var1, 3-like 1 precursor	491	Helicase C-terminal.				DNA duplex unwinding	mitochondrial nucleoid|nucleus	ATP binding|DNA binding|DNA helicase activity|RNA binding			urinary_tract(1)|ovary(1)	2						ATGAAGATCTCAGTTTATTAA	0.433													5	64	---	---	---	---	PASS	T	70960210	T	T	70960210	2	4	85	1	0	0	0	0	0	0	0	1	15399	813	29	2		2	SUPV3L1	10	70960210	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	7440384	70960210	64574537	183	32489										
SUPV3L1	6832	broad.mit.edu	37	chr10	70967669	70967669	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tggatcttgaagctgtccacGatgtcttggatctttacttg	10	8	3	1	rs150112121		TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr10:70967669G>C	uc001jpe.1	+	14	1952	c.1897G>C	c.(1897-1899)GAT>CAT	p.D633H	SUPV3L1_uc010qjd.1_Missense_Mutation_p.D502H	NM_003171	NP_003162	Q8IYB8	SUV3_HUMAN	suppressor of var1, 3-like 1 precursor	633					DNA duplex unwinding	mitochondrial nucleoid|nucleus	ATP binding|DNA binding|DNA helicase activity|RNA binding			urinary_tract(1)|ovary(1)	2						AGCTGTCCACGATGTCTTGGA	0.383													14	188	---	---	---	---	PASS	C	70967669	C	C	70967669	3	2	85	1	0	0	0	0	1	0	0	0	15399	1058	37	2	1951	2	SUPV3L1	10	70967669	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	7459	70967669	64567078	184	32490										
ZMYND17	118490	broad.mit.edu	37	chr10	75184893	75184893	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgtaggaatcttatagtcacGaagtagcagcagggtgggca	14	6	2	0	rs137962387	by1000genomes	TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr10:75184893G>A	uc001jud.2	-	6	1192	c.1126C>T	c.(1126-1128)CGT>TGT	p.R376C	ZMYND17_uc001juc.2_Missense_Mutation_p.R376C|ZMYND17_uc009xrh.2_Missense_Mutation_p.R399C|ZMYND17_uc009xrg.2_Missense_Mutation_p.R155C	NM_001024593	NP_001019764	Q4VC12	ZMY17_HUMAN	zinc finger, MYND domain containing 17	376							zinc ion binding			ovary(1)	1	Prostate(51;0.0119)					TTATAGTCACGAAGTAGCAGC	0.413													8	99	---	---	---	---	PASS	A	75184893	A	A	75184893	3	1	85	1	0	0	0	0	1	0	0	0	17706	1058	37	2	264	2	ZMYND17	10	75184893	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	4217224	75184893	60349854	185	32491										
CDHR1	92211	broad.mit.edu	37	chr10	85956342	85956342	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cagctttgaccccagcactaGaagcgtcttttctgttgacc	8	13	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr10:85956342G>C	uc001kcv.2	+	3	233	c.233G>C	c.(232-234)AGA>ACA	p.R78T	CDHR1_uc001kcw.2_Missense_Mutation_p.R78T	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	78	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						CCCAGCACTAGAAGCGTCTTT	0.557													7	116	---	---	---	---	PASS	C	85956342	C	C	85956342	3	2	85	1	0	0	0	0	1	0	0	0	3118	942	33	2	243	2	CDHR1	10	85956342	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	10771449	85956342	49578405	186	32492										
OPALIN	93377	broad.mit.edu	37	chr10	98105744	98105744	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gccaccacaatcccctccttCtttccatttctatagtagga	4	15	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr10:98105744C>G	uc001kmj.2	-	6	819	c.380G>C	c.(379-381)AGA>ACA	p.R127T	OPALIN_uc010qor.1_Missense_Mutation_p.R117T|OPALIN_uc001kmi.2_Missense_Mutation_p.R117T|OPALIN_uc001kmk.2_Missense_Mutation_p.R104T|OPALIN_uc010qos.1_RNA	NM_033207	NP_149984	Q96PE5	OPALI_HUMAN	transmembrane protein 10 isoform a	127						Golgi apparatus|integral to membrane|plasma membrane					0						TCCCCTCCTTCTTTCCATTTC	0.517													10	160	---	---	---	---	PASS	G	98105744	G	G	98105744	3	3	85	1	0	0	0	0	1	0	0	0	10873	913	32	2	49	2	OPALIN	10	98105744	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	12149402	98105744	37429003	187	32493										
FAM175B	23172	broad.mit.edu	37	chr10	126523297	126523297	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtctttatgcctcgacctcaAgctgtgggctcttccaatta	8	12	3	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr10:126523297A>G	uc001lib.3	+	9	1050	c.1005A>G	c.(1003-1005)CAA>CAG	p.Q335Q		NM_032182	NP_115558	Q15018	F175B_HUMAN	hypothetical protein LOC23172	335						BRISC complex	polyubiquitin binding				0						CTCGACCTCAAGCTGTGGGCT	0.522													10	46	---	---	---	---	PASS	G	126523297	G	G	126523297	2	3	85	1	0	0	0	0	0	0	0	1	5498	69	3	5		5	FAM175B	10	126523297	Silent	SNP	A	TCGA-39-5022-01A-21D-1817-08	28417553	126523297	9011450	188	32494										
MKI67	4288	broad.mit.edu	37	chr10	129902207	129902207	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	accgcttgctggttctttgtGtgtgtgtgtgctttgccctg	13	9	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr10:129902207G>C	uc001lke.2	-	13	8092	c.7897C>G	c.(7897-7899)CAC>GAC	p.H2633D	MKI67_uc001lkf.2_Missense_Mutation_p.H2273D|MKI67_uc009yav.1_Missense_Mutation_p.H2208D|MKI67_uc009yaw.1_Missense_Mutation_p.H1783D	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2633	14.|16 X 122 AA approximate repeats.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GGTTCTTTGTGTGTGTGTGTG	0.502													7	127	---	---	---	---	PASS	C	129902207	C	C	129902207	3	2	85	1	0	0	0	0	1	0	0	0	9598	1377	48	4	1885	4	MKI67	10	129902207	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	3378910	129902207	5632540	189	32495										
PHRF1	57661	broad.mit.edu	37	chr11	607998	607998	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gcgcccctggcagcagccccGagaggtctggccccggcctc	14	19	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:607998G>A	uc001lqe.2	+	14	2673	c.2542G>A	c.(2542-2544)GAG>AAG	p.E848K	PHRF1_uc010qwc.1_Missense_Mutation_p.E847K|PHRF1_uc010qwd.1_Missense_Mutation_p.E846K|PHRF1_uc010qwe.1_Missense_Mutation_p.E844K|PHRF1_uc009ybz.1_Missense_Mutation_p.E638K|PHRF1_uc009yca.1_RNA	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	848							RNA polymerase binding|zinc ion binding				0						CAGCAGCCCCGAGAGGTCTGG	0.662													7	119	---	---	---	---	PASS	A	607998	A	A	607998	3	1	85	1	0	0	0	0	1	0	0	0	11861	1059	37	2	2589	2	PHRF1	11	607998	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08		607998	134398518	190	32496										
TNNT3	7140	broad.mit.edu	37	chr11	1955618	1955618	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aggagggcagaggacgacctGaagaagaagaaagctctgtc	15	7	1	5			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:1955618G>A	uc001luu.3	+	12	635	c.423G>A	c.(421-423)CTG>CTA	p.L141L	TNNT3_uc001lun.2_Silent_p.L37L|TNNT3_uc001luw.3_Silent_p.L133L|TNNT3_uc001luo.3_Silent_p.L133L|TNNT3_uc001lup.3_Silent_p.L139L|TNNT3_uc001luq.3_Silent_p.L133L|TNNT3_uc001lur.2_Silent_p.L133L|TNNT3_uc010qxf.1_Silent_p.L139L|TNNT3_uc010qxg.1_Silent_p.L73L	NM_006757	NP_006748	P45378	TNNT3_HUMAN	troponin T3, skeletal, fast isoform 1	152					muscle filament sliding|regulation of ATPase activity|regulation of striated muscle contraction|skeletal muscle contraction	cytosol|troponin complex	calcium-dependent protein binding|tropomyosin binding|troponin C binding|troponin I binding			ovary(1)	1		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00253)|Lung(200;0.0333)|LUSC - Lung squamous cell carcinoma(625;0.0826)		AGGACGACCTGAAGAAGAAGA	0.587													4	60	---	---	---	---	PASS	A	1955618	A	A	1955618	2	1	85	1	0	0	0	0	0	0	0	1	16329	1277	45	2		2	TNNT3	11	1955618	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	1347620	1955618	133050898	191	32497										
TSSC4	10078	broad.mit.edu	37	chr11	2424480	2424480	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctccttcaaccaggatccctCcagctgtggggaggggaggg	15	12	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:2424480C>G	uc001lwj.2	+	4	978	c.617C>G	c.(616-618)TCC>TGC	p.S206C	TSSC4_uc001lwi.2_Missense_Mutation_p.S142C|TSSC4_uc001lwk.2_Missense_Mutation_p.S206C|TSSC4_uc001lwl.2_Missense_Mutation_p.S206C	NM_005706	NP_005697	Q9Y5U2	TSSC4_HUMAN	tumor suppressing subtransferable candidate 4	206											0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.00145)|LUSC - Lung squamous cell carcinoma(625;0.19)		CAGGATCCCTCCAGCTGTGGG	0.652													4	83	---	---	---	---	PASS	G	2424480	G	G	2424480	3	3	85	1	0	0	0	0	1	0	0	0	16664	855	30	2	619	2	TSSC4	11	2424480	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	468862	2424480	132582036	192	32498										
SLC17A6	57084	broad.mit.edu	37	chr11	22364891	22364891	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	attccgggaggctacatcgcGtctcggctggcagccaacag	13	13	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:22364891G>T	uc001mqk.2	+	3	851	c.438G>T	c.(436-438)GCG>GCT	p.A146A		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	146	Helical; (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						GCTACATCGCGTCTCGGCTGG	0.587													19	91	---	---	---	---	PASS	T	22364891	T	T	22364891	2	4	85	1	0	0	0	0	0	0	0	1	14421	1132	40	1		1	SLC17A6	11	22364891	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	19940411	22364891	112641625	193	32499										
OR4S2	219431	broad.mit.edu	37	chr11	55418443	55418443	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tttctcagagcccagagattGagaaagtttgttttgtggtg	12	5	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:55418443G>C	uc001nhs.1	+	1	64	c.64G>C	c.(64-66)GAG>CAG	p.E22Q		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				CCCAGAGATTGAGAAAGTTTG	0.378													8	66	---	---	---	---	PASS	C	55418443	C	C	55418443	3	2	85	1	0	0	0	0	1	0	0	0	11083	1291	45	2	66	2	OR4S2	11	55418443	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	33053552	55418443	79588073	194	32500										
AHNAK	79026	broad.mit.edu	37	chr11	62290416	62290416	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agccttgggcaggttcacatCcacatctgggccctctcctt	9	15	3	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:62290416C>A	uc001ntl.2	-	5	11773	c.11473G>T	c.(11473-11475)GAT>TAT	p.D3825Y	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3825					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				AGGTTCACATCCACATCTGGG	0.517													8	414	---	---	---	---	PASS	A	62290416	A	A	62290416	3	1	85	1	0	0	0	0	1	0	0	0	414	855	30	2	6319	2	AHNAK	11	62290416	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	6871973	62290416	72716100	195	32501										
TAF6L	10629	broad.mit.edu	37	chr11	62554633	62554633	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cgctgccgcgggcgccttttCcagactgccttccccgcgcc	11	20	0	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:62554633C>G	uc001nvc.2	+	11	1835	c.1734C>G	c.(1732-1734)TTC>TTG	p.F578L	TMEM179B_uc001nvd.3_5'Flank	NM_006473	NP_006464	Q9Y6J9	TAF6L_HUMAN	TAF6-like RNA polymerase II	578					chromatin remodeling|histone H3 acetylation|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	histone deacetylase complex|STAGA complex	DNA binding|protein binding|transcription coactivator activity			ovary(3)	3						GGCGCCTTTTCCAGACTGCCT	0.711											OREG0021030	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	18	---	---	---	---	PASS	G	62554633	G	G	62554633	3	3	85	1	0	0	0	0	1	0	0	0	15528	854	30	2	1772	2	TAF6L	11	62554633	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	264217	62554633	72451883	196	32502										
PYGM	5837	broad.mit.edu	37	chr11	64514192	64514192	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gctccacaccccagatctccCgggcatactgggcaatggtg	11	15	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:64514192C>A	uc001oax.3	-	20	3285	c.2468G>T	c.(2467-2469)CGG>CTG	p.R823L	RASGRP2_uc009ypu.2_5'Flank|RASGRP2_uc009ypv.2_5'Flank|RASGRP2_uc009ypw.2_5'Flank|RASGRP2_uc001oaw.1_5'Flank|PYGM_uc001oay.3_Missense_Mutation_p.R735L	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	823					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	CCAGATCTCCCGGGCATACTG	0.617													12	90	---	---	---	---	PASS	A	64514192	A	A	64514192	3	1	85	1	0	0	0	0	1	0	0	0	12862	652	23	1	64	1	PYGM	11	64514192	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1959559	64514192	70492324	197	32503										
RNF121	55298	broad.mit.edu	37	chr11	71668300	71668300	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgtcagatctctctccagaaGagcaatggaggtaagtgtgg	13	7	3	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:71668300G>C	uc001ora.2	+	2	431	c.91G>C	c.(91-93)GAG>CAG	p.E31Q	RNF121_uc001ord.2_Intron|RNF121_uc001orb.2_Intron|RNF121_uc009yst.2_Intron	NM_018320	NP_060790	Q9H920	RN121_HUMAN	ring finger protein 121	31						integral to membrane	zinc ion binding				0						CTCTCCAGAAGAGCAATGGAG	0.443													17	104	---	---	---	---	PASS	C	71668300	C	C	71668300	3	2	85	1	0	0	0	0	1	0	0	0	13431	943	33	2	97	2	RNF121	11	71668300	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	7154108	71668300	63338216	198	32504										
C2CD3	26005	broad.mit.edu	37	chr11	73801934	73801934	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcgggcagcaagaactccctCtgctgttcttggactacgcc	10	14	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:73801934C>G	uc001ouu.2	-	20	3792	c.3565G>C	c.(3565-3567)GAG>CAG	p.E1189Q		NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1189	C2 1.					centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					AGAACTCCCTCTGCTGTTCTT	0.493													9	61	---	---	---	---	PASS	G	73801934	G	G	73801934	3	3	85	1	0	0	0	0	1	0	0	0	2154	922	32	2	2374	2	C2CD3	11	73801934	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	2133634	73801934	61204582	199	32505										
MMP13	4322	broad.mit.edu	37	chr11	102826338	102826338	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgcaaactggaggtcttcctCagacaaatcatcttcatcac	6	12	6	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:102826338C>T	uc001phl.2	-	1	125	c.97G>A	c.(97-99)GAG>AAG	p.E33K		NM_002427	NP_002418	P45452	MMP13_HUMAN	matrix metalloproteinase 13 preproprotein	33					collagen catabolic process|proteolysis	extracellular space	metalloendopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.0144)		AGGTCTTCCTCAGACAAATCA	0.498													4	91	---	---	---	---	PASS	T	102826338	T	T	102826338	3	4	85	1	0	0	0	0	1	0	0	0	9652	835	29	2	1358	2	MMP13	11	102826338	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	29024404	102826338	32180178	200	32506										
KDELC2	143888	broad.mit.edu	37	chr11	108348418	108348418	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgtccttcttttgcaatcttCttggcttcttcatcattttc	4	11	6	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:108348418C>G	uc001pkj.2	-	7	1380	c.1314G>C	c.(1312-1314)AAG>AAC	p.K438N	KDELC2_uc001pki.2_Missense_Mutation_p.K382N	NM_153705	NP_714916	Q7Z4H8	KDEL2_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 2 precursor	438						endoplasmic reticulum lumen				ovary(1)	1		all_cancers(61;1.38e-11)|all_epithelial(67;3.16e-07)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;6.93e-06)|BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|all cancers(92;0.00016)|OV - Ovarian serous cystadenocarcinoma(223;0.132)|Colorectal(284;0.14)		TTGCAATCTTCTTGGCTTCTT	0.413													15	136	---	---	---	---	PASS	G	108348418	G	G	108348418	3	3	85	1	0	0	0	0	1	0	0	0	8118	912	32	2	217	2	KDELC2	11	108348418	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	5522080	108348418	26658098	201	32507										
ARHGAP20	57569	broad.mit.edu	37	chr11	110486303	110486303	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aggagagagagccatttgtcCttttgttctggagaactgca	12	7	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:110486303C>T	uc001pkz.1	-	6	804	c.519G>A	c.(517-519)AAG>AAA	p.K173K	ARHGAP20_uc001pky.1_Silent_p.K150K|ARHGAP20_uc009yyb.1_Silent_p.K137K|ARHGAP20_uc001pla.1_Silent_p.K137K	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	173	PH.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		GCCATTTGTCCTTTTGTTCTG	0.313													15	80	---	---	---	---	PASS	T	110486303	T	T	110486303	2	4	85	1	0	0	0	0	0	0	0	1	870	680	24	3		3	ARHGAP20	11	110486303	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	2137885	110486303	24520213	202	32508										
SIDT2	51092	broad.mit.edu	37	chr11	117066728	117066728	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tccacaccccaggtgttgctGacactggatgacgacctgga	11	13	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:117066728G>C	uc001pqh.1	+	26	2486	c.2445G>C	c.(2443-2445)CTG>CTC	p.L815L	SIDT2_uc001pqi.1_Silent_p.L812L|SIDT2_uc001pqj.1_Silent_p.L127L|uc001pqk.1_RNA	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	815	Helical; (Potential).					integral to membrane|lysosomal membrane					0	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;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		AGGTGTTGCTGACACTGGATG	0.617													14	150	---	---	---	---	PASS	C	117066728	C	C	117066728	2	2	85	1	0	0	0	0	0	0	0	1	14303	1277	45	2		2	SIDT2	11	117066728	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	6580425	117066728	17939788	203	32509										
ABCG4	64137	broad.mit.edu	37	chr11	119030980	119030980	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cagcattgtgtactggatgaCgggccagcccgctgagacca	13	12	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:119030980C>T	uc001pvs.2	+	13	1817	c.1481C>T	c.(1480-1482)ACG>ATG	p.T494M	ABCG4_uc009zar.2_Missense_Mutation_p.T494M	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	494	Extracellular (Potential).|ABC transmembrane type-2.				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		TACTGGATGACGGGCCAGCCC	0.647													18	91	---	---	---	---	PASS	T	119030980	T	T	119030980	3	4	85	1	0	0	0	0	1	0	0	0	70	536	19	1	1527	1	ABCG4	11	119030980	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1964252	119030980	15975536	204	32510										
GRIK4	2900	broad.mit.edu	37	chr11	120745935	120745935	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgaaaatcttacagttcacaAggaatggttttcggcaggta	10	6	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:120745935A>G	uc001pxn.2	+	11	1434	c.1147A>G	c.(1147-1149)AGG>GGG	p.R383G	GRIK4_uc009zav.1_Missense_Mutation_p.R383G|GRIK4_uc009zaw.1_Missense_Mutation_p.R383G|GRIK4_uc009zax.1_Missense_Mutation_p.R383G	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	383	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	ACAGTTCACAAGGAATGGTTT	0.493													9	56	---	---	---	---	PASS	G	120745935	G	G	120745935	3	3	85	1	0	0	0	0	1	0	0	0	6776	63	3	5	1181	5	GRIK4	11	120745935	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	1714955	120745935	14260581	205	32511										
ADAMTS8	11095	broad.mit.edu	37	chr11	130289067	130289067	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccccccattgtcggacacctCtgggccccatttttcatctt	6	17	3	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr11:130289067C>G	uc001qgg.3	-	2	1199	c.841G>C	c.(841-843)GAG>CAG	p.E281Q		NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	281	Peptidase M12B.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		TCGGACACCTCTGGGCCCCAT	0.557													8	239	---	---	---	---	PASS	G	130289067	G	G	130289067	3	3	85	1	0	0	0	0	1	0	0	0	272	922	32	2	1860	2	ADAMTS8	11	130289067	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	9543132	130289067	4717449	206	32512										
CACNA1C	775	broad.mit.edu	37	chr12	2800327	2800327	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggggtcgaccgagtgaggagGagctccaggacagcagggtc	19	9	0	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:2800327G>C	uc009zdu.1	+	50	6941	c.6628G>C	c.(6628-6630)GAG>CAG	p.E2210Q	CACNA1C_uc009zdv.1_Missense_Mutation_p.E2124Q|CACNA1C_uc001qkb.2_Missense_Mutation_p.E2127Q|CACNA1C_uc001qkc.2_Missense_Mutation_p.E2146Q|CACNA1C_uc001qke.2_Missense_Mutation_p.E2116Q|CACNA1C_uc001qkf.2_Missense_Mutation_p.E2135Q|CACNA1C_uc001qjz.2_Missense_Mutation_p.E2127Q|CACNA1C_uc001qkd.2_Missense_Mutation_p.E2146Q|CACNA1C_uc001qkg.2_Missense_Mutation_p.E2133Q|CACNA1C_uc009zdw.1_Missense_Mutation_p.E2168Q|CACNA1C_uc001qkh.2_Missense_Mutation_p.E2135Q|CACNA1C_uc001qkl.2_Missense_Mutation_p.E2175Q|CACNA1C_uc001qkn.2_Missense_Mutation_p.E2127Q|CACNA1C_uc001qko.2_Missense_Mutation_p.E2147Q|CACNA1C_uc001qkp.2_Missense_Mutation_p.E2127Q|CACNA1C_uc001qkr.2_Missense_Mutation_p.E2144Q|CACNA1C_uc001qku.2_Missense_Mutation_p.E2162Q|CACNA1C_uc001qkq.2_Missense_Mutation_p.E2155Q|CACNA1C_uc001qks.2_Missense_Mutation_p.E2127Q|CACNA1C_uc001qkt.2_Missense_Mutation_p.E2146Q|CACNA1C_uc001qki.1_Missense_Mutation_p.E1934Q|CACNA1C_uc001qkj.1_Missense_Mutation_p.E1898Q|CACNA1C_uc001qkk.1_Missense_Mutation_p.E1863Q|CACNA1C_uc001qkm.1_Missense_Mutation_p.E1923Q|CACNA1C_uc010sea.1_Missense_Mutation_p.E818Q|uc001qkx.1_5'Flank|CACNA1C_uc001qky.1_Missense_Mutation_p.E445Q	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	2210	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GAGTGAGGAGGAGCTCCAGGA	0.607													3	42	---	---	---	---	PASS	C	2800327	C	C	2800327	3	2	85	1	0	0	0	0	1	0	0	0	2540	1175	41	2	7274	2	CACNA1C	12	2800327	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08		2800327	131051568	207	32513										
VWF	7450	broad.mit.edu	37	chr12	6078430	6078430	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tacagctcagctgaaagcccGaggggcagacagggacctcc	13	13	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:6078430G>A	uc001qnn.1	-	45	7926	c.7676C>T	c.(7675-7677)TCG>TTG	p.S2559L	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2559					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)	CTGAAAGCCCGAGGGGCAGAC	0.592													4	43	---	---	---	---	PASS	A	6078430	A	A	6078430	3	1	85	1	0	0	0	0	1	0	0	0	17243	1059	37	2	797	2	VWF	12	6078430	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	3278103	6078430	127773465	208	32514										
LTBR	4055	broad.mit.edu	37	chr12	6499369	6499369	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acagccactgctacccatttCtggagatgtttccccagtat	7	13	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:6499369C>G	uc001qny.1	+	9	1061	c.893C>G	c.(892-894)TCT>TGT	p.S298C	LTBR_uc010sfc.1_Missense_Mutation_p.S279C|LTBR_uc001qnz.1_Missense_Mutation_p.S293C	NM_002342	NP_002333	P36941	TNR3_HUMAN	lymphotoxin beta receptor precursor	298	Cytoplasmic (Potential).				apoptosis|cellular response to mechanical stimulus|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	protein binding|receptor activity			lung(2)	2						CTACCCATTTCTGGAGATGTT	0.607													18	155	---	---	---	---	PASS	G	6499369	G	G	6499369	3	3	85	1	0	0	0	0	1	0	0	0	9077	913	32	2	927	2	LTBR	12	6499369	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	420939	6499369	127352526	209	32515										
A2M	2	broad.mit.edu	37	chr12	9258841	9258841	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aaatactccacctgcccaaaGaagggaattccctgtcgaaa	7	12	0	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:9258841G>T	uc001qvk.1	-	10	1208	c.1095C>A	c.(1093-1095)TTC>TTA	p.F365L	A2M_uc009zgk.1_Missense_Mutation_p.F215L	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	365					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	CCTGCCCAAAGAAGGGAATTC	0.423													4	107	---	---	---	---	PASS	T	9258841	T	T	9258841	3	4	85	1	0	0	0	0	1	0	0	0	4	933	33	2	3437	2	A2M	12	9258841	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2759472	9258841	124593054	210	32516										
PRB2	653247	broad.mit.edu	37	chr12	11546167	11546167	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtgggggtggtccttgtggcTttcctggaggtgggggacct	20	7	0	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:11546167T>A	uc010shk.1	-	3	880	c.845A>T	c.(844-846)AAG>ATG	p.K282M		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			TCCTTGTGGCTTTCCTGGAGG	0.617													13	390	---	---	---	---	PASS	A	11546167	A	A	11546167	3	1	85	1	0	0	0	0	1	0	0	0	12443	1609	56	5	409	5	PRB2	12	11546167	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	2287326	11546167	122305728	211	32517										
ETV6	2120	broad.mit.edu	37	chr12	12037425	12037425	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tatcagttgctttctgacagCcggtacgaaaacttcatccg	8	11	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:12037425C>T	uc001qzz.2	+	6	1330	c.1056C>T	c.(1054-1056)AGC>AGT	p.S352S	ETV6_uc001raa.1_Intron	NM_001987	NP_001978	P41212	ETV6_HUMAN	ets variant 6	352	ETS.					cytoplasm|nucleolus	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		ETV6/NTRK3(234)|ETV6/JAK2(11)	soft_tissue(85)|kidney(66)|breast(55)|salivary_gland(26)|haematopoietic_and_lymphoid_tissue(13)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)|pancreas(1)	250		all_cancers(2;1.88e-12)|Acute lymphoblastic leukemia(2;6.91e-39)|all_hematologic(2;2.7e-36)				TTTCTGACAGCCGGTACGAAA	0.453			T	NTRK3|RUNX1|PDGFRB|ABL1|MN1|ABL2|FACL6|CHIC2|ARNT|JAK2|EVI1|CDX2|STL|HLXB9|MDS2|PER1|SYK|TTL|FGFR3|PAX5	congenital fibrosarcoma|multiple leukemia and lymphoma| secretory breast|MDS|ALL								10	154	---	---	---	---	PASS	T	12037425	T	T	12037425	2	4	85	1	0	0	0	0	0	0	0	1	5283	738	26	3		3	ETV6	12	12037425	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	491258	12037425	121814470	212	32518										
PDE3A	5139	broad.mit.edu	37	chr12	20766419	20766419	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tggacatcgccgtcatgggcGaggcccacggcctcattacc	12	15	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:20766419G>A	uc001reh.1	+	3	1076	c.1054G>A	c.(1054-1056)GAG>AAG	p.E352K		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	352					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	CGTCATGGGCGAGGCCCACGG	0.532													5	105	---	---	---	---	PASS	A	20766419	A	A	20766419	3	1	85	1	0	0	0	0	1	0	0	0	11637	1059	37	2	1064	2	PDE3A	12	20766419	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	8728994	20766419	113085476	213	32519										
SLC39A5	283375	broad.mit.edu	37	chr12	56628613	56628613	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccctcaattctccagtgtctGaacggctcccagctgctggt	9	15	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:56628613G>C	uc010sqj.1	+	6	734	c.477G>C	c.(475-477)CTG>CTC	p.L159L	SLC39A5_uc010sqi.1_Silent_p.L50L|SLC39A5_uc010sqk.1_Silent_p.L159L	NM_173596	NP_775867	Q6ZMH5	S39A5_HUMAN	solute carrier family 39 (metal ion	159	Extracellular (By similarity).				zinc ion transport	basolateral plasma membrane|integral to membrane	metal ion transmembrane transporter activity			ovary(1)|skin(1)	2						TCCAGTGTCTGAACGGCTCCC	0.443													4	271	---	---	---	---	PASS	C	56628613	C	C	56628613	2	2	85	1	0	0	0	0	0	0	0	1	14621	1277	45	2		2	SLC39A5	12	56628613	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	35862194	56628613	77223282	214	32520										
GLIPR1L2	144321	broad.mit.edu	37	chr12	75807396	75807396	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agcttgtttgggaccactctTacaaagttggttgtgctgtt	11	7	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:75807396T>C	uc001sxr.1	+	3	507	c.499T>C	c.(499-501)TAC>CAC	p.Y167H	GLIPR1L2_uc001sxp.1_Missense_Mutation_p.Y167H|GLIPR1L2_uc001sxq.1_Missense_Mutation_p.Y60H	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	167						integral to membrane				ovary(1)	1						GGACCACTCTTACAAAGTTGG	0.289													11	212	---	---	---	---	PASS	C	75807396	C	C	75807396	3	2	85	1	0	0	0	0	1	0	0	0	6443	1754	61	5	509	5	GLIPR1L2	12	75807396	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	19178783	75807396	58044499	215	32521										
NAV3	89795	broad.mit.edu	37	chr12	78574810	78574810	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	taaacaatttgaacatcacaGaggctgttagctcaggtgat	9	7	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:78574810G>A	uc001syp.2	+	30	5850	c.5677G>A	c.(5677-5679)GAG>AAG	p.E1893K	NAV3_uc001syo.2_Missense_Mutation_p.E1871K|NAV3_uc010sub.1_Missense_Mutation_p.E1350K|NAV3_uc009zsf.2_Missense_Mutation_p.E702K	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1893						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GAACATCACAGAGGCTGTTAG	0.473										HNSCC(70;0.22)			14	117	---	---	---	---	PASS	A	78574810	A	A	78574810	3	1	85	1	0	0	0	0	1	0	0	0	10185	943	33	2	5725	2	NAV3	12	78574810	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2767414	78574810	55277085	216	32522										
APAF1	317	broad.mit.edu	37	chr12	99077009	99077009	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccatttcaccaacagtagtcAtcatcttctcttagccactg	4	14	5	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:99077009A>G	uc001tfz.2	+	15	2712	c.2135A>G	c.(2134-2136)CAT>CGT	p.H712R	APAF1_uc001tfy.2_Missense_Mutation_p.H701R|APAF1_uc001tga.2_Missense_Mutation_p.H701R|APAF1_uc001tgb.2_Missense_Mutation_p.H712R|APAF1_uc001tgc.2_Intron|APAF1_uc009zto.2_Missense_Mutation_p.H121R	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	712	WD 3.				activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	AACAGTAGTCATCATCTTCTC	0.393													21	89	---	---	---	---	PASS	G	99077009	G	G	99077009	3	3	85	1	0	0	0	0	1	0	0	0	755	217	8	5	2189	5	APAF1	12	99077009	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	20502199	99077009	34774886	217	32523										
STAB2	55576	broad.mit.edu	37	chr12	104033905	104033905	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttcctgtctactgaagtctcActgcgagtgtaaggagcatt	10	9	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:104033905A>T	uc001tjw.2	+	9	1097	c.911A>T	c.(910-912)CAC>CTC	p.H304L		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	304	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTGAAGTCTCACTGCGAGTGT	0.373													7	85	---	---	---	---	PASS	T	104033905	T	T	104033905	3	4	85	1	0	0	0	0	1	0	0	0	15237	159	6	5	945	5	STAB2	12	104033905	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	4956896	104033905	29817990	218	32524										
ANKLE2	23141	broad.mit.edu	37	chr12	133306454	133306454	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tttctactgcattgattcttGaagtcaggatctgatcttta	7	7	5	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr12:133306454G>C	uc001ukx.2	-	11	2361	c.2294C>G	c.(2293-2295)TCA>TGA	p.S765*	ANKLE2_uc009zyw.1_Nonsense_Mutation_p.S120*	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	765						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		ATTGATTCTTGAAGTCAGGAT	0.423													4	102	---	---	---	---	PASS	C	133306454	C	C	133306454	4	2	85	1	0	0	0	0	0	1	0	0	633	1294	45	2	534	2	ANKLE2	12	133306454	Nonsense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	29272549	133306454	545441	219	32525										
RBM26	64062	broad.mit.edu	37	chr13	79979847	79979847	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccggatactcacatgggctcGagagtcttgctgagccagga	13	11	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr13:79979847G>C	uc001vkz.2	-	1	77	c.63C>G	c.(61-63)CTC>CTG	p.L21L	RBM26_uc001vky.2_Silent_p.L21L|RBM26_uc001vla.2_Silent_p.L21L|RBM26_uc001vlc.1_Silent_p.L21L|uc001vld.1_5'Flank|uc001vle.2_5'Flank	NM_022118	NP_071401	Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26	21					mRNA processing		nucleotide binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)		GBM - Glioblastoma multiforme(99;0.0188)		ACATGGGCTCGAGAGTCTTGC	0.567													6	68	---	---	---	---	PASS	C	79979847	C	C	79979847	2	2	85	1	0	0	0	0	0	0	0	1	13126	1045	37	2		2	RBM26	13	79979847	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08		79979847	35190031	220	32526										
OR4K14	122740	broad.mit.edu	37	chr14	20483014	20483014	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gccatggaaaccaggagcacCatctcagccccaccagtaaa	8	15	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:20483014C>A	uc010tky.1	-	1	339	c.339G>T	c.(337-339)ATG>ATT	p.M113I		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	113	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		CCAGGAGCACCATCTCAGCCC	0.463													11	64	---	---	---	---	PASS	A	20483014	A	A	20483014	3	1	85	1	0	0	0	0	1	0	0	0	11069	594	21	3	596	3	OR4K14	14	20483014	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08		20483014	86866526	221	32527										
DHRS4	10901	broad.mit.edu	37	chr14	24435598	24435598	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggtgaactgcctagcacctgGacttatcaagactagcttca	9	11	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:24435598G>A	uc001wla.2	+	6	671	c.638G>A	c.(637-639)GGA>GAA	p.G213E	DHRS4_uc010aky.2_Intron|DHRS4_uc001wlb.2_Missense_Mutation_p.G179E|DHRS4_uc010akz.2_Intron|DHRS4_uc001wlc.3_Missense_Mutation_p.G213E|DHRS4L2_uc001wld.3_Intron|DHRS4L2_uc001wle.3_Intron	NM_021004	NP_066284	Q9BTZ2	DHRS4_HUMAN	peroxisomal short-chain alcohol dehydrogenase	213						mitochondrion|nuclear membrane|peroxisome	binding|carbonyl reductase (NADPH) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00962)	Vitamin A(DB00162)	CTAGCACCTGGACTTATCAAG	0.527													4	143	---	---	---	---	PASS	A	24435598	A	A	24435598	3	1	85	1	0	0	0	0	1	0	0	0	4492	1174	41	2	660	2	DHRS4	14	24435598	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	3952584	24435598	82913942	222	32528										
BMP4	652	broad.mit.edu	37	chr14	54417514	54417514	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gaagagccgaagctctgcagAggagatcacctcgttctcag	12	11	3	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:54417514A>C	uc001xal.3	-	3	650	c.463T>G	c.(463-465)TCT>GCT	p.S155A	BMP4_uc010aoh.2_Missense_Mutation_p.S155A|BMP4_uc001xao.3_Missense_Mutation_p.S155A|BMP4_uc001xan.3_Missense_Mutation_p.S155A	NM_130851	NP_570912	P12644	BMP4_HUMAN	bone morphogenetic protein 4 preproprotein	155					activation of MAPKK activity|blood vessel endothelial cell proliferation involved in sprouting angiogenesis|BMP signaling pathway involved in heart induction|BMP signaling pathway involved in nephric duct formation|branching involved in ureteric bud morphogenesis|bronchus development|bud dilation involved in lung branching|cardiac septum development|cartilage development|endocardial cushion development|epithelial cell proliferation involved in lung morphogenesis|intermediate mesodermal cell differentiation|lung alveolus development|lymphoid progenitor cell differentiation|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|negative regulation of branch elongation involved in ureteric bud branching by BMP signaling pathway|negative regulation of branching involved in ureteric bud morphogenesis|negative regulation of cell proliferation involved in heart morphogenesis|negative regulation of glomerular mesangial cell proliferation|negative regulation of glomerulus development|negative regulation of immature T cell proliferation in thymus|negative regulation of MAP kinase activity|negative regulation of metanephric comma-shaped body morphogenesis|negative regulation of metanephric S-shaped body morphogenesis|negative regulation of mitosis|negative regulation of myoblast differentiation|negative regulation of phosphorylation|negative regulation of striated muscle tissue development|negative regulation of thymocyte apoptosis|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cardiac muscle fiber development|positive regulation of cartilage development|positive regulation of collagen biosynthetic process|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of kidney development|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|protein localization to nucleus|pulmonary artery endothelial tube morphogenesis|secondary heart field specification|SMAD protein signal transduction|specification of ureteric bud anterior/posterior symmetry by BMP signaling pathway|steroid hormone mediated signaling pathway	extracellular space|proteinaceous extracellular matrix	BMP receptor binding|chemoattractant activity|cytokine activity|growth factor activity				0						AGCTCTGCAGAGGAGATCACC	0.532													8	48	---	---	---	---	PASS	C	54417514	C	C	54417514	3	2	85	1	0	0	0	0	1	0	0	0	1462	304	11	5	767	5	BMP4	14	54417514	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	29981916	54417514	52932026	223	32529										
ARID4A	5926	broad.mit.edu	37	chr14	58831026	58831026	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgaagaaaatccaaagatttCtgcacatatattaaaagaaa	5	5	1	4			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:58831026C>G	uc001xdp.2	+	20	2473	c.2219C>G	c.(2218-2220)TCT>TGT	p.S740C	ARID4A_uc001xdo.2_Missense_Mutation_p.S740C|ARID4A_uc001xdq.2_Missense_Mutation_p.S740C|ARID4A_uc010apg.1_Missense_Mutation_p.S418C	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	740					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						CCAAAGATTTCTGCACATATA	0.289													3	124	---	---	---	---	PASS	G	58831026	G	G	58831026	3	3	85	1	0	0	0	0	1	0	0	0	919	913	32	2	2293	2	ARID4A	14	58831026	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	4413512	58831026	48518514	224	32530										
ARID4A	5926	broad.mit.edu	37	chr14	58831452	58831452	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggaaatgacaaatactgtatCtcaagaaaggaccagtgatt	9	6	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:58831452C>G	uc001xdp.2	+	20	2899	c.2645C>G	c.(2644-2646)TCT>TGT	p.S882C	ARID4A_uc001xdo.2_Missense_Mutation_p.S882C|ARID4A_uc001xdq.2_Missense_Mutation_p.S882C|ARID4A_uc010apg.1_Missense_Mutation_p.S560C	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	882					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						AATACTGTATCTCAAGAAAGG	0.333													3	59	---	---	---	---	PASS	G	58831452	G	G	58831452	3	3	85	1	0	0	0	0	1	0	0	0	919	913	32	2	2719	2	ARID4A	14	58831452	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	426	58831452	48518088	225	32531										
RHOJ	57381	broad.mit.edu	37	chr14	63747706	63747706	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	caggaggactacaaccagctGaggccactctcctaccccaa	8	16	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:63747706G>T	uc001xgb.1	+	3	698	c.255G>T	c.(253-255)CTG>CTT	p.L85L		NM_020663	NP_065714	Q9H4E5	RHOJ_HUMAN	ras homolog gene family, member J precursor	85					actin cytoskeleton organization|regulation of cell shape|regulation of small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.00326)|all cancers(60;0.031)|BRCA - Breast invasive adenocarcinoma(234;0.119)		ACAACCAGCTGAGGCCACTCT	0.517													4	107	---	---	---	---	PASS	T	63747706	T	T	63747706	2	4	85	1	0	0	0	0	0	0	0	1	13341	1277	45	2		2	RHOJ	14	63747706	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	4916254	63747706	43601834	226	32532										
SPTB	6710	broad.mit.edu	37	chr14	65246548	65246548	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aggtccaggaaccgcttctcGatgctcaagtctgcatctcc	9	14	4	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:65246548G>A	uc001xht.2	-	20	4422	c.4368C>T	c.(4366-4368)ATC>ATT	p.I1456I	SPTB_uc001xhr.2_Silent_p.I1456I|SPTB_uc001xhs.2_Silent_p.I1456I|SPTB_uc001xhu.2_Silent_p.I1456I|SPTB_uc010aqi.2_Silent_p.I117I	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1456	Spectrin 12.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		ACCGCTTCTCGATGCTCAAGT	0.567													7	164	---	---	---	---	PASS	A	65246548	A	A	65246548	2	1	85	1	0	0	0	0	0	0	0	1	15117	1048	37	2		2	SPTB	14	65246548	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	1498842	65246548	42102992	227	32533										
SPTB	6710	broad.mit.edu	37	chr14	65253537	65253537	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agtcctcctggccctgcaggGattgctgcaggccctgccac	12	16	0	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:65253537G>A	uc001xht.2	-	15	3200	c.3146C>T	c.(3145-3147)TCC>TTC	p.S1049F	SPTB_uc001xhr.2_Missense_Mutation_p.S1049F|SPTB_uc001xhs.2_Missense_Mutation_p.S1049F|SPTB_uc001xhu.2_Missense_Mutation_p.S1049F	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1049	Spectrin 8.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		GCCCTGCAGGGATTGCTGCAG	0.607													5	109	---	---	---	---	PASS	A	65253537	A	A	65253537	3	1	85	1	0	0	0	0	1	0	0	0	15117	1174	41	2	3993	2	SPTB	14	65253537	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	6989	65253537	42096003	228	32534										
MPP5	64398	broad.mit.edu	37	chr14	67768824	67768824	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttcgtatagaaaaggctcgtGatattccgttggtaagtgtc	11	6	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:67768824G>C	uc001xjc.2	+	6	1256	c.790G>C	c.(790-792)GAT>CAT	p.D264H	MPP5_uc001xjd.2_Missense_Mutation_p.D230H|ATP6V1D_uc001xje.2_Intron	NM_022474	NP_071919	Q8N3R9	MPP5_HUMAN	membrane protein, palmitoylated 5	264	PDZ.				tight junction assembly	cytoplasm|endomembrane system|tight junction	protein domain specific binding			ovary(1)	1				all cancers(60;0.000388)|OV - Ovarian serous cystadenocarcinoma(108;0.00762)|BRCA - Breast invasive adenocarcinoma(234;0.0106)		AAAGGCTCGTGATATTCCGTT	0.373													3	91	---	---	---	---	PASS	C	67768824	C	C	67768824	3	2	85	1	0	0	0	0	1	0	0	0	9737	1290	45	2	804	2	MPP5	14	67768824	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2515287	67768824	39580716	229	32535										
MLH3	27030	broad.mit.edu	37	chr14	75514843	75514843	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aaaagggcttaaaaacatttCtaaactggttccacacggat	7	8	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:75514843C>A	uc001xrd.1	-	2	1732	c.1516G>T	c.(1516-1518)GAA>TAA	p.E506*	MLH3_uc001xre.1_Nonsense_Mutation_p.E506*|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	506					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		AAAAACATTTCTAAACTGGTT	0.388								MMR					6	128	---	---	---	---	PASS	A	75514843	A	A	75514843	4	1	85	1	0	0	0	0	0	1	0	0	9618	922	32	2	2893	2	MLH3	14	75514843	Nonsense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	7746019	75514843	31834697	230	32536										
ESRRB	2103	broad.mit.edu	37	chr14	76928997	76928997	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgcctcaaagtggggatgctGaaggaaggtaagagacccca	14	8	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:76928997G>A	uc001xsq.1	+	3	574	c.507G>A	c.(505-507)CTG>CTA	p.L169L	ESRRB_uc001xsr.2_Silent_p.L169L|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	169						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		TGGGGATGCTGAAGGAAGGTA	0.587													10	257	---	---	---	---	PASS	A	76928997	A	A	76928997	2	1	85	1	0	0	0	0	0	0	0	1	5261	1277	45	2		2	ESRRB	14	76928997	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	1414154	76928997	30420543	231	32537										
GSTZ1	2954	broad.mit.edu	37	chr14	77795519	77795519	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	atgcagctgacctgggcccaGaacgccatcacttgtggctt	11	13	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:77795519G>C	uc001xtj.2	+	6	678	c.396G>C	c.(394-396)CAG>CAC	p.Q132H	GSTZ1_uc001xtk.2_Missense_Mutation_p.Q90H|GSTZ1_uc010ass.2_Missense_Mutation_p.Q77H|GSTZ1_uc001xtm.2_Missense_Mutation_p.Q77H	NM_145870	NP_665877	O43708	MAAI_HUMAN	glutathione transferase zeta 1 isoform 1	132	GST C-terminal.				glutathione metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol|mitochondrion	glutathione peroxidase activity|glutathione transferase activity|maleylacetoacetate isomerase activity|protein homodimerization activity				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)	Glutathione(DB00143)	CCTGGGCCCAGAACGCCATCA	0.582													7	108	---	---	---	---	PASS	C	77795519	C	C	77795519	3	2	85	1	0	0	0	0	1	0	0	0	6848	933	33	2	418	2	GSTZ1	14	77795519	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	866522	77795519	29554021	232	32538										
SETD3	84193	broad.mit.edu	37	chr14	99865093	99865093	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcttttactttcttgattgaGactttcattttcggacctgg	7	8	3	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:99865093G>C	uc001ygc.2	-	13	1878	c.1708C>G	c.(1708-1710)CTC>GTC	p.L570V		NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	570					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				TCTTGATTGAGACTTTCATTT	0.473													5	201	---	---	---	---	PASS	C	99865093	C	C	99865093	3	2	85	1	0	0	0	0	1	0	0	0	14132	942	33	2	80	2	SETD3	14	99865093	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	22069574	99865093	7484447	233	32539										
DYNC1H1	1778	broad.mit.edu	37	chr14	102515856	102515856	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgggtgtccgacttcagcgaGaggatcaaacagctgcagaa	13	9	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:102515856G>C	uc001yks.2	+	75	13616	c.13452G>C	c.(13450-13452)GAG>GAC	p.E4484D		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	4484					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						ACTTCAGCGAGAGGATCAAAC	0.607													3	54	---	---	---	---	PASS	C	102515856	C	C	102515856	3	2	85	1	0	0	0	0	1	0	0	0	4841	933	33	2	13750	2	DYNC1H1	14	102515856	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2650763	102515856	4833684	234	32540										
ASPG	374569	broad.mit.edu	37	chr14	104571026	104571026	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggccgccctggccaagctatCgtatgtgctgggccagccag	14	14	0	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr14:104571026C>T	uc001yoq.1	+	9	1064	c.1004C>T	c.(1003-1005)TCG>TTG	p.S335L	ASPG_uc001yoo.1_Missense_Mutation_p.S363L|ASPG_uc001yop.1_Missense_Mutation_p.S335L|ASPG_uc001yor.1_Missense_Mutation_p.S335L	NM_001080464	NP_001073933	Q86U10	LPP60_HUMAN	60 kDa lysophospholipase	335	Asparaginase.				lipid catabolic process		1-alkyl-2-acetylglycerophosphocholine esterase activity|asparaginase activity|lysophospholipase activity				0						GCCAAGCTATCGTATGTGCTG	0.662													6	37	---	---	---	---	PASS	T	104571026	T	T	104571026	3	4	85	1	0	0	0	0	1	0	0	0	1052	893	31	2	1038	2	ASPG	14	104571026	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	2055170	104571026	2778514	235	32541										
HERC2	8924	broad.mit.edu	37	chr15	28513702	28513702	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggctaggtagtggtgaccatCagaatgggcagcaattttta	13	6	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr15:28513702C>T	uc001zbj.2	-	12	1613	c.1507G>A	c.(1507-1509)GAT>AAT	p.D503N	HERC2_uc001zbl.1_Missense_Mutation_p.D198N	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	503	WD 3.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TGGTGACCATCAGAATGGGCA	0.532													4	65	---	---	---	---	PASS	T	28513702	T	T	28513702	3	4	85	1	0	0	0	0	1	0	0	0	7058	826	29	2	13325	2	HERC2	15	28513702	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08		28513702	74017690	236	32542										
GJD2	57369	broad.mit.edu	37	chr15	35045123	35045123	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agacctgatgggtgtggagtCagctccttaacctctaaaca	10	10	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr15:35045123C>A	uc001zis.1	-	2	522	c.522G>T	c.(520-522)CTG>CTT	p.L174L	uc001zit.1_5'Flank	NM_020660	NP_065711	Q9UKL4	CXD2_HUMAN	gap junction protein, delta 2, 36kDa	174	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_lung(180;9.67e-07)		all cancers(64;2.75e-18)|GBM - Glioblastoma multiforme(113;1.9e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		GGTGTGGAGTCAGCTCCTTAA	0.468													27	205	---	---	---	---	PASS	A	35045123	A	A	35045123	2	1	85	1	0	0	0	0	0	0	0	1	6417	813	29	2		2	GJD2	15	35045123	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	6531421	35045123	67486269	237	32543										
MGA	23269	broad.mit.edu	37	chr15	42052646	42052646	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cggcggcggcgtggtgaaatGagggatctctttgagaaatt	16	6	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr15:42052646G>C	uc010ucy.1	+	20	7498	c.7317G>C	c.(7315-7317)ATG>ATC	p.M2439I	MGA_uc010ucz.1_Missense_Mutation_p.M2230I|MGA_uc010uda.1_Missense_Mutation_p.M1055I	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	2400	Helix-loop-helix motif.					MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		GTGGTGAAATGAGGGATCTCT	0.433													5	127	---	---	---	---	PASS	C	42052646	C	C	42052646	3	2	85	1	0	0	0	0	1	0	0	0	9540	1290	45	2	7391	2	MGA	15	42052646	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	7007523	42052646	60478746	238	32544										
SPG11	80208	broad.mit.edu	37	chr15	44890849	44890849	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctacagactctctgataaagCtgtactgagcatcttcattt	6	10	3	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr15:44890849C>G	uc001ztx.2	-	22	3903	c.3872G>C	c.(3871-3873)AGC>ACC	p.S1291T	SPG11_uc010ueh.1_Missense_Mutation_p.S1291T|SPG11_uc010uei.1_Missense_Mutation_p.S1291T|SPG11_uc001zty.1_Missense_Mutation_p.S20T	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	1291	Cytoplasmic (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		TCTGATAAAGCTGTACTGAGC	0.428													8	92	---	---	---	---	PASS	G	44890849	G	G	44890849	3	3	85	1	0	0	0	0	1	0	0	0	15040	797	28	4	3535	4	SPG11	15	44890849	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	2838203	44890849	57640543	239	32545										
FBN1	2200	broad.mit.edu	37	chr15	48829910	48829910	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gccccaggctcggccgactgTggcacagcagagcgtttttg	14	13	0	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr15:48829910T>C	uc001zwx.1	-	7	962	c.634A>G	c.(634-636)ACA>GCA	p.T212A		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	212	TB 1.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CGGCCGACTGTGGCACAGCAG	0.577													22	160	---	---	---	---	PASS	C	48829910	C	C	48829910	3	2	85	1	0	0	0	0	1	0	0	0	5702	1696	59	5	8221	5	FBN1	15	48829910	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	3939061	48829910	53701482	240	32546										
MAPK6	5597	broad.mit.edu	37	chr15	52357078	52357078	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccataggcatcccacagtttCacagtccagttgggtcacca	8	14	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr15:52357078C>G	uc002abp.2	+	6	2841	c.2047C>G	c.(2047-2049)CAC>GAC	p.H683D		NM_002748	NP_002739	Q16659	MK06_HUMAN	mitogen-activated protein kinase 6	683					cell cycle		ATP binding|MAP kinase activity			lung(3)|ovary(1)	4				all cancers(107;0.0028)		CCCACAGTTTCACAGTCCAGT	0.468													8	74	---	---	---	---	PASS	G	52357078	G	G	52357078	3	3	85	1	0	0	0	0	1	0	0	0	9281	826	29	2	2065	2	MAPK6	15	52357078	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	3527168	52357078	50174314	241	32547										
TBC1D21	161514	broad.mit.edu	37	chr15	74166053	74166053	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cggaagacagcaggggccatGaccaccctctctcctgaaaa	10	14	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr15:74166053G>A	uc002avz.2	+	1	86	c.3G>A	c.(1-3)ATG>ATA	p.M1I	TBC1D21_uc010ulc.1_Missense_Mutation_p.M1I	NM_153356	NP_699187	Q8IYX1	TBC21_HUMAN	TBC1 domain family, member 21	1						intracellular	Rab GTPase activator activity			ovary(2)	2						CAGGGGCCATGACCACCCTCT	0.552											OREG0023267	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	24	---	---	---	---	PASS	A	74166053	A	A	74166053	3	1	85	1	0	0	0	0	1	0	0	0	15607	1290	45	2	5	2	TBC1D21	15	74166053	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	21808975	74166053	28365339	242	32548										
IQGAP1	8826	broad.mit.edu	37	chr15	90969481	90969481	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgaaaaaaatctatgatcgaGaacagaccagatacaaggtg	9	6	1	5			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr15:90969481G>C	uc002bpl.1	+	3	396	c.295G>C	c.(295-297)GAA>CAA	p.E99Q		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	99	CH.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			CTATGATCGAGAACAGACCAG	0.423													3	77	---	---	---	---	PASS	C	90969481	C	C	90969481	3	2	85	1	0	0	0	0	1	0	0	0	7814	943	33	2	305	2	IQGAP1	15	90969481	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	16803428	90969481	11561911	243	32549										
SRRM2	23524	broad.mit.edu	37	chr16	2806571	2806571	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	caagcggcgcgtcgagctgcGatgcctcgagctggaggaga	17	11	0	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr16:2806571G>A	uc002crk.2	+	2	755	c.206G>A	c.(205-207)CGA>CAA	p.R69Q	SRRM2_uc002crj.1_Intron|SRRM2_uc002crl.1_Missense_Mutation_p.R69Q|SRRM2_uc010bsu.1_Intron	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	69	Potential.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GTCGAGCTGCGATGCCTCGAG	0.627													8	100	---	---	---	---	PASS	A	2806571	A	A	2806571	3	1	85	1	0	0	0	0	1	0	0	0	15168	1058	37	2	208	2	SRRM2	16	2806571	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08		2806571	87548182	244	32550										
NLRC3	197358	broad.mit.edu	37	chr16	3613598	3613598	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgaagcagtaggccactgacGatgccaacgtctcctctctc	9	14	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr16:3613598G>A	uc010btn.2	-	5	1751	c.1340C>T	c.(1339-1341)TCG>TTG	p.S447L		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	447	NACHT.				I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						GGCCACTGACGATGCCAACGT	0.582													5	20	---	---	---	---	PASS	A	3613598	A	A	3613598	3	1	85	1	0	0	0	0	1	0	0	0	10468	1059	37	2	1922	2	NLRC3	16	3613598	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	807027	3613598	86741155	245	32551										
SMG1	23049	broad.mit.edu	37	chr16	18861663	18861663	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccacactttaataactccttCagttgcactttcatcaagtt	3	12	3	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr16:18861663C>T	uc002dfm.2	-	34	5542	c.5179G>A	c.(5179-5181)GAA>AAA	p.E1727K	SMG1_uc010bwb.2_Missense_Mutation_p.E1587K|SMG1_uc010bwa.2_Missense_Mutation_p.E458K|SMG1_uc002dfo.3_Missense_Mutation_p.E25K	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	1727	FAT.|Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						ATAACTCCTTCAGTTGCACTT	0.408													4	76	---	---	---	---	PASS	T	18861663	T	T	18861663	3	4	85	1	0	0	0	0	1	0	0	0	14795	835	29	2	5926	2	SMG1	16	18861663	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	15248065	18861663	71493090	246	32552										
DNAH3	55567	broad.mit.edu	37	chr16	21033341	21033341	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgagaaggcaaggtggatggGagatgtctggacaacaaatt	15	4	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr16:21033341G>C	uc010vbe.1	-	40	5728	c.5728C>G	c.(5728-5730)CCC>GCC	p.P1910A		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1910					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		AGGTGGATGGGAGATGTCTGG	0.488													7	66	---	---	---	---	PASS	C	21033341	C	C	21033341	3	2	85	1	0	0	0	0	1	0	0	0	4603	1174	41	2	6713	2	DNAH3	16	21033341	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2171678	21033341	69321412	247	32553										
CLN3	1201	broad.mit.edu	37	chr16	28497729	28497729	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggtctgctgaggggagaggcCggcctgggtgaggcccaggt	21	9	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr16:28497729C>T	uc002dpo.2	-	8	939	c.616G>A	c.(616-618)GGC>AGC	p.G206S	uc010vct.1_Intron|CLN3_uc002dpl.2_Missense_Mutation_p.G128S|CLN3_uc010vcu.1_Missense_Mutation_p.G106S|CLN3_uc002dpn.2_Intron|CLN3_uc002dpm.2_Missense_Mutation_p.G152S|CLN3_uc010vcv.1_Missense_Mutation_p.G182S|CLN3_uc010byd.2_Missense_Mutation_p.G206S|CLN3_uc002dpp.2_Missense_Mutation_p.G206S|CLN3_uc002dpt.1_Missense_Mutation_p.G106S|CLN3_uc002dpq.1_Intron|CLN3_uc010bye.1_Missense_Mutation_p.G206S|CLN3_uc002dpr.1_Intron|CLN3_uc010byf.1_Intron|CLN3_uc002dps.1_Intron|CLN3_uc002dpu.1_Intron|CLN3_uc002dpw.1_Intron|CLN3_uc010vcw.1_Missense_Mutation_p.G152S|CLN3_uc002dqa.2_Missense_Mutation_p.G257S|CLN3_uc010vcx.1_Missense_Mutation_p.G106S|CLN3_uc002dpx.1_Intron|CLN3_uc002dpy.1_Intron|CLN3_uc002dpz.1_RNA	NM_000086	NP_000077	Q13286	CLN3_HUMAN	ceroid-lipofuscinosis, neuronal 3	206					amyloid precursor protein catabolic process|arginine transport|associative learning|autophagic vacuole fusion|cell death|cellular amino acid metabolic process|cytosolic calcium ion homeostasis|galactosylceramide metabolic process|globoside metabolic process|glucosylceramide metabolic process|ionotropic glutamate receptor signaling pathway|lysosomal lumen acidification|lysosomal lumen pH elevation|negative regulation of catalytic activity|negative regulation of macroautophagy|negative regulation of neuron apoptosis|negative regulation of proteolysis|neuromuscular process controlling balance|neurotransmitter metabolic process|protein catabolic process|protein folding|protein processing|receptor-mediated endocytosis|regulation of action potential|sphingomyelin metabolic process|vacuolar transport	autophagic vacuole|caveola|cytosol|early endosome|Golgi membrane|Golgi stack|integral to endoplasmic reticulum membrane|late endosome|lysosomal membrane|membrane fraction|mitochondrion|neuron projection|nucleus|synaptic vesicle|trans-Golgi network	unfolded protein binding				0						GGGGAGAGGCCGGCCTGGGTG	0.687													6	48	---	---	---	---	PASS	T	28497729	T	T	28497729	3	4	85	1	0	0	0	0	1	0	0	0	3543	652	23	1	732	1	CLN3	16	28497729	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	7464388	28497729	61857024	248	32554										
SRCAP	10847	broad.mit.edu	37	chr16	30712191	30712191	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	accctcagctcccagtcctaCagacacaggtttgaaagtgg	9	13	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr16:30712191C>A	uc002dze.1	+	3	431	c.46C>A	c.(46-48)CAG>AAG	p.Q16K		NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	16					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CCCAGTCCTACAGACACAGGT	0.532													3	54	---	---	---	---	PASS	A	30712191	A	A	30712191	3	1	85	1	0	0	0	0	1	0	0	0	15134	479	17	3	48	3	SRCAP	16	30712191	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	2214462	30712191	59642562	249	32555										
ABCC11	85320	broad.mit.edu	37	chr16	48250159	48250159	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gggtccatagcacaccccttCaaacaggtagtttacatcac	7	13	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr16:48250159C>G	uc002eff.1	-	6	1167	c.817G>C	c.(817-819)GAA>CAA	p.E273Q	ABCC11_uc002efg.1_Missense_Mutation_p.E273Q|ABCC11_uc002efh.1_Missense_Mutation_p.E273Q|ABCC11_uc010vgk.1_5'Flank|ABCC11_uc010vgl.1_Missense_Mutation_p.E273Q	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	273	ABC transmembrane type-1 1.|Helical; (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				CACACCCCTTCAAACAGGTAG	0.502									Cerumen_Type				6	179	---	---	---	---	PASS	G	48250159	G	G	48250159	3	3	85	1	0	0	0	0	1	0	0	0	51	835	29	2	3427	2	ABCC11	16	48250159	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	17537968	48250159	42104594	250	32556										
ZFHX3	463	broad.mit.edu	37	chr16	72992324	72992324	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cattggccctgacgccctcaCtgttaaagcttaaacgattc	7	13	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr16:72992324C>G	uc002fck.2	-	2	2394	c.1721G>C	c.(1720-1722)AGT>ACT	p.S574T	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	574					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GACGCCCTCACTGTTAAAGCT	0.507													11	78	---	---	---	---	PASS	G	72992324	G	G	72992324	3	3	85	1	0	0	0	0	1	0	0	0	17631	565	20	4	9426	4	ZFHX3	16	72992324	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	24742165	72992324	17362429	251	32557										
PLCG2	5336	broad.mit.edu	37	chr16	81973631	81973631	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gcgatcccaactttcttgctCatgccacttaccccattaaa	4	15	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr16:81973631C>G	uc002fgt.2	+	30	3600	c.3448C>G	c.(3448-3450)CAT>GAT	p.H1150D		NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	1150	C2.				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						CTTTCTTGCTCATGCCACTTA	0.423													7	149	---	---	---	---	PASS	G	81973631	G	G	81973631	3	3	85	1	0	0	0	0	1	0	0	0	12036	826	29	2	3562	2	PLCG2	16	81973631	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	8981307	81973631	8381122	252	32558										
INPP5K	51763	broad.mit.edu	37	chr17	1416780	1416780	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agaggggaaagcacatccatGaggaaactgctccacgagtc	12	10	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:1416780G>C	uc002fsr.2	-	3	617	c.228C>G	c.(226-228)CTC>CTG	p.L76L	INPP5K_uc002fss.2_5'UTR|INPP5K_uc002fsq.2_5'UTR|INPP5K_uc010cjr.2_5'UTR|INPP5K_uc010vql.1_Intron|INPP5K_uc010vqm.1_Silent_p.L76L|INPP5K_uc010cjs.2_Intron	NM_016532	NP_057616	Q9BT40	INP5K_HUMAN	inositol polyphosphate-5-phosphatase K isoform	76	Catalytic (Potential).				actin cytoskeleton organization	cytosol|endoplasmic reticulum|membrane fraction|neuron projection|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol bisphosphate phosphatase activity|inositol bisphosphate phosphatase activity|inositol trisphosphate phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|lipid phosphatase activity|protein binding				0						GCACATCCATGAGGAAACTGC	0.493													4	211	---	---	---	---	PASS	C	1416780	C	C	1416780	2	2	85	1	0	0	0	0	0	0	0	1	7760	1277	45	2		2	INPP5K	17	1416780	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08		1416780	79778430	253	32559										
TEKT1	83659	broad.mit.edu	37	chr17	6718550	6718550	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ttgttgttgagcgagaagcaGatatcatctatggtcagggc	13	6	3	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:6718550G>A	uc002gdt.2	-	5	671	c.561C>T	c.(559-561)ATC>ATT	p.I187I	TEKT1_uc010vth.1_Silent_p.I41I	NM_053285	NP_444515	Q969V4	TEKT1_HUMAN	tektin 1	187					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|skin(1)	2		Myeloproliferative disorder(207;0.0255)				GCGAGAAGCAGATATCATCTA	0.488													16	159	---	---	---	---	PASS	A	6718550	A	A	6718550	2	1	85	1	0	0	0	0	0	0	0	1	15749	932	33	2		2	TEKT1	17	6718550	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	5301770	6718550	74476660	254	32560										
GAS7	8522	broad.mit.edu	37	chr17	9923193	9923193	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctggctttcttctcccggcgGaggggggaccattccaggct	14	13	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:9923193G>A	uc002gmg.1	-	2	366	c.205C>T	c.(205-207)CCG>TCG	p.P69S	GAS7_uc010vvd.1_Missense_Mutation_p.P21S|GAS7_uc002gmi.2_Missense_Mutation_p.P5S|GAS7_uc002gmj.1_Missense_Mutation_p.P9S|GAS7_uc010coh.1_Missense_Mutation_p.P9S	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	69	Poly-Pro.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						TCTCCCGGCGGAGGGGGGACC	0.542			T	MLL	AML*								16	76	---	---	---	---	PASS	A	9923193	A	A	9923193	3	1	85	1	0	0	0	0	1	0	0	0	6250	1174	41	2	1328	2	GAS7	17	9923193	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	3204643	9923193	71272017	255	32561										
MYH8	4626	broad.mit.edu	37	chr17	10307706	10307706	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gagagtgaccattttttcctCtagctccttccgttttgcct	7	12	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:10307706C>G	uc002gmm.2	-	22	2724	c.2629G>C	c.(2629-2631)GAG>CAG	p.E877Q	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	877	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						ATTTTTTCCTCTAGCTCCTTC	0.438									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				10	83	---	---	---	---	PASS	G	10307706	G	G	10307706	3	3	85	1	0	0	0	0	1	0	0	0	10041	922	32	2	3260	2	MYH8	17	10307706	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	384513	10307706	70887504	256	32562										
FBXW10	10517	broad.mit.edu	37	chr17	18682174	18682174	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtcctagagtccagtccaccAtaccccagcccatgattatc	6	16	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:18682174A>G	uc002guk.2	+	14	2954	c.2722A>G	c.(2722-2724)ATA>GTA	p.I908V	FBXW10_uc002guj.2_Missense_Mutation_p.I907V|FBXW10_uc002gul.2_Missense_Mutation_p.I917V|FBXW10_uc010cqh.1_Missense_Mutation_p.I855V|FAM18B_uc002gum.2_5'Flank	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	908										ovary(1)	1						CCAGTCCACCATACCCCAGCC	0.502													9	203	---	---	---	---	PASS	G	18682174	G	G	18682174	3	3	85	1	0	0	0	0	1	0	0	0	5763	217	8	5	2773	5	FBXW10	17	18682174	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	8374468	18682174	62513036	257	32563										
ERAL1	26284	broad.mit.edu	37	chr17	27182147	27182147	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cgcgagggagcgggtgatccCtttttcctcactcttaggct	12	12	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:27182147C>A	uc002hcy.1	+	1	105	c.95C>A	c.(94-96)CCT>CAT	p.P32H	ERAL1_uc002hcx.1_Missense_Mutation_p.P32H|ERAL1_uc002hcz.1_RNA|ERAL1_uc002hda.1_5'Flank|ERAL1_uc002hdb.1_5'Flank	NM_005702	NP_005693	O75616	ERAL1_HUMAN	Era-like 1	32					ribosomal small subunit assembly	mitochondrial inner membrane|mitochondrial matrix	GTP binding|ribosomal small subunit binding|rRNA binding			skin(1)	1	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;1.12e-05)|all cancers(11;5.32e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.105)			CGGGTGATCCCTTTTTCCTCA	0.627													12	84	---	---	---	---	PASS	A	27182147	A	A	27182147	3	1	85	1	0	0	0	0	1	0	0	0	5202	681	24	3	97	3	ERAL1	17	27182147	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	8499973	27182147	54013063	258	32564										
KRT24	192666	broad.mit.edu	37	chr17	38855808	38855808	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gcatttagtctcaccccagaTctggcagatctcctcctcca	6	16	3	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:38855808T>C	uc002hvd.2	-	6	1306	c.1249A>G	c.(1249-1251)ATC>GTC	p.I417V		NM_019016	NP_061889	Q2M2I5	K1C24_HUMAN	keratin 24	417	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.00526)				TCACCCCAGATCTGGCAGATC	0.567													12	198	---	---	---	---	PASS	C	38855808	C	C	38855808	3	2	85	1	0	0	0	0	1	0	0	0	8461	1435	50	5	340	5	KRT24	17	38855808	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	11673661	38855808	42339402	259	32565										
KRT31	3881	broad.mit.edu	37	chr17	39553742	39553742	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggggcacgcagggccgggagGagcagctggtgcggcagctc	21	11	0	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:39553742G>C	uc002hwn.2	-	1	103	c.50C>G	c.(49-51)TCC>TGC	p.S17C	KRT31_uc010cxn.2_Missense_Mutation_p.S17C	NM_002277	NP_002268	Q15323	K1H1_HUMAN	keratin 31	17	Head.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000496)				GGGCCGGGAGGAGCAGCTGGT	0.652													6	51	---	---	---	---	PASS	C	39553742	C	C	39553742	3	2	85	1	0	0	0	0	1	0	0	0	8467	1174	41	2	1228	2	KRT31	17	39553742	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	697934	39553742	41641468	260	32566										
KRT14	3861	broad.mit.edu	37	chr17	39739351	39739351	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggaggagggtcttaccatctCtggatgactgcgatccagag	14	9	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:39739351C>G	uc002hxf.1	-	7	1377	c.1316G>C	c.(1315-1317)AGA>ACA	p.R439T	JUP_uc010wfs.1_Intron|KRT14_uc010cxp.1_Intron	NM_000526	NP_000517	P02533	K1C14_HUMAN	keratin 14	439	Tail.|Interaction with Type I keratins and keratin filaments.				epidermis development|hemidesmosome assembly|intermediate filament bundle assembly	cytosol|keratin filament|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(1)	1		Breast(137;0.000307)				CTTACCATCTCTGGATGACTG	0.577													8	140	---	---	---	---	PASS	G	39739351	G	G	39739351	3	3	85	1	0	0	0	0	1	0	0	0	8451	913	32	2	110	2	KRT14	17	39739351	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	185609	39739351	41455859	261	32567										
AARSD1	80755	broad.mit.edu	37	chr17	41122314	41122314	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggctttacttacatccaaatCatccatggcaggtggaggtc	10	10	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:41122314C>T	uc002icf.2	-	7	771	c.553G>A	c.(553-555)GAT>AAT	p.D185N	AARSD1_uc002icd.2_Missense_Mutation_p.D124N|AARSD1_uc002ice.2_Missense_Mutation_p.D94N|AARSD1_uc010whg.1_Missense_Mutation_p.D185N|AARSD1_uc002icg.2_RNA|AARSD1_uc002ich.2_Missense_Mutation_p.D147N|AARSD1_uc010whh.1_Missense_Mutation_p.D152N	NM_025267	NP_079543	Q9BTE6	AASD1_HUMAN	alanyl-tRNA synthetase domain containing 1	Error:Variant_position_missing_in_Q9BTE6_after_alignment					alanyl-tRNA aminoacylation	cytoplasm	alanine-tRNA ligase activity|ATP binding|metal ion binding|nucleic acid binding				0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		ACATCCAAATCATCCATGGCA	0.453													45	432	---	---	---	---	PASS	T	41122314	T	T	41122314	3	4	85	1	0	0	0	0	1	0	0	0	21	826	29	2	1298	2	AARSD1	17	41122314	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1382963	41122314	40072896	262	32568										
SPOP	8405	broad.mit.edu	37	chr17	47688717	47688717	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtctgtgaaccgggaattctCccacagtcctcctaactcat	7	14	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:47688717C>A	uc010dbk.2	-	7	1215	c.583G>T	c.(583-585)GAG>TAG	p.E195*	SPOP_uc002ipb.2_Nonsense_Mutation_p.E195*|SPOP_uc002ipc.2_Nonsense_Mutation_p.E195*|SPOP_uc002ipd.2_Nonsense_Mutation_p.E195*|SPOP_uc002ipe.2_Nonsense_Mutation_p.E195*|SPOP_uc002ipf.2_Nonsense_Mutation_p.E195*|SPOP_uc002ipg.2_Nonsense_Mutation_p.E195*	NM_003563	NP_003554	O43791	SPOP_HUMAN	speckle-type POZ protein	195	BTB.				mRNA processing	nucleus	protein binding			prostate(2)|ovary(2)|lung(2)	6						CGGGAATTCTCCCACAGTCCT	0.483										Prostate(2;0.17)			48	221	---	---	---	---	PASS	A	47688717	A	A	47688717	4	1	85	1	0	0	0	0	0	1	0	0	15083	864	30	2	561	2	SPOP	17	47688717	Nonsense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	6566403	47688717	33506493	263	32569										
TMEM49	81671	broad.mit.edu	37	chr17	57842496	57842496	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gttaggattgaagcctgcatGtgggtaagatatgcattttc	12	5	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:57842496G>C	uc002ixu.3	+	6	852	c.579G>C	c.(577-579)ATG>ATC	p.M193I	TMEM49_uc010wog.1_Missense_Mutation_p.M1I|TMEM49_uc010woh.1_Intron|TMEM49_uc010woi.1_Missense_Mutation_p.M96I|TMEM49_uc010woj.1_Missense_Mutation_p.M59I	NM_030938	NP_112200	Q96GC9	VMP1_HUMAN	transmembrane protein 49	193	Extracellular (Potential).				autophagy|cell adhesion	endoplasmic reticulum|ER-Golgi intermediate compartment membrane|integral to membrane|plasma membrane|vacuolar membrane					0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;1.15e-09)|all cancers(12;1.15e-08)			AAGCCTGCATGTGGGTAAGAT	0.373													24	52	---	---	---	---	PASS	C	57842496	C	C	57842496	3	2	85	1	0	0	0	0	1	0	0	0	16170	1377	48	4	597	4	TMEM49	17	57842496	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	10153779	57842496	23352714	264	32570										
TEX2	55852	broad.mit.edu	37	chr17	62265629	62265629	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gcccatgtacacgctgtagtCgagaagcatcttctgccgca	10	13	2	1	rs149542859		TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:62265629C>T	uc002jec.2	-	5	2496	c.2323G>A	c.(2323-2325)GAC>AAC	p.D775N	TEX2_uc002jed.2_Missense_Mutation_p.D782N|TEX2_uc002jee.2_Missense_Mutation_p.D775N	NM_018469	NP_060939	Q8IWB9	TEX2_HUMAN	testis expressed sequence 2	775					signal transduction|sphingolipid metabolic process	integral to membrane				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		ACGCTGTAGTCGAGAAGCATC	0.622													4	102	---	---	---	---	PASS	T	62265629	T	T	62265629	3	4	85	1	0	0	0	0	1	0	0	0	15778	884	31	2	1092	2	TEX2	17	62265629	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	4423133	62265629	18929581	265	32571										
HELZ	9931	broad.mit.edu	37	chr17	65156379	65156379	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aagccttaaaaaaaatacctGagaggtcttgcctggggatt	10	7	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:65156379G>C	uc010wqk.1	-	17	2365	c.2178C>G	c.(2176-2178)CTC>CTG	p.L726L	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Silent_p.L725L	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					AAAAATACCTGAGAGGTCTTG	0.338													4	54	---	---	---	---	PASS	C	65156379	C	C	65156379	2	2	85	1	0	0	0	0	0	0	0	1	7049	1277	45	2		2	HELZ	17	65156379	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	2890750	65156379	16038831	266	32572										
HELZ	9931	broad.mit.edu	37	chr17	65184632	65184632	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agttttctgggacttcttgtGatacctgggtagtactatct	10	7	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:65184632G>A	uc010wqk.1	-	12	1152	c.965C>T	c.(964-966)TCA>TTA	p.S322L	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.S322L	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					GACTTCTTGTGATACCTGGGT	0.408													11	306	---	---	---	---	PASS	A	65184632	A	A	65184632	3	1	85	1	0	0	0	0	1	0	0	0	7049	1294	45	2	4951	2	HELZ	17	65184632	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	28253	65184632	16010578	267	32573										
KIAA0195	9772	broad.mit.edu	37	chr17	73489113	73489113	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gagacatcgctggggcggctCtcctgtgtcaccaagcggcg	15	13	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:73489113C>G	uc002jnz.3	+	16	2291	c.2016C>G	c.(2014-2016)CTC>CTG	p.L672L	KIAA0195_uc010wsa.1_Silent_p.L682L|KIAA0195_uc010wsb.1_Silent_p.L312L|KIAA0195_uc002job.3_5'Flank	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	672					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			TGGGGCGGCTCTCCTGTGTCA	0.607													17	59	---	---	---	---	PASS	G	73489113	G	G	73489113	2	3	85	1	0	0	0	0	0	0	0	1	8160	900	32	2		2	KIAA0195	17	73489113	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	8304481	73489113	7706097	268	32574										
ENGASE	64772	broad.mit.edu	37	chr17	77075610	77075610	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtgcagactccctatgctttCtaccactggcagtgcatcga	9	13	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr17:77075610C>G	uc002jwv.2	+	4	464	c.456C>G	c.(454-456)TTC>TTG	p.F152L	ENGASE_uc002jwu.1_Missense_Mutation_p.F152L|ENGASE_uc010wtz.1_Intron|ENGASE_uc002jww.2_5'Flank	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	152				F -> L (in Ref. 2; BAB15158).		cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						CCTATGCTTTCTACCACTGGC	0.453													18	211	---	---	---	---	PASS	G	77075610	G	G	77075610	3	3	85	1	0	0	0	0	1	0	0	0	5118	912	32	2	470	2	ENGASE	17	77075610	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	3586497	77075610	4119600	269	32575										
CETN1	1068	broad.mit.edu	37	chr18	580595	580595	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccatgagagcgctgggcttcGaacccaggaaggaagagatg	15	9	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr18:580595G>A	uc002kko.1	+	1	229	c.187G>A	c.(187-189)GAA>AAA	p.E63K		NM_004066	NP_004057	Q12798	CETN1_HUMAN	centrin 1	63	EF-hand 1.				cell division|mitosis	spindle pole	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding			upper_aerodigestive_tract(1)|ovary(1)	2						GCTGGGCTTCGAACCCAGGAA	0.552													7	59	---	---	---	---	PASS	A	580595	A	A	580595	3	1	85	1	0	0	0	0	1	0	0	0	3274	1059	37	2	189	2	CETN1	18	580595	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08		580595	77496653	270	32576										
LAMA1	284217	broad.mit.edu	37	chr18	6975960	6975960	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtgctgctaccgaggtagaaGagaagattatcgggttcctg	14	7	0	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr18:6975960G>A	uc002knm.2	-	45	6559	c.6465C>T	c.(6463-6465)CTC>CTT	p.L2155L	LAMA1_uc010wzj.1_Silent_p.L1631L	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2155	Laminin G-like 1.				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)	CGAGGTAGAAGAGAAGATTAT	0.418													4	139	---	---	---	---	PASS	A	6975960	A	A	6975960	2	1	85	1	0	0	0	0	0	0	0	1	8605	929	33	2		2	LAMA1	18	6975960	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	6395365	6975960	71101288	271	32577										
MOCOS	55034	broad.mit.edu	37	chr18	33775227	33775227	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgttttctttcaggaactgtCtatcttgaccatgcaggtgc	9	9	4	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr18:33775227C>G	uc002kzq.3	+	2	173	c.150C>G	c.(148-150)GTC>GTG	p.V50V		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	50					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	CAGGAACTGTCTATCTTGACC	0.368													3	160	---	---	---	---	PASS	G	33775227	G	G	33775227	2	3	85	1	0	0	0	0	0	0	0	1	9689	900	32	2		2	MOCOS	18	33775227	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	26799267	33775227	44302021	272	32578										
TCEB3B	51224	broad.mit.edu	37	chr18	44560278	44560278	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agaagacatggctgggcaccGttttcggcccggcggaatca	14	11	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr18:44560278G>A	uc002lcr.1	-	1	1711	c.1358C>T	c.(1357-1359)ACG>ATG	p.T453M	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	453					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GCTGGGCACCGTTTTCGGCCC	0.602													16	117	---	---	---	---	PASS	A	44560278	A	A	44560278	3	1	85	1	0	0	0	0	1	0	0	0	15679	1145	40	1	907	1	TCEB3B	18	44560278	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	10785051	44560278	33516970	273	32579										
ACAA2	10449	broad.mit.edu	37	chr18	47323859	47323859	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acatccattcacaatggactGaaaaccagaaccacagagcc	6	13	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr18:47323859G>C	uc002ldw.3	-	3	686	c.289C>G	c.(289-291)CAG>GAG	p.Q97E	ACAA2_uc002ldx.3_Missense_Mutation_p.Q94E	NM_006111	NP_006102	P42765	THIM_HUMAN	acetyl-coenzyme A acyltransferase 2	97					anti-apoptosis|cholesterol biosynthetic process		acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1						ACAATGGACTGAAAACCAGAA	0.388													6	147	---	---	---	---	PASS	C	47323859	C	C	47323859	3	2	85	1	0	0	0	0	1	0	0	0	105	1299	45	2	936	2	ACAA2	18	47323859	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2763581	47323859	30753389	274	32580										
SERPINB4	6318	broad.mit.edu	37	chr18	61325788	61325788	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aggagttaatcttctttcgaCtttcttctggagcatttgca	8	8	4	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr18:61325788C>G	uc002ljg.2	-	4	454	c.428G>C	c.(427-429)AGT>ACT	p.S143T	SERPINB3_uc002lji.2_Missense_Mutation_p.S143T|SERPINB3_uc010dqa.2_Missense_Mutation_p.S143T|SERPINB3_uc010dqb.2_3'UTR			P48594	SPB4_HUMAN	SubName: Full=Squamous cell carcinoma antigen 2;	143					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						CTTCTTTCGACTTTCTTCTGG	0.398													6	80	---	---	---	---	PASS	G	61325788	G	G	61325788	3	3	85	1	0	0	0	0	1	0	0	0	14103	565	20	4		4	SERPINB4	18	61325788	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	14001929	61325788	16751460	275	32581										
CDH7	1005	broad.mit.edu	37	chr18	63491903	63491903	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cttatcaatataacgtcccaGagtcattacctgtagcctca	5	12	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr18:63491903G>T	uc002ljz.2	+	6	1142	c.817G>T	c.(817-819)GAG>TAG	p.E273*	CDH7_uc002lka.2_Nonsense_Mutation_p.E273*|CDH7_uc002lkb.2_Nonsense_Mutation_p.E273*	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	273	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				TAACGTCCCAGAGTCATTACC	0.383													4	87	---	---	---	---	PASS	T	63491903	T	T	63491903	4	4	85	1	0	0	0	0	0	1	0	0	3115	943	33	2	835	2	CDH7	18	63491903	Nonsense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2166115	63491903	14585345	276	32582										
CCDC102B	79839	broad.mit.edu	37	chr18	66504390	66504390	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agaataaaactagagatggcGatgaaagaattgagtacact	10	4	0	5			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr18:66504390G>T	uc002lkk.2	+	4	613	c.390G>T	c.(388-390)GCG>GCT	p.A130A	CCDC102B_uc002lki.2_Silent_p.A130A|CCDC102B_uc002lkj.1_Silent_p.A130A	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	130	Potential.									ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				TAGAGATGGCGATGAAAGAAT	0.448													16	76	---	---	---	---	PASS	T	66504390	T	T	66504390	2	4	85	1	0	0	0	0	0	0	0	1	2737	1045	37	2		2	CCDC102B	18	66504390	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	3012487	66504390	11572858	277	32583										
APC2	10297	broad.mit.edu	37	chr19	1453249	1453249	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctttcccgcccctgcaggagGtcctgaagcacctacaggga	11	15	0	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:1453249G>A	uc002lsr.1	+	3	353	c.145G>A	c.(145-147)GTC>ATC	p.V49I	APC2_uc002lss.1_5'UTR|APC2_uc002lst.1_Missense_Mutation_p.V49I|APC2_uc002lsu.1_Missense_Mutation_p.V49I	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	49	Potential.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTGCAGGAGGTCCTGAAGCA	0.682													3	6	---	---	---	---	PASS	A	1453249	A	A	1453249	3	1	85	1	0	0	0	0	1	0	0	0	764	1261	44	3	151	3	APC2	19	1453249	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08		1453249	57675734	278	32584										
MUC16	94025	broad.mit.edu	37	chr19	9072935	9072935	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gattcaaatgctgaaccggtGgtccccacattggtaactac	9	11	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:9072935G>T	uc002mkp.2	-	3	14715	c.14511C>A	c.(14509-14511)ACC>ACA	p.T4837T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4839	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGAACCGGTGGTCCCCACAT	0.463													16	100	---	---	---	---	PASS	T	9072935	T	T	9072935	2	4	85	1	0	0	0	0	0	0	0	1	9973	1335	47	3		3	MUC16	19	9072935	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	7619686	9072935	50056048	279	32585										
ZNF266	10781	broad.mit.edu	37	chr19	9525174	9525174	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cgttctctggcaaacaacatCtgggttcaggctgaaggctt	11	10	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:9525174C>G	uc002mll.2	-	4	693	c.427G>C	c.(427-429)GAT>CAT	p.D143H	ZNF266_uc002mlm.2_Missense_Mutation_p.D143H|ZNF266_uc002mln.2_Missense_Mutation_p.D143H|ZNF266_uc002mlo.2_Missense_Mutation_p.D143H|ZNF266_uc010dwp.2_Missense_Mutation_p.D143H|ZNF266_uc010dwq.2_Missense_Mutation_p.D143H	NM_198058	NP_932175	Q14584	ZN266_HUMAN	zinc finger protein 266	143					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CAAACAACATCTGGGTTCAGG	0.438													3	128	---	---	---	---	PASS	G	9525174	G	G	9525174	3	3	85	1	0	0	0	0	1	0	0	0	17802	913	32	2	1226	2	ZNF266	19	9525174	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	452239	9525174	49603809	280	32586										
COL5A3	50509	broad.mit.edu	37	chr19	10073506	10073506	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtgactcaccttcttccctcGacggaatgtgctataccagc	8	14	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:10073506G>C	uc002mmq.1	-	65	4926	c.4840C>G	c.(4840-4842)CGA>GGA	p.R1614G		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1614	Fibrillar collagen NC1.				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)			TTCTTCCCTCGACGGAATGTG	0.547													3	30	---	---	---	---	PASS	C	10073506	C	C	10073506	3	2	85	1	0	0	0	0	1	0	0	0	3698	1066	37	2	409	2	COL5A3	19	10073506	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	548332	10073506	49055477	281	32587										
PLVAP	83483	broad.mit.edu	37	chr19	17477002	17477002	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctctgattgttcgtgtagatGacctgcccggaagatagggg	14	8	1	4	rs138246020		TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:17477002G>A	uc002ngk.1	-	2	422	c.372C>T	c.(370-372)GTC>GTT	p.V124V		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	124	Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						TCGTGTAGATGACCTGCCCGG	0.542													6	210	---	---	---	---	PASS	A	17477002	A	A	17477002	2	1	85	1	0	0	0	0	0	0	0	1	12116	1277	45	2		2	PLVAP	19	17477002	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	7403496	17477002	41651981	282	32588										
TSSK6	83983	broad.mit.edu	37	chr19	19626179	19626179	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	caccttggagtagctgccctCtccaattgtgcggcccagct	10	15	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:19626179C>G	uc002nmr.2	-	1	291	c.58G>C	c.(58-60)GAG>CAG	p.E20Q	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	20	ATP (By similarity).|Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						TAGCTGCCCTCTCCAATTGTG	0.632													5	99	---	---	---	---	PASS	G	19626179	G	G	19626179	3	3	85	1	0	0	0	0	1	0	0	0	16669	922	32	2	767	2	TSSK6	19	19626179	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	2149177	19626179	39502804	283	32589										
ZNF506	440515	broad.mit.edu	37	chr19	19905854	19905854	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cacacttgtatggtttctctCcagtatgaattttcttatgt	6	8	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:19905854C>G	uc010eci.2	-	4	990	c.842G>C	c.(841-843)GGA>GCA	p.G281A	ZNF506_uc002nog.2_Intron|ZNF506_uc002noh.3_Missense_Mutation_p.G249A	NM_001099269	NP_001092739	Q5JVG8	ZN506_HUMAN	zinc finger protein 506 isoform 1	281					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding				0						TGGTTTCTCTCCAGTATGAAT	0.368													3	51	---	---	---	---	PASS	G	19905854	G	G	19905854	3	3	85	1	0	0	0	0	1	0	0	0	17949	855	30	2	496	2	ZNF506	19	19905854	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	279675	19905854	39223129	284	32590										
ZNF91	7644	broad.mit.edu	37	chr19	23543988	23543988	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cacacttgtaagacttctctCcagtatgaattatcttatgt	5	9	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:23543988C>A	uc002nre.2	-	4	1906	c.1793G>T	c.(1792-1794)GGA>GTA	p.G598V	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.G566V	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	598						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				AGACTTCTCTCCAGTATGAAT	0.363													8	55	---	---	---	---	PASS	A	23543988	A	A	23543988	3	1	85	1	0	0	0	0	1	0	0	0	18197	855	30	2	1786	2	ZNF91	19	23543988	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	3638134	23543988	35584995	285	32591										
TYROBP	7305	broad.mit.edu	37	chr19	36398144	36398144	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	taaggcgactcggtctcagtGatacgctgtttccgggtcgc	13	11	1	1	rs151172291	byFrequency	TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:36398144G>C	uc002ocm.2	-	4	308	c.252C>G	c.(250-252)ATC>ATG	p.I84M	TYROBP_uc002ocn.2_Missense_Mutation_p.I83M	NM_003332	NP_003323	O43914	TYOBP_HUMAN	TYRO protein tyrosine kinase binding protein	84	Cytoplasmic (Potential).				axon guidance|cell junction assembly|cellular defense response|intracellular signal transduction|regulation of immune response	integral to plasma membrane|intracellular	identical protein binding|receptor signaling protein activity				0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CGGTCTCAGTGATACGCTGTT	0.537													4	34	---	---	---	---	PASS	C	36398144	C	C	36398144	3	2	85	1	0	0	0	0	1	0	0	0	16812	1280	45	2	97	2	TYROBP	19	36398144	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	12854156	36398144	22730839	286	32592										
HKR1	284459	broad.mit.edu	37	chr19	37853479	37853479	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tatcaaggagtcaaacctccTtagcctccagaagacacaaa	6	12	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:37853479T>C	uc002ogb.2	+	6	1051	c.782T>C	c.(781-783)CTT>CCT	p.L261P	HKR1_uc002ofx.2_5'UTR|HKR1_uc002ofy.2_5'UTR|HKR1_uc002oga.2_Missense_Mutation_p.L243P|HKR1_uc010xto.1_Missense_Mutation_p.L243P|HKR1_uc002ogc.2_Missense_Mutation_p.L242P|HKR1_uc010xtp.1_Missense_Mutation_p.L200P|HKR1_uc002ogd.2_Missense_Mutation_p.L200P	NM_181786	NP_861451	P10072	HKR1_HUMAN	GLI-Kruppel family member HKR1	261					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCAAACCTCCTTAGCCTCCAG	0.448													7	74	---	---	---	---	PASS	C	37853479	C	C	37853479	3	2	85	1	0	0	0	0	1	0	0	0	7194	1609	56	5	796	5	HKR1	19	37853479	Missense_Mutation	SNP	T	TCGA-39-5022-01A-21D-1817-08	1455335	37853479	21275504	287	32593										
CD79A	973	broad.mit.edu	37	chr19	42383185	42383185	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccaacgtcacctggtggcgcGtcctccatggcaactacacg	10	16	1	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:42383185G>A	uc002orv.2	+	2	390	c.205G>A	c.(205-207)GTC>ATC	p.V69I	CD79A_uc002oru.2_Missense_Mutation_p.V69I	NM_001783	NP_001774	P11912	CD79A_HUMAN	CD79A antigen isoform 1 precursor	69	Ig-like C2-type.|Extracellular (Potential).			V -> I (in Ref. 3; AAA60270).	B cell differentiation|B cell proliferation|B cell receptor signaling pathway	B cell receptor complex|external side of plasma membrane|integral to membrane|membrane raft|multivesicular body	transmembrane receptor activity			ovary(2)|pancreas(1)	3						CTGGTGGCGCGTCCTCCATGG	0.602			O|S		DLBCL								22	91	---	---	---	---	PASS	A	42383185	A	A	42383185	3	1	85	1	0	0	0	0	1	0	0	0	3036	1145	40	1	211	1	CD79A	19	42383185	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	4529706	42383185	16745798	288	32594										
ATP1A3	478	broad.mit.edu	37	chr19	42492696	42492696	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cttgttcttcttgggtgagtCcttgtcatctttcttgtcct	8	10	5	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:42492696C>G	uc002osg.2	-	2	179	c.25G>C	c.(25-27)GAC>CAC	p.D9H	ATP1A3_uc010xwf.1_Missense_Mutation_p.D20H|ATP1A3_uc010xwg.1_5'UTR|ATP1A3_uc010xwh.1_Missense_Mutation_p.D22H|ATP1A3_uc002osh.2_Missense_Mutation_p.D9H	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	9	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						TTGGGTGAGTCCTTGTCATCT	0.612													19	226	---	---	---	---	PASS	G	42492696	G	G	42492696	3	3	85	1	0	0	0	0	1	0	0	0	1130	855	30	2	3104	2	ATP1A3	19	42492696	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	109511	42492696	16636287	289	32595										
PPFIA3	8541	broad.mit.edu	37	chr19	49637913	49637913	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cagaactccctgagcgaggaGatagccaacatgaagaagct	11	10	0	5			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:49637913G>C	uc002pmr.2	+	12	1727	c.1395G>C	c.(1393-1395)GAG>GAC	p.E465D	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_Missense_Mutation_p.E389D|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_Missense_Mutation_p.E333D	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	465	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		TGAGCGAGGAGATAGCCAACA	0.602													4	165	---	---	---	---	PASS	C	49637913	C	C	49637913	3	2	85	1	0	0	0	0	1	0	0	0	12311	933	33	2	1437	2	PPFIA3	19	49637913	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	7145217	49637913	9491070	290	32596										
SIGLEC10	89790	broad.mit.edu	37	chr19	51917069	51917069	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gagtccgtctcttcggtagaAtcttcatgctgaggaaatga	11	8	3	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:51917069A>C	uc002pwo.2	-	10	2334	c.1718T>G	c.(1717-1719)ATT>AGT	p.I573S	SIGLEC10_uc002pwp.2_Missense_Mutation_p.I515S|SIGLEC10_uc002pwq.2_Missense_Mutation_p.I420S|SIGLEC10_uc002pwr.2_Missense_Mutation_p.I478S|SIGLEC10_uc010ycy.1_Missense_Mutation_p.I388S|SIGLEC10_uc010ycz.1_Missense_Mutation_p.I430S|SIGLEC10_uc010eow.2_Missense_Mutation_p.I290S|SIGLEC10_uc002pws.1_Missense_Mutation_p.I314S	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	573	Cytoplasmic (Potential).				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		CTTCGGTAGAATCTTCATGCT	0.443													9	70	---	---	---	---	PASS	C	51917069	C	C	51917069	3	2	85	1	0	0	0	0	1	0	0	0	14306	101	4	5	383	5	SIGLEC10	19	51917069	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	2279156	51917069	7211914	291	32597										
ZNF616	90317	broad.mit.edu	37	chr19	52618120	52618120	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	taaggctctctccagtatgtCttattcgatgtttagtgagg	10	7	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:52618120C>G	uc002pym.2	-	4	2580	c.2297G>C	c.(2296-2298)AGA>ACA	p.R766T	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	766	C2H2-type 21.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		TCCAGTATGTCTTATTCGATG	0.368													5	107	---	---	---	---	PASS	G	52618120	G	G	52618120	3	3	85	1	0	0	0	0	1	0	0	0	18038	913	32	2	52	2	ZNF616	19	52618120	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	701051	52618120	6510863	292	32598										
ZNF528	84436	broad.mit.edu	37	chr19	52919907	52919907	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcaccatagaattcacattgGagagaaaccttacaaatgca	6	9	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:52919907G>C	uc002pzh.2	+	7	2228	c.1802G>C	c.(1801-1803)GGA>GCA	p.G601A	ZNF528_uc002pzi.2_Missense_Mutation_p.G368A	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	601					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		ATTCACATTGGAGAGAAACCT	0.418													4	99	---	---	---	---	PASS	C	52919907	C	C	52919907	3	2	85	1	0	0	0	0	1	0	0	0	17966	1174	41	2	1816	2	ZNF528	19	52919907	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	301787	52919907	6209076	293	32599										
LAIR1	3903	broad.mit.edu	37	chr19	54867877	54867877	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	catcaacagccaggtcaggcCtaagaggaaaaataaaagtg	10	8	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:54867877C>A	uc002qfk.1	-	8	937	c.627_splice	c.e8-1	p.R209_splice	LAIR1_uc002qfl.1_Splice_Site_p.R192_splice|LAIR1_uc002qfm.1_Splice_Site_p.R208_splice|LAIR1_uc002qfn.1_Splice_Site_p.R191_splice|LAIR1_uc010yex.1_Splice_Site_p.R202_splice|LAIR1_uc002qfo.2_Splice_Site_p.R191_splice	NM_002287	NP_002278	Q6GTX8	LAIR1_HUMAN	leukocyte-associated immunoglobulin-like							integral to membrane|plasma membrane	protein binding|receptor activity			ovary(4)	4	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0573)		CAGGTCAGGCCTAAGAGGAAA	0.597													14	50	---	---	---	---	PASS	A	54867877	A	A	54867877	5	1	85	1	0	0	0	0	0	0	1	0	8602	695	24	3	249	3	LAIR1	19	54867877	Splice_Site	SNP	C	TCGA-39-5022-01A-21D-1817-08	1947970	54867877	4261106	294	32600										
NLRP11	204801	broad.mit.edu	37	chr19	56320725	56320725	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcagtaaacccaacacatctGaggtcttcaccactgaaatt	5	12	4	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:56320725G>C	uc010ygf.1	-	5	1962	c.1251C>G	c.(1249-1251)CTC>CTG	p.L417L	NLRP11_uc002qlz.2_Silent_p.L318L|NLRP11_uc002qmb.2_Silent_p.L318L|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	417	NACHT.						ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		CAACACATCTGAGGTCTTCAC	0.468													3	99	---	---	---	---	PASS	C	56320725	C	C	56320725	2	2	85	1	0	0	0	0	0	0	0	1	10473	1277	45	2		2	NLRP11	19	56320725	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	1452848	56320725	2808258	295	32601										
PEG3	5178	broad.mit.edu	37	chr19	57326512	57326512	+	Missense_Mutation	SNP	C	A	A													0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gattttgtcatcagggtcatCcttctgagggtcttccatgt							TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:57326512C>A	uc002qnu.2	-	7	3649	c.3298G>T	c.(3298-3300)GAT>TAT	p.D1100Y	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.D1071Y|PEG3_uc002qnv.2_Missense_Mutation_p.D1100Y|PEG3_uc002qnw.2_Missense_Mutation_p.D976Y|PEG3_uc002qnx.2_Missense_Mutation_p.D974Y|PEG3_uc010etr.2_Missense_Mutation_p.D1100Y	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1100					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TCAGGGTCATCCTTCTGAGGG	0.512													13	141	---	---	---	---	PASS	A	57326512	A	A	57326512	3	1	85	1	0	0	0	0	1	0	0	0	11720	855	30	2	1472	2	PEG3	19	57326512	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1005787	57326512	1802471	296	32602	642	2								
PEG3	5178	broad.mit.edu	37	chr19	57326513	57326513	+	Missense_Mutation	SNP	C	A	A													0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	attttgtcatcagggtcatcCttctgagggtcttccatgtc							TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:57326513C>A	uc002qnu.2	-	7	3648	c.3297G>T	c.(3295-3297)AAG>AAT	p.K1099N	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.K1070N|PEG3_uc002qnv.2_Missense_Mutation_p.K1099N|PEG3_uc002qnw.2_Missense_Mutation_p.K975N|PEG3_uc002qnx.2_Missense_Mutation_p.K973N|PEG3_uc010etr.2_Missense_Mutation_p.K1099N	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1099					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CAGGGTCATCCTTCTGAGGGT	0.507													14	138	---	---	---	---	PASS	A	57326513	A	A	57326513	3	1	85	1	0	0	0	0	1	0	0	0	11720	680	24	3	1473	3	PEG3	19	57326513	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	1	57326513	1802470	297	32603	642	2								
ZNF324	25799	broad.mit.edu	37	chr19	58982276	58982276	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gagagaaaacccacgggggtGtcggtgatctactgggagag	17	7	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr19:58982276G>C	uc002qsw.1	+	4	511	c.417G>C	c.(415-417)GTG>GTC	p.V139V	ZNF324_uc002qsx.1_5'Flank	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	139					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		CCACGGGGGTGTCGGTGATCT	0.637													6	144	---	---	---	---	PASS	C	58982276	C	C	58982276	2	2	85	1	0	0	0	0	0	0	0	1	17841	1364	48	4		4	ZNF324	19	58982276	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	1655763	58982276	146707	298	32604										
NRSN2	80023	broad.mit.edu	37	chr20	334113	334113	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ccaggacaccaaggcagagcCcttggaccccgaagccgaca	11	16	0	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr20:334113C>T	uc002wdi.3	+	4	987	c.449C>T	c.(448-450)CCC>CTC	p.P150L	NRSN2_uc002wdj.2_RNA|NRSN2_uc002wdl.2_Intron	NM_024958	NP_079234	Q9GZP1	NRSN2_HUMAN	neurensin 2	150						integral to membrane|plasma membrane|transport vesicle					0		all_cancers(10;0.0834)				AAGGCAGAGCCCTTGGACCCC	0.617													7	85	---	---	---	---	PASS	T	334113	T	T	334113	3	4	85	1	0	0	0	0	1	0	0	0	10663	623	22	3	455	3	NRSN2	20	334113	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08		334113	62691407	299	32605										
C20orf94	128710	broad.mit.edu	37	chr20	10602001	10602001	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gagtgtctgattactttgctGagtgtgcagagagttcactt	12	6	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr20:10602001G>C	uc010zre.1	+	7	625	c.445G>C	c.(445-447)GAG>CAG	p.E149Q		NM_001009608	NP_001009608	Q5VYV7	CT094_HUMAN	hypothetical protein LOC128710	149							protein binding				0						TTACTTTGCTGAGTGTGCAGA	0.408													4	53	---	---	---	---	PASS	C	10602001	C	C	10602001	3	2	85	1	0	0	0	0	1	0	0	0	2121	1291	45	2	467	2	C20orf94	20	10602001	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	10267888	10602001	52423519	300	32606										
SUN5	140732	broad.mit.edu	37	chr20	31590668	31590668	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ggcacctgtccttgctcactCatgtttggggaggtgtcctc	12	12	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr20:31590668C>T	uc002wyi.2	-	2	228	c.135G>A	c.(133-135)ATG>ATA	p.M45I		NM_080675	NP_542406	Q8TC36	SUN5_HUMAN	sperm associated antigen 4-like	45					spermatogenesis					skin(1)	1						CTTGCTCACTCATGTTTGGGG	0.353													7	80	---	---	---	---	PASS	T	31590668	T	T	31590668	3	4	85	1	0	0	0	0	1	0	0	0	15391	840	29	2	1052	2	SUN5	20	31590668	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	20988667	31590668	31434852	301	32607										
C20orf71	128861	broad.mit.edu	37	chr20	31814288	31814288	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aagttctcccacacatggtaGaaagtcaggtaagtttagaa	9	7	2	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr20:31814288G>C	uc002wyr.2	+	5	821	c.613G>C	c.(613-615)GAA>CAA	p.E205Q	C20orf71_uc002wys.2_Missense_Mutation_p.E169Q	NM_178466	NP_848561	Q9BQP9	SPLC3_HUMAN	short long palate, lung and nasal epithelium	205						extracellular region	lipid binding			ovary(1)|skin(1)	2						ACACATGGTAGAAAGTCAGGT	0.378													5	69	---	---	---	---	PASS	C	31814288	C	C	31814288	3	2	85	1	0	0	0	0	1	0	0	0	2117	943	33	2	631	2	C20orf71	20	31814288	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	223620	31814288	31211232	302	32608										
PXMP4	11264	broad.mit.edu	37	chr20	32295600	32295600	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	catagaggtaggtcatggagGactgcagcgagggctgcagg	18	7	1	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr20:32295600G>T	uc002wzv.2	-	4	674	c.551C>A	c.(550-552)TCC>TAC	p.S184Y	PXMP4_uc002wzw.2_3'UTR|PXMP4_uc010zuh.1_3'UTR	NM_007238	NP_009169	Q9Y6I8	PXMP4_HUMAN	peroxisomal membrane protein 4 isoform a	184						integral to membrane|membrane fraction|mitochondrial inner membrane|peroxisomal membrane	protein transporter activity				0						GGTCATGGAGGACTGCAGCGA	0.582													24	174	---	---	---	---	PASS	T	32295600	T	T	32295600	3	4	85	1	0	0	0	0	1	0	0	0	12851	1174	41	2	91	2	PXMP4	20	32295600	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	481312	32295600	30729920	303	32609										
ZNF341	84905	broad.mit.edu	37	chr20	32336822	32336822	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	atgatgtgctcatgtctgccAtgtcagccttcacatccctg	8	13	4	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr20:32336822A>T	uc002wzy.2	+	4	453	c.433A>T	c.(433-435)ATG>TTG	p.M145L	ZNF341_uc002wzx.2_Missense_Mutation_p.M145L|ZNF341_uc010geq.2_Missense_Mutation_p.M55L|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	145	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CATGTCTGCCATGTCAGCCTT	0.587													17	87	---	---	---	---	PASS	T	32336822	T	T	32336822	3	4	85	1	0	0	0	0	1	0	0	0	17854	217	8	5	447	5	ZNF341	20	32336822	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	41222	32336822	30688698	304	32610										
TRPC4AP	26133	broad.mit.edu	37	chr20	33596469	33596469	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acttttccccagactcacctGaaagacgactctgctggctc	7	15	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr20:33596469G>A	uc002xbk.2	-	13	1627	c.1593C>T	c.(1591-1593)TTC>TTT	p.F531F	TRPC4AP_uc002xbj.2_5'Flank|TRPC4AP_uc010zuq.1_Silent_p.F122F|TRPC4AP_uc002xbl.2_Silent_p.F523F|TRPC4AP_uc010zur.1_Silent_p.F492F|TRPC4AP_uc002xbm.1_Silent_p.F531F	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	531					protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			AGACTCACCTGAAAGACGACT	0.512													9	139	---	---	---	---	PASS	A	33596469	A	A	33596469	2	1	85	1	0	0	0	0	0	0	0	1	16578	1281	45	2		2	TRPC4AP	20	33596469	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	1259647	33596469	29429051	305	32611										
MANBAL	63905	broad.mit.edu	37	chr20	35929762	35929762	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctcttcctgggagccatcttCcagctcatctgtgtgctggc	10	14	4	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr20:35929762C>G	uc002xgu.2	+	3	308	c.96C>G	c.(94-96)TTC>TTG	p.F32L	MANBAL_uc002xgv.2_Missense_Mutation_p.F32L|MANBAL_uc002xgw.2_RNA|MANBAL_uc010gfx.2_RNA|MANBAL_uc010gfy.2_RNA	NM_022077	NP_071360	Q9NQG1	MANBL_HUMAN	mannosidase, beta A, lysosomal-like	32	Helical; (Potential).					integral to membrane					0		Myeloproliferative disorder(115;0.00878)				GAGCCATCTTCCAGCTCATCT	0.607													6	129	---	---	---	---	PASS	G	35929762	G	G	35929762	3	3	85	1	0	0	0	0	1	0	0	0	9220	854	30	2	98	2	MANBAL	20	35929762	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	2333293	35929762	27095758	306	32612										
PPP1R16B	26051	broad.mit.edu	37	chr20	37518254	37518254	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gcagtacgctacttcctgaaGaataaggtcagccctgattt	9	10	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr20:37518254G>C	uc002xje.2	+	3	456	c.267G>C	c.(265-267)AAG>AAC	p.K89N	PPP1R16B_uc010ggc.2_Missense_Mutation_p.K89N	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	89					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				ACTTCCTGAAGAATAAGGTCA	0.607													8	334	---	---	---	---	PASS	C	37518254	C	C	37518254	3	2	85	1	0	0	0	0	1	0	0	0	12366	933	33	2	273	2	PPP1R16B	20	37518254	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	1588492	37518254	25507266	307	32613										
SLC12A5	57468	broad.mit.edu	37	chr20	44666022	44666022	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgggcaccatcgaaatcctgCtggtaagagaggctgaggag	15	8	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr20:44666022C>T	uc010zxl.1	+	6	755	c.679C>T	c.(679-681)CTG>TTG	p.L227L	SLC12A5_uc002xra.2_Silent_p.L204L|SLC12A5_uc010zxm.1_Intron|SLC12A5_uc002xrb.2_Silent_p.L204L	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	227	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	CGAAATCCTGCTGGTAAGAGA	0.423													3	52	---	---	---	---	PASS	T	44666022	T	T	44666022	2	4	85	1	0	0	0	0	0	0	0	1	14386	796	28	3		3	SLC12A5	20	44666022	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	7147768	44666022	18359498	308	32614										
ARFGEF2	10564	broad.mit.edu	37	chr20	47611021	47611021	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcagccagctggagctcgctCagctgataggaaccggtgtg	14	11	2	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr20:47611021C>G	uc002xtx.3	+	22	3159	c.3007C>G	c.(3007-3009)CAG>GAG	p.Q1003E	ARFGEF2_uc010zyf.1_Missense_Mutation_p.Q296E	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1003					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			GGAGCTCGCTCAGCTGATAGG	0.493													4	112	---	---	---	---	PASS	G	47611021	G	G	47611021	3	3	85	1	0	0	0	0	1	0	0	0	853	827	29	2	3093	2	ARFGEF2	20	47611021	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	2944999	47611021	15414499	309	32615										
LIPI	149998	broad.mit.edu	37	chr21	15561661	15561661	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtatacatcatcagaatggtCtctattctcggaataaataa	6	7	4	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr21:15561661C>A	uc002yjm.2	-	2	199	c.189G>T	c.(187-189)GAG>GAT	p.E63D	LIPI_uc010gkw.1_5'UTR	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	42					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		TCAGAATGGTCTCTATTCTCG	0.328													11	94	---	---	---	---	PASS	A	15561661	A	A	15561661	3	1	85	1	0	0	0	0	1	0	0	0	8825	912	32	2	1292	2	LIPI	21	15561661	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08		15561661	32568234	310	32616										
NRIP1	8204	broad.mit.edu	37	chr21	16337172	16337172	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	aaattaaagaaagaagctttCgtttctgcagtaggaagtaa	9	4	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr21:16337172C>T	uc002yjx.2	-	4	3940	c.3342G>A	c.(3340-3342)ACG>ACA	p.T1114T		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	1114					androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		AAGAAGCTTTCGTTTCTGCAG	0.438													9	121	---	---	---	---	PASS	T	16337172	T	T	16337172	2	4	85	1	0	0	0	0	0	0	0	1	10652	871	31	2		2	NRIP1	21	16337172	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08	775511	16337172	31792723	311	32617										
ITSN1	6453	broad.mit.edu	37	chr21	35172220	35172220	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgaaatcactatccagccagGagacatagtcatggtaagaa	9	8	2	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr21:35172220G>C	uc002yta.1	+	19	2559	c.2291G>C	c.(2290-2292)GGA>GCA	p.G764A	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_RNA|ITSN1_uc002ysz.2_Missense_Mutation_p.G764A|ITSN1_uc010gmg.2_Missense_Mutation_p.G727A|ITSN1_uc010gmh.2_RNA|ITSN1_uc002ysw.2_Missense_Mutation_p.G764A|ITSN1_uc010gmi.2_Missense_Mutation_p.G727A|ITSN1_uc010gmj.2_Missense_Mutation_p.G648A|ITSN1_uc002ysy.2_Missense_Mutation_p.G764A|ITSN1_uc002ysx.2_Missense_Mutation_p.G727A|ITSN1_uc002ytb.1_Missense_Mutation_p.G764A|ITSN1_uc002ytc.1_Missense_Mutation_p.G764A|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Missense_Mutation_p.G727A|ITSN1_uc010gml.2_RNA|ITSN1_uc002ytj.2_Missense_Mutation_p.G764A|ITSN1_uc010gmm.1_RNA|ITSN1_uc002yte.2_Missense_Mutation_p.G698A|ITSN1_uc002ytf.1_5'Flank	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	764	SH3 1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						ATCCAGCCAGGAGACATAGTC	0.413													3	121	---	---	---	---	PASS	C	35172220	C	C	35172220	3	2	85	1	0	0	0	0	1	0	0	0	7926	1174	41	2	2361	2	ITSN1	21	35172220	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	18835048	35172220	12957675	312	32618										
ZNF295	49854	broad.mit.edu	37	chr21	43411868	43411868	+	Missense_Mutation	SNP	C	A	A													0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gacttgaaggtgcgcatgcaCtcgaggcaggtcagcttctt							TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr21:43411868C>A	uc002zab.3	-	3	2551	c.2337G>T	c.(2335-2337)GAG>GAT	p.E779D	ZNF295_uc002yzz.3_Missense_Mutation_p.E578D|ZNF295_uc002yzy.3_Missense_Mutation_p.E779D|ZNF295_uc002zaa.3_Missense_Mutation_p.E779D	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	779	C2H2-type 5.				negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						TGCGCATGCACTCGAGGCAGG	0.537													31	217	---	---	---	---	PASS	A	43411868	A	A	43411868	3	1	85	1	0	0	0	0	1	0	0	0	17824	564	20	3	867	3	ZNF295	21	43411868	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	8239648	43411868	4718027	313	32619	643	2								
ZNF295	49854	broad.mit.edu	37	chr21	43411872	43411872	+	Missense_Mutation	SNP	A	C	C													0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tgaaggtgcgcatgcactcgAggcaggtcagcttcttatac							TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr21:43411872A>C	uc002zab.3	-	3	2547	c.2333T>G	c.(2332-2334)CTC>CGC	p.L778R	ZNF295_uc002yzz.3_Missense_Mutation_p.L577R|ZNF295_uc002yzy.3_Missense_Mutation_p.L778R|ZNF295_uc002zaa.3_Missense_Mutation_p.L778R	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	778	C2H2-type 5.				negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding	p.L778F(1)		ovary(1)|central_nervous_system(1)|skin(1)	3						CATGCACTCGAGGCAGGTCAG	0.532													32	230	---	---	---	---	PASS	C	43411872	C	C	43411872	3	2	85	1	0	0	0	0	1	0	0	0	17824	304	11	5	871	5	ZNF295	21	43411872	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	4	43411872	4718023	314	32620	643	2								
KRTAP10-5	386680	broad.mit.edu	37	chr21	45999956	45999956	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	cgtagcaggactgctggcagGgggaggaggtgcagcaagtc	19	8	0	0	rs117046341	by1000genomes	TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr21:45999956G>T	uc002zfl.1	-	1	526	c.500C>A	c.(499-501)CCC>CAC	p.P167H	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198694	NP_941967	P60370	KR105_HUMAN	keratin associated protein 10-5	167	22 X 5 AA repeats of C-C-X(3).					keratin filament					0						CTGCTGGCAGGGGGAGGAGGT	0.597													12	218	---	---	---	---	PASS	T	45999956	T	T	45999956	3	4	85	1	0	0	0	0	1	0	0	0	8512	1232	43	3	319	3	KRTAP10-5	21	45999956	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	2588084	45999956	2129939	315	32621										
ZNF280B	140883	broad.mit.edu	37	chr22	22843402	22843402	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	actatctgttgatctcgattCaagttgggaagctggcagga	12	7	3	1			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr22:22843402C>G	uc002zwc.1	-	4	1098	c.322G>C	c.(322-324)GAA>CAA	p.E108Q	LOC96610_uc011aim.1_Intron	NM_080764	NP_542942	Q86YH2	Z280B_HUMAN	zinc finger protein 280B	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		GATCTCGATTCAAGTTGGGAA	0.398													4	153	---	---	---	---	PASS	G	22843402	G	G	22843402	3	3	85	1	0	0	0	0	1	0	0	0	17812	835	29	2	1313	2	ZNF280B	22	22843402	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08		22843402	28461164	316	32622										
LIMK2	3985	broad.mit.edu	37	chr22	31667137	31667137	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tccaggcctatttgcactctAtgtgcatcatccaccgggat	8	13	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr22:31667137A>G	uc003akh.2	+	12	1478	c.1333A>G	c.(1333-1335)ATG>GTG	p.M445V	LIMK2_uc003akg.2_Missense_Mutation_p.M362V|LIMK2_uc003aki.2_Missense_Mutation_p.M199V|LIMK2_uc003akj.2_Missense_Mutation_p.M424V|LIMK2_uc003akk.2_Missense_Mutation_p.M424V|LIMK2_uc011aln.1_Missense_Mutation_p.M362V	NM_005569	NP_005560	P53671	LIMK2_HUMAN	LIM domain kinase 2 isoform 2a	445	Protein kinase.					mitochondrion|nucleus	ATP binding|protein serine/threonine kinase activity|zinc ion binding			ovary(2)	2						TTTGCACTCTATGTGCATCAT	0.547													3	94	---	---	---	---	PASS	G	31667137	G	G	31667137	3	3	85	1	0	0	0	0	1	0	0	0	8802	449	16	5	1436	5	LIMK2	22	31667137	Missense_Mutation	SNP	A	TCGA-39-5022-01A-21D-1817-08	8823735	31667137	19637429	317	32623										
XRCC6	2547	broad.mit.edu	37	chr22	42049691	42049691	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agaaaattcaggtgactcctCcaggtatgtggcagagatat	11	7	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chr22:42049691C>G	uc003bao.1	+	9	1358	c.1288C>G	c.(1288-1290)CCA>GCA	p.P430A	XRCC6_uc003bap.1_Missense_Mutation_p.P389A|XRCC6_uc011apc.1_Missense_Mutation_p.P380A|XRCC6_uc003baq.1_Missense_Mutation_p.P430A|XRCC6_uc003bar.1_Missense_Mutation_p.P430A|XRCC6_uc003bas.1_Missense_Mutation_p.P380A	NM_001469	NP_001460	P12956	XRCC6_HUMAN	ATP-dependent DNA helicase II, 70 kDa subunit	430	Ku.				DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5						GGTGACTCCTCCAGGTATGTG	0.294								Direct_reversal_of_damage|NHEJ					5	77	---	---	---	---	PASS	G	42049691	G	G	42049691	3	3	85	1	0	0	0	0	1	0	0	0	17454	855	30	2	1318	2	XRCC6	22	42049691	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	10382554	42049691	9254875	318	32624										
DHRSX	207063	broad.mit.edu	37	chrX	2209583	2209583	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	agaggaatcttcttcatcttGaacttctgcacaaactgccg	7	11	5	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chrX:2209583G>C	uc004cqf.3	-	4	397	c.348C>G	c.(346-348)TTC>TTG	p.F116L		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	116							binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				TCTTCATCTTGAACTTCTGCA	0.423													4	283	---	---	---	---	PASS	C	2209583	C	C	2209583	3	2	85	1	0	0	0	0	1	0	0	0	4499	1281	45	2	660	2	DHRSX	23	2209583	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08		2209583	153060977	319	32625										
DMD	1756	broad.mit.edu	37	chrX	32360357	32360357	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctcagcttgcctacgcactgCattcagctcctctttcttct	5	16	5	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chrX:32360357C>A	uc004dda.1	-	41	6026	c.5782G>T	c.(5782-5784)GCA>TCA	p.A1928S	DMD_uc004dcw.2_Missense_Mutation_p.A584S|DMD_uc004dcx.2_Missense_Mutation_p.A587S|DMD_uc004dcz.2_Missense_Mutation_p.A1805S|DMD_uc004dcy.1_Missense_Mutation_p.A1924S|DMD_uc004ddb.1_Missense_Mutation_p.A1920S|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1928	Spectrin 13.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTACGCACTGCATTCAGCTCC	0.527													6	37	---	---	---	---	PASS	A	32360357	A	A	32360357	3	1	85	1	0	0	0	0	1	0	0	0	4580	710	25	3	5579	3	DMD	23	32360357	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	30150774	32360357	122910203	320	32626										
FAM47C	442444	broad.mit.edu	37	chrX	37028984	37028984	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtttcaggaaggtacatcaaGcacaatggagtgtgtttctg	12	6	3	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chrX:37028984G>T	uc004ddl.1	+	1	2515	c.2501G>T	c.(2500-2502)AGC>ATC	p.S834I		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	834										ovary(3)	3						GGTACATCAAGCACAATGGAG	0.512													32	62	---	---	---	---	PASS	T	37028984	T	T	37028984	3	4	85	1	0	0	0	0	1	0	0	0	5571	971	34	3	2503	3	FAM47C	23	37028984	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	4668627	37028984	118241576	321	32627										
P2RY10	27334	broad.mit.edu	37	chrX	78216921	78216921	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gtctctgctgccttttggatCcaattctttattactttatg	6	9	2	0			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chrX:78216921C>G	uc004ede.2	+	4	1273	c.904C>G	c.(904-906)CCA>GCA	p.P302A	P2RY10_uc004edf.2_Missense_Mutation_p.P302A	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	302	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						CCTTTTGGATCCAATTCTTTA	0.493													7	186	---	---	---	---	PASS	G	78216921	G	G	78216921	3	3	85	1	0	0	0	0	1	0	0	0	11347	855	30	2	906	2	P2RY10	23	78216921	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	41187937	78216921	77053639	322	32628										
TBC1D8B	54885	broad.mit.edu	37	chrX	106065219	106065219	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tcctttagggattaattgctGaagagggaaaacattgtttt	10	4	0	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chrX:106065219G>A	uc004emo.2	+	4	538	c.373G>A	c.(373-375)GAA>AAA	p.E125K	MORC4_uc004emp.3_Intron|TBC1D8B_uc004emm.2_Missense_Mutation_p.E125K|TBC1D8B_uc004emn.2_Missense_Mutation_p.E125K	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	125						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						ATTAATTGCTGAAGAGGGAAA	0.308													12	37	---	---	---	---	PASS	A	106065219	A	A	106065219	3	1	85	1	0	0	0	0	1	0	0	0	15623	1291	45	2	387	2	TBC1D8B	23	106065219	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	27848298	106065219	49205341	323	32629										
PLS3	5358	broad.mit.edu	37	chrX	114871183	114871183	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tccgagatggtgagactttgGaggaacttatgaaattgtct	12	5	1	3			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chrX:114871183G>C	uc004eqd.2	+	8	1174	c.784G>C	c.(784-786)GAG>CAG	p.E262Q	PLS3_uc010nqg.2_Intron|PLS3_uc011mtf.1_Missense_Mutation_p.E240Q|PLS3_uc004eqe.2_Missense_Mutation_p.E262Q|PLS3_uc011mtg.1_Missense_Mutation_p.E235Q|PLS3_uc011mth.1_Missense_Mutation_p.E217Q	NM_005032	NP_005023	P13797	PLST_HUMAN	plastin 3	262	Actin-binding 1.					cytoplasm	actin binding|calcium ion binding			lung(1)|breast(1)	2						TGAGACTTTGGAGGAACTTAT	0.383													12	122	---	---	---	---	PASS	C	114871183	C	C	114871183	3	2	85	1	0	0	0	0	1	0	0	0	12108	1175	41	2	810	2	PLS3	23	114871183	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	8805964	114871183	40399377	324	32630										
PLS3	5358	broad.mit.edu	37	chrX	114871194	114871194	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gagactttggaggaacttatGaaattgtctccagaagagct	11	6	1	4			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chrX:114871194G>A	uc004eqd.2	+	8	1185	c.795G>A	c.(793-795)ATG>ATA	p.M265I	PLS3_uc010nqg.2_Intron|PLS3_uc011mtf.1_Missense_Mutation_p.M243I|PLS3_uc004eqe.2_Missense_Mutation_p.M265I|PLS3_uc011mtg.1_Missense_Mutation_p.M238I|PLS3_uc011mth.1_Missense_Mutation_p.M220I	NM_005032	NP_005023	P13797	PLST_HUMAN	plastin 3	265	Actin-binding 1.					cytoplasm	actin binding|calcium ion binding			lung(1)|breast(1)	2						AGGAACTTATGAAATTGTCTC	0.378													14	127	---	---	---	---	PASS	A	114871194	A	A	114871194	3	1	85	1	0	0	0	0	1	0	0	0	12108	1290	45	2	821	2	PLS3	23	114871194	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	11	114871194	40399366	325	32631										
GLUD2	2747	broad.mit.edu	37	chrX	120182952	120182952	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acttgctcctgtctgttcaaGagagtttagaaagaaaattt	8	6	2	3	rs10657		TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chrX:120182952G>C	uc004eto.2	+	1	1491	c.1414G>C	c.(1414-1416)GAG>CAG	p.E472Q		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	472					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	GTCTGTTCAAGAGAGTTTAGA	0.413													6	106	---	---	---	---	PASS	C	120182952	C	C	120182952	3	2	85	1	0	0	0	0	1	0	0	0	6477	943	33	2	1416	2	GLUD2	23	120182952	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	5311758	120182952	35087608	326	32632										
MAGEC1	9947	broad.mit.edu	37	chrX	140996143	140996143	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	acacattagacctcacctctGaggggtgtctgagtgatgag	12	9	3	5			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chrX:140996143G>C	uc004fbt.2	+	4	3239	c.2953G>C	c.(2953-2955)GAG>CAG	p.E985Q	MAGEC1_uc010nsl.1_Missense_Mutation_p.E52Q	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	985	MAGE.						protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CCTCACCTCTGAGGGGTGTCT	0.478										HNSCC(15;0.026)			5	141	---	---	---	---	PASS	C	140996143	C	C	140996143	3	2	85	1	0	0	0	0	1	0	0	0	9180	1291	45	2	2959	2	MAGEC1	23	140996143	Missense_Mutation	SNP	G	TCGA-39-5022-01A-21D-1817-08	20813191	140996143	14274417	327	32633										
MAGEC1	9947	broad.mit.edu	37	chrX	140996154	140996154	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	ctcacctctgaggggtgtctGagtgatgagcagggcatgtc	15	9	3	4			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chrX:140996154G>C	uc004fbt.2	+	4	3250	c.2964G>C	c.(2962-2964)CTG>CTC	p.L988L	MAGEC1_uc010nsl.1_Silent_p.L55L	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	988	MAGE.						protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AGGGGTGTCTGAGTGATGAGC	0.473										HNSCC(15;0.026)			4	135	---	---	---	---	PASS	C	140996154	C	C	140996154	2	2	85	1	0	0	0	0	0	0	0	1	9180	1277	45	2		2	MAGEC1	23	140996154	Silent	SNP	G	TCGA-39-5022-01A-21D-1817-08	11	140996154	14274406	328	32634										
MAGEA1	4100	broad.mit.edu	37	chrX	152483001	152483001	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	gcagtgcagactcctctgctCaagagacatgatgactctcg	10	12	3	4			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chrX:152483001C>G	uc004fhf.2	-	3	230	c.10G>C	c.(10-12)GAG>CAG	p.E4Q		NM_004988	NP_004979	P43355	MAGA1_HUMAN	melanoma antigen family A, 1	4						cytoplasm|plasma membrane				central_nervous_system(7)|ovary(1)|lung(1)|breast(1)	10	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTCCTCTGCTCAAGAGACATG	0.622													3	63	---	---	---	---	PASS	G	152483001	G	G	152483001	3	3	85	1	0	0	0	0	1	0	0	0	9163	835	29	2	923	2	MAGEA1	23	152483001	Missense_Mutation	SNP	C	TCGA-39-5022-01A-21D-1817-08	11486847	152483001	2787559	329	32635										
KDM5D	8284	broad.mit.edu	37	chrY	21868202	21868202	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.484756097560976	159	8.80136405808688e-60	3.97714304969	4.53151978506095	3.2466092208367	4.55870371343383e-07	1.61378111455558e-05	119	tccagagcccggctccttgtCcgactcccttgatgttcaaa	8	15	1	2			TCGA-39-5022-01A-21D-1817-08	TCGA-39-5022-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f60928ab-0cb1-4483-8d61-48a5333defbf	b9e3b052-5531-4156-ac06-d84a6e43924a	g.chrY:21868202C>G	uc004fug.2	-	27	4587	c.4299G>C	c.(4297-4299)CGG>CGC	p.R1433R	KDM5D_uc011naz.1_Silent_p.R1464R|KDM5D_uc010nwy.2_Silent_p.R1376R|KDM5D_uc004fuf.2_Silent_p.R608R	NM_004653	NP_004644	Q9BY66	KDM5D_HUMAN	jumonji, AT rich interactive domain 1D isoform	1433					chromatin modification|spermatogenesis	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1					Vitamin C(DB00126)	GGCTCCTTGTCCGACTCCCTT	0.537													2	4	---	---	---	---	PASS	G	21868202	G	G	21868202	2	3	85	1	0	0	0	0	0	0	0	1	8136	842	30	2		2	KDM5D	24	21868202	Silent	SNP	C	TCGA-39-5022-01A-21D-1817-08		21868202	37505364	330	32636										
PANK4	55229	broad.mit.edu	37	chr1	2442178	2442178	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctcccaaaatgatgtctattCcactgttatctgcgaaaatt	5	10	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:2442178C>G	uc001ajm.1	-	16	1886	c.1877G>C	c.(1876-1878)GGA>GCA	p.G626A	PANK4_uc010nza.1_Missense_Mutation_p.G587A	NM_018216	NP_060686	Q9NVE7	PANK4_HUMAN	pantothenate kinase 4	626					coenzyme A biosynthetic process	cytoplasm	ATP binding|pantothenate kinase activity			upper_aerodigestive_tract(1)|large_intestine(1)|ovary(1)	3	all_cancers(77;0.000158)|all_epithelial(69;8.01e-05)|all_lung(157;0.0212)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;3.18e-20)|all_lung(118;1.67e-08)|Lung NSC(185;2.69e-06)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;1.54e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.95e-23)|GBM - Glioblastoma multiforme(42;2.81e-08)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.00445)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		GATGTCTATTCCACTGTTATC	0.532													5	145	---	---	---	---	PASS	G	2442178	G	G	2442178	3	3	86	1	0	0	0	0	1	0	0	0	11419	855	30	2	460	2	PANK4	1	2442178	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08		2442178	246808443	1	32637										
RSC1A1	6248	broad.mit.edu	37	chr1	15987907	15987907	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgagcaaactaagtctttgtCatccaatttcatattggtta	6	7	3	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:15987907C>T	uc010obn.1	+	1	1544	c.1544C>T	c.(1543-1545)TCA>TTA	p.S515L		NM_006511	NP_006502	Q92681	RSCA1_HUMAN	regulatory solute carrier protein, family 1,	515					negative regulation of transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transport	cell junction|Golgi apparatus|nucleus	ion channel inhibitor activity			ovary(1)	1		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00276)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AAGTCTTTGTCATCCAATTTC	0.418													17	37	---	---	---	---	PASS	T	15987907	T	T	15987907	3	4	86	1	0	0	0	0	1	0	0	0	13698	838	29	2	1546	2	RSC1A1	1	15987907	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	13545729	15987907	233262714	2	32638										
ATP13A2	23400	broad.mit.edu	37	chr1	17313556	17313556	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctcaccatggctgggccaggGtcaggaagtagccccctagc	13	14	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:17313556G>A	uc001baa.2	-	26	3258	c.3068C>T	c.(3067-3069)ACC>ATC	p.T1023I	ATP13A2_uc001azz.1_Missense_Mutation_p.T170I|ATP13A2_uc001bab.2_Missense_Mutation_p.T1018I|ATP13A2_uc001bac.2_Missense_Mutation_p.T979I	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	1023	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		CTGGGCCAGGGTCAGGAAGTA	0.687													10	43	---	---	---	---	PASS	A	17313556	A	A	17313556	3	1	86	1	0	0	0	0	1	0	0	0	1124	1261	44	3	726	3	ATP13A2	1	17313556	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	1325649	17313556	231937065	3	32639										
UBR4	23352	broad.mit.edu	37	chr1	19447774	19447774	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccagaactggcagccacaggGgctgaggaggaagaagcact	15	10	0	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:19447774G>A	uc001bbi.2	-	68	10054	c.10050C>T	c.(10048-10050)GCC>GCT	p.A3350A	UBR4_uc001bbk.1_Silent_p.A997A	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3350	Ser-rich.				interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CAGCCACAGGGGCTGAGGAGG	0.537													13	88	---	---	---	---	PASS	A	19447774	A	A	19447774	2	1	86	1	0	0	0	0	0	0	0	1	16901	1219	43	3		3	UBR4	1	19447774	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	2134218	19447774	229802847	4	32640										
ECE1	1889	broad.mit.edu	37	chr1	21564678	21564678	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ttgacaaacatggggcccaaCgcaaagcccaggttgttttc	10	11	0	1	rs141888962	by1000genomes	TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:21564678C>A	uc001bek.2	-	11	1413	c.1338G>T	c.(1336-1338)GCG>GCT	p.A446A	ECE1_uc001bem.2_Silent_p.A430A|ECE1_uc001bej.2_Silent_p.A434A|ECE1_uc001bei.2_Silent_p.A443A|ECE1_uc010odl.1_Silent_p.A446A|ECE1_uc009vqa.1_Silent_p.A446A	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	446	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		Lung NSC(340;1.14e-05)|all_lung(284;1.23e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00147)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0183)|OV - Ovarian serous cystadenocarcinoma(117;4.83e-27)|COAD - Colon adenocarcinoma(152;1.36e-06)|GBM - Glioblastoma multiforme(114;1.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000162)|STAD - Stomach adenocarcinoma(196;0.00326)|KIRC - Kidney renal clear cell carcinoma(1967;0.00755)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.206)		TGGGGCCCAACGCAAAGCCCA	0.562													9	59	---	---	---	---	PASS	A	21564678	A	A	21564678	2	1	86	1	0	0	0	0	0	0	0	1	4889	523	19	1		1	ECE1	1	21564678	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	2116904	21564678	227685943	5	32641										
ZNF436	80818	broad.mit.edu	37	chr1	23689283	23689283	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tccaaaacttttcccacactCgttacagtcataaggcctct	4	14	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:23689283C>T	uc001bgt.2	-	3	973	c.592G>A	c.(592-594)GAG>AAG	p.E198K	ZNF436_uc001bgu.2_Missense_Mutation_p.E198K	NM_030634	NP_085137	Q9C0F3	ZN436_HUMAN	zinc finger protein 436	198	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;5.97e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000977)|KIRC - Kidney renal clear cell carcinoma(1967;0.00336)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		TTCCCACACTCGTTACAGTCA	0.423													31	182	---	---	---	---	PASS	T	23689283	T	T	23689283	3	4	86	1	0	0	0	0	1	0	0	0	17906	893	31	2	824	2	ZNF436	1	23689283	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	2124605	23689283	225561338	6	32642										
DLGAP3	58512	broad.mit.edu	37	chr1	35332772	35332772	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gccaggtcctggaaggtgggCacagggaacgcagtgggatc	18	9	0	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:35332772C>T	uc001byc.2	-	9	2598	c.2598G>A	c.(2596-2598)GTG>GTA	p.V866V		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	866					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				GGAAGGTGGGCACAGGGAACG	0.562													9	84	---	---	---	---	PASS	T	35332772	T	T	35332772	2	4	86	1	0	0	0	0	0	0	0	1	4561	697	25	3		3	DLGAP3	1	35332772	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	11643489	35332772	213917849	7	32643										
MACF1	23499	broad.mit.edu	37	chr1	39801303	39801303	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agcatgactcccatataaagAgccaacctagggaaatgacc	8	11	0	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:39801303A>G	uc010oiu.1	+	1	4494	c.4363A>G	c.(4363-4365)AGC>GGC	p.S1455G	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3020					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)			CCATATAAAGAGCCAACCTAG	0.373													11	62	---	---	---	---	PASS	G	39801303	G	G	39801303	3	3	86	1	0	0	0	0	1	0	0	0	9144	304	11	5	9134	5	MACF1	1	39801303	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	4468531	39801303	209449318	8	32644										
MACF1	23499	broad.mit.edu	37	chr1	39824465	39824465	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aggcctggatgcaggcttgtGaggccaacgtggagaagctc	16	9	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:39824465G>A	uc010oiu.1	+	10	7491	c.7360G>A	c.(7360-7362)GAG>AAG	p.E2454K	MACF1_uc010ois.1_Missense_Mutation_p.E1952K|MACF1_uc001cda.1_Missense_Mutation_p.E1860K|MACF1_uc001cdc.1_Missense_Mutation_p.E1039K|MACF1_uc001cdb.1_Missense_Mutation_p.E1039K	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	4019	Spectrin 2.				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)			GCAGGCTTGTGAGGCCAACGT	0.512													21	73	---	---	---	---	PASS	A	39824465	A	A	39824465	3	1	86	1	0	0	0	0	1	0	0	0	9144	1291	45	2	12167	2	MACF1	1	39824465	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	23162	39824465	209426156	9	32645										
INADL	10207	broad.mit.edu	37	chr1	62293228	62293228	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tctgtagatgaaccaaggcgCactgaaacctctcttcctga	8	12	2	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:62293228C>A	uc001dab.2	+	16	2067	c.1953C>A	c.(1951-1953)CGC>CGA	p.R651R	INADL_uc009waf.1_Silent_p.R651R|INADL_uc001daa.2_Silent_p.R651R|INADL_uc001dad.3_Silent_p.R348R|INADL_uc001dac.2_RNA	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	651					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						AACCAAGGCGCACTGAAACCT	0.458													19	155	---	---	---	---	PASS	A	62293228	A	A	62293228	2	1	86	1	0	0	0	0	0	0	0	1	7731	697	25	3		3	INADL	1	62293228	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	22468763	62293228	186957393	10	32646										
SNX7	51375	broad.mit.edu	37	chr1	99157223	99157223	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	caactttaacatttaatgaaGacttcaaaatttttctcact	2	8	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:99157223G>T	uc010ouc.1	+	4	659	c.607G>T	c.(607-609)GAC>TAC	p.D203Y	SNX7_uc001dsa.2_Missense_Mutation_p.D139Y|SNX7_uc010oud.1_Intron	NM_015976	NP_057060	Q9UNH6	SNX7_HUMAN	sorting nexin 7 isoform a	139	PX.				cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		all_epithelial(167;7.64e-07)|all_lung(203;0.0006)|Lung NSC(277;0.00137)		Epithelial(280;0.0521)|all cancers(265;0.0687)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.207)|Colorectal(170;0.234)		ATTTAATGAAGACTTCAAAAT	0.338													5	47	---	---	---	---	PASS	T	99157223	T	T	99157223	3	4	86	1	0	0	0	0	1	0	0	0	14907	942	33	2	621	2	SNX7	1	99157223	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	36863995	99157223	150093398	11	32647										
LPPR5	163404	broad.mit.edu	37	chr1	99380394	99380394	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctactcgaggaatgctgatcAttggcatctgtgccagatta	10	9	2	2	rs143279943		TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:99380394A>G	uc001dsb.2	-	5	1103	c.881T>C	c.(880-882)ATG>ACG	p.M294T	LPPR5_uc001dsc.2_Missense_Mutation_p.M294T	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	294						integral to membrane	hydrolase activity				0						AATGCTGATCATTGGCATCTG	0.358													20	106	---	---	---	---	PASS	G	99380394	G	G	99380394	3	3	86	1	0	0	0	0	1	0	0	0	8928	217	8	5	92	5	LPPR5	1	99380394	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	223171	99380394	149870227	12	32648										
CELSR2	1952	broad.mit.edu	37	chr1	109806324	109806324	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	caaccctggtacctcagcctCatgttccgcacgcgccaggc	9	18	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:109806324C>G	uc001dxa.3	+	9	4987	c.4926C>G	c.(4924-4926)CTC>CTG	p.L1642L		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	1642	Extracellular (Potential).|Laminin G-like 2.				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		ACCTCAGCCTCATGTTCCGCA	0.662											OREG0013632	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	113	---	---	---	---	PASS	G	109806324	G	G	109806324	2	3	86	1	0	0	0	0	0	0	0	1	3222	813	29	2		2	CELSR2	1	109806324	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	10425930	109806324	139444297	13	32649										
AMPD2	271	broad.mit.edu	37	chr1	110170496	110170496	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tggccgcccagaagaaagtgCcacaccgagatttctacaac	9	13	1	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:110170496C>T	uc009wfh.1	+	10	1755	c.1213C>T	c.(1213-1215)CCA>TCA	p.P405S	AMPD2_uc009wfg.1_RNA|AMPD2_uc001dyb.1_Missense_Mutation_p.P324S|AMPD2_uc001dyc.1_Missense_Mutation_p.P405S|AMPD2_uc010ovr.1_Missense_Mutation_p.P330S|AMPD2_uc010ovs.1_Missense_Mutation_p.P287S|AMPD2_uc001dyd.1_Missense_Mutation_p.P286S|AMPD2_uc001dye.1_5'Flank	NM_004037	NP_004028	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2 (isoform L)	405					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|breast(1)	3		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		GAAGAAAGTGCCACACCGAGA	0.582													4	92	---	---	---	---	PASS	T	110170496	T	T	110170496	3	4	86	1	0	0	0	0	1	0	0	0	586	739	26	3	1288	3	AMPD2	1	110170496	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	364172	110170496	139080125	14	32650										
TMOD4	29765	broad.mit.edu	37	chr1	151146054	151146054	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tccagggtgatctgctcctcTgctgggatttccctcttggg	12	12	3	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:151146054T>C	uc001exc.3	-	4	508	c.318A>G	c.(316-318)GCA>GCG	p.A106A	TMOD4_uc001exb.2_5'Flank|TMOD4_uc001exd.2_RNA|TMOD4_uc010pct.1_Intron	NM_013353	NP_037485	Q9NZQ9	TMOD4_HUMAN	tropomodulin 4 (muscle)	106					muscle contraction	cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(1)	1	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			TCTGCTCCTCTGCTGGGATTT	0.547													20	150	---	---	---	---	PASS	C	151146054	C	C	151146054	2	2	86	1	0	0	0	0	0	0	0	1	16233	1567	55	5		5	TMOD4	1	151146054	Silent	SNP	T	TCGA-39-5024-01A-21D-1817-08	40975558	151146054	98104567	15	32651										
CD244	51744	broad.mit.edu	37	chr1	160811111	160811111	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gccattaatgtcaacctcctCgtccaggtaggtgaggttcc	10	12	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:160811111C>G	uc009wtq.2	-	3	737	c.559G>C	c.(559-561)GAG>CAG	p.E187Q	CD244_uc001fxa.2_Missense_Mutation_p.E182Q|CD244_uc009wtp.2_RNA|CD244_uc009wtr.2_Intron|CD244_uc010pjt.1_RNA	NM_016382	NP_057466	Q9BZW8	CD244_HUMAN	CD244 natural killer cell receptor 2B4	187	Extracellular (Potential).|Ig-like 2.				blood coagulation|leukocyte migration	integral to membrane|plasma membrane	protein binding|receptor activity			ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			TCAACCTCCTCGTCCAGGTAG	0.517													10	187	---	---	---	---	PASS	G	160811111	G	G	160811111	3	3	86	1	0	0	0	0	1	0	0	0	2987	893	31	2	581	2	CD244	1	160811111	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	9665057	160811111	88439510	16	32652										
PBX1	5087	broad.mit.edu	37	chr1	164789349	164789349	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atgtcaaactctggagatttGttcatgagcgtgcagtcact	10	8	4	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:164789349G>T	uc001gct.2	+	7	1296	c.1038G>T	c.(1036-1038)TTG>TTT	p.L346F	PBX1_uc010pku.1_Missense_Mutation_p.L346F|PBX1_uc010pkv.1_Missense_Mutation_p.L263F|PBX1_uc001gcs.2_Intron|PBX1_uc010pkw.1_Missense_Mutation_p.L236F	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	346					negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						CTGGAGATTTGTTCATGAGCG	0.498			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								7	86	---	---	---	---	PASS	T	164789349	T	T	164789349	3	4	86	1	0	0	0	0	1	0	0	0	11492	1368	48	3	1064	3	PBX1	1	164789349	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	3978238	164789349	84461272	17	32653										
ASTN1	460	broad.mit.edu	37	chr1	176915252	176915252	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	accaagcttgtagtcctcgaTgcacctagcacagaggagag	11	11	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:176915252T>G	uc001glc.2	-	13	2271	c.2059A>C	c.(2059-2061)ATC>CTC	p.I687L	ASTN1_uc001glb.1_Missense_Mutation_p.I687L|ASTN1_uc001gld.1_Missense_Mutation_p.I687L|ASTN1_uc009wwx.1_Missense_Mutation_p.I687L	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	695	EGF-like 3.				cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						TAGTCCTCGATGCACCTAGCA	0.512													7	98	---	---	---	---	PASS	G	176915252	G	G	176915252	3	3	86	1	0	0	0	0	1	0	0	0	1064	1464	51	5	1873	5	ASTN1	1	176915252	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	12125903	176915252	72335369	18	32654										
RASAL2	9462	broad.mit.edu	37	chr1	178433416	178433416	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aactgtttctgatgcaggttCagtcacctgtggactctgcc	10	11	4	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:178433416C>G	uc001glr.2	+	13	2958	c.2833C>G	c.(2833-2835)CAG>GAG	p.Q945E	RASAL2_uc001glq.2_Missense_Mutation_p.Q1086E|RASAL2_uc009wxc.2_Missense_Mutation_p.Q459E	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	945					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						GATGCAGGTTCAGTCACCTGT	0.468													11	60	---	---	---	---	PASS	G	178433416	G	G	178433416	3	3	86	1	0	0	0	0	1	0	0	0	13064	827	29	2	3352	2	RASAL2	1	178433416	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	1518164	178433416	70817205	19	32655										
TOR1AIP2	163590	broad.mit.edu	37	chr1	179815858	179815858	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ggctaaactgggccaaaaagGcctccaaagctggatttttg	11	9	0	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:179815858G>A	uc001gnk.2	-	6	1149	c.761C>T	c.(760-762)GCC>GTC	p.A254V	TOR1AIP2_uc001gnl.2_Missense_Mutation_p.A254V	NM_145034	NP_659471	Q8NFQ8	TOIP2_HUMAN	torsin A interacting protein 2	254						endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1						GGCCAAAAAGGCCTCCAAAGC	0.493													35	101	---	---	---	---	PASS	A	179815858	A	A	179815858	3	1	86	1	0	0	0	0	1	0	0	0	16370	1203	42	3	655	3	TOR1AIP2	1	179815858	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	1382442	179815858	69434763	20	32656										
SMG7	9887	broad.mit.edu	37	chr1	183507541	183507541	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cacttccagaggagtttgaaTtacaaggatttttggcattg	10	6	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:183507541T>A	uc001gqg.2	+	12	1383	c.1261T>A	c.(1261-1263)TTA>ATA	p.L421I	SMG7_uc010pob.1_Missense_Mutation_p.L450I|SMG7_uc001gqf.2_Missense_Mutation_p.L421I|SMG7_uc001gqh.2_Missense_Mutation_p.L421I|SMG7_uc001gqi.2_Missense_Mutation_p.L379I|SMG7_uc010poc.1_Missense_Mutation_p.L379I	NM_173156	NP_775179	Q92540	SMG7_HUMAN	SMG-7 homolog isoform 1	421					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|intermediate filament cytoskeleton|nucleus	protein phosphatase 2A binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						GGAGTTTGAATTACAAGGATT	0.343													39	164	---	---	---	---	PASS	A	183507541	A	A	183507541	3	1	86	1	0	0	0	0	1	0	0	0	14798	1490	52	5	1307	5	SMG7	1	183507541	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	3691683	183507541	65743080	21	32657										
PLEKHA6	22874	broad.mit.edu	37	chr1	204237406	204237406	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcatggagtgtgagcgcttgCcaaaggcgacggctttgcgg	16	9	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:204237406C>A	uc001hau.2	-	4	454	c.137G>T	c.(136-138)GGC>GTC	p.G46V		NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	46										ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			TGAGCGCTTGCCAAAGGCGAC	0.607													7	59	---	---	---	---	PASS	A	204237406	A	A	204237406	3	1	86	1	0	0	0	0	1	0	0	0	12060	739	26	3	3085	3	PLEKHA6	1	204237406	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	20729865	204237406	45013215	22	32658										
DTL	51514	broad.mit.edu	37	chr1	212273994	212273994	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agaaatagagtaaagaggagGctagactcaagctgtctgga	13	5	2	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:212273994G>C	uc009xdc.2	+	14	1976	c.1662G>C	c.(1660-1662)AGG>AGC	p.R554S	DTL_uc010ptb.1_Missense_Mutation_p.R512S|DTL_uc001hiz.3_Missense_Mutation_p.R283S	NM_016448	NP_057532	Q9NZJ0	DTL_HUMAN	denticleless homolog	554					DNA replication|G2/M transition DNA damage checkpoint|protein monoubiquitination|protein polyubiquitination|response to UV|translesion synthesis|ubiquitin-dependent protein catabolic process	centrosome|Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|nuclear membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00796)|all cancers(67;0.0385)|Epithelial(68;0.102)		TAAAGAGGAGGCTAGACTCAA	0.448													12	111	---	---	---	---	PASS	C	212273994	C	C	212273994	3	2	86	1	0	0	0	0	1	0	0	0	4787	1194	42	4	1716	4	DTL	1	212273994	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	8036588	212273994	36976627	23	32659										
RAB4A	5867	broad.mit.edu	37	chr1	229424565	229424565	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atgtaaagttacaaatatggGatacagcaggacaagaacga	10	5	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:229424565G>T	uc001hth.2	+	3	410	c.202G>T	c.(202-204)GAT>TAT	p.D68Y	RAB4A_uc001hti.2_RNA|RAB4A_uc001htj.2_Intron	NM_004578	NP_004569	P20338	RAB4A_HUMAN	RAB4A, member RAS oncogene family	63	GTP.						GDP binding|GTP binding|GTPase activity			ovary(1)	1	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.178)				ACAAATATGGGATACAGCAGG	0.254													13	119	---	---	---	---	PASS	T	229424565	T	T	229424565	3	4	86	1	0	0	0	0	1	0	0	0	12946	1174	41	2	212	2	RAB4A	1	229424565	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	17150571	229424565	19826056	24	32660										
EXO1	9156	broad.mit.edu	37	chr1	242042620	242042620	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgcatcaaagctttctcagtGctctagtaaggactctgatt	8	9	4	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:242042620G>A	uc001hzh.2	+	13	2624	c.2084G>A	c.(2083-2085)TGC>TAC	p.C695Y	EXO1_uc001hzi.2_Missense_Mutation_p.C695Y|EXO1_uc001hzj.2_Missense_Mutation_p.C695Y|EXO1_uc009xgq.2_Missense_Mutation_p.C694Y	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	695	Interaction with MSH2.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			CTTTCTCAGTGCTCTAGTAAG	0.393								Direct_reversal_of_damage|Editing_and_processing_nucleases					9	80	---	---	---	---	PASS	A	242042620	A	A	242042620	3	1	86	1	0	0	0	0	1	0	0	0	5300	1319	46	3	2122	3	EXO1	1	242042620	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	12618055	242042620	7208001	25	32661										
OR2M3	127062	broad.mit.edu	37	chr1	248366988	248366988	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcatctgctgtatagtaatgAttgttttccctgttgcaatc	7	8	2	1	rs142664129		TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:248366988A>C	uc010pzg.1	+	1	619	c.619A>C	c.(619-621)ATT>CTT	p.I207L		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	207	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TATAGTAATGATTGTTTTCCC	0.423													89	254	---	---	---	---	PASS	C	248366988	C	C	248366988	3	2	86	1	0	0	0	0	1	0	0	0	11011	333	12	5	621	5	OR2M3	1	248366988	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	6324368	248366988	883633	26	32662										
OR2M7	391196	broad.mit.edu	37	chr1	248487074	248487074	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcttgtcctgcataggagaaTgatgagatgtgggctgaatg	14	5	1	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr1:248487074T>G	uc010pzk.1	-	1	797	c.797A>C	c.(796-798)CAT>CCT	p.H266P		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	266	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CATAGGAGAATGATGAGATGT	0.473													18	150	---	---	---	---	PASS	G	248487074	G	G	248487074	3	3	86	1	0	0	0	0	1	0	0	0	11014	1464	51	5	144	5	OR2M7	1	248487074	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	120086	248487074	763547	27	32663										
APOB	338	broad.mit.edu	37	chr2	21230157	21230157	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gatgctctgactgataaactCacaaagcacagccaaaggat	8	10	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:21230157C>G	uc002red.2	-	26	9711	c.9583G>C	c.(9583-9585)GAG>CAG	p.E3195Q		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3195	Heparin-binding.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CTGATAAACTCACAAAGCACA	0.328													17	54	---	---	---	---	PASS	G	21230157	G	G	21230157	3	3	86	1	0	0	0	0	1	0	0	0	785	835	29	2	4124	2	APOB	2	21230157	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08		21230157	221969216	28	32664										
CAPN13	92291	broad.mit.edu	37	chr2	31010096	31010096	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gtctcatccttaaacgtccgGcccatgctcaggcagtgatc	9	14	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:31010096G>T	uc002rnn.2	-	2	272	c.96C>A	c.(94-96)GGC>GGA	p.G32G	CAPN13_uc002rnp.1_Silent_p.G32G	NM_144575	NP_653176	Q6MZZ7	CAN13_HUMAN	calpain 13	32					proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			large_intestine(1)|ovary(1)	2	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					TAAACGTCCGGCCCATGCTCA	0.527													5	33	---	---	---	---	PASS	T	31010096	T	T	31010096	2	4	86	1	0	0	0	0	0	0	0	1	2626	1190	42	3		3	CAPN13	2	31010096	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	9779939	31010096	212189277	29	32665										
THUMPD2	80745	broad.mit.edu	37	chr2	39971520	39971520	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aacaacttacctttccatttCttgtagaatgcttttgatgt	5	8	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:39971520C>A	uc002rru.2	-	9	1214	c.1177G>T	c.(1177-1179)GAA>TAA	p.E393*	THUMPD2_uc002rrv.2_RNA|THUMPD2_uc010ynt.1_Nonsense_Mutation_p.E284*	NM_025264	NP_079540	Q9BTF0	THUM2_HUMAN	THUMP domain containing 2	393							methyltransferase activity			skin(1)	1		all_hematologic(82;0.248)				CTTTCCATTTCTTGTAGAATG	0.313													4	40	---	---	---	---	PASS	A	39971520	A	A	39971520	4	1	86	1	0	0	0	0	0	1	0	0	15880	922	32	2	342	2	THUMPD2	2	39971520	Nonsense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	8961424	39971520	203227853	30	32666										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48808750	48808750	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aaagagatacagcttgatccAtattgtaggctttctgaacc	8	8	1	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:48808750A>T	uc010yol.1	+	1	1025	c.978A>T	c.(976-978)CCA>CCT	p.P326P	STON1_uc002rwo.3_Silent_p.P326P|STON1_uc010fbm.2_Silent_p.P326P|STON1-GTF2A1L_uc002rwp.1_Silent_p.P326P|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Silent_p.P326P	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	326					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AGCTTGATCCATATTGTAGGC	0.368													16	144	---	---	---	---	PASS	T	48808750	T	T	48808750	2	4	86	1	0	0	0	0	0	0	0	1	15316	204	8	5		5	STON1-GTF2A1L	2	48808750	Silent	SNP	A	TCGA-39-5024-01A-21D-1817-08	8837230	48808750	194390623	31	32667										
XPO1	7514	broad.mit.edu	37	chr2	61706014	61706014	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gatgccagggacagacatttGacgtttatgtttctcttcat	9	8	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:61706014G>C	uc002sbj.2	-	25	3885	c.3157C>G	c.(3157-3159)CAA>GAA	p.Q1053E	XPO1_uc010fcl.2_Missense_Mutation_p.Q1049E|XPO1_uc010ypn.1_Missense_Mutation_p.Q1049E|XPO1_uc002sbk.2_Missense_Mutation_p.Q614E|XPO1_uc002sbg.2_Missense_Mutation_p.Q250E|XPO1_uc002sbh.2_Missense_Mutation_p.Q700E	NM_003400	NP_003391	O14980	XPO1_HUMAN	exportin 1	1053					intracellular protein transport|mitotic prometaphase|mRNA metabolic process|mRNA transport|viral genome transport in host cell|viral infectious cycle	annulate lamellae|Cajal body|cytosol|kinetochore|nuclear envelope|nucleolus|ribonucleoprotein complex	protein binding|protein transporter activity|RNA binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(7;5.71e-05)|Epithelial(17;0.0662)|all cancers(80;0.226)			ACAGACATTTGACGTTTATGT	0.388													11	89	---	---	---	---	PASS	C	61706014	C	C	61706014	3	2	86	1	0	0	0	0	1	0	0	0	17442	1299	45	2	62	2	XPO1	2	61706014	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	12897264	61706014	181493359	32	32668										
EGR4	1961	broad.mit.edu	37	chr2	73519557	73519557	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgcgagggggcacccgcgcaAggcgaggcctcccagaacgc	16	15	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:73519557A>G	uc010yrj.1	-	2	873	c.798T>C	c.(796-798)CCT>CCC	p.P266P	EGR4_uc010yrk.1_Silent_p.P265P	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	162						intracellular	nucleic acid binding|zinc ion binding				0						CACCCGCGCAAGGCGAGGCCT	0.726													8	16	---	---	---	---	PASS	G	73519557	G	G	73519557	2	3	86	1	0	0	0	0	0	0	0	1	4974	59	3	5		5	EGR4	2	73519557	Silent	SNP	A	TCGA-39-5024-01A-21D-1817-08	11813543	73519557	169679816	33	32669										
VWA3B	200403	broad.mit.edu	37	chr2	98804508	98804508	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgctccctggaaggatgggaGcttggtccacgtcaacatta	12	10	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:98804508G>A	uc002syo.2	+	10	1646	c.1382G>A	c.(1381-1383)AGC>AAC	p.S461N	VWA3B_uc010yvh.1_Missense_Mutation_p.S311N|VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_Intron|VWA3B_uc002syl.1_Intron|VWA3B_uc002sym.2_Missense_Mutation_p.S461N|VWA3B_uc002syn.1_Intron|VWA3B_uc010yvi.1_Missense_Mutation_p.S118N	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	461										ovary(3)|large_intestine(2)|skin(1)	6						AAGGATGGGAGCTTGGTCCAC	0.498													9	91	---	---	---	---	PASS	A	98804508	A	A	98804508	3	1	86	1	0	0	0	0	1	0	0	0	17238	971	34	3	1416	3	VWA3B	2	98804508	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	25284951	98804508	144394865	34	32670										
CNTNAP5	129684	broad.mit.edu	37	chr2	125627272	125627272	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atggaccagcaacttcgactCagttataacttctctccgga	7	12	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:125627272C>T	uc002tno.2	+	21	3730	c.3366C>T	c.(3364-3366)CTC>CTT	p.L1122L	CNTNAP5_uc010flu.2_Silent_p.L1123L	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	1122	Extracellular (Potential).|Laminin G-like 4.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		AACTTCGACTCAGTTATAACT	0.423													6	41	---	---	---	---	PASS	T	125627272	T	T	125627272	2	4	86	1	0	0	0	0	0	0	0	1	3650	813	29	2		2	CNTNAP5	2	125627272	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	26822764	125627272	117572101	35	32671										
COBLL1	22837	broad.mit.edu	37	chr2	165542495	165542495	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcaggggacatggaatggctGagtcttgaccttccattcac	11	10	3	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:165542495G>C	uc010zcw.1	-	17	3787	c.3663C>G	c.(3661-3663)CTC>CTG	p.L1221L	COBLL1_uc002ucp.2_Silent_p.L1154L|COBLL1_uc002ucq.2_Silent_p.L1116L|COBLL1_uc010zcx.1_Silent_p.L1162L|COBLL1_uc002ucn.2_Silent_p.L582L|COBLL1_uc002uco.2_Silent_p.L885L	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	1192										ovary(2)|pancreas(1)	3						TGGAATGGCTGAGTCTTGACC	0.438													8	82	---	---	---	---	PASS	C	165542495	C	C	165542495	2	2	86	1	0	0	0	0	0	0	0	1	3654	1277	45	2		2	COBLL1	2	165542495	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	39915223	165542495	77656878	36	32672										
PPIG	9360	broad.mit.edu	37	chr2	170493071	170493071	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	accataaatctaacagcaaaGagagagacatcagaagaaat	7	7	2	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:170493071G>A	uc002uez.2	+	14	1523	c.1303G>A	c.(1303-1305)GAG>AAG	p.E435K	PPIG_uc010fpx.2_Missense_Mutation_p.E420K|PPIG_uc010fpy.2_Missense_Mutation_p.E428K|PPIG_uc002ufb.2_Missense_Mutation_p.E435K|PPIG_uc002ufd.2_Missense_Mutation_p.E432K	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G	435					protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	TAACAGCAAAGAGAGAGACAT	0.323													5	45	---	---	---	---	PASS	A	170493071	A	A	170493071	3	1	86	1	0	0	0	0	1	0	0	0	12324	943	33	2	1349	2	PPIG	2	170493071	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	4950576	170493071	72706302	37	32673										
TTN	7273	broad.mit.edu	37	chr2	179494076	179494076	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ttgagataccattccactggGatatcttcgtaggagagctc	10	9	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:179494076G>C	uc010zfg.1	-	189	36896	c.36672C>G	c.(36670-36672)ATC>ATG	p.I12224M	TTN_uc010zfh.1_Missense_Mutation_p.I5919M|TTN_uc010zfi.1_Missense_Mutation_p.I5852M|TTN_uc010zfj.1_Missense_Mutation_p.I5727M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13151							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)			ATTCCACTGGGATATCTTCGT	0.483													6	67	---	---	---	---	PASS	C	179494076	C	C	179494076	3	2	86	1	0	0	0	0	1	0	0	0	16732	1164	41	2	63809	2	TTN	2	179494076	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	9001005	179494076	63705297	38	32674										
TTN	7273	broad.mit.edu	37	chr2	179593630	179593630	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ttacaaaccttgtactaaaaGgaaagcataacacctctcaa	4	10	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:179593630G>T	uc010zfg.1	-	62	15627	c.15403C>A	c.(15403-15405)CTT>ATT	p.L5135I	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.L1796I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6062							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)			TGTACTAAAAGGAAAGCATAA	0.393													9	47	---	---	---	---	PASS	T	179593630	T	T	179593630	3	4	86	1	0	0	0	0	1	0	0	0	16732	1000	35	3	85586	3	TTN	2	179593630	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	99554	179593630	63605743	39	32675										
TTN	7273	broad.mit.edu	37	chr2	179597601	179597601	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctgctgtctttgcttcccacGgaatttgtggctcgacaagt	10	11	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:179597601G>T	uc010zfg.1	-	52	12794	c.12570C>A	c.(12568-12570)TCC>TCA	p.S4190S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.S851S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5117							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)			TGCTTCCCACGGAATTTGTGG	0.423													10	55	---	---	---	---	PASS	T	179597601	T	T	179597601	2	4	86	1	0	0	0	0	0	0	0	1	16732	1103	39	1		1	TTN	2	179597601	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	3971	179597601	63601772	40	32676										
FZD7	8324	broad.mit.edu	37	chr2	202900382	202900382	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccaagaaggagggctgcaccAtcctcttcatggtgctctac	10	13	3	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:202900382A>G	uc002uyw.1	+	1	1073	c.1012A>G	c.(1012-1014)ATC>GTC	p.I338V		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	338	Helical; Name=3; (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(2)|ovary(1)|breast(1)	4						GGGCTGCACCATCCTCTTCAT	0.632											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	61	---	---	---	---	PASS	G	202900382	G	G	202900382	3	3	86	1	0	0	0	0	1	0	0	0	6135	217	8	5	1014	5	FZD7	2	202900382	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	23302781	202900382	40298991	41	32677										
VIL1	7429	broad.mit.edu	37	chr2	219295494	219295494	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	accaagcacacaggtggaggTgcagaatgatggggctgagt	16	7	0	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:219295494T>G	uc002via.2	+	10	1060	c.995T>G	c.(994-996)GTG>GGG	p.V332G	VIL1_uc010zke.1_Missense_Mutation_p.V21G|VIL1_uc002vib.2_Missense_Mutation_p.V332G|VIL1_uc002vic.1_Missense_Mutation_p.V332G	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1	332	Core.				actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAGGTGGAGGTGCAGAATGAT	0.582													4	66	---	---	---	---	PASS	G	219295494	G	G	219295494	3	3	86	1	0	0	0	0	1	0	0	0	17161	1696	59	5	1029	5	VIL1	2	219295494	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	16395112	219295494	23903879	42	32678										
PSMD1	5707	broad.mit.edu	37	chr2	231927224	231927224	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcctaatttctttcagagagGttttatacgaagatgaaggt	9	5	2	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:231927224G>A	uc002vrn.1	+	4	270	c.139G>A	c.(139-141)GTT>ATT	p.V47I	PSMD1_uc002vrm.1_Missense_Mutation_p.V47I|PSMD1_uc010fxu.1_Intron	NM_002807	NP_002798	Q99460	PSMD1_HUMAN	proteasome 26S non-ATPase subunit 1	47					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding			ovary(1)|skin(1)	2		Ovarian(221;0.000626)|Medulloblastoma(418;0.0109)|Renal(207;0.0112)|Lung NSC(271;0.0538)|all_lung(227;0.0713)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;4e-26)|LUSC - Lung squamous cell carcinoma(224;0.0138)|Lung(119;0.0168)	Bortezomib(DB00188)	TTTCAGAGAGGTTTTATACGA	0.393													13	84	---	---	---	---	PASS	A	231927224	A	A	231927224	3	1	86	1	0	0	0	0	1	0	0	0	12692	1261	44	3	153	3	PSMD1	2	231927224	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	12631730	231927224	11272149	43	32679										
C2orf57	165100	broad.mit.edu	37	chr2	232458735	232458735	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctcagccctgcgcaccatcaCccgtgtgctggagacagtgg	12	15	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:232458735C>G	uc002vrz.2	+	1	1124	c.1073C>G	c.(1072-1074)ACC>AGC	p.T358S		NM_152614	NP_689827	Q53QW1	CB057_HUMAN	hypothetical protein LOC165100	358										ovary(1)	1		Renal(207;0.025)|all_hematologic(139;0.0735)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;1.33e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)		CGCACCATCACCCGTGTGCTG	0.687													9	70	---	---	---	---	PASS	G	232458735	G	G	232458735	3	3	86	1	0	0	0	0	1	0	0	0	2178	507	18	4	1075	4	C2orf57	2	232458735	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	531511	232458735	10740638	44	32680										
DGKD	8527	broad.mit.edu	37	chr2	234366959	234366959	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gctccatcattcgatgacaaGattctggaggtggtcgccgt	12	10	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr2:234366959G>T	uc002vui.1	+	22	2622	c.2610G>T	c.(2608-2610)AAG>AAT	p.K870N	DGKD_uc002vuj.1_Missense_Mutation_p.K826N|DGKD_uc010fyi.1_RNA	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	870					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	TCGATGACAAGATTCTGGAGG	0.592													8	40	---	---	---	---	PASS	T	234366959	T	T	234366959	3	4	86	1	0	0	0	0	1	0	0	0	4467	933	33	2	2720	2	DGKD	2	234366959	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	1908224	234366959	8832414	45	32681										
CNTN6	27255	broad.mit.edu	37	chr3	1427380	1427380	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cacaaccaaaaacatcacggGgctgaaagctaataccatct	6	12	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:1427380G>A	uc003boz.2	+	20	2870	c.2603G>A	c.(2602-2604)GGG>GAG	p.G868E	CNTN6_uc011asj.1_Missense_Mutation_p.G796E|CNTN6_uc003bpa.2_Missense_Mutation_p.G868E	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	868	Fibronectin type-III 3.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		AACATCACGGGGCTGAAAGCT	0.428													28	124	---	---	---	---	PASS	A	1427380	A	A	1427380	3	1	86	1	0	0	0	0	1	0	0	0	3645	1232	43	3	2677	3	CNTN6	3	1427380	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08		1427380	196595050	46	32682										
KCNH8	131096	broad.mit.edu	37	chr3	19491639	19491639	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ttggaaacgtgacagcaatcAtacagaggatgtactccaga	10	8	1	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:19491639A>T	uc003cbk.1	+	9	1612	c.1417A>T	c.(1417-1419)ATA>TTA	p.I473L	KCNH8_uc011awe.1_Missense_Mutation_p.I473L|KCNH8_uc010hex.1_5'UTR|KCNH8_uc011awf.1_Missense_Mutation_p.I132L	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	473	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						GACAGCAATCATACAGAGGAT	0.453													17	66	---	---	---	---	PASS	T	19491639	T	T	19491639	3	4	86	1	0	0	0	0	1	0	0	0	8038	217	8	5	1451	5	KCNH8	3	19491639	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	18064259	19491639	178530791	47	32683										
PBRM1	55193	broad.mit.edu	37	chr3	52682440	52682440	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atctttggccattgcatgaaTacttttgtagcttccattct	6	9	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:52682440T>A	uc003des.2	-	7	745	c.733A>T	c.(733-735)ATT>TTT	p.I245F	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.I245F|PBRM1_uc003der.2_Missense_Mutation_p.I245F|PBRM1_uc003det.2_Missense_Mutation_p.I245F|PBRM1_uc003deu.2_Missense_Mutation_p.I245F|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.I245F|PBRM1_uc010hmk.1_Missense_Mutation_p.I245F|PBRM1_uc003dey.2_Missense_Mutation_p.I245F|PBRM1_uc003dez.1_Missense_Mutation_p.I245F|PBRM1_uc003dfb.1_Missense_Mutation_p.I143F	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	245	Bromo 2.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		ATTGCATGAATACTTTTGTAG	0.313			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								19	79	---	---	---	---	PASS	A	52682440	A	A	52682440	3	1	86	1	0	0	0	0	1	0	0	0	11491	1406	49	5	4263	5	PBRM1	3	52682440	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	33190801	52682440	145339990	48	32684										
CBLB	868	broad.mit.edu	37	chr3	105421219	105421219	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgggattggtggaggtctttCaggtggcggtggaggaggat	21	3	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:105421219C>T	uc003dwc.2	-	12	2000	c.1678G>A	c.(1678-1680)GAA>AAA	p.E560K	CBLB_uc011bhi.1_Missense_Mutation_p.E582K|CBLB_uc003dwd.1_Missense_Mutation_p.E560K|CBLB_uc003dwe.1_Missense_Mutation_p.E560K	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	560	Interaction with VAV1.|Pro-rich.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						GGAGGTCTTTCAGGTGGCGGT	0.483			Mis S		AML								10	84	---	---	---	---	PASS	T	105421219	T	T	105421219	3	4	86	1	0	0	0	0	1	0	0	0	2701	835	29	2	1302	2	CBLB	3	105421219	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	52738779	105421219	92601211	49	32685										
KIAA1524	57650	broad.mit.edu	37	chr3	108288392	108288392	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ggtggagactgttcaaacatCatctgagtgagcatatggcg	13	7	3	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:108288392C>T	uc003dxb.3	-	9	1226	c.957G>A	c.(955-957)ATG>ATA	p.M319I	KIAA1524_uc010hpv.1_5'Flank|KIAA1524_uc003dxc.1_Missense_Mutation_p.M160I|KIAA1524_uc010hpw.1_Missense_Mutation_p.M160I	NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	319						cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						GTTCAAACATCATCTGAGTGA	0.443													4	53	---	---	---	---	PASS	T	108288392	T	T	108288392	3	4	86	1	0	0	0	0	1	0	0	0	8239	826	29	2	1812	2	KIAA1524	3	108288392	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	2867173	108288392	89734038	50	32686										
KIAA2018	205717	broad.mit.edu	37	chr3	113376876	113376876	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atgcatttgatgttttaattCctagagaacaacttggtttc	7	6	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:113376876C>T	uc003eam.2	-	7	4064	c.3653G>A	c.(3652-3654)GGA>GAA	p.G1218E	KIAA2018_uc003eal.2_Missense_Mutation_p.G1162E	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1218					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						TGTTTTAATTCCTAGAGAACA	0.418													15	96	---	---	---	---	PASS	T	113376876	T	T	113376876	3	4	86	1	0	0	0	0	1	0	0	0	8268	855	30	2	3088	2	KIAA2018	3	113376876	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	5088484	113376876	84645554	51	32687										
GTF2E1	2960	broad.mit.edu	37	chr3	120489615	120489615	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgccatacagaggtagaagaGgatgaatcagcaatgcccaa	11	8	1	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:120489615G>C	uc003edz.3	+	3	603	c.489G>C	c.(487-489)GAG>GAC	p.E163D		NM_005513	NP_005504	P29083	T2EA_HUMAN	general transcription factor IIE, polypeptide 1,	163					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.159)		AGGTAGAAGAGGATGAATCAG	0.418													7	237	---	---	---	---	PASS	C	120489615	C	C	120489615	3	2	86	1	0	0	0	0	1	0	0	0	6856	991	35	4	495	4	GTF2E1	3	120489615	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	7112739	120489615	77532815	52	32688										
POLQ	10721	broad.mit.edu	37	chr3	121200502	121200502	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	actccacagatgctctgtatCgcccagaatgctcactgcca	7	15	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:121200502C>A	uc003eee.3	-	19	6257	c.6128G>T	c.(6127-6129)CGA>CTA	p.R2043L	POLQ_uc003eed.2_Missense_Mutation_p.R1215L	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	2043					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity	p.G2043S(1)		ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TGCTCTGTATCGCCCAGAATG	0.463								DNA_polymerases_(catalytic_subunits)					16	91	---	---	---	---	PASS	A	121200502	A	A	121200502	3	1	86	1	0	0	0	0	1	0	0	0	12208	884	31	2	1692	2	POLQ	3	121200502	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	710887	121200502	76821928	53	32689										
KALRN	8997	broad.mit.edu	37	chr3	124132412	124132412	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctggcagaacagcggctgcaGcgccacacagaacggaagct	13	13	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:124132412G>A	uc003ehg.2	+	14	2563	c.2436G>A	c.(2434-2436)CAG>CAA	p.Q812Q	KALRN_uc010hrv.1_Silent_p.Q812Q|KALRN_uc003ehf.1_Silent_p.Q812Q|KALRN_uc011bjy.1_Silent_p.Q812Q|KALRN_uc003ehh.1_Silent_p.Q158Q	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	812					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						AGCGGCTGCAGCGCCACACAG	0.542													19	54	---	---	---	---	PASS	A	124132412	A	A	124132412	2	1	86	1	0	0	0	0	0	0	0	1	7975	962	34	3		3	KALRN	3	124132412	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	2931910	124132412	73890018	54	32690										
RUVBL1	8607	broad.mit.edu	37	chr3	127872540	127872540	+	Translation_Start_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cggtgccgctgcccgcgcgcCtgcggtcgtctttgcccgag	15	17	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:127872540C>A	uc003ekf.2	-	1	218	c.-533G>T	c.(-535--531)CAGGC>CATGC		EEFSEC_uc003eki.2_Missense_Mutation_p.L64M|EEFSEC_uc003ekj.2_Missense_Mutation_p.L64M	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1						cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		GCCCGCGCGCCTGCGGTCGTC	0.721													3	16	---	---	---	---	PASS	A	127872540	A	A	127872540	1	1	86	1	0	0	0	0	0	0	0	0	13752	680	24	3		3	RUVBL1	3	127872540	Translation_Start_Site	SNP	C	TCGA-39-5024-01A-21D-1817-08	3740128	127872540	70149890	55	32691										
DNAJC13	23317	broad.mit.edu	37	chr3	132201158	132201158	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agacaaagaaaggagtggccCgtatggatttcatgaggtat	13	5	1	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:132201158C>G	uc003eor.2	+	27	3028	c.2963C>G	c.(2962-2964)CCG>CGG	p.P988R		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	988							heat shock protein binding			ovary(1)|breast(1)	2						AGGAGTGGCCCGTATGGATTT	0.413													9	40	---	---	---	---	PASS	G	132201158	G	G	132201158	3	3	86	1	0	0	0	0	1	0	0	0	4632	652	23	4	3065	4	DNAJC13	3	132201158	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	4328618	132201158	65821272	56	32692										
STAG1	10274	broad.mit.edu	37	chr3	136068192	136068192	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctgctcggtaaggaatttctCtaggtatgaatgactagaaa	10	6	1	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:136068192C>T	uc003era.1	-	29	3371	c.3079G>A	c.(3079-3081)GAG>AAG	p.E1027K	STAG1_uc003erb.1_Missense_Mutation_p.E1027K	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	1027					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						AGGAATTTCTCTAGGTATGAA	0.403													6	57	---	---	---	---	PASS	T	136068192	T	T	136068192	3	4	86	1	0	0	0	0	1	0	0	0	15241	922	32	2	721	2	STAG1	3	136068192	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	3867034	136068192	61954238	57	32693										
TM4SF4	7104	broad.mit.edu	37	chr3	149216522	149216522	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccaacagggattatctcaatGatgaggccttatggaacaag	10	8	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:149216522G>T	uc003exd.1	+	4	646	c.415G>T	c.(415-417)GAT>TAT	p.D139Y		NM_004617	NP_004608	P48230	T4S4_HUMAN	transmembrane 4 superfamily member 4	139	Extracellular (Potential).					integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			TTATCTCAATGATGAGGCCTT	0.448													13	72	---	---	---	---	PASS	T	149216522	T	T	149216522	3	4	86	1	0	0	0	0	1	0	0	0	15967	1290	45	2	429	2	TM4SF4	3	149216522	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	13148330	149216522	48805908	58	32694										
KCNAB1	7881	broad.mit.edu	37	chr3	156232996	156232996	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gaggtccagctgccagagctCtaccacaaaataggtaatct	9	11	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:156232996C>A	uc003far.2	+	10	916	c.852C>A	c.(850-852)CTC>CTA	p.L284L	KCNAB1_uc011bon.1_Silent_p.L255L|KCNAB1_uc003fas.2_Silent_p.L273L|KCNAB1_uc003fat.2_Silent_p.L266L|KCNAB1_uc010hvt.1_Silent_p.L237L|KCNAB1_uc011boo.1_Silent_p.L160L	NM_172160	NP_751892	Q14722	KCAB1_HUMAN	potassium voltage-gated channel, shaker-related	284						cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			TGCCAGAGCTCTACCACAAAA	0.383													10	84	---	---	---	---	PASS	A	156232996	A	A	156232996	2	1	86	1	0	0	0	0	0	0	0	1	8009	900	32	2		2	KCNAB1	3	156232996	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	7016474	156232996	41789434	59	32695										
CHRD	8646	broad.mit.edu	37	chr3	184104631	184104631	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atgcctctgctcctctctgcAgagacgaacggtgatctgtg	11	12	3	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:184104631A>G	uc003fov.2	+	17	2443	c.2197_splice	c.e17-2	p.R733_splice	CHRD_uc003fow.2_Splice_Site_p.R363_splice|CHRD_uc003fox.2_Splice_Site_p.R733_splice|CHRD_uc003foy.2_Splice_Site_p.R363_splice|CHRD_uc010hyc.2_Splice_Site_p.R323_splice|CHRD_uc011brr.1_Splice_Site_p.R275_splice	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor						BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCCTCTCTGCAGAGACGAACG	0.657													3	67	---	---	---	---	PASS	G	184104631	G	G	184104631	5	3	86	1	0	0	0	0	0	0	1	0	3372	202	7	5	2261	5	CHRD	3	184104631	Splice_Site	SNP	A	TCGA-39-5024-01A-21D-1817-08	27871635	184104631	13917799	60	32696										
LIPH	200879	broad.mit.edu	37	chr3	185236980	185236980	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgccgcagctgacacacttgCcattcctataatcctggtag	8	13	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr3:185236980C>A	uc003fpm.2	-	6	946	c.836G>T	c.(835-837)GGC>GTC	p.G279V	LIPH_uc010hyh.2_Missense_Mutation_p.G245V	NM_139248	NP_640341	Q8WWY8	LIPH_HUMAN	lipase, member H precursor	279					lipid catabolic process	extracellular space|plasma membrane	heparin binding|phospholipase activity			ovary(1)|pancreas(1)	2	all_cancers(143;8.87e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			GACACACTTGCCATTCCTATA	0.488													34	276	---	---	---	---	PASS	A	185236980	A	A	185236980	3	1	86	1	0	0	0	0	1	0	0	0	8824	739	26	3	539	3	LIPH	3	185236980	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	1132349	185236980	12785450	61	32697										
EVC	2121	broad.mit.edu	37	chr4	5743447	5743447	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cctttcttggcaatagatgtTtattcagatttttaaaatgt	6	5	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:5743447T>A	uc003gil.1	+	6	891	c.707T>A	c.(706-708)TTT>TAT	p.F236Y	EVC_uc003gim.1_RNA	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	236					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				CAATAGATGTTTATTCAGATT	0.234													9	64	---	---	---	---	PASS	A	5743447	A	A	5743447	3	1	86	1	0	0	0	0	1	0	0	0	5285	1841	64	5	729	5	EVC	4	5743447	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08		5743447	185410829	62	32698										
PACRGL	133015	broad.mit.edu	37	chr4	20711365	20711365	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atgtcctcctgaaagtctttCatttgatccacttcttatta	4	10	3	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:20711365C>G	uc010iek.2	+	5	726	c.335C>G	c.(334-336)TCA>TGA	p.S112*	PACRGL_uc003gpu.2_RNA|PACRGL_uc010iei.1_Nonsense_Mutation_p.S160*|PACRGL_uc003gpz.2_Nonsense_Mutation_p.S112*|PACRGL_uc011bxm.1_Intron|PACRGL_uc003gqa.2_Intron|PACRGL_uc003gpx.3_RNA|PACRGL_uc003gpv.2_Nonsense_Mutation_p.S112*|PACRGL_uc003gpw.2_RNA|PACRGL_uc010iej.1_RNA|PACRGL_uc011bxn.1_Intron|PACRGL_uc003gpy.2_Intron	NM_145048	NP_659485	Q8N7B6	PACRL_HUMAN	PARK2 co-regulated-like isoform 1	112							binding				0						GAAAGTCTTTCATTTGATCCA	0.289													7	112	---	---	---	---	PASS	G	20711365	G	G	20711365	4	3	86	1	0	0	0	0	0	1	0	0	11371	838	29	2	349	2	PACRGL	4	20711365	Nonsense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	14967918	20711365	170442911	63	32699										
SLC34A2	10568	broad.mit.edu	37	chr4	25677891	25677891	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tatcgctggttcgccgtcttCtacctgatcatcttcttctt	6	13	6	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:25677891C>G	uc003grr.2	+	13	1674	c.1593C>G	c.(1591-1593)TTC>TTG	p.F531L	SLC34A2_uc003grs.2_Missense_Mutation_p.F530L|SLC34A2_uc010iev.2_Missense_Mutation_p.F530L	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	531	Helical; Name=M7; (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				TCGCCGTCTTCTACCTGATCA	0.612													24	159	---	---	---	---	PASS	G	25677891	G	G	25677891	3	3	86	1	0	0	0	0	1	0	0	0	14568	912	32	2	1639	2	SLC34A2	4	25677891	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	4966526	25677891	165476385	64	32700										
NFXL1	152518	broad.mit.edu	37	chr4	47877170	47877170	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tccacatacaggcttgtgatCttacagtgacattttattct	6	9	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:47877170C>G	uc010igh.2	-	18	2397	c.2220G>C	c.(2218-2220)AAG>AAC	p.K740N	NFXL1_uc003gxo.2_Missense_Mutation_p.K65N|NFXL1_uc003gxp.2_Missense_Mutation_p.K740N|NFXL1_uc003gxq.3_RNA|NFXL1_uc010igi.2_Missense_Mutation_p.K740N	NM_152995	NP_694540	Q6ZNB6	NFXL1_HUMAN	nuclear transcription factor, X-box binding-like	740						integral to membrane|nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						GGCTTGTGATCTTACAGTGAC	0.363													9	63	---	---	---	---	PASS	G	47877170	G	G	47877170	3	3	86	1	0	0	0	0	1	0	0	0	10388	912	32	2	539	2	NFXL1	4	47877170	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	22199279	47877170	143277106	65	32701										
FRYL	285527	broad.mit.edu	37	chr4	48581237	48581237	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agtttgtaaatctatcgagcTagggcaatagagcaaagtag	11	5	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:48581237T>C	uc003gyh.1	-	23	2886	c.2281A>G	c.(2281-2283)AGC>GGC	p.S761G	FRYL_uc003gyk.2_Missense_Mutation_p.S761G	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	761					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TCTATCGAGCTAGGGCAATAG	0.318													6	53	---	---	---	---	PASS	C	48581237	C	C	48581237	3	2	86	1	0	0	0	0	1	0	0	0	6064	1522	53	5	6928	5	FRYL	4	48581237	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	704067	48581237	142573039	66	32702										
TECRL	253017	broad.mit.edu	37	chr4	65175614	65175614	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ataaggtttccaaaaggtatCggatgtagtgtatacaatga	10	4	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:65175614C>G	uc003hcv.2	-	6	696	c.587G>C	c.(586-588)CGA>CCA	p.R196P	TECRL_uc003hcw.2_Missense_Mutation_p.R196P	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	196					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						CAAAAGGTATCGGATGTAGTG	0.343													26	120	---	---	---	---	PASS	G	65175614	G	G	65175614	3	3	86	1	0	0	0	0	1	0	0	0	15743	884	31	2	532	2	TECRL	4	65175614	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	16594377	65175614	125978662	67	32703										
UGT2B28	54490	broad.mit.edu	37	chr4	70156509	70156509	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gacctgctgaatgcactgaaGacagtaattaatgatccttc	8	9	0	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:70156509G>A	uc003hej.2	+	5	1292	c.1290G>A	c.(1288-1290)AAG>AAA	p.K430K	UGT2B28_uc010ihr.2_Intron	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	430					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	ATGCACTGAAGACAGTAATTA	0.418													35	135	---	---	---	---	PASS	A	70156509	A	A	70156509	2	1	86	1	0	0	0	0	0	0	0	1	16957	933	33	2		2	UGT2B28	4	70156509	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	4980895	70156509	120997767	68	32704										
UGT2B4	7363	broad.mit.edu	37	chr4	70361034	70361034	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aacagaagtcctccactatgCttttcaattgcgtagccagg	8	11	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:70361034C>G	uc003hek.3	-	1	593	c.546G>C	c.(544-546)AAG>AAC	p.K182N	UGT2B4_uc011cap.1_Missense_Mutation_p.K46N|UGT2B4_uc003hel.3_Missense_Mutation_p.K182N	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	182					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						CTCCACTATGCTTTTCAATTG	0.443													6	55	---	---	---	---	PASS	G	70361034	G	G	70361034	3	3	86	1	0	0	0	0	1	0	0	0	16958	796	28	4	1064	4	UGT2B4	4	70361034	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	204525	70361034	120793242	69	32705										
SEC31A	22872	broad.mit.edu	37	chr4	83778220	83778220	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccatgcggttatcatgtaaaCaaaggtcaacagcactctca	7	11	3	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:83778220C>G	uc003hnf.2	-	16	1930	c.1766G>C	c.(1765-1767)TGT>TCT	p.C589S	SEC31A_uc003hne.2_Missense_Mutation_p.C322S|SEC31A_uc011ccl.1_Missense_Mutation_p.C550S|SEC31A_uc003hnl.2_Missense_Mutation_p.C550S|SEC31A_uc003hng.2_Missense_Mutation_p.C589S|SEC31A_uc003hnh.2_Missense_Mutation_p.C589S|SEC31A_uc003hni.2_Missense_Mutation_p.C589S|SEC31A_uc003hnj.2_Missense_Mutation_p.C550S|SEC31A_uc011ccm.1_Missense_Mutation_p.C584S|SEC31A_uc011ccn.1_Missense_Mutation_p.C589S|SEC31A_uc003hnk.2_Missense_Mutation_p.C550S|SEC31A_uc003hnm.2_Missense_Mutation_p.C589S|SEC31A_uc003hnn.1_Missense_Mutation_p.C589S	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	589					COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				ATCATGTAAACAAAGGTCAAC	0.408													6	56	---	---	---	---	PASS	G	83778220	G	G	83778220	3	3	86	1	0	0	0	0	1	0	0	0	13998	478	17	4	1944	4	SEC31A	4	83778220	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	13417186	83778220	107376056	70	32706										
GRID2	2895	broad.mit.edu	37	chr4	94344073	94344073	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcacaaatacggaagcccacAagaagatgggacatggaatg	11	8	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:94344073A>C	uc011cdt.1	+	10	1757	c.1499A>C	c.(1498-1500)CAA>CCA	p.Q500P	GRID2_uc011cdu.1_Missense_Mutation_p.Q405P	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	500	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	GGAAGCCCACAAGAAGATGGG	0.383													8	50	---	---	---	---	PASS	C	94344073	C	C	94344073	3	2	86	1	0	0	0	0	1	0	0	0	6772	130	5	5	1537	5	GRID2	4	94344073	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	10565853	94344073	96810203	71	32707										
CENPE	1062	broad.mit.edu	37	chr4	104066284	104066284	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctcctgtactcttttcatttCctctttttccttaatcataa	1	12	4	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:104066284C>T	uc003hxb.1	-	32	4870	c.4780G>A	c.(4780-4782)GAA>AAA	p.E1594K	CENPE_uc003hxc.1_Missense_Mutation_p.E1569K	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	1594	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		CTTTTCATTTCCTCTTTTTCC	0.343													19	83	---	---	---	---	PASS	T	104066284	T	T	104066284	3	4	86	1	0	0	0	0	1	0	0	0	3230	864	30	2	3397	2	CENPE	4	104066284	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	9722211	104066284	87087992	72	32708										
KIAA1109	84162	broad.mit.edu	37	chr4	123165066	123165066	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aacacagatgatgaaacattAacagaagagtggaccctgga	10	7	0	5			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:123165066A>T	uc003ieh.2	+	29	4845	c.4800A>T	c.(4798-4800)TTA>TTT	p.L1600F	KIAA1109_uc003iek.2_Missense_Mutation_p.L219F	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1600					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ATGAAACATTAACAGAAGAGT	0.393													15	85	---	---	---	---	PASS	T	123165066	T	T	123165066	3	4	86	1	0	0	0	0	1	0	0	0	8208	359	13	5	4914	5	KIAA1109	4	123165066	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	19098782	123165066	67989210	73	32709										
TBC1D9	23158	broad.mit.edu	37	chr4	141543624	141543624	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gtcctcgcagtgcagcttgtCctcctcgtgggagccggcac	13	15	0	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:141543624C>T	uc010ioj.2	-	21	3798	c.3526G>A	c.(3526-3528)GAC>AAC	p.D1176N		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	1176						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				TGCAGCTTGTCCTCCTCGTGG	0.667													4	51	---	---	---	---	PASS	T	141543624	T	T	141543624	3	4	86	1	0	0	0	0	1	0	0	0	15624	855	30	2	278	2	TBC1D9	4	141543624	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	18378558	141543624	49610652	74	32710										
TLR2	7097	broad.mit.edu	37	chr4	154624935	154624935	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gactgtacccttaatggagtTggtaattttagagcatctga	10	6	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:154624935T>C	uc003inq.2	+	3	1095	c.876T>C	c.(874-876)GTT>GTC	p.V292V	TLR2_uc003inr.2_Silent_p.V292V|TLR2_uc003ins.2_Silent_p.V292V	NM_003264	NP_003255	O60603	TLR2_HUMAN	toll-like receptor 2 precursor	292	Extracellular (Potential).				cellular response to diacyl bacterial lipopeptide|cellular response to lipoteichoic acid|cellular response to triacyl bacterial lipopeptide|detection of diacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|I-kappaB phosphorylation|induction of apoptosis|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of interferon-beta production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of Wnt receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|integral to plasma membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	Gram-positive bacterial cell surface binding|lipopolysaccharide receptor activity|peptidoglycan binding|protein heterodimerization activity|transmembrane receptor activity|triacyl lipopeptide binding			ovary(1)|lung(1)|breast(1)	3	all_hematologic(180;0.093)	Renal(120;0.117)				TTAATGGAGTTGGTAATTTTA	0.343													17	90	---	---	---	---	PASS	C	154624935	C	C	154624935	2	2	86	1	0	0	0	0	0	0	0	1	15948	1799	63	5		5	TLR2	4	154624935	Silent	SNP	T	TCGA-39-5024-01A-21D-1817-08	13081311	154624935	36529341	75	32711										
PLRG1	5356	broad.mit.edu	37	chr4	155467273	155467273	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ttgtaattataatatttcatActtggtctgcaaaggtaatg	7	4	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:155467273A>T	uc003iny.2	-	5	467	c.404_splice	c.e5+1	p.K135_splice	PLRG1_uc003inz.2_Splice_Site_p.K126_splice|PLRG1_uc011cil.1_Intron	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,							catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				AATATTTCATACTTGGTCTGC	0.318													8	58	---	---	---	---	PASS	T	155467273	T	T	155467273	5	4	86	1	0	0	0	0	0	0	1	0	12106	405	14	5	1182	5	PLRG1	4	155467273	Splice_Site	SNP	A	TCGA-39-5024-01A-21D-1817-08	842338	155467273	35687003	76	32712										
NPY5R	4889	broad.mit.edu	37	chr4	164271506	164271506	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gccactcggaattctgatttCccagtctgggatgactataa	9	10	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr4:164271506C>T	uc003iqn.2	+	4	263	c.81C>T	c.(79-81)TTC>TTT	p.F27F		NM_006174	NP_006165	Q15761	NPY5R_HUMAN	neuropeptide Y receptor Y5	27	Extracellular (Potential).				cardiac left ventricle morphogenesis|outflow tract morphogenesis	integral to plasma membrane				lung(6)|skin(1)	7	all_hematologic(180;0.166)	Prostate(90;0.109)				ATTCTGATTTCCCAGTCTGGG	0.393													6	85	---	---	---	---	PASS	T	164271506	T	T	164271506	2	4	86	1	0	0	0	0	0	0	0	1	10610	854	30	2		2	NPY5R	4	164271506	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	8804233	164271506	26882770	77	32713										
SLC9A3	6550	broad.mit.edu	37	chr5	484789	484789	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cacccccaccagcgtgccccCcaggctcaccacgaagaagg	9	20	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:484789C>G	uc003jbe.2	-	5	890	c.778G>C	c.(778-780)GGG>CGG	p.G260R	SLC9A3_uc011clx.1_Missense_Mutation_p.G260R	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	260	Helical; Name=H/M6; (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			AGCGTGCCCCCCAGGCTCACC	0.662													10	147	---	---	---	---	PASS	G	484789	G	G	484789	3	3	86	1	0	0	0	0	1	0	0	0	14713	623	22	4	1778	4	SLC9A3	5	484789	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08		484789	180430471	78	32714										
ZNF622	90441	broad.mit.edu	37	chr5	16465211	16465211	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcctgctgctttgccaacttCttcgcctgctgttcaaacca	6	15	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:16465211C>T	uc003jfq.2	-	1	684	c.564G>A	c.(562-564)AAG>AAA	p.K188K		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	188						cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						TTGCCAACTTCTTCGCCTGCT	0.622													27	416	---	---	---	---	PASS	T	16465211	T	T	16465211	2	4	86	1	0	0	0	0	0	0	0	1	18043	912	32	2		2	ZNF622	5	16465211	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	15980422	16465211	164450049	79	32715										
CDH18	1016	broad.mit.edu	37	chr5	19473700	19473700	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	caaggctgtgatgtcaaaggCctctgtgtcttcctctccgc	10	13	4	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:19473700C>A	uc003jgc.2	-	12	2385	c.2008G>T	c.(2008-2010)GCC>TCC	p.A670S	CDH18_uc003jgd.2_Missense_Mutation_p.A670S|CDH18_uc011cnm.1_3'UTR	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	670	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					ATGTCAAAGGCCTCTGTGTCT	0.522													202	165	---	---	---	---	PASS	A	19473700	A	A	19473700	3	1	86	1	0	0	0	0	1	0	0	0	3103	739	26	3	368	3	CDH18	5	19473700	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	3008489	19473700	161441560	80	32716										
CARD6	84674	broad.mit.edu	37	chr5	40841657	40841657	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agatctcctgaagaaaagtcGgaagctgttaattttggtac	10	6	1	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:40841657G>C	uc003jmg.2	+	1	248	c.173G>C	c.(172-174)CGG>CCG	p.R58P		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	58	CARD.				apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						AAGAAAAGTCGGAAGCTGTTA	0.428													20	190	---	---	---	---	PASS	C	40841657	C	C	40841657	3	2	86	1	0	0	0	0	1	0	0	0	2650	1116	39	4	175	4	CARD6	5	40841657	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	21367957	40841657	140073603	81	32717										
C6	729	broad.mit.edu	37	chr5	41176712	41176712	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agagttgtattctagaggcaGatggttaagtgctttcaaaa	11	4	2	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:41176712G>C	uc003jmk.2	-	8	1243	c.1033C>G	c.(1033-1035)CTG>GTG	p.L345V	C6_uc003jml.1_Missense_Mutation_p.L345V	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	345	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TCTAGAGGCAGATGGTTAAGT	0.408													13	127	---	---	---	---	PASS	C	41176712	C	C	41176712	3	2	86	1	0	0	0	0	1	0	0	0	2315	933	33	2	1815	2	C6	5	41176712	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	335055	41176712	139738548	82	32718										
BDP1	55814	broad.mit.edu	37	chr5	70757692	70757692	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atgaaagtcagaggccaccaGatcgttcaaaaatgactatg	9	8	2	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:70757692G>C	uc003kbp.1	+	3	801	c.538G>C	c.(538-540)GAT>CAT	p.D180H	BDP1_uc003kbn.1_Missense_Mutation_p.D180H|BDP1_uc003kbo.2_Missense_Mutation_p.D180H	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	180	Interaction with ZBTB43.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		GAGGCCACCAGATCGTTCAAA	0.279													4	130	---	---	---	---	PASS	C	70757692	C	C	70757692	3	2	86	1	0	0	0	0	1	0	0	0	1395	942	33	2	548	2	BDP1	5	70757692	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	29580980	70757692	110157568	83	32719										
CARTPT	9607	broad.mit.edu	37	chr5	71015177	71015177	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ggcgccgccctgctgctgatGctacctctgttgggtacccg	13	15	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:71015177G>T	uc003kbv.1	+	1	184	c.57G>T	c.(55-57)ATG>ATT	p.M19I		NM_004291	NP_004282	Q16568	CART_HUMAN	cocaine- and amphetamine-regulated transcript	19					activation of MAPKK activity|adult feeding behavior|cellular glucose homeostasis|cellular response to starvation|circadian regulation of gene expression|negative regulation of appetite|negative regulation of bone resorption|negative regulation of osteoclast differentiation|neuropeptide signaling pathway|positive regulation of blood pressure|positive regulation of epinephrine secretion|positive regulation of transmission of nerve impulse|synaptic transmission	extracellular space				ovary(1)	1		Lung NSC(167;0.00153)|Ovarian(174;0.0175)|Prostate(74;0.11)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;8.4e-56)	Amphetamine(DB00182)	TGCTGCTGATGCTACCTCTGT	0.667													4	72	---	---	---	---	PASS	T	71015177	T	T	71015177	3	4	86	1	0	0	0	0	1	0	0	0	2659	1319	46	3	59	3	CARTPT	5	71015177	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	257485	71015177	109900083	84	32720										
APC	324	broad.mit.edu	37	chr5	112174552	112174552	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agcactgatgataaacacctCaagttccaaccacattttgg	6	11	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:112174552C>T	uc010jby.2	+	16	3641	c.3261C>T	c.(3259-3261)CTC>CTT	p.L1087L	APC_uc011cvt.1_Silent_p.L1069L|APC_uc003kpz.3_Silent_p.L1087L|APC_uc003kpy.3_Silent_p.L1087L|APC_uc010jbz.2_Silent_p.L804L|APC_uc010jca.2_Silent_p.L387L	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1087	Ser-rich.|Responsible for down-regulation through a process mediated by direct ubiquitination.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		ATAAACACCTCAAGTTCCAAC	0.388		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			3	56	---	---	---	---	PASS	T	112174552	T	T	112174552	2	4	86	1	0	0	0	0	0	0	0	1	763	813	29	2		2	APC	5	112174552	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	41159375	112174552	68740708	85	32721										
PCDHGA8	9708	broad.mit.edu	37	chr5	140773546	140773546	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgtctgttacacacgtgataAtttaccttttaaattagaaa	5	6	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:140773546A>T	uc003lkd.1	+	1	2064	c.1166A>T	c.(1165-1167)AAT>ATT	p.N389I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.N389I	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	389	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACACGTGATAATTTACCTTTT	0.353													6	38	---	---	---	---	PASS	T	140773546	T	T	140773546	3	4	86	1	0	0	0	0	1	0	0	0	11560	101	4	5	1168	5	PCDHGA8	5	140773546	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	28598994	140773546	40141714	86	32722										
GRIA1	2890	broad.mit.edu	37	chr5	152873579	152873579	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cccccgaagctgctcccccaGattgatattgtgaacatcag	8	14	1	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:152873579G>T	uc003lva.3	+	2	539	c.174G>T	c.(172-174)CAG>CAT	p.Q58H	GRIA1_uc003luy.3_Missense_Mutation_p.Q58H|GRIA1_uc003luz.3_5'UTR|GRIA1_uc011dcv.1_Intron|GRIA1_uc011dcw.1_Missense_Mutation_p.Q58H|GRIA1_uc011dcx.1_5'UTR|GRIA1_uc011dcy.1_Missense_Mutation_p.Q68H|GRIA1_uc011dcz.1_Missense_Mutation_p.Q68H|GRIA1_uc010jia.1_Missense_Mutation_p.Q38H	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	58	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TGCTCCCCCAGATTGATATTG	0.443													22	116	---	---	---	---	PASS	T	152873579	T	T	152873579	3	4	86	1	0	0	0	0	1	0	0	0	6767	933	33	2	180	2	GRIA1	5	152873579	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	12100033	152873579	28041681	87	32723										
C5orf4	10826	broad.mit.edu	37	chr5	154202038	154202038	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agagctctactcactgcatgCtctatagggtgggcatagag	12	9	3	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:154202038C>A	uc003lvs.3	-	7	843	c.672G>T	c.(670-672)GAG>GAT	p.E224D	C5orf4_uc003lvq.2_5'Flank|C5orf4_uc003lvr.2_5'Flank|C5orf4_uc011dde.1_Missense_Mutation_p.E201D	NM_032385	NP_115761	Q96IV6	CE004_HUMAN	hypothetical protein LOC10826	224	Helical; (Potential).				fatty acid biosynthetic process	integral to membrane	iron ion binding|oxidoreductase activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TCACTGCATGCTCTATAGGGT	0.537													16	166	---	---	---	---	PASS	A	154202038	A	A	154202038	3	1	86	1	0	0	0	0	1	0	0	0	2298	796	28	3	341	3	C5orf4	5	154202038	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	1328459	154202038	26713222	88	32724										
ATP10B	23120	broad.mit.edu	37	chr5	160047859	160047859	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcagagggtgcagtggatgaGaatgactggctgaggctcaa	16	6	2	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:160047859G>A	uc003lym.1	-	15	2758	c.1911C>T	c.(1909-1911)TTC>TTT	p.F637F	ATP10B_uc010jit.1_5'UTR|ATP10B_uc003lyn.2_Silent_p.F195F	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	637	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAGTGGATGAGAATGACTGGC	0.552													21	179	---	---	---	---	PASS	A	160047859	A	A	160047859	2	1	86	1	0	0	0	0	0	0	0	1	1117	933	33	2		2	ATP10B	5	160047859	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	5845821	160047859	20867401	89	32725										
WWC1	23286	broad.mit.edu	37	chr5	167850747	167850747	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ggccaccggcttccggccctCaggctgcatcaccaccatcc	9	20	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr5:167850747C>G	uc003lzu.2	+	11	1577	c.1484C>G	c.(1483-1485)TCA>TGA	p.S495*	WWC1_uc003lzv.2_Nonsense_Mutation_p.S495*|WWC1_uc011den.1_Nonsense_Mutation_p.S495*|WWC1_uc003lzw.2_Nonsense_Mutation_p.S294*	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	495					cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		TTCCGGCCCTCAGGCTGCATC	0.632													13	70	---	---	---	---	PASS	G	167850747	G	G	167850747	4	3	86	1	0	0	0	0	0	1	0	0	17408	838	29	2	1526	2	WWC1	5	167850747	Nonsense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	7802888	167850747	13064513	90	32726										
HIST1H2AG	8969	broad.mit.edu	37	chr6	27100914	27100914	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccaagactcgctcttctaggGccggtctccagttccccgtg	10	16	3	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:27100914G>C	uc003niw.2	+	1	98	c.64G>C	c.(64-66)GCC>CCC	p.A22P	HIST1H2BJ_uc003niu.1_5'Flank|HIST1H2BJ_uc003niv.2_5'Flank	NM_021064	NP_066408	P0C0S8	H2A1_HUMAN	histone cluster 1, H2ag	22					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding				0						CTCTTCTAGGGCCGGTCTCCA	0.647													13	42	---	---	---	---	PASS	C	27100914	C	C	27100914	3	2	86	1	0	0	0	0	1	0	0	0	7133	1203	42	4	66	4	HIST1H2AG	6	27100914	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08		27100914	144014153	91	32727										
OR2B2	81697	broad.mit.edu	37	chr6	27879783	27879783	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cattctgtggaacccaaggcCaggaaaatgaaaagctgggc	12	9	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:27879783C>A	uc011dkw.1	-	1	315	c.315G>T	c.(313-315)CTG>CTT	p.L105L		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AACCCAAGGCCAGGAAAATGA	0.453													5	75	---	---	---	---	PASS	A	27879783	A	A	27879783	2	1	86	1	0	0	0	0	0	0	0	1	10989	581	21	3		3	OR2B2	6	27879783	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	778869	27879783	143235284	92	32728										
HLA-A	3105	broad.mit.edu	37	chr6	29911061	29911061	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccaggttctcacaccatccaGataatgtatggctgcgacgt	9	12	1	1	rs41550512		TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:29911061G>C	uc003nol.2	+	3	360	c.360G>C	c.(358-360)CAG>CAC	p.Q120H	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_RNA|HLA-A_uc010jrq.2_5'UTR|HLA-A_uc003nok.2_5'UTR|HLA-A_uc003non.2_Missense_Mutation_p.Q120H|HLA-A_uc003noo.2_Missense_Mutation_p.Q120H|HLA-A_uc010jrr.2_Missense_Mutation_p.Q120H|HLA-A_uc003nom.2_5'UTR|HLA-A_uc010klp.2_Missense_Mutation_p.Q92H|HLA-A_uc011dmc.1_5'UTR|HLA-A_uc011dmd.1_5'Flank	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A	120	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						ACACCATCCAGATAATGTATG	0.662									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)			4	8	---	---	---	---	PASS	C	29911061	C	C	29911061	3	2	86	1	0	0	0	0	1	0	0	0	7195	933	33	2	370	2	HLA-A	6	29911061	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	2031278	29911061	141204006	93	32729										
TNXB	7148	broad.mit.edu	37	chr6	32020577	32020577	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcctcgcccctgacacgcacCacctggggccgcccgtccct	9	22	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:32020577C>T	uc003nzl.2	-	26	9181	c.8979G>A	c.(8977-8979)GTG>GTA	p.V2993V		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3040	Fibronectin type-III 22.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TGACACGCACCACCTGGGGCC	0.677													7	59	---	---	---	---	PASS	T	32020577	T	T	32020577	2	4	86	1	0	0	0	0	0	0	0	1	16343	581	21	3		3	TNXB	6	32020577	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	2109516	32020577	139094490	94	32730										
CLPS	1208	broad.mit.edu	37	chr6	35765000	35765000	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	accaggttgataatgatcccCcgggggccaggagctgcata	13	11	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:35765000C>T	uc003ole.1	-	1	103	c.66G>A	c.(64-66)CGG>CGA	p.R22R	CLPS_uc003olf.1_Silent_p.R22R	NM_001832	NP_001823	P04118	COL_HUMAN	colipase preproprotein	22					lipid catabolic process|lipid digestion|retinoid metabolic process|steroid metabolic process	extracellular region					0						TAATGATCCCCCGGGGGCCAG	0.592													5	106	---	---	---	---	PASS	T	35765000	T	T	35765000	2	4	86	1	0	0	0	0	0	0	0	1	3553	610	22	3		3	CLPS	6	35765000	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	3744423	35765000	135350067	95	32731										
DAAM2	23500	broad.mit.edu	37	chr6	39835470	39835470	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctgaggccattagtaccataGcccagagcctacgcacagag	10	13	0	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:39835470G>T	uc003oow.2	+	6	769	c.613G>T	c.(613-615)GCC>TCC	p.A205S	DAAM2_uc010jxc.2_Missense_Mutation_p.A205S|DAAM2_uc003oox.2_Missense_Mutation_p.A205S	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	205	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					TAGTACCATAGCCCAGAGCCT	0.582													5	71	---	---	---	---	PASS	T	39835470	T	T	39835470	3	4	86	1	0	0	0	0	1	0	0	0	4216	971	34	3	631	3	DAAM2	6	39835470	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	4070470	39835470	131279597	96	32732										
BAI3	577	broad.mit.edu	37	chr6	69949088	69949088	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atctcatccaatatcctcatActggttggacagactcagac	6	12	3	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:69949088A>T	uc003pev.3	+	20	3232	c.2784A>T	c.(2782-2784)ATA>ATT	p.I928I	BAI3_uc010kak.2_Silent_p.I928I|BAI3_uc011dxx.1_Silent_p.I134I|BAI3_uc003pex.1_Silent_p.I58I	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	928	Helical; Name=2; (Potential).				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)				ATATCCTCATACTGGTTGGAC	0.348													31	152	---	---	---	---	PASS	T	69949088	T	T	69949088	2	4	86	1	0	0	0	0	0	0	0	1	1300	381	14	5		5	BAI3	6	69949088	Silent	SNP	A	TCGA-39-5024-01A-21D-1817-08	30113618	69949088	101165979	97	32733										
DDX43	55510	broad.mit.edu	37	chr6	74124385	74124385	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tattgaagaatacgtacaccGaatagggcgcacgggaagag	13	7	0	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:74124385G>A	uc003pgw.2	+	14	2065	c.1721G>A	c.(1720-1722)CGA>CAA	p.R574Q		NM_018665	NP_061135	Q9NXZ2	DDX43_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 43	574	Helicase C-terminal.					intracellular	ATP binding|ATP-dependent RNA helicase activity|RNA binding			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4						TACGTACACCGAATAGGGCGC	0.433													8	67	---	---	---	---	PASS	A	74124385	A	A	74124385	3	1	86	1	0	0	0	0	1	0	0	0	4363	1058	37	2	1775	2	DDX43	6	74124385	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	4175297	74124385	96990682	98	32734										
TRAF3IP2	10758	broad.mit.edu	37	chr6	111901417	111901417	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tactggtgccttggaagcccCggaaaggagcagtctctctg	13	11	2	0	rs117922343	by1000genomes	TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:111901417C>A	uc011ebc.1	-	4	1620	c.1005G>T	c.(1003-1005)CCG>CCT	p.P335P	TRAF3IP2_uc003pvg.2_Silent_p.P335P|TRAF3IP2_uc003pvf.2_Silent_p.P335P|TRAF3IP2_uc010kdw.2_Silent_p.P335P|TRAF3IP2_uc010kdx.2_Silent_p.P335P	NM_147686	NP_679211	O43734	CIKS_HUMAN	TRAF3 interacting protein 2 isoform 2	344					intracellular signal transduction|positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular				ovary(2)|central_nervous_system(1)	3		all_cancers(87;7.87e-06)|Acute lymphoblastic leukemia(125;3.61e-09)|all_hematologic(75;2.63e-07)|all_epithelial(87;0.0024)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.033)|all cancers(137;0.0412)|Epithelial(106;0.0732)		TTGGAAGCCCCGGAAAGGAGC	0.512													3	36	---	---	---	---	PASS	A	111901417	A	A	111901417	2	1	86	1	0	0	0	0	0	0	0	1	16438	639	23	1		1	TRAF3IP2	6	111901417	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	37777032	111901417	59213650	99	32735										
GJA1	2697	broad.mit.edu	37	chr6	121768672	121768672	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccctggccttgaatatcattGaactcttctatgttttcttc	5	11	4	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:121768672G>T	uc003pyr.2	+	2	929	c.679G>T	c.(679-681)GAA>TAA	p.E227*	GJA1_uc011ebo.1_Nonsense_Mutation_p.E128*|GJA1_uc011ebp.1_Nonsense_Mutation_p.E15*	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	227	Helical; (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	GAATATCATTGAACTCTTCTA	0.512													30	166	---	---	---	---	PASS	T	121768672	T	T	121768672	4	4	86	1	0	0	0	0	0	1	0	0	6400	1291	45	2	681	2	GJA1	6	121768672	Nonsense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	9867255	121768672	49346395	100	32736										
LAMA2	3908	broad.mit.edu	37	chr6	129513971	129513971	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccgcacagctactactggagCgcgccggctccctatctggg	12	16	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:129513971C>T	uc003qbn.2	+	12	1860	c.1755C>T	c.(1753-1755)AGC>AGT	p.S585S	LAMA2_uc003qbo.2_Silent_p.S585S	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	585	Laminin IV type A 1.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		ACTACTGGAGCGCGCCGGCTC	0.552													7	46	---	---	---	---	PASS	T	129513971	T	T	129513971	2	4	86	1	0	0	0	0	0	0	0	1	8606	767	27	1		1	LAMA2	6	129513971	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	7745299	129513971	41601096	101	32737										
BCLAF1	9774	broad.mit.edu	37	chr6	136597477	136597477	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgtgtcatccccttctgaatCattaaacttttgttttccag	5	10	3	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:136597477C>A	uc003qgx.1	-	5	1439	c.1186G>T	c.(1186-1188)GAT>TAT	p.D396Y	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Missense_Mutation_p.D394Y|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.D394Y	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	396					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CCTTCTGAATCATTAAACTTT	0.443													25	554	---	---	---	---	PASS	A	136597477	A	A	136597477	3	1	86	1	0	0	0	0	1	0	0	0	1383	826	29	2	1612	2	BCLAF1	6	136597477	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	7083506	136597477	34517590	102	32738										
HECA	51696	broad.mit.edu	37	chr6	139487474	139487474	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcggtaggccggtggacctgGagaaggacgactaccagaag	16	9	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:139487474G>C	uc003qin.2	+	2	610	c.325G>C	c.(325-327)GAG>CAG	p.E109Q		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	109					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		GGTGGACCTGGAGAAGGACGA	0.517													5	168	---	---	---	---	PASS	C	139487474	C	C	139487474	3	2	86	1	0	0	0	0	1	0	0	0	7038	1175	41	2	331	2	HECA	6	139487474	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	2889997	139487474	31627593	103	32739										
VTA1	51534	broad.mit.edu	37	chr6	142487437	142487437	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atgtcgcaaatttttatcaaAgttaatggatcagttagaag	8	4	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:142487437A>G	uc003qiw.2	+	2	200	c.185A>G	c.(184-186)AAG>AGG	p.K62R	VTA1_uc011edt.1_RNA|VTA1_uc011edu.1_Intron	NM_016485	NP_057569	Q9NP79	VTA1_HUMAN	Vps20-associated 1 homolog	62	Interaction with CHMP5.|Interaction with IST1.				cellular membrane organization|endosome transport|protein transport	cytosol|endosome membrane	protein binding				0	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;1.34e-05)|GBM - Glioblastoma multiforme(68;0.00182)		TTTTTATCAAAGTTAATGGAT	0.323													23	65	---	---	---	---	PASS	G	142487437	G	G	142487437	3	3	86	1	0	0	0	0	1	0	0	0	17230	72	3	5	191	5	VTA1	6	142487437	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	2999963	142487437	28627630	104	32740										
C6orf97	80129	broad.mit.edu	37	chr6	151914290	151914290	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agaaaatgaagttggaccagAtggctgccgaacttggcttt	12	7	0	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:151914290A>T	uc003qol.2	+	8	1431	c.1342A>T	c.(1342-1344)ATG>TTG	p.M448L		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	448											0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		GTTGGACCAGATGGCTGCCGA	0.433													24	48	---	---	---	---	PASS	T	151914290	T	T	151914290	3	4	86	1	0	0	0	0	1	0	0	0	2374	333	12	5	1372	5	C6orf97	6	151914290	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	9426853	151914290	19200777	105	32741										
SYNE1	23345	broad.mit.edu	37	chr6	152763321	152763321	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agccccccttctccctgctgCgcctgcgcgatctgctgctg	10	19	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:152763321C>T	uc010kiw.2	-	31	4499	c.3897G>A	c.(3895-3897)GCG>GCA	p.A1299A	SYNE1_uc003qot.3_Silent_p.A1306A|SYNE1_uc003qou.3_Silent_p.A1299A|SYNE1_uc010kjb.1_Silent_p.A1282A|SYNE1_uc003qow.2_Silent_p.A594A|SYNE1_uc003qox.1_Silent_p.A815A	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1299	Potential.|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)		CTCCCTGCTGCGCCTGCGCGA	0.567										HNSCC(10;0.0054)			12	91	---	---	---	---	PASS	T	152763321	T	T	152763321	2	4	86	1	0	0	0	0	0	0	0	1	15442	755	27	1		1	SYNE1	6	152763321	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	849031	152763321	18351746	106	32742										
TFB1M	51106	broad.mit.edu	37	chr6	155632376	155632376	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	accaccagaagttcagcgacGtcggcattaagaatagatct	9	10	2	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:155632376G>C	uc003qqj.3	-	2	295	c.231C>G	c.(229-231)GAC>GAG	p.D77E	TFB1M_uc003qqk.2_Intron	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	77					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		GTTCAGCGACGTCGGCATTAA	0.433													28	73	---	---	---	---	PASS	C	155632376	C	C	155632376	3	2	86	1	0	0	0	0	1	0	0	0	15790	1136	40	4	833	4	TFB1M	6	155632376	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	2869055	155632376	15482691	107	32743										
PDCD2	5134	broad.mit.edu	37	chr6	170892822	170892822	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aaatcgtttttcctgggtagTtgattcctaaaaactaaaaa	6	6	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr6:170892822T>G	uc003qxw.2	-	2	376	c.297A>C	c.(295-297)CAA>CAC	p.Q99H	PDCD2_uc003qxv.2_Missense_Mutation_p.Q66H|PDCD2_uc003qxx.1_Missense_Mutation_p.Q99H|PDCD2_uc003qxy.2_Missense_Mutation_p.Q66H|PDCD2_uc003qxz.2_Missense_Mutation_p.Q99H|PDCD2_uc003qya.2_Missense_Mutation_p.Q66H|PDCD2_uc003qyb.1_Intron	NM_002598	NP_002589	Q16342	PDCD2_HUMAN	programmed cell death 2 isoform 1	99					apoptosis	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding				0		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|BRCA - Breast invasive adenocarcinoma(81;4.82e-06)|GBM - Glioblastoma multiforme(31;0.142)		TCCTGGGTAGTTGATTCCTAA	0.368													6	52	---	---	---	---	PASS	G	170892822	G	G	170892822	3	3	86	1	0	0	0	0	1	0	0	0	11619	1722	60	5	786	5	PDCD2	6	170892822	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	15260446	170892822	222245	108	32744										
SDK1	221935	broad.mit.edu	37	chr7	4249744	4249744	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cgagcctgcggcggccaacgGcatcctgcagggctatcggg	16	14	0	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr7:4249744G>A	uc003smx.2	+	38	5628	c.5489G>A	c.(5488-5490)GGC>GAC	p.G1830D	SDK1_uc010kso.2_Missense_Mutation_p.G1086D|SDK1_uc003smy.2_Missense_Mutation_p.G317D	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1830	Fibronectin type-III 12.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GCGGCCAACGGCATCCTGCAG	0.652													8	94	---	---	---	---	PASS	A	4249744	A	A	4249744	3	1	86	1	0	0	0	0	1	0	0	0	13968	1203	42	3	5639	3	SDK1	7	4249744	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08		4249744	154888919	109	32745										
DFNA5	1687	broad.mit.edu	37	chr7	24784198	24784198	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tacctctcggcagagtctctGatgagctgctgcaaatccac	9	13	2	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr7:24784198G>C	uc010kus.1	-	3	475	c.387C>G	c.(385-387)ATC>ATG	p.I129M	DFNA5_uc003swz.2_Translation_Start_Site|DFNA5_uc003sxa.1_Missense_Mutation_p.I129M|DFNA5_uc010kut.1_Translation_Start_Site|DFNA5_uc003sxb.2_Missense_Mutation_p.I129M|DFNA5_uc003sxc.2_Missense_Mutation_p.I129M	NM_001127453	NP_001120925	O60443	DFNA5_HUMAN	deafness, autosomal dominant 5 protein isoform	129					sensory perception of sound					ovary(1)	1						CAGAGTCTCTGATGAGCTGCT	0.502													9	154	---	---	---	---	PASS	C	24784198	C	C	24784198	3	2	86	1	0	0	0	0	1	0	0	0	4454	1280	45	2	1135	2	DFNA5	7	24784198	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	20534454	24784198	134354465	110	32746										
AVL9	23080	broad.mit.edu	37	chr7	32612988	32612988	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aatggatccgggcccagtttGcggtctacattcatgccctg	11	12	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr7:32612988G>C	uc003tcv.1	+	12	1674	c.1528G>C	c.(1528-1530)GCG>CCG	p.A510P	AVL9_uc011kai.1_Intron|AVL9_uc010kwj.1_Missense_Mutation_p.A351P	NM_015060	NP_055875	Q8NBF6	AVL9_HUMAN	AVL9 homolog (S. cerevisiase)	510						integral to membrane					0						GGCCCAGTTTGCGGTCTACAT	0.507													19	118	---	---	---	---	PASS	C	32612988	C	C	32612988	3	2	86	1	0	0	0	0	1	0	0	0	1228	1319	46	4	1574	4	AVL9	7	32612988	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	7828790	32612988	126525675	111	32747										
TBX20	57057	broad.mit.edu	37	chr7	35284591	35284591	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgatccagttcattgttggtGagtttcaccttttcaaaaga	8	7	3	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr7:35284591G>A	uc011kas.1	-	4	635	c.624C>T	c.(622-624)CTC>CTT	p.L208L		NM_001077653	NP_001071121	Q9UMR3	TBX20_HUMAN	T-box transcription factor TBX20	208	T-box.					nucleus	DNA binding			central_nervous_system(1)	1						CATTGTTGGTGAGTTTCACCT	0.443													6	50	---	---	---	---	PASS	A	35284591	A	A	35284591	2	1	86	1	0	0	0	0	0	0	0	1	15653	1277	45	2		2	TBX20	7	35284591	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	2671603	35284591	123854072	112	32748										
ABCA13	154664	broad.mit.edu	37	chr7	48545964	48545964	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	acagccacccatatggagggGccttgctgaacaaggacaag	12	11	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr7:48545964G>A	uc003toq.2	+	49	13349	c.13324G>A	c.(13324-13326)GCC>ACC	p.A4442T	ABCA13_uc010kys.1_Missense_Mutation_p.A1517T|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Missense_Mutation_p.A172T	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4442					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ATATGGAGGGGCCTTGCTGAA	0.468													42	69	---	---	---	---	PASS	A	48545964	A	A	48545964	3	1	86	1	0	0	0	0	1	0	0	0	31	1203	42	3	13347	3	ABCA13	7	48545964	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	13261373	48545964	110592699	113	32749										
TYW1	55253	broad.mit.edu	37	chr7	66548450	66548450	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cccgtgggcactgagtggcgGtggaagatggaccagcctga	17	10	0	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr7:66548450G>A	uc003tvn.2	+	11	1457	c.1308G>A	c.(1306-1308)CGG>CGA	p.R436R	TYW1_uc010lai.2_RNA|TYW1_uc011kef.1_Silent_p.R50R	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	436					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				CTGAGTGGCGGTGGAAGATGG	0.438													21	102	---	---	---	---	PASS	A	66548450	A	A	66548450	2	1	86	1	0	0	0	0	0	0	0	1	16815	1248	44	3		3	TYW1	7	66548450	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	18002486	66548450	92590213	114	32750										
GRM3	2913	broad.mit.edu	37	chr7	86479854	86479854	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gtggaactgggaccacatacTctcagtgtaagtatggaact	11	8	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr7:86479854T>G	uc003uid.2	+	5	3659	c.2560T>G	c.(2560-2562)TCT>GCT	p.S854A	GRM3_uc010lef.2_Missense_Mutation_p.L496R|GRM3_uc010leg.2_Missense_Mutation_p.S726A|GRM3_uc010leh.2_Missense_Mutation_p.S446A	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	854	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GACCACATACTCTCAGTGTAA	0.478													17	110	---	---	---	---	PASS	G	86479854	G	G	86479854	3	3	86	1	0	0	0	0	1	0	0	0	6798	1551	54	5	2574	5	GRM3	7	86479854	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	19931404	86479854	72658809	115	32751										
MLL5	55904	broad.mit.edu	37	chr7	104752933	104752933	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcagctcaaaggtagtctttCtcaacaaactgtgtttacat	6	9	4	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr7:104752933C>T	uc003vcm.2	+	27	5264	c.4730C>T	c.(4729-4731)TCT>TTT	p.S1577F	MLL5_uc010ljc.2_Missense_Mutation_p.S1577F|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Missense_Mutation_p.S311F	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1577	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						GGTAGTCTTTCTCAACAAACT	0.478													15	98	---	---	---	---	PASS	T	104752933	T	T	104752933	3	4	86	1	0	0	0	0	1	0	0	0	9624	913	32	2	4828	2	MLL5	7	104752933	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	18273079	104752933	54385730	116	32752										
MKLN1	4289	broad.mit.edu	37	chr7	131128447	131128447	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agtctcgaataggacactgcAtgttattccactcagtaaga	8	9	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr7:131128447A>T	uc011kpm.1	+	11	1445	c.1381A>T	c.(1381-1383)ATG>TTG	p.M461L	MKLN1_uc011kpl.1_Missense_Mutation_p.M438L|MKLN1_uc010lmh.2_Missense_Mutation_p.M461L|MKLN1_uc003vqs.2_Missense_Mutation_p.M254L	NM_013255	NP_037387	Q9UL63	MKLN1_HUMAN	muskelin 1, intracellular mediator containing	461					signal transduction	cytoplasm	protein binding			breast(1)	1	Melanoma(18;0.162)					AGGACACTGCATGTTATTCCA	0.398													20	62	---	---	---	---	PASS	T	131128447	T	T	131128447	3	4	86	1	0	0	0	0	1	0	0	0	9603	217	8	5	1456	5	MKLN1	7	131128447	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	26375514	131128447	28010216	117	32753										
NUP205	23165	broad.mit.edu	37	chr7	135258457	135258457	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agccagtacagagggagtcgCcattcagggtcaacagggaa	14	9	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr7:135258457C>A	uc003vsw.2	+	3	258	c.227C>A	c.(226-228)GCC>GAC	p.A76D	NUP205_uc011kqa.1_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	76					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						GAGGGAGTCGCCATTCAGGGT	0.403													3	49	---	---	---	---	PASS	A	135258457	A	A	135258457	3	1	86	1	0	0	0	0	1	0	0	0	10759	739	26	3	237	3	NUP205	7	135258457	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	4130010	135258457	23880206	118	32754										
CLCN1	1180	broad.mit.edu	37	chr7	143028687	143028687	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctgtatttgtgtatctgcatCgccaagtcatgctcggtgtc	10	10	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr7:143028687C>A	uc003wcr.1	+	10	1195	c.1108C>A	c.(1108-1110)CGC>AGC	p.R370S	CLCN1_uc011ktc.1_Missense_Mutation_p.R32S	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	370	Helical; (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					GTATCTGCATCGCCAAGTCAT	0.478													4	79	---	---	---	---	PASS	A	143028687	A	A	143028687	3	1	86	1	0	0	0	0	1	0	0	0	3462	884	31	2	1146	2	CLCN1	7	143028687	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	7770230	143028687	16109976	119	32755										
VIPR2	7434	broad.mit.edu	37	chr7	158835748	158835748	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aggaggatggctggtcagggCagtgcaacgtgccagagctg	18	8	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr7:158835748C>A	uc003woh.2	-	6	761	c.575G>T	c.(574-576)TGC>TTC	p.C192F	VIPR2_uc010lqx.2_RNA|VIPR2_uc010lqy.2_RNA	NM_003382	NP_003373	P41587	VIPR2_HUMAN	vasoactive intestinal peptide receptor 2	192	Extracellular (Potential).				cell-cell signaling	integral to plasma membrane				lung(1)|central_nervous_system(1)	2	Ovarian(565;0.152)	all_cancers(7;1.13e-11)|all_epithelial(9;0.000545)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)|STAD - Stomach adenocarcinoma(7;0.18)		CTGGTCAGGGCAGTGCAACGT	0.552													6	29	---	---	---	---	PASS	A	158835748	A	A	158835748	3	1	86	1	0	0	0	0	1	0	0	0	17167	710	25	3	773	3	VIPR2	7	158835748	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	15807061	158835748	302915	120	32756										
SLC18A1	6570	broad.mit.edu	37	chr8	20007193	20007193	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cttcttatacttacacagagCaagctggtacctactaccag	6	12	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr8:20007193C>T	uc011kyq.1	-	13	1611	c.1140G>A	c.(1138-1140)TTG>TTA	p.L380L	SLC18A1_uc003wzl.2_Silent_p.L167L|SLC18A1_uc003wzm.2_Silent_p.L380L|SLC18A1_uc011kyr.1_Silent_p.L380L|SLC18A1_uc003wzn.2_Silent_p.L348L|SLC18A1_uc010ltf.2_RNA|SLC18A1_uc003wzo.2_Silent_p.L348L	NM_001135691	NP_001129163	P54219	VMAT1_HUMAN	solute carrier family 18 (vesicular monoamine),	380	Helical; (Potential).				neurotransmitter transport	clathrin sculpted monoamine transport vesicle membrane|integral to membrane|membrane fraction	drug transmembrane transporter activity|monoamine transmembrane transporter activity			ovary(2)	2				Colorectal(74;0.0747)		TTACACAGAGCAAGCTGGTAC	0.363													6	33	---	---	---	---	PASS	T	20007193	T	T	20007193	2	4	86	1	0	0	0	0	0	0	0	1	14425	709	25	3		3	SLC18A1	8	20007193	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08		20007193	126356829	121	32757										
RAB11FIP1	80223	broad.mit.edu	37	chr8	37728907	37728907	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcttgccaaaattttcaactCtaccagcggagccctctgct	6	14	4	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr8:37728907C>G	uc003xkm.1	-	4	3457	c.3413G>C	c.(3412-3414)AGA>ACA	p.R1138T	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Missense_Mutation_p.R467T|RAB11FIP1_uc003xko.1_Missense_Mutation_p.R467T|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	1138					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			ATTTTCAACTCTACCAGCGGA	0.552											OREG0018713	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	188	---	---	---	---	PASS	G	37728907	G	G	37728907	3	3	86	1	0	0	0	0	1	0	0	0	12893	913	32	2	450	2	RAB11FIP1	8	37728907	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	17721714	37728907	108635115	122	32758										
ZMAT4	79698	broad.mit.edu	37	chr8	40554884	40554884	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgacatgttgcagagtgtgcAgcacttgttcttatccacca	9	10	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr8:40554884A>T	uc003xnr.2	-	4	375	c.229T>A	c.(229-231)TGC>AGC	p.C77S	ZMAT4_uc003xns.2_Missense_Mutation_p.C77S	NM_024645	NP_078921	Q9H898	ZMAT4_HUMAN	zinc finger, matrin type 4 isoform a	77	Matrin-type 2.					nucleus	DNA binding|zinc ion binding			pancreas(1)|central_nervous_system(1)|skin(1)	3	Ovarian(28;0.00724)|Colorectal(14;0.0468)	all_cancers(7;0.00936)|all_epithelial(6;3.53e-06)|all_lung(54;0.0318)|Lung NSC(58;0.0919)|Esophageal squamous(32;0.15)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;0.00722)			CAGAGTGTGCAGCACTTGTTC	0.478													13	93	---	---	---	---	PASS	T	40554884	T	T	40554884	3	4	86	1	0	0	0	0	1	0	0	0	17691	188	7	5	476	5	ZMAT4	8	40554884	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	2825977	40554884	105809138	123	32759										
PXDNL	137902	broad.mit.edu	37	chr8	52321164	52321164	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aggtgatgtgctgcagctccGcgcccacgatcttcctggct	12	14	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr8:52321164G>A	uc003xqu.3	-	17	3121	c.3020C>T	c.(3019-3021)GCG>GTG	p.A1007V	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1007					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CTGCAGCTCCGCGCCCACGAT	0.622													6	17	---	---	---	---	PASS	A	52321164	A	A	52321164	3	1	86	1	0	0	0	0	1	0	0	0	12848	1087	38	1	1399	1	PXDNL	8	52321164	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	11766280	52321164	94042858	124	32760										
DPYS	1807	broad.mit.edu	37	chr8	105456559	105456559	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gaggacagttcacagcgctgGctatggtgatggctctcagc	14	10	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr8:105456559G>C	uc003yly.3	-	4	839	c.710C>G	c.(709-711)GCC>GGC	p.A237G		NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	237					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CACAGCGCTGGCTATGGTGAT	0.547													22	52	---	---	---	---	PASS	C	105456559	C	C	105456559	3	2	86	1	0	0	0	0	1	0	0	0	4746	1203	42	4	873	4	DPYS	8	105456559	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	53135395	105456559	40907463	125	32761										
CSMD3	114788	broad.mit.edu	37	chr8	113564842	113564842	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cctgacaatatttccaggatCtacctcaatcatccacatgc	4	14	3	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr8:113564842C>T	uc003ynu.2	-	26	4501	c.4342G>A	c.(4342-4344)GAT>AAT	p.D1448N	CSMD3_uc003yns.2_Missense_Mutation_p.D720N|CSMD3_uc003ynt.2_Missense_Mutation_p.D1408N|CSMD3_uc011lhx.1_Missense_Mutation_p.D1344N	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1448	Extracellular (Potential).|CUB 8.					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						TTTCCAGGATCTACCTCAATC	0.363										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			10	59	---	---	---	---	PASS	T	113564842	T	T	113564842	3	4	86	1	0	0	0	0	1	0	0	0	3946	913	32	2	6965	2	CSMD3	8	113564842	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	8108283	113564842	32799180	126	32762										
COL14A1	7373	broad.mit.edu	37	chr8	121256238	121256238	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gcgtcagcgtctccgctcctGgaaaaacctgtaagtgaagc	11	12	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr8:121256238G>A	uc003yox.2	+	20	2735	c.2470G>A	c.(2470-2472)GGA>AGA	p.G824R	COL14A1_uc003yoy.2_Missense_Mutation_p.G502R	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	824	Fibronectin type-III 6.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			CTCCGCTCCTGGAAAAACCTG	0.448													22	159	---	---	---	---	PASS	A	121256238	A	A	121256238	3	1	86	1	0	0	0	0	1	0	0	0	3671	1349	47	3	2544	3	COL14A1	8	121256238	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	7691396	121256238	25107784	127	32763										
RECQL4	9401	broad.mit.edu	37	chr8	145738752	145738752	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gccccatcccaaaggccaccGtggccaccaccacccggcaa	8	21	0	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr8:145738752G>A	uc003zdj.2	-	15	2344	c.2312C>T	c.(2311-2313)ACG>ATG	p.T771M		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	771	Helicase C-terminal.				DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			AAAGGCCACCGTGGCCACCAC	0.697			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				3	40	---	---	---	---	PASS	A	145738752	A	A	145738752	3	1	86	1	0	0	0	0	1	0	0	0	13202	1136	40	1	1346	1	RECQL4	8	145738752	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	24482514	145738752	625270	128	32764										
RANBP6	26953	broad.mit.edu	37	chr9	6015178	6015178	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ggagtagattgaatcaataaGaaacttcagaccttccggcc	9	9	2	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr9:6015178G>C	uc003zjr.2	-	1	441	c.430C>G	c.(430-432)CTT>GTT	p.L144V	RANBP6_uc011lmf.1_Intron|RANBP6_uc003zjs.2_Intron	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	144					protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		GAATCAATAAGAAACTTCAGA	0.438													8	53	---	---	---	---	PASS	C	6015178	C	C	6015178	3	2	86	1	0	0	0	0	1	0	0	0	13031	942	33	2	2891	2	RANBP6	9	6015178	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08		6015178	135198253	129	32765										
NFIB	4781	broad.mit.edu	37	chr9	14307521	14307521	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgaatgggtgaaattcatccTgtggaagacagaggggtgag	16	4	1	5			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr9:14307521T>C	uc003zle.2	-	2	466	c.31_splice	c.e2-1	p.D11_splice	NFIB_uc003zlf.2_Splice_Site_p.D11_splice|NFIB_uc011lmo.1_Splice_Site_p.D11_splice	NM_005596	NP_005587	O00712	NFIB_HUMAN	nuclear factor I/B						anterior commissure morphogenesis|chondrocyte differentiation|Clara cell differentiation|commissural neuron axon guidance|DNA replication|glial cell differentiation|lung ciliated cell differentiation|negative regulation of DNA binding|negative regulation of epithelial cell proliferation involved in lung morphogenesis|negative regulation of mesenchymal cell proliferation involved in lung development|positive regulation of transcription from RNA polymerase II promoter|principal sensory nucleus of trigeminal nerve development|Type I pneumocyte differentiation|Type II pneumocyte differentiation	cerebellar mossy fiber|nucleolus|nucleus	RNA polymerase II transcription corepressor activity|sequence-specific DNA binding RNA polymerase II transcription factor activity				0				GBM - Glioblastoma multiforme(50;4.4e-08)|LUAD - Lung adenocarcinoma(58;0.119)|Lung(218;0.164)		AAATTCATCCTGTGGAAGACA	0.408			T	MYB|HGMA2	adenoid cystic carcinoma|lipoma								16	41	---	---	---	---	PASS	C	14307521	C	C	14307521	5	2	86	1	0	0	0	0	0	0	1	0	10371	1594	55	5	1265	5	NFIB	9	14307521	Splice_Site	SNP	T	TCGA-39-5024-01A-21D-1817-08	8292343	14307521	126905910	130	32766										
HAUS6	54801	broad.mit.edu	37	chr9	19063106	19063106	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctgtattctttgcaacatctGataatggagaattttccact	6	8	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr9:19063106G>C	uc003znk.2	-	14	1782	c.1529C>G	c.(1528-1530)TCA>TGA	p.S510*	HAUS6_uc011lmz.1_Nonsense_Mutation_p.S230*|HAUS6_uc003znl.1_Nonsense_Mutation_p.S374*|HAUS6_uc003znm.1_Nonsense_Mutation_p.S265*	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	510					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						TGCAACATCTGATAATGGAGA	0.363													10	98	---	---	---	---	PASS	C	19063106	C	C	19063106	4	2	86	1	0	0	0	0	0	1	0	0	6970	1294	45	2	1354	2	HAUS6	9	19063106	Nonsense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	4755585	19063106	122150325	131	32767										
SLC24A2	25769	broad.mit.edu	37	chr9	19786143	19786143	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	caacaatgtagaaagacacaTctcgaaagagcggccaccat	8	11	1	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr9:19786143T>C	uc003zoa.1	-	1	784	c.722A>G	c.(721-723)GAT>GGT	p.D241G	SLC24A2_uc003zob.1_Missense_Mutation_p.D241G	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	241	Cytoplasmic (Potential).				visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		GAAAGACACATCTCGAAAGAG	0.388													26	47	---	---	---	---	PASS	C	19786143	C	C	19786143	3	2	86	1	0	0	0	0	1	0	0	0	14466	1435	50	5	1303	5	SLC24A2	9	19786143	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	723037	19786143	121427288	132	32768										
PRSS3	5646	broad.mit.edu	37	chr9	33796728	33796728	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctaccaggtgtccctgaattCtggctcccacttctgcggtg	10	14	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr9:33796728C>G	uc003ztj.3	+	2	299	c.299C>G	c.(298-300)TCT>TGT	p.S100C	uc003ztk.1_Intron|PRSS3_uc003zti.3_Missense_Mutation_p.S57C|PRSS3_uc003ztl.3_Missense_Mutation_p.S43C	NM_007343	NP_031369	P35030	TRY3_HUMAN	mesotrypsin isoform 1 preproprotein	100	Peptidase S1.				digestion|endothelial cell migration|zymogen activation	extracellular space	calcium ion binding|protein binding|serine-type endopeptidase activity|serine-type peptidase activity				0			LUSC - Lung squamous cell carcinoma(29;0.0176)			TCCCTGAATTCTGGCTCCCAC	0.547													8	307	---	---	---	---	PASS	G	33796728	G	G	33796728	3	3	86	1	0	0	0	0	1	0	0	0	12622	913	32	2	349	2	PRSS3	9	33796728	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	14010585	33796728	107416703	133	32769										
TLN1	7094	broad.mit.edu	37	chr9	35710635	35710635	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tccaaactctggcaggtttcCgttcttggcattttgggaga	11	9	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr9:35710635C>T	uc003zxt.2	-	33	4603	c.4249G>A	c.(4249-4251)GGA>AGA	p.G1417R		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1417	Interaction with SYNM.				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GGCAGGTTTCCGTTCTTGGCA	0.547													10	61	---	---	---	---	PASS	T	35710635	T	T	35710635	3	4	86	1	0	0	0	0	1	0	0	0	15944	661	23	1	3476	1	TLN1	9	35710635	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	1913907	35710635	105502796	134	32770										
MAMDC4	158056	broad.mit.edu	37	chr9	139751491	139751491	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccacctccatgggccccagaTtggtgagtggacctggaaac	12	13	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr9:139751491T>A	uc004cjs.2	+	16	2020	c.1970T>A	c.(1969-1971)ATT>AAT	p.I657N	MAMDC4_uc011mej.1_Translation_Start_Site	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	736	MAM 4.|Extracellular (Potential).				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		GGGCCCCAGATTGGTGAGTGG	0.662													5	35	---	---	---	---	PASS	A	139751491	A	A	139751491	3	1	86	1	0	0	0	0	1	0	0	0	9204	1493	52	5	2032	5	MAMDC4	9	139751491	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	104040856	139751491	1461940	135	32771										
FAM166A	401565	broad.mit.edu	37	chr9	140139670	140139670	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atccctctggcagtggtacaGctggagcggggaggaagcgg	18	9	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr9:140139670G>C	uc004cmi.1	-	4	578	c.523C>G	c.(523-525)CTG>GTG	p.L175V		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	175										ovary(1)	1						CAGTGGTACAGCTGGAGCGGG	0.692													10	55	---	---	---	---	PASS	C	140139670	C	C	140139670	3	2	86	1	0	0	0	0	1	0	0	0	5481	985	34	4	446	4	FAM166A	9	140139670	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	388179	140139670	1073761	136	32772										
LARP4B	23185	broad.mit.edu	37	chr10	909706	909706	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tctcgctattttcaggcagaGagtcatattctgagggaccc	10	10	4	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr10:909706G>C	uc001ifs.1	-	4	448	c.407C>G	c.(406-408)TCT>TGT	p.S136C		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	136							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						TTCAGGCAGAGAGTCATATTC	0.468													12	103	---	---	---	---	PASS	C	909706	C	C	909706	3	2	86	1	0	0	0	0	1	0	0	0	8631	942	33	2	1865	2	LARP4B	10	909706	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08		909706	134625041	137	32773										
SLC16A9	220963	broad.mit.edu	37	chr10	61414243	61414243	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cagactgccacaggctaataTatttaaagctaaagcaccca	6	11	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr10:61414243T>C	uc010qig.1	-	5	990	c.541A>G	c.(541-543)ATA>GTA	p.I181V		NM_194298	NP_919274	Q7RTY1	MOT9_HUMAN	solute carrier family 16 (monocarboxylic acid	181	Helical; (Potential).				urate metabolic process	integral to membrane|plasma membrane	symporter activity			skin(2)|ovary(1)	3						CAGGCTAATATATTTAAAGCT	0.423													69	97	---	---	---	---	PASS	C	61414243	C	C	61414243	3	2	86	1	0	0	0	0	1	0	0	0	14415	1406	49	5	996	5	SLC16A9	10	61414243	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	60504537	61414243	74120504	138	32774										
JMJD1C	221037	broad.mit.edu	37	chr10	64967767	64967767	+	Missense_Mutation	SNP	T	A	A													0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aaagactactatagctgcctTcctttctttccaggctgtga							TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr10:64967767T>A	uc001jmn.2	-	10	3962	c.3662A>T	c.(3661-3663)GAA>GTA	p.E1221V	JMJD1C_uc001jml.2_Missense_Mutation_p.E1002V|JMJD1C_uc001jmm.2_Missense_Mutation_p.E933V|JMJD1C_uc010qiq.1_Missense_Mutation_p.E1039V|JMJD1C_uc009xpi.2_Missense_Mutation_p.E1039V|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Missense_Mutation_p.E258V	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1221					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					ATAGCTGCCTTCCTTTCTTTC	0.438													17	137	---	---	---	---	PASS	A	64967767	A	A	64967767	3	1	86	1	0	0	0	0	1	0	0	0	7950	1783	62	5	4028	5	JMJD1C	10	64967767	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	3553524	64967767	70566980	139	32775	644	2								
JMJD1C	221037	broad.mit.edu	37	chr10	64967768	64967768	+	Nonsense_Mutation	SNP	C	A	A													0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aagactactatagctgccttCctttctttccaggctgtgat							TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr10:64967768C>A	uc001jmn.2	-	10	3961	c.3661G>T	c.(3661-3663)GAA>TAA	p.E1221*	JMJD1C_uc001jml.2_Nonsense_Mutation_p.E1002*|JMJD1C_uc001jmm.2_Nonsense_Mutation_p.E933*|JMJD1C_uc010qiq.1_Nonsense_Mutation_p.E1039*|JMJD1C_uc009xpi.2_Nonsense_Mutation_p.E1039*|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Nonsense_Mutation_p.E258*	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1221					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TAGCTGCCTTCCTTTCTTTCC	0.443													17	140	---	---	---	---	PASS	A	64967768	A	A	64967768	4	1	86	1	0	0	0	0	0	1	0	0	7950	864	30	2	4029	2	JMJD1C	10	64967768	Nonsense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	1	64967768	70566979	140	32776	644	2								
PTEN	5728	broad.mit.edu	37	chr10	89692902	89692902	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcactgtaaagctggaaaggGacgaactggtgtaatgatat	12	5	1	1	rs121909218		TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr10:89692902G>A	uc001kfb.2	+	6	1417	c.386G>A	c.(385-387)GGA>GAA	p.G129E		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	129	Phosphatase tensin-type.		G -> E (in CD; no lipid phosphatase activity but retains protein phosphatase activity; retains ability to inhibit focal adhesion formation).|G -> R (in glioblastoma; severely reduced protein phosphatase activity; loss of phosphatase activity towards Ins(1,3,4,5)P4).		activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.G129R(6)|p.R55fs*1(4)|p.G129*(3)|p.K128_R130del(3)|p.?(2)|p.Y27fs*1(2)|p.Y27_N212>Y(2)|p.G129V(1)|p.K128fs*47(1)|p.A121_F145del(1)|p.G129E(1)|p.G129fs*5(1)|p.G127fs*5(1)|p.G129fs*50(1)|p.F56fs*2(1)|p.G129fs*51(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		GCTGGAAAGGGACGAACTGGT	0.413		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			43	90	---	---	---	---	PASS	A	89692902	A	A	89692902	3	1	86	1	0	0	0	0	1	0	0	0	12738	1174	41	2	404	2	PTEN	10	89692902	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	24725134	89692902	45841845	141	32777										
PNPLA2	57104	broad.mit.edu	37	chr11	822471	822471	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	accatcacagtgtcccccttCtcgggcgagagtgacatctg	10	14	3	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:822471C>T	uc001lrt.2	+	5	763	c.561C>T	c.(559-561)TTC>TTT	p.F187F	PNPLA2_uc009ycl.2_5'Flank	NM_020376	NP_065109	Q96AD5	PLPL2_HUMAN	patatin-like phospholipase domain containing 2	187	Lumenal (Potential).				negative regulation of sequestering of triglyceride|positive regulation of triglyceride catabolic process	integral to membrane|lipid particle|plasma membrane	triglyceride lipase activity				0		all_cancers(49;4.75e-06)|all_epithelial(84;0.00204)|Breast(177;0.00234)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.63e-25)|Epithelial(43;1.28e-24)|OV - Ovarian serous cystadenocarcinoma(40;7.09e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGTCCCCCTTCTCGGGCGAGA	0.572													11	141	---	---	---	---	PASS	T	822471	T	T	822471	2	4	86	1	0	0	0	0	0	0	0	1	12165	912	32	2		2	PNPLA2	11	822471	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08		822471	134184045	142	32778										
OR52B2	255725	broad.mit.edu	37	chr11	6190816	6190816	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	taaaacataaggatgacacaGaggtgggagccacaagtgct	12	7	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:6190816G>A	uc010qzy.1	-	1	741	c.741C>T	c.(739-741)CTC>CTT	p.L247L		NM_001004052	NP_001004052	Q96RD2	O52B2_HUMAN	olfactory receptor, family 52, subfamily B,	247	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;3.69e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGATGACACAGAGGTGGGAGC	0.488													7	60	---	---	---	---	PASS	A	6190816	A	A	6190816	2	1	86	1	0	0	0	0	0	0	0	1	11111	929	33	2		2	OR52B2	11	6190816	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	5368345	6190816	128815700	143	32779										
MRGPRX1	259249	broad.mit.edu	37	chr11	18955526	18955526	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccacgaagaagtaaatgatgGggttggcactgctgttaaga	13	6	0	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:18955526G>A	uc001mpg.2	-	1	1024	c.806C>T	c.(805-807)CCC>CTC	p.P269L		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	269	Helical; Name=7; (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						GTAAATGATGGGGTTGGCACT	0.468													13	120	---	---	---	---	PASS	A	18955526	A	A	18955526	3	1	86	1	0	0	0	0	1	0	0	0	9766	1232	43	3	166	3	MRGPRX1	11	18955526	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	12764710	18955526	116050990	144	32780										
LGR4	55366	broad.mit.edu	37	chr11	27390301	27390301	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccggaactgtttgagatgatTgctcttcccatttttcatta	7	9	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:27390301T>G	uc001mrj.3	-	18	2454	c.1969A>C	c.(1969-1971)AAT>CAT	p.N657H	LGR4_uc001mrk.3_Missense_Mutation_p.N633H	NM_018490	NP_060960	Q9BXB1	LGR4_HUMAN	leucine-rich repeat-containing G protein-coupled	657	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1						TTGAGATGATTGCTCTTCCCA	0.413													13	53	---	---	---	---	PASS	G	27390301	G	G	27390301	3	3	86	1	0	0	0	0	1	0	0	0	8756	1812	63	5	890	5	LGR4	11	27390301	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	8434775	27390301	107616215	145	32781										
API5	8539	broad.mit.edu	37	chr11	43350426	43350426	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aaactgaatgcagaaaagctCaaagatttcaaaatcaggtg	8	6	3	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:43350426C>G	uc010rfh.1	+	9	1283	c.1110C>G	c.(1108-1110)CTC>CTG	p.L370L	API5_uc010rfg.1_Silent_p.L359L|API5_uc001mxf.2_Silent_p.L370L|API5_uc010rfi.1_Silent_p.L316L|API5_uc001mxg.2_Silent_p.L244L	NM_001142930	NP_001136402	Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5 isoform a	370	Leucine-zipper.				anti-apoptosis|apoptosis	cytoplasm|spliceosomal complex	fibroblast growth factor binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						CAGAAAAGCTCAAAGATTTCA	0.398													13	58	---	---	---	---	PASS	G	43350426	G	G	43350426	2	3	86	1	0	0	0	0	0	0	0	1	773	813	29	2		2	API5	11	43350426	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	15960125	43350426	91656090	146	32782										
ARFGAP2	84364	broad.mit.edu	37	chr11	47188328	47188328	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tacctctgcatccacctcccGcccaaagaacatgtcagatg	6	16	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:47188328G>A	uc001ndt.2	-	13	1330	c.1315C>T	c.(1315-1317)CGG>TGG	p.R439W	ARFGAP2_uc010rha.1_Missense_Mutation_p.R170W|ARFGAP2_uc010rhb.1_Missense_Mutation_p.R411W|ARFGAP2_uc001ndu.2_Missense_Mutation_p.R303W|ARFGAP2_uc010rhc.1_Missense_Mutation_p.R170W	NM_032389	NP_115765	Q8N6H7	ARFG2_HUMAN	ADP-ribosylation factor GTPase activating	439	Required for interaction with coatomer.				protein transport|regulation of ARF GTPase activity|vesicle-mediated transport	Golgi membrane|nucleolus|plasma membrane	ARF GTPase activator activity|zinc ion binding			ovary(1)	1						TCCACCTCCCGCCCAAAGAAC	0.597													12	169	---	---	---	---	PASS	A	47188328	A	A	47188328	3	1	86	1	0	0	0	0	1	0	0	0	850	1086	38	1	266	1	ARFGAP2	11	47188328	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	3837902	47188328	87818188	147	32783										
OR8H2	390151	broad.mit.edu	37	chr11	55872908	55872908	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gcagcgatctgcagtcctctAcactacacagttattatgtc	7	12	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:55872908A>G	uc010riy.1	+	1	390	c.390A>G	c.(388-390)CTA>CTG	p.L130L		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					GCAGTCCTCTACACTACACAG	0.468										HNSCC(53;0.14)			25	201	---	---	---	---	PASS	G	55872908	G	G	55872908	2	3	86	1	0	0	0	0	0	0	0	1	11238	378	14	5		5	OR8H2	11	55872908	Silent	SNP	A	TCGA-39-5024-01A-21D-1817-08	8684580	55872908	79133608	148	32784										
OR4D10	390197	broad.mit.edu	37	chr11	59245380	59245380	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ttgtccactccatcgtgcagAtttccctgttgctcccactc	6	16	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:59245380A>G	uc001nnz.1	+	1	478	c.478A>G	c.(478-480)ATT>GTT	p.I160V		NM_001004705	NP_001004705	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D,	160	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						CATCGTGCAGATTTCCCTGTT	0.532													22	125	---	---	---	---	PASS	G	59245380	G	G	59245380	3	3	86	1	0	0	0	0	1	0	0	0	11054	333	12	5	480	5	OR4D10	11	59245380	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	3372472	59245380	75761136	149	32785										
MS4A6A	64231	broad.mit.edu	37	chr11	59939686	59939686	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gagtcatttttgaggacatgCcagaattaccaatgtaactg	9	7	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:59939686C>T	uc001nor.2	-	7	930	c.692G>A	c.(691-693)GGC>GAC	p.G231D	MS4A6A_uc001noq.2_3'UTR|MS4A6A_uc001nos.3_Missense_Mutation_p.G259D|MS4A6A_uc009ymv.2_Missense_Mutation_p.G231D	NM_152852	NP_690591	Q9H2W1	M4A6A_HUMAN	membrane-spanning 4-domains, subfamily A, member	231	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						TGAGGACATGCCAGAATTACC	0.328													23	181	---	---	---	---	PASS	T	59939686	T	T	59939686	3	4	86	1	0	0	0	0	1	0	0	0	9864	739	26	3	58	3	MS4A6A	11	59939686	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	694306	59939686	75066830	150	32786										
SF3B2	10992	broad.mit.edu	37	chr11	65835515	65835515	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccacatttatgacatgtccaCggtgagtacttggaggatac	10	9	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:65835515C>T	uc001ogy.1	+	20	2469	c.2429C>T	c.(2428-2430)ACG>ATG	p.T810M	PACS1_uc001ogz.1_5'Flank|PACS1_uc001oha.1_5'Flank	NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	810					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						GACATGTCCACGGTGAGTACT	0.512											OREG0021094	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	122	---	---	---	---	PASS	T	65835515	T	T	65835515	3	4	86	1	0	0	0	0	1	0	0	0	14151	550	19	1	2507	1	SF3B2	11	65835515	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	5895829	65835515	69171001	151	32787										
DYNC2H1	79659	broad.mit.edu	37	chr11	103091471	103091471	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	attcttgaaggagttttaagGttgatgggtatctttgatac	11	3	2	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:103091471G>C	uc001pho.2	+	57	9210	c.9066G>C	c.(9064-9066)AGG>AGC	p.R3022S	DYNC2H1_uc001phn.1_Missense_Mutation_p.R3022S|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3022	Stalk (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		GAGTTTTAAGGTTGATGGGTA	0.358													9	85	---	---	---	---	PASS	C	103091471	C	C	103091471	3	2	86	1	0	0	0	0	1	0	0	0	4846	1252	44	4	9292	4	DYNC2H1	11	103091471	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	37255956	103091471	31915045	152	32788										
TTC36	143941	broad.mit.edu	37	chr11	118398237	118398237	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctccaaatgatcaggcagtgCtgcaggccatcttcaaccct	8	14	3	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:118398237C>T	uc001ptg.1	+	1	28	c.28C>T	c.(28-30)CTG>TTG	p.L10L	TTC36_uc010ryb.1_RNA|TTC36_uc010ryc.1_5'UTR	NM_001080441	NP_001073910	A6NLP5	TTC36_HUMAN	tetratricopeptide repeat domain 36	10							binding				0						TCAGGCAGTGCTGCAGGCCAT	0.527													33	152	---	---	---	---	PASS	T	118398237	T	T	118398237	2	4	86	1	0	0	0	0	0	0	0	1	16701	796	28	3		3	TTC36	11	118398237	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	15306766	118398237	16608279	153	32789										
SCN3B	55800	broad.mit.edu	37	chr11	123524489	123524489	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	acgagagaagccaggggaaaCaatctattgaaggcaggcat	13	7	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr11:123524489C>A	uc001pza.1	-	2	428	c.21G>T	c.(19-21)TTG>TTT	p.L7F	SCN3B_uc001pzb.1_Missense_Mutation_p.L7F	NM_001040151	NP_001035241	Q9NY72	SCN3B_HUMAN	voltage-gated sodium channel beta-3 subunit	7					axon guidance	integral to membrane|plasma membrane	voltage-gated sodium channel activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0227)		CCAGGGGAAACAATCTATTGA	0.512													32	198	---	---	---	---	PASS	A	123524489	A	A	123524489	3	1	86	1	0	0	0	0	1	0	0	0	13919	477	17	3	646	3	SCN3B	11	123524489	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	5126252	123524489	11482027	154	32790										
KDM5A	5927	broad.mit.edu	37	chr12	495116	495116	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gaaacgaaagctttttacttCacaggcaaatggaggctgcc	10	9	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr12:495116C>G	uc001qif.1	-	2	553	c.190G>C	c.(190-192)GAA>CAA	p.E64Q	KDM5A_uc001qie.1_Missense_Mutation_p.E64Q|KDM5A_uc010sdn.1_Missense_Mutation_p.E64Q|KDM5A_uc010sdo.1_Intron	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	64					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						CTTTTTACTTCACAGGCAAAT	0.368			T 	NUP98	AML								16	79	---	---	---	---	PASS	G	495116	G	G	495116	3	3	86	1	0	0	0	0	1	0	0	0	8133	835	29	2	4990	2	KDM5A	12	495116	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08		495116	133356779	155	32791										
C1S	716	broad.mit.edu	37	chr12	7172571	7172571	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	attttgatgtggaagcagctGactcagcgggaaactgcctt	12	8	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr12:7172571G>A	uc001qsj.2	+	9	1404	c.685G>A	c.(685-687)GAC>AAC	p.D229N	C1S_uc001qsk.2_Missense_Mutation_p.D229N|C1S_uc001qsl.2_Missense_Mutation_p.D229N|C1S_uc009zfr.2_Missense_Mutation_p.D62N|C1S_uc009zfs.2_RNA	NM_201442	NP_958850	P09871	C1S_HUMAN	complement component 1, s subcomponent	229	CUB 2.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity			skin(1)	1					Abciximab(DB00054)|Adalimumab(DB00051)|Basiliximab(DB00074)|Cetuximab(DB00002)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Rituximab(DB00073)|Trastuzumab(DB00072)	GGAAGCAGCTGACTCAGCGGG	0.463													18	192	---	---	---	---	PASS	A	7172571	A	A	7172571	3	1	86	1	0	0	0	0	1	0	0	0	1974	1290	45	2	703	2	C1S	12	7172571	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	6677455	7172571	126679324	156	32792										
PTPRO	5800	broad.mit.edu	37	chr12	15650234	15650234	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tataaaccttctcctgaaacAggagtcctgtttgaaataca	6	9	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr12:15650234A>C	uc001rcv.1	+	3	579	c.405A>C	c.(403-405)ACA>ACC	p.T135T	PTPRO_uc001rcw.1_Silent_p.T135T|PTPRO_uc001rcu.1_Silent_p.T135T	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	135	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)				CTCCTGAAACAGGAGTCCTGT	0.373													26	190	---	---	---	---	PASS	C	15650234	C	C	15650234	2	2	86	1	0	0	0	0	0	0	0	1	12809	175	7	5		5	PTPRO	12	15650234	Silent	SNP	A	TCGA-39-5024-01A-21D-1817-08	8477663	15650234	118201661	157	32793										
C12orf35	55196	broad.mit.edu	37	chr12	32137042	32137042	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aaggcacctgtcttatacctAcatgaccagctgtcagaact	7	12	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr12:32137042A>T	uc001rks.2	+	4	3567	c.3153A>T	c.(3151-3153)CTA>CTT	p.L1051L		NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	1051										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			TCTTATACCTACATGACCAGC	0.438													31	124	---	---	---	---	PASS	T	32137042	T	T	32137042	2	4	86	1	0	0	0	0	0	0	0	1	1682	378	14	5		5	C12orf35	12	32137042	Silent	SNP	A	TCGA-39-5024-01A-21D-1817-08	16486808	32137042	101714853	158	32794										
RACGAP1	29127	broad.mit.edu	37	chr12	50387974	50387974	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aagaggttctttgaggtttcGaagaaagtcttttagaaggc	12	4	2	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr12:50387974G>A	uc001rvt.2	-	14	1589	c.1279C>T	c.(1279-1281)CGA>TGA	p.R427*	RACGAP1_uc009zlm.1_Nonsense_Mutation_p.R427*|RACGAP1_uc001rvs.2_Nonsense_Mutation_p.R427*|RACGAP1_uc001rvu.2_Nonsense_Mutation_p.R427*	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1	427	Rho-GAP.				blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						TTGAGGTTTCGAAGAAAGTCT	0.378													21	121	---	---	---	---	PASS	A	50387974	A	A	50387974	4	1	86	1	0	0	0	0	0	1	0	0	12977	1066	37	2	643	2	RACGAP1	12	50387974	Nonsense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	18250932	50387974	83463921	159	32795										
HNRNPA1	3178	broad.mit.edu	37	chr12	54678102	54678102	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tggcagaagattttaattagGtaagtaagcacctttttgtg	10	4	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr12:54678102G>T	uc001sfl.2	+	10	1227	c.1123_splice	c.e10+1		HNRNPA1_uc001sfm.2_Splice_Site|HNRNPA1_uc009zng.2_Intron|HNRNPA1_uc009znh.2_Splice_Site|HNRNPA1_uc009zni.2_Splice_Site|HNRNPA1_uc001sfn.2_Splice_Site|HNRNPA1_uc001sfo.3_Splice_Site|HNRNPA1_uc009znj.1_3'UTR	NM_031157	NP_112420	P09651	ROA1_HUMAN	heterogeneous nuclear ribonucleoprotein A1						interspecies interaction between organisms|mRNA transport|nuclear import	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	nucleotide binding|protein binding|single-stranded DNA binding			skin(2)|ovary(1)	3						TTTTAATTAGGTAAGTAAGCA	0.368													7	56	---	---	---	---	PASS	T	54678102	T	T	54678102	5	4	86	1	0	0	0	0	0	0	1	0	7257	1275	44	3		3	HNRNPA1	12	54678102	Splice_Site	SNP	G	TCGA-39-5024-01A-21D-1817-08	4290128	54678102	79173793	160	32796										
OR6C76	390326	broad.mit.edu	37	chr12	55820491	55820491	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cttggctggctggtttcttgGtaatttttccaccactggcc	10	11	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr12:55820491G>C	uc010spm.1	+	1	454	c.454G>C	c.(454-456)GTA>CTA	p.V152L		NM_001005183	NP_001005183	A6NM76	O6C76_HUMAN	olfactory receptor, family 6, subfamily C,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGGTTTCTTGGTAATTTTTCC	0.443													21	116	---	---	---	---	PASS	C	55820491	C	C	55820491	3	2	86	1	0	0	0	0	1	0	0	0	11200	1261	44	4	456	4	OR6C76	12	55820491	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	1142389	55820491	78031404	161	32797										
DPY19L2	283417	broad.mit.edu	37	chr12	64011105	64011105	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cacgtcattaacaaagatgaAgaataataagaagataagta	7	4	1	5			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr12:64011105A>C	uc001srp.1	-	11	1378	c.1197T>G	c.(1195-1197)TCT>TCG	p.S399S	DPY19L2_uc009zqk.1_RNA	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	399					multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		ACAAAGATGAAGAATAATAAG	0.279													6	34	---	---	---	---	PASS	C	64011105	C	C	64011105	2	2	86	1	0	0	0	0	0	0	0	1	4741	59	3	5		5	DPY19L2	12	64011105	Silent	SNP	A	TCGA-39-5024-01A-21D-1817-08	8190614	64011105	69840790	162	32798										
TCTN1	79600	broad.mit.edu	37	chr12	111070361	111070361	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgtgcactgataataaccctGcaggtaagaaagtggtcatt	10	7	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr12:111070361G>C	uc009zvs.2	+	5	817	c.709G>C	c.(709-711)GCA>CCA	p.A237P	TCTN1_uc009zvr.1_RNA|TCTN1_uc001trl.2_RNA|TCTN1_uc001trm.2_Missense_Mutation_p.A177P|TCTN1_uc010syc.1_RNA|TCTN1_uc001tro.2_RNA|TCTN1_uc001trp.3_Missense_Mutation_p.A237P|TCTN1_uc001trn.3_Missense_Mutation_p.A237P|TCTN1_uc001trj.1_Missense_Mutation_p.A181P|TCTN1_uc001trk.3_RNA|HVCN1_uc001trq.1_Intron	NM_001082537	NP_001076006	Q2MV58	TECT1_HUMAN	tectonic family member 1 isoform 2	237					multicellular organismal development	extracellular region					0						TAATAACCCTGCAGGTAAGAA	0.313													28	113	---	---	---	---	PASS	C	111070361	C	C	111070361	3	2	86	1	0	0	0	0	1	0	0	0	15719	1319	46	4	827	4	TCTN1	12	111070361	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	47059256	111070361	22781534	163	32799										
CIT	11113	broad.mit.edu	37	chr12	120195326	120195326	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atttctgttgcctgagttcaGaaatcatctcttcttgggcc	8	10	5	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr12:120195326G>C	uc001txi.1	-	21	2482	c.2429C>G	c.(2428-2430)TCT>TGT	p.S810C	CIT_uc001txh.1_Missense_Mutation_p.S344C|CIT_uc001txj.1_Missense_Mutation_p.S852C	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	810	Potential.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		CCTGAGTTCAGAAATCATCTC	0.527													21	131	---	---	---	---	PASS	C	120195326	C	C	120195326	3	2	86	1	0	0	0	0	1	0	0	0	3438	942	33	2	3762	2	CIT	12	120195326	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	9124965	120195326	13656569	164	32800										
NBEA	26960	broad.mit.edu	37	chr13	35615106	35615106	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ttgacttggagatgaactttAttatccaggatgctgagagt	11	5	0	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr13:35615106A>G	uc001uvb.2	+	3	537	c.331A>G	c.(331-333)ATT>GTT	p.I111V		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	111						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GATGAACTTTATTATCCAGGA	0.383													18	195	---	---	---	---	PASS	G	35615106	G	G	35615106	3	3	86	1	0	0	0	0	1	0	0	0	10187	449	16	5	337	5	NBEA	13	35615106	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08		35615106	79554772	165	32801										
EPSTI1	94240	broad.mit.edu	37	chr13	43462602	43462602	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ggcttttcgaggtcagttgaTgaaggccagataggagtcaa	14	6	2	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr13:43462602T>C	uc001uyw.1	-	13	1093	c.1017A>G	c.(1015-1017)TCA>TCG	p.S339S	EPSTI1_uc001uyx.1_3'UTR	NM_001002264	NP_001002264	Q96J88	ESIP1_HUMAN	epithelial stromal interaction 1 isoform 1	Error:Variant_position_missing_in_Q96J88_after_alignment										ovary(1)	1		Lung NSC(96;3.6e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000528)|BRCA - Breast invasive adenocarcinoma(63;0.0858)		GGTCAGTTGATGAAGGCCAGA	0.368													5	137	---	---	---	---	PASS	C	43462602	C	C	43462602	2	2	86	1	0	0	0	0	0	0	0	1	5198	1451	51	5		5	EPSTI1	13	43462602	Silent	SNP	T	TCGA-39-5024-01A-21D-1817-08	7847496	43462602	71707276	166	32802										
MYCBP2	23077	broad.mit.edu	37	chr13	77672487	77672487	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aaagtacttgaggtgcagacTtcgaccacctcactgtggag	11	10	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr13:77672487T>C	uc001vkf.2	-	57	8779	c.8688A>G	c.(8686-8688)GAA>GAG	p.E2896E	MYCBP2_uc010aev.2_Silent_p.E2300E|MYCBP2_uc001vkg.1_Silent_p.E419E|MYCBP2_uc010aew.2_Silent_p.E282E	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2896					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AGGTGCAGACTTCGACCACCT	0.433													9	127	---	---	---	---	PASS	C	77672487	C	C	77672487	2	2	86	1	0	0	0	0	0	0	0	1	10018	1606	56	5		5	MYCBP2	13	77672487	Silent	SNP	T	TCGA-39-5024-01A-21D-1817-08	34209885	77672487	37497391	167	32803										
MYCBP2	23077	broad.mit.edu	37	chr13	77900608	77900608	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aagggcaccctggggacgcaCctggaggctgggtgtccagc	17	12	0	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr13:77900608C>T	uc001vkf.2	-	2	279	c.188_splice	c.e2+1	p.R63_splice	MYCBP2_uc010aev.2_Intron	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TGGGGACGCACCTGGAGGCTG	0.692													4	39	---	---	---	---	PASS	T	77900608	T	T	77900608	5	4	86	1	0	0	0	0	0	0	1	0	10018	521	18	3	14065	3	MYCBP2	13	77900608	Splice_Site	SNP	C	TCGA-39-5024-01A-21D-1817-08	228121	77900608	37269270	168	32804										
SLITRK1	114798	broad.mit.edu	37	chr13	84455087	84455087	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cagcgttttcagcctgttacCccggaggtcgaggtgggtga	15	10	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr13:84455087C>G	uc001vlk.2	-	1	1442	c.556G>C	c.(556-558)GGT>CGT	p.G186R		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	186	Extracellular (Potential).|LRR 6.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		AGCCTGTTACCCCGGAGGTCG	0.527													5	121	---	---	---	---	PASS	G	84455087	G	G	84455087	3	3	86	1	0	0	0	0	1	0	0	0	14742	623	22	4	1538	4	SLITRK1	13	84455087	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	6554479	84455087	30714791	169	32805										
DZIP1	22873	broad.mit.edu	37	chr13	96293633	96293633	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ttgcactcttccttgagcgtCttgatctcccccgcctgctt	7	16	3	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr13:96293633C>T	uc001vmk.2	-	5	1365	c.513G>A	c.(511-513)AAG>AAA	p.K171K	DZIP1_uc001vml.2_Silent_p.K171K|DZIP1_uc001vmn.2_Silent_p.K160K	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	171					germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			CCTTGAGCGTCTTGATCTCCC	0.602													4	41	---	---	---	---	PASS	T	96293633	T	T	96293633	2	4	86	1	0	0	0	0	0	0	0	1	4863	912	32	2		2	DZIP1	13	96293633	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	11838546	96293633	18876245	170	32806										
MBNL2	10150	broad.mit.edu	37	chr13	97999141	97999141	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cccgcagacagcaccatgatCgacacaagtgacaacaccgt	8	15	0	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr13:97999141C>G	uc010aft.2	+	5	1440	c.624C>G	c.(622-624)ATC>ATG	p.I208M	MBNL2_uc001vmz.2_Missense_Mutation_p.I208M|MBNL2_uc001vna.2_Missense_Mutation_p.I208M|MBNL2_uc001vnb.2_RNA|MBNL2_uc010tij.1_Intron|MBNL2_uc001vnc.2_5'Flank	NM_144778	NP_659002	Q5VZF2	MBNL2_HUMAN	muscleblind-like 2 isoform 1	208					mRNA processing|regulation of RNA splicing|RNA splicing	cytoplasm|nucleus	RNA binding|zinc ion binding				0	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.218)			GCACCATGATCGACACAAGTG	0.527													27	56	---	---	---	---	PASS	G	97999141	G	G	97999141	3	3	86	1	0	0	0	0	1	0	0	0	9354	874	31	2	638	2	MBNL2	13	97999141	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	1705508	97999141	17170737	171	32807										
SLC7A8	23428	broad.mit.edu	37	chr14	23609702	23609702	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gtagggatcaacaagctcctCagtcacgtaattcagaaagt	9	9	4	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr14:23609702C>T	uc001wiz.2	-	5	1492	c.766G>A	c.(766-768)GAG>AAG	p.E256K	SLC7A8_uc001wix.2_Missense_Mutation_p.E53K|SLC7A8_uc010tnk.1_Intron|SLC7A8_uc010tnl.1_Missense_Mutation_p.E151K|SLC7A8_uc001wiy.2_RNA|SLC7A8_uc010akj.2_Missense_Mutation_p.E256K	NM_012244	NP_036376	Q9UHI5	LAT2_HUMAN	solute carrier family 7 (cationic amino acid	256					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)	ACAAGCTCCTCAGTCACGTAA	0.527													6	199	---	---	---	---	PASS	T	23609702	T	T	23609702	3	4	86	1	0	0	0	0	1	0	0	0	14704	835	29	2	869	2	SLC7A8	14	23609702	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08		23609702	83739838	172	32808										
BAZ1A	11177	broad.mit.edu	37	chr14	35231112	35231112	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gactattttctggtgtattaTtagcacttttcctgcctctg	7	9	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr14:35231112T>C	uc001wsk.2	-	24	4662	c.4094A>G	c.(4093-4095)AAT>AGT	p.N1365S	BAZ1A_uc001wsl.2_Missense_Mutation_p.N1333S	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1365					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		TGGTGTATTATTAGCACTTTT	0.428													49	125	---	---	---	---	PASS	C	35231112	C	C	35231112	3	2	86	1	0	0	0	0	1	0	0	0	1329	1493	52	5	592	5	BAZ1A	14	35231112	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	11621410	35231112	72118428	173	32809										
FBXO34	55030	broad.mit.edu	37	chr14	55817179	55817179	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agtcagcagggaaacgcagaGaactcctatgaaccaccaaa	9	11	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr14:55817179G>C	uc001xbu.2	+	2	316	c.71G>C	c.(70-72)AGA>ACA	p.R24T	FBXO34_uc001xbv.2_5'Flank|FBXO34_uc010aoo.2_Missense_Mutation_p.R24T	NM_017943	NP_060413	Q9NWN3	FBX34_HUMAN	F-box only protein 34	24										ovary(2)|lung(2)|skin(1)	5						GAAACGCAGAGAACTCCTATG	0.453													29	58	---	---	---	---	PASS	C	55817179	C	C	55817179	3	2	86	1	0	0	0	0	1	0	0	0	5744	942	33	2	73	2	FBXO34	14	55817179	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	20586067	55817179	51532361	174	32810										
ZFYVE26	23503	broad.mit.edu	37	chr14	68274248	68274248	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cgctcctcccgcaggggactCccctcggtcctgcaggcctc	11	20	0	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr14:68274248C>G	uc001xka.2	-	5	892	c.753G>C	c.(751-753)GGG>GGC	p.G251G	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Silent_p.G251G|ZFYVE26_uc010tta.1_Silent_p.G251G	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	251					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		GCAGGGGACTCCCCTCGGTCC	0.627													17	40	---	---	---	---	PASS	G	68274248	G	G	68274248	2	3	86	1	0	0	0	0	0	0	0	1	17665	842	30	2		2	ZFYVE26	14	68274248	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	12457069	68274248	39075292	175	32811										
ATXN3	4287	broad.mit.edu	37	chr14	92563086	92563086	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tctcatcctctcctcctcatCcagctgatgtgcaattgagg	7	14	3	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr14:92563086C>G	uc001yac.3	-	2	190	c.121G>C	c.(121-123)GAT>CAT	p.D41H	ATXN3_uc010aug.2_Missense_Mutation_p.D41H|ATXN3_uc001yad.3_Intron|ATXN3_uc010auh.2_Missense_Mutation_p.D41H|ATXN3_uc001yae.3_5'UTR|ATXN3_uc010twl.1_Intron	NM_004993	NP_004984	P54252	ATX3_HUMAN	ataxin 3 reference isoform	41	Josephin.				cell death|nervous system development|nucleotide-excision repair|regulation of transcription, DNA-dependent|synaptic transmission|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleoplasm	cysteine-type peptidase activity|protein binding				0		all_cancers(154;0.0768)		COAD - Colon adenocarcinoma(157;0.224)		TCCTCCTCATCCAGCTGATGT	0.398													9	119	---	---	---	---	PASS	G	92563086	G	G	92563086	3	3	86	1	0	0	0	0	1	0	0	0	1213	855	30	2	1004	2	ATXN3	14	92563086	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	24288838	92563086	14786454	176	32812										
DYNC1H1	1778	broad.mit.edu	37	chr14	102499791	102499791	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atctcagaggcccaggccatCaaggcagacctggcagctgt	12	13	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr14:102499791C>T	uc001yks.2	+	54	10547	c.10383C>T	c.(10381-10383)ATC>ATT	p.I3461I		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3461	Stalk (By similarity).|Potential.				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						CCCAGGCCATCAAGGCAGACC	0.537													15	41	---	---	---	---	PASS	T	102499791	T	T	102499791	2	4	86	1	0	0	0	0	0	0	0	1	4841	816	29	2		2	DYNC1H1	14	102499791	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	9936705	102499791	4849749	177	32813										
MARK3	4140	broad.mit.edu	37	chr14	103946810	103946810	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gatagacactcagtgattcaGaatggcaaagaaaacaggta	10	6	2	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr14:103946810G>A	uc001ymz.3	+	14	2235	c.1569G>A	c.(1567-1569)CAG>CAA	p.Q523Q	MARK3_uc001ymx.3_Silent_p.Q523Q|MARK3_uc001ymw.3_Silent_p.Q523Q|MARK3_uc001yna.3_Silent_p.Q507Q|MARK3_uc001ymy.3_Silent_p.Q444Q|MARK3_uc010awp.2_Silent_p.Q546Q|MARK3_uc010tyb.1_Silent_p.Q318Q|MARK3_uc010awq.2_Silent_p.Q53Q	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	523							ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			CAGTGATTCAGAATGGCAAAG	0.373													44	103	---	---	---	---	PASS	A	103946810	A	A	103946810	2	1	86	1	0	0	0	0	0	0	0	1	9314	933	33	2		2	MARK3	14	103946810	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	1447019	103946810	3402730	178	32814										
INO80	54617	broad.mit.edu	37	chr15	41388466	41388466	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atagaggggctttgccagctCagtgcagcctccatcatccc	10	14	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr15:41388466C>T	uc001zni.2	-	2	256	c.43G>A	c.(43-45)GAG>AAG	p.E15K	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	15	Assembles INO80 complex module with putative regulatory components INO80E, INO80F, UCHL5, NFRKB, MCRS1 and IN80D.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						TTTGCCAGCTCAGTGCAGCCT	0.517													4	26	---	---	---	---	PASS	T	41388466	T	T	41388466	3	4	86	1	0	0	0	0	1	0	0	0	7746	835	29	2	4767	2	INO80	15	41388466	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08		41388466	61142926	179	32815										
SPG11	80208	broad.mit.edu	37	chr15	44900797	44900797	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gttttcattttcttcattctGaacaacctaagtaaaaaaac	3	8	4	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr15:44900797G>C	uc001ztx.2	-	19	3329	c.3298C>G	c.(3298-3300)CAG>GAG	p.Q1100E	SPG11_uc010ueh.1_Missense_Mutation_p.Q1100E|SPG11_uc010uei.1_Missense_Mutation_p.Q1100E	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	1100	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		TCTTCATTCTGAACAACCTAA	0.363													9	30	---	---	---	---	PASS	C	44900797	C	C	44900797	3	2	86	1	0	0	0	0	1	0	0	0	15040	1299	45	2	4121	2	SPG11	15	44900797	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	3512331	44900797	57630595	180	32816										
SLC27A2	11001	broad.mit.edu	37	chr15	50515285	50515285	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atgagttctatgctgccactGaaggcaatattggatttatg	10	6	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr15:50515285G>A	uc001zxw.2	+	5	1328	c.1096G>A	c.(1096-1098)GAA>AAA	p.E366K	SLC27A2_uc010bes.2_Missense_Mutation_p.E313K|SLC27A2_uc001zxx.2_Missense_Mutation_p.E131K	NM_003645	NP_003636	O14975	S27A2_HUMAN	solute carrier family 27 (fatty acid	366	Cytoplasmic (Potential).				bile acid biosynthetic process|fatty acid alpha-oxidation	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity|phytanate-CoA ligase activity|pristanate-CoA ligase activity			ovary(1)|skin(1)	2		all_lung(180;0.00177)		all cancers(107;1.16e-06)|GBM - Glioblastoma multiforme(94;0.000113)		TGCTGCCACTGAAGGCAATAT	0.408													8	86	---	---	---	---	PASS	A	50515285	A	A	50515285	3	1	86	1	0	0	0	0	1	0	0	0	14526	1291	45	2	1114	2	SLC27A2	15	50515285	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	5614488	50515285	52016107	181	32817										
C15orf60	283677	broad.mit.edu	37	chr15	73852096	73852096	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ttctggtatccctgcagactCttctggcatcggaggagctg	12	11	3	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr15:73852096C>G	uc002avq.2	+	6	668	c.640C>G	c.(640-642)CTT>GTT	p.L214V	C15orf60_uc010bjb.2_Missense_Mutation_p.L186V	NM_001042367	NP_001035826	Q7Z4M0	CO060_HUMAN	hypothetical protein LOC283677	214										pancreas(1)	1						CCTGCAGACTCTTCTGGCATC	0.453													9	80	---	---	---	---	PASS	G	73852096	G	G	73852096	3	3	86	1	0	0	0	0	1	0	0	0	1808	913	32	2	662	2	C15orf60	15	73852096	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	23336811	73852096	28679296	182	32818										
TBC1D21	161514	broad.mit.edu	37	chr15	74173766	74173766	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agaaaaccacccattgacaaGacagaatgggacagcttctt	8	10	1	4			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr15:74173766G>C	uc002avz.2	+	2	170	c.87G>C	c.(85-87)AAG>AAC	p.K29N	TBC1D21_uc010ulc.1_Intron	NM_153356	NP_699187	Q8IYX1	TBC21_HUMAN	TBC1 domain family, member 21	29						intracellular	Rab GTPase activator activity			ovary(2)	2						CCATTGACAAGACAGAATGGG	0.433													15	105	---	---	---	---	PASS	C	74173766	C	C	74173766	3	2	86	1	0	0	0	0	1	0	0	0	15607	933	33	2	93	2	TBC1D21	15	74173766	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	321670	74173766	28357626	183	32819										
ACSBG1	23205	broad.mit.edu	37	chr15	78474488	78474488	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	taccgtgccgtccacgtgatCtggaggacaagtagatggat	13	9	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr15:78474488C>G	uc002bdh.2	-	8	951	c.895_splice	c.e8-1	p.I299_splice	ACSBG1_uc010umw.1_Splice_Site_p.I295_splice|ACSBG1_uc010umx.1_Splice_Site_p.I57_splice|ACSBG1_uc010umy.1_Splice_Site_p.I192_splice	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin						long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						TCCACGTGATCTGGAGGACAA	0.652													5	36	---	---	---	---	PASS	G	78474488	G	G	78474488	5	3	86	1	0	0	0	0	0	0	1	0	173	927	32	2	1308	2	ACSBG1	15	78474488	Splice_Site	SNP	C	TCGA-39-5024-01A-21D-1817-08	4300722	78474488	24056904	184	32820										
CHD2	1106	broad.mit.edu	37	chr15	93547926	93547926	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tattacagcaggaagtgaacCtgtccccattggagaggatg	12	8	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr15:93547926C>G	uc002bsp.2	+	34	4933	c.4358C>G	c.(4357-4359)CCT>CGT	p.P1453R	CHD2_uc002bso.1_Missense_Mutation_p.P1453R	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1453					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			GGAAGTGAACCTGTCCCCATT	0.473													4	155	---	---	---	---	PASS	G	93547926	G	G	93547926	3	3	86	1	0	0	0	0	1	0	0	0	3325	681	24	4	4492	4	CHD2	15	93547926	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	15073438	93547926	8983466	185	32821										
TIGD7	91151	broad.mit.edu	37	chr16	3349552	3349552	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ttgctcatcatcactttcttCaaatattacaagactctctt	2	11	6	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr16:3349552C>G	uc002cus.2	-	1	1849	c.1063G>C	c.(1063-1065)GAA>CAA	p.E355Q	ZNF263_uc002cur.2_3'UTR	NM_033208	NP_149985	Q6NT04	TIGD7_HUMAN	tigger transposable element derived 7	355	DDE.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						TCACTTTCTTCAAATATTACA	0.274													11	79	---	---	---	---	PASS	G	3349552	G	G	3349552	3	3	86	1	0	0	0	0	1	0	0	0	15898	835	29	2	590	2	TIGD7	16	3349552	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08		3349552	87005201	186	32822										
MYH11	4629	broad.mit.edu	37	chr16	15853504	15853504	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ttgccgatgggtcttgtccaGggctttgttcacgcgggtga	15	9	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr16:15853504G>A	uc002ddy.2	-	12	1437	c.1330C>T	c.(1330-1332)CTG>TTG	p.L444L	MYH11_uc002ddv.2_Silent_p.L451L|MYH11_uc002ddw.2_Silent_p.L444L|MYH11_uc002ddx.2_Silent_p.L451L|MYH11_uc010bvg.2_Silent_p.L276L|MYH11_uc002dea.1_Silent_p.L150L	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	444	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						GTCTTGTCCAGGGCTTTGTTC	0.552			T	CBFB	AML								24	111	---	---	---	---	PASS	A	15853504	A	A	15853504	2	1	86	1	0	0	0	0	0	0	0	1	10031	991	35	3		3	MYH11	16	15853504	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	12503952	15853504	74501249	187	32823										
C16orf62	57020	broad.mit.edu	37	chr16	19603129	19603129	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tagtgttcaaagcttctttcAgacaccagtgttattcagtt	7	8	4	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr16:19603129A>G	uc002dgn.1	+	8	669	c.657A>G	c.(655-657)TCA>TCG	p.S219S	C16orf62_uc002dgo.1_Silent_p.S219S|C16orf62_uc002dgp.1_Intron|C16orf62_uc010vas.1_Silent_p.S93S|C16orf62_uc002dgm.1_Silent_p.S219S	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	219						integral to membrane				ovary(1)	1						AGCTTCTTTCAGACACCAGTG	0.368													13	98	---	---	---	---	PASS	G	19603129	G	G	19603129	2	3	86	1	0	0	0	0	0	0	0	1	1825	175	7	5		5	C16orf62	16	19603129	Silent	SNP	A	TCGA-39-5024-01A-21D-1817-08	3749625	19603129	70751624	188	32824										
NFATC2IP	84901	broad.mit.edu	37	chr16	28967599	28967599	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccaccctcccagagacccccCgactcttcccactcaaaatc	3	22	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr16:28967599C>T	uc002dru.2	+	5	802	c.787C>T	c.(787-789)CGA>TGA	p.R263*	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Intron|NFATC2IP_uc002drv.2_5'UTR|NFATC2IP_uc010vdh.1_5'Flank	NM_032815	NP_116204	Q8NCF5	NF2IP_HUMAN	nuclear factor of activated T-cells,	263						cytoplasm|nucleus				ovary(1)	1						AGAGACCCCCCGACTCTTCCC	0.622													5	42	---	---	---	---	PASS	T	28967599	T	T	28967599	4	4	86	1	0	0	0	0	0	1	0	0	10363	644	23	1	805	1	NFATC2IP	16	28967599	Nonsense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	9364470	28967599	61387154	189	32825										
ADCY7	113	broad.mit.edu	37	chr16	50346817	50346817	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccaggactggtaccatcagtCctatgactgcgtctgtgtca	10	12	3	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr16:50346817C>T	uc002egd.1	+	21	2889	c.2621C>T	c.(2620-2622)TCC>TTC	p.S874F		NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	874	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	TACCATCAGTCCTATGACTGC	0.547													12	80	---	---	---	---	PASS	T	50346817	T	T	50346817	3	4	86	1	0	0	0	0	1	0	0	0	299	855	30	2	2703	2	ADCY7	16	50346817	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	21379218	50346817	40007936	190	32826										
CAMTA2	23125	broad.mit.edu	37	chr17	4883886	4883886	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agatgatgcggtgtttcgtgCtgctgcatttgtgggtaagg	16	5	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr17:4883886C>T	uc002gah.1	-	9	839	c.731G>A	c.(730-732)AGC>AAC	p.S244N	CAMTA2_uc010cku.1_Missense_Mutation_p.S267N|CAMTA2_uc002gag.1_Missense_Mutation_p.S243N|CAMTA2_uc002gai.1_Missense_Mutation_p.S246N|CAMTA2_uc010ckv.1_5'UTR|CAMTA2_uc010vsu.1_Missense_Mutation_p.S57N	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	244					cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						GTGTTTCGTGCTGCTGCATTT	0.572											OREG0024111	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	101	---	---	---	---	PASS	T	4883886	T	T	4883886	3	4	86	1	0	0	0	0	1	0	0	0	2614	797	28	3	2987	3	CAMTA2	17	4883886	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08		4883886	76311324	191	32827										
C17orf74	201243	broad.mit.edu	37	chr17	7330607	7330607	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cctcccagccctggcccaaaGtccaggctgcggaccctgcc	10	20	0	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr17:7330607G>A	uc002ggw.2	+	3	1370	c.1297G>A	c.(1297-1299)GTC>ATC	p.V433I	FGF11_uc010vtw.1_Intron	NM_175734	NP_783861	Q0P670	CQ074_HUMAN	hypothetical protein LOC201243	433						integral to membrane					0		Prostate(122;0.157)				CTGGCCCAAAGTCCAGGCTGC	0.642													6	40	---	---	---	---	PASS	A	7330607	A	A	7330607	3	1	86	1	0	0	0	0	1	0	0	0	1879	1029	36	3	1307	3	C17orf74	17	7330607	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	2446721	7330607	73864603	192	32828										
TP53	7157	broad.mit.edu	37	chr17	7576928	7576928	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctggtgttgttgggcagtgcTaggaaagaggcaaggaaagg	18	4	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr17:7576928T>A	uc002gim.2	-	9	1114	c.920_splice	c.e9-1	p.A307_splice	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Splice_Site_p.A307_splice|TP53_uc010cne.1_Splice_Site|TP53_uc010cnf.1_Splice_Site_p.A175_splice|TP53_uc010cng.1_Splice_Site_p.A175_splice|TP53_uc002gii.1_Splice_Site_p.A175_splice|TP53_uc010cnh.1_Splice_Site_p.A307_splice|TP53_uc010cni.1_Splice_Site_p.A307_splice|TP53_uc002gij.2_Splice_Site_p.A307_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						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.?(14)|p.0?(7)|p.A307fs*34(1)|p.L308fs*31(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)		TGGGCAGTGCTAGGAAAGAGG	0.493		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)			17	48	---	---	---	---	PASS	A	7576928	A	A	7576928	5	1	86	1	0	0	0	0	0	0	1	0	16378	1536	53	5	364	5	TP53	17	7576928	Splice_Site	SNP	T	TCGA-39-5024-01A-21D-1817-08	246321	7576928	73618282	193	32829										
ELAC2	60528	broad.mit.edu	37	chr17	12908318	12908318	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctcattacctctgaaaggtgGcattctcacagatgggttga	10	9	3	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr17:12908318G>A	uc002gnz.3	-	11	1066	c.971C>T	c.(970-972)GCC>GTC	p.A324V	ELAC2_uc002gnv.3_5'Flank|ELAC2_uc002gnw.3_5'UTR|ELAC2_uc002gnx.3_Missense_Mutation_p.A84V|ELAC2_uc010vvo.1_Missense_Mutation_p.A147V|ELAC2_uc010vvp.1_Missense_Mutation_p.A305V|ELAC2_uc010vvq.1_Missense_Mutation_p.A324V|ELAC2_uc010vvr.1_Missense_Mutation_p.A284V	NM_018127	NP_060597	Q9BQ52	RNZ2_HUMAN	elaC homolog 2 isoform 1	324					tRNA processing	nucleus	endonuclease activity|metal ion binding|protein binding				0						CTGAAAGGTGGCATTCTCACA	0.502									Hereditary_Prostate_Cancer				42	148	---	---	---	---	PASS	A	12908318	A	A	12908318	3	1	86	1	0	0	0	0	1	0	0	0	5047	1203	42	3	1565	3	ELAC2	17	12908318	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	5331390	12908318	68286892	194	32830										
TEKT3	64518	broad.mit.edu	37	chr17	15234856	15234856	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gaaagttggttggtgttggtCtagggtgggcgtaagttgtc	18	3	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr17:15234856C>T	uc002gon.2	-	3	234	c.47G>A	c.(46-48)AGA>AAA	p.R16K		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	16					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		TGGTGTTGGTCTAGGGTGGGC	0.438													11	67	---	---	---	---	PASS	T	15234856	T	T	15234856	3	4	86	1	0	0	0	0	1	0	0	0	15751	913	32	2	1453	2	TEKT3	17	15234856	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	2326538	15234856	65960354	195	32831										
PIGS	94005	broad.mit.edu	37	chr17	26890464	26890464	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cttacctggggaagaagtgaGgagtgttcagatatcacgta	13	6	2	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr17:26890464G>A	uc002hbo.2	-	5	826	c.453C>T	c.(451-453)TCC>TCT	p.S151S	PIGS_uc002hbn.2_Silent_p.S143S|PIGS_uc010wap.1_Silent_p.S90S	NM_033198	NP_149975	Q96S52	PIGS_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	151	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			breast(2)|urinary_tract(1)|kidney(1)	4	Lung NSC(42;0.00431)					GAAGAAGTGAGGAGTGTTCAG	0.537													9	67	---	---	---	---	PASS	A	26890464	A	A	26890464	2	1	86	1	0	0	0	0	0	0	0	1	11898	987	35	3		3	PIGS	17	26890464	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	11655608	26890464	54304746	196	32832										
WNK4	65266	broad.mit.edu	37	chr17	40936150	40936150	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ggcctggccacgctcaagcgCgcctcctttgccaagagtgt	12	15	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr17:40936150C>T	uc002ibj.2	+	3	1008	c.987C>T	c.(985-987)CGC>CGT	p.R329R	WNK4_uc010wgx.1_Missense_Mutation_p.A23V|WNK4_uc002ibk.1_Silent_p.R101R|WNK4_uc010wgy.1_5'Flank	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	329	Protein kinase.				intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		CGCTCAAGCGCGCCTCCTTTG	0.602													20	113	---	---	---	---	PASS	T	40936150	T	T	40936150	2	4	86	1	0	0	0	0	0	0	0	1	17377	755	27	1		1	WNK4	17	40936150	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	14045686	40936150	40259060	197	32833										
TBX2	6909	broad.mit.edu	37	chr17	59483116	59483116	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gccgcggggctggacgcaggCgggctgggtcccgcggccag	21	14	0	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr17:59483116C>A	uc010wox.1	+	6	1886	c.1605C>A	c.(1603-1605)GGC>GGA	p.G535G	TBX2_uc002ize.2_3'UTR|TBX2_uc002izg.2_Silent_p.G381G	NM_005994	NP_005985	Q13207	TBX2_HUMAN	T-box 2	535	Gly-rich.				cell aging|positive regulation of cell proliferation		sequence-specific DNA binding				0						TGGACGCAGGCGGGCTGGGTC	0.736													2	1	---	---	---	---	PASS	A	59483116	A	A	59483116	2	1	86	1	0	0	0	0	0	0	0	1	15652	755	27	1		1	TBX2	17	59483116	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	18546966	59483116	21712094	198	32834										
MARCH10	162333	broad.mit.edu	37	chr17	60837244	60837244	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctctgctttccttacagtcaTggtacttttatgtttctgct	6	10	3	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr17:60837244T>C	uc010ddr.2	-	4	572	c.334A>G	c.(334-336)ATG>GTG	p.M112V	MARCH10_uc002jag.3_Missense_Mutation_p.M112V|MARCH10_uc010dds.2_Missense_Mutation_p.M112V|MARCH10_uc002jah.2_Missense_Mutation_p.M112V	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	112							ligase activity|zinc ion binding				0						CTTACAGTCATGGTACTTTTA	0.413													23	97	---	---	---	---	PASS	C	60837244	C	C	60837244	3	2	86	1	0	0	0	0	1	0	0	0	9299	1464	51	5	2124	5	MARCH10	17	60837244	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	1354128	60837244	20357966	199	32835										
RIOK3	8780	broad.mit.edu	37	chr18	21059301	21059301	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tttttccagaaaggaggagtCaaggaagcccttagtgaacg	12	7	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr18:21059301C>G	uc002kui.3	+	12	1982	c.1365C>G	c.(1363-1365)GTC>GTG	p.V455V	RIOK3_uc010dls.2_Silent_p.V452V|RIOK3_uc010xas.1_Silent_p.V439V|RIOK3_uc010xat.1_Silent_p.V199V	NM_003831	NP_003822	O14730	RIOK3_HUMAN	sudD suppressor of bimD6 homolog	455	Protein kinase.				chromosome segregation		ATP binding|protein binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(21;0.000106)|all_epithelial(16;6.74e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0202)|Ovarian(20;0.127)					AAGGAGGAGTCAAGGAAGCCC	0.368													8	44	---	---	---	---	PASS	G	21059301	G	G	21059301	2	3	86	1	0	0	0	0	0	0	0	1	13379	813	29	2		2	RIOK3	18	21059301	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08		21059301	57017947	200	32836										
SLC14A2	8170	broad.mit.edu	37	chr18	43204692	43204692	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tccagcagatacaaactctaCgaggcagagtttaccagccc	8	13	1	2	rs141644181	byFrequency	TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr18:43204692C>T	uc010dnj.2	+	3	384	c.63C>T	c.(61-63)TAC>TAT	p.Y21Y	SLC14A2_uc002lbb.2_Silent_p.Y21Y|SLC14A2_uc002lbe.2_Silent_p.Y21Y	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	21						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						ACAAACTCTACGAGGCAGAGT	0.562													6	84	---	---	---	---	PASS	T	43204692	T	T	43204692	2	4	86	1	0	0	0	0	0	0	0	1	14397	547	19	1		1	SLC14A2	18	43204692	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	22145391	43204692	34872556	201	32837										
DCC	1630	broad.mit.edu	37	chr18	50923735	50923735	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gcctcaaaccaaacacaatgTatgaattctcggtcatggta	7	10	3	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr18:50923735T>C	uc002lfe.1	+	18	3333	c.2746T>C	c.(2746-2748)TAT>CAT	p.Y916H	DCC_uc010xdr.1_Missense_Mutation_p.Y744H|DCC_uc010dpf.1_Missense_Mutation_p.Y551H	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	916	Extracellular (Potential).|Fibronectin type-III 5.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AAACACAATGTATGAATTCTC	0.393													14	67	---	---	---	---	PASS	C	50923735	C	C	50923735	3	2	86	1	0	0	0	0	1	0	0	0	4282	1638	57	5	2816	5	DCC	18	50923735	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	7719043	50923735	27153513	202	32838										
CDH19	28513	broad.mit.edu	37	chr18	64235805	64235805	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ttacctgggctcttaagatgTagagggatcgctcctctcta	10	10	2	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr18:64235805T>A	uc002lkc.1	-	3	476	c.338A>T	c.(337-339)TAC>TTC	p.Y113F	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Missense_Mutation_p.Y113F|CDH19_uc002lkd.2_Missense_Mutation_p.Y113F	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	113	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				TCTTAAGATGTAGAGGGATCG	0.433													23	148	---	---	---	---	PASS	A	64235805	A	A	64235805	3	1	86	1	0	0	0	0	1	0	0	0	3104	1638	57	5	2020	5	CDH19	18	64235805	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	13312070	64235805	13841443	203	32839										
RTTN	25914	broad.mit.edu	37	chr18	67687945	67687945	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tggtgttctccagtggcatcTgggaagccaactttaggata	12	8	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr18:67687945T>C	uc002lkp.2	-	45	6127	c.6059A>G	c.(6058-6060)CAG>CGG	p.Q2020R	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.Q1108R|RTTN_uc002lkn.2_Missense_Mutation_p.Q10R|RTTN_uc010dqp.2_Missense_Mutation_p.Q272R	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	2020							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				CAGTGGCATCTGGGAAGCCAA	0.473													25	181	---	---	---	---	PASS	C	67687945	C	C	67687945	3	2	86	1	0	0	0	0	1	0	0	0	13737	1580	55	5	641	5	RTTN	18	67687945	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	3452140	67687945	10389303	204	32840										
RTTN	25914	broad.mit.edu	37	chr18	67742704	67742704	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aatgttcataaaaatggcagTgatataaaagagcctgaagg	10	4	1	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr18:67742704T>A	uc002lkp.2	-	33	4516	c.4448A>T	c.(4447-4449)CAC>CTC	p.H1483L	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.H571L	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1483							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				AAAATGGCAGTGATATAAAAG	0.408													27	139	---	---	---	---	PASS	A	67742704	A	A	67742704	3	1	86	1	0	0	0	0	1	0	0	0	13737	1696	59	5	2300	5	RTTN	18	67742704	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	54759	67742704	10334544	205	32841										
TYK2	7297	broad.mit.edu	37	chr19	10476232	10476232	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcctctactggccaccactgGatgccaccagtgcctgtcac	8	17	2	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:10476232G>C	uc002moc.3	-	7	1350	c.972C>G	c.(970-972)ATC>ATG	p.I324M	TYK2_uc010dxe.2_Missense_Mutation_p.I139M|TYK2_uc002mod.2_Missense_Mutation_p.I324M	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	324	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			GCCACCACTGGATGCCACCAG	0.652													16	97	---	---	---	---	PASS	C	10476232	C	C	10476232	3	2	86	1	0	0	0	0	1	0	0	0	16807	1164	41	2	2667	2	TYK2	19	10476232	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08		10476232	48652751	206	32842										
NWD1	284434	broad.mit.edu	37	chr19	16861050	16861050	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gcctcccagagtgtgggaacCcagggcggctgaggctggcg	18	12	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:16861050C>A	uc002neu.3	+	6	2019	c.1597C>A	c.(1597-1599)CCA>ACA	p.P533T	NWD1_uc002net.3_Missense_Mutation_p.P398T|NWD1_uc002nev.3_Missense_Mutation_p.P327T			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	533	NACHT.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						GTGTGGGAACCCAGGGCGGCT	0.642													3	36	---	---	---	---	PASS	A	16861050	A	A	16861050	3	1	86	1	0	0	0	0	1	0	0	0	10781	623	22	3	1198	3	NWD1	19	16861050	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	6384818	16861050	42267933	207	32843										
CILP2	148113	broad.mit.edu	37	chr19	19655799	19655799	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gtcaccgccaccctgggcggCgaggagctggagccggcccc	16	17	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:19655799C>T	uc002nmv.3	+	8	2530	c.2445C>T	c.(2443-2445)GGC>GGT	p.G815G	CILP2_uc002nmw.3_Silent_p.G821G	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	815						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						CCCTGGGCGGCGAGGAGCTGG	0.746													4	14	---	---	---	---	PASS	T	19655799	T	T	19655799	2	4	86	1	0	0	0	0	0	0	0	1	3430	755	27	1		1	CILP2	19	19655799	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	2794749	19655799	39473184	208	32844										
ZNF566	84924	broad.mit.edu	37	chr19	36940338	36940338	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgtcgagtgaagtttgaaccActactaaaggctttcccaca	8	10	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:36940338A>G	uc002oea.3	-	5	880	c.798T>C	c.(796-798)AGT>AGC	p.S266S	ZNF566_uc010xte.1_Silent_p.S266S|ZNF566_uc010xtf.1_Silent_p.S267S|ZNF566_uc002oeb.3_Silent_p.S266S|ZNF566_uc002oec.3_Silent_p.S162S|ZNF566_uc010xtg.1_Silent_p.S162S	NM_032838	NP_116227	Q969W8	ZN566_HUMAN	zinc finger protein 566 isoform 1	266	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					AGTTTGAACCACTACTAAAGG	0.423													6	88	---	---	---	---	PASS	G	36940338	G	G	36940338	2	3	86	1	0	0	0	0	0	0	0	1	17994	156	6	5		5	ZNF566	19	36940338	Silent	SNP	A	TCGA-39-5024-01A-21D-1817-08	17284539	36940338	22188645	209	32845										
ZNF529	57711	broad.mit.edu	37	chr19	37037943	37037943	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcccacatgccttgcattcaTagggtttttctccagtatga	7	11	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:37037943T>C	uc002oeh.3	-	5	1719	c.1517A>G	c.(1516-1518)TAT>TGT	p.Y506C	ZNF529_uc010xth.1_Missense_Mutation_p.Y506C|ZNF529_uc010xti.1_Missense_Mutation_p.Y488C|ZNF529_uc002oeg.3_Missense_Mutation_p.Y401C	NM_020951	NP_066002	Q6P280	ZN529_HUMAN	zinc finger protein 529 isoform a	473	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	Esophageal squamous(110;0.198)					CTTGCATTCATAGGGTTTTTC	0.408													15	64	---	---	---	---	PASS	C	37037943	C	C	37037943	3	2	86	1	0	0	0	0	1	0	0	0	17967	1406	49	5	178	5	ZNF529	19	37037943	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	97605	37037943	22091040	210	32846										
ZNF567	163081	broad.mit.edu	37	chr19	37210578	37210578	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gcaatgaatgtggtaagtccTtccgcctcaagacagccctc	9	13	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:37210578T>C	uc010xtl.1	+	6	1174	c.952T>C	c.(952-954)TTC>CTC	p.F318L	ZNF567_uc002oeo.1_Missense_Mutation_p.F318L|ZNF567_uc010xtk.1_Missense_Mutation_p.F318L|ZNF567_uc002oep.3_Missense_Mutation_p.F287L|ZNF567_uc002oeq.1_Missense_Mutation_p.F287L	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	318	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TGGTAAGTCCTTCCGCCTCAA	0.423													6	38	---	---	---	---	PASS	C	37210578	C	C	37210578	3	2	86	1	0	0	0	0	1	0	0	0	17995	1609	56	5	869	5	ZNF567	19	37210578	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	172635	37210578	21918405	211	32847										
ZNF607	84775	broad.mit.edu	37	chr19	38189610	38189610	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcttgacatacatagggtttCtctcctgtatgaattctctc	6	10	3	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:38189610C>G	uc002ohc.1	-	5	2018	c.1422G>C	c.(1420-1422)GAG>GAC	p.E474D	ZNF607_uc002ohb.1_Missense_Mutation_p.E473D	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	474					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			CATAGGGTTTCTCTCCTGTAT	0.378													12	102	---	---	---	---	PASS	G	38189610	G	G	38189610	3	3	86	1	0	0	0	0	1	0	0	0	18030	912	32	2	672	2	ZNF607	19	38189610	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	979032	38189610	20939373	212	32848										
SIPA1L3	23094	broad.mit.edu	37	chr19	38692538	38692538	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	actcttctctctgaacgaccCggccctgagcccggacatcc	8	18	3	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:38692538C>T	uc002ohk.2	+	20	5530	c.5021C>T	c.(5020-5022)CCG>CTG	p.P1674L		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1674					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CTGAACGACCCGGCCCTGAGC	0.667													6	84	---	---	---	---	PASS	T	38692538	T	T	38692538	3	4	86	1	0	0	0	0	1	0	0	0	14331	652	23	1	5091	1	SIPA1L3	19	38692538	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	502928	38692538	20436445	213	32849										
B3GNT8	374907	broad.mit.edu	37	chr19	41932349	41932349	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agaagcggcggaggtccttgGggtaggaggcgaagtcaggg	21	6	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:41932349G>T	uc002oqs.2	-	3	789	c.335C>A	c.(334-336)CCC>CAC	p.P112H	CYP2F1_uc010xvw.1_Intron|B3GNT8_uc002oqt.1_Intron	NM_198540	NP_940942	Q7Z7M8	B3GN8_HUMAN	UDP-GlcNAc:betaGal	112	Lumenal (Potential).				poly-N-acetyllactosamine biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity|protein N-acetylglucosaminyltransferase activity				0						GAGGTCCTTGGGGTAGGAGGC	0.682													10	44	---	---	---	---	PASS	T	41932349	T	T	41932349	3	4	86	1	0	0	0	0	1	0	0	0	1263	1232	43	3	862	3	B3GNT8	19	41932349	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	3239811	41932349	17196634	214	32850										
ZNF221	7638	broad.mit.edu	37	chr19	44470198	44470198	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gtaaacagtccttcagtgatGtttctgtctttgatcttcat	7	8	5	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:44470198G>A	uc002oxx.2	+	6	872	c.544G>A	c.(544-546)GTT>ATT	p.V182I	ZNF221_uc010ejb.1_Missense_Mutation_p.V182I|ZNF221_uc010xws.1_Missense_Mutation_p.V182I	NM_013359	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	182	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Prostate(69;0.0352)				CTTCAGTGATGTTTCTGTCTT	0.423													22	121	---	---	---	---	PASS	A	44470198	A	A	44470198	3	1	86	1	0	0	0	0	1	0	0	0	17772	1377	48	3	558	3	ZNF221	19	44470198	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	2537849	44470198	14658785	215	32851										
RPS11	6205	broad.mit.edu	37	chr19	50000835	50000835	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cactggtaatgtgtccattcGagggcggatcctctctggta	12	10	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:50000835G>C	uc002pob.1	+	3	286	c.206G>C	c.(205-207)CGA>CCA	p.R69P	SNORD35B_uc002poc.2_5'Flank	NM_001015	NP_001006	P62280	RS11_HUMAN	ribosomal protein S11	69					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein binding|rRNA binding|structural constituent of ribosome				0		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00206)|GBM - Glioblastoma multiforme(486;0.0245)		GTGTCCATTCGAGGGCGGATC	0.542													5	98	---	---	---	---	PASS	C	50000835	C	C	50000835	3	2	86	1	0	0	0	0	1	0	0	0	13621	1058	37	2	216	2	RPS11	19	50000835	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	5530637	50000835	9128148	216	32852										
PRR12	57479	broad.mit.edu	37	chr19	50099808	50099808	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agagcggggtggcgagacccCcgaggggctggccacctctg	18	13	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:50099808C>T	uc002poo.3	+	4	2216	c.2216C>T	c.(2215-2217)CCC>CTC	p.P739L		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		GGCGAGACCCCCGAGGGGCTG	0.687													3	21	---	---	---	---	PASS	T	50099808	T	T	50099808	3	4	86	1	0	0	0	0	1	0	0	0	12584	623	22	3	2230	3	PRR12	19	50099808	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	98973	50099808	9029175	217	32853										
PPP2R1A	5518	broad.mit.edu	37	chr19	52714609	52714609	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cacacgagcactcgccctctGacctggaggcgcactttgtg	11	15	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:52714609G>A	uc002pyp.2	+	4	526	c.367G>A	c.(367-369)GAC>AAC	p.D123N	PPP2R1A_uc010ydk.1_Missense_Mutation_p.D68N|PPP2R1A_uc010epm.1_Missense_Mutation_p.D163N|PPP2R1A_uc002pyq.2_5'UTR	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	123	PP2A subunit B binding.|SV40 small T antigen binding.|HEAT 3.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		CTCGCCCTCTGACCTGGAGGC	0.667			Mis		clear cell ovarian carcinoma								7	53	---	---	---	---	PASS	A	52714609	A	A	52714609	3	1	86	1	0	0	0	0	1	0	0	0	12382	1290	45	2	381	2	PPP2R1A	19	52714609	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	2614801	52714609	6414374	218	32854										
NLRP8	126205	broad.mit.edu	37	chr19	56466026	56466026	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gcccaaaagaccccagggtaGacagcccaagaccgtggcca	11	15	0	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:56466026G>C	uc002qmh.2	+	3	673	c.602G>C	c.(601-603)AGA>ACA	p.R201T	NLRP8_uc010etg.2_Missense_Mutation_p.R201T	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	201						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)		CCCCAGGGTAGACAGCCCAAG	0.532													17	77	---	---	---	---	PASS	C	56466026	C	C	56466026	3	2	86	1	0	0	0	0	1	0	0	0	10483	942	33	2	612	2	NLRP8	19	56466026	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	3751417	56466026	2662957	219	32855										
PEG3	5178	broad.mit.edu	37	chr19	57325481	57325481	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gcatccccatttggctgctcGgcctctccatttggctgtcc	9	16	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr19:57325481G>C	uc002qnu.2	-	7	4680	c.4329C>G	c.(4327-4329)GCC>GCG	p.A1443A	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.A1414A|PEG3_uc002qnv.2_Silent_p.A1443A|PEG3_uc002qnw.2_Silent_p.A1319A|PEG3_uc002qnx.2_Silent_p.A1317A|PEG3_uc010etr.2_Silent_p.A1443A	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1443	Glu-rich.|4 X 5 AA repeat of P-X-G-E-A.|1-4.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TTGGCTGCTCGGCCTCTCCAT	0.572													15	95	---	---	---	---	PASS	C	57325481	C	C	57325481	2	2	86	1	0	0	0	0	0	0	0	1	11720	1103	39	4		4	PEG3	19	57325481	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	859455	57325481	1803502	220	32856										
STK35	140901	broad.mit.edu	37	chr20	2083902	2083902	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	aagcggcgccaccagaacgtCgtgcagtttgaggagtgcgt	15	10	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr20:2083902C>T	uc010gak.2	+	2	783	c.783C>T	c.(781-783)GTC>GTT	p.V261V	STK35_uc010zpu.1_Silent_p.V128V|STK35_uc002wfw.3_Silent_p.V128V	NM_080836	NP_543026	Q8TDR2	STK35_HUMAN	serine/threonine kinase 35	261	Protein kinase.					cytoplasm|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						ACCAGAACGTCGTGCAGTTTG	0.632													8	22	---	---	---	---	PASS	T	2083902	T	T	2083902	2	4	86	1	0	0	0	0	0	0	0	1	15300	871	31	2		2	STK35	20	2083902	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08		2083902	60941618	221	32857										
UBOX5	22888	broad.mit.edu	37	chr20	3095978	3095978	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ggtgccaggcctccaggaagTgttgctccctcttgtgccaa	12	13	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr20:3095978T>C	uc002whw.2	-	4	1560	c.1390A>G	c.(1390-1392)ACT>GCT	p.T464A	uc002whv.1_Intron|UBOX5_uc002whx.2_Intron|UBOX5_uc002why.1_Missense_Mutation_p.T464A	NM_014948	NP_055763	O94941	RNF37_HUMAN	U-box domain containing 5 isoform a	464						nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2						CTCCAGGAAGTGTTGCTCCCT	0.612											OREG0025729	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	35	---	---	---	---	PASS	C	3095978	C	C	3095978	3	2	86	1	0	0	0	0	1	0	0	0	16891	1696	59	5	243	5	UBOX5	20	3095978	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	1012076	3095978	59929542	222	32858										
MYT1	4661	broad.mit.edu	37	chr20	62853285	62853285	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cttttgcttcttctgaagcaGatgaccaggaagtgtcggaa	11	8	2	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr20:62853285G>C	uc002yii.2	+	14	2645	c.2281G>C	c.(2281-2283)GAT>CAT	p.D761H	MYT1_uc002yih.2_Missense_Mutation_p.D463H|MYT1_uc002yij.2_Missense_Mutation_p.D420H	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	761					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					TTCTGAAGCAGATGACCAGGA	0.517													6	54	---	---	---	---	PASS	C	62853285	C	C	62853285	3	2	86	1	0	0	0	0	1	0	0	0	10106	942	33	2	2327	2	MYT1	20	62853285	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	59757307	62853285	172235	223	32859										
USP25	29761	broad.mit.edu	37	chr21	17214736	17214736	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gcacaagcagcaggagacccAgaatatctagagcagccatc	10	12	1	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr21:17214736A>C	uc002yjy.1	+	18	2431	c.2214A>C	c.(2212-2214)CCA>CCC	p.P738P	USP25_uc011aby.1_Silent_p.P738P|USP25_uc002yjz.1_Silent_p.P738P|USP25_uc010gla.1_Intron	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	738					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		CAGGAGACCCAGAATATCTAG	0.323													19	69	---	---	---	---	PASS	C	17214736	C	C	17214736	2	2	86	1	0	0	0	0	0	0	0	1	17053	175	7	5		5	USP25	21	17214736	Silent	SNP	A	TCGA-39-5024-01A-21D-1817-08		17214736	30915159	224	32860										
KRTAP19-5	337972	broad.mit.edu	37	chr21	31874377	31874377	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agcctccgtagccgtagcccAggcctccatagtagttgccg	11	15	0	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr21:31874377A>C	uc011ada.1	-	1	32	c.32T>G	c.(31-33)CTG>CGG	p.L11R		NM_181611	NP_853642	Q3LI72	KR195_HUMAN	keratin associated protein 19-5	11						intermediate filament	protein binding				0						GCCGTAGCCCAGGCCTCCATA	0.567													23	86	---	---	---	---	PASS	C	31874377	C	C	31874377	3	2	86	1	0	0	0	0	1	0	0	0	8532	188	7	5	189	5	KRTAP19-5	21	31874377	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	14659641	31874377	16255518	225	32861										
IFNAR2	3455	broad.mit.edu	37	chr21	34625014	34625014	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agtggaaatttcacctatatCattgacaagttaattccaaa	5	7	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr21:34625014C>T	uc002yrd.2	+	7	916	c.588C>T	c.(586-588)ATC>ATT	p.I196I	IFNAR2_uc002yrb.2_Silent_p.I196I|IFNAR2_uc002yrc.2_Silent_p.I196I|IFNAR2_uc002yre.2_Silent_p.I196I|IFNAR2_uc002yrf.2_Silent_p.I196I|IFNAR2_uc002yrg.2_Silent_p.I65I|IL10RB_uc002yrh.1_Silent_p.I46I|IL10RB_uc002yri.1_5'UTR	NM_207585	NP_997468	P48551	INAR2_HUMAN	interferon alpha/beta receptor 2 isoform a	196	Extracellular (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to interferon-alpha|response to virus|type I interferon-mediated signaling pathway	extracellular region|extracellular space|integral to plasma membrane	protein kinase binding|type I interferon binding|type I interferon receptor activity				0					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	TCACCTATATCATTGACAAGT	0.353													4	48	---	---	---	---	PASS	T	34625014	T	T	34625014	2	4	86	1	0	0	0	0	0	0	0	1	7545	816	29	2		2	IFNAR2	21	34625014	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	2750637	34625014	13504881	226	32862										
SETD4	54093	broad.mit.edu	37	chr21	37418233	37418233	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctccaggtaaggcttccaaaGagatcggtgcccagcatgct	11	12	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr21:37418233G>C	uc002yuw.1	-	5	1746	c.373C>G	c.(373-375)CTT>GTT	p.L125V	SETD4_uc002yux.1_Missense_Mutation_p.L101V|SETD4_uc002yuu.2_RNA|SETD4_uc002yuv.2_Missense_Mutation_p.L125V|SETD4_uc002yuy.2_Missense_Mutation_p.L125V|SETD4_uc002yuz.2_Missense_Mutation_p.L101V|SETD4_uc002yva.2_Missense_Mutation_p.L101V	NM_017438	NP_059134	Q9NVD3	SETD4_HUMAN	SET domain containing 4 isoform a	125	SET.									large_intestine(1)|ovary(1)	2						GGCTTCCAAAGAGATCGGTGC	0.463													7	129	---	---	---	---	PASS	C	37418233	C	C	37418233	3	2	86	1	0	0	0	0	1	0	0	0	14133	942	33	2	996	2	SETD4	21	37418233	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	2793219	37418233	10711662	227	32863										
DOPEY2	9980	broad.mit.edu	37	chr21	37591765	37591765	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ctgatcttaaacttagctacAcccagagtggaaattcgctg	8	10	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr21:37591765A>G	uc002yvg.2	+	10	1304	c.1225A>G	c.(1225-1227)ACC>GCC	p.T409A	DOPEY2_uc011aeb.1_Missense_Mutation_p.T409A	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	409					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						ACTTAGCTACACCCAGAGTGG	0.463													19	112	---	---	---	---	PASS	G	37591765	G	G	37591765	3	3	86	1	0	0	0	0	1	0	0	0	4708	159	6	5	1259	5	DOPEY2	21	37591765	Missense_Mutation	SNP	A	TCGA-39-5024-01A-21D-1817-08	173532	37591765	10538130	228	32864										
BRWD1	54014	broad.mit.edu	37	chr21	40570728	40570728	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tttttctattttgtcatcatCtgaatctaaatcagtttcac	3	8	7	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr21:40570728C>G	uc002yxk.1	-	40	5753	c.5614G>C	c.(5614-5616)GAT>CAT	p.D1872H	BRWD1_uc010goc.1_Missense_Mutation_p.D515H|BRWD1_uc002yxl.2_Missense_Mutation_p.D1872H	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1872					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				TTGTCATCATCTGAATCTAAA	0.338													13	75	---	---	---	---	PASS	G	40570728	G	G	40570728	3	3	86	1	0	0	0	0	1	0	0	0	1525	913	32	2	1599	2	BRWD1	21	40570728	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	2978963	40570728	7559167	229	32865										
DSCAM	1826	broad.mit.edu	37	chr21	41385159	41385159	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gcggaggaggcggcttccatCgggatgggctccaggaccgt	18	11	0	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr21:41385159C>T	uc002yyq.1	-	33	6293	c.5841G>A	c.(5839-5841)CCG>CCA	p.P1947P	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1947	Cytoplasmic (Potential).			HRPGDLIHLPPYLRMDFLLNRGGPGTSRDLSLGQACLEPQK SRTLKRPTVLEPIPMEAASSASSTREGQSWQPGAVATLPQR EGAELGQAAKMSSSQESLLDSRGHLKGNNPYAKSYTLV -> IGQVTSYICLHTLEWTFC (in Ref. 1; AAC17966).	cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CGGCTTCCATCGGGATGGGCT	0.657													6	52	---	---	---	---	PASS	T	41385159	T	T	41385159	2	4	86	1	0	0	0	0	0	0	0	1	4768	871	31	2		2	DSCAM	21	41385159	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	814431	41385159	6744736	230	32866										
MX2	4600	broad.mit.edu	37	chr21	42779983	42779983	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tattttatgctccgagagaaTggtgactccttgcagaaagc	10	8	0	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr21:42779983T>A	uc002yzf.1	+	14	2075	c.1971T>A	c.(1969-1971)AAT>AAA	p.N657K	MX2_uc002yzg.1_Missense_Mutation_p.N380K|MX2_uc010gop.1_Missense_Mutation_p.N139K	NM_002463	NP_002454	P20592	MX2_HUMAN	myxovirus resistance protein 2	657	GED.				response to virus|type I interferon-mediated signaling pathway	cytoplasm|nucleus	GTP binding|GTPase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0222)				TCCGAGAGAATGGTGACTCCT	0.463													15	97	---	---	---	---	PASS	A	42779983	A	A	42779983	3	1	86	1	0	0	0	0	1	0	0	0	9998	1461	51	5	2021	5	MX2	21	42779983	Missense_Mutation	SNP	T	TCGA-39-5024-01A-21D-1817-08	1394824	42779983	5349912	231	32867										
AIRE	326	broad.mit.edu	37	chr21	45709879	45709879	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tcttccttgcagggtggaggTgaggctaggctgggccagca	17	9	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr21:45709879T>C	uc002zei.2	+	7	934	c.807T>C	c.(805-807)GGT>GGC	p.G269G	AIRE_uc010gpq.2_5'Flank|AIRE_uc002zej.2_5'Flank|AIRE_uc010gpr.2_5'Flank	NM_000383	NP_000374	O43918	AIRE_HUMAN	autoimmune regulator isoform 1	269	SAND.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	chromatin binding|histone binding|transcription regulatory region DNA binding|translation regulator activity|zinc ion binding			skin(1)	1				Colorectal(79;0.0806)		AGGGTGGAGGTGAGGCTAGGC	0.692									Autoimmune_PolyEndocrinopathy_Candidiasis_Ectodermal_Dystrophy				5	18	---	---	---	---	PASS	C	45709879	C	C	45709879	2	2	86	1	0	0	0	0	0	0	0	1	437	1683	59	5		5	AIRE	21	45709879	Silent	SNP	T	TCGA-39-5024-01A-21D-1817-08	2929896	45709879	2420016	232	32868										
CECR2	27443	broad.mit.edu	37	chr22	18022478	18022478	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ggggactccatgatggacagCccagagatgattgcgatgca	14	9	0	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr22:18022478C>A	uc010gqw.1	+	15	2706	c.2580C>A	c.(2578-2580)AGC>AGA	p.S860R	CECR2_uc010gqv.1_Missense_Mutation_p.S719R|CECR2_uc002zml.2_Missense_Mutation_p.S719R	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	902					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		TGATGGACAGCCCAGAGATGA	0.632													14	66	---	---	---	---	PASS	A	18022478	A	A	18022478	3	1	86	1	0	0	0	0	1	0	0	0	3206	738	26	3	2640	3	CECR2	22	18022478	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08		18022478	33282088	233	32869										
ZNF280A	129025	broad.mit.edu	37	chr22	22869714	22869714	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cgacacgtgagcaggatattGacggaagtggcctttctttc	12	9	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr22:22869714G>A	uc002zwe.2	-	2	494	c.241C>T	c.(241-243)CAA>TAA	p.Q81*	LOC96610_uc011aim.1_Intron	NM_080740	NP_542778	P59817	Z280A_HUMAN	zinc finger protein 280A	81					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		GCAGGATATTGACGGAAGTGG	0.473													25	109	---	---	---	---	PASS	A	22869714	A	A	22869714	4	1	86	1	0	0	0	0	0	1	0	0	17811	1299	45	2	1391	2	ZNF280A	22	22869714	Nonsense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	4847236	22869714	28434852	234	32870										
PISD	23761	broad.mit.edu	37	chr22	32015789	32015789	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gctgaagtcattgtaggagcCcttgctgtgccttgggctgt	14	9	1	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr22:32015789C>T	uc003alm.3	-	8	1046	c.1039G>A	c.(1039-1041)GGC>AGC	p.G347S	PISD_uc003alk.2_Missense_Mutation_p.G313S|PISD_uc003all.2_Missense_Mutation_p.G258E|PISD_uc011alr.1_Missense_Mutation_p.G312S|PISD_uc003aln.3_Missense_Mutation_p.G309S	NM_014338	NP_055153	Q9UG56	PISD_HUMAN	phosphatidylserine decarboxylase	347					phospholipid biosynthetic process	mitochondrion	phosphatidylserine decarboxylase activity			central_nervous_system(2)|ovary(1)	3					Phosphatidylserine(DB00144)	TTGTAGGAGCCCTTGCTGTGC	0.607													10	45	---	---	---	---	PASS	T	32015789	T	T	32015789	3	4	86	1	0	0	0	0	1	0	0	0	11946	623	22	3	194	3	PISD	22	32015789	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	9146075	32015789	19288777	235	32871										
MGAT3	4248	broad.mit.edu	37	chr22	39884490	39884490	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tgtatgggctggacggcatcCgcctgcgccgccgccagtac	14	15	0	0	rs149871838		TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr22:39884490C>T	uc003axv.3	+	2	1377	c.1138C>T	c.(1138-1140)CGC>TGC	p.R380C	MGAT3_uc010gxy.2_Missense_Mutation_p.R380C	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	380	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					GGACGGCATCCGCCTGCGCCG	0.647													8	71	---	---	---	---	PASS	T	39884490	T	T	39884490	3	4	86	1	0	0	0	0	1	0	0	0	9544	652	23	1	1140	1	MGAT3	22	39884490	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	7868701	39884490	11420076	236	32872										
TNRC6B	23112	broad.mit.edu	37	chr22	40706902	40706902	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccctggtgacacactgggtgGccatacgggtcctgctggtg	15	12	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chr22:40706902G>T	uc011aor.1	+	17	4551	c.4340G>T	c.(4339-4341)GGC>GTC	p.G1447V	TNRC6B_uc003aym.2_Missense_Mutation_p.G643V|TNRC6B_uc003ayn.3_Missense_Mutation_p.G1337V|TNRC6B_uc003ayo.2_Missense_Mutation_p.G1194V	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1447					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						ACACTGGGTGGCCATACGGGT	0.507													4	26	---	---	---	---	PASS	T	40706902	T	T	40706902	3	4	86	1	0	0	0	0	1	0	0	0	16338	1203	42	3	4527	3	TNRC6B	22	40706902	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	822412	40706902	10597664	237	32873										
DMD	1756	broad.mit.edu	37	chrX	31497149	31497149	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ccttccaaaggctgctctgtCagaaatattcgtacagtctc	7	12	3	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:31497149C>A	uc004dda.1	-	58	8863	c.8619G>T	c.(8617-8619)CTG>CTT	p.L2873L	DMD_uc004dcq.1_Silent_p.L144L|DMD_uc004dcr.1_Silent_p.L413L|DMD_uc004dcs.1_Silent_p.L413L|DMD_uc004dct.1_Silent_p.L413L|DMD_uc004dcu.1_Silent_p.L413L|DMD_uc004dcv.1_Silent_p.L413L|DMD_uc004dcw.2_Silent_p.L1529L|DMD_uc004dcx.2_Silent_p.L1532L|DMD_uc004dcz.2_Silent_p.L2750L|DMD_uc004dcy.1_Silent_p.L2869L|DMD_uc004ddb.1_Silent_p.L2865L	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2873	Spectrin 20.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GCTGCTCTGTCAGAAATATTC	0.393													7	61	---	---	---	---	PASS	A	31497149	A	A	31497149	2	1	86	1	0	0	0	0	0	0	0	1	4580	813	29	2		2	DMD	23	31497149	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08		31497149	123773411	238	32874										
USP9X	8239	broad.mit.edu	37	chrX	41078486	41078486	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gtaatgtatgccaatttaggTaagaatttaagtttttcaga	8	3	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:41078486T>A	uc004dfb.2	+	38	7198	c.6565_splice	c.e38+2	p.G2189_splice	USP9X_uc004dfc.2_Splice_Site_p.G2189_splice	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform						BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						CCAATTTAGGTAAGAATTTAA	0.323													7	47	---	---	---	---	PASS	A	41078486	A	A	41078486	5	1	86	1	0	0	0	0	0	0	1	0	17087	1652	57	5	6713	5	USP9X	23	41078486	Splice_Site	SNP	T	TCGA-39-5024-01A-21D-1817-08	9581337	41078486	114192074	239	32875										
DGKK	139189	broad.mit.edu	37	chrX	50165475	50165475	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ggcaaaggtttctacagctgCtttctgccacagtggcttga	11	10	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:50165475C>A	uc010njr.1	-	3	866	c.806G>T	c.(805-807)AGC>ATC	p.S269I		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	269	PH.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					TCTACAGCTGCTTTCTGCCAC	0.463													6	100	---	---	---	---	PASS	A	50165475	A	A	50165475	3	1	86	1	0	0	0	0	1	0	0	0	4472	797	28	3	3112	3	DGKK	23	50165475	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	9086989	50165475	105105085	240	32876										
GPR173	54328	broad.mit.edu	37	chrX	53106694	53106694	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	atcacactgctctttctgctCctctggtcaccctacatcgt	5	16	5	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:53106694C>A	uc004dru.2	+	2	1149	c.891C>A	c.(889-891)CTC>CTA	p.L297L		NM_018969	NP_061842	Q9NS66	GP173_HUMAN	G protein-coupled receptor 173	297	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						TCTTTCTGCTCCTCTGGTCAC	0.597													5	36	---	---	---	---	PASS	A	53106694	A	A	53106694	2	1	86	1	0	0	0	0	0	0	0	1	6671	842	30	2		2	GPR173	23	53106694	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	2941219	53106694	102163866	241	32877										
FGD1	2245	broad.mit.edu	37	chrX	54472818	54472818	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ggtcccacctcgaagccaatGaggggcaggctgcgctgggc	16	13	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:54472818G>A	uc004dtg.2	-	18	3344	c.2610C>T	c.(2608-2610)CTC>CTT	p.L870L		NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	870	PH 2.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CGAAGCCAATGAGGGGCAGGC	0.647													5	32	---	---	---	---	PASS	A	54472818	A	A	54472818	2	1	86	1	0	0	0	0	0	0	0	1	5832	1277	45	2		2	FGD1	23	54472818	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	1366124	54472818	100797742	242	32878										
MAGED2	10916	broad.mit.edu	37	chrX	54841172	54841172	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	ggcctgcgctcttactatgaGaccagcaagatgaaagtcct	10	11	1	3			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:54841172G>T	uc004dtk.1	+	11	1444	c.1350G>T	c.(1348-1350)GAG>GAT	p.E450D	MAGED2_uc004dtl.1_Missense_Mutation_p.E450D|MAGED2_uc004dtm.1_Missense_Mutation_p.E365D|MAGED2_uc010nkc.1_Missense_Mutation_p.R415I|MAGED2_uc004dtn.1_Missense_Mutation_p.E450D|MAGED2_uc004dto.1_Missense_Mutation_p.E424D	NM_177433	NP_803182	Q9UNF1	MAGD2_HUMAN	melanoma antigen family D, 2	450	MAGE.									ovary(2)|breast(1)	3						CTTACTATGAGACCAGCAAGA	0.532													5	65	---	---	---	---	PASS	T	54841172	T	T	54841172	3	4	86	1	0	0	0	0	1	0	0	0	9184	933	33	2	1388	2	MAGED2	23	54841172	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	368354	54841172	100429388	243	32879										
ZXDA	7789	broad.mit.edu	37	chrX	57935713	57935713	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gcctctcgggttcgaagtggCtgcgctggtgggcgccgagt	18	11	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:57935713C>A	uc004dve.2	-	1	1355	c.1142G>T	c.(1141-1143)AGC>ATC	p.S381I		NM_007156	NP_009087	P98168	ZXDA_HUMAN	zinc finger, X-linked, duplicated A	381	C2H2-type 4.|Required for interaction with ZXDC.				positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						TTCGAAGTGGCTGCGCTGGTG	0.567													20	115	---	---	---	---	PASS	A	57935713	A	A	57935713	3	1	86	1	0	0	0	0	1	0	0	0	18247	797	28	3	1261	3	ZXDA	23	57935713	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	3094541	57935713	97334847	244	32880										
AR	367	broad.mit.edu	37	chrX	66766199	66766199	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cgcctgggcggctgcggcggCgcagtgccgctatggggacc	19	14	0	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:66766199C>T	uc004dwu.1	+	1	2326	c.1211C>T	c.(1210-1212)GCG>GTG	p.A404V	AR_uc011mpd.1_Missense_Mutation_p.A404V|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.A404V	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	402	Modulating.|Poly-Ala.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	GCTGCGGCGGCGCAGTGCCGC	0.736									Androgen_Insensitivity_Syndrome				3	6	---	---	---	---	PASS	T	66766199	T	T	66766199	3	4	86	1	0	0	0	0	1	0	0	0	836	768	27	1	1213	1	AR	23	66766199	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	8830486	66766199	88504361	245	32881										
IL2RG	3561	broad.mit.edu	37	chrX	70328193	70328193	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	agggtgggaattcggggcatCgtcctgacaggggagaaaga	18	6	0	3	rs148001866		TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:70328193C>T	uc004dyw.1	-	7	872	c.858G>A	c.(856-858)ACG>ACA	p.T286T	CXorf65_uc011mpo.1_5'Flank|CXorf65_uc011mpp.1_5'Flank|IL2RG_uc004dyv.1_Silent_p.T15T|IL2RG_uc004dyx.1_Silent_p.T96T	NM_000206	NP_000197	P31785	IL2RG_HUMAN	interleukin 2 receptor, gamma precursor	286	Box 1 motif.|Cytoplasmic (Potential).				immune response|interleukin-4-mediated signaling pathway|interspecies interaction between organisms	external side of plasma membrane|integral to plasma membrane	cytokine receptor activity|interleukin-2 binding			pancreas(1)	1	Renal(35;0.156)				Aldesleukin(DB00041)|Denileukin diftitox(DB00004)	TTCGGGGCATCGTCCTGACAG	0.463									Severe_Combined_Immunodeficiency_X-linked				5	87	---	---	---	---	PASS	T	70328193	T	T	70328193	2	4	86	1	0	0	0	0	0	0	0	1	7688	871	31	2		2	IL2RG	23	70328193	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	3561994	70328193	84942367	246	32882										
MAGT1	84061	broad.mit.edu	37	chrX	77150848	77150848	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gctgagggaacgtcgcaaacGatgagcagcgccaccaccat	12	13	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:77150848G>T	uc004fof.2	-	1	218	c.156C>A	c.(154-156)ATC>ATA	p.I52I	MAGT1_uc004fog.3_RNA|MAGT1_uc004ect.3_Silent_p.I52I	NM_032121	NP_115497	Q9H0U3	MAGT1_HUMAN	magnesium transporter 1	20					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				upper_aerodigestive_tract(1)	1						CGTCGCAAACGATGAGCAGCG	0.557													6	42	---	---	---	---	PASS	T	77150848	T	T	77150848	2	4	86	1	0	0	0	0	0	0	0	1	9196	1048	37	2		2	MAGT1	23	77150848	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	6822655	77150848	78119712	247	32883										
BRWD3	254065	broad.mit.edu	37	chrX	80064747	80064747	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tctctttcttccccttacctGagcggatttgttgcagggtc	9	12	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:80064747G>A	uc004edt.2	-	2	351	c.88C>T	c.(88-90)CAG>TAG	p.Q30*	BRWD3_uc004edo.2_5'Flank|BRWD3_uc004edp.2_5'Flank|BRWD3_uc004edq.2_5'Flank|BRWD3_uc010nmj.1_5'Flank|BRWD3_uc004edr.2_5'Flank|BRWD3_uc004eds.2_5'Flank|BRWD3_uc004edu.2_5'UTR|BRWD3_uc004edv.2_5'UTR|BRWD3_uc004edw.2_5'UTR|BRWD3_uc004edx.2_5'UTR|BRWD3_uc004edy.2_5'UTR|BRWD3_uc004edz.2_5'UTR|BRWD3_uc004eea.2_5'UTR|BRWD3_uc004eeb.2_5'UTR	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	30										ovary(4)	4						CCCCTTACCTGAGCGGATTTG	0.557													4	14	---	---	---	---	PASS	A	80064747	A	A	80064747	4	1	86	1	0	0	0	0	0	1	0	0	1526	1299	45	2	5480	2	BRWD3	23	80064747	Nonsense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	2913899	80064747	75205813	248	32884										
TCEAL3	85012	broad.mit.edu	37	chrX	102864065	102864065	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cagaagatgaagtagagcctGatgatgaaggaaagtcagac	13	5	1	8			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:102864065G>A	uc004ekq.2	+	3	335	c.73G>A	c.(73-75)GAT>AAT	p.D25N	TCEAL3_uc004ekr.2_Missense_Mutation_p.D25N	NM_001006933	NP_001006934	Q969E4	TCAL3_HUMAN	transcription elongation factor A (SII)-like 3	25	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						agtagagcctgatgatgaagg	0.144													10	30	---	---	---	---	PASS	A	102864065	A	A	102864065	3	1	86	1	0	0	0	0	1	0	0	0	15669	1290	45	2	75	2	TCEAL3	23	102864065	Missense_Mutation	SNP	G	TCGA-39-5024-01A-21D-1817-08	22799318	102864065	52406495	249	32885										
GUCY2F	2986	broad.mit.edu	37	chrX	108719118	108719118	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cccagcagtttcctgaaagcCgcaaaccagagaacaaggcg	10	13	0	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:108719118C>T	uc004eod.3	-	2	324	c.48G>A	c.(46-48)GCG>GCA	p.A16A	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	16					intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						TCCTGAAAGCCGCAAACCAGA	0.542											OREG0019905	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	87	---	---	---	---	PASS	T	108719118	T	T	108719118	2	4	86	1	0	0	0	0	0	0	0	1	6898	639	23	1		1	GUCY2F	23	108719118	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	5855053	108719118	46551442	250	32886										
CHRDL1	91851	broad.mit.edu	37	chrX	109937485	109937485	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gctccccggtgacttctggcCccaggaaagcgggacagacc	13	15	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:109937485C>T	uc004eou.3	-	8	1033	c.684G>A	c.(682-684)GGG>GGA	p.G228G	CHRDL1_uc004eov.2_Silent_p.G222G|CHRDL1_uc004eow.2_Silent_p.G227G|CHRDL1_uc010nps.2_Silent_p.G227G|CHRDL1_uc004eot.2_Silent_p.G148G|CHRDL1_uc011mss.1_Silent_p.G142G	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	221					BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						GACTTCTGGCCCCAGGAAAGC	0.478													32	139	---	---	---	---	PASS	T	109937485	T	T	109937485	2	4	86	1	0	0	0	0	0	0	0	1	3373	610	22	3		3	CHRDL1	23	109937485	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	1218367	109937485	45333075	251	32887										
LHFPL1	340596	broad.mit.edu	37	chrX	111914294	111914294	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	cattctggagatgagctcctCcatgcagcaacccaggacag	10	13	1	2			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:111914294C>T	uc004epq.2	-	2	658	c.325G>A	c.(325-327)GAG>AAG	p.E109K	LHFPL1_uc004epp.2_Missense_Mutation_p.E132K|LHFPL1_uc010nqa.2_Intron|LHFPL1_uc010nqb.2_Missense_Mutation_p.E109K	NM_178175	NP_835469	Q86WI0	LHPL1_HUMAN	lipoma HMGIC fusion partner-like 1 precursor	109						integral to membrane					0						ATGAGCTCCTCCATGCAGCAA	0.582													14	68	---	---	---	---	PASS	T	111914294	T	T	111914294	3	4	86	1	0	0	0	0	1	0	0	0	8764	864	30	2	349	2	LHFPL1	23	111914294	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	1976809	111914294	43356266	252	32888										
FAM70A	55026	broad.mit.edu	37	chrX	119410745	119410745	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	caattctttccttaccatgtCcttaaagcctccaaggacag	5	13	1	0			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:119410745C>T	uc004eso.3	-	8	969	c.742G>A	c.(742-744)GAC>AAC	p.D248N	FAM70A_uc004esp.3_Missense_Mutation_p.D224N|FAM70A_uc010nqo.2_Intron	NM_017938	NP_060408	Q5JRV8	FA70A_HUMAN	hypothetical protein LOC55026 isoform 1	248						integral to membrane				lung(1)|breast(1)	2						CTTACCATGTCCTTAAAGCCT	0.502													9	95	---	---	---	---	PASS	T	119410745	T	T	119410745	3	4	86	1	0	0	0	0	1	0	0	0	5605	855	30	2	319	2	FAM70A	23	119410745	Missense_Mutation	SNP	C	TCGA-39-5024-01A-21D-1817-08	7496451	119410745	35859815	253	32889										
ATP1B4	23439	broad.mit.edu	37	chrX	119504619	119504619	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tatgcctccttggctgctgtGatcaccctctgcatgtacac	8	14	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:119504619G>A	uc004esr.2	+	3	462	c.378G>A	c.(376-378)GTG>GTA	p.V126V	ATP1B4_uc004esq.2_Silent_p.V122V|ATP1B4_uc011mtx.1_Silent_p.V91V|ATP1B4_uc011mty.1_Intron	NM_001142447	NP_001135919	Q9UN42	AT1B4_HUMAN	ATPase, (Na+)/K+ transporting, beta 4	126	Helical; Signal-anchor for type II membrane protein; (Potential).				ATP biosynthetic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to plasma membrane|nuclear inner membrane	sodium:potassium-exchanging ATPase activity			ovary(1)|skin(1)	2						TGGCTGCTGTGATCACCCTCT	0.502													12	376	---	---	---	---	PASS	A	119504619	A	A	119504619	2	1	86	1	0	0	0	0	0	0	0	1	1135	1277	45	2		2	ATP1B4	23	119504619	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	93874	119504619	35765941	254	32890										
MAGEC3	139081	broad.mit.edu	37	chrX	140985257	140985257	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	gaggaggtcatctgggaagtGttgagtgcaataggggtgtg	19	3	2	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:140985257G>T	uc011mwp.1	+	7	1713	c.1713G>T	c.(1711-1713)GTG>GTT	p.V571V	MAGEC3_uc004fbs.2_Silent_p.V273V|MAGEC3_uc010nsj.2_Silent_p.V273V	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	571	MAGE 2.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TCTGGGAAGTGTTGAGTGCAA	0.493													23	184	---	---	---	---	PASS	T	140985257	T	T	140985257	2	4	86	1	0	0	0	0	0	0	0	1	9182	1364	48	3		3	MAGEC3	23	140985257	Silent	SNP	G	TCGA-39-5024-01A-21D-1817-08	21480638	140985257	14285303	255	32891										
RPL10	6134	broad.mit.edu	37	chrX	153628196	153628196	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.250980392156863	64	3.5095167160674e-14	2.78193852721097	3.53982046972988	2.26557940153874	0.868299936992599	1	41	tacatggtaaaaagttgtggCaaagatggcttccatatccg	10	7	0	1			TCGA-39-5024-01A-21D-1817-08	TCGA-39-5024-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	388478e9-8c1f-43f8-88c4-811bf3cc2500	829ea6e6-1737-4fc6-8732-65e2d7fb2582	g.chrX:153628196C>T	uc004fkm.2	+	5	431	c.243C>T	c.(241-243)GGC>GGT	p.G81G	uc010nuv.1_5'Flank|RPL10_uc004fko.2_Silent_p.G81G|RPL10_uc004fkn.1_Silent_p.G81G|RPL10_uc004fkp.1_Silent_p.G81G|RPL10_uc004fkq.1_RNA|RPL10_uc004fkr.1_Silent_p.G6G|SNORA70_uc010nux.1_5'Flank	NM_006013	NP_006004	P27635	RL10_HUMAN	ribosomal protein L10	81					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|endoplasmic reticulum	structural constituent of ribosome				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AAAGTTGTGGCAAAGATGGCT	0.507													14	110	---	---	---	---	PASS	T	153628196	T	T	153628196	2	4	86	1	0	0	0	0	0	0	0	1	13554	697	25	3		3	RPL10	23	153628196	Silent	SNP	C	TCGA-39-5024-01A-21D-1817-08	12642939	153628196	1642364	256	32892										
PRDM16	63976	broad.mit.edu	37	chr1	3322187	3322187	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctcaagcagcacaagcatatCcacagcacggtgaagccttt	8	13	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:3322187C>A	uc001akf.2	+	8	1241	c.1161C>A	c.(1159-1161)ATC>ATA	p.I387I	PRDM16_uc001akc.2_Silent_p.I387I|PRDM16_uc001akd.2_Silent_p.I387I|PRDM16_uc001ake.2_Silent_p.I387I|PRDM16_uc009vlh.2_Silent_p.I88I	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	387	C2H2-type 5.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		ACAAGCATATCCACAGCACGG	0.697			T	EVI1	MDS|AML								34	41	---	---	---	---	PASS	A	3322187	A	A	3322187	2	1	87	1	0	0	0	0	0	0	0	1	12457	845	30	2		2	PRDM16	1	3322187	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08		3322187	245928434	1	32893										
PRDM16	63976	broad.mit.edu	37	chr1	3342715	3342715	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cttttagacgagaaagaagaCtcttatttctcggaaatcag	8	7	3	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:3342715C>G	uc001akf.2	+	14	3290	c.3210C>G	c.(3208-3210)GAC>GAG	p.D1070E	PRDM16_uc001akc.2_Missense_Mutation_p.D1069E|PRDM16_uc001akd.2_Missense_Mutation_p.D1069E|PRDM16_uc001ake.2_Missense_Mutation_p.D1070E|PRDM16_uc009vlh.2_Missense_Mutation_p.D770E	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	1070	Mediates interaction with SKI and regulation of TGF-beta signaling.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		AGAAAGAAGACTCTTATTTCT	0.522			T	EVI1	MDS|AML								4	62	---	---	---	---	PASS	G	3342715	G	G	3342715	3	3	87	1	0	0	0	0	1	0	0	0	12457	564	20	4	3264	4	PRDM16	1	3342715	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	20528	3342715	245907906	2	32894										
ESPN	83715	broad.mit.edu	37	chr1	6512037	6512037	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cgccgggagtgcagctggacGtggaggctctcatccccacg	15	14	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:6512037G>T	uc001amy.2	+	10	2374	c.2206G>T	c.(2206-2208)GTG>TTG	p.V736L	ESPN_uc001amz.2_Missense_Mutation_p.V170L	NM_031475	NP_113663	B1AK53	ESPN_HUMAN	espin	736					sensory perception of sound	brush border|cytoplasm|filamentous actin|stereocilium	actin filament binding|SH3 domain binding				0	Ovarian(185;0.0386)|all_lung(157;0.154)	all_cancers(23;3.6e-37)|all_epithelial(116;2.56e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|all_hematologic(16;6.92e-06)|Colorectal(325;4.47e-05)|Acute lymphoblastic leukemia(12;4.92e-05)|Breast(487;7.61e-05)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)		Epithelial(90;1.82e-35)|GBM - Glioblastoma multiforme(13;3e-28)|Kidney(185;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(229;5.63e-08)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;1.41e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000109)|STAD - Stomach adenocarcinoma(132;0.00167)|Lung(427;0.0108)|LUSC - Lung squamous cell carcinoma(448;0.0253)|READ - Rectum adenocarcinoma(331;0.0419)		GCAGCTGGACGTGGAGGCTCT	0.667													7	7	---	---	---	---	PASS	T	6512037	T	T	6512037	3	4	87	1	0	0	0	0	1	0	0	0	5254	1145	40	1	2244	1	ESPN	1	6512037	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	3169322	6512037	242738584	3	32895										
FUCA1	2517	broad.mit.edu	37	chr1	24189745	24189745	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctctaagagtgagtggtataGtccatagcggatgttcctta	11	7	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:24189745G>C	uc001bie.2	-	3	586	c.541C>G	c.(541-543)CTA>GTA	p.L181V	FUCA1_uc009vqt.1_RNA|FUCA1_uc010oed.1_RNA	NM_000147	NP_000138	P04066	FUCO_HUMAN	fucosidase, alpha-L-1, tissue precursor	181					fucose metabolic process|glycosaminoglycan catabolic process	lysosome	alpha-L-fucosidase activity|cation binding			breast(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.00957)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.11e-24)|Colorectal(126;5.69e-08)|COAD - Colon adenocarcinoma(152;3.15e-06)|GBM - Glioblastoma multiforme(114;9.04e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|KIRC - Kidney renal clear cell carcinoma(1967;0.00342)|STAD - Stomach adenocarcinoma(196;0.0128)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.144)		GAGTGGTATAGTCCATAGCGG	0.343													5	26	---	---	---	---	PASS	C	24189745	C	C	24189745	3	2	87	1	0	0	0	0	1	0	0	0	6094	1020	36	4	883	4	FUCA1	1	24189745	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	17677708	24189745	225060876	4	32896										
IL22RA1	58985	broad.mit.edu	37	chr1	24460774	24460774	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agatgtcttccagggttagcCggtggccatcgcctgcacgg	14	12	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:24460774C>A	uc001biq.1	-	4	497	c.458G>T	c.(457-459)CGG>CTG	p.R153L	IL22RA1_uc010oeg.1_Missense_Mutation_p.R45L|IL22RA1_uc009vrb.1_Missense_Mutation_p.R17L|IL22RA1_uc010oeh.1_Missense_Mutation_p.R153L	NM_021258	NP_067081	Q8N6P7	I22R1_HUMAN	interleukin 22 receptor, alpha 1 precursor	153	Extracellular (Potential).|Fibronectin type-III 2.					integral to membrane	interferon receptor activity			skin(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000992)|all_lung(284;0.00138)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;3.84e-24)|Colorectal(126;6.43e-08)|COAD - Colon adenocarcinoma(152;3.51e-06)|GBM - Glioblastoma multiforme(114;5.06e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00911)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.148)		CAGGGTTAGCCGGTGGCCATC	0.522													23	14	---	---	---	---	PASS	A	24460774	A	A	24460774	3	1	87	1	0	0	0	0	1	0	0	0	7673	652	23	1	1282	1	IL22RA1	1	24460774	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	271029	24460774	224789847	5	32897										
MACF1	23499	broad.mit.edu	37	chr1	39801940	39801940	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	actttgtggaactctcaaatCtgaaatagcaacacaggaac	7	9	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:39801940C>T	uc010oiu.1	+	1	5131	c.5000C>T	c.(4999-5001)TCT>TTT	p.S1667F	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3232					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)			ACTCTCAAATCTGAAATAGCA	0.398													18	21	---	---	---	---	PASS	T	39801940	T	T	39801940	3	4	87	1	0	0	0	0	1	0	0	0	9144	913	32	2	9771	2	MACF1	1	39801940	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	15341166	39801940	209448681	6	32898										
RAB3B	5865	broad.mit.edu	37	chr1	52399038	52399038	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctcagtgggaacaaccctctCttcctccatgtcacacttgt	6	15	3	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:52399038C>A	uc001cth.2	-	4	549	c.424G>T	c.(424-426)GAG>TAG	p.E142*		NM_002867	NP_002858	P20337	RAB3B_HUMAN	RAB3B, member RAS oncogene family	142					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(1)	1						ACAACCCTCTCTTCCTCCATG	0.463													26	35	---	---	---	---	PASS	A	52399038	A	A	52399038	4	1	87	1	0	0	0	0	0	1	0	0	12932	922	32	2	243	2	RAB3B	1	52399038	Nonsense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	12597098	52399038	196851583	7	32899										
ANKRD13C	81573	broad.mit.edu	37	chr1	70790558	70790558	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atctgcctatctccatagctGatggcttccgccagagggct	10	13	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:70790558G>C	uc001dex.3	-	3	881	c.555C>G	c.(553-555)ATC>ATG	p.I185M	ANKRD13C_uc009wbk.2_Intron	NM_030816	NP_110443	Q8N6S4	AN13C_HUMAN	ankyrin repeat domain 13C	185	ANK 3.				protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0						CTCCATAGCTGATGGCTTCCG	0.378													5	85	---	---	---	---	PASS	C	70790558	C	C	70790558	3	2	87	1	0	0	0	0	1	0	0	0	643	1280	45	2	1114	2	ANKRD13C	1	70790558	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	18391520	70790558	178460063	8	32900										
TTLL7	79739	broad.mit.edu	37	chr1	84348776	84348776	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	acactggagctgcaaaggagTcaccacctccgggcttttat	10	12	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:84348776T>A	uc001djc.2	-	20	2809	c.2413A>T	c.(2413-2415)ACT>TCT	p.T805S	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_RNA|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	805					cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		TGCAAAGGAGTCACCACCTCC	0.453													41	48	---	---	---	---	PASS	A	84348776	A	A	84348776	3	1	87	1	0	0	0	0	1	0	0	0	16729	1667	58	5	258	5	TTLL7	1	84348776	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	13558218	84348776	164901845	9	32901										
TTLL7	79739	broad.mit.edu	37	chr1	84417877	84417877	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tcaatttccctacctccttcTtgaggcagagatggcattat	7	11	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:84417877T>C	uc001djc.2	-	2	414	c.18A>G	c.(16-18)CAA>CAG	p.Q6Q	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_Intron|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	6					cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		TACCTCCTTCTTGAGGCAGAG	0.358													27	25	---	---	---	---	PASS	C	84417877	C	C	84417877	2	2	87	1	0	0	0	0	0	0	0	1	16729	1606	56	5		5	TTLL7	1	84417877	Silent	SNP	T	TCGA-39-5027-01A-21D-1817-08	69101	84417877	164832744	10	32902										
CCBL2	56267	broad.mit.edu	37	chr1	89414823	89414823	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tatcctccatcaggaactatGggttttaggccaacactttc	7	11	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:89414823G>A	uc001dmp.2	-	11	1469	c.1092C>T	c.(1090-1092)CCC>CCT	p.P364P	CCBL2_uc001dmq.2_Silent_p.P330P|CCBL2_uc001dmr.2_Silent_p.P200P	NM_001008661	NP_001008661	Q6YP21	KAT3_HUMAN	kynurenine aminotransferase III isoform 1	364					biosynthetic process|kynurenine metabolic process|tryptophan catabolic process		cysteine-S-conjugate beta-lyase activity|kynurenine-glyoxylate transaminase activity|kynurenine-oxoglutarate transaminase activity|pyridoxal phosphate binding			ovary(1)	1		Lung NSC(277;0.123)		all cancers(265;0.0117)|Epithelial(280;0.0341)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CAGGAACTATGGGTTTTAGGC	0.368													29	16	---	---	---	---	PASS	A	89414823	A	A	89414823	2	1	87	1	0	0	0	0	0	0	0	1	2733	1335	47	3		3	CCBL2	1	89414823	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	4996946	89414823	159835798	11	32903										
MTF2	22823	broad.mit.edu	37	chr1	93599277	93599277	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cagggaagtaagcaatggcaTagaaaaaaaaggaaagaaaa	11	3	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:93599277T>C	uc009wdj.2	+	12	1470	c.1178T>C	c.(1177-1179)ATA>ACA	p.I393T	MTF2_uc010oth.1_Missense_Mutation_p.I291T|MTF2_uc009wdk.2_Missense_Mutation_p.I336T|MTF2_uc001dpi.3_Missense_Mutation_p.I120T|MTF2_uc010oti.1_Missense_Mutation_p.I291T|MTF2_uc001dpj.3_Missense_Mutation_p.I291T|MTF2_uc001dpl.3_Missense_Mutation_p.I291T|MTF2_uc001dpm.3_Missense_Mutation_p.I62T	NM_007358	NP_031384	Q9Y483	MTF2_HUMAN	metal response element binding transcription	393						nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_lung(203;0.00196)|Lung NSC(277;0.00902)|Melanoma(281;0.099)|Ovarian(761;0.109)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00076)|GBM - Glioblastoma multiforme(16;0.00157)|Epithelial(280;0.0886)		AGCAATGGCATAGAAAAAAAA	0.343													17	26	---	---	---	---	PASS	C	93599277	C	C	93599277	3	2	87	1	0	0	0	0	1	0	0	0	9923	1406	49	5	1224	5	MTF2	1	93599277	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	4184454	93599277	155651344	12	32904										
SYT6	148281	broad.mit.edu	37	chr1	114641783	114641783	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttccgggggaatgtcaaagaTgatggcctcattgtagacag	13	7	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:114641783T>C	uc001eev.2	-	5	1292	c.1042A>G	c.(1042-1044)ATC>GTC	p.I348V	SYT6_uc001eeu.2_5'UTR	NM_205848	NP_995320	Q5T7P8	SYT6_HUMAN	synaptotagmin VI	433	Cytoplasmic (Potential).|C2 2.				acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATGTCAAAGATGATGGCCTCA	0.463													64	110	---	---	---	---	PASS	C	114641783	C	C	114641783	3	2	87	1	0	0	0	0	1	0	0	0	15475	1464	51	5	247	5	SYT6	1	114641783	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	21042506	114641783	134608838	13	32905										
ZNF687	57592	broad.mit.edu	37	chr1	151260589	151260589	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctgtagcccttgaccagatgGtggggcagccggacatcaca	13	12	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:151260589G>T	uc001exq.2	+	2	1920	c.1822G>T	c.(1822-1824)GTG>TTG	p.V608L	ZNF687_uc001exp.1_Missense_Mutation_p.V617L|ZNF687_uc009wmo.2_Missense_Mutation_p.V608L|ZNF687_uc009wmp.2_Missense_Mutation_p.V608L	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	608					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TGACCAGATGGTGGGGCAGCC	0.612													4	79	---	---	---	---	PASS	T	151260589	T	T	151260589	3	4	87	1	0	0	0	0	1	0	0	0	18089	1261	44	3	1824	3	ZNF687	1	151260589	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	36618806	151260589	97990032	14	32906										
IL6R	3570	broad.mit.edu	37	chr1	154427045	154427045	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cggaacgctcctctgcattgCcattgttctgaggtgagatg	12	10	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:154427045C>T	uc001fez.1	+	9	1585	c.1148C>T	c.(1147-1149)GCC>GTC	p.A383V	IL6R_uc001ffa.1_Intron	NM_000565	NP_000556	P08887	IL6RA_HUMAN	interleukin 6 receptor isoform 1 precursor	383	Helical; (Potential).				acute-phase response|ciliary neurotrophic factor-mediated signaling pathway|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|endocrine pancreas development|hepatic immune response|negative regulation of collagen biosynthetic process|negative regulation of interleukin-8 production|positive regulation of activation of Janus kinase activity|positive regulation of anti-apoptosis|positive regulation of chemokine production|positive regulation of chemokine production|positive regulation of interleukin-6 production|positive regulation of leukocyte chemotaxis|positive regulation of MAPKKK cascade|positive regulation of osteoblast differentiation|positive regulation of smooth muscle cell proliferation|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of apoptosis	apical plasma membrane|basolateral plasma membrane|extracellular space|interleukin-6 receptor complex	ciliary neurotrophic factor binding|enzyme binding|protein homodimerization activity			ovary(3)|breast(1)	4	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CTCTGCATTGCCATTGTTCTG	0.463													6	43	---	---	---	---	PASS	T	154427045	T	T	154427045	3	4	87	1	0	0	0	0	1	0	0	0	7702	739	26	3	1182	3	IL6R	1	154427045	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	3166456	154427045	94823576	15	32907										
SPTA1	6708	broad.mit.edu	37	chr1	158585049	158585049	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gttgtgttgcatccgcaaccCaagctggtagagctggtccc	12	12	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:158585049C>A	uc001fst.1	-	48	6944	c.6745G>T	c.(6745-6747)GGG>TGG	p.G2249W		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2249	Spectrin 21.				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)					ATCCGCAACCCAAGCTGGTAG	0.542													79	152	---	---	---	---	PASS	A	158585049	A	A	158585049	3	1	87	1	0	0	0	0	1	0	0	0	15115	594	21	3	534	3	SPTA1	1	158585049	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	4158004	158585049	90665572	16	32908										
SPTA1	6708	broad.mit.edu	37	chr1	158609783	158609783	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgatcccaatgttccttcagCtgttccagttgctcctaacc	6	14	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:158609783C>G	uc001fst.1	-	34	4951	c.4752G>C	c.(4750-4752)CAG>CAC	p.Q1584H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1584	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)					GTTCCTTCAGCTGTTCCAGTT	0.483													42	96	---	---	---	---	PASS	G	158609783	G	G	158609783	3	3	87	1	0	0	0	0	1	0	0	0	15115	796	28	4	2583	4	SPTA1	1	158609783	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	24734	158609783	90640838	17	32909										
OR6N2	81442	broad.mit.edu	37	chr1	158746513	158746513	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tttatctcccttctggaagaTggtcctcttgatagctttaa	7	9	3	2	rs140258151		TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:158746513T>C	uc010pir.1	-	1	913	c.913A>G	c.(913-915)ATC>GTC	p.I305V		NM_001005278	NP_001005278	Q8NGY6	OR6N2_HUMAN	olfactory receptor, family 6, subfamily N,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_hematologic(112;0.0378)					TTCTGGAAGATGGTCCTCTTG	0.383													5	134	---	---	---	---	PASS	C	158746513	C	C	158746513	3	2	87	1	0	0	0	0	1	0	0	0	11207	1464	51	5	43	5	OR6N2	1	158746513	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	136730	158746513	90504108	18	32910										
DUSP27	92235	broad.mit.edu	37	chr1	167097663	167097663	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttatgaggtctgaagaagagGgagagaaagagaggacagaa	16	2	1	7			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:167097663G>T	uc001geb.1	+	5	3295	c.3295G>T	c.(3295-3297)GGA>TGA	p.G1099*		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	1099					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						TGAAGAAGAGGGAGAGAAAGA	0.498													18	42	---	---	---	---	PASS	T	167097663	T	T	167097663	4	4	87	1	0	0	0	0	0	1	0	0	4824	1233	43	3	3313	3	DUSP27	1	167097663	Nonsense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	8351150	167097663	82152958	19	32911										
ZNF648	127665	broad.mit.edu	37	chr1	182026397	182026397	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gcccgccccgcaggcacctgTagggacgcgcctcagcctct	12	19	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:182026397T>C	uc001goz.2	-	2	957	c.749A>G	c.(748-750)TAC>TGC	p.Y250C		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	250					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CAGGCACCTGTAGGGACGCGC	0.731													4	7	---	---	---	---	PASS	C	182026397	C	C	182026397	3	2	87	1	0	0	0	0	1	0	0	0	18060	1638	57	5	961	5	ZNF648	1	182026397	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	14928734	182026397	67224224	20	32912										
GLT25D2	23127	broad.mit.edu	37	chr1	183933096	183933096	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tcctgcagtgtctgatggggCttcagggggatgggcaggta	18	7	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:183933096C>T	uc001gqr.2	-	6	1263	c.891G>A	c.(889-891)AAG>AAA	p.K297K	GLT25D2_uc010poj.1_Silent_p.K297K|GLT25D2_uc001gqq.2_Silent_p.K34K|GLT25D2_uc001gqs.2_Silent_p.K177K	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	297					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						TCTGATGGGGCTTCAGGGGGA	0.527													6	90	---	---	---	---	PASS	T	183933096	T	T	183933096	2	4	87	1	0	0	0	0	0	0	0	1	6467	796	28	3		3	GLT25D2	1	183933096	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	1906699	183933096	65317525	21	32913										
CFHR4	10877	broad.mit.edu	37	chr1	196883696	196883696	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgcggtttaagctccatgacAcattggactacgaatgctac	9	10	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:196883696A>T	uc001gto.2	+	4	580	c.511A>T	c.(511-513)ACA>TCA	p.T171S	CFHR4_uc009wyy.2_Missense_Mutation_p.T417S|CFHR4_uc001gtp.2_Missense_Mutation_p.T418S	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	171	Sushi 3.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						GCTCCATGACACATTGGACTA	0.408													32	62	---	---	---	---	PASS	T	196883696	T	T	196883696	3	4	87	1	0	0	0	0	1	0	0	0	3287	159	6	5	525	5	CFHR4	1	196883696	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	12950600	196883696	52366925	22	32914										
NR5A2	2494	broad.mit.edu	37	chr1	200143295	200143295	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cctgaacggggatgtgccctAtaataaccttctcattgaaa	8	10	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:200143295A>G	uc001gvb.2	+	8	1789	c.1583A>G	c.(1582-1584)TAT>TGT	p.Y528C	NR5A2_uc001gvc.2_Missense_Mutation_p.Y482C|NR5A2_uc009wzh.2_Missense_Mutation_p.Y488C|NR5A2_uc010pph.1_Missense_Mutation_p.Y456C	NM_205860	NP_995582	O00482	NR5A2_HUMAN	nuclear receptor subfamily 5, group A, member 2	528					embryo development|positive regulation of viral genome replication|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	lipid binding|protein binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Prostate(682;0.19)					GATGTGCCCTATAATAACCTT	0.458													25	44	---	---	---	---	PASS	G	200143295	G	G	200143295	3	3	87	1	0	0	0	0	1	0	0	0	10636	449	16	5	1613	5	NR5A2	1	200143295	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	3259599	200143295	49107326	23	32915										
USH2A	7399	broad.mit.edu	37	chr1	216373167	216373167	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aaccagattccagatggtagCtgaggtttcatgaccttcgt	10	9	1	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:216373167C>A	uc001hku.1	-	17	4000	c.3613G>T	c.(3613-3615)GCT>TCT	p.A1205S	USH2A_uc001hkv.2_Missense_Mutation_p.A1205S	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1205	Extracellular (Potential).|Fibronectin type-III 2.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CAGATGGTAGCTGAGGTTTCA	0.473										HNSCC(13;0.011)			39	87	---	---	---	---	PASS	A	216373167	A	A	216373167	3	1	87	1	0	0	0	0	1	0	0	0	17033	797	28	3	12233	3	USH2A	1	216373167	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	16229872	216373167	32877454	24	32916										
TAF1A	9015	broad.mit.edu	37	chr1	222742979	222742979	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aattggtgagtacctcttggGctccatctcgatccccatag	9	12	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:222742979G>T	uc009xdz.1	-	7	956	c.767C>A	c.(766-768)GCC>GAC	p.A256D	TAF1A_uc001hni.1_Missense_Mutation_p.A142D|TAF1A_uc001hnj.2_Missense_Mutation_p.A256D|TAF1A_uc001hnk.2_Missense_Mutation_p.A142D|TAF1A_uc010pur.1_Missense_Mutation_p.A256D	NM_139352	NP_647603	Q15573	TAF1A_HUMAN	TBP-associated factor 1A isoform 2	256					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	RNA polymerase I transcription factor complex	DNA binding				0				GBM - Glioblastoma multiforme(131;0.0186)		TACCTCTTGGGCTCCATCTCG	0.353													27	43	---	---	---	---	PASS	T	222742979	T	T	222742979	3	4	87	1	0	0	0	0	1	0	0	0	15516	1203	42	3	605	3	TAF1A	1	222742979	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	6369812	222742979	26507642	25	32917										
RGS7	6000	broad.mit.edu	37	chr1	240990468	240990468	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cttcagttgtatttacacatCcaggctgggaatggaaaaac	9	8	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:240990468C>G	uc001hyv.2	-	10	944	c.614G>C	c.(613-615)GGA>GCA	p.G205A	RGS7_uc010pyh.1_Missense_Mutation_p.G179A|RGS7_uc010pyj.1_Missense_Mutation_p.G121A|RGS7_uc001hyu.2_Missense_Mutation_p.G205A|RGS7_uc009xgn.1_Missense_Mutation_p.G152A|RGS7_uc001hyw.2_Missense_Mutation_p.G205A|RGS7_uc001hyt.2_Missense_Mutation_p.G37A	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	205					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			ATTTACACATCCAGGCTGGGA	0.433													4	73	---	---	---	---	PASS	G	240990468	G	G	240990468	3	3	87	1	0	0	0	0	1	0	0	0	13310	855	30	2	885	2	RGS7	1	240990468	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	18247489	240990468	8260153	26	32918										
OPN3	23596	broad.mit.edu	37	chr1	241767615	241767615	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atgggctatgacacccagggGcaccaccaggcagccaagaa	12	13	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:241767615G>A	uc001hza.2	-	2	785	c.640C>T	c.(640-642)CCC>TCC	p.P214S	OPN3_uc001hzb.2_Intron|OPN3_uc001hzc.2_Intron	NM_014322	NP_055137	Q9H1Y3	OPN3_HUMAN	opsin 3	214	Helical; Name=5; (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|visual perception	integral to plasma membrane	G-protein coupled photoreceptor activity				0	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			ACACCCAGGGGCACCACCAGG	0.512													22	64	---	---	---	---	PASS	A	241767615	A	A	241767615	3	1	87	1	0	0	0	0	1	0	0	0	10881	1203	42	3	580	3	OPN3	1	241767615	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	777147	241767615	7483006	27	32919										
CEP170	9859	broad.mit.edu	37	chr1	243333015	243333015	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttggcagccaaactagcccaCtgtgaaacccaacgtttgct	8	13	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:243333015C>A	uc001hzs.2	-	12	2166	c.1758G>T	c.(1756-1758)CAG>CAT	p.Q586H	CEP170_uc001hzt.2_Missense_Mutation_p.Q488H|CEP170_uc001hzu.2_Missense_Mutation_p.Q488H	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	586						centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			AACTAGCCCACTGTGAAACCC	0.388													26	34	---	---	---	---	PASS	A	243333015	A	A	243333015	3	1	87	1	0	0	0	0	1	0	0	0	3250	564	20	3	3062	3	CEP170	1	243333015	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	1565400	243333015	5917606	28	32920										
C1orf100	200159	broad.mit.edu	37	chr1	244541905	244541905	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	catggtataaagaaaccactTaccgacgagactattctctg	7	10	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:244541905T>A	uc001iah.2	+	4	402	c.289T>A	c.(289-291)TAC>AAC	p.Y97N	C1orf100_uc001iai.2_Missense_Mutation_p.Y65N	NM_001012970	NP_001012988	Q5SVJ3	CA100_HUMAN	hypothetical protein LOC200159	97											0	all_cancers(71;3.94e-05)|all_epithelial(71;0.000138)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|all_lung(81;0.0736)|Ovarian(71;0.0761)|Lung NSC(105;0.103)		all cancers(7;8.19e-08)|GBM - Glioblastoma multiforme(7;2.05e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.000984)			AGAAACCACTTACCGACGAGA	0.423													27	72	---	---	---	---	PASS	A	244541905	A	A	244541905	3	1	87	1	0	0	0	0	1	0	0	0	1975	1754	61	5	299	5	C1orf100	1	244541905	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	1208890	244541905	4708716	29	32921										
OR2C3	81472	broad.mit.edu	37	chr1	247695001	247695001	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aacagagctatgaacttgccCtgctcatgggaggtgctctt	11	10	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:247695001C>T	uc009xgy.2	-	2	1175	c.813G>A	c.(811-813)CAG>CAA	p.Q271Q	C1orf150_uc009xgw.2_Intron|C1orf150_uc001ida.3_Intron|C1orf150_uc001idb.3_Intron|C1orf150_uc009xgx.2_Intron|LOC148824_uc001idd.2_5'Flank	NM_198074	NP_932340	Q8N628	OR2C3_HUMAN	olfactory receptor, family 2, subfamily C,	271	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0242)	OV - Ovarian serous cystadenocarcinoma(106;0.0241)			TGAACTTGCCCTGCTCATGGG	0.537													17	64	---	---	---	---	PASS	T	247695001	T	T	247695001	2	4	87	1	0	0	0	0	0	0	0	1	10993	680	24	3		3	OR2C3	1	247695001	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	3153096	247695001	1555620	30	32922										
OR14A16	284532	broad.mit.edu	37	chr1	247978866	247978866	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cttcaagaagaaatacacggGggtgtggagatgatggtcca	14	6	1	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:247978866G>T	uc001idm.1	-	1	166	c.166C>A	c.(166-168)CCC>ACC	p.P56T		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AAATACACGGGGGTGTGGAGA	0.408													18	37	---	---	---	---	PASS	T	247978866	T	T	247978866	3	4	87	1	0	0	0	0	1	0	0	0	10945	1232	43	3	767	3	OR14A16	1	247978866	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	283865	247978866	1271755	31	32923										
OR2L13	284521	broad.mit.edu	37	chr1	248263011	248263011	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccatggcgtgttctgaaggcTtactcctgacctccatggcc	10	14	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:248263011T>A	uc001ids.2	+	3	671	c.334T>A	c.(334-336)TTA>ATA	p.L112I		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			TTCTGAAGGCTTACTCCTGAC	0.498													114	241	---	---	---	---	PASS	A	248263011	A	A	248263011	3	1	87	1	0	0	0	0	1	0	0	0	11006	1606	56	5	336	5	OR2L13	1	248263011	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	284145	248263011	987610	32	32924										
OR2T2	401992	broad.mit.edu	37	chr1	248616170	248616170	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctcatcacccatcctgccttCcccgggcttctctttgcaat	5	18	3	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:248616170C>A	uc001iek.1	+	1	72	c.72C>A	c.(70-72)TTC>TTA	p.F24L		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATCCTGCCTTCCCCGGGCTTC	0.527													113	273	---	---	---	---	PASS	A	248616170	A	A	248616170	3	1	87	1	0	0	0	0	1	0	0	0	11020	854	30	2	74	2	OR2T2	1	248616170	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	353159	248616170	634451	33	32925										
OR2G6	391211	broad.mit.edu	37	chr1	248685254	248685254	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gctgtgtggcccagctctatGtggccatggggttgggctcg	17	10	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:248685254G>T	uc001ien.1	+	1	307	c.307G>T	c.(307-309)GTG>TTG	p.V103L		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCAGCTCTATGTGGCCATGGG	0.532													83	104	---	---	---	---	PASS	T	248685254	T	T	248685254	3	4	87	1	0	0	0	0	1	0	0	0	11000	1377	48	3	309	3	OR2G6	1	248685254	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	69084	248685254	565367	34	32926										
SH3BP5L	80851	broad.mit.edu	37	chr1	249106314	249106314	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gtcgggggcggggccgggccCcaggctgctgccctcctcca	17	17	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr1:249106314C>A	uc001iew.1	-	7	1519	c.967G>T	c.(967-969)GGG>TGG	p.G323W	SH3BP5L_uc010pzp.1_Missense_Mutation_p.G216W|SH3BP5L_uc010pzq.1_Missense_Mutation_p.G291W|SH3BP5L_uc001iev.1_Missense_Mutation_p.G204W	NM_030645	NP_085148	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	323											0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			GGGCCGGGCCCCAGGCTGCTG	0.716													43	52	---	---	---	---	PASS	A	249106314	A	A	249106314	3	1	87	1	0	0	0	0	1	0	0	0	14248	623	22	3	218	3	SH3BP5L	1	249106314	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	421060	249106314	144307	35	32927										
SOX11	6664	broad.mit.edu	37	chr2	5832877	5832877	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gtgcagcaggcggagagcttGgaagcggagagcaacctgcc	17	10	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:5832877G>T	uc002qyj.2	+	1	79	c.24G>T	c.(22-24)TTG>TTT	p.L8F		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	8					cardiac ventricle formation|closure of optic fissure|cornea development in camera-type eye|embryonic digestive tract morphogenesis|embryonic skeletal system morphogenesis|eyelid development in camera-type eye|glial cell proliferation|hard palate development|lens morphogenesis in camera-type eye|limb bud formation|lung morphogenesis|negative regulation of cell death|negative regulation of glial cell proliferation|negative regulation of lymphocyte proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|neural crest cell development|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|outflow tract morphogenesis|positive regulation of BMP signaling pathway|positive regulation of hippo signaling cascade|positive regulation of hormone secretion|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of ossification|positive regulation of osteoblast differentiation|positive regulation of stem cell proliferation|regulation of transforming growth factor beta receptor signaling pathway|signal transduction involved in G1/S transition checkpoint|soft palate development|somite development|spinal cord development|sympathetic nervous system development|ventricular septum morphogenesis	cytoplasm|nucleolus	enhancer sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			OV - Ovarian serous cystadenocarcinoma(76;0.132)		CGGAGAGCTTGGAAGCGGAGA	0.701													14	13	---	---	---	---	PASS	T	5832877	T	T	5832877	3	4	87	1	0	0	0	0	1	0	0	0	14942	1339	47	3	26	3	SOX11	2	5832877	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08		5832877	237366496	36	32928										
NBAS	51594	broad.mit.edu	37	chr2	15542399	15542399	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gctattgccatcagttggtcCtgatcaggaataattttttg	9	7	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:15542399C>A	uc002rcc.1	-	26	2990	c.2964G>T	c.(2962-2964)CAG>CAT	p.Q988H	NBAS_uc010exl.1_Missense_Mutation_p.Q60H|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	988										ovary(2)|liver(1)|skin(1)	4						TCAGTTGGTCCTGATCAGGAA	0.368													14	53	---	---	---	---	PASS	A	15542399	A	A	15542399	3	1	87	1	0	0	0	0	1	0	0	0	10186	680	24	3	4259	3	NBAS	2	15542399	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	9709522	15542399	227656974	37	32929										
NCOA1	8648	broad.mit.edu	37	chr2	24949570	24949570	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gctataaatcagagtaaatcAgaagagtaagtaatacattt	7	4	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:24949570A>T	uc002rfk.2	+	13	2970	c.2712A>T	c.(2710-2712)TCA>TCT	p.S904S	NCOA1_uc010eye.2_Silent_p.S904S|NCOA1_uc002rfi.2_Silent_p.S753S|NCOA1_uc002rfj.2_Silent_p.S904S|NCOA1_uc002rfl.2_Silent_p.S904S	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	904	Interaction with CREBBP.								PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGAGTAAATCAGAAGAGTAAG	0.333			T	PAX3	alveolar rhadomyosarcoma								18	22	---	---	---	---	PASS	T	24949570	T	T	24949570	2	4	87	1	0	0	0	0	0	0	0	1	10228	175	7	5		5	NCOA1	2	24949570	Silent	SNP	A	TCGA-39-5027-01A-21D-1817-08	9407171	24949570	218249803	38	32930										
CCDC121	79635	broad.mit.edu	37	chr2	27850564	27850564	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttccagaaagaatctgttttCagcctggacaagtaactttt	7	8	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:27850564C>G	uc002rle.2	-	2	284	c.103G>C	c.(103-105)GAA>CAA	p.E35Q	ZNF512_uc010yly.1_Intron|CCDC121_uc010eze.2_Missense_Mutation_p.E199Q|CCDC121_uc002rld.2_Missense_Mutation_p.E197Q|GPN1_uc010ezf.2_5'Flank|GPN1_uc010yma.1_5'Flank|GPN1_uc010ymb.1_5'Flank|GPN1_uc010ymc.1_5'Flank|GPN1_uc010ymd.1_5'Flank|GPN1_uc010yme.1_5'Flank|GPN1_uc010ezg.1_5'Flank	NM_024584	NP_078860	Q6ZUS5	CC121_HUMAN	coiled-coil domain containing 121 isoform 3	35											0	Acute lymphoblastic leukemia(172;0.155)					AATCTGTTTTCAGCCTGGACA	0.428													79	191	---	---	---	---	PASS	G	27850564	G	G	27850564	3	3	87	1	0	0	0	0	1	0	0	0	2757	835	29	2	737	2	CCDC121	2	27850564	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	2900994	27850564	215348809	39	32931										
NRXN1	9378	broad.mit.edu	37	chr2	50758548	50758548	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tttcataaacatgctcccatCatagctcaaaaccgttgcct	4	13	3	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:50758548C>A	uc010fbq.2	-	11	3761	c.2284G>T	c.(2284-2286)GAT>TAT	p.D762Y	NRXN1_uc002rxb.3_Missense_Mutation_p.D394Y|NRXN1_uc002rxe.3_Missense_Mutation_p.D722Y|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			ATGCTCCCATCATAGCTCAAA	0.413													13	21	---	---	---	---	PASS	A	50758548	A	A	50758548	3	1	87	1	0	0	0	0	1	0	0	0	10665	826	29	2	2674	2	NRXN1	2	50758548	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	22907984	50758548	192440825	40	32932										
COMMD1	150684	broad.mit.edu	37	chr2	62227991	62227991	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cgtgagagcctcatgaaccaGagccgctggaatagcgggct	14	11	1	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:62227991G>A	uc002sbp.2	+	2	347	c.336G>A	c.(334-336)CAG>CAA	p.Q112Q	COMMD1_uc002sbq.1_RNA	NM_152516	NP_689729	Q8N668	COMD1_HUMAN	MURR1	112					copper ion homeostasis|negative regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|regulation of proteasomal ubiquitin-dependent protein catabolic process	cell junction|Cul2-RING ubiquitin ligase complex|cytoplasm|nucleolus	copper ion binding|protein homodimerization activity			ovary(1)	1	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;4.73e-07)|Epithelial(17;0.0216)|all cancers(80;0.0934)			TCATGAACCAGAGCCGCTGGA	0.498													8	73	---	---	---	---	PASS	A	62227991	A	A	62227991	2	1	87	1	0	0	0	0	0	0	0	1	3714	933	33	2		2	COMMD1	2	62227991	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	11469443	62227991	180971382	41	32933										
PCYOX1	51449	broad.mit.edu	37	chr2	70486501	70486501	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttccctcatagcgattattgGagccggaattggtggcactt	11	9	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:70486501G>C	uc002sgn.3	+	2	188	c.122G>C	c.(121-123)GGA>GCA	p.G41A	PCYOX1_uc010fdo.2_5'UTR|PCYOX1_uc010yqu.1_Missense_Mutation_p.G41A	NM_016297	NP_057381	Q9UHG3	PCYOX_HUMAN	prenylcysteine oxidase 1 precursor	41					prenylated protein catabolic process	lysosome|very-low-density lipoprotein particle	prenylcysteine oxidase activity			central_nervous_system(1)	1						GCGATTATTGGAGCCGGAATT	0.438													16	295	---	---	---	---	PASS	C	70486501	C	C	70486501	3	2	87	1	0	0	0	0	1	0	0	0	11608	1174	41	2	128	2	PCYOX1	2	70486501	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	8258510	70486501	172712872	42	32934										
NAGK	55577	broad.mit.edu	37	chr2	71305575	71305575	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctaggggccaggcacatcggGcacctcctccccatggacta	11	16	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:71305575G>A	uc002shp.3	+	10	1378	c.972G>A	c.(970-972)GGG>GGA	p.G324G	NAGK_uc010fea.2_RNA|NAGK_uc002shq.3_Silent_p.G175G|NAGK_uc002shr.2_Silent_p.G273G	NM_017567	NP_060037	Q9UJ70	NAGK_HUMAN	N-Acetylglucosamine kinase	324				G -> R (in Ref. 2; BAA91923).	N-acetylglucosamine metabolic process|N-acetylmannosamine metabolic process		ATP binding|N-acetylglucosamine kinase activity|protein binding				0					N-Acetyl-D-glucosamine(DB00141)	GGCACATCGGGCACCTCCTCC	0.607													10	14	---	---	---	---	PASS	A	71305575	A	A	71305575	2	1	87	1	0	0	0	0	0	0	0	1	10142	1190	42	3		3	NAGK	2	71305575	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	819074	71305575	171893798	43	32935										
LRRTM4	80059	broad.mit.edu	37	chr2	77745583	77745583	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tcatttgtctttcagactctCtggcctttttccgccgcctc	6	15	4	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:77745583C>A	uc002snr.2	-	3	1827	c.1412G>T	c.(1411-1413)AGA>ATA	p.R471I	LRRTM4_uc002snq.2_Missense_Mutation_p.R471I|LRRTM4_uc002sns.2_Missense_Mutation_p.R471I|LRRTM4_uc002snt.2_Missense_Mutation_p.R472I	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	471	Cytoplasmic (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TTCAGACTCTCTGGCCTTTTT	0.453													34	62	---	---	---	---	PASS	A	77745583	A	A	77745583	3	1	87	1	0	0	0	0	1	0	0	0	9042	913	32	2	374	2	LRRTM4	2	77745583	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	6440008	77745583	165453790	44	32936										
LRRTM4	80059	broad.mit.edu	37	chr2	77745861	77745861	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gggataatcagaggtttctgGggagtttggggcaccaggtg	18	5	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:77745861G>T	uc002snr.2	-	3	1549	c.1134C>A	c.(1132-1134)CCC>CCA	p.P378P	LRRTM4_uc002snq.2_Silent_p.P378P|LRRTM4_uc002sns.2_Silent_p.P378P|LRRTM4_uc002snt.2_Silent_p.P379P	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	378	Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GAGGTTTCTGGGGAGTTTGGG	0.478													21	54	---	---	---	---	PASS	T	77745861	T	T	77745861	2	4	87	1	0	0	0	0	0	0	0	1	9042	1219	43	3		3	LRRTM4	2	77745861	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	278	77745861	165453512	45	32937										
CTNNA2	1496	broad.mit.edu	37	chr2	80874899	80874899	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cccttgtgaagagagaaaagCctgaagaattccagacacga	10	9	0	6			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:80874899C>T	uc010ysh.1	+	18	2769	c.2764C>T	c.(2764-2766)CCT>TCT	p.P922S	CTNNA2_uc010yse.1_Missense_Mutation_p.P874S|CTNNA2_uc010ysf.1_Missense_Mutation_p.P874S|CTNNA2_uc010ysg.1_Missense_Mutation_p.P829S|CTNNA2_uc010ysi.1_Missense_Mutation_p.P506S|CTNNA2_uc010ysj.1_Missense_Mutation_p.P203S	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	922					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GAGAGAAAAGCCTGAAGAATT	0.458													86	200	---	---	---	---	PASS	T	80874899	T	T	80874899	3	4	87	1	0	0	0	0	1	0	0	0	4013	739	26	3	2478	3	CTNNA2	2	80874899	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	3129038	80874899	162324474	46	32938										
KCMF1	56888	broad.mit.edu	37	chr2	85276654	85276654	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gaccgcacgcaacgcaacccGgcgtactaacacaagcagtg	10	15	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:85276654G>T	uc002sox.3	+	6	1111	c.767G>T	c.(766-768)CGG>CTG	p.R256L		NM_020122	NP_064507	Q9P0J7	KCMF1_HUMAN	potassium channel modulatory factor 1	256	Potential.					intracellular	ligase activity|zinc ion binding			ovary(2)	2						AACGCAACCCGGCGTACTAAC	0.517													25	40	---	---	---	---	PASS	T	85276654	T	T	85276654	3	4	87	1	0	0	0	0	1	0	0	0	8000	1116	39	1	789	1	KCMF1	2	85276654	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	4401755	85276654	157922719	47	32939										
TMEM131	23505	broad.mit.edu	37	chr2	98421889	98421889	+	Missense_Mutation	SNP	C	A	A													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aatgatccccacactgtagtCcaggatcaaaataaatgttt							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:98421889C>A	uc002syh.3	-	21	2463	c.2234G>T	c.(2233-2235)GGA>GTA	p.G745V		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	745						integral to membrane				ovary(4)|central_nervous_system(2)	6						ACACTGTAGTCCAGGATCAAA	0.403													10	54	---	---	---	---	PASS	A	98421889	A	A	98421889	3	1	87	1	0	0	0	0	1	0	0	0	16041	855	30	2	3501	2	TMEM131	2	98421889	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	13145235	98421889	144777484	48	32940	645	2								
TMEM131	23505	broad.mit.edu	37	chr2	98421890	98421890	+	Nonsense_Mutation	SNP	C	A	A													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atgatccccacactgtagtcCaggatcaaaataaatgtttg							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:98421890C>A	uc002syh.3	-	21	2462	c.2233G>T	c.(2233-2235)GGA>TGA	p.G745*		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	745						integral to membrane				ovary(4)|central_nervous_system(2)	6						CACTGTAGTCCAGGATCAAAA	0.403													10	52	---	---	---	---	PASS	A	98421890	A	A	98421890	4	1	87	1	0	0	0	0	0	1	0	0	16041	603	21	3	3502	3	TMEM131	2	98421890	Nonsense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	1	98421890	144777483	49	32941	645	2								
RANBP2	5903	broad.mit.edu	37	chr2	109389037	109389037	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccttggaagaaaatacagcaGgtatgttaagtgtaaaggac	11	5	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:109389037G>T	uc002tem.3	+	22	8239	c.8113G>T	c.(8113-8115)GAT>TAT	p.D2705Y		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2705	Required for E3 SUMO-ligase activity.|Interaction with SUMO1.|2 X 50 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						AAATACAGCAGGTATGTTAAG	0.299													19	40	---	---	---	---	PASS	T	109389037	T	T	109389037	3	4	87	1	0	0	0	0	1	0	0	0	13028	1014	35	3	8199	3	RANBP2	2	109389037	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	10967147	109389037	133810336	50	32942										
IL1F5	26525	broad.mit.edu	37	chr2	113818443	113818443	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tttcagaatgaaggactcggCattgaaggtgctttatctgc	11	7	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:113818443C>A	uc002tis.2	+	3	177	c.44C>A	c.(43-45)GCA>GAA	p.A15E	IL1F5_uc002tit.2_Missense_Mutation_p.A15E	NM_173170	NP_775262	Q9UBH0	I36RA_HUMAN	interleukin 1 family, member 5	15						extracellular space	cytokine activity|interleukin-1 receptor antagonist activity				0						AAGGACTCGGCATTGAAGGTG	0.502													3	58	---	---	---	---	PASS	A	113818443	A	A	113818443	3	1	87	1	0	0	0	0	1	0	0	0	7653	710	25	3	50	3	IL1F5	2	113818443	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	4429406	113818443	129380930	51	32943										
PCDP1	200373	broad.mit.edu	37	chr2	120397418	120397418	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cctggttctctcctccctgcCggacccctccaagatggaga	9	17	1	2	rs150732635		TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:120397418C>A	uc002tmb.2	+	22	2429	c.1337C>A	c.(1336-1338)CCG>CAG	p.P446Q		NM_001029996	NP_001025167	Q4G0U5	PCDP1_HUMAN	primary ciliary dyskinesia protein 1	732						cilium	calmodulin binding				0	Colorectal(110;0.196)					TCCTCCCTGCCGGACCCCTCC	0.498													42	61	---	---	---	---	PASS	A	120397418	A	A	120397418	3	1	87	1	0	0	0	0	1	0	0	0	11572	652	23	1	1387	1	PCDP1	2	120397418	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	6578975	120397418	122801955	52	32944										
SAP130	79595	broad.mit.edu	37	chr2	128712861	128712861	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttttgattggatacagtctcCatggacacagtgaccggagt	11	8	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:128712861C>A	uc002tpp.2	-	15	2226	c.2094G>T	c.(2092-2094)ATG>ATT	p.M698I	SAP130_uc002tpn.2_Missense_Mutation_p.M458I|SAP130_uc002tpo.2_Missense_Mutation_p.M478I|SAP130_uc010fmd.2_Missense_Mutation_p.M733I|SAP130_uc002tpq.1_Missense_Mutation_p.M706I	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	698					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		ATACAGTCTCCATGGACACAG	0.468													28	81	---	---	---	---	PASS	A	128712861	A	A	128712861	3	1	87	1	0	0	0	0	1	0	0	0	13831	594	21	3	1076	3	SAP130	2	128712861	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	8315443	128712861	114486512	53	32945										
IMP4	92856	broad.mit.edu	37	chr2	131102229	131102229	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cctgattcccactgagttacGccgagaggctctggccttac	10	14	1	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:131102229G>T	uc002tra.1	+	3	157	c.140G>T	c.(139-141)CGC>CTC	p.R47L	CCDC115_uc002tqw.1_5'Flank|CCDC115_uc010zaf.1_5'Flank|CCDC115_uc002tqx.2_5'Flank|CCDC115_uc002tqy.1_5'Flank|CCDC115_uc002tqz.1_5'Flank	NM_033416	NP_219484	Q96G21	IMP4_HUMAN	IMP4, U3 small nucleolar ribonucleoprotein,	47	Arg-rich.				rRNA processing|translation	nucleolus|ribonucleoprotein complex	aminoacyl-tRNA ligase activity|ATP binding|protein binding			central_nervous_system(2)	2	Colorectal(110;0.1)					ACTGAGTTACGCCGAGAGGCT	0.552													21	87	---	---	---	---	PASS	T	131102229	T	T	131102229	3	4	87	1	0	0	0	0	1	0	0	0	7720	1087	38	1	150	1	IMP4	2	131102229	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	2389368	131102229	112097144	54	32946										
KYNU	8942	broad.mit.edu	37	chr2	143685295	143685295	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atgagagtattgtaggccttAtgaaggacattgtaggtaag	13	3	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:143685295A>T	uc002tvl.2	+	4	488	c.358A>T	c.(358-360)ATG>TTG	p.M120L	KYNU_uc002tvk.2_Missense_Mutation_p.M120L|KYNU_uc010fnm.2_Missense_Mutation_p.M120L	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	120					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	TGTAGGCCTTATGAAGGACAT	0.358													15	93	---	---	---	---	PASS	T	143685295	T	T	143685295	3	4	87	1	0	0	0	0	1	0	0	0	8587	449	16	5	368	5	KYNU	2	143685295	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	12583066	143685295	99514078	55	32947										
G6PC2	57818	broad.mit.edu	37	chr2	169761069	169761069	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgtctggtatgtcatggtaaCcgctgccctgagccacactg	11	12	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:169761069C>T	uc002uem.2	+	3	475	c.383C>T	c.(382-384)ACC>ATC	p.T128I	G6PC2_uc002uen.2_Missense_Mutation_p.T128I|G6PC2_uc010fpv.2_Missense_Mutation_p.T12I	NM_021176	NP_066999	Q9NQR9	G6PC2_HUMAN	islet-specific glucose-6-phosphatase-related	128	Helical; (Potential).				gluconeogenesis|glucose homeostasis|glucose transport|regulation of insulin secretion|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	glucose-6-phosphatase activity			pancreas(1)	1						GTCATGGTAACCGCTGCCCTG	0.483													45	186	---	---	---	---	PASS	T	169761069	T	T	169761069	3	4	87	1	0	0	0	0	1	0	0	0	6144	507	18	3	393	3	G6PC2	2	169761069	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	26075774	169761069	73438304	56	32948										
MYO3B	140469	broad.mit.edu	37	chr2	171092574	171092574	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctggtccttggggatcacagCtattgaactgggggatggag	16	7	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:171092574C>G	uc002ufy.2	+	7	820	c.677C>G	c.(676-678)GCT>GGT	p.A226G	MYO3B_uc002ufv.2_Missense_Mutation_p.A213G|MYO3B_uc010fqb.1_Missense_Mutation_p.A213G|MYO3B_uc002ufz.2_Missense_Mutation_p.A226G|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002uga.2_Missense_Mutation_p.A213G	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	226	Protein kinase.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						GGGATCACAGCTATTGAACTG	0.498											OREG0014376	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	152	---	---	---	---	PASS	G	171092574	G	G	171092574	3	3	87	1	0	0	0	0	1	0	0	0	10077	797	28	4	703	4	MYO3B	2	171092574	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	1331505	171092574	72106799	57	32949										
ATF2	1386	broad.mit.edu	37	chr2	175978775	175978775	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgtaattgatgcaggaatagCaacaggcatggtttgtccat	11	6	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:175978775C>A	uc002ujl.2	-	9	950	c.688G>T	c.(688-690)GCT>TCT	p.A230S	ATF2_uc010fqv.2_Missense_Mutation_p.A181S|ATF2_uc002ujv.2_Intron|ATF2_uc002ujm.2_Missense_Mutation_p.A172S|ATF2_uc002ujn.2_RNA|ATF2_uc002ujo.2_Intron|ATF2_uc002ujp.2_RNA|ATF2_uc002ujq.2_Missense_Mutation_p.A230S|ATF2_uc002ujr.2_Intron|ATF2_uc010fqu.2_Missense_Mutation_p.A212S|ATF2_uc002ujs.2_Missense_Mutation_p.A172S|ATF2_uc002ujt.2_RNA|ATF2_uc002uju.2_RNA|ATF2_uc002ujw.1_Missense_Mutation_p.A172S|ATF2_uc002ujx.1_RNA	NM_001880	NP_001871	P15336	ATF2_HUMAN	activating transcription factor 2	230					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|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	nucleoplasm	protein dimerization activity|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(1)|breast(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.125)			GCAGGAATAGCAACAGGCATG	0.373													42	197	---	---	---	---	PASS	A	175978775	A	A	175978775	3	1	87	1	0	0	0	0	1	0	0	0	1080	710	25	3	853	3	ATF2	2	175978775	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	4886201	175978775	67220598	58	32950										
TTN	7273	broad.mit.edu	37	chr2	179408165	179408165	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ataaatattttctggcagcaCtctgaaatagtacatggttc	7	7	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:179408165C>A	uc010zfg.1	-	296	89055	c.88831G>T	c.(88831-88833)GTG>TTG	p.V29611L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V23306L|TTN_uc010zfi.1_Missense_Mutation_p.V23239L|TTN_uc010zfj.1_Missense_Mutation_p.V23114L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30538							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)			TCTGGCAGCACTCTGAAATAG	0.418													3	59	---	---	---	---	PASS	A	179408165	A	A	179408165	3	1	87	1	0	0	0	0	1	0	0	0	16732	565	20	3	11508	3	TTN	2	179408165	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	3429390	179408165	63791208	59	32951										
TTN	7273	broad.mit.edu	37	chr2	179456221	179456221	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aatttcacatctagctccacGgatggaggcactgaaaagta	9	9	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:179456221G>C	uc010zfg.1	-	253	52751	c.52527C>G	c.(52525-52527)TCC>TCG	p.S17509S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.S11204S|TTN_uc010zfi.1_Silent_p.S11137S|TTN_uc010zfj.1_Silent_p.S11012S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	18436							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)			CTAGCTCCACGGATGGAGGCA	0.353													53	198	---	---	---	---	PASS	C	179456221	C	C	179456221	2	2	87	1	0	0	0	0	0	0	0	1	16732	1103	39	4		4	TTN	2	179456221	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	48056	179456221	63743152	60	32952										
TTN	7273	broad.mit.edu	37	chr2	179470363	179470363	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gggactgccaccattactgcGgggctctttccagtcaagtg	12	12	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:179470363G>A	uc010zfg.1	-	228	46179	c.45955C>T	c.(45955-45957)CGC>TGC	p.R15319C	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R9014C|TTN_uc010zfi.1_Missense_Mutation_p.R8947C|TTN_uc010zfj.1_Missense_Mutation_p.R8822C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16246							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)			CCATTACTGCGGGGCTCTTTC	0.473													57	74	---	---	---	---	PASS	A	179470363	A	A	179470363	3	1	87	1	0	0	0	0	1	0	0	0	16732	1116	39	1	54370	1	TTN	2	179470363	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	14142	179470363	63729010	61	32953										
TTN	7273	broad.mit.edu	37	chr2	179576040	179576040	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	caactgtttcttgaacatctCtcaattgtcgagaaaatgat	6	8	3	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:179576040C>G	uc010zfg.1	-	94	24415	c.24191G>C	c.(24190-24192)AGA>ACA	p.R8064T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.R4725T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8991							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)			TTGAACATCTCTCAATTGTCG	0.363													63	74	---	---	---	---	PASS	G	179576040	G	G	179576040	3	3	87	1	0	0	0	0	1	0	0	0	16732	913	32	2	76670	2	TTN	2	179576040	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	105677	179576040	63623333	62	32954										
TTN	7273	broad.mit.edu	37	chr2	179576683	179576683	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gcaatcaccttgaacggtaaGgaaagttgatgcagaaactt	10	7	1	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:179576683G>T	uc010zfg.1	-	93	24366	c.24142C>A	c.(24142-24144)CTT>ATT	p.L8048I	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.L4709I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8975							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)			TGAACGGTAAGGAAAGTTGAT	0.353													65	100	---	---	---	---	PASS	T	179576683	T	T	179576683	3	4	87	1	0	0	0	0	1	0	0	0	16732	1000	35	3	76723	3	TTN	2	179576683	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	643	179576683	63622690	63	32955										
ZNF804A	91752	broad.mit.edu	37	chr2	185803160	185803160	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cattcaaagaagcacatgtcAgtggtcatacttttgtaaca	7	8	3	1	rs142034505	byFrequency	TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:185803160A>G	uc002uph.2	+	4	3631	c.3037A>G	c.(3037-3039)AGT>GGT	p.S1013G		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	1013						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						AGCACATGTCAGTGGTCATAC	0.403													38	54	---	---	---	---	PASS	G	185803160	G	G	185803160	3	3	87	1	0	0	0	0	1	0	0	0	18167	188	7	5	3051	5	ZNF804A	2	185803160	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	6226477	185803160	57396213	64	32956										
COL5A2	1290	broad.mit.edu	37	chr2	189923185	189923185	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tcaggaccatgtcctccagcCattcccttctcaccagggag	8	16	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:189923185C>G	uc002uqk.2	-	33	2474	c.2199G>C	c.(2197-2199)ATG>ATC	p.M733I	COL5A2_uc010frx.2_Missense_Mutation_p.M309I	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	733					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			GTCCTCCAGCCATTCCCTTCT	0.433													41	62	---	---	---	---	PASS	G	189923185	G	G	189923185	3	3	87	1	0	0	0	0	1	0	0	0	3697	594	21	4	2388	4	COL5A2	2	189923185	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	4120025	189923185	53276188	65	32957										
HECW2	57520	broad.mit.edu	37	chr2	197184491	197184491	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggttccatcggcagcactgtCctcagaaactggcccattag	10	13	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:197184491C>A	uc002utm.1	-	9	1306	c.1123G>T	c.(1123-1125)GAC>TAC	p.D375Y	HECW2_uc002utl.1_Missense_Mutation_p.D19Y	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	375					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						GCAGCACTGTCCTCAGAAACT	0.522													35	47	---	---	---	---	PASS	A	197184491	A	A	197184491	3	1	87	1	0	0	0	0	1	0	0	0	7043	855	30	2	3679	2	HECW2	2	197184491	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	7261306	197184491	46014882	66	32958										
CYP20A1	57404	broad.mit.edu	37	chr2	204116832	204116832	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aactttgccctcctcctaaaGgtaaggtgataagtagtttg	9	8	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:204116832G>T	uc002uzv.3	+	4	1054	c.432G>T	c.(430-432)AAG>AAT	p.K144N	CYP20A1_uc002uzx.3_Missense_Mutation_p.K42N|CYP20A1_uc010zif.1_Missense_Mutation_p.K144N|CYP20A1_uc002uzy.3_Missense_Mutation_p.K42N|CYP20A1_uc002uzw.3_RNA	NM_177538	NP_803882	Q6UW02	CP20A_HUMAN	cytochrome P450, family 20, subfamily A,	144						integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0						TCCTCCTAAAGGTAAGGTGAT	0.353													27	32	---	---	---	---	PASS	T	204116832	T	T	204116832	3	4	87	1	0	0	0	0	1	0	0	0	4152	1014	35	3	446	3	CYP20A1	2	204116832	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	6932341	204116832	39082541	67	32959										
KIAA1486	57624	broad.mit.edu	37	chr2	226447576	226447576	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tcgacccccagacccgtgtcGcaagatggggccaagatggt	13	13	0	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:226447576G>C	uc002voe.2	+	4	1618	c.1443G>C	c.(1441-1443)TCG>TCC	p.S481S	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Silent_p.S251S	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	481										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		GACCCGTGTCGCAAGATGGGG	0.667													5	50	---	---	---	---	PASS	C	226447576	C	C	226447576	2	2	87	1	0	0	0	0	0	0	0	1	8237	1074	38	4		4	KIAA1486	2	226447576	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	22330744	226447576	16751797	68	32960										
DGKD	8527	broad.mit.edu	37	chr2	234343507	234343507	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tactgcaatgtgtgccgtgaGgctctgtctggggtcacgtc	14	10	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:234343507G>T	uc002vui.1	+	5	558	c.546G>T	c.(544-546)GAG>GAT	p.E182D	DGKD_uc002vuj.1_Missense_Mutation_p.E138D|DGKD_uc010fyh.1_Missense_Mutation_p.E49D|DGKD_uc002vuk.1_Missense_Mutation_p.E49D	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	182	Phorbol-ester/DAG-type 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	TGTGCCGTGAGGCTCTGTCTG	0.562													38	158	---	---	---	---	PASS	T	234343507	T	T	234343507	3	4	87	1	0	0	0	0	1	0	0	0	4467	991	35	3	588	3	DGKD	2	234343507	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	7895931	234343507	8855866	69	32961										
DGKD	8527	broad.mit.edu	37	chr2	234357911	234357911	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccaccggagaccgcttggtgGcatcagcttgcccggcccgg	14	16	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr2:234357911G>A	uc002vui.1	+	15	1789	c.1777G>A	c.(1777-1779)GCA>ACA	p.A593T	DGKD_uc002vuj.1_Missense_Mutation_p.A549T|DGKD_uc010fyh.1_Missense_Mutation_p.A460T|DGKD_uc010fyi.1_RNA	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	593					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	CCGCTTGGTGGCATCAGCTTG	0.607													18	54	---	---	---	---	PASS	A	234357911	A	A	234357911	3	1	87	1	0	0	0	0	1	0	0	0	4467	1203	42	3	1859	3	DGKD	2	234357911	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	14404	234357911	8841462	70	32962										
ARPP21	10777	broad.mit.edu	37	chr3	35785334	35785334	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cctcctttcttccacagatgCctgtatattattacccatct	3	14	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:35785334C>G	uc003cgb.2	+	18	2173	c.1909C>G	c.(1909-1911)CCT>GCT	p.P637A	ARPP21_uc003cga.2_Missense_Mutation_p.P618A|ARPP21_uc011axy.1_Missense_Mutation_p.P638A|ARPP21_uc003cgf.2_Missense_Mutation_p.P473A|ARPP21_uc003cgg.2_Missense_Mutation_p.P160A|uc011axz.1_5'Flank|MIR128-2_hsa-mir-128-2|MI0000727_5'Flank	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	637	Gln-rich.					cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						TCCACAGATGCCTGTATATTA	0.388													18	36	---	---	---	---	PASS	G	35785334	G	G	35785334	3	3	87	1	0	0	0	0	1	0	0	0	978	739	26	4	1984	4	ARPP21	3	35785334	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08		35785334	162237096	71	32963										
SLC25A38	54977	broad.mit.edu	37	chr3	39431939	39431939	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gacgtgttgggatgttggctGtactcttgaaggtggttcgc	16	6	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:39431939G>T	uc003cjo.2	+	3	618	c.217G>T	c.(217-219)GTA>TTA	p.V73L		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	73	Solcar 1.				erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		GATGTTGGCTGTACTCTTGAA	0.483													61	68	---	---	---	---	PASS	T	39431939	T	T	39431939	3	4	87	1	0	0	0	0	1	0	0	0	14502	1377	48	3	227	3	SLC25A38	3	39431939	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	3646605	39431939	158590491	72	32964										
CDCP1	64866	broad.mit.edu	37	chr3	45132936	45132936	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggcacgctgatgttccaggaCacagaggtgagggatggcag	17	8	0	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:45132936C>A	uc003com.2	-	7	1857	c.1722G>T	c.(1720-1722)GTG>GTT	p.V574V		NM_022842	NP_073753	Q9H5V8	CDCP1_HUMAN	CUB domain-containing protein 1 isoform 1	574	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		TGTTCCAGGACACAGAGGTGA	0.602													14	11	---	---	---	---	PASS	A	45132936	A	A	45132936	2	1	87	1	0	0	0	0	0	0	0	1	3093	465	17	3		3	CDCP1	3	45132936	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	5700997	45132936	152889494	73	32965										
STAB1	23166	broad.mit.edu	37	chr3	52556921	52556921	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gggtgcccgcaagaacctctCagaacgctgggatgcctact	12	13	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:52556921C>T	uc003dej.2	+	62	6949	c.6875C>T	c.(6874-6876)TCA>TTA	p.S2292L	STAB1_uc003dek.1_Missense_Mutation_p.S307L|STAB1_uc003del.2_Missense_Mutation_p.S179L	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2292	Extracellular (Potential).|Link.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		AAGAACCTCTCAGAACGCTGG	0.617													37	27	---	---	---	---	PASS	T	52556921	T	T	52556921	3	4	87	1	0	0	0	0	1	0	0	0	15236	838	29	2	7121	2	STAB1	3	52556921	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	7423985	52556921	145465509	74	32966										
ADAMTS9	56999	broad.mit.edu	37	chr3	64524911	64524911	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggcagcgctgtagcaatcccCggctgtggcaaaagggacgg	16	11	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:64524911C>A	uc003dmg.2	-	37	5613	c.5581G>T	c.(5581-5583)GGG>TGG	p.G1861W	ADAMTS9_uc011bfo.1_Missense_Mutation_p.G1833W|ADAMTS9_uc011bfp.1_Missense_Mutation_p.G772W	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1861	GON.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		TAGCAATCCCCGGCTGTGGCA	0.443													14	17	---	---	---	---	PASS	A	64524911	A	A	64524911	3	1	87	1	0	0	0	0	1	0	0	0	273	652	23	1	238	1	ADAMTS9	3	64524911	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	11967990	64524911	133497519	75	32967										
OR5AC2	81050	broad.mit.edu	37	chr3	97806366	97806366	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aactacagaatgcttcctccTggtgatgatggcctatgacc	9	11	0	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:97806366T>C	uc011bgs.1	+	1	350	c.350T>C	c.(349-351)CTG>CCG	p.L117P		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGCTTCCTCCTGGTGATGATG	0.433													73	213	---	---	---	---	PASS	C	97806366	C	C	97806366	3	2	87	1	0	0	0	0	1	0	0	0	11141	1580	55	5	352	5	OR5AC2	3	97806366	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	33281455	97806366	100216064	76	32968										
OR5H14	403273	broad.mit.edu	37	chr3	97868387	97868387	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgctgtcatctggaaagaccCtcatcttcatatcccaatgt	6	12	5	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:97868387C>T	uc003dsg.1	+	1	158	c.158C>T	c.(157-159)CCT>CTT	p.P53L		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	53	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGGAAAGACCCTCATCTTCAT	0.418													91	371	---	---	---	---	PASS	T	97868387	T	T	97868387	3	4	87	1	0	0	0	0	1	0	0	0	11160	681	24	3	160	3	OR5H14	3	97868387	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	62021	97868387	100154043	77	32969										
DPPA4	55211	broad.mit.edu	37	chr3	109050762	109050762	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttgttggcaccaggcccgcaGaatgtcccggtgaatcagat	12	11	1	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:109050762G>T	uc003dxq.3	-	3	350	c.295C>A	c.(295-297)CTG>ATG	p.L99M	DPPA4_uc011bho.1_Missense_Mutation_p.L99M|DPPA4_uc011bhp.1_Missense_Mutation_p.L99M	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	99						nucleus	protein binding			upper_aerodigestive_tract(1)	1						CAGGCCCGCAGAATGTCCCGG	0.537													7	173	---	---	---	---	PASS	T	109050762	T	T	109050762	3	4	87	1	0	0	0	0	1	0	0	0	4736	933	33	2	639	2	DPPA4	3	109050762	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	11182375	109050762	88971668	78	32970										
CCDC80	151887	broad.mit.edu	37	chr3	112358517	112358517	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctagtctcaacacgggcacaCtcctccttctctggagaggc	9	15	2	1	rs139180030	byFrequency	TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:112358517C>A	uc003dzf.2	-	2	454	c.236G>T	c.(235-237)AGT>ATT	p.S79I	CCDC80_uc011bhv.1_Missense_Mutation_p.S79I|CCDC80_uc003dzg.2_Missense_Mutation_p.S79I|CCDC80_uc003dzh.1_Missense_Mutation_p.S79I	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	79										ovary(2)	2						CACGGGCACACTCCTCCTTCT	0.612													56	88	---	---	---	---	PASS	A	112358517	A	A	112358517	3	1	87	1	0	0	0	0	1	0	0	0	2854	565	20	3	2644	3	CCDC80	3	112358517	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	3307755	112358517	85663913	79	32971										
PLA1A	51365	broad.mit.edu	37	chr3	119331936	119331936	+	Missense_Mutation	SNP	T	A	A													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggatgctggagatgccctctTcgtggaagccatccacacag							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:119331936T>A	uc003ecu.2	+	5	674	c.635T>A	c.(634-636)TTC>TAC	p.F212Y	PLA1A_uc003ecv.2_Missense_Mutation_p.F196Y|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_Missense_Mutation_p.F39Y	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	212					lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						GATGCCCTCTTCGTGGAAGCC	0.582													9	18	---	---	---	---	PASS	A	119331936	A	A	119331936	3	1	87	1	0	0	0	0	1	0	0	0	11988	1783	62	5	653	5	PLA1A	3	119331936	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	6973419	119331936	78690494	80	32972	646	2								
PLA1A	51365	broad.mit.edu	37	chr3	119331937	119331937	+	Missense_Mutation	SNP	C	A	A													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gatgctggagatgccctcttCgtggaagccatccacacaga							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:119331937C>A	uc003ecu.2	+	5	675	c.636C>A	c.(634-636)TTC>TTA	p.F212L	PLA1A_uc003ecv.2_Missense_Mutation_p.F196L|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_Missense_Mutation_p.F39L	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	212					lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						ATGCCCTCTTCGTGGAAGCCA	0.577													9	17	---	---	---	---	PASS	A	119331937	A	A	119331937	3	1	87	1	0	0	0	0	1	0	0	0	11988	883	31	2	654	2	PLA1A	3	119331937	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	1	119331937	78690493	81	32973	646	2								
FBXO40	51725	broad.mit.edu	37	chr3	121340661	121340661	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aggagtgtttggacacagccCtggccctgcaggatcagaag	14	10	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:121340661C>T	uc003eeg.2	+	3	595	c.385C>T	c.(385-387)CTG>TTG	p.L129L		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	129					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		GGACACAGCCCTGGCCCTGCA	0.502													12	39	---	---	---	---	PASS	T	121340661	T	T	121340661	2	4	87	1	0	0	0	0	0	0	0	1	5749	680	24	3		3	FBXO40	3	121340661	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	2008724	121340661	76681769	82	32974										
SEMA5B	54437	broad.mit.edu	37	chr3	122645462	122645462	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tccacagtcgtgctccactgCgttctcccgcaggaagaagt	10	14	1	1	rs139156063		TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:122645462C>A	uc003efz.1	-	9	1217	c.913G>T	c.(913-915)GCA>TCA	p.A305S	SEMA5B_uc011bju.1_Missense_Mutation_p.A247S|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.A305S|SEMA5B_uc010hro.1_Missense_Mutation_p.A247S|SEMA5B_uc010hrp.1_RNA	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	305	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		TGCTCCACTGCGTTCTCCCGC	0.607													12	38	---	---	---	---	PASS	A	122645462	A	A	122645462	3	1	87	1	0	0	0	0	1	0	0	0	14038	768	27	1	2602	1	SEMA5B	3	122645462	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	1304801	122645462	75376968	83	32975										
ROPN1B	152015	broad.mit.edu	37	chr3	125701208	125701208	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttcagcaccttccagtttctCtacacgtatattgccgaagt	6	12	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:125701208C>T	uc003eih.2	+	5	720	c.492C>T	c.(490-492)CTC>CTT	p.L164L	ROPN1B_uc010hsb.2_Silent_p.L164L|ROPN1B_uc010hsc.2_Silent_p.L72L	NM_001012337	NP_001012337	Q9BZX4	ROP1B_HUMAN	ropporin, rhophilin associated protein 1B	164					acrosome reaction|cell-cell adhesion|cytokinesis|fusion of sperm to egg plasma membrane|Rho protein signal transduction|sperm motility|spermatogenesis	cytoplasm|flagellum	cAMP-dependent protein kinase regulator activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling complex scaffold activity				0				GBM - Glioblastoma multiforme(114;0.151)		TCCAGTTTCTCTACACGTATA	0.428													26	106	---	---	---	---	PASS	T	125701208	T	T	125701208	2	4	87	1	0	0	0	0	0	0	0	1	13524	900	32	2		2	ROPN1B	3	125701208	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	3055746	125701208	72321222	84	32976										
GATA2	2624	broad.mit.edu	37	chr3	128199973	128199973	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgtccggagtggctgaagggCgggaggtggcccacaggtgc	20	9	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:128199973C>T	uc003ekm.3	-	7	1767	c.1332G>A	c.(1330-1332)CCG>CCA	p.P444P	GATA2_uc003ekn.3_Silent_p.P430P|GATA2_uc003eko.2_Silent_p.P444P	NM_001145661	NP_001139133	P23769	GATA2_HUMAN	GATA binding protein 2 isoform 1	444					blood coagulation|negative regulation of fat cell differentiation|negative regulation of fat cell proliferation|negative regulation of neural precursor cell proliferation|negative regulation of Notch signaling pathway|phagocytosis|positive regulation of angiogenesis|positive regulation of phagocytosis|positive regulation of transcription from RNA polymerase II promoter	nucleoplasm	C2H2 zinc finger domain binding|chromatin binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(13)|lung(1)|skin(1)	15				GBM - Glioblastoma multiforme(114;0.173)		GGCTGAAGGGCGGGAGGTGGC	0.657			Mis		AML(CML blast transformation)								17	88	---	---	---	---	PASS	T	128199973	T	T	128199973	2	4	87	1	0	0	0	0	0	0	0	1	6254	755	27	1		1	GATA2	3	128199973	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	2498765	128199973	69822457	85	32977										
IL20RB	53833	broad.mit.edu	37	chr3	136714254	136714254	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgtttttatcttttgtttccAggagaggccattcccctggt	9	9	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:136714254A>T	uc003eri.1	+	6	932	c.683_splice	c.e6-2	p.G228_splice	IL20RB_uc003erj.1_Splice_Site|IL20RB_uc010hud.1_Splice_Site_p.G86_splice	NM_144717	NP_653318	Q6UXL0	I20RB_HUMAN	interleukin 20 receptor beta precursor							integral to membrane	receptor activity			ovary(1)	1						TTTTGTTTCCAGGAGAGGCCA	0.507													58	170	---	---	---	---	PASS	T	136714254	T	T	136714254	5	4	87	1	0	0	0	0	0	0	1	0	7669	202	7	5	703	5	IL20RB	3	136714254	Splice_Site	SNP	A	TCGA-39-5027-01A-21D-1817-08	8514281	136714254	61308176	86	32978										
RBP2	5948	broad.mit.edu	37	chr3	139195235	139195235	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agtctcctccttacccagggCcttcatgtagccctcaaagt	7	15	3	0	rs147339826		TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:139195235C>A	uc003eth.2	-	1	118	c.67G>T	c.(67-69)GCC>TCC	p.A23S		NM_004164	NP_004155	P50120	RET2_HUMAN	retinol binding protein 2, cellular	23					epidermis development|retinoid metabolic process|steroid metabolic process|vitamin A metabolic process	cytosol	retinal binding|retinol binding|transporter activity			skin(1)	1					Vitamin A(DB00162)	TTACCCAGGGCCTTCATGTAG	0.498													30	81	---	---	---	---	PASS	A	139195235	A	A	139195235	3	1	87	1	0	0	0	0	1	0	0	0	13156	739	26	3	353	3	RBP2	3	139195235	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	2480981	139195235	58827195	87	32979										
PLSCR5	389158	broad.mit.edu	37	chr3	146311771	146311771	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gcctgttcactgtaatgaccTctcgacctgagttatctgtg	9	11	3	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:146311771T>A	uc003ewb.2	-	4	1393	c.389A>T	c.(388-390)GAG>GTG	p.E130V	PLSCR5_uc010hvb.2_Missense_Mutation_p.E118V|PLSCR5_uc010hvc.2_Missense_Mutation_p.E130V	NM_001085420	NP_001078889	A0PG75	PLS5_HUMAN	phospholipid scramblase family, member 5	130											0						TGTAATGACCTCTCGACCTGA	0.458													72	89	---	---	---	---	PASS	A	146311771	A	A	146311771	3	1	87	1	0	0	0	0	1	0	0	0	12113	1551	54	5	442	5	PLSCR5	3	146311771	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	7116536	146311771	51710659	88	32980										
CP	1356	broad.mit.edu	37	chr3	148896347	148896347	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agggcaaattccagtttcctTctgggattgaatactttcaa	8	8	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:148896347T>C	uc003ewy.3	-	16	2986	c.2733A>G	c.(2731-2733)AGA>AGG	p.R911R	CP_uc011bnr.1_RNA|CP_uc003eww.3_Silent_p.R63R|CP_uc003ewx.3_Silent_p.R692R|CP_uc003ewz.2_Silent_p.R911R	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	911	F5/8 type A 3.|Plastocyanin-like 6.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	CCAGTTTCCTTCTGGGATTGA	0.398													44	53	---	---	---	---	PASS	C	148896347	C	C	148896347	2	2	87	1	0	0	0	0	0	0	0	1	3787	1780	62	5		5	CP	3	148896347	Silent	SNP	T	TCGA-39-5027-01A-21D-1817-08	2584576	148896347	49126083	89	32981										
P2RY1	5028	broad.mit.edu	37	chr3	152553673	152553673	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agcacggtcgcctccactgcCgccgtctcctcgtcgttcaa	9	18	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:152553673C>T	uc003ezq.2	+	1	938	c.102C>T	c.(100-102)GCC>GCT	p.A34A		NM_002563	NP_002554	P47900	P2RY1_HUMAN	purinergic receptor P2Y1	34	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			CCTCCACTGCCGCCGTCTCCT	0.627													23	116	---	---	---	---	PASS	T	152553673	T	T	152553673	2	4	87	1	0	0	0	0	0	0	0	1	11346	639	23	1		1	P2RY1	3	152553673	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	3657326	152553673	45468757	90	32982										
SERPINI1	5274	broad.mit.edu	37	chr3	167510476	167510476	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aggggaactggaagtcgcagTttaggcctgaaaatactaga	13	6	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:167510476T>G	uc003ffa.3	+	4	778	c.580T>G	c.(580-582)TTT>GTT	p.F194V	SERPINI1_uc003ffb.3_Missense_Mutation_p.F194V	NM_001122752	NP_001116224	Q99574	NEUS_HUMAN	neuroserpin precursor	194					central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1						GAAGTCGCAGTTTAGGCCTGA	0.388													40	148	---	---	---	---	PASS	G	167510476	G	G	167510476	3	3	87	1	0	0	0	0	1	0	0	0	14118	1725	60	5	590	5	SERPINI1	3	167510476	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	14956803	167510476	30511954	91	32983										
MYNN	55892	broad.mit.edu	37	chr3	169501281	169501281	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctaggtgaaaaaccatacatAtgtggtatttgtgggaaaag	11	4	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:169501281A>T	uc003fft.2	+	6	1845	c.1416A>T	c.(1414-1416)ATA>ATT	p.I472I	MYNN_uc011bpm.1_Silent_p.I358I|MYNN_uc003ffu.2_Silent_p.I472I|MYNN_uc003ffv.2_Silent_p.I199I|MYNN_uc010hwo.2_Silent_p.I472I|MYNN_uc003ffw.1_RNA	NM_018657	NP_061127	Q9NPC7	MYNN_HUMAN	myoneurin	472	C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;2.19e-58)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			AACCATACATATGTGGTATTT	0.323													119	216	---	---	---	---	PASS	T	169501281	T	T	169501281	2	4	87	1	0	0	0	0	0	0	0	1	10061	439	16	5		5	MYNN	3	169501281	Silent	SNP	A	TCGA-39-5027-01A-21D-1817-08	1990805	169501281	28521149	92	32984										
SLC2A2	6514	broad.mit.edu	37	chr3	170720438	170720438	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	caggtttgctgataccagccGtctgaaaaatgctggttgag	12	8	1	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:170720438G>A	uc003fhe.1	-	8	1304	c.995C>T	c.(994-996)ACG>ATG	p.T332M	SLC2A2_uc003fhf.1_Missense_Mutation_p.T159M|SLC2A2_uc011bpu.1_Missense_Mutation_p.T205M	NM_000340	NP_000331	P11168	GTR2_HUMAN	solute carrier family 2 (facilitated glucose	332	Extracellular (Potential).				carbohydrate metabolic process|cellular lipid metabolic process|endocrine pancreas development|energy reserve metabolic process|regulation of insulin secretion	integral to plasma membrane|membrane fraction	D-glucose transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2	all_cancers(22;1.41e-19)|all_lung(20;1.59e-15)|Lung NSC(18;7.08e-15)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;1.1e-14)|Lung(28;2.99e-14)			GATACCAGCCGTCTGAAAAAT	0.383													7	48	---	---	---	---	PASS	A	170720438	A	A	170720438	3	1	87	1	0	0	0	0	1	0	0	0	14544	1145	40	1	595	1	SLC2A2	3	170720438	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	1219157	170720438	27301992	93	32985										
PLD1	5337	broad.mit.edu	37	chr3	171321028	171321028	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cttccttagctaatacgggcTtgtttataaagtctctcagc	7	10	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:171321028T>A	uc003fhs.2	-	27	3181	c.3065A>T	c.(3064-3066)AAG>ATG	p.K1022M	PLD1_uc003fht.2_Missense_Mutation_p.K984M	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	1022					cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	TAATACGGGCTTGTTTATAAA	0.388													21	114	---	---	---	---	PASS	A	171321028	A	A	171321028	3	1	87	1	0	0	0	0	1	0	0	0	12045	1609	56	5	163	5	PLD1	3	171321028	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	600590	171321028	26701402	94	32986										
NLGN1	22871	broad.mit.edu	37	chr3	173998631	173998631	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccattttcagtggatcaaagGgactactcaacagagctgag	10	9	3	2	rs115881871	byFrequency	TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:173998631G>A	uc003fio.1	+	7	2433	c.2010G>A	c.(2008-2010)AGG>AGA	p.R670R	NLGN1_uc003fip.1_Silent_p.R670R	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	687	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TGGATCAAAGGGACTACTCAA	0.458													42	257	---	---	---	---	PASS	A	173998631	A	A	173998631	2	1	87	1	0	0	0	0	0	0	0	1	10461	1223	43	3		3	NLGN1	3	173998631	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	2677603	173998631	24023799	95	32987										
NDUFB5	4711	broad.mit.edu	37	chr3	179322659	179322659	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tactgcggtggcagctctgtCtggccggccccttggcactc	13	15	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:179322659C>G	uc003fkc.2	+	1	85	c.56C>G	c.(55-57)TCT>TGT	p.S19C	MRPL47_uc003fjz.2_5'Flank|MRPL47_uc003fka.2_5'Flank|MRPL47_uc003fkb.2_5'Flank|NDUFB5_uc003fkd.2_RNA|NDUFB5_uc003fke.2_Missense_Mutation_p.S19C	NM_002492	NP_002483	O43674	NDUB5_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	19					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			skin(1)	1	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)		NADH(DB00157)	GCAGCTCTGTCTGGCCGGCCC	0.642													12	63	---	---	---	---	PASS	G	179322659	G	G	179322659	3	3	87	1	0	0	0	0	1	0	0	0	10284	913	32	2	58	2	NDUFB5	3	179322659	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	5324028	179322659	18699771	96	32988										
HTR3C	170572	broad.mit.edu	37	chr3	183776353	183776353	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gatgtccatgggcaacaaccTatatgaccagatcatgtttt	8	9	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:183776353T>A	uc003fmk.2	+	6	732	c.698T>A	c.(697-699)CTA>CAA	p.L233Q		NM_130770	NP_570126	Q8WXA8	5HT3C_HUMAN	5-hydroxytryptamine receptor 3 subunit C	233	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)			GGCAACAACCTATATGACCAG	0.512													40	210	---	---	---	---	PASS	A	183776353	A	A	183776353	3	1	87	1	0	0	0	0	1	0	0	0	7446	1522	53	5	720	5	HTR3C	3	183776353	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	4453694	183776353	14246077	97	32989										
DGKG	1608	broad.mit.edu	37	chr3	185906145	185906145	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccttccaggaagatgttgctCaggtccaccccaaccccatc	7	17	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr3:185906145C>A	uc003fqa.2	-	22	2478	c.1941G>T	c.(1939-1941)CTG>CTT	p.L647L	DGKG_uc003fqb.2_Silent_p.L608L|DGKG_uc003fqc.2_Silent_p.L622L|DGKG_uc011brx.1_Silent_p.L588L	NM_001346	NP_001337	P49619	DGKG_HUMAN	diacylglycerol kinase gamma isoform 1	647					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	all_cancers(143;3.26e-12)|Ovarian(172;0.0315)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)	GBM - Glioblastoma multiforme(93;0.0657)	Phosphatidylserine(DB00144)	AGATGTTGCTCAGGTCCACCC	0.498													30	140	---	---	---	---	PASS	A	185906145	A	A	185906145	2	1	87	1	0	0	0	0	0	0	0	1	4469	813	29	2		2	DGKG	3	185906145	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	2129792	185906145	12116285	98	32990										
OTOP1	133060	broad.mit.edu	37	chr4	4228190	4228190	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gcccggcgcctggactcaccGcgcagccagccggcacccgc	13	21	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr4:4228190G>T	uc003ghp.1	-	1	432	c.402C>A	c.(400-402)CGC>CGA	p.R134R		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	134					biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TGGACTCACCGCGCAGCCAGC	0.721													4	2	---	---	---	---	PASS	T	4228190	T	T	4228190	2	4	87	1	0	0	0	0	0	0	0	1	11305	1101	38	1		1	OTOP1	4	4228190	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08		4228190	186926086	99	32991										
CENPC1	1060	broad.mit.edu	37	chr4	68380252	68380252	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gccggggatattgtgcgttgTttcagagaccctgcctttct	12	10	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr4:68380252T>C	uc003hdd.1	-	8	1167	c.984A>G	c.(982-984)AAA>AAG	p.K328K	CENPC1_uc010ihj.1_RNA|CENPC1_uc010ihk.1_RNA|CENPC1_uc010ihm.1_Silent_p.K328K	NM_001812	NP_001803	Q03188	CENPC_HUMAN	centromere protein C 1	328					mitotic prometaphase	condensed chromosome kinetochore|condensed nuclear chromosome, centromeric region|cytosol	DNA binding			urinary_tract(1)|lung(1)	2						TTGTGCGTTGTTTCAGAGACC	0.393													16	13	---	---	---	---	PASS	C	68380252	C	C	68380252	2	2	87	1	0	0	0	0	0	0	0	1	3229	1722	60	5		5	CENPC1	4	68380252	Silent	SNP	T	TCGA-39-5027-01A-21D-1817-08	64152062	68380252	122774024	100	32992										
BANK1	55024	broad.mit.edu	37	chr4	102993502	102993502	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aactgagtttgtatttctagGtaaggaaactgcccacaatg	9	7	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr4:102993502G>T	uc003hvy.3	+	15	2517	c.2243G>T	c.(2242-2244)GGT>GTT	p.G748V	BANK1_uc003hvx.3_Missense_Mutation_p.G733V|BANK1_uc010ill.2_Missense_Mutation_p.G615V|BANK1_uc003hvz.3_Missense_Mutation_p.G718V	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	748					B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		GTATTTCTAGGTAAGGAAACT	0.259													41	50	---	---	---	---	PASS	T	102993502	T	T	102993502	3	4	87	1	0	0	0	0	1	0	0	0	1309	1275	44	3	2301	3	BANK1	4	102993502	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	34613250	102993502	88160774	101	32993										
LRIT3	345193	broad.mit.edu	37	chr4	110791868	110791868	+	Missense_Mutation	SNP	C	A	A													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gggatgactcagagaaattgCtgctttgttctaggtcaagt							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr4:110791868C>A	uc003hzx.3	+	3	2021	c.1828C>A	c.(1828-1830)CTG>ATG	p.L610M	LRIT3_uc003hzw.3_Missense_Mutation_p.L472M	NM_198506	NP_940908	Q3SXY7	LRIT3_HUMAN	leucine-rich repeat, immunoglobulin-like and	610						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;0.0011)		AGAGAAATTGCTGCTTTGTTC	0.458													16	25	---	---	---	---	PASS	A	110791868	A	A	110791868	3	1	87	1	0	0	0	0	1	0	0	0	8949	796	28	3	1838	3	LRIT3	4	110791868	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	7798366	110791868	80362408	102	32994	647	2								
LRIT3	345193	broad.mit.edu	37	chr4	110791869	110791869	+	Missense_Mutation	SNP	T	A	A													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggatgactcagagaaattgcTgctttgttctaggtcaagtg							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr4:110791869T>A	uc003hzx.3	+	3	2022	c.1829T>A	c.(1828-1830)CTG>CAG	p.L610Q	LRIT3_uc003hzw.3_Missense_Mutation_p.L472Q	NM_198506	NP_940908	Q3SXY7	LRIT3_HUMAN	leucine-rich repeat, immunoglobulin-like and	610						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;0.0011)		GAGAAATTGCTGCTTTGTTCT	0.458													17	25	---	---	---	---	PASS	A	110791869	A	A	110791869	3	1	87	1	0	0	0	0	1	0	0	0	8949	1580	55	5	1839	5	LRIT3	4	110791869	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	1	110791869	80362407	103	32995	647	2								
AGA	175	broad.mit.edu	37	chr4	178358674	178358674	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gagggatctggtataacattCtgtaaacaagatttaagttt	9	4	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr4:178358674C>T	uc003iuu.1	-	5	570	c.508_splice	c.e5-1	p.N170_splice	AGA_uc003iuv.1_Splice_Site_p.N74_splice|AGA_uc003iuw.2_Splice_Site_p.N74_splice	NM_000027	NP_000018	P20933	ASPG_HUMAN	aspartylglucosaminidase precursor						asparagine catabolic process via L-aspartate|protein deglycosylation|protein maturation	endoplasmic reticulum|intermediate filament cytoskeleton|lysosome|microtubule cytoskeleton	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0		all_lung(41;1.27e-09)|Lung NSC(41;1.1e-08)|Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Hepatocellular(41;0.148)|all_neural(102;0.164)|Colorectal(36;0.245)		all cancers(43;1.37e-22)|Epithelial(43;3.86e-20)|OV - Ovarian serous cystadenocarcinoma(60;3.8e-11)|Colorectal(24;6.98e-05)|GBM - Glioblastoma multiforme(59;0.000362)|COAD - Colon adenocarcinoma(29;0.000462)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0328)|READ - Rectum adenocarcinoma(43;0.163)		GTATAACATTCTGTAAACAAG	0.338													19	17	---	---	---	---	PASS	T	178358674	T	T	178358674	5	4	87	1	0	0	0	0	0	0	1	0	365	927	32	2	553	2	AGA	4	178358674	Splice_Site	SNP	C	TCGA-39-5027-01A-21D-1817-08	67566805	178358674	12795602	104	32996										
HELT	391723	broad.mit.edu	37	chr4	185941641	185941641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gagccggatttctcctatcaGctgcaccctgcggggcccga	12	15	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr4:185941641G>T	uc011ckq.1	+	4	699	c.699G>T	c.(697-699)CAG>CAT	p.Q233H	HELT_uc011cko.1_Missense_Mutation_p.Q148H|HELT_uc003ixa.3_Missense_Mutation_p.Q147H|HELT_uc011ckp.1_Missense_Mutation_p.Q91H	NM_001029887	NP_001025058	A6NFD8	HELT_HUMAN	HES/HEY-like transcription factor	233	Pro-rich.						DNA binding				0		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;8.92e-26)|Epithelial(43;3.02e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-11)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		TCTCCTATCAGCTGCACCCTG	0.721													18	13	---	---	---	---	PASS	T	185941641	T	T	185941641	3	4	87	1	0	0	0	0	1	0	0	0	7048	962	34	3	713	3	HELT	4	185941641	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	7582967	185941641	5212635	105	32997										
TRIML2	205860	broad.mit.edu	37	chr4	189012671	189012671	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgggagaaattgtaaatgagGgacatctcggtcacattgta	12	5	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr4:189012671G>T	uc003izl.2	-	7	1056	c.1020C>A	c.(1018-1020)TCC>TCA	p.S340S	TRIML2_uc003izj.1_Silent_p.S168S|TRIML2_uc003izk.1_Silent_p.S148S|TRIML2_uc011cle.1_Silent_p.S415S	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	340	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		TGTAAATGAGGGACATCTCGG	0.488													76	65	---	---	---	---	PASS	T	189012671	T	T	189012671	2	4	87	1	0	0	0	0	0	0	0	1	16548	1219	43	3		3	TRIML2	4	189012671	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	3071030	189012671	2141605	106	32998										
DNAH5	1767	broad.mit.edu	37	chr5	13762899	13762899	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tttcgtccaggaacaaagacCagctacatttccacatacgc	6	13	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr5:13762899C>G	uc003jfd.2	-	60	10255	c.10213G>C	c.(10213-10215)GGT>CGT	p.G3405R	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3405	Stalk (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GAACAAAGACCAGCTACATTT	0.423									Kartagener_syndrome				36	67	---	---	---	---	PASS	G	13762899	G	G	13762899	3	3	87	1	0	0	0	0	1	0	0	0	4604	594	21	4	3741	4	DNAH5	5	13762899	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08		13762899	167152361	107	32999										
CDH18	1016	broad.mit.edu	37	chr5	19838880	19838880	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aatcttacctttccaacataCtgaggatctggtcccatatg	6	11	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr5:19838880C>A	uc003jgc.2	-	2	593	c.216G>T	c.(214-216)CAG>CAT	p.Q72H	CDH18_uc003jgd.2_Missense_Mutation_p.Q72H|CDH18_uc011cnm.1_Missense_Mutation_p.Q72H	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	72	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TTCCAACATACTGAGGATCTG	0.378													14	38	---	---	---	---	PASS	A	19838880	A	A	19838880	3	1	87	1	0	0	0	0	1	0	0	0	3103	564	20	3	2200	3	CDH18	5	19838880	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	6075981	19838880	161076380	108	33000										
CDH9	1007	broad.mit.edu	37	chr5	26881656	26881656	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttgtaggtcacaatgttgtcCcggacatcgtcttttgaaat	9	8	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr5:26881656C>A	uc003jgs.1	-	12	2128	c.1959G>T	c.(1957-1959)CGG>CGT	p.R653R	CDH9_uc011cnv.1_Silent_p.R246R	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	653	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						CAATGTTGTCCCGGACATCGT	0.408													64	141	---	---	---	---	PASS	A	26881656	A	A	26881656	2	1	87	1	0	0	0	0	0	0	0	1	3117	610	22	3		3	CDH9	5	26881656	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	7042776	26881656	154033604	109	33001										
CDH9	1007	broad.mit.edu	37	chr5	26885930	26885930	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	taagtaggtgctcattttgtTgcgactgtagccatctttcc	9	9	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr5:26885930T>A	uc003jgs.1	-	11	1844	c.1675A>T	c.(1675-1677)AAC>TAC	p.N559Y	CDH9_uc011cnv.1_Missense_Mutation_p.N152Y	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	559	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						CTCATTTTGTTGCGACTGTAG	0.388													29	39	---	---	---	---	PASS	A	26885930	A	A	26885930	3	1	87	1	0	0	0	0	1	0	0	0	3117	1812	63	5	702	5	CDH9	5	26885930	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	4274	26885930	154029330	110	33002										
CDH9	1007	broad.mit.edu	37	chr5	26902713	26902713	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	acaggaggctcatctatatcTtccacagatattttgaccac	6	11	3	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr5:26902713T>C	uc003jgs.1	-	7	1294	c.1125A>G	c.(1123-1125)GAA>GAG	p.E375E		NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	375	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						CATCTATATCTTCCACAGATA	0.413													29	67	---	---	---	---	PASS	C	26902713	C	C	26902713	2	2	87	1	0	0	0	0	0	0	0	1	3117	1606	56	5		5	CDH9	5	26902713	Silent	SNP	T	TCGA-39-5027-01A-21D-1817-08	16783	26902713	154012547	111	33003										
EGFLAM	133584	broad.mit.edu	37	chr5	38451484	38451484	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccaaggatggccttttgctgTggaggggagacagccccatg	15	10	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr5:38451484T>A	uc003jlc.1	+	20	2959	c.2635T>A	c.(2635-2637)TGG>AGG	p.W879R	EGFLAM_uc003jlb.1_Missense_Mutation_p.W871R|EGFLAM_uc003jle.1_Missense_Mutation_p.W637R|EGFLAM_uc003jlf.1_Missense_Mutation_p.W237R|EGFLAM_uc003jlg.1_Missense_Mutation_p.W14R	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	879	Laminin G-like 3.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					CCTTTTGCTGTGGAGGGGAGA	0.507													59	108	---	---	---	---	PASS	A	38451484	A	A	38451484	3	1	87	1	0	0	0	0	1	0	0	0	4966	1696	59	5	2699	5	EGFLAM	5	38451484	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	11548771	38451484	142463776	112	33004										
PPIP5K2	23262	broad.mit.edu	37	chr5	102487021	102487021	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctatgtctgtgatgtcaatgGcttcagttttgtgaaaaatt	9	5	3	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr5:102487021G>C	uc003kod.3	+	9	1490	c.971G>C	c.(970-972)GGC>GCC	p.G324A	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.G324A|PPIP5K2_uc010jbo.1_Missense_Mutation_p.G246A	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	324					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						GATGTCAATGGCTTCAGTTTT	0.299													30	37	---	---	---	---	PASS	C	102487021	C	C	102487021	3	2	87	1	0	0	0	0	1	0	0	0	12333	1203	42	4	1001	4	PPIP5K2	5	102487021	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	64035537	102487021	78428239	113	33005										
PCDHB2	56133	broad.mit.edu	37	chr5	140475430	140475430	+	Frame_Shift_Del	DEL	G	-	-													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cctccggaactaactatgtcGacacttatcaatcagatccc							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr5:140475430delG	uc003lil.2	+	1	1194	c.1056delG	c.(1054-1056)TCGfs	p.S352fs	PCDHB2_uc003lim.1_Frame_Shift_Del_p.S13fs	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	352	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TAACTATGTCGACACTTATCA	0.463													20	16	---	---	---	---		-	140475430	-	-	140475430	7	5	87	1	0	1	0	1	0	0	0	0	11542	1045	37	0	1058	0	PCDHB2	5	140475430	Frame_Shift_Del	DEL	G	TCGA-39-5027-01A-21D-1817-08	37988409	140475430	40439830	114	33006										
PCDHB12	56124	broad.mit.edu	37	chr5	140588761	140588761	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gaaatgctagacagggaggaGctctgtggctccaatgagcc	14	9	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr5:140588761G>C	uc003liz.2	+	1	471	c.282G>C	c.(280-282)GAG>GAC	p.E94D	PCDHB12_uc011dak.1_Intron	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	94	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACAGGGAGGAGCTCTGTGGCT	0.478													56	38	---	---	---	---	PASS	C	140588761	C	C	140588761	3	2	87	1	0	0	0	0	1	0	0	0	11537	962	34	4	284	4	PCDHB12	5	140588761	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	113331	140588761	40326499	115	33007										
PCDHGA1	56114	broad.mit.edu	37	chr5	140712343	140712343	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgtacctggtggtggcggcgGccgcggtctcctgcgtcttc	16	13	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr5:140712343G>T	uc003lji.1	+	1	2092	c.2092G>T	c.(2092-2094)GCC>TCC	p.A698S	PCDHGA1_uc011dan.1_Missense_Mutation_p.A698S	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	698	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGGCGGCGGCCGCGGTCTC	0.677													45	52	---	---	---	---	PASS	T	140712343	T	T	140712343	3	4	87	1	0	0	0	0	1	0	0	0	11550	1203	42	3	2094	3	PCDHGA1	5	140712343	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	123582	140712343	40202917	116	33008										
NIPAL4	348938	broad.mit.edu	37	chr5	156899620	156899620	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aacagagcactggacattttCaacacttccctggtgttccc	7	13	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr5:156899620C>G	uc003lwx.3	+	6	1169	c.1053C>G	c.(1051-1053)TTC>TTG	p.F351L	ADAM19_uc003lww.1_Intron|NIPAL4_uc011ddq.1_Missense_Mutation_p.F332L	NM_001099287	NP_001092757	Q0D2K0	NIPA4_HUMAN	ichthyin protein	351	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						TGGACATTTTCAACACTTCCC	0.547											OREG0016979	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	38	40	---	---	---	---	PASS	G	156899620	G	G	156899620	3	3	87	1	0	0	0	0	1	0	0	0	10427	825	29	2	1075	2	NIPAL4	5	156899620	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	16187277	156899620	24015640	117	33009										
DOCK2	1794	broad.mit.edu	37	chr5	169144478	169144478	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aacagcatttcagtgcgaccTtggcttacaagtaagtaatt	8	8	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr5:169144478T>C	uc003maf.2	+	21	2202	c.2122T>C	c.(2122-2124)TTG>CTG	p.L708L	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.L200L	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	708					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAGTGCGACCTTGGCTTACAA	0.448													48	41	---	---	---	---	PASS	C	169144478	C	C	169144478	2	2	87	1	0	0	0	0	0	0	0	1	4687	1606	56	5		5	DOCK2	5	169144478	Silent	SNP	T	TCGA-39-5027-01A-21D-1817-08	12244858	169144478	11770782	118	33010										
TMEM170B	100113407	broad.mit.edu	37	chr6	11566052	11566052	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tggatttctggcttctgtaaCtggagcgatgattaccagta	11	7	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:11566052C>A	uc010jpa.2	+	2	251	c.251C>A	c.(250-252)ACT>AAT	p.T84N		NM_001100829	NP_001094299	Q5T4T1	T170B_HUMAN	transmembrane protein 170B	84	Helical; (Potential).					integral to membrane					0						GCTTCTGTAACTGGAGCGATG	0.418													12	126	---	---	---	---	PASS	A	11566052	A	A	11566052	3	1	87	1	0	0	0	0	1	0	0	0	16084	565	20	3	257	3	TMEM170B	6	11566052	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08		11566052	159549015	119	33011										
SCGN	10590	broad.mit.edu	37	chr6	25661812	25661812	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aaagcaaatttgcacaaggtGaaacagcagtttatgactac	8	7	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:25661812G>T	uc003nfb.2	+	3	389	c.186G>T	c.(184-186)GTG>GTT	p.V62V	SCGN_uc010jpz.2_5'UTR	NM_006998	NP_008929	O76038	SEGN_HUMAN	secretagogin precursor	62	EF-hand 2.					extracellular region|transport vesicle membrane	calcium ion binding			ovary(2)|pancreas(1)	3						TGCACAAGGTGAAACAGCAGT	0.408													7	36	---	---	---	---	PASS	T	25661812	T	T	25661812	2	4	87	1	0	0	0	0	0	0	0	1	13903	1277	45	2		2	SCGN	6	25661812	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	14095760	25661812	145453255	120	33012										
OR2B6	26212	broad.mit.edu	37	chr6	27925240	27925240	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctcctggatctttgttacacCacatgtacagtcccacaaat	5	13	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:27925240C>G	uc011dkx.1	+	1	222	c.222C>G	c.(220-222)ACC>ACG	p.T74T		NM_012367	NP_036499	P58173	OR2B6_HUMAN	olfactory receptor, family 2, subfamily B,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TTTGTTACACCACATGTACAG	0.418													11	81	---	---	---	---	PASS	G	27925240	G	G	27925240	2	3	87	1	0	0	0	0	0	0	0	1	10991	581	21	4		4	OR2B6	6	27925240	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	2263428	27925240	143189827	121	33013										
TNXB	7148	broad.mit.edu	37	chr6	32016321	32016321	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgtaccaggaaggagtcaaaGgggccctgggccaccgtcca	14	12	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:32016321G>T	uc003nzl.2	-	29	10060	c.9858C>A	c.(9856-9858)CCC>CCA	p.P3286P	TNXB_uc003nzg.1_5'Flank|TNXB_uc003nzh.1_5'Flank	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3333	Fibronectin type-III 25.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						AGGAGTCAAAGGGGCCCTGGG	0.716													9	20	---	---	---	---	PASS	T	32016321	T	T	32016321	2	4	87	1	0	0	0	0	0	0	0	1	16343	987	35	3		3	TNXB	6	32016321	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	4091081	32016321	139098746	122	33014										
HLA-DQA2	3118	broad.mit.edu	37	chr6	32714033	32714033	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	acagagcctgagattccagcCcctatgtcagagctcacaga	9	13	2	4	rs139553288	by1000genomes	TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:32714033C>T	uc003obx.2	+	4	688	c.630C>T	c.(628-630)GCC>GCT	p.A210A		NM_020056	NP_064440	P01906	DQA2_HUMAN	major histocompatibility complex, class II, DQ	210	Extracellular (Potential).|Connecting peptide.				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)	AGATTCCAGCCCCTATGTCAG	0.572													8	110	---	---	---	---	PASS	T	32714033	T	T	32714033	2	4	87	1	0	0	0	0	0	0	0	1	7205	610	22	3		3	HLA-DQA2	6	32714033	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	697712	32714033	138401034	123	33015										
SYNGAP1	8831	broad.mit.edu	37	chr6	33405482	33405482	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agacaatgtgctaaagctgtGgatcatagaggcccgggagc	14	8	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:33405482G>T	uc011dri.1	+	8	995	c.800G>T	c.(799-801)TGG>TTG	p.W267L	SYNGAP1_uc003oeo.1_Missense_Mutation_p.W252L|SYNGAP1_uc010juy.2_Missense_Mutation_p.W252L|SYNGAP1_uc010juz.2_5'UTR	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	267	C2.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						CTAAAGCTGTGGATCATAGAG	0.582													84	105	---	---	---	---	PASS	T	33405482	T	T	33405482	3	4	87	1	0	0	0	0	1	0	0	0	15444	1357	47	3	830	3	SYNGAP1	6	33405482	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	691449	33405482	137709585	124	33016										
TFEB	7942	broad.mit.edu	37	chr6	41658460	41658460	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggggctattgggagcactgtTgccagcggaggaggacagca	18	8	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:41658460T>G	uc003oqs.1	-	4	711	c.409A>C	c.(409-411)AAC>CAC	p.N137H	TFEB_uc003oqt.1_Missense_Mutation_p.N137H|TFEB_uc003oqu.1_Missense_Mutation_p.N151H|TFEB_uc003oqv.1_Missense_Mutation_p.N137H|TFEB_uc010jxo.1_Missense_Mutation_p.N137H|TFEB_uc003oqx.1_Missense_Mutation_p.N137H|TFEB_uc003oqr.1_Intron|TFEB_uc003oqw.1_Missense_Mutation_p.N137H	NM_007162	NP_009093	P19484	TFEB_HUMAN	transcription factor EB	137				GSPKPPPAASPGVRAGHVLSSSAGNSAPN -> ALRNPHQP PPQGCELDTCCPPPLATVLPI (in Ref. 1; AAA36730).	embryonic placenta development|humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;7.61e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GGAGCACTGTTGCCAGCGGAG	0.652			T	ALPHA	renal (childhood epithelioid)								9	33	---	---	---	---	PASS	G	41658460	G	G	41658460	3	3	87	1	0	0	0	0	1	0	0	0	15798	1812	63	5	1049	5	TFEB	6	41658460	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	8252978	41658460	129456607	125	33017										
RHAG	6005	broad.mit.edu	37	chr6	49582509	49582509	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tggccctgcactgtttgtctCcaggttcagcaatggccgag	12	12	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:49582509C>T	uc003ozk.3	-	5	760	c.698G>A	c.(697-699)GGA>GAA	p.G233E	RHAG_uc010jzl.2_Missense_Mutation_p.G233E|RHAG_uc010jzm.2_Missense_Mutation_p.G233E	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein	233	Extracellular (Potential).				carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					CTGTTTGTCTCCAGGTTCAGC	0.502													46	61	---	---	---	---	PASS	T	49582509	T	T	49582509	3	4	87	1	0	0	0	0	1	0	0	0	13315	855	30	2	555	2	RHAG	6	49582509	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	7924049	49582509	121532558	126	33018										
COL21A1	81578	broad.mit.edu	37	chr6	56044682	56044682	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cttccctgtctttgtgtttcCtcctaagtagagtatggatt	8	9	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:56044682C>T	uc003pcs.2	-	3	566	c.334G>A	c.(334-336)GGA>AGA	p.G112R	COL21A1_uc003pct.1_RNA|COL21A1_uc011dxi.1_Missense_Mutation_p.G112R|COL21A1_uc003pcu.1_Missense_Mutation_p.G112R	NM_030820	NP_110447	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1 precursor	112	VWFA.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(2)	2	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			TTTGTGTTTCCTCCTAAGTAG	0.468													17	25	---	---	---	---	PASS	T	56044682	T	T	56044682	3	4	87	1	0	0	0	0	1	0	0	0	3680	690	24	3	2651	3	COL21A1	6	56044682	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	6462173	56044682	115070385	127	33019										
LGSN	51557	broad.mit.edu	37	chr6	63990918	63990918	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gtaccttggggaagtcaaaaGaggctcaccagtcacagtga	12	9	3	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:63990918G>C	uc003peh.2	-	4	572	c.538C>G	c.(538-540)CTT>GTT	p.L180V	LGSN_uc003pei.2_Intron	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	180					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	GAAGTCAAAAGAGGCTCACCA	0.453													10	46	---	---	---	---	PASS	C	63990918	C	C	63990918	3	2	87	1	0	0	0	0	1	0	0	0	8759	942	33	2	995	2	LGSN	6	63990918	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	7946236	63990918	107124149	128	33020										
FAM135A	57579	broad.mit.edu	37	chr6	71162203	71162203	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	attttgctttagtttttaccAgattcgtgcttctatgaaaa	6	6	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:71162203A>G	uc003pfj.2	+	3	219	c.86A>G	c.(85-87)CAG>CGG	p.Q29R	FAM135A_uc003pfi.2_Missense_Mutation_p.Q29R|FAM135A_uc003pfh.2_Intron|FAM135A_uc003pfk.2_Missense_Mutation_p.Q29R|FAM135A_uc003pfl.2_5'UTR	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	29										central_nervous_system(1)	1						AGTTTTTACCAGATTCGTGCT	0.308													19	30	---	---	---	---	PASS	G	71162203	G	G	71162203	3	3	87	1	0	0	0	0	1	0	0	0	5448	188	7	5	92	5	FAM135A	6	71162203	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	7171285	71162203	99952864	129	33021										
IMPG1	3617	broad.mit.edu	37	chr6	76713620	76713620	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aacagcaaaagatgtgggcaGctctgattgggtgtcaggac	14	7	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:76713620G>T	uc003pik.1	-	11	1313	c.1183C>A	c.(1183-1185)CTG>ATG	p.L395M		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	395					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				GATGTGGGCAGCTCTGATTGG	0.388													5	28	---	---	---	---	PASS	T	76713620	T	T	76713620	3	4	87	1	0	0	0	0	1	0	0	0	7728	962	34	3	1238	3	IMPG1	6	76713620	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	5551417	76713620	94401447	130	33022										
DOPEY1	23033	broad.mit.edu	37	chr6	83838904	83838904	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gaagacagcccaaaagactgCaatgcagtgctgcttggagt	12	9	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:83838904C>T	uc003pjs.1	+	16	2278	c.2018C>T	c.(2017-2019)GCA>GTA	p.A673V	DOPEY1_uc011dyy.1_Missense_Mutation_p.A664V|DOPEY1_uc010kbl.1_Missense_Mutation_p.A664V	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	673					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)		CAAAAGACTGCAATGCAGTGC	0.463													4	70	---	---	---	---	PASS	T	83838904	T	T	83838904	3	4	87	1	0	0	0	0	1	0	0	0	4707	710	25	3	2072	3	DOPEY1	6	83838904	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	7125284	83838904	87276163	131	33023										
CNR1	1268	broad.mit.edu	37	chr6	88854060	88854060	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gatgatgctcttctgggtgcCacgctgaatcatgcggacgg	14	10	3	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:88854060C>T	uc011dzq.1	-	2	4497	c.934G>A	c.(934-936)GGC>AGC	p.G312S	CNR1_uc010kbz.2_Missense_Mutation_p.G312S|CNR1_uc011dzr.1_Missense_Mutation_p.G312S|CNR1_uc011dzs.1_Missense_Mutation_p.G312S|CNR1_uc003pmq.3_Missense_Mutation_p.G312S|CNR1_uc011dzt.1_Missense_Mutation_p.G312S|CNR1_uc010kca.2_Missense_Mutation_p.G279S	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	312	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	TTCTGGGTGCCACGCTGAATC	0.557													38	45	---	---	---	---	PASS	T	88854060	T	T	88854060	3	4	87	1	0	0	0	0	1	0	0	0	3631	594	21	3	488	3	CNR1	6	88854060	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	5015156	88854060	82261007	132	33024										
FHL5	9457	broad.mit.edu	37	chr6	97063490	97063490	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccaattcctttacaggtctcAcaggtgccaagtttatctgc	7	12	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:97063490A>T	uc003pos.1	+	7	1102	c.697A>T	c.(697-699)ACA>TCA	p.T233S	FHL5_uc003pot.1_Missense_Mutation_p.T233S	NM_020482	NP_065228	Q5TD97	FHL5_HUMAN	activator of cAMP-responsive element modulator	233	LIM zinc-binding 4.					nucleus	zinc ion binding			ovary(2)	2		all_cancers(76;1.57e-07)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00266)|Colorectal(196;0.0341)|Lung NSC(302;0.204)		BRCA - Breast invasive adenocarcinoma(108;0.0948)		TACAGGTCTCACAGGTGCCAA	0.303													13	58	---	---	---	---	PASS	T	97063490	T	T	97063490	3	4	87	1	0	0	0	0	1	0	0	0	5881	159	6	5	715	5	FHL5	6	97063490	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	8209430	97063490	74051577	133	33025										
SIM1	6492	broad.mit.edu	37	chr6	100868810	100868810	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gagatctgatccagggagagCtgcagccctttgtattctgt	12	9	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:100868810C>G	uc003pqj.3	-	9	1230	c.1023G>C	c.(1021-1023)CAG>CAC	p.Q341H	SIM1_uc010kcu.2_Missense_Mutation_p.Q341H	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	341	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		CCAGGGAGAGCTGCAGCCCTT	0.527													6	26	---	---	---	---	PASS	G	100868810	G	G	100868810	3	3	87	1	0	0	0	0	1	0	0	0	14323	796	28	4	1289	4	SIM1	6	100868810	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	3805320	100868810	70246257	134	33026										
LAMA4	3910	broad.mit.edu	37	chr6	112440359	112440359	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cctggtcatgcctggcttacCtgaacatttttcacagcctt	7	13	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:112440359C>A	uc003pvu.2	-	34	5130	c.4821G>T	c.(4819-4821)CAG>CAT	p.Q1607H	LAMA4_uc003pvv.2_Missense_Mutation_p.Q1600H|LAMA4_uc003pvt.2_Missense_Mutation_p.Q1600H	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1607	Laminin G-like 4.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CCTGGCTTACCTGAACATTTT	0.299													7	52	---	---	---	---	PASS	A	112440359	A	A	112440359	3	1	87	1	0	0	0	0	1	0	0	0	8608	695	24	3	674	3	LAMA4	6	112440359	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	11571549	112440359	58674708	135	33027										
DSE	29940	broad.mit.edu	37	chr6	116720781	116720781	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tcctgagaacattgaagcccGagacatggccaaagactaca	9	11	0	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:116720781G>A	uc003pws.2	+	2	562	c.368G>A	c.(367-369)CGA>CAA	p.R123Q	DSE_uc011ebf.1_Missense_Mutation_p.R123Q|DSE_uc003pwq.1_Missense_Mutation_p.R123Q|DSE_uc011ebg.1_Missense_Mutation_p.R142Q|DSE_uc003pwt.2_Missense_Mutation_p.R123Q	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	123					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		ATTGAAGCCCGAGACATGGCC	0.458													6	77	---	---	---	---	PASS	A	116720781	A	A	116720781	3	1	87	1	0	0	0	0	1	0	0	0	4774	1058	37	2	370	2	DSE	6	116720781	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	4280422	116720781	54394286	136	33028										
RSPO3	84870	broad.mit.edu	37	chr6	127476428	127476428	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gaatccttggagtccatgcaCgaagaagggaaaaacatgtg	12	7	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:127476428C>A	uc003qar.2	+	4	769	c.479C>A	c.(478-480)ACG>AAG	p.T160K	RSPO3_uc003qas.1_Missense_Mutation_p.T160K	NM_032784	NP_116173	Q9BXY4	RSPO3_HUMAN	R-spondin 3 precursor	160	TSP type-1.					extracellular region	heparin binding				0				GBM - Glioblastoma multiforme(226;0.0555)		AGTCCATGCACGAAGAAGGGA	0.463													22	151	---	---	---	---	PASS	A	127476428	A	A	127476428	3	1	87	1	0	0	0	0	1	0	0	0	13711	536	19	1	493	1	RSPO3	6	127476428	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	10755647	127476428	43638639	137	33029										
IFNGR1	3459	broad.mit.edu	37	chr6	137519616	137519616	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cttctgtatgttccacttttCctggattgtcttcggtatgc	8	10	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:137519616C>A	uc003qho.2	-	7	1125	c.1022G>T	c.(1021-1023)GGA>GTA	p.G341V	IFNGR1_uc011edm.1_Missense_Mutation_p.G313V	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	341	Cytoplasmic (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	TTCCACTTTTCCTGGATTGTC	0.458													9	44	---	---	---	---	PASS	A	137519616	A	A	137519616	3	1	87	1	0	0	0	0	1	0	0	0	7549	855	30	2	451	2	IFNGR1	6	137519616	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	10043188	137519616	33595451	138	33030										
SYNE1	23345	broad.mit.edu	37	chr6	152650870	152650870	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tcctattatacccacctgtcTggtgcgtaaggcttcctgga	9	12	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:152650870T>C	uc010kiw.2	-	78	15552	c.14950A>G	c.(14950-14952)AGA>GGA	p.R4984G	SYNE1_uc003qot.3_Missense_Mutation_p.R4913G|SYNE1_uc003qou.3_Missense_Mutation_p.R4984G|SYNE1_uc010kiz.2_Missense_Mutation_p.R739G	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4984	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)		CCCACCTGTCTGGTGCGTAAG	0.438										HNSCC(10;0.0054)			7	98	---	---	---	---	PASS	C	152650870	C	C	152650870	3	2	87	1	0	0	0	0	1	0	0	0	15442	1588	55	5	11792	5	SYNE1	6	152650870	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	15131254	152650870	18464197	139	33031										
SYNE1	23345	broad.mit.edu	37	chr6	152651898	152651898	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aagcatttagcttttcactgAggtaggaatgatcgacttca	9	7	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:152651898A>T	uc010kiw.2	-	78	14524	c.13922T>A	c.(13921-13923)CTC>CAC	p.L4641H	SYNE1_uc003qot.3_Missense_Mutation_p.L4570H|SYNE1_uc003qou.3_Missense_Mutation_p.L4641H|SYNE1_uc010kiz.2_Missense_Mutation_p.L396H	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4641	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)		CTTTTCACTGAGGTAGGAATG	0.398										HNSCC(10;0.0054)			40	59	---	---	---	---	PASS	T	152651898	T	T	152651898	3	4	87	1	0	0	0	0	1	0	0	0	15442	304	11	5	12820	5	SYNE1	6	152651898	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	1028	152651898	18463169	140	33032										
SYNE1	23345	broad.mit.edu	37	chr6	152762327	152762327	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aaaactcaagaagcgttcatGactggaacctgtttgaaaaa	8	7	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:152762327G>T	uc010kiw.2	-	32	4689	c.4087C>A	c.(4087-4089)CAT>AAT	p.H1363N	SYNE1_uc003qot.3_Missense_Mutation_p.H1370N|SYNE1_uc003qou.3_Missense_Mutation_p.H1363N|SYNE1_uc010kjb.1_Missense_Mutation_p.H1346N|SYNE1_uc003qow.2_Missense_Mutation_p.H658N|SYNE1_uc003qox.1_Missense_Mutation_p.H879N	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1363	Potential.|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)		AAGCGTTCATGACTGGAACCT	0.328										HNSCC(10;0.0054)			13	17	---	---	---	---	PASS	T	152762327	T	T	152762327	3	4	87	1	0	0	0	0	1	0	0	0	15442	1290	45	2	22839	2	SYNE1	6	152762327	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	110429	152762327	18352740	141	33033										
FBXO5	26271	broad.mit.edu	37	chr6	153296183	153296183	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tctgcagtctaaaatttcctCtggctataatttccttcagc	5	11	4	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:153296183C>G	uc003qpg.2	-	2	786	c.677G>C	c.(676-678)AGA>ACA	p.R226T	FBXO5_uc003qph.2_Missense_Mutation_p.R180T	NM_012177	NP_036309	Q9UKT4	FBX5_HUMAN	F-box only protein 5 isoform a	226	Interaction with EVI5.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic metaphase/anaphase transition|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 mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm|spindle	metal ion binding|protein binding				0		Ovarian(120;0.125)		OV - Ovarian serous cystadenocarcinoma(155;4.38e-10)|BRCA - Breast invasive adenocarcinoma(81;0.0893)		AAAATTTCCTCTGGCTATAAT	0.368													7	73	---	---	---	---	PASS	G	153296183	G	G	153296183	3	3	87	1	0	0	0	0	1	0	0	0	5758	913	32	2	682	2	FBXO5	6	153296183	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	533856	153296183	17818884	142	33034										
PDE10A	10846	broad.mit.edu	37	chr6	165848854	165848854	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tttatcccaggtggcgtgaaTatacacaggctctagggaga	12	8	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr6:165848854T>A	uc003qun.2	-	7	619	c.378A>T	c.(376-378)ATA>ATT	p.I126I	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Silent_p.I56I|PDE10A_uc003quo.2_Silent_p.I136I	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	126	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	GTGGCGTGAATATACACAGGC	0.473													16	18	---	---	---	---	PASS	A	165848854	A	A	165848854	2	1	87	1	0	0	0	0	0	0	0	1	11630	1396	49	5		5	PDE10A	6	165848854	Silent	SNP	T	TCGA-39-5027-01A-21D-1817-08	12552671	165848854	5266213	143	33035										
MAD1L1	8379	broad.mit.edu	37	chr7	2255829	2255829	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctcccgcagctgcttcagctCccgttccagcctagggagcc	10	18	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:2255829C>A	uc003slh.1	-	8	1038	c.772G>T	c.(772-774)GAG>TAG	p.E258*	MAD1L1_uc003sle.1_5'Flank|MAD1L1_uc003slf.1_Nonsense_Mutation_p.E258*|MAD1L1_uc003slg.1_Nonsense_Mutation_p.E258*|MAD1L1_uc010ksh.1_Nonsense_Mutation_p.E258*|MAD1L1_uc003sli.1_Nonsense_Mutation_p.E166*|MAD1L1_uc010ksi.1_Nonsense_Mutation_p.E211*|MAD1L1_uc010ksj.2_Nonsense_Mutation_p.E258*	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	258	Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		TGCTTCAGCTCCCGTTCCAGC	0.622													37	50	---	---	---	---	PASS	A	2255829	A	A	2255829	4	1	87	1	0	0	0	0	0	1	0	0	9147	864	30	2	1432	2	MAD1L1	7	2255829	Nonsense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08		2255829	156882834	144	33036										
USP42	84132	broad.mit.edu	37	chr7	6194338	6194338	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggccgggagaagttctacccCgacaggccgcgctgggacag	16	13	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:6194338C>T	uc011jwo.1	+	15	3276	c.3153C>T	c.(3151-3153)CCC>CCT	p.P1051P	USP42_uc011jwp.1_Silent_p.P1051P|USP42_uc011jwq.1_Silent_p.P858P|USP42_uc011jwr.1_Silent_p.P896P	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	1051	Arg-rich.				cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		AGTTCTACCCCGACAGGCCGC	0.692													6	7	---	---	---	---	PASS	T	6194338	T	T	6194338	2	4	87	1	0	0	0	0	0	0	0	1	17070	639	23	1		1	USP42	7	6194338	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	3938509	6194338	152944325	145	33037										
ABCB5	340273	broad.mit.edu	37	chr7	20682940	20682940	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tttttcattcagttttggcaCaggacatcggctggtttgat	10	7	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:20682940C>A	uc010kuh.2	+	6	685	c.448C>A	c.(448-450)CAG>AAG	p.Q150K		NM_001163941	NP_001157413	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	334	Extracellular (Potential).|ABC transmembrane type-1.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						AGTTTTGGCACAGGACATCGG	0.398													16	40	---	---	---	---	PASS	A	20682940	A	A	20682940	3	1	87	1	0	0	0	0	1	0	0	0	44	479	17	3	466	3	ABCB5	7	20682940	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	14488602	20682940	138455723	146	33038										
DNAH11	8701	broad.mit.edu	37	chr7	21640753	21640753	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttaaccataattaagaaatgGagctggatgtttcaggagca	10	5	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:21640753G>A	uc003svc.2	+	17	3412	c.3381G>A	c.(3379-3381)TGG>TGA	p.W1127*		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1127	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TTAAGAAATGGAGCTGGATGT	0.348									Kartagener_syndrome				8	94	---	---	---	---	PASS	A	21640753	A	A	21640753	4	1	87	1	0	0	0	0	0	1	0	0	4599	1183	41	2	3447	2	DNAH11	7	21640753	Nonsense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	957813	21640753	137497910	147	33039										
BBS9	27241	broad.mit.edu	37	chr7	33303909	33303909	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttctttcatacaggtaccagGtacttgcttttgcaacagat	7	9	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:33303909G>T	uc003tdn.1	+	7	1138	c.625G>T	c.(625-627)GTA>TTA	p.V209L	BBS9_uc003tdo.1_Missense_Mutation_p.V209L|BBS9_uc003tdp.1_Missense_Mutation_p.V209L|BBS9_uc003tdq.1_Missense_Mutation_p.V209L|BBS9_uc010kwn.1_RNA|BBS9_uc011kan.1_Missense_Mutation_p.V209L|BBS9_uc011kao.1_Missense_Mutation_p.V87L	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	209					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			CAGGTACCAGGTACTTGCTTT	0.244									Bardet-Biedl_syndrome				27	55	---	---	---	---	PASS	T	33303909	T	T	33303909	3	4	87	1	0	0	0	0	1	0	0	0	1342	1261	44	3	647	3	BBS9	7	33303909	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	11663156	33303909	125834754	148	33040										
AMPH	273	broad.mit.edu	37	chr7	38471793	38471793	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gttattagtggcttaccgtcCataggtcccagggcaatgtc	11	10	0	0	rs145380938		TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:38471793C>A	uc003tgu.2	-	13	1223	c.1154G>T	c.(1153-1155)TGG>TTG	p.W385L	AMPH_uc003tgv.2_Missense_Mutation_p.W385L|AMPH_uc003tgt.2_Missense_Mutation_p.W138L|AMPH_uc003tgw.1_5'Flank|AMPH_uc010kxl.1_5'Flank	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	385					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						GCTTACCGTCCATAGGTCCCA	0.323													46	66	---	---	---	---	PASS	A	38471793	A	A	38471793	3	1	87	1	0	0	0	0	1	0	0	0	588	595	21	3	969	3	AMPH	7	38471793	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	5167884	38471793	120666870	149	33041										
YKT6	10652	broad.mit.edu	37	chr7	44247777	44247777	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctaaagtgcaggccgaactaGatgagaccaaaatcattctg	9	9	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:44247777G>T	uc003tkm.2	+	5	596	c.439G>T	c.(439-441)GAT>TAT	p.D147Y	YKT6_uc011kbv.1_Missense_Mutation_p.D147Y	NM_006555	NP_006546	O15498	YKT6_HUMAN	YKT6 v-SNARE protein	147	v-SNARE coiled-coil homology.				ER to Golgi vesicle-mediated transport|protein transport|retrograde transport, endosome to Golgi|vesicle docking involved in exocytosis|vesicle targeting	cytoplasmic vesicle membrane|cytosol|endoplasmic reticulum|endosome|Golgi membrane|integral to plasma membrane|mitochondrion|SNARE complex	protein-cysteine S-palmitoleyltransferase activity|SNAP receptor activity				0						GGCCGAACTAGATGAGACCAA	0.493													11	25	---	---	---	---	PASS	T	44247777	T	T	44247777	3	4	87	1	0	0	0	0	1	0	0	0	17482	942	33	2	457	2	YKT6	7	44247777	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	5775984	44247777	114890886	150	33042										
TNS3	64759	broad.mit.edu	37	chr7	47384613	47384613	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccatcgataatatcgaggtcCtggggatagccaggggtcat	13	9	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:47384613C>A	uc003tnv.2	-	19	2842	c.2475G>T	c.(2473-2475)CAG>CAT	p.Q825H	TNS3_uc003tnw.2_Missense_Mutation_p.Q825H	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	825						focal adhesion	protein binding			ovary(4)	4						TATCGAGGTCCTGGGGATAGC	0.488													19	53	---	---	---	---	PASS	A	47384613	A	A	47384613	3	1	87	1	0	0	0	0	1	0	0	0	16341	680	24	3	1914	3	TNS3	7	47384613	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	3136836	47384613	111754050	151	33043										
DMTF1	9988	broad.mit.edu	37	chr7	86813864	86813864	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gaaaagcaatgtcgttctaaAtggctcaactacctgaattg	8	8	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:86813864A>G	uc003uih.2	+	11	1298	c.972A>G	c.(970-972)AAA>AAG	p.K324K	DMTF1_uc003uii.2_Silent_p.K58K|DMTF1_uc003uij.2_Silent_p.K58K|DMTF1_uc011khb.1_Silent_p.K236K|DMTF1_uc003uik.2_RNA|DMTF1_uc003uil.2_Silent_p.K324K|DMTF1_uc003uin.2_Silent_p.K58K	NM_001142327	NP_001135799	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	324	H-T-H motif (By similarity).|Interaction with CCND1, CCND2 and CCND3 (By similarity).|HTH myb-type.|Required for DNA-binding (By similarity).				cell cycle	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(14;0.0058)					GTCGTTCTAAATGGCTCAACT	0.478													42	52	---	---	---	---	PASS	G	86813864	G	G	86813864	2	3	87	1	0	0	0	0	0	0	0	1	4592	98	4	5		5	DMTF1	7	86813864	Silent	SNP	A	TCGA-39-5027-01A-21D-1817-08	39429251	86813864	72324799	152	33044										
MUC17	140453	broad.mit.edu	37	chr7	100675756	100675756	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gccacttctgaaatgagcacActttcaataactcctgttga	6	11	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:100675756A>G	uc003uxp.1	+	3	1112	c.1059A>G	c.(1057-1059)ACA>ACG	p.T353T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	353	Extracellular (Potential).|Ser-rich.|3.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AAATGAGCACACTTTCAATAA	0.478													113	347	---	---	---	---	PASS	G	100675756	G	G	100675756	2	3	87	1	0	0	0	0	0	0	0	1	9974	146	6	5		5	MUC17	7	100675756	Silent	SNP	A	TCGA-39-5027-01A-21D-1817-08	13861892	100675756	58462907	153	33045										
PPP1R3A	5506	broad.mit.edu	37	chr7	113518576	113518576	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aaatccagttttgaagttgcTttttgatattctgtaatgac	7	5	1	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:113518576T>A	uc010ljy.1	-	4	2602	c.2571A>T	c.(2569-2571)AAA>AAT	p.K857N		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	857					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TTGAAGTTGCTTTTTGATATT	0.368													46	149	---	---	---	---	PASS	A	113518576	A	A	113518576	3	1	87	1	0	0	0	0	1	0	0	0	12371	1606	56	5	801	5	PPP1R3A	7	113518576	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	12842820	113518576	45620087	154	33046										
SLC13A1	6561	broad.mit.edu	37	chr7	122757565	122757565	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gaccatatgaaaagacaataGcattgggtggatttgctact	10	6	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:122757565G>T	uc003vkm.2	-	14	1635	c.1610C>A	c.(1609-1611)GCT>GAT	p.A537D	SLC13A1_uc010lks.2_Missense_Mutation_p.A413D	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	537						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	AAAGACAATAGCATTGGGTGG	0.398													18	68	---	---	---	---	PASS	T	122757565	T	T	122757565	3	4	87	1	0	0	0	0	1	0	0	0	14391	971	34	3	185	3	SLC13A1	7	122757565	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	9238989	122757565	36381098	155	33047										
ARF5	381	broad.mit.edu	37	chr7	127229539	127229539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttttttccaattatctgcagGcttcaatgtagaaacagtgg	8	7	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:127229539G>T	uc003vmb.1	+	3	185	c.149G>T	c.(148-150)GGC>GTC	p.G50V	ARF5_uc010llb.1_Missense_Mutation_p.G50V|FSCN3_uc003vmc.1_5'Flank	NM_001662	NP_001653	P84085	ARF5_HUMAN	ADP-ribosylation factor 5	50					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	Golgi apparatus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1						TTATCTGCAGGCTTCAATGTA	0.438													19	99	---	---	---	---	PASS	T	127229539	T	T	127229539	3	4	87	1	0	0	0	0	1	0	0	0	847	1217	42	3	159	3	ARF5	7	127229539	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	4471974	127229539	31909124	156	33048										
FAM40B	57464	broad.mit.edu	37	chr7	129083936	129083936	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttgaagaagatttcaagactCaaggtaattccagatcttta	7	6	3	5			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:129083936C>G	uc011koy.1	+	3	311	c.271C>G	c.(271-273)CAA>GAA	p.Q91E	FAM40B_uc003vow.2_Missense_Mutation_p.Q91E	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	91											0						TTTCAAGACTCAAGGTAATTC	0.383													3	42	---	---	---	---	PASS	G	129083936	G	G	129083936	3	3	87	1	0	0	0	0	1	0	0	0	5561	827	29	2	281	2	FAM40B	7	129083936	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	1854397	129083936	30054727	157	33049										
KCNH2	3757	broad.mit.edu	37	chr7	150649746	150649746	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggcgtagccacactcggtagCaggcgggccttcttccgtct	13	14	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:150649746C>A	uc003wic.2	-	6	1337	c.1324G>T	c.(1324-1326)GCT>TCT	p.A442S	KCNH2_uc003wib.2_Missense_Mutation_p.A102S|KCNH2_uc011kux.1_Missense_Mutation_p.A346S|KCNH2_uc003wid.2_Missense_Mutation_p.A102S|KCNH2_uc003wie.2_Missense_Mutation_p.A442S	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	442	Extracellular (Potential).				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	CACTCGGTAGCAGGCGGGCCT	0.592													37	117	---	---	---	---	PASS	A	150649746	A	A	150649746	3	1	87	1	0	0	0	0	1	0	0	0	8032	710	25	3	2464	3	KCNH2	7	150649746	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	21565810	150649746	8488917	158	33050										
PRKAG2	51422	broad.mit.edu	37	chr7	151573625	151573625	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cgcagcgaacgcctcttctgGctggcatttttcttgccgcc	10	15	3	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:151573625G>T	uc003wkk.2	-	1	692	c.81C>A	c.(79-81)AGC>AGA	p.S27R	PRKAG2_uc010lqe.1_RNA|PRKAG2_uc003wkm.1_Missense_Mutation_p.S27R|uc003wko.1_5'Flank	NM_016203	NP_057287	Q9UGJ0	AAKG2_HUMAN	AMP-activated protein kinase gamma2 subunit	27					ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)		GCCTCTTCTGGCTGGCATTTT	0.612													5	117	---	---	---	---	PASS	T	151573625	T	T	151573625	3	4	87	1	0	0	0	0	1	0	0	0	12501	1194	42	3	1692	3	PRKAG2	7	151573625	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	923879	151573625	7565038	159	33051										
DPP6	1804	broad.mit.edu	37	chr7	154561257	154561257	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	accggctccatctaccccacCgtgaagccctaccactatcc	5	20	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr7:154561257C>T	uc003wlk.2	+	9	1143	c.1014C>T	c.(1012-1014)ACC>ACT	p.T338T	DPP6_uc003wli.2_Silent_p.T274T|DPP6_uc003wlm.2_Silent_p.T276T|DPP6_uc011kvq.1_Silent_p.T231T	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	338	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			TCTACCCCACCGTGAAGCCCT	0.552													10	27	---	---	---	---	PASS	T	154561257	T	T	154561257	2	4	87	1	0	0	0	0	0	0	0	1	4730	639	23	1		1	DPP6	7	154561257	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	2987632	154561257	4577406	160	33052										
MSR1	4481	broad.mit.edu	37	chr8	16026296	16026296	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttcctcttcgctgtcatttcCttttcccgtgagactttgag	7	12	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:16026296C>T	uc003wwz.2	-	4	499	c.301G>A	c.(301-303)GGA>AGA	p.G101R	MSR1_uc010lsu.2_Missense_Mutation_p.G119R|MSR1_uc003wxa.2_Missense_Mutation_p.G101R|MSR1_uc003wxb.2_Missense_Mutation_p.G101R|MSR1_uc011kxz.1_Intron	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	101	Spacer (Probable).|Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		CTGTCATTTCCTTTTCCCGTG	0.373													27	75	---	---	---	---	PASS	T	16026296	T	T	16026296	3	4	87	1	0	0	0	0	1	0	0	0	9886	690	24	3	1130	3	MSR1	8	16026296	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08		16026296	130337726	161	33053										
LPL	4023	broad.mit.edu	37	chr8	19809327	19809327	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccaaaacttgtggccgccctGtacaagagagaaccagactc	9	13	0	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:19809327G>A	uc003wzk.3	+	3	667	c.297G>A	c.(295-297)CTG>CTA	p.L99L		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor	99					fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	TGGCCGCCCTGTACAAGAGAG	0.507													86	82	---	---	---	---	PASS	A	19809327	A	A	19809327	2	1	87	1	0	0	0	0	0	0	0	1	8921	1364	48	3		3	LPL	8	19809327	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	3783031	19809327	126554695	162	33054										
GOT1L1	137362	broad.mit.edu	37	chr8	37793357	37793357	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gcagctgctggttgttgactGccaccaccactagcatcccc	9	16	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:37793357G>T	uc011lbj.1	-	7	894	c.794C>A	c.(793-795)GCA>GAA	p.A265E		NM_152413	NP_689626	Q8NHS2	AATC2_HUMAN	glutamic-oxaloacetic transaminase 1-like 1	265					biosynthetic process|cellular amino acid metabolic process	cytoplasm	pyridoxal phosphate binding|transaminase activity			ovary(1)	1	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;1.37e-11)			GTTGTTGACTGCCACCACCAC	0.592													29	33	---	---	---	---	PASS	T	37793357	T	T	37793357	3	4	87	1	0	0	0	0	1	0	0	0	6580	1319	46	3	483	3	GOT1L1	8	37793357	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	17984030	37793357	108570665	163	33055										
MCM4	4173	broad.mit.edu	37	chr8	48874618	48874618	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	attttgtttttatagctatcCctcttgactttgatgttagt	6	6	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:48874618C>A	uc003xqk.1	+	4	336	c.241C>A	c.(241-243)CCT>ACT	p.P81T	PRKDC_uc003xqi.2_5'Flank|PRKDC_uc003xqj.2_5'Flank|PRKDC_uc011ldh.1_5'Flank|MCM4_uc003xql.1_Missense_Mutation_p.P81T|MCM4_uc011ldi.1_Missense_Mutation_p.P81T|MCM4_uc010lxw.1_Intron	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	81					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				TATAGCTATCCCTCTTGACTT	0.438													22	39	---	---	---	---	PASS	A	48874618	A	A	48874618	3	1	87	1	0	0	0	0	1	0	0	0	9389	623	22	3	251	3	MCM4	8	48874618	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	11081261	48874618	97489404	164	33056										
SULF1	23213	broad.mit.edu	37	chr8	70541858	70541858	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggaagagtgcagcctgcctgGcctcacttgcttcacgcatg	12	13	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:70541858G>C	uc010lza.1	+	19	2945	c.2228G>C	c.(2227-2229)GGC>GCC	p.G743A	SULF1_uc003xyd.2_Missense_Mutation_p.G743A|SULF1_uc003xye.2_Missense_Mutation_p.G743A|SULF1_uc003xyf.2_Missense_Mutation_p.G743A|SULF1_uc003xyg.2_Missense_Mutation_p.G743A|SULF1_uc003xyh.1_RNA|SULF1_uc003xyi.1_5'UTR	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	743					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			AGCCTGCCTGGCCTCACTTGC	0.542													60	91	---	---	---	---	PASS	C	70541858	C	C	70541858	3	2	87	1	0	0	0	0	1	0	0	0	15369	1203	42	4	2286	4	SULF1	8	70541858	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	21667240	70541858	75822164	165	33057										
ZFHX4	79776	broad.mit.edu	37	chr8	77766606	77766606	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atttccatgacgtctctccaGaacagtctacctccacagtt	5	14	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:77766606G>T	uc003yav.2	+	10	7701	c.7314G>T	c.(7312-7314)CAG>CAT	p.Q2438H	ZFHX4_uc003yau.1_Missense_Mutation_p.Q2483H|ZFHX4_uc003yaw.1_Missense_Mutation_p.Q2438H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2438						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CGTCTCTCCAGAACAGTCTAC	0.483										HNSCC(33;0.089)			33	78	---	---	---	---	PASS	T	77766606	T	T	77766606	3	4	87	1	0	0	0	0	1	0	0	0	17632	933	33	2	7483	2	ZFHX4	8	77766606	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	7224748	77766606	68597416	166	33058										
ZFHX4	79776	broad.mit.edu	37	chr8	77768344	77768344	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggcagctgatggcacagcaaGaacttgatcgtataaagaaa	11	7	0	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:77768344G>A	uc003yav.2	+	10	9439	c.9052G>A	c.(9052-9054)GAA>AAA	p.E3018K	ZFHX4_uc003yau.1_Missense_Mutation_p.E3063K|ZFHX4_uc003yaw.1_Missense_Mutation_p.E3018K	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3018						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GGCACAGCAAGAACTTGATCG	0.537										HNSCC(33;0.089)			13	128	---	---	---	---	PASS	A	77768344	A	A	77768344	3	1	87	1	0	0	0	0	1	0	0	0	17632	943	33	2	9221	2	ZFHX4	8	77768344	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	1738	77768344	68595678	167	33059										
VPS13B	157680	broad.mit.edu	37	chr8	100732644	100732644	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctcaatggataccttaatgaGgagggaaattttgaagtaca	10	5	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:100732644G>A	uc003yiv.2	+	38	6915	c.6804G>A	c.(6802-6804)GAG>GAA	p.E2268E	VPS13B_uc003yiw.2_Silent_p.E2243E	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2268					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			ACCTTAATGAGGAGGGAAATT	0.343													19	36	---	---	---	---	PASS	A	100732644	A	A	100732644	2	1	87	1	0	0	0	0	0	0	0	1	17187	991	35	3		3	VPS13B	8	100732644	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	22964300	100732644	45631378	168	33060										
ZFPM2	23414	broad.mit.edu	37	chr8	106814257	106814257	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gacaaggacttttccactcaAactaagaagctctccacctc	5	14	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:106814257A>T	uc003ymd.2	+	8	1970	c.1947A>T	c.(1945-1947)CAA>CAT	p.Q649H	ZFPM2_uc011lhs.1_Missense_Mutation_p.Q380H	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	649					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			TTTCCACTCAAACTAAGAAGC	0.418													17	32	---	---	---	---	PASS	T	106814257	T	T	106814257	3	4	87	1	0	0	0	0	1	0	0	0	17655	11	1	5	1977	5	ZFPM2	8	106814257	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	6081613	106814257	39549765	169	33061										
CSMD3	114788	broad.mit.edu	37	chr8	113276024	113276024	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tccattagagatctggggagGagttgggcaggtaacagctg	16	6	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:113276024G>T	uc003ynu.2	-	61	9865	c.9706C>A	c.(9706-9708)CCT>ACT	p.P3236T	CSMD3_uc003yns.2_Missense_Mutation_p.P2438T|CSMD3_uc003ynt.2_Missense_Mutation_p.P3196T|CSMD3_uc011lhx.1_Missense_Mutation_p.P3067T	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3236	Sushi 25.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ATCTGGGGAGGAGTTGGGCAG	0.408										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			15	48	---	---	---	---	PASS	T	113276024	T	T	113276024	3	4	87	1	0	0	0	0	1	0	0	0	3946	1174	41	2	1461	2	CSMD3	8	113276024	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	6461767	113276024	33087998	170	33062										
CSMD3	114788	broad.mit.edu	37	chr8	113353855	113353855	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tagtttctgaggatccacttCgtacttccaaataatcatgt	6	9	2	1	rs139554725	byFrequency	TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:113353855C>T	uc003ynu.2	-	42	6662	c.6503G>A	c.(6502-6504)CGA>CAA	p.R2168Q	CSMD3_uc003yns.2_Missense_Mutation_p.R1370Q|CSMD3_uc003ynt.2_Missense_Mutation_p.R2128Q|CSMD3_uc011lhx.1_Missense_Mutation_p.R2064Q	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2168	Extracellular (Potential).|CUB 12.					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						GGATCCACTTCGTACTTCCAA	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			3	45	---	---	---	---	PASS	T	113353855	T	T	113353855	3	4	87	1	0	0	0	0	1	0	0	0	3946	884	31	2	4740	2	CSMD3	8	113353855	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	77831	113353855	33010167	171	33063										
CSMD3	114788	broad.mit.edu	37	chr8	113966966	113966966	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gaaacaatttaaatcctctaGatttaaaatctatggccttt	4	7	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:113966966G>T	uc003ynu.2	-	8	1526	c.1367C>A	c.(1366-1368)TCT>TAT	p.S456Y	CSMD3_uc003ynt.2_Missense_Mutation_p.S416Y|CSMD3_uc011lhx.1_Missense_Mutation_p.S352Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	456	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AAATCCTCTAGATTTAAAATC	0.289										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			7	22	---	---	---	---	PASS	T	113966966	T	T	113966966	3	4	87	1	0	0	0	0	1	0	0	0	3946	942	33	2	10012	2	CSMD3	8	113966966	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	613111	113966966	32397056	172	33064										
FER1L6	654463	broad.mit.edu	37	chr8	125076656	125076656	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cctcccaggatcccccagcaGatcacatttatgtggatgtt	8	13	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:125076656G>A	uc003yqw.2	+	26	3603	c.3397G>A	c.(3397-3399)GAT>AAT	p.D1133N	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1133	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TCCCCCAGCAGATCACATTTA	0.572													67	122	---	---	---	---	PASS	A	125076656	A	A	125076656	3	1	87	1	0	0	0	0	1	0	0	0	5815	942	33	2	3495	2	FER1L6	8	125076656	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	11109690	125076656	21287366	173	33065										
ADCY8	114	broad.mit.edu	37	chr8	131793095	131793095	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggtttcttagcgccgataacGccagctaccactgagccgtg	11	13	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:131793095G>T	uc003ytd.3	-	18	3553	c.3297C>A	c.(3295-3297)GGC>GGA	p.G1099G	ADCY8_uc010mds.2_Silent_p.G968G	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1099	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CGCCGATAACGCCAGCTACCA	0.577										HNSCC(32;0.087)			46	112	---	---	---	---	PASS	T	131793095	T	T	131793095	2	4	87	1	0	0	0	0	0	0	0	1	300	1074	38	1		1	ADCY8	8	131793095	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	6716439	131793095	14570927	174	33066										
C8orf31	286122	broad.mit.edu	37	chr8	144126182	144126182	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gctgcaggaggccccttccaAgaccgccaagcatctgtagc	11	15	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr8:144126182A>T	uc003yxp.1	+	4	655	c.303A>T	c.(301-303)CAA>CAT	p.Q101H	C8orf31_uc003yxq.1_RNA|C8orf31_uc003yxr.1_RNA	NM_173687	NP_775958	Q8N9H6	CH031_HUMAN	hypothetical protein LOC286122	101										ovary(1)	1	all_cancers(97;1.89e-10)|all_epithelial(106;8.73e-09)|Lung NSC(106;0.000161)|all_lung(105;0.000447)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					GCCCCTTCCAAGACCGCCAAG	0.617													19	27	---	---	---	---	PASS	T	144126182	T	T	144126182	3	4	87	1	0	0	0	0	1	0	0	0	2420	69	3	5	313	5	C8orf31	8	144126182	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	12333087	144126182	2237840	175	33067										
DENND4C	55667	broad.mit.edu	37	chr9	19341087	19341087	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	caggcagcaagagaattgatAactaaaacaaaaatgcaaac	7	7	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:19341087A>T	uc003znq.2	+	16	2157	c.2124A>T	c.(2122-2124)ATA>ATT	p.I708I	DENND4C_uc011lnc.1_Silent_p.I38I|DENND4C_uc011lnd.1_5'UTR|DENND4C_uc003znr.2_5'UTR|DENND4C_uc003zns.2_5'Flank	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	708						integral to membrane				ovary(1)|skin(1)	2						GAGAATTGATAACTAAAACAA	0.333													25	28	---	---	---	---	PASS	T	19341087	T	T	19341087	2	4	87	1	0	0	0	0	0	0	0	1	4435	352	13	5		5	DENND4C	9	19341087	Silent	SNP	A	TCGA-39-5027-01A-21D-1817-08		19341087	121872344	176	33068										
SLC24A2	25769	broad.mit.edu	37	chr9	19516395	19516395	+	Frame_Shift_Del	DEL	G	-	-													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgtacaggagccagggcagtGggagcctgtgcagaagtgaa							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:19516395delG	uc003zoa.1	-	10	1804	c.1742delC	c.(1741-1743)CCAfs	p.P581fs	SLC24A2_uc003zob.1_Frame_Shift_Del_p.P564fs	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	581	Helical; (Potential).				visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		CCAGGGCAGTGGGAGCCTGTG	0.517													18	14	---	---	---	---		-	19516395	-	-	19516395	7	5	87	1	0	1	0	1	0	0	0	0	14466	1348	47	0	247	0	SLC24A2	9	19516395	Frame_Shift_Del	DEL	G	TCGA-39-5027-01A-21D-1817-08	175308	19516395	121697036	177	33069										
CDKN2A	1029	broad.mit.edu	37	chr9	21971028	21971028	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aggtccacgggcagacggccCcaggcatcgcgcacgtccag	14	16	0	1	rs121913389		TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:21971028C>T	uc003zpk.2	-	2	542	c.330G>A	c.(328-330)TGG>TGA	p.W110*	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.G166R	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	110	ANK 4.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.W110*(38)|p.?(13)|p.H83fs*2(2)|p.W110fs*9(1)|p.D105fs*8(1)|p.A68fs*3(1)|p.R107fs*33(1)|p.W110fs*36(1)|p.W110C(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		GCAGACGGCCCCAGGCATCGC	0.736		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			13	8	---	---	---	---	PASS	T	21971028	T	T	21971028	4	4	87	1	0	0	0	0	0	1	0	0	3161	624	22	3	148	3	CDKN2A	9	21971028	Nonsense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	2454633	21971028	119242403	178	33070										
KIF24	347240	broad.mit.edu	37	chr9	34256481	34256481	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gagtccagaagcatattcagCatgcgtgcctaactgccccc	9	14	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:34256481C>T	uc003zua.3	-	11	3244	c.3124G>A	c.(3124-3126)GCT>ACT	p.A1042T	KIF24_uc010mkb.2_Intron	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	1042					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			GCATATTCAGCATGCGTGCCT	0.577													40	41	---	---	---	---	PASS	T	34256481	T	T	34256481	3	4	87	1	0	0	0	0	1	0	0	0	8292	710	25	3	994	3	KIF24	9	34256481	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	12285453	34256481	106956950	179	33071										
PGM5	5239	broad.mit.edu	37	chr9	71114186	71114186	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgcatcacggctcatcttccGgctcagttcctccagtggtg	10	14	4	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:71114186G>A	uc004agr.2	+	10	1752	c.1523G>A	c.(1522-1524)CGG>CAG	p.R508Q		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	508					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						CTCATCTTCCGGCTCAGTTCC	0.527													47	111	---	---	---	---	PASS	A	71114186	A	A	71114186	3	1	87	1	0	0	0	0	1	0	0	0	11801	1116	39	1	1561	1	PGM5	9	71114186	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	36857705	71114186	70099245	180	33072										
C9orf71	169693	broad.mit.edu	37	chr9	71152321	71152321	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cgtctctgtatatagaggtgGaggaatgccagaggcctctc	13	9	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:71152321G>C	uc004agt.2	-	2	420	c.367C>G	c.(367-369)CCA>GCA	p.P123A	uc004ags.1_RNA	NM_153237	NP_694969	Q8N6L7	CI071_HUMAN	hypothetical protein LOC169693	123						integral to membrane					0						TATAGAGGTGGAGGAATGCCA	0.542													22	53	---	---	---	---	PASS	C	71152321	C	C	71152321	3	2	87	1	0	0	0	0	1	0	0	0	2494	1174	41	2	149	2	C9orf71	9	71152321	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	38135	71152321	70061110	181	33073										
TJP2	9414	broad.mit.edu	37	chr9	71863052	71863052	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cacggacggtgaaggaggcgCctacactgacaatgagctgg	15	10	0	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:71863052C>T	uc004ahe.2	+	19	2992	c.2792C>T	c.(2791-2793)GCC>GTC	p.A931V	TJP2_uc011lrs.1_Missense_Mutation_p.A908V|TJP2_uc004ahd.2_Missense_Mutation_p.A931V|TJP2_uc004ahf.2_Missense_Mutation_p.A931V|TJP2_uc011lru.1_Missense_Mutation_p.A935V|TJP2_uc011lrv.1_Missense_Mutation_p.A953V|TJP2_uc010mom.1_Missense_Mutation_p.A91V	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)	931					cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						GAAGGAGGCGCCTACACTGAC	0.622													20	35	---	---	---	---	PASS	T	71863052	T	T	71863052	3	4	87	1	0	0	0	0	1	0	0	0	15927	739	26	3	3023	3	TJP2	9	71863052	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	710731	71863052	69350379	182	33074										
DAPK1	1612	broad.mit.edu	37	chr9	90262220	90262220	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccaggttgattttcctgcagGgcgggtccaatgccgtctac	12	12	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:90262220G>T	uc004apc.2	+	14	1369	c.1231G>T	c.(1231-1233)GGC>TGC	p.G411C	DAPK1_uc004ape.2_Missense_Mutation_p.G411C|DAPK1_uc004apd.2_Missense_Mutation_p.G411C|DAPK1_uc011ltg.1_Missense_Mutation_p.G411C|DAPK1_uc011lth.1_Missense_Mutation_p.G148C|DAPK1_uc004apf.1_5'UTR	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	411	ANK 2.				apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						TTTCCTGCAGGGCGGGTCCAA	0.507									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				44	89	---	---	---	---	PASS	T	90262220	T	T	90262220	3	4	87	1	0	0	0	0	1	0	0	0	4235	1246	43	3	1281	3	DAPK1	9	90262220	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	18399168	90262220	50951211	183	33075										
S1PR3	1903	broad.mit.edu	37	chr9	91616485	91616485	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gtatgttcgtggcccttgggGcgtccacctgcagcttactg	13	12	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:91616485G>T	uc004aqe.2	+	2	766	c.370G>T	c.(370-372)GCG>TCG	p.A124S		NM_005226	NP_005217	Q99500	S1PR3_HUMAN	sphingosine-1-phosphate receptor 3	124	Helical; Name=3; (By similarity).				anatomical structure morphogenesis|elevation of cytosolic calcium ion concentration|inflammatory response|positive regulation of cell proliferation	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)|central_nervous_system(1)|skin(1)	5						GGCCCTTGGGGCGTCCACCTG	0.567											OREG0019291	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	55	---	---	---	---	PASS	T	91616485	T	T	91616485	3	4	87	1	0	0	0	0	1	0	0	0	13795	1203	42	3	372	3	S1PR3	9	91616485	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	1354265	91616485	49596946	184	33076										
ROR2	4920	broad.mit.edu	37	chr9	94486886	94486886	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aagaggcccaagtctgagatCttcacgttcagcttgtcgta	10	10	4	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:94486886C>A	uc004arj.1	-	9	2089	c.1890G>T	c.(1888-1890)AAG>AAT	p.K630N	ROR2_uc004ari.1_Missense_Mutation_p.K490N	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	630	Cytoplasmic (Potential).|Protein kinase.				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						AGTCTGAGATCTTCACGTTCA	0.592													36	92	---	---	---	---	PASS	A	94486886	A	A	94486886	3	1	87	1	0	0	0	0	1	0	0	0	13527	912	32	2	945	2	ROR2	9	94486886	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	2870401	94486886	46726545	185	33077										
KIAA1529	57653	broad.mit.edu	37	chr9	100079491	100079491	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggaaggctctcaagaaggagGccctgctgcagagtttcagg	15	9	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:100079491G>T	uc011lut.1	+	21	2262	c.1489G>T	c.(1489-1491)GCC>TCC	p.A497S	KIAA1529_uc004axe.1_Missense_Mutation_p.A497S|KIAA1529_uc004axg.1_Missense_Mutation_p.A358S|KIAA1529_uc011lus.1_Missense_Mutation_p.A315S|KIAA1529_uc010msm.1_RNA|KIAA1529_uc004axf.2_Missense_Mutation_p.A358S|KIAA1529_uc011luv.1_Missense_Mutation_p.A355S	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				CAAGAAGGAGGCCCTGCTGCA	0.622													9	10	---	---	---	---	PASS	T	100079491	T	T	100079491	3	4	87	1	0	0	0	0	1	0	0	0	8240	1203	42	3	1535	3	KIAA1529	9	100079491	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	5592605	100079491	41133940	186	33078										
TEX10	54881	broad.mit.edu	37	chr9	103082603	103082603	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atctgtaaggtagagaagcaCaggggaaagctgtgtctgga	15	5	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:103082603C>A	uc004bas.2	-	11	2361	c.2146G>T	c.(2146-2148)GTG>TTG	p.V716L	TEX10_uc011lvf.1_Missense_Mutation_p.V555L|TEX10_uc011lvg.1_Missense_Mutation_p.V719L	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	716						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		TAGAGAAGCACAGGGGAAAGC	0.383													9	19	---	---	---	---	PASS	A	103082603	A	A	103082603	3	1	87	1	0	0	0	0	1	0	0	0	15769	478	17	3	663	3	TEX10	9	103082603	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	3003112	103082603	38130828	187	33079										
PTPN3	5774	broad.mit.edu	37	chr9	112151514	112151514	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tagaaatcaagctacttaccCgccctcgttctgtgagagtc	8	12	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:112151514C>T	uc004bed.2	-	22	2364	c.2252G>A	c.(2251-2253)CGG>CAG	p.R751Q	PTPN3_uc004beb.2_Missense_Mutation_p.R620Q|PTPN3_uc004bec.2_Missense_Mutation_p.R575Q|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Missense_Mutation_p.R706Q|PTPN3_uc011lwh.1_Missense_Mutation_p.R597Q|PTPN3_uc011lwd.1_Missense_Mutation_p.R219Q|PTPN3_uc011lwe.1_Missense_Mutation_p.R464Q|PTPN3_uc011lwf.1_Missense_Mutation_p.R419Q	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	751	Tyrosine-protein phosphatase.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						GCTACTTACCCGCCCTCGTTC	0.512													5	56	---	---	---	---	PASS	T	112151514	T	T	112151514	3	4	87	1	0	0	0	0	1	0	0	0	12789	666	23	1	509	1	PTPN3	9	112151514	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	9068911	112151514	29061917	188	33080										
PTPN3	5774	broad.mit.edu	37	chr9	112182805	112182805	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tcttccgtttccgtgatgtaGgtcatttcatttgcaaggtt	9	8	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:112182805G>A	uc004bed.2	-	14	1324	c.1212C>T	c.(1210-1212)ACC>ACT	p.T404T	PTPN3_uc004beb.2_Silent_p.T273T|PTPN3_uc004bec.2_Silent_p.T228T|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Silent_p.T359T|PTPN3_uc011lwh.1_Silent_p.T250T|PTPN3_uc011lwd.1_5'Flank|PTPN3_uc011lwe.1_Silent_p.T117T|PTPN3_uc011lwf.1_Silent_p.T72T	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	404					negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						CCGTGATGTAGGTCATTTCAT	0.517													6	70	---	---	---	---	PASS	A	112182805	A	A	112182805	2	1	87	1	0	0	0	0	0	0	0	1	12789	987	35	3		3	PTPN3	9	112182805	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	31291	112182805	29030626	189	33081										
SLC46A2	57864	broad.mit.edu	37	chr9	115652054	115652054	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tcagcacaaaaagagggatcAcgtccactgtgcccaccacc	8	15	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:115652054A>G	uc004bgk.2	-	1	1140	c.908T>C	c.(907-909)GTG>GCG	p.V303A		NM_033051	NP_149040	Q9BY10	TSCOT_HUMAN	solute carrier family 46, member 2	303	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	symporter activity			central_nervous_system(1)	1						AAGAGGGATCACGTCCACTGT	0.532													22	36	---	---	---	---	PASS	G	115652054	G	G	115652054	3	3	87	1	0	0	0	0	1	0	0	0	14645	159	6	5	535	5	SLC46A2	9	115652054	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	3469249	115652054	25561377	190	33082										
ASTN2	23245	broad.mit.edu	37	chr9	119903667	119903667	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgcgcaggggtggttgcagcTgaccgatctcgatgggcgtg	18	9	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:119903667T>G	uc004bjs.1	-	4	1207	c.1106A>C	c.(1105-1107)CAG>CCG	p.Q369P	ASTN2_uc004bjr.1_Missense_Mutation_p.Q369P|ASTN2_uc004bjt.1_Intron	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	369	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TGGTTGCAGCTGACCGATCTC	0.587													19	56	---	---	---	---	PASS	G	119903667	G	G	119903667	3	3	87	1	0	0	0	0	1	0	0	0	1065	1595	55	5		5	ASTN2	9	119903667	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	4251613	119903667	21309764	191	33083										
PIP5KL1	138429	broad.mit.edu	37	chr9	130689478	130689478	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gaagacgctctgcatgacgaTgaagtacgtctgggggccgg	16	9	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:130689478T>C	uc011mao.1	-	7	649	c.604A>G	c.(604-606)ATC>GTC	p.I202V	PIP5KL1_uc004bsu.2_5'UTR	NM_001135219	NP_001128691	Q5T9C9	PI5L1_HUMAN	phosphatidylinositol-4-phosphate 5-kinase-like 1	202	PIPK.					cytoplasm|membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			lung(1)|kidney(1)	2						TGCATGACGATGAAGTACGTC	0.692													13	37	---	---	---	---	PASS	C	130689478	C	C	130689478	3	2	87	1	0	0	0	0	1	0	0	0	11942	1464	51	5	596	5	PIP5KL1	9	130689478	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	10785811	130689478	10523953	192	33084										
OBP2A	29991	broad.mit.edu	37	chr9	138439085	138439085	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agacggaggagcctggcaaaTtcagcgcctgtgagcccctc	13	13	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:138439085T>C	uc004cgb.2	+	3	310	c.268T>C	c.(268-270)TTC>CTC	p.F90L	OBP2A_uc004cgc.2_Missense_Mutation_p.F90L|OBP2A_uc010nau.2_RNA|OBP2A_uc010nav.2_Missense_Mutation_p.I45T	NM_014582	NP_055397	Q9NY56	OBP2A_HUMAN	odorant binding protein 2A precursor	90				F -> Y (in Ref. 1; CAB71326).	response to stimulus|sensory perception of smell	extracellular region	odorant binding|transporter activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.39e-07)|Epithelial(140;1.11e-06)|all cancers(34;2.04e-05)		GCCTGGCAAATTCAGCGCCTG	0.642													26	45	---	---	---	---	PASS	C	138439085	C	C	138439085	3	2	87	1	0	0	0	0	1	0	0	0	10810	1493	52	5	278	5	OBP2A	9	138439085	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	7749607	138439085	2774346	193	33085										
LCN9	392399	broad.mit.edu	37	chr9	138556117	138556117	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tattgaacacttgaagaacgGcagcctaatatttgatttcg	8	7	0	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr9:138556117G>T	uc004cgk.1	+	2	206	c.206G>T	c.(205-207)GGC>GTC	p.G69V		NM_001001676	NP_001001676	Q8WX39	LCN9_HUMAN	lipocalin 9	69						extracellular region	pheromone binding|transporter activity			large_intestine(2)	2		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;3.43e-07)|Epithelial(140;1.97e-06)|all cancers(34;6.1e-05)		TTGAAGAACGGCAGCCTAATA	0.473													37	119	---	---	---	---	PASS	T	138556117	T	T	138556117	3	4	87	1	0	0	0	0	1	0	0	0	8687	1203	42	3	212	3	LCN9	9	138556117	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	117032	138556117	2657314	194	33086										
AKR1C3	8644	broad.mit.edu	37	chr10	5141522	5141522	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aacccctttctccacaggccAtggagaagtgtaaggatgca	10	11	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:5141522A>G	uc001ihr.2	+	5	634	c.451A>G	c.(451-453)ATG>GTG	p.M151V	AKR1C3_uc010qap.1_Missense_Mutation_p.M128V|AKR1C3_uc001ihu.2_Missense_Mutation_p.M151V	NM_003739	NP_003730	P42330	AK1C3_HUMAN	aldo-keto reductase family 1, member C3	151					prostaglandin metabolic process	cytoplasm	aldo-keto reductase (NADP) activity|androsterone dehydrogenase (A-specific) activity|indanol dehydrogenase activity|prostaglandin-F synthase activity|testosterone 17-beta-dehydrogenase (NAD+) activity|testosterone 17-beta-dehydrogenase (NADP+) activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity			skin(1)	1					Dimethyl sulfoxide(DB01093)|NADH(DB00157)	TCCACAGGCCATGGAGAAGTG	0.473													27	35	---	---	---	---	PASS	G	5141522	G	G	5141522	3	3	87	1	0	0	0	0	1	0	0	0	471	217	8	5	469	5	AKR1C3	10	5141522	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08		5141522	130393225	195	33087										
ANKRD26	22852	broad.mit.edu	37	chr10	27355424	27355424	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	catagaaagtacctcagaatCccaaggtgattctatatctt	6	9	3	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:27355424C>A	uc001ith.2	-	11	1433	c.1261G>T	c.(1261-1263)GAT>TAT	p.D421Y	ANKRD26_uc001itg.2_Missense_Mutation_p.D140Y|ANKRD26_uc009xku.1_Missense_Mutation_p.D421Y	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	421						centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						ACCTCAGAATCCCAAGGTGAT	0.313													40	73	---	---	---	---	PASS	A	27355424	A	A	27355424	3	1	87	1	0	0	0	0	1	0	0	0	654	855	30	2	3967	2	ANKRD26	10	27355424	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	22213902	27355424	108179323	196	33088										
ANKRD30A	91074	broad.mit.edu	37	chr10	37508455	37508455	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	taatctcaattatgcaggagAtgctctaagagaaaatacat	7	6	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:37508455A>G	uc001iza.1	+	34	3746	c.3647A>G	c.(3646-3648)GAT>GGT	p.D1216G		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1272						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						TATGCAGGAGATGCTCTAAGA	0.373													15	24	---	---	---	---	PASS	G	37508455	G	G	37508455	3	3	87	1	0	0	0	0	1	0	0	0	658	333	12	5	3781	5	ANKRD30A	10	37508455	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	10153031	37508455	98026292	197	33089										
ARHGAP22	58504	broad.mit.edu	37	chr10	49667886	49667886	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggggcgccaggcgggggccaTacttccgctcgtggtggact	18	12	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:49667886T>C	uc001jgt.2	-	5	797	c.500A>G	c.(499-501)TAT>TGT	p.Y167C	ARHGAP22_uc001jgs.2_Missense_Mutation_p.Y77C|ARHGAP22_uc001jgu.2_Missense_Mutation_p.Y183C|ARHGAP22_uc010qgl.1_Missense_Mutation_p.Y124C|ARHGAP22_uc010qgm.1_Missense_Mutation_p.Y173C|ARHGAP22_uc001jgv.2_5'UTR	NM_021226	NP_067049	Q7Z5H3	RHG22_HUMAN	Rho GTPase activating protein 2	167	Rho-GAP.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol|nucleus	GTPase activator activity			ovary(1)	1						GCGGGGGCCATACTTCCGCTC	0.652													25	25	---	---	---	---	PASS	C	49667886	C	C	49667886	3	2	87	1	0	0	0	0	1	0	0	0	872	1406	49	5	1620	5	ARHGAP22	10	49667886	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	12159431	49667886	85866861	198	33090										
PCDH15	65217	broad.mit.edu	37	chr10	55849791	55849791	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggatctccattctcaatggcAtatgttattgagtctccctc	7	11	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:55849791A>T	uc001jju.1	-	16	2345	c.1950T>A	c.(1948-1950)TAT>TAA	p.Y650*	PCDH15_uc010qhq.1_Nonsense_Mutation_p.Y655*|PCDH15_uc010qhr.1_Nonsense_Mutation_p.Y650*|PCDH15_uc010qhs.1_Nonsense_Mutation_p.Y662*|PCDH15_uc010qht.1_Nonsense_Mutation_p.Y657*|PCDH15_uc010qhu.1_Nonsense_Mutation_p.Y650*|PCDH15_uc001jjv.1_Nonsense_Mutation_p.Y628*|PCDH15_uc010qhv.1_Nonsense_Mutation_p.Y650*|PCDH15_uc010qhw.1_Nonsense_Mutation_p.Y613*|PCDH15_uc010qhx.1_Intron|PCDH15_uc010qhy.1_Nonsense_Mutation_p.Y655*|PCDH15_uc010qhz.1_Nonsense_Mutation_p.Y650*|PCDH15_uc010qia.1_Nonsense_Mutation_p.Y628*|PCDH15_uc010qib.1_Nonsense_Mutation_p.Y628*|PCDH15_uc001jjw.2_Nonsense_Mutation_p.Y650*	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	650	Cadherin 6.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TCTCAATGGCATATGTTATTG	0.338										HNSCC(58;0.16)			23	43	---	---	---	---	PASS	T	55849791	T	T	55849791	4	4	87	1	0	0	0	0	0	1	0	0	11511	224	8	5	5608	5	PCDH15	10	55849791	Nonsense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	6181905	55849791	79684956	199	33091										
CDHR1	92211	broad.mit.edu	37	chr10	85973843	85973843	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggctttctctttcagaccctCtcccggagccccatggctgc	9	17	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:85973843C>G	uc001kcv.2	+	17	2046	c.2046C>G	c.(2044-2046)CTC>CTG	p.L682L	CDHR1_uc001kcw.2_Intron|CDHR1_uc009xst.2_Silent_p.L386L|CDHR1_uc001kcx.2_5'UTR	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	682	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						TTCAGACCCTCTCCCGGAGCC	0.562													45	39	---	---	---	---	PASS	G	85973843	G	G	85973843	2	3	87	1	0	0	0	0	0	0	0	1	3118	900	32	2		2	CDHR1	10	85973843	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	30124052	85973843	49560904	200	33092										
PTEN	5728	broad.mit.edu	37	chr10	89692790	89692790	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttgcacaatatccttttgaaGaccataacccaccacagcta	4	13	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:89692790G>C	uc001kfb.2	+	6	1305	c.274G>C	c.(274-276)GAC>CAC	p.D92H		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	92	Phosphatase tensin-type.			D->A: 700-fold reduction in phosphatase activity towards PtdIns(3,4,5)P3. Loss of protein phosphatase activity. Unable to inhibit focal adhesion formation.	activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.R55fs*1(4)|p.D92H(3)|p.D92V(2)|p.?(2)|p.Y27fs*1(2)|p.D92G(2)|p.D92N(2)|p.Y27_N212>Y(2)|p.D92fs*7(1)|p.D92Y(1)|p.D92E(1)|p.Q87_P96del(1)|p.D92A(1)|p.F90_P95>L(1)|p.N82_P95del(1)|p.F56fs*2(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TCCTTTTGAAGACCATAACCC	0.333		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			3	53	---	---	---	---	PASS	C	89692790	C	C	89692790	3	2	87	1	0	0	0	0	1	0	0	0	12738	942	33	2	292	2	PTEN	10	89692790	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	3718947	89692790	45841957	201	33093										
PTEN	5728	broad.mit.edu	37	chr10	89692905	89692905	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctgtaaagctggaaagggacGaactggtgtaatgatatgtg	14	4	0	1	rs121913292		TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:89692905G>A	uc001kfb.2	+	6	1420	c.389G>A	c.(388-390)CGA>CAA	p.R130Q		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	130	Phosphatase tensin-type.		R -> L (in CD and endometrial hyperplasia; loss of phosphatase activity towards Ins(1,3,4,5)P4; retains ability to bind phospholipid membranes).|R -> Q (in CD; loss of phosphatase activity towards Ins(1,3,4,5)P4; retains ability to bind phospholipid membranes).|R -> G (loss of phosphatase activity towards Ins(1,3,4,5)P4 and PtdIns(3,4,5)P3).	R->M: Does not affect the ability to inhibit AKT/PKB activation.	activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.R130G(65)|p.R130*(61)|p.R130Q(43)|p.R130fs*4(12)|p.R130L(7)|p.R55fs*1(4)|p.R130P(4)|p.K128_R130del(3)|p.Y27_N212>Y(2)|p.?(2)|p.Y27fs*1(2)|p.R130R(1)|p.K128fs*47(1)|p.A121_F145del(1)|p.R130fs*2(1)|p.T131fs*50(1)|p.F56fs*2(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		GGAAAGGGACGAACTGGTGTA	0.403	R130Q(MDAPCA2B_PROSTATE)|R130Q(MFE296_ENDOMETRIUM)|R130fs*4(AN3CA_ENDOMETRIUM)|R130Q(JHUEM1_ENDOMETRIUM)	31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			17	56	---	---	---	---	PASS	A	89692905	A	A	89692905	3	1	87	1	0	0	0	0	1	0	0	0	12738	1058	37	2	407	2	PTEN	10	89692905	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	115	89692905	45841842	202	33094										
TM9SF3	56889	broad.mit.edu	37	chr10	98336540	98336540	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tttcttgacgattatggtagGgcccaacagtattcatccat	8	9	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:98336540G>A	uc001kmm.3	-	2	366	c.149C>T	c.(148-150)CCC>CTC	p.P50L	TM9SF3_uc010qot.1_Missense_Mutation_p.P50L	NM_020123	NP_064508	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3 precursor	50						integral to membrane	binding				0		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		ATTATGGTAGGGCCCAACAGT	0.333													17	73	---	---	---	---	PASS	A	98336540	A	A	98336540	3	1	87	1	0	0	0	0	1	0	0	0	15976	1232	43	3	1676	3	TM9SF3	10	98336540	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	8643635	98336540	37198207	203	33095										
NDUFB8	4714	broad.mit.edu	37	chr10	102286181	102286181	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gctggtagacagggtacacgTcccccacccagcacatgaat	10	14	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:102286181T>A	uc001kri.1	-	4	471	c.443A>T	c.(442-444)GAC>GTC	p.D148V	SEC31B_uc009xwo.1_5'UTR|SEC31B_uc010qpq.1_Intron|SEC31B_uc010qpr.1_RNA	NM_005004	NP_004995	O95169	NDUB8_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	148	Helical; (Potential).				mitochondrial electron transport, NADH to ubiquinone|transport	endoplasmic reticulum|integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0		Colorectal(252;0.234)		Epithelial(162;5.68e-10)|all cancers(201;4.05e-08)	NADH(DB00157)	AGGGTACACGTCCCCCACCCA	0.532													22	21	---	---	---	---	PASS	A	102286181	A	A	102286181	3	1	87	1	0	0	0	0	1	0	0	0	10287	1667	58	5	125	5	NDUFB8	10	102286181	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	3949641	102286181	33248566	204	33096										
XPNPEP1	7511	broad.mit.edu	37	chr10	111631611	111631611	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tggcccttgaggacatatgtGaagcattcctgcaaagaaaa	10	8	0	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:111631611G>T	uc001kyp.1	-	17	1472	c.1332C>A	c.(1330-1332)TTC>TTA	p.F444L	XPNPEP1_uc009xxt.1_Missense_Mutation_p.F463L|XPNPEP1_uc001kyq.1_Missense_Mutation_p.F373L	NM_020383	NP_065116	Q9NQW7	XPP1_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 1,	444					bradykinin catabolic process|proteolysis		manganese ion binding|metalloaminopeptidase activity|protein homodimerization activity			ovary(3)|pancreas(1)	4		Breast(234;0.174)		Epithelial(162;1.64e-05)|all cancers(201;0.000564)|BRCA - Breast invasive adenocarcinoma(275;0.0721)		GGACATATGTGAAGCATTCCT	0.483													44	49	---	---	---	---	PASS	T	111631611	T	T	111631611	3	4	87	1	0	0	0	0	1	0	0	0	17439	1281	45	2	559	2	XPNPEP1	10	111631611	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	9345430	111631611	23903136	205	33097										
DUSP5	1847	broad.mit.edu	37	chr10	112258257	112258257	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccgcgggtctacttcctcaaAggtgagcgctcggggtccct	13	14	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:112258257A>T	uc001kzd.2	+	1	633	c.378A>T	c.(376-378)AAA>AAT	p.K126N		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	126	Rhodanese.				endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		ACTTCCTCAAAGGTGAGCGCT	0.736													2	1	---	---	---	---	PASS	T	112258257	T	T	112258257	3	4	87	1	0	0	0	0	1	0	0	0	4828	86	3	5	380	5	DUSP5	10	112258257	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	626646	112258257	23276490	206	33098										
HABP2	3026	broad.mit.edu	37	chr10	115345564	115345564	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccccacaggaaaagggtcccGccagctcctggatgccaaag	11	15	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:115345564G>A	uc001lai.3	+	12	1488	c.1385G>A	c.(1384-1386)CGC>CAC	p.R462H		NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	462	Peptidase S1.				cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		AAAGGGTCCCGCCAGCTCCTG	0.532													22	15	---	---	---	---	PASS	A	115345564	A	A	115345564	3	1	87	1	0	0	0	0	1	0	0	0	6938	1087	38	1	1431	1	HABP2	10	115345564	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	3087307	115345564	20189183	207	33099										
ATRNL1	26033	broad.mit.edu	37	chr10	117486838	117486838	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctggaagtgggagctgaacaAacagagtttctgcgagggcc	15	8	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:117486838A>C	uc001lcg.2	+	27	4262	c.3876A>C	c.(3874-3876)CAA>CAC	p.Q1292H	ATRNL1_uc010qsm.1_Missense_Mutation_p.Q421H|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	1292	Cytoplasmic (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)		GAGCTGAACAAACAGAGTTTC	0.473													3	31	---	---	---	---	PASS	C	117486838	C	C	117486838	3	2	87	1	0	0	0	0	1	0	0	0	1207	11	1	5	3982	5	ATRNL1	10	117486838	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	2141274	117486838	18047909	208	33100										
ADAM12	8038	broad.mit.edu	37	chr10	127753428	127753428	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gagtctggcagatgccattgTagcagtagccgtccacatcc	11	12	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:127753428T>C	uc001ljk.2	-	14	1978	c.1565A>G	c.(1564-1566)TAC>TGC	p.Y522C	ADAM12_uc010qul.1_Missense_Mutation_p.Y473C|ADAM12_uc001ljm.2_Missense_Mutation_p.Y522C|ADAM12_uc001ljn.2_Missense_Mutation_p.Y519C|ADAM12_uc001ljl.3_Missense_Mutation_p.Y519C	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	522	Extracellular (Potential).|Cys-rich.				cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		GATGCCATTGTAGCAGTAGCC	0.617													9	5	---	---	---	---	PASS	C	127753428	C	C	127753428	3	2	87	1	0	0	0	0	1	0	0	0	236	1638	57	5	1312	5	ADAM12	10	127753428	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	10266590	127753428	7781319	209	33101										
DOCK1	1793	broad.mit.edu	37	chr10	129046349	129046349	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gcccacttgatcaagactttTgggaaaatgaggactgatgt	11	7	1	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr10:129046349T>C	uc001ljt.2	+	28	2926	c.2862T>C	c.(2860-2862)TTT>TTC	p.F954F	DOCK1_uc010qun.1_Silent_p.F975F	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	954					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		TCAAGACTTTTGGGAAAATGA	0.393													24	21	---	---	---	---	PASS	C	129046349	C	C	129046349	2	2	87	1	0	0	0	0	0	0	0	1	4684	1809	63	5		5	DOCK1	10	129046349	Silent	SNP	T	TCGA-39-5027-01A-21D-1817-08	1292921	129046349	6488398	210	33102										
CD151	977	broad.mit.edu	37	chr11	837554	837554	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccgtgtggtcccagacagctGctgcaagacggtggtggctc	15	12	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:837554G>A	uc001lry.2	+	7	695	c.551G>A	c.(550-552)TGC>TAC	p.C184Y	CD151_uc001lrx.2_RNA|CD151_uc001lrz.2_Missense_Mutation_p.C184Y|CD151_uc001lsa.2_Missense_Mutation_p.C184Y|CD151_uc001lsb.2_Missense_Mutation_p.C184Y	NM_004357	NP_004348	P48509	CD151_HUMAN	CD151 antigen	184	Extracellular (Potential).				cell adhesion|hemidesmosome assembly	cytosol|integral to plasma membrane|membrane fraction	protein binding				0		all_cancers(49;2.31e-08)|all_epithelial(84;3.72e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.179)|all_lung(207;0.227)		all cancers(45;1.54e-25)|Epithelial(43;1.22e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.91e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCAGACAGCTGCTGCAAGACG	0.602													21	21	---	---	---	---	PASS	A	837554	A	A	837554	3	1	87	1	0	0	0	0	1	0	0	0	2965	1319	46	3	569	3	CD151	11	837554	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08		837554	134168962	211	33103										
MUC5B	727897	broad.mit.edu	37	chr11	1258386	1258386	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gccccaccttcgccgcctgcCgctcccaggtggggctctgg	13	19	1	0	rs35573593		TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:1258386C>G	uc009ycr.1	+	41	5494	c.5368C>G	c.(5368-5370)CGC>GGC	p.R1790G	MUC5B_uc009yct.1_Missense_Mutation_p.R1097G|MUC5B_uc001ltb.2_Missense_Mutation_p.R1100G|MUC5B_uc001lta.2_Missense_Mutation_p.R765G	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1097	VWFD 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CGCCGCCTGCCGCTCCCAGGT	0.687													7	7	---	---	---	---	PASS	G	1258386	G	G	1258386	3	3	87	1	0	0	0	0	1	0	0	0	9979	652	23	4	3396	4	MUC5B	11	1258386	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	420832	1258386	133748130	212	33104										
OR51A7	119687	broad.mit.edu	37	chr11	4928880	4928880	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	caatgccatgggaatttcacCtaatgcctgctttgctcaag	8	11	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:4928880C>A	uc010qyq.1	+	1	281	c.281C>A	c.(280-282)CCT>CAT	p.P94H		NM_001004749	NP_001004749	Q8NH64	O51A7_HUMAN	olfactory receptor, family 51, subfamily A,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGAATTTCACCTAATGCCTGC	0.453													38	37	---	---	---	---	PASS	A	4928880	A	A	4928880	3	1	87	1	0	0	0	0	1	0	0	0	11088	681	24	3	283	3	OR51A7	11	4928880	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	3670494	4928880	130077636	213	33105										
ABCC8	6833	broad.mit.edu	37	chr11	17482100	17482100	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cccaaagatgcacagtggccCggcgaagcccagcaggtcgg	14	14	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:17482100C>T	uc001mnc.2	-	6	1072	c.946G>A	c.(946-948)GGG>AGG	p.G316R	ABCC8_uc010rcy.1_Missense_Mutation_p.G315R	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	316	Helical; Name=6; (By similarity).|ABC transmembrane type-1 1.				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)	CACAGTGGCCCGGCGAAGCCC	0.647													49	184	---	---	---	---	PASS	T	17482100	T	T	17482100	3	4	87	1	0	0	0	0	1	0	0	0	58	652	23	1	3935	1	ABCC8	11	17482100	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	12553220	17482100	117524416	214	33106										
MRGPRX4	117196	broad.mit.edu	37	chr11	18195011	18195011	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tctacatcctcaacctggccGcagcagacttcctcttcctc	5	18	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:18195011G>T	uc001mnv.1	+	1	628	c.208G>T	c.(208-210)GCA>TCA	p.A70S		NM_054032	NP_473373	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	70	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						CAACCTGGCCGCAGCAGACTT	0.527													82	53	---	---	---	---	PASS	T	18195011	T	T	18195011	3	4	87	1	0	0	0	0	1	0	0	0	9769	1087	38	1	210	1	MRGPRX4	11	18195011	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	712911	18195011	116811505	215	33107										
MRGPRX4	117196	broad.mit.edu	37	chr11	18195313	18195313	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctgtttagtggtgctgattcTagttggtgtgaaacgtcaga	13	5	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:18195313T>C	uc001mnv.1	+	1	930	c.510T>C	c.(508-510)TCT>TCC	p.S170S		NM_054032	NP_473373	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	170	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						GTGCTGATTCTAGTTGGTGTG	0.517													258	196	---	---	---	---	PASS	C	18195313	C	C	18195313	2	2	87	1	0	0	0	0	0	0	0	1	9769	1509	53	5		5	MRGPRX4	11	18195313	Silent	SNP	T	TCGA-39-5027-01A-21D-1817-08	302	18195313	116811203	216	33108										
NAV2	89797	broad.mit.edu	37	chr11	19735336	19735336	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gcacgtgcccccggcccgggCgggcccccagccctgctacc	13	22	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:19735336C>A	uc010rdm.1	+	1	456	c.95C>A	c.(94-96)GCG>GAG	p.A32E	NAV2_uc001mpp.2_Intron|NAV2_uc001mpr.3_Missense_Mutation_p.A32E|LOC100126784_uc010rdl.1_3'UTR	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	32						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						ccggcccgggcgggcccccAG	0.542													29	27	---	---	---	---	PASS	A	19735336	A	A	19735336	3	1	87	1	0	0	0	0	1	0	0	0	10184	768	27	1	176	1	NAV2	11	19735336	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	1540023	19735336	115271180	217	33109										
CKAP5	9793	broad.mit.edu	37	chr11	46782308	46782308	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gaccgcttaatcctctcctcGagcatgctcatatccttttc	5	15	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:46782308G>A	uc001ndi.1	-	33	4358	c.4248C>T	c.(4246-4248)CTC>CTT	p.L1416L	CKAP5_uc009ylg.1_Silent_p.L1302L|CKAP5_uc001ndj.1_Silent_p.L1416L|CKAP5_uc001ndh.1_Silent_p.L345L	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	1416					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						TCCTCTCCTCGAGCATGCTCA	0.403													8	90	---	---	---	---	PASS	A	46782308	A	A	46782308	2	1	87	1	0	0	0	0	0	0	0	1	3445	1045	37	2		2	CKAP5	11	46782308	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	27046972	46782308	88224208	218	33110										
OR4C12	283093	broad.mit.edu	37	chr11	50003685	50003685	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agatggccacatagcagtcaCaggccatcactgtcagcagg	11	12	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:50003685C>G	uc010ria.1	-	1	353	c.353G>C	c.(352-354)TGT>TCT	p.C118S		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	118	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						ATAGCAGTCACAGGCCATCAC	0.488													79	115	---	---	---	---	PASS	G	50003685	G	G	50003685	3	3	87	1	0	0	0	0	1	0	0	0	11046	478	17	4	580	4	OR4C12	11	50003685	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	3221377	50003685	85002831	219	33111										
OR4C46	119749	broad.mit.edu	37	chr11	51516092	51516092	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctattgataaagcagttgctAtattctacactatgataact	5	7	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:51516092A>T	uc010ric.1	+	1	811	c.811A>T	c.(811-813)ATA>TTA	p.I271L		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	271	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AGCAGTTGCTATATTCTACAC	0.388													21	48	---	---	---	---	PASS	T	51516092	T	T	51516092	3	4	87	1	0	0	0	0	1	0	0	0	11051	449	16	5	813	5	OR4C46	11	51516092	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	1512407	51516092	83490424	220	33112										
OR4A16	81327	broad.mit.edu	37	chr11	55110791	55110791	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tatacattgtgacaatggtgGgaaacctcctcatttgggtg	11	7	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:55110791G>A	uc010rie.1	+	1	115	c.115G>A	c.(115-117)GGA>AGA	p.G39R		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						GACAATGGTGGGAAACCTCCT	0.418													24	73	---	---	---	---	PASS	A	55110791	A	A	55110791	3	1	87	1	0	0	0	0	1	0	0	0	11041	1233	43	3	117	3	OR4A16	11	55110791	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	3594699	55110791	79895725	221	33113										
OR4C15	81309	broad.mit.edu	37	chr11	55322712	55322712	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tttgtcccatgcatatttgtAtatacacgacctccatctgc	5	12	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:55322712A>G	uc010rig.1	+	1	930	c.930A>G	c.(928-930)GTA>GTG	p.V310V		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	256	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCATATTTGTATATACACGAC	0.413										HNSCC(20;0.049)			80	122	---	---	---	---	PASS	G	55322712	G	G	55322712	2	3	87	1	0	0	0	0	0	0	0	1	11048	436	16	5		5	OR4C15	11	55322712	Silent	SNP	A	TCGA-39-5027-01A-21D-1817-08	211921	55322712	79683804	222	33114										
OR10AG1	282770	broad.mit.edu	37	chr11	55735395	55735395	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttatctcattcacaaatatgTttccacaagcaagcttgagt	5	9	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:55735395T>A	uc010rit.1	-	1	545	c.545A>T	c.(544-546)AAC>ATC	p.N182I		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					CACAAATATGTTTCCACAAGC	0.398													4	36	---	---	---	---	PASS	A	55735395	A	A	55735395	3	1	87	1	0	0	0	0	1	0	0	0	10897	1725	60	5	363	5	OR10AG1	11	55735395	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	412683	55735395	79271121	223	33115										
OR8J3	81168	broad.mit.edu	37	chr11	55904407	55904407	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tatccagtgagtggttggttTggggctgcaaatacataaat	12	5	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:55904407T>A	uc010riz.1	-	1	788	c.788A>T	c.(787-789)CAA>CTA	p.Q263L		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	263	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					GTGGTTGGTTTGGGGCTGCAA	0.428													31	86	---	---	---	---	PASS	A	55904407	A	A	55904407	3	1	87	1	0	0	0	0	1	0	0	0	11242	1812	63	5	161	5	OR8J3	11	55904407	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	169012	55904407	79102109	224	33116										
OR9G9	504191	broad.mit.edu	37	chr11	56468108	56468108	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctacaccccaaagatcctagTgacctgcatctctgaagaca	6	14	1	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:56468108T>A	uc010rjn.1	+	1	245	c.245T>A	c.(244-246)GTG>GAG	p.V82E		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	82	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AAGATCCTAGTGACCTGCATC	0.483													14	138	---	---	---	---	PASS	A	56468108	A	A	56468108	3	1	87	1	0	0	0	0	1	0	0	0	11252	1696	59	5	247	5	OR9G9	11	56468108	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	563701	56468108	78538408	225	33117										
MS4A13	503497	broad.mit.edu	37	chr11	60296849	60296849	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tggttatagaaacttgggagGgaagtatcacgtattttact	11	4	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:60296849G>T	uc001nps.2	+	6	641	c.318G>T	c.(316-318)AGG>AGT	p.R106S	MS4A13_uc009ync.2_Missense_Mutation_p.R66S|MS4A13_uc009ynd.2_Missense_Mutation_p.R47S	NM_001012417	NP_001012417	Q5J8X5	M4A13_HUMAN	membrane-spanning 4-domains, subfamily A, member	106						integral to membrane					0						AACTTGGGAGGGAAGTATCAC	0.373													11	60	---	---	---	---	PASS	T	60296849	T	T	60296849	3	4	87	1	0	0	0	0	1	0	0	0	9857	1223	43	3	332	3	MS4A13	11	60296849	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	3828741	60296849	74709667	226	33118										
AHNAK	79026	broad.mit.edu	37	chr11	62289139	62289139	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atcttgggggctttgatgttCatctcaggcatcttgaattt	10	7	4	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:62289139C>A	uc001ntl.2	-	5	13050	c.12750G>T	c.(12748-12750)ATG>ATT	p.M4250I	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4250					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CTTTGATGTTCATCTCAGGCA	0.468													96	291	---	---	---	---	PASS	A	62289139	A	A	62289139	3	1	87	1	0	0	0	0	1	0	0	0	414	826	29	2	5042	2	AHNAK	11	62289139	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	1992290	62289139	72717377	227	33119										
SYVN1	84447	broad.mit.edu	37	chr11	64895953	64895953	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atctcctctgtgcccactgaCtcaggagctggggacagaga	12	12	3	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:64895953C>T	uc001odb.2	-	16	1849	c.1755G>A	c.(1753-1755)GAG>GAA	p.E585E	SYVN1_uc001odc.2_Silent_p.E584E|SYVN1_uc009yqc.2_Silent_p.E533E	NM_172230	NP_757385	Q86TM6	SYVN1_HUMAN	synoviolin 1 isoform b	585	Cytoplasmic (Potential).				ER-associated protein catabolic process|response to stress	endoplasmic reticulum membrane|integral to membrane|nucleus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(1)	1						TGCCCACTGACTCAGGAGCTG	0.617													5	57	---	---	---	---	PASS	T	64895953	T	T	64895953	2	4	87	1	0	0	0	0	0	0	0	1	15484	564	20	3		3	SYVN1	11	64895953	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	2606814	64895953	70110563	228	33120										
DPF2	5977	broad.mit.edu	37	chr11	65113767	65113767	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gtgatgatggcggcagtgaaGacataccgctggcagtgcat	15	8	0	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:65113767G>T	uc001odm.2	+	9	966	c.954G>T	c.(952-954)AAG>AAT	p.K318N	DPF2_uc001odn.2_Missense_Mutation_p.K332N|DPF2_uc010roe.1_Intron	NM_006268	NP_006259	Q92785	REQU_HUMAN	D4, zinc and double PHD fingers family 2	318	PHD-type 1.				apoptosis|induction of apoptosis by extracellular signals|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						CGGCAGTGAAGACATACCGCT	0.567													4	53	---	---	---	---	PASS	T	65113767	T	T	65113767	3	4	87	1	0	0	0	0	1	0	0	0	4717	933	33	2	988	2	DPF2	11	65113767	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	217814	65113767	69892749	229	33121										
SART1	9092	broad.mit.edu	37	chr11	65733956	65733956	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aggagatccgggccaagctgCggctgcaggctcagtccctg	15	13	1	1	rs144548769		TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:65733956C>G	uc001ogl.2	+	9	1209	c.1117C>G	c.(1117-1119)CGG>GGG	p.R373G	SART1_uc010rot.1_Missense_Mutation_p.C258W	NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	373					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1						GGCCAAGCTGCGGCTGCAGGC	0.677													5	22	---	---	---	---	PASS	G	65733956	G	G	65733956	3	3	87	1	0	0	0	0	1	0	0	0	13846	759	27	4	1151	4	SART1	11	65733956	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	620189	65733956	69272560	230	33122										
PDE2A	5138	broad.mit.edu	37	chr11	72294509	72294509	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tggtacatcatcatctcattGgccaggtggctgcgatactg	11	10	3	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:72294509G>T	uc010rrc.1	-	20	1944	c.1701C>A	c.(1699-1701)GCC>GCA	p.A567A	PDE2A_uc001oso.2_Silent_p.A546A|PDE2A_uc010rra.1_Silent_p.A560A|PDE2A_uc001osn.2_Silent_p.A311A|PDE2A_uc010rrb.1_Silent_p.A558A|PDE2A_uc010rrd.1_Silent_p.A452A	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	567					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	TCATCTCATTGGCCAGGTGGC	0.537													39	90	---	---	---	---	PASS	T	72294509	T	T	72294509	2	4	87	1	0	0	0	0	0	0	0	1	11636	1335	47	3		3	PDE2A	11	72294509	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	6560553	72294509	62712007	231	33123										
DLG2	1740	broad.mit.edu	37	chr11	83183809	83183809	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctcataggaaagaatgaggtCttcttgtcctcctgagaaga	10	8	3	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:83183809C>T	uc001paj.2	-	18	2293	c.1990G>A	c.(1990-1992)GAC>AAC	p.D664N	DLG2_uc001pai.2_Missense_Mutation_p.D543N|DLG2_uc010rsy.1_Missense_Mutation_p.D613N|DLG2_uc010rsz.1_Missense_Mutation_p.D660N|DLG2_uc010rta.1_Missense_Mutation_p.D646N|DLG2_uc001pak.2_Missense_Mutation_p.D769N|DLG2_uc010rtb.1_Missense_Mutation_p.D631N|DLG2_uc010rsw.1_Missense_Mutation_p.D128N|DLG2_uc010rsx.1_Missense_Mutation_p.D141N	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	664						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				AGAATGAGGTCTTCTTGTCCT	0.428													30	70	---	---	---	---	PASS	T	83183809	T	T	83183809	3	4	87	1	0	0	0	0	1	0	0	0	4555	913	32	2	646	2	DLG2	11	83183809	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	10889300	83183809	51822707	232	33124										
FAT3	120114	broad.mit.edu	37	chr11	92534277	92534277	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctgtctatatccacgtcttgCcccctgaaacgttcttgcca	6	15	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:92534277C>A	uc001pdj.3	+	9	8115	c.8098C>A	c.(8098-8100)CCC>ACC	p.P2700T		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2700	Cadherin 24.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CCACGTCTTGCCCCCTGAAAC	0.463										TCGA Ovarian(4;0.039)			19	42	---	---	---	---	PASS	A	92534277	A	A	92534277	3	1	87	1	0	0	0	0	1	0	0	0	5691	739	26	3	8132	3	FAT3	11	92534277	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	9350468	92534277	42472239	233	33125										
MED17	9440	broad.mit.edu	37	chr11	93529576	93529576	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctccttctttttataaatagGcttgcagttatctatttctt	4	8	3	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:93529576G>T	uc001pem.3	+	7	1288	c.1013G>T	c.(1012-1014)AGC>ATC	p.S338I		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	338					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TTATAAATAGGCTTGCAGTTA	0.328													15	66	---	---	---	---	PASS	T	93529576	T	T	93529576	3	4	87	1	0	0	0	0	1	0	0	0	9435	1217	42	3	1039	3	MED17	11	93529576	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	995299	93529576	41476940	234	33126										
MED17	9440	broad.mit.edu	37	chr11	93542995	93542995	+	Missense_Mutation	SNP	C	T	T													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tatagagagcattggtaatgCatctgccatcacggtggcct							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:93542995C>T	uc001pem.3	+	11	1972	c.1697C>T	c.(1696-1698)GCA>GTA	p.A566V		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	566					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				ATTGGTAATGCATCTGCCATC	0.483													50	161	---	---	---	---	PASS	T	93542995	T	T	93542995	3	4	87	1	0	0	0	0	1	0	0	0	9435	710	25	3	1739	3	MED17	11	93542995	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	13419	93542995	41463521	235	33127	648	2								
MED17	9440	broad.mit.edu	37	chr11	93542996	93542996	+	Silent	SNP	A	T	T													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atagagagcattggtaatgcAtctgccatcacggtggcctc							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:93542996A>T	uc001pem.3	+	11	1973	c.1698A>T	c.(1696-1698)GCA>GCT	p.A566A		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	566					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TTGGTAATGCATCTGCCATCA	0.478													50	163	---	---	---	---	PASS	T	93542996	T	T	93542996	2	4	87	1	0	0	0	0	0	0	0	1	9435	204	8	5		5	MED17	11	93542996	Silent	SNP	A	TCGA-39-5027-01A-21D-1817-08	1	93542996	41463520	236	33128	648	2								
MMP8	4317	broad.mit.edu	37	chr11	102586033	102586033	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gatgaaaactttaggaagttAcctttaaataggaaaatgag	9	3	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:102586033A>T	uc001phe.2	-	7	1135	c.1036_splice	c.e7+1	p.G346_splice	MMP8_uc010rut.1_Splice_Site_p.D281_splice|MMP8_uc010ruu.1_Splice_Site_p.G323_splice	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein						collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		TTAGGAAGTTACCTTTAAATA	0.408													18	20	---	---	---	---	PASS	T	102586033	T	T	102586033	5	4	87	1	0	0	0	0	0	0	1	0	9668	405	14	5	381	5	MMP8	11	102586033	Splice_Site	SNP	A	TCGA-39-5027-01A-21D-1817-08	9043037	102586033	32420483	237	33129										
SORL1	6653	broad.mit.edu	37	chr11	121420786	121420786	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cctgtgggttctacttacagGagaacgagagggtatgtatc	13	7	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:121420786G>T	uc001pxx.2	+	15	2249	c.2169G>T	c.(2167-2169)AGG>AGT	p.R723S		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	723	Extracellular (Potential).				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		CTACTTACAGGAGAACGAGAG	0.507													19	54	---	---	---	---	PASS	T	121420786	T	T	121420786	3	4	87	1	0	0	0	0	1	0	0	0	14934	1165	41	2	2227	2	SORL1	11	121420786	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	18834753	121420786	13585730	238	33130										
TMEM225	338661	broad.mit.edu	37	chr11	123756055	123756055	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	catttatctaaggtgattccCatcaccattaagactacggc	6	11	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:123756055C>T	uc001pzi.2	-	1	286	c.78G>A	c.(76-78)ATG>ATA	p.M26I		NM_001013743	NP_001013765	Q6GV28	TM225_HUMAN	transmembrane protein 225	26	Helical; (Potential).					integral to membrane				upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	3						AGGTGATTCCCATCACCATTA	0.428													34	56	---	---	---	---	PASS	T	123756055	T	T	123756055	3	4	87	1	0	0	0	0	1	0	0	0	16144	594	21	3	615	3	TMEM225	11	123756055	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	2335269	123756055	11250461	239	33131										
OR8D4	338662	broad.mit.edu	37	chr11	123777298	123777298	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	caattattaggctgaatcgtCaacttcatacccccatgtac	5	12	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:123777298C>A	uc010saa.1	+	1	160	c.160C>A	c.(160-162)CAA>AAA	p.Q54K		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		GCTGAATCGTCAACTTCATAC	0.408													37	107	---	---	---	---	PASS	A	123777298	A	A	123777298	3	1	87	1	0	0	0	0	1	0	0	0	11233	827	29	2	162	2	OR8D4	11	123777298	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	21243	123777298	11229218	240	33132										
PUS3	83480	broad.mit.edu	37	chr11	125765462	125765462	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tacaatatctaaatcagcacGagggaaaaaatagcggtaag	9	6	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:125765462G>A	uc001qcy.2	-	3	699	c.601C>T	c.(601-603)CGT>TGT	p.R201C	HYLS1_uc009zbv.2_Intron|HYLS1_uc001qcx.3_Intron	NM_031307	NP_112597	Q9BZE2	PUS3_HUMAN	pseudouridylate synthase 3	201						nucleus	RNA binding			ovary(1)	1	all_hematologic(175;0.177)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.131)|all_lung(97;0.139)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.043)		AAATCAGCACGAGGGAAAAAA	0.473													8	56	---	---	---	---	PASS	A	125765462	A	A	125765462	3	1	87	1	0	0	0	0	1	0	0	0	12832	1058	37	2	852	2	PUS3	11	125765462	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	1988164	125765462	9241054	241	33133										
NTM	50863	broad.mit.edu	37	chr11	131781445	131781445	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgtctctcaggctgctgttcCttgtacccacaggagtgccc	10	14	2	0	rs143802759		TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr11:131781445C>T	uc001qgp.2	+	1	734	c.70C>T	c.(70-72)CTT>TTT	p.L24F	NTM_uc001qgm.2_Intron|NTM_uc010sch.1_Intron|NTM_uc010sci.1_Intron|NTM_uc010scj.1_Intron|NTM_uc001qgo.2_Missense_Mutation_p.L24F|NTM_uc001qgq.2_Missense_Mutation_p.L24F	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	24					cell adhesion|neuron recognition	anchored to membrane|plasma membrane		p.L24F(1)		ovary(4)|central_nervous_system(1)|skin(1)	6						GCTGCTGTTCCTTGTACCCAC	0.627											OREG0021537	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	49	---	---	---	---	PASS	T	131781445	T	T	131781445	3	4	87	1	0	0	0	0	1	0	0	0	10699	681	24	3	158	3	NTM	11	131781445	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	6015983	131781445	3225071	242	33134										
CACNA1C	775	broad.mit.edu	37	chr12	2694567	2694567	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccagcccagagaagaaacaaGagttggtggagaagccggca	14	9	0	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:2694567G>T	uc009zdu.1	+	17	2678	c.2365G>T	c.(2365-2367)GAG>TAG	p.E789*	CACNA1C_uc009zdv.1_Nonsense_Mutation_p.E786*|CACNA1C_uc001qkb.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qkc.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qke.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qkf.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qjz.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qkd.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qkg.2_Nonsense_Mutation_p.E789*|CACNA1C_uc009zdw.1_Nonsense_Mutation_p.E789*|CACNA1C_uc001qkh.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qkl.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qkn.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qko.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qkp.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qkr.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qku.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qkq.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qks.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qkt.2_Nonsense_Mutation_p.E789*|CACNA1C_uc001qka.1_Nonsense_Mutation_p.E324*|CACNA1C_uc001qki.1_Nonsense_Mutation_p.E525*|CACNA1C_uc001qkj.1_Nonsense_Mutation_p.E525*|CACNA1C_uc001qkk.1_Nonsense_Mutation_p.E525*|CACNA1C_uc001qkm.1_Nonsense_Mutation_p.E525*|CACNA1C_uc001qkw.2_Nonsense_Mutation_p.E78*	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	789	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GAAGAAACAAGAGTTGGTGGA	0.542													7	28	---	---	---	---	PASS	T	2694567	T	T	2694567	4	4	87	1	0	0	0	0	0	1	0	0	2540	943	33	2	2539	2	CACNA1C	12	2694567	Nonsense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08		2694567	131157328	243	33135										
KCNA6	3742	broad.mit.edu	37	chr12	4920672	4920672	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gtgggcagcctgcgccggacCtgagggcaactgacaacgga	16	12	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:4920672C>A	uc001qng.2	+	1	2331	c.1465C>A	c.(1465-1467)CTG>ATG	p.L489M		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	489						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						TGCGCCGGACCTGAGGGCAAC	0.597										HNSCC(72;0.22)			20	69	---	---	---	---	PASS	A	4920672	A	A	4920672	3	1	87	1	0	0	0	0	1	0	0	0	8007	680	24	3	1467	3	KCNA6	12	4920672	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	2226105	4920672	128931223	244	33136										
CLEC1B	51266	broad.mit.edu	37	chr12	10149546	10149546	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gtgcctgaagaacccatagcAgctatctccataatatctcc	6	13	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:10149546A>T	uc001qwu.2	-	4	537	c.337T>A	c.(337-339)TGC>AGC	p.C113S	CLEC1B_uc009zhd.2_Missense_Mutation_p.C80S	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform	113	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0						AACCCATAGCAGCTATCTCCA	0.433													39	76	---	---	---	---	PASS	T	10149546	T	T	10149546	3	4	87	1	0	0	0	0	1	0	0	0	3506	188	7	5	364	5	CLEC1B	12	10149546	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	5228874	10149546	123702349	245	33137										
CAPZA3	93661	broad.mit.edu	37	chr12	18891505	18891505	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gacctgcttcaaaatcagctGaaagacatccaaagtcatgg	8	10	3	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:18891505G>A	uc001rdy.2	+	1	461	c.303G>A	c.(301-303)CTG>CTA	p.L101L	PLCZ1_uc001rdv.3_5'Flank|PLCZ1_uc001rdw.3_5'Flank|PLCZ1_uc010sid.1_5'Flank	NM_033328	NP_201585	Q96KX2	CAZA3_HUMAN	capping protein alpha 3	101					actin cytoskeleton organization|actin filament capping	F-actin capping protein complex	actin binding			ovary(1)|central_nervous_system(1)	2	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)	Hepatocellular(102;0.194)				AAAATCAGCTGAAAGACATCC	0.398													8	62	---	---	---	---	PASS	A	18891505	A	A	18891505	2	1	87	1	0	0	0	0	0	0	0	1	2642	1277	45	2		2	CAPZA3	12	18891505	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	8741959	18891505	114960390	246	33138										
ST8SIA1	6489	broad.mit.edu	37	chr12	22354742	22354742	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gaaaaagtcctgtggacaggCgcttggcatggattcctcta	12	9	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:22354742C>A	uc001rfo.3	-	5	1297	c.815G>T	c.(814-816)CGC>CTC	p.R272L	ST8SIA1_uc009zix.2_Missense_Mutation_p.R129L	NM_003034	NP_003025	Q92185	SIA8A_HUMAN	alpha-2,8-sialyltransferase 1	272	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(3)	3						TGTGGACAGGCGCTTGGCATG	0.507													30	60	---	---	---	---	PASS	A	22354742	A	A	22354742	3	1	87	1	0	0	0	0	1	0	0	0	15230	768	27	1	259	1	ST8SIA1	12	22354742	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	3463237	22354742	111497153	247	33139										
SOX5	6660	broad.mit.edu	37	chr12	23728734	23728734	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gatttgccatcagaggtcttGggtttagctgataggttcag	13	6	3	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:23728734G>A	uc001rfw.2	-	10	1305	c.1203C>T	c.(1201-1203)CCC>CCT	p.P401P	SOX5_uc001rfx.2_Silent_p.P388P|SOX5_uc001rfy.2_Intron|SOX5_uc001rfv.2_Silent_p.P15P|SOX5_uc010siv.1_Silent_p.P388P|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Silent_p.P353P	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	401					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						CAGAGGTCTTGGGTTTAGCTG	0.488													34	85	---	---	---	---	PASS	A	23728734	A	A	23728734	2	1	87	1	0	0	0	0	0	0	0	1	14954	1335	47	3		3	SOX5	12	23728734	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	1373992	23728734	110123161	248	33140										
KLHDC5	57542	broad.mit.edu	37	chr12	27950784	27950784	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atcgtgggggggtgtctccaCgagctggggcccaaccgcag	17	12	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:27950784C>T	uc001rij.2	+	3	1280	c.1203C>T	c.(1201-1203)CAC>CAT	p.H401H	KLHDC5_uc009zjj.2_RNA	NM_020782	NP_065833	Q9P2K6	KLDC5_HUMAN	kelch domain containing 5	401	Kelch 5.									ovary(1)|central_nervous_system(1)	2	Lung SC(9;0.0873)					GGTGTCTCCACGAGCTGGGGC	0.587													48	87	---	---	---	---	PASS	T	27950784	T	T	27950784	2	4	87	1	0	0	0	0	0	0	0	1	8359	535	19	1		1	KLHDC5	12	27950784	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	4222050	27950784	105901111	249	33141										
IPO8	10526	broad.mit.edu	37	chr12	30826935	30826935	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gtttattacctgctgaatgcCcactgcataggttttcaaaa	7	9	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:30826935C>A	uc001rjd.2	-	8	1068	c.898G>T	c.(898-900)GGC>TGC	p.G300C	IPO8_uc010sjt.1_Missense_Mutation_p.G95C	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	300					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					TGCTGAATGCCCACTGCATAG	0.313													16	59	---	---	---	---	PASS	A	30826935	A	A	30826935	3	1	87	1	0	0	0	0	1	0	0	0	7798	623	22	3	2287	3	IPO8	12	30826935	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	2876151	30826935	103024960	250	33142										
C12orf40	283461	broad.mit.edu	37	chr12	40020150	40020150	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tttgggaagatgaattgggtCggggggtcccggtaagttgt	18	4	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:40020150C>G	uc001rmc.2	+	1	179	c.12C>G	c.(10-12)GTC>GTG	p.V4V	C12orf40_uc009zjv.1_RNA	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	4										ovary(6)	6						TGAATTGGGTCGGGGGGTCCC	0.542													14	44	---	---	---	---	PASS	G	40020150	G	G	40020150	2	3	87	1	0	0	0	0	0	0	0	1	1686	871	31	2		2	C12orf40	12	40020150	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	9193215	40020150	93831745	251	33143										
MLL2	8085	broad.mit.edu	37	chr12	49420645	49420645	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccccgtcaccctcctcatgaCagaaacagcagcgacgcatg	8	17	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:49420645C>A	uc001rta.3	-	48	15104	c.15104G>T	c.(15103-15105)TGT>TTT	p.C5035F		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5035					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTCCTCATGACAGAAACAGCA	0.617			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			8	101	---	---	---	---	PASS	A	49420645	A	A	49420645	3	1	87	1	0	0	0	0	1	0	0	0	9621	478	17	3	1537	3	MLL2	12	49420645	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	9400495	49420645	84431250	252	33144										
MLL2	8085	broad.mit.edu	37	chr12	49435057	49435057	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aggcacttgggcgggcacctGgggtgggagcttgaggaaga	20	7	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:49435057G>A	uc001rta.3	-	31	6496	c.6496C>T	c.(6496-6498)CAG>TAG	p.Q2166*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2166	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GCGGGCACCTGGGGTGGGAGC	0.701			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			10	17	---	---	---	---	PASS	A	49435057	A	A	49435057	4	1	87	1	0	0	0	0	0	1	0	0	9621	1357	47	3	10213	3	MLL2	12	49435057	Nonsense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	14412	49435057	84416838	253	33145										
CELA1	1990	broad.mit.edu	37	chr12	51733741	51733741	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tggagcagatggcgtagtccAcagagggcaggtaagcctgc	16	9	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:51733741A>G	uc001ryi.1	-	6	553	c.512T>C	c.(511-513)GTG>GCG	p.V171A		NM_001971	NP_001962	Q9UNI1	CELA1_HUMAN	chymotrypsin-like elastase family, member 1	171	Peptidase S1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			breast(1)	1						GGCGTAGTCCACAGAGGGCAG	0.597													15	23	---	---	---	---	PASS	G	51733741	G	G	51733741	3	3	87	1	0	0	0	0	1	0	0	0	3210	159	6	5	276	5	CELA1	12	51733741	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	2298684	51733741	82118154	254	33146										
KRT86	3892	broad.mit.edu	37	chr12	52699180	52699180	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctgaggccgagtcctggtacCgcagcaaggtgagtggcaca	15	11	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:52699180C>G	uc010snq.1	+	6	1025	c.892C>G	c.(892-894)CGC>GGC	p.R298G	KRT86_uc009zmg.2_Missense_Mutation_p.R298G|KRT81_uc001sac.2_Intron|KRT86_uc001sad.2_Missense_Mutation_p.R298G	NM_002284	NP_002275	O43790	KRT86_HUMAN	keratin 86	298	Rod.|Coil 2.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(357;0.189)		GTCCTGGTACCGCAGCAAGGT	0.542													28	48	---	---	---	---	PASS	G	52699180	G	G	52699180	3	3	87	1	0	0	0	0	1	0	0	0	8500	652	23	4	910	4	KRT86	12	52699180	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	965439	52699180	81152715	255	33147										
KRT73	319101	broad.mit.edu	37	chr12	53008428	53008428	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atccaccttggcctgcagctCcactttgctcgtgtaagctg	9	14	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:53008428C>A	uc001sas.2	-	4	789	c.754G>T	c.(754-756)GAG>TAG	p.E252*		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	252	Coil 1B.|Rod.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		GCCTGCAGCTCCACTTTGCTC	0.567													22	42	---	---	---	---	PASS	A	53008428	A	A	53008428	4	1	87	1	0	0	0	0	0	1	0	0	8486	864	30	2	892	2	KRT73	12	53008428	Nonsense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	309248	53008428	80843467	256	33148										
KIF5A	3798	broad.mit.edu	37	chr12	57969442	57969442	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gcatgaggccaagatccgctCgcttacggaatacatgcaga	11	11	0	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:57969442C>T	uc001sor.1	+	17	2133	c.1925C>T	c.(1924-1926)TCG>TTG	p.S642L	KIF5A_uc010srr.1_Missense_Mutation_p.S553L	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	642					blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						AAGATCCGCTCGCTTACGGAA	0.557													71	139	---	---	---	---	PASS	T	57969442	T	T	57969442	3	4	87	1	0	0	0	0	1	0	0	0	8305	893	31	2	1991	2	KIF5A	12	57969442	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	4961014	57969442	75882453	257	33149										
GEFT	115557	broad.mit.edu	37	chr12	58007895	58007895	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tccagcaaatctatgagtggCaccgagagtgagtggtggaa	14	7	1	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:58007895C>T	uc001spb.2	+	6	1109	c.649C>T	c.(649-651)CAC>TAC	p.H217Y	GEFT_uc009zpy.2_Missense_Mutation_p.H256Y|GEFT_uc001soz.1_Missense_Mutation_p.H91Y|GEFT_uc001spa.2_Missense_Mutation_p.H111Y|uc001spc.2_Intron|GEFT_uc001spd.2_5'UTR	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	217	DH.				regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					CTATGAGTGGCACCGAGAGTG	0.537													26	70	---	---	---	---	PASS	T	58007895	T	T	58007895	3	4	87	1	0	0	0	0	1	0	0	0	6328	710	25	3	893	3	GEFT	12	58007895	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	38453	58007895	75844000	258	33150										
PTPRB	5787	broad.mit.edu	37	chr12	71029668	71029668	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tccaagatggctgagcgggaGgggccgcgggaagagttgga	20	7	0	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:71029668G>T	uc001swc.3	-	2	278	c.234C>A	c.(232-234)CCC>CCA	p.P78P	PTPRB_uc001swa.3_Silent_p.P78P|PTPRB_uc001swd.3_Silent_p.P77P|PTPRB_uc009zrr.1_Intron|PTPRB_uc001swe.2_Silent_p.P78P	NM_001109754	NP_001103224	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	Error:Variant_position_missing_in_P23467_after_alignment					angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CTGAGCGGGAGGGGCCGCGGG	0.557													9	17	---	---	---	---	PASS	T	71029668	T	T	71029668	2	4	87	1	0	0	0	0	0	0	0	1	12796	987	35	3		3	PTPRB	12	71029668	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	13021773	71029668	62822227	259	33151										
NAV3	89795	broad.mit.edu	37	chr12	78542700	78542700	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	catctcagctttcagcaaatGtaagtcacttcatttttaaa	4	9	4	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:78542700G>T	uc001syp.2	+	22	4958	c.4785_splice	c.e22+1	p.N1595_splice	NAV3_uc001syo.2_Splice_Site_p.N1595_splice|NAV3_uc010sub.1_Splice_Site_p.N1081_splice|NAV3_uc009zsf.2_Splice_Site_p.N426_splice	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3							nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TTCAGCAAATGTAAGTCACTT	0.313										HNSCC(70;0.22)			5	20	---	---	---	---	PASS	T	78542700	T	T	78542700	5	4	87	1	0	0	0	0	0	0	1	0	10185	1391	48	3	4872	3	NAV3	12	78542700	Splice_Site	SNP	G	TCGA-39-5027-01A-21D-1817-08	7513032	78542700	55309195	260	33152										
PPFIA2	8499	broad.mit.edu	37	chr12	81839366	81839366	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aggccttgtggtgctcaaacAaagatttcagtgccttgaga	11	8	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:81839366A>T	uc001szo.1	-	6	700	c.539T>A	c.(538-540)TTG>TAG	p.L180*	PPFIA2_uc010sue.1_Nonsense_Mutation_p.L80*|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	106										ovary(3)|lung(2)|pancreas(1)	6						GTGCTCAAACAAAGATTTCAG	0.428													42	59	---	---	---	---	PASS	T	81839366	T	T	81839366	4	4	87	1	0	0	0	0	0	1	0	0	12310	131	5	5	3342	5	PPFIA2	12	81839366	Nonsense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	3296666	81839366	52012529	261	33153										
TMPO	7112	broad.mit.edu	37	chr12	98921700	98921700	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctgataaacccagacaagaaGataaagatgatctagatgta	8	6	1	7			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:98921700G>A	uc001tfj.2	+	2	553	c.316G>A	c.(316-318)GAT>AAT	p.D106N	TMPO_uc001tfi.1_Missense_Mutation_p.D106N|TMPO_uc001tfk.2_Missense_Mutation_p.D106N|TMPO_uc001tfl.2_RNA|TMPO_uc001tfh.1_Missense_Mutation_p.D106N	NM_001032283	NP_001027454	P42167	LAP2B_HUMAN	thymopoietin isoform beta	106	Linker.|Nucleoplasmic (Potential).					integral to membrane|nuclear inner membrane	DNA binding|lamin binding			ovary(2)	2						CAGACAAGAAGATAAAGATGA	0.348													41	88	---	---	---	---	PASS	A	98921700	A	A	98921700	3	1	87	1	0	0	0	0	1	0	0	0	16234	942	33	2	322	2	TMPO	12	98921700	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	17082334	98921700	34930195	262	33154										
NR1H4	9971	broad.mit.edu	37	chr12	100928738	100928738	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aagcagcatgcagatcagacCgtgaatgaagacagtgaagg	13	7	1	6			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:100928738C>G	uc001tht.1	+	4	727	c.699C>G	c.(697-699)ACC>ACG	p.T233T	NR1H4_uc001thp.1_Silent_p.T219T|NR1H4_uc001thq.1_Silent_p.T223T|NR1H4_uc010svj.1_RNA|NR1H4_uc001thr.1_Silent_p.T223T|NR1H4_uc010svk.1_Silent_p.T172T|NR1H4_uc001ths.1_Silent_p.T229T	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	233					bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						CAGATCAGACCGTGAATGAAG	0.428													20	37	---	---	---	---	PASS	G	100928738	G	G	100928738	2	3	87	1	0	0	0	0	0	0	0	1	10619	639	23	4		4	NR1H4	12	100928738	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	2007038	100928738	32923157	263	33155										
SLC5A8	160728	broad.mit.edu	37	chr12	101551154	101551154	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	caccatcttccactggatgtGatttatagctcaaaacatgc	6	11	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:101551154G>A	uc001thz.3	-	15	2126	c.1736C>T	c.(1735-1737)TCA>TTA	p.S579L		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	579	Cytoplasmic (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						CACTGGATGTGATTTATAGCT	0.373													5	16	---	---	---	---	PASS	A	101551154	A	A	101551154	3	1	87	1	0	0	0	0	1	0	0	0	14671	1294	45	2	100	2	SLC5A8	12	101551154	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	622416	101551154	32300741	264	33156										
SLC5A8	160728	broad.mit.edu	37	chr12	101603342	101603342	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	acctccgcgctgatgaccacCacaaagaagtaggtgaaggc	11	12	0	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:101603342C>T	uc001thz.3	-	1	675	c.285G>A	c.(283-285)GTG>GTA	p.V95V		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	95	Helical; (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						TGATGACCACCACAAAGAAGT	0.577													9	26	---	---	---	---	PASS	T	101603342	T	T	101603342	2	4	87	1	0	0	0	0	0	0	0	1	14671	581	21	3		3	SLC5A8	12	101603342	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	52188	101603342	32248553	265	33157										
UTP20	27340	broad.mit.edu	37	chr12	101731884	101731884	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	acccagaatgtgatatcctgAccaatgtttttgcaattctc	6	10	1	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:101731884A>T	uc001tia.1	+	30	3853	c.3697A>T	c.(3697-3699)ACC>TCC	p.T1233S		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1233					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TGATATCCTGACCAATGTTTT	0.388													30	74	---	---	---	---	PASS	T	101731884	T	T	101731884	3	4	87	1	0	0	0	0	1	0	0	0	17096	275	10	5	3815	5	UTP20	12	101731884	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	128542	101731884	32120011	266	33158										
TDG	6996	broad.mit.edu	37	chr12	104379432	104379432	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aaaatatgatccaggttatgAggcagcatatggtggtgctt	12	5	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:104379432A>G	uc001tkg.2	+	9	1239	c.1016A>G	c.(1015-1017)GAG>GGG	p.E339G	TDG_uc009zuk.2_Missense_Mutation_p.E335G|TDG_uc010swi.1_Missense_Mutation_p.E196G|TDG_uc010swj.1_Missense_Mutation_p.E127G	NM_003211	NP_003202	Q13569	TDG_HUMAN	thymine-DNA glycosylase	339					depyrimidination|mismatch repair	nucleoplasm	damaged DNA binding|mismatched DNA binding|protein binding|pyrimidine-specific mismatch base pair DNA N-glycosylase activity			ovary(3)|lung(3)	6				BRCA - Breast invasive adenocarcinoma(302;0.00114)		CCAGGTTATGAGGCAGCATAT	0.403								BER_DNA_glycosylases					17	115	---	---	---	---	PASS	G	104379432	G	G	104379432	3	3	87	1	0	0	0	0	1	0	0	0	15722	304	11	5	1050	5	TDG	12	104379432	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	2647548	104379432	29472463	267	33159										
CORO1C	23603	broad.mit.edu	37	chr12	109051103	109051103	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	attccagagagccagctgccGctcgctcatgcggctgaacc	11	15	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:109051103G>A	uc001tnj.2	-	6	823	c.727C>T	c.(727-729)CGG>TGG	p.R243W	CORO1C_uc009zva.2_Missense_Mutation_p.R296W|CORO1C_uc010sxf.1_Missense_Mutation_p.R206W	NM_014325	NP_055140	Q9ULV4	COR1C_HUMAN	coronin, actin binding protein, 1C isoform 1	243					actin cytoskeleton organization|phagocytosis|signal transduction	actin cytoskeleton	actin filament binding			skin(3)	3						GCCAGCTGCCGCTCGCTCATG	0.557													41	81	---	---	---	---	PASS	A	109051103	A	A	109051103	3	1	87	1	0	0	0	0	1	0	0	0	3755	1086	38	1	721	1	CORO1C	12	109051103	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	4671671	109051103	24800792	268	33160										
FOXN4	121643	broad.mit.edu	37	chr12	109719363	109719363	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggcagggcgtgcagtggcggGgtctgggctggtgctggaga	23	7	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:109719363G>T	uc001toe.3	-	9	1248	c.1143C>A	c.(1141-1143)ACC>ACA	p.T381T	FOXN4_uc009zvg.2_Silent_p.T178T|FOXN4_uc001tof.3_Silent_p.T201T	NM_213596	NP_998761	Q96NZ1	FOXN4_HUMAN	forkhead box N4	381					axon extension|embryo development|organ development|pattern specification process|regulation of heart contraction|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(1)|lung(1)	2						GCAGTGGCGGGGTCTGGGCTG	0.662													6	8	---	---	---	---	PASS	T	109719363	T	T	109719363	2	4	87	1	0	0	0	0	0	0	0	1	6022	1219	43	3		3	FOXN4	12	109719363	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	668260	109719363	24132532	269	33161										
COQ5	84274	broad.mit.edu	37	chr12	120966933	120966933	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctccatagagcacagctcccGggggccgccatcttggtagt	12	14	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:120966933G>A	uc001tyn.2	-	1	32	c.12C>T	c.(10-12)CCC>CCT	p.P4P	COQ5_uc001tyo.2_5'UTR|COQ5_uc010szj.1_Silent_p.P4P	NM_032314	NP_115690	Q5HYK3	COQ5_HUMAN	coenzyme Q5 homolog, methyltransferase	4					ubiquinone biosynthetic process	mitochondrion	methyltransferase activity			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CACAGCTCCCGGGGGCCGCCA	0.652													12	19	---	---	---	---	PASS	A	120966933	A	A	120966933	2	1	87	1	0	0	0	0	0	0	0	1	3748	1103	39	1		1	COQ5	12	120966933	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	11247570	120966933	12884962	270	33162										
ACADS	35	broad.mit.edu	37	chr12	121174802	121174802	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgcccaggtgaagaagatggGcgggcttgggcttctggcca	17	9	1	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr12:121174802G>T	uc001tza.3	+	3	342	c.224G>T	c.(223-225)GGC>GTC	p.G75V	ACADS_uc010szl.1_Missense_Mutation_p.G75V|ACADS_uc001tzb.3_Missense_Mutation_p.G2V	NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	75						mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)	AAGAAGATGGGCGGGCTTGGG	0.692													7	14	---	---	---	---	PASS	T	121174802	T	T	121174802	3	4	87	1	0	0	0	0	1	0	0	0	114	1203	42	3	234	3	ACADS	12	121174802	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	207869	121174802	12677093	271	33163										
TPTE2	93492	broad.mit.edu	37	chr13	20048124	20048124	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agctagagaaatagaacgatActccaaaggaatataaagtt	8	5	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr13:20048124A>T	uc001umd.2	-	7	533	c.322T>A	c.(322-324)TAT>AAT	p.Y108N	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Intron|TPTE2_uc001ume.2_Missense_Mutation_p.Y71N|TPTE2_uc009zzm.2_5'UTR|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	108						endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		ATAGAACGATACTCCAAAGGA	0.333													34	94	---	---	---	---	PASS	T	20048124	T	T	20048124	3	4	87	1	0	0	0	0	1	0	0	0	16428	391	14	5	1306	5	TPTE2	13	20048124	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08		20048124	95121754	272	33164										
SGCG	6445	broad.mit.edu	37	chr13	23777964	23777964	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cttgtttgttcttcttttacTcatcatcctcgttgtgaatt	5	9	4	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr13:23777964T>A	uc001uom.2	+	2	286	c.131T>A	c.(130-132)CTC>CAC	p.L44H	SGCG_uc009zzv.2_Missense_Mutation_p.L44H|SGCG_uc009zzw.2_Missense_Mutation_p.L44H	NM_000231	NP_000222	Q13326	SGCG_HUMAN	gamma sarcoglycan	44	Helical; Signal-anchor for type II membrane protein; (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0		all_cancers(29;4.34e-23)|all_epithelial(30;4.4e-19)|all_lung(29;2.45e-18)|Lung SC(185;0.0228)|Breast(139;0.188)		all cancers(112;0.00255)|Epithelial(112;0.0129)|OV - Ovarian serous cystadenocarcinoma(117;0.0365)|Lung(94;0.205)		CTTCTTTTACTCATCATCCTC	0.378													32	52	---	---	---	---	PASS	A	23777964	A	A	23777964	3	1	87	1	0	0	0	0	1	0	0	0	14203	1551	54	5	133	5	SGCG	13	23777964	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	3729840	23777964	91391914	273	33165										
USPL1	10208	broad.mit.edu	37	chr13	31227421	31227421	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gagcaaataatcattttataAcatggattttagatgctgat	7	4	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr13:31227421A>T	uc001utc.2	+	8	1807	c.1375A>T	c.(1375-1377)ACA>TCA	p.T459S	USPL1_uc001utd.2_Missense_Mutation_p.T130S|USPL1_uc001ute.1_Missense_Mutation_p.T130S	NM_005800	NP_005791	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	459					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			pancreas(2)|skin(1)	3		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0306)|Epithelial(112;0.131)|OV - Ovarian serous cystadenocarcinoma(117;0.134)		TCATTTTATAACATGGATTTT	0.328													31	71	---	---	---	---	PASS	T	31227421	T	T	31227421	3	4	87	1	0	0	0	0	1	0	0	0	17089	43	2	5	1401	5	USPL1	13	31227421	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	7449457	31227421	83942457	274	33166										
FREM2	341640	broad.mit.edu	37	chr13	39452269	39452269	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	catttccacatctctatttcAggtgatataatttatggtcg	6	8	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr13:39452269A>T	uc001uwv.2	+	22	8981	c.8672_splice	c.e22-2	p.G2891_splice		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2						cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TCTCTATTTCAGGTGATATAA	0.393													48	85	---	---	---	---	PASS	T	39452269	T	T	39452269	5	4	87	1	0	0	0	0	0	0	1	0	6045	202	7	5	8756	5	FREM2	13	39452269	Splice_Site	SNP	A	TCGA-39-5027-01A-21D-1817-08	8224848	39452269	75717609	275	33167										
EPSTI1	94240	broad.mit.edu	37	chr13	43500491	43500491	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cccatgttgaggattgtgggCcacaaacagcactttgacag	11	10	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr13:43500491C>T	uc001uyw.1	-	7	714	c.638G>A	c.(637-639)GGC>GAC	p.G213D	EPSTI1_uc001uyx.1_Missense_Mutation_p.G213D	NM_001002264	NP_001002264	Q96J88	ESIP1_HUMAN	epithelial stromal interaction 1 isoform 1	213										ovary(1)	1		Lung NSC(96;3.6e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000528)|BRCA - Breast invasive adenocarcinoma(63;0.0858)		GGATTGTGGGCCACAAACAGC	0.448													91	201	---	---	---	---	PASS	T	43500491	T	T	43500491	3	4	87	1	0	0	0	0	1	0	0	0	5198	739	26	3	622	3	EPSTI1	13	43500491	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	4048222	43500491	71669387	276	33168										
SLC25A30	253512	broad.mit.edu	37	chr13	45980021	45980021	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	acagattccccactcaccttCtgggcgttcaatgaatagtc	7	13	3	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr13:45980021C>A	uc001vag.2	-	4	441	c.304G>T	c.(304-306)GAA>TAA	p.E102*	SLC25A30_uc010tfs.1_Nonsense_Mutation_p.E27*|SLC25A30_uc001vah.2_Nonsense_Mutation_p.E27*|SLC25A30_uc010tft.1_Nonsense_Mutation_p.E51*|SLC25A30_uc001vaf.2_5'Flank	NM_001010875	NP_001010875	Q5SVS4	KMCP1_HUMAN	solute carrier family 25, member 30	102					mitochondrial transport	integral to membrane|mitochondrial inner membrane	binding			breast(1)	1		Lung NSC(96;0.00227)|Prostate(109;0.00578)|Breast(56;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.95e-05)		CACTCACCTTCTGGGCGTTCA	0.473													24	61	---	---	---	---	PASS	A	45980021	A	A	45980021	4	1	87	1	0	0	0	0	0	1	0	0	14494	922	32	2	599	2	SLC25A30	13	45980021	Nonsense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	2479530	45980021	69189857	277	33169										
RNF219	79596	broad.mit.edu	37	chr13	79213075	79213075	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttacttggattatctgtgacTagatgtttgtcttcattttg	8	5	3	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr13:79213075T>A	uc001vkw.1	-	4	491	c.432A>T	c.(430-432)CTA>CTT	p.L144L	RNF219_uc010afb.1_5'UTR|RNF219_uc010afc.2_Silent_p.L144L	NM_024546	NP_078822	Q5W0B1	RN219_HUMAN	ring finger protein 219	144							zinc ion binding			large_intestine(2)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.0414)		TATCTGTGACTAGATGTTTGT	0.363													35	88	---	---	---	---	PASS	A	79213075	A	A	79213075	2	1	87	1	0	0	0	0	0	0	0	1	13482	1509	53	5		5	RNF219	13	79213075	Silent	SNP	T	TCGA-39-5027-01A-21D-1817-08	33233054	79213075	35956803	278	33170										
RNF219	79596	broad.mit.edu	37	chr13	79213097	79213097	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gatgtttgtcttcattttggTtgccctgcaccaaggttaaa	9	8	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr13:79213097T>A	uc001vkw.1	-	4	469	c.410A>T	c.(409-411)AAC>ATC	p.N137I	RNF219_uc010afb.1_5'UTR|RNF219_uc010afc.2_Missense_Mutation_p.N137I	NM_024546	NP_078822	Q5W0B1	RN219_HUMAN	ring finger protein 219	137							zinc ion binding			large_intestine(2)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.0414)		TTCATTTTGGTTGCCCTGCAC	0.368													34	89	---	---	---	---	PASS	A	79213097	A	A	79213097	3	1	87	1	0	0	0	0	1	0	0	0	13482	1725	60	5	1782	5	RNF219	13	79213097	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	22	79213097	35956781	279	33171										
GPC6	10082	broad.mit.edu	37	chr13	95050862	95050862	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccaacaaactaaaaaacgccTacaatggcaatgatgtcaat	5	10	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr13:95050862T>G	uc001vlt.2	+	8	2064	c.1432T>G	c.(1432-1434)TAC>GAC	p.Y478D		NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	478						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				AAAAAACGCCTACAATGGCAA	0.428													16	50	---	---	---	---	PASS	G	95050862	G	G	95050862	3	3	87	1	0	0	0	0	1	0	0	0	6602	1522	53	5	1462	5	GPC6	13	95050862	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	15837765	95050862	20119016	280	33172										
UGGT2	55757	broad.mit.edu	37	chr13	96589190	96589190	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttacctaccaaaaaaacttcTctttgtaaatatacagatgc	3	9	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr13:96589190T>A	uc001vmt.2	-	17	2135	c.1965A>T	c.(1963-1965)AGA>AGT	p.R655S		NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	655					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						AAAAAACTTCTCTTTGTAAAT	0.244													26	40	---	---	---	---	PASS	A	96589190	A	A	96589190	3	1	87	1	0	0	0	0	1	0	0	0	16939	1548	54	5	2677	5	UGGT2	13	96589190	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	1538328	96589190	18580688	281	33173										
ZIC2	7546	broad.mit.edu	37	chr13	100637327	100637327	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgcaagatgtgcgacaagtcCtacacgcaccccagctcgct	9	15	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr13:100637327C>A	uc001von.2	+	2	1203	c.1203C>A	c.(1201-1203)TCC>TCA	p.S401S		NM_007129	NP_009060	O95409	ZIC2_HUMAN	zinc finger protein of the cerebellum 2	401	C2H2-type 5.				brain development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|visual perception	cytoplasm|nucleus	chromatin DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					GCGACAAGTCCTACACGCACC	0.667													26	64	---	---	---	---	PASS	A	100637327	A	A	100637327	2	1	87	1	0	0	0	0	0	0	0	1	17676	668	24	3		3	ZIC2	13	100637327	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	4048137	100637327	14532551	282	33174										
ARGLU1	55082	broad.mit.edu	37	chr13	107196490	107196490	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctttctttgttcttcaacaaTtctcaactgttcttcggcct	4	12	5	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr13:107196490T>C	uc001vqk.3	-	4	923	c.676A>G	c.(676-678)ATT>GTT	p.I226V		NM_018011	NP_060481	Q9NWB6	ARGL1_HUMAN	arginine and glutamate rich 1	226	Glu-rich.										0	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					TCTTCAACAATTCTCAACTGT	0.174													22	32	---	---	---	---	PASS	C	107196490	C	C	107196490	3	2	87	1	0	0	0	0	1	0	0	0	860	1493	52	5	149	5	ARGLU1	13	107196490	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	6559163	107196490	7973388	283	33175										
OR4M1	441670	broad.mit.edu	37	chr14	20249278	20249278	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttatgctcgcccatttgactCattttccctagataaagtgg	7	10	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr14:20249278C>A	uc010tku.1	+	1	797	c.797C>A	c.(796-798)TCA>TAA	p.S266*		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	266	Extracellular (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)		CCATTTGACTCATTTTCCCTA	0.413													39	192	---	---	---	---	PASS	A	20249278	A	A	20249278	4	1	87	1	0	0	0	0	0	1	0	0	11075	838	29	2	799	2	OR4M1	14	20249278	Nonsense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08		20249278	87100262	284	33176										
NIN	51199	broad.mit.edu	37	chr14	51192658	51192658	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggtgggtgaacagagatgacCgggtaggctcacttgttctt	15	7	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr14:51192658C>A	uc001wym.2	-	30	6396	c.6205G>T	c.(6205-6207)GGT>TGT	p.G2069C	NIN_uc001wyi.2_Intron|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Missense_Mutation_p.G1356C|NIN_uc010tqp.1_Missense_Mutation_p.G2075C	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	2069					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CAGAGATGACCGGGTAGGCTC	0.398			T	PDGFRB	MPD								40	86	---	---	---	---	PASS	A	51192658	A	A	51192658	3	1	87	1	0	0	0	0	1	0	0	0	10417	652	23	1	285	1	NIN	14	51192658	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	30943380	51192658	56156882	285	33177										
C14orf37	145407	broad.mit.edu	37	chr14	58605787	58605787	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgagcccagcttgtccaggcTgggtttctttgttaatcgag	12	9	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr14:58605787T>A	uc001xdc.2	-	2	401	c.290A>T	c.(289-291)CAG>CTG	p.Q97L	C14orf37_uc010tro.1_Missense_Mutation_p.Q135L|C14orf37_uc001xdd.2_Missense_Mutation_p.Q97L|C14orf37_uc001xde.2_Missense_Mutation_p.Q97L	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	97	Extracellular (Potential).					integral to membrane	binding				0						TTGTCCAGGCTGGGTTTCTTT	0.488													38	64	---	---	---	---	PASS	A	58605787	A	A	58605787	3	1	87	1	0	0	0	0	1	0	0	0	1771	1580	55	5	2062	5	C14orf37	14	58605787	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	7413129	58605787	48743753	286	33178										
C14orf115	55237	broad.mit.edu	37	chr14	74825314	74825314	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cttccagagagggggccctgCaggagggggccacagcccag	17	13	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr14:74825314C>A	uc001xpw.3	+	2	2019	c.1828C>A	c.(1828-1830)CAG>AAG	p.Q610K		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	610					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		GGGGGCCCTGCAGGAGGGGGC	0.667													7	54	---	---	---	---	PASS	A	74825314	A	A	74825314	3	1	87	1	0	0	0	0	1	0	0	0	1740	711	25	3	1830	3	C14orf115	14	74825314	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	16219527	74825314	32524226	287	33179										
YLPM1	56252	broad.mit.edu	37	chr14	75265623	75265623	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgaagagtttccattagatgGtagaaatgctccaatggaac	10	6	0	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr14:75265623G>C	uc001xqj.3	+	5	3747	c.3623G>C	c.(3622-3624)GGT>GCT	p.G1208A	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1013	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		CCATTAGATGGTAGAAATGCT	0.468													15	24	---	---	---	---	PASS	C	75265623	C	C	75265623	3	2	87	1	0	0	0	0	1	0	0	0	17483	1261	44	4	3641	4	YLPM1	14	75265623	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	440309	75265623	32083917	288	33180										
NRXN3	9369	broad.mit.edu	37	chr14	79276669	79276669	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttccccatctagactgtatcAggataaactgtaactccagt	6	11	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr14:79276669A>T	uc001xun.2	+	7	1629	c.1138A>T	c.(1138-1140)AGG>TGG	p.R380W	NRXN3_uc001xum.1_Intron|NRXN3_uc010asv.1_Intron	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	753	Laminin G-like 4.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		AGACTGTATCAGGATAAACTG	0.343													9	22	---	---	---	---	PASS	T	79276669	T	T	79276669	3	4	87	1	0	0	0	0	1	0	0	0	10667	179	7	5	1156	5	NRXN3	14	79276669	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	4011046	79276669	28072871	289	33181										
TRIP11	9321	broad.mit.edu	37	chr14	92488131	92488131	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gactgcagtttcagcaactgAtcctggagtgcaatctgtct	10	10	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr14:92488131A>G	uc001xzy.2	-	4	1145	c.357T>C	c.(355-357)GAT>GAC	p.D119D		NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	119	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		TCAGCAACTGATCCTGGAGTG	0.408			T	PDGFRB	AML								30	55	---	---	---	---	PASS	G	92488131	G	G	92488131	2	3	87	1	0	0	0	0	0	0	0	1	16552	330	12	5		5	TRIP11	14	92488131	Silent	SNP	A	TCGA-39-5027-01A-21D-1817-08	13211462	92488131	14861409	290	33182										
KIAA1409	57578	broad.mit.edu	37	chr14	94088791	94088791	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agctgccagagttctcctgcGgtagcccactgacgctgaag	12	13	1	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr14:94088791G>A	uc001ybv.1	+	28	4830	c.4747G>A	c.(4747-4749)GGT>AGT	p.G1583S	KIAA1409_uc001ybs.1_Missense_Mutation_p.G1561S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1738						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GTTCTCCTGCGGTAGCCCACT	0.577													33	90	---	---	---	---	PASS	A	94088791	A	A	94088791	3	1	87	1	0	0	0	0	1	0	0	0	8230	1116	39	1	4787	1	KIAA1409	14	94088791	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	1600660	94088791	13260749	291	33183										
MARK3	4140	broad.mit.edu	37	chr14	103932708	103932708	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gaaggacaggtggatcaatgCagggcatgaagaagatgaac	15	5	1	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr14:103932708C>A	uc001ymz.3	+	10	1592	c.926C>A	c.(925-927)GCA>GAA	p.A309E	MARK3_uc001ymx.3_Missense_Mutation_p.A309E|MARK3_uc001ymw.3_Missense_Mutation_p.A309E|MARK3_uc001yna.3_Missense_Mutation_p.A309E|MARK3_uc001ymy.3_Missense_Mutation_p.A230E|MARK3_uc010awp.2_Missense_Mutation_p.A332E|MARK3_uc010tyb.1_Missense_Mutation_p.A120E	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	309							ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			TGGATCAATGCAGGGCATGAA	0.353													16	22	---	---	---	---	PASS	A	103932708	A	A	103932708	3	1	87	1	0	0	0	0	1	0	0	0	9314	710	25	3	964	3	MARK3	14	103932708	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	9843917	103932708	3416832	292	33184										
PPP1R13B	23368	broad.mit.edu	37	chr14	104206650	104206650	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cgctttttcaggggccggggCgcgttggccagcttcctgcg	16	13	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr14:104206650C>A	uc001yof.1	-	12	2386	c.2103G>T	c.(2101-2103)GCG>GCT	p.A701A	PPP1R13B_uc010awv.1_RNA|PPP1R13B_uc001yog.1_Silent_p.A568A	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	701	Pro-rich.				apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				GGGGCCGGGGCGCGTTGGCCA	0.672													43	92	---	---	---	---	PASS	A	104206650	A	A	104206650	2	1	87	1	0	0	0	0	0	0	0	1	12357	755	27	1		1	PPP1R13B	14	104206650	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	273942	104206650	3142890	293	33185										
ADSSL1	122622	broad.mit.edu	37	chr14	105204723	105204723	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tctcatgcaggcaacggggtGgtcatccacttgccaggctt	12	12	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr14:105204723G>T	uc001ypd.2	+	3	380	c.306G>T	c.(304-306)GTG>GTT	p.V102V	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Silent_p.V145V|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	102					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	GCAACGGGGTGGTCATCCACT	0.493													27	52	---	---	---	---	PASS	T	105204723	T	T	105204723	2	4	87	1	0	0	0	0	0	0	0	1	348	1335	47	3		3	ADSSL1	14	105204723	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	998073	105204723	2144817	294	33186										
C15orf2	23742	broad.mit.edu	37	chr15	24922057	24922057	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	actgccattgctgtgggatcGaggtgagcttcccccacctg	12	13	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr15:24922057G>T	uc001ywo.2	+	1	1517	c.1043G>T	c.(1042-1044)CGA>CTA	p.R348L		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	348	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CTGTGGGATCGAGGTGAGCTT	0.567													14	42	---	---	---	---	PASS	T	24922057	T	T	24922057	3	4	87	1	0	0	0	0	1	0	0	0	1784	1058	37	2	1045	2	C15orf2	15	24922057	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08		24922057	77609335	295	33187										
UBE3A	7337	broad.mit.edu	37	chr15	25616072	25616072	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gtccactcgaggacctttctTgtttcttctttcttctccca	5	14	5	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr15:25616072T>A	uc001zaq.2	-	4	1258	c.1258A>T	c.(1258-1260)AAG>TAG	p.K420*	uc001zae.2_Intron|UBE3A_uc001zar.2_Nonsense_Mutation_p.K397*|UBE3A_uc001zas.2_Nonsense_Mutation_p.K417*|UBE3A_uc001zat.2_Nonsense_Mutation_p.K397*	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	420	Interaction with HCV core protein.				brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		GGACCTTTCTTGTTTCTTCTT	0.443													13	28	---	---	---	---	PASS	A	25616072	A	A	25616072	4	1	87	1	0	0	0	0	0	1	0	0	16876	1821	63	5	1401	5	UBE3A	15	25616072	Nonsense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	694015	25616072	76915320	296	33188										
AQR	9716	broad.mit.edu	37	chr15	35210502	35210502	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gggacaatattttcatcccaTataattttctcagttggata	6	7	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr15:35210502T>C	uc001ziv.2	-	15	1480	c.1299A>G	c.(1297-1299)ATA>ATG	p.I433M		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	433						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		TTTCATCCCATATAATTTTCT	0.348													28	56	---	---	---	---	PASS	C	35210502	C	C	35210502	3	2	87	1	0	0	0	0	1	0	0	0	835	1396	49	5	3242	5	AQR	15	35210502	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	9594430	35210502	67320890	297	33189										
OIP5	11339	broad.mit.edu	37	chr15	41624158	41624158	+	Frame_Shift_Del	DEL	A	-	-													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	caactaggaagggcgcttccAaaacgacgttatttgtaact							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr15:41624158delA	uc001znp.2	-	2	404	c.344delT	c.(343-345)TTGfs	p.L115fs	NUSAP1_uc001znq.3_5'Flank|NUSAP1_uc001znr.3_5'Flank|NUSAP1_uc001zns.3_5'Flank|NUSAP1_uc010bce.2_5'Flank|NUSAP1_uc001znt.3_5'Flank|NUSAP1_uc001znv.3_5'Flank|NUSAP1_uc001znu.3_5'Flank|NUSAP1_uc010ucw.1_5'Flank	NM_007280	NP_009211	O43482	MS18B_HUMAN	Opa interacting protein 5	115					cell communication|cell division|CenH3-containing nucleosome assembly at centromere|mitosis	Cajal body|chromatin|chromosome, centromeric region	protein binding				0		all_cancers(109;4.16e-14)|all_epithelial(112;7.09e-12)|Lung NSC(122;1.14e-09)|all_lung(180;2.56e-08)|Melanoma(134;0.091)|Colorectal(260;0.175)		OV - Ovarian serous cystadenocarcinoma(18;1.49e-16)|GBM - Glioblastoma multiforme(113;1.29e-06)|BRCA - Breast invasive adenocarcinoma(123;0.163)		GGGCGCTTCCAAAACGACGTT	0.453											OREG0023073	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	102	47	---	---	---	---		-	41624158	-	-	41624158	7	5	87	1	0	1	0	1	0	0	0	0	10848	131	5	0	361	0	OIP5	15	41624158	Frame_Shift_Del	DEL	A	TCGA-39-5027-01A-21D-1817-08	6413656	41624158	60907234	298	33190										
LTK	4058	broad.mit.edu	37	chr15	41804959	41804959	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gcacgcctctcagctgcccgGcggcccccacggtcaccacc	10	22	2	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr15:41804959G>T	uc001zoa.3	-	3	483	c.305C>A	c.(304-306)GCC>GAC	p.A102D	LTK_uc001zob.3_Missense_Mutation_p.A102D|LTK_uc010ucx.1_Missense_Mutation_p.A102D|LTK_uc010bcg.2_Intron	NM_002344	NP_002335	P29376	LTK_HUMAN	leukocyte receptor tyrosine kinase isoform 1	102	Extracellular (Potential).				apoptosis|cell proliferation|phosphatidylinositol 3-kinase cascade|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|central_nervous_system(1)	7		all_cancers(109;1.89e-19)|all_epithelial(112;2.28e-16)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.172)		OV - Ovarian serous cystadenocarcinoma(18;2.1e-17)|GBM - Glioblastoma multiforme(113;1.34e-06)|Colorectal(105;0.0148)|BRCA - Breast invasive adenocarcinoma(123;0.113)		CAGCTGCCCGGCGGCCCCCAC	0.682										TSP Lung(18;0.14)			11	12	---	---	---	---	PASS	T	41804959	T	T	41804959	3	4	87	1	0	0	0	0	1	0	0	0	9080	1203	42	3	2361	3	LTK	15	41804959	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	180801	41804959	60726433	299	33191										
CASC4	113201	broad.mit.edu	37	chr15	44705541	44705541	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	attttacttacagatgatgaAgaacgagagcttcaaatgga	9	5	1	5			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr15:44705541A>T	uc001ztp.2	+	10	1547	c.1248A>T	c.(1246-1248)GAA>GAT	p.E416D	CASC4_uc001ztq.2_Missense_Mutation_p.E360D	NM_138423	NP_612432	Q6P4E1	CASC4_HUMAN	cancer susceptibility candidate 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane				ovary(1)	1		all_cancers(109;1.69e-13)|all_epithelial(112;3.94e-11)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.027)		all cancers(107;2.91e-20)|GBM - Glioblastoma multiforme(94;1.57e-06)|COAD - Colon adenocarcinoma(120;0.217)|Colorectal(105;0.237)		CAGATGATGAAGAACGAGAGC	0.328													20	42	---	---	---	---	PASS	T	44705541	T	T	44705541	3	4	87	1	0	0	0	0	1	0	0	0	2662	69	3	5	1286	5	CASC4	15	44705541	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	2900582	44705541	57825851	300	33192										
SLC28A2	9153	broad.mit.edu	37	chr15	45556903	45556903	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggtcttcaatttgtctttggGatcttggtcatcagaactga	10	7	6	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr15:45556903G>C	uc001zva.2	+	7	704	c.639G>C	c.(637-639)GGG>GGC	p.G213G		NM_004212	NP_004203	O43868	S28A2_HUMAN	solute carrier family 28 (sodium-coupled	213	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		TTGTCTTTGGGATCTTGGTCA	0.418													6	137	---	---	---	---	PASS	C	45556903	C	C	45556903	2	2	87	1	0	0	0	0	0	0	0	1	14532	1161	41	2		2	SLC28A2	15	45556903	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	851362	45556903	56974489	301	33193										
HDC	3067	broad.mit.edu	37	chr15	50534531	50534531	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gcattcaggaaagctggggaCgctgtagaatttgatgagtt	14	5	1	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr15:50534531C>A	uc001zxz.2	-	12	2021	c.1915G>T	c.(1915-1917)GTC>TTC	p.V639F	HDC_uc001zxy.2_Missense_Mutation_p.V382F|HDC_uc010uff.1_Missense_Mutation_p.V606F	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	639					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	AAGCTGGGGACGCTGTAGAAT	0.438													31	77	---	---	---	---	PASS	A	50534531	A	A	50534531	3	1	87	1	0	0	0	0	1	0	0	0	7015	536	19	1	77	1	HDC	15	50534531	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	4977628	50534531	51996861	302	33194										
ALDH1A3	220	broad.mit.edu	37	chr15	101436239	101436239	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atcaacaagatcgccttcacCggctccacagaggtaaccct	7	15	2	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr15:101436239C>T	uc002bwn.3	+	7	872	c.768C>T	c.(766-768)ACC>ACT	p.T256T	ALDH1A3_uc010bpb.2_Silent_p.T149T|uc002bwo.1_RNA	NM_000693	NP_000684	P47895	AL1A3_HUMAN	aldehyde dehydrogenase 1A3	256					retinal metabolic process	cytoplasm	aldehyde dehydrogenase|protein homodimerization activity			central_nervous_system(2)|lung(1)|pancreas(1)	4	Lung NSC(78;0.00144)|all_lung(78;0.0018)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)		NADH(DB00157)|Vitamin A(DB00162)	TCGCCTTCACCGGCTCCACAG	0.537													4	18	---	---	---	---	PASS	T	101436239	T	T	101436239	2	4	87	1	0	0	0	0	0	0	0	1	492	639	23	1		1	ALDH1A3	15	101436239	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	50901708	101436239	1095153	303	33195										
RGS11	8786	broad.mit.edu	37	chr16	321280	321280	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gcaccccgacacgaggggatCgtggggtccacgctggccgc	16	15	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:321280C>A	uc002cgj.1	-	12	787	c.784G>T	c.(784-786)GAT>TAT	p.D262Y	RGS11_uc002cgi.1_Missense_Mutation_p.D241Y|RGS11_uc010bqs.1_Missense_Mutation_p.D251Y|RGS11_uc002cgk.1_Missense_Mutation_p.D78Y	NM_183337	NP_899180	O94810	RGS11_HUMAN	regulator of G-protein signalling 11 isoform 1	262	G protein gamma.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			lung(1)|pancreas(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				ACGAGGGGATCGTGGGGTCCA	0.662													9	30	---	---	---	---	PASS	A	321280	A	A	321280	3	1	87	1	0	0	0	0	1	0	0	0	13294	884	31	2	643	2	RGS11	16	321280	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08		321280	90033473	304	33196										
WDR90	197335	broad.mit.edu	37	chr16	716485	716485	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	taggggtggagggcacagacCtatggctggctgccagtggg	19	8	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:716485C>G	uc002cii.1	+	38	4825	c.4771C>G	c.(4771-4773)CTA>GTA	p.L1591V	WDR90_uc002cij.1_Intron|WDR90_uc002cil.1_RNA|WDR90_uc002cin.1_Missense_Mutation_p.L206V|WDR90_uc010uul.1_Intron|WDR90_uc002cio.1_Missense_Mutation_p.L190V|WDR90_uc010bqx.1_Intron|RHOT2_uc010uum.1_5'Flank|RHOT2_uc002cip.2_5'Flank|RHOT2_uc002ciq.2_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	1591	WD 20.									ovary(1)	1		Hepatocellular(780;0.0218)				GGGCACAGACCTATGGCTGGC	0.632													8	56	---	---	---	---	PASS	G	716485	G	G	716485	3	3	87	1	0	0	0	0	1	0	0	0	17334	680	24	4	4921	4	WDR90	16	716485	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	395205	716485	89638268	305	33197										
PKD1	5310	broad.mit.edu	37	chr16	2159681	2159681	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctcacattggtgcccgtggcCagctgcccccaaaagggcac	11	16	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:2159681C>T	uc002cos.1	-	15	5696	c.5487G>A	c.(5485-5487)CTG>CTA	p.L1829L	PKD1_uc002cot.1_Silent_p.L1829L	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1829	PKD 14.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						TGCCCGTGGCCAGCTGCCCCC	0.672													3	9	---	---	---	---	PASS	T	2159681	T	T	2159681	2	4	87	1	0	0	0	0	0	0	0	1	11963	581	21	3		3	PKD1	16	2159681	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	1443196	2159681	88195072	306	33198										
PDILT	204474	broad.mit.edu	37	chr16	20370813	20370813	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	actgctgttcaggtaaccctTtcctcatcataggcacctcc	6	15	3	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:20370813T>A	uc002dhc.1	-	12	1806	c.1583A>T	c.(1582-1584)AAA>ATA	p.K528I		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	528					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						AGGTAACCCTTTCCTCATCAT	0.463													39	144	---	---	---	---	PASS	A	20370813	A	A	20370813	3	1	87	1	0	0	0	0	1	0	0	0	11674	1841	64	5	175	5	PDILT	16	20370813	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	18211132	20370813	69983940	307	33199										
PRRT2	112476	broad.mit.edu	37	chr16	29824976	29824976	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agggcccagcccctgagcctCactcaccaccctcaaaaaaa	6	18	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:29824976C>A	uc002due.3	+	2	902	c.601C>A	c.(601-603)CAC>AAC	p.H201N	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|uc002duc.1_5'Flank|PRRT2_uc002dud.2_Missense_Mutation_p.H201N|PRRT2_uc002duf.1_Missense_Mutation_p.H201N|C16orf53_uc002dug.3_5'Flank	NM_145239	NP_660282	Q7Z6L0	PRRT2_HUMAN	proline-rich transmembrane protein 2	201	Extracellular (Potential).|Pro-rich.				response to biotic stimulus	integral to membrane					0						CCCTGAGCCTCACTCACCACC	0.612													3	27	---	---	---	---	PASS	A	29824976	A	A	29824976	3	1	87	1	0	0	0	0	1	0	0	0	12610	826	29	2	603	2	PRRT2	16	29824976	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	9454163	29824976	60529777	308	33200										
INO80E	283899	broad.mit.edu	37	chr16	30007643	30007643	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gggccggtcatgaacgggccGgcggacggcgaagtggacta	19	10	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:30007643G>T	uc002dvg.1	+	1	113	c.12G>T	c.(10-12)CCG>CCT	p.P4P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|INO80E_uc002dvh.1_RNA|INO80E_uc002dvi.1_Silent_p.P4P|INO80E_uc002dvj.1_RNA|INO80E_uc002dvk.1_Silent_p.P4P|HIRIP3_uc002dve.2_5'Flank|HIRIP3_uc002dvf.2_5'Flank	NM_173618	NP_775889	Q8NBZ0	IN80E_HUMAN	INO80 complex subunit E	4					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex				skin(1)	1						TGAACGGGCCGGCGGACGGCG	0.642													6	7	---	---	---	---	PASS	T	30007643	T	T	30007643	2	4	87	1	0	0	0	0	0	0	0	1	7750	1103	39	1		1	INO80E	16	30007643	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	182667	30007643	60347110	309	33201										
ZNF768	79724	broad.mit.edu	37	chr16	30536224	30536224	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atgggggataagggccgaccGctgggagaagctcttgccgc	17	10	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:30536224G>A	uc002dyk.3	-	2	1413	c.1237C>T	c.(1237-1239)CGG>TGG	p.R413W	ZNF768_uc010vex.1_Missense_Mutation_p.R382W|uc002dyl.1_5'Flank|ZNF768_uc010vew.1_Missense_Mutation_p.R382W	NM_024671	NP_078947	Q9H5H4	ZN768_HUMAN	zinc finger protein 768	413	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	DNA binding|zinc ion binding				0						AGGGCCGACCGCTGGGAGAAG	0.647													15	36	---	---	---	---	PASS	A	30536224	A	A	30536224	3	1	87	1	0	0	0	0	1	0	0	0	18138	1086	38	1	389	1	ZNF768	16	30536224	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	528581	30536224	59818529	310	33202										
ITGAM	3684	broad.mit.edu	37	chr16	31287020	31287020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agaagatctttgcgatcgagGgtgagtcaggcatctgtgtt	14	6	3	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:31287020G>T	uc002ebq.2	+	9	1107	c.1009G>T	c.(1009-1011)GGT>TGT	p.G337C	ITGAM_uc002ebr.2_Missense_Mutation_p.G337C|ITGAM_uc010cam.1_5'UTR	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	337	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						TGCGATCGAGGGTGAGTCAGG	0.547													16	28	---	---	---	---	PASS	T	31287020	T	T	31287020	3	4	87	1	0	0	0	0	1	0	0	0	7887	1246	43	3	1043	3	ITGAM	16	31287020	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	750796	31287020	59067733	311	33203										
PHKB	5257	broad.mit.edu	37	chr16	47695708	47695708	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gccccaacttcatcacaaagGaaggtaagcatgcatgtcta	8	11	3	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:47695708G>T	uc002eev.3	+	23	2327	c.2275G>T	c.(2275-2277)GAA>TAA	p.E759*	PHKB_uc002eeu.3_Nonsense_Mutation_p.E752*	NM_000293	NP_000284	Q93100	KPBB_HUMAN	phosphorylase kinase, beta isoform a	759					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				CATCACAAAGGAAGGTAAGCA	0.408													30	46	---	---	---	---	PASS	T	47695708	T	T	47695708	4	4	87	1	0	0	0	0	0	1	0	0	11845	1175	41	2	2424	2	PHKB	16	47695708	Nonsense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	16408688	47695708	42659045	312	33204										
CYLD	1540	broad.mit.edu	37	chr16	50816277	50816277	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aagtagtagaagaaaatactCcaccaaaaatggaaaaagaa	7	5	0	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:50816277C>T	uc002egp.1	+	11	2141	c.1726C>T	c.(1726-1728)CCA>TCA	p.P576S	CYLD_uc002ego.2_Missense_Mutation_p.P573S|CYLD_uc010cbs.1_Missense_Mutation_p.P573S|CYLD_uc002egq.1_Missense_Mutation_p.P573S|CYLD_uc002egr.1_Missense_Mutation_p.P573S|CYLD_uc002egs.1_Missense_Mutation_p.P573S	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	576	Interaction with TRIP.				cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				AGAAAATACTCCACCAAAAAT	0.308			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				8	31	---	---	---	---	PASS	T	50816277	T	T	50816277	3	4	87	1	0	0	0	0	1	0	0	0	4143	855	30	2	1760	2	CYLD	16	50816277	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	3120569	50816277	39538476	313	33205										
CDH5	1003	broad.mit.edu	37	chr16	66434918	66434918	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctctgcatcctcaccatcacAggtcagtgctgggcagggtg	12	13	4	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:66434918A>T	uc002eom.3	+	11	1992	c.1836A>T	c.(1834-1836)ACA>ACT	p.T612T		NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	612	Helical; (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		TCACCATCACAGGTCAGTGCT	0.607													18	29	---	---	---	---	PASS	T	66434918	T	T	66434918	2	4	87	1	0	0	0	0	0	0	0	1	3113	202	7	5		5	CDH5	16	66434918	Silent	SNP	A	TCGA-39-5027-01A-21D-1817-08	15618641	66434918	23919835	314	33206										
HYDIN	54768	broad.mit.edu	37	chr16	70935069	70935069	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cgccaggccacaggcaggagCgtgacattgcggagaagaac	15	11	0	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:70935069C>A	uc002ezr.2	-	53	9011	c.8883G>T	c.(8881-8883)ACG>ACT	p.T2961T		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	2962										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CAGGCAGGAGCGTGACATTGC	0.488													7	46	---	---	---	---	PASS	A	70935069	A	A	70935069	2	1	87	1	0	0	0	0	0	0	0	1	7467	755	27	1		1	HYDIN	16	70935069	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	4500151	70935069	19419684	315	33207										
CNTNAP4	85445	broad.mit.edu	37	chr16	76501305	76501305	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gtccacttggtggatttcagGgatgtatgaggctcatttct	12	7	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:76501305G>T	uc002feu.1	+	12	1925	c.1540G>T	c.(1540-1542)GGA>TGA	p.G514*	CNTNAP4_uc002fev.1_Nonsense_Mutation_p.G378*|CNTNAP4_uc010chb.1_Nonsense_Mutation_p.G441*|CNTNAP4_uc002fex.1_Nonsense_Mutation_p.G517*|CNTNAP4_uc002few.2_Nonsense_Mutation_p.G489*	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	514	Extracellular (Potential).|Laminin G-like 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TGGATTTCAGGGATGTATGAG	0.428													30	40	---	---	---	---	PASS	T	76501305	T	T	76501305	4	4	87	1	0	0	0	0	0	1	0	0	3649	1233	43	3	1591	3	CNTNAP4	16	76501305	Nonsense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	5566236	76501305	13853448	316	33208										
ACSF3	197322	broad.mit.edu	37	chr16	89169054	89169054	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gggcatggaccaaagacgacGtgatcctccacgtgctcccg	12	14	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr16:89169054G>A	uc002fmp.2	+	4	1049	c.709G>A	c.(709-711)GTG>ATG	p.V237M	ACSF3_uc010cig.1_Missense_Mutation_p.V237M|ACSF3_uc010cih.1_Translation_Start_Site|ACSF3_uc002fmq.1_RNA|ACSF3_uc010cii.1_RNA|ACSF3_uc002fmr.1_Translation_Start_Site	NM_174917	NP_777577	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3 precursor	237					fatty acid metabolic process	mitochondrion	acid-thiol ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0281)		CAAAGACGACGTGATCCTCCA	0.617													4	55	---	---	---	---	PASS	A	89169054	A	A	89169054	3	1	87	1	0	0	0	0	1	0	0	0	176	1145	40	1	715	1	ACSF3	16	89169054	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	12667749	89169054	1185699	317	33209										
TP53	7157	broad.mit.edu	37	chr17	7577130	7577130	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggcacaaacacgcacctcaaAgctgttccgtcccagtagat	8	14	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr17:7577130A>T	uc002gim.2	-	8	1002	c.808T>A	c.(808-810)TTT>ATT	p.F270I	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.F270I|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.F138I|TP53_uc010cng.1_Missense_Mutation_p.F138I|TP53_uc002gii.1_Missense_Mutation_p.F138I|TP53_uc010cnh.1_Missense_Mutation_p.F270I|TP53_uc010cni.1_Missense_Mutation_p.F270I|TP53_uc002gij.2_Missense_Mutation_p.F270I	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	270	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		F -> L (in sporadic cancers; somatic mutation).|F -> Y (in sporadic cancers; somatic mutation).|F -> C (in sporadic cancers; somatic mutation).|F -> V (in sporadic cancers; somatic mutation).|F -> S (in sporadic cancers; somatic mutation).|F -> I (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.F270L(22)|p.F270C(15)|p.F270V(8)|p.0?(7)|p.F270S(7)|p.F270Y(5)|p.F270I(3)|p.?(2)|p.G266_E271delGRNSFE(2)|p.G262_F270delGNLLGRNSF(2)|p.F270fs*72(1)|p.S269fs*75(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.E258fs*71(1)|p.S269fs*34(1)|p.F270_D281del12(1)|p.S269_F270insX(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)		CGCACCTCAAAGCTGTTCCGT	0.537		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)			15	13	---	---	---	---	PASS	T	7577130	T	T	7577130	3	4	87	1	0	0	0	0	1	0	0	0	16378	72	3	5	478	5	TP53	17	7577130	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08		7577130	73618080	318	33210										
PIK3R5	23533	broad.mit.edu	37	chr17	8784089	8784089	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tcttctctggcttgtagcacGgtgagacctcacatctgtgc	10	12	4	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr17:8784089G>A	uc002glt.2	-	19	2577	c.2510C>T	c.(2509-2511)CCG>CTG	p.P837L	PIK3R5_uc010vuz.1_Missense_Mutation_p.P837L|PIK3R5_uc002glu.3_Missense_Mutation_p.P451L	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	837					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						CTTGTAGCACGGTGAGACCTC	0.642													5	28	---	---	---	---	PASS	A	8784089	A	A	8784089	3	1	87	1	0	0	0	0	1	0	0	0	11922	1116	39	1	136	1	PIK3R5	17	8784089	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	1206959	8784089	72411121	319	33211										
KIAA0100	9703	broad.mit.edu	37	chr17	26966931	26966931	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccatgaaccttccagcagcaGttcagtgctcatctgtgcca	8	14	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr17:26966931G>T	uc002hbu.2	-	9	1102	c.1003C>A	c.(1003-1005)CTG>ATG	p.L335M	KIAA0100_uc002hbv.2_Missense_Mutation_p.L335M|KIAA0100_uc010crr.1_Missense_Mutation_p.L192M	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	335						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					TCCAGCAGCAGTTCAGTGCTC	0.512													83	174	---	---	---	---	PASS	T	26966931	T	T	26966931	3	4	87	1	0	0	0	0	1	0	0	0	8154	1020	36	3	5828	3	KIAA0100	17	26966931	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	18182842	26966931	54228279	320	33212										
RHOT1	55288	broad.mit.edu	37	chr17	30521103	30521103	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tatgatgatgacctggatttGacacctgaatatttgttccc	8	8	0	5			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr17:30521103G>A	uc002hgz.2	+	11	1085	c.846G>A	c.(844-846)TTG>TTA	p.L282L	RHOT1_uc002hgw.2_Silent_p.L282L|RHOT1_uc002hgy.2_Silent_p.L282L|RHOT1_uc002hha.2_Silent_p.L155L|RHOT1_uc010csv.2_RNA|RHOT1_uc002hgx.2_Silent_p.L155L|RHOT1_uc010wby.1_Silent_p.L282L|RHOT1_uc002hhb.2_Silent_p.L261L|RHOT1_uc002hgv.2_Silent_p.L282L	NM_018307	NP_060777	Q8IXI2	MIRO1_HUMAN	ras homolog gene family, member T1 isoform 3	282	Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(56;0.0255)|Breast(31;0.116)|Ovarian(249;0.182)				ACCTGGATTTGACACCTGAAT	0.308													174	427	---	---	---	---	PASS	A	30521103	A	A	30521103	2	1	87	1	0	0	0	0	0	0	0	1	13343	1281	45	2		2	RHOT1	17	30521103	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	3554172	30521103	50674107	321	33213										
WNT9B	7484	broad.mit.edu	37	chr17	44950021	44950021	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cagctctgccggagggagccCggcctggctgagaccctgag	16	14	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr17:44950021C>T	uc002ikw.1	+	2	253	c.216C>T	c.(214-216)CCC>CCT	p.P72P	WNT9B_uc002ikx.1_Silent_p.P72P	NM_003396	NP_003387	O14905	WNT9B_HUMAN	wingless-type MMTV integration site family,	72					anterior/posterior pattern formation|axis specification|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|collecting duct development|cornea development in camera-type eye|endoderm development|establishment of planar polarity involved in nephron morphogenesis|kidney rudiment formation|male genitalia development|mesonephric duct formation|metanephric tubule development|neuron differentiation|palate development|regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|uterus morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway|Wnt receptor signaling pathway, planar cell polarity pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			GGAGGGAGCCCGGCCTGGCTG	0.682													25	35	---	---	---	---	PASS	T	44950021	T	T	44950021	2	4	87	1	0	0	0	0	0	0	0	1	17396	639	23	1		1	WNT9B	17	44950021	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	14428918	44950021	36245189	322	33214										
CDK5RAP3	80279	broad.mit.edu	37	chr17	46058079	46058079	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agaccaaagagaagatggttAccatggtgtcagtgctggag	14	6	1	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr17:46058079A>T	uc002imr.2	+	12	1282	c.1198A>T	c.(1198-1200)ACC>TCC	p.T400S	CDK5RAP3_uc010wlc.1_Missense_Mutation_p.T420S|CDK5RAP3_uc002imq.1_Missense_Mutation_p.T175S|CDK5RAP3_uc002imu.2_Missense_Mutation_p.T244S|CDK5RAP3_uc002ims.2_Missense_Mutation_p.T313S|CDK5RAP3_uc002imv.2_Missense_Mutation_p.T244S|CDK5RAP3_uc002imw.2_Missense_Mutation_p.T242S|CDK5RAP3_uc002imx.2_Missense_Mutation_p.T175S	NM_176096	NP_788276	Q96JB5	CK5P3_HUMAN	CDK5 regulatory subunit associated protein 3	400					brain development|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation		neuronal Cdc2-like kinase binding				0						GAAGATGGTTACCATGGTGTC	0.547													57	101	---	---	---	---	PASS	T	46058079	T	T	46058079	3	4	87	1	0	0	0	0	1	0	0	0	3147	391	14	5	1244	5	CDK5RAP3	17	46058079	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	1108058	46058079	35137131	323	33215										
YPEL2	388403	broad.mit.edu	37	chr17	57474474	57474474	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tttcctaggaacatgcttttGaaagcagccagaaatataaa	7	7	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr17:57474474G>T	uc002ixm.1	+	5	611	c.283G>T	c.(283-285)GAA>TAA	p.E95*		NM_001005404	NP_001005404	Q96QA6	YPEL2_HUMAN	yippee-like 2	95						nucleolus					0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					ACATGCTTTTGAAAGCAGCCA	0.343													16	38	---	---	---	---	PASS	T	57474474	T	T	57474474	4	4	87	1	0	0	0	0	0	1	0	0	17487	1291	45	2	297	2	YPEL2	17	57474474	Nonsense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	11416395	57474474	23720736	324	33216										
FAM38B	63895	broad.mit.edu	37	chr18	10675263	10675263	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	actaggtgctttcacataatAtggataaatcttttctatgg	7	6	3	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr18:10675263A>C	uc002kor.3	-	12	1776	c.1636T>G	c.(1636-1638)TAT>GAT	p.Y546D	FAM38B_uc002koq.2_Missense_Mutation_p.Y381D	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2589						integral to membrane	ion channel activity			ovary(1)	1						TTCACATAATATGGATAAATC	0.274													57	67	---	---	---	---	PASS	C	10675263	C	C	10675263	3	2	87	1	0	0	0	0	1	0	0	0	5555	449	16	5	505	5	FAM38B	18	10675263	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08		10675263	67401985	325	33217										
DSG3	1830	broad.mit.edu	37	chr18	29055928	29055928	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgttaagtgccagactttgtCaggaagtcaaggagcttctg	12	7	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr18:29055928C>T	uc002kws.2	+	16	2814	c.2705C>T	c.(2704-2706)TCA>TTA	p.S902L	DSG3_uc002kwt.2_Missense_Mutation_p.S184L	NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	902	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			CAGACTTTGTCAGGAAGTCAA	0.502													88	89	---	---	---	---	PASS	T	29055928	T	T	29055928	3	4	87	1	0	0	0	0	1	0	0	0	4778	838	29	2	2767	2	DSG3	18	29055928	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	18380665	29055928	49021320	326	33218										
TCEB3C	162699	broad.mit.edu	37	chr18	44555161	44555161	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	accccttccacgtcgccgagGgcgtccggattgttcctagg	12	15	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr18:44555161G>T	uc010xdb.1	-	1	1289	c.1053C>A	c.(1051-1053)GCC>GCA	p.A351A	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	351	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						CGTCGCCGAGGGCGTCCGGAT	0.647													33	384	---	---	---	---	PASS	T	44555161	T	T	44555161	2	4	87	1	0	0	0	0	0	0	0	1	15680	1219	43	3		3	TCEB3C	18	44555161	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	15499233	44555161	33522087	327	33219										
ST8SIA3	51046	broad.mit.edu	37	chr18	55027478	55027478	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cgaatgcatggggaagggctCaccaagctgactctgtcaca	12	11	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr18:55027478C>G	uc002lgn.2	+	4	1470	c.1113C>G	c.(1111-1113)CTC>CTG	p.L371L		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	371	Lumenal (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		GGGAAGGGCTCACCAAGCTGA	0.478													20	11	---	---	---	---	PASS	G	55027478	G	G	55027478	2	3	87	1	0	0	0	0	0	0	0	1	15232	813	29	2		2	ST8SIA3	18	55027478	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	10472317	55027478	23049770	328	33220										
CDH7	1005	broad.mit.edu	37	chr18	63492067	63492067	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggaatcattactatacagaaGgtaatgttttctttatttat	6	4	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr18:63492067G>T	uc002ljz.2	+	6	1306	c.981G>T	c.(979-981)AAG>AAT	p.K327N	CDH7_uc002lka.2_Missense_Mutation_p.K327N|CDH7_uc002lkb.2_Missense_Mutation_p.K327N	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	327	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				CTATACAGAAGGTAATGTTTT	0.368													5	49	---	---	---	---	PASS	T	63492067	T	T	63492067	3	4	87	1	0	0	0	0	1	0	0	0	3115	1014	35	3	999	3	CDH7	18	63492067	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	8464589	63492067	14585181	329	33221										
ZNF236	7776	broad.mit.edu	37	chr18	74563747	74563747	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atagccacatcgatgtgaccAgtgcccccaaacatttaatg	7	12	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr18:74563747A>T	uc002lmi.2	+	3	407	c.209A>T	c.(208-210)CAG>CTG	p.Q70L	ZNF236_uc002lmj.2_RNA|ZNF236_uc002lmk.1_Missense_Mutation_p.Q70L	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	70	C2H2-type 2.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CGATGTGACCAGTGCCCCCAA	0.398													29	13	---	---	---	---	PASS	T	74563747	T	T	74563747	3	4	87	1	0	0	0	0	1	0	0	0	17786	188	7	5	219	5	ZNF236	18	74563747	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	11071680	74563747	3513501	330	33222										
MAP2K2	5605	broad.mit.edu	37	chr19	4099222	4099222	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgacggggcgcccggggggcCtcggccgaggcgagatgctg	21	12	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:4099222C>A	uc002lzk.2	-	7	1150	c.896G>T	c.(895-897)AGG>ATG	p.R299M	MAP2K2_uc002lzj.2_Missense_Mutation_p.R109M	NM_030662	NP_109587	P36507	MP2K2_HUMAN	mitogen-activated protein kinase kinase 2	299	Protein kinase.|Pro-rich.				activation of MAPK activity|activation of MAPKK activity|axon guidance|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|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|extracellular region	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCGGGGGGCCTCGGCCGAGG	0.711									Cardiofaciocutaneous_syndrome				4	14	---	---	---	---	PASS	A	4099222	A	A	4099222	3	1	87	1	0	0	0	0	1	0	0	0	9237	681	24	3	326	3	MAP2K2	19	4099222	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08		4099222	55029761	331	33223										
FUT5	2527	broad.mit.edu	37	chr19	5867384	5867384	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cccagtggtgcacgatgaccGcgtctgcctgtgggtacaca	13	13	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:5867384G>T	uc002mdo.3	-	2	441	c.353C>A	c.(352-354)GCG>GAG	p.A118E	FUT5_uc010duo.2_Missense_Mutation_p.A118E	NM_002034	NP_002025	Q11128	FUT5_HUMAN	fucosyltransferase 5	118	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity|alpha(1,3)-fucosyltransferase activity				0						CACGATGACCGCGTCTGCCTG	0.642													21	49	---	---	---	---	PASS	T	5867384	T	T	5867384	3	4	87	1	0	0	0	0	1	0	0	0	6107	1087	38	1	775	1	FUT5	19	5867384	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	1768162	5867384	53261599	332	33224										
OR7G2	390882	broad.mit.edu	37	chr19	9213062	9213062	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctcagactatagataaagggGttcaccatttgagggaacac	10	8	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:9213062G>T	uc010xkk.1	-	1	921	c.921C>A	c.(919-921)AAC>AAA	p.N307K		NM_001005193	NP_001005193	Q8NG99	OR7G2_HUMAN	olfactory receptor, family 7, subfamily G,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AGATAAAGGGGTTCACCATTT	0.458													35	63	---	---	---	---	PASS	T	9213062	T	T	9213062	3	4	87	1	0	0	0	0	1	0	0	0	11223	1252	44	3	118	3	OR7G2	19	9213062	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	3345678	9213062	49915921	333	33225										
ZNF440	126070	broad.mit.edu	37	chr19	11943166	11943166	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tcatgaaaggactcacactgGagagaaaccctatgagtgta	10	8	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:11943166G>T	uc002msp.1	+	4	1331	c.1175G>T	c.(1174-1176)GGA>GTA	p.G392V		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	392					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACTCACACTGGAGAGAAACCC	0.453													26	61	---	---	---	---	PASS	T	11943166	T	T	11943166	3	4	87	1	0	0	0	0	1	0	0	0	17910	1174	41	2	1189	2	ZNF440	19	11943166	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	2730104	11943166	47185817	334	33226										
JUNB	3726	broad.mit.edu	37	chr19	12903533	12903533	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctgtcgagtaccgccggcctCctccgggagcaggtggccca	14	16	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:12903533C>G	uc002mvc.2	+	1	1224	c.948C>G	c.(946-948)CTC>CTG	p.L316L	JUNB_uc002mvb.2_RNA	NM_002229	NP_002220	P17275	JUNB_HUMAN	jun B proto-oncogene	316	Leucine-zipper.					chromatin|nucleus	protein dimerization activity|transcription coactivator activity|transcription corepressor activity			lung(2)|central_nervous_system(1)	3						CCGCCGGCCTCCTCCGGGAGC	0.647													6	8	---	---	---	---	PASS	G	12903533	G	G	12903533	2	3	87	1	0	0	0	0	0	0	0	1	7970	842	30	2		2	JUNB	19	12903533	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	960367	12903533	46225450	335	33227										
FAM129C	199786	broad.mit.edu	37	chr19	17651385	17651385	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccctcaggcacgcggctgcgCagggaggtgagctcccgtgg	17	14	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:17651385C>A	uc010xpr.1	+	10	1395	c.1257C>A	c.(1255-1257)CGC>CGA	p.R419R	FAM129C_uc010xpq.1_Silent_p.R419R|FAM129C_uc002ngy.3_Silent_p.R145R|FAM129C_uc010xpu.1_Silent_p.R145R|FAM129C_uc002ngz.3_RNA|FAM129C_uc010eaw.2_Silent_p.R145R|FAM129C_uc002nhb.2_Silent_p.R18R	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	419											0						CGCGGCTGCGCAGGGAGGTGA	0.622													3	10	---	---	---	---	PASS	A	17651385	A	A	17651385	2	1	87	1	0	0	0	0	0	0	0	1	5438	697	25	3		3	FAM129C	19	17651385	Silent	SNP	C	TCGA-39-5027-01A-21D-1817-08	4747852	17651385	41477598	336	33228										
ZNF208	7757	broad.mit.edu	37	chr19	22155386	22155386	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tatgtgtagtaagggttgagAccttactaaaggttttgcca	11	5	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:22155386A>G	uc002nqp.2	-	5	2299	c.2150T>C	c.(2149-2151)GTC>GCC	p.V717A	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				AAGGGTTGAGACCTTACTAAA	0.358													25	41	---	---	---	---	PASS	G	22155386	G	G	22155386	3	3	87	1	0	0	0	0	1	0	0	0	17763	275	10	5	1396	5	ZNF208	19	22155386	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	4504001	22155386	36973597	337	33229										
ZNF257	113835	broad.mit.edu	37	chr19	22256279	22256279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tttaaaaaacaggtattgctGtctctaagccagacctgatc	7	9	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:22256279G>T	uc010ecx.2	+	3	308	c.139G>T	c.(139-141)GTC>TTC	p.V47F	ZNF257_uc010ecy.2_Missense_Mutation_p.V15F	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	47	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				AGGTATTGCTGTCTCTAAGCC	0.393													45	112	---	---	---	---	PASS	T	22256279	T	T	22256279	3	4	87	1	0	0	0	0	1	0	0	0	17797	1377	48	3	149	3	ZNF257	19	22256279	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	100893	22256279	36872704	338	33230										
ZNF676	163223	broad.mit.edu	37	chr19	22363343	22363343	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccacattcttcacatttgtaGggcttctcttcagcatgaat	6	11	4	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:22363343G>T	uc002nqs.1	-	3	1494	c.1176C>A	c.(1174-1176)CCC>CCA	p.P392P		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	392					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CACATTTGTAGGGCTTCTCTT	0.408													28	59	---	---	---	---	PASS	T	22363343	T	T	22363343	2	4	87	1	0	0	0	0	0	0	0	1	18080	987	35	3		3	ZNF676	19	22363343	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	107064	22363343	36765640	339	33231										
ZNF536	9745	broad.mit.edu	37	chr19	31039660	31039660	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agtcaactgcaaagaccaagCccgggaggcgagtaagatgg	14	9	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:31039660C>T	uc002nsu.1	+	4	3272	c.3134C>T	c.(3133-3135)GCC>GTC	p.A1045V	ZNF536_uc010edd.1_Missense_Mutation_p.A1045V	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1045					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					AAAGACCAAGCCCGGGAGGCG	0.537													17	62	---	---	---	---	PASS	T	31039660	T	T	31039660	3	4	87	1	0	0	0	0	1	0	0	0	17971	739	26	3	3144	3	ZNF536	19	31039660	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	8676317	31039660	28089323	340	33232										
GAPDHS	26330	broad.mit.edu	37	chr19	36035845	36035845	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cttcctcggtgatacccactCgtccatcttcgatgctaagg	8	14	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:36035845C>A	uc002oaf.1	+	10	1207	c.1091C>A	c.(1090-1092)TCG>TAG	p.S364*	uc010eec.1_RNA|uc002oag.2_Intron|TMEM147_uc002oai.1_5'Flank|TMEM147_uc002oaj.1_5'Flank|TMEM147_uc002oak.1_5'Flank	NM_014364	NP_055179	O14556	G3PT_HUMAN	glyceraldehyde-3-phosphate dehydrogenase,	364					gluconeogenesis|glycolysis|positive regulation of glycolysis|sperm motility	cytosol	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity|NAD binding|protein binding				0	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		NADH(DB00157)	GATACCCACTCGTCCATCTTC	0.537													60	95	---	---	---	---	PASS	A	36035845	A	A	36035845	4	1	87	1	0	0	0	0	0	1	0	0	6237	893	31	2	1129	2	GAPDHS	19	36035845	Nonsense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	4996185	36035845	23093138	341	33233										
ZNF570	148268	broad.mit.edu	37	chr19	37975140	37975140	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttaaaaaaaatttaatggctAttaagcccaagagtgtctgt	7	5	1	1	rs139260465	by1000genomes	TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:37975140A>T	uc002ogk.1	+	5	1145	c.616A>T	c.(616-618)ATT>TTT	p.I206F	ZNF570_uc010efl.1_Missense_Mutation_p.I262F|ZNF570_uc010xtr.1_Missense_Mutation_p.I3F	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	206					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTTAATGGCTATTAAGCCCAA	0.358													76	174	---	---	---	---	PASS	T	37975140	T	T	37975140	3	4	87	1	0	0	0	0	1	0	0	0	17999	449	16	5	630	5	ZNF570	19	37975140	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	1939295	37975140	21153843	342	33234										
TGFB1	7040	broad.mit.edu	37	chr19	41858693	41858693	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cactctccccggccacccggTcgcgggtgctgttgtacagg	13	16	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:41858693T>C	uc002oqh.1	-	1	1124	c.257A>G	c.(256-258)GAC>GGC	p.D86G	CYP2F1_uc010xvw.1_Intron|TMEM91_uc002oqi.2_Intron	NM_000660	NP_000651	P01137	TGFB1_HUMAN	transforming growth factor, beta 1 precursor	86					active induction of host immune response by virus|ATP biosynthetic process|cell cycle arrest|cell growth|cell-cell junction organization|chondrocyte differentiation|connective tissue replacement involved in inflammatory response wound healing|epidermal growth factor receptor signaling pathway|evasion of host defenses by virus|hemopoietic progenitor cell differentiation|induction of apoptosis|lymph node development|mitotic cell cycle G1/S transition checkpoint|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of cell-cell adhesion|negative regulation of DNA replication|negative regulation of epithelial cell proliferation|negative regulation of fat cell differentiation|negative regulation of macrophage cytokine production|negative regulation of mitotic cell cycle|negative regulation of protein phosphorylation|ossification involved in bone remodeling|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of collagen biosynthetic process|positive regulation of epithelial to mesenchymal transition|positive regulation of fibroblast migration|positive regulation of interleukin-17 production|positive regulation of isotype switching to IgA isotypes|positive regulation of MAP kinase activity|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of protein dephosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|protein export from nucleus|protein import into nucleus, translocation|receptor catabolic process|regulation of DNA binding|regulation of striated muscle tissue development|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|response to estradiol stimulus|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway|viral infectious cycle	extracellular space|Golgi lumen|nucleus|platelet alpha granule lumen|proteinaceous extracellular matrix	growth factor activity|type II transforming growth factor beta receptor binding				0					Hyaluronidase(DB00070)	GGCCACCCGGTCGCGGGTGCT	0.706													9	16	---	---	---	---	PASS	C	41858693	C	C	41858693	3	2	87	1	0	0	0	0	1	0	0	0	15813	1667	58	5	943	5	TGFB1	19	41858693	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	3883553	41858693	17270290	343	33235										
ZNF526	116115	broad.mit.edu	37	chr19	42729069	42729069	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctgctacggtagctgagccaCcagtgccacctcctttgcct	9	16	0	1	rs143231579		TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:42729069C>T	uc002osz.1	+	3	670	c.514C>T	c.(514-516)CCA>TCA	p.P172S		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				AGCTGAGCCACCAGTGCCACC	0.607													44	73	---	---	---	---	PASS	T	42729069	T	T	42729069	3	4	87	1	0	0	0	0	1	0	0	0	17964	507	18	3	516	3	ZNF526	19	42729069	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	870376	42729069	16399914	344	33236										
C19orf61	56006	broad.mit.edu	37	chr19	44254859	44254859	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gtcgccgccgctctatcccaTagagtccaggctgactgtgt	11	14	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:44254859T>C	uc002oxj.2	-	2	378	c.35A>G	c.(34-36)TAT>TGT	p.Y12C	C19orf61_uc002oxk.2_Missense_Mutation_p.Y12C|C19orf61_uc010eiy.1_Missense_Mutation_p.Y12C	NM_019108	NP_061981	Q9H0W8	SMG9_HUMAN	SMG9 protein	12					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	intracellular	protein binding				0		Prostate(69;0.0352)				CTCTATCCCATAGAGTCCAGG	0.567													43	103	---	---	---	---	PASS	C	44254859	C	C	44254859	3	2	87	1	0	0	0	0	1	0	0	0	1943	1406	49	5	1579	5	C19orf61	19	44254859	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	1525790	44254859	14874124	345	33237										
PPP1R13L	10848	broad.mit.edu	37	chr19	45889145	45889145	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgaggaaatccacgatagagTagttggcgccgcagatggcg	15	8	0	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:45889145T>A	uc002pbn.2	-	10	2095	c.2018A>T	c.(2017-2019)TAC>TTC	p.Y673F	PPP1R13L_uc002pbm.2_Missense_Mutation_p.Y252F|PPP1R13L_uc002pbo.2_Missense_Mutation_p.Y673F	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	673	ANK 1.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		CACGATAGAGTAGTTGGCGCC	0.657													8	17	---	---	---	---	PASS	A	45889145	A	A	45889145	3	1	87	1	0	0	0	0	1	0	0	0	12358	1638	57	5	484	5	PPP1R13L	19	45889145	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	1634286	45889145	13239838	346	33238										
PRR12	57479	broad.mit.edu	37	chr19	50103085	50103085	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cgatgacccaccccttgctgGgccaaaagacacttccaccc	7	18	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:50103085G>T	uc002poo.3	+	5	4235	c.4235G>T	c.(4234-4236)GGG>GTG	p.G1412V		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	591	Pro-rich.						DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		CCCCTTGCTGGGCCAAAAGAC	0.642													44	89	---	---	---	---	PASS	T	50103085	T	T	50103085	3	4	87	1	0	0	0	0	1	0	0	0	12584	1232	43	3	4253	3	PRR12	19	50103085	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	4213940	50103085	9025898	347	33239										
PPP2R1A	5518	broad.mit.edu	37	chr19	52723050	52723050	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccctgccattgtggagctggCtgaggacgccaagtggcggg	17	11	0	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:52723050C>A	uc002pyp.2	+	10	1394	c.1235C>A	c.(1234-1236)GCT>GAT	p.A412D	PPP2R1A_uc010ydk.1_Missense_Mutation_p.A357D|PPP2R1A_uc002pyq.2_Missense_Mutation_p.A233D	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	412	HEAT 11.|PP2A subunit C binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		GTGGAGCTGGCTGAGGACGCC	0.622			Mis		clear cell ovarian carcinoma								7	71	---	---	---	---	PASS	A	52723050	A	A	52723050	3	1	87	1	0	0	0	0	1	0	0	0	12382	797	28	3	1273	3	PPP2R1A	19	52723050	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	2619965	52723050	6405933	348	33240										
KIR3DL2	3812	broad.mit.edu	37	chr19	55363737	55363737	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccctggtgatcatggtcacaGgtcagaggctttctgtctgg	13	10	5	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:55363737G>T	uc002qho.3	+	3	388	c.355G>T	c.(355-357)GGA>TGA	p.G119*	KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc002qhn.1_Intron|KIR3DL2_uc010esh.2_Nonsense_Mutation_p.G119*	NM_006737	NP_006728	P43630	KI3L2_HUMAN	killer cell immunoglobulin-like receptor, three	119	Extracellular (Potential).				cellular defense response|regulation of immune response	integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0192)		CATGGTCACAGGTCAGAGGCT	0.617													24	63	---	---	---	---	PASS	T	55363737	T	T	55363737	4	4	87	1	0	0	0	0	0	1	0	0	8321	1014	35	3	365	3	KIR3DL2	19	55363737	Nonsense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	2640687	55363737	3765246	349	33241										
NLRP13	126204	broad.mit.edu	37	chr19	56410158	56410158	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aagtgtgtgcaatgcacgatGtggtttcagagcctcacaca	11	9	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:56410158G>A	uc010ygg.1	-	10	2960	c.2935C>T	c.(2935-2937)CAT>TAT	p.H979Y		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	979							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)		AATGCACGATGTGGTTTCAGA	0.468													14	106	---	---	---	---	PASS	A	56410158	A	A	56410158	3	1	87	1	0	0	0	0	1	0	0	0	10475	1377	48	3	202	3	NLRP13	19	56410158	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	1046421	56410158	2718825	350	33242										
USP29	57663	broad.mit.edu	37	chr19	57640074	57640074	+	Nonsense_Mutation	SNP	C	T	T													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	taaaggtatgtggattcatcCaaatttggagccagaagact							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:57640074C>T	uc002qny.2	+	4	387	c.31C>T	c.(31-33)CAA>TAA	p.Q11*		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	11					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGGATTCATCCAAATTTGGAG	0.343													15	34	---	---	---	---	PASS	T	57640074	T	T	57640074	4	4	87	1	0	0	0	0	0	1	0	0	17056	595	21	3	33	3	USP29	19	57640074	Nonsense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	1229916	57640074	1488909	351	33243	649	2								
USP29	57663	broad.mit.edu	37	chr19	57640084	57640084	+	Missense_Mutation	SNP	G	A	A													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tggattcatccaaatttggaGccagaagactgggatgacta							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:57640084G>A	uc002qny.2	+	4	397	c.41G>A	c.(40-42)AGC>AAC	p.S14N		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	14					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CAAATTTGGAGCCAGAAGACT	0.343													15	35	---	---	---	---	PASS	A	57640084	A	A	57640084	3	1	87	1	0	0	0	0	1	0	0	0	17056	971	34	3	43	3	USP29	19	57640084	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	10	57640084	1488899	352	33244	649	2								
ZNF324B	388569	broad.mit.edu	37	chr19	58965615	58965615	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gactctctacctcccgacctCgtgtggtcattcaacttgag	8	14	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr19:58965615C>T	uc002qsv.1	+	3	249	c.142C>T	c.(142-144)CGT>TGT	p.R48C	ZNF324B_uc002qsu.1_5'UTR|ZNF324B_uc010euq.1_Missense_Mutation_p.R48C	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	48	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		CTCCCGACCTCGTGTGGTCAT	0.602													4	57	---	---	---	---	PASS	T	58965615	T	T	58965615	3	4	87	1	0	0	0	0	1	0	0	0	17842	884	31	2	148	2	ZNF324B	19	58965615	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	1325531	58965615	163368	353	33245										
PLK1S1	55857	broad.mit.edu	37	chr20	21224905	21224905	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atgaaaacaaaaagaaacccGtgatcaatttaaaatctaat	4	6	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr20:21224905G>T	uc002wsb.2	+	13	2036	c.1903G>T	c.(1903-1905)GTG>TTG	p.V635L	PLK1S1_uc010zsh.1_Missense_Mutation_p.V532L|PLK1S1_uc010zsi.1_Missense_Mutation_p.V502L|PLK1S1_uc010zsj.1_RNA|PLK1S1_uc002wsd.2_RNA	NM_018474	NP_060944	Q2M2Z5	KIZ_HUMAN	polo-like kinase 1 substrate 1 isoform 1	635					spindle organization	centrosome	protein kinase binding				0						AAAGAAACCCGTGATCAATTT	0.308													20	61	---	---	---	---	PASS	T	21224905	T	T	21224905	3	4	87	1	0	0	0	0	1	0	0	0	12095	1145	40	1	1948	1	PLK1S1	20	21224905	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08		21224905	41800615	354	33246										
RBM12	10137	broad.mit.edu	37	chr20	34242587	34242587	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aatcgggggcacaggaggcaCaggaggcaatgtaggtactg	17	7	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr20:34242587C>A	uc002xdq.2	-	3	890	c.658G>T	c.(658-660)GTG>TTG	p.V220L	CPNE1_uc010zvj.1_5'Flank|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.V220L|RBM12_uc002xds.2_Missense_Mutation_p.V220L	NM_152838	NP_690051	Q9NTZ6	RBM12_HUMAN	RNA binding motif protein 12	220	Pro-rich.					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)			ACAGGAGGCACAGGAGGCAAT	0.607													28	68	---	---	---	---	PASS	A	34242587	A	A	34242587	3	1	87	1	0	0	0	0	1	0	0	0	13113	478	17	3	2144	3	RBM12	20	34242587	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	13017682	34242587	28782933	355	33247										
C20orf152	140894	broad.mit.edu	37	chr20	34575396	34575396	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cgaagatagagaggttctcgTatgggcagctgatctcaaaa	12	7	2	3			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr20:34575396T>A	uc002xes.1	+	7	952	c.796T>A	c.(796-798)TAT>AAT	p.Y266N	C20orf152_uc002xer.1_Missense_Mutation_p.Y266N|C20orf152_uc010gfp.1_Intron			Q96M20	CT152_HUMAN	SubName: Full=C20orf152 protein;	266											0	Breast(12;0.00631)					GAGGTTCTCGTATGGGCAGCT	0.498													26	44	---	---	---	---	PASS	A	34575396	A	A	34575396	3	1	87	1	0	0	0	0	1	0	0	0	2092	1638	57	5	822	5	C20orf152	20	34575396	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	332809	34575396	28450124	356	33248										
RALGAPB	57148	broad.mit.edu	37	chr20	37145013	37145013	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gtctggtggatgcattcttaGgtgaattttgtgtatgttgc	13	4	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr20:37145013G>A	uc002xiw.2	+	7	1308	c.1051G>A	c.(1051-1053)GGT>AGT	p.G351S	RALGAPB_uc010zvz.1_Missense_Mutation_p.G351S|RALGAPB_uc002xix.2_Missense_Mutation_p.G351S|RALGAPB_uc002xiy.1_Missense_Mutation_p.G351S|RALGAPB_uc002xiz.2_Missense_Mutation_p.G129S|RALGAPB_uc002xja.1_Missense_Mutation_p.G78S	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	351					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						TGCATTCTTAGGTGAATTTTG	0.398													65	124	---	---	---	---	PASS	A	37145013	A	A	37145013	3	1	87	1	0	0	0	0	1	0	0	0	13015	1014	35	3	1073	3	RALGAPB	20	37145013	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	2569617	37145013	25880507	357	33249										
PABPC1L	80336	broad.mit.edu	37	chr20	43547656	43547656	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tcccggtggatgtggacgagCaaggcctgcaggacctcttc	14	12	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr20:43547656C>G	uc010ggv.1	+	4	695	c.613C>G	c.(613-615)CAA>GAA	p.Q205E	PABPC1L_uc010zwq.1_RNA	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	205	RRM 3.						nucleotide binding|RNA binding			ovary(1)	1						TGTGGACGAGCAAGGCCTGCA	0.612													51	120	---	---	---	---	PASS	G	43547656	G	G	43547656	3	3	87	1	0	0	0	0	1	0	0	0	11364	711	25	4	627	4	PABPC1L	20	43547656	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	6402643	43547656	19477864	358	33250										
CBLN4	140689	broad.mit.edu	37	chr20	54573762	54573762	+	Missense_Mutation	SNP	C	T	T													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttcacgagtaacatctttgtCccccgcaaaggcagatatta							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr20:54573762C>T	uc002xxa.2	-	3	1242	c.457G>A	c.(457-459)GAC>AAC	p.D153N		NM_080617	NP_542184	Q9NTU7	CBLN4_HUMAN	cerebellin 4 precursor	153	C1q.					cell junction|extracellular region|synapse				ovary(3)|pancreas(1)	4			Colorectal(105;0.202)			ACATCTTTGTCCCCCGCAAAG	0.363													16	40	---	---	---	---	PASS	T	54573762	T	T	54573762	3	4	87	1	0	0	0	0	1	0	0	0	2707	855	30	2	152	2	CBLN4	20	54573762	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	11026106	54573762	8451758	359	33251	650	2								
CBLN4	140689	broad.mit.edu	37	chr20	54573764	54573764	+	Missense_Mutation	SNP	C	T	T													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cacgagtaacatctttgtccCccgcaaaggcagatattact							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr20:54573764C>T	uc002xxa.2	-	3	1240	c.455G>A	c.(454-456)GGG>GAG	p.G152E		NM_080617	NP_542184	Q9NTU7	CBLN4_HUMAN	cerebellin 4 precursor	152	C1q.					cell junction|extracellular region|synapse				ovary(3)|pancreas(1)	4			Colorectal(105;0.202)			ATCTTTGTCCCCCGCAAAGGC	0.358													16	41	---	---	---	---	PASS	T	54573764	T	T	54573764	3	4	87	1	0	0	0	0	1	0	0	0	2707	623	22	3	154	3	CBLN4	20	54573764	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	2	54573764	8451756	360	33252	650	2								
C20orf85	128602	broad.mit.edu	37	chr20	56728607	56728607	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ctttctttttcaggaaatacCgtctgaaggctgaatcggaa	9	8	3	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr20:56728607C>A	uc002xyv.2	+	2	114	c.76C>A	c.(76-78)CGT>AGT	p.R26S		NM_178456	NP_848551	Q9H1P6	CT085_HUMAN	hypothetical protein LOC128602	26										ovary(1)	1	all_epithelial(3;5.99e-14)|Lung NSC(12;0.000152)|all_lung(29;0.000518)|Melanoma(10;0.118)		BRCA - Breast invasive adenocarcinoma(13;5.53e-12)|Epithelial(14;7.42e-08)|all cancers(14;7.19e-07)			CAGGAAATACCGTCTGAAGGC	0.483													38	83	---	---	---	---	PASS	A	56728607	A	A	56728607	3	1	87	1	0	0	0	0	1	0	0	0	2120	652	23	1	82	1	C20orf85	20	56728607	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	2154843	56728607	6296913	361	33253										
COL20A1	57642	broad.mit.edu	37	chr20	61948004	61948004	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cttcggtgggaccccgacctTcacgctcttcaaggacgccc	10	17	3	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr20:61948004T>C	uc011aau.1	+	21	2724	c.2624T>C	c.(2623-2625)TTC>TCC	p.F875S	COL20A1_uc011aav.1_Missense_Mutation_p.F696S	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	875	TSP N-terminal.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					ACCCCGACCTTCACGCTCTTC	0.637													3	9	---	---	---	---	PASS	C	61948004	C	C	61948004	3	2	87	1	0	0	0	0	1	0	0	0	3679	1783	62	5	2702	5	COL20A1	20	61948004	Missense_Mutation	SNP	T	TCGA-39-5027-01A-21D-1817-08	5219397	61948004	1077516	362	33254										
PRIC285	85441	broad.mit.edu	37	chr20	62192206	62192206	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ggtaccgctcgaacagagacCggtccagacccaggttttgc	12	13	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr20:62192206C>A	uc002yfm.2	-	16	8115	c.7223G>T	c.(7222-7224)CGG>CTG	p.R2408L	PRIC285_uc002yfl.1_Missense_Mutation_p.R1839L	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	2408					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			GAACAGAGACCGGTCCAGACC	0.632													38	67	---	---	---	---	PASS	A	62192206	A	A	62192206	3	1	87	1	0	0	0	0	1	0	0	0	12485	652	23	1	746	1	PRIC285	20	62192206	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	244202	62192206	833314	363	33255										
HUNK	30811	broad.mit.edu	37	chr21	33371496	33371496	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tggggtcaagacccagtgctAacttgggccagcggggtttg	16	9	1	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr21:33371496A>G	uc002yph.2	+	11	2504	c.2144A>G	c.(2143-2145)TAA>TGA	p.*715*		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	715					multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						ACCCAGTGCTAACTTGGGCCA	0.602													30	40	---	---	---	---	PASS	G	33371496	G	G	33371496	2	3	87	1	0	0	0	0	0	0	0	1	7458	369	13	5		5	HUNK	21	33371496	Silent	SNP	A	TCGA-39-5027-01A-21D-1817-08		33371496	14758399	364	33256										
GAB4	128954	broad.mit.edu	37	chr22	17472932	17472932	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aagttcagagtcacatcaacAtccagctgctcacagaggtt	8	11	4	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr22:17472932A>G	uc002zlw.2	-	2	417	c.309T>C	c.(307-309)GAT>GAC	p.D103D	GAB4_uc010gqs.1_Silent_p.D103D	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	103	PH.									large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				TCACATCAACATCCAGCTGCT	0.488													21	338	---	---	---	---	PASS	G	17472932	G	G	17472932	2	3	87	1	0	0	0	0	0	0	0	1	6151	214	8	5		5	GAB4	22	17472932	Silent	SNP	A	TCGA-39-5027-01A-21D-1817-08		17472932	33831634	365	33257										
LIF	3976	broad.mit.edu	37	chr22	30640024	30640024	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	catagcttgtccaggttgttGgggaacggctccccctgggc	14	12	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr22:30640024G>T	uc003agz.2	-	3	337	c.225C>A	c.(223-225)CCC>CCA	p.P75P	LIF_uc011aks.1_Missense_Mutation_p.Q16K|uc003aha.2_5'Flank	NM_002309	NP_002300	P15018	LIF_HUMAN	leukemia inhibitory factor (cholinergic	75					immune response|leukemia inhibitory factor signaling pathway|negative regulation of hormone secretion|positive regulation of cell proliferation|positive regulation of macrophage differentiation|positive regulation of MAPKKK cascade|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of peptidyl-serine phosphorylation of STAT protein|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of metanephric nephron tubule epithelial cell differentiation		cytokine activity|growth factor activity|leukemia inhibitory factor receptor binding				0			Epithelial(10;0.171)			CCAGGTTGTTGGGGAACGGCT	0.373													35	51	---	---	---	---	PASS	T	30640024	T	T	30640024	2	4	87	1	0	0	0	0	0	0	0	1	8779	1335	47	3		3	LIF	22	30640024	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	13167092	30640024	20664542	366	33258										
TCF20	6942	broad.mit.edu	37	chr22	42575682	42575682	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttgtagcagcccaaggtggcGcctgcctcctggcagtggga	15	12	0	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr22:42575682G>A	uc003bcj.1	-	2	5816	c.5682C>T	c.(5680-5682)GGC>GGT	p.G1894G	TCF20_uc003bck.1_Silent_p.G1894G|TCF20_uc003bnt.2_Silent_p.G1894G	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	1894	PHD-type; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						CCAAGGTGGCGCCTGCCTCCT	0.562													17	158	---	---	---	---	PASS	A	42575682	A	A	42575682	2	1	87	1	0	0	0	0	0	0	0	1	15687	1074	38	1		1	TCF20	22	42575682	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	11935658	42575682	8728884	367	33259										
EFCAB6	64800	broad.mit.edu	37	chr22	44127589	44127589	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aaatacttaccttgatttccCatacaatatctaaggttcaa	3	9	2	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chr22:44127589C>T	uc003bdy.1	-	8	962	c.747G>A	c.(745-747)ATG>ATA	p.M249I	EFCAB6_uc003bdz.1_Missense_Mutation_p.M97I|EFCAB6_uc010gzi.1_Missense_Mutation_p.M97I|EFCAB6_uc010gzk.1_RNA|EFCAB6_uc011aqa.1_Missense_Mutation_p.M143I|EFCAB6_uc003bea.1_Missense_Mutation_p.M246I|EFCAB6_uc003beb.3_Missense_Mutation_p.M143I	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	249					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CTTGATTTCCCATACAATATC	0.219													14	32	---	---	---	---	PASS	T	44127589	T	T	44127589	3	4	87	1	0	0	0	0	1	0	0	0	4939	594	21	3	3858	3	EFCAB6	22	44127589	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	1551907	44127589	7176977	368	33260										
DMD	1756	broad.mit.edu	37	chrX	32404524	32404524	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttttctgtacaatctgacgtCcagtctttatcaccatttcc	4	12	4	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chrX:32404524C>T	uc004dda.1	-	33	4821	c.4577G>A	c.(4576-4578)GGA>GAA	p.G1526E	DMD_uc004dcw.2_Missense_Mutation_p.G182E|DMD_uc004dcx.2_Missense_Mutation_p.G185E|DMD_uc004dcz.2_Missense_Mutation_p.G1403E|DMD_uc004dcy.1_Missense_Mutation_p.G1522E|DMD_uc004ddb.1_Missense_Mutation_p.G1518E|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1526	Spectrin 10.|Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AATCTGACGTCCAGTCTTTAT	0.353													28	15	---	---	---	---	PASS	T	32404524	T	T	32404524	3	4	87	1	0	0	0	0	1	0	0	0	4580	855	30	2	6816	2	DMD	23	32404524	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08		32404524	122866036	369	33261										
AR	367	broad.mit.edu	37	chrX	66863174	66863174	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	agacctgcctgatctgtggaGatgaagcttctgggtgtcac	13	9	3	4			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chrX:66863174G>T	uc004dwu.1	+	2	2808	c.1693G>T	c.(1693-1695)GAT>TAT	p.D565Y	AR_uc011mpd.1_Missense_Mutation_p.D565Y|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.D565Y|AR_uc004dwv.1_Missense_Mutation_p.D33Y	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	564	NR C4-type.|Nuclear receptor.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	GATCTGTGGAGATGAAGCTTC	0.483									Androgen_Insensitivity_Syndrome				47	21	---	---	---	---	PASS	T	66863174	T	T	66863174	3	4	87	1	0	0	0	0	1	0	0	0	836	942	33	2	1723	2	AR	23	66863174	Missense_Mutation	SNP	G	TCGA-39-5027-01A-21D-1817-08	34458650	66863174	88407386	370	33262										
LPAR4	2846	broad.mit.edu	37	chrX	78010451	78010451	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgggcaatgctactgccaatAatacttgcattgttgatgat	9	7	0	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chrX:78010451A>T	uc010nme.2	+	2	490	c.85A>T	c.(85-87)AAT>TAT	p.N29Y		NM_005296	NP_005287	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	29	Extracellular (Potential).					integral to plasma membrane	lipid binding|purinergic nucleotide receptor activity, G-protein coupled			ovary(3)	3						TACTGCCAATAATACTTGCAT	0.403													63	36	---	---	---	---	PASS	T	78010451	T	T	78010451	3	4	87	1	0	0	0	0	1	0	0	0	8907	362	13	5	87	5	LPAR4	23	78010451	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	11147277	78010451	77260109	371	33263										
PCDH11X	27328	broad.mit.edu	37	chrX	91133858	91133858	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	atgaagaaaaagaaaaagaaGaagaagcattcccctaagaa	8	5	0	7			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chrX:91133858G>A	uc004efk.1	+	2	3464	c.2619G>A	c.(2617-2619)AAG>AAA	p.K873K	PCDH11X_uc004efl.1_Silent_p.K873K|PCDH11X_uc004efo.1_Silent_p.K873K|PCDH11X_uc010nmv.1_Silent_p.K873K|PCDH11X_uc004efm.1_Silent_p.K873K|PCDH11X_uc004efn.1_Silent_p.K873K|PCDH11X_uc004efh.1_Silent_p.K873K|PCDH11X_uc004efj.1_Silent_p.K873K	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	873	Cytoplasmic (Potential).|Poly-Lys.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						agaaaaagaagaagaagCATT	0.368													27	23	---	---	---	---	PASS	A	91133858	A	A	91133858	2	1	87	1	0	0	0	0	0	0	0	1	11508	933	33	2		2	PCDH11X	23	91133858	Silent	SNP	G	TCGA-39-5027-01A-21D-1817-08	13123407	91133858	64136702	372	33264										
ESX1	80712	broad.mit.edu	37	chrX	103495292	103495292	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tggcacaggcgccatgcgtgAgccgggtggcacaggcgcca	17	13	0	1	rs144173947	byFrequency	TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chrX:103495292A>T	uc004ely.2	-	4	896	c.838T>A	c.(838-840)TCA>ACA	p.S280T		NM_153448	NP_703149	Q8N693	ESX1_HUMAN	extraembryonic, spermatogenesis, homeobox	280	5.|15 X 9 AA tandem repeats of P-P-x-x-P-x- P-P-x.				negative regulation of transcription, DNA-dependent|regulation of cell cycle	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCCATGCGTGAGCCGGGTGGC	0.488													5	29	---	---	---	---	PASS	T	103495292	T	T	103495292	3	4	87	1	0	0	0	0	1	0	0	0	5263	304	11	5	386	5	ESX1	23	103495292	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	12361434	103495292	51775268	373	33265										
NRK	203447	broad.mit.edu	37	chrX	105153518	105153518	+	Frame_Shift_Del	DEL	C	-	-													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	cacaggcttggacactagaaCccccacaggcaattggctca							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chrX:105153518delC	uc004emd.2	+	13	2188	c.1885delC	c.(1885-1887)CCCfs	p.P629fs	NRK_uc010npc.1_Frame_Shift_Del_p.P297fs	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	629							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						GACACTAGAACCCCCACAGGC	0.498										HNSCC(51;0.14)			10	8	---	---	---	---		-	105153518	-	-	105153518	7	5	87	1	0	1	0	1	0	0	0	0	10655	507	18	0	1935	0	NRK	23	105153518	Frame_Shift_Del	DEL	C	TCGA-39-5027-01A-21D-1817-08	1658226	105153518	50117042	374	33266										
SERPINA7	6906	broad.mit.edu	37	chrX	105280841	105280841	+	Frame_Shift_Del	DEL	G	-	-													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	aagctgcagaaatgctcacaGgggaaaagaagatgttctta							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chrX:105280841delG	uc004eme.1	-	1	225	c.209delC	c.(208-210)CCTfs	p.P70fs	SERPINA7_uc010npd.2_Frame_Shift_Del_p.P70fs|SERPINA7_uc010npe.1_Frame_Shift_Del_p.P70fs	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	70					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	AATGCTCACAGGGGAAAAGAA	0.483													31	50	---	---	---	---		-	105280841	-	-	105280841	7	5	87	1	0	1	0	1	0	0	0	0	14094	1000	35	0	1054	0	SERPINA7	23	105280841	Frame_Shift_Del	DEL	G	TCGA-39-5027-01A-21D-1817-08	127323	105280841	49989719	375	33267										
COL4A6	1288	broad.mit.edu	37	chrX	107404948	107404948	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gccatctttaccggggatgcCaggtaaacctttggagcctg	12	11	1	0			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chrX:107404948C>A	uc004enw.3	-	42	4340	c.4237G>T	c.(4237-4239)GGC>TGC	p.G1413C	COL4A6_uc004env.3_Missense_Mutation_p.G1412C|COL4A6_uc011msn.1_Missense_Mutation_p.G1388C|COL4A6_uc010npk.2_Missense_Mutation_p.G1355C|COL4A6_uc011msm.1_5'Flank|COL4A6_uc010npj.2_Intron	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1413	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						CCGGGGATGCCAGGTAAACCT	0.592									Alport_syndrome_with_Diffuse_Leiomyomatosis				13	7	---	---	---	---	PASS	A	107404948	A	A	107404948	3	1	87	1	0	0	0	0	1	0	0	0	3695	594	21	3	854	3	COL4A6	23	107404948	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	2124107	107404948	47865612	376	33268										
KIAA1210	57481	broad.mit.edu	37	chrX	118223293	118223293	+	Missense_Mutation	SNP	C	A	A													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	gttttcaggtatgggctgtgCtgctgatgcttttctggatc							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chrX:118223293C>A	uc004era.3	-	11	1900	c.1900G>T	c.(1900-1902)GCA>TCA	p.A634S		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	634										ovary(4)|skin(1)	5						ATGGGCTGTGCTGCTGATGCT	0.473													26	11	---	---	---	---	PASS	A	118223293	A	A	118223293	3	1	87	1	0	0	0	0	1	0	0	0	8214	797	28	3	3245	3	KIAA1210	23	118223293	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08	10818345	118223293	37047267	377	33269	651	2								
KIAA1210	57481	broad.mit.edu	37	chrX	118223294	118223294	+	Silent	SNP	T	G	G													0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ttttcaggtatgggctgtgcTgctgatgcttttctggatcc							TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chrX:118223294T>G	uc004era.3	-	11	1899	c.1899A>C	c.(1897-1899)GCA>GCC	p.A633A		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	633										ovary(4)|skin(1)	5						TGGGCTGTGCTGCTGATGCTT	0.473													27	12	---	---	---	---	PASS	G	118223294	G	G	118223294	2	3	87	1	0	0	0	0	0	0	0	1	8214	1567	55	5		5	KIAA1210	23	118223294	Silent	SNP	T	TCGA-39-5027-01A-21D-1817-08	1	118223294	37047266	378	33270	651	2								
GPC3	2719	broad.mit.edu	37	chrX	132887885	132887885	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	tgacttgcagtgacttggaaAcctgggtcataataagcttg	11	7	1	2			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chrX:132887885A>G	uc004exe.1	-	3	846	c.656T>C	c.(655-657)GTT>GCT	p.V219A	GPC3_uc004exd.1_Missense_Mutation_p.V91A|GPC3_uc010nrn.1_Missense_Mutation_p.V219A|GPC3_uc011mvh.1_Missense_Mutation_p.V203A|GPC3_uc010nro.1_Missense_Mutation_p.V165A|GPC3_uc010nrp.1_Missense_Mutation_p.V91A	NM_004484	NP_004475	P51654	GPC3_HUMAN	glypican 3 isoform 2 precursor	219						extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding|peptidyl-dipeptidase inhibitor activity			lung(2)|prostate(1)|breast(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					TGACTTGGAAACCTGGGTCAT	0.468			T|D|Mis|N|F|S			Wilms tumour			Simpson-Golabi-Behmel_syndrome				66	38	---	---	---	---	PASS	G	132887885	G	G	132887885	3	3	87	1	0	0	0	0	1	0	0	0	6599	43	2	5	1183	5	GPC3	23	132887885	Missense_Mutation	SNP	A	TCGA-39-5027-01A-21D-1817-08	14664591	132887885	22382675	379	33271										
PCDH11Y	83259	broad.mit.edu	37	chrY	4967136	4967136	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0670241286863271	25	0.065007909395603	1.43225196658333	2.00368377684068	1.1700656065829	0.641138038196785	0.925645401874291	0	ccagtctttcgtaactgtttCtattcctgagaataactctc	5	11	3	1			TCGA-39-5027-01A-21D-1817-08	TCGA-39-5027-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	32c14926-b510-4714-90b2-b0bd68569cd4	7b1d8459-aedc-4a58-8d31-20718fb96087	g.chrY:4967136C>A	uc004fqo.2	+	2	2251	c.1517C>A	c.(1516-1518)TCT>TAT	p.S506Y	PCDH11Y_uc010nwg.1_Missense_Mutation_p.S495Y|PCDH11Y_uc004fql.1_Missense_Mutation_p.S495Y|PCDH11Y_uc004fqm.1_Missense_Mutation_p.S495Y|PCDH11Y_uc004fqn.1_Missense_Mutation_p.S506Y|PCDH11Y_uc004fqp.1_Missense_Mutation_p.S277Y	NM_032973	NP_116755	Q9BZA8	PC11Y_HUMAN	protocadherin 11 Y-linked isoform c	506	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						GTAACTGTTTCTATTCCTGAG	0.443													7	16	---	---	---	---	PASS	A	4967136	A	A	4967136	3	1	87	1	0	0	0	0	1	0	0	0	11509	913	32	2	1559	2	PCDH11Y	24	4967136	Missense_Mutation	SNP	C	TCGA-39-5027-01A-21D-1817-08		4967136	54406430	380	33272										
KIF1B	23095	broad.mit.edu	37	chr1	10386311	10386311	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	attttgatgatgaggcattcGtggatgacgccggctctgac	13	8	1	5			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:10386311G>A	uc001aqx.3	+	27	3020	c.2818G>A	c.(2818-2820)GTG>ATG	p.V940M	KIF1B_uc001aqw.3_Missense_Mutation_p.V894M|KIF1B_uc001aqy.2_Missense_Mutation_p.V914M|KIF1B_uc001aqz.2_Missense_Mutation_p.V940M|KIF1B_uc001ara.2_Missense_Mutation_p.V900M|KIF1B_uc001arb.2_Missense_Mutation_p.V926M	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	940					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		TGAGGCATTCGTGGATGACGC	0.557													11	149	---	---	---	---	PASS	A	10386311	A	A	10386311	3	1	88	1	0	0	0	0	1	0	0	0	8284	1145	40	1	4263	1	KIF1B	1	10386311	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08		10386311	238864310	1	33273										
GLIS1	148979	broad.mit.edu	37	chr1	54060199	54060199	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgccctcatggctgtccgtcGatgcagggccaggccgggcc	15	15	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:54060199G>A	uc001cvr.1	-	3	944	c.377C>T	c.(376-378)TCG>TTG	p.S126L		NM_147193	NP_671726	Q8NBF1	GLIS1_HUMAN	GLIS family zinc finger 1	126					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			skin(1)	1						GCTGTCCGTCGATGCAGGGCC	0.632													8	93	---	---	---	---	PASS	A	54060199	A	A	54060199	3	1	88	1	0	0	0	0	1	0	0	0	6445	1059	37	2	1517	2	GLIS1	1	54060199	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	43673888	54060199	195190422	2	33274										
DOCK7	85440	broad.mit.edu	37	chr1	62923246	62923246	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	caatactgccttgtataactGagggatctttctgttgatca	8	8	3	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:62923246G>C	uc001daq.2	-	48	6344	c.6310C>G	c.(6310-6312)CAG>GAG	p.Q2104E	DOCK7_uc001dan.2_Missense_Mutation_p.Q1967E|DOCK7_uc001dao.2_Missense_Mutation_p.Q1965E|DOCK7_uc001dap.2_Missense_Mutation_p.Q2084E|DOCK7_uc001dam.2_Missense_Mutation_p.Q1286E|DOCK7_uc010oov.1_Missense_Mutation_p.Q845E	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	2115					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						TTGTATAACTGAGGGATCTTT	0.413													15	143	---	---	---	---	PASS	C	62923246	C	C	62923246	3	2	88	1	0	0	0	0	1	0	0	0	4692	1299	45	2	87	2	DOCK7	1	62923246	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	8863047	62923246	186327375	3	33275										
PKN2	5586	broad.mit.edu	37	chr1	89279257	89279257	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cagcctgatgtgtgaaaaaaGaatttttgaaactgtgaata	9	4	0	5			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:89279257G>C	uc001dmn.2	+	16	2462	c.2120G>C	c.(2119-2121)AGA>ACA	p.R707T	PKN2_uc010osp.1_Missense_Mutation_p.R691T|PKN2_uc010osq.1_Missense_Mutation_p.R550T|PKN2_uc009wcv.2_Missense_Mutation_p.R659T|PKN2_uc010osr.1_Missense_Mutation_p.R372T	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	707	Protein kinase.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		TGTGAAAAAAGAATTTTTGAA	0.279													13	155	---	---	---	---	PASS	C	89279257	C	C	89279257	3	2	88	1	0	0	0	0	1	0	0	0	11980	942	33	2	2182	2	PKN2	1	89279257	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	26356011	89279257	159971364	4	33276										
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112998820	112998820	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgcagactgaggcccaggtaGagaagcagttatcagagttt	13	7	1	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:112998820G>C	uc001ebx.2	+	6	934	c.706G>C	c.(706-708)GAG>CAG	p.E236Q	CTTNBP2NL_uc001ebz.2_5'Flank	NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	236	Potential.					actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGCCCAGGTAGAGAAGCAGTT	0.483													9	81	---	---	---	---	PASS	C	112998820	C	C	112998820	3	2	88	1	0	0	0	0	1	0	0	0	4046	943	33	2	720	2	CTTNBP2NL	1	112998820	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	23719563	112998820	136251801	5	33277										
LRIG2	9860	broad.mit.edu	37	chr1	113655227	113655227	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gcagaaagatggtggtactgActttcctgcggctcgagaaa	13	8	0	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:113655227A>C	uc001edf.1	+	14	2123	c.1925A>C	c.(1924-1926)GAC>GCC	p.D642A	LRIG2_uc009wgn.1_Missense_Mutation_p.D539A	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	642	Ig-like C2-type 2.|Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		GGTGGTACTGACTTTCCTGCG	0.493													15	130	---	---	---	---	PASS	C	113655227	C	C	113655227	3	2	88	1	0	0	0	0	1	0	0	0	8945	275	10	5	1979	5	LRIG2	1	113655227	Missense_Mutation	SNP	A	TCGA-39-5028-01A-01D-1441-08	656407	113655227	135595394	6	33278										
MCL1	4170	broad.mit.edu	37	chr1	150551640	150551640	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gtacccgtccagctcctcttCgggcgacatgatggcgtcag	12	14	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:150551640C>T	uc001euz.2	-	1	497	c.367G>A	c.(367-369)GAA>AAA	p.E123K	MCL1_uc010pch.1_Missense_Mutation_p.E13K|MCL1_uc001eva.2_Missense_Mutation_p.E123K	NM_021960	NP_068779	Q07820	MCL1_HUMAN	myeloid cell leukemia sequence 1 isoform 1	123	PEST-like.				anti-apoptosis|apoptosis|cell fate determination|cellular homeostasis|multicellular organismal development|response to cytokine stimulus	integral to membrane|mitochondrial outer membrane|nucleoplasm	BH3 domain binding|protein binding|protein channel activity|protein heterodimerization activity				0	all_cancers(9;1.69e-53)|all_epithelial(9;1.95e-43)|all_lung(15;1.09e-34)|Lung NSC(24;4.04e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			AGCTCCTCTTCGGGCGACATG	0.687													7	52	---	---	---	---	PASS	T	150551640	T	T	150551640	3	4	88	1	0	0	0	0	1	0	0	0	9384	893	31	2	708	2	MCL1	1	150551640	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	36896413	150551640	98698981	7	33279										
THBS3	7059	broad.mit.edu	37	chr1	155172145	155172145	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tcacagtggaagccgggcatGgtgttgatgcagctggagcc	16	9	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:155172145G>A	uc001fix.2	-	9	1028	c.1005C>T	c.(1003-1005)ACC>ACT	p.T335T	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Silent_p.T326T|THBS3_uc001fiz.2_Silent_p.T335T|THBS3_uc001fiy.2_5'UTR|THBS3_uc010pfu.1_Silent_p.T215T|THBS3_uc010pfv.1_RNA|THBS3_uc001fja.2_RNA	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	335	EGF-like 2; calcium-binding (Potential).				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		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)			AGCCGGGCATGGTGTTGATGC	0.617													19	117	---	---	---	---	PASS	A	155172145	A	A	155172145	2	1	88	1	0	0	0	0	0	0	0	1	15852	1335	47	3		3	THBS3	1	155172145	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	4620505	155172145	94078476	8	33280										
SPTA1	6708	broad.mit.edu	37	chr1	158604375	158604375	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ccacaatctcctcggacagcCaaagcattcttttcattgat	5	13	3	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:158604375C>A	uc001fst.1	-	39	5722	c.5523G>T	c.(5521-5523)TTG>TTT	p.L1841F		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1841	Spectrin 18.				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)					CTCGGACAGCCAAAGCATTCT	0.398													32	186	---	---	---	---	PASS	A	158604375	A	A	158604375	3	1	88	1	0	0	0	0	1	0	0	0	15115	593	21	3	1792	3	SPTA1	1	158604375	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	3432230	158604375	90646246	9	33281										
DUSP27	92235	broad.mit.edu	37	chr1	167088693	167088693	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttcctggatgaggcgctgctGacttacagaggtgagaggga	16	7	0	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:167088693G>A	uc001geb.1	+	4	645	c.645G>A	c.(643-645)CTG>CTA	p.L215L		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	215	Tyrosine-protein phosphatase.				protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						AGGCGCTGCTGACTTACAGAG	0.527													10	45	---	---	---	---	PASS	A	167088693	A	A	167088693	2	1	88	1	0	0	0	0	0	0	0	1	4824	1277	45	2		2	DUSP27	1	167088693	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	8484318	167088693	82161928	10	33282										
SMG7	9887	broad.mit.edu	37	chr1	183515449	183515449	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tcttccgtccagagcaggatCctgtacccagaatgccgttt	9	13	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:183515449C>T	uc001gqg.2	+	17	2841	c.2719C>T	c.(2719-2721)CCT>TCT	p.P907S	SMG7_uc010pob.1_Missense_Mutation_p.P890S|SMG7_uc001gqf.2_Missense_Mutation_p.P861S|SMG7_uc001gqh.2_Missense_Mutation_p.P861S|SMG7_uc001gqi.2_Missense_Mutation_p.P819S|SMG7_uc010poc.1_Missense_Mutation_p.P865S	NM_173156	NP_775179	Q92540	SMG7_HUMAN	SMG-7 homolog isoform 1	907					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|intermediate filament cytoskeleton|nucleus	protein phosphatase 2A binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						AGAGCAGGATCCTGTACCCAG	0.473													11	72	---	---	---	---	PASS	T	183515449	T	T	183515449	3	4	88	1	0	0	0	0	1	0	0	0	14798	855	30	2	2785	2	SMG7	1	183515449	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	16426756	183515449	65735172	11	33283										
FAM5C	339479	broad.mit.edu	37	chr1	190129961	190129961	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cattgtccacaaatgcattaTagtagatgtgttgaggaaat	9	5	0	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:190129961T>C	uc001gse.1	-	7	1253	c.1021A>G	c.(1021-1023)ATA>GTA	p.I341V	FAM5C_uc010pot.1_Missense_Mutation_p.I239V	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	341						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					AAATGCATTATAGTAGATGTG	0.318													46	166	---	---	---	---	PASS	C	190129961	C	C	190129961	3	2	88	1	0	0	0	0	1	0	0	0	5594	1406	49	5	1287	5	FAM5C	1	190129961	Missense_Mutation	SNP	T	TCGA-39-5028-01A-01D-1441-08	6614512	190129961	59120660	12	33284										
KDM5B	10765	broad.mit.edu	37	chr1	202718206	202718206	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgcagatcatctcatcgtggGaaaacacacaatatcgatga	8	9	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:202718206G>A	uc001gyf.2	-	14	1999	c.1883C>T	c.(1882-1884)TCC>TTC	p.S628F	KDM5B_uc009xag.2_Missense_Mutation_p.S664F|KDM5B_uc001gyg.1_Missense_Mutation_p.S470F	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	628					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						CTCATCGTGGGAAAACACACA	0.413													8	99	---	---	---	---	PASS	A	202718206	A	A	202718206	3	1	88	1	0	0	0	0	1	0	0	0	8134	1174	41	2	2807	2	KDM5B	1	202718206	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	12588245	202718206	46532415	13	33285										
IRF6	3664	broad.mit.edu	37	chr1	209965712	209965712	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gttcagttttgggccacactGcctccgggctgcagttgccc	12	14	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:209965712G>T	uc001hhq.1	-	6	832	c.569C>A	c.(568-570)GCA>GAA	p.A190E	IRF6_uc010psm.1_Missense_Mutation_p.A95E|IRF6_uc009xct.1_Missense_Mutation_p.A190E	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	190					cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		GGGCCACACTGCCTCCGGGCT	0.552										HNSCC(57;0.16)			3	92	---	---	---	---	PASS	T	209965712	T	T	209965712	3	4	88	1	0	0	0	0	1	0	0	0	7834	1319	46	3	850	3	IRF6	1	209965712	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	7247506	209965712	39284909	14	33286										
RPS6KC1	26750	broad.mit.edu	37	chr1	213414815	213414815	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ccattagcaggggctcagatGactcagtgccagttatttca	10	10	3	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:213414815G>T	uc010ptr.1	+	11	2155	c.1996G>T	c.(1996-1998)GAC>TAC	p.D666Y	RPS6KC1_uc001hkd.2_Missense_Mutation_p.D654Y|RPS6KC1_uc010pts.1_Missense_Mutation_p.D454Y|RPS6KC1_uc010ptt.1_Missense_Mutation_p.D454Y|RPS6KC1_uc010ptu.1_Missense_Mutation_p.D485Y|RPS6KC1_uc010ptv.1_Missense_Mutation_p.D201Y|RPS6KC1_uc001hke.2_Missense_Mutation_p.D485Y	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	666					cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		GGGCTCAGATGACTCAGTGCC	0.403													25	116	---	---	---	---	PASS	T	213414815	T	T	213414815	3	4	88	1	0	0	0	0	1	0	0	0	13658	1290	45	2	2038	2	RPS6KC1	1	213414815	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	3449103	213414815	35835806	15	33287										
USH2A	7399	broad.mit.edu	37	chr1	216040459	216040459	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tcacagtcacttctcggctcGgtgtaaaacccacactgttg	8	13	3	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:216040459G>C	uc001hku.1	-	44	9122	c.8735C>G	c.(8734-8736)CCG>CGG	p.P2912R		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2912	Extracellular (Potential).|Fibronectin type-III 15.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTCTCGGCTCGGTGTAAAACC	0.423										HNSCC(13;0.011)			4	86	---	---	---	---	PASS	C	216040459	C	C	216040459	3	2	88	1	0	0	0	0	1	0	0	0	17033	1116	39	4	6989	4	USH2A	1	216040459	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	2625644	216040459	33210162	16	33288										
WNT3A	89780	broad.mit.edu	37	chr1	228210542	228210542	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gagtgccagcaccagttccgCggccgccggtggaactgcac	14	15	0	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:228210542C>T	uc001hrq.1	+	2	324	c.246C>T	c.(244-246)CGC>CGT	p.R82R	WNT3A_uc001hrp.1_Silent_p.R82R	NM_033131	NP_149122	P56704	WNT3A_HUMAN	wingless-type MMTV integration site family,	82					axis specification|cell proliferation in forebrain|cell-cell signaling|cellular response to retinoic acid|convergent extension|dermatome development|dorsal/ventral neural tube patterning|embryonic pattern specification|extracellular matrix organization|hemopoietic stem cell proliferation|hippocampus development|inner ear morphogenesis|mammary gland development|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of neuron projection development|notochord development|palate development|paraxial mesodermal cell fate commitment|positive regulation of catenin import into nucleus|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of receptor internalization|positive regulation of transcription from RNA polymerase II promoter|signalosome assembly|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuroblast division|Wnt receptor signaling pathway, calcium modulating pathway	cell surface|early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled-2 binding|receptor agonist activity|signal transducer activity|transcription coactivator activity			ovary(1)	1		Prostate(94;0.0405)				ACCAGTTCCGCGGCCGCCGGT	0.642													7	48	---	---	---	---	PASS	T	228210542	T	T	228210542	2	4	88	1	0	0	0	0	0	0	0	1	17386	755	27	1		1	WNT3A	1	228210542	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	12170083	228210542	21040079	17	33289										
ZNF669	79862	broad.mit.edu	37	chr1	247264358	247264358	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgtgcattatcatgtgtcttCtaacacctggaacagaaacg	8	9	3	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:247264358C>A	uc001ice.2	-	4	886	c.713G>T	c.(712-714)AGA>ATA	p.R238I	ZNF669_uc001icf.2_Missense_Mutation_p.R152I	NM_024804	NP_079080	Q96BR6	ZN669_HUMAN	zinc finger protein 669 isoform 1	238	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;4.09e-05)|all_epithelial(71;6.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0283)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00427)			CATGTGTCTTCTAACACCTGG	0.368													20	209	---	---	---	---	PASS	A	247264358	A	A	247264358	3	1	88	1	0	0	0	0	1	0	0	0	18073	913	32	2	685	2	ZNF669	1	247264358	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	19053816	247264358	1986263	18	33290										
OR14C36	127066	broad.mit.edu	37	chr1	248512354	248512354	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cagcaccaccatttctaaggCgggatgtgtagctcaggtct	11	11	3	0	rs145207343		TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:248512354C>A	uc010pzl.1	+	1	278	c.278C>A	c.(277-279)GCG>GAG	p.A93E		NM_001001918	NP_001001918	Q8NHC7	O14CZ_HUMAN	olfactory receptor, family 14, subfamily C,	93	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						ATTTCTAAGGCGGGATGTGTA	0.473													3	96	---	---	---	---	PASS	A	248512354	A	A	248512354	3	1	88	1	0	0	0	0	1	0	0	0	10946	768	27	1	280	1	OR14C36	1	248512354	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	1247996	248512354	738267	19	33291										
OR14I1	401994	broad.mit.edu	37	chr1	248845350	248845350	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ataagagatggagcttctgcGagtcagggagttacggatgg	16	5	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr1:248845350G>C	uc001ieu.1	-	1	256	c.256C>G	c.(256-258)CGC>GGC	p.R86G		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	86	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GAGCTTCTGCGAGTCAGGGAG	0.468													10	34	---	---	---	---	PASS	C	248845350	C	C	248845350	3	2	88	1	0	0	0	0	1	0	0	0	10947	1058	37	2	683	2	OR14I1	1	248845350	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	332996	248845350	405271	20	33292										
MYT1L	23040	broad.mit.edu	37	chr2	1906860	1906860	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgcacctcctaccatcatcaTatcctttgggggatatatcc	6	13	2	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:1906860T>C	uc002qxe.2	-	14	2851	c.2024A>G	c.(2023-2025)TAT>TGT	p.Y675C	MYT1L_uc002qxd.2_Missense_Mutation_p.Y673C|MYT1L_uc010ewl.1_Intron	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	675					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		ACCATCATCATATCCTTTGGG	0.438													8	119	---	---	---	---	PASS	C	1906860	C	C	1906860	3	2	88	1	0	0	0	0	1	0	0	0	10107	1406	49	5	1584	5	MYT1L	2	1906860	Missense_Mutation	SNP	T	TCGA-39-5028-01A-01D-1441-08		1906860	241292513	21	33293										
KIDINS220	57498	broad.mit.edu	37	chr2	8871135	8871135	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gtcacggtgctgggagttcgGttcaggttgtaggctttctg	16	7	3	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:8871135G>A	uc002qzc.2	-	30	5213	c.5031C>T	c.(5029-5031)AAC>AAT	p.N1677N	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Silent_p.N1578N|KIDINS220_uc002qzb.2_Silent_p.N531N	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1677	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TGGGAGTTCGGTTCAGGTTGT	0.488													8	102	---	---	---	---	PASS	A	8871135	A	A	8871135	2	1	88	1	0	0	0	0	0	0	0	1	8271	1252	44	3		3	KIDINS220	2	8871135	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	6964275	8871135	234328238	22	33294										
PUM2	23369	broad.mit.edu	37	chr2	20462982	20462982	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	atgctggtcttgagaaaactCaactatatgtccaatcaagt	7	8	3	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:20462982C>G	uc002rds.1	-	13	2220	c.2197G>C	c.(2197-2199)GAG>CAG	p.E733Q	PUM2_uc002rdq.1_Missense_Mutation_p.E110Q|PUM2_uc002rdt.1_Missense_Mutation_p.E733Q|PUM2_uc002rdr.2_Missense_Mutation_p.E593Q|PUM2_uc010yjy.1_Missense_Mutation_p.E654Q|PUM2_uc002rdu.1_Missense_Mutation_p.E733Q|PUM2_uc010yjz.1_Missense_Mutation_p.E672Q	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2	733	Pumilio 1.|PUM-HD.				regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGAGAAAACTCAACTATATGT	0.368													8	73	---	---	---	---	PASS	G	20462982	G	G	20462982	3	3	88	1	0	0	0	0	1	0	0	0	12826	835	29	2	1029	2	PUM2	2	20462982	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	11591847	20462982	222736391	23	33295										
ZNF513	130557	broad.mit.edu	37	chr2	27602971	27602971	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aaaacccaccttccgagtctCtctcgaagcccatgagctgg	8	15	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:27602971C>G	uc002rkk.2	-	2	400	c.200G>C	c.(199-201)AGA>ACA	p.R67T	ZNF513_uc002rkj.2_Missense_Mutation_p.R5T	NM_144631	NP_653232	Q8N8E2	ZN513_HUMAN	zinc finger protein 513	67	Gly-rich.				regulation of transcription, DNA-dependent|response to stimulus|retina development in camera-type eye|transcription, DNA-dependent|visual perception	nucleus	transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTCCGAGTCTCTCTCGAAGCC	0.552													21	429	---	---	---	---	PASS	G	27602971	G	G	27602971	3	3	88	1	0	0	0	0	1	0	0	0	17955	913	32	2	1437	2	ZNF513	2	27602971	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	7139989	27602971	215596402	24	33296										
LRPPRC	10128	broad.mit.edu	37	chr2	44153051	44153051	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cctgattatttgcaacacatCtgtcacaaaaccactgaagc	5	12	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:44153051C>T	uc002rtr.2	-	26	2844	c.2786G>A	c.(2785-2787)AGA>AAA	p.R929K	LRPPRC_uc010yob.1_Missense_Mutation_p.R829K	NM_133259	NP_573566	P42704	LPPRC_HUMAN	leucine-rich PPR motif-containing protein	929					mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TGCAACACATCTGTCACAAAA	0.408													63	105	---	---	---	---	PASS	T	44153051	T	T	44153051	3	4	88	1	0	0	0	0	1	0	0	0	8965	913	32	2	1450	2	LRPPRC	2	44153051	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	16550080	44153051	199046322	25	33297										
SLC3A1	6519	broad.mit.edu	37	chr2	44547771	44547771	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	actgaacatactgtatacctCgtgttaggcacctttatgaa	7	9	0	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:44547771C>T	uc002ruc.3	+	10	2129	c.2051C>T	c.(2050-2052)TCG>TTG	p.S684L	PREPL_uc002ruf.2_3'UTR|PREPL_uc002rug.2_3'UTR|PREPL_uc002ruh.2_3'UTR|PREPL_uc010fax.2_3'UTR|PREPL_uc002rui.3_3'UTR|PREPL_uc002ruj.1_3'UTR|PREPL_uc002ruk.1_3'UTR|SLC3A1_uc002rud.3_Missense_Mutation_p.S406L|SLC3A1_uc002rue.3_Missense_Mutation_p.S304L	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	684	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	CTGTATACCTCGTGTTAGGCA	0.413													7	112	---	---	---	---	PASS	T	44547771	T	T	44547771	3	4	88	1	0	0	0	0	1	0	0	0	14626	893	31	2	2089	2	SLC3A1	2	44547771	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	394720	44547771	198651602	26	33298										
PSME4	23198	broad.mit.edu	37	chr2	54147333	54147333	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tataaaataaaaccaacctaGacatttcaagttttccatcc	2	10	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:54147333G>A	uc002rxp.2	-	19	2473	c.2417C>T	c.(2416-2418)TCT>TTT	p.S806F	PSME4_uc010yop.1_Missense_Mutation_p.S692F|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Missense_Mutation_p.S181F|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	806					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|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|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			AACCAACCTAGACATTTCAAG	0.353													96	364	---	---	---	---	PASS	A	54147333	A	A	54147333	3	1	88	1	0	0	0	0	1	0	0	0	12709	942	33	2	3226	2	PSME4	2	54147333	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	9599562	54147333	189052040	27	33299			1	38		3	3	97	G		2.450787e-07
PSME4	23198	broad.mit.edu	37	chr2	54147371	54147371	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tccccacaatgctggagtttGacgagctcaggctgaagaaa	11	10	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:54147371G>C	uc002rxp.2	-	19	2435	c.2379C>G	c.(2377-2379)GTC>GTG	p.V793V	PSME4_uc010yop.1_Silent_p.V679V|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Silent_p.V168V|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	793					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|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|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			GCTGGAGTTTGACGAGCTCAG	0.403													91	357	---	---	---	---	PASS	C	54147371	C	C	54147371	2	2	88	1	0	0	0	0	0	0	0	1	12709	1277	45	2		2	PSME4	2	54147371	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	38	54147371	189052002	28	33300			1	38		3	3	97	G		2.450787e-07
PSME4	23198	broad.mit.edu	37	chr2	54147429	54147429	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aggcaaaagacacttcttctGaagaaggaacatgccactgg	10	9	2	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:54147429G>A	uc002rxp.2	-	19	2377	c.2321C>T	c.(2320-2322)TCA>TTA	p.S774L	PSME4_uc010yop.1_Missense_Mutation_p.S660L|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Missense_Mutation_p.S149L|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	774					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|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|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			CACTTCTTCTGAAGAAGGAAC	0.453													76	209	---	---	---	---	PASS	A	54147429	A	A	54147429	3	1	88	1	0	0	0	0	1	0	0	0	12709	1294	45	2	3322	2	PSME4	2	54147429	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	58	54147429	189051944	29	33301			1	38		3	3	97	G		2.450787e-07
USP34	9736	broad.mit.edu	37	chr2	61463362	61463362	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggaatacaactacacaattgCcacataaatctagaatttaa	4	8	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:61463362C>A	uc002sbe.2	-	55	6874	c.6852G>T	c.(6850-6852)TGG>TGT	p.W2284C	USP34_uc002sbf.2_Missense_Mutation_p.W434C	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2284					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TACACAATTGCCACATAAATC	0.269													18	118	---	---	---	---	PASS	A	61463362	A	A	61463362	3	1	88	1	0	0	0	0	1	0	0	0	17062	740	26	3	3892	3	USP34	2	61463362	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	7315933	61463362	181736011	30	33302										
C2orf78	388960	broad.mit.edu	37	chr2	74043451	74043451	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tagatggtagtgctgaaaaaGagtgtacatctccatcccac	9	9	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:74043451G>C	uc002sjr.1	+	3	2222	c.2101G>C	c.(2101-2103)GAG>CAG	p.E701Q		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	701										ovary(2)	2						TGCTGAAAAAGAGTGTACATC	0.493													12	93	---	---	---	---	PASS	C	74043451	C	C	74043451	3	2	88	1	0	0	0	0	1	0	0	0	2195	943	33	2	2111	2	C2orf78	2	74043451	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	12580089	74043451	169155922	31	33303										
RNF149	284996	broad.mit.edu	37	chr2	101924926	101924926	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggtccacgtactcgatgtttAccacggccgagaaccactcg	10	14	0	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:101924926A>G	uc002taz.1	-	1	227	c.125T>C	c.(124-126)GTA>GCA	p.V42A	RNF149_uc002tax.1_RNA	NM_173647	NP_775918	Q8NC42	RN149_HUMAN	ring finger protein 149 precursor	42						integral to membrane	ligase activity|zinc ion binding			ovary(1)|breast(1)	2						CTCGATGTTTACCACGGCCGA	0.607													12	69	---	---	---	---	PASS	G	101924926	G	G	101924926	3	3	88	1	0	0	0	0	1	0	0	0	13450	391	14	5	1105	5	RNF149	2	101924926	Missense_Mutation	SNP	A	TCGA-39-5028-01A-01D-1441-08	27881475	101924926	141274447	32	33304										
IL1F7	27178	broad.mit.edu	37	chr2	113676149	113676149	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	acctcacagaaggagaaactGatgaagctggctgcccaaaa	10	10	1	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:113676149G>A	uc002tij.2	+	5	462	c.420G>A	c.(418-420)CTG>CTA	p.L140L	IL1F7_uc002tik.2_Silent_p.L119L|IL1F7_uc002til.2_Silent_p.L100L|IL1F7_uc002tim.2_Silent_p.L79L|IL1F7_uc002tin.2_Silent_p.L114L	NM_014439	NP_055254	Q9NZH6	IL37_HUMAN	interleukin 1 family, member 7 isoform 1	140					immune response	cytosol|extracellular space|nucleus	cytokine activity|interleukin-1 receptor antagonist activity|interleukin-1 receptor binding				0						AGGAGAAACTGATGAAGCTGG	0.527													7	111	---	---	---	---	PASS	A	113676149	A	A	113676149	2	1	88	1	0	0	0	0	0	0	0	1	7655	1277	45	2		2	IL1F7	2	113676149	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	11751223	113676149	129523224	33	33305										
CLASP1	23332	broad.mit.edu	37	chr2	122106203	122106203	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggttgatggggtagtcggccGtctggatgatggggcagagc	20	6	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:122106203G>A	uc002tnc.2	-	37	4688	c.4298C>T	c.(4297-4299)ACG>ATG	p.T1433M	CLASP1_uc010yyv.1_Missense_Mutation_p.T479M|CLASP1_uc002tmz.2_Missense_Mutation_p.T518M|CLASP1_uc002tna.2_Missense_Mutation_p.T479M|CLASP1_uc010yyw.1_RNA|CLASP1_uc002tnb.2_RNA|CLASP1_uc010yyx.1_RNA|CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Missense_Mutation_p.T1374M|CLASP1_uc010yza.1_Missense_Mutation_p.T1366M|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_RNA|CLASP1_uc002tmy.2_Missense_Mutation_p.T269M	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	1433	Localization to kinetochores.|Interaction with PHLDB2 and RSN.|Interaction with CLIP2 (By similarity).				axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					GTAGTCGGCCGTCTGGATGAT	0.577													5	38	---	---	---	---	PASS	A	122106203	A	A	122106203	3	1	88	1	0	0	0	0	1	0	0	0	3454	1145	40	1	330	1	CLASP1	2	122106203	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	8430054	122106203	121093170	34	33306										
THSD7B	80731	broad.mit.edu	37	chr2	138414670	138414670	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	actacacatggaaagcaagtCtttggaacaataacgaacga	8	8	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:138414670C>A	uc002tva.1	+	23	4228	c.4228C>A	c.(4228-4230)CTT>ATT	p.L1410I	THSD7B_uc010zbj.1_RNA	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GAAAGCAAGTCTTTGGAACAA	0.398													8	90	---	---	---	---	PASS	A	138414670	A	A	138414670	3	1	88	1	0	0	0	0	1	0	0	0	15877	913	32	2	4317	2	THSD7B	2	138414670	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	16308467	138414670	104784703	35	33307										
RBM43	375287	broad.mit.edu	37	chr2	152107863	152107863	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tccacttctagcagtctcagGtactaaggtcctgactgatg	9	11	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:152107863G>A	uc002txh.2	-	4	779	c.631C>T	c.(631-633)CCT>TCT	p.P211S		NM_198557	NP_940959	Q6ZSC3	RBM43_HUMAN	RNA binding motif protein 43	211							nucleotide binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(221;0.131)		GCAGTCTCAGGTACTAAGGTC	0.393													13	156	---	---	---	---	PASS	A	152107863	A	A	152107863	3	1	88	1	0	0	0	0	1	0	0	0	13137	1261	44	3	446	3	RBM43	2	152107863	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	13693193	152107863	91091510	36	33308										
TTN	7273	broad.mit.edu	37	chr2	179425453	179425453	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggggacgtccccaggaaagaGagcatttctcagcagtgagg	15	9	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:179425453G>C	uc010zfg.1	-	275	77926	c.77702C>G	c.(77701-77703)TCT>TGT	p.S25901C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S19596C|TTN_uc010zfi.1_Missense_Mutation_p.S19529C|TTN_uc010zfj.1_Missense_Mutation_p.S19404C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26828							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)			CCAGGAAAGAGAGCATTTCTC	0.483													17	57	---	---	---	---	PASS	C	179425453	C	C	179425453	3	2	88	1	0	0	0	0	1	0	0	0	16732	942	33	2	22721	2	TTN	2	179425453	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	27317590	179425453	63773920	37	33309										
GMPPA	29926	broad.mit.edu	37	chr2	220371039	220371039	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ccgtgggacgctgggcccgcGtggagggtacccccagtgac	17	14	0	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:220371039G>T	uc002vlr.2	+	12	1125	c.1057G>T	c.(1057-1059)GTG>TTG	p.V353L	GMPPA_uc002vls.2_Missense_Mutation_p.V353L|GMPPA_uc002vlt.2_Missense_Mutation_p.V406L|GMPPA_uc002vlu.2_Missense_Mutation_p.V406L|GMPPA_uc002vlv.2_Missense_Mutation_p.V353L|GMPPA_uc002vlw.2_RNA|GMPPA_uc002vlx.2_Missense_Mutation_p.V353L	NM_013335	NP_037467	Q96IJ6	GMPPA_HUMAN	GDP-mannose pyrophosphorylase A	353					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0		Renal(207;0.0183)		Epithelial(149;3.82e-10)|all cancers(144;6.25e-08)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00807)|READ - Rectum adenocarcinoma(5;0.148)		CTGGGCCCGCGTGGAGGGTAC	0.622													35	108	---	---	---	---	PASS	T	220371039	T	T	220371039	3	4	88	1	0	0	0	0	1	0	0	0	6494	1145	40	1	1099	1	GMPPA	2	220371039	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	40945586	220371039	22828334	38	33310										
CHPF	79586	broad.mit.edu	37	chr2	220404238	220404238	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tcgcgctgcacgtctgggccCggtagcgctgcagcagcgcc	15	16	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:220404238C>T	uc002vmc.3	-	4	2422	c.2195G>A	c.(2194-2196)CGG>CAG	p.R732Q	CHPF_uc010zlh.1_Missense_Mutation_p.R570Q	NM_024536	NP_078812	Q8IZ52	CHSS2_HUMAN	chondroitin polymerizing factor	732	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity|protein binding				0		Renal(207;0.0183)		Epithelial(149;3.02e-08)|all cancers(144;3.41e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		CGTCTGGGCCCGGTAGCGCTG	0.667													4	58	---	---	---	---	PASS	T	220404238	T	T	220404238	3	4	88	1	0	0	0	0	1	0	0	0	3368	652	23	1	136	1	CHPF	2	220404238	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	33199	220404238	22795135	39	33311										
ANKMY1	51281	broad.mit.edu	37	chr2	241468504	241468504	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	accaacaaaggggtctcattGattatgaaccatggttctcc	8	10	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr2:241468504G>A	uc002vyz.1	-	4	865	c.636C>T	c.(634-636)ATC>ATT	p.I212I	ANKMY1_uc002vza.1_Intron|ANKMY1_uc010fzd.1_Silent_p.I301I|ANKMY1_uc002vzb.1_Intron|ANKMY1_uc002vzc.1_Intron|ANKMY1_uc002vzd.1_Intron|ANKMY1_uc010fze.1_Intron|ANKMY1_uc002vze.2_Intron	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	212							zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		GGGTCTCATTGATTATGAACC	0.507													18	189	---	---	---	---	PASS	A	241468504	A	A	241468504	2	1	88	1	0	0	0	0	0	0	0	1	634	1280	45	2		2	ANKMY1	2	241468504	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	21064266	241468504	1730869	40	33312										
PDCD6IP	10015	broad.mit.edu	37	chr3	33906918	33906918	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	atcccacctatccaggatatCctgggtaaggctgcaacatt	8	12	0	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:33906918C>T	uc003cfx.2	+	17	2583	c.2428C>T	c.(2428-2430)CCT>TCT	p.P810S	PDCD6IP_uc003cfy.2_Missense_Mutation_p.P815S|PDCD6IP_uc011axw.1_Missense_Mutation_p.P591S	NM_013374	NP_037506	Q8WUM4	PDC6I_HUMAN	programmed cell death 6 interacting protein	810	Pro-rich.|Interaction with EIAV p9.|Self-association.				apoptosis|cell cycle|cell division|interspecies interaction between organisms|protein transport	cytosol|melanosome|microtubule organizing center	calcium-dependent protein binding			ovary(1)|skin(1)	2						TCCAGGATATCCTGGGTAAGG	0.547													14	57	---	---	---	---	PASS	T	33906918	T	T	33906918	3	4	88	1	0	0	0	0	1	0	0	0	11624	855	30	2	2509	2	PDCD6IP	3	33906918	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08		33906918	164115512	41	33313										
PLXNB1	5364	broad.mit.edu	37	chr3	48453313	48453313	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ctctctgagcaggcggttgtCgttcaaggtgtatttggcct	13	9	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:48453313C>T	uc003csw.2	-	28	5476	c.5206G>A	c.(5206-5208)GAC>AAC	p.D1736N	PLXNB1_uc003cst.2_Missense_Mutation_p.D186N|PLXNB1_uc003csu.2_Missense_Mutation_p.D1553N|PLXNB1_uc003csx.2_Missense_Mutation_p.D1736N	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1736	Cytoplasmic (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AGGCGGTTGTCGTTCAAGGTG	0.582													16	135	---	---	---	---	PASS	T	48453313	T	T	48453313	3	4	88	1	0	0	0	0	1	0	0	0	12123	884	31	2	1245	2	PLXNB1	3	48453313	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	14546395	48453313	149569117	42	33314										
C3orf62	375341	broad.mit.edu	37	chr3	49314135	49314135	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aggagcctgtgcacgggcagCgagaaggagagcggcgcggc	20	10	0	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:49314135C>T	uc003cwn.2	-	1	374	c.171G>A	c.(169-171)TCG>TCA	p.S57S	C3orf62_uc003cwm.2_5'Flank	NM_198562	NP_940964	Q6ZUJ4	CC062_HUMAN	hypothetical protein LOC375341	57											0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GCACGGGCAGCGAGAAGGAGA	0.592													7	84	---	---	---	---	PASS	T	49314135	T	T	49314135	2	4	88	1	0	0	0	0	0	0	0	1	2238	755	27	1		1	C3orf62	3	49314135	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	860822	49314135	148708295	43	33315										
EPHA6	285220	broad.mit.edu	37	chr3	96945212	96945212	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	caacttctgtctgtcagtgtGaaaagggttatttccgagct	10	8	3	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:96945212G>A	uc010how.1	+	4	1262	c.1219G>A	c.(1219-1221)GAA>AAA	p.E407K	EPHA6_uc003drp.1_Missense_Mutation_p.E407K	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	312	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CTGTCAGTGTGAAAAGGGTTA	0.398													19	259	---	---	---	---	PASS	A	96945212	A	A	96945212	3	1	88	1	0	0	0	0	1	0	0	0	5171	1291	45	2	1233	2	EPHA6	3	96945212	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	47631077	96945212	101077218	44	33316										
OR5K3	403277	broad.mit.edu	37	chr3	98110363	98110363	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	agttattcctttattaaatcCttttatttatagcctaagaa	3	6	0	1	rs140041184	byFrequency	TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:98110363C>G	uc011bgw.1	+	1	854	c.854C>G	c.(853-855)CCT>CGT	p.P285R		NM_001005516	NP_001005516	A6NET4	OR5K3_HUMAN	olfactory receptor, family 5, subfamily K,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTATTAAATCCTTTTATTTAT	0.294													18	80	---	---	---	---	PASS	G	98110363	G	G	98110363	3	3	88	1	0	0	0	0	1	0	0	0	11168	681	24	4	856	4	OR5K3	3	98110363	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	1165151	98110363	99912067	45	33317										
CPOX	1371	broad.mit.edu	37	chr3	98311835	98311835	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cacagaaaagttggcgccccCgtctacctgtgccagagcct	10	15	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:98311835C>T	uc003dsx.2	-	1	607	c.514G>A	c.(514-516)GGG>AGG	p.G172R	CPOX_uc011bgz.1_Missense_Mutation_p.G172R	NM_000097	NP_000088	P36551	HEM6_HUMAN	coproporphyrinogen oxidase precursor	172						mitochondrial intermembrane space	coproporphyrinogen oxidase activity|protein homodimerization activity				0						TTGGCGCCCCCGTCTACCTGT	0.637													3	34	---	---	---	---	PASS	T	98311835	T	T	98311835	3	4	88	1	0	0	0	0	1	0	0	0	3821	652	23	1	878	1	CPOX	3	98311835	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	201472	98311835	99710595	46	33318										
ALCAM	214	broad.mit.edu	37	chr3	105260527	105260527	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	acttacacactgacggatgtGaggcgcaatgcaacaggaga	12	9	0	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:105260527G>A	uc003dvx.2	+	8	1449	c.909G>A	c.(907-909)GTG>GTA	p.V303V	ALCAM_uc003dvw.1_Silent_p.V303V|ALCAM_uc003dvy.2_Silent_p.V303V|ALCAM_uc011bhh.1_Silent_p.V252V|ALCAM_uc010hpp.2_Intron|ALCAM_uc003dvz.2_5'Flank	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	303	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						TGACGGATGTGAGGCGCAATG	0.418													22	77	---	---	---	---	PASS	A	105260527	A	A	105260527	2	1	88	1	0	0	0	0	0	0	0	1	487	1277	45	2		2	ALCAM	3	105260527	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	6948692	105260527	92761903	47	33319										
RETNLB	84666	broad.mit.edu	37	chr3	108475982	108475982	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgagtactccccgggttgatCagctggagaagggggattag	16	7	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:108475982C>T	uc003dxh.2	-	1	149	c.51G>A	c.(49-51)CTG>CTA	p.L17L		NM_032579	NP_115968	Q9BQ08	RETNB_HUMAN	resistin like beta precursor	17					cell proliferation	extracellular region	hormone activity			skin(1)	1						CCGGGTTGATCAGCTGGAGAA	0.522													19	63	---	---	---	---	PASS	T	108475982	T	T	108475982	2	4	88	1	0	0	0	0	0	0	0	1	13237	813	29	2		2	RETNLB	3	108475982	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	3215455	108475982	89546448	48	33320										
PHLDB2	90102	broad.mit.edu	37	chr3	111632271	111632271	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aagatgtgcagaaaatcaacAaggagcttgagaagctgcag	12	6	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:111632271A>G	uc010hqa.2	+	3	1852	c.1441A>G	c.(1441-1443)AAG>GAG	p.K481E	PHLDB2_uc003dyc.2_Missense_Mutation_p.K508E|PHLDB2_uc003dyd.2_Missense_Mutation_p.K481E|PHLDB2_uc003dyg.2_Missense_Mutation_p.K481E|PHLDB2_uc003dyh.2_Missense_Mutation_p.K481E|PHLDB2_uc003dyi.2_Missense_Mutation_p.K67E|PHLDB2_uc003dyf.3_Missense_Mutation_p.K481E	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	481						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						GAAAATCAACAAGGAGCTTGA	0.517													32	159	---	---	---	---	PASS	G	111632271	G	G	111632271	3	3	88	1	0	0	0	0	1	0	0	0	11852	131	5	5	1532	5	PHLDB2	3	111632271	Missense_Mutation	SNP	A	TCGA-39-5028-01A-01D-1441-08	3156289	111632271	86390159	49	33321										
ABHD10	55347	broad.mit.edu	37	chr3	111710348	111710348	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tcactgcttgttacatagccCaattcctgtgaactgcccca	6	14	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:111710348C>G	uc003dyk.3	+	5	782	c.701C>G	c.(700-702)CCA>CGA	p.P234R	ABHD10_uc011bhq.1_Missense_Mutation_p.P77R	NM_018394	NP_060864	Q9NUJ1	ABHDA_HUMAN	abhydrolase domain containing 10 precursor	234						mitochondrion	serine-type peptidase activity				0						TTACATAGCCCAATTCCTGTG	0.438													52	218	---	---	---	---	PASS	G	111710348	G	G	111710348	3	3	88	1	0	0	0	0	1	0	0	0	74	594	21	4	719	4	ABHD10	3	111710348	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	78077	111710348	86312082	50	33322										
GCET2	257144	broad.mit.edu	37	chr3	111849292	111849292	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttggttgattttgctctcacCtggatgttctctgtttgggg	12	7	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:111849292C>T	uc003dys.1	-	2	248	c.98G>A	c.(97-99)AGA>AAA	p.R33K	C3orf52_uc011bht.1_3'UTR|C3orf52_uc003dyr.1_RNA|GCET2_uc003dyt.1_5'UTR	NM_152785	NP_689998	Q8N6F7	GCET2_HUMAN	germinal center expressed transcript 2 isoform	33						mitochondrion					0						TTGCTCTCACCTGGATGTTCT	0.498													24	311	---	---	---	---	PASS	T	111849292	T	T	111849292	3	4	88	1	0	0	0	0	1	0	0	0	6288	695	24	3	458	3	GCET2	3	111849292	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	138944	111849292	86173138	51	33323										
ESYT3	83850	broad.mit.edu	37	chr3	138174129	138174129	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tccgagagaagagcatccacCtgaggacctttacctttacc	8	13	0	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:138174129C>T	uc003esk.2	+	3	689	c.463C>T	c.(463-465)CTG>TTG	p.L155L	ESYT3_uc010hug.2_RNA	NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain	155						integral to membrane|plasma membrane					0						GAGCATCCACCTGAGGACCTT	0.522													20	105	---	---	---	---	PASS	T	138174129	T	T	138174129	2	4	88	1	0	0	0	0	0	0	0	1	5266	680	24	3		3	ESYT3	3	138174129	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	26324837	138174129	59848301	52	33324										
RNF7	9616	broad.mit.edu	37	chr3	141464056	141464056	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgctgcatgtccctgtgggtGaaacagaacaatcgctgccc	11	12	0	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:141464056G>A	uc003eud.2	+	3	412	c.279G>A	c.(277-279)GTG>GTA	p.V93V	RNF7_uc003euc.2_Silent_p.*91*|RNF7_uc003eue.2_RNA	NM_014245	NP_055060	Q9UBF6	RBX2_HUMAN	ring finger protein 7 isoform 1	93	RING-type.				anti-apoptosis|induction of apoptosis by oxidative stress|protein neddylation|response to redox state	cytoplasm|nucleus	copper ion binding|NEDD8 ligase activity|protein binding|zinc ion binding				0						CCCTGTGGGTGAAACAGAACA	0.453													11	115	---	---	---	---	PASS	A	141464056	A	A	141464056	2	1	88	1	0	0	0	0	0	0	0	1	13499	1285	45	2		2	RNF7	3	141464056	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	3289927	141464056	56558374	53	33325										
CCDC39	339829	broad.mit.edu	37	chr3	180378361	180378361	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aatttgtaatttctcaccctGattttattatcatcttgttg	4	7	3	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:180378361G>C	uc010hxe.2	-	4	628	c.513C>G	c.(511-513)ATC>ATG	p.I171M	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	171	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TTCTCACCCTGATTTTATTAT	0.358													5	21	---	---	---	---	PASS	C	180378361	C	C	180378361	3	2	88	1	0	0	0	0	1	0	0	0	2811	1280	45	2	2380	2	CCDC39	3	180378361	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	38914305	180378361	17644069	54	33326										
LEPREL1	55214	broad.mit.edu	37	chr3	189692409	189692409	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gacgttatccaggagaacccGctgagtcccgttcagctgct	11	13	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr3:189692409G>A	uc011bsk.1	-	9	1778	c.1390C>T	c.(1390-1392)CGG>TGG	p.R464W	LEPREL1_uc003fsg.2_Missense_Mutation_p.R283W	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	464					collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	AGGAGAACCCGCTGAGTCCCG	0.567													8	76	---	---	---	---	PASS	A	189692409	A	A	189692409	3	1	88	1	0	0	0	0	1	0	0	0	8730	1086	38	1	764	1	LEPREL1	3	189692409	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	9314048	189692409	8330021	55	33327										
GPR78	27201	broad.mit.edu	37	chr4	8583059	8583059	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cccactgcgctacgccggacGcctgcgaccgcgctatgccg	12	19	0	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr4:8583059G>A	uc003glk.2	+	1	769	c.350G>A	c.(349-351)CGC>CAC	p.R117H	CPZ_uc003gll.2_RNA	NM_080819	NP_543009	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	117	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(4)|ovary(2)	6						TACGCCGGACGCCTGCGACCG	0.697													6	16	---	---	---	---	PASS	A	8583059	A	A	8583059	3	1	88	1	0	0	0	0	1	0	0	0	6710	1087	38	1	352	1	GPR78	4	8583059	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08		8583059	182571217	56	33328										
GPR78	27201	broad.mit.edu	37	chr4	8584304	8584304	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	agaagcggcgccgccaccgcGccaccaggaagattggcatt	13	14	0	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr4:8584304G>C	uc003glk.2	+	2	1134	c.715G>C	c.(715-717)GCC>CCC	p.A239P	CPZ_uc003gll.2_RNA	NM_080819	NP_543009	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	239	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(4)|ovary(2)	6						CCGCCACCGCGCCACCAGGAA	0.622													18	92	---	---	---	---	PASS	C	8584304	C	C	8584304	3	2	88	1	0	0	0	0	1	0	0	0	6710	1087	38	4	721	4	GPR78	4	8584304	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	1245	8584304	182569972	57	33329										
UGT2A3	79799	broad.mit.edu	37	chr4	69811154	69811154	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cagcttttcccacagtctcaCataatgtagtgggccttcct	7	13	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr4:69811154C>A	uc003hef.2	-	2	765	c.734G>T	c.(733-735)TGT>TTT	p.C245F	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	245	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						CACAGTCTCACATAATGTAGT	0.328													17	94	---	---	---	---	PASS	A	69811154	A	A	69811154	3	1	88	1	0	0	0	0	1	0	0	0	16952	478	17	3	869	3	UGT2A3	4	69811154	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	61226850	69811154	121343122	58	33330										
GRSF1	2926	broad.mit.edu	37	chr4	71698953	71698953	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttcccatctctgtttaggagAaaatgtattccattctcacc	5	11	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr4:71698953A>G	uc010iia.1	-	3	635	c.552T>C	c.(550-552)TTT>TTC	p.F184F	GRSF1_uc011caz.1_Silent_p.F66F|GRSF1_uc003hfs.2_Silent_p.F22F	NM_002092	NP_002083	Q12849	GRSF1_HUMAN	G-rich RNA sequence binding factor 1 isoform 1	184	RRM 1.				mRNA polyadenylation		mRNA binding|nucleotide binding				0		all_hematologic(202;0.21)	Lung(101;0.235)			TGTTTAGGAGAAAATGTATTC	0.403													7	91	---	---	---	---	PASS	G	71698953	G	G	71698953	2	3	88	1	0	0	0	0	0	0	0	1	6809	243	9	5		5	GRSF1	4	71698953	Silent	SNP	A	TCGA-39-5028-01A-01D-1441-08	1887799	71698953	119455323	59	33331										
HERC3	8916	broad.mit.edu	37	chr4	89571022	89571022	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gctctggcagatcagcatatCattcatgtggcatgtggcga	12	9	4	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr4:89571022C>G	uc003hrw.1	+	4	424	c.258C>G	c.(256-258)ATC>ATG	p.I86M	HERC3_uc003hrv.2_Missense_Mutation_p.I86M|HERC3_uc011cdn.1_Translation_Start_Site	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	86	RCC1 2.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		ATCAGCATATCATTCATGTGG	0.498													5	112	---	---	---	---	PASS	G	89571022	G	G	89571022	3	3	88	1	0	0	0	0	1	0	0	0	7059	816	29	2	264	2	HERC3	4	89571022	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	17872069	89571022	101583254	60	33332										
ADH5	128	broad.mit.edu	37	chr4	99993574	99993574	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttttctcttttgaattaaatCtttacaacagttcgaatgct	4	7	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr4:99993574C>G	uc003hui.2	-	9	1199	c.1119G>C	c.(1117-1119)AAG>AAC	p.K373N	ADH5_uc003huj.2_3'UTR	NM_000671	NP_000662	P11766	ADHX_HUMAN	class III alcohol dehydrogenase, chi subunit	373					ethanol oxidation|response to redox state		alcohol dehydrogenase (NAD) activity|electron carrier activity|fatty acid binding|formaldehyde dehydrogenase activity|S-(hydroxymethyl)glutathione dehydrogenase activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;2.5e-07)	NADH(DB00157)	TGAATTAAATCTTTACAACAG	0.398													5	74	---	---	---	---	PASS	G	99993574	G	G	99993574	3	3	88	1	0	0	0	0	1	0	0	0	311	912	32	2	9	2	ADH5	4	99993574	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	10422552	99993574	91160702	61	33333										
UGT8	7368	broad.mit.edu	37	chr4	115589240	115589240	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttctttttcatctttcttcaGggcattcaaagattaaagcc	5	9	6	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr4:115589240G>A	uc003ibs.2	+	5	1565	c.1043_splice	c.e5-1	p.G348_splice	UGT8_uc003ibt.2_Splice_Site_p.G348_splice|UGT8_uc011cge.1_Splice_Site	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8						central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		TCTTTCTTCAGGGCATTCAAA	0.358													21	122	---	---	---	---	PASS	A	115589240	A	A	115589240	5	1	88	1	0	0	0	0	0	0	1	0	16962	1014	35	3	1056	3	UGT8	4	115589240	Splice_Site	SNP	G	TCGA-39-5028-01A-01D-1441-08	15595666	115589240	75565036	62	33334										
ANKRD50	57182	broad.mit.edu	37	chr4	125599867	125599867	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aacagccttactctgctttcGggcagaacagagaagcaata	9	10	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr4:125599867G>A	uc003ifg.3	-	2	972	c.706C>T	c.(706-708)CGA>TGA	p.R236*	ANKRD50_uc011cgo.1_Nonsense_Mutation_p.R57*|ANKRD50_uc010inw.2_Nonsense_Mutation_p.R236*	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	236										central_nervous_system(1)	1						CTCTGCTTTCGGGCAGAACAG	0.408													6	227	---	---	---	---	PASS	A	125599867	A	A	125599867	4	1	88	1	0	0	0	0	0	1	0	0	677	1124	39	1	3591	1	ANKRD50	4	125599867	Nonsense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	10010627	125599867	65554409	63	33335										
NIPBL	25836	broad.mit.edu	37	chr5	37001175	37001175	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggaagatatggattttactgCgtttggtaaaatcaacttaa	9	4	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:37001175C>T	uc003jkl.3	+	14	4158	c.3659C>T	c.(3658-3660)GCG>GTG	p.A1220V	NIPBL_uc003jkk.3_Missense_Mutation_p.A1220V	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1220					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GATTTTACTGCGTTTGGTAAA	0.333													9	180	---	---	---	---	PASS	T	37001175	T	T	37001175	3	4	88	1	0	0	0	0	1	0	0	0	10428	768	27	1	3709	1	NIPBL	5	37001175	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08		37001175	143914085	64	33336										
SLC38A9	153129	broad.mit.edu	37	chr5	54968400	54968400	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttgtctcttaccagtgccttGtctgcaggagtggtgagccg	13	10	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:54968400G>T	uc003jqf.2	-	4	438	c.237C>A	c.(235-237)GAC>GAA	p.D79E	SLC38A9_uc003jqd.2_Missense_Mutation_p.D16E|SLC38A9_uc010ivx.2_Missense_Mutation_p.D52E|SLC38A9_uc003jqe.2_RNA|SLC38A9_uc010ivy.2_Intron	NM_173514	NP_775785	Q8NBW4	S38A9_HUMAN	solute carrier family 38, member 9	79					amino acid transport|sodium ion transport	integral to membrane					0		Lung NSC(810;0.00122)|Prostate(74;0.0376)|Breast(144;0.181)				CCAGTGCCTTGTCTGCAGGAG	0.428													4	192	---	---	---	---	PASS	T	54968400	T	T	54968400	3	4	88	1	0	0	0	0	1	0	0	0	14611	1368	48	3	1500	3	SLC38A9	5	54968400	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	17967225	54968400	125946860	65	33337										
PRR16	51334	broad.mit.edu	37	chr5	120022385	120022385	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gaagacgatcttgaggaagtCaaccactacaaccgtgtgat	10	9	2	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:120022385C>A	uc003ksq.2	+	2	1059	c.896C>A	c.(895-897)TCA>TAA	p.S299*	PRR16_uc003ksp.2_Nonsense_Mutation_p.S276*|PRR16_uc003ksr.2_Nonsense_Mutation_p.S229*	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16	299										pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		TTGAGGAAGTCAACCACTACA	0.378													4	59	---	---	---	---	PASS	A	120022385	A	A	120022385	4	1	88	1	0	0	0	0	0	1	0	0	12589	838	29	2	833	2	PRR16	5	120022385	Nonsense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	65053985	120022385	60892875	66	33338										
PRRC1	133619	broad.mit.edu	37	chr5	126883605	126883605	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	caccagtgcctttggaatttGtacagcaggttggttttctc	10	9	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:126883605G>C	uc003kuk.2	+	8	1300	c.1120G>C	c.(1120-1122)GTA>CTA	p.V374L	PRRC1_uc003kuj.3_Missense_Mutation_p.V374L	NM_130809	NP_570721	Q96M27	PRRC1_HUMAN	proline-rich coiled-coil 1	374						Golgi apparatus					0		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0851)|Epithelial(69;0.113)		TTTGGAATTTGTACAGCAGGT	0.368													10	74	---	---	---	---	PASS	C	126883605	C	C	126883605	3	2	88	1	0	0	0	0	1	0	0	0	12604	1377	48	4	1146	4	PRRC1	5	126883605	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	6861220	126883605	54031655	67	33339										
PSD2	84249	broad.mit.edu	37	chr5	139216784	139216784	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aggcgtggctggaagaaattCtacgcagtgctcaaagggac	14	8	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:139216784C>G	uc003leu.1	+	11	1831	c.1626C>G	c.(1624-1626)TTC>TTG	p.F542L		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	542	PH.				regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAAGAAATTCTACGCAGTGC	0.622													8	133	---	---	---	---	PASS	G	139216784	G	G	139216784	3	3	88	1	0	0	0	0	1	0	0	0	12647	912	32	2	1664	2	PSD2	5	139216784	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	12333179	139216784	41698476	68	33340										
C5orf32	84418	broad.mit.edu	37	chr5	139622978	139622978	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gctctctgttgctgctgtctCtgggacatgctcacctgacc	10	14	3	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:139622978C>G	uc003lfd.2	+	3	514	c.276C>G	c.(274-276)CTC>CTG	p.L92L	C5orf32_uc010jfi.2_RNA	NM_032412	NP_115788	Q9H1C7	CE032_HUMAN	hypothetical protein LOC84418	92											0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGCTGTCTCTGGGACATGC	0.582													4	46	---	---	---	---	PASS	G	139622978	G	G	139622978	2	3	88	1	0	0	0	0	0	0	0	1	2291	900	32	2		2	C5orf32	5	139622978	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	406194	139622978	41292282	69	33341										
CD14	929	broad.mit.edu	37	chr5	140012007	140012007	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cgggaaggcgcgaacctgttCgcaggaaaaggcaggcgagt	17	9	0	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:140012007C>A	uc003lgi.1	-	2	916	c.562G>T	c.(562-564)GAA>TAA	p.E188*	CD14_uc003lgj.1_Nonsense_Mutation_p.E188*	NM_000591	NP_000582	P08571	CD14_HUMAN	CD14 antigen precursor	188	LRR 5.				apoptosis|cellular response to lipopolysaccharide|cellular response to lipoteichoic acid|inflammatory response|innate immune response|phagocytosis|positive regulation of tumor necrosis factor production|Toll signaling pathway	anchored to membrane|plasma membrane	lipopolysaccharide binding|lipoteichoic acid binding|opsonin receptor activity|peptidoglycan receptor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAACCTGTTCGCAGGAAAAG	0.622													4	83	---	---	---	---	PASS	A	140012007	A	A	140012007	4	1	88	1	0	0	0	0	0	1	0	0	2964	893	31	2	569	2	CD14	5	140012007	Nonsense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	389029	140012007	40903253	70	33342										
CD14	929	broad.mit.edu	37	chr5	140012199	140012199	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gccggttatctttaggtcctCgagcgtcagttccttgaggc	12	11	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:140012199C>G	uc003lgi.1	-	2	724	c.370G>C	c.(370-372)GAG>CAG	p.E124Q	CD14_uc003lgj.1_Missense_Mutation_p.E124Q	NM_000591	NP_000582	P08571	CD14_HUMAN	CD14 antigen precursor	124	LRR 3.				apoptosis|cellular response to lipopolysaccharide|cellular response to lipoteichoic acid|inflammatory response|innate immune response|phagocytosis|positive regulation of tumor necrosis factor production|Toll signaling pathway	anchored to membrane|plasma membrane	lipopolysaccharide binding|lipoteichoic acid binding|opsonin receptor activity|peptidoglycan receptor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTAGGTCCTCGAGCGTCAGT	0.632													8	90	---	---	---	---	PASS	G	140012199	G	G	140012199	3	3	88	1	0	0	0	0	1	0	0	0	2964	893	31	2	761	2	CD14	5	140012199	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	192	140012199	40903061	71	33343										
PCDHA6	56142	broad.mit.edu	37	chr5	140208509	140208509	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aggagcgaatggggcaatttCatattcttttaatagccttg	10	6	2	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:140208509C>T	uc003lho.2	+	1	860	c.833C>T	c.(832-834)TCA>TTA	p.S278L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.S278L|PCDHA6_uc011dab.1_Missense_Mutation_p.S278L	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	278	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGGCAATTTCATATTCTTTT	0.388													29	186	---	---	---	---	PASS	T	140208509	T	T	140208509	3	4	88	1	0	0	0	0	1	0	0	0	11528	838	29	2	835	2	PCDHA6	5	140208509	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	196310	140208509	40706751	72	33344										
PCDHGC3	5098	broad.mit.edu	37	chr5	140856583	140856583	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ctattcgccttagaccttgtAaccgggatgctgacaatcaa	8	11	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:140856583A>T	uc003lkv.1	+	1	1015	c.900A>T	c.(898-900)GTA>GTT	p.V300V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Silent_p.V300V|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	300	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGACCTTGTAACCGGGATGC	0.547													20	164	---	---	---	---	PASS	T	140856583	T	T	140856583	2	4	88	1	0	0	0	0	0	0	0	1	11569	349	13	5		5	PCDHGC3	5	140856583	Silent	SNP	A	TCGA-39-5028-01A-01D-1441-08	648074	140856583	40058677	73	33345										
GLRA1	2741	broad.mit.edu	37	chr5	151230968	151230968	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	taccttgggcagagatgctcGagagccggagctctgggtgg	17	9	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:151230968G>C	uc003lut.2	-	7	1182	c.895C>G	c.(895-897)CGA>GGA	p.R299G	GLRA1_uc003lur.2_Missense_Mutation_p.R299G|GLRA1_uc003lus.2_Missense_Mutation_p.R216G	NM_001146040	NP_001139512	P23415	GLRA1_HUMAN	glycine receptor, alpha 1 isoform 1 precursor	299			R -> L (in STHE; decreased potency of glycine to activate the channel).|R -> Q (in STHE; decreased potency of glycine to activate the channel).		muscle contraction|negative regulation of transmission of nerve impulse|neuropeptide signaling pathway|positive regulation of acrosome reaction|regulation of membrane potential|startle response	cell junction|chloride channel complex|integral to plasma membrane|intracellular membrane-bounded organelle|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|protein binding|receptor activity|taurine binding|transmitter-gated ion channel activity			ovary(1)|central_nervous_system(1)	2		all_hematologic(541;0.0341)|Medulloblastoma(196;0.0912)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Ethanol(DB00898)|Glycine(DB00145)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AGAGATGCTCGAGAGCCGGAG	0.547													6	59	---	---	---	---	PASS	C	151230968	C	C	151230968	3	2	88	1	0	0	0	0	1	0	0	0	6454	1066	37	2	490	2	GLRA1	5	151230968	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	10374385	151230968	29684292	74	33346										
GRIA1	2890	broad.mit.edu	37	chr5	153149833	153149833	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggatgattcgagtgaggaaaTccaaaggcaaatatgcctac	11	7	0	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:153149833T>A	uc003lva.3	+	13	2493	c.2128T>A	c.(2128-2130)TCC>ACC	p.S710T	GRIA1_uc003luy.3_Missense_Mutation_p.S710T|GRIA1_uc003luz.3_Missense_Mutation_p.S615T|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.S630T|GRIA1_uc011dcx.1_Missense_Mutation_p.S641T|GRIA1_uc011dcy.1_Missense_Mutation_p.S720T|GRIA1_uc011dcz.1_Missense_Mutation_p.S720T	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	710	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AGTGAGGAAATCCAAAGGCAA	0.473													15	79	---	---	---	---	PASS	A	153149833	A	A	153149833	3	1	88	1	0	0	0	0	1	0	0	0	6767	1435	50	5	2178	5	GRIA1	5	153149833	Missense_Mutation	SNP	T	TCGA-39-5028-01A-01D-1441-08	1918865	153149833	27765427	75	33347										
SOX30	11063	broad.mit.edu	37	chr5	157065554	157065554	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggcttcagaatgcagctgatGagtgtctgtttgggaaggcc	15	7	2	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:157065554G>A	uc003lxb.1	-	4	1906	c.1564C>T	c.(1564-1566)CAT>TAT	p.H522Y	SOX30_uc003lxc.1_Intron|SOX30_uc011dds.1_Missense_Mutation_p.H217Y	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	522					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TGCAGCTGATGAGTGTCTGTT	0.542													7	86	---	---	---	---	PASS	A	157065554	A	A	157065554	3	1	88	1	0	0	0	0	1	0	0	0	14952	1290	45	2	705	2	SOX30	5	157065554	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	3915721	157065554	23849706	76	33348										
GABRA6	2559	broad.mit.edu	37	chr5	161128560	161128560	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	acttctctgtctttgccaatAgtttcatcttccgaggccaa	6	12	4	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:161128560A>G	uc003lyu.2	+	9	1481	c.1143A>G	c.(1141-1143)ATA>ATG	p.I381M	GABRA6_uc003lyv.2_Missense_Mutation_p.I152M	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	381	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CTTTGCCAATAGTTTCATCTT	0.448										TCGA Ovarian(5;0.080)			39	163	---	---	---	---	PASS	G	161128560	G	G	161128560	3	3	88	1	0	0	0	0	1	0	0	0	6165	410	15	5	1177	5	GABRA6	5	161128560	Missense_Mutation	SNP	A	TCGA-39-5028-01A-01D-1441-08	4063006	161128560	19786700	77	33349										
ADAMTS2	9509	broad.mit.edu	37	chr5	178541089	178541089	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	attgagagggacctccagggGggtgcttggtgatggccgca	18	8	0	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr5:178541089G>C	uc003mjw.2	-	22	3415	c.3415C>G	c.(3415-3417)CCC>GCC	p.P1139A	uc003mjv.3_5'Flank	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1139					collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		ACCTCCAGGGGGGTGCTTGGT	0.572													31	153	---	---	---	---	PASS	C	178541089	C	C	178541089	3	2	88	1	0	0	0	0	1	0	0	0	265	1232	43	4	224	4	ADAMTS2	5	178541089	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	17412529	178541089	2374171	78	33350										
TRIM15	89870	broad.mit.edu	37	chr6	30131596	30131596	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgcctccccgcgctctcccaGatgggggcccaatcctcggg	12	18	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:30131596G>C	uc010jrx.2	+	1	614	c.135G>C	c.(133-135)CAG>CAC	p.Q45H	TRIM10_uc003npn.2_5'Flank|TRIM10_uc003npo.3_5'Flank	NM_033229	NP_150232	Q9C019	TRI15_HUMAN	tripartite motif protein 15	45	RING-type.				mesodermal cell fate determination	intracellular	zinc ion binding				0						CGCTCTCCCAGATGGGGGCCC	0.687													7	64	---	---	---	---	PASS	C	30131596	C	C	30131596	3	2	88	1	0	0	0	0	1	0	0	0	16487	933	33	2	137	2	TRIM15	6	30131596	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08		30131596	140983471	79	33351										
HLA-DMB	3109	broad.mit.edu	37	chr6	32905234	32905234	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tacttgcacagatggtggccCtgcataggagaaaaaaacat	10	8	0	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:32905234C>A	uc003ocl.1	-	3	571	c.338_splice	c.e3-1	p.R113_splice	HLA-DMB_uc003ocj.1_3'UTR|HLA-DMB_uc003ock.1_5'Flank|HLA-DMB_uc010jud.1_Splice_Site|HLA-DMB_uc010jue.1_Splice_Site|HLA-DMB_uc010juf.1_Splice_Site|HLA-DMB_uc011dql.1_Intron	NM_002118	NP_002109	P28068	DMB_HUMAN	major histocompatibility complex, class II, DM						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	integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0						GATGGTGGCCCTGCATAGGAG	0.493													25	143	---	---	---	---	PASS	A	32905234	A	A	32905234	5	1	88	1	0	0	0	0	0	0	1	0	7199	695	24	3	470	3	HLA-DMB	6	32905234	Splice_Site	SNP	C	TCGA-39-5028-01A-01D-1441-08	2773638	32905234	138209833	80	33352										
MAPK13	5603	broad.mit.edu	37	chr6	36103596	36103596	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gggatggagttcagtgaggaGaagatccagtacctggtgta	16	5	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:36103596G>C	uc003ols.2	+	4	473	c.375G>C	c.(373-375)GAG>GAC	p.E125D	MAPK13_uc003olt.2_RNA	NM_002754	NP_002745	O15264	MK13_HUMAN	mitogen-activated protein kinase 13	125	Protein kinase.				cell cycle|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|positive regulation of interleukin-6 production|Ras protein signal transduction|response to stress		ATP binding|MAP kinase activity|protein binding			breast(2)|central_nervous_system(1)	3						TCAGTGAGGAGAAGATCCAGT	0.552													23	109	---	---	---	---	PASS	C	36103596	C	C	36103596	3	2	88	1	0	0	0	0	1	0	0	0	9275	933	33	2	389	2	MAPK13	6	36103596	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	3198362	36103596	135011471	81	33353										
DNAH8	1769	broad.mit.edu	37	chr6	38793996	38793996	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	atgttactctgtcgatatctGaatgaagaatacaaaaagaa	7	5	2	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:38793996G>C	uc003ooe.1	+	27	3861	c.3261G>C	c.(3259-3261)CTG>CTC	p.L1087L		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GTCGATATCTGAATGAAGAAT	0.323													18	77	---	---	---	---	PASS	C	38793996	C	C	38793996	2	2	88	1	0	0	0	0	0	0	0	1	4607	1277	45	2		2	DNAH8	6	38793996	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	2690400	38793996	132321071	82	33354										
BEND6	221336	broad.mit.edu	37	chr6	56857268	56857268	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttgtcaaaggaagaattgtgCgccaaaataaaaagcctgaa	9	6	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:56857268C>T	uc010kab.2	+	3	799	c.213C>T	c.(211-213)TGC>TGT	p.C71C	BEND6_uc003pdg.2_RNA	NM_152731	NP_689944	Q5SZJ8	BEND6_HUMAN	BEN domain containing 6	71	Potential.										0						AAGAATTGTGCGCCAAAATAA	0.413													11	211	---	---	---	---	PASS	T	56857268	T	T	56857268	2	4	88	1	0	0	0	0	0	0	0	1	1402	776	27	1		1	BEND6	6	56857268	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	18063272	56857268	114257799	83	33355										
BAI3	577	broad.mit.edu	37	chr6	70037782	70037782	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggatatggcactgatcactaGtaagtccatccacagagata	9	9	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:70037782G>T	uc003pev.3	+	22	3483	c.3035_splice	c.e22+1	p.Y1012_splice	BAI3_uc010kak.2_Splice_Site_p.Y1012_splice|BAI3_uc011dxx.1_Splice_Site_p.Y218_splice|BAI3_uc003pex.1_Splice_Site_p.Y142_splice	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3						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)				CTGATCACTAGTAAGTCCATC	0.393													19	82	---	---	---	---	PASS	T	70037782	T	T	70037782	5	4	88	1	0	0	0	0	0	0	1	0	1300	1043	36	3	3114	3	BAI3	6	70037782	Splice_Site	SNP	G	TCGA-39-5028-01A-01D-1441-08	13180514	70037782	101077285	84	33356										
FAM135A	57579	broad.mit.edu	37	chr6	71235668	71235668	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ctgataaatctaataactctAcagggacagcaattacatta	5	8	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:71235668A>G	uc003pfj.2	+	13	3014	c.2881A>G	c.(2881-2883)ACA>GCA	p.T961A	FAM135A_uc003pfi.2_Missense_Mutation_p.T765A|FAM135A_uc003pfh.2_Missense_Mutation_p.T748A|FAM135A_uc003pfl.2_Missense_Mutation_p.T628A|FAM135A_uc003pfn.2_Missense_Mutation_p.T167A|FAM135A_uc003pfo.1_Missense_Mutation_p.T332A|FAM135A_uc010kan.1_5'Flank	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	961										central_nervous_system(1)	1						TAATAACTCTACAGGGACAGC	0.368													21	74	---	---	---	---	PASS	G	71235668	G	G	71235668	3	3	88	1	0	0	0	0	1	0	0	0	5448	391	14	5	3009	5	FAM135A	6	71235668	Missense_Mutation	SNP	A	TCGA-39-5028-01A-01D-1441-08	1197886	71235668	99879399	85	33357										
GABRR2	2570	broad.mit.edu	37	chr6	89967576	89967576	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggtggaccactattttgtctTgcctttcttcttctgtcagg	9	10	5	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:89967576T>C	uc003pnb.2	-	9	1294	c.1286A>G	c.(1285-1287)CAA>CGA	p.Q429R	GABRR2_uc011dzx.1_Missense_Mutation_p.Q305R	NM_002043	NP_002034	P28476	GBRR2_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 2	429	Cytoplasmic (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				0		all_cancers(76;1.67e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.77e-07)|all_epithelial(107;2.51e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0158)		TATTTTGTCTTGCCTTTCTTC	0.517													7	73	---	---	---	---	PASS	C	89967576	C	C	89967576	3	2	88	1	0	0	0	0	1	0	0	0	6177	1812	63	5	190	5	GABRR2	6	89967576	Missense_Mutation	SNP	T	TCGA-39-5028-01A-01D-1441-08	18731908	89967576	81147491	86	33358										
PRDM13	59336	broad.mit.edu	37	chr6	100061058	100061058	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cggctcgccaaggcgccgtcCcagcggctgatggcctcggt	15	16	0	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:100061058C>A	uc003pqg.1	+	4	808	c.547C>A	c.(547-549)CCA>ACA	p.P183T		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	183					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		AGGCGCCGTCCCAGCGGCTGA	0.697													15	33	---	---	---	---	PASS	A	100061058	A	A	100061058	3	1	88	1	0	0	0	0	1	0	0	0	12454	623	22	3	561	3	PRDM13	6	100061058	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	10093482	100061058	71054009	87	33359										
VGLL2	245806	broad.mit.edu	37	chr6	117586987	117586987	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cgcagccctacttcgcagccGcctacaccccctaccaccag	6	22	0	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:117586987G>T	uc003pxn.2	+	1	251	c.61G>T	c.(61-63)GCC>TCC	p.A21S	VGLL2_uc003pxo.2_Missense_Mutation_p.A21S	NM_182645	NP_872586	Q8N8G2	VGLL2_HUMAN	vestigial-like 2 isoform 1	21					transcription, DNA-dependent	nucleus				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(226;0.0254)|all cancers(137;0.0676)|OV - Ovarian serous cystadenocarcinoma(136;0.0757)		CTTCGCAGCCGCCTACACCCC	0.582													4	74	---	---	---	---	PASS	T	117586987	T	T	117586987	3	4	88	1	0	0	0	0	1	0	0	0	17156	1087	38	1	63	1	VGLL2	6	117586987	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	17525929	117586987	53528080	88	33360										
LAMA2	3908	broad.mit.edu	37	chr6	129826502	129826502	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tacccgaagaattggtccagTaaatatctgatttcttcttt	6	8	3	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:129826502T>A	uc003qbn.2	+	60	8808	c.8703_splice	c.e60+2	p.P2901_splice	LAMA2_uc003qbo.2_Splice_Site_p.P2897_splice|uc003qbq.2_Intron	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor						cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		ATTGGTCCAGTAAATATCTGA	0.383													28	97	---	---	---	---	PASS	A	129826502	A	A	129826502	5	1	88	1	0	0	0	0	0	0	1	0	8606	1652	57	5	8947	5	LAMA2	6	129826502	Splice_Site	SNP	T	TCGA-39-5028-01A-01D-1441-08	12239515	129826502	41288565	89	33361										
OPRM1	4988	broad.mit.edu	37	chr6	154412236	154412236	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tcttgcgcctcaagagtgtcCgcatgctctctggctccaaa	9	14	3	1	rs17174822	by1000genomes	TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:154412236C>T	uc003qpr.2	+	3	1030	c.793C>T	c.(793-795)CGC>TGC	p.R265C	OPRM1_uc011efc.1_Missense_Mutation_p.R184C|OPRM1_uc011efd.1_Missense_Mutation_p.R165C|OPRM1_uc011efe.1_Missense_Mutation_p.R358C|OPRM1_uc003qpn.2_Missense_Mutation_p.R265C|OPRM1_uc003qpo.1_Missense_Mutation_p.R265C|OPRM1_uc011eff.1_Missense_Mutation_p.R265C|OPRM1_uc011efg.1_Missense_Mutation_p.R265C|OPRM1_uc011efh.1_Missense_Mutation_p.R265C|OPRM1_uc003qpq.1_Missense_Mutation_p.R265C|OPRM1_uc003qpt.1_Missense_Mutation_p.R265C|OPRM1_uc011efi.1_Missense_Mutation_p.R265C|OPRM1_uc003qpp.2_RNA|OPRM1_uc003qps.2_RNA|OPRM1_uc010kjg.2_Missense_Mutation_p.R165C|OPRM1_uc003qpu.2_Missense_Mutation_p.R165C	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	265	Cytoplasmic (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	CAAGAGTGTCCGCATGCTCTC	0.502													8	100	---	---	---	---	PASS	T	154412236	T	T	154412236	3	4	88	1	0	0	0	0	1	0	0	0	10887	652	23	1	1137	1	OPRM1	6	154412236	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	24585734	154412236	16702831	90	33362										
IGF2R	3482	broad.mit.edu	37	chr6	160525834	160525834	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	accaccaagtcagtgaaagcCctcagctccctgcatgggga	10	14	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr6:160525834C>T	uc003qta.2	+	48	7342	c.7194C>T	c.(7192-7194)GCC>GCT	p.A2398A		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	2398	Cytoplasmic (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		CAGTGAAAGCCCTCAGCTCCC	0.572													3	72	---	---	---	---	PASS	T	160525834	T	T	160525834	2	4	88	1	0	0	0	0	0	0	0	1	7576	610	22	3		3	IGF2R	6	160525834	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	6113598	160525834	10589233	91	33363										
PMS2	5395	broad.mit.edu	37	chr7	6026709	6026709	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	agttggctgaggcaaaactcGaaatttacatccggtatctt	9	8	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:6026709G>A	uc003spl.2	-	11	1774	c.1687C>T	c.(1687-1689)CGA>TGA	p.R563*	PMS2_uc003spj.2_Nonsense_Mutation_p.R457*|PMS2_uc003spk.2_Nonsense_Mutation_p.R428*|PMS2_uc011jwl.1_Nonsense_Mutation_p.R428*|PMS2_uc010ktg.2_Nonsense_Mutation_p.R252*|PMS2_uc010kte.2_Intron|PMS2_uc010ktf.1_Intron	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	563					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		GGCAAAACTCGAAATTTACAT	0.408			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				47	336	---	---	---	---	PASS	A	6026709	A	A	6026709	4	1	88	1	0	0	0	0	0	1	0	0	12143	1066	37	2	921	2	PMS2	7	6026709	Nonsense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08		6026709	153111954	92	33364										
RSBN1L	222194	broad.mit.edu	37	chr7	77325886	77325886	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gcaagctgcaactctcctccCgggaccctccgggttctctg	10	17	2	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:77325886C>T	uc010ldt.1	+	1	144	c.100C>T	c.(100-102)CGG>TGG	p.R34W	RSBN1L_uc003ugm.2_5'Flank|uc003ugj.1_RNA	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	34						nucleus				ovary(1)	1						ACTCTCCTCCCGGGACCCTCC	0.667													19	68	---	---	---	---	PASS	T	77325886	T	T	77325886	3	4	88	1	0	0	0	0	1	0	0	0	13697	643	23	1	102	1	RSBN1L	7	77325886	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	71299177	77325886	81812777	93	33365										
RSBN1L	222194	broad.mit.edu	37	chr7	77407731	77407731	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tagaagtagttcaacgaatgCagttagatttacatgaacct	8	6	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:77407731C>T	uc010ldt.1	+	7	1914	c.1870C>T	c.(1870-1872)CAG>TAG	p.Q624*	RSBN1L_uc003ugm.2_Nonsense_Mutation_p.Q406*	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	624						nucleus				ovary(1)	1						TCAACGAATGCAGTTAGATTT	0.323													12	154	---	---	---	---	PASS	T	77407731	T	T	77407731	4	4	88	1	0	0	0	0	0	1	0	0	13697	711	25	3	1896	3	RSBN1L	7	77407731	Nonsense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	81845	77407731	81730932	94	33366										
PCLO	27445	broad.mit.edu	37	chr7	82584106	82584106	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	agcatctagtagtttcctttCttcttctgtagaagttacca	6	9	4	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:82584106C>T	uc003uhx.2	-	5	6452	c.6163G>A	c.(6163-6165)GAA>AAA	p.E2055K	PCLO_uc003uhv.2_Missense_Mutation_p.E2055K	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1986					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGTTTCCTTTCTTCTTCTGTA	0.443													18	77	---	---	---	---	PASS	T	82584106	T	T	82584106	3	4	88	1	0	0	0	0	1	0	0	0	11583	922	32	2	9366	2	PCLO	7	82584106	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	5176375	82584106	76554557	95	33367										
PCLO	27445	broad.mit.edu	37	chr7	82784553	82784553	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ccaggcagttgtgaaggaggCtttgttgggccagtctgctg	16	8	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:82784553C>A	uc003uhx.2	-	2	1693	c.1404G>T	c.(1402-1404)AAG>AAT	p.K468N	PCLO_uc003uhv.2_Missense_Mutation_p.K468N	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	419	Gln-rich.|Pro-rich.|10 X 10 AA tandem approximate repeats of P-A-K-P-Q-P-Q-Q-P-X.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GTGAAGGAGGCTTTGTTGGGC	0.607													10	124	---	---	---	---	PASS	A	82784553	A	A	82784553	3	1	88	1	0	0	0	0	1	0	0	0	11583	796	28	3	14137	3	PCLO	7	82784553	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	200447	82784553	76354110	96	33368										
CCDC132	55610	broad.mit.edu	37	chr7	92938172	92938172	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aagaaaagagtgcctatcaaGagtatgacagtgacagtgat	11	5	1	6			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:92938172G>C	uc003umo.2	+	19	1794	c.1666G>C	c.(1666-1668)GAG>CAG	p.E556Q	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.E526Q|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Missense_Mutation_p.E276Q	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	556											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			TGCCTATCAAGAGTATGACAG	0.403													6	101	---	---	---	---	PASS	C	92938172	C	C	92938172	3	2	88	1	0	0	0	0	1	0	0	0	2767	943	33	2	1782	2	CCDC132	7	92938172	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	10153619	92938172	66200491	97	33369										
MUC17	140453	broad.mit.edu	37	chr7	100676942	100676942	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ctagtgaaggaagcactccaTtaacaagtatgcctgtcagc	9	10	1	1	rs71557224		TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:100676942T>C	uc003uxp.1	+	3	2298	c.2245T>C	c.(2245-2247)TTA>CTA	p.L749L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	749	Extracellular (Potential).|Ser-rich.|10.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AAGCACTCCATTAACAAGTAT	0.488													13	394	---	---	---	---	PASS	C	100676942	C	C	100676942	2	2	88	1	0	0	0	0	0	0	0	1	9974	1490	52	5		5	MUC17	7	100676942	Silent	SNP	T	TCGA-39-5028-01A-01D-1441-08	7738770	100676942	58461721	98	33370			2	39		3	3	1818	N	T_C	8.792854e-05
MUC17	140453	broad.mit.edu	37	chr7	100678647	100678647	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cacttctaatgaagtcagttCatctcctacacctgctgaag	6	12	4	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:100678647C>T	uc003uxp.1	+	3	4003	c.3950C>T	c.(3949-3951)TCA>TTA	p.S1317L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1317	Extracellular (Potential).|20.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GAAGTCAGTTCATCTCCTACA	0.488													53	305	---	---	---	---	PASS	T	100678647	T	T	100678647	3	4	88	1	0	0	0	0	1	0	0	0	9974	838	29	2	3960	2	MUC17	7	100678647	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	1705	100678647	58460016	99	33371			2	39		3	3	1818	N	T_C	8.792854e-05
MUC17	140453	broad.mit.edu	37	chr7	100678759	100678759	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ctggtggccagttctgcaatCagcatcctttcaacaactcc	7	14	3	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:100678759C>T	uc003uxp.1	+	3	4115	c.4062C>T	c.(4060-4062)ATC>ATT	p.I1354I	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1354	Extracellular (Potential).|20.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GTTCTGCAATCAGCATCCTTT	0.468													58	336	---	---	---	---	PASS	T	100678759	T	T	100678759	2	4	88	1	0	0	0	0	0	0	0	1	9974	816	29	2		2	MUC17	7	100678759	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	112	100678759	58459904	100	33372			2	39		3	3	1818	N	T_C	8.792854e-05
ATXN7L1	222255	broad.mit.edu	37	chr7	105516986	105516986	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	agccgagagacacgggattcGagaacgctccgacgtcatct	12	12	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:105516986G>C	uc003vde.2	-	1	46	c.19C>G	c.(19-21)CGA>GGA	p.R7G	ATXN7L1_uc003vdi.2_Missense_Mutation_p.R7G|CDHR3_uc003vdk.2_5'Flank|uc003vdj.1_5'Flank	NM_020725	NP_065776	Q9ULK2	AT7L1_HUMAN	ataxin 7-like 1 isoform 1	7											0						CACGGGATTCGAGAACGCTCC	0.418													3	42	---	---	---	---	PASS	C	105516986	C	C	105516986	3	2	88	1	0	0	0	0	1	0	0	0	1216	1066	37	2	2707	2	ATXN7L1	7	105516986	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	4838227	105516986	53621677	101	33373										
PTN	5764	broad.mit.edu	37	chr7	136938275	136938275	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gtcttcatggtttgcttgcaCtcagctccagtccgagtgcc	10	13	3	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:136938275C>T	uc003vtq.2	-	3	588	c.225G>A	c.(223-225)GAG>GAA	p.E75E	PTN_uc010lmx.2_Silent_p.E75E|PTN_uc003vtr.1_Silent_p.E75E	NM_002825	NP_002816	P21246	PTN_HUMAN	pleiotrophin	75				E -> G (in Ref. 9; AAV38498).	nervous system development|positive regulation of cell division|positive regulation of cell proliferation|transmembrane receptor protein tyrosine phosphatase signaling pathway	endoplasmic reticulum|extracellular space	growth factor activity|heparin binding|protein phosphatase inhibitor activity	p.E75Q(1)		upper_aerodigestive_tract(1)|pancreas(1)	2						TTTGCTTGCACTCAGCTCCAG	0.537													13	90	---	---	---	---	PASS	T	136938275	T	T	136938275	2	4	88	1	0	0	0	0	0	0	0	1	12768	564	20	3		3	PTN	7	136938275	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	31421289	136938275	22200388	102	33374										
CNTNAP2	26047	broad.mit.edu	37	chr7	147259273	147259273	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gcctacaaacacctaggacaGacatcaaattattactggat	6	10	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:147259273G>C	uc003weu.1	+	12	2337	c.1821G>C	c.(1819-1821)CAG>CAC	p.Q607H		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	607	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ACCTAGGACAGACATCAAATT	0.428										HNSCC(39;0.1)			13	110	---	---	---	---	PASS	C	147259273	C	C	147259273	3	2	88	1	0	0	0	0	1	0	0	0	3647	933	33	2	1867	2	CNTNAP2	7	147259273	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	10320998	147259273	11879390	103	33375										
EZH2	2146	broad.mit.edu	37	chr7	148515180	148515180	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gtctttatccgctcagcggtGagagcagcagcaaactcctt	10	12	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr7:148515180G>C	uc003wfd.1	-	10	1180	c.1014C>G	c.(1012-1014)CTC>CTG	p.L338L	EZH2_uc011kug.1_Silent_p.L329L|EZH2_uc003wfb.1_Silent_p.L343L|EZH2_uc003wfc.1_Silent_p.L299L|EZH2_uc011kuh.1_Silent_p.L329L|EZH2_uc011kui.1_Silent_p.L338L|EZH2_uc011kuj.1_RNA	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	338	Interaction with DNMT1, DNMT3A and DNMT3B.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			GCTCAGCGGTGAGAGCAGCAG	0.478			Mis		DLBCL								17	224	---	---	---	---	PASS	C	148515180	C	C	148515180	2	2	88	1	0	0	0	0	0	0	0	1	5334	1277	45	2		2	EZH2	7	148515180	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	1255907	148515180	10623483	104	33376										
UBXN8	7993	broad.mit.edu	37	chr8	30623805	30623805	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ctatacagcctttctacttcCtttcccagacggcctctggc	6	16	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr8:30623805C>A	uc003xii.2	+	10	725	c.708C>A	c.(706-708)TCC>TCA	p.S236S	UBXN8_uc010lvi.2_3'UTR|UBXN8_uc011lbb.1_RNA|UBXN8_uc003xij.2_RNA	NM_005671	NP_005662	O00124	UBXN8_HUMAN	reproduction 8	236	UBX.				single fertilization						0						TTTCTACTTCCTTTCCCAGAC	0.473													4	66	---	---	---	---	PASS	A	30623805	A	A	30623805	2	1	88	1	0	0	0	0	0	0	0	1	16916	668	24	3		3	UBXN8	8	30623805	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08		30623805	115740217	105	33377										
HTRA4	203100	broad.mit.edu	37	chr8	38832597	38832597	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggaattacaacttcatcgccGcggtggtggagaaggtggcg	16	8	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr8:38832597G>A	uc003xmj.2	+	2	629	c.514G>A	c.(514-516)GCG>ACG	p.A172T		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	172					proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			CTTCATCGCCGCGGTGGTGGA	0.567													13	869	---	---	---	---	PASS	A	38832597	A	A	38832597	3	1	88	1	0	0	0	0	1	0	0	0	7456	1087	38	1	520	1	HTRA4	8	38832597	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	8208792	38832597	107531425	106	33378										
ADAM9	8754	broad.mit.edu	37	chr8	38880712	38880712	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tattcgaattgtgctagttgGactggagatttggaccaatg	12	5	0	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr8:38880712G>C	uc003xmr.2	+	9	860	c.782G>C	c.(781-783)GGA>GCA	p.G261A	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_RNA|ADAM9_uc010lwr.2_RNA	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	261	Extracellular (Potential).|Peptidase M12B.				activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			GTGCTAGTTGGACTGGAGATT	0.373													81	735	---	---	---	---	PASS	C	38880712	C	C	38880712	3	2	88	1	0	0	0	0	1	0	0	0	253	1174	41	2	816	2	ADAM9	8	38880712	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	48115	38880712	107483310	107	33379			3	40		3	3	107	G		2.990782e-07
ADAM9	8754	broad.mit.edu	37	chr8	38880725	38880725	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ctagttggactggagatttgGaccaatggaaacctgatcaa	11	7	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr8:38880725G>C	uc003xmr.2	+	9	873	c.795G>C	c.(793-795)TGG>TGC	p.W265C	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_RNA|ADAM9_uc010lwr.2_RNA	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	265	Extracellular (Potential).|Peptidase M12B.				activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			TGGAGATTTGGACCAATGGAA	0.398													197	651	---	---	---	---	PASS	C	38880725	C	C	38880725	3	2	88	1	0	0	0	0	1	0	0	0	253	1183	41	2	829	2	ADAM9	8	38880725	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	13	38880725	107483297	108	33380			3	40		3	3	107	G		2.990782e-07
ADAM9	8754	broad.mit.edu	37	chr8	38880818	38880818	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aagtttcttatcacacgtcgGagacatgacagtgcacagct	9	10	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr8:38880818G>C	uc003xmr.2	+	9	966	c.888G>C	c.(886-888)CGG>CGC	p.R296R	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_RNA|ADAM9_uc010lwr.2_RNA	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	296	Extracellular (Potential).|Peptidase M12B.				activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			TCACACGTCGGAGACATGACA	0.348													82	525	---	---	---	---	PASS	C	38880818	C	C	38880818	2	2	88	1	0	0	0	0	0	0	0	1	253	1161	41	2		2	ADAM9	8	38880818	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	93	38880818	107483204	109	33381			3	40		3	3	107	G		2.990782e-07
IKBKB	3551	broad.mit.edu	37	chr8	42176941	42176941	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	caaaccgagtttgggatcagTgagtgtgcactttgcaatga	12	7	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr8:42176941T>G	uc003xow.1	+	14	1693	c.1516_splice	c.e14+2	p.T506_splice	IKBKB_uc010lxh.1_Missense_Mutation_p.S401R|IKBKB_uc011lco.1_Splice_Site|IKBKB_uc010lxj.1_Splice_Site_p.T283_splice|IKBKB_uc003xox.1_Splice_Site_p.T227_splice|IKBKB_uc011lcp.1_Splice_Site|IKBKB_uc011lcq.1_Splice_Site_p.T504_splice|IKBKB_uc010lxi.1_Splice_Site|IKBKB_uc011lcr.1_Splice_Site_p.T447_splice	NM_001556	NP_001547	O14920	IKKB_HUMAN	inhibitor of nuclear factor kappa B kinase beta						anti-apoptosis|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|membrane raft	ATP binding|identical protein binding|IkappaB kinase activity			breast(3)|ovary(2)|lung(1)|skin(1)	7	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;6.21e-12)|Lung NSC(13;1.04e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;1.37e-10)|Colorectal(10;0.00102)|OV - Ovarian serous cystadenocarcinoma(14;0.00168)|Lung(22;0.00467)|LUSC - Lung squamous cell carcinoma(45;0.024)|COAD - Colon adenocarcinoma(11;0.0264)		Arsenic trioxide(DB01169)|Auranofin(DB00995)	TTGGGATCAGTGAGTGTGCAC	0.393											OREG0018747	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	168	---	---	---	---	PASS	G	42176941	G	G	42176941	5	3	88	1	0	0	0	0	0	0	1	0	7611	1710	59	5	1568	5	IKBKB	8	42176941	Splice_Site	SNP	T	TCGA-39-5028-01A-01D-1441-08	3296123	42176941	104187081	110	33382										
RP1	6101	broad.mit.edu	37	chr8	55541754	55541754	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tggcaatgcagacaccacatCagtggacaccctacttgata	8	12	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr8:55541754C>T	uc003xsd.1	+	4	5460	c.5312C>T	c.(5311-5313)TCA>TTA	p.S1771L	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1771					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GACACCACATCAGTGGACACC	0.438													5	75	---	---	---	---	PASS	T	55541754	T	T	55541754	3	4	88	1	0	0	0	0	1	0	0	0	13532	838	29	2	5322	2	RP1	8	55541754	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	13364813	55541754	90822268	111	33383										
TRHR	7201	broad.mit.edu	37	chr8	110131549	110131549	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tacagtgtggccctaaattaCagcgtcatcaaggagtcaga	10	9	3	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr8:110131549C>G	uc003ymz.3	+	2	1078	c.1062C>G	c.(1060-1062)TAC>TAG	p.Y354*		NM_003301	NP_003292	P34981	TRFR_HUMAN	thyrotropin-releasing hormone receptor	354	Cytoplasmic (Potential).					integral to plasma membrane	thyrotropin-releasing hormone receptor activity			skin(2)|lung(1)	3			OV - Ovarian serous cystadenocarcinoma(57;2.3e-11)			CCCTAAATTACAGCGTCATCA	0.463													65	173	---	---	---	---	PASS	G	110131549	G	G	110131549	4	3	88	1	0	0	0	0	0	1	0	0	16477	489	17	4	1068	4	TRHR	8	110131549	Nonsense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	54589795	110131549	36232473	112	33384										
CSMD3	114788	broad.mit.edu	37	chr8	113420573	113420573	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aaacaaagtgaaatcccttaGctgttattggtccaactgaa	7	8	0	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr8:113420573G>C	uc003ynu.2	-	34	5738	c.5579C>G	c.(5578-5580)GCT>GGT	p.A1860G	CSMD3_uc003yns.2_Intron|CSMD3_uc003ynt.2_Missense_Mutation_p.A1820G|CSMD3_uc011lhx.1_Missense_Mutation_p.A1756G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1860	Extracellular (Potential).|CUB 10.					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						AAATCCCTTAGCTGTTATTGG	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			70	224	---	---	---	---	PASS	C	113420573	C	C	113420573	3	2	88	1	0	0	0	0	1	0	0	0	3946	971	34	4	5696	4	CSMD3	8	113420573	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	3289024	113420573	32943449	113	33385										
COL14A1	7373	broad.mit.edu	37	chr8	121259908	121259908	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aggaatggtataaccggttgCgcattacgtgggacccccca	12	11	0	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr8:121259908C>A	uc003yox.2	+	21	2801	c.2536C>A	c.(2536-2538)CGC>AGC	p.R846S	COL14A1_uc003yoy.2_Missense_Mutation_p.R524S	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	846	Fibronectin type-III 7.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			TAACCGGTTGCGCATTACGTG	0.458													25	177	---	---	---	---	PASS	A	121259908	A	A	121259908	3	1	88	1	0	0	0	0	1	0	0	0	3671	768	27	1	2614	1	COL14A1	8	121259908	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	7839335	121259908	25104114	114	33386										
ZNF623	9831	broad.mit.edu	37	chr8	144732358	144732358	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	agtcaggaagaaaccatattCtgaattcagaccttcttctg	7	9	5	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr8:144732358C>G	uc003yzd.2	+	1	405	c.316C>G	c.(316-318)CTG>GTG	p.L106V	ZNF623_uc011lkp.1_Missense_Mutation_p.L66V|ZNF623_uc003yzc.2_Missense_Mutation_p.L66V	NM_014789	NP_055604	O75123	ZN623_HUMAN	zinc finger protein 623 isoform 1	106					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	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;2.46e-41)|Epithelial(56;5.28e-40)|all cancers(56;5.23e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			AAACCATATTCTGAATTCAGA	0.488													10	194	---	---	---	---	PASS	G	144732358	G	G	144732358	3	3	88	1	0	0	0	0	1	0	0	0	18044	912	32	2	318	2	ZNF623	8	144732358	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	23472450	144732358	1631664	115	33387										
RECQL4	9401	broad.mit.edu	37	chr8	145736871	145736871	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cccaccagggcatggaagctCaggtgcaggtattttctcca	11	12	2	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr8:145736871C>G	uc003zdj.2	-	22	3602	c.3570G>C	c.(3568-3570)CTG>CTC	p.L1190L		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	1190					DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CATGGAAGCTCAGGTGCAGGT	0.647			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				3	124	---	---	---	---	PASS	G	145736871	G	G	145736871	2	3	88	1	0	0	0	0	0	0	0	1	13202	813	29	2		2	RECQL4	8	145736871	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	1004513	145736871	627151	116	33388										
DOCK8	81704	broad.mit.edu	37	chr9	340232	340232	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	actcctgaaatgctgcccgtGaaaccctttcctgaaaaccg	7	14	0	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr9:340232G>C	uc003zgf.2	+	14	1702	c.1590G>C	c.(1588-1590)GTG>GTC	p.V530V	DOCK8_uc011lls.1_Silent_p.V530V|DOCK8_uc010mgu.2_5'UTR|DOCK8_uc010mgv.2_Silent_p.V462V|DOCK8_uc003zgg.2_Silent_p.V462V|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	530	DHR-1.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		TGCTGCCCGTGAAACCCTTTC	0.443													10	141	---	---	---	---	PASS	C	340232	C	C	340232	2	2	88	1	0	0	0	0	0	0	0	1	4693	1277	45	2		2	DOCK8	9	340232	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08		340232	140873199	117	33389										
PSIP1	11168	broad.mit.edu	37	chr9	15466839	15466839	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	catcttgagcatcagatcctCcatttagagtctttgaccct	6	12	3	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr9:15466839C>A	uc003zlv.3	-	15	1769	c.1439G>T	c.(1438-1440)GGA>GTA	p.G480V	PSIP1_uc003zlw.3_Missense_Mutation_p.G480V	NM_033222	NP_150091	O75475	PSIP1_HUMAN	PC4 and SFRS1 interacting protein 1 isoform 2	480					initiation of viral infection|interspecies interaction between organisms|nuclear mRNA 5'-splice site recognition|provirus integration|regulation of transcription, DNA-dependent|response to heat|response to oxidative stress|transcription, DNA-dependent	cytosol|nuclear heterochromatin|nuclear periphery|nucleoplasm|nucleoplasm|transcriptionally active chromatin	activating transcription factor binding|chromatin binding|DNA secondary structure binding|RNA polymerase II transcription coactivator activity			breast(1)	1				GBM - Glioblastoma multiforme(50;2.38e-06)		ATCAGATCCTCCATTTAGAGT	0.408													4	125	---	---	---	---	PASS	A	15466839	A	A	15466839	3	1	88	1	0	0	0	0	1	0	0	0	12663	855	30	2	161	2	PSIP1	9	15466839	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	15126607	15466839	125746592	118	33390										
CDKN2A	1029	broad.mit.edu	37	chr9	21971036	21971036	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gggcagacggccccaggcatCgcgcacgtccagccgcgccc	14	19	0	1	rs121913381		TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr9:21971036C>T	uc003zpk.2	-	2	534	c.322G>A	c.(322-324)GAT>AAT	p.D108N	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.R163Q	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	108			D -> Y (in a head and neck tumor).|D -> H (in a bladder tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.D108Y(14)|p.?(13)|p.D108H(9)|p.D108N(5)|p.H83fs*2(2)|p.D105fs*8(1)|p.A68fs*3(1)|p.R107fs*33(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCCCAGGCATCGCGCACGTCC	0.741		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			10	19	---	---	---	---	PASS	T	21971036	T	T	21971036	3	4	88	1	0	0	0	0	1	0	0	0	3161	884	31	2	156	2	CDKN2A	9	21971036	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	6504197	21971036	119242395	119	33391										
CDC14B	8555	broad.mit.edu	37	chr9	99296825	99296825	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aaatctccattttctgctttCtgcaaggggaagaccagcac	8	11	3	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr9:99296825C>T	uc004awj.2	-	8	1080	c.628_splice	c.e8-1	p.K210_splice	CDC14B_uc004awk.2_Splice_Site_p.K210_splice|CDC14B_uc004awl.2_Splice_Site|CDC14B_uc004awi.2_Splice_Site_p.K173_splice	NM_033331	NP_201588	O60729	CC14B_HUMAN	CDC14 homolog B isoform 2						activation of anaphase-promoting complex activity|DNA repair|G2/M transition DNA damage checkpoint	nucleolus|nucleoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TTTCTGCTTTCTGCAAGGGGA	0.398													12	61	---	---	---	---	PASS	T	99296825	T	T	99296825	5	4	88	1	0	0	0	0	0	0	1	0	3057	927	32	2	897	2	CDC14B	9	99296825	Splice_Site	SNP	C	TCGA-39-5028-01A-01D-1441-08	77325789	99296825	41916606	120	33392										
DDX31	64794	broad.mit.edu	37	chr9	135470306	135470306	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tacacctttttgggtttttcTccattttaatgttttcccac	4	10	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr9:135470306T>A	uc004cbq.1	-	20	2655	c.2503A>T	c.(2503-2505)AGA>TGA	p.R835*	DDX31_uc010mzu.1_Nonsense_Mutation_p.R762*	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	835						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		TGGGTTTTTCTCCATTTTAAT	0.542													8	289	---	---	---	---	PASS	A	135470306	A	A	135470306	4	1	88	1	0	0	0	0	0	1	0	0	4356	1559	54	5	56	5	DDX31	9	135470306	Nonsense_Mutation	SNP	T	TCGA-39-5028-01A-01D-1441-08	36173481	135470306	5743125	121	33393										
C9orf167	54863	broad.mit.edu	37	chr9	140174066	140174066	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cgggtggcgccgaggtcacgCgcttcgtgctgcagaacgcg	17	13	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr9:140174066C>T	uc004cmn.2	+	2	1042	c.925C>T	c.(925-927)CGC>TGC	p.R309C	C9orf167_uc011mew.1_5'Flank	NM_017723	NP_060193	Q9NXH8	CI167_HUMAN	hypothetical protein LOC54863	309					chaperone mediated protein folding requiring cofactor	integral to membrane	ATP binding|nucleoside-triphosphatase activity			pancreas(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.137)	OV - Ovarian serous cystadenocarcinoma(145;9.07e-05)|Epithelial(140;0.000728)		CGAGGTCACGCGCTTCGTGCT	0.726													4	8	---	---	---	---	PASS	T	140174066	T	T	140174066	3	4	88	1	0	0	0	0	1	0	0	0	2468	768	27	1	927	1	C9orf167	9	140174066	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	4703760	140174066	1039365	122	33394										
LARP4B	23185	broad.mit.edu	37	chr10	860896	860896	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	caatactcactcgggtaaatGagctggggagggggatcgct	15	8	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr10:860896G>A	uc001ifs.1	-	15	1851	c.1810C>T	c.(1810-1812)CAT>TAT	p.H604Y		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	604							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						TCGGGTAAATGAGCTGGGGAG	0.532													11	121	---	---	---	---	PASS	A	860896	A	A	860896	3	1	88	1	0	0	0	0	1	0	0	0	8631	1290	45	2	418	2	LARP4B	10	860896	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08		860896	134673851	123	33395										
ITGA8	8516	broad.mit.edu	37	chr10	15686210	15686210	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttgcctgcaaaaggcactccGatggcaatgtctaaaaacag	9	10	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr10:15686210G>T	uc001ioc.1	-	13	1218	c.1218C>A	c.(1216-1218)ATC>ATA	p.I406I	ITGA8_uc010qcb.1_Silent_p.I391I	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	406	Extracellular (Potential).|FG-GAP 6.				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						AAGGCACTCCGATGGCAATGT	0.318													4	71	---	---	---	---	PASS	T	15686210	T	T	15686210	2	4	88	1	0	0	0	0	0	0	0	1	7882	1048	37	2		2	ITGA8	10	15686210	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	14825314	15686210	119848537	124	33396										
ANUBL1	93550	broad.mit.edu	37	chr10	46121646	46121646	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tatcccgagcctcaactttgGaaataacatcagatcttttc	5	11	3	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr10:46121646G>A	uc001jcp.3	-	7	1867	c.1625C>T	c.(1624-1626)TCC>TTC	p.S542F	ANUBL1_uc001jcl.3_Missense_Mutation_p.S62F|ANUBL1_uc001jcm.3_Missense_Mutation_p.S542F|ANUBL1_uc009xmu.2_Missense_Mutation_p.S468F|ANUBL1_uc001jcn.3_Missense_Mutation_p.S468F|ANUBL1_uc001jco.3_Intron	NM_001128324	NP_001121796	Q86XD8	ANUB1_HUMAN	AN1, ubiquitin-like, homolog	542							zinc ion binding				0						CTCAACTTTGGAAATAACATC	0.398													32	197	---	---	---	---	PASS	A	46121646	A	A	46121646	3	1	88	1	0	0	0	0	1	0	0	0	713	1174	41	2	574	2	ANUBL1	10	46121646	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	30435436	46121646	89413101	125	33397										
RTKN2	219790	broad.mit.edu	37	chr10	63959610	63959610	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ataagttcttcacaacagtgCttccattggcctaagacaga	7	10	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr10:63959610C>A	uc001jlw.2	-	11	1294	c.1197G>T	c.(1195-1197)AAG>AAT	p.K399N	RTKN2_uc009xpf.1_Missense_Mutation_p.K201N|RTKN2_uc001jlv.2_Missense_Mutation_p.K53N	NM_145307	NP_660350	Q8IZC4	RTKN2_HUMAN	rhotekin 2	399					signal transduction	intracellular					0	Prostate(12;0.0297)|all_hematologic(501;0.215)					CACAACAGTGCTTCCATTGGC	0.333													21	118	---	---	---	---	PASS	A	63959610	A	A	63959610	3	1	88	1	0	0	0	0	1	0	0	0	13723	796	28	3	640	3	RTKN2	10	63959610	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	17837964	63959610	71575137	126	33398										
TECTB	6975	broad.mit.edu	37	chr10	114044304	114044304	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tctttccagatgtcattcttGtgttttgctatcccaaaacc	5	11	3	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr10:114044304G>C	uc001kzr.1	+	2	88	c.88G>C	c.(88-90)GTG>CTG	p.V30L		NM_058222	NP_478129	Q96PL2	TECTB_HUMAN	tectorin beta precursor	30	ZP.					anchored to membrane|plasma membrane|proteinaceous extracellular matrix					0		Colorectal(252;0.198)		Epithelial(162;0.0143)|all cancers(201;0.0242)		TGTCATTCTTGTGTTTTGCTA	0.458													7	75	---	---	---	---	PASS	C	114044304	C	C	114044304	3	2	88	1	0	0	0	0	1	0	0	0	15745	1377	48	4	94	4	TECTB	10	114044304	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	50084694	114044304	21490443	127	33399										
ZNF195	7748	broad.mit.edu	37	chr11	3381028	3381028	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gaaaggtttccctccaatctCatttctctggtgtttggaag	9	9	2	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:3381028C>G	uc001lxt.2	-	6	1388	c.1210G>C	c.(1210-1212)GAG>CAG	p.E404Q	uc001lxr.2_5'Flank|ZNF195_uc001lxv.2_Missense_Mutation_p.E381Q|ZNF195_uc001lxs.2_Missense_Mutation_p.E332Q|ZNF195_uc010qxr.1_Missense_Mutation_p.E385Q|ZNF195_uc009ydz.2_Missense_Mutation_p.E359Q|ZNF195_uc001lxu.2_Missense_Mutation_p.E336Q	NM_001130520	NP_001123992	O14628	ZN195_HUMAN	zinc finger protein 195 isoform 1	404				Missing (in Ref. 2; BAD18466).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Medulloblastoma(188;0.00106)|Breast(177;0.00328)|all_neural(188;0.00681)|Ovarian(85;0.00965)		BRCA - Breast invasive adenocarcinoma(625;0.0361)|LUSC - Lung squamous cell carcinoma(625;0.2)		CCTCCAATCTCATTTCTCTGG	0.408													14	325	---	---	---	---	PASS	G	3381028	G	G	3381028	3	3	88	1	0	0	0	0	1	0	0	0	17755	835	29	2	683	2	ZNF195	11	3381028	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08		3381028	131625488	128	33400										
OR51E2	81285	broad.mit.edu	37	chr11	4703778	4703778	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gaaagaggtacatcggagcgTgcaggctgcgttccgtcctt	14	10	0	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:4703778T>C	uc001lzk.2	-	2	408	c.164A>G	c.(163-165)CAC>CGC	p.H55R		NM_030774	NP_110401	Q9H255	O51E2_HUMAN	olfactory receptor, family 51, subfamily E,	55	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(3)|ovary(2)	5		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;3e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00476)|LUSC - Lung squamous cell carcinoma(625;0.2)		CATCGGAGCGTGCAGGCTGCG	0.517													30	98	---	---	---	---	PASS	C	4703778	C	C	4703778	3	2	88	1	0	0	0	0	1	0	0	0	11095	1696	59	5	802	5	OR51E2	11	4703778	Missense_Mutation	SNP	T	TCGA-39-5028-01A-01D-1441-08	1322750	4703778	130302738	129	33401										
OR51I1	390063	broad.mit.edu	37	chr11	5462646	5462646	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gagatcatgtagaggatgcaGaaaatcagggcaacccaggt	13	7	2	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:5462646G>C	uc010qze.1	-	1	99	c.99C>G	c.(97-99)TTC>TTG	p.F33L	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,	33	Helical; Name=1; (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)		AGAGGATGCAGAAAATCAGGG	0.527													13	132	---	---	---	---	PASS	C	5462646	C	C	5462646	3	2	88	1	0	0	0	0	1	0	0	0	11100	933	33	2	849	2	OR51I1	11	5462646	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	758868	5462646	129543870	130	33402										
AMPD3	272	broad.mit.edu	37	chr11	10517157	10517157	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggagagcaagtaccagtactCagagccacggctctccatct	10	13	3	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:10517157C>T	uc001mio.1	+	9	1642	c.1307C>T	c.(1306-1308)TCA>TTA	p.S436L	AMPD3_uc010rbz.1_Missense_Mutation_p.S277L|AMPD3_uc001min.1_Missense_Mutation_p.S445L|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.S443L|AMPD3_uc009yfy.2_Missense_Mutation_p.S436L	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	436					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		TACCAGTACTCAGAGCCACGG	0.602													11	60	---	---	---	---	PASS	T	10517157	T	T	10517157	3	4	88	1	0	0	0	0	1	0	0	0	587	838	29	2	1388	2	AMPD3	11	10517157	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	5054511	10517157	124489359	131	33403										
ELP4	26610	broad.mit.edu	37	chr11	31648666	31648666	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tttaccaacagttctttgacCcctggctacacaaagctgct	6	13	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:31648666C>A	uc001mtb.2	+	6	698	c.663C>A	c.(661-663)ACC>ACA	p.T221T	ELP4_uc001mta.1_RNA|ELP4_uc001mtc.2_Silent_p.T221T|ELP4_uc010rdz.1_Silent_p.T222T	NM_019040	NP_061913	Q96EB1	ELP4_HUMAN	elongation protein 4 homolog	221					histone acetylation|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|Elongator holoenzyme complex|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|prostate(1)	3	Lung SC(675;0.225)					GTTCTTTGACCCCTGGCTACA	0.318													17	116	---	---	---	---	PASS	A	31648666	A	A	31648666	2	1	88	1	0	0	0	0	0	0	0	1	5082	610	22	3		3	ELP4	11	31648666	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	21131509	31648666	103357850	132	33404										
DEPDC7	91614	broad.mit.edu	37	chr11	33053045	33053045	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cagacttagtgaaagaacttCtgtttgatgccattggcaga	10	7	1	5			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:33053045C>T	uc001mub.2	+	5	996	c.904C>T	c.(904-906)CTG>TTG	p.L302L	DEPDC7_uc001muc.2_Silent_p.L293L	NM_001077242	NP_001070710	Q96QD5	DEPD7_HUMAN	novel 58.3 KDA protein isoform 1	302					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|skin(1)	2						GAAAGAACTTCTGTTTGATGC	0.398													19	114	---	---	---	---	PASS	T	33053045	T	T	33053045	2	4	88	1	0	0	0	0	0	0	0	1	4444	912	32	2		2	DEPDC7	11	33053045	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	1404379	33053045	101953471	133	33405										
ZFP91	80829	broad.mit.edu	37	chr11	58385039	58385039	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	catactgcagtgggacggaaCgggtgagcctgatggctgat	16	8	0	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:58385039C>A	uc001nmx.3	+	11	1741	c.1573C>A	c.(1573-1575)CGG>AGG	p.R525R	ZFP91_uc001nmy.3_Silent_p.R524R|ZFP91-CNTF_uc010rkm.1_RNA	NM_053023	NP_444251	Q96JP5	ZFP91_HUMAN	zinc finger protein 91	525					activation of NF-kappaB-inducing kinase activity|protein K63-linked ubiquitination	nucleus	nucleic acid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				TGGGACGGAACGGGTGAGCCT	0.423													3	100	---	---	---	---	PASS	A	58385039	A	A	58385039	2	1	88	1	0	0	0	0	0	0	0	1	17652	527	19	1		1	ZFP91	11	58385039	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	25331994	58385039	76621477	134	33406										
ORAOV1	220064	broad.mit.edu	37	chr11	69482722	69482722	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gagtttatcgtaagtagggtCatcataagggaatttctgga	12	4	3	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:69482722C>T	uc001opc.2	-	4	444	c.286G>A	c.(286-288)GAC>AAC	p.D96N	ORAOV1_uc010rqi.1_Missense_Mutation_p.D96N|ORAOV1_uc009ysm.2_RNA|ORAOV1_uc001opd.2_Missense_Mutation_p.D37N	NM_153451	NP_703152	Q8WV07	ORAV1_HUMAN	oral cancer overexpressed 1	96											0	all_cancers(3;5.53e-114)|all_epithelial(3;1.34e-121)|Breast(3;9.28e-34)|all_lung(4;1.99e-21)|Lung NSC(4;4.65e-21)|Hepatocellular(3;6.15e-15)|Melanoma(5;1.89e-05)|Ovarian(3;0.0348)		Epithelial(3;5.64e-57)|all cancers(3;5.98e-51)|BRCA - Breast invasive adenocarcinoma(2;5.49e-48)|Lung(3;1.13e-16)|LUSC - Lung squamous cell carcinoma(11;3.74e-15)|STAD - Stomach adenocarcinoma(18;0.0278)|LUAD - Lung adenocarcinoma(13;0.0537)			TAAGTAGGGTCATCATAAGGG	0.413													20	100	---	---	---	---	PASS	T	69482722	T	T	69482722	3	4	88	1	0	0	0	0	1	0	0	0	11260	826	29	2	135	2	ORAOV1	11	69482722	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	11097683	69482722	65523794	135	33407										
ODZ4	26011	broad.mit.edu	37	chr11	78369355	78369355	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	agctccaggacccgtgccttCtcctcatccaacgttgtccc	7	18	2	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:78369355C>G	uc001ozl.3	-	34	8521	c.8058G>C	c.(8056-8058)GAG>GAC	p.E2686D	ODZ4_uc001ozk.3_Missense_Mutation_p.E911D|ODZ4_uc009yvb.1_Intron	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2686	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CCCGTGCCTTCTCCTCATCCA	0.632													6	21	---	---	---	---	PASS	G	78369355	G	G	78369355	3	3	88	1	0	0	0	0	1	0	0	0	10837	912	32	2	255	2	ODZ4	11	78369355	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	8886633	78369355	56637161	136	33408										
TMEM135	65084	broad.mit.edu	37	chr11	87025542	87025542	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	caggtatatcaatgatgtttTataaaagcacaacaatttcc	5	7	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:87025542T>C	uc001pch.2	+	12	1053	c.1030T>C	c.(1030-1032)TAT>CAT	p.Y344H	TMEM135_uc010rtt.1_Missense_Mutation_p.Y205H|TMEM135_uc001pci.2_Missense_Mutation_p.Y322H	NM_022918	NP_075069	Q86UB9	TM135_HUMAN	transmembrane protein 135	344	Helical; (Potential).					integral to membrane					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				AATGATGTTTTATAAAAGCAC	0.303													17	80	---	---	---	---	PASS	C	87025542	C	C	87025542	3	2	88	1	0	0	0	0	1	0	0	0	16048	1754	61	5	1076	5	TMEM135	11	87025542	Missense_Mutation	SNP	T	TCGA-39-5028-01A-01D-1441-08	8656187	87025542	47980974	137	33409										
BUD13	84811	broad.mit.edu	37	chr11	116633646	116633646	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gagagggatctggtgaatcaTgacggactctcctaggagat	14	7	3	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:116633646T>C	uc001ppn.2	-	4	693	c.659A>G	c.(658-660)CAT>CGT	p.H220R	BUD13_uc001ppo.2_Intron|BUD13_uc009yzc.2_Missense_Mutation_p.H220R	NM_032725	NP_116114	Q9BRD0	BUD13_HUMAN	BUD13 homolog isoform 1	220	Arg-rich.									large_intestine(1)|pancreas(1)	2	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.81e-06)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.154)		TGGTGAATCATGACGGACTCT	0.547													55	171	---	---	---	---	PASS	C	116633646	C	C	116633646	3	2	88	1	0	0	0	0	1	0	0	0	1573	1464	51	5	1228	5	BUD13	11	116633646	Missense_Mutation	SNP	T	TCGA-39-5028-01A-01D-1441-08	29608104	116633646	18372870	138	33410										
CEP164	22897	broad.mit.edu	37	chr11	117244507	117244507	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	catgaaggaaccacagctctCagactccatagcttctgacc	7	14	2	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:117244507C>G	uc001prc.2	+	10	1340	c.1193C>G	c.(1192-1194)TCA>TGA	p.S398*	CEP164_uc001prb.2_Nonsense_Mutation_p.S398*|CEP164_uc010rxk.1_Nonsense_Mutation_p.S372*|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	398					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)		CCACAGCTCTCAGACTCCATA	0.383													10	123	---	---	---	---	PASS	G	117244507	G	G	117244507	4	3	88	1	0	0	0	0	0	1	0	0	3249	838	29	2	1223	2	CEP164	11	117244507	Nonsense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	610861	117244507	17762009	139	33411										
CEP164	22897	broad.mit.edu	37	chr11	117244538	117244538	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gcttctgaccccaagtccttCcatggcctggtgagtttgag	11	12	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:117244538C>T	uc001prc.2	+	10	1371	c.1224C>T	c.(1222-1224)TTC>TTT	p.F408F	CEP164_uc001prb.2_Silent_p.F408F|CEP164_uc010rxk.1_Silent_p.F382F|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	408					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)		CCAAGTCCTTCCATGGCCTGG	0.303													7	87	---	---	---	---	PASS	T	117244538	T	T	117244538	2	4	88	1	0	0	0	0	0	0	0	1	3249	854	30	2		2	CEP164	11	117244538	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	31	117244538	17761978	140	33412										
PVRL1	5818	broad.mit.edu	37	chr11	119545974	119545974	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gatgggtcccttgaagaagaGggttctgttctgggcctcca	14	9	2	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:119545974G>A	uc001pwv.2	-	5	1070	c.898C>T	c.(898-900)CTC>TTC	p.L300F	PVRL1_uc001pwu.1_Missense_Mutation_p.L300F|PVRL1_uc001pww.2_Missense_Mutation_p.L300F	NM_002855	NP_002846	Q15223	PVRL1_HUMAN	poliovirus receptor-related 1 isoform 1	300	Extracellular (Potential).|Ig-like C2-type 2.				adherens junction organization|cell junction assembly|entry of virus into host cell|heterophilic cell-cell adhesion|homophilic cell adhesion|immune response	cell-cell adherens junction|extracellular region|integral to membrane	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0		Breast(348;0.037)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.29e-05)		TTGAAGAAGAGGGTTCTGTTC	0.567													15	86	---	---	---	---	PASS	A	119545974	A	A	119545974	3	1	88	1	0	0	0	0	1	0	0	0	12839	1000	35	3	1109	3	PVRL1	11	119545974	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	2301436	119545974	15460542	141	33413										
OR8A1	390275	broad.mit.edu	37	chr11	124440462	124440462	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ctgctggtggctgtggtctaCgccatcggactcattggctc	13	12	2	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr11:124440462C>T	uc010san.1	+	1	498	c.498C>T	c.(496-498)TAC>TAT	p.Y166Y		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	166	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		CTGTGGTCTACGCCATCGGAC	0.507													15	64	---	---	---	---	PASS	T	124440462	T	T	124440462	2	4	88	1	0	0	0	0	0	0	0	1	11225	547	19	1		1	OR8A1	11	124440462	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	4894488	124440462	10566054	142	33414										
C3AR1	719	broad.mit.edu	37	chr12	8211896	8211896	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gctagaagcgctagggaacaGctttaaatgagtagagagaa	13	5	0	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr12:8211896G>A	uc001qtv.1	-	2	978	c.886C>T	c.(886-888)CTG>TTG	p.L296L		NM_004054	NP_004045	Q16581	C3AR_HUMAN	complement component 3a receptor 1	296	Extracellular (Potential).				blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)		CTAGGGAACAGCTTTAAATGA	0.433													4	128	---	---	---	---	PASS	A	8211896	A	A	8211896	2	1	88	1	0	0	0	0	0	0	0	1	2205	962	34	3		3	C3AR1	12	8211896	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08		8211896	125639999	143	33415										
A2M	2	broad.mit.edu	37	chr12	9221440	9221440	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tcagtgtctgatttgacaccTggaaagcaaaagtcaattaa	8	7	3	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr12:9221440T>C	uc001qvk.1	-	34	4377	c.4264_splice	c.e34-1	p.V1422_splice	A2M_uc001qvj.1_Splice_Site_p.V464_splice|A2M_uc009zgk.1_Splice_Site_p.V1272_splice	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor						blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	ATTTGACACCTGGAAAGCAAA	0.383													10	17	---	---	---	---	PASS	C	9221440	C	C	9221440	5	2	88	1	0	0	0	0	0	0	1	0	4	1594	55	5	174	5	A2M	12	9221440	Splice_Site	SNP	T	TCGA-39-5028-01A-01D-1441-08	1009544	9221440	124630455	144	33416										
CLEC12B	387837	broad.mit.edu	37	chr12	10167165	10167165	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aactcagattcagagaaattGagtcaacttcagaaaaccat	6	8	4	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr12:10167165G>A	uc001qwz.2	+	3	362	c.234G>A	c.(232-234)TTG>TTA	p.L78L	CLEC12B_uc001qwx.1_Silent_p.L78L|CLEC12B_uc001qwy.1_5'UTR|CLEC12B_uc009zhe.2_RNA	NM_001129998	NP_001123470	Q2HXU8	CL12B_HUMAN	C-type lectin domain family 12, member B isoform	78	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity|sugar binding				0						CAGAGAAATTGAGTCAACTTC	0.388													5	80	---	---	---	---	PASS	A	10167165	A	A	10167165	2	1	88	1	0	0	0	0	0	0	0	1	3498	1281	45	2		2	CLEC12B	12	10167165	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	945725	10167165	123684730	145	33417										
PRB3	5544	broad.mit.edu	37	chr12	11420897	11420897	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttgtccttctggctttcccgGacgaggtgggggaccttggg	16	10	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr12:11420897G>A	uc001qzs.2	-	3	324	c.286C>T	c.(286-288)CCG>TCG	p.P96S	PRB4_uc001qzf.1_Intron	NM_006249	NP_006240	Q04118	PRB3_HUMAN	proline-rich protein BstNI subfamily 3	96	10 X 21 AA tandem repeats of [RH]-P-G-K- P-[EQ]-G-[PQS]-P-[PS]-Q-[GE]-G-N-[QK]- [SP]-[QR]-[GR]-P-P-P.|Pro-rich.|3.					extracellular region	Gram-negative bacterial cell surface binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.201)			GGCTTTCCCGGACGAGGTGGG	0.617													47	706	---	---	---	---	PASS	A	11420897	A	A	11420897	3	1	88	1	0	0	0	0	1	0	0	0	12444	1174	41	2	651	2	PRB3	12	11420897	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	1253732	11420897	122430998	146	33418										
MAP3K12	7786	broad.mit.edu	37	chr12	53877249	53877249	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttcagcaggcctgggcacctCcgctctaaagcttgctctcg	10	15	3	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr12:53877249C>G	uc001sdm.1	-	11	1496	c.1398G>C	c.(1396-1398)CGG>CGC	p.R466R	MAP3K12_uc001sdn.1_Silent_p.R499R	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	466					histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						CTGGGCACCTCCGCTCTAAAG	0.567													10	119	---	---	---	---	PASS	G	53877249	G	G	53877249	2	3	88	1	0	0	0	0	0	0	0	1	9246	842	30	2		2	MAP3K12	12	53877249	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	42456352	53877249	79974646	147	33419										
MAP3K12	7786	broad.mit.edu	37	chr12	53877268	53877268	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tccgctctaaagcttgctctCgcctaaagatccaggcacct	7	15	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr12:53877268C>T	uc001sdm.1	-	11	1477	c.1379G>A	c.(1378-1380)CGA>CAA	p.R460Q	MAP3K12_uc001sdn.1_Missense_Mutation_p.R493Q	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	460	Leucine-zipper 2.				histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						AGCTTGCTCTCGCCTAAAGAT	0.582													6	122	---	---	---	---	PASS	T	53877268	T	T	53877268	3	4	88	1	0	0	0	0	1	0	0	0	9246	884	31	2	1220	2	MAP3K12	12	53877268	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	19	53877268	79974627	148	33420										
RDH16	8608	broad.mit.edu	37	chr12	57348692	57348692	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cccatcccagacccatacctGagggagtcagagaaggcttc	10	14	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr12:57348692G>C	uc001smi.3	-	2	742	c.570C>G	c.(568-570)CTC>CTG	p.L190L	RDH16_uc009zpa.2_Intron	NM_003708	NP_003699	O75452	RDH16_HUMAN	retinol dehydrogenase 16	190	Cytoplasmic (Potential).				lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	binding|electron carrier activity|retinol dehydrogenase activity				0						ACCCATACCTGAGGGAGTCAG	0.567													3	58	---	---	---	---	PASS	C	57348692	C	C	57348692	2	2	88	1	0	0	0	0	0	0	0	1	13194	1277	45	2		2	RDH16	12	57348692	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	3471424	57348692	76503203	149	33421										
LTA4H	4048	broad.mit.edu	37	chr12	96415995	96415995	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tttctccatcacgaatagcaCtcataagtgccaccagttct	5	13	4	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr12:96415995C>A	uc001ten.1	-	5	583	c.515G>T	c.(514-516)AGT>ATT	p.S172I	LTA4H_uc010suy.1_Missense_Mutation_p.S134I|LTA4H_uc010suz.1_Missense_Mutation_p.S134I|LTA4H_uc010sva.1_RNA	NM_000895	NP_000886	P09960	LKHA4_HUMAN	leukotriene A4 hydrolase	172					hormone biosynthetic process|inflammatory response|leukotriene biosynthetic process|peptide catabolic process|prostanoid metabolic process|proteolysis	cytosol|nucleus	aminopeptidase activity|epoxide hydrolase activity|leukotriene-A4 hydrolase activity|metallopeptidase activity|protein binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(1)	1						ACGAATAGCACTCATAAGTGC	0.363													3	97	---	---	---	---	PASS	A	96415995	A	A	96415995	3	1	88	1	0	0	0	0	1	0	0	0	9069	565	20	3	1380	3	LTA4H	12	96415995	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	39067303	96415995	37435900	150	33422										
KNTC1	9735	broad.mit.edu	37	chr12	123042029	123042029	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tggcaacaacttgtagacgaCgctaaggaaaatctacataa	8	8	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr12:123042029C>T	uc001ucv.2	+	17	1534	c.1371C>T	c.(1369-1371)GAC>GAT	p.D457D	KNTC1_uc010taf.1_Silent_p.D420D	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	457					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		TTGTAGACGACGCTAAGGAAA	0.393													6	69	---	---	---	---	PASS	T	123042029	T	T	123042029	2	4	88	1	0	0	0	0	0	0	0	1	8428	535	19	1		1	KNTC1	12	123042029	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	26626034	123042029	10809866	151	33423										
TNFRSF19	55504	broad.mit.edu	37	chr13	24190102	24190102	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tccagaaatgcaagccctgtCtggactgcgcagtggtgaac	12	11	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr13:24190102C>G	uc001uov.1	+	4	341	c.277C>G	c.(277-279)CTG>GTG	p.L93V	TNFRSF19_uc001uot.2_Missense_Mutation_p.L93V|TNFRSF19_uc010tcu.1_5'UTR|TNFRSF19_uc001uow.2_Missense_Mutation_p.L93V	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	93	TNFR-Cys 2.|Extracellular (Potential).				apoptosis|induction of apoptosis|JNK cascade	integral to membrane|mitochondrion	tumor necrosis factor receptor activity			kidney(1)|skin(1)	2		all_cancers(29;3.4e-22)|all_epithelial(30;8.75e-19)|all_lung(29;5.09e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00193)|Epithelial(112;0.0137)|OV - Ovarian serous cystadenocarcinoma(117;0.0465)|GBM - Glioblastoma multiforme(144;0.184)|Lung(94;0.19)		CAAGCCCTGTCTGGACTGCGC	0.572													9	123	---	---	---	---	PASS	G	24190102	G	G	24190102	3	3	88	1	0	0	0	0	1	0	0	0	16289	912	32	2	287	2	TNFRSF19	13	24190102	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08		24190102	90979776	152	33424										
DIAPH3	81624	broad.mit.edu	37	chr13	60667807	60667807	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgcatcaccatttcttttttGatactgaagtccttttcccg	5	11	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr13:60667807G>C	uc001vht.2	-	4	669	c.450C>G	c.(448-450)ATC>ATG	p.I150M	DIAPH3_uc001vhw.1_Missense_Mutation_p.I139M|DIAPH3_uc010aed.1_Intron|DIAPH3_uc010aee.1_Missense_Mutation_p.I80M	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	150	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		TTTCTTTTTTGATACTGAAGT	0.318													3	86	---	---	---	---	PASS	C	60667807	C	C	60667807	3	2	88	1	0	0	0	0	1	0	0	0	4520	1280	45	2	3251	2	DIAPH3	13	60667807	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	36477705	60667807	54502071	153	33425										
TMTC4	84899	broad.mit.edu	37	chr13	101316528	101316528	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttgtggctggtgttgctgctCagtctactgccccagaagtc	12	11	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr13:101316528C>A	uc001vou.2	-	3	385	c.225G>T	c.(223-225)CTG>CTT	p.L75L	TMTC4_uc001vot.2_Silent_p.L94L|TMTC4_uc010tja.1_Intron	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	75						integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TGTTGCTGCTCAGTCTACTGC	0.582													4	31	---	---	---	---	PASS	A	101316528	A	A	101316528	2	1	88	1	0	0	0	0	0	0	0	1	16260	813	29	2		2	TMTC4	13	101316528	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	40648721	101316528	13853350	154	33426										
POTEG	404785	broad.mit.edu	37	chr14	19566062	19566062	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aaaacagatgctaaaagtctCttctgaaaacagcaatccag	6	9	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr14:19566062C>A	uc001vuz.1	+	6	1158	c.1106C>A	c.(1105-1107)TCT>TAT	p.S369Y	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA|uc001vvb.2_Intron	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	369										ovary(1)	1						CTAAAAGTCTCTTCTGAAAAC	0.214													11	537	---	---	---	---	PASS	A	19566062	A	A	19566062	3	1	88	1	0	0	0	0	1	0	0	0	12266	913	32	2	1128	2	POTEG	14	19566062	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08		19566062	87783478	155	33427										
OR6S1	341799	broad.mit.edu	37	chr14	21109188	21109188	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	actgccagcacaatgaggccGtaggacacagcagtgatcag	12	11	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr14:21109188G>T	uc001vxv.1	-	1	663	c.663C>A	c.(661-663)TAC>TAA	p.Y221*		NM_001001968	NP_001001968	Q8NH40	OR6S1_HUMAN	olfactory receptor, family 6, subfamily S,	221	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00304)		Epithelial(56;1.23e-06)|all cancers(55;1.01e-05)	GBM - Glioblastoma multiforme(265;0.0135)		CAATGAGGCCGTAGGACACAG	0.557													9	129	---	---	---	---	PASS	T	21109188	T	T	21109188	4	4	88	1	0	0	0	0	0	1	0	0	11209	1140	40	1	336	1	OR6S1	14	21109188	Nonsense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	1543126	21109188	86240352	156	33428										
OR10G2	26534	broad.mit.edu	37	chr14	22102926	22102926	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gaggaggcttcttagatttgGggggtgagacaaacccagaa	15	6	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr14:22102926G>T	uc010tmc.1	-	1	73	c.73C>A	c.(73-75)CCA>ACA	p.P25T		NM_001005466	NP_001005466	Q8NGC3	O10G2_HUMAN	olfactory receptor, family 10, subfamily G,	25	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(95;0.00113)	Acute lymphoblastic leukemia(2;0.0279)		GBM - Glioblastoma multiforme(265;0.0142)		CTTAGATTTGGGGGGTGAGAC	0.478													23	134	---	---	---	---	PASS	T	22102926	T	T	22102926	3	4	88	1	0	0	0	0	1	0	0	0	10899	1232	43	3	862	3	OR10G2	14	22102926	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	993738	22102926	85246614	157	33429										
PSMB11	122706	broad.mit.edu	37	chr14	23512009	23512009	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cggcgtgctagaccgtggctAtcgctacgacatgagcaccc	12	14	0	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr14:23512009A>T	uc010ake.1	+	1	634	c.575A>T	c.(574-576)TAT>TTT	p.Y192F		NM_001099780	NP_001093250	A5LHX3	PSB11_HUMAN	proteasome beta 11 subunit precursor	192					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|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00643)		GACCGTGGCTATCGCTACGAC	0.627													19	61	---	---	---	---	PASS	T	23512009	T	T	23512009	3	4	88	1	0	0	0	0	1	0	0	0	12676	449	16	5	577	5	PSMB11	14	23512009	Missense_Mutation	SNP	A	TCGA-39-5028-01A-01D-1441-08	1409083	23512009	83837531	158	33430										
C14orf104	55172	broad.mit.edu	37	chr14	50092567	50092567	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	attttccaagtatcatttgaGaaacatcaagagactcttgt	6	7	3	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr14:50092567G>A	uc001wws.3	-	3	2288	c.2207C>T	c.(2206-2208)TCT>TTT	p.S736F	SDCCAG1_uc010anj.1_Intron|C14orf104_uc001wwt.3_Missense_Mutation_p.S688F	NM_018139	NP_060609	Q9NVR5	KTU_HUMAN	kintoun isoform 1	736					axonemal dynein complex assembly|ciliary cell motility|flagellar cell motility	cytoplasm					0	all_epithelial(31;0.0021)|Breast(41;0.0124)					TATCATTTGAGAAACATCAAG	0.328									Kartagener_syndrome				11	95	---	---	---	---	PASS	A	50092567	A	A	50092567	3	1	88	1	0	0	0	0	1	0	0	0	1736	942	33	2	310	2	C14orf104	14	50092567	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	26580558	50092567	57256973	159	33431										
DLGAP5	9787	broad.mit.edu	37	chr14	55618609	55618609	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ccagcaagaagaggcaaactCattctctcactggataaaca	7	11	3	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr14:55618609C>A	uc001xbs.2	-	17	2389	c.2172G>T	c.(2170-2172)ATG>ATT	p.M724I	DLGAP5_uc001xbt.2_Missense_Mutation_p.M724I	NM_014750	NP_055565	Q15398	DLGP5_HUMAN	discs large homolog 7 isoform a	724					cell proliferation|cell-cell signaling|mitotic chromosome movement towards spindle pole|positive regulation of mitotic metaphase/anaphase transition	nucleus|spindle pole centrosome	phosphoprotein phosphatase activity|protein binding			ovary(1)|skin(1)	2						GAGGCAAACTCATTCTCTCAC	0.328													27	100	---	---	---	---	PASS	A	55618609	A	A	55618609	3	1	88	1	0	0	0	0	1	0	0	0	4563	826	29	2	475	2	DLGAP5	14	55618609	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	5526042	55618609	51730931	160	33432										
GALNTL1	57452	broad.mit.edu	37	chr14	69799873	69799873	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	agatgacccggacagaccccAccaggcccataaggtcagag	11	14	1	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr14:69799873A>G	uc010aqu.1	+	8	943	c.850A>G	c.(850-852)ACC>GCC	p.T284A	GALNTL1_uc001xla.1_Missense_Mutation_p.T284A|GALNTL1_uc001xlb.1_Missense_Mutation_p.T284A	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	284	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		GACAGACCCCACCAGGCCCAT	0.617													18	76	---	---	---	---	PASS	G	69799873	G	G	69799873	3	3	88	1	0	0	0	0	1	0	0	0	6221	159	6	5	880	5	GALNTL1	14	69799873	Missense_Mutation	SNP	A	TCGA-39-5028-01A-01D-1441-08	14181264	69799873	37549667	161	33433										
PSEN1	5663	broad.mit.edu	37	chr14	73685865	73685865	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttgtgccttacattattactCcttgccattttcaagaaagc	5	10	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr14:73685865C>T	uc001xnr.2	+	12	1556	c.1272C>T	c.(1270-1272)CTC>CTT	p.L424L	PSEN1_uc001xnv.2_Silent_p.L420L|PSEN1_uc010ark.2_Silent_p.L420L|PSEN1_uc001xnu.2_RNA	NM_000021	NP_000012	P49768	PSN1_HUMAN	presenilin 1 isoform I-467	424	Required for interaction with CTNNB1.|Poly-Leu.|Helical; (Potential).				amyloid precursor protein catabolic process|anti-apoptosis|beta-amyloid metabolic process|cell-cell adhesion|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|smooth endoplasmic reticulum calcium ion homeostasis	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|gamma-secretase complex|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum|smooth endoplasmic reticulum|Z disc	aspartic-type endopeptidase activity|beta-catenin binding|cadherin binding|calcium channel activity|PDZ domain binding			breast(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.075)		CATTATTACTCCTTGCCATTT	0.398													30	377	---	---	---	---	PASS	T	73685865	T	T	73685865	2	4	88	1	0	0	0	0	0	0	0	1	12650	842	30	2		2	PSEN1	14	73685865	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	3885992	73685865	33663675	162	33434										
C14orf118	55668	broad.mit.edu	37	chr14	76633045	76633045	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	agcagcagtgacactgggctCtttaccaatgatgaagggcg	13	9	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr14:76633045C>G	uc001xsh.2	+	3	788	c.702C>G	c.(700-702)CTC>CTG	p.L234L	C14orf118_uc001xsi.2_Silent_p.L234L|C14orf118_uc001xsj.1_Silent_p.L234L|C14orf118_uc001xsk.1_Silent_p.L234L|C14orf118_uc001xsl.2_RNA	NM_017926	NP_060396	Q9NWQ4	CN118_HUMAN	hypothetical protein LOC55668 isoform 1	234										ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.0172)		ACACTGGGCTCTTTACCAATG	0.428													9	48	---	---	---	---	PASS	G	76633045	G	G	76633045	2	3	88	1	0	0	0	0	0	0	0	1	1741	900	32	2		2	C14orf118	14	76633045	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	2947180	76633045	30716495	163	33435										
DICER1	23405	broad.mit.edu	37	chr14	95590807	95590807	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	agttacaaatttcaggtcaaGtgaggcaggtgagaagtgct	13	5	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr14:95590807G>C	uc001ydw.2	-	9	1284	c.1102C>G	c.(1102-1104)CTT>GTT	p.L368V	DICER1_uc001ydv.2_Missense_Mutation_p.L358V|DICER1_uc001ydx.2_Missense_Mutation_p.L368V	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	368	Required for interaction with PRKRA and TARBP2.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		TTCAGGTCAAGTGAGGCAGGT	0.393			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				30	229	---	---	---	---	PASS	C	95590807	C	C	95590807	3	2	88	1	0	0	0	0	1	0	0	0	4521	1029	36	4	4746	4	DICER1	14	95590807	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	18957762	95590807	11758733	164	33436										
VPS39	23339	broad.mit.edu	37	chr15	42453899	42453899	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cctgttcccaatcttcttctTacacaccatgcacaccttct	2	17	4	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr15:42453899T>C	uc001zpd.2	-	25	2717	c.2566A>G	c.(2566-2568)AAG>GAG	p.K856E	VPS39_uc001zpc.2_Missense_Mutation_p.K845E|VPS39_uc001zpb.2_Missense_Mutation_p.K191E	NM_015289	NP_056104	Q96JC1	VPS39_HUMAN	vacuolar protein sorting 39	856					protein transport	HOPS complex|late endosome membrane|lysosomal membrane	small GTPase regulator activity			ovary(1)|pancreas(1)|skin(1)	3		all_cancers(109;6.78e-16)|all_epithelial(112;1.81e-14)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;3.05e-06)		ATCTTCTTCTTACACACCATG	0.527													13	324	---	---	---	---	PASS	C	42453899	C	C	42453899	3	2	88	1	0	0	0	0	1	0	0	0	17206	1763	61	5	102	5	VPS39	15	42453899	Missense_Mutation	SNP	T	TCGA-39-5028-01A-01D-1441-08		42453899	60077493	165	33437										
MAP1A	4130	broad.mit.edu	37	chr15	43817909	43817909	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggctttagaacaaaagggcaGagacttagagcaaaaagaca	11	6	0	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr15:43817909G>A	uc001zrt.2	+	4	4705	c.4238G>A	c.(4237-4239)AGA>AAA	p.R1413K		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1413						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	CAAAAGGGCAGAGACTTAGAG	0.453													4	102	---	---	---	---	PASS	A	43817909	A	A	43817909	3	1	88	1	0	0	0	0	1	0	0	0	9227	942	33	2	4240	2	MAP1A	15	43817909	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	1364010	43817909	58713483	166	33438										
MYO5C	55930	broad.mit.edu	37	chr15	52510865	52510865	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cttctctttggtatgtatttCattttgggcttccaaggccc	8	10	2	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr15:52510865C>G	uc010bff.2	-	32	3942	c.3805G>C	c.(3805-3807)GAA>CAA	p.E1269Q	MYO5C_uc010uga.1_RNA	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	1269	Potential.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		GTATGTATTTCATTTTGGGCT	0.433													18	56	---	---	---	---	PASS	G	52510865	G	G	52510865	3	3	88	1	0	0	0	0	1	0	0	0	10080	835	29	2	1463	2	MYO5C	15	52510865	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	8692956	52510865	50020527	167	33439										
UNC13C	440279	broad.mit.edu	37	chr15	54793157	54793157	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tcctgaagcattatctcactTaatgagaagatttgcaaagg	8	7	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr15:54793157T>A	uc002ack.2	+	20	5282	c.5282T>A	c.(5281-5283)TTA>TAA	p.L1761*		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1761	MHD1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TTATCTCACTTAATGAGAAGA	0.368													37	159	---	---	---	---	PASS	A	54793157	A	A	54793157	4	1	88	1	0	0	0	0	0	1	0	0	16983	1764	61	5	5360	5	UNC13C	15	54793157	Nonsense_Mutation	SNP	T	TCGA-39-5028-01A-01D-1441-08	2282292	54793157	47738235	168	33440										
MYO9A	4649	broad.mit.edu	37	chr15	72338400	72338400	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aattttttcatgcttaaagcGatttcgtaggttttctaaga	7	5	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr15:72338400G>A	uc002atl.3	-	2	978	c.505C>T	c.(505-507)CGC>TGC	p.R169C	MYO9A_uc010biq.2_Intron|MYO9A_uc002ato.2_Missense_Mutation_p.R169C|MYO9A_uc002atn.1_Missense_Mutation_p.R169C	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	169	Myosin head-like 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						TGCTTAAAGCGATTTCGTAGG	0.328													10	99	---	---	---	---	PASS	A	72338400	A	A	72338400	3	1	88	1	0	0	0	0	1	0	0	0	10084	1058	37	2	7305	2	MYO9A	15	72338400	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	17545243	72338400	30192992	169	33441										
C15orf27	123591	broad.mit.edu	37	chr15	76452464	76452464	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gcattccagtttgctggcgtGattcactggatcagcctggt	12	10	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr15:76452464G>A	uc002bbq.2	+	5	566	c.411G>A	c.(409-411)GTG>GTA	p.V137V	C15orf27_uc010bkp.2_5'UTR|C15orf27_uc002bbr.2_5'UTR	NM_152335	NP_689548	Q2M3C6	CO027_HUMAN	hypothetical protein LOC123591	137	Helical; (Potential).					integral to membrane					0						TTGCTGGCGTGATTCACTGGA	0.537													22	281	---	---	---	---	PASS	A	76452464	A	A	76452464	2	1	88	1	0	0	0	0	0	0	0	1	1788	1277	45	2		2	C15orf27	15	76452464	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	4114064	76452464	26078928	170	33442										
SLC28A1	9154	broad.mit.edu	37	chr15	85487987	85487987	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ccaccactttccctctacagGgatcctctacatgcccaggg	7	17	2	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr15:85487987G>T	uc002blg.2	+	18	1965	c.1763G>T	c.(1762-1764)GGG>GTG	p.G588V	SLC28A1_uc010bnb.2_Missense_Mutation_p.G588V|SLC28A1_uc010upe.1_Missense_Mutation_p.G422V|SLC28A1_uc010upf.1_Missense_Mutation_p.G588V|SLC28A1_uc010upg.1_Intron	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	588	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CCCTCTACAGGGATCCTCTAC	0.597													18	104	---	---	---	---	PASS	T	85487987	T	T	85487987	3	4	88	1	0	0	0	0	1	0	0	0	14531	1246	43	3	1896	3	SLC28A1	15	85487987	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	9035523	85487987	17043405	171	33443										
PALB2	79728	broad.mit.edu	37	chr16	23614875	23614875	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cacaaaagaccaatgttggtCagagacaggtgggaggaggg	16	6	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr16:23614875C>G	uc002dlx.1	-	13	3666	c.3466G>C	c.(3466-3468)GAC>CAC	p.D1156H		NM_024675	NP_078951	Q86YC2	PALB2_HUMAN	partner and localizer of BRCA2	1156	Interaction with RAD51 and BRCA2.|WD 7.				double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)		CAATGTTGGTCAGAGACAGGT	0.438			F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				14	147	---	---	---	---	PASS	G	23614875	G	G	23614875	3	3	88	1	0	0	0	0	1	0	0	0	11406	826	29	2	98	2	PALB2	16	23614875	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08		23614875	66739878	172	33444										
ARL2BP	23568	broad.mit.edu	37	chr16	57282555	57282555	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	acacctatttttaatgaataCgtaagtagatttctatgtct	5	6	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr16:57282555C>A	uc002elf.1	+	3	449	c.207C>A	c.(205-207)TAC>TAA	p.Y69*	ARL2BP_uc010ccy.1_RNA|ARL2BP_uc010vhl.1_Nonsense_Mutation_p.Y69*	NM_012106	NP_036238	Q9Y2Y0	AR2BP_HUMAN	binder of Arl Two	69					maintenance of protein location in nucleus|positive regulation of tyrosine phosphorylation of Stat3 protein|signal transduction	centrosome|midbody|mitochondrial intermembrane space|nucleus|spindle	protein binding|small GTPase regulator activity|transcription coactivator activity				0						TTAATGAATACGTAAGTAGAT	0.318													4	127	---	---	---	---	PASS	A	57282555	A	A	57282555	4	1	88	1	0	0	0	0	0	1	0	0	934	550	19	1	217	1	ARL2BP	16	57282555	Nonsense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	33667680	57282555	33072198	173	33445										
KATNB1	10300	broad.mit.edu	37	chr16	57778365	57778365	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ctcaacacccccgaggagctCatcgtggccggctctcagtc	10	17	3	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr16:57778365C>G	uc002eml.1	+	4	605	c.231C>G	c.(229-231)CTC>CTG	p.L77L		NM_005886	NP_005877	Q9BVA0	KTNB1_HUMAN	katanin p80 subunit B 1	77	WD 2.|Interaction with centrosomes.|Interaction with dynein (By similarity).				cell division|mitosis|negative regulation of microtubule depolymerization|positive regulation of microtubule depolymerization|protein targeting	katanin complex|microtubule|spindle pole	microtubule binding|protein heterodimerization activity				0		all_neural(199;0.223)				CCGAGGAGCTCATCGTGGCCG	0.642													10	115	---	---	---	---	PASS	G	57778365	G	G	57778365	2	3	88	1	0	0	0	0	0	0	0	1	7987	813	29	2		2	KATNB1	16	57778365	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	495810	57778365	32576388	174	33446										
CA5A	763	broad.mit.edu	37	chr16	87960375	87960375	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgatgcctcggtggcatcgtCaaattccacctggaagaggt	12	10	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr16:87960375C>T	uc002fkn.1	-	2	375	c.319G>A	c.(319-321)GAC>AAC	p.D107N		NM_001739	NP_001730	P35218	CAH5A_HUMAN	carbonic anhydrase VA, mitochondrial precursor	107					one-carbon metabolic process	mitochondrial matrix	carbonate dehydratase activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0513)		GTGGCATCGTCAAATTCCACC	0.592													16	67	---	---	---	---	PASS	T	87960375	T	T	87960375	3	4	88	1	0	0	0	0	1	0	0	0	2519	826	29	2	622	2	CA5A	16	87960375	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	30182010	87960375	2394378	175	33447										
TP53	7157	broad.mit.edu	37	chr17	7577105	7577105	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ctgtgcgccggtctctcccaGgacaggcacaaacacgcacc	10	17	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:7577105G>A	uc002gim.2	-	8	1027	c.833C>T	c.(832-834)CCT>CTT	p.P278L	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.P278L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.P146L|TP53_uc010cng.1_Missense_Mutation_p.P146L|TP53_uc002gii.1_Missense_Mutation_p.P146L|TP53_uc010cnh.1_Missense_Mutation_p.P278L|TP53_uc010cni.1_Missense_Mutation_p.P278L|TP53_uc002gij.2_Missense_Mutation_p.P278L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	278	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|P -> S (in LFS; germline mutation and in sporadic cancers; somatic mutation).|P -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|P -> H (in sporadic cancers; somatic mutation).|P -> R (in sporadic cancers; somatic mutation).|P -> T (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P278L(52)|p.P278S(48)|p.P278R(26)|p.P278T(21)|p.P278A(17)|p.P278H(11)|p.0?(7)|p.P278fs*67(5)|p.P278F(3)|p.P278fs*28(2)|p.?(2)|p.A276_R283delACPGRDRR(1)|p.A276fs*64(1)|p.V274_P278del(1)|p.P278P(1)|p.C277_P278insXXXXXXX(1)|p.F270_D281del12(1)|p.P278_G279insXXXXX(1)|p.C275_R283delCACPGRDRR(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.V272_K292del21(1)|p.C275fs*20(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)		GTCTCTCCCAGGACAGGCACA	0.552		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			5	46	---	---	---	---	PASS	A	7577105	A	A	7577105	3	1	88	1	0	0	0	0	1	0	0	0	16378	1000	35	3	453	3	TP53	17	7577105	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08		7577105	73618105	176	33448										
DNAH2	146754	broad.mit.edu	37	chr17	7678290	7678290	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	catcaagttgctgagaatccAgaaggtcagtagaagtggcc	12	8	2	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:7678290A>T	uc002giu.1	+	28	4729	c.4715A>T	c.(4714-4716)CAG>CTG	p.Q1572L		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1572	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CTGAGAATCCAGAAGGTCAGT	0.537													12	66	---	---	---	---	PASS	T	7678290	T	T	7678290	3	4	88	1	0	0	0	0	1	0	0	0	4602	188	7	5	4825	5	DNAH2	17	7678290	Missense_Mutation	SNP	A	TCGA-39-5028-01A-01D-1441-08	101185	7678290	73516920	177	33449										
GLP2R	9340	broad.mit.edu	37	chr17	9792918	9792918	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgggcgcccagccccaacagGaccatgcacgctggccccgg	13	18	0	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:9792918G>T	uc002gmd.1	+	13	1558	c.1558G>T	c.(1558-1560)GAC>TAC	p.D520Y		NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	520	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	GCCCCAACAGGACCATGCACG	0.622													4	37	---	---	---	---	PASS	T	9792918	T	T	9792918	3	4	88	1	0	0	0	0	1	0	0	0	6453	1174	41	2	1608	2	GLP2R	17	9792918	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	2114628	9792918	71402292	178	33450										
MYH13	8735	broad.mit.edu	37	chr17	10216513	10216513	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tctgtgcgctgaatggcgtcCgtctcgtatttggtcctcca	11	12	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:10216513C>T	uc002gmk.1	-	30	4233	c.4143G>A	c.(4141-4143)ACG>ACA	p.T1381T		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1381	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GAATGGCGTCCGTCTCGTATT	0.627													7	211	---	---	---	---	PASS	T	10216513	T	T	10216513	2	4	88	1	0	0	0	0	0	0	0	1	10032	639	23	1		1	MYH13	17	10216513	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	423595	10216513	70978697	179	33451										
RAI1	10743	broad.mit.edu	37	chr17	17701460	17701460	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aggcacctgtgaggaggcctCgctgccgcttgagagaacac	14	12	0	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:17701460C>T	uc002grm.2	+	3	5667	c.5198C>T	c.(5197-5199)TCG>TTG	p.S1733L	RAI1_uc002grn.1_Missense_Mutation_p.S1733L	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1733						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		GAGGAGGCCTCGCTGCCGCTT	0.642													6	55	---	---	---	---	PASS	T	17701460	T	T	17701460	3	4	88	1	0	0	0	0	1	0	0	0	13007	893	31	2	5200	2	RAI1	17	17701460	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	7484947	17701460	63493750	180	33452										
KIAA0100	9703	broad.mit.edu	37	chr17	26942236	26942236	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggacctcagagcctgttgcaGacttcagccttagcttctct	9	13	3	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:26942236G>C	uc002hbu.2	-	39	6653	c.6554C>G	c.(6553-6555)TCT>TGT	p.S2185C	SGK494_uc010waq.1_5'Flank|SGK494_uc010war.1_5'Flank|SGK494_uc002hbr.1_5'Flank|uc002hbs.1_Intron|KIAA0100_uc002hbt.2_Missense_Mutation_p.S514C	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	2185				S -> P (in Ref. 8; AAQ93061).		extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					GCCTGTTGCAGACTTCAGCCT	0.448													5	113	---	---	---	---	PASS	C	26942236	C	C	26942236	3	2	88	1	0	0	0	0	1	0	0	0	8154	942	33	2	157	2	KIAA0100	17	26942236	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	9240776	26942236	54252974	181	33453										
CCL14	6358	broad.mit.edu	37	chr17	34311404	34311404	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gcttggagcactggctgttgGtctcatagtaatccataatc	10	9	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:34311404G>C	uc010wcr.1	-	2	243	c.164C>G	c.(163-165)ACC>AGC	p.T55S	CCL16_uc002hkl.2_5'Flank|CCL16_uc002hkm.2_5'Flank|CCL14_uc010wcq.1_Missense_Mutation_p.T71S|CCL14_uc002hkn.2_RNA|CCL14-CCL15_uc010wcs.1_RNA|CCL14-CCL15_uc010wct.1_RNA|uc002hkq.2_5'Flank	NM_032963	NP_116739	Q16627	CCL14_HUMAN	chemokine (C-C motif) ligand 14 isoform 1	55					cellular calcium ion homeostasis|immune response|positive regulation of cell proliferation	extracellular space	chemokine activity|signal transducer activity				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CTGGCTGTTGGTCTCATAGTA	0.577													13	65	---	---	---	---	PASS	C	34311404	C	C	34311404	3	2	88	1	0	0	0	0	1	0	0	0	2885	1261	44	4	125	4	CCL14	17	34311404	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	7369168	34311404	46883806	182	33454										
CDC6	990	broad.mit.edu	37	chr17	38447541	38447541	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cacaacaaattctgagcagaGatgtccactgaagaaagaat	8	8	1	5			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:38447541G>C	uc002huj.1	+	3	620	c.410G>C	c.(409-411)AGA>ACA	p.R137T		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	137					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						TCTGAGCAGAGATGTCCACTG	0.383													10	101	---	---	---	---	PASS	C	38447541	C	C	38447541	3	2	88	1	0	0	0	0	1	0	0	0	3083	942	33	2	416	2	CDC6	17	38447541	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	4136137	38447541	42747669	183	33455										
COASY	80347	broad.mit.edu	37	chr17	40714959	40714959	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgcccacctcagtccagaatCtcgcccacccgccagaagtc	7	19	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:40714959C>T	uc002hzz.2	+	2	476	c.319C>T	c.(319-321)CTC>TTC	p.L107F	COASY_uc010cyj.2_Missense_Mutation_p.L136F|COASY_uc002iab.2_5'UTR|COASY_uc002iad.2_Missense_Mutation_p.L107F|COASY_uc002iac.2_Missense_Mutation_p.L107F|COASY_uc002iae.2_5'Flank	NM_001042529	NP_001035994	Q13057	COASY_HUMAN	coenzyme A synthase isoform a	107					coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial outer membrane	ATP binding|dephospho-CoA kinase activity|pantetheine-phosphate adenylyltransferase activity				0		all_cancers(22;1.06e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)		AGTCCAGAATCTCGCCCACCC	0.577													59	240	---	---	---	---	PASS	T	40714959	T	T	40714959	3	4	88	1	0	0	0	0	1	0	0	0	3652	913	32	2	412	2	COASY	17	40714959	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	2267418	40714959	40480251	184	33456										
CNTNAP1	8506	broad.mit.edu	37	chr17	40843901	40843901	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tccgtgccaaccacagcctgGatgtctccttctacttcagg	8	15	3	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:40843901G>A	uc002iay.2	+	16	2638	c.2422G>A	c.(2422-2424)GAT>AAT	p.D808N	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	808	Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		CCACAGCCTGGATGTCTCCTT	0.577													78	380	---	---	---	---	PASS	A	40843901	A	A	40843901	3	1	88	1	0	0	0	0	1	0	0	0	3646	1174	41	2	2484	2	CNTNAP1	17	40843901	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	128942	40843901	40351309	185	33457										
BRCA1	672	broad.mit.edu	37	chr17	41246585	41246585	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	catgtttccttacttccagcCcatctgttatgttggctcct	6	13	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:41246585C>A	uc002icq.2	-	10	1195	c.963G>T	c.(961-963)TGG>TGT	p.W321C	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.W250C|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.W274C|BRCA1_uc002ict.2_Missense_Mutation_p.W321C|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.W321C|BRCA1_uc002ide.1_Missense_Mutation_p.W152C|BRCA1_uc010cyy.1_Missense_Mutation_p.W321C|BRCA1_uc010whs.1_Missense_Mutation_p.W321C|BRCA1_uc010cyz.2_Missense_Mutation_p.W274C|BRCA1_uc010cza.2_Missense_Mutation_p.W295C|BRCA1_uc010wht.1_Missense_Mutation_p.W25C	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	321					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TACTTCCAGCCCATCTGTTAT	0.408			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			20	231	---	---	---	---	PASS	A	41246585	A	A	41246585	3	1	88	1	0	0	0	0	1	0	0	0	1498	624	22	3	4754	3	BRCA1	17	41246585	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	402684	41246585	39948625	186	33458										
PLEKHM1	9842	broad.mit.edu	37	chr17	43515290	43515290	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cgggggcagcccttcttcacCacagcctggcagctctggtg	13	15	3	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:43515290C>A	uc002ija.2	-	12	3275	c.3105G>T	c.(3103-3105)GTG>GTT	p.V1035V	PLEKHM1_uc010wjm.1_Silent_p.V1007V|PLEKHM1_uc002ijb.2_Silent_p.V510V	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	1035	Phorbol-ester/DAG-type.				intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					CCTTCTTCACCACAGCCTGGC	0.652													15	78	---	---	---	---	PASS	A	43515290	A	A	43515290	2	1	88	1	0	0	0	0	0	0	0	1	12080	581	21	3		3	PLEKHM1	17	43515290	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	2268705	43515290	37679920	187	33459										
NPEPPS	9520	broad.mit.edu	37	chr17	45682807	45682807	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgagctgtaacctggggattCtctcaactctcttgtcccac	8	13	3	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:45682807C>T	uc002ilr.3	+	17	2207	c.1984C>T	c.(1984-1986)CTC>TTC	p.L662F	NPEPPS_uc010wkt.1_Missense_Mutation_p.L658F|NPEPPS_uc010wku.1_Missense_Mutation_p.L626F|NPEPPS_uc010wkv.1_Missense_Mutation_p.L216F|NPEPPS_uc002ils.1_Missense_Mutation_p.L95F	NM_006310	NP_006301	P55786	PSA_HUMAN	aminopeptidase puromycin sensitive	662					proteolysis	cytosol|nucleus	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0						CCTGGGGATTCTCTCAACTCT	0.463													3	23	---	---	---	---	PASS	T	45682807	T	T	45682807	3	4	88	1	0	0	0	0	1	0	0	0	10575	913	32	2	2050	2	NPEPPS	17	45682807	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	2167517	45682807	35512403	188	33460										
NXPH3	11248	broad.mit.edu	37	chr17	47656017	47656017	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gaccctgagcgtgatgaccaCgagggccagccccggccccg	14	17	0	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:47656017C>T	uc002ipa.2	+	2	398	c.114C>T	c.(112-114)CAC>CAT	p.H38H	NXPH3_uc010wlw.1_Silent_p.H38H	NM_007225	NP_009156	O95157	NXPH3_HUMAN	neurexophilin 3 precursor	38	II.				neuropeptide signaling pathway	extracellular region				pancreas(1)|skin(1)	2	all_cancers(4;7.45e-14)|Breast(4;1.08e-27)|all_epithelial(4;2.27e-17)					GTGATGACCACGAGGGCCAGC	0.657													4	108	---	---	---	---	PASS	T	47656017	T	T	47656017	2	4	88	1	0	0	0	0	0	0	0	1	10792	535	19	1		1	NXPH3	17	47656017	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	1973210	47656017	33539193	189	33461										
EME1	146956	broad.mit.edu	37	chr17	48458295	48458295	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	atctctctttagatagtgctGactgattctagccctcaggg	9	10	4	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:48458295G>C	uc002iqs.1	+	9	1781	c.1708G>C	c.(1708-1710)GAC>CAC	p.D570H	EME1_uc010dbp.1_Missense_Mutation_p.D583H|EME1_uc010dbq.1_RNA|uc010wmk.1_5'Flank	NM_152463	NP_689676	Q96AY2	EME1_HUMAN	essential meiotic endonuclease 1 homolog 1	570					DNA recombination|DNA repair	nucleolus	DNA binding|endonuclease activity|metal ion binding|protein binding				0	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			AGATAGTGCTGACTGATTCTA	0.502								Direct_reversal_of_damage|Homologous_recombination					3	73	---	---	---	---	PASS	C	48458295	C	C	48458295	3	2	88	1	0	0	0	0	1	0	0	0	5088	1290	45	2	1777	2	EME1	17	48458295	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	802278	48458295	32736915	190	33462										
MTMR4	9110	broad.mit.edu	37	chr17	56569101	56569101	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	acgagagacttgaatgtgttCgtaacatgagttacagacga	11	6	0	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:56569101C>A	uc002iwj.2	-	19	3621	c.3511G>T	c.(3511-3513)GAA>TAA	p.E1171*		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	1171	FYVE-type.					cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGAATGTGTTCGTAACATGAG	0.483													20	103	---	---	---	---	PASS	A	56569101	A	A	56569101	4	1	88	1	0	0	0	0	0	1	0	0	9946	893	31	2	80	2	MTMR4	17	56569101	Nonsense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	8110806	56569101	24626109	191	33463										
ITGB4	3691	broad.mit.edu	37	chr17	73732131	73732131	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cttccttgtccctctctgcaGaccgaggacgctgctccatg	9	16	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:73732131G>A	uc002jpg.2	+	14	1845	c.1658_splice	c.e14-1	p.D553_splice	ITGB4_uc002jph.2_Splice_Site_p.D553_splice|ITGB4_uc010dgo.2_Splice_Site_p.D553_splice|ITGB4_uc002jpi.3_Splice_Site_p.D553_splice|ITGB4_uc010dgp.1_Splice_Site_p.D553_splice|ITGB4_uc002jpj.2_Splice_Site_p.D553_splice|ITGB4_uc010wsh.1_Splice_Site_p.D108_splice	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor						cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			CCTCTCTGCAGACCGAGGACG	0.612													15	266	---	---	---	---	PASS	A	73732131	A	A	73732131	5	1	88	1	0	0	0	0	0	0	1	0	7897	956	33	2	1707	2	ITGB4	17	73732131	Splice_Site	SNP	G	TCGA-39-5028-01A-01D-1441-08	17163030	73732131	7463079	192	33464										
RNF157	114804	broad.mit.edu	37	chr17	74163754	74163754	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggcaataccattctggaactCttccgtggcctggtaataga	10	10	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:74163754C>T	uc002jqz.2	-	4	490	c.421G>A	c.(421-423)GAG>AAG	p.E141K	RNF157_uc002jra.2_Missense_Mutation_p.E141K	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	141							zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			TTCTGGAACTCTTCCGTGGCC	0.483													10	157	---	---	---	---	PASS	T	74163754	T	T	74163754	3	4	88	1	0	0	0	0	1	0	0	0	13454	922	32	2	1682	2	RNF157	17	74163754	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	431623	74163754	7031456	193	33465										
CARD14	79092	broad.mit.edu	37	chr17	78165148	78165148	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tccgcgagggacagtgctcaGagggagatttcccagagcct	14	11	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr17:78165148G>C	uc002jxw.1	+	8	1311	c.1116G>C	c.(1114-1116)CAG>CAC	p.Q372H	CARD14_uc002jxt.1_RNA|CARD14_uc002jxv.2_Missense_Mutation_p.Q372H|CARD14_uc010wud.1_RNA|CARD14_uc002jxx.2_Missense_Mutation_p.Q135H|CARD14_uc010dhu.1_Missense_Mutation_p.Q170H	NM_024110	NP_077015	Q9BXL6	CAR14_HUMAN	caspase recruitment domain protein 14 isoform 1	372	Potential.				activation of NF-kappaB-inducing kinase activity|positive regulation of protein phosphorylation|regulation of apoptosis	aggresome|cytoplasm|plasma membrane	CARD domain binding			ovary(4)|skin(1)	5	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			ACAGTGCTCAGAGGGAGATTT	0.657													8	109	---	---	---	---	PASS	C	78165148	C	C	78165148	3	2	88	1	0	0	0	0	1	0	0	0	2646	933	33	2	1142	2	CARD14	17	78165148	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	4001394	78165148	3030062	194	33466										
TJP3	27134	broad.mit.edu	37	chr19	3740705	3740705	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gcggagccgtgaggacctctCagctctgacccgacagggcc	14	15	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:3740705C>G	uc010xhv.1	+	13	1886	c.1886C>G	c.(1885-1887)TCA>TGA	p.S629*	TJP3_uc010xhs.1_Nonsense_Mutation_p.S596*|TJP3_uc010xht.1_Nonsense_Mutation_p.S560*|TJP3_uc010xhu.1_Nonsense_Mutation_p.S605*|TJP3_uc010xhw.1_Nonsense_Mutation_p.S615*	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	610	Guanylate kinase-like.					tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		GAGGACCTCTCAGCTCTGACC	0.687													5	48	---	---	---	---	PASS	G	3740705	G	G	3740705	4	3	88	1	0	0	0	0	0	1	0	0	15928	838	29	2	1936	2	TJP3	19	3740705	Nonsense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08		3740705	55388278	195	33467										
TMEM146	257062	broad.mit.edu	37	chr19	5776281	5776281	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ccagatcattttcggccacaAtggcttttatgtcttctaca	6	11	3	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:5776281A>G	uc002mda.2	+	21	2112	c.2051A>G	c.(2050-2052)AAT>AGT	p.N684S		NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	684	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						TTCGGCCACAATGGCTTTTAT	0.577													12	82	---	---	---	---	PASS	G	5776281	G	G	5776281	3	3	88	1	0	0	0	0	1	0	0	0	16057	101	4	5	2133	5	TMEM146	19	5776281	Missense_Mutation	SNP	A	TCGA-39-5028-01A-01D-1441-08	2035576	5776281	53352702	196	33468										
FBN3	84467	broad.mit.edu	37	chr19	8154983	8154983	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggacaggggtgggcactcacCgctgccctcctggggacaca	15	14	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:8154983C>T	uc002mjf.2	-	48	6205	c.6184G>A	c.(6184-6186)GCT>ACT	p.A2062T	FBN3_uc002mje.2_5'Flank	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2062	TB 8.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GGGCACTCACCGCTGCCCTCC	0.632													3	67	---	---	---	---	PASS	T	8154983	T	T	8154983	3	4	88	1	0	0	0	0	1	0	0	0	5704	666	23	1	2309	1	FBN3	19	8154983	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	2378702	8154983	50974000	197	33469										
MYO1F	4542	broad.mit.edu	37	chr19	8601411	8601411	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gaatttggcgaactggcggcGgtaggcgaagccggctctgc	17	10	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:8601411G>T	uc002mkg.2	-	18	1984	c.1870C>A	c.(1870-1872)CGC>AGC	p.R624S		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	624	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						AACTGGCGGCGGTAGGCGAAG	0.642													13	100	---	---	---	---	PASS	T	8601411	T	T	8601411	3	4	88	1	0	0	0	0	1	0	0	0	10073	1116	39	1	1470	1	MYO1F	19	8601411	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	446428	8601411	50527572	198	33470										
MAST1	22983	broad.mit.edu	37	chr19	12962980	12962980	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tggaggcggccgaaggacacGccaaggagggccaccttgtg	17	11	0	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:12962980G>T	uc002mvm.2	+	9	1056	c.928G>T	c.(928-930)GCC>TCC	p.A310S	MAST1_uc002mvk.2_Missense_Mutation_p.A306S	NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	310					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						CGAAGGACACGCCAAGGAGGG	0.652													12	98	---	---	---	---	PASS	T	12962980	T	T	12962980	3	4	88	1	0	0	0	0	1	0	0	0	9324	1087	38	1	962	1	MAST1	19	12962980	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	4361569	12962980	46166003	199	33471										
C19orf57	79173	broad.mit.edu	37	chr19	14000131	14000131	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cagaatgaggcaggtggtctCgctgccctgccagctctgag	14	12	2	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:14000131C>T	uc002mxl.1	-	6	1597	c.1538G>A	c.(1537-1539)CGA>CAA	p.R513Q	C19orf57_uc002mxk.1_Missense_Mutation_p.R395Q|C19orf57_uc002mxm.1_Intron	NM_024323	NP_077299	Q0VDD7	CS057_HUMAN	hypothetical protein LOC79173	513					multicellular organismal development		protein binding			ovary(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			CAGGTGGTCTCGCTGCCCTGC	0.597													7	86	---	---	---	---	PASS	T	14000131	T	T	14000131	3	4	88	1	0	0	0	0	1	0	0	0	1939	884	31	2	387	2	C19orf57	19	14000131	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	1037151	14000131	45128852	200	33472										
JAK3	3718	broad.mit.edu	37	chr19	17950440	17950440	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cctgtggggctgcgccggatGaggcagcccttataatcagg	15	11	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:17950440G>A	uc002nhn.3	-	10	1387	c.1287C>T	c.(1285-1287)CTC>CTT	p.L429L	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Silent_p.L429L|JAK3_uc010xpx.1_Silent_p.L429L	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	429	SH2; atypical.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						TGCGCCGGATGAGGCAGCCCT	0.602		2	Mis		acute megakaryocytic leukemia|								4	23	---	---	---	---	PASS	A	17950440	A	A	17950440	2	1	88	1	0	0	0	0	0	0	0	1	7939	1277	45	2		2	JAK3	19	17950440	Silent	SNP	G	TCGA-39-5028-01A-01D-1441-08	3950309	17950440	41178543	201	33473										
PSMC4	5704	broad.mit.edu	37	chr19	40477127	40477127	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	actatggaggagataggcatCttggtggagaaggctcaggt	16	5	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:40477127C>G	uc002omq.2	+	1	55	c.18C>G	c.(16-18)ATC>ATG	p.I6M	PSMC4_uc002omr.2_Missense_Mutation_p.I6M	NM_006503	NP_006494	P43686	PRS6B_HUMAN	proteasome 26S ATPase subunit 4 isoform 1	6					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding			ovary(1)	1	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					AGATAGGCATCTTGGTGGAGA	0.617													11	177	---	---	---	---	PASS	G	40477127	G	G	40477127	3	3	88	1	0	0	0	0	1	0	0	0	12689	903	32	2	20	2	PSMC4	19	40477127	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	22526687	40477127	18651856	202	33474										
GSK3A	2931	broad.mit.edu	37	chr19	42738713	42738713	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggcccacctgccaaaatcgcAgagcttgaggacagcagtgt	12	12	0	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:42738713A>G	uc002otb.1	-	5	903	c.784T>C	c.(784-786)TGC>CGC	p.C262R	GSK3A_uc002ota.1_Missense_Mutation_p.C180R|GSK3A_uc002otc.2_RNA	NM_019884	NP_063937	P49840	GSK3A_HUMAN	glycogen synthase kinase 3 alpha	262	Protein kinase.				insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of insulin receptor signaling pathway|negative regulation of transferase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein catabolic process	beta-catenin destruction complex|cytosol	ATP binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|tau-protein kinase activity			ovary(2)|lung(2)	4		Prostate(69;0.00682)				CCAAAATCGCAGAGCTTGAGG	0.627													12	93	---	---	---	---	PASS	G	42738713	G	G	42738713	3	3	88	1	0	0	0	0	1	0	0	0	6823	188	7	5	695	5	GSK3A	19	42738713	Missense_Mutation	SNP	A	TCGA-39-5028-01A-01D-1441-08	2261586	42738713	16390270	203	33475										
SLC17A7	57030	broad.mit.edu	37	chr19	49933907	49933907	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	catttcgctgtcgtcactgcCagccagctggtcatggccaa	10	14	2	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:49933907C>A	uc002pnp.2	-	12	1724	c.1552G>T	c.(1552-1554)GGC>TGC	p.G518C	SLC17A7_uc002pno.2_Missense_Mutation_p.G180C	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	518	Cytoplasmic (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		TCGTCACTGCCAGCCAGCTGG	0.637													15	85	---	---	---	---	PASS	A	49933907	A	A	49933907	3	1	88	1	0	0	0	0	1	0	0	0	14422	594	21	3	134	3	SLC17A7	19	49933907	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	7195194	49933907	9195076	204	33476										
CPT1C	126129	broad.mit.edu	37	chr19	50213726	50213726	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ttcatccagatcgccttgcaActggcccacttccgggtcag	9	15	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:50213726A>G	uc002ppj.2	+	14	1921	c.1716A>G	c.(1714-1716)CAA>CAG	p.Q572Q	CPT1C_uc002ppl.3_Silent_p.Q538Q|CPT1C_uc002ppi.2_Silent_p.Q489Q|CPT1C_uc002ppk.2_Silent_p.Q561Q|CPT1C_uc010eng.2_Silent_p.Q572Q|CPT1C_uc010enh.2_Silent_p.Q572Q|CPT1C_uc010ybc.1_Silent_p.Q443Q|CPT1C_uc010eni.1_Silent_p.Q229Q	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	572	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		TCGCCTTGCAACTGGCCCACT	0.587													9	62	---	---	---	---	PASS	G	50213726	G	G	50213726	2	3	88	1	0	0	0	0	0	0	0	1	3833	40	2	5		5	CPT1C	19	50213726	Silent	SNP	A	TCGA-39-5028-01A-01D-1441-08	279819	50213726	8915257	205	33477										
SIGLEC9	27180	broad.mit.edu	37	chr19	51629380	51629380	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gactgtcttccaaggagacgGcacaggtaggatggagctcc	14	10	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:51629380G>A	uc002pvu.2	+	3	810	c.743G>A	c.(742-744)GGC>GAC	p.G248D	SIGLEC9_uc010yct.1_Missense_Mutation_p.G248D	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	248	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		CAAGGAGACGGCACAGGTAGG	0.597													5	116	---	---	---	---	PASS	A	51629380	A	A	51629380	3	1	88	1	0	0	0	0	1	0	0	0	14315	1203	42	3	753	3	SIGLEC9	19	51629380	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	1415654	51629380	7499603	206	33478										
ZNF614	80110	broad.mit.edu	37	chr19	52521336	52521336	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgccaacttggagagtacatCtggtttgctagtttgatacc	10	8	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:52521336C>G	uc002pyj.2	-	4	565	c.163G>C	c.(163-165)GAT>CAT	p.D55H	ZNF614_uc002pyi.3_Missense_Mutation_p.D55H|ZNF614_uc010epj.2_5'UTR	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	55	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		GAGAGTACATCTGGTTTGCTA	0.393													11	125	---	---	---	---	PASS	G	52521336	G	G	52521336	3	3	88	1	0	0	0	0	1	0	0	0	18036	913	32	2	1602	2	ZNF614	19	52521336	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	891956	52521336	6607647	207	33479										
ZNF616	90317	broad.mit.edu	37	chr19	52619900	52619900	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gtgtggagaaactaaacaacCattattacctgtcttctccg	7	10	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr19:52619900C>A	uc002pym.2	-	4	800	c.517G>T	c.(517-519)GGT>TGT	p.G173C	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	173					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		ACTAAACAACCATTATTACCT	0.383													21	190	---	---	---	---	PASS	A	52619900	A	A	52619900	3	1	88	1	0	0	0	0	1	0	0	0	18038	594	21	3	1832	3	ZNF616	19	52619900	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	98564	52619900	6509083	208	33480										
TGM6	343641	broad.mit.edu	37	chr20	2398026	2398026	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cctgccaccaagcccagcatCgctggcaagttcaaggtgct	10	15	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr20:2398026C>T	uc002wfy.1	+	10	1546	c.1485C>T	c.(1483-1485)ATC>ATT	p.I495I	TGM6_uc010gal.1_Silent_p.I495I	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	495					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	AGCCCAGCATCGCTGGCAAGT	0.662													5	60	---	---	---	---	PASS	T	2398026	T	T	2398026	2	4	88	1	0	0	0	0	0	0	0	1	15831	874	31	2		2	TGM6	20	2398026	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08		2398026	60627494	209	33481										
ADRA1D	146	broad.mit.edu	37	chr20	4229246	4229246	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ggtggcggttgcaggccactGagaggatgacaagcaggtta	17	7	0	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr20:4229246G>C	uc002wkr.2	-	1	414	c.359C>G	c.(358-360)TCA>TGA	p.S120*		NM_000678	NP_000669	P25100	ADA1D_HUMAN	alpha-1D-adrenergic receptor	120	Helical; Name=1; (By similarity).				cell proliferation|cell-cell signaling|DNA metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|multicellular organismal development|positive regulation of cell proliferation	integral to plasma membrane	alpha1-adrenergic receptor activity				0					Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Methotrimeprazine(DB01403)|Norepinephrine(DB00368)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)	GCAGGCCACTGAGAGGATGAC	0.473													3	26	---	---	---	---	PASS	C	4229246	C	C	4229246	4	2	88	1	0	0	0	0	0	1	0	0	336	1294	45	2	1367	2	ADRA1D	20	4229246	Nonsense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	1831220	4229246	58796274	210	33482										
PHF20	51230	broad.mit.edu	37	chr20	34535534	34535534	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	aaggtgcagcagatcgccctCtgctgctcaacatgaaactg	10	12	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr20:34535534C>T	uc002xek.1	+	18	3135	c.3024C>T	c.(3022-3024)CTC>CTT	p.L1008L		NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	1008					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					AGATCGCCCTCTGCTGCTCAA	0.557													13	67	---	---	---	---	PASS	T	34535534	T	T	34535534	2	4	88	1	0	0	0	0	0	0	0	1	11831	900	32	2		2	PHF20	20	34535534	Silent	SNP	C	TCGA-39-5028-01A-01D-1441-08	30306288	34535534	28489986	211	33483										
PREX1	57580	broad.mit.edu	37	chr20	47258974	47258974	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gaggtgctccaggcagccatGaagcttgtcctgcttgtcag	13	11	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr20:47258974G>A	uc002xtw.1	-	28	3678	c.3655C>T	c.(3655-3657)CAT>TAT	p.H1219Y	PREX1_uc002xtv.1_Missense_Mutation_p.H516Y	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1219					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			AGGCAGCCATGAAGCTTGTCC	0.592													13	45	---	---	---	---	PASS	A	47258974	A	A	47258974	3	1	88	1	0	0	0	0	1	0	0	0	12476	1290	45	2	1376	2	PREX1	20	47258974	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	12723440	47258974	15766546	212	33484										
CBLN4	140689	broad.mit.edu	37	chr20	54573773	54573773	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	catctttgtcccccgcaaagGcagatattactggttttcca	7	12	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr20:54573773G>A	uc002xxa.2	-	3	1231	c.446C>T	c.(445-447)GCC>GTC	p.A149V		NM_080617	NP_542184	Q9NTU7	CBLN4_HUMAN	cerebellin 4 precursor	149	C1q.					cell junction|extracellular region|synapse				ovary(3)|pancreas(1)	4			Colorectal(105;0.202)			CCCCGCAAAGGCAGATATTAC	0.373													13	93	---	---	---	---	PASS	A	54573773	A	A	54573773	3	1	88	1	0	0	0	0	1	0	0	0	2707	1203	42	3	163	3	CBLN4	20	54573773	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	7314799	54573773	8451747	213	33485										
TAF4	6874	broad.mit.edu	37	chr20	60574149	60574149	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ccggacgtcactcgcctgctCatatctgtcgtcatcctatg	8	15	4	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr20:60574149C>G	uc002ybs.2	-	12	2803	c.2803G>C	c.(2803-2805)GAG>CAG	p.E935Q		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	935					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)			CTCGCCTGCTCATATCTGTCG	0.483													41	597	---	---	---	---	PASS	G	60574149	G	G	60574149	3	3	88	1	0	0	0	0	1	0	0	0	15523	835	29	2	470	2	TAF4	20	60574149	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	6000376	60574149	2451371	214	33486										
MORC3	23515	broad.mit.edu	37	chr21	37711192	37711192	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tattataggcaagaaggggaCgaggatcatcatttggaatc	12	5	2	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr21:37711192C>T	uc002yvi.2	+	5	657	c.581C>T	c.(580-582)ACG>ATG	p.T194M		NM_015358	NP_056173	Q14149	MORC3_HUMAN	MORC family CW-type zinc finger 3	194					cell aging|maintenance of protein location in nucleus|negative regulation of fibroblast proliferation|peptidyl-serine phosphorylation|protein stabilization	aggresome|intermediate filament cytoskeleton|PML body	ATP binding|zinc ion binding			ovary(2)	2						AAGAAGGGGACGAGGATCATC	0.438													5	273	---	---	---	---	PASS	T	37711192	T	T	37711192	3	4	88	1	0	0	0	0	1	0	0	0	9703	536	19	1	599	1	MORC3	21	37711192	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08		37711192	10418703	215	33487										
KRTAP10-7	386675	broad.mit.edu	37	chr21	46021273	46021273	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgtgcccacctgctctgatgAttccggttcatgctgccagc	10	14	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr21:46021273A>T	uc002zfn.3	+	2	762	c.737A>T	c.(736-738)GAT>GTT	p.D246V	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198689	NP_941962	P60409	KR107_HUMAN	keratin associated protein 10-7	251	30 X 5 AA repeats of C-C-X(3).					keratin filament					0						TGCTCTGATGATTCCGGTTCA	0.647													14	233	---	---	---	---	PASS	T	46021273	T	T	46021273	3	4	88	1	0	0	0	0	1	0	0	0	8514	333	12	5	743	5	KRTAP10-7	21	46021273	Missense_Mutation	SNP	A	TCGA-39-5028-01A-01D-1441-08	8310081	46021273	2108622	216	33488										
PCNT	5116	broad.mit.edu	37	chr21	47754334	47754334	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gaggactgtgatggagagaaGagagaggacttggaacagct	17	4	0	4			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr21:47754334G>C	uc002zji.3	+	3	398	c.291G>C	c.(289-291)AAG>AAC	p.K97N	PCNT_uc002zjj.2_5'UTR|PCNT_uc010gqk.1_RNA	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	97					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					ATGGAGAGAAGAGAGAGGACT	0.542													7	143	---	---	---	---	PASS	C	47754334	C	C	47754334	3	2	88	1	0	0	0	0	1	0	0	0	11590	933	33	2	301	2	PCNT	21	47754334	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	1733061	47754334	375561	217	33489										
PATZ1	23598	broad.mit.edu	37	chr22	31740795	31740795	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tccttgggcggccccggcctCgcttgccagtcaggggaggg	17	14	1	0			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chr22:31740795C>T	uc003akq.2	-	1	1455	c.794G>A	c.(793-795)CGA>CAA	p.R265Q	PATZ1_uc003akp.2_Missense_Mutation_p.R265Q|PATZ1_uc003akr.2_Missense_Mutation_p.R265Q|PATZ1_uc003aks.2_Missense_Mutation_p.R265Q|uc003akt.2_5'Flank	NM_014323	NP_055138	Q9HBE1	PATZ1_HUMAN	POZ (BTB) and AT hook containing zinc finger 1	265	A.T hook.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/PATZ1(2)	soft_tissue(2)	2						GCCCCGGCCTCGCTTGCCAGT	0.652													7	31	---	---	---	---	PASS	T	31740795	T	T	31740795	3	4	88	1	0	0	0	0	1	0	0	0	11476	884	31	2	1572	2	PATZ1	22	31740795	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08		31740795	19563771	218	33490										
ARHGAP6	395	broad.mit.edu	37	chrX	11204422	11204422	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	ctgtctgtaaataggattcaGactgagtttcttatctctgg	9	7	4	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chrX:11204422G>C	uc004cup.1	-	5	2080	c.1207C>G	c.(1207-1209)CTG>GTG	p.L403V	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cur.1_Missense_Mutation_p.L403V|ARHGAP6_uc004cum.1_Missense_Mutation_p.L200V|ARHGAP6_uc004cun.1_Missense_Mutation_p.L223V|ARHGAP6_uc010neb.1_Missense_Mutation_p.L225V|ARHGAP6_uc011mif.1_Missense_Mutation_p.L200V	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	403	Rho-GAP.				actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						ATAGGATTCAGACTGAGTTTC	0.428													32	154	---	---	---	---	PASS	C	11204422	C	C	11204422	3	2	88	1	0	0	0	0	1	0	0	0	887	933	33	2	1875	2	ARHGAP6	23	11204422	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08		11204422	144066138	219	33491										
TLR8	51311	broad.mit.edu	37	chrX	12939453	12939453	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	taagaccaccaccaaattatCtatgttggaactacacggaa	6	10	1	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chrX:12939453C>A	uc004cve.2	+	2	2362	c.2294C>A	c.(2293-2295)TCT>TAT	p.S765Y	TLR8_uc004cvd.2_Missense_Mutation_p.S783Y	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	765	Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						ACCAAATTATCTATGTTGGAA	0.408													9	78	---	---	---	---	PASS	A	12939453	A	A	12939453	3	1	88	1	0	0	0	0	1	0	0	0	15954	913	32	2	2300	2	TLR8	23	12939453	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08	1735031	12939453	142331107	220	33492										
DCAF8L1	139425	broad.mit.edu	37	chrX	27998327	27998327	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tgaggagtgaatttcttgagTactccattgttttctttctt	8	6	3	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chrX:27998327T>A	uc004dbx.1	-	1	1240	c.1125A>T	c.(1123-1125)GTA>GTT	p.V375V		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	375										ovary(3)|skin(1)	4						ATTTCTTGAGTACTCCATTGT	0.423													15	46	---	---	---	---	PASS	A	27998327	A	A	27998327	2	1	88	1	0	0	0	0	0	0	0	1	4277	1625	57	5		5	DCAF8L1	23	27998327	Silent	SNP	T	TCGA-39-5028-01A-01D-1441-08	15058874	27998327	127272233	221	33493			4	41		2	2	14	T		9.532228e-05
DCAF8L1	139425	broad.mit.edu	37	chrX	27998340	27998340	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tcttgagtactccattgtttTctttcttatcaattctcctc	3	11	5	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chrX:27998340T>C	uc004dbx.1	-	1	1227	c.1112A>G	c.(1111-1113)GAA>GGA	p.E371G		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	371	WD 4.									ovary(3)|skin(1)	4						TCCATTGTTTTCTTTCTTATC	0.393													10	47	---	---	---	---	PASS	C	27998340	C	C	27998340	3	2	88	1	0	0	0	0	1	0	0	0	4277	1783	62	5	694	5	DCAF8L1	23	27998340	Missense_Mutation	SNP	T	TCGA-39-5028-01A-01D-1441-08	13	27998340	127272220	222	33494			4	41		2	2	14	T		9.532228e-05
ZMAT1	84460	broad.mit.edu	37	chrX	101139090	101139090	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cttttgctccaacattctatGtctgggtctgacatcaacca	6	12	4	1			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chrX:101139090G>T	uc004eim.2	-	2	4294	c.796C>A	c.(796-798)CAT>AAT	p.H266N	ZMAT1_uc011mrl.1_Missense_Mutation_p.H437N|ZMAT1_uc004ein.2_Missense_Mutation_p.H266N|ZMAT1_uc011mrm.1_Missense_Mutation_p.H266N	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	266						nucleus	zinc ion binding			ovary(1)	1						AACATTCTATGTCTGGGTCTG	0.418													123	201	---	---	---	---	PASS	T	101139090	T	T	101139090	3	4	88	1	0	0	0	0	1	0	0	0	17688	1377	48	3	611	3	ZMAT1	23	101139090	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	73140750	101139090	54131470	223	33495										
GPRASP1	9737	broad.mit.edu	37	chrX	101911775	101911775	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	tggtttgaggctgaagatgaGgtagataacaggactgacaa	14	4	0	6			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chrX:101911775G>T	uc004ejj.3	+	5	3735	c.2934G>T	c.(2932-2934)GAG>GAT	p.E978D	GPRASP1_uc004eji.3_Missense_Mutation_p.E978D|GPRASP1_uc010nod.2_Missense_Mutation_p.E978D	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	978	Glu-rich.|OPRD1-binding.					cytoplasm	protein binding			ovary(1)|lung(1)	2						CTGAAGATGAGGTAGATAACA	0.507													42	71	---	---	---	---	PASS	T	101911775	T	T	101911775	3	4	88	1	0	0	0	0	1	0	0	0	6722	991	35	3	2936	3	GPRASP1	23	101911775	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	772685	101911775	53358785	224	33496										
USP26	83844	broad.mit.edu	37	chrX	132161299	132161299	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	gtaaatcatcagcaaacgatGggattgaaagtagagactgt	11	5	2	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chrX:132161299G>T	uc010nrm.1	-	6	1420	c.950C>A	c.(949-951)CCA>CAA	p.P317Q	USP26_uc011mvf.1_Missense_Mutation_p.P317Q	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	317					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					AGCAAACGATGGGATTGAAAG	0.383													19	61	---	---	---	---	PASS	T	132161299	T	T	132161299	3	4	88	1	0	0	0	0	1	0	0	0	17054	1348	47	3	1794	3	USP26	23	132161299	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	30249524	132161299	23109261	225	33497										
GABRQ	55879	broad.mit.edu	37	chrX	151815469	151815469	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	attcacgcttagcatactatGagaccaccctgaacttgacc	6	13	1	3			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chrX:151815469G>A	uc004ffp.1	+	4	387	c.367G>A	c.(367-369)GAG>AAG	p.E123K		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	123	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AGCATACTATGAGACCACCCT	0.448													23	118	---	---	---	---	PASS	A	151815469	A	A	151815469	3	1	88	1	0	0	0	0	1	0	0	0	6175	1291	45	2	381	2	GABRQ	23	151815469	Missense_Mutation	SNP	G	TCGA-39-5028-01A-01D-1441-08	19654170	151815469	3455091	226	33498										
NLGN4Y	22829	broad.mit.edu	37	chrY	16952691	16952691	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.343612334801762	78	9.92300644670577e-23	3.32243194192377	4.52186097427477	2.47339790778768	0.167876259928872	0.503628779786616	55	cacaactgtcctcattgaaaCcaaacgagattattccaccg	5	13	1	2			TCGA-39-5028-01A-01D-1441-08	TCGA-39-5028-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	015b9329-ecf2-4410-b7b6-f9313b5d2adb	605b9db5-8a6c-4175-9fb0-dec971780136	g.chrY:16952691C>A	uc004ftg.2	+	6	2252	c.2000C>A	c.(1999-2001)ACC>AAC	p.T667N	NLGN4Y_uc004fte.2_Missense_Mutation_p.T499N|NLGN4Y_uc011nas.1_Missense_Mutation_p.T687N|NLGN4Y_uc004ftf.2_Missense_Mutation_p.T360N|NLGN4Y_uc004fth.2_Missense_Mutation_p.T667N	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	667	Extracellular (Potential).				brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0						CTCATTGAAACCAAACGAGAT	0.512													4	108	---	---	---	---	PASS	A	16952691	A	A	16952691	3	1	88	1	0	0	0	0	1	0	0	0	10465	507	18	3	2172	3	NLGN4Y	24	16952691	Missense_Mutation	SNP	C	TCGA-39-5028-01A-01D-1441-08		16952691	42420875	227	33499										
ACAP3	116983	broad.mit.edu	37	chr1	1235355	1235355	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cccctcccaaaggctcacctCggctgccagcttcttcatgt	7	18	3	0	rs12409951		TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:1235355C>T	uc001aeb.2	-	8	735	c.661G>A	c.(661-663)GAG>AAG	p.E221K	ACAP3_uc001ady.2_5'Flank|ACAP3_uc001aea.2_Missense_Mutation_p.E179K|ACAP3_uc001aec.1_Missense_Mutation_p.E179K	NM_030649	NP_085152	Q96P50	ACAP3_HUMAN	ArfGAP with coiled-coil, ankyrin repeat and PH	221					filopodium assembly|regulation of ARF GTPase activity|signal transduction		ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding				0						AGGCTCACCTCGGCTGCCAGC	0.642													8	36	---	---	---	---	PASS	T	1235355	T	T	1235355	3	4	89	1	0	0	0	0	1	0	0	0	120	893	31	2	1911	2	ACAP3	1	1235355	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08		1235355	248015266	1	33500										
MORN1	79906	broad.mit.edu	37	chr1	2290142	2290142	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ccgctgagatctgcaggaccCggccgctctcgccttccagg	12	17	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:2290142C>A	uc001ajb.1	-	9	779	c.758G>T	c.(757-759)CGG>CTG	p.R253L	MORN1_uc009vld.2_Missense_Mutation_p.R229L|MORN1_uc001ajd.1_Missense_Mutation_p.R253L	NM_024848	NP_079124	Q5T089	MORN1_HUMAN	MORN repeat containing 1	253										ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.000194)|all_epithelial(69;9.96e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;3.3e-15)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;2.21e-37)|OV - Ovarian serous cystadenocarcinoma(86;5.01e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.00137)|BRCA - Breast invasive adenocarcinoma(365;0.00488)|STAD - Stomach adenocarcinoma(132;0.00665)|KIRC - Kidney renal clear cell carcinoma(229;0.0203)|Lung(427;0.212)		CTGCAGGACCCGGCCGCTCTC	0.612													18	12	---	---	---	---	PASS	A	2290142	A	A	2290142	3	1	89	1	0	0	0	0	1	0	0	0	9708	652	23	1	759	1	MORN1	1	2290142	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	1054787	2290142	246960479	2	33501										
GRIK3	2899	broad.mit.edu	37	chr1	37324827	37324827	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	acacggacacgatatggacgGcgtcgtacagtaaggctgca	13	10	0	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:37324827G>A	uc001caz.2	-	7	1121	c.986C>T	c.(985-987)GCC>GTC	p.A329V	GRIK3_uc001cba.1_Missense_Mutation_p.A329V	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	329	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GATATGGACGGCGTCGTACAG	0.652													63	57	---	---	---	---	PASS	A	37324827	A	A	37324827	3	1	89	1	0	0	0	0	1	0	0	0	6775	1203	42	3	1813	3	GRIK3	1	37324827	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	35034685	37324827	211925794	3	33502										
MACF1	23499	broad.mit.edu	37	chr1	39797830	39797830	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gttgctgtggcctgaatctgGagagatcctcccaattacag	11	10	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:39797830G>A	uc010oiu.1	+	1	1021	c.890G>A	c.(889-891)GGA>GAA	p.G297E	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1862	Plectin 5.				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)			CCTGAATCTGGAGAGATCCTC	0.448													92	88	---	---	---	---	PASS	A	39797830	A	A	39797830	3	1	89	1	0	0	0	0	1	0	0	0	9144	1174	41	2	5661	2	MACF1	1	39797830	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	2473003	39797830	209452791	4	33503										
C1orf168	199920	broad.mit.edu	37	chr1	57224416	57224416	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	agttcttcaattccaacttcAtaagttgctaaagtaaacat	4	8	3	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:57224416A>G	uc001cym.3	-	6	1477	c.1071T>C	c.(1069-1071)TAT>TAC	p.Y357Y	C1orf168_uc009vzu.1_Intron|C1orf168_uc001cyl.2_RNA	NM_001004303	NP_001004303	Q5VWT5	CA168_HUMAN	hypothetical protein LOC199920	357										ovary(3)|skin(2)	5						TTCCAACTTCATAAGTTGCTA	0.318													17	37	---	---	---	---	PASS	G	57224416	G	G	57224416	2	3	89	1	0	0	0	0	0	0	0	1	2012	224	8	5		5	C1orf168	1	57224416	Silent	SNP	A	TCGA-39-5029-01A-01D-1441-08	17426586	57224416	192026205	5	33504										
LRRIQ3	127255	broad.mit.edu	37	chr1	74648474	74648474	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ttctttaactttgcaaacccAttgtcatgaagatagagtag	7	7	2	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:74648474A>G	uc001dfy.3	-	3	513	c.321T>C	c.(319-321)AAT>AAC	p.N107N	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	107	LRR 3.									ovary(2)	2						TTGCAAACCCATTGTCATGAA	0.308													31	77	---	---	---	---	PASS	G	74648474	G	G	74648474	2	3	89	1	0	0	0	0	0	0	0	1	9030	214	8	5		5	LRRIQ3	1	74648474	Silent	SNP	A	TCGA-39-5029-01A-01D-1441-08	17424058	74648474	174602147	6	33505										
TRIM46	80128	broad.mit.edu	37	chr1	155156413	155156413	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aaacgcagggctgacagggaGggatggccccacagccggct	16	12	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:155156413G>T	uc001fhs.1	+	10	2110	c.2027G>T	c.(2026-2028)AGG>ATG	p.R676M	RAG1AP1_uc010pey.1_Intron|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_Missense_Mutation_p.R550M|TRIM46_uc001fhu.1_Missense_Mutation_p.R653M|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	676	B30.2/SPRY.					intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CTGACAGGGAGGGATGGCCCC	0.657													25	36	---	---	---	---	PASS	T	155156413	T	T	155156413	3	4	89	1	0	0	0	0	1	0	0	0	16518	1000	35	3	2065	3	TRIM46	1	155156413	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	80507939	155156413	94094208	7	33506										
CD1D	912	broad.mit.edu	37	chr1	158151513	158151513	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aaaatgctacgcttatcctgTgagctgagggataggatcct	11	8	0	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:158151513T>C	uc001frr.2	+	3	827	c.328_splice	c.e3+2	p.Y110_splice	CD1D_uc009wsr.1_Splice_Site_p.Y110_splice|CD1D_uc009wss.2_Splice_Site_p.Y110_splice|CD1D_uc009wst.1_Splice_Site_p.Y6_splice	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor						antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					GCTTATCCTGTGAGCTGAGGG	0.542													22	50	---	---	---	---	PASS	C	158151513	C	C	158151513	5	2	89	1	0	0	0	0	0	0	1	0	2977	1710	59	5	336	5	CD1D	1	158151513	Splice_Site	SNP	T	TCGA-39-5029-01A-01D-1441-08	2995100	158151513	91099108	8	33507										
ADAMTS4	9507	broad.mit.edu	37	chr1	161168117	161168117	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cagcccctcgacctgcacacCggagtcctgctccagctcta	8	19	1	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:161168117C>G	uc001fyt.3	-	1	729	c.301G>C	c.(301-303)GGT>CGT	p.G101R	ADAMTS4_uc001fyu.2_Missense_Mutation_p.G101R|NDUFS2_uc001fyv.2_5'Flank	NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	101					proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			ACCTGCACACCGGAGTCCTGC	0.667													13	30	---	---	---	---	PASS	G	161168117	G	G	161168117	3	3	89	1	0	0	0	0	1	0	0	0	268	652	23	4	2248	4	ADAMTS4	1	161168117	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	3016604	161168117	88082504	9	33508										
ABL2	27	broad.mit.edu	37	chr1	179084073	179084073	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aggctgttccattcgatatcCtttttctagtaggtcataga	8	8	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:179084073C>A	uc001gmj.3	-	9	1788	c.1501G>T	c.(1501-1503)GGA>TGA	p.G501*	ABL2_uc010pnf.1_Nonsense_Mutation_p.G501*|ABL2_uc010png.1_Nonsense_Mutation_p.G480*|ABL2_uc010pnh.1_Nonsense_Mutation_p.G480*|ABL2_uc009wxe.2_Nonsense_Mutation_p.G480*|ABL2_uc001gmg.3_Nonsense_Mutation_p.G486*|ABL2_uc001gmi.3_Nonsense_Mutation_p.G486*|ABL2_uc001gmh.3_Nonsense_Mutation_p.G465*|ABL2_uc010pne.1_Nonsense_Mutation_p.G465*	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	501	Protein kinase.				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	ATTCGATATCCTTTTTCTAGT	0.408			T	ETV6	AML								43	150	---	---	---	---	PASS	A	179084073	A	A	179084073	4	1	89	1	0	0	0	0	0	1	0	0	93	690	24	3	2108	3	ABL2	1	179084073	Nonsense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	17915956	179084073	70166548	10	33509										
ESRRG	2104	broad.mit.edu	37	chr1	216850454	216850454	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gaagaatgccttgcaggcttCacatgatgctaccccatagt	9	11	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:216850454C>T	uc001hkw.1	-	2	602	c.436G>A	c.(436-438)GAA>AAA	p.E146K	ESRRG_uc001hky.1_Missense_Mutation_p.E123K|ESRRG_uc009xdp.1_Missense_Mutation_p.E123K|ESRRG_uc001hkz.1_Missense_Mutation_p.E123K|ESRRG_uc010puc.1_Missense_Mutation_p.E123K|ESRRG_uc001hla.1_Missense_Mutation_p.E123K|ESRRG_uc001hlb.1_Missense_Mutation_p.E123K|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Missense_Mutation_p.E123K|ESRRG_uc001hld.1_Missense_Mutation_p.E123K|ESRRG_uc001hkx.1_Missense_Mutation_p.E151K|ESRRG_uc009xdo.1_Missense_Mutation_p.E123K|ESRRG_uc001hle.1_Missense_Mutation_p.E123K	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	146	Nuclear receptor.|NR C4-type.				positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	TTGCAGGCTTCACATGATGCT	0.478													8	91	---	---	---	---	PASS	T	216850454	T	T	216850454	3	4	89	1	0	0	0	0	1	0	0	0	5262	835	29	2	964	2	ESRRG	1	216850454	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	37766381	216850454	32400167	11	33510										
PLD5	200150	broad.mit.edu	37	chr1	242287914	242287914	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tatagagcaaatatcctttgTaaatctaggaccaggcagct	8	8	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:242287914T>C	uc001hzn.1	-	6	916	c.789A>G	c.(787-789)TTA>TTG	p.L263L	PLD5_uc001hzl.3_Silent_p.L201L|PLD5_uc001hzm.3_Silent_p.L53L|PLD5_uc001hzo.1_Silent_p.L171L			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	263						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			ATATCCTTTGTAAATCTAGGA	0.368													26	100	---	---	---	---	PASS	C	242287914	C	C	242287914	2	2	89	1	0	0	0	0	0	0	0	1	12049	1635	57	5		5	PLD5	1	242287914	Silent	SNP	T	TCGA-39-5029-01A-01D-1441-08	25437460	242287914	6962707	12	33511										
ZNF496	84838	broad.mit.edu	37	chr1	247464506	247464506	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gctgggagtcctcgtccccaGagctggagagaacgatctcg	14	12	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr1:247464506G>C	uc001ico.2	-	9	1544	c.1079C>G	c.(1078-1080)TCT>TGT	p.S360C	ZNF496_uc009xgv.2_Missense_Mutation_p.S396C|ZNF496_uc001icp.2_Missense_Mutation_p.S360C	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	360					positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			CTCGTCCCCAGAGCTGGAGAG	0.627													6	100	---	---	---	---	PASS	C	247464506	C	C	247464506	3	2	89	1	0	0	0	0	1	0	0	0	17942	942	33	2	688	2	ZNF496	1	247464506	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	5176592	247464506	1786115	13	33512										
HADHA	3030	broad.mit.edu	37	chr2	26418042	26418042	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tctttggaagttttctcggtCgtgataatctccagcagctg	10	9	3	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:26418042C>G	uc002rgy.2	-	15	1669	c.1539G>C	c.(1537-1539)ACG>ACC	p.T513T	HADHA_uc010yks.1_Silent_p.T426T	NM_000182	NP_000173	P40939	ECHA_HUMAN	mitochondrial trifunctional protein, alpha	513					fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)	TTTTCTCGGTCGTGATAATCT	0.507													41	91	---	---	---	---	PASS	G	26418042	G	G	26418042	2	3	89	1	0	0	0	0	0	0	0	1	6943	871	31	2		2	HADHA	2	26418042	Silent	SNP	C	TCGA-39-5029-01A-01D-1441-08		26418042	216781331	14	33513										
SLC30A3	7781	broad.mit.edu	37	chr2	27480855	27480855	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gtcgctgtgcagcaggcggaCgaaggccaggtacaggagga	18	9	0	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:27480855C>T	uc002rjk.2	-	4	682	c.496G>A	c.(496-498)GTC>ATC	p.V166I	SLC30A3_uc002rjj.2_5'UTR|SLC30A3_uc010ylh.1_Missense_Mutation_p.V161I	NM_003459	NP_003450	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter),	166	Helical; (Potential).				regulation of sequestering of zinc ion	cell junction|integral to plasma membrane|late endosome|membrane fraction|synaptic vesicle membrane	zinc transporting ATPase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGCAGGCGGACGAAGGCCAGG	0.627													18	32	---	---	---	---	PASS	T	27480855	T	T	27480855	3	4	89	1	0	0	0	0	1	0	0	0	14556	536	19	1	690	1	SLC30A3	2	27480855	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	1062813	27480855	215718518	15	33514										
IFT172	26160	broad.mit.edu	37	chr2	27672642	27672642	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cgattgcttccttgacaaggTccagattcagatagagctct	9	10	2	4			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:27672642T>C	uc002rku.2	-	37	4127	c.4076A>G	c.(4075-4077)GAC>GGC	p.D1359G	IFT172_uc010ezb.2_RNA	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	1359	TPR 11.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CTTGACAAGGTCCAGATTCAG	0.522													45	102	---	---	---	---	PASS	C	27672642	C	C	27672642	3	2	89	1	0	0	0	0	1	0	0	0	7557	1667	58	5	1221	5	IFT172	2	27672642	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	191787	27672642	215526731	16	33515										
SLC8A1	6546	broad.mit.edu	37	chr2	40401975	40401975	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aaattcatacctgttattgtGaagccacctaaaaaagaaaa	5	7	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:40401975G>T	uc002rrx.2	-	4	1968	c.1944C>A	c.(1942-1944)TTC>TTA	p.F648L	uc002rrw.2_Intron|SLC8A1_uc002rry.2_Missense_Mutation_p.F648L|SLC8A1_uc002rrz.2_Missense_Mutation_p.F640L|SLC8A1_uc002rsa.2_Missense_Mutation_p.F640L|SLC8A1_uc002rsd.3_Missense_Mutation_p.F640L|SLC8A1_uc002rsb.1_Missense_Mutation_p.F640L	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	648	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CTGTTATTGTGAAGCCACCTA	0.313													4	158	---	---	---	---	PASS	T	40401975	T	T	40401975	3	4	89	1	0	0	0	0	1	0	0	0	14706	1281	45	2	1005	2	SLC8A1	2	40401975	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	12729333	40401975	202797398	17	33516										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48898756	48898756	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ttaaattctggagatgatgtTagtgaacaggatgtgccaga	12	4	1	4			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:48898756T>A	uc010yol.1	+	7	3284	c.3237T>A	c.(3235-3237)GTT>GTA	p.V1079V	STON1-GTF2A1L_uc002rwp.1_Silent_p.V1126V|GTF2A1L_uc002rws.1_Silent_p.V422V|GTF2A1L_uc010yom.1_Silent_p.V388V|GTF2A1L_uc002rwt.2_Silent_p.V422V	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	1079					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GAGATGATGTTAGTGAACAGG	0.333													36	237	---	---	---	---	PASS	A	48898756	A	A	48898756	2	1	89	1	0	0	0	0	0	0	0	1	15316	1741	61	5		5	STON1-GTF2A1L	2	48898756	Silent	SNP	T	TCGA-39-5029-01A-01D-1441-08	8496781	48898756	194300617	18	33517										
SLC1A4	6509	broad.mit.edu	37	chr2	65217264	65217264	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aggactcggggcctcctcctGtccccaaagagacggtggac	13	14	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:65217264G>A	uc010yqa.1	+	1	809	c.487G>A	c.(487-489)GTC>ATC	p.V163I	SLC1A4_uc010ypy.1_Intron|SLC1A4_uc010ypz.1_Intron|SLC1A4_uc010fcv.2_Missense_Mutation_p.V163I	NM_003038	NP_003029	P43007	SATT_HUMAN	solute carrier family 1, member 4 isoform 1	163	Extracellular (Potential).				cellular nitrogen compound metabolic process|cognition|synaptic transmission, glutamatergic	intermediate filament|melanosome	chloride channel activity|L-alanine transmembrane transporter activity|L-cystine transmembrane transporter activity|L-hydroxyproline transmembrane transporter activity|L-proline transmembrane transporter activity|L-serine transmembrane transporter activity|L-threonine transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(1)	1					L-Alanine(DB00160)	GCCTCCTCCTGTCCCCAAAGA	0.652													4	17	---	---	---	---	PASS	A	65217264	A	A	65217264	3	1	89	1	0	0	0	0	1	0	0	0	14434	1377	48	3	489	3	SLC1A4	2	65217264	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	16318508	65217264	177982109	19	33518										
LONRF2	164832	broad.mit.edu	37	chr2	100938034	100938034	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	acgttcacgcgccgcacctgCggccgcgcgggccctggctc	14	19	1	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:100938034C>A	uc002tal.3	-	1	1162	c.522G>T	c.(520-522)CCG>CCT	p.P174P		NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	174					proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						GCCGCACCTGCGGCCGCGCGG	0.751													6	16	---	---	---	---	PASS	A	100938034	A	A	100938034	2	1	89	1	0	0	0	0	0	0	0	1	8895	755	27	1		1	LONRF2	2	100938034	Silent	SNP	C	TCGA-39-5029-01A-01D-1441-08	35720770	100938034	142261339	20	33519										
GPR45	11250	broad.mit.edu	37	chr2	105858749	105858749	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gcgccaggacaagctgaaccCgcgcagggccaaggtgatca	14	13	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:105858749C>T	uc002tco.1	+	1	550	c.434C>T	c.(433-435)CCG>CTG	p.P145L		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	145	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						AAGCTGAACCCGCGCAGGGCC	0.652													11	28	---	---	---	---	PASS	T	105858749	T	T	105858749	3	4	89	1	0	0	0	0	1	0	0	0	6696	652	23	1	436	1	GPR45	2	105858749	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	4920715	105858749	137340624	21	33520										
GCC2	9648	broad.mit.edu	37	chr2	109100746	109100746	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aaattcaaaaacagaaacaaGaaaccctacaagaagaaata	4	7	1	4			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:109100746G>C	uc002tec.2	+	13	3746	c.3592G>C	c.(3592-3594)GAA>CAA	p.E1198Q	GCC2_uc002ted.2_Missense_Mutation_p.E1097Q	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	1198	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						ACAGAAACAAGAAACCCTACA	0.269													5	47	---	---	---	---	PASS	C	109100746	C	C	109100746	3	2	89	1	0	0	0	0	1	0	0	0	6286	943	33	2	3642	2	GCC2	2	109100746	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	3241997	109100746	134098627	22	33521										
CNTNAP5	129684	broad.mit.edu	37	chr2	125281905	125281905	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aacttgaatgatggcctgtgGcactcggttagcatcaacgc	11	10	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:125281905G>C	uc002tno.2	+	9	1714	c.1350G>C	c.(1348-1350)TGG>TGC	p.W450C	CNTNAP5_uc010flu.2_Missense_Mutation_p.W451C	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	450	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		ATGGCCTGTGGCACTCGGTTA	0.527													19	107	---	---	---	---	PASS	C	125281905	C	C	125281905	3	2	89	1	0	0	0	0	1	0	0	0	3650	1212	42	4	1384	4	CNTNAP5	2	125281905	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	16181159	125281905	117917468	23	33522										
LRP1B	53353	broad.mit.edu	37	chr2	141356255	141356255	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tttttcctagactgccatctGagaaatacagcttctctgca	6	11	2	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:141356255G>A	uc002tvj.1	-	43	8111	c.7139C>T	c.(7138-7140)TCA>TTA	p.S2380L		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2380	Extracellular (Potential).|LDL-receptor class B 26.				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)		ACTGCCATCTGAGAAATACAG	0.398										TSP Lung(27;0.18)			46	118	---	---	---	---	PASS	A	141356255	A	A	141356255	3	1	89	1	0	0	0	0	1	0	0	0	8955	1294	45	2	6856	2	LRP1B	2	141356255	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	16074350	141356255	101843118	24	33523										
NEB	4703	broad.mit.edu	37	chr2	152522861	152522861	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tttaggatcatcctgaagacTgagaaatccaacttgcttgc	8	9	1	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:152522861T>G	uc010fnx.2	-	41	4965	c.4774A>C	c.(4774-4776)AGT>CGT	p.S1592R		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1592	Nebulin 41.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCCTGAAGACTGAGAAATCCA	0.428													57	128	---	---	---	---	PASS	G	152522861	G	G	152522861	3	3	89	1	0	0	0	0	1	0	0	0	10302	1580	55	5	21480	5	NEB	2	152522861	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	11166606	152522861	90676512	25	33524										
TTN	7273	broad.mit.edu	37	chr2	179499896	179499896	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	atgtgaaattactcacaggtGagggccttagaagttctcct	10	8	2	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:179499896G>T	uc010zfg.1	-	177	34540	c.34316C>A	c.(34315-34317)TCA>TAA	p.S11439*	TTN_uc010zfh.1_Nonsense_Mutation_p.S5134*|TTN_uc010zfi.1_Nonsense_Mutation_p.S5067*|TTN_uc010zfj.1_Nonsense_Mutation_p.S4942*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12366							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)			ACTCACAGGTGAGGGCCTTAG	0.353													4	193	---	---	---	---	PASS	T	179499896	T	T	179499896	4	4	89	1	0	0	0	0	0	1	0	0	16732	1294	45	2	66213	2	TTN	2	179499896	Nonsense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	26977035	179499896	63699477	26	33525										
TTN	7273	broad.mit.edu	37	chr2	179642226	179642226	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gtccattccccagaatcactGggtgtggcagggacaataat	11	10	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:179642226G>A	uc010zfg.1	-	26	4790	c.4566C>T	c.(4564-4566)CCC>CCT	p.P1522P	TTN_uc010zfh.1_Silent_p.P1476P|TTN_uc010zfi.1_Silent_p.P1476P|TTN_uc010zfj.1_Silent_p.P1476P|TTN_uc002unb.2_Silent_p.P1522P|uc002unc.1_RNA	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1522							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)			CAGAATCACTGGGTGTGGCAG	0.383													20	57	---	---	---	---	PASS	A	179642226	A	A	179642226	2	1	89	1	0	0	0	0	0	0	0	1	16732	1335	47	3		3	TTN	2	179642226	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	142330	179642226	63557147	27	33526										
TTN	7273	broad.mit.edu	37	chr2	179648821	179648821	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gcttcgcgtccgtgcagtacTtcaaagcgctcttcacggac	10	14	3	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:179648821T>C	uc010zfg.1	-	16	2975	c.2751A>G	c.(2749-2751)GAA>GAG	p.E917E	TTN_uc010zfh.1_Silent_p.E871E|TTN_uc010zfi.1_Silent_p.E871E|TTN_uc010zfj.1_Silent_p.E871E|TTN_uc002unb.2_Silent_p.E917E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	917							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)			CGTGCAGTACTTCAAAGCGCT	0.537													42	131	---	---	---	---	PASS	C	179648821	C	C	179648821	2	2	89	1	0	0	0	0	0	0	0	1	16732	1606	56	5		5	TTN	2	179648821	Silent	SNP	T	TCGA-39-5029-01A-01D-1441-08	6595	179648821	63550552	28	33527										
PLCD4	84812	broad.mit.edu	37	chr2	219499248	219499248	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gggcatttccgccagaatggCggctgtggctatgtgctgaa	15	9	0	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:219499248C>A	uc002vij.1	+	13	1986	c.1791C>A	c.(1789-1791)GGC>GGA	p.G597G		NM_032726	NP_116115	Q9BRC7	PLCD4_HUMAN	phospholipase C, delta 4	597	PI-PLC Y-box.				intracellular signal transduction|lipid catabolic process	endoplasmic reticulum|membrane|nucleus	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)	3		Renal(207;0.0915)		Epithelial(149;5.11e-07)|all cancers(144;0.000104)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		GCCAGAATGGCGGCTGTGGCT	0.517													3	88	---	---	---	---	PASS	A	219499248	A	A	219499248	2	1	89	1	0	0	0	0	0	0	0	1	12033	755	27	1		1	PLCD4	2	219499248	Silent	SNP	C	TCGA-39-5029-01A-01D-1441-08	39850427	219499248	23700125	29	33528										
COL6A3	1293	broad.mit.edu	37	chr2	238283095	238283095	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aacaccggctgcagcctgctCagctcctcgcgggtgagctg	13	15	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:238283095C>G	uc002vwl.2	-	8	3924	c.3639G>C	c.(3637-3639)CTG>CTC	p.L1213L	COL6A3_uc002vwo.2_Silent_p.L1007L|COL6A3_uc010znj.1_Silent_p.L606L|COL6A3_uc002vwq.2_Silent_p.L1007L|COL6A3_uc002vwr.2_Silent_p.L806L	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1213	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GCAGCCTGCTCAGCTCCTCGC	0.607													38	54	---	---	---	---	PASS	G	238283095	G	G	238283095	2	3	89	1	0	0	0	0	0	0	0	1	3701	813	29	2		2	COL6A3	2	238283095	Silent	SNP	C	TCGA-39-5029-01A-01D-1441-08	18783847	238283095	4916278	30	33529										
MTERFD2	130916	broad.mit.edu	37	chr2	242036818	242036818	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tggtgaaaatttcagggcaaCagtaaagcaccctctttaat	8	8	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr2:242036818C>G	uc002wan.1	-	2	1125	c.632G>C	c.(631-633)TGT>TCT	p.C211S	MTERFD2_uc010zoj.1_5'UTR|MTERFD2_uc010zok.1_Missense_Mutation_p.C182S	NM_182501	NP_872307	Q7Z6M4	MTER2_HUMAN	MTERF domain containing 2	182										ovary(1)	1		all_cancers(19;4.67e-31)|all_epithelial(40;8.67e-13)|Breast(86;0.000141)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;2.47e-32)|all cancers(36;1.79e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-14)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;2.81e-06)|Lung(119;0.000509)|LUSC - Lung squamous cell carcinoma(224;0.00442)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0886)		TTCAGGGCAACAGTAAAGCAC	0.443													28	73	---	---	---	---	PASS	G	242036818	G	G	242036818	3	3	89	1	0	0	0	0	1	0	0	0	9920	478	17	4	608	4	MTERFD2	2	242036818	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	3753723	242036818	1162555	31	33530										
SRGAP3	9901	broad.mit.edu	37	chr3	9036101	9036101	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cggccctcccaccagtcctcCgaggcgcggtggtacaggag	14	16	0	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr3:9036101C>T	uc003brf.1	-	19	3010	c.2334G>A	c.(2332-2334)TCG>TCA	p.S778S	SRGAP3_uc003brg.1_Silent_p.S754S	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	778	SH3.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		ACCAGTCCTCCGAGGCGCGGT	0.582			T	RAF1	pilocytic astrocytoma								60	192	---	---	---	---	PASS	T	9036101	T	T	9036101	2	4	89	1	0	0	0	0	0	0	0	1	15146	639	23	1		1	SRGAP3	3	9036101	Silent	SNP	C	TCGA-39-5029-01A-01D-1441-08		9036101	188986329	32	33531										
ACY1	95	broad.mit.edu	37	chr3	52019412	52019412	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gtggtgaccgtgttgacctgGccaggcaccaaccctacact	11	14	0	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr3:52019412G>A	uc003dcp.2	+	4	256	c.195G>A	c.(193-195)TGG>TGA	p.W65*	ABHD14B_uc003dcn.2_5'Flank|ACY1_uc011bea.1_Nonsense_Mutation_p.W155*|ACY1_uc011beb.1_Nonsense_Mutation_p.W65*|ACY1_uc003dcq.2_Nonsense_Mutation_p.W65*	NM_000666	NP_000657	Q03154	ACY1_HUMAN	aminoacylase 1	65					cellular amino acid metabolic process|proteolysis	cytosol	aminoacylase activity|metal ion binding|metallopeptidase activity			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	L-Aspartic Acid(DB00128)	TGTTGACCTGGCCAGGCACCA	0.612													4	80	---	---	---	---	PASS	A	52019412	A	A	52019412	4	1	89	1	0	0	0	0	0	1	0	0	226	1212	42	3	205	3	ACY1	3	52019412	Nonsense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	42983311	52019412	146003018	33	33532										
ATG3	64422	broad.mit.edu	37	chr3	112267419	112267419	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tacccatccgccatcaccatCatcttcttcaatgatagctt	3	15	5	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr3:112267419C>T	uc003dzd.2	-	5	414	c.304G>A	c.(304-306)GAT>AAT	p.D102N	ATG3_uc003dzc.2_Missense_Mutation_p.D102N|ATG3_uc010hqe.2_Missense_Mutation_p.D102N	NM_022488	NP_071933	Q9NT62	ATG3_HUMAN	Apg3p	102					autophagic vacuole assembly|mitochondrial fragmentation involved in apoptosis|protein targeting to membrane|protein ubiquitination	cytoplasmic ubiquitin ligase complex|cytosol	Atg12 ligase activity|Atg8 ligase activity|enzyme binding			ovary(3)	3						CCATCACCATCATCTTCTTCA	0.328													36	193	---	---	---	---	PASS	T	112267419	T	T	112267419	3	4	89	1	0	0	0	0	1	0	0	0	1095	826	29	2	672	2	ATG3	3	112267419	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	60248007	112267419	85755011	34	33533										
UPK1B	7348	broad.mit.edu	37	chr3	118917955	118917955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	accgacacgcctggggggttGcctggtttggatttgccatt	14	10	0	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr3:118917955G>T	uc003ecc.2	+	7	789	c.700G>T	c.(700-702)GCC>TCC	p.A234S	UPK1B_uc011bix.1_Missense_Mutation_p.A154S|UPK1B_uc003ecd.2_Missense_Mutation_p.A226S	NM_006952	NP_008883	O75841	UPK1B_HUMAN	uroplakin 1B	234	Helical; (Potential).				epithelial cell differentiation	integral to membrane	structural molecule activity				0				GBM - Glioblastoma multiforme(114;0.222)		CTGGGGGGTTGCCTGGTTTGG	0.493													35	66	---	---	---	---	PASS	T	118917955	T	T	118917955	3	4	89	1	0	0	0	0	1	0	0	0	17005	1319	46	3	722	3	UPK1B	3	118917955	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	6650536	118917955	79104475	35	33534										
COL6A6	131873	broad.mit.edu	37	chr3	130290112	130290112	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ggctgtggggattgatggtgCcaatcccgtggagctgttag	17	7	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr3:130290112C>A	uc010htl.2	+	6	2883	c.2852C>A	c.(2851-2853)GCC>GAC	p.A951D		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	951	VWFA 5.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						ATTGATGGTGCCAATCCCGTG	0.512													29	91	---	---	---	---	PASS	A	130290112	A	A	130290112	3	1	89	1	0	0	0	0	1	0	0	0	3703	739	26	3	2874	3	COL6A6	3	130290112	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	11372157	130290112	67732318	36	33535										
DNAJC13	23317	broad.mit.edu	37	chr3	132235581	132235581	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tttactggatatgttctgcaAttcaacacatccacaggttc	6	10	2	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr3:132235581A>G	uc003eor.2	+	48	5659	c.5594A>G	c.(5593-5595)AAT>AGT	p.N1865S		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1865							heat shock protein binding			ovary(1)|breast(1)	2						ATGTTCTGCAATTCAACACAT	0.343													14	62	---	---	---	---	PASS	G	132235581	G	G	132235581	3	3	89	1	0	0	0	0	1	0	0	0	4632	101	4	5	5780	5	DNAJC13	3	132235581	Missense_Mutation	SNP	A	TCGA-39-5029-01A-01D-1441-08	1945469	132235581	65786849	37	33536										
NPHP3	27031	broad.mit.edu	37	chr3	132419237	132419237	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gctggttgacatgggccttcCcacaaaatgggaaagaatca	11	9	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr3:132419237C>A	uc003epe.1	-	11	1761	c.1684G>T	c.(1684-1686)GGA>TGA	p.G562*	NPHP3_uc003epd.1_5'UTR|NPHP3_uc003epf.1_Nonsense_Mutation_p.G317*	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	562					maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						ATGGGCCTTCCCACAAAATGG	0.358													4	164	---	---	---	---	PASS	A	132419237	A	A	132419237	4	1	89	1	0	0	0	0	0	1	0	0	10580	632	22	3	2376	3	NPHP3	3	132419237	Nonsense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	183656	132419237	65603193	38	33537										
KIT	3815	broad.mit.edu	37	chr4	55602936	55602936	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gattctaagttctacaagatGatcaaggaaggcttccggat	10	7	3	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr4:55602936G>A	uc010igr.2	+	19	2733	c.2646G>A	c.(2644-2646)ATG>ATA	p.M882I	KIT_uc010igs.2_Missense_Mutation_p.M878I	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	882	Protein kinase.|Cytoplasmic (Potential).				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TCTACAAGATGATCAAGGAAG	0.448		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				30	122	---	---	---	---	PASS	A	55602936	A	A	55602936	3	1	89	1	0	0	0	0	1	0	0	0	8329	1290	45	2	2720	2	KIT	4	55602936	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08		55602936	135551340	39	33538										
PDCL2	132954	broad.mit.edu	37	chr4	56448312	56448312	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tctttctgtaaacgtaaaacCatttcttcaatttcatcttt	2	9	6	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr4:56448312C>G	uc003hbb.2	-	2	202	c.99G>C	c.(97-99)ATG>ATC	p.M33I		NM_152401	NP_689614	Q8N4E4	PDCL2_HUMAN	phosducin-like 2	33											0	Lung NSC(11;0.00256)|Glioma(25;0.08)|all_epithelial(27;0.0863)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.69e-07)|Lung(4;1.03e-06)|Epithelial(7;0.00669)			AACGTAAAACCATTTCTTCAA	0.358													25	85	---	---	---	---	PASS	G	56448312	G	G	56448312	3	3	89	1	0	0	0	0	1	0	0	0	11627	594	21	4	646	4	PDCL2	4	56448312	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	845376	56448312	134705964	40	33539										
HELQ	113510	broad.mit.edu	37	chr4	84358185	84358185	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aaacaggacacaggttgccaTtgccaatattcttcaagttc	7	10	2	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr4:84358185T>C	uc003hom.2	-	9	2053	c.1874A>G	c.(1873-1875)AAT>AGT	p.N625S	HELQ_uc010ikb.2_Missense_Mutation_p.N558S|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	625	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						CAGGTTGCCATTGCCAATATT	0.403								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					27	69	---	---	---	---	PASS	C	84358185	C	C	84358185	3	2	89	1	0	0	0	0	1	0	0	0	7047	1493	52	5	1471	5	HELQ	4	84358185	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	27909873	84358185	106796091	41	33540										
PTPN13	5783	broad.mit.edu	37	chr4	87684053	87684053	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ctgggggcctgcgggaaggaAgcctgagttctcaagattcc	15	10	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr4:87684053A>C	uc003hpz.2	+	24	4207	c.3727A>C	c.(3727-3729)AGC>CGC	p.S1243R	PTPN13_uc003hpy.2_Missense_Mutation_p.S1243R|PTPN13_uc003hqa.2_Missense_Mutation_p.S1224R|PTPN13_uc003hqb.2_Missense_Mutation_p.S1052R	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1243						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		GCGGGAAGGAAGCCTGAGTTC	0.532													42	97	---	---	---	---	PASS	C	87684053	C	C	87684053	3	2	89	1	0	0	0	0	1	0	0	0	12782	72	3	5	3817	5	PTPN13	4	87684053	Missense_Mutation	SNP	A	TCGA-39-5029-01A-01D-1441-08	3325868	87684053	103470223	42	33541										
HERC5	51191	broad.mit.edu	37	chr4	89385004	89385004	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	atatgacattccctttccttAggatgggctgctgtttactt	8	9	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr4:89385004A>G	uc003hrt.2	+	6	934	c.781_splice	c.e6-2	p.D261_splice		NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5						innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		CCCTTTCCTTAGGATGGGCTG	0.378													35	115	---	---	---	---	PASS	G	89385004	G	G	89385004	5	3	89	1	0	0	0	0	0	0	1	0	7061	434	15	5	801	5	HERC5	4	89385004	Splice_Site	SNP	A	TCGA-39-5029-01A-01D-1441-08	1700951	89385004	101769272	43	33542										
PRSS12	8492	broad.mit.edu	37	chr4	119273413	119273413	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gccccagtccaccttgccacGggcgtctccgtagaaacacc	9	18	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr4:119273413G>T	uc003ica.1	-	1	510	c.463C>A	c.(463-465)CGT>AGT	p.R155S		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	155	Kringle.					membrane	scavenger receptor activity			skin(1)	1						ACCTTGCCACGGGCGTCTCCG	0.692													6	17	---	---	---	---	PASS	T	119273413	T	T	119273413	3	4	89	1	0	0	0	0	1	0	0	0	12615	1116	39	1	2216	1	PRSS12	4	119273413	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	29888409	119273413	71880863	44	33543										
ADAMTS16	170690	broad.mit.edu	37	chr5	5146420	5146420	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tctgaggacttccagcagccTagtggctcctggctttattg	11	11	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr5:5146420T>C	uc003jdl.2	+	3	491	c.353T>C	c.(352-354)CTA>CCA	p.L118P	ADAMTS16_uc003jdk.1_Missense_Mutation_p.L118P|ADAMTS16_uc003jdj.1_Missense_Mutation_p.L118P	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	118					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TCCAGCAGCCTAGTGGCTCCT	0.537													90	96	---	---	---	---	PASS	C	5146420	C	C	5146420	3	2	89	1	0	0	0	0	1	0	0	0	261	1522	53	5	363	5	ADAMTS16	5	5146420	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08		5146420	175768840	45	33544										
CMBL	134147	broad.mit.edu	37	chr5	10286472	10286472	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	caaggcagatttaccatagaCggacacccctgccctgaatt	8	13	0	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr5:10286472C>T	uc003jes.2	-	4	911	c.460G>A	c.(460-462)GTC>ATC	p.V154I		NM_138809	NP_620164	Q96DG6	CMBL_HUMAN	carboxymethylenebutenolidase	154						cytosol	hydrolase activity|protein binding			skin(1)	1						TTACCATAGACGGACACCCCT	0.493													18	108	---	---	---	---	PASS	T	10286472	T	T	10286472	3	4	89	1	0	0	0	0	1	0	0	0	3576	536	19	1	289	1	CMBL	5	10286472	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	5140052	10286472	170628788	46	33545										
TRIM36	55521	broad.mit.edu	37	chr5	114469806	114469806	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tatcaaggcattgttataaaCtttgctctgttcctcattga	6	8	3	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr5:114469806C>A	uc003kqs.2	-	8	1794	c.1285G>T	c.(1285-1287)GTT>TTT	p.V429F	TRIM36_uc011cwc.1_Missense_Mutation_p.V417F|TRIM36_uc003kqt.2_Missense_Mutation_p.V274F	NM_018700	NP_061170	Q9NQ86	TRI36_HUMAN	tripartite motif-containing 36 isoform 1	429	Fibronectin type-III.					acrosomal vesicle|cytoskeleton	ligase activity|zinc ion binding	p.V429I(1)		ovary(4)|lung(2)|breast(2)	8		all_cancers(142;0.00133)|all_epithelial(76;2.41e-05)|Prostate(80;0.00955)|Ovarian(225;0.0443)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;3.62e-08)|Epithelial(69;7.69e-08)|all cancers(49;9.33e-06)		TTGTTATAAACTTTGCTCTGT	0.328													26	57	---	---	---	---	PASS	A	114469806	A	A	114469806	3	1	89	1	0	0	0	0	1	0	0	0	16507	565	20	3	913	3	TRIM36	5	114469806	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	104183334	114469806	66445454	47	33546										
SLC27A6	28965	broad.mit.edu	37	chr5	128362850	128362850	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	acctggacttctcatttctcGagtgaatgcaaaaaatccct	6	11	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr5:128362850G>C	uc003kuy.2	+	8	1676	c.1280G>C	c.(1279-1281)CGA>CCA	p.R427P	SLC27A6_uc003kuz.2_Missense_Mutation_p.R427P	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	427					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		CTCATTTCTCGAGTGAATGCA	0.368													35	80	---	---	---	---	PASS	C	128362850	C	C	128362850	3	2	89	1	0	0	0	0	1	0	0	0	14530	1058	37	2	1306	2	SLC27A6	5	128362850	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	13893044	128362850	52552410	48	33547										
PCDHB7	56129	broad.mit.edu	37	chr5	140553062	140553062	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gtttaaccctcaccgctttaGacggcggctctcctccaaga	8	15	2	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr5:140553062G>A	uc003lit.2	+	1	820	c.646G>A	c.(646-648)GAC>AAC	p.D216N		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	216	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACCGCTTTAGACGGCGGCTC	0.532													25	67	---	---	---	---	PASS	A	140553062	A	A	140553062	3	1	89	1	0	0	0	0	1	0	0	0	11547	942	33	2	648	2	PCDHB7	5	140553062	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	12190212	140553062	40362198	49	33548										
PCDHGA9	56107	broad.mit.edu	37	chr5	140783976	140783976	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tgatagcaatgagaattctaGagttatttactccttggcag	9	6	1	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr5:140783976G>A	uc003lkh.1	+	1	1457	c.1457G>A	c.(1456-1458)AGA>AAA	p.R486K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.R486K	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	486	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGAATTCTAGAGTTATTTAC	0.483													27	54	---	---	---	---	PASS	A	140783976	A	A	140783976	3	1	89	1	0	0	0	0	1	0	0	0	11561	942	33	2	1459	2	PCDHGA9	5	140783976	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	230914	140783976	40131284	50	33549										
UNC5A	90249	broad.mit.edu	37	chr5	176304243	176304243	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	taccccgagggaagatctatGagatctacctcacgctgcac	9	13	3	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr5:176304243G>A	uc003mey.2	+	9	1621	c.1429G>A	c.(1429-1431)GAG>AAG	p.E477K		NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	477	ZU5.|Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GAAGATCTATGAGATCTACCT	0.642													33	54	---	---	---	---	PASS	A	176304243	A	A	176304243	3	1	89	1	0	0	0	0	1	0	0	0	16988	1291	45	2	1463	2	UNC5A	5	176304243	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	35520267	176304243	4611017	51	33550										
TUBB2A	7280	broad.mit.edu	37	chr6	3155931	3155931	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	agagtccatggtgccaggctCcagatccaccaggatggccc	12	14	0	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr6:3155931C>T	uc003mvc.2	-	3	291	c.205G>A	c.(205-207)GAG>AAG	p.E69K	TUBB2A_uc003mvb.2_Missense_Mutation_p.E62K|TUBB2A_uc003mvd.2_Intron	NM_001069	NP_001060	Q13885	TBB2A_HUMAN	tubulin, beta 2	69					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			skin(1)	1	Ovarian(93;0.0386)	all_hematologic(90;0.0895)				GTGCCAGGCTCCAGATCCACC	0.527													39	64	---	---	---	---	PASS	T	3155931	T	T	3155931	3	4	89	1	0	0	0	0	1	0	0	0	16751	864	30	2	1140	2	TUBB2A	6	3155931	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08		3155931	167959136	52	33551										
TNFRSF21	27242	broad.mit.edu	37	chr6	47253871	47253871	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gacagtctgtgtatgctttgCatttcatcacactagaaggc	9	9	3	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr6:47253871C>A	uc003oyv.2	-	2	990	c.557G>T	c.(556-558)TGC>TTC	p.C186F		NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,	186	Extracellular (Potential).|TNFR-Cys 4.				cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)			GTATGCTTTGCATTTCATCAC	0.547													38	77	---	---	---	---	PASS	A	47253871	A	A	47253871	3	1	89	1	0	0	0	0	1	0	0	0	16292	710	25	3	1430	3	TNFRSF21	6	47253871	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	44097940	47253871	123861196	53	33552										
PKHD1	5314	broad.mit.edu	37	chr6	51918945	51918945	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	caggatcttgttcatgtggcCtttgtatgcaagacacagct	10	9	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr6:51918945C>T	uc003pah.1	-	20	2131	c.1855G>A	c.(1855-1857)GGC>AGC	p.G619S	PKHD1_uc003pai.2_Missense_Mutation_p.G619S	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	619	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TTCATGTGGCCTTTGTATGCA	0.438													41	138	---	---	---	---	PASS	T	51918945	T	T	51918945	3	4	89	1	0	0	0	0	1	0	0	0	11971	681	24	3	10600	3	PKHD1	6	51918945	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	4665074	51918945	119196122	54	33553										
C6orf142	90523	broad.mit.edu	37	chr6	54025338	54025338	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	attttcctgcacagctcaggCagcaaactgaagagctctgt	9	11	2	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr6:54025338C>A	uc003pcg.3	+	6	888	c.775C>A	c.(775-777)CAG>AAG	p.Q259K	C6orf142_uc003pcf.2_Missense_Mutation_p.Q783K|C6orf142_uc003pch.3_Intron|C6orf142_uc011dxa.1_Missense_Mutation_p.Q794K	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523	259						nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					ACAGCTCAGGCAGCAAACTGA	0.408													25	98	---	---	---	---	PASS	A	54025338	A	A	54025338	3	1	89	1	0	0	0	0	1	0	0	0	2333	711	25	3	797	3	C6orf142	6	54025338	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	2106393	54025338	117089729	55	33554										
NDUFAF4	29078	broad.mit.edu	37	chr6	97339016	97339016	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gctttcttgtcttcaggaggGaagatttcgacttcaaaagt	10	7	4	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr6:97339016G>A	uc003pow.2	-	3	582	c.492C>T	c.(490-492)TTC>TTT	p.F164F	NDUFAF4_uc003pov.2_RNA	NM_014165	NP_054884	Q9P032	NDUF4_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	164					mitochondrial respiratory chain complex I assembly	mitochondrial membrane	calmodulin binding			ovary(1)	1						CTTCAGGAGGGAAGATTTCGA	0.343													29	109	---	---	---	---	PASS	A	97339016	A	A	97339016	2	1	89	1	0	0	0	0	0	0	0	1	10277	1165	41	2		2	NDUFAF4	6	97339016	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	43313678	97339016	73776051	56	33555										
MAP3K4	4216	broad.mit.edu	37	chr6	161510413	161510413	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ctcacaattcagagaaaagcTttccagcagtccattgaggg	9	10	2	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr6:161510413T>G	uc003qtn.2	+	11	3025	c.2883T>G	c.(2881-2883)GCT>GCG	p.A961A	MAP3K4_uc010kkc.1_Silent_p.A961A|MAP3K4_uc003qto.2_Silent_p.A961A|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Silent_p.A414A|MAP3K4_uc003qtp.2_5'Flank	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	961					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)		AGAGAAAAGCTTTCCAGCAGT	0.473													58	225	---	---	---	---	PASS	G	161510413	G	G	161510413	2	3	89	1	0	0	0	0	0	0	0	1	9252	1596	56	5		5	MAP3K4	6	161510413	Silent	SNP	T	TCGA-39-5029-01A-01D-1441-08	64171397	161510413	9604654	57	33556										
STARD3NL	83930	broad.mit.edu	37	chr7	38254705	38254705	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gcgccattggtgggcaatagCggtgagtatgccctgcatga	15	9	0	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:38254705C>T	uc003tfr.2	+	4	528	c.380C>T	c.(379-381)GCG>GTG	p.A127V	STARD3NL_uc003tfs.2_Missense_Mutation_p.A127V|STARD3NL_uc003tft.2_Missense_Mutation_p.A127V	NM_032016	NP_114405	O95772	MENTO_HUMAN	MLN64 N-terminal homolog	127	MENTAL.|Helical; (Potential).					integral to membrane|late endosome membrane				ovary(1)	1						TGGGCAATAGCGGTGAGTATG	0.483													52	52	---	---	---	---	PASS	T	38254705	T	T	38254705	3	4	89	1	0	0	0	0	1	0	0	0	15257	782	27	1	390	1	STARD3NL	7	38254705	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08		38254705	120883958	58	33557										
BLVRA	644	broad.mit.edu	37	chr7	43840098	43840098	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gaggagcatgttgaactcttGatggaggaattcgctttcct	12	7	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:43840098G>C	uc003tir.2	+	6	470	c.387G>C	c.(385-387)TTG>TTC	p.L129F	BLVRA_uc010kxv.2_Missense_Mutation_p.L129F	NM_000712	NP_000703	P53004	BIEA_HUMAN	biliverdin reductase A precursor	129					heme catabolic process	cytosol	biliverdin reductase activity|zinc ion binding			ovary(1)	1					NADH(DB00157)	TTGAACTCTTGATGGAGGAAT	0.488													28	50	---	---	---	---	PASS	C	43840098	C	C	43840098	3	2	89	1	0	0	0	0	1	0	0	0	1451	1281	45	2	405	2	BLVRA	7	43840098	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	5585393	43840098	115298565	59	33558										
WBSCR22	114049	broad.mit.edu	37	chr7	73111966	73111966	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ggatgtcgaggcggggaatgGtgaggaagagtcgggcatgg	22	4	0	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:73111966G>A	uc003tyt.2	+	11	791	c.733G>A	c.(733-735)GTG>ATG	p.V245M	WBSCR22_uc003tyu.2_Missense_Mutation_p.V262M|WBSCR22_uc003tyv.2_Missense_Mutation_p.V207M|WBSCR22_uc003tyw.1_Missense_Mutation_p.V108M	NM_017528	NP_059998	O43709	WBS22_HUMAN	Williams Beuren syndrome chromosome region 22	245						nucleus	methyltransferase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				GCGGGGAATGGTGAGGAAGAG	0.647													7	65	---	---	---	---	PASS	A	73111966	A	A	73111966	3	1	89	1	0	0	0	0	1	0	0	0	17262	1261	44	3	775	3	WBSCR22	7	73111966	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	29271868	73111966	86026697	60	33559										
CCDC132	55610	broad.mit.edu	37	chr7	92905597	92905597	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	acacaaaattccaaaagctgCaatataaggatctctgtaca	5	9	1	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:92905597C>T	uc003umo.2	+	12	1050	c.922C>T	c.(922-924)CAA>TAA	p.Q308*	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Nonsense_Mutation_p.Q278*|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Intron|CCDC132_uc003umn.2_Nonsense_Mutation_p.Q308*	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	308											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			CCAAAAGCTGCAATATAAGGA	0.343													54	131	---	---	---	---	PASS	T	92905597	T	T	92905597	4	4	89	1	0	0	0	0	0	1	0	0	2767	711	25	3	968	3	CCDC132	7	92905597	Nonsense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	19793631	92905597	66233066	61	33560										
ZAN	7455	broad.mit.edu	37	chr7	100377230	100377230	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gcctcccgcatagacctcacGcccttcctggtggactgtgc	10	17	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:100377230G>T	uc003uwj.2	+	36	6645	c.6480G>T	c.(6478-6480)ACG>ACT	p.T2160T	ZAN_uc003uwk.2_Silent_p.T2160T|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Silent_p.T247T	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2160	Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			TAGACCTCACGCCCTTCCTGG	0.677													5	13	---	---	---	---	PASS	T	100377230	T	T	100377230	2	4	89	1	0	0	0	0	0	0	0	1	17510	1074	38	1		1	ZAN	7	100377230	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	7471633	100377230	58761433	62	33561										
MUC17	140453	broad.mit.edu	37	chr7	100677564	100677564	+	Missense_Mutation	SNP	C	A	A													0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tgacaccagcacacctgtgaCcacttctactgaagccactt							TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:100677564C>A	uc003uxp.1	+	3	2920	c.2867C>A	c.(2866-2868)ACC>AAC	p.T956N	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	956	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|14.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ACACCTGTGACCACTTCTACT	0.498													87	365	---	---	---	---	PASS	A	100677564	A	A	100677564	3	1	89	1	0	0	0	0	1	0	0	0	9974	507	18	3	2877	3	MUC17	7	100677564	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	300334	100677564	58461099	63	33562	652	2								
MUC17	140453	broad.mit.edu	37	chr7	100677565	100677565	+	Silent	SNP	C	A	A													0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gacaccagcacacctgtgacCacttctactgaagccacttc							TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:100677565C>A	uc003uxp.1	+	3	2921	c.2868C>A	c.(2866-2868)ACC>ACA	p.T956T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	956	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|14.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CACCTGTGACCACTTCTACTG	0.502													87	366	---	---	---	---	PASS	A	100677565	A	A	100677565	2	1	89	1	0	0	0	0	0	0	0	1	9974	581	21	3		3	MUC17	7	100677565	Silent	SNP	C	TCGA-39-5029-01A-01D-1441-08	1	100677565	58461098	64	33563	652	2								
CUX1	1523	broad.mit.edu	37	chr7	101747623	101747623	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ttcttttctgcagaggttacGataaaagcacttaaagagaa	8	6	2	2	rs143157780	byFrequency	TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:101747623G>C	uc003uyx.3	+	6	452	c.414G>C	c.(412-414)ACG>ACC	p.T138T	CUX1_uc003uys.3_Silent_p.T149T|CUX1_uc003uyt.2_Silent_p.T149T|CUX1_uc011kkn.1_Silent_p.T112T|CUX1_uc003uyw.2_Silent_p.T103T|CUX1_uc003uyv.2_Silent_p.T133T|CUX1_uc003uyu.2_Silent_p.T149T	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	138	Potential.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						CAGAGGTTACGATAAAAGCAC	0.393													44	169	---	---	---	---	PASS	C	101747623	C	C	101747623	2	2	89	1	0	0	0	0	0	0	0	1	4064	1045	37	2		2	CUX1	7	101747623	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	1070058	101747623	57391040	65	33564										
LAMB1	3912	broad.mit.edu	37	chr7	107599895	107599895	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tgacgggattgcagaaggcaTtgacagatccttgcagatgg	14	7	0	5			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:107599895T>C	uc003vew.2	-	20	2824	c.2489A>G	c.(2488-2490)AAT>AGT	p.N830S	LAMB1_uc003vev.2_Missense_Mutation_p.N854S	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	830	Laminin EGF-like 7.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCAGAAGGCATTGACAGATCC	0.498													22	81	---	---	---	---	PASS	C	107599895	C	C	107599895	3	2	89	1	0	0	0	0	1	0	0	0	8610	1493	52	5	2931	5	LAMB1	7	107599895	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	5852272	107599895	51538768	66	33565										
C7orf60	154743	broad.mit.edu	37	chr7	112535725	112535725	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ggagtggtcttagtggcaagTacagctcttttttcatcttt	10	7	4	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:112535725T>A	uc003vgo.1	-	3	499	c.372A>T	c.(370-372)GTA>GTT	p.V124V	C7orf60_uc011kms.1_Silent_p.V150V	NM_152556	NP_689769	Q1RMZ1	CG060_HUMAN	hypothetical protein LOC154743	124										ovary(2)|skin(1)	3						TAGTGGCAAGTACAGCTCTTT	0.353													38	137	---	---	---	---	PASS	A	112535725	A	A	112535725	2	1	89	1	0	0	0	0	0	0	0	1	2407	1625	57	5		5	C7orf60	7	112535725	Silent	SNP	T	TCGA-39-5029-01A-01D-1441-08	4935830	112535725	46602938	67	33566										
ANKRD7	56311	broad.mit.edu	37	chr7	117874559	117874559	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aattgagcaacaatgcaaaaTaaatgtccgggatagtgaaa	9	5	0	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:117874559T>C	uc003vji.2	+	2	427	c.254T>C	c.(253-255)ATA>ACA	p.I85T		NM_019644	NP_062618	Q92527	ANKR7_HUMAN	ankyrin repeat domain 7	85	ANK 1.				male gonad development						0						CAATGCAAAATAAATGTCCGG	0.343													25	79	---	---	---	---	PASS	C	117874559	C	C	117874559	3	2	89	1	0	0	0	0	1	0	0	0	686	1406	49	5	260	5	ANKRD7	7	117874559	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	5338834	117874559	41264104	68	33567										
SPAM1	6677	broad.mit.edu	37	chr7	123593967	123593967	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	taactgtgaatggaggaatcCcccagaagatttccttacaa	8	9	0	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:123593967C>T	uc003vld.2	+	4	745	c.343C>T	c.(343-345)CCC>TCC	p.P115S	SPAM1_uc003vle.2_Missense_Mutation_p.P115S|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.P115S|SPAM1_uc010lku.2_Missense_Mutation_p.P115S	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	115					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	TGGAGGAATCCCCCAGAAGAT	0.398													63	151	---	---	---	---	PASS	T	123593967	T	T	123593967	3	4	89	1	0	0	0	0	1	0	0	0	14986	623	22	3	345	3	SPAM1	7	123593967	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	5719408	123593967	35544696	69	33568										
CREB3L2	64764	broad.mit.edu	37	chr7	137590525	137590525	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gggcaatttggtggggatggGatagccctcagcgatcaggg	18	7	2	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:137590525G>A	uc003vtw.2	-	6	1233	c.838C>T	c.(838-840)CCC>TCC	p.P280S	CREB3L2_uc003vtx.1_Missense_Mutation_p.P280S|CREB3L2_uc003vtv.2_Missense_Mutation_p.P217S	NM_194071	NP_919047	Q70SY1	CR3L2_HUMAN	cAMP responsive element binding protein 3-like	280	Cytoplasmic (Potential).				chondrocyte differentiation|positive regulation of transcription, DNA-dependent|response to endoplasmic reticulum stress|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	cAMP response element binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		FUS/CREB3L2(158)	soft_tissue(158)|upper_aerodigestive_tract(1)|ovary(1)	160						GTGGGGATGGGATAGCCCTCA	0.517			T	FUS	fibromyxoid sarcoma								104	234	---	---	---	---	PASS	A	137590525	A	A	137590525	3	1	89	1	0	0	0	0	1	0	0	0	3857	1174	41	2	752	2	CREB3L2	7	137590525	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	13996558	137590525	21548138	70	33569										
MLL3	58508	broad.mit.edu	37	chr7	151878809	151878809	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ggatggaggaggttgcattgGagtcttaaaaggtccaggac	16	5	1	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr7:151878809G>T	uc003wla.2	-	36	6355	c.6136C>A	c.(6136-6138)CCA>ACA	p.P2046T	MLL3_uc003wkz.2_Missense_Mutation_p.P1107T	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2046	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGTTGCATTGGAGTCTTAAAA	0.483			N		medulloblastoma								52	95	---	---	---	---	PASS	T	151878809	T	T	151878809	3	4	89	1	0	0	0	0	1	0	0	0	9622	1174	41	2	8695	2	MLL3	7	151878809	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	14288284	151878809	7259854	71	33570										
CSMD1	64478	broad.mit.edu	37	chr8	3165292	3165292	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	catacggagctggatagccaGgggacaatattcgtcctgat	12	9	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr8:3165292G>T	uc011kwk.1	-	25	4268	c.3878C>A	c.(3877-3879)CCT>CAT	p.P1293H	CSMD1_uc011kwj.1_Missense_Mutation_p.P685H|CSMD1_uc003wqe.2_Missense_Mutation_p.P449H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1293	Extracellular (Potential).|CUB 8.					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)		TGGATAGCCAGGGGACAATAT	0.483													63	75	---	---	---	---	PASS	T	3165292	T	T	3165292	3	4	89	1	0	0	0	0	1	0	0	0	3944	1000	35	3	7003	3	CSMD1	8	3165292	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08		3165292	143198730	72	33571										
ADAM9	8754	broad.mit.edu	37	chr8	38913123	38913123	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	caggaggtactttatgccgaGgaaaaaccagtgagtgtgat	13	6	0	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr8:38913123G>A	uc003xmr.2	+	14	1501	c.1423G>A	c.(1423-1425)GGA>AGA	p.G475R	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_RNA|ADAM9_uc010lwr.2_RNA|ADAM9_uc003xms.2_RNA	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	475	Extracellular (Potential).|Disintegrin.				activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			TTTATGCCGAGGAAAAACCAG	0.368													60	674	---	---	---	---	PASS	A	38913123	A	A	38913123	3	1	89	1	0	0	0	0	1	0	0	0	253	1001	35	3	1477	3	ADAM9	8	38913123	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	35747831	38913123	107450899	73	33572										
RB1CC1	9821	broad.mit.edu	37	chr8	53586413	53586413	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aacgttacttaccctgctcaTagaatcaaagcacttcctga	5	12	2	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr8:53586413T>A	uc003xre.3	-	7	1552	c.994A>T	c.(994-996)ATG>TTG	p.M332L	RB1CC1_uc003xrf.3_Missense_Mutation_p.M332L	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	332					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				ACCCTGCTCATAGAATCAAAG	0.318													41	61	---	---	---	---	PASS	A	53586413	A	A	53586413	3	1	89	1	0	0	0	0	1	0	0	0	13099	1406	49	5	3862	5	RB1CC1	8	53586413	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	14673290	53586413	92777609	74	33573										
MTBP	27085	broad.mit.edu	37	chr8	121483082	121483082	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tggtgctctttttgtattgcCatgtaccattagtaacatac	7	8	1	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr8:121483082C>T	uc003ypc.1	+	11	1115	c.1070C>T	c.(1069-1071)CCA>CTA	p.P357L	MTBP_uc011lie.1_RNA	NM_022045	NP_071328	Q96DY7	MTBP_HUMAN	Mdm2, transformed 3T3 cell double minute 2, p53	357					cell cycle arrest					skin(2)|ovary(1)	3	Lung NSC(37;5.68e-08)|Ovarian(258;0.00769)|all_neural(195;0.0804)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00503)			TTTGTATTGCCATGTACCATT	0.353													19	175	---	---	---	---	PASS	T	121483082	T	T	121483082	3	4	89	1	0	0	0	0	1	0	0	0	9912	594	21	3	1112	3	MTBP	8	121483082	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	67896669	121483082	24880940	75	33574										
KLHL38	340359	broad.mit.edu	37	chr8	124664915	124664915	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	taggagacgatctggtccagGgttggggggtcaatgccttt	16	7	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr8:124664915G>A	uc003yqs.1	-	1	276	c.252C>T	c.(250-252)ACC>ACT	p.T84T		NM_001081675	NP_001075144	Q2WGJ6	KLH38_HUMAN	kelch-like 38	84	BTB.										0						TCTGGTCCAGGGTTGGGGGGT	0.582													30	69	---	---	---	---	PASS	A	124664915	A	A	124664915	2	1	89	1	0	0	0	0	0	0	0	1	8390	1219	43	3		3	KLHL38	8	124664915	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	3181833	124664915	21699107	76	33575										
KIFC2	90990	broad.mit.edu	37	chr8	145697332	145697332	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ccgcctcccgcaggtcttcaGagagctggaacctgcggtgc	13	15	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr8:145697332G>C	uc003zcz.2	+	13	1453	c.1388G>C	c.(1387-1389)AGA>ACA	p.R463T	KIFC2_uc003zda.2_5'Flank	NM_145754	NP_665697	Q96AC6	KIFC2_HUMAN	kinesin family member C2	463	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CAGGTCTTCAGAGAGCTGGAA	0.597													68	128	---	---	---	---	PASS	C	145697332	C	C	145697332	3	2	89	1	0	0	0	0	1	0	0	0	8313	942	33	2	1438	2	KIFC2	8	145697332	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	21032417	145697332	666690	77	33576										
KIFC2	90990	broad.mit.edu	37	chr8	145697404	145697404	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cttcacctatggccagacagGcaccgggaagacctacagca	10	14	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr8:145697404G>A	uc003zcz.2	+	13	1525	c.1460G>A	c.(1459-1461)GGC>GAC	p.G487D	KIFC2_uc003zda.2_5'Flank	NM_145754	NP_665697	Q96AC6	KIFC2_HUMAN	kinesin family member C2	487	ATP (By similarity).|Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			GGCCAGACAGGCACCGGGAAG	0.637													63	120	---	---	---	---	PASS	A	145697404	A	A	145697404	3	1	89	1	0	0	0	0	1	0	0	0	8313	1203	42	3	1510	3	KIFC2	8	145697404	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	72	145697404	666618	78	33577										
ARHGAP39	80728	broad.mit.edu	37	chr8	145773748	145773748	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tgccggagggtctgcgggagCggaccccaggtgggccgtct	19	12	2	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr8:145773748C>T	uc003zdt.1	-	6	1277	c.722G>A	c.(721-723)CGC>CAC	p.R241H	ARHGAP39_uc011llk.1_Missense_Mutation_p.R241H|ARHGAP39_uc003zds.1_Missense_Mutation_p.R241H	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	241	Pro-rich.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						TCTGCGGGAGCGGACCCCAGG	0.692													6	30	---	---	---	---	PASS	T	145773748	T	T	145773748	3	4	89	1	0	0	0	0	1	0	0	0	884	768	27	1	2654	1	ARHGAP39	8	145773748	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	76344	145773748	590274	79	33578										
LPPR1	54886	broad.mit.edu	37	chr9	104048410	104048410	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ttattggtgagatatccatgTatttcataaaatcaacaaga	6	5	2	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr9:104048410T>C	uc004bbb.2	+	4	676	c.277T>C	c.(277-279)TAT>CAT	p.Y93H	LPPR1_uc011lvi.1_Missense_Mutation_p.Y69H|LPPR1_uc004bbc.2_Missense_Mutation_p.Y93H|LPPR1_uc010mtc.2_Missense_Mutation_p.Y77H	NM_207299	NP_997182	Q8TBJ4	LPPR1_HUMAN	plasticity related gene 3	93						integral to membrane	catalytic activity				0						GATATCCATGTATTTCATAAA	0.373													52	124	---	---	---	---	PASS	C	104048410	C	C	104048410	3	2	89	1	0	0	0	0	1	0	0	0	8924	1638	57	5	287	5	LPPR1	9	104048410	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08		104048410	37165021	80	33579										
LPPR1	54886	broad.mit.edu	37	chr9	104048506	104048506	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	accccttacttcgaaggatcAtaagattcacaggtgagtac	8	10	2	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr9:104048506A>G	uc004bbb.2	+	4	772	c.373A>G	c.(373-375)ATA>GTA	p.I125V	LPPR1_uc011lvi.1_Missense_Mutation_p.I101V|LPPR1_uc004bbc.2_Missense_Mutation_p.I125V|LPPR1_uc010mtc.2_Missense_Mutation_p.I109V	NM_207299	NP_997182	Q8TBJ4	LPPR1_HUMAN	plasticity related gene 3	125						integral to membrane	catalytic activity				0						TCGAAGGATCATAAGATTCAC	0.368													45	87	---	---	---	---	PASS	G	104048506	G	G	104048506	3	3	89	1	0	0	0	0	1	0	0	0	8924	217	8	5	383	5	LPPR1	9	104048506	Missense_Mutation	SNP	A	TCGA-39-5029-01A-01D-1441-08	96	104048506	37164925	81	33580										
PRPF4	9128	broad.mit.edu	37	chr9	116049074	116049074	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tcaacctggcctcttgtgcgGctgatggctctgtgaagctt	12	11	3	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr9:116049074G>A	uc004bgx.2	+	9	951	c.901G>A	c.(901-903)GCT>ACT	p.A301T	PRPF4_uc004bgy.2_Missense_Mutation_p.A300T	NM_004697	NP_004688	O43172	PRP4_HUMAN	PRP4 pre-mRNA processing factor 4 homolog	301	WD 2.					Cajal body|nuclear speck|spliceosomal complex|U4/U6 snRNP	protein binding			ovary(2)|pancreas(1)	3						CTCTTGTGCGGCTGATGGCTC	0.478													229	424	---	---	---	---	PASS	A	116049074	A	A	116049074	3	1	89	1	0	0	0	0	1	0	0	0	12570	1203	42	3	935	3	PRPF4	9	116049074	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	12000568	116049074	25164357	82	33581										
DENND1A	57706	broad.mit.edu	37	chr9	126429330	126429330	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	caggtatgctgggaagttctCtggtatcaggcacagtaaaa	12	7	2	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr9:126429330C>A	uc004bnz.1	-	8	715	c.482G>T	c.(481-483)AGA>ATA	p.R161I	DENND1A_uc004bny.1_5'UTR|DENND1A_uc011lzm.1_Missense_Mutation_p.R129I|DENND1A_uc004boa.1_Missense_Mutation_p.R161I|DENND1A_uc004bob.1_Missense_Mutation_p.R131I|DENND1A_uc004boc.2_Missense_Mutation_p.R129I	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	161	DENN.					cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						GGGAAGTTCTCTGGTATCAGG	0.303													4	165	---	---	---	---	PASS	A	126429330	A	A	126429330	3	1	89	1	0	0	0	0	1	0	0	0	4426	913	32	2	2714	2	DENND1A	9	126429330	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	10380256	126429330	14784101	83	33582										
GOLGA2	2801	broad.mit.edu	37	chr9	131030746	131030746	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ggcaccaggggaagggacacCgccaggtaacacggtgtcat	15	11	1	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr9:131030746C>A	uc011maw.1	-	3	278	c.265G>T	c.(265-267)GGT>TGT	p.G89C	GOLGA2_uc010mxw.2_Intron|GOLGA2_uc004bul.1_5'UTR|GOLGA2_uc004bum.1_5'UTR	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	89	Potential.					Golgi cisterna membrane	protein binding			ovary(1)	1						GAAGGGACACCGCCAGGTAAC	0.577													20	43	---	---	---	---	PASS	A	131030746	A	A	131030746	3	1	89	1	0	0	0	0	1	0	0	0	6552	652	23	1	2839	1	GOLGA2	9	131030746	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	4601416	131030746	10182685	84	33583										
SLC39A12	221074	broad.mit.edu	37	chr10	18250558	18250558	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tagctggaggaaattttgaaGatcagcttagagaagaagtg	13	3	1	4			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr10:18250558G>T	uc001ipo.2	+	3	583	c.310G>T	c.(310-312)GAT>TAT	p.D104Y	SLC39A12_uc001ipn.2_Missense_Mutation_p.D104Y|SLC39A12_uc001ipp.2_Missense_Mutation_p.D104Y|SLC39A12_uc010qck.1_5'UTR	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	104	Extracellular (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						AAATTTTGAAGATCAGCTTAG	0.358													37	101	---	---	---	---	PASS	T	18250558	T	T	18250558	3	4	89	1	0	0	0	0	1	0	0	0	14615	942	33	2	316	2	SLC39A12	10	18250558	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08		18250558	117284189	85	33584										
MYO3A	53904	broad.mit.edu	37	chr10	26377272	26377272	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aaattcacctcttctggagcGgtagtgggagcacagatttc	11	9	3	1	rs146797033	byFrequency	TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr10:26377272G>T	uc001isn.2	+	15	1860	c.1500G>T	c.(1498-1500)GCG>GCT	p.A500A	MYO3A_uc009xko.1_Silent_p.A500A|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Silent_p.A500A	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	500	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						CTTCTGGAGCGGTAGTGGGAG	0.383													36	87	---	---	---	---	PASS	T	26377272	T	T	26377272	2	4	89	1	0	0	0	0	0	0	0	1	10076	1103	39	1		1	MYO3A	10	26377272	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	8126714	26377272	109157475	86	33585										
ANKRD30A	91074	broad.mit.edu	37	chr10	37438704	37438704	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tttgcttccaaccccatttaGcctgccattgaaatgcaaaa	5	12	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr10:37438704G>T	uc001iza.1	+	11	1504	c.1405_splice	c.e11-1	p.P469_splice		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						ACCCCATTTAGCCTGCCATTG	0.279													34	114	---	---	---	---	PASS	T	37438704	T	T	37438704	5	4	89	1	0	0	0	0	0	0	1	0	658	985	34	3	1446	3	ANKRD30A	10	37438704	Splice_Site	SNP	G	TCGA-39-5029-01A-01D-1441-08	11061432	37438704	98096043	87	33586										
PPYR1	5540	broad.mit.edu	37	chr10	47086886	47086886	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	acaacttctctgaacattgcCaggattccgtggacgtgatg	10	10	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr10:47086886C>T	uc001jee.2	+	3	522	c.103C>T	c.(103-105)CAG>TAG	p.Q35*	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Nonsense_Mutation_p.Q35*	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	35	Extracellular (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						TGAACATTGCCAGGATTCCGT	0.532													9	184	---	---	---	---	PASS	T	47086886	T	T	47086886	4	4	89	1	0	0	0	0	0	1	0	0	12416	595	21	3	105	3	PPYR1	10	47086886	Nonsense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	9648182	47086886	88447861	88	33587										
C10orf53	282966	broad.mit.edu	37	chr10	50916591	50916591	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	catttccaaaccaatctttgTgacctgggttggccaggcct	9	12	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr10:50916591T>A	uc001jid.1	+	3	462	c.402T>A	c.(400-402)TGT>TGA	p.C134*		NM_182554	NP_872360	Q8N6V4	CJ053_HUMAN	chromosome 10 open reading frame 53 isoform a	Error:Variant_position_missing_in_Q8N6V4_after_alignment											0		all_neural(218;0.107)				ccaatctttgtgacctgggtt	0													18	165	---	---	---	---	PASS	A	50916591	A	A	50916591	4	1	89	1	0	0	0	0	0	1	0	0	1606	1702	59	5	481	5	C10orf53	10	50916591	Nonsense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	3829705	50916591	84618156	89	33588										
PCDH15	65217	broad.mit.edu	37	chr10	55582055	55582055	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aggagttggaaatggaggtaGaagaggtggtgttgggggac	21	1	0	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr10:55582055G>C	uc001jju.1	-	33	5826	c.5431C>G	c.(5431-5433)CTA>GTA	p.L1811V	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.L1808V|PCDH15_uc010qhw.1_Missense_Mutation_p.L1771V|PCDH15_uc010qhx.1_Missense_Mutation_p.L1742V|PCDH15_uc010qhy.1_Missense_Mutation_p.L1818V|PCDH15_uc010qhz.1_Missense_Mutation_p.L1813V|PCDH15_uc010qia.1_Missense_Mutation_p.L1791V|PCDH15_uc010qib.1_Missense_Mutation_p.L1788V	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1811	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				aatggaggtagaagaggtggT	0.169										HNSCC(58;0.16)			7	30	---	---	---	---	PASS	C	55582055	C	C	55582055	3	2	89	1	0	0	0	0	1	0	0	0	11511	933	33	2	2046	2	PCDH15	10	55582055	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	4665464	55582055	79952692	90	33589										
OIT3	170392	broad.mit.edu	37	chr10	74684033	74684033	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	caacctcgtgacaggtctacCcaagcagaccccggggagca	11	15	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr10:74684033C>A	uc001jte.1	+	7	1216	c.998C>A	c.(997-999)CCC>CAC	p.P333H	OIT3_uc009xqs.1_Intron	NM_152635	NP_689848	Q8WWZ8	OIT3_HUMAN	oncoprotein-induced transcript 3 precursor	333	ZP.					nuclear envelope	calcium ion binding			ovary(2)	2	Prostate(51;0.0198)					ACAGGTCTACCCAAGCAGACC	0.552													21	161	---	---	---	---	PASS	A	74684033	A	A	74684033	3	1	89	1	0	0	0	0	1	0	0	0	10849	623	22	3	1024	3	OIT3	10	74684033	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	19101978	74684033	60850714	91	33590										
PSD	5662	broad.mit.edu	37	chr10	104174911	104174911	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cggagtacttggctgctcgcCccacagccaccccagagccc	10	19	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr10:104174911C>A	uc001kvg.1	-	4	1360	c.833G>T	c.(832-834)GGG>GTG	p.G278V	PSD_uc001kvh.1_5'UTR|PSD_uc009xxd.1_Missense_Mutation_p.G278V	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	278					regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		GGCTGCTCGCCCCACAGCCAC	0.657													13	60	---	---	---	---	PASS	A	104174911	A	A	104174911	3	1	89	1	0	0	0	0	1	0	0	0	12646	623	22	3	2297	3	PSD	10	104174911	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	29490878	104174911	31359836	92	33591										
BCCIP	56647	broad.mit.edu	37	chr10	127524721	127524721	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tgcaggaggagagcgacactTgtctgggaggcaaatggtct	16	7	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr10:127524721T>A	uc001ljb.3	+	7	846	c.823T>A	c.(823-825)TGT>AGT	p.C275S	BCCIP_uc001ljd.3_Intron|BCCIP_uc010qui.1_Intron|BCCIP_uc001ljc.3_Intron|BCCIP_uc010quj.1_Intron	NM_078468	NP_510868	Q9P287	BCCIP_HUMAN	BRCA2 and CDKN1A-interacting protein isoform	275					cell cycle|DNA repair|neuroendocrine cell differentiation|regulation of cyclin-dependent protein kinase activity	nuclear cyclin-dependent protein kinase holoenzyme complex	kinase regulator activity|protein binding			ovary(1)|breast(1)	2		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GAGCGACACTTGTCTGGGAGG	0.423													31	190	---	---	---	---	PASS	A	127524721	A	A	127524721	3	1	89	1	0	0	0	0	1	0	0	0	1356	1812	63	5	849	5	BCCIP	10	127524721	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	23349810	127524721	8010026	93	33592										
MKI67	4288	broad.mit.edu	37	chr10	129905711	129905711	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tttcaagccagccaggtcttCtaggggttgggccttttcct	11	11	3	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr10:129905711C>G	uc001lke.2	-	13	4588	c.4393G>C	c.(4393-4395)GAA>CAA	p.E1465Q	MKI67_uc001lkf.2_Missense_Mutation_p.E1105Q|MKI67_uc009yav.1_Missense_Mutation_p.E1040Q|MKI67_uc009yaw.1_Missense_Mutation_p.E615Q	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1465	16 X 122 AA approximate repeats.|4.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GCCAGGTCTTCTAGGGGTTGG	0.498													57	231	---	---	---	---	PASS	G	129905711	G	G	129905711	3	3	89	1	0	0	0	0	1	0	0	0	9598	922	32	2	5389	2	MKI67	10	129905711	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	2380990	129905711	5629036	94	33593										
OR52A1	23538	broad.mit.edu	37	chr11	5173278	5173278	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tgactctataccctgcaatgTgtggatgaaccacatttgaa	8	9	1	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:5173278T>C	uc010qyy.1	-	1	322	c.322A>G	c.(322-324)ACA>GCA	p.T108A		NM_012375	NP_036507	Q9UKL2	O52A1_HUMAN	olfactory receptor, family 52, subfamily A,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.00106)|Breast(177;0.0155)|all_neural(188;0.0189)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCCTGCAATGTGTGGATGAAC	0.453													4	32	---	---	---	---	PASS	C	5173278	C	C	5173278	3	2	89	1	0	0	0	0	1	0	0	0	11108	1696	59	5	618	5	OR52A1	11	5173278	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08		5173278	129833238	95	33594										
TRIM22	10346	broad.mit.edu	37	chr11	5730645	5730645	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	catgtgaatataatgcttttGaggactcctcctcttctgat	7	9	2	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:5730645G>C	uc001mbr.2	+	8	1541	c.1264G>C	c.(1264-1266)GAG>CAG	p.E422Q	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|TRIM22_uc009yes.2_Missense_Mutation_p.E418Q|TRIM22_uc010qzm.1_Missense_Mutation_p.E250Q|TRIM22_uc009yeu.2_Missense_Mutation_p.E233Q|OR56B1_uc001mbs.1_Intron|OR56B1_uc009yev.1_Intron	NM_006074	NP_006065	Q8IYM9	TRI22_HUMAN	tripartite motif-containing 22	422	B30.2/SPRY.				immune response|interspecies interaction between organisms|protein trimerization|response to virus	Cajal body|Golgi apparatus|nuclear speck	ligase activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)		TAATGCTTTTGAGGACTCCTC	0.408													15	177	---	---	---	---	PASS	C	5730645	C	C	5730645	3	2	89	1	0	0	0	0	1	0	0	0	16493	1291	45	2	1290	2	TRIM22	11	5730645	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	557367	5730645	129275871	96	33595										
OR56A1	120796	broad.mit.edu	37	chr11	6048128	6048128	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gggaccttctttctggccacGtttgtcaacaccacaaccag	8	14	3	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:6048128G>A	uc010qzw.1	-	1	807	c.807C>T	c.(805-807)AAC>AAT	p.N269N		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTCTGGCCACGTTTGTCAACA	0.522													49	114	---	---	---	---	PASS	A	6048128	A	A	6048128	2	1	89	1	0	0	0	0	0	0	0	1	11133	1136	40	1		1	OR56A1	11	6048128	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	317483	6048128	128958388	97	33596										
DENND5A	23258	broad.mit.edu	37	chr11	9200611	9200611	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	attgctgctggggtcttcacGcacttccaactacaaaaaaa	7	11	2	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:9200611G>A	uc001mhl.2	-	7	1720	c.1465C>T	c.(1465-1467)CGT>TGT	p.R489C	DENND5A_uc010rbw.1_Missense_Mutation_p.R489C|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	489										liver(1)	1						GGGTCTTCACGCACTTCCAAC	0.363													44	118	---	---	---	---	PASS	A	9200611	A	A	9200611	3	1	89	1	0	0	0	0	1	0	0	0	4436	1087	38	1	2466	1	DENND5A	11	9200611	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	3152483	9200611	125805905	98	33597										
MRGPRX4	117196	broad.mit.edu	37	chr11	18194896	18194896	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aatcagaccctgagcttcacGgtgctgacgtgcatcatttc	9	12	3	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:18194896G>A	uc001mnv.1	+	1	513	c.93G>A	c.(91-93)ACG>ACA	p.T31T		NM_054032	NP_473373	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	31	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						TGAGCTTCACGGTGCTGACGT	0.547													64	192	---	---	---	---	PASS	A	18194896	A	A	18194896	2	1	89	1	0	0	0	0	0	0	0	1	9769	1103	39	1		1	MRGPRX4	11	18194896	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	8994285	18194896	116811620	99	33598										
LGR4	55366	broad.mit.edu	37	chr11	27395522	27395522	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ctgcataatcatccacttacAggttagttattggcccaagt	7	10	1	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:27395522A>C	uc001mrj.3	-	14	1738	c.1253T>G	c.(1252-1254)CTA>CGA	p.L418R	LGR4_uc001mrk.3_Missense_Mutation_p.L394R	NM_018490	NP_060960	Q9BXB1	LGR4_HUMAN	leucine-rich repeat-containing G protein-coupled	418	LRR 15.|Extracellular (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1						ATCCACTTACAGGTTAGTTAT	0.328													96	347	---	---	---	---	PASS	C	27395522	C	C	27395522	3	2	89	1	0	0	0	0	1	0	0	0	8756	202	7	5	1622	5	LGR4	11	27395522	Missense_Mutation	SNP	A	TCGA-39-5029-01A-01D-1441-08	9200626	27395522	107610994	100	33599										
OR4B1	119765	broad.mit.edu	37	chr11	48238741	48238741	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ctacgtggccatttgcaagcCtcttcattatatgaacatta	6	10	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:48238741C>T	uc010rhs.1	+	1	380	c.380C>T	c.(379-381)CCT>CTT	p.P127L		NM_001005470	NP_001005470	Q8NGF8	OR4B1_HUMAN	olfactory receptor, family 4, subfamily B,	127	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|pancreas(1)	4						ATTTGCAAGCCTCTTCATTAT	0.463													61	112	---	---	---	---	PASS	T	48238741	T	T	48238741	3	4	89	1	0	0	0	0	1	0	0	0	11044	681	24	3	382	3	OR4B1	11	48238741	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	20843219	48238741	86767775	101	33600										
OR8H2	390151	broad.mit.edu	37	chr11	55872975	55872975	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ctgggccttatgtgattggcTttatagactcctttgtcaac	9	9	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:55872975T>C	uc010riy.1	+	1	457	c.457T>C	c.(457-459)TTT>CTT	p.F153L		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	153	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					TGTGATTGGCTTTATAGACTC	0.443										HNSCC(53;0.14)			82	245	---	---	---	---	PASS	C	55872975	C	C	55872975	3	2	89	1	0	0	0	0	1	0	0	0	11238	1609	56	5	459	5	OR8H2	11	55872975	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	7634234	55872975	79133541	102	33601										
OR5R1	219479	broad.mit.edu	37	chr11	56184866	56184866	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	agggggtttaacatggggatCaccactgtgtaaaatacaga	12	6	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:56184866C>T	uc010rji.1	-	1	843	c.843G>A	c.(841-843)GTG>GTA	p.V281V		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	281	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					ACATGGGGATCACCACTGTGT	0.388													22	213	---	---	---	---	PASS	T	56184866	T	T	56184866	2	4	89	1	0	0	0	0	0	0	0	1	11180	813	29	2		2	OR5R1	11	56184866	Silent	SNP	C	TCGA-39-5029-01A-01D-1441-08	311891	56184866	78821650	103	33602										
AHNAK	79026	broad.mit.edu	37	chr11	62287374	62287374	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tttgatatttatttcaggcaTcttgaacttggggcccttca	8	8	3	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:62287374T>C	uc001ntl.2	-	5	14815	c.14515A>G	c.(14515-14517)ATG>GTG	p.M4839V	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4839					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				ATTTCAGGCATCTTGAACTTG	0.463													57	189	---	---	---	---	PASS	C	62287374	C	C	62287374	3	2	89	1	0	0	0	0	1	0	0	0	414	1435	50	5	3277	5	AHNAK	11	62287374	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	6102508	62287374	72719142	104	33603										
DHCR7	1717	broad.mit.edu	37	chr11	71152283	71152283	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aagaacataccagtctctggCgctggtggggaagaagtagc	14	8	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:71152283C>T	uc001oqk.2	-	6	866	c.616G>A	c.(616-618)GCC>ACC	p.A206T	DHCR7_uc001oql.2_Missense_Mutation_p.A206T	NM_001163817	NP_001157289	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	206					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|nuclear outer membrane	7-dehydrocholesterol reductase activity|protein binding			ovary(1)|liver(1)	2					NADH(DB00157)	CAGTCTCTGGCGCTGGTGGGG	0.562									Smith-Lemli-Opitz_syndrome				36	67	---	---	---	---	PASS	T	71152283	T	T	71152283	3	4	89	1	0	0	0	0	1	0	0	0	4477	768	27	1	827	1	DHCR7	11	71152283	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	8864909	71152283	63854233	105	33604										
ROBO4	54538	broad.mit.edu	37	chr11	124756583	124756583	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aggcagggccgaggtgggcaCagcaagactccccccttggg	16	13	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:124756583C>T	uc001qbg.2	-	16	2711	c.2571G>A	c.(2569-2571)CTG>CTA	p.L857L	ROBO4_uc010sas.1_Silent_p.L712L|ROBO4_uc001qbh.2_3'UTR|ROBO4_uc001qbi.2_Silent_p.L415L	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	857					angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		GAGGTGGGCACAGCAAGACTC	0.667													10	24	---	---	---	---	PASS	T	124756583	T	T	124756583	2	4	89	1	0	0	0	0	0	0	0	1	13516	465	17	3		3	ROBO4	11	124756583	Silent	SNP	C	TCGA-39-5029-01A-01D-1441-08	53604300	124756583	10249933	106	33605										
FLI1	2313	broad.mit.edu	37	chr11	128680570	128680570	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ctatgataaaaacattatgaCcaaagtgcacggcaaaagat	7	7	0	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr11:128680570C>T	uc010sbu.1	+	9	1387	c.1046C>T	c.(1045-1047)ACC>ATC	p.T349I	FLI1_uc010sbt.1_Missense_Mutation_p.T156I|FLI1_uc010sbv.1_Missense_Mutation_p.T316I|FLI1_uc009zci.2_Missense_Mutation_p.T283I	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1	349	ETS.				hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		AACATTATGACCAAAGTGCAC	0.517			T	EWSR1	Ewing sarcoma								7	37	---	---	---	---	PASS	T	128680570	T	T	128680570	3	4	89	1	0	0	0	0	1	0	0	0	5924	507	18	3	1080	3	FLI1	11	128680570	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	3923987	128680570	6325946	107	33606										
MRPS35	60488	broad.mit.edu	37	chr12	27863870	27863870	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ccgtctactcggccactccgGtcccgacacctagcctgcgt	9	19	1	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr12:27863870G>T	uc001rih.2	+	1	142	c.94G>T	c.(94-96)GTC>TTC	p.V32F	MRPS35_uc001rii.2_Missense_Mutation_p.V32F	NM_021821	NP_068593	P82673	RT35_HUMAN	mitochondrial ribosomal protein S35 precursor	32					DNA damage response, detection of DNA damage	mitochondrial small ribosomal subunit					0	Lung SC(9;0.0873)					GGCCACTCCGGTCCCGACACC	0.657													13	27	---	---	---	---	PASS	T	27863870	T	T	27863870	3	4	89	1	0	0	0	0	1	0	0	0	9844	1261	44	3	96	3	MRPS35	12	27863870	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08		27863870	105988025	108	33607										
FGD4	121512	broad.mit.edu	37	chr12	32764098	32764098	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	taaagaaactcttagagattTatgaaatgttgggagaagaa	10	2	1	5			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr12:32764098T>A	uc001rkz.2	+	10	1696	c.1219T>A	c.(1219-1221)TAT>AAT	p.Y407N	FGD4_uc001rlc.2_Missense_Mutation_p.Y492N|FGD4_uc001rky.2_Missense_Mutation_p.Y159N|FGD4_uc001rla.2_Missense_Mutation_p.Y63N|FGD4_uc010ske.1_Missense_Mutation_p.Y519N|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	407					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					CTTAGAGATTTATGAAATGTT	0.363													23	130	---	---	---	---	PASS	A	32764098	A	A	32764098	3	1	89	1	0	0	0	0	1	0	0	0	5835	1754	61	5	1249	5	FGD4	12	32764098	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	4900228	32764098	101087797	109	33608										
SDR9C7	121214	broad.mit.edu	37	chr12	57324196	57324196	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cattaatcaccttcacaaagTcatccttggtcagccattcg	5	13	4	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr12:57324196T>A	uc010sqw.1	-	2	374	c.374A>T	c.(373-375)GAC>GTC	p.D125V		NM_148897	NP_683695	Q8NEX9	DR9C7_HUMAN	short chain dehydrogenase/reductase family 9C,	125						cytoplasm	binding|oxidoreductase activity			central_nervous_system(1)	1						CTTCACAAAGTCATCCTTGGT	0.557													32	56	---	---	---	---	PASS	A	57324196	A	A	57324196	3	1	89	1	0	0	0	0	1	0	0	0	13974	1667	58	5	579	5	SDR9C7	12	57324196	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	24560098	57324196	76527699	110	33609										
TBC1D15	64786	broad.mit.edu	37	chr12	72274315	72274315	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gtcatcgaggatcagaacatCtgaacagttacgaagcagaa	10	8	3	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr12:72274315C>G	uc001swu.2	+	4	346	c.337C>G	c.(337-339)CTG>GTG	p.L113V	TBC1D15_uc009zrv.2_Translation_Start_Site|TBC1D15_uc010stt.1_Missense_Mutation_p.L99V|TBC1D15_uc001swv.2_Missense_Mutation_p.L113V|TBC1D15_uc001sww.2_Translation_Start_Site	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	91							protein binding|Rab GTPase activator activity				0						ATCAGAACATCTGAACAGTTA	0.328													10	54	---	---	---	---	PASS	G	72274315	G	G	72274315	3	3	89	1	0	0	0	0	1	0	0	0	15601	912	32	2	409	2	TBC1D15	12	72274315	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	14950119	72274315	61577580	111	33610										
PARP4	143	broad.mit.edu	37	chr13	25029274	25029274	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tggaactggagcagtcaagaCaaataatcacttcgctctca	8	10	3	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr13:25029274C>A	uc001upl.2	-	22	2745	c.2639G>T	c.(2638-2640)TGT>TTT	p.C880F	PARP4_uc010tdc.1_Missense_Mutation_p.C880F	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	880	VWFA.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		GCAGTCAAGACAAATAATCAC	0.502													60	131	---	---	---	---	PASS	A	25029274	A	A	25029274	3	1	89	1	0	0	0	0	1	0	0	0	11463	478	17	3	2587	3	PARP4	13	25029274	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08		25029274	90140604	112	33611										
HMGB1	3146	broad.mit.edu	37	chr13	31036834	31036834	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gggcgatactcagagcagaaGaggaagaaggccgaactaaa	14	7	1	4			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr13:31036834G>T	uc001usw.2	-	4	496	c.312C>A	c.(310-312)CTC>CTA	p.L104L	HMGB1_uc001usz.2_Silent_p.L104L|HMGB1_uc001usv.2_Silent_p.L104L|HMGB1_uc001usx.2_Silent_p.L104L|HMGB1_uc001usy.2_Silent_p.L65L|HMGB1_uc001uta.1_Silent_p.L104L	NM_002128	NP_002119	P09429	HMGB1_HUMAN	high-mobility group box 1	104	HMG box 2.				base-excision repair, DNA ligation|dendritic cell chemotaxis|DNA fragmentation involved in apoptotic nuclear change|DNA topological change|inflammatory response to antigenic stimulus|innate immune response|myeloid dendritic cell activation|negative regulation of RNA polymerase II transcriptional preinitiation complex assembly|neuron projection development|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of DNA binding|positive regulation of transcription from RNA polymerase II promoter|V(D)J recombination	cell surface|condensed chromosome|extracellular space|nucleolus|nucleoplasm	chemoattractant activity|cytokine activity|damaged DNA binding|DNA bending activity|double-stranded DNA binding|RAGE receptor binding|repressing transcription factor binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			ovary(1)	1		Lung SC(185;0.0257)		all cancers(112;0.072)|OV - Ovarian serous cystadenocarcinoma(117;0.177)|Lung(94;0.216)|GBM - Glioblastoma multiforme(144;0.232)		CAGAGCAGAAGAGGAAGAAGG	0.373													36	51	---	---	---	---	PASS	T	31036834	T	T	31036834	2	4	89	1	0	0	0	0	0	0	0	1	7225	929	33	2		2	HMGB1	13	31036834	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	6007560	31036834	84133044	113	33612										
FNDC3A	22862	broad.mit.edu	37	chr13	49710725	49710725	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aaggtggtacacaagttgatAcagaaattgaaggtaactgt	11	4	0	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr13:49710725A>G	uc001vcm.2	+	6	1053	c.748A>G	c.(748-750)ACA>GCA	p.T250A	FNDC3A_uc001vcl.1_Missense_Mutation_p.T250A|FNDC3A_uc001vcn.2_Missense_Mutation_p.T250A|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcp.1_Missense_Mutation_p.T194A|FNDC3A_uc001vcq.2_Missense_Mutation_p.T194A	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	250						Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		ACAAGTTGATACAGAAATTGA	0.353													29	68	---	---	---	---	PASS	G	49710725	G	G	49710725	3	3	89	1	0	0	0	0	1	0	0	0	5969	391	14	5	777	5	FNDC3A	13	49710725	Missense_Mutation	SNP	A	TCGA-39-5029-01A-01D-1441-08	18673891	49710725	65459153	114	33613										
PRKD1	5587	broad.mit.edu	37	chr14	30066893	30066893	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tcaggagccaggtaagcgggGgtacccaccactgacctccg	13	14	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr14:30066893G>A	uc001wqh.2	-	16	2419	c.2238C>T	c.(2236-2238)ACC>ACT	p.T746T		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	746	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		GGTAAGCGGGGGTACCCACCA	0.488													68	102	---	---	---	---	PASS	A	30066893	A	A	30066893	2	1	89	1	0	0	0	0	0	0	0	1	12518	1219	43	3		3	PRKD1	14	30066893	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08		30066893	77282647	115	33614										
SYNE2	23224	broad.mit.edu	37	chr14	64522939	64522939	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ggaactagtttctaagaactCagcaatgaaggaagctttca	9	7	3	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr14:64522939C>G	uc001xgm.2	+	49	10252	c.10022C>G	c.(10021-10023)TCA>TGA	p.S3341*	SYNE2_uc001xgl.2_Nonsense_Mutation_p.S3341*|SYNE2_uc010apw.1_Nonsense_Mutation_p.S47*	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3341	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)		TCTAAGAACTCAGCAATGAAG	0.403													26	70	---	---	---	---	PASS	G	64522939	G	G	64522939	4	3	89	1	0	0	0	0	0	1	0	0	15443	838	29	2	10212	2	SYNE2	14	64522939	Nonsense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	34456046	64522939	42826601	116	33615										
SYNE2	23224	broad.mit.edu	37	chr14	64608107	64608107	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cctccttgaagactgccgttAtcagtatcgggaaccagctt	9	12	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr14:64608107A>G	uc001xgm.2	+	81	15255	c.15025A>G	c.(15025-15027)ATC>GTC	p.I5009V	SYNE2_uc001xgl.2_Missense_Mutation_p.I5009V|SYNE2_uc010apy.2_Missense_Mutation_p.I1394V|SYNE2_uc001xgn.2_5'UTR|SYNE2_uc001xgo.2_RNA	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5009	Spectrin 1.|Cytoplasmic (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)		GACTGCCGTTATCAGTATCGG	0.348													69	143	---	---	---	---	PASS	G	64608107	G	G	64608107	3	3	89	1	0	0	0	0	1	0	0	0	15443	449	16	5	15343	5	SYNE2	14	64608107	Missense_Mutation	SNP	A	TCGA-39-5029-01A-01D-1441-08	85168	64608107	42741433	117	33616										
SYNE2	23224	broad.mit.edu	37	chr14	64625421	64625421	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aactctatgatgaagtgaatAtgatgacaatccgattctgg	9	6	2	5			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr14:64625421A>G	uc001xgm.2	+	86	16101	c.15871A>G	c.(15871-15873)ATG>GTG	p.M5291V	SYNE2_uc001xgl.2_Missense_Mutation_p.M5291V|SYNE2_uc010apy.2_Missense_Mutation_p.M1676V|SYNE2_uc001xgn.2_Missense_Mutation_p.M253V|SYNE2_uc001xgo.2_RNA|SYNE2_uc001xgp.2_Missense_Mutation_p.M20V	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5291	Cytoplasmic (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)		TGAAGTGAATATGATGACAAT	0.418													25	94	---	---	---	---	PASS	G	64625421	G	G	64625421	3	3	89	1	0	0	0	0	1	0	0	0	15443	449	16	5	16209	5	SYNE2	14	64625421	Missense_Mutation	SNP	A	TCGA-39-5029-01A-01D-1441-08	17314	64625421	42724119	118	33617										
IFI27L2	83982	broad.mit.edu	37	chr14	94594942	94594942	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	atcatcttggctgctatggaGgacgcggcgattcctgcccc	12	13	2	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr14:94594942G>C	uc001ycq.2	-	3	164	c.108C>G	c.(106-108)TCC>TCG	p.S36S		NM_032036	NP_114425	Q9H2X8	I27L2_HUMAN	TLH29 protein precursor	36						integral to membrane					0						CTGCTATGGAGGACGCGGCGA	0.637													11	53	---	---	---	---	PASS	C	94594942	C	C	94594942	2	2	89	1	0	0	0	0	0	0	0	1	7514	987	35	4		4	IFI27L2	14	94594942	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	29969521	94594942	12754598	119	33618										
SERPINA6	866	broad.mit.edu	37	chr14	94770791	94770791	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	accctcgccaggaaaaggctGctccaggtgaagtggtcgaa	13	11	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr14:94770791G>T	uc001ycv.2	-	5	1286	c.1182C>A	c.(1180-1182)AGC>AGA	p.S394R	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	394					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	GGAAAAGGCTGCTCCAGGTGA	0.537													25	117	---	---	---	---	PASS	T	94770791	T	T	94770791	3	4	89	1	0	0	0	0	1	0	0	0	14093	1310	46	3	39	3	SERPINA6	14	94770791	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	175849	94770791	12578749	120	33619										
HHIPL1	84439	broad.mit.edu	37	chr14	100129256	100129256	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	acccagggacaggccagtggCagtacagtgagatctgcatg	14	10	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr14:100129256C>A	uc010avs.2	+	6	1611	c.1546C>A	c.(1546-1548)CAG>AAG	p.Q516K	HHIPL1_uc001ygl.1_Missense_Mutation_p.Q516K	NM_001127258	NP_001120730	Q96JK4	HIPL1_HUMAN	HHIP-like protein 1 isoform a	516					carbohydrate metabolic process	extracellular region|membrane	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding|scavenger receptor activity			skin(2)	2		Melanoma(154;0.128)				AGGCCAGTGGCAGTACAGTGA	0.592													38	116	---	---	---	---	PASS	A	100129256	A	A	100129256	3	1	89	1	0	0	0	0	1	0	0	0	7093	711	25	3	1568	3	HHIPL1	14	100129256	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	5358465	100129256	7220284	121	33620										
CHP	11261	broad.mit.edu	37	chr15	41523623	41523623	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tactgcgggacgaagagctcGaggagatcaagaaggagacc	15	8	1	4	rs139642745		TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr15:41523623G>C	uc001znl.2	+	1	187	c.43G>C	c.(43-45)GAG>CAG	p.E15Q	EXD1_uc001znk.2_5'Flank|EXD1_uc010ucv.1_5'Flank	NM_007236	NP_009167	Q99653	CHP1_HUMAN	calcium binding protein P22	15					potassium ion transport|small GTPase mediated signal transduction		potassium channel regulator activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;5.87e-16)|Lung NSC(122;8.86e-12)|all_lung(180;2.47e-10)|Melanoma(134;0.0574)|Colorectal(260;0.0946)|Ovarian(310;0.143)		GBM - Glioblastoma multiforme(113;1.68e-06)|LUSC - Lung squamous cell carcinoma(244;0.008)|Lung(196;0.00802)|BRCA - Breast invasive adenocarcinoma(123;0.169)		CGAAGAGCTCGAGGAGATCAA	0.652													2	16	---	---	---	---	PASS	C	41523623	C	C	41523623	3	2	89	1	0	0	0	0	1	0	0	0	3366	1059	37	2	45	2	CHP	15	41523623	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08		41523623	61007769	122	33621										
CGNL1	84952	broad.mit.edu	37	chr15	57730751	57730751	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gacagaagaaggcatcaacaAtaagaagccttggacttgct	10	8	1	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr15:57730751A>G	uc002aeg.2	+	2	630	c.554A>G	c.(553-555)AAT>AGT	p.N185S	CGNL1_uc010bfw.2_Missense_Mutation_p.N185S	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	185	Head.					myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		GGCATCAACAATAAGAAGCCT	0.443													61	105	---	---	---	---	PASS	G	57730751	G	G	57730751	3	3	89	1	0	0	0	0	1	0	0	0	3304	101	4	5	556	5	CGNL1	15	57730751	Missense_Mutation	SNP	A	TCGA-39-5029-01A-01D-1441-08	16207128	57730751	44800641	123	33622										
C15orf27	123591	broad.mit.edu	37	chr15	76496130	76496130	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tatggtcaccacggccgcaaTagacattcaccagcccaaca	7	15	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr15:76496130T>C	uc002bbq.2	+	11	1225	c.1070T>C	c.(1069-1071)ATA>ACA	p.I357T	C15orf27_uc010bkp.2_Missense_Mutation_p.I173T|C15orf27_uc002bbr.2_Missense_Mutation_p.I173T|C15orf27_uc002bbs.2_Missense_Mutation_p.I35T	NM_152335	NP_689548	Q2M3C6	CO027_HUMAN	hypothetical protein LOC123591	357						integral to membrane					0						ACGGCCGCAATAGACATTCAC	0.597													56	107	---	---	---	---	PASS	C	76496130	C	C	76496130	3	2	89	1	0	0	0	0	1	0	0	0	1788	1406	49	5	1108	5	C15orf27	15	76496130	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	18765379	76496130	26035262	124	33623										
AKAP13	11214	broad.mit.edu	37	chr15	86262404	86262404	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gatctgctttttgagcagcaGatggtagaaaagctgttccc	11	8	1	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr15:86262404G>T	uc002blv.1	+	23	6269	c.6099G>T	c.(6097-6099)CAG>CAT	p.Q2033H	AKAP13_uc002blu.1_Missense_Mutation_p.Q2037H|AKAP13_uc010bnf.1_Missense_Mutation_p.Q654H|AKAP13_uc002blw.1_Missense_Mutation_p.Q498H|AKAP13_uc002blx.1_Missense_Mutation_p.Q278H	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2033	Interaction with ESR1.|DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TTGAGCAGCAGATGGTAGAAA	0.483													23	45	---	---	---	---	PASS	T	86262404	T	T	86262404	3	4	89	1	0	0	0	0	1	0	0	0	449	933	33	2	6255	2	AKAP13	15	86262404	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	9766274	86262404	16268988	125	33624										
NME3	4832	broad.mit.edu	37	chr16	1820909	1820909	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cctcgatgcagaaatccccgCggatggtgccgggcggggcg	17	13	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr16:1820909C>T	uc002cmm.2	-	4	540	c.365G>A	c.(364-366)CGC>CAC	p.R122H	NME3_uc010brv.2_RNA|EME2_uc002cmq.1_5'Flank|EME2_uc010brw.1_5'Flank	NM_002513	NP_002504	Q13232	NDK3_HUMAN	nucleoside diphosphate kinase 3	122		ATP (By similarity).			apoptosis|CTP biosynthetic process|GTP biosynthetic process|induction of apoptosis|UTP biosynthetic process		ATP binding|metal ion binding|nucleoside diphosphate kinase activity				0						GAAATCCCCGCGGATGGTGCC	0.726													15	41	---	---	---	---	PASS	T	1820909	T	T	1820909	3	4	89	1	0	0	0	0	1	0	0	0	10492	768	27	1	152	1	NME3	16	1820909	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08		1820909	88533844	126	33625										
SMG1	23049	broad.mit.edu	37	chr16	18846334	18846334	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ctttcaactgatcttcacaaActggcacagtgacagcttcc	6	13	3	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr16:18846334A>G	uc002dfm.2	-	49	8573	c.8210T>C	c.(8209-8211)GTT>GCT	p.V2737A	SMG1_uc010bwb.2_Missense_Mutation_p.V2597A|SMG1_uc010bwa.2_Missense_Mutation_p.V1468A	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2737					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						ATCTTCACAAACTGGCACAGT	0.413													66	309	---	---	---	---	PASS	G	18846334	G	G	18846334	3	3	89	1	0	0	0	0	1	0	0	0	14795	43	2	5	2835	5	SMG1	16	18846334	Missense_Mutation	SNP	A	TCGA-39-5029-01A-01D-1441-08	17025425	18846334	71508419	127	33626										
SMG1	23049	broad.mit.edu	37	chr16	18870957	18870957	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aacagaacttcttaacaattGaacttcaatggatttctgaa	5	7	3	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr16:18870957G>A	uc002dfm.2	-	27	4237	c.3874C>T	c.(3874-3876)CAA>TAA	p.Q1292*	SMG1_uc010bwb.2_Nonsense_Mutation_p.Q1152*|SMG1_uc010bwa.2_Nonsense_Mutation_p.Q23*	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	1292	FAT.|Interaction with SMG8 and SMG9.		Q -> P.		DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						CTTAACAATTGAACTTCAATG	0.373													23	49	---	---	---	---	PASS	A	18870957	A	A	18870957	4	1	89	1	0	0	0	0	0	1	0	0	14795	1299	45	2	7259	2	SMG1	16	18870957	Nonsense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	24623	18870957	71483796	128	33627										
TMC7	79905	broad.mit.edu	37	chr16	19027840	19027840	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gaagcggtatagcagcaagtCttggaagaggttcctagaga	14	6	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr16:19027840C>G	uc002dfq.2	+	3	510	c.380C>G	c.(379-381)TCT>TGT	p.S127C	TMC7_uc010vao.1_Missense_Mutation_p.S127C|TMC7_uc002dfp.2_Missense_Mutation_p.S127C|TMC7_uc010vap.1_Missense_Mutation_p.S17C	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	127	Extracellular (Potential).					integral to membrane				skin(2)|ovary(1)	3						AGCAGCAAGTCTTGGAAGAGG	0.507													27	53	---	---	---	---	PASS	G	19027840	G	G	19027840	3	3	89	1	0	0	0	0	1	0	0	0	15987	913	32	2	390	2	TMC7	16	19027840	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	156883	19027840	71326913	129	33628										
DNAH3	55567	broad.mit.edu	37	chr16	20996734	20996734	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	catgaatgtggacagtttggCggcactttgccgcccgctgc	13	12	0	1	rs146558827		TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr16:20996734C>T	uc010vbe.1	-	48	7330	c.7330G>A	c.(7330-7332)GCC>ACC	p.A2444T	DNAH3_uc010vbd.1_5'Flank	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2444	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GACAGTTTGGCGGCACTTTGC	0.527													15	26	---	---	---	---	PASS	T	20996734	T	T	20996734	3	4	89	1	0	0	0	0	1	0	0	0	4603	768	27	1	5079	1	DNAH3	16	20996734	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	1968894	20996734	69358019	130	33629										
ALDOA	226	broad.mit.edu	37	chr16	30080950	30080950	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tcatgaggagattgccatggCgaccgtcacagcgctgcgcc	13	13	2	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr16:30080950C>T	uc002dvw.2	+	10	1883	c.755C>T	c.(754-756)GCG>GTG	p.A252V	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|ALDOA_uc002dvx.2_Missense_Mutation_p.A252V|ALDOA_uc002dvy.2_Missense_Mutation_p.A252V|ALDOA_uc002dvz.2_Missense_Mutation_p.A252V|ALDOA_uc002dwa.3_Missense_Mutation_p.A252V|ALDOA_uc002dwb.1_Missense_Mutation_p.A252V|ALDOA_uc002dwc.2_Missense_Mutation_p.A252V|ALDOA_uc010veg.1_Missense_Mutation_p.A306V|ALDOA_uc002dwd.2_Missense_Mutation_p.A256V	NM_184043	NP_908932	P04075	ALDOA_HUMAN	fructose-bisphosphate aldolase A	252					actin filament organization|ATP biosynthetic process|fructose 1,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|muscle cell homeostasis|platelet activation|platelet degranulation|protein homotetramerization|regulation of cell shape|striated muscle contraction	actin cytoskeleton|cytosol|extracellular vesicular exosome|I band|platelet alpha granule lumen	actin binding|fructose binding|fructose-bisphosphate aldolase activity|identical protein binding|tubulin binding			lung(1)	1						ATTGCCATGGCGACCGTCACA	0.577											OREG0023729	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	62	---	---	---	---	PASS	T	30080950	T	T	30080950	3	4	89	1	0	0	0	0	1	0	0	0	507	768	27	1	777	1	ALDOA	16	30080950	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	9084216	30080950	60273803	131	33630										
GPT2	84706	broad.mit.edu	37	chr16	46943685	46943685	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tatcccctctattcagctgtCatctctgagctcgacgccat	6	15	4	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr16:46943685C>T	uc002eel.2	+	6	760	c.666C>T	c.(664-666)GTC>GTT	p.V222V	GPT2_uc002eem.2_Silent_p.V122V	NM_133443	NP_597700	Q8TD30	ALAT2_HUMAN	glutamic pyruvate transaminase 2 isoform 1	222					2-oxoglutarate metabolic process|cellular amino acid biosynthetic process|L-alanine metabolic process	mitochondrial matrix	L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2		all_cancers(37;0.0276)|all_epithelial(9;0.0498)|all_lung(18;0.0522)			L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	ATTCAGCTGTCATCTCTGAGC	0.582													35	118	---	---	---	---	PASS	T	46943685	T	T	46943685	2	4	89	1	0	0	0	0	0	0	0	1	6738	813	29	2		2	GPT2	16	46943685	Silent	SNP	C	TCGA-39-5029-01A-01D-1441-08	16862735	46943685	43411068	132	33631										
GFOD2	81577	broad.mit.edu	37	chr16	67709234	67709234	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	catggagacaggggtgcggtCccaggtgcggcggtcgccct	18	12	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr16:67709234C>T	uc002eub.2	-	3	1277	c.982G>A	c.(982-984)GAC>AAC	p.D328N	GFOD2_uc002eua.1_RNA|GFOD2_uc002euc.2_Missense_Mutation_p.D223N	NM_030819	NP_110446	Q3B7J2	GFOD2_HUMAN	glucose-fructose oxidoreductase domain	328						proteinaceous extracellular matrix	binding|oxidoreductase activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0151)|Epithelial(162;0.0505)|all cancers(182;0.242)		GGGGTGCGGTCCCAGGTGCGG	0.667													43	100	---	---	---	---	PASS	T	67709234	T	T	67709234	3	4	89	1	0	0	0	0	1	0	0	0	6344	855	30	2	179	2	GFOD2	16	67709234	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	20765549	67709234	22645519	133	33632										
TP53	7157	broad.mit.edu	37	chr17	7578212	7578212	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gggcaccaccacactatgtcGaaaagtgtttctgtcatcca	8	12	2	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr17:7578212G>A	uc002gim.2	-	6	831	c.637C>T	c.(637-639)CGA>TGA	p.R213*	TP53_uc002gig.1_Nonsense_Mutation_p.R213*|TP53_uc002gih.2_Nonsense_Mutation_p.R213*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R81*|TP53_uc010cng.1_Nonsense_Mutation_p.R81*|TP53_uc002gii.1_Nonsense_Mutation_p.R81*|TP53_uc010cnh.1_Nonsense_Mutation_p.R213*|TP53_uc010cni.1_Nonsense_Mutation_p.R213*|TP53_uc002gij.2_Nonsense_Mutation_p.R213*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.R120*|TP53_uc002gio.2_Nonsense_Mutation_p.R81*|TP53_uc010vug.1_Nonsense_Mutation_p.R174*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	213	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(186)|p.R213L(25)|p.R213Q(22)|p.R213fs*34(10)|p.0?(7)|p.R213P(5)|p.R81*(2)|p.R120*(2)|p.R213G(2)|p.K164_P219del(1)|p.D208_V216delDRNTFRHSV(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R213*33(1)|p.D208fs*1(1)|p.R213>L(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(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)		ACACTATGTCGAAAAGTGTTT	0.532		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)			20	48	---	---	---	---	PASS	A	7578212	A	A	7578212	4	1	89	1	0	0	0	0	0	1	0	0	16378	1066	37	2	657	2	TP53	17	7578212	Nonsense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08		7578212	73616998	134	33633										
NOS2	4843	broad.mit.edu	37	chr17	26099414	26099414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tcctgtctctgtcgcaaagaGgatggtgactctgactcggg	13	10	2	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr17:26099414G>T	uc002gzu.2	-	14	1888	c.1624C>A	c.(1624-1626)CTC>ATC	p.L542I	NOS2_uc010crh.1_Missense_Mutation_p.L542I|NOS2_uc010wab.1_Missense_Mutation_p.L542I	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	542	Flavodoxin-like.				arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GTCGCAAAGAGGATGGTGACT	0.582													23	57	---	---	---	---	PASS	T	26099414	T	T	26099414	3	4	89	1	0	0	0	0	1	0	0	0	10543	1000	35	3	1893	3	NOS2	17	26099414	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	18521202	26099414	55095796	135	33634										
TMEM132E	124842	broad.mit.edu	37	chr17	32963126	32963126	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tcaggcccaggtggtggccaGcctggccctctccctgcggc	14	17	2	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr17:32963126G>A	uc002hif.2	+	9	2136	c.1808G>A	c.(1807-1809)AGC>AAC	p.S603N		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	603	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		GTGGTGGCCAGCCTGGCCCTC	0.647													9	23	---	---	---	---	PASS	A	32963126	A	A	32963126	3	1	89	1	0	0	0	0	1	0	0	0	16045	971	34	3	1842	3	TMEM132E	17	32963126	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	6863712	32963126	48232084	136	33635										
NXPH3	11248	broad.mit.edu	37	chr17	47656181	47656181	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gaaccacagccccccaccctCagccaaggtgaagaaaatct	7	16	2	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr17:47656181C>T	uc002ipa.2	+	2	562	c.278C>T	c.(277-279)TCA>TTA	p.S93L	NXPH3_uc010wlw.1_Missense_Mutation_p.S93L	NM_007225	NP_009156	O95157	NXPH3_HUMAN	neurexophilin 3 precursor	93	III.				neuropeptide signaling pathway	extracellular region				pancreas(1)|skin(1)	2	all_cancers(4;7.45e-14)|Breast(4;1.08e-27)|all_epithelial(4;2.27e-17)					CCCCCACCCTCAGCCAAGGTG	0.617													11	42	---	---	---	---	PASS	T	47656181	T	T	47656181	3	4	89	1	0	0	0	0	1	0	0	0	10792	838	29	2	284	2	NXPH3	17	47656181	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	14693055	47656181	33539029	137	33636										
DGKE	8526	broad.mit.edu	37	chr17	54926589	54926589	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	atactacaacttaagaaaacCcaaggtatgttgttagtgcc	7	8	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr17:54926589C>T	uc002iur.2	+	7	1274	c.1094C>T	c.(1093-1095)CCC>CTC	p.P365L	DGKE_uc002ius.1_Missense_Mutation_p.P365L	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	365					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)					TTAAGAAAACCCAAGGTATGT	0.383													11	102	---	---	---	---	PASS	T	54926589	T	T	54926589	3	4	89	1	0	0	0	0	1	0	0	0	4468	623	22	3	1116	3	DGKE	17	54926589	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	7270408	54926589	26268621	138	33637										
UNK	85451	broad.mit.edu	37	chr17	73811302	73811302	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gcagtcgggcagctgtccccGaggacccttctgcgcctttg	13	15	1	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr17:73811302G>T	uc002jpm.2	+	8	1157	c.1157G>T	c.(1156-1158)CGA>CTA	p.R386L		NM_001080419	NP_001073888	Q9C0B0	UNK_HUMAN	zinc finger CCCH-type domain containing 5	310	C3H1-type 5.						nucleic acid binding|zinc ion binding				0			all cancers(21;2.61e-06)|Epithelial(20;7.39e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|LUSC - Lung squamous cell carcinoma(166;0.154)			AGCTGTCCCCGAGGACCCTTC	0.637													58	168	---	---	---	---	PASS	T	73811302	T	T	73811302	3	4	89	1	0	0	0	0	1	0	0	0	16997	1058	37	2	1187	2	UNK	17	73811302	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	18884713	73811302	7383908	139	33638										
SEPT9	10801	broad.mit.edu	37	chr17	75398373	75398373	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ggccccaaggcggccgagccGgtgtcccggcgcactgagct	16	16	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr17:75398373G>T	uc002jts.3	+	3	435	c.309G>T	c.(307-309)CCG>CCT	p.P103P	SEPT9_uc010wtk.1_Silent_p.P84P|SEPT9_uc002jtt.3_5'UTR|SEPT9_uc002jtu.3_Silent_p.P85P|SEPT9_uc002jtv.2_Silent_p.P96P|SEPT9_uc002jtw.2_5'UTR|SEPT9_uc002jtx.1_5'UTR|SEPT9_uc010wtl.1_5'Flank	NM_001113491	NP_001106963	Q9UHD8	SEPT9_HUMAN	septin 9 isoform a	103					cell cycle|cell division|protein heterooligomerization	microtubule|perinuclear region of cytoplasm|stress fiber	GTP binding|GTPase activity|protein binding|protein binding			breast(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(99;0.153)			CGGCCGAGCCGGTGTCCCGGC	0.697													3	6	---	---	---	---	PASS	T	75398373	T	T	75398373	2	4	89	1	0	0	0	0	0	0	0	1	14071	1103	39	1		1	SEPT9	17	75398373	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	1587071	75398373	5796837	140	33639										
ADCYAP1	116	broad.mit.edu	37	chr18	909481	909481	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gcggcgcgggggacgacgcgGagccgctctccaagcgccac	17	16	1	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr18:909481G>A	uc010dkg.2	+	5	495	c.376G>A	c.(376-378)GAG>AAG	p.E126K	ADCYAP1_uc010dkh.2_Missense_Mutation_p.E126K	NM_001099733	NP_001093203	P18509	PACA_HUMAN	adenylate cyclase activating polypeptide	126					activation of adenylate cyclase activity|cell-cell signaling|female pregnancy|nerve growth factor receptor signaling pathway|regulation of G-protein coupled receptor protein signaling pathway	extracellular region|soluble fraction	neuropeptide hormone activity|peptide hormone receptor binding				0						GGACGACGCGGAGCCGCTCTC	0.667													28	62	---	---	---	---	PASS	A	909481	A	A	909481	3	1	89	1	0	0	0	0	1	0	0	0	302	1175	41	2	390	2	ADCYAP1	18	909481	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08		909481	77167767	141	33640										
PIK3C3	5289	broad.mit.edu	37	chr18	39593460	39593460	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ctctcaaatatgaaaattttGatgatataaagaatggattg	7	3	1	4			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr18:39593460G>A	uc002lap.2	+	11	1283	c.1225G>A	c.(1225-1227)GAT>AAT	p.D409N	PIK3C3_uc010xcl.1_Missense_Mutation_p.D346N	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	409					cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						TGAAAATTTTGATGATATAAA	0.313										TSP Lung(28;0.18)			24	260	---	---	---	---	PASS	A	39593460	A	A	39593460	3	1	89	1	0	0	0	0	1	0	0	0	11912	1290	45	2	1267	2	PIK3C3	18	39593460	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	38683979	39593460	38483788	142	33641										
CCDC11	220136	broad.mit.edu	37	chr18	47792749	47792749	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ggcccttaacctcccgctgtAcggtgccaaaccgctggctg	11	16	0	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr18:47792749A>G	uc002lee.2	-	1	117	c.26T>C	c.(25-27)GTA>GCA	p.V9A		NM_145020	NP_659457	Q96M91	CCD11_HUMAN	coiled-coil domain containing 11	9										ovary(1)|pancreas(1)|skin(1)	3				STAD - Stomach adenocarcinoma(97;2.66e-05)|Colorectal(21;7.57e-05)|Lung(128;0.00932)|READ - Rectum adenocarcinoma(32;0.164)		CTCCCGCTGTACGGTGCCAAA	0.632													37	154	---	---	---	---	PASS	G	47792749	G	G	47792749	3	3	89	1	0	0	0	0	1	0	0	0	2746	391	14	5	1550	5	CCDC11	18	47792749	Missense_Mutation	SNP	A	TCGA-39-5029-01A-01D-1441-08	8199289	47792749	30284499	143	33642										
ALPK2	115701	broad.mit.edu	37	chr18	56274624	56274624	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ggaaataatgccactcccatCgatggcctgaccattcttat	7	12	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr18:56274624C>T	uc002lhj.3	-	3	371	c.157G>A	c.(157-159)GAT>AAT	p.D53N		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	53	Ig-like 1.						ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						CCACTCCCATCGATGGCCTGA	0.373													33	116	---	---	---	---	PASS	T	56274624	T	T	56274624	3	4	89	1	0	0	0	0	1	0	0	0	545	884	31	2	6399	2	ALPK2	18	56274624	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	8481875	56274624	21802624	144	33643										
PRTN3	5657	broad.mit.edu	37	chr19	847957	847957	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ctgcgccgtgtggaggccaaGggccgcccctgaaccgcccc	14	18	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr19:847957G>A	uc002lqa.1	+	5	783	c.759G>A	c.(757-759)AAG>AAA	p.K253K		NM_002777	NP_002768	P24158	PRTN3_HUMAN	myeloblastin	253					collagen catabolic process|positive regulation of cell proliferation|proteolysis		protein binding|serine-type endopeptidase activity			ovary(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGAGGCCAAGGGCCGCCCCT	0.662													3	10	---	---	---	---	PASS	A	847957	A	A	847957	2	1	89	1	0	0	0	0	0	0	0	1	12639	991	35	3		3	PRTN3	19	847957	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08		847957	58281026	145	33644										
RGL3	57139	broad.mit.edu	37	chr19	11527689	11527689	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gccctcagcaccctcaccttGctggttcgatagtggaggaa	11	13	2	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr19:11527689G>A	uc002mrp.2	-	3	256	c.192C>T	c.(190-192)AGC>AGT	p.S64S	RGL3_uc002mrn.2_5'UTR|RGL3_uc002mrm.2_5'UTR|RGL3_uc002mro.2_Silent_p.S64S|RGL3_uc002mrq.2_Silent_p.S64S	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	64					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						CCCTCACCTTGCTGGTTCGAT	0.637													17	28	---	---	---	---	PASS	A	11527689	A	A	11527689	2	1	89	1	0	0	0	0	0	0	0	1	13278	1310	46	3		3	RGL3	19	11527689	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	10679732	11527689	47601294	146	33645										
CACNA1A	773	broad.mit.edu	37	chr19	13616887	13616887	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tccgcgctctctgcgccattGactgcttgtacatcctttgc	8	15	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr19:13616887G>T	uc010dze.2	-	1	388	c.152C>A	c.(151-153)TCA>TAA	p.S51*	CACNA1A_uc002mwy.3_Nonsense_Mutation_p.S51*	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	51	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	CTGCGCCATTGACTGCTTGTA	0.687													5	26	---	---	---	---	PASS	T	13616887	T	T	13616887	4	4	89	1	0	0	0	0	0	1	0	0	2538	1294	45	2	7670	2	CACNA1A	19	13616887	Nonsense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	2089198	13616887	45512096	147	33646										
PIK3R2	5296	broad.mit.edu	37	chr19	18277041	18277041	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	atctttgaagagcagggccaGactcaagagaaatgcagcaa	11	8	2	4			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr19:18277041G>C	uc002nia.1	+	12	2000	c.1488G>C	c.(1486-1488)CAG>CAC	p.Q496H	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	496					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						AGCAGGGCCAGACTCAAGAGA	0.567													31	57	---	---	---	---	PASS	C	18277041	C	C	18277041	3	2	89	1	0	0	0	0	1	0	0	0	11919	933	33	2	1530	2	PIK3R2	19	18277041	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	4660154	18277041	40851942	148	33647										
LRP3	4037	broad.mit.edu	37	chr19	33698458	33698458	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	caatgctggaggccagcgatGatgaggccctgttggtctgt	15	9	1	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr19:33698458G>T	uc010edh.2	+	7	2383	c.2290G>T	c.(2290-2292)GAT>TAT	p.D764Y	LRP3_uc002nuk.3_Missense_Mutation_p.D638Y	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	764	Cytoplasmic (Potential).				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					GGCCAGCGATGATGAGGCCCT	0.657													11	41	---	---	---	---	PASS	T	33698458	T	T	33698458	3	4	89	1	0	0	0	0	1	0	0	0	8958	1290	45	2	2316	2	LRP3	19	33698458	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	15421417	33698458	25430525	149	33648										
ZNF546	339327	broad.mit.edu	37	chr19	40519754	40519754	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	agagacatcagatgggatgcGttagtcaaatgctaatccaa	10	7	2	2	rs144973655		TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr19:40519754G>A	uc002oms.2	+	7	833	c.577G>A	c.(577-579)GTT>ATT	p.V193I	ZNF546_uc002omt.2_Missense_Mutation_p.V167I	NM_178544	NP_848639	Q86UE3	ZN546_HUMAN	zinc finger protein 546	193					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					GATGGGATGCGTTAGTCAAAT	0.358													30	87	---	---	---	---	PASS	A	40519754	A	A	40519754	3	1	89	1	0	0	0	0	1	0	0	0	17975	1145	40	1	595	1	ZNF546	19	40519754	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	6821296	40519754	18609229	150	33649										
SYT3	84258	broad.mit.edu	37	chr19	51132654	51132654	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ggccgatgaggtcgtgccgcGagaagcggtcaaagtcatag	16	9	2	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr19:51132654G>A	uc002pst.2	-	4	1812	c.1178C>T	c.(1177-1179)TCG>TTG	p.S393L	SYT3_uc002psv.2_Missense_Mutation_p.S393L|SYT3_uc010ycd.1_Missense_Mutation_p.S393L	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	393	C2 1.|Cytoplasmic (Potential).	Calcium 3 (By similarity).				cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		GTCGTGCCGCGAGAAGCGGTC	0.637													24	28	---	---	---	---	PASS	A	51132654	A	A	51132654	3	1	89	1	0	0	0	0	1	0	0	0	15472	1059	37	2	614	2	SYT3	19	51132654	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	10612900	51132654	7996329	151	33650										
ZNF71	58491	broad.mit.edu	37	chr19	57133481	57133481	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cgtacgtgtgccccgagtgcGggcgagccttcagccagaac	14	14	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr19:57133481G>T	uc002qnm.3	+	3	1064	c.826G>T	c.(826-828)GGG>TGG	p.G276W		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	276	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		CCCCGAGTGCGGGCGAGCCTT	0.662													30	33	---	---	---	---	PASS	T	57133481	T	T	57133481	3	4	89	1	0	0	0	0	1	0	0	0	18111	1116	39	1	828	1	ZNF71	19	57133481	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	6000827	57133481	1995502	152	33651										
JAG1	182	broad.mit.edu	37	chr20	10622443	10622443	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tgtcctacctttgagcaggcGatccgtccattcaggcactg	10	13	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr20:10622443G>A	uc002wnw.2	-	22	3186	c.2670C>T	c.(2668-2670)ATC>ATT	p.I890I	JAG1_uc010gcd.1_Silent_p.I448I	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	890	Extracellular (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						TTGAGCAGGCGATCCGTCCAT	0.527									Alagille_Syndrome				25	185	---	---	---	---	PASS	A	10622443	A	A	10622443	2	1	89	1	0	0	0	0	0	0	0	1	7934	1048	37	2		2	JAG1	20	10622443	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08		10622443	52403077	153	33652										
C20orf7	79133	broad.mit.edu	37	chr20	13782282	13782282	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ctcctttcactgctgtcaatGacctgggacatctgcttggg	10	12	3	1	rs149637004		TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr20:13782282G>A	uc002wom.2	+	7	703	c.670G>A	c.(670-672)GAC>AAC	p.D224N	C20orf7_uc002wol.1_3'UTR|C20orf7_uc002won.2_Missense_Mutation_p.D196N|C20orf7_uc002woo.2_RNA	NM_024120	NP_077025	Q5TEU4	CT007_HUMAN	hypothetical protein LOC79133 isoform 1	224					mitochondrial respiratory chain complex I assembly	extrinsic to mitochondrial inner membrane	methyltransferase activity				0		Myeloproliferative disorder(85;0.00878)				TGCTGTCAATGACCTGGGACA	0.438													27	101	---	---	---	---	PASS	A	13782282	A	A	13782282	3	1	89	1	0	0	0	0	1	0	0	0	2115	1290	45	2	716	2	C20orf7	20	13782282	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	3159839	13782282	49243238	154	33653										
C20orf160	140706	broad.mit.edu	37	chr20	30616874	30616874	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tccatggctcccactgcagcGgcagcgaccacagcagtctg	11	16	1	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr20:30616874G>C	uc002wxf.2	+	7	1159	c.1146G>C	c.(1144-1146)GCG>GCC	p.A382A	C20orf160_uc002wxg.2_5'UTR	NM_080625	NP_542192	Q9NUG4	CT160_HUMAN	hypothetical protein LOC140706	Error:Variant_position_missing_in_Q9NUG4_after_alignment										central_nervous_system(3)|ovary(1)	4						CCACTGCAGCGGCAGCGACCA	0.493													30	226	---	---	---	---	PASS	C	30616874	C	C	30616874	2	2	89	1	0	0	0	0	0	0	0	1	2093	1103	39	4		4	C20orf160	20	30616874	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	16834592	30616874	32408646	155	33654										
CEBPB	1051	broad.mit.edu	37	chr20	48808476	48808476	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aacctggagacgcagcacaaGgtcctggagctcacggccga	13	13	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr20:48808476G>A	uc002xvi.1	+	1	1101	c.906G>A	c.(904-906)AAG>AAA	p.K302K	CEBPB_uc002xvh.2_RNA	NM_005194	NP_005185	P17676	CEBPB_HUMAN	CCAAT/enhancer binding protein beta	302					acute-phase response|immune response		sequence-specific enhancer binding RNA polymerase II transcription factor activity				0			BRCA - Breast invasive adenocarcinoma(9;5.72e-08)|STAD - Stomach adenocarcinoma(23;0.19)			CGCAGCACAAGGTCCTGGAGC	0.637													11	39	---	---	---	---	PASS	A	48808476	A	A	48808476	2	1	89	1	0	0	0	0	0	0	0	1	3200	991	35	3		3	CEBPB	20	48808476	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	18191602	48808476	14217044	156	33655										
KRTAP13-1	140258	broad.mit.edu	37	chr21	31768611	31768611	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cccaccagctgccagacatcCtatgtggagtccagcccctg	9	17	0	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr21:31768611C>T	uc002yoa.2	+	1	220	c.207C>T	c.(205-207)TCC>TCT	p.S69S		NM_181599	NP_853630	Q8IUC0	KR131_HUMAN	keratin associated protein 13-1	69	3.|5 X 10 AA approximate repeats.					intermediate filament				ovary(1)	1						GCCAGACATCCTATGTGGAGT	0.602													28	39	---	---	---	---	PASS	T	31768611	T	T	31768611	2	4	89	1	0	0	0	0	0	0	0	1	8522	668	24	3		3	KRTAP13-1	21	31768611	Silent	SNP	C	TCGA-39-5029-01A-01D-1441-08		31768611	16361284	157	33656										
KRTAP13-1	140258	broad.mit.edu	37	chr21	31768915	31768915	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	caacttgtggatcaggcttcTactattgatcatcttgttaa	7	8	4	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr21:31768915T>C	uc002yoa.2	+	1	524	c.511T>C	c.(511-513)TAC>CAC	p.Y171H		NM_181599	NP_853630	Q8IUC0	KR131_HUMAN	keratin associated protein 13-1	171						intermediate filament				ovary(1)	1						ATCAGGCTTCTACTATTGATC	0.443													11	31	---	---	---	---	PASS	C	31768915	C	C	31768915	3	2	89	1	0	0	0	0	1	0	0	0	8522	1522	53	5	513	5	KRTAP13-1	21	31768915	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08	304	31768915	16360980	158	33657										
SIK1	150094	broad.mit.edu	37	chr21	44837498	44837498	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cgccgccgtgcaggcctgggCtctgtgcaggggcgtggaag	19	12	1	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr21:44837498C>T	uc002zdf.2	-	13	2028	c.1901G>A	c.(1900-1902)AGC>AAC	p.S634N		NM_173354	NP_775490	P57059	SIK1_HUMAN	salt-inducible kinase 1	634					anoikis|cell cycle|cell differentiation|intracellular protein kinase cascade|multicellular organismal development|regulation of cell differentiation|regulation of mitotic cell cycle	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(2)|testis(2)|ovary(1)|central_nervous_system(1)|skin(1)	7						CAGGCCTGGGCTCTGTGCAGG	0.736													4	10	---	---	---	---	PASS	T	44837498	T	T	44837498	3	4	89	1	0	0	0	0	1	0	0	0	14317	797	28	3	458	3	SIK1	21	44837498	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	13068583	44837498	3292397	159	33658										
RRP1	8568	broad.mit.edu	37	chr21	45217800	45217800	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cccctcagttccttggttttGaacaacatcactcgaggcat	7	13	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr21:45217800G>T	uc002zds.2	+	8	723	c.630G>T	c.(628-630)TTG>TTT	p.L210F	RRP1_uc011aez.1_Missense_Mutation_p.L210F|RRP1_uc010gpk.1_Missense_Mutation_p.L60F|RRP1_uc010gpl.1_Missense_Mutation_p.L108F|RRP1_uc010gpm.1_Missense_Mutation_p.L77F	NM_003683	NP_003674	P56182	RRP1_HUMAN	ribosomal RNA processing 1 homolog	210					rRNA processing	nucleolus|preribosome, small subunit precursor					0				COAD - Colon adenocarcinoma(84;0.00753)|Colorectal(79;0.0157)|STAD - Stomach adenocarcinoma(101;0.171)		CCTTGGTTTTGAACAACATCA	0.582													3	51	---	---	---	---	PASS	T	45217800	T	T	45217800	3	4	89	1	0	0	0	0	1	0	0	0	13685	1281	45	2	660	2	RRP1	21	45217800	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08	380302	45217800	2912095	160	33659										
PCNT	5116	broad.mit.edu	37	chr21	47783431	47783431	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ttgaagaccaccagaaggaaCtaaataatgctaagcaaaag	8	7	0	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr21:47783431C>G	uc002zji.3	+	14	2298	c.2191C>G	c.(2191-2193)CTA>GTA	p.L731V	PCNT_uc002zjj.2_Missense_Mutation_p.L613V	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	731	Glu-rich.|Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					CCAGAAGGAACTAAATAATGC	0.383													46	123	---	---	---	---	PASS	G	47783431	G	G	47783431	3	3	89	1	0	0	0	0	1	0	0	0	11590	564	20	4	2245	4	PCNT	21	47783431	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	2565631	47783431	346464	161	33660										
MYO18B	84700	broad.mit.edu	37	chr22	26304368	26304368	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tgaggaccaggaggaggaacTggaggatgtccgtcagtcct	16	8	1	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr22:26304368T>C	uc003abz.1	+	32	5478	c.5228T>C	c.(5227-5229)CTG>CCG	p.L1743P	MYO18B_uc003aca.1_Missense_Mutation_p.L1624P|MYO18B_uc010guy.1_Missense_Mutation_p.L1625P|MYO18B_uc010guz.1_Missense_Mutation_p.L1623P|MYO18B_uc011aka.1_Missense_Mutation_p.L897P|MYO18B_uc011akb.1_Missense_Mutation_p.L1256P	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1743	Potential.|Tail.|Gln-rich.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GAGGAGGAACTGGAGGATGTC	0.602													4	5	---	---	---	---	PASS	C	26304368	C	C	26304368	3	2	89	1	0	0	0	0	1	0	0	0	10066	1580	55	5	5350	5	MYO18B	22	26304368	Missense_Mutation	SNP	T	TCGA-39-5029-01A-01D-1441-08		26304368	25000198	162	33661										
MEI1	150365	broad.mit.edu	37	chr22	42166741	42166741	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	aaggcatcccagacctgcagCtagtctatactcaccatccg	7	15	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chr22:42166741C>A	uc003baz.1	+	20	2345	c.2320C>A	c.(2320-2322)CTA>ATA	p.L774I	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc011apd.1_RNA|MEI1_uc003bbb.1_Missense_Mutation_p.L160I|MEI1_uc003bbc.1_Missense_Mutation_p.L142I|MEI1_uc010gym.1_Missense_Mutation_p.L142I|MEI1_uc003bbd.1_Missense_Mutation_p.L17I	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	774							binding			central_nervous_system(1)|skin(1)	2						AGACCTGCAGCTAGTCTATAC	0.483													3	53	---	---	---	---	PASS	A	42166741	A	A	42166741	3	1	89	1	0	0	0	0	1	0	0	0	9465	796	28	3	2398	3	MEI1	22	42166741	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	15862373	42166741	9137825	163	33662										
DMD	1756	broad.mit.edu	37	chrX	31341742	31341742	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	agtagggcactttgtttggcGagatggctctctcccaggga	14	9	1	1	rs128626254		TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chrX:31341742G>A	uc004dda.1	-	62	9441	c.9197C>T	c.(9196-9198)TCG>TTG	p.S3066L	DMD_uc004dcq.1_Missense_Mutation_p.S337L|DMD_uc004dcr.1_Missense_Mutation_p.S606L|DMD_uc004dcs.1_Missense_Mutation_p.S606L|DMD_uc004dct.1_Missense_Mutation_p.S606L|DMD_uc004dcu.1_Missense_Mutation_p.S606L|DMD_uc004dcv.1_Missense_Mutation_p.S606L|DMD_uc004dcw.2_Missense_Mutation_p.S1722L|DMD_uc004dcx.2_Missense_Mutation_p.S1725L|DMD_uc004dcz.2_Missense_Mutation_p.S2943L|DMD_uc004dcy.1_Missense_Mutation_p.S3062L|DMD_uc004ddb.1_Missense_Mutation_p.S3058L	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3066	Interaction with SYNM (By similarity).|WW.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTTGTTTGGCGAGATGGCTCT	0.403													20	28	---	---	---	---	PASS	A	31341742	A	A	31341742	3	1	89	1	0	0	0	0	1	0	0	0	4580	1059	37	2	2046	2	DMD	23	31341742	Missense_Mutation	SNP	G	TCGA-39-5029-01A-01D-1441-08		31341742	123928818	164	33663										
PIM2	11040	broad.mit.edu	37	chrX	48775922	48775922	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	acgcttcccgatccttgcctCctacgcaggcggaggcgagg	13	15	0	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chrX:48775922C>A	uc004dls.2	-	2	364	c.62G>T	c.(61-63)GGA>GTA	p.G21V		NM_006875	NP_006866	Q9P1W9	PIM2_HUMAN	serine/threonine protein kinase pim-2	21					anti-apoptosis|cell proliferation|male meiosis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|response to virus		ATP binding|protein serine/threonine kinase activity			lung(3)|stomach(1)	4						ATCCTTGCCTCCTACGCAGGC	0.677													3	24	---	---	---	---	PASS	A	48775922	A	A	48775922	3	1	89	1	0	0	0	0	1	0	0	0	11928	869	30	2	893	2	PIM2	23	48775922	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	17434180	48775922	106494638	165	33664										
AR	367	broad.mit.edu	37	chrX	66943546	66943546	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	agattgcgagagagctgcatCagttcacttttgacctgcta	10	9	2	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chrX:66943546C>A	uc004dwu.1	+	8	3741	c.2626C>A	c.(2626-2628)CAG>AAG	p.Q876K	AR_uc004dwv.1_Missense_Mutation_p.Q344K	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	875	Ligand-binding.|Interaction with MYST2.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	AGAGCTGCATCAGTTCACTTT	0.483									Androgen_Insensitivity_Syndrome				71	72	---	---	---	---	PASS	A	66943546	A	A	66943546	3	1	89	1	0	0	0	0	1	0	0	0	836	827	29	2	2680	2	AR	23	66943546	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	18167624	66943546	88327014	166	33665										
PHKA1	5255	broad.mit.edu	37	chrX	71932781	71932781	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gcaagccagtcactggattcTgcaaggtcaagaaaaagagg	12	8	3	2			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chrX:71932781T>C	uc004eax.3	-	2	380	c.79_splice	c.e2-1	p.N27_splice	PHKA1_uc004eay.3_Splice_Site_p.N27_splice|PHKA1_uc011mqi.1_Splice_Site_p.N27_splice	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform						glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					CACTGGATTCTGCAAGGTCAA	0.463													14	13	---	---	---	---	PASS	C	71932781	C	C	71932781	5	2	89	1	0	0	0	0	0	0	1	0	11843	1594	55	5	3718	5	PHKA1	23	71932781	Splice_Site	SNP	T	TCGA-39-5029-01A-01D-1441-08	4989235	71932781	83337779	167	33666										
MAGEE2	139599	broad.mit.edu	37	chrX	75003366	75003366	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	gcctcagatttggctctggcCtcctcatcttccacagcctc	7	17	4	1	rs150153753	byFrequency	TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chrX:75003366C>A	uc004ecj.1	-	1	1706	c.1521G>T	c.(1519-1521)GAG>GAT	p.E507D		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	507										ovary(1)|skin(1)	2						TGGCTCTGGCCTCCTCATCTT	0.458													23	30	---	---	---	---	PASS	A	75003366	A	A	75003366	3	1	89	1	0	0	0	0	1	0	0	0	9186	680	24	3	54	3	MAGEE2	23	75003366	Missense_Mutation	SNP	C	TCGA-39-5029-01A-01D-1441-08	3070585	75003366	80267194	168	33667										
ARHGEF6	9459	broad.mit.edu	37	chrX	135758808	135758808	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	ctaatcacatattcctcctcCgatggttttctctcagtctt	4	13	4	0			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chrX:135758808C>T	uc004fab.2	-	18	2382	c.1920G>A	c.(1918-1920)TCG>TCA	p.S640S	ARHGEF6_uc011mwd.1_Silent_p.S513S|ARHGEF6_uc011mwe.1_Silent_p.S486S	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	640					apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					ATTCCTCCTCCGATGGTTTTC	0.323													25	47	---	---	---	---	PASS	T	135758808	T	T	135758808	2	4	89	1	0	0	0	0	0	0	0	1	910	639	23	1		1	ARHGEF6	23	135758808	Silent	SNP	C	TCGA-39-5029-01A-01D-1441-08	60755442	135758808	19511752	169	33668										
SPANXN2	494119	broad.mit.edu	37	chrX	142795447	142795447	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	tcctcttggacgggattgatGgagttctctcgggactggtc	14	9	2	1			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chrX:142795447G>A	uc004fbz.2	-	2	985	c.231C>T	c.(229-231)TCC>TCT	p.S77S		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	77										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CGGGATTGATGGAGTTCTCTC	0.438													66	166	---	---	---	---	PASS	A	142795447	A	A	142795447	2	1	89	1	0	0	0	0	0	0	0	1	14991	1335	47	3		3	SPANXN2	23	142795447	Silent	SNP	G	TCGA-39-5029-01A-01D-1441-08	7036639	142795447	12475113	170	33669										
TSPY2	64591	broad.mit.edu	37	chrY	6115610	6115610	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.147058823529412	25	0.0010697496553639	2.017056992013	3.74646411733892	1.41438481197517	1	1	13	cttgtcctgacaggtggaagAagagaagcatcgtgttcatc	12	8	1	3			TCGA-39-5029-01A-01D-1441-08	TCGA-39-5029-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa02c83c-7ef0-400d-bd8d-729dacda6352	69fd7f79-6e6c-44df-9734-543da03612a1	g.chrY:6115610A>G	uc004fqr.1	+	3	618	c.572A>G	c.(571-573)GAA>GGA	p.E191G	TSPY2_uc004fqs.1_Missense_Mutation_p.E191G	NM_022573	NP_072095	A6NKD2	TSPY2_HUMAN	testis specific protein, Y-linked 2	191					cell differentiation|gonadal mesoderm development|nucleosome assembly|spermatogenesis	cytoplasm|nucleus					0						CAGGTGGAAGAAGAGAAGCAT	0.448													25	105	---	---	---	---	PASS	G	6115610	G	G	6115610	3	3	89	1	0	0	0	0	1	0	0	0	16655	246	9	5	582	5	TSPY2	24	6115610	Missense_Mutation	SNP	A	TCGA-39-5029-01A-01D-1441-08		6115610	53257956	171	33670										
PRDM16	63976	broad.mit.edu	37	chr1	3102984	3102984	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gaagccggggagaggctgggCccctgcgtggtggtgccccg	20	12	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:3102984C>T	uc001akf.2	+	2	413	c.333C>T	c.(331-333)GGC>GGT	p.G111G	PRDM16_uc001akc.2_Silent_p.G111G|PRDM16_uc001akd.2_Silent_p.G111G|PRDM16_uc001ake.2_Silent_p.G111G|PRDM16_uc009vlh.2_5'UTR	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	111	SET.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		AGAGGCTGGGCCCCTGCGTGG	0.637			T	EVI1	MDS|AML								4	41	---	---	---	---	PASS	T	3102984	T	T	3102984	2	4	90	1	0	0	0	0	0	0	0	1	12457	726	26	3		3	PRDM16	1	3102984	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08		3102984	246147637	1	33671										
KIAA0562	9731	broad.mit.edu	37	chr1	3761503	3761503	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccttctagagcagggtcctcGctgttgtgcccaaggtagtg	13	11	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:3761503G>A	uc001aky.2	-	6	893	c.534C>T	c.(532-534)AGC>AGT	p.S178S	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Silent_p.S178S	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	178						centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		CAGGGTCCTCGCTGTTGTGCC	0.478													4	98	---	---	---	---	PASS	A	3761503	A	A	3761503	2	1	90	1	0	0	0	0	0	0	0	1	8184	1078	38	1		1	KIAA0562	1	3761503	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	658519	3761503	245489118	2	33672										
PADI1	29943	broad.mit.edu	37	chr1	17557070	17557070	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	catctctcccctcccaggacGagatggagtttggctacatc	9	14	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:17557070G>A	uc001bah.1	+	10	1149	c.1057G>A	c.(1057-1059)GAG>AAG	p.E353K	PADI1_uc010oco.1_5'Flank|PADI1_uc010ocp.1_5'Flank|PADI1_uc010ocq.1_5'Flank	NM_013358	NP_037490	Q9ULC6	PADI1_HUMAN	peptidylarginine deiminase type I	353					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity				0		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00522)|BRCA - Breast invasive adenocarcinoma(304;1.3e-05)|COAD - Colon adenocarcinoma(227;1.31e-05)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(196;0.0069)|READ - Rectum adenocarcinoma(331;0.0681)|Lung(427;0.197)	L-Citrulline(DB00155)	CTCCCAGGACGAGATGGAGTT	0.577													4	39	---	---	---	---	PASS	A	17557070	A	A	17557070	3	1	90	1	0	0	0	0	1	0	0	0	11377	1059	37	2	1095	2	PADI1	1	17557070	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	13795567	17557070	231693551	3	33673										
SLC30A2	7780	broad.mit.edu	37	chr1	26369919	26369919	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cagccacagcgcagcccgacGtgatcagcatggtccccccg	11	18	1	1	rs148861822		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:26369919G>A	uc001blh.1	-	3	612	c.395C>T	c.(394-396)ACG>ATG	p.T132M	SLC30A2_uc001blg.1_Missense_Mutation_p.T181M	NM_032513	NP_115902	Q9BRI3	ZNT2_HUMAN	solute carrier family 30, member 2 isoform 2	132	Helical; (Potential).				positive regulation of sequestering of zinc ion|zinc ion transport	integral to membrane|late endosome|lysosomal membrane	cation transmembrane transporter activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;7.09e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000728)|BRCA - Breast invasive adenocarcinoma(304;0.000969)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00614)|READ - Rectum adenocarcinoma(331;0.0649)		GCAGCCCGACGTGATCAGCAT	0.607													5	36	---	---	---	---	PASS	A	26369919	A	A	26369919	3	1	90	1	0	0	0	0	1	0	0	0	14555	1145	40	1	596	1	SLC30A2	1	26369919	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	8812849	26369919	222880702	4	33674										
EYA3	2140	broad.mit.edu	37	chr1	28337512	28337512	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gctttcctcttgccccggttCttgctagtcatgtttttcct	7	13	3	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:28337512C>A	uc001bpi.1	-	10	1020	c.855G>T	c.(853-855)AAG>AAT	p.K285N	EYA3_uc010ofs.1_Missense_Mutation_p.K232N|EYA3_uc010oft.1_Missense_Mutation_p.K239N|EYA3_uc001bpj.2_Missense_Mutation_p.K239N|EYA3_uc001bpk.1_RNA|EYA3_uc010ofu.1_RNA	NM_001990	NP_001981	Q99504	EYA3_HUMAN	eyes absent 3	285					anatomical structure morphogenesis|double-strand break repair|histone dephosphorylation|multicellular organismal development|positive regulation of DNA repair|regulation of transcription, DNA-dependent|response to ionizing radiation|transcription, DNA-dependent|visual perception	cytoplasm	metal ion binding|protein binding|protein tyrosine phosphatase activity			ovary(2)|skin(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000414)|Lung NSC(340;0.000432)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0484)|OV - Ovarian serous cystadenocarcinoma(117;1.25e-24)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;2.8e-06)|STAD - Stomach adenocarcinoma(196;0.00364)|KIRC - Kidney renal clear cell carcinoma(1967;0.00378)|BRCA - Breast invasive adenocarcinoma(304;0.00718)|READ - Rectum adenocarcinoma(331;0.0642)		TGCCCCGGTTCTTGCTAGTCA	0.413													11	130	---	---	---	---	PASS	A	28337512	A	A	28337512	3	1	90	1	0	0	0	0	1	0	0	0	5330	912	32	2	902	2	EYA3	1	28337512	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	1967593	28337512	220913109	5	33675										
PTAFR	5724	broad.mit.edu	37	chr1	28477434	28477434	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aagacccacagcacgtagccAttagcaatgaccccgagcac	8	15	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:28477434A>T	uc001bpl.2	-	2	226	c.99T>A	c.(97-99)AAT>AAA	p.N33K	PTAFR_uc001bpm.3_Missense_Mutation_p.N33K|PTAFR_uc009vte.2_Missense_Mutation_p.N33K	NM_000952	NP_000943	P25105	PTAFR_HUMAN	platelet-activating factor receptor	33	Helical; Name=1; (Potential).				chemotaxis|inflammatory response|interferon-gamma-mediated signaling pathway|phosphatidylinositol-mediated signaling	integral to plasma membrane|nucleus	phospholipid binding|platelet activating factor receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00715)|all_lung(284;0.00732)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.215)|OV - Ovarian serous cystadenocarcinoma(117;6e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|STAD - Stomach adenocarcinoma(196;0.00678)|READ - Rectum adenocarcinoma(331;0.0649)		GCACGTAGCCATTAGCAATGA	0.493													7	41	---	---	---	---	PASS	T	28477434	T	T	28477434	3	4	90	1	0	0	0	0	1	0	0	0	12723	214	8	5	933	5	PTAFR	1	28477434	Missense_Mutation	SNP	A	TCGA-39-5030-01A-01D-1441-08	139922	28477434	220773187	6	33676										
COL8A2	1296	broad.mit.edu	37	chr1	36564093	36564093	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cccagccaggccactaggccCctggtcacctcgaatgccag	10	18	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:36564093C>T	uc001bzv.1	-	2	1196	c.1189G>A	c.(1189-1191)GGG>AGG	p.G397R	COL8A2_uc001bzw.1_Missense_Mutation_p.G332R	NM_005202	NP_005193	P25067	CO8A2_HUMAN	collagen, type VIII, alpha 2 precursor	397	Triple-helical region.				angiogenesis|cell-cell adhesion|extracellular matrix organization	basement membrane|collagen	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CCACTAGGCCCCTGGTCACCT	0.697													3	16	---	---	---	---	PASS	T	36564093	T	T	36564093	3	4	90	1	0	0	0	0	1	0	0	0	3706	623	22	3	926	3	COL8A2	1	36564093	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	8086659	36564093	212686528	7	33677										
INPP5B	3633	broad.mit.edu	37	chr1	38411462	38411462	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gccgtgctccaggcggtagcGcacgagtcccaggaggcggc	17	14	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:38411462G>A	uc001ccg.1	-	3	212	c.118C>T	c.(118-120)CGC>TGC	p.R40C	INPP5B_uc009vvk.1_5'UTR|INPP5B_uc001cch.2_5'UTR	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	40					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				AGGCGGTAGCGCACGAGTCCC	0.667													5	112	---	---	---	---	PASS	A	38411462	A	A	38411462	3	1	90	1	0	0	0	0	1	0	0	0	7755	1087	38	1	2711	1	INPP5B	1	38411462	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	1847369	38411462	210839159	8	33678										
EDN2	1907	broad.mit.edu	37	chr1	41949800	41949800	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggagctgcaggagcaacggcGaagccgaaggtgggtgcctt	18	9	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:41949800G>A	uc001cgx.2	-	2	211	c.139C>T	c.(139-141)CGC>TGC	p.R47C	EDN2_uc001cgu.2_RNA|EDN2_uc001cgv.2_RNA|EDN2_uc009vwh.2_5'UTR|EDN2_uc001cgw.2_RNA|EDN2_uc009vwi.2_RNA|EDN2_uc009vwj.2_RNA	NM_001956	NP_001947	P20800	EDN2_HUMAN	endothelin 2 preproprotein	47					artery smooth muscle contraction|calcium-mediated signaling|cytokine-mediated signaling pathway|elevation of cytosolic calcium ion concentration|hormonal regulation of the force of heart contraction|inositol phosphate-mediated signaling|macrophage activation|macrophage chemotaxis|neutrophil chemotaxis|positive regulation of cell proliferation|positive regulation of heart rate|positive regulation of leukocyte chemotaxis|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of the force of heart contraction by chemical signal|prostaglandin biosynthetic process|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	extracellular space	endothelin B receptor binding|hormone activity				0	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GAGCAACGGCGAAGCCGAAGG	0.612													4	46	---	---	---	---	PASS	A	41949800	A	A	41949800	3	1	90	1	0	0	0	0	1	0	0	0	4917	1058	37	2	413	2	EDN2	1	41949800	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	3538338	41949800	207300821	9	33679										
MUTYH	4595	broad.mit.edu	37	chr1	45798117	45798117	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cagcaccaatggctcggacaCggcacagcacccgtgctacg	11	16	0	0	rs140342925		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:45798117C>T	uc001cnm.2	-	9	941	c.725G>A	c.(724-726)CGT>CAT	p.R242H	MUTYH_uc009vxn.2_Missense_Mutation_p.R67H|MUTYH_uc001cnf.2_Missense_Mutation_p.R217H|MUTYH_uc009vxo.2_Missense_Mutation_p.R217H|MUTYH_uc001cng.2_Missense_Mutation_p.R228H|MUTYH_uc001cnj.2_Missense_Mutation_p.R125H|MUTYH_uc001cni.2_Missense_Mutation_p.R217H|MUTYH_uc001cnh.2_Missense_Mutation_p.R218H|MUTYH_uc001cno.2_Missense_Mutation_p.R125H|MUTYH_uc001cnk.2_Missense_Mutation_p.R102H|MUTYH_uc010oll.1_Intron|MUTYH_uc001cnl.2_Missense_Mutation_p.R231H|MUTYH_uc009vxp.2_Missense_Mutation_p.R245H|MUTYH_uc001cnn.2_Missense_Mutation_p.R232H	NM_012222	NP_036354	Q9UIF7	MUTYH_HUMAN	mutY homolog isoform 1	242					depurination|mismatch repair	nucleoplasm	4 iron, 4 sulfur cluster binding|DNA N-glycosylase activity|endonuclease activity|metal ion binding|MutSalpha complex binding				0	Acute lymphoblastic leukemia(166;0.155)					GGCTCGGACACGGCACAGCAC	0.617			Mis			colorectal		BER_DNA_glycosylases	MUTYH-associated_polyposis				5	70	---	---	---	---	PASS	T	45798117	T	T	45798117	3	4	90	1	0	0	0	0	1	0	0	0	9993	536	19	1	947	1	MUTYH	1	45798117	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	3848317	45798117	203452504	10	33680										
CDKN2C	1031	broad.mit.edu	37	chr1	51439730	51439730	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttcaagctgatgttaacatcGaggataatgaagggaacctg	11	6	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:51439730G>A	uc001csf.2	+	3	1511	c.295G>A	c.(295-297)GAG>AAG	p.E99K	CDKN2C_uc001csg.2_Missense_Mutation_p.E99K	NM_001262	NP_001253	P42773	CDN2C_HUMAN	cyclin-dependent kinase inhibitor 2C	99					cell cycle arrest|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|regulation of cyclin-dependent protein kinase activity	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|protein kinase binding	p.0?(4)|p.?(1)		central_nervous_system(7)|haematopoietic_and_lymphoid_tissue(5)|ovary(2)|thyroid(1)|lung(1)|kidney(1)	17				GBM - Glioblastoma multiforme(3;3.61e-13)|all cancers(3;0.00151)		TGTTAACATCGAGGATAATGA	0.532			D		glioma|MM				Multiple_Endocrine_Neoplasia_type_1				5	70	---	---	---	---	PASS	A	51439730	A	A	51439730	3	1	90	1	0	0	0	0	1	0	0	0	3165	1059	37	2	301	2	CDKN2C	1	51439730	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	5641613	51439730	197810891	11	33681										
C1orf163	65260	broad.mit.edu	37	chr1	53153698	53153698	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tagtccctggcctttcccaaGtcaggctggccatcctcatt	8	15	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:53153698G>A	uc001cui.1	-	3	430	c.390C>T	c.(388-390)GAC>GAT	p.D130D		NM_023077	NP_075565	Q96BR5	SELR1_HUMAN	hypothetical protein LOC65260	130	Sel1-like 3.						binding				0						CCTTTCCCAAGTCAGGCTGGC	0.542													5	124	---	---	---	---	PASS	A	53153698	A	A	53153698	2	1	90	1	0	0	0	0	0	0	0	1	2011	1020	36	3		3	C1orf163	1	53153698	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	1713968	53153698	196096923	12	33682										
CDCP2	200008	broad.mit.edu	37	chr1	54607066	54607066	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttgggatactcaggactggtGaggacccctgacaggccagt	14	10	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:54607066G>A	uc001cwv.1	-	3	1316	c.468C>T	c.(466-468)CTC>CTT	p.L156L		NM_201546	NP_963840	Q5VXM1	CDCP2_HUMAN	CUB domain containing protein 2 precursor	156	CUB 2.					extracellular region				ovary(1)	1						CAGGACTGGTGAGGACCCCTG	0.607													5	61	---	---	---	---	PASS	A	54607066	A	A	54607066	2	1	90	1	0	0	0	0	0	0	0	1	3094	1277	45	2		2	CDCP2	1	54607066	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	1453368	54607066	194643555	13	33683										
DAB1	1600	broad.mit.edu	37	chr1	57481000	57481000	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tgcgatgggctgagcccccgGcatcacctgagcgactggtg	15	13	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:57481000G>A	uc001cys.1	-	14	1674	c.1000C>T	c.(1000-1002)CCG>TCG	p.P334S	DAB1_uc001cyt.1_Missense_Mutation_p.P332S|DAB1_uc001cyq.1_Missense_Mutation_p.P332S|DAB1_uc001cyr.1_Missense_Mutation_p.P248S|DAB1_uc009vzw.1_Missense_Mutation_p.P316S|DAB1_uc009vzx.1_Missense_Mutation_p.P334S	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	367					cell differentiation|nervous system development					skin(2)|ovary(1)	3						TGAGCCCCCGGCATCACCTGA	0.667													6	89	---	---	---	---	PASS	A	57481000	A	A	57481000	3	1	90	1	0	0	0	0	1	0	0	0	4217	1203	42	3	679	3	DAB1	1	57481000	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	2873934	57481000	191769621	14	33684										
TGFBR3	7049	broad.mit.edu	37	chr1	92184997	92184997	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggtaggatccaacagggtgaCgtccatccccgagtagccac	12	13	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:92184997C>T	uc001doh.2	-	10	1904	c.1438G>A	c.(1438-1440)GTC>ATC	p.V480I	TGFBR3_uc009wde.2_Missense_Mutation_p.V257I|TGFBR3_uc010osy.1_Missense_Mutation_p.V438I|TGFBR3_uc001doi.2_Missense_Mutation_p.V479I|TGFBR3_uc001doj.2_Missense_Mutation_p.V479I	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	480	ZP.|Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		AACAGGGTGACGTCCATCCCC	0.517													7	90	---	---	---	---	PASS	T	92184997	T	T	92184997	3	4	90	1	0	0	0	0	1	0	0	0	15820	536	19	1	1149	1	TGFBR3	1	92184997	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	34703997	92184997	157065624	15	33685										
SASS6	163786	broad.mit.edu	37	chr1	100551139	100551139	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtccgcgtaaaggaatgctaTcttcccttttcttcaggtat	8	10	3	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:100551139T>A	uc001dsu.2	-	16	1961	c.1820A>T	c.(1819-1821)GAT>GTT	p.D607V	SASS6_uc009wdz.2_Missense_Mutation_p.D440V	NM_194292	NP_919268	Q6UVJ0	SAS6_HUMAN	spindle assembly abnormal protein 6	607					centriole replication	centriole				upper_aerodigestive_tract(1)|ovary(1)	2		all_epithelial(167;4.58e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.085)|all cancers(265;0.139)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.197)		AGGAATGCTATCTTCCCTTTT	0.313													5	151	---	---	---	---	PASS	A	100551139	A	A	100551139	3	1	90	1	0	0	0	0	1	0	0	0	13850	1435	50	5	161	5	SASS6	1	100551139	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	8366142	100551139	148699482	16	33686										
KCNC4	3749	broad.mit.edu	37	chr1	110765655	110765655	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tctgcctggagacccatgagGcctttaatatcgaccgcaac	9	13	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:110765655G>A	uc001dzh.2	+	2	805	c.748G>A	c.(748-750)GCC>ACC	p.A250T	KCNC4_uc001dzf.2_Missense_Mutation_p.A250T|KCNC4_uc009wfr.2_Missense_Mutation_p.A250T|KCNC4_uc001dzg.2_Missense_Mutation_p.A250T|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	250					synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		all_cancers(81;9.88e-06)|all_epithelial(167;3.23e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0238)|all cancers(265;0.0693)|Epithelial(280;0.0748)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.135)		GACCCATGAGGCCTTTAATAT	0.582													8	145	---	---	---	---	PASS	A	110765655	A	A	110765655	3	1	90	1	0	0	0	0	1	0	0	0	8017	1203	42	3	754	3	KCNC4	1	110765655	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	10214516	110765655	138484966	17	33687										
VANGL1	81839	broad.mit.edu	37	chr1	116206498	116206498	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctccgatcctgtggagggatGagctggagccttgtggcaca	15	10	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:116206498G>A	uc001efv.1	+	4	692	c.421G>A	c.(421-423)GAG>AAG	p.E141K	VANGL1_uc009wgy.1_Missense_Mutation_p.E139K|VANGL1_uc001efw.1_Missense_Mutation_p.E141K	NM_138959	NP_620409	Q8TAA9	VANG1_HUMAN	vang-like 1	141	Extracellular (Potential).				multicellular organismal development	integral to membrane	protein binding			central_nervous_system(1)	1	Lung SC(450;0.211)	all_cancers(81;1.24e-06)|all_epithelial(167;1.02e-06)|all_lung(203;7.95e-06)|Lung NSC(69;4.97e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		GTGGAGGGATGAGCTGGAGCC	0.507													12	146	---	---	---	---	PASS	A	116206498	A	A	116206498	3	1	90	1	0	0	0	0	1	0	0	0	17116	1291	45	2	431	2	VANGL1	1	116206498	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	5440843	116206498	133044123	18	33688										
BCL9	607	broad.mit.edu	37	chr1	147096108	147096108	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cttcactgtcctggggaacaGcatgccttcggtgtttacag	11	11	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:147096108G>T	uc001epq.2	+	10	4369	c.3629G>T	c.(3628-3630)AGC>ATC	p.S1210I	BCL9_uc010ozr.1_Missense_Mutation_p.S1124I	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	1210	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					CTGGGGAACAGCATGCCTTCG	0.577			T	IGH@|IGL@	B-ALL								9	157	---	---	---	---	PASS	T	147096108	T	T	147096108	3	4	90	1	0	0	0	0	1	0	0	0	1381	971	34	3	3655	3	BCL9	1	147096108	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	30889610	147096108	102154513	19	33689										
FAM63A	55793	broad.mit.edu	37	chr1	150974945	150974945	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aagcttggtctgctggctccCgttctctagcctccccatca	8	16	3	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:150974945C>T	uc001ewf.2	-	3	1833	c.149G>A	c.(148-150)CGG>CAG	p.R50Q	FAM63A_uc001ewc.2_Intron|FAM63A_uc010pcm.1_Intron|FAM63A_uc001ewd.2_Intron|FAM63A_uc001ewe.2_Intron|FAM63A_uc010pcn.1_Missense_Mutation_p.R98Q|FAM63A_uc001ewg.2_Missense_Mutation_p.R50Q	NM_018379	NP_001156731	Q8N5J2	FA63A_HUMAN	hypothetical protein LOC55793 isoform 1	50							protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			TGCTGGCTCCCGTTCTCTAGC	0.592													6	170	---	---	---	---	PASS	T	150974945	T	T	150974945	3	4	90	1	0	0	0	0	1	0	0	0	5596	652	23	1	1296	1	FAM63A	1	150974945	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	3878837	150974945	98275676	20	33690										
SLC39A1	27173	broad.mit.edu	37	chr1	153932959	153932959	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggtctcgctgcagccctaccGccagcccctcgaacacggag	11	18	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:153932959G>A	uc001fdh.2	-	4	759	c.590C>T	c.(589-591)GCG>GTG	p.A197V	CRTC2_uc010ped.1_5'Flank|SLC39A1_uc001fdi.2_Missense_Mutation_p.A197V|SLC39A1_uc001fdj.2_Missense_Mutation_p.A197V|SLC39A1_uc001fdk.2_Missense_Mutation_p.A197V|SLC39A1_uc010pee.1_Missense_Mutation_p.A95V|SLC39A1_uc001fdl.2_Missense_Mutation_p.A197V	NM_014437	NP_055252	Q9NY26	S39A1_HUMAN	solute carrier family 39 (zinc transporter),	197	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|membrane fraction|plasma membrane	zinc ion transmembrane transporter activity				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)	Colorectal(1306;0.019)		CAGCCCTACCGCCAGCCCCTC	0.677													6	61	---	---	---	---	PASS	A	153932959	A	A	153932959	3	1	90	1	0	0	0	0	1	0	0	0	14612	1087	38	1	388	1	SLC39A1	1	153932959	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	2958014	153932959	95317662	21	33691										
FAM189B	10712	broad.mit.edu	37	chr1	155217906	155217906	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cctggatatctggaggaaacGagtgaccaggccccgacctg	13	12	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:155217906G>A	uc001fjm.2	-	11	2374	c.1768C>T	c.(1768-1770)CGT>TGT	p.R590C	RAG1AP1_uc010pey.1_Intron|FAM189B_uc009wql.2_Missense_Mutation_p.R392C|FAM189B_uc001fjn.2_Missense_Mutation_p.R494C|FAM189B_uc001fjo.2_Missense_Mutation_p.R572C|FAM189B_uc001fjp.2_RNA	NM_006589	NP_006580	P81408	F189B_HUMAN	hypothetical protein LOC10712 isoform a	590						integral to membrane	WW domain binding			ovary(1)|breast(1)	2						TGGAGGAAACGAGTGACCAGG	0.607													3	48	---	---	---	---	PASS	A	155217906	A	A	155217906	3	1	90	1	0	0	0	0	1	0	0	0	5517	1058	37	2	246	2	FAM189B	1	155217906	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	1284947	155217906	94032715	22	33692										
PKLR	5313	broad.mit.edu	37	chr1	155263347	155263347	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	catcgcttgtctctgccctcGttggccggggcttggtaatc	12	13	1	0	rs74315362		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:155263347G>A	uc001fkb.3	-	8	1190	c.1151C>T	c.(1150-1152)ACG>ATG	p.T384M	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Missense_Mutation_p.T353M	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	384			T -> M (in PKRD; Tokyo/Beirut; most common mutation in Japanese population; no conformational change).		endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	CTCTGCCCTCGTTGGCCGGGG	0.587													15	55	---	---	---	---	PASS	A	155263347	A	A	155263347	3	1	90	1	0	0	0	0	1	0	0	0	11976	1145	40	1	589	1	PKLR	1	155263347	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	45441	155263347	93987274	23	33693										
SYT11	23208	broad.mit.edu	37	chr1	155838391	155838391	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agaccctggaccctgtgtttGacgagaccttcaccttctat	8	13	2	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:155838391G>C	uc001fmg.2	+	2	933	c.670G>C	c.(670-672)GAC>CAC	p.D224H	SYT11_uc010pgq.1_Intron	NM_152280	NP_689493	Q9BT88	SYT11_HUMAN	synaptotagmin XI	224	Cytoplasmic (Potential).|C2 1.					cell junction|synaptic vesicle membrane	protein binding|transporter activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;0.000162)			CCCTGTGTTTGACGAGACCTT	0.557													7	96	---	---	---	---	PASS	C	155838391	C	C	155838391	3	2	90	1	0	0	0	0	1	0	0	0	15464	1290	45	2	676	2	SYT11	1	155838391	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	575044	155838391	93412230	24	33694										
RXFP4	339403	broad.mit.edu	37	chr1	155912482	155912482	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	caggcaccttcagggatctgCggttgaggctgtggccccag	15	12	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:155912482C>A	uc010pgs.1	+	1	1003	c.982C>A	c.(982-984)CGG>AGG	p.R328R		NM_181885	NP_871001	Q8TDU9	RL3R2_HUMAN	relaxin 3 receptor 2	328	Cytoplasmic (Potential).					integral to membrane|plasma membrane	angiotensin type II receptor activity				0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					CAGGGATCTGCGGTTGAGGCT	0.662													15	115	---	---	---	---	PASS	A	155912482	A	A	155912482	2	1	90	1	0	0	0	0	0	0	0	1	13762	759	27	1		1	RXFP4	1	155912482	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	74091	155912482	93338139	25	33695										
UBQLN4	56893	broad.mit.edu	37	chr1	156020177	156020177	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gttggccataatcatgtgacGcatcagatcagggttagaca	11	8	3	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:156020177G>A	uc001fna.2	-	4	670	c.646C>T	c.(646-648)CGT>TGT	p.R216C	UBQLN4_uc010pgx.1_Missense_Mutation_p.R196C	NM_020131	NP_064516	Q9NRR5	UBQL4_HUMAN	ataxin-1 ubiquitin-like interacting protein	216						cytosol|endoplasmic reticulum membrane|nucleus	identical protein binding			pancreas(1)|skin(1)	2	Hepatocellular(266;0.133)|all_neural(408;0.195)					ATCATGTGACGCATCAGATCA	0.532													7	250	---	---	---	---	PASS	A	156020177	A	A	156020177	3	1	90	1	0	0	0	0	1	0	0	0	16896	1087	38	1	1191	1	UBQLN4	1	156020177	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	107695	156020177	93230444	26	33696										
PYHIN1	149628	broad.mit.edu	37	chr1	158912017	158912017	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tatatcaaattattccaaacGtaatagtctcctagaggtga	6	7	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:158912017G>A	uc001ftb.2	+	5	1075	c.830G>A	c.(829-831)CGT>CAT	p.R277H	PYHIN1_uc001ftc.2_Missense_Mutation_p.R268H|PYHIN1_uc001ftd.2_Missense_Mutation_p.R277H|PYHIN1_uc001fte.2_Missense_Mutation_p.R268H	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	277	HIN-200.				cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					TATTCCAAACGTAATAGTCTC	0.373													13	53	---	---	---	---	PASS	A	158912017	A	A	158912017	3	1	90	1	0	0	0	0	1	0	0	0	12865	1145	40	1	844	1	PYHIN1	1	158912017	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	2891840	158912017	90338604	27	33697										
COPA	1314	broad.mit.edu	37	chr1	160260349	160260349	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccccactgagtggacactttTctactggctttccacggtag	9	13	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:160260349T>C	uc009wti.2	-	32	3942	c.3548A>G	c.(3547-3549)GAA>GGA	p.E1183G	COPA_uc001fvv.3_Missense_Mutation_p.E1192G	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	1183					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TGGACACTTTTCTACTGGCTT	0.463													23	137	---	---	---	---	PASS	C	160260349	C	C	160260349	3	2	90	1	0	0	0	0	1	0	0	0	3727	1783	62	5	134	5	COPA	1	160260349	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	1348332	160260349	88990272	28	33698										
METTL13	51603	broad.mit.edu	37	chr1	171755080	171755080	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gagggccggaaacagctggcGgccagtgctggcttcaggag	18	10	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:171755080G>C	uc001ghz.2	+	3	1322	c.975G>C	c.(973-975)GCG>GCC	p.A325A	METTL13_uc001gia.2_Silent_p.A239A|METTL13_uc001gib.2_Silent_p.A169A|METTL13_uc010pml.1_Silent_p.A324A	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	325							methyltransferase activity|protein binding			kidney(1)	1						AACAGCTGGCGGCCAGTGCTG	0.557													6	33	---	---	---	---	PASS	C	171755080	C	C	171755080	2	2	90	1	0	0	0	0	0	0	0	1	9497	1103	39	4		4	METTL13	1	171755080	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	11494731	171755080	77495541	29	33699										
RABGAP1L	9910	broad.mit.edu	37	chr1	174221626	174221626	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tgaatatttcagccctgtgcCtaaggatagagataaatttt	8	6	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:174221626C>G	uc001gjx.2	+	7	1079	c.884C>G	c.(883-885)CCT>CGT	p.P295R	RABGAP1L_uc009wwq.1_Missense_Mutation_p.P307R|RABGAP1L_uc001gjw.2_Missense_Mutation_p.P258R|RABGAP1L_uc001gjy.2_5'UTR	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	295					regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						AGCCCTGTGCCTAAGGATAGA	0.289													15	102	---	---	---	---	PASS	G	174221626	G	G	174221626	3	3	90	1	0	0	0	0	1	0	0	0	12965	681	24	4	906	4	RABGAP1L	1	174221626	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	2466546	174221626	75028995	30	33700										
CR1	1378	broad.mit.edu	37	chr1	207700114	207700114	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccagtatgtcagccacctccAgatgtcctgcatgctgagcg	10	14	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:207700114A>G	uc001hfy.2	+	6	1043	c.903A>G	c.(901-903)CCA>CCG	p.P301P	CR1_uc009xcl.1_Intron|CR1_uc001hfx.2_Silent_p.P301P|CR1_uc009xcj.1_Intron|CR1_uc009xck.1_Silent_p.P301P|CR1_uc010psh.1_5'Flank	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	301	Sushi 5.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						AGCCACCTCCAGATGTCCTGC	0.478													6	203	---	---	---	---	PASS	G	207700114	G	G	207700114	2	3	90	1	0	0	0	0	0	0	0	1	3840	175	7	5		5	CR1	1	207700114	Silent	SNP	A	TCGA-39-5030-01A-01D-1441-08	33478488	207700114	41550507	31	33701										
SMYD2	56950	broad.mit.edu	37	chr1	214478553	214478553	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agaaggattgtccaaatgtgGaagatgcaagcaggcatttt	12	5	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:214478553G>T	uc010ptx.1	+	2	230	c.197G>T	c.(196-198)GGA>GTA	p.G66V	SMYD2_uc009xdj.2_Intron|SMYD2_uc010ptw.1_Intron|SMYD2_uc009xdl.1_RNA	NM_020197	NP_064582	Q9NRG4	SMYD2_HUMAN	SET and MYND domain containing 2	66	MYND-type.				negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|regulation of DNA damage response, signal transduction by p53 class mediator|transcription, DNA-dependent	cytosol|nucleus	histone methyltransferase activity (H3-K36 specific)|p53 binding|RNA polymerase II core binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0122)|all cancers(67;0.0209)|GBM - Glioblastoma multiforme(131;0.106)|Epithelial(68;0.144)		TCCAAATGTGGAAGATGCAAG	0.458													15	179	---	---	---	---	PASS	T	214478553	T	T	214478553	3	4	90	1	0	0	0	0	1	0	0	0	14822	1174	41	2	203	2	SMYD2	1	214478553	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	6778439	214478553	34772068	32	33702										
CDC42BPA	8476	broad.mit.edu	37	chr1	227300098	227300098	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tgtctttagatgcttcagcaGctagagcttctgtatgaact	9	8	3	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:227300098G>T	uc001hqr.2	-	14	2859	c.1916C>A	c.(1915-1917)GCT>GAT	p.A639D	CDC42BPA_uc001hqs.2_Missense_Mutation_p.A558D|CDC42BPA_uc009xes.2_Missense_Mutation_p.A639D|CDC42BPA_uc010pvs.1_Missense_Mutation_p.A639D	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	639	Potential.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TGCTTCAGCAGCTAGAGCTTC	0.368													11	230	---	---	---	---	PASS	T	227300098	T	T	227300098	3	4	90	1	0	0	0	0	1	0	0	0	3072	971	34	3	3335	3	CDC42BPA	1	227300098	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	12821545	227300098	21950523	33	33703										
C1orf69	200205	broad.mit.edu	37	chr1	228363082	228363082	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtgggcaagttcagggctggCcagggcaacgtggggctggc	20	9	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:228363082C>T	uc001hsl.3	+	3	1028	c.939C>T	c.(937-939)GGC>GGT	p.G313G	C1orf69_uc010pvw.1_Silent_p.G120G	NM_001010867	NP_001010867	Q5T440	CAF17_HUMAN	hypothetical protein LOC200205 precursor	313					glycine catabolic process|heme biosynthetic process	mitochondrion	aminomethyltransferase activity				0		Prostate(94;0.0405)				TCAGGGCTGGCCAGGGCAACG	0.637													8	110	---	---	---	---	PASS	T	228363082	T	T	228363082	2	4	90	1	0	0	0	0	0	0	0	1	2057	726	26	3		3	C1orf69	1	228363082	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	1062984	228363082	20887539	34	33704										
ARV1	64801	broad.mit.edu	37	chr1	231131696	231131696	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tgcctcaaactcattaaagtAtttgttcttacatcaaattt	3	8	4	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:231131696A>G	uc009xfl.1	+	4	668	c.639A>G	c.(637-639)GTA>GTG	p.V213V	ARV1_uc001huh.2_Silent_p.V213V	NM_022786	NP_073623	Q9H2C2	ARV1_HUMAN	ARV1 homolog	213					sphingolipid metabolic process	integral to membrane				breast(2)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)		COAD - Colon adenocarcinoma(196;0.211)|Colorectal(1306;0.233)		TCATTAAAGTATTTGTTCTTA	0.348													7	156	---	---	---	---	PASS	G	231131696	G	G	231131696	2	3	90	1	0	0	0	0	0	0	0	1	1002	436	16	5		5	ARV1	1	231131696	Silent	SNP	A	TCGA-39-5030-01A-01D-1441-08	2768614	231131696	18118925	35	33705										
SIPA1L2	57568	broad.mit.edu	37	chr1	232650420	232650420	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccaaaagggaccattgctttGtggtcataattttctactcg	8	9	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:232650420G>A	uc001hvg.2	-	1	824	c.666C>T	c.(664-666)CAC>CAT	p.H222H		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	222					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				CCATTGCTTTGTGGTCATAAT	0.463													6	155	---	---	---	---	PASS	A	232650420	A	A	232650420	2	1	90	1	0	0	0	0	0	0	0	1	14330	1368	48	3		3	SIPA1L2	1	232650420	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	1518724	232650420	16600201	36	33706										
RYR2	6262	broad.mit.edu	37	chr1	237972262	237972262	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atacactgtggtggcattcaAttttttccgaaaattctaca	6	8	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:237972262A>T	uc001hyl.1	+	100	14480	c.14360A>T	c.(14359-14361)AAT>ATT	p.N4787I	RYR2_uc010pyb.1_Missense_Mutation_p.N220I	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4787					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)			GTGGCATTCAATTTTTTCCGA	0.358													20	332	---	---	---	---	PASS	T	237972262	T	T	237972262	3	4	90	1	0	0	0	0	1	0	0	0	13769	101	4	5	14758	5	RYR2	1	237972262	Missense_Mutation	SNP	A	TCGA-39-5030-01A-01D-1441-08	5321842	237972262	11278359	37	33707										
SDCCAG8	10806	broad.mit.edu	37	chr1	243471407	243471407	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tggtggtctttgtttgaaatGtgctcagcatgaagctgttc	12	6	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:243471407G>C	uc001hzw.2	+	8	1013	c.857G>C	c.(856-858)TGT>TCT	p.C286S	SDCCAG8_uc010pyk.1_Missense_Mutation_p.C141S|SDCCAG8_uc010pyl.1_Missense_Mutation_p.C98S|SDCCAG8_uc001hzx.2_Missense_Mutation_p.C98S	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	286	Sufficient for homodimerization (By similarity).				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		TGTTTGAAATGTGCTCAGCAT	0.403													28	174	---	---	---	---	PASS	C	243471407	C	C	243471407	3	2	90	1	0	0	0	0	1	0	0	0	13959	1377	48	4	887	4	SDCCAG8	1	243471407	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	5499145	243471407	5779214	38	33708										
OR2B11	127623	broad.mit.edu	37	chr1	247614912	247614912	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gcagatggccacgtagcggtCcagggccatggcggccagga	17	12	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr1:247614912C>G	uc010pyx.1	-	1	373	c.373G>C	c.(373-375)GAC>CAC	p.D125H		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			ACGTAGCGGTCCAGGGCCATG	0.612													14	92	---	---	---	---	PASS	G	247614912	G	G	247614912	3	3	90	1	0	0	0	0	1	0	0	0	10988	855	30	2	583	2	OR2B11	1	247614912	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	4143505	247614912	1635709	39	33709										
ATP6V1C2	245973	broad.mit.edu	37	chr2	10922457	10922457	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	taagagaggttctaaactctGtcttccgacatctggatgaa	9	8	4	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:10922457G>A	uc002ras.2	+	13	1259	c.1150G>A	c.(1150-1152)GTC>ATC	p.V384I	ATP6V1C2_uc002rat.2_Missense_Mutation_p.V338I	NM_001039362	NP_001034451	Q8NEY4	VATC2_HUMAN	vacuolar H+ ATPase C2 isoform a	384					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.15)|OV - Ovarian serous cystadenocarcinoma(76;0.152)		TCTAAACTCTGTCTTCCGACA	0.443													8	53	---	---	---	---	PASS	A	10922457	A	A	10922457	3	1	90	1	0	0	0	0	1	0	0	0	1181	1377	48	3	1196	3	ATP6V1C2	2	10922457	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08		10922457	232276916	40	33710										
MAP4K3	8491	broad.mit.edu	37	chr2	39552742	39552742	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cagctcgattgccaaagaccGtgtcaaatgttgtgttacaa	9	9	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:39552742G>A	uc002rro.2	-	12	926	c.835C>T	c.(835-837)CGG>TGG	p.R279W	MAP4K3_uc002rrp.2_Missense_Mutation_p.R279W|MAP4K3_uc010yns.1_Translation_Start_Site	NM_003618	NP_003609	Q8IVH8	M4K3_HUMAN	mitogen-activated protein kinase kinase kinase	279					JNK cascade		ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(3)|lung(3)|stomach(1)|pancreas(1)	8		all_hematologic(82;0.211)				GCCAAAGACCGTGTCAAATGT	0.313													5	81	---	---	---	---	PASS	A	39552742	A	A	39552742	3	1	90	1	0	0	0	0	1	0	0	0	9261	1144	40	1	1941	1	MAP4K3	2	39552742	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	28630285	39552742	203646631	41	33711										
SIX2	10736	broad.mit.edu	37	chr2	45233549	45233549	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gatggagtcttctcatcctcCgagctgcctaacaccgactt	8	14	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:45233549C>A	uc002ruo.2	-	2	929	c.636G>T	c.(634-636)TCG>TCT	p.S212S	SIX2_uc002rup.2_Silent_p.S214S	NM_016932	NP_058628	Q9NPC8	SIX2_HUMAN	SIX homeobox 2	212						nucleus	sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TCTCATCCTCCGAGCTGCCTA	0.632													9	175	---	---	---	---	PASS	A	45233549	A	A	45233549	2	1	90	1	0	0	0	0	0	0	0	1	14347	639	23	1		1	SIX2	2	45233549	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	5680807	45233549	197965824	42	33712										
PTCD3	55037	broad.mit.edu	37	chr2	86346095	86346095	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcaaagacataagtgaagccGccctgaaggaacgaattgag	11	8	1	4	rs140431055	byFrequency	TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:86346095G>A	uc002sqw.2	+	7	532	c.466G>A	c.(466-468)GCC>ACC	p.A156T	PTCD3_uc010ytc.1_Intron	NM_017952	NP_060422	Q96EY7	PTCD3_HUMAN	pentatricopeptide repeat domain 3 precursor	156	PPR 1.					mitochondrion	protein binding			ovary(1)	1						AAGTGAAGCCGCCCTGAAGGA	0.428													6	184	---	---	---	---	PASS	A	86346095	A	A	86346095	3	1	90	1	0	0	0	0	1	0	0	0	12729	1087	38	1	492	1	PTCD3	2	86346095	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	41112546	86346095	156853278	43	33713										
INPP4A	3631	broad.mit.edu	37	chr2	99155410	99155410	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttaggaatccgatccaaataCgcttcattgcgaaaggacac	8	10	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:99155410C>T	uc002syy.2	+	9	1029	c.636C>T	c.(634-636)TAC>TAT	p.Y212Y	INPP4A_uc010yvj.1_Silent_p.Y212Y|INPP4A_uc010yvk.1_Silent_p.Y212Y|INPP4A_uc002syx.2_Silent_p.Y212Y|INPP4A_uc010fik.2_Intron	NM_001134224	NP_001127696	Q96PE3	INP4A_HUMAN	inositol polyphosphate-4-phosphatase, type 1	212					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			kidney(1)	1						GATCCAAATACGCTTCATTGC	0.468													5	39	---	---	---	---	PASS	T	99155410	T	T	99155410	2	4	90	1	0	0	0	0	0	0	0	1	7752	547	19	1		1	INPP4A	2	99155410	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	12809315	99155410	144043963	44	33714										
C2orf64	493753	broad.mit.edu	37	chr2	99220597	99220597	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcttttacactcaaaaaatgCgtacttcaaagagttgcagt	6	8	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:99220597C>T	uc002syz.2	-	2	244	c.157G>A	c.(157-159)GCA>ACA	p.A53T	C2orf64_uc002sza.2_Intron	NM_001008215	NP_001008216	Q86WW8	COA5_HUMAN	hypothetical protein LOC493753	53			A -> P (in MT-C4D).								0						TCAAAAAATGCGTACTTCAAA	0.328													5	97	---	---	---	---	PASS	T	99220597	T	T	99220597	3	4	90	1	0	0	0	0	1	0	0	0	2183	768	27	1	75	1	C2orf64	2	99220597	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	65187	99220597	143978776	45	33715										
TGFBRAP1	9392	broad.mit.edu	37	chr2	105886000	105886000	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gcgtgtgaaagagttgctggCggtggggtgggtctcggccc	20	8	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:105886000C>T	uc002tcq.2	-	11	2219	c.2135G>A	c.(2134-2136)CGC>CAC	p.R712H	TGFBRAP1_uc010fjc.2_Missense_Mutation_p.R481H|TGFBRAP1_uc002tcr.3_Missense_Mutation_p.R712H	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	712					regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						GAGTTGCTGGCGGTGGGGTGG	0.662													4	29	---	---	---	---	PASS	T	105886000	T	T	105886000	3	4	90	1	0	0	0	0	1	0	0	0	15821	768	27	1	455	1	TGFBRAP1	2	105886000	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	6665403	105886000	137313373	46	33716										
ST6GAL2	84620	broad.mit.edu	37	chr2	107459969	107459969	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gccccctcccgtgggcctggCtccccgggggaagggaatcc	15	17	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:107459969C>T	uc002tdq.2	-	2	584	c.465G>A	c.(463-465)GAG>GAA	p.E155E	ST6GAL2_uc002tdr.2_Silent_p.E155E|ST6GAL2_uc002tds.3_Silent_p.E155E	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	155	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						GTGGGCCTGGCTCCCCGGGGG	0.632													42	228	---	---	---	---	PASS	T	107459969	T	T	107459969	2	4	90	1	0	0	0	0	0	0	0	1	15221	796	28	3		3	ST6GAL2	2	107459969	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	1573969	107459969	135739404	47	33717										
TSN	7247	broad.mit.edu	37	chr2	122522919	122522919	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cggggctttaataaggagacGgcagcagcttgtgttgaaaa	14	6	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:122522919G>A	uc002tnl.2	+	6	898	c.663G>A	c.(661-663)ACG>ACA	p.T221T	TSN_uc002tnm.2_Silent_p.T174T|TSN_uc010yze.1_3'UTR|TSN_uc010flt.2_RNA	NM_004622	NP_004613	Q15631	TSN_HUMAN	translin	221					DNA recombination	cytoplasm|nucleus	sequence-specific DNA binding			breast(2)|large_intestine(1)	3		Ovarian(717;0.0563)|Prostate(154;0.116)				ATAAGGAGACGGCAGCAGCTT	0.522													4	97	---	---	---	---	PASS	A	122522919	A	A	122522919	2	1	90	1	0	0	0	0	0	0	0	1	16626	1103	39	1		1	TSN	2	122522919	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	15062950	122522919	120676454	48	33718										
HS6ST1	9394	broad.mit.edu	37	chr2	129026332	129026332	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctcctcaggcgtgggcgtgcGcccatcacacatatgcaacg	11	15	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:129026332G>A	uc002tpt.3	-	2	674	c.640C>T	c.(640-642)CGC>TGC	p.R214C		NM_004807	NP_004798	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	214	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	integral to plasma membrane	sulfotransferase activity			pancreas(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		GTGGGCGTGCGCCCATCACAC	0.647													5	130	---	---	---	---	PASS	A	129026332	A	A	129026332	3	1	90	1	0	0	0	0	1	0	0	0	7370	1087	38	1	599	1	HS6ST1	2	129026332	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	6503413	129026332	114173041	49	33719										
LRP1B	53353	broad.mit.edu	37	chr2	141108447	141108447	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cctggattaaactgagtactCcaaataatcatatctctttg	5	9	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:141108447C>G	uc002tvj.1	-	77	12783	c.11811G>C	c.(11809-11811)TGG>TGC	p.W3937C		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3937	Extracellular (Potential).|LDL-receptor class B 33.				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)		ACTGAGTACTCCAAATAATCA	0.343										TSP Lung(27;0.18)			5	119	---	---	---	---	PASS	G	141108447	G	G	141108447	3	3	90	1	0	0	0	0	1	0	0	0	8955	856	30	2	2048	2	LRP1B	2	141108447	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	12082115	141108447	102090926	50	33720										
NEB	4703	broad.mit.edu	37	chr2	152410492	152410492	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atctctaccatgtcgggcacGatgtggattttcatcttgtt	9	9	3	0	rs113068669		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:152410492G>A	uc010fnx.2	-	98	14564	c.14373C>T	c.(14371-14373)ATC>ATT	p.I4791I	NEB_uc002txr.2_Silent_p.I1214I	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	4791	Nebulin 131.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGTCGGGCACGATGTGGATTT	0.458													17	216	---	---	---	---	PASS	A	152410492	A	A	152410492	2	1	90	1	0	0	0	0	0	0	0	1	10302	1048	37	2		2	NEB	2	152410492	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	11302045	152410492	90788881	51	33721										
PRPF40A	55660	broad.mit.edu	37	chr2	153530207	153530207	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttggctctcctcctcttcttTtttgggagtaaaactagaga	8	9	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:153530207T>C	uc002tyi.2	-	11	1139	c.1126A>G	c.(1126-1128)AAA>GAA	p.K376E	PRPF40A_uc002tyh.3_Missense_Mutation_p.K349E|PRPF40A_uc010zcd.1_Missense_Mutation_p.K296E|PRPF40A_uc002tyj.2_Missense_Mutation_p.K245E	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	376					mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						TCCTCTTCTTTTTTGGGAGTA	0.284													4	46	---	---	---	---	PASS	C	153530207	C	C	153530207	3	2	90	1	0	0	0	0	1	0	0	0	12571	1850	64	5	1811	5	PRPF40A	2	153530207	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	1119715	153530207	89669166	52	33722										
BAZ2B	29994	broad.mit.edu	37	chr2	160287584	160287584	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agttttctctccttcagtatCactatctgattcatcttggt	5	10	6	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:160287584C>G	uc002uao.2	-	10	2336	c.1984G>C	c.(1984-1986)GAT>CAT	p.D662H	BAZ2B_uc002uap.2_Missense_Mutation_p.D660H|BAZ2B_uc002uaq.1_Intron|BAZ2B_uc002uar.1_Missense_Mutation_p.D235H	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	662	Asp/Glu-rich (acidic).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CCTTCAGTATCACTATCTGAT	0.378													12	130	---	---	---	---	PASS	G	160287584	G	G	160287584	3	3	90	1	0	0	0	0	1	0	0	0	1332	826	29	2	4634	2	BAZ2B	2	160287584	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	6757377	160287584	82911789	53	33723										
BAZ2B	29994	broad.mit.edu	37	chr2	160295564	160295564	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttcactctctgaatcagaatCatcatcttcactttcttcaa	2	12	9	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:160295564C>T	uc002uao.2	-	7	1208	c.856G>A	c.(856-858)GAT>AAT	p.D286N	BAZ2B_uc002uap.2_Missense_Mutation_p.D284N|BAZ2B_uc002uas.1_Missense_Mutation_p.D223N|BAZ2B_uc002uau.1_Missense_Mutation_p.D284N|BAZ2B_uc002uaq.1_Missense_Mutation_p.D214N|BAZ2B_uc002uat.3_Missense_Mutation_p.D223N|BAZ2B_uc010fop.1_Missense_Mutation_p.D284N	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	286					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						GAATCAGAATCATCATCTTCA	0.294													12	180	---	---	---	---	PASS	T	160295564	T	T	160295564	3	4	90	1	0	0	0	0	1	0	0	0	1332	826	29	2	5774	2	BAZ2B	2	160295564	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	7980	160295564	82903809	54	33724										
B3GALT1	8708	broad.mit.edu	37	chr2	168726029	168726029	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctcaaaacattaatggggatGagatgggtggccactttttg	12	6	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:168726029G>A	uc002udz.1	+	2	831	c.480G>A	c.(478-480)ATG>ATA	p.M160I		NM_020981	NP_066191	Q9Y5Z6	B3GT1_HUMAN	UDP-Gal:betaGlcNAc beta	160	Lumenal (Potential).				lipid glycosylation|protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4						TAATGGGGATGAGATGGGTGG	0.383													8	83	---	---	---	---	PASS	A	168726029	A	A	168726029	3	1	90	1	0	0	0	0	1	0	0	0	1247	1290	45	2	482	2	B3GALT1	2	168726029	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	8430465	168726029	74473344	55	33725										
CDCA7	83879	broad.mit.edu	37	chr2	174231026	174231026	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tgtagggctctacttgtcatCaatgccgtcagaagactatt	9	9	4	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:174231026C>G	uc002uid.1	+	7	945	c.814C>G	c.(814-816)CAA>GAA	p.Q272E	CDCA7_uc002uic.1_Missense_Mutation_p.Q351E|CDCA7_uc010zej.1_Missense_Mutation_p.Q307E|CDCA7_uc010zek.1_Missense_Mutation_p.Q230E	NM_145810	NP_665809	Q9BWT1	CDCA7_HUMAN	cell division cycle associated 7 isoform 2	272	Mediates transcriptional activity.				regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.116)			TACTTGTCATCAATGCCGTCA	0.428													5	169	---	---	---	---	PASS	G	174231026	G	G	174231026	3	3	90	1	0	0	0	0	1	0	0	0	3090	827	29	2	1081	2	CDCA7	2	174231026	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	5504997	174231026	68968347	56	33726										
CWC22	57703	broad.mit.edu	37	chr2	180830638	180830638	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttctccctcttcctcttcttCttcctcgtcctcttcactac	1	19	7	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:180830638C>T	uc010frh.1	-	12	1582	c.1282G>A	c.(1282-1284)GAA>AAA	p.E428K	CWC22_uc002unp.2_Missense_Mutation_p.E428K	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	428	Poly-Glu.					catalytic step 2 spliceosome	protein binding|RNA binding				0						tcctcttcttcttcctcgtcc	0.234													6	42	---	---	---	---	PASS	T	180830638	T	T	180830638	3	4	90	1	0	0	0	0	1	0	0	0	4068	922	32	2	1480	2	CWC22	2	180830638	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	6599612	180830638	62368735	57	33727										
TMEFF2	23671	broad.mit.edu	37	chr2	193059101	193059101	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gagcaattccagccggtgggCgtttggcagtcacttaagga	14	9	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:193059101C>T	uc002utc.2	-	1	544	c.150G>A	c.(148-150)ACG>ACA	p.T50T	TMEFF2_uc002utd.1_Silent_p.T50T	NM_016192	NP_057276	Q9UIK5	TEFF2_HUMAN	transmembrane protein with EGF-like and two	50	Extracellular (Potential).					extracellular region|integral to membrane				lung(2)|pancreas(1)|breast(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.0835)			AGCCGGTGGGCGTTTGGCAGT	0.592													10	134	---	---	---	---	PASS	T	193059101	T	T	193059101	2	4	90	1	0	0	0	0	0	0	0	1	16011	755	27	1		1	TMEFF2	2	193059101	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	12228463	193059101	50140272	58	33728										
RFTN2	130132	broad.mit.edu	37	chr2	198482601	198482601	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tggaactccagaaccttcttCttcatagataaaaaatcctt	4	10	3	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:198482601C>G	uc002uuo.3	-	6	1375	c.973G>C	c.(973-975)GAA>CAA	p.E325Q		NM_144629	NP_653230	Q52LD8	RFTN2_HUMAN	raftlin family member 2	325						plasma membrane					0						GAACCTTCTTCTTCATAGATA	0.388													7	94	---	---	---	---	PASS	G	198482601	G	G	198482601	3	3	90	1	0	0	0	0	1	0	0	0	13259	922	32	2	548	2	RFTN2	2	198482601	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	5423500	198482601	44716772	59	33729										
ZDBF2	57683	broad.mit.edu	37	chr2	207171375	207171375	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tagccgttcttctctgagttCtgattctccggcttctcttt	7	12	5	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:207171375C>G	uc002vbp.2	+	5	2373	c.2123C>G	c.(2122-2124)TCT>TGT	p.S708C		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	708							nucleic acid binding|zinc ion binding			ovary(3)	3						TCTCTGAGTTCTGATTCTCCG	0.408													11	68	---	---	---	---	PASS	G	207171375	G	G	207171375	3	3	90	1	0	0	0	0	1	0	0	0	17596	913	32	2	2133	2	ZDBF2	2	207171375	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	8688774	207171375	36027998	60	33730										
ZDBF2	57683	broad.mit.edu	37	chr2	207173250	207173250	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttctgaaataatttatgtttCaaatatccctcttcagtcag	4	8	5	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:207173250C>T	uc002vbp.2	+	5	4248	c.3998C>T	c.(3997-3999)TCA>TTA	p.S1333L		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1333							nucleic acid binding|zinc ion binding			ovary(3)	3						ATTTATGTTTCAAATATCCCT	0.383													4	69	---	---	---	---	PASS	T	207173250	T	T	207173250	3	4	90	1	0	0	0	0	1	0	0	0	17596	838	29	2	4008	2	ZDBF2	2	207173250	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	1875	207173250	36026123	61	33731										
IRS1	3667	broad.mit.edu	37	chr2	227663295	227663295	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gggggcgctcgacttgtgccGccacttcttctcgttctcgt	12	14	3	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:227663295G>A	uc002voh.3	-	1	212	c.160C>T	c.(160-162)CGG>TGG	p.R54W		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	54	PH.|Mediates interaction with PHIP (By similarity).				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GACTTGTGCCGCCACTTCTTC	0.607													23	127	---	---	---	---	PASS	A	227663295	A	A	227663295	3	1	90	1	0	0	0	0	1	0	0	0	7840	1086	38	1	3572	1	IRS1	2	227663295	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	20490045	227663295	15536078	62	33732										
COL4A4	1286	broad.mit.edu	37	chr2	227917019	227917019	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttaaaaactcttaagtgtttAcctctttctcctgggaatcc	5	10	3	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:227917019A>T	uc010zlt.1	-	32	3622	c.2968_splice	c.e32+1	p.G990_splice		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor						axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		TTAAGTGTTTACCTCTTTCTC	0.408													9	45	---	---	---	---	PASS	T	227917019	T	T	227917019	5	4	90	1	0	0	0	0	0	0	1	0	3693	405	14	5	2170	5	COL4A4	2	227917019	Splice_Site	SNP	A	TCGA-39-5030-01A-01D-1441-08	253724	227917019	15282354	63	33733										
PSMD1	5707	broad.mit.edu	37	chr2	231948391	231948391	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctcaacatgagaagattctgCgtggtcttgcagttggcata	11	8	3	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:231948391C>T	uc002vrn.1	+	14	1767	c.1636C>T	c.(1636-1638)CGT>TGT	p.R546C	PSMD1_uc002vrm.1_Missense_Mutation_p.R546C|PSMD1_uc010fxu.1_Missense_Mutation_p.R410C	NM_002807	NP_002798	Q99460	PSMD1_HUMAN	proteasome 26S non-ATPase subunit 1	546					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding			ovary(1)|skin(1)	2		Ovarian(221;0.000626)|Medulloblastoma(418;0.0109)|Renal(207;0.0112)|Lung NSC(271;0.0538)|all_lung(227;0.0713)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;4e-26)|LUSC - Lung squamous cell carcinoma(224;0.0138)|Lung(119;0.0168)	Bortezomib(DB00188)	GAAGATTCTGCGTGGTCTTGC	0.458													5	99	---	---	---	---	PASS	T	231948391	T	T	231948391	3	4	90	1	0	0	0	0	1	0	0	0	12692	768	27	1	1690	1	PSMD1	2	231948391	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	4031372	231948391	11250982	64	33734										
ILKAP	80895	broad.mit.edu	37	chr2	239092332	239092332	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggcaatataaagaatgttgtCtacagccagaacacacgtgg	10	8	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:239092332C>A	uc002vxv.2	-	8	806	c.676G>T	c.(676-678)GAC>TAC	p.D226Y	ILKAP_uc010zns.1_Missense_Mutation_p.D158Y|ILKAP_uc002vxw.2_Missense_Mutation_p.D106Y|ILKAP_uc010znt.1_Missense_Mutation_p.D106Y	NM_030768	NP_110395	Q9H0C8	ILKAP_HUMAN	integrin-linked kinase-associated protein	226	PP2C-like.					cytoplasm|protein serine/threonine phosphatase complex	metal ion binding|protein binding			ovary(3)	3		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_lung(227;0.152)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;5.49e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.93e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.82e-08)|BRCA - Breast invasive adenocarcinoma(100;0.00012)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0163)		AGAATGTTGTCTACAGCCAGA	0.493													6	91	---	---	---	---	PASS	A	239092332	A	A	239092332	3	1	90	1	0	0	0	0	1	0	0	0	7714	913	32	2	522	2	ILKAP	2	239092332	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	7143941	239092332	4107041	65	33735										
STK25	10494	broad.mit.edu	37	chr2	242438156	242438156	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aggaggtcttcttggtgtagCgtgtgatgaacttgtgcttc	14	6	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:242438156C>T	uc002wbm.2	-	7	1086	c.815G>A	c.(814-816)CGC>CAC	p.R272H	STK25_uc002wbk.2_Missense_Mutation_p.R91H|STK25_uc002wbl.2_3'UTR|STK25_uc002wbn.2_Missense_Mutation_p.R272H|STK25_uc002wbo.2_Missense_Mutation_p.R195H|STK25_uc010zos.1_Missense_Mutation_p.R178H|STK25_uc010zot.1_Missense_Mutation_p.R198H|STK25_uc002wbp.2_Missense_Mutation_p.R272H|STK25_uc010fzo.2_Missense_Mutation_p.R195H|STK25_uc010zou.1_Missense_Mutation_p.R178H|STK25_uc010zov.1_Missense_Mutation_p.R178H	NM_006374	NP_006365	O00506	STK25_HUMAN	serine/threonine kinase 25	272					response to oxidative stress|signal transduction	Golgi apparatus	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity				0		all_cancers(19;2.09e-34)|all_epithelial(40;2.09e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Ovarian(221;0.069)|Lung NSC(271;0.0886)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.2)		Epithelial(32;8.24e-34)|all cancers(36;3.46e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.6e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.1e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0839)		CTTGGTGTAGCGTGTGATGAA	0.602													12	157	---	---	---	---	PASS	T	242438156	T	T	242438156	3	4	90	1	0	0	0	0	1	0	0	0	15293	768	27	1	485	1	STK25	2	242438156	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	3345824	242438156	761217	66	33736										
D2HGDH	728294	broad.mit.edu	37	chr2	242681886	242681886	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aacctggccgtgaacccacaGgggggcaacacaggcatggt	14	12	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr2:242681886G>T	uc002wce.1	+	4	560	c.387G>T	c.(385-387)CAG>CAT	p.Q129H	D2HGDH_uc010zpc.1_RNA|D2HGDH_uc010fzq.1_Translation_Start_Site|D2HGDH_uc002wcg.1_RNA	NM_152783	NP_689996	Q8N465	D2HDH_HUMAN	D-2-hydroxyglutarate dehydrogenase precursor	129	FAD-binding PCMH-type.				2-oxoglutarate metabolic process|cellular protein metabolic process|response to cobalt ion|response to manganese ion|response to zinc ion	mitochondrial matrix	(R)-2-hydroxyglutarate dehydrogenase activity|flavin adenine dinucleotide binding|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		TGAACCCACAGGGGGGCAACA	0.642													8	40	---	---	---	---	PASS	T	242681886	T	T	242681886	3	4	90	1	0	0	0	0	1	0	0	0	4213	991	35	3	397	3	D2HGDH	2	242681886	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	243730	242681886	517487	67	33737										
SRGAP3	9901	broad.mit.edu	37	chr3	9101998	9101998	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	attgagcaagtagtcattccGggcctttgtgcatttcagct	10	9	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:9101998G>A	uc003brf.1	-	6	1394	c.718C>T	c.(718-720)CGG>TGG	p.R240W	SRGAP3_uc003brg.1_Missense_Mutation_p.R240W|SRGAP3_uc003bri.1_RNA|SRGAP3_uc003brk.2_Missense_Mutation_p.R240W|SRGAP3_uc003brj.1_Missense_Mutation_p.R100W	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	240					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		TAGTCATTCCGGGCCTTTGTG	0.483			T	RAF1	pilocytic astrocytoma								5	126	---	---	---	---	PASS	A	9101998	A	A	9101998	3	1	90	1	0	0	0	0	1	0	0	0	15146	1115	39	1	2684	1	SRGAP3	3	9101998	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08		9101998	188920432	68	33738										
BRPF1	7862	broad.mit.edu	37	chr3	9788039	9788039	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccaccatggggttcccatccCtgtgcccccactggaggtgc	11	17	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:9788039C>A	uc003bse.2	+	13	3761	c.3362C>A	c.(3361-3363)CCT>CAT	p.P1121H	BRPF1_uc003bsf.2_Missense_Mutation_p.P1127H|BRPF1_uc003bsg.2_Missense_Mutation_p.P1120H|BRPF1_uc011ati.1_Missense_Mutation_p.P1026H	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	1121	PWWP.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					GTTCCCATCCCTGTGCCCCCA	0.527													7	128	---	---	---	---	PASS	A	9788039	A	A	9788039	3	1	90	1	0	0	0	0	1	0	0	0	1520	681	24	3	3426	3	BRPF1	3	9788039	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	686041	9788039	188234391	69	33739										
ATP2B2	491	broad.mit.edu	37	chr3	10413690	10413690	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tgtggcattgcccatggtctCacaggcatccaggtggcgta	13	11	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:10413690C>G	uc003bvt.2	-	12	1901	c.1462G>C	c.(1462-1464)GAG>CAG	p.E488Q	ATP2B2_uc003bvv.2_Missense_Mutation_p.E443Q|ATP2B2_uc003bvw.2_Missense_Mutation_p.E443Q|ATP2B2_uc010hdo.2_Missense_Mutation_p.E193Q	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	488	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CCCATGGTCTCACAGGCATCC	0.577													12	85	---	---	---	---	PASS	G	10413690	G	G	10413690	3	3	90	1	0	0	0	0	1	0	0	0	1140	835	29	2	2317	2	ATP2B2	3	10413690	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	625651	10413690	187608740	70	33740										
MLH1	4292	broad.mit.edu	37	chr3	37061819	37061819	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agtttagaaatcagtccccaGaatgtggatgttaatgtgca	10	6	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:37061819G>A	uc003cgl.2	+	11	963	c.903G>A	c.(901-903)CAG>CAA	p.Q301Q	MLH1_uc011aye.1_Silent_p.Q60Q|MLH1_uc011ayb.1_Silent_p.Q60Q|MLH1_uc010hge.2_Silent_p.Q301Q|MLH1_uc003cgn.3_Silent_p.Q60Q|MLH1_uc011ayc.1_Silent_p.Q203Q|MLH1_uc011ayd.1_Silent_p.Q60Q|MLH1_uc003cgo.2_Silent_p.Q60Q|MLH1_uc010hgg.1_5'UTR|MLH1_uc010hgh.1_5'UTR|MLH1_uc010hgi.1_Intron|MLH1_uc010hgj.1_Intron|MLH1_uc010hgk.2_Intron|MLH1_uc010hgl.1_5'UTR	NM_000249	NP_000240	P40692	MLH1_HUMAN	MutL protein homolog 1	301					mismatch repair|somatic hypermutation of immunoglobulin genes	chiasma|MutLalpha complex|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|protein binding	p.0?(1)		large_intestine(40)|haematopoietic_and_lymphoid_tissue(8)|ovary(6)|pancreas(5)|stomach(3)|central_nervous_system(3)|endometrium(3)|breast(3)|prostate(3)|skin(2)|NS(1)	77						TCAGTCCCCAGAATGTGGATG	0.493		1	D|Mis|N|F|S		colorectal|endometrial|ovarian|CNS	colorectal|endometrial|ovarian|CNS		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				12	103	---	---	---	---	PASS	A	37061819	A	A	37061819	2	1	90	1	0	0	0	0	0	0	0	1	9617	933	33	2		2	MLH1	3	37061819	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	26648129	37061819	160960611	71	33741										
MLH1	4292	broad.mit.edu	37	chr3	37061853	37061853	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atgtgcaccccacaaagcatGaagttcacttcctgcacgag	8	13	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:37061853G>T	uc003cgl.2	+	11	997	c.937G>T	c.(937-939)GAA>TAA	p.E313*	MLH1_uc011aye.1_Nonsense_Mutation_p.E72*|MLH1_uc011ayb.1_Nonsense_Mutation_p.E72*|MLH1_uc010hge.2_Nonsense_Mutation_p.E313*|MLH1_uc003cgn.3_Nonsense_Mutation_p.E72*|MLH1_uc011ayc.1_Nonsense_Mutation_p.E215*|MLH1_uc011ayd.1_Nonsense_Mutation_p.E72*|MLH1_uc003cgo.2_Nonsense_Mutation_p.E72*|MLH1_uc010hgg.1_5'UTR|MLH1_uc010hgh.1_5'UTR|MLH1_uc010hgi.1_Intron|MLH1_uc010hgj.1_Intron|MLH1_uc010hgk.2_Intron|MLH1_uc010hgl.1_Missense_Mutation_p.M11I	NM_000249	NP_000240	P40692	MLH1_HUMAN	MutL protein homolog 1	313					mismatch repair|somatic hypermutation of immunoglobulin genes	chiasma|MutLalpha complex|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|protein binding	p.0?(1)		large_intestine(40)|haematopoietic_and_lymphoid_tissue(8)|ovary(6)|pancreas(5)|stomach(3)|central_nervous_system(3)|endometrium(3)|breast(3)|prostate(3)|skin(2)|NS(1)	77						CACAAAGCATGAAGTTCACTT	0.502		1	D|Mis|N|F|S		colorectal|endometrial|ovarian|CNS	colorectal|endometrial|ovarian|CNS		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				13	91	---	---	---	---	PASS	T	37061853	T	T	37061853	4	4	90	1	0	0	0	0	0	1	0	0	9617	1291	45	2	979	2	MLH1	3	37061853	Nonsense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	34	37061853	160960577	72	33742										
EIF1B	10289	broad.mit.edu	37	chr3	40352450	40352450	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gactgaggattacattcataTaagaatccagcaacggaacg	9	8	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:40352450T>C	uc003ckc.2	+	2	358	c.98T>C	c.(97-99)ATA>ACA	p.I33T	uc003ckb.2_5'Flank	NM_005875	NP_005866	O60739	EIF1B_HUMAN	translation factor sui1 homolog	33					regulation of translational initiation		protein binding|translation initiation factor activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0509)|Kidney(284;0.064)		TACATTCATATAAGAATCCAG	0.403													13	59	---	---	---	---	PASS	C	40352450	C	C	40352450	3	2	90	1	0	0	0	0	1	0	0	0	4994	1406	49	5	104	5	EIF1B	3	40352450	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	3290597	40352450	157669980	73	33743										
CDCP1	64866	broad.mit.edu	37	chr3	45132780	45132780	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tggtggaagcttggcttgggGagcacatcctcgtccaggct	15	10	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:45132780G>A	uc003com.2	-	7	2013	c.1878C>T	c.(1876-1878)CTC>CTT	p.L626L		NM_022842	NP_073753	Q9H5V8	CDCP1_HUMAN	CUB domain-containing protein 1 isoform 1	626	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		TTGGCTTGGGGAGCACATCCT	0.602													11	115	---	---	---	---	PASS	A	45132780	A	A	45132780	2	1	90	1	0	0	0	0	0	0	0	1	3093	1161	41	2		2	CDCP1	3	45132780	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	4780330	45132780	152889650	74	33744										
CDCP1	64866	broad.mit.edu	37	chr3	45153706	45153706	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tgccattgctgcagaaggttCcgatcctgaccacggtggca	12	12	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:45153706C>T	uc003com.2	-	3	659	c.524G>A	c.(523-525)GGA>GAA	p.G175E	CDCP1_uc003con.2_Missense_Mutation_p.G175E	NM_022842	NP_073753	Q9H5V8	CDCP1_HUMAN	CUB domain-containing protein 1 isoform 1	175	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		GCAGAAGGTTCCGATCCTGAC	0.587													31	121	---	---	---	---	PASS	T	45153706	T	T	45153706	3	4	90	1	0	0	0	0	1	0	0	0	3093	855	30	2	2022	2	CDCP1	3	45153706	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	20926	45153706	152868724	75	33745										
LRIG1	26018	broad.mit.edu	37	chr3	66431074	66431074	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcgtggttactggggtagagCgacccttggcactcggggca	16	10	0	1	rs148872922		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:66431074C>T	uc003dmx.2	-	18	2996	c.2982G>A	c.(2980-2982)TCG>TCA	p.S994S	SLC25A26_uc011bft.1_RNA|LRIG1_uc011bfu.1_Silent_p.S614S|LRIG1_uc003dmw.2_Silent_p.S660S|LRIG1_uc010hnz.2_Silent_p.S710S|LRIG1_uc010hoa.2_Silent_p.S971S	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	994	Cytoplasmic (Potential).					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		TGGGGTAGAGCGACCCTTGGC	0.557													7	227	---	---	---	---	PASS	T	66431074	T	T	66431074	2	4	90	1	0	0	0	0	0	0	0	1	8944	755	27	1		1	LRIG1	3	66431074	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	21277368	66431074	131591356	76	33746										
IMPG2	50939	broad.mit.edu	37	chr3	100949881	100949881	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tagatgatagcagaaaagatGacaagaagtccaaccacgga	10	7	0	6			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:100949881G>T	uc003duq.1	-	16	3545	c.3342C>A	c.(3340-3342)GTC>GTA	p.V1114V	IMPG2_uc011bhe.1_Silent_p.V977V|IMPG2_uc010hpj.1_Intron	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	1114	Helical; (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						CAGAAAAGATGACAAGAAGTC	0.478													20	220	---	---	---	---	PASS	T	100949881	T	T	100949881	2	4	90	1	0	0	0	0	0	0	0	1	7729	1277	45	2		2	IMPG2	3	100949881	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	34518807	100949881	97072549	77	33747										
QTRTD1	79691	broad.mit.edu	37	chr3	113804605	113804605	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gggcatacatccaccatctgCtggtgaccaatgagctgctg	11	12	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:113804605C>T	uc003eay.2	+	10	1332	c.1102C>T	c.(1102-1104)CTG>TTG	p.L368L	QTRTD1_uc003eaz.2_Silent_p.L380L|QTRTD1_uc011biq.1_Silent_p.L245L|QTRTD1_uc011bir.1_Silent_p.L262L	NM_024638	NP_078914	Q9H974	QTRD1_HUMAN	queuine tRNA-ribosyltransferase domain	368					queuosine biosynthetic process	mitochondrion	metal ion binding|queuine tRNA-ribosyltransferase activity			central_nervous_system(1)|skin(1)	2						CCACCATCTGCTGGTGACCAA	0.473													12	267	---	---	---	---	PASS	T	113804605	T	T	113804605	2	4	90	1	0	0	0	0	0	0	0	1	12886	796	28	3		3	QTRTD1	3	113804605	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	12854724	113804605	84217825	78	33748										
TMEM39A	55254	broad.mit.edu	37	chr3	119153616	119153616	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aagcggtacttgcataaaagCgggcatgagatacatctgaa	11	7	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:119153616C>T	uc003eck.1	-	8	1589	c.1226G>A	c.(1225-1227)CGC>CAC	p.R409H	TMEM39A_uc003ecl.1_Missense_Mutation_p.R257H	NM_018266	NP_060736	Q9NV64	TM39A_HUMAN	transmembrane protein 39A	409						integral to membrane				ovary(1)|breast(1)	2				GBM - Glioblastoma multiforme(114;0.244)		TGCATAAAAGCGGGCATGAGA	0.468													11	193	---	---	---	---	PASS	T	119153616	T	T	119153616	3	4	90	1	0	0	0	0	1	0	0	0	16158	768	27	1	248	1	TMEM39A	3	119153616	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	5349011	119153616	78868814	79	33749										
PLXND1	23129	broad.mit.edu	37	chr3	129303326	129303326	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctgggacccgagccacagtgCggatgttgttcccatagtca	12	12	1	0	rs139388919	byFrequency	TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:129303326C>T	uc003emx.2	-	6	2031	c.1931G>A	c.(1930-1932)CGC>CAC	p.R644H		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	644	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						AGCCACAGTGCGGATGTTGTT	0.637													6	120	---	---	---	---	PASS	T	129303326	T	T	129303326	3	4	90	1	0	0	0	0	1	0	0	0	12127	768	27	1	3970	1	PLXND1	3	129303326	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	10149710	129303326	68719104	80	33750										
KY	339855	broad.mit.edu	37	chr3	134322712	134322712	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aagctctcagggaacatgggCcagttcaccttggtgttggc	13	10	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:134322712C>T	uc010hty.2	-	11	1757	c.1695G>A	c.(1693-1695)TGG>TGA	p.W565*	KY_uc011blw.1_3'UTR|KY_uc011blx.1_Nonsense_Mutation_p.W544*	NM_178554	NP_848649	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase	Error:Variant_position_missing_in_Q8NBH2_after_alignment						cytoskeleton|Z disc	peptidase activity			ovary(2)	2						GGAACATGGGCCAGTTCACCT	0.493													4	73	---	---	---	---	PASS	T	134322712	T	T	134322712	4	4	90	1	0	0	0	0	0	1	0	0	8586	740	26	3	294	3	KY	3	134322712	Nonsense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	5019386	134322712	63699718	81	33751										
CHST2	9435	broad.mit.edu	37	chr3	142841021	142841021	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gccccgaaatggagcagtttGccctgaacatgaccagtggc	12	12	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:142841021G>T	uc003evm.2	+	2	2252	c.1363G>T	c.(1363-1365)GCC>TCC	p.A455S		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	455	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						GGAGCAGTTTGCCCTGAACAT	0.612													7	61	---	---	---	---	PASS	T	142841021	T	T	142841021	3	4	90	1	0	0	0	0	1	0	0	0	3404	1319	46	3	1365	3	CHST2	3	142841021	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	8518309	142841021	55181409	82	33752										
IQCJ	654502	broad.mit.edu	37	chr3	158983100	158983100	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtggaaggaaggtgattcttCtctaccttgaccagcttgcc	11	10	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:158983100C>G	uc003fcp.1	+	5	493	c.388C>G	c.(388-390)CTC>GTC	p.L130V	SCHIP1_uc003fcq.1_Intron|SCHIP1_uc003fcr.1_Intron|IQCJ_uc010hvy.1_Missense_Mutation_p.L103V	NM_001042705	NP_001036170	Q1A5X6	IQCJ_HUMAN	IQ motif containing J isoform CaMBPv1	130											0			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			GGTGATTCTTCTCTACCTTGA	0.512													17	205	---	---	---	---	PASS	G	158983100	G	G	158983100	3	3	90	1	0	0	0	0	1	0	0	0	7812	913	32	2	454	2	IQCJ	3	158983100	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	16142079	158983100	39039330	83	33753										
EIF2B5	8893	broad.mit.edu	37	chr3	183858308	183858308	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tctgtgctgacgtcatccgcCgatgggtctaccctctcacc	9	16	4	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:183858308C>T	uc003fmp.2	+	7	1310	c.946C>T	c.(946-948)CGA>TGA	p.R316*	EIF2B5_uc003fmq.2_Nonsense_Mutation_p.R37*|EIF2B5_uc003fmr.2_5'Flank	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	316					astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			CGTCATCCGCCGATGGGTCTA	0.567													11	272	---	---	---	---	PASS	T	183858308	T	T	183858308	4	4	90	1	0	0	0	0	0	1	0	0	5004	644	23	1	972	1	EIF2B5	3	183858308	Nonsense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	24875208	183858308	14164122	84	33754										
AHSG	197	broad.mit.edu	37	chr3	186338694	186338694	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agtggttcctccatgtccggGgaggatcagacacttcaagg	13	10	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:186338694G>A	uc003fqk.3	+	7	1160	c.1079G>A	c.(1078-1080)GGG>GAG	p.G360E	AHSG_uc003fql.3_Missense_Mutation_p.G361E|AHSG_uc003fqm.3_Missense_Mutation_p.G359E|AHSG_uc010hyp.2_Missense_Mutation_p.G323E	NM_001622	NP_001613	P02765	FETUA_HUMAN	alpha-2-HS-glycoprotein	360					acute-phase response|negative regulation of bone mineralization|negative regulation of insulin receptor signaling pathway|pinocytosis|positive regulation of phagocytosis|regulation of inflammatory response|skeletal system development	extracellular space	cysteine-type endopeptidase inhibitor activity|protein binding				0	all_cancers(143;3.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.27e-20)	GBM - Glioblastoma multiforme(93;0.0463)		CCATGTCCGGGGAGGATCAGA	0.572													5	82	---	---	---	---	PASS	A	186338694	A	A	186338694	3	1	90	1	0	0	0	0	1	0	0	0	420	1232	43	3	1105	3	AHSG	3	186338694	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	2480386	186338694	11683736	85	33755										
CPN2	1370	broad.mit.edu	37	chr3	194062396	194062396	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cagcgccgtaaggttgttgcTgcccaggtagagtttgacca	13	10	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:194062396T>C	uc003fts.2	-	2	1126	c.1036A>G	c.(1036-1038)AGC>GGC	p.S346G		NM_001080513	NP_001073982	P22792	CPN2_HUMAN	carboxypeptidase N, polypeptide 2	346	LRR 11.				protein stabilization	extracellular region	enzyme regulator activity			ovary(5)	5	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.65e-05)		AGGTTGTTGCTGCCCAGGTAG	0.577													4	105	---	---	---	---	PASS	C	194062396	C	C	194062396	3	2	90	1	0	0	0	0	1	0	0	0	3810	1580	55	5	605	5	CPN2	3	194062396	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	7723702	194062396	3960034	86	33756										
FAM43A	131583	broad.mit.edu	37	chr3	194407900	194407900	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atgaagctgacggtgagtgcGcagggtatccgcatggtgca	16	8	0	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr3:194407900G>A	uc003fuj.2	+	1	1279	c.345G>A	c.(343-345)GCG>GCA	p.A115A		NM_153690	NP_710157	Q8N2R8	FA43A_HUMAN	hypothetical protein LOC131583	115										central_nervous_system(1)	1	all_cancers(143;2.04e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.147)	OV - Ovarian serous cystadenocarcinoma(49;8.37e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;1.78e-05)		CGGTGAGTGCGCAGGGTATCC	0.711													7	54	---	---	---	---	PASS	A	194407900	A	A	194407900	2	1	90	1	0	0	0	0	0	0	0	1	5562	1074	38	1		1	FAM43A	3	194407900	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	345504	194407900	3614530	87	33757										
JAKMIP1	152789	broad.mit.edu	37	chr4	6114505	6114505	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggtcagcttggcccgcagctCctcgttggccatctgcaccg	12	16	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:6114505C>G	uc003giu.3	-	2	349	c.73G>C	c.(73-75)GAG>CAG	p.E25Q	JAKMIP1_uc010idb.1_Missense_Mutation_p.E25Q|JAKMIP1_uc010idc.1_Missense_Mutation_p.E25Q|JAKMIP1_uc010idd.1_Missense_Mutation_p.E25Q|JAKMIP1_uc011bwc.1_Missense_Mutation_p.E25Q|JAKMIP1_uc003giv.3_Missense_Mutation_p.E25Q|JAKMIP1_uc010ide.2_Missense_Mutation_p.E25Q	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	25	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GCCCGCAGCTCCTCGTTGGCC	0.602													5	100	---	---	---	---	PASS	G	6114505	G	G	6114505	3	3	90	1	0	0	0	0	1	0	0	0	7940	864	30	2	2577	2	JAKMIP1	4	6114505	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08		6114505	185039771	88	33758										
PI4K2B	55300	broad.mit.edu	37	chr4	25260783	25260783	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtcacaatttgaaagattagTtattttggattacatcatca	6	5	3	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:25260783T>A	uc003grk.2	+	5	1014	c.881T>A	c.(880-882)GTT>GAT	p.V294D	PI4K2B_uc011bxs.1_Missense_Mutation_p.V198D	NM_018323	NP_060793	Q8TCG2	P4K2B_HUMAN	phosphatidylinositol 4-kinase type 2 beta	294	PI3K/PI4K.					cytoplasm|membrane	1-phosphatidylinositol 4-kinase activity|ATP binding			ovary(2)|skin(2)	4		Breast(46;0.173)				GAAAGATTAGTTATTTTGGAT	0.318													13	121	---	---	---	---	PASS	A	25260783	A	A	25260783	3	1	90	1	0	0	0	0	1	0	0	0	11872	1725	60	5	899	5	PI4K2B	4	25260783	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	19146278	25260783	165893493	89	33759										
CORIN	10699	broad.mit.edu	37	chr4	47605540	47605540	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gatgtcttcactcagctcaaCgatgctgatgtcatagtcca	8	11	5	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:47605540C>T	uc003gxm.2	-	20	2779	c.2686G>A	c.(2686-2688)GTT>ATT	p.V896I	CORIN_uc011bzf.1_Missense_Mutation_p.V757I|CORIN_uc011bzg.1_Missense_Mutation_p.V829I	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	896	Extracellular (Potential).|Peptidase S1.				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						CTCAGCTCAACGATGCTGATG	0.537													6	92	---	---	---	---	PASS	T	47605540	T	T	47605540	3	4	90	1	0	0	0	0	1	0	0	0	3752	536	19	1	454	1	CORIN	4	47605540	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	22344757	47605540	143548736	90	33760										
CEP135	9662	broad.mit.edu	37	chr4	56831849	56831849	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctaataaagacctggagaagCgtatacgagagcttatggaa	11	6	0	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:56831849C>T	uc003hbi.2	+	8	1102	c.868C>T	c.(868-870)CGT>TGT	p.R290C	CEP135_uc003hbj.2_5'UTR|CEP135_uc010igz.1_Missense_Mutation_p.R120C	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	290	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					CCTGGAGAAGCGTATACGAGA	0.333													8	45	---	---	---	---	PASS	T	56831849	T	T	56831849	3	4	90	1	0	0	0	0	1	0	0	0	3247	768	27	1	894	1	CEP135	4	56831849	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	9226309	56831849	134322427	91	33761										
AASDH	132949	broad.mit.edu	37	chr4	57215996	57215996	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tttcctttttgtggcacaacTcttcctgaatgtcacatctt	5	11	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:57215996T>C	uc003hbn.2	-	11	2074	c.1921A>G	c.(1921-1923)AGT>GGT	p.S641G	AASDH_uc010ihb.2_Missense_Mutation_p.S156G|AASDH_uc011caa.1_Missense_Mutation_p.S488G|AASDH_uc003hbo.2_Missense_Mutation_p.S541G|AASDH_uc011cab.1_Missense_Mutation_p.S156G|AASDH_uc010ihc.2_Missense_Mutation_p.S641G|AASDH_uc003hbp.2_Missense_Mutation_p.S641G	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	641					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding	p.S641I(1)		ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				GTGGCACAACTCTTCCTGAAT	0.403													5	261	---	---	---	---	PASS	C	57215996	C	C	57215996	3	2	90	1	0	0	0	0	1	0	0	0	22	1551	54	5	1395	5	AASDH	4	57215996	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	384147	57215996	133938280	92	33762										
LPHN3	23284	broad.mit.edu	37	chr4	62849149	62849149	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tacatttcttcttcttggctGccttcacctggatgttcctg	7	12	4	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:62849149G>T	uc010ihh.2	+	16	3033	c.2860G>T	c.(2860-2862)GCC>TCC	p.A954S	LPHN3_uc003hcq.3_Missense_Mutation_p.A954S|LPHN3_uc003hct.2_Missense_Mutation_p.A347S	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	941	Helical; Name=3; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						CTTCTTGGCTGCCTTCACCTG	0.443													17	74	---	---	---	---	PASS	T	62849149	T	T	62849149	3	4	90	1	0	0	0	0	1	0	0	0	8917	1319	46	3	2922	3	LPHN3	4	62849149	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	5633153	62849149	128305127	93	33763										
CXCL6	6372	broad.mit.edu	37	chr4	74702938	74702938	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agagcctccctgaagaacggGaagcaagtttgtctggaccc	12	11	1	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:74702938G>A	uc003hhf.2	+	3	456	c.261G>A	c.(259-261)GGG>GGA	p.G87G	IL8_uc011cbh.1_Intron	NM_002993	NP_002984	P80162	CXCL6_HUMAN	chemokine (C-X-C motif) ligand 6 (granulocyte	87					cell-cell signaling|chemotaxis|immune response|inflammatory response|signal transduction	extracellular space	chemokine activity|heparin binding				0	Breast(15;0.00102)		all cancers(17;0.00176)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)			TGAAGAACGGGAAGCAAGTTT	0.463													4	105	---	---	---	---	PASS	A	74702938	A	A	74702938	2	1	90	1	0	0	0	0	0	0	0	1	4088	1161	41	2		2	CXCL6	4	74702938	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	11853789	74702938	116451338	94	33764										
MTTP	4547	broad.mit.edu	37	chr4	100530115	100530115	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccattgttcaagacatcctaCgttttgaaatgcctgcaagg	8	10	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:100530115C>T	uc003hvc.3	+	13	2006	c.1750C>T	c.(1750-1752)CGT>TGT	p.R584C	MTTP_uc011cej.1_Missense_Mutation_p.R611C	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	584	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	AGACATCCTACGTTTTGAAAT	0.408													7	146	---	---	---	---	PASS	T	100530115	T	T	100530115	3	4	90	1	0	0	0	0	1	0	0	0	9964	536	19	1	1796	1	MTTP	4	100530115	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	25827177	100530115	90624161	95	33765										
SGMS2	166929	broad.mit.edu	37	chr4	108816946	108816946	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccactagagtggtggaaaacGggcattgccttcatatatgc	11	9	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:108816946G>A	uc003hyl.3	+	3	792	c.237G>A	c.(235-237)ACG>ACA	p.T79T	uc003hym.1_Intron|SGMS2_uc003hyn.2_Silent_p.T79T|SGMS2_uc003hyo.2_Silent_p.T79T	NM_001136258	NP_001129730	Q8NHU3	SMS2_HUMAN	sphingomyelin synthase 2	79					sphingomyelin biosynthetic process	integral to Golgi membrane|integral to plasma membrane	ceramide cholinephosphotransferase activity|kinase activity|sphingomyelin synthase activity			lung(1)	1				OV - Ovarian serous cystadenocarcinoma(123;2.95e-05)	Choline(DB00122)	GGTGGAAAACGGGCATTGCCT	0.483													7	105	---	---	---	---	PASS	A	108816946	A	A	108816946	2	1	90	1	0	0	0	0	0	0	0	1	14215	1103	39	1		1	SGMS2	4	108816946	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	8286831	108816946	82337330	96	33766										
ANK2	287	broad.mit.edu	37	chr4	114275200	114275200	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccacaggccacatccagctgCgtcaccctctctgaagtcag	8	17	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:114275200C>T	uc003ibe.3	+	38	5526	c.5426C>T	c.(5425-5427)GCG>GTG	p.A1809V	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_5'Flank|ANK2_uc011cgb.1_Missense_Mutation_p.A1824V	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1776	Repeat A.|Repeat-rich region.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CATCCAGCTGCGTCACCCTCT	0.522													9	138	---	---	---	---	PASS	T	114275200	T	T	114275200	3	4	90	1	0	0	0	0	1	0	0	0	621	768	27	1	5641	1	ANK2	4	114275200	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	5458254	114275200	76879076	97	33767										
FAT4	79633	broad.mit.edu	37	chr4	126328171	126328171	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	caaatattcactgctagttcGtgctgatgatggtcttcagt	9	8	3	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:126328171G>T	uc003ifj.3	+	3	5444	c.5444G>T	c.(5443-5445)CGT>CTT	p.R1815L	FAT4_uc011cgp.1_Missense_Mutation_p.R113L	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1815	Cadherin 17.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTGCTAGTTCGTGCTGATGAT	0.468													23	211	---	---	---	---	PASS	T	126328171	T	T	126328171	3	4	90	1	0	0	0	0	1	0	0	0	5692	1145	40	1	5454	1	FAT4	4	126328171	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	12052971	126328171	64826105	98	33768										
FAT4	79633	broad.mit.edu	37	chr4	126373015	126373015	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tgacaatccttcacagtctcGgacggtggagatatttgtta	10	8	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:126373015G>T	uc003ifj.3	+	9	10844	c.10844G>T	c.(10843-10845)CGG>CTG	p.R3615L	FAT4_uc011cgp.1_Missense_Mutation_p.R1913L|FAT4_uc003ifi.1_Missense_Mutation_p.R1093L	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3615	Cadherin 34.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TCACAGTCTCGGACGGTGGAG	0.438													6	172	---	---	---	---	PASS	T	126373015	T	T	126373015	3	4	90	1	0	0	0	0	1	0	0	0	5692	1116	39	1	10878	1	FAT4	4	126373015	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	44844	126373015	64781261	99	33769										
MFSD8	256471	broad.mit.edu	37	chr4	128851936	128851936	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aacacagcttgttcttgagtCcaggcatacatatccattgt	7	10	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:128851936C>T	uc003ifp.2	-	10	1063	c.900G>A	c.(898-900)TGG>TGA	p.W300*	MFSD8_uc011cgu.1_Nonsense_Mutation_p.W255*|MFSD8_uc011cgv.1_Nonsense_Mutation_p.W262*|MFSD8_uc011cgw.1_RNA|MFSD8_uc011cgx.1_3'UTR	NM_152778	NP_689991	Q8NHS3	MFSD8_HUMAN	major facilitator superfamily domain containing	300	Extracellular (Potential).				cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2						GTTCTTGAGTCCAGGCATACA	0.308													10	174	---	---	---	---	PASS	T	128851936	T	T	128851936	4	4	90	1	0	0	0	0	0	1	0	0	9538	856	30	2	672	2	MFSD8	4	128851936	Nonsense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	2478921	128851936	62302340	100	33770										
PALLD	23022	broad.mit.edu	37	chr4	169606677	169606677	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctctgccgacctgatggaacCactactgcctactttcctcc	6	17	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:169606677C>T	uc011cjx.1	+	6	1513	c.1302C>T	c.(1300-1302)ACC>ACT	p.T434T	PALLD_uc003iru.2_Silent_p.T434T|PALLD_uc003irv.2_Silent_p.T52T	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2	434					cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)		CTGATGGAACCACTACTGCCT	0.393									Pancreatic_Cancer_Familial_Clustering_of				6	184	---	---	---	---	PASS	T	169606677	T	T	169606677	2	4	90	1	0	0	0	0	0	0	0	1	11407	581	21	3		3	PALLD	4	169606677	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	40754741	169606677	21547599	101	33771										
LRP2BP	55805	broad.mit.edu	37	chr4	186291928	186291928	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gagacagtctgtgacctgggCgatcatggggatgtcgtgaa	16	7	2	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:186291928C>T	uc003ixj.1	-	7	1656	c.844G>A	c.(844-846)GCC>ACC	p.A282T	LRP2BP_uc003ixk.1_Missense_Mutation_p.A256T|LRP2BP_uc011ckr.1_Missense_Mutation_p.A282T	NM_018409	NP_060879	Q9P2M1	LR2BP_HUMAN	LRP2 binding protein	282						cytoplasm	protein binding				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;2.14e-25)|Epithelial(43;1.55e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-11)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000766)|Colorectal(24;0.00116)|LUSC - Lung squamous cell carcinoma(40;0.00904)|COAD - Colon adenocarcinoma(29;0.0101)|READ - Rectum adenocarcinoma(43;0.161)		GTGACCTGGGCGATCATGGGG	0.498													8	131	---	---	---	---	PASS	T	186291928	T	T	186291928	3	4	90	1	0	0	0	0	1	0	0	0	8957	768	27	1	207	1	LRP2BP	4	186291928	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	16685251	186291928	4862348	102	33772										
CYP4V2	285440	broad.mit.edu	37	chr4	187120144	187120144	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atatttcgaagaataaagatGccctggctttggcttgatct	9	7	1	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr4:187120144G>A	uc003iyw.3	+	6	1012	c.708G>A	c.(706-708)ATG>ATA	p.M236I		NM_207352	NP_997235	Q6ZWL3	CP4V2_HUMAN	cytochrome P450, family 4, subfamily v,	236					response to stimulus|visual perception	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.33e-10)|BRCA - Breast invasive adenocarcinoma(30;3.84e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000293)|LUSC - Lung squamous cell carcinoma(40;0.00242)|READ - Rectum adenocarcinoma(43;0.17)		GAATAAAGATGCCCTGGCTTT	0.363													28	129	---	---	---	---	PASS	A	187120144	A	A	187120144	3	1	90	1	0	0	0	0	1	0	0	0	4192	1319	46	3	730	3	CYP4V2	4	187120144	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	828216	187120144	4034132	103	33773										
DNAH5	1767	broad.mit.edu	37	chr5	13845026	13845026	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agtgtgggagtccgacgcctGccccagaatctctagaaggg	14	11	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:13845026G>A	uc003jfd.2	-	32	5233	c.5191C>T	c.(5191-5193)CAG>TAG	p.Q1731*		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1731	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TCCGACGCCTGCCCCAGAATC	0.448									Kartagener_syndrome				34	153	---	---	---	---	PASS	A	13845026	A	A	13845026	4	1	90	1	0	0	0	0	0	1	0	0	4604	1328	46	3	8875	3	DNAH5	5	13845026	Nonsense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08		13845026	167070234	104	33774										
WDR70	55100	broad.mit.edu	37	chr5	37392194	37392194	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	catcctcaagatcaaatgtgGtcagagattgctccaaatca	7	10	4	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:37392194G>A	uc003jkv.2	+	4	326	c.268G>A	c.(268-270)GTC>ATC	p.V90I	WDR70_uc010iva.1_Missense_Mutation_p.V90I	NM_018034	NP_060504	Q9NW82	WDR70_HUMAN	WD repeat domain 70	90	Ser-rich.									ovary(1)|central_nervous_system(1)	2	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ATCAAATGTGGTCAGAGATTG	0.328													17	190	---	---	---	---	PASS	A	37392194	A	A	37392194	3	1	90	1	0	0	0	0	1	0	0	0	17318	1261	44	3	282	3	WDR70	5	37392194	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	23547168	37392194	143523066	105	33775										
EGFLAM	133584	broad.mit.edu	37	chr5	38352359	38352359	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	attgtggtttcggattctgaGgtggccctgtcttggaaacc	13	8	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:38352359G>T	uc003jlc.1	+	5	795	c.471G>T	c.(469-471)GAG>GAT	p.E157D	EGFLAM_uc003jlb.1_Missense_Mutation_p.E157D	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	157	Fibronectin type-III 2.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					CGGATTCTGAGGTGGCCCTGT	0.507													7	255	---	---	---	---	PASS	T	38352359	T	T	38352359	3	4	90	1	0	0	0	0	1	0	0	0	4966	991	35	3	489	3	EGFLAM	5	38352359	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	960165	38352359	142562901	106	33776										
RICTOR	253260	broad.mit.edu	37	chr5	38944564	38944564	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcacgttaaaagcccagtctCatgacatttagttgaaactg	7	9	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:38944564C>G	uc003jlp.2	-	36	4921	c.4897G>C	c.(4897-4899)GAG>CAG	p.E1633Q	RICTOR_uc003jlo.2_Missense_Mutation_p.E1657Q|RICTOR_uc010ivf.2_Missense_Mutation_p.E1310Q	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	1633					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					AGCCCAGTCTCATGACATTTA	0.323													5	238	---	---	---	---	PASS	G	38944564	G	G	38944564	3	3	90	1	0	0	0	0	1	0	0	0	13358	835	29	2	241	2	RICTOR	5	38944564	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	592205	38944564	141970696	107	33777										
FBXO4	26272	broad.mit.edu	37	chr5	41927220	41927220	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctgtaagagatccaattctgTggagatactttttgttgagg	11	5	1	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:41927220T>C	uc003jmq.2	+	2	351	c.295T>C	c.(295-297)TGG>CGG	p.W99R	FBXO4_uc003jmp.2_Missense_Mutation_p.W99R|FBXO4_uc003jmr.2_Missense_Mutation_p.W99R	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	99	F-box.				positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)				TCCAATTCTGTGGAGATACTT	0.373													15	263	---	---	---	---	PASS	C	41927220	C	C	41927220	3	2	90	1	0	0	0	0	1	0	0	0	5748	1696	59	5	301	5	FBXO4	5	41927220	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	2982656	41927220	138988040	108	33778										
GZMA	3001	broad.mit.edu	37	chr5	54404118	54404118	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aagtcaatatcaccatcataGacagaaaagtctgcaatgat	6	8	4	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:54404118G>T	uc003jpm.2	+	4	560	c.523G>T	c.(523-525)GAC>TAC	p.D175Y		NM_006144	NP_006135	P12544	GRAA_HUMAN	granzyme A precursor	175	Peptidase S1.				cleavage of lamin|cytolysis|immune response|negative regulation of DNA binding|negative regulation of endodeoxyribonuclease activity|negative regulation of oxidoreductase activity|positive regulation of apoptosis	extracellular region|immunological synapse|nucleus	protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				CACCATCATAGACAGAAAAGT	0.453													5	48	---	---	---	---	PASS	T	54404118	T	T	54404118	3	4	90	1	0	0	0	0	1	0	0	0	6915	942	33	2	537	2	GZMA	5	54404118	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	12476898	54404118	126511142	109	33779										
TMEM161B	153396	broad.mit.edu	37	chr5	87502852	87502852	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tatgaaactattacctgtttCaagtccaaattccagataat	4	8	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:87502852C>G	uc003kjc.2	-	6	717	c.592G>C	c.(592-594)GAA>CAA	p.E198Q	TMEM161B_uc011cty.1_Missense_Mutation_p.E187Q|TMEM161B_uc010jax.2_RNA|TMEM161B_uc011ctz.1_Missense_Mutation_p.E65Q|TMEM161B_uc011ctx.1_Missense_Mutation_p.E16Q	NM_153354	NP_699185	Q8NDZ6	T161B_HUMAN	transmembrane protein 161B	198						integral to membrane				skin(2)	2		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)		TTACCTGTTTCAAGTCCAAAT	0.289													3	39	---	---	---	---	PASS	G	87502852	G	G	87502852	3	3	90	1	0	0	0	0	1	0	0	0	16074	835	29	2	899	2	TMEM161B	5	87502852	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	33098734	87502852	93412408	110	33780										
APC	324	broad.mit.edu	37	chr5	112175432	112175432	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aacactatgttcaggagaccCcactcatgtttagcagatgt	8	10	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:112175432C>T	uc010jby.2	+	16	4521	c.4141C>T	c.(4141-4143)CCA>TCA	p.P1381S	APC_uc011cvt.1_Missense_Mutation_p.P1363S|APC_uc003kpz.3_Missense_Mutation_p.P1381S|APC_uc003kpy.3_Missense_Mutation_p.P1381S|APC_uc010jbz.2_Missense_Mutation_p.P1098S|APC_uc010jca.2_Missense_Mutation_p.P681S	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1381	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.P1381fs*4(1)|p.Y1376fs*41(1)|p.K1192fs*3(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TCAGGAGACCCCACTCATGTT	0.468		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			7	97	---	---	---	---	PASS	T	112175432	T	T	112175432	3	4	90	1	0	0	0	0	1	0	0	0	763	623	22	3	4199	3	APC	5	112175432	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	24672580	112175432	68739828	111	33781										
ETF1	2107	broad.mit.edu	37	chr5	137878559	137878559	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gctcttaatgagcttcttgaTcttccagatctccacgttcc	6	13	4	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:137878559T>C	uc003ldc.3	-	2	214	c.49A>G	c.(49-51)ATC>GTC	p.I17V	ETF1_uc011cyv.1_5'Flank|ETF1_uc010jex.2_RNA|ETF1_uc003ldd.3_5'UTR	NM_004730	NP_004721	P62495	ERF1_HUMAN	eukaryotic translation termination factor 1	17					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation|regulation of translational termination	cytoplasm	protein binding|ribosome binding|translation release factor activity, codon specific			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AGCTTCTTGATCTTCCAGATC	0.677													5	42	---	---	---	---	PASS	C	137878559	C	C	137878559	3	2	90	1	0	0	0	0	1	0	0	0	5268	1435	50	5	1304	5	ETF1	5	137878559	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	25703127	137878559	43036701	112	33782										
CTNNA1	1495	broad.mit.edu	37	chr5	138268318	138268318	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tggcctacctgcaacgcatcGccctctactgccaccagctg	8	18	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:138268318G>A	uc003ldh.2	+	17	2445	c.2350G>A	c.(2350-2352)GCC>ACC	p.A784T	CTNNA1_uc011cyx.1_Missense_Mutation_p.A681T|CTNNA1_uc011cyy.1_Missense_Mutation_p.A661T|CTNNA1_uc003ldi.2_Missense_Mutation_p.A482T|CTNNA1_uc003ldj.2_Missense_Mutation_p.A784T|CTNNA1_uc003ldl.2_Missense_Mutation_p.A414T	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	784					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GCAACGCATCGCCCTCTACTG	0.587													9	45	---	---	---	---	PASS	A	138268318	A	A	138268318	3	1	90	1	0	0	0	0	1	0	0	0	4012	1087	38	1	2412	1	CTNNA1	5	138268318	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	389759	138268318	42646942	113	33783										
PCDHB2	56133	broad.mit.edu	37	chr5	140475054	140475054	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gagtccacccaggtccggcaCggccctggtacggattgaag	14	13	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:140475054C>T	uc003lil.2	+	1	818	c.680C>T	c.(679-681)ACG>ATG	p.T227M	PCDHB2_uc003lim.1_Translation_Start_Site	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	227	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGTCCGGCACGGCCCTGGTA	0.592													9	48	---	---	---	---	PASS	T	140475054	T	T	140475054	3	4	90	1	0	0	0	0	1	0	0	0	11542	536	19	1	682	1	PCDHB2	5	140475054	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	2206736	140475054	40440206	114	33784										
FCHSD1	89848	broad.mit.edu	37	chr5	141029088	141029088	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agcaggcagcgccaggcaccGaacactgtcctgcccctccc	10	19	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:141029088G>A	uc003llk.2	-	5	300	c.249C>T	c.(247-249)TTC>TTT	p.F83F	FCHSD1_uc010jgg.2_5'Flank|FCHSD1_uc003llj.2_RNA	NM_033449	NP_258260	Q86WN1	FCSD1_HUMAN	FCH and double SH3 domains 1	83									FCHSD1/BRAF(2)	skin(2)|ovary(1)|central_nervous_system(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCAGGCACCGAACACTGTCC	0.657													10	60	---	---	---	---	PASS	A	141029088	A	A	141029088	2	1	90	1	0	0	0	0	0	0	0	1	5789	1049	37	2		2	FCHSD1	5	141029088	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	554034	141029088	39886172	115	33785										
MED7	9443	broad.mit.edu	37	chr5	156565862	156565862	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tctgtccagtacaattgttgCtatcatcagcatccattggt	7	10	3	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:156565862C>A	uc010jik.2	-	2	973	c.581G>T	c.(580-582)AGC>ATC	p.S194I	MED7_uc003lwm.3_Missense_Mutation_p.S194I	NM_001100816	NP_001094286	O43513	MED7_HUMAN	mediator complex subunit 7	194					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	protein binding|transcription coactivator activity				0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ACAATTGTTGCTATCATCAGC	0.378													16	147	---	---	---	---	PASS	A	156565862	A	A	156565862	3	1	90	1	0	0	0	0	1	0	0	0	9452	797	28	3	124	3	MED7	5	156565862	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	15536774	156565862	24349398	116	33786										
WWC1	23286	broad.mit.edu	37	chr5	167858385	167858385	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atccatgtcctatccagcccTtcaccagaagaccttaagag	6	14	1	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr5:167858385T>G	uc003lzu.2	+	15	2309	c.2216T>G	c.(2215-2217)CTT>CGT	p.L739R	WWC1_uc003lzv.2_Missense_Mutation_p.L739R|WWC1_uc011den.1_Missense_Mutation_p.L739R|WWC1_uc003lzw.2_Missense_Mutation_p.L538R|WWC1_uc010jjf.1_Missense_Mutation_p.L6R	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	739	C2.				cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		TATCCAGCCCTTCACCAGAAG	0.488													6	73	---	---	---	---	PASS	G	167858385	G	G	167858385	3	3	90	1	0	0	0	0	1	0	0	0	17408	1609	56	5	2274	5	WWC1	5	167858385	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	11292523	167858385	13056875	117	33787										
DSP	1832	broad.mit.edu	37	chr6	7585249	7585249	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cgatgatgtttttagcagctCccgacatgaatcagtaagta	9	8	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:7585249C>G	uc003mxp.1	+	24	8033	c.7754C>G	c.(7753-7755)TCC>TGC	p.S2585C	DSP_uc003mxq.1_Missense_Mutation_p.S1986C	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2585	Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TTTAGCAGCTCCCGACATGAA	0.483													13	117	---	---	---	---	PASS	G	7585249	G	G	7585249	3	3	90	1	0	0	0	0	1	0	0	0	4781	855	30	2	7848	2	DSP	6	7585249	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08		7585249	163529818	118	33788										
SLC44A4	80736	broad.mit.edu	37	chr6	31833154	31833154	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gagacacagaaattcttcccGtagatggcgatctgagggag	13	8	2	4	rs145759335		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:31833154G>A	uc010jti.2	-	17	1764	c.1698C>T	c.(1696-1698)TAC>TAT	p.Y566Y	NEU1_uc003nxq.3_5'Flank|NEU1_uc010jtg.2_5'Flank|NEU1_uc003nxr.3_5'Flank|NEU1_uc010jth.2_5'Flank|NEU1_uc003nxs.3_5'Flank	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	566	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	AATTCTTCCCGTAGATGGCGA	0.552													13	180	---	---	---	---	PASS	A	31833154	A	A	31833154	2	1	90	1	0	0	0	0	0	0	0	1	14638	1140	40	1		1	SLC44A4	6	31833154	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	24247905	31833154	139281913	119	33789										
BRPF3	27154	broad.mit.edu	37	chr6	36178207	36178207	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggccatcctacggcacgcccGgcggcaggcagagaacatcg	14	15	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:36178207G>A	uc003olv.3	+	6	2305	c.2081G>A	c.(2080-2082)CGG>CAG	p.R694Q	BRPF3_uc010jwb.2_Missense_Mutation_p.R694Q|BRPF3_uc011dtj.1_RNA|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Missense_Mutation_p.R694Q	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	694					histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						CGGCACGCCCGGCGGCAGGCA	0.532													5	115	---	---	---	---	PASS	A	36178207	A	A	36178207	3	1	90	1	0	0	0	0	1	0	0	0	1521	1116	39	1	2099	1	BRPF3	6	36178207	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	4345053	36178207	134936860	120	33790										
MTCH1	23787	broad.mit.edu	37	chr6	36945884	36945884	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	actttcttcagggaagtcttCatatcatccttgttggaaac	7	9	5	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:36945884C>T	uc003ond.1	-	4	561	c.561G>A	c.(559-561)ATG>ATA	p.M187I	MTCH1_uc003onc.1_Missense_Mutation_p.M187I|MTCH1_uc010jwo.1_RNA|MTCH1_uc003one.3_Missense_Mutation_p.M187I|MTCH1_uc011dtt.1_Missense_Mutation_p.M19I	NM_014341	NP_055156	Q9NZJ7	MTCH1_HUMAN	mitochondrial carrier homolog 1	187					activation of caspase activity|neuronal ion channel clustering|positive regulation of apoptosis|regulation of signal transduction|transport	integral to membrane|mitochondrial inner membrane	protein binding				0						GGGAAGTCTTCATATCATCCT	0.498													5	107	---	---	---	---	PASS	T	36945884	T	T	36945884	3	4	90	1	0	0	0	0	1	0	0	0	9913	826	29	2	593	2	MTCH1	6	36945884	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	767677	36945884	134169183	121	33791										
RNF8	9025	broad.mit.edu	37	chr6	37344705	37344705	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gattgtgtgtcttgcaggaaGagaaggagaagatgcaagca	15	4	1	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:37344705G>T	uc003onq.3	+	6	1325	c.1132G>T	c.(1132-1134)GAG>TAG	p.E378*	RNF8_uc003onr.3_Nonsense_Mutation_p.E378*|RNF8_uc011dtx.1_Nonsense_Mutation_p.E310*	NM_003958	NP_003949	O76064	RNF8_HUMAN	ring finger protein 8 isoform 1	378					cell division|double-strand break repair|histone H2A ubiquitination|histone H2B ubiquitination|mitosis|positive regulation of DNA repair|response to ionizing radiation	midbody|nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1						CTTGCAGGAAGAGAAGGAGAA	0.403													4	67	---	---	---	---	PASS	T	37344705	T	T	37344705	4	4	90	1	0	0	0	0	0	1	0	0	13500	943	33	2	1154	2	RNF8	6	37344705	Nonsense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	398821	37344705	133770362	122	33792										
TSPO2	222642	broad.mit.edu	37	chr6	41011317	41011317	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tatgcctcctacctggtgtgGaaggacctgggagggggctt	16	9	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:41011317G>T	uc003opj.2	+	3	496	c.195G>T	c.(193-195)TGG>TGT	p.W65C	UNC5CL_uc010jxe.1_Intron|TSPO2_uc003opk.2_Intron|TSPO2_uc011dub.1_Missense_Mutation_p.W65C	NM_001010873	NP_001010873	Q5TGU0	TSPO2_HUMAN	benzodiazapine receptor (peripheral)-like 1	65	Helical; (Potential).				transport	endoplasmic reticulum membrane|integral to membrane	cholesterol binding|receptor activity				0						ACCTGGTGTGGAAGGACCTGG	0.572													10	170	---	---	---	---	PASS	T	41011317	T	T	41011317	3	4	90	1	0	0	0	0	1	0	0	0	16653	1183	41	2	201	2	TSPO2	6	41011317	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	3666612	41011317	130103750	123	33793										
CUL9	23113	broad.mit.edu	37	chr6	43190375	43190375	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccagggactggagcaggctcGgaaggtggtagcgggtgggg	22	7	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:43190375G>A	uc003ouk.2	+	37	7103	c.7028G>A	c.(7027-7029)CGG>CAG	p.R2343Q	CUL9_uc003oul.2_Missense_Mutation_p.R2315Q|CUL9_uc010jyk.2_Missense_Mutation_p.R1495Q|CUL9_uc003oun.2_Missense_Mutation_p.R138Q	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	2343					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GAGCAGGCTCGGAAGGTGGTA	0.617													8	32	---	---	---	---	PASS	A	43190375	A	A	43190375	3	1	90	1	0	0	0	0	1	0	0	0	4061	1116	39	1	7170	1	CUL9	6	43190375	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	2179058	43190375	127924692	124	33794										
GSTA5	221357	broad.mit.edu	37	chr6	52699019	52699019	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atctctttcctctggttgacAtatgagcagaagaaggatca	9	8	3	4			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:52699019A>G	uc003pba.1	-	5	404	c.334T>C	c.(334-336)TGT>CGT	p.C112R		NM_153699	NP_714543	Q7RTV2	GSTA5_HUMAN	glutathione S-transferase alpha 5	112	GST C-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.0912)				Glutathione(DB00143)	TCTGGTTGACATATGAGCAGA	0.378													6	239	---	---	---	---	PASS	G	52699019	G	G	52699019	3	3	90	1	0	0	0	0	1	0	0	0	6834	217	8	5	346	5	GSTA5	6	52699019	Missense_Mutation	SNP	A	TCGA-39-5030-01A-01D-1441-08	9508644	52699019	118416048	125	33795										
KIAA1586	57691	broad.mit.edu	37	chr6	56918751	56918751	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agtaatgggaccaagatgggCggcatgtagtttacaagctg	14	6	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:56918751C>T	uc003pdj.2	+	4	1624	c.1454C>T	c.(1453-1455)GCG>GTG	p.A485V	KIAA1586_uc011dxm.1_Missense_Mutation_p.A458V	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	485							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			CCAAGATGGGCGGCATGTAGT	0.368													9	107	---	---	---	---	PASS	T	56918751	T	T	56918751	3	4	90	1	0	0	0	0	1	0	0	0	8245	768	27	1	1468	1	KIAA1586	6	56918751	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	4219732	56918751	114196316	126	33796										
LGSN	51557	broad.mit.edu	37	chr6	64004921	64004921	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtgttcatgctgttggcttcAgtctcattgccttcatctct	8	11	5	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:64004921A>G	uc003peh.2	-	2	94	c.60T>C	c.(58-60)ACT>ACC	p.T20T	LGSN_uc003pei.2_Silent_p.T20T|LGSN_uc003pej.1_Silent_p.T20T	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	20					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	TGTTGGCTTCAGTCTCATTGC	0.353													9	149	---	---	---	---	PASS	G	64004921	G	G	64004921	2	3	90	1	0	0	0	0	0	0	0	1	8759	175	7	5		5	LGSN	6	64004921	Silent	SNP	A	TCGA-39-5030-01A-01D-1441-08	7086170	64004921	107110146	127	33797										
SMAP1	60682	broad.mit.edu	37	chr6	71567858	71567858	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttggcccccaaggaggaatgGtgggacaaatgggtgcaccc	15	10	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:71567858G>A	uc003pfr.2	+	10	1443	c.1195G>A	c.(1195-1197)GTG>ATG	p.V399M	SMAP1_uc003pfs.2_Missense_Mutation_p.V372M|SMAP1_uc010kao.2_Missense_Mutation_p.V372M|SMAP1_uc010kap.2_Missense_Mutation_p.V389M	NM_001044305	NP_001037770	Q8IYB5	SMAP1_HUMAN	stromal membrane-associated GTPase-activating	399					regulation of ARF GTPase activity	plasma membrane	ARF GTPase activator activity|zinc ion binding				0						AGGAGGAATGGTGGGACAAAT	0.547													9	83	---	---	---	---	PASS	A	71567858	A	A	71567858	3	1	90	1	0	0	0	0	1	0	0	0	14766	1261	44	3	1233	3	SMAP1	6	71567858	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	7562937	71567858	99547209	128	33798										
SYNCRIP	10492	broad.mit.edu	37	chr6	86329009	86329009	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gacagcaccatctcgctcatCaaaatgaatgaacgcataat	6	11	3	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:86329009C>G	uc003pla.2	-	9	1676	c.1135G>C	c.(1135-1137)GAT>CAT	p.D379H	SYNCRIP_uc003pku.2_Missense_Mutation_p.D379H|SYNCRIP_uc003pkw.2_Missense_Mutation_p.D344H|SYNCRIP_uc003pky.2_Missense_Mutation_p.D281H|SYNCRIP_uc003pkv.2_Missense_Mutation_p.D379H|SYNCRIP_uc003pkx.2_Missense_Mutation_p.D227H|SYNCRIP_uc003pkz.2_Missense_Mutation_p.D344H	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	379	RRM 3.				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		TCTCGCTCATCAAAATGAATG	0.338													18	155	---	---	---	---	PASS	G	86329009	G	G	86329009	3	3	90	1	0	0	0	0	1	0	0	0	15441	826	29	2	794	2	SYNCRIP	6	86329009	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	14761151	86329009	84786058	129	33799										
ASCC3	10973	broad.mit.edu	37	chr6	101296201	101296201	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	acaggcttgagttctggggtGcaagcctcctggagatgttc	14	9	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:101296201G>A	uc003pqk.2	-	4	953	c.624C>T	c.(622-624)TGC>TGT	p.C208C	ASCC3_uc011eai.1_Silent_p.C110C|ASCC3_uc003pql.2_Silent_p.C208C|ASCC3_uc010kcv.2_Silent_p.C208C	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	208					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		GTTCTGGGGTGCAAGCCTCCT	0.393													9	103	---	---	---	---	PASS	A	101296201	A	A	101296201	2	1	90	1	0	0	0	0	0	0	0	1	1033	1311	46	3		3	ASCC3	6	101296201	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	14967192	101296201	69818866	130	33800										
AIM1	202	broad.mit.edu	37	chr6	106987389	106987389	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gaagcgtacattggatccatGcggcctctgaaaatggtaaa	11	8	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:106987389G>A	uc003prh.2	+	7	4093	c.3606G>A	c.(3604-3606)ATG>ATA	p.M1202I	AIM1_uc003pri.2_5'Flank	NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	1202	Beta/gamma crystallin 'Greek key' 4.						sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		TTGGATCCATGCGGCCTCTGA	0.433													9	124	---	---	---	---	PASS	A	106987389	A	A	106987389	3	1	90	1	0	0	0	0	1	0	0	0	430	1319	46	3	3632	3	AIM1	6	106987389	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	5691188	106987389	64127678	131	33801										
PDSS2	57107	broad.mit.edu	37	chr6	107780271	107780271	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atgttgctgagctcgtcgctCagcaggcagcgaaggctcat	13	11	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:107780271C>T	uc003prt.2	-	1	509	c.219G>A	c.(217-219)CTG>CTA	p.L73L	PDSS2_uc011eak.1_Intron|PDSS2_uc011eal.1_Silent_p.L73L|PDSS2_uc003pru.2_Silent_p.L73L|PDSS2_uc003prv.2_Silent_p.L73L	NM_020381	NP_065114	Q86YH6	DLP1_HUMAN	prenyl diphosphate synthase, subunit 2	73					isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	protein heterodimerization activity			ovary(2)	2	Breast(9;0.0127)	all_cancers(87;3.63e-05)|Acute lymphoblastic leukemia(125;2.86e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.0108)|Colorectal(196;0.156)|Lung NSC(302;0.211)	BRCA - Breast invasive adenocarcinoma(8;0.0101)|all cancers(7;0.243)	BRCA - Breast invasive adenocarcinoma(108;0.112)|OV - Ovarian serous cystadenocarcinoma(136;0.173)|all cancers(137;0.191)		GCTCGTCGCTCAGCAGGCAGC	0.622											OREG0017595	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	86	---	---	---	---	PASS	T	107780271	T	T	107780271	2	4	90	1	0	0	0	0	0	0	0	1	11694	813	29	2		2	PDSS2	6	107780271	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	792882	107780271	63334796	132	33802										
GJA1	2697	broad.mit.edu	37	chr6	121768435	121768435	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agcatggtaaggtgaaaatgCgaggggggttgctgcgaacc	17	6	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:121768435C>T	uc003pyr.2	+	2	692	c.442C>T	c.(442-444)CGA>TGA	p.R148*	GJA1_uc011ebo.1_Nonsense_Mutation_p.R49*|GJA1_uc011ebp.1_Intron	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	148	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	GGTGAAAATGCGAGGGGGGTT	0.453													7	114	---	---	---	---	PASS	T	121768435	T	T	121768435	4	4	90	1	0	0	0	0	0	1	0	0	6400	760	27	1	444	1	GJA1	6	121768435	Nonsense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	13988164	121768435	49346632	133	33803										
LAMA2	3908	broad.mit.edu	37	chr6	129591883	129591883	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cctgtgcctgtccactcaatAtcccatccaataagtaagta	5	13	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:129591883A>G	uc003qbn.2	+	17	2542	c.2437A>G	c.(2437-2439)ATC>GTC	p.I813V	LAMA2_uc003qbo.2_Missense_Mutation_p.I813V	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	813	Laminin EGF-like 7.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TCCACTCAATATCCCATCCAA	0.418													5	109	---	---	---	---	PASS	G	129591883	G	G	129591883	3	3	90	1	0	0	0	0	1	0	0	0	8606	449	16	5	2503	5	LAMA2	6	129591883	Missense_Mutation	SNP	A	TCGA-39-5030-01A-01D-1441-08	7823448	129591883	41523184	134	33804										
SLC35D3	340146	broad.mit.edu	37	chr6	137245683	137245683	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gcaagaggtcaggggcagccCccgaggagtcccgctggtgg	18	12	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:137245683C>G	uc003qhe.2	+	2	1265	c.1100C>G	c.(1099-1101)CCC>CGC	p.P367R		NM_001008783	NP_001008783	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	367					carbohydrate transport	integral to membrane				ovary(1)|central_nervous_system(1)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		AGGGGCAGCCCCCGAGGAGTC	0.637													4	47	---	---	---	---	PASS	G	137245683	G	G	137245683	3	3	90	1	0	0	0	0	1	0	0	0	14583	623	22	4	1106	4	SLC35D3	6	137245683	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	7653800	137245683	33869384	135	33805										
TNFAIP3	7128	broad.mit.edu	37	chr6	138196093	138196093	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gctcaaggaaacagacacacGcaactttaaattccgctggc	8	12	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:138196093G>A	uc003qhr.2	+	3	473	c.407G>A	c.(406-408)CGC>CAC	p.R136H	TNFAIP3_uc003qhs.2_Missense_Mutation_p.R136H	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	136	TRAF-binding.|OTU.				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)|p.R136fs*3(1)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		ACAGACACACGCAACTTTAAA	0.488			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								6	109	---	---	---	---	PASS	A	138196093	A	A	138196093	3	1	90	1	0	0	0	0	1	0	0	0	16271	1087	38	1	413	1	TNFAIP3	6	138196093	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	950410	138196093	32918974	136	33806										
LATS1	9113	broad.mit.edu	37	chr6	150004302	150004302	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tctacatgttgctccataaaGaatttaaatgcttgaggaga	8	6	1	3	rs35163691		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:150004302G>A	uc003qmu.1	-	4	2471	c.1923C>T	c.(1921-1923)TTC>TTT	p.F641F	LATS1_uc010kif.1_Silent_p.F536F|LATS1_uc003qmv.1_Silent_p.F641F|LATS1_uc003qmw.2_Silent_p.F641F|LATS1_uc010kig.1_Silent_p.F536F	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	641	Interaction with YAP1.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		GCTCCATAAAGAATTTAAATG	0.338													10	103	---	---	---	---	PASS	A	150004302	A	A	150004302	2	1	90	1	0	0	0	0	0	0	0	1	8646	933	33	2		2	LATS1	6	150004302	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	11808209	150004302	21110765	137	33807										
C6orf97	80129	broad.mit.edu	37	chr6	151869452	151869452	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcttcagcttagagacctgcGcaaagaaaatgaattcgtga	9	8	2	4			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:151869452G>A	uc003qol.2	+	5	691	c.602G>A	c.(601-603)CGC>CAC	p.R201H		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	201	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		AGAGACCTGCGCAAAGAAAAT	0.353													5	47	---	---	---	---	PASS	A	151869452	A	A	151869452	3	1	90	1	0	0	0	0	1	0	0	0	2374	1087	38	1	620	1	C6orf97	6	151869452	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	1865150	151869452	19245615	138	33808										
SYNJ2	8871	broad.mit.edu	37	chr6	158509790	158509790	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cggcaagacttctaccaggaGcacctcagcaacctgtgagt	10	13	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr6:158509790G>A	uc003qqx.1	+	24	3517	c.3442G>A	c.(3442-3444)GCA>ACA	p.A1148T	SYNJ2_uc003qqw.1_Missense_Mutation_p.A1148T|SYNJ2_uc003qqy.1_Missense_Mutation_p.A861T|SYNJ2_uc003qqz.1_Missense_Mutation_p.A765T|SYNJ2_uc003qra.1_Missense_Mutation_p.A491T|SYNJ2_uc010kjp.1_Missense_Mutation_p.A31T	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	1148	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		TCTACCAGGAGCACCTCAGCA	0.478													6	98	---	---	---	---	PASS	A	158509790	A	A	158509790	3	1	90	1	0	0	0	0	1	0	0	0	15450	971	34	3	3536	3	SYNJ2	6	158509790	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	6640338	158509790	12605277	139	33809										
C7orf27	221927	broad.mit.edu	37	chr7	2578022	2578022	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggaggtcacaagacttctgcGccacagggcggtcgcagtca	14	12	3	1	rs140802292	byFrequency	TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:2578022G>A	uc003smi.2	-	14	2189	c.2147C>T	c.(2146-2148)GCG>GTG	p.A716V	C7orf27_uc003smh.3_Missense_Mutation_p.A148V	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	716					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)		AGACTTCTGCGCCACAGGGCG	0.627													9	107	---	---	---	---	PASS	A	2578022	A	A	2578022	3	1	90	1	0	0	0	0	1	0	0	0	2382	1087	38	1	322	1	C7orf27	7	2578022	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08		2578022	156560641	140	33810										
USP42	84132	broad.mit.edu	37	chr7	6189851	6189851	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cccgaaagaaaacggcctagCgcctgatggtgccagctgcc	12	14	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:6189851C>T	uc011jwo.1	+	13	2147	c.2024C>T	c.(2023-2025)GCG>GTG	p.A675V	USP42_uc010kth.1_Missense_Mutation_p.A608V|USP42_uc011jwp.1_Missense_Mutation_p.A675V|USP42_uc011jwq.1_Missense_Mutation_p.A482V|USP42_uc011jwr.1_Missense_Mutation_p.A520V	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	675					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		AACGGCCTAGCGCCTGATGGT	0.562													5	30	---	---	---	---	PASS	T	6189851	T	T	6189851	3	4	90	1	0	0	0	0	1	0	0	0	17070	768	27	1	2070	1	USP42	7	6189851	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	3611829	6189851	152948812	141	33811										
BLVRA	644	broad.mit.edu	37	chr7	43843318	43843318	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tttggcttccctgcattcagCggcatctctcgcctgacctg	9	15	2	1	rs146563888		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:43843318C>T	uc003tir.2	+	7	587	c.504C>T	c.(502-504)AGC>AGT	p.S168S	BLVRA_uc010kxv.2_Silent_p.S168S	NM_000712	NP_000703	P53004	BIEA_HUMAN	biliverdin reductase A precursor	168					heme catabolic process	cytosol	biliverdin reductase activity|zinc ion binding			ovary(1)	1					NADH(DB00157)	CTGCATTCAGCGGCATCTCTC	0.522													9	286	---	---	---	---	PASS	T	43843318	T	T	43843318	2	4	90	1	0	0	0	0	0	0	0	1	1451	767	27	1		1	BLVRA	7	43843318	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	37653467	43843318	115295345	142	33812										
MYO1G	64005	broad.mit.edu	37	chr7	45009408	45009408	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gctgcaggcctcgtccagcaCggccaggatgccacggtggg	16	14	0	0	rs150434835	byFrequency	TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:45009408C>T	uc003tmh.2	-	11	1543	c.1399G>A	c.(1399-1401)GTG>ATG	p.V467M	MYO1G_uc003tmf.2_5'Flank|MYO1G_uc003tmg.2_Missense_Mutation_p.V229M|MYO1G_uc010kym.2_Missense_Mutation_p.V352M|MYO1G_uc003tmi.1_Missense_Mutation_p.V379M|MYO1G_uc003tmj.2_Missense_Mutation_p.V229M	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	467	Myosin head-like.					myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						TCGTCCAGCACGGCCAGGATG	0.607													24	176	---	---	---	---	PASS	T	45009408	T	T	45009408	3	4	90	1	0	0	0	0	1	0	0	0	10074	536	19	1	1705	1	MYO1G	7	45009408	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	1166090	45009408	114129255	143	33813										
CLDN3	1365	broad.mit.edu	37	chr7	73184230	73184230	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctctgcaccacgcagttcatCcacaggccctcccagatgtt	7	17	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:73184230C>A	uc003tzg.3	-	1	371	c.150G>T	c.(148-150)TGG>TGT	p.W50C	RFC2_uc011kfa.1_Intron	NM_001306	NP_001297	O15551	CLD3_HUMAN	claudin 3	50	Extracellular (Potential).				response to hypoxia	integral to plasma membrane|tight junction	structural molecule activity|transmembrane receptor activity				0		Lung NSC(55;0.159)				CGCAGTTCATCCACAGGCCCT	0.647													5	59	---	---	---	---	PASS	A	73184230	A	A	73184230	3	1	90	1	0	0	0	0	1	0	0	0	3486	856	30	2	516	2	CLDN3	7	73184230	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	28174822	73184230	85954433	144	33814										
HSPB1	3315	broad.mit.edu	37	chr7	75933484	75933484	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aaatccgatgagactgccgcCaagtaaagccttagcccgga	10	12	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:75933484C>T	uc003uew.2	+	3	767	c.612C>T	c.(610-612)GCC>GCT	p.A204A	HSPB1_uc010ldj.1_RNA|uc003uey.1_5'Flank	NM_001540	NP_001531	P04792	HSPB1_HUMAN	heat shock protein beta-1	204	Interaction with TGFB1I1 (By similarity).				anti-apoptosis|cell death|cellular component movement|mRNA metabolic process|positive regulation of interleukin-1 beta production|positive regulation of tumor necrosis factor biosynthetic process|regulation of I-kappaB kinase/NF-kappaB cascade|regulation of translational initiation|response to heat|response to unfolded protein|response to virus	cell surface|cytosol|nucleus|proteasome complex|spindle	identical protein binding|protein kinase C delta binding|protein kinase C inhibitor activity|ubiquitin binding				0						AGACTGCCGCCAAGTAAAGCC	0.582													3	12	---	---	---	---	PASS	T	75933484	T	T	75933484	2	4	90	1	0	0	0	0	0	0	0	1	7418	581	21	3		3	HSPB1	7	75933484	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	2749254	75933484	83205179	145	33815										
ZNF804B	219578	broad.mit.edu	37	chr7	88964767	88964767	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttcagggctaaaatctacgaGaatcatctattgtgattcta	7	7	5	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:88964767G>T	uc011khi.1	+	4	3009	c.2471G>T	c.(2470-2472)AGA>ATA	p.R824I		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	824						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AAATCTACGAGAATCATCTAT	0.363										HNSCC(36;0.09)			6	86	---	---	---	---	PASS	T	88964767	T	T	88964767	3	4	90	1	0	0	0	0	1	0	0	0	18168	942	33	2	2485	2	ZNF804B	7	88964767	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	13031283	88964767	70173896	146	33816										
KRIT1	889	broad.mit.edu	37	chr7	91855866	91855866	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cgtttctgggtggtttaggaGaatctgtactatttcagcat	11	6	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:91855866G>C	uc003ulq.1	-	9	1291	c.1120C>G	c.(1120-1122)CTC>GTC	p.L374V	KRIT1_uc010lev.1_Missense_Mutation_p.L167V|KRIT1_uc003ulr.1_Missense_Mutation_p.L374V|KRIT1_uc003uls.1_Missense_Mutation_p.L374V|KRIT1_uc003ult.1_Missense_Mutation_p.L326V|KRIT1_uc003ulu.1_Missense_Mutation_p.L374V|KRIT1_uc003ulv.1_Missense_Mutation_p.L374V	NM_194456	NP_919438	O00522	KRIT1_HUMAN	krev interaction trapped 1 isoform 1	374	ANK 3.				angiogenesis|cell redox homeostasis|negative regulation of angiogenesis|negative regulation of endothelial cell apoptosis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|regulation of establishment of cell polarity|small GTPase mediated signal transduction	cell-cell junction|cytoskeleton	protein binding|small GTPase regulator activity			ovary(2)|lung(1)	3	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TGGTTTAGGAGAATCTGTACT	0.343									Familial_Cerebral_Cavernous_Angioma				14	108	---	---	---	---	PASS	C	91855866	C	C	91855866	3	2	90	1	0	0	0	0	1	0	0	0	8445	942	33	2	1126	2	KRIT1	7	91855866	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	2891099	91855866	67282797	147	33817										
ANKIB1	54467	broad.mit.edu	37	chr7	91980322	91980322	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	acattttttgccctgcatatGattgcttccaacttgtacct	5	11	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:91980322G>C	uc003ulw.2	+	8	1520	c.1144G>C	c.(1144-1146)GAT>CAT	p.D382H		NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	382	RING-type 1; atypical.						protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CCCTGCATATGATTGCTTCCA	0.358													3	24	---	---	---	---	PASS	C	91980322	C	C	91980322	3	2	90	1	0	0	0	0	1	0	0	0	630	1290	45	2	1170	2	ANKIB1	7	91980322	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	124456	91980322	67158341	148	33818										
ARPC1A	10552	broad.mit.edu	37	chr7	98955978	98955978	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttcagggtctcgactctgaaGacagagttcctgccgctcct	10	13	3	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:98955978G>C	uc003upx.1	+	7	876	c.729G>C	c.(727-729)AAG>AAC	p.K243N	ARPC1A_uc010lfu.1_RNA|ARPC1A_uc003upy.1_Missense_Mutation_p.K229N|ARPC1A_uc011kit.1_RNA	NM_006409	NP_006400	Q92747	ARC1A_HUMAN	actin related protein 2/3 complex subunit 1A	243					actin cytoskeleton organization|regulation of actin filament polymerization	actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	all_cancers(62;4.46e-09)|all_epithelial(64;3.44e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0258)		STAD - Stomach adenocarcinoma(171;0.215)			CGACTCTGAAGACAGAGTTCC	0.463													9	76	---	---	---	---	PASS	C	98955978	C	C	98955978	3	2	90	1	0	0	0	0	1	0	0	0	969	933	33	2	751	2	ARPC1A	7	98955978	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	6975656	98955978	60182685	149	33819										
ACHE	43	broad.mit.edu	37	chr7	100490391	100490391	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tttgctgaagcctggggcccCgtaaaccagaaaatacgagc	11	11	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:100490391C>T	uc003uxd.2	-	2	1273	c.1117G>A	c.(1117-1119)GGG>AGG	p.G373R	ACHE_uc003uxe.2_Missense_Mutation_p.G373R|ACHE_uc003uxf.2_Missense_Mutation_p.G373R|ACHE_uc003uxg.2_Missense_Mutation_p.G373R|ACHE_uc003uxh.2_Intron|ACHE_uc003uxi.2_Missense_Mutation_p.G373R	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	373					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	CCTGGGGCCCCGTAAACCAGA	0.582													4	26	---	---	---	---	PASS	T	100490391	T	T	100490391	3	4	90	1	0	0	0	0	1	0	0	0	141	652	23	1	874	1	ACHE	7	100490391	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	1534413	100490391	58648272	150	33820										
MUC17	140453	broad.mit.edu	37	chr7	100686564	100686564	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tactgctgatgtctttcctgCaacaactggtgctgtatcta	8	10	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:100686564C>A	uc003uxp.1	+	3	11920	c.11867C>A	c.(11866-11868)GCA>GAA	p.A3956E	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3956	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GTCTTTCCTGCAACAACTGGT	0.443													28	147	---	---	---	---	PASS	A	100686564	A	A	100686564	3	1	90	1	0	0	0	0	1	0	0	0	9974	710	25	3	11877	3	MUC17	7	100686564	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	196173	100686564	58452099	151	33821										
TRIM56	81844	broad.mit.edu	37	chr7	100731660	100731660	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cccacagctggagctccatcCtgggctcctggacaagaact	10	15	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:100731660C>A	uc003uxq.2	+	3	1298	c.1067C>A	c.(1066-1068)CCT>CAT	p.P356H	TRIM56_uc003uxr.2_Intron	NM_030961	NP_112223	Q9BRZ2	TRI56_HUMAN	tripartite motif-containing 56	356					defense response to virus|interferon-beta production|protein K63-linked ubiquitination|response to type I interferon	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding	p.P356S(1)		kidney(1)|central_nervous_system(1)|skin(1)	3	Lung NSC(181;0.136)|all_lung(186;0.182)					GAGCTCCATCCTGGGCTCCTG	0.667													6	28	---	---	---	---	PASS	A	100731660	A	A	100731660	3	1	90	1	0	0	0	0	1	0	0	0	16527	681	24	3	1069	3	TRIM56	7	100731660	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	45096	100731660	58407003	152	33822										
SLC26A5	375611	broad.mit.edu	37	chr7	103048320	103048320	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	caaagaactctaaaggaataGgcgccggcaatttctcttta	8	9	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:103048320G>A	uc003vbz.2	-	8	1102	c.866C>T	c.(865-867)CCT>CTT	p.P289L	SLC26A5_uc003vbt.1_Missense_Mutation_p.P289L|SLC26A5_uc003vbu.1_Missense_Mutation_p.P289L|SLC26A5_uc003vbv.1_Missense_Mutation_p.P289L|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Missense_Mutation_p.P289L|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_RNA	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	289	Helical; Name=7; (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						TAAAGGAATAGGCGCCGGCAA	0.458													4	126	---	---	---	---	PASS	A	103048320	A	A	103048320	3	1	90	1	0	0	0	0	1	0	0	0	14520	1000	35	3	1461	3	SLC26A5	7	103048320	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	2316660	103048320	56090343	153	33823										
LAMB4	22798	broad.mit.edu	37	chr7	107743572	107743572	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggtcgcagtgctgcccctcaGtgttgtgctggcagtcttca	13	12	3	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:107743572G>C	uc010ljo.1	-	10	1181	c.1097C>G	c.(1096-1098)ACT>AGT	p.T366S	LAMB4_uc003vey.2_Missense_Mutation_p.T366S	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	366	Laminin EGF-like 2.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						CTGCCCCTCAGTGTTGTGCTG	0.607													3	45	---	---	---	---	PASS	C	107743572	C	C	107743572	3	2	90	1	0	0	0	0	1	0	0	0	8613	1029	36	4	4288	4	LAMB4	7	107743572	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	4695252	107743572	51395091	154	33824										
WDR91	29062	broad.mit.edu	37	chr7	134890753	134890753	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttggaccaaggcctcttcctCttctggctgttgctcctctt	8	14	4	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:134890753C>G	uc003vsp.2	-	5	714	c.652G>C	c.(652-654)GAG>CAG	p.E218Q	WDR91_uc010lmq.2_5'UTR|WDR91_uc010lmr.2_RNA	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91	218										breast(2)|ovary(1)|skin(1)	4						GCCTCTTCCTCTTCTGGCTGT	0.512													18	238	---	---	---	---	PASS	G	134890753	G	G	134890753	3	3	90	1	0	0	0	0	1	0	0	0	17335	922	32	2	1635	2	WDR91	7	134890753	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	27147181	134890753	24247910	155	33825										
STRA8	346673	broad.mit.edu	37	chr7	134925438	134925438	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aacaacctcaggaagacagtGtactctcagtctgatctcat	7	11	4	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:134925438G>A	uc011kpx.1	+	2	228	c.228G>A	c.(226-228)GTG>GTA	p.V76V		NM_182489	NP_872295	Q7Z7C7	STRA8_HUMAN	STRA8	76					DNA replication|regulation of transcription, DNA-dependent	cytoplasm|nucleus					0						GGAAGACAGTGTACTCTCAGT	0.607													9	143	---	---	---	---	PASS	A	134925438	A	A	134925438	2	1	90	1	0	0	0	0	0	0	0	1	15322	1364	48	3		3	STRA8	7	134925438	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	34685	134925438	24213225	156	33826										
ZNF282	8427	broad.mit.edu	37	chr7	148895705	148895705	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atttgggaaccacatggagaGcaagtgggccgtgctgggga	17	7	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:148895705G>A	uc003wfm.2	+	2	551	c.446G>A	c.(445-447)AGC>AAC	p.S149N	ZNF282_uc011kun.1_Missense_Mutation_p.S149N|ZNF282_uc003wfn.2_Missense_Mutation_p.S89N|ZNF282_uc003wfo.2_Missense_Mutation_p.S89N	NM_003575	NP_003566	Q9UDV7	ZN282_HUMAN	zinc finger protein 282	149					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)	Lung(243;0.145)		CACATGGAGAGCAAGTGGGCC	0.627													6	121	---	---	---	---	PASS	A	148895705	A	A	148895705	3	1	90	1	0	0	0	0	1	0	0	0	17816	971	34	3	452	3	ZNF282	7	148895705	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	13970267	148895705	10242958	157	33827										
AGAP3	116988	broad.mit.edu	37	chr7	150784082	150784082	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cgtgcatcccaatatctacgCcatctacgacctgatcgagc	7	15	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr7:150784082C>A	uc003wjg.1	+	1	257	c.254C>A	c.(253-255)GCC>GAC	p.A85D	AGAP3_uc003wje.1_Intron|AGAP3_uc003wjf.1_Missense_Mutation_p.A85D|AGAP3_uc010lpy.1_Missense_Mutation_p.A85D	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	49					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3						AATATCTACGCCATCTACGAC	0.667													3	43	---	---	---	---	PASS	A	150784082	A	A	150784082	3	1	90	1	0	0	0	0	1	0	0	0	369	739	26	3	256	3	AGAP3	7	150784082	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	1888377	150784082	8354581	158	33828										
DLGAP2	9228	broad.mit.edu	37	chr8	1626520	1626520	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccagcggcactccgagcccaGcacccccacccagtacagcg	9	21	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:1626520G>A	uc003wpl.2	+	9	2286	c.2189G>A	c.(2188-2190)AGC>AAC	p.S730N	DLGAP2_uc003wpm.2_Missense_Mutation_p.S716N	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	809					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		TCCGAGCCCAGCACCCCCACC	0.622													16	72	---	---	---	---	PASS	A	1626520	A	A	1626520	3	1	90	1	0	0	0	0	1	0	0	0	4560	971	34	3	2219	3	DLGAP2	8	1626520	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08		1626520	144737502	159	33829										
PEBP4	157310	broad.mit.edu	37	chr8	22785204	22785204	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cccagtaacagtgctgctgtGaccagcctcattgtccaacc	8	15	1	1	rs11547477		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:22785204G>T	uc003xcn.1	-	2	116	c.24C>A	c.(22-24)GTC>GTA	p.V8V		NM_144962	NP_659399	Q96S96	PEBP4_HUMAN	phosphatidylethanolamine-binding protein 4	8						lysosome				ovary(1)|large_intestine(1)|breast(1)|skin(1)	4		Prostate(55;0.0453)|Breast(100;0.103)		Colorectal(74;0.0434)|COAD - Colon adenocarcinoma(73;0.124)		GTGCTGCTGTGACCAGCCTCA	0.597													14	97	---	---	---	---	PASS	T	22785204	T	T	22785204	2	4	90	1	0	0	0	0	0	0	0	1	11714	1277	45	2		2	PEBP4	8	22785204	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	21158684	22785204	123578818	160	33830										
WHSC1L1	54904	broad.mit.edu	37	chr8	38187141	38187141	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctggctatgtctccgaatttCagtacttgagagtgaggagg	13	7	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:38187141C>G	uc003xli.2	-	6	1854	c.1336G>C	c.(1336-1338)GAA>CAA	p.E446Q	WHSC1L1_uc011lbm.1_Missense_Mutation_p.E446Q|WHSC1L1_uc010lwe.2_Missense_Mutation_p.E446Q|WHSC1L1_uc003xlj.2_Missense_Mutation_p.E446Q	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	446					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			CTCCGAATTTCAGTACTTGAG	0.507			T	NUP98	AML								17	138	---	---	---	---	PASS	G	38187141	G	G	38187141	3	3	90	1	0	0	0	0	1	0	0	0	17360	835	29	2	3140	2	WHSC1L1	8	38187141	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	15401937	38187141	108176881	161	33831										
CHRNA6	8973	broad.mit.edu	37	chr8	42611901	42611901	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aaaatagctggtggagtccaGgttatcatgccattgtattt	10	6	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:42611901G>T	uc003xpj.2	-	5	487	c.441C>A	c.(439-441)ACC>ACA	p.T147T	CHRNA6_uc011lcw.1_Silent_p.T132T	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	147	Extracellular.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GTGGAGTCCAGGTTATCATGC	0.408													8	207	---	---	---	---	PASS	T	42611901	T	T	42611901	2	4	90	1	0	0	0	0	0	0	0	1	3387	987	35	3		3	CHRNA6	8	42611901	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	4424760	42611901	103752121	162	33832										
FNTA	2339	broad.mit.edu	37	chr8	42927429	42927429	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aagaattatcatgcctggcaGcatcgacaatgggttattca	9	8	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:42927429G>T	uc003xps.2	+	5	660	c.612G>T	c.(610-612)CAG>CAT	p.Q204H	FNTA_uc003xpt.2_Missense_Mutation_p.Q113H|FNTA_uc003xpu.2_Missense_Mutation_p.Q137H|FNTA_uc003xpv.2_RNA	NM_002027	NP_002018	P49354	FNTA_HUMAN	farnesyltransferase, CAAX box, alpha isoform a	204	PFTA 3.				cellular component disassembly involved in apoptosis|positive regulation of deacetylase activity|positive regulation of tubulin deacetylation|protein farnesylation|protein geranylgeranylation|transforming growth factor beta receptor signaling pathway	cytosol|microtubule associated complex	alpha-tubulin binding|CAAX-protein geranylgeranyltransferase activity|microtubule binding|protein farnesyltransferase activity			ovary(1)	1	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			ATGCCTGGCAGCATCGACAAT	0.343													5	131	---	---	---	---	PASS	T	42927429	T	T	42927429	3	4	90	1	0	0	0	0	1	0	0	0	5977	962	34	3	630	3	FNTA	8	42927429	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	315528	42927429	103436593	163	33833										
PRKDC	5591	broad.mit.edu	37	chr8	48761740	48761740	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tctcatgacttgaacgaagtCcttgctctttaactggaagt	8	9	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:48761740C>A	uc003xqi.2	-	55	7312	c.7255G>T	c.(7255-7257)GAC>TAC	p.D2419Y	PRKDC_uc003xqj.2_Missense_Mutation_p.D2419Y|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2419					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TGAACGAAGTCCTTGCTCTTT	0.458								NHEJ					10	140	---	---	---	---	PASS	A	48761740	A	A	48761740	3	1	90	1	0	0	0	0	1	0	0	0	12521	855	30	2	5263	2	PRKDC	8	48761740	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	5834311	48761740	97602282	164	33834										
OPRK1	4986	broad.mit.edu	37	chr8	54142388	54142388	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gagcactcaatgacatcgacGtctggaggagggcaataaaa	12	8	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:54142388G>A	uc003xrh.1	-	3	987	c.612C>T	c.(610-612)GAC>GAT	p.D204D	OPRK1_uc003xri.1_Silent_p.D204D|OPRK1_uc010lyc.1_Silent_p.D115D	NM_000912	NP_000903	P41145	OPRK_HUMAN	opioid receptor, kappa 1	204	Extracellular (Potential).				behavior|immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception|synaptic transmission|viral genome replication	integral to plasma membrane	kappa-opioid receptor activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Buprenorphine(DB00921)|Butorphanol(DB00611)|Cocaine(DB00907)|Codeine(DB00318)|Dezocine(DB01209)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Meperidine(DB00454)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Tramadol(DB00193)	TGACATCGACGTCTGGAGGAG	0.423													11	51	---	---	---	---	PASS	A	54142388	A	A	54142388	2	1	90	1	0	0	0	0	0	0	0	1	10885	1159	40	1		1	OPRK1	8	54142388	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	5380648	54142388	92221634	165	33835										
NCOA2	10499	broad.mit.edu	37	chr8	71068967	71068967	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cgatgaccctaatgagacccCgtgcccctcgctgagggcct	11	16	0	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:71068967C>T	uc003xyn.1	-	11	1795	c.1633G>A	c.(1633-1635)GGG>AGG	p.G545R		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	545					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			AATGAGACCCCGTGCCCCTCG	0.512			T	RUNXBP2	AML								9	165	---	---	---	---	PASS	T	71068967	T	T	71068967	3	4	90	1	0	0	0	0	1	0	0	0	10229	652	23	1	2813	1	NCOA2	8	71068967	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	16926579	71068967	75295055	166	33836										
ZFHX4	79776	broad.mit.edu	37	chr8	77618552	77618552	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	caggtgtttggccactctgcCccagcccccaacaccagcct	8	19	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:77618552C>A	uc003yav.2	+	2	2616	c.2229C>A	c.(2227-2229)GCC>GCA	p.A743A	ZFHX4_uc003yat.1_Silent_p.A743A|ZFHX4_uc003yau.1_Silent_p.A743A|ZFHX4_uc003yaw.1_Silent_p.A743A	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	743						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GCCACTCTGCCCCAGCCCCCA	0.522										HNSCC(33;0.089)			6	42	---	---	---	---	PASS	A	77618552	A	A	77618552	2	1	90	1	0	0	0	0	0	0	0	1	17632	610	22	3		3	ZFHX4	8	77618552	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	6549585	77618552	68745470	167	33837										
UBR5	51366	broad.mit.edu	37	chr8	103274250	103274250	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cgcgaggattagttgccgcaAactctcatacattacaggat	9	10	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:103274250A>G	uc003ykr.1	-	55	7768	c.7735T>C	c.(7735-7737)TTG>CTG	p.L2579L	UBR5_uc003yks.1_Silent_p.L2578L|UBR5_uc003ykq.2_Silent_p.L90L	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	2579	HECT.				cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			AGTTGCCGCAAACTCTCATAC	0.378													10	124	---	---	---	---	PASS	G	103274250	G	G	103274250	2	3	90	1	0	0	0	0	0	0	0	1	16902	11	1	5		5	UBR5	8	103274250	Silent	SNP	A	TCGA-39-5030-01A-01D-1441-08	25655698	103274250	43089772	168	33838										
C8orf85	441376	broad.mit.edu	37	chr8	117954881	117954881	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agcaattgaaaaaggagtatGaactggaaattacatcagac	9	5	1	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:117954881G>C	uc003yof.2	+	2	428	c.409G>C	c.(409-411)GAA>CAA	p.E137Q		NM_001025357	NP_001020528	Q4LEZ3	AARD_HUMAN	alanine and arginine-rich domain-containing	137											0						AAAGGAGTATGAACTGGAAAT	0.353													13	80	---	---	---	---	PASS	C	117954881	C	C	117954881	3	2	90	1	0	0	0	0	1	0	0	0	2441	1291	45	2	415	2	C8orf85	8	117954881	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	14680631	117954881	28409141	169	33839										
MTSS1	9788	broad.mit.edu	37	chr8	125565386	125565386	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atctggcctggggagacagtGgcacttgggggttcccgttc	16	10	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:125565386G>T	uc003yrk.2	-	14	2649	c.2115C>A	c.(2113-2115)GCC>GCA	p.A705A	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_Silent_p.A354A|MTSS1_uc011lin.1_Silent_p.A479A|MTSS1_uc011lio.1_Silent_p.A595A|MTSS1_uc003yri.2_Silent_p.A423A|MTSS1_uc003yrj.2_Silent_p.A680A|MTSS1_uc003yrl.2_Silent_p.A709A	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	705	Pro-rich.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			GGGAGACAGTGGCACTTGGGG	0.587													33	456	---	---	---	---	PASS	T	125565386	T	T	125565386	2	4	90	1	0	0	0	0	0	0	0	1	9962	1335	47	3		3	MTSS1	8	125565386	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	7610505	125565386	20798636	170	33840										
PUF60	22827	broad.mit.edu	37	chr8	144898903	144898903	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	acgcggttcacggccccgaaCttgccacactcctctgtcac	8	18	3	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:144898903C>G	uc003yzs.2	-	12	1531	c.1467G>C	c.(1465-1467)AAG>AAC	p.K489N	SCRIB_uc003yzo.1_5'Flank|SCRIB_uc003yzp.1_5'Flank|PUF60_uc003yzr.2_Missense_Mutation_p.K429N|PUF60_uc003yzt.2_Missense_Mutation_p.K472N|PUF60_uc003yzq.2_Missense_Mutation_p.K446N	NM_078480	NP_510965	Q9UHX1	PUF60_HUMAN	poly-U binding splicing factor 60KDa isoform a	489	RRM 3; atypical.|Inhibits homodimerization.|Inhibits transcriptional repression, interaction with ERCC3 and apoptosis induction.				apoptosis|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleus|ribonucleoprotein complex	DNA binding|nucleotide binding|protein binding|RNA binding				0	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			CGGCCCCGAACTTGCCACACT	0.537													19	184	---	---	---	---	PASS	G	144898903	G	G	144898903	3	3	90	1	0	0	0	0	1	0	0	0	12824	564	20	4	216	4	PUF60	8	144898903	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	19333517	144898903	1465119	171	33841										
ZNF16	7564	broad.mit.edu	37	chr8	146156294	146156294	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctcactgcatttgtaggggcGctcgcccgtgtggattatct	12	11	2	0	rs145120548		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr8:146156294G>A	uc003zet.2	-	4	2066	c.1879C>T	c.(1879-1881)CGC>TGC	p.R627C	ZNF16_uc003zeu.2_Missense_Mutation_p.R627C	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	627					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		TTGTAGGGGCGCTCGCCCGTG	0.532													13	115	---	---	---	---	PASS	A	146156294	A	A	146156294	3	1	90	1	0	0	0	0	1	0	0	0	17735	1087	38	1	173	1	ZNF16	8	146156294	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	1257391	146156294	207728	172	33842										
TOPORS	10210	broad.mit.edu	37	chr9	32542684	32542684	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccatgatgctttctatgattCttctgatcatgcccacttct	5	12	5	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:32542684C>A	uc003zrb.2	-	3	2006	c.1839G>T	c.(1837-1839)AAG>AAT	p.K613N	TOPORS_uc003zrc.2_Missense_Mutation_p.K546N	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	613	Arg-rich.|Interaction with TOP1.|Interaction with SUMO1.|Interaction with p53/TP53.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		TTCTATGATTCTTCTGATCAT	0.403													8	367	---	---	---	---	PASS	A	32542684	A	A	32542684	3	1	90	1	0	0	0	0	1	0	0	0	16367	912	32	2	1302	2	TOPORS	9	32542684	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08		32542684	108670747	173	33843										
PIP5K1B	8395	broad.mit.edu	37	chr9	71538235	71538235	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	caggacactgtttctgttcaTagaccaagcttttatgcaga	8	9	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:71538235T>C	uc004agu.2	+	12	1439	c.1134T>C	c.(1132-1134)CAT>CAC	p.H378H	PIP5K1B_uc011lrq.1_Silent_p.H378H|PIP5K1B_uc004agv.2_RNA	NM_003558	NP_003549	O14986	PI51B_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	378	PIPK.					endomembrane system|membrane|uropod	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|protein binding			stomach(1)	1				Lung(182;0.133)		TTTCTGTTCATAGACCAAGCT	0.338													13	171	---	---	---	---	PASS	C	71538235	C	C	71538235	2	2	90	1	0	0	0	0	0	0	0	1	11940	1403	49	5		5	PIP5K1B	9	71538235	Silent	SNP	T	TCGA-39-5030-01A-01D-1441-08	38995551	71538235	69675196	174	33844										
TJP2	9414	broad.mit.edu	37	chr9	71849460	71849460	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttttagctcagagccgagccGatggtgagcaaatttggtca	12	8	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:71849460G>A	uc004ahe.2	+	12	1977	c.1777G>A	c.(1777-1779)GAT>AAT	p.D593N	TJP2_uc011lrs.1_Missense_Mutation_p.D570N|TJP2_uc011lrt.1_Missense_Mutation_p.D570N|TJP2_uc004ahd.2_Missense_Mutation_p.D593N|TJP2_uc004ahf.2_Missense_Mutation_p.D593N|TJP2_uc011lru.1_Missense_Mutation_p.D597N|TJP2_uc011lrv.1_Missense_Mutation_p.D615N	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)	593					cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						GAGCCGAGCCGATGGTGAGCA	0.488													5	56	---	---	---	---	PASS	A	71849460	A	A	71849460	3	1	90	1	0	0	0	0	1	0	0	0	15927	1058	37	2	1980	2	TJP2	9	71849460	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	311225	71849460	69363971	175	33845										
TRPM3	80036	broad.mit.edu	37	chr9	73206004	73206004	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccaatagggcatgtagaagaTgttcttggccagtttccatg	11	8	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:73206004T>C	uc004aid.2	-	21	3374	c.3130A>G	c.(3130-3132)ATC>GTC	p.I1044V	TRPM3_uc004ahu.2_Missense_Mutation_p.I874V|TRPM3_uc004ahv.2_Missense_Mutation_p.I846V|TRPM3_uc004ahw.2_Missense_Mutation_p.I916V|TRPM3_uc004ahx.2_Missense_Mutation_p.I903V|TRPM3_uc004ahy.2_Missense_Mutation_p.I906V|TRPM3_uc004ahz.2_Missense_Mutation_p.I893V|TRPM3_uc004aia.2_Missense_Mutation_p.I891V|TRPM3_uc004aib.2_Missense_Mutation_p.I881V|TRPM3_uc004aic.2_Missense_Mutation_p.I1044V	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1069	Extracellular (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						ATGTAGAAGATGTTCTTGGCC	0.448													7	201	---	---	---	---	PASS	C	73206004	C	C	73206004	3	2	90	1	0	0	0	0	1	0	0	0	16584	1464	51	5	2013	5	TRPM3	9	73206004	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	1356544	73206004	68007427	176	33846										
MURC	347273	broad.mit.edu	37	chr9	103348485	103348485	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aaggtaaggaccgaacagtgGctgaaggtgaggaatgtgcc	16	6	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:103348485G>A	uc004bba.2	+	2	937	c.847G>A	c.(847-849)GCT>ACT	p.A283T		NM_001018116	NP_001018126	Q5BKX8	MURC_HUMAN	muscle-related coiled-coil protein	283					cell differentiation|muscle organ development|transcription, DNA-dependent					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0461)				CCGAACAGTGGCTGAAGGTGA	0.512													5	172	---	---	---	---	PASS	A	103348485	A	A	103348485	3	1	90	1	0	0	0	0	1	0	0	0	9987	1203	42	3	853	3	MURC	9	103348485	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	30142481	103348485	37864946	177	33847										
ZNF189	7743	broad.mit.edu	37	chr9	104170627	104170627	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtcgcagttcatttgttattGaacatcagagaattcacact	7	8	3	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:104170627G>C	uc004bbh.1	+	3	853	c.577G>C	c.(577-579)GAA>CAA	p.E193Q	ZNF189_uc004bbg.1_Missense_Mutation_p.E151Q|ZNF189_uc004bbi.1_Missense_Mutation_p.E179Q|ZNF189_uc011lvk.1_Missense_Mutation_p.E178Q	NM_003452	NP_003443	O75820	ZN189_HUMAN	zinc finger protein 189 isoform 1	193	C2H2-type 2.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|kidney(1)|central_nervous_system(1)	6		Acute lymphoblastic leukemia(62;0.0559)				ATTTGTTATTGAACATCAGAG	0.403													6	114	---	---	---	---	PASS	C	104170627	C	C	104170627	3	2	90	1	0	0	0	0	1	0	0	0	17751	1291	45	2	587	2	ZNF189	9	104170627	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	822142	104170627	37042804	178	33848										
ZNF189	7743	broad.mit.edu	37	chr9	104171282	104171282	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atgtggaaaagcctttagtaGaagctcaggtcttattcagc	10	7	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:104171282G>C	uc004bbh.1	+	3	1508	c.1232G>C	c.(1231-1233)AGA>ACA	p.R411T	ZNF189_uc004bbg.1_Missense_Mutation_p.R369T|ZNF189_uc004bbi.1_Missense_Mutation_p.R397T|ZNF189_uc011lvk.1_Missense_Mutation_p.R396T	NM_003452	NP_003443	O75820	ZN189_HUMAN	zinc finger protein 189 isoform 1	411	C2H2-type 10.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|kidney(1)|central_nervous_system(1)	6		Acute lymphoblastic leukemia(62;0.0559)				GCCTTTAGTAGAAGCTCAGGT	0.408													8	94	---	---	---	---	PASS	C	104171282	C	C	104171282	3	2	90	1	0	0	0	0	1	0	0	0	17751	942	33	2	1242	2	ZNF189	9	104171282	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	655	104171282	37042149	179	33849										
OR13C4	138804	broad.mit.edu	37	chr9	107288712	107288712	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggtcctgggacttaggttttGcatacataaagaagatggta	12	5	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:107288712G>T	uc011lvn.1	-	1	779	c.779C>A	c.(778-780)GCA>GAA	p.A260E		NM_001001919	NP_001001919	Q8NGS5	O13C4_HUMAN	olfactory receptor, family 13, subfamily C,	260	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CTTAGGTTTTGCATACATAAA	0.468													15	147	---	---	---	---	PASS	T	107288712	T	T	107288712	3	4	90	1	0	0	0	0	1	0	0	0	10936	1319	46	3	179	3	OR13C4	9	107288712	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	3117430	107288712	33924719	180	33850										
ACTL7B	10880	broad.mit.edu	37	chr9	111617236	111617236	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttgaagcccgtgtcctggcaGcggcccaggcaggcagctgt	15	13	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:111617236G>A	uc004bdi.2	-	1	1040	c.975C>T	c.(973-975)CGC>CGT	p.R325R		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	325						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						TGTCCTGGCAGCGGCCCAGGC	0.677													6	132	---	---	---	---	PASS	A	111617236	A	A	111617236	2	1	90	1	0	0	0	0	0	0	0	1	201	958	34	3		3	ACTL7B	9	111617236	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	4328524	111617236	29596195	181	33851										
CDK5RAP2	55755	broad.mit.edu	37	chr9	123169494	123169494	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gctgtgcaggtccctgaaagGatcctgccccttccagcctt	10	15	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:123169494G>C	uc004bkf.2	-	32	4940	c.4759C>G	c.(4759-4761)CCT>GCT	p.P1587A	CDK5RAP2_uc010mvi.2_Missense_Mutation_p.P596A|CDK5RAP2_uc004bke.2_Missense_Mutation_p.P872A|CDK5RAP2_uc004bkg.2_Intron|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.P852A|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.P852A|CDK5RAP2_uc011lya.1_Missense_Mutation_p.P852A|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.P1357A|CDK5RAP2_uc004bki.2_3'UTR	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	1587					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						TCCCTGAAAGGATCCTGCCCC	0.562													11	113	---	---	---	---	PASS	C	123169494	C	C	123169494	3	2	90	1	0	0	0	0	1	0	0	0	3146	1174	41	2	950	2	CDK5RAP2	9	123169494	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	11552258	123169494	18043937	182	33852										
DDX31	64794	broad.mit.edu	37	chr9	135538025	135538025	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aaatgaagtttcgttcctccGtttcgctgggggagcctcac	11	11	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:135538025G>T	uc004cbq.1	-	2	600	c.448C>A	c.(448-450)CGG>AGG	p.R150R	DDX31_uc010mzu.1_Silent_p.R150R|DDX31_uc004cbr.1_Silent_p.R150R|DDX31_uc004cbs.1_Silent_p.R150R	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	150						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		TCGTTCCTCCGTTTCGCTGGG	0.438													4	158	---	---	---	---	PASS	T	135538025	T	T	135538025	2	4	90	1	0	0	0	0	0	0	0	1	4356	1144	40	1		1	DDX31	9	135538025	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	12368531	135538025	5675406	183	33853										
SURF6	6838	broad.mit.edu	37	chr9	136198994	136198994	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggttggtccacttcatcttcGcctccagctcctgcgccttc	8	17	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:136198994G>A	uc004cdb.3	-	5	875	c.797C>T	c.(796-798)GCG>GTG	p.A266V		NM_006753	NP_006744	O75683	SURF6_HUMAN	surfeit 6	266						granular component	DNA binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.16e-06)|Epithelial(140;8.34e-06)|all cancers(34;7.08e-05)		CTTCATCTTCGCCTCCAGCTC	0.667													6	187	---	---	---	---	PASS	A	136198994	A	A	136198994	3	1	90	1	0	0	0	0	1	0	0	0	15403	1087	38	1	292	1	SURF6	9	136198994	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	660969	136198994	5014437	184	33854										
VAV2	7410	broad.mit.edu	37	chr9	136635533	136635533	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggaggccctggaggccgaacGttcccgggacttgtaggggt	18	10	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:136635533G>A	uc004ces.2	-	27	2360	c.2314C>T	c.(2314-2316)CGT>TGT	p.R772C	VAV2_uc004cer.2_Missense_Mutation_p.R762C|VAV2_uc004cet.1_Missense_Mutation_p.R311C	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	772					angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		GAGGCCGAACGTTCCCGGGAC	0.657													7	97	---	---	---	---	PASS	A	136635533	A	A	136635533	3	1	90	1	0	0	0	0	1	0	0	0	17129	1145	40	1	338	1	VAV2	9	136635533	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	436539	136635533	4577898	185	33855										
INPP5E	56623	broad.mit.edu	37	chr9	139329253	139329253	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cgttccggtctgggaagtagCgggccagctcatccgccccc	13	16	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr9:139329253C>T	uc004cho.2	-	2	1260	c.875G>A	c.(874-876)CGC>CAC	p.R292H	INPP5E_uc010nbm.2_Missense_Mutation_p.R292H	NM_019892	NP_063945	Q9NRR6	INP5E_HUMAN	inositol polyphosphate-5-phosphatase E	292						cilium axoneme|cytoskeleton|Golgi cisterna membrane	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity			skin(1)	1		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.36e-06)|Epithelial(140;1.4e-05)		TGGGAAGTAGCGGGCCAGCTC	0.577													3	32	---	---	---	---	PASS	T	139329253	T	T	139329253	3	4	90	1	0	0	0	0	1	0	0	0	7757	768	27	1	1095	1	INPP5E	9	139329253	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	2693720	139329253	1884178	186	33856										
PRKCQ	5588	broad.mit.edu	37	chr10	6504316	6504316	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gcagaccaagaatgatttcaGcagcataaaacctgggggaa	11	8	1	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr10:6504316G>A	uc001ijj.1	-	14	1532	c.1457C>T	c.(1456-1458)GCT>GTT	p.A486V	PRKCQ_uc009xim.1_Missense_Mutation_p.A486V|PRKCQ_uc001iji.1_Missense_Mutation_p.A519V|PRKCQ_uc009xin.1_Missense_Mutation_p.A450V|PRKCQ_uc010qax.1_Missense_Mutation_p.A361V	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	486	Protein kinase.				axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						AATGATTTCAGCAGCATAAAA	0.413													9	87	---	---	---	---	PASS	A	6504316	A	A	6504316	3	1	90	1	0	0	0	0	1	0	0	0	12515	971	34	3	683	3	PRKCQ	10	6504316	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08		6504316	129030431	187	33857										
SUV39H2	79723	broad.mit.edu	37	chr10	14939354	14939354	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggtactcccatctatgaatgCaactcaaggtgtcagtgtgg	11	9	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr10:14939354C>A	uc001inh.2	+	2	563	c.507C>A	c.(505-507)TGC>TGA	p.C169*	SUV39H2_uc001ing.2_Intron|SUV39H2_uc001ini.2_Nonsense_Mutation_p.C169*|SUV39H2_uc001inj.2_Nonsense_Mutation_p.C169*	NM_024670	NP_078946	Q9H5I1	SUV92_HUMAN	suppressor of variegation 3-9 homolog 2	229	Pre-SET.				cell cycle|cell differentiation|chromatin assembly or disassembly|chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin|chromosome, centromeric region|nucleus	histone methyltransferase activity (H3-K9 specific)|protein binding|zinc ion binding			breast(2)|ovary(1)	3						TCTATGAATGCAACTCAAGGT	0.413													13	125	---	---	---	---	PASS	A	14939354	A	A	14939354	4	1	90	1	0	0	0	0	0	1	0	0	15410	718	25	3	509	3	SUV39H2	10	14939354	Nonsense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	8435038	14939354	120595393	188	33858										
MKI67	4288	broad.mit.edu	37	chr10	129910038	129910038	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tatggtacaaggagagtttgCgtggcctgtactaaattgac	12	6	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr10:129910038C>T	uc001lke.2	-	11	2326	c.2131G>A	c.(2131-2133)GCA>ACA	p.A711T	MKI67_uc001lkf.2_Missense_Mutation_p.A351T|MKI67_uc009yav.1_Missense_Mutation_p.A286T|MKI67_uc009yaw.1_Intron	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	711					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GGAGAGTTTGCGTGGCCTGTA	0.433													10	121	---	---	---	---	PASS	T	129910038	T	T	129910038	3	4	90	1	0	0	0	0	1	0	0	0	9598	768	27	1	7659	1	MKI67	10	129910038	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	114970684	129910038	5624709	189	33859										
TUBGCP2	10844	broad.mit.edu	37	chr10	135106715	135106715	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gcgtggttcacctgcccgtaCtcgaaggaagacttctcttc	10	13	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr10:135106715C>T	uc001lmg.1	-	7	1209	c.852G>A	c.(850-852)GAG>GAA	p.E284E	TUBGCP2_uc001lmf.1_5'Flank|TUBGCP2_uc010qvc.1_Silent_p.E312E|TUBGCP2_uc009ybk.1_Silent_p.E284E|TUBGCP2_uc010qvd.1_Silent_p.E154E|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	284					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		CCTGCCCGTACTCGAAGGAAG	0.557													8	96	---	---	---	---	PASS	T	135106715	T	T	135106715	2	4	90	1	0	0	0	0	0	0	0	1	16763	564	20	3		3	TUBGCP2	10	135106715	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	5196677	135106715	428032	190	33860										
OR52I2	143502	broad.mit.edu	37	chr11	4608686	4608686	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctgtgagcacatagctttggCcaggttagcatgtgctgacc	12	10	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:4608686C>T	uc010qyh.1	+	1	644	c.644C>T	c.(643-645)GCC>GTC	p.A215V		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	215	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATAGCTTTGGCCAGGTTAGCA	0.512													23	291	---	---	---	---	PASS	T	4608686	T	T	4608686	3	4	90	1	0	0	0	0	1	0	0	0	11121	739	26	3	646	3	OR52I2	11	4608686	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08		4608686	130397830	191	33861										
OR51V1	283111	broad.mit.edu	37	chr11	5221786	5221786	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gagaaccatgcaattgcccaAaagcaccatggcatagattg	9	10	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:5221786A>G	uc010qyz.1	-	1	145	c.145T>C	c.(145-147)TTG>CTG	p.L49L		NM_001004760	NP_001004760	Q9H2C8	O51V1_HUMAN	olfactory receptor, family 51, subfamily V,	49	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.83e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAATTGCCCAAAAGCACCATG	0.502													6	133	---	---	---	---	PASS	G	5221786	G	G	5221786	2	3	90	1	0	0	0	0	0	0	0	1	11107	11	1	5		5	OR51V1	11	5221786	Silent	SNP	A	TCGA-39-5030-01A-01D-1441-08	613100	5221786	129784730	192	33862										
EIF3F	8665	broad.mit.edu	37	chr11	8016879	8016879	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aagtaccgaaaatagttcccGatgactttgagaccatgctc	8	10	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:8016879G>C	uc001mfw.2	+	7	994	c.961G>C	c.(961-963)GAT>CAT	p.D321H	EIF3F_uc010rbj.1_Missense_Mutation_p.D172H	NM_003754	NP_003745	O00303	EIF3F_HUMAN	eukaryotic translation initiation factor 3,	321						cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(1)	1				Epithelial(150;1.44e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AATAGTTCCCGATGACTTTGA	0.493													23	263	---	---	---	---	PASS	C	8016879	C	C	8016879	3	2	90	1	0	0	0	0	1	0	0	0	5016	1058	37	2	987	2	EIF3F	11	8016879	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	2795093	8016879	126989637	193	33863										
PIK3C2A	5286	broad.mit.edu	37	chr11	17153558	17153558	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcctttccattgtgagacagTgaacatatcaagtagtattt	7	7	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:17153558T>C	uc001mmq.3	-	11	2202	c.2136A>G	c.(2134-2136)TCA>TCG	p.S712S	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Silent_p.S332S|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	712					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	TGTGAGACAGTGAACATATCA	0.279													7	140	---	---	---	---	PASS	C	17153558	C	C	17153558	2	2	90	1	0	0	0	0	0	0	0	1	11909	1683	59	5		5	PIK3C2A	11	17153558	Silent	SNP	T	TCGA-39-5030-01A-01D-1441-08	9136679	17153558	117852958	194	33864										
RCN1	5954	broad.mit.edu	37	chr11	32118747	32118747	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tttgtcactactgaggagctGaaaacctggatcaaacgggt	11	8	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:32118747G>C	uc010reb.1	+	2	578	c.312G>C	c.(310-312)CTG>CTC	p.L104L	RCN1_uc010rea.1_Silent_p.L53L|RCN1_uc001mtk.2_5'UTR	NM_002901	NP_002892	Q15293	RCN1_HUMAN	reticulocalbin 1 precursor	104	EF-hand 1.					endoplasmic reticulum lumen	calcium ion binding			large_intestine(1)	1	Lung SC(675;0.225)					CTGAGGAGCTGAAAACCTGGA	0.413													4	33	---	---	---	---	PASS	C	32118747	C	C	32118747	2	2	90	1	0	0	0	0	0	0	0	1	13179	1277	45	2		2	RCN1	11	32118747	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	14965189	32118747	102887769	195	33865										
QSER1	79832	broad.mit.edu	37	chr11	32956815	32956815	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cctttagtgtctgaaactggCggtaacagtccatcagataa	9	9	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:32956815C>T	uc001mty.2	+	4	3891	c.3624C>T	c.(3622-3624)GGC>GGT	p.G1208G	QSER1_uc001mtz.1_Silent_p.G969G|QSER1_uc001mua.2_Silent_p.G713G	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	1208										ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					CTGAAACTGGCGGTAACAGTC	0.428													6	168	---	---	---	---	PASS	T	32956815	T	T	32956815	2	4	90	1	0	0	0	0	0	0	0	1	12882	755	27	1		1	QSER1	11	32956815	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	838068	32956815	102049701	196	33866										
GYLTL1B	120071	broad.mit.edu	37	chr11	45950326	45950326	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	attccaccaggacttgtcccGccaccatggggctgctgccc	10	17	0	0	rs140560270		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:45950326G>A	uc001nbv.1	+	14	2207	c.2096G>A	c.(2095-2097)CGC>CAC	p.R699H	GYLTL1B_uc001nbw.1_Missense_Mutation_p.R668H|GYLTL1B_uc001nbx.1_Missense_Mutation_p.R699H|GYLTL1B_uc001nby.1_Missense_Mutation_p.R382H|GYLTL1B_uc001nbz.1_Missense_Mutation_p.A48T	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	699	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		GACTTGTCCCGCCACCATGGG	0.672													5	127	---	---	---	---	PASS	A	45950326	A	A	45950326	3	1	90	1	0	0	0	0	1	0	0	0	6907	1087	38	1	2146	1	GYLTL1B	11	45950326	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	12993511	45950326	89056190	197	33867										
LRP4	4038	broad.mit.edu	37	chr11	46920945	46920945	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tggggccactcacgacagttCtcctcatcggagccatcttt	9	14	4	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:46920945C>A	uc001ndn.3	-	5	686	c.540G>T	c.(538-540)GAG>GAT	p.E180D	LRP4_uc009ylh.1_Missense_Mutation_p.E131D	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	180	Extracellular (Potential).|LDL-receptor class A 4.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		CACGACAGTTCTCCTCATCGG	0.572													11	209	---	---	---	---	PASS	A	46920945	A	A	46920945	3	1	90	1	0	0	0	0	1	0	0	0	8959	912	32	2	5313	2	LRP4	11	46920945	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	970619	46920945	88085571	198	33868										
FAM111B	374393	broad.mit.edu	37	chr11	58893237	58893237	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	actaaaagaaaatggaaatgCgtttcctccaggactatggc	9	8	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:58893237C>T	uc001nnl.2	+	4	1910	c.1667C>T	c.(1666-1668)GCG>GTG	p.A556V	FAM111B_uc001nnm.2_Missense_Mutation_p.A526V|FAM111B_uc010rko.1_Missense_Mutation_p.A526V	NM_198947	NP_945185	Q6SJ93	F111B_HUMAN	hypothetical protein LOC374393 isoform a	556							catalytic activity			ovary(2)	2						AATGGAAATGCGTTTCCTCCA	0.383													13	148	---	---	---	---	PASS	T	58893237	T	T	58893237	3	4	90	1	0	0	0	0	1	0	0	0	5400	768	27	1	1673	1	FAM111B	11	58893237	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	11972292	58893237	76113279	199	33869										
DDB1	1642	broad.mit.edu	37	chr11	61067618	61067618	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctgcccttggctaatggatcCgagttagctcctccacaacc	8	15	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:61067618C>T	uc001nrc.3	-	27	3639	c.3413G>A	c.(3412-3414)CGG>CAG	p.R1138Q		NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	1138	Interaction with CDT1 and CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						CTAATGGATCCGAGTTAGCTC	0.597								NER					11	51	---	---	---	---	PASS	T	61067618	T	T	61067618	3	4	90	1	0	0	0	0	1	0	0	0	4323	652	23	1	13	1	DDB1	11	61067618	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	2174381	61067618	73938898	200	33870										
SDHAF2	54949	broad.mit.edu	37	chr11	61205522	61205522	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	acatgacagaaaagcagctgAacctctatgaccgcctgatt	8	11	1	5			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:61205522A>G	uc001nrt.2	+	3	329	c.307A>G	c.(307-309)AAC>GAC	p.N103D		NM_017841	NP_060311	Q9NX18	SDHF2_HUMAN	succinate dehydrogenase complex assembly factor	103					mitochondrial electron transport, succinate to ubiquinone|protein-FAD linkage	mitochondrion	protein binding			ovary(2)	2						AAAGCAGCTGAACCTCTATGA	0.393									Familial_Paragangliomas				8	145	---	---	---	---	PASS	G	61205522	G	G	61205522	3	3	90	1	0	0	0	0	1	0	0	0	13964	246	9	5	317	5	SDHAF2	11	61205522	Missense_Mutation	SNP	A	TCGA-39-5030-01A-01D-1441-08	137904	61205522	73800994	201	33871										
INCENP	3619	broad.mit.edu	37	chr11	61897526	61897526	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggagatcggcatcagtgagcGccagaatgctgagcagcatg	15	9	1	4			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:61897526G>C	uc001nsw.1	+	4	729	c.527G>C	c.(526-528)CGC>CCC	p.R176P	INCENP_uc009ynv.2_Missense_Mutation_p.R176P|INCENP_uc009ynw.1_Missense_Mutation_p.R176P|INCENP_uc001nsx.1_Missense_Mutation_p.R176P	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	176					chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						ATCAGTGAGCGCCAGAATGCT	0.617													13	74	---	---	---	---	PASS	C	61897526	C	C	61897526	3	2	90	1	0	0	0	0	1	0	0	0	7733	1087	38	4	537	4	INCENP	11	61897526	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	692004	61897526	73108990	202	33872										
EFEMP2	30008	broad.mit.edu	37	chr11	65635415	65635415	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtagacggaggtcgcctggaTctggaacacgtcagcgggca	16	10	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:65635415T>C	uc001ofy.3	-	10	1281	c.1087A>G	c.(1087-1089)ATC>GTC	p.I363V	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Missense_Mutation_p.I363V	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	363					blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		GTCGCCTGGATCTGGAACACG	0.582													22	161	---	---	---	---	PASS	C	65635415	C	C	65635415	3	2	90	1	0	0	0	0	1	0	0	0	4942	1435	50	5	252	5	EFEMP2	11	65635415	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	3737889	65635415	69371101	203	33873										
KDM4D	55693	broad.mit.edu	37	chr11	94731334	94731334	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cccttcaatcgcataactcaGgaggctggagagttcatggt	11	10	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:94731334G>A	uc001pfe.2	+	3	1630	c.798G>A	c.(796-798)CAG>CAA	p.Q266Q		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	266	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GCATAACTCAGGAGGCTGGAG	0.547													5	82	---	---	---	---	PASS	A	94731334	A	A	94731334	2	1	90	1	0	0	0	0	0	0	0	1	8131	991	35	3		3	KDM4D	11	94731334	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	29095919	94731334	40275182	204	33874										
CUL5	8065	broad.mit.edu	37	chr11	107923528	107923528	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttggagtaagagaatcctatGgtatgttctgaacttttatg	10	4	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:107923528G>A	uc001pjv.2	+	5	1220	c.553G>A	c.(553-555)GTT>ATT	p.V185I	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	185					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		AGAATCCTATGGTATGTTCTG	0.343													6	51	---	---	---	---	PASS	A	107923528	A	A	107923528	3	1	90	1	0	0	0	0	1	0	0	0	4059	1362	47	3	571	3	CUL5	11	107923528	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	13192194	107923528	27082988	205	33875										
KCNJ5	3762	broad.mit.edu	37	chr11	128781427	128781427	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccctggtggacctcaagtggCgcttcaacttgctcgtcttc	10	14	3	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr11:128781427C>T	uc001qet.2	+	2	573	c.259C>T	c.(259-261)CGC>TGC	p.R87C	KCNJ5_uc009zck.2_Missense_Mutation_p.R87C|KCNJ5_uc001qew.2_Missense_Mutation_p.R87C	NM_000890	NP_000881	P48544	IRK5_HUMAN	potassium inwardly-rectifying channel J5	87	Helical; Name=M1; (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1	all_hematologic(175;0.0641)	Lung NSC(97;0.00038)|all_lung(97;0.000817)|Breast(109;0.00123)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0059)|LUSC - Lung squamous cell carcinoma(976;0.021)|Lung(977;0.0215)	Glibenclamide(DB01016)	CCTCAAGTGGCGCTTCAACTT	0.552													10	149	---	---	---	---	PASS	T	128781427	T	T	128781427	3	4	90	1	0	0	0	0	1	0	0	0	8054	768	27	1	261	1	KCNJ5	11	128781427	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	20857899	128781427	6225089	206	33876										
WNK1	65125	broad.mit.edu	37	chr12	1005492	1005492	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctaccaaggttggacgttttCaggtgacaactacagcaaac	9	10	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:1005492C>T	uc001qio.3	+	24	6346	c.5839C>T	c.(5839-5841)CAG>TAG	p.Q1947*	WNK1_uc001qip.3_Nonsense_Mutation_p.Q1699*|WNK1_uc001qir.3_Nonsense_Mutation_p.Q1120*	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1947					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			TGGACGTTTTCAGGTGACAAC	0.488													5	114	---	---	---	---	PASS	T	1005492	T	T	1005492	4	4	90	1	0	0	0	0	0	1	0	0	17374	827	29	2	7435	2	WNK1	12	1005492	Nonsense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08		1005492	132846403	207	33877										
ADIPOR2	79602	broad.mit.edu	37	chr12	1889659	1889659	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggggatcttttatatgtttcGcccaaatatctcctttgtgg	9	8	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:1889659G>T	uc001qjm.2	+	5	703	c.506G>T	c.(505-507)CGC>CTC	p.R169L	ADIPOR2_uc001qjn.2_Missense_Mutation_p.R169L	NM_024551	NP_078827	Q86V24	ADR2_HUMAN	adiponectin receptor 2	169	Extracellular (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane	hormone binding|receptor activity				0	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000382)			TATATGTTTCGCCCAAATATC	0.403													32	275	---	---	---	---	PASS	T	1889659	T	T	1889659	3	4	90	1	0	0	0	0	1	0	0	0	319	1087	38	1	520	1	ADIPOR2	12	1889659	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	884167	1889659	131962236	208	33878										
A2M	2	broad.mit.edu	37	chr12	9265040	9265040	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agactgtcctcgttcttaacCatcactgtggtccgcttctt	7	13	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:9265040C>A	uc001qvk.1	-	3	476	c.363G>T	c.(361-363)ATG>ATT	p.M121I	A2M_uc009zgk.1_Intron	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	121					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	CGTTCTTAACCATCACTGTGG	0.448													7	60	---	---	---	---	PASS	A	9265040	A	A	9265040	3	1	90	1	0	0	0	0	1	0	0	0	4	594	21	3	4197	3	A2M	12	9265040	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	7375381	9265040	124586855	209	33879										
GSG1	83445	broad.mit.edu	37	chr12	13243687	13243687	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gatgttgtggagaagctgagTgatagcatgctgaggatggc	17	4	0	4			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:13243687T>C	uc001rbn.2	-	2	287	c.114A>G	c.(112-114)TCA>TCG	p.S38S	GSG1_uc001rbj.2_Silent_p.S25S|GSG1_uc001rbk.2_Silent_p.S25S|GSG1_uc001rbl.2_Silent_p.S25S|GSG1_uc001rbm.2_Silent_p.S25S|GSG1_uc001rbo.2_Silent_p.S38S|GSG1_uc001rbp.2_Silent_p.S38S|GSG1_uc001rbq.1_Silent_p.S38S	NM_001080555	NP_001074024	Q2KHT4	GSG1_HUMAN	germ cell associated 1 isoform 4	25	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane					0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		AGAAGCTGAGTGATAGCATGC	0.552													6	113	---	---	---	---	PASS	C	13243687	C	C	13243687	2	2	90	1	0	0	0	0	0	0	0	1	6820	1683	59	5		5	GSG1	12	13243687	Silent	SNP	T	TCGA-39-5030-01A-01D-1441-08	3978647	13243687	120608208	210	33880										
ADCY6	112	broad.mit.edu	37	chr12	49170131	49170131	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttgcccgagtgatgtggatgCggctgtatgtggccaagagg	17	7	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:49170131C>T	uc001rsh.3	-	7	2198	c.1538G>A	c.(1537-1539)CGC>CAC	p.R513H	ADCY6_uc001rsj.3_Missense_Mutation_p.R513H|ADCY6_uc001rsi.3_Missense_Mutation_p.R513H|ADCY6_uc010slw.1_5'Flank	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	513	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						GATGTGGATGCGGCTGTATGT	0.667													4	81	---	---	---	---	PASS	T	49170131	T	T	49170131	3	4	90	1	0	0	0	0	1	0	0	0	298	768	27	1	2028	1	ADCY6	12	49170131	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	35926444	49170131	84681764	211	33881										
MLL2	8085	broad.mit.edu	37	chr12	49421039	49421039	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aggtggggccgagagctgtcGcacatccagattggagacat	15	9	0	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:49421039G>A	uc001rta.3	-	48	14710	c.14710C>T	c.(14710-14712)CGA>TGA	p.R4904*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4904					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GAGAGCTGTCGCACATCCAGA	0.612			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			6	152	---	---	---	---	PASS	A	49421039	A	A	49421039	4	1	90	1	0	0	0	0	0	1	0	0	9621	1095	38	1	1931	1	MLL2	12	49421039	Nonsense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	250908	49421039	84430856	212	33882										
ITGA7	3679	broad.mit.edu	37	chr12	56078904	56078904	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gggatgcccgtcagcagccaGgatggggtgtgcatccgggc	18	11	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:56078904G>T	uc001shh.2	-	25	3584	c.3364C>A	c.(3364-3366)CTG>ATG	p.L1122M	ITGA7_uc001shg.2_Missense_Mutation_p.L1118M|ITGA7_uc010sps.1_Missense_Mutation_p.L1025M|ITGA7_uc001shf.2_3'UTR|ITGA7_uc009znw.2_Missense_Mutation_p.L365M|ITGA7_uc009znx.2_Missense_Mutation_p.L999M	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	1162	3 X 4 AA repeats of D-X-H-P.|Cytoplasmic (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						TCAGCAGCCAGGATGGGGTGT	0.682													6	40	---	---	---	---	PASS	T	56078904	T	T	56078904	3	4	90	1	0	0	0	0	1	0	0	0	7881	991	35	3	65	3	ITGA7	12	56078904	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	6657865	56078904	77772991	213	33883										
LRP1	4035	broad.mit.edu	37	chr12	57593149	57593149	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	acgctgcaccggcccatggaCctgcatgtcttccatgccct	9	17	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:57593149C>T	uc001snd.2	+	61	10297	c.9831C>T	c.(9829-9831)GAC>GAT	p.D3277D		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3277	LDL-receptor class B 30.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GGCCCATGGACCTGCATGTCT	0.627													6	154	---	---	---	---	PASS	T	57593149	T	T	57593149	2	4	90	1	0	0	0	0	0	0	0	1	8951	506	18	3		3	LRP1	12	57593149	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	1514245	57593149	76258746	214	33884										
TMCC3	57458	broad.mit.edu	37	chr12	94965417	94965417	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gttgatgcacctccccaggaGaactttagcattcacggtgt	10	11	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:94965417G>C	uc001tdj.2	-	4	1346	c.1228C>G	c.(1228-1230)CTC>GTC	p.L410V	TMCC3_uc001tdi.2_Missense_Mutation_p.L379V	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	410						integral to membrane				ovary(1)|skin(1)	2						CTCCCCAGGAGAACTTTAGCA	0.527													8	114	---	---	---	---	PASS	C	94965417	C	C	94965417	3	2	90	1	0	0	0	0	1	0	0	0	15991	942	33	2	209	2	TMCC3	12	94965417	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	37372268	94965417	38886478	215	33885										
TMCC3	57458	broad.mit.edu	37	chr12	94965482	94965482	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gctggtggagctccagcttaGaaatgcgagtctggcaggat	15	8	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:94965482G>A	uc001tdj.2	-	4	1281	c.1163C>T	c.(1162-1164)TCT>TTT	p.S388F	TMCC3_uc001tdi.2_Missense_Mutation_p.S357F	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	388	Potential.					integral to membrane				ovary(1)|skin(1)	2						CTCCAGCTTAGAAATGCGAGT	0.552													9	75	---	---	---	---	PASS	A	94965482	A	A	94965482	3	1	90	1	0	0	0	0	1	0	0	0	15991	942	33	2	274	2	TMCC3	12	94965482	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	65	94965482	38886413	216	33886										
TDG	6996	broad.mit.edu	37	chr12	104378655	104378655	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggcattgaacgaaatatggaCgttcaagaggtgcaatatac	11	6	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:104378655C>T	uc001tkg.2	+	8	1144	c.921C>T	c.(919-921)GAC>GAT	p.D307D	TDG_uc009zuk.2_Silent_p.D303D|TDG_uc010swi.1_Silent_p.D164D|TDG_uc010swj.1_Silent_p.D95D	NM_003211	NP_003202	Q13569	TDG_HUMAN	thymine-DNA glycosylase	307					depyrimidination|mismatch repair	nucleoplasm	damaged DNA binding|mismatched DNA binding|protein binding|pyrimidine-specific mismatch base pair DNA N-glycosylase activity			ovary(3)|lung(3)	6				BRCA - Breast invasive adenocarcinoma(302;0.00114)		GAAATATGGACGTTCAAGAGG	0.363								BER_DNA_glycosylases					6	119	---	---	---	---	PASS	T	104378655	T	T	104378655	2	4	90	1	0	0	0	0	0	0	0	1	15722	535	19	1		1	TDG	12	104378655	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	9413173	104378655	29473240	217	33887										
KIAA1033	23325	broad.mit.edu	37	chr12	105536924	105536924	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtacatgttcagtgctttgcGcgactgtgtacctgctatga	11	9	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:105536924G>A	uc001tld.2	+	20	2000	c.1913G>A	c.(1912-1914)CGC>CAC	p.R638H	KIAA1033_uc010swr.1_Missense_Mutation_p.R639H|KIAA1033_uc010sws.1_Missense_Mutation_p.R450H	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	638					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						AGTGCTTTGCGCGACTGTGTA	0.333													3	45	---	---	---	---	PASS	A	105536924	A	A	105536924	3	1	90	1	0	0	0	0	1	0	0	0	8206	1087	38	1	1991	1	KIAA1033	12	105536924	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	1158269	105536924	28314971	218	33888										
ANAPC5	51433	broad.mit.edu	37	chr12	121746350	121746350	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gcagctgccggaagagcatcGcacaccggttcctctcctgg	12	15	1	1	rs115934510	by1000genomes	TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:121746350G>A	uc001uag.2	-	17	2323	c.2201C>T	c.(2200-2202)GCG>GTG	p.A734V	ANAPC5_uc010szu.1_Missense_Mutation_p.A400V|ANAPC5_uc001uae.2_Missense_Mutation_p.A298V|ANAPC5_uc010szv.1_Missense_Mutation_p.A336V|ANAPC5_uc001uaf.2_RNA|ANAPC5_uc001uah.2_Missense_Mutation_p.A622V	NM_016237	NP_057321	Q9UJX4	APC5_HUMAN	anaphase-promoting complex subunit 5 isoform a	734					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding|ubiquitin-protein ligase activity			skin(3)|breast(2)|kidney(1)	6	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GAAGAGCATCGCACACCGGTT	0.562													18	159	---	---	---	---	PASS	A	121746350	A	A	121746350	3	1	90	1	0	0	0	0	1	0	0	0	605	1087	38	1	70	1	ANAPC5	12	121746350	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	16209426	121746350	12105545	219	33889										
KDM2B	84678	broad.mit.edu	37	chr12	122016728	122016728	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tttgccctccatggcgtgcaCgaagtccccctggtacagct	10	15	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:122016728C>T	uc001uat.2	-	2	354	c.250G>A	c.(250-252)GTG>ATG	p.V84M	KDM2B_uc001uas.2_Missense_Mutation_p.V53M|KDM2B_uc001uau.2_Translation_Start_Site|KDM2B_uc001uav.3_Missense_Mutation_p.V84M	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	84					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						ATGGCGTGCACGAAGTCCCCC	0.697													6	62	---	---	---	---	PASS	T	122016728	T	T	122016728	3	4	90	1	0	0	0	0	1	0	0	0	8125	536	19	1	3900	1	KDM2B	12	122016728	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	270378	122016728	11835167	220	33890										
ANKLE2	23141	broad.mit.edu	37	chr12	133331494	133331494	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cttcagctggcttcaaaatcCtttgtgggtcctggctgaga	11	10	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr12:133331494C>A	uc001ukx.2	-	2	474	c.407G>T	c.(406-408)AGG>ATG	p.R136M	ANKLE2_uc001uky.3_Missense_Mutation_p.R74M	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	136						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		CTTCAAAATCCTTTGTGGGTC	0.498													7	89	---	---	---	---	PASS	A	133331494	A	A	133331494	3	1	90	1	0	0	0	0	1	0	0	0	633	681	24	3	2457	3	ANKLE2	12	133331494	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	11314766	133331494	520401	221	33891										
SIAH3	283514	broad.mit.edu	37	chr13	46425674	46425674	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gacacagacaagttgcccggCagcggagaaaacccgtttag	12	11	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr13:46425674C>A	uc001vap.2	-	1	173	c.91G>T	c.(91-93)GCC>TCC	p.A31S		NM_198849	NP_942146	Q8IW03	SIAH3_HUMAN	seven in absentia homolog 3	31					multicellular organismal development|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding			ovary(1)|skin(1)	2						AGTTGCCCGGCAGCGGAGAAA	0.483													4	120	---	---	---	---	PASS	A	46425674	A	A	46425674	3	1	90	1	0	0	0	0	1	0	0	0	14301	710	25	3	726	3	SIAH3	13	46425674	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08		46425674	68744204	222	33892										
KPNA3	3839	broad.mit.edu	37	chr13	50280449	50280449	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggaattaatccagcatctatTacagcttgaacttgttgctg	8	8	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr13:50280449T>C	uc001vdj.2	-	13	1507	c.1092A>G	c.(1090-1092)GTA>GTG	p.V364V		NM_002267	NP_002258	O00505	IMA3_HUMAN	karyopherin alpha 3	364	ARM 8.|NLS binding site (minor) (By similarity).				interspecies interaction between organisms|NLS-bearing substrate import into nucleus|protein complex assembly	cytoplasm|nuclear pore	nuclear localization sequence binding|protein transporter activity				0		Lung NSC(96;2.46e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.42e-09)		CAGCATCTATTACAGCTTGAA	0.358													4	75	---	---	---	---	PASS	C	50280449	C	C	50280449	2	2	90	1	0	0	0	0	0	0	0	1	8431	1741	61	5		5	KPNA3	13	50280449	Silent	SNP	T	TCGA-39-5030-01A-01D-1441-08	3854775	50280449	64889429	223	33893										
SLC15A1	6564	broad.mit.edu	37	chr13	99364785	99364785	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttagcccagtccagccagtgCtccctcttgggaaatgcctt	9	14	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr13:99364785C>A	uc001vno.2	-	10	854	c.777G>T	c.(775-777)GAG>GAT	p.E259D		NM_005073	NP_005064	P46059	S15A1_HUMAN	solute carrier family 15 (oligopeptide	259	Cytoplasmic (Potential).				digestion|protein transport	integral to plasma membrane|membrane fraction	peptide:hydrogen symporter activity			ovary(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Cefadroxil(DB01140)|Ceftibuten(DB01415)|Cyclacillin(DB01000)	CCAGCCAGTGCTCCCTCTTGG	0.418													15	109	---	---	---	---	PASS	A	99364785	A	A	99364785	3	1	90	1	0	0	0	0	1	0	0	0	14398	796	28	3	1405	3	SLC15A1	13	99364785	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	49084336	99364785	15805093	224	33894										
C14orf183	196913	broad.mit.edu	37	chr14	50550460	50550460	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tgtgggaggagactggcatcCattcgctgctctggaaaggc	15	9	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr14:50550460C>G	uc010tqk.1	-	5	884	c.884G>C	c.(883-885)TGG>TCG	p.W295S		NM_001014830	NP_001014830	Q8WXQ3	CN183_HUMAN	hypothetical protein LOC196913	295											0						GACTGGCATCCATTCGCTGCT	0.552													13	112	---	---	---	---	PASS	G	50550460	G	G	50550460	3	3	90	1	0	0	0	0	1	0	0	0	1766	595	21	4	93	4	C14orf183	14	50550460	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08		50550460	56799080	225	33895										
DDHD1	80821	broad.mit.edu	37	chr14	53619565	53619565	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aagtcatagttctcgtcactGaggcaggggtccagcgcgag	14	10	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr14:53619565G>A	uc001xai.2	-	1	482	c.252C>T	c.(250-252)CTC>CTT	p.L84L	DDHD1_uc001xaj.2_Silent_p.L84L|DDHD1_uc001xah.2_Silent_p.L84L	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	84					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					TCTCGTCACTGAGGCAGGGGT	0.701													5	31	---	---	---	---	PASS	A	53619565	A	A	53619565	2	1	90	1	0	0	0	0	0	0	0	1	4326	1277	45	2		2	DDHD1	14	53619565	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	3069105	53619565	53729975	226	33896										
MTHFD1	4522	broad.mit.edu	37	chr14	64898281	64898281	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cctcacaggtgacatccatgCcatcactgcagctaataacc	6	15	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr14:64898281C>T	uc001xhb.2	+	14	1730	c.1343C>T	c.(1342-1344)GCC>GTC	p.A448V	MTHFD1_uc010aqe.2_Missense_Mutation_p.A484V|MTHFD1_uc010aqf.2_Missense_Mutation_p.A504V	NM_005956	NP_005947	P11586	C1TC_HUMAN	methylenetetrahydrofolate dehydrogenase 1	448	Formyltetrahydrofolate synthetase.				folic acid metabolic process|folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process	cytosol|mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|methylenetetrahydrofolate dehydrogenase|protein binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(108;8.7e-12)|all cancers(60;3.29e-11)|BRCA - Breast invasive adenocarcinoma(234;0.0488)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	GACATCCATGCCATCACTGCA	0.463													4	74	---	---	---	---	PASS	T	64898281	T	T	64898281	3	4	90	1	0	0	0	0	1	0	0	0	9927	739	26	3	1397	3	MTHFD1	14	64898281	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	11278716	64898281	42451259	227	33897										
PAPOLA	10914	broad.mit.edu	37	chr14	97018866	97018866	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tctcaatgacagcagcctcgActtgtctatggacagtgata	9	10	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr14:97018866A>C	uc001yfq.2	+	17	1781	c.1571A>C	c.(1570-1572)GAC>GCC	p.D524A	PAPOLA_uc001yfr.2_Missense_Mutation_p.D524A|PAPOLA_uc010twv.1_Missense_Mutation_p.D524A|PAPOLA_uc010avp.2_Missense_Mutation_p.D274A	NM_032632	NP_116021	P51003	PAPOA_HUMAN	poly(A) polymerase alpha	524	Ser/Thr-rich.	Interaction with RNA (By similarity).			mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cytoplasm|nucleoplasm	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|RNA binding				0		all_cancers(154;0.0555)|all_epithelial(191;0.149)|Melanoma(154;0.155)		COAD - Colon adenocarcinoma(157;0.213)		AGCAGCCTCGACTTGTCTATG	0.413													6	101	---	---	---	---	PASS	C	97018866	C	C	97018866	3	2	90	1	0	0	0	0	1	0	0	0	11429	275	10	5	1637	5	PAPOLA	14	97018866	Missense_Mutation	SNP	A	TCGA-39-5030-01A-01D-1441-08	32120585	97018866	10330674	228	33898										
HERC2	8924	broad.mit.edu	37	chr15	28493709	28493709	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gcaacttactagaaatatctGaggtctgaccaatactttct	6	9	3	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr15:28493709G>C	uc001zbj.2	-	21	3330	c.3224C>G	c.(3223-3225)TCA>TGA	p.S1075*		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1075					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		AGAAATATCTGAGGTCTGACC	0.393													3	51	---	---	---	---	PASS	C	28493709	C	C	28493709	4	2	90	1	0	0	0	0	0	1	0	0	7058	1294	45	2	11572	2	HERC2	15	28493709	Nonsense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08		28493709	74037683	229	33899										
ZFP106	64397	broad.mit.edu	37	chr15	42710039	42710039	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctagcagtgaaaaaagcatcGcagttcttccagcgacattt	8	10	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr15:42710039G>A	uc001zpw.2	-	18	5894	c.5559C>T	c.(5557-5559)TGC>TGT	p.C1853C	ZFP106_uc001zpu.2_Silent_p.C951C|ZFP106_uc001zpv.2_Silent_p.C1038C|ZFP106_uc001zpx.2_Silent_p.C1081C	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1853						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		AAAAAGCATCGCAGTTCTTCC	0.463													8	90	---	---	---	---	PASS	A	42710039	A	A	42710039	2	1	90	1	0	0	0	0	0	0	0	1	17634	1079	38	1		1	ZFP106	15	42710039	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	14216330	42710039	59821353	230	33900										
SPG11	80208	broad.mit.edu	37	chr15	44920876	44920876	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttcgtacttacctcaaagctGagtttcttccatatattgct	5	10	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr15:44920876G>C	uc001ztx.2	-	10	2089	c.2058C>G	c.(2056-2058)CTC>CTG	p.L686L	SPG11_uc010ueh.1_Silent_p.L686L|SPG11_uc010uei.1_Silent_p.L686L|SPG11_uc001zua.1_Silent_p.L686L	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	686	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		CCTCAAAGCTGAGTTTCTTCC	0.338													11	157	---	---	---	---	PASS	C	44920876	C	C	44920876	2	2	90	1	0	0	0	0	0	0	0	1	15040	1277	45	2		2	SPG11	15	44920876	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	2210837	44920876	57610516	231	33901										
C15orf33	196951	broad.mit.edu	37	chr15	49882125	49882125	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtgtataaattgaaacaaatGaactatcttcttttattttt	4	4	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr15:49882125G>A	uc001zxl.2	-	4	479	c.185C>T	c.(184-186)TCA>TTA	p.S62L	C15orf33_uc001zxm.2_Missense_Mutation_p.S62L	NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	62										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)		TGAAACAAATGAACTATCTTC	0.308													10	102	---	---	---	---	PASS	A	49882125	A	A	49882125	3	1	90	1	0	0	0	0	1	0	0	0	1791	1294	45	2	1393	2	C15orf33	15	49882125	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	4961249	49882125	52649267	232	33902										
IGDCC4	57722	broad.mit.edu	37	chr15	65682603	65682603	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggctttttccaccgaagccaGatggatgtggagctgtttga	13	8	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr15:65682603G>A	uc002aou.1	-	13	2508	c.2298C>T	c.(2296-2298)ATC>ATT	p.I766I	IGDCC4_uc002aot.1_Silent_p.I354I	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	766	Fibronectin type-III 4.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						ACCGAAGCCAGATGGATGTGG	0.552													7	89	---	---	---	---	PASS	A	65682603	A	A	65682603	2	1	90	1	0	0	0	0	0	0	0	1	7569	932	33	2		2	IGDCC4	15	65682603	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	15800478	65682603	36848789	233	33903										
SMAD3	4088	broad.mit.edu	37	chr15	67358513	67358513	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atgtcgtccatcctgcctttCactcccccgatcgtgaagcg	8	16	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr15:67358513C>T	uc002aqj.2	+	1	319	c.21C>T	c.(19-21)TTC>TTT	p.F7F		NM_005902	NP_005893	P84022	SMAD3_HUMAN	mothers against decapentaplegic homolog 3	7					activation of caspase activity|cell cycle arrest|cell-cell junction organization|evasion of host defenses by virus|immune response|induction of apoptosis|negative regulation of cell growth|negative regulation of mitotic cell cycle|negative regulation of protein catabolic process|negative regulation of protein phosphorylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|protein stabilization|regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|transport|wound healing	cytosol|nuclear inner membrane|receptor complex	beta-catenin binding|co-SMAD binding|metal ion binding|protein homodimerization activity|protein kinase binding|R-SMAD binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor binding|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|ubiquitin protein ligase binding			large_intestine(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5				Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(7;0.125)		TCCTGCCTTTCACTCCCCCGA	0.537													3	13	---	---	---	---	PASS	T	67358513	T	T	67358513	2	4	90	1	0	0	0	0	0	0	0	1	14759	825	29	2		2	SMAD3	15	67358513	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	1675910	67358513	35172879	234	33904										
RASGRF1	5923	broad.mit.edu	37	chr15	79339219	79339219	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	acgtactcagcctcagcctcCagcatgctgaacaccacctg	7	17	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr15:79339219C>T	uc002beq.2	-	5	1122	c.747G>A	c.(745-747)CTG>CTA	p.L249L	RASGRF1_uc002bep.2_Silent_p.L249L|RASGRF1_uc010blm.1_Silent_p.L171L|RASGRF1_uc002ber.3_Silent_p.L249L	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	249	DH.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						CCTCAGCCTCCAGCATGCTGA	0.602													11	104	---	---	---	---	PASS	T	79339219	T	T	79339219	2	4	90	1	0	0	0	0	0	0	0	1	13072	581	21	3		3	RASGRF1	15	79339219	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	11980706	79339219	23192173	235	33905										
ZNF592	9640	broad.mit.edu	37	chr15	85327190	85327190	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccaggggatgaggtgcctgtGgaagagcactttcctgaggc	16	9	0	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr15:85327190G>T	uc002bld.2	+	4	1620	c.1284G>T	c.(1282-1284)GTG>GTT	p.V428V	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	428					cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			AGGTGCCTGTGGAAGAGCACT	0.597													6	84	---	---	---	---	PASS	T	85327190	T	T	85327190	2	4	90	1	0	0	0	0	0	0	0	1	18019	1335	47	3		3	ZNF592	15	85327190	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	5987971	85327190	17204202	236	33906										
TTC23	64927	broad.mit.edu	37	chr15	99758814	99758814	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtgcaaatgataatctgatcCgtgcttcaatttctatccat	6	9	3	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr15:99758814C>T	uc002bur.2	-	7	1091	c.560G>A	c.(559-561)CGG>CAG	p.R187Q	TTC23_uc002bus.2_Missense_Mutation_p.R187Q|TTC23_uc002but.2_Missense_Mutation_p.R187Q|TTC23_uc002buu.2_Missense_Mutation_p.R187Q|TTC23_uc002buv.2_Missense_Mutation_p.R187Q|TTC23_uc002bux.2_Missense_Mutation_p.R187Q|TTC23_uc002buw.2_Missense_Mutation_p.R187Q|TTC23_uc010boq.2_RNA|TTC23_uc002buy.2_Missense_Mutation_p.R187Q|TTC23_uc010bor.2_Missense_Mutation_p.R187Q|TTC23_uc002buz.2_Missense_Mutation_p.R187Q	NM_022905	NP_075056	Q5W5X9	TTC23_HUMAN	tetratricopeptide repeat domain 23	187	TPR 3.						binding				0	all_cancers(4;1.49e-13)|Lung NSC(78;0.000545)|all_lung(78;0.00121)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		all cancers(5;8.11e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00215)			TAATCTGATCCGTGCTTCAAT	0.408													4	175	---	---	---	---	PASS	T	99758814	T	T	99758814	3	4	90	1	0	0	0	0	1	0	0	0	16687	652	23	1	811	1	TTC23	15	99758814	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	14431624	99758814	2772578	237	33907										
MYH11	4629	broad.mit.edu	37	chr16	15814831	15814831	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tccgtggcttgcagctcgtcCtccagctcttccagctgcgt	10	16	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr16:15814831C>A	uc002ddy.2	-	33	4763	c.4656G>T	c.(4654-4656)GAG>GAT	p.E1552D	MYH11_uc002ddv.2_Missense_Mutation_p.E1559D|MYH11_uc002ddw.2_Missense_Mutation_p.E1552D|MYH11_uc002ddx.2_Missense_Mutation_p.E1559D|MYH11_uc010bvg.2_Missense_Mutation_p.E1384D|NDE1_uc010uzy.1_Intron|NDE1_uc002dds.2_Intron|MYH11_uc010bvh.2_Missense_Mutation_p.E258D|NDE1_uc002ddz.1_5'Flank	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1552	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						GCAGCTCGTCCTCCAGCTCTT	0.642			T	CBFB	AML								10	109	---	---	---	---	PASS	A	15814831	A	A	15814831	3	1	90	1	0	0	0	0	1	0	0	0	10031	680	24	3	1333	3	MYH11	16	15814831	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08		15814831	74539922	238	33908										
GDE1	51573	broad.mit.edu	37	chr16	19516332	19516332	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtttccagaaagtatcatagCgtggtttcccatctcctgta	8	10	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr16:19516332C>T	uc002dgh.2	-	5	883	c.719G>A	c.(718-720)CGC>CAC	p.R240H	GDE1_uc002dgi.2_Missense_Mutation_p.R130H	NM_016641	NP_057725	Q9NZC3	GDE1_HUMAN	glycerophosphodiester phosphodiesterase 1	240	Lumenal (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	cytoplasm|integral to membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol glycerophosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3						AGTATCATAGCGTGGTTTCCC	0.408													6	223	---	---	---	---	PASS	T	19516332	T	T	19516332	3	4	90	1	0	0	0	0	1	0	0	0	6310	768	27	1	284	1	GDE1	16	19516332	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	3701501	19516332	70838421	239	33909										
ARHGAP17	55114	broad.mit.edu	37	chr16	24980023	24980023	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtccacgatctccttctcaaCaaagacttcgtgctgggaga	9	12	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr16:24980023C>T	uc002dnb.2	-	5	436	c.343G>A	c.(343-345)GTT>ATT	p.V115I	ARHGAP17_uc002dnc.2_Missense_Mutation_p.V115I|ARHGAP17_uc010vcf.1_5'UTR|ARHGAP17_uc002dnf.2_Missense_Mutation_p.V23I|ARHGAP17_uc002dng.1_Missense_Mutation_p.V115I	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	115	BAR.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		TCCTTCTCAACAAAGACTTCG	0.552													12	189	---	---	---	---	PASS	T	24980023	T	T	24980023	3	4	90	1	0	0	0	0	1	0	0	0	867	478	17	3	2366	3	ARHGAP17	16	24980023	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	5463691	24980023	65374730	240	33910										
KCTD13	253980	broad.mit.edu	37	chr16	29922394	29922394	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gaaagaccagcagcagatctCgtcccccaggacatccttga	9	14	1	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr16:29922394C>T	uc002duv.2	-	5	849	c.658G>A	c.(658-660)GAG>AAG	p.E220K	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|ASPHD1_uc002duu.3_Intron|ASPHD1_uc010bzi.2_Intron|KCTD13_uc010vee.1_RNA	NM_178863	NP_849194	Q8WZ19	BACD1_HUMAN	potassium channel tetramerisation domain	220					cell migration|DNA replication|negative regulation of Rho protein signal transduction|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|nucleus|voltage-gated potassium channel complex	GTP-Rho binding|voltage-gated potassium channel activity				0						CAGCAGATCTCGTCCCCCAGG	0.562													10	79	---	---	---	---	PASS	T	29922394	T	T	29922394	3	4	90	1	0	0	0	0	1	0	0	0	8100	893	31	2	339	2	KCTD13	16	29922394	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	4942371	29922394	60432359	241	33911										
FTO	79068	broad.mit.edu	37	chr16	53844090	53844090	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gagcttgaagacacttggctCccttatctgacccccaaaga	8	13	1	4			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr16:53844090C>T	uc002ehr.2	+	2	306	c.84C>T	c.(82-84)CTC>CTT	p.L28L	FTO_uc010vha.1_5'UTR	NM_001080432	NP_001073901	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	28					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						ACACTTGGCTCCCTTATCTGA	0.264													8	81	---	---	---	---	PASS	T	53844090	T	T	53844090	2	4	90	1	0	0	0	0	0	0	0	1	6086	842	30	2		2	FTO	16	53844090	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	23921696	53844090	36510663	242	33912										
PSKH1	5681	broad.mit.edu	37	chr16	67943531	67943531	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gcctacatcctactcagtggCaccatgccgtttgaggatga	10	12	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr16:67943531C>T	uc002euv.2	+	2	1049	c.879C>T	c.(877-879)GGC>GGT	p.G293G	PSKH1_uc010cet.2_Silent_p.G293G	NM_006742	NP_006733	P11801	KPSH1_HUMAN	protein serine kinase H1	293	Protein kinase.					endoplasmic reticulum membrane|Golgi apparatus|microtubule organizing center|nuclear speck|plasma membrane	ATP binding|protein serine/threonine kinase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0044)|Epithelial(162;0.0197)|all cancers(182;0.128)		TACTCAGTGGCACCATGCCGT	0.587													5	74	---	---	---	---	PASS	T	67943531	T	T	67943531	2	4	90	1	0	0	0	0	0	0	0	1	12664	697	25	3		3	PSKH1	16	67943531	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	14099441	67943531	22411222	243	33913										
FOXC2	2303	broad.mit.edu	37	chr16	86601394	86601394	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tactggaccctggacccggaCtcctacaacatgttcgagaa	9	13	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr16:86601394C>A	uc002fjq.2	+	1	538	c.453C>A	c.(451-453)GAC>GAA	p.D151E		NM_005251	NP_005242	Q99958	FOXC2_HUMAN	forkhead box C2	151	Fork-head.				anti-apoptosis|artery morphogenesis|blood vessel remodeling|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|embryonic viscerocranium morphogenesis|insulin receptor signaling pathway|lymphangiogenesis|metanephros development|negative regulation of transcription from RNA polymerase II promoter|neural crest cell fate commitment|Notch signaling pathway|ossification|paraxial mesodermal cell fate commitment|patterning of blood vessels|positive regulation of cell adhesion mediated by integrin|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of vascular wound healing|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|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 factor binding|transcription regulatory region DNA binding				0						TGGACCCGGACTCCTACAACA	0.622									Late-onset_Hereditary_Lymphedema				10	99	---	---	---	---	PASS	A	86601394	A	A	86601394	3	1	90	1	0	0	0	0	1	0	0	0	5995	564	20	3	455	3	FOXC2	16	86601394	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	18657863	86601394	3753359	244	33914										
KIF1C	10749	broad.mit.edu	37	chr17	4908161	4908161	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtcacccaggtatgctgaccGcaccaagcaaatccgctgca	9	15	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:4908161G>A	uc002gan.1	+	13	1357	c.1031G>A	c.(1030-1032)CGC>CAC	p.R344H		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	344					microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						TATGCTGACCGCACCAAGCAA	0.612													5	129	---	---	---	---	PASS	A	4908161	A	A	4908161	3	1	90	1	0	0	0	0	1	0	0	0	8285	1087	38	1	1073	1	KIF1C	17	4908161	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08		4908161	76287049	245	33915										
TEKT1	83659	broad.mit.edu	37	chr17	6704111	6704111	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gaacctccttcattagcctaTattgtgcgacatcacgacac	6	13	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:6704111T>C	uc002gdt.2	-	7	1114	c.1004A>G	c.(1003-1005)TAT>TGT	p.Y335C	TEKT1_uc010vth.1_Missense_Mutation_p.Y189C	NM_053285	NP_444515	Q969V4	TEKT1_HUMAN	tektin 1	335	Potential.				microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|skin(1)	2		Myeloproliferative disorder(207;0.0255)				CATTAGCCTATATTGTGCGAC	0.507											OREG0024124	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	202	---	---	---	---	PASS	C	6704111	C	C	6704111	3	2	90	1	0	0	0	0	1	0	0	0	15749	1406	49	5	260	5	TEKT1	17	6704111	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	1795950	6704111	74491099	246	33916										
PER1	5187	broad.mit.edu	37	chr17	8049287	8049287	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cacccatacccgactccgggGgcttcttgtctcccacatgg	9	17	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:8049287G>T	uc002gkd.2	-	17	2445	c.2207C>A	c.(2206-2208)CCC>CAC	p.P736H	PER1_uc010vuq.1_RNA|PER1_uc010vur.1_Missense_Mutation_p.P720H	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	736	CSNK1E binding domain (By similarity).				circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						CGACTCCGGGGGCTTCTTGTC	0.637			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					13	108	---	---	---	---	PASS	T	8049287	T	T	8049287	3	4	90	1	0	0	0	0	1	0	0	0	11729	1232	43	3	1693	3	PER1	17	8049287	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	1345176	8049287	73145923	247	33917										
RICH2	9912	broad.mit.edu	37	chr17	12883479	12883479	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcaaccaggggctcaacctgGagctcagccgggcgccagcc	13	16	3	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:12883479G>C	uc002gnr.3	+	19	2195	c.1868G>C	c.(1867-1869)GGA>GCA	p.G623A	RICH2_uc010vvk.1_Missense_Mutation_p.G623A|RICH2_uc010vvl.1_Missense_Mutation_p.G617A|RICH2_uc002gns.3_Missense_Mutation_p.G417A|RICH2_uc010vvm.1_Missense_Mutation_p.G617A|RICH2_uc010vvn.1_Intron	NM_014859	NP_055674	Q17R89	RHG44_HUMAN	Rho GTPase-activating protein RICH2	623					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						GCTCAACCTGGAGCTCAGCCG	0.627													9	30	---	---	---	---	PASS	C	12883479	C	C	12883479	3	2	90	1	0	0	0	0	1	0	0	0	13357	1174	41	2	1942	2	RICH2	17	12883479	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	4834192	12883479	68311731	248	33918										
TTC19	54902	broad.mit.edu	37	chr17	15907564	15907564	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aaagctggccagtatctatgCtgcgcagaacaggtaagtac	11	9	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:15907564C>G	uc002gph.1	+	6	950	c.932C>G	c.(931-933)GCT>GGT	p.A311G	TTC19_uc010cox.1_RNA	NM_017775	NP_060245	Q6DKK2	TTC19_HUMAN	tetratricopeptide repeat domain 19	190	TPR 2.				cell cycle|cytokinesis|mitochondrial respiratory chain complex III assembly	centrosome|midbody|mitochondrial inner membrane	protein binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		AGTATCTATGCTGCGCAGAAC	0.418													11	128	---	---	---	---	PASS	G	15907564	G	G	15907564	3	3	90	1	0	0	0	0	1	0	0	0	16683	797	28	4	954	4	TTC19	17	15907564	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	3024085	15907564	65287646	249	33919										
NLK	51701	broad.mit.edu	37	chr17	26518101	26518101	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	acccctacctagatgaagggCgactacgatatcacacatgt	8	12	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:26518101C>T	uc010crj.2	+	9	1503	c.1291C>T	c.(1291-1293)CGA>TGA	p.R431*	NLK_uc010cri.1_RNA	NM_016231	NP_057315	Q9UBE8	NLK_HUMAN	nemo like kinase	431					intracellular protein kinase cascade|negative regulation of Wnt receptor signaling pathway|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|serine phosphorylation of STAT3 protein|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|MAP kinase activity|SH2 domain binding|transcription factor binding|ubiquitin protein ligase binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_lung(13;0.000343)|Lung NSC(42;0.00184)			UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		AGATGAAGGGCGACTACGATA	0.423													9	122	---	---	---	---	PASS	T	26518101	T	T	26518101	4	4	90	1	0	0	0	0	0	1	0	0	10466	760	27	1	1325	1	NLK	17	26518101	Nonsense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	10610537	26518101	54677109	250	33920										
NEK8	284086	broad.mit.edu	37	chr17	27066122	27066122	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cccaccattgtggaggctttGctgggctatgaaatggtgca	13	9	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:27066122G>A	uc002hcp.2	+	10	1320	c.1320G>A	c.(1318-1320)TTG>TTA	p.L440L		NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	440	RCC1 2.					cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					TGGAGGCTTTGCTGGGCTATG	0.587													7	147	---	---	---	---	PASS	A	27066122	A	A	27066122	2	1	90	1	0	0	0	0	0	0	0	1	10330	1310	46	3		3	NEK8	17	27066122	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	548021	27066122	54129088	251	33921										
KRT12	3859	broad.mit.edu	37	chr17	39017927	39017927	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gaaattttacattagttcttCaatttcctgaacttgagatg	6	6	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:39017927C>G	uc002hvk.2	-	8	1495	c.1471G>C	c.(1471-1473)GAA>CAA	p.E491Q		NM_000223	NP_000214	Q99456	K1C12_HUMAN	keratin 12	491	Tail.				visual perception	intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				ATTAGTTCTTCAATTTCCTGA	0.373													10	121	---	---	---	---	PASS	G	39017927	G	G	39017927	3	3	90	1	0	0	0	0	1	0	0	0	8449	835	29	2	17	2	KRT12	17	39017927	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	11951805	39017927	42177283	252	33922										
CNTNAP1	8506	broad.mit.edu	37	chr17	40837258	40837258	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ccgacatactctatttcgacGgcgacgatgccatctcctac	7	15	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:40837258G>A	uc002iay.2	+	5	751	c.535G>A	c.(535-537)GGC>AGC	p.G179S	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	179	Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		CTATTTCGACGGCGACGATGC	0.627													4	127	---	---	---	---	PASS	A	40837258	A	A	40837258	3	1	90	1	0	0	0	0	1	0	0	0	3646	1116	39	1	553	1	CNTNAP1	17	40837258	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	1819331	40837258	40357952	253	33923										
DHX8	1659	broad.mit.edu	37	chr17	41570888	41570888	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gccaatgtagctgatgtcgtGagcaaaggccagagggtcaa	14	8	1	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:41570888G>C	uc002idu.1	+	7	1012	c.939G>C	c.(937-939)GTG>GTC	p.V313V	DHX8_uc010wif.1_Silent_p.V222V|DHX8_uc010wig.1_Silent_p.V313V	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	313	S1 motif.					catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		CTGATGTCGTGAGCAAAGGCC	0.572													11	137	---	---	---	---	PASS	C	41570888	C	C	41570888	2	2	90	1	0	0	0	0	0	0	0	1	4515	1277	45	2		2	DHX8	17	41570888	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	733630	41570888	39624322	254	33924										
TTLL6	284076	broad.mit.edu	37	chr17	46863659	46863659	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcttcttcatttggaagggcTttttctcccgttttagtctc	7	10	5	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:46863659T>G	uc010wlo.1	-	13	1663	c.1628A>C	c.(1627-1629)AAG>ACG	p.K543T	TTLL6_uc002iob.2_Missense_Mutation_p.K236T|TTLL6_uc010dbi.2_RNA|TTLL6_uc002ioc.2_Missense_Mutation_p.K296T|TTLL6_uc002iod.2_Missense_Mutation_p.K390T	NM_001130918	NP_001124390	Q8N841	TTLL6_HUMAN	tubulin tyrosine ligase-like family, member 6	495						cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity				0						TTGGAAGGGCTTTTTCTCCCG	0.522													10	462	---	---	---	---	PASS	G	46863659	G	G	46863659	3	3	90	1	0	0	0	0	1	0	0	0	16728	1609	56	5	1063	5	TTLL6	17	46863659	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	5292771	46863659	34331551	255	33925										
PHB	5245	broad.mit.edu	37	chr17	47482457	47482457	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cctctgcagcttccagcttgCgcagctcgatcaggccatcc	9	17	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:47482457C>T	uc002iox.1	-	7	789	c.716G>A	c.(715-717)CGC>CAC	p.R239H		NM_002634	NP_002625	P35232	PHB_HUMAN	prohibitin	239					cellular response to interleukin-6|DNA replication|glucocorticoid receptor signaling pathway|histone deacetylation|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|progesterone receptor signaling pathway|regulation of apoptosis	integral to plasma membrane|mitochondrial inner membrane|nucleoplasm	histone deacetylase binding|transcription regulatory region DNA binding				0	all_cancers(4;2.62e-14)|Breast(4;4.21e-29)|all_epithelial(4;6.9e-18)		Epithelial(5;8.1e-06)|all cancers(6;7.71e-05)			TTCCAGCTTGCGCAGCTCGAT	0.622													3	18	---	---	---	---	PASS	T	47482457	T	T	47482457	3	4	90	1	0	0	0	0	1	0	0	0	11814	768	27	1	106	1	PHB	17	47482457	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	618798	47482457	33712753	256	33926										
EME1	146956	broad.mit.edu	37	chr17	48458295	48458295	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atctctctttagatagtgctGactgattctagccctcaggg	9	10	4	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:48458295G>C	uc002iqs.1	+	9	1781	c.1708G>C	c.(1708-1710)GAC>CAC	p.D570H	EME1_uc010dbp.1_Missense_Mutation_p.D583H|EME1_uc010dbq.1_RNA|uc010wmk.1_5'Flank	NM_152463	NP_689676	Q96AY2	EME1_HUMAN	essential meiotic endonuclease 1 homolog 1	570					DNA recombination|DNA repair	nucleolus	DNA binding|endonuclease activity|metal ion binding|protein binding				0	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			AGATAGTGCTGACTGATTCTA	0.502								Direct_reversal_of_damage|Homologous_recombination					4	77	---	---	---	---	PASS	C	48458295	C	C	48458295	3	2	90	1	0	0	0	0	1	0	0	0	5088	1290	45	2	1777	2	EME1	17	48458295	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	975838	48458295	32736915	257	33927										
WFIKKN2	124857	broad.mit.edu	37	chr17	48917580	48917580	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tggtcaggggtcatcaggctGcagccacctcagagagcagc	14	12	4	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:48917580G>T	uc002isv.3	+	2	1625	c.931G>T	c.(931-933)GCA>TCA	p.A311S	WFIKKN2_uc010dbu.2_Missense_Mutation_p.A218S	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	311						extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			TCATCAGGCTGCAGCCACCTC	0.662													7	62	---	---	---	---	PASS	T	48917580	T	T	48917580	3	4	90	1	0	0	0	0	1	0	0	0	17356	1319	46	3	937	3	WFIKKN2	17	48917580	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	459285	48917580	32277630	258	33928										
RNFT1	51136	broad.mit.edu	37	chr17	58040334	58040334	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cagtatcatcagtcagccttGcttcactgtgggagtgaccc	10	12	4	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:58040334G>A	uc002iya.2	-	2	461	c.368C>T	c.(367-369)GCA>GTA	p.A123V	uc002iye.1_5'Flank|RNFT1_uc002iyb.2_RNA|RNFT1_uc002iyc.2_5'UTR|RNFT1_uc010wop.1_Missense_Mutation_p.A123V|RNFT1_uc002iyd.3_Missense_Mutation_p.A123V	NM_016125	NP_057209	Q5M7Z0	RNFT1_HUMAN	PTD016 protein	123						integral to membrane	zinc ion binding				0	all_cancers(5;1.58e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;7.95e-12)|all cancers(12;1.34e-10)			AGTCAGCCTTGCTTCACTGTG	0.483													5	122	---	---	---	---	PASS	A	58040334	A	A	58040334	3	1	90	1	0	0	0	0	1	0	0	0	13501	1319	46	3	971	3	RNFT1	17	58040334	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	9122754	58040334	23154876	259	33929										
AXIN2	8313	broad.mit.edu	37	chr17	63554607	63554607	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	acaggcatgggtttggtgacCtggcccttgcccacccctgg	13	14	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:63554607C>T	uc002jfi.2	-	2	421	c.132G>A	c.(130-132)CAG>CAA	p.Q44Q	AXIN2_uc010den.1_Silent_p.Q44Q|AXIN2_uc002jfh.2_Silent_p.Q44Q|AXIN2_uc002jfj.1_Silent_p.Q44Q	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	44				QPGVGKGQVTKPMSVSSNTRRNEDGL -> HHGGQGPGHQT HVCLFQHQAERRWV (in Ref. 2; AAF22799).	cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						GTTTGGTGACCTGGCCCTTGC	0.682									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				5	100	---	---	---	---	PASS	T	63554607	T	T	63554607	2	4	90	1	0	0	0	0	0	0	0	1	1237	680	24	3		3	AXIN2	17	63554607	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	5514273	63554607	17640603	260	33930										
PRPSAP1	5635	broad.mit.edu	37	chr17	74308994	74308994	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcaggcgaggggcctctgcaGacaggatgccgtgggtggcc	18	11	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr17:74308994G>C	uc010wta.1	-	9	1402	c.956C>G	c.(955-957)TCT>TGT	p.S319C	PRPSAP1_uc010wtb.1_Missense_Mutation_p.S216C	NM_002766	NP_002757	Q14558	KPRA_HUMAN	phosphoribosyl pyrophosphate	290					nucleotide biosynthetic process		enzyme inhibitor activity|identical protein binding|magnesium ion binding|ribose phosphate diphosphokinase activity			ovary(1)	1						GGCCTCTGCAGACAGGATGCC	0.502													15	108	---	---	---	---	PASS	C	74308994	C	C	74308994	3	2	90	1	0	0	0	0	1	0	0	0	12581	942	33	2	209	2	PRPSAP1	17	74308994	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	10754387	74308994	6886216	261	33931										
TXNDC2	84203	broad.mit.edu	37	chr18	9886977	9886977	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctgggcaatattcccaaggcCtcagtgaagcccagccagcc	10	15	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr18:9886977C>A	uc002koi.3	+	2	950	c.501C>A	c.(499-501)GCC>GCA	p.A167A	TXNDC2_uc010wzq.1_Intron|TXNDC2_uc002koh.3_Silent_p.A100A	NM_001098529	NP_001091999	Q86VQ3	TXND2_HUMAN	thioredoxin domain-containing 2 isoform 2	167	22 X 15 AA approximate tandem repeat of Q-P-K-X-G-D-I-P-K-S-[PS]-E-[KE]-X-I.|4.				cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	cytoplasm	electron carrier activity|nutrient reservoir activity|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity			ovary(1)|pancreas(1)	2						TTCCCAAGGCCTCAGTGAAGC	0.552													7	229	---	---	---	---	PASS	A	9886977	A	A	9886977	2	1	90	1	0	0	0	0	0	0	0	1	16794	668	24	3		3	TXNDC2	18	9886977	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08		9886977	68190271	262	33932										
CABLES1	91768	broad.mit.edu	37	chr18	20768804	20768804	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttttccttctttctgcagacGgcgcctcatctcccagagat	7	14	4	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr18:20768804G>A	uc002kuc.2	+	2	848	c.848G>A	c.(847-849)CGG>CAG	p.R283Q	CABLES1_uc002kub.2_5'UTR|CABLES1_uc002kud.2_Missense_Mutation_p.R18Q	NM_001100619	NP_001094089	Q8TDN4	CABL1_HUMAN	Cdk5 and Abl enzyme substrate 1 isoform 2	283	Interacts with CDK3 (By similarity).				blood coagulation|cell cycle|cell division|regulation of cell cycle|regulation of cell division	cytosol|nucleus	cyclin-dependent protein kinase regulator activity|protein binding			breast(1)	1	all_cancers(21;0.000102)|all_epithelial(16;2.48e-06)|Lung NSC(20;0.00696)|all_lung(20;0.0197)|Colorectal(14;0.0202)|Ovarian(20;0.127)					TTCTGCAGACGGCGCCTCATC	0.408													4	61	---	---	---	---	PASS	A	20768804	A	A	20768804	3	1	90	1	0	0	0	0	1	0	0	0	2529	1116	39	1	908	1	CABLES1	18	20768804	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	10881827	20768804	57308444	263	33933										
RNF152	220441	broad.mit.edu	37	chr18	59483590	59483590	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcatctgctgcaggcacactGaacagcaggtgtgcttgcag	12	11	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr18:59483590G>A	uc002lih.1	-	2	519	c.107C>T	c.(106-108)TCA>TTA	p.S36L		NM_173557	NP_775828	Q8N8N0	RN152_HUMAN	ring finger protein 152	36	RING-type.				apoptosis|protein K48-linked ubiquitination	integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			breast(1)	1		Colorectal(73;0.186)				CAGGCACACTGAACAGCAGGT	0.612													13	106	---	---	---	---	PASS	A	59483590	A	A	59483590	3	1	90	1	0	0	0	0	1	0	0	0	13453	1294	45	2	508	2	RNF152	18	59483590	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	38714786	59483590	18593658	264	33934										
GALR1	2587	broad.mit.edu	37	chr18	74962959	74962959	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cctcagggtgtcccgcaacgCgctgctgggcgtgggctgca	16	14	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr18:74962959C>T	uc002lms.3	+	1	952	c.455C>T	c.(454-456)GCG>GTG	p.A152V		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	152	Helical; Name=4; (Potential).				digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		TCCCGCAACGCGCTGCTGGGC	0.692													8	70	---	---	---	---	PASS	T	74962959	T	T	74962959	3	4	90	1	0	0	0	0	1	0	0	0	6227	768	27	1	457	1	GALR1	18	74962959	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	15479369	74962959	3114289	265	33935										
POLR2E	5434	broad.mit.edu	37	chr19	1090909	1090909	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tccgcggcgcgcgcccacctCgtgctccgtgatgttgatga	13	15	0	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:1090909C>T	uc002lre.3	-	4	504	c.427G>A	c.(427-429)GAG>AAG	p.E143K	POLR2E_uc010xgf.1_RNA	NM_002695	NP_002686	P19388	RPAB1_HUMAN	DNA directed RNA polymerase II polypeptide E	143					interspecies interaction between organisms|mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase II promoter|transcription elongation from RNA polymerase III promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGCCCACCTCGTGCTCCGTG	0.647													6	52	---	---	---	---	PASS	T	1090909	T	T	1090909	3	4	90	1	0	0	0	0	1	0	0	0	12218	893	31	2	221	2	POLR2E	19	1090909	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08		1090909	58038074	266	33936										
AES	166	broad.mit.edu	37	chr19	3061229	3061229	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gagtccgaggtggtgaatttGagttgctggggtaggtgcga	19	4	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:3061229G>C	uc002lwy.1	-	2	227	c.54C>G	c.(52-54)CTC>CTG	p.L18L	AES_uc002lwz.1_Silent_p.L18L|AES_uc002lxa.1_5'UTR|AES_uc002lxb.1_Silent_p.L85L|AES_uc002lxc.2_Silent_p.L85L	NM_001130	NP_001121	Q08117	AES_HUMAN	amino-terminal enhancer of split isoform b	18	Gln-rich (Q domain).				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of response to cytokine stimulus|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|response to interleukin-1|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGTGAATTTGAGTTGCTGGG	0.652													17	205	---	---	---	---	PASS	C	3061229	C	C	3061229	2	2	90	1	0	0	0	0	0	0	0	1	352	1277	45	2		2	AES	19	3061229	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	1970320	3061229	56067754	267	33937										
LONP1	9361	broad.mit.edu	37	chr19	5711826	5711826	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtcctcgtggacaacgttctCtacctccaccatgagcacct	7	16	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:5711826C>G	uc002mcx.2	-	4	859	c.826G>C	c.(826-828)GAG>CAG	p.E276Q	LONP1_uc002mcy.2_Missense_Mutation_p.E212Q|LONP1_uc010duh.2_Missense_Mutation_p.E17Q|LONP1_uc010dui.2_Intron|LONP1_uc002mcz.2_Missense_Mutation_p.E80Q	NM_004793	NP_004784	P36776	LONM_HUMAN	mitochondrial lon peptidase 1 precursor	276	Lon.				cellular chaperone-mediated protein complex assembly|cellular response to oxidative stress|misfolded or incompletely synthesized protein catabolic process|mitochondrial DNA metabolic process|oxidation-dependent protein catabolic process|protein homooligomerization|response to hypoxia	mitochondrial nucleoid	ADP binding|ATP binding|ATP-dependent peptidase activity|DNA polymerase binding|G-quadruplex DNA binding|mitochondrial heavy strand promoter anti-sense binding|mitochondrial light strand promoter anti-sense binding|sequence-specific DNA binding|serine-type endopeptidase activity|single-stranded DNA binding|single-stranded RNA binding				0						ACAACGTTCTCTACCTCCACC	0.672													9	136	---	---	---	---	PASS	G	5711826	G	G	5711826	3	3	90	1	0	0	0	0	1	0	0	0	8892	922	32	2	2113	2	LONP1	19	5711826	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	2650597	5711826	53417157	268	33938										
VAV1	7409	broad.mit.edu	37	chr19	6828713	6828713	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aatttccagctgtccattgaGaacctggtgaggcggtggag	14	8	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:6828713G>C	uc002mfu.1	+	12	1270	c.1173G>C	c.(1171-1173)GAG>GAC	p.E391D	VAV1_uc010xjh.1_Missense_Mutation_p.E359D|VAV1_uc010dva.1_Missense_Mutation_p.E391D|VAV1_uc002mfv.1_Missense_Mutation_p.E336D	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	391					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						TGTCCATTGAGAACCTGGTGA	0.627													19	229	---	---	---	---	PASS	C	6828713	C	C	6828713	3	2	90	1	0	0	0	0	1	0	0	0	17128	933	33	2	1219	2	VAV1	19	6828713	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	1116887	6828713	52300270	269	33939										
MUC16	94025	broad.mit.edu	37	chr19	9065822	9065822	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtaataaacattggtgatgtGgctttggatgtctctgagtc	12	5	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:9065822G>T	uc002mkp.2	-	3	21828	c.21624C>A	c.(21622-21624)GCC>GCA	p.A7208A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7210	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTGGTGATGTGGCTTTGGATG	0.473													20	179	---	---	---	---	PASS	T	9065822	T	T	9065822	2	4	90	1	0	0	0	0	0	0	0	1	9973	1335	47	3		3	MUC16	19	9065822	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	2237109	9065822	50063161	270	33940										
DDX39	10212	broad.mit.edu	37	chr19	14522397	14522397	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gctccctcgtgtggcacatgAccaggaccgtcacctgggaa	12	14	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:14522397A>G	uc010xnp.1	-	4	395	c.350T>C	c.(349-351)GTC>GCC	p.V117A	DDX39_uc002myo.2_Missense_Mutation_p.V117A|DDX39_uc010dzl.2_RNA|DDX39_uc010dzm.1_Missense_Mutation_p.V117A	NM_005804	NP_005795	O00148	DX39A_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39	117	Helicase ATP-binding.				mRNA export from nucleus|nuclear mRNA splicing, via spliceosome	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding				0						GTGGCACATGACCAGGACCGT	0.582													6	66	---	---	---	---	PASS	G	14522397	G	G	14522397	3	3	90	1	0	0	0	0	1	0	0	0	4357	275	10	5	965	5	DDX39	19	14522397	Missense_Mutation	SNP	A	TCGA-39-5030-01A-01D-1441-08	5456575	14522397	44606586	271	33941										
CYP4F11	57834	broad.mit.edu	37	chr19	16035633	16035633	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctgtccaaggtcatgaggctGatgtgttcaaacatgtccag	11	9	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:16035633G>A	uc002nbu.2	-	6	621	c.585C>T	c.(583-585)ATC>ATT	p.I195I	CYP4F11_uc010eab.1_Silent_p.I195I|CYP4F11_uc002nbt.2_Silent_p.I195I	NM_001128932	NP_001122404	Q9HBI6	CP4FB_HUMAN	cytochrome P450 family 4 subfamily F polypeptide	195					inflammatory response|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)	1						TCATGAGGCTGATGTGTTCAA	0.532													7	72	---	---	---	---	PASS	A	16035633	A	A	16035633	2	1	90	1	0	0	0	0	0	0	0	1	4186	1280	45	2		2	CYP4F11	19	16035633	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	1513236	16035633	43093350	272	33942										
SIN3B	23309	broad.mit.edu	37	chr19	16942351	16942351	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtgtctcgcagctcttccacGagcaccctgacctcattgtt	8	15	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:16942351G>A	uc002ney.1	+	3	288	c.274G>A	c.(274-276)GAG>AAG	p.E92K	SIN3B_uc002new.2_Missense_Mutation_p.E92K|SIN3B_uc002nex.2_Missense_Mutation_p.E24K|SIN3B_uc002nez.1_Missense_Mutation_p.E92K	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	92	Interaction with REST (By similarity).|PAH 1.				cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						GCTCTTCCACGAGCACCCTGA	0.453													7	241	---	---	---	---	PASS	A	16942351	A	A	16942351	3	1	90	1	0	0	0	0	1	0	0	0	14326	1059	37	2	284	2	SIN3B	19	16942351	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	906718	16942351	42186632	273	33943										
TSSK6	83983	broad.mit.edu	37	chr19	19625912	19625912	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gaggtcgcgcgcctgaactcCggggatgcgcccgttgcgct	16	14	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:19625912C>T	uc002nmr.2	-	1	558	c.325G>A	c.(325-327)GGA>AGA	p.G109R	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	109	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						GCCTGAACTCCGGGGATGCGC	0.637													6	61	---	---	---	---	PASS	T	19625912	T	T	19625912	3	4	90	1	0	0	0	0	1	0	0	0	16669	661	23	1	500	1	TSSK6	19	19625912	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	2683561	19625912	39503071	274	33944										
TSHZ3	57616	broad.mit.edu	37	chr19	31769840	31769840	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atggacactcaaatcctgcaGggactcaaaggagtggccac	11	11	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:31769840G>T	uc002nsy.3	-	2	924	c.859C>A	c.(859-861)CTG>ATG	p.L287M		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	287	C2H2-type 2.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					AAATCCTGCAGGGACTCAAAG	0.522													6	154	---	---	---	---	PASS	T	31769840	T	T	31769840	3	4	90	1	0	0	0	0	1	0	0	0	16622	991	35	3	2390	3	TSHZ3	19	31769840	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	12143928	31769840	27359143	275	33945										
ZNF567	163081	broad.mit.edu	37	chr19	37210533	37210533	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcattgatcatcagagaactCacacaggagagaaacccttt	7	10	4	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:37210533C>G	uc010xtl.1	+	6	1129	c.907C>G	c.(907-909)CAC>GAC	p.H303D	ZNF567_uc002oeo.1_Missense_Mutation_p.H303D|ZNF567_uc010xtk.1_Missense_Mutation_p.H303D|ZNF567_uc002oep.3_Missense_Mutation_p.H272D|ZNF567_uc002oeq.1_Missense_Mutation_p.H272D	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	303	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TCAGAGAACTCACACAGGAGA	0.423													3	56	---	---	---	---	PASS	G	37210533	G	G	37210533	3	3	90	1	0	0	0	0	1	0	0	0	17995	826	29	2	824	2	ZNF567	19	37210533	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	5440693	37210533	21918450	276	33946										
PSG11	5680	broad.mit.edu	37	chr19	43523150	43523150	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	taagatcacagtctccatggCctccctggggtttaagttgc	10	11	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:43523150C>T	uc002ovm.1	-	3	588	c.481G>A	c.(481-483)GCC>ACC	p.A161T	PSG11_uc002ouw.2_Missense_Mutation_p.A167T|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Missense_Mutation_p.A167T|PSG11_uc002ovn.1_Missense_Mutation_p.A167T|PSG11_uc002ovo.1_Missense_Mutation_p.A39T|PSG11_uc002ovp.1_Missense_Mutation_p.A39T	NM_002785	NP_002776	Q9UQ72	PSG11_HUMAN	pregnancy specific beta-1-glycoprotein 11	161	Ig-like C2-type 1.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				GTCTCCATGGCCTCCCTGGGG	0.522													17	311	---	---	---	---	PASS	T	43523150	T	T	43523150	3	4	90	1	0	0	0	0	1	0	0	0	12654	739	26	3	538	3	PSG11	19	43523150	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	6312617	43523150	15605833	277	33947										
RCN3	57333	broad.mit.edu	37	chr19	50046438	50046438	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtcaggccaccaactatggcGaggacctgacccggcaccac	11	16	1	1	rs139927137	by1000genomes	TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:50046438G>A	uc002poj.2	+	7	1402	c.955G>A	c.(955-957)GAG>AAG	p.E319K		NM_020650	NP_065701	Q96D15	RCN3_HUMAN	reticulocalbin 3, EF-hand calcium binding domain	319						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)		CAACTATGGCGAGGACCTGAC	0.632													3	45	---	---	---	---	PASS	A	50046438	A	A	50046438	3	1	90	1	0	0	0	0	1	0	0	0	13181	1059	37	2	977	2	RCN3	19	50046438	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	6523288	50046438	9082545	278	33948										
ZNF614	80110	broad.mit.edu	37	chr19	52519532	52519532	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gctgatgtataataagagtgCgctttgtggtgaagccttta	12	5	0	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:52519532C>T	uc002pyj.2	-	5	1721	c.1319G>A	c.(1318-1320)CGC>CAC	p.R440H	ZNF614_uc002pyi.3_Intron|ZNF614_uc010epj.2_Missense_Mutation_p.R143H	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	440	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		AATAAGAGTGCGCTTTGTGGT	0.408													8	186	---	---	---	---	PASS	T	52519532	T	T	52519532	3	4	90	1	0	0	0	0	1	0	0	0	18036	768	27	1	442	1	ZNF614	19	52519532	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	2473094	52519532	6609451	279	33949										
PTPRH	5794	broad.mit.edu	37	chr19	55708603	55708603	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttgtaccacgtctcattggtCctgctggtctggttgaccca	10	12	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:55708603C>A	uc002qjq.2	-	9	1945	c.1872G>T	c.(1870-1872)AGG>AGT	p.R624S	PTPRH_uc010esv.2_Missense_Mutation_p.R446S|PTPRH_uc002qjs.2_Missense_Mutation_p.R631S	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	624	Extracellular (Potential).|Fibronectin type-III 7.				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)		TCTCATTGGTCCTGCTGGTCT	0.577													21	114	---	---	---	---	PASS	A	55708603	A	A	55708603	3	1	90	1	0	0	0	0	1	0	0	0	12803	854	30	2	1523	2	PTPRH	19	55708603	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	3189071	55708603	3420380	280	33950										
ZSCAN22	342945	broad.mit.edu	37	chr19	58849911	58849911	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ctcgaggaacagttctagtgCgtggccaaacctcacctccc	9	15	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:58849911C>T	uc002qsc.2	+	3	842	c.695C>T	c.(694-696)GCG>GTG	p.A232V	ZSCAN22_uc010yhz.1_Missense_Mutation_p.R227C	NM_181846	NP_862829	P10073	ZSC22_HUMAN	zinc finger and SCAN domain containing 22	232					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0289)		AGTTCTAGTGCGTGGCCAAAC	0.522													22	307	---	---	---	---	PASS	T	58849911	T	T	58849911	3	4	90	1	0	0	0	0	1	0	0	0	18231	768	27	1	701	1	ZSCAN22	19	58849911	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	3141308	58849911	279072	281	33951										
ZNF324B	388569	broad.mit.edu	37	chr19	58966636	58966636	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cacctgggatgactactagcGtcttcccagttgccgatgcc	10	14	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr19:58966636G>A	uc002qsv.1	+	4	432	c.325G>A	c.(325-327)GTC>ATC	p.V109I	ZNF324B_uc002qsu.1_Missense_Mutation_p.V99I|ZNF324B_uc010euq.1_Missense_Mutation_p.V109I	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	109					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		GACTACTAGCGTCTTCCCAGT	0.547													7	101	---	---	---	---	PASS	A	58966636	A	A	58966636	3	1	90	1	0	0	0	0	1	0	0	0	17842	1145	40	1	335	1	ZNF324B	19	58966636	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	116725	58966636	162347	282	33952										
XRN2	22803	broad.mit.edu	37	chr20	21328833	21328833	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atttcattatgcaccatttgCttcagactttgaaggcattg	7	8	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr20:21328833C>T	uc002wsf.1	+	18	1810	c.1715C>T	c.(1714-1716)GCT>GTT	p.A572V	XRN2_uc002wsg.1_Missense_Mutation_p.A496V|XRN2_uc010zsk.1_Missense_Mutation_p.A518V	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	572					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						GCACCATTTGCTTCAGACTTT	0.348													4	80	---	---	---	---	PASS	T	21328833	T	T	21328833	3	4	90	1	0	0	0	0	1	0	0	0	17457	797	28	3	1785	3	XRN2	20	21328833	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08		21328833	41696687	283	33953										
DLGAP4	22839	broad.mit.edu	37	chr20	35127697	35127697	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggaggacaacggacccaaagCgatcgatgtgatggcaccct	13	11	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr20:35127697C>T	uc002xff.2	+	9	2498	c.2063C>T	c.(2062-2064)GCG>GTG	p.A688V	DLGAP4_uc010zvp.1_Missense_Mutation_p.A688V|DLGAP4_uc002xfg.2_Intron|DLGAP4_uc002xfh.2_Intron|DLGAP4_uc002xfi.2_5'UTR|DLGAP4_uc002xfj.2_5'UTR	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				GGACCCAAAGCGATCGATGTG	0.433													4	88	---	---	---	---	PASS	T	35127697	T	T	35127697	3	4	90	1	0	0	0	0	1	0	0	0	4562	768	27	1	2124	1	DLGAP4	20	35127697	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	13798864	35127697	27897823	284	33954										
PTGIS	5740	broad.mit.edu	37	chr20	48164500	48164500	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtgcgaggctcccacaccacCgcgtcgtaggagtgtgggtc	15	13	0	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr20:48164500C>T	uc002xut.2	-	3	309	c.255G>A	c.(253-255)GCG>GCA	p.A85A	PTGIS_uc010zyi.1_Intron	NM_000961	NP_000952	Q16647	PTGIS_HUMAN	prostaglandin I2 synthase	85					hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|prostaglandin-I synthase activity			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(12;2.37e-05)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)		Phenylbutazone(DB00812)	CCCACACCACCGCGTCGTAGG	0.557													5	140	---	---	---	---	PASS	T	48164500	T	T	48164500	2	4	90	1	0	0	0	0	0	0	0	1	12752	639	23	1		1	PTGIS	20	48164500	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	13036803	48164500	14861020	285	33955										
TAF4	6874	broad.mit.edu	37	chr20	60578821	60578821	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttcagctggatctgctgaggCgtggtgagcatgatccggtt	15	8	2	3	rs140240263		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr20:60578821C>T	uc002ybs.2	-	8	2337	c.2337G>A	c.(2335-2337)ACG>ACA	p.T779T		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	779					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)			TCTGCTGAGGCGTGGTGAGCA	0.677													4	30	---	---	---	---	PASS	T	60578821	T	T	60578821	2	4	90	1	0	0	0	0	0	0	0	1	15523	755	27	1		1	TAF4	20	60578821	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	12414321	60578821	2446699	286	33956										
ZNF512B	57473	broad.mit.edu	37	chr20	62591483	62591483	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aggtgggtctgctgatgttcGgaaccagttctggggagaga	17	6	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr20:62591483G>A	uc002yhl.1	-	17	2491	c.2437C>T	c.(2437-2439)CGA>TGA	p.R813*		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	813					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					GCTGATGTTCGGAACCAGTTC	0.552													11	75	---	---	---	---	PASS	A	62591483	A	A	62591483	4	1	90	1	0	0	0	0	0	1	0	0	17954	1124	39	1	245	1	ZNF512B	20	62591483	Nonsense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	2012662	62591483	434037	287	33957										
MRAP	56246	broad.mit.edu	37	chr21	33684247	33684247	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	accctcaatgggggtcccctCgtcaggagcaagcccagcga	12	15	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr21:33684247C>T	uc002ypj.2	+	5	646	c.459C>T	c.(457-459)CTC>CTT	p.L153L	MRAP_uc002ypk.2_Intron|URB1_uc002ypn.2_3'UTR|MRAP_uc011ado.1_Silent_p.L94L|MRAP_uc002ypl.2_Silent_p.L153L	NM_178817	NP_848932	Q8TCY5	MRAP_HUMAN	melanocortin 2 receptor accessory protein	153	Extracellular (Potential).				positive regulation of cAMP biosynthetic process|protein localization at cell surface	endoplasmic reticulum|integral to membrane|perinuclear region of cytoplasm|plasma membrane	corticotropin hormone receptor binding|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding|type 5 melanocortin receptor binding				0						GGGGTCCCCTCGTCAGGAGCA	0.602													5	116	---	---	---	---	PASS	T	33684247	T	T	33684247	2	4	90	1	0	0	0	0	0	0	0	1	9753	871	31	2		2	MRAP	21	33684247	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08		33684247	14445648	288	33958										
PRDM15	63977	broad.mit.edu	37	chr21	43277285	43277285	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tgtttggcaacagcctttacCttcaggggaaatgcagactc	10	10	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr21:43277285C>A	uc002yzq.1	-	11	1494	c.1383G>T	c.(1381-1383)AAG>AAT	p.K461N	PRDM15_uc002yzo.2_Missense_Mutation_p.K132N|PRDM15_uc002yzp.2_Missense_Mutation_p.K132N|PRDM15_uc002yzr.1_Missense_Mutation_p.K132N	NM_022115	NP_071398	P57071	PRD15_HUMAN	PR domain containing 15 isoform 1	461	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CAGCCTTTACCTTCAGGGGAA	0.527													7	78	---	---	---	---	PASS	A	43277285	A	A	43277285	3	1	90	1	0	0	0	0	1	0	0	0	12456	695	24	3	3224	3	PRDM15	21	43277285	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	9593038	43277285	4852610	289	33959										
FTCD	10841	broad.mit.edu	37	chr21	47575431	47575431	+	Nonsense_Mutation	SNP	G	A	A													0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggggacgcattccaccagctGggacatggccagcaccttga							TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr21:47575431G>A	uc002zif.2	-	1	51	c.7C>T	c.(7-9)CAG>TAG	p.Q3*	FTCD_uc002zig.2_Nonsense_Mutation_p.Q3*|FTCD_uc002zih.2_Nonsense_Mutation_p.Q3*|FTCD_uc010gqf.2_Nonsense_Mutation_p.Q3*|FTCD_uc010gqg.1_5'UTR	NM_006657	NP_006648	O95954	FTCD_HUMAN	formiminotransferase cyclodeaminase	3	Formiminotransferase N-subdomain (By similarity).				folic acid-containing compound metabolic process|histidine catabolic process	centriole|cytosol|Golgi apparatus	folic acid binding|formimidoyltetrahydrofolate cyclodeaminase activity|glutamate formimidoyltransferase activity			pancreas(1)|skin(1)	2	Breast(49;0.214)			Colorectal(79;0.235)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	TCCACCAGCTGGGACATGGCC	0.622													13	58	---	---	---	---	PASS	A	47575431	A	A	47575431	4	1	90	1	0	0	0	0	0	1	0	0	6081	1357	47	3	1674	3	FTCD	21	47575431	Nonsense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	4298146	47575431	554464	290	33960	653	2								
FTCD	10841	broad.mit.edu	37	chr21	47575432	47575432	+	Silent	SNP	G	A	A													0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gggacgcattccaccagctgGgacatggccagcaccttgat							TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr21:47575432G>A	uc002zif.2	-	1	50	c.6C>T	c.(4-6)TCC>TCT	p.S2S	FTCD_uc002zig.2_Silent_p.S2S|FTCD_uc002zih.2_Silent_p.S2S|FTCD_uc010gqf.2_Silent_p.S2S|FTCD_uc010gqg.1_5'UTR	NM_006657	NP_006648	O95954	FTCD_HUMAN	formiminotransferase cyclodeaminase	2	Formiminotransferase N-subdomain (By similarity).				folic acid-containing compound metabolic process|histidine catabolic process	centriole|cytosol|Golgi apparatus	folic acid binding|formimidoyltetrahydrofolate cyclodeaminase activity|glutamate formimidoyltransferase activity			pancreas(1)|skin(1)	2	Breast(49;0.214)			Colorectal(79;0.235)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CCACCAGCTGGGACATGGCCA	0.622													13	58	---	---	---	---	PASS	A	47575432	A	A	47575432	2	1	90	1	0	0	0	0	0	0	0	1	6081	1219	43	3		3	FTCD	21	47575432	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	1	47575432	554463	291	33961	653	2								
SLC25A18	83733	broad.mit.edu	37	chr22	18070729	18070729	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	catctacttcccactgtttgCcaaccttaacaacctggggt	6	14	1	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr22:18070729C>T	uc002zmp.1	+	9	1108	c.614C>T	c.(613-615)GCC>GTC	p.A205V	SLC25A18_uc010gqx.2_Missense_Mutation_p.A205V|SLC25A18_uc002zmq.1_Missense_Mutation_p.A205V	NM_031481	NP_113669	Q9H1K4	GHC2_HUMAN	solute carrier	205	Solcar 2.|Helical; Name=4; (Potential).					integral to membrane|mitochondrial inner membrane	binding|symporter activity				0				Lung(27;0.124)	L-Glutamic Acid(DB00142)	CCACTGTTTGCCAACCTTAAC	0.557													6	135	---	---	---	---	PASS	T	18070729	T	T	18070729	3	4	90	1	0	0	0	0	1	0	0	0	14480	739	26	3	640	3	SLC25A18	22	18070729	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08		18070729	33233837	292	33962										
ARVCF	421	broad.mit.edu	37	chr22	19959465	19959465	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gctggcgccccgtggcctccGctccctccggtccaccgtgg	13	20	0	0	rs34687532	byFrequency	TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr22:19959465G>A	uc002zqz.2	-	18	2996	c.2725C>T	c.(2725-2727)CGG>TGG	p.R909W	ARVCF_uc002zqy.2_Missense_Mutation_p.R425W	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	909					cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					CGTGGCCTCCGCTCCCTCCGG	0.647													8	114	---	---	---	---	PASS	A	19959465	A	A	19959465	3	1	90	1	0	0	0	0	1	0	0	0	1003	1086	38	1	171	1	ARVCF	22	19959465	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	1888736	19959465	31345101	293	33963										
KLHL22	84861	broad.mit.edu	37	chr22	20819605	20819605	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	caggctataatggtagagaaGggccccctcatatacctcgg	11	11	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr22:20819605G>T	uc002zsl.1	-	4	761	c.652C>A	c.(652-654)CTT>ATT	p.L218I	KLHL22_uc011ahr.1_Missense_Mutation_p.L75I|KLHL22_uc002zsm.1_Missense_Mutation_p.L218I	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	218					cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			TGGTAGAGAAGGGCCCCCTCA	0.582													3	49	---	---	---	---	PASS	T	20819605	T	T	20819605	3	4	90	1	0	0	0	0	1	0	0	0	8377	1000	35	3	1268	3	KLHL22	22	20819605	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	860140	20819605	30484961	294	33964										
KLHL22	84861	broad.mit.edu	37	chr22	20819760	20819760	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tgtccagttgctcagtcaggCggctcaagtcaaacagctct	10	12	5	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr22:20819760C>T	uc002zsl.1	-	4	606	c.497G>A	c.(496-498)CGC>CAC	p.R166H	KLHL22_uc011ahr.1_Missense_Mutation_p.R23H|KLHL22_uc002zsm.1_Missense_Mutation_p.R166H	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	166					cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CTCAGTCAGGCGGCTCAAGTC	0.502													7	63	---	---	---	---	PASS	T	20819760	T	T	20819760	3	4	90	1	0	0	0	0	1	0	0	0	8377	768	27	1	1423	1	KLHL22	22	20819760	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	155	20819760	30484806	295	33965										
PI4KA	5297	broad.mit.edu	37	chr22	21064988	21064988	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggccctcacccaggctcaccGcacagccaggtagcctcgga	11	18	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr22:21064988G>A	uc002zsz.3	-	52	6139	c.5908C>T	c.(5908-5910)CGG>TGG	p.R1970W	PI4KA_uc010gsp.2_Missense_Mutation_p.R361W|PI4KA_uc002zsy.3_Missense_Mutation_p.R780W	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1970	PI3K/PI4K.				phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			CAGGCTCACCGCACAGCCAGG	0.587													4	84	---	---	---	---	PASS	A	21064988	A	A	21064988	3	1	90	1	0	0	0	0	1	0	0	0	11873	1101	38	1	242	1	PI4KA	22	21064988	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	245228	21064988	30239578	296	33966										
MYO18B	84700	broad.mit.edu	37	chr22	26422432	26422432	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ataaacgaagaggctggggaCactgagaggacccagtcggc	15	9	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr22:26422432C>A	uc003abz.1	+	43	6742	c.6492C>A	c.(6490-6492)GAC>GAA	p.D2164E	MYO18B_uc003aca.1_Missense_Mutation_p.D2045E|MYO18B_uc010guy.1_Missense_Mutation_p.D2046E|MYO18B_uc010guz.1_Missense_Mutation_p.D2044E|MYO18B_uc011aka.1_Missense_Mutation_p.D1318E|MYO18B_uc011akb.1_Missense_Mutation_p.D1677E|MYO18B_uc010gva.1_Missense_Mutation_p.D147E|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2164						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						AGGCTGGGGACACTGAGAGGA	0.512													15	258	---	---	---	---	PASS	A	26422432	A	A	26422432	3	1	90	1	0	0	0	0	1	0	0	0	10066	477	17	3	6658	3	MYO18B	22	26422432	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	5357444	26422432	24882134	297	33967										
SEC14L3	266629	broad.mit.edu	37	chr22	30864530	30864530	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtcacactcatgcaggatgcGctcacagtccctcatcttgg	9	14	5	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr22:30864530G>A	uc003ahy.2	-	5	477	c.388C>T	c.(388-390)CGC>TGC	p.R130C	SEC14L3_uc003ahz.2_Missense_Mutation_p.R53C|SEC14L3_uc003aia.2_Missense_Mutation_p.R71C|SEC14L3_uc003aib.2_Missense_Mutation_p.R71C	NM_174975	NP_777635	Q9UDX4	S14L3_HUMAN	SEC14-like 3	130	CRAL-TRIO.					integral to membrane|intracellular	lipid binding|transporter activity			ovary(3)|pancreas(1)|skin(1)	5					Vitamin E(DB00163)	TGCAGGATGCGCTCACAGTCC	0.607													9	112	---	---	---	---	PASS	A	30864530	A	A	30864530	3	1	90	1	0	0	0	0	1	0	0	0	13983	1087	38	1	846	1	SEC14L3	22	30864530	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	4442098	30864530	20440036	298	33968										
TMPRSS6	164656	broad.mit.edu	37	chr22	37491609	37491609	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	acccagcgtggaattcaatgCagctatgtctttcacactgg	9	11	3	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr22:37491609C>A	uc003aqs.1	-	6	754	c.640G>T	c.(640-642)GCA>TCA	p.A214S	TMPRSS6_uc003aqt.1_Missense_Mutation_p.A205S|TMPRSS6_uc003aqu.2_Missense_Mutation_p.A205S	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	214	CUB 1.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						GAATTCAATGCAGCTATGTCT	0.308													6	57	---	---	---	---	PASS	A	37491609	A	A	37491609	3	1	90	1	0	0	0	0	1	0	0	0	16248	710	25	3	1847	3	TMPRSS6	22	37491609	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	6627079	37491609	13812957	299	33969										
CACNA1I	8911	broad.mit.edu	37	chr22	40038863	40038863	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gatggatgctcactccttctAcaacttcatctacttcatcc	4	14	5	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr22:40038863A>G	uc003ayc.2	+	7	1118	c.1118A>G	c.(1117-1119)TAC>TGC	p.Y373C	CACNA1I_uc003ayd.2_Missense_Mutation_p.Y373C|CACNA1I_uc003aye.2_Missense_Mutation_p.Y288C|CACNA1I_uc003ayf.2_Missense_Mutation_p.Y288C	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	373	I.|Extracellular (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CACTCCTTCTACAACTTCATC	0.557													5	20	---	---	---	---	PASS	G	40038863	G	G	40038863	3	3	90	1	0	0	0	0	1	0	0	0	2546	391	14	5	1144	5	CACNA1I	22	40038863	Missense_Mutation	SNP	A	TCGA-39-5030-01A-01D-1441-08	2547254	40038863	11265703	300	33970										
SLC25A17	10478	broad.mit.edu	37	chr22	41173355	41173355	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aaagccgagattccttcatcGcgaatgatctgatgaaaagc	9	9	2	4			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr22:41173355G>A	uc003azc.2	-	6	614	c.474C>T	c.(472-474)CGC>CGT	p.R158R	SLC25A17_uc010gyg.2_RNA|SLC25A17_uc011aou.1_Silent_p.R121R|SLC25A17_uc003azd.2_RNA|SLC25A17_uc011aov.1_Silent_p.R85R	NM_006358	NP_006349	O43808	PM34_HUMAN	solute carrier family 25 (mitochondrial carrier;	158	Lumenal (Potential).|Solcar 2.				fatty acid alpha-oxidation	integral to plasma membrane|mitochondrial inner membrane|peroxisomal membrane	adenine nucleotide transmembrane transporter activity|protein binding				0						TTCCTTCATCGCGAATGATCT	0.408													5	49	---	---	---	---	PASS	A	41173355	A	A	41173355	2	1	90	1	0	0	0	0	0	0	0	1	14479	1074	38	1		1	SLC25A17	22	41173355	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	1134492	41173355	10131211	301	33971										
TUBGCP6	85378	broad.mit.edu	37	chr22	50657616	50657616	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cacgaagaagtagtcgacagCggccttgttcaccaaggaga	12	10	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chr22:50657616C>T	uc003bkb.1	-	20	5019	c.4507G>A	c.(4507-4509)GCT>ACT	p.A1503T	TUBGCP6_uc003bka.1_Missense_Mutation_p.A590T|TUBGCP6_uc010har.1_Missense_Mutation_p.A1495T|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	1503					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		TAGTCGACAGCGGCCTTGTTC	0.662													4	27	---	---	---	---	PASS	T	50657616	T	T	50657616	3	4	90	1	0	0	0	0	1	0	0	0	16767	768	27	1	976	1	TUBGCP6	22	50657616	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	9484261	50657616	646950	302	33972										
ARSH	347527	broad.mit.edu	37	chrX	2945446	2945446	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aggctgggagagtgatcaatGagcccaccagcttaatggac	13	9	1	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:2945446G>A	uc011mhj.1	+	7	1129	c.1129G>A	c.(1129-1131)GAG>AAG	p.E377K		NM_001011719	NP_001011719	Q5FYA8	ARSH_HUMAN	arylsulfatase family, member H	377						integral to membrane	arylsulfatase activity|metal ion binding			lung(1)	1		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				AGTGATCAATGAGCCCACCAG	0.527													5	144	---	---	---	---	PASS	A	2945446	A	A	2945446	3	1	90	1	0	0	0	0	1	0	0	0	993	1291	45	2	1155	2	ARSH	23	2945446	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08		2945446	152325114	303	33973										
ATXN3L	92552	broad.mit.edu	37	chrX	13337594	13337594	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atatgcttgttgttgtaatcGagccaagaaatttgcaaggc	10	6	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:13337594G>A	uc010ned.2	-	1	925	c.460C>T	c.(460-462)CGA>TGA	p.R154*		NM_001135995	NP_001129467	Q9H3M9	ATX3L_HUMAN	ataxin 3-like	154	Josephin.				protein deubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ubiquitin-specific protease activity			lung(2)|ovary(2)|large_intestine(1)|skin(1)	6						TGTTGTAATCGAGCCAAGAAA	0.398													9	81	---	---	---	---	PASS	A	13337594	A	A	13337594	4	1	90	1	0	0	0	0	0	1	0	0	1214	1066	37	2	611	2	ATXN3L	23	13337594	Nonsense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	10392148	13337594	141932966	304	33974										
NHS	4810	broad.mit.edu	37	chrX	17744705	17744705	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtcttccagattgtgcctggCaggactacttagaccacaag	10	11	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:17744705C>T	uc004cxx.2	+	6	2754	c.2416C>T	c.(2416-2418)CAG>TAG	p.Q806*	NHS_uc011mix.1_Nonsense_Mutation_p.Q827*|NHS_uc004cxy.2_Nonsense_Mutation_p.Q650*|NHS_uc004cxz.2_Nonsense_Mutation_p.Q629*|NHS_uc004cya.2_Nonsense_Mutation_p.Q529*	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	806						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					TTGTGCCTGGCAGGACTACTT	0.522													8	276	---	---	---	---	PASS	T	17744705	T	T	17744705	4	4	90	1	0	0	0	0	0	1	0	0	10411	711	25	3	2543	3	NHS	23	17744705	Nonsense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	4407111	17744705	137525855	305	33975										
PPEF1	5475	broad.mit.edu	37	chrX	18775754	18775754	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cccgctcacagatacttcatGcccattatgtcttagaggtg	8	12	3	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:18775754G>A	uc004cyq.2	+	8	887	c.406G>A	c.(406-408)GCC>ACC	p.A136T	PPEF1_uc004cyp.2_Missense_Mutation_p.A136T|PPEF1_uc004cyr.2_Missense_Mutation_p.A136T|PPEF1_uc004cys.2_Missense_Mutation_p.A136T|PPEF1_uc011mja.1_Missense_Mutation_p.A71T|PPEF1_uc011mjb.1_Missense_Mutation_p.A80T	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding	136	Catalytic.				detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)					GATACTTCATGCCCATTATGT	0.413													9	391	---	---	---	---	PASS	A	18775754	A	A	18775754	3	1	90	1	0	0	0	0	1	0	0	0	12307	1319	46	3	424	3	PPEF1	23	18775754	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	1031049	18775754	136494806	306	33976										
DCAF8L1	139425	broad.mit.edu	37	chrX	27998586	27998586	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gctccagagccaactcgtggGcaggtcccctgtgcttggcc	13	15	0	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:27998586G>A	uc004dbx.1	-	1	981	c.866C>T	c.(865-867)GCC>GTC	p.A289V		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	289	WD 3.									ovary(3)|skin(1)	4						CAACTCGTGGGCAGGTCCCCT	0.527													8	114	---	---	---	---	PASS	A	27998586	A	A	27998586	3	1	90	1	0	0	0	0	1	0	0	0	4277	1203	42	3	940	3	DCAF8L1	23	27998586	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	9222832	27998586	127271974	307	33977										
FAM47C	442444	broad.mit.edu	37	chrX	37027835	37027835	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gactggagtgtcccatctccGcccagagcctcccaagactc	9	17	1	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:37027835G>C	uc004ddl.1	+	1	1366	c.1352G>C	c.(1351-1353)CGC>CCC	p.R451P		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	451										ovary(3)	3						TCCCATCTCCGCCCAGAGCCT	0.617													16	103	---	---	---	---	PASS	C	37027835	C	C	37027835	3	2	90	1	0	0	0	0	1	0	0	0	5571	1087	38	4	1354	4	FAM47C	23	37027835	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	9029249	37027835	118242725	308	33978										
SYTL5	94122	broad.mit.edu	37	chrX	37913575	37913575	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	acctgggcctaatctttgacCggggagacccttgtcaggct	12	12	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:37913575C>A	uc004ddu.2	+	4	763	c.229C>A	c.(229-231)CGG>AGG	p.R77R	SYTL5_uc004ddv.2_Silent_p.R77R|SYTL5_uc004ddx.2_Silent_p.R77R	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	77	FYVE-type.|RabBD.				intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						AATCTTTGACCGGGGAGACCC	0.507													16	115	---	---	---	---	PASS	A	37913575	A	A	37913575	2	1	90	1	0	0	0	0	0	0	0	1	15483	643	23	1		1	SYTL5	23	37913575	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	885740	37913575	117356985	309	33979										
ARAF	369	broad.mit.edu	37	chrX	47426043	47426043	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cctttcccctggcagcccccGcacccagcactgtgacccgg	9	21	0	1	rs66933407		TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:47426043G>A	uc011mlq.1	+	7	696	c.563G>A	c.(562-564)CGC>CAC	p.R188H	ARAF_uc011mln.1_Intron|ARAF_uc011mlo.1_Missense_Mutation_p.R54H|ARAF_uc011mlp.1_Missense_Mutation_p.R188H|ARAF_uc004dic.1_5'UTR	NM_001654	NP_001645	P10398	ARAF_HUMAN	v-raf murine sarcoma 3611 viral oncogene	188					intracellular signal transduction|negative regulation of apoptosis|positive regulation of peptidyl-serine phosphorylation		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity			large_intestine(3)|lung(2)|ovary(1)|skin(1)	7					Adenosine triphosphate(DB00171)	GGCAGCCCCCGCACCCAGCAC	0.622													4	32	---	---	---	---	PASS	A	47426043	A	A	47426043	3	1	90	1	0	0	0	0	1	0	0	0	837	1087	38	1	585	1	ARAF	23	47426043	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	9512468	47426043	107844517	310	33980										
MAGED1	9500	broad.mit.edu	37	chrX	51640678	51640678	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcatccgtgaatacactgatGtttatccagaaatcattgaa	6	8	2	4			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:51640678G>A	uc004dpm.2	+	6	1617	c.1522G>A	c.(1522-1524)GTT>ATT	p.V508I	MAGED1_uc004dpn.2_Missense_Mutation_p.V564I|MAGED1_uc004dpo.2_Missense_Mutation_p.V508I	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	508	MAGE.				apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					ATACACTGATGTTTATCCAGA	0.493										Multiple Myeloma(10;0.10)			22	124	---	---	---	---	PASS	A	51640678	A	A	51640678	3	1	90	1	0	0	0	0	1	0	0	0	9183	1377	48	3	1712	3	MAGED1	23	51640678	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	4214635	51640678	103629882	311	33981										
HSD17B10	3028	broad.mit.edu	37	chrX	53459056	53459056	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	atcacattgaaggtgcccatGagattcacctgtaggacaga	10	9	2	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:53459056G>A	uc004dsl.1	-	4	397	c.366C>T	c.(364-366)CTC>CTT	p.L122L	HSD17B10_uc004dsm.1_Silent_p.L122L	NM_004493	NP_004484	Q99714	HCD2_HUMAN	hydroxysteroid (17-beta) dehydrogenase 10	122					branched chain family amino acid catabolic process|lipid metabolic process|tRNA processing	mitochondrial matrix|plasma membrane	3-hydroxy-2-methylbutyryl-CoA dehydrogenase activity|3-hydroxyacyl-CoA dehydrogenase activity|cholate 7-alpha-dehydrogenase activity				0					NADH(DB00157)	AGGTGCCCATGAGATTCACCT	0.537													10	124	---	---	---	---	PASS	A	53459056	A	A	53459056	2	1	90	1	0	0	0	0	0	0	0	1	7379	1277	45	2		2	HSD17B10	23	53459056	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	1818378	53459056	101811504	312	33982										
FGD1	2245	broad.mit.edu	37	chrX	54476175	54476175	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cagcgtctgttcatgcttcaGgagggtggagttgatggcct	15	8	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:54476175G>T	uc004dtg.2	-	14	2799	c.2065C>A	c.(2065-2067)CTG>ATG	p.L689M	FGD1_uc011moi.1_Missense_Mutation_p.L447M	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	689	PH 1.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						TCATGCTTCAGGAGGGTGGAG	0.517													8	130	---	---	---	---	PASS	T	54476175	T	T	54476175	3	4	90	1	0	0	0	0	1	0	0	0	5832	991	35	3	840	3	FGD1	23	54476175	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	1017119	54476175	100794385	313	33983										
TRO	7216	broad.mit.edu	37	chrX	54954175	54954175	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tggggcttgcgctcctaccaCgagactagcaagatgaaagt	12	10	0	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:54954175C>T	uc004dtq.2	+	11	1946	c.1839C>T	c.(1837-1839)CAC>CAT	p.H613H	TRO_uc004dts.2_Silent_p.H613H|TRO_uc004dtr.2_Silent_p.H613H|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_RNA|TRO_uc004dtv.2_Silent_p.H216H|TRO_uc011mok.1_Silent_p.H144H|TRO_uc004dtw.2_Silent_p.H216H|TRO_uc004dtx.2_Translation_Start_Site	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	613	MAGE.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GCTCCTACCACGAGACTAGCA	0.502													4	72	---	---	---	---	PASS	T	54954175	T	T	54954175	2	4	90	1	0	0	0	0	0	0	0	1	16571	535	19	1		1	TRO	23	54954175	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	478000	54954175	100316385	314	33984										
EFNB1	1947	broad.mit.edu	37	chrX	68060194	68060194	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttgttcgcggctgtcggtgcCggttgcgtcatcttcctgct	13	12	2	0			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:68060194C>T	uc004dxd.3	+	5	1518	c.738C>T	c.(736-738)GCC>GCT	p.A246A	EFNB1_uc004dxe.2_Silent_p.A246A	NM_004429	NP_004420	P98172	EFNB1_HUMAN	ephrin-B1 precursor	246	Helical; (Potential).				cell adhesion|cell-cell signaling	integral to plasma membrane|soluble fraction|synapse	ephrin receptor binding				0						CTGTCGGTGCCGGTTGCGTCA	0.612													8	41	---	---	---	---	PASS	T	68060194	T	T	68060194	2	4	90	1	0	0	0	0	0	0	0	1	4955	639	23	1		1	EFNB1	23	68060194	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	13106019	68060194	87210366	315	33985										
HDX	139324	broad.mit.edu	37	chrX	83723684	83723684	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ttcaccatttgtgaatttggCatatttcttcctggtccggg	9	9	2	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:83723684C>T	uc004eek.1	-	3	1156	c.1047G>A	c.(1045-1047)ATG>ATA	p.M349I	HDX_uc011mqv.1_Missense_Mutation_p.M349I|HDX_uc004eel.1_Missense_Mutation_p.M291I	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	349						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						GTGAATTTGGCATATTTCTTC	0.408													8	117	---	---	---	---	PASS	T	83723684	T	T	83723684	3	4	90	1	0	0	0	0	1	0	0	0	7026	710	25	3	1057	3	HDX	23	83723684	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	15663490	83723684	71546876	316	33986										
BHLHB9	80823	broad.mit.edu	37	chrX	102005284	102005284	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agagcttttccatttgctgtCctcaggaaattgcaaaacca	7	10	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:102005284C>G	uc010nog.2	+	4	1932	c.1361C>G	c.(1360-1362)TCC>TGC	p.S454C	BHLHB9_uc011mrq.1_Missense_Mutation_p.S454C|BHLHB9_uc011mrr.1_Missense_Mutation_p.S454C|BHLHB9_uc011mrs.1_Missense_Mutation_p.S454C|BHLHB9_uc011mrt.1_Missense_Mutation_p.S454C|BHLHB9_uc004ejo.2_Missense_Mutation_p.S454C|BHLHB9_uc011mru.1_Missense_Mutation_p.S454C|BHLHB9_uc011mrv.1_Missense_Mutation_p.S454C	NM_001142526	NP_001135998	Q6PI77	BHLH9_HUMAN	basic helix-loop-helix domain containing, class	454						cytoplasm|nucleus	binding			ovary(2)	2						CATTTGCTGTCCTCAGGAAAT	0.368													19	159	---	---	---	---	PASS	G	102005284	G	G	102005284	3	3	90	1	0	0	0	0	1	0	0	0	1420	855	30	2	1363	2	BHLHB9	23	102005284	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	18281600	102005284	53265276	317	33987										
CXorf41	139212	broad.mit.edu	37	chrX	106462113	106462113	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	gtcatccctgaaaccagcgaGgaaaataatgaggacatctg	10	9	2	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:106462113G>A	uc004enc.2	+	4	308	c.246G>A	c.(244-246)GAG>GAA	p.E82E	CXorf41_uc004end.2_Silent_p.E82E	NM_173494	NP_775765	Q9NQM4	CX041_HUMAN	hypothetical protein LOC139212	82											0						AAACCAGCGAGGAAAATAATG	0.398													3	60	---	---	---	---	PASS	A	106462113	A	A	106462113	2	1	90	1	0	0	0	0	0	0	0	1	4110	991	35	3		3	CXorf41	23	106462113	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	4456829	106462113	48808447	318	33988										
TRPC5	7224	broad.mit.edu	37	chrX	111195610	111195610	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	agggggatgcggtctctgtaCggtgagtagttgaccttttt	15	6	1	2	rs150908311	byFrequency	TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:111195610C>T	uc004epl.1	-	2	958	c.39G>A	c.(37-39)CCG>CCA	p.P13P	TRPC5_uc004epm.1_Silent_p.P13P	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	13	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						GGTCTCTGTACGGTGAGTAGT	0.483													6	122	---	---	---	---	PASS	T	111195610	T	T	111195610	2	4	90	1	0	0	0	0	0	0	0	1	16579	523	19	1		1	TRPC5	23	111195610	Silent	SNP	C	TCGA-39-5030-01A-01D-1441-08	4733497	111195610	44074950	319	33989										
CUL4B	8450	broad.mit.edu	37	chrX	119680457	119680457	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tcttctttaaaaaaagaacgCtatccaatgaatccctgaaa	4	9	2	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:119680457C>A	uc004esw.2	-	6	1282	c.845G>T	c.(844-846)AGC>ATC	p.S282I	CUL4B_uc010nqq.2_5'UTR|CUL4B_uc004esv.2_Missense_Mutation_p.S264I	NM_003588	NP_003579	Q13620	CUL4B_HUMAN	cullin 4B isoform 1	282					cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3						AAAAAGAACGCTATCCAATGA	0.333													6	54	---	---	---	---	PASS	A	119680457	A	A	119680457	3	1	90	1	0	0	0	0	1	0	0	0	4058	797	28	3	1964	3	CUL4B	23	119680457	Missense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	8484847	119680457	35590103	320	33990										
XIAP	331	broad.mit.edu	37	chrX	123019782	123019782	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	aggaaagtatccccaaattgCagatttatcaacggctttta	7	8	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:123019782C>A	uc010nqu.2	+	2	396	c.270C>A	c.(268-270)TGC>TGA	p.C90*	XIAP_uc004etx.2_Nonsense_Mutation_p.C90*|XIAP_uc010nqv.2_Intron	NM_001167	NP_001158	P98170	XIAP_HUMAN	baculoviral IAP repeat-containing protein 4	90	BIR 1.				anti-apoptosis|apoptosis|induction of apoptosis by intracellular signals|response to DNA damage stimulus	cytosol	caspase inhibitor activity|ligase activity|protein binding|zinc ion binding			ovary(1)|lung(1)	2						CCCCAAATTGCAGATTTATCA	0.423									X-linked_Lymphoproliferative_syndrome				21	131	---	---	---	---	PASS	A	123019782	A	A	123019782	4	1	90	1	0	0	0	0	0	1	0	0	17425	718	25	3	272	3	XIAP	23	123019782	Nonsense_Mutation	SNP	C	TCGA-39-5030-01A-01D-1441-08	3339325	123019782	32250778	321	33991										
ODZ1	10178	broad.mit.edu	37	chrX	124097472	124097472	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	ggttatactcgtgcagggtcTccctggagttgtatgactgt	13	8	1	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:124097472T>C	uc004euj.2	-	1	195	c.131A>G	c.(130-132)GAG>GGG	p.E44G	ODZ1_uc011muj.1_Missense_Mutation_p.E44G|ODZ1_uc010nqy.2_Missense_Mutation_p.E44G	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	44	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding	p.E44K(1)		ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GTGCAGGGTCTCCCTGGAGTT	0.408													8	487	---	---	---	---	PASS	C	124097472	C	C	124097472	3	2	90	1	0	0	0	0	1	0	0	0	10834	1551	54	5	8195	5	ODZ1	23	124097472	Missense_Mutation	SNP	T	TCGA-39-5030-01A-01D-1441-08	1077690	124097472	31173088	322	33992										
OCRL	4952	broad.mit.edu	37	chrX	128674794	128674794	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	cctagcccagaggaacgggcAatatgagtaagtaaccacct	10	11	0	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:128674794A>T	uc004euq.2	+	2	278	c.113A>T	c.(112-114)CAA>CTA	p.Q38L	OCRL_uc004eur.2_Missense_Mutation_p.Q38L	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	38					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						AGGAACGGGCAATATGAGTAA	0.597													12	105	---	---	---	---	PASS	T	128674794	T	T	128674794	3	4	90	1	0	0	0	0	1	0	0	0	10823	130	5	5	119	5	OCRL	23	128674794	Missense_Mutation	SNP	A	TCGA-39-5030-01A-01D-1441-08	4577322	128674794	26595766	323	33993										
ARHGAP36	158763	broad.mit.edu	37	chrX	130220305	130220305	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	tgctaattctaccctcaggtGcctccccatattcagaggca	7	14	3	1			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:130220305G>T	uc004evz.2	+	10	1629	c.1284G>T	c.(1282-1284)GTG>GTT	p.V428V	ARHGAP36_uc004ewa.2_Silent_p.V416V|ARHGAP36_uc004ewb.2_Silent_p.V397V|ARHGAP36_uc004ewc.2_Silent_p.V292V	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	428					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						ACCCTCAGGTGCCTCCCCATA	0.483													7	78	---	---	---	---	PASS	T	130220305	T	T	130220305	2	4	90	1	0	0	0	0	0	0	0	1	883	1306	46	3		3	ARHGAP36	23	130220305	Silent	SNP	G	TCGA-39-5030-01A-01D-1441-08	1545511	130220305	25050255	324	33994										
EMD	2010	broad.mit.edu	37	chrX	153609143	153609143	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	acgatcttttgtcttcttctGaagaggagtgcaaggatagg	12	6	4	2			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:153609143G>A	uc004fkl.2	+	5	678	c.430G>A	c.(430-432)GAA>AAA	p.E144K		NM_000117	NP_000108	P50402	EMD_HUMAN	emerin	144	Interaction with F-actin (Probable).				cellular response to growth factor stimulus|muscle contraction|muscle organ development|negative regulation of catenin import into nucleus|negative regulation of fibroblast proliferation|positive regulation of protein export from nucleus|regulation of canonical Wnt receptor signaling pathway	endoplasmic reticulum|integral to membrane|microtubule|nuclear inner membrane|nuclear outer membrane	actin binding|beta-tubulin binding				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GTCTTCTTCTGAAGAGGAGTG	0.612													18	204	---	---	---	---	PASS	A	153609143	A	A	153609143	3	1	90	1	0	0	0	0	1	0	0	0	5087	1291	45	2	448	2	EMD	23	153609143	Missense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	23388838	153609143	1661417	325	33995										
EMD	2010	broad.mit.edu	37	chrX	153609540	153609540	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.156923076923077	51	0.0010242805752817	1.61509473607279	4.53255753138075	0.841402945051897	0.143959362630222	0.480769946897156	19	accacttcatgcaggctgaaGaaggcaaccccttctagagg	10	12	2	3			TCGA-39-5030-01A-01D-1441-08	TCGA-39-5030-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	9e7b63f2-6080-4bb0-b45d-a0d40dffcbe0	b8840076-c0a1-469e-ac61-efbf06758422	g.chrX:153609540G>T	uc004fkl.2	+	6	996	c.748G>T	c.(748-750)GAA>TAA	p.E250*		NM_000117	NP_000108	P50402	EMD_HUMAN	emerin	250					cellular response to growth factor stimulus|muscle contraction|muscle organ development|negative regulation of catenin import into nucleus|negative regulation of fibroblast proliferation|positive regulation of protein export from nucleus|regulation of canonical Wnt receptor signaling pathway	endoplasmic reticulum|integral to membrane|microtubule|nuclear inner membrane|nuclear outer membrane	actin binding|beta-tubulin binding				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GCAGGCTGAAGAAGGCAACCC	0.527													9	79	---	---	---	---	PASS	T	153609540	T	T	153609540	4	4	90	1	0	0	0	0	0	1	0	0	5087	943	33	2	770	2	EMD	23	153609540	Nonsense_Mutation	SNP	G	TCGA-39-5030-01A-01D-1441-08	397	153609540	1661020	326	33996										
NPHP4	261734	broad.mit.edu	37	chr1	5993284	5993284	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggctggatcccaccctgcaGaggcagggtcacccttccag	13	15	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:5993284G>A	uc001alq.1	-	10	1491	c.1225C>T	c.(1225-1227)CTG>TTG	p.L409L	NPHP4_uc001als.1_RNA|NPHP4_uc009vlt.1_RNA|NPHP4_uc001alt.1_RNA	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	409					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		CCACCCTGCAGAGGCAGGGTC	0.542													20	67	---	---	---	---	PASS	A	5993284	A	A	5993284	2	1	91	1	0	0	0	0	0	0	0	1	10581	933	33	2		2	NPHP4	1	5993284	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08		5993284	243257337	1	33997										
GPR153	387509	broad.mit.edu	37	chr1	6313942	6313942	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cacggtgaaggcgcggcggtCggcctggcgccccacctgca	16	16	0	1	rs146978653	by1000genomes	TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:6313942C>T	uc001amp.1	-	3	882	c.622G>A	c.(622-624)GAC>AAC	p.D208N		NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	208	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		GCGCGGCGGTCGGCCTGGCGC	0.701													4	19	---	---	---	---	PASS	T	6313942	T	T	6313942	3	4	91	1	0	0	0	0	1	0	0	0	6659	884	31	2	1223	2	GPR153	1	6313942	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	320658	6313942	242936679	2	33998										
CAMTA1	23261	broad.mit.edu	37	chr1	7792647	7792647	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agcgggagcgggaatggaggGagccaggcacaggtacgagg	21	7	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:7792647G>C	uc001aoi.2	+	12	3261	c.3054G>C	c.(3052-3054)GGG>GGC	p.G1018G	CAMTA1_uc010nzv.1_Silent_p.G105G|CAMTA1_uc001aok.3_Silent_p.G61G	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1018					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		GGAATGGAGGGAGCCAGGCAC	0.622													6	5	---	---	---	---	PASS	C	7792647	C	C	7792647	2	2	91	1	0	0	0	0	0	0	0	1	2613	1161	41	2		2	CAMTA1	1	7792647	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1478705	7792647	241457974	3	33999										
SLC45A1	50651	broad.mit.edu	37	chr1	8403861	8403861	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcatgggcgtggacatctctCtgctgagctgccagtacttc	12	12	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:8403861C>G	uc001apb.2	+	8	2035	c.2035C>G	c.(2035-2037)CTG>GTG	p.L679V	SLC45A1_uc001apc.2_Missense_Mutation_p.L377V	NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	679					carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		GGACATCTCTCTGCTGAGCTG	0.652													18	57	---	---	---	---	PASS	G	8403861	G	G	8403861	3	3	91	1	0	0	0	0	1	0	0	0	14640	912	32	2	2065	2	SLC45A1	1	8403861	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	611214	8403861	240846760	4	34000										
VPS13D	55187	broad.mit.edu	37	chr1	12336242	12336242	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcgtcgattgatttatacttCagatcccaaatatccaggag	8	9	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:12336242C>T	uc001atv.2	+	19	2738	c.2597C>T	c.(2596-2598)TCA>TTA	p.S866L	VPS13D_uc001atw.2_Missense_Mutation_p.S866L|VPS13D_uc001atx.2_Missense_Mutation_p.S54L	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	866					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		ATTTATACTTCAGATCCCAAA	0.408											OREG0013110	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	60	---	---	---	---	PASS	T	12336242	T	T	12336242	3	4	91	1	0	0	0	0	1	0	0	0	17189	838	29	2	2667	2	VPS13D	1	12336242	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3932381	12336242	236914379	5	34001										
IGSF21	84966	broad.mit.edu	37	chr1	18691730	18691730	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atggcaggtttatttcaaacGagatggggaaccaatcgacg	12	7	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:18691730G>C	uc001bau.1	+	6	937	c.554G>C	c.(553-555)CGA>CCA	p.R185P	IGSF21_uc001bav.1_Missense_Mutation_p.R6P	NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	185						extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		TATTTCAAACGAGATGGGGAA	0.557													21	48	---	---	---	---	PASS	C	18691730	C	C	18691730	3	2	91	1	0	0	0	0	1	0	0	0	7599	1058	37	2	576	2	IGSF21	1	18691730	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	6355488	18691730	230558891	6	34002										
EPHA8	2046	broad.mit.edu	37	chr1	22902721	22902721	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgcccacagtgggactccatCaacgaggtggacgagtcctt	12	12	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:22902721C>T	uc001bfx.1	+	3	296	c.171C>T	c.(169-171)ATC>ATT	p.I57I	EPHA8_uc001bfw.2_Silent_p.I57I	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	57	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GGGACTCCATCAACGAGGTGG	0.597													13	110	---	---	---	---	PASS	T	22902721	T	T	22902721	2	4	91	1	0	0	0	0	0	0	0	1	5173	816	29	2		2	EPHA8	1	22902721	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	4210991	22902721	226347900	7	34003										
SRRM1	10250	broad.mit.edu	37	chr1	24995649	24995649	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cccacgtcggcgctcaccttCtcctagaagatactctcctc	6	18	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:24995649C>G	uc001bjm.2	+	14	1999	c.1775C>G	c.(1774-1776)TCT>TGT	p.S592C	SRRM1_uc010oel.1_Missense_Mutation_p.S604C|SRRM1_uc009vrh.1_Missense_Mutation_p.S565C|SRRM1_uc009vri.1_Missense_Mutation_p.S521C	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	592	Pro-rich.|Necessary for speckles and matrix localization.|Arg-rich.|Ser-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		CGCTCACCTTCTCCTAGAAGA	0.468													14	67	---	---	---	---	PASS	G	24995649	G	G	24995649	3	3	91	1	0	0	0	0	1	0	0	0	15167	913	32	2	1829	2	SRRM1	1	24995649	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2092928	24995649	224254972	8	34004										
WDTC1	23038	broad.mit.edu	37	chr1	27618778	27618778	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acagagtactgtggccagctGgtggaggccaagtgcctcac	14	11	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:27618778G>T	uc009vst.2	+	7	1087	c.552G>T	c.(550-552)CTG>CTT	p.L184L	WDTC1_uc001bno.2_Silent_p.L184L|WDTC1_uc001bnp.1_RNA	NM_015023	NP_055838	Q8N5D0	WDTC1_HUMAN	WD and tetratricopeptide repeats 1	184	WD 4.						protein binding			ovary(1)|central_nervous_system(1)	2		all_cancers(24;3.12e-19)|all_epithelial(13;4.18e-18)|Colorectal(325;0.000147)|all_lung(284;0.000366)|Lung NSC(340;0.000548)|Renal(390;0.00211)|Breast(348;0.00257)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0443)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;1.02e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00201)|STAD - Stomach adenocarcinoma(196;0.00321)|READ - Rectum adenocarcinoma(331;0.0476)		GTGGCCAGCTGGTGGAGGCCA	0.567													35	89	---	---	---	---	PASS	T	27618778	T	T	27618778	2	4	91	1	0	0	0	0	0	0	0	1	17339	1335	47	3		3	WDTC1	1	27618778	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	2623129	27618778	221631843	9	34005										
ZMYM6	9204	broad.mit.edu	37	chr1	35485050	35485050	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggagcagaagagctgagtaGatcctgtcttatgatatgca	12	6	1	5			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:35485050G>C	uc001byh.2	-	4	560	c.332C>G	c.(331-333)TCT>TGT	p.S111C	ZMYM6_uc001byf.1_Missense_Mutation_p.S111C|ZMYM6_uc010oht.1_Missense_Mutation_p.S14C|ZMYM6_uc009vup.2_Intron|ZMYM6_uc009vuq.1_Missense_Mutation_p.S111C|ZMYM6_uc009vur.1_Intron|ZMYM6_uc001byj.2_Missense_Mutation_p.S111C|ZMYM6_uc001byi.2_Missense_Mutation_p.S111C|ZMYM6_uc001byk.2_Missense_Mutation_p.S111C	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258	111					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				GAGCTGAGTAGATCCTGTCTT	0.448													50	92	---	---	---	---	PASS	C	35485050	C	C	35485050	3	2	91	1	0	0	0	0	1	0	0	0	17701	942	33	2	3697	2	ZMYM6	1	35485050	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7866272	35485050	213765571	10	34006										
MRPS15	64960	broad.mit.edu	37	chr1	36921956	36921956	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctctggtcaatgctcattagCagatagcgtttgtgggcttt	11	8	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:36921956C>T	uc001cas.2	-	7	632	c.468G>A	c.(466-468)CTG>CTA	p.L156L		NM_031280	NP_112570	P82914	RT15_HUMAN	mitochondrial ribosomal protein S15 precursor	156					translation	mitochondrial small ribosomal subunit|nuclear membrane	structural constituent of ribosome			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TGCTCATTAGCAGATAGCGTT	0.383													22	89	---	---	---	---	PASS	T	36921956	T	T	36921956	2	4	91	1	0	0	0	0	0	0	0	1	9825	697	25	3		3	MRPS15	1	36921956	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1436906	36921956	212328665	11	34007										
IPO13	9670	broad.mit.edu	37	chr1	44422286	44422286	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttcctggcactcgtcaacatGattatgttctgcacaggcat	8	11	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:44422286G>C	uc001ckx.2	+	4	1812	c.1017G>C	c.(1015-1017)ATG>ATC	p.M339I		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	339	HEAT 5.				protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				TCGTCAACATGATTATGTTCT	0.537													17	179	---	---	---	---	PASS	C	44422286	C	C	44422286	3	2	91	1	0	0	0	0	1	0	0	0	7794	1290	45	2	1031	2	IPO13	1	44422286	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7500330	44422286	204828335	12	34008										
RNF220	55182	broad.mit.edu	37	chr1	45110680	45110680	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atgccagatacacagaggctGatgtcatcccctgcacaggc	10	13	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:45110680G>A	uc001clv.1	+	10	1597	c.1237G>A	c.(1237-1239)GAT>AAT	p.D413N	RNF220_uc001clw.1_Missense_Mutation_p.D413N|RNF220_uc010oky.1_Missense_Mutation_p.D200N|RNF220_uc010okz.1_Missense_Mutation_p.D155N|RNF220_uc001clx.1_Missense_Mutation_p.D129N|RNF220_uc001cly.1_Missense_Mutation_p.D92N|RNF220_uc001clz.1_Missense_Mutation_p.D92N|RNF220_uc001cma.1_Missense_Mutation_p.D92N|TMEM53_uc001cmb.1_Intron	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	413					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CACAGAGGCTGATGTCATCCC	0.587													9	36	---	---	---	---	PASS	A	45110680	A	A	45110680	3	1	91	1	0	0	0	0	1	0	0	0	13483	1290	45	2	1271	2	RNF220	1	45110680	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	688394	45110680	204139941	13	34009										
TESK2	10420	broad.mit.edu	37	chr1	45887417	45887417	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctaaggatgttgggatgggaGagtctattcatgagctgtac	14	5	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:45887417G>A	uc001cns.1	-	3	727	c.324C>T	c.(322-324)CTC>CTT	p.L108L	TESK2_uc009vxr.1_Silent_p.L108L|TESK2_uc010olo.1_Silent_p.L25L|TESK2_uc009vxs.1_5'UTR|TESK2_uc010olp.1_Silent_p.L108L	NM_007170	NP_009101	Q96S53	TESK2_HUMAN	testis-specific protein kinase 2	108	Protein kinase.				actin cytoskeleton organization|focal adhesion assembly|spermatogenesis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(2)|pancreas(1)	5	Acute lymphoblastic leukemia(166;0.155)					TGGGATGGGAGAGTCTATTCA	0.428													11	182	---	---	---	---	PASS	A	45887417	A	A	45887417	2	1	91	1	0	0	0	0	0	0	0	1	15765	929	33	2		2	TESK2	1	45887417	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	776737	45887417	203363204	14	34010										
TESK2	10420	broad.mit.edu	37	chr1	45887497	45887497	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	catcttaagagccatcacctGaccagaagctcggtgtcgta	9	12	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:45887497G>A	uc001cns.1	-	3	647	c.244C>T	c.(244-246)CAG>TAG	p.Q82*	TESK2_uc009vxr.1_Nonsense_Mutation_p.Q82*|TESK2_uc010olo.1_5'UTR|TESK2_uc009vxs.1_5'UTR|TESK2_uc010olp.1_Nonsense_Mutation_p.Q82*	NM_007170	NP_009101	Q96S53	TESK2_HUMAN	testis-specific protein kinase 2	82	Protein kinase.				actin cytoskeleton organization|focal adhesion assembly|spermatogenesis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(2)|pancreas(1)	5	Acute lymphoblastic leukemia(166;0.155)					GCCATCACCTGACCAGAAGCT	0.418													6	136	---	---	---	---	PASS	A	45887497	A	A	45887497	4	1	91	1	0	0	0	0	0	1	0	0	15765	1299	45	2	1507	2	TESK2	1	45887497	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	80	45887497	203363124	15	34011										
ATPAF1	64756	broad.mit.edu	37	chr1	47123837	47123837	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agttttttcttttaccatctCaatgttaaagattgaactga	5	6	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:47123837C>G	uc001cqh.2	-	4	556	c.451G>C	c.(451-453)GAG>CAG	p.E151Q	ATPAF1_uc001cqg.2_5'UTR|ATPAF1_uc009vyk.2_5'UTR|ATPAF1_uc010omg.1_Missense_Mutation_p.E63Q|ATPAF1_uc001cqi.2_Missense_Mutation_p.E151Q	NM_022745	NP_073582	Q5TC12	ATPF1_HUMAN	ATP synthase mitochondrial F1 complex assembly	151					protein complex assembly	mitochondrion	protein binding				0	Acute lymphoblastic leukemia(166;0.155)					TTTACCATCTCAATGTTAAAG	0.308													3	72	---	---	---	---	PASS	G	47123837	G	G	47123837	3	3	91	1	0	0	0	0	1	0	0	0	1200	835	29	2	559	2	ATPAF1	1	47123837	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1236340	47123837	202126784	16	34012										
NRD1	4898	broad.mit.edu	37	chr1	52289374	52289374	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aagtcatgtaatgagaagagTagtaacgcatccagaattct	9	6	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:52289374T>A	uc001ctc.3	-	9	1647	c.1325A>T	c.(1324-1326)TAC>TTC	p.Y442F	NRD1_uc009vzb.2_Missense_Mutation_p.Y137F|NRD1_uc001ctd.3_Missense_Mutation_p.Y374F|NRD1_uc001cte.2_Missense_Mutation_p.Y310F|NRD1_uc001ctf.2_Missense_Mutation_p.Y374F|NRD1_uc010ong.1_RNA|NRD1_uc009vzc.1_Missense_Mutation_p.Y242F	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	373					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						ATGAGAAGAGTAGTAACGCAT	0.358													23	130	---	---	---	---	PASS	A	52289374	A	A	52289374	3	1	91	1	0	0	0	0	1	0	0	0	10645	1638	57	5	2434	5	NRD1	1	52289374	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	5165537	52289374	196961247	17	34013										
ZCCHC11	23318	broad.mit.edu	37	chr1	52991868	52991868	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tttcaatgtttgattacctaTaacttgaactgctttgcttt	5	7	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:52991868T>C	uc001ctx.2	-	2	319	c.85A>G	c.(85-87)ATA>GTA	p.I29V	ZCCHC11_uc001cty.2_Missense_Mutation_p.I29V|ZCCHC11_uc001ctz.2_Missense_Mutation_p.I29V|ZCCHC11_uc009vze.1_Missense_Mutation_p.I29V|ZCCHC11_uc009vzf.1_Intron|ZCCHC11_uc001cub.2_Missense_Mutation_p.I29V|ZCCHC11_uc001cuc.2_RNA|ZCCHC11_uc001cud.2_Missense_Mutation_p.I29V	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	29					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						TGATTACCTATAACTTGAACT	0.284													22	52	---	---	---	---	PASS	C	52991868	C	C	52991868	3	2	91	1	0	0	0	0	1	0	0	0	17577	1406	49	5	4968	5	ZCCHC11	1	52991868	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	702494	52991868	196258753	18	34014										
HOOK1	51361	broad.mit.edu	37	chr1	60312778	60312778	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aacttgaaaagcagctaatcGaattccagcataggaatgat	8	7	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:60312778G>A	uc009wad.2	+	11	952	c.850G>A	c.(850-852)GAA>AAA	p.E284K	HOOK1_uc001czo.2_Missense_Mutation_p.E284K|HOOK1_uc001czp.2_RNA|HOOK1_uc010oor.1_Missense_Mutation_p.E242K	NM_015888	NP_056972	Q9UJC3	HOOK1_HUMAN	hook homolog 1	284	Potential.|Sufficient for interaction with microtubules.				early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|multicellular organismal development|protein transport	FHF complex|microtubule	identical protein binding			ovary(1)|breast(1)	2	all_cancers(7;0.000129)					GCAGCTAATCGAATTCCAGCA	0.348													24	152	---	---	---	---	PASS	A	60312778	A	A	60312778	3	1	91	1	0	0	0	0	1	0	0	0	7282	1059	37	2	888	2	HOOK1	1	60312778	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7320910	60312778	188937843	19	34015										
INADL	10207	broad.mit.edu	37	chr1	62503707	62503707	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttccagtgccatcaagttctCcatcttctattgaggtaagg	8	10	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:62503707C>G	uc001dab.2	+	30	4132	c.4018C>G	c.(4018-4020)CCA>GCA	p.P1340A	INADL_uc009waf.1_Missense_Mutation_p.P1340A|INADL_uc001daa.2_Missense_Mutation_p.P1340A|INADL_uc001dad.3_Missense_Mutation_p.P1037A|INADL_uc001dac.2_RNA|INADL_uc010oot.1_Missense_Mutation_p.P124A|INADL_uc009wag.2_Missense_Mutation_p.P124A|INADL_uc010oou.1_Missense_Mutation_p.P13A	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1340					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						ATCAAGTTCTCCATCTTCTAT	0.383													11	160	---	---	---	---	PASS	G	62503707	G	G	62503707	3	3	91	1	0	0	0	0	1	0	0	0	7731	855	30	2	4132	2	INADL	1	62503707	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2190929	62503707	186746914	20	34016										
L1TD1	54596	broad.mit.edu	37	chr1	62672662	62672662	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gatggtagggaaaatagaagGagaaaactctaaaataggtg	13	2	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:62672662G>A	uc001dae.3	+	3	664	c.362G>A	c.(361-363)GGA>GAA	p.G121E		NM_019079	NP_061952	Q5T7N2	LITD1_HUMAN	LINE-1 type transposase domain containing 1	121										ovary(1)|skin(1)	2						aaaatagaaggagaaaactct	0.05													24	127	---	---	---	---	PASS	A	62672662	A	A	62672662	3	1	91	1	0	0	0	0	1	0	0	0	8589	1174	41	2	364	2	L1TD1	1	62672662	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	168955	62672662	186577959	21	34017										
SLC35D1	23169	broad.mit.edu	37	chr1	67486081	67486081	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gccaactattgtagttgtaaGagcagaattatactgcgtgc	10	7	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:67486081G>C	uc001ddk.2	-	10	1231	c.847C>G	c.(847-849)CTT>GTT	p.L283V	SLC35D1_uc010oph.1_Missense_Mutation_p.L204V	NM_015139	NP_055954	Q9NTN3	S35D1_HUMAN	solute carrier family 35 (UDP-glucuronic	283	Helical; (Potential).				chondroitin sulfate biosynthetic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	integral to endoplasmic reticulum membrane	UDP-glucuronic acid transmembrane transporter activity|UDP-N-acetylgalactosamine transmembrane transporter activity				0					Lorazepam(DB00186)	GTAGTTGTAAGAGCAGAATTA	0.328													12	140	---	---	---	---	PASS	C	67486081	C	C	67486081	3	2	91	1	0	0	0	0	1	0	0	0	14581	942	33	2	232	2	SLC35D1	1	67486081	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4813419	67486081	181764540	22	34018										
C1orf173	127254	broad.mit.edu	37	chr1	75112383	75112383	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aactttatgaaaaattgcctGggctaagcattcccggatat	8	8	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:75112383G>T	uc001dgg.2	-	3	430	c.211C>A	c.(211-213)CAG>AAG	p.Q71K		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	71										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						AAAATTGCCTGGGCTAAGCAT	0.294													3	10	---	---	---	---	PASS	T	75112383	T	T	75112383	3	4	91	1	0	0	0	0	1	0	0	0	2014	1357	47	3	4429	3	C1orf173	1	75112383	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7626302	75112383	174138238	23	34019										
AK5	26289	broad.mit.edu	37	chr1	77759537	77759537	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	accggctccctccaatccatCaattctccatagaaagtgac	5	15	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:77759537C>G	uc001dhn.2	+	3	564	c.307C>G	c.(307-309)CAA>GAA	p.Q103E	AK5_uc001dho.2_Missense_Mutation_p.Q77E|AK5_uc001dhm.1_Intron	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	103					ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						TCCAATCCATCAATTCTCCAT	0.418													4	76	---	---	---	---	PASS	G	77759537	G	G	77759537	3	3	91	1	0	0	0	0	1	0	0	0	443	827	29	2	317	2	AK5	1	77759537	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2647154	77759537	171491084	24	34020										
COL11A1	1301	broad.mit.edu	37	chr1	103380302	103380302	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcacctggtggccccttggcAcctggaggtccagcagctcc	12	16	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:103380302A>T	uc001dul.2	-	51	4200	c.3882T>A	c.(3880-3882)GGT>GGA	p.G1294G	COL11A1_uc001duk.2_Silent_p.G490G|COL11A1_uc001dum.2_Silent_p.G1306G|COL11A1_uc001dun.2_Silent_p.G1255G|COL11A1_uc009weh.2_Silent_p.G1178G	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1294	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GCCCCTTGGCACCTGGAGGTC	0.493													5	44	---	---	---	---	PASS	T	103380302	T	T	103380302	2	4	91	1	0	0	0	0	0	0	0	1	3667	146	6	5		5	COL11A1	1	103380302	Silent	SNP	A	TCGA-39-5031-01A-01D-1441-08	25620765	103380302	145870319	25	34021										
SORT1	6272	broad.mit.edu	37	chr1	109883349	109883349	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcgatgccgagactcaccttCggagagcacgcttgttatgt	12	11	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:109883349C>T	uc001dxm.1	-	10	1310	c.1261G>A	c.(1261-1263)GAA>AAA	p.E421K	SORT1_uc010ovi.1_Missense_Mutation_p.E284K	NM_002959	NP_002950	Q99523	SORT_HUMAN	sortilin 1 preproprotein	421	Extracellular (Potential).				endocytosis|endosome to lysosome transport|endosome transport via multivesicular body sorting pathway|glucose import|Golgi to endosome transport|induction of apoptosis by extracellular signals|myotube differentiation|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|neuropeptide signaling pathway|ossification|plasma membrane to endosome transport|regulation of gene expression|response to insulin stimulus|vesicle organization	cell surface|coated pit|early endosome|endoplasmic reticulum membrane|endosome membrane|Golgi cisterna membrane|integral to membrane|lysosomal membrane|microsome|nuclear membrane|perinuclear region of cytoplasm|plasma membrane	enzyme binding|nerve growth factor binding|nerve growth factor receptor activity|neurotensin receptor activity, non-G-protein coupled			ovary(1)	1		all_epithelial(167;4.69e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0529)|Colorectal(144;0.142)|Epithelial(280;0.145)|Kidney(133;0.169)|all cancers(265;0.184)		GACTCACCTTCGGAGAGCACG	0.552													9	87	---	---	---	---	PASS	T	109883349	T	T	109883349	3	4	91	1	0	0	0	0	1	0	0	0	14935	893	31	2	1278	2	SORT1	1	109883349	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	6503047	109883349	139367272	26	34022										
PSMA5	5686	broad.mit.edu	37	chr1	109944647	109944647	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggattccttaaatgtccttGataacctcttcaagttcttc	5	10	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:109944647G>C	uc001dxn.2	-	9	799	c.714C>G	c.(712-714)ATC>ATG	p.I238M	PSMA5_uc010ovj.1_Missense_Mutation_p.I180M	NM_002790	NP_002781	P28066	PSA5_HUMAN	proteasome alpha 5 subunit	238					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	protein binding|threonine-type endopeptidase activity				0		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.045)|Colorectal(144;0.116)|Epithelial(280;0.187)|all cancers(265;0.196)|LUSC - Lung squamous cell carcinoma(189;0.235)		AAATGTCCTTGATAACCTCTT	0.408													27	179	---	---	---	---	PASS	C	109944647	C	C	109944647	3	2	91	1	0	0	0	0	1	0	0	0	12670	1280	45	2	15	2	PSMA5	1	109944647	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	61298	109944647	139305974	27	34023										
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112958854	112958854	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtattcttgaaggagagcttGaagcaagggaccttgttata	12	5	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:112958854G>A	uc001ebx.2	+	3	295	c.67G>A	c.(67-69)GAA>AAA	p.E23K		NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	23						actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGGAGAGCTTGAAGCAAGGGA	0.338													8	108	---	---	---	---	PASS	A	112958854	A	A	112958854	3	1	91	1	0	0	0	0	1	0	0	0	4046	1291	45	2	69	2	CTTNBP2NL	1	112958854	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3014207	112958854	136291767	28	34024										
LRIG2	9860	broad.mit.edu	37	chr1	113657094	113657094	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggaggataagacagtaacacGaggtgaaactgcggtgttac	14	6	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:113657094G>C	uc001edf.1	+	15	2324	c.2126G>C	c.(2125-2127)CGA>CCA	p.R709P	LRIG2_uc009wgn.1_Missense_Mutation_p.R606P	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	709	Ig-like C2-type 3.|Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		ACAGTAACACGAGGTGAAACT	0.433													30	73	---	---	---	---	PASS	C	113657094	C	C	113657094	3	2	91	1	0	0	0	0	1	0	0	0	8945	1058	37	2	2184	2	LRIG2	1	113657094	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	698240	113657094	135593527	29	34025										
TTF2	8458	broad.mit.edu	37	chr1	117629135	117629135	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagatcccaggtgcaaacctCaatgtggaggtgaggctggg	16	8	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:117629135C>T	uc001egy.2	+	12	2171	c.2151C>T	c.(2149-2151)CTC>CTT	p.L717L		NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	717	Helicase ATP-binding.				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		GTGCAAACCTCAATGTGGAGG	0.537													7	39	---	---	---	---	PASS	T	117629135	T	T	117629135	2	4	91	1	0	0	0	0	0	0	0	1	16716	813	29	2		2	TTF2	1	117629135	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	3972041	117629135	131621486	30	34026										
TRIM45	80263	broad.mit.edu	37	chr1	117654991	117654991	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cacctgtccatgtgcattcaGatttctcattaaattttcca	4	11	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:117654991G>T	uc001egz.2	-	6	2267	c.1679C>A	c.(1678-1680)TCT>TAT	p.S560Y	TRIM45_uc009whe.2_Missense_Mutation_p.S542Y|TRIM45_uc001eha.2_Missense_Mutation_p.S456Y	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	560						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		TGTGCATTCAGATTTCTCATT	0.527													16	106	---	---	---	---	PASS	T	117654991	T	T	117654991	3	4	91	1	0	0	0	0	1	0	0	0	16517	942	33	2	67	2	TRIM45	1	117654991	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	25856	117654991	131595630	31	34027										
MAN1A2	10905	broad.mit.edu	37	chr1	118035835	118035835	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	actgaaagcatggttgatgtCagataaaacagaccatgagg	11	6	1	5			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:118035835C>G	uc001ehd.1	+	9	1956	c.1235C>G	c.(1234-1236)TCA>TGA	p.S412*	MAN1A2_uc009whg.1_Nonsense_Mutation_p.S202*	NM_006699	NP_006690	O60476	MA1A2_HUMAN	mannosidase, alpha, class 1A, member 2	412	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity				0	Lung SC(450;0.225)	all_cancers(81;7.9e-06)|all_epithelial(167;7.39e-07)|all_lung(203;2.84e-06)|Lung NSC(69;1.99e-05)		Lung(183;0.0688)|Kidney(133;0.114)|LUSC - Lung squamous cell carcinoma(189;0.223)|KIRC - Kidney renal clear cell carcinoma(1967;0.237)|Colorectal(144;0.243)		TGGTTGATGTCAGATAAAACA	0.368													5	70	---	---	---	---	PASS	G	118035835	G	G	118035835	4	3	91	1	0	0	0	0	0	1	0	0	9211	838	29	2	1269	2	MAN1A2	1	118035835	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	380844	118035835	131214786	32	34028										
NOTCH2	4853	broad.mit.edu	37	chr1	120468265	120468265	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtaataaggaggctggcgctGagggtggcagctgcccccgt	17	10	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:120468265G>A	uc001eik.2	-	25	4430	c.4174C>T	c.(4174-4176)CAG>TAG	p.Q1392*		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1392	Extracellular (Potential).|EGF-like 35.				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGCTGGCGCTGAGGGTGGCAG	0.682			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				7	40	---	---	---	---	PASS	A	120468265	A	A	120468265	4	1	91	1	0	0	0	0	0	1	0	0	10548	1299	45	2	3281	2	NOTCH2	1	120468265	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2432430	120468265	128782356	33	34029										
SEC22B	9554	broad.mit.edu	37	chr1	145112515	145112515	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttacaacgaggagaagcactCtcaggtatctaaaagcaatg	9	8	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:145112515C>A	uc001eml.1	+	6	629	c.489C>A	c.(487-489)CTC>CTA	p.L163L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron	NM_004892	NP_004883	O75396	SC22B_HUMAN	SEC22 vesicle trafficking protein homolog B	163	v-SNARE coiled-coil homology.|Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|melanosome	protein binding				0						GAGAAGCACTCTCAGGTATCT	0.413													4	115	---	---	---	---	PASS	A	145112515	A	A	145112515	2	1	91	1	0	0	0	0	0	0	0	1	13989	900	32	2		2	SEC22B	1	145112515	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	24644250	145112515	104138106	34	34030										
NOTCH2NL	388677	broad.mit.edu	37	chr1	145281550	145281550	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagcatggtggcacctgcctCaacctgcctggttcctacca	9	16	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:145281550C>T	uc001emn.3	+	4	850	c.480C>T	c.(478-480)CTC>CTT	p.L160L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_5'UTR|NOTCH2NL_uc001emm.3_Silent_p.L160L|NOTCH2NL_uc001emo.2_Silent_p.L160L|NOTCH2NL_uc010oyh.1_RNA	NM_203458	NP_982283	Q7Z3S9	NT2NL_HUMAN	Notch homolog 2 N-terminal like protein	160	EGF-like 5; calcium-binding (Potential).				cell differentiation|multicellular organismal development|Notch signaling pathway	cytoplasm|extracellular region	calcium ion binding			ovary(1)	1						GCACCTGCCTCAACCTGCCTG	0.562													12	249	---	---	---	---	PASS	T	145281550	T	T	145281550	2	4	91	1	0	0	0	0	0	0	0	1	10549	813	29	2		2	NOTCH2NL	1	145281550	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	169035	145281550	103969071	35	34031										
HIST2H2BF	440689	broad.mit.edu	37	chr1	149783774	149783774	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acgtaaacggagtagctctcCttgcggctgcgcttgcgctt	12	12	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:149783774C>T	uc001esr.2	-	1	155	c.105G>A	c.(103-105)AAG>AAA	p.K35K	HIST2H2BF_uc010pbj.1_Silent_p.K35K|HIST2H2BF_uc010pbk.1_Silent_p.K35K	NM_001024599	NP_001019770	Q5QNW6	H2B2F_HUMAN	histone cluster 2, H2bf isoform a	35					nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)					AGTAGCTCTCCTTGCGGCTGC	0.572													107	237	---	---	---	---	PASS	T	149783774	T	T	149783774	2	4	91	1	0	0	0	0	0	0	0	1	7180	680	24	3		3	HIST2H2BF	1	149783774	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	4502224	149783774	99466847	36	34032										
RPRD2	23248	broad.mit.edu	37	chr1	150429815	150429815	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atttaaagaagaagttggatCaattgaagtcaacccttcca	7	7	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:150429815C>T	uc009wlr.2	+	8	1123	c.922C>T	c.(922-924)CAA>TAA	p.Q308*	RPRD2_uc010pcc.1_Nonsense_Mutation_p.Q282*|RPRD2_uc001eup.3_Nonsense_Mutation_p.Q282*	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	308							protein binding			ovary(1)	1						GAAGTTGGATCAATTGAAGTC	0.418													52	111	---	---	---	---	PASS	T	150429815	T	T	150429815	4	4	91	1	0	0	0	0	0	1	0	0	13617	827	29	2	952	2	RPRD2	1	150429815	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	646041	150429815	98820806	37	34033										
GOLPH3L	55204	broad.mit.edu	37	chr1	150620868	150620868	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggctttgtcccttccacttCagggtccagttctactaagt	8	12	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:150620868C>T	uc001evj.2	-	5	1004	c.787G>A	c.(787-789)GAA>AAA	p.E263K	GOLPH3L_uc010pci.1_Missense_Mutation_p.E219K	NM_018178	NP_060648	Q9H4A5	GLP3L_HUMAN	Golgi phosphoprotein 3-like	263						Golgi cisterna membrane				ovary(1)	1	all_cancers(9;3.09e-52)|all_epithelial(9;4.47e-43)|all_lung(15;1.09e-34)|Lung NSC(24;4.04e-31)|Breast(34;0.000615)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;1.2e-23)|all cancers(9;4.81e-23)|OV - Ovarian serous cystadenocarcinoma(6;1.93e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			CCTTCCACTTCAGGGTCCAGT	0.488													25	127	---	---	---	---	PASS	T	150620868	T	T	150620868	3	4	91	1	0	0	0	0	1	0	0	0	6569	835	29	2	74	2	GOLPH3L	1	150620868	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	191053	150620868	98629753	38	34034										
S100A13	6284	broad.mit.edu	37	chr1	153591394	153591394	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cttcttcctgatcttcaggtCtttcttcttcctgatttcct	4	13	6	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:153591394C>G	uc001fcf.3	-	3	433	c.274G>C	c.(274-276)GAC>CAC	p.D92H	S100A14_uc001fce.2_5'Flank|S100A13_uc001fcg.2_Missense_Mutation_p.D92H|S100A13_uc009woh.2_Missense_Mutation_p.D92H|S100A13_uc001fch.2_Missense_Mutation_p.D92H|S100A13_uc001fci.2_Missense_Mutation_p.D92H|S100A13_uc001fcj.2_Missense_Mutation_p.D92H	NM_001024213	NP_001019384	Q99584	S10AD_HUMAN	S100 calcium binding protein A13	92					interleukin-1 alpha secretion|mast cell degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|extracellular space|nucleus|perinuclear region of cytoplasm	calcium ion binding|copper ion binding|fibroblast growth factor 1 binding|lipid binding|protein homodimerization activity|RAGE receptor binding|zinc ion binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)		Amlexanox(DB01025)	ATCTTCAGGTCTTTCTTCTTC	0.517													33	242	---	---	---	---	PASS	G	153591394	G	G	153591394	3	3	91	1	0	0	0	0	1	0	0	0	13775	913	32	2	26	2	S100A13	1	153591394	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2970526	153591394	95659227	39	34035										
NES	10763	broad.mit.edu	37	chr1	156641286	156641286	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gatctcaaattctccaggttCcatgctcccagagatctcaa	6	13	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:156641286C>T	uc001fpq.2	-	4	2827	c.2694G>A	c.(2692-2694)TGG>TGA	p.W898*		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	898	Tail.			QGAMNPLEKEIQEPLESVEVNQETFRLLEEENQESLRSLGA WNLENLRSPEE -> KSGGNESSRKGNSRTTGVCGSEPRDI QTPGRGESGIIEISGSMEPGEFEISRG (in Ref. 1; CAA46780).	brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCTCCAGGTTCCATGCTCCCA	0.468													11	93	---	---	---	---	PASS	T	156641286	T	T	156641286	4	4	91	1	0	0	0	0	0	1	0	0	10337	856	30	2	2175	2	NES	1	156641286	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3049892	156641286	92609335	40	34036										
CD1A	909	broad.mit.edu	37	chr1	158226844	158226844	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctagagggccaggacatcgtCctctactggggtgagaaaaa	13	9	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:158226844C>T	uc001frt.2	+	4	1406	c.873C>T	c.(871-873)GTC>GTT	p.V291V		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	291	Extracellular (Potential).|Ig-like.				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	AGGACATCGTCCTCTACTGGG	0.572													20	61	---	---	---	---	PASS	T	158226844	T	T	158226844	2	4	91	1	0	0	0	0	0	0	0	1	2974	842	30	2		2	CD1A	1	158226844	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1585558	158226844	91023777	41	34037										
OR10R2	343406	broad.mit.edu	37	chr1	158449733	158449733	+	Missense_Mutation	SNP	G	T	T													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tttccccctttgcagatcttGgcagaaaacctcaccatggt					rs146148080	by1000genomes	TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:158449733G>T	uc010pik.1	+	1	66	c.66G>T	c.(64-66)TTG>TTT	p.L22F	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					TGCAGATCTTGGCAGAAAACC	0.363													42	177	---	---	---	---	PASS	T	158449733	T	T	158449733	3	4	91	1	0	0	0	0	1	0	0	0	10917	1339	47	3	68	3	OR10R2	1	158449733	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	222889	158449733	90800888	42	34038	654	2								
OR10R2	343406	broad.mit.edu	37	chr1	158449734	158449734	+	Missense_Mutation	SNP	G	T	T													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttccccctttgcagatcttgGcagaaaacctcaccatggtc							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:158449734G>T	uc010pik.1	+	1	67	c.67G>T	c.(67-69)GCA>TCA	p.A23S	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	23	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					GCAGATCTTGGCAGAAAACCT	0.363													42	176	---	---	---	---	PASS	T	158449734	T	T	158449734	3	4	91	1	0	0	0	0	1	0	0	0	10917	1203	42	3	69	3	OR10R2	1	158449734	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1	158449734	90800887	43	34039	654	2								
NCSTN	23385	broad.mit.edu	37	chr1	160323932	160323932	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggatctcctggccacattgGagaagagtggtgctggtgtc	15	8	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:160323932G>C	uc001fvx.2	+	11	1328	c.1204G>C	c.(1204-1206)GAG>CAG	p.E402Q	NCSTN_uc001fvy.2_Missense_Mutation_p.E382Q|NCSTN_uc010pjf.1_Missense_Mutation_p.E264Q|NCSTN_uc001fvz.2_Missense_Mutation_p.E182Q|NCSTN_uc010pjg.1_Missense_Mutation_p.E144Q	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	402	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GGCCACATTGGAGAAGAGTGG	0.567													7	54	---	---	---	---	PASS	C	160323932	C	C	160323932	3	2	91	1	0	0	0	0	1	0	0	0	10241	1175	41	2	1246	2	NCSTN	1	160323932	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1874198	160323932	88926689	44	34040										
B4GALT3	8703	broad.mit.edu	37	chr1	161141748	161141748	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagaaggagcccgaggacccCgagggtcagtcccaatgtct	13	13	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:161141748C>T	uc001fyq.1	-	8	1302	c.1040G>A	c.(1039-1041)CGG>CAG	p.R347Q	PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_Intron|B4GALT3_uc001fyo.1_Missense_Mutation_p.R127Q|B4GALT3_uc001fyp.1_RNA|B4GALT3_uc001fyr.1_Missense_Mutation_p.R347Q|B4GALT3_uc001fys.1_Missense_Mutation_p.R347Q	NM_003779	NP_003770	O60512	B4GT3_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	347	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|metal ion binding|N-acetyllactosamine synthase activity				0	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)		N-Acetyl-D-glucosamine(DB00141)	CCGAGGACCCCGAGGGTCAGT	0.607													34	70	---	---	---	---	PASS	T	161141748	T	T	161141748	3	4	91	1	0	0	0	0	1	0	0	0	1272	652	23	1	145	1	B4GALT3	1	161141748	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	817816	161141748	88108873	45	34041										
UHMK1	127933	broad.mit.edu	37	chr1	162469927	162469927	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggcccttgcttttcttcatCatgagggctatgtccatgcg	10	11	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:162469927C>T	uc001gcc.1	+	2	587	c.451C>T	c.(451-453)CAT>TAT	p.H151Y	UHMK1_uc001gcb.1_Missense_Mutation_p.H77Y|UHMK1_uc009wuu.1_Missense_Mutation_p.H151Y	NM_175866	NP_787062	Q8TAS1	UHMK1_HUMAN	kinase interacting stathmin	151	Protein kinase.				cell cycle arrest|neuron projection development|peptidyl-serine phosphorylation|positive regulation of translational initiation|protein autophosphorylation|regulation of protein export from nucleus	axon|dendrite cytoplasm|neuronal RNA granule|nucleus	protein binding|protein serine/threonine kinase activity|ribonucleoprotein binding|RNA binding				0	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			TTTTCTTCATCATGAGGGCTA	0.433													25	103	---	---	---	---	PASS	T	162469927	T	T	162469927	3	4	91	1	0	0	0	0	1	0	0	0	16963	826	29	2	507	2	UHMK1	1	162469927	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1328179	162469927	86780694	46	34042										
POGK	57645	broad.mit.edu	37	chr1	166818626	166818626	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagcgtgtggccgaatatgtCagatacatgcaggccaaagg	13	9	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:166818626C>G	uc001gdt.1	+	5	930	c.810C>G	c.(808-810)GTC>GTG	p.V270V	POGK_uc010ple.1_Silent_p.V185V|POGK_uc010plf.1_Silent_p.V152V	NM_017542	NP_060012	Q9P215	POGK_HUMAN	pogo transposable element with KRAB domain	270	HTH CENPB-type.				multicellular organismal development|regulation of transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						CCGAATATGTCAGATACATGC	0.572													11	77	---	---	---	---	PASS	G	166818626	G	G	166818626	2	3	91	1	0	0	0	0	0	0	0	1	12185	813	29	2		2	POGK	1	166818626	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	4348699	166818626	82431995	47	34043										
C1orf9	51430	broad.mit.edu	37	chr1	172526451	172526451	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aatctggtactattccgataGccaaaccaagtgaaactgag	8	9	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:172526451G>C	uc001giq.3	+	5	791	c.475G>C	c.(475-477)GCC>CCC	p.A159P	C1orf9_uc010pmm.1_Missense_Mutation_p.A159P|C1orf9_uc009wwd.2_Missense_Mutation_p.A122P|C1orf9_uc010pmn.1_Missense_Mutation_p.A122P|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	159					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		TATTCCGATAGCCAAACCAAG	0.358													25	195	---	---	---	---	PASS	C	172526451	C	C	172526451	3	2	91	1	0	0	0	0	1	0	0	0	2067	971	34	4	493	4	C1orf9	1	172526451	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	5707825	172526451	76724170	48	34044										
IVNS1ABP	10625	broad.mit.edu	37	chr1	185269418	185269418	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tatgtttgaatcatacatctCtccacaactcaggtcatctg	5	11	5	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:185269418C>G	uc001grl.2	-	12	1923	c.1300G>C	c.(1300-1302)GAG>CAG	p.E434Q	IVNS1ABP_uc001gri.2_Missense_Mutation_p.E94Q|IVNS1ABP_uc001grj.2_Missense_Mutation_p.E94Q|IVNS1ABP_uc009wyj.2_Missense_Mutation_p.E216Q|IVNS1ABP_uc009wyk.2_RNA|IVNS1ABP_uc001grm.2_Missense_Mutation_p.E94Q	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	434	Kelch 2.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						TCATACATCTCTCCACAACTC	0.413													5	49	---	---	---	---	PASS	G	185269418	G	G	185269418	3	3	91	1	0	0	0	0	1	0	0	0	7930	922	32	2	644	2	IVNS1ABP	1	185269418	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	12742967	185269418	63981203	49	34045										
IVNS1ABP	10625	broad.mit.edu	37	chr1	185270191	185270191	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	catgggcttttcgattagctCatcttgttgcatctcaaagc	8	10	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:185270191C>T	uc001grl.2	-	10	1656	c.1033G>A	c.(1033-1035)GAG>AAG	p.E345K	IVNS1ABP_uc001gri.2_Missense_Mutation_p.E5K|IVNS1ABP_uc001grj.2_Missense_Mutation_p.E5K|IVNS1ABP_uc009wyj.2_Missense_Mutation_p.E127K|IVNS1ABP_uc009wyk.2_RNA|IVNS1ABP_uc001grm.2_Missense_Mutation_p.E5K	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	345	Sufficient for AHR interaction and signaling.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						TCGATTAGCTCATCTTGTTGC	0.438													15	133	---	---	---	---	PASS	T	185270191	T	T	185270191	3	4	91	1	0	0	0	0	1	0	0	0	7930	835	29	2	919	2	IVNS1ABP	1	185270191	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	773	185270191	63980430	50	34046										
F13B	2165	broad.mit.edu	37	chr1	197019883	197019883	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aacaataggcctccctagatCcttctaggaaatggtgatca	8	10	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:197019883C>A	uc001gtt.1	-	10	1726	c.1682G>T	c.(1681-1683)GGA>GTA	p.G561V		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	561	Sushi 9.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CTCCCTAGATCCTTCTAGGAA	0.353													23	71	---	---	---	---	PASS	A	197019883	A	A	197019883	3	1	91	1	0	0	0	0	1	0	0	0	5341	855	30	2	315	2	F13B	1	197019883	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	11749692	197019883	52230738	51	34047										
CRB1	23418	broad.mit.edu	37	chr1	197390763	197390763	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcctactccacttgaaagtgAtcaatcaatatgtgcttttc	5	10	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:197390763A>T	uc001gtz.2	+	6	1940	c.1805A>T	c.(1804-1806)GAT>GTT	p.D602V	CRB1_uc010poz.1_Missense_Mutation_p.D533V|CRB1_uc010ppa.1_Intron|CRB1_uc009wza.2_Missense_Mutation_p.D490V|CRB1_uc010ppb.1_Missense_Mutation_p.D602V|CRB1_uc010ppc.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.D83V|CRB1_uc001gub.1_Missense_Mutation_p.D251V	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	602	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						CTTGAAAGTGATCAATCAATA	0.438													55	132	---	---	---	---	PASS	T	197390763	T	T	197390763	3	4	91	1	0	0	0	0	1	0	0	0	3848	333	12	5	1827	5	CRB1	1	197390763	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	370880	197390763	51859858	52	34048										
DENND1B	163486	broad.mit.edu	37	chr1	197479678	197479678	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gacataatgacactacttcaTggagcagtccaatatcttct	6	10	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:197479678T>C	uc010ppe.1	-	22	2518	c.2180A>G	c.(2179-2181)CAT>CGT	p.H727R	DENND1B_uc010ppf.1_RNA	NM_001142795	NP_001136267	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 1	Error:Variant_position_missing_in_Q6P3S1_after_alignment						clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						CACTACTTCATGGAGCAGTCC	0.408													37	69	---	---	---	---	PASS	C	197479678	C	C	197479678	3	2	91	1	0	0	0	0	1	0	0	0	4427	1464	51	5	91	5	DENND1B	1	197479678	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	88915	197479678	51770943	53	34049										
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200822482	200822482	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttaggcaagaatatatgaggCggaaacaactgaaactaatg	10	5	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:200822482C>T	uc001gvl.2	+	14	3985	c.3715C>T	c.(3715-3717)CGG>TGG	p.R1239W	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.R1228W|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.R1212W	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	1239						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						ATATATGAGGCGGAAACAACT	0.368													4	88	---	---	---	---	PASS	T	200822482	T	T	200822482	3	4	91	1	0	0	0	0	1	0	0	0	2612	759	27	1	3732	1	CAMSAP1L1	1	200822482	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3342804	200822482	48428139	54	34050										
PPP1R12B	4660	broad.mit.edu	37	chr1	202464542	202464542	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gctatggacaaatagattttCagtccctgattctgagagtt	9	7	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:202464542C>T	uc001gya.1	+	16	2411	c.2267C>T	c.(2266-2268)TCA>TTA	p.S756L	PPP1R12B_uc001gxz.1_Missense_Mutation_p.S756L|PPP1R12B_uc001gyb.1_5'UTR|PPP1R12B_uc001gyc.1_5'UTR	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	756					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			AATAGATTTTCAGTCCCTGAT	0.478													8	114	---	---	---	---	PASS	T	202464542	T	T	202464542	3	4	91	1	0	0	0	0	1	0	0	0	12355	838	29	2	2419	2	PPP1R12B	1	202464542	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1642060	202464542	46786079	55	34051										
PPP1R12B	4660	broad.mit.edu	37	chr1	202464554	202464554	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tagattttcagtccctgattCtgagagttcagagactacca	8	9	3	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:202464554C>A	uc001gya.1	+	16	2423	c.2279C>A	c.(2278-2280)TCT>TAT	p.S760Y	PPP1R12B_uc001gxz.1_Missense_Mutation_p.S760Y|PPP1R12B_uc001gyb.1_Translation_Start_Site|PPP1R12B_uc001gyc.1_Translation_Start_Site	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	760					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			GTCCCTGATTCTGAGAGTTCA	0.468													9	101	---	---	---	---	PASS	A	202464554	A	A	202464554	3	1	91	1	0	0	0	0	1	0	0	0	12355	913	32	2	2431	2	PPP1R12B	1	202464554	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	12	202464554	46786067	56	34052										
LAMB3	3914	broad.mit.edu	37	chr1	209791921	209791921	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gatctcattcatcttctgcaGaacagtagctgagtctgtgg	10	9	5	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:209791921G>A	uc001hhg.2	-	18	3175	c.2785C>T	c.(2785-2787)CTG>TTG	p.L929L	LAMB3_uc009xco.2_Silent_p.L929L|LAMB3_uc001hhh.2_Silent_p.L929L	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	929	Domain I.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		ATCTTCTGCAGAACAGTAGCT	0.607													11	85	---	---	---	---	PASS	A	209791921	A	A	209791921	2	1	91	1	0	0	0	0	0	0	0	1	8612	933	33	2		2	LAMB3	1	209791921	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	7327367	209791921	39458700	57	34053										
USH2A	7399	broad.mit.edu	37	chr1	215822039	215822039	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaagcaggtgcaggcctctaCtccaatagagtagttagtga	12	8	1	2	rs147532612	byFrequency	TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:215822039C>T	uc001hku.1	-	66	14800	c.14413G>A	c.(14413-14415)GTA>ATA	p.V4805I		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4805	Fibronectin type-III 33.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CAGGCCTCTACTCCAATAGAG	0.542										HNSCC(13;0.011)			30	56	---	---	---	---	PASS	T	215822039	T	T	215822039	3	4	91	1	0	0	0	0	1	0	0	0	17033	565	20	3	1223	3	USH2A	1	215822039	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	6030118	215822039	33428582	58	34054										
USH2A	7399	broad.mit.edu	37	chr1	216373226	216373226	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caccagccaaaggggcacagGacaaaatatatttctctatg	8	10	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:216373226G>T	uc001hku.1	-	17	3941	c.3554C>A	c.(3553-3555)TCC>TAC	p.S1185Y	USH2A_uc001hkv.2_Missense_Mutation_p.S1185Y	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1185	Extracellular (Potential).|Fibronectin type-III 2.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AGGGGCACAGGACAAAATATA	0.428										HNSCC(13;0.011)			49	169	---	---	---	---	PASS	T	216373226	T	T	216373226	3	4	91	1	0	0	0	0	1	0	0	0	17033	1174	41	2	12292	2	USH2A	1	216373226	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	551187	216373226	32877395	59	34055										
GPATCH2	55105	broad.mit.edu	37	chr1	217665061	217665061	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aacaatttttcttgtgtcctCtttcagctcgattatctctc	4	11	4	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:217665061C>G	uc001hlf.1	-	8	1334	c.1238G>C	c.(1237-1239)AGA>ACA	p.R413T	GPATCH2_uc009xdq.1_RNA	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	413						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		CTTGTGTCCTCTTTCAGCTCG	0.313													18	97	---	---	---	---	PASS	G	217665061	G	G	217665061	3	3	91	1	0	0	0	0	1	0	0	0	6591	913	32	2	360	2	GPATCH2	1	217665061	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1291835	217665061	31585560	60	34056										
MIA3	375056	broad.mit.edu	37	chr1	222802391	222802391	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggccaaactgcacacgctttCagtggagcatcaacgtgagg	12	11	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:222802391C>T	uc001hnl.2	+	4	1838	c.1829C>T	c.(1828-1830)TCA>TTA	p.S610L	MIA3_uc009xea.1_Missense_Mutation_p.S446L	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	610	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		CACACGCTTTCAGTGGAGCAT	0.478													18	163	---	---	---	---	PASS	T	222802391	T	T	222802391	3	4	91	1	0	0	0	0	1	0	0	0	9565	838	29	2	1843	2	MIA3	1	222802391	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	5137330	222802391	26448230	61	34057										
DISP1	84976	broad.mit.edu	37	chr1	223177892	223177892	+	Missense_Mutation	SNP	C	A	A													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gccgtcggcttgtctgtagaCtttgccgtccattatggggt					rs111796312	byFrequency	TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:223177892C>A	uc001hnu.1	+	8	3300	c.3153C>A	c.(3151-3153)GAC>GAA	p.D1051E		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1051	Helical; (Potential).				diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TGTCTGTAGACTTTGCCGTCC	0.542													63	128	---	---	---	---	PASS	A	223177892	A	A	223177892	3	1	91	1	0	0	0	0	1	0	0	0	4539	564	20	3	3179	3	DISP1	1	223177892	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	375501	223177892	26072729	62	34058	655	2								
DISP1	84976	broad.mit.edu	37	chr1	223177893	223177893	+	Missense_Mutation	SNP	T	G	G													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccgtcggcttgtctgtagacTttgccgtccattatggggtt							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:223177893T>G	uc001hnu.1	+	8	3301	c.3154T>G	c.(3154-3156)TTT>GTT	p.F1052V		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1052	Helical; (Potential).				diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		GTCTGTAGACTTTGCCGTCCA	0.537													62	129	---	---	---	---	PASS	G	223177893	G	G	223177893	3	3	91	1	0	0	0	0	1	0	0	0	4539	1609	56	5	3180	5	DISP1	1	223177893	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	1	223177893	26072728	63	34059	655	2								
LBR	3930	broad.mit.edu	37	chr1	225600282	225600282	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaaatgactgtacacgtaatGaaactctacgccctggaaga	8	9	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:225600282G>A	uc001hoy.2	-	8	1101	c.958C>T	c.(958-960)CAT>TAT	p.H320Y	LBR_uc001hoz.2_Missense_Mutation_p.H320Y|LBR_uc001hpa.1_Missense_Mutation_p.H320Y	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	320					cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		TACACGTAATGAAACTCTACG	0.408													15	84	---	---	---	---	PASS	A	225600282	A	A	225600282	3	1	91	1	0	0	0	0	1	0	0	0	8652	1290	45	2	917	2	LBR	1	225600282	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2422389	225600282	23650339	64	34060										
C1orf55	163859	broad.mit.edu	37	chr1	226175869	226175869	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	taaaatatgcctcccagagtCagtcaccgggatctgcagtt	9	11	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:226175869C>G	uc001hpu.3	-	6	915	c.862G>C	c.(862-864)GAC>CAC	p.D288H	C1orf55_uc001hpv.2_Missense_Mutation_p.D288H	NM_152608	NP_689821	Q6IQ49	CA055_HUMAN	hypothetical protein LOC163859	288										lung(1)	1	Breast(184;0.197)					CTCCCAGAGTCAGTCACCGGG	0.507													24	211	---	---	---	---	PASS	G	226175869	G	G	226175869	3	3	91	1	0	0	0	0	1	0	0	0	2047	826	29	2	501	2	C1orf55	1	226175869	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	575587	226175869	23074752	65	34061										
MRPL55	128308	broad.mit.edu	37	chr1	228295503	228295503	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggccctgctgctgtcagctcGccaggaggatgtgtgcaggc	16	12	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:228295503G>A	uc001hry.2	-	2	838	c.94C>T	c.(94-96)CGA>TGA	p.R32*	MRPL55_uc001hrz.3_Nonsense_Mutation_p.R68*|MRPL55_uc009xex.2_Nonsense_Mutation_p.R32*|MRPL55_uc001hsa.3_Nonsense_Mutation_p.R32*|MRPL55_uc001hsb.3_Nonsense_Mutation_p.R32*|MRPL55_uc001hsc.3_Nonsense_Mutation_p.R32*|MRPL55_uc001hsd.3_Nonsense_Mutation_p.R32*|MRPL55_uc001hse.3_Nonsense_Mutation_p.R32*|MRPL55_uc001hsf.3_Nonsense_Mutation_p.R32*|MRPL55_uc001hsg.3_Nonsense_Mutation_p.R32*	NM_181465	NP_852130	Q7Z7F7	RM55_HUMAN	mitochondrial ribosomal protein L55 isoform a	32					translation	mitochondrial large ribosomal subunit	structural constituent of ribosome			central_nervous_system(1)	1		Prostate(94;0.0405)				CTGTCAGCTCGCCAGGAGGAT	0.627													17	65	---	---	---	---	PASS	A	228295503	A	A	228295503	4	1	91	1	0	0	0	0	0	1	0	0	9819	1095	38	1	300	1	MRPL55	1	228295503	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2119634	228295503	20955118	66	34062										
OBSCN	84033	broad.mit.edu	37	chr1	228400408	228400408	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aagcagtcggaccgcggcctCtacacctgcacggcgtccaa	11	16	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:228400408C>G	uc009xez.1	+	2	968	c.924C>G	c.(922-924)CTC>CTG	p.L308L	OBSCN_uc001hsn.2_Silent_p.L308L|uc001hsm.1_RNA	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	308	Ig-like 3.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				ACCGCGGCCTCTACACCTGCA	0.682													4	38	---	---	---	---	PASS	G	228400408	G	G	228400408	2	3	91	1	0	0	0	0	0	0	0	1	10812	900	32	2		2	OBSCN	1	228400408	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	104905	228400408	20850213	67	34063										
ACTA1	58	broad.mit.edu	37	chr1	229567525	229567525	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctttctgcatgcggtcagcGatcccagggtacatcgtggt	12	11	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:229567525G>A	uc001htm.2	-	6	1038	c.933C>T	c.(931-933)ATC>ATT	p.I311I		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	311					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	TGCGGTCAGCGATCCCAGGGT	0.602													14	114	---	---	---	---	PASS	A	229567525	A	A	229567525	2	1	91	1	0	0	0	0	0	0	0	1	191	1048	37	2		2	ACTA1	1	229567525	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1167117	229567525	19683096	68	34064										
COG2	22796	broad.mit.edu	37	chr1	230795272	230795272	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgggtccagctggaagaactGagagatgacctggagctcta	14	9	1	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:230795272G>A	uc001htw.2	+	2	286	c.135G>A	c.(133-135)CTG>CTA	p.L45L	COG2_uc001htx.2_Silent_p.L45L|COG2_uc010pwc.1_5'UTR	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	45					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				TGGAAGAACTGAGAGATGACC	0.383													11	148	---	---	---	---	PASS	A	230795272	A	A	230795272	2	1	91	1	0	0	0	0	0	0	0	1	3658	1277	45	2		2	COG2	1	230795272	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1227747	230795272	18455349	69	34065										
SIPA1L2	57568	broad.mit.edu	37	chr1	232551265	232551265	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aatgcccgtgcagcatccacGaggtgggtccaatctaaccc	10	14	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:232551265G>C	uc001hvg.2	-	17	4895	c.4737C>G	c.(4735-4737)CTC>CTG	p.L1579L	SIPA1L2_uc001hvf.2_Silent_p.L653L	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1579					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				CAGCATCCACGAGGTGGGTCC	0.582													21	96	---	---	---	---	PASS	C	232551265	C	C	232551265	2	2	91	1	0	0	0	0	0	0	0	1	14330	1045	37	2		2	SIPA1L2	1	232551265	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1755993	232551265	16699356	70	34066										
TARBP1	6894	broad.mit.edu	37	chr1	234569206	234569206	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aatggatgcatttttcaaaaGagaaataactctccagatag	7	6	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:234569206G>C	uc001hwd.2	-	14	2344	c.2344C>G	c.(2344-2346)CTT>GTT	p.L782V		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	782					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			TTTTTCAAAAGAGAAATAACT	0.398													17	110	---	---	---	---	PASS	C	234569206	C	C	234569206	3	2	91	1	0	0	0	0	1	0	0	0	15552	942	33	2	2589	2	TARBP1	1	234569206	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2017941	234569206	14681415	71	34067										
RYR2	6262	broad.mit.edu	37	chr1	237806719	237806719	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttggtgggcgttatcagcatCgcttttcagatgccaacaat	10	9	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:237806719C>G	uc001hyl.1	+	48	7434	c.7314C>G	c.(7312-7314)ATC>ATG	p.I2438M		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2438	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTATCAGCATCGCTTTTCAGA	0.438													27	130	---	---	---	---	PASS	G	237806719	G	G	237806719	3	3	91	1	0	0	0	0	1	0	0	0	13769	874	31	2	7504	2	RYR2	1	237806719	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3237513	237806719	11443902	72	34068										
CNST	163882	broad.mit.edu	37	chr1	246811316	246811316	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtctttctcttgatgatcttGccaaaaggatagagattgca	9	7	3	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:246811316G>C	uc001ibp.2	+	9	2191	c.1813G>C	c.(1813-1815)GCC>CCC	p.A605P	CNST_uc001ibo.3_Missense_Mutation_p.A605P	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	605					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						TGATGATCTTGCCAAAAGGAT	0.368													7	160	---	---	---	---	PASS	C	246811316	C	C	246811316	3	2	91	1	0	0	0	0	1	0	0	0	3634	1319	46	4	1843	4	CNST	1	246811316	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	9004597	246811316	2439305	73	34069										
OR2B11	127623	broad.mit.edu	37	chr1	247615256	247615256	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgaaggctttaggggagtccCctaagaagctatggttgtca	13	7	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:247615256C>A	uc010pyx.1	-	1	29	c.29G>T	c.(28-30)GGG>GTG	p.G10V		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			AGGGGAGTCCCCTAAGAAGCT	0.483													39	81	---	---	---	---	PASS	A	247615256	A	A	247615256	3	1	91	1	0	0	0	0	1	0	0	0	10988	623	22	3	927	3	OR2B11	1	247615256	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	803940	247615256	1635365	74	34070										
C1orf150	148823	broad.mit.edu	37	chr1	247737523	247737523	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cccatcagagatcctccctgAgctccaatgatgatggctat	8	13	1	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:247737523A>G	uc001idf.2	+	5	292	c.247A>G	c.(247-249)AGC>GGC	p.S83G	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	83											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)			ATCCTCCCTGAGCTCCAATGA	0.453													19	113	---	---	---	---	PASS	G	247737523	G	G	247737523	3	3	91	1	0	0	0	0	1	0	0	0	2004	304	11	5	265	5	C1orf150	1	247737523	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	122267	247737523	1513098	75	34071										
OR11L1	391189	broad.mit.edu	37	chr1	248004481	248004481	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agccaggtgggagccacatgTggaaaaggtctttctccggc	14	10	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:248004481T>A	uc001idn.1	-	1	718	c.718A>T	c.(718-720)ACA>TCA	p.T240S		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	240	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GAGCCACATGTGGAAAAGGTC	0.493													27	67	---	---	---	---	PASS	A	248004481	A	A	248004481	3	1	91	1	0	0	0	0	1	0	0	0	10930	1696	59	5	254	5	OR11L1	1	248004481	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	266958	248004481	1246140	76	34072										
TRIM58	25893	broad.mit.edu	37	chr1	248039238	248039238	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcccgccacggcgcacccgaGtctgctcttgaccgccgacc	10	20	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:248039238G>T	uc001ido.2	+	6	956	c.908G>T	c.(907-909)AGT>ATT	p.S303I	OR2W3_uc001idp.1_5'UTR	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	303	B30.2/SPRY.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GCGCACCCGAGTCTGCTCTTG	0.562													14	67	---	---	---	---	PASS	T	248039238	T	T	248039238	3	4	91	1	0	0	0	0	1	0	0	0	16528	1029	36	3	930	3	TRIM58	1	248039238	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	34757	248039238	1211383	77	34073										
SH3BP5L	80851	broad.mit.edu	37	chr1	249106336	249106336	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggctgctgccctcctccagCcccgcaccctcggccccctc	8	24	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr1:249106336C>A	uc001iew.1	-	7	1497	c.945G>T	c.(943-945)GGG>GGT	p.G315G	SH3BP5L_uc010pzp.1_Silent_p.G208G|SH3BP5L_uc010pzq.1_Silent_p.G283G|SH3BP5L_uc001iev.1_Silent_p.G196G	NM_030645	NP_085148	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	315											0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			CCTCCTCCAGCCCCGCACCCT	0.736													5	13	---	---	---	---	PASS	A	249106336	A	A	249106336	2	1	91	1	0	0	0	0	0	0	0	1	14248	726	26	3		3	SH3BP5L	1	249106336	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1067098	249106336	144285	78	34074										
CPSF3	51692	broad.mit.edu	37	chr2	9588382	9588382	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	attgaaagcagcactgattcGagaatatgaagataacgatg	10	5	0	5			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:9588382G>A	uc002qzo.1	+	11	1333	c.1298G>A	c.(1297-1299)CGA>CAA	p.R433Q	CPSF3_uc010ewx.1_Missense_Mutation_p.R384Q|CPSF3_uc002qzp.1_Missense_Mutation_p.R396Q|CPSF3_uc002qzq.1_Missense_Mutation_p.R10Q	NM_016207	NP_057291	Q9UKF6	CPSF3_HUMAN	cleavage and polyadenylation specific factor 3,	433					histone mRNA 3'-end processing|mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex|ribonucleoprotein complex	5'-3' exonuclease activity|endoribonuclease activity|metal ion binding|protein binding|RNA binding			breast(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;2.39e-25)|all_epithelial(98;8.75e-19)|Lung NSC(108;2.38e-06)|Ovarian(717;0.0308)		all cancers(51;2.2e-40)|Epithelial(75;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(76;4.35e-21)|STAD - Stomach adenocarcinoma(1183;0.00644)		GCACTGATTCGAGAATATGAA	0.358													15	40	---	---	---	---	PASS	A	9588382	A	A	9588382	3	1	91	1	0	0	0	0	1	0	0	0	3826	1058	37	2	1340	2	CPSF3	2	9588382	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08		9588382	233610991	79	34075										
TAF1B	9014	broad.mit.edu	37	chr2	9991696	9991696	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gctgggattggtatgtgtgtGaaggtttccagtatattctt	13	4	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:9991696G>A	uc002qzz.2	+	4	332	c.232G>A	c.(232-234)GAA>AAA	p.E78K	TAF1B_uc010exc.2_Missense_Mutation_p.E78K|TAF1B_uc002qzy.3_Missense_Mutation_p.E78K|TAF1B_uc010yja.1_5'UTR|TAF1B_uc010exd.2_5'UTR	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	78					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GTATGTGTGTGAAGGTTTCCA	0.343													27	127	---	---	---	---	PASS	A	9991696	A	A	9991696	3	1	91	1	0	0	0	0	1	0	0	0	15517	1291	45	2	246	2	TAF1B	2	9991696	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	403314	9991696	233207677	80	34076										
TAF1B	9014	broad.mit.edu	37	chr2	9991740	9991740	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caacaagcagaagccttaaaGaaccttggagtaggcccaga	10	10	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:9991740G>C	uc002qzz.2	+	4	376	c.276G>C	c.(274-276)AAG>AAC	p.K92N	TAF1B_uc010exc.2_Missense_Mutation_p.K92N|TAF1B_uc002qzy.3_Missense_Mutation_p.K92N|TAF1B_uc010yja.1_5'UTR|TAF1B_uc010exd.2_5'UTR	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	92					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					AAGCCTTAAAGAACCTTGGAG	0.343													23	115	---	---	---	---	PASS	C	9991740	C	C	9991740	3	2	91	1	0	0	0	0	1	0	0	0	15517	933	33	2	290	2	TAF1B	2	9991740	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	44	9991740	233207633	81	34077										
GREB1	9687	broad.mit.edu	37	chr2	11706686	11706686	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tccctgcgggctttctcctcGtgggggtcaagtcccccagc	12	16	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:11706686G>A	uc002rbk.1	+	4	658	c.358G>A	c.(358-360)GTG>ATG	p.V120M	GREB1_uc002rbl.2_Missense_Mutation_p.V120M|GREB1_uc002rbm.2_Missense_Mutation_p.V10M|GREB1_uc002rbn.1_Missense_Mutation_p.V120M	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	120						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)		CTTTCTCCTCGTGGGGGTCAA	0.597													39	114	---	---	---	---	PASS	A	11706686	A	A	11706686	3	1	91	1	0	0	0	0	1	0	0	0	6760	1145	40	1	368	1	GREB1	2	11706686	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1714946	11706686	231492687	82	34078										
NBAS	51594	broad.mit.edu	37	chr2	15415908	15415908	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tccaatgcttcaagaggactCatgttttcatctgtcagctt	7	10	5	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:15415908C>G	uc002rcc.1	-	44	5450	c.5424G>C	c.(5422-5424)ATG>ATC	p.M1808I	NBAS_uc010exl.1_Missense_Mutation_p.M880I|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1808										ovary(2)|liver(1)|skin(1)	4						CAAGAGGACTCATGTTTTCAT	0.353													27	89	---	---	---	---	PASS	G	15415908	G	G	15415908	3	3	91	1	0	0	0	0	1	0	0	0	10186	826	29	2	1727	2	NBAS	2	15415908	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3709222	15415908	227783465	83	34079										
ITSN2	50618	broad.mit.edu	37	chr2	24484607	24484607	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gttctcctacggttttttcaTcaacctacggaaataaaaag	6	9	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:24484607T>A	uc002rfe.2	-	21	2618	c.2360A>T	c.(2359-2361)GAT>GTT	p.D787V	ITSN2_uc002rff.2_Missense_Mutation_p.D760V|ITSN2_uc002rfg.2_Missense_Mutation_p.D787V	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	787	SH3 1.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGTTTTTTCATCAACCTACGG	0.333													5	47	---	---	---	---	PASS	A	24484607	A	A	24484607	3	1	91	1	0	0	0	0	1	0	0	0	7927	1435	50	5	2864	5	ITSN2	2	24484607	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	9068699	24484607	218714766	84	34080										
TRMT61B	55006	broad.mit.edu	37	chr2	29092700	29092700	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tccccagcctgaaagggtctCtctctggaagttgaacaaga	10	11	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:29092700C>T	uc002rmm.2	-	1	476	c.444G>A	c.(442-444)GAG>GAA	p.E148E	TRMT61B_uc002rmn.2_Silent_p.E148E|TRMT61B_uc010ezk.2_RNA	NM_017910	NP_060380	Q9BVS5	TR61B_HUMAN	tRNA methyltransferase 61 homolog B	148							tRNA (adenine-N1-)-methyltransferase activity				0						GAAAGGGTCTCTCTCTGGAAG	0.493													12	57	---	---	---	---	PASS	T	29092700	T	T	29092700	2	4	91	1	0	0	0	0	0	0	0	1	16567	912	32	2		2	TRMT61B	2	29092700	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	4608093	29092700	214106673	85	34081										
CAPN13	92291	broad.mit.edu	37	chr2	30987131	30987131	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgaggtccaccagggcatccTcgaggaagccatagtgcaga	13	11	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:30987131T>C	uc002rnn.2	-	6	742	c.566A>G	c.(565-567)GAG>GGG	p.E189G	CAPN13_uc002rnp.1_Missense_Mutation_p.E189G	NM_144575	NP_653176	Q6MZZ7	CAN13_HUMAN	calpain 13	189	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			large_intestine(1)|ovary(1)	2	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					CAGGGCATCCTCGAGGAAGCC	0.587													9	23	---	---	---	---	PASS	C	30987131	C	C	30987131	3	2	91	1	0	0	0	0	1	0	0	0	2626	1551	54	5	1511	5	CAPN13	2	30987131	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	1894431	30987131	212212242	86	34082										
SOS1	6654	broad.mit.edu	37	chr2	39222389	39222390	+	Frame_Shift_Del	DEL	TC	-	-													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttggtgcagatgctgtacttTctgtttcactttcagggatc							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:39222389_39222390delTC	uc002rrk.3	-	20	3261_3262	c.3220_3221delGA	c.(3220-3222)GAAfs	p.E1074fs	SOS1_uc002rrj.3_Frame_Shift_Del_p.E688fs	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	1074					apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				TGCTGTACTTTCTGTTTCACTT	0.475									Noonan_syndrome				129	77	---	---	---	---		-	39222390	-	-	39222389	7	5	91	1	0	1	0	1	0	0	0	0	14936	1783	62	0	796	0	SOS1	2	39222389	Frame_Shift_Del	DEL	TC	TCGA-39-5031-01A-01D-1441-08	8235258	39222389	203976984	87	34083										
CDKL4	344387	broad.mit.edu	37	chr2	39411779	39411779	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aacatctgagaacttttcctCaagagtttcctgaaaaacaa	5	9	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:39411779C>G	uc002rrm.2	-	7	745	c.745G>C	c.(745-747)GAG>CAG	p.E249Q	CDKL4_uc010fal.1_Missense_Mutation_p.E249Q	NM_001009565	NP_001009565	Q5MAI5	CDKL4_HUMAN	cyclin-dependent kinase-like 4	249	Protein kinase.					cytoplasm	ATP binding|cyclin-dependent protein kinase activity			ovary(1)	1		all_hematologic(82;0.248)				AACTTTTCCTCAAGAGTTTCC	0.239													6	38	---	---	---	---	PASS	G	39411779	G	G	39411779	3	3	91	1	0	0	0	0	1	0	0	0	3156	835	29	2	210	2	CDKL4	2	39411779	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	189390	39411779	203787594	88	34084										
EML4	27436	broad.mit.edu	37	chr2	42483655	42483655	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctttaggccaaccaagccctCgagcagttattcccatgtcc	7	15	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:42483655C>T	uc002rsi.2	+	3	485	c.223C>T	c.(223-225)CGA>TGA	p.R75*	EML4_uc002rsh.3_Nonsense_Mutation_p.R75*|EML4_uc010fap.2_Nonsense_Mutation_p.R75*	NM_019063	NP_061936	Q9HC35	EMAL4_HUMAN	echinoderm microtubule associated protein like 4	75					microtubule-based process|mitosis	cytoplasm|microtubule	protein binding		EML4/ALK(246)	lung(246)|ovary(2)|central_nervous_system(1)|skin(1)	250						ACCAAGCCCTCGAGCAGTTAT	0.343			T	ALK	NSCLC								23	56	---	---	---	---	PASS	T	42483655	T	T	42483655	4	4	91	1	0	0	0	0	0	1	0	0	5099	876	31	2	233	2	EML4	2	42483655	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3071876	42483655	200715718	89	34085										
MSH6	2956	broad.mit.edu	37	chr2	48026133	48026133	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcagaaaccaagaatactttGagagctttctctgcccctca	6	12	3	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:48026133G>A	uc002rwd.3	+	4	1163	c.1011G>A	c.(1009-1011)TTG>TTA	p.L337L	MSH6_uc002rwc.2_Silent_p.L337L|MSH6_uc010fbj.2_Silent_p.L35L|MSH6_uc010yoi.1_Silent_p.L207L|MSH6_uc010yoj.1_Silent_p.L35L	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	337					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AGAATACTTTGAGAGCTTTCT	0.448			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				77	333	---	---	---	---	PASS	A	48026133	A	A	48026133	2	1	91	1	0	0	0	0	0	0	0	1	9874	1281	45	2		2	MSH6	2	48026133	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	5542478	48026133	195173240	90	34086										
KLRAQ1	129285	broad.mit.edu	37	chr2	48688336	48688336	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tagattagaggaatccttatCaatcatcaatgaaaaagtac	6	6	3	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:48688336C>G	uc002rwm.2	+	7	844	c.659C>G	c.(658-660)TCA>TGA	p.S220*	KLRAQ1_uc002rwi.1_Nonsense_Mutation_p.S220*|KLRAQ1_uc002rwj.2_Nonsense_Mutation_p.S220*|KLRAQ1_uc002rwl.2_Nonsense_Mutation_p.S174*|KLRAQ1_uc002rwk.2_Nonsense_Mutation_p.S220*|KLRAQ1_uc010yok.1_Nonsense_Mutation_p.S220*	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	220										ovary(1)	1						GAATCCTTATCAATCATCAAT	0.294													45	146	---	---	---	---	PASS	G	48688336	G	G	48688336	4	3	91	1	0	0	0	0	0	1	0	0	8413	838	29	2	685	2	KLRAQ1	2	48688336	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	662203	48688336	194511037	91	34087										
SPTBN1	6711	broad.mit.edu	37	chr2	54856492	54856492	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccattcggaagaagcgcctgGaggaggcctccctgctgcac	13	14	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:54856492G>C	uc002rxu.2	+	14	2470	c.2221G>C	c.(2221-2223)GAG>CAG	p.E741Q	SPTBN1_uc002rxv.1_Missense_Mutation_p.E741Q|SPTBN1_uc002rxx.2_Missense_Mutation_p.E728Q	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	741	Spectrin 5.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			GAAGCGCCTGGAGGAGGCCTC	0.587													9	256	---	---	---	---	PASS	C	54856492	C	C	54856492	3	2	91	1	0	0	0	0	1	0	0	0	15118	1175	41	2	2384	2	SPTBN1	2	54856492	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	6168156	54856492	188342881	92	34088										
CCDC88A	55704	broad.mit.edu	37	chr2	55561844	55561844	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttctacattccttcgcagttCtaagttttcctcatcaagtt	4	11	4	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:55561844C>T	uc002ryv.2	-	15	2955	c.2113G>A	c.(2113-2115)GAA>AAA	p.E705K	CCDC88A_uc010yoz.1_Missense_Mutation_p.E705K|CCDC88A_uc010ypa.1_Missense_Mutation_p.E705K|CCDC88A_uc010ypb.1_Missense_Mutation_p.E607K|CCDC88A_uc002ryu.2_5'UTR|CCDC88A_uc002ryw.2_5'UTR	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	705	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						CTTCGCAGTTCTAAGTTTTCC	0.333													25	228	---	---	---	---	PASS	T	55561844	T	T	55561844	3	4	91	1	0	0	0	0	1	0	0	0	2863	922	32	2	3574	2	CCDC88A	2	55561844	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	705352	55561844	187637529	93	34089										
CCDC88A	55704	broad.mit.edu	37	chr2	55576656	55576656	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gatattccaggtacaaacctCttgttgcagccttttgagtt	8	9	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:55576656C>T	uc002ryv.2	-	9	1722	c.880G>A	c.(880-882)GAG>AAG	p.E294K	CCDC88A_uc010yoz.1_Missense_Mutation_p.E294K|CCDC88A_uc010ypa.1_Missense_Mutation_p.E294K|CCDC88A_uc010ypb.1_Missense_Mutation_p.E196K	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	294	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						GTACAAACCTCTTGTTGCAGC	0.328													5	236	---	---	---	---	PASS	T	55576656	T	T	55576656	3	4	91	1	0	0	0	0	1	0	0	0	2863	922	32	2	4831	2	CCDC88A	2	55576656	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	14812	55576656	187622717	94	34090										
SMEK2	57223	broad.mit.edu	37	chr2	55806830	55806830	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctacccttttcacatttgtCttctgaagtattggtcaaaa	5	10	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:55806830C>G	uc002rzc.2	-	9	1828	c.1453G>C	c.(1453-1455)GAC>CAC	p.D485H	SMEK2_uc002rzb.2_Missense_Mutation_p.D485H|SMEK2_uc002rzd.2_Missense_Mutation_p.D485H|SMEK2_uc002rza.2_Missense_Mutation_p.D361H	NM_001122964	NP_001116436	Q5MIZ7	P4R3B_HUMAN	SMEK homolog 2, suppressor of mek1 isoform 1	485						microtubule organizing center|nucleus	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TCACATTTGTCTTCTGAAGTA	0.318													15	199	---	---	---	---	PASS	G	55806830	G	G	55806830	3	3	91	1	0	0	0	0	1	0	0	0	14794	913	32	2	1132	2	SMEK2	2	55806830	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	230174	55806830	187392543	95	34091										
USP34	9736	broad.mit.edu	37	chr2	61558465	61558465	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaatgtagtataccaaattaTcaaagaaaagcttcatcatg	6	6	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:61558465T>C	uc002sbe.2	-	20	2898	c.2876A>G	c.(2875-2877)GAT>GGT	p.D959G		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	959					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TACCAAATTATCAAAGAAAAG	0.343													131	71	---	---	---	---	PASS	C	61558465	C	C	61558465	3	2	91	1	0	0	0	0	1	0	0	0	17062	1435	50	5	8008	5	USP34	2	61558465	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	5751635	61558465	181640908	96	34092										
PLEK	5341	broad.mit.edu	37	chr2	68608007	68608007	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggaaatctaccaggaggtcCattcgactgccagaaaccat	9	11	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:68608007C>G	uc002sen.3	+	3	513	c.351C>G	c.(349-351)TCC>TCG	p.S117S	PLEK_uc010fde.2_Silent_p.S117S	NM_002664	NP_002655	P08567	PLEK_HUMAN	pleckstrin	117					actin cytoskeleton reorganization|cortical actin cytoskeleton organization|hemopoietic progenitor cell differentiation|inhibition of phospholipase C activity involved in G-protein coupled receptor signaling pathway|integrin-mediated signaling pathway|negative regulation of calcium-mediated signaling|negative regulation of inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|platelet aggregation|positive regulation of actin filament bundle assembly|positive regulation of actin filament depolymerization|positive regulation of inositol-polyphosphate 5-phosphatase activity|positive regulation of integrin activation|positive regulation of platelet activation|protein kinase C signaling cascade|protein secretion by platelet|regulation of cell diameter|ruffle organization|thrombin receptor signaling pathway|vesicle docking involved in exocytosis	cytosol|extracellular region|membrane fraction|ruffle membrane|soluble fraction	phosphatidylinositol-3,4-bisphosphate binding|protein homodimerization activity|protein kinase C binding			ovary(1)	1		Ovarian(717;0.0129)		STAD - Stomach adenocarcinoma(1183;0.00159)|READ - Rectum adenocarcinoma(193;0.0419)		CCAGGAGGTCCATTCGACTGC	0.458													84	217	---	---	---	---	PASS	G	68608007	G	G	68608007	2	3	91	1	0	0	0	0	0	0	0	1	12053	581	21	4		4	PLEK	2	68608007	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	7049542	68608007	174591366	97	34093										
AAK1	22848	broad.mit.edu	37	chr2	69704048	69704048	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tatcaatacaggaatagggtCaaactcatcttcagccacct	6	11	5	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:69704048C>A	uc002sfp.2	-	21	3260	c.2755G>T	c.(2755-2757)GAC>TAC	p.D919Y		NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	919						coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0						GGAATAGGGTCAAACTCATCT	0.428													24	53	---	---	---	---	PASS	A	69704048	A	A	69704048	3	1	91	1	0	0	0	0	1	0	0	0	16	826	29	2	138	2	AAK1	2	69704048	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1096041	69704048	173495325	98	34094										
C2orf7	84279	broad.mit.edu	37	chr2	73456011	73456011	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cacgtagaagctgtcattgtCaactgcgttgtcagagatga	11	8	3	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:73456011C>T	uc002siy.2	-	4	426	c.358G>A	c.(358-360)GAC>AAC	p.D120N		NM_032319	NP_115695	Q9BSG0	PADC1_HUMAN	chromosome 2 open reading frame 7 precursor	120	PA.					extracellular region					0						CTGTCATTGTCAACTGCGTTG	0.612													12	32	---	---	---	---	PASS	T	73456011	T	T	73456011	3	4	91	1	0	0	0	0	1	0	0	0	2189	826	29	2	216	2	C2orf7	2	73456011	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3751963	73456011	169743362	99	34095										
ALMS1	7840	broad.mit.edu	37	chr2	73826595	73826595	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tagtttcctgagctcaaactCtactttttgcaacaagcaga	6	10	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:73826595C>G	uc002sje.1	+	19	11729	c.11618C>G	c.(11617-11619)TCT>TGT	p.S3873C	ALMS1_uc002sjf.1_Missense_Mutation_p.S3829C|ALMS1_uc002sjh.1_Missense_Mutation_p.S3259C	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3871					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AGCTCAAACTCTACTTTTTGC	0.303													27	378	---	---	---	---	PASS	G	73826595	G	G	73826595	3	3	91	1	0	0	0	0	1	0	0	0	535	913	32	2	11678	2	ALMS1	2	73826595	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	370584	73826595	169372778	100	34096										
LRRTM4	80059	broad.mit.edu	37	chr2	76976038	76976038	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcaagggcttcatgtggtgtGgcatctggatatgagaaata	14	5	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:76976038G>T	uc002snr.2	-	4	1971	c.1556C>A	c.(1555-1557)CCA>CAA	p.P519Q	LRRTM4_uc002snq.2_Missense_Mutation_p.P519Q	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	519	Cytoplasmic (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		CATGTGGTGTGGCATCTGGAT	0.458													18	35	---	---	---	---	PASS	T	76976038	T	T	76976038	3	4	91	1	0	0	0	0	1	0	0	0	9042	1348	47	3	220	3	LRRTM4	2	76976038	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3149443	76976038	166223335	101	34097										
REG1A	5967	broad.mit.edu	37	chr2	79348017	79348017	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	accagctcatacttcatgctGatctcctgcctgatgtttct	6	13	4	2	rs113485193	byFrequency	TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:79348017G>A	uc002snz.2	+	2	133	c.30G>A	c.(28-30)CTG>CTA	p.L10L	REG1A_uc010ffx.1_Silent_p.L10L|REG1A_uc010ysd.1_Silent_p.L10L	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	10					positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						ACTTCATGCTGATCTCCTGCC	0.463													16	126	---	---	---	---	PASS	A	79348017	A	A	79348017	2	1	91	1	0	0	0	0	0	0	0	1	13210	1277	45	2		2	REG1A	2	79348017	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	2371979	79348017	163851356	102	34098										
TCF7L1	83439	broad.mit.edu	37	chr2	85361184	85361184	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggacactttccagaagccgCgggactatttcgccgaaggt	13	11	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:85361184C>A	uc002soy.2	+	2	369	c.295C>A	c.(295-297)CGG>AGG	p.R99R		NM_031283	NP_112573	Q9HCS4	TF7L1_HUMAN	HMG-box transcription factor TCF-3	99					chromatin organization|regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)|central_nervous_system(1)	3						CCAGAAGCCGCGGGACTATTT	0.706													14	41	---	---	---	---	PASS	A	85361184	A	A	85361184	2	1	91	1	0	0	0	0	0	0	0	1	15694	759	27	1		1	TCF7L1	2	85361184	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	6013167	85361184	157838189	103	34099										
KDM3A	55818	broad.mit.edu	37	chr2	86719209	86719209	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaagatgcagttgctatgctGaaagccagtgaatccagttt	10	7	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:86719209G>A	uc002sri.3	+	26	4260	c.3933G>A	c.(3931-3933)CTG>CTA	p.L1311L	KDM3A_uc010ytj.1_Silent_p.L1311L|KDM3A_uc010ytk.1_Silent_p.L1259L	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	1311					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						TTGCTATGCTGAAAGCCAGTG	0.393													13	76	---	---	---	---	PASS	A	86719209	A	A	86719209	2	1	91	1	0	0	0	0	0	0	0	1	8126	1277	45	2		2	KDM3A	2	86719209	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1358025	86719209	156480164	104	34100										
ACOXL	55289	broad.mit.edu	37	chr2	111542385	111542385	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	catggcggacatggccacagGagtgaaggtgagaggcgccg	18	9	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:111542385G>A	uc002tgr.3	+	3	376	c.152G>A	c.(151-153)GGA>GAA	p.G51E	ACOXL_uc010fkc.2_Missense_Mutation_p.G51E|ACOXL_uc010yxk.1_Missense_Mutation_p.G51E	NM_001105516	NP_001098986	Q9NUZ1	ACOXL_HUMAN	acyl-Coenzyme A oxidase-like 2	51					fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0						ATGGCCACAGGAGTGAAGGTG	0.493													22	86	---	---	---	---	PASS	A	111542385	A	A	111542385	3	1	91	1	0	0	0	0	1	0	0	0	161	1174	41	2	158	2	ACOXL	2	111542385	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	24823176	111542385	131656988	105	34101										
TTL	150465	broad.mit.edu	37	chr2	113258796	113258796	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctgttaggtgaaggcattctCatctcctcagaggcttcaga	10	10	4	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:113258796C>G	uc002thu.2	+	4	662	c.483C>G	c.(481-483)CTC>CTG	p.L161L	TTL_uc010fkm.1_5'Flank	NM_153712	NP_714923	Q8NG68	TTL_HUMAN	tubulin tyrosine ligase	161	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)		AAGGCATTCTCATCTCCTCAG	0.443			T	ETV6	ALL								13	94	---	---	---	---	PASS	G	113258796	G	G	113258796	2	3	91	1	0	0	0	0	0	0	0	1	16718	813	29	2		2	TTL	2	113258796	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1716411	113258796	129940577	106	34102										
MARCO	8685	broad.mit.edu	37	chr2	119732103	119732103	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctttcccttccaggcccctCgggaccccaaggcccaccgg	9	21	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:119732103C>G	uc002tln.1	+	6	707	c.575C>G	c.(574-576)TCG>TGG	p.S192W	MARCO_uc010yyf.1_Missense_Mutation_p.S114W	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	192	Collagen-like.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						CCAGGCCCCTCGGGACCCCAA	0.537													7	31	---	---	---	---	PASS	G	119732103	G	G	119732103	3	3	91	1	0	0	0	0	1	0	0	0	9311	893	31	2	597	2	MARCO	2	119732103	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	6473307	119732103	123467270	107	34103										
PCDP1	200373	broad.mit.edu	37	chr2	120362833	120362833	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaacagaaagtcagacaggaCattcacgaagagatggaaaa	11	6	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:120362833C>G	uc002tmb.2	+	12	1335	c.243C>G	c.(241-243)GAC>GAG	p.D81E	PCDP1_uc010yyq.1_Missense_Mutation_p.D211E	NM_001029996	NP_001025167	Q4G0U5	PCDP1_HUMAN	primary ciliary dyskinesia protein 1	367				D -> G (in Ref. 2; BAG57111).		cilium	calmodulin binding				0	Colorectal(110;0.196)					TCAGACAGGACATTCACGAAG	0.373													36	56	---	---	---	---	PASS	G	120362833	G	G	120362833	3	3	91	1	0	0	0	0	1	0	0	0	11572	477	17	4	253	4	PCDP1	2	120362833	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	630730	120362833	122836540	108	34104										
MYO7B	4648	broad.mit.edu	37	chr2	128366337	128366337	+	Frame_Shift_Del	DEL	A	-	-													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gccaaggcgctctccctgccAagaagcgcagatccatctac							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:128366337delA	uc002top.2	+	22	2751	c.2698delA	c.(2698-2700)AAGfs	p.K900fs		NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	900						apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		TCTCCCTGCCAAGAAGCGCAG	0.652													28	18	---	---	---	---		-	128366337	-	-	128366337	7	5	91	1	0	1	0	1	0	0	0	0	10083	131	5	0	2780	0	MYO7B	2	128366337	Frame_Shift_Del	DEL	A	TCGA-39-5031-01A-01D-1441-08	8003504	128366337	114833036	109	34105										
FAM123C	205147	broad.mit.edu	37	chr2	131520757	131520757	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagctccatcgacacaggcaCccccaagagcgagcagcccg	10	18	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:131520757C>A	uc002trw.2	+	2	1302	c.1112C>A	c.(1111-1113)ACC>AAC	p.T371N	FAM123C_uc010fmv.2_Missense_Mutation_p.T371N|FAM123C_uc010fms.1_Missense_Mutation_p.T371N|FAM123C_uc010fmt.1_Missense_Mutation_p.T371N|FAM123C_uc010fmu.1_Missense_Mutation_p.T371N	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	371										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GACACAGGCACCCCCAAGAGC	0.627													39	39	---	---	---	---	PASS	A	131520757	A	A	131520757	3	1	91	1	0	0	0	0	1	0	0	0	5424	507	18	3	1114	3	FAM123C	2	131520757	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3154420	131520757	111678616	110	34106										
ACMSD	130013	broad.mit.edu	37	chr2	135630170	135630170	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acacagatgctttggttcatGatcctctgtccctcaagctg	8	12	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:135630170G>A	uc002ttz.2	+	8	875	c.808G>A	c.(808-810)GAT>AAT	p.D270N	ACMSD_uc002tua.2_Missense_Mutation_p.D212N|uc010zbe.1_Intron	NM_138326	NP_612199	Q8TDX5	ACMSD_HUMAN	aminocarboxymuconate semialdehyde decarboxylase	270					quinolinate metabolic process|tryptophan catabolic process	cytosol	aminocarboxymuconate-semialdehyde decarboxylase activity|metal ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.115)		TTTGGTTCATGATCCTCTGTC	0.507													44	57	---	---	---	---	PASS	A	135630170	A	A	135630170	3	1	91	1	0	0	0	0	1	0	0	0	144	1290	45	2	838	2	ACMSD	2	135630170	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4109413	135630170	107569203	111	34107										
ZEB2	9839	broad.mit.edu	37	chr2	145156514	145156514	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aattcgtaacactgttgtggAgttctgctatagatggtgat	11	5	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:145156514A>T	uc002tvu.2	-	8	2720	c.2240T>A	c.(2239-2241)CTC>CAC	p.L747H	ZEB2_uc002tvv.2_Missense_Mutation_p.L741H|ZEB2_uc010zbm.1_Missense_Mutation_p.L718H|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.L776H	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	747						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		ACTGTTGTGGAGTTCTGCTAT	0.428													130	183	---	---	---	---	PASS	T	145156514	T	T	145156514	3	4	91	1	0	0	0	0	1	0	0	0	17621	304	11	5	1416	5	ZEB2	2	145156514	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	9526344	145156514	98042859	112	34108										
KCNH7	90134	broad.mit.edu	37	chr2	163256909	163256909	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caatgtctggttgagatgtaGacaaatgtctgcttgtaagc	11	6	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:163256909G>C	uc002uch.1	-	10	2409	c.2197C>G	c.(2197-2199)CTA>GTA	p.L733V		NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	733	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	TTGAGATGTAGACAAATGTCT	0.443													23	136	---	---	---	---	PASS	C	163256909	C	C	163256909	3	2	91	1	0	0	0	0	1	0	0	0	8037	933	33	2	1421	2	KCNH7	2	163256909	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	18100395	163256909	79942464	113	34109										
ITGA6	3655	broad.mit.edu	37	chr2	173355770	173355770	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggagtctcacaactcaagaAagaaacgggaaattactgaa	9	7	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:173355770A>G	uc002uhp.1	+	21	2901	c.2698A>G	c.(2698-2700)AAG>GAG	p.K900E	ITGA6_uc010zdy.1_Missense_Mutation_p.K781E|ITGA6_uc002uho.1_Missense_Mutation_p.K900E|ITGA6_uc010fqm.1_Missense_Mutation_p.K531E	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a	939	Extracellular (Potential).				blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			CAACTCAAGAAAGAAACGGGA	0.313													102	107	---	---	---	---	PASS	G	173355770	G	G	173355770	3	3	91	1	0	0	0	0	1	0	0	0	7880	15	1	5	2780	5	ITGA6	2	173355770	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	10098861	173355770	69843603	114	34110										
OLA1	29789	broad.mit.edu	37	chr2	174987919	174987919	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaaacttaccatttgtttttCtttctaatgtagtctttttc	3	7	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:174987919C>T	uc002uih.2	-	7	903	c.717G>A	c.(715-717)AAG>AAA	p.K239K	OLA1_uc002uii.2_Silent_p.K81K|OLA1_uc010fqq.2_Silent_p.K239K|OLA1_uc002uij.2_Silent_p.K81K|OLA1_uc002uik.2_Silent_p.K209K|OLA1_uc010fqr.2_Silent_p.K239K	NM_013341	NP_037473	Q9NTK5	OLA1_HUMAN	Obg-like ATPase 1 isoform 1	239					ATP catabolic process	cytoplasm	ATP binding|GTP binding|hydrolase activity|protein binding			ovary(1)|breast(1)	2						ATTTGTTTTTCTTTCTAATGT	0.343													11	44	---	---	---	---	PASS	T	174987919	T	T	174987919	2	4	91	1	0	0	0	0	0	0	0	1	10850	912	32	2		2	OLA1	2	174987919	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1632149	174987919	68211454	115	34111										
TTN	7273	broad.mit.edu	37	chr2	179506971	179506971	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaaaatactataccgcttttCagaacaacttcttcctttgg	4	10	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:179506971C>G	uc010zfg.1	-	168	33071	c.32847G>C	c.(32845-32847)CTG>CTC	p.L10949L	TTN_uc010zfh.1_Silent_p.L4644L|TTN_uc010zfi.1_Silent_p.L4577L|TTN_uc010zfj.1_Silent_p.L4452L|TTN_uc010fre.1_Silent_p.L827L|TTN_uc002umw.1_Intron|TTN_uc002umx.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11876							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)			TACCGCTTTTCAGAACAACTT	0.328													2	8	---	---	---	---	PASS	G	179506971	G	G	179506971	2	3	91	1	0	0	0	0	0	0	0	1	16732	813	29	2		2	TTN	2	179506971	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	4519052	179506971	63692402	116	34112										
TTN	7273	broad.mit.edu	37	chr2	179588843	179588843	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caccagtatttttcagtcttCgtgtgaaagagggaggaact	11	7	2	2	rs148072021	by1000genomes	TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:179588843C>A	uc010zfg.1	-	70	17635	c.17411G>T	c.(17410-17412)CGA>CTA	p.R5804L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.R2465L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6731							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)			TTTCAGTCTTCGTGTGAAAGA	0.418													25	27	---	---	---	---	PASS	A	179588843	A	A	179588843	3	1	91	1	0	0	0	0	1	0	0	0	16732	884	31	2	83546	2	TTN	2	179588843	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	81872	179588843	63610530	117	34113										
CCDC141	285025	broad.mit.edu	37	chr2	179730515	179730515	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcatttatctcgtctctcatGgcgcagtactccacactacg	6	14	4	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:179730515G>T	uc002unf.1	-	7	1035	c.978C>A	c.(976-978)GCC>GCA	p.A326A		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	326	Potential.						protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			CGTCTCTCATGGCGCAGTACT	0.522													181	222	---	---	---	---	PASS	T	179730515	T	T	179730515	2	4	91	1	0	0	0	0	0	0	0	1	2775	1335	47	3		3	CCDC141	2	179730515	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	141672	179730515	63468858	118	34114										
SGOL2	151246	broad.mit.edu	37	chr2	201436108	201436108	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctaatgcagagtgcatgaatCaaattgaggataatgatgac	10	5	1	5			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:201436108C>G	uc002uvw.2	+	7	1152	c.1039C>G	c.(1039-1041)CAA>GAA	p.Q347E	SGOL2_uc010zhd.1_Missense_Mutation_p.Q347E|SGOL2_uc010zhe.1_Missense_Mutation_p.Q347E	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	347					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						GTGCATGAATCAAATTGAGGA	0.368													19	39	---	---	---	---	PASS	G	201436108	G	G	201436108	3	3	91	1	0	0	0	0	1	0	0	0	14217	827	29	2	1061	2	SGOL2	2	201436108	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	21705593	201436108	41763265	119	34115										
AOX1	316	broad.mit.edu	37	chr2	201533380	201533380	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcatgggactttatacaataGaggaactgaattattctccc	8	8	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:201533380G>A	uc002uvx.2	+	33	3753	c.3652G>A	c.(3652-3654)GAG>AAG	p.E1218K	AOX1_uc010zhf.1_Missense_Mutation_p.E774K|AOX1_uc010fsu.2_Missense_Mutation_p.E584K	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	1218					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	TTATACAATAGAGGAACTGAA	0.428													65	144	---	---	---	---	PASS	A	201533380	A	A	201533380	3	1	91	1	0	0	0	0	1	0	0	0	729	943	33	2	3782	2	AOX1	2	201533380	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	97272	201533380	41665993	120	34116										
C2orf62	375307	broad.mit.edu	37	chr2	219232573	219232573	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtcaccttcgccgccgagttCttcggccccttcgacccgtg	10	18	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:219232573C>T	uc002vhr.2	+	10	1079	c.1050C>T	c.(1048-1050)TTC>TTT	p.F350F	C2orf62_uc002vhs.2_RNA|uc002vht.2_5'Flank	NM_198559	NP_940961	Q7Z7H3	CB062_HUMAN	hypothetical protein LOC375307	350											0		Renal(207;0.0915)		Epithelial(149;8.08e-07)|all cancers(144;0.000146)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCGCCGAGTTCTTCGGCCCCT	0.701													30	29	---	---	---	---	PASS	T	219232573	T	T	219232573	2	4	91	1	0	0	0	0	0	0	0	1	2181	912	32	2		2	C2orf62	2	219232573	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	17699193	219232573	23966800	121	34117										
RQCD1	9125	broad.mit.edu	37	chr2	219457065	219457065	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagaagatcttgttagatgaCactggtttggcttatatatg	10	5	1	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:219457065C>T	uc010zkh.1	+	6	579	c.579C>T	c.(577-579)GAC>GAT	p.D193D	RQCD1_uc002vih.1_Silent_p.D193D|RQCD1_uc010zki.1_Silent_p.D225D	NM_005444	NP_005435	Q92600	RCD1_HUMAN	RCD1 required for cell differentiation1 homolog	193					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|sex differentiation|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(1)|skin(1)	2		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000192)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGTTAGATGACACTGGTTTGG	0.378													74	141	---	---	---	---	PASS	T	219457065	T	T	219457065	2	4	91	1	0	0	0	0	0	0	0	1	13670	477	17	3		3	RQCD1	2	219457065	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	224492	219457065	23742308	122	34118										
NDUFA10	4705	broad.mit.edu	37	chr2	240900568	240900568	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atccacttgtctcccacctcGgtgttgtacccagggctgta	9	14	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:240900568G>A	uc002vyn.2	-	10	1115	c.1035C>T	c.(1033-1035)ACC>ACT	p.T345T		NM_004544	NP_004535	O95299	NDUAA_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	345					mitochondrial electron transport, NADH to ubiquinone|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transport	mitochondrial matrix|mitochondrial respiratory chain complex I	ATP binding|NADH dehydrogenase (ubiquinone) activity|phosphotransferase activity, alcohol group as acceptor			central_nervous_system(1)	1		all_epithelial(40;4.26e-15)|Breast(86;4.4e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0396)|Lung NSC(271;0.128)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(121;7.82e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.5e-13)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;2.39e-05)|Lung(119;0.00519)|LUSC - Lung squamous cell carcinoma(224;0.0202)	NADH(DB00157)	CTCCCACCTCGGTGTTGTACC	0.562													4	54	---	---	---	---	PASS	A	240900568	A	A	240900568	2	1	91	1	0	0	0	0	0	0	0	1	10260	1103	39	1		1	NDUFA10	2	240900568	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	21443503	240900568	2298805	123	34119										
HDLBP	3069	broad.mit.edu	37	chr2	242176058	242176059	+	Frame_Shift_Del	DEL	TT	-	-													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cttccttggcagcctcacacTtttctttccggccagagatg							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr2:242176058_242176059delTT	uc002waz.2	-	21	3103_3104	c.2875_2876delAA	c.(2875-2877)AAGfs	p.K959fs	HDLBP_uc002wba.2_Frame_Shift_Del_p.K959fs|HDLBP_uc002wbb.2_Frame_Shift_Del_p.K911fs	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	959	KH 11.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		AGCCTCACACTTTTCTTTCCGG	0.614													67	57	---	---	---	---		-	242176059	-	-	242176058	7	5	91	1	0	1	0	1	0	0	0	0	7025	1609	56	0	962	0	HDLBP	2	242176058	Frame_Shift_Del	DEL	TT	TCGA-39-5031-01A-01D-1441-08	1275490	242176058	1023315	124	34120										
NUP210	23225	broad.mit.edu	37	chr3	13372064	13372064	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgatgctagaaagcctttctCatcaacatgcacaactggaa	7	10	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:13372064C>T	uc003bxv.1	-	30	4089	c.4006G>A	c.(4006-4008)GAG>AAG	p.E1336K		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1336	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)					AAGCCTTTCTCATCAACATGC	0.493													30	147	---	---	---	---	PASS	T	13372064	T	T	13372064	3	4	91	1	0	0	0	0	1	0	0	0	10760	835	29	2	1701	2	NUP210	3	13372064	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08		13372064	184650366	125	34121										
NUP210	23225	broad.mit.edu	37	chr3	13372096	13372096	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caactggaaccttttcgggtCcatccaggacgcggtagctc	11	13	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:13372096C>T	uc003bxv.1	-	30	4057	c.3974G>A	c.(3973-3975)GGA>GAA	p.G1325E		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1325	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)					CTTTTCGGGTCCATCCAGGAC	0.512													24	113	---	---	---	---	PASS	T	13372096	T	T	13372096	3	4	91	1	0	0	0	0	1	0	0	0	10760	855	30	2	1733	2	NUP210	3	13372096	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	32	13372096	184650334	126	34122										
NR2C2	7182	broad.mit.edu	37	chr3	15062303	15062303	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgtgaaggttgcaaaggtttCttcaaaaggagtgtgaggaa	14	3	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:15062303C>G	uc003bzj.3	+	5	637	c.420C>G	c.(418-420)TTC>TTG	p.F140L	NR2C2_uc003bzi.2_Missense_Mutation_p.F159L	NM_003298	NP_003289	P49116	NR2C2_HUMAN	nuclear receptor subfamily 2, group C, member 2	140	Nuclear receptor.				cell differentiation|nervous system development|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						GCAAAGGTTTCTTCAAAAGGA	0.443													19	86	---	---	---	---	PASS	G	15062303	G	G	15062303	3	3	91	1	0	0	0	0	1	0	0	0	10623	912	32	2	495	2	NR2C2	3	15062303	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1690207	15062303	182960127	127	34123										
GPD1L	23171	broad.mit.edu	37	chr3	32180216	32180216	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcgctgggaatcaccctcatCaaggtaactcgagtgcatgc	11	12	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:32180216C>G	uc003cew.2	+	3	423	c.363C>G	c.(361-363)ATC>ATG	p.I121M		NM_015141	NP_055956	Q8N335	GPD1L_HUMAN	glycerol-3-phosphate dehydrogenase 1-like	121					glycerol-3-phosphate catabolic process	glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|NAD binding|protein homodimerization activity				0						TCACCCTCATCAAGGTAACTC	0.488													28	42	---	---	---	---	PASS	G	32180216	G	G	32180216	3	3	91	1	0	0	0	0	1	0	0	0	6605	816	29	2	373	2	GPD1L	3	32180216	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	17117913	32180216	165842214	128	34124										
SUSD5	26032	broad.mit.edu	37	chr3	33195066	33195066	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctcctgccttgctgtcattcTtgcccacaaatggccccgag	8	16	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:33195066T>A	uc003cfo.1	-	5	1476	c.1058A>T	c.(1057-1059)AAG>ATG	p.K353M		NM_015551	NP_056366	O60279	SUSD5_HUMAN	sushi domain containing 5 precursor	353	Extracellular (Potential).				cell adhesion	integral to membrane	hyaluronic acid binding			ovary(1)|central_nervous_system(1)	2						GCTGTCATTCTTGCCCACAAA	0.547													16	41	---	---	---	---	PASS	A	33195066	A	A	33195066	3	1	91	1	0	0	0	0	1	0	0	0	15408	1609	56	5	835	5	SUSD5	3	33195066	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	1014850	33195066	164827364	129	34125										
GOLGA4	2803	broad.mit.edu	37	chr3	37367039	37367039	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gattcagctagatatttgctGtaagaaaaccgaagccttat	8	7	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:37367039G>T	uc003cgv.2	+	14	3966	c.3662G>T	c.(3661-3663)TGT>TTT	p.C1221F	GOLGA4_uc010hgr.1_Missense_Mutation_p.C782F|GOLGA4_uc003cgw.2_Missense_Mutation_p.C1243F|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.C1102F	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1221	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						GATATTTGCTGTAAGAAAACC	0.338													38	50	---	---	---	---	PASS	T	37367039	T	T	37367039	3	4	91	1	0	0	0	0	1	0	0	0	6555	1377	48	3	3786	3	GOLGA4	3	37367039	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4171973	37367039	160655391	130	34126										
ITGA9	3680	broad.mit.edu	37	chr3	37514854	37514854	+	Missense_Mutation	SNP	G	A	A													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctttctccagggaagaatcGgggcacgtcctgcggaaaga							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:37514854G>A	uc003chd.2	+	3	376	c.323G>A	c.(322-324)CGG>CAG	p.R108Q	ITGA9_uc003chc.2_Missense_Mutation_p.R108Q	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	108	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)		GGGAAGAATCGGGGCACGTCC	0.567													24	32	---	---	---	---	PASS	A	37514854	A	A	37514854	3	1	91	1	0	0	0	0	1	0	0	0	7883	1116	39	1	333	1	ITGA9	3	37514854	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	147815	37514854	160507576	131	34127	656	2								
ITGA9	3680	broad.mit.edu	37	chr3	37514855	37514855	+	Silent	SNP	G	T	T													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctttctccagggaagaatcgGggcacgtcctgcggaaagac							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:37514855G>T	uc003chd.2	+	3	377	c.324G>T	c.(322-324)CGG>CGT	p.R108R	ITGA9_uc003chc.2_Silent_p.R108R	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	108	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)		GGAAGAATCGGGGCACGTCCT	0.567													24	32	---	---	---	---	PASS	T	37514855	T	T	37514855	2	4	91	1	0	0	0	0	0	0	0	1	7883	1219	43	3		3	ITGA9	3	37514855	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1	37514855	160507575	132	34128	656	2								
KBTBD5	131377	broad.mit.edu	37	chr3	42730526	42730526	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctgaccagttctgccgaagtGtacagcatcacagacaacaa	8	12	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:42730526G>T	uc003clv.1	+	4	1687	c.1587G>T	c.(1585-1587)GTG>GTT	p.V529V		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	529	Kelch 4.									ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		CTGCCGAAGTGTACAGCATCA	0.582													18	34	---	---	---	---	PASS	T	42730526	T	T	42730526	2	4	91	1	0	0	0	0	0	0	0	1	7996	1364	48	3		3	KBTBD5	3	42730526	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	5215671	42730526	155291904	133	34129										
CELSR3	1951	broad.mit.edu	37	chr3	48682912	48682912	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgaatccccagcaggaagagGagctctgccacccccagggc	12	15	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:48682912G>A	uc003cul.2	-	24	8042	c.7761C>T	c.(7759-7761)CTC>CTT	p.L2587L	CELSR3_uc003cuf.1_Silent_p.L2657L|CELSR3_uc010hkf.2_5'Flank|CELSR3_uc010hkg.2_Silent_p.L570L	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	2587	Helical; Name=2; (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GCAGGAAGAGGAGCTCTGCCA	0.632													9	80	---	---	---	---	PASS	A	48682912	A	A	48682912	2	1	91	1	0	0	0	0	0	0	0	1	3223	1161	41	2		2	CELSR3	3	48682912	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	5952386	48682912	149339518	134	34130										
CELSR3	1951	broad.mit.edu	37	chr3	48682972	48682972	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atcccacgcacattggacttGaggctgcgcaggctcagcag	12	13	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:48682972G>C	uc003cul.2	-	24	7982	c.7701C>G	c.(7699-7701)CTC>CTG	p.L2567L	CELSR3_uc003cuf.1_Silent_p.L2637L|CELSR3_uc010hkf.2_5'Flank|CELSR3_uc010hkg.2_Silent_p.L550L	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	2567	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CATTGGACTTGAGGCTGCGCA	0.637													4	56	---	---	---	---	PASS	C	48682972	C	C	48682972	2	2	91	1	0	0	0	0	0	0	0	1	3223	1277	45	2		2	CELSR3	3	48682972	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	60	48682972	149339458	135	34131										
BSN	8927	broad.mit.edu	37	chr3	49694176	49694176	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gctgcaagaggagctagagcGggaacgtgtggagctgcaga	18	7	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:49694176G>A	uc003cxe.3	+	5	7301	c.7187G>A	c.(7186-7188)CGG>CAG	p.R2396Q		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2396	Potential.				synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		GAGCTAGAGCGGGAACGTGTG	0.627													4	8	---	---	---	---	PASS	A	49694176	A	A	49694176	3	1	91	1	0	0	0	0	1	0	0	0	1530	1116	39	1	7205	1	BSN	3	49694176	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1011204	49694176	148328254	136	34132										
SEMA3B	7869	broad.mit.edu	37	chr3	50310865	50310865	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tccgtgtcccgcgttggccaGatctgccgggtgaggagtcc	15	13	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:50310865G>A	uc003cyu.2	+	9	1043	c.801G>A	c.(799-801)CAG>CAA	p.Q267Q	SEMA3B_uc010hlh.1_RNA|SEMA3B_uc003cyt.2_Silent_p.Q267Q|SEMA3B_uc003cyv.2_Silent_p.Q154Q|SEMA3B_uc003cyw.2_5'UTR|SEMA3B_uc010hli.2_Silent_p.Q154Q|SEMA3B_uc003cyx.2_Silent_p.Q154Q|SEMA3B_uc003cyy.2_5'UTR|SEMA3B_uc011bdo.1_Intron	NM_004636	NP_004627	Q13214	SEM3B_HUMAN	semaphorin 3B isoform 1 precursor	267	Sema.				axon guidance|cell-cell signaling	endoplasmic reticulum|extracellular region|membrane	receptor activity			lung(2)|central_nervous_system(2)|kidney(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		GCGTTGGCCAGATCTGCCGGG	0.662											OREG0015583	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	70	---	---	---	---	PASS	A	50310865	A	A	50310865	2	1	91	1	0	0	0	0	0	0	0	1	14025	933	33	2		2	SEMA3B	3	50310865	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	616689	50310865	147711565	137	34133										
SEMA3G	56920	broad.mit.edu	37	chr3	52476875	52476875	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acatggcctggaggttcaggGagccctgggggcccagaaag	17	10	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:52476875G>C	uc003dea.1	-	2	164	c.164C>G	c.(163-165)TCC>TGC	p.S55C		NM_020163	NP_064548	Q9NS98	SEM3G_HUMAN	semaphorin sem2 precursor	55	Sema.				multicellular organismal development	extracellular region|membrane	receptor activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00173)|KIRC - Kidney renal clear cell carcinoma(197;0.00196)|OV - Ovarian serous cystadenocarcinoma(275;0.0333)		GAGGTTCAGGGAGCCCTGGGG	0.622													4	27	---	---	---	---	PASS	C	52476875	C	C	52476875	3	2	91	1	0	0	0	0	1	0	0	0	14030	1174	41	2	2244	2	SEMA3G	3	52476875	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2166010	52476875	145545555	138	34134										
PBRM1	55193	broad.mit.edu	37	chr3	52692308	52692308	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcaagaagctgctccaggatCtccttcaagtaagctggaga	10	10	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:52692308C>G	uc003des.2	-	5	564	c.552G>C	c.(550-552)GAG>GAC	p.E184D	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.E184D|PBRM1_uc003der.2_Missense_Mutation_p.E184D|PBRM1_uc003det.2_Missense_Mutation_p.E184D|PBRM1_uc003deu.2_Missense_Mutation_p.E184D|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.E184D|PBRM1_uc010hmk.1_Missense_Mutation_p.E184D|PBRM1_uc003dey.2_Missense_Mutation_p.E184D|PBRM1_uc003dez.1_Missense_Mutation_p.E184D|PBRM1_uc003dfb.1_Missense_Mutation_p.E82D	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	184					chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		GCTCCAGGATCTCCTTCAAGT	0.373			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								7	59	---	---	---	---	PASS	G	52692308	G	G	52692308	3	3	91	1	0	0	0	0	1	0	0	0	11491	912	32	2	4452	2	PBRM1	3	52692308	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	215433	52692308	145330122	139	34135										
CCDC66	285331	broad.mit.edu	37	chr3	56627033	56627033	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagcaccctttcagtgctgtGaaacaagaactgcaaagaaa	9	9	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:56627033G>C	uc003dhz.2	+	8	1059	c.972G>C	c.(970-972)GTG>GTC	p.V324V	CCDC66_uc003dhy.2_5'UTR|CCDC66_uc003dhu.2_Silent_p.V290V|CCDC66_uc003dhx.2_RNA	NM_001141947	NP_001135419	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66 isoform 1	324										breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		TCAGTGCTGTGAAACAAGAAC	0.338													35	144	---	---	---	---	PASS	C	56627033	C	C	56627033	2	2	91	1	0	0	0	0	0	0	0	1	2838	1277	45	2		2	CCDC66	3	56627033	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	3934725	56627033	141395397	140	34136										
FHIT	2272	broad.mit.edu	37	chr3	60522645	60522645	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcgaaggacagttctgttttGagaaacactacagagggctt	12	7	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:60522645G>C	uc003dkx.3	-	5	422	c.51C>G	c.(49-51)CTC>CTG	p.L17L	FHIT_uc003dky.2_Silent_p.L17L|FHIT_uc010hnn.1_Silent_p.L17L	NM_002012	NP_002003	P49789	FHIT_HUMAN	fragile histidine triad gene	17	HIT.				nucleotide metabolic process		bis(5'-adenosyl)-triphosphatase activity|protein binding				0		all_cancers(2;2.37e-314)|all_epithelial(2;5.17e-286)|Colorectal(2;1.24e-68)|all_lung(2;1.31e-45)|Lung NSC(2;1.79e-44)|all_hematologic(2;1.59e-23)|Renal(2;1.03e-13)|Breast(2;1.06e-10)|Esophageal squamous(2;6.31e-09)|Melanoma(2;1.83e-07)|Acute lymphoblastic leukemia(2;5.46e-05)|all_neural(2;0.00118)|Medulloblastoma(2;0.00263)|Hepatocellular(2;0.0245)|Ovarian(2;0.0408)		UCEC - Uterine corpus endometrioid carcinoma (45;0.0887)|Epithelial(1;9.28e-70)|all cancers(1;3.07e-60)|Colorectal(1;2.33e-53)|STAD - Stomach adenocarcinoma(1;7.22e-48)|COAD - Colon adenocarcinoma(3;1.05e-44)|READ - Rectum adenocarcinoma(3;2.41e-08)|KIRC - Kidney renal clear cell carcinoma(10;0.000109)|Kidney(10;0.000125)|Lung(1;0.000161)|LUSC - Lung squamous cell carcinoma(1;0.000742)|OV - Ovarian serous cystadenocarcinoma(275;0.00372)|BRCA - Breast invasive adenocarcinoma(55;0.00448)		GTTCTGTTTTGAGAAACACTA	0.383			T	HMGA2	pleomorphic salivary gland adenoma				Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				20	31	---	---	---	---	PASS	C	60522645	C	C	60522645	2	2	91	1	0	0	0	0	0	0	0	1	5877	1277	45	2		2	FHIT	3	60522645	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	3895612	60522645	137499785	141	34137										
TMF1	7110	broad.mit.edu	37	chr3	69075232	69075232	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggtgggagtgctagaaacaGaaaatggcttgcgttcctta	13	6	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:69075232G>T	uc003dnn.2	-	14	3021	c.2774C>A	c.(2773-2775)TCT>TAT	p.S925Y	TMF1_uc011bfx.1_Missense_Mutation_p.S928Y	NM_007114	NP_009045	P82094	TMF1_HUMAN	TATA element modulatory factor 1	925					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi membrane|nucleus	DNA binding|protein binding|transcription cofactor activity				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;4.48e-05)|Epithelial(33;0.000274)|LUSC - Lung squamous cell carcinoma(21;0.0123)|KIRC - Kidney renal clear cell carcinoma(39;0.211)|Kidney(39;0.247)		GCTAGAAACAGAAAATGGCTT	0.383													7	58	---	---	---	---	PASS	T	69075232	T	T	69075232	3	4	91	1	0	0	0	0	1	0	0	0	16225	942	33	2	523	2	TMF1	3	69075232	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	8552587	69075232	128947198	142	34138										
FOXP1	27086	broad.mit.edu	37	chr3	71008498	71008498	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctaaggacaggggcccttcaGcttcctctggatcgaggggc	14	12	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:71008498G>T	uc003dol.2	-	17	2257	c.1934C>A	c.(1933-1935)GCT>GAT	p.A645D	FOXP1_uc003dom.2_Missense_Mutation_p.A569D|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Missense_Mutation_p.A644D|FOXP1_uc003dop.2_Missense_Mutation_p.A645D|FOXP1_uc003doq.1_Intron|FOXP1_uc003doi.2_Missense_Mutation_p.A545D|FOXP1_uc003doj.2_Missense_Mutation_p.A545D|FOXP1_uc003dok.2_Missense_Mutation_p.A458D	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	645					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)		GGGCCCTTCAGCTTCCTCTGG	0.502			T	PAX5	ALL								47	63	---	---	---	---	PASS	T	71008498	T	T	71008498	3	4	91	1	0	0	0	0	1	0	0	0	6026	971	34	3	103	3	FOXP1	3	71008498	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1933266	71008498	127013932	143	34139										
GXYLT2	727936	broad.mit.edu	37	chr3	72957687	72957687	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acatcttcactgaagactctCtgaagcccgagtttgataag	8	10	3	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:72957687C>G	uc003dpg.2	+	2	445	c.445C>G	c.(445-447)CTG>GTG	p.L149V		NM_001080393	NP_001073862	A0PJZ3	GXLT2_HUMAN	glycosyltransferase 8 domain containing 4	149	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						TGAAGACTCTCTGAAGCCCGA	0.443													16	20	---	---	---	---	PASS	G	72957687	G	G	72957687	3	3	91	1	0	0	0	0	1	0	0	0	6904	912	32	2	451	2	GXYLT2	3	72957687	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1949189	72957687	125064743	144	34140										
ROBO1	6091	broad.mit.edu	37	chr3	78795913	78795913	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agttattctttcatctttatCatccagtggagagccatctt	6	9	5	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:78795913C>T	uc003dqe.2	-	5	845	c.637G>A	c.(637-639)GAT>AAT	p.D213N	ROBO1_uc003dqb.2_Missense_Mutation_p.D174N|ROBO1_uc003dqc.2_Missense_Mutation_p.D174N|ROBO1_uc003dqd.2_Missense_Mutation_p.D174N	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	213	Extracellular (Potential).|Ig-like C2-type 2.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TCATCTTTATCATCCAGTGGA	0.418													20	140	---	---	---	---	PASS	T	78795913	T	T	78795913	3	4	91	1	0	0	0	0	1	0	0	0	13513	826	29	2	4439	2	ROBO1	3	78795913	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	5838226	78795913	119226517	145	34141										
OR5H14	403273	broad.mit.edu	37	chr3	97868721	97868721	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atccatgaaggatttttattCagactaaccttctgtaactc	5	9	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:97868721C>G	uc003dsg.1	+	1	492	c.492C>G	c.(490-492)TTC>TTG	p.F164L		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	164	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GATTTTTATTCAGACTAACCT	0.338													33	205	---	---	---	---	PASS	G	97868721	G	G	97868721	3	3	91	1	0	0	0	0	1	0	0	0	11160	825	29	2	494	2	OR5H14	3	97868721	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	19072808	97868721	100153709	146	34142										
KIAA1524	57650	broad.mit.edu	37	chr3	108298180	108298180	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaggagatccatcagtaggtCaactgaatactttctagtta	8	7	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:108298180C>T	uc003dxb.3	-	7	1035	c.766G>A	c.(766-768)GAC>AAC	p.D256N	KIAA1524_uc003dxc.1_Missense_Mutation_p.D97N|KIAA1524_uc010hpw.1_Missense_Mutation_p.D97N	NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	256						cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						ATCAGTAGGTCAACTGAATAC	0.328													30	173	---	---	---	---	PASS	T	108298180	T	T	108298180	3	4	91	1	0	0	0	0	1	0	0	0	8239	826	29	2	2011	2	KIAA1524	3	108298180	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	10429459	108298180	89724250	147	34143										
PVRL3	25945	broad.mit.edu	37	chr3	110831075	110831075	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcaaggagaatatcagggaaGagtcttgtttaaaaattact	9	4	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:110831075G>C	uc003dxt.1	+	2	359	c.359G>C	c.(358-360)AGA>ACA	p.R120T	PVRL3_uc003dxu.1_Missense_Mutation_p.R97T	NM_015480	NP_056295	Q9NQS3	PVRL3_HUMAN	poliovirus receptor-related 3 precursor	120	Extracellular (Potential).|Ig-like V-type.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane	cell adhesion molecule binding|protein homodimerization activity			upper_aerodigestive_tract(2)	2						TATCAGGGAAGAGTCTTGTTT	0.373													14	113	---	---	---	---	PASS	C	110831075	C	C	110831075	3	2	91	1	0	0	0	0	1	0	0	0	12841	942	33	2	365	2	PVRL3	3	110831075	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2532895	110831075	87191355	148	34144										
ATP6V1A	523	broad.mit.edu	37	chr3	113528274	113528274	+	Nonstop_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttccgtagccttgaagattaGaagccttgaagattacaact	8	8	0	5			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:113528274G>C	uc003eao.2	+	15	1920	c.1854G>C	c.(1852-1854)TAG>TAC	p.*618Y	ATP6V1A_uc011bik.1_Nonstop_Mutation_p.*585Y	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	618					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						TTGAAGATTAGAAGCCTTGAA	0.393													9	79	---	---	---	---	PASS	C	113528274	C	C	113528274	4	2	91	1	0	0	0	0	0	0	0	0	1177	937	33	2	1908	2	ATP6V1A	3	113528274	Nonstop_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2697199	113528274	84494156	149	34145										
KIAA1407	57577	broad.mit.edu	37	chr3	113761652	113761652	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttcctcacttgctaattcttGcttaagtttggtgtctaacc	6	10	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:113761652G>C	uc003eax.2	-	4	460	c.313C>G	c.(313-315)CAA>GAA	p.Q105E	KIAA1407_uc011bin.1_RNA|KIAA1407_uc011bio.1_Missense_Mutation_p.Q83E|KIAA1407_uc011bip.1_Missense_Mutation_p.Q92E	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	105										ovary(2)	2						GCTAATTCTTGCTTAAGTTTG	0.363													42	128	---	---	---	---	PASS	C	113761652	C	C	113761652	3	2	91	1	0	0	0	0	1	0	0	0	8229	1328	46	4	2553	4	KIAA1407	3	113761652	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	233378	113761652	84260778	150	34146										
GSK3B	2932	broad.mit.edu	37	chr3	119562180	119562180	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggaataaggatggtagccaGaggtggattacttgacagtt	14	4	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:119562180G>A	uc003edo.2	-	10	2100	c.1117C>T	c.(1117-1119)CTG>TTG	p.L373L	GSK3B_uc003edn.2_Silent_p.L386L|GSK3B_uc003edm.2_Intron	NM_001146156	NP_001139628	P49841	GSK3B_HUMAN	glycogen synthase kinase 3 beta isoform 2	373					axon guidance|epithelial to mesenchymal transition|ER overload response|glycogen metabolic process|hippocampus development|negative regulation of apoptosis|negative regulation of protein binding|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|positive regulation of cell-matrix adhesion|positive regulation of protein complex assembly|positive regulation of protein export from nucleus|positive regulation of Rac GTPase activity|regulation of microtubule-based process|superior temporal gyrus development	Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|nucleus|plasma membrane	ATP binding|beta-catenin binding|NF-kappaB binding|p53 binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|RNA polymerase II transcription factor binding|tau-protein kinase activity|ubiquitin protein ligase binding			lung(2)	2				GBM - Glioblastoma multiforme(114;0.24)	Lithium(DB01356)	ATGGTAGCCAGAGGTGGATTA	0.413													6	77	---	---	---	---	PASS	A	119562180	A	A	119562180	2	1	91	1	0	0	0	0	0	0	0	1	6824	933	33	2		2	GSK3B	3	119562180	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	5800528	119562180	78460250	151	34147										
POLQ	10721	broad.mit.edu	37	chr3	121207343	121207343	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	catattcaaacttgtttcagGaactggaagacattctcctt	6	9	3	1	rs149344067		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:121207343G>A	uc003eee.3	-	16	4564	c.4435C>T	c.(4435-4437)CCT>TCT	p.P1479S	POLQ_uc003eed.2_Missense_Mutation_p.P651S	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1479					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		CTTGTTTCAGGAACTGGAAGA	0.353								DNA_polymerases_(catalytic_subunits)					13	139	---	---	---	---	PASS	A	121207343	A	A	121207343	3	1	91	1	0	0	0	0	1	0	0	0	12208	1174	41	2	3397	2	POLQ	3	121207343	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1645163	121207343	76815087	152	34148										
EAF2	55840	broad.mit.edu	37	chr3	121591497	121591497	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gttctagtgactcagaagatGaagattgcaaatcctctact	8	8	3	5			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:121591497G>A	uc003een.2	+	5	697	c.598G>A	c.(598-600)GAA>AAA	p.E200K	EAF2_uc003eeo.2_Missense_Mutation_p.E70K	NM_018456	NP_060926	Q96CJ1	EAF2_HUMAN	ELL associated factor 2	200	Ser-rich.|Necessary for transactivation activity.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	protein binding				0				GBM - Glioblastoma multiforme(114;0.0972)		CTCAGAAGATGAAGATTGCAA	0.398													17	169	---	---	---	---	PASS	A	121591497	A	A	121591497	3	1	91	1	0	0	0	0	1	0	0	0	4876	1291	45	2	616	2	EAF2	3	121591497	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	384154	121591497	76430933	153	34149										
PARP9	83666	broad.mit.edu	37	chr3	122255105	122255105	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctgaaacagcctatggctcaCaggttgcctgtgcagttttt	10	10	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:122255105C>G	uc010hri.2	-	10	2240	c.2095G>C	c.(2095-2097)GTG>CTG	p.V699L	PARP9_uc003eff.3_Missense_Mutation_p.V664L|PARP9_uc011bjs.1_Missense_Mutation_p.V664L|PARP9_uc003efg.2_Missense_Mutation_p.V244L|PARP9_uc003efi.2_Missense_Mutation_p.V664L|PARP9_uc003efh.2_Missense_Mutation_p.V699L|PARP9_uc003efj.2_Missense_Mutation_p.V664L	NM_001146102	NP_001139574	Q8IXQ6	PARP9_HUMAN	poly (ADP-ribose) polymerase family, member 9	699	PARP catalytic.				cell migration	cytosol|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)|pancreas(1)|prostate(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0519)		CTATGGCTCACAGGTTGCCTG	0.443													42	125	---	---	---	---	PASS	G	122255105	G	G	122255105	3	3	91	1	0	0	0	0	1	0	0	0	11466	478	17	4	530	4	PARP9	3	122255105	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	663608	122255105	75767325	154	34150										
PARP9	83666	broad.mit.edu	37	chr3	122274371	122274371	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctctacaatagtctttgtaCacaaattcagagggaactga	7	8	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:122274371C>T	uc010hri.2	-	4	897	c.752G>A	c.(751-753)TGT>TAT	p.C251Y	PARP9_uc003eff.3_Missense_Mutation_p.C216Y|PARP9_uc011bjs.1_Missense_Mutation_p.C216Y|PARP9_uc003efg.2_Intron|PARP9_uc003efi.2_Missense_Mutation_p.C216Y|PARP9_uc003efh.2_Missense_Mutation_p.C251Y|PARP9_uc003efj.2_Missense_Mutation_p.C216Y	NM_001146102	NP_001139574	Q8IXQ6	PARP9_HUMAN	poly (ADP-ribose) polymerase family, member 9	251	Macro 1.				cell migration	cytosol|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)|pancreas(1)|prostate(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0519)		AGTCTTTGTACACAAATTCAG	0.383													11	179	---	---	---	---	PASS	T	122274371	T	T	122274371	3	4	91	1	0	0	0	0	1	0	0	0	11466	478	17	3	1897	3	PARP9	3	122274371	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	19266	122274371	75748059	155	34151										
PARP14	54625	broad.mit.edu	37	chr3	122411176	122411176	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaagaattggatacaaaactCcctcttgatggtggattaga	10	6	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:122411176C>G	uc003efq.3	+	4	443	c.384C>G	c.(382-384)CTC>CTG	p.L128L		NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	128					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		ATACAAAACTCCCTCTTGATG	0.368													21	102	---	---	---	---	PASS	G	122411176	G	G	122411176	2	3	91	1	0	0	0	0	0	0	0	1	11458	842	30	2		2	PARP14	3	122411176	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	136805	122411176	75611254	156	34152										
HEG1	57493	broad.mit.edu	37	chr3	124748078	124748078	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtcagagctgttgctatctCcagtgagtacccaacaggca	10	11	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:124748078C>T	uc003ehs.3	-	2	639	c.571G>A	c.(571-573)GAG>AAG	p.E191K	HEG1_uc011bke.1_Missense_Mutation_p.E191K	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	191	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding	p.E191E(1)		ovary(2)	2						GTTGCTATCTCCAGTGAGTAC	0.478													6	45	---	---	---	---	PASS	T	124748078	T	T	124748078	3	4	91	1	0	0	0	0	1	0	0	0	7044	864	30	2	3638	2	HEG1	3	124748078	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2336902	124748078	73274352	157	34153										
OSBPL11	114885	broad.mit.edu	37	chr3	125257330	125257330	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcctgcttctccagaggtctCactcttttcttcgtcactgc	6	15	5	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:125257330C>T	uc003eic.2	-	11	2726	c.1989G>A	c.(1987-1989)GTG>GTA	p.V663V		NM_022776	NP_073613	Q9BXB4	OSB11_HUMAN	oxysterol binding protein-like 11	663					lipid transport		lipid binding			ovary(3)|breast(1)|kidney(1)	5						CCAGAGGTCTCACTCTTTTCT	0.353													12	394	---	---	---	---	PASS	T	125257330	T	T	125257330	2	4	91	1	0	0	0	0	0	0	0	1	11276	813	29	2		2	OSBPL11	3	125257330	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	509252	125257330	72765100	158	34154										
ZXDC	79364	broad.mit.edu	37	chr3	126180755	126180755	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaccgtggctgctgtcccgaGaaccagagggctgtccaggc	14	13	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:126180755G>A	uc003eiv.2	-	6	1804	c.1750C>T	c.(1750-1752)CTC>TTC	p.L584F	ZXDC_uc010hsh.2_RNA|ZXDC_uc003eix.2_Missense_Mutation_p.L584F	NM_025112	NP_079388	Q2QGD7	ZXDC_HUMAN	ZXD family zinc finger C isoform 1	584	Required for transcriptional activation.				positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|LRR domain binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.155)		GCTGTCCCGAGAACCAGAGGG	0.597													14	163	---	---	---	---	PASS	A	126180755	A	A	126180755	3	1	91	1	0	0	0	0	1	0	0	0	18249	942	33	2	852	2	ZXDC	3	126180755	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	923425	126180755	71841675	159	34155										
MCM2	4171	broad.mit.edu	37	chr3	127327758	127327758	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtctttgccactgtcatcctAgccaaccacgtggccaagaa	8	14	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:127327758A>G	uc003ejp.2	+	8	1377	c.1320A>G	c.(1318-1320)CTA>CTG	p.L440L	MCM2_uc011bkm.1_Silent_p.L310L|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Silent_p.L324L	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	440					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						CTGTCATCCTAGCCAACCACG	0.527													66	167	---	---	---	---	PASS	G	127327758	G	G	127327758	2	3	91	1	0	0	0	0	0	0	0	1	9386	407	15	5		5	MCM2	3	127327758	Silent	SNP	A	TCGA-39-5031-01A-01D-1441-08	1147003	127327758	70694672	160	34156										
PLXND1	23129	broad.mit.edu	37	chr3	129286443	129286443	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atgtctgtctgcagctcagcGaagcctggcggacacacgga	13	12	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:129286443G>A	uc003emx.2	-	22	4078	c.3978C>T	c.(3976-3978)TTC>TTT	p.F1326F	PLXND1_uc011blb.1_5'UTR	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1326	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						GCAGCTCAGCGAAGCCTGGCG	0.622													3	55	---	---	---	---	PASS	A	129286443	A	A	129286443	2	1	91	1	0	0	0	0	0	0	0	1	12127	1049	37	2		2	PLXND1	3	129286443	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1958685	129286443	68735987	161	34157										
TMCC1	23023	broad.mit.edu	37	chr3	129389306	129389306	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gatctcatgtagtagtgcatCaaatcctgagctctgcatgt	9	9	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:129389306C>G	uc003emz.3	-	5	1879	c.1378G>C	c.(1378-1380)GAT>CAT	p.D460H	TMCC1_uc003emy.3_Missense_Mutation_p.D136H|TMCC1_uc011blc.1_Missense_Mutation_p.D281H|TMCC1_uc010htg.2_Missense_Mutation_p.D346H	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	460	Potential.					integral to membrane				skin(1)	1						AGTAGTGCATCAAATCCTGAG	0.517													20	199	---	---	---	---	PASS	G	129389306	G	G	129389306	3	3	91	1	0	0	0	0	1	0	0	0	15989	826	29	2	595	2	TMCC1	3	129389306	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	102863	129389306	68633124	162	34158										
COL6A6	131873	broad.mit.edu	37	chr3	130293257	130293257	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gatgtggatgaccagcagctCattcagatcaccgggactgc	12	11	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:130293257C>T	uc010htl.2	+	7	3466	c.3435C>T	c.(3433-3435)CTC>CTT	p.L1145L		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1145	Nonhelical region.|VWFA 6.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						ACCAGCAGCTCATTCAGATCA	0.532													7	99	---	---	---	---	PASS	T	130293257	T	T	130293257	2	4	91	1	0	0	0	0	0	0	0	1	3703	813	29	2		2	COL6A6	3	130293257	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	903951	130293257	67729173	163	34159										
ACAD11	84129	broad.mit.edu	37	chr3	132324026	132324026	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttcctcacttccatacaggtGcagaacctccatattccctg	5	15	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:132324026G>A	uc003eov.3	-	12	1818	c.1438C>T	c.(1438-1440)CAC>TAC	p.H480Y	ACAD11_uc011blr.1_Missense_Mutation_p.H91Y	NM_032169	NP_115545	Q709F0	ACD11_HUMAN	putative acyl-CoA dehydrogenase	480						peroxisome	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|transferase activity, transferring phosphorus-containing groups			ovary(1)	1						CCATACAGGTGCAGAACCTCC	0.393													32	104	---	---	---	---	PASS	A	132324026	A	A	132324026	3	1	91	1	0	0	0	0	1	0	0	0	109	1319	46	3	940	3	ACAD11	3	132324026	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2030769	132324026	65698404	164	34160										
SRPRB	58477	broad.mit.edu	37	chr3	133525544	133525544	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggaaaacgttgctctttgtCagggtaaatgatttcattga	11	5	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:133525544C>T	uc003epx.1	+	2	262	c.246C>T	c.(244-246)GTC>GTT	p.V82V		NM_021203	NP_067026	Q9Y5M8	SRPRB_HUMAN	signal recognition particle receptor, beta	82						endoplasmic reticulum membrane|integral to membrane	GTP binding|protein binding|receptor activity			ovary(1)	1						TGCTCTTTGTCAGGGTAAATG	0.408													16	129	---	---	---	---	PASS	T	133525544	T	T	133525544	2	4	91	1	0	0	0	0	0	0	0	1	15162	813	29	2		2	SRPRB	3	133525544	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1201518	133525544	64496886	165	34161										
STAG1	10274	broad.mit.edu	37	chr3	136117636	136117636	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttcaccaactgccaaagaatCgaataatgggaacactgcag	8	10	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:136117636C>T	uc003era.1	-	22	2524	c.2232G>A	c.(2230-2232)TCG>TCA	p.S744S	STAG1_uc003erb.1_Silent_p.S744S|STAG1_uc003erc.1_Silent_p.S518S	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	744					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						GCCAAAGAATCGAATAATGGG	0.328													4	97	---	---	---	---	PASS	T	136117636	T	T	136117636	2	4	91	1	0	0	0	0	0	0	0	1	15241	871	31	2		2	STAG1	3	136117636	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	2592092	136117636	61904794	166	34162										
ARMC8	25852	broad.mit.edu	37	chr3	138009477	138009477	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caccagattcaaacctttgtGacaagtgagtatgaatgtga	9	7	1	5			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:138009477G>A	uc003esa.1	+	22	2309	c.1942G>A	c.(1942-1944)GAC>AAC	p.D648N	TXNDC6_uc003esd.1_Intron|TXNDC6_uc010huf.1_Intron|TXNDC6_uc003ese.1_Intron|ARMC8_uc011bmf.1_Missense_Mutation_p.D631N|ARMC8_uc011bmg.1_Missense_Mutation_p.D595N|ARMC8_uc011bmh.1_Missense_Mutation_p.D589N|ARMC8_uc003esb.1_Missense_Mutation_p.D620N|ARMC8_uc003esc.1_Missense_Mutation_p.D420N|ARMC8_uc003esf.1_Missense_Mutation_p.D231N	NM_015396	NP_056211	Q8IUR7	ARMC8_HUMAN	armadillo repeat containing 8 isoform 2	662	ARM 14.						binding				0						AAACCTTTGTGACAAGTGAGT	0.393													3	16	---	---	---	---	PASS	A	138009477	A	A	138009477	3	1	91	1	0	0	0	0	1	0	0	0	957	1290	45	2	2090	2	ARMC8	3	138009477	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1891841	138009477	60012953	167	34163										
MRAS	22808	broad.mit.edu	37	chr3	138117390	138117390	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcaccagggagcaaggaaaaGaaatggcgaccaaacacaat	10	9	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:138117390G>C	uc003esh.3	+	4	988	c.427G>C	c.(427-429)GAA>CAA	p.E143Q	MRAS_uc011bmi.1_Missense_Mutation_p.E67Q|MRAS_uc003esi.3_Missense_Mutation_p.E143Q|MRAS_uc011bmj.1_Missense_Mutation_p.E67Q	NM_012219	NP_036351	O14807	RASM_HUMAN	muscle RAS oncogene homolog precursor	143					actin cytoskeleton organization|muscle organ development|Ras protein signal transduction	intracellular|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity			lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GCAAGGAAAAGAAATGGCGAC	0.507													30	127	---	---	---	---	PASS	C	138117390	C	C	138117390	3	2	91	1	0	0	0	0	1	0	0	0	9755	943	33	2	437	2	MRAS	3	138117390	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	107913	138117390	59905040	168	34164										
PIK3CB	5291	broad.mit.edu	37	chr3	138433508	138433508	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctgatacctctgagcttacGatggttttacacaggagctc	9	11	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:138433508G>A	uc011bmq.1	-	7	1104	c.1104C>T	c.(1102-1104)ATC>ATT	p.I368I	PIK3CB_uc011bmo.1_5'UTR|PIK3CB_uc011bmp.1_5'UTR	NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta	368	C2 PI3K-type.				activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						CTGAGCTTACGATGGTTTTAC	0.373													32	296	---	---	---	---	PASS	A	138433508	A	A	138433508	2	1	91	1	0	0	0	0	0	0	0	1	11914	1048	37	2		2	PIK3CB	3	138433508	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	316118	138433508	59588922	169	34165										
GK5	256356	broad.mit.edu	37	chr3	141900354	141900354	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtgtctcctgcattgctttCagctaagcatacgacttctt	7	11	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:141900354C>A	uc003euq.1	-	11	1128	c.997G>T	c.(997-999)GAA>TAA	p.E333*	GK5_uc003eup.1_Nonsense_Mutation_p.E54*|GK5_uc010hus.1_RNA	NM_001039547	NP_001034636	Q6ZS86	GLPK5_HUMAN	glycerol kinase 5 (putative)	333					glycerol metabolic process		ATP binding|glycerol kinase activity				0						GCATTGCTTTCAGCTAAGCAT	0.378													14	156	---	---	---	---	PASS	A	141900354	A	A	141900354	4	1	91	1	0	0	0	0	0	1	0	0	6422	835	29	2	616	2	GK5	3	141900354	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3466846	141900354	56122076	170	34166										
PCOLCE2	26577	broad.mit.edu	37	chr3	142542385	142542385	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atttcttaccaaagtcacttGaacaataattgccctccaga	4	11	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:142542385G>C	uc003evd.2	-	7	1134	c.938C>G	c.(937-939)TCA>TGA	p.S313*		NM_013363	NP_037495	Q9UKZ9	PCOC2_HUMAN	procollagen C-endopeptidase enhancer 2	313	NTR.					extracellular region	collagen binding|heparin binding|peptidase activator activity			ovary(2)|skin(1)	3						AAAGTCACTTGAACAATAATT	0.393													20	185	---	---	---	---	PASS	C	142542385	C	C	142542385	4	2	91	1	0	0	0	0	0	1	0	0	11595	1294	45	2	321	2	PCOLCE2	3	142542385	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	642031	142542385	55480045	171	34167										
SR140	23350	broad.mit.edu	37	chr3	142735215	142735215	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gttgttaatgcagctaaaggTaagtttataaagtataactg	9	3	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:142735215T>G	uc003evh.1	+	5	535	c.436_splice	c.e5+2	p.E146_splice	SR140_uc003evi.1_Splice_Site|SR140_uc011bnj.1_Splice_Site_p.E146_splice|SR140_uc003evj.1_Splice_Site|SR140_uc003evk.1_Splice_Site_p.E146_splice	NM_001080415	NP_001073884	O15042	SR140_HUMAN	U2-associated SR140 protein						RNA processing	nucleus	nucleotide binding|RNA binding				0						CAGCTAAAGGTAAGTTTATAA	0.373													12	162	---	---	---	---	PASS	G	142735215	G	G	142735215	5	3	91	1	0	0	0	0	0	0	1	0	15130	1652	57	5	456	5	SR140	3	142735215	Splice_Site	SNP	T	TCGA-39-5031-01A-01D-1441-08	192830	142735215	55287215	172	34168										
TM4SF1	4071	broad.mit.edu	37	chr3	149089577	149089577	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caccaagagccaagaggataGaaaacagagatacattccat	8	9	0	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:149089577G>C	uc003exb.1	-	4	725	c.491C>G	c.(490-492)TCT>TGT	p.S164C	TM4SF1_uc003exc.1_Missense_Mutation_p.S75C	NM_014220	NP_055035	P30408	T4S1_HUMAN	transmembrane 4 superfamily member 1	164	Helical; (Probable).					integral to plasma membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			CAAGAGGATAGAAAACAGAGA	0.433													6	202	---	---	---	---	PASS	C	149089577	C	C	149089577	3	2	91	1	0	0	0	0	1	0	0	0	15963	942	33	2	125	2	TM4SF1	3	149089577	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	6354362	149089577	48932853	173	34169										
GPR87	53836	broad.mit.edu	37	chr3	151012303	151012303	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tatgttttcgctttcggcttGactgacttatgaattgcctg	9	8	0	3	rs79475431		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:151012303G>C	uc003eyt.2	-	3	1092	c.731C>G	c.(730-732)TCA>TGA	p.S244*	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_023915	NP_076404	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	244	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTTTCGGCTTGACTGACTTAT	0.433													7	139	---	---	---	---	PASS	C	151012303	C	C	151012303	4	2	91	1	0	0	0	0	0	1	0	0	6716	1294	45	2	349	2	GPR87	3	151012303	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1922726	151012303	47010127	174	34170										
P2RY12	64805	broad.mit.edu	37	chr3	151056472	151056472	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ataataaagtttgatttactCcggatttgaaagaaaatcct	6	5	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:151056472C>G	uc003eyw.1	-	2	378	c.162G>C	c.(160-162)CGG>CGC	p.R54R	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY12_uc011boa.1_Silent_p.R54R|P2RY12_uc003eyx.1_Silent_p.R54R	NM_176876	NP_795345	Q9H244	P2Y12_HUMAN	purinergic receptor P2Y12	54	Cytoplasmic (Potential).				platelet activation	integral to membrane|plasma membrane	guanyl-nucleotide exchange factor activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)		Clopidogrel(DB00758)|Epoprostenol(DB01240)|Ticlopidine(DB00208)|Treprostinil(DB00374)	TTGATTTACTCCGGATTTGAA	0.378													13	84	---	---	---	---	PASS	G	151056472	G	G	151056472	2	3	91	1	0	0	0	0	0	0	0	1	11349	842	30	2		2	P2RY12	3	151056472	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	44169	151056472	46965958	175	34171										
AADACL2	344752	broad.mit.edu	37	chr3	151458563	151458563	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atacaacatttgttgacattCcagtacgattgtacttgcca	6	9	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:151458563C>G	uc003ezc.2	+	2	388	c.268C>G	c.(268-270)CCA>GCA	p.P90A	AADACL2_uc010hvn.2_Intron	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2 precursor	90						extracellular region|integral to membrane	carboxylesterase activity				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			TGTTGACATTCCAGTACGATT	0.378													13	189	---	---	---	---	PASS	G	151458563	G	G	151458563	3	3	91	1	0	0	0	0	1	0	0	0	11	855	30	2	274	2	AADACL2	3	151458563	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	402091	151458563	46563867	176	34172										
SGEF	26084	broad.mit.edu	37	chr3	153943771	153943771	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctacttctttctctttaacGatgtgctcattatcaccaag	4	11	5	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:153943771G>A	uc011bog.1	+	11	2273	c.2062G>A	c.(2062-2064)GAT>AAT	p.D688N	SGEF_uc011boh.1_Missense_Mutation_p.D688N|SGEF_uc011boi.1_5'UTR	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	688	PH.				regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TCTCTTTAACGATGTGCTCAT	0.398													7	110	---	---	---	---	PASS	A	153943771	A	A	153943771	3	1	91	1	0	0	0	0	1	0	0	0	14205	1058	37	2	2100	2	SGEF	3	153943771	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2485208	153943771	44078659	177	34173										
MME	4311	broad.mit.edu	37	chr3	154834285	154834285	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagatgtccttcaagaacccAaaactgaagatatagtagca	7	9	1	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:154834285A>G	uc010hvr.1	+	5	587	c.376A>G	c.(376-378)AAA>GAA	p.K126E	MME_uc003fab.1_Missense_Mutation_p.K126E|MME_uc003fac.1_Missense_Mutation_p.K126E|MME_uc003fad.1_Missense_Mutation_p.K126E|MME_uc003fae.1_Missense_Mutation_p.K126E	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	126	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	TCAAGAACCCAAAACTGAAGA	0.318													20	94	---	---	---	---	PASS	G	154834285	G	G	154834285	3	3	91	1	0	0	0	0	1	0	0	0	9645	131	5	5	390	5	MME	3	154834285	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	890514	154834285	43188145	178	34174										
CCNL1	57018	broad.mit.edu	37	chr3	156867907	156867907	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcagatttcctggatttcctCttctgtagtaccaaaaagaa	7	9	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:156867907C>T	uc003fbf.2	-	7	1425	c.826G>A	c.(826-828)GAG>AAG	p.E276K	CCNL1_uc003fbd.1_Missense_Mutation_p.E276K|CCNL1_uc003fbe.2_Missense_Mutation_p.E70K|CCNL1_uc003fbg.2_RNA|CCNL1_uc011bor.1_RNA|CCNL1_uc003fbi.1_Missense_Mutation_p.E121K	NM_020307	NP_064703	Q9UK58	CCNL1_HUMAN	cyclin L1	276	Cyclin-like 2.				regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			lung(3)|breast(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(72;0.0295)|Lung(72;0.0308)			TGGATTTCCTCTTCTGTAGTA	0.358													6	148	---	---	---	---	PASS	T	156867907	T	T	156867907	3	4	91	1	0	0	0	0	1	0	0	0	2931	922	32	2	774	2	CCNL1	3	156867907	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2033622	156867907	41154523	179	34175										
SLITRK3	22865	broad.mit.edu	37	chr3	164906446	164906446	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctctggagaggaaagagttgGtcgaccaccacccccacttc	10	14	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:164906446G>C	uc003fej.3	-	2	2617	c.2173C>G	c.(2173-2175)CCA>GCA	p.P725A	SLITRK3_uc003fek.2_Missense_Mutation_p.P725A	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	725	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GAAAGAGTTGGTCGaccacca	0.453										HNSCC(40;0.11)			60	69	---	---	---	---	PASS	C	164906446	C	C	164906446	3	2	91	1	0	0	0	0	1	0	0	0	14744	1261	44	4	764	4	SLITRK3	3	164906446	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	8038539	164906446	33115984	180	34176										
FNDC3B	64778	broad.mit.edu	37	chr3	172098776	172098776	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cacctcgagtaacacagttaGaaggaaattcatgtgaaatt	8	7	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:172098776G>A	uc003fhy.2	+	25	3368	c.3196G>A	c.(3196-3198)GAA>AAA	p.E1066K	FNDC3B_uc003fhz.3_Missense_Mutation_p.E1066K	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	1066	Fibronectin type-III 9.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		AACACAGTTAGAAGGAAATTC	0.373													8	310	---	---	---	---	PASS	A	172098776	A	A	172098776	3	1	91	1	0	0	0	0	1	0	0	0	5970	943	33	2	3290	2	FNDC3B	3	172098776	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7192330	172098776	25923654	181	34177										
FXR1	8087	broad.mit.edu	37	chr3	180671549	180671549	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tacttttcccctcatctacaGagtgctgatgctgtaaaaaa	6	10	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:180671549G>A	uc003fkq.2	+	9	824	c.802_splice	c.e9-1	p.S268_splice	FXR1_uc003fkp.2_Splice_Site_p.S183_splice|FXR1_uc003fkr.2_Splice_Site_p.S268_splice|FXR1_uc011bqj.1_Splice_Site_p.S182_splice|FXR1_uc003fks.2_Splice_Site_p.S182_splice|FXR1_uc011bqk.1_Splice_Site_p.S219_splice|FXR1_uc011bql.1_Splice_Site_p.S255_splice	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1						apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			CTCATCTACAGAGTGCTGATG	0.363													16	382	---	---	---	---	PASS	A	180671549	A	A	180671549	5	1	91	1	0	0	0	0	0	0	1	0	6115	956	33	2	835	2	FXR1	3	180671549	Splice_Site	SNP	G	TCGA-39-5031-01A-01D-1441-08	8572773	180671549	17350881	182	34178										
HTR3C	170572	broad.mit.edu	37	chr3	183778074	183778074	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cacgcgatggacaccctgctCttccgcctctacctgctctt	7	18	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:183778074C>T	uc003fmk.2	+	9	1312	c.1278C>T	c.(1276-1278)CTC>CTT	p.L426L		NM_130770	NP_570126	Q8WXA8	5HT3C_HUMAN	5-hydroxytryptamine receptor 3 subunit C	426	Helical; Name=4; (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)			ACACCCTGCTCTTCCGCCTCT	0.577													20	497	---	---	---	---	PASS	T	183778074	T	T	183778074	2	4	91	1	0	0	0	0	0	0	0	1	7446	900	32	2		2	HTR3C	3	183778074	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	3106525	183778074	14244356	183	34179										
EIF4G1	1981	broad.mit.edu	37	chr3	184039636	184039636	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	taagcccagtcagtgagccaGaggagcaggccaaggaggtg	16	9	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:184039636G>C	uc003fnp.2	+	10	1462	c.1264G>C	c.(1264-1266)GAG>CAG	p.E422Q	EIF4G1_uc003fno.1_Missense_Mutation_p.E363Q|EIF4G1_uc010hxw.1_Missense_Mutation_p.E258Q|EIF4G1_uc003fnt.2_Missense_Mutation_p.E133Q|EIF4G1_uc003fnq.2_Missense_Mutation_p.E335Q|EIF4G1_uc003fnr.2_Missense_Mutation_p.E258Q|EIF4G1_uc010hxx.2_Missense_Mutation_p.E429Q|EIF4G1_uc003fns.2_Missense_Mutation_p.E382Q|EIF4G1_uc010hxy.2_Missense_Mutation_p.E429Q|EIF4G1_uc003fnv.3_Missense_Mutation_p.E422Q|EIF4G1_uc003fnu.3_Missense_Mutation_p.E422Q|EIF4G1_uc003fnw.2_Missense_Mutation_p.E429Q|EIF4G1_uc003fnx.2_Missense_Mutation_p.E226Q|EIF4G1_uc003fny.3_Missense_Mutation_p.E226Q	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	422					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CAGTGAGCCAGAGGAGCAGGC	0.617													10	745	---	---	---	---	PASS	C	184039636	C	C	184039636	3	2	91	1	0	0	0	0	1	0	0	0	5036	943	33	2	1294	2	EIF4G1	3	184039636	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	261562	184039636	13982794	184	34180										
RFC4	5984	broad.mit.edu	37	chr3	186512450	186512450	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agggcaaatttacttactctGagcgacttcctgacacagtt	8	10	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:186512450G>C	uc003fqz.2	-	5	630	c.407C>G	c.(406-408)TCA>TGA	p.S136*	RFC4_uc011bsc.1_Nonsense_Mutation_p.S136*|RFC4_uc011bsd.1_Nonsense_Mutation_p.S136*	NM_002916	NP_002907	P35249	RFC4_HUMAN	replication factor C 4	136					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|phosphatidylinositol-mediated signaling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|large_intestine(1)	5	all_cancers(143;2.92e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)	GBM - Glioblastoma multiforme(93;0.0739)		TACTTACTCTGAGCGACTTCC	0.294													10	208	---	---	---	---	PASS	C	186512450	C	C	186512450	4	2	91	1	0	0	0	0	0	1	0	0	13247	1294	45	2	712	2	RFC4	3	186512450	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2472814	186512450	11509980	185	34181										
ST6GAL1	6480	broad.mit.edu	37	chr3	186760494	186760494	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctgaacacatcttcattatGattcacaccaacctgaagaa	4	12	3	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:186760494G>A	uc003frb.2	+	4	435	c.3G>A	c.(1-3)ATG>ATA	p.M1I	ST6GAL1_uc003frc.2_Intron|ST6GAL1_uc003frd.2_Missense_Mutation_p.M1I	NM_173216	NP_775323	P15907	SIAT1_HUMAN	ST6 beta-galactosamide	1	Cytoplasmic.				humoral immune response|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			central_nervous_system(1)	1	all_cancers(143;2.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;8.53e-19)	GBM - Glioblastoma multiforme(93;0.0939)		TCTTCATTATGATTCACACCA	0.398													97	616	---	---	---	---	PASS	A	186760494	A	A	186760494	3	1	91	1	0	0	0	0	1	0	0	0	15220	1290	45	2	5	2	ST6GAL1	3	186760494	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	248044	186760494	11261936	186	34182										
BCL6	604	broad.mit.edu	37	chr3	187449664	187449664	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttgatctcaggatctagattGatcacactaaggttgcattt	8	7	3	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:187449664G>A	uc003frp.3	-	4	673	c.216C>T	c.(214-216)ATC>ATT	p.I72I	BCL6_uc011bsf.1_Silent_p.I72I|BCL6_uc010hza.2_Intron|BCL6_uc003frq.1_Silent_p.I72I	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	72	BTB.				negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		GATCTAGATTGATCACACTAA	0.443			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								6	183	---	---	---	---	PASS	A	187449664	A	A	187449664	2	1	91	1	0	0	0	0	0	0	0	1	1376	1280	45	2		2	BCL6	3	187449664	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	689170	187449664	10572766	187	34183										
TP63	8626	broad.mit.edu	37	chr3	189526204	189526204	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcacagcccagctccaccttCgatgctctctctccatcacc	5	20	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:189526204C>T	uc003fry.2	+	4	557	c.468C>T	c.(466-468)TTC>TTT	p.F156F	TP63_uc003frx.2_Silent_p.F156F|TP63_uc003frz.2_Silent_p.F156F|TP63_uc010hzc.1_Silent_p.F156F|TP63_uc003fsa.2_Silent_p.F62F|TP63_uc003fsb.2_Silent_p.F62F|TP63_uc003fsc.2_Silent_p.F62F|TP63_uc003fsd.2_Silent_p.F62F|TP63_uc010hzd.1_Intron|TP63_uc003fse.1_Silent_p.F37F	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	156					anti-apoptosis|cellular response to UV|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|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		GCTCCACCTTCGATGCTCTCT	0.627									Hay-Wells_syndrome	HNSCC(45;0.13)			13	217	---	---	---	---	PASS	T	189526204	T	T	189526204	2	4	91	1	0	0	0	0	0	0	0	1	16389	883	31	2		2	TP63	3	189526204	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	2076540	189526204	8496226	188	34184										
TP63	8626	broad.mit.edu	37	chr3	189590662	189590662	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccataggtgaggggccgtgaGacttatgaaatgctgttgaa	14	6	0	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:189590662G>C	uc003fry.2	+	10	1316	c.1227G>C	c.(1225-1227)GAG>GAC	p.E409D	TP63_uc003frx.2_Missense_Mutation_p.E409D|TP63_uc003frz.2_Missense_Mutation_p.E409D|TP63_uc010hzc.1_Missense_Mutation_p.E409D|TP63_uc003fsa.2_Missense_Mutation_p.E315D|TP63_uc003fsb.2_Missense_Mutation_p.E315D|TP63_uc003fsc.2_Missense_Mutation_p.E315D|TP63_uc003fsd.2_Missense_Mutation_p.E315D|TP63_uc010hzd.1_Missense_Mutation_p.E230D	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	409	Oligomerization.				anti-apoptosis|cellular response to UV|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|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		GGGGCCGTGAGACTTATGAAA	0.408									Hay-Wells_syndrome	HNSCC(45;0.13)			8	194	---	---	---	---	PASS	C	189590662	C	C	189590662	3	2	91	1	0	0	0	0	1	0	0	0	16389	933	33	2	1311	2	TP63	3	189590662	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	64458	189590662	8431768	189	34185										
LEPREL1	55214	broad.mit.edu	37	chr3	189700892	189700892	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttttcccattgagaatccatGaacttctgctccctctacgt	5	13	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:189700892G>A	uc011bsk.1	-	8	1655	c.1267C>T	c.(1267-1269)CAT>TAT	p.H423Y	LEPREL1_uc003fsg.2_Missense_Mutation_p.H242Y	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	423					collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GAGAATCCATGAACTTCTGCT	0.423													23	500	---	---	---	---	PASS	A	189700892	A	A	189700892	3	1	91	1	0	0	0	0	1	0	0	0	8730	1290	45	2	891	2	LEPREL1	3	189700892	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	110230	189700892	8321538	190	34186										
ATP13A4	84239	broad.mit.edu	37	chr3	193159353	193159353	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctgcctttatcagagacttCatccctgatgttaatgtaat	6	9	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:193159353C>A	uc003ftd.2	-	20	2449	c.2341G>T	c.(2341-2343)GAA>TAA	p.E781*	ATP13A4_uc003fte.1_Nonsense_Mutation_p.E781*|ATP13A4_uc011bsr.1_Nonsense_Mutation_p.E252*|ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	781	Extracellular (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)		TCAGAGACTTCATCCCTGATG	0.378													21	298	---	---	---	---	PASS	A	193159353	A	A	193159353	4	1	91	1	0	0	0	0	0	1	0	0	1126	835	29	2	1293	2	ATP13A4	3	193159353	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3458461	193159353	4863077	191	34187										
MFI2	4241	broad.mit.edu	37	chr3	196733571	196733571	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acagcagttcatagtcctctGacctgagctcagcagcccag	9	14	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr3:196733571G>C	uc003fxk.3	-	14	1900	c.1787C>G	c.(1786-1788)TCA>TGA	p.S596*		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	596	Transferrin-like 2.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		ATAGTCCTCTGACCTGAGCTC	0.612													10	113	---	---	---	---	PASS	C	196733571	C	C	196733571	4	2	91	1	0	0	0	0	0	1	0	0	9522	1294	45	2	441	2	MFI2	3	196733571	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3574218	196733571	1288859	192	34188										
RGS12	6002	broad.mit.edu	37	chr4	3418748	3418748	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtgcactcccggactcgcagCaggtccccagcagcccggct	12	18	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:3418748C>T	uc003ggw.2	+	8	3440	c.2536C>T	c.(2536-2538)CAG>TAG	p.Q846*	RGS12_uc010ics.1_Nonsense_Mutation_p.Q45*|RGS12_uc003ggv.2_Nonsense_Mutation_p.Q846*|RGS12_uc003ggy.1_Nonsense_Mutation_p.Q244*|RGS12_uc010ict.1_Nonsense_Mutation_p.Q198*|RGS12_uc003ggz.2_Nonsense_Mutation_p.Q198*|RGS12_uc010icu.1_Nonsense_Mutation_p.Q45*|RGS12_uc011bvs.1_Nonsense_Mutation_p.Q188*|RGS12_uc003gha.2_Nonsense_Mutation_p.Q188*|RGS12_uc010icv.2_Nonsense_Mutation_p.Q45*|RGS12_uc003ghb.2_Nonsense_Mutation_p.Q45*	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	846						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GGACTCGCAGCAGGTCCCCAG	0.612													30	41	---	---	---	---	PASS	T	3418748	T	T	3418748	4	4	91	1	0	0	0	0	0	1	0	0	13295	711	25	3	2620	3	RGS12	4	3418748	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08		3418748	187735528	193	34189										
MAN2B2	23324	broad.mit.edu	37	chr4	6598903	6598903	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	actgaaggggctggcccggcGagccagcgccttgttgtatg	16	11	0	1	rs144033191	by1000genomes	TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:6598903G>A	uc003gjf.1	+	8	1157	c.1121G>A	c.(1120-1122)CGA>CAA	p.R374Q	MAN2B2_uc003gje.1_Missense_Mutation_p.R374Q|MAN2B2_uc011bwf.1_Missense_Mutation_p.R323Q	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	374					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						CTGGCCCGGCGAGCCAGCGCC	0.657													11	116	---	---	---	---	PASS	A	6598903	A	A	6598903	3	1	91	1	0	0	0	0	1	0	0	0	9217	1058	37	2	1151	2	MAN2B2	4	6598903	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3180155	6598903	184555373	194	34190										
SH3TC1	54436	broad.mit.edu	37	chr4	8229027	8229027	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgttccgcagcttcagcgacGaggaggagctgactgggcgc	16	11	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:8229027G>T	uc003gkv.3	+	12	1707	c.1606G>T	c.(1606-1608)GAG>TAG	p.E536*	SH3TC1_uc003gkw.3_Nonsense_Mutation_p.E460*|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	536							binding			large_intestine(2)|pancreas(1)	3						CTTCAGCGACGAGGAGGAGCT	0.687													6	20	---	---	---	---	PASS	T	8229027	T	T	8229027	4	4	91	1	0	0	0	0	0	1	0	0	14261	1059	37	2	1648	2	SH3TC1	4	8229027	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1630124	8229027	182925249	195	34191										
CPEB2	132864	broad.mit.edu	37	chr4	15060838	15060838	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tacgtccttggaatttaagtGatagtgattttgtaatggat	10	3	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:15060838G>C	uc003gni.1	+	9	1360	c.1273G>C	c.(1273-1275)GAT>CAT	p.D425H	CPEB2_uc003gnj.1_Missense_Mutation_p.D395H|CPEB2_uc003gnk.1_Missense_Mutation_p.D433H|CPEB2_uc003gnl.1_Missense_Mutation_p.D406H|CPEB2_uc003gnm.1_Missense_Mutation_p.D403H|CPEB2_uc003gnn.1_Missense_Mutation_p.D398H	NM_182485	NP_872291	Q7Z5Q1	CPEB2_HUMAN	cytoplasmic polyadenylation element binding	425					regulation of translation	cytoplasm	nucleotide binding|RNA binding			skin(1)	1						GAATTTAAGTGATAGTGATTT	0.373													17	100	---	---	---	---	PASS	C	15060838	C	C	15060838	3	2	91	1	0	0	0	0	1	0	0	0	3801	1290	45	2	2655	2	CPEB2	4	15060838	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	6831811	15060838	176093438	196	34192										
KLHL5	51088	broad.mit.edu	37	chr4	39122658	39122658	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	actgtgcctaggaagagctgGagcttgtgttgtgactgtaa	14	6	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:39122658G>A	uc003gts.2	+	11	2315	c.2240G>A	c.(2239-2241)GGA>GAA	p.G747E	KLHL5_uc003gtp.2_Missense_Mutation_p.G701E|KLHL5_uc003gtq.2_Missense_Mutation_p.G560E|KLHL5_uc003gtt.2_Missense_Mutation_p.G686E	NM_015990	NP_057074	Q96PQ7	KLHL5_HUMAN	kelch-like 5 isoform 1	747	Kelch 6.					cytoplasm|cytoskeleton	actin binding			ovary(1)	1						GGAAGAGCTGGAGCTTGTGTT	0.358													17	81	---	---	---	---	PASS	A	39122658	A	A	39122658	3	1	91	1	0	0	0	0	1	0	0	0	8392	1174	41	2	2282	2	KLHL5	4	39122658	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	24061820	39122658	152031618	197	34193										
KCTD8	386617	broad.mit.edu	37	chr4	44449797	44449797	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctctcgttgagcgtgtccccGaagacctccttggccagcgc	11	16	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:44449797G>A	uc003gwu.2	-	1	1028	c.744C>T	c.(742-744)TTC>TTT	p.F248F		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	248						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						GCGTGTCCCCGAAGACCTCCT	0.647										HNSCC(17;0.042)			10	18	---	---	---	---	PASS	A	44449797	A	A	44449797	2	1	91	1	0	0	0	0	0	0	0	1	8115	1049	37	2		2	KCTD8	4	44449797	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	5327139	44449797	146704479	198	34194										
LRRC66	339977	broad.mit.edu	37	chr4	52883607	52883607	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagtggctgctgtctgtgatAtgtccacaggtatatcacac	10	10	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:52883607A>G	uc003gzi.2	-	1	186	c.173T>C	c.(172-174)ATA>ACA	p.I58T		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	58						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						TGTCTGTGATATGTCCACAGG	0.343													13	111	---	---	---	---	PASS	G	52883607	G	G	52883607	3	3	91	1	0	0	0	0	1	0	0	0	9018	449	16	5	2485	5	LRRC66	4	52883607	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	8433810	52883607	138270669	199	34195										
PDGFRA	5156	broad.mit.edu	37	chr4	55161433	55161433	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gacctggtggaagacagcttCctgtaactggcggattcgag	14	9	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:55161433C>T	uc003han.3	+	23	3595	c.3264C>T	c.(3262-3264)TTC>TTT	p.F1088F	PDGFRA_uc003haa.2_Silent_p.F848F	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	1088	Cytoplasmic (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	AAGACAGCTTCCTGTAACTGG	0.512			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			13	156	---	---	---	---	PASS	T	55161433	T	T	55161433	2	4	91	1	0	0	0	0	0	0	0	1	11661	854	30	2		2	PDGFRA	4	55161433	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	2277826	55161433	135992843	200	34196										
ENAM	10117	broad.mit.edu	37	chr4	71508450	71508450	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caatgaaaaaatccaaaatcCaaaggagaagcccctgggtc	8	10	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:71508450C>G	uc011caw.1	+	9	1588	c.1307C>G	c.(1306-1308)CCA>CGA	p.P436R		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	436					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			ATCCAAAATCCAAAGGAGAAG	0.448													12	88	---	---	---	---	PASS	G	71508450	G	G	71508450	3	3	91	1	0	0	0	0	1	0	0	0	5112	594	21	4	1337	4	ENAM	4	71508450	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	16347017	71508450	119645826	201	34197										
SCARB2	950	broad.mit.edu	37	chr4	77084496	77084496	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcaaagtagtgttaatcataGacttcagtcgactcgccgtc	8	10	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:77084496G>C	uc003hju.1	-	11	1619	c.1280C>G	c.(1279-1281)TCT>TGT	p.S427C	SCARB2_uc011cbu.1_Missense_Mutation_p.S284C	NM_005506	NP_005497	Q14108	SCRB2_HUMAN	scavenger receptor class B, member 2	427	Lumenal (Potential).				cell adhesion|protein targeting to lysosome	integral to plasma membrane|lysosomal lumen|lysosomal membrane|membrane fraction	enzyme binding|receptor activity				0			Lung(101;0.196)			GTTAATCATAGACTTCAGTCG	0.408													29	116	---	---	---	---	PASS	C	77084496	C	C	77084496	3	2	91	1	0	0	0	0	1	0	0	0	13882	942	33	2	164	2	SCARB2	4	77084496	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	5576046	77084496	114069780	202	34198										
SHROOM3	57619	broad.mit.edu	37	chr4	77662404	77662404	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tactcggagcccgagaagatGaacgaggtggggatcgtgga	17	7	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:77662404G>A	uc011cbx.1	+	5	4031	c.3078G>A	c.(3076-3078)ATG>ATA	p.M1026I	SHROOM3_uc011cbz.1_Missense_Mutation_p.M850I|SHROOM3_uc003hkf.1_Missense_Mutation_p.M901I|SHROOM3_uc003hkg.2_Missense_Mutation_p.M804I	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	1026	ASD1.				apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			CCGAGAAGATGAACGAGGTGG	0.711													4	21	---	---	---	---	PASS	A	77662404	A	A	77662404	3	1	91	1	0	0	0	0	1	0	0	0	14295	1290	45	2	3096	2	SHROOM3	4	77662404	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	577908	77662404	113491872	203	34199										
BMP2K	55589	broad.mit.edu	37	chr4	79832756	79832756	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atcgcactccagagagggctCgcaggcacaaaaaagtgggc	13	11	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:79832756C>T	uc003hlk.2	+	16	3221	c.3055C>T	c.(3055-3057)CGC>TGC	p.R1019C	PAQR3_uc003hlm.2_Intron|PAQR3_uc003hln.2_Intron|uc010ijm.1_5'Flank	NM_198892	NP_942595	Q9NSY1	BMP2K_HUMAN	BMP-2 inducible kinase isoform a	1019						nucleus	ATP binding|protein serine/threonine kinase activity			lung(1)	1						AGAGAGGGCTCGCAGGCACAA	0.478													10	107	---	---	---	---	PASS	T	79832756	T	T	79832756	3	4	91	1	0	0	0	0	1	0	0	0	1460	884	31	2	3155	2	BMP2K	4	79832756	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2170352	79832756	111321520	204	34200										
HELQ	113510	broad.mit.edu	37	chr4	84376570	84376570	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctggtctcccacccctctgtCagtgggcatgtgacgtagga	12	13	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:84376570C>T	uc003hom.2	-	1	456	c.277G>A	c.(277-279)GAC>AAC	p.D93N	HELQ_uc010ikb.2_Missense_Mutation_p.D93N|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA|HELQ_uc003hon.1_5'UTR|HELQ_uc003hoo.1_Intron|HELQ_uc003hop.1_5'UTR|HELQ_uc003hoq.1_Missense_Mutation_p.D93N|MRPS18C_uc003hor.3_5'Flank|MRPS18C_uc011ccu.1_5'Flank	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	93							ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						ACCCCTCTGTCAGTGGGCATG	0.532								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					21	187	---	---	---	---	PASS	T	84376570	T	T	84376570	3	4	91	1	0	0	0	0	1	0	0	0	7047	826	29	2	3100	2	HELQ	4	84376570	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	4543814	84376570	106777706	205	34201										
WDFY3	23001	broad.mit.edu	37	chr4	85664938	85664938	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttttgctgagttcttgtagaCctttcaggggaagcctaatc	10	8	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:85664938C>T	uc003hpd.2	-	37	6396	c.5988G>A	c.(5986-5988)AGG>AGA	p.R1996R		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1996						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TTCTTGTAGACCTTTCAGGGG	0.323													12	90	---	---	---	---	PASS	T	85664938	T	T	85664938	2	4	91	1	0	0	0	0	0	0	0	1	17267	506	18	3		3	WDFY3	4	85664938	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1288368	85664938	105489338	206	34202										
PKD2	5311	broad.mit.edu	37	chr4	88979148	88979148	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tttatagcttcactcaattcCgtatcattttgggcgatatc	6	9	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:88979148C>T	uc003hre.2	+	9	1978	c.1912C>T	c.(1912-1914)CGT>TGT	p.R638C	PKD2_uc011cdf.1_Missense_Mutation_p.R56C|PKD2_uc011cdg.1_Intron|PKD2_uc011cdh.1_Intron	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	638	Extracellular (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		CACTCAATTCCGTATCATTTT	0.313													9	71	---	---	---	---	PASS	T	88979148	T	T	88979148	3	4	91	1	0	0	0	0	1	0	0	0	11966	652	23	1	1946	1	PKD2	4	88979148	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3314210	88979148	102175128	207	34203										
MTTP	4547	broad.mit.edu	37	chr4	100510802	100510802	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttcccctctccccaccaggtCaaagagttctactcatatca	4	16	5	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:100510802C>G	uc003hvc.3	+	5	652	c.396C>G	c.(394-396)GTC>GTG	p.V132V	MTTP_uc011cej.1_Silent_p.V159V	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	132	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	CCCACCAGGTCAAAGAGTTCT	0.408													6	43	---	---	---	---	PASS	G	100510802	G	G	100510802	2	3	91	1	0	0	0	0	0	0	0	1	9964	813	29	2		2	MTTP	4	100510802	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	11531654	100510802	90643474	208	34204										
MANBA	4126	broad.mit.edu	37	chr4	103553402	103553402	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gacagctgaggtctccaggtCaaaaacaaatatgtcacctt	8	10	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:103553402C>G	uc003hwg.2	-	17	2552	c.2452G>C	c.(2452-2454)GAC>CAC	p.D818H	MANBA_uc011ces.1_Missense_Mutation_p.D761H	NM_005908	NP_005899	O00462	MANBA_HUMAN	mannosidase, beta A, lysosomal precursor	818					carbohydrate metabolic process|protein modification process	lysosome	beta-mannosidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;4.44e-08)		GTCTCCAGGTCAAAAACAAAT	0.418													11	108	---	---	---	---	PASS	G	103553402	G	G	103553402	3	3	91	1	0	0	0	0	1	0	0	0	9219	826	29	2	191	2	MANBA	4	103553402	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3042600	103553402	87600874	209	34205										
LARP1B	55132	broad.mit.edu	37	chr4	129035746	129035746	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtctgccccaaattctccaaGaattggaagcccattgagcc	8	13	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:129035746G>C	uc003iga.2	+	10	1141	c.1010G>C	c.(1009-1011)AGA>ACA	p.R337T	LARP1B_uc003ifz.1_Missense_Mutation_p.R337T|LARP1B_uc003igb.1_Missense_Mutation_p.R52T	NM_018078	NP_060548	Q659C4	LAR1B_HUMAN	La ribonucleoprotein domain family member 2	337							RNA binding				0						AATTCTCCAAGAATTGGAAGC	0.343													16	44	---	---	---	---	PASS	C	129035746	C	C	129035746	3	2	91	1	0	0	0	0	1	0	0	0	8629	942	33	2	1129	2	LARP1B	4	129035746	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	25482344	129035746	62118530	210	34206										
RBM46	166863	broad.mit.edu	37	chr4	155720158	155720158	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttgttcactttttcaaccgaGaagatgcagtggctgccatg	10	9	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:155720158G>A	uc003ioo.2	+	4	1017	c.844G>A	c.(844-846)GAA>AAA	p.E282K	RBM46_uc011cim.1_Missense_Mutation_p.E282K|RBM46_uc003iop.1_Missense_Mutation_p.E282K	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	282	RRM 3.						nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				TTTCAACCGAGAAGATGCAGT	0.363													7	33	---	---	---	---	PASS	A	155720158	A	A	155720158	3	1	91	1	0	0	0	0	1	0	0	0	13140	943	33	2	854	2	RBM46	4	155720158	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	26684412	155720158	35434118	211	34207										
NAF1	92345	broad.mit.edu	37	chr4	164050300	164050300	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aatgggattattttgtctctGagaaggaaatcctgaagtct	10	5	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:164050300G>A	uc003iqj.2	-	8	1428	c.1234C>T	c.(1234-1236)CAG>TAG	p.Q412*	NAF1_uc010iqw.1_Intron	NM_138386	NP_612395	Q96HR8	NAF1_HUMAN	nuclear assembly factor 1 homolog isoform a	412					rRNA processing|snRNA pseudouridine synthesis	cytoplasm|nucleus|small nucleolar ribonucleoprotein complex	protein binding|snoRNA binding			ovary(2)	2	all_hematologic(180;0.166)	Prostate(90;0.109)				TTTTGTCTCTGAGAAGGAAAT	0.413													14	101	---	---	---	---	PASS	A	164050300	A	A	164050300	4	1	91	1	0	0	0	0	0	1	0	0	10140	1299	45	2	395	2	NAF1	4	164050300	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	8330142	164050300	27103976	212	34208										
NPY1R	4886	broad.mit.edu	37	chr4	164247167	164247167	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acattttggaacggctcatcAgtcattacttggtagatcag	9	8	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:164247167A>C	uc003iqm.1	-	2	806	c.540T>G	c.(538-540)ACT>ACG	p.T180T	NPY1R_uc011cjj.1_Intron	NM_000909	NP_000900	P25929	NPY1R_HUMAN	neuropeptide Y receptor Y1	180	Extracellular (Potential).				inhibition of adenylate cyclase activity by G-protein signaling pathway|outflow tract morphogenesis	integral to plasma membrane	protein binding			lung(1)|pancreas(1)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				ACGGCTCATCAGTCATTACTT	0.418													63	67	---	---	---	---	PASS	C	164247167	C	C	164247167	2	2	91	1	0	0	0	0	0	0	0	1	10608	175	7	5		5	NPY1R	4	164247167	Silent	SNP	A	TCGA-39-5031-01A-01D-1441-08	196867	164247167	26907109	213	34209										
ANP32C	23520	broad.mit.edu	37	chr4	165118229	165118229	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctcgccatctacctctccaTcgttataaccttcttcatcc	2	18	4	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr4:165118229T>C	uc011cjk.1	-	1	635	c.635A>G	c.(634-636)GAT>GGT	p.D212G	MARCH1_uc003iqs.1_Intron	NM_012403	NP_036535	O43423	AN32C_HUMAN	acidic nuclear phosphoprotein 32C	212	Asp/Glu-rich (highly acidic).										0	all_hematologic(180;0.203)	Prostate(90;0.0138)|Melanoma(52;0.18)|all_neural(102;0.223)		KIRC - Kidney renal clear cell carcinoma(143;0.242)		tacctctccatcgttataacc	0.03													29	19	---	---	---	---	PASS	C	165118229	C	C	165118229	3	2	91	1	0	0	0	0	1	0	0	0	707	1435	50	5	72	5	ANP32C	4	165118229	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	871062	165118229	26036047	214	34210										
CCDC127	133957	broad.mit.edu	37	chr5	205636	205636	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcgcaccagtaagctcttctCtatctccagccgcttgctgc	7	16	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:205636C>G	uc003jam.1	-	3	659	c.559G>C	c.(559-561)GAG>CAG	p.E187Q		NM_145265	NP_660308	Q96BQ5	CC127_HUMAN	coiled-coil domain containing 127	187											0			all cancers(22;0.0236)|Lung(60;0.113)			AAGCTCTTCTCTATCTCCAGC	0.517													10	195	---	---	---	---	PASS	G	205636	G	G	205636	3	3	91	1	0	0	0	0	1	0	0	0	2763	922	32	2	227	2	CCDC127	5	205636	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08		205636	180709624	215	34211										
BRD9	65980	broad.mit.edu	37	chr5	865589	865589	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gctgaggttggacgacggccGagagccgccgcgctccgcct	16	15	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:865589G>A	uc003jbq.2	-	15	1800	c.1633C>T	c.(1633-1635)CGG>TGG	p.R545W	BRD9_uc003jbl.2_Missense_Mutation_p.R429W|BRD9_uc003jbm.2_RNA|BRD9_uc003jbn.2_RNA|BRD9_uc011cmb.1_Missense_Mutation_p.R492W|BRD9_uc003jbo.2_Missense_Mutation_p.R449W	NM_023924	NP_076413	Q9H8M2	BRD9_HUMAN	bromodomain containing 9 isoform 1	545							nucleic acid binding				0			Epithelial(17;0.00202)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00815)|Lung(60;0.185)			GACGACGGCCGAGAGCCGCCG	0.652													9	176	---	---	---	---	PASS	A	865589	A	A	865589	3	1	91	1	0	0	0	0	1	0	0	0	1507	1057	37	2	168	2	BRD9	5	865589	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	659953	865589	180049671	216	34212										
SLC12A7	10723	broad.mit.edu	37	chr5	1075584	1075584	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atcagcgccaggcacaggctCatacccagaaaggacagggt	12	12	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:1075584C>G	uc003jbu.2	-	15	1935	c.1869G>C	c.(1867-1869)ATG>ATC	p.M623I		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	623	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	GGCACAGGCTCATACCCAGAA	0.642													12	66	---	---	---	---	PASS	G	1075584	G	G	1075584	3	3	91	1	0	0	0	0	1	0	0	0	14388	826	29	2	1422	2	SLC12A7	5	1075584	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	209995	1075584	179839676	217	34213										
TERT	7015	broad.mit.edu	37	chr5	1264696	1264696	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agccatactcagggacacctCggaccagggtcctaaggcag	12	13	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:1264696C>T	uc003jcb.1	-	11	2724	c.2666G>A	c.(2665-2667)CGA>CAA	p.R889Q	TERT_uc003jbz.1_Missense_Mutation_p.R85Q|TERT_uc003jca.1_Missense_Mutation_p.R877Q|TERT_uc003jcc.1_Intron|TERT_uc003jcd.1_Intron|TERT_uc003jce.1_Intron	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	889	Reverse transcriptase.				anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			AGGGACACCTCGGACCAGGGT	0.577									TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				10	243	---	---	---	---	PASS	T	1264696	T	T	1264696	3	4	91	1	0	0	0	0	1	0	0	0	15761	884	31	2	756	2	TERT	5	1264696	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	189112	1264696	179650564	218	34214										
KIAA0947	23379	broad.mit.edu	37	chr5	5463329	5463329	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttaaatgtaaataacaacatGaccactgagaatttaaaaga	5	5	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:5463329G>C	uc003jdm.3	+	13	4104	c.3882G>C	c.(3880-3882)ATG>ATC	p.M1294I		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1294										ovary(1)|central_nervous_system(1)	2						ATAACAACATGACCACTGAGA	0.408													13	51	---	---	---	---	PASS	C	5463329	C	C	5463329	3	2	91	1	0	0	0	0	1	0	0	0	8202	1290	45	2	3932	2	KIAA0947	5	5463329	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4198633	5463329	175451931	219	34215										
CTNND2	1501	broad.mit.edu	37	chr5	11384923	11384923	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agctcagctggtggatgggcGaggaggagatggtggactgc	20	6	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:11384923G>C	uc003jfa.1	-	7	1176	c.1031C>G	c.(1030-1032)TCG>TGG	p.S344W	CTNND2_uc010itt.2_Missense_Mutation_p.S253W|CTNND2_uc011cmy.1_Intron|CTNND2_uc011cmz.1_Intron|CTNND2_uc010itu.1_Intron|CTNND2_uc011cmx.1_5'UTR	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	344					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GTGGATGGGCGAGGAGGAGAT	0.672													6	46	---	---	---	---	PASS	C	11384923	C	C	11384923	3	2	91	1	0	0	0	0	1	0	0	0	4020	1059	37	2	2710	2	CTNND2	5	11384923	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	5921594	11384923	169530337	220	34216										
TRIO	7204	broad.mit.edu	37	chr5	14488200	14488200	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggggggctccttctggagctCcatccccgcctcccccgcca	11	20	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:14488200C>G	uc003jff.2	+	48	7469	c.7463C>G	c.(7462-7464)TCC>TGC	p.S2488C	TRIO_uc003jfg.2_Intron|TRIO_uc003jfh.1_Missense_Mutation_p.S2137C	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2488					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					TTCTGGAGCTCCATCCCCGCC	0.731													5	30	---	---	---	---	PASS	G	14488200	G	G	14488200	3	3	91	1	0	0	0	0	1	0	0	0	16549	855	30	2	7653	2	TRIO	5	14488200	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3103277	14488200	166427060	221	34217										
CDH10	1008	broad.mit.edu	37	chr5	24505332	24505332	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aatgttaaagattctgtcaaGgtcagtatggcgatccaagg	11	6	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:24505332G>A	uc003jgr.1	-	8	1614	c.1282C>T	c.(1282-1284)CTT>TTT	p.L428F	CDH10_uc011cnu.1_Intron	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	428	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ATTCTGTCAAGGTCAGTATGG	0.363										HNSCC(23;0.051)			65	74	---	---	---	---	PASS	A	24505332	A	A	24505332	3	1	91	1	0	0	0	0	1	0	0	0	3096	1000	35	3	1104	3	CDH10	5	24505332	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	10017132	24505332	156409928	222	34218										
CDH9	1007	broad.mit.edu	37	chr5	26916023	26916023	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tccatctcctttatcttggtCagtgtgaagctttagagagg	10	8	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:26916023C>G	uc003jgs.1	-	3	407	c.238G>C	c.(238-240)GAC>CAC	p.D80H	CDH9_uc010iug.2_Missense_Mutation_p.D80H	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	80	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TTATCTTGGTCAGTGTGAAGC	0.338													123	109	---	---	---	---	PASS	G	26916023	G	G	26916023	3	3	91	1	0	0	0	0	1	0	0	0	3117	826	29	2	2171	2	CDH9	5	26916023	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2410691	26916023	153999237	223	34219										
OSMR	9180	broad.mit.edu	37	chr5	38932055	38932055	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atcatggtcatgtgctacttGaaaagtcagtggtaagtgtg	12	5	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:38932055G>A	uc003jln.1	+	16	2650	c.2283G>A	c.(2281-2283)TTG>TTA	p.L761L	OSMR_uc011cpj.1_Intron	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	761	Helical; (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					TGTGCTACTTGAAAAGTCAGT	0.388													20	225	---	---	---	---	PASS	A	38932055	A	A	38932055	2	1	91	1	0	0	0	0	0	0	0	1	11292	1281	45	2		2	OSMR	5	38932055	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	12016032	38932055	141983205	224	34220										
HCN1	348980	broad.mit.edu	37	chr5	45353208	45353208	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acaataaatcttacctctctCagaggatcattgagttcatt	5	9	5	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:45353208C>T	uc003jok.2	-	5	1396	c.1371G>A	c.(1369-1371)CTG>CTA	p.L457L		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	457	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TTACCTCTCTCAGAGGATCAT	0.343													15	170	---	---	---	---	PASS	T	45353208	T	T	45353208	2	4	91	1	0	0	0	0	0	0	0	1	6996	813	29	2		2	HCN1	5	45353208	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	6421153	45353208	135562052	225	34221										
ITGA2	3673	broad.mit.edu	37	chr5	52374695	52374695	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gttggtccaaaattcatcttCtccctgaaggttggtaagcc	9	10	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:52374695C>T	uc003joy.2	+	24	3062	c.2919C>T	c.(2917-2919)TTC>TTT	p.F973F	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Silent_p.F897F|ITGA2_uc011cqd.1_Intron|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	973	Extracellular (Potential).				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				AATTCATCTTCTCCCTGAAGG	0.368													12	75	---	---	---	---	PASS	T	52374695	T	T	52374695	2	4	91	1	0	0	0	0	0	0	0	1	7875	912	32	2		2	ITGA2	5	52374695	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	7021487	52374695	128540565	226	34222										
PPAP2A	8611	broad.mit.edu	37	chr5	54721826	54721826	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aattgcagtgtggggcgtaaGagtcttgcccagtctccctt	12	10	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:54721826G>C	uc003jqa.2	-	5	1007	c.591C>G	c.(589-591)CTC>CTG	p.L197L	PPAP2A_uc003jpz.2_Silent_p.L198L|PPAP2A_uc003jqb.2_RNA	NM_003711	NP_003702	O14494	LPP1_HUMAN	phosphatidic acid phosphatase type 2A isoform 1	197	Cytoplasmic (Potential).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|androgen receptor signaling pathway|germ cell migration|negative regulation of cell proliferation|phospholipid dephosphorylation|regulation of lipid metabolic process|sphingolipid metabolic process	integral to plasma membrane|membrane fraction	phosphatidate phosphatase activity|sphingosine-1-phosphate phosphatase activity			ovary(2)	2		Lung NSC(810;4.08e-05)|Prostate(74;0.0181)|Breast(144;0.0544)				TGGGGCGTAAGAGTCTTGCCC	0.383													15	100	---	---	---	---	PASS	C	54721826	C	C	54721826	2	2	91	1	0	0	0	0	0	0	0	1	12290	929	33	2		2	PPAP2A	5	54721826	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	2347131	54721826	126193434	227	34223										
SV2C	22987	broad.mit.edu	37	chr5	75591689	75591689	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gctaaccagaaatgtggagaGagataaatatgcaaatttca	9	5	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:75591689G>A	uc003kei.1	+	9	1558	c.1424G>A	c.(1423-1425)AGA>AAA	p.R475K		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	475	Extracellular (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		AATGTGGAGAGAGATAAATAT	0.358													20	113	---	---	---	---	PASS	A	75591689	A	A	75591689	3	1	91	1	0	0	0	0	1	0	0	0	15416	942	33	2	1454	2	SV2C	5	75591689	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	20869863	75591689	105323571	228	34224										
LYSMD3	116068	broad.mit.edu	37	chr5	89815272	89815272	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaaaagtcttgatcactgatGagattgttaactctcttgat	7	6	3	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:89815272G>A	uc003kjr.2	-	3	433	c.285C>T	c.(283-285)CTC>CTT	p.L95L	LYSMD3_uc010jaz.1_Intron|LYSMD3_uc003kjs.1_Intron	NM_198273	NP_938014	Q7Z3D4	LYSM3_HUMAN	LysM, putative peptidoglycan-binding, domain	95	Extracellular (Potential).|LysM.				cell wall macromolecule catabolic process	integral to membrane					0		all_cancers(142;5.03e-09)|all_epithelial(76;1.23e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;1.94e-31)|Epithelial(54;5.22e-26)|all cancers(79;2.42e-22)		GATCACTGATGAGATTGTTAA	0.373													11	85	---	---	---	---	PASS	A	89815272	A	A	89815272	2	1	91	1	0	0	0	0	0	0	0	1	9126	1277	45	2		2	LYSMD3	5	89815272	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	14223583	89815272	91099988	229	34225										
GPR98	84059	broad.mit.edu	37	chr5	89933761	89933761	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaactgtaacactttctctaGacaggtaataacccatttag	5	9	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:89933761G>C	uc003kju.2	+	11	2332	c.2236G>C	c.(2236-2238)GAC>CAC	p.D746H	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	746	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		ACTTTCTCTAGACAGGTAATA	0.294													8	57	---	---	---	---	PASS	C	89933761	C	C	89933761	3	2	91	1	0	0	0	0	1	0	0	0	6721	942	33	2	2278	2	GPR98	5	89933761	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	118489	89933761	90981499	230	34226										
GPR98	84059	broad.mit.edu	37	chr5	89981778	89981778	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcatttgcagatgtctctgtGaagtttaaagctgtgccaat	10	7	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:89981778G>A	uc003kju.2	+	29	6552	c.6456G>A	c.(6454-6456)GTG>GTA	p.V2152V	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2152	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		ATGTCTCTGTGAAGTTTAAAG	0.428													7	26	---	---	---	---	PASS	A	89981778	A	A	89981778	2	1	91	1	0	0	0	0	0	0	0	1	6721	1277	45	2		2	GPR98	5	89981778	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	48017	89981778	90933482	231	34227										
SNCAIP	9627	broad.mit.edu	37	chr5	121785556	121785556	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccagacaaacagtagaacgtGtcacgctgcagaaccaactc	8	13	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:121785556G>C	uc003ksw.1	+	9	1815	c.1609G>C	c.(1609-1611)GTC>CTC	p.V537L	SNCAIP_uc011cwl.1_Missense_Mutation_p.V95L|SNCAIP_uc003ksx.1_Missense_Mutation_p.V584L|SNCAIP_uc003ksy.1_Missense_Mutation_p.V171L|SNCAIP_uc003ksz.1_Missense_Mutation_p.V171L|SNCAIP_uc010jcu.2_Missense_Mutation_p.V133L|SNCAIP_uc011cwm.1_Missense_Mutation_p.V171L|SNCAIP_uc003kta.1_Missense_Mutation_p.V169L|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.V231L|SNCAIP_uc010jcx.1_Missense_Mutation_p.V477L|uc003ktb.1_Intron|SNCAIP_uc003ktc.1_Missense_Mutation_p.V53L	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	537	Potential.				cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		AGTAGAACGTGTCACGCTGCA	0.403													89	123	---	---	---	---	PASS	C	121785556	C	C	121785556	3	2	91	1	0	0	0	0	1	0	0	0	14841	1377	48	4	1639	4	SNCAIP	5	121785556	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	31803778	121785556	59129704	232	34228										
P4HA2	8974	broad.mit.edu	37	chr5	131552898	131552898	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	accgtccctcacctgcagctGagtcctgcaggacaaggtcc	10	16	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:131552898G>C	uc003kwh.2	-	4	887	c.323C>G	c.(322-324)TCA>TGA	p.S108*	P4HA2_uc003kwg.2_Nonsense_Mutation_p.S108*|P4HA2_uc003kwi.2_Nonsense_Mutation_p.S108*|P4HA2_uc003kwk.2_Nonsense_Mutation_p.S108*|P4HA2_uc003kwl.2_Nonsense_Mutation_p.S108*|P4HA2_uc003kwj.2_Nonsense_Mutation_p.S108*	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	108						endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	ACCTGCAGCTGAGTCCTGCAG	0.577													15	141	---	---	---	---	PASS	C	131552898	C	C	131552898	4	2	91	1	0	0	0	0	0	1	0	0	11357	1294	45	2	1396	2	P4HA2	5	131552898	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	9767342	131552898	49362362	233	34229										
EGR1	1958	broad.mit.edu	37	chr5	137803577	137803577	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cttctcctctcccggctcctCgacctacccatcccctgtgc	5	22	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:137803577C>T	uc003ldb.1	+	2	1709	c.1439C>T	c.(1438-1440)TCG>TTG	p.S480L	EGR1_uc011cyu.1_Intron	NM_001964	NP_001955	P18146	EGR1_HUMAN	early growth response 1	480					cellular response to heparin|cellular response to mycophenolic acid|glomerular mesangial cell proliferation|interleukin-1-mediated signaling pathway|positive regulation of glomerular metanephric mesangial cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of protein sumoylation|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytoplasm|nucleus	histone acetyltransferase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			cccggctcctcgacctaccca	0.279													14	111	---	---	---	---	PASS	T	137803577	T	T	137803577	3	4	91	1	0	0	0	0	1	0	0	0	4971	893	31	2	1445	2	EGR1	5	137803577	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	6250679	137803577	43111683	234	34230										
CTNNA1	1495	broad.mit.edu	37	chr5	138268336	138268336	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcgccctctactgccaccagCtgaacatctgcagcaaggtc	8	16	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:138268336C>T	uc003ldh.2	+	17	2463	c.2368C>T	c.(2368-2370)CTG>TTG	p.L790L	CTNNA1_uc011cyx.1_Silent_p.L687L|CTNNA1_uc011cyy.1_Silent_p.L667L|CTNNA1_uc003ldi.2_Silent_p.L488L|CTNNA1_uc003ldj.2_Silent_p.L790L|CTNNA1_uc003ldl.2_Silent_p.L420L	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	790					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CTGCCACCAGCTGAACATCTG	0.572													5	57	---	---	---	---	PASS	T	138268336	T	T	138268336	2	4	91	1	0	0	0	0	0	0	0	1	4012	796	28	3		3	CTNNA1	5	138268336	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	464759	138268336	42646924	235	34231										
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139918523	139918523	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggtctgccaatttccatgtAtggaggcaccataataccct	9	11	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:139918523A>G	uc003lfs.1	+	33	7548	c.7424A>G	c.(7423-7425)TAT>TGT	p.Y2475C	ANKHD1_uc003lfr.2_Missense_Mutation_p.Y2475C|ANKHD1-EIF4EBP3_uc011czh.1_Missense_Mutation_p.Y1231C|ANKHD1_uc003lfw.2_Missense_Mutation_p.Y1130C|ANKHD1_uc010jfl.2_Missense_Mutation_p.Y851C|ANKHD1-EIF4EBP3_uc003lfx.1_Missense_Mutation_p.Y620C	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	2475						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTTCCATGTATGGAGGCACC	0.368													30	51	---	---	---	---	PASS	G	139918523	G	G	139918523	3	3	91	1	0	0	0	0	1	0	0	0	629	449	16	5	7554	5	ANKHD1-EIF4EBP3	5	139918523	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	1650187	139918523	40996737	236	34232										
PCDHA7	56141	broad.mit.edu	37	chr5	140215333	140215333	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aacgacaacgccccggcgttCgcgcagcccgagtatacggt	12	15	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:140215333C>G	uc003lhq.2	+	1	1365	c.1365C>G	c.(1363-1365)TTC>TTG	p.F455L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.F455L	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	455	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCCGGCGTTCGCGCAGCCCG	0.677													48	64	---	---	---	---	PASS	G	140215333	G	G	140215333	3	3	91	1	0	0	0	0	1	0	0	0	11529	883	31	2	1367	2	PCDHA7	5	140215333	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	296810	140215333	40699927	237	34233										
PCDHA10	56139	broad.mit.edu	37	chr5	140237240	140237240	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gctacagttccaggtgagcgCgcgcgatgggggcgtgccgc	18	12	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:140237240C>T	uc003lhx.2	+	1	1607	c.1607C>T	c.(1606-1608)GCG>GTG	p.A536V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc011dad.1_Missense_Mutation_p.A536V	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	536	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGTGAGCGCGCGCGATGGG	0.677													37	66	---	---	---	---	PASS	T	140237240	T	T	140237240	3	4	91	1	0	0	0	0	1	0	0	0	11520	768	27	1	1609	1	PCDHA10	5	140237240	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	21907	140237240	40678020	238	34234										
DIAPH1	1729	broad.mit.edu	37	chr5	140953218	140953218	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggaggaatgccagggcctccGggaaatggaggaggtggagg	21	6	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:140953218G>A	uc003llb.3	-	16	2340	c.2199C>T	c.(2197-2199)CCC>CCT	p.P733P	DIAPH1_uc003llc.3_Silent_p.P724P|DIAPH1_uc010jgc.1_Silent_p.P172P	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	733	FH1.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGGCCTCCGGGAAATGGAG	0.612													7	28	---	---	---	---	PASS	A	140953218	A	A	140953218	2	1	91	1	0	0	0	0	0	0	0	1	4518	1103	39	1		1	DIAPH1	5	140953218	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	715978	140953218	39962042	239	34235										
PDGFRB	5159	broad.mit.edu	37	chr5	149515421	149515421	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggttccagaagtaacaggaGagacagcaacagcagctcgc	12	10	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:149515421G>A	uc003lro.2	-	3	530	c.61C>T	c.(61-63)CTC>TTC	p.L21F	PDGFRB_uc010jhd.2_5'UTR|PDGFRB_uc011dcg.1_Missense_Mutation_p.L21F	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	21					aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	AGTAACAGGAGAGACAGCAAC	0.592			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								8	33	---	---	---	---	PASS	A	149515421	A	A	149515421	3	1	91	1	0	0	0	0	1	0	0	0	11662	942	33	2	3343	2	PDGFRB	5	149515421	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	8562203	149515421	31399839	240	34236										
FAT2	2196	broad.mit.edu	37	chr5	150946710	150946710	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aatctcgtattttaggttctGaagctcatccacatctatgg	7	9	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:150946710G>A	uc003lue.3	-	1	1796	c.1783C>T	c.(1783-1785)CAG>TAG	p.Q595*	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Nonsense_Mutation_p.Q595*	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	595	Extracellular (Potential).|Cadherin 5.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTTAGGTTCTGAAGCTCATCC	0.413													15	112	---	---	---	---	PASS	A	150946710	A	A	150946710	4	1	91	1	0	0	0	0	0	1	0	0	5690	1299	45	2	11358	2	FAT2	5	150946710	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1431289	150946710	29968550	241	34237										
GRIA1	2890	broad.mit.edu	37	chr5	153030008	153030008	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atgctctttcaggacctggaGaagaaaaaggagcggctggt	14	7	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:153030008G>A	uc003lva.3	+	4	944	c.579G>A	c.(577-579)GAG>GAA	p.E193E	GRIA1_uc003luy.3_Silent_p.E193E|GRIA1_uc003luz.3_Silent_p.E98E|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Silent_p.E113E|GRIA1_uc011dcx.1_Silent_p.E124E|GRIA1_uc011dcy.1_Silent_p.E203E|GRIA1_uc011dcz.1_Silent_p.E203E|GRIA1_uc010jia.1_Silent_p.E173E	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	193	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AGGACCTGGAGAAGAAAAAGG	0.537													7	74	---	---	---	---	PASS	A	153030008	A	A	153030008	2	1	91	1	0	0	0	0	0	0	0	1	6767	933	33	2		2	GRIA1	5	153030008	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	2083298	153030008	27885252	242	34238										
SGCD	6444	broad.mit.edu	37	chr5	155935666	155935666	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctaaagctagaaggagactCtgaattcttacaacctctct	6	10	4	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:155935666C>A	uc003lwd.3	+	3	721	c.245C>A	c.(244-246)TCT>TAT	p.S82Y	SGCD_uc003lwa.1_Missense_Mutation_p.S83Y|SGCD_uc003lwb.2_Missense_Mutation_p.S83Y|SGCD_uc003lwc.3_Missense_Mutation_p.S83Y	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	82	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GAAGGAGACTCTGAATTCTTA	0.408													3	37	---	---	---	---	PASS	A	155935666	A	A	155935666	3	1	91	1	0	0	0	0	1	0	0	0	14201	913	32	2	258	2	SGCD	5	155935666	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2905658	155935666	24979594	243	34239										
LCP2	3937	broad.mit.edu	37	chr5	169697832	169697832	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	taatccgcgtcatcttccacGggtgcctcttcctcctcatt	6	16	4	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:169697832G>T	uc003man.1	-	7	621	c.414C>A	c.(412-414)CCC>CCA	p.P138P	LCP2_uc011det.1_5'UTR|LCP2_uc010jjo.1_5'Flank	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	138					immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		CATCTTCCACGGGTGCCTCTT	0.547													22	32	---	---	---	---	PASS	T	169697832	T	T	169697832	2	4	91	1	0	0	0	0	0	0	0	1	8692	1103	39	1		1	LCP2	5	169697832	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	13762166	169697832	11217428	244	34240										
UNC5A	90249	broad.mit.edu	37	chr5	176300995	176300995	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctggccctgaggacgtggccCtctatgtgggcctcatcgcc	13	15	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr5:176300995C>A	uc003mey.2	+	7	1105	c.913C>A	c.(913-915)CTC>ATC	p.L305I	UNC5A_uc010jkg.1_Missense_Mutation_p.L265I	NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	305	Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGACGTGGCCCTCTATGTGGG	0.627													18	42	---	---	---	---	PASS	A	176300995	A	A	176300995	3	1	91	1	0	0	0	0	1	0	0	0	16988	681	24	3	939	3	UNC5A	5	176300995	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	6603163	176300995	4614265	245	34241										
CAGE1	285782	broad.mit.edu	37	chr6	7355299	7355299	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aatctgggagtgggatattgCaagcctttggtcagcacatt	12	7	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:7355299C>G	uc003mxi.2	-	8	2471	c.1750G>C	c.(1750-1752)GCA>CCA	p.A584P	CAGE1_uc003mxh.2_RNA|CAGE1_uc003mxj.2_Missense_Mutation_p.A537P|CAGE1_uc003mxk.1_Missense_Mutation_p.A502P	NM_205864	NP_995586	Q8TC20	CAGE1_HUMAN	cancer antigen 1	720											0	Ovarian(93;0.0418)					TGGGATATTGCAAGCCTTTGG	0.279													15	81	---	---	---	---	PASS	G	7355299	G	G	7355299	3	3	91	1	0	0	0	0	1	0	0	0	2572	710	25	4	297	4	CAGE1	6	7355299	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08		7355299	163759768	246	34242										
DSP	1832	broad.mit.edu	37	chr6	7569565	7569565	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aacccactggccgtggacctCtcttgcaagtaagtcatcca	8	14	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:7569565C>T	uc003mxp.1	+	12	1845	c.1566C>T	c.(1564-1566)CTC>CTT	p.L522L	DSP_uc003mxq.1_Silent_p.L522L	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	522	Globular 1.|Interacts with plakophilin 1 and junction plakoglobin.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		CCGTGGACCTCTCTTGCAAGT	0.567													23	102	---	---	---	---	PASS	T	7569565	T	T	7569565	2	4	91	1	0	0	0	0	0	0	0	1	4781	900	32	2		2	DSP	6	7569565	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	214266	7569565	163545502	247	34243										
LRRC16A	55604	broad.mit.edu	37	chr6	25492188	25492188	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tttttcaggtctgtggagctCttctccgtggatgccttcaa	10	10	5	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:25492188C>A	uc011djw.1	+	15	1532	c.1156C>A	c.(1156-1158)CTT>ATT	p.L386I	LRRC16A_uc010jpx.2_Missense_Mutation_p.L386I|LRRC16A_uc010jpy.2_Missense_Mutation_p.L386I	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	386					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						CTGTGGAGCTCTTCTCCGTGG	0.413													11	60	---	---	---	---	PASS	A	25492188	A	A	25492188	3	1	91	1	0	0	0	0	1	0	0	0	8971	913	32	2	1214	2	LRRC16A	6	25492188	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	17922623	25492188	145622879	248	34244										
HIST1H1B	3009	broad.mit.edu	37	chr6	27835170	27835170	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcagccacagccttggtgatCagctctgagactgggggccc	14	13	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:27835170C>G	uc003njx.2	-	1	190	c.138G>C	c.(136-138)CTG>CTC	p.L46L		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	46	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						CCTTGGTGATCAGCTCTGAGA	0.602													35	108	---	---	---	---	PASS	G	27835170	G	G	27835170	2	3	91	1	0	0	0	0	0	0	0	1	7123	813	29	2		2	HIST1H1B	6	27835170	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	2342982	27835170	143279897	249	34245										
ZNF323	64288	broad.mit.edu	37	chr6	28297319	28297319	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcggggaccaggagtctcttGgtaacaaaactgcctaaaaa	10	9	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:28297319G>A	uc003nla.2	-	2	542	c.142C>T	c.(142-144)CAA>TAA	p.Q48*	ZNF323_uc003nld.2_Nonsense_Mutation_p.Q48*|ZNF323_uc010jra.2_Nonsense_Mutation_p.Q48*|ZNF323_uc003nlb.2_Intron|ZNF323_uc010jrb.2_Intron|ZNF323_uc003nlc.2_Nonsense_Mutation_p.Q48*	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	48	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GGAGTCTCTTGGTAACAAAAC	0.517													9	257	---	---	---	---	PASS	A	28297319	A	A	28297319	4	1	91	1	0	0	0	0	0	1	0	0	17840	1357	47	3	1090	3	ZNF323	6	28297319	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	462149	28297319	142817748	250	34246										
GABBR1	2550	broad.mit.edu	37	chr6	29572676	29572676	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acaagagtgatataggaggaGaaaactatggcaagagaggc	14	4	0	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:29572676G>C	uc003nmt.3	-	21	2865	c.2529C>G	c.(2527-2529)TTC>TTG	p.F843L	GABBR1_uc003nmp.3_Missense_Mutation_p.F726L|GABBR1_uc003nms.3_Missense_Mutation_p.F726L|GABBR1_uc003nmu.3_Missense_Mutation_p.F781L|GABBR1_uc011dlr.1_Missense_Mutation_p.F666L	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	843	Helical; Name=7; (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	TATAGGAGGAGAAAACTATGG	0.512													14	80	---	---	---	---	PASS	C	29572676	C	C	29572676	3	2	91	1	0	0	0	0	1	0	0	0	6155	933	33	2	368	2	GABBR1	6	29572676	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1275357	29572676	141542391	251	34247										
MDC1	9656	broad.mit.edu	37	chr6	30672587	30672587	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caggctggtctgtggaggtgGaaggctggagctcaggggct	20	7	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:30672587G>T	uc003nrg.3	-	10	4813	c.4373C>A	c.(4372-4374)TCC>TAC	p.S1458Y	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Missense_Mutation_p.S1065Y	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1458	Pro-rich.|Interaction with the PRKDC complex.				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TGTGGAGGTGGAAGGCTGGAG	0.567								Other_conserved_DNA_damage_response_genes					21	238	---	---	---	---	PASS	T	30672587	T	T	30672587	3	4	91	1	0	0	0	0	1	0	0	0	9403	1174	41	2	1920	2	MDC1	6	30672587	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1099911	30672587	140442480	252	34248										
MDC1	9656	broad.mit.edu	37	chr6	30673549	30673549	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgagatgtgggcttgggagtGactggctgggctgtggaggt	21	4	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:30673549G>C	uc003nrg.3	-	10	3851	c.3411C>G	c.(3409-3411)GTC>GTG	p.V1137V	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Silent_p.V744V	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1137	Pro-rich.			Missing (in Ref. 2; CAH18685).	cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						GCTTGGGAGTGACTGGCTGGG	0.577								Other_conserved_DNA_damage_response_genes					33	253	---	---	---	---	PASS	C	30673549	C	C	30673549	2	2	91	1	0	0	0	0	0	0	0	1	9403	1277	45	2		2	MDC1	6	30673549	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	962	30673549	140441518	253	34249										
CDSN	1041	broad.mit.edu	37	chr6	31083910	31083910	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcccggatggagcggcagggGatctttccagcactgctgga	15	11	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:31083910G>T	uc003nsm.1	-	2	1509	c.1482C>A	c.(1480-1482)ATC>ATA	p.I494I	PSORS1C1_uc003nsl.1_Intron|PSORS1C1_uc010jsj.1_Intron	NM_001264	NP_001255	Q15517	CDSN_HUMAN	corneodesmosin precursor	494					cell-cell adhesion|keratinocyte differentiation|skin morphogenesis	cornified envelope|desmosome|extracellular region	protein homodimerization activity			ovary(1)|pancreas(1)	2						AGCGGCAGGGGATCTTTCCAG	0.607													16	65	---	---	---	---	PASS	T	31083910	T	T	31083910	2	4	91	1	0	0	0	0	0	0	0	1	3179	1164	41	2		2	CDSN	6	31083910	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	410361	31083910	140031157	254	34250										
BAT3	7917	broad.mit.edu	37	chr6	31607333	31607333	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caggtcccggctcaggctctCggggctcgtcaggggccgag	17	14	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:31607333C>T	uc003nvg.3	-	24	3561	c.3247G>A	c.(3247-3249)GAG>AAG	p.E1083K	BAT3_uc003nvf.3_Missense_Mutation_p.E1077K|BAT3_uc003nvh.3_Missense_Mutation_p.E1077K|BAT3_uc003nvi.3_Missense_Mutation_p.E1077K|BAT3_uc011dnw.1_Intron|BAT3_uc011dnx.1_Intron	NM_004639	NP_004630	P46379	BAG6_HUMAN	HLA-B associated transcript-3 isoform a	1083					apoptosis in response to endoplasmic reticulum stress|brain development|cell differentiation|chromatin modification|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|embryo development|internal peptidyl-lysine acetylation|kidney development|lung development|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|protein stabilization|spermatogenesis|synaptonemal complex assembly|tail-anchored membrane protein insertion into ER membrane|transport|ubiquitin-dependent protein catabolic process	BAT3 complex|nucleus	polyubiquitin binding|proteasome binding|ribosome binding				0						CTCAGGCTCTCGGGGCTCGTC	0.652													11	104	---	---	---	---	PASS	T	31607333	T	T	31607333	3	4	91	1	0	0	0	0	1	0	0	0	1322	893	31	2	159	2	BAT3	6	31607333	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	523423	31607333	139507734	255	34251										
BTNL2	56244	broad.mit.edu	37	chr6	32374847	32374847	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgcttcattgtcagcaggatGaataggaaggaggcgactgc	14	7	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:32374847G>A	uc003obg.1	-	1	54	c.54C>T	c.(52-54)TTC>TTT	p.F18F	BTNL2_uc010jty.1_5'UTR|BTNL2_uc010jtz.1_RNA|BTNL2_uc010jua.1_Silent_p.F18F	NM_019602	NP_062548	Q9UIR0	BTNL2_HUMAN	butyrophilin-like 2	18	Helical; Signal-anchor for type II membrane protein; (Potential).					integral to membrane				central_nervous_system(1)	1						TCAGCAGGATGAATAGGAAGG	0.493													19	156	---	---	---	---	PASS	A	32374847	A	A	32374847	2	1	91	1	0	0	0	0	0	0	0	1	1565	1281	45	2		2	BTNL2	6	32374847	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	767514	32374847	138740220	256	34252										
COL11A2	1302	broad.mit.edu	37	chr6	33133405	33133405	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgggtccctgttggccgcctCatctgctcgatctcctcccg	10	17	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:33133405C>T	uc003ocx.1	-	63	4899	c.4671G>A	c.(4669-4671)ATG>ATA	p.M1557I	COL11A2_uc010jul.1_Missense_Mutation_p.M127I|COL11A2_uc003ocy.1_Missense_Mutation_p.M1471I|COL11A2_uc003ocz.1_Missense_Mutation_p.M1450I	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1557	Fibrillar collagen NC1.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						TTGGCCGCCTCATCTGCTCGA	0.657													21	125	---	---	---	---	PASS	T	33133405	T	T	33133405	3	4	91	1	0	0	0	0	1	0	0	0	3668	826	29	2	555	2	COL11A2	6	33133405	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	758558	33133405	137981662	257	34253										
RING1	6015	broad.mit.edu	37	chr6	33179274	33179274	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggtggagaaattgagctcgtGttccggccccaccccctgct	12	14	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:33179274G>C	uc003odk.2	+	5	989	c.795G>C	c.(793-795)GTG>GTC	p.V265V	RING1_uc011dqx.1_Silent_p.V265V|RING1_uc003odl.2_Silent_p.V236V	NM_002931	NP_002922	Q06587	RING1_HUMAN	ring finger protein 1	265	Necessary for interaction with CBX2 (By similarity).				histone H2A monoubiquitination|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear speck|PcG protein complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						TTGAGCTCGTGTTCCGGCCCC	0.652													5	30	---	---	---	---	PASS	C	33179274	C	C	33179274	2	2	91	1	0	0	0	0	0	0	0	1	13374	1364	48	4		4	RING1	6	33179274	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	45869	33179274	137935793	258	34254										
DAXX	1616	broad.mit.edu	37	chr6	33289247	33289247	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggatgttgcagaactccgccGaggccaaaaacagagagtgg	14	9	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:33289247G>A	uc003oec.2	-	3	509	c.305C>T	c.(304-306)TCG>TTG	p.S102L	DAXX_uc011drd.1_Missense_Mutation_p.S27L|DAXX_uc011dre.1_Missense_Mutation_p.S114L|DAXX_uc003oed.2_Missense_Mutation_p.S102L|DAXX_uc010juw.2_Missense_Mutation_p.S27L	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	102	Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						GAACTCCGCCGAGGCCAAAAA	0.547			Mis|F|N		Pancreatic neuroendocrine tumors								23	156	---	---	---	---	PASS	A	33289247	A	A	33289247	3	1	91	1	0	0	0	0	1	0	0	0	4243	1059	37	2	1941	2	DAXX	6	33289247	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	109973	33289247	137825820	259	34255										
USP49	25862	broad.mit.edu	37	chr6	41774221	41774221	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgccgccgctgctccagcttCgcctggccccgggagctctt	12	18	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:41774221C>T	uc003ori.2	-	4	723	c.501G>A	c.(499-501)GCG>GCA	p.A167A		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	167					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GCTCCAGCTTCGCCTGGCCCC	0.716													4	14	---	---	---	---	PASS	T	41774221	T	T	41774221	2	4	91	1	0	0	0	0	0	0	0	1	17077	871	31	2		2	USP49	6	41774221	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	8484974	41774221	129340846	260	34256										
ZNF318	24149	broad.mit.edu	37	chr6	43305564	43305564	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggttcgaagtcagcgggatCggaggaattacaccctatag	13	8	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:43305564C>A	uc003oux.2	-	10	6250	c.6172G>T	c.(6172-6174)GAT>TAT	p.D2058Y	ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	2058					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			TCAGCGGGATCGGAGGAATTA	0.468													17	89	---	---	---	---	PASS	A	43305564	A	A	43305564	3	1	91	1	0	0	0	0	1	0	0	0	17833	884	31	2	671	2	ZNF318	6	43305564	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1531343	43305564	127809503	261	34257										
SNAP91	9892	broad.mit.edu	37	chr6	84290168	84290168	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaaaaaaactagattactcaCtgcctactaagctggcaaga	6	9	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:84290168C>T	uc011dze.1	-	23	2616	c.2299_splice	c.e23+1	p.N767_splice	SNAP91_uc011dzd.1_Splice_Site_p.N265_splice|SNAP91_uc003pkb.2_Splice_Site_p.N676_splice|SNAP91_uc003pkc.2_Splice_Site_p.N737_splice|SNAP91_uc003pkd.2_Splice_Site_p.N460_splice|SNAP91_uc003pka.2_Splice_Site_p.N765_splice	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog						clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		AGATTACTCACTGCCTACTAA	0.358													19	84	---	---	---	---	PASS	T	84290168	T	T	84290168	5	4	91	1	0	0	0	0	0	0	1	0	14833	579	20	3	447	3	SNAP91	6	84290168	Splice_Site	SNP	C	TCGA-39-5031-01A-01D-1441-08	40984604	84290168	86824899	262	34258										
TBX18	9096	broad.mit.edu	37	chr6	85446736	85446736	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagggtgatggcatgatataCtggagctggggggacattcc	17	6	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:85446736C>A	uc003pkl.1	-	8	1491	c.1491G>T	c.(1489-1491)CAG>CAT	p.Q497H	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	497					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		GCATGATATACTGGAGCTGGG	0.522													41	180	---	---	---	---	PASS	A	85446736	A	A	85446736	3	1	91	1	0	0	0	0	1	0	0	0	15650	564	20	3	336	3	TBX18	6	85446736	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1156568	85446736	85668331	263	34259										
MDN1	23195	broad.mit.edu	37	chr6	90382074	90382074	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atgtcctgattgcagtctctCaaagcctgctgcctcattca	7	13	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:90382074C>G	uc003pnn.1	-	82	13755	c.13639G>C	c.(13639-13641)GAG>CAG	p.E4547Q		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4547					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)		TGCAGTCTCTCAAAGCCTGCT	0.393													13	104	---	---	---	---	PASS	G	90382074	G	G	90382074	3	3	91	1	0	0	0	0	1	0	0	0	9415	835	29	2	3235	2	MDN1	6	90382074	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	4935338	90382074	80732993	264	34260										
MDN1	23195	broad.mit.edu	37	chr6	90513082	90513082	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggttaccaatgagtttgctCatcgacacacatagccgttc	8	11	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:90513082C>T	uc003pnn.1	-	2	410	c.294G>A	c.(292-294)ATG>ATA	p.M98I	MDN1_uc003pnp.1_Missense_Mutation_p.M98I	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	98					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)		TGAGTTTGCTCATCGACACAC	0.468													38	266	---	---	---	---	PASS	T	90513082	T	T	90513082	3	4	91	1	0	0	0	0	1	0	0	0	9415	826	29	2	16900	2	MDN1	6	90513082	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	131008	90513082	80601985	265	34261										
LIN28B	389421	broad.mit.edu	37	chr6	105526314	105526314	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acaactgtggtggccttgatCatcatgctaaggaatgtagt	11	7	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:105526314C>A	uc003pqv.1	+	4	612	c.409C>A	c.(409-411)CAT>AAT	p.H137N	LIN28B_uc010kda.1_3'UTR	NM_001004317	NP_001004317	Q6ZN17	LN28B_HUMAN	lin-28 homolog B	137	CCHC-type 1.	Zinc 1 (By similarity).			miRNA catabolic process|pre-miRNA processing|regulation of transcription, DNA-dependent|RNA 3'-end processing	cytoplasm|nucleus	DNA binding|protein binding|RNA binding|zinc ion binding				0		all_cancers(87;0.00346)|Acute lymphoblastic leukemia(125;2.26e-08)|all_hematologic(75;2.79e-06)|all_epithelial(87;0.204)				TGGCCTTGATCATCATGCTAA	0.403													33	112	---	---	---	---	PASS	A	105526314	A	A	105526314	3	1	91	1	0	0	0	0	1	0	0	0	8806	826	29	2	423	2	LIN28B	6	105526314	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	15013232	105526314	65588753	266	34262										
FOXO3	2309	broad.mit.edu	37	chr6	108985121	108985121	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	accttcagtaagcaagccgtGcacggtggaactgccacggc	12	13	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:108985121G>T	uc003psk.2	+	3	1401	c.1085G>T	c.(1084-1086)TGC>TTC	p.C362F	FOXO3_uc003psn.2_Intron|FOXO3_uc003psm.2_Missense_Mutation_p.C362F|FOXO3_uc011ean.1_Missense_Mutation_p.C142F|FOXO3_uc010kdj.1_Missense_Mutation_p.C142F	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A	362					antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|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 factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)		AGCAAGCCGTGCACGGTGGAA	0.552													5	34	---	---	---	---	PASS	T	108985121	T	T	108985121	3	4	91	1	0	0	0	0	1	0	0	0	6024	1319	46	3	1091	3	FOXO3	6	108985121	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3458807	108985121	62129946	267	34263										
REV3L	5980	broad.mit.edu	37	chr6	111709286	111709286	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgttgctggcacaaacctgtGatctttgaattttaaaagtg	9	6	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:111709286G>C	uc003puy.3	-	8	1188	c.865C>G	c.(865-867)CAC>GAC	p.H289D	REV3L_uc003pux.3_Missense_Mutation_p.H211D|REV3L_uc003puz.3_Missense_Mutation_p.H211D	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	289					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		ACAAACCTGTGATCTTTGAAT	0.299								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					20	93	---	---	---	---	PASS	C	111709286	C	C	111709286	3	2	91	1	0	0	0	0	1	0	0	0	13240	1290	45	2	8627	2	REV3L	6	111709286	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2724165	111709286	59405781	268	34264										
REV3L	5980	broad.mit.edu	37	chr6	111732738	111732738	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cataaagtgtctttccttctCatgataaccataaaaaggcc	5	10	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:111732738C>G	uc003puy.3	-	3	672	c.349G>C	c.(349-351)GAG>CAG	p.E117Q	REV3L_uc003pux.3_Missense_Mutation_p.E39Q|REV3L_uc003puz.3_Missense_Mutation_p.E39Q	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	117					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		CTTTCCTTCTCATGATAACCA	0.269								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					7	31	---	---	---	---	PASS	G	111732738	G	G	111732738	3	3	91	1	0	0	0	0	1	0	0	0	13240	835	29	2	9163	2	REV3L	6	111732738	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	23452	111732738	59382329	269	34265										
VGLL2	245806	broad.mit.edu	37	chr6	117589561	117589561	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggacatcagctccgtggtgGatgaacatttcagcagggcc	14	10	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:117589561G>T	uc003pxn.2	+	2	488	c.298G>T	c.(298-300)GAT>TAT	p.D100Y	VGLL2_uc003pxo.2_Missense_Mutation_p.D100Y	NM_182645	NP_872586	Q8N8G2	VGLL2_HUMAN	vestigial-like 2 isoform 1	100					transcription, DNA-dependent	nucleus				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(226;0.0254)|all cancers(137;0.0676)|OV - Ovarian serous cystadenocarcinoma(136;0.0757)		CTCCGTGGTGGATGAACATTT	0.582													24	80	---	---	---	---	PASS	T	117589561	T	T	117589561	3	4	91	1	0	0	0	0	1	0	0	0	17156	1174	41	2	304	2	VGLL2	6	117589561	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	5856823	117589561	53525506	270	34266										
HEBP2	23593	broad.mit.edu	37	chr6	138727245	138727245	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cacccaggcctttagagtcaGatgtcttcattgaagataga	9	9	3	5			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:138727245G>C	uc003qhw.1	+	3	673	c.376G>C	c.(376-378)GAT>CAT	p.D126H		NM_014320	NP_055135	Q9Y5Z4	HEBP2_HUMAN	heme binding protein 2	126						mitochondrion					0	Breast(32;0.0933)			GBM - Glioblastoma multiforme(68;0.000732)|OV - Ovarian serous cystadenocarcinoma(155;0.00171)		TTTAGAGTCAGATGTCTTCAT	0.438													57	240	---	---	---	---	PASS	C	138727245	C	C	138727245	3	2	91	1	0	0	0	0	1	0	0	0	7037	942	33	2	386	2	HEBP2	6	138727245	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	21137684	138727245	32387822	271	34267										
T	6862	broad.mit.edu	37	chr6	166580150	166580150	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgggagccttcatccagtggGccccgaagttgggcgagtcg	16	12	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:166580150G>C	uc003quu.1	-	3	894	c.401C>G	c.(400-402)GCC>GGC	p.A134G	T_uc003qut.1_Missense_Mutation_p.A134G|T_uc003quv.1_Missense_Mutation_p.A134G	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	134	T-box.				anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		CATCCAGTGGGCCCCGAAGTT	0.657									Chordoma_Familial_Clustering_of				15	78	---	---	---	---	PASS	C	166580150	C	C	166580150	3	2	91	1	0	0	0	0	1	0	0	0	15485	1203	42	4	934	4	T	6	166580150	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	27852905	166580150	4534917	272	34268										
TCP10	6953	broad.mit.edu	37	chr6	167786830	167786830	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgctatttccagggaagatgGtgggtttacaggaagattct	13	5	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:167786830G>T	uc003qvv.1	-	8	1020	c.808C>A	c.(808-810)CCA>ACA	p.P270T	TCP10_uc003qvu.2_Intron	NM_004610	NP_004601	Q12799	TCP10_HUMAN	t-complex 10	297						cytosol				breast(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;4.05e-20)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)|GBM - Glioblastoma multiforme(31;0.0386)		AGGGAAGATGGTGGGTTTACA	0.488													22	149	---	---	---	---	PASS	T	167786830	T	T	167786830	3	4	91	1	0	0	0	0	1	0	0	0	15707	1261	44	3	176	3	TCP10	6	167786830	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1206680	167786830	3328237	273	34269										
THBS2	7058	broad.mit.edu	37	chr6	169622523	169622523	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcccggtcagtgtttacgtaGaatgtgccactgaagtccac	10	11	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:169622523G>C	uc003qwt.2	-	20	3290	c.3042C>G	c.(3040-3042)TTC>TTG	p.F1014L		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	1014	TSP C-terminal.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		TGTTTACGTAGAATGTGCCAC	0.468													11	172	---	---	---	---	PASS	C	169622523	C	C	169622523	3	2	91	1	0	0	0	0	1	0	0	0	15851	933	33	2	492	2	THBS2	6	169622523	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1835693	169622523	1492544	274	34270										
THBS2	7058	broad.mit.edu	37	chr6	169628356	169628356	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tagtcagcctggcggggattGaagaggagctggcagttgtc	17	7	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:169628356G>C	uc003qwt.2	-	16	2528	c.2280C>G	c.(2278-2280)TTC>TTG	p.F760L		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	760	TSP type-3 2.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		GGCGGGGATTGAAGAGGAGCT	0.498													5	47	---	---	---	---	PASS	C	169628356	C	C	169628356	3	2	91	1	0	0	0	0	1	0	0	0	15851	1281	45	2	1270	2	THBS2	6	169628356	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	5833	169628356	1486711	275	34271										
C6orf120	387263	broad.mit.edu	37	chr6	170103065	170103065	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccggaagacgcctcgcaagaGgaggaatctgttctctggac	13	11	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr6:170103065G>T	uc003qxb.2	+	1	809	c.510G>T	c.(508-510)GAG>GAT	p.E170D	WDR27_uc010kkw.1_5'Flank|WDR27_uc003qwx.2_5'Flank|WDR27_uc003qwy.2_5'Flank|WDR27_uc011egw.1_5'Flank|WDR27_uc010kkx.2_5'Flank|C6orf120_uc011egx.1_Missense_Mutation_p.E189D	NM_001029863	NP_001025034	Q7Z4R8	CF120_HUMAN	hypothetical protein LOC387263 precursor	170						extracellular region					0		Breast(66;0.000338)		OV - Ovarian serous cystadenocarcinoma(33;9.65e-22)|BRCA - Breast invasive adenocarcinoma(81;1.29e-07)|GBM - Glioblastoma multiforme(31;0.0015)		CCTCGCAAGAGGAGGAATCTG	0.562													4	25	---	---	---	---	PASS	T	170103065	T	T	170103065	3	4	91	1	0	0	0	0	1	0	0	0	2324	991	35	3	512	3	C6orf120	6	170103065	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	474709	170103065	1012002	276	34272										
MAD1L1	8379	broad.mit.edu	37	chr7	1997351	1997351	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccttccagctcctcgaccttCaacctgcaaggacagcaaga	7	16	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:1997351C>A	uc003slh.1	-	16	1775	c.1509G>T	c.(1507-1509)TTG>TTT	p.L503F	MAD1L1_uc003sle.1_Missense_Mutation_p.L232F|MAD1L1_uc003slf.1_Missense_Mutation_p.L503F|MAD1L1_uc003slg.1_Missense_Mutation_p.L503F|MAD1L1_uc010ksh.1_Missense_Mutation_p.L503F|MAD1L1_uc003sli.1_Missense_Mutation_p.L411F|MAD1L1_uc010ksi.1_Missense_Mutation_p.L456F|MAD1L1_uc010ksj.2_Missense_Mutation_p.L503F	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	503	Necessary for interaction with NEK2.|Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		CCTCGACCTTCAACCTGCAAG	0.632													11	72	---	---	---	---	PASS	A	1997351	A	A	1997351	3	1	91	1	0	0	0	0	1	0	0	0	9147	825	29	2	663	2	MAD1L1	7	1997351	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08		1997351	157141312	277	34273										
TNRC18	84629	broad.mit.edu	37	chr7	5355647	5355647	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagggggatcctgcccgtgtCtccgtcgtcaaactccacgg	13	14	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:5355647C>A	uc003soi.3	-	25	7151	c.6802G>T	c.(6802-6804)GAC>TAC	p.D2268Y		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2268							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CTGCCCGTGTCTCCGTCGTCA	0.607													6	68	---	---	---	---	PASS	A	5355647	A	A	5355647	3	1	91	1	0	0	0	0	1	0	0	0	16336	913	32	2	2128	2	TNRC18	7	5355647	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3358296	5355647	153783016	278	34274										
PMS2	5395	broad.mit.edu	37	chr7	6045587	6045587	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tttaccgcagtgcttagactCagtaccacctgcccagagca	8	14	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:6045587C>T	uc003spl.2	-	2	186	c.99G>A	c.(97-99)CTG>CTA	p.L33L	PMS2_uc003spj.2_5'Flank|PMS2_uc003spk.2_5'UTR|PMS2_uc011jwl.1_Intron|PMS2_uc010ktg.2_5'UTR|PMS2_uc010kte.2_Silent_p.L33L|PMS2_uc010ktf.1_Silent_p.L33L	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	33					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		TGCTTAGACTCAGTACCACCT	0.428			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				44	393	---	---	---	---	PASS	T	6045587	T	T	6045587	2	4	91	1	0	0	0	0	0	0	0	1	12143	813	29	2		2	PMS2	7	6045587	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	689940	6045587	153093076	279	34275										
DGKB	1607	broad.mit.edu	37	chr7	14758225	14758225	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gacaggtaacagacaatgtcCttcagatggattacttctgg	10	8	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:14758225C>T	uc003ssz.2	-	5	595	c.408G>A	c.(406-408)AAG>AAA	p.K136K	DGKB_uc011jxt.1_Silent_p.K129K|DGKB_uc003sta.2_Silent_p.K136K|DGKB_uc011jxu.1_Silent_p.K136K|DGKB_uc011jxv.1_Silent_p.K136K	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	136					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	AGACAATGTCCTTCAGATGGA	0.438													15	53	---	---	---	---	PASS	T	14758225	T	T	14758225	2	4	91	1	0	0	0	0	0	0	0	1	4466	680	24	3		3	DGKB	7	14758225	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	8712638	14758225	144380438	280	34276										
DNAH11	8701	broad.mit.edu	37	chr7	21750313	21750313	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cactgaatactgtaatggatGataacaaggtgaataaaacc	8	6	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:21750313G>C	uc003svc.2	+	42	6878	c.6847G>C	c.(6847-6849)GAT>CAT	p.D2283H		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2283	AAA 2 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TGTAATGGATGATAACAAGGT	0.368									Kartagener_syndrome				4	37	---	---	---	---	PASS	C	21750313	C	C	21750313	3	2	91	1	0	0	0	0	1	0	0	0	4599	1290	45	2	7010	2	DNAH11	7	21750313	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	6992088	21750313	137388350	281	34277										
PKD1L1	168507	broad.mit.edu	37	chr7	47886498	47886498	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgcagttcactttttcaggaGaagtccctggttgtggagag	13	7	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:47886498G>A	uc003tny.1	-	32	5132	c.5132C>T	c.(5131-5133)TCT>TTT	p.S1711F		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	1711	Extracellular (Potential).|GPS.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						TTTTTCAGGAGAAGTCCCTGG	0.433													9	136	---	---	---	---	PASS	A	47886498	A	A	47886498	3	1	91	1	0	0	0	0	1	0	0	0	11964	942	33	2	3521	2	PKD1L1	7	47886498	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	26136185	47886498	111252165	282	34278										
UPP1	7378	broad.mit.edu	37	chr7	48139316	48139316	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acatagcaaaaatgaaagaaGatattctctatcatttcaat	4	6	3	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:48139316G>A	uc003toj.2	+	5	623	c.94G>A	c.(94-96)GAT>AAT	p.D32N	UPP1_uc003tok.2_Missense_Mutation_p.D32N|UPP1_uc003tol.2_Missense_Mutation_p.D32N|UPP1_uc011kcg.1_Missense_Mutation_p.D32N|UPP1_uc011kch.1_Intron|UPP1_uc003ton.2_Intron|UPP1_uc003too.2_Intron	NM_181597	NP_853628	Q16831	UPP1_HUMAN	uridine phosphorylase 1	32					nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage	cytosol	uridine phosphorylase activity				0						AATGAAAGAAGATATTCTCTA	0.403													18	188	---	---	---	---	PASS	A	48139316	A	A	48139316	3	1	91	1	0	0	0	0	1	0	0	0	17009	942	33	2	100	2	UPP1	7	48139316	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	252818	48139316	110999347	283	34279										
MAGI2	9863	broad.mit.edu	37	chr7	77762213	77762213	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaggaaattttacctattttCgtgtccttgcagctgaagtg	10	7	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:77762213C>T	uc003ugx.2	-	18	3450	c.3196G>A	c.(3196-3198)GAA>AAA	p.E1066K	MAGI2_uc003ugy.2_Missense_Mutation_p.E1052K|MAGI2_uc010ldx.1_Missense_Mutation_p.E659K	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	1066	Pro-rich.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TACCTATTTTCGTGTCCTTGC	0.567													63	468	---	---	---	---	PASS	T	77762213	T	T	77762213	3	4	91	1	0	0	0	0	1	0	0	0	9191	893	31	2	1191	2	MAGI2	7	77762213	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	29622897	77762213	81376450	284	34280										
PCLO	27445	broad.mit.edu	37	chr7	82581599	82581599	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acttccccatcagtgattccCtgggatacggtgctatcagt	9	12	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:82581599C>A	uc003uhx.2	-	5	8959	c.8670G>T	c.(8668-8670)CAG>CAT	p.Q2890H	PCLO_uc003uhv.2_Missense_Mutation_p.Q2890H|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2821					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CAGTGATTCCCTGGGATACGG	0.453													68	182	---	---	---	---	PASS	A	82581599	A	A	82581599	3	1	91	1	0	0	0	0	1	0	0	0	11583	680	24	3	6859	3	PCLO	7	82581599	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	4819386	82581599	76557064	285	34281										
ADAM22	53616	broad.mit.edu	37	chr7	87760697	87760697	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atcaccctacgtgagtttatGaaatacaggagggattttat	9	6	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:87760697G>C	uc003ujn.2	+	11	1018	c.939G>C	c.(937-939)ATG>ATC	p.M313I	ADAM22_uc003ujj.1_Missense_Mutation_p.M313I|ADAM22_uc003ujk.1_Missense_Mutation_p.M313I|ADAM22_uc003ujl.1_Missense_Mutation_p.M313I|ADAM22_uc003ujm.2_Missense_Mutation_p.M313I|ADAM22_uc003ujo.2_Missense_Mutation_p.M313I|ADAM22_uc003ujp.1_Missense_Mutation_p.M365I	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	313	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			GTGAGTTTATGAAATACAGGA	0.363													12	131	---	---	---	---	PASS	C	87760697	C	C	87760697	3	2	91	1	0	0	0	0	1	0	0	0	244	1290	45	2	981	2	ADAM22	7	87760697	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	5179098	87760697	71377966	286	34282										
KRIT1	889	broad.mit.edu	37	chr7	91830051	91830051	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtaacagttacttctctttCatgaatttctttcagtgggc	7	8	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:91830051C>T	uc003ulq.1	-	17	2381	c.2210G>A	c.(2209-2211)TGA>TAA	p.*737*	KRIT1_uc010lev.1_Silent_p.*494*|KRIT1_uc003ulr.1_Silent_p.*737*|KRIT1_uc003uls.1_Silent_p.*737*|KRIT1_uc003ult.1_Silent_p.*689*|KRIT1_uc003ulu.1_Silent_p.*737*|KRIT1_uc003ulv.1_Silent_p.*737*	NM_194456	NP_919438	O00522	KRIT1_HUMAN	krev interaction trapped 1 isoform 1	737					angiogenesis|cell redox homeostasis|negative regulation of angiogenesis|negative regulation of endothelial cell apoptosis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|regulation of establishment of cell polarity|small GTPase mediated signal transduction	cell-cell junction|cytoskeleton	protein binding|small GTPase regulator activity			ovary(2)|lung(1)	3	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			ACTTCTCTTTCATGAATTTCT	0.289									Familial_Cerebral_Cavernous_Angioma				6	50	---	---	---	---	PASS	T	91830051	T	T	91830051	2	4	91	1	0	0	0	0	0	0	0	1	8445	837	29	2		2	KRIT1	7	91830051	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	4069354	91830051	67308612	287	34283										
PEX1	5189	broad.mit.edu	37	chr7	92146731	92146731	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctgacctaatttttttttgAtctagtggctctgacatctg	7	8	4	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:92146731A>C	uc003uly.2	-	5	1194	c.1098T>G	c.(1096-1098)GAT>GAG	p.D366E	PEX1_uc011khr.1_Missense_Mutation_p.D158E|PEX1_uc010ley.2_Missense_Mutation_p.D366E|PEX1_uc011khs.1_Intron|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	366					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			TTTTTTTTTGATCTAGTGGCT	0.363													27	230	---	---	---	---	PASS	C	92146731	C	C	92146731	3	2	91	1	0	0	0	0	1	0	0	0	11735	330	12	5	2833	5	PEX1	7	92146731	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	316680	92146731	66991932	288	34284										
ARPC1A	10552	broad.mit.edu	37	chr7	98951667	98951667	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgggtccacggggtaagcttCtctgccagtgggagccgcct	15	12	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:98951667C>A	uc003upx.1	+	6	783	c.636C>A	c.(634-636)TTC>TTA	p.F212L	ARPC1A_uc010lfu.1_RNA|ARPC1A_uc003upy.1_Missense_Mutation_p.F198L|ARPC1A_uc011kit.1_RNA	NM_006409	NP_006400	Q92747	ARC1A_HUMAN	actin related protein 2/3 complex subunit 1A	212	WD 4.				actin cytoskeleton organization|regulation of actin filament polymerization	actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	all_cancers(62;4.46e-09)|all_epithelial(64;3.44e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0258)		STAD - Stomach adenocarcinoma(171;0.215)			GGGTAAGCTTCTCTGCCAGTG	0.592													9	86	---	---	---	---	PASS	A	98951667	A	A	98951667	3	1	91	1	0	0	0	0	1	0	0	0	969	912	32	2	654	2	ARPC1A	7	98951667	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	6804936	98951667	60186996	289	34285										
CPSF4	10898	broad.mit.edu	37	chr7	99042437	99042437	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggcgctgctgtctgtgaattCtttttgaaagctgcctgcgg	13	9	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:99042437C>G	uc003uqj.2	+	2	272	c.129C>G	c.(127-129)TTC>TTG	p.F43L	PTCD1_uc011kiw.1_Intron|CPSF4_uc003uqi.2_Missense_Mutation_p.F43L|CPSF4_uc003uqk.2_Missense_Mutation_p.F43L|CPSF4_uc011kix.1_5'UTR	NM_006693	NP_006684	O95639	CPSF4_HUMAN	cleavage and polyadenylation specific factor 4,	43	C3H1-type 1.				modification by virus of host mRNA processing|mRNA processing|viral infectious cycle	mRNA cleavage and polyadenylation specificity factor complex	RNA binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					TCTGTGAATTCTTTTTGAAAG	0.542													53	328	---	---	---	---	PASS	G	99042437	G	G	99042437	3	3	91	1	0	0	0	0	1	0	0	0	3828	912	32	2	135	2	CPSF4	7	99042437	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	90770	99042437	60096226	290	34286										
LRCH4	4034	broad.mit.edu	37	chr7	100174907	100174907	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggtcccacctatccttcctCggggccccccacgccccgct	9	22	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:100174907C>T	uc003uvj.2	-	11	1337	c.1284G>A	c.(1282-1284)CCG>CCA	p.P428P	LRCH4_uc010lgz.2_RNA|LRCH4_uc003uvi.2_RNA|LRCH4_uc011kjw.1_5'UTR|LRCH4_uc011kjx.1_RNA	NM_002319	NP_002310	O75427	LRCH4_HUMAN	leucine-rich repeats and calponin homology (CH)	428					nervous system development	PML body	protein binding			large_intestine(1)|ovary(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TATCCTTCCTCGGGGCCCCCC	0.736													7	14	---	---	---	---	PASS	T	100174907	T	T	100174907	2	4	91	1	0	0	0	0	0	0	0	1	8935	871	31	2		2	LRCH4	7	100174907	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1132470	100174907	58963756	291	34287										
ZAN	7455	broad.mit.edu	37	chr7	100366312	100366312	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gattccatgcagctgggggcCgcctggaagttacctgaatc	13	11	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:100366312C>A	uc003uwj.2	+	27	5286	c.5121C>A	c.(5119-5121)GCC>GCA	p.A1707A	ZAN_uc003uwk.2_Silent_p.A1707A|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kkd.1_Silent_p.A284A	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1707	Extracellular (Potential).|VWFD 2.				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AGCTGGGGGCCGCCTGGAAGT	0.612													5	22	---	---	---	---	PASS	A	100366312	A	A	100366312	2	1	91	1	0	0	0	0	0	0	0	1	17510	639	23	1		1	ZAN	7	100366312	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	191405	100366312	58772351	292	34288										
SLC26A5	375611	broad.mit.edu	37	chr7	103051974	103051974	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcctcctggaatgactatatCatctggtactaatcgaacag	7	10	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:103051974C>T	uc003vbz.2	-	6	699	c.463G>A	c.(463-465)GAT>AAT	p.D155N	SLC26A5_uc003vbt.1_Missense_Mutation_p.D155N|SLC26A5_uc003vbu.1_Missense_Mutation_p.D155N|SLC26A5_uc003vbv.1_Missense_Mutation_p.D155N|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Missense_Mutation_p.D155N|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_RNA	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	155	Extracellular (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						ATGACTATATCATCTGGTACT	0.443													37	96	---	---	---	---	PASS	T	103051974	T	T	103051974	3	4	91	1	0	0	0	0	1	0	0	0	14520	826	29	2	1872	2	SLC26A5	7	103051974	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2685662	103051974	56086689	293	34289										
RELN	5649	broad.mit.edu	37	chr7	103143678	103143678	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	accttacatccaactgagatCtaataaacagaaaaacaaga	4	9	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:103143678C>G	uc003vca.2	-	52	8435	c.8275_splice	c.e52-1	p.I2759_splice	RELN_uc010liz.2_Splice_Site_p.I2759_splice	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a						axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CAACTGAGATCTAATAAACAG	0.368													8	100	---	---	---	---	PASS	G	103143678	G	G	103143678	5	3	91	1	0	0	0	0	0	0	1	0	13220	927	32	2	2164	2	RELN	7	103143678	Splice_Site	SNP	C	TCGA-39-5031-01A-01D-1441-08	91704	103143678	55994985	294	34290										
RELN	5649	broad.mit.edu	37	chr7	103202380	103202380	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgtagttggcctgaatccatCtgaaccgggtcctgggagaa	13	9	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:103202380C>G	uc003vca.2	-	35	5391	c.5231G>C	c.(5230-5232)AGA>ACA	p.R1744T	RELN_uc010liz.2_Missense_Mutation_p.R1744T	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1744					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CTGAATCCATCTGAACCGGGT	0.453													5	46	---	---	---	---	PASS	G	103202380	G	G	103202380	3	3	91	1	0	0	0	0	1	0	0	0	13220	913	32	2	5275	2	RELN	7	103202380	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	58702	103202380	55936283	295	34291										
RELN	5649	broad.mit.edu	37	chr7	103214687	103214687	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagagggctgagcttcccctCaaacctatcgaacatctcat	7	14	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:103214687C>G	uc003vca.2	-	30	4523	c.4363G>C	c.(4363-4365)GAG>CAG	p.E1455Q	RELN_uc010liz.2_Missense_Mutation_p.E1455Q	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1455					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		AGCTTCCCCTCAAACCTATCG	0.468													25	135	---	---	---	---	PASS	G	103214687	G	G	103214687	3	3	91	1	0	0	0	0	1	0	0	0	13220	835	29	2	6163	2	RELN	7	103214687	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	12307	103214687	55923976	296	34292										
RELN	5649	broad.mit.edu	37	chr7	103234130	103234130	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaagcttgtgcataaataccTtgaactgtagcacatatcca	7	9	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:103234130T>G	uc003vca.2	-	27	4071	c.3911A>C	c.(3910-3912)AAG>ACG	p.K1304T	RELN_uc010liz.2_Missense_Mutation_p.K1304T	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1304					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CATAAATACCTTGAACTGTAG	0.383													43	114	---	---	---	---	PASS	G	103234130	G	G	103234130	3	3	91	1	0	0	0	0	1	0	0	0	13220	1623	56	5	6627	5	RELN	7	103234130	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	19443	103234130	55904533	297	34293										
MLL5	55904	broad.mit.edu	37	chr7	104752848	104752848	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cggcaccaccccctccacctCctccacctccttcttcgtct	3	24	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:104752848C>T	uc003vcm.2	+	27	5179	c.4645C>T	c.(4645-4647)CCT>TCT	p.P1549S	MLL5_uc010ljc.2_Missense_Mutation_p.P1549S|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Missense_Mutation_p.P283S	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1549	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						CCCTCCACCTCCTCCACCTCC	0.443													8	126	---	---	---	---	PASS	T	104752848	T	T	104752848	3	4	91	1	0	0	0	0	1	0	0	0	9624	855	30	2	4743	2	MLL5	7	104752848	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1518718	104752848	54385815	298	34294										
MET	4233	broad.mit.edu	37	chr7	116381073	116381073	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagatctgtctgcctgcaatCtacaaggtaggaatctctaa	8	10	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:116381073C>G	uc003vij.2	+	5	1882	c.1695C>G	c.(1693-1695)ATC>ATG	p.I565M	MET_uc010lkh.2_Missense_Mutation_p.I565M|MET_uc011knc.1_Missense_Mutation_p.I565M|MET_uc011knd.1_Missense_Mutation_p.I565M|MET_uc011kne.1_Missense_Mutation_p.I537M|MET_uc011knf.1_Missense_Mutation_p.I565M|MET_uc011kng.1_Missense_Mutation_p.I565M|MET_uc011knh.1_Missense_Mutation_p.I565M|MET_uc011kni.1_Missense_Mutation_p.I565M|MET_uc011knj.1_Missense_Mutation_p.I135M|MET_uc011knb.1_Missense_Mutation_p.I565M	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	565	Extracellular (Potential).|IPT/TIG 1.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			TGCCTGCAATCTACAAGGTAG	0.368			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				16	170	---	---	---	---	PASS	G	116381073	G	G	116381073	3	3	91	1	0	0	0	0	1	0	0	0	9485	903	32	2	1709	2	MET	7	116381073	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	11628225	116381073	42757590	299	34295										
POT1	25913	broad.mit.edu	37	chr7	124499073	124499073	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aatgtctattgtcagattttGtagccgatggatgtgactta	10	5	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:124499073G>A	uc003vlm.2	-	9	1241	c.640C>T	c.(640-642)CAA>TAA	p.Q214*	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_Nonsense_Mutation_p.Q83*|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	214					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						GTCAGATTTTGTAGCCGATGG	0.378													23	73	---	---	---	---	PASS	A	124499073	A	A	124499073	4	1	91	1	0	0	0	0	0	1	0	0	12260	1386	48	3	1308	3	POT1	7	124499073	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	8118000	124499073	34639590	300	34296										
FLNC	2318	broad.mit.edu	37	chr7	128489458	128489458	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gatgccaaggcagccggtgaGgggaaggtgacatgcacggt	18	8	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:128489458G>T	uc003vnz.3	+	30	5234	c.5025G>T	c.(5023-5025)GAG>GAT	p.E1675D	FLNC_uc003voa.3_Missense_Mutation_p.E1675D	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1675	Filamin 15.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CAGCCGGTGAGGGGAAGGTGA	0.612													31	66	---	---	---	---	PASS	T	128489458	T	T	128489458	3	4	91	1	0	0	0	0	1	0	0	0	5935	991	35	3	5143	3	FLNC	7	128489458	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3990385	128489458	30649205	301	34297										
TNPO3	23534	broad.mit.edu	37	chr7	128622324	128622324	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaatatcactgcaaggcgatCtaagaacactgtgggatctg	10	8	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:128622324C>G	uc003vol.1	-	14	2211	c.1837G>C	c.(1837-1839)GAT>CAT	p.D613H	TNPO3_uc010llx.1_Missense_Mutation_p.D24H|TNPO3_uc003vom.1_Missense_Mutation_p.D547H|TNPO3_uc010lly.1_Missense_Mutation_p.D647H|TNPO3_uc010llz.1_Missense_Mutation_p.D549H	NM_012470	NP_036602	Q9Y5L0	TNPO3_HUMAN	transportin 3	613					splicing factor protein import into nucleus	cytoplasm|nucleus	protein binding|receptor activity			ovary(2)|skin(2)|lung(1)	5						GCAAGGCGATCTAAGAACACT	0.408													8	69	---	---	---	---	PASS	G	128622324	G	G	128622324	3	3	91	1	0	0	0	0	1	0	0	0	16334	913	32	2	970	2	TNPO3	7	128622324	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	132866	128622324	30516339	302	34298										
PLXNA4	91584	broad.mit.edu	37	chr7	131864622	131864622	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgatggcgggcaggctgagcGggctgtccggggcaatgtac	19	10	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:131864622G>T	uc003vra.3	-	20	3927	c.3698C>A	c.(3697-3699)CCG>CAG	p.P1233Q		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1233	Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CAGGCTGAGCGGGCTGTCCGG	0.647													4	25	---	---	---	---	PASS	T	131864622	T	T	131864622	3	4	91	1	0	0	0	0	1	0	0	0	12122	1116	39	1	2038	1	PLXNA4	7	131864622	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3242298	131864622	27274041	303	34299										
LRGUK	136332	broad.mit.edu	37	chr7	133821796	133821796	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaggaatttgatggggtcctGagagaggaggctgtggccaa	18	5	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:133821796G>C	uc003vrm.1	+	2	334	c.318G>C	c.(316-318)CTG>CTC	p.L106L		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	106							ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						ATGGGGTCCTGAGAGAGGAGG	0.438													7	30	---	---	---	---	PASS	C	133821796	C	C	133821796	2	2	91	1	0	0	0	0	0	0	0	1	8943	1277	45	2		2	LRGUK	7	133821796	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1957174	133821796	25316867	304	34300										
SVOPL	136306	broad.mit.edu	37	chr7	138329559	138329559	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagcccgagtgttcccagtgGagacattgaaccgggcagat	13	11	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:138329559G>A	uc011kqh.1	-	8	692	c.692C>T	c.(691-693)TCC>TTC	p.S231F	SVOPL_uc003vue.2_Missense_Mutation_p.S79F	NM_001139456	NP_001132928	Q8N434	SVOPL_HUMAN	SVOP-like isoform 1	231						integral to membrane	transmembrane transporter activity				0						GTTCCCAGTGGAGACATTGAA	0.562													10	149	---	---	---	---	PASS	A	138329559	A	A	138329559	3	1	91	1	0	0	0	0	1	0	0	0	15421	1174	41	2	818	2	SVOPL	7	138329559	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4507763	138329559	20809104	305	34301										
BRAF	673	broad.mit.edu	37	chr7	140481417	140481417	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctgttccaaatgatccagatCcaattctttgtcccactgta	5	12	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:140481417C>A	uc003vwc.3	-	11	1452	c.1391G>T	c.(1390-1392)GGA>GTA	p.G464V		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	464	ATP (By similarity).|Protein kinase.		G -> E (in colorectal cancer).|G -> V (in a colorectal cancer cell line; elevated kinase activity; efficiently induces cell transformation).		activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.G464E(7)|p.G464V(7)|p.G464R(1)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TGATCCAGATCCAATTCTTTG	0.388		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				13	193	---	---	---	---	PASS	A	140481417	A	A	140481417	3	1	91	1	0	0	0	0	1	0	0	0	1496	855	30	2	941	2	BRAF	7	140481417	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2151858	140481417	18657246	306	34302										
OR9A4	130075	broad.mit.edu	37	chr7	141619217	141619217	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaacaattttttttgtgaccGagggcaattgctcaaactat	8	7	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:141619217G>A	uc003vwu.1	+	1	542	c.542G>A	c.(541-543)CGA>CAA	p.R181Q		NM_001001656	NP_001001656	Q8NGU2	OR9A4_HUMAN	olfactory receptor, family 9, subfamily A,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.0171)					TTTTGTGACCGAGGGCAATTG	0.383													29	274	---	---	---	---	PASS	A	141619217	A	A	141619217	3	1	91	1	0	0	0	0	1	0	0	0	11249	1058	37	2	544	2	OR9A4	7	141619217	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1137800	141619217	17519446	307	34303										
PRSS1	5644	broad.mit.edu	37	chr7	142459707	142459707	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcaatgcagccaagatcatcCgccacccccaatacgacagg	7	16	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:142459707C>T	uc003wak.2	+	3	300	c.283C>T	c.(283-285)CGC>TGC	p.R95C	uc011krr.1_Intron|uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|TRY6_uc011ksn.1_Intron|PRSS1_uc011ksm.1_3'UTR|PRSS1_uc003wam.2_Missense_Mutation_p.R35C	NM_002769	NP_002760	P07477	TRY1_HUMAN	protease, serine, 1 preproprotein	95	Peptidase S1.				digestion|proteolysis	extracellular space	metal ion binding|protein binding|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)			CAAGATCATCCGCCACCCCCA	0.542									Hereditary_Pancreatitis				6	268	---	---	---	---	PASS	T	142459707	T	T	142459707	3	4	91	1	0	0	0	0	1	0	0	0	12614	652	23	1	293	1	PRSS1	7	142459707	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	840490	142459707	16678956	308	34304										
PRSS1	5644	broad.mit.edu	37	chr7	142460325	142460325	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgcctggatgctcctgtgctGagccaggctaagtgtgaagc	14	10	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:142460325G>A	uc003wak.2	+	4	515	c.498G>A	c.(496-498)CTG>CTA	p.L166L	uc011krr.1_Intron|uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|TRY6_uc011ksn.1_Intron|PRSS1_uc003wam.2_Silent_p.L106L	NM_002769	NP_002760	P07477	TRY1_HUMAN	protease, serine, 1 preproprotein	166	Peptidase S1.				digestion|proteolysis	extracellular space	metal ion binding|protein binding|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)			CTCCTGTGCTGAGCCAGGCTA	0.527									Hereditary_Pancreatitis				26	697	---	---	---	---	PASS	A	142460325	A	A	142460325	2	1	91	1	0	0	0	0	0	0	0	1	12614	1277	45	2		2	PRSS1	7	142460325	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	618	142460325	16678338	309	34305										
EZH2	2146	broad.mit.edu	37	chr7	148516729	148516729	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tccacaaggtttgttgtctaGagctgtttctgtgttcttcc	9	9	3	1	rs6954744		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:148516729G>A	uc003wfd.1	-	9	1109	c.943C>T	c.(943-945)CTA>TTA	p.L315L	EZH2_uc011kug.1_Silent_p.L306L|EZH2_uc003wfb.1_Silent_p.L320L|EZH2_uc003wfc.1_Silent_p.L276L|EZH2_uc011kuh.1_Silent_p.L306L|EZH2_uc011kui.1_Silent_p.L315L|EZH2_uc011kuj.1_RNA	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	315	Interaction with DNMT1, DNMT3A and DNMT3B.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			TTGTTGTCTAGAGCTGTTTCT	0.378			Mis		DLBCL								20	106	---	---	---	---	PASS	A	148516729	A	A	148516729	2	1	91	1	0	0	0	0	0	0	0	1	5334	933	33	2		2	EZH2	7	148516729	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	6056404	148516729	10621934	310	34306										
TMEM176B	28959	broad.mit.edu	37	chr7	150490335	150490335	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtttgccagatgaagctattCacgcagaggacaacagcagc	11	10	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:150490335C>A	uc003wht.3	-	5	607	c.441G>T	c.(439-441)GTG>GTT	p.V147V	TMEM176B_uc003whu.3_Silent_p.V147V|TMEM176B_uc003whv.3_Silent_p.V110V|TMEM176B_uc003whw.3_Silent_p.V147V	NM_001101313	NP_001094783	Q3YBM2	T176B_HUMAN	transmembrane protein 176B isoform a	147	Helical; (Potential).				cell differentiation|organ morphogenesis	integral to membrane|nuclear membrane				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGAAGCTATTCACGCAGAGGA	0.522													4	47	---	---	---	---	PASS	A	150490335	A	A	150490335	2	1	91	1	0	0	0	0	0	0	0	1	16090	813	29	2		2	TMEM176B	7	150490335	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1973606	150490335	8648328	311	34307										
GALNT11	63917	broad.mit.edu	37	chr7	151791525	151791525	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgagtgctcgagccacagttCaaagcaaacaaaattgacga	9	10	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:151791525C>G	uc010lqg.1	+	2	443	c.213C>G	c.(211-213)TTC>TTG	p.F71L	GALNT11_uc011kvm.1_Intron|GALNT11_uc003wku.2_Missense_Mutation_p.F71L|GALNT11_uc003wkv.1_Missense_Mutation_p.F71L|GALNT11_uc011kvn.1_RNA	NM_022087	NP_071370	Q8NCW6	GLT11_HUMAN	N-acetylgalactosaminyltransferase 11	71	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.214)	OV - Ovarian serous cystadenocarcinoma(82;0.00168)	UCEC - Uterine corpus endometrioid carcinoma (81;0.177)|BRCA - Breast invasive adenocarcinoma(188;0.0932)		AGCCACAGTTCAAAGCAAACA	0.458													11	81	---	---	---	---	PASS	G	151791525	G	G	151791525	3	3	91	1	0	0	0	0	1	0	0	0	6209	825	29	2	215	2	GALNT11	7	151791525	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1301190	151791525	7347138	312	34308										
UBE3C	9690	broad.mit.edu	37	chr7	156974312	156974312	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atagcaaaaattttgctagaGaatgttctaaaaccattgca	6	6	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr7:156974312G>A	uc010lqs.2	+	7	1029	c.717G>A	c.(715-717)GAG>GAA	p.E239E	UBE3C_uc003wnf.2_Silent_p.E196E|UBE3C_uc003wng.2_Silent_p.E239E	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	239					protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		TTTTGCTAGAGAATGTTCTAA	0.353													14	104	---	---	---	---	PASS	A	156974312	A	A	156974312	2	1	91	1	0	0	0	0	0	0	0	1	16878	933	33	2		2	UBE3C	7	156974312	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	5182787	156974312	2164351	313	34309										
DLGAP2	9228	broad.mit.edu	37	chr8	1645454	1645454	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	actggaagatgatggagtccCcggaaagaaaggtaagggca	15	6	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:1645454C>A	uc003wpl.2	+	11	2795	c.2698C>A	c.(2698-2700)CCG>ACG	p.P900T	DLGAP2_uc003wpm.2_Missense_Mutation_p.P886T	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	979					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		GATGGAGTCCCCGGAAAGAAA	0.582													28	83	---	---	---	---	PASS	A	1645454	A	A	1645454	3	1	91	1	0	0	0	0	1	0	0	0	4560	623	22	3	2736	3	DLGAP2	8	1645454	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08		1645454	144718568	314	34310										
CSMD1	64478	broad.mit.edu	37	chr8	3087750	3087750	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgttacaggtggctgcaattGaggctgcaaacaaaagagaa	12	7	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:3087750G>C	uc011kwk.1	-	27	4550	c.4160C>G	c.(4159-4161)TCA>TGA	p.S1387*	CSMD1_uc011kwj.1_Nonsense_Mutation_p.S779*|CSMD1_uc003wqe.2_Nonsense_Mutation_p.S543*	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1387	Extracellular (Potential).|CUB 8.					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)		GGCTGCAATTGAGGCTGCAAA	0.507													6	27	---	---	---	---	PASS	C	3087750	C	C	3087750	4	2	91	1	0	0	0	0	0	1	0	0	3944	1294	45	2	6713	2	CSMD1	8	3087750	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1442296	3087750	143276272	315	34311										
CSMD1	64478	broad.mit.edu	37	chr8	3565986	3565986	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgggcagcatcttgactcctCttgacttcaactcaatcgcc	7	14	4	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:3565986C>T	uc011kwk.1	-	7	1349	c.959G>A	c.(958-960)AGA>AAA	p.R320K		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	320	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)		CTTGACTCCTCTTGACTTCAA	0.438													6	28	---	---	---	---	PASS	T	3565986	T	T	3565986	3	4	91	1	0	0	0	0	1	0	0	0	3944	913	32	2	9804	2	CSMD1	8	3565986	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	478236	3565986	142798036	316	34312										
TNKS	8658	broad.mit.edu	37	chr8	9590841	9590841	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atggacactatgaggtggctGagcttttagtaaggcatggg	15	5	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:9590841G>C	uc003wss.2	+	15	2205	c.2200G>C	c.(2200-2202)GAG>CAG	p.E734Q	TNKS_uc011kww.1_Missense_Mutation_p.E497Q|TNKS_uc010lrt.1_5'Flank	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	734	ANK 11.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		TGAGGTGGCTGAGCTTTTAGT	0.408													15	109	---	---	---	---	PASS	C	9590841	C	C	9590841	3	2	91	1	0	0	0	0	1	0	0	0	16316	1291	45	2	2258	2	TNKS	8	9590841	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	6024855	9590841	136773181	317	34313										
PPP3CC	5533	broad.mit.edu	37	chr8	22386063	22386063	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcaacatatgctctgatgacGaactgatttctgatgatgaa	8	7	3	6	rs139802616		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:22386063G>T	uc003xbs.2	+	10	1441	c.1114G>T	c.(1114-1116)GAA>TAA	p.E372*	PPP3CC_uc011kzi.1_Nonsense_Mutation_p.E372*|PPP3CC_uc003xbt.2_Nonsense_Mutation_p.E372*|PPP3CC_uc011kzj.1_Nonsense_Mutation_p.E87*	NM_005605	NP_005596	P48454	PP2BC_HUMAN	protein phosphatase 3, catalytic subunit, gamma	372					activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals	cytosol	calmodulin binding|metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		Prostate(55;0.104)		BRCA - Breast invasive adenocarcinoma(99;0.00756)|Colorectal(74;0.0238)|COAD - Colon adenocarcinoma(73;0.0835)		CTCTGATGACGAACTGATTTC	0.333													13	80	---	---	---	---	PASS	T	22386063	T	T	22386063	4	4	91	1	0	0	0	0	0	1	0	0	12399	1059	37	2	1152	2	PPP3CC	8	22386063	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	12795222	22386063	123977959	318	34314										
SCARA3	51435	broad.mit.edu	37	chr8	27516290	27516290	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggcaggccaccacagctggCctggacctctctctgaagga	12	14	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:27516290C>T	uc003xga.1	+	5	744	c.603C>T	c.(601-603)GGC>GGT	p.G201G	SCARA3_uc003xgb.1_Silent_p.G201G	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	201	Extracellular (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		CCACAGCTGGCCTGGACCTCT	0.607													11	41	---	---	---	---	PASS	T	27516290	T	T	27516290	2	4	91	1	0	0	0	0	0	0	0	1	13879	726	26	3		3	SCARA3	8	27516290	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	5130227	27516290	118847732	319	34315										
DDHD2	23259	broad.mit.edu	37	chr8	38107250	38107250	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tatgtacagaccgagatcttCaggaaataggaattccttta	8	7	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:38107250C>A	uc003xlb.2	+	11	1650	c.1273C>A	c.(1273-1275)CAG>AAG	p.Q425K	DDHD2_uc003xlc.2_Missense_Mutation_p.Q425K|DDHD2_uc011lbl.1_Missense_Mutation_p.Q237K|DDHD2_uc003xld.2_Missense_Mutation_p.Q44K	NM_015214	NP_056029	O94830	DDHD2_HUMAN	DDHD domain containing 2 isoform 1	425	SAM.				lipid catabolic process	centrosome	hydrolase activity|metal ion binding			large_intestine(1)|ovary(1)	2	Colorectal(12;0.000442)	all_lung(54;0.0657)|Lung NSC(58;0.175)	BRCA - Breast invasive adenocarcinoma(5;3.76e-25)|COAD - Colon adenocarcinoma(9;0.0977)			CCGAGATCTTCAGGAAATAGG	0.368													7	68	---	---	---	---	PASS	A	38107250	A	A	38107250	3	1	91	1	0	0	0	0	1	0	0	0	4327	827	29	2	1373	2	DDHD2	8	38107250	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	10590960	38107250	108256772	320	34316										
WHSC1L1	54904	broad.mit.edu	37	chr8	38153399	38153399	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	attacaattccagcagccttCtggcatttctatgcttaggc	7	11	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:38153399C>T	uc003xli.2	-	16	3348	c.2830G>A	c.(2830-2832)GAA>AAA	p.E944K	WHSC1L1_uc011lbm.1_Missense_Mutation_p.E944K|WHSC1L1_uc010lwe.2_Missense_Mutation_p.E895K	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	944	PHD-type 3.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			CAGCAGCCTTCTGGCATTTCT	0.418			T	NUP98	AML								75	105	---	---	---	---	PASS	T	38153399	T	T	38153399	3	4	91	1	0	0	0	0	1	0	0	0	17360	922	32	2	1519	2	WHSC1L1	8	38153399	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	46149	38153399	108210623	321	34317										
MYST3	7994	broad.mit.edu	37	chr8	41790175	41790175	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agacttggagcggatggaaaTgtgccccttcactggcattt	12	9	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:41790175T>A	uc010lxb.2	-	18	6107	c.5563A>T	c.(5563-5565)ATT>TTT	p.I1855F	MYST3_uc010lxc.2_Missense_Mutation_p.I1855F|MYST3_uc003xon.3_Missense_Mutation_p.I1855F	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1855					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			CGGATGGAAATGTGCCCCTTC	0.587													8	34	---	---	---	---	PASS	A	41790175	A	A	41790175	3	1	91	1	0	0	0	0	1	0	0	0	10104	1464	51	5	455	5	MYST3	8	41790175	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	3636776	41790175	104573847	322	34318										
KIAA0146	23514	broad.mit.edu	37	chr8	48647946	48647946	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagtccgtaaccgcccacccGaccagctgcattggattgga	10	15	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:48647946G>A	uc003xqd.2	+	20	2691	c.2682G>A	c.(2680-2682)CCG>CCA	p.P894P	KIAA0146_uc011ldc.1_Silent_p.P824P|KIAA0146_uc011ldd.1_Missense_Mutation_p.D835N|KIAA0146_uc003xqe.2_Silent_p.P369P|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc010lxt.2_3'UTR|KIAA0146_uc011ldf.1_Silent_p.P399P|KIAA0146_uc011ldg.1_Silent_p.P384P|KIAA0146_uc003xqg.1_Intron	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	894											0		Lung NSC(58;0.175)				CCGCCCACCCGACCAGCTGCA	0.527													18	158	---	---	---	---	PASS	A	48647946	A	A	48647946	2	1	91	1	0	0	0	0	0	0	0	1	8157	1045	37	2		2	KIAA0146	8	48647946	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	6857771	48647946	97716076	323	34319										
VCPIP1	80124	broad.mit.edu	37	chr8	67547363	67547363	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttatgaagttgctcagatttCtttttcactactccaccact	4	11	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:67547363C>G	uc003xwn.2	-	3	3301	c.3042G>C	c.(3040-3042)AAG>AAC	p.K1014N		NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	1014					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			GCTCAGATTTCTTTTTCACTA	0.448													24	212	---	---	---	---	PASS	G	67547363	G	G	67547363	3	3	91	1	0	0	0	0	1	0	0	0	17138	912	32	2	630	2	VCPIP1	8	67547363	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	18899417	67547363	78816659	324	34320										
C8orf34	116328	broad.mit.edu	37	chr8	69445345	69445345	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctaccccatctgtaacagaaGaagatattgataatgaagat	7	7	1	6			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:69445345G>C	uc010lyz.2	+	7	857	c.808G>C	c.(808-810)GAA>CAA	p.E270Q	C8orf34_uc010lyy.1_Missense_Mutation_p.E270Q|C8orf34_uc003xyb.2_Missense_Mutation_p.E245Q	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	270					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)			TGTAACAGAAGAAGATATTGA	0.358													30	108	---	---	---	---	PASS	C	69445345	C	C	69445345	3	2	91	1	0	0	0	0	1	0	0	0	2422	943	33	2	755	2	C8orf34	8	69445345	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1897982	69445345	76918677	325	34321										
CALB1	793	broad.mit.edu	37	chr8	91078134	91078134	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gatcagtcttaccattaggtCtgtatactcggctaattttg	8	8	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:91078134C>T	uc003yel.1	-	6	624	c.442G>A	c.(442-444)GAC>AAC	p.D148N	CALB1_uc011lge.1_Missense_Mutation_p.D91N	NM_004929	NP_004920	P05937	CALB1_HUMAN	calbindin 1	148	EF-hand 4.					nucleus	calcium ion binding|vitamin D binding			pancreas(1)	1			BRCA - Breast invasive adenocarcinoma(11;0.00953)			ACCATTAGGTCTGTATACTCG	0.353													25	78	---	---	---	---	PASS	T	91078134	T	T	91078134	3	4	91	1	0	0	0	0	1	0	0	0	2573	913	32	2	367	2	CALB1	8	91078134	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	21632789	91078134	55285888	326	34322										
RUNX1T1	862	broad.mit.edu	37	chr8	92982910	92982910	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cttgaatcctcctgctgattGataactgccagtgcgtcctc	8	13	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:92982910G>C	uc003yfd.2	-	10	1599	c.1515C>G	c.(1513-1515)ATC>ATG	p.I505M	RUNX1T1_uc003yfc.1_Missense_Mutation_p.I478M|RUNX1T1_uc003yfe.1_Missense_Mutation_p.I468M|RUNX1T1_uc010mao.2_Missense_Mutation_p.I478M|RUNX1T1_uc011lgi.1_Missense_Mutation_p.I516M|RUNX1T1_uc010man.1_Missense_Mutation_p.I130M|RUNX1T1_uc003yfb.1_Missense_Mutation_p.I468M	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	505					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			CCTGCTGATTGATAACTGCCA	0.522													14	61	---	---	---	---	PASS	C	92982910	C	C	92982910	3	2	91	1	0	0	0	0	1	0	0	0	13747	1280	45	2	307	2	RUNX1T1	8	92982910	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1904776	92982910	53381112	327	34323										
PDP1	54704	broad.mit.edu	37	chr8	94935387	94935387	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagcattgaccttcaaaagaGagtgatagaatctggcccag	11	8	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:94935387G>C	uc003yge.2	+	2	1369	c.1100G>C	c.(1099-1101)AGA>ACA	p.R367T	PDP1_uc003ygf.2_Missense_Mutation_p.R392T|PDP1_uc010max.2_Missense_Mutation_p.R392T|PDP1_uc011lgm.1_Missense_Mutation_p.R367T|PDP1_uc011lgn.1_Missense_Mutation_p.R426T	NM_018444	NP_060914	Q9P0J1	PDP1_HUMAN	pyruvate dehyrogenase phosphatase catalytic	367					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						CTTCAAAAGAGAGTGATAGAA	0.443													16	146	---	---	---	---	PASS	C	94935387	C	C	94935387	3	2	91	1	0	0	0	0	1	0	0	0	11685	942	33	2	1283	2	PDP1	8	94935387	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1952477	94935387	51428635	328	34324										
VPS13B	157680	broad.mit.edu	37	chr8	100155294	100155294	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaagccttgttataggtcctCttgattttcgtttggatagc	9	7	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:100155294C>G	uc003yiv.2	+	13	1855	c.1744C>G	c.(1744-1746)CTT>GTT	p.L582V	VPS13B_uc003yiw.2_Missense_Mutation_p.L582V|VPS13B_uc003yit.2_Missense_Mutation_p.L582V|VPS13B_uc003yiu.1_Missense_Mutation_p.L582V|VPS13B_uc003yix.1_Missense_Mutation_p.L53V	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	582					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TATAGGTCCTCTTGATTTTCG	0.398													20	160	---	---	---	---	PASS	G	100155294	G	G	100155294	3	3	91	1	0	0	0	0	1	0	0	0	17187	913	32	2	1832	2	VPS13B	8	100155294	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	5219907	100155294	46208728	329	34325										
ABRA	137735	broad.mit.edu	37	chr8	107782077	107782077	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctctctcataagtcttgctGaccaccgttttggacacctc	6	15	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:107782077G>A	uc003ymm.3	-	1	396	c.342C>T	c.(340-342)GTC>GTT	p.V114V		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	114					positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			AAGTCTTGCTGACCACCGTTT	0.547													18	266	---	---	---	---	PASS	A	107782077	A	A	107782077	2	1	91	1	0	0	0	0	0	0	0	1	100	1277	45	2		2	ABRA	8	107782077	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	7626783	107782077	38581945	330	34326										
TTC35	9694	broad.mit.edu	37	chr8	109462667	109462667	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtgtatctagtttggatcatAtatgaacaggtgatgattgc	11	4	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:109462667A>T	uc003ymw.1	+	3	200	c.165A>T	c.(163-165)ATA>ATT	p.I55I		NM_014673	NP_055488	Q15006	TTC35_HUMAN	tetratricopeptide repeat domain 35	55						endoplasmic reticulum|nucleus	binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.34e-10)			TTTGGATCATATATGAACAGG	0.303													97	135	---	---	---	---	PASS	T	109462667	T	T	109462667	2	4	91	1	0	0	0	0	0	0	0	1	16700	439	16	5		5	TTC35	8	109462667	Silent	SNP	A	TCGA-39-5031-01A-01D-1441-08	1680590	109462667	36901355	331	34327										
CSMD3	114788	broad.mit.edu	37	chr8	113651004	113651004	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgagccctgaaatttccataGagaccagcattgattgttgg	10	8	0	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:113651004G>T	uc003ynu.2	-	21	3606	c.3447C>A	c.(3445-3447)CTC>CTA	p.L1149L	CSMD3_uc003yns.2_Silent_p.L421L|CSMD3_uc003ynt.2_Silent_p.L1109L|CSMD3_uc011lhx.1_Silent_p.L1045L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1149	Extracellular (Potential).|CUB 6.					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						AATTTCCATAGAGACCAGCAT	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			21	113	---	---	---	---	PASS	T	113651004	T	T	113651004	2	4	91	1	0	0	0	0	0	0	0	1	3946	929	33	2		2	CSMD3	8	113651004	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	4188337	113651004	32713018	332	34328										
TRPS1	7227	broad.mit.edu	37	chr8	116426593	116426593	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggcccaggtctggaatgcttGatcgccaaatctagaggaat	12	9	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:116426593G>A	uc003ynz.2	-	6	3963	c.3504C>T	c.(3502-3504)ATC>ATT	p.I1168I	TRPS1_uc011lhy.1_Silent_p.I1172I|TRPS1_uc003yny.2_Silent_p.I1181I|TRPS1_uc010mcy.2_Silent_p.I1168I	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1168	Transcriptional repressor domain (By similarity).|Mediates interaction with RNF4 (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TGGAATGCTTGATCGCCAAAT	0.443									Langer-Giedion_syndrome				11	113	---	---	---	---	PASS	A	116426593	A	A	116426593	2	1	91	1	0	0	0	0	0	0	0	1	16590	1280	45	2		2	TRPS1	8	116426593	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	2775589	116426593	29937429	333	34329										
TRPS1	7227	broad.mit.edu	37	chr8	116616834	116616834	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagctagatgactcacagctGaaactacaaaatttacacca	6	10	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:116616834G>A	uc003ynz.2	-	3	1782	c.1323C>T	c.(1321-1323)TTC>TTT	p.F441F	TRPS1_uc011lhy.1_Silent_p.F445F|TRPS1_uc003yny.2_Silent_p.F454F|TRPS1_uc010mcy.2_Silent_p.F441F	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	441					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			ACTCACAGCTGAAACTACAAA	0.463									Langer-Giedion_syndrome				17	99	---	---	---	---	PASS	A	116616834	A	A	116616834	2	1	91	1	0	0	0	0	0	0	0	1	16590	1281	45	2		2	TRPS1	8	116616834	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	190241	116616834	29747188	334	34330										
TAF2	6873	broad.mit.edu	37	chr8	120772851	120772851	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtattacctttagtataatCaacaactgcttccaaagctg	5	9	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:120772851C>T	uc003you.2	-	20	2956	c.2686G>A	c.(2686-2688)GAT>AAT	p.D896N		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	896					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TTAGTATAATCAACAACTGCT	0.353													16	111	---	---	---	---	PASS	T	120772851	T	T	120772851	3	4	91	1	0	0	0	0	1	0	0	0	15521	826	29	2	941	2	TAF2	8	120772851	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	4156017	120772851	25591171	335	34331										
WDR67	93594	broad.mit.edu	37	chr8	124132346	124132346	+	Nonsense_Mutation	SNP	T	A	A													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atttttagtgacacaccataTcttccactcttggcatttcc							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:124132346T>A	uc003ypp.1	+	11	1578	c.1488T>A	c.(1486-1488)TAT>TAA	p.Y496*	WDR67_uc011lig.1_Nonsense_Mutation_p.Y496*|WDR67_uc011lih.1_Nonsense_Mutation_p.Y386*|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Nonsense_Mutation_p.Y209*	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	496	Rab-GAP TBC.					centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			ACACACCATATCTTCCACTCT	0.299													7	70	---	---	---	---	PASS	A	124132346	A	A	124132346	4	1	91	1	0	0	0	0	0	1	0	0	17315	1442	50	5	1530	5	WDR67	8	124132346	Nonsense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	3359495	124132346	22231676	336	34332	657	2								
WDR67	93594	broad.mit.edu	37	chr8	124132347	124132347	+	Missense_Mutation	SNP	C	T	T													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tttttagtgacacaccatatCttccactcttggcatttcca							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:124132347C>T	uc003ypp.1	+	11	1579	c.1489C>T	c.(1489-1491)CTT>TTT	p.L497F	WDR67_uc011lig.1_Missense_Mutation_p.L497F|WDR67_uc011lih.1_Missense_Mutation_p.L387F|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Missense_Mutation_p.L210F	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	497	Rab-GAP TBC.					centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			CACACCATATCTTCCACTCTT	0.294													7	69	---	---	---	---	PASS	T	124132347	T	T	124132347	3	4	91	1	0	0	0	0	1	0	0	0	17315	913	32	2	1531	2	WDR67	8	124132347	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1	124132347	22231675	337	34333	657	2								
ADCY8	114	broad.mit.edu	37	chr8	132051841	132051841	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	catggccacccaggtgaccaCgccgctgtactgcaggtacg	12	15	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:132051841C>A	uc003ytd.3	-	1	995	c.739G>T	c.(739-741)GTG>TTG	p.V247L	ADCY8_uc010mds.2_Missense_Mutation_p.V247L	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	247	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CAGGTGACCACGCCGCTGTAC	0.637										HNSCC(32;0.087)			3	63	---	---	---	---	PASS	A	132051841	A	A	132051841	3	1	91	1	0	0	0	0	1	0	0	0	300	536	19	1	3088	1	ADCY8	8	132051841	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	7919494	132051841	14312181	338	34334										
FAM135B	51059	broad.mit.edu	37	chr8	139160775	139160775	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaactcaccatccaggccatGgacacagacaaccaggtgaa	9	13	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:139160775G>C	uc003yuy.2	-	14	3607	c.3436C>G	c.(3436-3438)CAT>GAT	p.H1146D	FAM135B_uc003yux.2_Missense_Mutation_p.H1047D|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.H708D|FAM135B_uc003yvb.2_Missense_Mutation_p.P673R	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1146										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)			TCCAGGCCATGGACACAGACA	0.353										HNSCC(54;0.14)			20	95	---	---	---	---	PASS	C	139160775	C	C	139160775	3	2	91	1	0	0	0	0	1	0	0	0	5449	1348	47	4	812	4	FAM135B	8	139160775	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7108934	139160775	7203247	339	34335										
SLURP1	57152	broad.mit.edu	37	chr8	143822632	143822632	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggccccgatgctgtcggggtCggtggccacacaggagctgg	18	12	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:143822632C>T	uc003ywy.2	-	3	267	c.241G>A	c.(241-243)GAC>AAC	p.D81N		NM_020427	NP_065160	P55000	SLUR1_HUMAN	ARS component B precursor	81					cell activation|cell adhesion	extracellular space	cytokine activity				0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					CTGTCGGGGTCGGTGGCCACA	0.662													7	35	---	---	---	---	PASS	T	143822632	T	T	143822632	3	4	91	1	0	0	0	0	1	0	0	0	14756	884	31	2	74	2	SLURP1	8	143822632	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	4661857	143822632	2541390	340	34336										
TOP1MT	116447	broad.mit.edu	37	chr8	144407560	144407560	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctggcgtgatccttctcttCagcatccccatcttgggatg	9	13	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:144407560C>T	uc003yxz.2	-	5	646	c.627G>A	c.(625-627)CTG>CTA	p.L209L	TOP1MT_uc011lkd.1_Silent_p.L111L|TOP1MT_uc011lke.1_Silent_p.L111L|TOP1MT_uc010mfb.2_Silent_p.L111L|TOP1MT_uc011lkf.1_Silent_p.L4L|TOP1MT_uc010mfd.1_Silent_p.L4L	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	209					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	TCCTTCTCTTCAGCATCCCCA	0.592													9	78	---	---	---	---	PASS	T	144407560	T	T	144407560	2	4	91	1	0	0	0	0	0	0	0	1	16361	813	29	2		2	TOP1MT	8	144407560	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	584928	144407560	1956462	341	34337										
EEF1D	1936	broad.mit.edu	37	chr8	144663474	144663474	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	accgtggtctccgctggtgcCgctggaggccccggggcctg	17	15	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:144663474C>A	uc011lki.1	-	4	483	c.214G>T	c.(214-216)GGC>TGC	p.G72C	NAPRT1_uc003yym.3_5'Flank|NAPRT1_uc003yyn.3_5'Flank|NAPRT1_uc011lkh.1_5'Flank|NAPRT1_uc003yyo.3_5'Flank|EEF1D_uc003yyp.1_Missense_Mutation_p.G414C|EEF1D_uc003yyq.1_Missense_Mutation_p.G488C|EEF1D_uc011lkj.1_Missense_Mutation_p.G437C|EEF1D_uc003yyr.2_Missense_Mutation_p.G438C|EEF1D_uc003yyt.2_Missense_Mutation_p.G438C|EEF1D_uc011lkk.1_Missense_Mutation_p.G72C|EEF1D_uc003yys.2_Missense_Mutation_p.G72C|EEF1D_uc003yyv.2_Missense_Mutation_p.G48C|EEF1D_uc003yyu.2_Missense_Mutation_p.G72C|EEF1D_uc011lkl.1_Missense_Mutation_p.G72C	NM_001130057	NP_001123529	P29692	EF1D_HUMAN	eukaryotic translation elongation factor 1 delta	72					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|signal transducer activity|translation elongation factor activity			ovary(1)|kidney(1)|skin(1)	3	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)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			CCGCTGGTGCCGCTGGAGGCC	0.692													5	47	---	---	---	---	PASS	A	144663474	A	A	144663474	3	1	91	1	0	0	0	0	1	0	0	0	4926	652	23	1	651	1	EEF1D	8	144663474	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	255914	144663474	1700548	342	34338										
HSF1	3297	broad.mit.edu	37	chr8	145537690	145537690	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggagccccccaggcctcccGaggcagagaacagcagcccg	13	17	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:145537690G>A	uc003zbt.3	+	12	1527	c.1357G>A	c.(1357-1359)GAG>AAG	p.E453K	HSF1_uc003zbu.3_RNA	NM_005526	NP_005517	Q00613	HSF1_HUMAN	heat shock transcription factor 1	453	Transactivation domain.					cytoplasm	protein binding|sequence-specific DNA binding transcription factor 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;3.94e-40)|Epithelial(56;1.12e-39)|all cancers(56;9.11e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0547)|Colorectal(110;0.055)			CAGGCCTCCCGAGGCAGAGAA	0.687													8	71	---	---	---	---	PASS	A	145537690	A	A	145537690	3	1	91	1	0	0	0	0	1	0	0	0	7395	1059	37	2	1403	2	HSF1	8	145537690	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	874216	145537690	826332	343	34339										
NFKBIL2	4796	broad.mit.edu	37	chr8	145665533	145665533	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccgtagtctggtttcggtctCaggggcctcctggggctgca	15	12	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:145665533C>G	uc011llg.1	-	11	1366	c.1351G>C	c.(1351-1353)GAG>CAG	p.E451Q		NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	451	Glu-rich.				cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			GTTTCGGTCTCAGGGGCCTCC	0.517													35	93	---	---	---	---	PASS	G	145665533	G	G	145665533	3	3	91	1	0	0	0	0	1	0	0	0	10382	835	29	2	2849	2	NFKBIL2	8	145665533	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	127843	145665533	698489	344	34340										
RPL8	6132	broad.mit.edu	37	chr8	146016768	146016768	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagataacggtggcatagttCcctgatgcccgggccagctt	13	11	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:146016768C>T	uc003zeb.2	-	4	504	c.393G>A	c.(391-393)GGG>GGA	p.G131G	RPL8_uc003zdz.2_RNA|RPL8_uc003zea.2_Silent_p.G95G|RPL8_uc003zec.2_Silent_p.G131G|RPL8_uc010mgc.2_3'UTR	NM_033301	NP_150644	P62917	RL8_HUMAN	ribosomal protein L8	131					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	rRNA binding|structural constituent of ribosome				0	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;5.47e-39)|OV - Ovarian serous cystadenocarcinoma(54;6.38e-39)|all cancers(56;5.47e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.191)		TGGCATAGTTCCCTGATGCCC	0.592													6	100	---	---	---	---	PASS	T	146016768	T	T	146016768	2	4	91	1	0	0	0	0	0	0	0	1	13602	842	30	2		2	RPL8	8	146016768	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	351235	146016768	347254	345	34341										
ZNF7	7553	broad.mit.edu	37	chr8	146067569	146067569	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagagaactcacactggggaGaggccctacccttgcaagga	12	12	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr8:146067569G>A	uc003zeg.3	+	5	1214	c.1077G>A	c.(1075-1077)GAG>GAA	p.E359E	ZNF7_uc010mge.2_Silent_p.E370E|ZNF7_uc011lln.1_Silent_p.E263E|ZNF7_uc003zeh.2_Intron|ZNF7_uc003zek.3_Silent_p.E263E|COMMD5_uc003zel.1_Intron	NM_003416	NP_003407	P17097	ZNF7_HUMAN	zinc finger protein 7	359					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.0812)|Ovarian(118;0.0822)|Acute lymphoblastic leukemia(644;0.143)	Epithelial(56;8.75e-39)|OV - Ovarian serous cystadenocarcinoma(54;1.13e-38)|all cancers(56;8.48e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;2.11e-07)		ACACTGGGGAGAGGCCCTACC	0.552													5	96	---	---	---	---	PASS	A	146067569	A	A	146067569	2	1	91	1	0	0	0	0	0	0	0	1	18099	933	33	2		2	ZNF7	8	146067569	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	50801	146067569	296453	346	34342										
PTPRD	5789	broad.mit.edu	37	chr9	8375957	8375957	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgcagtgcacaaccatcggaCcagcatcgggagggttacag	13	11	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:8375957C>G	uc003zkk.2	-	38	5351	c.4640G>C	c.(4639-4641)GGT>GCT	p.G1547A	PTPRD_uc003zkp.2_Missense_Mutation_p.G1141A|PTPRD_uc003zkq.2_Missense_Mutation_p.G1140A|PTPRD_uc003zkr.2_Missense_Mutation_p.G1131A|PTPRD_uc003zks.2_Missense_Mutation_p.G1140A|PTPRD_uc003zkl.2_Missense_Mutation_p.G1538A|PTPRD_uc003zkm.2_Missense_Mutation_p.G1534A|PTPRD_uc003zkn.2_Missense_Mutation_p.G1136A|PTPRD_uc003zko.2_Missense_Mutation_p.G1137A	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1547	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		AACCATCGGACCAGCATCGGG	0.468										TSP Lung(15;0.13)			4	62	---	---	---	---	PASS	G	8375957	G	G	8375957	3	3	91	1	0	0	0	0	1	0	0	0	12799	507	18	4	1130	4	PTPRD	9	8375957	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08		8375957	132837474	347	34343										
PTPRD	5789	broad.mit.edu	37	chr9	8484269	8484269	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcccaccagcactgtttccaCgatttgtcagcacaaatgaa	7	13	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:8484269C>A	uc003zkk.2	-	29	3974	c.3263G>T	c.(3262-3264)CGT>CTT	p.R1088L	PTPRD_uc003zkp.2_Missense_Mutation_p.R677L|PTPRD_uc003zkq.2_Missense_Mutation_p.R677L|PTPRD_uc003zkr.2_Missense_Mutation_p.R672L|PTPRD_uc003zks.2_Missense_Mutation_p.R667L|PTPRD_uc003zkl.2_Missense_Mutation_p.R1079L|PTPRD_uc003zkm.2_Missense_Mutation_p.R1075L|PTPRD_uc003zkn.2_Missense_Mutation_p.R677L|PTPRD_uc003zko.2_Missense_Mutation_p.R674L	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1088	Fibronectin type-III 8.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		ACTGTTTCCACGATTTGTCAG	0.478										TSP Lung(15;0.13)			27	77	---	---	---	---	PASS	A	8484269	A	A	8484269	3	1	91	1	0	0	0	0	1	0	0	0	12799	536	19	1	2608	1	PTPRD	9	8484269	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	108312	8484269	132729162	348	34344										
MTAP	4507	broad.mit.edu	37	chr9	21837927	21837927	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaccactatgagacctcagtCcttctatgatggaagtcatt	8	10	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:21837927C>T	uc003zph.2	+	5	481	c.368C>T	c.(367-369)TCC>TTC	p.S123F	MTAP_uc003zpi.1_Intron|MTAP_uc010mit.2_RNA|MTAP_uc011lnk.1_Missense_Mutation_p.S140F|MTAP_uc011lnl.1_Missense_Mutation_p.S56F	NM_002451	NP_002442	Q13126	MTAP_HUMAN	5'-methylthioadenosine phosphorylase	123					nucleoside metabolic process	cytoplasm	phosphorylase activity|S-methyl-5-thioadenosine phosphorylase activity			central_nervous_system(1)	1		all_cancers(5;0)|Hepatocellular(5;0.00162)|Colorectal(97;0.173)		GBM - Glioblastoma multiforme(3;0)|Lung(24;2.24e-57)|LUSC - Lung squamous cell carcinoma(38;1.97e-36)|STAD - Stomach adenocarcinoma(4;3.26e-05)|OV - Ovarian serous cystadenocarcinoma(39;0.00931)|COAD - Colon adenocarcinoma(8;0.15)	Adenine(DB00173)	AGACCTCAGTCCTTCTATGAT	0.443													13	254	---	---	---	---	PASS	T	21837927	T	T	21837927	3	4	91	1	0	0	0	0	1	0	0	0	9911	855	30	2	386	2	MTAP	9	21837927	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	13353658	21837927	119375504	349	34345										
TOPORS	10210	broad.mit.edu	37	chr9	32543158	32543158	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgtactccttgtatctgagaCgtggctcctcctgtgacaag	10	11	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:32543158C>A	uc003zrb.2	-	3	1532	c.1365G>T	c.(1363-1365)ACG>ACT	p.T455T	TOPORS_uc003zrc.2_Silent_p.T388T	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	455	Required for sumoylation and localization to discrete nuclear foci.|Interaction with SUMO1.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		GTATCTGAGACGTGGCTCCTC	0.403													21	138	---	---	---	---	PASS	A	32543158	A	A	32543158	2	1	91	1	0	0	0	0	0	0	0	1	16367	523	19	1		1	TOPORS	9	32543158	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	10705231	32543158	108670273	350	34346										
TAF1L	138474	broad.mit.edu	37	chr9	32630838	32630838	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaactctcccgactctgataCttgtgcttggagatgttctt	8	10	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:32630838C>A	uc003zrg.1	-	1	4830	c.4740G>T	c.(4738-4740)AAG>AAT	p.K1580N	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1580	Bromo 2.				male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		GACTCTGATACTTGTGCTTGG	0.383													33	160	---	---	---	---	PASS	A	32630838	A	A	32630838	3	1	91	1	0	0	0	0	1	0	0	0	15520	564	20	3	744	3	TAF1L	9	32630838	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	87680	32630838	108582593	351	34347										
C9orf100	84904	broad.mit.edu	37	chr9	35662700	35662700	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccgaggctccccatggggagGcaccactaacagccagccct	11	17	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:35662700G>T	uc003zxm.1	-	7	824	c.712C>A	c.(712-714)CCT>ACT	p.P238T	C9orf100_uc003zxl.2_RNA	NM_032818	NP_116207	Q8N4T4	CI100_HUMAN	hypothetical protein LOC84904	238	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0	all_epithelial(49;0.217)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CCATGGGGAGGCACCACTAAC	0.607													7	2	---	---	---	---	PASS	T	35662700	T	T	35662700	3	4	91	1	0	0	0	0	1	0	0	0	2444	1203	42	3	307	3	C9orf100	9	35662700	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3031862	35662700	105550731	352	34348										
FBXO10	26267	broad.mit.edu	37	chr9	37541208	37541208	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atgatgggtgagaaccaggcTggcgtgaagacgaggttgca	17	6	0	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:37541208T>A	uc004aab.2	-	2	607	c.558A>T	c.(556-558)CCA>CCT	p.P186P	FBXO10_uc004aac.2_Silent_p.P202P|FBXO10_uc004aad.2_Intron	NM_012166	NP_036298	Q9UK96	FBX10_HUMAN	F-box protein 10	186						ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(5)	5				GBM - Glioblastoma multiforme(29;0.0107)		AGAACCAGGCTGGCGTGAAGA	0.537													29	91	---	---	---	---	PASS	A	37541208	A	A	37541208	2	1	91	1	0	0	0	0	0	0	0	1	5726	1567	55	5		5	FBXO10	9	37541208	Silent	SNP	T	TCGA-39-5031-01A-01D-1441-08	1878508	37541208	103672223	353	34349										
MCART1	92014	broad.mit.edu	37	chr9	37887804	37887804	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggaaaaccttggggaaagaCtgaaattccccaccaatctg	9	10	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:37887804C>G	uc004aau.2	-	3	1488	c.744G>C	c.(742-744)CAG>CAC	p.Q248H	MCART1_uc004aar.1_Intron|MCART1_uc004aaq.1_Intron|uc004aat.1_5'Flank|MCART1_uc004aav.2_Missense_Mutation_p.Q248H	NM_033412	NP_219480	Q9H1U9	MCAR1_HUMAN	mitochondrial carrier triple repeat 1	248	Solcar 3.				transport	integral to membrane|mitochondrial inner membrane				ovary(2)|breast(1)	3				GBM - Glioblastoma multiforme(29;0.00559)|Lung(182;0.0422)		TGGGGAAAGACTGAAATTCCC	0.418													11	68	---	---	---	---	PASS	G	37887804	G	G	37887804	3	3	91	1	0	0	0	0	1	0	0	0	9369	564	20	4	153	4	MCART1	9	37887804	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	346596	37887804	103325627	354	34350										
APBA1	320	broad.mit.edu	37	chr9	72091005	72091005	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cacagggtcactggggtgaaGagatgtgcttgatgactctg	15	7	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:72091005G>C	uc004ahh.2	-	3	1531	c.1255C>G	c.(1255-1257)CTT>GTT	p.L419V		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	419	LIN-2/CASK binding.|Pro-rich.				axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						CTGGGGTGAAGAGATGTGCTT	0.498													8	55	---	---	---	---	PASS	C	72091005	C	C	72091005	3	2	91	1	0	0	0	0	1	0	0	0	756	942	33	2	1302	2	APBA1	9	72091005	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	34203201	72091005	69122426	355	34351										
TLE4	7091	broad.mit.edu	37	chr9	82323125	82323125	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtaactctactcccggattGaggcctgtacctggaaaacc	9	12	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:82323125G>A	uc004ald.2	+	13	1953	c.1104G>A	c.(1102-1104)TTG>TTA	p.L368L	TLE4_uc004alc.2_Silent_p.L343L|TLE4_uc010mpr.2_Silent_p.L222L|TLE4_uc004ale.2_5'UTR|TLE4_uc011lsq.1_Silent_p.L311L|TLE4_uc010mps.2_Silent_p.L267L|TLE4_uc004alf.2_Silent_p.L282L	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						CTCCCGGATTGAGGCCTGTAC	0.418													15	141	---	---	---	---	PASS	A	82323125	A	A	82323125	2	1	91	1	0	0	0	0	0	0	0	1	15938	1281	45	2		2	TLE4	9	82323125	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	10232120	82323125	58890306	356	34352										
C9orf3	84909	broad.mit.edu	37	chr9	97842985	97842985	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgttcctccaggttcgccatCggtggtgtgaactcattgtt	11	10	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:97842985C>T	uc004ava.2	+	14	2377	c.2242C>T	c.(2242-2244)CGG>TGG	p.R748W	C9orf3_uc004auy.2_Missense_Mutation_p.R649W|C9orf3_uc004auz.1_Missense_Mutation_p.R649W|C9orf3_uc004avc.2_Missense_Mutation_p.R203W|C9orf3_uc011luj.1_Missense_Mutation_p.R110W|C9orf3_uc011luk.1_Missense_Mutation_p.R89W|C9orf3_uc004avd.2_Missense_Mutation_p.R110W	NM_032823	NP_116212	Q8N6M6	AMPO_HUMAN	aminopeptidase O	748					leukotriene biosynthetic process|proteolysis	cytoplasm	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(323;0.000275)		GGTTCGCCATCGGTGGTGTGA	0.542													15	149	---	---	---	---	PASS	T	97842985	T	T	97842985	3	4	91	1	0	0	0	0	1	0	0	0	2477	875	31	2	1991	2	C9orf3	9	97842985	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	15519860	97842985	43370446	357	34353										
ANKS6	203286	broad.mit.edu	37	chr9	101530382	101530382	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccttgccaacaggagcgctgCcacctgcaggggaggctgga	15	13	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:101530382C>G	uc004ayu.2	-	11	2144	c.2123G>C	c.(2122-2124)GGC>GCC	p.G708A	ANKS6_uc004ayt.2_Missense_Mutation_p.G407A|ANKS6_uc004ayv.1_Missense_Mutation_p.G170A|ANKS6_uc004ayw.1_Missense_Mutation_p.G290A|ANKS6_uc004ayx.1_RNA|ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	708	Ser-rich.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				AGGAGCGCTGCCACCTGCAGG	0.607													14	26	---	---	---	---	PASS	G	101530382	G	G	101530382	3	3	91	1	0	0	0	0	1	0	0	0	692	739	26	4	512	4	ANKS6	9	101530382	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3687397	101530382	39683049	358	34354										
TEX10	54881	broad.mit.edu	37	chr9	103090163	103090163	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atatcgataagctgtgtagaGagctcaggatttcgggagcc	13	7	1	1	rs145080863		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:103090163G>C	uc004bas.2	-	8	1922	c.1707C>G	c.(1705-1707)CTC>CTG	p.L569L	TEX10_uc011lvf.1_Silent_p.L408L|TEX10_uc011lvg.1_Silent_p.L572L	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	569						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		GCTGTGTAGAGAGCTCAGGAT	0.428													9	54	---	---	---	---	PASS	C	103090163	C	C	103090163	2	2	91	1	0	0	0	0	0	0	0	1	15769	929	33	2		2	TEX10	9	103090163	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1559781	103090163	38123268	359	34355										
SMC2	10592	broad.mit.edu	37	chr9	106877046	106877046	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gattagtgtgaaagacacttCtgcaaccacagctttagaat	8	8	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:106877046C>T	uc004bbv.2	+	13	1895	c.1607C>T	c.(1606-1608)TCT>TTT	p.S536F	SMC2_uc004bbu.1_Missense_Mutation_p.S536F|SMC2_uc004bbw.2_Missense_Mutation_p.S536F|SMC2_uc011lvl.1_Missense_Mutation_p.S536F|SMC2_uc004bbx.2_Missense_Mutation_p.S536F	NM_001042551	NP_001036016	O95347	SMC2_HUMAN	structural maintenance of chromosomes 2	536	Flexible hinge.				cell division|mitotic chromosome condensation|symbiosis, encompassing mutualism through parasitism	condensin complex|cytoplasm|nuclear chromosome	ATP binding|protein heterodimerization activity			ovary(4)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|breast(1)	9						AAAGACACTTCTGCAACCACA	0.338													7	93	---	---	---	---	PASS	T	106877046	T	T	106877046	3	4	91	1	0	0	0	0	1	0	0	0	14783	913	32	2	1653	2	SMC2	9	106877046	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3786883	106877046	34336385	360	34356										
SMC2	10592	broad.mit.edu	37	chr9	106889003	106889003	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aacagcttgaagctgtaaatGaagctatcaaatcctatgaa	7	7	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:106889003G>C	uc004bbv.2	+	19	2821	c.2533G>C	c.(2533-2535)GAA>CAA	p.E845Q	SMC2_uc004bbw.2_Missense_Mutation_p.E845Q|SMC2_uc011lvl.1_Missense_Mutation_p.E845Q|SMC2_uc004bbx.2_Missense_Mutation_p.E845Q|SMC2_uc004bby.2_5'Flank	NM_001042551	NP_001036016	O95347	SMC2_HUMAN	structural maintenance of chromosomes 2	845	Potential.				cell division|mitotic chromosome condensation|symbiosis, encompassing mutualism through parasitism	condensin complex|cytoplasm|nuclear chromosome	ATP binding|protein heterodimerization activity			ovary(4)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|breast(1)	9						AGCTGTAAATGAAGCTATCAA	0.348													13	67	---	---	---	---	PASS	C	106889003	C	C	106889003	3	2	91	1	0	0	0	0	1	0	0	0	14783	1291	45	2	2603	2	SMC2	9	106889003	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	11957	106889003	34324428	361	34357										
KIAA0368	23392	broad.mit.edu	37	chr9	114131428	114131428	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctcttcatttttggttgtcCggaccccactgctttcaagt	7	13	3	0	rs145249965	by1000genomes	TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:114131428C>T	uc004bfe.1	-	47	5534	c.5534G>A	c.(5533-5535)CGG>CAG	p.R1845Q		NM_001080398	NP_001073867			KIAA0368 protein												0						TTTGGTTGTCCGGACCCCACT	0.418													8	79	---	---	---	---	PASS	T	114131428	T	T	114131428	3	4	91	1	0	0	0	0	1	0	0	0	8171	652	23	1	539	1	KIAA0368	9	114131428	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	7242425	114131428	27082003	362	34358										
SUSD1	64420	broad.mit.edu	37	chr9	114873987	114873987	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agcgcctgggaggtgctgtgGagatgttcacggtgtagttg	18	6	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:114873987G>C	uc004bfu.2	-	8	1159	c.1118C>G	c.(1117-1119)TCC>TGC	p.S373C	SUSD1_uc010mui.2_Missense_Mutation_p.S373C|SUSD1_uc010muj.2_Missense_Mutation_p.S373C	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	373	Extracellular (Potential).					integral to membrane	calcium ion binding				0						AGGTGCTGTGGAGATGTTCAC	0.547													12	136	---	---	---	---	PASS	C	114873987	C	C	114873987	3	2	91	1	0	0	0	0	1	0	0	0	15404	1174	41	2	1165	2	SUSD1	9	114873987	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	742559	114873987	26339444	363	34359										
DBC1	1620	broad.mit.edu	37	chr9	122075482	122075482	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caaaggataggtagctcctgGagtggtggaaaggccccctg	15	9	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:122075482G>T	uc004bkc.2	-	2	608	c.152C>A	c.(151-153)TCC>TAC	p.S51Y	DBC1_uc004bkd.2_Missense_Mutation_p.S51Y	NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	51					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GTAGCTCCTGGAGTGGTGGAA	0.483													17	113	---	---	---	---	PASS	T	122075482	T	T	122075482	3	4	91	1	0	0	0	0	1	0	0	0	4247	1174	41	2	2161	2	DBC1	9	122075482	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7201495	122075482	19137949	364	34360										
MRRF	92399	broad.mit.edu	37	chr9	125054075	125054075	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agagaaagtggaatgaatctGaacccagaagtggaagggac	14	5	1	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:125054075G>C	uc004bmb.2	+	5	622	c.507G>C	c.(505-507)CTG>CTC	p.L169L	MRRF_uc004bmc.2_Silent_p.L169L|MRRF_uc010mvz.1_RNA|MRRF_uc010mwa.2_Silent_p.L169L|MRRF_uc011lyr.1_Silent_p.L117L|MRRF_uc004bmd.2_Silent_p.L169L|MRRF_uc004bme.2_RNA	NM_138777	NP_620132	Q96E11	RRFM_HUMAN	mitochondrial ribosome recycling factor isoform	169					ribosome disassembly|translation	mitochondrion	sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						GAATGAATCTGAACCCAGAAG	0.408													18	168	---	---	---	---	PASS	C	125054075	C	C	125054075	2	2	91	1	0	0	0	0	0	0	0	1	9850	1277	45	2		2	MRRF	9	125054075	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	2978593	125054075	16159356	365	34361										
PBX3	5090	broad.mit.edu	37	chr9	128509835	128509835	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgcctcccccgcacggccacGaaggggcggacggcgacggc	16	18	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:128509835G>A	uc004bqb.2	+	1	219	c.103G>A	c.(103-105)GAA>AAA	p.E35K	PBX3_uc004bqc.2_5'UTR|PBX3_uc004bqd.2_5'UTR|PBX3_uc011lzw.1_5'Flank	NM_006195	NP_006186	P40426	PBX3_HUMAN	pre-B-cell leukemia homeobox 3 isoform 1	35					anterior compartment pattern formation|posterior compartment specification		sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						GCACGGCCACGAAGGGGCGGA	0.662													9	32	---	---	---	---	PASS	A	128509835	A	A	128509835	3	1	91	1	0	0	0	0	1	0	0	0	11494	1059	37	2	105	2	PBX3	9	128509835	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3455760	128509835	12703596	366	34362										
NUP188	23511	broad.mit.edu	37	chr9	131768572	131768572	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tacctgctcatctctcaggcGatgcggtaccttagggaccc	10	14	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:131768572G>A	uc004bws.1	+	43	5020	c.4998G>A	c.(4996-4998)GCG>GCA	p.A1666A		NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1666					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						TCTCTCAGGCGATGCGGTACC	0.572											OREG0019528	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	243	---	---	---	---	PASS	A	131768572	A	A	131768572	2	1	91	1	0	0	0	0	0	0	0	1	10758	1045	37	2		2	NUP188	9	131768572	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	3258737	131768572	9444859	367	34363										
COL5A1	1289	broad.mit.edu	37	chr9	137642704	137642704	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcagcccaggagtcccaggcGcaagccattctccagcaggc	11	16	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:137642704G>A	uc004cfe.2	+	13	2020	c.1638G>A	c.(1636-1638)GCG>GCA	p.A546A		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	546	Interrupted collagenous 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)		AGTCCCAGGCGCAAGCCATTC	0.632													8	21	---	---	---	---	PASS	A	137642704	A	A	137642704	2	1	91	1	0	0	0	0	0	0	0	1	3696	1074	38	1		1	COL5A1	9	137642704	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	5874132	137642704	3570727	368	34364										
QSOX2	169714	broad.mit.edu	37	chr9	139115921	139115921	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggttctgcaggaagtcaatCatcgtctgtctgactgttcg	11	9	5	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:139115921C>A	uc010nbi.2	-	4	554	c.516G>T	c.(514-516)ATG>ATT	p.M172I		NM_181701	NP_859052	Q6ZRP7	QSOX2_HUMAN	quiescin Q6 sulfhydryl oxidase 2 precursor	172	Thioredoxin.				cell redox homeostasis	extracellular region|integral to membrane|nuclear membrane|plasma membrane	thiol oxidase activity			ovary(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;7.78e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.55e-07)		GGAAGTCAATCATCGTCTGTC	0.617													20	101	---	---	---	---	PASS	A	139115921	A	A	139115921	3	1	91	1	0	0	0	0	1	0	0	0	12884	826	29	2	1616	2	QSOX2	9	139115921	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1473217	139115921	2097510	369	34365										
LCN8	138307	broad.mit.edu	37	chr9	139651029	139651029	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagcccacgatcttctctatCtcacagcttcctgagctgaa	7	14	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:139651029C>G	uc004cjb.1	-	3	520	c.171G>C	c.(169-171)GAG>GAC	p.E57D	LCN8_uc004cja.2_5'Flank|LCN8_uc004cjc.1_Missense_Mutation_p.E57D	NM_178469	NP_848564	Q6JVE9	LCN8_HUMAN	lipocalin 8	80					transport	extracellular region	binding			pancreas(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;5.56e-06)|Epithelial(140;8.32e-05)		TCTTCTCTATCTCACAGCTTC	0.547													18	121	---	---	---	---	PASS	G	139651029	G	G	139651029	3	3	91	1	0	0	0	0	1	0	0	0	8686	912	32	2	307	2	LCN8	9	139651029	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	535108	139651029	1562402	370	34366										
TPRN	286262	broad.mit.edu	37	chr9	140093946	140093946	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cacctaatagcccggtcagcGagggcggtggctgtcctggg	16	12	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:140093946G>T	uc004clt.2	-	1	1035	c.1035C>A	c.(1033-1035)CTC>CTA	p.L345L	TPRN_uc004clu.2_Silent_p.L345L	NM_173691	NP_775962	Q4KMQ1	TPRN_HUMAN	hypothetical protein LOC286262 isoform 2	406					sensory perception of sound	stereocilium					0						CCCGGTCAGCGAGGGCGGTGG	0.697													4	16	---	---	---	---	PASS	T	140093946	T	T	140093946	2	4	91	1	0	0	0	0	0	0	0	1	16418	1045	37	2		2	TPRN	9	140093946	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	442917	140093946	1119485	371	34367										
CACNA1B	774	broad.mit.edu	37	chr9	140967951	140967951	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctctgcagaacaatttcatCaacctcagcttcctccgcct	4	16	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:140967951C>G	uc004cog.2	+	32	4831	c.4686C>G	c.(4684-4686)ATC>ATG	p.I1562M	CACNA1B_uc004coi.2_Missense_Mutation_p.I774M|CACNA1B_uc004cok.1_5'Flank|CACNA1B_uc010ncp.1_5'Flank	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	1562	Extracellular (Potential).|IV.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	ACAATTTCATCAACCTCAGCT	0.567													10	141	---	---	---	---	PASS	G	140967951	G	G	140967951	3	3	91	1	0	0	0	0	1	0	0	0	2539	816	29	2	4812	2	CACNA1B	9	140967951	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	874005	140967951	245480	372	34368										
CACNA1B	774	broad.mit.edu	37	chr9	141010056	141010056	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggccaccctggagcagacacAgccggctgtgctccgaggag	15	14	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr9:141010056A>C	uc004cog.2	+	41	5847	c.5702A>C	c.(5701-5703)CAG>CCG	p.Q1901P	CACNA1B_uc004coi.2_Missense_Mutation_p.Q1113P	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	1901	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	GAGCAGACACAGCCGGCTGTG	0.587													49	109	---	---	---	---	PASS	C	141010056	C	C	141010056	3	2	91	1	0	0	0	0	1	0	0	0	2539	188	7	5	5864	5	CACNA1B	9	141010056	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	42105	141010056	203375	373	34369										
ANKRD16	54522	broad.mit.edu	37	chr10	5929903	5929903	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctggaggatcagagggtcgcCttctcgactggcaatgtgga	15	9	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:5929903C>T	uc010qat.1	-	2	985	c.442G>A	c.(442-444)GGC>AGC	p.G148S	ANKRD16_uc009xie.2_Missense_Mutation_p.G148S|ANKRD16_uc009xif.2_Missense_Mutation_p.G148S|ANKRD16_uc001iiq.2_Missense_Mutation_p.G148S|FBXO18_uc001iir.2_5'Flank|FBXO18_uc001iis.2_5'Flank|FBXO18_uc009xig.2_5'Flank	NM_019046	NP_061919	Q6P6B7	ANR16_HUMAN	ankyrin repeat domain 16 isoform a	148	ANK 4.										0						AGAGGGTCGCCTTCTCGACTG	0.537													11	69	---	---	---	---	PASS	T	5929903	T	T	5929903	3	4	91	1	0	0	0	0	1	0	0	0	645	681	24	3	667	3	ANKRD16	10	5929903	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08		5929903	129604844	374	34370										
RBM17	84991	broad.mit.edu	37	chr10	6155486	6155486	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tacagatgcatccaagaagtCagattcaaatccgctgactg	8	10	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:6155486C>G	uc001ijb.2	+	9	1098	c.872C>G	c.(871-873)TCA>TGA	p.S291*	RBM17_uc010qav.1_Nonsense_Mutation_p.S291*|RBM17_uc001ijc.2_5'Flank	NM_032905	NP_116294	Q96I25	SPF45_HUMAN	RNA binding motif protein 17	291					mRNA processing|RNA splicing	spliceosomal complex	nucleotide binding|protein binding|RNA binding				0						TCCAAGAAGTCAGATTCAAAT	0.393													18	137	---	---	---	---	PASS	G	6155486	G	G	6155486	4	3	91	1	0	0	0	0	0	1	0	0	13119	838	29	2	902	2	RBM17	10	6155486	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	225583	6155486	129379261	375	34371										
ITIH2	3698	broad.mit.edu	37	chr10	7762923	7762923	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtcatttctaaaggacaacaGaaggtaccctgagccctgtg	10	10	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:7762923G>A	uc001ijs.2	+	7	897	c.735G>A	c.(733-735)CAG>CAA	p.Q245Q		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	245					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						AAGGACAACAGAAGGTACCCT	0.502													11	67	---	---	---	---	PASS	A	7762923	A	A	7762923	2	1	91	1	0	0	0	0	0	0	0	1	7904	933	33	2		2	ITIH2	10	7762923	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1607437	7762923	127771824	376	34372										
ANKRD26	22852	broad.mit.edu	37	chr10	27368049	27368049	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aattgaggtcttcgtcatctGaggtaggccatgaatcatca	10	8	5	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:27368049G>T	uc001ith.2	-	7	954	c.782C>A	c.(781-783)TCA>TAA	p.S261*	ANKRD26_uc001itg.2_5'UTR|ANKRD26_uc009xku.1_Nonsense_Mutation_p.S261*	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	261						centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TTCGTCATCTGAGGTAGGCCA	0.318													11	100	---	---	---	---	PASS	T	27368049	T	T	27368049	4	4	91	1	0	0	0	0	0	1	0	0	654	1294	45	2	4462	2	ANKRD26	10	27368049	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	19605126	27368049	108166698	377	34373										
KIAA1462	57608	broad.mit.edu	37	chr10	30318354	30318354	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atgggaatttccgtgcaactCaggctctcgggggaaagaac	13	9	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:30318354C>T	uc001iux.2	-	2	782	c.723G>A	c.(721-723)CTG>CTA	p.L241L	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Silent_p.L103L|KIAA1462_uc009xle.1_Silent_p.L241L	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	241										ovary(4)	4						CCGTGCAACTCAGGCTCTCGG	0.453													31	119	---	---	---	---	PASS	T	30318354	T	T	30318354	2	4	91	1	0	0	0	0	0	0	0	1	8234	813	29	2		2	KIAA1462	10	30318354	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	2950305	30318354	105216393	378	34374										
SLC18A3	6572	broad.mit.edu	37	chr10	50820179	50820179	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccaacctgctctatgctcccGtcttgctgctgctccgcaac	7	18	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:50820179G>T	uc001jhw.2	+	1	1833	c.1393G>T	c.(1393-1395)GTC>TTC	p.V465F	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	465	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CTATGCTCCCGTCTTGCTGCT	0.642													32	38	---	---	---	---	PASS	T	50820179	T	T	50820179	3	4	91	1	0	0	0	0	1	0	0	0	14427	1145	40	1	1395	1	SLC18A3	10	50820179	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	20501825	50820179	84714568	379	34375										
TFAM	7019	broad.mit.edu	37	chr10	60154126	60154126	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	attgttttacaggaaaagctGaagactgtaaaggaaaactg	10	4	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:60154126G>A	uc001jkf.2	+	6	678	c.546G>A	c.(544-546)CTG>CTA	p.L182L	TFAM_uc001jkg.2_RNA|TFAM_uc001jkh.2_Silent_p.L150L	NM_003201	NP_003192	Q00059	TFAM_HUMAN	transcription factor A, mitochondrial precursor	182	HMG box 2.				DNA-dependent DNA replication|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase I promoter|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	mitochondrial light strand promoter sense binding|protein binding|sequence-specific DNA binding transcription factor activity				0						AGGAAAAGCTGAAGACTGTAA	0.348													11	136	---	---	---	---	PASS	A	60154126	A	A	60154126	2	1	91	1	0	0	0	0	0	0	0	1	15783	1277	45	2		2	TFAM	10	60154126	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	9333947	60154126	75380621	380	34376										
ARID5B	84159	broad.mit.edu	37	chr10	63851828	63851828	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagggaatcggaaaacagttCttttccttcccacagacacc	7	13	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:63851828C>G	uc001jlt.1	+	10	2632	c.2606C>G	c.(2605-2607)TCT>TGT	p.S869C		NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	869					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					GAAAACAGTTCTTTTCCTTCC	0.483													21	133	---	---	---	---	PASS	G	63851828	G	G	63851828	3	3	91	1	0	0	0	0	1	0	0	0	922	913	32	2	2644	2	ARID5B	10	63851828	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3697702	63851828	71682919	381	34377										
HK1	3098	broad.mit.edu	37	chr10	71158397	71158397	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggctatcctccagcagctaGgtctgaatagcacctgcgat	11	12	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:71158397G>T	uc001jpl.3	+	17	2523	c.2422G>T	c.(2422-2424)GGT>TGT	p.G808C	HK1_uc001jpg.3_Missense_Mutation_p.G796C|HK1_uc001jph.3_Missense_Mutation_p.G812C|HK1_uc001jpi.3_Missense_Mutation_p.G812C|HK1_uc001jpj.3_Missense_Mutation_p.G843C|HK1_uc001jpk.3_Missense_Mutation_p.G807C	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	808	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						CCAGCAGCTAGGTCTGAATAG	0.617													16	27	---	---	---	---	PASS	T	71158397	T	T	71158397	3	4	91	1	0	0	0	0	1	0	0	0	7190	1000	35	3	2666	3	HK1	10	71158397	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7306569	71158397	64376350	382	34378										
ADAMTS14	140766	broad.mit.edu	37	chr10	72503414	72503414	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gctaccgggacccatacagcGtctgtgcgcgtggcgagtgt	15	12	1	0	rs149001845		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:72503414G>A	uc001jrh.2	+	13	2035	c.2035G>A	c.(2035-2037)GTC>ATC	p.V679I	ADAMTS14_uc001jrg.2_Missense_Mutation_p.V682I|ADAMTS14_uc001jri.1_Missense_Mutation_p.V202I	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	679	Cys-rich.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding	p.V682I(1)		ovary(5)|upper_aerodigestive_tract(1)	6						CCCATACAGCGTCTGTGCGCG	0.657													4	31	---	---	---	---	PASS	A	72503414	A	A	72503414	3	1	91	1	0	0	0	0	1	0	0	0	259	1145	40	1	2094	1	ADAMTS14	10	72503414	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1345017	72503414	63031333	383	34379										
NUDT13	25961	broad.mit.edu	37	chr10	74879866	74879866	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tttcatagtctggctcctctGcttcagacttcagcacatca	6	13	6	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:74879866G>A	uc001jtj.2	+	3	299	c.174G>A	c.(172-174)CTG>CTA	p.L58L	NUDT13_uc010qkc.1_5'UTR|NUDT13_uc010qkd.1_5'UTR|NUDT13_uc009xqw.2_RNA|NUDT13_uc001jtk.2_Silent_p.L58L|NUDT13_uc010qke.1_5'UTR|NUDT13_uc001jtl.2_Silent_p.L58L	NM_015901	NP_056985	Q86X67	NUD13_HUMAN	nudix-type motif 13	58							hydrolase activity|metal ion binding				0	Prostate(51;0.0119)					TGGCTCCTCTGCTTCAGACTT	0.498													19	70	---	---	---	---	PASS	A	74879866	A	A	74879866	2	1	91	1	0	0	0	0	0	0	0	1	10729	1306	46	3		3	NUDT13	10	74879866	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	2376452	74879866	60654881	384	34380										
TCTN3	26123	broad.mit.edu	37	chr10	97444366	97444366	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tccaaaagtcccattggtctCtatctcataggtgacctgaa	7	11	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:97444366C>G	uc001klb.3	-	9	1229	c.985G>C	c.(985-987)GAG>CAG	p.E329Q	TCTN3_uc001kla.3_Missense_Mutation_p.E178Q|TCTN3_uc010qoi.1_Intron|TCTN3_uc001kld.2_Missense_Mutation_p.E347Q|TCTN3_uc009xux.1_Missense_Mutation_p.E151Q|TCTN3_uc009xuy.1_RNA	NM_015631	NP_056446	Q6NUS6	TECT3_HUMAN	tectonic 3 isoform a precursor	329	Extracellular (Potential).				apoptosis	integral to membrane					0		Colorectal(252;0.0815)		Epithelial(162;1.69e-07)|all cancers(201;5.63e-06)		CCATTGGTCTCTATCTCATAG	0.408													8	69	---	---	---	---	PASS	G	97444366	G	G	97444366	3	3	91	1	0	0	0	0	1	0	0	0	15721	922	32	2	862	2	TCTN3	10	97444366	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	22564500	97444366	38090381	385	34381										
CCNJ	54619	broad.mit.edu	37	chr10	97817990	97817990	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cttgtattactccatgttttGaaaggtgattatttgtgaag	9	4	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:97817990G>C	uc001klm.2	+	6	1470	c.1111G>C	c.(1111-1113)GAA>CAA	p.E371Q	uc001klg.1_Intron|uc001klj.1_Intron|uc009xvb.1_Intron|CCNJ_uc010qoq.1_Missense_Mutation_p.E382Q|CCNJ_uc001kln.2_Missense_Mutation_p.E370Q	NM_019084	NP_061957	Q5T5M9	CCNJ_HUMAN	cyclin J isoform 2	371						nucleus				ovary(1)	1				Epithelial(162;6.1e-08)|all cancers(201;2.32e-06)		TCCATGTTTTGAAAGGTGATT	0.398													8	100	---	---	---	---	PASS	C	97817990	C	C	97817990	3	2	91	1	0	0	0	0	1	0	0	0	2928	1291	45	2	1162	2	CCNJ	10	97817990	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	373624	97817990	37716757	386	34382										
PIK3AP1	118788	broad.mit.edu	37	chr10	98411116	98411116	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tttatcaagggtctctgtgtTgtagggcacaattttaaagg	11	5	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:98411116T>A	uc001kmq.2	-	6	1005	c.877A>T	c.(877-879)AAC>TAC	p.N293Y	PIK3AP1_uc001kmp.2_Missense_Mutation_p.N115Y	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	293	DBB.					cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		GTCTCTGTGTTGTAGGGCACA	0.448													7	84	---	---	---	---	PASS	A	98411116	A	A	98411116	3	1	91	1	0	0	0	0	1	0	0	0	11908	1812	63	5	1588	5	PIK3AP1	10	98411116	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	593126	98411116	37123631	387	34383										
PAX2	5076	broad.mit.edu	37	chr10	102566224	102566224	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtccccaatggagattcccaGagtggtgtggacagtttgcg	14	9	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:102566224G>C	uc001krk.3	+	7	1273	c.723G>C	c.(721-723)CAG>CAC	p.Q241H	PAX2_uc001krl.3_Missense_Mutation_p.Q218H|PAX2_uc001krm.3_Missense_Mutation_p.Q241H|PAX2_uc001kro.3_Missense_Mutation_p.Q218H|PAX2_uc001krn.3_Missense_Mutation_p.Q218H|PAX2_uc010qps.1_Missense_Mutation_p.Q217H|PAX2_uc001krp.1_Missense_Mutation_p.Q214H	NM_003990	NP_003981	Q02962	PAX2_HUMAN	paired box protein 2 isoform e	241					anti-apoptosis|axonogenesis|brain morphogenesis|branching involved in ureteric bud morphogenesis|cell fate determination|cellular response to glucose stimulus|cellular response to hydrogen peroxide|cellular response to retinoic acid|cochlea development|glial cell differentiation|inner ear morphogenesis|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesodermal cell fate specification|mesonephros development|metanephric collecting duct development|metanephric distal convoluted tubule development|metanephric mesenchymal cell differentiation|metanephric nephron tubule formation|negative regulation of caspase activity|negative regulation of cytolysis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|negative regulation of reactive oxygen species metabolic process|negative regulation of transcription, DNA-dependent|nephric duct formation|neural tube closure|optic chiasma development|optic cup morphogenesis involved in camera-type eye development|optic nerve structural organization|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of metanephric glomerulus development|positive regulation of optic nerve formation|positive regulation of transcription from RNA polymerase II promoter|pronephric field specification|protein kinase B signaling cascade|reactive oxygen species metabolic process|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of metanephros size|retinal pigment epithelium development|stem cell differentiation|transcription from RNA polymerase II promoter|ureter maturation|vestibulocochlear nerve formation|visual perception	centriolar satellite|nucleus|protein complex|protein-DNA complex	core promoter proximal region sequence-specific DNA binding|superoxide-generating NADPH oxidase activity				0		Colorectal(252;0.234)		Epithelial(162;1.32e-08)|all cancers(201;7.32e-07)		GAGATTCCCAGAGTGGTGTGG	0.582													90	153	---	---	---	---	PASS	C	102566224	C	C	102566224	3	2	91	1	0	0	0	0	1	0	0	0	11479	933	33	2	749	2	PAX2	10	102566224	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4155108	102566224	32968523	388	34384										
SUFU	51684	broad.mit.edu	37	chr10	104353392	104353392	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gctttctatcctgggcctcaGatcgttggtgtctgcactga	11	11	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:104353392G>C	uc001kvy.1	+	5	744	c.598_splice	c.e5-1	p.I200_splice	SUFU_uc001kvw.1_Splice_Site_p.I200_splice|SUFU_uc001kvx.2_Splice_Site_p.I200_splice	NM_016169	NP_057253	Q9UMX1	SUFU_HUMAN	suppressor of fused						negative regulation of transcription from RNA polymerase II promoter|proteolysis|skeletal system development	cytoplasm|nucleus	identical protein binding|protein binding|signal transducer activity|transcription corepressor activity|transcription factor binding			central_nervous_system(4)|skin(2)|breast(1)	7		Colorectal(252;0.207)		Epithelial(162;1.36e-08)|all cancers(201;3.81e-07)|BRCA - Breast invasive adenocarcinoma(275;0.242)		CTGGGCCTCAGATCGTTGGTG	0.587			D|F|S		medulloblastoma	medulloblastoma			Medulloblastoma_associated_with_Germline_SUFU_Mutation				16	72	---	---	---	---	PASS	C	104353392	C	C	104353392	5	2	91	1	0	0	0	0	0	0	1	0	15367	956	33	2	615	2	SUFU	10	104353392	Splice_Site	SNP	G	TCGA-39-5031-01A-01D-1441-08	1787168	104353392	31181355	389	34385										
PNLIPRP2	5408	broad.mit.edu	37	chr10	118383557	118383557	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tacttccctggtcccccgagGacattgacacccgctttctt	7	16	1	1	rs62623669	by1000genomes	TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:118383557G>T	uc001lcq.2	+	5	177	c.154G>T	c.(154-156)GAC>TAC	p.D52Y	PNLIPRP2_uc009xyu.1_RNA|PNLIPRP2_uc009xyv.1_RNA	NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2	51					galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		GTCCCCCGAGGACATTGACAC	0.488													65	74	---	---	---	---	PASS	T	118383557	T	T	118383557	3	4	91	1	0	0	0	0	1	0	0	0	12151	1165	41	2	163	2	PNLIPRP2	10	118383557	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	14030165	118383557	17151190	390	34386										
FANK1	92565	broad.mit.edu	37	chr10	127693514	127693514	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aatatctccgaagacatggcGcttcttggcaggctagagac	11	10	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:127693514G>T	uc001ljh.3	+	7	705	c.601G>T	c.(601-603)GCT>TCT	p.A201S	FANK1_uc009yan.2_Missense_Mutation_p.A227S|FANK1_uc001lji.2_Missense_Mutation_p.A195S	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains	201	ANK 3.					cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)				AAGACATGGCGCTTCTTGGCA	0.517													80	94	---	---	---	---	PASS	T	127693514	T	T	127693514	3	4	91	1	0	0	0	0	1	0	0	0	5672	1087	38	1	627	1	FANK1	10	127693514	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	9309957	127693514	7841233	391	34387										
MKI67	4288	broad.mit.edu	37	chr10	129903801	129903801	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggtggtggagatttgcaggcTattttggtagttttgtcatc	14	4	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr10:129903801T>A	uc001lke.2	-	13	6498	c.6303A>T	c.(6301-6303)ATA>ATT	p.I2101I	MKI67_uc001lkf.2_Silent_p.I1741I|MKI67_uc009yav.1_Silent_p.I1676I|MKI67_uc009yaw.1_Silent_p.I1251I	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2101	16 X 122 AA approximate repeats.|10.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				ATTTGCAGGCTATTTTGGTAG	0.488													241	259	---	---	---	---	PASS	A	129903801	A	A	129903801	2	1	91	1	0	0	0	0	0	0	0	1	9598	1512	53	5		5	MKI67	10	129903801	Silent	SNP	T	TCGA-39-5031-01A-01D-1441-08	2210287	129903801	5630946	392	34388										
NUP98	4928	broad.mit.edu	37	chr11	3735181	3735181	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctttattaaacaacgagatGttttatctgttggccaaact	6	7	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:3735181G>A	uc001lyh.2	-	19	2735	c.2444C>T	c.(2443-2445)ACA>ATA	p.T815I	NUP98_uc001lyi.2_Missense_Mutation_p.T815I|NUP98_uc001lyj.1_Missense_Mutation_p.T815I|NUP98_uc001lyk.1_Missense_Mutation_p.T832I	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	832	Peptidase S59.				carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		ACAACGAGATGTTTTATCTGT	0.363			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								15	90	---	---	---	---	PASS	A	3735181	A	A	3735181	3	1	91	1	0	0	0	0	1	0	0	0	10773	1377	48	3	3039	3	NUP98	11	3735181	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08		3735181	131271335	393	34389										
OR52B2	255725	broad.mit.edu	37	chr11	6190633	6190633	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caagtcttgatgtcaaagaaCcggtgggctacaccctcacg	10	12	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:6190633C>A	uc010qzy.1	-	1	924	c.924G>T	c.(922-924)CGG>CGT	p.R308R		NM_001004052	NP_001004052	Q96RD2	O52B2_HUMAN	olfactory receptor, family 52, subfamily B,	308	Cytoplasmic (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;3.69e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGTCAAAGAACCGGTGGGCTA	0.478													26	68	---	---	---	---	PASS	A	6190633	A	A	6190633	2	1	91	1	0	0	0	0	0	0	0	1	11111	494	18	3		3	OR52B2	11	6190633	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	2455452	6190633	128815883	394	34390										
PTH	5741	broad.mit.edu	37	chr11	13514120	13514120	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcaacaaaattgtgcacatcCtgcagcttcttacgcagcca	7	13	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:13514120C>T	uc001mlb.2	-	3	295	c.180G>A	c.(178-180)CAG>CAA	p.Q60Q		NM_000315	NP_000306	P01270	PTHY_HUMAN	parathyroid hormone preproprotein	60	Important for receptor binding.				bone resorption|cAMP metabolic process|cell-cell signaling|cellular calcium ion homeostasis|cellular macromolecule biosynthetic process|induction of apoptosis by hormones|positive regulation of cAMP biosynthetic process|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|skeletal system development		hormone activity|peptide hormone receptor binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(625;0.00116)|Epithelial(150;0.0357)|LUSC - Lung squamous cell carcinoma(625;0.0836)		TGTGCACATCCTGCAGCTTCT	0.488													14	78	---	---	---	---	PASS	T	13514120	T	T	13514120	2	4	91	1	0	0	0	0	0	0	0	1	12757	680	24	3		3	PTH	11	13514120	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	7323487	13514120	121492396	395	34391										
PDE3B	5140	broad.mit.edu	37	chr11	14880628	14880628	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gatctgttctggaaaatcatCatgctgcgtcagcttggaat	10	8	5	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:14880628C>T	uc001mln.2	+	13	2913	c.2560C>T	c.(2560-2562)CAT>TAT	p.H854Y	PDE3B_uc010rcr.1_Missense_Mutation_p.H803Y	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	854	Catalytic (By similarity).				cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						GGAAAATCATCATGCTGCGTC	0.343													20	109	---	---	---	---	PASS	T	14880628	T	T	14880628	3	4	91	1	0	0	0	0	1	0	0	0	11638	826	29	2	2610	2	PDE3B	11	14880628	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1366508	14880628	120125888	396	34392										
HPS5	11234	broad.mit.edu	37	chr11	18301471	18301471	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaccgatcgcatttttcaagCatgctttgtatcaaggccct	7	11	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:18301471C>A	uc001mod.1	-	23	3626	c.3348G>T	c.(3346-3348)ATG>ATT	p.M1116I	HPS5_uc001moe.1_Missense_Mutation_p.M1002I|HPS5_uc001mof.1_Missense_Mutation_p.M1002I	NM_181507	NP_852608	Q9UPZ3	HPS5_HUMAN	Hermansky-Pudlak syndrome 5 isoform a	1116						cytosol				ovary(1)|pancreas(1)|skin(1)	3						ATTTTTCAAGCATGCTTTGTA	0.393									Hermansky-Pudlak_syndrome				23	33	---	---	---	---	PASS	A	18301471	A	A	18301471	3	1	91	1	0	0	0	0	1	0	0	0	7342	710	25	3	45	3	HPS5	11	18301471	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3420843	18301471	116705045	397	34393										
TMEM86A	144110	broad.mit.edu	37	chr11	18723292	18723292	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtgggggtctatgtggccctTatcggcttcatgggctggcg	17	9	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:18723292T>G	uc001moz.1	+	3	542	c.459T>G	c.(457-459)CTT>CTG	p.L153L		NM_153347	NP_699178	Q8N2M4	TM86A_HUMAN	transmembrane protein 86A	153	Helical; (Potential).					integral to membrane				ovary(1)	1						ATGTGGCCCTTATCGGCTTCA	0.637													13	41	---	---	---	---	PASS	G	18723292	G	G	18723292	2	3	91	1	0	0	0	0	0	0	0	1	16205	1741	61	5		5	TMEM86A	11	18723292	Silent	SNP	T	TCGA-39-5031-01A-01D-1441-08	421821	18723292	116283224	398	34394										
PRRG4	79056	broad.mit.edu	37	chr11	32874918	32874918	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctgaggaggctgccttgtctCcattgccgccttctgtggag	13	12	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:32874918C>G	uc001mtx.2	+	6	779	c.526C>G	c.(526-528)CCA>GCA	p.P176A		NM_024081	NP_076986	Q9BZD6	TMG4_HUMAN	proline rich Gla (G-carboxyglutamic acid) 4	176	Cytoplasmic (Potential).					extracellular region|Golgi apparatus|integral to membrane	calcium ion binding				0	Breast(20;0.206)					TGCCTTGTCTCCATTGCCGCC	0.517													15	93	---	---	---	---	PASS	G	32874918	G	G	32874918	3	3	91	1	0	0	0	0	1	0	0	0	12608	855	30	2	544	2	PRRG4	11	32874918	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	14151626	32874918	102131598	399	34395										
OR5F1	338674	broad.mit.edu	37	chr11	55761778	55761778	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aagaggatgcattcggttgtCgccagggagataaagaagta	14	5	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:55761778C>T	uc010riv.1	-	1	324	c.324G>A	c.(322-324)GCG>GCA	p.A108A		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					ATTCGGTTGTCGCCAGGGAGA	0.483													20	170	---	---	---	---	PASS	T	55761778	T	T	55761778	2	4	91	1	0	0	0	0	0	0	0	1	11158	871	31	2		2	OR5F1	11	55761778	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	22886860	55761778	79244738	400	34396										
OR5AS1	219447	broad.mit.edu	37	chr11	55798745	55798745	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttatactgttgtatttcccaTgtttaatccaataatttata	3	6	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:55798745T>A	uc010riw.1	+	1	851	c.851T>A	c.(850-852)ATG>AAG	p.M284K		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					GTATTTCCCATGTTTAATCCA	0.343													24	86	---	---	---	---	PASS	A	55798745	A	A	55798745	3	1	91	1	0	0	0	0	1	0	0	0	11146	1464	51	5	853	5	OR5AS1	11	55798745	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	36967	55798745	79207771	401	34397										
TNKS1BP1	85456	broad.mit.edu	37	chr11	57077747	57077747	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctgtgagcacccctggggcaGacactttactctggtcttgg	12	12	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:57077747G>C	uc001njr.2	-	5	2750	c.2438C>G	c.(2437-2439)TCT>TGT	p.S813C	TNKS1BP1_uc001njs.2_Missense_Mutation_p.S813C|TNKS1BP1_uc009ymd.1_Missense_Mutation_p.S264C	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	813	Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				CCCTGGGGCAGACACTTTACT	0.637													45	289	---	---	---	---	PASS	C	57077747	C	C	57077747	3	2	91	1	0	0	0	0	1	0	0	0	16317	942	33	2	2775	2	TNKS1BP1	11	57077747	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1279002	57077747	77928769	402	34398										
SLC43A3	29015	broad.mit.edu	37	chr11	57182517	57182517	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caccaggtgccaggcaaagcGccgagagaaagcgtagctcc	13	13	0	1	rs151251549		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:57182517G>A	uc001nkg.2	-	10	1242	c.832C>T	c.(832-834)CGC>TGC	p.R278C	PRG2_uc001nke.2_Missense_Mutation_p.R177C|SLC43A3_uc001nkh.2_Missense_Mutation_p.R278C|SLC43A3_uc010rjr.1_Missense_Mutation_p.R291C|SLC43A3_uc009yme.2_Missense_Mutation_p.R278C|SLC43A3_uc001nki.2_Missense_Mutation_p.R278C|SLC43A3_uc009ymf.1_Missense_Mutation_p.R278C	NM_014096	NP_054815	Q8NBI5	S43A3_HUMAN	solute carrier family 43, member 3	278					transmembrane transport	integral to membrane				central_nervous_system(1)	1						CAGGCAAAGCGCCGAGAGAAA	0.582													18	196	---	---	---	---	PASS	A	57182517	A	A	57182517	3	1	91	1	0	0	0	0	1	0	0	0	14634	1087	38	1	663	1	SLC43A3	11	57182517	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	104770	57182517	77823999	403	34399										
OR5B3	441608	broad.mit.edu	37	chr11	58170611	58170611	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagcagcacatgcattgtaaGagatgaccttgtcttctata	9	8	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:58170611G>C	uc010rkf.1	-	1	272	c.272C>G	c.(271-273)TCT>TGT	p.S91C		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TGCATTGTAAGAGATGACCTT	0.433													16	183	---	---	---	---	PASS	C	58170611	C	C	58170611	3	2	91	1	0	0	0	0	1	0	0	0	11152	942	33	2	674	2	OR5B3	11	58170611	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	988094	58170611	76835905	404	34400										
GLYATL1	92292	broad.mit.edu	37	chr11	58723411	58723411	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggaagaaaatgaagactccCgcagatttgtggggcagttt	13	6	0	4	rs140092025		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:58723411C>A	uc001nnf.2	+	8	1196	c.820C>A	c.(820-822)CGC>AGC	p.R274S	uc001nng.1_Intron|GLYATL1_uc001nnh.1_Missense_Mutation_p.R305S|GLYATL1_uc001nni.1_Missense_Mutation_p.R274S|GLYATL1_uc001nnj.1_Missense_Mutation_p.R274S			Q969I3	GLYL1_HUMAN	SubName: Full=Glycine acyltransferase family-C; SubName: Full=Glycine-N-acyltransferase-like 1, isoform CRA_a;	274						mitochondrion	glycine N-acyltransferase activity			ovary(1)	1					Glycine(DB00145)	TGAAGACTCCCGCAGATTTGT	0.448													84	97	---	---	---	---	PASS	A	58723411	A	A	58723411	3	1	91	1	0	0	0	0	1	0	0	0	6480	652	23	1	939	1	GLYATL1	11	58723411	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	552800	58723411	76283105	405	34401										
OR4D9	390199	broad.mit.edu	37	chr11	59282956	59282956	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcctcaaacttgcctgcactGacaccttcactctggagctc	6	16	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:59282956G>C	uc010rkv.1	+	1	571	c.571G>C	c.(571-573)GAC>CAC	p.D191H		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGCCTGCACTGACACCTTCAC	0.453													23	268	---	---	---	---	PASS	C	59282956	C	C	59282956	3	2	91	1	0	0	0	0	1	0	0	0	11059	1290	45	2	573	2	OR4D9	11	59282956	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	559545	59282956	75723560	406	34402										
CCDC86	79080	broad.mit.edu	37	chr11	60617696	60617696	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagatccgaaaccccgccaaGctcaagcgggcaaagaagaa	10	13	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:60617696G>C	uc001nqa.2	+	4	1150	c.981G>C	c.(979-981)AAG>AAC	p.K327N	CCDC86_uc001nqb.2_Missense_Mutation_p.K71N	NM_024098	NP_077003	Q9H6F5	CCD86_HUMAN	coiled-coil domain containing 86	327					interspecies interaction between organisms	nucleus					0						ACCCCGCCAAGCTCAAGCGGG	0.637													25	107	---	---	---	---	PASS	C	60617696	C	C	60617696	3	2	91	1	0	0	0	0	1	0	0	0	2861	962	34	4	995	4	CCDC86	11	60617696	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1334740	60617696	74388820	407	34403										
AHNAK	79026	broad.mit.edu	37	chr11	62298072	62298072	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggcaggttcacatccacttCtcggccctctcctttgaagc	9	15	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:62298072C>T	uc001ntl.2	-	5	4117	c.3817G>A	c.(3817-3819)GAA>AAA	p.E1273K	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1273					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				ACATCCACTTCTCGGCCCTCT	0.547													117	361	---	---	---	---	PASS	T	62298072	T	T	62298072	3	4	91	1	0	0	0	0	1	0	0	0	414	922	32	2	13975	2	AHNAK	11	62298072	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1680376	62298072	72708444	408	34404										
SLC22A10	387775	broad.mit.edu	37	chr11	63064845	63064845	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctgacacctgcgctgccttcGctcccaccttccctgtttac	6	19	0	1	rs113851643		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:63064845G>T	uc009yor.2	+	3	785	c.577G>T	c.(577-579)GCT>TCT	p.A193S	SLC22A10_uc010rmo.1_RNA|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_Intron	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	193	Cytoplasmic (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						CGCTGCCTTCGCTCCCACCTT	0.428													51	202	---	---	---	---	PASS	T	63064845	T	T	63064845	3	4	91	1	0	0	0	0	1	0	0	0	14441	1087	38	1	587	1	SLC22A10	11	63064845	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	766773	63064845	71941671	409	34405										
FERMT3	83706	broad.mit.edu	37	chr11	63987220	63987220	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtcctcccataggacagcctCaccaccatcccagagctcaa	6	18	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:63987220C>A	uc001nyl.2	+	9	1187	c.1038C>A	c.(1036-1038)CTC>CTA	p.L346L	FERMT3_uc001nym.2_Silent_p.L346L	NM_178443	NP_848537	Q86UX7	URP2_HUMAN	fermitin family homolog 3 long form	346	FERM.				integrin activation|leukocyte cell-cell adhesion|platelet aggregation|regulation of cell-cell adhesion mediated by integrin	cell junction|cell projection|podosome	integrin binding			ovary(1)	1						AGGACAGCCTCACCACCATCC	0.622													24	241	---	---	---	---	PASS	A	63987220	A	A	63987220	2	1	91	1	0	0	0	0	0	0	0	1	5819	813	29	2		2	FERMT3	11	63987220	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	922375	63987220	71019296	410	34406										
NUDT22	84304	broad.mit.edu	37	chr11	63997459	63997459	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccagccctactcccgccgctCtgaaaataataaacgacttt	5	15	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:63997459C>T	uc001nyp.3	+	6	1089	c.909C>T	c.(907-909)CTC>CTT	p.L303L	NUDT22_uc009ype.2_Silent_p.L303L|NUDT22_uc001nyq.3_Silent_p.L270L|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	303							hydrolase activity				0						TCCCGCCGCTCTGAAAATAAT	0.547													9	91	---	---	---	---	PASS	T	63997459	T	T	63997459	2	4	91	1	0	0	0	0	0	0	0	1	10739	900	32	2		2	NUDT22	11	63997459	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	10239	63997459	71009057	411	34407										
SF1	7536	broad.mit.edu	37	chr11	64544043	64544043	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	attcctggaatcactgtcttCtgttccattgtgtcttggtt	8	9	4	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:64544043C>T	uc001obb.1	-	2	464	c.87G>A	c.(85-87)CAG>CAA	p.Q29Q	SF1_uc010rnn.1_Silent_p.Q3Q|SF1_uc001oaz.1_Silent_p.Q154Q|SF1_uc001oba.1_Silent_p.Q29Q|SF1_uc001obc.1_Silent_p.Q29Q|SF1_uc001obd.1_Silent_p.Q29Q|SF1_uc001obe.1_5'UTR|SF1_uc010rno.1_5'UTR|SF1_uc001obf.2_Silent_p.Q29Q	NM_004630	NP_004621	Q15637	SF01_HUMAN	splicing factor 1 isoform 1	29					nuclear mRNA 3'-splice site recognition|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ribosome|spliceosomal complex	protein binding|RNA binding|transcription corepressor activity|zinc ion binding			ovary(1)|breast(1)|skin(1)	3						TCACTGTCTTCTGTTCCATTG	0.428													12	164	---	---	---	---	PASS	T	64544043	T	T	64544043	2	4	91	1	0	0	0	0	0	0	0	1	14145	912	32	2		2	SF1	11	64544043	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	546584	64544043	70462473	412	34408										
MAP4K2	5871	broad.mit.edu	37	chr11	64557882	64557882	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcacgttcaaagctgactagGattgtgtccctgtccacctg	9	12	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:64557882G>A	uc001obh.2	-	28	2237	c.2145C>T	c.(2143-2145)ATC>ATT	p.I715I	MAP4K2_uc001obg.2_RNA|MAP4K2_uc001obi.2_Silent_p.I707I	NM_004579	NP_004570	Q12851	M4K2_HUMAN	mitogen-activated protein kinase kinase kinase	715	CNH.				activation of JUN kinase activity|immune response|positive regulation of JNK cascade|vesicle targeting	basolateral plasma membrane|Golgi membrane|soluble fraction	ATP binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(1)|pancreas(1)	2						AGCTGACTAGGATTGTGTCCC	0.632													17	143	---	---	---	---	PASS	A	64557882	A	A	64557882	2	1	91	1	0	0	0	0	0	0	0	1	9260	1164	41	2		2	MAP4K2	11	64557882	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	13839	64557882	70448634	413	34409										
ATG2A	23130	broad.mit.edu	37	chr11	64664301	64664301	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcggatgtcctgcagccactCgttgagggcatagcccagca	13	13	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:64664301C>A	uc001obx.2	-	38	5306	c.5191G>T	c.(5191-5193)GAG>TAG	p.E1731*	ATG2A_uc001obw.2_Nonsense_Mutation_p.E496*	NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1731							protein binding			ovary(1)|central_nervous_system(1)	2						TGCAGCCACTCGTTGAGGGCA	0.632											OREG0004026	type=REGULATORY REGION|Gene=BC027481|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	4	29	---	---	---	---	PASS	A	64664301	A	A	64664301	4	1	91	1	0	0	0	0	0	1	0	0	1093	893	31	2	641	2	ATG2A	11	64664301	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	106419	64664301	70342215	414	34410										
SNX15	29907	broad.mit.edu	37	chr11	64803125	64803125	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cttgccctcttcgaccccttCtccaaggaaggtaatgagct	8	14	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:64803125C>G	uc001oci.3	+	9	1307	c.654C>G	c.(652-654)TTC>TTG	p.F218L	SNX15_uc009ypy.2_Missense_Mutation_p.F218L|SNX15_uc001ocj.2_Missense_Mutation_p.F218L|SNX15_uc001ock.2_Missense_Mutation_p.F218L	NM_013306	NP_037438	Q9NRS6	SNX15_HUMAN	sorting nexin 15 isoform A	218					cell communication|intracellular protein transport	cytoplasmic vesicle membrane|cytosol	phosphatidylinositol binding|protein transporter activity			ovary(1)	1						TCGACCCCTTCTCCAAGGAAG	0.637													22	226	---	---	---	---	PASS	G	64803125	G	G	64803125	3	3	91	1	0	0	0	0	1	0	0	0	14886	912	32	2	676	2	SNX15	11	64803125	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	138824	64803125	70203391	415	34411										
ZFPL1	7542	broad.mit.edu	37	chr11	64854843	64854843	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cggacaccaggcctccatggAgactgtgacgatgacaagta	12	11	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:64854843A>C	uc001ocq.1	+	7	849	c.684A>C	c.(682-684)GGA>GGC	p.G228G		NM_006782	NP_006773	O95159	ZFPL1_HUMAN	zinc finger protein-like 1	228	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|vesicle-mediated transport	Golgi apparatus|integral to membrane|nucleus	DNA binding|zinc ion binding			ovary(1)	1						GCCTCCATGGAGACTGTGACG	0.602													86	115	---	---	---	---	PASS	C	64854843	C	C	64854843	2	2	91	1	0	0	0	0	0	0	0	1	17653	291	11	5		5	ZFPL1	11	64854843	Silent	SNP	A	TCGA-39-5031-01A-01D-1441-08	51718	64854843	70151673	416	34412										
MAP3K11	4296	broad.mit.edu	37	chr11	65375870	65375870	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggccaaagtcggtgatcttCagggtcttgtgctccatgtc	12	10	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:65375870C>T	uc001oew.2	-	2	1282	c.789G>A	c.(787-789)CTG>CTA	p.L263L	MAP3K11_uc001oev.2_5'Flank|MAP3K11_uc010rol.1_Silent_p.L6L|MAP3K11_uc001oex.1_5'UTR	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	263	Protein kinase.			ILLLQPIESDDMEHKTLKITDFGLAR -> SEFLGAWLGVA WLWYTPAPNLPLSLA (in Ref. 3; BAD92892).	activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity	p.L263L(1)		breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						CGGTGATCTTCAGGGTCTTGT	0.572													11	83	---	---	---	---	PASS	T	65375870	T	T	65375870	2	4	91	1	0	0	0	0	0	0	0	1	9245	813	29	2		2	MAP3K11	11	65375870	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	521027	65375870	69630646	417	34413										
CTSW	1521	broad.mit.edu	37	chr11	65650870	65650870	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atactggatcctgaagaactCctggggggcccaatggggag	15	9	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:65650870C>G	uc001ogc.1	+	9	1037	c.995C>G	c.(994-996)TCC>TGC	p.S332C	CTSW_uc001ogb.1_Missense_Mutation_p.S332C	NM_001335	NP_001326	P56202	CATW_HUMAN	cathepsin W preproprotein	332					immune response|proteolysis		cysteine-type endopeptidase activity			central_nervous_system(1)	1				READ - Rectum adenocarcinoma(159;0.168)		CTGAAGAACTCCTGGGGGGCC	0.602													12	231	---	---	---	---	PASS	G	65650870	G	G	65650870	3	3	91	1	0	0	0	0	1	0	0	0	4042	855	30	2	1029	2	CTSW	11	65650870	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	275000	65650870	69355646	418	34414										
BRMS1	25855	broad.mit.edu	37	chr11	66108320	66108320	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagctccccctgcagcgtgtCatagagcagcagcttctcac	9	16	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:66108320C>G	uc001ohp.1	-	6	607	c.460G>C	c.(460-462)GAC>CAC	p.D154H	BRMS1_uc001oho.1_Missense_Mutation_p.D154H|BRMS1_uc009yre.2_Missense_Mutation_p.M1I	NM_015399	NP_056214	Q9HCU9	BRMS1_HUMAN	breast cancer metastasis suppressor 1 isoform 1	154					apoptosis|negative regulation of anti-apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of anoikis|positive regulation of protein deacetylation|transcription, DNA-dependent	cytoplasm|nucleus	NF-kappaB binding				0						TGCAGCGTGTCATAGAGCAGC	0.647													24	35	---	---	---	---	PASS	G	66108320	G	G	66108320	3	3	91	1	0	0	0	0	1	0	0	0	1516	826	29	2	444	2	BRMS1	11	66108320	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	457450	66108320	68898196	419	34415										
PC	5091	broad.mit.edu	37	chr11	66618620	66618620	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cggccacgtcgcccgtgtatGagatggcagcctccaccacg	12	16	0	1	rs113994146		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:66618620G>C	uc001ojn.1	-	15	2163	c.2114C>G	c.(2113-2115)TCA>TGA	p.S705*	PC_uc001ojo.1_Nonsense_Mutation_p.S705*|PC_uc001ojp.1_Nonsense_Mutation_p.S705*|PC_uc001ojm.1_5'Flank	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	705	Carboxyltransferase.				gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	GCCCGTGTATGAGATGGCAGC	0.617													7	95	---	---	---	---	PASS	C	66618620	C	C	66618620	4	2	91	1	0	0	0	0	0	1	0	0	11497	1294	45	2	1450	2	PC	11	66618620	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	510300	66618620	68387896	420	34416										
TBC1D10C	374403	broad.mit.edu	37	chr11	67171760	67171760	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggtccgactcagagctcagCgggcctggcccatatcgcca	13	15	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:67171760C>T	uc001ola.2	+	2	116	c.87C>T	c.(85-87)AGC>AGT	p.S29S	PPP1CA_uc009yro.1_5'Flank|PPP1CA_uc001okt.1_5'Flank|PPP1CA_uc001oku.1_5'Flank|PPP1CA_uc001okv.1_5'Flank|PPP1CA_uc001okw.1_5'Flank|PPP1CA_uc001okx.1_Intron|PPP1CA_uc001oky.2_5'Flank|TBC1D10C_uc001okz.2_Silent_p.S29S|TBC1D10C_uc001olb.2_RNA	NM_198517	NP_940919	Q8IV04	TB10C_HUMAN	TBC1 domain family, member 10C	29						intracellular	Rab GTPase activator activity				0			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			CAGAGCTCAGCGGGCCTGGCC	0.687													6	55	---	---	---	---	PASS	T	67171760	T	T	67171760	2	4	91	1	0	0	0	0	0	0	0	1	15597	767	27	1		1	TBC1D10C	11	67171760	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	553140	67171760	67834756	421	34417										
CPT1A	1374	broad.mit.edu	37	chr11	68571486	68571486	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	accctgttcacagtgtctttGacagccgggaccggcaggcg	13	13	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:68571486G>C	uc001oog.3	-	5	707	c.537C>G	c.(535-537)GTC>GTG	p.V179V	CPT1A_uc001oof.3_Silent_p.V179V|CPT1A_uc009ysj.2_Silent_p.V179V	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	179	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	CAGTGTCTTTGACAGCCGGGA	0.493													9	80	---	---	---	---	PASS	C	68571486	C	C	68571486	2	2	91	1	0	0	0	0	0	0	0	1	3831	1277	45	2		2	CPT1A	11	68571486	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1399726	68571486	66435030	422	34418										
RNF121	55298	broad.mit.edu	37	chr11	71706589	71706589	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtagacctcaagaggatgttCagcaatccgtatcctttatt	8	9	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:71706589C>T	uc001ora.2	+	8	1195	c.855C>T	c.(853-855)TTC>TTT	p.F285F	RNF121_uc001ord.2_Silent_p.F204F|RNF121_uc001orb.2_Silent_p.F253F|RNF121_uc009yst.2_3'UTR	NM_018320	NP_060790	Q9H920	RN121_HUMAN	ring finger protein 121	285						integral to membrane	zinc ion binding				0						AGAGGATGTTCAGCAATCCGT	0.542													3	24	---	---	---	---	PASS	T	71706589	T	T	71706589	2	4	91	1	0	0	0	0	0	0	0	1	13431	825	29	2		2	RNF121	11	71706589	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	3135103	71706589	63299927	423	34419										
ARHGEF17	9828	broad.mit.edu	37	chr11	73075604	73075604	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggctgtggtgtggctgccagAaccgagtccttgtcctgagc	15	11	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:73075604A>G	uc001otu.2	+	18	5530	c.5509A>G	c.(5509-5511)AAC>GAC	p.N1837D		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1837					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						TGGCTGCCAGAACCGAGTCCT	0.612													47	71	---	---	---	---	PASS	G	73075604	G	G	73075604	3	3	91	1	0	0	0	0	1	0	0	0	900	246	9	5	5579	5	ARHGEF17	11	73075604	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	1369015	73075604	61930912	424	34420										
UCP3	7352	broad.mit.edu	37	chr11	73717284	73717284	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atgcggatggaggcgaagctCatctggcgctgcaggccggc	17	11	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:73717284C>T	uc001our.2	-	3	622	c.267G>A	c.(265-267)ATG>ATA	p.M89I	UCP3_uc001ous.2_Missense_Mutation_p.M89I	NM_003356	NP_003347	P55916	UCP3_HUMAN	uncoupling protein 3 isoform UCP3L	89	Solcar 1.|Helical; Name=2; (Potential).				mitochondrial transport|respiratory electron transport chain|respiratory gaseous exchange	integral to membrane|mitochondrial inner membrane	binding			pancreas(1)	1	Breast(11;2.08e-05)					AGGCGAAGCTCATCTGGCGCT	0.637													5	37	---	---	---	---	PASS	T	73717284	T	T	73717284	3	4	91	1	0	0	0	0	1	0	0	0	16929	826	29	2	695	2	UCP3	11	73717284	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	641680	73717284	61289232	425	34421										
C2CD3	26005	broad.mit.edu	37	chr11	73811650	73811650	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctgggctccgcaccttattCcaagtttcaattaccatcac	5	15	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:73811650C>G	uc001ouu.2	-	15	2879	c.2652G>C	c.(2650-2652)TGG>TGC	p.W884C		NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	884						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					GCACCTTATTCCAAGTTTCAA	0.448													62	81	---	---	---	---	PASS	G	73811650	G	G	73811650	3	3	91	1	0	0	0	0	1	0	0	0	2154	856	30	2	3307	2	C2CD3	11	73811650	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	94366	73811650	61194866	426	34422										
CHRDL2	25884	broad.mit.edu	37	chr11	74414013	74414013	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gccagggtctgctttgtcctCtggagagacaagaagctcat	12	10	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:74414013C>T	uc001ovi.2	-	9	1200	c.947_splice	c.e9-1	p.E316_splice	CHRDL2_uc001ovg.2_Splice_Site_p.E200_splice|CHRDL2_uc001ovh.2_Splice_Site_p.E316_splice|CHRDL2_uc001ovj.1_Intron|CHRDL2_uc001ovk.1_Intron			Q6WN34	CRDL2_HUMAN	RecName: Full=Chordin-like protein 2; AltName: Full=Chordin-related protein 2; AltName: Full=Breast tumor novel factor 1;          Short=BNF-1; Flags: Precursor;						cartilage development|cell differentiation|ossification	extracellular region|mitochondrion					0	Hepatocellular(1;0.098)					GCTTTGTCCTCTGGAGAGACA	0.502											OREG0021223	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	173	---	---	---	---	PASS	T	74414013	T	T	74414013	5	4	91	1	0	0	0	0	0	0	1	0	3374	927	32	2	425	2	CHRDL2	11	74414013	Splice_Site	SNP	C	TCGA-39-5031-01A-01D-1441-08	602363	74414013	60592503	427	34423										
PRSS23	11098	broad.mit.edu	37	chr11	86519517	86519517	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agctgccagggggcagaattCacttctctggttatgacaat	11	9	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:86519517C>T	uc001pcb.2	+	2	1048	c.832C>T	c.(832-834)CAC>TAC	p.H278Y	PRSS23_uc001pcc.1_Intron|PRSS23_uc010rts.1_Missense_Mutation_p.H246Y	NM_007173	NP_009104	O95084	PRS23_HUMAN	protease, serine, 23 precursor	278					proteolysis	extracellular region|nucleus	serine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GGGCAGAATTCACTTCTCTGG	0.483													24	148	---	---	---	---	PASS	T	86519517	T	T	86519517	3	4	91	1	0	0	0	0	1	0	0	0	12620	826	29	2	834	2	PRSS23	11	86519517	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	12105504	86519517	48486999	428	34424										
NAALAD2	10003	broad.mit.edu	37	chr11	89892410	89892410	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcattttattttgtcagctaCttgggaggaattgctccacc	8	9	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:89892410C>A	uc001pdf.3	+	8	1003	c.894C>A	c.(892-894)TAC>TAA	p.Y298*	NAALAD2_uc009yvx.2_Intron|NAALAD2_uc009yvy.2_Intron|NAALAD2_uc001pdd.2_3'UTR|NAALAD2_uc001pde.2_Intron	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	298	Extracellular (Potential).|NAALADase.				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				TTGTCAGCTACTTGGGAGGAA	0.348													41	60	---	---	---	---	PASS	A	89892410	A	A	89892410	4	1	91	1	0	0	0	0	0	1	0	0	10128	576	20	3	924	3	NAALAD2	11	89892410	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3372893	89892410	45114106	429	34425										
CNTN5	53942	broad.mit.edu	37	chr11	100064360	100064360	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaggacagcctattgatttcGaggaagagggtggacatttt	13	5	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:100064360G>C	uc001pga.2	+	15	2188	c.1849G>C	c.(1849-1851)GAG>CAG	p.E617Q	CNTN5_uc009ywv.1_Missense_Mutation_p.E617Q|CNTN5_uc001pfz.2_Missense_Mutation_p.E617Q|CNTN5_uc001pgb.2_Missense_Mutation_p.E543Q|CNTN5_uc010ruk.1_5'UTR	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	617	Ig-like C2-type 6.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		TATTGATTTCGAGGAAGAGGG	0.373													11	55	---	---	---	---	PASS	C	100064360	C	C	100064360	3	2	91	1	0	0	0	0	1	0	0	0	3644	1059	37	2	1899	2	CNTN5	11	100064360	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	10171950	100064360	34942156	430	34426										
CADM1	23705	broad.mit.edu	37	chr11	115049489	115049489	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcgagccttcttcacctgctCgggaatctgttaaaatcaga	8	11	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:115049489C>T	uc001ppi.3	-	9	1214	c.1085G>A	c.(1084-1086)CGA>CAA	p.R362Q	CADM1_uc001ppf.3_Missense_Mutation_p.R334Q|CADM1_uc001ppk.3_Missense_Mutation_p.R334Q|CADM1_uc001ppj.3_Missense_Mutation_p.R363Q|CADM1_uc001pph.3_Missense_Mutation_p.R125Q	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	362	Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		TTCACCTGCTCGGGAATCTGT	0.552													13	86	---	---	---	---	PASS	T	115049489	T	T	115049489	3	4	91	1	0	0	0	0	1	0	0	0	2566	884	31	2	251	2	CADM1	11	115049489	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	14985129	115049489	19957027	431	34427										
C2CD2L	9854	broad.mit.edu	37	chr11	118986832	118986832	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aagctggcctgagccaatcaCacgatgacctctccaacgca	8	15	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:118986832C>G	uc001pvo.2	+	14	2346	c.1987C>G	c.(1987-1989)CAC>GAC	p.H663D	C2CD2L_uc001pvn.2_Missense_Mutation_p.H664D	NM_014807	NP_055622	O14523	C2C2L_HUMAN	transmembrane protein 24	663						integral to membrane					0						GAGCCAATCACACGATGACCT	0.587													5	58	---	---	---	---	PASS	G	118986832	G	G	118986832	3	3	91	1	0	0	0	0	1	0	0	0	2153	478	17	4	2044	4	C2CD2L	11	118986832	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3937343	118986832	16019684	432	34428										
C2CD2L	9854	broad.mit.edu	37	chr11	118986933	118986933	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttttccttcaaatccaaaccCaaggccaatggtaaccccag	5	14	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:118986933C>G	uc001pvo.2	+	14	2447	c.2088C>G	c.(2086-2088)CCC>CCG	p.P696P	C2CD2L_uc001pvn.2_Silent_p.P697P	NM_014807	NP_055622	O14523	C2C2L_HUMAN	transmembrane protein 24	696						integral to membrane					0						AATCCAAACCCAAGGCCAATG	0.587													7	46	---	---	---	---	PASS	G	118986933	G	G	118986933	2	3	91	1	0	0	0	0	0	0	0	1	2153	581	21	4		4	C2CD2L	11	118986933	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	101	118986933	16019583	433	34429										
PVRL1	5818	broad.mit.edu	37	chr11	119535989	119535989	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gccgcccatgttcgggaggaGacggggtgtaggggaattct	18	8	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:119535989G>A	uc001pwv.2	-	6	1194	c.1022C>T	c.(1021-1023)TCT>TTT	p.S341F	PVRL1_uc001pwu.1_Intron	NM_002855	NP_002846	Q15223	PVRL1_HUMAN	poliovirus receptor-related 1 isoform 1	341	Extracellular (Potential).				adherens junction organization|cell junction assembly|entry of virus into host cell|heterophilic cell-cell adhesion|homophilic cell adhesion|immune response	cell-cell adherens junction|extracellular region|integral to membrane	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0		Breast(348;0.037)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.29e-05)		TTCGGGAGGAGACGGGGTGTA	0.662													20	42	---	---	---	---	PASS	A	119535989	A	A	119535989	3	1	91	1	0	0	0	0	1	0	0	0	12839	942	33	2	921	2	PVRL1	11	119535989	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	549056	119535989	15470527	434	34430										
PRDM10	56980	broad.mit.edu	37	chr11	129800974	129800974	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctctgggtgggcaccacgctCtcttcatgctgcggctgcag	13	14	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr11:129800974C>T	uc001qfm.2	-	11	1699	c.1467G>A	c.(1465-1467)GAG>GAA	p.E489E	PRDM10_uc001qfj.2_Silent_p.E403E|PRDM10_uc001qfk.2_Silent_p.E403E|PRDM10_uc001qfl.2_Silent_p.E403E|PRDM10_uc010sbx.1_Silent_p.E403E|PRDM10_uc001qfn.2_Silent_p.E489E|PRDM10_uc009zct.1_Silent_p.E521E	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	489					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		GCACCACGCTCTCTTCATGCT	0.617													46	60	---	---	---	---	PASS	T	129800974	T	T	129800974	2	4	91	1	0	0	0	0	0	0	0	1	12451	912	32	2		2	PRDM10	11	129800974	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	10264985	129800974	5205542	435	34431										
CCDC77	84318	broad.mit.edu	37	chr12	521043	521043	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccaaactccatccttctaagGagctcctggaatattatcaa	5	12	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:521043G>C	uc001qig.2	+	4	349	c.169G>C	c.(169-171)GAG>CAG	p.E57Q	CCDC77_uc009zdk.2_Missense_Mutation_p.E25Q|CCDC77_uc010sdp.1_Missense_Mutation_p.E25Q|CCDC77_uc010sdq.1_Missense_Mutation_p.E25Q	NM_032358	NP_115734	Q9BR77	CCD77_HUMAN	coiled-coil domain containing 77 isoform a	57	Potential.					centrosome				ovary(1)	1	all_cancers(10;0.0149)|all_epithelial(11;0.035)|all_lung(10;0.111)|Ovarian(42;0.142)|Lung NSC(10;0.156)		OV - Ovarian serous cystadenocarcinoma(31;0.00123)|BRCA - Breast invasive adenocarcinoma(9;0.033)			TCCTTCTAAGGAGCTCCTGGA	0.498													31	77	---	---	---	---	PASS	C	521043	C	C	521043	3	2	91	1	0	0	0	0	1	0	0	0	2851	1175	41	2	175	2	CCDC77	12	521043	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08		521043	133330852	436	34432										
AKAP3	10566	broad.mit.edu	37	chr12	4737262	4737262	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	catcaggcctttcctgccctCgaaacctctttctctcccga	5	18	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:4737262C>A	uc001qnb.3	-	4	1035	c.806G>T	c.(805-807)CGA>CTA	p.R269L		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	269					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						TTCCTGCCCTCGAAACCTCTT	0.443													28	67	---	---	---	---	PASS	A	4737262	A	A	4737262	3	1	91	1	0	0	0	0	1	0	0	0	452	884	31	2	1763	2	AKAP3	12	4737262	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	4216219	4737262	129114633	437	34433										
NOP2	4839	broad.mit.edu	37	chr12	6666601	6666601	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aagcttgggtctttgtgacaGaaggtacagtggacaattct	12	6	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:6666601G>A	uc001qph.1	-	16	2165	c.1985C>T	c.(1984-1986)TCT>TTT	p.S662F	IFFO1_uc001qpe.1_5'Flank|IFFO1_uc010sfe.1_5'Flank|IFFO1_uc001qpf.1_5'Flank|IFFO1_uc001qpc.1_5'Flank|IFFO1_uc001qpd.1_5'Flank|NOP2_uc009zeq.1_3'UTR|NOP2_uc001qpi.1_Missense_Mutation_p.S662F|NOP2_uc001qpj.1_Missense_Mutation_p.S91F	NM_001033714	NP_001028886	P46087	NOP2_HUMAN	nucleolar protein 1, 120kDa	666					positive regulation of cell proliferation|rRNA processing	nucleolus	protein binding|RNA binding|S-adenosylmethionine-dependent methyltransferase activity			ovary(2)	2						CTTTGTGACAGAAGGTACAGT	0.527													14	108	---	---	---	---	PASS	A	6666601	A	A	6666601	3	1	91	1	0	0	0	0	1	0	0	0	10538	942	33	2	445	2	NOP2	12	6666601	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1929339	6666601	127185294	438	34434										
ING4	51147	broad.mit.edu	37	chr12	6761577	6761577	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cactgagggcatcccatactCaggacttctgcatgccaaga	9	13	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:6761577C>G	uc001qpw.3	-	6	549	c.508G>C	c.(508-510)GAG>CAG	p.E170Q	ING4_uc001qpv.3_Missense_Mutation_p.E169Q|ING4_uc001qpy.3_Missense_Mutation_p.E166Q|ING4_uc001qpx.3_Missense_Mutation_p.E167Q|ING4_uc009zes.2_Intron|ING4_uc009zet.2_Missense_Mutation_p.E146Q|ING4_uc009zeu.2_Intron|ING4_uc009zev.2_RNA	NM_001127582	NP_001121054	Q9UNL4	ING4_HUMAN	inhibitor of growth family, member 4 isoform 9	170					apoptosis|cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell proliferation|negative regulation of growth|negative regulation of transcription, DNA-dependent|positive regulation of apoptosis	histone acetyltransferase complex	protein binding|transcription coactivator activity|zinc ion binding			central_nervous_system(3)|ovary(1)	4						ATCCCATACTCAGGACTTCTG	0.522													18	145	---	---	---	---	PASS	G	6761577	G	G	6761577	3	3	91	1	0	0	0	0	1	0	0	0	7738	835	29	2	253	2	ING4	12	6761577	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	94976	6761577	127090318	439	34435										
SLC2A14	144195	broad.mit.edu	37	chr12	7981421	7981421	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtaaagcctaatagcaccggCcatagctcttcagacccaag	8	13	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:7981421C>A	uc001qtk.2	-	11	1417	c.624G>T	c.(622-624)TGG>TGT	p.W208C	SLC2A14_uc001qtl.2_Missense_Mutation_p.W185C|SLC2A14_uc001qtm.2_Missense_Mutation_p.W185C|SLC2A14_uc010sgg.1_Missense_Mutation_p.W99C|SLC2A14_uc001qtn.2_Missense_Mutation_p.W208C|SLC2A14_uc001qto.2_Intron|SLC2A14_uc010sgh.1_Missense_Mutation_p.W223C	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14	208	Helical; Name=6; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		ATAGCACCGGCCATAGCTCTT	0.443													49	83	---	---	---	---	PASS	A	7981421	A	A	7981421	3	1	91	1	0	0	0	0	1	0	0	0	14543	740	26	3	962	3	SLC2A14	12	7981421	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1219844	7981421	125870474	440	34436										
WBP11	51729	broad.mit.edu	37	chr12	14943483	14943483	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggtggtggtcctggcatggGaggtgcttgtatctgagaag	18	5	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:14943483G>A	uc001rci.2	-	10	1377	c.1216C>T	c.(1216-1218)CCC>TCC	p.P406S		NM_016312	NP_057396	Q9Y2W2	WBP11_HUMAN	WW domain binding protein 11	406	Pro-rich.				mRNA processing|RNA splicing|rRNA processing	cytoplasm	single-stranded DNA binding|WW domain binding			ovary(1)|lung(1)	2						CCTGGCATGGGAGGTGCTTGT	0.577													53	106	---	---	---	---	PASS	A	14943483	A	A	14943483	3	1	91	1	0	0	0	0	1	0	0	0	17255	1174	41	2	721	2	WBP11	12	14943483	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	6962062	14943483	118908412	441	34437										
PIK3C2G	5288	broad.mit.edu	37	chr12	18576938	18576938	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caacttctactccaccgctcCttgcagagcatccaggttgc	7	16	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:18576938C>T	uc001rdt.2	+	17	2462	c.2346C>T	c.(2344-2346)TCC>TCT	p.S782S	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Silent_p.S823S|PIK3C2G_uc010sic.1_Silent_p.S601S	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	782					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				TCCACCGCTCCTTGCAGAGCA	0.428													9	19	---	---	---	---	PASS	T	18576938	T	T	18576938	2	4	91	1	0	0	0	0	0	0	0	1	11911	668	24	3		3	PIK3C2G	12	18576938	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	3633455	18576938	115274957	442	34438										
C12orf11	55726	broad.mit.edu	37	chr12	27081799	27081799	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcagcactctggatctgcccGaggattaggaggcccaacag	13	12	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:27081799G>A	uc001rhk.3	-	4	877	c.340C>T	c.(340-342)CGG>TGG	p.R114W	C12orf11_uc010sjk.1_Missense_Mutation_p.R13W	NM_018164	NP_060634	Q9NVM9	M89BB_HUMAN	hypothetical protein LOC55726	114					cell division|mitosis|regulation of mitotic cell cycle		protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	Colorectal(261;0.0847)					GGATCTGCCCGAGGATTAGGA	0.418													6	49	---	---	---	---	PASS	A	27081799	A	A	27081799	3	1	91	1	0	0	0	0	1	0	0	0	1675	1057	37	2	1836	2	C12orf11	12	27081799	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	8504861	27081799	106770096	443	34439										
ABCD2	225	broad.mit.edu	37	chr12	40001441	40001441	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcctttcaatagcatcagctCcagaggccagtaaatttcga	7	11	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:40001441C>A	uc001rmb.2	-	3	1622	c.1196G>T	c.(1195-1197)GGA>GTA	p.G399V		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	399	ABC transmembrane type-1.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						AGCATCAGCTCCAGAGGCCAG	0.328													38	91	---	---	---	---	PASS	A	40001441	A	A	40001441	3	1	91	1	0	0	0	0	1	0	0	0	61	855	30	2	1058	2	ABCD2	12	40001441	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	12919642	40001441	93850454	444	34440										
SFRS2IP	9169	broad.mit.edu	37	chr12	46322405	46322405	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcttttctgactcagctgaaGagggaacacttaaagatgga	11	7	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:46322405G>A	uc001rox.2	-	11	1366	c.1079C>T	c.(1078-1080)TCT>TTT	p.S360F	SFRS2IP_uc001row.2_Missense_Mutation_p.S45F|SFRS2IP_uc001roy.1_Missense_Mutation_p.S434F	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	360					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		CTCAGCTGAAGAGGGAACACT	0.443													47	133	---	---	---	---	PASS	A	46322405	A	A	46322405	3	1	91	1	0	0	0	0	1	0	0	0	14177	942	33	2	3332	2	SFRS2IP	12	46322405	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	6320964	46322405	87529490	445	34441										
MLL2	8085	broad.mit.edu	37	chr12	49444670	49444670	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtactaacatccccttaccTggtggcatcagctgaggcga	10	12	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:49444670T>A	uc001rta.3	-	10	2796	c.2796A>T	c.(2794-2796)CCA>CCT	p.P932P		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	932	Pro-rich.			Missing (in Ref. 1; AAC51734).	chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TCCCCTTACCTGGTGGCATCA	0.537			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			33	76	---	---	---	---	PASS	A	49444670	A	A	49444670	2	1	91	1	0	0	0	0	0	0	0	1	9621	1594	55	5		5	MLL2	12	49444670	Silent	SNP	T	TCGA-39-5031-01A-01D-1441-08	3122265	49444670	84407225	446	34442										
KRT6B	3854	broad.mit.edu	37	chr12	52841347	52841347	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gttgacttgtccaacgccttCgccattcagcctgtggagag	11	12	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:52841347C>T	uc001sak.2	-	8	1483	c.1435G>A	c.(1435-1437)GAA>AAA	p.E479K		NM_005555	NP_005546	P04259	K2C6B_HUMAN	keratin 6B	479	Tail.				ectoderm development	keratin filament	structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.083)		CCAACGCCTTCGCCATTCAGC	0.552													41	69	---	---	---	---	PASS	T	52841347	T	T	52841347	3	4	91	1	0	0	0	0	1	0	0	0	8481	893	31	2	267	2	KRT6B	12	52841347	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3396677	52841347	81010548	447	34443										
KRT8	3856	broad.mit.edu	37	chr12	53292299	53292299	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	catgttctgcatcccagactCcagcctgtacccagacaaat	6	15	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:53292299C>T	uc001sbd.2	-	7	1310	c.1207G>A	c.(1207-1209)GAG>AAG	p.E403K	KRT8_uc009zmj.2_Intron|KRT8_uc009zmk.1_Missense_Mutation_p.E431K|KRT8_uc009zml.1_Missense_Mutation_p.E403K|KRT8_uc009zmm.1_Missense_Mutation_p.E403K	NM_002273	NP_002264	P05787	K2C8_HUMAN	keratin 8	403	Tail.				cytoskeleton organization|interspecies interaction between organisms	cytoplasm|keratin filament|nuclear matrix|nucleoplasm	protein binding|structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.108)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATCCCAGACTCCAGCCTGTAC	0.617													7	36	---	---	---	---	PASS	T	53292299	T	T	53292299	3	4	91	1	0	0	0	0	1	0	0	0	8493	864	30	2	252	2	KRT8	12	53292299	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	450952	53292299	80559596	448	34444										
PFDN5	5204	broad.mit.edu	37	chr12	53691675	53691675	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	catgatgtggaacacgtgctCatcgatgtgggaactgggta	14	7	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:53691675C>A	uc001scl.2	+	4	366	c.249C>A	c.(247-249)CTC>CTA	p.L83L	PFDN5_uc001scm.2_Silent_p.L38L|PFDN5_uc001scn.2_RNA|PFDN5_uc001sco.2_RNA|C12orf10_uc010sof.1_5'Flank|C12orf10_uc001scp.3_5'Flank|C12orf10_uc009zmx.2_5'Flank|C12orf10_uc001scq.3_5'Flank	NM_002624	NP_002615	Q99471	PFD5_HUMAN	prefoldin subunit 5 isoform alpha	83					'de novo' posttranslational protein folding|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent	nucleus|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)	1						AACACGTGCTCATCGATGTGG	0.507													11	146	---	---	---	---	PASS	A	53691675	A	A	53691675	2	1	91	1	0	0	0	0	0	0	0	1	11758	813	29	2		2	PFDN5	12	53691675	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	399376	53691675	80160220	449	34445										
SMARCC2	6601	broad.mit.edu	37	chr12	56559219	56559219	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cccaatctgttcagaagggcCcaaacttcctggaggggccc	11	14	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:56559219C>T	uc001skb.2	-	26	3128	c.3022G>A	c.(3022-3024)GGC>AGC	p.G1008S	SMARCC2_uc001skd.2_Missense_Mutation_p.G1039S|SMARCC2_uc001ska.2_Missense_Mutation_p.G1039S|SMARCC2_uc001skc.2_Missense_Mutation_p.G1038S|SMARCC2_uc010sqf.1_Missense_Mutation_p.G928S	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	1008	Pro-rich.				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)			TCAGAAGGGCCCAAACTTCCT	0.667													4	48	---	---	---	---	PASS	T	56559219	T	T	56559219	3	4	91	1	0	0	0	0	1	0	0	0	14776	623	22	3	634	3	SMARCC2	12	56559219	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2867544	56559219	77292676	450	34446										
PAN2	9924	broad.mit.edu	37	chr12	56721407	56721407	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttaaaagtacggaggtctctCagggaaacctagaaaaaaaa	9	6	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:56721407C>T	uc001skx.2	-	6	1033	c.660G>A	c.(658-660)CTG>CTA	p.L220L	PAN2_uc001skz.2_Silent_p.L220L|PAN2_uc001sky.2_Silent_p.L220L	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	220					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						GGAGGTCTCTCAGGGAAACCT	0.453													18	91	---	---	---	---	PASS	T	56721407	T	T	56721407	2	4	91	1	0	0	0	0	0	0	0	1	11414	813	29	2		2	PAN2	12	56721407	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	162188	56721407	77130488	451	34447										
STAT2	6773	broad.mit.edu	37	chr12	56737278	56737278	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gccaacagtgggtcaccattCggcatgatttcttcaatctt	8	11	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:56737278C>T	uc001slc.2	-	24	2529	c.2451G>A	c.(2449-2451)CCG>CCA	p.P817P	STAT2_uc001slb.2_Silent_p.P359P|STAT2_uc001sld.2_Silent_p.P813P	NM_005419	NP_005410	P52630	STAT2_HUMAN	signal transducer and activator of transcription	817					interspecies interaction between organisms|JAK-STAT cascade|regulation of transcription from RNA polymerase II promoter|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	cytosol|nucleoplasm|plasma membrane	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						GGTCACCATTCGGCATGATTT	0.512													16	79	---	---	---	---	PASS	T	56737278	T	T	56737278	2	4	91	1	0	0	0	0	0	0	0	1	15264	871	31	2		2	STAT2	12	56737278	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	15871	56737278	77114617	452	34448										
PRIM1	5557	broad.mit.edu	37	chr12	57127988	57127988	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagattttcaagaaaatgttCaaaaactttcacataaggtg	6	6	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:57127988C>G	uc001smd.2	-	12	1250	c.1186G>C	c.(1186-1188)GAA>CAA	p.E396Q		NM_000946	NP_000937	P49642	PRI1_HUMAN	DNA primase polypeptide 1	396					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	DNA primase activity|metal ion binding				0						AGAAAATGTTCAAAAACTTTC	0.323													9	73	---	---	---	---	PASS	G	57127988	G	G	57127988	3	3	91	1	0	0	0	0	1	0	0	0	12490	835	29	2	84	2	PRIM1	12	57127988	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	390710	57127988	76723907	453	34449										
XPOT	11260	broad.mit.edu	37	chr12	64816962	64816962	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	attctcaattttattcttagGcaatcatgttggccgttatg	7	7	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:64816962G>T	uc001ssb.2	+	11	1546	c.1120G>T	c.(1120-1122)GCA>TCA	p.A374S		NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	374	Necessary for interaction with Ran, nuclear localization and nuclear import.				intracellular protein transport|tRNA export from nucleus	cytoplasm|nucleoplasm	protein transporter activity|tRNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(28;0.0404)		TTATTCTTAGGCAATCATGTT	0.274													9	71	---	---	---	---	PASS	T	64816962	T	T	64816962	3	4	91	1	0	0	0	0	1	0	0	0	17447	1217	42	3	1158	3	XPOT	12	64816962	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7688974	64816962	69034933	454	34450										
XPOT	11260	broad.mit.edu	37	chr12	64828360	64828360	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tatccagatccaattgcacaGaaaacatgttttatcatcct	4	10	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:64828360G>C	uc001ssb.2	+	20	2952	c.2526G>C	c.(2524-2526)CAG>CAC	p.Q842H		NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	842	Necessary for tRNA-binding, cytoplasmic localization and nuclear export.				intracellular protein transport|tRNA export from nucleus	cytoplasm|nucleoplasm	protein transporter activity|tRNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(28;0.0404)		CAATTGCACAGAAAACATGTT	0.358													20	115	---	---	---	---	PASS	C	64828360	C	C	64828360	3	2	91	1	0	0	0	0	1	0	0	0	17447	933	33	2	2600	2	XPOT	12	64828360	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	11398	64828360	69023535	455	34451										
MYF5	4617	broad.mit.edu	37	chr12	81111177	81111177	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctcaagaggtgtaccacgaCcaaccccaaccagaggctgc	9	16	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:81111177C>A	uc001szg.2	+	1	470	c.335C>A	c.(334-336)ACC>AAC	p.T112N		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	112	Helix-loop-helix motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						TGTACCACGACCAACCCCAAC	0.592													25	122	---	---	---	---	PASS	A	81111177	A	A	81111177	3	1	91	1	0	0	0	0	1	0	0	0	10027	507	18	3	337	3	MYF5	12	81111177	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	16282817	81111177	52740718	456	34452										
C12orf63	374467	broad.mit.edu	37	chr12	97151357	97151357	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaaatttcaggatcaccattAacacttaaggtaagagtcta	6	7	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:97151357A>T	uc001tet.1	+	25	3384	c.3306A>T	c.(3304-3306)TTA>TTT	p.L1102F		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	1102										skin(6)|ovary(1)	7						GATCACCATTAACACTTAAGG	0.313													3	26	---	---	---	---	PASS	T	97151357	T	T	97151357	3	4	91	1	0	0	0	0	1	0	0	0	1706	359	13	5	3400	5	C12orf63	12	97151357	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	16040180	97151357	36700538	457	34453										
TMPO	7112	broad.mit.edu	37	chr12	98921682	98921682	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agaaagccacaaaaaaaactGataaacccagacaagaagat	6	8	0	5			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:98921682G>A	uc001tfj.2	+	2	535	c.298G>A	c.(298-300)GAT>AAT	p.D100N	TMPO_uc001tfi.1_Missense_Mutation_p.D100N|TMPO_uc001tfk.2_Missense_Mutation_p.D100N|TMPO_uc001tfl.2_RNA|TMPO_uc001tfh.1_Missense_Mutation_p.D100N	NM_001032283	NP_001027454	P42167	LAP2B_HUMAN	thymopoietin isoform beta	100	Linker.|Nucleoplasmic (Potential).					integral to membrane|nuclear inner membrane	DNA binding|lamin binding			ovary(2)	2						AAAAAAAACTGATAAACCCAG	0.343													17	109	---	---	---	---	PASS	A	98921682	A	A	98921682	3	1	91	1	0	0	0	0	1	0	0	0	16234	1290	45	2	304	2	TMPO	12	98921682	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1770325	98921682	34930213	458	34454										
STAB2	55576	broad.mit.edu	37	chr12	104134531	104134531	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gctacttcgggcgagactgtCagggtgagggtgcctcttcc	15	11	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:104134531C>A	uc001tjw.2	+	55	6064	c.5878C>A	c.(5878-5880)CAG>AAG	p.Q1960K	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1960	Extracellular (Potential).|Laminin EGF-like 2.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GCGAGACTGTCAGGGTGAGGG	0.562													17	137	---	---	---	---	PASS	A	104134531	A	A	104134531	3	1	91	1	0	0	0	0	1	0	0	0	15237	827	29	2	6096	2	STAB2	12	104134531	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	5212849	104134531	29717364	459	34455										
NT5DC3	51559	broad.mit.edu	37	chr12	104208723	104208723	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctgtgatcttacccggtgttCattgatgagaaggtcccgtg	12	9	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:104208723C>T	uc010swe.1	-	2	426	c.385G>A	c.(385-387)GAA>AAA	p.E129K		NM_001031701	NP_001026871	Q86UY8	NT5D3_HUMAN	5'-nucleotidase domain containing 3	129							hydrolase activity|metal ion binding			ovary(2)|skin(1)	3						ACCCGGTGTTCATTGATGAGA	0.463													18	155	---	---	---	---	PASS	T	104208723	T	T	104208723	3	4	91	1	0	0	0	0	1	0	0	0	10692	835	29	2	1313	2	NT5DC3	12	104208723	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	74192	104208723	29643172	460	34456										
TRPV4	59341	broad.mit.edu	37	chr12	110252339	110252339	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccgaggactcatatagggtgGactccagcagatcgatgggg	15	9	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:110252339G>C	uc001tpj.1	-	1	358	c.263C>G	c.(262-264)TCC>TGC	p.S88C	TRPV4_uc001tpg.1_Missense_Mutation_p.S54C|TRPV4_uc001tph.1_Missense_Mutation_p.S88C|TRPV4_uc001tpi.1_Missense_Mutation_p.S88C|TRPV4_uc001tpk.1_Missense_Mutation_p.S88C|TRPV4_uc001tpl.1_Missense_Mutation_p.S88C	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	88	Cytoplasmic (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						ATATAGGGTGGACTCCAGCAG	0.602													11	60	---	---	---	---	PASS	C	110252339	C	C	110252339	3	2	91	1	0	0	0	0	1	0	0	0	16595	1174	41	2	2412	2	TRPV4	12	110252339	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	6043616	110252339	23599556	461	34457										
IFT81	28981	broad.mit.edu	37	chr12	110655899	110655899	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaaagtcatggtccaaatatGaaacaagcaaaaatgtggcg	10	6	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:110655899G>A	uc001tqi.2	+	19	2029	c.1899G>A	c.(1897-1899)ATG>ATA	p.M633I	IFT81_uc001tqh.2_Missense_Mutation_p.M633I|IFT81_uc001tqj.2_RNA	NM_001143779	NP_001137251	Q8WYA0	IFT81_HUMAN	intraflagellar transport 81-like isoform 1	633					cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1						GTCCAAATATGAAACAAGCAA	0.323													12	104	---	---	---	---	PASS	A	110655899	A	A	110655899	3	1	91	1	0	0	0	0	1	0	0	0	7565	1290	45	2	2081	2	IFT81	12	110655899	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	403560	110655899	23195996	462	34458										
GPN3	51184	broad.mit.edu	37	chr12	110893649	110893649	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tccttttttgcttttttactCagcagatccatttttgtcat	4	9	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:110893649C>G	uc001tqr.2	-	5	593	c.537G>C	c.(535-537)CTG>CTC	p.L179L	GPN3_uc001tqs.2_Silent_p.L189L	NM_016301	NP_057385	Q9UHW5	GPN3_HUMAN	GPN-loop GTPase 3 isoform 1	179						protein complex	GTP binding				0						CTTTTTTACTCAGCAGATCCA	0.388													8	68	---	---	---	---	PASS	G	110893649	G	G	110893649	2	3	91	1	0	0	0	0	0	0	0	1	6619	813	29	2		2	GPN3	12	110893649	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	237750	110893649	22958246	463	34459										
HPD	3242	broad.mit.edu	37	chr12	122281695	122281695	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gttgtttgtagtacgtggagGgaacagataagaactccagg	14	5	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:122281695G>A	uc001ubj.2	-	12	915	c.875C>T	c.(874-876)CCC>CTC	p.P292L	HPD_uc001ubk.2_Missense_Mutation_p.P253L	NM_002150	NP_002141	P32754	HPPD_HUMAN	4-hydroxyphenylpyruvate dioxygenase	292					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	4-hydroxyphenylpyruvate dioxygenase activity|metal ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000105)|Epithelial(86;0.000352)|BRCA - Breast invasive adenocarcinoma(302;0.225)	Nitisinone(DB00348)	GTACGTGGAGGGAACAGATAA	0.547													7	56	---	---	---	---	PASS	A	122281695	A	A	122281695	3	1	91	1	0	0	0	0	1	0	0	0	7332	1232	43	3	318	3	HPD	12	122281695	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	11388046	122281695	11570200	464	34460										
CCDC62	84660	broad.mit.edu	37	chr12	123265748	123265748	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	actgaaataatcaggtcactCacgaagaaggtaaaagctct	8	8	4	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:123265748C>G	uc001udc.2	+	3	412	c.267C>G	c.(265-267)CTC>CTG	p.L89L	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Silent_p.L89L|CCDC62_uc001ude.2_5'UTR	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	89	Potential.					cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		TCAGGTCACTCACGAAGAAGG	0.388													10	82	---	---	---	---	PASS	G	123265748	G	G	123265748	2	3	91	1	0	0	0	0	0	0	0	1	2833	813	29	2		2	CCDC62	12	123265748	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	984053	123265748	10586147	465	34461										
SBNO1	55206	broad.mit.edu	37	chr12	123812522	123812522	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agcctgtcttggttggctttGaagaaccaacaggacataag	11	8	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:123812522G>C	uc010tap.1	-	10	1349	c.1349C>G	c.(1348-1350)TCA>TGA	p.S450*	SBNO1_uc010tao.1_Nonsense_Mutation_p.S449*|SBNO1_uc010taq.1_Intron|SBNO1_uc001uet.2_Nonsense_Mutation_p.S450*|SBNO1_uc001ueu.2_Nonsense_Mutation_p.S449*|SBNO1_uc001uev.2_Nonsense_Mutation_p.S448*|SBNO1_uc009zxy.1_Nonsense_Mutation_p.S415*	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	450							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		GGTTGGCTTTGAAGAACCAAC	0.348													15	126	---	---	---	---	PASS	C	123812522	C	C	123812522	4	2	91	1	0	0	0	0	0	1	0	0	13862	1294	45	2	2920	2	SBNO1	12	123812522	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	546774	123812522	10039373	466	34462										
ATP6V0A2	23545	broad.mit.edu	37	chr12	124228439	124228439	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	accgagggatttcagaacatCgtggatgcttatggagtcgg	14	7	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:124228439C>T	uc001ufr.2	+	10	1394	c.1146C>T	c.(1144-1146)ATC>ATT	p.I382I		NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	382	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		TTCAGAACATCGTGGATGCTT	0.453													24	197	---	---	---	---	PASS	T	124228439	T	T	124228439	2	4	91	1	0	0	0	0	0	0	0	1	1169	874	31	2		2	ATP6V0A2	12	124228439	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	415917	124228439	9623456	467	34463										
DNAH10	196385	broad.mit.edu	37	chr12	124289380	124289380	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acagacatctttctctccagGcgtgaaggaattttttgaac	8	9	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:124289380G>C	uc001uft.3	+	17	2451	c.2426G>C	c.(2425-2427)GGC>GCC	p.G809A	DNAH10_uc010tav.1_Missense_Mutation_p.G351A|DNAH10_uc010taw.1_Missense_Mutation_p.G294A	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	809	Stem (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)		TTCTCTCCAGGCGTGAAGGAA	0.478													40	227	---	---	---	---	PASS	C	124289380	C	C	124289380	3	2	91	1	0	0	0	0	1	0	0	0	4598	1217	42	4	2492	4	DNAH10	12	124289380	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	60941	124289380	9562515	468	34464										
CCDC92	80212	broad.mit.edu	37	chr12	124422051	124422051	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cttgtagctggccagcacggGgctccctgacgggctggcat	15	13	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:124422051G>T	uc001ufw.1	-	5	697	c.550C>A	c.(550-552)CCC>ACC	p.P184T	CCDC92_uc001ufv.1_Missense_Mutation_p.P167T|CCDC92_uc001ufx.1_Missense_Mutation_p.P184T|CCDC92_uc001ufy.1_Missense_Mutation_p.P167T	NM_025140	NP_079416	Q53HC0	CCD92_HUMAN	coiled-coil domain containing 92	184											0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.0002)|OV - Ovarian serous cystadenocarcinoma(86;0.000222)|all cancers(50;0.00129)|BRCA - Breast invasive adenocarcinoma(302;0.242)		GCCAGCACGGGGCTCCCTGAC	0.662													3	81	---	---	---	---	PASS	T	124422051	T	T	124422051	3	4	91	1	0	0	0	0	1	0	0	0	2871	1232	43	3	449	3	CCDC92	12	124422051	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	132671	124422051	9429844	469	34465										
SFRS8	6433	broad.mit.edu	37	chr12	132250835	132250835	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaagctgggaaaattgaggaGagtcctttcagtgtcgaggt	15	5	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:132250835G>C	uc001uja.1	+	13	2264	c.2124G>C	c.(2122-2124)GAG>GAC	p.E708D	SFRS8_uc010tbn.1_Missense_Mutation_p.E708D|SFRS8_uc001ujb.1_Missense_Mutation_p.E501D	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	708					mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		AAATTGAGGAGAGTCCTTTCA	0.483													22	172	---	---	---	---	PASS	C	132250835	C	C	132250835	3	2	91	1	0	0	0	0	1	0	0	0	14183	933	33	2	2174	2	SFRS8	12	132250835	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7828784	132250835	1601060	470	34466										
EP400	57634	broad.mit.edu	37	chr12	132522540	132522540	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aagtttattctcccatggatGatgctggcttcccggtcaaa	9	10	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:132522540G>A	uc001ujn.2	+	31	6141	c.6106G>A	c.(6106-6108)GAT>AAT	p.D2036N	EP400_uc001ujl.2_Missense_Mutation_p.D2035N|EP400_uc001ujm.2_Missense_Mutation_p.D1955N	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2072					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		TCCCATGGATGATGCTGGCTT	0.483													59	174	---	---	---	---	PASS	A	132522540	A	A	132522540	3	1	91	1	0	0	0	0	1	0	0	0	5149	1290	45	2	6225	2	EP400	12	132522540	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	271705	132522540	1329355	471	34467										
ANKLE2	23141	broad.mit.edu	37	chr12	133327418	133327418	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caatgcttcctttttattttCataaacatagatcctttctg	3	9	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:133327418C>G	uc001ukx.2	-	3	725	c.658G>C	c.(658-660)GAA>CAA	p.E220Q	ANKLE2_uc001uky.3_Missense_Mutation_p.E158Q	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	220						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		TTTTTATTTTCATAAACATAG	0.413													8	76	---	---	---	---	PASS	G	133327418	G	G	133327418	3	3	91	1	0	0	0	0	1	0	0	0	633	835	29	2	2202	2	ANKLE2	12	133327418	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	804878	133327418	524477	472	34468										
GOLGA3	2802	broad.mit.edu	37	chr12	133357410	133357410	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cttgaggctgttcaccttctCcttctccttctctagtgagg	8	13	4	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr12:133357410C>A	uc001ukz.1	-	18	4115	c.3556G>T	c.(3556-3558)GAG>TAG	p.E1186*	GOLGA3_uc001ula.1_Nonsense_Mutation_p.E1186*	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1186	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		TTCACCTTCTCCTTCTCCTTC	0.562													13	172	---	---	---	---	PASS	A	133357410	A	A	133357410	4	1	91	1	0	0	0	0	0	1	0	0	6554	864	30	2	968	2	GOLGA3	12	133357410	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	29992	133357410	494485	473	34469										
SACS	26278	broad.mit.edu	37	chr13	23909195	23909195	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtgttctgtaacactgataaTgttggatcagaaccagggaa	11	6	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr13:23909195T>C	uc001uon.2	-	10	9409	c.8820A>G	c.(8818-8820)ACA>ACG	p.T2940T	SACS_uc001uoo.2_Silent_p.T2793T|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2940					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		ACACTGATAATGTTGGATCAG	0.358													5	171	---	---	---	---	PASS	C	23909195	C	C	23909195	2	2	91	1	0	0	0	0	0	0	0	1	13804	1451	51	5		5	SACS	13	23909195	Silent	SNP	T	TCGA-39-5031-01A-01D-1441-08		23909195	91260683	474	34470										
MTMR6	9107	broad.mit.edu	37	chr13	25823374	25823374	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaaaaactctatgagtctaaCaagtcattcttgccacacca	4	11	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr13:25823374C>T	uc001uqf.3	-	14	2181	c.1862G>A	c.(1861-1863)TGT>TAT	p.C621Y	MTMR6_uc001uqe.1_Intron	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	621						cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		ATGAGTCTAACAAGTCATTCT	0.383													35	69	---	---	---	---	PASS	T	25823374	T	T	25823374	3	4	91	1	0	0	0	0	1	0	0	0	9947	478	17	3	7	3	MTMR6	13	25823374	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1914179	25823374	89346504	475	34471										
PRHOXNB	646625	broad.mit.edu	37	chr13	28562754	28562754	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aattctccaaggtccatggaGttgaccttctcaatgtccat	7	11	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr13:28562754G>A	uc010aan.1	-	1	21	c.21C>T	c.(19-21)AAC>AAT	p.N7N		NM_001105577	NP_001099047	A6NGE7	URAD_HUMAN	parahox cluster neighbor	7					allantoin biosynthetic process|purine base metabolic process	peroxisome	carboxy-lyase activity				0	all_cancers(110;0.12)|all_hematologic(3;0.0119)|Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0161)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0407)|all cancers(112;0.0491)|OV - Ovarian serous cystadenocarcinoma(117;0.199)		GGTCCATGGAGTTGACCTTCT	0.537													19	66	---	---	---	---	PASS	A	28562754	A	A	28562754	2	1	91	1	0	0	0	0	0	0	0	1	12484	1020	36	3		3	PRHOXNB	13	28562754	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	2739380	28562754	86607124	476	34472										
FLT1	2321	broad.mit.edu	37	chr13	29041227	29041227	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agcctttcgctttccttactCaccatttcaggcaaagacca	5	14	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr13:29041227C>T	uc001usb.3	-	3	486	c.201G>A	c.(199-201)GTG>GTA	p.V67V	FLT1_uc010aar.1_Silent_p.V67V|FLT1_uc001usc.3_Silent_p.V67V|FLT1_uc010tdp.1_Silent_p.V67V|FLT1_uc001usd.2_Silent_p.V67V	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	67	Ig-like C2-type 1.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	TTTCCTTACTCACCATTTCAG	0.448													17	131	---	---	---	---	PASS	T	29041227	T	T	29041227	2	4	91	1	0	0	0	0	0	0	0	1	5941	813	29	2		2	FLT1	13	29041227	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	478473	29041227	86128651	477	34473										
NBEA	26960	broad.mit.edu	37	chr13	35733368	35733368	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtgagaccgattaccctgtCagcacagatactcgagactt	9	11	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr13:35733368C>T	uc001uvb.2	+	23	3266	c.3060C>T	c.(3058-3060)GTC>GTT	p.V1020V	NBEA_uc010abi.2_5'Flank	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1020						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		ATTACCCTGTCAGCACAGATA	0.423													7	57	---	---	---	---	PASS	T	35733368	T	T	35733368	2	4	91	1	0	0	0	0	0	0	0	1	10187	813	29	2		2	NBEA	13	35733368	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	6692141	35733368	79436510	478	34474										
MRPS31	10240	broad.mit.edu	37	chr13	41333178	41333178	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgacttggttgtttgcttatCaaaagggagagaatctgcca	11	6	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr13:41333178C>T	uc001uxm.3	-	3	580	c.505G>A	c.(505-507)GAT>AAT	p.D169N		NM_005830	NP_005821	Q92665	RT31_HUMAN	mitochondrial ribosomal protein S31 precursor	169						mitochondrion|ribosome	protein domain specific binding				0		Lung NSC(96;3.55e-06)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;1.52e-08)|Epithelial(112;7.63e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000192)|GBM - Glioblastoma multiforme(144;0.00233)|BRCA - Breast invasive adenocarcinoma(63;0.0706)		GTTTGCTTATCAAAAGGGAGA	0.428													11	94	---	---	---	---	PASS	T	41333178	T	T	41333178	3	4	91	1	0	0	0	0	1	0	0	0	9841	826	29	2	702	2	MRPS31	13	41333178	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	5599810	41333178	73836700	479	34475										
RB1	5925	broad.mit.edu	37	chr13	48916850	48916850	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acagaaaaacatagaaatcaGgtaaagtttcttgtataaat	6	4	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr13:48916850G>T	uc001vcb.2	+	3	546	c.380G>T	c.(379-381)AGT>ATT	p.S127I	RB1_uc010acs.1_Intron	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	127					androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(4)|p.S127I(1)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ATAGAAATCAGGTAAAGTTTC	0.343		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			25	52	---	---	---	---	PASS	T	48916850	T	T	48916850	3	4	91	1	0	0	0	0	1	0	0	0	13098	1014	35	3	390	3	RB1	13	48916850	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7583672	48916850	66253028	480	34476										
FARP1	10160	broad.mit.edu	37	chr13	99092218	99092218	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcttctcttgcccacagattGaggagagcgaagacgagtgg	13	9	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr13:99092218G>A	uc001vnj.2	+	22	2773	c.2437G>A	c.(2437-2439)GAG>AAG	p.E813K	FARP1_uc001vnh.2_Missense_Mutation_p.E844K	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	813	PH 1.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			CCCACAGATTGAGGAGAGCGA	0.627													44	297	---	---	---	---	PASS	A	99092218	A	A	99092218	3	1	91	1	0	0	0	0	1	0	0	0	5676	1291	45	2	2742	2	FARP1	13	99092218	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	50175368	99092218	16077660	481	34477										
MYO16	23026	broad.mit.edu	37	chr13	109661274	109661274	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aacatgaccaatgagaagatGcaccactatatcaatgaagt	7	8	1	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr13:109661274G>T	uc001vqt.1	+	22	2532	c.2406G>T	c.(2404-2406)ATG>ATT	p.M802I	MYO16_uc010agk.1_Missense_Mutation_p.M824I|MYO16_uc001vqu.1_Missense_Mutation_p.M602I|MYO16_uc010tjh.1_Missense_Mutation_p.M314I	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	802	Myosin head-like 1.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			ATGAGAAGATGCACCACTATA	0.338													30	44	---	---	---	---	PASS	T	109661274	T	T	109661274	3	4	91	1	0	0	0	0	1	0	0	0	10064	1319	46	3	2488	3	MYO16	13	109661274	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	10569056	109661274	5508604	482	34478										
TUBGCP3	10426	broad.mit.edu	37	chr13	113158973	113158973	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	taatactgcatctgatgaatGaaatggaccatctcagaggc	9	8	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr13:113158973G>A	uc001vse.1	-	18	2329	c.2142C>T	c.(2140-2142)TTC>TTT	p.F714F	TUBGCP3_uc010tjq.1_Silent_p.F704F|TUBGCP3_uc001vsf.2_Silent_p.F714F	NM_006322	NP_006313	Q96CW5	GCP3_HUMAN	tubulin, gamma complex associated protein 3	714					G2/M transition of mitotic cell cycle|microtubule nucleation|single fertilization	centriole|cytosol|polar microtubule	gamma-tubulin binding|structural constituent of cytoskeleton			central_nervous_system(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)					TCTGATGAATGAAATGGACCA	0.413													8	27	---	---	---	---	PASS	A	113158973	A	A	113158973	2	1	91	1	0	0	0	0	0	0	0	1	16764	1281	45	2		2	TUBGCP3	13	113158973	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	3497699	113158973	2010905	483	34479										
PPP2R3C	55012	broad.mit.edu	37	chr14	35554831	35554831	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtctgcagagttttcactgtCatttgcaacaagagcctctc	8	11	4	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:35554831C>T	uc001wss.2	-	13	1681	c.1327G>A	c.(1327-1329)GAC>AAC	p.D443N	PPP2R3C_uc001wst.2_Missense_Mutation_p.D327N|PPP2R3C_uc010tpr.1_Missense_Mutation_p.D327N|PPP2R3C_uc001wsu.2_RNA	NM_017917	NP_060387	Q969Q6	P2R3C_HUMAN	serine/threonine-protein phosphatase 2A	443						centrosome|nucleus	calcium ion binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;8.62e-06)|LUAD - Lung adenocarcinoma(48;1.42e-05)|Epithelial(34;0.0177)|all cancers(34;0.0491)	GBM - Glioblastoma multiforme(112;0.0803)		TTTTCACTGTCATTTGCAACA	0.383													9	119	---	---	---	---	PASS	T	35554831	T	T	35554831	3	4	91	1	0	0	0	0	1	0	0	0	12390	826	29	2	38	2	PPP2R3C	14	35554831	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08		35554831	71794709	484	34480										
PPP2R3C	55012	broad.mit.edu	37	chr14	35554858	35554858	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aacaagagcctctctgttctCgtaagtccagaagccattca	7	12	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:35554858C>T	uc001wss.2	-	13	1654	c.1300G>A	c.(1300-1302)GAG>AAG	p.E434K	PPP2R3C_uc001wst.2_Missense_Mutation_p.E318K|PPP2R3C_uc010tpr.1_Missense_Mutation_p.E318K|PPP2R3C_uc001wsu.2_RNA	NM_017917	NP_060387	Q969Q6	P2R3C_HUMAN	serine/threonine-protein phosphatase 2A	434						centrosome|nucleus	calcium ion binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;8.62e-06)|LUAD - Lung adenocarcinoma(48;1.42e-05)|Epithelial(34;0.0177)|all cancers(34;0.0491)	GBM - Glioblastoma multiforme(112;0.0803)		TCTCTGTTCTCGTAAGTCCAG	0.378													12	128	---	---	---	---	PASS	T	35554858	T	T	35554858	3	4	91	1	0	0	0	0	1	0	0	0	12390	893	31	2	65	2	PPP2R3C	14	35554858	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	27	35554858	71794682	485	34481										
FAM179B	23116	broad.mit.edu	37	chr14	45512921	45512921	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgagggactgaattttattaGatgcttagctgcttttcatt	9	5	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:45512921G>C	uc001wvv.2	+	12	4054	c.3845G>C	c.(3844-3846)AGA>ACA	p.R1282T	FAM179B_uc001wvw.2_Missense_Mutation_p.R1282T|FAM179B_uc010anc.2_RNA	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	1282							binding			skin(2)|upper_aerodigestive_tract(1)	3						AATTTTATTAGATGCTTAGCT	0.343													33	88	---	---	---	---	PASS	C	45512921	C	C	45512921	3	2	91	1	0	0	0	0	1	0	0	0	5506	942	33	2	3891	2	FAM179B	14	45512921	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	9958063	45512921	61836619	486	34482										
C14orf106	55320	broad.mit.edu	37	chr14	45706889	45706889	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	catatagcagtattattattGatgcttttaatcatccattc	4	7	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:45706889G>A	uc001wwf.2	-	5	1638	c.1179C>T	c.(1177-1179)ATC>ATT	p.I393I	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	393					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						TATTATTATTGATGCTTTTAA	0.274													11	135	---	---	---	---	PASS	A	45706889	A	A	45706889	2	1	91	1	0	0	0	0	0	0	0	1	1738	1280	45	2		2	C14orf106	14	45706889	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	193968	45706889	61642651	487	34483										
CDKL1	8814	broad.mit.edu	37	chr14	50844896	50844896	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggttagctgcttcctttaccTgcagaccttaaaaatccctc	6	13	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:50844896T>C	uc010anu.1	-	9	1353	c.1353A>G	c.(1351-1353)GCA>GCG	p.A451A	CDKL1_uc001wxz.2_Intron	NM_004196	NP_004187	Q00532	CDKL1_HUMAN	cyclin-dependent kinase-like 1	Error:Variant_position_missing_in_Q00532_after_alignment						cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(1)|stomach(1)	2	all_epithelial(31;0.000746)|Breast(41;0.0102)					ttcctttacctgcagacctta	0													21	58	---	---	---	---	PASS	C	50844896	C	C	50844896	2	2	91	1	0	0	0	0	0	0	0	1	3153	1595	55	5		5	CDKL1	14	50844896	Silent	SNP	T	TCGA-39-5031-01A-01D-1441-08	5138007	50844896	56504644	488	34484										
GCH1	2643	broad.mit.edu	37	chr14	55369083	55369083	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggtgaagaactgcatggccGaggccgccctccagggcgtc	15	13	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:55369083G>A	uc001xbh.1	-	1	460	c.299C>T	c.(298-300)TCG>TTG	p.S100L	GCH1_uc001xbi.1_Missense_Mutation_p.S100L|GCH1_uc001xbj.1_Missense_Mutation_p.S100L|GCH1_uc001xbk.1_Missense_Mutation_p.S100L|GCH1_uc010aol.1_Missense_Mutation_p.S100L|GCH1_uc001xbl.1_Missense_Mutation_p.S100L	NM_001024024	NP_001019195	P30793	GCH1_HUMAN	GTP cyclohydrolase 1 isoform 1	100					dopamine biosynthetic process|GTP catabolic process|neuromuscular process controlling posture|nitric oxide biosynthetic process|positive regulation of nitric-oxide synthase activity|protein homooligomerization|response to interferon-gamma|response to lipopolysaccharide|response to pain|response to tumor necrosis factor|tetrahydrobiopterin biosynthetic process|tetrahydrofolate biosynthetic process	cytoplasmic vesicle|cytosol|nuclear membrane|protein complex	GTP binding|GTP cyclohydrolase I activity|protein homodimerization activity|zinc ion binding			skin(1)	1						CTGCATGGCCGAGGCCGCCCT	0.687													5	71	---	---	---	---	PASS	A	55369083	A	A	55369083	3	1	91	1	0	0	0	0	1	0	0	0	6291	1059	37	2	577	2	GCH1	14	55369083	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4524187	55369083	51980457	489	34485										
KTN1	3895	broad.mit.edu	37	chr14	56117286	56117286	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtctgttttgtcattgtcaaGgatttgaaacaggaaataaa	9	4	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:56117286G>T	uc001xcb.2	+	25	2799	c.2497_splice	c.e25-1	p.D833_splice	KTN1_uc001xce.2_Splice_Site_p.D833_splice|KTN1_uc001xcc.2_Splice_Site_p.D833_splice|KTN1_uc001xcd.2_Intron|KTN1_uc010trb.1_Splice_Site_p.D833_splice|KTN1_uc001xcf.1_Intron|KTN1_uc010aoq.2_Splice_Site_p.D128_splice	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a						microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						TCATTGTCAAGGATTTGAAAC	0.348			T	RET	papillary thryoid								17	92	---	---	---	---	PASS	T	56117286	T	T	56117286	5	4	91	1	0	0	0	0	0	0	1	0	8585	1014	35	3	2586	3	KTN1	14	56117286	Splice_Site	SNP	G	TCGA-39-5031-01A-01D-1441-08	748203	56117286	51232254	490	34486										
SYNE2	23224	broad.mit.edu	37	chr14	64461905	64461905	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agaggaaggaccaagggtctCatcaaagaacatgaggtaca	12	7	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:64461905C>T	uc001xgm.2	+	23	3155	c.2925C>T	c.(2923-2925)CTC>CTT	p.L975L	SYNE2_uc001xgl.2_Silent_p.L975L	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	975	Cytoplasmic (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)		CCAAGGGTCTCATCAAAGAAC	0.313													13	95	---	---	---	---	PASS	T	64461905	T	T	64461905	2	4	91	1	0	0	0	0	0	0	0	1	15443	813	29	2		2	SYNE2	14	64461905	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	8344619	64461905	42887635	491	34487										
SYNE2	23224	broad.mit.edu	37	chr14	64537597	64537597	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaactgttccagcatttcaaGaaattacttctatgaaagaa	5	7	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:64537597G>C	uc001xgm.2	+	52	10896	c.10666G>C	c.(10666-10668)GAA>CAA	p.E3556Q	SYNE2_uc001xgl.2_Missense_Mutation_p.E3556Q|SYNE2_uc010apw.1_Missense_Mutation_p.E262Q	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3556	Potential.|Cytoplasmic (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)		AGCATTTCAAGAAATTACTTC	0.373													10	110	---	---	---	---	PASS	C	64537597	C	C	64537597	3	2	91	1	0	0	0	0	1	0	0	0	15443	943	33	2	10868	2	SYNE2	14	64537597	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	75692	64537597	42811943	492	34488										
ESR2	2100	broad.mit.edu	37	chr14	64724059	64724059	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctccaagagccgcacttggtCgaacaggctgagctccacaa	10	14	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:64724059C>G	uc001xha.1	-	6	1444	c.976G>C	c.(976-978)GAC>CAC	p.D326H	ESR2_uc001xgu.2_Missense_Mutation_p.D326H|ESR2_uc001xgv.2_Missense_Mutation_p.D326H|ESR2_uc001xgw.2_Intron|ESR2_uc001xgx.2_Missense_Mutation_p.D326H|ESR2_uc001xgy.1_Missense_Mutation_p.D326H|ESR2_uc001xgz.1_Missense_Mutation_p.D326H|ESR2_uc010aqb.1_RNA|ESR2_uc010aqc.1_Intron|ESR2_uc010aqd.1_RNA	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1	326	Steroid-binding.				cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	CGCACTTGGTCGAACAGGCTG	0.572													16	188	---	---	---	---	PASS	G	64724059	G	G	64724059	3	3	91	1	0	0	0	0	1	0	0	0	5257	884	31	2	718	2	ESR2	14	64724059	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	186462	64724059	42625481	493	34489										
AKAP5	9495	broad.mit.edu	37	chr14	64936211	64936211	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agcaattcttaatttcagctGaaaatgagcaagtaggggtt	10	5	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:64936211G>C	uc001xhd.3	+	2	1477	c.1099G>C	c.(1099-1101)GAA>CAA	p.E367Q	ZBTB25_uc001xhc.2_Intron	NM_004857	NP_004848	P24588	AKAP5_HUMAN	A-kinase anchor protein 5	367					energy reserve metabolic process|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting|regulation of insulin secretion|signal transduction|synaptic transmission	cytosol	adenylate cyclase binding|calmodulin binding				0				all cancers(60;0.00749)|OV - Ovarian serous cystadenocarcinoma(108;0.0095)|BRCA - Breast invasive adenocarcinoma(234;0.0449)		AATTTCAGCTGAAAATGAGCA	0.323													20	293	---	---	---	---	PASS	C	64936211	C	C	64936211	3	2	91	1	0	0	0	0	1	0	0	0	454	1291	45	2	1101	2	AKAP5	14	64936211	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	212152	64936211	42413329	494	34490										
SPTB	6710	broad.mit.edu	37	chr14	65246467	65246467	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcatcctctaagtcccggctGatctgcagcttggctctgga	10	13	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:65246467G>A	uc001xht.2	-	20	4503	c.4449C>T	c.(4447-4449)ATC>ATT	p.I1483I	SPTB_uc001xhr.2_Silent_p.I1483I|SPTB_uc001xhs.2_Silent_p.I1483I|SPTB_uc001xhu.2_Silent_p.I1483I|SPTB_uc010aqi.2_Silent_p.I144I	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1483	Spectrin 12.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		AGTCCCGGCTGATCTGCAGCT	0.592													34	219	---	---	---	---	PASS	A	65246467	A	A	65246467	2	1	91	1	0	0	0	0	0	0	0	1	15117	1280	45	2		2	SPTB	14	65246467	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	310256	65246467	42103073	495	34491										
ZFYVE26	23503	broad.mit.edu	37	chr14	68249978	68249978	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcagaggaggtgagggctggGagtgatgagtcccttgggga	21	5	0	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:68249978G>C	uc001xka.2	-	21	4030	c.3891C>G	c.(3889-3891)CTC>CTG	p.L1297L	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Silent_p.L1297L	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1297					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		TGAGGGCTGGGAGTGATGAGT	0.577													28	320	---	---	---	---	PASS	C	68249978	C	C	68249978	2	2	91	1	0	0	0	0	0	0	0	1	17665	1161	41	2		2	ZFYVE26	14	68249978	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	3003511	68249978	39099562	496	34492										
ZFP36L1	677	broad.mit.edu	37	chr14	69256726	69256726	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cccggccagggcacggcgctCttcagcgttgtggatgaagt	15	12	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:69256726C>G	uc001xkh.1	-	2	671	c.541G>C	c.(541-543)GAG>CAG	p.E181Q	ZFP36L1_uc001xki.1_Missense_Mutation_p.E181Q	NM_004926	NP_004917	Q07352	TISB_HUMAN	butyrate response factor 1	181					regulation of mRNA stability	cytosol|nucleus	DNA binding|mRNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				all cancers(60;0.00203)|BRCA - Breast invasive adenocarcinoma(234;0.00205)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		GCACGGCGCTCTTCAGCGTTG	0.612											OREG0022753	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	68	---	---	---	---	PASS	G	69256726	G	G	69256726	3	3	91	1	0	0	0	0	1	0	0	0	17643	922	32	2	479	2	ZFP36L1	14	69256726	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1006748	69256726	38092814	497	34493										
ACOT4	122970	broad.mit.edu	37	chr14	74061929	74061929	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccaccattgggctatgacctGaggagaatcaaggtagcttt	11	9	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:74061929G>A	uc001xoo.2	+	3	1091	c.837G>A	c.(835-837)CTG>CTA	p.L279L		NM_152331	NP_689544	Q8N9L9	ACOT4_HUMAN	acyl-CoA thioesterase 4	279					acyl-CoA metabolic process|dicarboxylic acid metabolic process|long-chain fatty acid metabolic process|saturated monocarboxylic acid metabolic process|short-chain fatty acid metabolic process|succinyl-CoA metabolic process|unsaturated monocarboxylic acid metabolic process|very long-chain fatty acid metabolic process	peroxisome	carboxylesterase activity|palmitoyl-CoA hydrolase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00331)		GCTATGACCTGAGGAGAATCA	0.473													16	152	---	---	---	---	PASS	A	74061929	A	A	74061929	2	1	91	1	0	0	0	0	0	0	0	1	153	1277	45	2		2	ACOT4	14	74061929	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	4805203	74061929	33287611	498	34494										
YLPM1	56252	broad.mit.edu	37	chr14	75230773	75230773	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcagccgtccccttcgcagtCcccaccttcccaatcctacc	4	22	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:75230773C>A	uc001xqj.3	+	1	705	c.581C>A	c.(580-582)TCC>TAC	p.S194Y		NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	37	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		CCTTCGCAGTCCCCACCTTCC	0.597													7	105	---	---	---	---	PASS	A	75230773	A	A	75230773	3	1	91	1	0	0	0	0	1	0	0	0	17483	855	30	2	583	2	YLPM1	14	75230773	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1168844	75230773	32118767	499	34495										
MLH3	27030	broad.mit.edu	37	chr14	75513083	75513083	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aatactacgtacttaccattCtcaagtacaacatccacagc	3	13	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:75513083C>T	uc001xrd.1	-	2	3492	c.3276G>A	c.(3274-3276)GAG>GAA	p.E1092E	MLH3_uc001xre.1_Silent_p.E1092E|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	1092					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		ACTTACCATTCTCAAGTACAA	0.423								MMR					10	145	---	---	---	---	PASS	T	75513083	T	T	75513083	2	4	91	1	0	0	0	0	0	0	0	1	9618	912	32	2		2	MLH3	14	75513083	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	282310	75513083	31836457	500	34496										
MLH3	27030	broad.mit.edu	37	chr14	75513680	75513680	+	Missense_Mutation	SNP	C	A	A													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggaagttcattaaaacgactCatcatccccattgtttgagt							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:75513680C>A	uc001xrd.1	-	2	2895	c.2679G>T	c.(2677-2679)ATG>ATT	p.M893I	MLH3_uc001xre.1_Missense_Mutation_p.M893I|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	893					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		TAAAACGACTCATCATCCCCA	0.373								MMR					30	382	---	---	---	---	PASS	A	75513680	A	A	75513680	3	1	91	1	0	0	0	0	1	0	0	0	9618	826	29	2	1730	2	MLH3	14	75513680	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	597	75513680	31835860	501	34497	658	2								
MLH3	27030	broad.mit.edu	37	chr14	75513683	75513683	+	Missense_Mutation	SNP	C	T	T													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agttcattaaaacgactcatCatccccattgtttgagtttc							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:75513683C>T	uc001xrd.1	-	2	2892	c.2676G>A	c.(2674-2676)ATG>ATA	p.M892I	MLH3_uc001xre.1_Missense_Mutation_p.M892I|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	892					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		AACGACTCATCATCCCCATTG	0.363								MMR					31	376	---	---	---	---	PASS	T	75513683	T	T	75513683	3	4	91	1	0	0	0	0	1	0	0	0	9618	826	29	2	1733	2	MLH3	14	75513683	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3	75513683	31835857	502	34498	658	2								
MLH3	27030	broad.mit.edu	37	chr14	75514218	75514218	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tataccaggggaaagaggggGatgtatcagataatatgcaa	13	4	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:75514218G>A	uc001xrd.1	-	2	2357	c.2141C>T	c.(2140-2142)TCC>TTC	p.S714F	MLH3_uc001xre.1_Missense_Mutation_p.S714F|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	714					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		GAAAGAGGGGGATGTATCAGA	0.378								MMR					22	196	---	---	---	---	PASS	A	75514218	A	A	75514218	3	1	91	1	0	0	0	0	1	0	0	0	9618	1174	41	2	2268	2	MLH3	14	75514218	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	535	75514218	31835322	503	34499										
FOS	2353	broad.mit.edu	37	chr14	75747297	75747297	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agaagagaaaaggagaatccGaagggaaaggaataagatgg	15	2	0	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:75747297G>A	uc001xrn.2	+	3	633	c.428G>A	c.(427-429)CGA>CAA	p.R143Q	FOS_uc010tva.1_Intron|FOS_uc010asi.2_Missense_Mutation_p.R29Q|FOS_uc001xro.2_5'UTR	NM_005252	NP_005243	P01100	FOS_HUMAN	v-fos FBJ murine osteosarcoma viral oncogene	143	Basic motif.			SPEEEEKRRIRR -> ISRRRREKENPK (in Ref. 6; no nucleotide entry).	cellular response to reactive oxygen species|DNA methylation|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|SMAD protein signal transduction|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|transcription from RNA polymerase II promoter|transforming growth factor beta receptor signaling pathway		protein dimerization activity|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(2)|ovary(1)	3		all_lung(585;0.0138)|all_epithelial(191;0.0263)|all_neural(303;0.112)		BRCA - Breast invasive adenocarcinoma(234;0.0117)		AGGAGAATCCGAAGGGAAAGG	0.468													11	58	---	---	---	---	PASS	A	75747297	A	A	75747297	3	1	91	1	0	0	0	0	1	0	0	0	5985	1058	37	2	438	2	FOS	14	75747297	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	233079	75747297	31602243	504	34500										
C14orf174	161394	broad.mit.edu	37	chr14	77857401	77857401	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaaattgaagagccattattCaaacgctccatcagccttcc	6	12	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:77857401C>G	uc001xtq.1	+	3	1839	c.1839C>G	c.(1837-1839)TTC>TTG	p.F613L		NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	613											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		AGCCATTATTCAAACGCTCCA	0.383													9	134	---	---	---	---	PASS	G	77857401	G	G	77857401	3	3	91	1	0	0	0	0	1	0	0	0	1759	825	29	2	1849	2	C14orf174	14	77857401	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2110104	77857401	29492139	505	34501										
SEL1L	6400	broad.mit.edu	37	chr14	81972508	81972508	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctcccatctgatgtacattCatcatactccttatctagga	4	13	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:81972508C>A	uc010tvv.1	-	4	535	c.418G>T	c.(418-420)GAA>TAA	p.E140*	SEL1L_uc001xvo.3_Nonsense_Mutation_p.E140*	NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	140	Lumenal (Potential).|Interaction with ERLEC1, OS9 and SYVN1.|Fibronectin type-II.				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		GATGTACATTCATCATACTCC	0.438													18	144	---	---	---	---	PASS	A	81972508	A	A	81972508	4	1	91	1	0	0	0	0	0	1	0	0	14010	835	29	2	2038	2	SEL1L	14	81972508	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	4115107	81972508	25377032	506	34502										
C14orf102	55051	broad.mit.edu	37	chr14	90798204	90798204	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctttcctggagctcccgccAtcgggagcctcactaagccc	9	18	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:90798204A>T	uc001xyi.1	-	1	76	c.45T>A	c.(43-45)GAT>GAA	p.D15E	C14orf102_uc001xyj.1_5'UTR	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	15							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		AGCTCCCGCCATCGGGAGCCT	0.607													26	187	---	---	---	---	PASS	T	90798204	T	T	90798204	3	4	91	1	0	0	0	0	1	0	0	0	1735	214	8	5	3505	5	C14orf102	14	90798204	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	8825696	90798204	16551336	507	34503										
CATSPERB	79820	broad.mit.edu	37	chr14	92191510	92191510	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgcaaagcgtttctctgtatCatctaaataataaaaaaaat	4	6	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:92191510C>A	uc001xzs.1	-	3	222	c.82G>T	c.(82-84)GAT>TAT	p.D28Y		NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	28					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				TTCTCTGTATCATCTAAATAA	0.289													3	56	---	---	---	---	PASS	A	92191510	A	A	92191510	3	1	91	1	0	0	0	0	1	0	0	0	2691	826	29	2	3368	2	CATSPERB	14	92191510	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1393306	92191510	15158030	508	34504										
KIAA1409	57578	broad.mit.edu	37	chr14	94125580	94125580	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agaattatgatttgcctcttGaagatcccttctaccaatgc	6	10	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:94125580G>C	uc001ybv.1	+	38	6233	c.6150G>C	c.(6148-6150)TTG>TTC	p.L2050F	KIAA1409_uc001ybs.1_Missense_Mutation_p.L2028F	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2205						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TTTGCCTCTTGAAGATCCCTT	0.303													7	57	---	---	---	---	PASS	C	94125580	C	C	94125580	3	2	91	1	0	0	0	0	1	0	0	0	8230	1281	45	2	6230	2	KIAA1409	14	94125580	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1934070	94125580	13223960	509	34505										
EML1	2009	broad.mit.edu	37	chr14	100405640	100405640	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tttggcaaagtgcacctcttCtcatacccctgctcgcagtt	7	14	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:100405640C>G	uc001ygs.2	+	21	2367	c.2298C>G	c.(2296-2298)TTC>TTG	p.F766L	EML1_uc010tww.1_Missense_Mutation_p.F754L|EML1_uc001ygr.2_Missense_Mutation_p.F785L	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	766	WD 10.					cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				TGCACCTCTTCTCATACCCCT	0.537													28	110	---	---	---	---	PASS	G	100405640	G	G	100405640	3	3	91	1	0	0	0	0	1	0	0	0	5096	912	32	2	2441	2	EML1	14	100405640	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	6280060	100405640	6943900	510	34506										
AHNAK2	113146	broad.mit.edu	37	chr14	105409022	105409022	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggcagagacacctccacgaCgggggtcatcacatccgcct	12	15	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:105409022C>A	uc010axc.1	-	7	12886	c.12766G>T	c.(12766-12768)GTC>TTC	p.V4256F	AHNAK2_uc001ypx.2_Missense_Mutation_p.V4156F	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4256						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)			ACCTCCACGACGGGGGTCATC	0.642													105	231	---	---	---	---	PASS	A	105409022	A	A	105409022	3	1	91	1	0	0	0	0	1	0	0	0	415	536	19	1	4625	1	AHNAK2	14	105409022	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	5003382	105409022	1940518	511	34507			1	42		6	6	12354	N	G_C	1.481967e-05
AHNAK2	113146	broad.mit.edu	37	chr14	105409053	105409053	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acatccgccttggggcctttCaggtccagcttggggccctt	12	14	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:105409053C>G	uc010axc.1	-	7	12855	c.12735G>C	c.(12733-12735)CTG>CTC	p.L4245L	AHNAK2_uc001ypx.2_Silent_p.L4145L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4245						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)			TGGGGCCTTTCAGGTCCAGCT	0.637													34	325	---	---	---	---	PASS	G	105409053	G	G	105409053	2	3	91	1	0	0	0	0	0	0	0	1	415	813	29	2		2	AHNAK2	14	105409053	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	31	105409053	1940487	512	34508			1	42		6	6	12354	N	G_C	1.481967e-05
AHNAK2	113146	broad.mit.edu	37	chr14	105414670	105414670	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagcctggacctccaggtcaGcggaagggggctgaacgctg	16	12	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:105414670G>C	uc010axc.1	-	7	7238	c.7118C>G	c.(7117-7119)GCT>GGT	p.A2373G	AHNAK2_uc001ypx.2_Missense_Mutation_p.A2273G	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2373						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)			CTCCAGGTCAGCGGAAGGGGG	0.652													10	371	---	---	---	---	PASS	C	105414670	C	C	105414670	3	2	91	1	0	0	0	0	1	0	0	0	415	971	34	4	10273	4	AHNAK2	14	105414670	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	5617	105414670	1934870	513	34509			1	42		6	6	12354	N	G_C	1.481967e-05
AHNAK2	113146	broad.mit.edu	37	chr14	105417072	105417072	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	actttgggcaggtgccctttGaggccggctccctcggacac	13	14	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:105417072G>C	uc010axc.1	-	7	4836	c.4716C>G	c.(4714-4716)CTC>CTG	p.L1572L	AHNAK2_uc001ypx.2_Silent_p.L1472L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1572						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)			GGTGCCCTTTGAGGCCGGCTC	0.607													41	360	---	---	---	---	PASS	C	105417072	C	C	105417072	2	2	91	1	0	0	0	0	0	0	0	1	415	1277	45	2		2	AHNAK2	14	105417072	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	2402	105417072	1932468	514	34510			1	42		6	6	12354	N	G_C	1.481967e-05
AHNAK2	113146	broad.mit.edu	37	chr14	105420059	105420059	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggcattcttatctgtccttCtgtgtcttccctgcccttgt	8	13	4	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:105420059C>T	uc010axc.1	-	7	1849	c.1729G>A	c.(1729-1731)GAA>AAA	p.E577K	AHNAK2_uc001ypx.2_Missense_Mutation_p.E477K	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	577						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)			ATCTGTCCTTCTGTGTCTTCC	0.502													38	422	---	---	---	---	PASS	T	105420059	T	T	105420059	3	4	91	1	0	0	0	0	1	0	0	0	415	922	32	2	15662	2	AHNAK2	14	105420059	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2987	105420059	1929481	515	34511			1	42		6	6	12354	N	G_C	1.481967e-05
AHNAK2	113146	broad.mit.edu	37	chr14	105421375	105421375	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggggcagggagctgccgtctGattttgaactgaaccttgta	14	8	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr14:105421375G>C	uc010axc.1	-	6	690	c.570C>G	c.(568-570)ATC>ATG	p.I190M	AHNAK2_uc001ypx.2_Missense_Mutation_p.I90M	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	190	PDZ.					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)			GCTGCCGTCTGATTTTGAACT	0.507													30	58	---	---	---	---	PASS	C	105421375	C	C	105421375	3	2	91	1	0	0	0	0	1	0	0	0	415	1280	45	2	16825	2	AHNAK2	14	105421375	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1316	105421375	1928165	516	34512			1	42		6	6	12354	N	G_C	1.481967e-05
ATP10A	57194	broad.mit.edu	37	chr15	26026276	26026276	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtcactggaggagagcagcaGaatgtccgcagggaagattt	15	7	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:26026276G>A	uc010ayu.2	-	2	650	c.544C>T	c.(544-546)CTG>TTG	p.L182L		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	182	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GAGAGCAGCAGAATGTCCGCA	0.557													4	92	---	---	---	---	PASS	A	26026276	A	A	26026276	2	1	91	1	0	0	0	0	0	0	0	1	1116	933	33	2		2	ATP10A	15	26026276	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08		26026276	76505116	517	34513										
GJD2	57369	broad.mit.edu	37	chr15	35044789	35044789	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctttctcttggcctgagcccCtcgcacagccagcttgatct	8	16	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:35044789C>T	uc001zis.1	-	2	856	c.856G>A	c.(856-858)GGG>AGG	p.G286R	uc001zit.1_5'Flank	NM_020660	NP_065711	Q9UKL4	CXD2_HUMAN	gap junction protein, delta 2, 36kDa	286	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_lung(180;9.67e-07)		all cancers(64;2.75e-18)|GBM - Glioblastoma multiforme(113;1.9e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		GCCTGAGCCCCTCGCACAGCC	0.512													5	103	---	---	---	---	PASS	T	35044789	T	T	35044789	3	4	91	1	0	0	0	0	1	0	0	0	6417	681	24	3	113	3	GJD2	15	35044789	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	9018513	35044789	67486603	518	34514										
CASC5	57082	broad.mit.edu	37	chr15	40949569	40949569	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctagatgcttgaagaattctCactggtagtgcaccattgca	9	9	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:40949569C>T	uc010bbs.1	+	25	6850	c.6689C>T	c.(6688-6690)TCA>TTA	p.S2230L	CASC5_uc010bbt.1_Missense_Mutation_p.S2204L	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	2230	Necessary for kinetochore localization and for interaction with NSL1 and DSN1.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		GAAGAATTCTCACTGGTAGTG	0.333													8	164	---	---	---	---	PASS	T	40949569	T	T	40949569	3	4	91	1	0	0	0	0	1	0	0	0	2663	838	29	2	6783	2	CASC5	15	40949569	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	5904780	40949569	61581823	519	34515										
ZSCAN29	146050	broad.mit.edu	37	chr15	43654029	43654029	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	attgcctttaccctgatgaaGataccggggaattttccttt	8	9	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:43654029G>A	uc001zrk.1	-	5	1948	c.1801C>T	c.(1801-1803)CTT>TTT	p.L601F	ZSCAN29_uc001zrj.1_Missense_Mutation_p.L481F|ZSCAN29_uc010bdf.1_Silent_p.I529I|ZSCAN29_uc001zrl.1_RNA|ZSCAN29_uc010bdg.1_Missense_Mutation_p.L211F	NM_152455	NP_689668	Q8IWY8	ZSC29_HUMAN	zinc finger protein 690	601					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.97e-07)		CCCTGATGAAGATACCGGGGA	0.433													8	225	---	---	---	---	PASS	A	43654029	A	A	43654029	3	1	91	1	0	0	0	0	1	0	0	0	18233	942	33	2	761	2	ZSCAN29	15	43654029	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2704460	43654029	58877363	520	34516										
CTDSPL2	51496	broad.mit.edu	37	chr15	44751303	44751303	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agaggaaatattcagaggttGatgatagcctgccttcagga	12	6	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:44751303G>C	uc001ztr.2	+	2	507	c.91G>C	c.(91-93)GAT>CAT	p.D31H	CTDSPL2_uc001zts.2_Missense_Mutation_p.D31H|CTDSPL2_uc001ztt.2_Missense_Mutation_p.D31H|CTDSPL2_uc010bdv.2_Missense_Mutation_p.D31H	NM_016396	NP_057480	Q05D32	CTSL2_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	31							phosphoprotein phosphatase activity				0		all_cancers(109;4.36e-14)|all_epithelial(112;9.8e-12)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.0122)		all cancers(107;1.02e-20)|GBM - Glioblastoma multiforme(94;1.49e-06)|COAD - Colon adenocarcinoma(120;0.0857)|Colorectal(105;0.0905)		TTCAGAGGTTGATGATAGCCT	0.408													5	127	---	---	---	---	PASS	C	44751303	C	C	44751303	3	2	91	1	0	0	0	0	1	0	0	0	4006	1290	45	2	93	2	CTDSPL2	15	44751303	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1097274	44751303	57780089	521	34517										
SLTM	79811	broad.mit.edu	37	chr15	59191709	59191709	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccagtagacgagggccctttCttcaaagtatccttttcttt	7	11	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:59191709C>T	uc002afp.2	-	7	1105	c.1017G>A	c.(1015-1017)AAG>AAA	p.K339K	SLTM_uc002afo.2_Silent_p.K321K|SLTM_uc002afq.2_Intron|SLTM_uc010bgd.2_Intron|SLTM_uc002afr.1_Silent_p.K238K	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	339					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						AGGGCCCTTTCTTCAAAGTAT	0.438													16	114	---	---	---	---	PASS	T	59191709	T	T	59191709	2	4	91	1	0	0	0	0	0	0	0	1	14754	912	32	2		2	SLTM	15	59191709	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	14440406	59191709	43339683	522	34518										
CT62	196993	broad.mit.edu	37	chr15	71404515	71404515	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gacgctgtgctgcaggctggGaaccacaggagaaatggctg	16	9	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:71404515G>A	uc002ata.2	-	3	620	c.107C>T	c.(106-108)TCC>TTC	p.S36F		NM_001102658	NP_001096128	P0C5K7	CT62_HUMAN	cancer/testis antigen 62	36											0						TGCAGGCTGGGAACCACAGGA	0.552													4	42	---	---	---	---	PASS	A	71404515	A	A	71404515	3	1	91	1	0	0	0	0	1	0	0	0	3990	1174	41	2	311	2	CT62	15	71404515	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	12212806	71404515	31126877	523	34519										
HEXA	3073	broad.mit.edu	37	chr15	72641494	72641494	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acagagctgacttctaagaaGaatgtgctcatgaactcata	8	8	3	5	rs121907960		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:72641494G>C	uc002aun.3	-	8	1119	c.912C>G	c.(910-912)TTC>TTG	p.F304L	uc002aug.2_Intron|CELF6_uc002auk.3_Intron|HEXA_uc010ukn.1_Missense_Mutation_p.F315L|HEXA_uc002auo.3_Missense_Mutation_p.F167L|HEXA_uc010bix.2_Missense_Mutation_p.F304L|HEXA_uc010biy.2_Missense_Mutation_p.F167L|HEXA_uc010uko.1_Missense_Mutation_p.F130L|HEXA_uc010biz.1_RNA	NM_000520	NP_000511	P06865	HEXA_HUMAN	hexosaminidase A preproprotein	304			Missing (in GM2G1; infantile; Moroccan Jewish).		cell death	lysosome	beta-N-acetylhexosaminidase activity|cation binding|protein heterodimerization activity			ovary(3)|upper_aerodigestive_tract(1)	4						CTTCTAAGAAGAATGTGCTCA	0.463													13	69	---	---	---	---	PASS	C	72641494	C	C	72641494	3	2	91	1	0	0	0	0	1	0	0	0	7073	933	33	2	705	2	HEXA	15	72641494	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1236979	72641494	29889898	524	34520										
CCDC33	80125	broad.mit.edu	37	chr15	74573116	74573116	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagggaaaggcttggacgggCttcacgtggagcggctcccc	16	12	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:74573116C>A	uc002axo.2	+	9	1391	c.997C>A	c.(997-999)CTT>ATT	p.L333I	CCDC33_uc002axp.2_Missense_Mutation_p.L155I	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	536							protein binding			ovary(3)|skin(2)	5						CTTGGACGGGCTTCACGTGGA	0.507													32	58	---	---	---	---	PASS	A	74573116	A	A	74573116	3	1	91	1	0	0	0	0	1	0	0	0	2806	797	28	3	1031	3	CCDC33	15	74573116	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1931622	74573116	27958276	525	34521										
PTPN9	5780	broad.mit.edu	37	chr15	75762311	75762311	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctggccagctcaagaactgGaagtgggtcacctggcgttt	13	10	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:75762311G>C	uc002bal.2	-	12	1897	c.1389C>G	c.(1387-1389)TTC>TTG	p.F463L		NM_002833	NP_002824	P43378	PTN9_HUMAN	protein tyrosine phosphatase, non-receptor type	463	Tyrosine-protein phosphatase.					cytoplasmic part	non-membrane spanning protein tyrosine phosphatase activity|protein binding			lung(1)|skin(1)	2						TCAAGAACTGGAAGTGGGTCA	0.498													11	68	---	---	---	---	PASS	C	75762311	C	C	75762311	3	2	91	1	0	0	0	0	1	0	0	0	12794	1165	41	2	400	2	PTPN9	15	75762311	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1189195	75762311	26769081	526	34522										
PTPN9	5780	broad.mit.edu	37	chr15	75763113	75763113	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaggaagccaaatcggatccGagagtctttttctaaaggcc	11	9	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:75763113G>C	uc002bal.2	-	11	1775	c.1267C>G	c.(1267-1269)CGG>GGG	p.R423G		NM_002833	NP_002824	P43378	PTN9_HUMAN	protein tyrosine phosphatase, non-receptor type	423	Tyrosine-protein phosphatase.					cytoplasmic part	non-membrane spanning protein tyrosine phosphatase activity|protein binding			lung(1)|skin(1)	2						AATCGGATCCGAGAGTCTTTT	0.463													17	109	---	---	---	---	PASS	C	75763113	C	C	75763113	3	2	91	1	0	0	0	0	1	0	0	0	12794	1057	37	2	526	2	PTPN9	15	75763113	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	802	75763113	26768279	527	34523										
AP3B2	8120	broad.mit.edu	37	chr15	83349908	83349908	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctcaatgacttctatcagctGatccttctggtcagagtcca	7	12	5	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:83349908G>A	uc010uoh.1	-	6	721	c.544C>T	c.(544-546)CAG>TAG	p.Q182*	AP3B2_uc010uoi.1_Nonsense_Mutation_p.Q182*|AP3B2_uc010uoj.1_Nonsense_Mutation_p.Q150*|AP3B2_uc010uog.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	182					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)			TCTATCAGCTGATCCTTCTGG	0.577													3	19	---	---	---	---	PASS	A	83349908	A	A	83349908	4	1	91	1	0	0	0	0	0	1	0	0	745	1299	45	2	2712	2	AP3B2	15	83349908	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7586795	83349908	19181484	528	34524										
ALPK3	57538	broad.mit.edu	37	chr15	85383714	85383714	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctccagacaaggcccagaagGcccctggcccaggcccaggc	12	18	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:85383714G>T	uc002ble.2	+	5	1977	c.1810G>T	c.(1810-1812)GCC>TCC	p.A604S		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	604					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GGCCCAGAAGGCCCCTGGCCC	0.637													10	38	---	---	---	---	PASS	T	85383714	T	T	85383714	3	4	91	1	0	0	0	0	1	0	0	0	546	1203	42	3	1828	3	ALPK3	15	85383714	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2033806	85383714	17147678	529	34525										
CIB1	10519	broad.mit.edu	37	chr15	90774374	90774374	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgcactaagccgtgtgtcctCgccctctcccgtgaggcagt	11	16	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:90774374C>T	uc002bpb.3	-	5	580	c.418G>A	c.(418-420)GAG>AAG	p.E140K		NM_006384	NP_006375	Q99828	CIB1_HUMAN	calcium and integrin binding 1	140					apoptosis|cell adhesion|double-strand break repair	apical plasma membrane|endoplasmic reticulum|filopodium|nucleoplasm	calcium ion binding|protein binding				0	Melanoma(11;0.00551)|Lung NSC(78;0.0141)|all_lung(78;0.0303)		BRCA - Breast invasive adenocarcinoma(143;0.00269)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.217)			CGTGTGTCCTCGCCCTCTCCC	0.582													29	116	---	---	---	---	PASS	T	90774374	T	T	90774374	3	4	91	1	0	0	0	0	1	0	0	0	3420	893	31	2	169	2	CIB1	15	90774374	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	5390660	90774374	11757018	530	34526										
IQGAP1	8826	broad.mit.edu	37	chr15	91020916	91020916	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggtcgaaggtagatcagattCaagagattgtgacaggaaat	13	4	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:91020916C>G	uc002bpl.1	+	26	3225	c.3124C>G	c.(3124-3126)CAA>GAA	p.Q1042E		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1042	Ras-GAP.|C1.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			AGATCAGATTCAAGAGATTGT	0.403													13	148	---	---	---	---	PASS	G	91020916	G	G	91020916	3	3	91	1	0	0	0	0	1	0	0	0	7814	827	29	2	3226	2	IQGAP1	15	91020916	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	246542	91020916	11510476	531	34527										
FURIN	5045	broad.mit.edu	37	chr15	91423120	91423120	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gccactcatatggctacgggCttttggacgcaggcgccatg	13	12	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:91423120C>G	uc002bpu.1	+	12	1498	c.1282C>G	c.(1282-1284)CTT>GTT	p.L428V		NM_002569	NP_002560	P09958	FURIN_HUMAN	furin preproprotein	428					cell proliferation|negative regulation of low-density lipoprotein particle receptor catabolic process|negative regulation of transforming growth factor-beta1 production|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|Notch signaling pathway|peptide biosynthetic process|peptidyl-glutamic acid carboxylation|post-translational protein modification|secretion by cell|signal peptide processing|transforming growth factor beta receptor signaling pathway|viral assembly, maturation, egress, and release	cell surface|Golgi lumen|Golgi membrane|integral to membrane|membrane raft|plasma membrane|trans-Golgi network|trans-Golgi network transport vesicle	metal ion binding|nerve growth factor binding|peptide binding|protease binding|serine-type endopeptidase activity|serine-type endopeptidase inhibitor activity			central_nervous_system(4)|lung(2)|breast(1)	7	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			TGGCTACGGGCTTTTGGACGC	0.617													36	82	---	---	---	---	PASS	G	91423120	G	G	91423120	3	3	91	1	0	0	0	0	1	0	0	0	6099	797	28	4	1324	4	FURIN	15	91423120	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	402204	91423120	11108272	532	34528										
CHSY1	22856	broad.mit.edu	37	chr15	101718886	101718886	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agaaactcccattccagaatCtcctctcgctggcggggctg	10	14	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr15:101718886C>G	uc002bwt.1	-	4	1599	c.1116G>C	c.(1114-1116)GAG>GAC	p.E372D	CHSY1_uc010usd.1_Missense_Mutation_p.E100D	NM_014918	NP_055733	Q86X52	CHSS1_HUMAN	chondroitin sulfate synthase 1	372	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity				0	Lung NSC(78;0.00217)|all_lung(78;0.00271)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			ATTCCAGAATCTCCTCTCGCT	0.532													38	96	---	---	---	---	PASS	G	101718886	G	G	101718886	3	3	91	1	0	0	0	0	1	0	0	0	3412	912	32	2	1296	2	CHSY1	15	101718886	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	10295766	101718886	812506	533	34529										
OR1F1	4992	broad.mit.edu	37	chr16	3254937	3254937	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctgtcctgaaggtcccatccAcaaagggaaggtggaaagcc	12	11	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:3254937A>G	uc010uwu.1	+	1	691	c.691A>G	c.(691-693)ACA>GCA	p.T231A		NM_012360	NP_036492	O43749	OR1F1_HUMAN	olfactory receptor, family 1, subfamily F,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGTCCCATCCACAAAGGGAAG	0.498													49	137	---	---	---	---	PASS	G	3254937	G	G	3254937	3	3	91	1	0	0	0	0	1	0	0	0	10956	159	6	5	693	5	OR1F1	16	3254937	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08		3254937	87099816	534	34530										
BTBD12	84464	broad.mit.edu	37	chr16	3633150	3633150	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cacagaggtggccacggattCttgagaggctgggatctggg	17	8	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:3633150C>G	uc002cvp.2	-	14	5728	c.5101G>C	c.(5101-5103)GAA>CAA	p.E1701Q		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1701	Interaction with PLK1 and TERF2-TERF2IP.|Interaction with SLX1.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						GCCACGGATTCTTGAGAGGCT	0.577								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				15	141	---	---	---	---	PASS	G	3633150	G	G	3633150	3	3	91	1	0	0	0	0	1	0	0	0	1540	922	32	2	411	2	BTBD12	16	3633150	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	378213	3633150	86721603	535	34531										
CREBBP	1387	broad.mit.edu	37	chr16	3778105	3778105	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagcatgtgttgctgggggcTcatggggttcggctggcctg	19	8	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:3778105T>A	uc002cvv.2	-	31	7147	c.6943A>T	c.(6943-6945)AGC>TGC	p.S2315C	CREBBP_uc002cvw.2_Missense_Mutation_p.S2277C	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2315					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)		TGCTGGGGGCTCATGGGGTTC	0.627			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				20	113	---	---	---	---	PASS	A	3778105	A	A	3778105	3	1	91	1	0	0	0	0	1	0	0	0	3861	1551	54	5	389	5	CREBBP	16	3778105	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	144955	3778105	86576648	536	34532										
CREBBP	1387	broad.mit.edu	37	chr16	3779748	3779748	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gctggatgctcagccggcgtGactcctgggggctctttgac	15	12	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:3779748G>A	uc002cvv.2	-	31	5504	c.5300C>T	c.(5299-5301)TCA>TTA	p.S1767L	CREBBP_uc002cvw.2_Missense_Mutation_p.S1729L	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1767	TAZ-type 2.|Interaction with TRERF1.				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)		CAGCCGGCGTGACTCCTGGGG	0.642			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				5	39	---	---	---	---	PASS	A	3779748	A	A	3779748	3	1	91	1	0	0	0	0	1	0	0	0	3861	1294	45	2	2032	2	CREBBP	16	3779748	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1643	3779748	86575005	537	34533										
GLYR1	84656	broad.mit.edu	37	chr16	4863804	4863804	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acgtagcacttcccagggcgGatcccttgcagcacaccact	9	16	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:4863804G>A	uc002cxx.3	-	12	1090	c.1053C>T	c.(1051-1053)ATC>ATT	p.I351I	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Silent_p.I265I|GLYR1_uc002cya.2_Silent_p.I345I|GLYR1_uc010uxv.1_Silent_p.I270I	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	351					pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						TCCCAGGGCGGATCCCTTGCA	0.627													5	32	---	---	---	---	PASS	A	4863804	A	A	4863804	2	1	91	1	0	0	0	0	0	0	0	1	6483	1164	41	2		2	GLYR1	16	4863804	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1084056	4863804	85490949	538	34534										
SEC14L5	9717	broad.mit.edu	37	chr16	5055943	5055943	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cttcatcaatgagaacaccaGgcggaagttcctcatctaca	7	12	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:5055943G>T	uc002cye.2	+	12	1511	c.1331G>T	c.(1330-1332)AGG>ATG	p.R444M		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	444	CRAL-TRIO.					integral to membrane|intracellular	transporter activity				0						GAGAACACCAGGCGGAAGTTC	0.423													8	18	---	---	---	---	PASS	T	5055943	T	T	5055943	3	4	91	1	0	0	0	0	1	0	0	0	13985	1000	35	3	1373	3	SEC14L5	16	5055943	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	192139	5055943	85298810	539	34535										
TEKT5	146279	broad.mit.edu	37	chr16	10775923	10775923	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctcaggttaaagcacttctCatcgatacactgggccgagc	9	12	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:10775923C>A	uc002czz.1	-	4	862	c.790G>T	c.(790-792)GAG>TAG	p.E264*		NM_144674	NP_653275	Q96M29	TEKT5_HUMAN	tektin 5	264					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2						AAGCACTTCTCATCGATACAC	0.537													36	231	---	---	---	---	PASS	A	10775923	A	A	10775923	4	1	91	1	0	0	0	0	0	1	0	0	15753	835	29	2	683	2	TEKT5	16	10775923	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	5719980	10775923	79578830	540	34536										
SMG1	23049	broad.mit.edu	37	chr16	18827768	18827768	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttctctgtctgaattgccctCtgagtagacatatcctgggt	9	10	3	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:18827768C>G	uc002dfm.2	-	58	10521	c.10158G>C	c.(10156-10158)CAG>CAC	p.Q3386H	SMG1_uc010bwb.2_Missense_Mutation_p.Q3246H|SMG1_uc010bwa.2_Missense_Mutation_p.Q2117H	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	3386					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						GAATTGCCCTCTGAGTAGACA	0.423													5	80	---	---	---	---	PASS	G	18827768	G	G	18827768	3	3	91	1	0	0	0	0	1	0	0	0	14795	912	32	2	851	2	SMG1	16	18827768	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	8051845	18827768	71526985	541	34537										
TMC5	79838	broad.mit.edu	37	chr16	19501728	19501728	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttttaccagattgaagccttCagctgactgtggcccttttc	8	11	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:19501728C>T	uc002dgc.3	+	18	3334	c.2585C>T	c.(2584-2586)TCA>TTA	p.S862L	TMC5_uc010vaq.1_Missense_Mutation_p.S810L|TMC5_uc002dgb.3_Intron|TMC5_uc010var.1_Missense_Mutation_p.S862L|TMC5_uc002dgd.1_Missense_Mutation_p.S616L|TMC5_uc002dge.3_Missense_Mutation_p.S616L|TMC5_uc002dgf.3_Missense_Mutation_p.S545L|TMC5_uc002dgg.3_Missense_Mutation_p.S503L	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	862	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						TTGAAGCCTTCAGCTGACTGT	0.507													30	197	---	---	---	---	PASS	T	19501728	T	T	19501728	3	4	91	1	0	0	0	0	1	0	0	0	15985	838	29	2	2961	2	TMC5	16	19501728	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	673960	19501728	70853025	542	34538										
C16orf88	400506	broad.mit.edu	37	chr16	19718331	19718331	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccggctccccggctgtacttCcagctcatggcccggtcgta	11	17	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:19718331C>T	uc002dgq.2	-	5	1293	c.1278G>A	c.(1276-1278)TGG>TGA	p.W426*		NM_001012991	NP_001013009	Q1ED39	CP088_HUMAN	hypothetical protein LOC400506	426	Interaction with ZFP106 (By similarity).					nucleolus					0						GGCTGTACTTCCAGCTCATGG	0.592													28	168	---	---	---	---	PASS	T	19718331	T	T	19718331	4	4	91	1	0	0	0	0	0	1	0	0	1841	856	30	2	102	2	C16orf88	16	19718331	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	216603	19718331	70636422	543	34539										
SULT1A1	6817	broad.mit.edu	37	chr16	28631386	28631386	+	Translation_Start_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttcaaacgcctgtcttaccaTataggtgttccagaatttct	6	10	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:28631386T>C	uc002dqn.2	-	2	484	c.-67A>G	c.(-69--65)ATATG>ATGTG		uc010vct.1_Intron|SULT1A1_uc002dqm.2_Missense_Mutation_p.M46V|SULT1A1_uc002dqo.2_Translation_Start_Site|SULT1A1_uc002dqp.2_Translation_Start_Site	NM_177534	NP_803878	P50225	ST1A1_HUMAN	sulfotransferase family, cytosolic, 1A,						3'-phosphoadenosine 5'-phosphosulfate metabolic process|catecholamine metabolic process|flavonoid metabolic process|steroid metabolic process|sulfation|xenobiotic metabolic process	cytosol	aryl sulfotransferase activity|flavonol 3-sulfotransferase activity				0						TGTCTTACCATATAGGTGTTC	0.254													12	48	---	---	---	---	PASS	C	28631386	C	C	28631386	1	2	91	1	0	0	0	0	0	0	0	0	15371	1406	49	5		5	SULT1A1	16	28631386	Translation_Start_Site	SNP	T	TCGA-39-5031-01A-01D-1441-08	8913055	28631386	61723367	544	34540										
ZNF668	79759	broad.mit.edu	37	chr16	31075372	31075372	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgcacagcggaagggcagttCgccagcgtgcgaggccaggt	17	12	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:31075372C>G	uc010caf.2	-	2	766	c.409G>C	c.(409-411)GAA>CAA	p.E137Q	ZNF668_uc002eao.2_Missense_Mutation_p.E137Q|ZNF668_uc010cag.1_Missense_Mutation_p.E137Q	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	137					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						AAGGGCAGTTCGCCAGCGTGC	0.701													9	23	---	---	---	---	PASS	G	31075372	G	G	31075372	3	3	91	1	0	0	0	0	1	0	0	0	18072	893	31	2	1458	2	ZNF668	16	31075372	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2443986	31075372	59279381	545	34541										
ITGAM	3684	broad.mit.edu	37	chr16	31273035	31273035	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttgaccttatgtcatgggttCaacttggacactgaaaacgc	9	9	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:31273035C>G	uc002ebq.2	+	2	149	c.51C>G	c.(49-51)TTC>TTG	p.F17L	ITGAM_uc002ebr.2_Missense_Mutation_p.F17L	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	17	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						GTCATGGGTTCAACTTGGACA	0.473													12	30	---	---	---	---	PASS	G	31273035	G	G	31273035	3	3	91	1	0	0	0	0	1	0	0	0	7887	825	29	2	57	2	ITGAM	16	31273035	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	197663	31273035	59081718	546	34542										
HSD11B2	3291	broad.mit.edu	37	chr16	67470609	67470609	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagcacttgcatgggcagttCctgcactcgctacgcctggc	12	14	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:67470609C>G	uc002etd.2	+	5	1037	c.921C>G	c.(919-921)TTC>TTG	p.F307L		NM_000196	NP_000187	P80365	DHI2_HUMAN	hydroxysteroid (11-beta) dehydrogenase 2	307					glucocorticoid biosynthetic process	endoplasmic reticulum|microsome					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0401)|Epithelial(162;0.0891)	NADH(DB00157)	ATGGGCAGTTCCTGCACTCGC	0.617													30	130	---	---	---	---	PASS	G	67470609	G	G	67470609	3	3	91	1	0	0	0	0	1	0	0	0	7377	854	30	2	939	2	HSD11B2	16	67470609	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	36197574	67470609	22884144	547	34543										
RANBP10	57610	broad.mit.edu	37	chr16	67763247	67763247	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggagtctgttgagttggactCggagtaattgacggaggatg	17	4	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:67763247C>A	uc002eud.2	-	10	1404	c.1288G>T	c.(1288-1290)GAG>TAG	p.E430*	RANBP10_uc010ceo.2_Nonsense_Mutation_p.E201*|RANBP10_uc010vju.1_Nonsense_Mutation_p.E374*|RANBP10_uc010vjv.1_Nonsense_Mutation_p.E313*|RANBP10_uc010vjw.1_Nonsense_Mutation_p.E91*	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	430	Ser-rich.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		GAGTTGGACTCGGAGTAATTG	0.408													3	78	---	---	---	---	PASS	A	67763247	A	A	67763247	4	1	91	1	0	0	0	0	0	1	0	0	13026	893	31	2	594	2	RANBP10	16	67763247	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	292638	67763247	22591506	548	34544										
EDC4	23644	broad.mit.edu	37	chr16	67914814	67914814	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggaggcagccttgacccagGaggcctcgactcctgacagt	13	13	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:67914814G>A	uc002eur.2	+	18	2618	c.2452G>A	c.(2452-2454)GAG>AAG	p.E818K	EDC4_uc010cer.2_Missense_Mutation_p.E437K|EDC4_uc002eus.2_Missense_Mutation_p.E548K|EDC4_uc002eut.1_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	818					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		CTTGACCCAGGAGGCCTCGAC	0.642													5	144	---	---	---	---	PASS	A	67914814	A	A	67914814	3	1	91	1	0	0	0	0	1	0	0	0	4908	1175	41	2	2522	2	EDC4	16	67914814	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	151567	67914814	22439939	549	34545										
EDC4	23644	broad.mit.edu	37	chr16	67916221	67916221	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagaacatctccaagctgctCaagtccaaggtgctataggg	11	10	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:67916221C>G	uc002eur.2	+	24	3433	c.3267C>G	c.(3265-3267)CTC>CTG	p.L1089L	EDC4_uc010cer.2_Silent_p.L708L|EDC4_uc002eus.2_Silent_p.L819L|EDC4_uc002eut.1_5'Flank|NRN1L_uc002euu.2_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	1089					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		CCAAGCTGCTCAAGTCCAAGG	0.582													13	28	---	---	---	---	PASS	G	67916221	G	G	67916221	2	3	91	1	0	0	0	0	0	0	0	1	4908	813	29	2		2	EDC4	16	67916221	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1407	67916221	22438532	550	34546										
DPEP2	64174	broad.mit.edu	37	chr16	68026025	68026025	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcacacatgcggcgtatgagGtcaatctgctccagggtgag	14	10	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:68026025G>A	uc010cey.2	-	3	626	c.462C>T	c.(460-462)GAC>GAT	p.D154D	DPEP2_uc002evd.3_Silent_p.D154D|DPEP2_uc002eve.2_Silent_p.D154D|DPEP2_uc002evf.2_RNA|DPEP2_uc002evg.2_Missense_Mutation_p.T112I	NM_022355	NP_071750	Q9H4A9	DPEP2_HUMAN	dipeptidase 2 precursor	154					hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|proteolysis	anchored to membrane|plasma membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0489)|all cancers(182;0.239)		GGCGTATGAGGTCAATCTGCT	0.572													12	131	---	---	---	---	PASS	A	68026025	A	A	68026025	2	1	91	1	0	0	0	0	0	0	0	1	4714	1252	44	3		3	DPEP2	16	68026025	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	109804	68026025	22328728	551	34547										
NQO1	1728	broad.mit.edu	37	chr16	69748870	69748870	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagaaccatccacctacccgGaagggtcctttgtcatacat	7	14	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:69748870G>A	uc002exp.2	-	4	605	c.414C>T	c.(412-414)TTC>TTT	p.F138F	NQO1_uc010cfm.2_Silent_p.F117F|NQO1_uc002exq.2_Silent_p.F138F|NQO1_uc002exr.2_Intron|NQO1_uc010vll.1_Intron	NM_000903	NP_000894	P15559	NQO1_HUMAN	NAD(P)H menadione oxidoreductase 1,	138					nitric oxide biosynthetic process|regulation of cellular amino acid metabolic process|response to toxin|synaptic transmission, cholinergic|xenobiotic metabolic process	cytosol	coenzyme binding|cytochrome-b5 reductase activity|electron carrier activity|NAD(P)H dehydrogenase (quinone) activity				0					Dicumarol(DB00266)|Menadione(DB00170)	CACCTACCCGGAAGGGTCCTT	0.438													39	258	---	---	---	---	PASS	A	69748870	A	A	69748870	2	1	91	1	0	0	0	0	0	0	0	1	10611	1165	41	2		2	NQO1	16	69748870	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1722845	69748870	20605883	552	34548										
SF3B3	23450	broad.mit.edu	37	chr16	70578410	70578410	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtaggggaccccgatcatctCtgagagtcctaagacatgga	12	10	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:70578410C>T	uc002ezf.2	+	10	1514	c.1303C>T	c.(1303-1305)CTG>TTG	p.L435L		NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3	435					protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				CCGATCATCTCTGAGAGTCCT	0.443													20	134	---	---	---	---	PASS	T	70578410	T	T	70578410	2	4	91	1	0	0	0	0	0	0	0	1	14152	912	32	2		2	SF3B3	16	70578410	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	829540	70578410	19776343	553	34549										
WDR59	79726	broad.mit.edu	37	chr16	74990499	74990499	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctagattgacgatgtataaGaatctgcggctagagaccaa	10	7	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:74990499G>C	uc002fdh.1	-	3	216	c.114C>G	c.(112-114)TTC>TTG	p.F38L	WDR59_uc002fdi.2_Missense_Mutation_p.F38L|WDR59_uc002fdj.2_Missense_Mutation_p.F38L	NM_030581	NP_085058	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	38										ovary(1)|breast(1)	2						CGATGTATAAGAATCTGCGGC	0.398													15	79	---	---	---	---	PASS	C	74990499	C	C	74990499	3	2	91	1	0	0	0	0	1	0	0	0	17305	933	33	2	2906	2	WDR59	16	74990499	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4412089	74990499	15364254	554	34550										
TRAPPC2L	51693	broad.mit.edu	37	chr16	88923573	88923573	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cccaagatggcggtgtgcatCgcggtgattgccaaggaggt	16	9	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr16:88923573C>T	uc002fmc.2	+	1	68	c.15C>T	c.(13-15)ATC>ATT	p.I5I	GALNS_uc002fly.3_5'Flank|GALNS_uc010cid.2_5'Flank|GALNS_uc002flz.3_5'Flank|GALNS_uc002fma.2_5'Flank|TRAPPC2L_uc010cie.2_Intron|TRAPPC2L_uc002fmd.3_Silent_p.I5I|TRAPPC2L_uc002fme.3_Silent_p.I5I|TRAPPC2L_uc002fmf.2_5'Flank	NM_016209	NP_057293	Q9UL33	TPC2L_HUMAN	trafficking protein particle complex 2-like	5					ER to Golgi vesicle-mediated transport	endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm					0				BRCA - Breast invasive adenocarcinoma(80;0.0477)		CGGTGTGCATCGCGGTGATTG	0.682													3	11	---	---	---	---	PASS	T	88923573	T	T	88923573	2	4	91	1	0	0	0	0	0	0	0	1	16456	874	31	2		2	TRAPPC2L	16	88923573	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	13933074	88923573	1431180	555	34551										
GEMIN4	50628	broad.mit.edu	37	chr17	648684	648684	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtgaaggcgctgccactcctGagggctgcaccaaggcatga	14	12	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:648684G>A	uc002frs.1	-	2	2718	c.2599C>T	c.(2599-2601)CAG>TAG	p.Q867*		NM_015721	NP_056536	P57678	GEMI4_HUMAN	gemin 4	867					rRNA processing|spliceosomal snRNP assembly	Cajal body|cytosol|nucleolus|small nuclear ribonucleoprotein complex|spliceosomal complex	protein binding			ovary(2)|kidney(1)|skin(1)	4		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		TGCCACTCCTGAGGGCTGCAC	0.562													4	38	---	---	---	---	PASS	A	648684	A	A	648684	4	1	91	1	0	0	0	0	0	1	0	0	6330	1299	45	2	581	2	GEMIN4	17	648684	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08		648684	80546526	556	34552										
SHPK	23729	broad.mit.edu	37	chr17	3539509	3539509	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgagggtgatcggccgcgcaGccattatctccctgacccgc	12	16	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:3539509G>A	uc002fvz.1	-	1	108	c.5C>T	c.(4-6)GCT>GTT	p.A2V	CTNS_uc002fwa.2_5'Flank|CTNS_uc002fwb.2_5'Flank|CTNS_uc010ckj.2_5'Flank|CTNS_uc010vrv.1_5'Flank|CTNS_uc010vrw.1_5'Flank	NM_013276	NP_037408	Q9UHJ6	SHPK_HUMAN	carbohydrate kinase-like	2					carbohydrate metabolic process	cytoplasm	ATP binding|sedoheptulokinase activity			ovary(1)	1				COAD - Colon adenocarcinoma(5;0.0828)		CGGCCGCGCAGCCATTATCTC	0.706													5	35	---	---	---	---	PASS	A	3539509	A	A	3539509	3	1	91	1	0	0	0	0	1	0	0	0	14290	971	34	3	1459	3	SHPK	17	3539509	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2890825	3539509	77655701	557	34553										
SLC16A11	162515	broad.mit.edu	37	chr17	6945349	6945349	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cccaggagccccccgaggctCatcagcatcatcaccagccc	8	20	4	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:6945349C>T	uc002gei.1	-	3	1490	c.1152G>A	c.(1150-1152)ATG>ATA	p.M384I		NM_153357	NP_699188	Q8NCK7	MOT11_HUMAN	solute carrier family 16, member 11	384	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(1)	1						CCCCGAGGCTCATCAGCATCA	0.637													17	24	---	---	---	---	PASS	T	6945349	T	T	6945349	3	4	91	1	0	0	0	0	1	0	0	0	14404	826	29	2	271	2	SLC16A11	17	6945349	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3405840	6945349	74249861	558	34554										
DLG4	1742	broad.mit.edu	37	chr17	7095304	7095304	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acggcattggccgagacatcGaggatgcagtgcttcccctg	13	12	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:7095304G>A	uc002get.3	-	20	3214	c.2013C>T	c.(2011-2013)CTC>CTT	p.L671L	DLG4_uc010vtm.1_Intron|DLG4_uc010vtn.1_Silent_p.L568L|DLG4_uc010cly.2_Silent_p.L625L|DLG4_uc010vto.1_Silent_p.L668L	NM_001365	NP_001356	P78352	DLG4_HUMAN	post-synaptic density protein 95 isoform 1	628	Guanylate kinase-like.				axon guidance|learning|protein complex assembly|protein localization to synapse|signal transduction|synaptic transmission	cell junction|cortical cytoskeleton|endocytic vesicle membrane|neuron spine|postsynaptic density|postsynaptic membrane|synaptosome	protein binding|protein C-terminus binding			ovary(1)|breast(1)	2						CCGAGACATCGAGGATGCAGT	0.692													4	27	---	---	---	---	PASS	A	7095304	A	A	7095304	2	1	91	1	0	0	0	0	0	0	0	1	4557	1045	37	2		2	DLG4	17	7095304	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	149955	7095304	74099906	559	34555										
TNFSF13	8741	broad.mit.edu	37	chr17	7462439	7462439	+	Nonsense_Mutation	SNP	C	G	G													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtcagagagccggcactctCagttgccctctggttgagtt							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:7462439C>G	uc002ghk.2	+	1	831	c.83C>G	c.(82-84)TCA>TGA	p.S28*	SENP3_uc002ghm.2_5'Flank|TNFSF12-TNFSF13_uc002ghi.1_Intron|TNFSF13_uc002ghj.2_Nonsense_Mutation_p.S28*|TNFSF13_uc002ghl.2_Nonsense_Mutation_p.S28*|TNFSF13_uc010cmk.2_Nonsense_Mutation_p.S28*|TNFSF13_uc010vua.1_Nonsense_Mutation_p.S28*	NM_003808	NP_003799	O75888	TNF13_HUMAN	tumor necrosis factor ligand superfamily, member	28					mRNA metabolic process|positive regulation of cell proliferation|positive regulation of isotype switching to IgA isotypes|signal transduction	extracellular space|nucleoplasm	cytokine activity|tumor necrosis factor receptor binding			skin(1)	1		Prostate(122;0.157)				CCGGCACTCTCAGTTGCCCTC	0.632													8	74	---	---	---	---	PASS	G	7462439	G	G	7462439	4	3	91	1	0	0	0	0	0	1	0	0	16302	838	29	2	85	2	TNFSF13	17	7462439	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	367135	7462439	73732771	560	34556	659	2								
TNFSF13	8741	broad.mit.edu	37	chr17	7462449	7462449	+	Silent	SNP	C	T	T													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccggcactctcagttgccctCtggttgagttggggggcagc							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:7462449C>T	uc002ghk.2	+	1	841	c.93C>T	c.(91-93)CTC>CTT	p.L31L	SENP3_uc002ghm.2_5'Flank|TNFSF12-TNFSF13_uc002ghi.1_Intron|TNFSF13_uc002ghj.2_Silent_p.L31L|TNFSF13_uc002ghl.2_Silent_p.L31L|TNFSF13_uc010cmk.2_Silent_p.L31L|TNFSF13_uc010vua.1_Silent_p.L31L	NM_003808	NP_003799	O75888	TNF13_HUMAN	tumor necrosis factor ligand superfamily, member	31					mRNA metabolic process|positive regulation of cell proliferation|positive regulation of isotype switching to IgA isotypes|signal transduction	extracellular space|nucleoplasm	cytokine activity|tumor necrosis factor receptor binding			skin(1)	1		Prostate(122;0.157)				CAGTTGCCCTCTGGTTGAGTT	0.637													6	70	---	---	---	---	PASS	T	7462449	T	T	7462449	2	4	91	1	0	0	0	0	0	0	0	1	16302	900	32	2		2	TNFSF13	17	7462449	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	10	7462449	73732761	561	34557	659	2								
TP53	7157	broad.mit.edu	37	chr17	7579378	7579378	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cggaaaccgtagctgccctgGtaggttttctgggaagggac	15	9	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:7579378G>T	uc002gim.2	-	4	503	c.309C>A	c.(307-309)TAC>TAA	p.Y103*	TP53_uc002gig.1_Nonsense_Mutation_p.Y103*|TP53_uc002gih.2_Nonsense_Mutation_p.Y103*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Nonsense_Mutation_p.Y103*|TP53_uc010cni.1_Nonsense_Mutation_p.Y103*|TP53_uc002gij.2_Nonsense_Mutation_p.Y103*|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Nonsense_Mutation_p.Y64*|TP53_uc010cnk.1_Nonsense_Mutation_p.Y118*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	103	Interaction with HIPK1 (By similarity).||Interaction with WWOX.				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.0?(7)|p.G59fs*23(3)|p.Y103*(2)|p.V73fs*9(1)|p.Y103Y(1)|p.Y103_Q104>**(1)|p.W91fs*13(1)|p.Y103_G112>C(1)|p.P13fs*18(1)|p.S33fs*23(1)|p.Y103_L111>L(1)|p.Y103fs*15(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)		AGCTGCCCTGGTAGGTTTTCT	0.637		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)			56	53	---	---	---	---	PASS	T	7579378	T	T	7579378	4	4	91	1	0	0	0	0	0	1	0	0	16378	1256	44	3	993	3	TP53	17	7579378	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	116929	7579378	73615832	562	34558										
WDR16	146845	broad.mit.edu	37	chr17	9490041	9490041	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atcattttgtgggattataaGaacagagagctgcttgctcg	11	6	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:9490041G>A	uc002gly.2	+	3	366	c.297G>A	c.(295-297)AAG>AAA	p.K99K	WDR16_uc002glz.2_Silent_p.K31K|WDR16_uc010coc.2_Silent_p.K109K	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	99	WD 1.					cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						GGGATTATAAGAACAGAGAGC	0.473													37	54	---	---	---	---	PASS	A	9490041	A	A	9490041	2	1	91	1	0	0	0	0	0	0	0	1	17273	933	33	2		2	WDR16	17	9490041	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1910663	9490041	71705169	563	34559										
MYH2	4620	broad.mit.edu	37	chr17	10450818	10450818	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	catccaggctgcataacgttCtttgaggttgtacagcacag	10	10	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:10450818C>G	uc010coi.2	-	4	450	c.322G>C	c.(322-324)GAA>CAA	p.E108Q	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.E108Q|MYH2_uc010coj.2_Missense_Mutation_p.E108Q	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	108	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GCATAACGTTCTTTGAGGTTG	0.488													54	146	---	---	---	---	PASS	G	10450818	G	G	10450818	3	3	91	1	0	0	0	0	1	0	0	0	10035	922	32	2	5651	2	MYH2	17	10450818	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	960777	10450818	70744392	564	34560										
ELAC2	60528	broad.mit.edu	37	chr17	12905820	12905820	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gatgaggttgagctgggtttGaatcttgtggctgcgaaggt	17	4	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:12905820G>C	uc002gnz.3	-	13	1251	c.1156C>G	c.(1156-1158)CAA>GAA	p.Q386E	ELAC2_uc002gnu.3_5'Flank|ELAC2_uc002gnv.3_Missense_Mutation_p.F15L|ELAC2_uc002gnw.3_Missense_Mutation_p.Q44E|ELAC2_uc002gnx.3_Missense_Mutation_p.Q146E|ELAC2_uc010vvo.1_Missense_Mutation_p.Q184E|ELAC2_uc010vvp.1_Missense_Mutation_p.Q367E|ELAC2_uc010vvq.1_Missense_Mutation_p.Q386E|ELAC2_uc010vvr.1_Missense_Mutation_p.Q346E	NM_018127	NP_060597	Q9BQ52	RNZ2_HUMAN	elaC homolog 2 isoform 1	386					tRNA processing	nucleus	endonuclease activity|metal ion binding|protein binding				0						AGCTGGGTTTGAATCTTGTGG	0.562									Hereditary_Prostate_Cancer		OREG0024189	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	17	---	---	---	---	PASS	C	12905820	C	C	12905820	3	2	91	1	0	0	0	0	1	0	0	0	5047	1299	45	2	1372	2	ELAC2	17	12905820	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2455002	12905820	68289390	565	34561										
COX10	1352	broad.mit.edu	37	chr17	13980228	13980228	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aagccaaatgaaaaggaattGatagaactagagccagactc	9	7	0	5			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:13980228G>C	uc002gof.3	+	3	558	c.354G>C	c.(352-354)TTG>TTC	p.L118F	COX10_uc010vvs.1_Intron|COX10_uc010vvt.1_5'UTR	NM_001303	NP_001294	Q12887	COX10_HUMAN	heme A:farnesyltransferase precursor	118					heme a biosynthetic process|heme O biosynthetic process|respiratory chain complex IV assembly	integral to membrane|mitochondrial membrane	protoheme IX farnesyltransferase activity				0		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)		AAAAGGAATTGATAGAACTAG	0.413													34	43	---	---	---	---	PASS	C	13980228	C	C	13980228	3	2	91	1	0	0	0	0	1	0	0	0	3762	1281	45	2	364	2	COX10	17	13980228	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1074408	13980228	67214982	566	34562										
FLCN	201163	broad.mit.edu	37	chr17	17122399	17122399	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgccagctcccacagcctgaGagagaggaggactctgccgg	14	13	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:17122399G>A	uc002gra.3	-	9	1500	c.996C>T	c.(994-996)CTC>CTT	p.L332L	PLD6_uc010cpn.2_Intron	NM_144997	NP_659434	Q8NFG4	FLCN_HUMAN	folliculin isoform 1	332					regulation of protein phosphorylation	cytoplasm|nucleus|plasma membrane	protein binding			thyroid(1)|haematopoietic_and_lymphoid_tissue(1)|lung(1)	3						CACAGCCTGAGAGAGAGGAGG	0.642									Birt-Hogg-Dub__syndrome|Familial_Non-VHL_Clear_Cell_Renal_Cancer				14	121	---	---	---	---	PASS	A	17122399	A	A	17122399	2	1	91	1	0	0	0	0	0	0	0	1	5921	929	33	2		2	FLCN	17	17122399	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	3142171	17122399	64072811	567	34563										
MYO15A	51168	broad.mit.edu	37	chr17	18045066	18045066	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaagtcatgccaaacatgtaCcgtgttggggtcagcaaggt	12	8	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:18045066C>A	uc010vxh.1	+	22	5969	c.5631C>A	c.(5629-5631)TAC>TAA	p.Y1877*		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1877	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CAAACATGTACCGTGTTGGGG	0.557											OREG0024223	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	71	94	---	---	---	---	PASS	A	18045066	A	A	18045066	4	1	91	1	0	0	0	0	0	1	0	0	10063	518	18	3	5713	3	MYO15A	17	18045066	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	922667	18045066	63150144	568	34564										
SMCR8	140775	broad.mit.edu	37	chr17	18221365	18221365	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	actgcactggctatctttgtCcccagctatggctgctacgc	9	14	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:18221365C>T	uc002gsy.3	+	1	2772	c.2262C>T	c.(2260-2262)GTC>GTT	p.V754V		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	754										central_nervous_system(1)	1						CTATCTTTGTCCCCAGCTATG	0.532													26	81	---	---	---	---	PASS	T	18221365	T	T	18221365	2	4	91	1	0	0	0	0	0	0	0	1	14792	842	30	2		2	SMCR8	17	18221365	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	176299	18221365	62973845	569	34565										
CYTSB	92521	broad.mit.edu	37	chr17	20108650	20108650	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agacatcctttcatcagcatCgagagagggcagagcagcta	11	10	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:20108650C>G	uc002gwq.2	+	4	1433	c.1288C>G	c.(1288-1290)CGA>GGA	p.R430G	CYTSB_uc010cqx.2_Missense_Mutation_p.R430G|CYTSB_uc002gwr.2_Missense_Mutation_p.R430G|CYTSB_uc002gws.2_Missense_Mutation_p.R430G|CYTSB_uc002gwv.2_Missense_Mutation_p.R349G|CYTSB_uc010vzf.1_Intron|CYTSB_uc002gww.2_Missense_Mutation_p.R206G|CYTSB_uc002gwt.2_Missense_Mutation_p.R349G|CYTSB_uc002gwu.2_Missense_Mutation_p.R349G	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	430						nucleus					0						TCATCAGCATCGAGAGAGGGC	0.413													19	90	---	---	---	---	PASS	G	20108650	G	G	20108650	3	3	91	1	0	0	0	0	1	0	0	0	4210	876	31	2	1342	2	CYTSB	17	20108650	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1887285	20108650	61086560	570	34566										
TOP2A	7153	broad.mit.edu	37	chr17	38555128	38555128	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttggtccagaatctgttacgGagtcactcttttcagtttcc	8	10	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:38555128G>C	uc002huq.2	-	26	3476	c.3350C>G	c.(3349-3351)TCC>TGC	p.S1117C		NM_001067	NP_001058	P11388	TOP2A_HUMAN	DNA topoisomerase II, alpha isozyme	1117					apoptotic chromosome condensation|DNA ligation|DNA repair|DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|phosphatidylinositol-mediated signaling|positive regulation of apoptosis|positive regulation of retroviral genome replication|resolution of meiotic recombination intermediates|sister chromatid segregation	cytoplasm|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|drug binding|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity|ubiquitin binding			ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00183)		Amsacrine(DB00276)|Ciprofloxacin(DB00537)|Dexrazoxane(DB00380)|Doxorubicin(DB00997)|Enoxacin(DB00467)|Epirubicin(DB00445)|Etoposide(DB00773)|Fleroxacin(DB04576)|Gatifloxacin(DB01044)|Idarubicin(DB01177)|Levofloxacin(DB01137)|Lomefloxacin(DB00978)|Lucanthone(DB04967)|Mitoxantrone(DB01204)|Moxifloxacin(DB00218)|Norfloxacin(DB01059)|Ofloxacin(DB01165)|Pefloxacin(DB00487)|Podofilox(DB01179)|Sparfloxacin(DB01208)|Teniposide(DB00444)|Trovafloxacin(DB00685)|Valrubicin(DB00385)	ATCTGTTACGGAGTCACTCTT	0.353													13	96	---	---	---	---	PASS	C	38555128	C	C	38555128	3	2	91	1	0	0	0	0	1	0	0	0	16362	1174	41	2	1285	2	TOP2A	17	38555128	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	18446478	38555128	42640082	571	34567										
KRT37	8688	broad.mit.edu	37	chr17	39578372	39578372	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agggcattcaccgtgcatctCagctccaggatctccgactg	10	14	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:39578372C>T	uc002hwp.1	-	5	1016	c.969G>A	c.(967-969)CTG>CTA	p.L323L	uc002hwo.1_Intron	NM_003770	NP_003761	O76014	KRT37_HUMAN	keratin 37	323	Coil 2.|Rod.					intermediate filament	structural molecule activity			skin(1)	1		Breast(137;0.000496)				CCGTGCATCTCAGCTCCAGGA	0.602													25	130	---	---	---	---	PASS	T	39578372	T	T	39578372	2	4	91	1	0	0	0	0	0	0	0	1	8474	813	29	2		2	KRT37	17	39578372	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1023244	39578372	41616838	572	34568			2	43		3	3	301	N	G_C	2.564433e-05
KRT37	8688	broad.mit.edu	37	chr17	39578435	39578435	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caggacatggcctgcaggctGatgccttcagactggagcac	13	12	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:39578435G>A	uc002hwp.1	-	5	953	c.906C>T	c.(904-906)ATC>ATT	p.I302I	uc002hwo.1_Intron	NM_003770	NP_003761	O76014	KRT37_HUMAN	keratin 37	302	Coil 2.|Rod.					intermediate filament	structural molecule activity			skin(1)	1		Breast(137;0.000496)				CCTGCAGGCTGATGCCTTCAG	0.612													28	127	---	---	---	---	PASS	A	39578435	A	A	39578435	2	1	91	1	0	0	0	0	0	0	0	1	8474	1280	45	2		2	KRT37	17	39578435	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	63	39578435	41616775	573	34569			2	43		3	3	301	N	G_C	2.564433e-05
KRT37	8688	broad.mit.edu	37	chr17	39578672	39578672	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttctcccccagctgactcctCagaatctttacttcctgcag	5	16	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:39578672C>T	uc002hwp.1	-	4	794	c.747G>A	c.(745-747)CTG>CTA	p.L249L	uc002hwo.1_Intron	NM_003770	NP_003761	O76014	KRT37_HUMAN	keratin 37	249	Rod.|Coil 1B.					intermediate filament	structural molecule activity			skin(1)	1		Breast(137;0.000496)				GCTGACTCCTCAGAATCTTTA	0.567													28	207	---	---	---	---	PASS	T	39578672	T	T	39578672	2	4	91	1	0	0	0	0	0	0	0	1	8474	813	29	2		2	KRT37	17	39578672	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	237	39578672	41616538	574	34570			2	43		3	3	301	N	G_C	2.564433e-05
SC65	10609	broad.mit.edu	37	chr17	39968008	39968008	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctccaggtagcgcgcgctctCgcgccagctctctccctcgt	10	19	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:39968008C>G	uc002hxt.2	-	1	444	c.160G>C	c.(160-162)GAG>CAG	p.E54Q	FKBP10_uc002hxv.2_5'Flank|SC65_uc002hxu.2_Missense_Mutation_p.E145Q	NM_006455	NP_006446	Q92791	SC65_HUMAN	synaptonemal complex protein SC65	54					synaptonemal complex assembly	nucleolus|synaptonemal complex	binding				0		Breast(137;0.000162)		BRCA - Breast invasive adenocarcinoma(366;0.149)		CGCGCGCTCTCGCGCCAGCTC	0.741													2	6	---	---	---	---	PASS	G	39968008	G	G	39968008	3	3	91	1	0	0	0	0	1	0	0	0	13867	893	31	2	1185	2	SC65	17	39968008	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	389336	39968008	41227202	575	34571										
LRRC37A	9884	broad.mit.edu	37	chr17	44408844	44408844	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaaatgcctttgaagaaaatGattttatggaaaacactaac	7	5	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:44408844G>A	uc002ikg.2	+	9	4204	c.4201G>A	c.(4201-4203)GAT>AAT	p.D1401N	ARL17A_uc002iki.3_Intron|ARL17A_uc002ikh.3_Intron|ARL17B_uc002ikf.2_Intron|LRRC37A_uc002ikj.2_Missense_Mutation_p.D362N|LRRC37A_uc010daw.1_Missense_Mutation_p.D331N	NM_014834	NP_055649	A6NMS7	L37A1_HUMAN	leucine rich repeat containing 37A precursor	1401	Extracellular (Potential).					integral to membrane					0		Melanoma(429;0.211)		BRCA - Breast invasive adenocarcinoma(366;0.232)		TGAAGAAAATGATTTTATGGA	0.373													9	52	---	---	---	---	PASS	A	44408844	A	A	44408844	3	1	91	1	0	0	0	0	1	0	0	0	8991	1290	45	2	4235	2	LRRC37A	17	44408844	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4440836	44408844	36786366	576	34572										
CACNA1G	8913	broad.mit.edu	37	chr17	48687294	48687294	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagctcagccagcgctgcgtCaggtactgcgtctggggtgt	15	12	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:48687294C>G	uc002irk.1	+	26	5129	c.4757C>G	c.(4756-4758)TCA>TGA	p.S1586*	CACNA1G_uc002irj.1_Intron|CACNA1G_uc002irl.1_Nonsense_Mutation_p.S1563*|CACNA1G_uc002irm.1_Intron|CACNA1G_uc002irn.1_Intron|CACNA1G_uc002iro.1_Intron|CACNA1G_uc002irp.1_Nonsense_Mutation_p.S1586*|CACNA1G_uc002irq.1_Nonsense_Mutation_p.S1563*|CACNA1G_uc002irr.1_Nonsense_Mutation_p.S1586*|CACNA1G_uc002irs.1_Intron|CACNA1G_uc002irt.1_Intron|CACNA1G_uc002irv.1_Intron|CACNA1G_uc002irw.1_Nonsense_Mutation_p.S1563*|CACNA1G_uc002iru.1_Intron|CACNA1G_uc002irx.1_Nonsense_Mutation_p.S1499*|CACNA1G_uc002iry.1_Intron|CACNA1G_uc002irz.1_Nonsense_Mutation_p.S1499*|CACNA1G_uc002isa.1_Nonsense_Mutation_p.S1465*|CACNA1G_uc002isb.1_Nonsense_Mutation_p.S1506*|CACNA1G_uc002isc.1_Intron|CACNA1G_uc002isd.1_Intron|CACNA1G_uc002ise.1_Intron|CACNA1G_uc002isf.1_Intron|CACNA1G_uc002isg.1_Intron|CACNA1G_uc002ish.1_Intron|CACNA1G_uc002isi.1_Nonsense_Mutation_p.S1442*	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1586	Cytoplasmic (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	AGCGCTGCGTCAGGTACTGCG	0.567													18	27	---	---	---	---	PASS	G	48687294	G	G	48687294	4	3	91	1	0	0	0	0	0	1	0	0	2544	838	29	2	5126	2	CACNA1G	17	48687294	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	4278450	48687294	32507916	577	34573										
COX11	1353	broad.mit.edu	37	chr17	53040696	53040696	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	attgaaatactgtccagcttCaaatggaacaatattgtatg	7	6	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:53040696C>G	uc010wng.1	-	3	676	c.619G>C	c.(619-621)GAA>CAA	p.E207Q	COX11_uc010wne.1_RNA|COX11_uc010wnf.1_RNA|COX11_uc002iue.2_RNA|COX11_uc010wnh.1_Missense_Mutation_p.E207Q	NM_004375	NP_004366	Q9Y6N1	COX11_HUMAN	COX11 homolog, cytochrome c oxidase assembly	207	Mitochondrial intermembrane (Potential).|Mitochondrial matrix (Potential).				respiratory chain complex IV assembly|respiratory gaseous exchange	integral to membrane|mitochondrial inner membrane	copper ion binding|cytochrome-c oxidase activity|electron carrier activity			ovary(1)	1						TGTCCAGCTTCAAATGGAACA	0.353													12	88	---	---	---	---	PASS	G	53040696	G	G	53040696	3	3	91	1	0	0	0	0	1	0	0	0	3763	835	29	2	285	2	COX11	17	53040696	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	4353402	53040696	28154514	578	34574										
OR4D1	26689	broad.mit.edu	37	chr17	56232861	56232861	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgggactgtcttttttctctCagtcatggcctatgaccgct	9	11	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:56232861C>G	uc010wno.1	+	1	347	c.347C>G	c.(346-348)TCA>TGA	p.S116*	MSX2P1_uc002ivn.2_5'Flank	NM_012374	NP_036506	Q15615	OR4D1_HUMAN	olfactory receptor, family 4, subfamily D,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTTTTTCTCTCAGTCATGGCC	0.542													41	72	---	---	---	---	PASS	G	56232861	G	G	56232861	4	3	91	1	0	0	0	0	0	1	0	0	11053	838	29	2	349	2	OR4D1	17	56232861	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3192165	56232861	24962349	579	34575										
RNF43	54894	broad.mit.edu	37	chr17	56438267	56438267	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggtacctcctggtggccagCtggctgatggcccaggctgt	15	12	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:56438267C>T	uc002iwf.2	-	6	2682	c.726G>A	c.(724-726)CAG>CAA	p.Q242Q	RNF43_uc010wnv.1_Silent_p.Q201Q|RNF43_uc002iwh.3_Silent_p.Q242Q|RNF43_uc002iwg.3_Silent_p.Q242Q|RNF43_uc010dcw.2_Silent_p.Q115Q	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	242	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGGTGGCCAGCTGGCTGATGG	0.657													26	30	---	---	---	---	PASS	T	56438267	T	T	56438267	2	4	91	1	0	0	0	0	0	0	0	1	13495	796	28	3		3	RNF43	17	56438267	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	205406	56438267	24756943	580	34576										
RPS6KB1	6198	broad.mit.edu	37	chr17	58024015	58024015	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caatggaaacaagtggcataGagcagatggatgtgacaatg	13	5	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:58024015G>C	uc002ixy.2	+	15	1547	c.1444G>C	c.(1444-1446)GAG>CAG	p.E482Q	RPS6KB1_uc010ddj.1_Intron|RPS6KB1_uc010wom.1_Missense_Mutation_p.E429Q|RPS6KB1_uc010won.1_Missense_Mutation_p.E459Q|RPS6KB1_uc010woo.1_Missense_Mutation_p.E417Q|RPS6KB1_uc002ixz.2_RNA	NM_003161	NP_003152	P23443	KS6B1_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	482	Autoinhibitory domain.				apoptosis|G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|negative regulation of apoptosis|phosphatidylinositol-mediated signaling|positive regulation of mitotic cell cycle|positive regulation of translational initiation|TOR signaling cascade	cell junction|cytoplasm|cytosol|mitochondrial outer membrane|nucleus|nucleus|synapse|synaptosome	ATP binding|protein binding|protein kinase activity			large_intestine(1)	1	all_cancers(5;1.63e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.57e-12)|all cancers(12;6.41e-11)			AAGTGGCATAGAGCAGATGGA	0.493													10	76	---	---	---	---	PASS	C	58024015	C	C	58024015	3	2	91	1	0	0	0	0	1	0	0	0	13656	943	33	2	1502	2	RPS6KB1	17	58024015	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1585748	58024015	23171195	581	34577										
MARCH10	162333	broad.mit.edu	37	chr17	60837358	60837358	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttcagttagagcatcctcctCactagaactctaccaaaaat	4	12	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:60837358C>T	uc010ddr.2	-	4	458	c.220G>A	c.(220-222)GAG>AAG	p.E74K	MARCH10_uc002jag.3_Missense_Mutation_p.E74K|MARCH10_uc010dds.2_Missense_Mutation_p.E74K|MARCH10_uc002jah.2_Missense_Mutation_p.E74K	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	74							ligase activity|zinc ion binding				0						GCATCCTCCTCACTAGAACTC	0.418													12	128	---	---	---	---	PASS	T	60837358	T	T	60837358	3	4	91	1	0	0	0	0	1	0	0	0	9299	835	29	2	2238	2	MARCH10	17	60837358	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2813343	60837358	20357852	582	34578										
ACE	1636	broad.mit.edu	37	chr17	61557861	61557861	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggagacagatacatcaacctCaggggacccatccctgctca	9	14	3	2	rs148882466	by1000genomes	TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:61557861C>T	uc002jau.1	+	5	841	c.819C>T	c.(817-819)CTC>CTT	p.L273L	ACE_uc010wpi.1_Silent_p.L273L|ACE_uc010ddu.1_Silent_p.L90L	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	273	Extracellular (Potential).|Peptidase M2 1.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	ACATCAACCTCAGGGGACCCA	0.612													14	146	---	---	---	---	PASS	T	61557861	T	T	61557861	2	4	91	1	0	0	0	0	0	0	0	1	136	813	29	2		2	ACE	17	61557861	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	720503	61557861	19637349	583	34579										
DDX42	11325	broad.mit.edu	37	chr17	61889493	61889493	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgctccatggggatatggatCagagtgagagaaacaaggtc	14	6	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:61889493C>G	uc002jbu.2	+	15	1857	c.1600C>G	c.(1600-1602)CAG>GAG	p.Q534E	DDX42_uc002jbv.2_Missense_Mutation_p.Q534E|DDX42_uc002jbw.1_Missense_Mutation_p.Q270E|DDX42_uc002jbx.2_Missense_Mutation_p.Q270E|DDX42_uc002jby.2_Missense_Mutation_p.Q80E	NM_007372	NP_031398	Q86XP3	DDX42_HUMAN	DEAD box polypeptide 42 protein	534	Helicase C-terminal.				protein localization|regulation of anti-apoptosis	Cajal body|cytoplasm|nuclear speck	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)|large_intestine(1)	5						GGATATGGATCAGAGTGAGAG	0.428													24	135	---	---	---	---	PASS	G	61889493	G	G	61889493	3	3	91	1	0	0	0	0	1	0	0	0	4362	827	29	2	1650	2	DDX42	17	61889493	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	331632	61889493	19305717	584	34580										
POLG2	11232	broad.mit.edu	37	chr17	62487068	62487068	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acagtcactgctgctgaagtTagatggactcatggcaaact	10	9	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:62487068T>G	uc002jei.2	-	4	897	c.814A>C	c.(814-816)AAC>CAC	p.N272H	POLG2_uc010deg.1_Missense_Mutation_p.N272H	NM_007215	NP_009146	Q9UHN1	DPOG2_HUMAN	DNA polymerase subunit gamma-2, mitochondrial	272					DNA repair|DNA-dependent DNA replication|glycyl-tRNA aminoacylation	mitochondrial chromosome	ATP binding|DNA-directed DNA polymerase activity|glycine-tRNA ligase activity|identical protein binding|single-stranded DNA binding			central_nervous_system(1)	1	Breast(5;2.15e-14)		BRCA - Breast invasive adenocarcinoma(8;4.97e-11)			CTGCTGAAGTTAGATGGACTC	0.343													52	71	---	---	---	---	PASS	G	62487068	G	G	62487068	3	3	91	1	0	0	0	0	1	0	0	0	12201	1754	61	5	663	5	POLG2	17	62487068	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	597575	62487068	18708142	585	34581										
RHBDF2	79651	broad.mit.edu	37	chr17	74473802	74473802	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acatcctcctccaggaagctCgggaaggcaaagctgcgctt	11	13	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:74473802C>T	uc002jrq.1	-	7	1118	c.825G>A	c.(823-825)CCG>CCA	p.P275P	RHBDF2_uc002jrp.1_Silent_p.P246P|RHBDF2_uc002jrr.1_Silent_p.P127P|RHBDF2_uc010wtf.1_Silent_p.P246P|RHBDF2_uc002jrs.1_Silent_p.P270P	NM_024599	NP_078875	Q6PJF5	RHDF2_HUMAN	rhomboid, veinlet-like 6 isoform 1	275	Cytoplasmic (Potential).				negative regulation of protein secretion|protein transport|proteolysis	endoplasmic reticulum membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity				0						CCAGGAAGCTCGGGAAGGCAA	0.627													38	109	---	---	---	---	PASS	T	74473802	T	T	74473802	2	4	91	1	0	0	0	0	0	0	0	1	13320	871	31	2		2	RHBDF2	17	74473802	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	11986734	74473802	6721408	586	34582										
ST6GALNAC1	55808	broad.mit.edu	37	chr17	74623247	74623247	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caggtgatgcaccggaggctCccagcggggaggctggccag	18	12	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:74623247C>T	uc002jsh.2	-	4	1248	c.1074G>A	c.(1072-1074)GGG>GGA	p.G358G	ST6GALNAC1_uc002jsi.2_Silent_p.G226G|ST6GALNAC1_uc002jsj.2_RNA	NM_018414	NP_060884	Q9NSC7	SIA7A_HUMAN	sialyltransferase 7A	358	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity				0						ACCGGAGGCTCCCAGCGGGGA	0.632													7	46	---	---	---	---	PASS	T	74623247	T	T	74623247	2	4	91	1	0	0	0	0	0	0	0	1	15222	842	30	2		2	ST6GALNAC1	17	74623247	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	149445	74623247	6571963	587	34583										
JMJD6	23210	broad.mit.edu	37	chr17	74717909	74717909	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttccttgataactttggtctCcctcttaccgtcttgtgcca	6	13	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:74717909C>A	uc002jso.2	-	4	1236	c.912G>T	c.(910-912)GGG>GGT	p.G304G	JMJD6_uc002jsn.1_Silent_p.G304G|JMJD6_uc010dgz.2_Silent_p.G304G	NM_015167	NP_055982	Q6NYC1	JMJD6_HUMAN	jumonji domain containing 6 isoform 2	304	JmjC.				mRNA processing|peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine|regulation of nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|sprouting angiogenesis|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-R2 specific)|histone demethylase activity (H4-R3 specific)|identical protein binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptidyl-lysine 5-dioxygenase activity|single-stranded RNA binding			skin(2)|ovary(1)	3						ACTTTGGTCTCCCTCTTACCG	0.443													13	104	---	---	---	---	PASS	A	74717909	A	A	74717909	2	1	91	1	0	0	0	0	0	0	0	1	7953	842	30	2		2	JMJD6	17	74717909	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	94662	74717909	6477301	588	34584										
JMJD6	23210	broad.mit.edu	37	chr17	74718008	74718008	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agattgaggacaacatgccaCcagcctcctgaaatccaaca	7	13	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:74718008C>G	uc002jso.2	-	4	1137	c.813G>C	c.(811-813)TGG>TGC	p.W271C	JMJD6_uc002jsn.1_Missense_Mutation_p.W271C|JMJD6_uc010dgz.2_Missense_Mutation_p.W271C	NM_015167	NP_055982	Q6NYC1	JMJD6_HUMAN	jumonji domain containing 6 isoform 2	271	JmjC.				mRNA processing|peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine|regulation of nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|sprouting angiogenesis|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-R2 specific)|histone demethylase activity (H4-R3 specific)|identical protein binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptidyl-lysine 5-dioxygenase activity|single-stranded RNA binding			skin(2)|ovary(1)	3						CAACATGCCACCAGCCTCCTG	0.443													7	49	---	---	---	---	PASS	G	74718008	G	G	74718008	3	3	91	1	0	0	0	0	1	0	0	0	7953	508	18	4	451	4	JMJD6	17	74718008	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	99	74718008	6477202	589	34585										
HGS	9146	broad.mit.edu	37	chr17	79658588	79658588	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcgtgtgtgagccctgctacGagcagctgaacaggtgagtc	15	10	0	3	rs142599461		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:79658588G>C	uc002kbg.2	+	8	726	c.649G>C	c.(649-651)GAG>CAG	p.E217Q	HGS_uc010wus.1_Missense_Mutation_p.E217Q	NM_004712	NP_004703	O14964	HGS_HUMAN	hepatocyte growth factor-regulated tyrosine	217	FYVE-type.				cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of JAK-STAT cascade|regulation of protein catabolic process	cytosol|early endosome membrane|multivesicular body membrane	metal ion binding|protein domain specific binding			ovary(1)	1	all_neural(118;0.0878)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)			GCCCTGCTACGAGCAGCTGAA	0.602													22	165	---	---	---	---	PASS	C	79658588	C	C	79658588	3	2	91	1	0	0	0	0	1	0	0	0	7087	1059	37	2	679	2	HGS	17	79658588	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4940580	79658588	1536622	590	34586										
P4HB	5034	broad.mit.edu	37	chr17	79801953	79801953	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtctggctcctctgcttcttCcaggtcctcgagatcctggg	11	14	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr17:79801953C>G	uc002kbn.1	-	11	1659	c.1462G>C	c.(1462-1464)GAA>CAA	p.E488Q	P4HB_uc002kbl.1_Missense_Mutation_p.E165Q|P4HB_uc002kbm.1_Missense_Mutation_p.E165Q	NM_000918	NP_000909	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta subunit precursor	488					cell redox homeostasis|glycerol ether metabolic process|lipid metabolic process|lipoprotein metabolic process|peptidyl-proline hydroxylation to 4-hydroxy-L-proline	cell surface|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|extracellular region|melanosome|plasma membrane	electron carrier activity|procollagen-proline 4-dioxygenase activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			TCTGCTTCTTCCAGGTCCTCG	0.607													63	179	---	---	---	---	PASS	G	79801953	G	G	79801953	3	3	91	1	0	0	0	0	1	0	0	0	11359	864	30	2	68	2	P4HB	17	79801953	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	143365	79801953	1393257	591	34587										
CEP76	79959	broad.mit.edu	37	chr18	12678316	12678316	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cacaggtttctactgcatcaGagggttgacaatttcccagg	10	10	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:12678316G>A	uc002kri.2	-	10	1571	c.1415C>T	c.(1414-1416)TCT>TTT	p.S472F	PSMG2_uc002krg.2_Intron|CEP76_uc002krh.3_Missense_Mutation_p.S294F|CEP76_uc010wzz.1_Missense_Mutation_p.S397F	NM_024899	NP_079175	Q8TAP6	CEP76_HUMAN	centrosomal protein 76kDa	472					G2/M transition of mitotic cell cycle|regulation of centriole replication	centriole|cytosol	protein binding				0						TACTGCATCAGAGGGTTGACA	0.433													8	315	---	---	---	---	PASS	A	12678316	A	A	12678316	3	1	91	1	0	0	0	0	1	0	0	0	3261	942	33	2	576	2	CEP76	18	12678316	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08		12678316	65398932	592	34588										
C18orf1	753	broad.mit.edu	37	chr18	13621222	13621222	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaagtctccacgcggtccttCatcaaccgcccgaaccagag	8	16	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:13621222C>T	uc002ksa.2	+	5	956	c.288C>T	c.(286-288)TTC>TTT	p.F96F	C18orf1_uc002ksb.2_Silent_p.F96F|C18orf1_uc002kse.2_Silent_p.F59F|C18orf1_uc002ksf.2_Silent_p.F59F|C18orf1_uc002ksg.1_Silent_p.F19F|C18orf1_uc002ksh.1_Silent_p.F38F|C18orf1_uc002ksi.1_Silent_p.F38F	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	96	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		CGCGGTCCTTCATCAACCGCC	0.622													16	124	---	---	---	---	PASS	T	13621222	T	T	13621222	2	4	91	1	0	0	0	0	0	0	0	1	1894	825	29	2		2	C18orf1	18	13621222	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	942906	13621222	64456026	593	34589										
ROCK1	6093	broad.mit.edu	37	chr18	18588119	18588119	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cattttctccttctcaatctGagacactgtagattctagat	5	10	4	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:18588119G>C	uc002kte.2	-	14	2388	c.1447C>G	c.(1447-1449)CAG>GAG	p.Q483E		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	483	Interaction with FHOD1.|Potential.|REM.				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)					TTCTCAATCTGAGACACTGTA	0.333													7	94	---	---	---	---	PASS	C	18588119	C	C	18588119	3	2	91	1	0	0	0	0	1	0	0	0	13517	1299	45	2	2697	2	ROCK1	18	18588119	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4966897	18588119	59489129	594	34590										
SNRPD1	6632	broad.mit.edu	37	chr18	19202685	19202685	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggttttattcctatttataGatttttgatgaaattgagtc	7	3	0	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:19202685G>A	uc002ktj.1	+	2	146	c.15_splice	c.e2-1	p.R5_splice		NM_006938	NP_008869	P62314	SMD1_HUMAN	small nuclear ribonucleoprotein D1 polypeptide						ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding|RNA binding				0						CCTATTTATAGATTTTTGATG	0.343													4	62	---	---	---	---	PASS	A	19202685	A	A	19202685	5	1	91	1	0	0	0	0	0	0	1	0	14864	956	33	2	20	2	SNRPD1	18	19202685	Splice_Site	SNP	G	TCGA-39-5031-01A-01D-1441-08	614566	19202685	58874563	595	34591										
HRH4	59340	broad.mit.edu	37	chr18	22057141	22057141	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagtagtctcatgttttcctCaagaaccaagatgaatagca	8	8	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:22057141C>T	uc002kvi.2	+	3	888	c.788C>T	c.(787-789)TCA>TTA	p.S263L	HRH4_uc010xbd.1_3'UTR|HRH4_uc010dlx.2_Missense_Mutation_p.S175L	NM_021624	NP_067637	Q9H3N8	HRH4_HUMAN	histamine H4 receptor isoform 1	263	Cytoplasmic (Potential).					integral to membrane|plasma membrane	histamine receptor activity			ovary(2)	2	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Clozapine(DB00363)	ATGTTTTCCTCAAGAACCAAG	0.418													32	244	---	---	---	---	PASS	T	22057141	T	T	22057141	3	4	91	1	0	0	0	0	1	0	0	0	7358	838	29	2	798	2	HRH4	18	22057141	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2854456	22057141	56020107	596	34592										
DSC1	1823	broad.mit.edu	37	chr18	28710533	28710533	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tttgggttccaggtgatctaGaaactccagtccctcttctt	8	11	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:28710533G>T	uc002kwn.2	-	16	2891	c.2629C>A	c.(2629-2631)CTA>ATA	p.L877I	DSC1_uc002kwm.2_3'UTR|uc002kwo.1_5'Flank	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	877	Cytoplasmic (Potential).				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			AGGTGATCTAGAAACTCCAGT	0.428													19	271	---	---	---	---	PASS	T	28710533	T	T	28710533	3	4	91	1	0	0	0	0	1	0	0	0	4765	933	33	2	59	2	DSC1	18	28710533	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	6653392	28710533	49366715	597	34593										
SLC39A6	25800	broad.mit.edu	37	chr18	33691181	33691181	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggacagcctgcttaacggtCatgccagcctttagtagaac	10	11	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:33691181C>T	uc010dmy.2	-	9	2246	c.1956G>A	c.(1954-1956)ATG>ATA	p.M652I	SLC39A6_uc002kzj.2_Missense_Mutation_p.M377I	NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	652	Cytoplasmic (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						GCTTAACGGTCATGCCAGCCT	0.378													5	84	---	---	---	---	PASS	T	33691181	T	T	33691181	3	4	91	1	0	0	0	0	1	0	0	0	14622	826	29	2	331	2	SLC39A6	18	33691181	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	4980648	33691181	44386067	598	34594										
SLC39A6	25800	broad.mit.edu	37	chr18	33696661	33696661	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atctgtatctactttctcctCatttgttgaaagttgagatt	6	7	4	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:33696661C>T	uc010dmy.2	-	6	1731	c.1441G>A	c.(1441-1443)GAG>AAG	p.E481K	SLC39A6_uc002kzj.2_Missense_Mutation_p.E206K	NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	481	Cytoplasmic (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						ACTTTCTCCTCATTTGTTGAA	0.368													25	79	---	---	---	---	PASS	T	33696661	T	T	33696661	3	4	91	1	0	0	0	0	1	0	0	0	14622	835	29	2	858	2	SLC39A6	18	33696661	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	5480	33696661	44380587	599	34595										
ATP5A1	498	broad.mit.edu	37	chr18	43667006	43667006	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gatggaaatgacatttgttgGaatgtaagcagacacatcac	10	6	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:43667006G>C	uc002lbr.1	-	8	1234	c.1144C>G	c.(1144-1146)CCA>GCA	p.P382A	ATP5A1_uc010dnl.1_Missense_Mutation_p.P332A|ATP5A1_uc002lbs.1_Missense_Mutation_p.P332A|ATP5A1_uc002lbt.1_Missense_Mutation_p.P382A	NM_004046	NP_004037	P25705	ATPA_HUMAN	ATP synthase, H+ transporting, mitochondrial F1	382					ATP hydrolysis coupled proton transport|embryo development|lipid metabolic process|negative regulation of endothelial cell proliferation|respiratory electron transport chain	mitochondrial matrix|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism				0						ACATTTGTTGGAATGTAAGCA	0.398													7	122	---	---	---	---	PASS	C	43667006	C	C	43667006	3	2	91	1	0	0	0	0	1	0	0	0	1147	1174	41	2	537	2	ATP5A1	18	43667006	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	9970345	43667006	34410242	600	34596										
SKA1	220134	broad.mit.edu	37	chr18	47918511	47918511	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgacataaaggagttcacaaCtttgaaagctgacaagaagt	9	6	1	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:47918511C>G	uc002let.2	+	7	846	c.662C>G	c.(661-663)ACT>AGT	p.T221S	SKA1_uc002leu.2_Missense_Mutation_p.T221S|SKA1_uc010xdl.1_Missense_Mutation_p.T175S	NM_145060	NP_659497	Q96BD8	SKA1_HUMAN	spindle and KT associated 1	221					cell division|chromosome segregation|mitotic anaphase|mitotic prometaphase|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytosol|spindle microtubule	microtubule binding				0						GAGTTCACAACTTTGAAAGCT	0.373													49	179	---	---	---	---	PASS	G	47918511	G	G	47918511	3	3	91	1	0	0	0	0	1	0	0	0	14352	565	20	4	684	4	SKA1	18	47918511	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	4251505	47918511	30158737	601	34597										
ZCCHC2	54877	broad.mit.edu	37	chr18	60242387	60242387	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggtgcagctgtgggaccaatGgaaaccttcagctaaatagt	12	8	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:60242387G>T	uc002lip.3	+	13	3073	c.3073G>T	c.(3073-3075)GGA>TGA	p.G1025*	ZCCHC2_uc002lio.2_RNA|ZCCHC2_uc002liq.2_Nonsense_Mutation_p.G495*	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	1025					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding	p.G1025*(1)		lung(1)|prostate(1)	2						TGGGACCAATGGAAACCTTCA	0.502													15	61	---	---	---	---	PASS	T	60242387	T	T	60242387	4	4	91	1	0	0	0	0	0	1	0	0	17584	1349	47	3	3123	3	ZCCHC2	18	60242387	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	12323876	60242387	17834861	602	34598										
SERPINB5	5268	broad.mit.edu	37	chr18	61160267	61160267	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	taatgctgcctactttgttgGcaagtggatgaagaaatttt	10	5	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:61160267G>C	uc002liz.3	+	5	648	c.506G>C	c.(505-507)GGC>GCC	p.G169A	SERPINB5_uc002liy.2_Missense_Mutation_p.G169A	NM_002639	NP_002630	P36952	SPB5_HUMAN	serine (or cysteine) proteinase inhibitor, clade	169					cellular component movement|regulation of proteolysis	cytoplasm|extracellular space	protein binding|serine-type endopeptidase inhibitor activity			ovary(1)	1						TACTTTGTTGGCAAGTGGATG	0.408													106	172	---	---	---	---	PASS	C	61160267	C	C	61160267	3	2	91	1	0	0	0	0	1	0	0	0	14104	1203	42	4	520	4	SERPINB5	18	61160267	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	917880	61160267	16916981	603	34599										
SERPINB12	89777	broad.mit.edu	37	chr18	61223515	61223515	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctctcagctgcccttggtatGgtacgcttgggtgctagaag	13	10	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:61223515G>T	uc010xen.1	+	1	123	c.123G>T	c.(121-123)ATG>ATT	p.M41I	SERPINB12_uc010xeo.1_Missense_Mutation_p.M41I	NM_080474	NP_536722	Q96P63	SPB12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	41					negative regulation of protein catabolic process|regulation of proteolysis	cytoplasm	enzyme binding|serine-type endopeptidase inhibitor activity				0						CCCTTGGTATGGTACGCTTGG	0.453													83	280	---	---	---	---	PASS	T	61223515	T	T	61223515	3	4	91	1	0	0	0	0	1	0	0	0	14099	1348	47	3	125	3	SERPINB12	18	61223515	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	63248	61223515	16853733	604	34600										
SERPINB4	6318	broad.mit.edu	37	chr18	61305057	61305057	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaactcttcattagttgaagGagatgataattcgactacta	8	6	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:61305057G>C	uc002ljf.2	-	8	1155	c.1069C>G	c.(1069-1071)CCT>GCT	p.P357A	SERPINB4_uc002lje.2_Missense_Mutation_p.P336A|SERPINB4_uc002ljg.2_Missense_Mutation_p.P357A	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	357					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						TTAGTTGAAGGAGATGATAAT	0.453													9	139	---	---	---	---	PASS	C	61305057	C	C	61305057	3	2	91	1	0	0	0	0	1	0	0	0	14103	1174	41	2	107	2	SERPINB4	18	61305057	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	81542	61305057	16772191	605	34601										
NETO1	81832	broad.mit.edu	37	chr18	70417779	70417779	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gagatgataatgaggatgatCacgatgcaggaagtcacgcc	13	7	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:70417779C>T	uc002lkw.2	-	9	1343	c.1059G>A	c.(1057-1059)GTG>GTA	p.V353V	NETO1_uc002lkx.1_Silent_p.V352V|NETO1_uc002lky.1_Silent_p.V353V	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	353	Helical; (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		TGAGGATGATCACGATGCAGG	0.468													11	120	---	---	---	---	PASS	T	70417779	T	T	70417779	2	4	91	1	0	0	0	0	0	0	0	1	10339	813	29	2		2	NETO1	18	70417779	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	9112722	70417779	7659469	606	34602										
FBXO15	201456	broad.mit.edu	37	chr18	71793322	71793322	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gattgtactttgcaattaaaGaatgccatcggagtctttga	9	6	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:71793322G>C	uc002lle.2	-	6	908	c.572C>G	c.(571-573)TCT>TGT	p.S191C	FBXO15_uc002llf.2_Missense_Mutation_p.S267C	NM_152676	NP_689889	Q8NCQ5	FBX15_HUMAN	F-box protein 15 isoform 1	191										ovary(2)|pancreas(1)	3		Esophageal squamous(42;0.103)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.143)		TGCAATTAAAGAATGCCATCG	0.438													48	105	---	---	---	---	PASS	C	71793322	C	C	71793322	3	2	91	1	0	0	0	0	1	0	0	0	5728	942	33	2	752	2	FBXO15	18	71793322	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1375543	71793322	6283926	607	34603										
NFATC1	4772	broad.mit.edu	37	chr18	77246387	77246387	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cccgaccccagctcctgcctCgtggccggcttcccgccctg	10	22	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr18:77246387C>T	uc010xfg.1	+	9	2685	c.2232C>T	c.(2230-2232)CTC>CTT	p.L744L	NFATC1_uc002lnd.2_Silent_p.L744L|NFATC1_uc002lne.2_Silent_p.L272L|NFATC1_uc010xfh.1_Intron|NFATC1_uc010xfj.1_Silent_p.L272L|NFATC1_uc002lnf.2_Silent_p.L731L|NFATC1_uc002lng.2_Silent_p.L731L|NFATC1_uc010xfk.1_Intron	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	744	Trans-activation domain B (TAD-B).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		GCTCCTGCCTCGTGGCCGGCT	0.662													26	331	---	---	---	---	PASS	T	77246387	T	T	77246387	2	4	91	1	0	0	0	0	0	0	0	1	10361	871	31	2		2	NFATC1	18	77246387	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	5453065	77246387	830861	608	34604										
C19orf21	126353	broad.mit.edu	37	chr19	757477	757477	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggacccccggcccacctcgGtccacgcccctggaggagaa	12	18	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:757477G>T	uc002lpo.2	+	2	614	c.531G>T	c.(529-531)CGG>CGT	p.R177R		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	177										upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCCACCTCGGTCCACGCCCC	0.672													6	7	---	---	---	---	PASS	T	757477	T	T	757477	2	4	91	1	0	0	0	0	0	0	0	1	1913	1248	44	3		3	C19orf21	19	757477	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08		757477	58371506	609	34605										
ABCA7	10347	broad.mit.edu	37	chr19	1049354	1049354	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctggaagcccgcagccagccCtgcgggggctcagcctggac	15	16	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:1049354C>T	uc002lqw.3	+	18	2701	c.2470C>T	c.(2470-2472)CTG>TTG	p.L824L	ABCA7_uc010dsb.1_Silent_p.L686L	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	824	ABC transporter 1.				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGCCAGCCCTGCGGGGGCT	0.672													13	108	---	---	---	---	PASS	T	1049354	T	T	1049354	2	4	91	1	0	0	0	0	0	0	0	1	37	680	24	3		3	ABCA7	19	1049354	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	291877	1049354	58079629	610	34606										
ABCA7	10347	broad.mit.edu	37	chr19	1049377	1049377	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgggggctcagcctggacttCtaccagggccacatcaccgc	12	16	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:1049377C>T	uc002lqw.3	+	18	2724	c.2493C>T	c.(2491-2493)TTC>TTT	p.F831F	ABCA7_uc010dsb.1_Silent_p.F693F	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	831	ABC transporter 1.				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCTGGACTTCTACCAGGGCC	0.701													9	102	---	---	---	---	PASS	T	1049377	T	T	1049377	2	4	91	1	0	0	0	0	0	0	0	1	37	912	32	2		2	ABCA7	19	1049377	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	23	1049377	58079606	611	34607										
MIDN	90007	broad.mit.edu	37	chr19	1251880	1251880	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtccgtgatgcaagctctcGagagtctcacggagacgcag	13	11	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:1251880G>C	uc002lrp.2	+	4	879	c.364G>C	c.(364-366)GAG>CAG	p.E122Q		NM_177401	NP_796375	Q504T8	MIDN_HUMAN	midnolin	122						nucleolus					0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAAGCTCTCGAGAGTCTCAC	0.632													17	46	---	---	---	---	PASS	C	1251880	C	C	1251880	3	2	91	1	0	0	0	0	1	0	0	0	9579	1059	37	2	374	2	MIDN	19	1251880	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	202503	1251880	57877103	612	34608										
DAZAP1	26528	broad.mit.edu	37	chr19	1418235	1418235	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gctacttttcccaatatggaGaagtcgtagattgtgttatc	9	7	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:1418235G>A	uc002lsn.2	+	3	292	c.103G>A	c.(103-105)GAA>AAA	p.E35K	DAZAP1_uc002lsm.2_Missense_Mutation_p.E35K|DAZAP1_uc002lso.2_Missense_Mutation_p.E35K|DAZAP1_uc002lsl.1_Missense_Mutation_p.E35K	NM_018959	NP_061832	Q96EP5	DAZP1_HUMAN	DAZ associated protein 1 isoform b	35	RRM 1.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleotide binding|RNA binding			breast(1)	1		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAATATGGAGAAGTCGTAGA	0.478													13	108	---	---	---	---	PASS	A	1418235	A	A	1418235	3	1	91	1	0	0	0	0	1	0	0	0	4244	943	33	2	113	2	DAZAP1	19	1418235	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	166355	1418235	57710748	613	34609										
DAZAP1	26528	broad.mit.edu	37	chr19	1418262	1418262	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tagattgtgttatcatgaaaGataaaaccaccaaccagtct	6	8	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:1418262G>A	uc002lsn.2	+	3	319	c.130G>A	c.(130-132)GAT>AAT	p.D44N	DAZAP1_uc002lsm.2_Missense_Mutation_p.D44N|DAZAP1_uc002lso.2_Missense_Mutation_p.D44N|DAZAP1_uc002lsl.1_Missense_Mutation_p.D44N	NM_018959	NP_061832	Q96EP5	DAZP1_HUMAN	DAZ associated protein 1 isoform b	44	RRM 1.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleotide binding|RNA binding			breast(1)	1		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TATCATGAAAGATAAAACCAC	0.483													17	117	---	---	---	---	PASS	A	1418262	A	A	1418262	3	1	91	1	0	0	0	0	1	0	0	0	4244	942	33	2	140	2	DAZAP1	19	1418262	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	27	1418262	57710721	614	34610										
ZNF554	115196	broad.mit.edu	37	chr19	2834766	2834766	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcatcccttgtcacacatcaGaaaactcacagcagccagaa	5	14	4	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:2834766G>C	uc002lwm.2	+	5	1731	c.1533G>C	c.(1531-1533)CAG>CAC	p.Q511H	ZNF554_uc002lwl.2_Missense_Mutation_p.Q460H	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	511	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCACACATCAGAAAACTCACA	0.468													14	114	---	---	---	---	PASS	C	2834766	C	C	2834766	3	2	91	1	0	0	0	0	1	0	0	0	17982	933	33	2	1551	2	ZNF554	19	2834766	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1416504	2834766	56294217	615	34611										
TLE2	7089	broad.mit.edu	37	chr19	3005560	3005560	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aatatcaatgcagctggcgcCgtccgtgtggccctggaact	12	12	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:3005560C>T	uc002lww.2	-	17	2034	c.1771G>A	c.(1771-1773)GGC>AGC	p.G591S	TLE2_uc010xhb.1_Missense_Mutation_p.G258S|TLE2_uc010dth.2_Missense_Mutation_p.G592S|TLE2_uc010xhc.1_Missense_Mutation_p.G469S|TLE2_uc010dti.2_Missense_Mutation_p.G605S	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1	591	WD 4.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGCTGGCGCCGTCCGTGTGG	0.657													4	34	---	---	---	---	PASS	T	3005560	T	T	3005560	3	4	91	1	0	0	0	0	1	0	0	0	15936	652	23	1	476	1	TLE2	19	3005560	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	170794	3005560	56123423	616	34612										
DUS3L	56931	broad.mit.edu	37	chr19	5785253	5785253	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttgtgcttcggcaagaaggcGaagctggggggcactggccc	17	10	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:5785253G>A	uc002mdc.2	-	13	2011	c.1914C>T	c.(1912-1914)TTC>TTT	p.F638F	PRR22_uc002mdb.1_5'Flank|PRR22_uc010xiv.1_5'Flank|DUS3L_uc002mdd.2_Silent_p.F396F	NM_020175	NP_064560	Q96G46	DUS3L_HUMAN	dihydrouridine synthase 3-like isoform 1	638					tRNA processing		flavin adenine dinucleotide binding|nucleic acid binding|tRNA dihydrouridine synthase activity|zinc ion binding				0						GCAAGAAGGCGAAGCTGGGGG	0.587													5	24	---	---	---	---	PASS	A	5785253	A	A	5785253	2	1	91	1	0	0	0	0	0	0	0	1	4807	1049	37	2		2	DUS3L	19	5785253	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	2779693	5785253	53343730	617	34613										
MBD3L1	85509	broad.mit.edu	37	chr19	8953558	8953558	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctcagcaggtctgctggcaGaggagactgcagggactcca	14	12	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:8953558G>C	uc002mko.2	+	1	290	c.204G>C	c.(202-204)CAG>CAC	p.Q68H		NM_145208	NP_660209	Q8WWY6	MB3L1_HUMAN	methyl-CpG binding domain protein 3-like	68	Transcription repressor.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						TCTGCTGGCAGAGGAGACTGC	0.507													27	110	---	---	---	---	PASS	C	8953558	C	C	8953558	3	2	91	1	0	0	0	0	1	0	0	0	9345	933	33	2	206	2	MBD3L1	19	8953558	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3168305	8953558	50175425	618	34614										
MUC16	94025	broad.mit.edu	37	chr19	9070300	9070300	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gttggccactgcagtgtttgTatgcatggaagcatgcatgg	14	7	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:9070300T>A	uc002mkp.2	-	3	17350	c.17146A>T	c.(17146-17148)ACA>TCA	p.T5716S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5718	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCAGTGTTTGTATGCATGGAA	0.493													19	92	---	---	---	---	PASS	A	9070300	A	A	9070300	3	1	91	1	0	0	0	0	1	0	0	0	9973	1638	57	5	26705	5	MUC16	19	9070300	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	116742	9070300	50058683	619	34615										
MUC16	94025	broad.mit.edu	37	chr19	9091316	9091316	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	accttcagttgttgaggtctCagtggggactgtgtacttct	12	8	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:9091316C>T	uc002mkp.2	-	1	703	c.499G>A	c.(499-501)GAG>AAG	p.E167K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	167	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTTGAGGTCTCAGTGGGGACT	0.443													39	77	---	---	---	---	PASS	T	9091316	T	T	9091316	3	4	91	1	0	0	0	0	1	0	0	0	9973	835	29	2	43360	2	MUC16	19	9091316	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	21016	9091316	50037667	620	34616										
CDC37	11140	broad.mit.edu	37	chr19	10506652	10506652	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tccacgttccagggcatgctCttctccttcttgcgcatctc	7	16	4	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:10506652C>G	uc002mof.1	-	2	446	c.330G>C	c.(328-330)AAG>AAC	p.K110N	CDC37_uc002moe.1_5'Flank|CDC37_uc010dxf.1_5'UTR|CDC37_uc002mog.1_Missense_Mutation_p.K110N|CDC37_uc002moh.2_Missense_Mutation_p.K110N	NM_007065	NP_008996	Q16543	CDC37_HUMAN	cell division cycle 37 protein	110					protein targeting|regulation of cyclin-dependent protein kinase activity|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway		unfolded protein binding				0			OV - Ovarian serous cystadenocarcinoma(20;4.65e-10)|Epithelial(33;6.48e-07)|all cancers(31;2.31e-06)	GBM - Glioblastoma multiforme(1328;0.0318)		AGGGCATGCTCTTCTCCTTCT	0.672													32	232	---	---	---	---	PASS	G	10506652	G	G	10506652	3	3	91	1	0	0	0	0	1	0	0	0	3068	912	32	2	834	2	CDC37	19	10506652	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1415336	10506652	48622331	621	34617										
KEAP1	9817	broad.mit.edu	37	chr19	10610666	10610666	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtgactgcaggggcaggaatCggcagcaggccccagccccg	16	14	0	1	rs144429440	byFrequency	TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:10610666C>A	uc002moq.1	-	2	200	c.44G>T	c.(43-45)CGA>CTA	p.R15L	KEAP1_uc002mor.1_Missense_Mutation_p.R15L	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	15					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			GGGCAGGAATCGGCAGCAGGC	0.662													3	80	---	---	---	---	PASS	A	10610666	A	A	10610666	3	1	91	1	0	0	0	0	1	0	0	0	8141	884	31	2	1850	2	KEAP1	19	10610666	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	104014	10610666	48518317	622	34618										
ATG4D	84971	broad.mit.edu	37	chr19	10663612	10663612	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	accccatgttcaccctggccGagggccatgctcaggaccac	10	17	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:10663612G>A	uc002mov.2	+	10	1414	c.1294G>A	c.(1294-1296)GAG>AAG	p.E432K	ATG4D_uc010xlh.1_Missense_Mutation_p.E369K|ATG4D_uc010dxh.2_RNA|ATG4D_uc010dxi.2_RNA|ATG4D_uc010dxj.2_Missense_Mutation_p.E99K	NM_032885	NP_116274	Q86TL0	ATG4D_HUMAN	APG4 autophagy 4 homolog D	432					autophagy|protein transport	cytoplasm	cysteine-type endopeptidase activity				0			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			CACCCTGGCCGAGGGCCATGC	0.662													12	169	---	---	---	---	PASS	A	10663612	A	A	10663612	3	1	91	1	0	0	0	0	1	0	0	0	1099	1059	37	2	1332	2	ATG4D	19	10663612	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	52946	10663612	48465371	623	34619										
KRI1	65095	broad.mit.edu	37	chr19	10664823	10664823	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggctggcttcttgtggggtGatacaggggcttcctcttcc	15	10	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:10664823G>A	uc002moy.1	-	19	1943	c.1934C>T	c.(1933-1935)TCA>TTA	p.S645L	KRI1_uc002mow.1_Missense_Mutation_p.S264L|KRI1_uc002mox.1_Missense_Mutation_p.S641L	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	645										ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			CTTGTGGGGTGATACAGGGGC	0.647													24	203	---	---	---	---	PASS	A	10664823	A	A	10664823	3	1	91	1	0	0	0	0	1	0	0	0	8444	1294	45	2	199	2	KRI1	19	10664823	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1211	10664823	48464160	624	34620										
ZNF441	126068	broad.mit.edu	37	chr19	11891126	11891126	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttcaaatacatgaaagacctCagcatggaaagaaactctat	6	8	3	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:11891126C>T	uc010dyj.2	+	4	681	c.487C>T	c.(487-489)CAG>TAG	p.Q163*	ZNF441_uc002msn.3_Nonsense_Mutation_p.Q119*	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	163					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGAAAGACCTCAGCATGGAAA	0.423													13	124	---	---	---	---	PASS	T	11891126	T	T	11891126	4	4	91	1	0	0	0	0	0	1	0	0	17911	827	29	2	501	2	ZNF441	19	11891126	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1226303	11891126	47237857	625	34621										
ZNF442	79973	broad.mit.edu	37	chr19	12461659	12461659	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttagataggaactgtaaataGggaaggctttacaacactgc	10	6	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:12461659G>C	uc002mtr.1	-	6	1351	c.740C>G	c.(739-741)CCT>CGT	p.P247R	ZNF442_uc010xmk.1_Missense_Mutation_p.P178R	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	247	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						ACTGTAAATAGGGAAGGCTTT	0.408													23	286	---	---	---	---	PASS	C	12461659	C	C	12461659	3	2	91	1	0	0	0	0	1	0	0	0	17912	1000	35	4	1147	4	ZNF442	19	12461659	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	570533	12461659	46667324	626	34622										
FARSA	2193	broad.mit.edu	37	chr19	13035011	13035011	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaccgacacgttctcgggaaGccccatgggcagcagcatct	12	14	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:13035011G>A	uc002mvs.2	-	12	1390	c.1342C>T	c.(1342-1344)CTT>TTT	p.L448F	FARSA_uc002mvt.2_RNA|FARSA_uc010xmv.1_Missense_Mutation_p.L417F|FARSA_uc010dyy.1_Missense_Mutation_p.L369F	NM_004461	NP_004452	Q9Y285	SYFA_HUMAN	phenylalanyl-tRNA synthetase, alpha subunit	448					phenylalanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|phenylalanine-tRNA ligase activity|protein binding|tRNA binding			ovary(1)	1					L-Phenylalanine(DB00120)	TTCTCGGGAAGCCCCATGGGC	0.607													10	170	---	---	---	---	PASS	A	13035011	A	A	13035011	3	1	91	1	0	0	0	0	1	0	0	0	5679	971	34	3	192	3	FARSA	19	13035011	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	573352	13035011	46093972	627	34623										
BRD4	23476	broad.mit.edu	37	chr19	15350616	15350616	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggggctggggctggaccacgGaggcagcacgcagctcctgg	19	12	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:15350616G>A	uc002nar.2	-	16	3521	c.3299C>T	c.(3298-3300)TCC>TTC	p.S1100F		NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	1100					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			CTGGACCACGGAGGCAGCACG	0.706			T	NUT|C15orf55	lethal midline carcinoma of young people								10	76	---	---	---	---	PASS	A	15350616	A	A	15350616	3	1	91	1	0	0	0	0	1	0	0	0	1504	1174	41	2	809	2	BRD4	19	15350616	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2315605	15350616	43778367	628	34624										
CYP4F2	8529	broad.mit.edu	37	chr19	16008360	16008360	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggccccgaccagcaggaggAgcagccaaggggatgctgcc	16	13	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:16008360A>G	uc002nbs.1	-	2	112	c.62T>C	c.(61-63)CTC>CCC	p.L21P	CYP4F2_uc010xot.1_Intron|CYP4F2_uc010xou.1_5'UTR	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	21					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						CAGCAGGAGGAGCAGCCAAGG	0.662													13	27	---	---	---	---	PASS	G	16008360	G	G	16008360	3	3	91	1	0	0	0	0	1	0	0	0	4188	304	11	5	1548	5	CYP4F2	19	16008360	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	657744	16008360	43120623	629	34625										
AP1M1	8907	broad.mit.edu	37	chr19	16339738	16339738	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtggtccatcaagtccttccCggtgagcactctgtccagac	10	14	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:16339738C>T	uc002ndu.2	+	9	1219	c.1046C>T	c.(1045-1047)CCG>CTG	p.P349L	AP1M1_uc002ndv.2_Missense_Mutation_p.P361L|AP1M1_uc010xpd.1_Intron	NM_032493	NP_115882	Q9BXS5	AP1M1_HUMAN	adaptor-related protein complex 1, mu 1 subunit	349	MHD.				cellular membrane organization|endosome to melanosome transport|interspecies interaction between organisms|intracellular protein transport|melanosome organization|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding			ovary(3)|breast(1)	4						AAGTCCTTCCCGGTGAGCACT	0.617													9	53	---	---	---	---	PASS	T	16339738	T	T	16339738	3	4	91	1	0	0	0	0	1	0	0	0	734	666	23	1	1120	1	AP1M1	19	16339738	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	331378	16339738	42789245	630	34626										
PLVAP	83483	broad.mit.edu	37	chr19	17476334	17476334	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctcctgactggcccgcaggcCctgctgggcttccagcttct	11	17	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:17476334C>A	uc002ngk.1	-	3	990	c.940G>T	c.(940-942)GGC>TGC	p.G314C		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	314	Potential.|Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						GCCCGCAGGCCCTGCTGGGCT	0.667													28	58	---	---	---	---	PASS	A	17476334	A	A	17476334	3	1	91	1	0	0	0	0	1	0	0	0	12116	623	22	3	404	3	PLVAP	19	17476334	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1136596	17476334	41652649	631	34627										
FAM129C	199786	broad.mit.edu	37	chr19	17643149	17643149	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccccggtggcagccgatcttCtgtgttctgcgtggggacgg	16	12	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:17643149C>T	uc010xpr.1	+	4	495	c.357C>T	c.(355-357)TTC>TTT	p.F119F	FAM129C_uc010xpq.1_Silent_p.F119F|FAM129C_uc010xps.1_Silent_p.F88F|FAM129C_uc010xpt.1_RNA	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	119											0						AGCCGATCTTCTGTGTTCTGC	0.652													18	148	---	---	---	---	PASS	T	17643149	T	T	17643149	2	4	91	1	0	0	0	0	0	0	0	1	5438	912	32	2		2	FAM129C	19	17643149	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	166815	17643149	41485834	632	34628										
FAM129C	199786	broad.mit.edu	37	chr19	17653073	17653073	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tttctggggatgcagagcctCgtgtttggggcccaagatct	14	9	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:17653073C>T	uc010xpr.1	+	11	1530	c.1392C>T	c.(1390-1392)CTC>CTT	p.L464L	FAM129C_uc010xpq.1_Silent_p.L464L|FAM129C_uc002ngy.3_Silent_p.L190L|FAM129C_uc010xpu.1_Silent_p.L190L|FAM129C_uc002ngz.3_RNA|FAM129C_uc010eaw.2_Silent_p.L190L|FAM129C_uc002nhb.2_Silent_p.L63L	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	464											0						TGCAGAGCCTCGTGTTTGGGG	0.552													28	218	---	---	---	---	PASS	T	17653073	T	T	17653073	2	4	91	1	0	0	0	0	0	0	0	1	5438	871	31	2		2	FAM129C	19	17653073	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	9924	17653073	41475910	633	34629										
JUND	3727	broad.mit.edu	37	chr19	18391933	18391933	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccttggggtagaggaactgtGagctcgtcggcgtggtggtg	19	7	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:18391933G>A	uc002nip.2	-	1	500	c.362C>T	c.(361-363)TCA>TTA	p.S121L	hsa-mir-3188|MI0014232_5'Flank	NM_005354	NP_005345	P17535	JUND_HUMAN	jun D proto-oncogene	121					regulation of transcription from RNA polymerase II promoter	chromatin|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						GAGGAACTGTGAGCTCGTCGG	0.657													7	18	---	---	---	---	PASS	A	18391933	A	A	18391933	3	1	91	1	0	0	0	0	1	0	0	0	7971	1294	45	2	685	2	JUND	19	18391933	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	738860	18391933	40737050	634	34630										
UPF1	5976	broad.mit.edu	37	chr19	18964156	18964156	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gccacgtcatcaaggtccctGatagtatccttcatgtgaag	9	11	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:18964156G>C	uc002nkg.2	+	8	1461	c.1186G>C	c.(1186-1188)GAT>CAT	p.D396H	UPF1_uc002nkf.2_Missense_Mutation_p.D385H	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	396	Sufficient for interaction with RENT2.				cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CAAGGTCCCTGATAGTATCCT	0.587													9	50	---	---	---	---	PASS	C	18964156	C	C	18964156	3	2	91	1	0	0	0	0	1	0	0	0	17000	1290	45	2	1183	2	UPF1	19	18964156	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	572223	18964156	40164827	635	34631										
HOMER3	9454	broad.mit.edu	37	chr19	19043761	19043761	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	caacatcttctttagccgctCgcgctctgtggggccggggg	14	13	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:19043761C>T	uc002nku.2	-	5	1158	c.505G>A	c.(505-507)GAG>AAG	p.E169K	HOMER3_uc002nko.1_RNA|HOMER3_uc002nkp.1_RNA|HOMER3_uc010eby.2_Missense_Mutation_p.E133K|HOMER3_uc010ebz.2_Missense_Mutation_p.E169K|HOMER3_uc002nkw.2_Missense_Mutation_p.E169K|HOMER3_uc002nkv.2_Missense_Mutation_p.E169K	NM_004838	NP_004829	Q9NSC5	HOME3_HUMAN	Homer, neuronal immediate early gene, 3 isoform	169					metabotropic glutamate receptor signaling pathway|protein targeting	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	protein binding				0			Epithelial(12;0.0107)			TTTAGCCGCTCGCGCTCTGTG	0.428													11	53	---	---	---	---	PASS	T	19043761	T	T	19043761	3	4	91	1	0	0	0	0	1	0	0	0	7280	893	31	2	600	2	HOMER3	19	19043761	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	79605	19043761	40085222	636	34632										
ZNF85	7639	broad.mit.edu	37	chr19	21131580	21131580	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcattttgcccaagacctttGgccggagcagaatataaaag	9	9	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:21131580G>C	uc002npg.3	+	4	387	c.260G>C	c.(259-261)TGG>TCG	p.W87S	ZNF85_uc010ecn.2_Missense_Mutation_p.W22S|ZNF85_uc010eco.2_Missense_Mutation_p.W35S|ZNF85_uc002npi.2_Missense_Mutation_p.W28S	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	87						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						CAAGACCTTTGGCCGGAGCAG	0.323													9	137	---	---	---	---	PASS	C	21131580	C	C	21131580	3	2	91	1	0	0	0	0	1	0	0	0	18190	1357	47	4	274	4	ZNF85	19	21131580	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2087819	21131580	37997403	637	34633										
ZNF714	148206	broad.mit.edu	37	chr19	21299680	21299680	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaagattcttttcaacaagtGatactgagaagacatggcaa	8	6	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:21299680G>A	uc002npo.3	+	5	570	c.210G>A	c.(208-210)GTG>GTA	p.V70V	ZNF714_uc002npl.2_5'UTR|ZNF714_uc010ecp.1_Silent_p.V22V|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	70					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTCAACAAGTGATACTGAGAA	0.353													8	77	---	---	---	---	PASS	A	21299680	A	A	21299680	2	1	91	1	0	0	0	0	0	0	0	1	18115	1277	45	2		2	ZNF714	19	21299680	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	168100	21299680	37829303	638	34634										
ZNF708	7562	broad.mit.edu	37	chr19	21476864	21476864	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtagggtttctctccagtatGaattttcttgtgattagtaa	9	5	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:21476864G>A	uc002npq.1	-	4	1102	c.904C>T	c.(904-906)CAT>TAT	p.H302Y	ZNF708_uc002npr.1_Missense_Mutation_p.H238Y|ZNF708_uc010ecs.1_Missense_Mutation_p.H238Y	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	302	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						TCTCCAGTATGAATTTTCTTG	0.378													7	100	---	---	---	---	PASS	A	21476864	A	A	21476864	3	1	91	1	0	0	0	0	1	0	0	0	18109	1290	45	2	791	2	ZNF708	19	21476864	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	177184	21476864	37652119	639	34635										
ZNF99	7652	broad.mit.edu	37	chr19	22941883	22941883	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttcttcccagtatgaattatCttatgtttcataagggttga	7	6	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:22941883C>A	uc010xrh.1	-	5	556	c.556_splice	c.e5-1	p.I186_splice		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)				TATGAATTATCTTATGTTTCA	0.338													14	45	---	---	---	---	PASS	A	22941883	A	A	22941883	5	1	91	1	0	0	0	0	0	0	1	0	18201	927	32	2	2569	2	ZNF99	19	22941883	Splice_Site	SNP	C	TCGA-39-5031-01A-01D-1441-08	1465019	22941883	36187100	640	34636										
CCNE1	898	broad.mit.edu	37	chr19	30308042	30308042	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctgtgtatttttcatttacAgccttgggacaataatgcag	8	8	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:30308042A>G	uc002nsn.2	+	5	364	c.181_splice	c.e5-2	p.P61_splice	CCNE1_uc002nso.2_Splice_Site_p.P46_splice	NM_001238	NP_001229	P24864	CCNE1_HUMAN	cyclin E1 isoform 1						androgen receptor signaling pathway|cell division|positive regulation of transcription, DNA-dependent|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm	androgen receptor binding|protein kinase binding|transcription coactivator activity			lung(2)	2	all_cancers(1;2.19e-31)|all_epithelial(1;1.49e-30)|all_lung(1;1.37e-11)|Lung NSC(1;2.35e-11)|Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|Epithelial(1;6.85e-98)|all cancers(1;1.38e-94)|OV - Ovarian serous cystadenocarcinoma(1;1.38e-90)|STAD - Stomach adenocarcinoma(5;5.8e-07)|GBM - Glioblastoma multiforme(4;0.0394)|Lung(7;0.092)|LUAD - Lung adenocarcinoma(5;0.115)|BRCA - Breast invasive adenocarcinoma(6;0.183)|COAD - Colon adenocarcinoma(1;0.188)|Colorectal(1;0.202)			TTTCATTTACAGCCTTGGGAC	0.443													29	96	---	---	---	---	PASS	G	30308042	G	G	30308042	5	3	91	1	0	0	0	0	0	0	1	0	2920	202	7	5	193	5	CCNE1	19	30308042	Splice_Site	SNP	A	TCGA-39-5031-01A-01D-1441-08	7366159	30308042	28820941	641	34637										
ZNF536	9745	broad.mit.edu	37	chr19	30934871	30934871	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgcaagtacccgtgcccactCtgcggcaagcgcttccgctt	10	17	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:30934871C>A	uc002nsu.1	+	2	540	c.402C>A	c.(400-402)CTC>CTA	p.L134L	ZNF536_uc010edd.1_Silent_p.L134L	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	134	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CGTGCCCACTCTGCGGCAAGC	0.627													26	55	---	---	---	---	PASS	A	30934871	A	A	30934871	2	1	91	1	0	0	0	0	0	0	0	1	17971	900	32	2		2	ZNF536	19	30934871	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	626829	30934871	28194112	642	34638										
TSHZ3	57616	broad.mit.edu	37	chr19	31767814	31767814	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtttttgaggaactttgttCcacctgtccttcgaagctgg	10	9	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:31767814C>T	uc002nsy.3	-	2	2950	c.2885G>A	c.(2884-2886)GGA>GAA	p.G962E		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	962					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					GAACTTTGTTCCACCTGTCCT	0.532													29	72	---	---	---	---	PASS	T	31767814	T	T	31767814	3	4	91	1	0	0	0	0	1	0	0	0	16622	855	30	2	364	2	TSHZ3	19	31767814	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	832943	31767814	27361169	643	34639										
TSHZ3	57616	broad.mit.edu	37	chr19	31768045	31768045	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcctcttctgggcgggcgtcGactcctcagcctcctccaga	10	17	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:31768045G>T	uc002nsy.3	-	2	2719	c.2654C>A	c.(2653-2655)TCG>TAG	p.S885*		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	885					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					GGCGGGCGTCGACTCCTCAGC	0.607													16	56	---	---	---	---	PASS	T	31768045	T	T	31768045	4	4	91	1	0	0	0	0	0	1	0	0	16622	1059	37	2	595	2	TSHZ3	19	31768045	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	231	31768045	27360938	644	34640										
ZNF507	22847	broad.mit.edu	37	chr19	32844576	32844576	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gttgattgctcctatccaatCtttgaaaatgaaaatgaacc	6	8	1	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:32844576C>G	uc002nte.2	+	3	1112	c.840C>G	c.(838-840)ATC>ATG	p.I280M	ZNF507_uc002ntc.2_Missense_Mutation_p.I280M|ZNF507_uc010xrn.1_Missense_Mutation_p.I280M|ZNF507_uc002ntd.2_Missense_Mutation_p.I280M	NM_001136156	NP_001129628	Q8TCN5	ZN507_HUMAN	zinc finger protein 507	280					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|kidney(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(110;0.162)					CCTATCCAATCTTTGAAAATG	0.473													18	196	---	---	---	---	PASS	G	32844576	G	G	32844576	3	3	91	1	0	0	0	0	1	0	0	0	17950	903	32	2	842	2	ZNF507	19	32844576	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1076531	32844576	26284407	645	34641										
GPI	2821	broad.mit.edu	37	chr19	34890129	34890129	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagatcctcctggccaacttCttggcccagacagaggccct	9	16	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:34890129C>A	uc002nvg.1	+	15	1390	c.1287C>A	c.(1285-1287)TTC>TTA	p.F429L	GPI_uc002nvf.2_Missense_Mutation_p.F468L|GPI_uc010xrv.1_Missense_Mutation_p.F440L|GPI_uc010xrw.1_Missense_Mutation_p.F401L|GPI_uc010edl.1_Missense_Mutation_p.F429L|GPI_uc002nvi.1_Missense_Mutation_p.F92L	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	429					angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					TGGCCAACTTCTTGGCCCAGA	0.587													5	40	---	---	---	---	PASS	A	34890129	A	A	34890129	3	1	91	1	0	0	0	0	1	0	0	0	6611	912	32	2	1466	2	GPI	19	34890129	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2045553	34890129	24238854	646	34642										
GRAMD1A	57655	broad.mit.edu	37	chr19	35514178	35514178	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctcaacgtcctgctcttctAccgcctctggtccctggaaa	7	17	4	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:35514178A>G	uc010xse.1	+	18	2029	c.1892A>G	c.(1891-1893)TAC>TGC	p.Y631C	GRAMD1A_uc002nxk.2_Missense_Mutation_p.Y620C|GRAMD1A_uc002nxl.2_Missense_Mutation_p.Y393C|GRAMD1A_uc010xsf.1_Missense_Mutation_p.Y632C|GRAMD1A_uc002nxm.1_RNA|GRAMD1A_uc002nxn.1_Missense_Mutation_p.Y242C	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	631						integral to membrane					0	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			CTGCTCTTCTACCGCCTCTGG	0.582													154	188	---	---	---	---	PASS	G	35514178	G	G	35514178	3	3	91	1	0	0	0	0	1	0	0	0	6747	391	14	5	1962	5	GRAMD1A	19	35514178	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	624049	35514178	23614805	647	34643										
CD22	933	broad.mit.edu	37	chr19	35832500	35832500	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgtccaaggcctggacacttGaagtgctgtgtgagtgaggg	16	8	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:35832500G>A	uc010edt.2	+	8	1839	c.1762G>A	c.(1762-1764)GAA>AAA	p.E588K	CD22_uc010xst.1_Missense_Mutation_p.E416K|CD22_uc010edu.2_Missense_Mutation_p.E500K|CD22_uc010edv.2_Missense_Mutation_p.E588K|CD22_uc002nzb.3_Missense_Mutation_p.E411K|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	588	Extracellular (Potential).				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)	CTGGACACTTGAAGTGCTGTG	0.597													27	61	---	---	---	---	PASS	A	35832500	A	A	35832500	3	1	91	1	0	0	0	0	1	0	0	0	2985	1291	45	2	1788	2	CD22	19	35832500	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	318322	35832500	23296483	648	34644										
SIPA1L3	23094	broad.mit.edu	37	chr19	38689091	38689091	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	accgccccctgcggcgcctgGaccctgggctgatgcccctg	13	19	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:38689091G>T	uc002ohk.2	+	19	5412	c.4903G>T	c.(4903-4905)GAC>TAC	p.D1635Y		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1635					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GCGGCGCCTGGACCCTGGGCT	0.672													26	145	---	---	---	---	PASS	T	38689091	T	T	38689091	3	4	91	1	0	0	0	0	1	0	0	0	14331	1174	41	2	4969	2	SIPA1L3	19	38689091	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2856591	38689091	20439892	649	34645										
YIF1B	90522	broad.mit.edu	37	chr19	38799948	38799948	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aagtaatacttgagcttggtGatggggatgaagcggtcgat	15	4	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:38799948G>A	uc002ohz.2	-	3	367	c.318C>T	c.(316-318)ATC>ATT	p.I106I	YIF1B_uc002ohw.2_Silent_p.I75I|YIF1B_uc002ohx.2_Silent_p.I91I|YIF1B_uc010xtx.1_Silent_p.I89I|YIF1B_uc010xty.1_Silent_p.I75I|YIF1B_uc002oia.2_Silent_p.I103I|YIF1B_uc002ohy.2_Silent_p.I103I|YIF1B_uc002oib.2_Silent_p.I103I	NM_001039672	NP_001034761	Q5BJH7	YIF1B_HUMAN	Yip1 interacting factor homolog B isoform 5	106	Cytoplasmic (Potential).					integral to membrane					0	all_cancers(60;1.07e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TGAGCTTGGTGATGGGGATGA	0.607													35	142	---	---	---	---	PASS	A	38799948	A	A	38799948	2	1	91	1	0	0	0	0	0	0	0	1	17473	1280	45	2		2	YIF1B	19	38799948	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	110857	38799948	20329035	650	34646										
ATP1A3	478	broad.mit.edu	37	chr19	42490037	42490037	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttgcagccgtgggctgagatGatccgcaggtcagctggcac	15	11	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:42490037G>T	uc002osg.2	-	6	739	c.585C>A	c.(583-585)ATC>ATA	p.I195I	ATP1A3_uc010xwf.1_Silent_p.I206I|ATP1A3_uc010xwg.1_Silent_p.I165I|ATP1A3_uc010xwh.1_Silent_p.I208I|ATP1A3_uc002osh.2_Silent_p.I195I	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	195	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						GGGCTGAGATGATCCGCAGGT	0.483													37	155	---	---	---	---	PASS	T	42490037	T	T	42490037	2	4	91	1	0	0	0	0	0	0	0	1	1130	1280	45	2		2	ATP1A3	19	42490037	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	3690089	42490037	16638946	651	34647										
CIC	23152	broad.mit.edu	37	chr19	42794394	42794394	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctttcatgcagggctttggtCggaaggtgttttcacctgtg	13	8	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:42794394C>T	uc002otf.1	+	10	1514	c.1474C>T	c.(1474-1476)CGG>TGG	p.R492W		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	492			R -> W (de novo variant found in a patient with mental retardation).		regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				GGGCTTTGGTCGGAAGGTGTT	0.627			T	DUX4	soft tissue sarcoma								12	213	---	---	---	---	PASS	T	42794394	T	T	42794394	3	4	91	1	0	0	0	0	1	0	0	0	3424	875	31	2	1512	2	CIC	19	42794394	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	304357	42794394	16334589	652	34648										
HIF3A	64344	broad.mit.edu	37	chr19	46811549	46811549	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaggagcttcaggacgccctGaccccccagcagagtgagtt	13	13	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:46811549G>C	uc002peh.2	+	4	464	c.435G>C	c.(433-435)CTG>CTC	p.L145L	HIF3A_uc002pef.1_Silent_p.L145L|HIF3A_uc002peg.3_Silent_p.L145L|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_Silent_p.L89L|HIF3A_uc002pej.1_Silent_p.L76L|HIF3A_uc002pek.2_Silent_p.L89L|HIF3A_uc010xxy.1_Silent_p.L76L|HIF3A_uc002pel.2_Silent_p.L143L|HIF3A_uc010xxz.1_Silent_p.L94L	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	145	PAS 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		AGGACGCCCTGACCCCCCAGC	0.502													21	150	---	---	---	---	PASS	C	46811549	C	C	46811549	2	2	91	1	0	0	0	0	0	0	0	1	7105	1277	45	2		2	HIF3A	19	46811549	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	4017155	46811549	12317434	653	34649										
PRKD2	25865	broad.mit.edu	37	chr19	47197343	47197343	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtgcccggcggcacaaggctGaagttctgggcggactccac	15	13	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:47197343G>A	uc002pfh.2	-	11	1707	c.1365C>T	c.(1363-1365)TTC>TTT	p.F455F	PRKD2_uc010ekt.2_5'Flank|PRKD2_uc002pfe.2_5'UTR|PRKD2_uc002pff.2_5'UTR|PRKD2_uc002pfg.2_Silent_p.F298F|PRKD2_uc002pfi.2_Silent_p.F455F|PRKD2_uc002pfj.2_Silent_p.F455F|PRKD2_uc010xye.1_Silent_p.F455F|PRKD2_uc002pfk.2_Silent_p.F298F	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	455	PH.				cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		GCACAAGGCTGAAGTTCTGGG	0.607													10	96	---	---	---	---	PASS	A	47197343	A	A	47197343	2	1	91	1	0	0	0	0	0	0	0	1	12519	1281	45	2		2	PRKD2	19	47197343	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	385794	47197343	11931640	654	34650										
CRX	1406	broad.mit.edu	37	chr19	48342941	48342941	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgctttctgctcttccccctCcgcctatgggtctccgagct	8	18	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:48342941C>T	uc002phq.3	+	4	821	c.617C>T	c.(616-618)TCC>TTC	p.S206F		NM_000554	NP_000545	O43186	CRX_HUMAN	cone-rod homeobox protein	206					organ morphogenesis|response to stimulus|visual perception		leucine zipper domain binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2		all_cancers(25;2.76e-09)|all_epithelial(76;7.01e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000266)|all cancers(93;0.000788)|Epithelial(262;0.0226)|GBM - Glioblastoma multiforme(486;0.0521)		TCTTCCCCCTCCGCCTATGGG	0.682													45	168	---	---	---	---	PASS	T	48342941	T	T	48342941	3	4	91	1	0	0	0	0	1	0	0	0	3902	855	30	2	627	2	CRX	19	48342941	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1145598	48342941	10786042	655	34651										
CRX	1406	broad.mit.edu	37	chr19	48343180	48343180	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctacaatcccatggaccctCtggactacaaggatcagagt	8	13	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:48343180C>T	uc002phq.3	+	4	1060	c.856C>T	c.(856-858)CTG>TTG	p.L286L		NM_000554	NP_000545	O43186	CRX_HUMAN	cone-rod homeobox protein	286					organ morphogenesis|response to stimulus|visual perception		leucine zipper domain binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2		all_cancers(25;2.76e-09)|all_epithelial(76;7.01e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000266)|all cancers(93;0.000788)|Epithelial(262;0.0226)|GBM - Glioblastoma multiforme(486;0.0521)		CATGGACCCTCTGGACTACAA	0.547													64	240	---	---	---	---	PASS	T	48343180	T	T	48343180	2	4	91	1	0	0	0	0	0	0	0	1	3902	912	32	2		2	CRX	19	48343180	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	239	48343180	10785803	656	34652										
NUCB1	4924	broad.mit.edu	37	chr19	49409111	49409111	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcacggctgcggatgctgctCaaggccaagatggacgccga	14	12	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:49409111C>G	uc002plb.3	+	4	417	c.345C>G	c.(343-345)CTC>CTG	p.L115L	NUCB1_uc002pla.2_Silent_p.L115L|NUCB1_uc002plc.2_Silent_p.L115L	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	115						ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		GGATGCTGCTCAAGGCCAAGA	0.672													29	36	---	---	---	---	PASS	G	49409111	G	G	49409111	2	3	91	1	0	0	0	0	0	0	0	1	10718	813	29	2		2	NUCB1	19	49409111	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1065931	49409111	9719872	657	34653										
NTF4	4909	broad.mit.edu	37	chr19	49564991	49564991	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gccagctcaccccgacgactCgctggtgcagtttcgctcac	10	17	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:49564991C>G	uc002pmf.3	-	2	405	c.264G>C	c.(262-264)GCG>GCC	p.A88A	CGB7_uc010yah.1_Intron	NM_006179	NP_006170	P34130	NTF4_HUMAN	neurotrophin 5 preproprotein	88			A -> V.		adult locomotory behavior|epidermis development|ganglion mother cell fate determination|long-term memory|sensory organ boundary specification	endoplasmic reticulum lumen|extracellular region	growth factor activity				0		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)		CCCGACGACTCGCTGGTGCAG	0.692													3	29	---	---	---	---	PASS	G	49564991	G	G	49564991	2	3	91	1	0	0	0	0	0	0	0	1	10697	871	31	2		2	NTF4	19	49564991	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	155880	49564991	9563992	658	34654										
PPFIA3	8541	broad.mit.edu	37	chr19	49637089	49637089	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggaattttgaggagcggcttCggcagctggaggcccagctg	17	9	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:49637089C>T	uc002pmr.2	+	10	1530	c.1198C>T	c.(1198-1200)CGG>TGG	p.R400W	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_Missense_Mutation_p.R324W|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_Missense_Mutation_p.R268W	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	400	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		GGAGCGGCTTCGGCAGCTGGA	0.627													11	30	---	---	---	---	PASS	T	49637089	T	T	49637089	3	4	91	1	0	0	0	0	1	0	0	0	12311	875	31	2	1232	2	PPFIA3	19	49637089	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	72098	49637089	9491894	659	34655										
PRR12	57479	broad.mit.edu	37	chr19	50099552	50099552	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgcaggcgcccagccctcctCggacctcaggggcggacggc	15	17	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:50099552C>T	uc002poo.3	+	4	1960	c.1960C>T	c.(1960-1962)CGG>TGG	p.R654W		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		CAGCCCTCCTCGGACCTCAGG	0.706													8	21	---	---	---	---	PASS	T	50099552	T	T	50099552	3	4	91	1	0	0	0	0	1	0	0	0	12584	875	31	2	1974	2	PRR12	19	50099552	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	462463	50099552	9029431	660	34656										
AP2A1	160	broad.mit.edu	37	chr19	50306555	50306555	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctactgcaggccgcatgtatCtcttctatggcaacaagacc	8	13	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:50306555C>T	uc002ppn.2	+	19	2543	c.2332C>T	c.(2332-2334)CTC>TTC	p.L778F	AP2A1_uc010enj.1_RNA|AP2A1_uc002ppo.2_Missense_Mutation_p.L756F|AP2A1_uc002ppp.1_3'UTR|AP2A1_uc010enk.2_5'Flank	NM_014203	NP_055018	O95782	AP2A1_HUMAN	adaptor-related protein complex 2, alpha 1	778					axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|Golgi to endosome transport|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|clathrin coat of trans-Golgi network vesicle|cytosol	protein binding|protein transporter activity			ovary(2)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0023)|GBM - Glioblastoma multiforme(134;0.0157)		CCGCATGTATCTCTTCTATGG	0.602													8	68	---	---	---	---	PASS	T	50306555	T	T	50306555	3	4	91	1	0	0	0	0	1	0	0	0	739	913	32	2	2406	2	AP2A1	19	50306555	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	207003	50306555	8822428	661	34657										
ZNF468	90333	broad.mit.edu	37	chr19	53344268	53344268	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atgaatcctcctgtgtctttCcaggtttgatttgcgactga	9	9	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:53344268C>G	uc002qaf.2	-	4	1430	c.1279G>C	c.(1279-1281)GAA>CAA	p.E427Q	ZNF468_uc002qae.2_Missense_Mutation_p.E374Q	NM_001008801	NP_001008801	Q5VIY5	ZN468_HUMAN	zinc finger protein ZNF468 isoform 2	427	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0358)		CTGTGTCTTTCCAGGTTTGAT	0.418													32	200	---	---	---	---	PASS	G	53344268	G	G	53344268	3	3	91	1	0	0	0	0	1	0	0	0	17925	864	30	2	293	2	ZNF468	19	53344268	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3037713	53344268	5784715	662	34658										
MBOAT7	79143	broad.mit.edu	37	chr19	54677872	54677872	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaagtggatacagaagtagaTggaggcccagtaccgaaggg	16	6	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:54677872T>G	uc002qdq.2	-	9	1551	c.1285A>C	c.(1285-1287)ATC>CTC	p.I429L	TMC4_uc010erf.2_5'Flank|TMC4_uc002qdo.2_5'Flank|MBOAT7_uc010erg.2_Missense_Mutation_p.I113L|MBOAT7_uc010yem.1_Missense_Mutation_p.I411L|MBOAT7_uc002qdr.2_Missense_Mutation_p.I429L|MBOAT7_uc002qds.2_Missense_Mutation_p.I356L|MBOAT7_uc010yen.1_Missense_Mutation_p.I356L	NM_024298	NP_077274	Q96N66	MBOA7_HUMAN	membrane bound O-acyltransferase domain	429	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CAGAAGTAGATGGAGGCCCAG	0.642													12	131	---	---	---	---	PASS	G	54677872	G	G	54677872	3	3	91	1	0	0	0	0	1	0	0	0	9358	1464	51	5	137	5	MBOAT7	19	54677872	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	1333604	54677872	4451111	663	34659										
NLRP9	338321	broad.mit.edu	37	chr19	56235397	56235397	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcagcgtctcacacaggtgtCtgatgtcagactgggagagg	14	9	4	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:56235397C>G	uc002qly.2	-	4	2136	c.2108G>C	c.(2107-2109)AGA>ACA	p.R703T		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	703						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		ACACAGGTGTCTGATGTCAGA	0.473													21	118	---	---	---	---	PASS	G	56235397	G	G	56235397	3	3	91	1	0	0	0	0	1	0	0	0	10484	913	32	2	891	2	NLRP9	19	56235397	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1557525	56235397	2893586	664	34660										
USP29	57663	broad.mit.edu	37	chr19	57640692	57640692	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	catcaagtttagaggatttaGaaaaagatagagatttgaaa	9	2	1	5			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:57640692G>C	uc002qny.2	+	4	1005	c.649G>C	c.(649-651)GAA>CAA	p.E217Q		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	217					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AGAGGATTTAGAAAAAGATAG	0.368													21	143	---	---	---	---	PASS	C	57640692	C	C	57640692	3	2	91	1	0	0	0	0	1	0	0	0	17056	943	33	2	651	2	USP29	19	57640692	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1405295	57640692	1488291	665	34661										
ZNF530	348327	broad.mit.edu	37	chr19	58118674	58118674	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctctggcctcttaagacacaGaagagttcatgtgcagtgaa	10	9	3	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:58118674G>T	uc002qpk.2	+	3	2001	c.1781G>T	c.(1780-1782)AGA>ATA	p.R594I	ZNF547_uc002qpm.3_Intron|ZNF530_uc002qpl.2_RNA	NM_020880	NP_065931	Q6P9A1	ZN530_HUMAN	zinc finger protein 530	594	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0443)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TTAAGACACAGAAGAGTTCAT	0.299													7	81	---	---	---	---	PASS	T	58118674	T	T	58118674	3	4	91	1	0	0	0	0	1	0	0	0	17968	942	33	2	1791	2	ZNF530	19	58118674	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	477982	58118674	1010309	666	34662										
ZNF586	54807	broad.mit.edu	37	chr19	58288012	58288012	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	taccgtgacgtgatgctggaGaccttgacacttatatcctc	9	11	0	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:58288012G>C	uc002qqd.2	+	2	324	c.138G>C	c.(136-138)GAG>GAC	p.E46D	ZNF587_uc002qqb.2_Intron|ZNF586_uc002qqe.2_Intron|ZNF586_uc010euh.2_Missense_Mutation_p.E3D|ZNF586_uc002qqf.1_Intron	NM_017652	NP_060122	Q9NXT0	ZN586_HUMAN	zinc finger protein 586	46	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGATGCTGGAGACCTTGACAC	0.478													41	315	---	---	---	---	PASS	C	58288012	C	C	58288012	3	2	91	1	0	0	0	0	1	0	0	0	18016	933	33	2	144	2	ZNF586	19	58288012	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	169338	58288012	840971	667	34663										
ZNF606	80095	broad.mit.edu	37	chr19	58490799	58490799	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtatgagttttcttatgttGaataaggtaagagctccaga	10	4	1	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:58490799G>C	uc002qqw.2	-	7	1867	c.1249C>G	c.(1249-1251)CAA>GAA	p.Q417E	ZNF606_uc010yhp.1_Missense_Mutation_p.Q327E	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	417	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		TTCTTATGTTGAATAAGGTAA	0.393													20	121	---	---	---	---	PASS	C	58490799	C	C	58490799	3	2	91	1	0	0	0	0	1	0	0	0	18029	1299	45	2	1133	2	ZNF606	19	58490799	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	202787	58490799	638184	668	34664										
ZNF274	10782	broad.mit.edu	37	chr19	58723025	58723025	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtaccgcgatgtgatgctgGagacctttgggcacctggtc	14	10	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr19:58723025G>T	uc002qrq.1	+	9	1411	c.952G>T	c.(952-954)GAG>TAG	p.E318*	ZNF274_uc002qrr.1_Nonsense_Mutation_p.E286*|ZNF274_uc002qrs.1_Nonsense_Mutation_p.E213*|ZNF274_uc010eum.1_Nonsense_Mutation_p.E77*	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	318	KRAB 2.				viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		TGTGATGCTGGAGACCTTTGG	0.642													34	126	---	---	---	---	PASS	T	58723025	T	T	58723025	4	4	91	1	0	0	0	0	0	1	0	0	17806	1175	41	2	973	2	ZNF274	19	58723025	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	232226	58723025	405958	669	34665										
SPEF1	25876	broad.mit.edu	37	chr20	3760348	3760348	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gttgctgagcttctgctggaGagagttggcggggacataat	16	6	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:3760348G>C	uc002wjj.2	-	2	352	c.184C>G	c.(184-186)CTC>GTC	p.L62V		NM_015417	NP_056232	Q9Y4P9	SPEF1_HUMAN	calponin-homology and microtubule-associated	62						cilium axoneme|cytoplasm|cytoskeleton					0						TTCTGCTGGAGAGAGTTGGCG	0.527													10	64	---	---	---	---	PASS	C	3760348	C	C	3760348	3	2	91	1	0	0	0	0	1	0	0	0	15033	942	33	2	550	2	SPEF1	20	3760348	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08		3760348	59265172	670	34666										
CENPB	1059	broad.mit.edu	37	chr20	3766431	3766431	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggcagcttctcgctgccgtCggcattggcgcatagcagga	15	12	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:3766431C>A	uc002wjk.2	-	1	907	c.700G>T	c.(700-702)GAC>TAC	p.D234Y	CDC25B_uc010zqk.1_5'Flank|CDC25B_uc010zql.1_5'Flank|CDC25B_uc010zqm.1_5'Flank	NM_001810	NP_001801	P07199	CENPB_HUMAN	centromere protein B	234					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|satellite DNA binding				0						TCGCTGCCGTCGGCATTGGCG	0.726													19	29	---	---	---	---	PASS	A	3766431	A	A	3766431	3	1	91	1	0	0	0	0	1	0	0	0	3227	884	31	2	1103	2	CENPB	20	3766431	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	6083	3766431	59259089	671	34667										
SLC24A3	57419	broad.mit.edu	37	chr20	19662590	19662590	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggccaacaatgctgaaattGatgacagcagcaactgcgac	10	10	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:19662590G>A	uc002wrl.2	+	10	1053	c.856G>A	c.(856-858)GAT>AAT	p.D286N		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	286	Cytoplasmic (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						TGCTGAAATTGATGACAGCAG	0.378													6	58	---	---	---	---	PASS	A	19662590	A	A	19662590	3	1	91	1	0	0	0	0	1	0	0	0	14467	1290	45	2	894	2	SLC24A3	20	19662590	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	15896159	19662590	43362930	672	34668										
RIN2	54453	broad.mit.edu	37	chr20	19945645	19945645	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttcgcagatttattccggctCattgctttctactgcatcag	7	11	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:19945645C>G	uc002wro.1	+	5	549	c.513C>G	c.(511-513)CTC>CTG	p.L171L	RIN2_uc010gcu.1_Intron|RIN2_uc010gcv.1_Intron	NM_018993	NP_061866	Q8WYP3	RIN2_HUMAN	Ras and Rab interactor 2	171	SH2.				endocytosis|small GTPase mediated signal transduction	cytoplasm	GTPase activator activity|Rab guanyl-nucleotide exchange factor activity			lung(4)|ovary(1)	5						TATTCCGGCTCATTGCTTTCT	0.468													17	196	---	---	---	---	PASS	G	19945645	G	G	19945645	2	3	91	1	0	0	0	0	0	0	0	1	13372	813	29	2		2	RIN2	20	19945645	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	283055	19945645	43079875	673	34669										
NKX2-2	4821	broad.mit.edu	37	chr20	21494134	21494134	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaggggttcttcaggggcagGctctgcaccgcgtccagggc	16	12	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:21494134G>T	uc002wsi.2	-	1	531	c.174C>A	c.(172-174)AGC>AGA	p.S58R		NM_002509	NP_002500	O95096	NKX22_HUMAN	NK2 transcription factor related, locus 2	58					brain development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	chromatin binding|core promoter proximal region DNA binding|transcription coactivator activity			pancreas(1)|skin(1)	2						TCAGGGGCAGGCTCTGCACCG	0.672													6	39	---	---	---	---	PASS	T	21494134	T	T	21494134	3	4	91	1	0	0	0	0	1	0	0	0	10450	1194	42	3	655	3	NKX2-2	20	21494134	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1548489	21494134	41531386	674	34670										
PAX1	5075	broad.mit.edu	37	chr20	21687680	21687680	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcggtcagcaacatcctgggCatccggacgtttatggagca	12	11	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:21687680C>A	uc002wsj.2	+	2	945	c.891C>A	c.(889-891)GGC>GGA	p.G297G	PAX1_uc010zsl.1_Silent_p.G297G|PAX1_uc010zsm.1_Silent_p.G273G	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	297					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						ACATCCTGGGCATCCGGACGT	0.662													15	48	---	---	---	---	PASS	A	21687680	A	A	21687680	2	1	91	1	0	0	0	0	0	0	0	1	11478	697	25	3		3	PAX1	20	21687680	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	193546	21687680	41337840	675	34671										
CST4	1472	broad.mit.edu	37	chr20	23667745	23667745	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cttctgcagttctggctgttCatggaaggcacaggtgtcca	12	10	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:23667745C>A	uc002wto.1	-	2	378	c.322G>T	c.(322-324)GAA>TAA	p.E108*		NM_001899	NP_001890	P01036	CYTS_HUMAN	cystatin S precursor	108						extracellular region	cysteine-type endopeptidase inhibitor activity			breast(1)	1	Lung NSC(19;0.0789)|Colorectal(13;0.0993)|all_lung(19;0.169)					TCTGGCTGTTCATGGAAGGCA	0.567													20	186	---	---	---	---	PASS	A	23667745	A	A	23667745	4	1	91	1	0	0	0	0	0	1	0	0	3974	835	29	2	111	2	CST4	20	23667745	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1980065	23667745	39357775	676	34672										
DEFB123	245936	broad.mit.edu	37	chr20	30037910	30037910	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggaaagagtctatgtttactGcataaataataaaatgtgct	8	4	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:30037910G>C	uc002wvy.2	+	2	228	c.137G>C	c.(136-138)TGC>TCC	p.C46S		NM_153324	NP_697019	Q8N688	DB123_HUMAN	defensin, beta 123 precursor	46					defense response to bacterium	extracellular region					0	Lung NSC(7;0.000139)|all_lung(7;0.000197)|all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			TATGTTTACTGCATAAATAAT	0.433													46	105	---	---	---	---	PASS	C	30037910	C	C	30037910	3	2	91	1	0	0	0	0	1	0	0	0	4409	1319	46	4	143	4	DEFB123	20	30037910	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	6370165	30037910	32987610	677	34673										
BPIL3	128859	broad.mit.edu	37	chr20	31629812	31629812	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cggaagtcctcatcgattggCaacttcaatgtaagtgtccc	9	11	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:31629812C>A	uc010zuc.1	+	12	1179	c.1179C>A	c.(1177-1179)GGC>GGA	p.G393G	BPIL3_uc010zud.1_Silent_p.G332G	NM_174897	NP_777557	Q8NFQ5	BPIL3_HUMAN	bactericidal/permeability-increasing	393						extracellular region	lipid binding			ovary(1)|pancreas(1)	2						CATCGATTGGCAACTTCAATG	0.587													5	48	---	---	---	---	PASS	A	31629812	A	A	31629812	2	1	91	1	0	0	0	0	0	0	0	1	1493	697	25	3		3	BPIL3	20	31629812	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1591902	31629812	31395708	678	34674										
RALY	22913	broad.mit.edu	37	chr20	32664611	32664611	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cagatcgctgcggagcaaaaGgccaatccaggtcagcctct	11	13	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:32664611G>T	uc002xab.2	+	7	946	c.648G>T	c.(646-648)AAG>AAT	p.K216N	RALY_uc002xac.2_Missense_Mutation_p.K200N|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Missense_Mutation_p.K216N	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	216						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1						CGGAGCAAAAGGCCAATCCAG	0.572													10	28	---	---	---	---	PASS	T	32664611	T	T	32664611	3	4	91	1	0	0	0	0	1	0	0	0	13019	991	35	3	666	3	RALY	20	32664611	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1034799	32664611	30360909	679	34675										
ITCH	83737	broad.mit.edu	37	chr20	33068455	33068455	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtttttctttaccattctatAagcgtatcttgaacaaacca	4	9	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:33068455A>G	uc010geu.1	+	20	2185	c.1993A>G	c.(1993-1995)AAG>GAG	p.K665E	ITCH_uc002xak.2_Missense_Mutation_p.K624E|ITCH_uc010zuj.1_Missense_Mutation_p.K514E	NM_031483	NP_113671	Q96J02	ITCH_HUMAN	itchy homolog E3 ubiquitin protein ligase	665	HECT.				apoptosis|entry of virus into host cell|inflammatory response|innate immune response|negative regulation of apoptosis|negative regulation of defense response to virus|negative regulation of JNK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cell growth|regulation of protein deubiquitination|response to virus	cytosol|nucleus|plasma membrane	CXCR chemokine receptor binding|ribonucleoprotein binding|ubiquitin-protein ligase activity			breast(4)|lung(1)|central_nervous_system(1)	6						ACCATTCTATAAGCGTATCTT	0.338													35	161	---	---	---	---	PASS	G	33068455	G	G	33068455	3	3	91	1	0	0	0	0	1	0	0	0	7868	363	13	5	1936	5	ITCH	20	33068455	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	403844	33068455	29957065	680	34676										
RBM39	9584	broad.mit.edu	37	chr20	34300964	34300964	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccacagcaccaaatgccaaaGagccactcatctgtagagct	7	14	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:34300964G>C	uc002xeb.2	-	12	1495	c.1151C>G	c.(1150-1152)TCT>TGT	p.S384C	RBM39_uc002xdz.2_Missense_Mutation_p.S360C|RBM39_uc002xea.2_Missense_Mutation_p.S227C|RBM39_uc010gfn.2_Missense_Mutation_p.S227C|RBM39_uc010zvm.1_Missense_Mutation_p.S362C|RBM39_uc002xeg.2_Missense_Mutation_p.S362C|RBM39_uc002xec.2_Missense_Mutation_p.S384C|RBM39_uc002xed.2_Missense_Mutation_p.S102C|RBM39_uc002xee.2_Missense_Mutation_p.S227C|RBM39_uc002xef.2_Missense_Mutation_p.S227C|RBM39_uc010zvn.1_Missense_Mutation_p.S227C	NM_184234	NP_909122	Q14498	RBM39_HUMAN	RNA binding motif protein 39 isoform a	384	Interaction with ESR1 and ESR2 (By similarity).|Interaction with JUN (By similarity).				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	centrosome|nuclear speck	nucleotide binding|protein binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_epithelial(2;0.00295)|Lung NSC(9;0.00453)|Breast(12;0.00544)|all_lung(11;0.00676)					AAATGCCAAAGAGCCACTCAT	0.363													7	74	---	---	---	---	PASS	C	34300964	C	C	34300964	3	2	91	1	0	0	0	0	1	0	0	0	13133	942	33	2	465	2	RBM39	20	34300964	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1232509	34300964	28724556	681	34677										
CHD6	84181	broad.mit.edu	37	chr20	40045984	40045984	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctcttcagagtacttccctgGataatctgggaagaggttaa	10	8	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:40045984G>A	uc002xka.1	-	32	6311	c.6133C>T	c.(6133-6135)CCA>TCA	p.P2045S	CHD6_uc002xjz.1_5'Flank	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2045					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TACTTCCCTGGATAATCTGGG	0.438													12	114	---	---	---	---	PASS	A	40045984	A	A	40045984	3	1	91	1	0	0	0	0	1	0	0	0	3329	1174	41	2	2038	2	CHD6	20	40045984	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	5745020	40045984	22979536	682	34678										
CSE1L	1434	broad.mit.edu	37	chr20	47701833	47701833	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tctatagctttacagctgcaGaaatcgcaccgtttgttgag	9	9	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:47701833G>C	uc002xty.2	+	16	1767	c.1633G>C	c.(1633-1635)GAA>CAA	p.E545Q	CSE1L_uc010zyg.1_Missense_Mutation_p.E328Q|CSE1L_uc010ghx.2_Missense_Mutation_p.E489Q|CSE1L_uc010ghy.2_Missense_Mutation_p.E166Q|CSE1L_uc010zyh.1_Missense_Mutation_p.E194Q	NM_001316	NP_001307	P55060	XPO2_HUMAN	CSE1 chromosome segregation 1-like protein	545					apoptosis|cell proliferation|intracellular protein transport	cytoplasm|nucleus	importin-alpha export receptor activity			large_intestine(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000491)|Colorectal(8;0.198)			TACAGCTGCAGAAATCGCACC	0.413													13	86	---	---	---	---	PASS	C	47701833	C	C	47701833	3	2	91	1	0	0	0	0	1	0	0	0	3930	943	33	2	1691	2	CSE1L	20	47701833	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	7655849	47701833	15323687	683	34679										
ZNFX1	57169	broad.mit.edu	37	chr20	47865809	47865809	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggcctatttgattgttctctCgaagtgtatgaatgatcttg	10	6	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:47865809C>G	uc002xui.2	-	14	3999	c.3752G>C	c.(3751-3753)CGA>CCA	p.R1251P		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	1251							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			ATTGTTCTCTCGAAGTGTATG	0.517													23	129	---	---	---	---	PASS	G	47865809	G	G	47865809	3	3	91	1	0	0	0	0	1	0	0	0	18202	884	31	2	2008	2	ZNFX1	20	47865809	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	163976	47865809	15159711	684	34680										
FAM65C	140876	broad.mit.edu	37	chr20	49209624	49209624	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aggtcagagacgctctgcctCtgcaggtagctgtgaaactg	13	10	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:49209624C>T	uc002xvm.2	-	18	2628	c.2310G>A	c.(2308-2310)CAG>CAA	p.Q770Q	FAM65C_uc010zyt.1_Silent_p.Q774Q|FAM65C_uc010zyu.1_RNA	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	770										ovary(2)	2						CGCTCTGCCTCTGCAGGTAGC	0.587													26	172	---	---	---	---	PASS	T	49209624	T	T	49209624	2	4	91	1	0	0	0	0	0	0	0	1	5601	912	32	2		2	FAM65C	20	49209624	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	1343815	49209624	13815896	685	34681										
STMN3	50861	broad.mit.edu	37	chr20	62275232	62275232	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcagaaggggacttgaggatGacctcgaagctctggcctga	14	9	2	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:62275232G>A	uc002yfr.1	-	3	250	c.168C>T	c.(166-168)GTC>GTT	p.V56V	STMN3_uc011abb.1_Silent_p.V56V	NM_015894	NP_056978	Q9NZ72	STMN3_HUMAN	SCG10-like-protein	56					cytoplasmic microtubule organization|intracellular signal transduction|negative regulation of Rac protein signal transduction|neuron projection development|regulation of cytoskeleton organization|regulation of Rac GTPase activity	cytoplasm	protein domain specific binding				0	all_cancers(38;2.31e-11)|all_epithelial(29;7.76e-13)		Epithelial(9;1.9e-09)|all cancers(9;1.22e-08)|BRCA - Breast invasive adenocarcinoma(10;8.86e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.00559)			ACTTGAGGATGACCTCGAAGC	0.617													26	153	---	---	---	---	PASS	A	62275232	A	A	62275232	2	1	91	1	0	0	0	0	0	0	0	1	15309	1277	45	2		2	STMN3	20	62275232	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	13065608	62275232	750288	686	34682										
PRPF6	24148	broad.mit.edu	37	chr20	62648166	62648166	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttgggattgaggaggaagatCggaagcatacctggatggag	17	4	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr20:62648166C>T	uc002yho.2	+	12	1783	c.1615C>T	c.(1615-1617)CGG>TGG	p.R539W	PRPF6_uc002yhp.2_Missense_Mutation_p.R539W	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	539					assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					GGAGGAAGATCGGAAGCATAC	0.562													4	82	---	---	---	---	PASS	T	62648166	T	T	62648166	3	4	91	1	0	0	0	0	1	0	0	0	12574	875	31	2	1661	2	PRPF6	20	62648166	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	372934	62648166	377354	687	34683										
LIPI	149998	broad.mit.edu	37	chr21	15558281	15558281	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	attttataaaaataattttaCctgttattcttccaagttga	3	5	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr21:15558281C>A	uc002yjm.2	-	3	614	c.604_splice	c.e3+1	p.G202_splice	LIPI_uc010gkw.1_Splice_Site_p.G135_splice	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I						lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		aataattttaCCTGTTATTCT	0.254													6	125	---	---	---	---	PASS	A	15558281	A	A	15558281	5	1	91	1	0	0	0	0	0	0	1	0	8825	521	18	3	872	3	LIPI	21	15558281	Splice_Site	SNP	C	TCGA-39-5031-01A-01D-1441-08		15558281	32571614	688	34684										
GABPA	2551	broad.mit.edu	37	chr21	27117588	27117588	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tagacatcaatgaaccaataGgcaatttaaagaaactgcta	6	7	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr21:27117588G>C	uc002ylx.3	+	3	672	c.145G>C	c.(145-147)GGC>CGC	p.G49R	GABPA_uc002yly.3_Missense_Mutation_p.G49R	NM_002040	NP_002031	Q06546	GABPA_HUMAN	GA binding protein transcription factor, alpha	49					positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding			ovary(1)|central_nervous_system(1)	2						TGAACCAATAGGCAATTTAAA	0.358													7	129	---	---	---	---	PASS	C	27117588	C	C	27117588	3	2	91	1	0	0	0	0	1	0	0	0	6157	1000	35	4	151	4	GABPA	21	27117588	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	11559307	27117588	21012307	689	34685										
SYNJ1	8867	broad.mit.edu	37	chr21	34058125	34058125	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cttctggacttgaggtttaaGaacactatgtaatttttctg	8	6	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr21:34058125G>C	uc002yqh.2	-	9	1168	c.1168C>G	c.(1168-1170)CTT>GTT	p.L390V	SYNJ1_uc011ads.1_Missense_Mutation_p.L351V|SYNJ1_uc002yqf.2_Missense_Mutation_p.L351V|SYNJ1_uc002yqg.2_Missense_Mutation_p.L351V|SYNJ1_uc002yqi.2_Missense_Mutation_p.L390V	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	351	SAC.						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						TGAGGTTTAAGAACACTATGT	0.338													33	79	---	---	---	---	PASS	C	34058125	C	C	34058125	3	2	91	1	0	0	0	0	1	0	0	0	15449	942	33	2	3800	2	SYNJ1	21	34058125	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	6940537	34058125	14071770	690	34686										
GART	2618	broad.mit.edu	37	chr21	34897293	34897293	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cacctccagtcctagagcttGagcctcaggaaaccctagaa	8	14	1	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr21:34897293G>C	uc002yrx.2	-	11	1216	c.1081C>G	c.(1081-1083)CAA>GAA	p.Q361E	GART_uc002yrz.2_Missense_Mutation_p.Q361E|GART_uc010gmd.2_Missense_Mutation_p.Q23E|GART_uc002yry.2_Missense_Mutation_p.Q361E|GART_uc002ysa.2_Missense_Mutation_p.Q361E	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	361					'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	CCTAGAGCTTGAGCCTCAGGA	0.448													13	68	---	---	---	---	PASS	C	34897293	C	C	34897293	3	2	91	1	0	0	0	0	1	0	0	0	6243	1299	45	2	2003	2	GART	21	34897293	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	839168	34897293	13232602	691	34687										
KCNJ6	3763	broad.mit.edu	37	chr21	39087405	39087405	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cactgggctttcgacgtcctGatccatggagtcgccctcca	10	15	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr21:39087405G>A	uc011aej.1	-	3	108	c.55C>T	c.(55-57)CAG>TAG	p.Q19*	KCNJ6_uc002ywo.2_Nonsense_Mutation_p.Q19*	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	19	Cytoplasmic (By similarity).				synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	TCGACGTCCTGATCCATGGAG	0.527													14	44	---	---	---	---	PASS	A	39087405	A	A	39087405	4	1	91	1	0	0	0	0	0	1	0	0	8055	1299	45	2	1224	2	KCNJ6	21	39087405	Nonsense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4190112	39087405	9042490	692	34688										
BRWD1	54014	broad.mit.edu	37	chr21	40568985	40568985	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aagcacttttgtactaccttCggagtcaggatcaggtggct	11	9	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr21:40568985C>T	uc002yxk.1	-	41	6149	c.6010G>A	c.(6010-6012)GAA>AAA	p.E2004K	BRWD1_uc010goc.1_Missense_Mutation_p.E647K|BRWD1_uc002yxl.2_Missense_Mutation_p.E2004K	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	2004					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				GTACTACCTTCGGAGTCAGGA	0.418													31	163	---	---	---	---	PASS	T	40568985	T	T	40568985	3	4	91	1	0	0	0	0	1	0	0	0	1525	893	31	2	1199	2	BRWD1	21	40568985	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1481580	40568985	7560910	693	34689										
TRPM2	7226	broad.mit.edu	37	chr21	45821777	45821777	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttggtgtgcgaggagatgcgGcaggtacagccccacccgct	15	12	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr21:45821777G>A	uc002zet.1	+	17	2748	c.2535G>A	c.(2533-2535)CGG>CGA	p.R845R	TRPM2_uc002zeu.1_Silent_p.R845R|TRPM2_uc002zew.1_Silent_p.R845R|TRPM2_uc010gpt.1_Silent_p.R845R|TRPM2_uc002zex.1_Silent_p.R631R|TRPM2_uc002zey.1_Silent_p.R358R	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	845	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AGGAGATGCGGCAGGTACAGC	0.627													85	130	---	---	---	---	PASS	A	45821777	A	A	45821777	2	1	91	1	0	0	0	0	0	0	0	1	16583	1190	42	3		3	TRPM2	21	45821777	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	5252792	45821777	2308118	694	34690										
MCM3AP	8888	broad.mit.edu	37	chr21	47685237	47685237	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaaaaaaagagtccctacctCgtcagagtacatgggcacgg	11	10	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr21:47685237C>T	uc002zir.1	-	12	3268	c.3232G>A	c.(3232-3234)GAG>AAG	p.E1078K	MCM3AP_uc002ziq.1_Missense_Mutation_p.E5K	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1078					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					GTCCCTACCTCGTCAGAGTAC	0.607													7	39	---	---	---	---	PASS	T	47685237	T	T	47685237	3	4	91	1	0	0	0	0	1	0	0	0	9388	893	31	2	2778	2	MCM3AP	21	47685237	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1863460	47685237	444658	695	34691										
PCNT	5116	broad.mit.edu	37	chr21	47783764	47783764	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	attgcagccagtgtgggcggGagccgcccacagcccaggac	15	14	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr21:47783764G>A	uc002zji.3	+	14	2631	c.2524G>A	c.(2524-2526)GAG>AAG	p.E842K	PCNT_uc002zjj.2_Missense_Mutation_p.E724K	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	842					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					GTGTGGGCGGGAGCCGCCCAC	0.662													25	132	---	---	---	---	PASS	A	47783764	A	A	47783764	3	1	91	1	0	0	0	0	1	0	0	0	11590	1175	41	2	2578	2	PCNT	21	47783764	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	98527	47783764	346131	696	34692										
DIP2A	23181	broad.mit.edu	37	chr21	47959842	47959842	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtcttccagtccagaggtctGaggccagaggtcatctgtcc	12	12	4	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr21:47959842G>C	uc002zjo.2	+	17	2157	c.1974G>C	c.(1972-1974)CTG>CTC	p.L658L	DIP2A_uc011afy.1_Silent_p.L594L|DIP2A_uc011afz.1_Silent_p.L654L|DIP2A_uc002zjl.2_Silent_p.L658L|DIP2A_uc002zjm.2_Silent_p.L658L|DIP2A_uc010gql.2_Silent_p.L615L|DIP2A_uc002zjn.2_Silent_p.L658L|DIP2A_uc002zjp.1_Silent_p.L403L|DIP2A_uc002zjq.2_Silent_p.L50L	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	658					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		CCAGAGGTCTGAGGCCAGAGG	0.557													14	103	---	---	---	---	PASS	C	47959842	C	C	47959842	2	2	91	1	0	0	0	0	0	0	0	1	4527	1277	45	2		2	DIP2A	21	47959842	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	176078	47959842	170053	697	34693										
CECR5	27440	broad.mit.edu	37	chr22	17619180	17619180	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccctagttctggcgccccatCatgcgttgccttctgcaggt	10	15	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr22:17619180C>G	uc002zmf.2	-	8	1031	c.1003G>C	c.(1003-1005)GAT>CAT	p.D335H	CECR5_uc002zmd.2_Missense_Mutation_p.D146H|CECR5_uc002zme.2_Missense_Mutation_p.D127H|CECR5_uc002zmg.2_Missense_Mutation_p.D135H|CECR5_uc002zmh.2_Missense_Mutation_p.D305H	NM_033070	NP_149061	Q9BXW7	CECR5_HUMAN	cat eye syndrome chromosome region, candidate 5	335							hydrolase activity				0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)				GGCGCCCCATCATGCGTTGCC	0.587													9	103	---	---	---	---	PASS	G	17619180	G	G	17619180	3	3	91	1	0	0	0	0	1	0	0	0	3207	826	29	2	272	2	CECR5	22	17619180	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08		17619180	33685386	698	34694										
MICAL3	57553	broad.mit.edu	37	chr22	18374399	18374399	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcttgaacgagctacagactCtaaaacaacaaaacacagta	6	10	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr22:18374399C>G	uc002zng.3	-	12	1900	c.1547_splice	c.e12-1	p.E516_splice	MICAL3_uc011agl.1_Splice_Site_p.E516_splice|MICAL3_uc002znh.2_Splice_Site_p.E516_splice|MICAL3_uc002znj.1_Splice_Site_p.E216_splice|MICAL3_uc002znk.1_Splice_Site_p.E516_splice|MICAL3_uc002znl.1_Splice_Site_p.E149_splice|MICAL3_uc002znm.2_Splice_Site_p.E17_splice|MICAL3_uc010grf.2_Splice_Site_p.E516_splice	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin							cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		GCTACAGACTCTAAAACAACA	0.458													4	39	---	---	---	---	PASS	G	18374399	G	G	18374399	5	3	91	1	0	0	0	0	0	0	1	0	9571	927	32	2	5283	2	MICAL3	22	18374399	Splice_Site	SNP	C	TCGA-39-5031-01A-01D-1441-08	755219	18374399	32930167	699	34695										
SERPIND1	3053	broad.mit.edu	37	chr22	21141193	21141193	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aaggcacgatcacagtgaacGaggaaggcacccaagccacc	11	13	1	1	rs142451096		TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr22:21141193G>A	uc002ztb.1	+	5	1406	c.1339G>A	c.(1339-1341)GAG>AAG	p.E447K	PI4KA_uc002zsz.3_Intron|SERPIND1_uc002ztc.2_Missense_Mutation_p.E475K	NM_000185	NP_000176	P05546	HEP2_HUMAN	heparin cofactor II precursor	447			E -> K (in HCF2D).		blood coagulation|chemotaxis|regulation of proteolysis	extracellular region	heparin binding|serine-type endopeptidase inhibitor activity				0	all_cancers(11;6.16e-25)|all_epithelial(7;1.02e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)		Ardeparin(DB00407)	CACAGTGAACGAGGAAGGCAC	0.517													16	115	---	---	---	---	PASS	A	21141193	A	A	21141193	3	1	91	1	0	0	0	0	1	0	0	0	14110	1059	37	2	1353	2	SERPIND1	22	21141193	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2766794	21141193	30163373	700	34696										
MAPK1	5594	broad.mit.edu	37	chr22	22160160	22160160	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttgagatcacaggtggtgttGagcagcaggttggaaggctt	16	5	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr22:22160160G>T	uc002zvn.2	-	3	711	c.471C>A	c.(469-471)CTC>CTA	p.L157L	MAPK1_uc002zvo.2_Silent_p.L157L|MAPK1_uc010gtk.1_Silent_p.L157L	NM_002745	NP_002736	P28482	MK01_HUMAN	mitogen-activated protein kinase 1	157	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|induction of apoptosis|innate immune response|insulin receptor signaling pathway|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription, DNA-dependent	cytosol|nucleoplasm	ATP binding|DNA binding|MAP kinase activity|phosphatase binding|RNA polymerase II carboxy-terminal domain kinase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	Colorectal(54;0.105)	all_lung(157;3.89e-05)		READ - Rectum adenocarcinoma(21;0.0689)	Arsenic trioxide(DB01169)	AGGTGGTGTTGAGCAGCAGGT	0.393													20	178	---	---	---	---	PASS	T	22160160	T	T	22160160	2	4	91	1	0	0	0	0	0	0	0	1	9271	1277	45	2		2	MAPK1	22	22160160	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	1018967	22160160	29144406	701	34697										
APOL1	8542	broad.mit.edu	37	chr22	36661498	36661498	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcacagagggaggcagccttGtactcttggaacctgggatg	14	9	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr22:36661498G>T	uc003apf.2	+	6	784	c.616G>T	c.(616-618)GTA>TTA	p.V206L	APOL1_uc011amn.1_Missense_Mutation_p.V83L|APOL1_uc003apc.2_RNA|APOL1_uc003ape.2_Missense_Mutation_p.V222L|APOL1_uc011amo.1_Missense_Mutation_p.V83L|APOL1_uc011amp.1_Missense_Mutation_p.V206L|APOL1_uc011amq.1_Missense_Mutation_p.V188L|APOL1_uc010gwx.2_Missense_Mutation_p.V83L	NM_003661	NP_003652	O14791	APOL1_HUMAN	apolipoprotein L1 isoform a precursor	206					cholesterol metabolic process|cytolysis|innate immune response|killing of cells of other organism|lipid transport|lipoprotein metabolic process	high-density lipoprotein particle|very-low-density lipoprotein particle	chloride channel activity|lipid binding|protein binding			breast(2)|ovary(1)	3						AGGCAGCCTTGTACTCTTGGA	0.567													51	235	---	---	---	---	PASS	T	36661498	T	T	36661498	3	4	91	1	0	0	0	0	1	0	0	0	805	1377	48	3	686	3	APOL1	22	36661498	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	14501338	36661498	14643068	702	34698										
POLR3H	171568	broad.mit.edu	37	chr22	41926792	41926792	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cgtgtcaacaaagctctcgtCcaccacccggaagcggatct	9	15	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr22:41926792C>A	uc003baf.2	-	6	520	c.460G>T	c.(460-462)GAC>TAC	p.D154Y	POLR3H_uc003bae.2_RNA|POLR3H_uc003bag.2_Missense_Mutation_p.D154Y|POLR3H_uc003bai.2_Missense_Mutation_p.D125Y	NM_138338	NP_612211	Q9Y535	RPC8_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	154					innate immune response|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity			skin(1)	1						AAGCTCTCGTCCACCACCCGG	0.617													15	84	---	---	---	---	PASS	A	41926792	A	A	41926792	3	1	91	1	0	0	0	0	1	0	0	0	12236	855	30	2	162	2	POLR3H	22	41926792	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	5265294	41926792	9377774	703	34699										
CYP2D6	1565	broad.mit.edu	37	chr22	42523977	42523977	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttgaagctgctctcagggttCcccttggcctgagcagggcc	13	13	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr22:42523977C>T	uc003bce.2	-	6	942	c.852G>A	c.(850-852)GGG>GGA	p.G284G	uc003bcd.1_Intron|CYP2D6_uc010gyu.2_Intron|CYP2D6_uc003bcf.2_Silent_p.G233G	NM_000106	NP_000097	Q6NWU0	Q6NWU0_HUMAN	cytochrome P450, family 2, subfamily D,	284							electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen			breast(1)|skin(1)	2						TCTCAGGGTTCCCCTTGGCCT	0.622													4	83	---	---	---	---	PASS	T	42523977	T	T	42523977	2	4	91	1	0	0	0	0	0	0	0	1	4169	842	30	2		2	CYP2D6	22	42523977	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	597185	42523977	8780589	704	34700										
PKDREJ	10343	broad.mit.edu	37	chr22	46654808	46654808	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cccagtgctcacttgcttctGacattagaggatgcttttga	9	10	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr22:46654808G>A	uc003bhh.2	-	1	4412	c.4412C>T	c.(4411-4413)TCA>TTA	p.S1471L		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1471	Cytoplasmic (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		ACTTGCTTCTGACATTAGAGG	0.443													5	197	---	---	---	---	PASS	A	46654808	A	A	46654808	3	1	91	1	0	0	0	0	1	0	0	0	11970	1294	45	2	2353	2	PKDREJ	22	46654808	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4130831	46654808	4649758	705	34701										
CERK	64781	broad.mit.edu	37	chr22	47116103	47116103	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcgtgctctctttacacagtGaactgcacagaagcaagcat	8	11	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr22:47116103G>A	uc003bia.2	-	3	366	c.259C>T	c.(259-261)CAC>TAC	p.H87Y		NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	87	Required for binding to sulfatide and phosphoinositides.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TTTACACAGTGAACTGCACAG	0.517													11	65	---	---	---	---	PASS	A	47116103	A	A	47116103	3	1	91	1	0	0	0	0	1	0	0	0	3267	1290	45	2	1398	2	CERK	22	47116103	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	461295	47116103	4188463	706	34702										
TBC1D22A	25771	broad.mit.edu	37	chr22	47308002	47308002	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atcttgttcatatgggcgatCcgccacccagccagtggata	10	12	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr22:47308002C>G	uc003bib.2	+	8	1068	c.933C>G	c.(931-933)ATC>ATG	p.I311M	TBC1D22A_uc010haf.2_Missense_Mutation_p.I281M|TBC1D22A_uc003bic.2_Missense_Mutation_p.I252M|TBC1D22A_uc003bie.2_Missense_Mutation_p.I233M|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.I264M	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	311	Rab-GAP TBC.					intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		TATGGGCGATCCGCCACCCAG	0.383													18	179	---	---	---	---	PASS	G	47308002	G	G	47308002	3	3	91	1	0	0	0	0	1	0	0	0	15608	845	30	2	963	2	TBC1D22A	22	47308002	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	191899	47308002	3996564	707	34703										
HDAC10	83933	broad.mit.edu	37	chr22	50684751	50684751	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggcagtggcgtggagacatgGaacatggatagggcagccgc	18	8	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chr22:50684751G>C	uc003bkg.2	-	17	1999	c.1626C>G	c.(1624-1626)TTC>TTG	p.F542L	TUBGCP6_uc003bkb.1_5'Flank|TUBGCP6_uc010har.1_5'Flank|TUBGCP6_uc010has.1_5'Flank|TUBGCP6_uc010hau.1_5'Flank|HDAC10_uc003bke.2_Missense_Mutation_p.F268L|HDAC10_uc003bkf.2_Missense_Mutation_p.F268L|HDAC10_uc010hav.2_Missense_Mutation_p.F522L|HDAC10_uc003bkh.2_Missense_Mutation_p.F335L|HDAC10_uc003bki.2_Missense_Mutation_p.F492L|HDAC10_uc003bkj.2_RNA	NM_032019	NP_114408	Q969S8	HDA10_HUMAN	histone deacetylase 10 isoform 1	542					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nucleus	histone deacetylase activity|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TGGAGACATGGAACATGGATA	0.597													14	158	---	---	---	---	PASS	C	50684751	C	C	50684751	3	2	91	1	0	0	0	0	1	0	0	0	7005	1165	41	2	399	2	HDAC10	22	50684751	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3376749	50684751	619815	708	34704										
ARSE	415	broad.mit.edu	37	chrX	2867672	2867672	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggcgcaatcacccatcaagGagaaaggcattccgtagaaa	11	10	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:2867672G>A	uc004crc.3	-	6	777	c.527C>T	c.(526-528)TCC>TTC	p.S176F	ARSE_uc011mhi.1_Missense_Mutation_p.S122F|ARSE_uc011mhh.1_Missense_Mutation_p.S201F	NM_000047	NP_000038	P51690	ARSE_HUMAN	arylsulfatase E precursor	176					skeletal system development	Golgi stack	arylsulfatase activity|metal ion binding			ovary(1)|central_nervous_system(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ACCCATCAAGGAGAAAGGCAT	0.517													6	42	---	---	---	---	PASS	A	2867672	A	A	2867672	3	1	91	1	0	0	0	0	1	0	0	0	990	1174	41	2	1266	2	ARSE	23	2867672	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08		2867672	152402888	709	34705										
MXRA5	25878	broad.mit.edu	37	chrX	3239840	3239840	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tatttttctggtggttgtcaTgtaatctaaggaatcataag	9	4	4	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:3239840T>A	uc004crg.3	-	5	4043	c.3886A>T	c.(3886-3888)ATG>TTG	p.M1296L		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1296						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GTGGTTGTCATGTAATCTAAG	0.353													41	168	---	---	---	---	PASS	A	3239840	A	A	3239840	3	1	91	1	0	0	0	0	1	0	0	0	10003	1464	51	5	4612	5	MXRA5	23	3239840	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	372168	3239840	152030720	710	34706										
MXRA5	25878	broad.mit.edu	37	chrX	3240621	3240621	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tggatgttgtctgtcagtccTtgtagatgtgattggcctgg	14	6	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:3240621T>C	uc004crg.3	-	5	3262	c.3105A>G	c.(3103-3105)CAA>CAG	p.Q1035Q		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1035						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				CTGTCAGTCCTTGTAGATGTG	0.448													45	166	---	---	---	---	PASS	C	3240621	C	C	3240621	2	2	91	1	0	0	0	0	0	0	0	1	10003	1606	56	5		5	MXRA5	23	3240621	Silent	SNP	T	TCGA-39-5031-01A-01D-1441-08	781	3240621	152029939	711	34707										
MXRA5	25878	broad.mit.edu	37	chrX	3241209	3241209	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggtacatctgctgaggattcTtcagcactggttactgtctg	11	9	4	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:3241209T>A	uc004crg.3	-	5	2674	c.2517A>T	c.(2515-2517)GAA>GAT	p.E839D		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	839						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				CTGAGGATTCTTCAGCACTGG	0.488													25	109	---	---	---	---	PASS	A	3241209	A	A	3241209	3	1	91	1	0	0	0	0	1	0	0	0	10003	1606	56	5	5981	5	MXRA5	23	3241209	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	588	3241209	152029351	712	34708										
NLGN4X	57502	broad.mit.edu	37	chrX	6069167	6069167	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gcagtaaggatctctcatccAggtgctgggggcacacagca	13	11	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:6069167A>T	uc010ndh.2	-	2	842	c.341T>A	c.(340-342)CTG>CAG	p.L114Q	NLGN4X_uc004crp.2_Missense_Mutation_p.L114Q|NLGN4X_uc004crq.2_Missense_Mutation_p.L114Q|NLGN4X_uc010ndi.2_Missense_Mutation_p.L114Q|NLGN4X_uc004crr.2_Missense_Mutation_p.L114Q|NLGN4X_uc010ndj.2_Missense_Mutation_p.L114Q	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	114	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TCTCTCATCCAGGTGCTGGGG	0.527													30	141	---	---	---	---	PASS	T	6069167	T	T	6069167	3	4	91	1	0	0	0	0	1	0	0	0	10464	188	7	5	2129	5	NLGN4X	23	6069167	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	2827958	6069167	149201393	713	34709										
SHROOM2	357	broad.mit.edu	37	chrX	9905624	9905624	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atcaaaaccactatggacttGatggaaggcatcttccccaa	7	11	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:9905624G>C	uc004csu.1	+	7	4128	c.4038G>C	c.(4036-4038)TTG>TTC	p.L1346F	SHROOM2_uc004csv.2_Missense_Mutation_p.L181F|SHROOM2_uc011mic.1_Missense_Mutation_p.L181F|SHROOM2_uc004csw.1_Missense_Mutation_p.L181F	NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	1346	ASD2.				apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				CTATGGACTTGATGGAAGGCA	0.557													15	44	---	---	---	---	PASS	C	9905624	C	C	9905624	3	2	91	1	0	0	0	0	1	0	0	0	14294	1281	45	2	4064	2	SHROOM2	23	9905624	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3836457	9905624	145364936	714	34710										
TCEANC	170082	broad.mit.edu	37	chrX	13681157	13681157	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aacacccatgagaactaaatGcatagagcttctttacgcag	7	10	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:13681157G>A	uc004cvk.2	+	2	760	c.530G>A	c.(529-531)TGC>TAC	p.C177Y	TCEANC_uc010nee.1_Missense_Mutation_p.C177Y|TCEANC_uc010nef.1_Missense_Mutation_p.C177Y|TCEANC_uc010neg.1_Missense_Mutation_p.C207Y|TCEANC_uc004cvl.2_RNA	NM_152634	NP_689847	Q8N8B7	TEANC_HUMAN	TFIIS central domain-containing protein 1	177	TFIIS central.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding			pancreas(1)	1						AGAACTAAATGCATAGAGCTT	0.428													29	138	---	---	---	---	PASS	A	13681157	A	A	13681157	3	1	91	1	0	0	0	0	1	0	0	0	15675	1319	46	3	626	3	TCEANC	23	13681157	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	3775533	13681157	141589403	715	34711										
CDKL5	6792	broad.mit.edu	37	chrX	18622327	18622327	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgacccaaagccttcagaagGcccagggacaaagtacctca	9	13	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:18622327G>A	uc004cym.2	+	12	1536	c.1283G>A	c.(1282-1284)GGC>GAC	p.G428D	CDKL5_uc004cyn.2_Missense_Mutation_p.G428D	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	428					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					CCTTCAGAAGGCCCAGGGACA	0.448													33	161	---	---	---	---	PASS	A	18622327	A	A	18622327	3	1	91	1	0	0	0	0	1	0	0	0	3157	1203	42	3	1325	3	CDKL5	23	18622327	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	4941170	18622327	136648233	716	34712										
CXorf23	256643	broad.mit.edu	37	chrX	19947938	19947938	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	taatctttctctgaacttatGagtgataaatccccttgggc	7	9	2	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:19947938G>C	uc004czp.2	-	10	1984	c.1984C>G	c.(1984-1986)CAT>GAT	p.H662D	CXorf23_uc010nfn.2_RNA|CXorf23_uc011mjg.1_Intron|CXorf23_uc004czo.2_Missense_Mutation_p.H641D	NM_198279	NP_938020	A2AJT9	CX023_HUMAN	hypothetical protein LOC256643	691						mitochondrion				lung(1)|skin(1)	2						CTGAACTTATGAGTGATAAAT	0.353													43	223	---	---	---	---	PASS	C	19947938	C	C	19947938	3	2	91	1	0	0	0	0	1	0	0	0	4103	1290	45	2	72	2	CXorf23	23	19947938	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	1325611	19947938	135322622	717	34713										
KLHL15	80311	broad.mit.edu	37	chrX	24024735	24024735	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	atcaagaagcaatccctcctCatacagtgctctgaacccag	6	14	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:24024735C>T	uc004dba.3	-	3	332	c.76G>A	c.(76-78)GAG>AAG	p.E26K		NM_030624	NP_085127	Q96M94	KLH15_HUMAN	kelch-like 15	26										ovary(1)|breast(1)	2						AATCCCTCCTCATACAGTGCT	0.468													7	63	---	---	---	---	PASS	T	24024735	T	T	24024735	3	4	91	1	0	0	0	0	1	0	0	0	8371	835	29	2	1746	2	KLHL15	23	24024735	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	4076797	24024735	131245825	718	34714										
POLA1	5422	broad.mit.edu	37	chrX	24761436	24761436	+	Missense_Mutation	SNP	C	A	A													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gctggaggcttggttttggaCcccaaagttggtaaggctgg							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:24761436C>A	uc004dbl.2	+	23	2561	c.2538C>A	c.(2536-2538)GAC>GAA	p.D846E	SCARNA23_uc004dbo.1_5'Flank	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	846					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	TGGTTTTGGACCCCAAAGTTG	0.383													10	51	---	---	---	---	PASS	A	24761436	A	A	24761436	3	1	91	1	0	0	0	0	1	0	0	0	12187	506	18	3	2628	3	POLA1	23	24761436	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	736701	24761436	130509124	719	34715	660	2								
POLA1	5422	broad.mit.edu	37	chrX	24761437	24761437	+	Missense_Mutation	SNP	C	A	A													0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctggaggcttggttttggacCccaaagttggtaaggctggg							TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:24761437C>A	uc004dbl.2	+	23	2562	c.2539C>A	c.(2539-2541)CCC>ACC	p.P847T	SCARNA23_uc004dbo.1_5'Flank	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	847					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	GGTTTTGGACCCCAAAGTTGG	0.383													10	51	---	---	---	---	PASS	A	24761437	A	A	24761437	3	1	91	1	0	0	0	0	1	0	0	0	12187	623	22	3	2629	3	POLA1	23	24761437	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	1	24761437	130509123	720	34716	660	2								
IL1RAPL1	11141	broad.mit.edu	37	chrX	29938208	29938208	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccagcgttctccttcataaaCgaggtgagtgtaaccttcta	8	11	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:29938208C>A	uc004dby.2	+	8	1562	c.1054C>A	c.(1054-1056)CGA>AGA	p.R352R		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	352	Extracellular (Potential).				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						CCTTCATAAACGAGGTGAGTG	0.403													21	70	---	---	---	---	PASS	A	29938208	A	A	29938208	2	1	91	1	0	0	0	0	0	0	0	1	7661	528	19	1		1	IL1RAPL1	23	29938208	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	5176771	29938208	125332352	721	34717										
CASK	8573	broad.mit.edu	37	chrX	41495861	41495861	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctccttgcattgaatttcctCagctgctctactgtttctgg	7	12	3	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:41495861C>T	uc004dfl.3	-	9	931	c.885G>A	c.(883-885)CTG>CTA	p.L295L	CASK_uc004dfk.3_Silent_p.L110L|CASK_uc004dfm.3_Silent_p.L295L|CASK_uc004dfn.3_Silent_p.L295L	NM_003688	NP_003679	O14936	CSKP_HUMAN	calcium/calmodulin-dependent serine protein	295					cell adhesion	actin cytoskeleton|cytoplasm|nucleus|plasma membrane	ATP binding|calmodulin binding|guanylate kinase activity|protein serine/threonine kinase activity			ovary(3)|lung(2)|stomach(1)	6						TGAATTTCCTCAGCTGCTCTA	0.328													19	108	---	---	---	---	PASS	T	41495861	T	T	41495861	2	4	91	1	0	0	0	0	0	0	0	1	2665	813	29	2		2	CASK	23	41495861	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	11557653	41495861	113774699	722	34718										
ELK1	2002	broad.mit.edu	37	chrX	47496454	47496454	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ctacggggcgcaatgggactCagggtgctccagaagtgaat	15	9	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:47496454C>T	uc004dik.3	-	6	1468	c.1146G>A	c.(1144-1146)CTG>CTA	p.L382L	ELK1_uc010nhv.2_Silent_p.L382L|ELK1_uc010nhw.2_Silent_p.L272L|ELK1_uc004dil.3_Intron	NM_001114123	NP_001107595	P19419	ELK1_HUMAN	ELK1 protein	382	Sufficient for interaction with MAD2L2.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|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		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						CAATGGGACTCAGGGTGCTCC	0.602													10	31	---	---	---	---	PASS	T	47496454	T	T	47496454	2	4	91	1	0	0	0	0	0	0	0	1	5059	813	29	2		2	ELK1	23	47496454	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	6000593	47496454	107774106	723	34719										
SSX4	6759	broad.mit.edu	37	chrX	48270302	48270302	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aagtatttggcaatatcatcGaaggcctggaaaaaaaaaaa	8	5	1	0	rs143022814	byFrequency	TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:48270302G>C	uc004djh.1	-	3	133	c.75C>G	c.(73-75)TTC>TTG	p.F25L	SSX4_uc004dji.1_Missense_Mutation_p.F25L	NM_001034832	NP_001030004	O60224	SSX4_HUMAN	synovial sarcoma, X breakpoint 4B isoform a	25	KRAB-related.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding		SS18/SSX4(12)	soft_tissue(12)	12						CAATATCATCGAAGGCCTGGA	0.423			T	SS18	synovial sarcoma								20	120	---	---	---	---	PASS	C	48270302	C	C	48270302	3	2	91	1	0	0	0	0	1	0	0	0	15205	1049	37	2	1172	2	SSX4	23	48270302	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	773848	48270302	107000258	724	34720										
SLC38A5	92745	broad.mit.edu	37	chrX	48317959	48317959	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ataagaaaggctccacctcaGagggtacaatgcggaggtag	13	8	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:48317959G>T	uc010nid.2	-	16	1458	c.1280C>A	c.(1279-1281)TCT>TAT	p.S427Y	SLC38A5_uc004djk.3_Missense_Mutation_p.S376Y	NM_033518	NP_277053	Q8WUX1	S38A5_HUMAN	solute carrier family 38, member 5	427	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane				ovary(3)	3						CTCCACCTCAGAGGGTACAAT	0.567													4	18	---	---	---	---	PASS	T	48317959	T	T	48317959	3	4	91	1	0	0	0	0	1	0	0	0	14607	942	33	2	146	2	SLC38A5	23	48317959	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	47657	48317959	106952601	725	34721										
GATA1	2623	broad.mit.edu	37	chrX	48652236	48652236	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccatgcggaaggatggtattCagactcgaaaccgcaaggca	12	10	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:48652236C>T	uc004dkq.3	+	6	998	c.907C>T	c.(907-909)CAG>TAG	p.Q303*		NM_002049	NP_002040	P15976	GATA1_HUMAN	GATA binding protein 1	303					basophil differentiation|eosinophil differentiation|erythrocyte development|megakaryocyte differentiation|platelet aggregation|platelet formation|positive regulation of anti-apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|regulation of glycoprotein biosynthetic process|transcription from RNA polymerase II promoter	nuclear membrane|nucleolus|nucleoplasm	C2H2 zinc finger domain binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(246)|lung(2)	248						GGATGGTATTCAGACTCGAAA	0.572			Mis|F		megakaryoblastic leukemia of Downs Syndrome								4	25	---	---	---	---	PASS	T	48652236	T	T	48652236	4	4	91	1	0	0	0	0	0	1	0	0	6253	827	29	2	925	2	GATA1	23	48652236	Nonsense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	334277	48652236	106618324	726	34722										
BMP15	9210	broad.mit.edu	37	chrX	50658840	50658840	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ttagagccactgtggtttacCgccatcatctccaactaact	6	13	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:50658840C>T	uc011mnw.1	+	2	412	c.412C>T	c.(412-414)CGC>TGC	p.R138C		NM_005448	NP_005439	O95972	BMP15_HUMAN	bone morphogenetic protein 15 precursor	138			R -> H (in POF4; leads to marked reduction of mature protein production; does not generate a complete recovery of wild-type activity in granulosa cell line transfected with defective mutant and with equal amount of wild-type protein).		female gamete generation|granulosa cell development|ovarian follicle development	extracellular space	cytokine activity|growth factor activity			ovary(2)	2	Ovarian(276;0.236)					TGTGGTTTACCGCCATCATCT	0.507													21	65	---	---	---	---	PASS	T	50658840	T	T	50658840	3	4	91	1	0	0	0	0	1	0	0	0	1458	652	23	1	418	1	BMP15	23	50658840	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	2006604	50658840	104611720	727	34723										
WNK3	65267	broad.mit.edu	37	chrX	54334465	54334465	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agcataaacatctacggattCatcatagtgttcttcataca	5	9	5	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:54334465C>T	uc004dtd.1	-	5	1418	c.979G>A	c.(979-981)GAA>AAA	p.E327K	WNK3_uc004dtc.1_Missense_Mutation_p.E327K	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	327	Protein kinase.				intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						TCTACGGATTCATCATAGTGT	0.403													20	57	---	---	---	---	PASS	T	54334465	T	T	54334465	3	4	91	1	0	0	0	0	1	0	0	0	17376	835	29	2	4503	2	WNK3	23	54334465	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	3675625	54334465	100936095	728	34724										
ZXDA	7789	broad.mit.edu	37	chrX	57935958	57935958	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccacccagggggcatttgaaGggcctctggccctggctgct	14	14	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:57935958G>T	uc004dve.2	-	1	1110	c.897C>A	c.(895-897)CCC>CCA	p.P299P		NM_007156	NP_009087	P98168	ZXDA_HUMAN	zinc finger, X-linked, duplicated A	299	Required for interaction with ZXDC.				positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GGCATTTGAAGGGCCTCTGGC	0.632													5	21	---	---	---	---	PASS	T	57935958	T	T	57935958	2	4	91	1	0	0	0	0	0	0	0	1	18247	987	35	3		3	ZXDA	23	57935958	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	3601493	57935958	97334602	729	34725										
OPHN1	4983	broad.mit.edu	37	chrX	67316832	67316832	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccaaagattactcccatgttGgagggggtcataagattctc	10	9	2	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:67316832G>A	uc004dww.3	-	19	1860	c.1566C>T	c.(1564-1566)TCC>TCT	p.S522S	OPHN1_uc011mpg.1_Silent_p.S522S	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	522	Rho-GAP.				axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						CTCCCATGTTGGAGGGGGTCA	0.473													20	70	---	---	---	---	PASS	A	67316832	A	A	67316832	2	1	91	1	0	0	0	0	0	0	0	1	10875	1335	47	3		3	OPHN1	23	67316832	Silent	SNP	G	TCGA-39-5031-01A-01D-1441-08	9380874	67316832	87953728	730	34726										
ARR3	407	broad.mit.edu	37	chrX	69498434	69498434	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tgccagctgccagaaacgggGcctggcactggatggcaaac	14	12	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:69498434G>T	uc004dyb.2	+	12	916	c.848G>T	c.(847-849)GGC>GTC	p.G283V	ARR3_uc004dya.2_Missense_Mutation_p.G283V	NM_004312	NP_004303	P36575	ARRC_HUMAN	arrestin 3, retinal (X-arrestin)	283					signal transduction|visual perception	cytoplasm|soluble fraction				large_intestine(2)|ovary(2)	4						CAGAAACGGGGCCTGGCACTG	0.498													9	58	---	---	---	---	PASS	T	69498434	T	T	69498434	3	4	91	1	0	0	0	0	1	0	0	0	979	1203	42	3	890	3	ARR3	23	69498434	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	2181602	69498434	85772126	731	34727										
KIF4A	24137	broad.mit.edu	37	chrX	69561721	69561721	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtagaggagaatgaaaaattAagtcgtggtctgagcgaggc	15	4	1	4			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:69561721A>T	uc004dyg.2	+	11	1333	c.1206A>T	c.(1204-1206)TTA>TTT	p.L402F	KIF4A_uc010nkw.2_Missense_Mutation_p.L402F|KIF4A_uc004dyf.1_Missense_Mutation_p.L402F	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	402	Potential.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						ATGAAAAATTAAGTCGTGGTC	0.413													21	125	---	---	---	---	PASS	T	69561721	T	T	69561721	3	4	91	1	0	0	0	0	1	0	0	0	8303	359	13	5	1244	5	KIF4A	23	69561721	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	63287	69561721	85708839	732	34728										
ZMYM3	9203	broad.mit.edu	37	chrX	70472625	70472625	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	agtagctatggaggtggtctCctcctcttcaatatgtgggg	13	8	3	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:70472625C>T	uc004dzh.1	-	2	568	c.481G>A	c.(481-483)GAG>AAG	p.E161K	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Missense_Mutation_p.E161K|ZMYM3_uc004dzj.1_Missense_Mutation_p.E161K|ZMYM3_uc011mpu.1_5'Flank|ZMYM3_uc004dzk.3_Missense_Mutation_p.E161K|ZMYM3_uc004dzl.3_Missense_Mutation_p.E161K|ZMYM3_uc004dzm.3_Missense_Mutation_p.E161K	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	161					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					GAGGTGGTCTCCTCCTCTTCA	0.587													15	49	---	---	---	---	PASS	T	70472625	T	T	70472625	3	4	91	1	0	0	0	0	1	0	0	0	17698	864	30	2	3745	2	ZMYM3	23	70472625	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	910904	70472625	84797935	733	34729										
ZNF711	7552	broad.mit.edu	37	chrX	84525778	84525778	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	aatcatcctgatcatttaatGagaaaaaaatatcagtgtac	5	6	3	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:84525778G>C	uc004eeo.2	+	9	1577	c.1230G>C	c.(1228-1230)ATG>ATC	p.M410I	ZNF711_uc004eep.2_Missense_Mutation_p.M410I|ZNF711_uc004eeq.2_Missense_Mutation_p.M456I|ZNF711_uc011mqy.1_Missense_Mutation_p.M9I	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	410					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						ATCATTTAATGAGAAAAAAAT	0.358													9	35	---	---	---	---	PASS	C	84525778	C	C	84525778	3	2	91	1	0	0	0	0	1	0	0	0	18113	1290	45	2	1256	2	ZNF711	23	84525778	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	14053153	84525778	70744782	734	34730										
ZNF711	7552	broad.mit.edu	37	chrX	84526676	84526676	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tttaccaatgtgagtattgtGaatacagcactacagatgca	8	7	0	3			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:84526676G>A	uc004eeo.2	+	9	2475	c.2128G>A	c.(2128-2130)GAA>AAA	p.E710K	ZNF711_uc004eep.2_Missense_Mutation_p.E710K|ZNF711_uc004eeq.2_Missense_Mutation_p.E756K|ZNF711_uc011mqy.1_Missense_Mutation_p.E309K	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	710	C2H2-type 11.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						TGAGTATTGTGAATACAGCAC	0.378													25	97	---	---	---	---	PASS	A	84526676	A	A	84526676	3	1	91	1	0	0	0	0	1	0	0	0	18113	1291	45	2	2154	2	ZNF711	23	84526676	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	898	84526676	70743884	735	34731										
GPRASP1	9737	broad.mit.edu	37	chrX	101908955	101908955	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtccctctggtggtcagaccCaaggttaggacccaggccca	12	14	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:101908955C>A	uc004ejj.3	+	5	915	c.114C>A	c.(112-114)CCC>CCA	p.P38P	GPRASP1_uc004eji.3_Silent_p.P38P|GPRASP1_uc010nod.2_Silent_p.P38P	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	38						cytoplasm	protein binding			ovary(1)|lung(1)	2						TGGTCAGACCCAAGGTTAGGA	0.537													38	242	---	---	---	---	PASS	A	101908955	A	A	101908955	2	1	91	1	0	0	0	0	0	0	0	1	6722	581	21	3		3	GPRASP1	23	101908955	Silent	SNP	C	TCGA-39-5031-01A-01D-1441-08	17382279	101908955	53361605	736	34732										
ALG13	79868	broad.mit.edu	37	chrX	110951368	110951368	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cctagactttgggctgctttCcggatacctgcataagcaag	10	11	0	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:110951368C>A	uc011msy.1	+	4	531	c.497C>A	c.(496-498)TCC>TAC	p.S166Y	ALG13_uc011msw.1_Missense_Mutation_p.S88Y|ALG13_uc011msx.1_Missense_Mutation_p.S62Y|ALG13_uc011msz.1_Missense_Mutation_p.S88Y|ALG13_uc011mta.1_Missense_Mutation_p.S62Y|ALG13_uc011mtb.1_Missense_Mutation_p.S62Y			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	166					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						GGGCTGCTTTCCGGATACCTG	0.537													14	56	---	---	---	---	PASS	A	110951368	A	A	110951368	3	1	91	1	0	0	0	0	1	0	0	0	515	855	30	2	653	2	ALG13	23	110951368	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	9042413	110951368	44319192	737	34733										
ZCCHC16	340595	broad.mit.edu	37	chrX	111698022	111698022	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	tcctttcttcaggcagagaaTctgattctgcggcttcaaat	8	10	5	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:111698022T>A	uc004epo.1	+	3	507	c.66T>A	c.(64-66)AAT>AAA	p.N22K		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	22							nucleic acid binding|zinc ion binding			ovary(1)	1						AGGCAGAGAATCTGATTCTGC	0.498													26	117	---	---	---	---	PASS	A	111698022	A	A	111698022	3	1	91	1	0	0	0	0	1	0	0	0	17581	1432	50	5	68	5	ZCCHC16	23	111698022	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	746654	111698022	43572538	738	34734										
DOCK11	139818	broad.mit.edu	37	chrX	117749672	117749672	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	acctaaactgcagcgggttcAaggcatgtatttgcattttc	9	9	1	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:117749672A>C	uc004eqp.2	+	30	3353	c.3290A>C	c.(3289-3291)CAA>CCA	p.Q1097P	DOCK11_uc004eqq.2_Missense_Mutation_p.Q863P	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1097					blood coagulation	cytosol	GTP binding			ovary(3)	3						CAGCGGGTTCAAGGCATGTAT	0.363													9	37	---	---	---	---	PASS	C	117749672	C	C	117749672	3	2	91	1	0	0	0	0	1	0	0	0	4686	130	5	5	3408	5	DOCK11	23	117749672	Missense_Mutation	SNP	A	TCGA-39-5031-01A-01D-1441-08	6051650	117749672	37520888	739	34735										
KIAA1210	57481	broad.mit.edu	37	chrX	118222335	118222335	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ccactttagggttcacccatGgctggaaagggtgtcttgga	13	9	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:118222335G>T	uc004era.3	-	11	2858	c.2858C>A	c.(2857-2859)CCA>CAA	p.P953Q		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	953										ovary(4)|skin(1)	5						GTTCACCCATGGCTGGAAAGG	0.483													14	62	---	---	---	---	PASS	T	118222335	T	T	118222335	3	4	91	1	0	0	0	0	1	0	0	0	8214	1348	47	3	2287	3	KIAA1210	23	118222335	Missense_Mutation	SNP	G	TCGA-39-5031-01A-01D-1441-08	472663	118222335	37048225	740	34736										
GRIA3	2892	broad.mit.edu	37	chrX	122598715	122598715	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	attcttatctctttggtgcaGagatccaaaattgctgtgta	8	7	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:122598715G>A	uc004etq.3	+	14	2370	c.2077_splice	c.e14-1	p.R693_splice	GRIA3_uc004etr.3_Splice_Site_p.R693_splice|GRIA3_uc004ets.3_Splice_Site	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform						glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	CTTTGGTGCAGAGATCCAAAA	0.373													17	131	---	---	---	---	PASS	A	122598715	A	A	122598715	5	1	91	1	0	0	0	0	0	0	1	0	6769	956	33	2	2126	2	GRIA3	23	122598715	Splice_Site	SNP	G	TCGA-39-5031-01A-01D-1441-08	4376380	122598715	32671845	741	34737										
FAM127B	26071	broad.mit.edu	37	chrX	134186115	134186115	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggcccggccaggagggccttCatcagctgcacccgaccgtc	13	17	2	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:134186115C>T	uc004eyf.2	-	1	107	c.24G>A	c.(22-24)ATG>ATA	p.M8I	FAM127B_uc004eyg.3_Missense_Mutation_p.M8I	NM_001078172	NP_001071640	Q9BWD3	F127B_HUMAN	family with sequence similarity 127, member B	8											0	Acute lymphoblastic leukemia(192;0.000127)					GGAGGGCCTTCATCAGCTGCA	0.706													6	54	---	---	---	---	PASS	T	134186115	T	T	134186115	3	4	91	1	0	0	0	0	1	0	0	0	5432	826	29	2	385	2	FAM127B	23	134186115	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	11587400	134186115	21084445	742	34738										
SLC9A6	10479	broad.mit.edu	37	chrX	135080640	135080640	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	taacttttttttttttgtcaGagacatttttttcgaaatct	4	5	2	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:135080640G>A	uc004ezj.2	+	4	584	c.508_splice	c.e4-1	p.R170_splice	SLC9A6_uc004ezk.2_Splice_Site_p.R202_splice|SLC9A6_uc011mvx.1_Splice_Site_p.R150_splice	NM_006359	NP_006350	Q92581	SL9A6_HUMAN	solute carrier family 9 (sodium/hydrogen						regulation of pH	early endosome membrane|endoplasmic reticulum membrane|integral to membrane|microsome|plasma membrane|recycling endosome membrane	sodium:hydrogen antiporter activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TTTTTTGTCAGAGACATTTTT	0.299													7	81	---	---	---	---	PASS	A	135080640	A	A	135080640	5	1	91	1	0	0	0	0	0	0	1	0	14718	956	33	2	617	2	SLC9A6	23	135080640	Splice_Site	SNP	G	TCGA-39-5031-01A-01D-1441-08	894525	135080640	20189920	743	34739										
MAP7D3	79649	broad.mit.edu	37	chrX	135312673	135312673	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gtgttgaataggcattatttTataaggaaaagaagtctgtg	11	2	1	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:135312673T>C	uc004ezt.2	-	10	1712	c.1621A>G	c.(1621-1623)AAA>GAA	p.K541E	MAP7D3_uc004ezs.2_Missense_Mutation_p.K505E|MAP7D3_uc011mwc.1_Missense_Mutation_p.K523E|MAP7D3_uc010nsa.1_Missense_Mutation_p.K499E	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	541						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					GGCATTATTTTATAAGGAAAA	0.373													34	173	---	---	---	---	PASS	C	135312673	C	C	135312673	3	2	91	1	0	0	0	0	1	0	0	0	9269	1763	61	5	1045	5	MAP7D3	23	135312673	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	232033	135312673	19957887	744	34740										
AFF2	2334	broad.mit.edu	37	chrX	148037466	148037466	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggacaattgggaaaaaacagCccaaaaaagttgagaagaac	10	6	0	2			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:148037466C>A	uc004fcp.2	+	11	2370	c.1891C>A	c.(1891-1893)CCC>ACC	p.P631T	AFF2_uc004fcq.2_Missense_Mutation_p.P621T|AFF2_uc004fcr.2_Missense_Mutation_p.P592T|AFF2_uc011mxb.1_Missense_Mutation_p.P596T|AFF2_uc004fcs.2_Missense_Mutation_p.P598T|AFF2_uc011mxc.1_Missense_Mutation_p.P272T	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	631					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					GAAAAAACAGCCCAAAAAAGT	0.433													23	129	---	---	---	---	PASS	A	148037466	A	A	148037466	3	1	91	1	0	0	0	0	1	0	0	0	357	739	26	3	1988	3	AFF2	23	148037466	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	12724793	148037466	7233094	745	34741										
MAMLD1	10046	broad.mit.edu	37	chrX	149638334	149638334	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gggcccactgttccttactaTgagaaaatcaacagcgtgcc	9	12	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:149638334T>A	uc004fee.1	+	3	565	c.489T>A	c.(487-489)TAT>TAA	p.Y163*	MAMLD1_uc011mxt.1_Nonsense_Mutation_p.Y125*|MAMLD1_uc011mxu.1_Nonsense_Mutation_p.Y138*|MAMLD1_uc011mxv.1_Nonsense_Mutation_p.Y138*|MAMLD1_uc011mxw.1_Nonsense_Mutation_p.Y90*	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	163					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					TTCCTTACTATGAGAAAATCA	0.478													26	85	---	---	---	---	PASS	A	149638334	A	A	149638334	4	1	91	1	0	0	0	0	0	1	0	0	9208	1471	51	5	499	5	MAMLD1	23	149638334	Nonsense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	1600868	149638334	5632226	746	34742										
HCFC1	3054	broad.mit.edu	37	chrX	153220573	153220573	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	ggccatgttggaggtggcggTggtggcggtgttggtggtgc	23	5	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:153220573T>A	uc004fjp.2	-	17	3805	c.3277A>T	c.(3277-3279)ACC>TCC	p.T1093S		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1093	HCF repeat 2.			T->A: Inactivates cleavage at HCF repeat.	cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					gaggtggcggtggtggcggtg	0.537													10	23	---	---	---	---	PASS	A	153220573	A	A	153220573	3	1	91	1	0	0	0	0	1	0	0	0	6991	1696	59	5	2870	5	HCFC1	23	153220573	Missense_Mutation	SNP	T	TCGA-39-5031-01A-01D-1441-08	3582239	153220573	2049987	747	34743										
LAGE3	8270	broad.mit.edu	37	chrX	153706634	153706634	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	gaacttacacgaccaggatcCtgccactcactgtgagatcc	8	14	1	1			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:153706634C>T	uc004fln.1	-	2	647	c.305G>A	c.(304-306)AGG>AAG	p.R102K		NM_006014	NP_006005	Q14657	LAGE3_HUMAN	L antigen family, member 3	102							protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GACCAGGATCCTGCCACTCAC	0.627													11	112	---	---	---	---	PASS	T	153706634	T	T	153706634	3	4	91	1	0	0	0	0	1	0	0	0	8601	681	24	3	134	3	LAGE3	23	153706634	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	486061	153706634	1563926	748	34744										
LAGE3	8270	broad.mit.edu	37	chrX	153706719	153706719	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.452830188679245	336	2.91015727014255e-122	3.94901683657167	4.47550240190336	3.55499101538395	0.505915671412437	0.81842946137857	251	cccatgggcgatttccgcctCcaagggggtcgggaaaggca	15	12	0	0			TCGA-39-5031-01A-01D-1441-08	TCGA-39-5031-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	3eab4096-8e8e-459d-a2bb-6ef03f414315	b4d9f9a2-e65f-443b-866c-50bb8e491be7	g.chrX:153706719C>T	uc004fln.1	-	2	562	c.220G>A	c.(220-222)GAG>AAG	p.E74K		NM_006014	NP_006005	Q14657	LAGE3_HUMAN	L antigen family, member 3	74							protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ATTTCCGCCTCCAAGGGGGTC	0.592													7	118	---	---	---	---	PASS	T	153706719	T	T	153706719	3	4	91	1	0	0	0	0	1	0	0	0	8601	864	30	2	219	2	LAGE3	23	153706719	Missense_Mutation	SNP	C	TCGA-39-5031-01A-01D-1441-08	85	153706719	1563841	749	34745										
ALDH4A1	8659	broad.mit.edu	37	chr1	19212114	19212114	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gcagcctcaatggctttgttGagcaggctctaaagggagag	14	8	2	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:19212114G>C	uc001bbb.2	-	5	582	c.306C>G	c.(304-306)CTC>CTG	p.L102L	ALDH4A1_uc010ocu.1_Silent_p.L42L|ALDH4A1_uc001bbc.2_Silent_p.L102L	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	102					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	TGGCTTTGTTGAGCAGGCTCT	0.622													9	35	---	---	---	---	PASS	C	19212114	C	C	19212114	2	2	92	1	0	0	0	0	0	0	0	1	501	1277	45	2		2	ALDH4A1	1	19212114	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08		19212114	230038507	1	34746										
KDM1A	23028	broad.mit.edu	37	chr1	23395630	23395630	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aaactcaggaagaattgaaaGaacttcttaataaggtgaaa	8	4	2	4			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:23395630G>T	uc001bgi.2	+	10	1476	c.1327G>T	c.(1327-1329)GAA>TAA	p.E443*	KDM1A_uc001bgj.2_Nonsense_Mutation_p.E467*	NM_015013	NP_055828	O60341	KDM1A_HUMAN	lysine-specific histone demethylase 1 isoform b	443	Potential.|Demethylase activity.				blood coagulation|muscle cell development|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of protein binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin	androgen receptor binding|chromatin binding|enzyme binding|flavin adenine dinucleotide binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-K9 specific)|ligand-dependent nuclear receptor transcription coactivator activity|MyoD binding|oxidoreductase activity|p53 binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2						AGAATTGAAAGAACTTCTTAA	0.308													13	65	---	---	---	---	PASS	T	23395630	T	T	23395630	4	4	92	1	0	0	0	0	0	1	0	0	8122	943	33	2	1445	2	KDM1A	1	23395630	Nonsense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	4183516	23395630	225854991	2	34747										
KIAA0319L	79932	broad.mit.edu	37	chr1	35915491	35915491	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gtttcacctccacagtggtcCggtctgtgtcactctcaccc	8	16	4	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:35915491C>T	uc001byx.2	-	15	2588	c.2330G>A	c.(2329-2331)CGG>CAG	p.R777Q	KIAA0319L_uc001byw.2_Missense_Mutation_p.R219Q|KIAA0319L_uc010ohv.1_Missense_Mutation_p.R419Q	NM_024874	NP_079150	Q8IZA0	K319L_HUMAN	dyslexia susceptibility 2-like	777	PKD 5.|Extracellular (Potential).					cytoplasmic vesicle part|integral to membrane	protein binding			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CACAGTGGTCCGGTCTGTGTC	0.483													27	67	---	---	---	---	PASS	T	35915491	T	T	35915491	3	4	92	1	0	0	0	0	1	0	0	0	8169	652	23	1	847	1	KIAA0319L	1	35915491	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	12519861	35915491	213335130	3	34748										
GPBP1L1	60313	broad.mit.edu	37	chr1	46093993	46093993	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ggtgtctgagtcctcaaactCtgctttgcaagtgcttctcc	9	12	4	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:46093993C>G	uc001coq.2	-	13	2721	c.1360G>C	c.(1360-1362)GAG>CAG	p.E454Q	GPBP1L1_uc001coo.2_Missense_Mutation_p.E198Q	NM_021639	NP_067652	Q9HC44	GPBL1_HUMAN	GC-rich promoter binding protein 1-like 1	454					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TCCTCAAACTCTGCTTTGCAA	0.463													56	277	---	---	---	---	PASS	G	46093993	G	G	46093993	3	3	92	1	0	0	0	0	1	0	0	0	6596	922	32	2	68	2	GPBP1L1	1	46093993	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	10178502	46093993	203156628	4	34749										
CYP4B1	1580	broad.mit.edu	37	chr1	47283815	47283815	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cccttcaggtctttgactctCtgcgcttttccactgagaat	7	13	3	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:47283815C>G	uc001cqm.3	+	11	1366	c.1282C>G	c.(1282-1284)CTG>GTG	p.L428V	CYP4B1_uc001cqn.3_Missense_Mutation_p.L429V|CYP4B1_uc009vym.2_Missense_Mutation_p.L414V|CYP4B1_uc010omk.1_Missense_Mutation_p.L265V	NM_000779	NP_000770	P13584	CP4B1_HUMAN	cytochrome P450, family 4, subfamily B,	428					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					CTTTGACTCTCTGCGCTTTTC	0.582													89	80	---	---	---	---	PASS	G	47283815	G	G	47283815	3	3	92	1	0	0	0	0	1	0	0	0	4185	912	32	2	1327	2	CYP4B1	1	47283815	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	1189822	47283815	201966806	5	34750										
C8A	731	broad.mit.edu	37	chr1	57349275	57349275	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cggcataggcccagccggcaGccctttattggtgggtgtag	15	11	0	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:57349275G>C	uc001cyo.2	+	6	908	c.776G>C	c.(775-777)AGC>ACC	p.S259T		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	259	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						CCAGCCGGCAGCCCTTTATTG	0.403													18	123	---	---	---	---	PASS	C	57349275	C	C	57349275	3	2	92	1	0	0	0	0	1	0	0	0	2416	971	34	4	798	4	C8A	1	57349275	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	10065460	57349275	191901346	6	34751										
SGIP1	84251	broad.mit.edu	37	chr1	67154905	67154905	+	Missense_Mutation	SNP	C	T	T													0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctccacctccacctcctcccCggcctccatcccggccaaag							TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:67154905C>T	uc001dcr.2	+	16	1607	c.1390C>T	c.(1390-1392)CGG>TGG	p.R464W	SGIP1_uc010opd.1_Missense_Mutation_p.R64W|SGIP1_uc001dcs.2_Missense_Mutation_p.R64W|SGIP1_uc001dct.2_Missense_Mutation_p.R64W|SGIP1_uc009wat.2_Missense_Mutation_p.R258W	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	464	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						ACCTCCTCCCCGGCCTCCATC	0.527													94	336	---	---	---	---	PASS	T	67154905	T	T	67154905	3	4	92	1	0	0	0	0	1	0	0	0	14206	643	23	1	1452	1	SGIP1	1	67154905	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	9805630	67154905	182095716	7	34752	661	2								
SGIP1	84251	broad.mit.edu	37	chr1	67154906	67154906	+	Missense_Mutation	SNP	G	T	T													0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tccacctccacctcctccccGgcctccatcccggccaaagc							TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:67154906G>T	uc001dcr.2	+	16	1608	c.1391G>T	c.(1390-1392)CGG>CTG	p.R464L	SGIP1_uc010opd.1_Missense_Mutation_p.R64L|SGIP1_uc001dcs.2_Missense_Mutation_p.R64L|SGIP1_uc001dct.2_Missense_Mutation_p.R64L|SGIP1_uc009wat.2_Missense_Mutation_p.R258L	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	464	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						CCTCCTCCCCGGCCTCCATCC	0.522													94	333	---	---	---	---	PASS	T	67154906	T	T	67154906	3	4	92	1	0	0	0	0	1	0	0	0	14206	1116	39	1	1453	1	SGIP1	1	67154906	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	1	67154906	182095715	8	34753	661	2								
IFI44L	10964	broad.mit.edu	37	chr1	79095529	79095529	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ccagttttttcaattcagtcAagtctatttttcatggccat	5	9	5	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:79095529A>C	uc010oro.1	+	4	831	c.652A>C	c.(652-654)AAG>CAG	p.K218Q	IFI44L_uc010orp.1_5'UTR|IFI44L_uc010orq.1_Intron	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	218						cytoplasm					0						CAATTCAGTCAAGTCTATTTT	0.438													27	84	---	---	---	---	PASS	C	79095529	C	C	79095529	3	2	92	1	0	0	0	0	1	0	0	0	7518	131	5	5	662	5	IFI44L	1	79095529	Missense_Mutation	SNP	A	TCGA-39-5035-01A-01D-1441-08	11940623	79095529	170155092	9	34754										
DNASE2B	58511	broad.mit.edu	37	chr1	84880393	84880393	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aagatcatgccaagtggtgtAtttcccaaaagggcaccaaa	9	9	1	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:84880393A>G	uc001djt.1	+	6	961	c.928A>G	c.(928-930)ATT>GTT	p.I310V	DNASE2B_uc001dju.1_Missense_Mutation_p.I102V|DNASE2B_uc009wch.1_Missense_Mutation_p.I102V	NM_021233	NP_067056	Q8WZ79	DNS2B_HUMAN	deoxyribonuclease II beta isoform 1 precursor	310					DNA metabolic process	lysosome	deoxyribonuclease II activity				0				all cancers(265;0.00303)|Epithelial(280;0.0112)|OV - Ovarian serous cystadenocarcinoma(397;0.0808)		CAAGTGGTGTATTTCCCAAAA	0.403								Direct_reversal_of_damage					3	73	---	---	---	---	PASS	G	84880393	G	G	84880393	3	3	92	1	0	0	0	0	1	0	0	0	4665	449	16	5	950	5	DNASE2B	1	84880393	Missense_Mutation	SNP	A	TCGA-39-5035-01A-01D-1441-08	5784864	84880393	164370228	10	34755										
SPAG17	200162	broad.mit.edu	37	chr1	118567962	118567962	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	catcaccgttttatagaactCatagtgcttcaccctctggg	7	12	4	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:118567962C>G	uc001ehk.2	-	27	3876	c.3808G>C	c.(3808-3810)GAG>CAG	p.E1270Q		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1270						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TTATAGAACTCATAGTGCTTC	0.463													33	119	---	---	---	---	PASS	G	118567962	G	G	118567962	3	3	92	1	0	0	0	0	1	0	0	0	14979	835	29	2	2951	2	SPAG17	1	118567962	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	33687569	118567962	130682659	11	34756										
PDE4DIP	9659	broad.mit.edu	37	chr1	144865917	144865917	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ccaggccctgactgtagaagTtagaagtggatcctgtccca	11	11	0	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:144865917T>A	uc001elw.3	-	35	5954	c.5663A>T	c.(5662-5664)AAC>ATC	p.N1888I	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.N1782I|PDE4DIP_uc001elv.3_Missense_Mutation_p.N895I|PDE4DIP_uc001ema.2_Missense_Mutation_p.N75I	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1888	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		ACTGTAGAAGTTAGAAGTGGA	0.463			T	PDGFRB	MPD								75	472	---	---	---	---	PASS	A	144865917	A	A	144865917	3	1	92	1	0	0	0	0	1	0	0	0	11643	1725	60	5	1417	5	PDE4DIP	1	144865917	Missense_Mutation	SNP	T	TCGA-39-5035-01A-01D-1441-08	26297955	144865917	104384704	12	34757										
LIX1L	128077	broad.mit.edu	37	chr1	145498774	145498774	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	caatatgcattcttccaactGctaggcatccacccacataa	4	14	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:145498774G>A	uc001enr.2	+	6	1084	c.1010G>A	c.(1009-1011)TGC>TAC	p.C337Y	NBPF10_uc001emp.3_Intron|LIX1L_uc009wiu.1_5'Flank	NM_153713	NP_714924	Q8IVB5	LIX1L_HUMAN	Lix1 homolog (mouse) like	337										ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TCTTCCAACTGCTAGGCATCC	0.458													24	60	---	---	---	---	PASS	A	145498774	A	A	145498774	3	1	92	1	0	0	0	0	1	0	0	0	8832	1319	46	3	1032	3	LIX1L	1	145498774	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	632857	145498774	103751847	13	34758										
HIST2H2AB	317772	broad.mit.edu	37	chr1	149859324	149859324	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ccgccgccaggtacaccgggGcgcctgccccgacccgctcc	12	22	0	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:149859324G>C	uc001ete.2	-	1	143	c.143C>G	c.(142-144)GCC>GGC	p.A48G	HIST2H2BE_uc001etc.2_5'Flank	NM_175065	NP_778235	Q8IUE6	H2A2B_HUMAN	histone cluster 2, H2ab	48					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|breast(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			GTACACCGGGGCGCCTGCCCC	0.687													10	75	---	---	---	---	PASS	C	149859324	C	C	149859324	3	2	92	1	0	0	0	0	1	0	0	0	7177	1203	42	4	253	4	HIST2H2AB	1	149859324	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	4360550	149859324	99391297	14	34759										
FLG	2312	broad.mit.edu	37	chr1	152281822	152281822	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	catcagacctttcctgggacGtggtgtggctgtgatgagac	14	9	1	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:152281822G>A	uc001ezu.1	-	3	5576	c.5540C>T	c.(5539-5541)ACG>ATG	p.T1847M		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1847	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCCTGGGACGTGGTGTGGCT	0.552									Ichthyosis				160	343	---	---	---	---	PASS	A	152281822	A	A	152281822	3	1	92	1	0	0	0	0	1	0	0	0	5922	1145	40	1	6649	1	FLG	1	152281822	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	2422498	152281822	96968799	15	34760										
LY9	4063	broad.mit.edu	37	chr1	160789114	160789114	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctaactttgtttctcaggttCagtcccagccttctgttcca	6	13	3	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:160789114C>G	uc001fwu.2	+	7	1498	c.1448C>G	c.(1447-1449)TCA>TGA	p.S483*	LY9_uc001fwv.2_Nonsense_Mutation_p.S483*|LY9_uc001fww.2_Nonsense_Mutation_p.S393*|LY9_uc001fwx.2_Nonsense_Mutation_p.S393*|LY9_uc001fwy.1_Nonsense_Mutation_p.S295*|LY9_uc001fwz.2_Nonsense_Mutation_p.S135*	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	483	Cytoplasmic (Potential).				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			TTCTCAGGTTCAGTCCCAGCC	0.493													35	86	---	---	---	---	PASS	G	160789114	G	G	160789114	4	3	92	1	0	0	0	0	0	1	0	0	9101	838	29	2	1606	2	LY9	1	160789114	Nonsense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	8507292	160789114	88461507	16	34761										
METTL13	51603	broad.mit.edu	37	chr1	171755047	171755047	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ggccgggagaccgagtggctCtttggcatggatgagggccg	19	9	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:171755047C>G	uc001ghz.2	+	3	1289	c.942C>G	c.(940-942)CTC>CTG	p.L314L	METTL13_uc001gia.2_Silent_p.L228L|METTL13_uc001gib.2_Silent_p.L158L|METTL13_uc010pml.1_Silent_p.L313L	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	314							methyltransferase activity|protein binding			kidney(1)	1						CCGAGTGGCTCTTTGGCATGG	0.557													6	30	---	---	---	---	PASS	G	171755047	G	G	171755047	2	3	92	1	0	0	0	0	0	0	0	1	9497	900	32	2		2	METTL13	1	171755047	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	10965933	171755047	77495574	17	34762										
TNN	63923	broad.mit.edu	37	chr1	175092792	175092792	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aagaaggctgacaccaaggcCcagacaggtactgagaggga	14	9	0	4	rs138898390		TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:175092792C>G	uc001gkl.1	+	12	3020	c.2907C>G	c.(2905-2907)GCC>GCG	p.A969A		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	969	Fibronectin type-III 8.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		ACACCAAGGCCCAGACAGGTA	0.627													5	88	---	---	---	---	PASS	G	175092792	G	G	175092792	2	3	92	1	0	0	0	0	0	0	0	1	16320	610	22	4		4	TNN	1	175092792	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	3337745	175092792	74157829	18	34763										
FAM5B	57795	broad.mit.edu	37	chr1	177250258	177250258	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tcatgtttacctacggagccGaatcaagtccctggatgaca	9	11	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:177250258G>A	uc001glf.2	+	8	2258	c.1946G>A	c.(1945-1947)CGA>CAA	p.R649Q	FAM5B_uc001glg.2_Missense_Mutation_p.R544Q	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	649						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CTACGGAGCCGAATCAAGTCC	0.463													18	81	---	---	---	---	PASS	A	177250258	A	A	177250258	3	1	92	1	0	0	0	0	1	0	0	0	5593	1058	37	2	1972	2	FAM5B	1	177250258	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	2157466	177250258	72000363	19	34764										
SEC16B	89866	broad.mit.edu	37	chr1	177937043	177937043	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gtccatctctccgaaaccctCggtctggatcctttgagggt	10	13	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:177937043C>T	uc001gli.1	-	2	164	c.74G>A	c.(73-75)CGA>CAA	p.R25Q	SEC16B_uc001glk.1_5'UTR|SEC16B_uc009wwz.1_5'UTR|SEC16B_uc001glj.1_Missense_Mutation_p.R25Q|SEC16B_uc001gll.3_Missense_Mutation_p.R25Q	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	25					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4						CCGAAACCCTCGGTCTGGATC	0.577													19	42	---	---	---	---	PASS	T	177937043	T	T	177937043	3	4	92	1	0	0	0	0	1	0	0	0	13987	884	31	2	3208	2	SEC16B	1	177937043	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	686785	177937043	71313578	20	34765										
TPR	7175	broad.mit.edu	37	chr1	186308815	186308815	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctaccaatttcttctgtcaaTtgttgaatacgcttagtatg	6	8	3	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:186308815T>C	uc001grv.2	-	30	4407	c.4110A>G	c.(4108-4110)CAA>CAG	p.Q1370Q		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1370	Potential.				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)		CTTCTGTCAATTGTTGAATAC	0.303			T	NTRK1	papillary thyroid								17	59	---	---	---	---	PASS	C	186308815	C	C	186308815	2	2	92	1	0	0	0	0	0	0	0	1	16413	1490	52	5		5	TPR	1	186308815	Silent	SNP	T	TCGA-39-5035-01A-01D-1441-08	8371772	186308815	62941806	21	34766										
C4BPA	722	broad.mit.edu	37	chr1	207304941	207304941	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atgcttcctgggaaacatatCctaggccgacaaaagaggat	10	9	0	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:207304941C>T	uc001hfo.2	+	8	1134	c.940C>T	c.(940-942)CCT>TCT	p.P314S		NM_000715	NP_000706	P04003	C4BPA_HUMAN	complement component 4 binding protein, alpha	314	Sushi 5.				complement activation, classical pathway|innate immune response	extracellular region	protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						GGAAACATATCCTAGGCCGAC	0.433													26	58	---	---	---	---	PASS	T	207304941	T	T	207304941	3	4	92	1	0	0	0	0	1	0	0	0	2249	855	30	2	966	2	C4BPA	1	207304941	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	20996126	207304941	41945680	22	34767										
SYT14	255928	broad.mit.edu	37	chr1	210267799	210267799	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ggacagtaaatgtgaattttCccactgcagcaacagtccaa	8	10	0	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:210267799C>T	uc009xcv.2	+	5	647	c.575C>T	c.(574-576)TCC>TTC	p.S192F	SYT14_uc001hhs.3_Missense_Mutation_p.S237F|SYT14_uc001hht.3_Missense_Mutation_p.S192F|SYT14_uc001hhu.3_RNA|SYT14_uc010psn.1_Missense_Mutation_p.S237F|SYT14_uc010pso.1_Missense_Mutation_p.S154F	NM_153262	NP_694994	Q8NB59	SYT14_HUMAN	synaptotagmin XIV isoform 4	192	Cytoplasmic (Potential).					integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)		TGTGAATTTTCCCACTGCAGC	0.433													25	57	---	---	---	---	PASS	T	210267799	T	T	210267799	3	4	92	1	0	0	0	0	1	0	0	0	15467	855	30	2	732	2	SYT14	1	210267799	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	2962858	210267799	38982822	23	34768										
OR2G3	81469	broad.mit.edu	37	chr1	247769169	247769169	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ccaaagaagacgatcacttaCggtggttgtgtggcgcaact	12	9	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:247769169C>T	uc010pyz.1	+	1	282	c.282C>T	c.(280-282)TAC>TAT	p.Y94Y		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			CGATCACTTACGGTGGTTGTG	0.473													120	259	---	---	---	---	PASS	T	247769169	T	T	247769169	2	4	92	1	0	0	0	0	0	0	0	1	10999	547	19	1		1	OR2G3	1	247769169	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	37501370	247769169	1481452	24	34769										
OR2M5	127059	broad.mit.edu	37	chr1	248308860	248308860	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	agatacaccaatctcatgagAcccaaaatttgtggacttat	6	9	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:248308860A>C	uc010pze.1	+	1	411	c.411A>C	c.(409-411)AGA>AGC	p.R137S		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			ATCTCATGAGACCCAAAATTT	0.453													69	374	---	---	---	---	PASS	C	248308860	C	C	248308860	3	2	92	1	0	0	0	0	1	0	0	0	11013	272	10	5	413	5	OR2M5	1	248308860	Missense_Mutation	SNP	A	TCGA-39-5035-01A-01D-1441-08	539691	248308860	941761	25	34770										
OR2T2	401992	broad.mit.edu	37	chr1	248616135	248616135	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ttctccagaactccactaacTtcgtcctcacaggcctcatc	4	17	3	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr1:248616135T>G	uc001iek.1	+	1	37	c.37T>G	c.(37-39)TTC>GTC	p.F13V		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	13	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTCCACTAACTTCGTCCTCAC	0.502													8	119	---	---	---	---	PASS	G	248616135	G	G	248616135	3	3	92	1	0	0	0	0	1	0	0	0	11020	1609	56	5	39	5	OR2T2	1	248616135	Missense_Mutation	SNP	T	TCGA-39-5035-01A-01D-1441-08	307275	248616135	634486	26	34771										
SRBD1	55133	broad.mit.edu	37	chr2	45616517	45616517	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aatgttgagtacttggacttCcactctttctccggggccca	9	12	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr2:45616517C>T	uc002rus.2	-	21	2996	c.2920G>A	c.(2920-2922)GAA>AAA	p.E974K	SRBD1_uc010yoc.1_Missense_Mutation_p.E493K	NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	974	S1 motif.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			ACTTGGACTTCCACTCTTTCT	0.463													32	88	---	---	---	---	PASS	T	45616517	T	T	45616517	3	4	92	1	0	0	0	0	1	0	0	0	15132	864	30	2	71	2	SRBD1	2	45616517	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08		45616517	197582856	27	34772										
CNNM4	26504	broad.mit.edu	37	chr2	97464819	97464819	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tctcagtttagcccctccctGatatcagagaagatcctgct	7	13	2	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr2:97464819G>A	uc002swx.2	+	4	1805	c.1707G>A	c.(1705-1707)CTG>CTA	p.L569L	CNNM4_uc010yuy.1_Silent_p.L56L	NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	569					biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						GCCCCTCCCTGATATCAGAGA	0.537													25	52	---	---	---	---	PASS	A	97464819	A	A	97464819	2	1	92	1	0	0	0	0	0	0	0	1	3615	1277	45	2		2	CNNM4	2	97464819	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	51848302	97464819	145734554	28	34773										
GALNT5	11227	broad.mit.edu	37	chr2	158114721	158114721	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cattcagtgagatcaacactCgggtcatcaaggaagacatt	9	9	4	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr2:158114721C>T	uc002tzg.2	+	1	382	c.127C>T	c.(127-129)CGG>TGG	p.R43W	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	43	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						GATCAACACTCGGGTCATCAA	0.468													53	182	---	---	---	---	PASS	T	158114721	T	T	158114721	3	4	92	1	0	0	0	0	1	0	0	0	6216	875	31	2	129	2	GALNT5	2	158114721	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	60649902	158114721	85084652	29	34774										
SCN7A	6332	broad.mit.edu	37	chr2	167298201	167298201	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tcagggccacccatgagttaCtaagagaccacatcaaaatc	7	12	2	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr2:167298201C>T	uc002udu.1	-	14	1989	c.1862G>A	c.(1861-1863)AGT>AAT	p.S621N	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	621					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						CCATGAGTTACTAAGAGACCA	0.373													32	80	---	---	---	---	PASS	T	167298201	T	T	167298201	3	4	92	1	0	0	0	0	1	0	0	0	13923	565	20	3	3234	3	SCN7A	2	167298201	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	9183480	167298201	75901172	30	34775										
TTN	7273	broad.mit.edu	37	chr2	179428793	179428793	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gatgggtatagactttgtacCaccaacattgctgagtttca	9	8	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr2:179428793C>A	uc010zfg.1	-	275	74586	c.74362G>T	c.(74362-74364)GGT>TGT	p.G24788C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G18483C|TTN_uc010zfi.1_Missense_Mutation_p.G18416C|TTN_uc010zfj.1_Missense_Mutation_p.G18291C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25715							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)			GACTTTGTACCACCAACATTG	0.408													66	161	---	---	---	---	PASS	A	179428793	A	A	179428793	3	1	92	1	0	0	0	0	1	0	0	0	16732	594	21	3	26061	3	TTN	2	179428793	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	12130592	179428793	63770580	31	34776										
TTN	7273	broad.mit.edu	37	chr2	179569463	179569463	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aagacagcatcattatctttCaaaactgtctgattttcaat	4	8	5	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr2:179569463C>G	uc010zfg.1	-	102	26228	c.26004G>C	c.(26002-26004)TTG>TTC	p.L8668F	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.L5329F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9595							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)			CATTATCTTTCAAAACTGTCT	0.323													6	40	---	---	---	---	PASS	G	179569463	G	G	179569463	3	3	92	1	0	0	0	0	1	0	0	0	16732	825	29	2	74825	2	TTN	2	179569463	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	140670	179569463	63629910	32	34777										
COL3A1	1281	broad.mit.edu	37	chr2	189855088	189855088	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tggtatgaaaggacacagagTaagtagagtttctaagttgt	12	3	1	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr2:189855088T>G	uc002uqj.1	+	10	915	c.798_splice	c.e10+2	p.R266_splice	COL3A1_uc010frw.1_5'Flank	NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein						axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	GGACACAGAGTAAGTAGAGTT	0.348													14	65	---	---	---	---	PASS	G	189855088	G	G	189855088	5	3	92	1	0	0	0	0	0	0	1	0	3688	1652	57	5	838	5	COL3A1	2	189855088	Splice_Site	SNP	T	TCGA-39-5035-01A-01D-1441-08	10285625	189855088	53344285	33	34778										
DOCK10	55619	broad.mit.edu	37	chr2	225717814	225717814	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atcatgttgaaaggcttgacAgggataaaggacgatgttac	12	5	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr2:225717814A>G	uc010fwz.1	-	17	2153	c.1914T>C	c.(1912-1914)CCT>CCC	p.P638P	DOCK10_uc002vob.2_Silent_p.P632P	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	638							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		AAGGCTTGACAGGGATAAAGG	0.333													3	95	---	---	---	---	PASS	G	225717814	G	G	225717814	2	3	92	1	0	0	0	0	0	0	0	1	4685	175	7	5		5	DOCK10	2	225717814	Silent	SNP	A	TCGA-39-5035-01A-01D-1441-08	35862726	225717814	17481559	34	34779										
GRM7	2917	broad.mit.edu	37	chr3	7620793	7620793	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	acatcatcatagactatgatGaacacaagacaatgaaccct	5	10	2	5			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr3:7620793G>C	uc003bqm.2	+	8	2474	c.2200G>C	c.(2200-2202)GAA>CAA	p.E734Q	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.E734Q|GRM7_uc003bql.2_Missense_Mutation_p.E734Q|GRM7_uc003bqn.1_Missense_Mutation_p.E317Q|GRM7_uc010hch.1_Missense_Mutation_p.E245Q	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	734	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	AGACTATGATGAACACAAGAC	0.418													30	49	---	---	---	---	PASS	C	7620793	C	C	7620793	3	2	92	1	0	0	0	0	1	0	0	0	6802	1291	45	2	2230	2	GRM7	3	7620793	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08		7620793	190401637	35	34780										
XIRP1	165904	broad.mit.edu	37	chr3	39228401	39228401	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	agttgggtcttcctgcaccaGcagcccctgctggtccacat	10	15	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr3:39228401G>A	uc003cjk.1	-	2	2757	c.2536C>T	c.(2536-2538)CTG>TTG	p.L846L	XIRP1_uc003cji.2_Silent_p.L846L|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	846							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		TCCTGCACCAGCAGCCCCTGC	0.592													16	26	---	---	---	---	PASS	A	39228401	A	A	39228401	2	1	92	1	0	0	0	0	0	0	0	1	17426	962	34	3		3	XIRP1	3	39228401	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	31607608	39228401	158794029	36	34781										
CACNA1D	776	broad.mit.edu	37	chr3	53684870	53684870	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atttttgaagattatagcgtAtggattattgctacatccta	7	5	0	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr3:53684870A>G	uc003dgv.3	+	4	711	c.548A>G	c.(547-549)TAT>TGT	p.Y183C	CACNA1D_uc003dgu.3_Missense_Mutation_p.Y183C|CACNA1D_uc003dgy.3_Missense_Mutation_p.Y183C	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	183	I.|Helical; Name=S2 of repeat I; (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	ATTATAGCGTATGGATTATTG	0.318													41	79	---	---	---	---	PASS	G	53684870	G	G	53684870	3	3	92	1	0	0	0	0	1	0	0	0	2541	449	16	5	562	5	CACNA1D	3	53684870	Missense_Mutation	SNP	A	TCGA-39-5035-01A-01D-1441-08	14456469	53684870	144337560	37	34782										
CBLB	868	broad.mit.edu	37	chr3	105572277	105572277	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cctgtcctgtgactgttcttCatacattctctccttgcctt	5	14	3	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr3:105572277C>T	uc003dwc.2	-	3	722	c.400G>A	c.(400-402)GAA>AAA	p.E134K	CBLB_uc011bhi.1_Missense_Mutation_p.E156K|CBLB_uc003dwd.1_Missense_Mutation_p.E134K|CBLB_uc003dwe.1_Missense_Mutation_p.E134K|CBLB_uc011bhj.1_RNA	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	134	Cbl-PTB.|4H.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						GACTGTTCTTCATACATTCTC	0.338			Mis S		AML								81	213	---	---	---	---	PASS	T	105572277	T	T	105572277	3	4	92	1	0	0	0	0	1	0	0	0	2701	835	29	2	2616	2	CBLB	3	105572277	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	51887407	105572277	92450153	38	34783										
ARHGAP31	57514	broad.mit.edu	37	chr3	119121048	119121048	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ccgcgtaaccagcgcaaggcGctgaacatctccgagccctt	10	16	1	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr3:119121048G>A	uc003ecj.3	+	10	1981	c.1449G>A	c.(1447-1449)GCG>GCA	p.A483A		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	483					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						AGCGCAAGGCGCTGAACATCT	0.602													22	147	---	---	---	---	PASS	A	119121048	A	A	119121048	2	1	92	1	0	0	0	0	0	0	0	1	880	1074	38	1		1	ARHGAP31	3	119121048	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	13548771	119121048	78901382	39	34784										
DTX3L	151636	broad.mit.edu	37	chr3	122287849	122287849	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ttcagaagaacacagaacctCtgaagcaagaatgtgtctct	8	9	3	5			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr3:122287849C>T	uc003efk.2	+	3	1002	c.913C>T	c.(913-915)CTG>TTG	p.L305L	DTX3L_uc010hrj.2_Intron	NM_138287	NP_612144	Q8TDB6	DTX3L_HUMAN	deltex 3-like	305					histone monoubiquitination|response to DNA damage stimulus	cytoplasm|nucleus	histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)	4				GBM - Glioblastoma multiforme(114;0.0459)		CACAGAACCTCTGAAGCAAGA	0.403													19	121	---	---	---	---	PASS	T	122287849	T	T	122287849	2	4	92	1	0	0	0	0	0	0	0	1	4796	912	32	2		2	DTX3L	3	122287849	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	3166801	122287849	75734581	40	34785										
GRK7	131890	broad.mit.edu	37	chr3	141535632	141535632	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gcctggaagctggcctaattGaacccccatttgtgccagac	10	13	0	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr3:141535632G>A	uc011bnd.1	+	4	1486	c.1402G>A	c.(1402-1404)GAA>AAA	p.E468K		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	468	AGC-kinase C-terminal.				visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						TGGCCTAATTGAACCCCCATT	0.443													45	176	---	---	---	---	PASS	A	141535632	A	A	141535632	3	1	92	1	0	0	0	0	1	0	0	0	6794	1291	45	2	1416	2	GRK7	3	141535632	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	19247783	141535632	56486798	41	34786										
GRK7	131890	broad.mit.edu	37	chr3	141535701	141535701	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctgaaattgatgatttctctGaggttcggggggtggaattt	14	4	1	4			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr3:141535701G>C	uc011bnd.1	+	4	1555	c.1471G>C	c.(1471-1473)GAG>CAG	p.E491Q		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	491	AGC-kinase C-terminal.				visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						TGATTTCTCTGAGGTTCGGGG	0.448													69	231	---	---	---	---	PASS	C	141535701	C	C	141535701	3	2	92	1	0	0	0	0	1	0	0	0	6794	1291	45	2	1485	2	GRK7	3	141535701	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	69	141535701	56486729	42	34787										
ZIC4	84107	broad.mit.edu	37	chr3	147114108	147114108	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ggcgggaagggctccggccgCgcgtacatgtctccagggag	18	12	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr3:147114108C>T	uc003ewd.1	-	3	492	c.219G>A	c.(217-219)GCG>GCA	p.A73A	ZIC4_uc003ewc.1_Silent_p.A3A|ZIC4_uc011bno.1_Silent_p.A123A	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	73						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						GCTCCGGCCGCGCGTACATGT	0.716													4	15	---	---	---	---	PASS	T	147114108	T	T	147114108	2	4	92	1	0	0	0	0	0	0	0	1	17678	755	27	1		1	ZIC4	3	147114108	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	5578407	147114108	50908322	43	34788										
ABCF3	55324	broad.mit.edu	37	chr3	183907053	183907053	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tttttcataggccagatcttCtgctgttagatggtgagttt	10	6	3	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr3:183907053C>T	uc003fmz.2	+	11	1178	c.1045C>T	c.(1045-1047)CTG>TTG	p.L349L	ABCF3_uc003fna.2_Silent_p.L343L|ABCF3_uc003fnb.2_Silent_p.L30L	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	349	ABC transporter 1.						ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCCAGATCTTCTGCTGTTAGA	0.483													21	103	---	---	---	---	PASS	T	183907053	T	T	183907053	2	4	92	1	0	0	0	0	0	0	0	1	67	912	32	2		2	ABCF3	3	183907053	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	36792945	183907053	14115377	44	34789										
EIF4G1	1981	broad.mit.edu	37	chr3	184038429	184038429	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tttccccagatccgaattcgAgatccaaaccaaggaggaaa	8	11	0	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr3:184038429A>T	uc003fnp.2	+	8	747	c.549A>T	c.(547-549)CGA>CGT	p.R183R	EIF4G1_uc003fno.1_Silent_p.R124R|EIF4G1_uc010hxw.1_Silent_p.R19R|EIF4G1_uc003fnt.2_5'UTR|EIF4G1_uc003fnq.2_Silent_p.R96R|EIF4G1_uc003fnr.2_Silent_p.R19R|EIF4G1_uc010hxx.2_Silent_p.R190R|EIF4G1_uc003fns.2_Silent_p.R143R|EIF4G1_uc010hxy.2_Silent_p.R190R|EIF4G1_uc010hxz.1_Silent_p.R96R|EIF4G1_uc003fnv.3_Silent_p.R183R|EIF4G1_uc003fnu.3_Silent_p.R183R|EIF4G1_uc003fnw.2_Silent_p.R190R|EIF4G1_uc003fnx.2_5'UTR|EIF4G1_uc003fny.3_5'UTR	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	183	PABPC1-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCCGAATTCGAGATCCAAACC	0.552													33	147	---	---	---	---	PASS	T	184038429	T	T	184038429	2	4	92	1	0	0	0	0	0	0	0	1	5036	291	11	5		5	EIF4G1	3	184038429	Silent	SNP	A	TCGA-39-5035-01A-01D-1441-08	131376	184038429	13984001	45	34790										
HTT	3064	broad.mit.edu	37	chr4	3133031	3133031	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	agccttgccgcatcaaaggtGacattggacagtccactgat	10	11	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr4:3133031G>T	uc011bvq.1	+	16	2156	c.2011G>T	c.(2011-2013)GAC>TAC	p.D671Y		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	669					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		CATCAAAGGTGACATTGGACA	0.378													3	52	---	---	---	---	PASS	T	3133031	T	T	3133031	3	4	92	1	0	0	0	0	1	0	0	0	7457	1290	45	2	2063	2	HTT	4	3133031	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08		3133031	188021245	46	34791										
KDR	3791	broad.mit.edu	37	chr4	55955889	55955889	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atttcccacagcaaaacaccAaaagaccagacgtcactctg	5	14	2	2	rs150647161		TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr4:55955889A>G	uc003has.2	-	24	3575	c.3273T>C	c.(3271-3273)TTT>TTC	p.F1091F	KDR_uc003hat.1_Silent_p.F1091F	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	1091	Protein kinase.|Cytoplasmic (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)	GCAAAACACCAAAAGACCAGA	0.438			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			67	109	---	---	---	---	PASS	G	55955889	G	G	55955889	2	3	92	1	0	0	0	0	0	0	0	1	8139	127	5	5		5	KDR	4	55955889	Silent	SNP	A	TCGA-39-5035-01A-01D-1441-08	52822858	55955889	135198387	47	34792										
FRAS1	80144	broad.mit.edu	37	chr4	79437159	79437159	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gtgggggctctgtaaccgctGacttccaggtaggtgccccg	15	12	1	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr4:79437159G>A	uc003hlb.2	+	66	10821	c.10381G>A	c.(10381-10383)GAC>AAC	p.D3461N		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	3456	Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TGTAACCGCTGACTTCCAGGT	0.512													8	8	---	---	---	---	PASS	A	79437159	A	A	79437159	3	1	92	1	0	0	0	0	1	0	0	0	6042	1290	45	2	10718	2	FRAS1	4	79437159	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	23481270	79437159	111717117	48	34793										
ZNF827	152485	broad.mit.edu	37	chr4	146807209	146807209	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gcttctgtcctcaggaagtgCtgatggcaacgcatgtggag	14	9	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr4:146807209C>A	uc003ikn.2	-	4	1416	c.1368G>T	c.(1366-1368)CAG>CAT	p.Q456H	ZNF827_uc003ikm.2_Missense_Mutation_p.Q456H|ZNF827_uc010iox.2_Missense_Mutation_p.Q106H	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	456					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					TCAGGAAGTGCTGATGGCAAC	0.562													9	47	---	---	---	---	PASS	A	146807209	A	A	146807209	3	1	92	1	0	0	0	0	1	0	0	0	18177	796	28	3	1905	3	ZNF827	4	146807209	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	67370050	146807209	44347067	49	34794										
C7	730	broad.mit.edu	37	chr5	40981503	40981503	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tacttttccagctgagagcaGcaaatgtgtctgccgagaag	11	9	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr5:40981503G>T	uc003jmh.2	+	18	2474	c.2360G>T	c.(2359-2361)AGC>ATC	p.S787I		NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	787	Complement control factor I module 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				GCTGAGAGCAGCAAATGTGTC	0.488													4	35	---	---	---	---	PASS	T	40981503	T	T	40981503	3	4	92	1	0	0	0	0	1	0	0	0	2375	971	34	3	2430	3	C7	5	40981503	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08		40981503	139933757	50	34795										
HEATR7B2	133558	broad.mit.edu	37	chr5	40998193	40998193	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tctttacaccttctcaggagGgtttgcaaagcagcctcagc	9	12	3	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr5:40998193G>A	uc003jmj.3	-	42	5209	c.4719C>T	c.(4717-4719)ACC>ACT	p.T1573T	HEATR7B2_uc003jmi.3_Silent_p.T1128T	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1573							binding			ovary(6)|central_nervous_system(2)	8						TTCTCAGGAGGGTTTGCAAAG	0.448													257	181	---	---	---	---	PASS	A	40998193	A	A	40998193	2	1	92	1	0	0	0	0	0	0	0	1	7035	1219	43	3		3	HEATR7B2	5	40998193	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	16690	40998193	139917067	51	34796										
PARP8	79668	broad.mit.edu	37	chr5	50128660	50128660	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	agccaaggacgagccagcttCaagcagtaaaagcagcaata	10	10	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr5:50128660C>T	uc003jon.3	+	24	2461	c.2279C>T	c.(2278-2280)TCA>TTA	p.S760L	PARP8_uc011cpz.1_Missense_Mutation_p.S652L|PARP8_uc003joo.2_Missense_Mutation_p.S760L|PARP8_uc003jop.2_Missense_Mutation_p.S718L	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	760	PARP catalytic.					intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				GAGCCAGCTTCAAGCAGTAAA	0.438													19	40	---	---	---	---	PASS	T	50128660	T	T	50128660	3	4	92	1	0	0	0	0	1	0	0	0	11465	838	29	2	2369	2	PARP8	5	50128660	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	9130467	50128660	130786600	52	34797										
ZFYVE16	9765	broad.mit.edu	37	chr5	79752839	79752839	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tcagtacagaagcagattctCatctagtctgtatacagaat	7	8	4	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr5:79752839C>T	uc003kgr.3	+	14	4173	c.3871C>T	c.(3871-3873)CAT>TAT	p.H1291Y	ZFYVE16_uc003kgq.3_Missense_Mutation_p.H1291Y|ZFYVE16_uc003kgs.3_Missense_Mutation_p.H1291Y|ZFYVE16_uc003kgt.3_Missense_Mutation_p.H379Y|ZFYVE16_uc003kgu.3_Missense_Mutation_p.H43Y	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	1291					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		AGCAGATTCTCATCTAGTCTG	0.383													38	51	---	---	---	---	PASS	T	79752839	T	T	79752839	3	4	92	1	0	0	0	0	1	0	0	0	17661	826	29	2	3917	2	ZFYVE16	5	79752839	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	29624179	79752839	101162421	53	34798										
GPR98	84059	broad.mit.edu	37	chr5	90449047	90449047	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aatctaaaaaggtgccacctGactgggagagagcatccttc	10	10	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr5:90449047G>A	uc003kju.2	+	89	18730	c.18634G>A	c.(18634-18636)GAC>AAC	p.D6212N	GPR98_uc003kjt.2_Missense_Mutation_p.D3918N|GPR98_uc003kjw.2_Missense_Mutation_p.D1873N|GPR98_uc003kjx.2_Missense_Mutation_p.D240N	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	6212	Cytoplasmic (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GGTGCCACCTGACTGGGAGAG	0.478													7	10	---	---	---	---	PASS	A	90449047	A	A	90449047	3	1	92	1	0	0	0	0	1	0	0	0	6721	1290	45	2	18988	2	GPR98	5	90449047	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	10696208	90449047	90466213	54	34799										
ANKRD32	84250	broad.mit.edu	37	chr5	94022307	94022307	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cacaggaattagagattttcAtttgctccttttcctcctcc	5	12	1	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr5:94022307A>G	uc003kkr.3	+	16	2085	c.2005A>G	c.(2005-2007)ATT>GTT	p.I669V	ANKRD32_uc003kks.2_Missense_Mutation_p.I33V	NM_032290	NP_115666	Q9BQI6	ANR32_HUMAN	ankyrin repeat domain 32	669										ovary(2)	2		all_cancers(142;1.51e-09)|all_epithelial(76;4.68e-12)|all_lung(232;5.94e-05)|Ovarian(174;0.000953)|Lung NSC(167;0.00105)|Colorectal(57;0.122)|Lung SC(612;0.152)		all cancers(79;3.88e-18)		AGAGATTTTCATTTGCTCCTT	0.378													52	213	---	---	---	---	PASS	G	94022307	G	G	94022307	3	3	92	1	0	0	0	0	1	0	0	0	660	217	8	5	2063	5	ANKRD32	5	94022307	Missense_Mutation	SNP	A	TCGA-39-5035-01A-01D-1441-08	3573260	94022307	86892953	55	34800										
PCDHA1	56147	broad.mit.edu	37	chr5	140168014	140168014	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gtgtccagcctgctggtgctCacactgctgctgtacacggc	12	14	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr5:140168014C>G	uc003lhb.2	+	1	2139	c.2139C>G	c.(2137-2139)CTC>CTG	p.L713L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Silent_p.L713L	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	713	Helical; (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTGGTGCTCACACTGCTGC	0.682													14	52	---	---	---	---	PASS	G	140168014	G	G	140168014	2	3	92	1	0	0	0	0	0	0	0	1	11519	813	29	2		2	PCDHA1	5	140168014	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	46145707	140168014	40747246	56	34801										
PCDHB14	56122	broad.mit.edu	37	chr5	140604601	140604601	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tccttggtctccatcaacgcGgacaatggccacctgtttgc	9	14	2	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr5:140604601G>C	uc003ljb.2	+	1	1524	c.1524G>C	c.(1522-1524)GCG>GCC	p.A508A	PCDHB14_uc011dal.1_Silent_p.A355A	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	508	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCATCAACGCGGACAATGGCC	0.657													20	126	---	---	---	---	PASS	C	140604601	C	C	140604601	2	2	92	1	0	0	0	0	0	0	0	1	11539	1103	39	4		4	PCDHB14	5	140604601	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	436587	140604601	40310659	57	34802										
CDHR2	54825	broad.mit.edu	37	chr5	176003183	176003183	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atggtggtctacgacccggaCaaggcaggcgtggtggcgtg	18	9	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr5:176003183C>T	uc003mem.1	+	12	1257	c.1191C>T	c.(1189-1191)GAC>GAT	p.D397D	CDHR2_uc003men.1_Silent_p.D397D	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	397	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						ACGACCCGGACAAGGCAGGCG	0.672													13	56	---	---	---	---	PASS	T	176003183	T	T	176003183	2	4	92	1	0	0	0	0	0	0	0	1	3119	477	17	3		3	CDHR2	5	176003183	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	35398582	176003183	4912077	58	34803										
ZNF454	285676	broad.mit.edu	37	chr5	178392301	178392301	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aatacatactggagagaaacCttttaaatgtaacatttgtg	7	5	0	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr5:178392301C>A	uc003mjo.1	+	5	1167	c.896C>A	c.(895-897)CCT>CAT	p.P299H	ZNF454_uc010jkz.1_Missense_Mutation_p.P299H	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	299					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)		GGAGAGAAACCTTTTAAATGT	0.383													31	50	---	---	---	---	PASS	A	178392301	A	A	178392301	3	1	92	1	0	0	0	0	1	0	0	0	17920	681	24	3	910	3	ZNF454	5	178392301	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	2389118	178392301	2522959	59	34804										
DSP	1832	broad.mit.edu	37	chr6	7571678	7571678	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gaccttgagttacattaccaAgagttcatcagaaatagcca	7	9	2	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:7571678A>G	uc003mxp.1	+	14	2043	c.1764A>G	c.(1762-1764)CAA>CAG	p.Q588Q	DSP_uc003mxq.1_Silent_p.Q588Q	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	588	Globular 1.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TACATTACCAAGAGTTCATCA	0.448													90	143	---	---	---	---	PASS	G	7571678	G	G	7571678	2	3	92	1	0	0	0	0	0	0	0	1	4781	69	3	5		5	DSP	6	7571678	Silent	SNP	A	TCGA-39-5035-01A-01D-1441-08		7571678	163543389	60	34805										
HIST1H1E	3008	broad.mit.edu	37	chr6	26156778	26156778	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctgttgccgcctccaaggagCgcagcggcgtatctttggcc	13	14	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:26156778C>T	uc003ngq.2	+	1	220	c.160C>T	c.(160-162)CGC>TGC	p.R54C	HIST1H2BD_uc003ngr.2_5'Flank|HIST1H2BD_uc003ngs.2_5'Flank	NM_005321	NP_005312	P10412	H14_HUMAN	histone cluster 1, H1e	54	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			large_intestine(1)|ovary(1)	2						CTCCAAGGAGCGCAGCGGCGT	0.607													6	35	---	---	---	---	PASS	T	26156778	T	T	26156778	3	4	92	1	0	0	0	0	1	0	0	0	7126	768	27	1	162	1	HIST1H1E	6	26156778	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	18585100	26156778	144958289	61	34806										
HLA-G	3135	broad.mit.edu	37	chr6	29797255	29797255	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctatgaggccaccctgaggtGctgggccctgggcttctacc	13	14	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:29797255G>C	uc003nnw.2	+	5	858	c.680G>C	c.(679-681)TGC>TCC	p.C227S	HLA-G_uc011dmb.1_Missense_Mutation_p.C199S|HLA-G_uc003raj.3_Missense_Mutation_p.C232S|HLA-G_uc003nnz.3_Missense_Mutation_p.C135S|HLA-G_uc010jrn.2_Intron|HLA-G_uc003nny.3_RNA|HLA-G_uc003ran.1_5'Flank	NM_002127	NP_002118	P17693	HLAG_HUMAN	major histocompatibility complex, class I, G	227	Extracellular (Potential).|Ig-like C1-type.|Alpha-3.				antigen processing and presentation of peptide antigen via MHC class I|cellular defense response|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			ovary(3)|central_nervous_system(1)	4						ACCCTGAGGTGCTGGGCCCTG	0.592													11	184	---	---	---	---	PASS	C	29797255	C	C	29797255	3	2	92	1	0	0	0	0	1	0	0	0	7212	1319	46	4	694	4	HLA-G	6	29797255	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	3640477	29797255	141317812	62	34807										
DNAH8	1769	broad.mit.edu	37	chr6	38743618	38743618	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tattatggcaataaaattcaGaaatatataccaaggggtta	7	4	1	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:38743618G>T	uc003ooe.1	+	11	1802	c.1202G>T	c.(1201-1203)AGA>ATA	p.R401I		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ATAAAATTCAGAAATATATAC	0.299													23	135	---	---	---	---	PASS	T	38743618	T	T	38743618	3	4	92	1	0	0	0	0	1	0	0	0	4607	942	33	2	1236	2	DNAH8	6	38743618	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	8946363	38743618	132371449	63	34808										
TAF8	129685	broad.mit.edu	37	chr6	42044885	42044885	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	acctctgtcctgcagcagaaCccctccttgtcgggtagccg	10	16	1	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:42044885C>A	uc003ors.2	+	8	857	c.828C>A	c.(826-828)AAC>AAA	p.N276K	TAF8_uc003ort.2_Missense_Mutation_p.T317N|TAF8_uc003oru.1_Missense_Mutation_p.T317N|TAF8_uc003orv.1_Missense_Mutation_p.N276K|TAF8_uc011dun.1_Missense_Mutation_p.N200K	NM_138572	NP_612639	Q7Z7C8	TAF8_HUMAN	TBP-associated factor 8	276					cell differentiation|maintenance of protein location in nucleus|positive regulation of transcription, DNA-dependent|regulation of fat cell differentiation|transcription, DNA-dependent	perinuclear region of cytoplasm|transcription factor TFIID complex	DNA binding|protein binding			ovary(1)	1	Colorectal(47;0.196)		STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|Epithelial(12;0.00179)			TGCAGCAGAACCCCTCCTTGT	0.507													14	132	---	---	---	---	PASS	A	42044885	A	A	42044885	3	1	92	1	0	0	0	0	1	0	0	0	15531	506	18	3	858	3	TAF8	6	42044885	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	3301267	42044885	129070182	64	34809										
YIPF3	25844	broad.mit.edu	37	chr6	43480208	43480208	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tttgtggtaggcaaaatgcaGatagagcaggaagagcatgt	14	4	0	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:43480208G>A	uc003ovl.1	-	8	1031	c.874C>T	c.(874-876)CTG>TTG	p.L292L	C6orf154_uc003ovk.1_5'Flank|YIPF3_uc011dvk.1_Silent_p.L257L|YIPF3_uc010jyr.1_Silent_p.L298L|YIPF3_uc010jys.1_Silent_p.L135L|YIPF3_uc003ovm.1_Silent_p.L166L|YIPF3_uc010jyt.1_Silent_p.L203L	NM_015388	NP_056203	Q9GZM5	YIPF3_HUMAN	natural killer cell-specific antigen KLIP1	292	Helical; (Potential).				cell differentiation	integral to membrane|plasma membrane|transport vesicle					0	all_cancers(18;3.79e-05)|Lung NSC(15;0.00217)|all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00736)|OV - Ovarian serous cystadenocarcinoma(102;0.0711)			GCAAAATGCAGATAGAGCAGG	0.567													11	67	---	---	---	---	PASS	A	43480208	A	A	43480208	2	1	92	1	0	0	0	0	0	0	0	1	17476	933	33	2		2	YIPF3	6	43480208	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	1435323	43480208	127634859	65	34810										
PKHD1	5314	broad.mit.edu	37	chr6	51524604	51524604	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ttggcatttacactgctaaaGacatcaacaaaaccactagt	5	10	1	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:51524604G>C	uc003pah.1	-	61	10596	c.10320C>G	c.(10318-10320)GTC>GTG	p.V3440V		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3440	Extracellular (Potential).		V -> D.		cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CACTGCTAAAGACATCAACAA	0.413													43	77	---	---	---	---	PASS	C	51524604	C	C	51524604	2	2	92	1	0	0	0	0	0	0	0	1	11971	929	33	2		2	PKHD1	6	51524604	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	8044396	51524604	119590463	66	34811										
BMP5	653	broad.mit.edu	37	chr6	55739436	55739436	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tccagcataaagagaggtgcAgaggacgcttgttttccagg	13	8	0	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:55739436A>C	uc003pcq.2	-	1	940	c.228T>G	c.(226-228)TCT>TCG	p.S76S	BMP5_uc011dxf.1_Silent_p.S76S	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	76					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			AGAGAGGTGCAGAGGACGCTT	0.468													27	134	---	---	---	---	PASS	C	55739436	C	C	55739436	2	2	92	1	0	0	0	0	0	0	0	1	1463	175	7	5		5	BMP5	6	55739436	Silent	SNP	A	TCGA-39-5035-01A-01D-1441-08	4214832	55739436	115375631	67	34812										
EYA4	2070	broad.mit.edu	37	chr6	133833901	133833901	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atgatgtttcctctgatgatAatgggcaggacttaaggtaa	11	5	1	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:133833901A>G	uc003qec.3	+	15	1782	c.1324A>G	c.(1324-1326)AAT>GAT	p.N442D	EYA4_uc011ecq.1_Missense_Mutation_p.N388D|EYA4_uc011ecr.1_Missense_Mutation_p.N394D|EYA4_uc003qed.3_Missense_Mutation_p.N442D|EYA4_uc003qee.3_Missense_Mutation_p.N419D|EYA4_uc011ecs.1_Missense_Mutation_p.N448D|uc003qeg.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	442					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		CTCTGATGATAATGGGCAGGA	0.343													82	133	---	---	---	---	PASS	G	133833901	G	G	133833901	3	3	92	1	0	0	0	0	1	0	0	0	5331	362	13	5	1378	5	EYA4	6	133833901	Missense_Mutation	SNP	A	TCGA-39-5035-01A-01D-1441-08	78094465	133833901	37281166	68	34813										
TNFAIP3	7128	broad.mit.edu	37	chr6	138192646	138192646	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gaagtccggaagcttgtggcGctgaaaacgaacggtaagac	14	8	0	2	rs142122102	by1000genomes	TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:138192646G>C	uc003qhr.2	+	2	348	c.282G>C	c.(280-282)GCG>GCC	p.A94A	TNFAIP3_uc003qhs.2_Silent_p.A94A	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	94	TRAF-binding.|OTU.				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		AGCTTGTGGCGCTGAAAACGA	0.507			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								37	102	---	---	---	---	PASS	C	138192646	C	C	138192646	2	2	92	1	0	0	0	0	0	0	0	1	16271	1074	38	4		4	TNFAIP3	6	138192646	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	4358745	138192646	32922421	69	34814										
TMEM181	57583	broad.mit.edu	37	chr6	159046221	159046221	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gcgggcgtgttccgagctacGtcacatgccttatgtgggta	14	10	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:159046221G>A	uc003qrm.3	+	12	1462	c.1451G>A	c.(1450-1452)CGT>CAT	p.R484H	TMEM181_uc010kjr.1_Missense_Mutation_p.R315H	NM_020823	NP_065874	Q9P2C4	TM181_HUMAN	G protein-coupled receptor 178	484					pathogenesis	integral to membrane	toxin binding			ovary(2)|central_nervous_system(1)	3		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;8.15e-18)|BRCA - Breast invasive adenocarcinoma(81;1.38e-05)		TCCGAGCTACGTCACATGCCT	0.542													47	150	---	---	---	---	PASS	A	159046221	A	A	159046221	3	1	92	1	0	0	0	0	1	0	0	0	16097	1145	40	1	1497	1	TMEM181	6	159046221	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	20853575	159046221	12068846	70	34815										
MLLT4	4301	broad.mit.edu	37	chr6	168317906	168317906	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gcacctgatgagccttttatCccaacggtgagtggatgttg	12	9	0	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:168317906C>T	uc003qwd.2	+	19	2821	c.2679C>T	c.(2677-2679)ATC>ATT	p.I893I	MLLT4_uc003qwb.1_Silent_p.I878I|MLLT4_uc003qwc.1_Silent_p.I894I|MLLT4_uc003qwg.1_Silent_p.I203I	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	894	Dilute.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		AGCCTTTTATCCCAACGGTGA	0.388			T	MLL	AL								66	125	---	---	---	---	PASS	T	168317906	T	T	168317906	2	4	92	1	0	0	0	0	0	0	0	1	9629	845	30	2		2	MLLT4	6	168317906	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	9271685	168317906	2797161	71	34816										
THBS2	7058	broad.mit.edu	37	chr6	169637755	169637755	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tgctcagactgcaagcccgtGtctggatggagggccccaag	14	12	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr6:169637755G>T	uc003qwt.2	-	9	1513	c.1265C>A	c.(1264-1266)ACA>AAA	p.T422K		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	422	TSP type-1 1.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		GCAAGCCCGTGTCTGGATGGA	0.652													10	67	---	---	---	---	PASS	T	169637755	T	T	169637755	3	4	92	1	0	0	0	0	1	0	0	0	15851	1377	48	3	2313	3	THBS2	6	169637755	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	1319849	169637755	1477312	72	34817										
KIAA0415	9907	broad.mit.edu	37	chr7	4823974	4823974	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gcgtggctgctgcacagcggCcccgagggcccgggcaccct	16	17	0	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr7:4823974C>G	uc003sne.2	+	6	845	c.762C>G	c.(760-762)GGC>GGG	p.G254G	KIAA0415_uc010ksp.2_RNA	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	254					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		TGCACAGCGGCCCCGAGGGCC	0.682													4	4	---	---	---	---	PASS	G	4823974	G	G	4823974	2	3	92	1	0	0	0	0	0	0	0	1	8175	726	26	4		4	KIAA0415	7	4823974	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08		4823974	154314689	73	34818										
PDK4	5166	broad.mit.edu	37	chr7	95216387	95216387	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gagattcagatctccttgaaAgtactttgcatacagacgag	9	8	2	4			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr7:95216387A>G	uc003uoa.2	-	10	1350	c.1030T>C	c.(1030-1032)TTT>CTT	p.F344L	PDK4_uc003unz.2_Missense_Mutation_p.F132L	NM_002612	NP_002603	Q16654	PDK4_HUMAN	pyruvate dehydrogenase kinase 4 precursor	344	Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity				0	all_cancers(62;1.06e-10)|all_epithelial(64;1.04e-09)|Lung NSC(181;0.128)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0151)			TCTCCTTGAAAGTACTTTGCA	0.378													3	44	---	---	---	---	PASS	G	95216387	G	G	95216387	3	3	92	1	0	0	0	0	1	0	0	0	11678	72	3	5	213	5	PDK4	7	95216387	Missense_Mutation	SNP	A	TCGA-39-5035-01A-01D-1441-08	90392413	95216387	63922276	74	34819										
ATXN7L1	222255	broad.mit.edu	37	chr7	105516995	105516995	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	acacgggattcgagaacgctCcgacgtcatcttcggaacgt	11	12	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr7:105516995C>T	uc003vde.2	-	1	37	c.10G>A	c.(10-12)GAG>AAG	p.E4K	ATXN7L1_uc003vdi.2_Missense_Mutation_p.E4K|CDHR3_uc003vdk.2_5'Flank|uc003vdj.1_5'Flank	NM_020725	NP_065776	Q9ULK2	AT7L1_HUMAN	ataxin 7-like 1 isoform 1	4											0						CGAGAACGCTCCGACGTCATC	0.388													12	42	---	---	---	---	PASS	T	105516995	T	T	105516995	3	4	92	1	0	0	0	0	1	0	0	0	1216	864	30	2	2716	2	ATXN7L1	7	105516995	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	10300608	105516995	53621668	75	34820										
SLC26A3	1811	broad.mit.edu	37	chr7	107427307	107427307	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ccaaccacagccactttaaaCctgtttttaaagtcacagcc	4	14	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr7:107427307C>G	uc003ver.2	-	8	1147	c.936G>C	c.(934-936)AGG>AGC	p.R312S	SLC26A3_uc003ves.2_Missense_Mutation_p.R277S	NM_000111	NP_000102	P40879	S26A3_HUMAN	solute carrier family 26, member 3	312					excretion	integral to membrane|membrane fraction	inorganic anion exchanger activity|secondary active sulfate transmembrane transporter activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(3)|skin(1)	4						CCACTTTAAACCTGTTTTTAA	0.463													19	82	---	---	---	---	PASS	G	107427307	G	G	107427307	3	3	92	1	0	0	0	0	1	0	0	0	14518	506	18	4	1414	4	SLC26A3	7	107427307	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	1910312	107427307	51711356	76	34821										
CTTNBP2	83992	broad.mit.edu	37	chr7	117386086	117386086	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ccttcaggcagagtgcaagcTgatgtactatgtagtcttgc	11	9	2	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr7:117386086T>G	uc003vjf.2	-	13	3508	c.3416A>C	c.(3415-3417)CAG>CCG	p.Q1139P		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	1139										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GAGTGCAAGCTGATGTACTAT	0.393													60	106	---	---	---	---	PASS	G	117386086	G	G	117386086	3	3	92	1	0	0	0	0	1	0	0	0	4045	1580	55	5	1619	5	CTTNBP2	7	117386086	Missense_Mutation	SNP	T	TCGA-39-5035-01A-01D-1441-08	9958779	117386086	41752577	77	34822										
GSR	2936	broad.mit.edu	37	chr8	30546779	30546779	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	catgactggtagcctaccggGaactgcagtaaccatgctga	11	11	0	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr8:30546779G>A	uc003xih.1	-	9	1031	c.940C>T	c.(940-942)CCC>TCC	p.P314S		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	314					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)	AGCCTACCGGGAACTGCAGTA	0.488													22	80	---	---	---	---	PASS	A	30546779	A	A	30546779	3	1	92	1	0	0	0	0	1	0	0	0	6828	1174	41	2	648	2	GSR	8	30546779	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08		30546779	115817243	78	34823										
COL14A1	7373	broad.mit.edu	37	chr8	121237336	121237336	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ttctttgacaggttgaagtcGatcctattactaccttccct	6	11	1	2	rs139519867		TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr8:121237336G>T	uc003yox.2	+	15	2012	c.1747G>T	c.(1747-1749)GAT>TAT	p.D583Y	COL14A1_uc003yoy.2_Missense_Mutation_p.D261Y	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	583	Fibronectin type-III 4.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			GGTTGAAGTCGATCCTATTAC	0.393													37	126	---	---	---	---	PASS	T	121237336	T	T	121237336	3	4	92	1	0	0	0	0	1	0	0	0	3671	1058	37	2	1801	2	COL14A1	8	121237336	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	90690557	121237336	25126686	79	34824										
SLA	6503	broad.mit.edu	37	chr8	134060111	134060111	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctctctgatcatgaaggagcCgacctttgtgtctggcagct	11	11	3	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr8:134060111C>G	uc003ytz.2	-	6	1148	c.316G>C	c.(316-318)GGC>CGC	p.G106R	TG_uc003ytw.2_Intron|TG_uc010mdw.2_Intron|TG_uc011ljb.1_Intron|TG_uc011ljc.1_Intron|SLA_uc011lje.1_Missense_Mutation_p.G123R|SLA_uc011ljf.1_5'UTR|SLA_uc011ljg.1_Missense_Mutation_p.G123R|SLA_uc010mdy.1_Missense_Mutation_p.G106R|SLA_uc011ljd.1_Missense_Mutation_p.G146R	NM_001045556	NP_001039021	Q13239	SLAP1_HUMAN	Src-like-adaptor isoform a	106	SH2.					endosome	SH3/SH2 adaptor activity			lung(1)|liver(1)	2	all_epithelial(106;3.51e-21)|Lung NSC(106;4.24e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0279)|Breast(495;0.037)	BRCA - Breast invasive adenocarcinoma(115;0.000701)			ATGAAGGAGCCGACCTTTGTG	0.577													4	74	---	---	---	---	PASS	G	134060111	G	G	134060111	3	3	92	1	0	0	0	0	1	0	0	0	14363	652	23	4	530	4	SLA	8	134060111	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	12822775	134060111	12303911	80	34825										
PLEC	5339	broad.mit.edu	37	chr8	145006636	145006636	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gtcgaagcccacctcctcctCctccttctcattcagccaca	4	20	2	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr8:145006636C>A	uc003zaf.1	-	16	2490	c.2320G>T	c.(2320-2322)GAG>TAG	p.E774*	PLEC_uc003zab.1_Nonsense_Mutation_p.E637*|PLEC_uc003zac.1_Nonsense_Mutation_p.E641*|PLEC_uc003zad.2_Nonsense_Mutation_p.E637*|PLEC_uc003zae.1_Nonsense_Mutation_p.E605*|PLEC_uc003zag.1_Nonsense_Mutation_p.E615*|PLEC_uc003zah.2_Nonsense_Mutation_p.E623*|PLEC_uc003zaj.2_Nonsense_Mutation_p.E664*	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	774	Spectrin 2.|Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						ACCTCCTCCTCCTCCTTCTCA	0.617													24	71	---	---	---	---	PASS	A	145006636	A	A	145006636	4	1	92	1	0	0	0	0	0	1	0	0	12052	864	30	2	11802	2	PLEC	8	145006636	Nonsense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	10946525	145006636	1357386	81	34826										
CEP78	84131	broad.mit.edu	37	chr9	80879233	80879233	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gatctccttaaagatgctggGttagttactttctccctatg	8	9	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr9:80879233G>A	uc004akx.2	+	13	1901	c.1625_splice	c.e13+1	p.G542_splice	CEP78_uc004aky.3_Splice_Site_p.G543_splice|CEP78_uc010mpp.2_Splice_Site_p.G543_splice|CEP78_uc004akz.1_Splice_Site_p.G30_splice	NM_032171	NP_115547	Q5JTW2	CEP78_HUMAN	centrosomal protein 78kDa isoform b						G2/M transition of mitotic cell cycle	centrosome|cytosol				ovary(1)	1						AAGATGCTGGGTTAGTTACTT	0.378													16	35	---	---	---	---	PASS	A	80879233	A	A	80879233	5	1	92	1	0	0	0	0	0	0	1	0	3262	1275	44	3	1679	3	CEP78	9	80879233	Splice_Site	SNP	G	TCGA-39-5035-01A-01D-1441-08		80879233	60334198	82	34827										
SFMBT2	57713	broad.mit.edu	37	chr10	7409714	7409714	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tcggccctgcggtcctccccGtaaccgcagtagcgcagaag	12	16	0	1	rs113302721		TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:7409714G>A	uc009xio.1	-	4	424	c.333C>T	c.(331-333)TAC>TAT	p.Y111Y	SFMBT2_uc001ijn.1_Silent_p.Y111Y|SFMBT2_uc010qay.1_Silent_p.Y111Y|SFMBT2_uc001ijo.1_Silent_p.Y111Y	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	111	MBT 1.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GGTCCTCCCCGTAACCGCAGT	0.587													11	62	---	---	---	---	PASS	A	7409714	A	A	7409714	2	1	92	1	0	0	0	0	0	0	0	1	14158	1140	40	1		1	SFMBT2	10	7409714	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08		7409714	128125033	83	34828										
VIM	7431	broad.mit.edu	37	chr10	17278303	17278303	+	Silent	SNP	G	T	T													0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gtttatttagaaactaatctGgattcactccctctggttga							TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:17278303G>T	uc001iou.2	+	9	1697	c.1284G>T	c.(1282-1284)CTG>CTT	p.L428L	VIM_uc001iov.1_Intron|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Silent_p.L428L|VIM_uc001ioy.1_Silent_p.L341L|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Silent_p.L386L|VIM_uc001ipc.1_Intron	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	428	Tail.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						AAACTAATCTGGATTCACTCC	0.333													63	188	---	---	---	---	PASS	T	17278303	T	T	17278303	2	4	92	1	0	0	0	0	0	0	0	1	17163	1335	47	3		3	VIM	10	17278303	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	9868589	17278303	118256444	84	34829	662	2								
VIM	7431	broad.mit.edu	37	chr10	17278304	17278304	+	Missense_Mutation	SNP	G	T	T													0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tttatttagaaactaatctgGattcactccctctggttgat							TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:17278304G>T	uc001iou.2	+	9	1698	c.1285G>T	c.(1285-1287)GAT>TAT	p.D429Y	VIM_uc001iov.1_Intron|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.D429Y|VIM_uc001ioy.1_Missense_Mutation_p.D342Y|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.D387Y|VIM_uc001ipc.1_Intron	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	429	Tail.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						AACTAATCTGGATTCACTCCC	0.338													62	189	---	---	---	---	PASS	T	17278304	T	T	17278304	3	4	92	1	0	0	0	0	1	0	0	0	17163	1174	41	2	1315	2	VIM	10	17278304	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	1	17278304	118256443	85	34830	662	2								
PTPLA	9200	broad.mit.edu	37	chr10	17645632	17645632	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ggaccccagtcacaatcacaGaagtaggtacaattccttaa	7	11	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:17645632G>A	uc001ipg.2	-	4	445	c.410C>T	c.(409-411)TCT>TTT	p.S137F	PTPLA_uc001iph.1_3'UTR	NM_014241	NP_055056	B0YJ81	HACD1_HUMAN	protein tyrosine phosphatase-like, member A	137	Cytoplasmic (Potential).				fatty acid biosynthetic process|multicellular organismal development|signal transduction	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein tyrosine phosphatase activity			central_nervous_system(1)|skin(1)	2						CACAATCACAGAAGTAGGTAC	0.333													16	86	---	---	---	---	PASS	A	17645632	A	A	17645632	3	1	92	1	0	0	0	0	1	0	0	0	12774	942	33	2	472	2	PTPLA	10	17645632	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	367328	17645632	117889115	86	34831										
MPP7	143098	broad.mit.edu	37	chr10	28348669	28348669	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ggcttcttcttgctctggtgGtatctatgatttaatgaaaa	9	6	4	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:28348669G>A	uc001iua.1	-	16	1612	c.1208C>T	c.(1207-1209)ACC>ATC	p.T403I	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Missense_Mutation_p.T403I|MPP7_uc009xla.2_Missense_Mutation_p.T403I|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	403	Guanylate kinase-like.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						TGCTCTGGTGGTATCTATGAT	0.338													34	64	---	---	---	---	PASS	A	28348669	A	A	28348669	3	1	92	1	0	0	0	0	1	0	0	0	9739	1261	44	3	538	3	MPP7	10	28348669	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	10703037	28348669	107186078	87	34832										
GDF2	2658	broad.mit.edu	37	chr10	48414384	48414384	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tcctttcaggtcatgagaggGgtccacgtgattttgacagg	13	8	2	3	rs139154868		TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:48414384G>T	uc001jfa.1	-	2	647	c.484C>A	c.(484-486)CCC>ACC	p.P162T		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	162					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						TCATGAGAGGGGTCCACGTGA	0.502													6	39	---	---	---	---	PASS	T	48414384	T	T	48414384	3	4	92	1	0	0	0	0	1	0	0	0	6314	1232	43	3	809	3	GDF2	10	48414384	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	20065715	48414384	87120363	88	34833										
PCDH15	65217	broad.mit.edu	37	chr10	55582652	55582652	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tttgtttgtacagattccagTgttttcattttcagctttct	6	7	3	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:55582652T>G	uc001jju.1	-	33	5229	c.4834A>C	c.(4834-4836)ACT>CCT	p.T1612P	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.T1609P|PCDH15_uc010qhw.1_Missense_Mutation_p.T1572P|PCDH15_uc010qhx.1_Missense_Mutation_p.T1543P|PCDH15_uc010qhy.1_Missense_Mutation_p.T1619P|PCDH15_uc010qhz.1_Missense_Mutation_p.T1614P|PCDH15_uc010qia.1_Missense_Mutation_p.T1592P|PCDH15_uc010qib.1_Missense_Mutation_p.T1589P	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1612	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CAGATTCCAGTGTTTTCATTT	0.438										HNSCC(58;0.16)			30	184	---	---	---	---	PASS	G	55582652	G	G	55582652	3	3	92	1	0	0	0	0	1	0	0	0	11511	1696	59	5	2643	5	PCDH15	10	55582652	Missense_Mutation	SNP	T	TCGA-39-5035-01A-01D-1441-08	7168268	55582652	79952095	89	34834										
HNRNPH3	3189	broad.mit.edu	37	chr10	70097753	70097753	+	Missense_Mutation	SNP	G	T	T													0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	caaggaaagaatagggcacaGgtggggatggagagtttggg							TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:70097753G>T	uc001jnw.3	+	3	480	c.251G>T	c.(250-252)AGG>ATG	p.R84M	HNRNPH3_uc001jnx.3_Missense_Mutation_p.R84M|HNRNPH3_uc009xpu.2_Translation_Start_Site|HNRNPH3_uc010qiv.1_Intron|HNRNPH3_uc001jny.3_Missense_Mutation_p.R35M	NM_012207	NP_036339	P31942	HNRH3_HUMAN	heterogeneous nuclear ribonucleoprotein H3	84	RRM 1.				nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|protein binding|RNA binding			ovary(2)	2						ATAGGGCACAGGTGGGGATGG	0.478													28	68	---	---	---	---	PASS	T	70097753	T	T	70097753	3	4	92	1	0	0	0	0	1	0	0	0	7268	1014	35	3	257	3	HNRNPH3	10	70097753	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	14515101	70097753	65436994	90	34835	663	2								
HNRNPH3	3189	broad.mit.edu	37	chr10	70097754	70097754	+	Splice_Site	SNP	G	T	T													0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aaggaaagaatagggcacagGtggggatggagagtttggga							TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:70097754G>T	uc001jnw.3	+	3	480	c.251_splice	c.e3+1	p.R84_splice	HNRNPH3_uc001jnx.3_Splice_Site_p.R84_splice|HNRNPH3_uc009xpu.2_5'UTR|HNRNPH3_uc010qiv.1_Intron|HNRNPH3_uc001jny.3_Splice_Site_p.R35_splice	NM_012207	NP_036339	P31942	HNRH3_HUMAN	heterogeneous nuclear ribonucleoprotein H3						nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|protein binding|RNA binding			ovary(2)	2						TAGGGCACAGGTGGGGATGGA	0.473													28	68	---	---	---	---	PASS	T	70097754	T	T	70097754	5	4	92	1	0	0	0	0	0	0	1	0	7268	1275	44	3	258	3	HNRNPH3	10	70097754	Splice_Site	SNP	G	TCGA-39-5035-01A-01D-1441-08	1	70097754	65436993	91	34836	663	2								
PPA1	5464	broad.mit.edu	37	chr10	71969329	71969329	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	attaccttatctttaaattcTgcattaaacgcaaactcatt	2	9	3	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:71969329T>A	uc001jqv.1	-	7	731	c.624A>T	c.(622-624)GCA>GCT	p.A208A		NM_021129	NP_066952	Q15181	IPYR_HUMAN	pyrophosphatase 1	208					diphosphate metabolic process|tRNA aminoacylation for protein translation	cytosol	inorganic diphosphatase activity|magnesium ion binding			breast(1)	1						CTTTAAATTCTGCATTAAACG	0.353													43	64	---	---	---	---	PASS	A	71969329	A	A	71969329	2	1	92	1	0	0	0	0	0	0	0	1	12286	1567	55	5		5	PPA1	10	71969329	Silent	SNP	T	TCGA-39-5035-01A-01D-1441-08	1871575	71969329	63565418	92	34837										
C10orf11	83938	broad.mit.edu	37	chr10	77542758	77542758	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aaaagtatttgtcactcagcGgcaatcattcttcaaataaa	5	8	5	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:77542758G>T	uc001jxi.2	+	1	240	c.25G>T	c.(25-27)GGC>TGC	p.G9C		NM_032024	NP_114413	Q9H2I8	CJ011_HUMAN	chromosome 10 open reading frame 11	9	LRR 1.										0	Prostate(51;0.0095)|all_epithelial(25;0.0221)					GTCACTCAGCGGCAATCATTC	0.408													3	69	---	---	---	---	PASS	T	77542758	T	T	77542758	3	4	92	1	0	0	0	0	1	0	0	0	1582	1116	39	1	27	1	C10orf11	10	77542758	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	5573429	77542758	57991989	93	34838										
CPEB3	22849	broad.mit.edu	37	chr10	93999117	93999117	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tattacctgaaatggcaacaGattgttaccattatcggtcc	7	9	0	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:93999117G>C	uc001khw.1	-	2	1164	c.991C>G	c.(991-993)CTG>GTG	p.L331V	CPEB3_uc001khu.1_Missense_Mutation_p.L331V|CPEB3_uc001khv.1_Missense_Mutation_p.L331V|CPEB3_uc010qnn.1_Missense_Mutation_p.L331V	NM_014912	NP_055727	Q8NE35	CPEB3_HUMAN	cytoplasmic polyadenylation element binding	331							nucleotide binding|RNA binding				0		Colorectal(252;0.0869)				AATGGCAACAGATTGTTACCA	0.537													4	24	---	---	---	---	PASS	C	93999117	C	C	93999117	3	2	92	1	0	0	0	0	1	0	0	0	3802	933	33	2	1168	2	CPEB3	10	93999117	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	16456359	93999117	41535630	94	34839										
C10orf90	118611	broad.mit.edu	37	chr10	128150141	128150141	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atttttacaaccaagtcacaGcatgtgtaatctcctaggag	7	9	2	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:128150141G>A	uc001ljq.2	-	5	1669	c.1548C>T	c.(1546-1548)TGC>TGT	p.C516C	C10orf90_uc001ljp.2_Silent_p.C372C|C10orf90_uc010qum.1_Silent_p.C613C|C10orf90_uc001ljo.2_RNA	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	516										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		CCAAGTCACAGCATGTGTAAT	0.488													4	36	---	---	---	---	PASS	A	128150141	A	A	128150141	2	1	92	1	0	0	0	0	0	0	0	1	1623	963	34	3		3	C10orf90	10	128150141	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	34151024	128150141	7384606	95	34840										
PAOX	196743	broad.mit.edu	37	chr10	135204834	135204834	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	agctccagatcctgtttgcgGgggaagccacacatcgcacg	12	13	0	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr10:135204834G>A	uc001lmv.2	+	7	1491	c.1411G>A	c.(1411-1413)GGG>AGG	p.G471R	PAOX_uc001lmw.2_RNA|PAOX_uc001lmx.2_Missense_Mutation_p.G418E|PAOX_uc001lmy.2_3'UTR|PAOX_uc001lmz.2_RNA|PAOX_uc001lna.2_RNA|PAOX_uc001lnb.2_RNA|PAOX_uc001lnc.2_RNA|MTG1_uc001lnd.2_5'Flank	NM_152911	NP_690875	Q6QHF9	PAOX_HUMAN	polyamine oxidase isoform 1	609					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		CCTGTTTGCGGGGGAAGCCAC	0.592													29	121	---	---	---	---	PASS	A	135204834	A	A	135204834	3	1	92	1	0	0	0	0	1	0	0	0	11423	1232	43	3	1437	3	PAOX	10	135204834	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	7054693	135204834	329913	96	34841										
PDDC1	347862	broad.mit.edu	37	chr11	774114	774114	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	acaaattccatggctttcccCtggagaagcagagcccaggg	11	12	0	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:774114C>T	uc001lrc.2	-	3	167	c.142_splice	c.e3-1	p.G48_splice	PDDC1_uc010qwm.1_Splice_Site|PDDC1_uc001lrd.2_Splice_Site_p.G48_splice|PDDC1_uc001lrf.1_Splice_Site_p.G48_splice|PDDC1_uc001lrg.1_Splice_Site|PDDC1_uc009ycg.2_Splice_Site|PDDC1_uc010qwn.1_Splice_Site|PDDC1_uc010qwo.1_Splice_Site|PDDC1_uc010qwp.1_Splice_Site_p.G48_splice|PDDC1_uc010qwq.1_Splice_Site|PDDC1_uc010qwr.1_Splice_Site_p.G48_splice|PDDC1_uc010qws.1_Splice_Site	NM_182612	NP_872418	Q8NB37	PDDC1_HUMAN	Parkinson disease 7 domain containing 1							extracellular region					0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;3.66e-26)|Epithelial(43;2.43e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-19)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGGCTTTCCCCTGGAGAAGCA	0.602													10	37	---	---	---	---	PASS	T	774114	T	T	774114	5	4	92	1	0	0	0	0	0	0	1	0	11629	695	24	3	545	3	PDDC1	11	774114	Splice_Site	SNP	C	TCGA-39-5035-01A-01D-1441-08		774114	134232402	97	34842										
OR56A4	120793	broad.mit.edu	37	chr11	6023942	6023942	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	agcaggctgggaagctgatcGacctgaggtcaaaccagaag	14	9	1	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:6023942G>C	uc010qzv.1	-	1	437	c.437C>G	c.(436-438)TCG>TGG	p.S146W		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAAGCTGATCGACCTGAGGTC	0.547													20	65	---	---	---	---	PASS	C	6023942	C	C	6023942	3	2	92	1	0	0	0	0	1	0	0	0	11135	1059	37	2	662	2	OR56A4	11	6023942	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	5249828	6023942	128982574	98	34843										
AMPD3	272	broad.mit.edu	37	chr11	10514980	10514980	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	acacataccagacggagcctGacaggactgtggcagagaag	13	10	0	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:10514980G>A	uc001mio.1	+	7	1359	c.1024G>A	c.(1024-1026)GAC>AAC	p.D342N	AMPD3_uc010rbz.1_Missense_Mutation_p.D183N|AMPD3_uc001min.1_Missense_Mutation_p.D351N|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.D349N|AMPD3_uc009yfy.2_Missense_Mutation_p.D342N	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	342					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		GACGGAGCCTGACAGGACTGT	0.602													21	90	---	---	---	---	PASS	A	10514980	A	A	10514980	3	1	92	1	0	0	0	0	1	0	0	0	587	1290	45	2	1097	2	AMPD3	11	10514980	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	4491038	10514980	124491536	99	34844										
AMPD3	272	broad.mit.edu	37	chr11	10526199	10526199	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cgtgctgcagagcggcctctCgcatcaggtatggagtgtga	15	10	2	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:10526199C>T	uc001mio.1	+	14	2455	c.2120C>T	c.(2119-2121)TCG>TTG	p.S707L	AMPD3_uc010rbz.1_Missense_Mutation_p.S548L|AMPD3_uc001min.1_Missense_Mutation_p.S716L|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.S714L|AMPD3_uc009yfy.2_Missense_Mutation_p.S707L	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	707					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		AGCGGCCTCTCGCATCAGGTA	0.438													14	60	---	---	---	---	PASS	T	10526199	T	T	10526199	3	4	92	1	0	0	0	0	1	0	0	0	587	893	31	2	2221	2	AMPD3	11	10526199	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	11219	10526199	124480317	100	34845										
MRGPRX4	117196	broad.mit.edu	37	chr11	18195510	18195510	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cctgcccttcggcattctggGggccctaatttacaggatgc	11	13	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:18195510G>A	uc001mnv.1	+	1	1127	c.707G>A	c.(706-708)GGG>GAG	p.G236E		NM_054032	NP_473373	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	236	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						GGCATTCTGGGGGCCCTAATT	0.532													9	51	---	---	---	---	PASS	A	18195510	A	A	18195510	3	1	92	1	0	0	0	0	1	0	0	0	9769	1232	43	3	709	3	MRGPRX4	11	18195510	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	7669311	18195510	116811006	101	34846										
KCNA4	3739	broad.mit.edu	37	chr11	30033613	30033613	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gtactgagtcctcttttcagGgtctcccaacaaagtctctg	8	12	4	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:30033613G>T	uc001msk.2	-	2	1765	c.613C>A	c.(613-615)CCT>ACT	p.P205T		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	205						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CTCTTTTCAGGGTCTCCCAAC	0.453													8	55	---	---	---	---	PASS	T	30033613	T	T	30033613	3	4	92	1	0	0	0	0	1	0	0	0	8005	1232	43	3	1352	3	KCNA4	11	30033613	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	11838103	30033613	104972903	102	34847										
MYBPC3	4607	broad.mit.edu	37	chr11	47355472	47355472	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	agggaagggggccagtcccaCctggaaagggatgagaaggt	18	7	0	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:47355472C>T	uc001nfa.3	-	27	3049	c.2994_splice	c.e27+1	p.Q998_splice		NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac						cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		GCCAGTCCCACCTGGAAAGGG	0.597													3	8	---	---	---	---	PASS	T	47355472	T	T	47355472	5	4	92	1	0	0	0	0	0	0	1	0	10013	521	18	3	857	3	MYBPC3	11	47355472	Splice_Site	SNP	C	TCGA-39-5035-01A-01D-1441-08	17321859	47355472	87651044	103	34848										
CTNND1	1500	broad.mit.edu	37	chr11	57575873	57575873	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctattctagtatggtcgataCatccgctctgctctgcgtca	8	12	4	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:57575873C>T	uc001nmc.3	+	14	2674	c.2103C>T	c.(2101-2103)TAC>TAT	p.Y701Y	CTNND1_uc001nlh.1_Silent_p.Y701Y|CTNND1_uc001nlu.3_Silent_p.Y594Y|CTNND1_uc001nlt.3_Silent_p.Y594Y|CTNND1_uc001nls.3_Silent_p.Y594Y|CTNND1_uc001nlw.3_Silent_p.Y594Y|CTNND1_uc001nmf.3_Silent_p.Y701Y|CTNND1_uc001nmd.3_Silent_p.Y647Y|CTNND1_uc001nlk.3_Silent_p.Y647Y|CTNND1_uc001nme.3_Silent_p.Y695Y|CTNND1_uc001nll.3_Silent_p.Y641Y|CTNND1_uc001nmg.3_Silent_p.Y641Y|CTNND1_uc001nlj.3_Silent_p.Y641Y|CTNND1_uc001nlr.3_Silent_p.Y641Y|CTNND1_uc001nlp.3_Silent_p.Y641Y|CTNND1_uc001nlx.3_Silent_p.Y378Y|CTNND1_uc001nlz.3_Silent_p.Y378Y|CTNND1_uc009ymn.2_Silent_p.Y372Y|CTNND1_uc001nlm.3_Silent_p.Y695Y|CTNND1_uc001nly.3_Silent_p.Y372Y|CTNND1_uc001nmb.3_Silent_p.Y372Y|CTNND1_uc001nma.3_Silent_p.Y372Y|CTNND1_uc001nmi.3_Silent_p.Y600Y|CTNND1_uc001nmh.3_Silent_p.Y695Y|CTNND1_uc001nlq.3_Silent_p.Y600Y|CTNND1_uc001nln.3_Silent_p.Y695Y|CTNND1_uc001nli.3_Silent_p.Y695Y|CTNND1_uc001nlo.3_Silent_p.Y594Y|CTNND1_uc001nlv.3_Silent_p.Y594Y	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	701	ARM 8.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				ATGGTCGATACATCCGCTCTG	0.443													36	98	---	---	---	---	PASS	T	57575873	T	T	57575873	2	4	92	1	0	0	0	0	0	0	0	1	4019	489	17	3		3	CTNND1	11	57575873	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	10220401	57575873	77430643	104	34849										
RELA	5970	broad.mit.edu	37	chr11	65427630	65427630	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tgttggtctggatgcgctgaCtgatagcctgctccaggtcc	13	11	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:65427630C>G	uc001ofg.2	-	5	532	c.392G>C	c.(391-393)AGT>ACT	p.S131T	RELA_uc001ofh.2_Missense_Mutation_p.S131T|RELA_uc010ron.1_Missense_Mutation_p.S142T|RELA_uc009yqr.2_Missense_Mutation_p.S78T|RELA_uc001ofe.2_Missense_Mutation_p.S131T|RELA_uc001off.2_Missense_Mutation_p.S131T|RELA_uc009yqs.1_5'Flank	NM_021975	NP_068810	Q04206	TF65_HUMAN	v-rel reticuloendotheliosis viral oncogene	131	RHD.				anti-apoptosis|cellular defense response|cytokine-mediated signaling pathway|defense response to virus|inflammatory response|innate immune response|interspecies interaction between organisms|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription, DNA-dependent|nerve growth factor receptor signaling pathway|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of inflammatory response|response to interleukin-1|response to UV-B|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|transcription factor complex	activating transcription factor binding|chromatin binding|identical protein binding|NF-kappaB binding|phosphate binding|protein kinase binding|protein N-terminus binding|repressing transcription factor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding			lung(3)|ovary(1)	4						GATGCGCTGACTGATAGCCTG	0.612													28	80	---	---	---	---	PASS	G	65427630	G	G	65427630	3	3	92	1	0	0	0	0	1	0	0	0	13216	565	20	4	1291	4	RELA	11	65427630	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	7851757	65427630	69578886	105	34850										
FAT3	120114	broad.mit.edu	37	chr11	92532480	92532480	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aagtggatgcggaacccgggActctgatttatcaggtgaca	13	8	2	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:92532480A>T	uc001pdj.3	+	9	6318	c.6301A>T	c.(6301-6303)ACT>TCT	p.T2101S		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2101	Cadherin 19.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GGAACCCGGGACTCTGATTTA	0.458										TCGA Ovarian(4;0.039)			5	29	---	---	---	---	PASS	T	92532480	T	T	92532480	3	4	92	1	0	0	0	0	1	0	0	0	5691	275	10	5	6335	5	FAT3	11	92532480	Missense_Mutation	SNP	A	TCGA-39-5035-01A-01D-1441-08	27104850	92532480	42474036	106	34851										
C11orf70	85016	broad.mit.edu	37	chr11	101946619	101946619	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cttaggttttgctagtggaaGactcagaaaaatatgaaata	9	4	1	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:101946619G>C	uc001pgp.2	+	5	479	c.451G>C	c.(451-453)GAC>CAC	p.D151H	C11orf70_uc001pgo.2_Missense_Mutation_p.R95T|C11orf70_uc001pgq.2_Missense_Mutation_p.D113H	NM_032930	NP_116319	Q9BRQ4	CK070_HUMAN	hypothetical protein LOC85016	151										skin(1)	1	all_epithelial(12;0.0137)	Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.0137)	Lung(13;0.245)	BRCA - Breast invasive adenocarcinoma(274;0.0335)		GCTAGTGGAAGACTCAGAAAA	0.313													17	101	---	---	---	---	PASS	C	101946619	C	C	101946619	3	2	92	1	0	0	0	0	1	0	0	0	1659	942	33	2	351	2	C11orf70	11	101946619	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	9414139	101946619	33059897	107	34852										
KDELC2	143888	broad.mit.edu	37	chr11	108357165	108357165	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	acagtactcatggtacactgGtcctagggaaggaaaacatg	11	8	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:108357165G>A	uc001pkj.2	-	3	469	c.403C>T	c.(403-405)CCA>TCA	p.P135S	KDELC2_uc001pki.2_Missense_Mutation_p.P79S	NM_153705	NP_714916	Q7Z4H8	KDEL2_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 2 precursor	135						endoplasmic reticulum lumen				ovary(1)	1		all_cancers(61;1.38e-11)|all_epithelial(67;3.16e-07)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;6.93e-06)|BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|all cancers(92;0.00016)|OV - Ovarian serous cystadenocarcinoma(223;0.132)|Colorectal(284;0.14)		TGGTACACTGGTCCTAGGGAA	0.468													13	66	---	---	---	---	PASS	A	108357165	A	A	108357165	3	1	92	1	0	0	0	0	1	0	0	0	8118	1261	44	3	1144	3	KDELC2	11	108357165	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	6410546	108357165	26649351	108	34853										
TECTA	7007	broad.mit.edu	37	chr11	121028738	121028738	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ggcggcgtcttccgcaccttCgacggcgccttcctgcgctt	12	17	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:121028738C>T	uc010rzo.1	+	13	4494	c.4494C>T	c.(4492-4494)TTC>TTT	p.F1498F		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1498	VWFD 4.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TCCGCACCTTCGACGGCGCCT	0.642													23	18	---	---	---	---	PASS	T	121028738	T	T	121028738	2	4	92	1	0	0	0	0	0	0	0	1	15744	883	31	2		2	TECTA	11	121028738	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	12671573	121028738	13977778	109	34854										
SCN3B	55800	broad.mit.edu	37	chr11	123513295	123513295	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gagcacagtgatggacacgtCctgcaggtccttgctgccat	12	12	0	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr11:123513295C>T	uc001pza.1	-	4	711	c.304G>A	c.(304-306)GAC>AAC	p.D102N	SCN3B_uc001pzb.1_Missense_Mutation_p.D102N	NM_001040151	NP_001035241	Q9NY72	SCN3B_HUMAN	voltage-gated sodium channel beta-3 subunit	102	Ig-like C2-type.|Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	voltage-gated sodium channel activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0227)		ATGGACACGTCCTGCAGGTCC	0.572													44	111	---	---	---	---	PASS	T	123513295	T	T	123513295	3	4	92	1	0	0	0	0	1	0	0	0	13919	855	30	2	355	2	SCN3B	11	123513295	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	2484557	123513295	11493221	110	34855										
IQSEC3	440073	broad.mit.edu	37	chr12	250351	250351	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tcatcccggacacccccatcGgtgtggcccatttcctcctc	7	19	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr12:250351G>A	uc001qhw.1	+	2	1150	c.1144G>A	c.(1144-1146)GGT>AGT	p.G382S	IQSEC3_uc001qhu.1_Missense_Mutation_p.G382S|uc001qhv.1_RNA	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	685	SEC7.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		CACCCCCATCGGTGTGGCCCA	0.602													22	123	---	---	---	---	PASS	A	250351	A	A	250351	3	1	92	1	0	0	0	0	1	0	0	0	7819	1116	39	1	2071	1	IQSEC3	12	250351	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08		250351	133601544	111	34856										
CCDC77	84318	broad.mit.edu	37	chr12	549899	549899	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gaagagggaatgaggagagaGatcttcaaggtacgaaatta	14	3	2	4			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr12:549899G>C	uc001qig.2	+	11	1338	c.1158G>C	c.(1156-1158)GAG>GAC	p.E386D	CCDC77_uc009zdk.2_Missense_Mutation_p.E354D|CCDC77_uc010sdp.1_Missense_Mutation_p.E354D|CCDC77_uc010sdq.1_Missense_Mutation_p.E354D	NM_032358	NP_115734	Q9BR77	CCD77_HUMAN	coiled-coil domain containing 77 isoform a	386	Potential.					centrosome				ovary(1)	1	all_cancers(10;0.0149)|all_epithelial(11;0.035)|all_lung(10;0.111)|Ovarian(42;0.142)|Lung NSC(10;0.156)		OV - Ovarian serous cystadenocarcinoma(31;0.00123)|BRCA - Breast invasive adenocarcinoma(9;0.033)			TGAGGAGAGAGATCTTCAAGG	0.453													16	77	---	---	---	---	PASS	C	549899	C	C	549899	3	2	92	1	0	0	0	0	1	0	0	0	2851	933	33	2	1192	2	CCDC77	12	549899	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	299548	549899	133301996	112	34857										
NCAPD2	9918	broad.mit.edu	37	chr12	6638690	6638690	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ttcctgcagacagctcctctCctacatcaccaaggacaagc	6	16	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr12:6638690C>G	uc001qoo.2	+	28	3630	c.3584C>G	c.(3583-3585)TCC>TGC	p.S1195C	NCAPD2_uc010sfd.1_Missense_Mutation_p.S1150C	NM_014865	NP_055680	Q15021	CND1_HUMAN	non-SMC condensin I complex, subunit D2	1195					cell division|mitotic chromosome condensation	condensin core heterodimer|cytoplasm	histone binding			ovary(2)|lung(1)|breast(1)|kidney(1)	5						CAGCTCCTCTCCTACATCACC	0.597													31	81	---	---	---	---	PASS	G	6638690	G	G	6638690	3	3	92	1	0	0	0	0	1	0	0	0	10205	855	30	2	3690	2	NCAPD2	12	6638690	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	6088791	6638690	127213205	113	34858										
KLRB1	3820	broad.mit.edu	37	chr12	9754178	9754178	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cagggcaaattgatgccaagGtgaaccctgacagacatctg	11	10	1	4			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr12:9754178G>C	uc010sgt.1	-	2	165	c.103C>G	c.(103-105)CCT>GCT	p.P35A		NM_002258	NP_002249	Q12918	KLRB1_HUMAN	killer cell lectin-like receptor subfamily B,	35	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	sugar binding|transmembrane receptor activity				0						TGATGCCAAGGTGAACCCTGA	0.363													8	60	---	---	---	---	PASS	C	9754178	C	C	9754178	3	2	92	1	0	0	0	0	1	0	0	0	8414	1261	44	4	593	4	KLRB1	12	9754178	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	3115488	9754178	124097717	114	34859										
KLRC3	3823	broad.mit.edu	37	chr12	10588420	10588420	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ttggcagtcatatattttatCaatcccttgatgattcaggg	8	7	3	2	rs147031208		TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr12:10588420C>G	uc001qyh.2	-	1	173	c.166G>C	c.(166-168)GAT>CAT	p.D56H	KLRC2_uc010she.1_Missense_Mutation_p.D56H|KLRC2_uc001qyk.2_Missense_Mutation_p.D56H	NM_002261	NP_002252	Q07444	NKG2E_HUMAN	killer cell lectin-like receptor subfamily C,	56	Cytoplasmic (Potential).				cellular defense response	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|skin(1)	3						TATATTTTATCAATCCCTTGA	0.343													29	201	---	---	---	---	PASS	G	10588420	G	G	10588420	3	3	92	1	0	0	0	0	1	0	0	0	8417	826	29	2		2	KLRC3	12	10588420	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	834242	10588420	123263475	115	34860										
KIAA0528	9847	broad.mit.edu	37	chr12	22637741	22637741	+	Silent	SNP	G	A	A													0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctgcagttatagcaatatgtGagatgagctggaaatggcat							TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr12:22637741G>A	uc001rfq.2	-	13	1668	c.1440C>T	c.(1438-1440)CTC>CTT	p.L480L	KIAA0528_uc010sir.1_Silent_p.L295L|KIAA0528_uc010sis.1_Silent_p.L480L|KIAA0528_uc010sit.1_Silent_p.L482L|KIAA0528_uc010siu.1_Silent_p.L480L|KIAA0528_uc001rfr.2_Silent_p.L471L|KIAA0528_uc009ziy.1_Silent_p.L482L	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	480							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						AGCAATATGTGAGATGAGCTG	0.338													34	86	---	---	---	---	PASS	A	22637741	A	A	22637741	2	1	92	1	0	0	0	0	0	0	0	1	8182	1277	45	2		2	KIAA0528	12	22637741	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	12049321	22637741	111214154	116	34861	664	2								
KIAA0528	9847	broad.mit.edu	37	chr12	22637746	22637746	+	Missense_Mutation	SNP	G	A	A													0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gttatagcaatatgtgagatGagctggaaatggcatattca							TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr12:22637746G>A	uc001rfq.2	-	13	1663	c.1435C>T	c.(1435-1437)CAT>TAT	p.H479Y	KIAA0528_uc010sir.1_Missense_Mutation_p.H294Y|KIAA0528_uc010sis.1_Missense_Mutation_p.H479Y|KIAA0528_uc010sit.1_Missense_Mutation_p.H481Y|KIAA0528_uc010siu.1_Missense_Mutation_p.H479Y|KIAA0528_uc001rfr.2_Missense_Mutation_p.H470Y|KIAA0528_uc009ziy.1_Missense_Mutation_p.H481Y	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	479							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						TATGTGAGATGAGCTGGAAAT	0.333													33	82	---	---	---	---	PASS	A	22637746	A	A	22637746	3	1	92	1	0	0	0	0	1	0	0	0	8182	1290	45	2	1619	2	KIAA0528	12	22637746	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	5	22637746	111214149	117	34862	664	2								
LRMP	4033	broad.mit.edu	37	chr12	25243095	25243095	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gacttggcagaagaaaatttGaagaaagaaatcactaactg	9	5	1	5			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr12:25243095G>A	uc001rgh.2	+	13	1604	c.570G>A	c.(568-570)TTG>TTA	p.L190L	LRMP_uc010sja.1_Silent_p.L190L|LRMP_uc010sjb.1_Silent_p.L137L|LRMP_uc001rgi.2_RNA|LRMP_uc010sjc.1_Silent_p.L190L|LRMP_uc010sjd.1_Silent_p.L137L	NM_006152	NP_006143	Q12912	LRMP_HUMAN	lymphoid-restricted membrane protein	246	Potential.|Cytoplasmic (Potential).				vesicle fusion|vesicle targeting	endoplasmic reticulum membrane|integral to plasma membrane				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Colorectal(261;0.11)					AAGAAAATTTGAAGAAAGAAA	0.313													57	91	---	---	---	---	PASS	A	25243095	A	A	25243095	2	1	92	1	0	0	0	0	0	0	0	1	8950	1281	45	2		2	LRMP	12	25243095	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	2605349	25243095	108608800	118	34863										
C12orf40	283461	broad.mit.edu	37	chr12	40114814	40114814	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cacagttgcagtgcaattcaGcccacattttgcaaaacaaa	6	11	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr12:40114814G>T	uc001rmc.2	+	13	1887	c.1720G>T	c.(1720-1722)GCC>TCC	p.A574S	C12orf40_uc009zjv.1_Intron	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	574										ovary(6)	6						GTGCAATTCAGCCCACATTTT	0.383													16	70	---	---	---	---	PASS	T	40114814	T	T	40114814	3	4	92	1	0	0	0	0	1	0	0	0	1686	971	34	3	1770	3	C12orf40	12	40114814	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	14871719	40114814	93737081	119	34864										
SCN8A	6334	broad.mit.edu	37	chr12	52162811	52162811	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tgcacgccttcatgcaggccCactttaagcagcgtgaggct	11	13	1	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr12:52162811C>G	uc001ryw.2	+	17	3242	c.3064C>G	c.(3064-3066)CAC>GAC	p.H1022D	SCN8A_uc010snl.1_Missense_Mutation_p.H887D	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	1022					axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	CATGCAGGCCCACTTTAAGCA	0.517													8	37	---	---	---	---	PASS	G	52162811	G	G	52162811	3	3	92	1	0	0	0	0	1	0	0	0	13924	594	21	4	3126	4	SCN8A	12	52162811	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	12047997	52162811	81689084	120	34865										
PMCH	5367	broad.mit.edu	37	chr12	102590466	102590466	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ggtcggtagactcttcccagCatacatctgagcactgaagg	11	11	2	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr12:102590466C>T	uc001tjl.2	-	3	528	c.462G>A	c.(460-462)ATG>ATA	p.M154I	C12orf48_uc001tjg.2_3'UTR|C12orf48_uc010swa.1_3'UTR|C12orf48_uc001tjf.2_3'UTR|C12orf48_uc001tjh.2_3'UTR|C12orf48_uc010swb.1_3'UTR|C12orf48_uc009zuc.2_3'UTR|C12orf48_uc001tjj.2_3'UTR|C12orf48_uc001tjk.2_3'UTR|C12orf48_uc009zud.2_3'UTR	NM_002674	NP_002665	P20382	MCH_HUMAN	pro-melanin-concentrating hormone	154					cell differentiation|neuropeptide signaling pathway|spermatogenesis|synaptic transmission		melanin-concentrating hormone activity				0						CTCTTCCCAGCATACATCTGA	0.343													86	201	---	---	---	---	PASS	T	102590466	T	T	102590466	3	4	92	1	0	0	0	0	1	0	0	0	12131	710	25	3	39	3	PMCH	12	102590466	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	50427655	102590466	31261429	121	34866										
PIWIL1	9271	broad.mit.edu	37	chr12	130841573	130841573	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atctatacgcgaagaaattaTgaagcagccaattcattgat	7	7	2	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr12:130841573T>C	uc001uik.2	+	13	1605	c.1515T>C	c.(1513-1515)TAT>TAC	p.Y505Y	PIWIL1_uc001uij.1_Silent_p.Y505Y	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	505					gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		GAAGAAATTATGAAGCAGCCA	0.358													16	43	---	---	---	---	PASS	C	130841573	C	C	130841573	2	2	92	1	0	0	0	0	0	0	0	1	11957	1471	51	5		5	PIWIL1	12	130841573	Silent	SNP	T	TCGA-39-5035-01A-01D-1441-08	28251107	130841573	3010322	122	34867										
FLT1	2321	broad.mit.edu	37	chr13	28897007	28897007	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tttcgctgctggtgacgctaTctagtcttggtttcttgcct	10	10	3	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr13:28897007T>C	uc001usb.3	-	21	3158	c.2873A>G	c.(2872-2874)GAT>GGT	p.D958G	FLT1_uc010aap.2_5'Flank|FLT1_uc010aaq.2_Missense_Mutation_p.D83G|FLT1_uc001usa.3_Missense_Mutation_p.D176G	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	958	Cytoplasmic (Potential).|Protein kinase.				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)	GGTGACGCTATCTAGTCTTGG	0.478													37	207	---	---	---	---	PASS	C	28897007	C	C	28897007	3	2	92	1	0	0	0	0	1	0	0	0	5941	1435	50	5	1183	5	FLT1	13	28897007	Missense_Mutation	SNP	T	TCGA-39-5035-01A-01D-1441-08		28897007	86272871	123	34868										
NALCN	259232	broad.mit.edu	37	chr13	101763505	101763505	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tggcggatatgatgctgcacGctgaggattgacctctcctt	12	10	1	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr13:101763505G>A	uc001vox.1	-	19	2454	c.2265C>T	c.(2263-2265)AGC>AGT	p.S755S		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	755	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GATGCTGCACGCTGAGGATTG	0.512													34	287	---	---	---	---	PASS	A	101763505	A	A	101763505	2	1	92	1	0	0	0	0	0	0	0	1	10148	1078	38	1		1	NALCN	13	101763505	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	72866498	101763505	13406373	124	34869										
RGS6	9628	broad.mit.edu	37	chr14	72985064	72985064	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctgctcccacttcaggttctGgctggctgtccaagatctta	9	13	3	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr14:72985064G>T	uc001xna.3	+	15	1620	c.1097G>T	c.(1096-1098)TGG>TTG	p.W366L	RGS6_uc010ttn.1_Missense_Mutation_p.W366L|RGS6_uc001xmx.3_Missense_Mutation_p.W366L|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.W366L|RGS6_uc010ttp.1_Missense_Mutation_p.W297L|RGS6_uc001xmz.1_Missense_Mutation_p.W227L	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	366	RGS.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		TTCAGGTTCTGGCTGGCTGTC	0.537													3	51	---	---	---	---	PASS	T	72985064	T	T	72985064	3	4	92	1	0	0	0	0	1	0	0	0	13309	1357	47	3	1151	3	RGS6	14	72985064	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08		72985064	34364476	125	34870										
OCA2	4948	broad.mit.edu	37	chr15	28202861	28202861	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctgagcagtcaggcgccagaCgtgaatctcgtgcttcagtt	12	11	3	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr15:28202861C>T	uc001zbh.3	-	16	1767	c.1657G>A	c.(1657-1659)GTC>ATC	p.V553I	OCA2_uc010ayv.2_Missense_Mutation_p.V529I	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	553	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		AGGCGCCAGACGTGAATCTCG	0.617									Oculocutaneous_Albinism				15	35	---	---	---	---	PASS	T	28202861	T	T	28202861	3	4	92	1	0	0	0	0	1	0	0	0	10815	536	19	1	895	1	OCA2	15	28202861	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08		28202861	74328531	126	34871										
NUSAP1	51203	broad.mit.edu	37	chr15	41650394	41650394	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ttaaggaaatggagtccattGatcaatatattgagagaaaa	9	3	1	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr15:41650394G>C	uc001zns.3	+	6	828	c.598G>C	c.(598-600)GAT>CAT	p.D200H	NUSAP1_uc001znq.3_Missense_Mutation_p.D5H|NUSAP1_uc001znr.3_Missense_Mutation_p.D200H|NUSAP1_uc010bce.2_Missense_Mutation_p.D200H|NUSAP1_uc001znt.3_Missense_Mutation_p.D185H|NUSAP1_uc001znv.3_Missense_Mutation_p.D199H|NUSAP1_uc001znu.3_Missense_Mutation_p.D199H|NUSAP1_uc010ucw.1_Missense_Mutation_p.D177H|NUSAP1_uc001znw.3_Missense_Mutation_p.D5H	NM_016359	NP_057443	Q9BXS6	NUSAP_HUMAN	nucleolar and spindle associated protein 1	200					cytokinesis after mitosis|establishment of mitotic spindle localization|mitotic chromosome condensation|positive regulation of mitosis	chromosome|cytoplasm|nucleolus	DNA binding				0		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;9.63e-17)|GBM - Glioblastoma multiforme(113;1.59e-06)|BRCA - Breast invasive adenocarcinoma(123;0.168)		GGAGTCCATTGATCAATATAT	0.264													11	45	---	---	---	---	PASS	C	41650394	C	C	41650394	3	2	92	1	0	0	0	0	1	0	0	0	10778	1290	45	2	620	2	NUSAP1	15	41650394	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	13447533	41650394	60880998	127	34872										
TLN2	83660	broad.mit.edu	37	chr15	63084980	63084980	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gaatgcgcccgtgccgtcacGgaaaaggtaaggagcagccc	14	12	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr15:63084980G>C	uc002alb.3	+	43	5877	c.5877G>C	c.(5875-5877)ACG>ACC	p.T1959T	TLN2_uc002alc.3_Silent_p.T352T	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1959					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GTGCCGTCACGGAAAAGGTAA	0.562													9	32	---	---	---	---	PASS	C	63084980	C	C	63084980	2	2	92	1	0	0	0	0	0	0	0	1	15945	1103	39	4		4	TLN2	15	63084980	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	21434586	63084980	39446412	128	34873										
SGK269	79834	broad.mit.edu	37	chr15	77471165	77471165	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	taggaatctgtgatggagaaGaatgactcctcttcttctct	9	8	4	4			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr15:77471165G>C	uc002bcm.2	-	3	3412	c.3104C>G	c.(3103-3105)TCT>TGT	p.S1035C	SGK269_uc002bcn.2_Missense_Mutation_p.S1035C	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	1035			S -> F (in a metastatic melanoma sample; somatic mutation).		cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding	p.S1035F(1)			0				STAD - Stomach adenocarcinoma(199;0.124)		TGATGGAGAAGAATGACTCCT	0.403													23	58	---	---	---	---	PASS	C	77471165	C	C	77471165	3	2	92	1	0	0	0	0	1	0	0	0	14211	942	33	2	2152	2	SGK269	15	77471165	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	14386185	77471165	25060227	129	34874										
MEF2A	4205	broad.mit.edu	37	chr15	100246988	100246988	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aacctcttgctaccccagtcGtgtctgtgacaaccccaagc	7	16	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr15:100246988G>A	uc010urw.1	+	9	1302	c.943G>A	c.(943-945)GTG>ATG	p.V315M	MEF2A_uc010urv.1_Missense_Mutation_p.V245M|MEF2A_uc010bos.2_Missense_Mutation_p.V305M|MEF2A_uc002bvf.2_Missense_Mutation_p.V307M|MEF2A_uc002bve.2_Missense_Mutation_p.V313M|MEF2A_uc002bvg.2_Missense_Mutation_p.V305M|MEF2A_uc002bvi.2_Missense_Mutation_p.V305M|MEF2A_uc010bot.2_Missense_Mutation_p.V237M	NM_005587	NP_005578	Q02078	MEF2A_HUMAN	myocyte enhancer factor 2A isoform 1	315					apoptosis|BMK cascade|cardiac conduction|cellular response to calcium ion|dendrite morphogenesis|innate immune response|mitochondrial genome maintenance|mitochondrion distribution|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|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|ventricular cardiac myofibril development	nuclear chromatin|nucleoplasm	activating transcription factor binding|histone acetyltransferase binding|histone deacetylase binding|protein heterodimerization activity|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|SMAD binding			ovary(1)	1	Lung NSC(78;0.00335)|all_lung(78;0.00659)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00085)			TACCCCAGTCGTGTCTGTGAC	0.498													12	33	---	---	---	---	PASS	A	100246988	A	A	100246988	3	1	92	1	0	0	0	0	1	0	0	0	9455	1145	40	1	1109	1	MEF2A	15	100246988	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	22775823	100246988	2284404	130	34875										
BTBD12	84464	broad.mit.edu	37	chr16	3658855	3658855	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atcatctgaccagttttaagGctttcaggctggtcttcaga	9	9	5	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr16:3658855G>T	uc002cvp.2	-	2	738	c.111C>A	c.(109-111)AGC>AGA	p.S37R	BTBD12_uc002cvq.1_Missense_Mutation_p.S37R	NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	37	Interaction with C20orf94, ERCC4 and MSH2.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						CAGTTTTAAGGCTTTCAGGCT	0.468								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				19	120	---	---	---	---	PASS	T	3658855	T	T	3658855	3	4	92	1	0	0	0	0	1	0	0	0	1540	1194	42	3	5449	3	BTBD12	16	3658855	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08		3658855	86695898	131	34876										
POLR3E	55718	broad.mit.edu	37	chr16	22319508	22319508	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cgatgacctacgatgacattCcgcacctctcagccaagatc	7	15	1	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr16:22319508C>A	uc002dkk.2	+	4	283	c.127C>A	c.(127-129)CCG>ACG	p.P43T	POLR3E_uc002dkj.1_Missense_Mutation_p.P43T|POLR3E_uc002dkm.2_Missense_Mutation_p.P7T|POLR3E_uc010vbr.1_Missense_Mutation_p.P43T|POLR3E_uc002dkl.2_Missense_Mutation_p.P43T|POLR3E_uc010vbs.1_Intron|POLR3E_uc010vbt.1_Missense_Mutation_p.F3L	NM_018119	NP_060589	Q9NVU0	RPC5_HUMAN	RNA polymerase III polypeptide E	43					innate immune response|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA-directed RNA polymerase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.012)		CGATGACATTCCGCACCTCTC	0.627													14	74	---	---	---	---	PASS	A	22319508	A	A	22319508	3	1	92	1	0	0	0	0	1	0	0	0	12232	855	30	2	137	2	POLR3E	16	22319508	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	18660653	22319508	68035245	132	34877										
CNGB1	1258	broad.mit.edu	37	chr16	57951265	57951265	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cataggtaatccatcagcagCcagtggtggatgttgtccgg	13	9	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr16:57951265C>A	uc002emt.2	-	21	2138	c.2073G>T	c.(2071-2073)TGG>TGT	p.W691C	CNGB1_uc010cdh.2_Missense_Mutation_p.W685C	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	691	Helical; Name=H2; (Potential).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						CCATCAGCAGCCAGTGGTGGA	0.557													20	86	---	---	---	---	PASS	A	57951265	A	A	57951265	3	1	92	1	0	0	0	0	1	0	0	0	3600	740	26	3	1734	3	CNGB1	16	57951265	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	35631757	57951265	32403488	133	34878										
FUK	197258	broad.mit.edu	37	chr16	70500096	70500096	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctgcctccccgtggagaaccCcgaggcccccgtggaagcct	12	18	0	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr16:70500096C>G	uc002eyy.2	+	5	405	c.347C>G	c.(346-348)CCC>CGC	p.P116R	FUK_uc010vmb.1_Missense_Mutation_p.P99R|FUK_uc010cft.2_Missense_Mutation_p.P148R|FUK_uc002eyz.2_Intron	NM_145059	NP_659496	Q8N0W3	FUK_HUMAN	fucokinase	116						cytoplasm	ATP binding|fucokinase activity			ovary(1)	1		Ovarian(137;0.0694)				GTGGAGAACCCCGAGGCCCCC	0.637													41	55	---	---	---	---	PASS	G	70500096	G	G	70500096	3	3	92	1	0	0	0	0	1	0	0	0	6096	623	22	4	361	4	FUK	16	70500096	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	12548831	70500096	19854657	134	34879										
ZFHX3	463	broad.mit.edu	37	chr16	72845910	72845910	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aggttgcaggagaatctgtcAgctccttctctgcttggctg	12	10	3	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr16:72845910A>C	uc002fck.2	-	6	4230	c.3557T>G	c.(3556-3558)CTG>CGG	p.L1186R	ZFHX3_uc002fcl.2_Missense_Mutation_p.L272R	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1186				EEAIEDVEGPSETAADPEELAKDQEGGASSSQAEKELTDSP -> GEWSHRHGRPRLGLGVHLLETSRGLLFEGDVTDPAGPH VPY (in Ref. 5).	muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				AGAATCTGTCAGCTCCTTCTC	0.522													23	54	---	---	---	---	PASS	C	72845910	C	C	72845910	3	2	92	1	0	0	0	0	1	0	0	0	17631	188	7	5	7574	5	ZFHX3	16	72845910	Missense_Mutation	SNP	A	TCGA-39-5035-01A-01D-1441-08	2345814	72845910	17508843	135	34880										
RFWD3	55159	broad.mit.edu	37	chr16	74695345	74695345	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tattccattgcttcatgagcCatcactagagaaacagtatt	6	9	2	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr16:74695345C>A	uc002fda.2	-	2	101	c.3G>T	c.(1-3)ATG>ATT	p.M1I	RFWD3_uc010cgq.2_Missense_Mutation_p.M1I	NM_018124	NP_060594	Q6PCD5	RFWD3_HUMAN	ring finger and WD repeat domain 3	1					DNA repair|mitotic cell cycle G1/S transition DNA damage checkpoint|response to ionizing radiation	nucleus	MDM2 binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|breast(1)	3						CTTCATGAGCCATCACTAGAG	0.393													67	206	---	---	---	---	PASS	A	74695345	A	A	74695345	3	1	92	1	0	0	0	0	1	0	0	0	13261	594	21	3	2369	3	RFWD3	16	74695345	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	1849435	74695345	15659408	136	34881										
TRPV1	7442	broad.mit.edu	37	chr17	3474819	3474819	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	accggccctcacgcctcaccTctgcttgaccgcagggagaa	10	17	3	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr17:3474819T>A	uc010vrr.1	-	14	2873	c.2346A>T	c.(2344-2346)AGA>AGT	p.R782S	TRPV1_uc010vro.1_Missense_Mutation_p.R793S|TRPV1_uc010vrp.1_Missense_Mutation_p.R722S|TRPV1_uc010vrq.1_Missense_Mutation_p.R780S|TRPV1_uc010vrs.1_Missense_Mutation_p.R782S|TRPV1_uc010vrt.1_Missense_Mutation_p.R782S|TRPV1_uc010vru.1_Missense_Mutation_p.R782S	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	782	Interaction with calmodulin (By similarity).|Cytoplasmic (Potential).|Required for PIP2-mediated channel inhibition (By similarity).				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	ACGCCTCACCTCTGCTTGACC	0.642													7	5	---	---	---	---	PASS	A	3474819	A	A	3474819	3	1	92	1	0	0	0	0	1	0	0	0	16592	1565	54	5	181	5	TRPV1	17	3474819	Missense_Mutation	SNP	T	TCGA-39-5035-01A-01D-1441-08		3474819	77720391	137	34882										
AIPL1	23746	broad.mit.edu	37	chr17	6337412	6337412	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tttcatggtgcggaaatgaaAgatcacctagtcaccgagac	10	9	3	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr17:6337412A>C	uc002gcp.2	-	2	198	c.103T>G	c.(103-105)TTT>GTT	p.F35V	AIPL1_uc002gcq.2_Intron|AIPL1_uc002gcr.2_Missense_Mutation_p.F35V|AIPL1_uc010clk.2_Intron|AIPL1_uc010cll.2_Missense_Mutation_p.F35V|AIPL1_uc002gcs.2_Missense_Mutation_p.F35V	NM_014336	NP_055151	Q9NZN9	AIPL1_HUMAN	aryl hydrocarbon receptor interacting	35					protein farnesylation|protein folding|visual perception	cytoplasm|nucleus	farnesylated protein binding|unfolded protein binding				0				COAD - Colon adenocarcinoma(228;0.141)		CGGAAATGAAAGATCACCTAG	0.567													7	15	---	---	---	---	PASS	C	6337412	C	C	6337412	3	2	92	1	0	0	0	0	1	0	0	0	436	72	3	5	1071	5	AIPL1	17	6337412	Missense_Mutation	SNP	A	TCGA-39-5035-01A-01D-1441-08	2862593	6337412	74857798	138	34883										
PHF23	79142	broad.mit.edu	37	chr17	7139897	7139897	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gtcgggggcctgcagacgagAgaaagtggaccttgggggtc	19	8	0	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr17:7139897A>C	uc002gfa.2	-	4	576	c.349T>G	c.(349-351)TCT>GCT	p.S117A	DVL2_uc002gez.1_5'Flank|DVL2_uc010vtr.1_5'Flank|DVL2_uc010clz.1_5'Flank|PHF23_uc010vtt.1_Intron|PHF23_uc010cma.2_5'UTR	NM_024297	NP_077273	Q9BUL5	PHF23_HUMAN	PHD finger protein 23	117							zinc ion binding				0						TGCAGACGAGAGAAAGTGGAC	0.527													55	100	---	---	---	---	PASS	C	7139897	C	C	7139897	3	2	92	1	0	0	0	0	1	0	0	0	11835	304	11	5	870	5	PHF23	17	7139897	Missense_Mutation	SNP	A	TCGA-39-5035-01A-01D-1441-08	802485	7139897	74055313	139	34884										
TP53	7157	broad.mit.edu	37	chr17	7578457	7578457	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gcttgtagatggccatggcgCggacgcgggtgccgggcggg	21	10	0	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr17:7578457C>T	uc002gim.2	-	5	667	c.473G>A	c.(472-474)CGC>CAC	p.R158H	TP53_uc002gig.1_Missense_Mutation_p.R158H|TP53_uc002gih.2_Missense_Mutation_p.R158H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R26H|TP53_uc010cng.1_Missense_Mutation_p.R26H|TP53_uc002gii.1_Missense_Mutation_p.R26H|TP53_uc010cnh.1_Missense_Mutation_p.R158H|TP53_uc010cni.1_Missense_Mutation_p.R158H|TP53_uc002gij.2_Missense_Mutation_p.R158H|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R65H|TP53_uc002gio.2_Missense_Mutation_p.R26H|TP53_uc010vug.1_Missense_Mutation_p.R119H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	158	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> F (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> Y (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.R158H(58)|p.R158L(55)|p.R158C(17)|p.R158G(10)|p.R158P(9)|p.0?(7)|p.R158R(6)|p.R158fs*12(5)|p.R158_A159insX(4)|p.R158_A159delRA(2)|p.R156_I162delRVRAMAI(2)|p.V157fs*9(2)|p.P153fs*22(2)|p.R158fs*11(2)|p.V157fs*22(2)|p.V157_C176del20(1)|p.R156_A161delRVRAMA(1)|p.R158F(1)|p.P151_V173del23(1)|p.R158fs*24(1)|p.R65L(1)|p.R156_R158delRVR(1)|p.R156fs*18(1)|p.R156_A161del(1)|p.R158_A159insXX(1)|p.V157_M160delVRAM(1)|p.V157_R158delVR(1)|p.S149fs*72(1)|p.A159fs*21(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.R156fs*20(1)|p.V157_I162delVRAMAI(1)|p.R26L(1)|p.V157fs*21(1)|p.R158fs*8(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)		GGCCATGGCGCGGACGCGGGT	0.627		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)			36	45	---	---	---	---	PASS	T	7578457	T	T	7578457	3	4	92	1	0	0	0	0	1	0	0	0	16378	768	27	1	825	1	TP53	17	7578457	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	438560	7578457	73616753	140	34885										
ERBB2	2064	broad.mit.edu	37	chr17	37864713	37864713	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cgtgctagacaatggagaccCgctgaacaataccacccctg	9	14	0	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr17:37864713C>T	uc002hso.2	+	3	603	c.365C>T	c.(364-366)CCG>CTG	p.P122L	ERBB2_uc002hsm.2_Missense_Mutation_p.P92L|ERBB2_uc010cwa.2_Missense_Mutation_p.P107L|ERBB2_uc002hsp.2_5'UTR|ERBB2_uc010cwb.2_Missense_Mutation_p.P122L|ERBB2_uc010wek.1_Intron|ERBB2_uc002hsl.2_Missense_Mutation_p.P92L|ERBB2_uc002hsn.1_Missense_Mutation_p.P122L	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	122	Extracellular (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	AATGGAGACCCGCTGAACAAT	0.602		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			62	93	---	---	---	---	PASS	T	37864713	T	T	37864713	3	4	92	1	0	0	0	0	1	0	0	0	5206	652	23	1	375	1	ERBB2	17	37864713	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	30286256	37864713	43330497	141	34886										
DLX4	1748	broad.mit.edu	37	chr17	48050472	48050472	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ggctgtccccggaaccctccGagcggcgccctcaggccccc	12	21	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr17:48050472G>T	uc002ipv.2	+	2	590	c.319G>T	c.(319-321)GAG>TAG	p.E107*	DLX4_uc002ipw.2_Nonsense_Mutation_p.E35*	NM_138281	NP_612138	Q92988	DLX4_HUMAN	distal-less homeobox 4 isoform a	107					multicellular organismal development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGAACCCTCCGAGCGGCGCCC	0.662													15	19	---	---	---	---	PASS	T	48050472	T	T	48050472	4	4	92	1	0	0	0	0	0	1	0	0	4573	1059	37	2	392	2	DLX4	17	48050472	Nonsense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	10185759	48050472	33144738	142	34887										
ANKRD12	23253	broad.mit.edu	37	chr18	9254528	9254528	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aaacaaaagccatctagggtCttatattcaagtactgaaag	7	7	3	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr18:9254528C>G	uc002knv.2	+	9	1520	c.1263C>G	c.(1261-1263)GTC>GTG	p.V421V	ANKRD12_uc002knw.2_Silent_p.V398V|ANKRD12_uc002knx.2_Silent_p.V398V|ANKRD12_uc010dkx.1_Silent_p.V128V	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	421						nucleus				ovary(2)|central_nervous_system(1)	3						CATCTAGGGTCTTATATTCAA	0.323													25	152	---	---	---	---	PASS	G	9254528	G	G	9254528	2	3	92	1	0	0	0	0	0	0	0	1	640	900	32	2		2	ANKRD12	18	9254528	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08		9254528	68822720	143	34888										
KIAA1468	57614	broad.mit.edu	37	chr18	59942704	59942704	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gtactgctgctagaatgtttGaggtatgtcaacacatgcct	10	8	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr18:59942704G>A	uc002lil.2	+	22	3180	c.2965G>A	c.(2965-2967)GAG>AAG	p.E989K	KIAA1468_uc002lik.1_Missense_Mutation_p.E985K|KIAA1468_uc010xel.1_Missense_Mutation_p.E989K|KIAA1468_uc002lim.2_Missense_Mutation_p.E667K	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	989							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				TAGAATGTTTGAGGTATGTCA	0.363													13	56	---	---	---	---	PASS	A	59942704	A	A	59942704	3	1	92	1	0	0	0	0	1	0	0	0	8236	1291	45	2	3051	2	KIAA1468	18	59942704	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	50688176	59942704	18134544	144	34889										
SOCS6	9306	broad.mit.edu	37	chr18	67993357	67993357	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctggatctgcaacttaccccGtcagactgaccaacccagtg	8	15	2	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr18:67993357G>A	uc002lkr.1	+	2	1769	c.1453G>A	c.(1453-1455)GTC>ATC	p.V485I	SOCS6_uc010dqq.2_Missense_Mutation_p.V485I	NM_004232	NP_004223	O14544	SOCS6_HUMAN	suppressor of cytokine signaling 6	485	SH2.				defense response|JAK-STAT cascade|negative regulation of signal transduction|regulation of growth	cytoplasm				large_intestine(1)|lung(1)	2		Esophageal squamous(42;0.129)|Colorectal(73;0.152)				AACTTACCCCGTCAGACTGAC	0.458													15	73	---	---	---	---	PASS	A	67993357	A	A	67993357	3	1	92	1	0	0	0	0	1	0	0	0	14918	1145	40	1	1455	1	SOCS6	18	67993357	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	8050653	67993357	10083891	145	34890										
KCNG2	26251	broad.mit.edu	37	chr18	77659474	77659474	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctgggcgcgcgccgcgacttCtccagcgtgcccgccagcta	13	18	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr18:77659474C>G	uc010xfl.1	+	2	1059	c.1059C>G	c.(1057-1059)TTC>TTG	p.F353L		NM_012283	NP_036415	Q9UJ96	KCNG2_HUMAN	potassium voltage-gated channel, subfamily G,	353					energy reserve metabolic process|regulation of heart contraction|regulation of insulin secretion	voltage-gated potassium channel complex	delayed rectifier potassium channel activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;6.92e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0244)		GCCGCGACTTCTCCAGCGTGC	0.716													5	20	---	---	---	---	PASS	G	77659474	G	G	77659474	3	3	92	1	0	0	0	0	1	0	0	0	8028	912	32	2	1065	2	KCNG2	18	77659474	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	9666117	77659474	417774	146	34891										
SBNO2	22904	broad.mit.edu	37	chr19	1108809	1108809	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ttcctgtccttggtcttcagCcgcacgatctgcaggtagct	10	13	3	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:1108809C>T	uc002lrk.3	-	31	3823	c.3585G>A	c.(3583-3585)CGG>CGA	p.R1195R	SBNO2_uc002lri.3_5'UTR|SBNO2_uc002lrj.3_Silent_p.R1138R|SBNO2_uc010dse.2_Silent_p.R1178R|SBNO2_uc010xgj.1_Intron	NM_014963	NP_055778	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 isoform 1	1195					macrophage activation involved in immune response|negative regulation of transcription, DNA-dependent|regulation of inflammatory response|transcription, DNA-dependent						0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGTCTTCAGCCGCACGATCT	0.716													9	12	---	---	---	---	PASS	T	1108809	T	T	1108809	2	4	92	1	0	0	0	0	0	0	0	1	13863	726	26	3		3	SBNO2	19	1108809	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08		1108809	58020174	147	34892										
KANK3	256949	broad.mit.edu	37	chr19	8389685	8389685	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atgtcctgtcggccatggctGatggccagcatgagggctgt	15	10	0	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:8389685G>A	uc010dwa.2	-	9	2178	c.2112C>T	c.(2110-2112)ATC>ATT	p.I704I		NM_198471	NP_940873	Q6NY19	KANK3_HUMAN	ankyrin repeat domain 47	704	ANK 3.										0						GGCCATGGCTGATGGCCAGCA	0.637													23	63	---	---	---	---	PASS	A	8389685	A	A	8389685	2	1	92	1	0	0	0	0	0	0	0	1	7978	1280	45	2		2	KANK3	19	8389685	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	7280876	8389685	50739298	148	34893										
ACTL9	284382	broad.mit.edu	37	chr19	8808794	8808794	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ccggactgccccgaggtggcGggtttcttgggctggcagcc	17	13	1	0	rs141160056	by1000genomes	TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:8808794G>T	uc002mkl.2	-	1	379	c.258C>A	c.(256-258)CCC>CCA	p.P86P		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	86						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						CCGAGGTGGCGGGTTTCTTGG	0.662													3	41	---	---	---	---	PASS	T	8808794	T	T	8808794	2	4	92	1	0	0	0	0	0	0	0	1	203	1103	39	1		1	ACTL9	19	8808794	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	419109	8808794	50320189	149	34894										
ZNF561	93134	broad.mit.edu	37	chr19	9727722	9727722	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atagtgatgttactcttaccCacagaggccaggttcatgta	9	9	2	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:9727722C>T	uc002mlu.2	-	4	445	c.240G>A	c.(238-240)GTG>GTA	p.V80V	ZNF561_uc010dwu.2_Silent_p.V11V|ZNF561_uc010xkr.1_5'UTR	NM_152289	NP_689502	Q8N587	ZN561_HUMAN	zinc finger protein 561	80	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TACTCTTACCCACAGAGGCCA	0.299													17	63	---	---	---	---	PASS	T	9727722	T	T	9727722	2	4	92	1	0	0	0	0	0	0	0	1	17989	608	21	3		3	ZNF561	19	9727722	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	918928	9727722	49401261	150	34895										
HOOK2	29911	broad.mit.edu	37	chr19	12878912	12878912	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cggccttcatggcctcctccTgccgctggccctgcagttcc	10	19	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:12878912T>A	uc002muy.2	-	12	1301	c.1130A>T	c.(1129-1131)CAG>CTG	p.Q377L	HOOK2_uc010xmq.1_5'Flank|HOOK2_uc002muz.2_Missense_Mutation_p.Q377L	NM_013312	NP_037444	Q96ED9	HOOK2_HUMAN	hook homolog 2 isoform 1	377	Sufficient for interaction with microtubules.|Potential.				early endosome to late endosome transport|endocytosis|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|protein transport	centrosome|FHF complex|microtubule	identical protein binding|microtubule binding			ovary(1)|breast(1)|skin(1)	3						GGCCTCCTCCTGCCGCTGGCC	0.542													153	54	---	---	---	---	PASS	A	12878912	A	A	12878912	3	1	92	1	0	0	0	0	1	0	0	0	7283	1580	55	5	1077	5	HOOK2	19	12878912	Missense_Mutation	SNP	T	TCGA-39-5035-01A-01D-1441-08	3151190	12878912	46250071	151	34896										
CASP14	23581	broad.mit.edu	37	chr19	15164318	15164318	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atatgatatgtcaggtgcccGcctggccctaatactgtgtg	11	10	1	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:15164318G>C	uc010dzv.1	+	3	361	c.53G>C	c.(52-54)CGC>CCC	p.R18P	CASP14_uc002naf.2_Missense_Mutation_p.R18P	NM_012114	NP_036246	P31944	CASPE_HUMAN	caspase 14 precursor	18					apoptosis|cell differentiation|epidermis development|proteolysis	cytoplasm|nucleus	cysteine-type endopeptidase activity			skin(2)|ovary(1)|lung(1)	4						TCAGGTGCCCGCCTGGCCCTA	0.433													45	248	---	---	---	---	PASS	C	15164318	C	C	15164318	3	2	92	1	0	0	0	0	1	0	0	0	2670	1087	38	4	59	4	CASP14	19	15164318	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	2285406	15164318	43964665	152	34897										
CYP4F12	66002	broad.mit.edu	37	chr19	15791259	15791259	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ccgccaccgtcggatgctgaCgcccgccttccatttcaaca	8	18	1	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:15791259C>T	uc002nbl.2	+	5	516	c.455C>T	c.(454-456)ACG>ATG	p.T152M	CYP4F12_uc010xoo.1_Missense_Mutation_p.T152M|CYP4F12_uc010xop.1_3'UTR	NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					CGGATGCTGACGCCCGCCTTC	0.542													18	57	---	---	---	---	PASS	T	15791259	T	T	15791259	3	4	92	1	0	0	0	0	1	0	0	0	4187	536	19	1	469	1	CYP4F12	19	15791259	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	626941	15791259	43337724	153	34898										
MYO9B	4650	broad.mit.edu	37	chr19	17265133	17265133	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tttgttttccagcataacttGaagattgaagatggggagga	12	4	0	4			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:17265133G>C	uc010eak.2	+	6	1259	c.1107G>C	c.(1105-1107)TTG>TTC	p.L369F	MYO9B_uc002nfi.2_Missense_Mutation_p.L369F|MYO9B_uc002nfj.1_Missense_Mutation_p.L369F	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	369	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						AGCATAACTTGAAGATTGAAG	0.567													26	138	---	---	---	---	PASS	C	17265133	C	C	17265133	3	2	92	1	0	0	0	0	1	0	0	0	10085	1281	45	2	1125	2	MYO9B	19	17265133	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	1473874	17265133	41863850	154	34899										
ANO8	57719	broad.mit.edu	37	chr19	17442022	17442022	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	accaaagtaatcacagatgtCatctgccaggggacaagtgg	11	9	3	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:17442022C>G	uc002ngf.2	-	7	865	c.706G>C	c.(706-708)GAC>CAC	p.D236H	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	236	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						TCACAGATGTCATCTGCCAGG	0.572													60	65	---	---	---	---	PASS	G	17442022	G	G	17442022	3	3	92	1	0	0	0	0	1	0	0	0	703	826	29	2	3040	2	ANO8	19	17442022	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	176889	17442022	41686961	155	34900										
TM6SF2	53345	broad.mit.edu	37	chr19	19381156	19381156	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tggtcgtcccccaagtacctCcttggtgtagaactccatga	9	13	0	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:19381156C>T	uc002nmd.1	-	3	345	c.295G>A	c.(295-297)GAG>AAG	p.E99K	HAPLN4_uc002nmc.2_5'UTR	NM_001001524	NP_001001524	Q9BZW4	TM6S2_HUMAN	transmembrane 6 superfamily member 2	99						integral to membrane					0			Epithelial(12;0.0151)			CCAAGTACCTCCTTGGTGTAG	0.607													70	31	---	---	---	---	PASS	T	19381156	T	T	19381156	3	4	92	1	0	0	0	0	1	0	0	0	15970	864	30	2	870	2	TM6SF2	19	19381156	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	1939134	19381156	39747827	156	34901										
CBLC	23624	broad.mit.edu	37	chr19	45284515	45284515	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctcctgggcacctgccacccTgtggaaccaggctgcacagc	11	17	0	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:45284515T>C	uc002ozs.2	+	3	615	c.552T>C	c.(550-552)CCT>CCC	p.P184P	CBLC_uc010ejt.2_Silent_p.P184P	NM_012116	NP_036248	Q9ULV8	CBLC_HUMAN	Cas-Br-M (murine) ecotropic retroviral	184	EF-hand-like.|Cbl-PTB.				cell surface receptor linked signaling pathway|negative regulation of epidermal growth factor receptor activity|negative regulation of MAP kinase activity|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	calcium ion binding|epidermal growth factor receptor binding|phosphotyrosine binding|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|skin(1)	6	Lung NSC(12;0.00136)|all_lung(12;0.00371)	Ovarian(192;0.231)				CCTGCCACCCTGTGGAACCAG	0.652			M		AML								4	113	---	---	---	---	PASS	C	45284515	C	C	45284515	2	2	92	1	0	0	0	0	0	0	0	1	2702	1567	55	5		5	CBLC	19	45284515	Silent	SNP	T	TCGA-39-5035-01A-01D-1441-08	25903359	45284515	13844468	157	34902										
NKPD1	284353	broad.mit.edu	37	chr19	45656363	45656363	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctgcgccgctggtagatctcCaggaagcacaggaagtcggt	14	11	1	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:45656363C>T	uc010xxi.1	-	4	1332	c.1332G>A	c.(1330-1332)CTG>CTA	p.L444L		NM_198478	NP_940880			NTPase, KAP family P-loop domain containing 1												0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00863)|GBM - Glioblastoma multiforme(486;0.231)		GGTAGATCTCCAGGAAGCACA	0.637													3	13	---	---	---	---	PASS	T	45656363	T	T	45656363	2	4	92	1	0	0	0	0	0	0	0	1	10446	581	21	3		3	NKPD1	19	45656363	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	371848	45656363	13472620	158	34903										
PRKCG	5582	broad.mit.edu	37	chr19	54395051	54395051	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gacccgaacggtgaaagccaCgctaaaccctgtgtggaatg	12	11	0	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:54395051C>G	uc002qcq.1	+	6	935	c.653C>G	c.(652-654)ACG>AGG	p.T218R	PRKCG_uc010eqz.1_Missense_Mutation_p.T218R|PRKCG_uc010yef.1_Missense_Mutation_p.T218R|PRKCG_uc010yeg.1_Missense_Mutation_p.T218R|PRKCG_uc010yeh.1_Missense_Mutation_p.T105R	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	218	C2.				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)		GTGAAAGCCACGCTAAACCCT	0.537													35	93	---	---	---	---	PASS	G	54395051	G	G	54395051	3	3	92	1	0	0	0	0	1	0	0	0	12512	536	19	4	675	4	PRKCG	19	54395051	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	8738688	54395051	4733932	159	34904										
ZIM3	114026	broad.mit.edu	37	chr19	57647047	57647047	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctcacatttatagggcctttCctctgcgtgagttttctgat	8	10	3	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr19:57647047C>G	uc002qnz.1	-	5	1044	c.658G>C	c.(658-660)GAA>CAA	p.E220Q		NM_052882	NP_443114	Q96PE6	ZIM3_HUMAN	zinc finger, imprinted 3	220					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.243)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TAGGGCCTTTCCTCTGCGTGA	0.428													48	156	---	---	---	---	PASS	G	57647047	G	G	57647047	3	3	92	1	0	0	0	0	1	0	0	0	17682	864	30	2	764	2	ZIM3	19	57647047	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	3251996	57647047	1481936	160	34905										
CST8	10047	broad.mit.edu	37	chr20	23472426	23472426	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	attaaaacccgtcaatgcctCaaatgccaacgtgaagcagt	7	11	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr20:23472426C>T	uc002wth.1	+	2	479	c.122C>T	c.(121-123)TCA>TTA	p.S41L		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	41						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					GTCAATGCCTCAAATGCCAAC	0.507													59	116	---	---	---	---	PASS	T	23472426	T	T	23472426	3	4	92	1	0	0	0	0	1	0	0	0	3978	838	29	2	124	2	CST8	20	23472426	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08		23472426	39553094	161	34906										
TTPAL	79183	broad.mit.edu	37	chr20	43108970	43108970	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gctgtagaagaagctggcccGaagtcttcaataacttgaag	11	8	2	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr20:43108970G>A	uc002xmc.1	+	3	455	c.331G>A	c.(331-333)GAA>AAA	p.E111K	TTPAL_uc002xmd.1_Missense_Mutation_p.E111K|TTPAL_uc010ggr.1_5'UTR	NM_024331	NP_077307	Q9BTX7	TTPAL_HUMAN	tocopherol (alpha) transfer protein-like	111						intracellular	transporter activity			breast(1)	1						AAGCTGGCCCGAAGTCTTCAA	0.577													14	85	---	---	---	---	PASS	A	43108970	A	A	43108970	3	1	92	1	0	0	0	0	1	0	0	0	16734	1059	37	2	333	2	TTPAL	20	43108970	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	19636544	43108970	19916550	162	34907										
UBE2C	11065	broad.mit.edu	37	chr20	44444263	44444263	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cccacagtgaagttcctcacGccctgctatcaccccaacgt	6	18	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr20:44444263G>A	uc002xpm.2	+	4	380	c.300G>A	c.(298-300)ACG>ACA	p.T100T	UBE2C_uc002xpl.2_Intron|UBE2C_uc002xpn.2_Silent_p.T61T|UBE2C_uc002xpo.2_Silent_p.T71T|UBE2C_uc002xpp.2_Intron|UBE2C_uc002xpq.2_Silent_p.T61T	NM_007019	NP_008950	O00762	UBE2C_HUMAN	ubiquitin-conjugating enzyme E2C isoform 1	100					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cyclin catabolic process|exit from mitosis|free ubiquitin chain polymerization|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|positive regulation of exit from mitosis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|protein K48-linked ubiquitination|spindle organization	anaphase-promoting complex|cytosol|nucleoplasm	ATP binding|protein binding|ubiquitin-protein ligase activity				0		Myeloproliferative disorder(115;0.0122)				AGTTCCTCACGCCCTGCTATC	0.517													20	124	---	---	---	---	PASS	A	44444263	A	A	44444263	2	1	92	1	0	0	0	0	0	0	0	1	16843	1074	38	1		1	UBE2C	20	44444263	Silent	SNP	G	TCGA-39-5035-01A-01D-1441-08	1335293	44444263	18581257	163	34908										
PHACTR3	116154	broad.mit.edu	37	chr20	58416495	58416495	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aattaagagacagaaaaattCtgatacgattcagtgattac	7	5	2	4			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr20:58416495C>T	uc002yau.2	+	11	1959	c.1492C>T	c.(1492-1494)CTG>TTG	p.L498L	PHACTR3_uc002yat.2_Silent_p.L495L|PHACTR3_uc010zzw.1_Silent_p.L457L|PHACTR3_uc002yav.2_Silent_p.L457L|PHACTR3_uc002yaw.2_Silent_p.L457L|PHACTR3_uc002yax.2_Silent_p.L387L|PHACTR3_uc002yay.2_Silent_p.L67L	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	498	Required for PP1CA binding and inhibition of PP1 activity.|RPEL 4.					nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			CAGAAAAATTCTGATACGATT	0.403													8	66	---	---	---	---	PASS	T	58416495	T	T	58416495	2	4	92	1	0	0	0	0	0	0	0	1	11811	912	32	2		2	PHACTR3	20	58416495	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	13972232	58416495	4609025	164	34909										
LAMA5	3911	broad.mit.edu	37	chr20	60893681	60893681	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ttctcctcccagaggctgctCagctgctcctgcacccgggc	10	18	2	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr20:60893681C>G	uc002ycq.2	-	53	7135	c.7068G>C	c.(7066-7068)CTG>CTC	p.L2356L		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2356	Domain II and I.|Potential.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGAGGCTGCTCAGCTGCTCCT	0.667													23	29	---	---	---	---	PASS	G	60893681	G	G	60893681	2	3	92	1	0	0	0	0	0	0	0	1	8609	813	29	2		2	LAMA5	20	60893681	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	2477186	60893681	2131839	165	34910										
LAMA5	3911	broad.mit.edu	37	chr20	60893954	60893954	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gcctgcggggcccccaggtcCcgggcccgcatctcccagag	14	19	1	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr20:60893954C>T	uc002ycq.2	-	52	7054	c.6987G>A	c.(6985-6987)CGG>CGA	p.R2329R		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2329	Domain II and I.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCCCCAGGTCCCGGGCCCGCA	0.701													8	9	---	---	---	---	PASS	T	60893954	T	T	60893954	2	4	92	1	0	0	0	0	0	0	0	1	8609	610	22	3		3	LAMA5	20	60893954	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	273	60893954	2131566	166	34911										
NTSR1	4923	broad.mit.edu	37	chr20	61341012	61341012	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tacttcctgcgcgacgcctgCacctacgccacggccctcaa	8	19	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr20:61341012C>A	uc002ydf.2	+	1	824	c.453C>A	c.(451-453)TGC>TGA	p.C151*		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1	151	Helical; Name=3; (Potential).					endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			GCGACGCCTGCACCTACGCCA	0.667													19	41	---	---	---	---	PASS	A	61341012	A	A	61341012	4	1	92	1	0	0	0	0	0	1	0	0	10710	718	25	3	455	3	NTSR1	20	61341012	Nonsense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	447058	61341012	1684508	167	34912										
RGS19	10287	broad.mit.edu	37	chr20	62705589	62705589	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ggcctcggccttcagctcctCgcaggccaaccagaagagca	11	16	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr20:62705589C>T	uc002yhy.2	-	5	637	c.370G>A	c.(370-372)GAG>AAG	p.E124K	RGS19_uc002yhz.2_Missense_Mutation_p.E102K|RGS19_uc002yia.2_Missense_Mutation_p.E124K|RGS19_uc002yib.2_Missense_Mutation_p.E124K	NM_005873	NP_005864	P49795	RGS19_HUMAN	G protein signalling regulator 19	124	RGS.				autophagy|G-protein coupled receptor protein signaling pathway|negative regulation of signal transduction|small GTPase mediated signal transduction	Golgi apparatus|membrane fraction|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			skin(1)	1	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					TTCAGCTCCTCGCAGGCCAAC	0.602													23	49	---	---	---	---	PASS	T	62705589	T	T	62705589	3	4	92	1	0	0	0	0	1	0	0	0	13301	893	31	2	291	2	RGS19	20	62705589	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	1364577	62705589	319931	168	34913										
DSCAM	1826	broad.mit.edu	37	chr21	41719705	41719705	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gtgatccattataaggttttCgtggttgatccctgtgatcc	10	8	0	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr21:41719705C>G	uc002yyq.1	-	6	1554	c.1102G>C	c.(1102-1104)GAA>CAA	p.E368Q	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	368	Extracellular (Potential).|Ig-like C2-type 4.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				ATAAGGTTTTCGTGGTTGATC	0.512													107	181	---	---	---	---	PASS	G	41719705	G	G	41719705	3	3	92	1	0	0	0	0	1	0	0	0	4768	893	31	2	5048	2	DSCAM	21	41719705	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08		41719705	6410190	169	34914										
CCT8L2	150160	broad.mit.edu	37	chr22	17071946	17071946	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	tcgaaatccttgggctttgaCtattagggtgtcccacaccc	9	12	0	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr22:17071946C>T	uc002zlp.1	-	1	1755	c.1495G>A	c.(1495-1497)GTC>ATC	p.V499I		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	499					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				TGGGCTTTGACTATTAGGGTG	0.507													58	110	---	---	---	---	PASS	T	17071946	T	T	17071946	3	4	92	1	0	0	0	0	1	0	0	0	2961	565	20	3	182	3	CCT8L2	22	17071946	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08		17071946	34232620	170	34915										
APOL2	23780	broad.mit.edu	37	chr22	36624152	36624152	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctgtggacctgctcaacctcCtctgcaagggcacggagctt	11	14	2	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr22:36624152C>A	uc003aoz.2	-	5	648	c.312G>T	c.(310-312)GAG>GAT	p.E104D	APOL2_uc011amm.1_Missense_Mutation_p.E216D|APOL2_uc003apa.2_Missense_Mutation_p.E104D	NM_030882	NP_112092	Q9BQE5	APOL2_HUMAN	apolipoprotein L2	104					acute-phase response|cholesterol metabolic process|lipid transport|lipoprotein metabolic process|maternal process involved in female pregnancy|multicellular organismal development	endoplasmic reticulum membrane|extracellular region	high-density lipoprotein particle binding|lipid binding|receptor binding				0						GCTCAACCTCCTCTGCAAGGG	0.547													4	89	---	---	---	---	PASS	A	36624152	A	A	36624152	3	1	92	1	0	0	0	0	1	0	0	0	806	680	24	3	705	3	APOL2	22	36624152	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	19552206	36624152	14680414	171	34916										
CRELD2	79174	broad.mit.edu	37	chr22	50316902	50316902	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	atgtggacgagtgtgcggccGagccgcctccctgcagcgct	15	14	0	0	rs143760812	byFrequency	TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chr22:50316902G>A	uc003bja.2	+	7	844	c.709G>A	c.(709-711)GAG>AAG	p.E237K	CRELD2_uc003biz.3_Missense_Mutation_p.E237K|CRELD2_uc010haj.2_Missense_Mutation_p.E237K|CRELD2_uc010hal.2_Missense_Mutation_p.E286K|CRELD2_uc010hak.2_Intron|CRELD2_uc010ham.2_Missense_Mutation_p.E237K	NM_024324	NP_077300	Q6UXH1	CREL2_HUMAN	cysteine-rich with EGF-like domains 2 isoform b	237	FU 1.					endoplasmic reticulum|extracellular region	calcium ion binding				0		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.198)|LUAD - Lung adenocarcinoma(64;0.247)		GTGTGCGGCCGAGCCGCCTCC	0.692													23	19	---	---	---	---	PASS	A	50316902	A	A	50316902	3	1	92	1	0	0	0	0	1	0	0	0	3867	1059	37	2	886	2	CRELD2	22	50316902	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	13692750	50316902	987664	172	34917										
MXRA5	25878	broad.mit.edu	37	chrX	3248135	3248135	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ggatttccctgcaagtaaagAttctccagaagcggcatgtt	10	9	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:3248135A>T	uc004crg.3	-	4	790	c.633T>A	c.(631-633)AAT>AAA	p.N211K		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	211						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GCAAGTAAAGATTCTCCAGAA	0.468													8	28	---	---	---	---	PASS	T	3248135	T	T	3248135	3	4	92	1	0	0	0	0	1	0	0	0	10003	330	12	5	7869	5	MXRA5	23	3248135	Missense_Mutation	SNP	A	TCGA-39-5035-01A-01D-1441-08		3248135	152022425	173	34918										
ACE2	59272	broad.mit.edu	37	chrX	15609979	15609979	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ttgccattatttcattcaaaCctgttatcccaaagcacaca	3	12	2	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:15609979C>A	uc004cxa.1	-	4	608	c.440G>T	c.(439-441)GGT>GTT	p.G147V	ACE2_uc004cxb.2_Missense_Mutation_p.G147V	NM_021804	NP_068576	Q9BYF1	ACE2_HUMAN	angiotensin I converting enzyme 2 precursor	147	Extracellular (Potential).				angiotensin-mediated drinking behavior|proteolysis|receptor biosynthetic process|regulation of cell proliferation|virion attachment, binding of host cell surface receptor	cell surface|extracellular space|integral to membrane|membrane raft|plasma membrane	carboxypeptidase activity|glycoprotein binding|metallopeptidase activity|peptidyl-dipeptidase activity|viral receptor activity|zinc ion binding			ovary(3)	3	Hepatocellular(33;0.183)				Moexipril(DB00691)	TTCATTCAAACCTGTTATCCC	0.378													102	191	---	---	---	---	PASS	A	15609979	A	A	15609979	3	1	92	1	0	0	0	0	1	0	0	0	137	521	18	3	2037	3	ACE2	23	15609979	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	12361844	15609979	139660581	174	34919										
SSX7	280658	broad.mit.edu	37	chrX	52681966	52681966	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctcttcatatacacatagctGattttctccaaggatttcat	4	10	4	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:52681966G>C	uc004dqx.1	-	3	297	c.138C>G	c.(136-138)ATC>ATG	p.I46M		NM_173358	NP_775494	Q7RTT5	SSX7_HUMAN	synovial sarcoma, X breakpoint 7	46	KRAB-related.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding			skin(1)	1	Ovarian(276;0.236)					ACACATAGCTGATTTTCTCCA	0.373													46	101	---	---	---	---	PASS	C	52681966	C	C	52681966	3	2	92	1	0	0	0	0	1	0	0	0	15208	1280	45	2	448	2	SSX7	23	52681966	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	37071987	52681966	102588594	175	34920										
WNK3	65267	broad.mit.edu	37	chrX	54359719	54359719	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cttcatttctgcttcttcttCcatttccttttcatttttct	1	12	6	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:54359719C>T	uc004dtd.1	-	2	827	c.388G>A	c.(388-390)GAA>AAA	p.E130K	WNK3_uc004dtc.1_Missense_Mutation_p.E130K	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	130					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						GCTTCTTCTTCCATTTCCTTT	0.358													21	73	---	---	---	---	PASS	T	54359719	T	T	54359719	3	4	92	1	0	0	0	0	1	0	0	0	17376	864	30	2	5106	2	WNK3	23	54359719	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	1677753	54359719	100910841	176	34921										
DGAT2L6	347516	broad.mit.edu	37	chrX	69420307	69420307	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gcgagaatatgtgatgtcaaTgggtgagtataagaaataat	12	2	1	4			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:69420307T>C	uc004dxx.1	+	4	567	c.470T>C	c.(469-471)ATG>ACG	p.M157T		NM_198512	NP_940914	Q6ZPD8	DG2L6_HUMAN	diacylglycerol O-acyltransferase 2-like 6	157					lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(1)	1						GTGATGTCAATGGGTGAGTAT	0.398													12	50	---	---	---	---	PASS	C	69420307	C	C	69420307	3	2	92	1	0	0	0	0	1	0	0	0	4459	1464	51	5	484	5	DGAT2L6	23	69420307	Missense_Mutation	SNP	T	TCGA-39-5035-01A-01D-1441-08	15060588	69420307	85850253	177	34922										
KIF4A	24137	broad.mit.edu	37	chrX	69615553	69615553	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	aacgaaattgaggttatggtCagtactgaggaagccaaacg	12	6	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:69615553C>T	uc004dyg.2	+	21	2392	c.2265C>T	c.(2263-2265)GTC>GTT	p.V755V	KIF4A_uc010nkw.2_Silent_p.V755V	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	755	Potential.|Interaction with PRC1.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						AGGTTATGGTCAGTACTGAGG	0.443													11	64	---	---	---	---	PASS	T	69615553	T	T	69615553	2	4	92	1	0	0	0	0	0	0	0	1	8303	813	29	2		2	KIF4A	23	69615553	Silent	SNP	C	TCGA-39-5035-01A-01D-1441-08	195246	69615553	85655007	178	34923										
ZMYM3	9203	broad.mit.edu	37	chrX	70466282	70466282	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	agtggcttacacatggcagcCttgtttttgcggggtgttgc	14	8	0	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:70466282C>G	uc004dzh.1	-	15	2580	c.2493G>C	c.(2491-2493)AAG>AAC	p.K831N	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Missense_Mutation_p.K831N|ZMYM3_uc004dzj.1_Missense_Mutation_p.K819N	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	831					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					ACATGGCAGCCTTGTTTTTGC	0.572													9	45	---	---	---	---	PASS	G	70466282	G	G	70466282	3	3	92	1	0	0	0	0	1	0	0	0	17698	680	24	4	1663	4	ZMYM3	23	70466282	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	850729	70466282	84804278	179	34924										
RPA4	29935	broad.mit.edu	37	chrX	96139743	96139743	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gagccttgaggtattgaaaaTtcatgtcctagaggacatga	11	6	1	4			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:96139743T>C	uc004efv.3	+	1	732	c.434T>C	c.(433-435)ATT>ACT	p.I145T	DIAPH2_uc004eft.3_Intron|DIAPH2_uc004efu.3_Intron|DIAPH2_uc004efs.2_Intron	NM_013347	NP_037479	Q13156	RFA4_HUMAN	replication protein A4, 34kDa	145					DNA damage checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair	DNA replication factor A complex|nucleoplasm	single-stranded DNA binding				0						GTATTGAAAATTCATGTCCTA	0.448								Other_identified_genes_with_known_or_suspected_DNA_repair_function					20	88	---	---	---	---	PASS	C	96139743	C	C	96139743	3	2	92	1	0	0	0	0	1	0	0	0	13539	1493	52	5	436	5	RPA4	23	96139743	Missense_Mutation	SNP	T	TCGA-39-5035-01A-01D-1441-08	25673461	96139743	59130817	180	34925										
TRPC5	7224	broad.mit.edu	37	chrX	111195573	111195573	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ctctgcagagagctctgtctCagccctcacaatttgcaggg	10	13	4	1			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:111195573C>T	uc004epl.1	-	2	995	c.76G>A	c.(76-78)GAG>AAG	p.E26K	TRPC5_uc004epm.1_Missense_Mutation_p.E26K	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	26	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						AGCTCTGTCTCAGCCCTCACA	0.517													23	103	---	---	---	---	PASS	T	111195573	T	T	111195573	3	4	92	1	0	0	0	0	1	0	0	0	16579	835	29	2	2885	2	TRPC5	23	111195573	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	15055830	111195573	44074987	181	34926										
ZCCHC16	340595	broad.mit.edu	37	chrX	111698850	111698850	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gattgccttgccaaacgttcTcgagctccggcaacgacaaa	9	13	1	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:111698850T>G	uc004epo.1	+	3	1335	c.894T>G	c.(892-894)TCT>TCG	p.S298S		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	298							nucleic acid binding|zinc ion binding			ovary(1)	1						CCAAACGTTCTCGAGCTCCGG	0.493													5	55	---	---	---	---	PASS	G	111698850	G	G	111698850	2	3	92	1	0	0	0	0	0	0	0	1	17581	1538	54	5		5	ZCCHC16	23	111698850	Silent	SNP	T	TCGA-39-5035-01A-01D-1441-08	503277	111698850	43571710	182	34927										
DOCK11	139818	broad.mit.edu	37	chrX	117764395	117764395	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	cagtataaccgcctggatcaGtatgaaatcagaagcctcct	8	11	2	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:117764395G>C	uc004eqp.2	+	35	3891	c.3828G>C	c.(3826-3828)CAG>CAC	p.Q1276H	DOCK11_uc004eqq.2_Missense_Mutation_p.Q1055H	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1276					blood coagulation	cytosol	GTP binding			ovary(3)	3						GCCTGGATCAGTATGAAATCA	0.403													30	256	---	---	---	---	PASS	C	117764395	C	C	117764395	3	2	92	1	0	0	0	0	1	0	0	0	4686	1020	36	4	3966	4	DOCK11	23	117764395	Missense_Mutation	SNP	G	TCGA-39-5035-01A-01D-1441-08	6065545	117764395	37506165	183	34928										
GLUD2	2747	broad.mit.edu	37	chrX	120182719	120182719	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	gttgaccaaatccaacgcacCcagagtcaaagccaagatca	7	13	2	3			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:120182719C>A	uc004eto.2	+	1	1258	c.1181C>A	c.(1180-1182)CCC>CAC	p.P394H		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	394					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	TCCAACGCACCCAGAGTCAAA	0.483													57	234	---	---	---	---	PASS	A	120182719	A	A	120182719	3	1	92	1	0	0	0	0	1	0	0	0	6477	623	22	3	1183	3	GLUD2	23	120182719	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	2418324	120182719	35087841	184	34929										
ODZ1	10178	broad.mit.edu	37	chrX	123515073	123515073	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	ccatcattgtatcggggagtCataggtagttggtccaagga	13	7	2	0			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:123515073C>T	uc004euj.2	-	31	7555	c.7491G>A	c.(7489-7491)ATG>ATA	p.M2497I	ODZ1_uc011muj.1_Missense_Mutation_p.M2503I|ODZ1_uc010nqy.2_Missense_Mutation_p.M2504I	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2497	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						ATCGGGGAGTCATAGGTAGTT	0.468													43	225	---	---	---	---	PASS	T	123515073	T	T	123515073	3	4	92	1	0	0	0	0	1	0	0	0	10834	826	29	2	690	2	ODZ1	23	123515073	Missense_Mutation	SNP	C	TCGA-39-5035-01A-01D-1441-08	3332354	123515073	31755487	185	34930										
F9	2158	broad.mit.edu	37	chrX	138643729	138643729	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.236263736263736	43	8.59690690429133e-08	2.40290873979753	3.39884300817874	1.79727303605221	0.676261718124988	0.925645401874291	25	catacagagcaaaagcgaaaTgtgattcgaattattcctca	7	8	1	2			TCGA-39-5035-01A-01D-1441-08	TCGA-39-5035-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	035fe73e-56b4-4afe-b70e-dd3c34027f2d	8b2bd323-6573-4816-8f89-dde6eb48738d	g.chrX:138643729T>G	uc004fas.1	+	8	914	c.885T>G	c.(883-885)AAT>AAG	p.N295K	F9_uc004fat.1_Missense_Mutation_p.N257K	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	295	Peptidase S1.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	AAAAGCGAAATGTGATTCGAA	0.348													34	108	---	---	---	---	PASS	G	138643729	G	G	138643729	3	3	92	1	0	0	0	0	1	0	0	0	5351	1461	51	5	915	5	F9	23	138643729	Missense_Mutation	SNP	T	TCGA-39-5035-01A-01D-1441-08	15128656	138643729	16626831	186	34931										
TNFRSF9	3604	broad.mit.edu	37	chr1	7995185	7995185	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtcccattcacaagcacagaCtttccatccaaagaacagct	5	14	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:7995185C>T	uc001aot.2	-	6	560	c.432G>A	c.(430-432)AAG>AAA	p.K144K		NM_001561	NP_001552	Q07011	TNR9_HUMAN	tumor necrosis factor receptor superfamily,	144	Extracellular (Potential).|TNFR-Cys 4.				induction of apoptosis|negative regulation of cell proliferation	integral to plasma membrane	binding|receptor activity			large_intestine(1)|lung(1)|ovary(1)|skin(1)	4	Ovarian(185;0.0634)|all_lung(157;0.151)	all_epithelial(116;9.63e-21)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.000625)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.93e-71)|GBM - Glioblastoma multiforme(8;3.72e-37)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;7.71e-06)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000419)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00103)|READ - Rectum adenocarcinoma(331;0.0649)		CAAGCACAGACTTTCCATCCA	0.468													19	59	---	---	---	---	PASS	T	7995185	T	T	7995185	2	4	93	1	0	0	0	0	0	0	0	1	16297	564	20	3		3	TNFRSF9	1	7995185	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08		7995185	241255436	1	34932										
PLOD1	5351	broad.mit.edu	37	chr1	12027126	12027126	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggagatggagcactttggccAgtggtctctgggcaacaaca	14	9	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:12027126A>T	uc001atm.2	+	16	1824	c.1733A>T	c.(1732-1734)CAG>CTG	p.Q578L	PLOD1_uc010obb.1_Missense_Mutation_p.Q625L	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	578					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	CACTTTGGCCAGTGGTCTCTG	0.632													36	78	---	---	---	---	PASS	T	12027126	T	T	12027126	3	4	93	1	0	0	0	0	1	0	0	0	12101	188	7	5	1795	5	PLOD1	1	12027126	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	4031941	12027126	237223495	2	34933										
RHD	6007	broad.mit.edu	37	chr1	25628018	25628018	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctctggcccccaggcgccctCttcttgtggatgttctggcc	11	16	4	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:25628018C>G	uc001bjz.2	+	5	700	c.642C>G	c.(640-642)CTC>CTG	p.L214L	RHD_uc010oep.1_Silent_p.L214L|RHD_uc001bkc.2_Silent_p.L214L|RHD_uc009vrm.2_Silent_p.L46L|RHD_uc001bka.2_Silent_p.L214L|RHD_uc001bkb.2_Silent_p.L214L|RHD_uc009vrn.2_Silent_p.L214L|RHD_uc009vro.2_Silent_p.L214L|RHD_uc009vrp.2_Silent_p.L214L	NM_016124	NP_057208	Q02161	RHD_HUMAN	Rh blood group D antigen isoform 1	214	Helical; (Potential).					integral to plasma membrane				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.39e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000332)|BRCA - Breast invasive adenocarcinoma(304;0.000438)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000908)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CAGGCGCCCTCTTCTTGTGGA	0.537													7	184	---	---	---	---	PASS	G	25628018	G	G	25628018	2	3	93	1	0	0	0	0	0	0	0	1	13327	900	32	2		2	RHD	1	25628018	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	13600892	25628018	223622603	3	34934										
PTGER3	5733	broad.mit.edu	37	chr1	71512400	71512400	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cagaccgacagcacgcacatGatccccataagctgaatggc	9	14	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:71512400G>T	uc001dfg.1	-	1	1092	c.861C>A	c.(859-861)ATC>ATA	p.I287I	PTGER3_uc001dfh.1_RNA|PTGER3_uc001dfi.1_RNA|PTGER3_uc001dfj.1_RNA|PTGER3_uc001dfk.1_Silent_p.I287I|PTGER3_uc001dfl.1_Silent_p.I287I|PTGER3_uc009wbm.1_Silent_p.I287I|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Silent_p.I287I|PTGER3_uc009wbn.1_Silent_p.I287I|PTGER3_uc009wbo.2_Silent_p.I287I|PTGER3_uc001dfo.2_Silent_p.I287I|PTGER3_uc001dfp.1_Silent_p.I287I|PTGER3_uc001dfq.2_Silent_p.I287I|uc001dfr.2_RNA	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	287	Helical; Name=6; (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	GCACGCACATGATCCCCATAA	0.627													23	74	---	---	---	---	PASS	T	71512400	T	T	71512400	2	4	93	1	0	0	0	0	0	0	0	1	12744	1280	45	2		2	PTGER3	1	71512400	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	45884382	71512400	177738221	4	34935										
TNNI3K	51086	broad.mit.edu	37	chr1	74954877	74954877	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttttttctatttacagggaaGacccgaattttctgaagttg	8	6	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:74954877G>T	uc001dgf.1	+	22	2177	c.2126G>T	c.(2125-2127)AGA>ATA	p.R709I	TNNI3K_uc001dge.1_Missense_Mutation_p.R810I	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	709	Protein kinase.					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						TTACAGGGAAGACCCGAATTT	0.343													28	91	---	---	---	---	PASS	T	74954877	T	T	74954877	3	4	93	1	0	0	0	0	1	0	0	0	16326	942	33	2	2567	2	TNNI3K	1	74954877	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	3442477	74954877	174295744	5	34936										
C1orf173	127254	broad.mit.edu	37	chr1	75078454	75078454	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggaaaaaggtgagactgaagGggaaaccatgatgccttttg	14	5	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:75078454G>T	uc001dgg.2	-	9	1259	c.1040C>A	c.(1039-1041)CCC>CAC	p.P347H	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.P141H	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	347										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						GAGACTGAAGGGGAAACCATG	0.413													16	44	---	---	---	---	PASS	T	75078454	T	T	75078454	3	4	93	1	0	0	0	0	1	0	0	0	2014	1232	43	3	3576	3	C1orf173	1	75078454	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	123577	75078454	174172167	6	34937										
MSH4	4438	broad.mit.edu	37	chr1	76343990	76343990	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agaacatacacagagattgtAgatgacatagcaggtaattt	9	5	0	4			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:76343990A>G	uc001dhd.1	+	11	1568	c.1527A>G	c.(1525-1527)GTA>GTG	p.V509V		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	509					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						CAGAGATTGTAGATGACATAG	0.373								MMR					8	64	---	---	---	---	PASS	G	76343990	G	G	76343990	2	3	93	1	0	0	0	0	0	0	0	1	9872	407	15	5		5	MSH4	1	76343990	Silent	SNP	A	TCGA-39-5036-01A-01D-1441-08	1265536	76343990	172906631	7	34938										
MSH4	4438	broad.mit.edu	37	chr1	76349469	76349469	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agtggaaaatccacatatttAaaacagattgctctttgtca	6	7	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:76349469A>T	uc001dhd.1	+	15	2111	c.2070A>T	c.(2068-2070)TTA>TTT	p.L690F		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	690					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						CCACATATTTAAAACAGATTG	0.348								MMR					39	107	---	---	---	---	PASS	T	76349469	T	T	76349469	3	4	93	1	0	0	0	0	1	0	0	0	9872	359	13	5	2128	5	MSH4	1	76349469	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	5479	76349469	172901152	8	34939										
DNASE2B	58511	broad.mit.edu	37	chr1	84880477	84880477	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aagccttcagaagtggaggaTtcatttgtacccagaattgg	11	7	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:84880477T>C	uc001djt.1	+	6	1045	c.1012T>C	c.(1012-1014)TTC>CTC	p.F338L	DNASE2B_uc001dju.1_Missense_Mutation_p.F130L|DNASE2B_uc009wch.1_Missense_Mutation_p.F130L	NM_021233	NP_067056	Q8WZ79	DNS2B_HUMAN	deoxyribonuclease II beta isoform 1 precursor	338					DNA metabolic process	lysosome	deoxyribonuclease II activity				0				all cancers(265;0.00303)|Epithelial(280;0.0112)|OV - Ovarian serous cystadenocarcinoma(397;0.0808)		AAGTGGAGGATTCATTTGTAC	0.408								Direct_reversal_of_damage					33	64	---	---	---	---	PASS	C	84880477	C	C	84880477	3	2	93	1	0	0	0	0	1	0	0	0	4665	1493	52	5	1034	5	DNASE2B	1	84880477	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	8531008	84880477	164370144	9	34940										
BARHL2	343472	broad.mit.edu	37	chr1	91182612	91182612	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tccgaacagggagatggggtGgcctgactcctaaaatccgc	13	11	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:91182612G>A	uc001dns.2	-	1	183	c.141C>T	c.(139-141)GCC>GCT	p.A47A		NM_020063	NP_064447	Q9NY43	BARH2_HUMAN	BarH-like homeobox 2	47						nucleus	sequence-specific DNA binding			ovary(1)	1		all_lung(203;0.0263)|Lung SC(238;0.128)		all cancers(265;0.000897)|Epithelial(280;0.00516)|OV - Ovarian serous cystadenocarcinoma(397;0.211)		GAGATGGGGTGGCCTGACTCC	0.592													59	101	---	---	---	---	PASS	A	91182612	A	A	91182612	2	1	93	1	0	0	0	0	0	0	0	1	1314	1335	47	3		3	BARHL2	1	91182612	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	6302135	91182612	158068009	10	34941										
EVI5	7813	broad.mit.edu	37	chr1	93202101	93202101	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggacttgccacctgactggcCatctgactgactgtatgcga	11	12	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:93202101C>A	uc001dox.2	-	2	145	c.135G>T	c.(133-135)ATG>ATT	p.M45I	EVI5_uc010otf.1_Missense_Mutation_p.M45I	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	45	Interaction with alpha-tubulin, gamma- tubulin, BIRC5 and FBXO5.|Ser-rich.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		CCTGACTGGCCATCTGACTGA	0.458													61	156	---	---	---	---	PASS	A	93202101	A	A	93202101	3	1	93	1	0	0	0	0	1	0	0	0	5289	594	21	3	2365	3	EVI5	1	93202101	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	2019489	93202101	156048520	11	34942										
AMY2B	280	broad.mit.edu	37	chr1	104120169	104120169	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gagtaattaaagaagttactAttaatccagacactacttgt	6	6	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:104120169A>T	uc001duq.2	+	10	1775	c.1159A>T	c.(1159-1161)ATT>TTT	p.I387F	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.I387F|AMY2B_uc001dus.1_RNA	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	387					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		AGAAGTTACTATTAATCCAGA	0.353													72	163	---	---	---	---	PASS	T	104120169	T	T	104120169	3	4	93	1	0	0	0	0	1	0	0	0	595	449	16	5	1189	5	AMY2B	1	104120169	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	10918068	104120169	145130452	12	34943										
FAM102B	284611	broad.mit.edu	37	chr1	109143220	109143220	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agcaaactgtgttcgctggaGaaagaagttctcatttatgt	10	6	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:109143220G>A	uc010ouy.1	+	2	250	c.170G>A	c.(169-171)AGA>AAA	p.R57K		NM_001010883	NP_001010883	Q5T8I3	F102B_HUMAN	hypothetical protein LOC284611	57										large_intestine(1)	1		all_epithelial(167;5.52e-05)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0217)|Lung(183;0.109)|COAD - Colon adenocarcinoma(174;0.141)|Epithelial(280;0.182)		GTTCGCTGGAGAAAGAAGTTC	0.388													9	80	---	---	---	---	PASS	A	109143220	A	A	109143220	3	1	93	1	0	0	0	0	1	0	0	0	5383	942	33	2	176	2	FAM102B	1	109143220	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	5023051	109143220	140107401	13	34944										
RSBN1	54665	broad.mit.edu	37	chr1	114308799	114308799	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttcagattcagtttttatccTcacacattgggagtcaactt	6	9	4	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:114308799T>G	uc001edq.2	-	7	2248	c.2212A>C	c.(2212-2214)AGG>CGG	p.R738R	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	738						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTTTTTATCCTCACACATTGG	0.418													11	192	---	---	---	---	PASS	G	114308799	G	G	114308799	2	3	93	1	0	0	0	0	0	0	0	1	13696	1550	54	5		5	RSBN1	1	114308799	Silent	SNP	T	TCGA-39-5036-01A-01D-1441-08	5165579	114308799	134941822	14	34945										
IGSF3	3321	broad.mit.edu	37	chr1	117150804	117150804	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aggcacagcgttaggacccaTggtggcgatgagcgagctgt	16	9	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:117150804T>C	uc001egr.1	-	5	1687	c.982A>G	c.(982-984)ATG>GTG	p.M328V	IGSF3_uc001egq.1_Missense_Mutation_p.M328V|IGSF3_uc001egs.1_Missense_Mutation_p.M1V	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	328	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		TTAGGACCCATGGTGGCGATG	0.577													7	21	---	---	---	---	PASS	C	117150804	C	C	117150804	3	2	93	1	0	0	0	0	1	0	0	0	7601	1464	51	5	2694	5	IGSF3	1	117150804	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	2842005	117150804	132099817	15	34946										
SPAG17	200162	broad.mit.edu	37	chr1	118539335	118539335	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cttccaattttttttcaggtAatatagttgatatgctacca	5	7	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:118539335A>G	uc001ehk.2	-	33	4876	c.4808T>C	c.(4807-4809)TTA>TCA	p.L1603S		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1603						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TTTTTCAGGTAATATAGTTGA	0.338													26	84	---	---	---	---	PASS	G	118539335	G	G	118539335	3	3	93	1	0	0	0	0	1	0	0	0	14979	372	13	5	1927	5	SPAG17	1	118539335	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	1388531	118539335	130711286	16	34947										
HRNR	388697	broad.mit.edu	37	chr1	152188349	152188349	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gctgaccatagctggaagatGaacctgagctagatccgtgt	12	9	0	5			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:152188349G>T	uc001ezt.1	-	3	5832	c.5756C>A	c.(5755-5757)TCA>TAA	p.S1919*		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1919	21.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTGGAAGATGAACCTGAGCT	0.577													31	901	---	---	---	---	PASS	T	152188349	T	T	152188349	4	4	93	1	0	0	0	0	0	1	0	0	7359	1294	45	2	2800	2	HRNR	1	152188349	Nonsense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	33649014	152188349	97062272	17	34948										
LCE4A	199834	broad.mit.edu	37	chr1	152681748	152681748	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cctgagccaccacagacaccAtaggtcccactgccacagac	7	18	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:152681748A>G	uc001fak.2	+	1	226	c.197A>G	c.(196-198)CAT>CGT	p.H66R		NM_178356	NP_848133	Q5TA78	LCE4A_HUMAN	late cornified envelope 4A	66	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.116)			CACAGACACCATAGGTCCCAC	0.627													35	76	---	---	---	---	PASS	G	152681748	G	G	152681748	3	3	93	1	0	0	0	0	1	0	0	0	8674	217	8	5	199	5	LCE4A	1	152681748	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	493399	152681748	96568873	18	34949										
FCRL3	115352	broad.mit.edu	37	chr1	157667548	157667548	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tttgctattatccctggagaCtgaattcactgtgatcttct	7	9	3	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:157667548C>A	uc001frb.2	-	5	752	c.460G>T	c.(460-462)GTC>TTC	p.V154F	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.V154F|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_5'UTR|FCRL3_uc001frc.1_Missense_Mutation_p.V154F	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	154	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					TCCCTGGAGACTGAATTCACT	0.343													47	158	---	---	---	---	PASS	A	157667548	A	A	157667548	3	1	93	1	0	0	0	0	1	0	0	0	5796	565	20	3	1788	3	FCRL3	1	157667548	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	4985800	157667548	91583073	19	34950										
OR10J3	441911	broad.mit.edu	37	chr1	159283599	159283599	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtacacaacagggttcagtaGgggagtgatgagtgtaggtc	16	5	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:159283599G>T	uc010piu.1	-	1	851	c.851C>A	c.(850-852)CCT>CAT	p.P284H		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					GGGTTCAGTAGGGGAGTGATG	0.507													40	124	---	---	---	---	PASS	T	159283599	T	T	159283599	3	4	93	1	0	0	0	0	1	0	0	0	10911	1000	35	3	140	3	OR10J3	1	159283599	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	1616051	159283599	89967022	20	34951										
DCAF8	50717	broad.mit.edu	37	chr1	160209596	160209596	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgccactggccagccaggtgCcgcgctggttaaagtgcagg	15	12	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:160209596C>A	uc001fvo.2	-	4	926	c.614G>T	c.(613-615)GGC>GTC	p.G205V	DCAF8_uc001fvn.2_Missense_Mutation_p.G205V|DCAF8_uc009wth.2_Missense_Mutation_p.G205V|DCAF8_uc010pjb.1_Missense_Mutation_p.G205V|DCAF8_uc010pjc.1_Missense_Mutation_p.G359V|DCAF8_uc001fvq.3_Missense_Mutation_p.G205V|DCAF8_uc001fvp.3_Missense_Mutation_p.G205V|uc010pjd.1_Missense_Mutation_p.P43T	NM_015726	NP_056541	Q5TAQ9	DCAF8_HUMAN	DDB1 and CUL4 associated factor 8	205	WD 1.					CUL4 RING ubiquitin ligase complex	protein binding			skin(2)	2						CAGCCAGGTGCCGCGCTGGTT	0.582													26	46	---	---	---	---	PASS	A	160209596	A	A	160209596	3	1	93	1	0	0	0	0	1	0	0	0	4276	739	26	3	1223	3	DCAF8	1	160209596	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	925997	160209596	89041025	21	34952										
C1orf129	80133	broad.mit.edu	37	chr1	170928624	170928624	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tttgtggatcccttactgcaGtttgaatctcagttgaagat	9	7	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:170928624G>T	uc001ghg.2	+	5	304	c.174G>T	c.(172-174)CAG>CAT	p.Q58H	C1orf129_uc009wvy.2_5'UTR|C1orf129_uc010plz.1_Missense_Mutation_p.Q58H	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	58							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CCTTACTGCAGTTTGAATCTC	0.328													5	90	---	---	---	---	PASS	T	170928624	T	T	170928624	3	4	93	1	0	0	0	0	1	0	0	0	1996	1020	36	3	188	3	C1orf129	1	170928624	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	10719028	170928624	78321997	22	34953										
FMO1	2326	broad.mit.edu	37	chr1	171250059	171250059	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccaaccccaattgtgacttgGttgatggagcgaaagataaa	10	8	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:171250059G>A	uc009wvz.2	+	6	898	c.762G>A	c.(760-762)TGG>TGA	p.W254*	FMO1_uc010pme.1_Nonsense_Mutation_p.W191*|FMO1_uc001ghl.2_Nonsense_Mutation_p.W254*|FMO1_uc001ghm.2_Nonsense_Mutation_p.W254*|FMO1_uc001ghn.2_Nonsense_Mutation_p.W254*	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	254					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TTGTGACTTGGTTGATGGAGC	0.443													4	120	---	---	---	---	PASS	A	171250059	A	A	171250059	4	1	93	1	0	0	0	0	0	1	0	0	5954	1270	44	3	780	3	FMO1	1	171250059	Nonsense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	321435	171250059	78000562	23	34954										
ASTN1	460	broad.mit.edu	37	chr1	176903441	176903441	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cacaaaatctgcacgagatgTagccccatccagcgagtgga	10	12	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:176903441T>C	uc001glc.2	-	16	2730	c.2518A>G	c.(2518-2520)ACA>GCA	p.T840A	ASTN1_uc001glb.1_Missense_Mutation_p.T840A|ASTN1_uc001gld.1_Missense_Mutation_p.T840A	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	848					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GCACGAGATGTAGCCCCATCC	0.527													13	54	---	---	---	---	PASS	C	176903441	C	C	176903441	3	2	93	1	0	0	0	0	1	0	0	0	1064	1638	57	5	1402	5	ASTN1	1	176903441	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	5653382	176903441	72347180	24	34955										
HMCN1	83872	broad.mit.edu	37	chr1	185704138	185704138	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtctttgaaaagacctaaaaGacctcttttcaactttgcgt	6	9	3	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:185704138G>A	uc001grq.1	+	1	456	c.227G>A	c.(226-228)AGA>AAA	p.R76K		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	76	VWFA.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AGACCTAAAAGACCTCTTTTC	0.368													15	114	---	---	---	---	PASS	A	185704138	A	A	185704138	3	1	93	1	0	0	0	0	1	0	0	0	7220	942	33	2	229	2	HMCN1	1	185704138	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	8800697	185704138	63546483	25	34956										
FAM5C	339479	broad.mit.edu	37	chr1	190067614	190067614	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tccatttgttccccagagttAatgtccagttataacactgc	6	11	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:190067614A>G	uc001gse.1	-	8	2067	c.1835T>C	c.(1834-1836)TTA>TCA	p.L612S	FAM5C_uc010pot.1_Missense_Mutation_p.L510S	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	612						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CCCCAGAGTTAATGTCCAGTT	0.453													122	285	---	---	---	---	PASS	G	190067614	G	G	190067614	3	3	93	1	0	0	0	0	1	0	0	0	5594	372	13	5	469	5	FAM5C	1	190067614	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	4363476	190067614	59183007	26	34957										
FAM5C	339479	broad.mit.edu	37	chr1	190068100	190068100	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggttgtctggtgcgcatgtcAggcaggcagaggcgtctccc	16	11	3	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:190068100A>T	uc001gse.1	-	8	1581	c.1349T>A	c.(1348-1350)CTG>CAG	p.L450Q	FAM5C_uc010pot.1_Missense_Mutation_p.L348Q	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	450						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TGCGCATGTCAGGCAGGCAGA	0.637													31	58	---	---	---	---	PASS	T	190068100	T	T	190068100	3	4	93	1	0	0	0	0	1	0	0	0	5594	188	7	5	955	5	FAM5C	1	190068100	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	486	190068100	59182521	27	34958										
FAM71A	149647	broad.mit.edu	37	chr1	212798765	212798765	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccacccatggagagtaacagCagtacctgtggcattccagc	10	13	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:212798765C>T	uc001hjk.2	+	1	950	c.546C>T	c.(544-546)AGC>AGT	p.S182S	uc010pth.1_RNA	NM_153606	NP_705834	Q8IYT1	FA71A_HUMAN	hypothetical protein LOC149647	182										skin(3)|ovary(1)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00631)|all cancers(67;0.00981)|GBM - Glioblastoma multiforme(131;0.0715)|Epithelial(68;0.094)		AGAGTAACAGCAGTACCTGTG	0.517													6	158	---	---	---	---	PASS	T	212798765	T	T	212798765	2	4	93	1	0	0	0	0	0	0	0	1	5607	709	25	3		3	FAM71A	1	212798765	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	22730665	212798765	36451856	28	34959										
MOSC2	54996	broad.mit.edu	37	chr1	220955184	220955184	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctccactttttgggatctatTattcagtggaaaaaattgga	8	6	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:220955184T>G	uc001hmq.2	+	7	1147	c.949T>G	c.(949-951)TAT>GAT	p.Y317D	MOSC2_uc001hmr.2_Missense_Mutation_p.Y317D|MOSC2_uc009xdx.2_Intron	NM_017898	NP_060368	Q969Z3	MOSC2_HUMAN	MOCO sulphurase C-terminal domain containing 2	317	MOSC.					mitochondrial outer membrane|peroxisome	molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.00499)|all cancers(67;0.204)		TGGGATCTATTATTCAGTGGA	0.428													7	224	---	---	---	---	PASS	G	220955184	G	G	220955184	3	3	93	1	0	0	0	0	1	0	0	0	9714	1754	61	5	975	5	MOSC2	1	220955184	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	8156419	220955184	28295437	29	34960										
LIN9	286826	broad.mit.edu	37	chr1	226496852	226496852	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctccgccatcttgaacgagcCgcgccgctttttcaaaggct	9	15	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:226496852C>A	uc001hqa.2	-	1	347	c.37G>T	c.(37-39)GGC>TGC	p.G13C	LIN9_uc001hqb.2_Missense_Mutation_p.G13C|LIN9_uc001hqc.2_Intron|LIN9_uc009xel.1_Missense_Mutation_p.G13C	NM_173083	NP_775106	Q5TKA1	LIN9_HUMAN	lin-9 homolog	Error:Variant_position_missing_in_Q5TKA1_after_alignment					cell cycle|DNA replication	nucleoplasm					0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.131)		TTGAACGAGCCGCGCCGCTTT	0.587													19	55	---	---	---	---	PASS	A	226496852	A	A	226496852	3	1	93	1	0	0	0	0	1	0	0	0	8813	652	23	1	1699	1	LIN9	1	226496852	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	5541668	226496852	22753769	30	34961										
ARID4B	51742	broad.mit.edu	37	chr1	235345368	235345368	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctcctctggggcaggatgcgGtggggaagctgcagcctcag	17	11	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:235345368G>T	uc001hwq.2	-	20	3364	c.2866C>A	c.(2866-2868)CCG>ACG	p.P956T	ARID4B_uc001hwr.2_Missense_Mutation_p.P870T|ARID4B_uc001hws.3_Missense_Mutation_p.P870T|ARID4B_uc001hwp.2_RNA|ARID4B_uc001hwt.3_Missense_Mutation_p.P637T	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	956					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			GCAGGATGCGGTGGGGAAGCT	0.512													6	140	---	---	---	---	PASS	T	235345368	T	T	235345368	3	4	93	1	0	0	0	0	1	0	0	0	920	1261	44	3	1092	3	ARID4B	1	235345368	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	8848516	235345368	13905253	31	34962										
MTR	4548	broad.mit.edu	37	chr1	236998969	236998969	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttttgcaacttaattgcttcCgagccagacatcgcaaaggt	8	10	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:236998969C>T	uc001hyi.3	+	14	1734	c.1311C>T	c.(1309-1311)TCC>TCT	p.S437S	MTR_uc010pxw.1_Silent_p.S30S|MTR_uc010pxx.1_Silent_p.S437S|MTR_uc010pxy.1_Silent_p.S437S	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	437	Pterin-binding.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	TAATTGCTTCCGAGCCAGACA	0.438													25	181	---	---	---	---	PASS	T	236998969	T	T	236998969	2	4	93	1	0	0	0	0	0	0	0	1	9958	639	23	1		1	MTR	1	236998969	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	1653601	236998969	12251652	32	34963										
RYR2	6262	broad.mit.edu	37	chr1	237947865	237947865	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	acatggtcacggccttctttTcatcctactggagtattttc	7	11	3	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:237947865T>G	uc001hyl.1	+	90	12973	c.12853T>G	c.(12853-12855)TCA>GCA	p.S4285A	RYR2_uc010pya.1_Missense_Mutation_p.S700A	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4285					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)			GGCCTTCTTTTCATCCTACTG	0.473													18	29	---	---	---	---	PASS	G	237947865	G	G	237947865	3	3	93	1	0	0	0	0	1	0	0	0	13769	1783	62	5	13211	5	RYR2	1	237947865	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	948896	237947865	11302756	33	34964										
PLD5	200150	broad.mit.edu	37	chr1	242511451	242511451	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttctgagagtccatcctcatCctctcccatgatgtccacgg	7	15	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr1:242511451C>A	uc001hzn.1	-	2	410	c.283G>T	c.(283-285)GAT>TAT	p.D95Y	PLD5_uc001hzl.3_Missense_Mutation_p.D33Y|PLD5_uc001hzm.3_5'UTR|PLD5_uc001hzo.1_5'UTR			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	95						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			CCATCCTCATCCTCTCCCATG	0.458													37	129	---	---	---	---	PASS	A	242511451	A	A	242511451	3	1	93	1	0	0	0	0	1	0	0	0	12049	870	30	2	1370	2	PLD5	1	242511451	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	4563586	242511451	6739170	34	34965										
KCNF1	3754	broad.mit.edu	37	chr2	11053971	11053971	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cggctgaagctctcccacagCgacaccttcatccccctcct	6	20	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:11053971C>T	uc002rax.2	+	1	1909	c.1419C>T	c.(1417-1419)AGC>AGT	p.S473S		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	473	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		TCTCCCACAGCGACACCTTCA	0.672													11	64	---	---	---	---	PASS	T	11053971	T	T	11053971	2	4	93	1	0	0	0	0	0	0	0	1	8026	767	27	1		1	KCNF1	2	11053971	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08		11053971	232145402	35	34966										
EMILIN1	11117	broad.mit.edu	37	chr2	27303605	27303605	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttctgcctctgccaggtaccGccgcttcctccgccctcgct	8	20	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:27303605G>A	uc002rii.3	+	3	724	c.296G>A	c.(295-297)CGC>CAC	p.R99H	EMILIN1_uc010eyq.1_Missense_Mutation_p.R99H|EMILIN1_uc002rik.3_5'Flank	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	99	EMI.				cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCCAGGTACCGCCGCTTCCTC	0.622											OREG0014513	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	27	---	---	---	---	PASS	A	27303605	A	A	27303605	3	1	93	1	0	0	0	0	1	0	0	0	5093	1087	38	1	306	1	EMILIN1	2	27303605	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	16249634	27303605	215895768	36	34967										
CCDC85A	114800	broad.mit.edu	37	chr2	56420240	56420240	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cccgcatccagggagcagccCcgaaacgctgcccaagcacg	11	18	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:56420240C>A	uc002rzn.2	+	2	1407	c.905C>A	c.(904-906)CCC>CAC	p.P302H		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	302	His-rich.									breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			GGGAGCAGCCCCGAAACGCTG	0.642													8	116	---	---	---	---	PASS	A	56420240	A	A	56420240	3	1	93	1	0	0	0	0	1	0	0	0	2859	623	22	3	911	3	CCDC85A	2	56420240	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	29116635	56420240	186779133	37	34968										
NAGK	55577	broad.mit.edu	37	chr2	71305540	71305540	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agctgaggcactcctccgctCtgggtggggccagcctaggg	16	13	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:71305540C>G	uc002shp.3	+	10	1343	c.937C>G	c.(937-939)CTG>GTG	p.L313V	NAGK_uc010fea.2_RNA|NAGK_uc002shq.3_Missense_Mutation_p.L164V|NAGK_uc002shr.2_Missense_Mutation_p.L262V	NM_017567	NP_060037	Q9UJ70	NAGK_HUMAN	N-Acetylglucosamine kinase	313					N-acetylglucosamine metabolic process|N-acetylmannosamine metabolic process		ATP binding|N-acetylglucosamine kinase activity|protein binding				0					N-Acetyl-D-glucosamine(DB00141)	CTCCTCCGCTCTGGGTGGGGC	0.592													22	68	---	---	---	---	PASS	G	71305540	G	G	71305540	3	3	93	1	0	0	0	0	1	0	0	0	10142	912	32	2	1113	2	NAGK	2	71305540	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	14885300	71305540	171893833	38	34969										
REG3A	5068	broad.mit.edu	37	chr2	79385540	79385540	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	acacgaaggatccctcagccCcactgagcacagacaccagg	9	16	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:79385540C>A	uc002sod.1	-	3	500	c.245G>T	c.(244-246)GGG>GTG	p.G82V	REG3A_uc002soe.1_Missense_Mutation_p.G82V|REG3A_uc002sof.1_Missense_Mutation_p.G82V	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	82	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						TCCCTCAGCCCCACTGAGCAC	0.567													30	73	---	---	---	---	PASS	A	79385540	A	A	79385540	3	1	93	1	0	0	0	0	1	0	0	0	13212	623	22	3	294	3	REG3A	2	79385540	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	8080000	79385540	163813833	39	34970										
LRP1B	53353	broad.mit.edu	37	chr2	141707850	141707850	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcatcactgaagtccccacaGtcattgtcaccatcacaggc	6	15	5	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:141707850G>T	uc002tvj.1	-	20	4062	c.3090C>A	c.(3088-3090)GAC>GAA	p.D1030E	LRP1B_uc010fnl.1_Missense_Mutation_p.D212E	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1030	Extracellular (Potential).|LDL-receptor class A 7.				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)		AGTCCCCACAGTCATTGTCAC	0.403										TSP Lung(27;0.18)			23	79	---	---	---	---	PASS	T	141707850	T	T	141707850	3	4	93	1	0	0	0	0	1	0	0	0	8955	1020	36	3	10997	3	LRP1B	2	141707850	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	62322310	141707850	101491523	40	34971										
MBD5	55777	broad.mit.edu	37	chr2	149243368	149243368	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcaactgactcatctacagtCgctgttaaacaacaatcaga	5	11	4	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:149243368C>A	uc002twm.3	+	11	3891	c.2903C>A	c.(2902-2904)TCG>TAG	p.S968*	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Nonsense_Mutation_p.S968*|MBD5_uc002two.2_Nonsense_Mutation_p.S226*|MBD5_uc002twp.2_Nonsense_Mutation_p.S18*	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	968						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		CATCTACAGTCGCTGTTAAAC	0.378													8	58	---	---	---	---	PASS	A	149243368	A	A	149243368	4	1	93	1	0	0	0	0	0	1	0	0	9347	893	31	2	2925	2	MBD5	2	149243368	Nonsense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	7535518	149243368	93956005	41	34972										
GRB14	2888	broad.mit.edu	37	chr2	165404254	165404254	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	caggatcaacagctgacaaaCatctcgagccgttatgtcac	8	12	3	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:165404254C>G	uc002ucl.2	-	3	938	c.397G>C	c.(397-399)GTT>CTT	p.V133L	GRB14_uc010zcv.1_Missense_Mutation_p.V46L|GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	133	Ras-associating.				blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						AGCTGACAAACATCTCGAGCC	0.438													9	48	---	---	---	---	PASS	G	165404254	G	G	165404254	3	3	93	1	0	0	0	0	1	0	0	0	6757	478	17	4	1273	4	GRB14	2	165404254	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	16160886	165404254	77795119	42	34973										
MYO3B	140469	broad.mit.edu	37	chr2	171238525	171238525	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	actctcttgataaatttctaGgcatgagaggatgcatacca	8	8	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:171238525G>A	uc002ufy.2	+	10	1115	c.972_splice	c.e10-1	p.R324_splice	MYO3B_uc002ufv.2_Splice_Site_p.R311_splice|MYO3B_uc010fqb.1_Splice_Site_p.R311_splice|MYO3B_uc002ufz.2_Splice_Site_p.R324_splice|MYO3B_uc002ufw.2_Splice_Site|MYO3B_uc002ufx.2_Splice_Site|MYO3B_uc002uga.2_Splice_Site_p.R311_splice|MYO3B_uc002ugb.2_Splice_Site	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2						response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						TAAATTTCTAGGCATGAGAGG	0.408													21	101	---	---	---	---	PASS	A	171238525	A	A	171238525	5	1	93	1	0	0	0	0	0	0	1	0	10077	1014	35	3	1009	3	MYO3B	2	171238525	Splice_Site	SNP	G	TCGA-39-5036-01A-01D-1441-08	5834271	171238525	71960848	43	34974										
OSBPL6	114880	broad.mit.edu	37	chr2	179259114	179259114	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggaactccagagatctcggaGacgatatatggaagaaaaca	11	7	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:179259114G>T	uc002ulx.2	+	24	3026	c.2648G>T	c.(2647-2649)AGA>ATA	p.R883I	OSBPL6_uc002uly.2_Missense_Mutation_p.R908I|OSBPL6_uc010zfe.1_Missense_Mutation_p.R852I|OSBPL6_uc002ulz.2_Missense_Mutation_p.R847I|OSBPL6_uc002uma.2_Missense_Mutation_p.R887I	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	883					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			AGATCTCGGAGACGATATATG	0.358													56	200	---	---	---	---	PASS	T	179259114	T	T	179259114	3	4	93	1	0	0	0	0	1	0	0	0	11281	942	33	2	2856	2	OSBPL6	2	179259114	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	8020589	179259114	63940259	44	34975										
TTN	7273	broad.mit.edu	37	chr2	179431458	179431458	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggacttggttccccaactccAgcagcattttctgcagagac	9	13	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:179431458A>G	uc010zfg.1	-	275	71921	c.71697T>C	c.(71695-71697)GCT>GCC	p.A23899A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.A17594A|TTN_uc010zfi.1_Silent_p.A17527A|TTN_uc010zfj.1_Silent_p.A17402A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24826							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)			CCCCAACTCCAGCAGCATTTT	0.428													67	206	---	---	---	---	PASS	G	179431458	G	G	179431458	2	3	93	1	0	0	0	0	0	0	0	1	16732	175	7	5		5	TTN	2	179431458	Silent	SNP	A	TCGA-39-5036-01A-01D-1441-08	172344	179431458	63767915	45	34976										
TTN	7273	broad.mit.edu	37	chr2	179437396	179437396	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cactgtcaaatctgtttacaTttccaacaataagcagggtg	7	9	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:179437396T>C	uc010zfg.1	-	275	65983	c.65759A>G	c.(65758-65760)AAT>AGT	p.N21920S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.N15615S|TTN_uc010zfi.1_Missense_Mutation_p.N15548S|TTN_uc010zfj.1_Missense_Mutation_p.N15423S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22847							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)			TCTGTTTACATTTCCAACAAT	0.438													3	218	---	---	---	---	PASS	C	179437396	C	C	179437396	3	2	93	1	0	0	0	0	1	0	0	0	16732	1493	52	5	34664	5	TTN	2	179437396	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	5938	179437396	63761977	46	34977										
TTN	7273	broad.mit.edu	37	chr2	179667009	179667009	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggagatctgcacgccgggcaGagtggaagtggaaatcacct	15	9	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:179667009G>C	uc002und.2	-	3	376	c.151C>G	c.(151-153)CTG>GTG	p.L51V	TTN_uc010zfg.1_Missense_Mutation_p.L51V|TTN_uc010zfh.1_Missense_Mutation_p.L51V|TTN_uc010zfi.1_Missense_Mutation_p.L51V|TTN_uc010zfj.1_Missense_Mutation_p.L51V|TTN_uc002unb.2_Missense_Mutation_p.L51V			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	51							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)			ACGCCGGGCAGAGTGGAAGTG	0.517													4	101	---	---	---	---	PASS	C	179667009	C	C	179667009	3	2	93	1	0	0	0	0	1	0	0	0	16732	933	33	2	111277	2	TTN	2	179667009	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	229613	179667009	63532364	47	34978										
CERKL	375298	broad.mit.edu	37	chr2	182430786	182430786	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gattaataatataacctaccCatcaaatccctggagttcac	4	11	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:182430786C>G	uc002unx.2	-	4	777	c.676G>C	c.(676-678)GGT>CGT	p.G226R	CERKL_uc002uny.2_Missense_Mutation_p.G226R|CERKL_uc010zfm.1_Missense_Mutation_p.G182R|CERKL_uc002unz.2_Intron|CERKL_uc002uoa.2_Intron|CERKL_uc002uob.2_Intron|CERKL_uc002uoc.2_Intron|CERKL_uc010frk.2_Intron|CERKL_uc002uod.1_Missense_Mutation_p.G21R|CERKL_uc002uoe.2_Missense_Mutation_p.G226R	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	226	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			ATAACCTACCCATCAAATCCC	0.308													3	111	---	---	---	---	PASS	G	182430786	G	G	182430786	3	3	93	1	0	0	0	0	1	0	0	0	3268	608	21	4	1044	4	CERKL	2	182430786	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	2763777	182430786	60768587	48	34979										
NCKAP1	10787	broad.mit.edu	37	chr2	183866998	183866998	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gttaaatcaaagtttacagtCtaggagaaaaaaaaatcaag	7	4	3	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:183866998C>T	uc002upc.2	-	5	772	c.370_splice	c.e5-1	p.T124_splice	NCKAP1_uc002upb.2_Splice_Site_p.T130_splice	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1						apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			AGTTTACAGTCTAGGAGAAAA	0.284													7	64	---	---	---	---	PASS	T	183866998	T	T	183866998	5	4	93	1	0	0	0	0	0	0	1	0	10221	927	32	2	3125	2	NCKAP1	2	183866998	Splice_Site	SNP	C	TCGA-39-5036-01A-01D-1441-08	1436212	183866998	59332375	49	34980										
ITGAV	3685	broad.mit.edu	37	chr2	187455140	187455140	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cttctctcgggactcctgctAcctctgtgccgcgccttcaa	8	17	3	0	rs144478131		TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:187455140A>G	uc002upq.2	+	1	351	c.75A>G	c.(73-75)CTA>CTG	p.L25L	ITGAV_uc010frs.2_Silent_p.L25L	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	25					angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		GACTCCTGCTACCTCTGTGCC	0.667													12	68	---	---	---	---	PASS	G	187455140	G	G	187455140	2	3	93	1	0	0	0	0	0	0	0	1	7888	378	14	5		5	ITGAV	2	187455140	Silent	SNP	A	TCGA-39-5036-01A-01D-1441-08	3588142	187455140	55744233	50	34981										
MARS2	92935	broad.mit.edu	37	chr2	198570870	198570870	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtagttcttcagtggctggaCgaggagctgcccgacctgtc	14	11	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:198570870C>T	uc002uuq.2	+	1	784	c.741C>T	c.(739-741)GAC>GAT	p.D247D	uc002uup.2_Intron	NM_138395	NP_612404	Q96GW9	SYMM_HUMAN	methionine-tRNA synthetase 2 precursor	247					methionyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|methionine-tRNA ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3					L-Methionine(DB00134)	AGTGGCTGGACGAGGAGCTGC	0.612													5	114	---	---	---	---	PASS	T	198570870	T	T	198570870	2	4	93	1	0	0	0	0	0	0	0	1	9317	535	19	1		1	MARS2	2	198570870	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	11115730	198570870	44628503	51	34982										
SPATS2L	26010	broad.mit.edu	37	chr2	201305442	201305442	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctaactagatatcgcgtcatGattaaggaagaagtggatag	11	5	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:201305442G>C	uc002uvn.3	+	8	1075	c.723G>C	c.(721-723)ATG>ATC	p.M241I	SPATS2L_uc010fst.2_Missense_Mutation_p.M241I|SPATS2L_uc002uvo.3_Missense_Mutation_p.M181I|SPATS2L_uc002uvp.3_Missense_Mutation_p.M241I|SPATS2L_uc002uvq.3_Missense_Mutation_p.M172I|SPATS2L_uc002uvr.3_Missense_Mutation_p.M241I|SPATS2L_uc010zhc.1_Missense_Mutation_p.M271I	NM_015535	NP_056350	Q9NUQ6	SPS2L_HUMAN	SPATS2-like protein isoform a	241						cytoplasm|nucleolus				ovary(2)|pancreas(1)	3						ATCGCGTCATGATTAAGGAAG	0.373													3	159	---	---	---	---	PASS	C	201305442	C	C	201305442	3	2	93	1	0	0	0	0	1	0	0	0	15019	1290	45	2	745	2	SPATS2L	2	201305442	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	2734572	201305442	41893931	52	34983										
NIF3L1	60491	broad.mit.edu	37	chr2	201756740	201756740	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cctgatctgcaattcttcccGttccttcatggatttgaagg	8	11	3	2	rs79840632	by1000genomes	TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:201756740G>A	uc002uwm.2	+	2	165	c.74G>A	c.(73-75)CGT>CAT	p.R25H	PPIL3_uc002uwh.2_5'Flank|PPIL3_uc002uwi.2_5'Flank|PPIL3_uc002uwj.2_5'Flank|PPIL3_uc002uwk.2_5'Flank|NIF3L1_uc002uwl.2_5'UTR|NIF3L1_uc002uwn.2_5'UTR|NIF3L1_uc002uwo.2_Missense_Mutation_p.R25H|NIF3L1_uc002uwp.2_Missense_Mutation_p.R25H|NIF3L1_uc002uwq.2_Missense_Mutation_p.R25H	NM_001136039	NP_001129511	Q9GZT8	NIF3L_HUMAN	NIF3 NGG1 interacting factor 3-like 1 isoform 1	25					positive regulation of transcription, DNA-dependent		transcription factor binding			skin(1)	1						AATTCTTCCCGTTCCTTCATG	0.463													6	146	---	---	---	---	PASS	A	201756740	A	A	201756740	3	1	93	1	0	0	0	0	1	0	0	0	10416	1145	40	1	76	1	NIF3L1	2	201756740	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	451298	201756740	41442633	53	34984										
TRAK2	66008	broad.mit.edu	37	chr2	202259537	202259537	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttacctccattgtcagttgcCgttgggcatctttggaagct	10	10	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:202259537C>T	uc002uyb.3	-	9	1405	c.959G>A	c.(958-960)CGG>CAG	p.R320Q		NM_015049	NP_055864	O60296	TRAK2_HUMAN	trafficking protein, kinesin binding 2	320	Potential.			Missing (in Ref. 2).		early endosome|plasma membrane	GABA receptor binding				0						TGTCAGTTGCCGTTGGGCATC	0.363													4	153	---	---	---	---	PASS	T	202259537	T	T	202259537	3	4	93	1	0	0	0	0	1	0	0	0	16447	652	23	1	1817	1	TRAK2	2	202259537	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	502797	202259537	40939836	54	34985										
STRADB	55437	broad.mit.edu	37	chr2	202334695	202334695	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggttgatgagccaaccctttCctggtcacgtccatccacta	8	14	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:202334695C>T	uc002uyd.3	+	4	478	c.113C>T	c.(112-114)TCC>TTC	p.S38F		NM_018571	NP_061041	Q9C0K7	STRAB_HUMAN	STE20-related kinase adaptor beta	38					activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|protein binding|protein kinase activity			skin(2)|stomach(1)|lung(1)	4						CCAACCCTTTCCTGGTCACGT	0.388													17	117	---	---	---	---	PASS	T	202334695	T	T	202334695	3	4	93	1	0	0	0	0	1	0	0	0	15324	855	30	2	123	2	STRADB	2	202334695	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	75158	202334695	40864678	55	34986										
RHBDD1	84236	broad.mit.edu	37	chr2	227779053	227779053	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cgagagagcattacaagccaGcctctgggaccgaggtagga	14	10	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:227779053G>T	uc002voi.2	+	6	963	c.842G>T	c.(841-843)AGC>ATC	p.S281I	RHBDD1_uc010fxc.2_Missense_Mutation_p.S281I|RHBDD1_uc002voj.2_Missense_Mutation_p.S112I	NM_032276	NP_115652	Q8TEB9	RHBD1_HUMAN	rhomboid domain containing 1	281						integral to membrane	serine-type endopeptidase activity			ovary(1)	1		Renal(207;0.023)|all_lung(227;0.13)|Esophageal squamous(248;0.23)|all_hematologic(139;0.248)		Epithelial(121;1.47e-11)|all cancers(144;1.52e-08)|Lung(261;0.0128)|LUSC - Lung squamous cell carcinoma(224;0.0175)		TTACAAGCCAGCCTCTGGGAC	0.463													28	11	---	---	---	---	PASS	T	227779053	T	T	227779053	3	4	93	1	0	0	0	0	1	0	0	0	13316	971	34	3	860	3	RHBDD1	2	227779053	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	25444358	227779053	15420320	56	34987										
SP110	3431	broad.mit.edu	37	chr2	231077723	231077723	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	attggtgtgtctctgctctgCcattcataggaagcaccaac	9	11	3	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:231077723C>T	uc002vqh.3	-	4	576	c.336G>A	c.(334-336)CGG>CGA	p.R112R	SP110_uc002vqg.3_Silent_p.R112R|SP110_uc002vqi.3_Silent_p.R112R|SP110_uc010fxk.2_Nonsense_Mutation_p.W112*	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	112					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		CTCTGCTCTGCCATTCATAGG	0.537													9	78	---	---	---	---	PASS	T	231077723	T	T	231077723	2	4	93	1	0	0	0	0	0	0	0	1	14961	740	26	3		3	SP110	2	231077723	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	3298670	231077723	12121650	57	34988										
CAPN10	11132	broad.mit.edu	37	chr2	241531369	241531369	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gggtccatgggtcctacgagCacctgtgggccgggcaggtg	18	11	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr2:241531369C>A	uc002vzk.1	+	4	674	c.490C>A	c.(490-492)CAC>AAC	p.H164N	CAPN10_uc010zoh.1_Missense_Mutation_p.H164N|CAPN10_uc002vzl.1_Missense_Mutation_p.H164N|CAPN10_uc002vzm.1_Intron|CAPN10_uc002vzn.1_Missense_Mutation_p.H36N|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_RNA|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	164	Calpain catalytic.				actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		GTCCTACGAGCACCTGTGGGC	0.637													12	14	---	---	---	---	PASS	A	241531369	A	A	241531369	3	1	93	1	0	0	0	0	1	0	0	0	2623	710	25	3	504	3	CAPN10	2	241531369	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	10453646	241531369	1668004	58	34989										
BRPF1	7862	broad.mit.edu	37	chr3	9788857	9788857	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccttatcctataggcagtggCtgcccaggaccaagctggtt	11	12	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:9788857C>T	uc003bse.2	+	14	3868	c.3469C>T	c.(3469-3471)CTG>TTG	p.L1157L	BRPF1_uc003bsf.2_Silent_p.L1163L|BRPF1_uc003bsg.2_Silent_p.L1156L|BRPF1_uc011ati.1_Silent_p.L1062L|OGG1_uc003bsh.2_5'Flank|OGG1_uc003bsi.2_5'Flank|OGG1_uc003bsj.2_5'Flank|OGG1_uc003bsk.2_5'Flank|OGG1_uc003bsl.2_5'Flank|OGG1_uc003bsm.2_5'Flank|OGG1_uc003bsn.2_5'Flank|OGG1_uc003bso.2_5'Flank	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	1157	PWWP.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					TAGGCAGTGGCTGCCCAGGAC	0.517													22	208	---	---	---	---	PASS	T	9788857	T	T	9788857	2	4	93	1	0	0	0	0	0	0	0	1	1520	796	28	3		3	BRPF1	3	9788857	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08		9788857	188233573	59	34990										
DAZL	1618	broad.mit.edu	37	chr3	16636046	16636046	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctaattcactttaccggaggTacaacatagctcctttgctc	6	12	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:16636046T>A	uc003cbb.2	-	8	909	c.615A>T	c.(613-615)GTA>GTT	p.V205V	DAZL_uc003cba.2_Silent_p.V225V	NM_001351	NP_001342	Q92904	DAZL_HUMAN	deleted in azoospermia-like	205					germ cell development|multicellular organismal development|positive regulation of translational initiation|spermatogenesis	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding|translation activator activity				0						TTACCGGAGGTACAACATAGC	0.299													15	19	---	---	---	---	PASS	A	16636046	A	A	16636046	2	1	93	1	0	0	0	0	0	0	0	1	4246	1625	57	5		5	DAZL	3	16636046	Silent	SNP	T	TCGA-39-5036-01A-01D-1441-08	6847189	16636046	181386384	60	34991										
KCNH8	131096	broad.mit.edu	37	chr3	19436644	19436644	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgcgcctcttgcgtcttttgCgtctgctgcagaagttagac	11	11	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:19436644C>T	uc003cbk.1	+	7	1213	c.1018C>T	c.(1018-1020)CGT>TGT	p.R340C	KCNH8_uc011awe.1_Missense_Mutation_p.R340C|KCNH8_uc010hex.1_5'UTR|KCNH8_uc011awf.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	340	Helical; Voltage-sensor; Name=Segment S4; (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						GCGTCTTTTGCGTCTGCTGCA	0.488													25	102	---	---	---	---	PASS	T	19436644	T	T	19436644	3	4	93	1	0	0	0	0	1	0	0	0	8038	768	27	1	1044	1	KCNH8	3	19436644	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	2800598	19436644	178585786	61	34992										
EOMES	8320	broad.mit.edu	37	chr3	27759046	27759046	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtctagtttgttggtcccagGttgctggacaggcgtgacaa	14	8	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:27759046G>T	uc003cdx.2	-	6	1576	c.1576C>A	c.(1576-1578)CCT>ACT	p.P526T	EOMES_uc003cdy.3_Missense_Mutation_p.P545T|EOMES_uc010hfn.2_3'UTR|EOMES_uc011axc.1_Missense_Mutation_p.P250T	NM_005442	NP_005433	O95936	EOMES_HUMAN	eomesodermin	526					CD8-positive, alpha-beta T cell differentiation involved in immune response|cell differentiation involved in embryonic placenta development|endoderm formation|mesoderm formation|mesodermal to mesenchymal transition involved in gastrulation|positive regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|breast(1)	4						TTGGTCCCAGGTTGCTGGACA	0.532													87	88	---	---	---	---	PASS	T	27759046	T	T	27759046	3	4	93	1	0	0	0	0	1	0	0	0	5147	1261	44	3	488	3	EOMES	3	27759046	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	8322402	27759046	170263384	62	34993										
GOLGA4	2803	broad.mit.edu	37	chr3	37366072	37366072	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttgaagatggtaacaaagaaCaggaacagacaaagcaaatc	9	6	0	4			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:37366072C>T	uc003cgv.2	+	14	2999	c.2695C>T	c.(2695-2697)CAG>TAG	p.Q899*	GOLGA4_uc010hgr.1_Nonsense_Mutation_p.Q460*|GOLGA4_uc003cgw.2_Nonsense_Mutation_p.Q921*|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Nonsense_Mutation_p.Q780*	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	899	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TAACAAAGAACAGGAACAGAC	0.333													29	20	---	---	---	---	PASS	T	37366072	T	T	37366072	4	4	93	1	0	0	0	0	0	1	0	0	6555	479	17	3	2819	3	GOLGA4	3	37366072	Nonsense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	9607026	37366072	160656358	63	34994										
SCN5A	6331	broad.mit.edu	37	chr3	38592636	38592636	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gatgcccacggctgggctccCgcagtccccccgagagccat	12	18	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:38592636C>T	uc003cio.2	-	28	5421	c.5227G>A	c.(5227-5229)GGG>AGG	p.G1743R	SCN5A_uc003cin.2_Missense_Mutation_p.G1742R|SCN5A_uc003cil.3_Missense_Mutation_p.G1743R|SCN5A_uc010hhi.2_Missense_Mutation_p.G1725R|SCN5A_uc010hhk.2_Missense_Mutation_p.G1710R|SCN5A_uc011ayr.1_Missense_Mutation_p.G1689R	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1743			G -> E (in BRS1).|G -> R (in BRS1; yields nearly undetectable currents in transfected cells).		blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	GCTGGGCTCCCGCAGTCCCCC	0.607													16	18	---	---	---	---	PASS	T	38592636	T	T	38592636	3	4	93	1	0	0	0	0	1	0	0	0	13922	652	23	1	827	1	SCN5A	3	38592636	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	1226564	38592636	159429794	64	34995										
MYL3	4634	broad.mit.edu	37	chr3	46901133	46901133	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aaagtccatcatcttggtatTgagctctgcagagaaatggt	10	7	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:46901133T>C	uc003cql.1	-	4	406	c.313A>G	c.(313-315)AAT>GAT	p.N105D		NM_000258	NP_000249	P08590	MYL3_HUMAN	slow skeletal ventricular myosin alkali light	105					cardiac muscle contraction|muscle filament sliding|positive regulation of ATPase activity|regulation of striated muscle contraction|regulation of the force of heart contraction|ventricular cardiac muscle tissue morphogenesis	A band|cytosol|I band|muscle myosin complex	actin monomer binding|calcium ion binding|myosin II heavy chain binding|structural constituent of muscle				0				BRCA - Breast invasive adenocarcinoma(193;0.00116)|KIRC - Kidney renal clear cell carcinoma(197;0.00557)|Kidney(197;0.0063)		ATCTTGGTATTGAGCTCTGCA	0.547													30	63	---	---	---	---	PASS	C	46901133	C	C	46901133	3	2	93	1	0	0	0	0	1	0	0	0	10048	1812	63	5	286	5	MYL3	3	46901133	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	8308497	46901133	151121297	65	34996										
ARIH2	10425	broad.mit.edu	37	chr3	49002404	49002404	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aggctcgagttcagcctaatCcatcaaaacatgtgagtgtc	9	10	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:49002404C>G	uc003cvb.2	+	5	688	c.376C>G	c.(376-378)CCA>GCA	p.P126A	ARIH2_uc003cvc.2_Missense_Mutation_p.P126A|ARIH2_uc003cvf.2_Missense_Mutation_p.P44A|ARIH2_uc010hkl.2_Missense_Mutation_p.P126A	NM_006321	NP_006312	O95376	ARI2_HUMAN	ariadne homolog 2	126					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)		TCAGCCTAATCCATCAAAACA	0.393													29	38	---	---	---	---	PASS	G	49002404	G	G	49002404	3	3	93	1	0	0	0	0	1	0	0	0	924	855	30	2	386	2	ARIH2	3	49002404	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	2101271	49002404	149020026	66	34997										
PPP4R2	151987	broad.mit.edu	37	chr3	73108204	73108204	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gcagtatcccttttactattCagcgactatgtgaattgtta	7	8	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:73108204C>T	uc003dph.1	+	4	374	c.304C>T	c.(304-306)CAG>TAG	p.Q102*	PPP4R2_uc003dpi.1_Nonsense_Mutation_p.Q45*|FLJ10213_uc003dpj.2_5'Flank	NM_174907	NP_777567	Q9NY27	PP4R2_HUMAN	protein phosphatase 4, regulatory subunit 2	102					mRNA processing|protein modification process|regulation of double-strand break repair via homologous recombination|RNA splicing	centrosome|nucleus|protein phosphatase 4 complex	protein binding, bridging|protein phosphatase type 4 regulator activity			lung(1)	1		Prostate(10;0.0187)|Lung SC(41;0.236)		Epithelial(33;1.76e-07)|BRCA - Breast invasive adenocarcinoma(55;9.42e-05)|LUSC - Lung squamous cell carcinoma(21;0.00211)|Lung(16;0.00643)|KIRC - Kidney renal clear cell carcinoma(39;0.0164)|Kidney(39;0.0193)|OV - Ovarian serous cystadenocarcinoma(275;0.031)		TTTTACTATTCAGCGACTATG	0.313													29	30	---	---	---	---	PASS	T	73108204	T	T	73108204	4	4	93	1	0	0	0	0	0	1	0	0	12404	827	29	2	318	2	PPP4R2	3	73108204	Nonsense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	24105800	73108204	124914226	67	34998										
IMPG2	50939	broad.mit.edu	37	chr3	101023099	101023099	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tccagtaatgatattcctcaCgcccaggaagtcgatcccaa	7	13	1	1	rs147901568	byFrequency	TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:101023099C>A	uc003duq.1	-	3	595	c.392G>T	c.(391-393)CGT>CTT	p.R131L	IMPG2_uc011bhe.1_5'UTR	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	131	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						ATATTCCTCACGCCCAGGAAG	0.398													4	144	---	---	---	---	PASS	A	101023099	A	A	101023099	3	1	93	1	0	0	0	0	1	0	0	0	7729	536	19	1	3401	1	IMPG2	3	101023099	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	27914895	101023099	96999331	68	34999										
ZPLD1	131368	broad.mit.edu	37	chr3	102157338	102157338	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttccaggttttgcaatggaaCaaatatggttgctgctgctt	10	7	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:102157338C>A	uc003dvs.1	+	9	889	c.7C>A	c.(7-9)CAA>AAA	p.Q3K	ZPLD1_uc003dvt.1_Missense_Mutation_p.Q19K|ZPLD1_uc011bhg.1_Missense_Mutation_p.Q3K	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	3						integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						TGCAATGGAACAAATATGGTT	0.458													15	32	---	---	---	---	PASS	A	102157338	A	A	102157338	3	1	93	1	0	0	0	0	1	0	0	0	18218	479	17	3	61	3	ZPLD1	3	102157338	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	1134239	102157338	95865092	69	35000										
IFT57	55081	broad.mit.edu	37	chr3	107938410	107938410	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccagggttggtaggcagtgcAaaatagtgtctgtttcaaaa	12	6	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:107938410A>G	uc003dwx.3	-	2	470	c.222T>C	c.(220-222)TTT>TTC	p.F74F		NM_018010	NP_060480	Q9NWB7	IFT57_HUMAN	estrogen-related receptor beta like 1	74					activation of caspase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cilium|microtubule basal body	DNA binding|protein binding			ovary(1)|skin(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(3;0.0428)|Epithelial(53;0.246)			TAGGCAGTGCAAAATAGTGTC	0.423													21	95	---	---	---	---	PASS	G	107938410	G	G	107938410	2	3	93	1	0	0	0	0	0	0	0	1	7562	127	5	5		5	IFT57	3	107938410	Silent	SNP	A	TCGA-39-5036-01A-01D-1441-08	5781072	107938410	90084020	70	35001										
C3orf17	25871	broad.mit.edu	37	chr3	112727209	112727209	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttggcatgaggagttcctatCactttctgagaagaatactt	9	7	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:112727209C>G	uc003dzr.2	-	8	1105	c.1044G>C	c.(1042-1044)GTG>GTC	p.V348V	GTPBP8_uc011bhy.1_Intron|C3orf17_uc003dzq.2_5'UTR|C3orf17_uc011bhz.1_5'UTR|C3orf17_uc010hqh.2_5'UTR|C3orf17_uc003dzt.2_Silent_p.V251V|C3orf17_uc003dzs.2_Silent_p.V212V|C3orf17_uc010hqg.2_Silent_p.V173V|C3orf17_uc011bia.1_Silent_p.V145V|C3orf17_uc003dzu.2_Silent_p.V277V|C3orf17_uc011bib.1_Silent_p.V237V|C3orf17_uc011bic.1_Silent_p.V181V|C3orf17_uc011bid.1_RNA	NM_015412	NP_056227	Q6NW34	CC017_HUMAN	hypothetical protein LOC25871	348						integral to membrane					0						GAGTTCCTATCACTTTCTGAG	0.388													17	71	---	---	---	---	PASS	G	112727209	G	G	112727209	2	3	93	1	0	0	0	0	0	0	0	1	2210	813	29	2		2	C3orf17	3	112727209	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	4788799	112727209	85295221	71	35002										
WDR52	55779	broad.mit.edu	37	chr3	113138979	113138979	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	atatggcgatactgtcgtccAgaagttgtaggttggctcgc	13	8	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:113138979A>G	uc003eae.1	-	5	501	c.455T>C	c.(454-456)CTG>CCG	p.L152P		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	152										central_nervous_system(1)	1						ACTGTCGTCCAGAAGTTGTAG	0.428													14	46	---	---	---	---	PASS	G	113138979	G	G	113138979	3	3	93	1	0	0	0	0	1	0	0	0	17301	188	7	5	5248	5	WDR52	3	113138979	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	411770	113138979	84883451	72	35003										
PLA1A	51365	broad.mit.edu	37	chr3	119327761	119327761	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aaaaatgtgattaagttgagCctcgagatctcccttttcct	7	9	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:119327761C>A	uc003ecu.2	+	3	459	c.420C>A	c.(418-420)AGC>AGA	p.S140R	PLA1A_uc003ecv.2_Intron|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_5'UTR	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	140					lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						TTAAGTTGAGCCTCGAGATCT	0.473													38	90	---	---	---	---	PASS	A	119327761	A	A	119327761	3	1	93	1	0	0	0	0	1	0	0	0	11988	738	26	3	430	3	PLA1A	3	119327761	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	6188782	119327761	78694669	73	35004										
RAB43	339122	broad.mit.edu	37	chr3	128875486	128875486	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtttgcttaccattctgaatCtgagccacttttttagagat	7	8	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:128875486C>T	uc003elo.1	-	5	388	c.177G>A	c.(175-177)CAG>CAA	p.Q59Q	ISY1_uc010hsz.1_5'UTR|ISY1_uc003elp.1_Silent_p.Q59Q|ISY1_uc010hta.1_Silent_p.Q59Q	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						CATTCTGAATCTGAGCCACTT	0.194													24	97	---	---	---	---	PASS	T	128875486	T	T	128875486	2	4	93	1	0	0	0	0	0	0	0	1	12945	912	32	2		2	RAB43	3	128875486	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	9547725	128875486	69146944	74	35005										
CPB1	1360	broad.mit.edu	37	chr3	148562525	148562525	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tagctgcattggcacagaccCcaacagaaattttgatgctg	9	10	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:148562525C>A	uc003ewl.2	+	8	772	c.749C>A	c.(748-750)CCC>CAC	p.P250H		NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein	250					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			GGCACAGACCCCAACAGAAAT	0.403													31	113	---	---	---	---	PASS	A	148562525	A	A	148562525	3	1	93	1	0	0	0	0	1	0	0	0	3796	623	22	3	779	3	CPB1	3	148562525	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	19687039	148562525	49459905	75	35006										
SI	6476	broad.mit.edu	37	chr3	164735594	164735594	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tctggagttgggcccaaaaaCatataaaaatccaagatccc	7	10	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:164735594C>T	uc003fei.2	-	30	3650	c.3588G>A	c.(3586-3588)ATG>ATA	p.M1196I		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1196	Sucrase.|Lumenal.				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)	GGCCCAAAAACATATAAAAAT	0.328										HNSCC(35;0.089)			6	100	---	---	---	---	PASS	T	164735594	T	T	164735594	3	4	93	1	0	0	0	0	1	0	0	0	14297	478	17	3	1971	3	SI	3	164735594	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	16173069	164735594	33286836	76	35007										
SLITRK3	22865	broad.mit.edu	37	chr3	164907320	164907320	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cccagatgcaagagatccaaGgaagaaaaattccaaaaatc	7	9	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:164907320G>A	uc003fej.3	-	2	1743	c.1299C>T	c.(1297-1299)TCC>TCT	p.S433S	SLITRK3_uc003fek.2_Silent_p.S433S	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	433	LRR 8.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						AGAGATCCAAGGAAGAAAAAT	0.408										HNSCC(40;0.11)			4	104	---	---	---	---	PASS	A	164907320	A	A	164907320	2	1	93	1	0	0	0	0	0	0	0	1	14744	987	35	3		3	SLITRK3	3	164907320	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	171726	164907320	33115110	77	35008										
TBL1XR1	79718	broad.mit.edu	37	chr3	176756174	176756174	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gaatgcacatatctgtactaCaagaagcaaaggtgttgttg	10	6	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:176756174C>G	uc003fiw.3	-	11	1234	c.974G>C	c.(973-975)TGT>TCT	p.C325S	TBL1XR1_uc003fix.3_Missense_Mutation_p.C325S|TBL1XR1_uc011bpz.1_5'UTR	NM_024665	NP_078941	Q9BZK7	TBL1R_HUMAN	transducin (beta)-like 1 X-linked receptor 1	325	WD 4.				canonical Wnt receptor signaling pathway|cellular lipid metabolic process|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein N-terminus binding|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(143;1.44e-17)|Ovarian(172;0.00163)|Breast(254;0.214)	Acute lymphoblastic leukemia(1;0.00599)|all_hematologic(1;0.0632)|Prostate(884;0.215)	OV - Ovarian serous cystadenocarcinoma(80;9.83e-31)			ATCTGTACTACAAGAAGCAAA	0.373													4	25	---	---	---	---	PASS	G	176756174	G	G	176756174	3	3	93	1	0	0	0	0	1	0	0	0	15637	478	17	4	594	4	TBL1XR1	3	176756174	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	11848854	176756174	21266256	78	35009										
KCNMB2	10242	broad.mit.edu	37	chr3	178560680	178560680	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gccatggtgaaacttacacaGtacctctccctactatgtga	7	12	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:178560680G>A	uc003fjd.2	+	5	1006	c.663G>A	c.(661-663)CAG>CAA	p.Q221Q	uc003fjb.1_Intron|uc003fjc.1_Intron|KCNMB2_uc003fje.2_Silent_p.Q221Q|KCNMB2_uc003fjf.2_Silent_p.Q221Q|KCNMB2_uc011bqa.1_Intron|KCNMB2_uc011bqb.1_RNA	NM_181361	NP_852006	Q9Y691	KCMB2_HUMAN	calcium-activated potassium channel beta 2	221	Cytoplasmic (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of vasoconstriction	voltage-gated potassium channel complex	calcium-activated potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(1)	1	all_cancers(143;5.38e-18)|Ovarian(172;0.00769)|Breast(254;0.125)		OV - Ovarian serous cystadenocarcinoma(80;1.32e-27)|GBM - Glioblastoma multiforme(14;0.0321)|BRCA - Breast invasive adenocarcinoma(182;0.0841)			AACTTACACAGTACCTCTCCC	0.398													16	172	---	---	---	---	PASS	A	178560680	A	A	178560680	2	1	93	1	0	0	0	0	0	0	0	1	8075	1020	36	3		3	KCNMB2	3	178560680	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	1804506	178560680	19461750	79	35010										
CLDN16	10686	broad.mit.edu	37	chr3	190126224	190126224	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tttggttggtcctgttggctCggaatggctgggtctctggg	17	7	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:190126224C>A	uc003fsi.2	+	4	782	c.714C>A	c.(712-714)CTC>CTA	p.L238L	CLDN16_uc010hze.2_Intron	NM_006580	NP_006571	Q9Y5I7	CLD16_HUMAN	claudin 16	238	Extracellular (Potential).				calcium-independent cell-cell adhesion|cellular metal ion homeostasis|excretion	integral to membrane|tight junction	identical protein binding|magnesium ion transmembrane transporter activity|structural molecule activity			ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.018)		CCTGTTGGCTCGGAATGGCTG	0.388													5	361	---	---	---	---	PASS	A	190126224	A	A	190126224	2	1	93	1	0	0	0	0	0	0	0	1	3477	871	31	2		2	CLDN16	3	190126224	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	11565544	190126224	7896206	80	35011										
ATP13A4	84239	broad.mit.edu	37	chr3	193158357	193158357	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aagaacctactccagtttctGaaattcttccaccagactgg	6	12	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:193158357G>A	uc003ftd.2	-	21	2617	c.2509C>T	c.(2509-2511)CAG>TAG	p.Q837*	ATP13A4_uc003fte.1_Nonsense_Mutation_p.Q837*|ATP13A4_uc011bsr.1_Nonsense_Mutation_p.Q308*|ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	837	Extracellular (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)		TCCAGTTTCTGAAATTCTTCC	0.463													5	128	---	---	---	---	PASS	A	193158357	A	A	193158357	4	1	93	1	0	0	0	0	0	1	0	0	1126	1299	45	2	1121	2	ATP13A4	3	193158357	Nonsense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	3032133	193158357	4864073	81	35012										
SENP5	205564	broad.mit.edu	37	chr3	196626831	196626831	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agggaaataacaaactatcgGgccagacatcaaaaatgtaa	8	7	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr3:196626831G>T	uc003fwz.3	+	4	1905	c.1656G>T	c.(1654-1656)CGG>CGT	p.R552R	SENP5_uc011bty.1_Silent_p.R552R	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	552					cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		CAAACTATCGGGCCAGACATC	0.368													30	106	---	---	---	---	PASS	T	196626831	T	T	196626831	2	4	93	1	0	0	0	0	0	0	0	1	14049	1219	43	3		3	SENP5	3	196626831	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	3468474	196626831	1395599	82	35013										
TNIP2	79155	broad.mit.edu	37	chr4	2749604	2749604	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tccttctctcgctcgtgttgGggctggctcagcagctgctg	13	13	2	0	rs143687899		TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:2749604G>C	uc003gfg.2	-	2	432	c.345C>G	c.(343-345)CCC>CCG	p.P115P	TNIP2_uc003gff.2_Silent_p.P8P|TNIP2_uc003gfh.2_Silent_p.P115P	NM_024309	NP_077285	Q8NFZ5	TNIP2_HUMAN	A20-binding inhibitor of NF-kappaB activation 2	115	Potential.					cytosol	protein binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GCTCGTGTTGGGGCTGGCTCA	0.572													20	59	---	---	---	---	PASS	C	2749604	C	C	2749604	2	2	93	1	0	0	0	0	0	0	0	1	16312	1219	43	4		4	TNIP2	4	2749604	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08		2749604	188404672	83	35014										
CPEB2	132864	broad.mit.edu	37	chr4	15055755	15055755	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tattgtactttcttaagatgAaataactgctagcttcagaa	6	6	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:15055755A>C	uc003gni.1	+	7	1127	c.1040A>C	c.(1039-1041)GAA>GCA	p.E347A	CPEB2_uc003gnj.1_Missense_Mutation_p.E317A|CPEB2_uc003gnk.1_Missense_Mutation_p.E355A|CPEB2_uc003gnl.1_Missense_Mutation_p.E328A|CPEB2_uc003gnm.1_Missense_Mutation_p.E325A|CPEB2_uc003gnn.1_Missense_Mutation_p.E320A	NM_182485	NP_872291	Q7Z5Q1	CPEB2_HUMAN	cytoplasmic polyadenylation element binding	347	RRM 1.				regulation of translation	cytoplasm	nucleotide binding|RNA binding			skin(1)	1						TCTTAAGATGAAATAACTGCT	0.323													4	126	---	---	---	---	PASS	C	15055755	C	C	15055755	3	2	93	1	0	0	0	0	1	0	0	0	3801	246	9	5	2414	5	CPEB2	4	15055755	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	12306151	15055755	176098521	84	35015										
CCKAR	886	broad.mit.edu	37	chr4	26490935	26490935	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tggggatgaggttgaacggcAtgcagaagagacagagcatg	17	5	0	5			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:26490935A>G	uc003gse.1	-	2	437	c.284T>C	c.(283-285)ATG>ACG	p.M95T		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	95	Helical; Name=2; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	GTTGAACGGCATGCAGAAGAG	0.547													19	80	---	---	---	---	PASS	G	26490935	G	G	26490935	3	3	93	1	0	0	0	0	1	0	0	0	2880	217	8	5	1018	5	CCKAR	4	26490935	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	11435180	26490935	164663341	85	35016										
PTTG2	10744	broad.mit.edu	37	chr4	37962435	37962435	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	caatcttctagactttgagaGttttgacctgcctgaagagc	9	9	2	5			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:37962435G>T	uc011bye.1	+	1	380	c.380G>T	c.(379-381)AGT>ATT	p.S127I	TBC1D1_uc003gtb.2_Intron|TBC1D1_uc011byd.1_Intron|TBC1D1_uc010ifd.2_Intron	NM_006607	NP_006598	Q9NZH5	PTTG2_HUMAN	pituitary tumor-transforming 2	127					chromosome organization|DNA metabolic process	cytoplasm|nucleus	SH3 domain binding				0						GACTTTGAGAGTTTTGACCTG	0.453													26	87	---	---	---	---	PASS	T	37962435	T	T	37962435	3	4	93	1	0	0	0	0	1	0	0	0	12821	1029	36	3	382	3	PTTG2	4	37962435	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	11471500	37962435	153191841	86	35017										
APBB2	323	broad.mit.edu	37	chr4	41016210	41016210	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gagaggcccatggccgcctgGatgttagttagtgcatattt	13	8	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:41016210G>A	uc003gvl.2	-	6	855	c.225C>T	c.(223-225)ATC>ATT	p.I75I	APBB2_uc003gvm.2_Silent_p.I75I|APBB2_uc003gvn.2_Silent_p.I75I|APBB2_uc011byt.1_Silent_p.I58I	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	75					cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						TGGCCGCCTGGATGTTAGTTA	0.502													51	87	---	---	---	---	PASS	A	41016210	A	A	41016210	2	1	93	1	0	0	0	0	0	0	0	1	761	1164	41	2		2	APBB2	4	41016210	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	3053775	41016210	150138066	87	35018										
GABRG1	2565	broad.mit.edu	37	chr4	46060551	46060551	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttccgtaaccctacaaatgcAaactgatataatctccagta	4	11	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:46060551A>G	uc003gxb.2	-	6	866	c.714T>C	c.(712-714)TTT>TTC	p.F238F		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	238	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		CTACAAATGCAAACTGATATA	0.348													18	53	---	---	---	---	PASS	G	46060551	G	G	46060551	2	3	93	1	0	0	0	0	0	0	0	1	6171	127	5	5		5	GABRG1	4	46060551	Silent	SNP	A	TCGA-39-5036-01A-01D-1441-08	5044341	46060551	145093725	88	35019										
PDCL2	132954	broad.mit.edu	37	chr4	56448400	56448400	+	Missense_Mutation	SNP	G	T	T													0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tccattctgtatcttcattgGgatcctacacaaaaagaaaa							TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:56448400G>T	uc003hbb.2	-	2	114	c.11C>A	c.(10-12)CCC>CAC	p.P4H		NM_152401	NP_689614	Q8N4E4	PDCL2_HUMAN	phosducin-like 2	4											0	Lung NSC(11;0.00256)|Glioma(25;0.08)|all_epithelial(27;0.0863)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.69e-07)|Lung(4;1.03e-06)|Epithelial(7;0.00669)			ATCTTCATTGGGATCCTACAC	0.299													15	55	---	---	---	---	PASS	T	56448400	T	T	56448400	3	4	93	1	0	0	0	0	1	0	0	0	11627	1232	43	3	734	3	PDCL2	4	56448400	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	10387849	56448400	134705876	89	35020	665	2								
PDCL2	132954	broad.mit.edu	37	chr4	56448401	56448401	+	Missense_Mutation	SNP	G	T	T													0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccattctgtatcttcattggGatcctacacaaaaagaaaag							TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:56448401G>T	uc003hbb.2	-	2	113	c.10C>A	c.(10-12)CCC>ACC	p.P4T		NM_152401	NP_689614	Q8N4E4	PDCL2_HUMAN	phosducin-like 2	4											0	Lung NSC(11;0.00256)|Glioma(25;0.08)|all_epithelial(27;0.0863)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.69e-07)|Lung(4;1.03e-06)|Epithelial(7;0.00669)			TCTTCATTGGGATCCTACACA	0.299													15	55	---	---	---	---	PASS	T	56448401	T	T	56448401	3	4	93	1	0	0	0	0	1	0	0	0	11627	1174	41	2	735	2	PDCL2	4	56448401	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	1	56448401	134705875	90	35021	665	2								
REST	5978	broad.mit.edu	37	chr4	57786007	57786007	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctcaagttctcagaagactcAtctaactagacatatgcgta	6	10	4	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:57786007A>T	uc003hch.2	+	3	1300	c.953A>T	c.(952-954)CAT>CTT	p.H318L	REST_uc003hci.2_Missense_Mutation_p.H318L|REST_uc010ihf.2_5'UTR	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	318	C2H2-type 5.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					CAGAAGACTCATCTAACTAGA	0.323													3	96	---	---	---	---	PASS	T	57786007	T	T	57786007	3	4	93	1	0	0	0	0	1	0	0	0	13234	217	8	5	959	5	REST	4	57786007	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	1337606	57786007	133368269	91	35022										
EPHA5	2044	broad.mit.edu	37	chr4	66356236	66356236	+	Missense_Mutation	SNP	G	T	T													0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	catgacagaggtgtttttcaGgccgctttgccggggaaggt							TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:66356236G>T	uc003hcy.2	-	5	1454	c.1261C>A	c.(1261-1263)CTG>ATG	p.L421M	EPHA5_uc003hcx.2_Missense_Mutation_p.L352M|EPHA5_uc003hcz.2_Missense_Mutation_p.L421M|EPHA5_uc011cah.1_Missense_Mutation_p.L421M|EPHA5_uc011cai.1_Missense_Mutation_p.L421M|EPHA5_uc003hda.2_Missense_Mutation_p.L421M	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	421	Fibronectin type-III 1.|Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						GTGTTTTTCAGGCCGCTTTGC	0.507										TSP Lung(17;0.13)			53	54	---	---	---	---	PASS	T	66356236	T	T	66356236	3	4	93	1	0	0	0	0	1	0	0	0	5170	991	35	3	1908	3	EPHA5	4	66356236	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	8570229	66356236	124798040	92	35023	666	2								
EPHA5	2044	broad.mit.edu	37	chr4	66356237	66356237	+	Silent	SNP	G	T	T													0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	atgacagaggtgtttttcagGccgctttgccggggaaggta							TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:66356237G>T	uc003hcy.2	-	5	1453	c.1260C>A	c.(1258-1260)GGC>GGA	p.G420G	EPHA5_uc003hcx.2_Silent_p.G351G|EPHA5_uc003hcz.2_Silent_p.G420G|EPHA5_uc011cah.1_Silent_p.G420G|EPHA5_uc011cai.1_Silent_p.G420G|EPHA5_uc003hda.2_Silent_p.G420G	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	420	Fibronectin type-III 1.|Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TGTTTTTCAGGCCGCTTTGCC	0.502										TSP Lung(17;0.13)			53	53	---	---	---	---	PASS	T	66356237	T	T	66356237	2	4	93	1	0	0	0	0	0	0	0	1	5170	1190	42	3		3	EPHA5	4	66356237	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	1	66356237	124798039	93	35024	666	2								
UGT2B15	7366	broad.mit.edu	37	chr4	69535760	69535760	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cataacaacaggtacataggAaggagggaacagaaatcctc	10	8	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:69535760A>C	uc011cal.1	-	1	615	c.577T>G	c.(577-579)TCC>GCC	p.S193A		NM_001076	NP_001067	P54855	UDB15_HUMAN	UDP glycosyltransferase 2B15 precursor	193					steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity				0						GGTACATAGGAAGGAGGGAAC	0.358													4	402	---	---	---	---	PASS	C	69535760	C	C	69535760	3	2	93	1	0	0	0	0	1	0	0	0	16955	246	9	5	2656	5	UGT2B15	4	69535760	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	3179523	69535760	121618516	94	35025										
WDFY3	23001	broad.mit.edu	37	chr4	85771053	85771053	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttgctggctactgtaaaaatAcctgtggatttgtttgatgc	10	6	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:85771053A>G	uc003hpd.2	-	5	712	c.304_splice	c.e5+1	p.E102_splice	WDFY3_uc003hpf.2_Splice_Site_p.E102_splice	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform							cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CTGTAAAAATACCTGTGGATT	0.363													5	111	---	---	---	---	PASS	G	85771053	G	G	85771053	5	3	93	1	0	0	0	0	0	0	1	0	17267	405	14	5	10573	5	WDFY3	4	85771053	Splice_Site	SNP	A	TCGA-39-5036-01A-01D-1441-08	16235293	85771053	105383223	95	35026										
ANK2	287	broad.mit.edu	37	chr4	114278132	114278132	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	atgagtcctagcagctcagcTgctcctgtctcttcaggtct	9	13	4	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:114278132T>A	uc003ibe.3	+	38	8458	c.8358T>A	c.(8356-8358)GCT>GCA	p.A2786A	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Silent_p.A88A|ANK2_uc011cgb.1_Silent_p.A2801A	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2753					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GCAGCTCAGCTGCTCCTGTCT	0.463													42	23	---	---	---	---	PASS	A	114278132	A	A	114278132	2	1	93	1	0	0	0	0	0	0	0	1	621	1567	55	5		5	ANK2	4	114278132	Silent	SNP	T	TCGA-39-5036-01A-01D-1441-08	28507079	114278132	76876144	96	35027										
POU4F2	5458	broad.mit.edu	37	chr4	147561769	147561769	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcaatggcgcggagaagaagCgcaagcgcacgtccatcgct	13	12	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:147561769C>T	uc003ikv.2	+	2	1287	c.1039C>T	c.(1039-1041)CGC>TGC	p.R347C		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	347	Homeobox.				estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					GGAGAAGAAGCGCAAGCGCAC	0.622													7	161	---	---	---	---	PASS	T	147561769	T	T	147561769	3	4	93	1	0	0	0	0	1	0	0	0	12279	768	27	1	1045	1	POU4F2	4	147561769	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	33283637	147561769	43592507	97	35028										
FGA	2243	broad.mit.edu	37	chr4	155510606	155510606	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tacccagtcttcatcagagcAgaagggccagtctgaatctt	9	11	5	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:155510606A>T	uc003iod.1	-	2	221	c.163T>A	c.(163-165)TGC>AGC	p.C55S	FGA_uc003ioe.1_Missense_Mutation_p.C55S|FGA_uc003iof.1_Missense_Mutation_p.C55S	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	55					platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	TCATCAGAGCAGAAGGGCCAG	0.542													53	64	---	---	---	---	PASS	T	155510606	T	T	155510606	3	4	93	1	0	0	0	0	1	0	0	0	5830	188	7	5	2501	5	FGA	4	155510606	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	7948837	155510606	35643670	98	35029										
VEGFC	7424	broad.mit.edu	37	chr4	177649017	177649017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cacatctgtagacggacacaCatggaggtttaaagaaggtg	12	7	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:177649017C>A	uc003ius.1	-	3	897	c.467G>T	c.(466-468)TGT>TTT	p.C156F		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	156					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		GACGGACACACATGGAGGTTT	0.517													39	50	---	---	---	---	PASS	A	177649017	A	A	177649017	3	1	93	1	0	0	0	0	1	0	0	0	17149	478	17	3	815	3	VEGFC	4	177649017	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	22138411	177649017	13505259	99	35030										
ODZ3	55714	broad.mit.edu	37	chr4	183675813	183675813	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aaaattaaccggataaggcaGgtcacaacagatggagaaat	10	6	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr4:183675813G>T	uc003ivd.1	+	21	4330	c.4293G>T	c.(4291-4293)CAG>CAT	p.Q1431H	ODZ3_uc003ive.1_Missense_Mutation_p.Q844H	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1431	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GGATAAGGCAGGTCACAACAG	0.468													5	37	---	---	---	---	PASS	T	183675813	T	T	183675813	3	4	93	1	0	0	0	0	1	0	0	0	10836	991	35	3	4375	3	ODZ3	4	183675813	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	6026796	183675813	7478463	100	35031										
SLC6A3	6531	broad.mit.edu	37	chr5	1409227	1409227	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aatggtccaggagcgtgaagAcgtagatgccaccctggaag	14	9	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:1409227A>T	uc003jck.2	-	11	1533	c.1412T>A	c.(1411-1413)GTC>GAC	p.V471D		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	471					cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	GAGCGTGAAGACGTAGATGCC	0.572													3	38	---	---	---	---	PASS	T	1409227	T	T	1409227	3	4	93	1	0	0	0	0	1	0	0	0	14685	275	10	5	470	5	SLC6A3	5	1409227	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08		1409227	179506033	101	35032										
C5orf49	134121	broad.mit.edu	37	chr5	7832066	7832066	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tggcacggccaaagtcccggTttaggggctcaatgggctga	15	10	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:7832066T>A	uc003jea.3	-	3	471	c.341A>T	c.(340-342)AAC>ATC	p.N114I		NM_001089584	NP_001083053	A4QMS7	CE049_HUMAN	hypothetical protein LOC134121	114											0						AAAGTCCCGGTTTAGGGGCTC	0.547													11	327	---	---	---	---	PASS	A	7832066	A	A	7832066	3	1	93	1	0	0	0	0	1	0	0	0	2307	1725	60	5	106	5	C5orf49	5	7832066	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	6422839	7832066	173083194	102	35033										
RNASEN	29102	broad.mit.edu	37	chr5	31511217	31511217	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggccttttcttgcctgctccCcaactcctcctcaaatttgt	5	16	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:31511217C>A	uc003jhg.2	-	8	1716	c.1357G>T	c.(1357-1359)GGG>TGG	p.G453W	RNASEN_uc003jhh.2_Missense_Mutation_p.G416W|RNASEN_uc003jhi.2_Missense_Mutation_p.G416W|RNASEN_uc010iui.1_Missense_Mutation_p.G376W	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	453					gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						TGCCTGCTCCCCAACTCCTCC	0.448													59	69	---	---	---	---	PASS	A	31511217	A	A	31511217	3	1	93	1	0	0	0	0	1	0	0	0	13417	623	22	3	2879	3	RNASEN	5	31511217	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	23679151	31511217	149404043	103	35034										
PDZD2	23037	broad.mit.edu	37	chr5	32000253	32000253	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccctttcctcagggatggcaGgctgtccttaggagatgagc	13	11	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:32000253G>T	uc003jhl.2	+	5	1518	c.1130G>T	c.(1129-1131)AGG>ATG	p.R377M	PDZD2_uc003jhm.2_Missense_Mutation_p.R377M|PDZD2_uc011cnx.1_Missense_Mutation_p.R203M	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	377	PDZ 2.				cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						AGGGATGGCAGGCTGTCCTTA	0.547													21	48	---	---	---	---	PASS	T	32000253	T	T	32000253	3	4	93	1	0	0	0	0	1	0	0	0	11701	1000	35	3	1144	3	PDZD2	5	32000253	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	489036	32000253	148915007	104	35035										
PDZD2	23037	broad.mit.edu	37	chr5	32059445	32059445	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gctccaggatcagtggccaaGatggagagcaacctgaggtt	14	9	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:32059445G>C	uc003jhl.2	+	13	2689	c.2301G>C	c.(2299-2301)AAG>AAC	p.K767N	PDZD2_uc003jhm.2_Missense_Mutation_p.K767N|PDZD2_uc011cnx.1_Missense_Mutation_p.K593N	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	767	PDZ 4.				cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CAGTGGCCAAGATGGAGAGCA	0.448													6	82	---	---	---	---	PASS	C	32059445	C	C	32059445	3	2	93	1	0	0	0	0	1	0	0	0	11701	933	33	2	2347	2	PDZD2	5	32059445	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	59192	32059445	148855815	105	35036										
RANBP3L	202151	broad.mit.edu	37	chr5	36249793	36249793	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	actgtctgtgagtccaactaGaaggatctgtgatataaatt	9	6	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:36249793G>A	uc003jkh.2	-	14	1854	c.1361C>T	c.(1360-1362)TCT>TTT	p.S454F	RANBP3L_uc011cow.1_Missense_Mutation_p.S479F	NM_145000	NP_659437	Q86VV4	RNB3L_HUMAN	RAN binding protein 3-like isoform 2	454					intracellular transport					ovary(1)	1	all_lung(31;4.52e-05)		Epithelial(62;0.0543)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.149)|Colorectal(62;0.202)			AGTCCAACTAGAAGGATCTGT	0.284													4	108	---	---	---	---	PASS	A	36249793	A	A	36249793	3	1	93	1	0	0	0	0	1	0	0	0	13030	942	33	2	40	2	RANBP3L	5	36249793	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	4190348	36249793	144665467	106	35037										
RPL37	6167	broad.mit.edu	37	chr5	40834286	40834286	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gaacatacaaactgtacctgAatctgcggtatacaattttt	6	8	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:40834286A>G	uc003jme.1	-	3	321	c.221T>C	c.(220-222)TTC>TCC	p.F74S	SNORD72_uc003jmf.1_5'Flank	NM_000997	NP_000988	P61927	RL37_HUMAN	ribosomal protein L37	74					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	metal ion binding|protein binding|rRNA binding|structural constituent of ribosome				0		Breast(839;0.238)				ACTGTACCTGAATCTGCGGTA	0.408													5	114	---	---	---	---	PASS	G	40834286	G	G	40834286	3	3	93	1	0	0	0	0	1	0	0	0	13589	246	9	5	80	5	RPL37	5	40834286	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	4584493	40834286	140080974	107	35038										
C6	729	broad.mit.edu	37	chr5	41199881	41199881	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	atacattaccactgtcacagCgaaatttattcttgcagtca	5	10	3	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:41199881C>G	uc003jmk.2	-	4	644	c.434G>C	c.(433-435)CGC>CCC	p.R145P	C6_uc003jml.1_Missense_Mutation_p.R145P	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	145	LDL-receptor class A.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				ACTGTCACAGCGAAATTTATT	0.413													34	105	---	---	---	---	PASS	G	41199881	G	G	41199881	3	3	93	1	0	0	0	0	1	0	0	0	2315	768	27	4	2430	4	C6	5	41199881	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	365595	41199881	139715379	108	35039										
EMB	133418	broad.mit.edu	37	chr5	49699253	49699253	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcgttagcatatgttccattGatcacatatttattcatttg	5	7	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:49699253G>C	uc003jom.2	-	6	885	c.636C>G	c.(634-636)ATC>ATG	p.I212M	EMB_uc010ivq.2_Missense_Mutation_p.I6M|EMB_uc003jol.2_Missense_Mutation_p.I143M|EMB_uc011cpy.1_Missense_Mutation_p.I162M|EMB_uc010ivr.2_Missense_Mutation_p.I158M	NM_198449	NP_940851	Q6PCB8	EMB_HUMAN	embigin precursor	212	Extracellular (Potential).|Ig-like V-type 2.					integral to membrane					0	Lung SC(58;0.218)	Lung NSC(810;0.0795)				ATGTTCCATTGATCACATATT	0.363													3	76	---	---	---	---	PASS	C	49699253	C	C	49699253	3	2	93	1	0	0	0	0	1	0	0	0	5085	1280	45	2	363	2	EMB	5	49699253	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	8499372	49699253	131216007	109	35040										
IPO11	51194	broad.mit.edu	37	chr5	61778973	61778973	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctttttcatttactcctctaAttcagagatcactggaattt	4	9	4	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:61778973A>G	uc003jtc.2	+	10	1064	c.874A>G	c.(874-876)ATT>GTT	p.I292V	IPO11_uc011cqr.1_Missense_Mutation_p.I332V|IPO11_uc003jtb.1_Missense_Mutation_p.I292V	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	292						cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		TACTCCTCTAATTCAGAGATC	0.299													8	75	---	---	---	---	PASS	G	61778973	G	G	61778973	3	3	93	1	0	0	0	0	1	0	0	0	7793	101	4	5	1032	5	IPO11	5	61778973	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	12079720	61778973	119136287	110	35041										
IPO11	51194	broad.mit.edu	37	chr5	61802105	61802105	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cacactactttttcagttacTgcagcaagttacagaatgtg	7	9	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:61802105T>G	uc003jtc.2	+	19	1893	c.1703T>G	c.(1702-1704)CTG>CGG	p.L568R	IPO11_uc011cqr.1_Missense_Mutation_p.L608R|IPO11_uc003jtd.1_RNA	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	568	HEAT 7.					cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		TTTCAGTTACTGCAGCAAGTT	0.328													12	66	---	---	---	---	PASS	G	61802105	G	G	61802105	3	3	93	1	0	0	0	0	1	0	0	0	7793	1580	55	5	1897	5	IPO11	5	61802105	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	23132	61802105	119113155	111	35042										
F2RL1	2150	broad.mit.edu	37	chr5	76129526	76129526	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tctcctttgccgaagtgtccGcactgtaaagcagatgcaag	10	11	1	1	rs149001132		TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:76129526G>A	uc003keo.2	+	2	1269	c.1094G>A	c.(1093-1095)CGC>CAC	p.R365H		NM_005242	NP_005233	P55085	PAR2_HUMAN	coagulation factor II (thrombin) receptor-like 1	365	Cytoplasmic (Potential).				blood coagulation|elevation of cytosolic calcium ion concentration|positive regulation of leukocyte chemotaxis|positive regulation of positive chemotaxis|regulation of blood coagulation	Golgi apparatus|integral to plasma membrane	receptor binding|thrombin receptor activity			central_nervous_system(1)	1		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;7.7e-51)|Epithelial(54;2.77e-45)|all cancers(79;3.47e-41)		CGAAGTGTCCGCACTGTAAAG	0.448													13	234	---	---	---	---	PASS	A	76129526	A	A	76129526	3	1	93	1	0	0	0	0	1	0	0	0	5344	1087	38	1	1100	1	F2RL1	5	76129526	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	14327421	76129526	104785734	112	35043										
VCAN	1462	broad.mit.edu	37	chr5	82817981	82817981	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	atttcacgacttcaagtcctCctgctacacagccaacaaga	5	14	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:82817981C>T	uc003kii.3	+	7	4212	c.3856C>T	c.(3856-3858)CCT>TCT	p.P1286S	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.P1286S|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1286	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TTCAAGTCCTCCTGCTACACA	0.473													4	87	---	---	---	---	PASS	T	82817981	T	T	82817981	3	4	93	1	0	0	0	0	1	0	0	0	17135	855	30	2	3878	2	VCAN	5	82817981	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	6688455	82817981	98097279	113	35044										
SLCO6A1	133482	broad.mit.edu	37	chr5	101834440	101834440	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cttcgaggacttcggggttcCcttggccctcctgtccttag	11	14	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:101834440C>T	uc003knn.2	-	1	281	c.109G>A	c.(109-111)GGA>AGA	p.G37R	SLCO6A1_uc003kno.2_Missense_Mutation_p.G37R|SLCO6A1_uc003knp.2_Missense_Mutation_p.G37R|SLCO6A1_uc003knq.2_Missense_Mutation_p.G37R	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	37	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		TTCGGGGTTCCCTTGGCCCTC	0.602													112	164	---	---	---	---	PASS	T	101834440	T	T	101834440	3	4	93	1	0	0	0	0	1	0	0	0	14732	632	22	3	2102	3	SLCO6A1	5	101834440	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	19016459	101834440	79080820	114	35045										
CEP120	153241	broad.mit.edu	37	chr5	122708355	122708355	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	catgtgtaccttttccaaggTgagaagatttatttcagact	8	7	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:122708355T>G	uc003ktk.2	-	18	2552	c.2470A>C	c.(2470-2472)ACC>CCC	p.T824P	CEP120_uc011cwq.1_Missense_Mutation_p.T633P	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	824	Potential.					centrosome				ovary(1)	1						TTTTCCAAGGTGAGAAGATTT	0.299													32	54	---	---	---	---	PASS	G	122708355	G	G	122708355	3	3	93	1	0	0	0	0	1	0	0	0	3246	1696	59	5	506	5	CEP120	5	122708355	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	20873915	122708355	58206905	115	35046										
ADAMTS19	171019	broad.mit.edu	37	chr5	128844873	128844873	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgtatataggcagaaaaggtCcatggaggaaaaggtcacag	13	5	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:128844873C>T	uc003kvb.1	+	3	833	c.833C>T	c.(832-834)TCC>TTC	p.S278F	ADAMTS19_uc003kvc.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	278					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		CAGAAAAGGTCCATGGAGGAA	0.398													9	63	---	---	---	---	PASS	T	128844873	T	T	128844873	3	4	93	1	0	0	0	0	1	0	0	0	264	855	30	2	843	2	ADAMTS19	5	128844873	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	6136518	128844873	52070387	116	35047										
PCDHA12	56137	broad.mit.edu	37	chr5	140257180	140257180	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	catcgccatctgtgcggtgtCcagcctgctggtgctcacgc	12	15	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:140257180C>A	uc003lic.2	+	1	2250	c.2123C>A	c.(2122-2124)TCC>TAC	p.S708Y	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.S708Y	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	708	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTGCGGTGTCCAGCCTGCTG	0.667													18	23	---	---	---	---	PASS	A	140257180	A	A	140257180	3	1	93	1	0	0	0	0	1	0	0	0	11522	855	30	2	2125	2	PCDHA12	5	140257180	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	11412307	140257180	40658080	117	35048										
PCDHB7	56129	broad.mit.edu	37	chr5	140553393	140553393	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcaggccaaagacggcggcgGgctttctggaaaatgcactg	14	10	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:140553393G>A	uc003lit.2	+	1	1151	c.977G>A	c.(976-978)GGG>GAG	p.G326E		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	326	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GACGGCGGCGGGCTTTCTGGA	0.433													31	35	---	---	---	---	PASS	A	140553393	A	A	140553393	3	1	93	1	0	0	0	0	1	0	0	0	11547	1232	43	3	979	3	PCDHB7	5	140553393	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	296213	140553393	40361867	118	35049										
PCDHGA3	56112	broad.mit.edu	37	chr5	140723680	140723680	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggggacgctgtgcgaaacagGatccggtcagatccgctact	14	11	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:140723680G>C	uc003ljm.1	+	1	80	c.80G>C	c.(79-81)GGA>GCA	p.G27A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Missense_Mutation_p.G27A	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	27					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCGAAACAGGATCCGGTCAG	0.582											OREG0016855	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	82	94	---	---	---	---	PASS	C	140723680	C	C	140723680	3	2	93	1	0	0	0	0	1	0	0	0	11555	1174	41	2	82	2	PCDHGA3	5	140723680	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	170287	140723680	40191580	119	35050										
PCDHGA11	56105	broad.mit.edu	37	chr5	140802625	140802625	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggctgtcctatcgcctgcttAaggccagcgagccgggactc	13	14	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:140802625A>T	uc003lkq.1	+	1	2089	c.1831A>T	c.(1831-1833)AAG>TAG	p.K611*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Nonsense_Mutation_p.K611*|PCDHGA11_uc003lkp.1_Nonsense_Mutation_p.K611*	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	611	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGCCTGCTTAAGGCCAGCGA	0.662													35	42	---	---	---	---	PASS	T	140802625	T	T	140802625	4	4	93	1	0	0	0	0	0	1	0	0	11552	363	13	5	1833	5	PCDHGA11	5	140802625	Nonsense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	78945	140802625	40112635	120	35051										
CCNJL	79616	broad.mit.edu	37	chr5	159680516	159680516	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aagggatgcagggacgggcaCgggacacatatccaagggct	16	9	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:159680516C>T	uc003lyb.1	-	7	1429	c.1177G>A	c.(1177-1179)GTG>ATG	p.V393M	CCNJL_uc011dee.1_Missense_Mutation_p.V345M|CCNJL_uc003lyc.1_RNA	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	393						nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGGACGGGCACGGGACACATA	0.622													7	90	---	---	---	---	PASS	T	159680516	T	T	159680516	3	4	93	1	0	0	0	0	1	0	0	0	2929	536	19	1	134	1	CCNJL	5	159680516	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	18877891	159680516	21234744	121	35052										
DOCK2	1794	broad.mit.edu	37	chr5	169081483	169081483	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtggtgcgaatacaggagacGtgtggaggtgagtcactggc	18	6	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr5:169081483G>T	uc003maf.2	+	2	200	c.120G>T	c.(118-120)ACG>ACT	p.T40T	DOCK2_uc011der.1_RNA	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	40	SH3.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TACAGGAGACGTGTGGAGGTG	0.582													39	39	---	---	---	---	PASS	T	169081483	T	T	169081483	2	4	93	1	0	0	0	0	0	0	0	1	4687	1132	40	1		1	DOCK2	5	169081483	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	9400967	169081483	11833777	122	35053										
C6orf195	154386	broad.mit.edu	37	chr6	2623807	2623807	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gaaggaggaaatgctccaggCctgacagcaaccgcagtggg	15	10	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:2623807C>A	uc003mtw.2	-	3	1235	c.250G>T	c.(250-252)GCC>TCC	p.A84S		NM_152554	NP_689767	Q96MT4	CF195_HUMAN	hypothetical protein LOC154386	84											0	Ovarian(93;0.0412)	all_hematologic(90;0.0895)				ATGCTCCAGGCCTGACAGCAA	0.597													43	40	---	---	---	---	PASS	A	2623807	A	A	2623807	3	1	93	1	0	0	0	0	1	0	0	0	2350	739	26	3	137	3	C6orf195	6	2623807	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08		2623807	168491260	123	35054										
DSP	1832	broad.mit.edu	37	chr6	7583049	7583049	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cagaaaccagggtgaaacagCgcctggagtgtgagaaacag	14	8	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:7583049C>T	uc003mxp.1	+	24	5833	c.5554C>T	c.(5554-5556)CGC>TGC	p.R1852C	DSP_uc003mxq.1_Missense_Mutation_p.R1253C	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1852	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GGTGAAACAGCGCCTGGAGTG	0.478													11	118	---	---	---	---	PASS	T	7583049	T	T	7583049	3	4	93	1	0	0	0	0	1	0	0	0	4781	768	27	1	5648	1	DSP	6	7583049	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	4959242	7583049	163532018	124	35055										
SLC17A3	10786	broad.mit.edu	37	chr6	25851025	25851025	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tatgatgtattctttttctgAggtgcttatccatggatagg	10	5	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:25851025A>T	uc003nfi.3	-	6	669	c.559T>A	c.(559-561)TCA>ACA	p.S187T	SLC17A3_uc003nfk.3_Missense_Mutation_p.S265T|SLC17A3_uc011djz.1_Missense_Mutation_p.S265T|SLC17A3_uc011dka.1_Missense_Mutation_p.S187T	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	187					glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						TCTTTTTCTGAGGTGCTTATC	0.413													49	56	---	---	---	---	PASS	T	25851025	T	T	25851025	3	4	93	1	0	0	0	0	1	0	0	0	14418	304	11	5	727	5	SLC17A3	6	25851025	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	18267976	25851025	145264042	125	35056										
HIST1H2BN	8341	broad.mit.edu	37	chr6	27806769	27806769	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccaggggagctggccaagcaCgcggtgtcggagggcaccaa	17	12	0	0	rs144906486	byFrequency	TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:27806769C>T	uc003njv.2	+	1	330	c.330C>T	c.(328-330)CAC>CAT	p.H110H	HIST1H2AK_uc003njs.2_5'Flank|HIST1H2BN_uc003njt.1_RNA|HIST1H2BN_uc003nju.1_Silent_p.H110H	NM_003520	NP_003511	Q99877	H2B1N_HUMAN	histone cluster 1, H2bn	110					nucleosome assembly	nucleosome|nucleus	DNA binding				0						TGGCCAAGCACGCGGTGTCGG	0.662													57	40	---	---	---	---	PASS	T	27806769	T	T	27806769	2	4	93	1	0	0	0	0	0	0	0	1	7153	535	19	1		1	HIST1H2BN	6	27806769	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	1955744	27806769	143308298	126	35057										
GNL1	2794	broad.mit.edu	37	chr6	30514615	30514615	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccacgtttctctgcccaggcTggaggaagaaaagaataatg	11	9	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:30514615T>A	uc003nqh.2	-	11	2470	c.1442_splice	c.e11-1	p.A481_splice	GNL1_uc011dmi.1_Splice_Site_p.A278_splice|GNL1_uc011dmj.1_Splice_Site_p.A479_splice|GNL1_uc011dmk.1_Splice_Site_p.A136_splice	NM_005275	NP_005266	P36915	GNL1_HUMAN	guanine nucleotide binding protein-like 1						response to DNA damage stimulus|signal transduction|T cell mediated immunity	extracellular space|intracellular	GTP binding|structural molecule activity			ovary(3)	3						CTGCCCAGGCTGGAGGAAGAA	0.517													43	38	---	---	---	---	PASS	A	30514615	A	A	30514615	5	1	93	1	0	0	0	0	0	0	1	0	6535	1594	55	5	391	5	GNL1	6	30514615	Splice_Site	SNP	T	TCGA-39-5036-01A-01D-1441-08	2707846	30514615	140600452	127	35058										
STK19	8859	broad.mit.edu	37	chr6	31948524	31948524	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gcgggcgcctgtcgtggtgcGgcttggcctcacctaccatg	15	14	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:31948524G>A	uc003nyv.2	+	7	1135	c.1007G>A	c.(1006-1008)CGG>CAG	p.R336Q	STK19_uc003nyt.2_Missense_Mutation_p.R289Q|STK19_uc011dox.1_Missense_Mutation_p.R293Q|STK19_uc003nyw.2_Missense_Mutation_p.R332Q|STK19_uc010jtn.1_RNA|C4A_uc011doy.1_5'Flank|C4A_uc011doz.1_5'Flank|C4A_uc011dpa.1_5'Flank	NM_032454	NP_115830	P49842	STK19_HUMAN	serine/threonine kinase 19 isoform 2	336						nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			skin(4)	4						GTCGTGGTGCGGCTTGGCCTC	0.617													4	64	---	---	---	---	PASS	A	31948524	A	A	31948524	3	1	93	1	0	0	0	0	1	0	0	0	15291	1116	39	1	1033	1	STK19	6	31948524	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	1433909	31948524	139166543	128	35059										
CRISP2	7180	broad.mit.edu	37	chr6	49668381	49668381	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cttacagcactgcctcttacCatctttagcatgttactggc	6	13	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:49668381C>A	uc003ozq.2	-	5	439	c.183G>T	c.(181-183)ATG>ATT	p.M61I	CRISP2_uc003ozl.2_Missense_Mutation_p.M61I|CRISP2_uc003ozn.2_Missense_Mutation_p.M61I|CRISP2_uc003ozr.2_Missense_Mutation_p.M61I|CRISP2_uc003ozo.2_Missense_Mutation_p.M61I|CRISP2_uc003ozm.2_Missense_Mutation_p.M61I|CRISP2_uc003ozp.2_Missense_Mutation_p.M61I	NM_001142408	NP_001135880	P16562	CRIS2_HUMAN	cysteine-rich secretory protein 2 precursor	61						extracellular space				skin(1)	1	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			TGCCTCTTACCATCTTTAGCA	0.458													8	58	---	---	---	---	PASS	A	49668381	A	A	49668381	3	1	93	1	0	0	0	0	1	0	0	0	3880	608	21	3	572	3	CRISP2	6	49668381	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	17719857	49668381	121446686	129	35060										
BMP5	653	broad.mit.edu	37	chr6	55625317	55625317	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cttacaggcttgtttttgctCacttgtgttataatctgaag	8	7	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:55625317C>T	uc003pcq.2	-	5	1754	c.1042G>A	c.(1042-1044)GAG>AAG	p.E348K	BMP5_uc011dxf.1_Missense_Mutation_p.E348K	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	348					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			TGTTTTTGCTCACTTGTGTTA	0.363													31	43	---	---	---	---	PASS	T	55625317	T	T	55625317	3	4	93	1	0	0	0	0	1	0	0	0	1463	835	29	2	334	2	BMP5	6	55625317	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	5956936	55625317	115489750	130	35061										
C6orf167	253714	broad.mit.edu	37	chr6	97679345	97679345	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	atgagggccattgctcttcaTtgcttttttaacaacttttg	7	8	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:97679345T>C	uc003ppb.2	-	13	1752	c.1486A>G	c.(1486-1488)ATG>GTG	p.M496V	C6orf167_uc011eaf.1_Missense_Mutation_p.M456V|C6orf167_uc010kcn.1_Missense_Mutation_p.M270V	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	496					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		TTGCTCTTCATTGCTTTTTTA	0.368													26	34	---	---	---	---	PASS	C	97679345	C	C	97679345	3	2	93	1	0	0	0	0	1	0	0	0	2342	1493	52	5	2297	5	C6orf167	6	97679345	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	42054028	97679345	73435722	131	35062										
GRIK2	2898	broad.mit.edu	37	chr6	102483400	102483400	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	taacctgacacagattggcgGccttatagactctaaaggtt	9	9	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:102483400G>T	uc003pqp.3	+	14	2519	c.2270G>T	c.(2269-2271)GGC>GTC	p.G757V	GRIK2_uc003pqo.3_Missense_Mutation_p.G757V|GRIK2_uc010kcw.2_Missense_Mutation_p.G757V	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	757	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	CAGATTGGCGGCCTTATAGAC	0.458													76	159	---	---	---	---	PASS	T	102483400	T	T	102483400	3	4	93	1	0	0	0	0	1	0	0	0	6774	1203	42	3	2324	3	GRIK2	6	102483400	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	4804055	102483400	68631667	132	35063										
CDC40	51362	broad.mit.edu	37	chr6	110551303	110551303	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttctaaggtcataacatgtgGttgggatggtctcattaaat	10	5	3	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:110551303G>T	uc003pua.2	+	15	1733	c.1709G>T	c.(1708-1710)GGT>GTT	p.G570V		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	570	WD 7.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		ATAACATGTGGTTGGGATGGT	0.338													36	51	---	---	---	---	PASS	T	110551303	T	T	110551303	3	4	93	1	0	0	0	0	1	0	0	0	3070	1261	44	3	1767	3	CDC40	6	110551303	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	8067903	110551303	60563764	133	35064										
LAMA4	3910	broad.mit.edu	37	chr6	112430732	112430732	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tccatcaatcacaaagtggcGtatgcagcctgtgaagggtt	11	9	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:112430732G>A	uc003pvu.2	-	39	5689	c.5380C>T	c.(5380-5382)CGC>TGC	p.R1794C	LAMA4_uc003pvv.2_Missense_Mutation_p.R1787C|LAMA4_uc003pvt.2_Missense_Mutation_p.R1787C	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1794	Laminin G-like 5.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding	p.R1787C(1)		ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		ACAAAGTGGCGTATGCAGCCT	0.502													36	68	---	---	---	---	PASS	A	112430732	A	A	112430732	3	1	93	1	0	0	0	0	1	0	0	0	8608	1145	40	1	95	1	LAMA4	6	112430732	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	1879429	112430732	58684335	134	35065										
ROS1	6098	broad.mit.edu	37	chr6	117709004	117709004	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cctggcctctttggagaactTgctctcacagaaaccttgta	8	12	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:117709004T>A	uc003pxp.1	-	13	2152	c.1953A>T	c.(1951-1953)GCA>GCT	p.A651A	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	651	Fibronectin type-III 3.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TTGGAGAACTTGCTCTCACAG	0.483			T	GOPC|ROS1	glioblastoma|NSCLC								90	140	---	---	---	---	PASS	A	117709004	A	A	117709004	2	1	93	1	0	0	0	0	0	0	0	1	13531	1799	63	5		5	ROS1	6	117709004	Silent	SNP	T	TCGA-39-5036-01A-01D-1441-08	5278272	117709004	53406063	135	35066										
RSPO3	84870	broad.mit.edu	37	chr6	127476525	127476525	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aagggtaacctgtgtcccccAacaaatgagacaagaaagtg	10	9	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:127476525A>T	uc003qar.2	+	4	866	c.576A>T	c.(574-576)CCA>CCT	p.P192P	RSPO3_uc003qas.1_Silent_p.P192P	NM_032784	NP_116173	Q9BXY4	RSPO3_HUMAN	R-spondin 3 precursor	192	TSP type-1.					extracellular region	heparin binding				0				GBM - Glioblastoma multiforme(226;0.0555)		TGTGTCCCCCAACAAATGAGA	0.428													15	47	---	---	---	---	PASS	T	127476525	T	T	127476525	2	4	93	1	0	0	0	0	0	0	0	1	13711	117	5	5		5	RSPO3	6	127476525	Silent	SNP	A	TCGA-39-5036-01A-01D-1441-08	9767521	127476525	43638542	136	35067										
TAAR6	319100	broad.mit.edu	37	chr6	132891742	132891742	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttcagcatggtcaggacggtGgagagctgctggtattttgg	16	6	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:132891742G>A	uc011eck.1	+	1	282	c.282G>A	c.(280-282)GTG>GTA	p.V94V		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	94	Extracellular (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		TCAGGACGGTGGAGAGCTGCT	0.502													37	108	---	---	---	---	PASS	A	132891742	A	A	132891742	2	1	93	1	0	0	0	0	0	0	0	1	15489	1335	47	3		3	TAAR6	6	132891742	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	5415217	132891742	38223325	137	35068										
AHI1	54806	broad.mit.edu	37	chr6	135611618	135611618	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttcctcatccgtgtatccatTatgtgtccttggtcctcatg	7	12	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:135611618T>C	uc003qgi.2	-	28	3915	c.3531A>G	c.(3529-3531)ATA>ATG	p.I1177M	AHI1_uc003qgf.2_RNA|AHI1_uc003qgg.2_Intron|AHI1_uc003qgh.2_Missense_Mutation_p.I1177M|AHI1_uc003qgj.2_Missense_Mutation_p.I1177M	NM_001134831	NP_001128303	Q8N157	AHI1_HUMAN	Abelson helper integration site 1 isoform a	1177						adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		GTGTATCCATTATGTGTCCTT	0.234													161	234	---	---	---	---	PASS	C	135611618	C	C	135611618	3	2	93	1	0	0	0	0	1	0	0	0	413	1744	61	5	67	5	AHI1	6	135611618	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	2719876	135611618	35503449	138	35069										
SYNE1	23345	broad.mit.edu	37	chr6	152629688	152629688	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tggcaacaggtttatcctcaAtctctctgtgagctccttct	7	12	4	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:152629688A>G	uc010kiw.2	-	91	17884	c.17282T>C	c.(17281-17283)ATT>ACT	p.I5761T	SYNE1_uc010kiv.2_Missense_Mutation_p.I285T|SYNE1_uc003qos.3_Missense_Mutation_p.I285T|SYNE1_uc003qot.3_Missense_Mutation_p.I5690T|SYNE1_uc003qou.3_Missense_Mutation_p.I5761T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5761	Cytoplasmic (Potential).|Spectrin 19.				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)		TTTATCCTCAATCTCTCTGTG	0.428										HNSCC(10;0.0054)			5	131	---	---	---	---	PASS	G	152629688	G	G	152629688	3	3	93	1	0	0	0	0	1	0	0	0	15442	101	4	5	9408	5	SYNE1	6	152629688	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	17018070	152629688	18485379	139	35070										
CNKSR3	154043	broad.mit.edu	37	chr6	154727502	154727502	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tccctctcagtgagtcaacaGtttgaggcgcgtaaaccagc	10	12	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:154727502G>T	uc003qpy.2	-	13	2159	c.1654C>A	c.(1654-1656)CTG>ATG	p.L552M		NM_173515	NP_775786	Q6P9H4	CNKR3_HUMAN	CNKSR family member 3	552					negative regulation of ERK1 and ERK2 cascade|negative regulation of peptidyl-serine phosphorylation|positive regulation of sodium ion transport	cytoplasm|membrane				ovary(2)|breast(1)|skin(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;5.03e-11)|BRCA - Breast invasive adenocarcinoma(81;0.00627)		TGAGTCAACAGTTTGAGGCGC	0.562													3	32	---	---	---	---	PASS	T	154727502	T	T	154727502	3	4	93	1	0	0	0	0	1	0	0	0	3608	1020	36	3	17	3	CNKSR3	6	154727502	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	2097814	154727502	16387565	140	35071										
SERAC1	84947	broad.mit.edu	37	chr6	158538849	158538849	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	caggacagtcttttgctaacCatgtctaagtaaaataaaac	6	8	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:158538849C>T	uc003qrc.2	-	13	1455	c.1313G>A	c.(1312-1314)TGG>TAG	p.W438*	SERAC1_uc003qrb.2_Nonsense_Mutation_p.W166*	NM_032861	NP_116250	Q96JX3	SRAC1_HUMAN	serine active site containing 1	438					GPI anchor metabolic process|intracellular protein transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	binding|hydrolase activity, acting on ester bonds				0		Breast(66;0.00519)|Ovarian(120;0.123)|Prostate(117;0.178)		OV - Ovarian serous cystadenocarcinoma(65;1.37e-18)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)		TTTTGCTAACCATGTCTAAGT	0.413													6	79	---	---	---	---	PASS	T	158538849	T	T	158538849	4	4	93	1	0	0	0	0	0	1	0	0	14074	595	21	3	671	3	SERAC1	6	158538849	Nonsense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	3811347	158538849	12576218	141	35072										
T	6862	broad.mit.edu	37	chr6	166572067	166572067	+	Silent	SNP	G	T	T													0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttgctcacagaccacaggctGgggtactgactgcaacagaa							TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:166572067G>T	uc003quu.1	-	9	1537	c.1044C>A	c.(1042-1044)CCC>CCA	p.P348P	T_uc003qut.1_Silent_p.P349P|T_uc003quv.1_Silent_p.P290P	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	348					anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		ACCACAGGCTGGGGTACTGAC	0.652									Chordoma_Familial_Clustering_of				5	8	---	---	---	---	PASS	T	166572067	T	T	166572067	2	4	93	1	0	0	0	0	0	0	0	1	15485	1335	47	3		3	T	6	166572067	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	8033218	166572067	4543000	142	35073	667	2								
T	6862	broad.mit.edu	37	chr6	166572068	166572068	+	Missense_Mutation	SNP	G	A	A													0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgctcacagaccacaggctgGggtactgactgcaacagaaa							TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr6:166572068G>A	uc003quu.1	-	9	1536	c.1043C>T	c.(1042-1044)CCC>CTC	p.P348L	T_uc003qut.1_Missense_Mutation_p.P349L|T_uc003quv.1_Missense_Mutation_p.P290L	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	348					anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		CCACAGGCTGGGGTACTGACT	0.652									Chordoma_Familial_Clustering_of				4	9	---	---	---	---	PASS	A	166572068	A	A	166572068	3	1	93	1	0	0	0	0	1	0	0	0	15485	1232	43	3	268	3	T	6	166572068	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	1	166572068	4542999	143	35074	667	2								
INTS1	26173	broad.mit.edu	37	chr7	1526289	1526289	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccagcacgcgggaggccaccTgggaggagccgaggcgccgc	18	15	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:1526289T>A	uc003skn.2	-	22	3049	c.2948A>T	c.(2947-2949)CAG>CTG	p.Q983L	INTS1_uc003skp.1_Missense_Mutation_p.Q330L	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	983					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		GGAGGCCACCTGGGAGGAGCC	0.597													3	6	---	---	---	---	PASS	A	1526289	A	A	1526289	3	1	93	1	0	0	0	0	1	0	0	0	7775	1580	55	5	3732	5	INTS1	7	1526289	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08		1526289	157612374	144	35075										
TMEM184A	202915	broad.mit.edu	37	chr7	1587401	1587401	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtgaattctccttcttctctGcgtacacctggcaggggaag	11	11	3	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:1587401G>C	uc003skv.3	-	8	1306	c.989C>G	c.(988-990)GCA>GGA	p.A330G	TMEM184A_uc003skt.3_Missense_Mutation_p.A309G|TMEM184A_uc003skw.3_Missense_Mutation_p.A135G	NM_001097620	NP_001091089	Q6ZMB5	T184A_HUMAN	transmembrane protein 184A	330						integral to membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;5.88e-15)		CTTCTTCTCTGCGTACACCTG	0.642													3	23	---	---	---	---	PASS	C	1587401	C	C	1587401	3	2	93	1	0	0	0	0	1	0	0	0	16101	1319	46	4	260	4	TMEM184A	7	1587401	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	61112	1587401	157551262	145	35076										
GGCT	79017	broad.mit.edu	37	chr7	30538534	30538534	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cttctattacaacatacattCcacttttaaccccttcttgc	1	14	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:30538534C>G	uc003tba.2	-	3	435	c.308G>C	c.(307-309)GGA>GCA	p.G103A	GGCT_uc003tbb.2_Intron|GGCT_uc003tbc.2_RNA|GGCT_uc003taz.2_Missense_Mutation_p.G42A	NM_024051	NP_076956	O75223	GGCT_HUMAN	gamma-glutamyl cyclotransferase	103					release of cytochrome c from mitochondria	cytosol	acyltransferase activity|gamma-glutamylcyclotransferase activity|protein homodimerization activity				0						AACATACATTCCACTTTTAAC	0.378													58	64	---	---	---	---	PASS	G	30538534	G	G	30538534	3	3	93	1	0	0	0	0	1	0	0	0	6355	855	30	2	266	2	GGCT	7	30538534	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	28951133	30538534	128600129	146	35077										
AMPH	273	broad.mit.edu	37	chr7	38433815	38433815	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gcatcagctccaggtatgatCtgcagggcagaaaccagcag	12	11	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:38433815C>G	uc003tgu.2	-	18	1468	c.1399_splice	c.e18-1	p.I467_splice	AMPH_uc003tgv.2_Splice_Site_p.I425_splice|AMPH_uc003tgt.2_Splice_Site_p.I352_splice|AMPH_uc003tgw.1_Splice_Site_p.I490_splice|AMPH_uc010kxl.1_Splice_Site	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1						endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						CAGGTATGATCTGCAGGGCAG	0.577													37	40	---	---	---	---	PASS	G	38433815	G	G	38433815	5	3	93	1	0	0	0	0	0	0	1	0	588	927	32	2	705	2	AMPH	7	38433815	Splice_Site	SNP	C	TCGA-39-5036-01A-01D-1441-08	7895281	38433815	120704848	147	35078										
ADCY1	107	broad.mit.edu	37	chr7	45632493	45632493	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	accgactgaggctggaggatGagaacgagaagcaggtcagt	16	7	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:45632493G>A	uc003tne.3	+	2	793	c.775G>A	c.(775-777)GAG>AAG	p.E259K	ADCY1_uc003tnd.2_Missense_Mutation_p.E34K	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	259	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GCTGGAGGATGAGAACGAGAA	0.592													24	37	---	---	---	---	PASS	A	45632493	A	A	45632493	3	1	93	1	0	0	0	0	1	0	0	0	292	1291	45	2	781	2	ADCY1	7	45632493	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	7198678	45632493	113506170	148	35079										
ADCY1	107	broad.mit.edu	37	chr7	45725678	45725678	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gcgagtctacacaccatgccCtgctctgctgcctggtgggc	12	15	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:45725678C>G	uc003tne.3	+	13	2209	c.2191C>G	c.(2191-2193)CTG>GTG	p.L731V		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	731	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	ACACCATGCCCTGCTCTGCTG	0.627													7	39	---	---	---	---	PASS	G	45725678	G	G	45725678	3	3	93	1	0	0	0	0	1	0	0	0	292	680	24	4	2241	4	ADCY1	7	45725678	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	93185	45725678	113412985	149	35080										
POM121L12	285877	broad.mit.edu	37	chr7	53103760	53103760	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cgtgcctggaacccaggacgGacctggagcccggtgaccat	14	14	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:53103760G>C	uc003tpz.2	+	1	412	c.396G>C	c.(394-396)CGG>CGC	p.R132R		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	132											0						ACCCAGGACGGACCTGGAGCC	0.602													6	55	---	---	---	---	PASS	C	53103760	C	C	53103760	2	2	93	1	0	0	0	0	0	0	0	1	12241	1161	41	2		2	POM121L12	7	53103760	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	7378082	53103760	106034903	150	35081										
ELN	2006	broad.mit.edu	37	chr7	73474266	73474266	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gagttggcgtggctcctggtGtcggtgtggctcctggagtt	18	8	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:73474266G>A	uc003tzw.2	+	23	1574	c.1483G>A	c.(1483-1485)GTC>ATC	p.V495I	RFC2_uc011kfa.1_Intron|ELN_uc003tzn.2_Missense_Mutation_p.V489I|ELN_uc003tzz.2_Missense_Mutation_p.V408I|ELN_uc003tzo.2_Missense_Mutation_p.V456I|ELN_uc003tzp.2_Missense_Mutation_p.V400I|ELN_uc003tzq.2_Missense_Mutation_p.V353I|ELN_uc003tzr.2_Intron|ELN_uc003tzs.2_Missense_Mutation_p.V470I|ELN_uc003tzt.2_Missense_Mutation_p.V494I|ELN_uc003tzu.2_Missense_Mutation_p.V475I|ELN_uc003tzv.2_Missense_Mutation_p.V460I|ELN_uc003tzx.2_Missense_Mutation_p.V479I|ELN_uc011kff.1_Missense_Mutation_p.V489I|ELN_uc003tzy.2_Missense_Mutation_p.V465I	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	518	Ala-rich.				blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	GGCTCCTGGTGTCGGTGTGGC	0.572			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						25	245	---	---	---	---	PASS	A	73474266	A	A	73474266	3	1	93	1	0	0	0	0	1	0	0	0	5071	1377	48	3	1570	3	ELN	7	73474266	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	20370506	73474266	85664397	151	35082										
SEMA3A	10371	broad.mit.edu	37	chr7	83610772	83610772	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggagctgggcaaccccagccGttgaaccaatatatagttgt	11	10	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:83610772G>T	uc003uhz.2	-	14	1832	c.1517C>A	c.(1516-1518)ACG>AAG	p.T506K		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	506	Sema.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						AACCCCAGCCGTTGAACCAAT	0.438													6	32	---	---	---	---	PASS	T	83610772	T	T	83610772	3	4	93	1	0	0	0	0	1	0	0	0	14024	1145	40	1	814	1	SEMA3A	7	83610772	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	10136506	83610772	75527891	152	35083										
CROT	54677	broad.mit.edu	37	chr7	86991136	86991136	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctgcaaggttccaggaattaCtagagactccattatgaatt	8	8	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:86991136C>T	uc003uit.2	+	6	760	c.515C>T	c.(514-516)ACT>ATT	p.T172I	CROT_uc003uiu.2_Missense_Mutation_p.T200I	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	172					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	CCAGGAATTACTAGAGACTCC	0.348													15	189	---	---	---	---	PASS	T	86991136	T	T	86991136	3	4	93	1	0	0	0	0	1	0	0	0	3894	565	20	3	617	3	CROT	7	86991136	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	3380364	86991136	72147527	153	35084										
DLX5	1749	broad.mit.edu	37	chr7	96650095	96650095	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cagcgggtgctgtaaggagcCcggcggcggcaggtgggaat	20	9	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:96650095C>A	uc003uon.2	-	3	1031	c.823G>T	c.(823-825)GGC>TGC	p.G275C		NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	275					cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					TGTAAGGAGCCCGGCGGCGGC	0.572													18	55	---	---	---	---	PASS	A	96650095	A	A	96650095	3	1	93	1	0	0	0	0	1	0	0	0	4574	623	22	3	50	3	DLX5	7	96650095	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	9658959	96650095	62488568	154	35085										
MUC17	140453	broad.mit.edu	37	chr7	100693916	100693916	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgattaatgatatttgctcaGgtgaactctgggcttccagg	11	7	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:100693916G>T	uc003uxp.1	+	7	12927	c.12874G>T	c.(12874-12876)GAC>TAC	p.D4292Y	MUC17_uc010lho.1_Intron	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	4292	Extracellular (Potential).|SEA.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TATTTGCTCAGGTGAACTCTG	0.458													9	31	---	---	---	---	PASS	T	100693916	T	T	100693916	3	4	93	1	0	0	0	0	1	0	0	0	9974	1014	35	3	12900	3	MUC17	7	100693916	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	4043821	100693916	58444747	155	35086										
TMEM168	64418	broad.mit.edu	37	chr7	112413056	112413056	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttgagcatgccagtagacctCaaatttaactcctgtacatg	7	10	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:112413056C>G	uc003vgn.2	-	4	1718	c.1326G>C	c.(1324-1326)TTG>TTC	p.L442F	TMEM168_uc010lju.2_Missense_Mutation_p.L442F|TMEM168_uc011kmr.1_Missense_Mutation_p.L58F	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	442						integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						CAGTAGACCTCAAATTTAACT	0.393													4	84	---	---	---	---	PASS	G	112413056	G	G	112413056	3	3	93	1	0	0	0	0	1	0	0	0	16080	825	29	2	775	2	TMEM168	7	112413056	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	11719140	112413056	46725607	156	35087										
FOXP2	93986	broad.mit.edu	37	chr7	114299649	114299649	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tatcatggagtcatctgacaGgcagttaacacttaatgaaa	8	7	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:114299649G>A	uc003vhb.2	+	13	1942	c.1568G>A	c.(1567-1569)AGG>AAG	p.R523K	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Missense_Mutation_p.R548K|FOXP2_uc003vha.2_Missense_Mutation_p.R431K|FOXP2_uc011kmu.1_Missense_Mutation_p.R540K|FOXP2_uc011kmv.1_Missense_Mutation_p.R522K|FOXP2_uc010ljz.1_Missense_Mutation_p.R338K|FOXP2_uc003vhe.1_Missense_Mutation_p.R93K	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	523	Fork-head.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	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(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						TCATCTGACAGGCAGTTAACA	0.388													30	102	---	---	---	---	PASS	A	114299649	A	A	114299649	3	1	93	1	0	0	0	0	1	0	0	0	6027	1000	35	3	1781	3	FOXP2	7	114299649	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	1886593	114299649	44839014	157	35088										
OPN1SW	611	broad.mit.edu	37	chr7	128415785	128415785	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tggtactgaggcccatcccaCggccccactgaagagatatt	10	13	0	3	rs150585695	byFrequency	TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:128415785C>T	uc003vnt.3	-	1	60	c.60G>A	c.(58-60)CCG>CCA	p.P20P		NM_001708	NP_001699	P03999	OPSB_HUMAN	opsin 1 (cone pigments), short-wave-sensitive	20	Extracellular (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0						GCCCATCCCACGGCCCCACTG	0.517													6	129	---	---	---	---	PASS	T	128415785	T	T	128415785	2	4	93	1	0	0	0	0	0	0	0	1	10880	523	19	1		1	OPN1SW	7	128415785	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	14116136	128415785	30722878	158	35089										
MGAM	8972	broad.mit.edu	37	chr7	141758051	141758051	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	actggtctttggggttccagCtgtgtcgctatggctaccag	13	10	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:141758051C>T	uc003vwy.2	+	31	3796	c.3742C>T	c.(3742-3744)CTG>TTG	p.L1248L		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1248	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GGGGTTCCAGCTGTGTCGCTA	0.478													19	372	---	---	---	---	PASS	T	141758051	T	T	141758051	2	4	93	1	0	0	0	0	0	0	0	1	9541	796	28	3		3	MGAM	7	141758051	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	13342266	141758051	17380612	159	35090										
FAM115A	9747	broad.mit.edu	37	chr7	143573132	143573132	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttggagactttaaagaaactCgtgtcccctttgttgtcagt	9	8	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:143573132C>T	uc003wdo.1	-	2	703	c.570G>A	c.(568-570)ACG>ACA	p.T190T	FAM115A_uc011ktu.1_Intron|FAM115A_uc003wdp.1_Silent_p.T190T	NM_014719	NP_055534	Q9Y4C2	F115A_HUMAN	hypothetical protein LOC9747	190											0	Melanoma(164;0.0903)					TAAAGAAACTCGTGTCCCCTT	0.517													9	48	---	---	---	---	PASS	T	143573132	T	T	143573132	2	4	93	1	0	0	0	0	0	0	0	1	5405	871	31	2		2	FAM115A	7	143573132	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	1815081	143573132	15565531	160	35091										
MLL3	58508	broad.mit.edu	37	chr7	151874635	151874635	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgaatggacagaatgaccttGctcttgttgagatggtggca	13	6	1	4			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:151874635G>A	uc003wla.2	-	38	8122	c.7903C>T	c.(7903-7905)CAA>TAA	p.Q2635*	MLL3_uc003wkz.2_Nonsense_Mutation_p.Q1696*|MLL3_uc003wky.2_Nonsense_Mutation_p.Q144*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2635					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GAATGACCTTGCTCTTGTTGA	0.498			N		medulloblastoma								62	108	---	---	---	---	PASS	A	151874635	A	A	151874635	4	1	93	1	0	0	0	0	0	1	0	0	9622	1328	46	3	6920	3	MLL3	7	151874635	Nonsense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	8301503	151874635	7264028	161	35092										
DPP6	1804	broad.mit.edu	37	chr7	154672636	154672636	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtacattgacaggacgcgcgTggccgtgtttgggaaggtga	17	7	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr7:154672636T>A	uc003wlk.2	+	21	2246	c.2117T>A	c.(2116-2118)GTG>GAG	p.V706E	DPP6_uc003wli.2_Missense_Mutation_p.V642E|DPP6_uc003wlm.2_Missense_Mutation_p.V644E|DPP6_uc011kvq.1_Missense_Mutation_p.V599E	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	706	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			AGGACGCGCGTGGCCGTGTTT	0.552													10	79	---	---	---	---	PASS	A	154672636	A	A	154672636	3	1	93	1	0	0	0	0	1	0	0	0	4730	1696	59	5	2315	5	DPP6	7	154672636	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	2798001	154672636	4466027	162	35093										
RP1L1	94137	broad.mit.edu	37	chr8	10464570	10464570	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcttgctcagaagtagaactTtctgggtacatcctggtggc	11	9	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:10464570T>A	uc003wtc.2	-	4	7267	c.7038A>T	c.(7036-7038)GAA>GAT	p.E2346D		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	2346					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		AAGTAGAACTTTCTGGGTACA	0.547													36	127	---	---	---	---	PASS	A	10464570	A	A	10464570	3	1	93	1	0	0	0	0	1	0	0	0	13533	1838	64	5	168	5	RP1L1	8	10464570	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08		10464570	135899452	163	35094										
EXTL3	2137	broad.mit.edu	37	chr8	28608235	28608235	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggccctgtctcatgatgactCccacttccacgagcggcaca	9	16	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:28608235C>T	uc003xgz.1	+	7	3205	c.2612C>T	c.(2611-2613)TCC>TTC	p.S871F		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	871	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		CATGATGACTCCCACTTCCAC	0.567													39	106	---	---	---	---	PASS	T	28608235	T	T	28608235	3	4	93	1	0	0	0	0	1	0	0	0	5327	855	30	2	2630	2	EXTL3	8	28608235	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	18143665	28608235	117755787	164	35095										
DUSP4	1846	broad.mit.edu	37	chr8	29207707	29207707	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gggtgccgtggctgccgctgCcgcccgcgccgccgccattc	15	19	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:29207707C>T	uc003xhm.2	-	1	479	c.89G>A	c.(88-90)GGC>GAC	p.G30D	DUSP4_uc003xhl.2_5'Flank	NM_001394	NP_001385	Q13115	DUS4_HUMAN	dual specificity phosphatase 4 isoform 1	30					endoderm formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|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	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/threonine phosphatase activity			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.094)|Kidney(114;0.113)		GCTGCCGCTGCCGCCCGCGCC	0.682													5	4	---	---	---	---	PASS	T	29207707	T	T	29207707	3	4	93	1	0	0	0	0	1	0	0	0	4827	739	26	3	1275	3	DUSP4	8	29207707	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	599472	29207707	117156315	165	35096										
TEX15	56154	broad.mit.edu	37	chr8	30701206	30701206	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aatacatagtatgaattcttTtccctttttgtttcttcaag	4	7	3	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:30701206T>G	uc003xil.2	-	1	5328	c.5328A>C	c.(5326-5328)GAA>GAC	p.E1776D		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1776										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		ATGAATTCTTTTCCCTTTTTG	0.328													24	26	---	---	---	---	PASS	G	30701206	G	G	30701206	3	3	93	1	0	0	0	0	1	0	0	0	15776	1838	64	5	3057	5	TEX15	8	30701206	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	1493499	30701206	115662816	166	35097										
GPR124	25960	broad.mit.edu	37	chr8	37699191	37699192	+	Frame_Shift_Ins	INS	-	G	G													0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggttccccggtgttcggggaINSgggccccccctccctcaagt							TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:37699191_37699192insG	uc003xkj.2	+	19	3698_3699	c.3335_3336insG	c.(3334-3336)GAGfs	p.E1112fs	GPR124_uc010lvy.2_Frame_Shift_Ins_p.E895fs	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	1112	Cytoplasmic (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			GTGTTCGGGGAGGGCCCCCCCT	0.559													4	2	---	---	---	---		G	37699192	G	G	37699191	7	5	93	1	0	1	1	0	0	0	0	0	6638	304	11	0	3388	0	GPR124	8	37699191	Frame_Shift_Ins	INS	-	TCGA-39-5036-01A-01D-1441-08	6997985	37699191	108664831	167	35098										
GPR124	25960	broad.mit.edu	37	chr8	37699818	37699818	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	caccctgatgggcgcggaggTagccagcggcggctgcatga	17	12	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:37699818T>A	uc003xkj.2	+	19	4325	c.3962T>A	c.(3961-3963)GTA>GAA	p.V1321E	GPR124_uc010lvy.2_Missense_Mutation_p.V1104E	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	1321	Cytoplasmic (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			GGCGCGGAGGTAGCCAGCGGC	0.677													2	3	---	---	---	---	PASS	A	37699818	A	A	37699818	3	1	93	1	0	0	0	0	1	0	0	0	6638	1638	57	5	4015	5	GPR124	8	37699818	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	627	37699818	108664204	168	35099										
CHRNB3	1142	broad.mit.edu	37	chr8	42587227	42587227	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cttgtgttctatttaccttcGgatgaaggagaaaaactttc	8	7	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:42587227G>A	uc003xpi.1	+	5	905	c.777G>A	c.(775-777)TCG>TCA	p.S259S		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	259					synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			ATTTACCTTCGGATGAAGGAG	0.433													4	111	---	---	---	---	PASS	A	42587227	A	A	42587227	2	1	93	1	0	0	0	0	0	0	0	1	3392	1103	39	1		1	CHRNB3	8	42587227	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	4887409	42587227	103776795	169	35100										
POTEA	340441	broad.mit.edu	37	chr8	43157238	43157238	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgctgaagattatgcagtttCtagtcatcatagtatgtaag	9	5	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:43157238C>G	uc003xpz.1	+	5	861	c.818C>G	c.(817-819)TCT>TGT	p.S273C	POTEA_uc003xqa.1_Intron	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	273										ovary(1)	1						TATGCAGTTTCTAGTCATCAT	0.299													7	115	---	---	---	---	PASS	G	43157238	G	G	43157238	3	3	93	1	0	0	0	0	1	0	0	0	12261	913	32	2	836	2	POTEA	8	43157238	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	570011	43157238	103206784	170	35101										
RB1CC1	9821	broad.mit.edu	37	chr8	53569508	53569508	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aacatggagcttttttaagtCttctaacactatttctcgtg	6	8	3	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:53569508C>T	uc003xre.3	-	15	3439	c.2881G>A	c.(2881-2883)GAC>AAC	p.D961N	RB1CC1_uc003xrf.3_Missense_Mutation_p.D961N	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	961	Potential.				autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				TTTTTTAAGTCTTCTAACACT	0.353													4	133	---	---	---	---	PASS	T	53569508	T	T	53569508	3	4	93	1	0	0	0	0	1	0	0	0	13099	913	32	2	1943	2	RB1CC1	8	53569508	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	10412270	53569508	92794514	171	35102										
PLAG1	5324	broad.mit.edu	37	chr8	57078946	57078946	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtttgtggggggagctgggaAacagaagaatgtgcttcttc	16	5	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:57078946A>T	uc003xsq.3	-	3	1810	c.1359T>A	c.(1357-1359)GTT>GTA	p.V453V	PLAG1_uc003xsr.3_Silent_p.V453V|PLAG1_uc010lyi.2_Silent_p.V453V|PLAG1_uc010lyj.2_Silent_p.V371V	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	453	Activates transcription; Inhibition of nuclear import due to lack of NLS and KPNA2 interaction.|Massively activates transcription.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			GGAGCTGGGAAACAGAAGAAT	0.463			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								16	131	---	---	---	---	PASS	T	57078946	T	T	57078946	2	4	93	1	0	0	0	0	0	0	0	1	12018	1	1	5		5	PLAG1	8	57078946	Silent	SNP	A	TCGA-39-5036-01A-01D-1441-08	3509438	57078946	89285076	172	35103										
SULF1	23213	broad.mit.edu	37	chr8	70541814	70541814	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aggaggaagaaggagaggaaGgagaagagacggcagaggaa	20	2	0	5	rs140600931		TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:70541814G>T	uc010lza.1	+	19	2901	c.2184G>T	c.(2182-2184)AAG>AAT	p.K728N	SULF1_uc003xyd.2_Missense_Mutation_p.K728N|SULF1_uc003xye.2_Missense_Mutation_p.K728N|SULF1_uc003xyf.2_Missense_Mutation_p.K728N|SULF1_uc003xyg.2_Missense_Mutation_p.K728N|SULF1_uc003xyh.1_RNA|SULF1_uc003xyi.1_Translation_Start_Site	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	728				K -> R (in Ref. 4; BAC11258).	apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			AGGAGAGGAAGGAGAAGAGAC	0.527													29	79	---	---	---	---	PASS	T	70541814	T	T	70541814	3	4	93	1	0	0	0	0	1	0	0	0	15369	991	35	3	2242	3	SULF1	8	70541814	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	13462868	70541814	75822208	173	35104										
TRPA1	8989	broad.mit.edu	37	chr8	72951117	72951117	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	taccgtggtatctagtatttCtgaatgatcactagtttcat	7	7	4	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:72951117C>T	uc003xza.2	-	19	2453	c.2278G>A	c.(2278-2280)GAA>AAA	p.E760K	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	760	Extracellular (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	TCTAGTATTTCTGAATGATCA	0.303													18	62	---	---	---	---	PASS	T	72951117	T	T	72951117	3	4	93	1	0	0	0	0	1	0	0	0	16574	922	32	2	1117	2	TRPA1	8	72951117	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	2409303	72951117	73412905	174	35105										
MMP16	4325	broad.mit.edu	37	chr8	89209517	89209517	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtcagtcggtggaaggtagcCgtacttttgtaaccaaacct	11	9	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:89209517C>A	uc003yeb.3	-	2	433	c.151G>T	c.(151-153)GGC>TGC	p.G51C	MMP16_uc003yec.2_Missense_Mutation_p.G51C	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	51					collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						GGAAGGTAGCCGTACTTTTGT	0.393													16	43	---	---	---	---	PASS	A	89209517	A	A	89209517	3	1	93	1	0	0	0	0	1	0	0	0	9655	652	23	1	1864	1	MMP16	8	89209517	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	16258400	89209517	57154505	175	35106										
MTERFD1	51001	broad.mit.edu	37	chr8	97269295	97269295	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aataatctgaatagcctcttCctctgaaattggctgcattg	7	9	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:97269295C>A	uc003yhs.1	-	3	460	c.382G>T	c.(382-384)GAA>TAA	p.E128*	MTERFD1_uc003yhr.1_Nonsense_Mutation_p.E7*|MTERFD1_uc010mbd.1_Nonsense_Mutation_p.E128*	NM_015942	NP_057026	Q96E29	MTER1_HUMAN	MTERF domain containing 1 precursor	128					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion	transcription regulatory region DNA binding			ovary(1)	1	Breast(36;5.16e-05)					ATAGCCTCTTCCTCTGAAATT	0.408													31	46	---	---	---	---	PASS	A	97269295	A	A	97269295	4	1	93	1	0	0	0	0	0	1	0	0	9919	864	30	2	895	2	MTERFD1	8	97269295	Nonsense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	8059778	97269295	49094727	176	35107										
LAPTM4B	55353	broad.mit.edu	37	chr8	98787974	98787974	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tggagcccgcgatgacgtcaCggactcgggtcacatggcca	14	13	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:98787974C>T	uc003yia.2	+	1	166	c.10C>T	c.(10-12)CGG>TGG	p.R4W	LAPTM4B_uc010mbg.2_Missense_Mutation_p.R4W	NM_018407	NP_060877	Q86VI4	LAP4B_HUMAN	lysosomal associated transmembrane protein 4	57					transport	endomembrane system|integral to membrane	protein binding			skin(1)	1	Breast(36;1.59e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.149)			GATGACGTCACGGACTCGGGT	0.697													6	25	---	---	---	---	PASS	T	98787974	T	T	98787974	3	4	93	1	0	0	0	0	1	0	0	0	8625	527	19	1	12	1	LAPTM4B	8	98787974	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	1518679	98787974	47576048	177	35108										
SYBU	55638	broad.mit.edu	37	chr8	110592214	110592214	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtgacgaagctccattactcCgcccatgaggacctcgactg	10	14	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:110592214C>T	uc003ynj.3	-	5	711	c.548G>A	c.(547-549)CGG>CAG	p.R183Q	SYBU_uc003yni.3_Missense_Mutation_p.R180Q|SYBU_uc003ynk.3_Missense_Mutation_p.R64Q|SYBU_uc010mco.2_Missense_Mutation_p.R182Q|SYBU_uc003ynl.3_Missense_Mutation_p.R182Q|SYBU_uc010mcp.2_Missense_Mutation_p.R183Q|SYBU_uc010mcq.2_Missense_Mutation_p.R183Q|SYBU_uc003yno.3_Missense_Mutation_p.R64Q|SYBU_uc010mcr.2_Missense_Mutation_p.R183Q|SYBU_uc003ynm.3_Missense_Mutation_p.R182Q|SYBU_uc003ynn.3_Missense_Mutation_p.R182Q|SYBU_uc010mcs.2_Missense_Mutation_p.R64Q|SYBU_uc010mct.2_Missense_Mutation_p.R183Q|SYBU_uc010mcu.2_Missense_Mutation_p.R182Q|SYBU_uc003ynp.3_Missense_Mutation_p.R115Q|SYBU_uc010mcv.2_Missense_Mutation_p.R183Q|SYBU_uc003ynh.3_5'UTR|SYBU_uc011lhw.1_Missense_Mutation_p.R53Q	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	183	Sufficient for interaction with KIF5B.|Ser-rich.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						TCCATTACTCCGCCCATGAGG	0.507													11	294	---	---	---	---	PASS	T	110592214	T	T	110592214	3	4	93	1	0	0	0	0	1	0	0	0	15424	652	23	1	1455	1	SYBU	8	110592214	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	11804240	110592214	35771808	178	35109										
CSMD3	114788	broad.mit.edu	37	chr8	113395805	113395805	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctcttatttacctgaatagcTtccaagtcttggagcattgt	7	9	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:113395805T>A	uc003ynu.2	-	37	6181	c.6022A>T	c.(6022-6024)AGC>TGC	p.S2008C	CSMD3_uc003yns.2_Missense_Mutation_p.S1210C|CSMD3_uc003ynt.2_Missense_Mutation_p.S1968C|CSMD3_uc011lhx.1_Missense_Mutation_p.S1904C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2008	Extracellular (Potential).|CUB 11.					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						CCTGAATAGCTTCCAAGTCTT	0.333										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			29	52	---	---	---	---	PASS	A	113395805	A	A	113395805	3	1	93	1	0	0	0	0	1	0	0	0	3946	1609	56	5	5241	5	CSMD3	8	113395805	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	2803591	113395805	32968217	179	35110										
NOV	4856	broad.mit.edu	37	chr8	120429198	120429198	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggaccccagcaaccagactgGcatctgcacgggtaatcctg	11	14	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:120429198G>C	uc003yoq.2	+	2	520	c.299G>C	c.(298-300)GGC>GCC	p.G100A		NM_002514	NP_002505	P48745	NOV_HUMAN	nephroblastoma overexpressed precursor	100	IGFBP N-terminal.				regulation of cell growth		growth factor activity|insulin-like growth factor binding			ovary(2)|skin(2)|kidney(1)	5	all_cancers(13;3.84e-26)|Lung NSC(37;1.19e-08)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000507)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AACCAGACTGGCATCTGCACG	0.587											OREG0018940	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	29	---	---	---	---	PASS	C	120429198	C	C	120429198	3	2	93	1	0	0	0	0	1	0	0	0	10553	1203	42	4	305	4	NOV	8	120429198	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	7033393	120429198	25934824	180	35111										
TAF2	6873	broad.mit.edu	37	chr8	120756528	120756528	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttgcagaatactaatcttacCtggagttgacggcctttcaa	8	9	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:120756528C>A	uc003you.2	-	24	3484	c.3214G>T	c.(3214-3216)GGG>TGG	p.G1072W		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	1072					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CTAATCTTACCTGGAGTTGAC	0.378													26	117	---	---	---	---	PASS	A	120756528	A	A	120756528	3	1	93	1	0	0	0	0	1	0	0	0	15521	695	24	3	397	3	TAF2	8	120756528	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	327330	120756528	25607494	181	35112										
TAF2	6873	broad.mit.edu	37	chr8	120801883	120801883	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgccagagacatttgaaatgGatttcaaaaacccagatgtg	9	7	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:120801883G>A	uc003you.2	-	12	1787	c.1517C>T	c.(1516-1518)TCC>TTC	p.S506F		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	506					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			ATTTGAAATGGATTTCAAAAA	0.403													6	125	---	---	---	---	PASS	A	120801883	A	A	120801883	3	1	93	1	0	0	0	0	1	0	0	0	15521	1174	41	2	2142	2	TAF2	8	120801883	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	45355	120801883	25562139	182	35113										
ASAP1	50807	broad.mit.edu	37	chr8	131136311	131136311	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gctgggtaaatttgcttccaTaatatcattaaaactattgt	6	6	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr8:131136311T>C	uc003yta.1	-	17	1583	c.1555A>G	c.(1555-1557)ATG>GTG	p.M519V	ASAP1_uc003ysz.1_Missense_Mutation_p.M330V|ASAP1_uc011liw.1_Missense_Mutation_p.M512V	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	519	Arf-GAP.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TTTGCTTCCATAATATCATTA	0.328													37	69	---	---	---	---	PASS	C	131136311	C	C	131136311	3	2	93	1	0	0	0	0	1	0	0	0	1010	1406	49	5	1886	5	ASAP1	8	131136311	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	10334428	131136311	15227711	183	35114										
TRPM3	80036	broad.mit.edu	37	chr9	73233933	73233933	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctccagttcttcagctcataCgtcagcagtttcatggccag	8	13	5	0	rs139079542	byFrequency	TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr9:73233933C>G	uc004aid.2	-	16	2416	c.2172G>C	c.(2170-2172)ACG>ACC	p.T724T	TRPM3_uc004ahu.2_Silent_p.T554T|TRPM3_uc004ahv.2_Silent_p.T526T|TRPM3_uc004ahw.2_Silent_p.T596T|TRPM3_uc004ahx.2_Silent_p.T583T|TRPM3_uc004ahy.2_Silent_p.T586T|TRPM3_uc004ahz.2_Silent_p.T573T|TRPM3_uc004aia.2_Silent_p.T571T|TRPM3_uc004aib.2_Silent_p.T561T|TRPM3_uc004aic.2_Silent_p.T724T	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	749	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						TCAGCTCATACGTCAGCAGTT	0.577													3	82	---	---	---	---	PASS	G	73233933	G	G	73233933	2	3	93	1	0	0	0	0	0	0	0	1	16584	523	19	4		4	TRPM3	9	73233933	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08		73233933	67979498	184	35115										
RNF20	56254	broad.mit.edu	37	chr9	104317101	104317101	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gagcagatagaatacctacaGaagaagctagccatggccaa	10	9	0	4			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr9:104317101G>A	uc004bbn.2	+	15	2235	c.2145G>A	c.(2143-2145)CAG>CAA	p.Q715Q		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	715	Potential.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		AATACCTACAGAAGAAGCTAG	0.403													16	40	---	---	---	---	PASS	A	104317101	A	A	104317101	2	1	93	1	0	0	0	0	0	0	0	1	13473	933	33	2		2	RNF20	9	104317101	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	31083168	104317101	36896330	185	35116										
GAPVD1	26130	broad.mit.edu	37	chr9	128064643	128064643	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aaacttttttctgaaggactGttttctgccaaacttttcct	5	9	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr9:128064643G>T	uc010mwx.2	+	5	893	c.567G>T	c.(565-567)CTG>CTT	p.L189L	GAPVD1_uc004bpo.2_Silent_p.L189L|GAPVD1_uc011lzs.1_Silent_p.L189L|GAPVD1_uc004bpp.2_Silent_p.L189L|GAPVD1_uc004bpq.2_Silent_p.L189L|GAPVD1_uc004bpr.2_Silent_p.L189L|GAPVD1_uc004bps.2_Silent_p.L189L|GAPVD1_uc010mwy.1_Silent_p.L48L	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	189	Ras-GAP.				endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						CTGAAGGACTGTTTTCTGCCA	0.388													3	85	---	---	---	---	PASS	T	128064643	T	T	128064643	2	4	93	1	0	0	0	0	0	0	0	1	6239	1364	48	3		3	GAPVD1	9	128064643	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	23747542	128064643	13148788	186	35117										
CUBN	8029	broad.mit.edu	37	chr10	16870833	16870833	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtatggtccagaggatggagAgctggcgttgggcccatcat	16	8	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:16870833A>T	uc001ioo.2	-	66	10787	c.10735T>A	c.(10735-10737)TCT>ACT	p.S3579T		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3579	CUB 27.				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)	GAGGATGGAGAGCTGGCGTTG	0.433											OREG0020047	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	91	---	---	---	---	PASS	T	16870833	T	T	16870833	3	4	93	1	0	0	0	0	1	0	0	0	4051	304	11	5	144	5	CUBN	10	16870833	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08		16870833	118663914	187	35118										
VIM	7431	broad.mit.edu	37	chr10	17271981	17271981	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggacatcatgcgcctccgggAgaagtaaggctgcgcccatg	14	12	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:17271981A>G	uc001iou.2	+	2	973	c.560A>G	c.(559-561)GAG>GGG	p.E187G	uc001iot.1_RNA|VIM_uc001iov.1_Missense_Mutation_p.E187G|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.E187G|VIM_uc001ioy.1_Missense_Mutation_p.E187G|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.E187G|VIM_uc001ipc.1_Missense_Mutation_p.E187G	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	187	Rod.|Coil 1B.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton	p.E187*(1)		large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						CGCCTCCGGGAGAAGTAAGGC	0.701													7	14	---	---	---	---	PASS	G	17271981	G	G	17271981	3	3	93	1	0	0	0	0	1	0	0	0	17163	304	11	5	562	5	VIM	10	17271981	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	401148	17271981	118262766	188	35119										
SLC39A12	221074	broad.mit.edu	37	chr10	18254536	18254536	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cctccagggtgtttgtctggGacaaggaaacttgccttccc	11	12	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:18254536G>T	uc001ipo.2	+	4	941	c.668G>T	c.(667-669)GGA>GTA	p.G223V	SLC39A12_uc001ipn.2_Missense_Mutation_p.G223V|SLC39A12_uc001ipp.2_Missense_Mutation_p.G223V|SLC39A12_uc010qck.1_Missense_Mutation_p.G89V	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	223	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						GTTTGTCTGGGACAAGGAAAC	0.438													17	59	---	---	---	---	PASS	T	18254536	T	T	18254536	3	4	93	1	0	0	0	0	1	0	0	0	14615	1174	41	2	678	2	SLC39A12	10	18254536	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	982555	18254536	117280211	189	35120										
NEBL	10529	broad.mit.edu	37	chr10	21185952	21185952	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtcttcaataacaggcttatAgaagacctatttgaaaaaaa	6	6	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:21185952A>T	uc001iqi.2	-	2	485	c.88T>A	c.(88-90)TAT>AAT	p.Y30N	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	30	Nebulin 1.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						ACAGGCTTATAGAAGACCTAT	0.353													5	141	---	---	---	---	PASS	T	21185952	T	T	21185952	3	4	93	1	0	0	0	0	1	0	0	0	10303	420	15	5	3064	5	NEBL	10	21185952	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	2931416	21185952	114348795	190	35121										
MYO3A	53904	broad.mit.edu	37	chr10	26432395	26432395	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agaatgaatacctaaatgaaGatgtggatgctagagttatt	10	3	0	5			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:26432395G>C	uc001isn.2	+	21	2641	c.2281G>C	c.(2281-2283)GAT>CAT	p.D761H	MYO3A_uc009xko.1_Missense_Mutation_p.D761H|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	761	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						CCTAAATGAAGATGTGGATGC	0.308													12	20	---	---	---	---	PASS	C	26432395	C	C	26432395	3	2	93	1	0	0	0	0	1	0	0	0	10076	942	33	2	2355	2	MYO3A	10	26432395	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	5246443	26432395	109102352	191	35122										
ANKRD30A	91074	broad.mit.edu	37	chr10	37422867	37422867	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agccctcatgcttgctgtatGtcatggatcatcagagatag	10	9	4	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:37422867G>A	uc001iza.1	+	5	572	c.473G>A	c.(472-474)TGT>TAT	p.C158Y		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	214	ANK 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						CTTGCTGTATGTCATGGATCA	0.373													28	209	---	---	---	---	PASS	A	37422867	A	A	37422867	3	1	93	1	0	0	0	0	1	0	0	0	658	1377	48	3	491	3	ANKRD30A	10	37422867	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	10990472	37422867	98111880	192	35123										
ANKRD30A	91074	broad.mit.edu	37	chr10	37454039	37454039	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tagatgagatactcccatcaGaatccaaacaaaaggactat	6	9	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:37454039G>A	uc001iza.1	+	18	1951	c.1852G>A	c.(1852-1854)GAA>AAA	p.E618K		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	674						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						ACTCCCATCAGAATCCAAACA	0.284													22	66	---	---	---	---	PASS	A	37454039	A	A	37454039	3	1	93	1	0	0	0	0	1	0	0	0	658	943	33	2	1922	2	ANKRD30A	10	37454039	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	31172	37454039	98080708	193	35124										
CHAT	1103	broad.mit.edu	37	chr10	50835781	50835781	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gcctccaattggcctgctgaCgtctgacgggaggagcgagt	15	11	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:50835781C>A	uc001jhz.2	+	7	1214	c.1061C>A	c.(1060-1062)ACG>AAG	p.T354K	CHAT_uc001jhv.1_Missense_Mutation_p.T236K|CHAT_uc001jhx.1_Missense_Mutation_p.T236K|CHAT_uc001jhy.1_Missense_Mutation_p.T236K|CHAT_uc001jia.2_Missense_Mutation_p.T236K|CHAT_uc010qgs.1_Missense_Mutation_p.T236K	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	354					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	GGCCTGCTGACGTCTGACGGG	0.592													30	40	---	---	---	---	PASS	A	50835781	A	A	50835781	3	1	93	1	0	0	0	0	1	0	0	0	3313	536	19	1	1131	1	CHAT	10	50835781	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	13381742	50835781	84698966	194	35125										
KIAA1274	27143	broad.mit.edu	37	chr10	72289727	72289727	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctgtggggcccccaacttccGgcaggtgcagggtgggctca	16	13	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:72289727G>T	uc001jrd.3	+	4	652	c.371G>T	c.(370-372)CGG>CTG	p.R124L		NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	124										ovary(2)|central_nervous_system(1)	3						CCCAACTTCCGGCAGGTGCAG	0.637													3	56	---	---	---	---	PASS	T	72289727	T	T	72289727	3	4	93	1	0	0	0	0	1	0	0	0	8220	1116	39	1	381	1	KIAA1274	10	72289727	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	21453946	72289727	63245020	195	35126										
CDH23	64072	broad.mit.edu	37	chr10	73406254	73406254	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtgcctgaccatgtgggctaTgccaaggtgaagatcactct	12	10	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:73406254T>C	uc001jrx.3	+	13	1706	c.1329T>C	c.(1327-1329)TAT>TAC	p.Y443Y	CDH23_uc001jrw.3_Silent_p.Y443Y|CDH23_uc001jry.2_Silent_p.Y59Y|CDH23_uc001jrz.2_Silent_p.Y59Y	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	443	Cadherin 4.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						ATGTGGGCTATGCCAAGGTGA	0.557													84	119	---	---	---	---	PASS	C	73406254	C	C	73406254	2	2	93	1	0	0	0	0	0	0	0	1	3108	1471	51	5		5	CDH23	10	73406254	Silent	SNP	T	TCGA-39-5036-01A-01D-1441-08	1116527	73406254	62128493	196	35127										
C10orf58	84293	broad.mit.edu	37	chr10	82187220	82187220	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aaggagaaggcttcatccttGggggagttttcgtggtggga	17	5	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:82187220G>A	uc001kcc.3	+	5	704	c.544G>A	c.(544-546)GGG>AGG	p.G182R	C10orf58_uc001kcd.3_Missense_Mutation_p.G171R|C10orf58_uc001kce.3_Missense_Mutation_p.G182R|C10orf58_uc001kcf.3_Missense_Mutation_p.G182R	NM_032333	NP_115709	Q9BRX8	CJ058_HUMAN	hypothetical protein LOC84293 precursor	182						extracellular region					0			Colorectal(32;0.229)			CTTCATCCTTGGGGGAGTTTT	0.502													34	42	---	---	---	---	PASS	A	82187220	A	A	82187220	3	1	93	1	0	0	0	0	1	0	0	0	1610	1348	47	3	558	3	C10orf58	10	82187220	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	8780966	82187220	53347527	197	35128										
MYOF	26509	broad.mit.edu	37	chr10	95093544	95093544	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gttgtcctggggctggagctCtaagcctcgaacaatgtaaa	12	9	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:95093544C>G	uc001kin.2	-	42	4813	c.4690G>C	c.(4690-4692)GAG>CAG	p.E1564Q	MYOF_uc001kio.2_Missense_Mutation_p.E1551Q|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1564	Cytoplasmic (Potential).|C2 5.				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						GGCTGGAGCTCTAAGCCTCGA	0.522													8	46	---	---	---	---	PASS	G	95093544	G	G	95093544	3	3	93	1	0	0	0	0	1	0	0	0	10089	922	32	2	1547	2	MYOF	10	95093544	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	12906324	95093544	40441203	198	35129										
PLCE1	51196	broad.mit.edu	37	chr10	95791902	95791902	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	catggagttacatagatcagAagagaaatggtcccttactg	10	7	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:95791902A>G	uc001kjk.2	+	2	1733	c.1099A>G	c.(1099-1101)AAG>GAG	p.K367E	PLCE1_uc010qnx.1_Missense_Mutation_p.K367E	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	367					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				CATAGATCAGAAGAGAAATGG	0.483													32	35	---	---	---	---	PASS	G	95791902	G	G	95791902	3	3	93	1	0	0	0	0	1	0	0	0	12034	247	9	5	1101	5	PLCE1	10	95791902	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	698358	95791902	39742845	199	35130										
PDCD4	27250	broad.mit.edu	37	chr10	112653929	112653929	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cttaaggaactggaagtaccTcattttcaccatgagcttgt	8	9	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:112653929T>C	uc001kzh.2	+	9	1314	c.1071T>C	c.(1069-1071)CCT>CCC	p.P357P	PDCD4_uc001kzg.2_Silent_p.P346P|PDCD4_uc010qre.1_Silent_p.P343P	NM_014456	NP_055271	Q53EL6	PDCD4_HUMAN	programmed cell death 4 isoform 1	357	MI 2.				apoptosis|cell aging|negative regulation of cell cycle|negative regulation of JUN kinase activity|negative regulation of transcription, DNA-dependent	cytosol|nucleus	protein binding|RNA binding			ovary(1)|breast(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.000526)|all cancers(201;0.00794)|BRCA - Breast invasive adenocarcinoma(275;0.125)		TGGAAGTACCTCATTTTCACC	0.333													4	115	---	---	---	---	PASS	C	112653929	C	C	112653929	2	2	93	1	0	0	0	0	0	0	0	1	11621	1538	54	5		5	PDCD4	10	112653929	Silent	SNP	T	TCGA-39-5036-01A-01D-1441-08	16862027	112653929	22880818	200	35131										
LHPP	64077	broad.mit.edu	37	chr10	126172723	126172723	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cgcagactgaagcgttcccgGctgaaggtgaggttctgcac	14	11	1	4			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr10:126172723G>A	uc001lhs.1	+	2	161	c.141G>A	c.(139-141)CGG>CGA	p.R47R	LHPP_uc001lht.1_Silent_p.R47R|LHPP_uc009yai.1_Silent_p.R47R	NM_022126	NP_071409	Q9H008	LHPP_HUMAN	phospholysine phosphohistidine inorganic	47					protein dephosphorylation	cytosol|nucleus	inorganic diphosphatase activity|magnesium ion binding|phosphohistidine phosphatase activity|protein homodimerization activity				0		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.163)|Colorectal(40;0.187)		AGCGTTCCCGGCTGAAGGTGA	0.617													3	36	---	---	---	---	PASS	A	126172723	A	A	126172723	2	1	93	1	0	0	0	0	0	0	0	1	8769	1190	42	3		3	LHPP	10	126172723	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	13518794	126172723	9362024	201	35132										
OR51B4	79339	broad.mit.edu	37	chr11	5322984	5322984	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	catcccaaggtccgtgtctgCcagcatagccaggaagtagt	11	12	1	0	rs115914853	by1000genomes	TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:5322984C>T	uc010qza.1	-	1	193	c.193G>A	c.(193-195)GCA>ACA	p.A65T	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033179	NP_149419	Q9Y5P0	O51B4_HUMAN	olfactory receptor, family 51, subfamily B,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCCGTGTCTGCCAGCATAGCC	0.517													37	86	---	---	---	---	PASS	T	5322984	T	T	5322984	3	4	93	1	0	0	0	0	1	0	0	0	11090	739	26	3	742	3	OR51B4	11	5322984	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08		5322984	129683532	202	35133										
OR51B6	390058	broad.mit.edu	37	chr11	5373029	5373029	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gccatggagcctgcttctctCaggcctattttatccatact	7	13	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:5373029C>G	uc010qzb.1	+	1	292	c.292C>G	c.(292-294)CAG>GAG	p.Q98E	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	98	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTGCTTCTCTCAGGCCTATTT	0.493													3	122	---	---	---	---	PASS	G	5373029	G	G	5373029	3	3	93	1	0	0	0	0	1	0	0	0	11092	827	29	2	294	2	OR51B6	11	5373029	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	50045	5373029	129633487	203	35134										
OR10A4	283297	broad.mit.edu	37	chr11	6898336	6898336	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agctgcctcttggttctcagGgttttcagtggccactgtgc	12	11	3	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:6898336G>A	uc010rat.1	+	1	458	c.458G>A	c.(457-459)GGG>GAG	p.G153E		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	153	Helical; Name=4; (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)		TGGTTCTCAGGGTTTTCAGTG	0.532													32	52	---	---	---	---	PASS	A	6898336	A	A	6898336	3	1	93	1	0	0	0	0	1	0	0	0	10892	1232	43	3	460	3	OR10A4	11	6898336	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	1525307	6898336	128108180	204	35135										
TPH1	7166	broad.mit.edu	37	chr11	18051058	18051058	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tatttttttaaatatacttaCtgtttatagttcatagccaa	3	5	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:18051058C>T	uc001mnp.2	-	4	496	c.470_splice	c.e4+1	p.H157_splice	TPH1_uc009yhe.2_Splice_Site	NM_004179	NP_004170	P17752	TPH1_HUMAN	tryptophan hydroxylase 1						aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity				0					L-Tryptophan(DB00150)|Tetrahydrobiopterin(DB00360)	AATATACTTACTGTTTATAGT	0.284													33	92	---	---	---	---	PASS	T	18051058	T	T	18051058	5	4	93	1	0	0	0	0	0	0	1	0	16398	579	20	3	891	3	TPH1	11	18051058	Splice_Site	SNP	C	TCGA-39-5036-01A-01D-1441-08	11152722	18051058	116955458	205	35136										
SLC6A5	9152	broad.mit.edu	37	chr11	20668426	20668426	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gagatgatgattggattccaGcctaacatcttctggaaagt	10	7	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:20668426G>T	uc001mqd.2	+	14	2289	c.2016G>T	c.(2014-2016)CAG>CAT	p.Q672H	SLC6A5_uc009yic.2_Missense_Mutation_p.Q437H	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	672					synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	TTGGATTCCAGCCTAACATCT	0.438													32	60	---	---	---	---	PASS	T	20668426	T	T	20668426	3	4	93	1	0	0	0	0	1	0	0	0	14687	962	34	3	2070	3	SLC6A5	11	20668426	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	2617368	20668426	114338090	206	35137										
FIBIN	387758	broad.mit.edu	37	chr11	27016328	27016328	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	accctgcgggaggagttcacCgtgctgggccgccaggtgga	17	12	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:27016328C>A	uc001mrd.2	+	1	701	c.255C>A	c.(253-255)ACC>ACA	p.T85T		NM_203371	NP_976249	Q8TAL6	FIBIN_HUMAN	fin bud initiation factor homolog precursor	85						extracellular region|Golgi apparatus					0						AGGAGTTCACCGTGCTGGGCC	0.652													6	19	---	---	---	---	PASS	A	27016328	A	A	27016328	2	1	93	1	0	0	0	0	0	0	0	1	5885	639	23	1		1	FIBIN	11	27016328	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	6347902	27016328	107990188	207	35138										
API5	8539	broad.mit.edu	37	chr11	43343602	43343602	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gttagagaacgagcaattaaAttcctttctacaaaacttaa	5	7	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:43343602A>C	uc010rfh.1	+	5	632	c.459A>C	c.(457-459)AAA>AAC	p.K153N	API5_uc010rfg.1_Missense_Mutation_p.K142N|API5_uc001mxf.2_Missense_Mutation_p.K153N|API5_uc010rfi.1_Missense_Mutation_p.K99N|API5_uc001mxg.2_Missense_Mutation_p.K27N	NM_001142930	NP_001136402	Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5 isoform a	153					anti-apoptosis|apoptosis	cytoplasm|spliceosomal complex	fibroblast growth factor binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						GAGCAATTAAATTCCTTTCTA	0.383													8	165	---	---	---	---	PASS	C	43343602	C	C	43343602	3	2	93	1	0	0	0	0	1	0	0	0	773	98	4	5	477	5	API5	11	43343602	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	16327274	43343602	91662914	208	35139										
PSMC3	5702	broad.mit.edu	37	chr11	47444133	47444133	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gccctcccttaccgcttggtGccgatggcatccaactcatc	8	17	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:47444133G>A	uc001nfh.2	-	8	1070	c.876C>T	c.(874-876)GGC>GGT	p.G292G	PSMC3_uc009ylr.1_Silent_p.G250G	NM_002804	NP_002795	P17980	PRS6A_HUMAN	proteasome 26S ATPase subunit 3	292					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|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|nucleoside-triphosphatase activity|protein binding|transcription coactivator activity|transcription corepressor activity			ovary(4)	4				Lung(87;0.0932)|BRCA - Breast invasive adenocarcinoma(625;0.13)		ACCGCTTGGTGCCGATGGCAT	0.552													76	149	---	---	---	---	PASS	A	47444133	A	A	47444133	2	1	93	1	0	0	0	0	0	0	0	1	12687	1306	46	3		3	PSMC3	11	47444133	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	4100531	47444133	87562383	209	35140										
PTPRJ	5795	broad.mit.edu	37	chr11	48166407	48166407	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aaccacacttggttattacaAtgggaagctggaacctctgg	10	9	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:48166407A>G	uc001ngp.3	+	13	3111	c.2756A>G	c.(2755-2757)AAT>AGT	p.N919S		NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	919	Extracellular (Potential).			YNGKLEPLGSYR -> LQWEAGTSGLLP (in Ref. 2; BAA07035).	contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						GGTTATTACAATGGGAAGCTG	0.458													74	120	---	---	---	---	PASS	G	48166407	G	G	48166407	3	3	93	1	0	0	0	0	1	0	0	0	12804	101	4	5	2815	5	PTPRJ	11	48166407	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	722274	48166407	86840109	210	35141										
OR5AS1	219447	broad.mit.edu	37	chr11	55798238	55798238	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgatgctgagtgccttatccTggcagcaatggcttatgacc	11	10	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:55798238T>A	uc010riw.1	+	1	344	c.344T>A	c.(343-345)CTG>CAG	p.L115Q		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					TGCCTTATCCTGGCAGCAATG	0.473													28	47	---	---	---	---	PASS	A	55798238	A	A	55798238	3	1	93	1	0	0	0	0	1	0	0	0	11146	1580	55	5	346	5	OR5AS1	11	55798238	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	7631831	55798238	79208278	211	35142										
PGA5	5222	broad.mit.edu	37	chr11	61018735	61018735	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agggcaaacaaccaggtcggCctggcccctgtggcttaagc	13	13	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:61018735C>G	uc001nqz.2	+	9	1179	c.1149C>G	c.(1147-1149)GGC>GGG	p.G383G		NM_014224	NP_055039	P00790	PEPA_HUMAN	pepsinogen 5, group I precursor	383					digestion|proteolysis	extracellular region	aspartic-type endopeptidase activity			skin(1)	1						ACCAGGTCGGCCTGGCCCCTG	0.542													58	198	---	---	---	---	PASS	G	61018735	G	G	61018735	2	3	93	1	0	0	0	0	0	0	0	1	11772	726	26	4		4	PGA5	11	61018735	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	5220497	61018735	73987781	212	35143										
AHNAK	79026	broad.mit.edu	37	chr11	62288817	62288817	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tggaccttcgatactgacatCaggggcatcaatgtccactt	9	11	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:62288817C>A	uc001ntl.2	-	5	13372	c.13072G>T	c.(13072-13074)GAT>TAT	p.D4358Y	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4358					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				ATACTGACATCAGGGGCATCA	0.493													5	205	---	---	---	---	PASS	A	62288817	A	A	62288817	3	1	93	1	0	0	0	0	1	0	0	0	414	826	29	2	4720	2	AHNAK	11	62288817	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	1270082	62288817	72717699	213	35144										
ARAP1	116985	broad.mit.edu	37	chr11	72412727	72412727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gcggtcctgtagcagcttgcCggcagaggcagtcttgtaga	15	10	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:72412727C>A	uc001osu.2	-	16	2458	c.2269G>T	c.(2269-2271)GGC>TGC	p.G757C	ARAP1_uc001osv.2_Missense_Mutation_p.G757C|ARAP1_uc001osr.2_Missense_Mutation_p.G517C|ARAP1_uc001oss.2_Missense_Mutation_p.G512C|ARAP1_uc009yth.2_Missense_Mutation_p.G451C|ARAP1_uc010rre.1_Missense_Mutation_p.G512C|ARAP1_uc001osw.1_Missense_Mutation_p.G45C	NM_001040118	NP_001035207	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	757	PH 3.				actin filament reorganization involved in cell cycle|negative regulation of stress fiber assembly|positive regulation of Cdc42 GTPase activity|positive regulation of filopodium assembly|regulation of ARF GTPase activity|regulation of cell shape|regulation of cellular component movement|small GTPase mediated signal transduction	cytosol|Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|Rho GTPase activator activity|zinc ion binding			skin(1)	1						AGCAGCTTGCCGGCAGAGGCA	0.637													68	104	---	---	---	---	PASS	A	72412727	A	A	72412727	3	1	93	1	0	0	0	0	1	0	0	0	838	652	23	1	2163	1	ARAP1	11	72412727	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	10123910	72412727	62593789	214	35145										
SYTL2	54843	broad.mit.edu	37	chr11	85431949	85431949	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	acttttggaaggcattttccTagcggcactcctttccaaag	8	11	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:85431949T>C	uc010rth.1	-	8	1789	c.1513A>G	c.(1513-1515)AGG>GGG	p.R505G	SYTL2_uc010rtg.1_Missense_Mutation_p.R506G|SYTL2_uc010rti.1_Missense_Mutation_p.R505G|SYTL2_uc010rtj.1_Missense_Mutation_p.R457G|SYTL2_uc010rte.1_5'Flank|SYTL2_uc001pax.2_5'Flank|SYTL2_uc001paz.2_5'Flank|SYTL2_uc001pba.2_5'Flank|SYTL2_uc001pay.2_5'Flank|SYTL2_uc001paw.2_5'Flank|SYTL2_uc009yvj.2_RNA|SYTL2_uc001pbd.2_Missense_Mutation_p.R827G|SYTL2_uc001pbb.2_Missense_Mutation_p.R827G|SYTL2_uc001pbc.2_Missense_Mutation_p.R827G|SYTL2_uc010rtf.1_Missense_Mutation_p.R363G	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	505					intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		GGCATTTTCCTAGCGGCACTC	0.378													30	63	---	---	---	---	PASS	C	85431949	C	C	85431949	3	2	93	1	0	0	0	0	1	0	0	0	15480	1521	53	5	1387	5	SYTL2	11	85431949	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	13019222	85431949	49574567	215	35146										
CCDC83	220047	broad.mit.edu	37	chr11	85584264	85584264	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgattctcagatgtcaaataAaggaagatgccgtggagcaa	11	6	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:85584264A>T	uc001pbh.1	+	3	618	c.106A>T	c.(106-108)AAG>TAG	p.K36*	CCDC83_uc001pbg.1_Nonsense_Mutation_p.K36*|CCDC83_uc001pbi.1_RNA|CCDC83_uc001pbj.1_5'UTR	NM_173556	NP_775827	Q8IWF9	CCD83_HUMAN	coiled-coil domain containing 83	36										skin(1)	1		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				ATGTCAAATAAAGGAAGATGC	0.264													8	49	---	---	---	---	PASS	T	85584264	T	T	85584264	4	4	93	1	0	0	0	0	0	1	0	0	2857	15	1	5	112	5	CCDC83	11	85584264	Nonsense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	152315	85584264	49422252	216	35147										
GRM5	2915	broad.mit.edu	37	chr11	88300351	88300351	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agatgtggtgaaggcgctgcGcacgtttctctctggtttgg	15	8	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:88300351G>A	uc001pcq.2	-	7	2700	c.2500C>T	c.(2500-2502)CGC>TGC	p.R834C	GRM5_uc009yvm.2_Missense_Mutation_p.R834C	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	834	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	AAGGCGCTGCGCACGTTTCTC	0.572													5	120	---	---	---	---	PASS	A	88300351	A	A	88300351	3	1	93	1	0	0	0	0	1	0	0	0	6800	1087	38	1	1150	1	GRM5	11	88300351	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	2716087	88300351	46706165	217	35148										
MED17	9440	broad.mit.edu	37	chr11	93523815	93523815	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aaatcttattgaagggggcaGaaagactgactaaatcagtt	10	5	2	4			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:93523815G>A	uc001pem.3	+	3	768	c.493G>A	c.(493-495)GAA>AAA	p.E165K		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	165					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GAAGGGGGCAGAAAGACTGAC	0.398													46	129	---	---	---	---	PASS	A	93523815	A	A	93523815	3	1	93	1	0	0	0	0	1	0	0	0	9435	943	33	2	503	2	MED17	11	93523815	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	5223464	93523815	41482701	218	35149										
KIAA1377	57562	broad.mit.edu	37	chr11	101833133	101833133	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tacttcaattcctacttcatGtgtaccagtggcaacgcctt	6	12	2	0	rs149377851		TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:101833133G>C	uc001pgm.2	+	6	1637	c.1367G>C	c.(1366-1368)TGT>TCT	p.C456S	KIAA1377_uc001pgn.2_Missense_Mutation_p.C412S|KIAA1377_uc010run.1_Missense_Mutation_p.C257S|KIAA1377_uc009yxa.1_Missense_Mutation_p.C257S	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	456							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		CCTACTTCATGTGTACCAGTG	0.378													8	97	---	---	---	---	PASS	C	101833133	C	C	101833133	3	2	93	1	0	0	0	0	1	0	0	0	8227	1377	48	4	1389	4	KIAA1377	11	101833133	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	8309318	101833133	33173383	219	35150										
KIAA1826	84437	broad.mit.edu	37	chr11	105880331	105880331	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgtaagcgttccttttcaatCtgcagcttctcagattcaaa	6	10	4	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:105880331C>T	uc001piy.2	-	3	1142	c.969G>A	c.(967-969)CAG>CAA	p.Q323Q	KIAA1826_uc001piz.2_Silent_p.Q323Q	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	323	Potential.					nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		CCTTTTCAATCTGCAGCTTCT	0.408													7	183	---	---	---	---	PASS	T	105880331	T	T	105880331	2	4	93	1	0	0	0	0	0	0	0	1	8260	912	32	2		2	KIAA1826	11	105880331	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	4047198	105880331	29126185	220	35151										
DDX6	1656	broad.mit.edu	37	chr11	118638961	118638961	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtccttcttcaggtctagccGttcaagtaagggaatgaggt	12	8	4	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:118638961G>A	uc001pub.2	-	5	830	c.469C>T	c.(469-471)CGG>TGG	p.R157W	DDX6_uc001puc.2_Missense_Mutation_p.R157W	NM_004397	NP_004388	P26196	DDX6_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	157	Helicase ATP-binding.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|RNA-induced silencing complex|stress granule	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|RNA helicase activity			ovary(1)	1	all_hematologic(175;0.0839)	Renal(330;0.0183)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)|Hepatocellular(160;0.0893)|Breast(348;0.0979)|all_hematologic(192;0.103)		OV - Ovarian serous cystadenocarcinoma(223;3.39e-06)|BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Colorectal(284;0.0377)		AGGTCTAGCCGTTCAAGTAAG	0.413			T	IGH@	B-NHL								16	30	---	---	---	---	PASS	A	118638961	A	A	118638961	3	1	93	1	0	0	0	0	1	0	0	0	4377	1144	40	1	1018	1	DDX6	11	118638961	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	12758630	118638961	16367555	221	35152										
OR8G2	26492	broad.mit.edu	37	chr11	124096262	124096262	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	accaggggaaagtgtcctctGtgttttatactattgttgtg	11	6	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:124096262G>T	uc010saf.1	+	1	865	c.865G>T	c.(865-867)GTG>TTG	p.V289L		NM_001007249	NP_001007250	Q15614	OR8G2_HUMAN	olfactory receptor, family 8, subfamily G,	289						integral to membrane	olfactory receptor activity				0		Breast(109;0.0157)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.91e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		AGTGTCCTCTGTGTTTTATAC	0.458													6	70	---	---	---	---	PASS	T	124096262	T	T	124096262	3	4	93	1	0	0	0	0	1	0	0	0	11235	1377	48	3	867	3	OR8G2	11	124096262	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	5457301	124096262	10910254	222	35153										
OR8B2	26595	broad.mit.edu	37	chr11	124252781	124252781	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtgtgggccgtggctccagcCaatcccattatgtaagcagc	12	12	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr11:124252781C>A	uc010sai.1	-	1	459	c.459G>T	c.(457-459)TTG>TTT	p.L153F		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	153	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		TGGCTCCAGCCAATCCCATTA	0.493													8	9	---	---	---	---	PASS	A	124252781	A	A	124252781	3	1	93	1	0	0	0	0	1	0	0	0	11227	593	21	3	485	3	OR8B2	11	124252781	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	156519	124252781	10753735	223	35154										
CACNA1C	775	broad.mit.edu	37	chr12	2721173	2721173	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctgaagctcattgccttcaaAcccaaggtaggcctctgaga	9	12	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:2721173A>G	uc009zdu.1	+	30	4195	c.3882A>G	c.(3880-3882)AAA>AAG	p.K1294K	CACNA1C_uc009zdv.1_Silent_p.K1271K|CACNA1C_uc001qkb.2_Silent_p.K1274K|CACNA1C_uc001qkc.2_Silent_p.K1274K|CACNA1C_uc001qke.2_Silent_p.K1274K|CACNA1C_uc001qkf.2_Silent_p.K1274K|CACNA1C_uc001qjz.2_Silent_p.K1274K|CACNA1C_uc001qkd.2_Silent_p.K1274K|CACNA1C_uc001qkg.2_Silent_p.K1274K|CACNA1C_uc009zdw.1_Silent_p.K1274K|CACNA1C_uc001qkh.2_Silent_p.K1274K|CACNA1C_uc001qkl.2_Silent_p.K1294K|CACNA1C_uc001qkn.2_Silent_p.K1274K|CACNA1C_uc001qko.2_Silent_p.K1294K|CACNA1C_uc001qkp.2_Silent_p.K1274K|CACNA1C_uc001qkr.2_Silent_p.K1274K|CACNA1C_uc001qku.2_Silent_p.K1274K|CACNA1C_uc001qkq.2_Silent_p.K1274K|CACNA1C_uc001qks.2_Silent_p.K1274K|CACNA1C_uc001qkt.2_Silent_p.K1274K|CACNA1C_uc001qka.1_Silent_p.K809K|CACNA1C_uc001qki.1_Silent_p.K1010K|CACNA1C_uc001qkj.1_Silent_p.K1010K|CACNA1C_uc001qkk.1_Silent_p.K1010K|CACNA1C_uc001qkm.1_Silent_p.K1010K	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1294	Cytoplasmic (Potential).|IV.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	TTGCCTTCAAACCCAAGGTAG	0.537													11	39	---	---	---	---	PASS	G	2721173	G	G	2721173	2	3	93	1	0	0	0	0	0	0	0	1	2540	40	2	5		5	CACNA1C	12	2721173	Silent	SNP	A	TCGA-39-5036-01A-01D-1441-08		2721173	131130722	224	35155										
CLEC4C	170482	broad.mit.edu	37	chr12	7894112	7894112	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcttgacagttttgctatacAtaaaattgtgaggcactggg	10	6	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:7894112A>G	uc001qtg.1	-	3	314	c.140T>C	c.(139-141)ATG>ACG	p.M47T	CLEC4C_uc001qth.1_Missense_Mutation_p.M47T|CLEC4C_uc001qti.1_Missense_Mutation_p.M16T	NM_130441	NP_569708	Q8WTT0	CLC4C_HUMAN	C-type lectin domain family 4, member C isoform	47	Extracellular (Potential).				innate immune response	integral to membrane	sugar binding			ovary(2)|skin(1)	3				Kidney(36;0.0915)		TTTGCTATACATAAAATTGTG	0.378													5	105	---	---	---	---	PASS	G	7894112	G	G	7894112	3	3	93	1	0	0	0	0	1	0	0	0	3513	217	8	5	517	5	CLEC4C	12	7894112	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	5172939	7894112	125957783	225	35156										
PRR4	11272	broad.mit.edu	37	chr12	11000994	11000994	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtatggtgaaagtaaagtctTcatagttcacatctaggaaa	9	5	4	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:11000994T>C	uc001qyz.3	-	2	116	c.77A>G	c.(76-78)GAA>GGA	p.E26G	PRR4_uc009zhp.2_Missense_Mutation_p.E39G|PRH1_uc001qzb.3_RNA|PRR4_uc001qza.3_RNA|PRR4_uc009zhq.1_RNA	NM_007244	NP_009175	Q16378	PROL4_HUMAN	proline rich 4 (lacrimal) isoform 2	26					visual perception	extracellular space					0						AGTAAAGTCTTCATAGTTCAC	0.383													8	72	---	---	---	---	PASS	C	11000994	C	C	11000994	3	2	93	1	0	0	0	0	1	0	0	0	12599	1783	62	5	335	5	PRR4	12	11000994	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	3106882	11000994	122850901	226	35157										
LRP6	4040	broad.mit.edu	37	chr12	12303938	12303938	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	atcaccatgcggttgatggcActcttttgactgaagagcag	11	9	2	4			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:12303938A>G	uc001rah.3	-	13	2968	c.2826T>C	c.(2824-2826)AGT>AGC	p.S942S	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Silent_p.S942S	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	942	Extracellular (Potential).|Beta-propeller 4.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				GGTTGATGGCACTCTTTTGAC	0.438													5	82	---	---	---	---	PASS	G	12303938	G	G	12303938	2	3	93	1	0	0	0	0	0	0	0	1	8962	156	6	5		5	LRP6	12	12303938	Silent	SNP	A	TCGA-39-5036-01A-01D-1441-08	1302944	12303938	121547957	227	35158										
IPO8	10526	broad.mit.edu	37	chr12	30805224	30805224	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	atgcaggagaggcatcatgtCtgaaaaaaaatcaaaatccc	8	8	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:30805224C>T	uc001rjd.2	-	19	2245	c.2075_splice	c.e19-1	p.D692_splice	IPO8_uc001rje.1_Splice_Site_p.D181_splice|IPO8_uc010sjt.1_Splice_Site_p.D487_splice	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8						intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					GGCATCATGTCTGAAAAAAAA	0.323													5	78	---	---	---	---	PASS	T	30805224	T	T	30805224	5	4	93	1	0	0	0	0	0	0	1	0	7798	927	32	2	1067	2	IPO8	12	30805224	Splice_Site	SNP	C	TCGA-39-5036-01A-01D-1441-08	18501286	30805224	103046671	228	35159										
PKP2	5318	broad.mit.edu	37	chr12	32996237	32996237	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccattcctacttcttaaattGactgtatggtctgtacaaag	6	9	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:32996237G>T	uc001rlj.3	-	6	1504	c.1389C>A	c.(1387-1389)GTC>GTA	p.V463V	PKP2_uc001rlk.3_Intron|PKP2_uc010skj.1_Intron	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	463	ARM 3.				cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					TTCTTAAATTGACTGTATGGT	0.274													5	95	---	---	---	---	PASS	T	32996237	T	T	32996237	2	4	93	1	0	0	0	0	0	0	0	1	11985	1277	45	2		2	PKP2	12	32996237	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	2191013	32996237	100855658	229	35160										
LRRK2	120892	broad.mit.edu	37	chr12	40707775	40707775	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtcatttgtaatttcatagaTccgagatcagcttgttgttg	9	6	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:40707775T>C	uc001rmg.3	+	32	4659	c.4538T>C	c.(4537-4539)ATC>ACC	p.I1513T	LRRK2_uc009zjw.2_Missense_Mutation_p.I351T|LRRK2_uc001rmi.2_Missense_Mutation_p.I346T	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1513					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)				ATTTCATAGATCCGAGATCAG	0.343													4	35	---	---	---	---	PASS	C	40707775	C	C	40707775	3	2	93	1	0	0	0	0	1	0	0	0	9033	1449	50	5	4664	5	LRRK2	12	40707775	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	7711538	40707775	93144120	230	35161										
YAF2	10138	broad.mit.edu	37	chr12	42554536	42554536	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	atgcaggcggtgactttgttTtctccttaaagtctgtaata	9	7	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:42554536T>A	uc001rmv.2	-	4	466	c.398A>T	c.(397-399)AAA>ATA	p.K133I	YAF2_uc001rmw.2_Missense_Mutation_p.K157I|YAF2_uc010sko.1_Missense_Mutation_p.K124I|YAF2_uc010skp.1_Missense_Mutation_p.K91I	NM_005748	NP_005739	Q8IY57	YAF2_HUMAN	YY1 associated factor 2	133					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription coactivator activity|transcription corepressor activity|zinc ion binding				0	all_cancers(12;0.000425)	Lung NSC(34;0.0402)|all_lung(34;0.057)		GBM - Glioblastoma multiforme(48;0.0514)		TGACTTTGTTTTCTCCTTAAA	0.438													30	34	---	---	---	---	PASS	A	42554536	A	A	42554536	3	1	93	1	0	0	0	0	1	0	0	0	17462	1841	64	5	148	5	YAF2	12	42554536	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	1846761	42554536	91297359	231	35162										
ARID2	196528	broad.mit.edu	37	chr12	46233248	46233248	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccacaagctatagagcaagtCcaaacccagactcatgtagc	7	13	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:46233248C>T	uc001ros.1	+	11	1467	c.1467C>T	c.(1465-1467)GTC>GTT	p.V489V	ARID2_uc001ror.2_Silent_p.V489V|ARID2_uc009zkg.1_5'UTR|ARID2_uc009zkh.1_Silent_p.V116V|ARID2_uc001rot.1_Silent_p.V135V	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	489					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TAGAGCAAGTCCAAACCCAGA	0.403													4	225	---	---	---	---	PASS	T	46233248	T	T	46233248	2	4	93	1	0	0	0	0	0	0	0	1	915	842	30	2		2	ARID2	12	46233248	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	3678712	46233248	87618647	232	35163										
MLL2	8085	broad.mit.edu	37	chr12	49436428	49436428	+	Frame_Shift_Del	DEL	C	-	-													0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gattgcccaaagggagtccaCctacaagacggacaggatca							TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:49436428delC	uc001rta.3	-	27	5783	c.5783delG	c.(5782-5784)GGTfs	p.G1928fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1928					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGGGAGTCCACCTACAAGACG	0.552			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			55	54	---	---	---	---		-	49436428	-	-	49436428	7	5	93	1	0	1	0	1	0	0	0	0	9621	521	18	0	10942	0	MLL2	12	49436428	Frame_Shift_Del	DEL	C	TCGA-39-5036-01A-01D-1441-08	3203180	49436428	84415467	233	35164										
DIP2B	57609	broad.mit.edu	37	chr12	51138612	51138612	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agaccccatctacgtggcttAtaacatgtaaccagccttgt	7	12	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:51138612A>T	uc001rwv.2	+	38	4877	c.4721A>T	c.(4720-4722)TAT>TTT	p.Y1574F	DIP2B_uc009zlt.2_Missense_Mutation_p.Y1004F	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1574						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						TACGTGGCTTATAACATGTAA	0.507													15	67	---	---	---	---	PASS	T	51138612	T	T	51138612	3	4	93	1	0	0	0	0	1	0	0	0	4528	449	16	5	4871	5	DIP2B	12	51138612	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	1702184	51138612	82713283	234	35165										
SLC11A2	4891	broad.mit.edu	37	chr12	51402304	51402304	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcattaaagtaagtggcgaaGtactcctctgagtccccagg	10	10	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:51402304G>A	uc001rxe.3	-	3	235	c.138C>T	c.(136-138)TAC>TAT	p.Y46Y	SLC11A2_uc001rxd.3_5'UTR|SLC11A2_uc001rxc.3_Silent_p.Y46Y|SLC11A2_uc001rxf.2_RNA|SLC11A2_uc010smx.1_Silent_p.Y42Y|SLC11A2_uc001rxh.1_Silent_p.Y46Y|SLC11A2_uc001rxj.1_Silent_p.Y46Y|SLC11A2_uc001rxi.2_Silent_p.Y46Y|SLC11A2_uc001rxk.1_Silent_p.Y75Y|SLC11A2_uc010smy.1_Silent_p.Y9Y	NM_000617	NP_000608	P49281	NRAM2_HUMAN	solute carrier family 11 (proton-coupled	46	Cytoplasmic (Potential).				activation of caspase activity|cellular iron ion homeostasis|cellular response to oxidative stress|detection of oxygen|ferrous iron import|multicellular organismal iron ion homeostasis|response to hypoxia|response to iron ion	apical plasma membrane|basal part of cell|cell surface|cytoplasmic vesicle|early endosome|late endosome|late endosome membrane|lysosomal membrane|lysosome|nucleus|paraferritin complex|perinuclear region of cytoplasm|perinuclear region of cytoplasm|plasma membrane|recycling endosome|trans-Golgi network	cadmium ion transmembrane transporter activity|cadmium ion transmembrane transporter activity|cobalt ion transmembrane transporter activity|copper ion transmembrane transporter activity|ferrous iron transmembrane transporter activity|ferrous iron transmembrane transporter activity|lead ion transmembrane transporter activity|lead ion transmembrane transporter activity|manganese ion transmembrane transporter activity|manganese ion transmembrane transporter activity|nickel ion transmembrane transporter activity|protein binding|solute:hydrogen symporter activity|vanadium ion transmembrane transporter activity|zinc ion transmembrane transporter activity			large_intestine(1)	1						AAGTGGCGAAGTACTCCTCTG	0.488													13	170	---	---	---	---	PASS	A	51402304	A	A	51402304	2	1	93	1	0	0	0	0	0	0	0	1	14381	1024	36	3		3	SLC11A2	12	51402304	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	263692	51402304	82449591	235	35166										
HOXC4	3221	broad.mit.edu	37	chr12	54447770	54447770	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cgaaatttcctccatgcgaaGaatattcgcaaaatagctac	6	10	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:54447770G>C	uc001seu.2	+	3	744	c.64G>C	c.(64-66)GAA>CAA	p.E22Q	HOXC4_uc001sex.2_Missense_Mutation_p.E22Q	NM_014620	NP_055435	P09017	HXC4_HUMAN	homeobox C4	22						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TCCATGCGAAGAATATTCGCA	0.448													120	132	---	---	---	---	PASS	C	54447770	C	C	54447770	3	2	93	1	0	0	0	0	1	0	0	0	7313	943	33	2	66	2	HOXC4	12	54447770	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	3045466	54447770	79404125	236	35167										
PTPRB	5787	broad.mit.edu	37	chr12	70983913	70983913	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gaatcattgaagagtaggatCcgatactgctcccagtctcc	9	11	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:70983913C>T	uc001swb.3	-	6	1257	c.1227G>A	c.(1225-1227)CGG>CGA	p.R409R	PTPRB_uc010sto.1_Silent_p.R409R|PTPRB_uc010stp.1_Intron|PTPRB_uc001swc.3_Silent_p.R627R|PTPRB_uc001swa.3_Silent_p.R627R|PTPRB_uc001swd.3_Silent_p.R626R|PTPRB_uc009zrr.1_Silent_p.R506R	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	409	Fibronectin type-III 5.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			AGAGTAGGATCCGATACTGCT	0.512											OREG0021990	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	49	133	---	---	---	---	PASS	T	70983913	T	T	70983913	2	4	93	1	0	0	0	0	0	0	0	1	12796	842	30	2		2	PTPRB	12	70983913	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	16536143	70983913	62867982	237	35168										
PTPRR	5801	broad.mit.edu	37	chr12	71139710	71139710	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agggtccacgacaacattcaGtacctttggggcctgctcag	11	12	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:71139710G>T	uc001swi.1	-	6	1311	c.895C>A	c.(895-897)CTG>ATG	p.L299M	PTPRR_uc001swh.1_Missense_Mutation_p.L54M|PTPRR_uc009zrs.2_Missense_Mutation_p.L148M|PTPRR_uc010stq.1_Missense_Mutation_p.L187M|PTPRR_uc010str.1_Missense_Mutation_p.L148M	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	299	Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		ACAACATTCAGTACCTTTGGG	0.537													35	81	---	---	---	---	PASS	T	71139710	T	T	71139710	3	4	93	1	0	0	0	0	1	0	0	0	12810	1020	36	3	1114	3	PTPRR	12	71139710	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	155797	71139710	62712185	238	35169										
LRRIQ1	84125	broad.mit.edu	37	chr12	85626479	85626479	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tttgtcactatgcagcaatcActttttgcctgagttagatc	7	9	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:85626479A>G	uc001tac.2	+	26	5072	c.4961A>G	c.(4960-4962)CAC>CGC	p.H1654R		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1654										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		TGCAGCAATCACTTTTTGCCT	0.338													42	51	---	---	---	---	PASS	G	85626479	G	G	85626479	3	3	93	1	0	0	0	0	1	0	0	0	9029	159	6	5	5063	5	LRRIQ1	12	85626479	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	14486769	85626479	48225416	239	35170										
CCDC41	51134	broad.mit.edu	37	chr12	94706779	94706779	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agtcttttcaatttgttttcAtgaagagattttctctaaaa	5	5	4	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:94706779A>C	uc001tdd.2	-	15	2308	c.1722T>G	c.(1720-1722)CAT>CAG	p.H574Q	CCDC41_uc001tde.2_Missense_Mutation_p.H574Q|CCDC41_uc009zsw.1_RNA	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen	566	Potential.										0						ATTTGTTTTCATGAAGAGATT	0.269													11	32	---	---	---	---	PASS	C	94706779	C	C	94706779	3	2	93	1	0	0	0	0	1	0	0	0	2813	214	8	5	395	5	CCDC41	12	94706779	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	9080300	94706779	39145116	240	35171										
PLBD2	196463	broad.mit.edu	37	chr12	113824846	113824846	+	Frame_Shift_Del	DEL	G	-	-													0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccgggcccagatcttccggcGgaaccagtcactggtacaag							TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:113824846delG	uc001tve.2	+	10	1426	c.1391delG	c.(1390-1392)CGGfs	p.R464fs	PLBD2_uc001tvf.2_Frame_Shift_Del_p.R432fs	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	464					lipid catabolic process	lysosomal lumen	hydrolase activity				0						ATCTTCCGGCGGAACCAGTCA	0.602													136	62	---	---	---	---		-	113824846	-	-	113824846	7	5	93	1	0	1	0	1	0	0	0	0	12026	1116	39	0	1429	0	PLBD2	12	113824846	Frame_Shift_Del	DEL	G	TCGA-39-5036-01A-01D-1441-08	19118067	113824846	20027049	241	35172										
TBX5	6910	broad.mit.edu	37	chr12	114836499	114836499	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cgtacaggcggccaggcatgGcgggctcagctttgcccgtc	15	14	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:114836499G>T	uc001tvo.2	-	5	884	c.389C>A	c.(388-390)GCC>GAC	p.A130D	TBX5_uc001tvp.2_Missense_Mutation_p.A130D|TBX5_uc001tvq.2_Missense_Mutation_p.A80D|TBX5_uc010syv.1_Missense_Mutation_p.A130D	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	130	T-box.				cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		GCCAGGCATGGCGGGCTCAGC	0.612													8	9	---	---	---	---	PASS	T	114836499	T	T	114836499	3	4	93	1	0	0	0	0	1	0	0	0	15658	1203	42	3	1254	3	TBX5	12	114836499	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	1011653	114836499	19015396	242	35173										
MED13L	23389	broad.mit.edu	37	chr12	116424272	116424272	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agcagagtggggatgggcaaCggctcaggagattcttccga	16	8	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr12:116424272C>T	uc001tvw.2	-	19	4192	c.4137G>A	c.(4135-4137)CCG>CCA	p.P1379P		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1379					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		GGATGGGCAACGGCTCAGGAG	0.473													14	83	---	---	---	---	PASS	T	116424272	T	T	116424272	2	4	93	1	0	0	0	0	0	0	0	1	9431	523	19	1		1	MED13L	12	116424272	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	1587773	116424272	17427623	243	35174										
TUBA3C	7278	broad.mit.edu	37	chr13	19748040	19748040	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cttcagcctcggcttccacgGaatccacgcccacctcttca	6	19	3	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr13:19748040G>A	uc009zzj.2	-	5	1365	c.1316C>T	c.(1315-1317)TCC>TTC	p.S439F		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	439					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		GGCTTCCACGGAATCCACGCC	0.592													8	140	---	---	---	---	PASS	A	19748040	A	A	19748040	3	1	93	1	0	0	0	0	1	0	0	0	16743	1174	41	2	40	2	TUBA3C	13	19748040	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08		19748040	95421838	244	35175										
MTUS2	23281	broad.mit.edu	37	chr13	29608097	29608097	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aagtccctccaactttctatCggtcagccatgctccttaag	6	14	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr13:29608097C>G	uc001usl.3	+	2	2369	c.2311C>G	c.(2311-2313)CGG>GGG	p.R771G		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	761	Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						AACTTTCTATCGGTCAGCCAT	0.453													3	44	---	---	---	---	PASS	G	29608097	G	G	29608097	3	3	93	1	0	0	0	0	1	0	0	0	9966	875	31	2	2317	2	MTUS2	13	29608097	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	9860057	29608097	85561781	245	35176										
CCNA1	8900	broad.mit.edu	37	chr13	37014302	37014302	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cgacaaggagtgtgcgtcagGactgagaacctggctaaggt	15	8	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr13:37014302G>T	uc001uvr.3	+	6	1430	c.1080G>T	c.(1078-1080)AGG>AGT	p.R360S	CCNA1_uc010teo.1_Missense_Mutation_p.R316S|CCNA1_uc010abq.2_Missense_Mutation_p.R316S|CCNA1_uc010abp.2_Missense_Mutation_p.R316S|CCNA1_uc001uvs.3_Missense_Mutation_p.R359S|CCNA1_uc010abr.2_RNA	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	360					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		TGTGCGTCAGGACTGAGAACC	0.468													46	57	---	---	---	---	PASS	T	37014302	T	T	37014302	3	4	93	1	0	0	0	0	1	0	0	0	2909	1165	41	2	1102	2	CCNA1	13	37014302	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	7406205	37014302	78155576	246	35177										
MYCBP2	23077	broad.mit.edu	37	chr13	77629779	77629779	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aaacctcacaccaggagttgTgatagcttcactcttatgca	7	11	3	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr13:77629779T>C	uc001vkf.2	-	81	13538	c.13447A>G	c.(13447-13449)ACA>GCA	p.T4483A	MYCBP2_uc010aev.2_Missense_Mutation_p.T3887A|MYCBP2_uc001vke.2_Missense_Mutation_p.T1100A	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	4483					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CCAGGAGTTGTGATAGCTTCA	0.363													27	58	---	---	---	---	PASS	C	77629779	C	C	77629779	3	2	93	1	0	0	0	0	1	0	0	0	10018	1696	59	5	491	5	MYCBP2	13	77629779	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	40615477	77629779	37540099	247	35178										
MYH6	4624	broad.mit.edu	37	chr14	23869498	23869498	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcaatgcaggcctgcaggtcCatgccaaagtcaatgaatgt	10	10	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr14:23869498C>A	uc001wjv.2	-	14	1615	c.1548G>T	c.(1546-1548)ATG>ATT	p.M516I	MYH6_uc010akp.1_Missense_Mutation_p.M516I	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	516	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CCTGCAGGTCCATGCCAAAGT	0.557													30	55	---	---	---	---	PASS	A	23869498	A	A	23869498	3	1	93	1	0	0	0	0	1	0	0	0	10038	594	21	3	4375	3	MYH6	14	23869498	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08		23869498	83480042	248	35179										
RIPK3	11035	broad.mit.edu	37	chr14	24805493	24805493	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gcaagcccctccccttgcccGaaggtgccaagccccatgtg	10	18	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr14:24805493G>A	uc001wpb.2	-	10	1655	c.1445C>T	c.(1444-1446)TCG>TTG	p.S482L	ADCY4_uc001wov.2_5'Flank|ADCY4_uc001wow.2_5'Flank|ADCY4_uc010toh.1_5'Flank|ADCY4_uc001wox.2_5'Flank|ADCY4_uc001woy.2_5'Flank|ADCY4_uc001woz.3_5'Flank|RIPK3_uc001wpa.2_Missense_Mutation_p.S282L|RIPK3_uc010alq.2_RNA|RIPK3_uc010toi.1_Missense_Mutation_p.S261L	NM_006871	NP_006862	Q9Y572	RIPK3_HUMAN	receptor-interacting serine-threonine kinase 3	482					apoptosis|induction of apoptosis by extracellular signals	cytoplasm	ATP binding|protein binding|transcription coactivator activity			central_nervous_system(2)|ovary(1)|lung(1)	4				GBM - Glioblastoma multiforme(265;0.0181)		CCCCTTGCCCGAAGGTGCCAA	0.542													47	93	---	---	---	---	PASS	A	24805493	A	A	24805493	3	1	93	1	0	0	0	0	1	0	0	0	13382	1059	37	2	115	2	RIPK3	14	24805493	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	935995	24805493	82544047	249	35180										
AKAP6	9472	broad.mit.edu	37	chr14	33016177	33016177	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agatattcagcaccaagacaActatgaagccatatgggaaa	8	8	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr14:33016177A>C	uc001wrq.2	+	4	2488	c.2318A>C	c.(2317-2319)AAC>ACC	p.N773T	AKAP6_uc010aml.2_Missense_Mutation_p.N770T	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	773	Spectrin 1.				protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CACCAAGACAACTATGAAGCC	0.383													43	93	---	---	---	---	PASS	C	33016177	C	C	33016177	3	2	93	1	0	0	0	0	1	0	0	0	455	43	2	5	2328	5	AKAP6	14	33016177	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	8210684	33016177	74333363	250	35181										
MDGA2	161357	broad.mit.edu	37	chr14	47324237	47324237	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cttttcttacctgaaatgaaGtaattgggtatatattaaca	6	5	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr14:47324237G>T	uc001wwj.3	-	15	2862	c.2666C>A	c.(2665-2667)ACT>AAT	p.T889N	MDGA2_uc001wwh.3_Missense_Mutation_p.T91N|MDGA2_uc001wwi.3_Missense_Mutation_p.T660N	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	889	MAM.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CTGAAATGAAGTAATTGGGTA	0.323													5	110	---	---	---	---	PASS	T	47324237	T	T	47324237	3	4	93	1	0	0	0	0	1	0	0	0	9407	1029	36	3	216	3	MDGA2	14	47324237	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	14308060	47324237	60025303	251	35182										
STYX	6815	broad.mit.edu	37	chr14	53217453	53217453	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tataatatgcatacgacaaaAtattgaagcaaactttatta	4	5	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr14:53217453A>T	uc010tqy.1	+	5	259	c.197A>T	c.(196-198)AAT>ATT	p.N66I	STYX_uc001xaa.2_Missense_Mutation_p.N66I	NM_001130701	NP_001124173	Q8WUJ0	STYX_HUMAN	serine/threonine/tyrosine interacting protein	66					protein dephosphorylation|spermatogenesis	cytoplasm	protein tyrosine/serine/threonine phosphatase activity				0	Breast(41;0.176)					ATACGACAAAATATTGAAGCA	0.299													7	198	---	---	---	---	PASS	T	53217453	T	T	53217453	3	4	93	1	0	0	0	0	1	0	0	0	15359	101	4	5	211	5	STYX	14	53217453	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	5893216	53217453	54132087	252	35183										
KCNH5	27133	broad.mit.edu	37	chr14	63483556	63483556	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttctgttacctacctgcaagTgctgcttttctgcatgacgt	8	11	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr14:63483556T>A	uc001xfx.2	-	2	241	c.190A>T	c.(190-192)ACT>TCT	p.T64S	KCNH5_uc001xfy.2_Missense_Mutation_p.T64S|KCNH5_uc001xfz.1_Missense_Mutation_p.T6S|KCNH5_uc001xga.2_Missense_Mutation_p.T6S	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	64	Cytoplasmic (Potential).|PAS.				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		TACCTGCAAGTGCTGCTTTTC	0.378													20	91	---	---	---	---	PASS	A	63483556	A	A	63483556	3	1	93	1	0	0	0	0	1	0	0	0	8035	1696	59	5	2850	5	KCNH5	14	63483556	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	10266103	63483556	43865984	253	35184										
SYNE2	23224	broad.mit.edu	37	chr14	64488573	64488573	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgttgtttgtttatgcatttAggagatacaacagcagattc	9	5	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr14:64488573A>C	uc001xgm.2	+	37	5583	c.5353_splice	c.e37-2	p.E1785_splice	SYNE2_uc001xgl.2_Splice_Site_p.E1785_splice	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2						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)		TTATGCATTTAGGAGATACAA	0.318													18	66	---	---	---	---	PASS	C	64488573	C	C	64488573	5	2	93	1	0	0	0	0	0	0	1	0	15443	434	15	5	5493	5	SYNE2	14	64488573	Splice_Site	SNP	A	TCGA-39-5036-01A-01D-1441-08	1005017	64488573	42860967	254	35185										
C14orf179	112752	broad.mit.edu	37	chr14	76452154	76452154	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aggatttgctcgacttggacGaggagcttcgctacagcttg	13	9	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr14:76452154G>C	uc010asm.1	+	1	59	c.25G>C	c.(25-27)GAG>CAG	p.E9Q	C14orf179_uc001xsf.2_RNA|C14orf179_uc010asl.1_Missense_Mutation_p.E9Q|C14orf179_uc001xsg.2_Missense_Mutation_p.E9Q|C14orf179_uc010tve.1_RNA|C14orf179_uc001xse.2_Missense_Mutation_p.E9Q	NM_001102564	NP_001096034	Q96FT9	IFT43_HUMAN	hypothetical protein LOC112752 isoform 2	9					cilium morphogenesis|intraflagellar retrograde transport						0				BRCA - Breast invasive adenocarcinoma(234;0.0199)		CGACTTGGACGAGGAGCTTCG	0.672													16	50	---	---	---	---	PASS	C	76452154	C	C	76452154	3	2	93	1	0	0	0	0	1	0	0	0	1762	1059	37	2	27	2	C14orf179	14	76452154	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	11963581	76452154	30897386	255	35186										
TDP1	55775	broad.mit.edu	37	chr14	90459730	90459730	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctgtcactagcaaatggtcaGctgagacttctggccgcagc	11	12	3	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr14:90459730G>T	uc001xxy.2	+	14	1743	c.1444G>T	c.(1444-1446)GCT>TCT	p.A482S	TDP1_uc010atm.2_RNA|TDP1_uc001xxz.2_Missense_Mutation_p.A482S|TDP1_uc010atn.2_Missense_Mutation_p.A482S|TDP1_uc001xya.2_Missense_Mutation_p.A243S|TDP1_uc001xyb.2_RNA|TDP1_uc010ato.2_Missense_Mutation_p.A482S|TDP1_uc001xyd.1_Missense_Mutation_p.A97S	NM_018319	NP_060789	Q9NUW8	TYDP1_HUMAN	tyrosyl-DNA phosphodiesterase 1	482					cell death|double-strand break repair|single strand break repair	cytoplasm|nucleus	3'-tyrosyl-DNA phosphodiesterase activity|double-stranded DNA binding|exonuclease activity|protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(154;0.185)		COAD - Colon adenocarcinoma(157;0.23)		CAAATGGTCAGCTGAGACTTC	0.373								Repair_of_DNA-protein_crosslinks					12	42	---	---	---	---	PASS	T	90459730	T	T	90459730	3	4	93	1	0	0	0	0	1	0	0	0	15725	971	34	3	1490	3	TDP1	14	90459730	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	14007576	90459730	16889810	256	35187										
TRAF3	7187	broad.mit.edu	37	chr14	103371655	103371655	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggtcctggagaccgccagctAcaatggagtgctcatctgga	13	11	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr14:103371655A>G	uc001ymc.1	+	12	1594	c.1241A>G	c.(1240-1242)TAC>TGC	p.Y414C	TRAF3_uc001yme.1_Missense_Mutation_p.Y389C|TRAF3_uc001ymd.1_Missense_Mutation_p.Y414C|TRAF3_uc010txy.1_Missense_Mutation_p.Y331C	NM_145725	NP_663777	Q13114	TRAF3_HUMAN	TNF receptor-associated factor 3 isoform 1	414					apoptosis|induction of apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|regulation of defense response to virus|regulation of interferon-beta production|regulation of proteolysis|toll-like receptor signaling pathway|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|endosome|internal side of plasma membrane|mitochondrion	signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(154;7.87e-06)|all_epithelial(191;0.0024)		Epithelial(152;9.92e-24)|all cancers(159;2.23e-21)|OV - Ovarian serous cystadenocarcinoma(161;7.85e-12)|Colorectal(3;0.0971)		ACCGCCAGCTACAATGGAGTG	0.597													25	66	---	---	---	---	PASS	G	103371655	G	G	103371655	3	3	93	1	0	0	0	0	1	0	0	0	16436	391	14	5	1279	5	TRAF3	14	103371655	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	12911925	103371655	3977885	257	35188										
C15orf2	23742	broad.mit.edu	37	chr15	24924477	24924477	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggagacatgtctgtttccaaCttccgtaagagcacctgtgg	11	10	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:24924477C>T	uc001ywo.2	+	1	3937	c.3463C>T	c.(3463-3465)CTT>TTT	p.L1155F		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	1155					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CTGTTTCCAACTTCCGTAAGA	0.428													5	86	---	---	---	---	PASS	T	24924477	T	T	24924477	3	4	93	1	0	0	0	0	1	0	0	0	1784	565	20	3	3465	3	C15orf2	15	24924477	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08		24924477	77606915	258	35189										
ATP10A	57194	broad.mit.edu	37	chr15	25966982	25966982	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcttcgtcatacaactgcatGtcctggttaatgaagtacac	7	10	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:25966982G>A	uc010ayu.2	-	7	1291	c.1185C>T	c.(1183-1185)GAC>GAT	p.D395D		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	395	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		ACAACTGCATGTCCTGGTTAA	0.423													10	132	---	---	---	---	PASS	A	25966982	A	A	25966982	2	1	93	1	0	0	0	0	0	0	0	1	1116	1368	48	3		3	ATP10A	15	25966982	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	1042505	25966982	76564410	259	35190										
GABRA5	2558	broad.mit.edu	37	chr15	27193318	27193318	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgttcggcactttcaacttaGtttactgggcaacgtatttg	9	8	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:27193318G>T	uc001zbd.1	+	12	1666	c.1327G>T	c.(1327-1329)GTT>TTT	p.V443F	GABRA5_uc001zbe.1_RNA	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	443	Helical; (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TTTCAACTTAGTTTACTGGGC	0.443													9	19	---	---	---	---	PASS	T	27193318	T	T	27193318	3	4	93	1	0	0	0	0	1	0	0	0	6164	1029	36	3	1361	3	GABRA5	15	27193318	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	1226336	27193318	75338074	260	35191										
FSIP1	161835	broad.mit.edu	37	chr15	40030346	40030346	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aagtccttcaaaagctcaacCagccttttcttctctctgtc	4	14	5	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:40030346C>A	uc001zki.2	-	8	1055	c.837G>T	c.(835-837)CTG>CTT	p.L279L		NM_152597	NP_689810	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1	279										ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		AAAGCTCAACCAGCCTTTTCT	0.378													35	86	---	---	---	---	PASS	A	40030346	A	A	40030346	2	1	93	1	0	0	0	0	0	0	0	1	6074	581	21	3		3	FSIP1	15	40030346	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	12837028	40030346	62501046	261	35192										
UBR1	197131	broad.mit.edu	37	chr15	43363118	43363118	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcttcattcaacggacagcgTgaattctataaaaaagccga	7	9	4	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:43363118T>A	uc001zqq.2	-	5	600	c.534A>T	c.(532-534)TCA>TCT	p.S178S	UBR1_uc010udk.1_Silent_p.S178S	NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	178					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)		ACGGACAGCGTGAATTCTATA	0.323													24	62	---	---	---	---	PASS	A	43363118	A	A	43363118	2	1	93	1	0	0	0	0	0	0	0	1	16898	1683	59	5		5	UBR1	15	43363118	Silent	SNP	T	TCGA-39-5036-01A-01D-1441-08	3332772	43363118	59168274	262	35193										
SLC30A4	7782	broad.mit.edu	37	chr15	45779781	45779781	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gaaatgttgtaaaagccacaAgtaatgaaaatacgtatgta	8	4	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:45779781A>G	uc001zvj.2	-	6	1256	c.944T>C	c.(943-945)CTT>CCT	p.L315P		NM_013309	NP_037441	O14863	ZNT4_HUMAN	solute carrier family 30 (zinc transporter),	315	Helical; (Potential).				regulation of sequestering of zinc ion|response to toxin	endosome membrane|integral to membrane|late endosome	zinc ion transmembrane transporter activity				0		Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.58e-16)|GBM - Glioblastoma multiforme(94;2.15e-06)		AAAAGCCACAAGTAATGAAAA	0.308													3	163	---	---	---	---	PASS	G	45779781	G	G	45779781	3	3	93	1	0	0	0	0	1	0	0	0	14557	72	3	5	357	5	SLC30A4	15	45779781	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	2416663	45779781	56751611	263	35194										
SLC12A1	6557	broad.mit.edu	37	chr15	48561893	48561893	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	atgaaaccaaacactctggtGattggatataagaaaaactg	8	6	1	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:48561893G>T	uc001zwn.3	+	19	2550	c.2334G>T	c.(2332-2334)GTG>GTT	p.V778V	SLC12A1_uc010uew.1_Silent_p.V584V|SLC12A1_uc010bem.2_Silent_p.V778V|SLC12A1_uc001zwq.3_Silent_p.V549V|SLC12A1_uc001zwr.3_Silent_p.V505V	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	778					potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	ACACTCTGGTGATTGGATATA	0.418													5	30	---	---	---	---	PASS	T	48561893	T	T	48561893	2	4	93	1	0	0	0	0	0	0	0	1	14382	1277	45	2		2	SLC12A1	15	48561893	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	2782112	48561893	53969499	264	35195										
PRTG	283659	broad.mit.edu	37	chr15	55964742	55964742	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtacagcttgtagccctgaaTagcagctgtgtcctctacat	9	11	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:55964742T>A	uc002adg.2	-	11	1990	c.1942A>T	c.(1942-1944)ATT>TTT	p.I648F	PRTG_uc002adh.2_Missense_Mutation_p.I150F	NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	648	Fibronectin type-III 3.				multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		TAGCCCTGAATAGCAGCTGTG	0.488													23	83	---	---	---	---	PASS	A	55964742	A	A	55964742	3	1	93	1	0	0	0	0	1	0	0	0	12638	1406	49	5	1550	5	PRTG	15	55964742	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	7402849	55964742	46566650	265	35196										
ZNF609	23060	broad.mit.edu	37	chr15	64915056	64915056	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctgtttccacaccagcagtgCtgccaatacaccttttggtg	8	13	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:64915056C>G	uc002ann.2	+	2	778	c.778C>G	c.(778-780)CTG>GTG	p.L260V		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	260						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						ACCAGCAGTGCTGCCAATACA	0.473													68	129	---	---	---	---	PASS	G	64915056	G	G	64915056	3	3	93	1	0	0	0	0	1	0	0	0	18032	796	28	4	784	4	ZNF609	15	64915056	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	8950314	64915056	37616336	266	35197										
IL16	3603	broad.mit.edu	37	chr15	81598257	81598257	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tggtttgctcaggttcacagAgtgtttccaaatgggctggc	13	8	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:81598257A>G	uc002bgh.3	+	17	3805	c.3429A>G	c.(3427-3429)AGA>AGG	p.R1143R	IL16_uc010blq.1_Silent_p.R1097R|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Silent_p.R1185R|IL16_uc002bgg.2_Silent_p.R1143R|IL16_uc002bgi.1_Silent_p.R533R|IL16_uc002bgj.2_Silent_p.R637R|IL16_uc002bgk.2_Silent_p.R442R|IL16_uc002bgl.1_Silent_p.R442R|IL16_uc010unq.1_Silent_p.R442R	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	1143	PDZ 3.|Interaction with PPP1R12A, PPP1R12B and PPP1R12C.				immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						AGGTTCACAGAGTGTTTCCAA	0.507													7	144	---	---	---	---	PASS	G	81598257	G	G	81598257	2	3	93	1	0	0	0	0	0	0	0	1	7633	301	11	5		5	IL16	15	81598257	Silent	SNP	A	TCGA-39-5036-01A-01D-1441-08	16683201	81598257	20933135	267	35198										
EFTUD1	79631	broad.mit.edu	37	chr15	82512533	82512533	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgcatgcctttgtcttgcacGctcacgtctctgagcaattt	8	12	3	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:82512533G>A	uc002bgt.1	-	13	1499	c.1330C>T	c.(1330-1332)CGT>TGT	p.R444C	EFTUD1_uc002bgu.1_Missense_Mutation_p.R393C	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	444					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						TGTCTTGCACGCTCACGTCTC	0.498													6	392	---	---	---	---	PASS	A	82512533	A	A	82512533	3	1	93	1	0	0	0	0	1	0	0	0	4960	1087	38	1	2064	1	EFTUD1	15	82512533	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	914276	82512533	20018859	268	35199										
SYNM	23336	broad.mit.edu	37	chr15	99673095	99673095	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agctttaaggcctctgctggGgaaggagaccaggcccacag	14	11	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:99673095G>T	uc002bup.2	+	6	4650	c.4530G>T	c.(4528-4530)GGG>GGT	p.G1510G	SYNM_uc002buo.2_Silent_p.G1198G|SYNM_uc002buq.2_RNA	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	1510	Tail.|Interaction with DMD and UTRN.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						CCTCTGCTGGGGAAGGAGACC	0.562													22	76	---	---	---	---	PASS	T	99673095	T	T	99673095	2	4	93	1	0	0	0	0	0	0	0	1	15452	1219	43	3		3	SYNM	15	99673095	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	17160562	99673095	2858297	269	35200										
ADAMTS17	170691	broad.mit.edu	37	chr15	100871105	100871105	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccgactcacctgttagaaccTtgcagagctgctcaggtctc	9	14	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:100871105T>C	uc002bvv.1	-	3	684	c.605A>G	c.(604-606)AAG>AGG	p.K202R	ADAMTS17_uc002bvx.1_5'UTR	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	202	Cysteine switch (By similarity).				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		TGTTAGAACCTTGCAGAGCTG	0.567													46	121	---	---	---	---	PASS	C	100871105	C	C	100871105	3	2	93	1	0	0	0	0	1	0	0	0	262	1609	56	5	2762	5	ADAMTS17	15	100871105	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	1198010	100871105	1660287	270	35201										
LRRK1	79705	broad.mit.edu	37	chr15	101562654	101562654	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggaaaagtgcaagctgatgaAgatgatcatcgtgggtcccc	13	8	1	4			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr15:101562654A>C	uc002bwr.2	+	15	2238	c.1919A>C	c.(1918-1920)AAG>ACG	p.K640T	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	640	Roc.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			AAGCTGATGAAGATGATCATC	0.592													38	103	---	---	---	---	PASS	C	101562654	C	C	101562654	3	2	93	1	0	0	0	0	1	0	0	0	9032	72	3	5	1973	5	LRRK1	15	101562654	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	691549	101562654	968738	271	35202										
USP7	7874	broad.mit.edu	37	chr16	9012908	9012908	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctttcgtagctgattcgtgaAaaataacgtctgtagcaggc	10	8	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr16:9012908A>C	uc002czl.2	-	6	899	c.700T>G	c.(700-702)TTC>GTC	p.F234V	USP7_uc010uyk.1_Missense_Mutation_p.F135V|USP7_uc010uyj.1_Missense_Mutation_p.F135V|USP7_uc002czk.2_Missense_Mutation_p.F218V|USP7_uc010uyl.1_RNA	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	234					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TGATTCGTGAAAAATAACGTC	0.463													13	231	---	---	---	---	PASS	C	9012908	C	C	9012908	3	2	93	1	0	0	0	0	1	0	0	0	17085	14	1	5	2712	5	USP7	16	9012908	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08		9012908	81341845	272	35203										
ACSM5	54988	broad.mit.edu	37	chr16	20451694	20451694	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgtttcagaactgccaaagaCggtttctggaaagatccaaa	9	8	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr16:20451694C>G	uc002dhe.2	+	14	1832	c.1685C>G	c.(1684-1686)ACG>AGG	p.T562R		NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	562					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2						CTGCCAAAGACGGTTTCTGGA	0.448													22	55	---	---	---	---	PASS	G	20451694	G	G	20451694	3	3	93	1	0	0	0	0	1	0	0	0	187	536	19	4	1735	4	ACSM5	16	20451694	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	11438786	20451694	69903059	273	35204										
ADCY7	113	broad.mit.edu	37	chr16	50339494	50339494	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cattgaggggctcagctccaCgaggtgaggtctgagacctc	14	11	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr16:50339494C>T	uc002egd.1	+	12	1944	c.1676C>T	c.(1675-1677)ACG>ATG	p.T559M	ADCY7_uc002egc.1_Missense_Mutation_p.T559M	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	559	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	CTCAGCTCCACGAGGTGAGGT	0.607													6	186	---	---	---	---	PASS	T	50339494	T	T	50339494	3	4	93	1	0	0	0	0	1	0	0	0	299	536	19	1	1722	1	ADCY7	16	50339494	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	29887800	50339494	40015259	274	35205										
ADAMTS18	170692	broad.mit.edu	37	chr16	77369733	77369733	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tctgaccacttcgaccaggcGgaccactggccgtggatggg	14	13	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr16:77369733G>T	uc002ffc.3	-	12	2198	c.1779C>A	c.(1777-1779)TCC>TCA	p.S593S	ADAMTS18_uc010chc.1_Silent_p.S181S|ADAMTS18_uc002ffe.1_Silent_p.S289S	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	593	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TCGACCAGGCGGACCACTGGC	0.572													80	200	---	---	---	---	PASS	T	77369733	T	T	77369733	2	4	93	1	0	0	0	0	0	0	0	1	263	1103	39	1		1	ADAMTS18	16	77369733	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	27030239	77369733	12985020	275	35206										
ADAMTS18	170692	broad.mit.edu	37	chr16	77397773	77397773	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aatagtcccatctttaaataGgccagaaacctgttggaaca	7	9	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr16:77397773G>T	uc002ffc.3	-	6	1401	c.982C>A	c.(982-984)CTA>ATA	p.L328I	ADAMTS18_uc010chc.1_5'UTR|ADAMTS18_uc002ffe.1_Missense_Mutation_p.L24I|ADAMTS18_uc010vni.1_RNA	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	328	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TCTTTAAATAGGCCAGAAACC	0.383													25	67	---	---	---	---	PASS	T	77397773	T	T	77397773	3	4	93	1	0	0	0	0	1	0	0	0	263	991	35	3	2755	3	ADAMTS18	16	77397773	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	28040	77397773	12956980	276	35207										
MTHFSD	64779	broad.mit.edu	37	chr16	86565980	86565980	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtctgctggcagcctggttcCggaaggtgctggtgctcacc	15	12	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr16:86565980C>T	uc002fjn.2	-	8	840	c.789G>A	c.(787-789)CCG>CCA	p.P263P	MTHFSD_uc010voo.1_Silent_p.P243P|MTHFSD_uc002fjo.2_Silent_p.P100P|MTHFSD_uc002fjm.2_Silent_p.P262P|MTHFSD_uc010vop.1_Silent_p.P100P|MTHFSD_uc010voq.1_Silent_p.P262P|MTHFSD_uc010vor.1_Silent_p.P263P	NM_001159377	NP_001152849	Q2M296	MTHSD_HUMAN	methenyltetrahydrofolate synthetase domain	263					folic acid-containing compound biosynthetic process		5-formyltetrahydrofolate cyclo-ligase activity|ATP binding|RNA binding				0						AGCCTGGTTCCGGAAGGTGCT	0.637													3	9	---	---	---	---	PASS	T	86565980	T	T	86565980	2	4	93	1	0	0	0	0	0	0	0	1	9933	639	23	1		1	MTHFSD	16	86565980	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	9168207	86565980	3788773	277	35208										
USP6	9098	broad.mit.edu	37	chr17	5074150	5074150	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aaccacagtgaagaagacagCactgatgaccaaagagaaga	10	8	0	7			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr17:5074150C>A	uc002gau.1	+	36	6124	c.3894C>A	c.(3892-3894)AGC>AGA	p.S1298R	USP6_uc002gav.1_Missense_Mutation_p.S1298R|USP6_uc010ckz.1_Missense_Mutation_p.S981R	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	1298					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						AAGAAGACAGCACTGATGACC	0.418			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								4	115	---	---	---	---	PASS	A	5074150	A	A	5074150	3	1	93	1	0	0	0	0	1	0	0	0	17083	709	25	3	4000	3	USP6	17	5074150	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08		5074150	76121060	278	35209										
TP53	7157	broad.mit.edu	37	chr17	7578500	7578501	+	Frame_Shift_Ins	INS	-	T	T													0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtggaatcaacccacagctgINScacagggcaggtcttggcca							TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr17:7578500_7578501insT	uc002gim.2	-	5	623_624	c.429_430insA	c.(427-432)GTGCAGfs	p.V143fs	TP53_uc002gig.1_Frame_Shift_Ins_p.V143fs|TP53_uc002gih.2_Frame_Shift_Ins_p.V143fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Ins_p.V11fs|TP53_uc010cng.1_Frame_Shift_Ins_p.V11fs|TP53_uc002gii.1_Frame_Shift_Ins_p.V11fs|TP53_uc010cnh.1_Frame_Shift_Ins_p.V143fs|TP53_uc010cni.1_Frame_Shift_Ins_p.V143fs|TP53_uc002gij.2_Frame_Shift_Ins_p.V143fs|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Frame_Shift_Ins_p.V50fs|TP53_uc002gio.2_Frame_Shift_Ins_p.V11fs|TP53_uc010vug.1_Frame_Shift_Ins_p.V104fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	143_144	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Q -> P (in sporadic cancers; somatic mutation).|Q -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Q -> R (in sporadic cancers; somatic mutation).|Q -> H (in sporadic cancers; somatic mutation).|Q -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Q144*(29)|p.V143M(16)|p.V143A(14)|p.0?(7)|p.V143L(4)|p.V143E(4)|p.Q144fs*26(3)|p.Q144K(2)|p.V143V(2)|p.V143fs*27(2)|p.Q144_G154del11(1)|p.L137_W146del10(1)|p.V143fs*29(1)|p.Q144del(1)|p.Q144fs*32(1)|p.A138_V143delAKTCPV(1)|p.V143G(1)|p.P142_Q144delPVQ(1)|p.Q144fs*4(1)|p.V143_S149del(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)		ACCCACAGCTGCACAGGGCAGG	0.594		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)			28	39	---	---	---	---		T	7578501	T	T	7578500	7	5	93	1	0	1	1	0	0	0	0	0	16378	1328	46	0	868	0	TP53	17	7578500	Frame_Shift_Ins	INS	-	TCGA-39-5036-01A-01D-1441-08	2504350	7578500	73616710	279	35210										
MYH8	4626	broad.mit.edu	37	chr17	10296178	10296178	+	Frame_Shift_Del	DEL	C	-	-													0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agtttctggatctgcttcttCccacccttcagcgccagctg							TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr17:10296178delC	uc002gmm.2	-	37	5528	c.5433delG	c.(5431-5433)GGGfs	p.G1811fs	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1811	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TCTGCTTCTTCCCACCCTTCA	0.567									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				85	77	---	---	---	---		-	10296178	-	-	10296178	7	5	93	1	0	1	0	1	0	0	0	0	10041	842	30	0	396	0	MYH8	17	10296178	Frame_Shift_Del	DEL	C	TCGA-39-5036-01A-01D-1441-08	2717678	10296178	70899032	280	35211										
MYOCD	93649	broad.mit.edu	37	chr17	12656437	12656437	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcaactccagcctcttggaaAtgctcattgtgtggagtcct	9	11	3	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr17:12656437A>G	uc002gnn.2	+	10	2131	c.1832A>G	c.(1831-1833)AAT>AGT	p.N611S	MYOCD_uc002gno.2_Missense_Mutation_p.N611S|MYOCD_uc002gnp.1_Missense_Mutation_p.N515S|MYOCD_uc002gnq.2_Missense_Mutation_p.N330S	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	611					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CCTCTTGGAAATGCTCATTGT	0.512													10	194	---	---	---	---	PASS	G	12656437	G	G	12656437	3	3	93	1	0	0	0	0	1	0	0	0	10087	101	4	5	1870	5	MYOCD	17	12656437	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	2360259	12656437	68538773	281	35212										
SLC13A2	9058	broad.mit.edu	37	chr17	26817738	26817738	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggctaatcctgggcttcatgCtggtcacggccttcctgtcc	11	14	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr17:26817738C>A	uc002hbh.2	+	4	455	c.388C>A	c.(388-390)CTG>ATG	p.L130M	SLC13A2_uc010wal.1_Missense_Mutation_p.L87M|SLC13A2_uc010wam.1_Missense_Mutation_p.L86M|SLC13A2_uc010wan.1_Missense_Mutation_p.L179M|SLC13A2_uc010wao.1_Missense_Mutation_p.L87M|SLC13A2_uc002hbi.2_Missense_Mutation_p.L59M	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	130	Helical; (Potential).					integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	GGGCTTCATGCTGGTCACGGC	0.592													55	33	---	---	---	---	PASS	A	26817738	A	A	26817738	3	1	93	1	0	0	0	0	1	0	0	0	14392	796	28	3	549	3	SLC13A2	17	26817738	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	14161301	26817738	54377472	282	35213										
KRT222	125113	broad.mit.edu	37	chr17	38812817	38812817	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gagaaacagactttttcctcAatcgagggttatctttaaag	8	7	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr17:38812817A>T	uc002hvc.2	-	6	790	c.725T>A	c.(724-726)TTG>TAG	p.L242*	KRT222_uc010wfk.1_RNA|KRT222_uc002hvb.2_Nonsense_Mutation_p.L202*	NM_152349	NP_689562	Q8N1A0	KT222_HUMAN	truncated type I keratin KA21	242						intermediate filament	structural molecule activity			central_nervous_system(1)|skin(1)	2						CTTTTTCCTCAATCGAGGGTT	0.343													67	52	---	---	---	---	PASS	T	38812817	T	T	38812817	4	4	93	1	0	0	0	0	0	1	0	0	8459	131	5	5	166	5	KRT222	17	38812817	Nonsense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	11995079	38812817	42382393	283	35214										
NSF	4905	broad.mit.edu	37	chr17	44782198	44782198	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gagaggagacttccttgcttCtttggagaatgatatcaaac	10	7	2	4			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr17:44782198C>T	uc002iku.2	+	13	1552	c.1448C>T	c.(1447-1449)TCT>TTT	p.S483F	NSF_uc010wke.1_Missense_Mutation_p.S389F|NSF_uc010wkf.1_Missense_Mutation_p.S389F|NSF_uc010wkg.1_Missense_Mutation_p.S478F	NM_006178	NP_006169	P46459	NSF_HUMAN	vesicle-fusing ATPase	483					protein transport|synaptic transmission	cytosol	ATP binding|metal ion binding			ovary(1)	1		Melanoma(429;0.203)	BRCA - Breast invasive adenocarcinoma(9;0.0257)	BRCA - Breast invasive adenocarcinoma(366;0.241)		TTCCTTGCTTCTTTGGAGAAT	0.383													9	73	---	---	---	---	PASS	T	44782198	T	T	44782198	3	4	93	1	0	0	0	0	1	0	0	0	10671	913	32	2	1498	2	NSF	17	44782198	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	5969381	44782198	36413012	284	35215										
UTP18	51096	broad.mit.edu	37	chr17	49337958	49337958	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	acctaacgatgccgccggagCggaggagacgaatgaaactg	14	10	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr17:49337958C>A	uc002its.2	+	1	62	c.13C>A	c.(13-15)CGG>AGG	p.R5R	MBTD1_uc002itr.3_5'Flank|MBTD1_uc002itq.3_5'Flank	NM_016001	NP_057085	Q9Y5J1	UTP18_HUMAN	UTP18, small subunit processome component	5					rRNA processing	nucleolus					0			BRCA - Breast invasive adenocarcinoma(22;2.09e-07)			GCCGCCGGAGCGGAGGAGACG	0.701													15	11	---	---	---	---	PASS	A	49337958	A	A	49337958	2	1	93	1	0	0	0	0	0	0	0	1	17095	759	27	1		1	UTP18	17	49337958	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	4555760	49337958	31857252	285	35216										
RNF43	54894	broad.mit.edu	37	chr17	56435317	56435317	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gtgggttagagagccgccccGaaggggctgctgagttggat	18	8	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr17:56435317G>A	uc002iwf.2	-	8	3776	c.1820C>T	c.(1819-1821)TCG>TTG	p.S607L	RNF43_uc010wnv.1_Missense_Mutation_p.S566L|RNF43_uc002iwh.3_Missense_Mutation_p.S607L|RNF43_uc002iwg.3_Missense_Mutation_p.S607L|RNF43_uc010dcw.2_Missense_Mutation_p.S480L	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	607	Pro-rich.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GAGCCGCCCCGAAGGGGCTGC	0.647													13	151	---	---	---	---	PASS	A	56435317	A	A	56435317	3	1	93	1	0	0	0	0	1	0	0	0	13495	1059	37	2	539	2	RNF43	17	56435317	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	7097359	56435317	24759893	286	35217										
SDK2	54549	broad.mit.edu	37	chr17	71391524	71391524	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcccattgtattccatctccGggagaggctgcagcggggca	13	12	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr17:71391524G>A	uc010dfm.2	-	25	3362	c.3362C>T	c.(3361-3363)CCG>CTG	p.P1121L	SDK2_uc002jjt.3_Missense_Mutation_p.P280L|SDK2_uc010dfn.2_Missense_Mutation_p.P800L	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1121	Extracellular (Potential).|Fibronectin type-III 6.				cell adhesion	integral to membrane				ovary(2)	2						TTCCATCTCCGGGAGAGGCTG	0.632													13	57	---	---	---	---	PASS	A	71391524	A	A	71391524	3	1	93	1	0	0	0	0	1	0	0	0	13969	1116	39	1	3240	1	SDK2	17	71391524	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	14956207	71391524	9803686	287	35218										
UNC13D	201294	broad.mit.edu	37	chr17	73827393	73827393	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gaggcggccgcctccaccagCactgtgagtgtgtgggtcca	15	13	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr17:73827393C>T	uc002jpp.2	-	26	2864	c.2484G>A	c.(2482-2484)GTG>GTA	p.V828V	UNC13D_uc010wsk.1_Silent_p.V828V|UNC13D_uc002jpq.1_3'UTR	NM_199242	NP_954712	Q70J99	UN13D_HUMAN	unc-13 homolog D	828	MHD2.				positive regulation of exocytosis|regulation of mast cell degranulation	exocytic vesicle|late endosome|lysosome|membrane|recycling endosome	protein binding			upper_aerodigestive_tract(1)|skin(1)	2			all cancers(21;2.11e-06)|Epithelial(20;2.32e-06)|BRCA - Breast invasive adenocarcinoma(9;0.000618)|LUSC - Lung squamous cell carcinoma(166;0.154)			CCTCCACCAGCACTGTGAGTG	0.652									Familial_Hemophagocytic_Lymphohistiocytosis				10	39	---	---	---	---	PASS	T	73827393	T	T	73827393	2	4	93	1	0	0	0	0	0	0	0	1	16984	697	25	3		3	UNC13D	17	73827393	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	2435869	73827393	7367817	288	35219										
MYO5B	4645	broad.mit.edu	37	chr18	47527731	47527731	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	catacttggctgataccgtcTtcccggctccagactcccca	7	17	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr18:47527731T>C	uc002leb.2	-	5	794	c.506A>G	c.(505-507)AAG>AGG	p.K169R	MYO5B_uc002lec.1_Missense_Mutation_p.K168R	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	169	Myosin head-like.|ATP (Potential).				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		TGATACCGTCTTCCCGGCTCC	0.522													3	165	---	---	---	---	PASS	C	47527731	C	C	47527731	3	2	93	1	0	0	0	0	1	0	0	0	10079	1609	56	5	5184	5	MYO5B	18	47527731	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08		47527731	30549517	289	35220										
DCC	1630	broad.mit.edu	37	chr18	50589827	50589827	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctagtgattattttcagataGtggtaattattttgtttcat	7	3	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr18:50589827G>T	uc002lfe.1	+	6	1725	c.1138G>T	c.(1138-1140)GTG>TTG	p.V380L	DCC_uc010xdr.1_Missense_Mutation_p.V228L|DCC_uc010dpf.1_Missense_Mutation_p.V35L	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	380	Extracellular (Potential).|Ig-like C2-type 4.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TTTTCAGATAGTGGTAATTAT	0.313													51	63	---	---	---	---	PASS	T	50589827	T	T	50589827	3	4	93	1	0	0	0	0	1	0	0	0	4282	1029	36	3	1160	3	DCC	18	50589827	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	3062096	50589827	27487421	290	35221										
CDH19	28513	broad.mit.edu	37	chr18	64235678	64235678	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ggagacatctctggtacaatGgcctcataaggttcatctag	10	9	4	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr18:64235678G>T	uc002lkc.1	-	3	603	c.465C>A	c.(463-465)GCC>GCA	p.A155A	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Silent_p.A155A|CDH19_uc002lkd.2_Silent_p.A155A	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	155	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				CTGGTACAATGGCCTCATAAG	0.363													19	107	---	---	---	---	PASS	T	64235678	T	T	64235678	2	4	93	1	0	0	0	0	0	0	0	1	3104	1335	47	3		3	CDH19	18	64235678	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	13645851	64235678	13841570	291	35222										
DSEL	92126	broad.mit.edu	37	chr18	65179558	65179558	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	atccaaaggggaaaataatcCtatcatgtcttacaggcttt	7	8	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr18:65179558C>A	uc002lke.1	-	2	3542	c.2318G>T	c.(2317-2319)AGG>ATG	p.R773M		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	763						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				GAAAATAATCCTATCATGTCT	0.383													10	100	---	---	---	---	PASS	A	65179558	A	A	65179558	3	1	93	1	0	0	0	0	1	0	0	0	4775	681	24	3	1354	3	DSEL	18	65179558	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	943880	65179558	12897690	292	35223										
ZNF236	7776	broad.mit.edu	37	chr18	74620433	74620433	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aggtggtcgcagcgaaccccGaggccatgctggacctggag	16	12	0	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr18:74620433G>A	uc002lmi.2	+	14	2647	c.2449G>A	c.(2449-2451)GAG>AAG	p.E817K	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	817					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		AGCGAACCCCGAGGCCATGCT	0.627													5	60	---	---	---	---	PASS	A	74620433	A	A	74620433	3	1	93	1	0	0	0	0	1	0	0	0	17786	1059	37	2	2503	2	ZNF236	18	74620433	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	9440875	74620433	3456815	293	35224										
FUT5	2527	broad.mit.edu	37	chr19	5867525	5867525	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcagtagggtggggtgggcaGgggtcgccatgctgtcctgg	20	8	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:5867525G>T	uc002mdo.3	-	2	300	c.212C>A	c.(211-213)CCT>CAT	p.P71H	FUT5_uc010duo.2_Missense_Mutation_p.P71H	NM_002034	NP_002025	Q11128	FUT5_HUMAN	fucosyltransferase 5	71	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity|alpha(1,3)-fucosyltransferase activity				0						GGGGTGGGCAGGGGTCGCCAT	0.667													10	75	---	---	---	---	PASS	T	5867525	T	T	5867525	3	4	93	1	0	0	0	0	1	0	0	0	6107	1000	35	3	916	3	FUT5	19	5867525	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08		5867525	53261458	294	35225										
CLEC4M	10332	broad.mit.edu	37	chr19	7831639	7831639	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aactggcacgactccgtcacCgcctgccaggaagtgagggc	13	14	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:7831639C>G	uc002mih.2	+	6	931	c.813C>G	c.(811-813)ACC>ACG	p.T271T	CLEC4M_uc010xjv.1_3'UTR|CLEC4M_uc002mhy.2_3'UTR|CLEC4M_uc010xjw.1_Silent_p.T227T|CLEC4M_uc010dvt.2_Silent_p.T248T|CLEC4M_uc010dvs.2_Silent_p.T270T|CLEC4M_uc010xjx.1_Silent_p.T243T|CLEC4M_uc002mhz.2_Silent_p.T202T|CLEC4M_uc002mic.2_Silent_p.T266T|CLEC4M_uc002mia.2_Silent_p.T158T	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	294	Extracellular (Probable).|C-type lectin.				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						ACTCCGTCACCGCCTGCCAGG	0.592													34	84	---	---	---	---	PASS	G	7831639	G	G	7831639	2	3	93	1	0	0	0	0	0	0	0	1	3518	639	23	4		4	CLEC4M	19	7831639	Silent	SNP	C	TCGA-39-5036-01A-01D-1441-08	1964114	7831639	51297344	295	35226										
MUC16	94025	broad.mit.edu	37	chr19	9003659	9003659	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aggttagtgatggtaaaattGagggtgaatggcagcaggac	16	3	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:9003659G>T	uc002mkp.2	-	49	40185	c.39981C>A	c.(39979-39981)CTC>CTA	p.L13327L	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.L144L|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13329	Extracellular (Potential).|SEA 9.				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						TGGTAAAATTGAGGGTGAATG	0.473													55	110	---	---	---	---	PASS	T	9003659	T	T	9003659	2	4	93	1	0	0	0	0	0	0	0	1	9973	1277	45	2		2	MUC16	19	9003659	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08	1172020	9003659	50125324	296	35227										
KEAP1	9817	broad.mit.edu	37	chr19	10602310	10602310	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cgccgacggcatagatgtggCcatcgatgacccccaccccg	11	17	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:10602310C>A	uc002moq.1	-	3	1424	c.1268G>T	c.(1267-1269)GGC>GTC	p.G423V	KEAP1_uc002mop.1_Missense_Mutation_p.G141V|KEAP1_uc002mor.1_Missense_Mutation_p.G423V	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	423	Kelch 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			ATAGATGTGGCCATCGATGAC	0.667													5	4	---	---	---	---	PASS	A	10602310	A	A	10602310	3	1	93	1	0	0	0	0	1	0	0	0	8141	739	26	3	622	3	KEAP1	19	10602310	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	1598651	10602310	48526673	297	35228										
CYP4F12	66002	broad.mit.edu	37	chr19	15807756	15807756	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gttcgccatggcggagatgaAagtggtcctggcgttgatgc	16	8	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:15807756A>C	uc002nbl.2	+	13	1497	c.1436A>C	c.(1435-1437)AAA>ACA	p.K479T		NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					GCGGAGATGAAAGTGGTCCTG	0.627													26	30	---	---	---	---	PASS	C	15807756	C	C	15807756	3	2	93	1	0	0	0	0	1	0	0	0	4187	14	1	5	1482	5	CYP4F12	19	15807756	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	5205446	15807756	43321227	298	35229										
ZNF536	9745	broad.mit.edu	37	chr19	31038928	31038928	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	aaaataccacttagagcgacAccatcgggagcggcagaacg	11	11	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:31038928A>C	uc002nsu.1	+	4	2540	c.2402A>C	c.(2401-2403)CAC>CCC	p.H801P	ZNF536_uc010edd.1_Missense_Mutation_p.H801P	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	801	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TTAGAGCGACACCATCGGGAG	0.517													53	67	---	---	---	---	PASS	C	31038928	C	C	31038928	3	2	93	1	0	0	0	0	1	0	0	0	17971	159	6	5	2412	5	ZNF536	19	31038928	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	15231172	31038928	28090055	299	35230										
WTIP	126374	broad.mit.edu	37	chr19	34981323	34981323	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tggcatctacggagcccagcAggcgtgccaggcaatgggga	16	11	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:34981323A>T	uc002nvm.2	+	2	710	c.710A>T	c.(709-711)CAG>CTG	p.Q237L		NM_001080436	NP_001073905			Wilms tumor 1 interacting protein												0	all_lung(56;5.94e-07)|Lung NSC(56;9.35e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			GGAGCCCAGCAGGCGTGCCAG	0.592													11	106	---	---	---	---	PASS	T	34981323	T	T	34981323	3	4	93	1	0	0	0	0	1	0	0	0	17407	188	7	5	716	5	WTIP	19	34981323	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	3942395	34981323	24147660	300	35231										
FFAR2	2867	broad.mit.edu	37	chr19	35940862	35940862	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tacctgcccaaggtcgtctgCgccctcacgagttttggctt	10	14	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:35940862C>A	uc002nzg.2	+	2	326	c.246C>A	c.(244-246)TGC>TGA	p.C82*	FFAR2_uc010eea.2_Nonsense_Mutation_p.C82*	NM_005306	NP_005297	O15552	FFAR2_HUMAN	free fatty acid receptor 2	82	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			AGGTCGTCTGCGCCCTCACGA	0.627													4	33	---	---	---	---	PASS	A	35940862	A	A	35940862	4	1	93	1	0	0	0	0	0	1	0	0	5828	776	27	1	248	1	FFAR2	19	35940862	Nonsense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	959539	35940862	23188121	301	35232										
SPTBN4	57731	broad.mit.edu	37	chr19	41077929	41077929	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	catcttgtcgctccaggtcgTgggtgagcctgtactgtgtg	14	10	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:41077929T>G	uc002ony.2	+	34	7410	c.7324T>G	c.(7324-7326)TGG>GGG	p.W2442G	SPTBN4_uc002onz.2_Missense_Mutation_p.W2442G|SPTBN4_uc010egx.2_Missense_Mutation_p.W1185G	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	2442	PH.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CTCCAGGTCGTGGGTGAGCCT	0.567													10	640	---	---	---	---	PASS	G	41077929	G	G	41077929	3	3	93	1	0	0	0	0	1	0	0	0	15120	1696	59	5	7548	5	SPTBN4	19	41077929	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	5137067	41077929	18051054	302	35233										
ZNF235	9310	broad.mit.edu	37	chr19	44792290	44792290	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agcgtttaccacaatccccaCatttatatggtttctctcca	4	13	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:44792290C>T	uc002oza.3	-	5	1401	c.1298G>A	c.(1297-1299)TGT>TAT	p.C433Y	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF235_uc002ozb.3_Missense_Mutation_p.C429Y|ZNF235_uc010xwx.1_Missense_Mutation_p.C347Y	NM_004234	NP_004225	Q14590	ZN235_HUMAN	zinc finger protein 93 homolog	433	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)	3		Prostate(69;0.0352)|all_neural(266;0.116)				ACAATCCCCACATTTATATGG	0.418													4	98	---	---	---	---	PASS	T	44792290	T	T	44792290	3	4	93	1	0	0	0	0	1	0	0	0	17785	478	17	3	922	3	ZNF235	19	44792290	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	3714361	44792290	14336693	303	35234										
SULT2A1	6822	broad.mit.edu	37	chr19	48389461	48389461	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tttcttaaggtttcggatctGaaacccatagtagggaaagc	10	7	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:48389461G>C	uc002phr.2	-	1	194	c.54C>G	c.(52-54)TTC>TTG	p.F18L		NM_003167	NP_003158	Q06520	ST2A1_HUMAN	bile-salt sulfotransferase 2A1	18					3'-phosphoadenosine 5'-phosphosulfate metabolic process|bile acid catabolic process|cellular lipid metabolic process|digestion|sulfation|xenobiotic metabolic process	cytosol	bile-salt sulfotransferase activity			ovary(1)|pancreas(1)	2		all_cancers(25;3.02e-09)|all_lung(116;6.48e-07)|all_epithelial(76;7.35e-07)|Lung NSC(112;1.56e-06)|all_neural(266;0.0146)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000254)|all cancers(93;0.000545)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.0552)		TTTCGGATCTGAAACCCATAG	0.428													75	87	---	---	---	---	PASS	C	48389461	C	C	48389461	3	2	93	1	0	0	0	0	1	0	0	0	15378	1281	45	2	827	2	SULT2A1	19	48389461	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	3597171	48389461	10739522	304	35235										
CCDC114	93233	broad.mit.edu	37	chr19	48800667	48800667	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	caccaggacggtactggagcCggccctctgggtgctggcca	15	14	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:48800667C>T	uc002pir.2	-	14	2262	c.1579G>A	c.(1579-1581)GGC>AGC	p.G527S	CCDC114_uc002piq.2_Missense_Mutation_p.G336S|CCDC114_uc002pio.2_3'UTR	NM_144577	NP_653178	Q96M63	CC114_HUMAN	coiled-coil domain containing 114 isoform 2	527										ovary(1)	1		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000162)|Epithelial(262;0.0134)|GBM - Glioblastoma multiforme(486;0.0143)		GTACTGGAGCCGGCCCTCTGG	0.697													3	69	---	---	---	---	PASS	T	48800667	T	T	48800667	3	4	93	1	0	0	0	0	1	0	0	0	2751	652	23	1	437	1	CCDC114	19	48800667	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	411206	48800667	10328316	305	35236										
FPR3	2359	broad.mit.edu	37	chr19	52327500	52327500	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	atttcatcttctggactacaAtaagtactacgaatggggac	8	8	3	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:52327500A>G	uc002pxt.1	+	2	683	c.499A>G	c.(499-501)ATA>GTA	p.I167V		NM_002030	NP_002021	P25089	FPR3_HUMAN	formyl peptide receptor-like 2	167	Extracellular (Potential).				cellular component movement|chemotaxis	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(4)|breast(1)|skin(1)	6						CTGGACTACAATAAGTACTAC	0.458													53	121	---	---	---	---	PASS	G	52327500	G	G	52327500	3	3	93	1	0	0	0	0	1	0	0	0	6040	101	4	5	501	5	FPR3	19	52327500	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	3526833	52327500	6801483	306	35237										
ZNF578	147660	broad.mit.edu	37	chr19	53007938	53007938	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ctttcagggatgtggctataGaattctcattggcagagtgg	13	6	2	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:53007938G>C	uc002pzp.3	+	5	338	c.94G>C	c.(94-96)GAA>CAA	p.E32Q		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	Error:Variant_position_missing_in_Q96N58_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		TGTGGCTATAGAATTCTCATT	0.448													17	142	---	---	---	---	PASS	C	53007938	C	C	53007938	3	2	93	1	0	0	0	0	1	0	0	0	18007	943	33	2	100	2	ZNF578	19	53007938	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	680438	53007938	6121045	307	35238										
LILRA2	11027	broad.mit.edu	37	chr19	55085379	55085379	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcacggtcctgatctgtctcGgtgagatttgaagagggagg	15	7	3	4			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:55085379G>C	uc002qgg.3	+	1	123	c.34G>C	c.(34-36)GGG>CGG	p.G12R	LILRA2_uc010ern.2_Missense_Mutation_p.G12R|LILRA2_uc002qgf.2_Missense_Mutation_p.G12R|LILRA2_uc010yfe.1_Missense_Mutation_p.G12R|LILRA2_uc010yff.1_Missense_Mutation_p.G12R|LILRA2_uc010ero.2_Missense_Mutation_p.G12R|LILRA2_uc010yfg.1_Missense_Mutation_p.G12R	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	12					defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		GATCTGTCTCGGTGAGATTTG	0.602													69	80	---	---	---	---	PASS	C	55085379	C	C	55085379	3	2	93	1	0	0	0	0	1	0	0	0	8785	1130	39	4	36	4	LILRA2	19	55085379	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	2077441	55085379	4043604	308	35239										
NCR1	9437	broad.mit.edu	37	chr19	55418050	55418050	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ccccctgagcggattaacaaAgtcaaattctacatcccgga	7	13	2	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr19:55418050A>G	uc002qib.2	+	3	278	c.240A>G	c.(238-240)AAA>AAG	p.K80K	NCR1_uc002qic.2_Silent_p.K80K|NCR1_uc002qie.2_Silent_p.K80K|NCR1_uc002qid.2_Intron|NCR1_uc002qif.2_Intron|NCR1_uc010esj.2_Intron	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1	80	Ig-like 1.|Extracellular (Potential).				cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		GGATTAACAAAGTCAAATTCT	0.522													6	88	---	---	---	---	PASS	G	55418050	G	G	55418050	2	3	93	1	0	0	0	0	0	0	0	1	10237	69	3	5		5	NCR1	19	55418050	Silent	SNP	A	TCGA-39-5036-01A-01D-1441-08	332671	55418050	3710933	309	35240										
NSFL1C	55968	broad.mit.edu	37	chr20	1435635	1435635	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cggtttactggtctctccagGgctcttggtcactcgctcca	10	14	3	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr20:1435635G>C	uc002wfc.2	-	4	1369	c.421C>G	c.(421-423)CCT>GCT	p.P141A	NSFL1C_uc002wfd.2_Missense_Mutation_p.P30A|NSFL1C_uc002wfe.2_Missense_Mutation_p.P141A|NSFL1C_uc002wff.2_RNA|NSFL1C_uc010gag.2_5'Flank	NM_016143	NP_057227	Q9UNZ2	NSF1C_HUMAN	p47 protein isoform a	141						chromosome|Golgi stack|nucleus	lipid binding|protein binding				0						GTCTCTCCAGGGCTCTTGGTC	0.532													89	295	---	---	---	---	PASS	C	1435635	C	C	1435635	3	2	93	1	0	0	0	0	1	0	0	0	10672	1232	43	4	715	4	NSFL1C	20	1435635	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08		1435635	61589885	310	35241										
ACSS1	84532	broad.mit.edu	37	chr20	24988512	24988512	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agctcctgggcctcactagtGatgatcttcctcaggagccg	11	13	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr20:24988512G>C	uc002wub.2	-	14	2834	c.1956C>G	c.(1954-1956)ATC>ATG	p.I652M	ACSS1_uc002wuc.2_Missense_Mutation_p.I650M|ACSS1_uc010gdc.2_Missense_Mutation_p.I447M|ACSS1_uc002wud.1_RNA|ACSS1_uc002wua.2_Missense_Mutation_p.I569M	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	652					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CCTCACTAGTGATGATCTTCC	0.557													16	141	---	---	---	---	PASS	C	24988512	C	C	24988512	3	2	93	1	0	0	0	0	1	0	0	0	188	1280	45	2	117	2	ACSS1	20	24988512	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	23552877	24988512	38037008	311	35242										
KIAA1755	85449	broad.mit.edu	37	chr20	36870243	36870243	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	caccctggcgcaataagagaGggttgaggggtgccaagtgg	17	8	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr20:36870243G>T	uc002xhy.1	-	3	562	c.290C>A	c.(289-291)CCT>CAT	p.P97H	KIAA1755_uc002xhz.1_Missense_Mutation_p.P97H	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	97										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				CAATAAGAGAGGGTTGAGGGG	0.562													17	207	---	---	---	---	PASS	T	36870243	T	T	36870243	3	4	93	1	0	0	0	0	1	0	0	0	8257	1000	35	3	3360	3	KIAA1755	20	36870243	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	11881731	36870243	26155277	312	35243										
CHD6	84181	broad.mit.edu	37	chr20	40080585	40080585	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cacagtacaccaggagggcaCggcaaatcatctccatgtcc	9	14	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr20:40080585C>T	uc002xka.1	-	22	3582	c.3404G>A	c.(3403-3405)CGT>CAT	p.R1135H		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1135					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				CAGGAGGGCACGGCAAATCAT	0.517													4	186	---	---	---	---	PASS	T	40080585	T	T	40080585	3	4	93	1	0	0	0	0	1	0	0	0	3329	536	19	1	4807	1	CHD6	20	40080585	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	3210342	40080585	22944935	313	35244										
DIDO1	11083	broad.mit.edu	37	chr20	61537362	61537362	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttccttcccgagtgcttcacTccgcgcagggaccaccactg	9	17	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr20:61537362T>C	uc002ydr.1	-	6	1729	c.1465A>G	c.(1465-1467)AGT>GGT	p.S489G	DIDO1_uc002yds.1_Missense_Mutation_p.S489G|DIDO1_uc002ydt.1_Missense_Mutation_p.S489G|DIDO1_uc002ydu.1_Missense_Mutation_p.S489G|DIDO1_uc002ydv.1_Missense_Mutation_p.S489G|DIDO1_uc002ydw.1_Missense_Mutation_p.S489G|DIDO1_uc002ydx.1_Missense_Mutation_p.S489G|DIDO1_uc011aao.1_Missense_Mutation_p.S489G	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	489					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					AGTGCTTCACTCCGCGCAGGG	0.517													50	184	---	---	---	---	PASS	C	61537362	C	C	61537362	3	2	93	1	0	0	0	0	1	0	0	0	4522	1551	54	5	5431	5	DIDO1	20	61537362	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	21456777	61537362	1488158	314	35245										
PTK6	5753	broad.mit.edu	37	chr20	62165629	62165629	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gcagccggcccccggcacgcCgccagatcttgtagtgccgc	13	18	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr20:62165629C>G	uc002yfg.2	-	3	432	c.392G>C	c.(391-393)CGG>CCG	p.R131P	PTK6_uc011aay.1_Missense_Mutation_p.R30P|PTK6_uc011aaz.1_5'Flank|PTK6_uc011aba.1_3'UTR	NM_005975	NP_005966	Q13882	PTK6_HUMAN	PTK6 protein tyrosine kinase 6	131	SH2.					cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity	p.R131L(1)		stomach(1)|kidney(1)	2	all_cancers(38;2.51e-11)		Epithelial(9;1.5e-08)|all cancers(9;8.67e-08)|BRCA - Breast invasive adenocarcinoma(10;6.43e-06)			CCCGGCACGCCGCCAGATCTT	0.692													4	26	---	---	---	---	PASS	G	62165629	G	G	62165629	3	3	93	1	0	0	0	0	1	0	0	0	12764	652	23	4	987	4	PTK6	20	62165629	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	628267	62165629	859891	315	35246										
HLCS	3141	broad.mit.edu	37	chr21	38311131	38311131	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	acattttctaaagttacttaCacacaatcttttggggtacc	5	9	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr21:38311131C>T	uc010gnb.2	-	3	1253	c.52_splice	c.e3+1	p.S18_splice	HLCS_uc002yvs.2_Splice_Site_p.S18_splice|HLCS_uc010gnc.1_Splice_Site_p.S165_splice	NM_000411	NP_000402	P50747	BPL1_HUMAN	holocarboxylase synthetase						cell proliferation|histone biotinylation|response to biotin	chromatin|cytosol|mitochondrion|nuclear lamina|nuclear matrix	ATP binding|biotin binding|biotin-[acetyl-CoA-carboxylase] ligase activity|biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity|biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity|biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity|enzyme binding			ovary(2)|breast(1)|kidney(1)|liver(1)	5		Myeloproliferative disorder(46;0.0422)			Biotin(DB00121)	AAGTTACTTACACACAATCTT	0.264													39	55	---	---	---	---	PASS	T	38311131	T	T	38311131	5	4	93	1	0	0	0	0	0	0	1	0	7213	492	17	3	2163	3	HLCS	21	38311131	Splice_Site	SNP	C	TCGA-39-5036-01A-01D-1441-08		38311131	9818764	316	35247										
GGT5	2687	broad.mit.edu	37	chr22	24620982	24620982	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	acctggctgaagttgggctcGtactccacacagcccttgct	10	14	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr22:24620982G>A	uc002zzo.3	-	11	2013	c.1596C>T	c.(1594-1596)TAC>TAT	p.Y532Y	GGT5_uc002zzp.3_Silent_p.Y533Y|GGT5_uc002zzr.3_Silent_p.Y500Y|GGT5_uc002zzq.3_Silent_p.Y500Y|GGT5_uc011ajm.1_Silent_p.Y456Y	NM_004121	NP_004112	P36269	GGT5_HUMAN	gamma-glutamyltransferase 5 isoform b	532	Extracellular (Potential).				glutathione biosynthetic process|hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	integral to membrane|plasma membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(2)|skin(1)	3						AGTTGGGCTCGTACTCCACAC	0.607													4	29	---	---	---	---	PASS	A	24620982	A	A	24620982	2	1	93	1	0	0	0	0	0	0	0	1	6362	1140	40	1		1	GGT5	22	24620982	Silent	SNP	G	TCGA-39-5036-01A-01D-1441-08		24620982	26683584	317	35248										
GGT5	2687	broad.mit.edu	37	chr22	24621612	24621612	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tccgtggtgaatacaccatcGctccaaagctgcagccgtgg	11	13	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr22:24621612G>A	uc002zzo.3	-	9	1655	c.1238C>T	c.(1237-1239)GCG>GTG	p.A413V	GGT5_uc002zzp.3_Missense_Mutation_p.A413V|GGT5_uc002zzr.3_Missense_Mutation_p.A381V|GGT5_uc002zzq.3_Missense_Mutation_p.A381V|GGT5_uc011ajm.1_Missense_Mutation_p.A336V	NM_004121	NP_004112	P36269	GGT5_HUMAN	gamma-glutamyltransferase 5 isoform b	413	Extracellular (Potential).				glutathione biosynthetic process|hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	integral to membrane|plasma membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(2)|skin(1)	3						ATACACCATCGCTCCAAAGCT	0.627													4	44	---	---	---	---	PASS	A	24621612	A	A	24621612	3	1	93	1	0	0	0	0	1	0	0	0	6362	1087	38	1	541	1	GGT5	22	24621612	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	630	24621612	26682954	318	35249										
PIWIL3	440822	broad.mit.edu	37	chr22	25145726	25145726	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tgtacccgttaggcccttttTccatctgccctggctgacca	8	15	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr22:25145726T>A	uc003abd.1	-	10	1567	c.1150A>T	c.(1150-1152)AAA>TAA	p.K384*	PIWIL3_uc011ajx.1_Nonsense_Mutation_p.K275*|PIWIL3_uc011ajy.1_Nonsense_Mutation_p.K275*|PIWIL3_uc010gut.1_Nonsense_Mutation_p.K384*	NM_001008496	NP_001008496	Q7Z3Z3	PIWL3_HUMAN	piwi-like 3	384	PAZ.				cell differentiation|gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatogenesis	cytoplasm	RNA binding			ovary(3)|central_nervous_system(1)	4						AGGCCCTTTTTCCATCTGCCC	0.468													10	68	---	---	---	---	PASS	A	25145726	A	A	25145726	4	1	93	1	0	0	0	0	0	1	0	0	11959	1792	62	5	1546	5	PIWIL3	22	25145726	Nonsense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	524114	25145726	26158840	319	35250										
MYO18B	84700	broad.mit.edu	37	chr22	26164833	26164833	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gccccaaatccctgggagaaAgtggggaggtttcctgggaa	15	9	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr22:26164833A>T	uc003abz.1	+	4	1200	c.950A>T	c.(949-951)AAG>ATG	p.K317M	MYO18B_uc003aca.1_Missense_Mutation_p.K198M|MYO18B_uc010guy.1_Missense_Mutation_p.K198M|MYO18B_uc010guz.1_Missense_Mutation_p.K198M|MYO18B_uc011aka.1_Translation_Start_Site|MYO18B_uc011akb.1_5'Flank	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	317						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CCTGGGAGAAAGTGGGGAGGT	0.532													5	39	---	---	---	---	PASS	T	26164833	T	T	26164833	3	4	93	1	0	0	0	0	1	0	0	0	10066	72	3	5	960	5	MYO18B	22	26164833	Missense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	1019107	26164833	25139733	320	35251										
DEPDC5	9681	broad.mit.edu	37	chr22	32229905	32229905	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttttatctttccataggtatGaatcctaggacccagaataa	6	8	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr22:32229905G>T	uc003als.2	+	25	2251	c.2109G>T	c.(2107-2109)ATG>ATT	p.M703I	DEPDC5_uc011als.1_Missense_Mutation_p.M625I|DEPDC5_uc011alu.1_Missense_Mutation_p.M703I|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.M703I|DEPDC5_uc003alu.2_Missense_Mutation_p.M143I|DEPDC5_uc003alv.2_RNA|DEPDC5_uc011alw.1_Missense_Mutation_p.M24I|DEPDC5_uc003alw.2_Missense_Mutation_p.M1I|DEPDC5_uc011alx.1_5'UTR|DEPDC5_uc011alt.1_Missense_Mutation_p.M597I	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	703					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						CCATAGGTATGAATCCTAGGA	0.448													125	293	---	---	---	---	PASS	T	32229905	T	T	32229905	3	4	93	1	0	0	0	0	1	0	0	0	4442	1290	45	2	2221	2	DEPDC5	22	32229905	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	6065072	32229905	19074661	321	35252										
BPIL2	254240	broad.mit.edu	37	chr22	32831696	32831696	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gttaactctcctcacctcttCggtggagagagtgacattga	10	10	3	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chr22:32831696C>T	uc003amn.2	-	8	919	c.919G>A	c.(919-921)GAA>AAA	p.E307K	BPIL2_uc010gwo.2_Missense_Mutation_p.E121K|BPIL2_uc011amb.1_Missense_Mutation_p.E31K	NM_174932	NP_777592	Q8NFQ6	BPIL2_HUMAN	bactericidal/permeability-increasing	307						extracellular region	lipopolysaccharide binding|phospholipid binding			ovary(1)|skin(1)	2						CTCACCTCTTCGGTGGAGAGA	0.418													6	74	---	---	---	---	PASS	T	32831696	T	T	32831696	3	4	93	1	0	0	0	0	1	0	0	0	1492	893	31	2	636	2	BPIL2	22	32831696	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	601791	32831696	18472870	322	35253										
MXRA5	25878	broad.mit.edu	37	chrX	3238837	3238837	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gggaagttacaaagtatctgGaagcgctttgtgtggacatt	13	5	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:3238837G>T	uc004crg.3	-	5	5046	c.4889C>A	c.(4888-4890)TCC>TAC	p.S1630Y		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1630						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				AAAGTATCTGGAAGCGCTTTG	0.473													127	62	---	---	---	---	PASS	T	3238837	T	T	3238837	3	4	93	1	0	0	0	0	1	0	0	0	10003	1174	41	2	3609	2	MXRA5	23	3238837	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08		3238837	152031723	323	35254										
DMD	1756	broad.mit.edu	37	chrX	31198492	31198492	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tggcgtcaaacttaccggagTgcaatattccaccatgggat	10	10	1	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:31198492T>C	uc004dda.1	-	69	10325	c.10081A>G	c.(10081-10083)ACT>GCT	p.T3361A	DMD_uc004dcq.1_Missense_Mutation_p.T632A|DMD_uc004dcr.1_Missense_Mutation_p.T901A|DMD_uc004dcs.1_Missense_Mutation_p.T901A|DMD_uc004dct.1_Missense_Mutation_p.T901A|DMD_uc004dcu.1_Missense_Mutation_p.T901A|DMD_uc004dcv.1_Missense_Mutation_p.T901A|DMD_uc004dcw.2_Missense_Mutation_p.T2017A|DMD_uc004dcx.2_Missense_Mutation_p.T2020A|DMD_uc004dcz.2_Missense_Mutation_p.T3238A|DMD_uc004dcy.1_Missense_Mutation_p.T3357A|DMD_uc004ddb.1_Missense_Mutation_p.T3353A|DMD_uc004dcm.1_Missense_Mutation_p.T293A|DMD_uc004dcn.1_Missense_Mutation_p.T293A|DMD_uc004dco.1_Missense_Mutation_p.T293A|DMD_uc004dcp.1_Missense_Mutation_p.T293A|DMD_uc011mkb.1_Missense_Mutation_p.T293A|DMD_uc010ngm.2_Missense_Mutation_p.T293A	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3361	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTTACCGGAGTGCAATATTCC	0.408													3	71	---	---	---	---	PASS	C	31198492	C	C	31198492	3	2	93	1	0	0	0	0	1	0	0	0	4580	1696	59	5	1110	5	DMD	23	31198492	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	27959655	31198492	124072068	324	35255										
HEPH	9843	broad.mit.edu	37	chrX	65423283	65423283	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tctataatgtctcccagtgtCctggccaccaagccacccct	6	17	2	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:65423283C>A	uc011moz.1	+	13	2224	c.2164C>A	c.(2164-2166)CCT>ACT	p.P722T	HEPH_uc004dwn.2_Missense_Mutation_p.P722T|HEPH_uc004dwo.2_Missense_Mutation_p.P452T|HEPH_uc010nkr.2_Missense_Mutation_p.P530T|HEPH_uc011mpa.1_Missense_Mutation_p.P722T|HEPH_uc010nks.2_Missense_Mutation_p.P11T	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	719	Extracellular (Potential).				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						CTCCCAGTGTCCTGGCCACCA	0.522													24	20	---	---	---	---	PASS	A	65423283	A	A	65423283	3	1	93	1	0	0	0	0	1	0	0	0	7054	855	30	2	2367	2	HEPH	23	65423283	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	34224791	65423283	89847277	325	35256										
TAF1	6872	broad.mit.edu	37	chrX	70598702	70598702	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gaaacttgaggaaaacaatgGcactgatcttctggctgatg	11	7	2	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:70598702G>A	uc004dzu.3	+	8	1229	c.1178G>A	c.(1177-1179)GGC>GAC	p.G393D	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.G414D	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	393	Protein kinase 1.				G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				GAAAACAATGGCACTGATCTT	0.438													68	42	---	---	---	---	PASS	A	70598702	A	A	70598702	3	1	93	1	0	0	0	0	1	0	0	0	15510	1203	42	3	1271	3	TAF1	23	70598702	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	5175419	70598702	84671858	326	35257										
NAP1L2	4674	broad.mit.edu	37	chrX	72433991	72433991	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tttgaagctttttaagggctAacacacggtacttaactttc	7	8	0	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:72433991A>T	uc004ebi.2	-	1	694	c.338T>A	c.(337-339)TTA>TAA	p.L113*	NAP1L2_uc011mqj.1_5'UTR	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	113					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					TTTAAGGGCTAACACACGGTA	0.403													52	25	---	---	---	---	PASS	T	72433991	T	T	72433991	4	4	93	1	0	0	0	0	0	1	0	0	10157	372	13	5	1048	5	NAP1L2	23	72433991	Nonsense_Mutation	SNP	A	TCGA-39-5036-01A-01D-1441-08	1835289	72433991	82836569	327	35258										
MAGEE2	139599	broad.mit.edu	37	chrX	75004382	75004382	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tggcatgtccagggactccgCtatcctatcggtgatctgga	12	11	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:75004382C>G	uc004ecj.1	-	1	690	c.505G>C	c.(505-507)GCG>CCG	p.A169P		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	169	MAGE 1.									ovary(1)|skin(1)	2						AGGGACTCCGCTATCCTATCG	0.522													3	20	---	---	---	---	PASS	G	75004382	G	G	75004382	3	3	93	1	0	0	0	0	1	0	0	0	9186	797	28	4	1070	4	MAGEE2	23	75004382	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	2570391	75004382	80266178	328	35259										
HDX	139324	broad.mit.edu	37	chrX	83724452	83724452	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gatgtccaagaagactgctgGcttgagggtcgagcaatatt	13	7	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:83724452G>C	uc004eek.1	-	3	388	c.279C>G	c.(277-279)AGC>AGG	p.S93R	HDX_uc011mqv.1_Missense_Mutation_p.S93R|HDX_uc004eel.1_Missense_Mutation_p.S35R	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	93						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						AAGACTGCTGGCTTGAGGGTC	0.428													6	66	---	---	---	---	PASS	C	83724452	C	C	83724452	3	2	93	1	0	0	0	0	1	0	0	0	7026	1194	42	4	1825	4	HDX	23	83724452	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	8720070	83724452	71546108	329	35260										
NXF5	55998	broad.mit.edu	37	chrX	101095855	101095855	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	cagtttgttgttgcacaagtTcaaagacaacagctttgggt	10	7	1	1			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:101095855T>A	uc011mrk.1	-	9	853	c.493A>T	c.(493-495)AAC>TAC	p.N165Y	NXF5_uc004eih.1_RNA|NXF5_uc004eii.1_Intron|NXF5_uc004eij.1_RNA|NXF5_uc004eik.1_RNA|NXF5_uc004eil.1_RNA	NM_032946	NP_116564	Q9H1B4	NXF5_HUMAN	nuclear RNA export factor 5	165	LRR 1.				mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nucleus	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						TTGCACAAGTTCAAAGACAAC	0.478													40	26	---	---	---	---	PASS	A	101095855	A	A	101095855	3	1	93	1	0	0	0	0	1	0	0	0	10786	1783	62	5	636	5	NXF5	23	101095855	Missense_Mutation	SNP	T	TCGA-39-5036-01A-01D-1441-08	17371403	101095855	54174705	330	35261										
GPRASP2	114928	broad.mit.edu	37	chrX	101970974	101970974	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttattgggtcctggttctggGcagaaaaagaggccagtttg	14	6	1	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:101970974G>C	uc004ejk.2	+	4	2511	c.1177G>C	c.(1177-1179)GCA>CCA	p.A393P	GPRASP2_uc004ejl.2_Missense_Mutation_p.A393P|GPRASP2_uc004ejm.2_Missense_Mutation_p.A393P|GPRASP2_uc011mrp.1_5'Flank	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	393						cytoplasm	protein binding			ovary(1)	1						CTGGTTCTGGGCAGAAAAAGA	0.527													6	84	---	---	---	---	PASS	C	101970974	C	C	101970974	3	2	93	1	0	0	0	0	1	0	0	0	6723	1203	42	4	1179	4	GPRASP2	23	101970974	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	875119	101970974	53299586	331	35262										
GRIA3	2892	broad.mit.edu	37	chrX	122532572	122532572	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gcagcgagtagatgtgtcccGgagaggaagtgctggagact	17	7	0	3			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:122532572G>A	uc004etq.3	+	8	1291	c.998G>A	c.(997-999)CGG>CAG	p.R333Q	GRIA3_uc004etr.3_Missense_Mutation_p.R333Q|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.R317Q	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	333	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	GATGTGTCCCGGAGAGGAAGT	0.483													7	39	---	---	---	---	PASS	A	122532572	A	A	122532572	3	1	93	1	0	0	0	0	1	0	0	0	6769	1116	39	1	1024	1	GRIA3	23	122532572	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	20561598	122532572	32737988	332	35263										
ODZ1	10178	broad.mit.edu	37	chrX	124097425	124097425	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttctttcctctttctactctGgctattgtaattcatcctca	3	12	6	0			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:124097425G>A	uc004euj.2	-	1	242	c.178C>T	c.(178-180)CAG>TAG	p.Q60*	ODZ1_uc011muj.1_Nonsense_Mutation_p.Q60*|ODZ1_uc010nqy.2_Nonsense_Mutation_p.Q60*	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	60	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TTTCTACTCTGGCTATTGTAA	0.373													117	77	---	---	---	---	PASS	A	124097425	A	A	124097425	4	1	93	1	0	0	0	0	0	1	0	0	10834	1357	47	3	8148	3	ODZ1	23	124097425	Nonsense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	1564853	124097425	31173135	333	35264										
USP26	83844	broad.mit.edu	37	chrX	132160305	132160305	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	gctaacggttctttttcaatGaatgctcgatctcctgagta	8	9	3	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:132160305G>C	uc010nrm.1	-	6	2414	c.1944C>G	c.(1942-1944)TTC>TTG	p.F648L	USP26_uc011mvf.1_Missense_Mutation_p.F648L	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	648					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					CTTTTTCAATGAATGCTCGAT	0.433													11	82	---	---	---	---	PASS	C	132160305	C	C	132160305	3	2	93	1	0	0	0	0	1	0	0	0	17054	1281	45	2	800	2	USP26	23	132160305	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	8062880	132160305	23110255	334	35265										
GPR112	139378	broad.mit.edu	37	chrX	135429362	135429362	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	tcatgtgatctcaactacgtCtacaccagaagcaactcaac	5	13	4	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:135429362C>A	uc004ezu.1	+	6	3788	c.3497C>A	c.(3496-3498)TCT>TAT	p.S1166Y	GPR112_uc010nsb.1_Missense_Mutation_p.S961Y|GPR112_uc010nsc.1_Missense_Mutation_p.S933Y	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1166	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TCAACTACGTCTACACCAGAA	0.478													119	45	---	---	---	---	PASS	A	135429362	A	A	135429362	3	1	93	1	0	0	0	0	1	0	0	0	6629	913	32	2	3507	2	GPR112	23	135429362	Missense_Mutation	SNP	C	TCGA-39-5036-01A-01D-1441-08	3269057	135429362	19841198	335	35266										
CXorf66	347487	broad.mit.edu	37	chrX	139047576	139047576	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	ttaggcacctacctgtagtaGaagatccattggtttggttt	10	7	0	2			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:139047576G>C	uc004fbb.2	-	1	102	c.80C>G	c.(79-81)TCT>TGT	p.S27C		NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor	27	Extracellular (Potential).					integral to membrane					0						ACCTGTAGTAGAAGATCCATT	0.328													18	124	---	---	---	---	PASS	C	139047576	C	C	139047576	3	2	93	1	0	0	0	0	1	0	0	0	4118	942	33	2	1017	2	CXorf66	23	139047576	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	3618214	139047576	16222984	336	35267										
GDI1	2664	broad.mit.edu	37	chrX	153669525	153669525	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107784431137725	36	0.00145236605428263	1.73916490486258	2.93725628376791	1.19457791445106	0.831028064785003	1	15	agaacggcaaggtggtgggcGtgaagtctgagggagaggtg	21	4	1	4			TCGA-39-5036-01A-01D-1441-08	TCGA-39-5036-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	a1aa5fba-f179-4777-8d49-345a366d12fa	26d2b643-1b11-4be8-a2f2-fb8855f4768b	g.chrX:153669525G>A	uc004fli.3	+	7	1144	c.802G>A	c.(802-804)GTG>ATG	p.V268M	GDI1_uc011mzo.1_3'UTR|GDI1_uc004flj.2_5'Flank|FAM50A_uc004fll.3_5'Flank	NM_001493	NP_001484	P31150	GDIA_HUMAN	GDP dissociation inhibitor 1	268					protein transport|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|midbody	GTPase activator activity|protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGTGGTGGGCGTGAAGTCTGA	0.557													11	68	---	---	---	---	PASS	A	153669525	A	A	153669525	3	1	93	1	0	0	0	0	1	0	0	0	6320	1145	40	1	828	1	GDI1	23	153669525	Missense_Mutation	SNP	G	TCGA-39-5036-01A-01D-1441-08	14621949	153669525	1601035	337	35268										
CCDC27	148870	broad.mit.edu	37	chr1	3670758	3670758	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aagggtcttccccacgcatcCtgactgcccccagttcagca	8	17	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:3670758C>A	uc001akv.2	+	2	476	c.395C>A	c.(394-396)CCT>CAT	p.P132H		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	132										skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		CCCACGCATCCTGACTGCCCC	0.602													93	94	---	---	---	---	PASS	A	3670758	A	A	3670758	3	1	94	1	0	0	0	0	1	0	0	0	2801	681	24	3	401	3	CCDC27	1	3670758	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08		3670758	245579863	1	35269										
PIK3CD	5293	broad.mit.edu	37	chr1	9782144	9782144	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acttgtgcatgcggcaggagGcctacctagaggccctctcc	12	14	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:9782144G>A	uc001aqb.3	+	17	2375	c.2167G>A	c.(2167-2169)GCC>ACC	p.A723T	PIK3CD_uc010oaf.1_Missense_Mutation_p.A722T|PIK3CD_uc001aqe.3_Missense_Mutation_p.A747T	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	723					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		GCGGCAGGAGGCCTACCTAGA	0.622											OREG0013082	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	40	---	---	---	---	PASS	A	9782144	A	A	9782144	3	1	94	1	0	0	0	0	1	0	0	0	11915	1203	42	3	2225	3	PIK3CD	1	9782144	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	6111386	9782144	239468477	2	35270										
PTCHD2	57540	broad.mit.edu	37	chr1	11562836	11562836	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ccctcctgcgcagtgagatcCtgtttggagcacccctgccc	10	17	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:11562836C>A	uc001ash.3	+	3	1336	c.1198C>A	c.(1198-1200)CTG>ATG	p.L400M	PTCHD2_uc001asi.1_Missense_Mutation_p.L400M	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	400	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CAGTGAGATCCTGTTTGGAGC	0.562													47	38	---	---	---	---	PASS	A	11562836	A	A	11562836	3	1	94	1	0	0	0	0	1	0	0	0	12733	680	24	3	1204	3	PTCHD2	1	11562836	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	1780692	11562836	237687785	3	35271										
ARID1A	8289	broad.mit.edu	37	chr1	27106599	27106599	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctcgccaacatctcggggcaGttggacctatctccataccc	8	16	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:27106599G>T	uc001bmv.1	+	20	6583	c.6210G>T	c.(6208-6210)CAG>CAT	p.Q2070H	ARID1A_uc001bmu.1_Missense_Mutation_p.Q1853H|ARID1A_uc001bmx.1_Missense_Mutation_p.Q916H|ARID1A_uc009vsm.1_Missense_Mutation_p.Q398H|ARID1A_uc009vsn.1_Missense_Mutation_p.Q312H	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2070					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)		TCTCGGGGCAGTTGGACCTAT	0.572			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								57	52	---	---	---	---	PASS	T	27106599	T	T	27106599	3	4	94	1	0	0	0	0	1	0	0	0	913	1020	36	3	6288	3	ARID1A	1	27106599	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	15543763	27106599	222144022	4	35272										
KIAA0494	9813	broad.mit.edu	37	chr1	47150268	47150268	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tacctgagaatttgaactatCttctttctgcacaaaacaaa	4	9	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:47150268C>G	uc001cqk.3	-	9	2058	c.1081G>C	c.(1081-1083)GAT>CAT	p.D361H	KIAA0494_uc010omh.1_Missense_Mutation_p.D297H|KIAA0494_uc010omj.1_Missense_Mutation_p.D153H|KIAA0494_uc001cql.1_Missense_Mutation_p.D361H	NM_014774	NP_055589	O75071	K0494_HUMAN	hypothetical protein LOC9813	361							calcium ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TTTGAACTATCTTCTTTCTGC	0.343													3	86	---	---	---	---	PASS	G	47150268	G	G	47150268	3	3	94	1	0	0	0	0	1	0	0	0	8179	913	32	2	418	2	KIAA0494	1	47150268	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	20043669	47150268	202100353	5	35273										
ASB17	127247	broad.mit.edu	37	chr1	76397808	76397808	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aaaaccatccaagtccacatAcctcagaatttttgccagtg	5	12	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:76397808A>G	uc001dhe.1	-	1	309	c.169T>C	c.(169-171)TAT>CAT	p.Y57H	ASB17_uc001dhf.1_RNA	NM_080868	NP_543144	Q8WXJ9	ASB17_HUMAN	ankyrin repeat and SOCS box-containing 17	57					intracellular signal transduction					ovary(1)	1						AAGTCCACATACCTCAGAATT	0.398													50	36	---	---	---	---	PASS	G	76397808	G	G	76397808	3	3	94	1	0	0	0	0	1	0	0	0	1021	391	14	5	730	5	ASB17	1	76397808	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	29247540	76397808	172852813	6	35274										
LPAR3	23566	broad.mit.edu	37	chr1	85331494	85331494	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtccagaagcccctgacggaGaaaccagcggttgacagtca	12	12	1	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:85331494G>A	uc001dkl.2	-	1	349	c.310C>T	c.(310-312)CTC>TTC	p.L104F	LPAR3_uc009wcj.1_Missense_Mutation_p.L104F	NM_012152	NP_036284	Q9UBY5	LPAR3_HUMAN	lysophosphatidic acid receptor 3	104	Helical; Name=3; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane|intracellular membrane-bounded organelle				lung(3)|ovary(2)	5						CCCTGACGGAGAAACCAGCGG	0.493													110	85	---	---	---	---	PASS	A	85331494	A	A	85331494	3	1	94	1	0	0	0	0	1	0	0	0	8906	942	33	2	759	2	LPAR3	1	85331494	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	8933686	85331494	163919127	7	35275										
EVI5	7813	broad.mit.edu	37	chr1	93163484	93163484	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tacttggtttaaaaagttcaCgaagtctataatcttgcatt	6	6	3	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:93163484C>A	uc001dox.2	-	6	840	c.830G>T	c.(829-831)CGT>CTT	p.R277L	EVI5_uc010otf.1_Missense_Mutation_p.R277L	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	277	Dimerization.|Interaction with alpha-tubulin, gamma- tubulin, BIRC5 and FBXO5.|Rab-GAP TBC.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		AAAAAGTTCACGAAGTCTATA	0.328													76	58	---	---	---	---	PASS	A	93163484	A	A	93163484	3	1	94	1	0	0	0	0	1	0	0	0	5289	536	19	1	1654	1	EVI5	1	93163484	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	7831990	93163484	156087137	8	35276										
NUP210L	91181	broad.mit.edu	37	chr1	154067592	154067592	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	caaataccatttccttcacaGactgccatgtcaccaatgcc	4	15	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:154067592G>T	uc001fdw.2	-	15	2078	c.2006C>A	c.(2005-2007)TCT>TAT	p.S669Y	NUP210L_uc009woq.2_Translation_Start_Site|NUP210L_uc010peh.1_Missense_Mutation_p.S669Y	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	669						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TTCCTTCACAGACTGCCATGT	0.403													18	83	---	---	---	---	PASS	T	154067592	T	T	154067592	3	4	94	1	0	0	0	0	1	0	0	0	10761	942	33	2	3764	2	NUP210L	1	154067592	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	60904108	154067592	95183029	9	35277										
HDGF	3068	broad.mit.edu	37	chr1	156713634	156713634	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgcctccttctcctctccttCagggttttctgcctccttgg	7	16	4	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:156713634C>T	uc001fpy.3	-	5	848	c.526G>A	c.(526-528)GAA>AAA	p.E176K	MRPL24_uc001fpw.1_5'Flank|MRPL24_uc001fpx.1_5'Flank|HDGF_uc009wsd.2_Missense_Mutation_p.E144K|HDGF_uc001fpz.3_Missense_Mutation_p.E169K|HDGF_uc009wse.2_Missense_Mutation_p.E192K|HDGF_uc010phr.1_Missense_Mutation_p.E199K|HDGF_uc009wsf.2_Missense_Mutation_p.E144K|HDGF_uc009wsg.2_Missense_Mutation_p.E176K	NM_004494	NP_004485	P51858	HDGF_HUMAN	hepatoma-derived growth factor isoform a	176	Glu-rich.				cell proliferation|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus	DNA binding|growth factor activity|heparin binding|nucleotide binding			lung(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)	Breast(1374;0.198)		Colorectal(1306;0.018)		TCCTCTCCTTCAGGGTTTTCT	0.612													6	97	---	---	---	---	PASS	T	156713634	T	T	156713634	3	4	94	1	0	0	0	0	1	0	0	0	7018	835	29	2	204	2	HDGF	1	156713634	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	2646042	156713634	92536987	10	35278										
OR10R2	343406	broad.mit.edu	37	chr1	158450081	158450081	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgcctgctattgggtgtgatGggttatgatcgctatgctgc	14	7	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:158450081G>T	uc010pik.1	+	1	414	c.414G>T	c.(412-414)ATG>ATT	p.M138I	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	138	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					TGGGTGTGATGGGTTATGATC	0.483													74	495	---	---	---	---	PASS	T	158450081	T	T	158450081	3	4	94	1	0	0	0	0	1	0	0	0	10917	1348	47	3	416	3	OR10R2	1	158450081	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	1736447	158450081	90800540	11	35279										
PAPPA2	60676	broad.mit.edu	37	chr1	176679237	176679237	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggatacttggatcaatgggcTacccgggcttactcctctca	10	12	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:176679237T>G	uc001gkz.2	+	11	4740	c.3576T>G	c.(3574-3576)GCT>GCG	p.A1192A	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1192					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						ATCAATGGGCTACCCGGGCTT	0.443													96	61	---	---	---	---	PASS	G	176679237	G	G	176679237	2	3	94	1	0	0	0	0	0	0	0	1	11433	1509	53	5		5	PAPPA2	1	176679237	Silent	SNP	T	TCGA-39-5037-01A-01D-1441-08	18229156	176679237	72571384	12	35280										
RASAL2	9462	broad.mit.edu	37	chr1	178427316	178427316	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agtaacagtgaagacttcaaGctcagtggacccagcaatag	10	9	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:178427316G>A	uc001glr.2	+	12	2591	c.2466G>A	c.(2464-2466)AAG>AAA	p.K822K	RASAL2_uc001glq.2_Silent_p.K963K|RASAL2_uc009wxc.2_Silent_p.K336K	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	822					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						AAGACTTCAAGCTCAGTGGAC	0.483													80	76	---	---	---	---	PASS	A	178427316	A	A	178427316	2	1	94	1	0	0	0	0	0	0	0	1	13064	962	34	3		3	RASAL2	1	178427316	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	1748079	178427316	70823305	13	35281										
CACNA1S	779	broad.mit.edu	37	chr1	201047035	201047035	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cttgaagatcctcaggaggcGgatgcagcggagcacggaga	16	9	1	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:201047035G>A	uc001gvv.2	-	11	1818	c.1591C>T	c.(1591-1593)CGC>TGC	p.R531C		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	531	II.|Helical; Name=S4 of repeat II; (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	CTCAGGAGGCGGATGCAGCGG	0.647													4	68	---	---	---	---	PASS	A	201047035	A	A	201047035	3	1	94	1	0	0	0	0	1	0	0	0	2547	1116	39	1	4166	1	CACNA1S	1	201047035	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	22619719	201047035	48203586	14	35282										
LRRN2	10446	broad.mit.edu	37	chr1	204588718	204588718	+	Frame_Shift_Del	DEL	G	-	-													0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggccagccctgcaaagctgtGgtcctccagccgggtcagct							TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:204588718delG	uc001hbe.1	-	3	791	c.403delC	c.(403-405)CACfs	p.H135fs	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Frame_Shift_Del_p.H135fs|LRRN2_uc009xbf.1_Frame_Shift_Del_p.H135fs|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	135	LRR 3.|Extracellular (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			GCAAAGCTGTGGTCCTCCAGC	0.597													152	116	---	---	---	---		-	204588718	-	-	204588718	7	5	94	1	0	1	0	1	0	0	0	0	9035	1348	47	0	1742	0	LRRN2	1	204588718	Frame_Shift_Del	DEL	G	TCGA-39-5037-01A-01D-1441-08	3541683	204588718	44661903	15	35283										
FAIM3	9214	broad.mit.edu	37	chr1	207087143	207087143	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gactttctgggtctttccccGgtctgtgttcatgcccgctc	10	14	4	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:207087143G>T	uc001hey.2	-	2	513	c.334C>A	c.(334-336)CGG>AGG	p.R112R	FAIM3_uc010prz.1_Intron|FAIM3_uc010psa.1_Intron|FAIM3_uc010psb.1_Silent_p.R112R	NM_005449	NP_005440	O60667	FAIM3_HUMAN	Fas apoptotic inhibitory molecule 3 isoform a	112	Extracellular (Potential).				anti-apoptosis|cellular defense response	integral to membrane				central_nervous_system(1)	1	Breast(84;0.201)					GTCTTTCCCCGGTCTGTGTTC	0.517													73	89	---	---	---	---	PASS	T	207087143	T	T	207087143	2	4	94	1	0	0	0	0	0	0	0	1	5377	1115	39	1		1	FAIM3	1	207087143	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	2498425	207087143	42163478	16	35284										
RYR2	6262	broad.mit.edu	37	chr1	237532900	237532900	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tattgctgcgccattcctatAgtggcatggtgagtaggcat	12	8	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:237532900A>G	uc001hyl.1	+	6	496	c.376A>G	c.(376-378)AGT>GGT	p.S126G		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	126	Cytoplasmic (By similarity).|MIR 1.				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)			CCATTCCTATAGTGGCATGGT	0.413													5	4	---	---	---	---	PASS	G	237532900	G	G	237532900	3	3	94	1	0	0	0	0	1	0	0	0	13769	420	15	5	398	5	RYR2	1	237532900	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	30445757	237532900	11717721	17	35285										
RYR2	6262	broad.mit.edu	37	chr1	237936851	237936851	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgacttttattggtattactCtgggaaagatgttattgatg	10	3	1	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:237936851C>A	uc001hyl.1	+	87	11798	c.11678C>A	c.(11677-11679)TCT>TAT	p.S3893Y	RYR2_uc010pya.1_Missense_Mutation_p.S308Y	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3893					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)			TGGTATTACTCTGGGAAAGAT	0.333													18	69	---	---	---	---	PASS	A	237936851	A	A	237936851	3	1	94	1	0	0	0	0	1	0	0	0	13769	913	32	2	12024	2	RYR2	1	237936851	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	403951	237936851	11313770	18	35286										
MAP1LC3C	440738	broad.mit.edu	37	chr1	242159552	242159552	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ccaaatgtctcctgggaggcGtaggtcatgtacacgaagcc	12	11	2	0	rs147920150	byFrequency	TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:242159552G>A	uc001hzk.2	-	4	432	c.357C>T	c.(355-357)TAC>TAT	p.Y119Y		NM_001004343	NP_001004343	Q9BXW4	MLP3C_HUMAN	microtubule-associated protein 1 light chain 3	119					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule	protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CCTGGGAGGCGTAGGTCATGT	0.562													6	176	---	---	---	---	PASS	A	242159552	A	A	242159552	2	1	94	1	0	0	0	0	0	0	0	1	9233	1140	40	1		1	MAP1LC3C	1	242159552	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	4222701	242159552	7091069	19	35287										
OR2M2	391194	broad.mit.edu	37	chr1	248343796	248343796	+	Missense_Mutation	SNP	G	T	T													0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	attttccttctccttttgtgGgtctcgggaaatagcccact							TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:248343796G>T	uc010pzf.1	+	1	509	c.509G>T	c.(508-510)GGG>GTG	p.G170V		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TCCTTTTGTGGGTCTCGGGAA	0.423													98	314	---	---	---	---	PASS	T	248343796	T	T	248343796	3	4	94	1	0	0	0	0	1	0	0	0	11010	1232	43	3	511	3	OR2M2	1	248343796	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	6184244	248343796	906825	20	35288	668	2								
OR2M2	391194	broad.mit.edu	37	chr1	248343797	248343797	+	Silent	SNP	G	T	T													0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ttttccttctccttttgtggGtctcgggaaatagcccactt							TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr1:248343797G>T	uc010pzf.1	+	1	510	c.510G>T	c.(508-510)GGG>GGT	p.G170G		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CCTTTTGTGGGTCTCGGGAAA	0.423													96	315	---	---	---	---	PASS	T	248343797	T	T	248343797	2	4	94	1	0	0	0	0	0	0	0	1	11010	1248	44	3		3	OR2M2	1	248343797	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	1	248343797	906824	21	35289	668	2								
LHCGR	3973	broad.mit.edu	37	chr2	48915452	48915452	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggggcaacatagcaattagaGaagaaaagagccatcctcca	10	9	0	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:48915452G>A	uc002rwu.3	-	11	1554	c.1484C>T	c.(1483-1485)TCT>TTT	p.S495F	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	495	Helical; Name=4; (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	AGCAATTAGAGAAGAAAAGAG	0.438									Familial_Male-Limited_Precocious_Puberty				64	64	---	---	---	---	PASS	A	48915452	A	A	48915452	3	1	94	1	0	0	0	0	1	0	0	0	8762	942	33	2	619	2	LHCGR	2	48915452	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08		48915452	194283921	22	35290										
DYSF	8291	broad.mit.edu	37	chr2	71886131	71886131	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtatctacattgtccgagcaTttggcctgcagcccaaggac	10	12	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:71886131T>C	uc002sie.2	+	43	5138	c.4762T>C	c.(4762-4764)TTT>CTT	p.F1588L	DYSF_uc010feg.2_Missense_Mutation_p.F1619L|DYSF_uc010feh.2_Missense_Mutation_p.F1595L|DYSF_uc002sig.3_Missense_Mutation_p.F1574L|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.F1609L|DYSF_uc010fef.2_Missense_Mutation_p.F1626L|DYSF_uc010fei.2_Missense_Mutation_p.F1605L|DYSF_uc010fek.2_Missense_Mutation_p.F1606L|DYSF_uc010fej.2_Missense_Mutation_p.F1596L|DYSF_uc010fel.2_Missense_Mutation_p.F1575L|DYSF_uc010feo.2_Missense_Mutation_p.F1620L|DYSF_uc010fem.2_Missense_Mutation_p.F1610L|DYSF_uc010fen.2_Missense_Mutation_p.F1627L|DYSF_uc002sif.2_Missense_Mutation_p.F1589L|DYSF_uc010yqy.1_Missense_Mutation_p.F469L|DYSF_uc010yqz.1_Missense_Mutation_p.F349L	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1588	Cytoplasmic (Potential).|C2 5.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						TGTCCGAGCATTTGGCCTGCA	0.592													21	144	---	---	---	---	PASS	C	71886131	C	C	71886131	3	2	94	1	0	0	0	0	1	0	0	0	4859	1493	52	5	5191	5	DYSF	2	71886131	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	22970679	71886131	171313242	23	35291										
REG1B	5968	broad.mit.edu	37	chr2	79313940	79313940	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gctgctctcctcactcacatCtgcatcaacccaggtctcag	6	17	6	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:79313940C>A	uc002sny.2	-	3	293	c.181G>T	c.(181-183)GAT>TAT	p.D61Y	REG1B_uc010ffv.1_Missense_Mutation_p.D61Y|REG1B_uc010ffw.2_Missense_Mutation_p.D61Y	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	61	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						TCACTCACATCTGCATCAACC	0.507													48	142	---	---	---	---	PASS	A	79313940	A	A	79313940	3	1	94	1	0	0	0	0	1	0	0	0	13211	913	32	2	335	2	REG1B	2	79313940	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	7427809	79313940	163885433	24	35292										
TEKT4	150483	broad.mit.edu	37	chr2	95539813	95539813	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gccaccacagccagagcaccGaggtgcaggctcatccgtac	11	16	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:95539813G>A	uc002stw.1	+	3	766	c.673G>A	c.(673-675)GAG>AAG	p.E225K	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	225					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						CCAGAGCACCGAGGTGCAGGC	0.642													61	54	---	---	---	---	PASS	A	95539813	A	A	95539813	3	1	94	1	0	0	0	0	1	0	0	0	15752	1059	37	2	683	2	TEKT4	2	95539813	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	16225873	95539813	147659560	25	35293										
ACTR1B	10120	broad.mit.edu	37	chr2	98275028	98275028	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	atggagtgaggcatggcaaaGccctcatagatgggcacagc	14	9	1	2	rs147014229		TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:98275028G>C	uc002syb.2	-	6	727	c.519C>G	c.(517-519)GGC>GGG	p.G173G		NM_005735	NP_005726	P42025	ACTY_HUMAN	ARP1 actin-related protein 1 homolog B,	173						centrosome|dynactin complex	ATP binding|protein binding			skin(1)	1						GCATGGCAAAGCCCTCATAGA	0.607													5	212	---	---	---	---	PASS	C	98275028	C	C	98275028	2	2	94	1	0	0	0	0	0	0	0	1	210	958	34	4		4	ACTR1B	2	98275028	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	2735215	98275028	144924345	26	35294										
REV1	51455	broad.mit.edu	37	chr2	100065857	100065857	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tttaattctttaattttggcAttgggaagatttgtggcaat	9	3	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:100065857A>T	uc002tad.2	-	4	503	c.291T>A	c.(289-291)AAT>AAA	p.N97K	REV1_uc002tac.2_Missense_Mutation_p.N97K|REV1_uc002tae.1_Missense_Mutation_p.N76K	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	97	BRCT.				DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						TAATTTTGGCATTGGGAAGAT	0.289								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					150	105	---	---	---	---	PASS	T	100065857	T	T	100065857	3	4	94	1	0	0	0	0	1	0	0	0	13239	214	8	5	3544	5	REV1	2	100065857	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	1790829	100065857	143133516	27	35295										
AFF3	3899	broad.mit.edu	37	chr2	100203674	100203674	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	attactggtggaggtggccaGtcttgaagagctgtctttct	13	7	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:100203674G>C	uc002tag.2	-	15	2769	c.2533C>G	c.(2533-2535)CTG>GTG	p.L845V	AFF3_uc002taf.2_Missense_Mutation_p.L870V|AFF3_uc010fiq.1_Missense_Mutation_p.L845V|AFF3_uc010yvr.1_Missense_Mutation_p.L998V|AFF3_uc002tah.1_Missense_Mutation_p.L870V	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	845					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						GAGGTGGCCAGTCTTGAAGAG	0.473													77	315	---	---	---	---	PASS	C	100203674	C	C	100203674	3	2	94	1	0	0	0	0	1	0	0	0	358	1020	36	4	1187	4	AFF3	2	100203674	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	137817	100203674	142995699	28	35296										
IL1R2	7850	broad.mit.edu	37	chr2	102636197	102636197	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggccctggaagatgctggctAttaccgctgtgtcctgacat	12	11	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:102636197A>G	uc002tbm.2	+	5	840	c.611A>G	c.(610-612)TAT>TGT	p.Y204C	IL1R2_uc002tbn.2_Missense_Mutation_p.Y204C|IL1R2_uc002tbo.1_Missense_Mutation_p.Y204C	NM_004633	NP_004624	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II precursor	204	Extracellular (Potential).|Ig-like C2-type 2.				immune response	integral to membrane|plasma membrane	interleukin-1, Type II, blocking receptor activity			ovary(1)|breast(1)	2					Anakinra(DB00026)	GATGCTGGCTATTACCGCTGT	0.458													15	80	---	---	---	---	PASS	G	102636197	G	G	102636197	3	3	94	1	0	0	0	0	1	0	0	0	7659	449	16	5	625	5	IL1R2	2	102636197	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	2432523	102636197	140563176	29	35297										
SLC35F5	80255	broad.mit.edu	37	chr2	114512814	114512814	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acaatcccaagagccattcgCctgcgctgagtgaaaccact	8	14	0	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:114512814C>T	uc002tku.1	-	3	625	c.201G>A	c.(199-201)AGG>AGA	p.R67R	SLC35F5_uc002tkt.2_RNA|SLC35F5_uc002tkv.2_Silent_p.R61R|SLC35F5_uc002tkw.2_Silent_p.R67R	NM_025181	NP_079457	Q8WV83	S35F5_HUMAN	solute carrier family 35, member F5	67					transport	integral to membrane					0						GAGCCATTCGCCTGCGCTGAG	0.413													22	84	---	---	---	---	PASS	T	114512814	T	T	114512814	2	4	94	1	0	0	0	0	0	0	0	1	14592	738	26	3		3	SLC35F5	2	114512814	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	11876617	114512814	128686559	30	35298										
GYPC	2995	broad.mit.edu	37	chr2	127447886	127447886	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	atgcatactaccaccattgcAggtgagttctcatcacagag	8	11	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:127447886A>C	uc002tnq.2	+	2	261	c.105A>C	c.(103-105)GCA>GCC	p.A35A	GYPC_uc002tnr.2_Intron|GYPC_uc010flv.2_RNA	NM_002101	NP_002092	P04921	GLPC_HUMAN	glycophorin C isoform 1	35	Extracellular.					cortical cytoskeleton|integral to plasma membrane	protein binding			central_nervous_system(1)	1	Colorectal(110;0.0533)			BRCA - Breast invasive adenocarcinoma(221;0.075)		CCACCATTGCAGGTGAGTTCT	0.527													62	30	---	---	---	---	PASS	C	127447886	C	C	127447886	2	2	94	1	0	0	0	0	0	0	0	1	6910	202	7	5		5	GYPC	2	127447886	Silent	SNP	A	TCGA-39-5037-01A-01D-1441-08	12935072	127447886	115751487	31	35299										
NCKAP5	344148	broad.mit.edu	37	chr2	133489454	133489454	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cacttcacgttcaagggtttGggctctcatggaagaaactg	11	9	3	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:133489454G>A	uc002ttp.2	-	17	5673	c.5299C>T	c.(5299-5301)CAA>TAA	p.Q1767*	NCKAP5_uc002ttq.2_Nonsense_Mutation_p.Q448*	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1767							protein binding				0						TCAAGGGTTTGGGCTCTCATG	0.592													51	51	---	---	---	---	PASS	A	133489454	A	A	133489454	4	1	94	1	0	0	0	0	0	1	0	0	10223	1357	47	3	446	3	NCKAP5	2	133489454	Nonsense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	6041568	133489454	109709919	32	35300										
SLC4A10	57282	broad.mit.edu	37	chr2	162751258	162751258	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	caggaattgatgagtttctgGatcaggttactgttctccct	10	8	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:162751258G>A	uc002ubx.3	+	11	1448	c.1264G>A	c.(1264-1266)GAT>AAT	p.D422N	SLC4A10_uc010fpa.1_Missense_Mutation_p.D434N|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.D392N|SLC4A10_uc010zcs.1_Missense_Mutation_p.D403N	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	422	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						TGAGTTTCTGGATCAGGTTAC	0.358													15	46	---	---	---	---	PASS	A	162751258	A	A	162751258	3	1	94	1	0	0	0	0	1	0	0	0	14651	1174	41	2	1391	2	SLC4A10	2	162751258	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	29261804	162751258	80448115	33	35301										
SCN2A	6326	broad.mit.edu	37	chr2	166165901	166165901	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gacctgggcaatgtctcagcGttgagaacattcagagttct	11	9	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:166165901G>C	uc002udc.2	+	6	935	c.645G>C	c.(643-645)GCG>GCC	p.A215A	SCN2A_uc002udd.2_Silent_p.A215A|SCN2A_uc002ude.2_Intron	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	215	Helical; Voltage-sensor; Name=S4 of repeat I; (Potential).|I.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ATGTCTCAGCGTTGAGAACAT	0.438													52	52	---	---	---	---	PASS	C	166165901	C	C	166165901	2	2	94	1	0	0	0	0	0	0	0	1	13916	1132	40	4		4	SCN2A	2	166165901	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	3414643	166165901	77033472	34	35302										
CIR1	9541	broad.mit.edu	37	chr2	175213308	175213308	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tctatacaagtctgtgccatGgcttctgctgtcatttcttc	7	11	5	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:175213308G>A	uc002uim.2	-	10	1363	c.1270C>T	c.(1270-1272)CAT>TAT	p.H424Y	CIR1_uc002uin.2_Missense_Mutation_p.H298Y|CIR1_uc002uio.2_Missense_Mutation_p.H251Y|CIR1_uc002uip.2_Missense_Mutation_p.H313Y	NM_004882	NP_004873	Q86X95	CIR1_HUMAN	CBF1 interacting corepressor	424	Arg/Ser-rich (RS domain).				mRNA processing|negative regulation of transcription, DNA-dependent|RNA splicing	nuclear speck	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			large_intestine(1)	1						TCTGTGCCATGGCTTCTGCTG	0.463													165	270	---	---	---	---	PASS	A	175213308	A	A	175213308	3	1	94	1	0	0	0	0	1	0	0	0	3432	1348	47	3	86	3	CIR1	2	175213308	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	9047407	175213308	67986065	35	35303										
WIPF1	7456	broad.mit.edu	37	chr2	175436784	175436784	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgggggtaggcggcaggggaGgccggttggagaagggcgag	25	5	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:175436784G>A	uc002uiy.2	-	6	1081	c.749C>T	c.(748-750)CCT>CTT	p.P250L	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Missense_Mutation_p.P250L|WIPF1_uc010fqt.1_Missense_Mutation_p.P250L|WIPF1_uc002ujc.1_Missense_Mutation_p.P250L|WIPF1_uc002uiz.2_Missense_Mutation_p.P250L|WIPF1_uc002ujb.1_Missense_Mutation_p.P250L|WIPF1_uc010zep.1_Missense_Mutation_p.P250L	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	250					actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						CGGCAGGGGAGGCCGGTTGGA	0.657													9	8	---	---	---	---	PASS	A	175436784	A	A	175436784	3	1	94	1	0	0	0	0	1	0	0	0	17364	1000	35	3	778	3	WIPF1	2	175436784	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	223476	175436784	67762589	36	35304										
TTN	7273	broad.mit.edu	37	chr2	179588322	179588322	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tctggcacctctgaaccagtTgactttgaatggaggggttc	12	9	2	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:179588322T>A	uc010zfg.1	-	71	17997	c.17773A>T	c.(17773-17775)AAC>TAC	p.N5925Y	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.N2586Y	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6852							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)			CTGAACCAGTTGACTTTGAAT	0.418													27	35	---	---	---	---	PASS	A	179588322	A	A	179588322	3	1	94	1	0	0	0	0	1	0	0	0	16732	1812	63	5	83180	5	TTN	2	179588322	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	4151538	179588322	63611051	37	35305										
ZNF804A	91752	broad.mit.edu	37	chr2	185803334	185803334	+	Frame_Shift_Del	DEL	C	-	-													0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aggttaaatttacctttcctCcagctgccctcccaccccct							TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:185803334delC	uc002uph.2	+	4	3805	c.3211delC	c.(3211-3213)CCAfs	p.P1071fs		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	1071						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TACCTTTCCTCCAGCTGCCCT	0.458													100	48	---	---	---	---		-	185803334	-	-	185803334	7	5	94	1	0	1	0	1	0	0	0	0	18167	855	30	0	3225	0	ZNF804A	2	185803334	Frame_Shift_Del	DEL	C	TCGA-39-5037-01A-01D-1441-08	6215012	185803334	57396039	38	35306										
DNAH7	56171	broad.mit.edu	37	chr2	196737067	196737067	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	atgacacgggagaaatcacgGaggttgaacaagtagtgaga	14	5	1	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:196737067G>T	uc002utj.3	-	40	6641	c.6540C>A	c.(6538-6540)CTC>CTA	p.L2180L		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2180	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AGAAATCACGGAGGTTGAACA	0.393													4	137	---	---	---	---	PASS	T	196737067	T	T	196737067	2	4	94	1	0	0	0	0	0	0	0	1	4606	1161	41	2		2	DNAH7	2	196737067	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	10933733	196737067	46462306	39	35307										
DNAH7	56171	broad.mit.edu	37	chr2	196849409	196849409	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agtgctaagagctttttcagCtatcctctcaaattcatcgc	6	11	3	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:196849409C>A	uc002utj.3	-	15	1881	c.1780G>T	c.(1780-1782)GCT>TCT	p.A594S		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	594	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GCTTTTTCAGCTATCCTCTCA	0.308													26	81	---	---	---	---	PASS	A	196849409	A	A	196849409	3	1	94	1	0	0	0	0	1	0	0	0	4606	797	28	3	10498	3	DNAH7	2	196849409	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	112342	196849409	46349964	40	35308										
SATB2	23314	broad.mit.edu	37	chr2	200137310	200137310	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggggctttttggcacaactgTcttcagtcggaggaggtggg	17	7	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:200137310T>C	uc002uuy.1	-	11	2643	c.1826A>G	c.(1825-1827)GAC>GGC	p.D609G	SATB2_uc010fsq.1_Missense_Mutation_p.D491G|SATB2_uc002uuz.1_Missense_Mutation_p.D609G|SATB2_uc002uva.1_Missense_Mutation_p.D609G	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	609						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGCACAACTGTCTTCAGTCGG	0.527													33	109	---	---	---	---	PASS	C	200137310	C	C	200137310	3	2	94	1	0	0	0	0	1	0	0	0	13854	1667	58	5	379	5	SATB2	2	200137310	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	3287901	200137310	43062063	41	35309										
AOX1	316	broad.mit.edu	37	chr2	201521602	201521602	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	catttatcttgatggctctgTgctggtcactcacggtggaa	11	9	4	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:201521602T>C	uc002uvx.2	+	27	3214	c.3113T>C	c.(3112-3114)GTG>GCG	p.V1038A	AOX1_uc010zhf.1_Missense_Mutation_p.V594A|AOX1_uc010fsu.2_Missense_Mutation_p.V404A	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	1038					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	GATGGCTCTGTGCTGGTCACT	0.423													21	59	---	---	---	---	PASS	C	201521602	C	C	201521602	3	2	94	1	0	0	0	0	1	0	0	0	729	1696	59	5	3219	5	AOX1	2	201521602	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	1384292	201521602	41677771	42	35310										
ACADL	33	broad.mit.edu	37	chr2	211082716	211082716	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cccagacaatagctgcggagTacagatcccctccaattcca	7	15	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:211082716T>A	uc002vdz.3	-	3	572	c.344A>T	c.(343-345)TAC>TTC	p.Y115F	ACADL_uc010zjg.1_Missense_Mutation_p.Y115F	NM_001608	NP_001599	P28330	ACADL_HUMAN	long-chain acyl-CoA dehydrogenase precursor	115					carnitine catabolic process|carnitine metabolic process, CoA-linked|fatty acid beta-oxidation using acyl-CoA dehydrogenase|negative regulation of fatty acid biosynthetic process|negative regulation of fatty acid oxidation|regulation of cholesterol metabolic process|temperature homeostasis	mitochondrial matrix	long-chain-acyl-CoA dehydrogenase activity|palmitoyl-CoA oxidase activity				0		Renal(323;0.202)		Epithelial(149;0.00631)|Lung(261;0.0438)|LUSC - Lung squamous cell carcinoma(261;0.0466)|all cancers(144;0.0621)		AGCTGCGGAGTACAGATCCCC	0.438													12	70	---	---	---	---	PASS	A	211082716	A	A	211082716	3	1	94	1	0	0	0	0	1	0	0	0	112	1638	57	5	984	5	ACADL	2	211082716	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	9561114	211082716	32116657	43	35311										
ERBB4	2066	broad.mit.edu	37	chr2	212989624	212989624	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agtttattctccgttcctgcAcacactgcaaagacaagaag	7	11	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:212989624A>T	uc002veg.1	-	2	185	c.87T>A	c.(85-87)TGT>TGA	p.C29*	ERBB4_uc002veh.1_Nonsense_Mutation_p.C29*|ERBB4_uc010zji.1_Nonsense_Mutation_p.C29*|ERBB4_uc010zjj.1_Nonsense_Mutation_p.C29*|ERBB4_uc010fut.1_Nonsense_Mutation_p.C29*	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	29	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CCGTTCCTGCACACACTGCAA	0.423										TSP Lung(8;0.080)			19	19	---	---	---	---	PASS	T	212989624	T	T	212989624	4	4	94	1	0	0	0	0	0	1	0	0	5209	157	6	5	3947	5	ERBB4	2	212989624	Nonsense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	1906908	212989624	30209749	44	35312										
FN1	2335	broad.mit.edu	37	chr2	216274441	216274441	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	caagaggagaaaagggagtcGtctctcctgtcacggtgttg	14	8	2	2	rs144664306		TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:216274441G>A	uc002vfa.2	-	15	2410	c.2144C>T	c.(2143-2145)ACG>ATG	p.T715M	FN1_uc002vfb.2_Missense_Mutation_p.T715M|FN1_uc002vfc.2_Missense_Mutation_p.T715M|FN1_uc002vfd.2_Missense_Mutation_p.T715M|FN1_uc002vfe.2_Missense_Mutation_p.T715M|FN1_uc002vff.2_Missense_Mutation_p.T715M|FN1_uc002vfg.2_Missense_Mutation_p.T715M|FN1_uc002vfh.2_Missense_Mutation_p.T715M|FN1_uc002vfi.2_Missense_Mutation_p.T715M|FN1_uc002vfj.2_Missense_Mutation_p.T715M	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	715					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAAGGGAGTCGTCTCTCCTGT	0.502													11	28	---	---	---	---	PASS	A	216274441	A	A	216274441	3	1	94	1	0	0	0	0	1	0	0	0	5962	1145	40	1	5417	1	FN1	2	216274441	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	3284817	216274441	26924932	45	35313										
ASB18	401036	broad.mit.edu	37	chr2	237149976	237149976	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gccattccatctcatccttaTtgatctcaaacaccacgttg	4	14	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:237149976T>C	uc010znh.1	-	2	275	c.275A>G	c.(274-276)AAT>AGT	p.N92S	ASB18_uc010fyp.1_Missense_Mutation_p.N63S	NM_212556	NP_997721	Q6ZVZ8	ASB18_HUMAN	ankyrin repeat and SOCS box-containing 18	92					intracellular signal transduction					ovary(1)	1		all_hematologic(139;0.00615)|Renal(207;0.00963)|Breast(86;0.0126)|Acute lymphoblastic leukemia(138;0.0815)		Epithelial(121;2.04e-26)|OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(100;2.88e-05)|Lung(119;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00644)|GBM - Glioblastoma multiforme(43;0.244)		CTCATCCTTATTGATCTCAAA	0.498													16	42	---	---	---	---	PASS	C	237149976	C	C	237149976	3	2	94	1	0	0	0	0	1	0	0	0	1022	1493	52	5	1144	5	ASB18	2	237149976	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	20875535	237149976	6049397	46	35314										
GPR35	2859	broad.mit.edu	37	chr2	241569781	241569781	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggcaggctgcggccgtgtgcGcggtcctctgggtgctggtc	19	12	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr2:241569781G>A	uc002vzs.1	+	1	987	c.412G>A	c.(412-414)GCG>ACG	p.A138T	GPR35_uc010fzh.1_Missense_Mutation_p.A169T|GPR35_uc010fzi.1_Missense_Mutation_p.A169T	NM_005301	NP_005292	Q9HC97	GPR35_HUMAN	G protein-coupled receptor 35	138	Helical; Name=4; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(2)|pancreas(1)	3		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;5.29e-32)|all cancers(36;1.38e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.02e-06)|Lung(119;0.00163)|Colorectal(34;0.00463)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.031)		GGCCGTGTGCGCGGTCCTCTG	0.706													8	10	---	---	---	---	PASS	A	241569781	A	A	241569781	3	1	94	1	0	0	0	0	1	0	0	0	6690	1087	38	1	414	1	GPR35	2	241569781	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	4419805	241569781	1629592	47	35315										
RFTN1	23180	broad.mit.edu	37	chr3	16475533	16475534	+	Frame_Shift_Ins	INS	-	A	A													0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agcctcactgctgaggacccINSagggagctccgctggagtgg							TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:16475533_16475534insA	uc003cay.2	-	3	438_439	c.156_157insT	c.(154-159)CCTGGGfs	p.P52fs	RFTN1_uc010hes.2_Frame_Shift_Ins_p.P16fs	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	52_53						plasma membrane				ovary(3)|central_nervous_system(1)	4						GCTGAGGACCCAGGGAGCTCCG	0.668													21	11	---	---	---	---		A	16475534	A	A	16475533	7	5	94	1	0	1	1	0	0	0	0	0	13258	594	21	0	1611	0	RFTN1	3	16475533	Frame_Shift_Ins	INS	-	TCGA-39-5037-01A-01D-1441-08		16475533	181546897	48	35316										
GADL1	339896	broad.mit.edu	37	chr3	30842566	30842566	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gatgccttggcagagtagcaTtttttaagaagatccttcga	10	7	0	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:30842566T>A	uc003cep.2	-	12	1112	c.1065A>T	c.(1063-1065)AAA>AAT	p.K355N	GADL1_uc003ceq.1_Missense_Mutation_p.K355N	NM_207359	NP_997242	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1	355					carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	CAGAGTAGCATTTTTTAAGAA	0.368													37	27	---	---	---	---	PASS	A	30842566	A	A	30842566	3	1	94	1	0	0	0	0	1	0	0	0	6185	1490	52	5	516	5	GADL1	3	30842566	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	14367033	30842566	167179864	49	35317										
ZNF502	91392	broad.mit.edu	37	chr3	44761767	44761767	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tctgtggatgttgaatatgcAaggagctgaagagagagaca	14	4	1	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:44761767A>T	uc011baa.1	+	3	269	c.14A>T	c.(13-15)CAA>CTA	p.Q5L	ZNF502_uc003cns.2_Missense_Mutation_p.Q5L|ZNF502_uc011bab.1_Missense_Mutation_p.Q5L|ZNF502_uc003cnt.2_Missense_Mutation_p.Q5L	NM_001134440	NP_001127912	Q8TBZ5	ZN502_HUMAN	zinc finger protein 502	5					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00855)|KIRC - Kidney renal clear cell carcinoma(197;0.0471)|Kidney(197;0.0589)		TTGAATATGCAAGGAGCTGAA	0.478													41	28	---	---	---	---	PASS	T	44761767	T	T	44761767	3	4	94	1	0	0	0	0	1	0	0	0	17947	130	5	5	16	5	ZNF502	3	44761767	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	13919201	44761767	153260663	50	35318										
IQCF3	401067	broad.mit.edu	37	chr3	51864598	51864598	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cgtcagcggcggcaggccctGttgagggtctacgtcatcca	14	13	3	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:51864598G>T	uc010hlx.1	+	5	587	c.246G>T	c.(244-246)CTG>CTT	p.L82L	IQCF1_uc003dbq.3_Intron|IQCF3_uc010hlw.1_RNA|IQCF3_uc011bdw.1_RNA	NM_001085479	NP_001078948	P0C7M6	IQCF3_HUMAN	IQ motif containing F3	82										ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GGCAGGCCCTGTTGAGGGTCT	0.622													26	21	---	---	---	---	PASS	T	51864598	T	T	51864598	2	4	94	1	0	0	0	0	0	0	0	1	7809	1364	48	3		3	IQCF3	3	51864598	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	7102831	51864598	146157832	51	35319										
C3orf64	285203	broad.mit.edu	37	chr3	69054327	69054327	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgatgtttcttaaatcaagaTagagattggttgctctgcag	10	5	3	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:69054327T>C	uc003dnl.2	-	7	884	c.479A>G	c.(478-480)TAT>TGT	p.Y160C	C3orf64_uc003dnk.2_Missense_Mutation_p.Y160C|C3orf64_uc011bfw.1_RNA|C3orf64_uc003dnm.1_RNA	NM_173654	NP_775925	Q5NDL2	AER61_HUMAN	AER61 glycosyltransferase	160						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)	1		Lung NSC(201;0.126)		BRCA - Breast invasive adenocarcinoma(55;4.61e-05)|Epithelial(33;0.000291)|LUSC - Lung squamous cell carcinoma(21;0.0127)|KIRC - Kidney renal clear cell carcinoma(39;0.216)		TAAATCAAGATAGAGATTGGT	0.353													3	95	---	---	---	---	PASS	C	69054327	C	C	69054327	3	2	94	1	0	0	0	0	1	0	0	0	2240	1406	49	5	888	5	C3orf64	3	69054327	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	17189729	69054327	128968103	52	35320										
PAQR9	344838	broad.mit.edu	37	chr3	142681325	142681325	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cgttgaagaaggcggccaccAccagccagaagtagcggcgg	15	12	0	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:142681325A>T	uc003evg.2	-	1	854	c.854T>A	c.(853-855)GTG>GAG	p.V285E	PAQR9_uc003evf.1_RNA	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	285	Extracellular (Potential).					integral to membrane	receptor activity				0						GGCGGCCACCACCAGCCAGAA	0.597													8	147	---	---	---	---	PASS	T	142681325	T	T	142681325	3	4	94	1	0	0	0	0	1	0	0	0	11442	159	6	5	283	5	PAQR9	3	142681325	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	73626998	142681325	55341105	53	35321			1	44		3	3	522	N	G_A	1.104732e-05
PAQR9	344838	broad.mit.edu	37	chr3	142681705	142681705	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ccgtagtagctgatggacgcGtagtccaggtagaagaaggc	15	8	0	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:142681705G>C	uc003evg.2	-	1	474	c.474C>G	c.(472-474)TAC>TAG	p.Y158*	PAQR9_uc003evf.1_5'Flank	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	158	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						TGATGGACGCGTAGTCCAGGT	0.612													14	63	---	---	---	---	PASS	C	142681705	C	C	142681705	4	2	94	1	0	0	0	0	0	1	0	0	11442	1140	40	4	663	4	PAQR9	3	142681705	Nonsense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	380	142681705	55340725	54	35322			1	44		3	3	522	N	G_A	1.104732e-05
PAQR9	344838	broad.mit.edu	37	chr3	142681846	142681846	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cacgggtggtggaagggcacGtcgccgccgctcaggaagaa	17	11	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:142681846G>T	uc003evg.2	-	1	333	c.333C>A	c.(331-333)GAC>GAA	p.D111E	PAQR9_uc003evf.1_5'Flank	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	111	Extracellular (Potential).					integral to membrane	receptor activity				0						GGAAGGGCACGTCGCCGCCGC	0.622													14	60	---	---	---	---	PASS	T	142681846	T	T	142681846	3	4	94	1	0	0	0	0	1	0	0	0	11442	1136	40	1	804	1	PAQR9	3	142681846	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	141	142681846	55340584	55	35323			1	44		3	3	522	N	G_A	1.104732e-05
CHST2	9435	broad.mit.edu	37	chr3	142841059	142841059	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggctcgggctcctcctccaaGcctttcgtggtatctgcacg	11	15	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:142841059G>T	uc003evm.2	+	2	2290	c.1401G>T	c.(1399-1401)AAG>AAT	p.K467N		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	467	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						CCTCCTCCAAGCCTTTCGTGG	0.577													22	118	---	---	---	---	PASS	T	142841059	T	T	142841059	3	4	94	1	0	0	0	0	1	0	0	0	3404	962	34	3	1403	3	CHST2	3	142841059	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	159213	142841059	55181371	56	35324										
DHX36	170506	broad.mit.edu	37	chr3	154010470	154010470	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	atctatcacataaacgacatCatctatggtaatgctgtttg	6	8	4	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:154010470C>T	uc003ezy.3	-	15	1765	c.1684G>A	c.(1684-1686)GAT>AAT	p.D562N	DHX36_uc010hvq.2_Missense_Mutation_p.D548N|DHX36_uc003ezz.3_Missense_Mutation_p.D562N	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	562	Helicase C-terminal.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TAAACGACATCATCTATGGTA	0.274													7	320	---	---	---	---	PASS	T	154010470	T	T	154010470	3	4	94	1	0	0	0	0	1	0	0	0	4509	826	29	2	1386	2	DHX36	3	154010470	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	11169411	154010470	44011960	57	35325										
GOLIM4	27333	broad.mit.edu	37	chr3	167750570	167750570	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cctccttatgggtgggagcaTagagttttgtgtcttctgct	12	8	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:167750570T>C	uc003ffe.2	-	9	1258	c.914A>G	c.(913-915)TAT>TGT	p.Y305C	GOLIM4_uc011bpe.1_Missense_Mutation_p.Y305C|GOLIM4_uc011bpf.1_Missense_Mutation_p.Y277C|GOLIM4_uc011bpg.1_Missense_Mutation_p.Y277C	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	305	Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						GGTGGGAGCATAGAGTTTTGT	0.507													78	247	---	---	---	---	PASS	C	167750570	C	C	167750570	3	2	94	1	0	0	0	0	1	0	0	0	6566	1406	49	5	1208	5	GOLIM4	3	167750570	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	13740100	167750570	30271860	58	35326										
TNIK	23043	broad.mit.edu	37	chr3	170811627	170811627	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acagtttttataccaacttaCctctctaatcatcaaggttc	3	11	3	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:170811627C>T	uc003fhh.2	-	23	3066	c.2721_splice	c.e23+1	p.E907_splice	TNIK_uc003fhi.2_Splice_Site_p.E852_splice|TNIK_uc003fhj.2_Splice_Site_p.E878_splice|TNIK_uc003fhk.2_Splice_Site_p.E899_splice|TNIK_uc003fhl.2_Splice_Site_p.E823_splice|TNIK_uc003fhm.2_Splice_Site_p.E844_splice|TNIK_uc003fhn.2_Splice_Site_p.E870_splice|TNIK_uc003fho.2_Splice_Site_p.E815_splice|TNIK_uc003fhg.2_Splice_Site_p.E85_splice	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1						actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			TACCAACTTACCTCTCTAATC	0.423													11	142	---	---	---	---	PASS	T	170811627	T	T	170811627	5	4	94	1	0	0	0	0	0	0	1	0	16310	521	18	3	1404	3	TNIK	3	170811627	Splice_Site	SNP	C	TCGA-39-5037-01A-01D-1441-08	3061057	170811627	27210803	59	35327										
DCUN1D1	54165	broad.mit.edu	37	chr3	182683507	182683507	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtgtgaagatcataaactgaCgaactttatccttctgcgat	8	8	2	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:182683507C>T	uc003fld.1	-	2	87	c.38G>A	c.(37-39)CGT>CAT	p.R13H	DCUN1D1_uc011bqn.1_5'UTR	NM_020640	NP_065691	Q96GG9	DCNL1_HUMAN	RP42 homolog	13	UBA-like.					ubiquitin ligase complex	protein binding			ovary(1)	1	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;2.54e-44)|Epithelial(37;4.71e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			CATAAACTGACGAACTTTATC	0.303													44	400	---	---	---	---	PASS	T	182683507	T	T	182683507	3	4	94	1	0	0	0	0	1	0	0	0	4313	536	19	1	765	1	DCUN1D1	3	182683507	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	11871880	182683507	15338923	60	35328										
MUC4	4585	broad.mit.edu	37	chr3	195517097	195517097	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	accttcactctgctgggtgtGgaaagctgtggatatttttg	12	7	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:195517097G>A	uc011bto.1	-	2	1814	c.1354C>T	c.(1354-1356)CAC>TAC	p.H452Y	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.H334Y	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	457					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TGCTGGGTGTGGAAAGCTGTG	0.473													485	187	---	---	---	---	PASS	A	195517097	A	A	195517097	3	1	94	1	0	0	0	0	1	0	0	0	9978	1348	47	3		3	MUC4	3	195517097	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	12833590	195517097	2505333	61	35329										
SENP5	205564	broad.mit.edu	37	chr3	196654678	196654678	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tttaaccagaatataagaaaGtatttgctgactgaagccag	8	6	0	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:196654678G>T	uc003fwz.3	+	8	2283	c.2034G>T	c.(2032-2034)AAG>AAT	p.K678N	SENP5_uc011bty.1_Missense_Mutation_p.K632N	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	678	Protease.				cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		ATATAAGAAAGTATTTGCTGA	0.403													99	44	---	---	---	---	PASS	T	196654678	T	T	196654678	3	4	94	1	0	0	0	0	1	0	0	0	14049	1020	36	3	2060	3	SENP5	3	196654678	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	1137581	196654678	1367752	62	35330										
LMLN	89782	broad.mit.edu	37	chr3	197762799	197762799	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctccctgtcagtatccagatGaatggctggattcacgatgg	11	10	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr3:197762799G>A	uc011buo.1	+	15	1774	c.1752G>A	c.(1750-1752)ATG>ATA	p.M584I	LMLN_uc003fyt.2_Missense_Mutation_p.M569I|LMLN_uc010iar.2_Missense_Mutation_p.M621I|LMLN_uc010ias.2_Missense_Mutation_p.M532I|LMLN_uc003fyu.2_Missense_Mutation_p.M381I	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2	584					cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		GTATCCAGATGAATGGCTGGA	0.502													247	92	---	---	---	---	PASS	A	197762799	A	A	197762799	3	1	94	1	0	0	0	0	1	0	0	0	8847	1290	45	2	1925	2	LMLN	3	197762799	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	1108121	197762799	259631	63	35331										
GBA3	57733	broad.mit.edu	37	chr4	22820400	22820400	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtgcatggtctcttctggatAactttgagtggaaccaggga	13	7	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr4:22820400A>T	uc003gqp.3	+	5	1355	c.1264A>T	c.(1264-1266)AAC>TAC	p.N422Y	GBA3_uc010iep.2_Missense_Mutation_p.N115Y|GBA3_uc011bxo.1_Missense_Mutation_p.N423Y	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	422					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						TCTTCTGGATAACTTTGAGTG	0.423													5	14	---	---	---	---	PASS	T	22820400	T	T	22820400	3	4	94	1	0	0	0	0	1	0	0	0	6268	362	13	5	1282	5	GBA3	4	22820400	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08		22820400	168333876	64	35332										
SLAIN2	57606	broad.mit.edu	37	chr4	48422177	48422177	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aattccgttcccctgcagcaCcatctcctttggctcttcgg	7	16	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr4:48422177C>T	uc003gya.3	+	7	1540	c.1396C>T	c.(1396-1398)CCA>TCA	p.P466S		NM_020846	NP_065897	Q9P270	SLAI2_HUMAN	SLAIN motif family, member 2	466						centrosome					0						CCCTGCAGCACCATCTCCTTT	0.448													48	25	---	---	---	---	PASS	T	48422177	T	T	48422177	3	4	94	1	0	0	0	0	1	0	0	0	14366	507	18	3	1422	3	SLAIN2	4	48422177	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	25601777	48422177	142732099	65	35333										
HERC3	8916	broad.mit.edu	37	chr4	89527029	89527029	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctggtatcagcaccaacctgCagggaattgtggctgagccc	12	12	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr4:89527029C>A	uc003hrw.1	+	3	221	c.55C>A	c.(55-57)CAG>AAG	p.Q19K	HERC3_uc003hrv.2_Missense_Mutation_p.Q19K|HERC3_uc011cdn.1_Intron	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	19	RCC1 1.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		CACCAACCTGCAGGGAATTGT	0.493													49	24	---	---	---	---	PASS	A	89527029	A	A	89527029	3	1	94	1	0	0	0	0	1	0	0	0	7059	711	25	3	57	3	HERC3	4	89527029	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	41104852	89527029	101627247	66	35334										
GRID2	2895	broad.mit.edu	37	chr4	94006266	94006266	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ccacctcttcattcagcgctCaacagctgggaccccaagga	8	16	4	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr4:94006266C>T	uc011cdt.1	+	3	623	c.365C>T	c.(364-366)TCA>TTA	p.S122L	GRID2_uc010ikx.2_Missense_Mutation_p.S122L|GRID2_uc011cdu.1_Intron|GRID2_uc011cdv.1_RNA	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	122	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	ATTCAGCGCTCAACAGCTGGG	0.567													59	37	---	---	---	---	PASS	T	94006266	T	T	94006266	3	4	94	1	0	0	0	0	1	0	0	0	6772	838	29	2	375	2	GRID2	4	94006266	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	4479237	94006266	97148010	67	35335										
EMCN	51705	broad.mit.edu	37	chr4	101342458	101342458	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cccggatctgccttccagcaCattcggtacaaacccaccag	7	17	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr4:101342458C>A	uc003hvr.2	-	8	824	c.645G>T	c.(643-645)ATG>ATT	p.M215I	EMCN_uc011cel.1_Missense_Mutation_p.M202I|EMCN_uc011cem.1_Intron	NM_016242	NP_057326	Q9ULC0	MUCEN_HUMAN	endomucin isoform 1	215	Cytoplasmic (Potential).					extracellular region|integral to membrane|plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(123;2.49e-08)		CCTTCCAGCACATTCGGTACA	0.358													58	33	---	---	---	---	PASS	A	101342458	A	A	101342458	3	1	94	1	0	0	0	0	1	0	0	0	5086	478	17	3	156	3	EMCN	4	101342458	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	7336192	101342458	89811818	68	35336										
C4orf21	55345	broad.mit.edu	37	chr4	113538950	113538950	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgatttatcaagtgcaatacAttcatagtgattctgattgg	8	5	3	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr4:113538950A>G	uc003iau.2	-	6	2459	c.2248T>C	c.(2248-2250)TGT>CGT	p.C750R	C4orf21_uc003iaw.2_Missense_Mutation_p.C750R	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		AGTGCAATACATTCATAGTGA	0.343													97	39	---	---	---	---	PASS	G	113538950	G	G	113538950	3	3	94	1	0	0	0	0	1	0	0	0	2254	217	8	5	4158	5	C4orf21	4	113538950	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	12196492	113538950	77615326	69	35337										
C4orf31	79625	broad.mit.edu	37	chr4	121957867	121957867	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctttcttgtttcctttcagtCgaacgaggtatttagcttta	7	8	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr4:121957867C>T	uc003idq.1	-	4	1786	c.1259G>A	c.(1258-1260)CGA>CAA	p.R420Q		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	420											0						TCCTTTCAGTCGAACGAGGTA	0.418													123	81	---	---	---	---	PASS	T	121957867	T	T	121957867	3	4	94	1	0	0	0	0	1	0	0	0	2261	884	31	2	451	2	C4orf31	4	121957867	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	8418917	121957867	69196409	70	35338										
RXFP1	59350	broad.mit.edu	37	chr4	159514595	159514595	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gcaatttgacaaatattttgCcagttactacaaaatgactt	5	7	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr4:159514595C>A	uc003ipz.2	+	3	312	c.230C>A	c.(229-231)GCC>GAC	p.A77D	RXFP1_uc010iqj.1_5'UTR|RXFP1_uc011cja.1_5'UTR|RXFP1_uc010iqo.2_Missense_Mutation_p.A77D|RXFP1_uc011cjb.1_5'UTR|RXFP1_uc010iqk.2_5'UTR|RXFP1_uc011cjc.1_5'UTR|RXFP1_uc011cjd.1_5'UTR|RXFP1_uc010iql.2_5'UTR|RXFP1_uc011cje.1_Missense_Mutation_p.A77D|RXFP1_uc010iqm.2_Intron|RXFP1_uc011cjf.1_Intron|RXFP1_uc010iqn.2_5'UTR	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	77	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		AAATATTTTGCCAGTTACTAC	0.333													24	25	---	---	---	---	PASS	A	159514595	A	A	159514595	3	1	94	1	0	0	0	0	1	0	0	0	13759	739	26	3	240	3	RXFP1	4	159514595	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	37556728	159514595	31639681	71	35339										
C4orf39	152756	broad.mit.edu	37	chr4	165878495	165878495	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggcagcattccggctgtcacGccaccgaaattgccaggcca	11	15	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr4:165878495G>T	uc003iqx.1	+	1	396	c.321G>T	c.(319-321)ACG>ACT	p.T107T	TRIM61_uc003iqw.2_Intron	NM_153027	NP_694572	Q96MZ4	CD039_HUMAN	hypothetical protein LOC152756	107											0	all_hematologic(180;0.221)	Prostate(90;0.109)		GBM - Glioblastoma multiforme(119;0.146)		CGGCTGTCACGCCACCGAAAT	0.547													23	24	---	---	---	---	PASS	T	165878495	T	T	165878495	2	4	94	1	0	0	0	0	0	0	0	1	2268	1074	38	1		1	C4orf39	4	165878495	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	6363900	165878495	25275781	72	35340										
DDX60L	91351	broad.mit.edu	37	chr4	169392938	169392938	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	attgtcctccgttactcagaAgatccacaagatagcattca	6	11	2	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr4:169392938A>G	uc003irq.3	-	4	445	c.224T>C	c.(223-225)CTT>CCT	p.L75P	DDX60L_uc003irr.1_Missense_Mutation_p.L75P|DDX60L_uc003irt.1_Missense_Mutation_p.L75P	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	75							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		GTTACTCAGAAGATCCACAAG	0.373													46	50	---	---	---	---	PASS	G	169392938	G	G	169392938	3	3	94	1	0	0	0	0	1	0	0	0	4379	72	3	5	5036	5	DDX60L	4	169392938	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	3514443	169392938	21761338	73	35341										
SH3RF1	57630	broad.mit.edu	37	chr4	170057544	170057544	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtggggttgctggagctgatGaggacaggggggctgatctc	20	6	1	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr4:170057544G>A	uc003isa.1	-	5	1328	c.993C>T	c.(991-993)CTC>CTT	p.L331L	SH3RF1_uc010irc.1_Missense_Mutation_p.H54Y	NM_020870	NP_065921	Q7Z6J0	SH3R1_HUMAN	SH3 domain containing ring finger 1	331						Golgi apparatus|lamellipodium|perinuclear region of cytoplasm	ligase activity|zinc ion binding			breast(2)|lung(1)	3		Prostate(90;0.00267)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)		TGGAGCTGATGAGGACAGGGG	0.562													97	145	---	---	---	---	PASS	A	170057544	A	A	170057544	2	1	94	1	0	0	0	0	0	0	0	1	14258	1277	45	2		2	SH3RF1	4	170057544	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	664606	170057544	21096732	74	35342										
NEIL3	55247	broad.mit.edu	37	chr4	178272546	178272546	+	Frame_Shift_Del	DEL	T	-	-													0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tcttatagcaagctaccgacTagaaatactataatcagttg							TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr4:178272546delT	uc003iut.2	+	7	999	c.882delT	c.(880-882)ACTfs	p.T294fs	NEIL3_uc010irs.2_Intron	NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	294					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		AGCTACCGACTAGAAATACTA	0.368								BER_DNA_glycosylases					44	51	---	---	---	---		-	178272546	-	-	178272546	7	5	94	1	0	1	0	1	0	0	0	0	10320	1509	53	0	908	0	NEIL3	4	178272546	Frame_Shift_Del	DEL	T	TCGA-39-5037-01A-01D-1441-08	8215002	178272546	12881730	75	35343										
PLEKHG4B	153478	broad.mit.edu	37	chr5	163559	163559	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gccacagagaagaagctcccGctgtggcagcatgccaggag	14	12	0	2	rs114260538	byFrequency	TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr5:163559G>T	uc003jak.2	+	11	2354	c.2304G>T	c.(2302-2304)CCG>CCT	p.P768P		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	768					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		AGAAGCTCCCGCTGTGGCAGC	0.652													19	15	---	---	---	---	PASS	T	163559	T	T	163559	2	4	94	1	0	0	0	0	0	0	0	1	12072	1074	38	1		1	PLEKHG4B	5	163559	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08		163559	180751701	76	35344										
CDH18	1016	broad.mit.edu	37	chr5	19473725	19473725	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtgtcttcctctccgcctccTtcatcatcataggtgaccac	6	16	5	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr5:19473725T>G	uc003jgc.2	-	12	2360	c.1983A>C	c.(1981-1983)GAA>GAC	p.E661D	CDH18_uc003jgd.2_Missense_Mutation_p.E661D|CDH18_uc011cnm.1_3'UTR	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	661	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CTCCGCCTCCTTCATCATCAT	0.498													76	109	---	---	---	---	PASS	G	19473725	G	G	19473725	3	3	94	1	0	0	0	0	1	0	0	0	3103	1606	56	5	393	5	CDH18	5	19473725	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	19310166	19473725	161441535	77	35345										
CDH10	1008	broad.mit.edu	37	chr5	24537623	24537623	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tcagagttcttctgttaataGcttgtgcgcgtagagtataa	10	6	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr5:24537623G>T	uc003jgr.1	-	3	724	c.392C>A	c.(391-393)GCT>GAT	p.A131D	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	131	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TCTGTTAATAGCTTGTGCGCG	0.403										HNSCC(23;0.051)			28	116	---	---	---	---	PASS	T	24537623	T	T	24537623	3	4	94	1	0	0	0	0	1	0	0	0	3096	971	34	3	2014	3	CDH10	5	24537623	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	5063898	24537623	156377637	78	35346										
CDH9	1007	broad.mit.edu	37	chr5	26903886	26903886	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	attggcttttatccttccaaGatgagttccaagaggtacag	9	8	0	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr5:26903886G>A	uc003jgs.1	-	6	1028	c.859C>T	c.(859-861)CTT>TTT	p.L287F	CDH9_uc010iug.2_Missense_Mutation_p.L287F	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	287	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						ATCCTTCCAAGATGAGTTCCA	0.378													20	108	---	---	---	---	PASS	A	26903886	A	A	26903886	3	1	94	1	0	0	0	0	1	0	0	0	3117	942	33	2	1538	2	CDH9	5	26903886	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	2366263	26903886	154011374	79	35347										
TTC33	23548	broad.mit.edu	37	chr5	40716530	40716530	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cctggagcgttcttgcccaaGagaggtcttctttccatatt	9	11	3	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr5:40716530G>A	uc003jma.2	-	5	654	c.506C>T	c.(505-507)TCT>TTT	p.S169F	TTC33_uc011cpm.1_Missense_Mutation_p.S61F|TTC33_uc010ivg.2_3'UTR	NM_012382	NP_036514	Q6PID6	TTC33_HUMAN	tetratricopeptide repeat domain 33	169							binding			ovary(1)	1						TCTTGCCCAAGAGAGGTCTTC	0.408													101	115	---	---	---	---	PASS	A	40716530	A	A	40716530	3	1	94	1	0	0	0	0	1	0	0	0	16699	942	33	2	286	2	TTC33	5	40716530	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	13812644	40716530	140198730	80	35348										
RAB3C	115827	broad.mit.edu	37	chr5	58021831	58021831	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tttttttttattctttaggaCacagcaggccaggaaagata	8	6	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr5:58021831C>G	uc003jrp.2	+	3	352	c.255C>G	c.(253-255)GAC>GAG	p.D85E		NM_138453	NP_612462	Q96E17	RAB3C_HUMAN	RAB3C, member RAS oncogene family	85	GTP (By similarity).				protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)|central_nervous_system(1)	2		all_cancers(5;9.93e-10)|all_epithelial(5;1.49e-10)|all_lung(5;8.97e-05)|Lung NSC(5;0.000139)|Prostate(74;0.0664)		OV - Ovarian serous cystadenocarcinoma(10;1.8e-34)		TTCTTTAGGACACAGCAGGCC	0.338													43	79	---	---	---	---	PASS	G	58021831	G	G	58021831	3	3	94	1	0	0	0	0	1	0	0	0	12933	477	17	4	265	4	RAB3C	5	58021831	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	17305301	58021831	122893429	81	35349										
MAP1B	4131	broad.mit.edu	37	chr5	71491608	71491608	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agccaccacagcagctgtcaTggcggcagctggaatagcag	13	12	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr5:71491608T>A	uc003kbw.3	+	5	2667	c.2426T>A	c.(2425-2427)ATG>AAG	p.M809K	MAP1B_uc010iyw.1_Missense_Mutation_p.M826K|MAP1B_uc010iyx.1_Missense_Mutation_p.M683K|MAP1B_uc010iyy.1_Missense_Mutation_p.M683K	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	809						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		GCAGCTGTCATGGCGGCAGCT	0.537													7	1	---	---	---	---	PASS	A	71491608	A	A	71491608	3	1	94	1	0	0	0	0	1	0	0	0	9228	1464	51	5	2444	5	MAP1B	5	71491608	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	13469777	71491608	109423652	82	35350										
IQGAP2	10788	broad.mit.edu	37	chr5	75950040	75950040	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ttcagattcagtcctggttcCgaatggcaactgcaagaaag	10	9	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr5:75950040C>T	uc003kek.2	+	19	2416	c.2194C>T	c.(2194-2196)CGA>TGA	p.R732*	IQGAP2_uc010izv.2_Nonsense_Mutation_p.R285*|IQGAP2_uc011csv.1_Nonsense_Mutation_p.R228*|IQGAP2_uc003kel.2_Nonsense_Mutation_p.R228*	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	732	IQ 2.				small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		GTCCTGGTTCCGAATGGCAAC	0.348													15	74	---	---	---	---	PASS	T	75950040	T	T	75950040	4	4	94	1	0	0	0	0	0	1	0	0	7815	644	23	1	2268	1	IQGAP2	5	75950040	Nonsense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	4458432	75950040	104965220	83	35351										
PCDHA13	56136	broad.mit.edu	37	chr5	140262150	140262150	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gaggagctgtgtgggcggagCgcggagtgcagcatccacct	18	10	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr5:140262150C>T	uc003lif.2	+	1	297	c.297C>T	c.(295-297)AGC>AGT	p.S99S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.S99S|PCDHA13_uc003lid.2_Silent_p.S99S	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	99	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGGCGGAGCGCGGAGTGCA	0.557													46	194	---	---	---	---	PASS	T	140262150	T	T	140262150	2	4	94	1	0	0	0	0	0	0	0	1	11523	767	27	1		1	PCDHA13	5	140262150	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	64312110	140262150	40653110	84	35352										
FAT2	2196	broad.mit.edu	37	chr5	150928931	150928931	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tcggacctgcagcagctctgTgccgggggctatggtgtcag	16	11	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr5:150928931T>C	uc003lue.3	-	8	4727	c.4714A>G	c.(4714-4716)ACA>GCA	p.T1572A	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1572	Extracellular (Potential).|Cadherin 14.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGCAGCTCTGTGCCGGGGGCT	0.592													4	28	---	---	---	---	PASS	C	150928931	C	C	150928931	3	2	94	1	0	0	0	0	1	0	0	0	5690	1696	59	5	8399	5	FAT2	5	150928931	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	10666781	150928931	29986329	85	35353										
DOCK2	1794	broad.mit.edu	37	chr5	169145667	169145667	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tatcccttattcaggaaattGatgacagtgctgaagactta	8	7	1	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr5:169145667G>T	uc003maf.2	+	22	2219	c.2139G>T	c.(2137-2139)TTG>TTT	p.L713F	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.L205F	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	713					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCAGGAAATTGATGACAGTGC	0.373													20	28	---	---	---	---	PASS	T	169145667	T	T	169145667	3	4	94	1	0	0	0	0	1	0	0	0	4687	1281	45	2	2225	2	DOCK2	5	169145667	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	18216736	169145667	11769593	86	35354										
NRN1	51299	broad.mit.edu	37	chr6	5999430	5999430	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cgtgcagctgtggaaatcctCccagtatctggtgaggaaca	12	10	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:5999430C>G	uc003mwu.2	-	3	859	c.208G>C	c.(208-210)GAG>CAG	p.E70Q	NRN1_uc003mwt.2_Missense_Mutation_p.E96Q	NM_016588	NP_057672	Q9NPD7	NRN1_HUMAN	neuritin precursor	70						anchored to membrane|plasma membrane					0	Ovarian(93;0.0816)	all_hematologic(90;0.151)		OV - Ovarian serous cystadenocarcinoma(45;0.00415)		TGGAAATCCTCCCAGTATCTG	0.557													18	39	---	---	---	---	PASS	G	5999430	G	G	5999430	3	3	94	1	0	0	0	0	1	0	0	0	10658	864	30	2	224	2	NRN1	6	5999430	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08		5999430	165115637	87	35355										
NUP153	9972	broad.mit.edu	37	chr6	17649457	17649457	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gaagttgtgatctcaggggaActaaaattaaaggtaggcag	13	4	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:17649457A>G	uc003ncd.1	-	12	1670	c.1470T>C	c.(1468-1470)AGT>AGC	p.S490S	NUP153_uc011dje.1_Silent_p.S521S|NUP153_uc010jpl.1_Silent_p.S490S	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	490					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			TCTCAGGGGAACTAAAATTAA	0.368													31	124	---	---	---	---	PASS	G	17649457	G	G	17649457	2	3	94	1	0	0	0	0	0	0	0	1	10755	40	2	5		5	NUP153	6	17649457	Silent	SNP	A	TCGA-39-5037-01A-01D-1441-08	11650027	17649457	153465610	88	35356										
SLC17A4	10050	broad.mit.edu	37	chr6	25773531	25773531	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggctgtgcttgttgtcctctCtggtttcctctcatttatga	9	10	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:25773531C>T	uc003nfe.2	+	7	854	c.735C>T	c.(733-735)CTC>CTT	p.L245L	SLC17A4_uc011djx.1_Intron|SLC17A4_uc003nff.1_Intron|SLC17A4_uc003nfg.2_Silent_p.L182L|SLC17A4_uc010jqa.2_5'Flank	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),	245	Helical; (Potential).				phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						GTTGTCCTCTCTGGTTTCCTC	0.433													26	94	---	---	---	---	PASS	T	25773531	T	T	25773531	2	4	94	1	0	0	0	0	0	0	0	1	14419	900	32	2		2	SLC17A4	6	25773531	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	8124074	25773531	145341536	89	35357										
SKIV2L	6499	broad.mit.edu	37	chr6	31929803	31929803	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cagttgtggctgaatatgccAttgccctggcccagaaacac	10	12	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:31929803A>G	uc003nyn.1	+	10	1425	c.1036A>G	c.(1036-1038)ATT>GTT	p.I346V	RDBP_uc003nyk.2_5'Flank|RDBP_uc011dot.1_5'Flank|RDBP_uc003nym.1_5'Flank|SKIV2L_uc011dou.1_Missense_Mutation_p.I188V|SKIV2L_uc011dov.1_Missense_Mutation_p.I153V	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	346	Helicase ATP-binding.					nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						TGAATATGCCATTGCCCTGGC	0.502													31	42	---	---	---	---	PASS	G	31929803	G	G	31929803	3	3	94	1	0	0	0	0	1	0	0	0	14359	217	8	5	1074	5	SKIV2L	6	31929803	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	6156272	31929803	139185264	90	35358										
DNAH8	1769	broad.mit.edu	37	chr6	38790651	38790651	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	attcctgcgaggaagctgaaGaatttttacccgggggtagc	13	8	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:38790651G>T	uc003ooe.1	+	25	3510	c.2910G>T	c.(2908-2910)AAG>AAT	p.K970N		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GGAAGCTGAAGAATTTTTACC	0.388													12	35	---	---	---	---	PASS	T	38790651	T	T	38790651	3	4	94	1	0	0	0	0	1	0	0	0	4607	933	33	2	3000	2	DNAH8	6	38790651	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	6860848	38790651	132324416	91	35359										
UBR2	23304	broad.mit.edu	37	chr6	42625796	42625796	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ccaaaaaattctcctagcatActagctatgctggaaacact	5	11	1	0	rs138557643		TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:42625796A>G	uc011dur.1	+	27	2907	c.2907A>G	c.(2905-2907)ATA>ATG	p.I969M	UBR2_uc011dus.1_Missense_Mutation_p.I614M|UBR2_uc003osh.2_RNA	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	969					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			CTCCTAGCATACTAGCTATGC	0.393													197	158	---	---	---	---	PASS	G	42625796	G	G	42625796	3	3	94	1	0	0	0	0	1	0	0	0	16899	381	14	5	3159	5	UBR2	6	42625796	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	3835145	42625796	128489271	92	35360										
XPO5	57510	broad.mit.edu	37	chr6	43498432	43498432	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ttttgaaaggatatgaagcaTgggtctgagtcggtagtcag	14	4	2	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:43498432T>A	uc003ovp.2	-	23	2882	c.2671A>T	c.(2671-2673)ATG>TTG	p.M891L		NM_020750	NP_065801	Q9HAV4	XPO5_HUMAN	exportin 5	891					gene silencing by RNA	cytosol|nucleoplasm	protein binding|tRNA binding			skin(2)|breast(1)|kidney(1)	4	all_cancers(18;2.08e-05)|Lung NSC(15;0.000907)|all_lung(25;0.00243)		all cancers(41;0.000321)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0524)			ATATGAAGCATGGGTCTGAGT	0.448													17	126	---	---	---	---	PASS	A	43498432	A	A	43498432	3	1	94	1	0	0	0	0	1	0	0	0	17444	1464	51	5	983	5	XPO5	6	43498432	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	872636	43498432	127616635	93	35361										
SLC29A1	2030	broad.mit.edu	37	chr6	44199199	44199199	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tcaaagccatcctgaaaaatGtacgtaggggaggttatcct	10	8	1	1	rs75037270		TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:44199199G>C	uc003owu.1	+	9	1193	c.864_splice	c.e9+1	p.N288_splice	SLC29A1_uc003owv.1_Splice_Site_p.N288_splice|SLC29A1_uc003oww.1_Splice_Site_p.N367_splice|SLC29A1_uc003owx.1_Splice_Site_p.N288_splice|SLC29A1_uc003owy.1_Splice_Site_p.N288_splice|SLC29A1_uc003owz.1_Splice_Site_p.N288_splice	NM_004955	NP_004946	Q99808	S29A1_HUMAN	equilibrative nucleoside transporter 1						nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|basolateral plasma membrane|integral to plasma membrane|membrane fraction	nucleoside transmembrane transporter activity|protein binding			large_intestine(2)|skin(1)	3	all_cancers(18;3.19e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		Troglitazone(DB00197)	CCTGAAAAATGTACGTAGGGG	0.512													9	34	---	---	---	---	PASS	C	44199199	C	C	44199199	5	2	94	1	0	0	0	0	0	0	1	0	14534	1391	48	4	895	4	SLC29A1	6	44199199	Splice_Site	SNP	G	TCGA-39-5037-01A-01D-1441-08	700767	44199199	126915868	94	35362										
PKHD1	5314	broad.mit.edu	37	chr6	51613404	51613404	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgacacattactgaattcaaCagatgagtacaatggtgacc	8	8	1	5			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:51613404C>G	uc003pah.1	-	58	9286	c.9010G>C	c.(9010-9012)GTT>CTT	p.V3004L	PKHD1_uc010jzn.1_Missense_Mutation_p.V987L|PKHD1_uc003pai.2_Missense_Mutation_p.V3004L	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3004	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CTGAATTCAACAGATGAGTAC	0.458													94	148	---	---	---	---	PASS	G	51613404	G	G	51613404	3	3	94	1	0	0	0	0	1	0	0	0	11971	478	17	4	3293	4	PKHD1	6	51613404	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	7414205	51613404	119501663	95	35363										
BAI3	577	broad.mit.edu	37	chr6	70049245	70049245	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggcgtctctttggagctcctGtgtggtgttgccccttctgg	14	11	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:70049245G>T	uc003pev.3	+	26	3756	c.3308G>T	c.(3307-3309)TGT>TTT	p.C1103F	BAI3_uc010kak.2_Missense_Mutation_p.C1103F|BAI3_uc011dxx.1_Missense_Mutation_p.C309F|BAI3_uc003pex.1_Missense_Mutation_p.C233F	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1103	Helical; Name=6; (Potential).				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)				TGGAGCTCCTGTGTGGTGTTG	0.468													166	187	---	---	---	---	PASS	T	70049245	T	T	70049245	3	4	94	1	0	0	0	0	1	0	0	0	1300	1377	48	3	3402	3	BAI3	6	70049245	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	18435841	70049245	101065822	96	35364										
TTK	7272	broad.mit.edu	37	chr6	80750394	80750394	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aacttgttggtctgaattctCctaactccattttgaaagct	6	9	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:80750394C>T	uc003pjc.2	+	21	2538	c.2464C>T	c.(2464-2466)CCT>TCT	p.P822S	TTK_uc003pjb.3_Missense_Mutation_p.P821S	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	822					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		TCTGAATTCTCCTAACTCCAT	0.318													4	114	---	---	---	---	PASS	T	80750394	T	T	80750394	3	4	94	1	0	0	0	0	1	0	0	0	16717	855	30	2	2542	2	TTK	6	80750394	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	10701149	80750394	90364673	97	35365										
SYNCRIP	10492	broad.mit.edu	37	chr6	86324670	86324670	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgcgctttcctcctacatttCcaccgcggccacccctcgca	6	20	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:86324670C>T	uc003pla.2	-	11	2217	c.1676G>A	c.(1675-1677)GGA>GAA	p.G559E	SYNCRIP_uc003pku.2_Intron|SYNCRIP_uc003pkw.2_Intron|SYNCRIP_uc003pky.2_Intron|SYNCRIP_uc003pkv.2_Intron|SYNCRIP_uc003pkx.2_Intron|SYNCRIP_uc003pkz.2_Missense_Mutation_p.G524E	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	559	1-8.|Interaction with APOBEC1.|8 X 3 AA repeats of R-G-G.				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		TCCTACATTTCCACCGCGGCC	0.597													79	208	---	---	---	---	PASS	T	86324670	T	T	86324670	3	4	94	1	0	0	0	0	1	0	0	0	15441	855	30	2	245	2	SYNCRIP	6	86324670	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	5574276	86324670	84790397	98	35366										
C6orf162	57150	broad.mit.edu	37	chr6	88046835	88046835	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cccagggctcagaggggtgcGcacaacaaccttatttcgtg	12	12	1	1	rs140990223		TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:88046835G>A	uc003plp.1	+	3	175	c.86G>A	c.(85-87)CGC>CAC	p.R29H	C6orf164_uc003plr.2_RNA|C6orf162_uc003plq.1_Missense_Mutation_p.R29H	NM_001042493	NP_001035958	Q96KF7	CF162_HUMAN	hypothetical protein LOC57150	29						integral to membrane					0		all_cancers(76;3.81e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.15e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.3e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0164)		AGAGGGGTGCGCACAACAACC	0.438													17	137	---	---	---	---	PASS	A	88046835	A	A	88046835	3	1	94	1	0	0	0	0	1	0	0	0	2340	1087	38	1	88	1	C6orf162	6	88046835	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	1722165	88046835	83068232	99	35367										
MDN1	23195	broad.mit.edu	37	chr6	90497611	90497611	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgaaatccaggtgccactttCagacagtcacctcggccagg	10	13	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:90497611C>T	uc003pnn.1	-	8	1412	c.1296G>A	c.(1294-1296)CTG>CTA	p.L432L	MDN1_uc003pno.1_5'Flank|MDN1_uc003pnp.1_Silent_p.L432L	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	432					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)		GTGCCACTTTCAGACAGTCAC	0.453													35	37	---	---	---	---	PASS	T	90497611	T	T	90497611	2	4	94	1	0	0	0	0	0	0	0	1	9415	813	29	2		2	MDN1	6	90497611	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	2450776	90497611	80617456	100	35368										
CASP8AP2	9994	broad.mit.edu	37	chr6	90575901	90575901	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agagtgtcagctgatgtgcgGaagtcaaagactatcccacg	12	9	2	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:90575901G>A	uc003pnr.2	+	8	3088	c.2892G>A	c.(2890-2892)CGG>CGA	p.R964R	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Silent_p.R964R|CASP8AP2_uc011dzz.1_Silent_p.R964R	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	964					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		CTGATGTGCGGAAGTCAAAGA	0.363													14	10	---	---	---	---	PASS	A	90575901	A	A	90575901	2	1	94	1	0	0	0	0	0	0	0	1	2678	1161	41	2		2	CASP8AP2	6	90575901	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	78290	90575901	80539166	101	35369										
MCHR2	84539	broad.mit.edu	37	chr6	100368871	100368871	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgatttccttctcagtcgctCttctttggatttgaggcaga	9	9	3	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:100368871C>A	uc003pqh.1	-	6	1283	c.968G>T	c.(967-969)AGA>ATA	p.R323I	MCHR2_uc003pqi.1_Missense_Mutation_p.R323I	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	323	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		CTCAGTCGCTCTTCTTTGGAT	0.423													33	106	---	---	---	---	PASS	A	100368871	A	A	100368871	3	1	94	1	0	0	0	0	1	0	0	0	9383	913	32	2	58	2	MCHR2	6	100368871	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	9792970	100368871	70746196	102	35370										
AKD1	221264	broad.mit.edu	37	chr6	109980541	109980541	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gacttcaggatcccactggtCtctactgtatatgtatcccg	8	12	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:109980541C>T	uc003ptn.2	-	7	597	c.520G>A	c.(520-522)GAC>AAC	p.D174N	AKD1_uc003ptr.3_Missense_Mutation_p.D174N|AKD1_uc003pts.1_RNA	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	174					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TCCCACTGGTCTCTACTGTAT	0.259													18	63	---	---	---	---	PASS	T	109980541	T	T	109980541	3	4	94	1	0	0	0	0	1	0	0	0	460	913	32	2	5367	2	AKD1	6	109980541	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	9611670	109980541	61134526	103	35371										
CDK19	23097	broad.mit.edu	37	chr6	110944071	110944071	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggatcctgcagagcttgctcCgaggtaattctcttggttgg	13	9	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:110944071C>A	uc003puh.1	-	10	1051	c.978G>T	c.(976-978)TCG>TCT	p.S326S	CDK19_uc003pui.1_Silent_p.S266S|CDK19_uc011eax.1_Silent_p.S202S	NM_015076	NP_055891	Q9BWU1	CDK19_HUMAN	cell division cycle 2-like 6 (CDK8-like)	326	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						GAGCTTGCTCCGAGGTAATTC	0.458													25	82	---	---	---	---	PASS	A	110944071	A	A	110944071	2	1	94	1	0	0	0	0	0	0	0	1	3135	639	23	1		1	CDK19	6	110944071	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	963530	110944071	60170996	104	35372										
SYNE1	23345	broad.mit.edu	37	chr6	152540290	152540290	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	atggagaaaaaagagggaatCtttaactgtgcccagtcctt	10	7	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:152540290C>A	uc010kiw.2	-	120	22494	c.21892G>T	c.(21892-21894)GAT>TAT	p.D7298Y	SYNE1_uc010kiv.2_Missense_Mutation_p.D1822Y|SYNE1_uc003qos.3_Missense_Mutation_p.D1822Y|SYNE1_uc003qot.3_Missense_Mutation_p.D7227Y|SYNE1_uc003qou.3_Missense_Mutation_p.D7298Y|SYNE1_uc003qor.3_Missense_Mutation_p.D198Y	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7298	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)		AAGAGGGAATCTTTAACTGTG	0.448										HNSCC(10;0.0054)			14	78	---	---	---	---	PASS	A	152540290	A	A	152540290	3	1	94	1	0	0	0	0	1	0	0	0	15442	913	32	2	4682	2	SYNE1	6	152540290	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	41596219	152540290	18574777	105	35373										
SYNE1	23345	broad.mit.edu	37	chr6	152651824	152651824	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agcaagaattgcttcctggaCtttatagaacttgtctttag	8	7	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:152651824C>T	uc010kiw.2	-	78	14598	c.13996G>A	c.(13996-13998)GTC>ATC	p.V4666I	SYNE1_uc003qot.3_Missense_Mutation_p.V4595I|SYNE1_uc003qou.3_Missense_Mutation_p.V4666I|SYNE1_uc010kiz.2_Missense_Mutation_p.V421I	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4666	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)		GCTTCCTGGACTTTATAGAAC	0.413										HNSCC(10;0.0054)			11	56	---	---	---	---	PASS	T	152651824	T	T	152651824	3	4	94	1	0	0	0	0	1	0	0	0	15442	565	20	3	12746	3	SYNE1	6	152651824	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	111534	152651824	18463243	106	35374										
MRPL18	29074	broad.mit.edu	37	chr6	160218358	160218358	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cagcatcatgtagaagcactTgtggagcatcagaatggcaa	11	8	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:160218358T>C	uc003qsw.3	+	3	407	c.279T>C	c.(277-279)CTT>CTC	p.L93L	MRPL18_uc010kkb.2_RNA|PNLDC1_uc003qsx.1_5'Flank|PNLDC1_uc003qsy.1_5'Flank	NM_014161	NP_054880	Q9H0U6	RM18_HUMAN	mitochondrial ribosomal protein L18 precursor	93					rRNA transport|translation	mitochondrial ribosome	5S rRNA binding|structural constituent of ribosome				0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.44e-18)|BRCA - Breast invasive adenocarcinoma(81;5.79e-06)		TAGAAGCACTTGTGGAGCATC	0.413													23	30	---	---	---	---	PASS	C	160218358	C	C	160218358	2	2	94	1	0	0	0	0	0	0	0	1	9783	1799	63	5		5	MRPL18	6	160218358	Silent	SNP	T	TCGA-39-5037-01A-01D-1441-08	7566534	160218358	10896709	107	35375										
UNC93A	54346	broad.mit.edu	37	chr6	167728822	167728822	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cattctgctgggggtcctgaGcctgaccatggtggcgtatg	15	10	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr6:167728822G>A	uc003qvq.2	+	8	1431	c.1256G>A	c.(1255-1257)AGC>AAC	p.S419N	UNC93A_uc003qvr.2_Missense_Mutation_p.S377N	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	419						integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GGGGTCCTGAGCCTGACCATG	0.577													5	306	---	---	---	---	PASS	A	167728822	A	A	167728822	3	1	94	1	0	0	0	0	1	0	0	0	16993	971	34	3	1286	3	UNC93A	6	167728822	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	7510464	167728822	3386245	108	35376										
GPR141	353345	broad.mit.edu	37	chr7	37780147	37780147	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aatgaacacccggtcagtgaCcaccatggcggtcattaact	9	12	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:37780147C>A	uc003tfm.1	+	1	152	c.152C>A	c.(151-153)ACC>AAC	p.T51N	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	51	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						CGGTCAGTGACCACCATGGCG	0.498													6	157	---	---	---	---	PASS	A	37780147	A	A	37780147	3	1	94	1	0	0	0	0	1	0	0	0	6649	507	18	3	154	3	GPR141	7	37780147	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08		37780147	121358516	109	35377										
SFRP4	6424	broad.mit.edu	37	chr7	37956067	37956067	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	catagggatgcgcaccgcctCgcagggcgcgccgcgcacgc	15	17	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:37956067C>T	uc003tfo.3	-	1	459	c.73G>A	c.(73-75)GAG>AAG	p.E25K		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	25	FZ.				brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1						CGCACCGCCTCGCAGGGCGCG	0.687													47	50	---	---	---	---	PASS	T	37956067	T	T	37956067	3	4	94	1	0	0	0	0	1	0	0	0	14163	893	31	2	991	2	SFRP4	7	37956067	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	175920	37956067	121182596	110	35378										
OGDH	4967	broad.mit.edu	37	chr7	44747291	44747291	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	caaggctactatgactacgtGaagccaagacttcggaccac	9	12	0	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:44747291G>T	uc003tln.2	+	22	3016	c.2907G>T	c.(2905-2907)GTG>GTT	p.V969V	OGDH_uc011kbx.1_Silent_p.V965V|OGDH_uc011kby.1_Silent_p.V819V|OGDH_uc003tlp.2_Silent_p.V980V|OGDH_uc011kbz.1_Silent_p.V764V	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	969					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	ATGACTACGTGAAGCCAAGAC	0.602													37	142	---	---	---	---	PASS	T	44747291	T	T	44747291	2	4	94	1	0	0	0	0	0	0	0	1	10839	1277	45	2		2	OGDH	7	44747291	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	6791224	44747291	114391372	111	35379										
ZPBP	11055	broad.mit.edu	37	chr7	50097646	50097646	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tccacagtaggtttatattcGaggaaacatgtataaattcc	7	7	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:50097646G>C	uc003tou.2	-	4	496	c.426C>G	c.(424-426)CTC>CTG	p.L142L	ZPBP_uc011kci.1_Silent_p.L68L|ZPBP_uc010kyw.2_Silent_p.L141L	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	142					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					GTTTATATTCGAGGAAACATG	0.323													6	170	---	---	---	---	PASS	C	50097646	C	C	50097646	2	2	94	1	0	0	0	0	0	0	0	1	18216	1045	37	2		2	ZPBP	7	50097646	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	5350355	50097646	109041017	112	35380										
POM121L12	285877	broad.mit.edu	37	chr7	53104039	53104039	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cccctgagcaaaaatggagcGgttgcttccttcgtgcccag	11	13	0	1	rs114283332	by1000genomes	TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:53104039G>T	uc003tpz.2	+	1	691	c.675G>T	c.(673-675)GCG>GCT	p.A225A		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	225											0						AAAATGGAGCGGTTGCTTCCT	0.637													34	87	---	---	---	---	PASS	T	53104039	T	T	53104039	2	4	94	1	0	0	0	0	0	0	0	1	12241	1103	39	1		1	POM121L12	7	53104039	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	3006393	53104039	106034624	113	35381										
CALN1	83698	broad.mit.edu	37	chr7	71743678	71743678	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtaggctccttaccatcgagCtcctccacggagatattagc	9	13	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:71743678C>A	uc003twa.3	-	2	638	c.111G>T	c.(109-111)GAG>GAT	p.E37D	CALN1_uc003twb.3_Missense_Mutation_p.E79D|CALN1_uc003twc.3_Missense_Mutation_p.E37D	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2	37	EF-hand 1.|Cytoplasmic (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				TACCATCGAGCTCCTCCACGG	0.562													33	41	---	---	---	---	PASS	A	71743678	A	A	71743678	3	1	94	1	0	0	0	0	1	0	0	0	2591	796	28	3	568	3	CALN1	7	71743678	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	18639639	71743678	87394985	114	35382										
GTF2IRD1	9569	broad.mit.edu	37	chr7	73944172	73944172	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggacaagatccccttcaagcGcccctgcacttatggagtcc	9	15	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:73944172G>A	uc003uaq.2	+	9	1592	c.1199G>A	c.(1198-1200)CGC>CAC	p.R400H	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.R432H|GTF2IRD1_uc003uap.2_Missense_Mutation_p.R400H|GTF2IRD1_uc003uar.1_Missense_Mutation_p.R400H	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	400	GTF2I-like 2.					nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CCCTTCAAGCGCCCCTGCACT	0.562													10	51	---	---	---	---	PASS	A	73944172	A	A	73944172	3	1	94	1	0	0	0	0	1	0	0	0	6868	1087	38	1	1229	1	GTF2IRD1	7	73944172	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	2200494	73944172	85194491	115	35383										
TRRAP	8295	broad.mit.edu	37	chr7	98580986	98580986	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acagcctgcacgacatgaagAcggtggtgaagacctggagg	15	9	0	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:98580986A>G	uc003upp.2	+	59	9114	c.8905A>G	c.(8905-8907)ACG>GCG	p.T2969A	TRRAP_uc011kis.1_Missense_Mutation_p.T2951A|TRRAP_uc003upr.2_Missense_Mutation_p.T2668A	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2969	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CGACATGAAGACGGTGGTGAA	0.522													31	58	---	---	---	---	PASS	G	98580986	G	G	98580986	3	3	94	1	0	0	0	0	1	0	0	0	16598	275	10	5	9077	5	TRRAP	7	98580986	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	24636814	98580986	60557677	116	35384										
SLC12A9	56996	broad.mit.edu	37	chr7	100454632	100454632	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cgggcctcattcctcacattCctgctggtctctggctccct	8	17	3	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:100454632C>A	uc003uwp.2	+	5	733	c.591C>A	c.(589-591)TTC>TTA	p.F197L	SLC12A9_uc003uwo.1_Missense_Mutation_p.F108L|SLC12A9_uc003uwq.2_Missense_Mutation_p.F108L|SLC12A9_uc011kki.1_Intron|SLC12A9_uc003uwr.2_5'UTR|SLC12A9_uc003uws.2_5'UTR|SLC12A9_uc003uwt.2_5'UTR|SLC12A9_uc003uwv.2_5'Flank	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	197	Helical; (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					TCCTCACATTCCTGCTGGTCT	0.642													43	110	---	---	---	---	PASS	A	100454632	A	A	100454632	3	1	94	1	0	0	0	0	1	0	0	0	14390	854	30	2	605	2	SLC12A9	7	100454632	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	1873646	100454632	58684031	117	35385										
PRKAR2B	5577	broad.mit.edu	37	chr7	106710740	106710740	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ttttagctccagtaataaacCgattcacaaggcgtgcctca	7	11	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:106710740C>T	uc003vdx.2	+	2	497	c.322C>T	c.(322-324)CGA>TGA	p.R108*		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	108	Dimerization and phosphorylation.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						AGTAATAAACCGATTCACAAG	0.308													34	85	---	---	---	---	PASS	T	106710740	T	T	106710740	4	4	94	1	0	0	0	0	0	1	0	0	12506	644	23	1	328	1	PRKAR2B	7	106710740	Nonsense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	6256108	106710740	52427923	118	35386										
IMMP2L	83943	broad.mit.edu	37	chr7	110303734	110303734	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tctgccagcgctctgggggcCacaggatatgtgtggcatgg	16	10	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:110303734C>A	uc003vfq.1	-	6	895	c.452G>T	c.(451-453)TGG>TTG	p.W151L	IMMP2L_uc010ljr.1_Missense_Mutation_p.W151L	NM_032549	NP_115938	Q96T52	IMP2L_HUMAN	IMP2 inner mitochondrial membrane protease-like	151					protein processing involved in protein targeting to mitochondrion|proteolysis	integral to membrane|mitochondrial inner membrane peptidase complex|nucleus	serine-type peptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)		CTCTGGGGGCCACAGGATATG	0.438													29	67	---	---	---	---	PASS	A	110303734	A	A	110303734	3	1	94	1	0	0	0	0	1	0	0	0	7717	595	21	3	79	3	IMMP2L	7	110303734	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	3592994	110303734	48834929	119	35387										
HIPK2	28996	broad.mit.edu	37	chr7	139257806	139257806	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gactcgggtggatggtgggcGagggcaggacccgggggccc	22	10	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:139257806G>T	uc003vvf.3	-	15	3638	c.3464C>A	c.(3463-3465)TCG>TAG	p.S1155*	HIPK2_uc003vvd.3_Nonsense_Mutation_p.S1128*	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	1155	Autoinhibitory domain (AID).				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					GATGGTGGGCGAGGGCAGGAC	0.662													8	10	---	---	---	---	PASS	T	139257806	T	T	139257806	4	4	94	1	0	0	0	0	0	1	0	0	7117	1059	37	2	136	2	HIPK2	7	139257806	Nonsense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	28954072	139257806	19880857	120	35388										
DENND2A	27147	broad.mit.edu	37	chr7	140259565	140259565	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cgggaaaacagaactggggaAtggccttcagttggtcctca	13	9	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:140259565A>C	uc010lnj.2	-	8	1977	c.1832T>G	c.(1831-1833)ATT>AGT	p.I611S	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.I611S|DENND2A_uc003vvw.2_Missense_Mutation_p.I611S|DENND2A_uc003vvx.2_Missense_Mutation_p.I611S	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	611	UDENN.									ovary(3)|breast(1)	4	Melanoma(164;0.00956)					GAACTGGGGAATGGCCTTCAG	0.512													10	41	---	---	---	---	PASS	C	140259565	C	C	140259565	3	2	94	1	0	0	0	0	1	0	0	0	4429	101	4	5	1241	5	DENND2A	7	140259565	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	1001759	140259565	18879098	121	35389										
CNTNAP2	26047	broad.mit.edu	37	chr7	146741040	146741040	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tctgacggtgtggtccggcaCgaattacagcatccgattat	11	10	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:146741040C>T	uc003weu.1	+	4	960	c.444C>T	c.(442-444)CAC>CAT	p.H148H		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	148	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TGGTCCGGCACGAATTACAGC	0.423										HNSCC(39;0.1)			18	150	---	---	---	---	PASS	T	146741040	T	T	146741040	2	4	94	1	0	0	0	0	0	0	0	1	3647	535	19	1		1	CNTNAP2	7	146741040	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	6481475	146741040	12397623	122	35390										
MLL3	58508	broad.mit.edu	37	chr7	151891602	151891602	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ttaatggtcgtgaactctgaTtgacatttggctgaggcaaa	11	6	1	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr7:151891602T>C	uc003wla.2	-	29	4649	c.4430A>G	c.(4429-4431)AAT>AGT	p.N1477S	MLL3_uc003wkz.2_Missense_Mutation_p.N538S	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1477					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TGAACTCTGATTGACATTTGG	0.388			N		medulloblastoma								72	53	---	---	---	---	PASS	C	151891602	C	C	151891602	3	2	94	1	0	0	0	0	1	0	0	0	9622	1493	52	5	10429	5	MLL3	7	151891602	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	5150562	151891602	7247061	123	35391										
ZNF596	169270	broad.mit.edu	37	chr8	196171	196171	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gacgacatgagagaactcacActggagagaaaccatatgaa	10	8	1	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:196171A>G	uc003wot.2	+	6	1612	c.1324A>G	c.(1324-1326)ACT>GCT	p.T442A	ZNF596_uc003wou.2_Missense_Mutation_p.T341A|ZNF596_uc003wov.2_Missense_Mutation_p.T442A|ZNF596_uc003wow.2_Missense_Mutation_p.T442A	NM_173539	NP_775810	Q8TC21	ZN596_HUMAN	zinc finger protein 596	442					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(2;4.81e-29)|all_epithelial(2;5.03e-19)|Lung NSC(2;8.68e-08)|all_lung(2;1.52e-07)|Ovarian(12;0.00965)|Colorectal(14;0.0367)|all_neural(12;0.0837)|Myeloproliferative disorder(644;0.116)|all_hematologic(2;0.138)|Acute lymphoblastic leukemia(644;0.242)		Epithelial(5;3.77e-18)|all cancers(2;5.2e-17)|OV - Ovarian serous cystadenocarcinoma(5;5.37e-09)|BRCA - Breast invasive adenocarcinoma(11;1.7e-06)|Colorectal(2;6.51e-05)|READ - Rectum adenocarcinoma(2;0.0276)|COAD - Colon adenocarcinoma(149;0.0702)		GAGAACTCACACTGGAGAGAA	0.393													14	47	---	---	---	---	PASS	G	196171	G	G	196171	3	3	94	1	0	0	0	0	1	0	0	0	18023	159	6	5	1342	5	ZNF596	8	196171	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08		196171	146167851	124	35392										
MYOM2	9172	broad.mit.edu	37	chr8	2020527	2020527	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cgagacggtcactctcaagtGcaccatgctggtgacgccgg	13	13	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:2020527G>T	uc003wpx.3	+	9	1034	c.896G>T	c.(895-897)TGC>TTC	p.C299F	MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	299	Ig-like C2-type 2.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		ACTCTCAAGTGCACCATGCTG	0.622													14	23	---	---	---	---	PASS	T	2020527	T	T	2020527	3	4	94	1	0	0	0	0	1	0	0	0	10092	1319	46	3	926	3	MYOM2	8	2020527	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	1824356	2020527	144343495	125	35393										
CSMD1	64478	broad.mit.edu	37	chr8	2964165	2964165	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tggtacttcacaaaatctccTagaagagtcaatgcaacaaa	6	9	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:2964165T>C	uc011kwk.1	-	46	7229	c.6839_splice	c.e46-1	p.G2280_splice	CSMD1_uc011kwj.1_Splice_Site_p.G1672_splice|CSMD1_uc010lrg.2_Splice_Site_p.G348_splice	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor							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)		CAAAATCTCCTAGAAGAGTCA	0.463													6	23	---	---	---	---	PASS	C	2964165	C	C	2964165	5	2	94	1	0	0	0	0	0	0	1	0	3944	1536	53	5	3960	5	CSMD1	8	2964165	Splice_Site	SNP	T	TCGA-39-5037-01A-01D-1441-08	943638	2964165	143399857	126	35394										
GATA4	2626	broad.mit.edu	37	chr8	11607646	11607646	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tcccgccgagtgggcctctcCtgtgccaactgccagaccac	10	18	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:11607646C>G	uc003wuc.2	+	4	1364	c.810C>G	c.(808-810)TCC>TCG	p.S270S	GATA4_uc003wub.1_Silent_p.S64S|GATA4_uc011kxc.1_Silent_p.S271S	NM_002052	NP_002043	P43694	GATA4_HUMAN	GATA binding protein 4	270					atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)		TGGGCCTCTCCTGTGCCAACT	0.627													9	32	---	---	---	---	PASS	G	11607646	G	G	11607646	2	3	94	1	0	0	0	0	0	0	0	1	6256	668	24	4		4	GATA4	8	11607646	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	8643481	11607646	134756376	127	35395										
PNMA2	10687	broad.mit.edu	37	chr8	26365833	26365833	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cgcatgtgccattgcctgtcCcaacaaatgggccagtaatt	9	12	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:26365833C>T	uc003xez.2	-	3	1209	c.439G>A	c.(439-441)GGA>AGA	p.G147R		NM_007257	NP_009188	Q9UL42	PNMA2_HUMAN	paraneoplastic antigen MA2	147					apoptosis	nucleolus	protein binding				0		all_cancers(63;0.109)|Ovarian(32;2.61e-05)|all_epithelial(46;0.105)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0196)|Epithelial(17;3.13e-11)|Colorectal(74;0.123)		attgcctgtcccaacaaatgg	0													5	56	---	---	---	---	PASS	T	26365833	T	T	26365833	3	4	94	1	0	0	0	0	1	0	0	0	12154	632	22	3	659	3	PNMA2	8	26365833	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	14758187	26365833	119998189	128	35396										
PCMTD1	115294	broad.mit.edu	37	chr8	52732941	52732941	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctaaaatatgtcaagtaagcTtttaaagattcagggagggg	11	4	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:52732941T>A	uc003xqx.3	-	6	1385	c.1044A>T	c.(1042-1044)AAA>AAT	p.K348N	PCMTD1_uc011ldm.1_Missense_Mutation_p.K218N|PCMTD1_uc003xqw.3_Missense_Mutation_p.K348N|PCMTD1_uc011ldn.1_Missense_Mutation_p.K160N|PCMTD1_uc010lya.2_Missense_Mutation_p.K272N	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	348						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				TCAAGTAAGCTTTTAAAGATT	0.328													3	66	---	---	---	---	PASS	A	52732941	A	A	52732941	3	1	94	1	0	0	0	0	1	0	0	0	11586	1606	56	5	33	5	PCMTD1	8	52732941	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	26367108	52732941	93631081	129	35397										
CHD7	55636	broad.mit.edu	37	chr8	61735246	61735246	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgaacgtggttgtgtatcatGggagtcaagctagtcgtcgg	15	6	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:61735246G>T	uc003xue.2	+	12	3619	c.3142G>T	c.(3142-3144)GGG>TGG	p.G1048W	CHD7_uc003xuf.2_Missense_Mutation_p.G161W	NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1048	Helicase ATP-binding.				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)			TGTGTATCATGGGAGTCAAGC	0.448													60	116	---	---	---	---	PASS	T	61735246	T	T	61735246	3	4	94	1	0	0	0	0	1	0	0	0	3330	1348	47	3	3184	3	CHD7	8	61735246	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	9002305	61735246	84628776	130	35398										
CHD7	55636	broad.mit.edu	37	chr8	61774820	61774820	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aaacgacatagatgtcgaaaCcctaataaattggatataaa	6	6	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:61774820C>T	uc003xue.2	+	36	8373	c.7896C>T	c.(7894-7896)AAC>AAT	p.N2632N		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2632					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)			GATGTCGAAACCCTAATAAAT	0.363													4	14	---	---	---	---	PASS	T	61774820	T	T	61774820	2	4	94	1	0	0	0	0	0	0	0	1	3330	506	18	3		3	CHD7	8	61774820	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	39574	61774820	84589202	131	35399										
PI15	51050	broad.mit.edu	37	chr8	75737636	75737636	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gaaagcacaattagattcagCggatatccccaaagccaggc	9	11	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:75737636C>T	uc003yal.2	+	2	331	c.152C>T	c.(151-153)GCG>GTG	p.A51V	uc003yak.1_Intron|PI15_uc003yam.2_Missense_Mutation_p.A51V	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	51						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			TTAGATTCAGCGGATATCCCC	0.468													26	55	---	---	---	---	PASS	T	75737636	T	T	75737636	3	4	94	1	0	0	0	0	1	0	0	0	11868	768	27	1	154	1	PI15	8	75737636	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	13962816	75737636	70626386	132	35400										
RIMS2	9699	broad.mit.edu	37	chr8	105263326	105263326	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aaacaaaagtggcaagaaaaAcgctggaacccctttaccag	8	10	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:105263326A>T	uc003yls.2	+	27	4061	c.3820A>T	c.(3820-3822)ACG>TCG	p.T1274S	RIMS2_uc003ylp.2_Missense_Mutation_p.T1256S|RIMS2_uc003ylw.2_Missense_Mutation_p.T1263S|RIMS2_uc003ylq.2_Missense_Mutation_p.T1070S|RIMS2_uc003ylr.2_Missense_Mutation_p.T1095S	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1318	C2 2.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GGCAAGAAAAACGCTGGAACC	0.378										HNSCC(12;0.0054)			21	38	---	---	---	---	PASS	T	105263326	T	T	105263326	3	4	94	1	0	0	0	0	1	0	0	0	13368	43	2	5	4052	5	RIMS2	8	105263326	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	29525690	105263326	41100696	133	35401										
TM7SF4	81501	broad.mit.edu	37	chr8	105361446	105361446	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gcctttgcagggctttcgctCgtcctgcttggcactggcct	12	14	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:105361446C>A	uc003ylx.1	+	2	715	c.666C>A	c.(664-666)CTC>CTA	p.L222L		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	222	Helical; (Potential).				osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GGCTTTCGCTCGTCCTGCTTG	0.502													65	103	---	---	---	---	PASS	A	105361446	A	A	105361446	2	1	94	1	0	0	0	0	0	0	0	1	15973	871	31	2		2	TM7SF4	8	105361446	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	98120	105361446	41002576	134	35402										
CSMD3	114788	broad.mit.edu	37	chr8	113256633	113256633	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gaaaacttaccttcacaaatGggaacttttccagtccaggt	7	10	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:113256633G>T	uc003ynu.2	-	65	10551	c.10392C>A	c.(10390-10392)CCC>CCA	p.P3464P	CSMD3_uc003yns.2_Silent_p.P2666P|CSMD3_uc003ynt.2_Silent_p.P3424P|CSMD3_uc011lhx.1_Silent_p.P3295P	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3464	Extracellular (Potential).|Sushi 28.					integral to membrane|plasma membrane		p.P3464S(1)		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						CTTCACAAATGGGAACTTTTC	0.348										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			24	85	---	---	---	---	PASS	T	113256633	T	T	113256633	2	4	94	1	0	0	0	0	0	0	0	1	3946	1335	47	3		3	CSMD3	8	113256633	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	7895187	113256633	33107389	135	35403										
CSMD3	114788	broad.mit.edu	37	chr8	113569047	113569047	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctctcccctgtcatgcacttGagaaggctacttccgtggag	10	13	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:113569047G>A	uc003ynu.2	-	25	4338	c.4179C>T	c.(4177-4179)CTC>CTT	p.L1393L	CSMD3_uc003yns.2_Silent_p.L665L|CSMD3_uc003ynt.2_Silent_p.L1353L|CSMD3_uc011lhx.1_Silent_p.L1289L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1393	Extracellular (Potential).|Sushi 7.					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						TCATGCACTTGAGAAGGCTAC	0.448										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			25	69	---	---	---	---	PASS	A	113569047	A	A	113569047	2	1	94	1	0	0	0	0	0	0	0	1	3946	1277	45	2		2	CSMD3	8	113569047	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	312414	113569047	32794975	136	35404										
TRPS1	7227	broad.mit.edu	37	chr8	116599281	116599281	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gttttctcccgatgcaggatActgctgggggagggccccag	15	11	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:116599281A>T	uc003ynz.2	-	4	3067	c.2608T>A	c.(2608-2610)TAT>AAT	p.Y870N	TRPS1_uc011lhy.1_Missense_Mutation_p.Y874N|TRPS1_uc003yny.2_Missense_Mutation_p.Y883N|TRPS1_uc010mcy.2_Missense_Mutation_p.Y870N	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	870					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GATGCAGGATACTGCTGGGGG	0.517									Langer-Giedion_syndrome				51	80	---	---	---	---	PASS	T	116599281	T	T	116599281	3	4	94	1	0	0	0	0	1	0	0	0	16590	391	14	5	1249	5	TRPS1	8	116599281	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	3030234	116599281	29764741	137	35405										
NSMCE2	286053	broad.mit.edu	37	chr8	126369499	126369499	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gagaagctgacggaacagaaGgagtggatgaagatataatt	14	3	0	5			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:126369499G>A	uc003yrw.2	+	6	685	c.457G>A	c.(457-459)GGA>AGA	p.G153R		NM_173685	NP_775956	Q96MF7	NSE2_HUMAN	non-SMC element 2, MMS21 homolog	153					DNA recombination|DNA repair	nucleus	ligase activity|zinc ion binding			breast(1)	1	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)			CGGAACAGAAGGAGTGGATGA	0.458													33	58	---	---	---	---	PASS	A	126369499	A	A	126369499	3	1	94	1	0	0	0	0	1	0	0	0	10676	1001	35	3	471	3	NSMCE2	8	126369499	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	9770218	126369499	19994523	138	35406										
FAM135B	51059	broad.mit.edu	37	chr8	139163694	139163694	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtcagatgggaccccatgatGgaagtgcctgccttcagctc	12	12	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:139163694G>T	uc003yuy.2	-	13	3195	c.3024C>A	c.(3022-3024)TCC>TCA	p.S1008S	FAM135B_uc003yux.2_Silent_p.S909S|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Silent_p.S570S|FAM135B_uc003yvb.2_Silent_p.S570S	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1008										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)			ACCCCATGATGGAAGTGCCTG	0.522										HNSCC(54;0.14)			27	51	---	---	---	---	PASS	T	139163694	T	T	139163694	2	4	94	1	0	0	0	0	0	0	0	1	5449	1335	47	3		3	FAM135B	8	139163694	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	12794195	139163694	7200328	139	35407										
FAM135B	51059	broad.mit.edu	37	chr8	139207519	139207519	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acctgtagctctgagcacagCtgagaaagtgtttcttcaac	9	10	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:139207519C>A	uc003yuy.2	-	9	1026	c.855G>T	c.(853-855)CAG>CAT	p.Q285H	FAM135B_uc003yux.2_Missense_Mutation_p.Q186H|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	285										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)			CTGAGCACAGCTGAGAAAGTG	0.418										HNSCC(54;0.14)			34	100	---	---	---	---	PASS	A	139207519	A	A	139207519	3	1	94	1	0	0	0	0	1	0	0	0	5449	796	28	3	3413	3	FAM135B	8	139207519	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	43825	139207519	7156503	140	35408										
LRRC14	9684	broad.mit.edu	37	chr8	145746733	145746733	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tctgtcctgctggaggcctcCatcaatgaggagaagtttgc	12	10	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr8:145746733C>T	uc003zdk.1	+	4	1499	c.1353C>T	c.(1351-1353)TCC>TCT	p.S451S	LRRC14_uc003zdl.1_Silent_p.S451S|LRRC14_uc003zdo.2_5'Flank	NM_014665	NP_055480	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	451											0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			TGGAGGCCTCCATCAATGAGG	0.627													8	35	---	---	---	---	PASS	T	145746733	T	T	145746733	2	4	94	1	0	0	0	0	0	0	0	1	8968	581	21	3		3	LRRC14	8	145746733	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	6539214	145746733	617289	141	35409										
FREM1	158326	broad.mit.edu	37	chr9	14824964	14824964	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tcttttggaagctggtcatcCactggagttatatggattgt	11	6	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr9:14824964C>A	uc003zlm.2	-	11	2498	c.1908G>T	c.(1906-1908)GTG>GTT	p.V636V	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	636	CSPG 4.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GCTGGTCATCCACTGGAGTTA	0.388													45	26	---	---	---	---	PASS	A	14824964	A	A	14824964	2	1	94	1	0	0	0	0	0	0	0	1	6044	581	21	3		3	FREM1	9	14824964	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08		14824964	126388467	142	35410										
ZCCHC7	84186	broad.mit.edu	37	chr9	37356933	37356933	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	taaggaagggccgtgcctcaTggaaaagcaacaggtggcct	14	9	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr9:37356933T>C	uc003zzq.2	+	9	1473	c.1300T>C	c.(1300-1302)TGG>CGG	p.W434R	ZCCHC7_uc011lqh.1_Missense_Mutation_p.W144R|ZCCHC7_uc011lqi.1_Missense_Mutation_p.W433R|ZCCHC7_uc010mlt.2_Missense_Mutation_p.W433R	NM_032226	NP_115602	Q8N3Z6	ZCHC7_HUMAN	zinc finger, CCHC domain containing 7	434							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.0137)		CCGTGCCTCATGGAAAAGCAA	0.433													23	17	---	---	---	---	PASS	C	37356933	C	C	37356933	3	2	94	1	0	0	0	0	1	0	0	0	17590	1464	51	5	1330	5	ZCCHC7	9	37356933	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	22531969	37356933	103856498	143	35411										
FRMPD1	22844	broad.mit.edu	37	chr9	37745120	37745120	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gagcctgcctggccagcaacCcaggactaaataatgtctct	9	13	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr9:37745120C>A	uc004aag.1	+	16	3135	c.3091C>A	c.(3091-3093)CCA>ACA	p.P1031T	FRMPD1_uc004aah.1_Missense_Mutation_p.P1031T	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1031						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		GGCCAGCAACCCAGGACTAAA	0.502													51	69	---	---	---	---	PASS	A	37745120	A	A	37745120	3	1	94	1	0	0	0	0	1	0	0	0	6057	623	22	3	3149	3	FRMPD1	9	37745120	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	388187	37745120	103468311	144	35412										
C9orf125	84302	broad.mit.edu	37	chr9	104238559	104238559	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	atccaggttagtaagggcccCagcaacatgcctacaccaac	8	14	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr9:104238559C>A	uc004bbm.2	-	2	1138	c.816G>T	c.(814-816)CTG>CTT	p.L272L	uc004bbl.1_5'Flank	NM_032342	NP_115718	Q9BRR3	CI125_HUMAN	hypothetical protein LOC84302	272	Helical; (Potential).					integral to membrane					0		Acute lymphoblastic leukemia(62;0.0527)				GTAAGGGCCCCAGCAACATGC	0.537													113	61	---	---	---	---	PASS	A	104238559	A	A	104238559	2	1	94	1	0	0	0	0	0	0	0	1	2454	581	21	3		3	C9orf125	9	104238559	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	66493439	104238559	36974872	145	35413										
ZFP37	7539	broad.mit.edu	37	chr9	115818955	115818955	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ttgtcagaatctggacgccgCtggagaccgacatggcggct	14	11	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr9:115818955C>T	uc004bgm.1	-	1	42	c.14G>A	c.(13-15)AGC>AAC	p.S5N	ZFP37_uc011lwz.1_Missense_Mutation_p.S5N|ZFP37_uc011lxa.1_Missense_Mutation_p.S5N	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	5						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CTGGACGCCGCTGGAGACCGA	0.672													40	32	---	---	---	---	PASS	T	115818955	T	T	115818955	3	4	94	1	0	0	0	0	1	0	0	0	17645	797	28	3	1894	3	ZFP37	9	115818955	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	11580396	115818955	25394476	146	35414										
TLR4	7099	broad.mit.edu	37	chr9	120475457	120475457	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agtttcccacattgaaactcAaatctctcaaaaggcttact	4	11	3	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr9:120475457A>T	uc004bjz.2	+	3	1342	c.1051A>T	c.(1051-1053)AAA>TAA	p.K351*	TLR4_uc004bka.2_Nonsense_Mutation_p.K311*|TLR4_uc004bkb.2_Nonsense_Mutation_p.K151*	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	351	LRR 9.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						ATTGAAACTCAAATCTCTCAA	0.353													48	41	---	---	---	---	PASS	T	120475457	T	T	120475457	4	4	94	1	0	0	0	0	0	1	0	0	15950	131	5	5	1061	5	TLR4	9	120475457	Nonsense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	4656502	120475457	20737974	147	35415										
OR1J4	26219	broad.mit.edu	37	chr9	125281783	125281783	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tcacttcaatggcatacgatCggtatgtggccatctgtcac	9	11	4	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr9:125281783C>G	uc011lyw.1	+	1	364	c.364C>G	c.(364-366)CGG>GGG	p.R122G		NM_001004452	NP_001004452	Q8NGS1	OR1J4_HUMAN	olfactory receptor, family 1, subfamily J,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGCATACGATCGGTATGTGGC	0.433													94	71	---	---	---	---	PASS	G	125281783	G	G	125281783	3	3	94	1	0	0	0	0	1	0	0	0	10961	875	31	2	366	2	OR1J4	9	125281783	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	4806326	125281783	15931648	148	35416										
OR1N2	138882	broad.mit.edu	37	chr9	125315489	125315489	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cagatcacacgaactacaagGgatgggaaaaccaggcagag	12	9	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr9:125315489G>T	uc011lyx.1	+	1	41	c.41G>T	c.(40-42)GGG>GTG	p.G14V		NM_001004457	NP_001004457	Q8NGR9	OR1N2_HUMAN	olfactory receptor, family 1, subfamily N,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4						GAACTACAAGGGATGGGAAAA	0.368													71	35	---	---	---	---	PASS	T	125315489	T	T	125315489	3	4	94	1	0	0	0	0	1	0	0	0	10970	1232	43	3	43	3	OR1N2	9	125315489	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	33706	125315489	15897942	149	35417										
STXBP1	6812	broad.mit.edu	37	chr9	130430389	130430389	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agcggcatcggggaggcacgGgtgaaggaggtgctcctgga	20	8	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr9:130430389G>T	uc004brl.2	+	10	1022	c.825G>T	c.(823-825)CGG>CGT	p.R275R	STXBP1_uc004brk.2_Silent_p.R275R	NM_001032221	NP_001027392	P61764	STXB1_HUMAN	syntaxin binding protein 1 isoform b	275					axon target recognition|energy reserve metabolic process|glutamate secretion|negative regulation of synaptic transmission, GABAergic|neurotransmitter secretion|platelet aggregation|platelet degranulation|protein transport|regulation of insulin secretion|regulation of synaptic vesicle priming|synaptic vesicle maturation|vesicle docking involved in exocytosis	cytosol|mitochondrion|plasma membrane|platelet alpha granule|protein complex	identical protein binding|syntaxin-1 binding|syntaxin-2 binding			skin(1)	1						GGGAGGCACGGGTGAAGGAGG	0.592													4	36	---	---	---	---	PASS	T	130430389	T	T	130430389	2	4	94	1	0	0	0	0	0	0	0	1	15351	1219	43	3		3	STXBP1	9	130430389	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	5114900	130430389	10783042	150	35418										
NOTCH1	4851	broad.mit.edu	37	chr9	139393588	139393588	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtcatctacggcgttgacgtCggcgtgtgagttgatgaggt	16	7	2	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr9:139393588C>G	uc004chz.2	-	32	6058	c.6058G>C	c.(6058-6060)GAC>CAC	p.D2020H		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2020	ANK 3.|Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GCGTTGACGTCGGCGTGTGAG	0.677			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			34	27	---	---	---	---	PASS	G	139393588	G	G	139393588	3	3	94	1	0	0	0	0	1	0	0	0	10547	884	31	2	1621	2	NOTCH1	9	139393588	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	8963199	139393588	1819843	151	35419										
FAM107B	83641	broad.mit.edu	37	chr10	14572388	14572388	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gatggttccgggaggtttttAcaggattgatcagtttctga	13	5	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:14572388A>G	uc001imx.1	-	2	316	c.71T>C	c.(70-72)GTA>GCA	p.V24A	FAM107B_uc001ina.1_Missense_Mutation_p.V199A|FAM107B_uc010qbu.1_RNA|FAM107B_uc009xjg.1_Missense_Mutation_p.V24A|FAM107B_uc001imy.1_Missense_Mutation_p.V24A|FAM107B_uc001imz.1_Missense_Mutation_p.V24A	NM_031453	NP_113641	Q9H098	F107B_HUMAN	hypothetical protein LOC83641	24										breast(4)	4						GGAGGTTTTTACAGGATTGAT	0.373													3	162	---	---	---	---	PASS	G	14572388	G	G	14572388	3	3	94	1	0	0	0	0	1	0	0	0	5390	391	14	5	336	5	FAM107B	10	14572388	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08		14572388	120962359	152	35420										
RSU1	6251	broad.mit.edu	37	chr10	16796963	16796963	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tggcagggagccgaagcctcGtggcaaagtgttcagcctgt	15	10	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:16796963G>A	uc001iok.2	-	4	609	c.307C>T	c.(307-309)CGA>TGA	p.R103*	RSU1_uc001iol.2_Nonsense_Mutation_p.R103*|RSU1_uc001iom.2_Nonsense_Mutation_p.R50*|RSU1_uc001ion.2_Nonsense_Mutation_p.R103*	NM_152724	NP_689937	Q15404	RSU1_HUMAN	ras suppressor protein 1 isoform 2	103	LRR 3.				cell junction assembly|signal transduction	cytosol	protein binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(1;7.54e-08)		CCGAAGCCTCGTGGCAAAGTG	0.468													13	99	---	---	---	---	PASS	A	16796963	A	A	16796963	4	1	94	1	0	0	0	0	0	1	0	0	13716	1153	40	1	546	1	RSU1	10	16796963	Nonsense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	2224575	16796963	118737784	153	35421										
CUBN	8029	broad.mit.edu	37	chr10	16960671	16960671	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtgtggggctgttgtcagatCgaaatctcaaatacataacc	10	8	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:16960671C>A	uc001ioo.2	-	45	7002	c.6950G>T	c.(6949-6951)CGA>CTA	p.R2317L		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2317	CUB 16.				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)	GTTGTCAGATCGAAATCTCAA	0.348													5	45	---	---	---	---	PASS	A	16960671	A	A	16960671	3	1	94	1	0	0	0	0	1	0	0	0	4051	884	31	2	4013	2	CUBN	10	16960671	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	163708	16960671	118574076	154	35422										
SLC39A12	221074	broad.mit.edu	37	chr10	18292099	18292099	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tcctttcctcttaaacttcaGgagactttgccgtgctctta	6	12	3	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:18292099G>T	uc001ipo.2	+	12	2033	c.1760_splice	c.e12-1	p.G587_splice	SLC39A12_uc001ipn.2_Splice_Site_p.G550_splice|SLC39A12_uc001ipp.2_Splice_Site_p.G586_splice|SLC39A12_uc010qck.1_Splice_Site_p.G453_splice|uc001ipq.1_RNA	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),						zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						TTAAACTTCAGGAGACTTTGC	0.393													27	130	---	---	---	---	PASS	T	18292099	T	T	18292099	5	4	94	1	0	0	0	0	0	0	1	0	14615	1014	35	3	1801	3	SLC39A12	10	18292099	Splice_Site	SNP	G	TCGA-39-5037-01A-01D-1441-08	1331428	18292099	117242648	155	35423										
PTCHD3	374308	broad.mit.edu	37	chr10	27702888	27702888	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gggttcgggggtttcctcctCcggcaggggtgcatcgtcca	16	12	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:27702888C>A	uc001itu.2	-	1	410	c.292G>T	c.(292-294)GAG>TAG	p.E98*		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	98					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GTTTCCTCCTCCGGCAGGGGT	0.706													11	18	---	---	---	---	PASS	A	27702888	A	A	27702888	4	1	94	1	0	0	0	0	0	1	0	0	12734	864	30	2	2027	2	PTCHD3	10	27702888	Nonsense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	9410789	27702888	107831859	156	35424										
C10orf71	118461	broad.mit.edu	37	chr10	50532472	50532472	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gagagttggagatgggtcctGccggatccagctggtgtcca	16	9	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:50532472G>T	uc010qgp.1	+	3	2221	c.1882G>T	c.(1882-1884)GCC>TCC	p.A628S		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	628											0						GATGGGTCCTGCCGGATCCAG	0.572													6	10	---	---	---	---	PASS	T	50532472	T	T	50532472	3	4	94	1	0	0	0	0	1	0	0	0	1614	1319	46	3	1884	3	C10orf71	10	50532472	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	22829584	50532472	85002275	157	35425										
ERCC6	2074	broad.mit.edu	37	chr10	50678601	50678601	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gatggcatagaagttttgccTgttcctgaagaatttgaaca	10	6	0	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:50678601T>C	uc001jhs.3	-	18	3559	c.3405A>G	c.(3403-3405)ACA>ACG	p.T1135T	ERCC6_uc009xod.2_Silent_p.T295T|ERCC6_uc010qgr.1_Silent_p.T505T|ERCC6_uc001jhr.3_Silent_p.T503T	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	1135					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						AAGTTTTGCCTGTTCCTGAAG	0.408								Direct_reversal_of_damage|NER					56	77	---	---	---	---	PASS	C	50678601	C	C	50678601	2	2	94	1	0	0	0	0	0	0	0	1	5217	1567	55	5		5	ERCC6	10	50678601	Silent	SNP	T	TCGA-39-5037-01A-01D-1441-08	146129	50678601	84856146	158	35426										
ANK3	288	broad.mit.edu	37	chr10	61834414	61834414	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggcattttgagtttgtgttcCtgcaaagcaattgctggttt	11	6	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:61834414C>T	uc001jky.2	-	37	6417	c.6225G>A	c.(6223-6225)CAG>CAA	p.Q2075Q	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2075					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GTTTGTGTTCCTGCAAAGCAA	0.393													20	103	---	---	---	---	PASS	T	61834414	T	T	61834414	2	4	94	1	0	0	0	0	0	0	0	1	622	680	24	3		3	ANK3	10	61834414	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	11155813	61834414	73700333	159	35427										
TTC18	118491	broad.mit.edu	37	chr10	75113471	75113471	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ttgaattctgctcgaataaaGgtaactggagtatctccttt	8	7	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:75113471G>A	uc009xrc.2	-	3	214	c.93C>T	c.(91-93)ACC>ACT	p.T31T	TTC18_uc001jty.2_Silent_p.T31T|TTC18_uc009xrd.1_5'UTR	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18	31							binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					CTCGAATAAAGGTAACTGGAG	0.373													18	38	---	---	---	---	PASS	A	75113471	A	A	75113471	2	1	94	1	0	0	0	0	0	0	0	1	16682	987	35	3		3	TTC18	10	75113471	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	13279057	75113471	60421276	160	35428										
DLG5	9231	broad.mit.edu	37	chr10	79552268	79552268	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ccattgccaagatctgagtgCaaatgcttgacagggctcct	10	11	1	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:79552268C>A	uc001jzk.2	-	32	5760	c.5690G>T	c.(5689-5691)TGC>TTC	p.C1897F	DLG5_uc001jzi.2_Missense_Mutation_p.C652F|DLG5_uc001jzj.2_Missense_Mutation_p.C1312F	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1897	Guanylate kinase-like.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			GATCTGAGTGCAAATGCTTGA	0.527													4	146	---	---	---	---	PASS	A	79552268	A	A	79552268	3	1	94	1	0	0	0	0	1	0	0	0	4558	710	25	3	73	3	DLG5	10	79552268	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	4438797	79552268	55982479	161	35429										
CYP2C8	1558	broad.mit.edu	37	chr10	96798718	96798718	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ttcttatctagaaagtggccAgggtcaaagatatttggatt	10	5	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:96798718A>G	uc001kkb.2	-	8	1322	c.1227T>C	c.(1225-1227)CCT>CCC	p.P409P	CYP2C8_uc001kkc.2_RNA|CYP2C8_uc010qoa.1_Silent_p.P339P|CYP2C8_uc010qob.1_Silent_p.P323P|CYP2C8_uc010qoc.1_Silent_p.P307P|CYP2C8_uc010qod.1_3'UTR	NM_000770	NP_000761	P10632	CP2C8_HUMAN	cytochrome P450, family 2, subfamily C,	409					exogenous drug catabolic process|organic acid metabolic process|oxidative demethylation|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|electron carrier activity|heme binding|oxygen binding				0		Colorectal(252;0.0397)		all cancers(201;6.21e-05)	Aminophenazone(DB01424)|Amiodarone(DB01118)|Amodiaquine(DB00613)|Benzphetamine(DB00865)|Carbamazepine(DB00564)|Cerivastatin(DB00439)|Diclofenac(DB00586)|Fluvastatin(DB01095)|Fosphenytoin(DB01320)|Gemfibrozil(DB01241)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Lovastatin(DB00227)|Midazolam(DB00683)|Montelukast(DB00471)|Nicardipine(DB00622)|Paclitaxel(DB01229)|Phenytoin(DB00252)|Pioglitazone(DB01132)|Repaglinide(DB00912)|Rifampin(DB01045)|Rosiglitazone(DB00412)|Simvastatin(DB00641)|Sitagliptin(DB01261)|Tolbutamide(DB01124)|Torasemide(DB00214)|Tretinoin(DB00755)|Trimethoprim(DB00440)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zopiclone(DB01198)	GAAAGTGGCCAGGGTCAAAGA	0.368													41	59	---	---	---	---	PASS	G	96798718	G	G	96798718	2	3	94	1	0	0	0	0	0	0	0	1	4167	175	7	5		5	CYP2C8	10	96798718	Silent	SNP	A	TCGA-39-5037-01A-01D-1441-08	17246450	96798718	38736029	162	35430										
PDCD11	22984	broad.mit.edu	37	chr10	105172873	105172873	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctgcccttccttttgtctagGtgagggcctgcatcctttgc	10	13	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:105172873G>A	uc001kwy.1	+	9	1066	c.979G>A	c.(979-981)GTG>ATG	p.V327M		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	327	S1 motif 3.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		TTTTGTCTAGGTGAGGGCCTG	0.587													10	73	---	---	---	---	PASS	A	105172873	A	A	105172873	3	1	94	1	0	0	0	0	1	0	0	0	11617	1275	44	3	1009	3	PDCD11	10	105172873	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	8374155	105172873	30361874	163	35431										
SLK	9748	broad.mit.edu	37	chr10	105762780	105762780	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gaatgaaatagaagaaggtaAaaataaggaacaagcaataa	9	2	0	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:105762780A>T	uc001kxo.1	+	9	1878	c.1844A>T	c.(1843-1845)AAA>ATA	p.K615I	SLK_uc001kxp.1_Missense_Mutation_p.K615I	NM_014720	NP_055535	Q9H2G2	SLK_HUMAN	serine/threonine kinase 2	615	Glu-rich.				apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GAAGAAGGTAAAAATAAGGAA	0.368													7	29	---	---	---	---	PASS	T	105762780	T	T	105762780	3	4	94	1	0	0	0	0	1	0	0	0	14748	14	1	5	1878	5	SLK	10	105762780	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	589907	105762780	29771967	164	35432										
FAM160B1	57700	broad.mit.edu	37	chr10	116602761	116602761	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aagatacattaaaaggtcagGattccttgtcaacagataca	7	7	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:116602761G>T	uc001lcb.2	+	6	927	c.592G>T	c.(592-594)GAT>TAT	p.D198Y	FAM160B1_uc001lcc.2_Missense_Mutation_p.D198Y	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	198										lung(1)	1						AAAAGGTCAGGATTCCTTGTC	0.378													11	79	---	---	---	---	PASS	T	116602761	T	T	116602761	3	4	94	1	0	0	0	0	1	0	0	0	5470	1174	41	2	614	2	FAM160B1	10	116602761	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	10839981	116602761	18931986	165	35433										
MMP21	118856	broad.mit.edu	37	chr10	127464382	127464382	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtcggacggaagatggaggcGgcgagcattggcctggtctg	19	8	1	1	rs149511576		TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:127464382G>A	uc001liu.2	-	1	9	c.9C>T	c.(7-9)GCC>GCT	p.A3A		NM_147191	NP_671724	Q8N119	MMP21_HUMAN	matrix metalloproteinase 21 preproprotein	3					proteolysis	extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				AGATGGAGGCGGCGAGCATTG	0.647													7	36	---	---	---	---	PASS	A	127464382	A	A	127464382	2	1	94	1	0	0	0	0	0	0	0	1	9660	1103	39	1		1	MMP21	10	127464382	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	10861621	127464382	8070365	166	35434										
DHX32	55760	broad.mit.edu	37	chr10	127529443	127529443	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gctagaattcagagttgtgtCttggtaagccttgtaaatgc	11	6	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:127529443C>A	uc001ljf.1	-	8	2157	c.1666G>T	c.(1666-1668)GAC>TAC	p.D556Y	BCCIP_uc001ljd.3_Intron|DHX32_uc001lje.1_Missense_Mutation_p.D180Y|DHX32_uc001ljg.1_Missense_Mutation_p.D556Y|BCCIP_uc010qui.1_Intron|BCCIP_uc001ljc.3_Intron|BCCIP_uc010quj.1_Intron	NM_018180	NP_060650	Q7L7V1	DHX32_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32	556						mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				AGAGTTGTGTCTTGGTAAGCC	0.423													80	76	---	---	---	---	PASS	A	127529443	A	A	127529443	3	1	94	1	0	0	0	0	1	0	0	0	4505	913	32	2	581	2	DHX32	10	127529443	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	65061	127529443	8005304	167	35435										
TCERG1L	256536	broad.mit.edu	37	chr10	133058677	133058677	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cgatggcaatggcggggctgCtggtcaccttaaggctgtta	15	9	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr10:133058677C>T	uc001lkp.2	-	4	787	c.701G>A	c.(700-702)AGC>AAC	p.S234N	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	234										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		ggcggGGCTGCTGGTCACCTT	0.547													2	1	---	---	---	---	PASS	T	133058677	T	T	133058677	3	4	94	1	0	0	0	0	1	0	0	0	15683	797	28	3	1095	3	TCERG1L	10	133058677	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	5529234	133058677	2476070	168	35436										
ARNTL	406	broad.mit.edu	37	chr11	13391207	13391207	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tataacccctgggccatctcGattatgttctggagcacgac	9	12	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:13391207G>A	uc001mkr.2	+	12	1121	c.713G>A	c.(712-714)CGA>CAA	p.R238Q	ARNTL_uc001mko.2_Missense_Mutation_p.R195Q|ARNTL_uc001mkp.2_Missense_Mutation_p.R238Q|ARNTL_uc001mkq.2_Missense_Mutation_p.R238Q|ARNTL_uc001mks.2_Missense_Mutation_p.R195Q|ARNTL_uc001mkt.2_Missense_Mutation_p.R238Q|ARNTL_uc001mku.2_RNA|ARNTL_uc009ygm.1_Missense_Mutation_p.R195Q|ARNTL_uc001mkv.1_Missense_Mutation_p.R195Q|ARNTL_uc001mkw.2_Missense_Mutation_p.R195Q|ARNTL_uc001mkx.2_Missense_Mutation_p.R236Q	NM_001178	NP_001169	O00327	BMAL1_HUMAN	aryl hydrocarbon receptor nuclear	238					circadian rhythm|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	aryl hydrocarbon receptor binding|DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0				Epithelial(150;0.0243)		GGGCCATCTCGATTATGTTCT	0.453													23	101	---	---	---	---	PASS	A	13391207	A	A	13391207	3	1	94	1	0	0	0	0	1	0	0	0	967	1058	37	2	758	2	ARNTL	11	13391207	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08		13391207	121615309	169	35437										
SLC6A5	9152	broad.mit.edu	37	chr11	20625906	20625906	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gacttcatcctgtccatggtGgggtacgcagtggggctggg	17	9	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:20625906G>T	uc001mqd.2	+	3	888	c.615G>T	c.(613-615)GTG>GTT	p.V205V	SLC6A5_uc009yic.2_Intron	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	205	Helical; Name=1; (Potential).				synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	TGTCCATGGTGGGGTACGCAG	0.607													17	185	---	---	---	---	PASS	T	20625906	T	T	20625906	2	4	94	1	0	0	0	0	0	0	0	1	14687	1335	47	3		3	SLC6A5	11	20625906	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	7234699	20625906	114380610	170	35438										
ANO5	203859	broad.mit.edu	37	chr11	22261201	22261201	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgggctcgattttcctatttCtacaaggagcagcctttaga	9	9	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:22261201C>T	uc001mqi.2	+	9	1166	c.849C>T	c.(847-849)TTC>TTT	p.F283F	ANO5_uc001mqj.2_Silent_p.F282F	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	283	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						TTTCCTATTTCTACAAGGAGC	0.368													21	142	---	---	---	---	PASS	T	22261201	T	T	22261201	2	4	94	1	0	0	0	0	0	0	0	1	700	912	32	2		2	ANO5	11	22261201	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	1635295	22261201	112745315	171	35439										
OR4C11	219429	broad.mit.edu	37	chr11	55371517	55371517	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acagccatgagaatgaggacAaagatctccatgcagccaaa	9	10	1	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:55371517A>C	uc010rii.1	-	1	333	c.333T>G	c.(331-333)TTT>TTG	p.F111L		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	111	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GAATGAGGACAAAGATCTCCA	0.433													8	98	---	---	---	---	PASS	C	55371517	C	C	55371517	3	2	94	1	0	0	0	0	1	0	0	0	11045	127	5	5	601	5	OR4C11	11	55371517	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	33110316	55371517	79634999	172	35440										
OR10AG1	282770	broad.mit.edu	37	chr11	55735200	55735200	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgggctgtaaataagtgataGtacctgctccaaagaataag	10	6	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:55735200G>C	uc010rit.1	-	1	740	c.740C>G	c.(739-741)ACT>AGT	p.T247S		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	247	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					ATAAGTGATAGTACCTGCTCC	0.383													29	33	---	---	---	---	PASS	C	55735200	C	C	55735200	3	2	94	1	0	0	0	0	1	0	0	0	10897	1029	36	4	168	4	OR10AG1	11	55735200	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	363683	55735200	79271316	173	35441										
OR8J3	81168	broad.mit.edu	37	chr11	55904834	55904834	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acaaatggccacatagcggtCataggccatcacagccagca	9	13	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:55904834C>A	uc010riz.1	-	1	361	c.361G>T	c.(361-363)GAC>TAC	p.D121Y		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					ACATAGCGGTCATAGGCCATC	0.498													15	114	---	---	---	---	PASS	A	55904834	A	A	55904834	3	1	94	1	0	0	0	0	1	0	0	0	11242	826	29	2	588	2	OR8J3	11	55904834	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	169634	55904834	79101682	174	35442										
OR8K3	219473	broad.mit.edu	37	chr11	56086669	56086669	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tagtttacgaaacaaagatgTaaaatatgccctacgaagga	8	6	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:56086669T>A	uc010rjf.1	+	1	887	c.887T>A	c.(886-888)GTA>GAA	p.V296E		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	296	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					AACAAAGATGTAAAATATGCC	0.323													29	29	---	---	---	---	PASS	A	56086669	A	A	56086669	3	1	94	1	0	0	0	0	1	0	0	0	11244	1638	57	5	889	5	OR8K3	11	56086669	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	181835	56086669	78919847	175	35443										
OR8J1	219477	broad.mit.edu	37	chr11	56127868	56127868	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cctgggcatcatcaccctcaCcagtgttgactctcgacttc	7	16	4	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:56127868C>A	uc010rjh.1	+	1	146	c.146C>A	c.(145-147)ACC>AAC	p.T49N		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	49	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					ATCACCCTCACCAGTGTTGAC	0.507													57	59	---	---	---	---	PASS	A	56127868	A	A	56127868	3	1	94	1	0	0	0	0	1	0	0	0	11241	507	18	3	148	3	OR8J1	11	56127868	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	41199	56127868	78878648	176	35444										
AHNAK	79026	broad.mit.edu	37	chr11	62298396	62298396	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gaggctcacatctggggcttCgatgtccaccttgggtcctg	13	12	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:62298396C>T	uc001ntl.2	-	5	3793	c.3493G>A	c.(3493-3495)GAA>AAA	p.E1165K	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1165					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TCTGGGGCTTCGATGTCCACC	0.552													99	97	---	---	---	---	PASS	T	62298396	T	T	62298396	3	4	94	1	0	0	0	0	1	0	0	0	414	893	31	2	14299	2	AHNAK	11	62298396	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	6170528	62298396	72708120	177	35445										
SYVN1	84447	broad.mit.edu	37	chr11	64898161	64898161	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gctgaggcaagagtggtgggGggtggggggcagggggtggc	27	4	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:64898161G>A	uc001odb.2	-	11	1170	c.1076C>T	c.(1075-1077)CCC>CTC	p.P359L	SYVN1_uc001odc.2_Missense_Mutation_p.P359L|SYVN1_uc009yqc.2_Missense_Mutation_p.P308L	NM_172230	NP_757385	Q86TM6	SYVN1_HUMAN	synoviolin 1 isoform b	359	Pro-rich.|Cytoplasmic (Potential).				ER-associated protein catabolic process|response to stress	endoplasmic reticulum membrane|integral to membrane|nucleus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(1)	1						GAGTGGTGGGGGGTGGGGGGC	0.657													8	10	---	---	---	---	PASS	A	64898161	A	A	64898161	3	1	94	1	0	0	0	0	1	0	0	0	15484	1232	43	3	801	3	SYVN1	11	64898161	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	2599765	64898161	70108355	178	35446										
EFEMP2	30008	broad.mit.edu	37	chr11	65634506	65634506	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acgtactcccgggggcccgtCaccggccgggcgaggaccag	16	16	1	0	rs3182964		TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:65634506C>T	uc001ofy.3	-	11	1409	c.1215G>A	c.(1213-1215)GTG>GTA	p.V405V	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Intron	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	405					blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		GGGGGCCCGTCACCGGCCGGG	0.607													72	30	---	---	---	---	PASS	T	65634506	T	T	65634506	2	4	94	1	0	0	0	0	0	0	0	1	4942	813	29	2		2	EFEMP2	11	65634506	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	736345	65634506	69372010	179	35447										
MTL5	9633	broad.mit.edu	37	chr11	68518014	68518014	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctcgtcctcctcgtacttcaCgggggccttcaggccgatgt	11	15	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:68518014C>A	uc001ooc.2	-	2	255	c.115G>T	c.(115-117)GTG>TTG	p.V39L	MTL5_uc001ood.1_Missense_Mutation_p.V39L|MTL5_uc009ysi.1_Missense_Mutation_p.V39L|MTL5_uc001ooe.2_Missense_Mutation_p.V39L	NM_004923	NP_004914	Q9Y4I5	MTL5_HUMAN	metallothionein-like 5, testis-specific isoform	39					cell differentiation|cellular metal ion homeostasis|multicellular organismal development|response to metal ion|spermatogenesis	cytoplasm|nucleus|soluble fraction	metal ion binding			ovary(2)|breast(1)	3	Esophageal squamous(3;4.37e-12)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.185)			TCGTACTTCACGGGGGCCTTC	0.667													14	12	---	---	---	---	PASS	A	68518014	A	A	68518014	3	1	94	1	0	0	0	0	1	0	0	0	9936	536	19	1	1451	1	MTL5	11	68518014	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	2883508	68518014	66488502	180	35448										
IGHMBP2	3508	broad.mit.edu	37	chr11	68685319	68685319	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agctatgctcgagagcctcaCttcggcaaacgtggtccttg	11	12	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:68685319C>G	uc001ook.1	+	7	1130	c.1028C>G	c.(1027-1029)ACT>AGT	p.T343S	IGHMBP2_uc001ooj.1_RNA	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	343	Leu-rich.				cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			GAGAGCCTCACTTCGGCAAAC	0.378													98	41	---	---	---	---	PASS	G	68685319	G	G	68685319	3	3	94	1	0	0	0	0	1	0	0	0	7591	565	20	4	1054	4	IGHMBP2	11	68685319	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	167305	68685319	66321197	181	35449										
NAALAD2	10003	broad.mit.edu	37	chr11	89883651	89883651	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tattttcttttccctataggGagatcttgtatatgtgaact	7	6	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:89883651G>C	uc001pdf.3	+	5	594	c.485G>C	c.(484-486)GGA>GCA	p.G162A	NAALAD2_uc009yvx.2_Missense_Mutation_p.G162A|NAALAD2_uc009yvy.2_Missense_Mutation_p.G162A|NAALAD2_uc001pdd.2_Missense_Mutation_p.G162A|NAALAD2_uc001pde.2_Missense_Mutation_p.G162A	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	162	Extracellular (Potential).				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				TCCCTATAGGGAGATCTTGTA	0.299													64	39	---	---	---	---	PASS	C	89883651	C	C	89883651	3	2	94	1	0	0	0	0	1	0	0	0	10128	1188	41	2	503	2	NAALAD2	11	89883651	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	21198332	89883651	45122865	182	35450										
CNTN5	53942	broad.mit.edu	37	chr11	99944959	99944959	+	Frame_Shift_Del	DEL	C	-	-													0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aagttgtcatagagtgcaaaCcccaaggctctccaaaacca							TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:99944959delC	uc001pga.2	+	13	1852	c.1513delC	c.(1513-1515)CCCfs	p.P505fs	CNTN5_uc009ywv.1_Frame_Shift_Del_p.P505fs|CNTN5_uc001pfz.2_Frame_Shift_Del_p.P505fs|CNTN5_uc001pgb.2_Frame_Shift_Del_p.P431fs	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	505	Ig-like C2-type 5.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		AGAGTGCAAACCCCAAGGCTC	0.358													18	8	---	---	---	---		-	99944959	-	-	99944959	7	5	94	1	0	1	0	1	0	0	0	0	3644	507	18	0	1555	0	CNTN5	11	99944959	Frame_Shift_Del	DEL	C	TCGA-39-5037-01A-01D-1441-08	10061308	99944959	35061557	183	35451										
ALKBH8	91801	broad.mit.edu	37	chr11	107422636	107422636	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gctttcacaaatgtcaggaaGacctacaatgagtaatcata	7	8	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:107422636G>C	uc010rvr.1	-	6	673	c.598C>G	c.(598-600)CTT>GTT	p.L200V	ALKBH8_uc001pjk.2_5'UTR|ALKBH8_uc010rvq.1_Missense_Mutation_p.L63V|ALKBH8_uc009yxp.2_Missense_Mutation_p.L200V|ALKBH8_uc001pjl.2_RNA	NM_138775	NP_620130	Q96BT7	ALKB8_HUMAN	alkB, alkylation repair homolog 8	200					response to DNA damage stimulus	cytosol|nucleus	metal ion binding|nucleotide binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|protein binding|RNA binding|tRNA (uracil) methyltransferase activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00512)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.53e-05)|Epithelial(105;0.00029)|all cancers(92;0.00518)		ATGTCAGGAAGACCTACAATG	0.313													37	30	---	---	---	---	PASS	C	107422636	C	C	107422636	3	2	94	1	0	0	0	0	1	0	0	0	533	942	33	2	1424	2	ALKBH8	11	107422636	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	7477677	107422636	27583880	184	35452										
DRD2	1813	broad.mit.edu	37	chr11	113281606	113281606	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agtgtatgttcaggatgtgtGtgatgaagaagggcagccag	16	4	1	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:113281606G>T	uc001pnz.2	-	7	1496	c.1175C>A	c.(1174-1176)ACA>AAA	p.T392K	DRD2_uc010rwv.1_Missense_Mutation_p.T391K|DRD2_uc001poa.3_Missense_Mutation_p.T392K|DRD2_uc001pob.3_Missense_Mutation_p.T363K	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	392	Agonist binding (By similarity).|Helical; Name=6; (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		all_cancers(61;3.91e-16)|all_epithelial(67;2.95e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000977)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0494)		BRCA - Breast invasive adenocarcinoma(274;5.77e-06)|Epithelial(105;6.66e-05)|all cancers(92;0.000307)|OV - Ovarian serous cystadenocarcinoma(223;0.216)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	CAGGATGTGTGTGATGAAGAA	0.607													9	76	---	---	---	---	PASS	T	113281606	T	T	113281606	3	4	94	1	0	0	0	0	1	0	0	0	4757	1377	48	3	160	3	DRD2	11	113281606	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	5858970	113281606	21724910	185	35453										
TECTA	7007	broad.mit.edu	37	chr11	121016448	121016448	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cacctatggtctgtgtggccGctacaacggcaaccctgatg	11	13	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:121016448G>A	uc010rzo.1	+	11	3728	c.3728G>A	c.(3727-3729)CGC>CAC	p.R1243H		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1243	VWFD 3.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CTGTGTGGCCGCTACAACGGC	0.532													18	89	---	---	---	---	PASS	A	121016448	A	A	121016448	3	1	94	1	0	0	0	0	1	0	0	0	15744	1087	38	1	3770	1	TECTA	11	121016448	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	7734842	121016448	13990068	186	35454										
OR10G9	219870	broad.mit.edu	37	chr11	123894283	123894283	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cccatcctgaaactggcctgTgcagacacctcagccaacga	8	16	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:123894283T>A	uc010sad.1	+	1	564	c.564T>A	c.(562-564)TGT>TGA	p.C188*		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	188	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		AACTGGCCTGTGCAGACACCT	0.522													24	229	---	---	---	---	PASS	A	123894283	A	A	123894283	4	1	94	1	0	0	0	0	0	1	0	0	10904	1702	59	5	566	5	OR10G9	11	123894283	Nonsense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	2877835	123894283	11112233	187	35455										
SIAE	54414	broad.mit.edu	37	chr11	124524593	124524593	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	caagtcaaccgcaacaaggtCctccagctcctgctctgctt	7	16	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:124524593C>T	uc001qan.2	-	4	615	c.502G>A	c.(502-504)GAC>AAC	p.D168N		NM_170601	NP_733746	Q9HAT2	SIAE_HUMAN	sialate O-acetylesterase precursor	168						extracellular region|lysosome	carboxylesterase activity|sialate O-acetylesterase activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0243)		GCAACAAGGTCCTCCAGCTCC	0.502													31	177	---	---	---	---	PASS	T	124524593	T	T	124524593	3	4	94	1	0	0	0	0	1	0	0	0	14298	855	30	2	1097	2	SIAE	11	124524593	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	630310	124524593	10481923	188	35456										
PRDM10	56980	broad.mit.edu	37	chr11	129772364	129772364	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ccaccagagagggcagaagtTtgcttttcttccaattctga	9	10	2	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr11:129772364T>A	uc001qfm.2	-	22	3559	c.3327A>T	c.(3325-3327)CAA>CAT	p.Q1109H	PRDM10_uc001qfj.2_Missense_Mutation_p.Q1010H|PRDM10_uc001qfk.2_Missense_Mutation_p.Q972H|PRDM10_uc001qfl.2_Missense_Mutation_p.Q1023H|PRDM10_uc010sbx.1_Missense_Mutation_p.Q1019H|PRDM10_uc001qfn.2_Missense_Mutation_p.Q1105H	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	1096					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		GGGCAGAAGTTTGCTTTTCTT	0.493													15	51	---	---	---	---	PASS	A	129772364	A	A	129772364	3	1	94	1	0	0	0	0	1	0	0	0	12451	1838	64	5	159	5	PRDM10	11	129772364	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	5247771	129772364	5234152	189	35457										
WNK1	65125	broad.mit.edu	37	chr12	993955	993955	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cacctccaaactttagtcatAcaggaccaacatttccagta	4	13	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:993955A>G	uc001qio.3	+	19	4492	c.3985A>G	c.(3985-3987)ACA>GCA	p.T1329A	WNK1_uc001qip.3_Missense_Mutation_p.T1082A|WNK1_uc001qir.3_Missense_Mutation_p.T502A	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1329					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CTTTAGTCATACAGGACCAAC	0.498													65	53	---	---	---	---	PASS	G	993955	G	G	993955	3	3	94	1	0	0	0	0	1	0	0	0	17374	391	14	5	5561	5	WNK1	12	993955	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08		993955	132857940	190	35458										
A2M	2	broad.mit.edu	37	chr12	9262611	9262611	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tggaaactctgccattgtgcGatgcgatttcctttgggatc	11	9	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:9262611G>A	uc001qvk.1	-	6	638	c.525C>T	c.(523-525)ATC>ATT	p.I175I	A2M_uc009zgk.1_Silent_p.I25I	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	175					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GCCATTGTGCGATGCGATTTC	0.433													99	106	---	---	---	---	PASS	A	9262611	A	A	9262611	2	1	94	1	0	0	0	0	0	0	0	1	4	1048	37	2		2	A2M	12	9262611	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	8268656	9262611	124589284	191	35459										
PRB1	5542	broad.mit.edu	37	chr12	11508439	11508439	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tttaccttcatttaagttctGagctgagctcagggccagca	9	10	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:11508439G>T	uc001qzw.1	-	1	86	c.49C>A	c.(49-51)CAG>AAG	p.Q17K	PRB1_uc001qzu.1_Missense_Mutation_p.Q17K|PRB1_uc001qzv.1_Missense_Mutation_p.Q17K	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	17						extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			TTTAAGTTCTGAGCTGAGCTC	0.517													70	86	---	---	---	---	PASS	T	11508439	T	T	11508439	3	4	94	1	0	0	0	0	1	0	0	0	12442	1299	45	2	958	2	PRB1	12	11508439	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	2245828	11508439	122343456	192	35460										
ITPR2	3709	broad.mit.edu	37	chr12	26864171	26864171	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	caagctgttccactgtcctgCacccccacggcatgggtcat	9	16	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:26864171C>T	uc001rhg.2	-	9	1303	c.886G>A	c.(886-888)GCA>ACA	p.A296T		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	296	Cytoplasmic (Potential).|MIR 4.				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)					CACTGTCCTGCACCCCCACGG	0.418													11	123	---	---	---	---	PASS	T	26864171	T	T	26864171	3	4	94	1	0	0	0	0	1	0	0	0	7921	710	25	3	7415	3	ITPR2	12	26864171	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	15355732	26864171	106987724	193	35461										
PDZRN4	29951	broad.mit.edu	37	chr12	41946553	41946553	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gacaccggcatttatgtcagCgaggtaagaaacgccatgga	12	9	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:41946553C>A	uc010skn.1	+	6	770	c.702C>A	c.(700-702)AGC>AGA	p.S234R	PDZRN4_uc001rmq.3_Missense_Mutation_p.S175R|PDZRN4_uc009zjz.2_Missense_Mutation_p.S173R|PDZRN4_uc001rmr.2_Missense_Mutation_p.S60R	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	433	PDZ 2.						ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				TTTATGTCAGCGAGGTAAGAA	0.488													38	37	---	---	---	---	PASS	A	41946553	A	A	41946553	3	1	94	1	0	0	0	0	1	0	0	0	11710	767	27	1	1394	1	PDZRN4	12	41946553	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	15082382	41946553	91905342	194	35462										
NCKAP5L	57701	broad.mit.edu	37	chr12	50190450	50190450	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aggggaggggcccctggcccTctgaggtagcaccgaagcct	16	13	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:50190450T>C	uc009zlk.2	-	8	1395	c.1193A>G	c.(1192-1194)GAG>GGG	p.E398G	NCKAP5L_uc001rvc.3_5'Flank|NCKAP5L_uc001rvb.2_5'UTR	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	394	Pro-rich.									central_nervous_system(1)	1						CCCCTGGCCCTCTGAGGTAGC	0.652													25	19	---	---	---	---	PASS	C	50190450	C	C	50190450	3	2	94	1	0	0	0	0	1	0	0	0	10224	1551	54	5	2835	5	NCKAP5L	12	50190450	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	8243897	50190450	83661445	195	35463										
KRT2	3849	broad.mit.edu	37	chr12	53038879	53038879	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cagagctagaacccccacctCcagagccatatcctcctcca	5	19	0	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:53038879C>A	uc001sat.2	-	9	1877	c.1844G>T	c.(1843-1845)GGA>GTA	p.G615V		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	615	Tail.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		ACCCCCACCTCCAGAGCCATA	0.552													4	152	---	---	---	---	PASS	A	53038879	A	A	53038879	3	1	94	1	0	0	0	0	1	0	0	0	8457	855	30	2	79	2	KRT2	12	53038879	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	2848429	53038879	80813016	196	35464										
KRT1	3848	broad.mit.edu	37	chr12	53071127	53071127	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tggtacaaggactcggcctcAgctttgctcttctgggctat	11	11	3	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:53071127A>G	uc001sau.1	-	5	1160	c.1101T>C	c.(1099-1101)GCT>GCC	p.A367A	KRT1_uc001sav.1_Silent_p.A367A	NM_006121	NP_006112	P04264	K2C1_HUMAN	keratin 1	367	Rod.|Coil 2.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding			ovary(1)|skin(1)	2						ACTCGGCCTCAGCTTTGCTCT	0.507													10	89	---	---	---	---	PASS	G	53071127	G	G	53071127	2	3	94	1	0	0	0	0	0	0	0	1	8447	175	7	5		5	KRT1	12	53071127	Silent	SNP	A	TCGA-39-5037-01A-01D-1441-08	32248	53071127	80780768	197	35465										
ITGA7	3679	broad.mit.edu	37	chr12	56079052	56079052	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acggtggcctcggggtgcttCgcccgtttgaagaatcccat	13	12	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:56079052C>T	uc001shh.2	-	25	3436	c.3216G>A	c.(3214-3216)GCG>GCA	p.A1072A	ITGA7_uc001shg.2_Silent_p.A1068A|ITGA7_uc010sps.1_Silent_p.A975A|ITGA7_uc001shf.2_Missense_Mutation_p.R84Q|ITGA7_uc009znw.2_Silent_p.A315A|ITGA7_uc009znx.2_Silent_p.A949A	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	1112	Cytoplasmic (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						CGGGGTGCTTCGCCCGTTTGA	0.607													10	85	---	---	---	---	PASS	T	56079052	T	T	56079052	2	4	94	1	0	0	0	0	0	0	0	1	7881	871	31	2		2	ITGA7	12	56079052	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	3007925	56079052	77772843	198	35466										
NAV3	89795	broad.mit.edu	37	chr12	78400498	78400498	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aattcaagctagtcaatgccCggactgctttacgccccccg	8	15	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:78400498C>A	uc001syp.2	+	8	1353	c.1180C>A	c.(1180-1182)CGG>AGG	p.R394R	NAV3_uc001syo.2_Silent_p.R394R	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	394						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AGTCAATGCCCGGACTGCTTT	0.498										HNSCC(70;0.22)			45	40	---	---	---	---	PASS	A	78400498	A	A	78400498	2	1	94	1	0	0	0	0	0	0	0	1	10185	643	23	1		1	NAV3	12	78400498	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	22321446	78400498	55451397	199	35467										
C12orf26	84190	broad.mit.edu	37	chr12	82780745	82780745	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggaaatcaaaaccagagaatTggtatgtctatttatgtgtg	10	4	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:82780745T>C	uc001szq.2	+	2	444	c.423T>C	c.(421-423)ATT>ATC	p.I141I		NM_032230	NP_115606	Q8N6Q8	CL026_HUMAN	hypothetical protein LOC84190	141											0						ACCAGAGAATTGGTATGTCTA	0.333													4	178	---	---	---	---	PASS	C	82780745	C	C	82780745	2	2	94	1	0	0	0	0	0	0	0	1	1679	1826	63	5		5	C12orf26	12	82780745	Silent	SNP	T	TCGA-39-5037-01A-01D-1441-08	4380247	82780745	51071150	200	35468										
SCYL2	55681	broad.mit.edu	37	chr12	100706354	100706354	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	taggaactgttatgtatgctGtatttaataaagggaaacct	9	4	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:100706354G>C	uc001thn.2	+	6	825	c.775G>C	c.(775-777)GTA>CTA	p.V259L	SCYL2_uc009ztw.1_Missense_Mutation_p.V86L|SCYL2_uc001thm.1_Missense_Mutation_p.V259L	NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein	259	Protein kinase.				endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						TATGTATGCTGTATTTAATAA	0.348													48	43	---	---	---	---	PASS	C	100706354	C	C	100706354	3	2	94	1	0	0	0	0	1	0	0	0	13948	1377	48	4	793	4	SCYL2	12	100706354	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	17925609	100706354	33145541	201	35469										
CCDC62	84660	broad.mit.edu	37	chr12	123276650	123276650	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aagagaaaagttgcctgcacGatgaattgctttttactggt	10	6	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:123276650G>A	uc001udc.2	+	6	899	c.754G>A	c.(754-756)GAT>AAT	p.D252N	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Missense_Mutation_p.D252N|CCDC62_uc001ude.2_Intron	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	252	Potential.					cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		TTGCCTGCACGATGAATTGCT	0.393													5	92	---	---	---	---	PASS	A	123276650	A	A	123276650	3	1	94	1	0	0	0	0	1	0	0	0	2833	1058	37	2	776	2	CCDC62	12	123276650	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	22570296	123276650	10575245	202	35470										
TMEM132D	121256	broad.mit.edu	37	chr12	129566322	129566322	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acctgaatggtggtcatcccAagctcctgccccatcaggat	9	14	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:129566322A>T	uc009zyl.1	-	7	2233	c.1905T>A	c.(1903-1905)CTT>CTA	p.L635L	TMEM132D_uc001uia.2_Silent_p.L173L	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	635	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TGGTCATCCCAAGCTCCTGCC	0.498													8	50	---	---	---	---	PASS	T	129566322	T	T	129566322	2	4	94	1	0	0	0	0	0	0	0	1	16044	117	5	5		5	TMEM132D	12	129566322	Silent	SNP	A	TCGA-39-5037-01A-01D-1441-08	6289672	129566322	4285573	203	35471										
PIWIL1	9271	broad.mit.edu	37	chr12	130827214	130827214	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cagctggtgggctccactgcCgtgagtgcttcaccgtttct	12	13	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:130827214C>T	uc001uik.2	+	2	168	c.78C>T	c.(76-78)GCC>GCT	p.A26A	PIWIL1_uc001uij.1_Silent_p.A26A	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	26					gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		GCTCCACTGCCGTGAGTGCTT	0.512													16	15	---	---	---	---	PASS	T	130827214	T	T	130827214	2	4	94	1	0	0	0	0	0	0	0	1	11957	666	23	1		1	PIWIL1	12	130827214	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	1260892	130827214	3024681	204	35472										
NOC4L	79050	broad.mit.edu	37	chr12	132635872	132635872	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtctttcacgtcaagtaccgCgcccgcttcttccacctggc	8	17	4	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr12:132635872C>T	uc001ujz.1	+	11	1073	c.1032C>T	c.(1030-1032)CGC>CGT	p.R344R		NM_024078	NP_076983	Q9BVI4	NOC4L_HUMAN	nucleolar complex associated 4 homolog	344					rRNA processing	integral to membrane|nuclear membrane|nucleolus	protein binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.2e-08)|Epithelial(86;3.34e-07)|all cancers(50;1.97e-05)		TCAAGTACCGCGCCCGCTTCT	0.657													6	167	---	---	---	---	PASS	T	132635872	T	T	132635872	2	4	94	1	0	0	0	0	0	0	0	1	10515	755	27	1		1	NOC4L	12	132635872	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	1808658	132635872	1216023	205	35473										
TPTE2	93492	broad.mit.edu	37	chr13	20012295	20012295	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	accatagtcccggttcttccTagaaaagaaaagaagttagt	8	8	1	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr13:20012295T>C	uc001umd.2	-	15	1185	c.974_splice	c.e15-1	p.G325_splice	TPTE2_uc009zzk.2_Splice_Site|TPTE2_uc009zzl.2_Splice_Site_p.G214_splice|TPTE2_uc001ume.2_Splice_Site_p.G248_splice|TPTE2_uc009zzm.2_Splice_Site|TPTE2_uc010tcm.1_Splice_Site|TPTE2_uc010tcl.1_5'UTR	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid							endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		CGGTTCttcctagaaaagaaa	0.234													30	21	---	---	---	---	PASS	C	20012295	C	C	20012295	5	2	94	1	0	0	0	0	0	0	1	0	16428	1536	53	5	624	5	TPTE2	13	20012295	Splice_Site	SNP	T	TCGA-39-5037-01A-01D-1441-08		20012295	95157583	206	35474										
ZMYM5	9205	broad.mit.edu	37	chr13	20412970	20412970	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tcccttctgtaaaggcttttTgcaatttgcacaagtgattt	7	8	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr13:20412970T>C	uc010tcn.1	-	5	1007	c.742A>G	c.(742-744)AAA>GAA	p.K248E	ZMYM5_uc001umm.1_Missense_Mutation_p.K72E|ZMYM5_uc001umn.2_Missense_Mutation_p.K248E|ZMYM5_uc001umo.2_Intron	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	248						nucleus	zinc ion binding				0		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		AAAGGCTTTTTGCAATTTGCA	0.428													43	266	---	---	---	---	PASS	C	20412970	C	C	20412970	3	2	94	1	0	0	0	0	1	0	0	0	17700	1821	63	5	1394	5	ZMYM5	13	20412970	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	400675	20412970	94756908	207	35475										
ATP12A	479	broad.mit.edu	37	chr13	25263440	25263440	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tggtctggtggtcattttaaCggggatctttgcttattacc	11	7	3	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr13:25263440C>T	uc001upp.2	+	5	660	c.473C>T	c.(472-474)ACG>ATG	p.T158M	ATP12A_uc010aaa.2_Missense_Mutation_p.T158M	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	158	Helical; (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	GTCATTTTAACGGGGATCTTT	0.537													13	109	---	---	---	---	PASS	T	25263440	T	T	25263440	3	4	94	1	0	0	0	0	1	0	0	0	1122	536	19	1	491	1	ATP12A	13	25263440	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	4850470	25263440	89906438	208	35476										
OR11H4	390442	broad.mit.edu	37	chr14	20711878	20711878	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtaataaggacatgaaactcGctctgagaaatgtcctgttt	9	7	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr14:20711878G>T	uc010tld.1	+	1	928	c.928G>T	c.(928-930)GCT>TCT	p.A310S		NM_001004479	NP_001004479	Q8NGC9	O11H4_HUMAN	olfactory receptor, family 11, subfamily H,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.000888)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0146)		CATGAAACTCGCTCTGAGAAA	0.393													21	142	---	---	---	---	PASS	T	20711878	T	T	20711878	3	4	94	1	0	0	0	0	1	0	0	0	10928	1087	38	1	930	1	OR11H4	14	20711878	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08		20711878	86637662	209	35477										
DHRS4L1	728635	broad.mit.edu	37	chr14	24505724	24505724	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgatccatgcacaaggcgcgGctacgaggccactgtgcccg	13	14	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr14:24505724G>A	uc010alc.2	+	1	15	c.15G>A	c.(13-15)CGG>CGA	p.R5R	DHRS4L1_uc010tnu.1_RNA	NM_001082488	NP_001075957	P0CG22	DR4L1_HUMAN	dehydrogenase/reductase (SDR family) member 4	5							binding|oxidoreductase activity				0						ACAAGGCGCGGCTACGAGGCC	0.662													15	14	---	---	---	---	PASS	A	24505724	A	A	24505724	2	1	94	1	0	0	0	0	0	0	0	1	4493	1190	42	3		3	DHRS4L1	14	24505724	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	3793846	24505724	82843816	210	35478										
HSPA2	3306	broad.mit.edu	37	chr14	65008628	65008628	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	caagatccagaagctgctgcAggatttcttcaacggcaagg	11	10	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr14:65008628A>T	uc001xhj.2	+	2	1137	c.1061A>T	c.(1060-1062)CAG>CTG	p.Q354L	HSPA2_uc001xhk.3_Missense_Mutation_p.Q354L	NM_021979	NP_068814	P54652	HSP72_HUMAN	heat shock 70kDa protein 2	354					response to unfolded protein|spermatid development	cell surface	ATP binding|unfolded protein binding			skin(1)	1				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)		AAGCTGCTGCAGGATTTCTTC	0.627													32	38	---	---	---	---	PASS	T	65008628	T	T	65008628	3	4	94	1	0	0	0	0	1	0	0	0	7411	188	7	5	1063	5	HSPA2	14	65008628	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	40502904	65008628	42340912	211	35479										
LTBP2	4053	broad.mit.edu	37	chr14	74975970	74975970	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agtcacccagggggctgggcCggtagcccccatcgcagtcc	14	16	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr14:74975970C>T	uc001xqa.2	-	22	3761	c.3374G>A	c.(3373-3375)CGG>CAG	p.R1125Q		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1125	EGF-like 10; calcium-binding (Potential).|Cys-rich.				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GGGGCTGGGCCGGTAGCCCCC	0.627													21	107	---	---	---	---	PASS	T	74975970	T	T	74975970	3	4	94	1	0	0	0	0	1	0	0	0	9074	652	23	1	2151	1	LTBP2	14	74975970	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	9967342	74975970	32373570	212	35480										
TTLL5	23093	broad.mit.edu	37	chr14	76186151	76186151	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgcttaggtacctgaaacaaGaaggcagagatacaaccggt	11	8	0	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr14:76186151G>C	uc001xrx.2	+	11	1121	c.916G>C	c.(916-918)GAA>CAA	p.E306Q	TTLL5_uc010ask.1_Missense_Mutation_p.E306Q|TTLL5_uc001xry.1_Intron	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	306	TTL.				protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		CCTGAAACAAGAAGGCAGAGA	0.393													47	36	---	---	---	---	PASS	C	76186151	C	C	76186151	3	2	94	1	0	0	0	0	1	0	0	0	16727	943	33	2	954	2	TTLL5	14	76186151	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	1210181	76186151	31163389	213	35481										
TMED8	283578	broad.mit.edu	37	chr14	77808245	77808245	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctgcacgtctcggtggctgtCccgccggtacacaggcatga	13	14	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr14:77808245C>A	uc001xto.1	-	6	847	c.847G>T	c.(847-849)GAC>TAC	p.D283Y	TMED8_uc010ast.1_RNA|TMED8_uc001xtn.1_Missense_Mutation_p.D127Y	NM_213601	NP_998766	Q6PL24	TMED8_HUMAN	transmembrane emp24 protein transport domain	283	GOLD.				transport	integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		CGGTGGCTGTCCCGCCGGTAC	0.607													14	11	---	---	---	---	PASS	A	77808245	A	A	77808245	3	1	94	1	0	0	0	0	1	0	0	0	16008	855	30	2	133	2	TMED8	14	77808245	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	1622094	77808245	29541295	214	35482										
ZNF839	55778	broad.mit.edu	37	chr14	102792675	102792675	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cctttgtctgcctctgacccGctggcagtaacatctctttc	7	15	3	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr14:102792675G>A	uc001ylo.2	+	2	644	c.294G>A	c.(292-294)CCG>CCA	p.P98P	ZNF839_uc010awk.1_Silent_p.P214P|ZNF839_uc001ylp.2_RNA|ZNF839_uc001ylq.1_Silent_p.P98P|ZNF839_uc001ylr.2_Silent_p.P98P	NM_018335	NP_060805	A8K0R7	ZN839_HUMAN	zinc finger protein 839	98						intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCTCTGACCCGCTGGCAGTAA	0.483													10	9	---	---	---	---	PASS	A	102792675	A	A	102792675	2	1	94	1	0	0	0	0	0	0	0	1	18185	1074	38	1		1	ZNF839	14	102792675	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	24984430	102792675	4556865	215	35483										
ADSSL1	122622	broad.mit.edu	37	chr14	105209529	105209529	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	atggtcaacggattcactgcGtaagcaacccatgctgccat	9	12	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr14:105209529G>T	uc001ypd.2	+	10	1147	c.1073_splice	c.e10+1	p.A358_splice	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Splice_Site_p.A401_splice|ADSSL1_uc001ypf.2_Splice_Site	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2						AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	GATTCACTGCGTAAGCAACCC	0.612													68	55	---	---	---	---	PASS	T	105209529	T	T	105209529	5	4	94	1	0	0	0	0	0	0	1	0	348	1159	40	1	1437	1	ADSSL1	14	105209529	Splice_Site	SNP	G	TCGA-39-5037-01A-01D-1441-08	2416854	105209529	2140011	216	35484										
OR4M2	390538	broad.mit.edu	37	chr15	22369420	22369420	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gttcaatactttaatattccCtttacgtaatcccattattt	2	9	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr15:22369420C>A	uc010tzu.1	+	1	845	c.845C>A	c.(844-846)CCT>CAT	p.P282H	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	282	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TTAATATTCCCTTTACGTAAT	0.383													43	98	---	---	---	---	PASS	A	22369420	A	A	22369420	3	1	94	1	0	0	0	0	1	0	0	0	11076	681	24	3	847	3	OR4M2	15	22369420	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08		22369420	80161972	217	35485										
HERC2	8924	broad.mit.edu	37	chr15	28483881	28483881	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ttgcgtataagtgtcacttcCtcattatttctacagttctg	6	9	4	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr15:28483881C>T	uc001zbj.2	-	24	3721	c.3615G>A	c.(3613-3615)GAG>GAA	p.E1205E		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1205					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GTGTCACTTCCTCATTATTTC	0.368													4	116	---	---	---	---	PASS	T	28483881	T	T	28483881	2	4	94	1	0	0	0	0	0	0	0	1	7058	680	24	3		3	HERC2	15	28483881	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	6114461	28483881	74047511	218	35486										
RYR3	6263	broad.mit.edu	37	chr15	33938728	33938728	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agtgaagctttccagaaaagGtgagggtgaggcctccagtt	14	7	0	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr15:33938728G>A	uc001zhi.2	+	29	4011	c.3941_splice	c.e29+1	p.R1314_splice	RYR3_uc010bar.2_Splice_Site_p.R1314_splice	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3						cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TCCAGAAAAGGTGAGGGTGAG	0.517													35	117	---	---	---	---	PASS	A	33938728	A	A	33938728	5	1	94	1	0	0	0	0	0	0	1	0	13770	1275	44	3	4056	3	RYR3	15	33938728	Splice_Site	SNP	G	TCGA-39-5037-01A-01D-1441-08	5454847	33938728	68592664	219	35487										
C15orf55	256646	broad.mit.edu	37	chr15	34640787	34640787	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aaatttccaaggacgtttatGagaacttccgtcagtggcag	10	8	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr15:34640787G>C	uc001zif.2	+	2	789	c.634G>C	c.(634-636)GAG>CAG	p.E212Q	C15orf55_uc010ucc.1_Missense_Mutation_p.E240Q|C15orf55_uc010ucd.1_Missense_Mutation_p.E230Q	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	212						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		GGACGTTTATGAGAACTTCCG	0.542			T	BRD3|BRD4	lethal midline carcinoma								61	75	---	---	---	---	PASS	C	34640787	C	C	34640787	3	2	94	1	0	0	0	0	1	0	0	0	1803	1291	45	2	640	2	C15orf55	15	34640787	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	702059	34640787	67890605	220	35488										
ITPKA	3706	broad.mit.edu	37	chr15	41793728	41793728	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aagccctttcaagaagcgctAcgcctgggtgcagctggcag	13	12	1	1	rs143540732		TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr15:41793728A>T	uc001znz.2	+	2	568	c.557A>T	c.(556-558)TAC>TTC	p.Y186F		NM_002220	NP_002211	P23677	IP3KA_HUMAN	1D-myo-inositol-trisphosphate 3-kinase A	186					signal transduction		ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity				0		all_cancers(109;1.89e-19)|all_epithelial(112;2.28e-16)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.172)		OV - Ovarian serous cystadenocarcinoma(18;7.63e-17)|GBM - Glioblastoma multiforme(113;1.34e-06)|Colorectal(105;0.0148)|BRCA - Breast invasive adenocarcinoma(123;0.113)		AAGAAGCGCTACGCCTGGGTG	0.637													5	27	---	---	---	---	PASS	T	41793728	T	T	41793728	3	4	94	1	0	0	0	0	1	0	0	0	7917	391	14	5	563	5	ITPKA	15	41793728	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	7152941	41793728	60737664	221	35489										
ATP8B4	79895	broad.mit.edu	37	chr15	50154566	50154566	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tctgggtcagggaatgtcgtGcattacctatcaatcattaa	9	8	4	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr15:50154566G>A	uc001zxu.2	-	27	3315	c.3173C>T	c.(3172-3174)GCA>GTA	p.A1058V	ATP8B4_uc010ber.2_Missense_Mutation_p.A931V|ATP8B4_uc010ufd.1_Missense_Mutation_p.A868V|ATP8B4_uc010ufe.1_RNA|ATP8B4_uc001zxt.2_Missense_Mutation_p.A61V	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	1058	Extracellular (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		GGAATGTCGTGCATTACCTAT	0.358													31	94	---	---	---	---	PASS	A	50154566	A	A	50154566	3	1	94	1	0	0	0	0	1	0	0	0	1197	1319	46	3	413	3	ATP8B4	15	50154566	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	8360838	50154566	52376826	222	35490										
ATP8B4	79895	broad.mit.edu	37	chr15	50158629	50158629	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agaaataaatggcaatgctcCcccagatgaagacgtgatta	9	8	0	5			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr15:50158629C>A	uc001zxu.2	-	26	3222	c.3080G>T	c.(3079-3081)GGG>GTG	p.G1027V	ATP8B4_uc010ber.2_Missense_Mutation_p.G900V|ATP8B4_uc010ufd.1_Missense_Mutation_p.G837V|ATP8B4_uc010ufe.1_RNA|ATP8B4_uc001zxt.2_Missense_Mutation_p.G30V	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	1027	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		GGCAATGCTCCCCCAGATGAA	0.383													37	61	---	---	---	---	PASS	A	50158629	A	A	50158629	3	1	94	1	0	0	0	0	1	0	0	0	1197	623	22	3	510	3	ATP8B4	15	50158629	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	4063	50158629	52372763	223	35491										
UACA	55075	broad.mit.edu	37	chr15	70968849	70968849	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tacctcaaaatatttaaatcTatttttcagagcctcaatag	3	8	4	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr15:70968849T>C	uc002asr.2	-	13	1218	c.1114A>G	c.(1114-1116)AGA>GGA	p.R372G	UACA_uc010uke.1_Missense_Mutation_p.R263G|UACA_uc002asq.2_Missense_Mutation_p.R359G|UACA_uc010bin.1_Missense_Mutation_p.R347G	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	372	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						TATTTAAATCTATTTTTCAGA	0.229													51	59	---	---	---	---	PASS	C	70968849	C	C	70968849	3	2	94	1	0	0	0	0	1	0	0	0	16821	1530	53	5	3164	5	UACA	15	70968849	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	20810220	70968849	31562543	224	35492										
CD276	80381	broad.mit.edu	37	chr15	73996604	73996604	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	catcacgtgctccagctaccGgggctaccctgaggctgagg	13	14	1	2	rs150186392	byFrequency	TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr15:73996604G>A	uc002avv.1	+	6	1394	c.1160G>A	c.(1159-1161)CGG>CAG	p.R387Q	CD276_uc010bjd.1_Missense_Mutation_p.R241Q|CD276_uc002avu.1_Missense_Mutation_p.R387Q|CD276_uc002avw.1_Missense_Mutation_p.R169Q|CD276_uc010ulb.1_Missense_Mutation_p.R333Q|CD276_uc002avx.2_RNA	NM_001024736	NP_001019907	Q5ZPR3	CD276_HUMAN	CD276 antigen isoform a	387	Extracellular (Potential).|Ig-like C2-type 2.			R -> Q (in Ref. 3; AAQ88709).	cell proliferation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of T cell proliferation|regulation of immune response|T cell activation	external side of plasma membrane|integral to membrane	receptor binding			skin(1)	1						TCCAGCTACCGGGGCTACCCT	0.637													6	70	---	---	---	---	PASS	A	73996604	A	A	73996604	3	1	94	1	0	0	0	0	1	0	0	0	2992	1116	39	1	1178	1	CD276	15	73996604	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	3027755	73996604	28534788	225	35493										
ST8SIA2	8128	broad.mit.edu	37	chr15	92981642	92981642	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ttctgtcctaaagggaacccTgaagcctggagatattattc	9	9	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr15:92981642T>G	uc002bra.2	+	4	505	c.350T>G	c.(349-351)CTG>CGG	p.L117R	ST8SIA2_uc002brb.2_Missense_Mutation_p.L96R	NM_006011	NP_006002	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide	117	Lumenal (Potential).				axon guidance|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity				0	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			AAGGGAACCCTGAAGCCTGGA	0.468													104	229	---	---	---	---	PASS	G	92981642	G	G	92981642	3	3	94	1	0	0	0	0	1	0	0	0	15231	1580	55	5	364	5	ST8SIA2	15	92981642	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	18985038	92981642	9549750	226	35494										
A2BP1	54715	broad.mit.edu	37	chr16	7568163	7568163	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tttcagggtaatcaggaagcAgccgctgcccctgacacaat	10	12	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr16:7568163A>C	uc002cys.2	+	5	1030	c.42A>C	c.(40-42)GCA>GCC	p.A14A	A2BP1_uc010buf.1_Silent_p.A14A|A2BP1_uc002cyr.1_Silent_p.A14A|A2BP1_uc002cyt.2_Silent_p.A14A|A2BP1_uc010uxz.1_Silent_p.A57A|A2BP1_uc010uya.1_Silent_p.A50A|A2BP1_uc002cyv.1_Silent_p.A14A|A2BP1_uc010uyb.1_Silent_p.A14A|A2BP1_uc002cyw.2_Silent_p.A34A|A2BP1_uc002cyy.2_Silent_p.A34A|A2BP1_uc002cyx.2_Silent_p.A34A|A2BP1_uc010uyc.1_Silent_p.A34A	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	14					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		ATCAGGAAGCAGCCGCTGCCC	0.582													38	110	---	---	---	---	PASS	C	7568163	C	C	7568163	2	2	94	1	0	0	0	0	0	0	0	1	3	175	7	5		5	A2BP1	16	7568163	Silent	SNP	A	TCGA-39-5037-01A-01D-1441-08		7568163	82786590	227	35495										
TRIM72	493829	broad.mit.edu	37	chr16	31226446	31226446	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gccgaggcccacgcacgcctCaaggtgcgggatccgcgcgc	15	17	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr16:31226446C>G	uc002ebn.1	+	2	616	c.387C>G	c.(385-387)CTC>CTG	p.L129L		NM_001008274	NP_001008275	Q6ZMU5	TRI72_HUMAN	tripartite motif-containing 72	129					exocytosis|muscle organ development|muscle system process|plasma membrane repair|protein homooligomerization	cytoplasmic vesicle membrane|sarcolemma	phosphatidylserine binding|zinc ion binding				0						ACGCACGCCTCAAGGTGCGGG	0.692													6	11	---	---	---	---	PASS	G	31226446	G	G	31226446	2	3	94	1	0	0	0	0	0	0	0	1	16542	813	29	2		2	TRIM72	16	31226446	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	23658283	31226446	59128307	228	35496										
ITGAX	3687	broad.mit.edu	37	chr16	31382999	31382999	+	Missense_Mutation	SNP	G	A	A													0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cctggccctcgaccctggccGcctgagtccccgtgccacct					rs146647978	byFrequency	TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr16:31382999G>A	uc002ebu.1	+	17	2121	c.2054G>A	c.(2053-2055)CGC>CAC	p.R685H	ITGAX_uc002ebt.2_Missense_Mutation_p.R685H	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	685	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GACCCTGGCCGCCTGAGTCCC	0.607													28	75	---	---	---	---	PASS	A	31382999	A	A	31382999	3	1	94	1	0	0	0	0	1	0	0	0	7889	1087	38	1	2120	1	ITGAX	16	31382999	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	156553	31382999	58971754	229	35497	669	2								
ITGAX	3687	broad.mit.edu	37	chr16	31383005	31383005	+	Missense_Mutation	SNP	G	T	T													0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cctcgaccctggccgcctgaGtccccgtgccaccttccagg							TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr16:31383005G>T	uc002ebu.1	+	17	2127	c.2060G>T	c.(2059-2061)AGT>ATT	p.S687I	ITGAX_uc002ebt.2_Missense_Mutation_p.S687I	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	687	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GGCCGCCTGAGTCCCCGTGCC	0.617													17	82	---	---	---	---	PASS	T	31383005	T	T	31383005	3	4	94	1	0	0	0	0	1	0	0	0	7889	1029	36	3	2126	3	ITGAX	16	31383005	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	6	31383005	58971748	230	35498	669	2								
ITGAD	3681	broad.mit.edu	37	chr16	31424157	31424157	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cacccttttctcttctggccAgcggattgccagctcccagc	8	17	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr16:31424157A>T	uc002ebv.1	+	15	1757	c.1708_splice	c.e15-2	p.R570_splice	ITGAD_uc010cap.1_Splice_Site_p.R571_splice	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor						cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						TCTTCTGGCCAGCGGATTGCC	0.567													44	82	---	---	---	---	PASS	T	31424157	T	T	31424157	5	4	94	1	0	0	0	0	0	0	1	0	7884	202	7	5	1764	5	ITGAD	16	31424157	Splice_Site	SNP	A	TCGA-39-5037-01A-01D-1441-08	41152	31424157	58930596	231	35499										
PHKB	5257	broad.mit.edu	37	chr16	47581411	47581411	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgtgcctgactttggtgtctGggaaagaggaagcaaatata	13	5	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr16:47581411G>T	uc002eev.3	+	7	714	c.662G>T	c.(661-663)TGG>TTG	p.W221L	PHKB_uc010vgi.1_Missense_Mutation_p.W214L|PHKB_uc002eeu.3_Missense_Mutation_p.W214L	NM_000293	NP_000284	Q93100	KPBB_HUMAN	phosphorylase kinase, beta isoform a	221					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				TTTGGTGTCTGGGAAAGAGGA	0.333													29	85	---	---	---	---	PASS	T	47581411	T	T	47581411	3	4	94	1	0	0	0	0	1	0	0	0	11845	1357	47	3	747	3	PHKB	16	47581411	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	16157254	47581411	42773342	232	35500										
RBL2	5934	broad.mit.edu	37	chr16	53487406	53487406	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	taaagattctaaaccttcctCtgaccccccttgtatcattg	4	13	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr16:53487406C>T	uc002ehi.3	+	6	927	c.809C>T	c.(808-810)TCT>TTT	p.S270F	RBL2_uc010vgv.1_Missense_Mutation_p.S196F|RBL2_uc002ehj.2_5'UTR|RBL2_uc010vgw.1_Missense_Mutation_p.S54F	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	270					cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						AAACCTTCCTCTGACCCCCCT	0.378													6	319	---	---	---	---	PASS	T	53487406	T	T	53487406	3	4	94	1	0	0	0	0	1	0	0	0	13110	913	32	2	831	2	RBL2	16	53487406	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	5905995	53487406	36867347	233	35501										
CLEC3A	10143	broad.mit.edu	37	chr16	78064472	78064472	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ttatccccaggaactccgacGaaatcaacgccctccaagac	6	16	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr16:78064472G>C	uc002ffh.3	+	3	409	c.328G>C	c.(328-330)GAA>CAA	p.E110Q		NM_005752	NP_005743	O75596	CLC3A_HUMAN	C-type lectin domain family 3 member A	110	C-type lectin.				skeletal system development	extracellular region	sugar binding				0						GAACTCCGACGAAATCAACGC	0.478													24	81	---	---	---	---	PASS	C	78064472	C	C	78064472	3	2	94	1	0	0	0	0	1	0	0	0	3510	1059	37	2	338	2	CLEC3A	16	78064472	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	24577066	78064472	12290281	234	35502										
INPP5K	51763	broad.mit.edu	37	chr17	1399417	1399417	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctgtagtaacagaggagaaaCtcatcttcagtggtagggat	12	6	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr17:1399417C>T	uc002fsr.2	-	11	1616	c.1227G>A	c.(1225-1227)GAG>GAA	p.E409E	INPP5K_uc002fss.2_Silent_p.E333E|INPP5K_uc002fsq.2_Silent_p.E333E|INPP5K_uc010cjr.2_Silent_p.E333E|INPP5K_uc010vql.1_Silent_p.E317E|INPP5K_uc010vqm.1_Silent_p.E313E	NM_016532	NP_057616	Q9BT40	INP5K_HUMAN	inositol polyphosphate-5-phosphatase K isoform	409	Required for ruffle localization.				actin cytoskeleton organization	cytosol|endoplasmic reticulum|membrane fraction|neuron projection|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol bisphosphate phosphatase activity|inositol bisphosphate phosphatase activity|inositol trisphosphate phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|lipid phosphatase activity|protein binding				0						AGAGGAGAAACTCATCTTCAG	0.308													51	27	---	---	---	---	PASS	T	1399417	T	T	1399417	2	4	94	1	0	0	0	0	0	0	0	1	7760	564	20	3		3	INPP5K	17	1399417	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08		1399417	79795793	235	35503										
OR3A2	4995	broad.mit.edu	37	chr17	3181346	3181346	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgaggctgtagataagagggTtcagcatagggttgataaca	14	4	1	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr17:3181346T>A	uc002fvg.2	-	1	923	c.884A>T	c.(883-885)AAC>ATC	p.N295I		NM_002551	NP_002542	P47893	OR3A2_HUMAN	olfactory receptor, family 3, subfamily A,	295	Helical; Name=7; (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						GATAAGAGGGTTCAGCATAGG	0.478													69	28	---	---	---	---	PASS	A	3181346	A	A	3181346	3	1	94	1	0	0	0	0	1	0	0	0	11038	1725	60	5	85	5	OR3A2	17	3181346	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	1781929	3181346	78013864	236	35504										
TP53	7157	broad.mit.edu	37	chr17	7578395	7578395	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gctatctgagcagcgctcatGgtgggggcagcgcctcacaa	14	12	3	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr17:7578395G>C	uc002gim.2	-	5	729	c.535C>G	c.(535-537)CAT>GAT	p.H179D	TP53_uc002gig.1_Missense_Mutation_p.H179D|TP53_uc002gih.2_Missense_Mutation_p.H179D|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H47D|TP53_uc010cng.1_Missense_Mutation_p.H47D|TP53_uc002gii.1_Missense_Mutation_p.H47D|TP53_uc010cnh.1_Missense_Mutation_p.H179D|TP53_uc010cni.1_Missense_Mutation_p.H179D|TP53_uc002gij.2_Missense_Mutation_p.H179D|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.H86D|TP53_uc002gio.2_Missense_Mutation_p.H47D|TP53_uc010vug.1_Missense_Mutation_p.H140D	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	179	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	H -> Q (in sporadic cancers; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|HH -> QS (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> D (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> Y (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H179R(99)|p.H179Y(74)|p.H179L(31)|p.H179Q(17)|p.H179N(13)|p.H179D(10)|p.P177_C182delPHHERC(8)|p.0?(7)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.H179P(3)|p.R175_E180delRCPHHE(3)|p.H179fs*68(2)|p.H179H(2)|p.P177fs*3(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.K164_P219del(1)|p.C176fs*65(1)|p.C176fs*68(1)|p.P177_H179delPHH(1)|p.V173fs*23(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.H179del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.H178fs*6(1)|p.P177_E180delPHHE(1)|p.R42fs*24(1)|p.R174fs*3(1)|p.H178_H179>QY(1)|p.E171fs*61(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CAGCGCTCATGGTGGGGGCAG	0.642		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			51	24	---	---	---	---	PASS	C	7578395	C	C	7578395	3	2	94	1	0	0	0	0	1	0	0	0	16378	1348	47	4	763	4	TP53	17	7578395	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	4397049	7578395	73616815	237	35505										
MYH4	4622	broad.mit.edu	37	chr17	10358039	10358039	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctctgcactcttgaggagggGcttgatcttgaaatacagct	11	9	3	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr17:10358039G>T	uc002gmn.2	-	22	2635	c.2524C>A	c.(2524-2526)CCC>ACC	p.P842T	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	842					muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TTGAGGAGGGGCTTGATCTTG	0.453													47	34	---	---	---	---	PASS	T	10358039	T	T	10358039	3	4	94	1	0	0	0	0	1	0	0	0	10037	1203	42	3	3371	3	MYH4	17	10358039	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	2779644	10358039	70837171	238	35506										
DNAH9	1770	broad.mit.edu	37	chr17	11797796	11797796	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tggagttcctctcccatcagGcgtggggagctgtcaaggtc	14	11	3	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr17:11797796G>A	uc002gne.2	+	59	11457	c.11389G>A	c.(11389-11391)GCG>ACG	p.A3797T	DNAH9_uc010coo.2_Missense_Mutation_p.A3091T|DNAH9_uc002gnf.2_Missense_Mutation_p.A109T|DNAH9_uc010vvh.1_Missense_Mutation_p.A150T	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3797					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CTCCCATCAGGCGTGGGGAGC	0.547													42	33	---	---	---	---	PASS	A	11797796	A	A	11797796	3	1	94	1	0	0	0	0	1	0	0	0	4608	1203	42	3	11623	3	DNAH9	17	11797796	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	1439757	11797796	69397414	239	35507										
BRCA1	672	broad.mit.edu	37	chr17	41245215	41245215	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acgagatactttcctgagtgCcataatcagtaccaggtacc	8	11	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr17:41245215C>T	uc002icq.2	-	10	2565	c.2333G>A	c.(2332-2334)GGC>GAC	p.G778D	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.G707D|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.G731D|BRCA1_uc002ict.2_Missense_Mutation_p.G778D|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.G778D|BRCA1_uc002ide.1_Missense_Mutation_p.G609D|BRCA1_uc010cyy.1_Missense_Mutation_p.G778D|BRCA1_uc010whs.1_Missense_Mutation_p.G778D|BRCA1_uc010cyz.2_Missense_Mutation_p.G731D|BRCA1_uc010cza.2_Missense_Mutation_p.G752D|BRCA1_uc010wht.1_Missense_Mutation_p.G482D	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	778			G -> C (in a breast cancer sample; somatic mutation).		androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding	p.G778C(1)		ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TTCCTGAGTGCCATAATCAGT	0.418			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			152	221	---	---	---	---	PASS	T	41245215	T	T	41245215	3	4	94	1	0	0	0	0	1	0	0	0	1498	739	26	3	3384	3	BRCA1	17	41245215	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	29447419	41245215	39949995	240	35508										
GRN	2896	broad.mit.edu	37	chr17	42429094	42429094	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtcccctgtgataatgtcagCagctgtccctcctccgatac	8	15	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr17:42429094C>T	uc002igp.1	+	10	1329	c.1110C>T	c.(1108-1110)AGC>AGT	p.S370S	GRN_uc002igr.1_Silent_p.S164S	NM_002087	NP_002078	P28799	GRN_HUMAN	granulin precursor	370					signal transduction	extracellular space	cytokine activity|growth factor activity			ovary(2)|central_nervous_system(2)|skin(1)	5		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		ATAATGTCAGCAGCTGTCCCT	0.612													62	70	---	---	---	---	PASS	T	42429094	T	T	42429094	2	4	94	1	0	0	0	0	0	0	0	1	6804	709	25	3		3	GRN	17	42429094	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	1183879	42429094	38766116	241	35509										
SCRN2	90507	broad.mit.edu	37	chr17	45915974	45915974	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ggcaggacagacaccatgctGgccgtggtgcgaaagcctcc	14	13	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr17:45915974G>A	uc002imd.2	-	6	987	c.861C>T	c.(859-861)GCC>GCT	p.A287A	SCRN2_uc002imc.2_Silent_p.A295A|SCRN2_uc002imf.2_Silent_p.A287A|SCRN2_uc002ime.2_RNA	NM_138355	NP_612364	Q96FV2	SCRN2_HUMAN	secernin 2 isoform 1	287					proteolysis		dipeptidase activity			ovary(1)	1						ACACCATGCTGGCCGTGGTGC	0.607													46	74	---	---	---	---	PASS	A	45915974	A	A	45915974	2	1	94	1	0	0	0	0	0	0	0	1	13939	1335	47	3		3	SCRN2	17	45915974	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	3486880	45915974	35279236	242	35510										
CBX8	57332	broad.mit.edu	37	chr17	77768640	77768640	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cccctgggcccccatgtcccGgtacaggccccccccagagc	10	22	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr17:77768640G>C	uc002jxd.1	-	5	1057	c.964C>G	c.(964-966)CGG>GGG	p.R322G		NM_020649	NP_065700	Q9HC52	CBX8_HUMAN	chromobox homolog 8	322					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear chromatin|PcG protein complex	methylated histone residue binding				0			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CCCATGTCCCGGTACAGGCCC	0.701													9	28	---	---	---	---	PASS	C	77768640	C	C	77768640	3	2	94	1	0	0	0	0	1	0	0	0	2724	1116	39	4	184	4	CBX8	17	77768640	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	31852666	77768640	3426570	243	35511										
CCDC40	55036	broad.mit.edu	37	chr17	78071154	78071154	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tcggtgattcaggcagacttCgacacactcgaggccgacct	11	13	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr17:78071154C>T	uc010dht.2	+	19	3159	c.3132C>T	c.(3130-3132)TTC>TTT	p.F1044F	CCDC40_uc002jxm.3_Silent_p.F827F|CCDC40_uc002jxn.3_Silent_p.F440F	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	1044	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			AGGCAGACTTCGACACACTCG	0.562													12	107	---	---	---	---	PASS	T	78071154	T	T	78071154	2	4	94	1	0	0	0	0	0	0	0	1	2812	883	31	2		2	CCDC40	17	78071154	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	302514	78071154	3124056	244	35512										
DSC1	1823	broad.mit.edu	37	chr18	28712547	28712547	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ttaccgttacttcttctccaGgtccttcagtatttgataca	5	11	3	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr18:28712547G>T	uc002kwn.2	-	14	2484	c.2222C>A	c.(2221-2223)CCT>CAT	p.P741H	DSC1_uc002kwm.2_Missense_Mutation_p.P741H	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	741	Cytoplasmic (Potential).				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			TTCTTCTCCAGGTCCTTCAGT	0.343													69	158	---	---	---	---	PASS	T	28712547	T	T	28712547	3	4	94	1	0	0	0	0	1	0	0	0	4765	1000	35	3	514	3	DSC1	18	28712547	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08		28712547	49364701	245	35513										
KIAA1632	57724	broad.mit.edu	37	chr18	43458381	43458381	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	caggatccatggcttaaagaGctgaatgattactgaatgta	10	6	0	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr18:43458381G>T	uc002lbm.2	-	34	6002	c.5902C>A	c.(5902-5904)CTC>ATC	p.L1968I	KIAA1632_uc010xcq.1_Missense_Mutation_p.L522I|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.L843I	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1968					autophagy						0						GGCTTAAAGAGCTGAATGATT	0.323													35	82	---	---	---	---	PASS	T	43458381	T	T	43458381	3	4	94	1	0	0	0	0	1	0	0	0	8249	971	34	3	1881	3	KIAA1632	18	43458381	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	14745834	43458381	34618867	246	35514										
HMHA1	23526	broad.mit.edu	37	chr19	1068656	1068656	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ccgagggtgccggcccggacGtcgtcgaggacatctcccat	14	15	1	0	rs138476769		TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:1068656G>T	uc002lqz.1	+	2	565	c.334G>T	c.(334-336)GTC>TTC	p.V112F	HMHA1_uc010xgd.1_Missense_Mutation_p.V128F|HMHA1_uc010xge.1_Intron|HMHA1_uc002lra.1_5'UTR|HMHA1_uc002lrb.1_5'Flank	NM_012292	NP_036424	Q92619	HMHA1_HUMAN	minor histocompatibility antigen HA-1	112					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGCCCGGACGTCGTCGAGGA	0.692													11	40	---	---	---	---	PASS	T	1068656	T	T	1068656	3	4	94	1	0	0	0	0	1	0	0	0	7240	1145	40	1	340	1	HMHA1	19	1068656	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08		1068656	58060327	247	35515										
FUT5	2527	broad.mit.edu	37	chr19	5867472	5867472	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tgagcagcggggcagagccaCgggtgtgttaaaaggccacg	17	9	0	2	rs141356302		TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:5867472C>G	uc002mdo.3	-	2	353	c.265G>C	c.(265-267)GTG>CTG	p.V89L	FUT5_uc010duo.2_Missense_Mutation_p.V89L	NM_002034	NP_002025	Q11128	FUT5_HUMAN	fucosyltransferase 5	89	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity|alpha(1,3)-fucosyltransferase activity				0						GGCAGAGCCACGGGTGTGTTA	0.662													18	43	---	---	---	---	PASS	G	5867472	G	G	5867472	3	3	94	1	0	0	0	0	1	0	0	0	6107	536	19	4	863	4	FUT5	19	5867472	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	4798816	5867472	53261511	248	35516										
EMR1	2015	broad.mit.edu	37	chr19	6901981	6901981	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtttctgcaacccaggatttGaatccagcagtggccacttg	10	11	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:6901981G>A	uc002mfw.2	+	6	648	c.610G>A	c.(610-612)GAA>AAA	p.E204K	EMR1_uc010dvc.2_Missense_Mutation_p.E204K|EMR1_uc010dvb.2_Missense_Mutation_p.E152K|EMR1_uc010xji.1_Intron|EMR1_uc010xjj.1_Intron	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	204	Extracellular (Potential).|EGF-like 4; calcium-binding (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					CCCAGGATTTGAATCCAGCAG	0.473													107	195	---	---	---	---	PASS	A	6901981	A	A	6901981	3	1	94	1	0	0	0	0	1	0	0	0	5104	1291	45	2	632	2	EMR1	19	6901981	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	1034509	6901981	52227002	249	35517										
EVI5L	115704	broad.mit.edu	37	chr19	7914140	7914140	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctcaggacttgttcccttctAggcatactcgctggtagacc	9	13	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:7914140A>G	uc002min.2	+	5	707	c.553_splice	c.e5-2	p.A185_splice	EVI5L_uc010xjz.1_Splice_Site_p.A185_splice|EVI5L_uc002mio.1_5'Flank	NM_145245	NP_660288	Q96CN4	EVI5L_HUMAN	ecotropic viral integration site 5-like isoform							intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						GTTCCCTTCTAGGCATACTCG	0.652													25	54	---	---	---	---	PASS	G	7914140	G	G	7914140	5	3	94	1	0	0	0	0	0	0	1	0	5290	434	15	5	565	5	EVI5L	19	7914140	Splice_Site	SNP	A	TCGA-39-5037-01A-01D-1441-08	1012159	7914140	51214843	250	35518										
OR2Z1	284383	broad.mit.edu	37	chr19	8842253	8842253	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cacccctacactcaacccccTtatctacagtctgaggaatc	4	17	3	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:8842253T>C	uc010xkg.1	+	1	863	c.863T>C	c.(862-864)CTT>CCT	p.L288P		NM_001004699	NP_001004699	Q8NG97	OR2Z1_HUMAN	olfactory receptor, family 2, subfamily Z,	288	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2						CTCAACCCCCTTATCTACAGT	0.517													38	58	---	---	---	---	PASS	C	8842253	C	C	8842253	3	2	94	1	0	0	0	0	1	0	0	0	11036	1609	56	5	865	5	OR2Z1	19	8842253	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	928113	8842253	50286730	251	35519										
ZNF266	10781	broad.mit.edu	37	chr19	9524910	9524910	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtctccagtgtgggttcccaTgtgaatattaaggtatgcag	12	7	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:9524910T>C	uc002mll.2	-	4	957	c.691A>G	c.(691-693)ATG>GTG	p.M231V	ZNF266_uc002mlm.2_Missense_Mutation_p.M231V|ZNF266_uc002mln.2_Missense_Mutation_p.M231V|ZNF266_uc002mlo.2_Missense_Mutation_p.M231V|ZNF266_uc010dwp.2_Missense_Mutation_p.M231V|ZNF266_uc010dwq.2_Missense_Mutation_p.M231V	NM_198058	NP_932175	Q14584	ZN266_HUMAN	zinc finger protein 266	231	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGGGTTCCCATGTGAATATTA	0.428													32	56	---	---	---	---	PASS	C	9524910	C	C	9524910	3	2	94	1	0	0	0	0	1	0	0	0	17802	1464	51	5	962	5	ZNF266	19	9524910	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	682657	9524910	49604073	252	35520										
SMARCA4	6597	broad.mit.edu	37	chr19	11096052	11096052	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ccatgctgggatggggccccCgcccagccccatggaccagc	13	18	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:11096052C>T	uc002mqf.3	+	3	610	c.326C>T	c.(325-327)CCG>CTG	p.P109L	SMARCA4_uc010dxp.2_Missense_Mutation_p.P109L|SMARCA4_uc010dxo.2_Missense_Mutation_p.P109L|SMARCA4_uc002mqg.1_Missense_Mutation_p.P109L|SMARCA4_uc010dxq.2_Missense_Mutation_p.P109L|SMARCA4_uc010dxr.2_Missense_Mutation_p.P109L|SMARCA4_uc002mqj.3_Missense_Mutation_p.P109L|SMARCA4_uc010dxs.2_Missense_Mutation_p.P109L|SMARCA4_uc002mqe.2_Missense_Mutation_p.P109L	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	109	Necessary for interaction with SS18L1/CREST (By similarity).				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				ATGGGGCCCCCGCCCAGCCCC	0.587			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				4	35	---	---	---	---	PASS	T	11096052	T	T	11096052	3	4	94	1	0	0	0	0	1	0	0	0	14770	652	23	1	332	1	SMARCA4	19	11096052	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	1571142	11096052	48032931	253	35521										
CCDC159	126075	broad.mit.edu	37	chr19	11460627	11460627	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cccacagccaagaccattgtGatgattcccgactcccagaa	7	15	0	4			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:11460627G>A	uc010xlw.1	+	4	397	c.318G>A	c.(316-318)GTG>GTA	p.V106V	CCDC159_uc010xlr.1_Silent_p.V23V|CCDC159_uc010xls.1_Silent_p.V23V|CCDC159_uc010xlt.1_Silent_p.V23V|CCDC159_uc010xlu.1_Silent_p.V22V|CCDC159_uc010xlv.1_Silent_p.V22V	NM_001080503	NP_001073972	P0C7I6	CC159_HUMAN	coiled-coil domain-containing-like	138										ovary(1)	1						AGACCATTGTGATGATTCCCG	0.592													5	41	---	---	---	---	PASS	A	11460627	A	A	11460627	2	1	94	1	0	0	0	0	0	0	0	1	2791	1277	45	2		2	CCDC159	19	11460627	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	364575	11460627	47668356	254	35522										
CCDC151	115948	broad.mit.edu	37	chr19	11537702	11537702	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cccgcccctaccttggccacCtccgtgtgtctgttttgcgc	9	18	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:11537702C>A	uc002mrs.2	-	4	746	c.603G>T	c.(601-603)GAG>GAT	p.E201D	CCDC151_uc002mrr.2_Missense_Mutation_p.E136D|CCDC151_uc010dxz.2_Missense_Mutation_p.E175D	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	201	Potential.									ovary(1)	1						CCTTGGCCACCTCCGTGTGTC	0.682													38	69	---	---	---	---	PASS	A	11537702	A	A	11537702	3	1	94	1	0	0	0	0	1	0	0	0	2786	680	24	3	1224	3	CCDC151	19	11537702	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	77075	11537702	47591281	255	35523										
ZNF91	7644	broad.mit.edu	37	chr19	23543202	23543202	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aagattgattaaaagctttgCcacattcctcacatttgtag	6	8	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:23543202C>A	uc002nre.2	-	4	2692	c.2579G>T	c.(2578-2580)GGC>GTC	p.G860V	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.G828V	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	860	C2H2-type 26.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				AAAAGCTTTGCCACATTCCTC	0.348													22	56	---	---	---	---	PASS	A	23543202	A	A	23543202	3	1	94	1	0	0	0	0	1	0	0	0	18197	739	26	3	1000	3	ZNF91	19	23543202	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	12005500	23543202	35585781	256	35524										
PSG6	5675	broad.mit.edu	37	chr19	43414815	43414815	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	catagggtcctgcaatatacTttgtgacaccaaatagatag	8	8	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:43414815T>C	uc002ovj.1	-	3	675	c.623A>G	c.(622-624)AAG>AGG	p.K208R	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Missense_Mutation_p.K215R|PSG6_uc002ovi.2_Missense_Mutation_p.K209R|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG6_uc002ove.1_5'UTR|PSG6_uc002ovf.1_Missense_Mutation_p.K208R|PSG6_uc002ovg.1_Missense_Mutation_p.K208R	NM_002782	NP_002773	Q00889	PSG6_HUMAN	pregnancy specific beta-1-glycoprotein 6 isoform	208	Ig-like C2-type 1.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				TGCAATATACTTTGTGACACC	0.498													3	280	---	---	---	---	PASS	C	43414815	C	C	43414815	3	2	94	1	0	0	0	0	1	0	0	0	12659	1609	56	5	739	5	PSG6	19	43414815	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	19871613	43414815	15714168	257	35525										
PSG5	5673	broad.mit.edu	37	chr19	43680259	43680259	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gacatccttattctccctggGttttgagttgttgatggtga	11	7	1	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:43680259G>A	uc002ovu.2	-	3	603	c.472C>T	c.(472-474)CCC>TCC	p.P158S	PSG6_uc010xwk.1_Intron|PSG5_uc010eir.2_Intron|PSG5_uc002ovx.2_Missense_Mutation_p.P158S|PSG5_uc002ovv.2_Missense_Mutation_p.P251S|PSG5_uc002ovw.2_Intron	NM_002781	NP_002772	Q15238	PSG5_HUMAN	pregnancy specific beta-1-glycoprotein 5	158	Ig-like C2-type 1.				female pregnancy	extracellular region				skin(3)	3		Prostate(69;0.00899)				TTCTCCCTGGGTTTTGAGTTG	0.493													7	336	---	---	---	---	PASS	A	43680259	A	A	43680259	3	1	94	1	0	0	0	0	1	0	0	0	12658	1261	44	3	547	3	PSG5	19	43680259	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	265444	43680259	15448724	258	35526										
SULT2A1	6822	broad.mit.edu	37	chr19	48387031	48387031	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	caggcagagaatctcagccaAccagtttgttcctggaaaaa	9	10	1	1	rs144058411	byFrequency	TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:48387031A>T	uc002phr.2	-	2	288	c.148T>A	c.(148-150)TTG>ATG	p.L50M		NM_003167	NP_003158	Q06520	ST2A1_HUMAN	bile-salt sulfotransferase 2A1	50					3'-phosphoadenosine 5'-phosphosulfate metabolic process|bile acid catabolic process|cellular lipid metabolic process|digestion|sulfation|xenobiotic metabolic process	cytosol	bile-salt sulfotransferase activity			ovary(1)|pancreas(1)	2		all_cancers(25;3.02e-09)|all_lung(116;6.48e-07)|all_epithelial(76;7.35e-07)|Lung NSC(112;1.56e-06)|all_neural(266;0.0146)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000254)|all cancers(93;0.000545)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.0552)		ATCTCAGCCAACCAGTTTGTT	0.358													7	25	---	---	---	---	PASS	T	48387031	T	T	48387031	3	4	94	1	0	0	0	0	1	0	0	0	15378	40	2	5	729	5	SULT2A1	19	48387031	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	4706772	48387031	10741952	259	35527										
KLK7	5650	broad.mit.edu	37	chr19	51483083	51483083	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gagtcggggatgccagcgcaCagcatggaattttccagtaa	13	9	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:51483083C>G	uc002puo.2	-	5	669	c.567G>C	c.(565-567)CTG>CTC	p.L189L	KLK7_uc002pup.2_Silent_p.L189L|KLK7_uc010yco.1_Silent_p.L63L|KLK7_uc010eok.2_Silent_p.L117L	NM_139277	NP_644806	P49862	KLK7_HUMAN	stratum corneum chymotryptic enzyme	189	Peptidase S1.				epidermis development|proteolysis	extracellular region	serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00382)|GBM - Glioblastoma multiforme(134;0.00895)		TGCCAGCGCACAGCATGGAAT	0.567													6	12	---	---	---	---	PASS	G	51483083	G	G	51483083	2	3	94	1	0	0	0	0	0	0	0	1	8409	465	17	4		4	KLK7	19	51483083	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	3096052	51483083	7645900	260	35528										
ZNF320	162967	broad.mit.edu	37	chr19	53383976	53383976	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	cacactgatgacatttgtaaGatttctgtccagtatggatt	8	7	1	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:53383976G>T	uc002qag.2	-	4	1594	c.1403C>A	c.(1402-1404)TCT>TAT	p.S468Y	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.S414Y|ZNF320_uc002qai.2_Missense_Mutation_p.S468Y	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	468					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		ACATTTGTAAGATTTCTGTCC	0.408													8	73	---	---	---	---	PASS	T	53383976	T	T	53383976	3	4	94	1	0	0	0	0	1	0	0	0	17836	942	33	2	130	2	ZNF320	19	53383976	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	1900893	53383976	5745007	261	35529										
ZNF677	342926	broad.mit.edu	37	chr19	53740505	53740505	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gttcagtaaaggctttgccaCattcagtacatttgtaaggt	9	7	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:53740505C>A	uc002qbf.1	-	5	1660	c.1475G>T	c.(1474-1476)TGT>TTT	p.C492F	ZNF677_uc002qbg.1_Missense_Mutation_p.C492F	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	492	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		GGCTTTGCCACATTCAGTACA	0.363													26	61	---	---	---	---	PASS	A	53740505	A	A	53740505	3	1	94	1	0	0	0	0	1	0	0	0	18081	478	17	3	283	3	ZNF677	19	53740505	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	356529	53740505	5388478	262	35530										
CACNG7	59284	broad.mit.edu	37	chr19	54417765	54417765	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tccccccaggtcgggagaaaGgtcgctgtgtggcctcagaa	14	12	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:54417765G>C	uc002qcr.1	+	2	223	c.208G>C	c.(208-210)GGT>CGT	p.G70R	CACNG7_uc010era.1_Missense_Mutation_p.G70R	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	70					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	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;0.0711)		TCGGGAGAAAGGTCGCTGTGT	0.552													8	38	---	---	---	---	PASS	C	54417765	C	C	54417765	3	2	94	1	0	0	0	0	1	0	0	0	2562	1000	35	4	214	4	CACNG7	19	54417765	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	677260	54417765	4711218	263	35531										
NLRP4	147945	broad.mit.edu	37	chr19	56370090	56370090	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acttctgaagtacggggagcGtgagagctcctacgtgttcc	13	10	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:56370090G>A	uc002qmd.3	+	3	1753	c.1331G>A	c.(1330-1332)CGT>CAT	p.R444H	NLRP4_uc002qmf.2_Missense_Mutation_p.R369H|NLRP4_uc010etf.2_Missense_Mutation_p.R275H	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	444	NACHT.						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)		TACGGGGAGCGTGAGAGCTCC	0.532													44	110	---	---	---	---	PASS	A	56370090	A	A	56370090	3	1	94	1	0	0	0	0	1	0	0	0	10479	1145	40	1	1337	1	NLRP4	19	56370090	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	1952325	56370090	2758893	264	35532										
ZNF264	9422	broad.mit.edu	37	chr19	57723617	57723617	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aaggtcttcttggagagtgcAgccctgattcaccactatgt	10	10	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr19:57723617A>T	uc002qob.2	+	4	1565	c.1152A>T	c.(1150-1152)GCA>GCT	p.A384A		NM_003417	NP_003408	O43296	ZN264_HUMAN	zinc finger protein 264	384	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0135)		TGGAGAGTGCAGCCCTGATTC	0.527													16	40	---	---	---	---	PASS	T	57723617	T	T	57723617	2	4	94	1	0	0	0	0	0	0	0	1	17801	175	7	5		5	ZNF264	19	57723617	Silent	SNP	A	TCGA-39-5037-01A-01D-1441-08	1353527	57723617	1405366	265	35533										
FAM83D	81610	broad.mit.edu	37	chr20	37580822	37580822	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aaatgtctgtatcgagatctTccagtttgaagtcttcctcc	7	10	3	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr20:37580822T>G	uc002xjg.2	+	4	1548	c.1507T>G	c.(1507-1509)TCC>GCC	p.S503A		NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	473	Ser-rich.				cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				ATCGAGATCTTCCAGTTTGAA	0.488													56	62	---	---	---	---	PASS	G	37580822	G	G	37580822	3	3	94	1	0	0	0	0	1	0	0	0	5636	1783	62	5	1521	5	FAM83D	20	37580822	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08		37580822	25444698	266	35534										
SEMG2	6407	broad.mit.edu	37	chr20	43851456	43851456	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	accaggtaagaattcctagtCaagctcaagagtatggccat	9	9	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr20:43851456C>G	uc010ggz.2	+	2	1240	c.1183C>G	c.(1183-1185)CAA>GAA	p.Q395E	SEMG2_uc002xnk.2_Missense_Mutation_p.Q395E|SEMG2_uc002xnl.2_Intron	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	395	Repeat-rich region.|4 X 60 AA tandem repeats, type I.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				AATTCCTAGTCAAGCTCAAGA	0.398													6	63	---	---	---	---	PASS	G	43851456	G	G	43851456	3	3	94	1	0	0	0	0	1	0	0	0	14045	827	29	2	1189	2	SEMG2	20	43851456	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	6270634	43851456	19174064	267	35535										
LAMA5	3911	broad.mit.edu	37	chr20	60901774	60901774	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	acggtgaacgtggccaggcgTggggtatgccggctccagga	18	10	0	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr20:60901774T>C	uc002ycq.2	-	40	5324	c.5257A>G	c.(5257-5259)ACG>GCG	p.T1753A		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	1753	Laminin IV type A.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGGCCAGGCGTGGGGTATGCC	0.657													33	24	---	---	---	---	PASS	C	60901774	C	C	60901774	3	2	94	1	0	0	0	0	1	0	0	0	8609	1696	59	5	5994	5	LAMA5	20	60901774	Missense_Mutation	SNP	T	TCGA-39-5037-01A-01D-1441-08	17050318	60901774	2123746	268	35536										
ARFGAP1	55738	broad.mit.edu	37	chr20	61907461	61907461	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aggtttgttttgagtgtggcGcgttcaatcctcagtgggtc	14	7	2	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr20:61907461G>A	uc002yem.2	+	3	191	c.79G>A	c.(79-81)GCG>ACG	p.A27T	ARFGAP1_uc011aas.1_Intron|ARFGAP1_uc011aat.1_5'UTR|ARFGAP1_uc002yel.2_Missense_Mutation_p.A27T|ARFGAP1_uc002yen.2_Missense_Mutation_p.A27T	NM_018209	NP_060679	Q8N6T3	ARFG1_HUMAN	ADP-ribosylation factor GTPase activating	27	C4-type.|Arf-GAP.				COPI coating of Golgi vesicle|protein transport|regulation of ARF GTPase activity|retrograde vesicle-mediated transport, Golgi to ER	cytosol|Golgi-associated vesicle membrane	ARF GTPase activator activity|zinc ion binding			pancreas(1)	1	all_cancers(38;1.59e-09)					TGAGTGTGGCGCGTTCAATCC	0.612													10	213	---	---	---	---	PASS	A	61907461	A	A	61907461	3	1	94	1	0	0	0	0	1	0	0	0	849	1087	38	1	85	1	ARFGAP1	20	61907461	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08	1005687	61907461	1118059	269	35537										
TFF3	7033	broad.mit.edu	37	chr21	43735446	43735446	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gagctggaggacagcaaggcCaggaccagccccagcatgca	14	13	0	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr21:43735446C>T	uc002zav.2	-	1	261	c.189G>A	c.(187-189)CTG>CTA	p.L63L		NM_003226	NP_003217	Q07654	TFF3_HUMAN	trefoil factor 3 precursor	13					defense response|digestion	apical lamina of hyaline layer				skin(1)	1						ACAGCAAGGCCAGGACCAGCC	0.647													30	31	---	---	---	---	PASS	T	43735446	T	T	43735446	2	4	94	1	0	0	0	0	0	0	0	1	15802	581	21	3		3	TFF3	21	43735446	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08		43735446	4394449	270	35538										
HIRA	7290	broad.mit.edu	37	chr22	19394780	19394780	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	catcccactgtttgaccaccGcacacagttcacacatgctg	6	16	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr22:19394780G>A	uc002zpf.1	-	4	449	c.229C>T	c.(229-231)CGG>TGG	p.R77W	HIRA_uc011agx.1_5'UTR|HIRA_uc010grn.1_Missense_Mutation_p.R77W|HIRA_uc010gro.1_Missense_Mutation_p.R33W|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	77	WD 2.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					TTTGACCACCGCACACAGTTC	0.423													4	125	---	---	---	---	PASS	A	19394780	A	A	19394780	3	1	94	1	0	0	0	0	1	0	0	0	7120	1086	38	1	2912	1	HIRA	22	19394780	Missense_Mutation	SNP	G	TCGA-39-5037-01A-01D-1441-08		19394780	31909786	271	35539										
CCDC116	164592	broad.mit.edu	37	chr22	21988721	21988721	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	agctccatgtccaactgccaTagcagcctcatggccggctg	10	15	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr22:21988721T>C	uc002zve.2	+	3	576	c.483T>C	c.(481-483)CAT>CAC	p.H161H	CCDC116_uc011aih.1_Silent_p.H161H	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	161										ovary(1)|skin(1)	2	Colorectal(54;0.105)					CCAACTGCCATAGCAGCCTCA	0.627													46	50	---	---	---	---	PASS	C	21988721	C	C	21988721	2	2	94	1	0	0	0	0	0	0	0	1	2753	1403	49	5		5	CCDC116	22	21988721	Silent	SNP	T	TCGA-39-5037-01A-01D-1441-08	2593941	21988721	29315845	272	35540										
ADORA2A	135	broad.mit.edu	37	chr22	24837046	24837046	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	atgtacctggccatcgtcctCtcccacaccaattcggttgt	7	15	1	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr22:24837046C>G	uc002zzx.2	+	5	1591	c.828C>G	c.(826-828)CTC>CTG	p.L276L	ADORA2A_uc002zzy.3_Silent_p.L276L|ADORA2A_uc011ajs.1_Silent_p.L137L|ADORA2A_uc010gup.2_Silent_p.L276L|ADORA2A_uc010guq.2_Silent_p.L276L|ADORA2A_uc003aab.2_Silent_p.L276L|ADORA2A_uc003aac.2_Silent_p.L137L|C22orf45_uc003aad.1_Intron	NM_000675	NP_000666	P29274	AA2AR_HUMAN	adenosine A2a receptor	276	Helical; Name=7.				apoptosis|blood coagulation|cAMP biosynthetic process|cellular defense response|inflammatory response|nerve growth factor receptor signaling pathway|phagocytosis|sensory perception	integral to plasma membrane|membrane fraction	enzyme binding				0	Colorectal(2;0.196)				Caffeine(DB00201)|Defibrotide(DB04932)|Pegademase bovine(DB00061)|Theophylline(DB00277)	CCATCGTCCTCTCCCACACCA	0.587													7	103	---	---	---	---	PASS	G	24837046	G	G	24837046	2	3	94	1	0	0	0	0	0	0	0	1	327	900	32	2		2	ADORA2A	22	24837046	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	2848325	24837046	26467520	273	35541										
ADORA2A	135	broad.mit.edu	37	chr22	24837160	24837160	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctgaggcagcaagaacctttCaaggcagctggcaccagtgc	12	12	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr22:24837160C>A	uc002zzx.2	+	5	1705	c.942C>A	c.(940-942)TTC>TTA	p.F314L	ADORA2A_uc002zzy.3_Missense_Mutation_p.F314L|ADORA2A_uc011ajs.1_Missense_Mutation_p.F175L|ADORA2A_uc010gup.2_Missense_Mutation_p.F314L|ADORA2A_uc010guq.2_Missense_Mutation_p.F314L|ADORA2A_uc003aab.2_Missense_Mutation_p.F314L|ADORA2A_uc003aac.2_Missense_Mutation_p.F175L|C22orf45_uc003aad.1_Intron	NM_000675	NP_000666	P29274	AA2AR_HUMAN	adenosine A2a receptor	314	Cytoplasmic.				apoptosis|blood coagulation|cAMP biosynthetic process|cellular defense response|inflammatory response|nerve growth factor receptor signaling pathway|phagocytosis|sensory perception	integral to plasma membrane|membrane fraction	enzyme binding				0	Colorectal(2;0.196)				Caffeine(DB00201)|Defibrotide(DB04932)|Pegademase bovine(DB00061)|Theophylline(DB00277)	AAGAACCTTTCAAGGCAGCTG	0.617													6	72	---	---	---	---	PASS	A	24837160	A	A	24837160	3	1	94	1	0	0	0	0	1	0	0	0	327	825	29	2	948	2	ADORA2A	22	24837160	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	114	24837160	26467406	274	35542										
C22orf36	388886	broad.mit.edu	37	chr22	24985841	24985841	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tcacaagcaggtcatgggagAtggggtcgaccgggttgagg	18	7	2	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr22:24985841A>G	uc003aaq.2	-	2	283	c.254T>C	c.(253-255)ATC>ACC	p.I85T	GGT1_uc003aan.1_Intron|C22orf36_uc003aao.2_5'Flank|C22orf36_uc003aap.2_RNA	NM_207644	NP_997527	Q2VPJ9	LRC6X_HUMAN	hypothetical protein LOC388886	85											0						GTCATGGGAGATGGGGTCGAC	0.562													18	48	---	---	---	---	PASS	G	24985841	G	G	24985841	3	3	94	1	0	0	0	0	1	0	0	0	2146	333	12	5	705	5	C22orf36	22	24985841	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08	148681	24985841	26318725	275	35543										
ISX	91464	broad.mit.edu	37	chr22	35463100	35463100	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aatgtgtgctgaggtgggccCtgctctctgcaggggtatgg	17	8	1	1			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr22:35463100C>A	uc003anj.2	+	1	971	c.20C>A	c.(19-21)CCT>CAT	p.P7H	ISX_uc011amg.1_Translation_Start_Site	NM_001008494	NP_001008494	Q2M1V0	ISX_HUMAN	intestine-specific homeobox	7						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)	5						GAGGTGGGCCCTGCTCTCTGC	0.597													28	35	---	---	---	---	PASS	A	35463100	A	A	35463100	3	1	94	1	0	0	0	0	1	0	0	0	7865	681	24	3	22	3	ISX	22	35463100	Missense_Mutation	SNP	C	TCGA-39-5037-01A-01D-1441-08	10477259	35463100	15841466	276	35544										
ZC3H7B	23264	broad.mit.edu	37	chr22	41716691	41716691	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	aggcagaaacggaaggcggaCatcgagaaagggctgcagtt	16	7	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr22:41716691C>T	uc003azw.2	+	2	243	c.27C>T	c.(25-27)GAC>GAT	p.D9D	ZC3H7B_uc003azv.1_Silent_p.D9D|ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	9					interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						GGAAGGCGGACATCGAGAAAG	0.607													26	173	---	---	---	---	PASS	T	41716691	T	T	41716691	2	4	94	1	0	0	0	0	0	0	0	1	17570	477	17	3		3	ZC3H7B	22	41716691	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	6253591	41716691	9587875	277	35545										
ZBED4	9889	broad.mit.edu	37	chr22	50278006	50278006	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tctgtgtctgtagtttcttcTgaagaaatctcctctgacat	7	9	6	3			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chr22:50278006T>G	uc003bix.2	+	2	1166	c.696T>G	c.(694-696)TCT>TCG	p.S232S		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	232						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		TAGTTTCTTCTGAAGAAATCT	0.527													37	109	---	---	---	---	PASS	G	50278006	G	G	50278006	2	3	94	1	0	0	0	0	0	0	0	1	17517	1567	55	5		5	ZBED4	22	50278006	Silent	SNP	T	TCGA-39-5037-01A-01D-1441-08	8561315	50278006	1026560	278	35546										
RPS6KA6	27330	broad.mit.edu	37	chrX	83320047	83320047	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	ctggtctctgtgagttatccAtgagtgctttaatatttgtt	9	6	1	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chrX:83320047A>T	uc004eej.1	-	21	2121	c.2044T>A	c.(2044-2046)TGG>AGG	p.W682R	RPS6KA6_uc011mqt.1_Missense_Mutation_p.W682R|RPS6KA6_uc011mqu.1_Missense_Mutation_p.W579R	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	682	Protein kinase 2.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TGAGTTATCCATGAGTGCTTT	0.343													32	95	---	---	---	---	PASS	T	83320047	T	T	83320047	3	4	94	1	0	0	0	0	1	0	0	0	13655	217	8	5	201	5	RPS6KA6	23	83320047	Missense_Mutation	SNP	A	TCGA-39-5037-01A-01D-1441-08		83320047	71950513	279	35547										
TCEAL2	140597	broad.mit.edu	37	chrX	101382216	101382216	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gatgatatacccaggaaagcCaaaagaaaaaccaacaaggg	9	8	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chrX:101382216C>A	uc004eip.2	+	3	633	c.414C>A	c.(412-414)GCC>GCA	p.A138A		NM_080390	NP_525129	Q9H3H9	TCAL2_HUMAN	transcription elongation factor A (SII)-like 2	138					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						CCAGGAAAGCCAAAAGAAAAA	0.358													50	35	---	---	---	---	PASS	A	101382216	A	A	101382216	2	1	94	1	0	0	0	0	0	0	0	1	15668	581	21	3		3	TCEAL2	23	101382216	Silent	SNP	C	TCGA-39-5037-01A-01D-1441-08	18062169	101382216	53888344	280	35548										
NUP62CL	54830	broad.mit.edu	37	chrX	106410992	106410992	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	gtgttggtggtgaaagtggcGgtggtagtcgttgaagttgt	19	2	0	2			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chrX:106410992G>A	uc004ena.2	-	4	340	c.81C>T	c.(79-81)ACC>ACT	p.T27T	NUP62CL_uc004enb.2_RNA	NM_017681	NP_060151	Q9H1M0	N62CL_HUMAN	nucleoporin 62kDa C-terminal like	27	Thr-rich.				protein transport	nuclear pore	structural constituent of nuclear pore				0						tgaaagtggcggtggtagtcg	0.229													32	105	---	---	---	---	PASS	A	106410992	A	A	106410992	2	1	94	1	0	0	0	0	0	0	0	1	10769	1103	39	1		1	NUP62CL	23	106410992	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	5028776	106410992	48859568	281	35549										
L1CAM	3897	broad.mit.edu	37	chrX	153136600	153136600	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0892857142857143	25	0.0373513322564881	1.52100152100152	1.77694936315626	1.44032230988753	0.0137944750894916	0.128506425833685	9	tccccttcctccacctccacGggcttcactgtctcctttgg	6	19	2	0			TCGA-39-5037-01A-01D-1441-08	TCGA-39-5037-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	825bd82c-f8f8-4776-a7f5-713b3a574955	49c61aed-235e-47df-ad64-e31b0a84068f	g.chrX:153136600G>T	uc004fjb.2	-	5	543	c.435C>A	c.(433-435)CCC>CCA	p.P145P	L1CAM_uc004fjc.2_Silent_p.P145P|L1CAM_uc010nuo.2_Silent_p.P140P|L1CAM_uc004fjd.1_5'Flank|L1CAM_uc004fje.1_Silent_p.P140P	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	145	Extracellular (Potential).|Ig-like C2-type 2.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCACCTCCACGGGCTTCACTG	0.617													39	15	---	---	---	---	PASS	T	153136600	T	T	153136600	2	4	94	1	0	0	0	0	0	0	0	1	8588	1103	39	1		1	L1CAM	23	153136600	Silent	SNP	G	TCGA-39-5037-01A-01D-1441-08	46725608	153136600	2133960	282	35550										
SLC2A7	155184	broad.mit.edu	37	chr1	9083027	9083027	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	agcaatgaccccaacaggccGcccagaggaaacatggagac	11	13	0	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:9083027G>A	uc009vmo.1	-	3	261	c.261C>T	c.(259-261)GGC>GGT	p.G87G		NM_207420	NP_997303	Q6PXP3	GTR7_HUMAN	intestinal facilitative glucose transporter 7	87	Helical; (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity				0	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.04e-07)|COAD - Colon adenocarcinoma(227;7.66e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		CCAACAGGCCGCCCAGAGGAA	0.517													35	260	---	---	---	---	PASS	A	9083027	A	A	9083027	2	1	95	1	0	0	0	0	0	0	0	1	14550	1074	38	1		1	SLC2A7	1	9083027	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08		9083027	240167594	1	35551										
FBXO2	26232	broad.mit.edu	37	chr1	11710680	11710680	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gcgccgtccaccagctccttCcagcgcaggcacaccaggcg	11	19	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:11710680C>A	uc001asj.2	-	2	576	c.234G>T	c.(232-234)TGG>TGT	p.W78C	FBXO2_uc009vna.2_Missense_Mutation_p.W78C|FBXO2_uc009vnb.1_RNA	NM_012168	NP_036300	Q9UK22	FBX2_HUMAN	F-box only protein 2	78	F-box.				glycoprotein catabolic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|endoplasmic reticulum|membrane|microsome|SCF ubiquitin ligase complex	sugar binding|ubiquitin-protein ligase activity				0	Ovarian(185;0.249)	Lung NSC(185;9.37e-06)|all_lung(284;1.39e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|BRCA - Breast invasive adenocarcinoma(304;1.88e-06)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|Lung(427;0.0146)|LUSC - Lung squamous cell carcinoma(448;0.0228)|READ - Rectum adenocarcinoma(331;0.0649)		CCAGCTCCTTCCAGCGCAGGC	0.746													3	9	---	---	---	---	PASS	A	11710680	A	A	11710680	3	1	95	1	0	0	0	0	1	0	0	0	5732	856	30	2	676	2	FBXO2	1	11710680	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	2627653	11710680	237539941	2	35552										
ARID1A	8289	broad.mit.edu	37	chr1	27057875	27057875	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gccatcccagcctccacatcAgcagtccccggctccatacc	6	21	1	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:27057875A>T	uc001bmv.1	+	3	1956	c.1583A>T	c.(1582-1584)CAG>CTG	p.Q528L	ARID1A_uc001bmt.1_Missense_Mutation_p.Q528L|ARID1A_uc001bmu.1_Missense_Mutation_p.Q528L|ARID1A_uc001bmw.1_Missense_Mutation_p.Q145L	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	528					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)		CCTCCACATCAGCAGTCCCCG	0.622			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								27	189	---	---	---	---	PASS	T	27057875	T	T	27057875	3	4	95	1	0	0	0	0	1	0	0	0	913	188	7	5	1593	5	ARID1A	1	27057875	Missense_Mutation	SNP	A	TCGA-39-5039-01A-01D-1441-08	15347195	27057875	222192746	3	35553										
LCK	3932	broad.mit.edu	37	chr1	32742069	32742069	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tggagcggctgggggctggaCagttcggggaggtgtggatg	23	5	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:32742069C>G	uc001bux.2	+	8	901	c.763C>G	c.(763-765)CAG>GAG	p.Q255E	LCK_uc001buy.2_Missense_Mutation_p.Q255E|LCK_uc001buz.2_Missense_Mutation_p.Q255E|LCK_uc010ohc.1_Missense_Mutation_p.Q299E|LCK_uc001bva.2_Intron	NM_005356	NP_005347	P06239	LCK_HUMAN	lymphocyte-specific protein tyrosine kinase	255	Protein kinase.|ATP (By similarity).				activation of caspase activity|cellular zinc ion homeostasis|induction of apoptosis|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of T cell receptor signaling pathway|regulation of defense response to virus by virus|release of sequestered calcium ion into cytosol|response to drug|T cell costimulation|T cell differentiation|T cell receptor signaling pathway|viral reproduction	cytosol|Golgi apparatus|membrane raft|pericentriolar material|plasma membrane	ATP binding|ATPase binding|CD4 receptor binding|CD8 receptor binding|glycoprotein binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein kinase binding|protein serine/threonine phosphatase activity|SH2 domain binding			lung(3)|central_nervous_system(2)|ovary(1)	6		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)			Dasatinib(DB01254)	GGGGGCTGGACAGTTCGGGGA	0.677			T	TRB@	T-ALL								7	29	---	---	---	---	PASS	G	32742069	G	G	32742069	3	3	95	1	0	0	0	0	1	0	0	0	8676	479	17	4	789	4	LCK	1	32742069	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	5684194	32742069	216508552	4	35554										
MACF1	23499	broad.mit.edu	37	chr1	39927568	39927568	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tctccagagttccccaccacCaagttagagatgactgctgt	8	13	1	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:39927568C>T	uc010oiu.1	+	58	16997	c.16866C>T	c.(16864-16866)ACC>ACT	p.T5622T	MACF1_uc010ois.1_Silent_p.T5120T|MACF1_uc001cde.1_5'UTR|MACF1_uc001cdf.1_5'UTR	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7078	EF-hand 2.				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)			TCCCCACCACCAAGTTAGAGA	0.383													34	284	---	---	---	---	PASS	T	39927568	T	T	39927568	2	4	95	1	0	0	0	0	0	0	0	1	9144	581	21	3		3	MACF1	1	39927568	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	7185499	39927568	209323053	5	35555										
PLK3	1263	broad.mit.edu	37	chr1	45271199	45271199	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	caccaagctgattctcagtgGctgggagcccctccttgtga	11	13	1	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:45271199G>T	uc001cmn.2	+	15	1890	c.1790G>T	c.(1789-1791)GGC>GTC	p.G597V	PLK3_uc001cmo.2_RNA|BTBD19_uc010old.1_5'Flank|BTBD19_uc010ole.1_5'Flank	NM_004073	NP_004064	Q9H4B4	PLK3_HUMAN	polo-like kinase 3	597	POLO box 2.					membrane	ATP binding|protein binding|protein serine/threonine kinase activity				0	Acute lymphoblastic leukemia(166;0.155)					ATTCTCAGTGGCTGGGAGCCC	0.602													71	348	---	---	---	---	PASS	T	45271199	T	T	45271199	3	4	95	1	0	0	0	0	1	0	0	0	12097	1203	42	3	1848	3	PLK3	1	45271199	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	5343631	45271199	203979422	6	35556										
TAL1	6886	broad.mit.edu	37	chr1	47689738	47689738	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ctcgattgttggtggtgaacAtagggaaggcatccggctcc	14	9	0	1	rs147015002		TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:47689738A>G	uc001cqx.2	-	3	1056	c.479T>C	c.(478-480)ATG>ACG	p.M160T	TAL1_uc009vyq.2_5'UTR|TAL1_uc001cqy.2_Missense_Mutation_p.M160T|TAL1_uc001cra.1_RNA|TAL1_uc001cqz.1_RNA	NM_003189	NP_003180	P17542	TAL1_HUMAN	T-cell acute lymphocytic leukemia 1	160					basophil differentiation|cell fate commitment|cell proliferation|embryonic hemopoiesis|erythrocyte differentiation|megakaryocyte differentiation|positive regulation of cell division|positive regulation of chromatin assembly or disassembly|positive regulation of erythrocyte differentiation|positive regulation of mitotic cell cycle|positive regulation of protein complex assembly|positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	E-box binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity			lung(1)	1						GGTGGTGAACATAGGGAAGGC	0.567			T	TRD@|SIL	lymphoblastic leukemia/biphasic								21	169	---	---	---	---	PASS	G	47689738	G	G	47689738	3	3	95	1	0	0	0	0	1	0	0	0	15538	217	8	5	524	5	TAL1	1	47689738	Missense_Mutation	SNP	A	TCGA-39-5039-01A-01D-1441-08	2418539	47689738	201560883	7	35557										
ORC1L	4998	broad.mit.edu	37	chr1	52867041	52867041	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gtcccaaactcaccatcttcGaacaactcaagcaatttagc	4	14	3	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:52867041G>T	uc001ctt.2	-	3	435	c.216C>A	c.(214-216)TTC>TTA	p.F72L	ORC1L_uc010oni.1_Missense_Mutation_p.F72L|ORC1L_uc001ctu.2_Missense_Mutation_p.F72L|ORC1L_uc009vzd.2_Intron	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	72	BAH.				cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						CACCATCTTCGAACAACTCAA	0.428													22	247	---	---	---	---	PASS	T	52867041	T	T	52867041	3	4	95	1	0	0	0	0	1	0	0	0	11261	1049	37	2	2429	2	ORC1L	1	52867041	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	5177303	52867041	196383580	8	35558										
FUBP1	8880	broad.mit.edu	37	chr1	78432396	78432396	+	Missense_Mutation	SNP	C	A	A													0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	actggacagattcaggtgttCcagttaacatacaggacctt							TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:78432396C>A	uc001dii.2	-	7	544	c.455G>T	c.(454-456)GGA>GTA	p.G152V	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Missense_Mutation_p.G173V	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	152	KH 1.				transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						TTCAGGTGTTCCAGTTAACAT	0.338													23	99	---	---	---	---	PASS	A	78432396	A	A	78432396	3	1	95	1	0	0	0	0	1	0	0	0	6092	855	30	2	1535	2	FUBP1	1	78432396	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	25565355	78432396	170818225	9	35559	670	2								
FUBP1	8880	broad.mit.edu	37	chr1	78432397	78432397	+	Nonsense_Mutation	SNP	C	A	A													0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ctggacagattcaggtgttcCagttaacatacaggaccttt							TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:78432397C>A	uc001dii.2	-	7	543	c.454G>T	c.(454-456)GGA>TGA	p.G152*	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Nonsense_Mutation_p.G173*	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	152	KH 1.				transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						TCAGGTGTTCCAGTTAACATA	0.338													23	99	---	---	---	---	PASS	A	78432397	A	A	78432397	4	1	95	1	0	0	0	0	0	1	0	0	6092	603	21	3	1536	3	FUBP1	1	78432397	Nonsense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	1	78432397	170818224	10	35560	670	2								
AGL	178	broad.mit.edu	37	chr1	100357256	100357256	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tgctatattaattggtgcatAtaccactcttctggatacag	7	8	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:100357256A>G	uc001dsi.1	+	23	3444	c.3044A>G	c.(3043-3045)TAT>TGT	p.Y1015C	AGL_uc001dsj.1_Missense_Mutation_p.Y1015C|AGL_uc001dsk.1_Missense_Mutation_p.Y1015C|AGL_uc001dsl.1_Missense_Mutation_p.Y1015C|AGL_uc001dsm.1_Missense_Mutation_p.Y999C|AGL_uc001dsn.1_Missense_Mutation_p.Y998C	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	1015	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		ATTGGTGCATATACCACTCTT	0.393													31	221	---	---	---	---	PASS	G	100357256	G	G	100357256	3	3	95	1	0	0	0	0	1	0	0	0	384	449	16	5	3199	5	AGL	1	100357256	Missense_Mutation	SNP	A	TCGA-39-5039-01A-01D-1441-08	21924859	100357256	148893365	11	35561										
PTPN22	26191	broad.mit.edu	37	chr1	114397560	114397560	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gcatatgggaacactgtcatCctcttggtaacaacgtacat	8	10	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:114397560C>T	uc001eds.2	-	8	782	c.652G>A	c.(652-654)GAT>AAT	p.D218N	uc001edv.1_5'Flank|PTPN22_uc009wgq.2_Missense_Mutation_p.D218N|PTPN22_uc010owo.1_Intron|PTPN22_uc001edt.2_Intron|PTPN22_uc009wgr.2_Missense_Mutation_p.D218N|PTPN22_uc009wgs.2_Intron|PTPN22_uc001edu.2_Missense_Mutation_p.D218N	NM_015967	NP_057051	Q9Y2R2	PTN22_HUMAN	protein tyrosine phosphatase, non-receptor type	218	Tyrosine-protein phosphatase.				negative regulation of T cell activation|negative regulation of T cell receptor signaling pathway|phosphoanandamide dephosphorylation|regulation of B cell receptor signaling pathway|regulation of natural killer cell proliferation|T cell differentiation	internal side of plasma membrane|nucleus|perinuclear region of cytoplasm	kinase binding|protein tyrosine phosphatase activity|SH3 domain binding			kidney(2)|lung(1)|skin(1)	4	Lung SC(450;0.184)	all_cancers(81;1.93e-08)|all_epithelial(167;4.37e-08)|all_lung(203;5.22e-06)|Lung NSC(69;8.94e-06)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACACTGTCATCCTCTTGGTAA	0.413													37	158	---	---	---	---	PASS	T	114397560	T	T	114397560	3	4	95	1	0	0	0	0	1	0	0	0	12787	855	30	2	1850	2	PTPN22	1	114397560	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	14040304	114397560	134853061	12	35562										
HSD3B1	3283	broad.mit.edu	37	chr1	120050217	120050217	+	Missense_Mutation	SNP	G	A	A													0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gggtcttggacaaggccttcGgaccagaattgagagaggaa					rs141328314		TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:120050217G>A	uc001ehv.1	+	2	263	c.118G>A	c.(118-120)GGA>AGA	p.G40R	HSD3B1_uc001ehw.2_Missense_Mutation_p.G42R	NM_000862	NP_000853	P14060	3BHS1_HUMAN	3 beta-hydroxysteroid dehydrogenase 1	40					androgen biosynthetic process|estrogen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.219)	all_lung(203;3.16e-06)|Lung NSC(69;2.19e-05)|all_epithelial(167;0.000624)		Lung(183;0.0106)|LUSC - Lung squamous cell carcinoma(189;0.0554)	NADH(DB00157)|Trilostane(DB01108)	CAAGGCCTTCGGACCAGAATT	0.507													27	118	---	---	---	---	PASS	A	120050217	A	A	120050217	3	1	95	1	0	0	0	0	1	0	0	0	7390	1117	39	1	120	1	HSD3B1	1	120050217	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	5652657	120050217	129200404	13	35563	671	2								
HSD3B1	3283	broad.mit.edu	37	chr1	120050218	120050218	+	Missense_Mutation	SNP	G	T	T													0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggtcttggacaaggccttcgGaccagaattgagagaggaat							TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:120050218G>T	uc001ehv.1	+	2	264	c.119G>T	c.(118-120)GGA>GTA	p.G40V	HSD3B1_uc001ehw.2_Missense_Mutation_p.G42V	NM_000862	NP_000853	P14060	3BHS1_HUMAN	3 beta-hydroxysteroid dehydrogenase 1	40					androgen biosynthetic process|estrogen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.219)	all_lung(203;3.16e-06)|Lung NSC(69;2.19e-05)|all_epithelial(167;0.000624)		Lung(183;0.0106)|LUSC - Lung squamous cell carcinoma(189;0.0554)	NADH(DB00157)|Trilostane(DB01108)	AAGGCCTTCGGACCAGAATTG	0.502													27	119	---	---	---	---	PASS	T	120050218	T	T	120050218	3	4	95	1	0	0	0	0	1	0	0	0	7390	1174	41	2	121	2	HSD3B1	1	120050218	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	1	120050218	129200403	14	35564	671	2								
THBS3	7059	broad.mit.edu	37	chr1	155171258	155171258	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gagacagtgagcatggatgtGgcaggggctgtgggctgggc	21	6	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:155171258G>C	uc001fix.2	-	11	1302	c.1279C>G	c.(1279-1281)CAC>GAC	p.H427D	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Missense_Mutation_p.H418D|THBS3_uc001fiz.2_Missense_Mutation_p.H427D|THBS3_uc001fiy.2_5'UTR|THBS3_uc010pfu.1_Missense_Mutation_p.H307D|THBS3_uc010pfv.1_RNA|THBS3_uc001fja.2_RNA	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	427	EGF-like 4.				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		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)			GCATGGATGTGGCAGGGGCTG	0.622													17	115	---	---	---	---	PASS	C	155171258	C	C	155171258	3	2	95	1	0	0	0	0	1	0	0	0	15852	1348	47	4	1643	4	THBS3	1	155171258	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	35121040	155171258	94079363	15	35565										
CRP	1401	broad.mit.edu	37	chr1	159683523	159683523	+	Missense_Mutation	SNP	T	A	A													0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tcccaccgaaggaatcctgcTcctgccccaagatgatgctt							TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:159683523T>A	uc001ftw.2	-	2	571	c.467A>T	c.(466-468)GAG>GTG	p.E156V	CRP_uc001ftx.1_Intron|CRP_uc001fty.1_RNA	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	156	Pentaxin.	Calcium 1.|Calcium 2.			acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	GGAATCCTGCTCCTGCCCCAA	0.532													53	401	---	---	---	---	PASS	A	159683523	A	A	159683523	3	1	95	1	0	0	0	0	1	0	0	0	3895	1551	54	5	211	5	CRP	1	159683523	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	4512265	159683523	89567098	16	35566	672	2								
CRP	1401	broad.mit.edu	37	chr1	159683524	159683524	+	Nonsense_Mutation	SNP	C	A	A													0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cccaccgaaggaatcctgctCctgccccaagatgatgcttg							TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:159683524C>A	uc001ftw.2	-	2	570	c.466G>T	c.(466-468)GAG>TAG	p.E156*	CRP_uc001ftx.1_Intron|CRP_uc001fty.1_RNA	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	156	Pentaxin.	Calcium 1.|Calcium 2.			acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	GAATCCTGCTCCTGCCCCAAG	0.532													53	407	---	---	---	---	PASS	A	159683524	A	A	159683524	4	1	95	1	0	0	0	0	0	1	0	0	3895	864	30	2	212	2	CRP	1	159683524	Nonsense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	1	159683524	89567097	17	35567	672	2								
ATP1A4	480	broad.mit.edu	37	chr1	160128811	160128811	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gcaagctctggtaattcgagGaggagagaagatgcaaatta	13	5	1	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:160128811G>A	uc001fve.3	+	5	1024	c.545G>A	c.(544-546)GGA>GAA	p.G182E	ATP1A4_uc001fvf.3_RNA	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	182	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GTAATTCGAGGAGGAGAGAAG	0.468													7	78	---	---	---	---	PASS	A	160128811	A	A	160128811	3	1	95	1	0	0	0	0	1	0	0	0	1131	1174	41	2	563	2	ATP1A4	1	160128811	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	445287	160128811	89121810	18	35568										
FAM5C	339479	broad.mit.edu	37	chr1	190067601	190067601	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tcaaaaaatgtcttccatttGttccccagagttaatgtcca	5	10	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:190067601G>T	uc001gse.1	-	8	2080	c.1848C>A	c.(1846-1848)AAC>AAA	p.N616K	FAM5C_uc010pot.1_Missense_Mutation_p.N514K	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	616						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TCTTCCATTTGTTCCCCAGAG	0.448													36	429	---	---	---	---	PASS	T	190067601	T	T	190067601	3	4	95	1	0	0	0	0	1	0	0	0	5594	1368	48	3	456	3	FAM5C	1	190067601	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	29938790	190067601	59183020	19	35569										
IPO9	55705	broad.mit.edu	37	chr1	201844012	201844012	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gaggaagaggaggaggaggaGgatggtttagctggccaact	19	4	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:201844012G>T	uc001gwz.2	+	22	2936	c.2886G>T	c.(2884-2886)GAG>GAT	p.E962D		NM_018085	NP_060555	Q96P70	IPO9_HUMAN	importin 9	962					protein import into nucleus	cytoplasm|nucleus	histone binding|protein transporter activity			ovary(2)	2						aggaggaggaggaTGGTTTAG	0.318													4	137	---	---	---	---	PASS	T	201844012	T	T	201844012	3	4	95	1	0	0	0	0	1	0	0	0	7799	991	35	3	2972	3	IPO9	1	201844012	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	11776411	201844012	47406609	20	35570										
PIGR	5284	broad.mit.edu	37	chr1	207103673	207103673	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gcgacaccgtctaggcttccTgggggccgtcctgggcctcg	15	15	1	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:207103673T>C	uc001hez.2	-	11	2469	c.2285A>G	c.(2284-2286)CAG>CGG	p.Q762R	PIGR_uc009xbz.2_Missense_Mutation_p.Q762R	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	762	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CTAGGCTTCCTGGGGGCCGTC	0.637													7	29	---	---	---	---	PASS	C	207103673	C	C	207103673	3	2	95	1	0	0	0	0	1	0	0	0	11897	1580	55	5	13	5	PIGR	1	207103673	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	5259661	207103673	42146948	21	35571										
HHIPL2	79802	broad.mit.edu	37	chr1	222715355	222715355	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cggcccccatccagcttactTgttctgagcatttccaaaca	6	15	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr1:222715355T>A	uc001hnh.1	-	3	1175	c.1117A>T	c.(1117-1119)AAA>TAA	p.K373*		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	373					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		CCAGCTTACTTGTTCTGAGCA	0.527													20	98	---	---	---	---	PASS	A	222715355	A	A	222715355	4	1	95	1	0	0	0	0	0	1	0	0	7094	1826	63	5	1085	5	HHIPL2	1	222715355	Nonsense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	15611682	222715355	26535266	22	35572										
CLIP4	79745	broad.mit.edu	37	chr2	29379276	29379276	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	caacactttcattgcctcctGgtgaagaacttaaaactgtg	7	10	1	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:29379276G>T	uc002rmv.2	+	10	1461	c.1222G>T	c.(1222-1224)GGT>TGT	p.G408C	CLIP4_uc002rmu.2_Missense_Mutation_p.G408C|CLIP4_uc010ezm.1_Missense_Mutation_p.G408C|CLIP4_uc002rmw.2_RNA|CLIP4_uc010ymn.1_Missense_Mutation_p.G390C	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	408										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					ATTGCCTCCTGGTGAAGAACT	0.313													13	89	---	---	---	---	PASS	T	29379276	T	T	29379276	3	4	95	1	0	0	0	0	1	0	0	0	3535	1348	47	3	1256	3	CLIP4	2	29379276	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08		29379276	213820097	23	35573										
EPCAM	4072	broad.mit.edu	37	chr2	47612313	47612313	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tcttccactcaggttatttcCagaaagaagagaatggcaaa	8	8	2	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:47612313C>G	uc002rvx.2	+	8	1225	c.867C>G	c.(865-867)TCC>TCG	p.S289S	EPCAM_uc002rvw.2_Silent_p.S317S	NM_002354	NP_002345	P16422	EPCAM_HUMAN	epithelial cell adhesion molecule precursor	289	Cytoplasmic (Potential).				positive regulation of cell proliferation	apical plasma membrane|basolateral plasma membrane|integral to membrane|lateral plasma membrane|tight junction	protein binding			skin(1)	1						AGGTTATTTCCAGAAAGAAGA	0.338									Lynch_syndrome				51	309	---	---	---	---	PASS	G	47612313	G	G	47612313	2	3	95	1	0	0	0	0	0	0	0	1	5162	581	21	4		4	EPCAM	2	47612313	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	18233037	47612313	195587060	24	35574										
GFPT1	2673	broad.mit.edu	37	chr2	69569383	69569383	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ttcaaaccacccaaattcacTgaaataaaagtttgtgtaca	4	9	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:69569383T>A	uc002sfh.2	-	12	1231	c.1052_splice	c.e12-1	p.V351_splice		NM_002056	NP_002047	Q06210	GFPT1_HUMAN	glucosamine-fructose-6-phosphate						dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			skin(1)	1						CCAAATTCACTGAAATAAAAG	0.398													25	200	---	---	---	---	PASS	A	69569383	A	A	69569383	5	1	95	1	0	0	0	0	0	0	1	0	6345	1594	55	5	1027	5	GFPT1	2	69569383	Splice_Site	SNP	T	TCGA-39-5039-01A-01D-1441-08	21957070	69569383	173629990	25	35575										
ZNF2	7549	broad.mit.edu	37	chr2	95847693	95847693	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	acaagccatatgaatgcagcGaatgcgggaaagcctttagc	11	9	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:95847693G>A	uc002suf.2	+	6	1579	c.1117G>A	c.(1117-1119)GAA>AAA	p.E373K	ZNF2_uc002sug.2_Missense_Mutation_p.E331K|ZNF2_uc010yue.1_Missense_Mutation_p.E336K|ZNF2_uc010fhs.2_Missense_Mutation_p.E294K	NM_021088	NP_066574	Q9BSG1	ZNF2_HUMAN	zinc finger protein 2 isoform a	373	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(717;0.00768)		READ - Rectum adenocarcinoma(193;0.0222)		TGAATGCAGCGAATGCGGGAA	0.527													15	119	---	---	---	---	PASS	A	95847693	A	A	95847693	3	1	95	1	0	0	0	0	1	0	0	0	17757	1059	37	2	1134	2	ZNF2	2	95847693	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	26278310	95847693	147351680	26	35576										
SLC20A1	6574	broad.mit.edu	37	chr2	113404520	113404520	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	catttgtcttggcattctccGtgggagccaatgatgtagca	11	9	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:113404520G>T	uc002tib.2	+	2	561	c.115G>T	c.(115-117)GTG>TTG	p.V39L	uc010fkq.1_5'Flank	NM_005415	NP_005406	Q8WUM9	S20A1_HUMAN	solute carrier family 20 (phosphate	39	Helical; (Potential).				phosphate metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to plasma membrane	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity			ovary(2)	2						GGCATTCTCCGTGGGAGCCAA	0.493													14	120	---	---	---	---	PASS	T	113404520	T	T	113404520	3	4	95	1	0	0	0	0	1	0	0	0	14438	1145	40	1	117	1	SLC20A1	2	113404520	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	17556827	113404520	129794853	27	35577										
CNTNAP5	129684	broad.mit.edu	37	chr2	125530467	125530467	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cttctgaatgacaaccaatgGcactatgtccgggctgagag	11	10	1	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:125530467G>T	uc002tno.2	+	17	2986	c.2622G>T	c.(2620-2622)TGG>TGT	p.W874C	CNTNAP5_uc010flu.2_Missense_Mutation_p.W875C	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	874	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		ACAACCAATGGCACTATGTCC	0.547													29	170	---	---	---	---	PASS	T	125530467	T	T	125530467	3	4	95	1	0	0	0	0	1	0	0	0	3650	1212	42	3	2688	3	CNTNAP5	2	125530467	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	12125947	125530467	117668906	28	35578										
LRP1B	53353	broad.mit.edu	37	chr2	141773378	141773378	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	accgtttggccacagcatctTtgaagtcacaaaaatctgcc	7	12	3	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:141773378T>G	uc002tvj.1	-	13	3049	c.2077A>C	c.(2077-2079)AAG>CAG	p.K693Q	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	693	Extracellular (Potential).|LDL-receptor class B 7.				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)		CACAGCATCTTTGAAGTCACA	0.418										TSP Lung(27;0.18)			28	121	---	---	---	---	PASS	G	141773378	G	G	141773378	3	3	95	1	0	0	0	0	1	0	0	0	8955	1850	64	5	12038	5	LRP1B	2	141773378	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	16242911	141773378	101425995	29	35579										
TANC1	85461	broad.mit.edu	37	chr2	159992709	159992709	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atctttcccactacaggtccCgtcaggaagcccaagtatgt	8	13	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:159992709C>G	uc002uag.2	+	5	538	c.264C>G	c.(262-264)CCC>CCG	p.P88P	TANC1_uc010fol.1_Silent_p.P88P|TANC1_uc010zcm.1_Silent_p.P88P|TANC1_uc010fom.1_Silent_p.P88P|TANC1_uc002uah.1_5'UTR	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	88						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CTACAGGTCCCGTCAGGAAGC	0.483													33	200	---	---	---	---	PASS	G	159992709	G	G	159992709	2	3	95	1	0	0	0	0	0	0	0	1	15541	639	23	4		4	TANC1	2	159992709	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	18219331	159992709	83206664	30	35580										
SLC4A10	57282	broad.mit.edu	37	chr2	162830816	162830816	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cagtacaactcccattggaaGggcactataggtaagacata	9	9	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:162830816G>A	uc002ubx.3	+	24	3401	c.3217G>A	c.(3217-3219)GGG>AGG	p.G1073R	SLC4A10_uc002uby.3_Missense_Mutation_p.G1043R|SLC4A10_uc010zcs.1_Missense_Mutation_p.G1054R	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	1073	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						CCCATTGGAAGGGCACTATAG	0.333													4	30	---	---	---	---	PASS	A	162830816	A	A	162830816	3	1	95	1	0	0	0	0	1	0	0	0	14651	1000	35	3	3396	3	SLC4A10	2	162830816	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	2838107	162830816	80368557	31	35581										
XIRP2	129446	broad.mit.edu	37	chr2	168104476	168104476	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aaactttgttaaagcaagaaAcaaaatattctaataaggat	5	4	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:168104476A>G	uc002udx.2	+	8	6592	c.6574A>G	c.(6574-6576)ACA>GCA	p.T2192A	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.T2017A|XIRP2_uc010fpq.2_Missense_Mutation_p.T1970A|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2017					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAAGCAAGAAACAAAATATTC	0.408													22	100	---	---	---	---	PASS	G	168104476	G	G	168104476	3	3	95	1	0	0	0	0	1	0	0	0	17427	43	2	5	6604	5	XIRP2	2	168104476	Missense_Mutation	SNP	A	TCGA-39-5039-01A-01D-1441-08	5273660	168104476	75094897	32	35582										
HAT1	8520	broad.mit.edu	37	chr2	172844237	172844237	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gccgaacaatacagaagctaCagactggatattaaaagaag	9	7	0	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:172844237C>G	uc002uhi.2	+	10	1129	c.1053C>G	c.(1051-1053)TAC>TAG	p.Y351*	HAT1_uc010fqi.2_Nonsense_Mutation_p.Y186*|HAT1_uc002uhj.2_Nonsense_Mutation_p.Y266*	NM_003642	NP_003633	O14929	HAT1_HUMAN	histone acetyltransferase 1	351					chromatin silencing at telomere|DNA packaging	cytoplasm|nuclear matrix|nucleoplasm	histone acetyltransferase activity|protein binding			large_intestine(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.216)			ACAGAAGCTACAGACTGGATA	0.348													27	141	---	---	---	---	PASS	G	172844237	G	G	172844237	4	3	95	1	0	0	0	0	0	1	0	0	6964	489	17	4	1091	4	HAT1	2	172844237	Nonsense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	4739761	172844237	70355136	33	35583										
TTN	7273	broad.mit.edu	37	chr2	179431690	179431690	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ttgtgacttccaagctttttGgtggtccaggaagcacaaat	10	8	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:179431690G>T	uc010zfg.1	-	275	71689	c.71465C>A	c.(71464-71466)CCA>CAA	p.P23822Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P17517Q|TTN_uc010zfi.1_Missense_Mutation_p.P17450Q|TTN_uc010zfj.1_Missense_Mutation_p.P17325Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24749							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)			CAAGCTTTTTGGTGGTCCAGG	0.413													33	181	---	---	---	---	PASS	T	179431690	T	T	179431690	3	4	95	1	0	0	0	0	1	0	0	0	16732	1348	47	3	28958	3	TTN	2	179431690	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	6587453	179431690	63767683	34	35584										
TTN	7273	broad.mit.edu	37	chr2	179590253	179590253	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tttcactttctctaatcactTcttccttctctttaagccac	1	14	5	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:179590253T>A	uc010zfg.1	-	68	17170	c.16946A>T	c.(16945-16947)GAA>GTA	p.E5649V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E2310V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6576							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)			TCTAATCACTTCTTCCTTCTC	0.433													10	94	---	---	---	---	PASS	A	179590253	A	A	179590253	3	1	95	1	0	0	0	0	1	0	0	0	16732	1783	62	5	84019	5	TTN	2	179590253	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	158563	179590253	63609120	35	35585										
TTN	7273	broad.mit.edu	37	chr2	179621110	179621110	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tctcggattcctctatctttGcaccttcgtgagtccaggtt	8	12	3	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:179621110G>A	uc010zfh.1	-	44	10804	c.10580C>T	c.(10579-10581)GCA>GTA	p.A3527V	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CTCTATCTTTGCACCTTCGTG	0.408													14	98	---	---	---	---	PASS	A	179621110	A	A	179621110	3	1	95	1	0	0	0	0	1	0	0	0	16732	1319	46	3	100163	3	TTN	2	179621110	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	30857	179621110	63578263	36	35586										
HECW2	57520	broad.mit.edu	37	chr2	197208380	197208380	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atttcacacttagttacttaCgttccatgaaatagggccca	6	10	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:197208380C>A	uc002utm.1	-	3	583	c.400_splice	c.e3+1	p.P134_splice	HECW2_uc002utl.1_Splice_Site	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						TAGTTACTTACGTTCCATGAA	0.363													16	295	---	---	---	---	PASS	A	197208380	A	A	197208380	5	1	95	1	0	0	0	0	0	0	1	0	7043	550	19	1	4425	1	HECW2	2	197208380	Splice_Site	SNP	C	TCGA-39-5039-01A-01D-1441-08	17587270	197208380	45990993	37	35587										
INO80D	54891	broad.mit.edu	37	chr2	206870222	206870222	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggcccgttcaagctcctcagCctcttcggtagttgggagga	13	12	3	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:206870222C>A	uc002vaz.3	-	11	2359	c.1954G>T	c.(1954-1956)GCT>TCT	p.A652S		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	652					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						AGCTCCTCAGCCTCTTCGGTA	0.507													8	83	---	---	---	---	PASS	A	206870222	A	A	206870222	3	1	95	1	0	0	0	0	1	0	0	0	7749	739	26	3	1133	3	INO80D	2	206870222	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	9661842	206870222	36329151	38	35588										
MRPL44	65080	broad.mit.edu	37	chr2	224824686	224824686	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	attggagccctgttacagagCagtggacctgagaggactgc	14	9	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr2:224824686C>T	uc002vnr.3	+	2	684	c.615C>T	c.(613-615)AGC>AGT	p.S205S		NM_022915	NP_075066	Q9H9J2	RM44_HUMAN	mitochondrial ribosomal protein L44 precursor	205	RNase III.				RNA processing	mitochondrion|ribosome	double-stranded RNA binding|protein binding|ribonuclease III activity			central_nervous_system(1)	1		all_lung(227;0.00679)|Lung NSC(271;0.00855)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;2.51e-10)|all cancers(144;7.89e-08)|Lung(261;0.00705)|LUSC - Lung squamous cell carcinoma(224;0.008)		TGTTACAGAGCAGTGGACCTG	0.438													17	126	---	---	---	---	PASS	T	224824686	T	T	224824686	2	4	95	1	0	0	0	0	0	0	0	1	9808	709	25	3		3	MRPL44	2	224824686	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	17954464	224824686	18374687	39	35589										
C3orf20	84077	broad.mit.edu	37	chr3	14744711	14744711	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gaacccctgccaacagcctgGagttcagcgacccctgccct	9	18	1	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr3:14744711G>T	uc003byy.2	+	6	1224	c.820G>T	c.(820-822)GAG>TAG	p.E274*	C3orf20_uc003byz.2_Nonsense_Mutation_p.E152*|C3orf20_uc003bza.2_Nonsense_Mutation_p.E152*|C3orf20_uc003byx.1_Nonsense_Mutation_p.E274*	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	274						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						CAACAGCCTGGAGTTCAGCGA	0.587													35	225	---	---	---	---	PASS	T	14744711	T	T	14744711	4	4	95	1	0	0	0	0	0	1	0	0	2213	1175	41	2	834	2	C3orf20	3	14744711	Nonsense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08		14744711	183277719	40	35590										
NKIRAS1	28512	broad.mit.edu	37	chr3	23934649	23934649	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aaaggaaagcttgatttgctCtggggttgagaaagtttact	12	4	1	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr3:23934649C>G	uc003ccj.2	-	5	918	c.516G>C	c.(514-516)CAG>CAC	p.Q172H	NKIRAS1_uc003cck.2_Missense_Mutation_p.Q172H|NKIRAS1_uc003ccl.2_Missense_Mutation_p.Q172H|NKIRAS1_uc003ccm.2_Missense_Mutation_p.Q172H	NM_020345	NP_065078	Q9NYS0	KBRS1_HUMAN	kappa B-ras 1	172					I-kappaB kinase/NF-kappaB cascade|small GTPase mediated signal transduction	cytoplasm	GTP binding|GTPase activity				0						TTGATTTGCTCTGGGGTTGAG	0.378													27	141	---	---	---	---	PASS	G	23934649	G	G	23934649	3	3	95	1	0	0	0	0	1	0	0	0	10444	912	32	2	66	2	NKIRAS1	3	23934649	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	9189938	23934649	174087781	41	35591										
TREX1	11277	broad.mit.edu	37	chr3	48508848	48508848	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gaacactagtcccagccttgGagagagcaggggtaccaagg	14	10	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr3:48508848G>T	uc003ctj.2	+	2	2216	c.959G>T	c.(958-960)GGA>GTA	p.G320V	TREX1_uc010hjy.2_Missense_Mutation_p.G265V|TREX1_uc003ctk.2_Missense_Mutation_p.G126V|TREX1_uc010hjz.2_Missense_Mutation_p.G265V|TREX1_uc010hka.2_Missense_Mutation_p.G320V	NM_033629	NP_338599	Q9NSU2	TREX1_HUMAN	three prime repair exonuclease 1 isoform b	320				G -> R (in Ref. 1; CAB50866).	cell death|DNA recombination|DNA replication|mismatch repair	nuclear envelope	3'-5'-exodeoxyribonuclease activity|exodeoxyribonuclease III activity|metal ion binding|MutLalpha complex binding|MutSalpha complex binding|protein homodimerization activity|single-stranded DNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000286)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		CCCAGCCTTGGAGAGAGCAGG	0.602								Direct_reversal_of_damage|Editing_and_processing_nucleases					4	113	---	---	---	---	PASS	T	48508848	T	T	48508848	3	4	95	1	0	0	0	0	1	0	0	0	16473	1174	41	2	961	2	TREX1	3	48508848	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	24574199	48508848	149513582	42	35592										
GAP43	2596	broad.mit.edu	37	chr3	115394998	115394998	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	agctcaaaggagagaagaagGatgatgtccaagctgctgag	14	6	1	4			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr3:115394998G>C	uc003ebq.2	+	2	555	c.169G>C	c.(169-171)GAT>CAT	p.D57H	GAP43_uc003ebr.2_Missense_Mutation_p.D93H	NM_002045	NP_002036	P17677	NEUM_HUMAN	growth associated protein 43 isoform 2	57	IQ.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell differentiation|nervous system development|regulation of filopodium assembly|regulation of growth|response to wounding	cell junction|filopodium membrane|growth cone membrane|synapse	calmodulin binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.164)		AGAGAAGAAGGATGATGTCCA	0.488													5	110	---	---	---	---	PASS	C	115394998	C	C	115394998	3	2	95	1	0	0	0	0	1	0	0	0	6235	1174	41	2	317	2	GAP43	3	115394998	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	66886150	115394998	82627432	43	35593										
FSTL1	11167	broad.mit.edu	37	chr3	120122198	120122198	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atgagagcatcaacacagagTcccctgaaacaaaacacagg	8	11	1	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr3:120122198T>A	uc003eds.2	-	8	760	c.585A>T	c.(583-585)GGA>GGT	p.G195G	FSTL1_uc011bjh.1_Silent_p.G160G	NM_007085	NP_009016	Q12841	FSTL1_HUMAN	follistatin-like 1 precursor	195	EF-hand 2.				BMP signaling pathway	extracellular space	calcium ion binding|heparin binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.189)		CAACACAGAGTCCCCTGAAAC	0.468													16	65	---	---	---	---	PASS	A	120122198	A	A	120122198	2	1	95	1	0	0	0	0	0	0	0	1	6077	1654	58	5		5	FSTL1	3	120122198	Silent	SNP	T	TCGA-39-5039-01A-01D-1441-08	4727200	120122198	77900232	44	35594										
GOLGB1	2804	broad.mit.edu	37	chr3	121410365	121410365	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ttgtcttgttagctgggataTagatactttcaaactctcaa	7	7	3	1	rs116186804	by1000genomes	TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr3:121410365T>C	uc003eei.3	-	14	7957	c.7831A>G	c.(7831-7833)ATA>GTA	p.I2611V	GOLGB1_uc010hrc.2_Missense_Mutation_p.I2616V|GOLGB1_uc003eej.3_Missense_Mutation_p.I2577V	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	2611	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		AGCTGGGATATAGATACTTTC	0.393													33	195	---	---	---	---	PASS	C	121410365	C	C	121410365	3	2	95	1	0	0	0	0	1	0	0	0	6565	1406	49	5	1984	5	GOLGB1	3	121410365	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	1288167	121410365	76612065	45	35595										
TMCC1	23023	broad.mit.edu	37	chr3	129370615	129370615	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	agctccatcttggagatgcgCgtctggcatgcctccagggc	13	13	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr3:129370615C>T	uc003emz.3	-	7	2172	c.1671G>A	c.(1669-1671)ACG>ACA	p.T557T	TMCC1_uc003emy.3_Silent_p.T233T|TMCC1_uc011blc.1_Silent_p.T378T|TMCC1_uc010htg.2_Silent_p.T443T	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	557	Potential.					integral to membrane				skin(1)	1						TGGAGATGCGCGTCTGGCATG	0.587													5	108	---	---	---	---	PASS	T	129370615	T	T	129370615	2	4	95	1	0	0	0	0	0	0	0	1	15989	755	27	1		1	TMCC1	3	129370615	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	7960250	129370615	68651815	46	35596										
CLSTN2	64084	broad.mit.edu	37	chr3	140285066	140285066	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gagccaggcaagcccagctgGagtgggatgactccaccctc	13	14	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr3:140285066G>T	uc003etn.2	+	17	3029	c.2839G>T	c.(2839-2841)GAG>TAG	p.E947*		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	947	Cytoplasmic (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						AGCCCAGCTGGAGTGGGATGA	0.602										HNSCC(16;0.037)			6	15	---	---	---	---	PASS	T	140285066	T	T	140285066	4	4	95	1	0	0	0	0	0	1	0	0	3562	1175	41	2	2905	2	CLSTN2	3	140285066	Nonsense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	10914451	140285066	57737364	47	35597										
ATR	545	broad.mit.edu	37	chr3	142269086	142269086	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gttttcgcacgtcagcattcTggcatggagtattcggaagt	12	8	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr3:142269086T>C	uc003eux.3	-	14	2986	c.2864A>G	c.(2863-2865)CAG>CGG	p.Q955R		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	955					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						GTCAGCATTCTGGCATGGAGT	0.398								Other_conserved_DNA_damage_response_genes					25	150	---	---	---	---	PASS	C	142269086	C	C	142269086	3	2	95	1	0	0	0	0	1	0	0	0	1204	1580	55	5	5206	5	ATR	3	142269086	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	1984020	142269086	55753344	48	35598										
ATR	545	broad.mit.edu	37	chr3	142272128	142272128	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cagtttaacacttttagctgCaaccagagctctaatttctg	6	10	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr3:142272128C>G	uc003eux.3	-	13	2868	c.2746G>C	c.(2746-2748)GCA>CCA	p.A916P		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	916					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						CTTTTAGCTGCAACCAGAGCT	0.408								Other_conserved_DNA_damage_response_genes					8	88	---	---	---	---	PASS	G	142272128	G	G	142272128	3	3	95	1	0	0	0	0	1	0	0	0	1204	710	25	4	5328	4	ATR	3	142272128	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	3042	142272128	55750302	49	35599										
CPB1	1360	broad.mit.edu	37	chr3	148563352	148563352	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tctgacaatccactcgtactCccaaatgatgatctaccctt	4	14	2	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr3:148563352C>G	uc003ewl.2	+	9	943	c.920C>G	c.(919-921)TCC>TGC	p.S307C		NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein	307					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			CACTCGTACTCCCAAATGATG	0.443													22	140	---	---	---	---	PASS	G	148563352	G	G	148563352	3	3	95	1	0	0	0	0	1	0	0	0	3796	855	30	2	954	2	CPB1	3	148563352	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	6291224	148563352	49459078	50	35600										
MAN2B2	23324	broad.mit.edu	37	chr4	6588845	6588845	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tggcgggcttcaatgcccacCtcggctcccggatcgactac	11	16	1	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr4:6588845C>G	uc003gjf.1	+	4	550	c.514C>G	c.(514-516)CTC>GTC	p.L172V	MAN2B2_uc003gje.1_Missense_Mutation_p.L172V|MAN2B2_uc011bwf.1_Missense_Mutation_p.L172V	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	172					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						CAATGCCCACCTCGGCTCCCG	0.662													4	79	---	---	---	---	PASS	G	6588845	G	G	6588845	3	3	95	1	0	0	0	0	1	0	0	0	9217	681	24	4	528	4	MAN2B2	4	6588845	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08		6588845	184565431	51	35601										
LPHN3	23284	broad.mit.edu	37	chr4	62679551	62679551	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggcacatcatggacaagtttCatacatttctccgccaattc	6	12	3	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr4:62679551C>T	uc010ihh.2	+	6	1393	c.1220C>T	c.(1219-1221)TCA>TTA	p.S407L	LPHN3_uc003hcq.3_Missense_Mutation_p.S407L|LPHN3_uc003hcs.1_Missense_Mutation_p.S236L	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	407	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						ggacaagtttcatacatttct	0.119													11	62	---	---	---	---	PASS	T	62679551	T	T	62679551	3	4	95	1	0	0	0	0	1	0	0	0	8917	838	29	2	1242	2	LPHN3	4	62679551	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	56090706	62679551	128474725	52	35602										
TECRL	253017	broad.mit.edu	37	chr4	65274916	65274916	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	agtcgtttttgaatgtttgaCtgctggagttggtcttagag	13	4	1	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr4:65274916C>A	uc003hcv.2	-	1	263	c.154G>T	c.(154-156)GTC>TTC	p.V52F	TECRL_uc003hcw.2_Missense_Mutation_p.V52F	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	52					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						GAATGTTTGACTGCTGGAGTT	0.358													18	75	---	---	---	---	PASS	A	65274916	A	A	65274916	3	1	95	1	0	0	0	0	1	0	0	0	15743	565	20	3	985	3	TECRL	4	65274916	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	2595365	65274916	125879360	53	35603										
SLC4A4	8671	broad.mit.edu	37	chr4	72412222	72412222	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gagacttctgcacctggagaAcaaccaaagtttctaggagt	10	9	2	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr4:72412222A>G	uc003hfy.2	+	19	2715	c.2598A>G	c.(2596-2598)GAA>GAG	p.E866E	SLC4A4_uc010iic.2_Silent_p.E866E|SLC4A4_uc010iib.2_Intron|SLC4A4_uc003hfz.2_Silent_p.E866E|SLC4A4_uc003hgc.3_Silent_p.E822E|SLC4A4_uc010iid.2_Silent_p.E70E	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	866	Extracellular (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			CACCTGGAGAACAACCAAAGT	0.483													12	63	---	---	---	---	PASS	G	72412222	G	G	72412222	2	3	95	1	0	0	0	0	0	0	0	1	14656	40	2	5		5	SLC4A4	4	72412222	Silent	SNP	A	TCGA-39-5039-01A-01D-1441-08	7137306	72412222	118742054	54	35604										
PPM1K	152926	broad.mit.edu	37	chr4	89186283	89186283	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggaagctgtcatcagcatgaTgtaactgcaatcagaaccaa	9	9	3	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr4:89186283T>A	uc003hrm.3	-	6	1247	c.857A>T	c.(856-858)CAT>CTT	p.H286L		NM_152542	NP_689755	Q8N3J5	PPM1K_HUMAN	protein phosphatase 1K (PP2C domain containing)	286	PP2C-like.				protein dephosphorylation	mitochondrial matrix|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000192)		ATCAGCATGATGTAACTGCAA	0.413													31	208	---	---	---	---	PASS	A	89186283	A	A	89186283	3	1	95	1	0	0	0	0	1	0	0	0	12343	1464	51	5	269	5	PPM1K	4	89186283	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	16774061	89186283	101967993	55	35605										
CENPE	1062	broad.mit.edu	37	chr4	104082506	104082506	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	acttaccattttctccttcaGctccagattttcacttctaa	2	13	4	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr4:104082506G>T	uc003hxb.1	-	19	2041	c.1951C>A	c.(1951-1953)CTG>ATG	p.L651M	CENPE_uc003hxc.1_Missense_Mutation_p.L626M	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	651	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TTCTCCTTCAGCTCCAGATTT	0.333													20	136	---	---	---	---	PASS	T	104082506	T	T	104082506	3	4	95	1	0	0	0	0	1	0	0	0	3230	962	34	3	6278	3	CENPE	4	104082506	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	14896223	104082506	87071770	56	35606										
CTSO	1519	broad.mit.edu	37	chr4	156863508	156863508	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tgtgtcacaacctgcttgtcCctccagtcaaatcttaacgg	7	13	3	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr4:156863508C>T	uc003ipg.2	-	3	394	c.345G>A	c.(343-345)AGG>AGA	p.R115R		NM_001334	NP_001325	P43234	CATO_HUMAN	cathepsin O preproprotein	115					proteolysis	lysosome	cysteine-type endopeptidase activity				0	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.05)|Kidney(143;0.0627)|COAD - Colon adenocarcinoma(41;0.148)		CCTGCTTGTCCCTCCAGTCAA	0.423													14	123	---	---	---	---	PASS	T	156863508	T	T	156863508	2	4	95	1	0	0	0	0	0	0	0	1	4040	622	22	3		3	CTSO	4	156863508	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	52781002	156863508	34290768	57	35607										
WDR17	116966	broad.mit.edu	37	chr4	177081166	177081166	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	agagctgaccaattaatccaGgaagataaggatgatgtcat	10	6	1	4			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr4:177081166G>T	uc003iuj.2	+	20	2775	c.2619G>T	c.(2617-2619)CAG>CAT	p.Q873H	WDR17_uc003iuk.2_Missense_Mutation_p.Q849H|WDR17_uc003ium.3_Missense_Mutation_p.Q849H|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.Q92H	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	873										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		AATTAATCCAGGAAGATAAGG	0.338													10	98	---	---	---	---	PASS	T	177081166	T	T	177081166	3	4	95	1	0	0	0	0	1	0	0	0	17274	991	35	3	2693	3	WDR17	4	177081166	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	20217658	177081166	14073110	58	35608										
ADAMTS16	170690	broad.mit.edu	37	chr5	5242297	5242297	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tctgagtgctccgtgtcctgCggagggggtaggtgccttcc	16	11	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:5242297C>T	uc003jdl.2	+	17	2793	c.2655C>T	c.(2653-2655)TGC>TGT	p.C885C	ADAMTS16_uc003jdk.1_Silent_p.C885C	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	885	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CCGTGTCCTGCGGAGGGGGTA	0.612													11	106	---	---	---	---	PASS	T	5242297	T	T	5242297	2	4	95	1	0	0	0	0	0	0	0	1	261	776	27	1		1	ADAMTS16	5	5242297	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08		5242297	175672963	59	35609										
ADCY2	108	broad.mit.edu	37	chr5	7802424	7802424	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cagaatccgacgtgaacaagGagggcttggaatgccttcgg	14	9	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:7802424G>A	uc003jdz.1	+	21	2789	c.2722G>A	c.(2722-2724)GAG>AAG	p.E908K	ADCY2_uc011cmo.1_Missense_Mutation_p.E728K|ADCY2_uc010itm.1_Missense_Mutation_p.E104K	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	908	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CGTGAACAAGGAGGGCTTGGA	0.498													21	81	---	---	---	---	PASS	A	7802424	A	A	7802424	3	1	95	1	0	0	0	0	1	0	0	0	294	1175	41	2	2804	2	ADCY2	5	7802424	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	2560127	7802424	173112836	60	35610										
CTNND2	1501	broad.mit.edu	37	chr5	11732318	11732318	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	catccccgttggaggtgtttAagccggggctcagggaactc	14	11	1	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:11732318A>T	uc003jfa.1	-	2	249	c.104T>A	c.(103-105)TTA>TAA	p.L35*	CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	35					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GGAGGTGTTTAAGCCGGGGCT	0.507													19	176	---	---	---	---	PASS	T	11732318	T	T	11732318	4	4	95	1	0	0	0	0	0	1	0	0	4020	372	13	5	3657	5	CTNND2	5	11732318	Nonsense_Mutation	SNP	A	TCGA-39-5039-01A-01D-1441-08	3929894	11732318	169182942	61	35611										
DNAH5	1767	broad.mit.edu	37	chr5	13870923	13870923	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggagatttgctcctcccttaTttctttcagcgctgccattg	8	12	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:13870923T>C	uc003jfd.2	-	24	3829	c.3787A>G	c.(3787-3789)ATA>GTA	p.I1263V		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1263	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TCCTCCCTTATTTCTTTCAGC	0.338									Kartagener_syndrome				21	134	---	---	---	---	PASS	C	13870923	C	C	13870923	3	2	95	1	0	0	0	0	1	0	0	0	4604	1493	52	5	10311	5	DNAH5	5	13870923	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	2138605	13870923	167044337	62	35612										
CDH12	1010	broad.mit.edu	37	chr5	21842274	21842274	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aggaaaggtgacatacttttGgggaatcgaggtggattgtc	15	4	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:21842274G>C	uc010iuc.2	-	5	1268	c.810C>G	c.(808-810)CCC>CCG	p.P270P	CDH12_uc011cno.1_Silent_p.P230P|CDH12_uc003jgk.2_Silent_p.P270P	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	270	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						ACATACTTTTGGGGAATCGAG	0.408										HNSCC(59;0.17)			48	213	---	---	---	---	PASS	C	21842274	C	C	21842274	2	2	95	1	0	0	0	0	0	0	0	1	3098	1335	47	4		4	CDH12	5	21842274	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	7971351	21842274	159072986	63	35613										
PDZD2	23037	broad.mit.edu	37	chr5	31983589	31983589	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atgtctttcagctagaaaatGgcccagattctctcaaggag	9	9	4	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:31983589G>A	uc003jhl.2	+	3	1193	c.805G>A	c.(805-807)GGC>AGC	p.G269S	PDZD2_uc003jhm.2_Missense_Mutation_p.G269S|PDZD2_uc011cnx.1_Missense_Mutation_p.G95S	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	269					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GCTAGAAAATGGCCCAGATTC	0.557													27	189	---	---	---	---	PASS	A	31983589	A	A	31983589	3	1	95	1	0	0	0	0	1	0	0	0	11701	1348	47	3	811	3	PDZD2	5	31983589	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	10141315	31983589	148931671	64	35614										
SLC1A3	6507	broad.mit.edu	37	chr5	36608603	36608603	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cagggagtccgtaaacgcacActtttggccaagaagaaagt	11	9	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:36608603A>G	uc003jkj.3	+	2	554	c.78A>G	c.(76-78)ACA>ACG	p.T26T	SLC1A3_uc011cox.1_5'UTR|SLC1A3_uc010iuy.2_Silent_p.T26T	NM_004172	NP_004163	P43003	EAA1_HUMAN	solute carrier family 1 (glial high affinity	26	Cytoplasmic (Potential).				D-aspartate import|L-glutamate import|neurotransmitter uptake	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0	all_lung(31;0.000245)		Epithelial(62;0.0444)|Lung(74;0.111)|all cancers(62;0.128)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)		L-Glutamic Acid(DB00142)	GTAAACGCACACTTTTGGCCA	0.458													60	271	---	---	---	---	PASS	G	36608603	G	G	36608603	2	3	95	1	0	0	0	0	0	0	0	1	14433	146	6	5		5	SLC1A3	5	36608603	Silent	SNP	A	TCGA-39-5039-01A-01D-1441-08	4625014	36608603	144306657	65	35615										
C5orf42	65250	broad.mit.edu	37	chr5	37169315	37169315	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ttgtgctgctctctgtggcaGagcaggttggaaggagtcag	16	7	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:37169315G>C	uc011cpa.1	-	34	7042	c.6811C>G	c.(6811-6813)CTG>GTG	p.L2271V	C5orf42_uc011coy.1_Missense_Mutation_p.L771V|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.L1346V|C5orf42_uc003jkr.1_Missense_Mutation_p.L304V	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2271										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			CTCTGTGGCAGAGCAGGTTGG	0.478													26	158	---	---	---	---	PASS	C	37169315	C	C	37169315	3	2	95	1	0	0	0	0	1	0	0	0	2301	933	33	2	2858	2	C5orf42	5	37169315	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	560712	37169315	143745945	66	35616										
C7	730	broad.mit.edu	37	chr5	40981570	40981570	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	agcatttgtgtggaagtgaaCggcaaggagcagacgatgtc	15	6	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:40981570C>T	uc003jmh.2	+	18	2541	c.2427C>T	c.(2425-2427)AAC>AAT	p.N809N		NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	809	Complement control factor I module 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				TGGAAGTGAACGGCAAGGAGC	0.542													8	35	---	---	---	---	PASS	T	40981570	T	T	40981570	2	4	95	1	0	0	0	0	0	0	0	1	2375	535	19	1		1	C7	5	40981570	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	3812255	40981570	139933690	67	35617										
HTR1A	3350	broad.mit.edu	37	chr5	63256546	63256546	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tctctcgggccagggccatcTtgcgcttcgcctcggcgttg	13	15	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:63256546T>C	uc011cqt.1	-	1	1001	c.1001A>G	c.(1000-1002)AAG>AGG	p.K334R		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	334	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	CAGGGCCATCTTGCGCTTCGC	0.597													27	144	---	---	---	---	PASS	C	63256546	C	C	63256546	3	2	95	1	0	0	0	0	1	0	0	0	7436	1609	56	5	270	5	HTR1A	5	63256546	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	22274976	63256546	117658714	68	35618										
ERAP1	51752	broad.mit.edu	37	chr5	96126064	96126064	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cccttttacaccatctgtagGgcaaatctaaaaaccaaaaa	4	11	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:96126064G>A	uc003kmm.2	-	10	1806	c.1459C>T	c.(1459-1461)CCT>TCT	p.P487S	ERAP1_uc003kml.2_Missense_Mutation_p.P487S|ERAP1_uc010jbm.1_Missense_Mutation_p.P299S|ERAP1_uc003kmn.2_Missense_Mutation_p.P487S	NM_001040458	NP_001035548	Q9NZ08	ERAP1_HUMAN	type 1 tumor necrosis factor receptor shedding	487	Lumenal (Potential).				angiogenesis|antigen processing and presentation of endogenous peptide antigen via MHC class I|fat cell differentiation|membrane protein ectodomain proteolysis|regulation of blood pressure|regulation of innate immune response|response to bacterium	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|integral to membrane	aminopeptidase activity|interleukin-1, Type II receptor binding|interleukin-6 receptor binding|metalloexopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		all_cancers(142;1.75e-06)|all_epithelial(76;3.08e-09)|all_lung(232;0.000435)|Lung NSC(167;0.000601)|Ovarian(225;0.024)|Colorectal(57;0.0432)|Breast(839;0.244)		all cancers(79;7.26e-15)|COAD - Colon adenocarcinoma(37;0.071)		CCATCTGTAGGGCAAATCTAA	0.363													23	51	---	---	---	---	PASS	A	96126064	A	A	96126064	3	1	95	1	0	0	0	0	1	0	0	0	5203	1232	43	3	1439	3	ERAP1	5	96126064	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	32869518	96126064	84789196	69	35619										
RAPGEF6	51735	broad.mit.edu	37	chr5	130799800	130799800	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gaagtcttctctgttttatgAcaccctcaggagtaacagaa	8	9	3	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:130799800A>G	uc003kvn.1	-	18	2620	c.2414T>C	c.(2413-2415)GTC>GCC	p.V805A	RAPGEF6_uc003kvp.1_Missense_Mutation_p.V855A|RAPGEF6_uc003kvo.1_Missense_Mutation_p.V810A|RAPGEF6_uc010jdi.1_Missense_Mutation_p.V805A|RAPGEF6_uc010jdj.1_Missense_Mutation_p.V805A|RAPGEF6_uc003kvq.2_Missense_Mutation_p.V522A|RAPGEF6_uc003kvr.2_Missense_Mutation_p.V805A|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Missense_Mutation_p.V805A	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	805	Ras-associating.				Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		CTGTTTTATGACACCCTCAGG	0.383													3	114	---	---	---	---	PASS	G	130799800	G	G	130799800	3	3	95	1	0	0	0	0	1	0	0	0	13048	275	10	5	2902	5	RAPGEF6	5	130799800	Missense_Mutation	SNP	A	TCGA-39-5039-01A-01D-1441-08	34673736	130799800	50115460	70	35620										
PCDHGA10	56106	broad.mit.edu	37	chr5	140792990	140792990	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gcagcttttctctctgaaccCgcgcagcggcagcttgatca	10	14	3	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr5:140792990C>T	uc003lkl.1	+	1	248	c.248C>T	c.(247-249)CCG>CTG	p.P83L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.P83L	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	83	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTCTGAACCCGCGCAGCGGC	0.627													23	127	---	---	---	---	PASS	T	140792990	T	T	140792990	3	4	95	1	0	0	0	0	1	0	0	0	11551	652	23	1	250	1	PCDHGA10	5	140792990	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	9993190	140792990	40122270	71	35621										
COL21A1	81578	broad.mit.edu	37	chr6	56006603	56006603	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cttgtcaccatctcgccctgGttctcctttgtaacctggta	7	14	3	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr6:56006603G>A	uc003pcs.2	-	12	1754	c.1522C>T	c.(1522-1524)CCA>TCA	p.P508S	COL21A1_uc003pct.1_RNA|COL21A1_uc011dxi.1_Missense_Mutation_p.P508S|COL21A1_uc003pcu.1_Missense_Mutation_p.P505S	NM_030820	NP_110447	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1 precursor	508	Collagen-like 1.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(2)	2	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			TCTCGCCCTGGTTCTCCTTTG	0.348													14	96	---	---	---	---	PASS	A	56006603	A	A	56006603	3	1	95	1	0	0	0	0	1	0	0	0	3680	1261	44	3	1427	3	COL21A1	6	56006603	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08		56006603	115108464	72	35622										
SIM1	6492	broad.mit.edu	37	chr6	100841640	100841640	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tgtctgtaggcgcacgatgcGtcgtgctgggagccaggcct	16	11	1	0	rs139715467	byFrequency	TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr6:100841640G>A	uc003pqj.3	-	10	1500	c.1293C>T	c.(1291-1293)GAC>GAT	p.D431D	SIM1_uc010kcu.2_Silent_p.D431D	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	431	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		CGCACGATGCGTCGTGCTGGG	0.612													13	86	---	---	---	---	PASS	A	100841640	A	A	100841640	2	1	95	1	0	0	0	0	0	0	0	1	14323	1136	40	1		1	SIM1	6	100841640	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	44835037	100841640	70273427	73	35623										
C6orf170	221322	broad.mit.edu	37	chr6	121482134	121482134	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gcaaaatccgttccaatggcCcaccaacaagatttattcta	5	12	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr6:121482134C>A	uc003pyo.1	-	23	2707	c.2639G>T	c.(2638-2640)GGG>GTG	p.G880V	C6orf170_uc003pyq.1_RNA|C6orf170_uc010kej.1_5'UTR|C6orf170_uc003pyp.1_Missense_Mutation_p.G440V	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	880					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		TTCCAATGGCCCACCAACAAG	0.388													18	88	---	---	---	---	PASS	A	121482134	A	A	121482134	3	1	95	1	0	0	0	0	1	0	0	0	2344	623	22	3	1174	3	C6orf170	6	121482134	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	20640494	121482134	49632933	74	35624										
PTPRK	5796	broad.mit.edu	37	chr6	128411045	128411045	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gacattaaaagtgtggcaacGcgtaatgttgtaacccaagg	11	7	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr6:128411045G>A	uc003qbk.2	-	8	1622	c.1255C>T	c.(1255-1257)CGT>TGT	p.R419C	PTPRK_uc003qbj.2_Missense_Mutation_p.R419C|PTPRK_uc010kfc.2_Missense_Mutation_p.R419C|PTPRK_uc011ebu.1_Missense_Mutation_p.R419C|PTPRK_uc003qbl.1_Missense_Mutation_p.R289C|PTPRK_uc011ebv.1_Missense_Mutation_p.R419C	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	419	Extracellular (Potential).|Fibronectin type-III 2.				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		GTGTGGCAACGCGTAATGTTG	0.463													14	99	---	---	---	---	PASS	A	128411045	A	A	128411045	3	1	95	1	0	0	0	0	1	0	0	0	12805	1087	38	1	3181	1	PTPRK	6	128411045	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	6928911	128411045	42704022	75	35625										
IGF2R	3482	broad.mit.edu	37	chr6	160453653	160453653	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gtggattactgagtatgcctGccacagagattacctggaaa	11	8	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr6:160453653G>C	uc003qta.2	+	8	1101	c.953G>C	c.(952-954)TGC>TCC	p.C318S		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	318	2.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GAGTATGCCTGCCACAGAGAT	0.478													24	79	---	---	---	---	PASS	C	160453653	C	C	160453653	3	2	95	1	0	0	0	0	1	0	0	0	7576	1319	46	4	983	4	IGF2R	6	160453653	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	32042608	160453653	10661414	76	35626										
CHST12	55501	broad.mit.edu	37	chr7	2472891	2472891	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gctgcgcatcccgcgcgagcAcgtgcacaacgccagcgcgc	13	18	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr7:2472891A>G	uc003smc.2	+	2	752	c.617A>G	c.(616-618)CAC>CGC	p.H206R	CHST12_uc003smd.2_Missense_Mutation_p.H206R	NM_018641	NP_061111	Q9NRB3	CHSTC_HUMAN	carbohydrate sulfotransferase 12	206	Lumenal (Potential).				dermatan sulfate biosynthetic process	integral to Golgi membrane	3'-phosphoadenosine 5'-phosphosulfate binding|chondroitin 4-sulfotransferase activity|protein binding			kidney(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0847)|OV - Ovarian serous cystadenocarcinoma(56;2.25e-13)		CCGCGCGAGCACGTGCACAAC	0.652													6	34	---	---	---	---	PASS	G	2472891	G	G	2472891	3	3	95	1	0	0	0	0	1	0	0	0	3400	159	6	5	619	5	CHST12	7	2472891	Missense_Mutation	SNP	A	TCGA-39-5039-01A-01D-1441-08		2472891	156665772	77	35627										
THSD7A	221981	broad.mit.edu	37	chr7	11468628	11468628	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cctccattatatggtttttcAcgcagccatttagaacgaac	6	11	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr7:11468628A>C	uc003ssf.3	-	14	3441	c.3189T>G	c.(3187-3189)CGT>CGG	p.R1063R		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1063	TSP type-1 11.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		ATGGTTTTTCACGCAGCCATT	0.488										HNSCC(18;0.044)			54	360	---	---	---	---	PASS	C	11468628	C	C	11468628	2	2	95	1	0	0	0	0	0	0	0	1	15876	146	6	5		5	THSD7A	7	11468628	Silent	SNP	A	TCGA-39-5039-01A-01D-1441-08	8995737	11468628	147670035	78	35628										
TMEM195	392636	broad.mit.edu	37	chr7	15458232	15458232	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gattgaattgaagatgaacaGcatatactgaagggggtatg	13	3	0	5			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr7:15458232G>A	uc003stb.1	-	5	730	c.560C>T	c.(559-561)GCT>GTT	p.A187V		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	187					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						AAGATGAACAGCATATACTGA	0.313													11	84	---	---	---	---	PASS	A	15458232	A	A	15458232	3	1	95	1	0	0	0	0	1	0	0	0	16114	971	34	3	813	3	TMEM195	7	15458232	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	3989604	15458232	143680431	79	35629										
PDE1C	5137	broad.mit.edu	37	chr7	31864552	31864552	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggactcacaatcttctcggtCatgtccgtaagcacagtgaa	9	11	4	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr7:31864552C>A	uc003tcm.1	-	13	1804	c.1335G>T	c.(1333-1335)ATG>ATT	p.M445I	PDE1C_uc003tcn.1_Missense_Mutation_p.M445I|PDE1C_uc003tco.1_Missense_Mutation_p.M505I|PDE1C_uc003tcr.2_Missense_Mutation_p.M445I|PDE1C_uc003tcs.2_Missense_Mutation_p.M445I	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	445	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			TCTTCTCGGTCATGTCCGTAA	0.493													22	183	---	---	---	---	PASS	A	31864552	A	A	31864552	3	1	95	1	0	0	0	0	1	0	0	0	11635	826	29	2	589	2	PDE1C	7	31864552	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	16406320	31864552	127274111	80	35630										
ASL	435	broad.mit.edu	37	chr7	65557066	65557066	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ccttgcctattacctggtccGcaaaggggtaagtgtgtagc	12	10	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr7:65557066G>T	uc003tuo.2	+	15	1247	c.1136G>T	c.(1135-1137)CGC>CTC	p.R379L	ASL_uc003tup.2_Missense_Mutation_p.R379L|ASL_uc003tur.2_Missense_Mutation_p.R353L|ASL_uc003tuq.2_Missense_Mutation_p.R359L	NM_000048	NP_000039	P04424	ARLY_HUMAN	argininosuccinate lyase isoform 1	379					arginine biosynthetic process via ornithine|arginine catabolic process|urea cycle	cytosol	argininosuccinate lyase activity			breast(2)	2					L-Arginine(DB00125)	TACCTGGTCCGCAAAGGGGTA	0.597													44	169	---	---	---	---	PASS	T	65557066	T	T	65557066	3	4	95	1	0	0	0	0	1	0	0	0	1044	1087	38	1	1190	1	ASL	7	65557066	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	33692514	65557066	93581597	81	35631										
AKAP9	10142	broad.mit.edu	37	chr7	91630612	91630612	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gacaacacatggcacagatgGaggaaatgaaaacacggcat	11	8	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr7:91630612G>C	uc003ulg.2	+	8	1606	c.1381G>C	c.(1381-1383)GAG>CAG	p.E461Q	AKAP9_uc003ule.2_Missense_Mutation_p.E473Q|AKAP9_uc003ulf.2_Missense_Mutation_p.E461Q|AKAP9_uc003uli.2_Missense_Mutation_p.E86Q	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	473	Glu-rich.|Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GGCACAGATGGAGGAAATGAA	0.378			T	BRAF	papillary thyroid								36	159	---	---	---	---	PASS	C	91630612	C	C	91630612	3	2	95	1	0	0	0	0	1	0	0	0	459	1175	41	2	1411	2	AKAP9	7	91630612	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	26073546	91630612	67508051	82	35632										
COL1A2	1278	broad.mit.edu	37	chr7	94039566	94039566	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aaccctagggtgagcctggtCcagctggctccaaaggagag	14	11	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr7:94039566C>A	uc003ung.1	+	20	1519	c.1048C>A	c.(1048-1050)CCA>ACA	p.P350T	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	350					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TGAGCCTGGTCCAGCTGGCTC	0.418										HNSCC(75;0.22)			12	85	---	---	---	---	PASS	A	94039566	A	A	94039566	3	1	95	1	0	0	0	0	1	0	0	0	3678	855	30	2	1126	2	COL1A2	7	94039566	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	2408954	94039566	65099097	83	35633										
SLC13A1	6561	broad.mit.edu	37	chr7	122774500	122774500	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gccactgaagccagatccagGataagagtagaatgataagg	12	7	0	5			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr7:122774500G>T	uc003vkm.2	-	8	921	c.896C>A	c.(895-897)TCC>TAC	p.S299Y	SLC13A1_uc010lks.2_Missense_Mutation_p.S175Y	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	299	Helical; (Potential).					integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	CCAGATCCAGGATAAGAGTAG	0.413													8	76	---	---	---	---	PASS	T	122774500	T	T	122774500	3	4	95	1	0	0	0	0	1	0	0	0	14391	1174	41	2	923	2	SLC13A1	7	122774500	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	28734934	122774500	36364163	84	35634										
OPN1SW	611	broad.mit.edu	37	chr7	128413743	128413743	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	agatgatgggattgtagatgCaagcactcttggagaagaat	13	4	1	5			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr7:128413743C>T	uc003vnt.3	-	4	887	c.887G>A	c.(886-888)TGC>TAC	p.C296Y		NM_001708	NP_001699	P03999	OPSB_HUMAN	opsin 1 (cone pigments), short-wave-sensitive	296	Helical; Name=7; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0						ATTGTAGATGCAAGCACTCTT	0.473													8	63	---	---	---	---	PASS	T	128413743	T	T	128413743	3	4	95	1	0	0	0	0	1	0	0	0	10880	710	25	3	167	3	OPN1SW	7	128413743	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	5639243	128413743	30724920	85	35635										
CHRM2	1129	broad.mit.edu	37	chr7	136700698	136700698	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gaaaagcagaatattgtagcCcgcaagattgtgaagatgac	11	6	0	5			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr7:136700698C>A	uc003vtf.1	+	4	1709	c.1086C>A	c.(1084-1086)GCC>GCA	p.A362A	CHRM2_uc003vtg.1_Silent_p.A362A|CHRM2_uc003vtj.1_Silent_p.A362A|CHRM2_uc003vtk.1_Silent_p.A362A|CHRM2_uc003vtl.1_Silent_p.A362A|CHRM2_uc003vtm.1_Silent_p.A362A|CHRM2_uc003vti.1_Silent_p.A362A|CHRM2_uc003vto.1_Silent_p.A362A|CHRM2_uc003vtn.1_Silent_p.A362A|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	362	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	ATATTGTAGCCCGCAAGATTG	0.473													10	99	---	---	---	---	PASS	A	136700698	A	A	136700698	2	1	95	1	0	0	0	0	0	0	0	1	3377	610	22	3		3	CHRM2	7	136700698	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	8286955	136700698	22437965	86	35636										
KEL	3792	broad.mit.edu	37	chr7	142640001	142640001	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cccccaacgtctgcagcattCtctaagaatgtgagggagtc	10	12	2	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr7:142640001C>A	uc003wcb.2	-	17	2112	c.1902G>T	c.(1900-1902)GAG>GAT	p.E634D		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	634	Extracellular (Potential).	Zinc; catalytic (By similarity).			proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					CTGCAGCATTCTCTAAGAATG	0.517													34	201	---	---	---	---	PASS	A	142640001	A	A	142640001	3	1	95	1	0	0	0	0	1	0	0	0	8142	912	32	2	308	2	KEL	7	142640001	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	5939303	142640001	16498662	87	35637										
SORBS3	10174	broad.mit.edu	37	chr8	22432219	22432219	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gaaattcggaacgttccctgGaaattacgttgccccggtgt	11	10	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr8:22432219G>T	uc003xbv.2	+	21	2334	c.1994G>T	c.(1993-1995)GGA>GTA	p.G665V	SORBS3_uc003xbw.3_Missense_Mutation_p.G323V	NM_005775	NP_005766	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3 isoform 1	665	SH3 3.|Binds to SOS.				muscle contraction|positive regulation of stress fiber assembly	cytoskeleton|cytosol|nucleus	protein binding|structural constituent of cytoskeleton|vinculin binding				0		Prostate(55;0.0421)|Breast(100;0.102)		BRCA - Breast invasive adenocarcinoma(99;0.00566)|Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		ACGTTCCCTGGAAATTACGTT	0.602											OREG0018613	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	133	---	---	---	---	PASS	T	22432219	T	T	22432219	3	4	95	1	0	0	0	0	1	0	0	0	14929	1174	41	2	2072	2	SORBS3	8	22432219	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08		22432219	123931803	88	35638										
NSMAF	8439	broad.mit.edu	37	chr8	59515778	59515778	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gtggcagttacctagttctgAgctggaataatcatgtatta	10	6	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr8:59515778A>G	uc003xtt.2	-	13	1250	c.1036T>C	c.(1036-1038)TCA>CCA	p.S346P	NSMAF_uc011lee.1_Missense_Mutation_p.S377P|NSMAF_uc003xtu.2_Missense_Mutation_p.S346P	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	346	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)				CCTAGTTCTGAGCTGGAATAA	0.433													32	237	---	---	---	---	PASS	G	59515778	G	G	59515778	3	3	95	1	0	0	0	0	1	0	0	0	10674	304	11	5	1793	5	NSMAF	8	59515778	Missense_Mutation	SNP	A	TCGA-39-5039-01A-01D-1441-08	37083559	59515778	86848244	89	35639										
PREX2	80243	broad.mit.edu	37	chr8	69021782	69021782	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aagaagacttagaaacccaaGacatctatcagaaactgctg	7	9	2	5			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr8:69021782G>A	uc003xxv.1	+	25	3097	c.3070G>A	c.(3070-3072)GAC>AAC	p.D1024N	PREX2_uc011lez.1_Missense_Mutation_p.D959N	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1024					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						AGAAACCCAAGACATCTATCA	0.458													25	178	---	---	---	---	PASS	A	69021782	A	A	69021782	3	1	95	1	0	0	0	0	1	0	0	0	12477	942	33	2	3397	2	PREX2	8	69021782	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	9506004	69021782	77342240	90	35640										
ZFHX4	79776	broad.mit.edu	37	chr8	77764061	77764061	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cagtggtcatgtggctggtgGgcacagcattgcagcaaatg	15	8	1	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr8:77764061G>A	uc003yav.2	+	10	5156	c.4769G>A	c.(4768-4770)GGG>GAG	p.G1590E	ZFHX4_uc003yau.1_Missense_Mutation_p.G1635E|ZFHX4_uc003yaw.1_Missense_Mutation_p.G1590E	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1590						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GTGGCTGGTGGGCACAGCATT	0.502										HNSCC(33;0.089)			10	85	---	---	---	---	PASS	A	77764061	A	A	77764061	3	1	95	1	0	0	0	0	1	0	0	0	17632	1232	43	3	4938	3	ZFHX4	8	77764061	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	8742279	77764061	68599961	91	35641										
CSMD3	114788	broad.mit.edu	37	chr8	113253983	113253983	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ctgggtgttcccagtgcaggTctaggatctttcaccaatat	10	10	3	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr8:113253983T>A	uc003ynu.2	-	66	10593	c.10434A>T	c.(10432-10434)AGA>AGT	p.R3478S	CSMD3_uc003yns.2_Missense_Mutation_p.R2680S|CSMD3_uc003ynt.2_Missense_Mutation_p.R3438S|CSMD3_uc011lhx.1_Missense_Mutation_p.R3309S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3478	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCAGTGCAGGTCTAGGATCTT	0.299										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			34	262	---	---	---	---	PASS	A	113253983	A	A	113253983	3	1	95	1	0	0	0	0	1	0	0	0	3946	1664	58	5	713	5	CSMD3	8	113253983	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	35489922	113253983	33110039	92	35642										
BAI1	575	broad.mit.edu	37	chr8	143603331	143603331	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ctgggccccacacaggtggtGtgcacgctggtggccgcctt	15	14	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr8:143603331G>A	uc003ywm.2	+	20	3213	c.3030G>A	c.(3028-3030)GTG>GTA	p.V1010V		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1010	Helical; Name=3; (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CACAGGTGGTGTGCACGCTGG	0.692													4	5	---	---	---	---	PASS	A	143603331	A	A	143603331	2	1	95	1	0	0	0	0	0	0	0	1	1298	1364	48	3		3	BAI1	8	143603331	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	30349348	143603331	2760691	93	35643										
ZC3H3	23144	broad.mit.edu	37	chr8	144621338	144621338	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tttcttgcgccacgaaggccCatggtgggaagagtagcccc	13	12	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr8:144621338C>T	uc003yyd.2	-	2	228	c.199G>A	c.(199-201)GGG>AGG	p.G67R		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	67					mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			CACGAAGGCCCATGGTGGGAA	0.667													20	150	---	---	---	---	PASS	T	144621338	T	T	144621338	3	4	95	1	0	0	0	0	1	0	0	0	17566	594	21	3	2691	3	ZC3H3	8	144621338	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	1018007	144621338	1742684	94	35644										
GLDC	2731	broad.mit.edu	37	chr9	6553420	6553420	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aactggagccccatggggccGcactgacggttcccacagga	13	14	0	1	rs121964977		TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr9:6553420G>A	uc003zkc.2	-	20	2598	c.2405C>T	c.(2404-2406)GCG>GTG	p.A802V		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	802					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	CCATGGGGCCGCACTGACGGT	0.547													25	84	---	---	---	---	PASS	A	6553420	A	A	6553420	3	1	95	1	0	0	0	0	1	0	0	0	6433	1087	38	1	681	1	GLDC	9	6553420	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08		6553420	134660011	95	35645										
FREM1	158326	broad.mit.edu	37	chr9	14775880	14775880	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gccatgaaagtaaagcagtcAgtctgggagtcccctcctga	11	11	2	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr9:14775880A>G	uc003zlm.2	-	25	5354	c.4764T>C	c.(4762-4764)ACT>ACC	p.T1588T	FREM1_uc010mic.2_Intron|FREM1_uc003zlk.2_5'Flank|FREM1_uc003zll.2_Silent_p.T124T	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1588	CSPG 11.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		TAAAGCAGTCAGTCTGGGAGT	0.498													19	99	---	---	---	---	PASS	G	14775880	G	G	14775880	2	3	95	1	0	0	0	0	0	0	0	1	6044	175	7	5		5	FREM1	9	14775880	Silent	SNP	A	TCGA-39-5039-01A-01D-1441-08	8222460	14775880	126437551	96	35646										
CDKN2A	1029	broad.mit.edu	37	chr9	21971082	21971082	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cggtgcagcaccaccagcgtGtccaggaagccctcccgggc	13	17	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr9:21971082G>A	uc003zpk.2	-	2	488	c.276C>T	c.(274-276)GAC>GAT	p.D92D	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.H148Y	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	92	ANK 3.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(13)|p.D92fs*54(2)|p.H83fs*2(2)|p.E61_L94del(1)|p.R137fs*48(1)|p.A68fs*3(1)|p.T93fs*26(1)|p.D92N(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCACCAGCGTGTCCAGGAAGC	0.746		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			8	8	---	---	---	---	PASS	A	21971082	A	A	21971082	2	1	95	1	0	0	0	0	0	0	0	1	3161	1377	48	3		3	CDKN2A	9	21971082	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	7195202	21971082	119242349	97	35647										
FRMPD1	22844	broad.mit.edu	37	chr9	37746626	37746626	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atgtggtgtacacctaccatCagtttatagaggctgctaaa	9	8	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr9:37746626C>G	uc004aag.1	+	16	4641	c.4597C>G	c.(4597-4599)CAG>GAG	p.Q1533E	FRMPD1_uc004aah.1_Missense_Mutation_p.Q1533E	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1533						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		CACCTACCATCAGTTTATAGA	0.617													38	135	---	---	---	---	PASS	G	37746626	G	G	37746626	3	3	95	1	0	0	0	0	1	0	0	0	6057	827	29	2	4655	2	FRMPD1	9	37746626	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	15775544	37746626	103466805	98	35648										
ZNF658	26149	broad.mit.edu	37	chr9	40772779	40772779	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gttctttgggagaaagttttCccacattggttacattcata	8	7	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr9:40772779C>T	uc004abs.2	-	5	2648	c.2496G>A	c.(2494-2496)GGG>GGA	p.G832G	ZNF658_uc010mmm.1_Intron|ZNF658_uc010mmn.1_Silent_p.G832G	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	832	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		AGAAAGTTTTCCCACATTGGT	0.408													40	172	---	---	---	---	PASS	T	40772779	T	T	40772779	2	4	95	1	0	0	0	0	0	0	0	1	18066	842	30	2		2	ZNF658	9	40772779	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	3026153	40772779	100440652	99	35649										
AGTPBP1	23287	broad.mit.edu	37	chr9	88272541	88272541	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gacatatcctctgtctacagCtctcctggcatttgtttctt	6	12	4	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr9:88272541C>T	uc011ltd.1	-	9	751	c.718G>A	c.(718-720)GCT>ACT	p.A240T	AGTPBP1_uc011ltc.1_Missense_Mutation_p.A138T|AGTPBP1_uc010mqc.2_Missense_Mutation_p.A240T|AGTPBP1_uc011lte.1_Missense_Mutation_p.A292T	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	240					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						CTGTCTACAGCTCTCCTGGCA	0.343													3	91	---	---	---	---	PASS	T	88272541	T	T	88272541	3	4	95	1	0	0	0	0	1	0	0	0	400	797	28	3	2910	3	AGTPBP1	9	88272541	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	47499762	88272541	52940890	100	35650										
PKN3	29941	broad.mit.edu	37	chr9	131476641	131476641	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggcctctgaccctgccactcCcaggtgaggagctcccttgc	11	17	1	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr9:131476641C>T	uc004bvw.2	+	11	1871	c.1478C>T	c.(1477-1479)CCC>CTC	p.P493L	PKN3_uc010myh.2_Missense_Mutation_p.P493L|PKN3_uc011mbk.1_Missense_Mutation_p.P43L	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	493	Pro-rich.				signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4						CCTGCCACTCCCAGGTGAGGA	0.622													16	58	---	---	---	---	PASS	T	131476641	T	T	131476641	3	4	95	1	0	0	0	0	1	0	0	0	11981	623	22	3	1520	3	PKN3	9	131476641	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	43204100	131476641	9736790	101	35651										
CACNA1B	774	broad.mit.edu	37	chr9	141015240	141015241	+	Frame_Shift_Ins	INS	-	T	T													0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gcttctactcctgcgaccgcINStttgggggccgtgagccccc							TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr9:141015240_141015241insT	uc004cog.2	+	45	6541_6542	c.6396_6397insT	c.(6394-6399)CGCTTTfs	p.R2132fs	CACNA1B_uc004coi.2_Frame_Shift_Ins_p.R1344fs	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	2132_2133	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	CCTGCGACCGCTTTGGGGGCCG	0.708													4	2	---	---	---	---		T	141015241	T	T	141015240	7	5	95	1	0	1	1	0	0	0	0	0	2539	784	28	0	6574	0	CACNA1B	9	141015240	Frame_Shift_Ins	INS	-	TCGA-39-5039-01A-01D-1441-08	9538599	141015240	198191	102	35652										
ASAH2	56624	broad.mit.edu	37	chr10	52008284	52008284	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ccactggtgataaacaagagGctgagaagggccactgtgat	13	8	0	4			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr10:52008284G>T	uc001jjd.2	-	1	87	c.87C>A	c.(85-87)AGC>AGA	p.S29R	ASAH2_uc009xos.2_Missense_Mutation_p.S29R	NM_019893	NP_063946	Q9NR71	ASAH2_HUMAN	N-acylsphingosine amidohydrolase 2 isoform a	29	Helical; Signal-anchor for type II membrane protein; (Potential).				apoptosis|ceramide metabolic process|signal transduction	integral to membrane|mitochondrion|plasma membrane	ceramidase activity				0						TAAACAAGAGGCTGAGAAGGG	0.443													29	93	---	---	---	---	PASS	T	52008284	T	T	52008284	3	4	95	1	0	0	0	0	1	0	0	0	1007	1194	42	3	2335	3	ASAH2	10	52008284	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08		52008284	83526463	103	35653										
PRKG1	5592	broad.mit.edu	37	chr10	53564377	53564377	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	taaaactctgggccattgatCgacaatgttttcaaacaata	6	8	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr10:53564377C>A	uc001jjm.2	+	4	774	c.580C>A	c.(580-582)CGA>AGA	p.R194R	PRKG1_uc001jjn.2_Silent_p.R209R|PRKG1_uc001jjo.2_Silent_p.R209R	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	194	cGMP 1.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		GGCCATTGATCGACAATGTTT	0.343													9	74	---	---	---	---	PASS	A	53564377	A	A	53564377	2	1	95	1	0	0	0	0	0	0	0	1	12522	876	31	2		2	PRKG1	10	53564377	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	1556093	53564377	81970370	104	35654										
CTNNA3	29119	broad.mit.edu	37	chr10	67680256	67680256	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atcacaactgggtgccggggCccagcaggactctggattcg	14	12	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr10:67680256C>A	uc009xpn.1	-	18	2643	c.2520G>T	c.(2518-2520)GGG>GGT	p.G840G	CTNNA3_uc001jmw.2_Silent_p.G840G	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	840					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						GGTGCCGGGGCCCAGCAGGAC	0.468													32	194	---	---	---	---	PASS	A	67680256	A	A	67680256	2	1	95	1	0	0	0	0	0	0	0	1	4014	726	26	3		3	CTNNA3	10	67680256	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	14115879	67680256	67854491	105	35655										
TET1	80312	broad.mit.edu	37	chr10	70332267	70332267	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aattaattcaagaaagagatGttaagaaaaaaacagaacct	6	4	1	4			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr10:70332267G>T	uc001jok.3	+	2	677	c.172G>T	c.(172-174)GTT>TTT	p.V58F		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	58					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						AGAAAGAGATGTTAAGAAAAA	0.423													7	130	---	---	---	---	PASS	T	70332267	T	T	70332267	3	4	95	1	0	0	0	0	1	0	0	0	15766	1377	48	3	174	3	TET1	10	70332267	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	2652011	70332267	65202480	106	35656										
GPR26	2849	broad.mit.edu	37	chr10	125426542	125426542	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gcttccattgcaagcgcatcGacgtgatcaccatgcagacg	10	13	1	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr10:125426542G>A	uc001lhh.2	+	1	672	c.619G>A	c.(619-621)GAC>AAC	p.D207N		NM_153442	NP_703143	Q8NDV2	GPR26_HUMAN	G protein-coupled receptor 26	207	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1		Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)				CAAGCGCATCGACGTGATCAC	0.642													3	16	---	---	---	---	PASS	A	125426542	A	A	125426542	3	1	95	1	0	0	0	0	1	0	0	0	6684	1058	37	2	621	2	GPR26	10	125426542	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	55094275	125426542	10108205	107	35657										
TALDO1	6888	broad.mit.edu	37	chr11	755975	755975	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ccaggagctggtggaggaggCgattgcctatggccggaagc	18	9	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:755975C>A	uc001lqz.2	+	2	244	c.194C>A	c.(193-195)GCG>GAG	p.A65E	TALDO1_uc010qwl.1_Missense_Mutation_p.A65E|TALDO1_uc001lra.2_Missense_Mutation_p.A65E	NM_006755	NP_006746	P37837	TALDO_HUMAN	transaldolase 1	65					energy reserve metabolic process|xylulose biosynthetic process	cytosol	protein binding|sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate glyceronetransferase activity				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;4.66e-26)|Epithelial(43;2.97e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.48e-19)|BRCA - Breast invasive adenocarcinoma(625;4.41e-05)|Lung(200;0.0595)|LUSC - Lung squamous cell carcinoma(625;0.0712)		GTGGAGGAGGCGATTGCCTAT	0.632													3	57	---	---	---	---	PASS	A	755975	A	A	755975	3	1	95	1	0	0	0	0	1	0	0	0	15540	768	27	1	200	1	TALDO1	11	755975	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08		755975	134250541	108	35658										
MUC5B	727897	broad.mit.edu	37	chr11	1268600	1268600	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gacttcccacaccccagcagCaaccaccagtaccacccagc	5	21	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:1268600C>G	uc009ycr.1	+	50	12200	c.12074C>G	c.(12073-12075)GCA>GGA	p.A4025G	MUC5B_uc001ltb.2_Missense_Mutation_p.A3500G	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3497	7 X Cys-rich subdomain repeats.|Thr-rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACCCCAGCAGCAACCACCAGT	0.662													20	69	---	---	---	---	PASS	G	1268600	G	G	1268600	3	3	95	1	0	0	0	0	1	0	0	0	9979	710	25	4	10621	4	MUC5B	11	1268600	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	512625	1268600	133737916	109	35659										
OR52N5	390075	broad.mit.edu	37	chr11	5799147	5799147	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	agccttctgccgagcatctgAtgaagagaggctgatcgctg	13	10	2	4			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:5799147A>T	uc010qzn.1	-	1	718	c.718T>A	c.(718-720)TCA>ACA	p.S240T	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001922	NP_001001922	Q8NH56	O52N5_HUMAN	olfactory receptor, family 52, subfamily N,	240	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		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)		CGAGCATCTGATGAAGAGAGG	0.453													10	92	---	---	---	---	PASS	T	5799147	T	T	5799147	3	4	95	1	0	0	0	0	1	0	0	0	11130	333	12	5	260	5	OR52N5	11	5799147	Missense_Mutation	SNP	A	TCGA-39-5039-01A-01D-1441-08	4530547	5799147	129207369	110	35660										
OR52N5	390075	broad.mit.edu	37	chr11	5799598	5799598	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aaccagaagatgcagagtgcAttgggtagagtggtggtgca	16	5	0	4			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:5799598A>G	uc010qzn.1	-	1	267	c.267T>C	c.(265-267)AAT>AAC	p.N89N	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001922	NP_001001922	Q8NH56	O52N5_HUMAN	olfactory receptor, family 52, subfamily N,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		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)		TGCAGAGTGCATTGGGTAGAG	0.448													13	132	---	---	---	---	PASS	G	5799598	G	G	5799598	2	3	95	1	0	0	0	0	0	0	0	1	11130	214	8	5		5	OR52N5	11	5799598	Silent	SNP	A	TCGA-39-5039-01A-01D-1441-08	451	5799598	129206918	111	35661										
OR56B4	196335	broad.mit.edu	37	chr11	6129241	6129241	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	attagcagtggtggacattgGcctggccaccaccatcatgc	11	12	1	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:6129241G>T	uc010qzx.1	+	1	233	c.233G>T	c.(232-234)GGC>GTC	p.G78V		NM_001005181	NP_001005181	Q8NH76	O56B4_HUMAN	olfactory receptor, family 56, subfamily B,	78	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.31e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTGGACATTGGCCTGGCCACC	0.502													7	75	---	---	---	---	PASS	T	6129241	T	T	6129241	3	4	95	1	0	0	0	0	1	0	0	0	11138	1203	42	3	235	3	OR56B4	11	6129241	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	329643	6129241	128877275	112	35662										
NRIP3	56675	broad.mit.edu	37	chr11	9005642	9005642	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cagagatcggagagtctgtaGaccaagggacaagtttttct	12	7	2	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:9005642G>T	uc001mhg.2	-	5	706	c.592C>A	c.(592-594)CTA>ATA	p.L198I	NRIP3_uc010rbu.1_3'UTR	NM_020645	NP_065696	Q9NQ35	NRIP3_HUMAN	nuclear receptor interacting protein 3	198					proteolysis		aspartic-type endopeptidase activity				0				Epithelial(150;4.77e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0241)		AGAGTCTGTAGACCAAGGGAC	0.393													19	203	---	---	---	---	PASS	T	9005642	T	T	9005642	3	4	95	1	0	0	0	0	1	0	0	0	10654	933	33	2	145	2	NRIP3	11	9005642	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	2876401	9005642	126000874	113	35663										
GALNTL4	374378	broad.mit.edu	37	chr11	11354266	11354266	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cataggcaatgatgtcggagTacatcctcatctctgggtac	10	10	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:11354266T>C	uc001mjo.2	-	8	1812	c.1391A>G	c.(1390-1392)TAC>TGC	p.Y464C		NM_198516	NP_940918	Q6P9A2	GLTL4_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	464	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)		GATGTCGGAGTACATCCTCAT	0.527													4	82	---	---	---	---	PASS	C	11354266	C	C	11354266	3	2	95	1	0	0	0	0	1	0	0	0	6223	1638	57	5	448	5	GALNTL4	11	11354266	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	2348624	11354266	123652250	114	35664										
IGSF22	283284	broad.mit.edu	37	chr11	18745750	18745750	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gaactccatggacacgtgctCctgcagcatctgccggctgt	11	14	1	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:18745750C>T	uc009yht.2	-	2	224	c.34G>A	c.(34-36)GAG>AAG	p.E12K	IGSF22_uc001mpa.2_RNA	NM_173588	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	12										ovary(4)|large_intestine(2)|kidney(1)	7						GACACGTGCTCCTGCAGCATC	0.592													13	214	---	---	---	---	PASS	T	18745750	T	T	18745750	3	4	95	1	0	0	0	0	1	0	0	0	7600	864	30	2	4034	2	IGSF22	11	18745750	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	7391484	18745750	116260766	115	35665										
ALX4	60529	broad.mit.edu	37	chr11	44286713	44286713	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gaggcagccccgttgttgccGagccaggacgggttctgaat	15	11	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:44286713G>T	uc001myb.2	-	4	1031	c.927C>A	c.(925-927)CTC>CTA	p.L309L		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	309					hair follicle development						0						CGTTGTTGCCGAGCCAGGACG	0.692													3	11	---	---	---	---	PASS	T	44286713	T	T	44286713	2	4	95	1	0	0	0	0	0	0	0	1	558	1045	37	2		2	ALX4	11	44286713	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	25540963	44286713	90719803	116	35666										
OR4C15	81309	broad.mit.edu	37	chr11	55322397	55322397	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggggtagcctggacagggggCctcttgcattccatgataca	14	10	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:55322397C>A	uc010rig.1	+	1	615	c.615C>A	c.(613-615)GGC>GGA	p.G205G		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	151	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GGACAGGGGGCCTCTTGCATT	0.468										HNSCC(20;0.049)			19	162	---	---	---	---	PASS	A	55322397	A	A	55322397	2	1	95	1	0	0	0	0	0	0	0	1	11048	726	26	3		3	OR4C15	11	55322397	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	11035684	55322397	79684119	117	35667										
OR5M8	219484	broad.mit.edu	37	chr11	56258430	56258430	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	accgtgatgaggaaggagcaCacactcttggacattctgct	11	10	2	2	rs141674595		TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:56258430C>A	uc001nix.1	-	1	417	c.417G>T	c.(415-417)GTG>GTT	p.V139V		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	139	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					GGAAGGAGCACACACTCTTGG	0.527													21	83	---	---	---	---	PASS	A	56258430	A	A	56258430	2	1	95	1	0	0	0	0	0	0	0	1	11176	465	17	3		3	OR5M8	11	56258430	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	936033	56258430	78748086	118	35668										
OR10Q1	219960	broad.mit.edu	37	chr11	57995755	57995755	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	agaggacagcctggtgcacgCggatgtcagcgcaggccagg	17	11	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:57995755C>A	uc010rkd.1	-	1	593	c.593G>T	c.(592-594)CGC>CTC	p.R198L		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	198	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				CTGGTGCACGCGGATGTCAGC	0.597													9	48	---	---	---	---	PASS	A	57995755	A	A	57995755	3	1	95	1	0	0	0	0	1	0	0	0	10916	768	27	1	370	1	OR10Q1	11	57995755	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	1737325	57995755	77010761	119	35669										
PATL1	219988	broad.mit.edu	37	chr11	59420456	59420456	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gatgactgctccggtgacttCctctatctcccgcaccattg	8	15	2	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:59420456C>T	uc001noe.3	-	10	1300	c.1157G>A	c.(1156-1158)GGA>GAA	p.G386E	PATL1_uc009yms.1_Missense_Mutation_p.G356E|PATL1_uc010rkw.1_Missense_Mutation_p.G91E	NM_152716	NP_689929	Q86TB9	PATL1_HUMAN	protein associated with topoisomerase II homolog	386	Region N; interaction with decapping machinery.				cytoplasmic mRNA processing body assembly|deadenylation-dependent decapping of nuclear-transcribed mRNA	cytoplasmic mRNA processing body	protein binding|RNA binding			ovary(1)	1						CCGGTGACTTCCTCTATCTCC	0.438													44	214	---	---	---	---	PASS	T	59420456	T	T	59420456	3	4	95	1	0	0	0	0	1	0	0	0	11475	855	30	2	1195	2	PATL1	11	59420456	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	1424701	59420456	75586060	120	35670										
VWCE	220001	broad.mit.edu	37	chr11	61050268	61050268	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ctccccgccttacctacacaGgagtgccggttgccatgaag	10	15	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:61050268G>A	uc001nra.2	-	6	930	c.651C>T	c.(649-651)TCC>TCT	p.S217S	VWCE_uc001nrb.2_RNA	NM_152718	NP_689931	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains	217	EGF-like 3; calcium-binding (Potential).					extracellular region	calcium ion binding			ovary(1)	1						TACCTACACAGGAGTGCCGGT	0.552													29	274	---	---	---	---	PASS	A	61050268	A	A	61050268	2	1	95	1	0	0	0	0	0	0	0	1	17242	987	35	3		3	VWCE	11	61050268	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	1629812	61050268	73956248	121	35671										
PRKRIR	5612	broad.mit.edu	37	chr11	76063785	76063785	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ttcttcgctggggttctgagCattgctattgttggtttctt	11	7	3	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:76063785C>A	uc001oxh.1	-	5	409	c.409G>T	c.(409-411)GCT>TCT	p.A137S	PRKRIR_uc010rrz.1_5'UTR	NM_004705	NP_004696	O43422	P52K_HUMAN	protein-kinase, interferon-inducible double	137					negative regulation of cell proliferation|response to stress|signal transduction		DNA binding|metal ion binding|protein dimerization activity			ovary(2)|pancreas(1)	3						GGGTTCTGAGCATTGCTATTG	0.368													6	45	---	---	---	---	PASS	A	76063785	A	A	76063785	3	1	95	1	0	0	0	0	1	0	0	0	12526	710	25	3	1880	3	PRKRIR	11	76063785	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	15013517	76063785	58942731	122	35672										
CEP164	22897	broad.mit.edu	37	chr11	117258018	117258018	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gtactcgagcaagaccagagGcacctgctggaatccaagca	11	12	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:117258018G>T	uc001prc.2	+	15	1971	c.1824G>T	c.(1822-1824)AGG>AGT	p.R608S	CEP164_uc001prb.2_Missense_Mutation_p.R611S|CEP164_uc010rxk.1_Missense_Mutation_p.R582S|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Missense_Mutation_p.R41S	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	608	Glu-rich.				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)		AAGACCAGAGGCACCTGCTGG	0.587													32	146	---	---	---	---	PASS	T	117258018	T	T	117258018	3	4	95	1	0	0	0	0	1	0	0	0	3249	1194	42	3	1874	3	CEP164	11	117258018	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	41194233	117258018	17748498	123	35673										
C11orf63	79864	broad.mit.edu	37	chr11	122756635	122756635	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aacttaaatgtccagtccacAcacccacctttgaagaaaga	5	12	0	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr11:122756635A>T	uc001pym.2	+	2	375	c.78A>T	c.(76-78)ACA>ACT	p.T26T	C11orf63_uc001pyl.1_Silent_p.T26T	NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	26										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		TCCAGTCCACACACCCACCTT	0.383													10	157	---	---	---	---	PASS	T	122756635	T	T	122756635	2	4	95	1	0	0	0	0	0	0	0	1	1654	146	6	5		5	C11orf63	11	122756635	Silent	SNP	A	TCGA-39-5039-01A-01D-1441-08	5498617	122756635	12249881	124	35674										
ITFG2	55846	broad.mit.edu	37	chr12	2933085	2933085	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	agaccaagccggagtaccacAgcctgctgcaggagctgggc	14	13	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:2933085A>T	uc001qlb.1	+	11	1280	c.1216A>T	c.(1216-1218)AGC>TGC	p.S406C	ITFG2_uc010seb.1_Missense_Mutation_p.S229C|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	406											0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GGAGTACCACAGCCTGCTGCA	0.597													18	98	---	---	---	---	PASS	T	2933085	T	T	2933085	3	4	95	1	0	0	0	0	1	0	0	0	7870	188	7	5	1258	5	ITFG2	12	2933085	Missense_Mutation	SNP	A	TCGA-39-5039-01A-01D-1441-08		2933085	130918810	125	35675										
NECAP1	25977	broad.mit.edu	37	chr12	8245544	8245544	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tctgagcttactcccaccccCgccaggaggcaaagtcacta	8	16	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:8245544C>T	uc001qtx.2	+	6	647	c.569C>T	c.(568-570)CCG>CTG	p.P190L	NECAP1_uc001qty.2_Missense_Mutation_p.P48L	NM_015509	NP_056324	Q8NC96	NECP1_HUMAN	NECAP endocytosis associated 1	190					endocytosis|protein transport	clathrin coated vesicle membrane|plasma membrane				ovary(1)	1				Kidney(36;0.0915)		CTCCCACCCCCGCCAGGAGGC	0.512													16	176	---	---	---	---	PASS	T	8245544	T	T	8245544	3	4	95	1	0	0	0	0	1	0	0	0	10307	652	23	1	591	1	NECAP1	12	8245544	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	5312459	8245544	125606351	126	35676										
CLEC1A	51267	broad.mit.edu	37	chr12	10241723	10241723	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aggtcagagcgcagacttacAcaaaagccccagggctgcca	11	13	1	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:10241723A>G	uc001qxb.2	-	2	298	c.214T>C	c.(214-216)TTT>CTT	p.F72L	CLEC1A_uc009zhf.2_5'UTR|CLEC1A_uc001qxc.2_5'UTR|CLEC1A_uc001qxd.2_Intron|CLEC1A_uc010sgx.1_Intron	NM_016511	NP_057595	Q8NC01	CLC1A_HUMAN	C-type lectin-like receptor-1	72	Helical; Signal-anchor for type II membrane protein; (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane|intracellular	sugar binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2						GCAGACTTACACAAAAGCCCC	0.512													11	47	---	---	---	---	PASS	G	10241723	G	G	10241723	3	3	95	1	0	0	0	0	1	0	0	0	3505	173	6	5	648	5	CLEC1A	12	10241723	Missense_Mutation	SNP	A	TCGA-39-5039-01A-01D-1441-08	1996179	10241723	123610172	127	35677										
WBP11	51729	broad.mit.edu	37	chr12	14947514	14947514	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tcttcatctcgcctacgaggGggaagatctagggcaaaacc	11	11	4	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:14947514G>A	uc001rci.2	-	7	839	c.678C>T	c.(676-678)CCC>CCT	p.P226P		NM_016312	NP_057396	Q9Y2W2	WBP11_HUMAN	WW domain binding protein 11	226					mRNA processing|RNA splicing|rRNA processing	cytoplasm	single-stranded DNA binding|WW domain binding			ovary(1)|lung(1)	2						GCCTACGAGGGGGAAGATCTA	0.488													67	403	---	---	---	---	PASS	A	14947514	A	A	14947514	2	1	95	1	0	0	0	0	0	0	0	1	17255	1219	43	3		3	WBP11	12	14947514	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	4705791	14947514	118904381	128	35678										
RASSF8	11228	broad.mit.edu	37	chr12	26218104	26218104	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gaatgtgaaaacaaattaaaGgactatttggcacagatccg	9	6	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:26218104G>A	uc001rgx.2	+	3	998	c.777G>A	c.(775-777)AAG>AAA	p.K259K	RASSF8_uc001rgy.2_Silent_p.K259K|RASSF8_uc001rgz.2_Silent_p.K259K|RASSF8_uc009zjd.1_Silent_p.K259K|RASSF8_uc009zje.1_Silent_p.K259K	NM_007211	NP_009142	Q8NHQ8	RASF8_HUMAN	Ras association (RalGDS/AF-6) domain family	259	Glu-rich.				signal transduction						0	Colorectal(261;0.0847)					ACAAATTAAAGGACTATTTGG	0.373													10	199	---	---	---	---	PASS	A	26218104	A	A	26218104	2	1	95	1	0	0	0	0	0	0	0	1	13092	991	35	3		3	RASSF8	12	26218104	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	11270590	26218104	107633791	129	35679										
ARNTL2	56938	broad.mit.edu	37	chr12	27553684	27553684	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	acccggtttgcagtgaatggAaaatttgtctatgtagatca	10	6	2	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:27553684A>G	uc001rht.1	+	10	1155	c.1137A>G	c.(1135-1137)GGA>GGG	p.G379G	ARNTL2_uc001rhw.2_Silent_p.G342G|ARNTL2_uc010sjp.1_Silent_p.G342G|ARNTL2_uc001rhu.1_Silent_p.G365G|ARNTL2_uc009zji.1_Silent_p.G345G|ARNTL2_uc001rhv.1_Silent_p.G331G|uc001rhx.2_Intron	NM_020183	NP_064568	Q8WYA1	BMAL2_HUMAN	aryl hydrocarbon receptor nuclear	379	PAS 2.				circadian rhythm|entrainment of circadian clock|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|skin(1)	2	Colorectal(261;0.0847)|Lung SC(9;0.184)					CAGTGAATGGAAAATTTGTCT	0.348													25	147	---	---	---	---	PASS	G	27553684	G	G	27553684	2	3	95	1	0	0	0	0	0	0	0	1	968	233	9	5		5	ARNTL2	12	27553684	Silent	SNP	A	TCGA-39-5039-01A-01D-1441-08	1335580	27553684	106298211	130	35680										
FAM113B	91523	broad.mit.edu	37	chr12	47629351	47629351	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggaacacggccatgcctgtgGgcgaggaagtcaccgggggt	18	10	1	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:47629351G>T	uc001rpn.2	+	4	1236	c.505G>T	c.(505-507)GGC>TGC	p.G169C	FAM113B_uc010slj.1_Missense_Mutation_p.G49C|FAM113B_uc001rpq.2_Missense_Mutation_p.G169C	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	169							hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					CATGCCTGTGGGCGAGGAAGT	0.612													7	86	---	---	---	---	PASS	T	47629351	T	T	47629351	3	4	95	1	0	0	0	0	1	0	0	0	5402	1232	43	3	507	3	FAM113B	12	47629351	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	20075667	47629351	86222544	131	35681										
SMUG1	23583	broad.mit.edu	37	chr12	54576119	54576119	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gagggctgcatcacagatccCaagaagctgttctcgctgct	11	12	2	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:54576119C>G	uc001sff.1	-	4	703	c.574G>C	c.(574-576)GGG>CGG	p.G192R	SMUG1_uc001sfa.1_RNA|SMUG1_uc001sfe.1_3'UTR|SMUG1_uc001sfg.1_Missense_Mutation_p.G192R|SMUG1_uc009znf.1_Missense_Mutation_p.G192R|SMUG1_uc001sfb.3_Intron|SMUG1_uc001sfc.3_Intron|SMUG1_uc001sfd.3_Intron	NM_014311	NP_055126	Q53HV7	SMUG1_HUMAN	single-strand-selective monofunctional	192					depyrimidination	nucleolus|nucleoplasm	DNA binding|protein binding|single-strand selective uracil DNA N-glycosylase activity				0						TCACAGATCCCAAGAAGCTGT	0.632								BER_DNA_glycosylases					10	130	---	---	---	---	PASS	G	54576119	G	G	54576119	3	3	95	1	0	0	0	0	1	0	0	0	14818	594	21	4	242	4	SMUG1	12	54576119	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	6946768	54576119	79275776	132	35682										
MMP19	4327	broad.mit.edu	37	chr12	56234994	56234994	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	catccagctgacctgagactGgaagttcagatgcttcctga	10	11	1	4			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:56234994G>T	uc001sib.2	-	3	321	c.200C>A	c.(199-201)CCA>CAA	p.P67Q	MMP19_uc001sia.2_5'Flank|MMP19_uc001sid.2_Intron|MMP19_uc010spw.1_Missense_Mutation_p.P67Q	NM_002429	NP_002420	Q99542	MMP19_HUMAN	matrix metalloproteinase 19 isoform rasi-1	67					angiogenesis|cell differentiation|collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)	1						ACCTGAGACTGGAAGTTCAGA	0.512													8	82	---	---	---	---	PASS	T	56234994	T	T	56234994	3	4	95	1	0	0	0	0	1	0	0	0	9657	1348	47	3	1354	3	MMP19	12	56234994	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	1658875	56234994	77616901	133	35683										
KIF5A	3798	broad.mit.edu	37	chr12	57957931	57957931	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gctgatgggaatcattcctcGaattgcccgagacatcttca	9	11	3	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:57957931G>T	uc001sor.1	+	4	540	c.332G>T	c.(331-333)CGA>CTA	p.R111L	KIF5A_uc010srr.1_Intron	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	111	Kinesin-motor.				blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						ATCATTCCTCGAATTGCCCGA	0.527													9	123	---	---	---	---	PASS	T	57957931	T	T	57957931	3	4	95	1	0	0	0	0	1	0	0	0	8305	1058	37	2	346	2	KIF5A	12	57957931	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	1722937	57957931	75893964	134	35684										
FRS2	10818	broad.mit.edu	37	chr12	69968278	69968278	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aaatctaccatctttgcctcCtgtttgggaagcccgcaagc	8	13	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:69968278C>G	uc001suy.2	+	10	1580	c.1070C>G	c.(1069-1071)CCT>CGT	p.P357R	FRS2_uc001suz.2_Missense_Mutation_p.P357R|FRS2_uc009zrj.2_Missense_Mutation_p.P357R|FRS2_uc009zrk.2_Missense_Mutation_p.P357R	NM_006654	NP_006645	Q8WU20	FRS2_HUMAN	fibroblast growth factor receptor substrate 2	357					activation of MAPKK activity|activation of phospholipase C activity|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|transmembrane receptor protein tyrosine phosphatase signaling pathway	endomembrane system|endosome|integral to plasma membrane|membrane fraction	fibroblast growth factor receptor binding|insulin receptor binding|phosphatase activator activity|transmembrane receptor protein tyrosine kinase adaptor activity			prostate(1)|kidney(1)	2	Breast(13;2.15e-06)|Esophageal squamous(21;0.187)		Epithelial(6;2.94e-18)|Lung(24;9.68e-05)|OV - Ovarian serous cystadenocarcinoma(12;0.000984)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			TCTTTGCCTCCTGTTTGGGAA	0.418													19	154	---	---	---	---	PASS	G	69968278	G	G	69968278	3	3	95	1	0	0	0	0	1	0	0	0	6061	681	24	4	1088	4	FRS2	12	69968278	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	12010347	69968278	63883617	135	35685										
PTPRB	5787	broad.mit.edu	37	chr12	70963667	70963667	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gagtccagttcaccgtcaggCtatctgttgctccattggga	11	11	3	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:70963667C>T	uc001swb.3	-	12	2798	c.2768G>A	c.(2767-2769)AGC>AAC	p.S923N	PTPRB_uc010sto.1_Missense_Mutation_p.S923N|PTPRB_uc010stp.1_Missense_Mutation_p.S833N|PTPRB_uc001swc.3_Missense_Mutation_p.S1141N|PTPRB_uc001swa.3_Missense_Mutation_p.S1053N|PTPRB_uc001swd.3_Missense_Mutation_p.S1140N|PTPRB_uc009zrr.1_Missense_Mutation_p.S1020N	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	923	Fibronectin type-III 11.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CACCGTCAGGCTATCTGTTGC	0.428													11	49	---	---	---	---	PASS	T	70963667	T	T	70963667	3	4	95	1	0	0	0	0	1	0	0	0	12796	797	28	3	3309	3	PTPRB	12	70963667	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	995389	70963667	62888228	136	35686										
CEP290	80184	broad.mit.edu	37	chr12	88508920	88508920	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tgtcctactcctttctaaatCtctttctttttcaattagtt	2	10	4	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:88508920C>A	uc001tar.2	-	19	2208	c.1864G>T	c.(1864-1866)GAT>TAT	p.D622Y	CEP290_uc001tat.2_Missense_Mutation_p.D415Y|CEP290_uc009zsl.1_RNA	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	622	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						CTTTCTAAATCTCTTTCTTTT	0.249													5	33	---	---	---	---	PASS	A	88508920	A	A	88508920	3	1	95	1	0	0	0	0	1	0	0	0	3253	913	32	2	5719	2	CEP290	12	88508920	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	17545253	88508920	45342975	137	35687										
RPH3A	22895	broad.mit.edu	37	chr12	113312915	113312915	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gacgggccaactcagtccagGcctccagacctgccccaggc	11	18	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:113312915G>T	uc010syl.1	+	11	1185	c.823G>T	c.(823-825)GCC>TCC	p.A275S	RPH3A_uc001ttz.2_Missense_Mutation_p.A275S|RPH3A_uc001tty.2_Missense_Mutation_p.A271S|RPH3A_uc009zwe.1_Missense_Mutation_p.A271S|RPH3A_uc010sym.1_Missense_Mutation_p.A226S|RPH3A_uc001tua.2_Missense_Mutation_p.A35S	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	275	Pro-rich.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		CTCAGTCCAGGCCTCCAGACC	0.602													3	8	---	---	---	---	PASS	T	113312915	T	T	113312915	3	4	95	1	0	0	0	0	1	0	0	0	13551	1203	42	3	857	3	RPH3A	12	113312915	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	24803995	113312915	20538980	138	35688										
OGFOD2	79676	broad.mit.edu	37	chr12	123463863	123463863	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggcttcacccgagaggagccCgccacggtggatgtatgtgc	15	12	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:123463863C>T	uc001uea.1	+	7	1044	c.1023C>T	c.(1021-1023)CCC>CCT	p.P341P	OGFOD2_uc001uds.1_Silent_p.P177P|OGFOD2_uc001udt.1_Silent_p.P177P|OGFOD2_uc001udu.1_Silent_p.P177P|OGFOD2_uc001udv.1_Silent_p.P177P|OGFOD2_uc009zxs.1_Silent_p.P177P|OGFOD2_uc001udw.1_Silent_p.P177P|OGFOD2_uc001udx.1_Silent_p.P177P|OGFOD2_uc001udy.1_Silent_p.P177P|OGFOD2_uc001udz.1_Silent_p.P281P|OGFOD2_uc001ueb.1_Silent_p.P177P|ARL6IP4_uc001uec.2_5'Flank|ARL6IP4_uc001ued.2_5'Flank|ARL6IP4_uc001uee.2_5'Flank|ARL6IP4_uc001uef.2_5'Flank|ARL6IP4_uc001ueg.2_5'Flank|ARL6IP4_uc009zxt.2_5'Flank|ARL6IP4_uc001ueh.2_5'Flank|ARL6IP4_uc001uei.2_5'Flank	NM_024623	NP_078899	Q6N063	OGFD2_HUMAN	2-oxoglutarate and iron-dependent oxygenase	341							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			pancreas(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.11e-05)|Epithelial(86;0.000127)|BRCA - Breast invasive adenocarcinoma(302;0.107)	Vitamin C(DB00126)	GAGAGGAGCCCGCCACGGTGG	0.647													4	57	---	---	---	---	PASS	T	123463863	T	T	123463863	2	4	95	1	0	0	0	0	0	0	0	1	10842	639	23	1		1	OGFOD2	12	123463863	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	10150948	123463863	10388032	139	35689										
NCOR2	9612	broad.mit.edu	37	chr12	124840069	124840069	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tggagatggtgggtgggcgcGgcaggacgggccgggcagtg	24	7	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr12:124840069G>A	uc010tba.1	-	24	3431	c.3314C>T	c.(3313-3315)CCG>CTG	p.P1105L	NCOR2_uc010tay.1_Missense_Mutation_p.P1104L|NCOR2_uc010taz.1_Missense_Mutation_p.P1088L|NCOR2_uc010tbb.1_Missense_Mutation_p.P1097L|NCOR2_uc010tbc.1_Missense_Mutation_p.P1087L|NCOR2_uc001ugj.1_Missense_Mutation_p.P1105L	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1105					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GGGTGGGCGCGGCAGGACGGG	0.657													6	35	---	---	---	---	PASS	A	124840069	A	A	124840069	3	1	95	1	0	0	0	0	1	0	0	0	10236	1116	39	1	4350	1	NCOR2	12	124840069	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	1376206	124840069	9011826	140	35690										
TRPC4	7223	broad.mit.edu	37	chr13	38357198	38357198	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tctccaacatagacattaaaGcttaagagtagttcgatgag	8	7	1	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr13:38357198G>T	uc001uws.2	-	2	508	c.273C>A	c.(271-273)AGC>AGA	p.S91R	TRPC4_uc010abv.2_5'UTR|TRPC4_uc001uwt.2_Missense_Mutation_p.S91R|TRPC4_uc010tey.1_Missense_Mutation_p.S91R|TRPC4_uc010abw.2_Missense_Mutation_p.S91R|TRPC4_uc010abx.2_Missense_Mutation_p.S91R|TRPC4_uc010aby.2_Missense_Mutation_p.S91R	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	91	ANK 2.|Cytoplasmic (Potential).|Multimerization domain (By similarity).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		AGACATTAAAGCTTAAGAGTA	0.219													31	126	---	---	---	---	PASS	T	38357198	T	T	38357198	3	4	95	1	0	0	0	0	1	0	0	0	16577	962	34	3	2715	3	TRPC4	13	38357198	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08		38357198	76812680	141	35691										
GPC6	10082	broad.mit.edu	37	chr13	94197638	94197638	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aagagacaagccattttgtgCgcaccacttttgtgtccagg	10	10	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr13:94197638C>T	uc001vlt.2	+	2	915	c.283C>T	c.(283-285)CGC>TGC	p.R95C	GPC6_uc010tig.1_Missense_Mutation_p.R95C|GPC6_uc001vlu.1_Missense_Mutation_p.R25C	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	95						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				CCATTTTGTGCGCACCACTTT	0.398													43	178	---	---	---	---	PASS	T	94197638	T	T	94197638	3	4	95	1	0	0	0	0	1	0	0	0	6602	768	27	1	289	1	GPC6	13	94197638	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	55840440	94197638	20972240	142	35692										
ATP11A	23250	broad.mit.edu	37	chr13	113460563	113460563	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ccacaagtccagtgacaagcGgacttccactcttctttgtc	7	14	2	1	rs150693839		TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr13:113460563G>A	uc001vsi.3	+	4	377	c.289G>A	c.(289-291)GGA>AGA	p.G97R	ATP11A_uc001vsj.3_Missense_Mutation_p.G97R|ATP11A_uc001vsm.1_5'UTR	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	97	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				AGTGACAAGCGGACTTCCACT	0.398													64	161	---	---	---	---	PASS	A	113460563	A	A	113460563	3	1	95	1	0	0	0	0	1	0	0	0	1119	1117	39	1	303	1	ATP11A	13	113460563	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	19262925	113460563	1709315	143	35693										
DHRS4L2	317749	broad.mit.edu	37	chr14	24470661	24470661	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aataccctggccatagagctGgccccaaggaacattagggt	11	11	0	1	rs144732095		TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr14:24470661G>C	uc001wli.3	+	6	730	c.600G>C	c.(598-600)CTG>CTC	p.L200L	DHRS4_uc001wlc.3_Intron|DHRS4L2_uc001wld.3_Intron|DHRS4L2_uc001wle.3_Intron|DHRS4L2_uc001wlg.3_Intron|DHRS4L2_uc001wlh.3_Intron|DHRS4L2_uc010tnt.1_Silent_p.L123L|DHRS4L2_uc010alb.2_Silent_p.L74L	NM_198083	NP_932349	D5KJA1	D5KJA1_HUMAN	dehydrogenase/reductase (SDR family) member 4	138							binding|oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00962)		CCATAGAGCTGGCCCCAAGGA	0.502													18	287	---	---	---	---	PASS	C	24470661	C	C	24470661	2	2	95	1	0	0	0	0	0	0	0	1	4494	1335	47	4		4	DHRS4L2	14	24470661	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08		24470661	82878879	144	35694										
NYNRIN	57523	broad.mit.edu	37	chr14	24877097	24877097	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atacctgaagggcctgtgcaGcccagagctgtggaaagagg	15	9	0	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr14:24877097G>T	uc001wpf.3	+	3	539	c.221G>T	c.(220-222)AGC>ATC	p.S74I		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	74					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						GGCCTGTGCAGCCCAGAGCTG	0.617													30	129	---	---	---	---	PASS	T	24877097	T	T	24877097	3	4	95	1	0	0	0	0	1	0	0	0	10796	971	34	3	227	3	NYNRIN	14	24877097	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	406436	24877097	82472443	145	35695										
SSTR1	6751	broad.mit.edu	37	chr14	38679133	38679133	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggccaaggtagtaaacctggGcgtgtgggtgctatcgctgc	16	9	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr14:38679133G>T	uc001wul.1	+	3	1156	c.539G>T	c.(538-540)GGC>GTC	p.G180V	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	180	Helical; Name=4; (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	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;0.00444)	Octreotide(DB00104)	GTAAACCTGGGCGTGTGGGTG	0.647													28	74	---	---	---	---	PASS	T	38679133	T	T	38679133	3	4	95	1	0	0	0	0	1	0	0	0	15196	1203	42	3	541	3	SSTR1	14	38679133	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	13802036	38679133	68670407	146	35696										
GPHN	10243	broad.mit.edu	37	chr14	67555743	67555743	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	caagatgtatatgcaaaagaCaatttaccccccttcccagc	5	13	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr14:67555743C>T	uc001xiy.2	+	11	2210	c.1089C>T	c.(1087-1089)GAC>GAT	p.D363D	GPHN_uc001xix.2_Silent_p.D396D|GPHN_uc010tss.1_Silent_p.D409D|GPHN_uc010tst.1_Silent_p.D332D|GPHN_uc010tsu.1_Silent_p.D286D	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	363	MPT adenylyltransferase.				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		ATGCAAAAGACAATTTACCCC	0.388			T	MLL	AL								20	64	---	---	---	---	PASS	T	67555743	T	T	67555743	2	4	95	1	0	0	0	0	0	0	0	1	6610	477	17	3		3	GPHN	14	67555743	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	28876610	67555743	39793797	147	35697										
RPS6KA5	9252	broad.mit.edu	37	chr14	91369242	91369242	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tctgcaaagttactcacatcTaattcatctcgaatgactgg	6	10	5	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr14:91369242T>G	uc001xys.2	-	9	1244	c.1029A>C	c.(1027-1029)TTA>TTC	p.L343F	RPS6KA5_uc010twi.1_Missense_Mutation_p.L264F|RPS6KA5_uc001xyt.2_Missense_Mutation_p.L343F|RPS6KA5_uc010att.1_RNA	NM_004755	NP_004746	O75582	KS6A5_HUMAN	ribosomal protein S6 kinase, polypeptide 5	343	AGC-kinase C-terminal.				axon guidance|epidermal growth factor receptor signaling pathway|histone phosphorylation|innate immune response|interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter|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	cytoplasm|nucleoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1		all_cancers(154;0.0148)|Melanoma(154;0.099)|all_epithelial(191;0.146)		Epithelial(152;0.182)|BRCA - Breast invasive adenocarcinoma(234;0.201)		TACTCACATCTAATTCATCTC	0.418													33	120	---	---	---	---	PASS	G	91369242	G	G	91369242	3	3	95	1	0	0	0	0	1	0	0	0	13654	1519	53	5	1421	5	RPS6KA5	14	91369242	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	23813499	91369242	15980298	148	35698										
TRIP11	9321	broad.mit.edu	37	chr14	92480787	92480787	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ttctgcagaagataatttttTatttatatcttttattttat	3	3	2	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr14:92480787T>C	uc001xzy.2	-	7	1746	c.958A>G	c.(958-960)AAA>GAA	p.K320E	TRIP11_uc010auf.1_Missense_Mutation_p.K85E	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	320	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		Gataattttttatttatatct	0.279			T	PDGFRB	AML								5	90	---	---	---	---	PASS	C	92480787	C	C	92480787	3	2	95	1	0	0	0	0	1	0	0	0	16552	1763	61	5	5041	5	TRIP11	14	92480787	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	1111545	92480787	14868753	149	35699										
OR4N4	283694	broad.mit.edu	37	chr15	22383115	22383115	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tcctgtgctttctggggcttCtggcttcctatgcagtcatc	10	12	3	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr15:22383115C>T	uc001yuc.1	+	7	1624	c.643C>T	c.(643-645)CTG>TTG	p.L215L	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Silent_p.L215L	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TCTGGGGCTTCTGGCTTCCTA	0.517													14	119	---	---	---	---	PASS	T	22383115	T	T	22383115	2	4	95	1	0	0	0	0	0	0	0	1	11078	912	32	2		2	OR4N4	15	22383115	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08		22383115	80148277	150	35700										
SPTBN5	51332	broad.mit.edu	37	chr15	42158429	42158429	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ccaggagagcctctcccttcTggagggagagaggggacaca	15	11	2	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr15:42158429T>A	uc001zos.2	-	38	6859	c.6526_splice	c.e38-1	p.K2176_splice		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5						actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		CTCTCCCTTCTGGAGGGAGAG	0.647													6	18	---	---	---	---	PASS	A	42158429	A	A	42158429	5	1	95	1	0	0	0	0	0	0	1	0	15121	1594	55	5	4519	5	SPTBN5	15	42158429	Splice_Site	SNP	T	TCGA-39-5039-01A-01D-1441-08	19775314	42158429	60372963	151	35701										
UNC13C	440279	broad.mit.edu	37	chr15	54799355	54799355	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ccagtatgctgcaattgtatCaagtgatttcagttcacatt	7	8	3	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr15:54799355C>G	uc002ack.2	+	21	5342	c.5342C>G	c.(5341-5343)TCA>TGA	p.S1781*		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1781					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GCAATTGTATCAAGTGATTTC	0.323													3	26	---	---	---	---	PASS	G	54799355	G	G	54799355	4	3	95	1	0	0	0	0	0	1	0	0	16983	838	29	2	5424	2	UNC13C	15	54799355	Nonsense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	12640926	54799355	47732037	152	35702										
BNC1	646	broad.mit.edu	37	chr15	83935686	83935686	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	caacacactgaagagccggtCcagtaggatttttaggcgaa	11	9	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr15:83935686C>A	uc002bjt.1	-	3	425	c.337G>T	c.(337-339)GAC>TAC	p.D113Y	BNC1_uc010uos.1_Missense_Mutation_p.D101Y	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	113					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						AAGAGCCGGTCCAGTAGGATT	0.502													18	129	---	---	---	---	PASS	A	83935686	A	A	83935686	3	1	95	1	0	0	0	0	1	0	0	0	1474	855	30	2	2659	2	BNC1	15	83935686	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	29136331	83935686	18595706	153	35703										
LONP2	83752	broad.mit.edu	37	chr16	48295410	48295410	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atgaagatgaagatgaagatAatgatgacattgtcatgcta	10	3	1	8			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr16:48295410A>T	uc002efi.1	+	5	888	c.799A>T	c.(799-801)AAT>TAT	p.N267Y	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Missense_Mutation_p.N223Y	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	267					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						AGATGAAGATAATGATGACAT	0.338													37	217	---	---	---	---	PASS	T	48295410	T	T	48295410	3	4	95	1	0	0	0	0	1	0	0	0	8893	362	13	5	817	5	LONP2	16	48295410	Missense_Mutation	SNP	A	TCGA-39-5039-01A-01D-1441-08		48295410	42059343	154	35704										
CDH11	1009	broad.mit.edu	37	chr16	65016007	65016007	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tgcactctcccaaccacggtGccagcagctgcattttcttg	8	15	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr16:65016007G>A	uc002eoi.2	-	8	1631	c.1197C>T	c.(1195-1197)GGC>GGT	p.G399G	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Silent_p.G399G|CDH11_uc010vin.1_Silent_p.G273G|CDH11_uc002eok.1_RNA	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	399	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		CAACCACGGTGCCAGCAGCTG	0.493			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			28	192	---	---	---	---	PASS	A	65016007	A	A	65016007	2	1	95	1	0	0	0	0	0	0	0	1	3097	1306	46	3		3	CDH11	16	65016007	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	16720597	65016007	25338746	155	35705										
ADAMTS18	170692	broad.mit.edu	37	chr16	77355045	77355045	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tgaattatcacctttgcaaaCgccacaagcatctgaaactg	6	11	2	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr16:77355045C>A	uc002ffc.3	-	15	2637	c.2218G>T	c.(2218-2220)GTT>TTT	p.V740F	ADAMTS18_uc010chc.1_Missense_Mutation_p.V328F|ADAMTS18_uc002ffe.1_Missense_Mutation_p.V436F	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	740	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						CCTTTGCAAACGCCACAAGCA	0.383													23	182	---	---	---	---	PASS	A	77355045	A	A	77355045	3	1	95	1	0	0	0	0	1	0	0	0	263	536	19	1	1483	1	ADAMTS18	16	77355045	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	12339038	77355045	12999708	156	35706										
ADAMTS18	170692	broad.mit.edu	37	chr16	77375655	77375655	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggcataaacttggtctcacaCctgtggcctactcggtggca	11	12	1	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr16:77375655C>G	uc002ffc.3	-	11	2075	c.1656G>C	c.(1654-1656)AGG>AGC	p.R552S	ADAMTS18_uc010chc.1_Missense_Mutation_p.R140S|ADAMTS18_uc002ffe.1_Missense_Mutation_p.R248S	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	552	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TGGTCTCACACCTGTGGCCTA	0.398													8	73	---	---	---	---	PASS	G	77375655	G	G	77375655	3	3	95	1	0	0	0	0	1	0	0	0	263	506	18	4	2061	4	ADAMTS18	16	77375655	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	20610	77375655	12979098	157	35707										
DNAH9	1770	broad.mit.edu	37	chr17	11648345	11648345	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	accccaacttcgaagctttgGttaggaaggcgatagtggat	12	8	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr17:11648345G>T	uc002gne.2	+	31	6411	c.6343G>T	c.(6343-6345)GTT>TTT	p.V2115F	DNAH9_uc010coo.2_Missense_Mutation_p.V1409F	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2115	AAA 2 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CGAAGCTTTGGTTAGGAAGGC	0.517													15	81	---	---	---	---	PASS	T	11648345	T	T	11648345	3	4	95	1	0	0	0	0	1	0	0	0	4608	1261	44	3	6465	3	DNAH9	17	11648345	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08		11648345	69546865	158	35708										
TRIM16L	147166	broad.mit.edu	37	chr17	18634465	18634465	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggataaactctcgggcatccGcaaagttatcacggaatcca	9	11	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr17:18634465G>A	uc002gug.1	+	8	971	c.284G>A	c.(283-285)CGC>CAC	p.R95H	TRIM16L_uc010vyf.1_Missense_Mutation_p.R149H|TRIM16L_uc002guh.1_Missense_Mutation_p.R95H|TRIM16L_uc010cqg.1_Missense_Mutation_p.R197H|TRIM16L_uc002gui.1_Missense_Mutation_p.R95H|TRIM16L_uc010vyg.1_Missense_Mutation_p.R95H|TRIM16L_uc010vyh.1_Intron	NM_001037330	NP_001032407	Q309B1	TR16L_HUMAN	tripartite motif-containing 16-like	95						cytoplasm					0						TCGGGCATCCGCAAAGTTATC	0.443													4	125	---	---	---	---	PASS	A	18634465	A	A	18634465	3	1	95	1	0	0	0	0	1	0	0	0	16489	1087	38	1	290	1	TRIM16L	17	18634465	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	6986120	18634465	62560745	159	35709										
HOXB7	3217	broad.mit.edu	37	chr17	46685369	46685369	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atctcgatgcgccgccgccgCgtcaggtagcgattgtagtg	14	12	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr17:46685369C>A	uc002inv.2	-	2	592	c.489G>T	c.(487-489)ACG>ACT	p.T163T		NM_004502	NP_004493	P09629	HXB7_HUMAN	homeobox B7	163	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GCCGCCGCCGCGTCAGGTAGC	0.557													15	149	---	---	---	---	PASS	A	46685369	A	A	46685369	2	1	95	1	0	0	0	0	0	0	0	1	7306	755	27	1		1	HOXB7	17	46685369	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	28050904	46685369	34509841	160	35710										
HOXB7	3217	broad.mit.edu	37	chr17	46685422	46685422	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cagctccagggtctggtagcGggtgtaggtctggcggcctc	17	11	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr17:46685422G>A	uc002inv.2	-	2	539	c.436C>T	c.(436-438)CGC>TGC	p.R146C		NM_004502	NP_004493	P09629	HXB7_HUMAN	homeobox B7	146	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GTCTGGTAGCGGGTGTAGGTC	0.507													9	109	---	---	---	---	PASS	A	46685422	A	A	46685422	3	1	95	1	0	0	0	0	1	0	0	0	7306	1116	39	1	221	1	HOXB7	17	46685422	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	53	46685422	34509788	161	35711										
GH1	2688	broad.mit.edu	37	chr17	61995185	61995185	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atagacgttgctgtcagaggCgccgtacaccaggctgttgg	14	10	1	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr17:61995185C>T	uc002jdj.2	-	4	453	c.391G>A	c.(391-393)GCC>ACC	p.A131T	GH1_uc002jdi.2_Missense_Mutation_p.A116T|GH1_uc002jdk.2_Missense_Mutation_p.A91T|GH1_uc002jdl.2_Intron|GH1_uc002jdm.2_Intron|GH1_uc002jdn.2_Intron	NM_000515	NP_000506	P01241	SOMA_HUMAN	growth hormone 1 isoform 1	131					glucose transport|growth hormone receptor signaling pathway|JAK-STAT cascade|positive regulation of activation of JAK2 kinase activity|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of MAP kinase activity|positive regulation of multicellular organism growth|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|response to estradiol stimulus	extracellular space	growth factor activity|growth hormone receptor binding|hormone activity|metal ion binding|prolactin receptor binding				0						CTGTCAGAGGCGCCGTACACC	0.612													21	106	---	---	---	---	PASS	T	61995185	T	T	61995185	3	4	95	1	0	0	0	0	1	0	0	0	6367	768	27	1	270	1	GH1	17	61995185	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	15309763	61995185	19200025	162	35712										
SLC39A11	201266	broad.mit.edu	37	chr17	71027694	71027694	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	taaaagtagagtggtactcaCcaagtgaggcatcaggaggt	13	6	2	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr17:71027694C>A	uc002jjb.2	-	4	421	c.306_splice	c.e4+1	p.L102_splice	SLC39A11_uc002jja.2_Splice_Site_p.L102_splice|SLC39A11_uc002jjc.1_Splice_Site_p.L102_splice	NM_001159770	NP_001153242	Q8N1S5	S39AB_HUMAN	solute carrier family 39, member 11 isoform 1						zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)	1						GTGGTACTCACCAAGTGAGGC	0.493													6	74	---	---	---	---	PASS	A	71027694	A	A	71027694	5	1	95	1	0	0	0	0	0	0	1	0	14614	521	18	3	749	3	SLC39A11	17	71027694	Splice_Site	SNP	C	TCGA-39-5039-01A-01D-1441-08	9032509	71027694	10167516	163	35713										
ASPSCR1	79058	broad.mit.edu	37	chr17	79974718	79974718	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gctggagcatgccatctcccCatctgcggccgatgtgctgg	13	14	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr17:79974718C>T	uc002kcx.2	+	14	1545	c.1448C>T	c.(1447-1449)CCA>CTA	p.P483L	ASPSCR1_uc002kcw.1_Missense_Mutation_p.P483L|ASPSCR1_uc002kcy.2_Missense_Mutation_p.P577L|ASPSCR1_uc002kcz.2_Missense_Mutation_p.P377L|ASPSCR1_uc002kda.2_Missense_Mutation_p.P431L	NM_024083	NP_076988	Q9BZE9	ASPC1_HUMAN	alveolar soft part sarcoma chromosome region,	483							protein binding		ASPSCR1/TFE3(161)	soft_tissue(118)|kidney(43)|breast(1)	162	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			GCCATCTCCCCATCTGCGGCC	0.662			T	TFE3	alveolar soft part sarcoma								4	38	---	---	---	---	PASS	T	79974718	T	T	79974718	3	4	95	1	0	0	0	0	1	0	0	0	1059	594	21	3	1502	3	ASPSCR1	17	79974718	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	8947024	79974718	1220492	164	35714										
ATP8B1	5205	broad.mit.edu	37	chr18	55355660	55355660	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tgtggtggttctagcttttgCgggtgtgtccttctcagcat	13	8	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr18:55355660C>A	uc002lgw.2	-	12	1300	c.1300G>T	c.(1300-1302)GCA>TCA	p.A434S	uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	434	Cytoplasmic (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				CTAGCTTTTGCGGGTGTGTCC	0.443									Byler_disease				40	187	---	---	---	---	PASS	A	55355660	A	A	55355660	3	1	95	1	0	0	0	0	1	0	0	0	1194	768	27	1	2519	1	ATP8B1	18	55355660	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08		55355660	22721588	165	35715										
EMR1	2015	broad.mit.edu	37	chr19	6897289	6897289	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tggaaatgactgggtcccagGaaagccgggcaatttctcct	12	10	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:6897289G>T	uc002mfw.2	+	4	406	c.368G>T	c.(367-369)GGA>GTA	p.G123V	EMR1_uc010dvc.2_Missense_Mutation_p.G123V|EMR1_uc010dvb.2_Intron|EMR1_uc010xji.1_Intron|EMR1_uc010xjj.1_Missense_Mutation_p.G123V	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	123	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					TGGGTCCCAGGAAAGCCGGGC	0.498													25	81	---	---	---	---	PASS	T	6897289	T	T	6897289	3	4	95	1	0	0	0	0	1	0	0	0	5104	1174	41	2	382	2	EMR1	19	6897289	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08		6897289	52231694	166	35716										
LRRC8E	80131	broad.mit.edu	37	chr19	7965541	7965541	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ccctctcctacaatgccctgGaggccctgcccgaagagctc	9	18	1	1	rs149479952		TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:7965541G>T	uc002mir.2	+	3	2235	c.2134G>T	c.(2134-2136)GAG>TAG	p.E712*		NM_025061	NP_079337	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member	712	LRR 9.					integral to membrane				lung(1)|pancreas(1)	2						CAATGCCCTGGAGGCCCTGCC	0.647													4	121	---	---	---	---	PASS	T	7965541	T	T	7965541	4	4	95	1	0	0	0	0	0	1	0	0	9025	1175	41	2	2140	2	LRRC8E	19	7965541	Nonsense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	1068252	7965541	51163442	167	35717										
HNRNPM	4670	broad.mit.edu	37	chr19	8550883	8550883	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	catgggccctgccatcgagcGcatgggcctgagcatggagc	15	13	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:8550883G>A	uc010dwe.2	+	14	1651	c.1571G>A	c.(1570-1572)CGC>CAC	p.R524H	HNRNPM_uc010xke.1_Missense_Mutation_p.R470H|HNRNPM_uc010dwd.2_Missense_Mutation_p.R485H|HNRNPM_uc002mka.2_Missense_Mutation_p.R389H|HNRNPM_uc002mkb.1_5'Flank	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	524	17.|27 X 6 AA repeats of [GEVSTPAN]-[ILMV]- [DE]-[RH]-[MLVI]-[GAV].				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						GCCATCGAGCGCATGGGCCTG	0.697													4	95	---	---	---	---	PASS	A	8550883	A	A	8550883	3	1	95	1	0	0	0	0	1	0	0	0	7271	1087	38	1	1625	1	HNRNPM	19	8550883	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	585342	8550883	50578100	168	35718										
MUC16	94025	broad.mit.edu	37	chr19	9063188	9063188	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atggtggaggtaataaccatTggagatgtgactttggatgt	14	3	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:9063188T>A	uc002mkp.2	-	3	24462	c.24258A>T	c.(24256-24258)CCA>CCT	p.P8086P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8088	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TAATAACCATTGGAGATGTGA	0.473													20	93	---	---	---	---	PASS	A	9063188	A	A	9063188	2	1	95	1	0	0	0	0	0	0	0	1	9973	1799	63	5		5	MUC16	19	9063188	Silent	SNP	T	TCGA-39-5039-01A-01D-1441-08	512305	9063188	50065795	169	35719										
DDA1	79016	broad.mit.edu	37	chr19	17426741	17426741	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tttctctatctttcctccttAgtcatcgtgacagaaaagac	5	11	3	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:17426741A>T	uc002ngd.2	+	4	264	c.137_splice	c.e4-2	p.I46_splice	DDA1_uc002nge.2_Splice_Site	NM_024050	NP_076955	Q9BW61	DDA1_HUMAN	DET1 and DDB1 associated 1											ovary(1)	1						TTTCCTCCTTAGTCATCGTGA	0.527													109	474	---	---	---	---	PASS	T	17426741	T	T	17426741	5	4	95	1	0	0	0	0	0	0	1	0	4320	434	15	5	149	5	DDA1	19	17426741	Splice_Site	SNP	A	TCGA-39-5039-01A-01D-1441-08	8363553	17426741	41702242	170	35720										
KIAA1683	80726	broad.mit.edu	37	chr19	18377695	18377695	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ctgcacacagggctctggggTaccctgagctgctgggggct	16	12	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:18377695T>C	uc002nin.2	-	3	871	c.655A>G	c.(655-657)ACC>GCC	p.T219A	KIAA1683_uc010ebn.2_Missense_Mutation_p.T219A|KIAA1683_uc010xqe.1_Missense_Mutation_p.T173A	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	219						mitochondrion				ovary(2)	2						GGCTCTGGGGTACCCTGAGCT	0.627													22	48	---	---	---	---	PASS	C	18377695	C	C	18377695	3	2	95	1	0	0	0	0	1	0	0	0	8251	1638	57	5	3456	5	KIAA1683	19	18377695	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	950954	18377695	40751288	171	35721										
ZNF208	7757	broad.mit.edu	37	chr19	22155926	22155926	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tgccacattctttacatttgTagggcttctctccagcatga	7	11	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:22155926T>C	uc002nqp.2	-	5	1759	c.1610A>G	c.(1609-1611)TAC>TGC	p.Y537C	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTTACATTTGTAGGGCTTCTC	0.398													24	115	---	---	---	---	PASS	C	22155926	C	C	22155926	3	2	95	1	0	0	0	0	1	0	0	0	17763	1638	57	5	1936	5	ZNF208	19	22155926	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	3778231	22155926	36973057	172	35722										
GRAMD1A	57655	broad.mit.edu	37	chr19	35505200	35505200	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	acagagcccacccagcctgaCgggcccaccaccctgggccc	10	21	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:35505200C>T	uc010xse.1	+	10	1115	c.978C>T	c.(976-978)GAC>GAT	p.D326D	GRAMD1A_uc002nxi.1_Silent_p.D413D|GRAMD1A_uc002nxk.2_Silent_p.D319D|GRAMD1A_uc002nxl.2_Silent_p.D92D|GRAMD1A_uc010xsf.1_Silent_p.D331D|GRAMD1A_uc002nxm.1_RNA|GRAMD1A_uc002nxn.1_5'Flank	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	326						integral to membrane					0	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			CCCAGCCTGACGGGCCCACCA	0.632													8	192	---	---	---	---	PASS	T	35505200	T	T	35505200	2	4	95	1	0	0	0	0	0	0	0	1	6747	535	19	1		1	GRAMD1A	19	35505200	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	13349274	35505200	23623783	173	35723										
AKT2	208	broad.mit.edu	37	chr19	40761067	40761067	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	acagaggcccagactgacctCtcgtctggagaatccacgtg	11	13	2	4			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:40761067C>T	uc002onf.2	-	4	547	c.285G>A	c.(283-285)GAG>GAA	p.E95E	AKT2_uc010egs.2_Silent_p.E95E|AKT2_uc010egt.2_Silent_p.E33E|AKT2_uc010xvj.1_Silent_p.E33E|AKT2_uc010egu.1_Silent_p.E33E|AKT2_uc010xvk.1_Silent_p.E95E	NM_001626	NP_001617	P31751	AKT2_HUMAN	AKT2 kinase	95	PH.				insulin receptor signaling pathway|negative regulation of plasma membrane long-chain fatty acid transport|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2			Lung(22;0.000499)			AGACTGACCTCTCGTCTGGAG	0.567			A		ovarian|pancreatic 								9	141	---	---	---	---	PASS	T	40761067	T	T	40761067	2	4	95	1	0	0	0	0	0	0	0	1	480	912	32	2		2	AKT2	19	40761067	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	5255867	40761067	18367916	174	35724										
SYMPK	8189	broad.mit.edu	37	chr19	46357737	46357737	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tccgacgggtgacgctgtctCcactgccgctcgccatggct	12	16	1	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:46357737C>T	uc002pdn.2	-	2	262	c.17G>A	c.(16-18)GGA>GAA	p.G6E	SYMPK_uc002pdo.1_Missense_Mutation_p.G6E|SYMPK_uc002pdp.1_Missense_Mutation_p.G6E|SYMPK_uc002pdq.1_Missense_Mutation_p.G6E	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	6	Interaction with HSF1.				cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		GACGCTGTCTCCACTGCCGCT	0.617													6	66	---	---	---	---	PASS	T	46357737	T	T	46357737	3	4	95	1	0	0	0	0	1	0	0	0	15436	855	30	2	3911	2	SYMPK	19	46357737	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	5596670	46357737	12771246	175	35725										
CEACAM18	729767	broad.mit.edu	37	chr19	51981926	51981926	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tccagacccagatggagcctGtggaggagggtcttcctcat	13	11	2	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:51981926G>T	uc002pwv.1	+	2	213	c.213G>T	c.(211-213)CTG>CTT	p.L71L		NM_001080405	NP_001073874	A8MTB9	CEA18_HUMAN	carcinoembryonic antigen-related cell adhesion	71						integral to membrane				skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		GATGGAGCCTGTGGAGGAGGG	0.627													5	55	---	---	---	---	PASS	T	51981926	T	T	51981926	2	4	95	1	0	0	0	0	0	0	0	1	3189	1364	48	3		3	CEACAM18	19	51981926	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	5624189	51981926	7147057	176	35726										
LILRB3	11025	broad.mit.edu	37	chr19	54724576	54724576	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	cgcagtgggggatgggctgcCccttctttggtcagaaggaa	16	9	2	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:54724576C>T	uc002qef.1	-	6	1191	c.1080G>A	c.(1078-1080)GGG>GGA	p.G360G	LILRB3_uc002qee.1_Silent_p.G360G|LILRB3_uc002qeh.1_Silent_p.G360G|LILRB3_uc002qeg.1_RNA|LILRB3_uc002qei.1_Silent_p.G360G|LILRA6_uc002qek.1_Intron|LILRB3_uc010erh.1_Silent_p.G360G|LILRB3_uc002qej.1_RNA|LILRA6_uc002qel.1_Intron|LILRA6_uc002qem.1_Intron|LILRB3_uc002qen.1_Intron|LILRB3_uc002qeo.1_Silent_p.G360G|LILRB3_uc002qep.1_Silent_p.G360G|LILRB3_uc002qeq.1_Silent_p.G360G|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Silent_p.G360G|LILRA6_uc010yep.1_Intron|LILRA6_uc010yeq.1_Intron	NM_006864	NP_006855	O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor,	360	Extracellular (Potential).|Ig-like C2-type 4.				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	transmembrane receptor activity			skin(2)|ovary(1)	3	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GATGGGCTGCCCCTTCTTTGG	0.582													13	52	---	---	---	---	PASS	T	54724576	T	T	54724576	2	4	95	1	0	0	0	0	0	0	0	1	8792	610	22	3		3	LILRB3	19	54724576	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	2742650	54724576	4404407	177	35727										
KIR2DL3	3804	broad.mit.edu	37	chr19	55263135	55263135	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ctgcatgttctgattgggacCtcagtggtcatcatcctctt	9	11	5	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:55263135C>G	uc002qgv.2	+	6	768	c.750C>G	c.(748-750)ACC>ACG	p.T250T	KIR2DL3_uc002qgx.2_Silent_p.T250T|KIR2DL3_uc002qgy.2_Silent_p.T152T|KIR2DL3_uc010erw.1_Silent_p.T250T|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_Intron	NM_015868	NP_056952	P43628	KI2L3_HUMAN	killer cell immunoglobulin-like receptor, two	250	Helical; (Potential).				immune response|regulation of immune response	integral to plasma membrane	antigen binding|protein binding|receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		TGATTGGGACCTCAGTGGtca	0.378													6	204	---	---	---	---	PASS	G	55263135	G	G	55263135	2	3	95	1	0	0	0	0	0	0	0	1	8317	668	24	4		4	KIR2DL3	19	55263135	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	538559	55263135	3865848	178	35728										
ZNF211	10520	broad.mit.edu	37	chr19	58152510	58152510	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aaataacagtaacaagtgtgCggtggccttttacagtggaa	11	6	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr19:58152510C>T	uc002qpq.2	+	3	836	c.656C>T	c.(655-657)GCG>GTG	p.A219V	ZNF211_uc010yhb.1_Missense_Mutation_p.A223V|ZNF211_uc002qpp.2_Missense_Mutation_p.A232V|ZNF211_uc002qpr.2_Missense_Mutation_p.A283V|ZNF211_uc002qps.2_Missense_Mutation_p.A284V|ZNF211_uc002qpt.2_Missense_Mutation_p.A231V|ZNF211_uc010yhc.1_Missense_Mutation_p.A231V|ZNF211_uc010yhd.1_Missense_Mutation_p.A158V|ZNF211_uc010yhe.1_Missense_Mutation_p.A210V	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	219						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AACAAGTGTGCGGTGGCCTTT	0.473													22	101	---	---	---	---	PASS	T	58152510	T	T	58152510	3	4	95	1	0	0	0	0	1	0	0	0	17764	768	27	1	709	1	ZNF211	19	58152510	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	2889375	58152510	976473	179	35729										
PROKR2	128674	broad.mit.edu	37	chr20	5294767	5294767	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	agattggtgaggttgcgcaaCttcttatagcgggtgagggc	16	6	1	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr20:5294767C>A	uc010zqw.1	-	1	249	c.249G>T	c.(247-249)AAG>AAT	p.K83N	PROKR2_uc010zqx.1_Missense_Mutation_p.K83N|PROKR2_uc010zqy.1_Missense_Mutation_p.K83N|uc002wly.1_5'Flank	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	83	Cytoplasmic (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GGTTGCGCAACTTCTTATAGC	0.547										HNSCC(71;0.22)			25	89	---	---	---	---	PASS	A	5294767	A	A	5294767	3	1	95	1	0	0	0	0	1	0	0	0	12553	564	20	3	912	3	PROKR2	20	5294767	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08		5294767	57730753	180	35730										
TM9SF4	9777	broad.mit.edu	37	chr20	30747829	30747829	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tcagttctattacctctttgGcttcctgttccttgttttca	5	11	4	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr20:30747829G>T	uc002wxj.2	+	16	1839	c.1604G>T	c.(1603-1605)GGC>GTC	p.G535V	TM9SF4_uc010zts.1_Missense_Mutation_p.G442V|TM9SF4_uc002wxk.2_Missense_Mutation_p.G518V|TM9SF4_uc010gdz.2_Missense_Mutation_p.G414V	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	535						integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			TACCTCTTTGGCTTCCTGTTC	0.532													23	78	---	---	---	---	PASS	T	30747829	T	T	30747829	3	4	95	1	0	0	0	0	1	0	0	0	15977	1203	42	3	1666	3	TM9SF4	20	30747829	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	25453062	30747829	32277691	181	35731										
TP53TG5	27296	broad.mit.edu	37	chr20	44004180	44004180	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ttttgttttgttttattgcaGgcactgttttccctggcagg	10	7	0	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr20:44004180G>A	uc002xny.2	-	4	348	c.267C>T	c.(265-267)GCC>GCT	p.A89A	SYS1_uc002xnw.1_3'UTR|SYS1-DBNDD2_uc002xnx.2_Intron	NM_014477	NP_055292	Q9Y2B4	T53G5_HUMAN	TP53-target gene 5 protein	89					intracellular signal transduction|negative regulation of cell growth	cytoplasm|nucleus				central_nervous_system(1)	1						TTTTATTGCAGGCACTGTTTT	0.522													22	206	---	---	---	---	PASS	A	44004180	A	A	44004180	2	1	95	1	0	0	0	0	0	0	0	1	16388	987	35	3		3	TP53TG5	20	44004180	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	13256351	44004180	19021340	182	35732										
ZFP64	55734	broad.mit.edu	37	chr20	50769440	50769440	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ctcccgcatgaaggaggcatCgcatatatcgcagtggaaac	11	11	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr20:50769440C>T	uc002xwl.2	-	6	1640	c.1291G>A	c.(1291-1293)GAT>AAT	p.D431N	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.D429N|ZFP64_uc002xwn.2_Missense_Mutation_p.D377N	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	431	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						AAGGAGGCATCGCATATATCG	0.562													7	61	---	---	---	---	PASS	T	50769440	T	T	50769440	3	4	95	1	0	0	0	0	1	0	0	0	17649	884	31	2	1949	2	ZFP64	20	50769440	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	6765260	50769440	12256080	183	35733										
TMPRSS15	5651	broad.mit.edu	37	chr21	19770581	19770581	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tttgtcttgcaaattaggatTatatgtaactccggatgtta	8	5	1	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr21:19770581T>A	uc002ykw.2	-	2	242	c.211A>T	c.(211-213)AAT>TAT	p.N71Y		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	71	Extracellular (Potential).|SEA.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						AAATTAGGATTATATGTAACT	0.358													25	94	---	---	---	---	PASS	A	19770581	A	A	19770581	3	1	95	1	0	0	0	0	1	0	0	0	16243	1754	61	5	2944	5	TMPRSS15	21	19770581	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08		19770581	28359314	184	35734										
CECR2	27443	broad.mit.edu	37	chr22	18028975	18028975	+	Nonsense_Mutation	SNP	C	A	A													0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ttcaggaatgggatttggttCatctgcatttccaccccaca							TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr22:18028975C>A	uc010gqw.1	+	16	4058	c.3932C>A	c.(3931-3933)TCA>TAA	p.S1311*	CECR2_uc010gqv.1_Nonsense_Mutation_p.S1169*|CECR2_uc002zml.2_Nonsense_Mutation_p.S1170*|CECR2_uc002zmo.2_RNA	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	1353					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		GGATTTGGTTCATCTGCATTT	0.572													57	122	---	---	---	---	PASS	A	18028975	A	A	18028975	4	1	95	1	0	0	0	0	0	1	0	0	3206	838	29	2	3996	2	CECR2	22	18028975	Nonsense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08		18028975	33275591	185	35735	673	2								
CECR2	27443	broad.mit.edu	37	chr22	18028976	18028976	+	Silent	SNP	A	T	T													0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tcaggaatgggatttggttcAtctgcatttccaccccacag							TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr22:18028976A>T	uc010gqw.1	+	16	4059	c.3933A>T	c.(3931-3933)TCA>TCT	p.S1311S	CECR2_uc010gqv.1_Silent_p.S1169S|CECR2_uc002zml.2_Silent_p.S1170S|CECR2_uc002zmo.2_RNA	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	1353					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		GATTTGGTTCATCTGCATTTC	0.572													57	121	---	---	---	---	PASS	T	18028976	T	T	18028976	2	4	95	1	0	0	0	0	0	0	0	1	3206	204	8	5		5	CECR2	22	18028976	Silent	SNP	A	TCGA-39-5039-01A-01D-1441-08	1	18028976	33275590	186	35736	673	2								
SH3BP1	23616	broad.mit.edu	37	chr22	38043285	38043285	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ctccttcaggtgccctcaagTcctatctgcgggagctgcca	10	15	3	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr22:38043285T>C	uc003ati.2	+	12	1159	c.1048T>C	c.(1048-1050)TCC>CCC	p.S350P	SH3BP1_uc003atg.1_RNA|SH3BP1_uc011anl.1_Missense_Mutation_p.S350P|SH3BP1_uc003ath.1_Missense_Mutation_p.S350P|SH3BP1_uc003atj.1_Missense_Mutation_p.S286P|SH3BP1_uc003atk.1_Missense_Mutation_p.S264P|uc003atl.1_Intron	NM_018957	NP_061830	Q9Y3L3	3BP1_HUMAN	SH3-domain binding protein 1	350	Rho-GAP.				signal transduction	cytoplasm	GTPase activator activity|SH3 domain binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					TGCCCTCAAGTCCTATCTGCG	0.622													17	235	---	---	---	---	PASS	C	38043285	C	C	38043285	3	2	95	1	0	0	0	0	1	0	0	0	14244	1667	58	5	1094	5	SH3BP1	22	38043285	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	20014309	38043285	13261281	187	35737										
MKL1	57591	broad.mit.edu	37	chr22	40814895	40814895	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tgtcgcgcccctctagctccGcccgccccccagggctcagg	11	21	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr22:40814895G>A	uc003ayv.1	-	9	1754	c.1547C>T	c.(1546-1548)GCG>GTG	p.A516V	MKL1_uc003ayw.1_Missense_Mutation_p.A516V|MKL1_uc010gye.1_Missense_Mutation_p.A516V|MKL1_uc010gyf.1_Missense_Mutation_p.A466V	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	516	Potential.				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CTCTAGCTCCGCCCGCCCCCC	0.682			T	RBM15	acute megakaryocytic leukemia								26	39	---	---	---	---	PASS	A	40814895	A	A	40814895	3	1	95	1	0	0	0	0	1	0	0	0	9601	1087	38	1	1264	1	MKL1	22	40814895	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	2771610	40814895	10489671	188	35738										
MKL1	57591	broad.mit.edu	37	chr22	40816853	40816853	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tgaggagcgggtgcctacttTggcggggcaggcaggatggc	20	8	0	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chr22:40816853T>C	uc003ayv.1	-	7	1086	c.879A>G	c.(877-879)CCA>CCG	p.P293P	MKL1_uc003ayw.1_Silent_p.P293P|MKL1_uc010gye.1_Silent_p.P293P|MKL1_uc010gyf.1_Silent_p.P243P	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	293					positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GTGCCTACTTTGGCGGGGCAG	0.637			T	RBM15	acute megakaryocytic leukemia								14	32	---	---	---	---	PASS	C	40816853	C	C	40816853	2	2	95	1	0	0	0	0	0	0	0	1	9601	1799	63	5		5	MKL1	22	40816853	Silent	SNP	T	TCGA-39-5039-01A-01D-1441-08	1958	40816853	10487713	189	35739										
SHOX	6473	broad.mit.edu	37	chrX	591828	591828	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tcacggagggcggcggccacTgcccggtgcatttgttcaag	15	12	2	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chrX:591828T>A	uc004cph.1	+	2	887	c.196T>A	c.(196-198)TGC>AGC	p.C66S	SHOX_uc004cpi.2_Missense_Mutation_p.C66S	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	66					skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CGGCGGCCACTGCCCGGTGCA	0.592													7	97	---	---	---	---	PASS	A	591828	A	A	591828	3	1	95	1	0	0	0	0	1	0	0	0	14288	1580	55	5	198	5	SHOX	23	591828	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08		591828	154678732	190	35740										
SHOX	6473	broad.mit.edu	37	chrX	601573	601573	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	aaggtttggttccagaaccgGagagccaagtgccgcaaaca	12	10	0	2			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chrX:601573G>T	uc004cph.1	+	4	1195	c.504G>T	c.(502-504)CGG>CGT	p.R168R	SHOX_uc004cpi.2_Silent_p.R168R	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	168	Homeobox.		R -> W (in LMD).		skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TCCAGAACCGGAGAGCCAAGT	0.592													18	151	---	---	---	---	PASS	T	601573	T	T	601573	2	4	95	1	0	0	0	0	0	0	0	1	14288	1161	41	2		2	SHOX	23	601573	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	9745	601573	154668987	191	35741										
NLGN4X	57502	broad.mit.edu	37	chrX	5821841	5821841	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atatccgagtgtacttggccGgctggtagttcactgcccag	12	11	1	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chrX:5821841G>T	uc010ndh.2	-	5	1379	c.878C>A	c.(877-879)CCG>CAG	p.P293Q	NLGN4X_uc004crp.2_Missense_Mutation_p.P313Q|NLGN4X_uc004crq.2_Missense_Mutation_p.P293Q|NLGN4X_uc010ndi.2_Missense_Mutation_p.P330Q|NLGN4X_uc004crr.2_Missense_Mutation_p.P293Q|NLGN4X_uc010ndj.2_Missense_Mutation_p.P293Q	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	293	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						GTACTTGGCCGGCTGGTAGTT	0.542													26	56	---	---	---	---	PASS	T	5821841	T	T	5821841	3	4	95	1	0	0	0	0	1	0	0	0	10464	1116	39	1	1580	1	NLGN4X	23	5821841	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	5220268	5821841	149448719	192	35742										
DMD	1756	broad.mit.edu	37	chrX	31893457	31893457	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	gtcttttatttgagcttcaaTttctccttgtttctcaggta	6	8	4	1			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chrX:31893457T>C	uc004dda.1	-	48	7190	c.6946A>G	c.(6946-6948)ATT>GTT	p.I2316V	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Missense_Mutation_p.I972V|DMD_uc004dcx.2_Missense_Mutation_p.I975V|DMD_uc004dcz.2_Missense_Mutation_p.I2193V|DMD_uc004dcy.1_Missense_Mutation_p.I2312V|DMD_uc004ddb.1_Missense_Mutation_p.I2308V|DMD_uc010ngn.1_RNA	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2316	Spectrin 16.		Missing (in DMD).		muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGAGCTTCAATTTCTCCTTGT	0.343													12	20	---	---	---	---	PASS	C	31893457	C	C	31893457	3	2	95	1	0	0	0	0	1	0	0	0	4580	1493	52	5	4387	5	DMD	23	31893457	Missense_Mutation	SNP	T	TCGA-39-5039-01A-01D-1441-08	26071616	31893457	123377103	193	35743										
USP26	83844	broad.mit.edu	37	chrX	132161178	132161178	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	agattcaagagtaacatctcCttgatttctatattataggt	6	6	3	3			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chrX:132161178C>T	uc010nrm.1	-	6	1541	c.1071G>A	c.(1069-1071)AAG>AAA	p.K357K	USP26_uc011mvf.1_Silent_p.K357K	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	357					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					GTAACATCTCCTTGATTTCTA	0.383													32	74	---	---	---	---	PASS	T	132161178	T	T	132161178	2	4	95	1	0	0	0	0	0	0	0	1	17054	680	24	3		3	USP26	23	132161178	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	100267721	132161178	23109382	194	35744										
GPR112	139378	broad.mit.edu	37	chrX	135441478	135441478	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	tgtcaggtcatcataaaagcCagctcttccttagcatcctc	6	13	4	0			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chrX:135441478C>T	uc004ezu.1	+	11	7299	c.7008C>T	c.(7006-7008)GCC>GCT	p.A2336A	GPR112_uc010nsb.1_Silent_p.A2131A|GPR112_uc010nsc.1_Intron	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	2336	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TCATAAAAGCCAGCTCTTCCT	0.373													38	161	---	---	---	---	PASS	T	135441478	T	T	135441478	2	4	95	1	0	0	0	0	0	0	0	1	6629	581	21	3		3	GPR112	23	135441478	Silent	SNP	C	TCGA-39-5039-01A-01D-1441-08	3280300	135441478	19829082	195	35745										
ATP2B3	492	broad.mit.edu	37	chrX	152826170	152826170	+	Missense_Mutation	SNP	C	T	T													0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	catcgacagcgggaggaatgCgcccctgcactcgccaccct							TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chrX:152826170C>T	uc004fht.1	+	17	3002	c.2876C>T	c.(2875-2877)GCG>GTG	p.A959V	ATP2B3_uc004fhs.1_Missense_Mutation_p.A959V|ATP2B3_uc010nuf.1_5'UTR|ATP2B3_uc004fhu.1_5'Flank	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	959	Extracellular (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGGAGGAATGCGCCCCTGCAC	0.562													13	38	---	---	---	---	PASS	T	152826170	T	T	152826170	3	4	95	1	0	0	0	0	1	0	0	0	1141	768	27	1	2942	1	ATP2B3	23	152826170	Missense_Mutation	SNP	C	TCGA-39-5039-01A-01D-1441-08	17384692	152826170	2444390	196	35746	674	2								
ATP2B3	492	broad.mit.edu	37	chrX	152826171	152826171	+	Silent	SNP	G	C	C													0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	atcgacagcgggaggaatgcGcccctgcactcgccaccctc							TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chrX:152826171G>C	uc004fht.1	+	17	3003	c.2877G>C	c.(2875-2877)GCG>GCC	p.A959A	ATP2B3_uc004fhs.1_Silent_p.A959A|ATP2B3_uc010nuf.1_5'UTR|ATP2B3_uc004fhu.1_5'Flank	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	959	Extracellular (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGAGGAATGCGCCCCTGCACT	0.562													13	37	---	---	---	---	PASS	C	152826171	C	C	152826171	2	2	95	1	0	0	0	0	0	0	0	1	1141	1074	38	4		4	ATP2B3	23	152826171	Silent	SNP	G	TCGA-39-5039-01A-01D-1441-08	1	152826171	2444389	197	35747	674	2								
VAMP7	6845	broad.mit.edu	37	chrX	155149501	155149501	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0414507772020725	8	0.895469186052761	0.74070601472036	1.39724089140432	0.503922944440901	1	1	0	ggtagctcagcgaggagaaaGattggaattattgattgaca	13	4	1	4			TCGA-39-5039-01A-01D-1441-08	TCGA-39-5039-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	0c14e914-abd4-4406-be82-a810b10a1320	102b74a1-6b90-4599-abf6-43a8259b5027	g.chrX:155149501G>T	uc004fnr.2	+	6	632	c.458G>T	c.(457-459)AGA>ATA	p.R153I	VAMP7_uc004fnt.2_Missense_Mutation_p.R112I|VAMP7_uc011naa.1_Missense_Mutation_p.R114I|VAMP7_uc011nab.1_Missense_Mutation_p.R52I|VAMP7_uc004fns.2_Intron|VAMP7_uc011nac.1_Missense_Mutation_p.R86I	NM_005638	NP_005629	P51809	VAMP7_HUMAN	vesicle-associated membrane protein 7 isoform 1	153	v-SNARE coiled-coil homology.|Cytoplasmic (Potential).				calcium ion-dependent exocytosis|endosome to lysosome transport|eosinophil degranulation|ER to Golgi vesicle-mediated transport|neutrophil degranulation|phagocytosis, engulfment|post-Golgi vesicle-mediated transport|protein transport|vesicle fusion	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|phagocytic vesicle membrane|plasma membrane|SNARE complex|transport vesicle membrane	protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CGAGGAGAAAGATTGGAATTA	0.303													21	161	---	---	---	---	PASS	T	155149501	T	T	155149501	3	4	95	1	0	0	0	0	1	0	0	0	17114	942	33	2	476	2	VAMP7	23	155149501	Missense_Mutation	SNP	G	TCGA-39-5039-01A-01D-1441-08	2323330	155149501	121059	198	35748										
SLC35E2	9906	broad.mit.edu	37	chr1	1666215	1666215	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	actccgtctgtcagaagcagCagcaccacgtcctggttgta	10	13	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:1666215C>A	uc001aib.1	-	5	1062	c.646G>T	c.(646-648)GCT>TCT	p.A216S	SLC35E2B_uc001ahh.3_Intron|SLC35E2_uc009vkm.1_Intron|SLC35E2_uc001ahy.2_Missense_Mutation_p.A216S|SLC35E2_uc001ahz.2_Missense_Mutation_p.A216S	NM_182838	NP_878258	P0CK97	S35E2_HUMAN	solute carrier family 35, member E2	216						integral to membrane				pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;5.26e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.54e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|BRCA - Breast invasive adenocarcinoma(365;0.00786)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		TCAGAAGCAGCAGCACCACGT	0.547													10	54	---	---	---	---	PASS	A	1666215	A	A	1666215	3	1	96	1	0	0	0	0	1	0	0	0	14585	710	25	3	1412	3	SLC35E2	1	1666215	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08		1666215	247584406	1	35749										
NPHP4	261734	broad.mit.edu	37	chr1	5964865	5964865	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctcggcagtcctgggccactCtgaatccaacaacagctctg	9	15	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:5964865C>A	uc001alq.1	-	16	2222	c.1956_splice	c.e16-1	p.R652_splice	NPHP4_uc001als.1_Splice_Site|NPHP4_uc009vlt.1_Splice_Site|NPHP4_uc001alt.1_Splice_Site|NPHP4_uc009vlu.1_Splice_Site	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin						actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		CTGGGCCACTCTGAATCCAAC	0.542													36	71	---	---	---	---	PASS	A	5964865	A	A	5964865	5	1	96	1	0	0	0	0	0	0	1	0	10581	927	32	2	2385	2	NPHP4	1	5964865	Splice_Site	SNP	C	TCGA-43-2578-01A-01D-1522-08	4298650	5964865	243285756	2	35750										
RNF207	388591	broad.mit.edu	37	chr1	6272764	6272764	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttgggaggaagcctatcagcGagtggctaatgagcaggaga	16	6	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:6272764G>C	uc001amg.2	+	15	1679	c.1505G>C	c.(1504-1506)CGA>CCA	p.R502P	RNF207_uc010nzp.1_RNA	NM_207396	NP_997279	Q6ZRF8	RN207_HUMAN	ring finger protein 207	502	Potential.					intracellular	zinc ion binding				0	Ovarian(185;0.0634)	all_cancers(23;1.22e-38)|all_epithelial(116;4.25e-22)|all_lung(118;7.95e-08)|Lung NSC(185;1.6e-06)|all_neural(13;3.18e-06)|all_hematologic(16;8.99e-06)|Acute lymphoblastic leukemia(12;0.000365)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00104)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)|Medulloblastoma(700;0.211)		Epithelial(90;4.84e-38)|GBM - Glioblastoma multiforme(13;5.77e-32)|OV - Ovarian serous cystadenocarcinoma(86;2.88e-19)|Colorectal(212;6.9e-08)|COAD - Colon adenocarcinoma(227;8.13e-06)|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;0.00311)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.182)		GCCTATCAGCGAGTGGCTAAT	0.498													38	117	---	---	---	---	PASS	C	6272764	C	C	6272764	3	2	96	1	0	0	0	0	1	0	0	0	13474	1058	37	2	1559	2	RNF207	1	6272764	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	307899	6272764	242977857	3	35751										
SPATA21	374955	broad.mit.edu	37	chr1	16748415	16748415	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgatgacttaccctccttttGcttttttaggtccaggcgtg	9	10	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:16748415G>C	uc001ayn.2	-	4	569	c.86C>G	c.(85-87)GCA>GGA	p.A29G	SPATA21_uc001ayl.1_RNA|SPATA21_uc010occ.1_Intron	NM_198546	NP_940948	Q7Z572	SPT21_HUMAN	spermatogenesis associated 21	29							calcium ion binding			ovary(2)|breast(1)	3		Colorectal(325;0.000147)|Renal(390;0.00145)|Lung NSC(340;0.00215)|Breast(348;0.00224)|all_lung(284;0.00351)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(227;1.15e-05)|BRCA - Breast invasive adenocarcinoma(304;4.2e-05)|Kidney(64;0.000183)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.0122)|READ - Rectum adenocarcinoma(331;0.0651)		CCCTCCTTTTGCTTTTTTAGG	0.448													117	225	---	---	---	---	PASS	C	16748415	C	C	16748415	3	2	96	1	0	0	0	0	1	0	0	0	15006	1319	46	4	1363	4	SPATA21	1	16748415	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	10475651	16748415	232502206	4	35752										
NBPF1	55672	broad.mit.edu	37	chr1	16902793	16902793	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttttggacaaggtgctgtgcCagtctacacccctcagccag	10	13	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:16902793C>A	uc009vos.1	-	19	2976	c.2088G>T	c.(2086-2088)CTG>CTT	p.L696L	NBPF1_uc009vot.1_Intron|NBPF1_uc001ayz.1_Silent_p.L154L|NBPF1_uc010oce.1_Silent_p.L425L	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	696						cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		GGTGCTGTGCCAGTCTACACC	0.567													19	630	---	---	---	---	PASS	A	16902793	A	A	16902793	2	1	96	1	0	0	0	0	0	0	0	1	10192	581	21	3		3	NBPF1	1	16902793	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	154378	16902793	232347828	5	35753										
HSPG2	3339	broad.mit.edu	37	chr1	22165442	22165442	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agctcgttcctggcggtcgcCctcccaggaaggctgctgcc	13	16	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:22165442C>T	uc001bfj.2	-	74	10066	c.10026G>A	c.(10024-10026)AGG>AGA	p.R3342R	HSPG2_uc009vqd.2_Silent_p.R3343R	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3342	Ig-like C2-type 19.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TGGCGGTCGCCCTCCCAGGAA	0.692													11	20	---	---	---	---	PASS	T	22165442	T	T	22165442	2	4	96	1	0	0	0	0	0	0	0	1	7430	622	22	3		3	HSPG2	1	22165442	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	5262649	22165442	227085179	6	35754										
CCDC28B	79140	broad.mit.edu	37	chr1	32669966	32669966	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tggctgaccgtaacctggacCagctgcttagcaatgtgggt	13	10	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:32669966C>T	uc001bul.1	+	4	643	c.511C>T	c.(511-513)CAG>TAG	p.Q171*	CCDC28B_uc001buk.2_Nonsense_Mutation_p.Q171*|IQCC_uc001bum.2_5'Flank|IQCC_uc009vua.2_5'Flank|IQCC_uc010ogz.1_5'Flank	NM_024296	NP_077272	Q9BUN5	CC28B_HUMAN	coiled-coil domain containing 28B	171	Potential.										0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				TAACCTGGACCAGCTGCTTAG	0.577													34	41	---	---	---	---	PASS	T	32669966	T	T	32669966	4	4	96	1	0	0	0	0	0	1	0	0	2803	595	21	3	521	3	CCDC28B	1	32669966	Nonsense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	10504524	32669966	216580655	7	35755										
ZNF362	149076	broad.mit.edu	37	chr1	33745931	33745931	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tccagggccacggcctgcttGgcccccccaagtccgaacgc	11	19	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:33745931G>T	uc001bxc.1	+	5	726	c.556G>T	c.(556-558)GGC>TGC	p.G186C		NM_152493	NP_689706	Q5T0B9	ZN362_HUMAN	zinc finger protein 362	186					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				CGGCCTGCTTGGCCCCCCCAA	0.662													13	45	---	---	---	---	PASS	T	33745931	T	T	33745931	3	4	96	1	0	0	0	0	1	0	0	0	17865	1348	47	3	570	3	ZNF362	1	33745931	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1075965	33745931	215504690	8	35756										
C1orf94	84970	broad.mit.edu	37	chr1	34663142	34663142	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctgtcacagacattctgtgtGccgccgaggtcaagagcagc	12	12	3	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:34663142G>T	uc001bxs.3	+	2	466	c.67G>T	c.(67-69)GCC>TCC	p.A23S	C1orf94_uc001bxt.2_Missense_Mutation_p.A213S	NM_032884	NP_116273	Q6P1W5	CA094_HUMAN	hypothetical protein LOC84970 isoform b	23							protein binding				0		Myeloproliferative disorder(586;0.0393)				CATTCTGTGTGCCGCCGAGGT	0.557													16	81	---	---	---	---	PASS	T	34663142	T	T	34663142	3	4	96	1	0	0	0	0	1	0	0	0	2071	1319	46	3	643	3	C1orf94	1	34663142	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	917211	34663142	214587479	9	35757										
GJB4	127534	broad.mit.edu	37	chr1	35226920	35226920	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtactccacagtgctgagccGcatctggctgtctgtggtgt	13	11	2	1	rs80358212		TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:35226920G>T	uc001bxv.1	+	2	435	c.65G>T	c.(64-66)CGC>CTC	p.R22L	GJB4_uc001bxw.3_Missense_Mutation_p.R22L	NM_153212	NP_694944	Q9NTQ9	CXB4_HUMAN	gap junction protein, beta 4	22	Helical; (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity			ovary(2)|central_nervous_system(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				GTGCTGAGCCGCATCTGGCTG	0.577													28	42	---	---	---	---	PASS	T	35226920	T	T	35226920	3	4	96	1	0	0	0	0	1	0	0	0	6410	1087	38	1	67	1	GJB4	1	35226920	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	563778	35226920	214023701	10	35758										
TIE1	7075	broad.mit.edu	37	chr1	43775071	43775071	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcttttagtccaccaaggccAttgtggagccagagaagacc	10	11	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:43775071A>T	uc001ciu.2	+	9	1280	c.1201A>T	c.(1201-1203)ATT>TTT	p.I401F	TIE1_uc010okd.1_Missense_Mutation_p.I401F|TIE1_uc010oke.1_Missense_Mutation_p.I356F|TIE1_uc009vwq.2_Missense_Mutation_p.I357F|TIE1_uc010okf.1_Missense_Mutation_p.I46F|TIE1_uc010okg.1_Missense_Mutation_p.I46F|TIE1_uc010okc.1_Missense_Mutation_p.H309L	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	401	Ig-like C2-type 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CACCAAGGCCATTGTGGAGCC	0.612													16	72	---	---	---	---	PASS	T	43775071	T	T	43775071	3	4	96	1	0	0	0	0	1	0	0	0	15890	217	8	5	1235	5	TIE1	1	43775071	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	8548151	43775071	205475550	11	35759										
EPS15	2060	broad.mit.edu	37	chr1	51912683	51912683	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctgttttcaagaatatttcaCggacctccaatccagacaca	5	12	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:51912683C>A	uc001csq.1	-	10	838	c.746G>T	c.(745-747)CGT>CTT	p.R249L	EPS15_uc009vyz.1_Missense_Mutation_p.R249L	NM_001981	NP_001972	P42566	EPS15_HUMAN	epidermal growth factor receptor pathway	249	EH 3.|EF-hand 2.				cell proliferation|clathrin coat assembly|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|protein transport	cytosol|early endosome membrane	calcium ion binding|SH3 domain binding			lung(1)|kidney(1)	2						GAATATTTCACGGACCTCCAA	0.338			T	MLL	ALL								64	165	---	---	---	---	PASS	A	51912683	A	A	51912683	3	1	96	1	0	0	0	0	1	0	0	0	5192	536	19	1	2106	1	EPS15	1	51912683	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	8137612	51912683	197337938	12	35760										
USP24	23358	broad.mit.edu	37	chr1	55563371	55563371	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	taggtaaagatttaatacagGtccttttcactgttattctc	6	7	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:55563371G>C	uc001cyg.3	-	45	5135	c.5135C>G	c.(5134-5136)ACC>AGC	p.T1712S		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	1872					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						TTTAATACAGGTCCTTTTCAC	0.343													6	18	---	---	---	---	PASS	C	55563371	C	C	55563371	3	2	96	1	0	0	0	0	1	0	0	0	17052	1261	44	4	2331	4	USP24	1	55563371	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	3650688	55563371	193687250	13	35761										
SGIP1	84251	broad.mit.edu	37	chr1	67147845	67147845	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctcctgggcctcctcgcaatGtactatcgccgctcaattta	7	15	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:67147845G>T	uc001dcr.2	+	15	1325	c.1108G>T	c.(1108-1110)GTA>TTA	p.V370L	SGIP1_uc010opd.1_Intron|SGIP1_uc001dcs.2_Intron|SGIP1_uc001dct.2_Intron|SGIP1_uc009wat.2_Missense_Mutation_p.V137L	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	370	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						TCCTCGCAATGTACTATCGCC	0.537													68	281	---	---	---	---	PASS	T	67147845	T	T	67147845	3	4	96	1	0	0	0	0	1	0	0	0	14206	1377	48	3	1166	3	SGIP1	1	67147845	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	11584474	67147845	182102776	14	35762										
ZZZ3	26009	broad.mit.edu	37	chr1	78097596	78097596	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ataaacatcaggatcatcatCttcctcttctgtaatgtgct	5	10	6	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:78097596C>A	uc001dhq.2	-	5	1920	c.1444G>T	c.(1444-1446)GAT>TAT	p.D482Y	ZZZ3_uc001dhr.2_Intron|ZZZ3_uc009wbz.1_Missense_Mutation_p.D482Y|ZZZ3_uc001dhp.2_Missense_Mutation_p.D482Y	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	482					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						GGATCATCATCTTCCTCTTCT	0.393													70	101	---	---	---	---	PASS	A	78097596	A	A	78097596	3	1	96	1	0	0	0	0	1	0	0	0	18253	913	32	2	1311	2	ZZZ3	1	78097596	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	10949751	78097596	171153025	15	35763										
EPHX4	253152	broad.mit.edu	37	chr1	92528829	92528829	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	catttctaaaagaagaaacaAgaaaaaaagattgacttttc	5	5	1	5			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:92528829A>G	uc001don.2	+	7	1179	c.1075A>G	c.(1075-1077)AGA>GGA	p.R359G		NM_173567	NP_775838	Q8IUS5	EPHX4_HUMAN	abhydrolase domain containing 7	359						integral to membrane	hydrolase activity			central_nervous_system(1)	1						AGAAGAAACAAGAAAAAAAGA	0.294													35	41	---	---	---	---	PASS	G	92528829	G	G	92528829	3	3	96	1	0	0	0	0	1	0	0	0	5182	64	3	5	1101	5	EPHX4	1	92528829	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	14431233	92528829	156721792	16	35764										
ABCA4	24	broad.mit.edu	37	chr1	94463498	94463498	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aggaggagctggaagatcctCgccagggaggaggaggagac	19	7	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:94463498C>T	uc001dqh.2	-	48	6752	c.6648G>A	c.(6646-6648)GCG>GCA	p.A2216A		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	2216	Cytoplasmic.		A -> V.		phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		GGAAGATCCTCGCCAGGGAGG	0.597													31	46	---	---	---	---	PASS	T	94463498	T	T	94463498	2	4	96	1	0	0	0	0	0	0	0	1	34	871	31	2		2	ABCA4	1	94463498	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	1934669	94463498	154787123	17	35765										
ZNF687	57592	broad.mit.edu	37	chr1	151262644	151262644	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtgtgagcgctccttctgctCcgcccccagcctgaggcgcc	12	18	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:151262644C>T	uc001exq.2	+	7	3109	c.3011C>T	c.(3010-3012)TCC>TTC	p.S1004F	ZNF687_uc009wmo.2_Missense_Mutation_p.S1004F|ZNF687_uc009wmp.2_Missense_Mutation_p.S1004F	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	1004	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TCCTTCTGCTCCGCCCCCAGC	0.602													67	100	---	---	---	---	PASS	T	151262644	T	T	151262644	3	4	96	1	0	0	0	0	1	0	0	0	18089	855	30	2	3033	2	ZNF687	1	151262644	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	56799146	151262644	97987977	18	35766										
LCE2B	26239	broad.mit.edu	37	chr1	152659545	152659545	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtggctgctgcctgagccacCacaggccccgtctcttccac	10	18	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:152659545C>T	uc001fai.2	+	2	280	c.226C>T	c.(226-228)CAC>TAC	p.H76Y		NM_014357	NP_055172	O14633	LCE2B_HUMAN	late cornified envelope 2B	76	Cys-rich.				keratinization					ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGAGCCACCACAGGCCCCG	0.672													9	46	---	---	---	---	PASS	T	152659545	T	T	152659545	3	4	96	1	0	0	0	0	1	0	0	0	8666	594	21	3	228	3	LCE2B	1	152659545	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	1396901	152659545	96591076	19	35767										
IQGAP3	128239	broad.mit.edu	37	chr1	156521502	156521502	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cagccctaacttcacctgggCcttctgccttttggctgcca	8	16	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:156521502C>A	uc001fpf.2	-	15	1804	c.1729G>T	c.(1729-1731)GCC>TCC	p.A577S	IQGAP3_uc009wsb.1_Missense_Mutation_p.A534S	NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	577					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TTCACCTGGGCCTTCTGCCTT	0.562													25	23	---	---	---	---	PASS	A	156521502	A	A	156521502	3	1	96	1	0	0	0	0	1	0	0	0	7816	739	26	3	3262	3	IQGAP3	1	156521502	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	3861957	156521502	92729119	20	35768										
SLAMF7	57823	broad.mit.edu	37	chr1	160719865	160719865	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acttctcaagccccatccttGccaggaagctctgtgaaggt	9	13	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:160719865G>T	uc001fwq.2	+	3	646	c.631G>T	c.(631-633)GCC>TCC	p.A211S	SLAMF7_uc010pjn.1_Missense_Mutation_p.A104S|SLAMF7_uc001fws.2_Missense_Mutation_p.A104S|SLAMF7_uc001fwr.2_Missense_Mutation_p.A211S|SLAMF7_uc010pjo.1_Intron|SLAMF7_uc010pjp.1_Missense_Mutation_p.A104S|SLAMF7_uc010pjq.1_Intron|SLAMF7_uc010pjr.1_Missense_Mutation_p.A104S	NM_021181	NP_067004	Q9NQ25	SLAF7_HUMAN	SLAM family member 7	211	Extracellular (Potential).				cell adhesion|natural killer cell activation|natural killer cell mediated cytotoxicity	integral to membrane	receptor activity			skin(2)|ovary(1)	3	all_cancers(52;2.63e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			CCCCATCCTTGCCAGGAAGCT	0.562													66	75	---	---	---	---	PASS	T	160719865	T	T	160719865	3	4	96	1	0	0	0	0	1	0	0	0	14369	1319	46	3	641	3	SLAMF7	1	160719865	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	4198363	160719865	88530756	21	35769										
F11R	50848	broad.mit.edu	37	chr1	160990843	160990843	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aggcacaacagtttcctctcGacttgcgcctttgtccccat	7	15	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:160990843G>C	uc009wtt.2	-	1	291	c.21C>G	c.(19-21)GTC>GTG	p.V7V	F11R_uc010pjv.1_Silent_p.V7V|F11R_uc001fxe.3_Silent_p.V7V|F11R_uc009wtu.2_Silent_p.V7V|F11R_uc010pjw.1_Intron|F11R_uc001fxf.3_Silent_p.V7V	NM_016946	NP_058642	Q9Y624	JAM1_HUMAN	F11 receptor precursor	7					blood coagulation|inflammatory response|interspecies interaction between organisms|leukocyte migration|tight junction assembly	integral to membrane|tight junction				ovary(2)	2	all_cancers(52;6.73e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00207)			GTTTCCTCTCGACTTGCGCCT	0.577													20	34	---	---	---	---	PASS	C	160990843	C	C	160990843	2	2	96	1	0	0	0	0	0	0	0	1	5338	1045	37	2		2	F11R	1	160990843	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	270978	160990843	88259778	22	35770										
ARHGAP30	257106	broad.mit.edu	37	chr1	161022516	161022516	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtgataaggcagtggcctggGcataaggtcctcggggctgc	17	9	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:161022516G>T	uc001fxl.2	-	7	1082	c.736C>A	c.(736-738)CCC>ACC	p.P246T	ARHGAP30_uc001fxk.2_Missense_Mutation_p.P246T|ARHGAP30_uc001fxm.2_Missense_Mutation_p.P92T|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_Missense_Mutation_p.P92T	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	246					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			AGTGGCCTGGGCATAAGGTCC	0.592													22	34	---	---	---	---	PASS	T	161022516	T	T	161022516	3	4	96	1	0	0	0	0	1	0	0	0	879	1203	42	3	2593	3	ARHGAP30	1	161022516	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	31673	161022516	88228105	23	35771										
ASTN1	460	broad.mit.edu	37	chr1	176905450	176905450	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gatgtggtacatcacagaccGgaccttccagtgctgcagca	11	12	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:176905450G>A	uc001glc.2	-	15	2646	c.2434C>T	c.(2434-2436)CGG>TGG	p.R812W	ASTN1_uc001glb.1_Missense_Mutation_p.R812W|ASTN1_uc001gld.1_Missense_Mutation_p.R812W|ASTN1_uc009wwx.1_Missense_Mutation_p.R812W	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	820					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						ATCACAGACCGGACCTTCCAG	0.512													16	143	---	---	---	---	PASS	A	176905450	A	A	176905450	3	1	96	1	0	0	0	0	1	0	0	0	1064	1115	39	1	1490	1	ASTN1	1	176905450	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	15882934	176905450	72345171	24	35772										
SEC16B	89866	broad.mit.edu	37	chr1	177902716	177902716	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aggactccttctcatcctccTtggctgaactggcggaactc	9	14	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:177902716T>C	uc001gli.1	-	21	2717	c.2627A>G	c.(2626-2628)AAG>AGG	p.K876R	SEC16B_uc001glk.1_Missense_Mutation_p.K553R|SEC16B_uc009wwy.1_Missense_Mutation_p.K431R|SEC16B_uc001glh.1_Missense_Mutation_p.K535R|SEC16B_uc009wwz.1_Missense_Mutation_p.K535R|SEC16B_uc001glj.1_Missense_Mutation_p.K877R	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	876					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4						CTCATCCTCCTTGGCTGAACT	0.418													3	88	---	---	---	---	PASS	C	177902716	C	C	177902716	3	2	96	1	0	0	0	0	1	0	0	0	13987	1609	56	5	579	5	SEC16B	1	177902716	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	997266	177902716	71347905	25	35773										
CDC73	79577	broad.mit.edu	37	chr1	193099325	193099325	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctgaaaatattcctgtggttAgaagacctgatcgaaaagat	9	6	0	5			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:193099325A>T	uc001gtb.2	+	3	502	c.259A>T	c.(259-261)AGA>TGA	p.R87*		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	87					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						TCCTGTGGTTAGAAGACCTGA	0.274									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				4	152	---	---	---	---	PASS	T	193099325	T	T	193099325	4	4	96	1	0	0	0	0	0	1	0	0	3085	412	15	5	269	5	CDC73	1	193099325	Nonsense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	15196609	193099325	56151296	26	35774										
ELF3	1999	broad.mit.edu	37	chr1	201983144	201983144	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acctacgagaagctgagccgGgccatgaggtgagctggcgg	17	10	0	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:201983144G>A	uc001gxg.3	+	7	4185	c.993G>A	c.(991-993)CGG>CGA	p.R331R	ELF3_uc001gxi.3_Silent_p.R331R|ELF3_uc001gxh.3_Silent_p.R331R	NM_004433	NP_004424	P78545	ELF3_HUMAN	E74-like factor 3 (ets domain transcription	331	ETS.				epidermis development|epithelial cell differentiation|inflammatory response|mammary gland involution|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0						AGCTGAGCCGGGCCATGAGGT	0.602													7	24	---	---	---	---	PASS	A	201983144	A	A	201983144	2	1	96	1	0	0	0	0	0	0	0	1	5055	1219	43	3		3	ELF3	1	201983144	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	8883819	201983144	47267477	27	35775										
FMOD	2331	broad.mit.edu	37	chr1	203317314	203317314	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctgctggctgcggaggtagtGgaaccaccaatgagggtcat	15	9	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:203317314G>A	uc001gzr.2	-	2	221	c.85C>T	c.(85-87)CAC>TAC	p.H29Y	FMOD_uc010pqi.1_RNA	NM_002023	NP_002014	Q06828	FMOD_HUMAN	fibromodulin precursor	29					transforming growth factor beta receptor complex assembly	extracellular space|proteinaceous extracellular matrix				ovary(2)|breast(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.171)			CGGAGGTAGTGGAACCACCAA	0.572													68	47	---	---	---	---	PASS	A	203317314	A	A	203317314	3	1	96	1	0	0	0	0	1	0	0	0	5959	1348	47	3	1053	3	FMOD	1	203317314	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1334170	203317314	45933307	28	35776										
MIA3	375056	broad.mit.edu	37	chr1	222802777	222802777	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aggatgaaaacgctataaatGcaaaacggtctaaagaaaaa	8	5	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:222802777G>T	uc001hnl.2	+	4	2224	c.2215G>T	c.(2215-2217)GCA>TCA	p.A739S	MIA3_uc009xea.1_Missense_Mutation_p.A575S	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	739	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		CGCTATAAATGCAAAACGGTC	0.433													99	69	---	---	---	---	PASS	T	222802777	T	T	222802777	3	4	96	1	0	0	0	0	1	0	0	0	9565	1319	46	3	2229	3	MIA3	1	222802777	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	19485463	222802777	26447844	29	35777										
NVL	4931	broad.mit.edu	37	chr1	224475681	224475681	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tctcttagcaaccccagcagCctttgtaattcatccttgaa	5	13	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:224475681C>T	uc001hok.2	-	14	1633	c.1590G>A	c.(1588-1590)AGG>AGA	p.R530R	NVL_uc001hol.2_Silent_p.R424R|NVL_uc010pvd.1_Silent_p.R439R|NVL_uc010pve.1_Silent_p.R341R|NVL_uc010pvf.1_RNA	NM_002533	NP_002524	O15381	NVL_HUMAN	nuclear VCP-like isoform 1	530						aggresome|cytoplasm|nucleolus	ATP binding|nucleoside-triphosphatase activity			skin(2)	2				GBM - Glioblastoma multiforme(131;0.00501)		ACCCCAGCAGCCTTTGTAATT	0.393													71	55	---	---	---	---	PASS	T	224475681	T	T	224475681	2	4	96	1	0	0	0	0	0	0	0	1	10780	738	26	3		3	NVL	1	224475681	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	1672904	224475681	24774940	30	35778										
NUP133	55746	broad.mit.edu	37	chr1	229619809	229619809	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aacatgttatacctgcagtaTtgcagaaaggcagctttcag	9	8	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:229619809T>A	uc001htn.2	-	12	1676	c.1584A>T	c.(1582-1584)CAA>CAT	p.Q528H		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	528					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				ACCTGCAGTATTGCAGAAAGG	0.348													92	51	---	---	---	---	PASS	A	229619809	A	A	229619809	3	1	96	1	0	0	0	0	1	0	0	0	10754	1490	52	5	1946	5	NUP133	1	229619809	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	5144128	229619809	19630812	31	35779										
WDR64	128025	broad.mit.edu	37	chr1	241901755	241901755	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gagacatgcagatttactctAtgatatatgatgccaatcat	7	7	2	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:241901755A>C	uc001hze.1	+	10	1462	c.1255A>C	c.(1255-1257)ATG>CTG	p.M419L	WDR64_uc001hzf.1_Missense_Mutation_p.M139L			B1ANS9	WDR64_HUMAN	RecName: Full=WD repeat-containing protein 64;	419	WD 5.									skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			GATTTACTCTATGATATATGA	0.383													111	77	---	---	---	---	PASS	C	241901755	C	C	241901755	3	2	96	1	0	0	0	0	1	0	0	0	17312	449	16	5	1293	5	WDR64	1	241901755	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	12281946	241901755	7348866	32	35780										
MAP1LC3C	440738	broad.mit.edu	37	chr1	242159509	242159509	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctcaaggctgctcccatcccTgggggctgctgactccaggc	12	16	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:242159509T>A	uc001hzk.2	-	4	475	c.400A>T	c.(400-402)AGG>TGG	p.R134W		NM_001004343	NP_001004343	Q9BXW4	MLP3C_HUMAN	microtubule-associated protein 1 light chain 3	134					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule	protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CTCCCATCCCTGGGGGCTGCT	0.567													89	53	---	---	---	---	PASS	A	242159509	A	A	242159509	3	1	96	1	0	0	0	0	1	0	0	0	9233	1579	55	5	47	5	MAP1LC3C	1	242159509	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	257754	242159509	7091112	33	35781										
OR2T33	391195	broad.mit.edu	37	chr1	248436938	248436938	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgagggaaagttggctcaggAggaagtacatgggcgtgtgg	19	4	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:248436938A>G	uc010pzi.1	-	1	179	c.179T>C	c.(178-180)CTC>CCC	p.L60P		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	60	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TTGGCTCAGGAGGAAGTACAT	0.532													88	83	---	---	---	---	PASS	G	248436938	G	G	248436938	3	3	96	1	0	0	0	0	1	0	0	0	11024	304	11	5	786	5	OR2T33	1	248436938	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	6277429	248436938	813683	34	35782										
OR2T11	127077	broad.mit.edu	37	chr1	248789591	248789591	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agatgagaggattaagcatgGgcgtgacaatggtatagaag	15	3	0	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr1:248789591G>A	uc001ier.1	-	1	839	c.839C>T	c.(838-840)CCC>CTC	p.P280L		NM_001001964	NP_001001964	Q8NH01	O2T11_HUMAN	olfactory receptor, family 2, subfamily T,	280	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATTAAGCATGGGCGTGACAAT	0.483													11	170	---	---	---	---	PASS	A	248789591	A	A	248789591	3	1	96	1	0	0	0	0	1	0	0	0	11018	1232	43	3	115	3	OR2T11	1	248789591	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	352653	248789591	461030	35	35783										
GCKR	2646	broad.mit.edu	37	chr2	27730846	27730846	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gccctccccttctcctagacAacctcacggaggtgcagact	8	17	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:27730846A>C	uc002rky.2	+	15	1309	c.1243A>C	c.(1243-1245)AAC>CAC	p.N415H	GCKR_uc010ezd.2_Missense_Mutation_p.N413H|GCKR_uc010ylu.1_Missense_Mutation_p.N225H	NM_001486	NP_001477	Q14397	GCKR_HUMAN	glucokinase regulatory protein	415	SIS 2.				carbohydrate metabolic process|glucose transport|negative regulation of glucokinase activity|positive regulation of gene expression|protein import into nucleus, translocation|regulation of glucose transport|response to fructose stimulus|transmembrane transport|triglyceride homeostasis|urate metabolic process	cytosol|nucleoplasm	fructose-6-phosphate binding|protein binding			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)					TCTCCTAGACAACCTCACGGA	0.597													23	30	---	---	---	---	PASS	C	27730846	C	C	27730846	3	2	96	1	0	0	0	0	1	0	0	0	6294	130	5	5	1301	5	GCKR	2	27730846	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08		27730846	215468527	36	35784										
VIT	5212	broad.mit.edu	37	chr2	37041330	37041330	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acctttgtccccacaggagtGatcacctatgcgataggcgt	10	12	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:37041330G>C	uc002rpl.2	+	16	2129	c.1908G>C	c.(1906-1908)GTG>GTC	p.V636V	VIT_uc002rpm.2_Silent_p.V614V|VIT_uc010ezv.2_Silent_p.V592V|VIT_uc010ezw.2_Silent_p.V593V	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	621	VWFA 2.					proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				CCACAGGAGTGATCACCTATG	0.522													20	93	---	---	---	---	PASS	C	37041330	C	C	37041330	2	2	96	1	0	0	0	0	0	0	0	1	17168	1277	45	2		2	VIT	2	37041330	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	9310484	37041330	206158043	37	35785										
DYNC2LI1	51626	broad.mit.edu	37	chr2	44023055	44023055	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gaattaattgacccatttccGgtacctctggtcataattgg	8	9	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:44023055G>T	uc002rtk.2	+	7	630	c.534G>T	c.(532-534)CCG>CCT	p.P178P	DYNC2LI1_uc002rtj.2_Silent_p.P178P|DYNC2LI1_uc002rtl.2_Silent_p.P179P|DYNC2LI1_uc010ynz.1_Silent_p.P52P	NM_016008	NP_057092	Q8TCX1	DC2L1_HUMAN	dynein 2 light intermediate chain isoform 1	178						apical part of cell|axonemal dynein complex|cilium axoneme|cytoplasm|microtubule|motile primary cilium	motor activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				ACCCATTTCCGGTACCTCTGG	0.348													66	91	---	---	---	---	PASS	T	44023055	T	T	44023055	2	4	96	1	0	0	0	0	0	0	0	1	4847	1103	39	1		1	DYNC2LI1	2	44023055	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	6981725	44023055	199176318	38	35786										
ABCG5	64240	broad.mit.edu	37	chr2	44051508	44051508	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgtaggcagattctatcatcTggactctcttggaggtttct	10	8	5	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:44051508T>A	uc002rtn.2	-	8	1108	c.968A>T	c.(967-969)CAG>CTG	p.Q323L	ABCG5_uc002rtm.2_Intron|ABCG5_uc002rto.2_Missense_Mutation_p.Q152L|ABCG5_uc002rtp.2_Intron	NM_022436	NP_071881	Q9H222	ABCG5_HUMAN	ATP-binding cassette sub-family G member 5	323	Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			ovary(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TTCTATCATCTGGACTCTCTT	0.388													244	267	---	---	---	---	PASS	A	44051508	A	A	44051508	3	1	96	1	0	0	0	0	1	0	0	0	71	1580	55	5	1011	5	ABCG5	2	44051508	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	28453	44051508	199147865	39	35787										
DQX1	165545	broad.mit.edu	37	chr2	74750078	74750078	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gattctcctcacacaccctgGgttgtggcaatggtggagct	12	11	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:74750078G>T	uc010yrw.1	-	7	1373	c.1208C>A	c.(1207-1209)CCC>CAC	p.P403H	DQX1_uc002smc.2_5'UTR	NM_133637	NP_598376	Q8TE96	DQX1_HUMAN	DEAQ box polypeptide 1 (RNA-dependent ATPase)	403	Helicase C-terminal.					nucleus	ATP binding|helicase activity|nucleic acid binding			ovary(2)	2						ACACACCCTGGGTTGTGGCAA	0.517													43	135	---	---	---	---	PASS	T	74750078	T	T	74750078	3	4	96	1	0	0	0	0	1	0	0	0	4751	1232	43	3	969	3	DQX1	2	74750078	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	30698570	74750078	168449295	40	35788										
RNF181	51255	broad.mit.edu	37	chr2	85823972	85823972	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtgccccgtgtgtcttttggAatttgaggaggaggagactg	16	6	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:85823972A>T	uc002spv.1	+	3	295	c.245A>T	c.(244-246)GAA>GTA	p.E82V		NM_016494	NP_057578	Q9P0P0	RN181_HUMAN	ring finger protein 181	82	RING-type; atypical.						ligase activity|zinc ion binding				0						TGTCTTTTGGAATTTGAGGAG	0.527													125	245	---	---	---	---	PASS	T	85823972	T	T	85823972	3	4	96	1	0	0	0	0	1	0	0	0	13465	246	9	5	255	5	RNF181	2	85823972	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	11073894	85823972	157375401	41	35789										
VWA3B	200403	broad.mit.edu	37	chr2	98736131	98736131	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	accatagtgctggattttggCggcattctggagggggagct	16	7	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:98736131C>T	uc002syo.2	+	4	711	c.447C>T	c.(445-447)GGC>GGT	p.G149G	VWA3B_uc010yvh.1_Intron|VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_5'UTR|VWA3B_uc002sym.2_Silent_p.G149G|VWA3B_uc002syn.1_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	149										ovary(3)|large_intestine(2)|skin(1)	6						TGGATTTTGGCGGCATTCTGG	0.527													5	370	---	---	---	---	PASS	T	98736131	T	T	98736131	2	4	96	1	0	0	0	0	0	0	0	1	17238	755	27	1		1	VWA3B	2	98736131	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	12912159	98736131	144463242	42	35790										
SLC9A2	6549	broad.mit.edu	37	chr2	103324932	103324932	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aagccggaaagcccgatttgGgagtgagaagccttaagaga	14	7	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:103324932G>T	uc002tca.2	+	12	2565	c.2423G>T	c.(2422-2424)GGG>GTG	p.G808V		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	808	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						GCCCGATTTGGGAGTGAGAAG	0.557													33	102	---	---	---	---	PASS	T	103324932	T	T	103324932	3	4	96	1	0	0	0	0	1	0	0	0	14712	1232	43	3	2469	3	SLC9A2	2	103324932	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	4588801	103324932	139874441	43	35791										
NCK2	8440	broad.mit.edu	37	chr2	106498213	106498213	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggagctcaacttcgagaaggGggagaccatggaggtgattg	17	6	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:106498213G>T	uc002tdg.2	+	4	1098	c.656G>T	c.(655-657)GGG>GTG	p.G219V	NCK2_uc002tdh.2_Intron|NCK2_uc002tdi.2_Missense_Mutation_p.G219V	NM_003581	NP_003572	O43639	NCK2_HUMAN	NCK adaptor protein 2 isoform A	219	SH3 3.				axon guidance|epidermal growth factor receptor signaling pathway|negative regulation of cell proliferation|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of epidermal growth factor receptor activity|regulation of translation|signal complex assembly|T cell activation	cytosol|endoplasmic reticulum	cytoskeletal adaptor activity|receptor signaling complex scaffold activity			ovary(1)|lung(1)	2						TTCGAGAAGGGGGAGACCATG	0.612													34	74	---	---	---	---	PASS	T	106498213	T	T	106498213	3	4	96	1	0	0	0	0	1	0	0	0	10220	1232	43	3	662	3	NCK2	2	106498213	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	3173281	106498213	136701160	44	35792										
PTPN4	5775	broad.mit.edu	37	chr2	120702715	120702715	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	taccacccaaacagtcaaagAaaaacagttggaaccaaatt	5	10	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:120702715A>G	uc002tmf.1	+	16	2185	c.1414A>G	c.(1414-1416)AAA>GAA	p.K472E	PTPN4_uc010flj.1_Missense_Mutation_p.K185E|PTPN4_uc010yyr.1_Missense_Mutation_p.K105E	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	472						cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	ACAGTCAAAGAAAAACAGTTG	0.363													43	86	---	---	---	---	PASS	G	120702715	G	G	120702715	3	3	96	1	0	0	0	0	1	0	0	0	12790	247	9	5	1472	5	PTPN4	2	120702715	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	14204502	120702715	122496658	45	35793										
MCM6	4175	broad.mit.edu	37	chr2	136620287	136620287	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggaacgccaccaaagagcatCagcaggacaccccgttttac	9	14	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:136620287C>A	uc002tuw.2	-	8	1186	c.1110G>T	c.(1108-1110)CTG>CTT	p.L370L		NM_005915	NP_005906	Q14566	MCM6_HUMAN	minichromosome maintenance complex component 6	370	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|identical protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.166)	Atorvastatin(DB01076)	CAAAGAGCATCAGCAGGACAC	0.418													70	116	---	---	---	---	PASS	A	136620287	A	A	136620287	2	1	96	1	0	0	0	0	0	0	0	1	9391	813	29	2		2	MCM6	2	136620287	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	15917572	136620287	106579086	46	35794										
KCNJ3	3760	broad.mit.edu	37	chr2	155711340	155711340	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aagagggattctttaaagttGattactcccagttccatgca	8	8	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:155711340G>T	uc002tyv.1	+	3	1216	c.1021G>T	c.(1021-1023)GAT>TAT	p.D341Y	KCNJ3_uc010zce.1_3'UTR	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	341	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	CTTTAAAGTTGATTACTCCCA	0.423													30	131	---	---	---	---	PASS	T	155711340	T	T	155711340	3	4	96	1	0	0	0	0	1	0	0	0	8052	1290	45	2	1031	2	KCNJ3	2	155711340	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	19091053	155711340	87488033	47	35795										
GALNT5	11227	broad.mit.edu	37	chr2	158140834	158140834	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acaataacctcccaaccaccAgtgtcatcatgtgctttgtg	6	13	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:158140834A>T	uc002tzg.2	+	2	1750	c.1495A>T	c.(1495-1497)AGT>TGT	p.S499C	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	499	Catalytic subdomain A.|Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						CCCAACCACCAGTGTCATCAT	0.468													28	148	---	---	---	---	PASS	T	158140834	T	T	158140834	3	4	96	1	0	0	0	0	1	0	0	0	6216	188	7	5	1501	5	GALNT5	2	158140834	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	2429494	158140834	85058539	48	35796										
FAP	2191	broad.mit.edu	37	chr2	163031394	163031394	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	taccgtaatattcccagctgGagactggagccactgctata	9	11	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:163031394G>T	uc002ucd.2	-	22	2160	c.1952C>A	c.(1951-1953)TCC>TAC	p.S651Y	FAP_uc010fpc.2_Missense_Mutation_p.S200Y|FAP_uc010zct.1_Missense_Mutation_p.S626Y|FAP_uc010fpd.2_Missense_Mutation_p.S130Y	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	651	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						TTCCCAGCTGGAGACTGGAGC	0.388													26	82	---	---	---	---	PASS	T	163031394	T	T	163031394	3	4	96	1	0	0	0	0	1	0	0	0	5673	1174	41	2	350	2	FAP	2	163031394	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	4890560	163031394	80167979	49	35797										
CSRNP3	80034	broad.mit.edu	37	chr2	166451624	166451624	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aagaagttgacggctcctcaCcctgctcctctgtgagggaa	11	12	2	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:166451624C>A	uc002udf.2	+	4	425	c.49C>A	c.(49-51)CCC>ACC	p.P17T	CSRNP3_uc002udg.2_Missense_Mutation_p.P17T	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	17	Ser-rich.				apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						CGGCTCCTCACCCTGCTCCTC	0.478													36	133	---	---	---	---	PASS	A	166451624	A	A	166451624	3	1	96	1	0	0	0	0	1	0	0	0	3965	507	18	3	51	3	CSRNP3	2	166451624	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	3420230	166451624	76747749	50	35798										
LRP2	4036	broad.mit.edu	37	chr2	170135900	170135900	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acccaacagttgggtccacgGcaattcctctaggatgcccc	9	15	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:170135900G>A	uc002ues.2	-	12	1760	c.1547C>T	c.(1546-1548)GCC>GTC	p.A516V	LRP2_uc010zdf.1_Missense_Mutation_p.A516V	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	516	LDL-receptor class B 2.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TGGGTCCACGGCAATTCCTCT	0.403													5	212	---	---	---	---	PASS	A	170135900	A	A	170135900	3	1	96	1	0	0	0	0	1	0	0	0	8956	1203	42	3	12692	3	LRP2	2	170135900	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	3684276	170135900	73063473	51	35799										
TTN	7273	broad.mit.edu	37	chr2	179434250	179434250	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tttaacttctggtgtaggacGaccttttataggaacaaata	8	6	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:179434250G>A	uc010zfg.1	-	275	69129	c.68905C>T	c.(68905-68907)CGT>TGT	p.R22969C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R16664C|TTN_uc010zfi.1_Missense_Mutation_p.R16597C|TTN_uc010zfj.1_Missense_Mutation_p.R16472C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23896							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)			GGTGTAGGACGACCTTTTATA	0.393													9	72	---	---	---	---	PASS	A	179434250	A	A	179434250	3	1	96	1	0	0	0	0	1	0	0	0	16732	1058	37	2	31518	2	TTN	2	179434250	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	9298350	179434250	63765123	52	35800										
EPHA4	2043	broad.mit.edu	37	chr2	222428482	222428482	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccgctccgctcctcatgcccAgcgttgcataggcagttgcc	10	17	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:222428482A>T	uc002vmq.2	-	3	834	c.792T>A	c.(790-792)GCT>GCA	p.A264A	EPHA4_uc002vmr.2_Silent_p.A264A|EPHA4_uc010zlm.1_Silent_p.A205A|EPHA4_uc010zln.1_Silent_p.A264A	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	264	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)		CCTCATGCCCAGCGTTGCATA	0.488													42	93	---	---	---	---	PASS	T	222428482	T	T	222428482	2	4	96	1	0	0	0	0	0	0	0	1	5169	175	7	5		5	EPHA4	2	222428482	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	42994232	222428482	20770891	53	35801										
DOCK10	55619	broad.mit.edu	37	chr2	225670849	225670849	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aagatctcaagtacctgctaTggaatttaaaacatctttag	6	7	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:225670849T>G	uc010fwz.1	-	34	4047	c.3808A>C	c.(3808-3810)ATA>CTA	p.I1270L	DOCK10_uc002vob.2_Missense_Mutation_p.I1264L|DOCK10_uc002voa.2_5'Flank|DOCK10_uc002voc.2_Missense_Mutation_p.I133L	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1270							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		GTACCTGCTATGGAATTTAAA	0.338													7	38	---	---	---	---	PASS	G	225670849	G	G	225670849	3	3	96	1	0	0	0	0	1	0	0	0	4685	1464	51	5	2844	5	DOCK10	2	225670849	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	3242367	225670849	17528524	54	35802										
ALPP	250	broad.mit.edu	37	chr2	233244989	233244989	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gccaaggtgggaccaggctgGacgggaagaatctggtgcag	18	8	1	1	rs141711512		TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:233244989G>T	uc002vsq.2	+	6	916	c.751G>T	c.(751-753)GAC>TAC	p.D251Y	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	251						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		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;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		GACCAGGCTGGACGGGAAGAA	0.632													6	182	---	---	---	---	PASS	T	233244989	T	T	233244989	3	4	96	1	0	0	0	0	1	0	0	0	548	1174	41	2	773	2	ALPP	2	233244989	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	7574140	233244989	9954384	55	35803										
ALPPL2	251	broad.mit.edu	37	chr2	233273070	233273070	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gccaaggtgggaccaggctgGacgggaagaatctggtgcag	18	8	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:233273070G>T	uc002vss.3	+	6	795	c.742G>T	c.(742-744)GAC>TAC	p.D248Y		NM_031313	NP_112603	P10696	PPBN_HUMAN	placental-like alkaline phosphatase	248					phosphorylation	anchored to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			skin(1)	1		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;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)|Levamisole(DB00848)	GACCAGGCTGGACGGGAAGAA	0.622													8	83	---	---	---	---	PASS	T	233273070	T	T	233273070	3	4	96	1	0	0	0	0	1	0	0	0	549	1174	41	2	764	2	ALPPL2	2	233273070	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	28081	233273070	9926303	56	35804										
UGT1A6	54578	broad.mit.edu	37	chr2	234601653	234601653	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	actttaactctttccaggatGgcctgcctccttcgctcatt	6	14	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr2:234601653G>T	uc002vuv.3	+	1	142	c.3G>T	c.(1-3)ATG>ATT	p.M1I	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Missense_Mutation_p.M1I	NM_001072	NP_001063	P19224	UD16_HUMAN	UDP glycosyltransferase 1 family, polypeptide A6	1					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity				0		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;5.86e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000384)|Lung(119;0.00306)|LUSC - Lung squamous cell carcinoma(224;0.00702)		TTTCCAGGATGGCCTGCCTCC	0.463													37	124	---	---	---	---	PASS	T	234601653	T	T	234601653	3	4	96	1	0	0	0	0	1	0	0	0	16946	1348	47	3	5	3	UGT1A6	2	234601653	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1328583	234601653	8597720	57	35805										
SLC6A6	6533	broad.mit.edu	37	chr3	14509682	14509682	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	catcctgggcttcatggcacAagagcaaggggtggacattg	14	9	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:14509682A>G	uc010heg.2	+	16	1349	c.1058A>G	c.(1057-1059)CAA>CGA	p.Q353R	SLC6A6_uc003byq.2_Missense_Mutation_p.Q353R|SLC6A6_uc003byr.2_Intron	NM_001134367	NP_001127839	P31641	SC6A6_HUMAN	solute carrier family 6 (neurotransmitter	353					cellular amino acid metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity|taurine:sodium symporter activity			ovary(1)	1						TTCATGGCACAAGAGCAAGGG	0.522											OREG0015421	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	115	---	---	---	---	PASS	G	14509682	G	G	14509682	3	3	96	1	0	0	0	0	1	0	0	0	14688	130	5	5	1088	5	SLC6A6	3	14509682	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08		14509682	183512748	58	35806										
KAT2B	8850	broad.mit.edu	37	chr3	20136868	20136868	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tccacaaggaagaagatgcaGataccaaacaagtttatttc	7	8	0	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:20136868G>T	uc003cbq.2	+	3	990	c.544G>T	c.(544-546)GAT>TAT	p.D182Y		NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	182					cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AGAAGATGCAGATACCAAACA	0.368													22	96	---	---	---	---	PASS	T	20136868	T	T	20136868	3	4	96	1	0	0	0	0	1	0	0	0	7982	942	33	2	554	2	KAT2B	3	20136868	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	5627186	20136868	177885562	59	35807										
MLH1	4292	broad.mit.edu	37	chr3	37070325	37070325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aatggtggaagatgattcccGaaaggaaatgactgcagctt	12	6	0	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:37070325G>T	uc003cgl.2	+	13	1520	c.1460G>T	c.(1459-1461)CGA>CTA	p.R487L	MLH1_uc011aye.1_Missense_Mutation_p.R246L|MLH1_uc011ayb.1_Missense_Mutation_p.R246L|MLH1_uc010hge.2_Missense_Mutation_p.R487L|MLH1_uc003cgn.3_Missense_Mutation_p.R246L|MLH1_uc011ayc.1_Missense_Mutation_p.R389L|MLH1_uc011ayd.1_Missense_Mutation_p.R246L|MLH1_uc003cgo.2_Missense_Mutation_p.R246L|MLH1_uc010hgi.1_Missense_Mutation_p.R129L|MLH1_uc010hgj.1_Missense_Mutation_p.R129L|MLH1_uc010hgk.2_Missense_Mutation_p.R129L|MLH1_uc010hgl.1_Missense_Mutation_p.R62L|MLH1_uc010hgn.2_Missense_Mutation_p.R129L|MLH1_uc010hgm.2_RNA|MLH1_uc010hgo.2_Missense_Mutation_p.R129L	NM_000249	NP_000240	P40692	MLH1_HUMAN	MutL protein homolog 1	487	Interaction with EXO1.				mismatch repair|somatic hypermutation of immunoglobulin genes	chiasma|MutLalpha complex|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|protein binding	p.0?(1)		large_intestine(40)|haematopoietic_and_lymphoid_tissue(8)|ovary(6)|pancreas(5)|stomach(3)|central_nervous_system(3)|endometrium(3)|breast(3)|prostate(3)|skin(2)|NS(1)	77						GATGATTCCCGAAAGGAAATG	0.418		1	D|Mis|N|F|S		colorectal|endometrial|ovarian|CNS	colorectal|endometrial|ovarian|CNS		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				144	148	---	---	---	---	PASS	T	37070325	T	T	37070325	3	4	96	1	0	0	0	0	1	0	0	0	9617	1058	37	2	1510	2	MLH1	3	37070325	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	16933457	37070325	160952105	60	35808										
DLEC1	9940	broad.mit.edu	37	chr3	38087137	38087137	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggaaaatgagcgggtcatgaGccaggctggagtacaggacc	16	8	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:38087137G>T	uc003cho.1	+	2	536	c.515G>T	c.(514-516)AGC>ATC	p.S172I	DLEC1_uc003chp.1_Missense_Mutation_p.S172I|DLEC1_uc010hgv.1_Missense_Mutation_p.S172I	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	172					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		CGGGTCATGAGCCAGGCTGGA	0.418													17	41	---	---	---	---	PASS	T	38087137	T	T	38087137	3	4	96	1	0	0	0	0	1	0	0	0	4552	971	34	3	521	3	DLEC1	3	38087137	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1016812	38087137	159935293	61	35809										
ACAA1	30	broad.mit.edu	37	chr3	38167686	38167686	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agctactgggatggcataggCaggtccaatgcccatgatgt	13	9	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:38167686C>A	uc003cht.2	-	9	1171	c.964G>T	c.(964-966)GCC>TCC	p.A322S	ACAA1_uc003chu.2_Intron|ACAA1_uc010hgy.2_Missense_Mutation_p.A281S|ACAA1_uc010hgz.2_Missense_Mutation_p.A322S|ACAA1_uc003chv.2_Missense_Mutation_p.A170S	NM_001607	NP_001598	P09110	THIK_HUMAN	acetyl-Coenzyme A acyltransferase 1 isoform a	322					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy	peroxisomal matrix	acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0523)|Kidney(284;0.0657)		ATGGCATAGGCAGGTCCAATG	0.562													3	57	---	---	---	---	PASS	A	38167686	A	A	38167686	3	1	96	1	0	0	0	0	1	0	0	0	104	710	25	3	326	3	ACAA1	3	38167686	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	80549	38167686	159854744	62	35810										
SCN10A	6336	broad.mit.edu	37	chr3	38798291	38798291	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acagccaagatcaagttgacCaggtagaaagatcccaggaa	10	9	1	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:38798291C>A	uc003ciq.2	-	9	1164	c.1164G>T	c.(1162-1164)CTG>CTT	p.L388L		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	388	Helical; Name=S6 of repeat I; (Potential).|I.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	TCAAGTTGACCAGGTAGAAAG	0.468													72	100	---	---	---	---	PASS	A	38798291	A	A	38798291	2	1	96	1	0	0	0	0	0	0	0	1	13912	581	21	3		3	SCN10A	3	38798291	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	630605	38798291	159224139	63	35811										
SCN10A	6336	broad.mit.edu	37	chr3	38805035	38805035	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttttaatgctctaagaactcTgaatgtccgcaggcctgaga	9	9	2	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:38805035T>A	uc003ciq.2	-	5	652	c.652A>T	c.(652-654)AGA>TGA	p.R218*		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	218	I.|Helical; Voltage-sensor; Name=S4 of repeat I; (Potential).				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CTAAGAACTCTGAATGTCCGC	0.393													75	94	---	---	---	---	PASS	A	38805035	A	A	38805035	4	1	96	1	0	0	0	0	0	1	0	0	13912	1588	55	5	5310	5	SCN10A	3	38805035	Nonsense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	6744	38805035	159217395	64	35812										
KBTBD5	131377	broad.mit.edu	37	chr3	42728049	42728049	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aatgacaccctgcgcttcggCatgttcctgcaggatctcat	9	13	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:42728049C>G	uc003clv.1	+	1	1039	c.939C>G	c.(937-939)GGC>GGG	p.G313G		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	313										ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		TGCGCTTCGGCATGTTCCTGC	0.567													65	99	---	---	---	---	PASS	G	42728049	G	G	42728049	2	3	96	1	0	0	0	0	0	0	0	1	7996	697	25	4		4	KBTBD5	3	42728049	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	3923014	42728049	155294381	65	35813										
ANO10	55129	broad.mit.edu	37	chr3	43640090	43640090	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cattttttcatctttagctcTaagattttcaagttcatgtt	4	7	5	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:43640090T>A	uc003cmv.2	-	4	577	c.406A>T	c.(406-408)AGA>TGA	p.R136*	ANO10_uc011azs.1_Nonsense_Mutation_p.R136*|ANO10_uc003cmw.2_Nonsense_Mutation_p.R70*|ANO10_uc010hil.2_Nonsense_Mutation_p.R136*|ANO10_uc011azt.1_Intron	NM_018075	NP_060545	Q9NW15	ANO10_HUMAN	transmembrane protein 16K	136	Cytoplasmic (Potential).				cell death	chloride channel complex	chloride channel activity			ovary(2)	2						TCTTTAGCTCTAAGATTTTCA	0.313													32	46	---	---	---	---	PASS	A	43640090	A	A	43640090	4	1	96	1	0	0	0	0	0	1	0	0	696	1530	53	5	1616	5	ANO10	3	43640090	Nonsense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	912041	43640090	154382340	66	35814										
PHLDB2	90102	broad.mit.edu	37	chr3	111664201	111664201	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gttaaccccaatactttaaaAgaggtaagctatgattttac	6	7	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:111664201A>G	uc010hqa.2	+	9	2895	c.2484A>G	c.(2482-2484)AAA>AAG	p.K828K	PHLDB2_uc003dyc.2_Silent_p.K812K|PHLDB2_uc003dyd.2_Silent_p.K785K|PHLDB2_uc003dyg.2_Silent_p.K828K|PHLDB2_uc003dyh.2_Silent_p.K785K|PHLDB2_uc003dyi.2_Silent_p.K414K	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	828						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						ATACTTTAAAAGAGGTAAGCT	0.348													70	95	---	---	---	---	PASS	G	111664201	G	G	111664201	2	3	96	1	0	0	0	0	0	0	0	1	11852	69	3	5		5	PHLDB2	3	111664201	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	68024111	111664201	86358229	67	35815										
CD86	942	broad.mit.edu	37	chr3	121822396	121822396	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	attcaagcttatttcaatgaGactgcagacctgccatgcca	7	11	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:121822396G>T	uc003eet.2	+	3	218	c.102G>T	c.(100-102)GAG>GAT	p.E34D	CD86_uc011bjo.1_5'UTR|CD86_uc011bjp.1_Intron|CD86_uc003eeu.2_Missense_Mutation_p.E28D	NM_175862	NP_787058	P42081	CD86_HUMAN	CD86 antigen isoform 1	34	Ig-like V-type.|Extracellular (Potential).				interspecies interaction between organisms|positive regulation of cell proliferation|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of lymphotoxin A biosynthetic process|positive regulation of T-helper 2 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation		coreceptor activity|protein binding			pancreas(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.156)	Abatacept(DB01281)	ATTTCAATGAGACTGCAGACC	0.433													50	169	---	---	---	---	PASS	T	121822396	T	T	121822396	3	4	96	1	0	0	0	0	1	0	0	0	3043	933	33	2	112	2	CD86	3	121822396	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	10158195	121822396	76200034	68	35816										
H1FOO	132243	broad.mit.edu	37	chr3	129267964	129267964	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	caagtgaggccaaggaggacCctcccaacgtgggcaaggtg	15	11	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:129267964C>G	uc003emu.2	+	3	504	c.499C>G	c.(499-501)CCT>GCT	p.P167A	H1FOO_uc003emv.2_Missense_Mutation_p.P28A	NM_153833	NP_722575	Q8IZA3	H1FOO_HUMAN	H1 histone family, member O, oocyte-specific	167	Nuclear localization signal (Potential).				meiosis|nucleosome assembly	cytoplasm|nucleosome	DNA binding			skin(1)	1						CAAGGAGGACCCTCCCAACGT	0.632													12	9	---	---	---	---	PASS	G	129267964	G	G	129267964	3	3	96	1	0	0	0	0	1	0	0	0	6922	623	22	4	509	4	H1FOO	3	129267964	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	7445568	129267964	68754466	69	35817										
COL6A6	131873	broad.mit.edu	37	chr3	130282165	130282165	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttcattggcgggtccctgcaGataggaaaggctcttcagga	13	9	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:130282165G>T	uc010htl.2	+	2	349	c.318G>T	c.(316-318)CAG>CAT	p.Q106H		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	106	Nonhelical region.|VWFA 1.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GGTCCCTGCAGATAGGAAAGG	0.498													19	69	---	---	---	---	PASS	T	130282165	T	T	130282165	3	4	96	1	0	0	0	0	1	0	0	0	3703	933	33	2	324	2	COL6A6	3	130282165	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1014201	130282165	67740265	70	35818										
STAG1	10274	broad.mit.edu	37	chr3	136136806	136136806	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agagatcccattttgtgagaTcatgtgcactgaaataaaca	8	7	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:136136806T>C	uc003era.1	-	21	2409	c.2117A>G	c.(2116-2118)GAT>GGT	p.D706G	STAG1_uc003erb.1_Missense_Mutation_p.D706G|STAG1_uc003erc.1_Missense_Mutation_p.D480G|STAG1_uc010hua.1_Missense_Mutation_p.D569G	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	706					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						TTTTGTGAGATCATGTGCACT	0.348													11	123	---	---	---	---	PASS	C	136136806	C	C	136136806	3	2	96	1	0	0	0	0	1	0	0	0	15241	1435	50	5	1715	5	STAG1	3	136136806	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	5854641	136136806	61885624	71	35819										
A4GNT	51146	broad.mit.edu	37	chr3	137843132	137843132	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gttacctggacccagctcccCagtcactgacccctctgggc	9	18	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:137843132C>T	uc003ers.2	-	3	1199	c.997G>A	c.(997-999)GGG>AGG	p.G333R		NM_016161	NP_057245	Q9UNA3	A4GCT_HUMAN	alpha-1,4-N-acetylglucosaminyltransferase	333	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	acetylglucosaminyltransferase activity|galactosyltransferase activity			central_nervous_system(1)	1						CCCAGCTCCCCAGTCACTGAC	0.493													46	248	---	---	---	---	PASS	T	137843132	T	T	137843132	3	4	96	1	0	0	0	0	1	0	0	0	7	594	21	3	29	3	A4GNT	3	137843132	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	1706326	137843132	60179298	72	35820										
NMNAT3	349565	broad.mit.edu	37	chr3	139297773	139297773	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctctcccaagggtccacccgGatccagtcggatgtctgcag	11	15	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:139297773G>T	uc003etj.2	-	2	274	c.234C>A	c.(232-234)ATC>ATA	p.I78I	NMNAT3_uc003etk.2_Silent_p.I41I|NMNAT3_uc003etl.2_RNA|NMNAT3_uc010hul.2_Intron	NM_178177	NP_835471	Q96T66	NMNA3_HUMAN	nicotinamide mononucleotide adenylyltransferase	78					water-soluble vitamin metabolic process	cytosol|mitochondrion	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity				0						GGTCCACCCGGATCCAGTCGG	0.587													11	55	---	---	---	---	PASS	T	139297773	T	T	139297773	2	4	96	1	0	0	0	0	0	0	0	1	10500	1164	41	2		2	NMNAT3	3	139297773	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	1454641	139297773	58724657	73	35821										
PTX3	5806	broad.mit.edu	37	chr3	157160709	157160709	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cttgtcacatccgggggaatAttgttgggtggggagtcaca	15	7	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:157160709A>T	uc003fbl.3	+	3	1230	c.1087A>T	c.(1087-1089)ATT>TTT	p.I363F	VEPH1_uc003fbj.1_Intron|VEPH1_uc003fbk.1_Intron|VEPH1_uc010hvu.1_Intron	NM_002852	NP_002843	P26022	PTX3_HUMAN	pentraxin 3 precursor	363	Pentaxin.				inflammatory response	extracellular region				central_nervous_system(1)	1			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			CCGGGGGAATATTGTTGGGTG	0.468													52	155	---	---	---	---	PASS	T	157160709	T	T	157160709	3	4	96	1	0	0	0	0	1	0	0	0	12822	449	16	5	1097	5	PTX3	3	157160709	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	17862936	157160709	40861721	74	35822										
SLITRK3	22865	broad.mit.edu	37	chr3	164908179	164908179	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gatattctagactttccaagCcaaggaaggtgtcatttctg	9	8	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:164908179C>A	uc003fej.3	-	2	884	c.440G>T	c.(439-441)GGC>GTC	p.G147V	SLITRK3_uc003fek.2_Missense_Mutation_p.G147V	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	147	LRR 3.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						ACTTTCCAAGCCAAGGAAGGT	0.373										HNSCC(40;0.11)			45	165	---	---	---	---	PASS	A	164908179	A	A	164908179	3	1	96	1	0	0	0	0	1	0	0	0	14744	739	26	3	2497	3	SLITRK3	3	164908179	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	7747470	164908179	33114251	75	35823										
GHSR	2693	broad.mit.edu	37	chr3	172166131	172166131	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gcccagcgagtcgttgccggGggaagcatcccagtccaggt	15	13	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:172166131G>A	uc003fib.1	-	1	73	c.73C>T	c.(73-75)CCC>TCC	p.P25S	GHSR_uc011bpv.1_Missense_Mutation_p.P25S	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	25	Extracellular (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)			TCGTTGCCGGGGGAAGCATCC	0.682													9	46	---	---	---	---	PASS	A	172166131	A	A	172166131	3	1	96	1	0	0	0	0	1	0	0	0	6375	1232	43	3	1109	3	GHSR	3	172166131	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	7257952	172166131	25856299	76	35824										
NLGN1	22871	broad.mit.edu	37	chr3	173993318	173993318	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttggagcaattcaaccaaagGtattatgcaaggttgcaaat	9	6	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:173993318G>T	uc003fio.1	+	5	1282	c.859_splice	c.e5+1	p.G287_splice	NLGN1_uc010hww.1_Splice_Site_p.G327_splice|NLGN1_uc003fip.1_Splice_Site_p.G287_splice	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1						calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TCAACCAAAGGTATTATGCAA	0.413													66	87	---	---	---	---	PASS	T	173993318	T	T	173993318	5	4	96	1	0	0	0	0	0	0	1	0	10461	1275	44	3	870	3	NLGN1	3	173993318	Splice_Site	SNP	G	TCGA-43-2578-01A-01D-1522-08	1827187	173993318	24029112	77	35825										
NLGN1	22871	broad.mit.edu	37	chr3	173998935	173998935	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctatgaggaggtcacctgatGatgttcccttaatgacaccc	9	11	1	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:173998935G>T	uc003fio.1	+	7	2737	c.2314G>T	c.(2314-2316)GAT>TAT	p.D772Y	NLGN1_uc003fip.1_Missense_Mutation_p.D772Y	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	789	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			GTCACCTGATGATGTTCCCTT	0.453													95	211	---	---	---	---	PASS	T	173998935	T	T	173998935	3	4	96	1	0	0	0	0	1	0	0	0	10461	1290	45	2	2332	2	NLGN1	3	173998935	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	5617	173998935	24023495	78	35826										
EPHB3	2049	broad.mit.edu	37	chr3	184297702	184297702	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctgagttcatggaaaactgcGccctggactccttcctccgg	10	14	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:184297702G>T	uc003foz.2	+	11	2589	c.2152G>T	c.(2152-2154)GCC>TCC	p.A718S		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	718	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			GGAAAACTGCGCCCTGGACTC	0.577													60	175	---	---	---	---	PASS	T	184297702	T	T	184297702	3	4	96	1	0	0	0	0	1	0	0	0	5176	1087	38	1	2194	1	EPHB3	3	184297702	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	10298767	184297702	13724728	79	35827										
C3orf59	151963	broad.mit.edu	37	chr3	192516749	192516749	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gcatgaggctgctggagatgCacttcttcaactgcacctcg	11	12	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:192516749C>T	uc011bsp.1	-	2	1223	c.902G>A	c.(901-903)TGC>TAC	p.C301Y		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	301											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		GCTGGAGATGCACTTCTTCAA	0.542													21	81	---	---	---	---	PASS	T	192516749	T	T	192516749	3	4	96	1	0	0	0	0	1	0	0	0	2237	710	25	3	577	3	C3orf59	3	192516749	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	8219047	192516749	5505681	80	35828										
OPA1	4976	broad.mit.edu	37	chr3	193372726	193372726	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aacatctaccttccagctgcGcagaccatgaattcaggaac	7	13	2	2	rs138114609	by1000genomes	TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:193372726G>T	uc003ftm.2	+	20	2157	c.1923G>T	c.(1921-1923)GCG>GCT	p.A641A	OPA1_uc003ftg.2_Silent_p.A696A|OPA1_uc003fth.2_Silent_p.A660A|OPA1_uc003fti.2_Silent_p.A678A|OPA1_uc003ftj.2_Silent_p.A659A|OPA1_uc003ftk.2_Silent_p.A642A|OPA1_uc003ftl.2_Silent_p.A623A|OPA1_uc003ftn.2_Silent_p.A605A	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1	641	Mitochondrial intermembrane (By similarity).				apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		TTCCAGCTGCGCAGACCATGA	0.373													20	117	---	---	---	---	PASS	T	193372726	T	T	193372726	2	4	96	1	0	0	0	0	0	0	0	1	10871	1074	38	1		1	OPA1	3	193372726	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	855977	193372726	4649704	81	35829										
LSG1	55341	broad.mit.edu	37	chr3	194373764	194373764	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcactaagtgaaggagaatcCctagctgggagatgttcgga	13	7	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:194373764C>G	uc003fui.2	-	8	1182	c.867G>C	c.(865-867)AGG>AGC	p.R289S		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	289					nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		AAGGAGAATCCCTAGCTGGGA	0.478													35	223	---	---	---	---	PASS	G	194373764	G	G	194373764	3	3	96	1	0	0	0	0	1	0	0	0	9049	622	22	4	1137	4	LSG1	3	194373764	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	1001038	194373764	3648666	82	35830										
MUC4	4585	broad.mit.edu	37	chr3	195481244	195481244	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcacacttgcagccagccacCtggaggagggttgccgatca	12	13	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:195481244C>A	uc011bto.1	-	20	15245	c.14785_splice	c.e20-1	p.V4929_splice	MUC4_uc010hzq.2_5'Flank|MUC4_uc003fuz.2_Splice_Site_p.V655_splice|MUC4_uc003fva.2_Splice_Site_p.V537_splice|MUC4_uc003fvb.2_Splice_Site_p.V573_splice|MUC4_uc003fvc.2_Intron|MUC4_uc003fvd.2_Intron|MUC4_uc003fve.2_Splice_Site_p.V573_splice|MUC4_uc010hzr.2_Intron|MUC4_uc011btf.1_Splice_Site_p.V537_splice|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Splice_Site_p.V621_splice|MUC4_uc011bti.1_Splice_Site_p.V621_splice|MUC4_uc011btj.1_Splice_Site_p.V798_splice|MUC4_uc011btk.1_Splice_Site_p.V537_splice|MUC4_uc011btl.1_Splice_Site_p.V566_splice|MUC4_uc011btm.1_Splice_Site_p.V746_splice|MUC4_uc011btn.1_Splice_Site_p.V537_splice|MUC4_uc003fvo.2_Splice_Site_p.V821_splice|MUC4_uc003fvp.2_Splice_Site_p.V770_splice	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a						cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGCCAGCCACCTGGAGGAGGG	0.647													11	70	---	---	---	---	PASS	A	195481244	A	A	195481244	5	1	96	1	0	0	0	0	0	0	1	0	9978	695	24	3	1098	3	MUC4	3	195481244	Splice_Site	SNP	C	TCGA-43-2578-01A-01D-1522-08	1107480	195481244	2541186	83	35831										
IQCG	84223	broad.mit.edu	37	chr3	197640840	197640840	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cggtattggttttcatgtagCgattctccaagttggatttt	10	6	2	0	rs141338847		TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr3:197640840C>A	uc003fyo.2	-	7	946	c.800G>T	c.(799-801)CGC>CTC	p.R267L	IQCG_uc003fyn.2_Missense_Mutation_p.R169L|IQCG_uc003fyp.2_Missense_Mutation_p.R267L|IQCG_uc003fyq.3_Missense_Mutation_p.R267L|IQCG_uc003fym.2_5'Flank	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	267											0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;7.19e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.149)		TTTCATGTAGCGATTCTCCAA	0.443													167	424	---	---	---	---	PASS	A	197640840	A	A	197640840	3	1	96	1	0	0	0	0	1	0	0	0	7810	768	27	1	551	1	IQCG	3	197640840	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	2159596	197640840	381590	84	35832										
LDB2	9079	broad.mit.edu	37	chr4	16504392	16504392	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcctcctcgtcgtccatgccGttggccgcatcatattgcgt	9	15	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr4:16504392G>T	uc003goz.2	-	8	1312	c.996C>A	c.(994-996)AAC>AAA	p.N332K	LDB2_uc003gpa.2_3'UTR|LDB2_uc003gpb.2_Missense_Mutation_p.N330K|LDB2_uc011bxh.1_Missense_Mutation_p.N304K|LDB2_uc010iee.2_3'UTR|LDB2_uc003goy.2_Missense_Mutation_p.N207K|LDB2_uc011bxi.1_3'UTR	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	332	LIM-binding domain (LID) (By similarity).						LIM domain binding|transcription cofactor activity				0						CGTCCATGCCGTTGGCCGCAT	0.522													118	139	---	---	---	---	PASS	T	16504392	T	T	16504392	3	4	96	1	0	0	0	0	1	0	0	0	8696	1136	40	1	129	1	LDB2	4	16504392	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08		16504392	174649884	85	35833										
CORIN	10699	broad.mit.edu	37	chr4	47809040	47809040	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctgagagcagccattgcccaTgttattgtcatcagctctca	8	12	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr4:47809040T>C	uc003gxm.2	-	2	181	c.88A>G	c.(88-90)ATG>GTG	p.M30V	CORIN_uc011bzg.1_Missense_Mutation_p.M30V|CORIN_uc011bzh.1_Missense_Mutation_p.M30V|CORIN_uc011bzi.1_Missense_Mutation_p.M30V|CORIN_uc003gxn.3_Missense_Mutation_p.M30V	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	30	Cytoplasmic (Potential).				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						CCATTGCCCATGTTATTGTCA	0.433													3	41	---	---	---	---	PASS	C	47809040	C	C	47809040	3	2	96	1	0	0	0	0	1	0	0	0	3752	1464	51	5	3124	5	CORIN	4	47809040	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	31304648	47809040	143345236	86	35834										
UGT2B11	10720	broad.mit.edu	37	chr4	70078389	70078389	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aaaactccaggagtttcgcaTaagccatatgtcagcttttc	7	10	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr4:70078389T>G	uc003heh.2	-	2	781	c.772A>C	c.(772-774)ATG>CTG	p.M258L	uc003hei.1_Intron	NM_001073	NP_001064	O75310	UDB11_HUMAN	UDP glucuronosyltransferase 2 family,	258					estrogen metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3						GAGTTTCGCATAAGCCATATG	0.393													12	213	---	---	---	---	PASS	G	70078389	G	G	70078389	3	3	96	1	0	0	0	0	1	0	0	0	16954	1406	49	5	837	5	UGT2B11	4	70078389	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	22269349	70078389	121075887	87	35835										
MEPE	56955	broad.mit.edu	37	chr4	88766576	88766576	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	taatcccagcaagtatgaatTatgctaaagcacactcgaag	7	9	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr4:88766576T>C	uc003hqy.2	+	4	595	c.556T>C	c.(556-558)TAT>CAT	p.Y186H	MEPE_uc010ikn.2_Missense_Mutation_p.Y73H	NM_020203	NP_064588	Q9NQ76	MEPE_HUMAN	matrix, extracellular phosphoglycoprotein with	186					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			ovary(1)|lung(1)|skin(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000432)		AAGTATGAATTATGCTAAAGC	0.408													49	62	---	---	---	---	PASS	C	88766576	C	C	88766576	3	2	96	1	0	0	0	0	1	0	0	0	9478	1754	61	5	566	5	MEPE	4	88766576	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	18688187	88766576	102387700	88	35836										
UNC5C	8633	broad.mit.edu	37	chr4	96171649	96171649	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gccactcaccatagactatgAcagtggcagttgtacttttc	8	11	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr4:96171649A>T	uc003htp.1	-	5	918	c.764T>A	c.(763-765)GTC>GAC	p.V255D	UNC5C_uc010ilc.1_Missense_Mutation_p.V255D|UNC5C_uc003htq.2_Missense_Mutation_p.V255D	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	255	Extracellular (Potential).|Ig-like C2-type.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		ATAGACTATGACAGTGGCAGT	0.433													44	52	---	---	---	---	PASS	T	96171649	T	T	96171649	3	4	96	1	0	0	0	0	1	0	0	0	16990	275	10	5	2079	5	UNC5C	4	96171649	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	7405073	96171649	94982627	89	35837										
KIAA1109	84162	broad.mit.edu	37	chr4	123264619	123264619	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcgacatagtagtagtcagtCagacctgaccagttccagca	9	11	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr4:123264619C>T	uc003ieh.2	+	71	12452	c.12407C>T	c.(12406-12408)TCA>TTA	p.S4136L	KIAA1109_uc003iem.2_Missense_Mutation_p.S492L|KIAA1109_uc003ien.2_Missense_Mutation_p.S70L	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4136	Ser-rich.				regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGTAGTCAGTCAGACCTGACC	0.438													64	64	---	---	---	---	PASS	T	123264619	T	T	123264619	3	4	96	1	0	0	0	0	1	0	0	0	8208	838	29	2	12689	2	KIAA1109	4	123264619	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	27092970	123264619	67889657	90	35838										
MARCH6	10299	broad.mit.edu	37	chr5	10403543	10403543	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgtttgatgctactctgaaaGatcgagaactgagctttcag	10	7	2	5			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr5:10403543G>C	uc003jet.1	+	15	1405	c.1222G>C	c.(1222-1224)GAT>CAT	p.D408H	MARCH6_uc011cmu.1_Missense_Mutation_p.D360H|MARCH6_uc003jeu.1_Missense_Mutation_p.D106H|MARCH6_uc011cmv.1_Missense_Mutation_p.D303H	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	408	Extracellular (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						TACTCTGAAAGATCGAGAACT	0.423													9	203	---	---	---	---	PASS	C	10403543	C	C	10403543	3	2	96	1	0	0	0	0	1	0	0	0	9305	942	33	2	1280	2	MARCH6	5	10403543	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08		10403543	170511717	91	35839										
TRIO	7204	broad.mit.edu	37	chr5	14485270	14485270	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gacgtggtagagaccttcatTttgcattcatctagtccaag	9	9	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr5:14485270T>G	uc003jff.2	+	47	6756	c.6750T>G	c.(6748-6750)ATT>ATG	p.I2250M	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Missense_Mutation_p.I1899M	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2250	PH 2.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					AGACCTTCATTTTGCATTCAT	0.408													67	86	---	---	---	---	PASS	G	14485270	G	G	14485270	3	3	96	1	0	0	0	0	1	0	0	0	16549	1829	64	5	6936	5	TRIO	5	14485270	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	4081727	14485270	166429990	92	35840										
HCN1	348980	broad.mit.edu	37	chr5	45396618	45396618	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcttgatactgccgcctcgaAgaatccagagactggattaa	9	10	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr5:45396618A>G	uc003jok.2	-	4	1231	c.1206T>C	c.(1204-1206)TCT>TCC	p.S402S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	402	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GCCGCCTCGAAGAATCCAGAG	0.453													21	24	---	---	---	---	PASS	G	45396618	G	G	45396618	2	3	96	1	0	0	0	0	0	0	0	1	6996	59	3	5		5	HCN1	5	45396618	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	30911348	45396618	135518642	93	35841										
ITGA2	3673	broad.mit.edu	37	chr5	52358644	52358644	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctattttggtagtgtgctgtGttcagttgatgtggataaag	13	3	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr5:52358644G>C	uc003joy.2	+	13	1630	c.1487G>C	c.(1486-1488)TGT>TCT	p.C496S	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Missense_Mutation_p.C420S|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	496	FG-GAP 5.|Extracellular (Potential).				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				AGTGTGCTGTGTTCAGTTGAT	0.378													94	141	---	---	---	---	PASS	C	52358644	C	C	52358644	3	2	96	1	0	0	0	0	1	0	0	0	7875	1377	48	4	1537	4	ITGA2	5	52358644	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	6962026	52358644	128556616	94	35842										
TMEM161B	153396	broad.mit.edu	37	chr5	87492090	87492090	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gcttgtagaaaagaggcaagCagcaatccaccaggtcagaa	11	9	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr5:87492090C>G	uc003kjc.2	-	12	1527	c.1402G>C	c.(1402-1404)GCT>CCT	p.A468P	TMEM161B_uc011cty.1_Missense_Mutation_p.A457P|TMEM161B_uc010jax.2_RNA|TMEM161B_uc011ctx.1_Missense_Mutation_p.A259P	NM_153354	NP_699185	Q8NDZ6	T161B_HUMAN	transmembrane protein 161B	468	Helical; (Potential).					integral to membrane				skin(2)	2		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)		AAGAGGCAAGCAGCAATCCAC	0.388													24	39	---	---	---	---	PASS	G	87492090	G	G	87492090	3	3	96	1	0	0	0	0	1	0	0	0	16074	710	25	4	65	4	TMEM161B	5	87492090	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	35133446	87492090	93423170	95	35843										
WNT8A	7478	broad.mit.edu	37	chr5	137426719	137426719	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gagcaagtattactgcgcacGctccccaggcagtgcccagt	11	14	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr5:137426719G>C	uc003lcd.1	+	6	1018	c.1013G>C	c.(1012-1014)CGC>CCC	p.R338P	BRD8_uc003lcc.1_Intron|WNT8A_uc011cyj.1_Intron|WNT8A_uc011cyk.1_Missense_Mutation_p.R356P	NM_058244	NP_490645	Q9H1J5	WNT8A_HUMAN	wingless-type MMTV integration site family,	338					brain segmentation|canonical Wnt receptor signaling pathway involved in neural crest cell differentiation|cell migration involved in gastrulation|dorsal/ventral pattern formation|ectoderm development|endoderm development|eye development|hindbrain development|mesodermal cell fate commitment|negative regulation of Wnt receptor signaling pathway|neural crest cell fate commitment|neural plate pattern specification|notochord development|palate development|polarity specification of anterior/posterior axis|polarity specification of proximal/distal axis|positive regulation of fibroblast growth factor receptor signaling pathway|regulation of transcription involved in anterior/posterior axis specification|response to retinoic acid|somitogenesis|spinal cord anterior/posterior patterning|tail morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			ovary(1)|lung(1)|breast(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TACTGCGCACGCTCCCCAGGC	0.507													34	72	---	---	---	---	PASS	C	137426719	C	C	137426719	3	2	96	1	0	0	0	0	1	0	0	0	17393	1087	38	4	1035	4	WNT8A	5	137426719	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	49934629	137426719	43488541	96	35844										
PCDHGA3	56112	broad.mit.edu	37	chr5	140724612	140724612	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccaagattctagtcacggttCtggatgtgaatgacaatgct	10	8	3	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr5:140724612C>G	uc003ljm.1	+	1	1012	c.1012C>G	c.(1012-1014)CTG>GTG	p.L338V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Missense_Mutation_p.L98V|PCDHGA3_uc011dap.1_Missense_Mutation_p.L338V	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	338	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTCACGGTTCTGGATGTGAA	0.423													49	65	---	---	---	---	PASS	G	140724612	G	G	140724612	3	3	96	1	0	0	0	0	1	0	0	0	11555	912	32	2	1014	2	PCDHGA3	5	140724612	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	3297893	140724612	40190648	97	35845										
TCOF1	6949	broad.mit.edu	37	chr5	149754232	149754232	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agctgcctcagcccctgccaAggagtcccccaggaaaggag	12	15	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr5:149754232A>T	uc003lry.2	+	9	1244	c.1136A>T	c.(1135-1137)AAG>ATG	p.K379M	TCOF1_uc003lrw.2_Missense_Mutation_p.K379M|TCOF1_uc011dch.1_Missense_Mutation_p.K379M|TCOF1_uc003lrz.2_Missense_Mutation_p.K379M|TCOF1_uc003lrx.2_Missense_Mutation_p.K302M|TCOF1_uc003lsa.2_Missense_Mutation_p.K302M|TCOF1_uc011dci.1_5'Flank	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	379					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCCCCTGCCAAGGAGTCCCCC	0.652													10	32	---	---	---	---	PASS	T	149754232	T	T	149754232	3	4	96	1	0	0	0	0	1	0	0	0	15705	72	3	5	1170	5	TCOF1	5	149754232	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	9029620	149754232	31161028	98	35846										
RARS	5917	broad.mit.edu	37	chr5	167920938	167920938	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agaaagttaatccaagagaaAttgctgaaaacattaccaaa	6	6	0	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr5:167920938A>G	uc003lzx.2	+	4	450	c.409A>G	c.(409-411)ATT>GTT	p.I137V	RARS_uc011deo.1_Intron	NM_002887	NP_002878	P54136	SYRC_HUMAN	arginyl-tRNA synthetase	137				REI -> GEF (in Ref. 1; AAB35627).	arginyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|skin(1)	3	Renal(175;0.000159)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0208)|all_neural(177;0.0227)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0693)|Epithelial(171;0.131)|OV - Ovarian serous cystadenocarcinoma(192;0.156)		TCCAAGAGAAATTGCTGAAAA	0.338													27	42	---	---	---	---	PASS	G	167920938	G	G	167920938	3	3	96	1	0	0	0	0	1	0	0	0	13058	101	4	5	423	5	RARS	5	167920938	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	18166706	167920938	12994322	99	35847										
HIST1H4C	8364	broad.mit.edu	37	chr6	26104417	26104417	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggagcacgccaagcgcaaaaCtgtcacagccatggatgtag	12	11	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:26104417C>T	uc003ngi.2	+	1	242	c.242C>T	c.(241-243)ACT>ATT	p.T81I		NM_003542	NP_003533	P62805	H4_HUMAN	histone cluster 1, H4c	81					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding				0						AAGCGCAAAACTGTCACAGCC	0.502													79	45	---	---	---	---	PASS	T	26104417	T	T	26104417	3	4	96	1	0	0	0	0	1	0	0	0	7167	565	20	3	244	3	HIST1H4C	6	26104417	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08		26104417	145010650	100	35848										
OR2W1	26692	broad.mit.edu	37	chr6	29012897	29012897	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcatctccatttttggatggTtagagaagccaagcagaata	9	7	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:29012897T>C	uc003nlw.2	-	1	56	c.56A>G	c.(55-57)AAC>AGC	p.N19S		NM_030903	NP_112165	Q9Y3N9	OR2W1_HUMAN	olfactory receptor, family 2, subfamily W,	19	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TTTTGGATGGTTAGAGAAGCC	0.373													62	224	---	---	---	---	PASS	C	29012897	C	C	29012897	3	2	96	1	0	0	0	0	1	0	0	0	11032	1725	60	5	910	5	OR2W1	6	29012897	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	2908480	29012897	142102170	101	35849										
OOEP	441161	broad.mit.edu	37	chr6	74079068	74079068	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tccactgtcagcagggcctgGctcgtccactccatttctgg	10	15	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:74079068G>T	uc003pgu.3	-	2	231	c.231C>A	c.(229-231)AGC>AGA	p.S77R	OOEP_uc003pgv.3_Missense_Mutation_p.S22R	NM_001080507	NP_001073976	A6NGQ2	OOEP_HUMAN	oocyte expressed protein homolog	77	KH; atypical.					cytoplasm					0						GCAGGGCCTGGCTCGTCCACT	0.542													15	10	---	---	---	---	PASS	T	74079068	T	T	74079068	3	4	96	1	0	0	0	0	1	0	0	0	10870	1194	42	3	226	3	OOEP	6	74079068	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	45066171	74079068	97035999	102	35850										
KIAA0776	23376	broad.mit.edu	37	chr6	96986576	96986576	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agcaggtgatgagggcattcAgcaaacaggcctcaactgta	12	9	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:96986576A>T	uc003por.2	+	10	1096	c.1048A>T	c.(1048-1050)AGC>TGC	p.S350C	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	350					negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		GAGGGCATTCAGCAAACAGGC	0.398													77	48	---	---	---	---	PASS	T	96986576	T	T	96986576	3	4	96	1	0	0	0	0	1	0	0	0	8193	188	7	5	1086	5	KIAA0776	6	96986576	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	22907508	96986576	74128491	103	35851										
ASCC3	10973	broad.mit.edu	37	chr6	101075504	101075504	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcatactagccatacgaggaCagtaatgttgacctggaaag	10	8	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:101075504C>A	uc003pqk.2	-	29	4933	c.4604G>T	c.(4603-4605)TGT>TTT	p.C1535F		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1535					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CATACGAGGACAGTAATGTTG	0.403													6	126	---	---	---	---	PASS	A	101075504	A	A	101075504	3	1	96	1	0	0	0	0	1	0	0	0	1033	478	17	3	2060	3	ASCC3	6	101075504	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	4088928	101075504	70039563	104	35852										
SOBP	55084	broad.mit.edu	37	chr6	107824935	107824935	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gttgaattaaaagatggtgaGgatattgaattcaggagcta	12	2	1	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:107824935G>C	uc003prx.2	+	2	675	c.171G>C	c.(169-171)GAG>GAC	p.E57D	SOBP_uc003prw.1_Missense_Mutation_p.E57D	NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	57							metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)		AAGATGGTGAGGATATTGAAT	0.408													104	70	---	---	---	---	PASS	C	107824935	C	C	107824935	3	2	96	1	0	0	0	0	1	0	0	0	14912	991	35	4	177	4	SOBP	6	107824935	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	6749431	107824935	63290132	105	35853										
SMPD2	6610	broad.mit.edu	37	chr6	109763467	109763467	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tggggctgctggtgctccatCtaagtggcatggtgctcaac	14	10	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:109763467C>G	uc003pti.2	+	5	767	c.373C>G	c.(373-375)CTA>GTA	p.L125V	PPIL6_uc003ptg.3_5'Flank|PPIL6_uc010kdo.2_5'Flank|PPIL6_uc010kdp.2_5'Flank|PPIL6_uc003pth.1_5'Flank	NM_003080	NP_003071	O60906	NSMA_HUMAN	sphingomyelin phosphodiesterase 2, neutral	125					induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|sphingomyelin metabolic process	integral to plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity				0		all_cancers(87;1.1e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000144)|all_lung(197;0.0221)|Colorectal(196;0.0488)|Lung SC(18;0.0548)		Epithelial(106;0.0137)|all cancers(137;0.0188)|OV - Ovarian serous cystadenocarcinoma(136;0.0228)|BRCA - Breast invasive adenocarcinoma(108;0.0566)		GGTGCTCCATCTAAGTGGCAT	0.572													48	34	---	---	---	---	PASS	G	109763467	G	G	109763467	3	3	96	1	0	0	0	0	1	0	0	0	14805	912	32	2	391	2	SMPD2	6	109763467	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	1938532	109763467	61351600	106	35854										
MED23	9439	broad.mit.edu	37	chr6	131910675	131910675	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agtcacagatgggatccatgTaatttaaatgggtgctacac	10	7	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:131910675T>C	uc003qcs.1	-	28	4043	c.3869A>G	c.(3868-3870)TAC>TGC	p.Y1290C	MED23_uc003qcq.2_Missense_Mutation_p.Y1296C|MED23_uc003qcr.1_Missense_Mutation_p.Y145C	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	1290					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		GGGATCCATGTAATTTAAATG	0.328													57	123	---	---	---	---	PASS	C	131910675	C	C	131910675	3	2	96	1	0	0	0	0	1	0	0	0	9441	1638	57	5	252	5	MED23	6	131910675	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	22147208	131910675	39204392	107	35855										
MYB	4602	broad.mit.edu	37	chr6	135507133	135507133	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtctggaaagcgtcacttggGgaaaacaaggtggacccggg	16	8	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:135507133G>C	uc003qfc.2	+	2	315	c.116G>C	c.(115-117)GGG>GCG	p.G39A	MYB_uc003qfh.2_Missense_Mutation_p.G39A|MYB_uc003qfi.2_Missense_Mutation_p.G39A|MYB_uc010kgi.2_Missense_Mutation_p.G39A|MYB_uc003qfq.2_Missense_Mutation_p.G39A|MYB_uc010kgj.2_Missense_Mutation_p.G39A|MYB_uc003qfo.2_Missense_Mutation_p.G39A|MYB_uc003qfu.2_Missense_Mutation_p.G39A|MYB_uc003qfl.2_RNA|MYB_uc003qfv.2_RNA|MYB_uc003qfz.2_RNA|MYB_uc003qfx.2_RNA|MYB_uc003qga.2_RNA|MYB_uc003qgb.2_RNA|MYB_uc010kgk.2_RNA|MYB_uc003qfd.2_RNA|MYB_uc003qfe.2_RNA|MYB_uc003qfg.2_RNA|MYB_uc003qff.2_RNA|MYB_uc003qfj.2_RNA|MYB_uc003qfm.2_RNA|MYB_uc003qfp.2_RNA|MYB_uc003qfn.2_RNA|MYB_uc003qfk.2_RNA|MYB_uc003qfr.2_RNA|MYB_uc003qfs.2_5'UTR|MYB_uc003qft.2_RNA|MYB_uc003qfw.2_5'UTR|MYB_uc003qfy.2_RNA|MYB_uc003qgc.2_RNA|MYB_uc003qfb.1_Missense_Mutation_p.G39A|MYB_uc003qgd.1_5'Flank	NM_005375	NP_005366	P10242	MYB_HUMAN	v-myb myeloblastosis viral oncogene homolog	39	HTH myb-type 1.				blood coagulation|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone H3-K4 methylation|positive regulation of histone H3-K9 methylation|positive regulation of T-helper cell differentiation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear matrix	DNA binding|protein binding			lung(1)	1	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)		CGTCACTTGGGGAAAACAAGG	0.398			T	NFIB	adenoid cystic carcinoma								6	286	---	---	---	---	PASS	C	135507133	C	C	135507133	3	2	96	1	0	0	0	0	1	0	0	0	10007	1232	43	4	122	4	MYB	6	135507133	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	3596458	135507133	35607934	108	35856										
BCLAF1	9774	broad.mit.edu	37	chr6	136597502	136597502	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aacttttgttttccagactcTttatcactgaagtaatctag	5	8	3	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:136597502T>C	uc003qgx.1	-	5	1414	c.1161A>G	c.(1159-1161)AAA>AAG	p.K387K	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Silent_p.K385K|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.K385K	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	387					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TTCCAGACTCTTTATCACTGA	0.438													102	815	---	---	---	---	PASS	C	136597502	C	C	136597502	2	2	96	1	0	0	0	0	0	0	0	1	1383	1606	56	5		5	BCLAF1	6	136597502	Silent	SNP	T	TCGA-43-2578-01A-01D-1522-08	1090369	136597502	34517565	109	35857										
SYNE1	23345	broad.mit.edu	37	chr6	152673301	152673301	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	attcctttgctaaatgaagaCctttttccagcgtcatgtgt	7	9	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:152673301C>A	uc010kiw.2	-	70	12043	c.11441G>T	c.(11440-11442)GGT>GTT	p.G3814V	SYNE1_uc003qot.3_Missense_Mutation_p.G3799V|SYNE1_uc003qou.3_Missense_Mutation_p.G3814V|SYNE1_uc010kja.1_Missense_Mutation_p.G519V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3814	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)		TAAATGAAGACCTTTTTCCAG	0.438										HNSCC(10;0.0054)			234	353	---	---	---	---	PASS	A	152673301	A	A	152673301	3	1	96	1	0	0	0	0	1	0	0	0	15442	507	18	3	15333	3	SYNE1	6	152673301	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	16075799	152673301	18441766	110	35858										
SYNE1	23345	broad.mit.edu	37	chr6	152762406	152762406	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcccattttcttaatgtgacCtaaatttgaaaaaataaaca	3	7	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:152762406C>A	uc010kiw.2	-	32	4611	c.4009_splice	c.e32-1	p.V1337_splice	SYNE1_uc003qot.3_Splice_Site_p.V1344_splice|SYNE1_uc003qou.3_Splice_Site_p.V1337_splice|SYNE1_uc010kjb.1_Splice_Site_p.V1320_splice|SYNE1_uc003qow.2_Splice_Site_p.V632_splice|SYNE1_uc003qox.1_Splice_Site_p.V853_splice	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1						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)		TTAATGTGACCTAAATTTGAA	0.318										HNSCC(10;0.0054)			10	42	---	---	---	---	PASS	A	152762406	A	A	152762406	5	1	96	1	0	0	0	0	0	0	1	0	15442	695	24	3	22918	3	SYNE1	6	152762406	Splice_Site	SNP	C	TCGA-43-2578-01A-01D-1522-08	89105	152762406	18352661	111	35859										
NOX3	50508	broad.mit.edu	37	chr6	155761239	155761239	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	atcaccagaccggtgacgccTgctattgtccttagcaattc	8	13	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:155761239T>G	uc003qqm.2	-	6	622	c.519A>C	c.(517-519)GCA>GCC	p.A173A		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	173	Ferric oxidoreductase.|Helical; (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		CGGTGACGCCTGCTATTGTCC	0.368													73	117	---	---	---	---	PASS	G	155761239	G	G	155761239	2	3	96	1	0	0	0	0	0	0	0	1	10557	1567	55	5		5	NOX3	6	155761239	Silent	SNP	T	TCGA-43-2578-01A-01D-1522-08	2998833	155761239	15353828	112	35860										
ARID1B	57492	broad.mit.edu	37	chr6	157521979	157521979	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tactcgggcccggaccgcagGcccatccagggccagtaccc	12	18	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr6:157521979G>A	uc003qqn.2	+	18	4349	c.4197G>A	c.(4195-4197)AGG>AGA	p.R1399R	ARID1B_uc003qqo.2_Silent_p.R1359R|ARID1B_uc003qqp.2_Silent_p.R1346R	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1404					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		CGGACCGCAGGCCCATCCAGG	0.637													38	96	---	---	---	---	PASS	A	157521979	A	A	157521979	2	1	96	1	0	0	0	0	0	0	0	1	914	1194	42	3		3	ARID1B	6	157521979	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	1760740	157521979	13593088	113	35861										
VPS41	27072	broad.mit.edu	37	chr7	38785213	38785213	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctgttgacagatctcaagagCcttcaattaaagcagggtaa	9	8	2	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:38785213C>A	uc003tgy.2	-	23	1953	c.1927G>T	c.(1927-1929)GCT>TCT	p.A643S	VPS41_uc003tgz.2_Missense_Mutation_p.A618S|VPS41_uc010kxn.2_Missense_Mutation_p.A554S|VPS41_uc003tgx.2_RNA	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	643	Clathrin.				Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						ATCTCAAGAGCCTTCAATTAA	0.333													66	97	---	---	---	---	PASS	A	38785213	A	A	38785213	3	1	96	1	0	0	0	0	1	0	0	0	17207	753	26	3	665	3	VPS41	7	38785213	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08		38785213	120353450	114	35862										
NPC1L1	29881	broad.mit.edu	37	chr7	44571705	44571705	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acctcgagtgatccagtgcaGcaggaagggggcataagcct	14	10	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:44571705G>A	uc003tlb.2	-	9	2577	c.2521C>T	c.(2521-2523)CTG>TTG	p.L841L	NPC1L1_uc003tlc.2_Silent_p.L841L|NPC1L1_uc011kbw.1_Silent_p.L841L	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	841	Cytoplasmic (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	ATCCAGTGCAGCAGGAAGGGG	0.642													59	52	---	---	---	---	PASS	A	44571705	A	A	44571705	2	1	96	1	0	0	0	0	0	0	0	1	10571	962	34	3		3	NPC1L1	7	44571705	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	5786492	44571705	114566958	115	35863										
UPP1	7378	broad.mit.edu	37	chr7	48147045	48147045	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agcctatgcagccggcgtccGcaatatcgagatggagtcct	12	12	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:48147045G>T	uc003toj.2	+	9	1263	c.734G>T	c.(733-735)CGC>CTC	p.R245L	UPP1_uc003tok.2_Missense_Mutation_p.R245L|UPP1_uc003tol.2_Missense_Mutation_p.R245L|UPP1_uc011kch.1_Missense_Mutation_p.R38L|UPP1_uc003ton.2_Missense_Mutation_p.R108L|UPP1_uc003too.2_Missense_Mutation_p.R108L	NM_181597	NP_853628	Q16831	UPP1_HUMAN	uridine phosphorylase 1	245					nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage	cytosol	uridine phosphorylase activity				0						GCCGGCGTCCGCAATATCGAG	0.632													29	29	---	---	---	---	PASS	T	48147045	T	T	48147045	3	4	96	1	0	0	0	0	1	0	0	0	17009	1087	38	1	756	1	UPP1	7	48147045	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	3575340	48147045	110991618	116	35864										
PPP1R9A	55607	broad.mit.edu	37	chr7	94540121	94540121	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aatgaatactcagtgactggGcattatcccttgaatttacc	7	9	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:94540121G>T	uc003unp.2	+	2	978	c.696G>T	c.(694-696)GGG>GGT	p.G232G	PPP1R9A_uc010lfj.2_Silent_p.G232G|PPP1R9A_uc011kif.1_Silent_p.G232G|PPP1R9A_uc003unq.2_Silent_p.G232G|PPP1R9A_uc011kig.1_Silent_p.G232G	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	232						cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			CAGTGACTGGGCATTATCCCT	0.433										HNSCC(28;0.073)			40	31	---	---	---	---	PASS	T	94540121	T	T	94540121	2	4	96	1	0	0	0	0	0	0	0	1	12378	1190	42	3		3	PPP1R9A	7	94540121	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	46393076	94540121	64598542	117	35865										
TRRAP	8295	broad.mit.edu	37	chr7	98524818	98524818	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aaaagaccatccccaatgttAtcatctcacatcgctacaaa	3	13	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:98524818A>G	uc003upp.2	+	23	3213	c.3004A>G	c.(3004-3006)ATC>GTC	p.I1002V	TRRAP_uc011kis.1_Missense_Mutation_p.I1002V|TRRAP_uc003upr.2_Missense_Mutation_p.I694V	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1002					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CCCCAATGTTATCATCTCACA	0.502													7	110	---	---	---	---	PASS	G	98524818	G	G	98524818	3	3	96	1	0	0	0	0	1	0	0	0	16598	449	16	5	3090	5	TRRAP	7	98524818	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	3984697	98524818	60613845	118	35866										
PIK3CG	5294	broad.mit.edu	37	chr7	106508783	106508783	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gccaagaagaaatctctgatGgatattcccgaaagccaaag	9	9	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:106508783G>T	uc003vdv.3	+	2	862	c.777G>T	c.(775-777)ATG>ATT	p.M259I	PIK3CG_uc003vdu.2_Missense_Mutation_p.M259I|PIK3CG_uc003vdw.2_Missense_Mutation_p.M259I	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	259					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						AATCTCTGATGGATATTCCCG	0.562													100	59	---	---	---	---	PASS	T	106508783	T	T	106508783	3	4	96	1	0	0	0	0	1	0	0	0	11916	1348	47	3	779	3	PIK3CG	7	106508783	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	7983965	106508783	52629880	119	35867										
PIK3CG	5294	broad.mit.edu	37	chr7	106509060	106509060	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	accacgagagtgtgttcaccGtgtccctgtgggactgcgac	13	12	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:106509060G>A	uc003vdv.3	+	2	1139	c.1054G>A	c.(1054-1056)GTG>ATG	p.V352M	PIK3CG_uc003vdu.2_Missense_Mutation_p.V352M|PIK3CG_uc003vdw.2_Missense_Mutation_p.V352M	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	352					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						TGTGTTCACCGTGTCCCTGTG	0.577													5	184	---	---	---	---	PASS	A	106509060	A	A	106509060	3	1	96	1	0	0	0	0	1	0	0	0	11916	1145	40	1	1056	1	PIK3CG	7	106509060	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	277	106509060	52629603	120	35868										
ST7	7982	broad.mit.edu	37	chr7	116759660	116759660	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aatacggaacttcattcattGaacaagtctcagtaagccac	6	10	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:116759660G>A	uc003vin.2	+	3	494	c.280G>A	c.(280-282)GAA>AAA	p.E94K	ST7_uc011knl.1_Missense_Mutation_p.E94K|ST7_uc003vio.2_Missense_Mutation_p.E94K|ST7_uc003viq.2_Missense_Mutation_p.E48K|ST7_uc011knm.1_Missense_Mutation_p.E51K|ST7_uc003vir.2_Missense_Mutation_p.E42K|ST7OT2_uc003viu.2_Intron|ST7_uc011knn.1_Missense_Mutation_p.E42K|ST7OT2_uc003viw.2_Intron|ST7_uc003vix.1_5'UTR	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b	94						integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		TTCATTCATTGAACAAGTCTC	0.408													99	167	---	---	---	---	PASS	A	116759660	A	A	116759660	3	1	96	1	0	0	0	0	1	0	0	0	15228	1291	45	2	290	2	ST7	7	116759660	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	10250600	116759660	42379003	121	35869										
GRM8	2918	broad.mit.edu	37	chr7	126410117	126410117	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	atcccgagcaattcgctccaGccctgcaaaataaaaaagta	6	12	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:126410117G>T	uc003vlr.2	-	6	1470	c.1159C>A	c.(1159-1161)CTG>ATG	p.L387M	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.L387M|GRM8_uc010lkz.1_RNA|GRM8_uc003vlu.1_Missense_Mutation_p.L108M	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	387	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	ATTCGCTCCAGCCCTGCAAAA	0.378										HNSCC(24;0.065)			21	46	---	---	---	---	PASS	T	126410117	T	T	126410117	3	4	96	1	0	0	0	0	1	0	0	0	6803	962	34	3	1637	3	GRM8	7	126410117	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	9650457	126410117	32728546	122	35870										
PLXNA4	91584	broad.mit.edu	37	chr7	132192291	132192291	+	Missense_Mutation	SNP	C	A	A													0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gctgcaggggatgtccttcaCcttgagccaggccaggtcca							TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:132192291C>A	uc003vra.3	-	2	1391	c.1162G>T	c.(1162-1164)GTG>TTG	p.V388L	PLXNA4_uc003vrc.2_Missense_Mutation_p.V388L|PLXNA4_uc003vrb.2_Missense_Mutation_p.V388L	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	388	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						ATGTCCTTCACCTTGAGCCAG	0.602													29	81	---	---	---	---	PASS	A	132192291	A	A	132192291	3	1	96	1	0	0	0	0	1	0	0	0	12122	507	18	3	4960	3	PLXNA4	7	132192291	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	5782174	132192291	26946372	123	35871	675	2								
PLXNA4	91584	broad.mit.edu	37	chr7	132192292	132192292	+	Missense_Mutation	SNP	C	A	A													0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctgcaggggatgtccttcacCttgagccaggccaggtccag							TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:132192292C>A	uc003vra.3	-	2	1390	c.1161G>T	c.(1159-1161)AAG>AAT	p.K387N	PLXNA4_uc003vrc.2_Missense_Mutation_p.K387N|PLXNA4_uc003vrb.2_Missense_Mutation_p.K387N	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	387	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TGTCCTTCACCTTGAGCCAGG	0.602													30	79	---	---	---	---	PASS	A	132192292	A	A	132192292	3	1	96	1	0	0	0	0	1	0	0	0	12122	680	24	3	4961	3	PLXNA4	7	132192292	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	1	132192292	26946371	124	35872	675	2								
TAS2R41	259287	broad.mit.edu	37	chr7	143175315	143175315	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gattgctaacatcacacactCcaccttcctgtggctgaagt	7	13	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:143175315C>A	uc003wdc.1	+	1	350	c.350C>A	c.(349-351)TCC>TAC	p.S117Y	uc003wda.2_Intron	NM_176883	NP_795364	P59536	T2R41_HUMAN	taste receptor, type 2, member 41	117	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			pancreas(1)|skin(1)	2	Melanoma(164;0.15)					ATCACACACTCCACCTTCCTG	0.522													53	73	---	---	---	---	PASS	A	143175315	A	A	143175315	3	1	96	1	0	0	0	0	1	0	0	0	15576	855	30	2	352	2	TAS2R41	7	143175315	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	10983023	143175315	15963348	125	35873										
NOBOX	135935	broad.mit.edu	37	chr7	144097350	144097350	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgggcaatctctcggcgtttAtcactgtcaggatagtggtc	12	9	3	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:144097350A>G	uc011kue.1	-	5	900	c.900T>C	c.(898-900)GAT>GAC	p.D300D		NM_001080413	NP_001073882	O60393	NOBOX_HUMAN	NOBOX oogenesis homeobox	300	Homeobox.				cell differentiation|oogenesis	nucleus	sequence-specific DNA binding			ovary(1)	1	Melanoma(164;0.14)					CTCGGCGTTTATCACTGTCAG	0.562													46	77	---	---	---	---	PASS	G	144097350	G	G	144097350	2	3	96	1	0	0	0	0	0	0	0	1	10512	446	16	5		5	NOBOX	7	144097350	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	922035	144097350	15041313	126	35874										
GIMAP5	55340	broad.mit.edu	37	chr7	150439822	150439822	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctgtggaggagcagaggcagCagcaggcagagctcctggct	17	10	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr7:150439822C>A	uc003whr.1	+	3	947	c.595C>A	c.(595-597)CAG>AAG	p.Q199K	GIMAP5_uc010lpu.2_Missense_Mutation_p.Q57K	NM_018384	NP_060854	Q96F15	GIMA5_HUMAN	GTPase, IMAP family member 5	199	Cytoplasmic (Potential).					integral to membrane|mitochondrial outer membrane	GTP binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCAGAGGCAGCAGCAGGCAGA	0.587													50	79	---	---	---	---	PASS	A	150439822	A	A	150439822	3	1	96	1	0	0	0	0	1	0	0	0	6382	711	25	3	601	3	GIMAP5	7	150439822	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	6342472	150439822	8698841	127	35875										
MSR1	4481	broad.mit.edu	37	chr8	15967718	15967718	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acacttcattcagccatattGgaccagtacctgcaataatg	6	11	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:15967718G>T	uc003wwz.2	-	10	1430	c.1232C>A	c.(1231-1233)CCA>CAA	p.P411Q	MSR1_uc010lsu.2_Missense_Mutation_p.P429Q|MSR1_uc003wxa.2_Missense_Mutation_p.P348Q	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	411	SRCR.|Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		CAGCCATATTGGACCAGTACC	0.373													41	95	---	---	---	---	PASS	T	15967718	T	T	15967718	3	4	96	1	0	0	0	0	1	0	0	0	9886	1348	47	3	127	3	MSR1	8	15967718	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08		15967718	130396304	128	35876										
UNC5D	137970	broad.mit.edu	37	chr8	35647908	35647908	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	atttcgctacacaaagtagcCcatctgctgtcattttgaac	6	11	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:35647908C>A	uc003xjr.1	+	17	3017	c.2689C>A	c.(2689-2691)CCA>ACA	p.P897T	UNC5D_uc003xjs.1_Missense_Mutation_p.P892T|UNC5D_uc003xju.1_Missense_Mutation_p.P473T	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	897	Death.|Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		ACAAAGTAGCCCATCTGCTGT	0.428													35	403	---	---	---	---	PASS	A	35647908	A	A	35647908	3	1	96	1	0	0	0	0	1	0	0	0	16992	623	22	3	2755	3	UNC5D	8	35647908	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	19680190	35647908	110716114	129	35877										
PRKDC	5591	broad.mit.edu	37	chr8	48746885	48746885	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gggcaaacagcaaggagtcaGatgagggactggtgtggtcg	18	6	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:48746885G>A	uc003xqi.2	-	60	8081	c.8024C>T	c.(8023-8025)TCT>TTT	p.S2675F	PRKDC_uc003xqj.2_Missense_Mutation_p.S2675F|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2675	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CAAGGAGTCAGATGAGGGACT	0.537								NHEJ					126	299	---	---	---	---	PASS	A	48746885	A	A	48746885	3	1	96	1	0	0	0	0	1	0	0	0	12521	942	33	2	4474	2	PRKDC	8	48746885	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	13098977	48746885	97617137	130	35878										
CYP7B1	9420	broad.mit.edu	37	chr8	65517287	65517287	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccatgtaggactggaggaaaGatggctaccaagtctccctt	11	10	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:65517287G>T	uc003xvj.2	-	5	1389	c.1185C>A	c.(1183-1185)ATC>ATA	p.I395I		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	395					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				CTGGAGGAAAGATGGCTACCA	0.463													49	141	---	---	---	---	PASS	T	65517287	T	T	65517287	2	4	96	1	0	0	0	0	0	0	0	1	4197	932	33	2		2	CYP7B1	8	65517287	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	16770402	65517287	80846735	131	35879										
CYP7B1	9420	broad.mit.edu	37	chr8	65528652	65528652	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tttccaagagtatgtccaaaGatttgccttgcaaaaattga	7	7	0	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:65528652G>A	uc003xvj.2	-	3	650	c.446C>T	c.(445-447)TCT>TTT	p.S149F		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	149					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				TATGTCCAAAGATTTGCCTTG	0.368													77	127	---	---	---	---	PASS	A	65528652	A	A	65528652	3	1	96	1	0	0	0	0	1	0	0	0	4197	942	33	2	1090	2	CYP7B1	8	65528652	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	11365	65528652	80835370	132	35880										
ZFHX4	79776	broad.mit.edu	37	chr8	77617884	77617884	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgctaaaatttattgaaaagGgtacctcgtcctcctcggcg	9	10	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:77617884G>A	uc003yav.2	+	2	1948	c.1561G>A	c.(1561-1563)GGT>AGT	p.G521S	ZFHX4_uc003yat.1_Missense_Mutation_p.G521S|ZFHX4_uc003yau.1_Missense_Mutation_p.G521S|ZFHX4_uc003yaw.1_Missense_Mutation_p.G521S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	521						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TATTGAAAAGGGTACCTCGTC	0.418										HNSCC(33;0.089)			48	54	---	---	---	---	PASS	A	77617884	A	A	77617884	3	1	96	1	0	0	0	0	1	0	0	0	17632	1232	43	3	1563	3	ZFHX4	8	77617884	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	12089232	77617884	68746138	133	35881										
PSKH2	85481	broad.mit.edu	37	chr8	87081732	87081732	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgtatcctctgcgccgcctgGgccgccgcctcgggcccagg	14	18	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:87081732G>T	uc011lfy.1	-	1	120	c.120C>A	c.(118-120)GCC>GCA	p.A40A		NM_033126	NP_149117	Q96QS6	KPSH2_HUMAN	protein serine kinase H2	40							ATP binding|protein serine/threonine kinase activity			stomach(2)|lung(2)|ovary(1)	5			STAD - Stomach adenocarcinoma(118;0.129)			GCGCCGCCTGGGCCGCCGCCT	0.706													4	5	---	---	---	---	PASS	T	87081732	T	T	87081732	2	4	96	1	0	0	0	0	0	0	0	1	12665	1219	43	3		3	PSKH2	8	87081732	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	9463848	87081732	59282290	134	35882										
POP1	10940	broad.mit.edu	37	chr8	99148776	99148776	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcaaatcagctgtctgcatcGctgacccacttccaacacca	5	16	3	1	rs150874165		TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:99148776G>T	uc003yij.3	+	8	1178	c.1078G>T	c.(1078-1080)GCT>TCT	p.A360S	POP1_uc011lgv.1_Missense_Mutation_p.A360S|POP1_uc003yik.2_Missense_Mutation_p.A360S	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	360					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			TGTCTGCATCGCTGACCCACT	0.383													136	175	---	---	---	---	PASS	T	99148776	T	T	99148776	3	4	96	1	0	0	0	0	1	0	0	0	12251	1087	38	1	1104	1	POP1	8	99148776	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	12067044	99148776	47215246	135	35883										
PKHD1L1	93035	broad.mit.edu	37	chr8	110476998	110476998	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	atctacagtgcctgcacctgCaatatttaactcacttacta	4	12	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:110476998C>A	uc003yne.2	+	49	8041	c.7937C>A	c.(7936-7938)GCA>GAA	p.A2646E		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2646	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CCTGCACCTGCAATATTTAAC	0.408										HNSCC(38;0.096)			141	418	---	---	---	---	PASS	A	110476998	A	A	110476998	3	1	96	1	0	0	0	0	1	0	0	0	11972	710	25	3	8131	3	PKHD1L1	8	110476998	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	11328222	110476998	35887024	136	35884										
CSMD3	114788	broad.mit.edu	37	chr8	113301700	113301700	+	Frame_Shift_Del	DEL	C	-	-													0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	caggaatagtgaacagtagaCccaaaagtatacttctcgcc							TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:113301700delC	uc003ynu.2	-	57	9201	c.9042delG	c.(9040-9042)GGGfs	p.G3014fs	CSMD3_uc003yns.2_Frame_Shift_Del_p.G2216fs|CSMD3_uc003ynt.2_Frame_Shift_Del_p.G2974fs|CSMD3_uc011lhx.1_Frame_Shift_Del_p.G2845fs	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3014	Sushi 21.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GAACAGTAGACCCAAAAGTAT	0.418										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			128	82	---	---	---	---		-	113301700	-	-	113301700	7	5	96	1	0	1	0	1	0	0	0	0	3946	494	18	0	2141	0	CSMD3	8	113301700	Frame_Shift_Del	DEL	C	TCGA-43-2578-01A-01D-1522-08	2824702	113301700	33062322	137	35885										
TRPS1	7227	broad.mit.edu	37	chr8	116617106	116617106	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agtctgaagaaaatgttgttCtaattcggtggatgagttgc	12	4	2	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:116617106C>A	uc003ynz.2	-	3	1510	c.1051G>T	c.(1051-1053)GAA>TAA	p.E351*	TRPS1_uc011lhy.1_Nonsense_Mutation_p.E355*|TRPS1_uc003yny.2_Nonsense_Mutation_p.E364*|TRPS1_uc010mcy.2_Nonsense_Mutation_p.E351*	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	351	C2H2-type 2; atypical.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			AAATGTTGTTCTAATTCGGTG	0.423									Langer-Giedion_syndrome				147	193	---	---	---	---	PASS	A	116617106	A	A	116617106	4	1	96	1	0	0	0	0	0	1	0	0	16590	922	32	2	2810	2	TRPS1	8	116617106	Nonsense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	3315406	116617106	29746916	138	35886										
C8orf85	441376	broad.mit.edu	37	chr8	117950629	117950629	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acggacatccaggaggaggcCctcgccgccagcccgctgct	13	17	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:117950629C>T	uc003yof.2	+	1	166	c.147C>T	c.(145-147)GCC>GCT	p.A49A		NM_001025357	NP_001020528	Q4LEZ3	AARD_HUMAN	alanine and arginine-rich domain-containing	49											0						AGGAGGAGGCCCTCGCCGCCA	0.687													11	13	---	---	---	---	PASS	T	117950629	T	T	117950629	2	4	96	1	0	0	0	0	0	0	0	1	2441	610	22	3		3	C8orf85	8	117950629	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	1333523	117950629	28413393	139	35887										
ATAD2	29028	broad.mit.edu	37	chr8	124349885	124349885	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctcatcagggtcaacaggctTagtaaacactcggaatcgct	9	11	3	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr8:124349885T>A	uc003yqh.3	-	21	3139	c.3031A>T	c.(3031-3033)AAG>TAG	p.K1011*	ATAD2_uc011lii.1_Nonsense_Mutation_p.K802*|ATAD2_uc003yqi.3_RNA	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	1011	Bromo.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TCAACAGGCTTAGTAAACACT	0.358													45	160	---	---	---	---	PASS	A	124349885	A	A	124349885	4	1	96	1	0	0	0	0	0	1	0	0	1071	1763	61	5	1173	5	ATAD2	8	124349885	Nonsense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	6399256	124349885	22014137	140	35888										
LINGO2	158038	broad.mit.edu	37	chr9	27950441	27950441	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cagcagaggatatgatatgaAttcttcagggttgacgcttt	11	6	2	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr9:27950441A>G	uc003zqu.1	-	2	423	c.229T>C	c.(229-231)TTC>CTC	p.F77L	LINGO2_uc010mjf.1_Missense_Mutation_p.F77L|LINGO2_uc003zqv.1_Missense_Mutation_p.F77L	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	77	LRR 1.|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)		TATGATATGAATTCTTCAGGG	0.448													136	256	---	---	---	---	PASS	G	27950441	G	G	27950441	3	3	96	1	0	0	0	0	1	0	0	0	8815	101	4	5	1595	5	LINGO2	9	27950441	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08		27950441	113262990	141	35889										
DNAI1	27019	broad.mit.edu	37	chr9	34514727	34514727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgtgttcgcagcagtcaccaCagatgggaaggtgagtgcca	14	9	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr9:34514727C>A	uc003zum.2	+	18	2001	c.1808C>A	c.(1807-1809)ACA>AAA	p.T603K		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	603	WD 4.				cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)		GCAGTCACCACAGATGGGAAG	0.562									Kartagener_syndrome				7	121	---	---	---	---	PASS	A	34514727	A	A	34514727	3	1	96	1	0	0	0	0	1	0	0	0	4609	478	17	3	1878	3	DNAI1	9	34514727	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	6564286	34514727	106698704	142	35890										
C9orf79	286234	broad.mit.edu	37	chr9	90502329	90502329	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aacctggcagagcaggactgTcctggaatccgggaaaccca	12	12	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr9:90502329T>C	uc004app.3	+	4	2962	c.2927T>C	c.(2926-2928)GTC>GCC	p.V976A		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	976						integral to membrane				ovary(3)	3						AGCAGGACTGTCCTGGAATCC	0.587													13	90	---	---	---	---	PASS	C	90502329	C	C	90502329	3	2	96	1	0	0	0	0	1	0	0	0	2497	1667	58	5	2941	5	C9orf79	9	90502329	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	55987602	90502329	50711102	143	35891										
ROR2	4920	broad.mit.edu	37	chr9	94486343	94486343	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tagagctgcggcgggggcacCatgggtctgatctggccctt	16	11	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr9:94486343C>T	uc004arj.1	-	9	2632	c.2433G>A	c.(2431-2433)ATG>ATA	p.M811I	ROR2_uc004ari.1_Intron	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	811	Cytoplasmic (Potential).|Pro-rich.				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						GCGGGGGCACCATGGGTCTGA	0.657													33	56	---	---	---	---	PASS	T	94486343	T	T	94486343	3	4	96	1	0	0	0	0	1	0	0	0	13527	594	21	3	402	3	ROR2	9	94486343	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	3984014	94486343	46727088	144	35892										
KIAA1529	57653	broad.mit.edu	37	chr9	100124029	100124029	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acaccatcctgaaggaccagGaggaagacagtgacatcctg	11	11	0	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr9:100124029G>A	uc011lut.1	+	39	4827	c.4054G>A	c.(4054-4056)GAG>AAG	p.E1352K	KIAA1529_uc004axe.1_Missense_Mutation_p.E1184K|KIAA1529_uc004axg.1_Missense_Mutation_p.E1213K|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Missense_Mutation_p.E369K	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				GAAGGACCAGGAGGAAGACAG	0.602													26	35	---	---	---	---	PASS	A	100124029	A	A	100124029	3	1	96	1	0	0	0	0	1	0	0	0	8240	1175	41	2	3656	2	KIAA1529	9	100124029	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	5637686	100124029	41089402	145	35893										
LAMC3	10319	broad.mit.edu	37	chr9	133948095	133948095	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccgggagcagctgcagaggcTgaacaagggtgcccgctgtg	17	11	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr9:133948095T>A	uc004caa.1	+	19	3388	c.3290T>A	c.(3289-3291)CTG>CAG	p.L1097Q		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	1097	Domain II and I.|Potential.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		CTGCAGAGGCTGAACAAGGGT	0.652													3	14	---	---	---	---	PASS	A	133948095	A	A	133948095	3	1	96	1	0	0	0	0	1	0	0	0	8616	1580	55	5	3364	5	LAMC3	9	133948095	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	33824066	133948095	7265336	146	35894										
OLFM1	10439	broad.mit.edu	37	chr9	137982073	137982073	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aaccctgaggagagctggcaGgtgtacagctctgcccagga	14	11	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr9:137982073G>T	uc010nar.2	+	2	499	c.183G>T	c.(181-183)CAG>CAT	p.Q61H	OLFM1_uc004cfl.3_Missense_Mutation_p.Q43H|OLFM1_uc004cfk.3_Missense_Mutation_p.Q43H|OLFM1_uc004cfm.3_Missense_Mutation_p.Q61H	NM_014279	NP_055094	Q99784	NOE1_HUMAN	olfactomedin related ER localized protein	61					nervous system development	endoplasmic reticulum lumen	protein binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(178;0.0333)		Epithelial(140;5.49e-08)|OV - Ovarian serous cystadenocarcinoma(145;9.68e-08)|all cancers(34;1.88e-07)		AGAGCTGGCAGGTGTACAGCT	0.607													12	25	---	---	---	---	PASS	T	137982073	T	T	137982073	3	4	96	1	0	0	0	0	1	0	0	0	10852	991	35	3	135	3	OLFM1	9	137982073	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	4033978	137982073	3231358	147	35895										
ARRDC1	92714	broad.mit.edu	37	chr9	140509312	140509312	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccctcaggatggcagccctgCctcacacccgctgcaccctc	8	21	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr9:140509312C>T	uc004cns.2	+	7	1171	c.1097C>T	c.(1096-1098)GCC>GTC	p.A366V	ARRDC1_uc004cnt.2_Missense_Mutation_p.A241V|ARRDC1_uc004cnu.2_RNA|ARRDC1_uc004cnv.2_Missense_Mutation_p.A346V|ARRDC1_uc004cnw.2_Missense_Mutation_p.A241V|ARRDC1_uc004cnp.1_Missense_Mutation_p.A366V|ARRDC1_uc004cnq.1_Missense_Mutation_p.A348V|ARRDC1_uc011mfb.1_Missense_Mutation_p.A241V|ARRDC1_uc004cnx.1_Missense_Mutation_p.A241V|ARRDC1_uc004cny.2_RNA	NM_152285	NP_689498	Q8N5I2	ARRD1_HUMAN	arrestin domain containing 1	366	Pro-rich.										0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000273)|Epithelial(140;0.000464)		GGCAGCCCTGCCTCACACCCG	0.652													24	75	---	---	---	---	PASS	T	140509312	T	T	140509312	3	4	96	1	0	0	0	0	1	0	0	0	982	739	26	3	1123	3	ARRDC1	9	140509312	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	2527239	140509312	704119	148	35896										
SFMBT2	57713	broad.mit.edu	37	chr10	7262489	7262489	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgttctttgtgaaacctcgaCtgaatgatgtctgcaagaga	10	7	2	4	rs144518591		TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:7262489C>A	uc009xio.1	-	11	1305	c.1214G>T	c.(1213-1215)AGT>ATT	p.S405I	SFMBT2_uc001ijn.1_Missense_Mutation_p.S405I|SFMBT2_uc010qay.1_Intron	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	405	MBT 4.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GAAACCTCGACTGAATGATGT	0.502													47	46	---	---	---	---	PASS	A	7262489	A	A	7262489	3	1	96	1	0	0	0	0	1	0	0	0	14158	565	20	3	1514	3	SFMBT2	10	7262489	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08		7262489	128272258	149	35897										
CUBN	8029	broad.mit.edu	37	chr10	16942801	16942801	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	attcctgacagtgacagagtCccaagcacaagttgtatggg	11	9	0	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:16942801C>G	uc001ioo.2	-	53	8285	c.8233G>C	c.(8233-8235)GAC>CAC	p.D2745H	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Missense_Mutation_p.D101H	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2745	CUB 20.				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)	GTGACAGAGTCCCAAGCACAA	0.433													30	38	---	---	---	---	PASS	G	16942801	G	G	16942801	3	3	96	1	0	0	0	0	1	0	0	0	4051	855	30	2	2698	2	CUBN	10	16942801	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	9680312	16942801	118591946	150	35898										
CUL2	8453	broad.mit.edu	37	chr10	35333790	35333790	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tggtttgggtcttctccaccAcgatcactaaaacaaggtat	8	10	3	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:35333790A>C	uc001ixv.2	-	7	723	c.513T>G	c.(511-513)CGT>CGG	p.R171R	CUL2_uc009xma.2_Silent_p.R40R|CUL2_uc010qer.1_Silent_p.R190R|CUL2_uc001ixw.2_Silent_p.R171R|CUL2_uc010qes.1_Silent_p.R108R	NM_003591	NP_003582	Q13617	CUL2_HUMAN	cullin 2	171					cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding			ovary(3)	3						CTTCTCCACCACGATCACTAA	0.333													44	59	---	---	---	---	PASS	C	35333790	C	C	35333790	2	2	96	1	0	0	0	0	0	0	0	1	4055	146	6	5		5	CUL2	10	35333790	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	18390989	35333790	100200957	151	35899										
ANKRD30A	91074	broad.mit.edu	37	chr10	37422844	37422844	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttatctctttgttattttagCacagccctcatgcttgctgt	6	10	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:37422844C>A	uc001iza.1	+	5	549	c.450C>A	c.(448-450)TGC>TGA	p.C150*		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	206	ANK 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GTTATTTTAGCACAGCCCTCA	0.358													81	135	---	---	---	---	PASS	A	37422844	A	A	37422844	4	1	96	1	0	0	0	0	0	1	0	0	658	724	25	3	468	3	ANKRD30A	10	37422844	Nonsense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	2089054	37422844	98111903	152	35900										
GDF10	2662	broad.mit.edu	37	chr10	48429340	48429340	+	Silent	SNP	G	C	C													0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccgcggagtagcccctgtgtGgccgtgttctgcgagaggct							TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:48429340G>C	uc001jfb.2	-	2	1002	c.546C>G	c.(544-546)GCC>GCG	p.A182A	GDF10_uc009xnp.2_Silent_p.A181A|GDF10_uc009xnq.1_Silent_p.A182A	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	182					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						GCCCCTGTGTGGCCGTGTTCT	0.736													8	6	---	---	---	---	PASS	C	48429340	C	C	48429340	2	2	96	1	0	0	0	0	0	0	0	1	6311	1335	47	4		4	GDF10	10	48429340	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	11006496	48429340	87105407	153	35901	676	2								
GDF10	2662	broad.mit.edu	37	chr10	48429341	48429341	+	Missense_Mutation	SNP	G	T	T													0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cgcggagtagcccctgtgtgGccgtgttctgcgagaggctg							TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:48429341G>T	uc001jfb.2	-	2	1001	c.545C>A	c.(544-546)GCC>GAC	p.A182D	GDF10_uc009xnp.2_Missense_Mutation_p.A181D|GDF10_uc009xnq.1_Missense_Mutation_p.A182D	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	182					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						CCCCTGTGTGGCCGTGTTCTG	0.736													8	6	---	---	---	---	PASS	T	48429341	T	T	48429341	3	4	96	1	0	0	0	0	1	0	0	0	6311	1203	42	3	899	3	GDF10	10	48429341	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1	48429341	87105406	154	35902	676	2								
MSMB	4477	broad.mit.edu	37	chr10	51556783	51556783	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcaaaggaaacaaacacccaAtaaactcggagtggcagact	8	10	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:51556783A>G	uc001jiq.2	+	3	174	c.142A>G	c.(142-144)ATA>GTA	p.I48V	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|MSMB_uc001jir.2_Intron	NM_002443	NP_002434	P08118	MSMB_HUMAN	beta-microseminoprotein isoform a precursor	48						extracellular space|nucleus				ovary(2)	2						CAAACACCCAATAAACTCGGA	0.433									Hereditary_Prostate_Cancer				28	36	---	---	---	---	PASS	G	51556783	G	G	51556783	3	3	96	1	0	0	0	0	1	0	0	0	9883	101	4	5	152	5	MSMB	10	51556783	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	3127442	51556783	83977964	155	35903										
PCDH15	65217	broad.mit.edu	37	chr10	55568916	55568916	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggaactctcctcctcctcagAgggtgtctctgactcagatt	9	13	4	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:55568916A>T	uc010qhs.1	-	37	5304	c.4909T>A	c.(4909-4911)TCT>ACT	p.S1637T	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qht.1_Missense_Mutation_p.S1630T|PCDH15_uc010qhu.1_3'UTR	NM_001142769	NP_001136241	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TCCTCCTCAGAGGGTGTCTCT	0.463										HNSCC(58;0.16)			45	50	---	---	---	---	PASS	T	55568916	T	T	55568916	3	4	96	1	0	0	0	0	1	0	0	0	11511	304	11	5	1022	5	PCDH15	10	55568916	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	4012133	55568916	79965831	156	35904										
KCNMA1	3778	broad.mit.edu	37	chr10	78713682	78713682	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggaattaacaaggggtcatgCctgggaagaaaaggacagga	15	5	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:78713682C>A	uc001jxn.2	-	21	2538	c.2361G>T	c.(2359-2361)AGG>AGT	p.R787S	KCNMA1_uc001jxj.2_Missense_Mutation_p.R733S|KCNMA1_uc001jxk.1_Missense_Mutation_p.R405S|KCNMA1_uc009xrt.1_Missense_Mutation_p.R578S|KCNMA1_uc001jxl.1_Missense_Mutation_p.R412S|KCNMA1_uc001jxo.2_Missense_Mutation_p.R729S|KCNMA1_uc001jxm.2_Missense_Mutation_p.R729S|KCNMA1_uc001jxq.2_Missense_Mutation_p.R732S	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	787	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	AGGGGTCATGCCTGGGAAGAA	0.428													28	19	---	---	---	---	PASS	A	78713682	A	A	78713682	3	1	96	1	0	0	0	0	1	0	0	0	8073	753	26	3	1537	3	KCNMA1	10	78713682	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	23144766	78713682	56821065	157	35905										
PTEN	5728	broad.mit.edu	37	chr10	89711893	89711893	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agggagtaactattcccagtCagaggcgctatgtgtattat	11	7	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:89711893C>A	uc001kfb.2	+	7	1542	c.511C>A	c.(511-513)CAG>AAG	p.Q171K		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	171	Phosphatase tensin-type.			Q->A,E: 75% reduction in phosphatase activity towards PtdIns(3,4,5)P3.	activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.Q171*(9)|p.R55fs*1(4)|p.V166fs*17(3)|p.?(3)|p.G165fs*9(3)|p.Y27_N212>Y(2)|p.Q171P(2)|p.Y27fs*1(2)|p.Q171E(2)|p.V166fs*10(1)|p.G165_K342del(1)|p.G165_*404del(1)|p.Q171H(1)|p.S170fs*8(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TATTCCCAGTCAGAGGCGCTA	0.353		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			117	131	---	---	---	---	PASS	A	89711893	A	A	89711893	3	1	96	1	0	0	0	0	1	0	0	0	12738	827	29	2	533	2	PTEN	10	89711893	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	10998211	89711893	45822854	158	35906										
CYP17A1	1586	broad.mit.edu	37	chr10	104590602	104590602	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tggcacctccaggtcgaaccTctgcagcagccaggccatga	11	15	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:104590602T>A	uc001kwg.2	-	8	1556	c.1384A>T	c.(1384-1386)AGG>TGG	p.R462W	C10orf26_uc009xxg.1_RNA	NM_000102	NP_000093	P05093	CP17A_HUMAN	cytochrome P450, family 17	462					androgen biosynthetic process|glucocorticoid biosynthetic process|sex differentiation|xenobiotic metabolic process	endoplasmic reticulum membrane	electron carrier activity|heme binding|oxygen binding|steroid 17-alpha-monooxygenase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)	NADH(DB00157)|Progesterone(DB00396)	AGGTCGAACCTCTGCAGCAGC	0.567													6	9	---	---	---	---	PASS	A	104590602	A	A	104590602	3	1	96	1	0	0	0	0	1	0	0	0	4147	1550	54	5	146	5	CYP17A1	10	104590602	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	14878709	104590602	30944145	159	35907										
NRAP	4892	broad.mit.edu	37	chr10	115412757	115412757	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggtgtgatcatggctggaaaGctccccttgcccctgggttg	14	11	1	1	rs138386465		TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:115412757G>A	uc001laj.2	-	6	671	c.507C>T	c.(505-507)AGC>AGT	p.S169S	NRAP_uc001lak.2_Silent_p.S169S|NRAP_uc001lal.3_Silent_p.S169S	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	169						fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding	p.S169R(1)		ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		TGGCTGGAAAGCTCCCCTTGC	0.473													36	137	---	---	---	---	PASS	A	115412757	A	A	115412757	2	1	96	1	0	0	0	0	0	0	0	1	10638	962	34	3		3	NRAP	10	115412757	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	10822155	115412757	20121990	160	35908										
EBF3	253738	broad.mit.edu	37	chr10	131757215	131757215	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cacctgcacatgatctcgtgGgtcagcagcacacggcacat	10	14	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:131757215G>C	uc001lki.1	-	5	527	c.468C>G	c.(466-468)ACC>ACG	p.T156T		NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	156	C5-type (Potential).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		TGATCTCGTGGGTCAGCAGCA	0.572													7	47	---	---	---	---	PASS	C	131757215	C	C	131757215	2	2	96	1	0	0	0	0	0	0	0	1	4882	1219	43	4		4	EBF3	10	131757215	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	16344458	131757215	3777532	161	35909										
EBF3	253738	broad.mit.edu	37	chr10	131761760	131761760	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttggaaggcggctgcttctcGaagtgcgcccgcgccagccc	14	15	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr10:131761760G>A	uc001lki.1	-	2	221	c.162C>T	c.(160-162)TTC>TTT	p.F54F	EBF3_uc010qur.1_Silent_p.F40F	NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	54					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		GCTGCTTCTCGAAGTGCGCCC	0.517													35	17	---	---	---	---	PASS	A	131761760	A	A	131761760	2	1	96	1	0	0	0	0	0	0	0	1	4882	1049	37	2		2	EBF3	10	131761760	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	4545	131761760	3772987	162	35910										
TH	7054	broad.mit.edu	37	chr11	2190926	2190926	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gcgccgagggcttggtggccCtcggggagaagagcaggttt	19	9	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:2190926C>A	uc001lvq.2	-	3	378	c.359G>T	c.(358-360)AGG>ATG	p.R120M	TH_uc001lvp.2_Missense_Mutation_p.R116M|TH_uc001lvr.2_Missense_Mutation_p.R89M|TH_uc010qxj.1_Missense_Mutation_p.R93M|TH_uc001lvs.2_Missense_Mutation_p.R89M|TH_uc001lvt.2_Missense_Mutation_p.R93M|TH_uc009ydh.1_5'Flank	NM_199292	NP_954986	P07101	TY3H_HUMAN	tyrosine hydroxylase isoform a	120					dopamine biosynthetic process from tyrosine|embryonic camera-type eye morphogenesis|epinephrine biosynthetic process|eye photoreceptor cell development|heart morphogenesis|hormone biosynthetic process|learning|locomotory behavior|memory|neurotransmitter biosynthetic process|neurotransmitter secretion|norepinephrine biosynthetic process|pigmentation|regulation of heart contraction|response to ethanol|response to hypoxia|synaptic transmission, dopaminergic|visual perception	cytosol|internal side of plasma membrane|melanosome membrane|nucleus|perikaryon|smooth endoplasmic reticulum	protein binding|tyrosine 3-monooxygenase activity				0		all_epithelial(84;1.46e-23)|Lung NSC(207;4.44e-11)|all_lung(207;1.11e-09)|Ovarian(85;1.78e-06)|Breast(177;1.78e-05)|Medulloblastoma(188;0.0208)|all_neural(188;0.0416)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;8.45e-09)|Lung(200;0.000152)|LUSC - Lung squamous cell carcinoma(625;0.00154)	L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Metyrosine(DB00765)|Tetrahydrobiopterin(DB00360)	CTTGGTGGCCCTCGGGGAGAA	0.672													21	52	---	---	---	---	PASS	A	2190926	A	A	2190926	3	1	96	1	0	0	0	0	1	0	0	0	15835	681	24	3	1275	3	TH	11	2190926	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08		2190926	132815590	163	35911										
OR51T1	401665	broad.mit.edu	37	chr11	4903764	4903764	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gctctacctgaatggcactgAcgtattgtttattcttttct	7	9	3	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:4903764A>T	uc010qyp.1	+	1	716	c.716A>T	c.(715-717)GAC>GTC	p.D239V		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	212	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		AATGGCACTGACGTATTGTTT	0.443													58	73	---	---	---	---	PASS	T	4903764	T	T	4903764	3	4	96	1	0	0	0	0	1	0	0	0	11106	275	10	5	718	5	OR51T1	11	4903764	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	2712838	4903764	130102752	164	35912										
OR56A3	390083	broad.mit.edu	37	chr11	5968758	5968758	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gctggaggcctctctgcaccAgcccctgtactacctgctca	9	17	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:5968758A>T	uc010qzt.1	+	1	182	c.182A>T	c.(181-183)CAG>CTG	p.Q61L		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	61	Helical; Name=2; (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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCTCTGCACCAGCCCCTGTAC	0.612													71	102	---	---	---	---	PASS	T	5968758	T	T	5968758	3	4	96	1	0	0	0	0	1	0	0	0	11134	188	7	5	184	5	OR56A3	11	5968758	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	1064994	5968758	129037758	165	35913										
ANO5	203859	broad.mit.edu	37	chr11	22257761	22257761	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	catagaagatgggaagaaaaGgtttgggattgaaagactgc	14	3	0	5			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:22257761G>A	uc001mqi.2	+	8	1018	c.701G>A	c.(700-702)AGG>AAG	p.R234K	ANO5_uc001mqj.2_Missense_Mutation_p.R233K	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	234	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						GGGAAGAAAAGGTTTGGGATT	0.373													33	104	---	---	---	---	PASS	A	22257761	A	A	22257761	3	1	96	1	0	0	0	0	1	0	0	0	700	1000	35	3	731	3	ANO5	11	22257761	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	16289003	22257761	112748755	166	35914										
ACCSL	390110	broad.mit.edu	37	chr11	44072153	44072153	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acaccttgcttcagtaccctGattggagagggcagccattg	11	11	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:44072153G>A	uc001mxw.1	+	3	672	c.616G>A	c.(616-618)GAT>AAT	p.D206N	ACCSL_uc009ykr.2_Missense_Mutation_p.D25N	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	206							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						TCAGTACCCTGATTGGAGAGG	0.468													66	164	---	---	---	---	PASS	A	44072153	A	A	44072153	3	1	96	1	0	0	0	0	1	0	0	0	134	1290	45	2	626	2	ACCSL	11	44072153	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	21814392	44072153	90934363	167	35915										
OR4C12	283093	broad.mit.edu	37	chr11	50003673	50003673	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcagaggtttgcagatggccAcatagcagtcacaggccatc	11	11	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:50003673A>T	uc010ria.1	-	1	365	c.365T>A	c.(364-366)GTG>GAG	p.V122E		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GCAGATGGCCACATAGCAGTC	0.493													6	314	---	---	---	---	PASS	T	50003673	T	T	50003673	3	4	96	1	0	0	0	0	1	0	0	0	11046	159	6	5	568	5	OR4C12	11	50003673	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	5931520	50003673	85002843	168	35916										
OR4C15	81309	broad.mit.edu	37	chr11	55322725	55322725	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tatttgtatatacacgacctCcatctgctttttcccttgac	4	12	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:55322725C>G	uc010rig.1	+	1	943	c.943C>G	c.(943-945)CCA>GCA	p.P315A		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TACACGACCTCCATCTGCTTT	0.398										HNSCC(20;0.049)			96	318	---	---	---	---	PASS	G	55322725	G	G	55322725	3	3	96	1	0	0	0	0	1	0	0	0	11048	855	30	2	945	2	OR4C15	11	55322725	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	5319052	55322725	79683791	169	35917										
OR5D14	219436	broad.mit.edu	37	chr11	55563693	55563693	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gatcatcctcacttcctatgTtttcatttttgtgactgtac	5	10	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:55563693T>A	uc010rim.1	+	1	662	c.662T>A	c.(661-663)GTT>GAT	p.V221D		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	221	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				ACTTCCTATGTTTTCATTTTT	0.473													115	229	---	---	---	---	PASS	A	55563693	A	A	55563693	3	1	96	1	0	0	0	0	1	0	0	0	11155	1725	60	5	664	5	OR5D14	11	55563693	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	240968	55563693	79442823	170	35918										
OR8K5	219453	broad.mit.edu	37	chr11	55927656	55927656	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gagtccagtttggtcaaaatGatcatagttaggttgcccac	10	8	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:55927656G>A	uc010rja.1	-	1	138	c.138C>T	c.(136-138)ATC>ATT	p.I46I		NM_001004058	NP_001004058	Q8NH50	OR8K5_HUMAN	olfactory receptor, family 8, subfamily K,	46	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(21;0.00693)	Lung NSC(402;0.197)|all_epithelial(135;0.236)				TGGTCAAAATGATCATAGTTA	0.433													74	164	---	---	---	---	PASS	A	55927656	A	A	55927656	2	1	96	1	0	0	0	0	0	0	0	1	11245	1280	45	2		2	OR8K5	11	55927656	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	363963	55927656	79078860	171	35919										
OR9G9	504191	broad.mit.edu	37	chr11	56468292	56468292	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ataaagctgtgtgcattgctGgtagcagtctcatattgtgg	12	6	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:56468292G>A	uc010rjn.1	+	1	429	c.429G>A	c.(427-429)CTG>CTA	p.L143L		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTGCATTGCTGGTAGCAGTCT	0.468													38	353	---	---	---	---	PASS	A	56468292	A	A	56468292	2	1	96	1	0	0	0	0	0	0	0	1	11252	1335	47	3		3	OR9G9	11	56468292	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	540636	56468292	78538224	172	35920										
LPXN	9404	broad.mit.edu	37	chr11	58294964	58294964	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tattgaagcaaggttgacaaTaggtcttgtcattctgctcc	9	8	3	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:58294964T>C	uc001nmw.2	-	9	1269	c.1124A>G	c.(1123-1125)TAT>TGT	p.Y375C	LPXN_uc009ymp.2_Missense_Mutation_p.Y245C|LPXN_uc010rkj.1_Missense_Mutation_p.Y380C|LPXN_uc010rkk.1_Missense_Mutation_p.Y355C	NM_004811	NP_004802	O60711	LPXN_HUMAN	leupaxin isoform 2	375	LIM zinc-binding 4.				cell adhesion|protein complex assembly|signal transduction	cytoplasm	zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				AGGTTGACAATAGGTCTTGTC	0.443													53	122	---	---	---	---	PASS	C	58294964	C	C	58294964	3	2	96	1	0	0	0	0	1	0	0	0	8929	1406	49	5	40	5	LPXN	11	58294964	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	1826672	58294964	76711552	173	35921										
MS4A3	932	broad.mit.edu	37	chr11	59837686	59837686	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttattttctaggaaatttccTcacctcccaattctgtgtaa	4	10	3	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:59837686T>A	uc001nom.2	+	7	753	c.625T>A	c.(625-627)TCA>ACA	p.S209T	MS4A3_uc001non.2_Missense_Mutation_p.S163T|MS4A3_uc001noo.2_Missense_Mutation_p.S86T	NM_006138	NP_006129	Q96HJ5	MS4A3_HUMAN	membrane-spanning 4-domains, subfamily A, member	209	Cytoplasmic (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm	protein binding|receptor activity			ovary(2)|skin(1)	3		all_epithelial(135;0.245)				GGAAATTTCCTCACCTCCCAA	0.373													34	96	---	---	---	---	PASS	A	59837686	A	A	59837686	3	1	96	1	0	0	0	0	1	0	0	0	9861	1551	54	5	647	5	MS4A3	11	59837686	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	1542722	59837686	75168830	174	35922										
C11orf9	745	broad.mit.edu	37	chr11	61539172	61539172	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tggttccttgcctctcagcaTtgcccgtgtccagacaccgc	9	16	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:61539172T>A	uc001nsc.1	+	6	1037	c.941T>A	c.(940-942)ATT>AAT	p.I314N	C11orf9_uc001nse.1_Missense_Mutation_p.I305N	NM_001127392	NP_001120864	Q9Y2G1	MRF_HUMAN	myelin gene regulatory factor isoform 2	314	NDT80.|Pro-rich.				central nervous system myelination|positive regulation of myelination|positive regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						CCTCTCAGCATTGCCCGTGTC	0.687													72	165	---	---	---	---	PASS	A	61539172	A	A	61539172	3	1	96	1	0	0	0	0	1	0	0	0	1671	1493	52	5	986	5	C11orf9	11	61539172	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	1701486	61539172	73467344	175	35923										
TUT1	64852	broad.mit.edu	37	chr11	62342867	62342867	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gggctcgccgccgcccttgcCacactcggtgccacaaggca	12	18	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:62342867C>T	uc001nto.2	-	9	2476	c.2438G>A	c.(2437-2439)TGG>TAG	p.W813*	EEF1G_uc001ntm.1_5'Flank|EEF1G_uc010rlw.1_5'Flank|EEF1G_uc001ntn.1_5'Flank|TUT1_uc001ntp.1_Nonsense_Mutation_p.W309*	NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	775					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						CCGCCCTTGCCACACTCGGTG	0.667													42	90	---	---	---	---	PASS	T	62342867	T	T	62342867	4	4	96	1	0	0	0	0	0	1	0	0	16777	595	21	3	304	3	TUT1	11	62342867	Nonsense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	803695	62342867	72663649	176	35924										
ATG2A	23130	broad.mit.edu	37	chr11	64677243	64677243	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccggaactggggctcactcaGctccagccgaagctgctcag	12	15	3	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:64677243G>C	uc001obx.2	-	14	2132	c.2017C>G	c.(2017-2019)CTG>GTG	p.L673V		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	673							protein binding			ovary(1)|central_nervous_system(1)	2						GGCTCACTCAGCTCCAGCCGA	0.706													21	35	---	---	---	---	PASS	C	64677243	C	C	64677243	3	2	96	1	0	0	0	0	1	0	0	0	1093	962	34	4	3911	4	ATG2A	11	64677243	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	2334376	64677243	70329273	177	35925										
ATG2A	23130	broad.mit.edu	37	chr11	64679608	64679608	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aagggggtctgggctgagggGctcagccactgcccctgcct	16	13	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:64679608G>T	uc001obx.2	-	8	1151	c.1036C>A	c.(1036-1038)CCC>ACC	p.P346T		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	346							protein binding			ovary(1)|central_nervous_system(1)	2						GGGCTGAGGGGCTCAGCCACT	0.627													37	74	---	---	---	---	PASS	T	64679608	T	T	64679608	3	4	96	1	0	0	0	0	1	0	0	0	1093	1203	42	3	4916	3	ATG2A	11	64679608	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	2365	64679608	70326908	178	35926										
EIF1AD	84285	broad.mit.edu	37	chr11	65767582	65767582	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	atgctcaccaggaagcgctgCccttgggctgtctccacctc	10	16	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:65767582C>T	uc001ogm.1	-	3	423	c.138G>A	c.(136-138)GGG>GGA	p.G46G	EIF1AD_uc001ogn.1_Silent_p.G46G|BANF1_uc001ogo.2_5'Flank|BANF1_uc001ogp.2_5'Flank	NM_032325	NP_115701	Q8N9N8	EIF1A_HUMAN	eukaryotic translation initiation factor 1A	46	S1-like.					nucleus	translation initiation factor activity				0						GGAAGCGCTGCCCTTGGGCTG	0.438													54	94	---	---	---	---	PASS	T	65767582	T	T	65767582	2	4	96	1	0	0	0	0	0	0	0	1	4991	726	26	3		3	EIF1AD	11	65767582	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	1087974	65767582	69238934	179	35927										
DHCR7	1717	broad.mit.edu	37	chr11	71150031	71150031	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tccaggcgacgatcccggggCgcccattgaagaacagcttg	13	13	0	2	rs80338857		TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:71150031C>A	uc001oqk.2	-	7	975	c.725G>T	c.(724-726)CGC>CTC	p.R242L	DHCR7_uc001oql.2_Missense_Mutation_p.R242L	NM_001163817	NP_001157289	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	242			R -> H (in SLOS).|R -> C (in SLOS).		cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|nuclear outer membrane	7-dehydrocholesterol reductase activity|protein binding			ovary(1)|liver(1)	2					NADH(DB00157)	GATCCCGGGGCGCCCATTGAA	0.537									Smith-Lemli-Opitz_syndrome				3	110	---	---	---	---	PASS	A	71150031	A	A	71150031	3	1	96	1	0	0	0	0	1	0	0	0	4477	768	27	1	714	1	DHCR7	11	71150031	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	5382449	71150031	63856485	180	35928										
DHCR7	1717	broad.mit.edu	37	chr11	71155063	71155063	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aaggtgacccacaaggtataGagctgggcggctttcctcgt	13	10	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:71155063G>C	uc001oqk.2	-	4	547	c.297C>G	c.(295-297)CTC>CTG	p.L99L	DHCR7_uc001oql.2_Silent_p.L99L	NM_001163817	NP_001157289	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	99			L -> P (in SLOS).		cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|nuclear outer membrane	7-dehydrocholesterol reductase activity|protein binding			ovary(1)|liver(1)	2					NADH(DB00157)	ACAAGGTATAGAGCTGGGCGG	0.627									Smith-Lemli-Opitz_syndrome				6	20	---	---	---	---	PASS	C	71155063	C	C	71155063	2	2	96	1	0	0	0	0	0	0	0	1	4477	929	33	2		2	DHCR7	11	71155063	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	5032	71155063	63851453	181	35929										
MOGAT2	80168	broad.mit.edu	37	chr11	75431154	75431154	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gccacggcaggggggccggcAcatccaggccatcaggtgct	16	14	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:75431154A>T	uc010rru.1	+	2	209	c.209A>T	c.(208-210)CAC>CTC	p.H70L	MOGAT2_uc001oww.1_Missense_Mutation_p.H70L|MOGAT2_uc010rrv.1_5'UTR	NM_025098	NP_079374	Q3SYC2	MOGT2_HUMAN	monoacylglycerol O-acyltransferase 2	70					glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			ovary(2)	2	Ovarian(111;0.103)					GGGGGCCGGCACATCCAGGCC	0.567													98	224	---	---	---	---	PASS	T	75431154	T	T	75431154	3	4	96	1	0	0	0	0	1	0	0	0	9695	159	6	5	215	5	MOGAT2	11	75431154	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	4276091	75431154	59575362	182	35930										
DGAT2	84649	broad.mit.edu	37	chr11	75508290	75508290	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	catcatcgtggtcgggggtgCggctgagtctctgagctcca	15	11	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:75508290C>T	uc001oxa.2	+	6	981	c.722C>T	c.(721-723)GCG>GTG	p.A241V	DGAT2_uc001oxb.2_Missense_Mutation_p.A198V	NM_032564	NP_115953	Q96PD7	DGAT2_HUMAN	diacylglycerol O-acyltransferase 2	241	Cytoplasmic (Potential).				glycerol metabolic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	diacylglycerol O-acyltransferase activity				0	Ovarian(111;0.103)					GTCGGGGGTGCGGCTGAGTCT	0.577													5	159	---	---	---	---	PASS	T	75508290	T	T	75508290	3	4	96	1	0	0	0	0	1	0	0	0	4458	768	27	1	744	1	DGAT2	11	75508290	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	77136	75508290	59498226	183	35931										
CTSC	1075	broad.mit.edu	37	chr11	88033701	88033701	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	taggcttatttttttaccttGgtttcgaacaggactgacaa	8	7	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:88033701G>C	uc001pck.3	-	5	855	c.754C>G	c.(754-756)CAA>GAA	p.Q252E	CTSC_uc001pcl.3_Missense_Mutation_p.Q104E	NM_001814	NP_001805	P53634	CATC_HUMAN	cathepsin C isoform a preproprotein	252			Q -> L (in PLS).		immune response	lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TTTTTACCTTGGTTTCGAACA	0.368													41	104	---	---	---	---	PASS	C	88033701	C	C	88033701	3	2	96	1	0	0	0	0	1	0	0	0	4031	1357	47	4	649	4	CTSC	11	88033701	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	12525411	88033701	46972815	184	35932										
FOLH1B	219595	broad.mit.edu	37	chr11	89429876	89429876	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	attgatccattagggttaccAgacagacctttttataggta	8	7	0	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:89429876A>T	uc001pda.2	+	13	1648	c.1122A>T	c.(1120-1122)CCA>CCT	p.P374P		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	374					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TAGGGTTACCAGACAGACCTT	0.294													60	106	---	---	---	---	PASS	T	89429876	T	T	89429876	2	4	96	1	0	0	0	0	0	0	0	1	5980	175	7	5		5	FOLH1B	11	89429876	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	1396175	89429876	45576640	185	35933										
MAML2	84441	broad.mit.edu	37	chr11	95825700	95825700	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gccgctgccgccagctacccCaggcatgggggagctctgtg	15	15	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:95825700C>A	uc001pfw.1	-	2	2780	c.1495G>T	c.(1495-1497)GGG>TGG	p.G499W		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	499					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				CCAGCTACCCCAGGCATGGGG	0.587			T	MECT1|CRTC3	salivary gland mucoepidermoid								21	56	---	---	---	---	PASS	A	95825700	A	A	95825700	3	1	96	1	0	0	0	0	1	0	0	0	9206	594	21	3	1991	3	MAML2	11	95825700	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	6395824	95825700	39180816	186	35934										
DDI1	414301	broad.mit.edu	37	chr11	103908335	103908335	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gaaggcttttgttgactcggGcgcccagatgaccattatga	12	9	0	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:103908335G>T	uc001phr.2	+	1	1028	c.785G>T	c.(784-786)GGC>GTC	p.G262V	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	262					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		GTTGACTCGGGCGCCCAGATG	0.532													12	210	---	---	---	---	PASS	T	103908335	T	T	103908335	3	4	96	1	0	0	0	0	1	0	0	0	4328	1203	42	3	787	3	DDI1	11	103908335	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	8082635	103908335	31098181	187	35935										
GUCY1A2	2977	broad.mit.edu	37	chr11	106810492	106810492	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgtggaaggttcttcatgatAttagtattttcacattcttt	7	5	4	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:106810492A>T	uc001pjg.1	-	4	1290	c.900T>A	c.(898-900)AAT>AAA	p.N300K	GUCY1A2_uc010rvo.1_Missense_Mutation_p.N300K|GUCY1A2_uc009yxn.1_Missense_Mutation_p.N300K	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	300					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		TCTTCATGATATTAGTATTTT	0.423													51	94	---	---	---	---	PASS	T	106810492	T	T	106810492	3	4	96	1	0	0	0	0	1	0	0	0	6893	446	16	5	1318	5	GUCY1A2	11	106810492	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	2902157	106810492	28196024	188	35936										
MLL	4297	broad.mit.edu	37	chr11	118368740	118368740	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gaagtgtttgaagatgatgaCggatcactaaagaatgtgca	12	4	1	5			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:118368740C>A	uc001pta.2	+	21	5768	c.5745C>A	c.(5743-5745)GAC>GAA	p.D1915E	MLL_uc001ptb.2_Missense_Mutation_p.D1918E	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1915					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		AAGATGATGACGGATCACTAA	0.403			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								80	193	---	---	---	---	PASS	A	118368740	A	A	118368740	3	1	96	1	0	0	0	0	1	0	0	0	9620	535	19	1	5827	1	MLL	11	118368740	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	11558248	118368740	16637776	189	35937										
TMEM25	84866	broad.mit.edu	37	chr11	118403023	118403023	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agctgcaggaggccagcaccTcaagactgctgagcgtggga	15	11	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:118403023T>A	uc010rye.1	+	3	403	c.229T>A	c.(229-231)TCA>ACA	p.S77T	TMEM25_uc010ryd.1_Missense_Mutation_p.S77T|TMEM25_uc001ptk.3_Missense_Mutation_p.S77T|TMEM25_uc001pth.2_Missense_Mutation_p.S77T|TMEM25_uc009zad.2_Missense_Mutation_p.S77T|TMEM25_uc001pti.2_Intron|TMEM25_uc010ryf.1_Missense_Mutation_p.S77T|TMEM25_uc001ptl.2_Missense_Mutation_p.S77T|TMEM25_uc001ptm.2_Missense_Mutation_p.S77T|TMEM25_uc001ptn.2_Missense_Mutation_p.S77T	NM_032780	NP_116169	Q86YD3	TMM25_HUMAN	transmembrane protein 25 isoform 1	77	Extracellular (Potential).|Ig-like.					extracellular region|integral to membrane|plasma membrane					0	all_hematologic(175;0.0349)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)		BRCA - Breast invasive adenocarcinoma(274;3.04e-05)		GGCCAGCACCTCAAGACTGCT	0.642													27	83	---	---	---	---	PASS	A	118403023	A	A	118403023	3	1	96	1	0	0	0	0	1	0	0	0	16147	1551	54	5	235	5	TMEM25	11	118403023	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	34283	118403023	16603493	190	35938										
POU2F3	25833	broad.mit.edu	37	chr11	120176496	120176496	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aagtggctgaatgatgcaggTaggcctcgcaaacacggatg	14	8	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:120176496T>A	uc001pxc.2	+	8	871	c.769_splice	c.e8+2	p.E257_splice	POU2F3_uc010rzk.1_Splice_Site_p.E211_splice|POU2F3_uc010rzl.1_Splice_Site_p.E187_splice|POU2F3_uc001pxe.1_Splice_Site_p.E42_splice	NM_014352	NP_055167	Q9UKI9	PO2F3_HUMAN	POU transcription factor						negative regulation by host of viral transcription	cytoplasm	sequence-specific DNA binding			ovary(1)|skin(1)	2		Breast(109;0.0011)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;6.85e-06)		ATGATGCAGGTAGGCCTCGCA	0.562													9	101	---	---	---	---	PASS	A	120176496	A	A	120176496	5	1	96	1	0	0	0	0	0	0	1	0	12273	1652	57	5	801	5	POU2F3	11	120176496	Splice_Site	SNP	T	TCGA-43-2578-01A-01D-1522-08	1773473	120176496	14830020	191	35939										
TECTA	7007	broad.mit.edu	37	chr11	121023771	121023771	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cacagctgcggctgctactcCgatggcaaatattacgaggt	11	11	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:121023771C>A	uc010rzo.1	+	12	4287	c.4287C>A	c.(4285-4287)TCC>TCA	p.S1429S		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1429					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GCTGCTACTCCGATGGCAAAT	0.572													13	15	---	---	---	---	PASS	A	121023771	A	A	121023771	2	1	96	1	0	0	0	0	0	0	0	1	15744	639	23	1		1	TECTA	11	121023771	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	847275	121023771	13982745	192	35940										
OR8D4	338662	broad.mit.edu	37	chr11	123777196	123777196	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttctttcaggattaactgaaCaagcagagcttcagctgccc	8	11	3	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:123777196C>G	uc010saa.1	+	1	58	c.58C>G	c.(58-60)CAA>GAA	p.Q20E		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		ATTAACTGAACAAGCAGAGCT	0.418													79	186	---	---	---	---	PASS	G	123777196	G	G	123777196	3	3	96	1	0	0	0	0	1	0	0	0	11233	479	17	4	60	4	OR8D4	11	123777196	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	2753425	123777196	11229320	193	35941										
ADAMTS8	11095	broad.mit.edu	37	chr11	130284617	130284617	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gttggggcagtggcggaaatCcggcccaaagatctgcctgc	15	11	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:130284617C>A	uc001qgg.3	-	5	1733	c.1375G>T	c.(1375-1377)GAT>TAT	p.D459Y	ADAMTS8_uc001qgf.2_5'Flank	NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	459	Disintegrin.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		TGGCGGAAATCCGGCCCAAAG	0.672													54	82	---	---	---	---	PASS	A	130284617	A	A	130284617	3	1	96	1	0	0	0	0	1	0	0	0	272	855	30	2	1314	2	ADAMTS8	11	130284617	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	6507421	130284617	4721899	194	35942										
IGSF9B	22997	broad.mit.edu	37	chr11	133791226	133791226	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gccgcgggctggccctggtcGtcggaggattctgacggcgc	18	13	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr11:133791226G>A	uc001qgx.3	-	18	2625	c.2394C>T	c.(2392-2394)GAC>GAT	p.D798D		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	798	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		GGCCCTGGTCGTCGGAGGATT	0.642													15	20	---	---	---	---	PASS	A	133791226	A	A	133791226	2	1	96	1	0	0	0	0	0	0	0	1	7606	1136	40	1		1	IGSF9B	11	133791226	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	3506609	133791226	1215290	195	35943										
GPR162	27239	broad.mit.edu	37	chr12	6933072	6933072	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggctgaggataggatggctcGgggcggggcgggggcagagg	25	6	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:6933072G>A	uc001qqw.1	+	2	543	c.8G>A	c.(7-9)CGG>CAG	p.R3Q	GPR162_uc010sfn.1_Missense_Mutation_p.R3Q|GPR162_uc001qqx.1_Intron|GPR162_uc009zfd.1_Intron|GPR162_uc001qqy.1_5'Flank	NM_019858	NP_062832	Q16538	GP162_HUMAN	G protein-coupled receptor 162 isoform 2	3	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AGGATGGCTCGGGGCGGGGCG	0.677													7	5	---	---	---	---	PASS	A	6933072	A	A	6933072	3	1	96	1	0	0	0	0	1	0	0	0	6666	1116	39	1	29	1	GPR162	12	6933072	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08		6933072	126918823	196	35944										
ACSM4	341392	broad.mit.edu	37	chr12	7459250	7459250	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgccaacgtgctcaccaagcCctgtggcctgcagagaggag	13	13	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:7459250C>T	uc001qsx.1	+	2	323	c.323C>T	c.(322-324)CCC>CTC	p.P108L		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	108					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						CTCACCAAGCCCTGTGGCCTG	0.562													4	23	---	---	---	---	PASS	T	7459250	T	T	7459250	3	4	96	1	0	0	0	0	1	0	0	0	186	623	22	3	329	3	ACSM4	12	7459250	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	526178	7459250	126392645	197	35945										
TAS2R19	259294	broad.mit.edu	37	chr12	11174518	11174518	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tatggaccttggtgctgggaTcttgagatcctttgctatgg	13	7	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:11174518T>C	uc010shj.1	-	1	653	c.653A>G	c.(652-654)GAT>GGT	p.D218G	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176888	NP_795369	P59542	T2R19_HUMAN	taste receptor, type 2, member 19	218	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			skin(1)	1						GGTGCTGGGATCTTGAGATCC	0.393													121	327	---	---	---	---	PASS	C	11174518	C	C	11174518	3	2	96	1	0	0	0	0	1	0	0	0	15567	1435	50	5	249	5	TAS2R19	12	11174518	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	3715268	11174518	122677377	198	35946										
ZCRB1	85437	broad.mit.edu	37	chr12	42706889	42706889	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttaatcactaagttcttcctCatcactgaaatatgtgcttt	4	9	4	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:42706889C>T	uc001rmz.2	-	8	843	c.634G>A	c.(634-636)GAG>AAG	p.E212K	PPHLN1_uc001rmy.2_Intron	NM_033114	NP_149105	Q8TBF4	ZCRB1_HUMAN	zinc finger CCHC-type and RNA binding motif 1	212					mRNA processing	nucleoplasm|U12-type spliceosomal complex	nucleotide binding|RNA binding|zinc ion binding			skin(1)	1	all_cancers(12;0.000348)|Breast(8;0.221)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0689)		AGTTCTTCCTCATCACTGAAA	0.328													10	66	---	---	---	---	PASS	T	42706889	T	T	42706889	3	4	96	1	0	0	0	0	1	0	0	0	17593	835	29	2	23	2	ZCRB1	12	42706889	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	31532371	42706889	91145006	199	35947										
KRT79	338785	broad.mit.edu	37	chr12	53227899	53227899	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cacctgtgccggggccacagTgggccccgccaccactgcca	12	19	0	0	rs112108733	byFrequency	TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:53227899T>C	uc001sbb.2	-	1	179	c.146A>G	c.(145-147)CAC>CGC	p.H49R		NM_175834	NP_787028	Q5XKE5	K2C79_HUMAN	keratin 6L	49	Head.					keratin filament	structural molecule activity			ovary(2)|skin(2)	4						GGGGCCACAGTGGGCCCCGCC	0.652													3	25	---	---	---	---	PASS	C	53227899	C	C	53227899	3	2	96	1	0	0	0	0	1	0	0	0	8492	1696	59	5	1497	5	KRT79	12	53227899	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	10521010	53227899	80623996	200	35948										
SUOX	6821	broad.mit.edu	37	chr12	56398187	56398187	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gcatccatccctctggctcgGgccatggaccctgaagctga	11	15	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:56398187G>C	uc001six.2	+	6	1340	c.1014G>C	c.(1012-1014)CGG>CGC	p.R338R	SUOX_uc001siy.2_Silent_p.R338R|SUOX_uc001siz.2_Silent_p.R338R|SUOX_uc001sja.2_Silent_p.R338R	NM_000456	NP_000447	P51687	SUOX_HUMAN	sulfite oxidase precursor	338	Molybdenum-pterin domain (By similarity).					mitochondrial intermembrane space	electron carrier activity|molybdenum ion binding|sulfite oxidase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.119)			CTCTGGCTCGGGCCATGGACC	0.602													14	61	---	---	---	---	PASS	C	56398187	C	C	56398187	2	2	96	1	0	0	0	0	0	0	0	1	15392	1219	43	4		4	SUOX	12	56398187	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	3170288	56398187	77453708	201	35949										
LRRC10	376132	broad.mit.edu	37	chr12	70003884	70003884	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gcttttctagggtcgggctcTggcgtctcctctgcccatct	11	14	5	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:70003884T>C	uc001svc.2	-	1	1059	c.735A>G	c.(733-735)CCA>CCG	p.P245P		NM_201550	NP_963844	Q5BKY1	LRC10_HUMAN	leucine rich repeat containing 10	245						nucleus					0	all_cancers(2;2.83e-105)|Breast(13;9.83e-07)|Esophageal squamous(21;0.187)		Epithelial(6;1.98e-18)|GBM - Glioblastoma multiforme(2;7.43e-12)|Lung(24;0.000185)|OV - Ovarian serous cystadenocarcinoma(12;0.00126)|STAD - Stomach adenocarcinoma(21;0.00501)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			GGTCGGGCTCTGGCGTCTCCT	0.582													10	82	---	---	---	---	PASS	C	70003884	C	C	70003884	2	2	96	1	0	0	0	0	0	0	0	1	8967	1567	55	5		5	LRRC10	12	70003884	Silent	SNP	T	TCGA-43-2578-01A-01D-1522-08	13605697	70003884	63848011	202	35950										
BEST3	144453	broad.mit.edu	37	chr12	70048965	70048965	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	accagggtcttcttcacagtTgaatatattttcctcagcgc	7	11	4	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:70048965T>A	uc001svg.2	-	10	1956	c.1729A>T	c.(1729-1731)AAC>TAC	p.N577Y	BEST3_uc001svd.1_Intron|BEST3_uc001sve.1_Intron|BEST3_uc001svf.2_Missense_Mutation_p.N364Y|BEST3_uc010stm.1_Missense_Mutation_p.N471Y	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	577	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			TCTTCACAGTTGAATATATTT	0.552													40	83	---	---	---	---	PASS	A	70048965	A	A	70048965	3	1	96	1	0	0	0	0	1	0	0	0	1406	1812	63	5	281	5	BEST3	12	70048965	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	45081	70048965	63802930	203	35951										
SPIC	121599	broad.mit.edu	37	chr12	101873438	101873438	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctgctatggagtgttgcctaCagaggagcctgtctataatt	11	8	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:101873438C>G	uc001tid.2	+	4	335	c.176C>G	c.(175-177)ACA>AGA	p.T59R	SPIC_uc009zua.2_5'UTR|SPIC_uc010svp.1_Missense_Mutation_p.T58R	NM_152323	NP_689536	Q8N5J4	SPIC_HUMAN	Spi-C transcription factor (Spi-1/PU.1 related)	59						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						GTGTTGCCTACAGAGGAGCCT	0.388													30	79	---	---	---	---	PASS	G	101873438	G	G	101873438	3	3	96	1	0	0	0	0	1	0	0	0	15050	478	17	4	180	4	SPIC	12	101873438	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	31824473	101873438	31978457	204	35952										
TBX5	6910	broad.mit.edu	37	chr12	114823354	114823354	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tttggcaaagggattattctCaatctttaattgcgtgatct	8	6	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:114823354C>A	uc001tvo.2	-	7	1177	c.682G>T	c.(682-684)GAG>TAG	p.E228*	TBX5_uc001tvp.2_Nonsense_Mutation_p.E228*|TBX5_uc001tvq.2_Nonsense_Mutation_p.E178*|TBX5_uc010syv.1_Nonsense_Mutation_p.E228*	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	228	T-box.				cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		GGATTATTCTCAATCTTTAAT	0.418													4	138	---	---	---	---	PASS	A	114823354	A	A	114823354	4	1	96	1	0	0	0	0	0	1	0	0	15658	835	29	2	953	2	TBX5	12	114823354	Nonsense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	12949916	114823354	19028541	205	35953										
TBX5	6910	broad.mit.edu	37	chr12	114836513	114836513	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggcatggcgggctcagctttGcccgtcacagacctagatga	13	12	2	3	rs142293206		TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:114836513G>A	uc001tvo.2	-	5	870	c.375C>T	c.(373-375)GGC>GGT	p.G125G	TBX5_uc001tvp.2_Silent_p.G125G|TBX5_uc001tvq.2_Silent_p.G75G|TBX5_uc010syv.1_Silent_p.G125G	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	125	T-box.				cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		GCTCAGCTTTGCCCGTCACAG	0.622													5	7	---	---	---	---	PASS	A	114836513	A	A	114836513	2	1	96	1	0	0	0	0	0	0	0	1	15658	1306	46	3		3	TBX5	12	114836513	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	13159	114836513	19015382	206	35954										
RNF10	9921	broad.mit.edu	37	chr12	120972765	120972765	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cagccggcgagtctaaacccAagagcggtaaggacgggcct	14	12	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:120972765A>C	uc001typ.3	+	1	634	c.151A>C	c.(151-153)AAG>CAG	p.K51Q	RNF10_uc010szk.1_RNA	NM_014868	NP_055683	Q8N5U6	RNF10_HUMAN	ring finger protein 10	51	Ser-rich.				negative regulation of Schwann cell proliferation|positive regulation of myelination|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GTCTAAACCCAAGAGCGGTAA	0.697													3	6	---	---	---	---	PASS	C	120972765	C	C	120972765	3	2	96	1	0	0	0	0	1	0	0	0	13422	131	5	5	153	5	RNF10	12	120972765	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	6136252	120972765	12879130	207	35955										
SPPL3	121665	broad.mit.edu	37	chr12	121206828	121206828	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aggctcggcaggcggacaaaGgcgatcatggcgacacagag	16	10	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:121206828G>A	uc001tzd.2	-	7	1018	c.537C>T	c.(535-537)GCC>GCT	p.A179A	SPPL3_uc009zwz.2_Silent_p.A179A|SPPL3_uc001tzc.2_Silent_p.A9A	NM_139015	NP_620584	Q8TCT6	PSL4_HUMAN	signal peptide peptidase 3	180	Helical; (Potential).					integral to membrane	aspartic-type endopeptidase activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GGCGGACAAAGGCGATCATGG	0.567													4	9	---	---	---	---	PASS	A	121206828	A	A	121206828	2	1	96	1	0	0	0	0	0	0	0	1	15089	987	35	3		3	SPPL3	12	121206828	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	234063	121206828	12645067	208	35956										
NCOR2	9612	broad.mit.edu	37	chr12	124968189	124968189	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctggcccgtggccagcagggGtgacggtcgcagcagggggt	20	11	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:124968189G>A	uc010tba.1	-	3	481	c.364C>T	c.(364-366)CCC>TCC	p.P122S	NCOR2_uc010tay.1_Missense_Mutation_p.P122S|NCOR2_uc010taz.1_Missense_Mutation_p.P122S|NCOR2_uc010tbb.1_Missense_Mutation_p.P122S|NCOR2_uc010tbc.1_Missense_Mutation_p.P122S|NCOR2_uc001ugj.1_Missense_Mutation_p.P122S|NCOR2_uc001ugk.1_Missense_Mutation_p.P122S|uc001ugl.2_5'Flank	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	122					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GCCAGCAGGGGTGACGGTCGC	0.642													3	12	---	---	---	---	PASS	A	124968189	A	A	124968189	3	1	96	1	0	0	0	0	1	0	0	0	10236	1261	44	3	7384	3	NCOR2	12	124968189	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	3761361	124968189	8883706	209	35957										
BRI3BP	140707	broad.mit.edu	37	chr12	125509609	125509609	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccgcgcgctcctgctggtcgGcgtcgtcctcctggcctact	12	18	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:125509609G>C	uc001uha.1	+	3	532	c.389G>C	c.(388-390)GGC>GCC	p.G130A		NM_080626	NP_542193	Q8WY22	BRI3B_HUMAN	BRI3-binding protein	130	Helical; (Potential).					integral to membrane|mitochondrial outer membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.35e-05)|Epithelial(86;0.000426)|all cancers(50;0.00576)		CTGCTGGTCGGCGTCGTCCTC	0.637													32	51	---	---	---	---	PASS	C	125509609	C	C	125509609	3	2	96	1	0	0	0	0	1	0	0	0	1513	1203	42	4	399	4	BRI3BP	12	125509609	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	541420	125509609	8342286	210	35958										
POLE	5426	broad.mit.edu	37	chr12	133250183	133250183	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggggctgctccgtggccatcCggcacatgtcctccgggtct	14	15	1	0	rs151273553	byFrequency	TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr12:133250183C>T	uc001uks.1	-	13	1381	c.1337G>A	c.(1336-1338)CGG>CAG	p.R446Q	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Missense_Mutation_p.R419Q	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	446					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CGTGGCCATCCGGCACATGTC	0.642								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					4	174	---	---	---	---	PASS	T	133250183	T	T	133250183	3	4	96	1	0	0	0	0	1	0	0	0	12196	652	23	1	5671	1	POLE	12	133250183	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	7740574	133250183	601712	211	35959										
EFHA1	221154	broad.mit.edu	37	chr13	22140935	22140935	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aaaaaaaaagacccaactcaCgttccatttgctcaaacatc	3	12	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr13:22140935C>G	uc001uof.2	-	2	380	c.358_splice	c.e2+1	p.R120_splice		NM_152726	NP_689939	Q8IYU8	EFHA1_HUMAN	EF-hand domain family, member A1								calcium ion binding				0		all_cancers(29;1.24e-15)|all_epithelial(30;5.4e-14)|all_lung(29;2.04e-13)|Lung SC(185;0.0367)		all cancers(112;0.000171)|Epithelial(112;0.000398)|OV - Ovarian serous cystadenocarcinoma(117;0.00641)|Lung(94;0.189)		ACCCAACTCACGTTCCATTTG	0.353													6	14	---	---	---	---	PASS	G	22140935	G	G	22140935	5	3	96	1	0	0	0	0	0	0	1	0	4943	550	19	4	989	4	EFHA1	13	22140935	Splice_Site	SNP	C	TCGA-43-2578-01A-01D-1522-08		22140935	93028943	212	35960										
COG6	57511	broad.mit.edu	37	chr13	40263924	40263924	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agaaaatattcaagaagttgTtgggcatatcactgaaggtg	11	4	2	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr13:40263924T>A	uc001uxh.2	+	11	1137	c.1037T>A	c.(1036-1038)GTT>GAT	p.V346D	COG6_uc001uxi.2_Missense_Mutation_p.V294D|COG6_uc010acb.2_Missense_Mutation_p.V346D	NM_020751	NP_065802	Q9Y2V7	COG6_HUMAN	component of oligomeric golgi complex 6 isoform	346					protein transport	Golgi membrane|Golgi transport complex				kidney(1)|skin(1)	2		Lung NSC(96;0.000124)|Breast(139;0.0199)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.03e-09)|Epithelial(112;7e-07)|OV - Ovarian serous cystadenocarcinoma(117;0.00015)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.0168)		CAAGAAGTTGTTGGGCATATC	0.274													20	24	---	---	---	---	PASS	A	40263924	A	A	40263924	3	1	96	1	0	0	0	0	1	0	0	0	3662	1725	60	5	1079	5	COG6	13	40263924	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	18122989	40263924	74905954	213	35961										
RB1	5925	broad.mit.edu	37	chr13	49030426	49030426	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgcagagacacaagcaacctCagccttccagacccagaagc	8	15	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr13:49030426C>G	uc001vcb.2	+	19	2067	c.1901C>G	c.(1900-1902)TCA>TGA	p.S634*		NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	634	Pocket; binds T and E1A.|Spacer.				androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(6)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CAAGCAACCTCAGCCTTCCAG	0.318		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			19	24	---	---	---	---	PASS	G	49030426	G	G	49030426	4	3	96	1	0	0	0	0	0	1	0	0	13098	838	29	2	1975	2	RB1	13	49030426	Nonsense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	8766502	49030426	66139452	214	35962										
F10	2159	broad.mit.edu	37	chr13	113798324	113798324	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cttcgacctgcttgacttcaAccagacgcagcctgagaggg	11	13	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr13:113798324A>G	uc001vsx.2	+	6	719	c.662A>G	c.(661-663)AAC>AGC	p.N221S	F10_uc010agq.1_RNA|F10_uc001vsy.2_Missense_Mutation_p.N221S|F10_uc001vsz.2_Missense_Mutation_p.N221S	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	221					blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTTGACTTCAACCAGACGCAG	0.607													47	70	---	---	---	---	PASS	G	113798324	G	G	113798324	3	3	96	1	0	0	0	0	1	0	0	0	5336	43	2	5	684	5	F10	13	113798324	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	64767898	113798324	1371554	215	35963										
OR11H12	440153	broad.mit.edu	37	chr14	19378028	19378028	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cttgctatctgccgtcccttGctctatcctaatatcatgac	5	14	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr14:19378028G>A	uc010tkp.1	+	1	435	c.435G>A	c.(433-435)TTG>TTA	p.L145L		NM_001013354	NP_001013372	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H,	145	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GCCGTCCCTTGCTCTATCCTA	0.443													5	306	---	---	---	---	PASS	A	19378028	A	A	19378028	2	1	96	1	0	0	0	0	0	0	0	1	10927	1310	46	3		3	OR11H12	14	19378028	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08		19378028	87971512	216	35964										
OR4Q3	441669	broad.mit.edu	37	chr14	20215938	20215938	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtgagatgtttttgctgacaGtcatggcctatgacaggtat	12	6	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr14:20215938G>T	uc010tkt.1	+	1	352	c.352G>T	c.(352-354)GTC>TTC	p.V118F		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	118	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TTTGCTGACAGTCATGGCCTA	0.502													93	70	---	---	---	---	PASS	T	20215938	T	T	20215938	3	4	96	1	0	0	0	0	1	0	0	0	11081	1029	36	3	354	3	OR4Q3	14	20215938	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	837910	20215938	87133602	217	35965										
MYH6	4624	broad.mit.edu	37	chr14	23873974	23873974	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcacctatggctgcaatgctGgcaaagtactggatgacacg	11	10	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr14:23873974G>T	uc001wjv.2	-	7	655	c.588C>A	c.(586-588)GCC>GCA	p.A196A	MYH6_uc010akp.1_Silent_p.A196A	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	196	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CTGCAATGCTGGCAAAGTACT	0.577													46	35	---	---	---	---	PASS	T	23873974	T	T	23873974	2	4	96	1	0	0	0	0	0	0	0	1	10038	1335	47	3		3	MYH6	14	23873974	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	3658036	23873974	83475566	218	35966										
RGS6	9628	broad.mit.edu	37	chr14	72985064	72985064	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctgctcccacttcaggttctGgctggctgtccaagatctta	9	13	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr14:72985064G>T	uc001xna.3	+	15	1620	c.1097G>T	c.(1096-1098)TGG>TTG	p.W366L	RGS6_uc010ttn.1_Missense_Mutation_p.W366L|RGS6_uc001xmx.3_Missense_Mutation_p.W366L|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.W366L|RGS6_uc010ttp.1_Missense_Mutation_p.W297L|RGS6_uc001xmz.1_Missense_Mutation_p.W227L	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	366	RGS.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		TTCAGGTTCTGGCTGGCTGTC	0.537													44	61	---	---	---	---	PASS	T	72985064	T	T	72985064	3	4	96	1	0	0	0	0	1	0	0	0	13309	1357	47	3	1151	3	RGS6	14	72985064	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	49111090	72985064	34364476	219	35967										
FAM161B	145483	broad.mit.edu	37	chr14	74413274	74413274	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccccggacagctcctctcctGcctctgtgtctgcgaaggac	10	17	3	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr14:74413274G>T	uc001xpd.1	-	2	195	c.89C>A	c.(88-90)GCA>GAA	p.A30E		NM_152445	NP_689658			hypothetical protein LOC145483											ovary(1)	1						CTCCTCTCCTGCCTCTGTGTC	0.468													148	111	---	---	---	---	PASS	T	74413274	T	T	74413274	3	4	96	1	0	0	0	0	1	0	0	0	5473	1319	46	3	1886	3	FAM161B	14	74413274	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1428210	74413274	32936266	220	35968										
C14orf115	55237	broad.mit.edu	37	chr14	74825298	74825298	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gatgtagagggagggccttcCagagagggggccctgcagga	19	8	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr14:74825298C>T	uc001xpw.3	+	2	2003	c.1812C>T	c.(1810-1812)TCC>TCT	p.S604S		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	604					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		GAGGGCCTTCCAGAGAGGGGG	0.662													47	28	---	---	---	---	PASS	T	74825298	T	T	74825298	2	4	96	1	0	0	0	0	0	0	0	1	1740	581	21	3		3	C14orf115	14	74825298	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	412024	74825298	32524242	221	35969										
MLH3	27030	broad.mit.edu	37	chr14	75516158	75516158	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aaataacgatttcccactttCtctacatcatcactccccat	1	15	3	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr14:75516158C>G	uc001xrd.1	-	2	417	c.201G>C	c.(199-201)GAG>GAC	p.E67D	MLH3_uc001xre.1_Missense_Mutation_p.E67D|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	67					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		TTCCCACTTTCTCTACATCAT	0.438								MMR					5	222	---	---	---	---	PASS	G	75516158	G	G	75516158	3	3	96	1	0	0	0	0	1	0	0	0	9618	912	32	2	4208	2	MLH3	14	75516158	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	690860	75516158	31833382	222	35970										
FOXN3	1112	broad.mit.edu	37	chr14	89878560	89878560	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtgtcatcgtccaggtcctgGacggggctgacactcctgag	14	12	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr14:89878560G>T	uc001xxo.3	-	2	398	c.261C>A	c.(259-261)GTC>GTA	p.V87V	FOXN3_uc001xxn.3_Silent_p.V87V|FOXN3_uc010atk.2_Silent_p.V87V|FOXN3_uc001xxp.2_Silent_p.V87V	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1	87					DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|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			skin(2)|ovary(1)	3						CCAGGTCCTGGACGGGGCTGA	0.592													49	89	---	---	---	---	PASS	T	89878560	T	T	89878560	2	4	96	1	0	0	0	0	0	0	0	1	6021	1161	41	2		2	FOXN3	14	89878560	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	14362402	89878560	17470980	223	35971										
SLC24A4	123041	broad.mit.edu	37	chr14	92900300	92900300	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgttctccaataaggagcgaCagcacggagccgtcctgctg	12	12	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr14:92900300C>T	uc001yak.2	+	3	259	c.235C>T	c.(235-237)CAG>TAG	p.Q79*	SLC24A4_uc001yai.2_Nonsense_Mutation_p.Q32*|SLC24A4_uc010twm.1_Nonsense_Mutation_p.Q96*|SLC24A4_uc001yaj.2_Nonsense_Mutation_p.Q79*	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	96	Extracellular (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		TAAGGAGCGACAGCACGGAGC	0.542													11	125	---	---	---	---	PASS	T	92900300	T	T	92900300	4	4	96	1	0	0	0	0	0	1	0	0	14468	479	17	3	245	3	SLC24A4	14	92900300	Nonsense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	3021740	92900300	14449240	224	35972										
C14orf177	283598	broad.mit.edu	37	chr14	99183497	99183497	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cagagacatgaagaaacttcTccagggtcatgtaatcacca	8	10	3	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr14:99183497T>A	uc001yfz.1	+	4	683	c.264T>A	c.(262-264)TCT>TCA	p.S88S		NM_182560	NP_872366	Q52M58	CN177_HUMAN	hypothetical protein LOC283598	88											0		Melanoma(154;0.128)				AAGAAACTTCTCCAGGGTCAT	0.438													96	82	---	---	---	---	PASS	A	99183497	A	A	99183497	2	1	96	1	0	0	0	0	0	0	0	1	1760	1538	54	5		5	C14orf177	14	99183497	Silent	SNP	T	TCGA-43-2578-01A-01D-1522-08	6283197	99183497	8166043	225	35973										
CYP46A1	10858	broad.mit.edu	37	chr14	100188385	100188385	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	attgatggggtcagagtcccCggcaacaccccgctcttggt	12	13	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr14:100188385C>T	uc001ygo.2	+	12	1158	c.1158C>T	c.(1156-1158)CCC>CCT	p.P386P	CYP46A1_uc001ygp.2_Intron	NM_006668	NP_006659	Q9Y6A2	CP46A_HUMAN	cytochrome P450, family 46	386					bile acid biosynthetic process|cholesterol catabolic process|nervous system development|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol 24-hydroxylase activity|electron carrier activity|heme binding|steroid hydroxylase activity				0		Melanoma(154;0.0866)|all_epithelial(191;0.179)				TCAGAGTCCCCGGCAACACCC	0.627													5	106	---	---	---	---	PASS	T	100188385	T	T	100188385	2	4	96	1	0	0	0	0	0	0	0	1	4182	639	23	1		1	CYP46A1	14	100188385	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	1004888	100188385	7161155	226	35974										
CDC42BPB	9578	broad.mit.edu	37	chr14	103412890	103412890	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acatgcacgacctgattcctCagccggtttttatgaaggat	9	10	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr14:103412890C>A	uc001ymi.1	-	28	3895	c.3663G>T	c.(3661-3663)CTG>CTT	p.L1221L	CDC42BPB_uc001ymj.1_Silent_p.L323L	NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	1221					actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		CCTGATTCCTCAGCCGGTTTT	0.517													17	117	---	---	---	---	PASS	A	103412890	A	A	103412890	2	1	96	1	0	0	0	0	0	0	0	1	3073	813	29	2		2	CDC42BPB	14	103412890	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	3224505	103412890	3936650	227	35975										
CYFIP1	23191	broad.mit.edu	37	chr15	22999410	22999410	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgcggcctgtccatgtttgaGgtcatcctgacacggatccg	12	12	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr15:22999410G>C	uc001yus.2	+	29	3386	c.3282G>C	c.(3280-3282)GAG>GAC	p.E1094D	CYFIP1_uc001yut.2_Missense_Mutation_p.E1094D|CYFIP1_uc001yuu.2_Missense_Mutation_p.E663D|CYFIP1_uc001yuv.2_Missense_Mutation_p.E288D	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	1094					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		CCATGTTTGAGGTCATCCTGA	0.592													5	74	---	---	---	---	PASS	C	22999410	C	C	22999410	3	2	96	1	0	0	0	0	1	0	0	0	4137	991	35	4	3773	4	CYFIP1	15	22999410	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08		22999410	79531982	228	35976										
MKRN3	7681	broad.mit.edu	37	chr15	23811738	23811738	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agacatatgcgacatgtgtgGgctgcagaccttgcacccca	11	12	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr15:23811738G>T	uc001ywh.3	+	1	1285	c.809G>T	c.(808-810)GGG>GTG	p.G270V	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.G270V	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	270	Makorin-type Cys-His.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		GACATGTGTGGGCTGCAGACC	0.527													36	44	---	---	---	---	PASS	T	23811738	T	T	23811738	3	4	96	1	0	0	0	0	1	0	0	0	9608	1232	43	3	811	3	MKRN3	15	23811738	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	812328	23811738	78719654	229	35977										
IVD	3712	broad.mit.edu	37	chr15	40702942	40702942	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gcccactccaacctctgcatCaaccagcttgtacgcaatgg	7	16	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr15:40702942C>T	uc001zls.3	+	4	745	c.411C>T	c.(409-411)ATC>ATT	p.I137I	IVD_uc001zlq.2_Silent_p.I107I	NM_002225	NP_002216	P26440	IVD_HUMAN	isovaleryl Coenzyme A dehydrogenase isoform 1	134					leucine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|isovaleryl-CoA dehydrogenase activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;1.52e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.65e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0808)		ACCTCTGCATCAACCAGCTTG	0.542													37	29	---	---	---	---	PASS	T	40702942	T	T	40702942	2	4	96	1	0	0	0	0	0	0	0	1	7928	816	29	2		2	IVD	15	40702942	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	16891204	40702942	61828450	230	35978										
SCG3	29106	broad.mit.edu	37	chr15	51984508	51984508	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	caatatttcccaaatttctaTgcgctactgaaaagtattga	5	8	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr15:51984508T>C	uc002abh.2	+	7	1251	c.843T>C	c.(841-843)TAT>TAC	p.Y281Y	SCG3_uc010ufz.1_Silent_p.Y49Y	NM_013243	NP_037375	Q8WXD2	SCG3_HUMAN	secretogranin III isoform 1 precursor	281					platelet activation|platelet degranulation	extracellular region|stored secretory granule				ovary(1)	1				all cancers(107;0.00488)		CAAATTTCTATGCGCTACTGA	0.378													75	88	---	---	---	---	PASS	C	51984508	C	C	51984508	2	2	96	1	0	0	0	0	0	0	0	1	13892	1471	51	5		5	SCG3	15	51984508	Silent	SNP	T	TCGA-43-2578-01A-01D-1522-08	11281566	51984508	50546884	231	35979										
MEGF11	84465	broad.mit.edu	37	chr15	66223281	66223281	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggaaacggcacagacctctcCctggaaagggagggggtgaa	16	9	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr15:66223281C>T	uc002apm.2	-	11	1429	c.1288G>A	c.(1288-1290)GGA>AGA	p.G430R	MEGF11_uc002apl.2_Missense_Mutation_p.G355R|MEGF11_uc002apn.1_Missense_Mutation_p.G430R	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	430	EGF-like 7.					basolateral plasma membrane|integral to membrane				pancreas(1)	1						CAGACCTCTCCCTGGAAAGGG	0.428													16	18	---	---	---	---	PASS	T	66223281	T	T	66223281	3	4	96	1	0	0	0	0	1	0	0	0	9461	637	22	3	1898	3	MEGF11	15	66223281	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	14238773	66223281	36308111	232	35980										
MSLNL	401827	broad.mit.edu	37	chr16	825561	825561	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccgtggcagcccgtgggcgcCcttcccctctgcggaggcct	14	18	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr16:825561C>A	uc002cjz.1	-	5	1200	c.1200G>T	c.(1198-1200)AGG>AGT	p.R400S		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				breast(3)|ovary(1)	4						CCGTGGGCGCCCTTCCCCTCT	0.716													9	14	---	---	---	---	PASS	A	825561	A	A	825561	3	1	96	1	0	0	0	0	1	0	0	0	9882	622	22	3	2009	3	MSLNL	16	825561	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08		825561	89529192	233	35981										
ABCC1	4363	broad.mit.edu	37	chr16	16170234	16170234	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgccacattcacctgggccaGgagcgaccctcccacactga	9	17	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr16:16170234G>T	uc010bvi.2	+	15	2139	c.1964G>T	c.(1963-1965)AGG>ATG	p.R655M	ABCC1_uc010bvj.2_Missense_Mutation_p.R655M|ABCC1_uc010bvk.2_Missense_Mutation_p.R655M|ABCC1_uc010bvl.2_Missense_Mutation_p.R655M|ABCC1_uc010bvm.2_Missense_Mutation_p.R655M|ABCC1_uc002del.3_Missense_Mutation_p.R539M	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	655	ABC transporter 1.|Cytoplasmic.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	ACCTGGGCCAGGAGCGACCCT	0.418													14	37	---	---	---	---	PASS	T	16170234	T	T	16170234	3	4	96	1	0	0	0	0	1	0	0	0	49	1000	35	3	2022	3	ABCC1	16	16170234	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	15344673	16170234	74184519	234	35982										
ACSM1	116285	broad.mit.edu	37	chr16	20702439	20702439	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gaccggcagcgcagctgtgaAggggcagggtggatgttgtg	20	7	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr16:20702439A>T	uc002dhm.1	-	1	140	c.72T>A	c.(70-72)CCT>CCA	p.P24P	ACSM1_uc002dhn.1_RNA|ACSM1_uc010bwg.1_Silent_p.P24P	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	24					benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						GCAGCTGTGAAGGGGCAGGGT	0.502													72	192	---	---	---	---	PASS	T	20702439	T	T	20702439	2	4	96	1	0	0	0	0	0	0	0	1	182	59	3	5		5	ACSM1	16	20702439	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	4532205	20702439	69652314	235	35983										
DNAH3	55567	broad.mit.edu	37	chr16	21030989	21030989	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttggtgagtttgacgcttttGggccttgggtggttatcatc	14	6	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr16:21030989G>T	uc010vbe.1	-	41	5979	c.5979C>A	c.(5977-5979)CCC>CCA	p.P1993P		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1993					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TGACGCTTTTGGGCCTTGGGT	0.413													63	171	---	---	---	---	PASS	T	21030989	T	T	21030989	2	4	96	1	0	0	0	0	0	0	0	1	4603	1335	47	3		3	DNAH3	16	21030989	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	328550	21030989	69323764	236	35984										
PRKCB	5579	broad.mit.edu	37	chr16	23999892	23999892	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	attctcctgccctggcgctgAcaagggtccagcctccgatg	11	15	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr16:23999892A>T	uc002dmd.2	+	3	466	c.269A>T	c.(268-270)GAC>GTC	p.D90V	PRKCB_uc002dme.2_Missense_Mutation_p.D90V	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	90					apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	CCTGGCGCTGACAAGGGTCCA	0.428													36	78	---	---	---	---	PASS	T	23999892	T	T	23999892	3	4	96	1	0	0	0	0	1	0	0	0	12508	275	10	5	279	5	PRKCB	16	23999892	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	2968903	23999892	66354861	237	35985										
NETO2	81831	broad.mit.edu	37	chr16	47117149	47117149	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agattagaagtcaatggataTggatgcttgtgcagaatctt	11	4	2	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr16:47117149T>A	uc002eer.1	-	9	1946	c.1561A>T	c.(1561-1563)ATA>TTA	p.I521L	NETO2_uc002eeq.1_Missense_Mutation_p.I256L|NETO2_uc010vgf.1_Missense_Mutation_p.I378L	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	521	Cytoplasmic (Potential).					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				TCAATGGATATGGATGCTTGT	0.507										HNSCC(25;0.065)			66	64	---	---	---	---	PASS	A	47117149	A	A	47117149	3	1	96	1	0	0	0	0	1	0	0	0	10340	1464	51	5	20	5	NETO2	16	47117149	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	23117257	47117149	43237604	238	35986										
ZNF423	23090	broad.mit.edu	37	chr16	49672234	49672234	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gagcacgtgcttctccagctCctccgtctggctgaaggtgt	12	13	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr16:49672234C>T	uc002efs.2	-	5	1127	c.829G>A	c.(829-831)GAG>AAG	p.E277K	ZNF423_uc010vgn.1_Missense_Mutation_p.E160K	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	277	C2H2-type 6.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				TTCTCCAGCTCCTCCGTCTGG	0.582													22	28	---	---	---	---	PASS	T	49672234	T	T	49672234	3	4	96	1	0	0	0	0	1	0	0	0	17895	864	30	2	3045	2	ZNF423	16	49672234	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	2555085	49672234	40682519	239	35987										
SALL1	6299	broad.mit.edu	37	chr16	51172639	51172639	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgaaagctcttccacaaataGtgcaagcaaagggtttctct	8	9	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr16:51172639G>T	uc010vgs.1	-	2	3525	c.3494C>A	c.(3493-3495)ACT>AAT	p.T1165N	SALL1_uc010vgr.1_Missense_Mutation_p.T1068N|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	1165	C2H2-type 9.				adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TCCACAAATAGTGCAAGCAAA	0.483													26	29	---	---	---	---	PASS	T	51172639	T	T	51172639	3	4	96	1	0	0	0	0	1	0	0	0	13810	1029	36	3	488	3	SALL1	16	51172639	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1500405	51172639	39182114	240	35988										
C16orf48	84080	broad.mit.edu	37	chr16	67700143	67700143	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtcagcaagtccagcttcagCgcgtttccctcgaggcgccc	11	16	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr16:67700143C>T	uc002etw.1	-	2	394	c.111G>A	c.(109-111)GCG>GCA	p.A37A	C16orf48_uc002etv.1_5'Flank|C16orf48_uc010cem.1_Silent_p.A37A|C16orf86_uc002etx.1_5'Flank|C16orf86_uc002ety.2_5'Flank|C16orf86_uc002etz.2_5'Flank	NM_032140	NP_115516	Q9H0I2	CP048_HUMAN	hypothetical protein LOC84080	37						microtubule cytoskeleton	protein binding				0		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		CCAGCTTCAGCGCGTTTCCCT	0.731													3	39	---	---	---	---	PASS	T	67700143	T	T	67700143	2	4	96	1	0	0	0	0	0	0	0	1	1816	755	27	1		1	C16orf48	16	67700143	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	16527504	67700143	22654610	241	35989										
BCL6B	255877	broad.mit.edu	37	chr17	6927751	6927751	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgggcatctccctgcgccccCtggaagcagaacccccaaca	9	18	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr17:6927751C>T	uc002geg.2	+	4	490	c.433C>T	c.(433-435)CTG>TTG	p.L145L	BCL6B_uc010clt.1_Silent_p.L145L	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	145	Pro-rich.					nucleus	zinc ion binding			skin(1)	1						CCTGCGCCCCCTGGAAGCAGA	0.587													51	115	---	---	---	---	PASS	T	6927751	T	T	6927751	2	4	96	1	0	0	0	0	0	0	0	1	1377	680	24	3		3	BCL6B	17	6927751	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08		6927751	74267459	242	35990										
MYH1	4619	broad.mit.edu	37	chr17	10411234	10411234	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cagacacagtctggaaagaaGaacccttcttcttaccacct	6	13	3	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr17:10411234G>A	uc002gmo.2	-	17	2031	c.1937C>T	c.(1936-1938)TCT>TTT	p.S646F	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	646	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CTGGAAAGAAGAACCCTTCTT	0.398													44	70	---	---	---	---	PASS	A	10411234	A	A	10411234	3	1	96	1	0	0	0	0	1	0	0	0	10029	942	33	2	3978	2	MYH1	17	10411234	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	3483483	10411234	70783976	243	35991										
TMEM132E	124842	broad.mit.edu	37	chr17	32964687	32964687	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccacggggtctgacagacctGgagatcggcatgtacgcgct	14	12	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr17:32964687G>T	uc002hif.2	+	10	2719	c.2391G>T	c.(2389-2391)CTG>CTT	p.L797L		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	797	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		TGACAGACCTGGAGATCGGCA	0.652													25	55	---	---	---	---	PASS	T	32964687	T	T	32964687	2	4	96	1	0	0	0	0	0	0	0	1	16045	1335	47	3		3	TMEM132E	17	32964687	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	22553453	32964687	48230523	244	35992										
DHX58	79132	broad.mit.edu	37	chr17	40260052	40260052	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tacatttgcgtcccaaatttCcggctcaactcaggcatctc	6	14	3	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr17:40260052C>A	uc002hyw.3	-	7	976	c.753G>T	c.(751-753)CGG>CGT	p.R251R	DHX58_uc002hyv.3_RNA|DHX58_uc010wgf.1_Silent_p.R244R	NM_024119	NP_077024	Q96C10	DHX58_HUMAN	RNA helicase LGP2	251					innate immune response	cytoplasm	ATP binding|DNA binding|helicase activity|protein binding|RNA binding|zinc ion binding				0		all_cancers(22;9.73e-07)|all_epithelial(22;3.58e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TCCCAAATTTCCGGCTCAACT	0.473													42	53	---	---	---	---	PASS	A	40260052	A	A	40260052	2	1	96	1	0	0	0	0	0	0	0	1	4514	842	30	2		2	DHX58	17	40260052	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	7295365	40260052	40935158	245	35993										
NBR1	4077	broad.mit.edu	37	chr17	41362019	41362019	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tacggctgctgaagaaacacAattacaatatcctgcaggtt	8	9	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr17:41362019A>T	uc010czd.2	+	21	2967	c.2827A>T	c.(2827-2829)AAT>TAT	p.N943Y	NBR1_uc010diz.2_Missense_Mutation_p.N943Y|NBR1_uc010whv.1_Missense_Mutation_p.N943Y|NBR1_uc010whw.1_3'UTR|TMEM106A_uc002idn.1_5'Flank|TMEM106A_uc010why.1_5'Flank|TMEM106A_uc010cze.1_5'Flank|TMEM106A_uc010whz.1_5'Flank	NM_031862	NP_114068	Q14596	NBR1_HUMAN	neighbor of BRCA1 gene 1	943	UBA.				macroautophagy|protein oligomerization	autophagic vacuole|cytoplasmic vesicle|cytosol|late endosome|lysosome|sarcomere	ubiquitin binding|zinc ion binding			skin(1)	1		Breast(137;0.00086)		BRCA - Breast invasive adenocarcinoma(366;0.0934)		GAAGAAACACAATTACAATAT	0.443													8	14	---	---	---	---	PASS	T	41362019	T	T	41362019	3	4	96	1	0	0	0	0	1	0	0	0	10200	130	5	5	2905	5	NBR1	17	41362019	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	1101967	41362019	39833191	246	35994										
PRR11	55771	broad.mit.edu	37	chr17	57275130	57275130	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgactccagtgatgacgcagGccttaaggagaaagtttcag	12	8	1	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr17:57275130G>T	uc002ixf.1	+	9	1073	c.994G>T	c.(994-996)GCC>TCC	p.A332S	PRR11_uc002ixg.1_RNA	NM_018304	NP_060774	Q96HE9	PRR11_HUMAN	proline rich 11	332										ovary(2)	2	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					GATGACGCAGGCCTTAAGGAG	0.343													92	66	---	---	---	---	PASS	T	57275130	T	T	57275130	3	4	96	1	0	0	0	0	1	0	0	0	12583	1203	42	3	1024	3	PRR11	17	57275130	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	15913111	57275130	23920080	247	35995										
MYOM1	8736	broad.mit.edu	37	chr18	3067412	3067412	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gcccgagtcagcggtgctcaCgccgttgatggtgaagtacg	15	11	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr18:3067412C>T	uc002klp.2	-	38	5240	c.4906G>A	c.(4906-4908)GTG>ATG	p.V1636M	MYOM1_uc002klq.2_Missense_Mutation_p.V1540M	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	1636	Ig-like C2-type 5.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GCGGTGCTCACGCCGTTGATG	0.587													9	62	---	---	---	---	PASS	T	3067412	T	T	3067412	3	4	96	1	0	0	0	0	1	0	0	0	10091	536	19	1	155	1	MYOM1	18	3067412	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08		3067412	75009836	248	35996										
EPB41L3	23136	broad.mit.edu	37	chr18	5416379	5416379	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cagtgccaagcccaggtgacTgatgtgaaagagacagaaag	13	8	0	5			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr18:5416379T>A	uc002kmt.1	-	13	1593	c.1507_splice	c.e13-1	p.S503_splice	EPB41L3_uc010wzh.1_Intron|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Intron|EPB41L3_uc010wzf.1_Intron|EPB41L3_uc010wzg.1_Intron|EPB41L3_uc010dkr.2_Intron	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3						cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						CCCAGGTGACTGATGTgaaag	0.408													31	72	---	---	---	---	PASS	A	5416379	A	A	5416379	5	1	96	1	0	0	0	0	0	0	1	0	5154	1594	55	5	1798	5	EPB41L3	18	5416379	Splice_Site	SNP	T	TCGA-43-2578-01A-01D-1522-08	2348967	5416379	72660869	249	35997										
LAMA1	284217	broad.mit.edu	37	chr18	6993639	6993639	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	actagacactgcccacactaCctgtgatgctcatctgcagc	7	15	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr18:6993639C>T	uc002knm.2	-	35	5102	c.5008_splice	c.e35+1	p.E1670_splice	LAMA1_uc010wzj.1_Splice_Site_p.E1146_splice	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor						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)	GCCCACACTACCTGTGATGCT	0.428													77	149	---	---	---	---	PASS	T	6993639	T	T	6993639	5	4	96	1	0	0	0	0	0	0	1	0	8605	521	18	3	4334	3	LAMA1	18	6993639	Splice_Site	SNP	C	TCGA-43-2578-01A-01D-1522-08	1577260	6993639	71083609	250	35998										
TXNDC2	84203	broad.mit.edu	37	chr18	9887052	9887052	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	accatccaatccaagaaggaGgacctccccaagtcctcaga	7	15	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr18:9887052G>C	uc002koi.3	+	2	1025	c.576G>C	c.(574-576)GAG>GAC	p.E192D	TXNDC2_uc010wzq.1_Intron|TXNDC2_uc002koh.3_Missense_Mutation_p.E125D	NM_001098529	NP_001091999	Q86VQ3	TXND2_HUMAN	thioredoxin domain-containing 2 isoform 2	192	22 X 15 AA approximate tandem repeat of Q-P-K-X-G-D-I-P-K-S-[PS]-E-[KE]-X-I.|6.				cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	cytoplasm	electron carrier activity|nutrient reservoir activity|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity			ovary(1)|pancreas(1)	2						CCAAGAAGGAGGACCTCCCCA	0.567													17	205	---	---	---	---	PASS	C	9887052	C	C	9887052	3	2	96	1	0	0	0	0	1	0	0	0	16794	991	35	4	582	4	TXNDC2	18	9887052	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	2893413	9887052	68190196	251	35999										
CTAGE1	64693	broad.mit.edu	37	chr18	19996472	19996472	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tctttcagcagtccaagctgCcgaccaattatcatgtgctt	7	12	3	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr18:19996472C>A	uc002ktv.1	-	1	1407	c.1303G>T	c.(1303-1305)GCA>TCA	p.A435S		NM_172241	NP_758441	Q96RT6	CTGE2_HUMAN	cutaneous T-cell lymphoma-associated antigen 1	435						integral to membrane				ovary(1)	1	all_cancers(21;0.000361)|all_epithelial(16;9.61e-06)|Colorectal(14;0.0533)|Lung NSC(20;0.0605)|Ovarian(2;0.116)|all_lung(20;0.135)					GTCCAAGCTGCCGACCAATTA	0.313													30	121	---	---	---	---	PASS	A	19996472	A	A	19996472	3	1	96	1	0	0	0	0	1	0	0	0	3992	739	26	3	938	3	CTAGE1	18	19996472	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	10109420	19996472	58080776	252	36000										
TTR	7276	broad.mit.edu	37	chr18	29175121	29175121	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agagctgcatgggctcacaaCtgaggaggaatttgtagaag	14	6	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr18:29175121C>T	uc002kwx.3	+	3	375	c.239C>T	c.(238-240)ACT>ATT	p.T80I		NM_000371	NP_000362	P02766	TTHY_HUMAN	transthyretin precursor	80			T -> A (in AMYL-TTR; amyloid polyneuropathy and cardiomyopathy).		transport	cytoplasm	hormone activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(10;0.00523)		Diclofenac(DB00586)|Diethylstilbestrol(DB00255)|Diflunisal(DB00861)|Dimethyl sulfoxide(DB01093)|Levothyroxine(DB00451)|Liothyronine(DB00279)	GGGCTCACAACTGAGGAGGAA	0.453													23	69	---	---	---	---	PASS	T	29175121	T	T	29175121	3	4	96	1	0	0	0	0	1	0	0	0	16735	565	20	3	249	3	TTR	18	29175121	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	9178649	29175121	48902127	253	36001										
KIAA1012	22878	broad.mit.edu	37	chr18	29453429	29453429	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtcatggccaaaaaaaacccGtgttgctgaactgttaatat	8	8	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr18:29453429G>A	uc002kxc.3	-	14	2390	c.2026C>T	c.(2026-2028)CGG>TGG	p.R676W	KIAA1012_uc002kxb.3_Missense_Mutation_p.R622W|KIAA1012_uc002kxd.3_RNA	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	676					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						AAAAAAACCCGTGTTGCTGAA	0.368													19	51	---	---	---	---	PASS	A	29453429	A	A	29453429	3	1	96	1	0	0	0	0	1	0	0	0	8204	1144	40	1	2345	1	KIAA1012	18	29453429	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	278308	29453429	48623819	254	36002										
ASXL3	80816	broad.mit.edu	37	chr18	31263479	31263479	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aacatacgtttgcttccttaCctcagcattttcaacaatac	3	12	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr18:31263479C>A	uc010dmg.1	+	8	881	c.826C>A	c.(826-828)CCT>ACT	p.P276T	ASXL3_uc002kxq.2_5'UTR	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	276					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TGCTTCCTTACCTCAGCATTT	0.388													27	60	---	---	---	---	PASS	A	31263479	A	A	31263479	3	1	96	1	0	0	0	0	1	0	0	0	1068	507	18	3	856	3	ASXL3	18	31263479	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	1810050	31263479	46813769	255	36003										
SHC2	25759	broad.mit.edu	37	chr19	425217	425217	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggcgtccgcctgcacgtagcCgtcccccggtggagctgggg	17	15	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:425217C>A	uc002loq.3	-	10	1189	c.1189G>T	c.(1189-1191)GGC>TGC	p.G397C	SHC2_uc002lop.3_Missense_Mutation_p.G138C	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	397	CH1.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGCACGTAGCCGTCCCCCGGT	0.721													12	8	---	---	---	---	PASS	A	425217	A	A	425217	3	1	96	1	0	0	0	0	1	0	0	0	14271	652	23	1	571	1	SHC2	19	425217	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08		425217	58703766	256	36004										
ZFR2	23217	broad.mit.edu	37	chr19	3819124	3819124	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccagcttgagggcccgctctGcgtgggacacggccctctgc	14	16	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:3819124G>A	uc002lyw.2	-	12	1862	c.1850C>T	c.(1849-1851)GCA>GTA	p.A617V		NM_015174	NP_055989	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2 isoform 1	617						intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		GGCCCGCTCTGCGTGGGACAC	0.687													4	7	---	---	---	---	PASS	A	3819124	A	A	3819124	3	1	96	1	0	0	0	0	1	0	0	0	17657	1319	46	3	1001	3	ZFR2	19	3819124	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	3393907	3819124	55309859	257	36005										
DUS3L	56931	broad.mit.edu	37	chr19	5788169	5788169	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gaagcgcttgcagatccgtcGgaagggcaggttcccacact	13	12	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:5788169G>C	uc002mdc.2	-	5	1058	c.961C>G	c.(961-963)CGA>GGA	p.R321G	DUS3L_uc002mdd.2_Missense_Mutation_p.R79G|DUS3L_uc010duk.2_5'UTR|DUS3L_uc010xiw.1_RNA	NM_020175	NP_064560	Q96G46	DUS3L_HUMAN	dihydrouridine synthase 3-like isoform 1	321					tRNA processing		flavin adenine dinucleotide binding|nucleic acid binding|tRNA dihydrouridine synthase activity|zinc ion binding				0						CAGATCCGTCGGAAGGGCAGG	0.502													18	27	---	---	---	---	PASS	C	5788169	C	C	5788169	3	2	96	1	0	0	0	0	1	0	0	0	4807	1124	39	4	1027	4	DUS3L	19	5788169	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1969045	5788169	53340814	258	36006										
MUC16	94025	broad.mit.edu	37	chr19	9075135	9075135	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccaaagtaggtgcacttagtGatgtagcgccaggtggactt	13	8	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:9075135G>C	uc002mkp.2	-	3	12515	c.12311C>G	c.(12310-12312)TCA>TGA	p.S4104*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4106	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGCACTTAGTGATGTAGCGCC	0.507													36	51	---	---	---	---	PASS	C	9075135	C	C	9075135	4	2	96	1	0	0	0	0	0	1	0	0	9973	1294	45	2	31540	2	MUC16	19	9075135	Nonsense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	3286966	9075135	50053848	259	36007										
KEAP1	9817	broad.mit.edu	37	chr19	10610211	10610211	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtcactgcaggcacggacaaCgctgtcgatctggtacatga	12	11	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:10610211C>A	uc002moq.1	-	2	655	c.499G>T	c.(499-501)GTT>TTT	p.V167F	KEAP1_uc002mor.1_Missense_Mutation_p.V167F	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	167			V -> F (in a lung adenocarcinoma patient).		regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			GCACGGACAACGCTGTCGATC	0.582													28	40	---	---	---	---	PASS	A	10610211	A	A	10610211	3	1	96	1	0	0	0	0	1	0	0	0	8141	536	19	1	1395	1	KEAP1	19	10610211	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	1535076	10610211	48518772	260	36008										
RGL3	57139	broad.mit.edu	37	chr19	11510615	11510615	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctaggacttgaggggggtgaCcctggggacacactggggga	19	8	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:11510615C>T	uc002mrp.2	-	16	1726	c.1662G>A	c.(1660-1662)GGG>GGA	p.G554G	RGL3_uc002mrn.2_Silent_p.G318G|RGL3_uc002mrm.2_Silent_p.G318G|RGL3_uc002mro.2_Silent_p.G560G	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	554	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						AGGGGGGTGACCCTGGGGACA	0.637													37	48	---	---	---	---	PASS	T	11510615	T	T	11510615	2	4	96	1	0	0	0	0	0	0	0	1	13278	494	18	3		3	RGL3	19	11510615	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	900404	11510615	47618368	261	36009										
ECSIT	51295	broad.mit.edu	37	chr19	11624938	11624938	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aagggcaccagagccttggtGggcctctgccggggttccgg	17	12	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:11624938G>C	uc002msb.2	-	3	329	c.195C>G	c.(193-195)CCC>CCG	p.P65P	ECSIT_uc002msa.1_5'Flank|ECSIT_uc010dyc.1_Silent_p.P65P|ECSIT_uc010dyd.2_Silent_p.P65P|ECSIT_uc010xma.1_Intron	NM_016581	NP_057665	Q9BQ95	ECSIT_HUMAN	evolutionarily conserved signaling intermediate	65					innate immune response|regulation of oxidoreductase activity	mitochondrion	oxidoreductase activity, acting on NADH or NADPH|protein binding			ovary(1)	1						GAGCCTTGGTGGGCCTCTGCC	0.667													12	15	---	---	---	---	PASS	C	11624938	C	C	11624938	2	2	96	1	0	0	0	0	0	0	0	1	4900	1335	47	4		4	ECSIT	19	11624938	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	114323	11624938	47504045	262	36010										
ZNF20	7568	broad.mit.edu	37	chr19	12243921	12243921	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tagggtttatcctcagtgtgTgtcttttcatgcctttgaag	10	7	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:12243921T>C	uc002mtf.1	-	4	1223	c.1080A>G	c.(1078-1080)ACA>ACG	p.T360T	ZNF20_uc002mte.1_Silent_p.T325T|ZNF20_uc002mtg.1_Silent_p.T360T	NM_021143	NP_066966	P17024	ZNF20_HUMAN	zinc finger protein 20	360	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCTCAGTGTGTGTCTTTTCAT	0.443													48	58	---	---	---	---	PASS	C	12243921	C	C	12243921	2	2	96	1	0	0	0	0	0	0	0	1	17758	1683	59	5		5	ZNF20	19	12243921	Silent	SNP	T	TCGA-43-2578-01A-01D-1522-08	618983	12243921	46885062	263	36011										
ZNF136	7695	broad.mit.edu	37	chr19	12297702	12297702	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tggagagaaactctatgattGtaaggaatgtggaaaaacct	11	4	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:12297702G>T	uc002mti.2	+	4	609	c.509G>T	c.(508-510)TGT>TTT	p.C170F	ZNF136_uc010xmh.1_Missense_Mutation_p.C104F	NM_003437	NP_003428	P52737	ZN136_HUMAN	zinc finger protein 136	170	C2H2-type 2.				negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|transcription corepressor activity|zinc ion binding			ovary(1)|pancreas(1)	2						CTCTATGATTGTAAGGAATGT	0.393													30	34	---	---	---	---	PASS	T	12297702	T	T	12297702	3	4	96	1	0	0	0	0	1	0	0	0	17723	1377	48	3	523	3	ZNF136	19	12297702	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	53781	12297702	46831281	264	36012										
CACNA1A	773	broad.mit.edu	37	chr19	13397745	13397745	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gccgggtggttgacaggttgGggcccgacacagggaccccg	18	12	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:13397745G>T	uc010dze.2	-	20	3364	c.3128C>A	c.(3127-3129)CCC>CAC	p.P1043H	CACNA1A_uc010dzc.2_Missense_Mutation_p.P568H|CACNA1A_uc002mwy.3_Missense_Mutation_p.P1042H|CACNA1A_uc010xne.1_Missense_Mutation_p.P571H	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1043	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	TGACAGGTTGGGGCCCGACAC	0.552													22	22	---	---	---	---	PASS	T	13397745	T	T	13397745	3	4	96	1	0	0	0	0	1	0	0	0	2538	1232	43	3	4609	3	CACNA1A	19	13397745	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1100043	13397745	45731238	265	36013										
OR7C2	26658	broad.mit.edu	37	chr19	15052439	15052439	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcggaaacctgctcatcatcCtgaccatcagttcagactcc	6	15	4	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:15052439C>A	uc010xoc.1	+	1	139	c.139C>A	c.(139-141)CTG>ATG	p.L47M		NM_012377	NP_036509	O60412	OR7C2_HUMAN	olfactory receptor, family 7, subfamily C,	47	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Ovarian(108;0.203)					GCTCATCATCCTGACCATCAG	0.527													48	54	---	---	---	---	PASS	A	15052439	A	A	15052439	3	1	96	1	0	0	0	0	1	0	0	0	11218	680	24	3	141	3	OR7C2	19	15052439	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	1654694	15052439	44076544	266	36014										
ZNF708	7562	broad.mit.edu	37	chr19	21476912	21476912	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggactgtttaaaagctttgcCacattcttcacatttgtagg	8	8	2	0	rs112819776	by1000genomes	TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:21476912C>A	uc002npq.1	-	4	1054	c.856G>T	c.(856-858)GGC>TGC	p.G286C	ZNF708_uc002npr.1_Missense_Mutation_p.G222C|ZNF708_uc010ecs.1_Missense_Mutation_p.G222C	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	286	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						AAAGCTTTGCCACATTCTTCA	0.383													37	68	---	---	---	---	PASS	A	21476912	A	A	21476912	3	1	96	1	0	0	0	0	1	0	0	0	18109	594	21	3	839	3	ZNF708	19	21476912	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	6424473	21476912	37652071	267	36015										
ZNF254	9534	broad.mit.edu	37	chr19	24309708	24309708	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgtgaagaatgtggcaaagcAtttatctggtcctcaaccct	9	9	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:24309708A>G	uc002nru.2	+	4	1040	c.906A>G	c.(904-906)GCA>GCG	p.A302A	ZNF254_uc010xrk.1_Silent_p.A217A	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	302	C2H2-type 4.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				GTGGCAAAGCATTTATCTGGT	0.363													40	32	---	---	---	---	PASS	G	24309708	G	G	24309708	2	3	96	1	0	0	0	0	0	0	0	1	17795	204	8	5		5	ZNF254	19	24309708	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	2832796	24309708	34819275	268	36016										
SLC7A9	11136	broad.mit.edu	37	chr19	33349399	33349399	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccgatggttgaaaatgccacAaaaagtggaacgatccaaga	10	8	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:33349399A>G	uc002ntv.3	-	9	1041	c.924T>C	c.(922-924)TTT>TTC	p.F308F	SLC7A9_uc002ntt.3_RNA|SLC7A9_uc002ntu.3_Silent_p.F308F|SLC7A9_uc002ntw.3_Silent_p.F99F	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	308	Helical; (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	AAAATGCCACAAAAAGTGGAA	0.562													21	40	---	---	---	---	PASS	G	33349399	G	G	33349399	2	3	96	1	0	0	0	0	0	0	0	1	14705	127	5	5		5	SLC7A9	19	33349399	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	9039691	33349399	25779584	269	36017										
GPATCH1	55094	broad.mit.edu	37	chr19	33600724	33600724	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aagcagctcagctcaaggccAggagtctggcccagaacgct	12	13	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:33600724A>T	uc002nug.1	+	11	1701	c.1387A>T	c.(1387-1389)AGG>TGG	p.R463W		NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	463						catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					GCTCAAGGCCAGGAGTCTGGC	0.537													31	88	---	---	---	---	PASS	T	33600724	T	T	33600724	3	4	96	1	0	0	0	0	1	0	0	0	6590	179	7	5	1429	5	GPATCH1	19	33600724	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	251325	33600724	25528259	270	36018										
RBM42	79171	broad.mit.edu	37	chr19	36122095	36122095	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gcagccacagtagttcctccCatggtgggtggccctccttt	11	14	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:36122095C>T	uc002oan.2	+	3	412	c.336C>T	c.(334-336)CCC>CCT	p.P112P	RBM42_uc010xsx.1_Silent_p.P112P|RBM42_uc010eef.2_Silent_p.P112P|RBM42_uc002oao.2_Silent_p.P112P|RBM42_uc002oap.2_Silent_p.P112P|RBM42_uc002oaq.2_Silent_p.P112P|RBM42_uc010eeg.2_Silent_p.P112P	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	112						cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			TAGTTCCTCCCATGGTGGGTG	0.587													70	105	---	---	---	---	PASS	T	36122095	T	T	36122095	2	4	96	1	0	0	0	0	0	0	0	1	13136	581	21	3		3	RBM42	19	36122095	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	2521371	36122095	23006888	271	36019										
SPRED3	399473	broad.mit.edu	37	chr19	38885282	38885282	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gaggccgccaatctcctccaGtcccacgtggacagcgactc	10	17	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:38885282G>T	uc002oim.2	+	4	428	c.424_splice	c.e4-1	p.S142_splice		NM_001042522	NP_001035987	Q2MJR0	SPRE3_HUMAN	sprouty-related, EVH1 domain containing 3						multicellular organismal development					central_nervous_system(2)|lung(1)|skin(1)	4	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			ATCTCCTCCAGTCCCACGTGG	0.587													5	3	---	---	---	---	PASS	T	38885282	T	T	38885282	5	4	96	1	0	0	0	0	0	0	1	0	15093	1043	36	3	477	3	SPRED3	19	38885282	Splice_Site	SNP	G	TCGA-43-2578-01A-01D-1522-08	2763187	38885282	20243701	272	36020										
BCKDHA	593	broad.mit.edu	37	chr19	41916685	41916685	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	atctaccgcgtcatggaccgGcaaggccagatcatcaaccc	9	15	4	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:41916685G>A	uc002oqq.2	+	2	281	c.252G>A	c.(250-252)CGG>CGA	p.R84R	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Silent_p.R118R|BCKDHA_uc002oqp.1_5'UTR|BCKDHA_uc002oqr.2_Silent_p.R84R|BCKDHA_uc010xvz.1_Silent_p.R62R	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	84					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						TCATGGACCGGCAAGGCCAGA	0.632													4	146	---	---	---	---	PASS	A	41916685	A	A	41916685	2	1	96	1	0	0	0	0	0	0	0	1	1359	1190	42	3		3	BCKDHA	19	41916685	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	3031403	41916685	17212298	273	36021										
ZNF574	64763	broad.mit.edu	37	chr19	42583881	42583881	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	actgtggcctggccttcggcAcagaggccctcctcctggcc	12	17	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:42583881A>G	uc002osm.3	+	2	1292	c.1123A>G	c.(1123-1125)ACA>GCA	p.T375A	ZNF574_uc002osk.3_Missense_Mutation_p.T465A	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	375	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				GGCCTTCGGCACAGAGGCCCT	0.577													9	106	---	---	---	---	PASS	G	42583881	G	G	42583881	3	3	96	1	0	0	0	0	1	0	0	0	18003	159	6	5	1125	5	ZNF574	19	42583881	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	667196	42583881	16545102	274	36022										
PSG7	5676	broad.mit.edu	37	chr19	43441184	43441184	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cctgtgagcaggagccctttCcaggttatatgctgtgtgca	12	10	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:43441184C>G	uc002ovl.3	-	1	147	c.45G>C	c.(43-45)TGG>TGC	p.W15C	PSG3_uc002ouf.2_5'Flank|PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Missense_Mutation_p.W15C	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	15					female pregnancy	extracellular region					0		Prostate(69;0.00682)				GGAGCCCTTTCCAGGTTATAT	0.567													50	207	---	---	---	---	PASS	G	43441184	G	G	43441184	3	3	96	1	0	0	0	0	1	0	0	0	12660	856	30	2	1238	2	PSG7	19	43441184	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	857303	43441184	15687799	275	36023										
PNMAL1	55228	broad.mit.edu	37	chr19	46973039	46973039	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggcttggccttcggacccctAgaggttgaggctgttgcctc	14	12	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:46973039A>C	uc002peq.3	-	2	1560	c.1254T>G	c.(1252-1254)TCT>TCG	p.S418S	PNMAL1_uc002per.3_Intron	NM_018215	NP_060685	Q86V59	PNML1_HUMAN	PNMA-like 1 isoform a	418											0		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000166)|all cancers(93;0.0014)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		TCGGACCCCTAGAGGTTGAGG	0.612													21	24	---	---	---	---	PASS	C	46973039	C	C	46973039	2	2	96	1	0	0	0	0	0	0	0	1	12157	407	15	5		5	PNMAL1	19	46973039	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	3531855	46973039	12155944	276	36024										
PNMAL2	57469	broad.mit.edu	37	chr19	46998649	46998649	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gctccaggccctccgggatgCcggtgaccagcagggccctg	15	16	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:46998649C>A	uc002pes.2	-	1	521	c.74G>T	c.(73-75)GGC>GTC	p.G25V	uc002peu.1_3'UTR	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	25										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		ctccgggatgccggtgaccag	0.08													13	56	---	---	---	---	PASS	A	46998649	A	A	46998649	3	1	96	1	0	0	0	0	1	0	0	0	12158	739	26	3	1837	3	PNMAL2	19	46998649	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	25610	46998649	12130334	277	36025										
ZC3H4	23211	broad.mit.edu	37	chr19	47575963	47575963	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cacctgcttctgcatcatcgGccaacatctgcgggtgtgaa	10	13	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:47575963G>A	uc002pga.3	-	12	1486	c.1448C>T	c.(1447-1449)GCC>GTC	p.A483V	ZC3H4_uc002pgb.1_Intron	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	483							nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		TGCATCATCGGCCAACATCTG	0.562													3	43	---	---	---	---	PASS	A	47575963	A	A	47575963	3	1	96	1	0	0	0	0	1	0	0	0	17567	1203	42	3	2479	3	ZC3H4	19	47575963	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	577314	47575963	11553020	278	36026										
GPR77	27202	broad.mit.edu	37	chr19	47844663	47844663	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccgagaatgcggtgactgccAtccggtttctttttggcttc	11	11	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:47844663A>G	uc010ela.1	+	2	825	c.607A>G	c.(607-609)ATC>GTC	p.I203V	GPR77_uc002pgk.1_Missense_Mutation_p.I203V	NM_018485	NP_060955	Q9P296	C5ARL_HUMAN	G protein-coupled receptor 77	203	Helical; Name=5; (Potential).				chemotaxis	integral to membrane|plasma membrane	C5a anaphylatoxin receptor activity			ovary(1)	1		all_cancers(25;1.72e-06)|all_lung(116;2.15e-05)|all_epithelial(76;3.44e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.0652)|Ovarian(192;0.086)		all cancers(93;0.000129)|OV - Ovarian serous cystadenocarcinoma(262;0.000415)|Epithelial(262;0.0109)|GBM - Glioblastoma multiforme(486;0.0138)		GGTGACTGCCATCCGGTTTCT	0.692													6	49	---	---	---	---	PASS	G	47844663	G	G	47844663	3	3	96	1	0	0	0	0	1	0	0	0	6709	217	8	5	609	5	GPR77	19	47844663	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	268700	47844663	11284320	279	36027										
ACPT	93650	broad.mit.edu	37	chr19	51298356	51298356	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgctggtggcactcagcttgGggctgggcctgctggcctgg	18	11	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:51298356G>A	uc002pta.1	+	11	1222	c.1222G>A	c.(1222-1224)GGG>AGG	p.G408R		NM_033068	NP_149059	Q9BZG2	PPAT_HUMAN	testicular acid phosphatase precursor	408	Helical; (Potential).					integral to membrane	acid phosphatase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		ACTCAGCTTGGGGCTGGGCCT	0.687													4	9	---	---	---	---	PASS	A	51298356	A	A	51298356	3	1	96	1	0	0	0	0	1	0	0	0	168	1232	43	3	1264	3	ACPT	19	51298356	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	3453693	51298356	7830627	280	36028										
ZNF28	7576	broad.mit.edu	37	chr19	53303427	53303427	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gatttgcgactgaaaactttCtcacattcttcacatttgta	5	9	3	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:53303427C>T	uc002qad.2	-	4	1791	c.1671G>A	c.(1669-1671)GAG>GAA	p.E557E	ZNF28_uc002qac.2_Silent_p.E504E|ZNF28_uc010eqe.2_Silent_p.E503E	NM_006969	NP_008900	P17035	ZNF28_HUMAN	zinc finger protein 28	557	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)		TGAAAACTTTCTCACATTCTT	0.398													92	154	---	---	---	---	PASS	T	53303427	T	T	53303427	2	4	96	1	0	0	0	0	0	0	0	1	17810	912	32	2		2	ZNF28	19	53303427	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	2005071	53303427	5825556	281	36029										
ZNF28	7576	broad.mit.edu	37	chr19	53303938	53303938	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gactgaaaactttttcacatTcttcacattcataaggtttc	4	9	4	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:53303938T>A	uc002qad.2	-	4	1280	c.1160A>T	c.(1159-1161)GAA>GTA	p.E387V	ZNF28_uc002qac.2_Missense_Mutation_p.E334V|ZNF28_uc010eqe.2_Missense_Mutation_p.E333V	NM_006969	NP_008900	P17035	ZNF28_HUMAN	zinc finger protein 28	387	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)		TTTTTCACATTCTTCACATTC	0.388													100	189	---	---	---	---	PASS	A	53303938	A	A	53303938	3	1	96	1	0	0	0	0	1	0	0	0	17810	1783	62	5	1000	5	ZNF28	19	53303938	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	511	53303938	5825045	282	36030										
ZSCAN5B	342933	broad.mit.edu	37	chr19	56701832	56701832	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agagcatctcctctgttcccGctgtgagtcaaagcttctct	8	13	4	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:56701832G>T	uc010ygh.1	-	4	852	c.852C>A	c.(850-852)AGC>AGA	p.S284R		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	284					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CTCTGTTCCCGCTGTGAGTCA	0.522													75	277	---	---	---	---	PASS	T	56701832	T	T	56701832	3	4	96	1	0	0	0	0	1	0	0	0	18236	1078	38	1	639	1	ZSCAN5B	19	56701832	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	3397894	56701832	2427151	283	36031										
ZNF835	90485	broad.mit.edu	37	chr19	57175947	57175947	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gccggtgctgggtcaggtgcGtgacgcgcgtgaaggccttg	19	10	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:57175947G>A	uc010ygo.1	-	2	686	c.686C>T	c.(685-687)ACG>ATG	p.T229M	ZNF835_uc010ygn.1_Missense_Mutation_p.T207M	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						GGTCAGGTGCGTGACGCGCGT	0.721													6	10	---	---	---	---	PASS	A	57175947	A	A	57175947	3	1	96	1	0	0	0	0	1	0	0	0	18183	1145	40	1	995	1	ZNF835	19	57175947	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	474115	57175947	1953036	284	36032										
ZNF497	162968	broad.mit.edu	37	chr19	58867836	58867836	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggaaggccttgccgcagtcgGcgcaggcgaagggcttggcg	19	11	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr19:58867836G>A	uc002qsh.1	-	3	1355	c.1166C>T	c.(1165-1167)GCC>GTC	p.A389V	A1BG_uc002qsd.3_5'Flank|A1BG_uc002qsf.1_Intron|ZNF497_uc002qsi.1_Missense_Mutation_p.A389V|uc002qsj.1_5'Flank|uc002qsk.1_5'Flank	NM_198458	NP_940860	Q6ZNH5	ZN497_HUMAN	zinc finger protein 497	389	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0278)		GCCGCAGTCGGCGCAGGCGAA	0.706													3	6	---	---	---	---	PASS	A	58867836	A	A	58867836	3	1	96	1	0	0	0	0	1	0	0	0	17943	1203	42	3	334	3	ZNF497	19	58867836	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1691889	58867836	261147	285	36033										
TMX4	56255	broad.mit.edu	37	chr20	7963243	7963243	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgcaactgttcagctctatgAgcctcctctgatctccgatt	7	13	4	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:7963243A>T	uc002wmx.1	-	8	838	c.705T>A	c.(703-705)GCT>GCA	p.A235A		NM_021156	NP_066979	Q9H1E5	TMX4_HUMAN	thioredoxin-related transmembrane protein 4	235	Glu-rich.				cell redox homeostasis|electron transport chain|transport	integral to membrane					0						CAGCTCTATGAGCCTCCTCTG	0.279													59	123	---	---	---	---	PASS	T	7963243	T	T	7963243	2	4	96	1	0	0	0	0	0	0	0	1	16266	291	11	5		5	TMX4	20	7963243	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08		7963243	55062277	286	36034										
C20orf12	55184	broad.mit.edu	37	chr20	18433327	18433327	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgggatttccaatggactctCtgaaaagtgaagatctttca	9	7	3	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:18433327C>A	uc010zsa.1	-	6	741	c.532G>T	c.(532-534)GAG>TAG	p.E178*	C20orf12_uc002wqr.3_Splice_Site|C20orf12_uc002wqs.3_Splice_Site_p.R9_splice|C20orf12_uc002wqq.3_Splice_Site_p.E159_splice|C20orf12_uc002wqu.1_Intron|C20orf12_uc010gct.1_Intron	NM_001099407	NP_001092877	Q9NVP4	CT012_HUMAN	hypothetical protein LOC55184	Error:Variant_position_missing_in_Q9NVP4_after_alignment						intracellular	zinc ion binding			ovary(1)	1		Myeloproliferative disorder(85;0.0122)				AATGGACTCTCTGAAAAGTGA	0.408													13	28	---	---	---	---	PASS	A	18433327	A	A	18433327	4	1	96	1	0	0	0	0	0	1	0	0	2085	927	32	2	1847	2	C20orf12	20	18433327	Nonsense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	10470084	18433327	44592193	287	36035										
C20orf26	26074	broad.mit.edu	37	chr20	20232401	20232401	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	atcctctgcaccgggcagcaGtaccaggtaaggccgggcac	13	14	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:20232401G>C	uc002wru.2	+	20	2398	c.2322G>C	c.(2320-2322)CAG>CAC	p.Q774H	C20orf26_uc010zse.1_Missense_Mutation_p.Q754H|C20orf26_uc002wrw.2_RNA|C20orf26_uc002wrv.2_Missense_Mutation_p.Q130H	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	774										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		CCGGGCAGCAGTACCAGGTAA	0.582													46	104	---	---	---	---	PASS	C	20232401	C	C	20232401	3	2	96	1	0	0	0	0	1	0	0	0	2106	1020	36	4	2428	4	C20orf26	20	20232401	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1799074	20232401	42793119	288	36036										
FAM83C	128876	broad.mit.edu	37	chr20	33874542	33874542	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgatacttggtgatgaggtcCagcttgctgtggcccagggt	15	8	0	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:33874542C>A	uc010zux.1	-	4	2158	c.2040G>T	c.(2038-2040)CTG>CTT	p.L680L	EIF6_uc002xbv.1_5'Flank|EIF6_uc002xbx.1_5'Flank|EIF6_uc002xbz.1_5'Flank|EIF6_uc002xby.1_5'Flank|FAM83C_uc002xcb.1_Silent_p.L335L	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	680										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TGATGAGGTCCAGCTTGCTGT	0.617													28	101	---	---	---	---	PASS	A	33874542	A	A	33874542	2	1	96	1	0	0	0	0	0	0	0	1	5635	581	21	3		3	FAM83C	20	33874542	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	13642141	33874542	29150978	289	36037										
SEMG2	6407	broad.mit.edu	37	chr20	43850949	43850949	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	attaccaaaatgtggttgacGtgagagaggaacattcaagt	11	5	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:43850949G>A	uc010ggz.2	+	2	733	c.676G>A	c.(676-678)GTG>ATG	p.V226M	SEMG2_uc002xnk.2_Missense_Mutation_p.V226M|SEMG2_uc002xnl.2_Missense_Mutation_p.V226M	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	226	2-2.|Repeat-rich region.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				TGTGGTTGACGTGAGAGAGGA	0.378													66	167	---	---	---	---	PASS	A	43850949	A	A	43850949	3	1	96	1	0	0	0	0	1	0	0	0	14045	1145	40	1	682	1	SEMG2	20	43850949	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	9976407	43850949	19174571	290	36038										
PIGT	51604	broad.mit.edu	37	chr20	44048147	44048147	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctttccatctcctccaggcaGgcctctctgtgctgctgaag	9	15	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:44048147G>T	uc002xoh.1	+	5	671	c.598G>T	c.(598-600)GGC>TGC	p.G200C	PIGT_uc010ghb.1_Missense_Mutation_p.G190C|PIGT_uc010zwt.1_RNA|PIGT_uc010ghd.1_Missense_Mutation_p.G107C|PIGT_uc010ghc.1_RNA|PIGT_uc010ghe.1_Missense_Mutation_p.G163C|PIGT_uc010ghf.1_Missense_Mutation_p.G153C|PIGT_uc002xoj.1_Missense_Mutation_p.G200C|PIGT_uc002xok.1_Splice_Site_p.G165_splice|PIGT_uc010zwu.1_Translation_Start_Site|PIGT_uc002xoi.1_RNA|PIGT_uc010zwv.1_Translation_Start_Site|PIGT_uc010zww.1_Missense_Mutation_p.G144C|PIGT_uc010zwx.1_Missense_Mutation_p.G35C|PIGT_uc010zwy.1_Missense_Mutation_p.G98C|PIGT_uc010zwz.1_Translation_Start_Site|PIGT_uc010zxa.1_Missense_Mutation_p.G38C|PIGT_uc002xol.1_Missense_Mutation_p.G56C|PIGT_uc010zxb.1_5'Flank	NM_015937	NP_057021	Q969N2	PIGT_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	200	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)				CCTCCAGGCAGGCCTCTCTGT	0.587													103	203	---	---	---	---	PASS	T	44048147	T	T	44048147	3	4	96	1	0	0	0	0	1	0	0	0	11899	1000	35	3	616	3	PIGT	20	44048147	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	197198	44048147	18977373	291	36039										
MMP9	4318	broad.mit.edu	37	chr20	44639932	44639932	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	caactacgacaccgacgaccGgtttggcttctgccccagcg	10	16	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:44639932G>C	uc002xqz.2	+	5	819	c.800G>C	c.(799-801)CGG>CCG	p.R267P		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	267	Fibronectin type-II 1.				collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	ACCGACGACCGGTTTGGCTTC	0.582													47	102	---	---	---	---	PASS	C	44639932	C	C	44639932	3	2	96	1	0	0	0	0	1	0	0	0	9669	1116	39	4	818	4	MMP9	20	44639932	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	591785	44639932	18385588	292	36040										
ZNFX1	57169	broad.mit.edu	37	chr20	47886894	47886894	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgttggctttgctcattgaaGcagagctggacaattcctcg	11	9	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:47886894G>A	uc002xui.2	-	3	1702	c.1455C>T	c.(1453-1455)TGC>TGT	p.C485C		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	485							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GCTCATTGAAGCAGAGCTGGA	0.502													18	273	---	---	---	---	PASS	A	47886894	A	A	47886894	2	1	96	1	0	0	0	0	0	0	0	1	18202	963	34	3		3	ZNFX1	20	47886894	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	3246962	47886894	15138626	293	36041										
ATP9A	10079	broad.mit.edu	37	chr20	50273654	50273654	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cgccggaccttagtggtgagCgttgggcccttctgagccgg	16	12	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:50273654C>A	uc002xwg.1	-	14	1329	c.1329G>T	c.(1327-1329)ACG>ACT	p.T443T	ATP9A_uc010gih.1_Silent_p.T307T|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	443	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						TAGTGGTGAGCGTTGGGCCCT	0.577													22	69	---	---	---	---	PASS	A	50273654	A	A	50273654	2	1	96	1	0	0	0	0	0	0	0	1	1198	755	27	1		1	ATP9A	20	50273654	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	2386760	50273654	12751866	294	36042										
TSHZ2	128553	broad.mit.edu	37	chr20	51871519	51871519	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	taagggaggaagacttggaaGatggctcaaagggtggaggg	19	3	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:51871519G>C	uc002xwo.2	+	2	2478	c.1522G>C	c.(1522-1524)GAT>CAT	p.D508H		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	508					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			AGACTTGGAAGATGGCTCAAA	0.458													50	137	---	---	---	---	PASS	C	51871519	C	C	51871519	3	2	96	1	0	0	0	0	1	0	0	0	16621	942	33	2	1528	2	TSHZ2	20	51871519	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1597865	51871519	11154001	295	36043										
CASS4	57091	broad.mit.edu	37	chr20	55033731	55033731	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	acgtaccccagccctgccgcGctggggcacctccaggcgga	13	18	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:55033731G>T	uc002xxp.2	+	7	2514	c.2289G>T	c.(2287-2289)GCG>GCT	p.A763A	CASS4_uc002xxr.2_Silent_p.A763A|CASS4_uc010zze.1_Silent_p.A709A|CASS4_uc010gio.2_Silent_p.A326A	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	763					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						GCCCTGCCGCGCTGGGGCACC	0.637													6	39	---	---	---	---	PASS	T	55033731	T	T	55033731	2	4	96	1	0	0	0	0	0	0	0	1	2683	1074	38	1		1	CASS4	20	55033731	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	3162212	55033731	7991789	296	36044										
BIRC7	79444	broad.mit.edu	37	chr20	61867797	61867797	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctgccggcttcttccacacaGgtcagtcccgggcggggggg	16	14	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:61867797G>T	uc002yej.2	+	1	522	c.349G>T	c.(349-351)GGC>TGC	p.G117C	BIRC7_uc010gkc.1_Missense_Mutation_p.G117C|BIRC7_uc002yei.2_Missense_Mutation_p.G117C|hsa-mir-3196|MI0014241_5'Flank	NM_139317	NP_647478	Q96CA5	BIRC7_HUMAN	livin inhibitor of apoptosis isoform alpha	117	BIR.				activation of JUN kinase activity|anti-apoptosis|DNA fragmentation involved in apoptotic nuclear change	cytoplasm|nucleus	enzyme binding|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3	all_cancers(38;2.72e-09)					CTTCCACACAGGTCAGTCCCG	0.667													25	36	---	---	---	---	PASS	T	61867797	T	T	61867797	3	4	96	1	0	0	0	0	1	0	0	0	1439	1014	35	3	351	3	BIRC7	20	61867797	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	6834066	61867797	1157723	297	36045										
MYT1	4661	broad.mit.edu	37	chr20	62839118	62839118	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cttgggccaggcggccaagcCaggtcctggcattgtgcacc	14	14	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr20:62839118C>A	uc002yii.2	+	7	933	c.569C>A	c.(568-570)CCA>CAA	p.P190Q	MYT1_uc002yih.2_Intron|MYT1_uc002yij.2_5'UTR	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	190					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					GCGGCCAAGCCAGGTCCTGGC	0.587													42	32	---	---	---	---	PASS	A	62839118	A	A	62839118	3	1	96	1	0	0	0	0	1	0	0	0	10106	594	21	3	587	3	MYT1	20	62839118	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	971321	62839118	186402	298	36046										
KRTAP27-1	643812	broad.mit.edu	37	chr21	31709843	31709843	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttgcaggtttcttgaaagttGtccaggaaacaggttctgct	11	7	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr21:31709843G>T	uc002ynx.1	-	1	170	c.144C>A	c.(142-144)GAC>GAA	p.D48E		NM_001077711	NP_001071179	Q3LI81	KR271_HUMAN	keratin associated protein 27-1	48						intermediate filament				ovary(2)	2						CTTGAAAGTTGTCCAGGAAAC	0.463													21	214	---	---	---	---	PASS	T	31709843	T	T	31709843	3	4	96	1	0	0	0	0	1	0	0	0	8544	1368	48	3	483	3	KRTAP27-1	21	31709843	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08		31709843	16420052	299	36047										
TTC3	7267	broad.mit.edu	37	chr21	38460573	38460573	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gcgatgccattaaaataaacAtcttctggccacttctgttt	6	10	3	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr21:38460573A>G	uc002yvz.2	+	4	370	c.265A>G	c.(265-267)ATC>GTC	p.I89V	TTC3_uc011aee.1_Intron|TTC3_uc002ywa.2_Missense_Mutation_p.I89V|TTC3_uc002ywb.2_Missense_Mutation_p.I89V|TTC3_uc010gnf.2_5'UTR|TTC3_uc011aed.1_Intron|TTC3_uc010gne.1_Missense_Mutation_p.I89V	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	89					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				TAAAATAAACATCTTCTGGCC	0.338													7	163	---	---	---	---	PASS	G	38460573	G	G	38460573	3	3	96	1	0	0	0	0	1	0	0	0	16694	217	8	5	275	5	TTC3	21	38460573	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	6750730	38460573	9669322	300	36048										
BACE2	25825	broad.mit.edu	37	chr21	42647528	42647528	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcgtcaatgatgagtcctctCtggtcagacatcgctggaaa	10	10	3	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr21:42647528C>T	uc002yyw.2	+	9	1997	c.1534C>T	c.(1534-1536)CTG>TTG	p.L512L	BACE2_uc002yyx.2_Silent_p.L462L|BACE2_uc002yyy.2_3'UTR|BACE2_uc010goo.2_RNA	NM_012105	NP_036237	Q9Y5Z0	BACE2_HUMAN	beta-site APP-cleaving enzyme 2 isoform A	512	Cytoplasmic (Potential).				membrane protein ectodomain proteolysis|negative regulation of amyloid precursor protein biosynthetic process|peptide hormone processing	cell surface|endoplasmic reticulum|endosome|Golgi apparatus|integral to membrane	aspartic-type endopeptidase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0251)				TGAGTCCTCTCTGGTCAGACA	0.552													56	120	---	---	---	---	PASS	T	42647528	T	T	42647528	2	4	96	1	0	0	0	0	0	0	0	1	1282	912	32	2		2	BACE2	21	42647528	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	4186955	42647528	5482367	301	36049										
KRTAP12-3	386683	broad.mit.edu	37	chr21	46078016	46078016	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtgtgcatgcccgtgagctgCacgcgcattgtgtgcgtggc	16	11	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr21:46078016C>A	uc002zft.2	+	1	168	c.120C>A	c.(118-120)TGC>TGA	p.C40*	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198697	NP_941970	P60328	KR123_HUMAN	keratin associated protein 12-3	40	14 X 5 AA approximate repeats.					intermediate filament				central_nervous_system(1)	1						CCGTGAGCTGCACGCGCATTG	0.642													108	70	---	---	---	---	PASS	A	46078016	A	A	46078016	4	1	96	1	0	0	0	0	0	1	0	0	8520	718	25	3	122	3	KRTAP12-3	21	46078016	Nonsense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	3430488	46078016	2051879	302	36050										
LZTR1	8216	broad.mit.edu	37	chr22	21347115	21347115	+	Silent	SNP	T	C	C													0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aggctcttccacgcggctgcTgtcatctcggacgccatgta							TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr22:21347115T>C	uc002zto.2	+	11	1285	c.1182T>C	c.(1180-1182)GCT>GCC	p.A394A	LZTR1_uc002ztn.2_Silent_p.A353A|LZTR1_uc011ahy.1_Silent_p.A375A|LZTR1_uc010gsr.1_Silent_p.A265A	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	394					anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			ACGCGGCTGCTGTCATCTCGG	0.642													6	7	---	---	---	---	PASS	C	21347115	C	C	21347115	2	2	96	1	0	0	0	0	0	0	0	1	9137	1567	55	5		5	LZTR1	22	21347115	Silent	SNP	T	TCGA-43-2578-01A-01D-1522-08		21347115	29957451	303	36051	677	2								
LZTR1	8216	broad.mit.edu	37	chr22	21347116	21347116	+	Missense_Mutation	SNP	G	T	T													0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggctcttccacgcggctgctGtcatctcggacgccatgtac							TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr22:21347116G>T	uc002zto.2	+	11	1286	c.1183G>T	c.(1183-1185)GTC>TTC	p.V395F	LZTR1_uc002ztn.2_Missense_Mutation_p.V354F|LZTR1_uc011ahy.1_Missense_Mutation_p.V376F|LZTR1_uc010gsr.1_Missense_Mutation_p.V266F	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	395					anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			CGCGGCTGCTGTCATCTCGGA	0.647													6	7	---	---	---	---	PASS	T	21347116	T	T	21347116	3	4	96	1	0	0	0	0	1	0	0	0	9137	1377	48	3	1225	3	LZTR1	22	21347116	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1	21347116	29957450	304	36052	677	2								
DEPDC5	9681	broad.mit.edu	37	chr22	32302363	32302363	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tggcgctccagcgccacaggGgatgaaaagtttgctgatcg	14	10	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr22:32302363G>T	uc003als.2	+	42	4741	c.4599G>T	c.(4597-4599)GGG>GGT	p.G1533G	DEPDC5_uc011als.1_Silent_p.G1464G|DEPDC5_uc011alu.1_Silent_p.G1564G|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Silent_p.G1555G|DEPDC5_uc003alu.2_Silent_p.G982G|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Silent_p.G831G|DEPDC5_uc011alx.1_Silent_p.G381G|DEPDC5_uc010gwk.2_Nonsense_Mutation_p.G569*|DEPDC5_uc011aly.1_Silent_p.G381G	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1533					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						GCGCCACAGGGGATGAAAAGT	0.562													75	86	---	---	---	---	PASS	T	32302363	T	T	32302363	2	4	96	1	0	0	0	0	0	0	0	1	4442	1219	43	3		3	DEPDC5	22	32302363	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	10955247	32302363	19002203	305	36053										
LARGE	9215	broad.mit.edu	37	chr22	33700389	33700389	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggctcataagcacctcagagCcctgtgcgtagcggaggaac	13	12	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr22:33700389C>A	uc003and.3	-	13	2135	c.1556G>T	c.(1555-1557)GGC>GTC	p.G519V	LARGE_uc011amd.1_Missense_Mutation_p.G318V|LARGE_uc003ane.3_Missense_Mutation_p.G519V|LARGE_uc010gwp.2_Missense_Mutation_p.G467V|LARGE_uc011ame.1_Missense_Mutation_p.G451V|LARGE_uc011amf.1_Missense_Mutation_p.G519V	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	519	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				CACCTCAGAGCCCTGTGCGTA	0.627													46	54	---	---	---	---	PASS	A	33700389	A	A	33700389	3	1	96	1	0	0	0	0	1	0	0	0	8627	739	26	3	730	3	LARGE	22	33700389	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	1398026	33700389	17604177	306	36054										
TRIOBP	11078	broad.mit.edu	37	chr22	38119338	38119338	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctcgaagcaccacgtctcagGcttctcctgcccaaagggac	9	16	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr22:38119338G>A	uc003atr.2	+	7	1046	c.775G>A	c.(775-777)GCT>ACT	p.A259T	TRIOBP_uc003atu.2_Missense_Mutation_p.A87T|TRIOBP_uc003atq.1_Missense_Mutation_p.A259T|TRIOBP_uc003ats.1_Missense_Mutation_p.A87T	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	259					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CACGTCTCAGGCTTCTCCTGC	0.617													7	70	---	---	---	---	PASS	A	38119338	A	A	38119338	3	1	96	1	0	0	0	0	1	0	0	0	16550	1203	42	3	793	3	TRIOBP	22	38119338	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	4418949	38119338	13185228	307	36055										
CACNA1I	8911	broad.mit.edu	37	chr22	39996543	39996543	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aggtctttgatgacttcatcTttatcttctttgccatggag	8	8	5	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr22:39996543T>G	uc003ayc.2	+	3	367	c.367T>G	c.(367-369)TTT>GTT	p.F123V	CACNA1I_uc003ayd.2_Missense_Mutation_p.F123V|CACNA1I_uc003aye.2_Missense_Mutation_p.F38V|CACNA1I_uc003ayf.2_Missense_Mutation_p.F38V	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	123	I.|Helical; Name=S2 of repeat I; (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	TGACTTCATCTTTATCTTCTT	0.557													21	20	---	---	---	---	PASS	G	39996543	G	G	39996543	3	3	96	1	0	0	0	0	1	0	0	0	2546	1609	56	5	377	5	CACNA1I	22	39996543	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	1877205	39996543	11308023	308	36056										
CPT1B	1375	broad.mit.edu	37	chr22	51007796	51007796	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggccttgggaacttggaaaaGatcagcaatgtccagcaggg	14	8	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chr22:51007796G>C	uc003bmk.3	-	18	2452	c.2290C>G	c.(2290-2292)CTT>GTT	p.L764V	CPT1B_uc003bml.2_Missense_Mutation_p.L764V|CPT1B_uc003bmm.2_Missense_Mutation_p.L764V|CPT1B_uc003bmo.2_Missense_Mutation_p.L764V|CPT1B_uc011asa.1_Missense_Mutation_p.L730V|CPT1B_uc003bmn.2_Missense_Mutation_p.L764V|CPT1B_uc011asb.1_Missense_Mutation_p.L683V|CHKB-CPT1B_uc003bmp.2_Missense_Mutation_p.L559V|uc003bmr.1_5'Flank	NM_001145137	NP_001138609	Q92523	CPT1B_HUMAN	carnitine palmitoyltransferase 1B isoform a	764	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)	2		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		all cancers(3;3.56e-77)|OV - Ovarian serous cystadenocarcinoma(4;5.39e-74)|Epithelial(4;5.58e-70)|GBM - Glioblastoma multiforme(4;5.59e-08)|LUAD - Lung adenocarcinoma(64;0.0016)|Lung(4;0.00942)|BRCA - Breast invasive adenocarcinoma(115;0.207)		ACTTGGAAAAGATCAGCAATG	0.557													5	165	---	---	---	---	PASS	C	51007796	C	C	51007796	3	2	96	1	0	0	0	0	1	0	0	0	3832	942	33	2	32	2	CPT1B	22	51007796	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	11011253	51007796	296770	309	36057										
GLRA2	2742	broad.mit.edu	37	chrX	14599312	14599312	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggcatttctgtaggactaccGagtgaatatttttctgagac	10	7	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:14599312G>T	uc010nep.2	+	5	610	c.278G>T	c.(277-279)CGA>CTA	p.R93L	GLRA2_uc010neq.2_Missense_Mutation_p.R93L|GLRA2_uc004cwe.3_Missense_Mutation_p.R93L|GLRA2_uc011mio.1_Missense_Mutation_p.R4L|GLRA2_uc011mip.1_Missense_Mutation_p.R71L	NM_001118885	NP_001112357	P23416	GLRA2_HUMAN	glycine receptor, alpha 2 isoform A	93	Extracellular (Probable).				neuropeptide signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(1)|lung(1)	2	Hepatocellular(33;0.128)				Ethanol(DB00898)|Glycine(DB00145)	TAGGACTACCGAGTGAATATT	0.468													17	104	---	---	---	---	PASS	T	14599312	T	T	14599312	3	4	96	1	0	0	0	0	1	0	0	0	6455	1058	37	2	364	2	GLRA2	23	14599312	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08		14599312	140671248	310	36058										
FANCB	2187	broad.mit.edu	37	chrX	14861877	14861877	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtctgataaagcagccgcgaCgacactactctttcctttgc	8	13	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:14861877C>A	uc004cwg.1	-	10	2660	c.2392G>T	c.(2392-2394)GTC>TTC	p.V798F	FANCB_uc004cwh.1_Missense_Mutation_p.V798F	NM_001018113	NP_001018123	Q8NB91	FANCB_HUMAN	Fanconi anemia complementation group B	798					DNA repair	nucleoplasm				lung(1)	1	Hepatocellular(33;0.183)					GCAGCCGCGACGACACTACTC	0.408								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				29	193	---	---	---	---	PASS	A	14861877	A	A	14861877	3	1	96	1	0	0	0	0	1	0	0	0	5663	536	19	1	191	1	FANCB	23	14861877	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	262565	14861877	140408683	311	36059										
IL1RAPL1	11141	broad.mit.edu	37	chrX	29972768	29972768	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gcttgaaaagcattatggatAtaagttgtttataccagata	8	4	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:29972768A>T	uc004dby.2	+	10	1839	c.1331A>T	c.(1330-1332)TAT>TTT	p.Y444F		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	444	Cytoplasmic (Potential).|TIR.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						CATTATGGATATAAGTTGTTT	0.383													51	136	---	---	---	---	PASS	T	29972768	T	T	29972768	3	4	96	1	0	0	0	0	1	0	0	0	7661	449	16	5	1365	5	IL1RAPL1	23	29972768	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	15110891	29972768	125297792	312	36060										
MAGEB1	4112	broad.mit.edu	37	chrX	30269105	30269105	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctcgtctttggccttgatttGaaggaagacaaccctagtgg	11	9	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:30269105G>A	uc004dcc.2	+	4	815	c.495G>A	c.(493-495)TTG>TTA	p.L165L	MAGEB1_uc004dcd.2_Silent_p.L165L|MAGEB1_uc004dce.2_Silent_p.L165L	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	165	MAGE.										0						GCCTTGATTTGAAGGAAGACA	0.483													22	38	---	---	---	---	PASS	A	30269105	A	A	30269105	2	1	96	1	0	0	0	0	0	0	0	1	9172	1281	45	2		2	MAGEB1	23	30269105	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	296337	30269105	125001455	313	36061										
FAM47A	158724	broad.mit.edu	37	chrX	34149883	34149883	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcagtgggtacctctgttgtCttctcctgggtctcacaaca	9	12	5	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:34149883C>T	uc004ddg.2	-	1	546	c.513G>A	c.(511-513)AAG>AAA	p.K171K		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	171										ovary(4)|central_nervous_system(1)	5						CCTCTGTTGTCTTCTCCTGGG	0.572													13	81	---	---	---	---	PASS	T	34149883	T	T	34149883	2	4	96	1	0	0	0	0	0	0	0	1	5569	912	32	2		2	FAM47A	23	34149883	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	3880778	34149883	121120677	314	36062										
FAM47B	170062	broad.mit.edu	37	chrX	34962130	34962130	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cggccttttgagagtcggatGccccatctccgcctggtgct	12	14	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:34962130G>T	uc004ddi.1	+	1	1200	c.1182G>T	c.(1180-1182)ATG>ATT	p.M394I		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	394										ovary(3)|breast(1)	4						AGAGTCGGATGCCCCATCTCC	0.582													23	63	---	---	---	---	PASS	T	34962130	T	T	34962130	3	4	96	1	0	0	0	0	1	0	0	0	5570	1319	46	3	1184	3	FAM47B	23	34962130	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	812247	34962130	120308430	315	36063										
CXorf59	286464	broad.mit.edu	37	chrX	36117965	36117965	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tgaagcctggagtaaacgggCatggacagatgtatttctac	12	7	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:36117965C>A	uc004ddk.1	+	7	1007	c.821C>A	c.(820-822)GCA>GAA	p.A274E		NM_173695	NP_775966	Q8N9S7	CX059_HUMAN	hypothetical protein LOC286464	274						integral to membrane				central_nervous_system(1)	1						AGTAAACGGGCATGGACAGAT	0.333													67	164	---	---	---	---	PASS	A	36117965	A	A	36117965	3	1	96	1	0	0	0	0	1	0	0	0	4115	710	25	3	843	3	CXorf59	23	36117965	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	1155835	36117965	119152595	316	36064										
FAM47C	442444	broad.mit.edu	37	chrX	37027930	37027930	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cggagcctccagagaaggacGtatctcatctccgcccagag	11	14	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:37027930G>T	uc004ddl.1	+	1	1461	c.1447G>T	c.(1447-1449)GTA>TTA	p.V483L		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	483										ovary(3)	3						AGAGAAGGACGTATCTCATCT	0.627													27	86	---	---	---	---	PASS	T	37027930	T	T	37027930	3	4	96	1	0	0	0	0	1	0	0	0	5571	1145	40	1	1449	1	FAM47C	23	37027930	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	909965	37027930	118242630	317	36065			1	45		3	3	962	N	G_C	5.920833e-05
FAM47C	442444	broad.mit.edu	37	chrX	37028017	37028017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cacgcgtatctcatctccgcCcagagccttctgagactgga	9	15	3	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:37028017C>A	uc004ddl.1	+	1	1548	c.1534C>A	c.(1534-1536)CCA>ACA	p.P512T		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	512										ovary(3)	3						TCATCTCCGCCCAGAGCCTTC	0.597													25	115	---	---	---	---	PASS	A	37028017	A	A	37028017	3	1	96	1	0	0	0	0	1	0	0	0	5571	623	22	3	1536	3	FAM47C	23	37028017	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	87	37028017	118242543	318	36066			1	45		3	3	962	N	G_C	5.920833e-05
FAM47C	442444	broad.mit.edu	37	chrX	37028891	37028891	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtccagtctccgcctggagcCtcccaagactggtcgggtgt	13	14	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:37028891C>T	uc004ddl.1	+	1	2422	c.2408C>T	c.(2407-2409)CCT>CTT	p.P803L		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	803										ovary(3)	3						CGCCTGGAGCCTCCCAAGACT	0.587													10	75	---	---	---	---	PASS	T	37028891	T	T	37028891	3	4	96	1	0	0	0	0	1	0	0	0	5571	681	24	3	2410	3	FAM47C	23	37028891	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	874	37028891	118241669	319	36067			1	45		3	3	962	N	G_C	5.920833e-05
GPR34	2857	broad.mit.edu	37	chrX	41555559	41555559	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tttttaacttcattcttgtgGtaatgttctggctaattttc	6	6	3	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:41555559G>T	uc004dfp.3	+	3	957	c.673G>T	c.(673-675)GTA>TTA	p.V225L	CASK_uc004dfl.3_Intron|CASK_uc004dfm.3_Intron|CASK_uc004dfn.3_Intron|GPR34_uc004dfq.3_Missense_Mutation_p.V225L|GPR34_uc010nhg.2_Missense_Mutation_p.V225L|GPR34_uc004dfr.3_Missense_Mutation_p.V225L	NM_001097579	NP_001091048	Q9UPC5	GPR34_HUMAN	G protein-coupled receptor 34	225	Helical; Name=5; (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1						CATTCTTGTGGTAATGTTCTG	0.318													18	92	---	---	---	---	PASS	T	41555559	T	T	41555559	3	4	96	1	0	0	0	0	1	0	0	0	6689	1261	44	3	675	3	GPR34	23	41555559	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	4526668	41555559	113715001	320	36068										
ZNF41	7592	broad.mit.edu	37	chrX	47308216	47308216	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tttctcctgtataaacacttGgatgtacatcaacctggggt	8	9	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:47308216G>T	uc004dhs.3	-	4	1146	c.1079C>A	c.(1078-1080)CCA>CAA	p.P360Q	ZNF41_uc004dhu.3_Missense_Mutation_p.P352Q|ZNF41_uc004dht.3_Missense_Mutation_p.P232Q|ZNF41_uc004dhv.3_Missense_Mutation_p.P328Q|ZNF41_uc004dhw.3_Missense_Mutation_p.P320Q|ZNF41_uc004dhy.3_Missense_Mutation_p.P318Q|ZNF41_uc004dhx.3_Missense_Mutation_p.P318Q|ZNF41_uc011mlm.1_Missense_Mutation_p.P232Q	NM_153380	NP_700359	P51814	ZNF41_HUMAN	zinc finger protein 41	360	C2H2-type 2; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3		all_lung(315;0.000129)				ATAAACACTTGGATGTACATC	0.413													63	217	---	---	---	---	PASS	T	47308216	T	T	47308216	3	4	96	1	0	0	0	0	1	0	0	0	17886	1348	47	3	1390	3	ZNF41	23	47308216	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	5752657	47308216	107962344	321	36069										
SSX1	6756	broad.mit.edu	37	chrX	48116705	48116705	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agacgacacctttgcaaagaGacccagggatgatgctaaag	11	9	0	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:48116705G>T	uc004djb.1	+	2	120	c.29G>T	c.(28-30)AGA>ATA	p.R10I		NM_005635	NP_005626	Q16384	SSX1_HUMAN	synovial sarcoma, X breakpoint 1	10					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|transcription corepressor activity		SS18/SSX1(1169)	soft_tissue(1169)	1169						TTTGCAAAGAGACCCAGGGAT	0.547													7	84	---	---	---	---	PASS	T	48116705	T	T	48116705	3	4	96	1	0	0	0	0	1	0	0	0	15202	942	33	2	31	2	SSX1	23	48116705	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	808489	48116705	107153855	322	36070										
SSX3	10214	broad.mit.edu	37	chrX	48207011	48207011	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tttctctcacgcagtctgtgGgtccaggcatgttcccccct	9	15	3	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:48207011G>T	uc004djd.1	-	7	589	c.495C>A	c.(493-495)ACC>ACA	p.T165T		NM_021014	NP_066294	Q99909	SSX3_HUMAN	synovial sarcoma, X breakpoint 3 isoform a	165					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding				0						GCAGTCTGTGGGTCCAGGCAT	0.478													86	500	---	---	---	---	PASS	T	48207011	T	T	48207011	2	4	96	1	0	0	0	0	0	0	0	1	15204	1219	43	3		3	SSX3	23	48207011	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	90306	48207011	107063549	323	36071										
PRAF2	11230	broad.mit.edu	37	chrX	48931479	48931479	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctccctcacccggcgagagcGaggccgatgccgaagcagag	14	15	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:48931479G>C	uc004dmi.2	-	1	184	c.168C>G	c.(166-168)CTC>CTG	p.L56L	PRAF2_uc004dmh.2_5'Flank|PRAF2_uc011mmt.1_Intron	NM_007213	NP_009144	O60831	PRAF2_HUMAN	PRA1 domain family, member 2	56	Helical; (Potential).				L-glutamate transport|protein transport	endosome membrane|integral to membrane					0						CGGCGAGAGCGAGGCCGATGC	0.647													10	66	---	---	---	---	PASS	C	48931479	C	C	48931479	2	2	96	1	0	0	0	0	0	0	0	1	12422	1045	37	2		2	PRAF2	23	48931479	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	724468	48931479	106339081	324	36072										
PRICKLE3	4007	broad.mit.edu	37	chrX	49034343	49034343	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcccacagcattcacccaccGatgtgctccccacagccatc	5	20	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:49034343G>A	uc004dmy.1	-	7	980	c.954C>T	c.(952-954)ATC>ATT	p.I318I	PRICKLE3_uc011mmv.1_Silent_p.I250I|PRICKLE3_uc011mmw.1_Silent_p.I237I|PRICKLE3_uc011mmx.1_Silent_p.I280I|PRICKLE3_uc011mmy.1_Silent_p.I305I	NM_006150	NP_006141	O43900	PRIC3_HUMAN	LIM domain only 6	318	LIM zinc-binding 3.						protein binding|zinc ion binding			breast(1)	1						TTCACCCACCGATGTGCTCCC	0.652													27	37	---	---	---	---	PASS	A	49034343	A	A	49034343	2	1	96	1	0	0	0	0	0	0	0	1	12488	1072	37	2		2	PRICKLE3	23	49034343	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	102864	49034343	106236217	325	36073										
CACNA1F	778	broad.mit.edu	37	chrX	49086835	49086835	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	attgagcactatgtgcaggcCtgcggggagggagggggagg	21	6	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:49086835C>A	uc004dnb.2	-	6	727	c.665_splice	c.e6-1	p.S222_splice	CACNA1F_uc010nip.2_Splice_Site_p.S222_splice	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,						axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	ATGTGCAGGCCTGCGGGGAGG	0.607													5	30	---	---	---	---	PASS	A	49086835	A	A	49086835	5	1	96	1	0	0	0	0	0	0	1	0	2543	695	24	3	5441	3	CACNA1F	23	49086835	Splice_Site	SNP	C	TCGA-43-2578-01A-01D-1522-08	52492	49086835	106183725	326	36074										
CCNB3	85417	broad.mit.edu	37	chrX	50051880	50051880	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttaaagaagaagatgtgtgcAagtcagcggaagcagtcctg	13	6	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:50051880A>C	uc004dox.3	+	6	1009	c.711A>C	c.(709-711)GCA>GCC	p.A237A	CCNB3_uc004doy.2_Silent_p.A237A|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	237					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					AGATGTGTGCAAGTCAGCGGA	0.423													17	129	---	---	---	---	PASS	C	50051880	C	C	50051880	2	2	96	1	0	0	0	0	0	0	0	1	2914	117	5	5		5	CCNB3	23	50051880	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	965045	50051880	105218680	327	36075										
HUWE1	10075	broad.mit.edu	37	chrX	53574675	53574675	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tcgtgggggtagtcactgtgGtcgaagcagctacgacaatg	15	8	1	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:53574675G>T	uc004dsp.2	-	68	10997	c.10595C>A	c.(10594-10596)ACC>AAC	p.T3532N	HUWE1_uc004dsn.2_Missense_Mutation_p.T2340N|HUWE1_uc004dsq.1_5'Flank	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3532	Thr-rich.				base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						AGTCACTGTGGTCGAAGCAGC	0.547													7	41	---	---	---	---	PASS	T	53574675	T	T	53574675	3	4	96	1	0	0	0	0	1	0	0	0	7461	1261	44	3	2597	3	HUWE1	23	53574675	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	3522795	53574675	101695885	328	36076										
USP51	158880	broad.mit.edu	37	chrX	55513251	55513251	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtaagactagtctttctctaGaccctgtttgtgatagaaca	8	8	2	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:55513251G>T	uc004dun.1	-	2	2201	c.2122C>A	c.(2122-2124)CTA>ATA	p.L708I	USP51_uc011moo.1_Missense_Mutation_p.L412I	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	708					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						TCTTTCTCTAGACCCTGTTTG	0.418													19	142	---	---	---	---	PASS	T	55513251	T	T	55513251	3	4	96	1	0	0	0	0	1	0	0	0	17080	933	33	2	17	2	USP51	23	55513251	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1938576	55513251	99757309	329	36077										
UBQLN2	29978	broad.mit.edu	37	chrX	56590724	56590724	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccacacctatttccacaaatAgcaacccgtttgggttgggg	9	12	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:56590724A>T	uc004dus.2	+	1	653	c.418A>T	c.(418-420)AGC>TGC	p.S140C	UBQLN2_uc011moq.1_Missense_Mutation_p.S140C	NM_013444	NP_038472	Q9UHD9	UBQL2_HUMAN	ubiquilin 2	140						cytoplasm|nucleus|plasma membrane	binding			ovary(1)|skin(1)	2						TTCCACAAATAGCAACCCGTT	0.592													9	44	---	---	---	---	PASS	T	56590724	T	T	56590724	3	4	96	1	0	0	0	0	1	0	0	0	16894	420	15	5	420	5	UBQLN2	23	56590724	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	1077473	56590724	98679836	330	36078										
HEPH	9843	broad.mit.edu	37	chrX	65476119	65476119	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aacccatgggtcccaggatcCaggcagtattaacctacagg	10	12	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:65476119C>G	uc011moz.1	+	17	2912	c.2852C>G	c.(2851-2853)CCA>CGA	p.P951R	HEPH_uc004dwn.2_Missense_Mutation_p.P951R|HEPH_uc004dwo.2_Missense_Mutation_p.P681R|HEPH_uc010nkr.2_Missense_Mutation_p.P759R|HEPH_uc011mpa.1_Missense_Mutation_p.P951R|HEPH_uc010nks.2_Missense_Mutation_p.P240R	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	948	Extracellular (Potential).|Plastocyanin-like 6.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						TCCCAGGATCCAGGCAGTATT	0.408													21	118	---	---	---	---	PASS	G	65476119	G	G	65476119	3	3	96	1	0	0	0	0	1	0	0	0	7054	594	21	4	3071	4	HEPH	23	65476119	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	8885395	65476119	89794441	331	36079										
FOXO4	4303	broad.mit.edu	37	chrX	70316676	70316676	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agggaggctcccgccggaatGcctggggaaatcagtcatat	14	10	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:70316676G>T	uc004dys.1	+	1	651	c.298G>T	c.(298-300)GCC>TCC	p.A100S	FOXO4_uc010nkz.2_Missense_Mutation_p.A100S|FOXO4_uc004dyt.1_Intron	NM_005938	NP_005929	P98177	FOXO4_HUMAN	forkhead box O4	100	Fork-head.				cell cycle arrest|cell differentiation|embryo development|G1 phase of mitotic cell cycle|insulin receptor signaling pathway|mitotic cell cycle G2/M transition DNA damage checkpoint|muscle organ development|negative regulation of angiogenesis|negative regulation of cell proliferation|negative regulation of smooth muscle cell differentiation|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase 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			central_nervous_system(2)|prostate(1)	3	Renal(35;0.156)					CCGCCGGAATGCCTGGGGAAA	0.637													4	19	---	---	---	---	PASS	T	70316676	T	T	70316676	3	4	96	1	0	0	0	0	1	0	0	0	6025	1319	46	3	300	3	FOXO4	23	70316676	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	4840557	70316676	84953884	332	36080										
NLGN3	54413	broad.mit.edu	37	chrX	70389919	70389919	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gttcaacagtaccgggctgcCccactcacactccactaccc	6	19	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:70389919C>A	uc004dzb.2	+	7	2763	c.2459C>A	c.(2458-2460)CCC>CAC	p.P820H	NLGN3_uc004dzc.2_Missense_Mutation_p.P703H|NLGN3_uc011mps.1_Missense_Mutation_p.P800H|NLGN3_uc004dze.2_Missense_Mutation_p.P638H	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	840	Cytoplasmic (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					ACCGGGCTGCCCCACTCACAC	0.527													8	36	---	---	---	---	PASS	A	70389919	A	A	70389919	3	1	96	1	0	0	0	0	1	0	0	0	10463	623	22	3	2545	3	NLGN3	23	70389919	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	73243	70389919	84880641	333	36081										
ZMYM3	9203	broad.mit.edu	37	chrX	70472962	70472962	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cccgaggatggagaagggccAgggggggcccatcctcgagt	18	11	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:70472962A>T	uc004dzh.1	-	2	231	c.144T>A	c.(142-144)CCT>CCA	p.P48P	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Silent_p.P48P|ZMYM3_uc004dzj.1_Silent_p.P48P|ZMYM3_uc011mpu.1_5'Flank|ZMYM3_uc004dzk.3_Silent_p.P48P|ZMYM3_uc004dzl.3_Silent_p.P48P|ZMYM3_uc004dzm.3_Silent_p.P48P	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	48					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					GAGAAGGGCCAGGGGGGGCCC	0.607											OREG0019858	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	21	---	---	---	---	PASS	T	70472962	T	T	70472962	2	4	96	1	0	0	0	0	0	0	0	1	17698	175	7	5		5	ZMYM3	23	70472962	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	83043	70472962	84797598	334	36082										
TAF1	6872	broad.mit.edu	37	chrX	70603813	70603813	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ttttctttgttctggacagaTgagagaacaagagaggcaag	12	5	2	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:70603813T>C	uc004dzu.3	+	13	1997	c.1946T>C	c.(1945-1947)ATG>ACG	p.M649T	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.M670T	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	649					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				TCTGGACAGATGAGAGAACAA	0.428													31	169	---	---	---	---	PASS	C	70603813	C	C	70603813	3	2	96	1	0	0	0	0	1	0	0	0	15510	1478	51	5	2059	5	TAF1	23	70603813	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	130851	70603813	84666747	335	36083										
ERCC6L	54821	broad.mit.edu	37	chrX	71425039	71425039	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agtcatttgtagcctctgccGccttatcctggggagaacca	10	12	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:71425039G>C	uc004eaq.1	-	2	3675	c.3578C>G	c.(3577-3579)GCG>GGG	p.A1193G	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Missense_Mutation_p.A1070G	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	1193					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					AGCCTCTGCCGCCTTATCCTG	0.473													12	96	---	---	---	---	PASS	C	71425039	C	C	71425039	3	2	96	1	0	0	0	0	1	0	0	0	5218	1087	38	4	178	4	ERCC6L	23	71425039	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	821226	71425039	83845521	336	36084										
KIAA2022	340533	broad.mit.edu	37	chrX	73960135	73960135	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aaggtagagcgagagtcctcGttataaccaggcatgtttgc	12	8	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:73960135G>T	uc004eby.2	-	3	4874	c.4257C>A	c.(4255-4257)AAC>AAA	p.N1419K		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1419					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GAGAGTCCTCGTTATAACCAG	0.428													56	255	---	---	---	---	PASS	T	73960135	T	T	73960135	3	4	96	1	0	0	0	0	1	0	0	0	8269	1136	40	1	301	1	KIAA2022	23	73960135	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	2535096	73960135	81310425	337	36085										
PGK1	5230	broad.mit.edu	37	chrX	77373610	77373610	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tttgatgaagaaggagctgaActactttgcaaaggccttgg	12	6	0	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:77373610A>G	uc004ecz.3	+	6	756	c.584A>G	c.(583-585)AAC>AGC	p.N195S	PGK1_uc010nlz.2_RNA|PGK1_uc011mqq.1_Missense_Mutation_p.N167S	NM_000291	NP_000282	P00558	PGK1_HUMAN	phosphoglycerate kinase 1	195					gluconeogenesis|glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			upper_aerodigestive_tract(1)|ovary(1)	2						AAGGAGCTGAACTACTTTGCA	0.468													42	263	---	---	---	---	PASS	G	77373610	G	G	77373610	3	3	96	1	0	0	0	0	1	0	0	0	11790	43	2	5	606	5	PGK1	23	77373610	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	3413475	77373610	77896950	338	36086										
DIAPH2	1730	broad.mit.edu	37	chrX	96396771	96396771	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aaatttcctgaagaactggaAcacgtagaaagtgcaagcaa	9	7	0	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:96396771A>G	uc004efu.3	+	22	3093	c.2697A>G	c.(2695-2697)GAA>GAG	p.E899E	DIAPH2_uc004eft.3_Silent_p.E899E	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	899	FH2.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						AAGAACTGGAACACGTAGAAA	0.318													14	91	---	---	---	---	PASS	G	96396771	G	G	96396771	2	3	96	1	0	0	0	0	0	0	0	1	4519	40	2	5		5	DIAPH2	23	96396771	Silent	SNP	A	TCGA-43-2578-01A-01D-1522-08	19023161	96396771	58873789	339	36087										
XKRX	402415	broad.mit.edu	37	chrX	100169714	100169714	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gaccagcaagagaagttgatGccagcatagaggatggtgac	14	7	0	4			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:100169714G>T	uc004egn.2	-	3	1568	c.963C>A	c.(961-963)GGC>GGA	p.G321G	XKRX_uc011mre.1_Silent_p.G117G	NM_212559	NP_997724	Q6PP77	XKR2_HUMAN	XK, Kell blood group complex subunit-related,	321	Helical; (Potential).					integral to membrane|plasma membrane				breast(1)	1						AGAAGTTGATGCCAGCATAGA	0.517													73	306	---	---	---	---	PASS	T	100169714	T	T	100169714	2	4	96	1	0	0	0	0	0	0	0	1	17436	1306	46	3		3	XKRX	23	100169714	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	3772943	100169714	55100846	340	36088										
GPRASP1	9737	broad.mit.edu	37	chrX	101909873	101909873	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gaagcttgcattgatttcatGcctgggtctatagatgtaat	10	6	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:101909873G>A	uc004ejj.3	+	5	1833	c.1032G>A	c.(1030-1032)ATG>ATA	p.M344I	GPRASP1_uc004eji.3_Missense_Mutation_p.M344I|GPRASP1_uc010nod.2_Missense_Mutation_p.M344I	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	344						cytoplasm	protein binding			ovary(1)|lung(1)	2						TTGATTTCATGCCTGGGTCTA	0.478													40	210	---	---	---	---	PASS	A	101909873	A	A	101909873	3	1	96	1	0	0	0	0	1	0	0	0	6722	1319	46	3	1034	3	GPRASP1	23	101909873	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	1740159	101909873	53360687	341	36089										
IRS4	8471	broad.mit.edu	37	chrX	107978980	107978980	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gcggcggcgcttgctctcgaGgatgaggcggctgagcagca	18	11	1	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:107978980G>A	uc004eoc.2	-	1	628	c.595C>T	c.(595-597)CTC>TTC	p.L199F		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	199	PH.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						TTGCTCTCGAGGATGAGGCGG	0.662													5	9	---	---	---	---	PASS	A	107978980	A	A	107978980	3	1	96	1	0	0	0	0	1	0	0	0	7842	1000	35	3	3182	3	IRS4	23	107978980	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	6069107	107978980	47291580	342	36090										
DCAF12L1	139170	broad.mit.edu	37	chrX	125686050	125686050	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ccaggcacaggggatccaggGagggcagctggtagatggcc	18	10	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:125686050G>C	uc004eul.2	-	1	793	c.542C>G	c.(541-543)TCC>TGC	p.S181C		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	181	WD 1.									skin(3)|ovary(1)	4						GGGATCCAGGGAGGGCAGCTG	0.667													8	36	---	---	---	---	PASS	C	125686050	C	C	125686050	3	2	96	1	0	0	0	0	1	0	0	0	4264	1174	41	2	853	2	DCAF12L1	23	125686050	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	17707070	125686050	29584510	343	36091										
OCRL	4952	broad.mit.edu	37	chrX	128709990	128709990	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aaacttaatgacagccagtaCtgcaagccatggcttcgggc	10	11	0	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:128709990C>T	uc004euq.2	+	17	1995	c.1830C>T	c.(1828-1830)TAC>TAT	p.Y610Y	OCRL_uc004eur.2_Silent_p.Y610Y	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	610					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						ACAGCCAGTACTGCAAGCCAT	0.468													6	272	---	---	---	---	PASS	T	128709990	T	T	128709990	2	4	96	1	0	0	0	0	0	0	0	1	10823	576	20	3		3	OCRL	23	128709990	Silent	SNP	C	TCGA-43-2578-01A-01D-1522-08	3023940	128709990	26560570	344	36092										
OCRL	4952	broad.mit.edu	37	chrX	128722174	128722174	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aggaggacctgttccagaccCctggaatgcaggaagagctc	13	11	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:128722174C>T	uc004euq.2	+	21	2440	c.2275C>T	c.(2275-2277)CCT>TCT	p.P759S	OCRL_uc004eur.2_Missense_Mutation_p.P751S|OCRL_uc010nrb.2_5'Flank	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	759	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						GTTCCAGACCCCTGGAATGCA	0.473													16	139	---	---	---	---	PASS	T	128722174	T	T	128722174	3	4	96	1	0	0	0	0	1	0	0	0	10823	623	22	3	2357	3	OCRL	23	128722174	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	12184	128722174	26548386	345	36093										
FAM127C	441518	broad.mit.edu	37	chrX	134156424	134156424	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	aagggaatcgggttcctccaGcgacgcgccgcgggccggag	17	13	0	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:134156424G>A	uc004eyc.1	-	1	143	c.66C>T	c.(64-66)CGC>CGT	p.R22R		NM_001078173	NP_001071641	Q17RB0	F127C_HUMAN	family with sequence similarity 127, member C	22											0	Acute lymphoblastic leukemia(192;0.000127)					GGTTCCTCCAGCGACGCGCCG	0.647													17	119	---	---	---	---	PASS	A	134156424	A	A	134156424	2	1	96	1	0	0	0	0	0	0	0	1	5433	958	34	3		3	FAM127C	23	134156424	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	5434250	134156424	21114136	346	36094										
GPR112	139378	broad.mit.edu	37	chrX	135443706	135443706	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ctacggagacagcccaaaccAgatgcataaaaaatgaggat	9	9	0	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:135443706A>T	uc004ezu.1	+	12	7528	c.7237A>T	c.(7237-7239)AGA>TGA	p.R2413*	GPR112_uc010nsb.1_Nonsense_Mutation_p.R2208*|GPR112_uc010nsc.1_Nonsense_Mutation_p.R2041*	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	2413	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					AGCCCAAACCAGATGCATAAA	0.418													10	127	---	---	---	---	PASS	T	135443706	T	T	135443706	4	4	96	1	0	0	0	0	0	1	0	0	6629	180	7	5	7271	5	GPR112	23	135443706	Nonsense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	1287282	135443706	19826854	347	36095										
CD40LG	959	broad.mit.edu	37	chrX	135738538	135738538	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	atcagaatcctcaaattgcgGcacatgtcataagtgaggcc	9	10	3	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:135738538G>T	uc004faa.2	+	4	442	c.370G>T	c.(370-372)GCA>TCA	p.A124S	CD40LG_uc010nsd.2_Intron|CD40LG_uc010nse.1_RNA	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	124	Extracellular (Potential).				anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	TCAAATTGCGGCACATGTCAT	0.463									Immune_Deficiency_with_Hyper-IgM				27	140	---	---	---	---	PASS	T	135738538	T	T	135738538	3	4	96	1	0	0	0	0	1	0	0	0	3016	1203	42	3	384	3	CD40LG	23	135738538	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	294832	135738538	19532022	348	36096										
F9	2158	broad.mit.edu	37	chrX	138644099	138644099	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	ggggaccccatgttactgaaGtggaagggaccagtttctta	13	8	1	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:138644099G>T	uc004fas.1	+	8	1284	c.1255G>T	c.(1255-1257)GTG>TTG	p.V419L	F9_uc004fat.1_Missense_Mutation_p.V381L	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	419	Peptidase S1.		V -> E (in HEMB; moderately severe).		blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	TGTTACTGAAGTGGAAGGGAC	0.428													79	128	---	---	---	---	PASS	T	138644099	T	T	138644099	3	4	96	1	0	0	0	0	1	0	0	0	5351	1029	36	3	1285	3	F9	23	138644099	Missense_Mutation	SNP	G	TCGA-43-2578-01A-01D-1522-08	2905561	138644099	16626461	349	36097										
ATP11C	286410	broad.mit.edu	37	chrX	138870478	138870478	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agtatgacataaacacaaggCacgtagaaacagctcttctc	7	10	2	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:138870478C>A	uc004faz.2	-	14	1501	c.1402G>T	c.(1402-1404)GCC>TCC	p.A468S	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Missense_Mutation_p.A468S	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	468	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					AAACACAAGGCACGTAGAAAC	0.373													26	147	---	---	---	---	PASS	A	138870478	A	A	138870478	3	1	96	1	0	0	0	0	1	0	0	0	1121	710	25	3	2127	3	ATP11C	23	138870478	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	226379	138870478	16400082	350	36098										
MAGEC2	51438	broad.mit.edu	37	chrX	141291463	141291463	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	agctccatgaaaaagaggagCagcaggagctcagaggactc	13	9	1	3			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:141291463C>G	uc004fbu.1	-	3	659	c.311G>C	c.(310-312)TGC>TCC	p.C104S		NM_016249	NP_057333	Q9UBF1	MAGC2_HUMAN	melanoma antigen family C, 2	104	Ser-rich.					cytoplasm|nucleus				breast(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					AAAAGAGGAGCAGCAGGAGCT	0.428										HNSCC(46;0.14)			25	117	---	---	---	---	PASS	G	141291463	G	G	141291463	3	3	96	1	0	0	0	0	1	0	0	0	9181	710	25	4	814	4	MAGEC2	23	141291463	Missense_Mutation	SNP	C	TCGA-43-2578-01A-01D-1522-08	2420985	141291463	13979097	351	36099										
FMR1	2332	broad.mit.edu	37	chrX	147009842	147009842	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gttgtaatttttgtgtaggtGtattccagagcaaatgaaaa	10	3	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:147009842G>T	uc010nst.2	+	4	390	c.201G>T	c.(199-201)GTG>GTT	p.V67V	FMR1_uc011mwz.1_Silent_p.V67V|FMR1_uc004fcj.2_Silent_p.V67V|FMR1_uc004fck.3_Silent_p.V67V|FMR1_uc004fcl.3_5'UTR|FMR1_uc011mxa.1_5'Flank	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	67					mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TTGTGTAGGTGTATTCCAGAG	0.323									Fragile_X_syndrome				59	281	---	---	---	---	PASS	T	147009842	T	T	147009842	2	4	96	1	0	0	0	0	0	0	0	1	5960	1364	48	3		3	FMR1	23	147009842	Silent	SNP	G	TCGA-43-2578-01A-01D-1522-08	5718379	147009842	8260718	352	36100										
PNMA5	114824	broad.mit.edu	37	chrX	152159451	152159451	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	tatccccaaagatctgctttAgggcgtcaaggcactgctcc	9	13	2	1			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:152159451A>C	uc010ntw.2	-	3	1031	c.692T>G	c.(691-693)CTA>CGA	p.L231R	PNMA5_uc004fha.3_Missense_Mutation_p.L231R|PNMA5_uc010ntx.2_Missense_Mutation_p.L231R|PNMA5_uc004fgy.3_Missense_Mutation_p.L231R	NM_001103151	NP_001096621	Q96PV4	PNMA5_HUMAN	paraneoplastic antigen like 5	231					apoptosis					ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GATCTGCTTTAGGGCGTCAAG	0.522													23	175	---	---	---	---	PASS	C	152159451	C	C	152159451	3	2	96	1	0	0	0	0	1	0	0	0	12156	420	15	5	658	5	PNMA5	23	152159451	Missense_Mutation	SNP	A	TCGA-43-2578-01A-01D-1522-08	5149609	152159451	3111109	353	36101										
FLNA	2316	broad.mit.edu	37	chrX	153596279	153596279	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	gtcccggctgaagttggtgaTgggcagctgcggcagcttgt	17	9	0	2			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:153596279T>C	uc004fkk.2	-	3	802	c.553A>G	c.(553-555)ATC>GTC	p.I185V	FLNA_uc010nuu.1_Missense_Mutation_p.I185V	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	185	CH 2.|Actin-binding.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AAGTTGGTGATGGGCAGCTGC	0.682													4	51	---	---	---	---	PASS	C	153596279	C	C	153596279	3	2	96	1	0	0	0	0	1	0	0	0	5933	1464	51	5	7574	5	FLNA	23	153596279	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	1436828	153596279	1674281	354	36102										
G6PD	2539	broad.mit.edu	37	chrX	153774349	153774349	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0653409090909091	23	0.0817385853808568	1.42132291513096	1.76963129749507	1.23442573435022	0.620030839539336	0.91699913007675	0	cccgcacacctgggtccggcTcagggccacctgctctgcca	11	19	2	0			TCGA-43-2578-01A-01D-1522-08	TCGA-43-2578-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	7ce90b30-d372-4edb-9807-b71cb5eb4cb7	0f1ffefd-58ed-4a47-a4fc-9b0aa52f45ba	g.chrX:153774349T>A	uc004fly.1	-	2	135	c.22A>T	c.(22-24)AGC>TGC	p.S8C	G6PD_uc004flx.1_Missense_Mutation_p.S38C|IKBKG_uc011mzr.1_Intron|IKBKG_uc010nva.2_5'Flank|IKBKG_uc004fmb.3_5'Flank|IKBKG_uc011mzs.1_5'Flank|IKBKG_uc004fma.3_5'Flank|IKBKG_uc004fmc.3_5'Flank|IKBKG_uc004fmd.2_5'Flank	NM_001042351	NP_001035810	P11413	G6PD_HUMAN	glucose-6-phosphate dehydrogenase isoform b	8					cellular response to oxidative stress|cholesterol biosynthetic process|cytokine production|erythrocyte maturation|glucose 6-phosphate metabolic process|glutathione metabolic process|negative regulation of protein glutathionylation|pentose-phosphate shunt, oxidative branch|ribose phosphate biosynthetic process	centrosome|cytosol|internal side of plasma membrane|intracellular membrane-bounded organelle	glucose binding|glucose-6-phosphate dehydrogenase activity|NADP binding|protein homodimerization activity			ovary(4)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGGGTCCGGCTCAGGGCCACC	0.547													46	225	---	---	---	---	PASS	A	153774349	A	A	153774349	3	1	96	1	0	0	0	0	1	0	0	0	6146	1551	54	5	1573	5	G6PD	23	153774349	Missense_Mutation	SNP	T	TCGA-43-2578-01A-01D-1522-08	178070	153774349	1496211	355	36103										
CHD5	26038	broad.mit.edu	37	chr1	6169927	6169927	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	caggtgctggtggctctcggCgaggcactccacttcagcca	13	14	2	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr1:6169927C>T	uc001amb.1	-	38	5606	c.5506G>A	c.(5506-5508)GCC>ACC	p.A1836T	CHD5_uc001alz.1_Missense_Mutation_p.A693T|CHD5_uc001ama.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1836					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		TGGCTCTCGGCGAGGCACTCC	0.662													28	18	---	---	---	---	PASS	T	6169927	T	T	6169927	3	4	97	1	0	0	0	0	1	0	0	0	3328	768	27	1	374	1	CHD5	1	6169927	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08		6169927	243080694	1	36104										
RCC2	55920	broad.mit.edu	37	chr1	17740092	17740092	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agatctgggaagccccacgcCcagggaagtcaaacagcttc	11	13	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr1:17740092C>A	uc001bal.2	-	8	1195	c.1148G>T	c.(1147-1149)GGG>GTG	p.G383V	RCC2_uc001bam.2_Missense_Mutation_p.G383V	NM_001136204	NP_001129676	Q9P258	RCC2_HUMAN	regulator of chromosome condensation 2	383	RCC1 5.				cell division|mitotic prometaphase	chromosome, centromeric region|cytosol|microtubule|nucleolus|spindle					0		Colorectal(325;0.000147)|Breast(348;0.00122)|Renal(390;0.00145)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;7.69e-06)|COAD - Colon adenocarcinoma(227;1.19e-05)|Kidney(64;0.000189)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.0135)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)		AGCCCCACGCCCAGGGAAGTC	0.587													5	59	---	---	---	---	PASS	A	17740092	A	A	17740092	3	1	97	1	0	0	0	0	1	0	0	0	13174	623	22	3	440	3	RCC2	1	17740092	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	11570165	17740092	231510529	2	36105										
ARID1A	8289	broad.mit.edu	37	chr1	27105921	27105921	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gacagtggcctgctgcactgGcggattggtgggggggacac	19	9	0	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr1:27105921G>A	uc001bmv.1	+	20	5905	c.5532G>A	c.(5530-5532)TGG>TGA	p.W1844*	ARID1A_uc001bmu.1_Nonsense_Mutation_p.W1627*|ARID1A_uc001bmx.1_Nonsense_Mutation_p.W690*|ARID1A_uc009vsm.1_Nonsense_Mutation_p.W172*|ARID1A_uc009vsn.1_Nonsense_Mutation_p.W86*	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1844					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)		TGCTGCACTGGCGGATTGGTG	0.577			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								41	15	---	---	---	---	PASS	A	27105921	A	A	27105921	4	1	97	1	0	0	0	0	0	1	0	0	913	1212	42	3	5610	3	ARID1A	1	27105921	Nonsense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	9365829	27105921	222144700	3	36106										
FAM183A	440585	broad.mit.edu	37	chr1	43613721	43613721	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gagctacgaacccagaaactCtacacgcagtatcacgtgaa	8	12	2	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr1:43613721C>A	uc009vwo.2	+	1	128	c.99C>A	c.(97-99)CTC>CTA	p.L33L		NM_001101376	NP_001094846	A6NL82	F183A_HUMAN	hCG23177	33										ovary(3)	3						CCCAGAAACTCTACACGCAGT	0.607													4	29	---	---	---	---	PASS	A	43613721	A	A	43613721	2	1	97	1	0	0	0	0	0	0	0	1	5510	900	32	2		2	FAM183A	1	43613721	Silent	SNP	C	TCGA-43-3394-01A-01D-0983-08	16507800	43613721	205636900	4	36107										
ERI3	79033	broad.mit.edu	37	chr1	44804965	44804965	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tgctccagtctgtaaaggtgCtagcattgaacatccagaag	10	9	1	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr1:44804965C>A	uc001clt.2	-	3	482	c.241G>T	c.(241-243)GCA>TCA	p.A81S	ERI3_uc010okv.1_Intron|ERI3_uc009vxg.2_Missense_Mutation_p.A81S|ERI3_uc010okw.1_Missense_Mutation_p.A3S|ERI3_uc001clu.2_Missense_Mutation_p.A3S	NM_024066	NP_076971	O43414	ERI3_HUMAN	prion protein interacting protein	81						intracellular	exonuclease activity|metal ion binding|nucleic acid binding			ovary(2)|large_intestine(1)	3						TGTAAAGGTGCTAGCATTGAA	0.353													61	58	---	---	---	---	PASS	A	44804965	A	A	44804965	3	1	97	1	0	0	0	0	1	0	0	0	5229	797	28	3	800	3	ERI3	1	44804965	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	1191244	44804965	204445656	5	36108										
SSBP3	23648	broad.mit.edu	37	chr1	54722846	54722846	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tggggccgcctgcgtatcgcGgtgacataaaaggctgcaat	14	10	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr1:54722846G>A	uc001cxe.2	-	7	759	c.461C>T	c.(460-462)CCG>CTG	p.P154L	SSBP3_uc001cxf.2_Intron|SSBP3_uc001cxg.2_Missense_Mutation_p.P127L	NM_145716	NP_663768	Q9BWW4	SSBP3_HUMAN	single stranded DNA binding protein 3 isoform a	154	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	single-stranded DNA binding				0						TGCGTATCGCGGTGACATAAA	0.517													4	3	---	---	---	---	PASS	A	54722846	A	A	54722846	3	1	97	1	0	0	0	0	1	0	0	0	15180	1116	39	1	753	1	SSBP3	1	54722846	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	9917881	54722846	194527775	6	36109										
SGIP1	84251	broad.mit.edu	37	chr1	67147840	67147840	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agggcctcctgggcctcctcGcaatgtactatcgccgctca	10	16	1	0	rs143518805	byFrequency	TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr1:67147840G>A	uc001dcr.2	+	15	1320	c.1103G>A	c.(1102-1104)CGC>CAC	p.R368H	SGIP1_uc010opd.1_Intron|SGIP1_uc001dcs.2_Intron|SGIP1_uc001dct.2_Intron|SGIP1_uc009wat.2_Missense_Mutation_p.R135H	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	368	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						GGGCCTCCTCGCAATGTACTA	0.552													7	73	---	---	---	---	PASS	A	67147840	A	A	67147840	3	1	97	1	0	0	0	0	1	0	0	0	14206	1087	38	1	1161	1	SGIP1	1	67147840	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	12424994	67147840	182102781	7	36110										
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112999055	112999055	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	aatgtctgtgttttgccaaaCagagagttttccagcagaaa	9	7	1	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr1:112999055C>A	uc001ebx.2	+	6	1169	c.941C>A	c.(940-942)ACA>AAA	p.T314K	CTTNBP2NL_uc001ebz.2_5'Flank	NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	314						actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTTTGCCAAACAGAGAGTTTT	0.483													32	99	---	---	---	---	PASS	A	112999055	A	A	112999055	3	1	97	1	0	0	0	0	1	0	0	0	4046	478	17	3	955	3	CTTNBP2NL	1	112999055	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	45851215	112999055	136251566	8	36111										
ASPM	259266	broad.mit.edu	37	chr1	197069780	197069780	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tgccacgtcctaaaataatgCtgtaaagtgatagcagctct	8	9	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr1:197069780C>A	uc001gtu.2	-	18	8858	c.8601G>T	c.(8599-8601)CAG>CAT	p.Q2867H	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Missense_Mutation_p.Q715H	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2867	IQ 32.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TAAAATAATGCTGTAAAGTGA	0.393													20	8	---	---	---	---	PASS	A	197069780	A	A	197069780	3	1	97	1	0	0	0	0	1	0	0	0	1056	796	28	3	1876	3	ASPM	1	197069780	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	84070725	197069780	52180841	9	36112										
OR2M2	391194	broad.mit.edu	37	chr1	248343383	248343383	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ttcctcttctttctggtcctGggcatctttttagtggcctt	8	11	4	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr1:248343383G>C	uc010pzf.1	+	1	96	c.96G>C	c.(94-96)CTG>CTC	p.L32L		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TTCTGGTCCTGGGCATCTTTT	0.512													71	62	---	---	---	---	PASS	C	248343383	C	C	248343383	2	2	97	1	0	0	0	0	0	0	0	1	11010	1335	47	4		4	OR2M2	1	248343383	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08	51273603	248343383	907238	10	36113										
RNF144A	9781	broad.mit.edu	37	chr2	7137169	7137169	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agatgacaaccatagcccagTgccaatgcatcttctgtact	7	12	2	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr2:7137169T>C	uc002qys.2	+	3	554	c.112T>C	c.(112-114)TGC>CGC	p.C38R	RNF144A_uc002qyt.2_Intron	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	38	RING-type 1; atypical.					Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		CATAGCCCAGTGCCAATGCAT	0.493													25	50	---	---	---	---	PASS	C	7137169	C	C	7137169	3	2	97	1	0	0	0	0	1	0	0	0	13445	1696	59	5	114	5	RNF144A	2	7137169	Missense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08		7137169	236062204	11	36114										
ALMS1	7840	broad.mit.edu	37	chr2	73826590	73826590	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gccagtagtttcctgagctcAaactctactttttgcaacaa	6	11	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr2:73826590A>C	uc002sje.1	+	19	11724	c.11613A>C	c.(11611-11613)TCA>TCC	p.S3871S	ALMS1_uc002sjf.1_Silent_p.S3827S|ALMS1_uc002sjh.1_Silent_p.S3257S	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3869					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TCCTGAGCTCAAACTCTACTT	0.318													14	123	---	---	---	---	PASS	C	73826590	C	C	73826590	2	2	97	1	0	0	0	0	0	0	0	1	535	117	5	5		5	ALMS1	2	73826590	Silent	SNP	A	TCGA-43-3394-01A-01D-0983-08	66689421	73826590	169372783	12	36115										
C2orf55	343990	broad.mit.edu	37	chr2	99454634	99454634	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cccggattcgatggcaatgaCctcattcctcgtctgacttt	8	13	2	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr2:99454634C>T	uc002szf.1	-	3	481	c.187G>A	c.(187-189)GTC>ATC	p.V63I		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	63											0						ATGGCAATGACCTCATTCCTC	0.473													4	22	---	---	---	---	PASS	T	99454634	T	T	99454634	3	4	97	1	0	0	0	0	1	0	0	0	2176	507	18	3	2733	3	C2orf55	2	99454634	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	25628044	99454634	143744739	13	36116										
HS6ST1	9394	broad.mit.edu	37	chr2	129026360	129026360	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cacatatgcaacgacgtcttCcacgtggcacccctctgcac	7	17	2	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr2:129026360C>A	uc002tpt.3	-	2	646	c.612G>T	c.(610-612)TGG>TGT	p.W204C		NM_004807	NP_004798	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	204	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	integral to plasma membrane	sulfotransferase activity			pancreas(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		ACGACGTCTTCCACGTGGCAC	0.642													9	21	---	---	---	---	PASS	A	129026360	A	A	129026360	3	1	97	1	0	0	0	0	1	0	0	0	7370	856	30	2	627	2	HS6ST1	2	129026360	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	29571726	129026360	114173013	14	36117										
THSD7B	80731	broad.mit.edu	37	chr2	137990482	137990483	+	Frame_Shift_Ins	INS	-	C	C													0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tggcaggtggaaagccatgtINSccccctagtcaggctctcca							TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr2:137990482_137990483insC	uc002tva.1	+	8	1836_1837	c.1836_1837insC	c.(1834-1839)TGTCCCfs	p.C612fs	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Frame_Shift_Ins_p.C502fs	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GAAAGCCATGTCCCCCTAGTCA	0.46													34	21	---	---	---	---		C	137990483	C	C	137990482	7	5	97	1	0	1	1	0	0	0	0	0	15877	1673	58	0	1866	0	THSD7B	2	137990482	Frame_Shift_Ins	INS	-	TCGA-43-3394-01A-01D-0983-08	8964122	137990482	105208891	15	36118										
THSD7B	80731	broad.mit.edu	37	chr2	138030108	138030108	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tttcctttacttcaggaaatGccacagtaaaacagtctcga	6	10	2	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr2:138030108G>A	uc002tva.1	+	10	2179	c.2179G>A	c.(2179-2181)GCC>ACC	p.A727T	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.A617T	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TTCAGGAAATGCCACAGTAAA	0.383													11	21	---	---	---	---	PASS	A	138030108	A	A	138030108	3	1	97	1	0	0	0	0	1	0	0	0	15877	1319	46	3	2217	3	THSD7B	2	138030108	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	39626	138030108	105169265	16	36119										
LRP1B	53353	broad.mit.edu	37	chr2	142004811	142004811	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ttaccaattttagccttgcaAgatctgttgtctggctgcat	8	9	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr2:142004811A>T	uc002tvj.1	-	5	1548	c.576T>A	c.(574-576)TCT>TCA	p.S192S	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	192	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).				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)		TAGCCTTGCAAGATCTGTTGT	0.388										TSP Lung(27;0.18)			16	37	---	---	---	---	PASS	T	142004811	T	T	142004811	2	4	97	1	0	0	0	0	0	0	0	1	8955	59	3	5		5	LRP1B	2	142004811	Silent	SNP	A	TCGA-43-3394-01A-01D-0983-08	3974703	142004811	101194562	17	36120										
MBD5	55777	broad.mit.edu	37	chr2	149240909	149240909	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ttccacaccccttgaaccccAgcctcctcagttctctacct	3	20	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr2:149240909A>G	uc002twm.3	+	10	3737	c.2749A>G	c.(2749-2751)AGC>GGC	p.S917G	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.S917G|MBD5_uc002two.2_5'Flank|MBD5_uc002twp.2_5'Flank	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	917						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		CTTGAACCCCAGCCTCCTCAG	0.468													52	83	---	---	---	---	PASS	G	149240909	G	G	149240909	3	3	97	1	0	0	0	0	1	0	0	0	9347	188	7	5	2767	5	MBD5	2	149240909	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	7236098	149240909	93958464	18	36121										
XIRP2	129446	broad.mit.edu	37	chr2	168106268	168106268	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	acaattgcctacagaatccaTacagaagaaccaggaagata	7	9	0	4			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr2:168106268T>C	uc002udx.2	+	8	8384	c.8366T>C	c.(8365-8367)ATA>ACA	p.I2789T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.I2614T|XIRP2_uc010fpq.2_Missense_Mutation_p.I2567T|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.I135T	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2614					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ACAGAATCCATACAGAAGAAC	0.408													38	48	---	---	---	---	PASS	C	168106268	C	C	168106268	3	2	97	1	0	0	0	0	1	0	0	0	17427	1406	49	5	8396	5	XIRP2	2	168106268	Missense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08	18865359	168106268	75093105	19	36122										
ITGA6	3655	broad.mit.edu	37	chr2	173356152	173356152	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gcattcactgtctccaaacaGgaatattccaaactgaacta	5	11	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr2:173356152G>T	uc002uhp.1	+	23	3093	c.2890_splice	c.e23-1	p.E964_splice	ITGA6_uc010zdy.1_Splice_Site_p.E845_splice|ITGA6_uc002uho.1_Splice_Site_p.E964_splice|ITGA6_uc010fqm.1_Splice_Site_p.E595_splice	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a						blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			TCTCCAAACAGGAATATTCCA	0.463													4	41	---	---	---	---	PASS	T	173356152	T	T	173356152	5	4	97	1	0	0	0	0	0	0	1	0	7880	1014	35	3	2979	3	ITGA6	2	173356152	Splice_Site	SNP	G	TCGA-43-3394-01A-01D-0983-08	5249884	173356152	69843221	20	36123										
TTN	7273	broad.mit.edu	37	chr2	179393645	179393645	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	atgctcatctgagtagaaaaTgctttaatctcagcatgagt	8	7	3	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr2:179393645T>C	uc010zfg.1	-	309	99353	c.99129A>G	c.(99127-99129)GCA>GCG	p.A33043A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.A26738A|TTN_uc010zfi.1_Silent_p.A26671A|TTN_uc010zfj.1_Silent_p.A26546A|TTN_uc002umq.2_Silent_p.A60A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33970							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)			GAGTAGAAAATGCTTTAATCT	0.423													18	58	---	---	---	---	PASS	C	179393645	C	C	179393645	2	2	97	1	0	0	0	0	0	0	0	1	16732	1451	51	5		5	TTN	2	179393645	Silent	SNP	T	TCGA-43-3394-01A-01D-0983-08	6037493	179393645	63805728	21	36124										
TTN	7273	broad.mit.edu	37	chr2	179571295	179571295	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cgttaaatgccacgcatcggTataacccagaatcagttttt	7	10	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr2:179571295T>C	uc010zfg.1	-	99	25798	c.25574A>G	c.(25573-25575)TAC>TGC	p.Y8525C	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.Y5186C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9452							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)			CACGCATCGGTATAACCCAGA	0.413													109	87	---	---	---	---	PASS	C	179571295	C	C	179571295	3	2	97	1	0	0	0	0	1	0	0	0	16732	1638	57	5	75267	5	TTN	2	179571295	Missense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08	177650	179571295	63628078	22	36125										
CCR3	1232	broad.mit.edu	37	chr3	46307342	46307343	+	Frame_Shift_Ins	INS	-	A	A													0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cgctgctgaggtgccccagtINSaaaaaaaagtacaaggccat							TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr3:46307342_46307343insA	uc003cpg.1	+	4	1236_1237	c.693_694insA	c.(691-696)AGTAAAfs	p.S231fs	CCR3_uc003cpi.1_Frame_Shift_Ins_p.S231fs|CCR3_uc003cpj.1_Frame_Shift_Ins_p.S231fs|CCR3_uc003cpk.1_Frame_Shift_Ins_p.S252fs|CCR3_uc010hjb.1_Frame_Shift_Ins_p.S249fs|CCR3_uc003cpl.1_Frame_Shift_Ins_p.S264fs	NM_178329	NP_847899	P51677	CCR3_HUMAN	CC chemokine receptor 3 isoform 1	231_232	Cytoplasmic (Potential).				cell adhesion|cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|inflammatory response|interspecies interaction between organisms|positive regulation of angiogenesis	integral to plasma membrane				ovary(3)|lung(3)|breast(1)|kidney(1)	8				BRCA - Breast invasive adenocarcinoma(193;0.00119)|KIRC - Kidney renal clear cell carcinoma(197;0.0183)|Kidney(197;0.0216)		GGTGCCCCAGTAAAAAAAAGTA	0.465													21	20	---	---	---	---		A	46307343	A	A	46307342	7	5	97	1	0	1	1	0	0	0	0	0	2942	1635	57	0	762	0	CCR3	3	46307342	Frame_Shift_Ins	INS	-	TCGA-43-3394-01A-01D-0983-08		46307342	151715088	23	36126										
GRM2	2912	broad.mit.edu	37	chr3	51747147	51747147	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agcccactctctccgggctgTgccctttgagcaggagtcca	11	15	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr3:51747147T>C	uc010hlv.2	+	3	1348	c.1109T>C	c.(1108-1110)GTG>GCG	p.V370A	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	370	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	CTCCGGGCTGTGCCCTTTGAG	0.607													14	11	---	---	---	---	PASS	C	51747147	C	C	51747147	3	2	97	1	0	0	0	0	1	0	0	0	6797	1696	59	5	1115	5	GRM2	3	51747147	Missense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08	5439805	51747147	146275283	24	36127										
FILIP1L	11259	broad.mit.edu	37	chr3	99567816	99567816	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tggagtaacctttatatgaaGtggctgcccaggtgtgtggc	14	7	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr3:99567816G>A	uc003dtm.2	-	5	3167	c.2704C>T	c.(2704-2706)CTT>TTT	p.L902F	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.L902F|FILIP1L_uc010hpf.2_Missense_Mutation_p.L478F|FILIP1L_uc010hpg.2_Missense_Mutation_p.L662F|FILIP1L_uc003dtn.2_Missense_Mutation_p.L662F|FILIP1L_uc003dtp.1_Missense_Mutation_p.L662F	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	902						cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						TTTATATGAAGTGGCTGCCCA	0.463													88	83	---	---	---	---	PASS	A	99567816	A	A	99567816	3	1	97	1	0	0	0	0	1	0	0	0	5895	1029	36	3	732	3	FILIP1L	3	99567816	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	47820669	99567816	98454614	25	36128										
TFG	10342	broad.mit.edu	37	chr3	100447602	100447602	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tcaagtcaggtgaaatatctCcgtcgagaactgatagaact	9	8	3	4			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr3:100447602C>G	uc003due.2	+	4	764	c.315C>G	c.(313-315)CTC>CTG	p.L105L	TFG_uc003duf.2_Silent_p.L105L|TFG_uc003dug.2_Silent_p.L105L|TFG_uc003duh.2_Silent_p.L105L|TFG_uc003dui.2_Silent_p.L105L	NM_006070	NP_006061	Q92734	TFG_HUMAN	TRK-fused	105	Potential.				positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm	signal transducer activity		TFG/ALK(7)	haematopoietic_and_lymphoid_tissue(7)|lung(2)|large_intestine(1)|prostate(1)	11						TGAAATATCTCCGTCGAGAAC	0.368			T	NTRK1|ALK	papillary thyroid|ALCL|NSCLC								24	77	---	---	---	---	PASS	G	100447602	G	G	100447602	2	3	97	1	0	0	0	0	0	0	0	1	15803	842	30	2		2	TFG	3	100447602	Silent	SNP	C	TCGA-43-3394-01A-01D-0983-08	879786	100447602	97574828	26	36129										
KIAA2018	205717	broad.mit.edu	37	chr3	113377278	113377278	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tggttgacatgggagagtcgGcctgtctaccgttgatcaaa	13	8	2	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr3:113377278G>A	uc003eam.2	-	7	3662	c.3251C>T	c.(3250-3252)GCC>GTC	p.A1084V	KIAA2018_uc003eal.2_Missense_Mutation_p.A1028V	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1084					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						GGGAGAGTCGGCCTGTCTACC	0.453													43	97	---	---	---	---	PASS	A	113377278	A	A	113377278	3	1	97	1	0	0	0	0	1	0	0	0	8268	1203	42	3	3490	3	KIAA2018	3	113377278	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	12929676	113377278	84645152	27	36130										
CLSTN2	64084	broad.mit.edu	37	chr3	140281051	140281051	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	acattttggtgatcggagggGacttggacccaaggcaggag	16	7	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr3:140281051G>T	uc003etn.2	+	13	2303	c.2113G>T	c.(2113-2115)GAC>TAC	p.D705Y		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	705	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						GATCGGAGGGGACTTGGACCC	0.493										HNSCC(16;0.037)			25	66	---	---	---	---	PASS	T	140281051	T	T	140281051	3	4	97	1	0	0	0	0	1	0	0	0	3562	1174	41	2	2163	2	CLSTN2	3	140281051	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	26903773	140281051	57741379	28	36131										
SLC9A9	285195	broad.mit.edu	37	chr3	143412129	143412129	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cagcatgtatcatagccttcAcaaaaccatacataattaac	3	11	2	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr3:143412129A>G	uc003evn.2	-	5	736	c.554T>C	c.(553-555)GTG>GCG	p.V185A	SLC9A9_uc011bnk.1_Missense_Mutation_p.V59A	NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	185	Helical; (Potential).				regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						CATAGCCTTCACAAAACCATA	0.378													11	64	---	---	---	---	PASS	G	143412129	G	G	143412129	3	3	97	1	0	0	0	0	1	0	0	0	14721	159	6	5	1431	5	SLC9A9	3	143412129	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	3131078	143412129	54610301	29	36132										
DHX36	170506	broad.mit.edu	37	chr3	154017707	154017707	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ctggcagaaagaccagtatcGcaccatcctatatgaagggg	11	10	0	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr3:154017707G>A	uc003ezy.3	-	12	1550	c.1469C>T	c.(1468-1470)GCG>GTG	p.A490V	DHX36_uc010hvq.2_Missense_Mutation_p.A490V|DHX36_uc003ezz.3_Missense_Mutation_p.A490V	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	490	Helicase C-terminal.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			GACCAGTATCGCACCATCCTA	0.358													7	71	---	---	---	---	PASS	A	154017707	A	A	154017707	3	1	97	1	0	0	0	0	1	0	0	0	4509	1087	38	1	1613	1	DHX36	3	154017707	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	10605578	154017707	44004723	30	36133										
IFT80	57560	broad.mit.edu	37	chr3	159995188	159995188	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agcctcctgtatgttcccacTaaacagtagtatgtgggcca	9	11	0	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr3:159995188T>G	uc011boy.1	-	18	2438	c.2005A>C	c.(2005-2007)AGT>CGT	p.S669R	IFT80_uc003fda.2_RNA|IFT80_uc003fdb.1_Missense_Mutation_p.S532R|IFT80_uc003fdd.1_Missense_Mutation_p.S352R|IFT80_uc003fde.1_Missense_Mutation_p.S532R	NM_020800	NP_065851	Q9P2H3	IFT80_HUMAN	WD repeat domain 56	669						cilium axoneme|microtubule basal body				ovary(1)	1			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			ATGTTCCCACTAAACAGTAGT	0.328													47	81	---	---	---	---	PASS	G	159995188	G	G	159995188	3	3	97	1	0	0	0	0	1	0	0	0	7564	1522	53	5	340	5	IFT80	3	159995188	Missense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08	5977481	159995188	38027242	31	36134										
MECOM	2122	broad.mit.edu	37	chr3	168810803	168810803	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tgctgttcccaatgaaatttCgaatttctgtgaagtaagca	8	7	1	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr3:168810803C>A	uc003ffi.3	-	13	2812	c.2543G>T	c.(2542-2544)CGA>CTA	p.R848L	MECOM_uc010hwk.1_Missense_Mutation_p.R862L|MECOM_uc003ffj.3_Missense_Mutation_p.R913L|MECOM_uc011bpi.1_Missense_Mutation_p.R840L|MECOM_uc003ffn.3_Missense_Mutation_p.R848L|MECOM_uc003ffk.2_Missense_Mutation_p.R839L|MECOM_uc003ffl.2_Missense_Mutation_p.R999L|MECOM_uc011bpj.1_Missense_Mutation_p.R1036L|MECOM_uc011bpk.1_Missense_Mutation_p.R838L	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	848					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						AATGAAATTTCGAATTTCTGT	0.443													12	202	---	---	---	---	PASS	A	168810803	A	A	168810803	3	1	97	1	0	0	0	0	1	0	0	0	9422	884	31	2	628	2	MECOM	3	168810803	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	8815615	168810803	29211627	32	36135										
ZNF718	255403	broad.mit.edu	37	chr4	155336	155336	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	aaatactacaaatgtgaagaAtgtggtaaagcctttaagtg	9	4	0	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr4:155336A>T	uc003fzt.3	+	8	994	c.861A>T	c.(859-861)GAA>GAT	p.E287D	ZNF595_uc003fzu.1_Intron|ZNF718_uc010iaz.2_RNA|ZNF718_uc003fzw.3_Missense_Mutation_p.N67I	NM_001039127	NP_001034216	Q3SXZ3	ZN718_HUMAN	zinc finger protein 718	287	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0681)|Epithelial(2;0.0838)|all cancers(2;0.135)|LUSC - Lung squamous cell carcinoma(95;0.18)		AATGTGAAGAATGTGGTAAAG	0.358													13	6	---	---	---	---	PASS	T	155336	T	T	155336	3	4	97	1	0	0	0	0	1	0	0	0	18117	98	4	5	875	5	ZNF718	4	155336	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08		155336	190998940	33	36136										
SLIT2	9353	broad.mit.edu	37	chr4	20598038	20598038	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tttttctccttattcttcagTggcttgttctgtgagttttc	7	8	4	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr4:20598038T>C	uc003gpr.1	+	32	3525	c.3321T>C	c.(3319-3321)AGT>AGC	p.S1107S	SLIT2_uc003gps.1_Silent_p.S1099S	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1107	EGF-like 5; calcium-binding (Potential).				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TATTCTTCAGTGGCTTGTTCT	0.363													11	4	---	---	---	---	PASS	C	20598038	C	C	20598038	2	2	97	1	0	0	0	0	0	0	0	1	14740	1710	59	5		5	SLIT2	4	20598038	Silent	SNP	T	TCGA-43-3394-01A-01D-0983-08	20442702	20598038	170556238	34	36137										
PPARGC1A	10891	broad.mit.edu	37	chr4	23803870	23803870	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tcatcccgcagatttactgtGcactcctcaatttcaccaaa	4	14	3	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr4:23803870G>A	uc003gqs.2	-	11	2238	c.2118C>T	c.(2116-2118)TGC>TGT	p.C706C	PPARGC1A_uc003gqt.2_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	706	RRM.				androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				GATTTACTGTGCACTCCTCAA	0.418													33	22	---	---	---	---	PASS	A	23803870	A	A	23803870	2	1	97	1	0	0	0	0	0	0	0	1	12300	1311	46	3		3	PPARGC1A	4	23803870	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08	3205832	23803870	167350406	35	36138										
ATP8A1	10396	broad.mit.edu	37	chr4	42445668	42445668	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cacccagagtgcgatgctccCccatatcgctatgtggctga	10	14	0	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr4:42445668C>A	uc003gwr.2	-	33	3269	c.3037G>T	c.(3037-3039)GGG>TGG	p.G1013W	ATP8A1_uc003gwq.2_Missense_Mutation_p.G239W|ATP8A1_uc003gws.2_Missense_Mutation_p.G998W	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	1013	Helical; (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	GCGATGCTCCCCCATATCGCT	0.448													12	15	---	---	---	---	PASS	A	42445668	A	A	42445668	3	1	97	1	0	0	0	0	1	0	0	0	1192	623	22	3	477	3	ATP8A1	4	42445668	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	18641798	42445668	148708608	36	36139										
GABRG1	2565	broad.mit.edu	37	chr4	46043218	46043218	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	taatcatcttcttgcggcacAgaaatattattcattggaat	6	7	4	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr4:46043218A>T	uc003gxb.2	-	9	1337	c.1185T>A	c.(1183-1185)TCT>TCA	p.S395S		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	395	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		CTTGCGGCACAGAAATATTAT	0.408													11	22	---	---	---	---	PASS	T	46043218	T	T	46043218	2	4	97	1	0	0	0	0	0	0	0	1	6171	175	7	5		5	GABRG1	4	46043218	Silent	SNP	A	TCGA-43-3394-01A-01D-0983-08	3597550	46043218	145111058	37	36140										
NPY1R	4886	broad.mit.edu	37	chr4	164247222	164247222	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	aagccacagcaaggacccaaAtcacagcaatacctacataa	5	13	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr4:164247222A>C	uc003iqm.1	-	2	751	c.485T>G	c.(484-486)ATT>AGT	p.I162S	NPY1R_uc011cjj.1_Intron	NM_000909	NP_000900	P25929	NPY1R_HUMAN	neuropeptide Y receptor Y1	162	Helical; Name=4; (Potential).				inhibition of adenylate cyclase activity by G-protein signaling pathway|outflow tract morphogenesis	integral to plasma membrane	protein binding			lung(1)|pancreas(1)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				AAGGACCCAAATCACAGCAAT	0.433													27	14	---	---	---	---	PASS	C	164247222	C	C	164247222	3	2	97	1	0	0	0	0	1	0	0	0	10608	101	4	5	677	5	NPY1R	4	164247222	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	118204004	164247222	26907054	38	36141										
CLCN3	1182	broad.mit.edu	37	chr4	170610338	170610338	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tgaagagagggataaatgtcCacagtggaaaacatgggcag	14	5	0	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr4:170610338C>A	uc003isi.2	+	5	1072	c.563C>A	c.(562-564)CCA>CAA	p.P188Q	CLCN3_uc003ish.2_Missense_Mutation_p.P188Q|CLCN3_uc011cjz.1_Missense_Mutation_p.P171Q|CLCN3_uc011cka.1_Missense_Mutation_p.P188Q|CLCN3_uc003isj.1_Missense_Mutation_p.P161Q	NM_001829	NP_001820	P51790	CLCN3_HUMAN	chloride channel 3 isoform b	188					endosomal lumen acidification	cell surface|early endosome membrane|Golgi membrane|integral to membrane|late endosome membrane|transport vesicle membrane	antiporter activity|ATP binding|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|voltage-gated chloride channel activity			breast(2)|ovary(1)	3		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0233)|LUSC - Lung squamous cell carcinoma(193;0.131)		GATAAATGTCCACAGTGGAAA	0.398													4	45	---	---	---	---	PASS	A	170610338	A	A	170610338	3	1	97	1	0	0	0	0	1	0	0	0	3464	594	21	3	577	3	CLCN3	4	170610338	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	6363116	170610338	20543938	39	36142										
ODZ3	55714	broad.mit.edu	37	chr4	183664445	183664445	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ccagttgcaatggtcaagctGatggtaacaagttactggcc	11	9	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr4:183664445G>C	uc003ivd.1	+	18	3539	c.3502G>C	c.(3502-3504)GAT>CAT	p.D1168H	ODZ3_uc003ive.1_Missense_Mutation_p.D574H	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1168	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TGGTCAAGCTGATGGTAACAA	0.547													24	17	---	---	---	---	PASS	C	183664445	C	C	183664445	3	2	97	1	0	0	0	0	1	0	0	0	10836	1290	45	2	3572	2	ODZ3	4	183664445	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	13054107	183664445	7489831	40	36143										
FAT1	2195	broad.mit.edu	37	chr4	187541799	187541799	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	taccgcagagtagacatcctGggtaaactttaggtgacttt	10	8	0	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr4:187541799G>A	uc003izf.2	-	10	6129	c.5941C>T	c.(5941-5943)CAG>TAG	p.Q1981*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1981	Extracellular (Potential).|Cadherin 18.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TAGACATCCTGGGTAAACTTT	0.433										HNSCC(5;0.00058)			77	60	---	---	---	---	PASS	A	187541799	A	A	187541799	4	1	97	1	0	0	0	0	0	1	0	0	5689	1357	47	3	7897	3	FAT1	4	187541799	Nonsense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	3877354	187541799	3612477	41	36144										
C5orf38	153571	broad.mit.edu	37	chr5	2752747	2752747	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ctctttcagatttgtgttgtCaaaacactggggggatgatt	11	6	3	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:2752747C>G	uc003jdc.2	+	2	329	c.212C>G	c.(211-213)TCA>TGA	p.S71*	C5orf38_uc011cmg.1_Nonsense_Mutation_p.S71*|C5orf38_uc011cmh.1_Intron|C5orf38_uc011cmi.1_Intron|C5orf38_uc011cmj.1_Intron	NM_178569	NP_848664	Q86SI9	CEI_HUMAN	hypothetical protein LOC153571 precursor	71						extracellular region					0				GBM - Glioblastoma multiforme(108;0.205)		TTTGTGTTGTCAAAACACTGG	0.507													60	74	---	---	---	---	PASS	G	2752747	G	G	2752747	4	3	97	1	0	0	0	0	0	1	0	0	2296	838	29	2	218	2	C5orf38	5	2752747	Nonsense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08		2752747	178162513	42	36145										
C1QTNF3	114899	broad.mit.edu	37	chr5	34024067	34024067	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ataaggtacacatacacttcCtcaacatcctcatgcttcat	3	13	3	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:34024067C>A	uc003jin.2	-	5	615	c.528G>T	c.(526-528)GAG>GAT	p.E176D	C1QTNF3_uc003jim.2_Missense_Mutation_p.E56D|C1QTNF3_uc003jio.2_Missense_Mutation_p.E249D	NM_030945	NP_112207	Q9BXJ4	C1QT3_HUMAN	C1q and tumor necrosis factor related protein 3	176	C1q.					collagen					0	all_lung(31;0.0207)					CATACACTTCCTCAACATCCT	0.408													5	81	---	---	---	---	PASS	A	34024067	A	A	34024067	3	1	97	1	0	0	0	0	1	0	0	0	1964	680	24	3	220	3	C1QTNF3	5	34024067	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	31271320	34024067	146891193	43	36146										
HEATR7B2	133558	broad.mit.edu	37	chr5	40998213	40998213	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ggtttgcaaagcagcctcagCtgctctctggacactaatac	9	12	2	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:40998213C>A	uc003jmj.3	-	42	5189	c.4699G>T	c.(4699-4701)GCT>TCT	p.A1567S	HEATR7B2_uc003jmi.3_Missense_Mutation_p.A1122S	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1567							binding			ovary(6)|central_nervous_system(2)	8						GCAGCCTCAGCTGCTCTCTGG	0.463													83	257	---	---	---	---	PASS	A	40998213	A	A	40998213	3	1	97	1	0	0	0	0	1	0	0	0	7035	797	28	3	62	3	HEATR7B2	5	40998213	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	6974146	40998213	139917047	44	36147										
DIMT1L	27292	broad.mit.edu	37	chr5	61688006	61688006	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tttctaacttacaatattatGgactgaacagtgaattctgt	6	6	2	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:61688006G>T	uc003jta.2	-	10	913	c.784C>A	c.(784-786)CAT>AAT	p.H262N		NM_014473	NP_055288	Q9UNQ2	DIMT1_HUMAN	dimethyladenosine transferase	262						nucleolus	RNA binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			central_nervous_system(1)	1		Lung NSC(810;8.94e-06)|Prostate(74;0.0235)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.122)		ACAATATTATGGACTGAACAG	0.313													4	37	---	---	---	---	PASS	T	61688006	T	T	61688006	3	4	97	1	0	0	0	0	1	0	0	0	4523	1348	47	3	169	3	DIMT1L	5	61688006	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	20689793	61688006	119227254	45	36148										
UTP15	84135	broad.mit.edu	37	chr5	72864310	72864310	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tctcgatttaaagacacagcAtactgtgctacttttcgaca	6	10	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:72864310A>G	uc003kcw.1	+	4	472	c.249A>G	c.(247-249)GCA>GCG	p.A83A	UTP15_uc011cso.1_Silent_p.A64A|UTP15_uc011csp.1_5'UTR|UTP15_uc010ize.1_Silent_p.A83A|ANKRA2_uc003kcu.1_5'Flank|ANKRA2_uc003kcv.2_5'Flank	NM_032175	NP_115551	Q8TED0	UTP15_HUMAN	UTP15, U3 small nucleolar ribonucleoprotein,	83	WD 2.				rRNA processing	cytoplasm|nucleolus					0		Lung NSC(167;0.00405)|Ovarian(174;0.0129)		OV - Ovarian serous cystadenocarcinoma(47;7.76e-55)		AAGACACAGCATACTGTGCTA	0.423													36	16	---	---	---	---	PASS	G	72864310	G	G	72864310	2	3	97	1	0	0	0	0	0	0	0	1	17094	204	8	5		5	UTP15	5	72864310	Silent	SNP	A	TCGA-43-3394-01A-01D-0983-08	11176304	72864310	108050950	46	36149										
ANKRD34B	340120	broad.mit.edu	37	chr5	79854626	79854626	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	caacaattctttggactctgAcaattgggaaggagatggtg	12	6	2	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:79854626A>G	uc010jam.2	-	4	1563	c.1213T>C	c.(1213-1215)TCA>CCA	p.S405P	ANKRD34B_uc003kgw.2_Missense_Mutation_p.S405P|ANKRD34B_uc010jan.2_Missense_Mutation_p.S405P	NM_001004441	NP_001004441	A5PLL1	AN34B_HUMAN	ankyrin repeat domain 34B	405						cytoplasm|nucleus				pancreas(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-46)|Epithelial(54;5.64e-41)|all cancers(79;3.24e-36)		TTGGACTCTGACAATTGGGAA	0.478													25	14	---	---	---	---	PASS	G	79854626	G	G	79854626	3	3	97	1	0	0	0	0	1	0	0	0	663	275	10	5	335	5	ANKRD34B	5	79854626	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	6990316	79854626	101060634	47	36150										
MSH3	4437	broad.mit.edu	37	chr5	79968171	79968171	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tacgccgcctggtggcaaaaGgatataaggtcagctttggc	13	9	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:79968171G>T	uc003kgz.2	+	5	1154	c.901G>T	c.(901-903)GGA>TGA	p.G301*		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	301					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		GGTGGCAAAAGGATATAAGGT	0.433								MMR					7	30	---	---	---	---	PASS	T	79968171	T	T	79968171	4	4	97	1	0	0	0	0	0	1	0	0	9871	1001	35	3	919	3	MSH3	5	79968171	Nonsense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	113545	79968171	100947089	48	36151										
APC	324	broad.mit.edu	37	chr5	112174187	112174187	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cttcaaatgatagtttaaatAgtgtcagtagtagtgatggt	10	3	2	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:112174187A>G	uc010jby.2	+	16	3276	c.2896A>G	c.(2896-2898)AGT>GGT	p.S966G	APC_uc011cvt.1_Missense_Mutation_p.S948G|APC_uc003kpz.3_Missense_Mutation_p.S966G|APC_uc003kpy.3_Missense_Mutation_p.S966G|APC_uc010jbz.2_Missense_Mutation_p.S683G|APC_uc010jca.2_Missense_Mutation_p.S266G	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	966	Ser-rich.|Responsible for down-regulation through a process mediated by direct ubiquitination.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)|p.S966R(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TAGTTTAAATAGTGTCAGTAG	0.328		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			16	11	---	---	---	---	PASS	G	112174187	G	G	112174187	3	3	97	1	0	0	0	0	1	0	0	0	763	420	15	5	2954	5	APC	5	112174187	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	32206016	112174187	68741073	49	36152										
KCNN2	3781	broad.mit.edu	37	chr5	113831666	113831666	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ttcgagaagaggattgttacCctggaaacaaaactagagac	10	7	0	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:113831666C>A	uc003kqo.2	+	8	1984	c.1527C>A	c.(1525-1527)ACC>ACA	p.T509T	KCNN2_uc003kqp.2_Silent_p.T161T|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	509						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		GGATTGTTACCCTGGAAACAA	0.448													36	35	---	---	---	---	PASS	A	113831666	A	A	113831666	2	1	97	1	0	0	0	0	0	0	0	1	8079	610	22	3		3	KCNN2	5	113831666	Silent	SNP	C	TCGA-43-3394-01A-01D-0983-08	1657479	113831666	67083594	50	36153										
SLC27A6	28965	broad.mit.edu	37	chr5	128320972	128320972	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agcccgtgccacgcagccacCatgttgtctcactcctcaag	8	17	2	0	rs142869983	byFrequency	TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:128320972C>G	uc003kuy.2	+	3	1024	c.628C>G	c.(628-630)CAT>GAT	p.H210D	SLC27A6_uc003kuz.2_Missense_Mutation_p.H210D	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	210					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		ACGCAGCCACCATGTTGTCTC	0.423													17	17	---	---	---	---	PASS	G	128320972	G	G	128320972	3	3	97	1	0	0	0	0	1	0	0	0	14530	594	21	4	634	4	SLC27A6	5	128320972	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	14489306	128320972	52594288	51	36154										
ACSL6	23305	broad.mit.edu	37	chr5	131296315	131296315	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	acaatgcctaccaaaaaggcCtgcagtgctcaccaaaggag	9	12	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:131296315C>T	uc010jdo.1	-	19	1866	c.1783_splice	c.e19-1	p.A595_splice	ACSL6_uc003kvv.1_Splice_Site|ACSL6_uc003kvx.1_Splice_Site_p.A620_splice|ACSL6_uc003kvy.1_Splice_Site_p.A620_splice|ACSL6_uc003kwb.2_Splice_Site_p.A585_splice|ACSL6_uc003kvz.1_Splice_Site_p.A520_splice|ACSL6_uc003kwa.1_Splice_Site_p.A606_splice|ACSL6_uc003kvw.1_Splice_Site_p.A241_splice|ACSL6_uc010jdn.1_Splice_Site_p.A610_splice	NM_015256	NP_056071	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6						fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CCAAAAAGGCCTGCAGTGCTC	0.433													13	13	---	---	---	---	PASS	T	131296315	T	T	131296315	5	4	97	1	0	0	0	0	0	0	1	0	181	695	24	3	323	3	ACSL6	5	131296315	Splice_Site	SNP	C	TCGA-43-3394-01A-01D-0983-08	2975343	131296315	49618945	52	36155										
PCDHB5	26167	broad.mit.edu	37	chr5	140517005	140517005	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ctgcacgtgctcctggtggaCggcttctcccagccctacct	10	17	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:140517005C>T	uc003liq.2	+	1	2206	c.1989C>T	c.(1987-1989)GAC>GAT	p.D663D		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	663	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCTGGTGGACGGCTTCTCCC	0.716													16	9	---	---	---	---	PASS	T	140517005	T	T	140517005	2	4	97	1	0	0	0	0	0	0	0	1	11545	535	19	1		1	PCDHB5	5	140517005	Silent	SNP	C	TCGA-43-3394-01A-01D-0983-08	9220690	140517005	40398255	53	36156										
THG1L	54974	broad.mit.edu	37	chr5	157159978	157159978	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gaagaactagaggatattgtGatcgcgtatggacagagtga	14	4	0	5			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:157159978G>A	uc003lxd.2	+	2	420	c.294G>A	c.(292-294)GTG>GTA	p.V98V	THG1L_uc011ddu.1_5'UTR	NM_017872	NP_060342	Q9NWX6	THG1_HUMAN	interphase cytoplasmic foci protein 45	98					protein homotetramerization|tRNA modification	mitochondrion	GTP binding|metal ion binding|tRNA guanylyltransferase activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AGGATATTGTGATCGCGTATG	0.448													41	23	---	---	---	---	PASS	A	157159978	A	A	157159978	2	1	97	1	0	0	0	0	0	0	0	1	15858	1277	45	2		2	THG1L	5	157159978	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08	16642973	157159978	23755282	54	36157										
EBF1	1879	broad.mit.edu	37	chr5	158522656	158522656	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tcatggagtcaatgaggcgcAcgtagaaatcctgctccgtc	11	11	2	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:158522656A>G	uc010jip.2	-	4	685	c.383T>C	c.(382-384)GTG>GCG	p.V128A	EBF1_uc011ddw.1_5'UTR|EBF1_uc011ddx.1_Missense_Mutation_p.V128A|EBF1_uc003lxl.3_Missense_Mutation_p.V128A	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	128					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AATGAGGCGCACGTAGAAATC	0.478			T	HMGA2	lipoma								10	22	---	---	---	---	PASS	G	158522656	G	G	158522656	3	3	97	1	0	0	0	0	1	0	0	0	4880	159	6	5	1444	5	EBF1	5	158522656	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	1362678	158522656	22392604	55	36158										
CDHR2	54825	broad.mit.edu	37	chr5	176011260	176011260	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cggtgaaggaggaggatccaGgtatgtgctccctgggccag	17	9	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:176011260G>T	uc003mem.1	+	18	2194	c.2128G>T	c.(2128-2130)GGA>TGA	p.G710*	CDHR2_uc003men.1_Nonsense_Mutation_p.G710*	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	710	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GGAGGATCCAGGTATGTGCTC	0.577													4	32	---	---	---	---	PASS	T	176011260	T	T	176011260	4	4	97	1	0	0	0	0	0	1	0	0	3119	1014	35	3	2194	3	CDHR2	5	176011260	Nonsense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	17488604	176011260	4904000	56	36159										
CANX	821	broad.mit.edu	37	chr5	179155595	179155595	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ttcttttcaatcaataggagGatgaaattttgaacagatca	7	5	4	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr5:179155595G>T	uc003mkk.2	+	15	1906	c.1729G>T	c.(1729-1731)GAT>TAT	p.D577Y	CANX_uc011dgp.1_Missense_Mutation_p.D612Y|CANX_uc003mkl.2_Missense_Mutation_p.D577Y|CANX_uc011dgq.1_Missense_Mutation_p.D469Y	NM_001746	NP_001737	P27824	CALX_HUMAN	calnexin precursor	577	Cytoplasmic (Potential).				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein secretion	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane|melanosome	calcium ion binding|sugar binding|unfolded protein binding				0	all_cancers(89;0.000129)|all_epithelial(37;5.59e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0413)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCAATAGGAGGATGAAATTTT	0.343													13	6	---	---	---	---	PASS	T	179155595	T	T	179155595	3	4	97	1	0	0	0	0	1	0	0	0	2618	1174	41	2	1783	2	CANX	5	179155595	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	3144335	179155595	1759665	57	36160										
TRIM15	89870	broad.mit.edu	37	chr6	30131465	30131465	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ctggggaaggcaccgtgatgCccgcaaccccgtccctgaag	13	15	0	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr6:30131465C>T	uc010jrx.2	+	1	483	c.4C>T	c.(4-6)CCC>TCC	p.P2S	TRIM10_uc003npn.2_5'Flank|TRIM10_uc003npo.3_5'Flank	NM_033229	NP_150232	Q9C019	TRI15_HUMAN	tripartite motif protein 15	2					mesodermal cell fate determination	intracellular	zinc ion binding				0						CACCGTGATGCCCGCAACCCC	0.622													5	11	---	---	---	---	PASS	T	30131465	T	T	30131465	3	4	97	1	0	0	0	0	1	0	0	0	16487	739	26	3	6	3	TRIM15	6	30131465	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08		30131465	140983602	58	36161										
TNXB	7148	broad.mit.edu	37	chr6	32046816	32046816	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tgcccctcactcacctgtcaCgcccacggcggacaccgggc	10	20	3	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr6:32046816C>T	uc003nzl.2	-	11	4571	c.4369G>A	c.(4369-4371)GTG>ATG	p.V1457M		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1544					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TCACCTGTCACGCCCACGGCG	0.657													5	22	---	---	---	---	PASS	T	32046816	T	T	32046816	3	4	97	1	0	0	0	0	1	0	0	0	16343	536	19	1	10480	1	TNXB	6	32046816	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	1915351	32046816	139068251	59	36162										
FRS3	10817	broad.mit.edu	37	chr6	41738856	41738856	+	Frame_Shift_Del	DEL	G	-	-													0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tttcccacacagggggcagtGggggcaggttctcatagtgc							TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr6:41738856delG	uc003orc.1	-	7	1224	c.980delC	c.(979-981)CCAfs	p.P327fs		NM_006653	NP_006644	O43559	FRS3_HUMAN	fibroblast growth factor receptor substrate 3	327					fibroblast growth factor receptor signaling pathway	plasma membrane	fibroblast growth factor receptor binding|insulin receptor binding			ovary(2)	2	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			AGGGGGCAGTGGGGGCAGGTT	0.677													18	10	---	---	---	---		-	41738856	-	-	41738856	7	5	97	1	0	1	0	1	0	0	0	0	6062	1348	47	0	502	0	FRS3	6	41738856	Frame_Shift_Del	DEL	G	TCGA-43-3394-01A-01D-0983-08	9692040	41738856	129376211	60	36163										
IMPG1	3617	broad.mit.edu	37	chr6	76744468	76744468	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tgtcagggatgcgatccagaAagatccgatatgcttcccat	10	10	1	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr6:76744468A>G	uc003pik.1	-	3	468	c.338T>C	c.(337-339)TTT>TCT	p.F113S		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	113					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				GCGATCCAGAAAGATCCGATA	0.493													9	43	---	---	---	---	PASS	G	76744468	G	G	76744468	3	3	97	1	0	0	0	0	1	0	0	0	7728	14	1	5	2115	5	IMPG1	6	76744468	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	35005612	76744468	94370599	61	36164										
MDN1	23195	broad.mit.edu	37	chr6	90428865	90428865	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gtctccttacctgaacatcaTagggagtgatacgaaatagt	9	8	2	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr6:90428865T>A	uc003pnn.1	-	41	6163	c.6047A>T	c.(6046-6048)TAT>TTT	p.Y2016F		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2016					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)		CTGAACATCATAGGGAGTGAT	0.403													11	33	---	---	---	---	PASS	A	90428865	A	A	90428865	3	1	97	1	0	0	0	0	1	0	0	0	9415	1406	49	5	10991	5	MDN1	6	90428865	Missense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08	13684397	90428865	80686202	62	36165										
AIM1	202	broad.mit.edu	37	chr6	106967119	106967119	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tcacaaaggcaacactgccaCcaaaatctccttatttgaaa	4	12	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr6:106967119C>A	uc003prh.2	+	2	1299	c.812C>A	c.(811-813)ACC>AAC	p.T271N		NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	271							sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		AACACTGCCACCAAAATCTCC	0.413													5	46	---	---	---	---	PASS	A	106967119	A	A	106967119	3	1	97	1	0	0	0	0	1	0	0	0	430	507	18	3	818	3	AIM1	6	106967119	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	16538254	106967119	64147948	63	36166										
ICA1	3382	broad.mit.edu	37	chr7	8198264	8198264	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gtcaaagtttttttttgcaaGgcgcacttgtgtttgtacct	9	7	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr7:8198264G>T	uc003srm.2	-	7	665	c.598C>A	c.(598-600)CTT>ATT	p.L200I	ICA1_uc010ktr.2_Missense_Mutation_p.L200I|ICA1_uc003srl.2_Missense_Mutation_p.L188I|ICA1_uc003srn.3_Missense_Mutation_p.L126I|ICA1_uc003srp.3_Missense_Mutation_p.L199I|ICA1_uc010kts.2_RNA|ICA1_uc003srq.2_Missense_Mutation_p.L200I|ICA1_uc003srr.2_Missense_Mutation_p.L199I|ICA1_uc003sro.3_Missense_Mutation_p.L200I|ICA1_uc011jxg.1_Missense_Mutation_p.L200I|ICA1_uc003srs.1_Missense_Mutation_p.L200I	NM_022307	NP_071682	Q05084	ICA69_HUMAN	islet cell autoantigen 1	200	AH.				neurotransmitter transport	cell junction|cytosol|Golgi membrane|nucleus|secretory granule membrane|synaptic vesicle membrane|transport vesicle membrane				central_nervous_system(1)	1		Ovarian(82;0.0612)		UCEC - Uterine corpus endometrioid carcinoma (126;0.246)		TTTTTTGCAAGGCGCACTTGT	0.393													28	33	---	---	---	---	PASS	T	8198264	T	T	8198264	3	4	97	1	0	0	0	0	1	0	0	0	7477	1000	35	3	885	3	ICA1	7	8198264	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08		8198264	150940399	64	36167										
HDAC9	9734	broad.mit.edu	37	chr7	18767237	18767237	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cacgcacacacgtgcgctctCtgtgcgccaagctccgctgg	11	17	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr7:18767237C>T	uc003suh.2	+	12	1798	c.1757C>T	c.(1756-1758)TCT>TTT	p.S586F	HDAC9_uc003sue.2_Missense_Mutation_p.S586F|HDAC9_uc011jyd.1_Missense_Mutation_p.S586F|HDAC9_uc003sui.2_Missense_Mutation_p.S589F|HDAC9_uc003suj.2_Missense_Mutation_p.S545F|HDAC9_uc003sua.1_Missense_Mutation_p.S564F|HDAC9_uc010kue.1_Missense_Mutation_p.S241F	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	586					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CGTGCGCTCTCTGTGCGCCAA	0.542													6	26	---	---	---	---	PASS	T	18767237	T	T	18767237	3	4	97	1	0	0	0	0	1	0	0	0	7014	913	32	2	1863	2	HDAC9	7	18767237	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	10568973	18767237	140371426	65	36168										
DNAH11	8701	broad.mit.edu	37	chr7	21912964	21912964	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gattcagccaaggaagccacAgagattacagggttttcatg	11	8	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr7:21912964A>C	uc003svc.2	+	75	12092	c.12061A>C	c.(12061-12063)AGA>CGA	p.R4021R		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4021	AAA 6 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AGGAAGCCACAGAGATTACAG	0.438									Kartagener_syndrome				16	24	---	---	---	---	PASS	C	21912964	C	C	21912964	2	2	97	1	0	0	0	0	0	0	0	1	4599	180	7	5		5	DNAH11	7	21912964	Silent	SNP	A	TCGA-43-3394-01A-01D-0983-08	3145727	21912964	137225699	66	36169										
INHBA	3624	broad.mit.edu	37	chr7	41739630	41739630	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cgaggtctgctccataagttCattcatttctgccctccttc	6	14	4	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr7:41739630C>G	uc003thq.2	-	1	578	c.343G>C	c.(343-345)GAA>CAA	p.E115Q	LOC285954_uc003tht.3_Intron|INHBA_uc003thr.2_Missense_Mutation_p.E115Q|LOC285954_uc003ths.2_Intron	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	115					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						TCCATAAGTTCATTCATTTCT	0.552										TSP Lung(11;0.080)			21	293	---	---	---	---	PASS	G	41739630	G	G	41739630	3	3	97	1	0	0	0	0	1	0	0	0	7741	835	29	2	945	2	INHBA	7	41739630	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	19826666	41739630	117399033	67	36170										
ABCA13	154664	broad.mit.edu	37	chr7	48312439	48312439	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ccaagaactggaagtgatccAcactactttgacaggcctca	8	12	1	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr7:48312439A>G	uc003toq.2	+	17	3201	c.3176A>G	c.(3175-3177)CAC>CGC	p.H1059R	ABCA13_uc010kyr.2_Missense_Mutation_p.H562R	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1059					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GAAGTGATCCACACTACTTTG	0.373													13	14	---	---	---	---	PASS	G	48312439	G	G	48312439	3	3	97	1	0	0	0	0	1	0	0	0	31	159	6	5	3071	5	ABCA13	7	48312439	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	6572809	48312439	110826224	68	36171										
SEMA3D	223117	broad.mit.edu	37	chr7	84702397	84702397	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gatgaaatttgcacattctgTctgttgggcacaaaaattaa	8	6	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr7:84702397T>A	uc003uic.2	-	4	416	c.376A>T	c.(376-378)ACA>TCA	p.T126S	SEMA3D_uc010led.2_Missense_Mutation_p.T126S|SEMA3D_uc010lee.1_Missense_Mutation_p.T126S	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	126	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						GCACATTCTGTCTGTTGGGCA	0.333													9	29	---	---	---	---	PASS	A	84702397	A	A	84702397	3	1	97	1	0	0	0	0	1	0	0	0	14027	1681	58	5	2013	5	SEMA3D	7	84702397	Missense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08	36389958	84702397	74436266	69	36172										
HBP1	26959	broad.mit.edu	37	chr7	106830702	106830702	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tattggcgatgtatgtctacCtcctggacaccccgatgcca	9	13	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr7:106830702C>T	uc003vdy.2	+	8	1193	c.1007C>T	c.(1006-1008)CCT>CTT	p.P336L	HBP1_uc011klv.1_Missense_Mutation_p.P346L|HBP1_uc003vdz.2_Missense_Mutation_p.P336L|HBP1_uc003vea.2_Missense_Mutation_p.P336L|HBP1_uc003veb.1_Missense_Mutation_p.P336L	NM_012257	NP_036389	O60381	HBP1_HUMAN	HMG-box transcription factor 1	336	AXH.				cell cycle arrest|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	DNA binding			skin(1)	1						GTATGTCTACCTCCTGGACAC	0.348													70	98	---	---	---	---	PASS	T	106830702	T	T	106830702	3	4	97	1	0	0	0	0	1	0	0	0	6985	681	24	3	1033	3	HBP1	7	106830702	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	22128305	106830702	52307961	70	36173										
CBLL1	79872	broad.mit.edu	37	chr7	107399420	107399420	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	caccccctcctcaccattatAatcctaactcattaccccag	1	19	2	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr7:107399420A>G	uc003veq.2	+	6	1603	c.1273A>G	c.(1273-1275)AAT>GAT	p.N425D	CBLL1_uc011kme.1_Missense_Mutation_p.N304D|CBLL1_uc011kmf.1_Missense_Mutation_p.N424D	NM_024814	NP_079090	Q75N03	HAKAI_HUMAN	Cas-Br-M (murine) ecotropic retroviral	425	Pro-rich.				cell-cell adhesion|negative regulation of cell adhesion|positive regulation of cell migration|positive regulation of endocytosis		protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|skin(2)|lung(1)	5						TCACCATTATAATCCTAACTC	0.507													49	111	---	---	---	---	PASS	G	107399420	G	G	107399420	3	3	97	1	0	0	0	0	1	0	0	0	2703	362	13	5	1295	5	CBLL1	7	107399420	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	568718	107399420	51739243	71	36174										
LAMB4	22798	broad.mit.edu	37	chr7	107756483	107756483	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ggatgcagtatttctgggctCtgctcagcccacaggtagaa	12	10	3	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr7:107756483C>G	uc010ljo.1	-	3	242	c.158G>C	c.(157-159)AGA>ACA	p.R53T	LAMB4_uc003vey.2_Missense_Mutation_p.R53T	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	53	Laminin N-terminal.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						TTTCTGGGCTCTGCTCAGCCC	0.493													34	63	---	---	---	---	PASS	G	107756483	G	G	107756483	3	3	97	1	0	0	0	0	1	0	0	0	8613	913	32	2	5255	2	LAMB4	7	107756483	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	357063	107756483	51382180	72	36175										
PRSS37	136242	broad.mit.edu	37	chr7	141536910	141536910	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ctgaatatagagataagattAccccaaaaattcggctgaat	7	7	0	4			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr7:141536910A>T	uc003vws.1	-	4	939	c.567_splice	c.e4+1	p.G189_splice	PRSS37_uc011krk.1_Splice_Site_p.G176_splice|PRSS37_uc011krl.1_Splice_Site_p.G188_splice|PRSS37_uc003vwt.1_Splice_Site_p.G176_splice	NM_001008270	NP_001008271	A4D1T9	PRS37_HUMAN	protease, serine, 37 precursor						proteolysis	extracellular region	serine-type endopeptidase activity			skin(1)	1						AGATAAGATTACCCCAAAAAT	0.328													28	36	---	---	---	---	PASS	T	141536910	T	T	141536910	5	4	97	1	0	0	0	0	0	0	1	0	12626	405	14	5	146	5	PRSS37	7	141536910	Splice_Site	SNP	A	TCGA-43-3394-01A-01D-0983-08	33780427	141536910	17601753	73	36176										
OR2A14	135941	broad.mit.edu	37	chr7	143826669	143826669	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ggtgttcagcttcctcctggCtctggtccctttagttctca	9	13	3	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr7:143826669C>A	uc011kua.1	+	1	464	c.464C>A	c.(463-465)GCT>GAT	p.A155D		NM_001001659	NP_001001659	Q96R47	O2A14_HUMAN	olfactory receptor, family 2, subfamily A,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					TTCCTCCTGGCTCTGGTCCCT	0.537													10	229	---	---	---	---	PASS	A	143826669	A	A	143826669	3	1	97	1	0	0	0	0	1	0	0	0	10976	797	28	3	466	3	OR2A14	7	143826669	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	2289759	143826669	15311994	74	36177										
SSPO	23145	broad.mit.edu	37	chr7	149512845	149512846	+	Frame_Shift_Ins	INS	-	AGGTGGTC	AGGTGGTC													0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ggagagcctggaacccggagINSaggtggtcactgggccatgt					rs146626309	by1000genomes	TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr7:149512845_149512846insAGGTGGTC	uc010lpk.2	+	77	10852_10853	c.10852_10853insAGGTGGTC	c.(10852-10854)GAGfs	p.E3618fs		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3618					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GGAACCCGGAGAGGTGGTCACT	0.653													5	3	---	---	---	---		AGGTGGTC	149512846	AGGTGGTC	AGGTGGTC	149512845	7	5	97	1	0	1	1	0	0	0	0	0	15188	943	33	0	11148	0	SSPO	7	149512845	Frame_Shift_Ins	INS	-	TCGA-43-3394-01A-01D-0983-08	5686176	149512845	9625818	75	36178										
PTK2B	2185	broad.mit.edu	37	chr8	27315846	27315846	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	aaactgctcaacaaagacctGgcagagctcatcaacaagat	7	11	3	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr8:27315846G>T	uc003xfn.1	+	36	3658	c.2850G>T	c.(2848-2850)CTG>CTT	p.L950L	PTK2B_uc003xfo.1_Silent_p.L950L|PTK2B_uc003xfp.1_Silent_p.L950L|PTK2B_uc003xfq.1_Silent_p.L908L	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	950	Focal adhesion targeting (FAT).|Interaction with TGFB1I1 (By similarity).				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		ACAAAGACCTGGCAGAGCTCA	0.557													9	7	---	---	---	---	PASS	T	27315846	T	T	27315846	2	4	97	1	0	0	0	0	0	0	0	1	12763	1335	47	3		3	PTK2B	8	27315846	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08		27315846	119048176	76	36179										
RGS22	26166	broad.mit.edu	37	chr8	101076179	101076181	+	In_Frame_Del	DEL	CTT	-	-													0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agacacctcttcttcttctcCttcttcttcttcaaattcag							TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr8:101076179_101076181delCTT	uc003yjb.1	-	8	1010_1012	c.815_817delAAG	c.(814-819)GAAGGA>GGA	p.E272del	RGS22_uc003yja.1_In_Frame_Del_p.E91del|RGS22_uc003yjc.1_In_Frame_Del_p.E260del|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	272	Poly-Glu.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			tcttcttctccttcttcttcttc	0.325													44	82	---	---	---	---		-	101076181	-	-	101076179	7	5	97	1	0	1	0	1	0	0	0	0	13305	690	24	0	3057	0	RGS22	8	101076179	In_Frame_Del	DEL	CTT	TCGA-43-3394-01A-01D-0983-08	73760333	101076179	45287843	77	36180										
CSMD3	114788	broad.mit.edu	37	chr8	113418786	113418786	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	taaggaatcattccactgggCcaaagaattgggcactgttt	10	8	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr8:113418786C>A	uc003ynu.2	-	35	5935	c.5776G>T	c.(5776-5778)GCC>TCC	p.A1926S	CSMD3_uc003yns.2_Missense_Mutation_p.A1128S|CSMD3_uc003ynt.2_Missense_Mutation_p.A1886S|CSMD3_uc011lhx.1_Missense_Mutation_p.A1822S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1926	Sushi 10.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TTCCACTGGGCCAAAGAATTG	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			4	40	---	---	---	---	PASS	A	113418786	A	A	113418786	3	1	97	1	0	0	0	0	1	0	0	0	3946	739	26	3	5495	3	CSMD3	8	113418786	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	12342607	113418786	32945236	78	36181										
ATAD2	29028	broad.mit.edu	37	chr8	124340506	124340506	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ttacaagcaatcttgtctctCaattctgtacatgctgtagt	6	9	4	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr8:124340506C>G	uc003yqh.3	-	25	3900	c.3792G>C	c.(3790-3792)TTG>TTC	p.L1264F	ATAD2_uc011lii.1_Missense_Mutation_p.L1055F|ATAD2_uc003yqi.3_RNA	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	1264					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TCTTGTCTCTCAATTCTGTAC	0.328													6	31	---	---	---	---	PASS	G	124340506	G	G	124340506	3	3	97	1	0	0	0	0	1	0	0	0	1071	825	29	2	396	2	ATAD2	8	124340506	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	10921720	124340506	22023516	79	36182										
FREM1	158326	broad.mit.edu	37	chr9	14823222	14823222	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agatcccatgcaaagtaccgCcatgttggttactgacagaa	9	10	0	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr9:14823222C>T	uc003zlm.2	-	13	2863	c.2273G>A	c.(2272-2274)GGC>GAC	p.G758D	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	758	CSPG 4.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		CAAAGTACCGCCATGTTGGTT	0.443													55	33	---	---	---	---	PASS	T	14823222	T	T	14823222	3	4	97	1	0	0	0	0	1	0	0	0	6044	739	26	3	4416	3	FREM1	9	14823222	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08		14823222	126390209	80	36183										
CDKN2A	1029	broad.mit.edu	37	chr9	21974819	21974819	+	Frame_Shift_Del	DEL	G	-	-													0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ccatgctgctccccgccgccGgctccatgctgctccccgcc							TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr9:21974819delG	uc003zpk.2	-	1	220	c.8delC	c.(7-9)CCGfs	p.P3fs	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_Frame_Shift_Del_p.P3fs|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Intron	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	3					cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(24)|p.P3_P11del(2)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCCCGCCGCCGGCTCCATGCT	0.781		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			5	3	---	---	---	---		-	21974819	-	-	21974819	7	5	97	1	0	1	0	1	0	0	0	0	3161	1116	39	0	675	0	CDKN2A	9	21974819	Frame_Shift_Del	DEL	G	TCGA-43-3394-01A-01D-0983-08	7151597	21974819	119238612	81	36184										
C9orf79	286234	broad.mit.edu	37	chr9	90500689	90500689	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tctgatgccacaaccgtgggGaaccacttacagcagaaacg	10	12	1	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr9:90500689G>A	uc004app.3	+	4	1322	c.1287G>A	c.(1285-1287)GGG>GGA	p.G429G	C9orf79_uc004apo.1_Silent_p.G241G	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	429						integral to membrane				ovary(3)	3						CAACCGTGGGGAACCACTTAC	0.572													31	75	---	---	---	---	PASS	A	90500689	A	A	90500689	2	1	97	1	0	0	0	0	0	0	0	1	2497	1161	41	2		2	C9orf79	9	90500689	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08	68525870	90500689	50712742	82	36185										
FAM125B	89853	broad.mit.edu	37	chr9	129184187	129184187	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ggcaggaacagcacccggacGgactacgagtaccagcactc	12	14	0	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr9:129184187G>A	uc004bqh.1	+	7	798	c.717G>A	c.(715-717)ACG>ACA	p.T239T	FAM125B_uc011lzy.1_Silent_p.T224T|FAM125B_uc010mxd.2_Silent_p.T232T	NM_033446	NP_258257	Q9H7P6	F125B_HUMAN	hypothetical protein LOC89853 isoform 1	239					protein transport	late endosome membrane					0						GCACCCGGACGGACTACGAGT	0.562													33	64	---	---	---	---	PASS	A	129184187	A	A	129184187	2	1	97	1	0	0	0	0	0	0	0	1	5428	1103	39	1		1	FAM125B	9	129184187	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08	38683498	129184187	12029244	83	36186										
GARNL3	84253	broad.mit.edu	37	chr9	130145740	130145740	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gttgcatctataaaaaggttTgcccctttaatggtggctct	9	8	2	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr9:130145740T>C	uc011mae.1	+	23	2586	c.2185T>C	c.(2185-2187)TGC>CGC	p.C729R	GARNL3_uc011mad.1_Missense_Mutation_p.C707R|GARNL3_uc010mxi.2_5'UTR	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	729	CNH.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						TAAAAAGGTTTGCCCCTTTAA	0.373													11	10	---	---	---	---	PASS	C	130145740	C	C	130145740	3	2	97	1	0	0	0	0	1	0	0	0	6241	1812	63	5	2275	5	GARNL3	9	130145740	Missense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08	961553	130145740	11067691	84	36187										
RXRA	6256	broad.mit.edu	37	chr9	137300876	137300876	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gacctacacctgccgcgacaAcaaggactgcctgattgaca	9	14	0	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr9:137300876A>T	uc004cfb.2	+	4	683	c.521A>T	c.(520-522)AAC>ATC	p.N174I	RXRA_uc004cfc.1_Missense_Mutation_p.N77I	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	174	NR C4-type.|Nuclear receptor.				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)	TGCCGCGACAACAAGGACTGC	0.622													17	43	---	---	---	---	PASS	T	137300876	T	T	137300876	3	4	97	1	0	0	0	0	1	0	0	0	13763	43	2	5	535	5	RXRA	9	137300876	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	7155136	137300876	3912555	85	36188										
LCN6	158062	broad.mit.edu	37	chr9	139641878	139641878	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	caggacccgcccactcacccGtgctgagaggacagcgtccg	12	17	1	1	rs150825099	byFrequency	TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr9:139641878G>T	uc004ciy.2	-	2	273	c.228C>A	c.(226-228)CAC>CAA	p.H76Q	LCN10_uc004ciw.2_RNA|uc004ciz.1_RNA	NM_198946	NP_945184	P62502	LCN6_HUMAN	lipocalin 6 precursor	76					single fertilization	extracellular region	binding				0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.32e-06)|Epithelial(140;7.83e-05)		CCACTCACCCGTGCTGAGAGG	0.627													13	12	---	---	---	---	PASS	T	139641878	T	T	139641878	3	4	97	1	0	0	0	0	1	0	0	0	8685	1136	40	1	279	1	LCN6	9	139641878	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	2341002	139641878	1571553	86	36189										
NRG3	10718	broad.mit.edu	37	chr10	84745280	84745280	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	aacacagcctttctccccctGagtcccacagccaaatcaga	5	17	2	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr10:84745280G>T	uc001kco.2	+	9	2037	c.2010G>T	c.(2008-2010)CTG>CTT	p.L670L	NRG3_uc010qlz.1_Silent_p.L669L|NRG3_uc001kcp.2_Silent_p.L473L|NRG3_uc001kcq.2_Silent_p.L320L|NRG3_uc001kcr.2_Silent_p.L344L	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	694	Cytoplasmic (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)		TTCTCCCCCTGAGTCCCACAG	0.478													15	37	---	---	---	---	PASS	T	84745280	T	T	84745280	2	4	97	1	0	0	0	0	0	0	0	1	10649	1277	45	2		2	NRG3	10	84745280	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08		84745280	50789467	87	36190										
PIK3AP1	118788	broad.mit.edu	37	chr10	98386609	98386609	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cgtgtgataaacatcttcttCctgaccaagatggcactgat	8	10	2	4			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr10:98386609C>T	uc001kmq.2	-	10	1653	c.1525G>A	c.(1525-1527)GAA>AAA	p.E509K	PIK3AP1_uc001kmo.2_Missense_Mutation_p.E108K|PIK3AP1_uc001kmp.2_Missense_Mutation_p.E331K	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	509						cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		ACATCTTCTTCCTGACCAAGA	0.537													13	33	---	---	---	---	PASS	T	98386609	T	T	98386609	3	4	97	1	0	0	0	0	1	0	0	0	11908	864	30	2	924	2	PIK3AP1	10	98386609	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	13641329	98386609	37148138	88	36191										
PDZD7	79955	broad.mit.edu	37	chr10	102781698	102781698	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ctcggccagcccaccatggtCcactctgaggccagacaggc	11	17	1	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr10:102781698C>A	uc001kso.1	-	6	939	c.724G>T	c.(724-726)GAC>TAC	p.D242Y	PDZD7_uc001ksn.2_Missense_Mutation_p.D242Y	NM_024895	NP_079171	Q9H5P4	PDZD7_HUMAN	PDZ domain containing 7	242	PDZ 2.					cilium|nucleus	protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3				Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		CCACCATGGTCCACTCTGAGG	0.627													6	19	---	---	---	---	PASS	A	102781698	A	A	102781698	3	1	97	1	0	0	0	0	1	0	0	0	11704	855	30	2	849	2	PDZD7	10	102781698	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	4395089	102781698	32753049	89	36192										
OR56B1	387748	broad.mit.edu	37	chr11	5758307	5758307	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	aatgaaattgaacactgcctGtgctctaaccttggggtcac	9	10	2	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr11:5758307G>T	uc001mbt.1	+	1	561	c.561G>T	c.(559-561)CTG>CTT	p.L187L	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|OR56B1_uc001mbs.1_Silent_p.L187L|OR56B1_uc009yev.1_Silent_p.L187L	NM_001005180	NP_001005180	Q8NGI3	O56B1_HUMAN	olfactory receptor, family 56, subfamily B,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.086)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.184)		AACACTGCCTGTGCTCTAACC	0.498													6	38	---	---	---	---	PASS	T	5758307	T	T	5758307	2	4	97	1	0	0	0	0	0	0	0	1	11137	1364	48	3		3	OR56B1	11	5758307	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08		5758307	129248209	90	36193										
OR52E6	390078	broad.mit.edu	37	chr11	5862830	5862830	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gatgaagaacatctgagaaaGgtagcctccaaaagatattt	9	6	1	4			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr11:5862830G>T	uc010qzq.1	-	1	298	c.298C>A	c.(298-300)CTT>ATT	p.L100I	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	100	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATCTGAGAAAGGTAGCCTCCA	0.453													27	116	---	---	---	---	PASS	T	5862830	T	T	5862830	3	4	97	1	0	0	0	0	1	0	0	0	11117	1000	35	3	645	3	OR52E6	11	5862830	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	104523	5862830	129143686	91	36194										
NLRP10	338322	broad.mit.edu	37	chr11	7982580	7982580	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	aaccggcctgggtacagagtAccggtggcccagtccaacac	12	14	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr11:7982580A>G	uc001mfv.1	-	2	596	c.579T>C	c.(577-579)GGT>GGC	p.G193G		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	193	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGTACAGAGTACCGGTGGCCC	0.527													8	13	---	---	---	---	PASS	G	7982580	G	G	7982580	2	3	97	1	0	0	0	0	0	0	0	1	10472	378	14	5		5	NLRP10	11	7982580	Silent	SNP	A	TCGA-43-3394-01A-01D-0983-08	2119750	7982580	127023936	92	36195										
ALKBH3	221120	broad.mit.edu	37	chr11	43923170	43923170	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cgcaatgagaaggacagcgtGgactggcacagtgatgatga	15	7	0	4			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr11:43923170G>A	uc001mxs.2	+	8	1007	c.564G>A	c.(562-564)GTG>GTA	p.V188V	ALKBH3_uc009ykp.2_RNA|ALKBH3_uc001mxt.2_RNA|ALKBH3_uc009ykq.2_Silent_p.V41V	NM_139178	NP_631917	Q96Q83	ALKB3_HUMAN	AlkB homolog 3	188	Fe2OG dioxygenase.				DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation	mitochondrion|nucleoplasm	damaged DNA binding|DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0					Vitamin C(DB00126)	AGGACAGCGTGGACTGGCACA	0.493								Direct_reversal_of_damage					28	47	---	---	---	---	PASS	A	43923170	A	A	43923170	2	1	97	1	0	0	0	0	0	0	0	1	528	1335	47	3		3	ALKBH3	11	43923170	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08	35940590	43923170	91083346	93	36196										
OR4S2	219431	broad.mit.edu	37	chr11	55418886	55418886	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	caactacccttttgtggaccCaatgagatagatcactactt	6	11	1	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr11:55418886C>T	uc001nhs.1	+	1	507	c.507C>T	c.(505-507)CCC>CCT	p.P169P		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				TTTGTGGACCCAATGAGATAG	0.443													51	72	---	---	---	---	PASS	T	55418886	T	T	55418886	2	4	97	1	0	0	0	0	0	0	0	1	11083	581	21	3		3	OR4S2	11	55418886	Silent	SNP	C	TCGA-43-3394-01A-01D-0983-08	11495716	55418886	79587630	94	36197										
AHNAK	79026	broad.mit.edu	37	chr11	62301162	62301162	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	aggcatggtgacctggagctTcgagtggccagcaccttgga	15	10	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr11:62301162T>A	uc001ntl.2	-	5	1027	c.727A>T	c.(727-729)AAG>TAG	p.K243*	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	243					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				ACCTGGAGCTTCGAGTGGCCA	0.607													14	49	---	---	---	---	PASS	A	62301162	A	A	62301162	4	1	97	1	0	0	0	0	0	1	0	0	414	1792	62	5	17065	5	AHNAK	11	62301162	Nonsense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08	6882276	62301162	72705354	95	36198										
PCNXL3	399909	broad.mit.edu	37	chr11	65402891	65402891	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	caagatcatcatgctcaaccGgcgccacctcagcttccgag	8	16	4	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr11:65402891G>A	uc001oey.2	+	31	5156	c.5156G>A	c.(5155-5157)CGG>CAG	p.R1719Q	PCNXL3_uc001oez.2_Missense_Mutation_p.R606Q	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1719						integral to membrane					0						ATGCTCAACCGGCGCCACCTC	0.667													6	13	---	---	---	---	PASS	A	65402891	A	A	65402891	3	1	97	1	0	0	0	0	1	0	0	0	11593	1116	39	1	5278	1	PCNXL3	11	65402891	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	3101729	65402891	69603625	96	36199										
GDPD5	81544	broad.mit.edu	37	chr11	75160079	75160079	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gggccgaggtctttcttctcCatgatgcagggagaggagat	15	8	3	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr11:75160079C>A	uc001owo.3	-	10	1194	c.657G>T	c.(655-657)ATG>ATT	p.M219I	GDPD5_uc001owp.3_Missense_Mutation_p.M219I|GDPD5_uc001own.3_5'UTR|GDPD5_uc009yuc.2_Missense_Mutation_p.M81I|GDPD5_uc009yud.2_Missense_Mutation_p.M100I|GDPD5_uc009yue.1_Missense_Mutation_p.M107I	NM_030792	NP_110419	Q8WTR4	GDPD5_HUMAN	glycerophosphodiester phosphodiesterase domain	219	Extracellular (Potential).				glycerol metabolic process|lipid metabolic process|nervous system development	endomembrane system|growth cone|integral to membrane|perinuclear region of cytoplasm	glycerophosphodiester phosphodiesterase activity			ovary(1)	1						CTTTCTTCTCCATGATGCAGG	0.617													5	8	---	---	---	---	PASS	A	75160079	A	A	75160079	3	1	97	1	0	0	0	0	1	0	0	0	6327	594	21	3	1196	3	GDPD5	11	75160079	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	9757188	75160079	59846437	97	36200										
MED17	9440	broad.mit.edu	37	chr11	93528152	93528152	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	aatttttgcacagctctctcGggaagctgttcaaattaaat	7	8	2	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr11:93528152G>A	uc001pem.3	+	6	1213	c.938G>A	c.(937-939)CGG>CAG	p.R313Q		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	313					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CAGCTCTCTCGGGAAGCTGTT	0.403													8	57	---	---	---	---	PASS	A	93528152	A	A	93528152	3	1	97	1	0	0	0	0	1	0	0	0	9435	1116	39	1	960	1	MED17	11	93528152	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	18368073	93528152	41478364	98	36201										
FAM55D	54827	broad.mit.edu	37	chr11	114465423	114465423	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	aaactgtaaaaatgatccagGaggctaatataaacaacagt	7	6	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr11:114465423G>T	uc001ppc.2	-	2	240	c.59C>A	c.(58-60)TCC>TAC	p.S20Y	FAM55D_uc001ppd.2_5'UTR	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	20						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		AATGATCCAGGAGGCTAATAT	0.299													20	46	---	---	---	---	PASS	T	114465423	T	T	114465423	3	4	97	1	0	0	0	0	1	0	0	0	5587	1174	41	2	1595	2	FAM55D	11	114465423	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	20937271	114465423	20541093	99	36202										
DSCAML1	57453	broad.mit.edu	37	chr11	117335863	117335863	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ctgtagccaatctggtagccCcggatgacaccgttctgcag	11	13	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr11:117335863C>G	uc001prh.1	-	17	3242	c.3240G>C	c.(3238-3240)CGG>CGC	p.R1080R		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1020	Extracellular (Potential).|Fibronectin type-III 2.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TCTGGTAGCCCCGGATGACAC	0.527													7	38	---	---	---	---	PASS	G	117335863	G	G	117335863	2	3	97	1	0	0	0	0	0	0	0	1	4769	610	22	4		4	DSCAML1	11	117335863	Silent	SNP	C	TCGA-43-3394-01A-01D-0983-08	2870440	117335863	17670653	100	36203										
OR4D5	219875	broad.mit.edu	37	chr11	123810699	123810699	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cgtatgaccgctacattgccAtttcccagcccctgcactac	6	17	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr11:123810699A>G	uc001pzk.1	+	1	376	c.376A>G	c.(376-378)ATT>GTT	p.I126V		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CTACATTGCCATTTCCCAGCC	0.512													29	38	---	---	---	---	PASS	G	123810699	G	G	123810699	3	3	97	1	0	0	0	0	1	0	0	0	11057	217	8	5	378	5	OR4D5	11	123810699	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	6474836	123810699	11195817	101	36204										
DCP1B	196513	broad.mit.edu	37	chr12	2055431	2055431	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gagataggcttcatagattaTatttaagaagttgtcatcat	8	4	3	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:2055431T>C	uc001qjx.1	-	9	1875	c.1795A>G	c.(1795-1797)ATA>GTA	p.I599V	DCP1B_uc010sdy.1_Missense_Mutation_p.I497V	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	599					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			TCATAGATTATATTTAAGAAG	0.388													32	7	---	---	---	---	PASS	C	2055431	C	C	2055431	3	2	97	1	0	0	0	0	1	0	0	0	4299	1406	49	5	62	5	DCP1B	12	2055431	Missense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08		2055431	131796464	102	36205										
C12orf59	120939	broad.mit.edu	37	chr12	10337966	10337966	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gggtacatctctggtatataTggtaagtttcacttataata	8	5	2	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:10337966T>C	uc001qxr.2	+	3	753	c.136T>C	c.(136-138)TGG>CGG	p.W46R	C12orf59_uc001qxq.2_Missense_Mutation_p.W26R			Q4KMG9	CL059_HUMAN	RecName: Full=Uncharacterized protein C12orf59; Flags: Precursor;	46	Helical; (Potential).					integral to membrane				ovary(1)	1						CTGGTATATATGGTAAGTTTC	0.348													16	78	---	---	---	---	PASS	C	10337966	C	C	10337966	3	2	97	1	0	0	0	0	1	0	0	0	1702	1478	51	5	82	5	C12orf59	12	10337966	Missense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08	8282535	10337966	123513929	103	36206										
ETV6	2120	broad.mit.edu	37	chr12	12022436	12022436	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	caccattgaactgttgcaccGctccaggtcacctatcacga	7	15	2	1	rs150089916		TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:12022436G>T	uc001qzz.2	+	5	816	c.542G>T	c.(541-543)CGC>CTC	p.R181L	ETV6_uc001raa.1_5'UTR	NM_001987	NP_001978	P41212	ETV6_HUMAN	ets variant 6	181						cytoplasm|nucleolus	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		ETV6/NTRK3(234)|ETV6/JAK2(11)	soft_tissue(85)|kidney(66)|breast(55)|salivary_gland(26)|haematopoietic_and_lymphoid_tissue(13)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)|pancreas(1)	250		all_cancers(2;1.88e-12)|Acute lymphoblastic leukemia(2;6.91e-39)|all_hematologic(2;2.7e-36)				CTGTTGCACCGCTCCAGGTCA	0.607			T	NTRK3|RUNX1|PDGFRB|ABL1|MN1|ABL2|FACL6|CHIC2|ARNT|JAK2|EVI1|CDX2|STL|HLXB9|MDS2|PER1|SYK|TTL|FGFR3|PAX5	congenital fibrosarcoma|multiple leukemia and lymphoma| secretory breast|MDS|ALL								52	284	---	---	---	---	PASS	T	12022436	T	T	12022436	3	4	97	1	0	0	0	0	1	0	0	0	5283	1087	38	1	560	1	ETV6	12	12022436	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	1684470	12022436	121829459	104	36207										
SLCO1B1	10599	broad.mit.edu	37	chr12	21331930	21331930	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ctctgttttctaaaatgtacGtggatattggatatgtagat	9	4	2	1	rs147421160		TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:21331930G>T	uc001req.3	+	7	807	c.703G>T	c.(703-705)GTG>TTG	p.V235L		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	235	Helical; Name=5; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	TAAAATGTACGTGGATATTGG	0.328													76	58	---	---	---	---	PASS	T	21331930	T	T	21331930	3	4	97	1	0	0	0	0	1	0	0	0	14723	1145	40	1	725	1	SLCO1B1	12	21331930	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	9309494	21331930	112519965	105	36208										
KIF21A	55605	broad.mit.edu	37	chr12	39751147	39751147	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tgcatggctttaattcttacAcgcaggttattattttcagt	7	7	2	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:39751147A>T	uc001rly.2	-	9	1454	c.1308T>A	c.(1306-1308)CGT>CGA	p.R436R	KIF21A_uc001rlx.2_Silent_p.R436R|KIF21A_uc001rlz.2_Silent_p.R436R|KIF21A_uc010skl.1_Silent_p.R436R|KIF21A_uc001rma.1_Silent_p.R444R	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	436	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TAATTCTTACACGCAGGTTAT	0.408													14	147	---	---	---	---	PASS	T	39751147	T	T	39751147	2	4	97	1	0	0	0	0	0	0	0	1	8288	146	6	5		5	KIF21A	12	39751147	Silent	SNP	A	TCGA-43-3394-01A-01D-0983-08	18419217	39751147	94100748	106	36209										
ADAMTS20	80070	broad.mit.edu	37	chr12	43824220	43824220	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	taacactgcactagctagctCattgacacatttaacatctc	4	12	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:43824220C>A	uc010skx.1	-	23	3316	c.3316G>T	c.(3316-3318)GAG>TAG	p.E1106*	ADAMTS20_uc001rno.1_Nonsense_Mutation_p.E260*|ADAMTS20_uc001rnp.1_Nonsense_Mutation_p.E260*	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1106	TSP type-1 6.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CTAGCTAGCTCATTGACACAT	0.383													63	36	---	---	---	---	PASS	A	43824220	A	A	43824220	4	1	97	1	0	0	0	0	0	1	0	0	266	835	29	2	2483	2	ADAMTS20	12	43824220	Nonsense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	4073073	43824220	90027675	107	36210										
MLL2	8085	broad.mit.edu	37	chr12	49431879	49431879	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agggtcctggctccacccccCgcagcagggcctcccgttca	11	19	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:49431879C>A	uc001rta.3	-	34	9260	c.9260G>T	c.(9259-9261)CGG>CTG	p.R3087L		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3087					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTCCACCCCCCGCAGCAGGGC	0.627			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			15	15	---	---	---	---	PASS	A	49431879	A	A	49431879	3	1	97	1	0	0	0	0	1	0	0	0	9621	652	23	1	7437	1	MLL2	12	49431879	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	5607659	49431879	84420016	108	36211										
KRT81	3887	broad.mit.edu	37	chr12	52681085	52681085	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ctgctgctcagactgggccaCcgcggcctccagcttggagt	13	15	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:52681085C>A	uc001sab.2	-	7	1098	c.1048G>T	c.(1048-1050)GTG>TTG	p.V350L	KRT86_uc010snq.1_Intron|KRT86_uc009zmg.2_Intron|KRT81_uc001sac.2_5'UTR	NM_002281	NP_002272	Q14533	KRT81_HUMAN	keratin, hair, basic, 1	350	Rod.|Coil 2.					keratin filament	protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		GACTGGGCCACCGCGGCCTCC	0.607													5	17	---	---	---	---	PASS	A	52681085	A	A	52681085	3	1	97	1	0	0	0	0	1	0	0	0	8495	507	18	3	481	3	KRT81	12	52681085	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	3249206	52681085	81170810	109	36212										
CSAD	51380	broad.mit.edu	37	chr12	53565181	53565181	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cttgcaatccgggtagcgctGatagcgggccagatttacag	13	10	0	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:53565181G>A	uc001sby.2	-	7	622	c.496C>T	c.(496-498)CAG>TAG	p.Q166*	CSAD_uc001sbw.2_Intron|CSAD_uc009zmt.2_Intron|CSAD_uc010snx.1_Nonsense_Mutation_p.Q193*|CSAD_uc001sbz.2_Nonsense_Mutation_p.Q166*|CSAD_uc009zmu.2_Intron|CSAD_uc001sca.3_RNA|CSAD_uc010sny.1_3'UTR	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	166					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	GGGTAGCGCTGATAGCGGGCC	0.622									Hereditary_Prostate_Cancer				20	17	---	---	---	---	PASS	A	53565181	A	A	53565181	4	1	97	1	0	0	0	0	0	1	0	0	3925	1299	45	2	1025	2	CSAD	12	53565181	Nonsense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	884096	53565181	80286714	110	36213										
OR6C6	283365	broad.mit.edu	37	chr12	55688725	55688725	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	taaaaggataaaaaataattGagttgcacaattattataag	6	2	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:55688725G>T	uc010sph.1	-	1	292	c.292C>A	c.(292-294)CAA>AAA	p.Q98K		NM_001005493	NP_001005493	A6NF89	OR6C6_HUMAN	olfactory receptor, family 6, subfamily C,	98	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|skin(1)	2						AAAAATAATTGAGTTGCACAA	0.383													14	27	---	---	---	---	PASS	T	55688725	T	T	55688725	3	4	97	1	0	0	0	0	1	0	0	0	11194	1299	45	2	654	2	OR6C6	12	55688725	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	2123544	55688725	78163170	111	36214										
PIP4K2C	79837	broad.mit.edu	37	chr12	57994176	57994176	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agaaagtatatattggtgaaGaggagaagaaaatatttctg	11	1	1	5			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:57994176G>A	uc001sou.2	+	7	900	c.769G>A	c.(769-771)GAG>AAG	p.E257K	PIP4K2C_uc001sot.2_Missense_Mutation_p.E257K|PIP4K2C_uc010srs.1_Missense_Mutation_p.E239K|PIP4K2C_uc010srt.1_Missense_Mutation_p.E209K	NM_001146258	NP_001139730	Q8TBX8	PI42C_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	257	PIPK.					cytoplasm|membrane	1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|identical protein binding			central_nervous_system(2)|lung(1)	3	Melanoma(17;0.122)					TATTGGTGAAGAGGAGAAGAA	0.413													20	26	---	---	---	---	PASS	A	57994176	A	A	57994176	3	1	97	1	0	0	0	0	1	0	0	0	11938	943	33	2	795	2	PIP4K2C	12	57994176	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	2305451	57994176	75857719	112	36215										
RFX4	5992	broad.mit.edu	37	chr12	107155033	107155033	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tttgatgagcagtactcccaGactgcatcctaccccagtca	7	14	1	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:107155033G>T	uc001tlr.2	+	18	2060	c.1994G>T	c.(1993-1995)AGA>ATA	p.R665I	RFX4_uc001tlt.2_Missense_Mutation_p.R674I|RFX4_uc001tlv.2_Missense_Mutation_p.R571I	NM_213594	NP_998759	Q33E94	RFX4_HUMAN	regulatory factor X4 isoform c	665					transcription, DNA-dependent	nucleus	DNA binding			upper_aerodigestive_tract(1)	1						AGTACTCCCAGACTGCATCCT	0.512													43	100	---	---	---	---	PASS	T	107155033	T	T	107155033	3	4	97	1	0	0	0	0	1	0	0	0	13265	942	33	2	2269	2	RFX4	12	107155033	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	49160857	107155033	26696862	113	36216										
MSI1	4440	broad.mit.edu	37	chr12	120802555	120802555	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agggaaggccaccttagggtCaatctacaagaaaagggaga	13	7	2	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:120802555C>T	uc001tye.1	-	5	335	c.271G>A	c.(271-273)GAC>AAC	p.D91N		NM_002442	NP_002433	O43347	MSI1H_HUMAN	musashi 1	91	RRM 1.				nervous system development	cytoplasm|nucleus	nucleotide binding			central_nervous_system(2)|breast(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ACCTTAGGGTCAATCTACAAG	0.537													31	84	---	---	---	---	PASS	T	120802555	T	T	120802555	3	4	97	1	0	0	0	0	1	0	0	0	9875	826	29	2	857	2	MSI1	12	120802555	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	13647522	120802555	13049340	114	36217										
WDR66	144406	broad.mit.edu	37	chr12	122413496	122413496	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agctccgcagtcaaggcatcGacacaatggagaccagaaag	11	11	1	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:122413496G>A	uc009zxk.2	+	19	3053	c.2911G>A	c.(2911-2913)GAC>AAC	p.D971N		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	971							calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		TCAAGGCATCGACACAATGGA	0.443													5	38	---	---	---	---	PASS	A	122413496	A	A	122413496	3	1	97	1	0	0	0	0	1	0	0	0	17314	1058	37	2	3040	2	WDR66	12	122413496	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	1610941	122413496	11438399	115	36218										
GOLGA3	2802	broad.mit.edu	37	chr12	133398645	133398645	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gggcttcagtggggcctcggGgagagacgaggggccactgt	20	9	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr12:133398645G>T	uc001ukz.1	-	2	629	c.70C>A	c.(70-72)CCC>ACC	p.P24T	GOLGA3_uc001ula.1_Missense_Mutation_p.P24T|GOLGA3_uc001ulb.2_Missense_Mutation_p.P24T	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	24	Pro-rich.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GGGGCCTCGGGGAGAGACGAG	0.647													18	34	---	---	---	---	PASS	T	133398645	T	T	133398645	3	4	97	1	0	0	0	0	1	0	0	0	6554	1232	43	3	4656	3	GOLGA3	12	133398645	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	10985149	133398645	453250	116	36219										
NBEA	26960	broad.mit.edu	37	chr13	36026233	36026233	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tttttgttgtgattaggcacGgaagaagatgtagtaaagtc	12	3	0	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr13:36026233G>T	uc001uvb.2	+	40	6515	c.6309G>T	c.(6307-6309)ACG>ACT	p.T2103T	NBEA_uc010abi.2_Silent_p.T759T	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2103						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GATTAGGCACGGAAGAAGATG	0.313													28	21	---	---	---	---	PASS	T	36026233	T	T	36026233	2	4	97	1	0	0	0	0	0	0	0	1	10187	1103	39	1		1	NBEA	13	36026233	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08		36026233	79143645	117	36220										
COL4A1	1282	broad.mit.edu	37	chr13	110861758	110861758	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ccttttcacctggagggccgGgagggcctgggggaccctgg	18	12	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr13:110861758G>T	uc001vqw.3	-	11	754	c.632C>A	c.(631-633)CCC>CAC	p.P211H	COL4A1_uc010agl.2_Missense_Mutation_p.P211H	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	211	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			TGGAGGGCCGGGAGGGCCTGG	0.418													4	36	---	---	---	---	PASS	T	110861758	T	T	110861758	3	4	97	1	0	0	0	0	1	0	0	0	3689	1232	43	3	4545	3	COL4A1	13	110861758	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	74835525	110861758	4308120	118	36221										
RNASE1	6035	broad.mit.edu	37	chr14	21269781	21269781	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gtagagtcctccacagaagcAtcaaagtggactggcacata	10	10	1	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr14:21269781A>G	uc001vyf.2	-	2	623	c.447T>C	c.(445-447)GAT>GAC	p.D149D	RNASE1_uc001vyg.2_Silent_p.D149D|RNASE1_uc001vyh.2_Silent_p.D149D|RNASE1_uc001vyi.2_Silent_p.D149D	NM_198232	NP_937875	P07998	RNAS1_HUMAN	pancreatic ribonuclease precursor	149						extracellular region	nucleic acid binding|pancreatic ribonuclease activity|protein binding				0	all_cancers(95;0.00671)	all_lung(585;0.235)	Epithelial(56;9.21e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0126)		CCACAGAAGCATCAAAGTGGA	0.572													36	23	---	---	---	---	PASS	G	21269781	G	G	21269781	2	3	97	1	0	0	0	0	0	0	0	1	13399	214	8	5		5	RNASE1	14	21269781	Silent	SNP	A	TCGA-43-3394-01A-01D-0983-08		21269781	86079759	119	36222										
LRRC16B	90668	broad.mit.edu	37	chr14	24534457	24534457	+	Frame_Shift_Del	DEL	G	-	-													0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ccctggatttggtgggggccGgggaccttccttccgccgga							TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr14:24534457delG	uc001wlj.2	+	33	3528	c.3371delG	c.(3370-3372)CGGfs	p.R1124fs	LRRC16B_uc001wlk.2_Frame_Shift_Del_p.R220fs	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	1124										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		GGTGGGGGCCGGGGACCTTCC	0.637													4	2	---	---	---	---		-	24534457	-	-	24534457	7	5	97	1	0	1	0	1	0	0	0	0	8972	1116	39	0	3501	0	LRRC16B	14	24534457	Frame_Shift_Del	DEL	G	TCGA-43-3394-01A-01D-0983-08	3264676	24534457	82815083	120	36223										
NID2	22795	broad.mit.edu	37	chr14	52472511	52472511	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agaggtgagatcgttgttctGggagatactcatcagtaaac	12	6	3	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr14:52472511G>A	uc001wzo.2	-	21	4295	c.4061C>T	c.(4060-4062)CCA>CTA	p.P1354L	NID2_uc010tqs.1_Missense_Mutation_p.P1306L|NID2_uc010tqt.1_Missense_Mutation_p.P1354L	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	1354	LDL-receptor class B 5.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					TCGTTGTTCTGGGAGATACTC	0.428													22	17	---	---	---	---	PASS	A	52472511	A	A	52472511	3	1	97	1	0	0	0	0	1	0	0	0	10415	1348	47	3	74	3	NID2	14	52472511	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	27938054	52472511	54877029	121	36224										
NRXN3	9369	broad.mit.edu	37	chr14	79423668	79423668	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gggtggtgcggagaggaaaaAgccttaagttaaccgtggat	16	5	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr14:79423668A>T	uc001xun.2	+	8	1731	c.1240A>T	c.(1240-1242)AGC>TGC	p.S414C	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.S539C	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	787	Laminin G-like 4.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GAGAGGAAAAAGCCTTAAGTT	0.498													13	41	---	---	---	---	PASS	T	79423668	T	T	79423668	3	4	97	1	0	0	0	0	1	0	0	0	10667	72	3	5	1262	5	NRXN3	14	79423668	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	26951157	79423668	27925872	122	36225										
MAGEL2	54551	broad.mit.edu	37	chr15	23889145	23889145	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tctctgctacacctattagcGgggagggggcctgctggtgg	16	10	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr15:23889145G>T	uc001ywj.3	-	1	2031	c.1936C>A	c.(1936-1938)CGC>AGC	p.R646S		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		ACCTATTAGCGGGGAGGGGGC	0.577													10	18	---	---	---	---	PASS	T	23889145	T	T	23889145	3	4	97	1	0	0	0	0	1	0	0	0	9189	1116	39	1	8	1	MAGEL2	15	23889145	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08		23889145	78642247	123	36226										
LPCAT4	254531	broad.mit.edu	37	chr15	34656452	34656452	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	acctcctccaccactctgcgTcgagaagccgggtcatgccg	10	17	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr15:34656452T>A	uc001zig.2	-	4	628	c.534A>T	c.(532-534)CGA>CGT	p.R178R	LPCAT4_uc010bav.1_Silent_p.R178R	NM_153613	NP_705841	Q643R3	LPCT4_HUMAN	lysophosphatidylcholine acyltransferase 4	178					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|calcium ion binding				0						CCACTCTGCGTCGAGAAGCCG	0.572													37	77	---	---	---	---	PASS	A	34656452	A	A	34656452	2	1	97	1	0	0	0	0	0	0	0	1	8913	1654	58	5		5	LPCAT4	15	34656452	Silent	SNP	T	TCGA-43-3394-01A-01D-0983-08	10767307	34656452	67874940	124	36227										
TP53BP1	7158	broad.mit.edu	37	chr15	43714111	43714111	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	aaaatctgcgggttctgtccCgctggttttccctctgagtg	11	11	3	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr15:43714111C>A	uc001zrs.2	-	19	4175	c.4027G>T	c.(4027-4029)GGG>TGG	p.G1343W	TP53BP1_uc010udp.1_Missense_Mutation_p.G1343W|TP53BP1_uc001zrq.3_Missense_Mutation_p.G1348W|TP53BP1_uc001zrr.3_Missense_Mutation_p.G1348W|TP53BP1_uc010udq.1_Missense_Mutation_p.G1348W	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	1343					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		GGTTCTGTCCCGCTGGTTTTC	0.582								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					17	34	---	---	---	---	PASS	A	43714111	A	A	43714111	3	1	97	1	0	0	0	0	1	0	0	0	16380	652	23	1	1931	1	TP53BP1	15	43714111	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	9057659	43714111	58817281	125	36228										
MYO5C	55930	broad.mit.edu	37	chr15	52564918	52564918	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gtggtcttggcatttccaacGgcctaaaaaaaataagactc	8	9	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr15:52564918G>A	uc010bff.2	-	6	746	c.609C>T	c.(607-609)GCC>GCT	p.A203A	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA|MYO5C_uc010ugc.1_Silent_p.A166A	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	203	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		CATTTCCAACGGCCTAAAAAA	0.353													5	50	---	---	---	---	PASS	A	52564918	A	A	52564918	2	1	97	1	0	0	0	0	0	0	0	1	10080	1103	39	1		1	MYO5C	15	52564918	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08	8850807	52564918	49966474	126	36229										
ADAM10	102	broad.mit.edu	37	chr15	58902590	58902590	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cagcatctactaatctgcacCgcatgaaaacatcacagtaa	5	12	3	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr15:58902590C>T	uc002afd.1	-	14	2375	c.1931G>A	c.(1930-1932)CGG>CAG	p.R644Q	ADAM10_uc010bgc.1_RNA|ADAM10_uc010ugz.1_Missense_Mutation_p.R343Q|ADAM10_uc002afe.1_Intron|ADAM10_uc002aff.1_Missense_Mutation_p.R181Q	NM_001110	NP_001101	O14672	ADA10_HUMAN	ADAM metallopeptidase domain 10 precursor	644	Extracellular (Potential).|Cys-rich.				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)		TAATCTGCACCGCATGAAAAC	0.453													26	42	---	---	---	---	PASS	T	58902590	T	T	58902590	3	4	97	1	0	0	0	0	1	0	0	0	234	652	23	1	327	1	ADAM10	15	58902590	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	6337672	58902590	43628802	127	36230										
IL16	3603	broad.mit.edu	37	chr15	81585143	81585143	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	acgggagccagtggtgctttCtatagcatcctccaggctgc	12	12	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr15:81585143C>G	uc002bgh.3	+	12	2043	c.1667C>G	c.(1666-1668)TCT>TGT	p.S556C	IL16_uc002bgc.2_RNA|IL16_uc010blq.1_Missense_Mutation_p.S556C|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Missense_Mutation_p.S598C|IL16_uc002bgg.2_Missense_Mutation_p.S556C|IL16_uc002bgi.1_5'UTR|IL16_uc002bgj.2_Missense_Mutation_p.S50C|IL16_uc002bgk.2_5'Flank	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	556					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						GTGGTGCTTTCTATAGCATCC	0.612													3	18	---	---	---	---	PASS	G	81585143	G	G	81585143	3	3	97	1	0	0	0	0	1	0	0	0	7633	913	32	2	1709	2	IL16	15	81585143	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	22682553	81585143	20946249	128	36231										
ANPEP	290	broad.mit.edu	37	chr15	90347487	90347487	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ccgagatgggggtctacctgGtgggccagctcatgagcaat	15	10	2	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr15:90347487G>T	uc002bop.3	-	6	1468	c.1176C>A	c.(1174-1176)CAC>CAA	p.H392Q		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	392	Extracellular.|Metalloprotease.	Zinc; catalytic (By similarity).			angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	GGTCTACCTGGTGGGCCAGCT	0.642													38	46	---	---	---	---	PASS	T	90347487	T	T	90347487	3	4	97	1	0	0	0	0	1	0	0	0	710	1252	44	3	1791	3	ANPEP	15	90347487	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	8762344	90347487	12183905	129	36232										
TMEM204	79652	broad.mit.edu	37	chr16	1584307	1584307	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agagactcgtggccgcggccGtgctggtggccctggtctca	16	13	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr16:1584307G>A	uc002cmc.2	+	2	429	c.31G>A	c.(31-33)GTG>ATG	p.V11M	IFT140_uc002clz.2_Intron|IFT140_uc002cmb.2_Intron|TMEM204_uc002cmd.2_Missense_Mutation_p.V11M|TMEM204_uc010brr.1_Missense_Mutation_p.V11M	NM_024600	NP_078876	Q9BSN7	TM204_HUMAN	transmembrane protein 204	11	Helical; (Potential).				response to stress	adherens junction|integral to membrane					0		Hepatocellular(780;0.219)				GGCCGCGGCCGTGCTGGTGGC	0.682													4	27	---	---	---	---	PASS	A	1584307	A	A	1584307	3	1	97	1	0	0	0	0	1	0	0	0	16126	1145	40	1	33	1	TMEM204	16	1584307	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08		1584307	88770446	130	36233										
PPL	5493	broad.mit.edu	37	chr16	4934186	4934186	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tccttgacctccgccttctcCagtgcagccagtttcctccg	7	18	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr16:4934186C>A	uc002cyd.1	-	22	4560	c.4470G>T	c.(4468-4470)CTG>CTT	p.L1490L		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1490	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						CCGCCTTCTCCAGTGCAGCCA	0.637													4	30	---	---	---	---	PASS	A	4934186	A	A	4934186	2	1	97	1	0	0	0	0	0	0	0	1	12334	581	21	3		3	PPL	16	4934186	Silent	SNP	C	TCGA-43-3394-01A-01D-0983-08	3349879	4934186	85420567	131	36234										
TNRC6A	27327	broad.mit.edu	37	chr16	24801321	24801321	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	taccactgaaatgactggacCaaataacactactaacttta	4	10	0	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr16:24801321C>A	uc002dmm.2	+	6	1472	c.1358C>A	c.(1357-1359)CCA>CAA	p.P453Q	TNRC6A_uc010bxs.2_Missense_Mutation_p.P200Q|TNRC6A_uc010vcc.1_Missense_Mutation_p.P200Q|TNRC6A_uc002dmn.2_Missense_Mutation_p.P200Q|TNRC6A_uc002dmo.2_Missense_Mutation_p.P200Q	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	453	Sufficient for interaction with EIF2C2.|Sufficient for interaction with EIF2C1, EIF2C3 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		ATGACTGGACCAAATAACACT	0.438													10	15	---	---	---	---	PASS	A	24801321	A	A	24801321	3	1	97	1	0	0	0	0	1	0	0	0	16337	594	21	3	1380	3	TNRC6A	16	24801321	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	19867135	24801321	65553432	132	36235										
GTF3C1	2975	broad.mit.edu	37	chr16	27504600	27504600	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ttcagcgggtcgttcagaaaTtcctccaggttgtccacctg	10	12	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr16:27504600T>A	uc002dov.1	-	17	2836	c.2796A>T	c.(2794-2796)GAA>GAT	p.E932D	GTF3C1_uc002dou.2_Missense_Mutation_p.E932D	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	932						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CGTTCAGAAATTCCTCCAGGT	0.552													4	12	---	---	---	---	PASS	A	27504600	A	A	27504600	3	1	97	1	0	0	0	0	1	0	0	0	6872	1490	52	5	3617	5	GTF3C1	16	27504600	Missense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08	2703279	27504600	62850153	133	36236										
PHKG2	5261	broad.mit.edu	37	chr16	30768035	30768035	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	caccccccgccagcggttccGggtaagcctgagtgtatcag	12	15	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr16:30768035G>A	uc002dzk.1	+	9	1019	c.926G>A	c.(925-927)CGG>CAG	p.R309Q	PHKG2_uc002dzi.1_Missense_Mutation_p.R313Q|PHKG2_uc002dzj.1_Missense_Mutation_p.R207Q	NM_000294	NP_000285	P15735	PHKG2_HUMAN	phosphorylase kinase, gamma 2 (testis)	309	Calmodulin-binding (domain-N) (By similarity).				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			ovary(1)	1			Colorectal(24;0.198)			CAGCGGTTCCGGGTAAGCCTG	0.627													10	53	---	---	---	---	PASS	A	30768035	A	A	30768035	3	1	97	1	0	0	0	0	1	0	0	0	11847	1130	39	1	956	1	PHKG2	16	30768035	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	3263435	30768035	59586718	134	36237										
C16orf93	90835	broad.mit.edu	37	chr16	30771646	30771646	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cctggagcagggcacaagccGctgacgtctgctccagtgag	14	13	1	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr16:30771646G>T	uc002dzm.2	-	4	759	c.428C>A	c.(427-429)GCG>GAG	p.A143E	C16orf93_uc002dzn.2_Missense_Mutation_p.A143E|C16orf93_uc002dzo.2_Missense_Mutation_p.A106E|C16orf93_uc002dzp.2_Missense_Mutation_p.A143E|RNF40_uc002dzq.2_5'Flank|RNF40_uc010caa.2_5'Flank|RNF40_uc010cab.2_5'Flank|RNF40_uc010vfa.1_5'Flank|RNF40_uc002dzr.2_5'Flank|RNF40_uc010vfb.1_5'Flank	NM_001014979	NP_001014979	A1A4V9	CP093_HUMAN	hypothetical protein LOC90835	143											0						GGCACAAGCCGCTGACGTCTG	0.617													7	25	---	---	---	---	PASS	T	30771646	T	T	30771646	3	4	97	1	0	0	0	0	1	0	0	0	1846	1087	38	1	591	1	C16orf93	16	30771646	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	3611	30771646	59583107	135	36238										
PLCG2	5336	broad.mit.edu	37	chr16	81953096	81953096	+	Missense_Mutation	SNP	G	T	T													0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cttcctgctccagggctaggGgcaaggtaaagcattgtcgc							TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr16:81953096G>T	uc002fgt.2	+	20	2214	c.2062G>T	c.(2062-2064)GGC>TGC	p.G688C	PLCG2_uc010chg.1_Missense_Mutation_p.G688C	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	688	SH2 2.				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						CAGGGCTAGGGGCAAGGTAAA	0.483													13	28	---	---	---	---	PASS	T	81953096	T	T	81953096	3	4	97	1	0	0	0	0	1	0	0	0	12036	1232	43	3	2136	3	PLCG2	16	81953096	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	51181450	81953096	8401657	136	36239	678	2								
PLCG2	5336	broad.mit.edu	37	chr16	81953097	81953097	+	Missense_Mutation	SNP	G	T	T													0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ttcctgctccagggctagggGcaaggtaaagcattgtcgca							TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr16:81953097G>T	uc002fgt.2	+	20	2215	c.2063G>T	c.(2062-2064)GGC>GTC	p.G688V	PLCG2_uc010chg.1_Missense_Mutation_p.G688V	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	688	SH2 2.				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						AGGGCTAGGGGCAAGGTAAAG	0.488													12	28	---	---	---	---	PASS	T	81953097	T	T	81953097	3	4	97	1	0	0	0	0	1	0	0	0	12036	1203	42	3	2137	3	PLCG2	16	81953097	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	1	81953097	8401656	137	36240	678	2								
TP53	7157	broad.mit.edu	37	chr17	7576904	7576904	+	Frame_Shift_Del	DEL	G	-	-													0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ttcttctttggctggggagaGgagctggtgttgttgggcag							TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr17:7576904delG	uc002gim.2	-	9	1136	c.942delC	c.(940-942)TCCfs	p.S314fs	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Frame_Shift_Del_p.S314fs|TP53_uc010cne.1_RNA|TP53_uc010cnf.1_Frame_Shift_Del_p.S182fs|TP53_uc010cng.1_Frame_Shift_Del_p.S182fs|TP53_uc002gii.1_Frame_Shift_Del_p.S182fs|TP53_uc010cnh.1_Frame_Shift_Del_p.S314fs|TP53_uc010cni.1_Frame_Shift_Del_p.S314fs|TP53_uc002gij.2_Frame_Shift_Del_p.S314fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	314	Bipartite nuclear localization signal.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.		S -> F (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.S315fs*22(2)|p.S315fs*30(1)|p.?(1)|p.S314F(1)|p.S314fs*25(1)|p.L308fs*15(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)		GCTGGGGAGAGGAGCTGGTGT	0.478		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)			18	27	---	---	---	---		-	7576904	-	-	7576904	7	5	97	1	0	1	0	1	0	0	0	0	16378	987	35	0	340	0	TP53	17	7576904	Frame_Shift_Del	DEL	G	TCGA-43-3394-01A-01D-0983-08		7576904	73618306	138	36241										
MYH4	4622	broad.mit.edu	37	chr17	10360876	10360876	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	atgttgtagtccacggtgccGgcatagtgcaccagtgagaa	13	9	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr17:10360876G>T	uc002gmn.2	-	16	1869	c.1758C>A	c.(1756-1758)GCC>GCA	p.A586A	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	586	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CCACGGTGCCGGCATAGTGCA	0.527													27	21	---	---	---	---	PASS	T	10360876	T	T	10360876	2	4	97	1	0	0	0	0	0	0	0	1	10037	1103	39	1		1	MYH4	17	10360876	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08	2783972	10360876	70834334	139	36242										
NF1	4763	broad.mit.edu	37	chr17	29653203	29653203	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tgctgccaccttggctttagAagaggacctgaaggtattcc	11	10	0	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr17:29653203A>T	uc002hgg.2	+	37	5534	c.5201A>T	c.(5200-5202)GAA>GTA	p.E1734V	NF1_uc002hgh.2_Missense_Mutation_p.E1713V|NF1_uc002hgi.1_Missense_Mutation_p.E746V|NF1_uc010cso.2_5'UTR	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	1734	CRAL-TRIO.				actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TTGGCTTTAGAAGAGGACCTG	0.423			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			34	45	---	---	---	---	PASS	T	29653203	T	T	29653203	3	4	97	1	0	0	0	0	1	0	0	0	10356	246	9	5	5408	5	NF1	17	29653203	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	19292327	29653203	51542007	140	36243										
COL1A1	1277	broad.mit.edu	37	chr17	48266736	48266736	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	agagatctgagctggcacttAcagcaggaccatcagcacca	10	12	2	2	rs113739104		TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr17:48266736A>G	uc002iqm.2	-	39	2955	c.2829_splice	c.e39+1	p.A943_splice		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein						axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	GCTGGCACTTACAGCAGGACC	0.642			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						16	40	---	---	---	---	PASS	G	48266736	G	G	48266736	5	3	97	1	0	0	0	0	0	0	1	0	3677	405	14	5	1615	5	COL1A1	17	48266736	Splice_Site	SNP	A	TCGA-43-3394-01A-01D-0983-08	18613533	48266736	32928474	141	36244										
PCTP	58488	broad.mit.edu	37	chr17	53851197	53851197	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cgagaggtctggggtgatccGggtgaagcaatacaagcaga	16	7	1	4			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr17:53851197G>T	uc002iul.3	+	4	561	c.452G>T	c.(451-453)CGG>CTG	p.R151L	PCTP_uc002ium.3_Missense_Mutation_p.R79L|PCTP_uc010dcg.2_Intron|PCTP_uc010dch.2_RNA	NM_021213	NP_067036	Q9UKL6	PPCT_HUMAN	phosphatidylcholine transfer protein isoform 1	151	START.					cytosol	phosphatidylcholine binding|phosphatidylcholine transmembrane transporter activity			lung(1)	1			BRCA - Breast invasive adenocarcinoma(1;0.00207)			GGGGTGATCCGGGTGAAGCAA	0.612													14	16	---	---	---	---	PASS	T	53851197	T	T	53851197	3	4	97	1	0	0	0	0	1	0	0	0	11607	1116	39	1	466	1	PCTP	17	53851197	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	5584461	53851197	27344013	142	36245										
PRKCA	5578	broad.mit.edu	37	chr17	64299001	64299001	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tttcccgggcaacgactccaCggcgtctcaggacgtggcca	12	15	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr17:64299001C>T	uc002jfp.1	+	1	76	c.32C>T	c.(31-33)ACG>ATG	p.T11M	PRKCA_uc002jfo.1_Translation_Start_Site	NM_002737	NP_002728	P17252	KPCA_HUMAN	protein kinase C, alpha	11					activation of phospholipase C activity|energy reserve metabolic process|induction of apoptosis by extracellular signals|intracellular signal transduction|mRNA metabolic process|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of blood vessel endothelial cell migration|regulation of insulin secretion|response to interleukin-1|synaptic transmission	cytosol|endoplasmic reticulum|membrane fraction|nucleoplasm|plasma membrane	ATP binding|enzyme binding|histone kinase activity (H3-T6 specific)|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(1)|stomach(1)|lung(1)|breast(1)|ovary(1)	9			BRCA - Breast invasive adenocarcinoma(6;4.68e-09)		Phosphatidylserine(DB00144)|Vitamin E(DB00163)	AACGACTCCACGGCGTCTCAG	0.592													15	18	---	---	---	---	PASS	T	64299001	T	T	64299001	3	4	97	1	0	0	0	0	1	0	0	0	12507	536	19	1	34	1	PRKCA	17	64299001	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	10447804	64299001	16896209	143	36246										
RNMT	8731	broad.mit.edu	37	chr18	13752338	13752338	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tccccagccatatcctgcaaAtgagagttctaaacttgtct	6	12	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr18:13752338A>G	uc002ksk.1	+	9	1338	c.1271A>G	c.(1270-1272)AAT>AGT	p.N424S	RNMT_uc002ksl.1_Missense_Mutation_p.N424S|RNMT_uc002ksm.1_Missense_Mutation_p.N424S|RNMT_uc010dlk.2_Missense_Mutation_p.N424S|RNMT_uc010xae.1_RNA	NM_003799	NP_003790	O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	424					mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	mRNA (guanine-N7-)-methyltransferase activity|RNA binding				0						TATCCTGCAAATGAGAGTTCT	0.338													12	15	---	---	---	---	PASS	G	13752338	G	G	13752338	3	3	97	1	0	0	0	0	1	0	0	0	13506	101	4	5	1301	5	RNMT	18	13752338	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08		13752338	64324910	144	36247										
FHOD3	80206	broad.mit.edu	37	chr18	34298246	34298246	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gagctcagaatccaagacatGgatttcactgacctggggga	12	9	2	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr18:34298246G>T	uc002kzt.1	+	15	2506	c.2409G>T	c.(2407-2409)ATG>ATT	p.M803I	FHOD3_uc002kzs.1_Missense_Mutation_p.M820I|FHOD3_uc010dmz.1_Missense_Mutation_p.M535I|FHOD3_uc010dna.1_Missense_Mutation_p.M123I	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	803					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				TCCAAGACATGGATTTCACTG	0.582													4	41	---	---	---	---	PASS	T	34298246	T	T	34298246	3	4	97	1	0	0	0	0	1	0	0	0	5883	1348	47	3	2522	3	FHOD3	18	34298246	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	20545908	34298246	43779002	145	36248										
TCEB3B	51224	broad.mit.edu	37	chr18	44560772	44560772	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gggacacgctggccgctgccAgcttgccccccttccttgtc	11	18	0	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr18:44560772A>T	uc002lcr.1	-	1	1217	c.864T>A	c.(862-864)GCT>GCA	p.A288A	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	288					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GGCCGCTGCCAGCTTGCCCCC	0.612													38	31	---	---	---	---	PASS	T	44560772	T	T	44560772	2	4	97	1	0	0	0	0	0	0	0	1	15679	175	7	5		5	TCEB3B	18	44560772	Silent	SNP	A	TCGA-43-3394-01A-01D-0983-08	10262526	44560772	33516476	146	36249										
MED16	10025	broad.mit.edu	37	chr19	872083	872083	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	atgcccagcgaggtgccgtcCcgcagaaagctgtggcccgg	15	14	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr19:872083C>A	uc002lqd.1	-	12	2092	c.1941G>T	c.(1939-1941)CGG>CGT	p.R647R	MED16_uc010drw.1_Intron|MED16_uc002lqe.2_Silent_p.R636R|MED16_uc002lqf.2_Silent_p.R636R	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	647	WD 4.				androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGTGCCGTCCCGCAGAAAGC	0.662													6	7	---	---	---	---	PASS	A	872083	A	A	872083	2	1	97	1	0	0	0	0	0	0	0	1	9434	610	22	3		3	MED16	19	872083	Silent	SNP	C	TCGA-43-3394-01A-01D-0983-08		872083	58256900	147	36250										
CLEC17A	388512	broad.mit.edu	37	chr19	14720890	14720890	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	atccagcttctgggagccagAggaacccaataacatccacg	9	13	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr19:14720890A>G	uc010dzn.1	+	14	1096	c.1019A>G	c.(1018-1020)GAG>GGG	p.E340G	CLEC17A_uc002mzh.1_Silent_p.R286R|CLEC17A_uc010xnt.1_RNA|CLEC17A_uc010xnu.1_3'UTR|CLEC17A_uc010dzo.1_Silent_p.R303R			Q6ZS10	CL17A_HUMAN	SubName: Full=CLEC17A protein;	340	C-type lectin.|Extracellular (Potential).					cell surface|integral to membrane	fucose binding|mannose binding|metal ion binding|receptor activity				0						tgggagccaGAGGAACCCAAT	0.229													13	34	---	---	---	---	PASS	G	14720890	G	G	14720890	3	3	97	1	0	0	0	0	1	0	0	0	3501	301	11	5	904	5	CLEC17A	19	14720890	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	13848807	14720890	44408093	148	36251										
EMR2	30817	broad.mit.edu	37	chr19	14883240	14883240	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tgcacacgcagtcgtagctcCcctctgtgttccagcagtcc	9	16	1	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr19:14883240C>T	uc002mzp.1	-	5	725	c.269G>A	c.(268-270)GGG>GAG	p.G90E	EMR2_uc010xnw.1_Missense_Mutation_p.G90E|EMR2_uc002mzo.1_Missense_Mutation_p.G90E|EMR2_uc002mzq.1_Missense_Mutation_p.G90E|EMR2_uc002mzr.1_Missense_Mutation_p.G90E|EMR2_uc002mzs.1_Missense_Mutation_p.G90E|EMR2_uc002mzt.1_Missense_Mutation_p.G90E|EMR2_uc002mzu.1_Missense_Mutation_p.G90E|EMR2_uc010xnx.1_RNA|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	90	Extracellular (Potential).|EGF-like 2; calcium-binding.				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						GTCGTAGCTCCCCTCTGTGTT	0.517													28	50	---	---	---	---	PASS	T	14883240	T	T	14883240	3	4	97	1	0	0	0	0	1	0	0	0	5105	623	22	3	2270	3	EMR2	19	14883240	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	162350	14883240	44245743	149	36252										
EMR2	30817	broad.mit.edu	37	chr19	14884827	14884827	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tgcagcgacaggcggtggcaTtgacacacgaggagtcctga	15	10	0	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr19:14884827T>A	uc002mzp.1	-	4	578	c.122A>T	c.(121-123)AAT>ATT	p.N41I	EMR2_uc010xnw.1_Missense_Mutation_p.N41I|EMR2_uc002mzo.1_Missense_Mutation_p.N41I|EMR2_uc002mzq.1_Missense_Mutation_p.N41I|EMR2_uc002mzr.1_Missense_Mutation_p.N41I|EMR2_uc002mzs.1_Missense_Mutation_p.N41I|EMR2_uc002mzt.1_Missense_Mutation_p.N41I|EMR2_uc002mzu.1_Missense_Mutation_p.N41I|EMR2_uc010xnx.1_5'Flank|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	41	Extracellular (Potential).|EGF-like 1.				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						GGCGGTGGCATTGACACACGA	0.587													14	67	---	---	---	---	PASS	A	14884827	A	A	14884827	3	1	97	1	0	0	0	0	1	0	0	0	5105	1493	52	5	2421	5	EMR2	19	14884827	Missense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08	1587	14884827	44244156	150	36253										
IL12RB1	3594	broad.mit.edu	37	chr19	18186558	18186558	+	Splice_Site	DEL	C	-	-													0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ctgtactcagagtgatcttaCcagggggaacgcacacgggg							TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr19:18186558delC	uc002nhw.1	-	7	764	c.700_splice	c.e7+1	p.E234_splice	IL12RB1_uc010xqb.1_Splice_Site_p.E234_splice|IL12RB1_uc002nhx.1_Splice_Site_p.E274_splice|IL12RB1_uc002nhy.2_Splice_Site_p.E234_splice	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1						cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1						AGTGATCTTACCAGGGGGAAC	0.428													21	18	---	---	---	---		-	18186558	-	-	18186558	8	5	97	1	0	1	0	1	0	0	1	0	7626	521	18	0	1460	0	IL12RB1	19	18186558	Splice_Site	DEL	C	TCGA-43-3394-01A-01D-0983-08	3301731	18186558	40942425	151	36254										
C19orf2	8725	broad.mit.edu	37	chr19	30505964	30505964	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tttaaagctgccagattgcaAcagaaagactaggccctgtc	9	10	0	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr19:30505964A>G	uc002nsr.2	+	11	1626	c.1596A>G	c.(1594-1596)CAA>CAG	p.Q532Q	C19orf2_uc002nsq.2_Intron|C19orf2_uc002nss.2_Silent_p.Q492Q|C19orf2_uc002nst.2_Silent_p.Q456Q	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	532					protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		CCAGATTGCAACAGAAAGACT	0.393													24	63	---	---	---	---	PASS	G	30505964	G	G	30505964	2	3	97	1	0	0	0	0	0	0	0	1	1911	40	2	5		5	C19orf2	19	30505964	Silent	SNP	A	TCGA-43-3394-01A-01D-0983-08	12319406	30505964	28623019	152	36255										
ZNF536	9745	broad.mit.edu	37	chr19	30935022	30935022	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ggacccacaagctgggcaacCtgggcaaggggcgtgggcgt	18	11	0	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr19:30935022C>A	uc002nsu.1	+	2	691	c.553C>A	c.(553-555)CTG>ATG	p.L185M	ZNF536_uc010edd.1_Missense_Mutation_p.L185M	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	185					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCTGGGCAACCTGGGCAAGGG	0.667													6	13	---	---	---	---	PASS	A	30935022	A	A	30935022	3	1	97	1	0	0	0	0	1	0	0	0	17971	680	24	3	555	3	ZNF536	19	30935022	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	429058	30935022	28193961	153	36256										
PEPD	5184	broad.mit.edu	37	chr19	33902627	33902627	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gttgggagctccggcgtgtcCgtagtgtagcacggctgagt	17	9	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr19:33902627C>A	uc002nur.3	-	11	904	c.769G>T	c.(769-771)GGA>TGA	p.G257*	PEPD_uc010xrr.1_Nonsense_Mutation_p.G216*|PEPD_uc010xrs.1_Nonsense_Mutation_p.G193*	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	257					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)					CCGGCGTGTCCGTAGTGTAGC	0.597													9	14	---	---	---	---	PASS	A	33902627	A	A	33902627	4	1	97	1	0	0	0	0	0	1	0	0	11728	661	23	1	732	1	PEPD	19	33902627	Nonsense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	2967605	33902627	25226356	154	36257										
ZNF30	90075	broad.mit.edu	37	chr19	35435155	35435155	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	atactggggagaaaccctatGaatgtaaggaatgtggcaaa	12	5	0	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr19:35435155G>T	uc010edp.1	+	5	1663	c.1285G>T	c.(1285-1287)GAA>TAA	p.E429*	ZNF30_uc002nxf.2_Nonsense_Mutation_p.E348*|ZNF30_uc010edq.1_Nonsense_Mutation_p.E430*|ZNF30_uc010edr.1_Nonsense_Mutation_p.E430*	NM_194325	NP_919306	P17039	ZNF30_HUMAN	zinc finger protein 30 isoform b	429	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_lung(56;8.38e-08)|Lung NSC(56;1.31e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)	GBM - Glioblastoma multiforme(1328;0.0265)		GAAACCCTATGAATGTAAGGA	0.463													50	41	---	---	---	---	PASS	T	35435155	T	T	35435155	4	4	97	1	0	0	0	0	0	1	0	0	17827	1291	45	2	1302	2	ZNF30	19	35435155	Nonsense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	1532528	35435155	23693828	155	36258										
NLRP5	126206	broad.mit.edu	37	chr19	56565112	56565112	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	acggacaatgccctgggtgaCggtggggttgctgcgctgtg	18	9	0	1	rs61737647	by1000genomes	TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr19:56565112C>A	uc002qmj.2	+	13	3237	c.3237C>A	c.(3235-3237)GAC>GAA	p.D1079E	NLRP5_uc002qmi.2_Missense_Mutation_p.D1060E	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	1079	LRR 12.					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)		CCCTGGGTGACGGTGGGGTTG	0.612													14	16	---	---	---	---	PASS	A	56565112	A	A	56565112	3	1	97	1	0	0	0	0	1	0	0	0	10480	535	19	1	3287	1	NLRP5	19	56565112	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	21129957	56565112	2563871	156	36259										
SNPH	9751	broad.mit.edu	37	chr20	1277858	1277858	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ctcagcagcagcagcaattcTggctcctacaagggcagtga	11	12	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr20:1277858T>A	uc002wes.2	+	4	356	c.120T>A	c.(118-120)TCT>TCA	p.S40S	SNPH_uc002wet.2_Silent_p.S84S	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	40	Poly-Ser.				synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						GCAGCAATTCTGGCTCCTACA	0.637													10	15	---	---	---	---	PASS	A	1277858	A	A	1277858	2	1	97	1	0	0	0	0	0	0	0	1	14850	1567	55	5		5	SNPH	20	1277858	Silent	SNP	T	TCGA-43-3394-01A-01D-0983-08		1277858	61747662	157	36260										
RBL1	5933	broad.mit.edu	37	chr20	35668651	35668651	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gaagatgtccctgcacatttCctccatttcctgtttcaaag	6	12	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr20:35668651C>G	uc002xgi.2	-	14	1887	c.1808G>C	c.(1807-1809)GGA>GCA	p.G603A	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.G603A	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	603	Pocket; binds T and E1A.|Spacer.				cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				CTGCACATTTCCTCCATTTCC	0.388													35	25	---	---	---	---	PASS	G	35668651	G	G	35668651	3	3	97	1	0	0	0	0	1	0	0	0	13109	855	30	2	1443	2	RBL1	20	35668651	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	34390793	35668651	27356869	158	36261										
C20orf111	51526	broad.mit.edu	37	chr20	42825791	42825791	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tcaatggtcacatcatccacGaagactcgagcttgctcaga	8	12	4	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr20:42825791G>C	uc002xlk.2	-	4	917	c.780C>G	c.(778-780)TTC>TTG	p.F260L		NM_016470	NP_057554	Q9NX31	CT111_HUMAN	oxidative stress responsive 1	260											0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			CATCATCCACGAAGACTCGAG	0.493													25	19	---	---	---	---	PASS	C	42825791	C	C	42825791	3	2	97	1	0	0	0	0	1	0	0	0	2080	1049	37	2	102	2	C20orf111	20	42825791	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	7157140	42825791	20199729	159	36262										
TTC3	7267	broad.mit.edu	37	chr21	38568325	38568325	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gcacctgtcagtggtattccCatgttacaacaggtatgaac	9	10	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr21:38568325C>G	uc002yvz.2	+	42	5672	c.5567C>G	c.(5566-5568)CCA>CGA	p.P1856R	TTC3_uc002ywa.2_Missense_Mutation_p.P1856R|TTC3_uc002ywb.2_Missense_Mutation_p.P1856R|TTC3_uc010gnf.2_Missense_Mutation_p.P1621R|TTC3_uc002ywc.2_Missense_Mutation_p.P1546R	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1856					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				GTGGTATTCCCATGTTACAAC	0.428													8	27	---	---	---	---	PASS	G	38568325	G	G	38568325	3	3	97	1	0	0	0	0	1	0	0	0	16694	594	21	4	5729	4	TTC3	21	38568325	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08		38568325	9561570	160	36263										
KCNJ15	3772	broad.mit.edu	37	chr21	39672221	39672221	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	acattttactgtgcagattcTgagaaacagcaactcgagga	9	8	1	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr21:39672221T>C	uc002ywv.2	+	4	1340	c.1038T>C	c.(1036-1038)TCT>TCC	p.S346S	KCNJ15_uc002yww.2_Silent_p.S346S|KCNJ15_uc002ywx.2_Silent_p.S346S	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	346	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						GTGCAGATTCTGAGAAACAGC	0.438													20	31	---	---	---	---	PASS	C	39672221	C	C	39672221	2	2	97	1	0	0	0	0	0	0	0	1	8049	1567	55	5		5	KCNJ15	21	39672221	Silent	SNP	T	TCGA-43-3394-01A-01D-0983-08	1103896	39672221	8457674	161	36264										
PCNT	5116	broad.mit.edu	37	chr21	47746346	47746346	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cagttcgcattcggagaaaaAgacggcgaagaggaagggct	15	7	0	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr21:47746346A>G	uc002zji.3	+	2	217	c.110A>G	c.(109-111)AAG>AGG	p.K37R	PCNT_uc002zjj.2_5'UTR|C21orf58_uc011afx.1_5'Flank|C21orf58_uc002zjf.2_5'Flank|C21orf58_uc010gqj.1_5'Flank|C21orf58_uc002zjg.1_5'Flank	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	37					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TCGGAGAAAAAGACGGCGAAG	0.512													17	28	---	---	---	---	PASS	G	47746346	G	G	47746346	3	3	97	1	0	0	0	0	1	0	0	0	11590	72	3	5	116	5	PCNT	21	47746346	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	8074125	47746346	383549	162	36265										
CERK	64781	broad.mit.edu	37	chr22	47085971	47085971	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ggtgcagcagcaggaggggtGgctgctgcaaatgtgcccaa	17	9	0	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chr22:47085971G>T	uc003bia.2	-	12	1566	c.1459C>A	c.(1459-1461)CAC>AAC	p.H487N	CERK_uc010hae.2_Missense_Mutation_p.H289N	NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	487					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CAGGAGGGGTGGCTGCTGCAA	0.612													10	22	---	---	---	---	PASS	T	47085971	T	T	47085971	3	4	97	1	0	0	0	0	1	0	0	0	3267	1348	47	3	162	3	CERK	22	47085971	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08		47085971	4218595	163	36266										
WWC3	55841	broad.mit.edu	37	chrX	10096089	10096089	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tgagatgcagctgcgctggcAttccgtgcaggtgttcacca	13	11	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:10096089A>T	uc004csx.3	+	16	2366	c.2168A>T	c.(2167-2169)CAT>CTT	p.H723L	WWC3_uc010nds.2_Missense_Mutation_p.H387L|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	723										ovary(4)	4						CTGCGCTGGCATTCCGTGCAG	0.562													34	8	---	---	---	---	PASS	T	10096089	T	T	10096089	3	4	97	1	0	0	0	0	1	0	0	0	17410	217	8	5	2226	5	WWC3	23	10096089	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08		10096089	145174471	164	36267										
FAM47C	442444	broad.mit.edu	37	chrX	37026510	37026510	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gaccagaggccgcaggaccgGcccagttccccgggcatgga	15	15	0	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:37026510G>T	uc004ddl.1	+	1	41	c.27G>T	c.(25-27)CGG>CGT	p.R9R		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	9										ovary(3)	3						CGCAGGACCGGCCCAGTTCCC	0.657													7	2	---	---	---	---	PASS	T	37026510	T	T	37026510	2	4	97	1	0	0	0	0	0	0	0	1	5571	1190	42	3		3	FAM47C	23	37026510	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08	26930421	37026510	118244050	165	36268										
SYN1	6853	broad.mit.edu	37	chrX	47464427	47464427	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	atcaattagagggaattcttCtgtccccagtttcttatgca	7	9	4	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:47464427C>T	uc004die.2	-	5	853	c.724G>A	c.(724-726)GAA>AAA	p.E242K	SYN1_uc004did.2_Missense_Mutation_p.E242K	NM_006950	NP_008881	P17600	SYN1_HUMAN	synapsin I isoform Ia	242	C; actin-binding and synaptic-vesicle binding.					cell junction|Golgi apparatus	actin binding|ATP binding|ligase activity|transporter activity			ovary(1)	1						GGGAATTCTTCTGTCCCCAGT	0.458													11	3	---	---	---	---	PASS	T	47464427	T	T	47464427	3	4	97	1	0	0	0	0	1	0	0	0	15437	922	32	2	1429	2	SYN1	23	47464427	Missense_Mutation	SNP	C	TCGA-43-3394-01A-01D-0983-08	10437917	47464427	107806133	166	36269										
ZC4H2	55906	broad.mit.edu	37	chrX	64137714	64137714	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	gggttccgggaccgactcttGgccttgcaaagagggcatat	14	10	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:64137714G>T	uc004dvu.2	-	5	712	c.624C>A	c.(622-624)GCC>GCA	p.A208A	ZC4H2_uc004dvv.2_Silent_p.A185A|ZC4H2_uc011mov.1_Silent_p.A185A|ZC4H2_uc011mow.1_Missense_Mutation_p.P154Q|ZC4H2_uc004dvw.1_3'UTR	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	208							metal ion binding|protein binding			ovary(1)	1						ACCGACTCTTGGCCTTGCAAA	0.483													6	9	---	---	---	---	PASS	T	64137714	T	T	64137714	2	4	97	1	0	0	0	0	0	0	0	1	17575	1348	47	3		3	ZC4H2	23	64137714	Silent	SNP	G	TCGA-43-3394-01A-01D-0983-08	16673287	64137714	91132846	167	36270										
APOOL	139322	broad.mit.edu	37	chrX	84310882	84310882	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cgagattttcttccgaaaatGggagttattacagtttcagg	10	6	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:84310882G>T	uc004eem.2	+	5	359	c.345G>T	c.(343-345)ATG>ATT	p.M115I	APOOL_uc010nmp.2_Intron	NM_198450	NP_940852	Q6UXV4	APOOL_HUMAN	apolipoprotein O-like precursor	115						extracellular region					0						TTCCGAAAATGGGAGTTATTA	0.343													3	5	---	---	---	---	PASS	T	84310882	T	T	84310882	3	4	97	1	0	0	0	0	1	0	0	0	814	1348	47	3	363	3	APOOL	23	84310882	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	20173168	84310882	70959678	168	36271										
SATL1	340562	broad.mit.edu	37	chrX	84362449	84362449	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	cacttggttggctcctgcctGgttgactcaggcctggttgg	14	11	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:84362449G>C	uc011mqx.1	-	1	1526	c.1526C>G	c.(1525-1527)CCA>CGA	p.P509R	SATL1_uc004een.2_Missense_Mutation_p.P509R	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	322	Gln-rich.						N-acetyltransferase activity			breast(2)	2						GCTCCTGCCTGGTTGACTCAG	0.542													22	12	---	---	---	---	PASS	C	84362449	C	C	84362449	3	2	97	1	0	0	0	0	1	0	0	0	13855	1348	47	4	392	4	SATL1	23	84362449	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	51567	84362449	70908111	169	36272										
TEX13A	56157	broad.mit.edu	37	chrX	104464730	104464730	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ctccttgcgttccgtctcctGctgctccctgagcttcttca	7	17	3	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:104464730G>T	uc004ema.2	-	2	464	c.352C>A	c.(352-354)CAG>AAG	p.Q118K	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Missense_Mutation_p.Q118K	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	118						intracellular	zinc ion binding			ovary(2)	2						TCCGTCTCCTGCTGCTCCCTG	0.607													10	5	---	---	---	---	PASS	T	104464730	T	T	104464730	3	4	97	1	0	0	0	0	1	0	0	0	15773	1328	46	3	887	3	TEX13A	23	104464730	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	20102281	104464730	50805830	170	36273										
CXorf61	203413	broad.mit.edu	37	chrX	115593951	115593951	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	attcaccattacctgaaagcGgcgatatttccagaagacaa	7	10	1	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:115593951G>A	uc004eqj.1	-	1	187	c.67C>T	c.(67-69)CGC>TGC	p.R23C		NM_001017978	NP_001017978	Q5H943	KKLC1_HUMAN	chromosome X open reading frame 61	23	Extracellular (Potential).					integral to membrane|plasma membrane					0						ACCTGAAAGCGGCGATATTTC	0.418													48	25	---	---	---	---	PASS	A	115593951	A	A	115593951	3	1	97	1	0	0	0	0	1	0	0	0	4116	1116	39	1	282	1	CXorf61	23	115593951	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	11129221	115593951	39676609	171	36274										
OCRL	4952	broad.mit.edu	37	chrX	128723821	128723821	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tgcccctatttttaaaaacaGgtgatctcccagcttccgag	7	12	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:128723821G>T	uc004euq.2	+	23	2635	c.2470_splice	c.e23-1	p.V824_splice	OCRL_uc004eur.2_Splice_Site_p.V816_splice|OCRL_uc010nrb.2_Intron	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TTTAAAAACAGGTGATCTCCC	0.403													33	13	---	---	---	---	PASS	T	128723821	T	T	128723821	5	4	97	1	0	0	0	0	0	0	1	0	10823	1014	35	3	2559	3	OCRL	23	128723821	Splice_Site	SNP	G	TCGA-43-3394-01A-01D-0983-08	13129870	128723821	26546739	172	36275										
ZNF449	203523	broad.mit.edu	37	chrX	134494173	134494173	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tcaaaacagaaaaaaatggaGactatgtatccatttattgt	6	5	1	2			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:134494173G>T	uc004eys.2	+	5	894	c.729G>T	c.(727-729)GAG>GAT	p.E243D	ZNF449_uc004eyt.2_Missense_Mutation_p.E123D|ZNF449_uc004eyu.2_Missense_Mutation_p.E49D	NM_152695	NP_689908	Q6P9G9	ZN449_HUMAN	zinc finger protein 449	243					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					AAAAAATGGAGACTATGTATC	0.373													51	15	---	---	---	---	PASS	T	134494173	T	T	134494173	3	4	97	1	0	0	0	0	1	0	0	0	17917	933	33	2	743	2	ZNF449	23	134494173	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	5770352	134494173	20776387	173	36276										
MCF2	4168	broad.mit.edu	37	chrX	138699860	138699860	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	aaactgggcctttgataataGctcctgattataacaaagac	7	8	0	3			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:138699860G>T	uc004fau.2	-	8	1105	c.811C>A	c.(811-813)CTA>ATA	p.L271I	MCF2_uc004fav.2_Missense_Mutation_p.L271I|MCF2_uc011mwl.1_Missense_Mutation_p.L232I|MCF2_uc010nsh.1_Missense_Mutation_p.L271I|MCF2_uc011mwm.1_Missense_Mutation_p.L232I|MCF2_uc011mwn.1_Missense_Mutation_p.L416I|MCF2_uc004faw.2_Missense_Mutation_p.L331I|MCF2_uc011mwo.1_Missense_Mutation_p.L331I	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	271	Spectrin.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					TTTGATAATAGCTCCTGATTA	0.343													61	31	---	---	---	---	PASS	T	138699860	T	T	138699860	3	4	97	1	0	0	0	0	1	0	0	0	9378	962	34	3	2118	3	MCF2	23	138699860	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	4205687	138699860	16570700	174	36277										
SLITRK4	139065	broad.mit.edu	37	chrX	142718645	142718645	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	tccctcaatgttctgcagttTattattccccagatgcaggg	8	11	2	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:142718645T>A	uc004fbx.2	-	2	656	c.280A>T	c.(280-282)AAA>TAA	p.K94*	SLITRK4_uc004fby.2_Nonsense_Mutation_p.K94*	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	94	Extracellular (Potential).|LRR 2.					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TTCTGCAGTTTATTATTCCCC	0.358													32	18	---	---	---	---	PASS	A	142718645	A	A	142718645	4	1	97	1	0	0	0	0	0	1	0	0	14745	1763	61	5	2237	5	SLITRK4	23	142718645	Nonsense_Mutation	SNP	T	TCGA-43-3394-01A-01D-0983-08	4018785	142718645	12551915	175	36278										
CNGA2	1260	broad.mit.edu	37	chrX	150911817	150911817	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	catcagcaaccttgtcctctAcatcttggtcatcatccact	4	15	5	0			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:150911817A>G	uc004fey.1	+	7	1066	c.842A>G	c.(841-843)TAC>TGC	p.Y281C		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	281	Helical; Name=H4; (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CTTGTCCTCTACATCTTGGTC	0.502													44	24	---	---	---	---	PASS	G	150911817	G	G	150911817	3	3	97	1	0	0	0	0	1	0	0	0	3597	391	14	5	864	5	CNGA2	23	150911817	Missense_Mutation	SNP	A	TCGA-43-3394-01A-01D-0983-08	8193172	150911817	4358743	176	36279										
IL9R	3581	broad.mit.edu	37	chrX	155235767	155235767	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0681818181818182	12	0.0842533439035813	1.64165464165464	2.95497835497835	1.13653013653014	1	1	0	ggccctctgatcccaccctgGgggtggccaggcaacaccct	12	17	1	1			TCGA-43-3394-01A-01D-0983-08	TCGA-43-3394-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	bb72e789-f8ad-4ab5-805b-a9ac21cef0e3	37a26c5a-bbbc-4403-81b3-5c5510ee3432	g.chrX:155235767G>C	uc004fnv.1	+	7	980	c.801G>C	c.(799-801)TGG>TGC	p.W267C	IL9R_uc010nvn.2_Missense_Mutation_p.W246C|IL9R_uc004fnu.1_Missense_Mutation_p.W302C	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor	267	Extracellular (Potential).				cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TCCCACCCTGGGGGTGGCCAG	0.637													9	19	---	---	---	---	PASS	C	155235767	C	C	155235767	3	2	97	1	0	0	0	0	1	0	0	0	7708	1241	43	4	827	4	IL9R	23	155235767	Missense_Mutation	SNP	G	TCGA-43-3394-01A-01D-0983-08	4323950	155235767	34793	177	36280										
ARHGEF16	27237	broad.mit.edu	37	chr1	3389705	3389705	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtcgaggacatcagtgacatCctggaggagcacgctgagaa	14	9	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:3389705C>T	uc001akg.3	+	7	1334	c.1086C>T	c.(1084-1086)ATC>ATT	p.I362I	ARHGEF16_uc001aki.2_Silent_p.I74I|ARHGEF16_uc001akj.2_Silent_p.I74I|ARHGEF16_uc009vli.1_Silent_p.I66I|ARHGEF16_uc010nzh.1_Silent_p.I66I	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	362	DH.|Required for RHOG activation and mediates interaction with EPHA2.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		TCAGTGACATCCTGGAGGAGC	0.622													12	24	---	---	---	---	PASS	T	3389705	T	T	3389705	2	4	98	1	0	0	0	0	0	0	0	1	899	845	30	2		2	ARHGEF16	1	3389705	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08		3389705	245860916	1	36281										
H6PD	9563	broad.mit.edu	37	chr1	9323660	9323660	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	acgagagagtgggctacgctCggatcttgttcaagaaccag	13	9	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:9323660C>A	uc001apt.2	+	5	1381	c.1108C>A	c.(1108-1110)CGG>AGG	p.R370R		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	370	Glucose 1-dehydrogenase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	GGGCTACGCTCGGATCTTGTT	0.617													4	45	---	---	---	---	PASS	A	9323660	A	A	9323660	2	1	98	1	0	0	0	0	0	0	0	1	6936	875	31	2		2	H6PD	1	9323660	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	5933955	9323660	239926961	2	36282										
UBE4B	10277	broad.mit.edu	37	chr1	10228233	10228233	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agtctcagcttgctcaggatGagcgtgtgtcccgctcttac	11	12	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:10228233G>A	uc001aqs.3	+	24	3951	c.3238G>A	c.(3238-3240)GAG>AAG	p.E1080K	UBE4B_uc001aqr.3_Missense_Mutation_p.E951K|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Missense_Mutation_p.E535K|UBE4B_uc001aqu.2_5'Flank	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	1080					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		TGCTCAGGATGAGCGTGTGTC	0.587													10	42	---	---	---	---	PASS	A	10228233	A	A	10228233	3	1	98	1	0	0	0	0	1	0	0	0	16880	1291	45	2	3332	2	UBE4B	1	10228233	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	904573	10228233	239022388	3	36283										
C1orf127	148345	broad.mit.edu	37	chr1	11015097	11015097	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gctgaccaccacaaagtcctTgttctcagtcaccataaaga	6	13	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:11015097T>C	uc010oao.1	-	5	483	c.478A>G	c.(478-480)AAG>GAG	p.K160E	C1orf127_uc001arr.1_Missense_Mutation_p.K142E|C1orf127_uc001ars.1_Missense_Mutation_p.K160E	NM_173507	NP_775778	B7ZLG7	B7ZLG7_HUMAN	hypothetical protein LOC148345	160										ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;0.000226)|all_lung(284;0.000302)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.71e-07)|COAD - Colon adenocarcinoma(227;7.79e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000305)|Kidney(185;0.000785)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|READ - Rectum adenocarcinoma(331;0.0509)		ACAAAGTCCTTGTTCTCAGTC	0.557													21	26	---	---	---	---	PASS	C	11015097	C	C	11015097	3	2	98	1	0	0	0	0	1	0	0	0	1994	1821	63	5	1562	5	C1orf127	1	11015097	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	786864	11015097	238235524	4	36284										
CELA2A	63036	broad.mit.edu	37	chr1	15792535	15792535	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcctgcagcagggccggttgCtggttgtggactatgccacc	14	12	0	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:15792535C>G	uc001awk.2	+	6	561	c.535C>G	c.(535-537)CTG>GTG	p.L179V		NM_033440	NP_254275	P08217	CEL2A_HUMAN	elastase 2A preproprotein	179	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						GGGCCGGTTGCTGGTTGTGGA	0.572													116	76	---	---	---	---	PASS	G	15792535	G	G	15792535	3	3	98	1	0	0	0	0	1	0	0	0	3211	796	28	4	557	4	CELA2A	1	15792535	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	4777438	15792535	233458086	5	36285										
UBR4	23352	broad.mit.edu	37	chr1	19491316	19491316	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttttcccgaacaatgtatgtGgtcagtaactgcagcagctg	10	9	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:19491316G>T	uc001bbi.2	-	32	4492	c.4488C>A	c.(4486-4488)ACC>ACA	p.T1496T	UBR4_uc001bbm.1_Silent_p.T707T	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	1496					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CAATGTATGTGGTCAGTAACT	0.488													7	121	---	---	---	---	PASS	T	19491316	T	T	19491316	2	4	98	1	0	0	0	0	0	0	0	1	16901	1335	47	3		3	UBR4	1	19491316	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	3698781	19491316	229759305	6	36286										
ECE1	1889	broad.mit.edu	37	chr1	21571587	21571587	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aggttccagatcatgtagttGttgagcaggctgcggggaga	16	6	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:21571587G>A	uc001bek.2	-	10	1248	c.1173C>T	c.(1171-1173)AAC>AAT	p.N391N	ECE1_uc001bem.2_Silent_p.N375N|ECE1_uc001bej.2_Silent_p.N379N|ECE1_uc001bei.2_Silent_p.N388N|ECE1_uc010odl.1_Silent_p.N391N|ECE1_uc009vqa.1_Silent_p.N391N	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	391	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		Lung NSC(340;1.14e-05)|all_lung(284;1.23e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00147)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0183)|OV - Ovarian serous cystadenocarcinoma(117;4.83e-27)|COAD - Colon adenocarcinoma(152;1.36e-06)|GBM - Glioblastoma multiforme(114;1.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000162)|STAD - Stomach adenocarcinoma(196;0.00326)|KIRC - Kidney renal clear cell carcinoma(1967;0.00755)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.206)		TCATGTAGTTGTTGAGCAGGC	0.592											OREG0013200	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	23	---	---	---	---	PASS	A	21571587	A	A	21571587	2	1	98	1	0	0	0	0	0	0	0	1	4889	1368	48	3		3	ECE1	1	21571587	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	2080271	21571587	227679034	7	36287										
CELA3A	10136	broad.mit.edu	37	chr1	22336303	22336303	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gctgcaacttcatctggaagCccacggtgttcactcgagtc	10	13	3	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:22336303C>T	uc001bfl.2	+	7	767	c.748C>T	c.(748-750)CCC>TCC	p.P250S		NM_005747	NP_005738	P09093	CEL3A_HUMAN	elastase 3A, pancreatic preproprotein	250	Peptidase S1.				cholesterol metabolic process|digestion|proteolysis		serine-type endopeptidase activity			haematopoietic_and_lymphoid_tissue(1)	1						CATCTGGAAGCCCACGGTGTT	0.607													10	27	---	---	---	---	PASS	T	22336303	T	T	22336303	3	4	98	1	0	0	0	0	1	0	0	0	3213	739	26	3	774	3	CELA3A	1	22336303	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	764716	22336303	226914318	8	36288										
OPRD1	4985	broad.mit.edu	37	chr1	29189343	29189343	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcgtgttcctcttcgccttcGtggtgcccatcctcatcatc	8	16	3	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:29189343G>A	uc001brf.1	+	3	909	c.667G>A	c.(667-669)GTG>ATG	p.V223M		NM_000911	NP_000902	P41143	OPRD_HUMAN	opioid receptor, delta 1	223	Helical; Name=5; (Potential).				immune response|protein import into nucleus, translocation	integral to plasma membrane	delta-opioid receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000947)|all_lung(284;0.00131)|Renal(390;0.00758)|Breast(348;0.00765)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-07)|COAD - Colon adenocarcinoma(152;7.51e-06)|STAD - Stomach adenocarcinoma(196;0.00306)|BRCA - Breast invasive adenocarcinoma(304;0.0241)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)	Butorphanol(DB00611)|Codeine(DB00318)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Loperamide(DB00836)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pimozide(DB01100)|Propoxyphene(DB00647)	CTTCGCCTTCGTGGTGCCCAT	0.647													14	10	---	---	---	---	PASS	A	29189343	A	A	29189343	3	1	98	1	0	0	0	0	1	0	0	0	10884	1145	40	1	677	1	OPRD1	1	29189343	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	6853040	29189343	220061278	9	36289										
EIF2C3	192669	broad.mit.edu	37	chr1	36509055	36509055	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caaacaaatctaggttggaaGaagtggcaatatcccagctg	10	8	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:36509055G>T	uc001bzp.2	+	17	2436	c.2180G>T	c.(2179-2181)AGA>ATA	p.R727I	EIF2C3_uc001bzq.2_Missense_Mutation_p.R493I	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	727	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TAGGTTGGAAGAAGTGGCAAT	0.353													6	47	---	---	---	---	PASS	T	36509055	T	T	36509055	3	4	98	1	0	0	0	0	1	0	0	0	5007	942	33	2	2246	2	EIF2C3	1	36509055	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	7319712	36509055	212741566	10	36290			1	46		3	3	63	G		2.416127e-07
EIF2C3	192669	broad.mit.edu	37	chr1	36509093	36509093	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctggaacaacagttgatacaGacattacacacccatatgag	7	10	0	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:36509093G>T	uc001bzp.2	+	17	2474	c.2218G>T	c.(2218-2220)GAC>TAC	p.D740Y	EIF2C3_uc001bzq.2_Missense_Mutation_p.D506Y	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	740	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				AGTTGATACAGACATTACACA	0.353													12	51	---	---	---	---	PASS	T	36509093	T	T	36509093	3	4	98	1	0	0	0	0	1	0	0	0	5007	942	33	2	2284	2	EIF2C3	1	36509093	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	38	36509093	212741528	11	36291			1	46		3	3	63	G		2.416127e-07
EIF2C3	192669	broad.mit.edu	37	chr1	36509117	36509117	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttacacacccatatgagttcGatttttacctctgtagccat	5	11	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:36509117G>A	uc001bzp.2	+	17	2498	c.2242G>A	c.(2242-2244)GAT>AAT	p.D748N	EIF2C3_uc001bzq.2_Missense_Mutation_p.D514N	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	748	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				ATATGAGTTCGATTTTTACCT	0.353													9	54	---	---	---	---	PASS	A	36509117	A	A	36509117	3	1	98	1	0	0	0	0	1	0	0	0	5007	1058	37	2	2308	2	EIF2C3	1	36509117	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	24	36509117	212741504	12	36292			1	46		3	3	63	G		2.416127e-07
CDCA8	55143	broad.mit.edu	37	chr1	38171130	38171130	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tagggtcttcaagacccctgGcctgcgtactccagcagcag	11	14	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:38171130G>A	uc001cbr.2	+	9	709	c.602G>A	c.(601-603)GGC>GAC	p.G201D	CDCA8_uc001cbs.2_Missense_Mutation_p.G201D|CDCA8_uc010oih.1_Missense_Mutation_p.G134D	NM_018101	NP_060571	Q53HL2	BOREA_HUMAN	cell division cycle associated 8	201					cell division|chromosome organization|mitotic metaphase|mitotic prometaphase	chromosome passenger complex|chromosome, centromeric region|cytosol|nucleolus|spindle	protein binding			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				AAGACCCCTGGCCTGCGTACT	0.507													30	63	---	---	---	---	PASS	A	38171130	A	A	38171130	3	1	98	1	0	0	0	0	1	0	0	0	3092	1203	42	3	632	3	CDCA8	1	38171130	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	1662013	38171130	211079491	13	36293										
MAST2	23139	broad.mit.edu	37	chr1	46488582	46488582	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcttgtatctttgtttccagAaatggcccagttgagcagct	9	9	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:46488582A>G	uc001cov.2	+	13	1707	c.1424A>G	c.(1423-1425)GAA>GGA	p.E475G	MAST2_uc001cow.2_Missense_Mutation_p.E475G|MAST2_uc001coy.1_Missense_Mutation_p.E149G|MAST2_uc001coz.1_Missense_Mutation_p.E360G|MAST2_uc009vya.2_Missense_Mutation_p.E397G|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	475					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)					TTGTTTCCAGAAATGGCCCAG	0.473													8	79	---	---	---	---	PASS	G	46488582	G	G	46488582	3	3	98	1	0	0	0	0	1	0	0	0	9325	260	9	5	1474	5	MAST2	1	46488582	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	8317452	46488582	202762039	14	36294										
PGM1	5236	broad.mit.edu	37	chr1	64097450	64097450	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tccgtattgatgctatgcatGgaggtatacaatcatttctt	8	7	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:64097450G>T	uc001dbh.2	+	4	892	c.679G>T	c.(679-681)GGA>TGA	p.G227*	PGM1_uc010ooy.1_Nonsense_Mutation_p.G30*|PGM1_uc010ooz.1_Nonsense_Mutation_p.G245*	NM_002633	NP_002624	P36871	PGM1_HUMAN	phosphoglucomutase 1	227					cellular calcium ion homeostasis|galactose catabolic process|glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity			ovary(2)|kidney(1)	3						TGCTATGCATGGAGGTATACA	0.413													42	106	---	---	---	---	PASS	T	64097450	T	T	64097450	4	4	98	1	0	0	0	0	0	1	0	0	11797	1349	47	3	997	3	PGM1	1	64097450	Nonsense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	17608868	64097450	185153171	15	36295										
ROR1	4919	broad.mit.edu	37	chr1	64644214	64644214	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atacctcctggatatgcagcGtttccagctgcccactacca	7	15	0	0	rs146764088	byFrequency	TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:64644214G>A	uc001dbj.2	+	9	2889	c.2490G>A	c.(2488-2490)GCG>GCA	p.A830A	uc001dbm.2_5'Flank	NM_005012	NP_005003	Q01973	ROR1_HUMAN	receptor tyrosine kinase-like orphan receptor 1	830	Cytoplasmic (Potential).|Pro-rich.				transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19						GATATGCAGCGTTTCCAGCTG	0.562													17	37	---	---	---	---	PASS	A	64644214	A	A	64644214	2	1	98	1	0	0	0	0	0	0	0	1	13526	1132	40	1		1	ROR1	1	64644214	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	546764	64644214	184606407	16	36296										
TNNI3K	51086	broad.mit.edu	37	chr1	74929215	74929215	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atcatctctgctgatacgagGgtggaacgcatgtcctgaag	12	9	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:74929215G>A	uc001dgf.1	+	21	2153	c.2102G>A	c.(2101-2103)GGG>GAG	p.G701E	TNNI3K_uc001dgd.2_Missense_Mutation_p.G802E|TNNI3K_uc001dge.1_Missense_Mutation_p.G802E	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	701	Protein kinase.					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						CTGATACGAGGGTGGAACGCA	0.443													31	84	---	---	---	---	PASS	A	74929215	A	A	74929215	3	1	98	1	0	0	0	0	1	0	0	0	16326	1232	43	3	2539	3	TNNI3K	1	74929215	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	10285001	74929215	174321406	17	36297										
C1orf173	127254	broad.mit.edu	37	chr1	75065437	75065437	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcattctcatctttcacattGtcacgggcatctggtgcctt	7	12	6	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:75065437G>T	uc001dgg.2	-	11	1887	c.1668C>A	c.(1666-1668)GAC>GAA	p.D556E	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.D350E	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	556	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTTTCACATTGTCACGGGCAT	0.413													51	112	---	---	---	---	PASS	T	75065437	T	T	75065437	3	4	98	1	0	0	0	0	1	0	0	0	2014	1368	48	3	2940	3	C1orf173	1	75065437	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	136222	75065437	174185184	18	36298										
ST6GALNAC5	81849	broad.mit.edu	37	chr1	77510258	77510258	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttactcgccacaagatgctgCagtttgatgagctcttcaag	9	10	2	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:77510258C>A	uc001dhi.2	+	3	806	c.631C>A	c.(631-633)CAG>AAG	p.Q211K	ST6GALNAC5_uc010ori.1_Intron|ST6GALNAC5_uc009wbw.2_RNA	NM_030965	NP_112227	Q9BVH7	SIA7E_HUMAN	sialyltransferase 7E	211	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			pancreas(1)|skin(1)	2						CAAGATGCTGCAGTTTGATGA	0.567													55	92	---	---	---	---	PASS	A	77510258	A	A	77510258	3	1	98	1	0	0	0	0	1	0	0	0	15226	711	25	3	641	3	ST6GALNAC5	1	77510258	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	2444821	77510258	171740363	19	36299										
GBP4	115361	broad.mit.edu	37	chr1	89652027	89652027	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gagactcaccttcagcttgtGttttagcagcctttcatgct	8	11	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:89652027G>C	uc001dnb.2	-	10	1812	c.1696C>G	c.(1696-1698)CAC>GAC	p.H566D		NM_052941	NP_443173	Q96PP9	GBP4_HUMAN	guanylate binding protein 4	566	Potential.					cytoplasm	GTP binding|GTPase activity				0				all cancers(265;0.00723)|Epithelial(280;0.0291)		TTCAGCTTGTGTTTTAGCAGC	0.478													6	78	---	---	---	---	PASS	C	89652027	C	C	89652027	3	2	98	1	0	0	0	0	1	0	0	0	6276	1377	48	4	234	4	GBP4	1	89652027	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	12141769	89652027	159598594	20	36300										
DPYD	1806	broad.mit.edu	37	chr1	98165061	98165061	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cattttttctgggggaggcaGcgaaggatttctgatctgtg	14	6	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:98165061G>A	uc001drv.2	-	6	663	c.526C>T	c.(526-528)CTG>TTG	p.L176L	DPYD_uc010oub.1_RNA	NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	176					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	GGGGGAGGCAGCGAAGGATTT	0.413													18	66	---	---	---	---	PASS	A	98165061	A	A	98165061	2	1	98	1	0	0	0	0	0	0	0	1	4745	962	34	3		3	DPYD	1	98165061	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	8513034	98165061	151085560	21	36301										
RSBN1	54665	broad.mit.edu	37	chr1	114340245	114340245	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttcatccatgtaagcatgaaGgacaagagcaccaccattgg	9	10	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:114340245G>T	uc001edq.2	-	2	1153	c.1117C>A	c.(1117-1119)CTT>ATT	p.L373I	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	373						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TAAGCATGAAGGACAAGAGCA	0.318													4	32	---	---	---	---	PASS	T	114340245	T	T	114340245	3	4	98	1	0	0	0	0	1	0	0	0	13696	1000	35	3	1315	3	RSBN1	1	114340245	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	16175184	114340245	134910376	22	36302										
DENND2C	163259	broad.mit.edu	37	chr1	115137122	115137122	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aaattctgctcctgagtcaaGatttcatttcgttcttccaa	5	10	4	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:115137122G>C	uc001efd.1	-	18	3105	c.2403C>G	c.(2401-2403)ATC>ATG	p.I801M	DENND2C_uc001eez.2_RNA|DENND2C_uc001efc.1_Missense_Mutation_p.I744M	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	801										skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCTGAGTCAAGATTTCATTTC	0.383													14	27	---	---	---	---	PASS	C	115137122	C	C	115137122	3	2	98	1	0	0	0	0	1	0	0	0	4430	932	33	2	399	2	DENND2C	1	115137122	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	796877	115137122	134113499	23	36303										
MAN1A2	10905	broad.mit.edu	37	chr1	118003163	118003163	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caggtagcagcattctggctGaatttggtacactacatatg	10	8	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:118003163G>A	uc001ehd.1	+	7	1724	c.1003G>A	c.(1003-1005)GAA>AAA	p.E335K	MAN1A2_uc009whg.1_Missense_Mutation_p.E125K	NM_006699	NP_006690	O60476	MA1A2_HUMAN	mannosidase, alpha, class 1A, member 2	335	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity				0	Lung SC(450;0.225)	all_cancers(81;7.9e-06)|all_epithelial(167;7.39e-07)|all_lung(203;2.84e-06)|Lung NSC(69;1.99e-05)		Lung(183;0.0688)|Kidney(133;0.114)|LUSC - Lung squamous cell carcinoma(189;0.223)|KIRC - Kidney renal clear cell carcinoma(1967;0.237)|Colorectal(144;0.243)		CATTCTGGCTGAATTTGGTAC	0.448													20	35	---	---	---	---	PASS	A	118003163	A	A	118003163	3	1	98	1	0	0	0	0	1	0	0	0	9211	1291	45	2	1029	2	MAN1A2	1	118003163	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	2866041	118003163	131247458	24	36304										
MTMR11	10903	broad.mit.edu	37	chr1	149906927	149906927	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcctcaaaaccaactctgagCagccggaagtctcggccatg	10	14	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:149906927C>A	uc001etl.3	-	5	671	c.420G>T	c.(418-420)CTG>CTT	p.L140L	MTMR11_uc001etm.1_Silent_p.L68L|MTMR11_uc010pbm.1_Silent_p.L112L|MTMR11_uc010pbn.1_5'UTR	NM_001145862	NP_001139334	A4FU01	MTMRB_HUMAN	myotubularin related protein 11 isoform a	140							phosphatase activity			central_nervous_system(1)	1	Breast(34;0.0009)|Ovarian(49;0.0377)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			CAACTCTGAGCAGCCGGAAGT	0.557													32	30	---	---	---	---	PASS	A	149906927	A	A	149906927	2	1	98	1	0	0	0	0	0	0	0	1	9940	697	25	3		3	MTMR11	1	149906927	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	31903764	149906927	99343694	25	36305										
FLG	2312	broad.mit.edu	37	chr1	152279085	152279085	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cgggatccttgtcttcctctAgtgctgggccccgtccatcc	10	16	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:152279085A>G	uc001ezu.1	-	3	8313	c.8277T>C	c.(8275-8277)ACT>ACC	p.T2759T		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2759	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTCTTCCTCTAGTGCTGGGCC	0.582									Ichthyosis				12	184	---	---	---	---	PASS	G	152279085	G	G	152279085	2	3	98	1	0	0	0	0	0	0	0	1	5922	407	15	5		5	FLG	1	152279085	Silent	SNP	A	TCGA-43-3920-01A-01D-0983-08	2372158	152279085	96971536	26	36306										
KPRP	448834	broad.mit.edu	37	chr1	152732698	152732698	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ccccccagttccagttgaggCcttcctacagcagctgtttc	8	16	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:152732698C>T	uc001fal.1	+	2	692	c.634C>T	c.(634-636)CCT>TCT	p.P212S		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	212						cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCAGTTGAGGCCTTCCTACAG	0.567													13	115	---	---	---	---	PASS	T	152732698	T	T	152732698	3	4	98	1	0	0	0	0	1	0	0	0	8436	739	26	3	636	3	KPRP	1	152732698	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	453613	152732698	96517923	27	36307										
DCST2	127579	broad.mit.edu	37	chr1	155006051	155006051	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gccttccaccagtagctccaGaagcccgtaggccgtggcta	11	15	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:155006051G>A	uc001fgm.2	-	1	207	c.127C>T	c.(127-129)CTG>TTG	p.L43L	DCST2_uc009wpb.2_RNA|DCST1_uc010per.1_5'Flank|DCST1_uc001fgn.1_5'Flank|DCST1_uc010pes.1_5'Flank	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	43	Helical; (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			AGTAGCTCCAGAAGCCCGTAG	0.632													8	44	---	---	---	---	PASS	A	155006051	A	A	155006051	2	1	98	1	0	0	0	0	0	0	0	1	4303	933	33	2		2	DCST2	1	155006051	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	2273353	155006051	94244570	28	36308										
SPTA1	6708	broad.mit.edu	37	chr1	158614993	158614993	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgtacctgcaactccaggcaCtggtctaggatcttcttgcg	10	12	3	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:158614993C>A	uc001fst.1	-	29	4378	c.4179G>T	c.(4177-4179)CAG>CAT	p.Q1393H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1393	Spectrin 13.				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)					ACTCCAGGCACTGGTCTAGGA	0.433													24	91	---	---	---	---	PASS	A	158614993	A	A	158614993	3	1	98	1	0	0	0	0	1	0	0	0	15115	564	20	3	3176	3	SPTA1	1	158614993	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	3608942	158614993	90635628	29	36309										
TAGLN2	8407	broad.mit.edu	37	chr1	159889626	159889626	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttaatgagctcacatagcacCtggatgaggacagcaggggt	13	8	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:159889626C>A	uc001fum.1	-	2	231	c.181_splice	c.e2-1	p.V61_splice	CCDC19_uc001ful.2_Intron|TAGLN2_uc001fun.1_Splice_Site_p.V61_splice|TAGLN2_uc001fuo.1_Splice_Site_p.V61_splice|TAGLN2_uc010piy.1_3'UTR	NM_003564	NP_003555	P37802	TAGL2_HUMAN	transgelin 2						muscle organ development	nuclear membrane|plasma membrane	protein binding				0	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CACATAGCACCTGGATGAGGA	0.552													6	102	---	---	---	---	PASS	A	159889626	A	A	159889626	5	1	98	1	0	0	0	0	0	0	1	0	15536	695	24	3	431	3	TAGLN2	1	159889626	Splice_Site	SNP	C	TCGA-43-3920-01A-01D-0983-08	1274633	159889626	89360995	30	36310										
CD244	51744	broad.mit.edu	37	chr1	160801188	160801188	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttgcggctcaatcgagcaggGttctgggctttaggttgact	14	8	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:160801188G>C	uc009wtq.2	-	9	1240	c.1062C>G	c.(1060-1062)AAC>AAG	p.N354K	CD244_uc001fxa.2_Missense_Mutation_p.N349K|CD244_uc009wtp.2_RNA|CD244_uc009wtr.2_Missense_Mutation_p.N257K	NM_016382	NP_057466	Q9BZW8	CD244_HUMAN	CD244 natural killer cell receptor 2B4	354	Cytoplasmic (Potential).				blood coagulation|leukocyte migration	integral to membrane|plasma membrane	protein binding|receptor activity			ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			ATCGAGCAGGGTTCTGGGCTT	0.393													49	87	---	---	---	---	PASS	C	160801188	C	C	160801188	3	2	98	1	0	0	0	0	1	0	0	0	2987	1252	44	4	54	4	CD244	1	160801188	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	911562	160801188	88449433	31	36311										
USP21	27005	broad.mit.edu	37	chr1	161132464	161132464	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cctgcgaagctgtgaatcctActcgattccgagctgtcttc	9	13	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:161132464A>T	uc010pke.1	+	6	1218	c.841A>T	c.(841-843)ACT>TCT	p.T281S	USP21_uc010pkc.1_Missense_Mutation_p.T281S|USP21_uc010pkd.1_Missense_Mutation_p.T281S|USP21_uc010pkf.1_Missense_Mutation_p.T281S	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	281					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			TGTGAATCCTACTCGATTCCG	0.532													9	24	---	---	---	---	PASS	T	161132464	T	T	161132464	3	4	98	1	0	0	0	0	1	0	0	0	17050	391	14	5	855	5	USP21	1	161132464	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	331276	161132464	88118157	32	36312										
ALDH9A1	223	broad.mit.edu	37	chr1	165667753	165667753	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aggagagggccgaagactgcGaagaagcggggagagcgcgg	21	7	0	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:165667753G>A	uc001gdh.1	-	1	148	c.43C>T	c.(43-45)CGC>TGC	p.R15C	uc001gdi.2_5'Flank|ALDH9A1_uc010pky.1_5'UTR|ALDH9A1_uc010pkz.1_Missense_Mutation_p.R15C|ALDH9A1_uc010pla.1_5'UTR	NM_000696	NP_000687	P49189	AL9A1_HUMAN	aldehyde dehydrogenase 9A1	Error:Variant_position_missing_in_P49189_after_alignment					carnitine biosynthetic process|cellular aldehyde metabolic process|hormone metabolic process|neurotransmitter biosynthetic process	cytosol|plasma membrane	3-chloroallyl aldehyde dehydrogenase activity|4-trimethylammoniobutyraldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aminobutyraldehyde dehydrogenase activity				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				NADH(DB00157)	CGAAGACTGCGAAGAAGCGGG	0.612													4	4	---	---	---	---	PASS	A	165667753	A	A	165667753	3	1	98	1	0	0	0	0	1	0	0	0	506	1058	37	2	1557	2	ALDH9A1	1	165667753	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	4535289	165667753	83582868	33	36313										
FMO1	2326	broad.mit.edu	37	chr1	171227315	171227315	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agaaggactggagcccacctGctttgagaggagcgatgacc	14	10	0	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:171227315G>A	uc009wvz.2	+	2	225	c.89G>A	c.(88-90)TGC>TAC	p.C30Y	FMO1_uc010pme.1_Missense_Mutation_p.C30Y|FMO1_uc001ghl.2_Missense_Mutation_p.C30Y|FMO1_uc001ghm.2_Missense_Mutation_p.C30Y|FMO1_uc001ghn.2_Missense_Mutation_p.C30Y	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	30					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GAGCCCACCTGCTTTGAGAGG	0.557													33	73	---	---	---	---	PASS	A	171227315	A	A	171227315	3	1	98	1	0	0	0	0	1	0	0	0	5954	1319	46	3	91	3	FMO1	1	171227315	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	5559562	171227315	78023306	34	36314										
RFWD2	64326	broad.mit.edu	37	chr1	176153775	176153775	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tagaattgtcttaccaaaagCtgtggccacattttgtcatg	8	8	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:176153775C>T	uc001gku.1	-	2	717	c.461G>A	c.(460-462)AGC>AAC	p.S154N	RFWD2_uc001gkv.1_Missense_Mutation_p.S154N|RFWD2_uc001gkw.1_5'UTR|RFWD2_uc001gkt.1_Missense_Mutation_p.S13N	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	154	RING-type.				DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						TTACCAAAAGCTGTGGCCACA	0.284													11	173	---	---	---	---	PASS	T	176153775	T	T	176153775	3	4	98	1	0	0	0	0	1	0	0	0	13260	797	28	3	1810	3	RFWD2	1	176153775	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	4926460	176153775	73096846	35	36315										
ASTN1	460	broad.mit.edu	37	chr1	176918373	176918373	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtcgtccgggaagggcgccaTctgctggaggcacagctgct	16	12	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:176918373T>A	uc001glc.2	-	12	2214	c.2002A>T	c.(2002-2004)ATG>TTG	p.M668L	ASTN1_uc001glb.1_Missense_Mutation_p.M668L|ASTN1_uc001gld.1_Missense_Mutation_p.M668L|ASTN1_uc009wwx.1_Missense_Mutation_p.M668L	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	676	EGF-like 3.				cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						AAGGGCGCCATCTGCTGGAGG	0.592											OREG0014004	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	43	---	---	---	---	PASS	A	176918373	A	A	176918373	3	1	98	1	0	0	0	0	1	0	0	0	1064	1435	50	5	1934	5	ASTN1	1	176918373	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	764598	176918373	72332248	36	36316										
ASTN1	460	broad.mit.edu	37	chr1	176934344	176934344	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctcccaaaaccaggtcaaagCctcgctgaaatattgtgtaa	7	11	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:176934344C>A	uc001glc.2	-	9	1765	c.1553G>T	c.(1552-1554)GGC>GTC	p.G518V	ASTN1_uc001glb.1_Missense_Mutation_p.G518V|ASTN1_uc001gld.1_Missense_Mutation_p.G518V|ASTN1_uc009wwx.1_Missense_Mutation_p.G518V	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	526					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						CAGGTCAAAGCCTCGCTGAAA	0.328													64	61	---	---	---	---	PASS	A	176934344	A	A	176934344	3	1	98	1	0	0	0	0	1	0	0	0	1064	739	26	3	2395	3	ASTN1	1	176934344	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	15971	176934344	72316277	37	36317										
CACNA1E	777	broad.mit.edu	37	chr1	181765947	181765947	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gggagtccccagagcgccgtCaatccaggtcacccagtgag	13	14	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:181765947C>A	uc001gow.2	+	46	6388	c.6223C>A	c.(6223-6225)CAA>AAA	p.Q2075K	CACNA1E_uc009wxs.2_Missense_Mutation_p.Q1963K|CACNA1E_uc009wxt.2_Missense_Mutation_p.Q1344K	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	2118	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						AGAGCGCCGTCAATCCAGGTC	0.592													4	11	---	---	---	---	PASS	A	181765947	A	A	181765947	3	1	98	1	0	0	0	0	1	0	0	0	2542	827	29	2	6405	2	CACNA1E	1	181765947	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	4831603	181765947	67484674	38	36318										
APOBEC4	403314	broad.mit.edu	37	chr1	183617486	183617486	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	taagagtgatgcctggatacGtaatcaggaaattatacatt	9	5	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:183617486G>A	uc001gqn.2	-	2	703	c.431C>T	c.(430-432)ACG>ATG	p.T144M	RGL1_uc010pof.1_Intron|RGL1_uc001gqm.2_Intron|RGL1_uc010pog.1_Intron|RGL1_uc010poh.1_Intron	NM_203454	NP_982279	Q8WW27	ABEC4_HUMAN	apolipoprotein B	144					mRNA processing		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0						GCCTGGATACGTAATCAGGAA	0.428													15	105	---	---	---	---	PASS	A	183617486	A	A	183617486	3	1	98	1	0	0	0	0	1	0	0	0	796	1145	40	1	676	1	APOBEC4	1	183617486	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	1851539	183617486	65633135	39	36319										
TPR	7175	broad.mit.edu	37	chr1	186291483	186291483	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caaatccatcagtacgatgtGgcaccacaagagttggagta	10	9	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:186291483G>T	uc001grv.2	-	45	6725	c.6428C>A	c.(6427-6429)CCA>CAA	p.P2143Q		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	2143					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)		AGTACGATGTGGCACCACAAG	0.338			T	NTRK1	papillary thyroid								5	49	---	---	---	---	PASS	T	186291483	T	T	186291483	3	4	98	1	0	0	0	0	1	0	0	0	16413	1348	47	3	691	3	TPR	1	186291483	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	2673997	186291483	62959138	40	36320										
SYT2	127833	broad.mit.edu	37	chr1	202568477	202568477	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caggtggatcttcacgtacgGgtctgcggagggagaatccc	15	10	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:202568477G>C	uc001gye.2	-	8	1115	c.922C>G	c.(922-924)CCG>GCG	p.P308A	SYT2_uc010pqb.1_Missense_Mutation_p.P308A|SYT2_uc009xaf.2_Missense_Mutation_p.P138A	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	308	Phospholipid binding (By similarity).|C2 2.|Cytoplasmic (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	TTCACGTACGGGTCTGCGGAG	0.557													25	61	---	---	---	---	PASS	C	202568477	C	C	202568477	3	2	98	1	0	0	0	0	1	0	0	0	15471	1232	43	4	345	4	SYT2	1	202568477	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	16276994	202568477	46682144	41	36321										
AVPR1B	553	broad.mit.edu	37	chr1	206230826	206230826	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agattccaccaatgtggcttTcaccatctctatgcttttgg	7	11	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:206230826T>A	uc001hds.2	+	2	1117	c.959T>A	c.(958-960)TTC>TAC	p.F320Y		NM_000707	NP_000698	P47901	V1BR_HUMAN	arginine vasopressin receptor 1B	320	Extracellular (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity			ovary(2)|large_intestine(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.0312)		Desmopressin(DB00035)|Terlipressin(DB02638)|Vasopressin(DB00067)	AATGTGGCTTTCACCATCTCT	0.348													4	9	---	---	---	---	PASS	A	206230826	A	A	206230826	3	1	98	1	0	0	0	0	1	0	0	0	1232	1783	62	5	965	5	AVPR1B	1	206230826	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	3662349	206230826	43019795	42	36322										
IL10	3586	broad.mit.edu	37	chr1	206944738	206944738	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aggactcctttaacaacaagTtgtccagctgatccttcatt	6	11	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:206944738T>C	uc001hen.1	-	2	247	c.188A>G	c.(187-189)AAC>AGC	p.N63S		NM_000572	NP_000563	P22301	IL10_HUMAN	interleukin 10 precursor	63					anti-apoptosis|B cell differentiation|B cell proliferation|cytoplasmic sequestering of NF-kappaB|inflammatory response|leukocyte chemotaxis|negative regulation of B cell proliferation|negative regulation of cytokine secretion involved in immune response|negative regulation of interferon-alpha biosynthetic process|negative regulation of interleukin-6 production|negative regulation of membrane protein ectodomain proteolysis|negative regulation of MHC class II biosynthetic process|negative regulation of T cell proliferation|positive regulation of B cell apoptosis|positive regulation of cytokine secretion|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|receptor biosynthetic process|regulation of isotype switching|response to glucocorticoid stimulus|type 2 immune response	extracellular space	cytokine activity|growth factor activity|interleukin-10 receptor binding				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.211)			TAACAACAAGTtgtccagctg	0.368													4	15	---	---	---	---	PASS	C	206944738	C	C	206944738	3	2	98	1	0	0	0	0	1	0	0	0	7619	1725	60	5	364	5	IL10	1	206944738	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	713912	206944738	42305883	43	36323										
PLXNA2	5362	broad.mit.edu	37	chr1	208270171	208270171	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctccacctctgtcaggttccCaaaggcacaggcgatacccg	9	16	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:208270171C>A	uc001hgz.2	-	7	2547	c.1789G>T	c.(1789-1791)GGG>TGG	p.G597W		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	597	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GTCAGGTTCCCAAAGGCACAG	0.552													13	22	---	---	---	---	PASS	A	208270171	A	A	208270171	3	1	98	1	0	0	0	0	1	0	0	0	12120	594	21	3	3999	3	PLXNA2	1	208270171	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1325433	208270171	40980450	44	36324										
DUSP10	11221	broad.mit.edu	37	chr1	221879746	221879746	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gccccccacctcccggcactCttggagctggagggagttgt	13	15	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:221879746C>G	uc001hmy.1	-	3	1056	c.874G>C	c.(874-876)GAG>CAG	p.E292Q	DUSP10_uc001hmx.1_5'UTR|DUSP10_uc001hmz.1_5'UTR	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	292					inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		TCCCGGCACTCTTGGAGCTGG	0.567													21	33	---	---	---	---	PASS	G	221879746	G	G	221879746	3	3	98	1	0	0	0	0	1	0	0	0	4810	922	32	2	582	2	DUSP10	1	221879746	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	13609575	221879746	27370875	45	36325										
C1orf65	164127	broad.mit.edu	37	chr1	223568431	223568431	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctccgggagctcaaccacctGagggagaaaaaccaccacat	9	14	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:223568431G>A	uc001hoa.2	+	1	1717	c.1614G>A	c.(1612-1614)CTG>CTA	p.L538L		NM_152610	NP_689823	Q8N715	CA065_HUMAN	hypothetical protein LOC164127	538	Potential.									central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0704)		TCAACCACCTGAGGGAGAAAA	0.542													22	48	---	---	---	---	PASS	A	223568431	A	A	223568431	2	1	98	1	0	0	0	0	0	0	0	1	2055	1277	45	2		2	C1orf65	1	223568431	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	1688685	223568431	25682190	46	36326										
CAPN2	824	broad.mit.edu	37	chr1	223949944	223949944	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aggagactgtttgcccagttGgcaggagaggtaaatgttcc	14	7	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:223949944G>C	uc001hob.3	+	14	1847	c.1623G>C	c.(1621-1623)TTG>TTC	p.L541F	CAPN2_uc010puy.1_Missense_Mutation_p.L463F|CAPN2_uc001hoc.2_Missense_Mutation_p.L122F	NM_001748	NP_001739	P17655	CAN2_HUMAN	calpain 2 isoform 1	541	Domain IV.				proteolysis	cytoplasm|plasma membrane				lung(3)|breast(1)|skin(1)	5				GBM - Glioblastoma multiforme(131;0.109)		TTGCCCAGTTGGCAGGAGAGG	0.483													10	25	---	---	---	---	PASS	C	223949944	C	C	223949944	3	2	98	1	0	0	0	0	1	0	0	0	2627	1339	47	4	1684	4	CAPN2	1	223949944	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	381513	223949944	25300677	47	36327										
GNG4	2786	broad.mit.edu	37	chr1	235747056	235747056	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttaccttgaccctgtccataCaggcttccatctttagctgc	6	14	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:235747056C>A	uc001hxe.3	-	3	537	c.83G>T	c.(82-84)TGT>TTT	p.C28F	GNG4_uc009xfz.2_Missense_Mutation_p.C28F|GNG4_uc001hxh.3_Missense_Mutation_p.C28F	NM_001098722	NP_001092192	P50150	GBG4_HUMAN	guanine nucleotide binding protein (G protein),	28					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|negative regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	signal transducer activity				0	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00168)|Prostate(94;0.0776)|Acute lymphoblastic leukemia(190;0.23)	OV - Ovarian serous cystadenocarcinoma(106;0.000882)			CCTGTCCATACAGGCTTCCAT	0.522													9	46	---	---	---	---	PASS	A	235747056	A	A	235747056	3	1	98	1	0	0	0	0	1	0	0	0	6529	478	17	3	152	3	GNG4	1	235747056	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	11797112	235747056	13503565	48	36328										
RYR2	6262	broad.mit.edu	37	chr1	237732496	237732496	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atgggcgctcttggcaagcaGgcgatgtcgtggggtgtatg	18	7	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:237732496G>T	uc001hyl.1	+	29	3595	c.3475G>T	c.(3475-3477)GGC>TGC	p.G1159C		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1159	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)			TTGGCAAGCAGGCGATGTCGT	0.493													13	29	---	---	---	---	PASS	T	237732496	T	T	237732496	3	4	98	1	0	0	0	0	1	0	0	0	13769	1000	35	3	3589	3	RYR2	1	237732496	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	1985440	237732496	11518125	49	36329										
RGS7	6000	broad.mit.edu	37	chr1	240976973	240976973	+	Missense_Mutation	SNP	C	A	A													0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cagccatgggttagaagggtCaggtggcaaaagaaacgggt							TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:240976973C>A	uc001hyv.2	-	13	1231	c.901G>T	c.(901-903)GAC>TAC	p.D301Y	RGS7_uc010pyh.1_Missense_Mutation_p.D275Y|RGS7_uc010pyj.1_Missense_Mutation_p.D217Y|RGS7_uc001hyu.2_Missense_Mutation_p.D301Y|RGS7_uc009xgn.1_Missense_Mutation_p.D248Y|RGS7_uc001hyw.2_Missense_Mutation_p.D301Y|RGS7_uc001hyt.2_Missense_Mutation_p.D133Y	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	301	G protein gamma.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			TTAGAAGGGTCAGGTGGCAAA	0.423													8	27	---	---	---	---	PASS	A	240976973	A	A	240976973	3	1	98	1	0	0	0	0	1	0	0	0	13310	826	29	2	586	2	RGS7	1	240976973	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	3244477	240976973	8273648	50	36330	679	2								
RGS7	6000	broad.mit.edu	37	chr1	240976974	240976974	+	Silent	SNP	A	G	G													0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agccatgggttagaagggtcAggtggcaaaagaaacgggtc							TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:240976974A>G	uc001hyv.2	-	13	1230	c.900T>C	c.(898-900)CCT>CCC	p.P300P	RGS7_uc010pyh.1_Silent_p.P274P|RGS7_uc010pyj.1_Silent_p.P216P|RGS7_uc001hyu.2_Silent_p.P300P|RGS7_uc009xgn.1_Silent_p.P247P|RGS7_uc001hyw.2_Silent_p.P300P|RGS7_uc001hyt.2_Silent_p.P132P	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	300	G protein gamma.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			TAGAAGGGTCAGGTGGCAAAA	0.428													8	26	---	---	---	---	PASS	G	240976974	G	G	240976974	2	3	98	1	0	0	0	0	0	0	0	1	13310	175	7	5		5	RGS7	1	240976974	Silent	SNP	A	TCGA-43-3920-01A-01D-0983-08	1	240976974	8273647	51	36331	679	2								
EXO1	9156	broad.mit.edu	37	chr1	242035469	242035469	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgacctggtaaatggacctaCtaacaaaaagagtgtaagca	9	7	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:242035469C>A	uc001hzh.2	+	12	1943	c.1403C>A	c.(1402-1404)ACT>AAT	p.T468N	EXO1_uc001hzi.2_Missense_Mutation_p.T468N|EXO1_uc001hzj.2_Missense_Mutation_p.T468N|EXO1_uc009xgq.2_Missense_Mutation_p.T467N	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	468	Interaction with MLH1.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			AATGGACCTACTAACAAAAAG	0.383								Direct_reversal_of_damage|Editing_and_processing_nucleases					4	56	---	---	---	---	PASS	A	242035469	A	A	242035469	3	1	98	1	0	0	0	0	1	0	0	0	5300	565	20	3	1437	3	EXO1	1	242035469	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1058495	242035469	7215152	52	36332										
EXO1	9156	broad.mit.edu	37	chr1	242035547	242035547	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	acaaaggaaaaatgaagaaaGtggtgcagttgtggttccag	13	4	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:242035547G>C	uc001hzh.2	+	12	2021	c.1481G>C	c.(1480-1482)AGT>ACT	p.S494T	EXO1_uc001hzi.2_Missense_Mutation_p.S494T|EXO1_uc001hzj.2_Missense_Mutation_p.S494T|EXO1_uc009xgq.2_Missense_Mutation_p.S493T	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	494					meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			AATGAAGAAAGTGGTGCAGTT	0.383								Direct_reversal_of_damage|Editing_and_processing_nucleases					6	53	---	---	---	---	PASS	C	242035547	C	C	242035547	3	2	98	1	0	0	0	0	1	0	0	0	5300	1029	36	4	1515	4	EXO1	1	242035547	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	78	242035547	7215074	53	36333										
TFB2M	64216	broad.mit.edu	37	chr1	246704449	246704449	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	catgttaactactttctcatCctcctgttttcctatttgca	3	12	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:246704449C>T	uc001ibn.2	-	8	1200	c.1075G>A	c.(1075-1077)GAT>AAT	p.D359N		NM_022366	NP_071761	Q9H5Q4	TFB2M_HUMAN	transcription factor B2, mitochondrial	359					positive regulation of transcription, DNA-dependent|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity|transcription cofactor activity			ovary(1)	1	all_cancers(71;4.25e-05)|all_epithelial(71;4.92e-06)|Ovarian(71;0.0254)|all_lung(81;0.0272)|Breast(184;0.0318)|Lung NSC(105;0.0376)		OV - Ovarian serous cystadenocarcinoma(106;0.00358)			ACTTTCTCATCCTCCTGTTTT	0.348													15	29	---	---	---	---	PASS	T	246704449	T	T	246704449	3	4	98	1	0	0	0	0	1	0	0	0	15791	855	30	2	119	2	TFB2M	1	246704449	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	4668902	246704449	2546172	54	36334										
OR11L1	391189	broad.mit.edu	37	chr1	248004383	248004383	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtgtagaagacagaaatgatCttgttgatttcaggcaacag	11	5	2	5			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:248004383C>G	uc001idn.1	-	1	816	c.816G>C	c.(814-816)AAG>AAC	p.K272N		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	272	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CAGAAATGATCTTGTTGATTT	0.478													21	35	---	---	---	---	PASS	G	248004383	G	G	248004383	3	3	98	1	0	0	0	0	1	0	0	0	10930	912	32	2	156	2	OR11L1	1	248004383	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1299934	248004383	1246238	55	36335										
OR2T4	127074	broad.mit.edu	37	chr1	248525278	248525278	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcccctgagtgtgggatgcaGatgttcttctacgtgacact	12	10	2	3	rs143377817		TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:248525278G>T	uc001ieh.1	+	1	396	c.396G>T	c.(394-396)CAG>CAT	p.Q132H		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	132	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GTGGGATGCAGATGTTCTTCT	0.522													43	55	---	---	---	---	PASS	T	248525278	T	T	248525278	3	4	98	1	0	0	0	0	1	0	0	0	11027	933	33	2	398	2	OR2T4	1	248525278	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	520895	248525278	725343	56	36336										
OR2T3	343173	broad.mit.edu	37	chr1	248637397	248637397	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cttggccacctgctcctcccAcatgatcatagtgctgctgc	8	16	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:248637397A>T	uc001iel.1	+	1	746	c.746A>T	c.(745-747)CAC>CTC	p.H249L		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGCTCCTCCCACATGATCATA	0.547													36	121	---	---	---	---	PASS	T	248637397	T	T	248637397	3	4	98	1	0	0	0	0	1	0	0	0	11023	159	6	5	748	5	OR2T3	1	248637397	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	112119	248637397	613224	57	36337										
OR2G6	391211	broad.mit.edu	37	chr1	248685501	248685501	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctgtgaggtgccagtgctcaTcaaactggcctgtgtggata	13	9	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr1:248685501T>A	uc001ien.1	+	1	554	c.554T>A	c.(553-555)ATC>AAC	p.I185N		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCAGTGCTCATCAAACTGGCC	0.502													4	41	---	---	---	---	PASS	A	248685501	A	A	248685501	3	1	98	1	0	0	0	0	1	0	0	0	11000	1435	50	5	556	5	OR2G6	1	248685501	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	48104	248685501	565120	58	36338										
APOB	338	broad.mit.edu	37	chr2	21232830	21232830	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tattctttcaaatgaaattgTagttcccaattgatctaaaa	4	6	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:21232830T>C	uc002red.2	-	26	7038	c.6910A>G	c.(6910-6912)ACA>GCA	p.T2304A		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2304					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AATGAAATTGTAGTTCCCAAT	0.338													12	101	---	---	---	---	PASS	C	21232830	C	C	21232830	3	2	98	1	0	0	0	0	1	0	0	0	785	1638	57	5	6797	5	APOB	2	21232830	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08		21232830	221966543	59	36339										
ADCY3	109	broad.mit.edu	37	chr2	25062839	25062839	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcccaggacgccccccagcaCggtgcccgtgtgcaccccca	11	21	0	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:25062839C>T	uc002rfs.3	-	6	1457	c.1258G>A	c.(1258-1260)GTG>ATG	p.V420M	ADCY3_uc002rfr.3_Missense_Mutation_p.V31M|ADCY3_uc010ykm.1_Missense_Mutation_p.V420M	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	420	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					CCCCCCAGCACGGTGCCCGTG	0.642													14	30	---	---	---	---	PASS	T	25062839	T	T	25062839	3	4	98	1	0	0	0	0	1	0	0	0	295	536	19	1	2240	1	ADCY3	2	25062839	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	3830009	25062839	218136534	60	36340										
HADHB	3032	broad.mit.edu	37	chr2	26502980	26502980	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	acagctgcaaattcttctttCttggtaactgtcaatgttat	6	8	4	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:26502980C>G	uc002rgz.2	+	10	1181	c.930C>G	c.(928-930)TTC>TTG	p.F310L	HADHB_uc010ykv.1_Missense_Mutation_p.F288L|HADHB_uc010ykw.1_Missense_Mutation_p.F295L|HADHB_uc002rha.2_Missense_Mutation_p.F187L|HADHB_uc010ykx.1_Missense_Mutation_p.F236L	NM_000183	NP_000174	P55084	ECHB_HUMAN	mitochondrial trifunctional protein, beta	310					fatty acid beta-oxidation	mitochondrial nucleoid	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acyltransferase activity|enoyl-CoA hydratase activity|protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATTCTTCTTTCTTGGTAACTG	0.383													58	38	---	---	---	---	PASS	G	26502980	G	G	26502980	3	3	98	1	0	0	0	0	1	0	0	0	6944	912	32	2	964	2	HADHB	2	26502980	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1440141	26502980	216696393	61	36341										
OTOF	9381	broad.mit.edu	37	chr2	26697491	26697491	+	Frame_Shift_Del	DEL	C	-	-													0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgggcagtacgcctcgtctgCcatcttcaccaggggtttgg							TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:26697491delC	uc002rhk.2	-	26	3305	c.3178delG	c.(3178-3180)GCAfs	p.A1060fs	OTOF_uc010yla.1_5'Flank|OTOF_uc002rhh.2_Frame_Shift_Del_p.A313fs|OTOF_uc002rhi.2_Frame_Shift_Del_p.A370fs|OTOF_uc002rhj.2_Frame_Shift_Del_p.A313fs	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1060	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCCTCGTCTGCCATCTTCACC	0.587													10	23	---	---	---	---		-	26697491	-	-	26697491	7	5	98	1	0	1	0	1	0	0	0	0	11303	739	26	0	3084	0	OTOF	2	26697491	Frame_Shift_Del	DEL	C	TCGA-43-3920-01A-01D-0983-08	194511	26697491	216501882	62	36342										
SRD5A2	6716	broad.mit.edu	37	chr2	31754473	31754473	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tggccagggcatagccgatcCattcaatgatctcaccgagg	11	12	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:31754473C>T	uc002rnw.1	-	5	673	c.602G>A	c.(601-603)TGG>TAG	p.W201*		NM_000348	NP_000339	P31213	S5A2_HUMAN	3-oxo-5 alpha-steroid 4-dehydrogenase 2	201					androgen biosynthetic process|cell differentiation|cell-cell signaling|male gonad development	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|sterol 5-alpha reductase activity				0	Acute lymphoblastic leukemia(172;0.155)				Azelaic Acid(DB00548)|Dutasteride(DB01126)	ATAGCCGATCCATTCAATGAT	0.473													51	28	---	---	---	---	PASS	T	31754473	T	T	31754473	4	4	98	1	0	0	0	0	0	1	0	0	15138	595	21	3	170	3	SRD5A2	2	31754473	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	5056982	31754473	211444900	63	36343										
THADA	63892	broad.mit.edu	37	chr2	43547631	43547631	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttgaggcagcaagtcaatagGaagagaatatcaatatatac	9	5	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:43547631G>C	uc002rsw.3	-	31	4744	c.4392C>G	c.(4390-4392)TTC>TTG	p.F1464L	THADA_uc010far.2_Missense_Mutation_p.F659L|THADA_uc002rsx.3_Missense_Mutation_p.F1464L|THADA_uc002rsy.3_RNA	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1464							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				AAGTCAATAGGAAGAGAATAT	0.368													62	43	---	---	---	---	PASS	C	43547631	C	C	43547631	3	2	98	1	0	0	0	0	1	0	0	0	15837	1165	41	2	1501	2	THADA	2	43547631	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	11793158	43547631	199651742	64	36344										
AFTPH	54812	broad.mit.edu	37	chr2	64780367	64780367	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aagatagttgttcttgggctGcttttggagaccagcaggct	13	7	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:64780367G>C	uc002sdc.2	+	1	1791	c.1759G>C	c.(1759-1761)GCT>CCT	p.A587P	AFTPH_uc002scz.2_Missense_Mutation_p.A587P|AFTPH_uc002sda.2_Missense_Mutation_p.A587P|AFTPH_uc002sdb.2_Missense_Mutation_p.A587P	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	587					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						TTCTTGGGCTGCTTTTGGAGA	0.438													28	20	---	---	---	---	PASS	C	64780367	C	C	64780367	3	2	98	1	0	0	0	0	1	0	0	0	364	1319	46	4	1761	4	AFTPH	2	64780367	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	21232736	64780367	178419006	65	36345										
CCT7	10574	broad.mit.edu	37	chr2	73466796	73466796	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	accagttatcctattgaaagAggggactgatagctcccaag	10	9	0	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:73466796A>G	uc002siz.2	+	2	134	c.32A>G	c.(31-33)GAG>GGG	p.E11G	CCT7_uc002sja.2_Intron|CCT7_uc010yrf.1_5'UTR|CCT7_uc010feu.2_Missense_Mutation_p.E11G|CCT7_uc010yrg.1_5'UTR|CCT7_uc010yrh.1_5'UTR|CCT7_uc010yri.1_Intron	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	11					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						CTATTGAAAGAGGGGACTGAT	0.473													3	28	---	---	---	---	PASS	G	73466796	G	G	73466796	3	3	98	1	0	0	0	0	1	0	0	0	2959	304	11	5	38	5	CCT7	2	73466796	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	8686429	73466796	169732577	66	36346										
CTNNA2	1496	broad.mit.edu	37	chr2	79878772	79878772	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtggaaaggctgttggagccActtgttacacaggtaaggga	15	6	0	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:79878772A>C	uc010ysh.1	+	1	95	c.90A>C	c.(88-90)CCA>CCC	p.P30P	CTNNA2_uc010yse.1_Silent_p.P30P|CTNNA2_uc010ysf.1_Silent_p.P30P|CTNNA2_uc010ysg.1_Silent_p.P30P|hsa-mir-4264|MI0015877_5'Flank	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	30					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TGTTGGAGCCACTTGTTACAC	0.413													31	20	---	---	---	---	PASS	C	79878772	C	C	79878772	2	2	98	1	0	0	0	0	0	0	0	1	4013	146	6	5		5	CTNNA2	2	79878772	Silent	SNP	A	TCGA-43-3920-01A-01D-0983-08	6411976	79878772	163320601	67	36347										
MAP4K4	9448	broad.mit.edu	37	chr2	102475492	102475492	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	acagctagaagaggagcagcGgcacttggaagtccttcagc	13	10	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:102475492G>C	uc002tbg.2	+	14	1485	c.1430G>C	c.(1429-1431)CGG>CCG	p.R477P	MAP4K4_uc002tbc.2_Missense_Mutation_p.R477P|MAP4K4_uc002tbd.2_Missense_Mutation_p.R477P|MAP4K4_uc002tbe.2_Missense_Mutation_p.R477P|MAP4K4_uc002tbf.2_Missense_Mutation_p.R477P|MAP4K4_uc010yvy.1_Missense_Mutation_p.R477P|MAP4K4_uc002tbh.2_Missense_Mutation_p.R477P|MAP4K4_uc002tbi.2_Missense_Mutation_p.R330P|MAP4K4_uc010yvz.1_Missense_Mutation_p.R457P|MAP4K4_uc002tbk.2_5'UTR|MAP4K4_uc002tbj.1_Missense_Mutation_p.R373P	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	477					intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GAGGAGCAGCGGCACTTGGAA	0.507													11	44	---	---	---	---	PASS	C	102475492	C	C	102475492	3	2	98	1	0	0	0	0	1	0	0	0	9262	1116	39	4	1484	4	MAP4K4	2	102475492	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	22596720	102475492	140723881	68	36348										
UXS1	80146	broad.mit.edu	37	chr2	106761715	106761715	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctcatgtccgatccagtgctCcacgtttctcttcctgcccg	7	17	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:106761715C>G	uc002tdm.2	-	6	486	c.388G>C	c.(388-390)GAG>CAG	p.E130Q	UXS1_uc002tdn.2_Missense_Mutation_p.E135Q|UXS1_uc002tdo.2_Missense_Mutation_p.E73Q|UXS1_uc010ywh.1_Intron	NM_025076	NP_079352	Q8NBZ7	UXS1_HUMAN	UDP-glucuronate decarboxylase 1	130	NAD.|Lumenal (Potential).				cellular metabolic process	Golgi cisterna membrane|integral to membrane	coenzyme binding|UDP-glucuronate decarboxylase activity			ovary(2)	2						ATCCAGTGCTCCACGTTTCTC	0.517													16	28	---	---	---	---	PASS	G	106761715	G	G	106761715	3	3	98	1	0	0	0	0	1	0	0	0	17106	864	30	2	914	2	UXS1	2	106761715	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	4286223	106761715	136437658	69	36349										
NCKAP5	344148	broad.mit.edu	37	chr2	133539570	133539570	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aacatgcaacagggctgtgtCtattccttggttcaatcttc	8	10	3	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:133539570C>A	uc002ttp.2	-	14	5188	c.4814G>T	c.(4813-4815)AGA>ATA	p.R1605I	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1605							protein binding				0						AGGGCTGTGTCTATTCCTTGG	0.443													14	76	---	---	---	---	PASS	A	133539570	A	A	133539570	3	1	98	1	0	0	0	0	1	0	0	0	10223	913	32	2	943	2	NCKAP5	2	133539570	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	26777855	133539570	109659803	70	36350										
MGAT5	4249	broad.mit.edu	37	chr2	135185973	135185973	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atatgaatttacgtgcgaggGgatgctacagagaatcaatg	12	5	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:135185973G>C	uc002ttv.1	+	14	1977	c.1832G>C	c.(1831-1833)GGG>GCG	p.G611A		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	611	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		ACGTGCGAGGGGATGCTACAG	0.453													8	37	---	---	---	---	PASS	C	135185973	C	C	135185973	3	2	98	1	0	0	0	0	1	0	0	0	9548	1232	43	4	1886	4	MGAT5	2	135185973	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	1646403	135185973	108013400	71	36351										
LCT	3938	broad.mit.edu	37	chr2	136555694	136555694	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttgaaaataggatgtgcaaaCcagcctcccatgaactgcgg	10	10	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:136555694C>A	uc002tuu.1	-	13	4892	c.4881G>T	c.(4879-4881)TGG>TGT	p.W1627C		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1627	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		GATGTGCAAACCAGCCTCCCA	0.567											OREG0014998	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	29	---	---	---	---	PASS	A	136555694	A	A	136555694	3	1	98	1	0	0	0	0	1	0	0	0	8693	508	18	3	922	3	LCT	2	136555694	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1369721	136555694	106643679	72	36352										
THSD7B	80731	broad.mit.edu	37	chr2	137814061	137814061	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gggcagtgtggtgttttcatGttgacgggtggacaagtcac	16	6	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:137814061G>C	uc002tva.1	+	2	118	c.118G>C	c.(118-120)GTT>CTT	p.V40L	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_5'UTR	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GTGTTTTCATGTTGACGGGTG	0.512													12	21	---	---	---	---	PASS	C	137814061	C	C	137814061	3	2	98	1	0	0	0	0	1	0	0	0	15877	1377	48	4	124	4	THSD7B	2	137814061	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	1258367	137814061	105385312	73	36353										
THSD7B	80731	broad.mit.edu	37	chr2	137852667	137852667	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agaggcctgcattgttgaagGagaacttctgcagcaatgtc	12	8	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:137852667G>T	uc002tva.1	+	3	1082	c.1082G>T	c.(1081-1083)GGA>GTA	p.G361V	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Missense_Mutation_p.G251V	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		ATTGTTGAAGGAGAACTTCTG	0.448													15	38	---	---	---	---	PASS	T	137852667	T	T	137852667	3	4	98	1	0	0	0	0	1	0	0	0	15877	1174	41	2	1092	2	THSD7B	2	137852667	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	38606	137852667	105346706	74	36354										
THSD7B	80731	broad.mit.edu	37	chr2	137917791	137917791	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tttgtccctcagtctctagaCctgtggaaaaggcattatgt	9	9	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:137917791C>A	uc002tva.1	+	5	1285	c.1285C>A	c.(1285-1287)CCT>ACT	p.P429T	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.P319T	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AGTCTCTAGACCTGTGGAAAA	0.488													17	52	---	---	---	---	PASS	A	137917791	A	A	137917791	3	1	98	1	0	0	0	0	1	0	0	0	15877	507	18	3	1303	3	THSD7B	2	137917791	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	65124	137917791	105281582	75	36355										
SCN3A	6328	broad.mit.edu	37	chr2	165952979	165952979	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tatttgagtgatacttacatCtcgtgaatcaacagctgcat	7	8	2	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:165952979C>G	uc002ucx.2	-	24	4783	c.4291G>C	c.(4291-4293)GAT>CAT	p.D1431H	SCN3A_uc010zcy.1_5'Flank|SCN3A_uc002ucy.2_Missense_Mutation_p.D1382H|SCN3A_uc002ucz.2_Missense_Mutation_p.D1382H	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1431						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	ATACTTACATCTCGTGAATCA	0.284													11	29	---	---	---	---	PASS	G	165952979	G	G	165952979	3	3	98	1	0	0	0	0	1	0	0	0	13918	913	32	2	1731	2	SCN3A	2	165952979	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	28035188	165952979	77246394	76	36356										
TLK1	9874	broad.mit.edu	37	chr2	171902795	171902795	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtgcctgagaattattagctGtgggaggtttgcgtttggct	15	5	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:171902795G>C	uc002ugn.2	-	11	1530	c.1058C>G	c.(1057-1059)ACA>AGA	p.T353R	TLK1_uc002ugo.2_Missense_Mutation_p.T374R|TLK1_uc002ugp.2_Missense_Mutation_p.T305R|TLK1_uc002ugq.2_RNA|TLK1_uc010zdn.1_Missense_Mutation_p.T257R|TLK1_uc002ugr.1_Missense_Mutation_p.T136R	NM_012290	NP_036422	Q9UKI8	TLK1_HUMAN	tousled-like kinase 1 isoform 1	353					cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						ATTATTAGCTGTGGGAGGTTT	0.388													22	37	---	---	---	---	PASS	C	171902795	C	C	171902795	3	2	98	1	0	0	0	0	1	0	0	0	15940	1377	48	4	1286	4	TLK1	2	171902795	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	5949816	171902795	71296578	77	36357										
TTN	7273	broad.mit.edu	37	chr2	179436183	179436183	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggctctgaattgaggtaggtActcttcccatatctgttttc	9	9	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:179436183A>T	uc010zfg.1	-	275	67196	c.66972T>A	c.(66970-66972)AGT>AGA	p.S22324R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S16019R|TTN_uc010zfi.1_Missense_Mutation_p.S15952R|TTN_uc010zfj.1_Missense_Mutation_p.S15827R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23251							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)			TGAGGTAGGTACTCTTCCCAT	0.458													20	27	---	---	---	---	PASS	T	179436183	T	T	179436183	3	4	98	1	0	0	0	0	1	0	0	0	16732	388	14	5	33451	5	TTN	2	179436183	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	7533388	179436183	63763190	78	36358										
TTN	7273	broad.mit.edu	37	chr2	179516472	179516472	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	acaggtttcttaggtggtacGgtcactaaagaattagaagg	12	5	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:179516472G>T	uc010zfg.1	-	160	32306	c.32082C>A	c.(32080-32082)ACC>ACA	p.T10694T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc010fre.1_Intron|TTN_uc002umw.1_5'Flank|TTN_uc002umx.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11621							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)			TAGGTGGTACGGTCACTAAAG	0.438													10	22	---	---	---	---	PASS	T	179516472	T	T	179516472	2	4	98	1	0	0	0	0	0	0	0	1	16732	1103	39	1		1	TTN	2	179516472	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	80289	179516472	63682901	79	36359										
TTN	7273	broad.mit.edu	37	chr2	179597774	179597774	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggagcctgcaattttgcagtCcagtctgcaggtaccattaa	10	10	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:179597774C>A	uc010zfg.1	-	52	12621	c.12397G>T	c.(12397-12399)GAC>TAC	p.D4133Y	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.D794Y	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5060							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)			ATTTTGCAGTCCAGTCTGCAG	0.468													19	22	---	---	---	---	PASS	A	179597774	A	A	179597774	3	1	98	1	0	0	0	0	1	0	0	0	16732	855	30	2	88632	2	TTN	2	179597774	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	81302	179597774	63601599	80	36360										
TTN	7273	broad.mit.edu	37	chr2	179616631	179616631	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aagaaggcttaaaatattcaGgccaggagcttgtagatgat	11	5	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:179616631G>T	uc002unb.2	-	46	10720	c.10496C>A	c.(10495-10497)CCT>CAT	p.P3499H	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			AAAATATTCAGGCCAGGAGCT	0.378													32	112	---	---	---	---	PASS	T	179616631	T	T	179616631	3	4	98	1	0	0	0	0	1	0	0	0	16732	1000	35	3	99801	3	TTN	2	179616631	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	18857	179616631	63582742	81	36361										
CFLAR	8837	broad.mit.edu	37	chr2	202025610	202025610	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgtccctgctggagcagtctCacagctcaccatccctgtac	8	16	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:202025610C>A	uc002uxb.3	+	9	1701	c.1249C>A	c.(1249-1251)CAC>AAC	p.H417N	CFLAR_uc010zhk.1_Missense_Mutation_p.H321N|CFLAR_uc002uxc.3_Missense_Mutation_p.H382N|CFLAR_uc010zhl.1_Missense_Mutation_p.H321N|CFLAR_uc010fsw.1_RNA|CFLAR_uc002uxd.3_Missense_Mutation_p.H417N|CFLAR_uc002uxf.2_Missense_Mutation_p.H417N|CFLAR_uc010fsy.2_RNA|CFLAR_uc010fsx.2_Intron|CFLAR_uc010zhm.1_Missense_Mutation_p.H321N|CFLAR_uc010fsz.2_Missense_Mutation_p.H172N|CFLAR_uc002uxg.2_Missense_Mutation_p.H172N	NM_003879	NP_003870	O15519	CFLAR_HUMAN	CASP8 and FADD-like apoptosis regulator isoform	417	Interaction with caspase-8.|Interaction with caspase-3.|Interaction with TRAF1 and TRAF2.|Not proteolytically processed and involved in apoptosis inhibition.|Interaction with caspase-8 subunits p18 and p10.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis		cysteine-type endopeptidase activity|protein binding				0						GGAGCAGTCTCACAGCTCACC	0.557													11	36	---	---	---	---	PASS	A	202025610	A	A	202025610	3	1	98	1	0	0	0	0	1	0	0	0	3292	826	29	2	1343	2	CFLAR	2	202025610	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	22408979	202025610	41173763	82	36362										
PIKFYVE	200576	broad.mit.edu	37	chr2	209136333	209136333	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ccttctcatctcacacacttTaaacctttgactcctgatca	2	15	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:209136333T>C	uc002vcz.2	+	2	248	c.90T>C	c.(88-90)TTT>TTC	p.F30F	PIKFYVE_uc010fun.1_5'UTR|PIKFYVE_uc002vcy.1_Silent_p.F30F|PIKFYVE_uc002vcv.2_Silent_p.F30F|PIKFYVE_uc002vcw.2_Silent_p.F30F|PIKFYVE_uc002vcx.2_Silent_p.F30F	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	30					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						TCACACACTTTAAACCTTTGA	0.388													46	76	---	---	---	---	PASS	C	209136333	C	C	209136333	2	2	98	1	0	0	0	0	0	0	0	1	11924	1751	61	5		5	PIKFYVE	2	209136333	Silent	SNP	T	TCGA-43-3920-01A-01D-0983-08	7110723	209136333	34063040	83	36363										
CHPF	79586	broad.mit.edu	37	chr2	220404600	220404600	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtgtctggcccggccagcagGaacagtgtgtccagcgggtg	17	11	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:220404600G>A	uc002vmc.3	-	4	2060	c.1833C>T	c.(1831-1833)TTC>TTT	p.F611F	CHPF_uc010zlh.1_Silent_p.F449F	NM_024536	NP_078812	Q8IZ52	CHSS2_HUMAN	chondroitin polymerizing factor	611	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity|protein binding				0		Renal(207;0.0183)		Epithelial(149;3.02e-08)|all cancers(144;3.41e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		CGGCCAGCAGGAACAGTGTGT	0.637													28	34	---	---	---	---	PASS	A	220404600	A	A	220404600	2	1	98	1	0	0	0	0	0	0	0	1	3368	1165	41	2		2	CHPF	2	220404600	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	11268267	220404600	22794773	84	36364										
NDUFA10	4705	broad.mit.edu	37	chr2	240960628	240960628	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctgcacctgtggtcagcaagTgctccaaggcatctgagtac	11	12	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr2:240960628T>G	uc002vyn.2	-	3	526	c.446A>C	c.(445-447)CAC>CCC	p.H149P	NDUFA10_uc010fzc.1_Missense_Mutation_p.H149P|NDUFA10_uc002vyo.1_Missense_Mutation_p.H149P|NDUFA10_uc002vyp.2_Missense_Mutation_p.H149P	NM_004544	NP_004535	O95299	NDUAA_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	149					mitochondrial electron transport, NADH to ubiquinone|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transport	mitochondrial matrix|mitochondrial respiratory chain complex I	ATP binding|NADH dehydrogenase (ubiquinone) activity|phosphotransferase activity, alcohol group as acceptor			central_nervous_system(1)	1		all_epithelial(40;4.26e-15)|Breast(86;4.4e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0396)|Lung NSC(271;0.128)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(121;7.82e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.5e-13)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;2.39e-05)|Lung(119;0.00519)|LUSC - Lung squamous cell carcinoma(224;0.0202)	NADH(DB00157)	GGTCAGCAAGTGCTCCAAGGC	0.473											OREG0015348	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	22	---	---	---	---	PASS	G	240960628	G	G	240960628	3	3	98	1	0	0	0	0	1	0	0	0	10260	1696	59	5	653	5	NDUFA10	2	240960628	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	20556028	240960628	2238745	85	36365										
BTD	686	broad.mit.edu	37	chr3	15643402	15643402	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggaaggcgcgctaagagcagGtacggagggggcgtggtgcg	22	7	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:15643402G>A	uc003cah.2	+	1	147	c.44_splice	c.e1+1	p.R15_splice	HACL1_uc011avr.1_5'Flank|HACL1_uc011avs.1_5'Flank|HACL1_uc011avt.1_5'Flank|HACL1_uc003cag.2_5'Flank|HACL1_uc011avu.1_5'Flank|HACL1_uc010hep.2_5'Flank|HACL1_uc003caf.2_5'Flank|BTD_uc011avv.1_Intron|BTD_uc011avw.1_Splice_Site|BTD_uc011avx.1_5'Flank	NM_000060	NP_000051	P43251	BTD_HUMAN	biotinidase precursor						central nervous system development|epidermis development|nitrogen compound metabolic process	extracellular space	biotin carboxylase activity|biotinidase activity				0						CTAAGAGCAGGTACGGAGGGG	0.677													3	5	---	---	---	---	PASS	A	15643402	A	A	15643402	5	1	98	1	0	0	0	0	0	0	1	0	1550	1275	44	3	47	3	BTD	3	15643402	Splice_Site	SNP	G	TCGA-43-3920-01A-01D-0983-08		15643402	182379028	86	36366										
SCN10A	6336	broad.mit.edu	37	chr3	38798202	38798202	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcatctcgagggcctcctggAacttcttctcctttgcttca	8	14	4	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:38798202A>T	uc003ciq.2	-	9	1253	c.1253T>A	c.(1252-1254)TTC>TAC	p.F418Y		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	418					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GGCCTCCTGGAACTTCTTCTC	0.493													50	39	---	---	---	---	PASS	T	38798202	T	T	38798202	3	4	98	1	0	0	0	0	1	0	0	0	13912	246	9	5	4693	5	SCN10A	3	38798202	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	23154800	38798202	159224228	87	36367										
XCR1	2829	broad.mit.edu	37	chr3	46063247	46063247	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gaggatgaagatgttggtgaGggactccaggctctcatact	14	7	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:46063247G>A	uc003cpe.2	-	3	417	c.193C>T	c.(193-195)CTC>TTC	p.L65F	uc003cpd.1_5'Flank|XCR1_uc003cpf.2_Missense_Mutation_p.L65F	NM_005283	NP_005274	P46094	XCR1_HUMAN	XC chemokine receptor 1	65	Cytoplasmic (Potential).				chemotaxis|G-protein signaling, coupled to cyclic nucleotide second messenger|inflammatory response	integral to plasma membrane	chemokine receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		ATGTTGGTGAGGGACTCCAGG	0.587													12	11	---	---	---	---	PASS	A	46063247	A	A	46063247	3	1	98	1	0	0	0	0	1	0	0	0	17422	1000	35	3	812	3	XCR1	3	46063247	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	7265045	46063247	151959183	88	36368										
EPHA3	2042	broad.mit.edu	37	chr3	89528545	89528545	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atattgttttctttttttacAgtgacatgaaaaaggttggt	8	3	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:89528545A>T	uc003dqy.2	+	17	3072	c.2847_splice	c.e17-2	p.D949_splice	EPHA3_uc010hon.1_Splice_Site	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor							extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		CTTTTTTTACAGTGACATGAA	0.383										TSP Lung(6;0.00050)			16	11	---	---	---	---	PASS	T	89528545	T	T	89528545	5	4	98	1	0	0	0	0	0	0	1	0	5168	202	7	5	2937	5	EPHA3	3	89528545	Splice_Site	SNP	A	TCGA-43-3920-01A-01D-0983-08	43465298	89528545	108493885	89	36369										
DZIP3	9666	broad.mit.edu	37	chr3	108363257	108363257	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caaggagttaccgcaatccaAacagtttgacttatgcctcc	7	12	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:108363257A>T	uc003dxd.2	+	14	1810	c.1388A>T	c.(1387-1389)AAA>ATA	p.K463I	DZIP3_uc003dxf.1_Missense_Mutation_p.K463I|DZIP3_uc011bhm.1_Intron|DZIP3_uc003dxe.1_Missense_Mutation_p.K463I|DZIP3_uc003dxg.1_Missense_Mutation_p.K186I	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	463					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCGCAATCCAAACAGTTTGAC	0.423													73	72	---	---	---	---	PASS	T	108363257	T	T	108363257	3	4	98	1	0	0	0	0	1	0	0	0	4865	14	1	5	1438	5	DZIP3	3	108363257	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	18834712	108363257	89659173	90	36370										
FSTL1	11167	broad.mit.edu	37	chr3	120121721	120121721	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	acagcggttacagtccacctCggtctcagctccatctgcat	8	15	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:120121721C>A	uc003eds.2	-	9	914	c.739G>T	c.(739-741)GAG>TAG	p.E247*	FSTL1_uc011bjh.1_Nonsense_Mutation_p.E212*	NM_007085	NP_009016	Q12841	FSTL1_HUMAN	follistatin-like 1 precursor	247	VWFC.				BMP signaling pathway	extracellular space	calcium ion binding|heparin binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.189)		CAGTCCACCTCGGTCTCAGCT	0.532													5	95	---	---	---	---	PASS	A	120121721	A	A	120121721	4	1	98	1	0	0	0	0	0	1	0	0	6077	893	31	2	199	2	FSTL1	3	120121721	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	11758464	120121721	77900709	91	36371										
KALRN	8997	broad.mit.edu	37	chr3	124431836	124431836	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aaagctacccgcaaagatgtGgctgtgaaatttgttagcaa	10	7	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:124431836G>T	uc003ehg.2	+	58	8257	c.8130G>T	c.(8128-8130)GTG>GTT	p.V2710V	KALRN_uc003ehk.2_Silent_p.V1013V	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2709	Protein kinase.				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						GCAAAGATGTGGCTGTGAAAT	0.438													27	31	---	---	---	---	PASS	T	124431836	T	T	124431836	2	4	98	1	0	0	0	0	0	0	0	1	7975	1335	47	3		3	KALRN	3	124431836	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	4310115	124431836	73590594	92	36372										
HEG1	57493	broad.mit.edu	37	chr3	124724179	124724179	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cagttgtattaagaaaagttCtctttaatttaaactctgtc	5	6	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:124724179C>G	uc003ehs.3	-	9	3295	c.3227G>C	c.(3226-3228)AGA>ACA	p.R1076T	HEG1_uc011bke.1_Missense_Mutation_p.R1176T	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	1076	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						AAGAAAAGTTCTCTTTAATTT	0.353													11	19	---	---	---	---	PASS	G	124724179	G	G	124724179	3	3	98	1	0	0	0	0	1	0	0	0	7044	913	32	2	954	2	HEG1	3	124724179	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	292343	124724179	73298251	93	36373										
TMCC1	23023	broad.mit.edu	37	chr3	129389574	129389574	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cgaatgagtgaggcaatctcTctgggctttgagactacagc	12	9	2	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:129389574T>A	uc003emz.3	-	5	1611	c.1110A>T	c.(1108-1110)AGA>AGT	p.R370S	TMCC1_uc003emy.3_Missense_Mutation_p.R46S|TMCC1_uc011blc.1_Missense_Mutation_p.R191S|TMCC1_uc010htg.2_Missense_Mutation_p.R256S	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	370						integral to membrane				skin(1)	1						AGGCAATCTCTCTGGGCTTTG	0.532													40	35	---	---	---	---	PASS	A	129389574	A	A	129389574	3	1	98	1	0	0	0	0	1	0	0	0	15989	1548	54	5	863	5	TMCC1	3	129389574	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	4665395	129389574	68632856	94	36374										
COL6A6	131873	broad.mit.edu	37	chr3	130287403	130287403	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agaattttgacattctgcagCgcattgaagatgatcttgtt	9	6	2	5			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:130287403C>A	uc010htl.2	+	5	2387	c.2356C>A	c.(2356-2358)CGC>AGC	p.R786S		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	786	Nonhelical region.|VWFA 4.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CATTCTGCAGCGCATTGAAGA	0.458													39	48	---	---	---	---	PASS	A	130287403	A	A	130287403	3	1	98	1	0	0	0	0	1	0	0	0	3703	768	27	1	2374	1	COL6A6	3	130287403	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	897829	130287403	67735027	95	36375										
PIK3R4	30849	broad.mit.edu	37	chr3	130452690	130452690	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tatttaagggtctgtaggcaGgatgttataacagataccaa	10	5	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:130452690G>C	uc003enj.2	-	4	1733	c.1152C>G	c.(1150-1152)TCC>TCG	p.S384S		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	384					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						TCTGTAGGCAGGATGTTATAA	0.408													38	141	---	---	---	---	PASS	C	130452690	C	C	130452690	2	2	98	1	0	0	0	0	0	0	0	1	11921	987	35	4		4	PIK3R4	3	130452690	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	165287	130452690	67569740	96	36376										
ATP2C1	27032	broad.mit.edu	37	chr3	130715610	130715610	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	catgcagattttgtggatcaAtattattatggatggacccc	9	7	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:130715610A>G	uc003enl.2	+	24	2435	c.2213A>G	c.(2212-2214)AAT>AGT	p.N738S	ATP2C1_uc011blg.1_Missense_Mutation_p.N772S|ATP2C1_uc011blh.1_Missense_Mutation_p.N733S|ATP2C1_uc011bli.1_Missense_Mutation_p.N772S|ATP2C1_uc003enk.2_Missense_Mutation_p.N722S|ATP2C1_uc003enm.2_Missense_Mutation_p.N738S|ATP2C1_uc003enn.2_Missense_Mutation_p.N722S|ATP2C1_uc003eno.2_Missense_Mutation_p.N738S|ATP2C1_uc003enp.2_Missense_Mutation_p.N738S|ATP2C1_uc003enq.2_Missense_Mutation_p.N738S|ATP2C1_uc003enr.2_Missense_Mutation_p.N738S|ATP2C1_uc003ens.2_Missense_Mutation_p.N738S|ATP2C1_uc003ent.2_Missense_Mutation_p.N738S|ATP2C1_uc003enu.2_Missense_Mutation_p.N416S	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	738	Helical; Name=6; (By similarity).	Calcium 2 (By similarity).			actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	TTGTGGATCAATATTATTATG	0.363									Hailey-Hailey_disease				26	67	---	---	---	---	PASS	G	130715610	G	G	130715610	3	3	98	1	0	0	0	0	1	0	0	0	1143	101	4	5	2303	5	ATP2C1	3	130715610	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	262920	130715610	67306820	97	36377										
TOPBP1	11073	broad.mit.edu	37	chr3	133327499	133327499	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttcaagtcagaaaaaagatgTgtggcctctttaaataaagg	9	5	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:133327499T>A	uc003eps.2	-	27	4437	c.4305A>T	c.(4303-4305)ACA>ACT	p.T1435T		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	1435	BRCT 8.				DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						AAAAAAGATGTGTGGCCTCTT	0.388								Other_conserved_DNA_damage_response_genes					11	64	---	---	---	---	PASS	A	133327499	A	A	133327499	2	1	98	1	0	0	0	0	0	0	0	1	16366	1683	59	5		5	TOPBP1	3	133327499	Silent	SNP	T	TCGA-43-3920-01A-01D-0983-08	2611889	133327499	64694931	98	36378										
KY	339855	broad.mit.edu	37	chr3	134339655	134339655	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aggtcagtgtgggcctcctgGagcaggtcactcaccagttc	13	12	3	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:134339655G>C	uc010hty.2	-	7	590	c.528C>G	c.(526-528)CTC>CTG	p.L176L	KY_uc011blw.1_Silent_p.L176L|KY_uc011blx.1_Silent_p.L155L|KY_uc003eqr.1_5'UTR	NM_178554	NP_848649	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase	176						cytoskeleton|Z disc	peptidase activity			ovary(2)	2						GGGCCTCCTGGAGCAGGTCAC	0.602													9	19	---	---	---	---	PASS	C	134339655	C	C	134339655	2	2	98	1	0	0	0	0	0	0	0	1	8586	1161	41	2		2	KY	3	134339655	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	1012156	134339655	63682775	99	36379										
STAG1	10274	broad.mit.edu	37	chr3	136068095	136068095	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cactgttcacagacattctaTcatcttcacccccagtgact	4	15	5	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:136068095T>G	uc003era.1	-	29	3468	c.3176A>C	c.(3175-3177)GAT>GCT	p.D1059A	STAG1_uc003erb.1_Missense_Mutation_p.D1059A	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	1059					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						AGACATTCTATCATCTTCACC	0.428													42	62	---	---	---	---	PASS	G	136068095	G	G	136068095	3	3	98	1	0	0	0	0	1	0	0	0	15241	1435	50	5	624	5	STAG1	3	136068095	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	1728440	136068095	61954335	100	36380										
TMEM22	80723	broad.mit.edu	37	chr3	136573495	136573495	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgagtgaaatgaaaaaaaaaGggagagctttctttggaacc	11	4	1	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:136573495G>A	uc003erf.3	+	2	407	c.193G>A	c.(193-195)GGG>AGG	p.G65R	TMEM22_uc003erg.3_Missense_Mutation_p.G65R|TMEM22_uc010hub.2_Missense_Mutation_p.G65R	NM_001097600	NP_001091069	Q8TBE7	TMM22_HUMAN	transmembrane protein 22	65						Golgi apparatus|integral to membrane				ovary(1)	1						GAAAAAAAAAGGGAGAGCTTT	0.403													25	94	---	---	---	---	PASS	A	136573495	A	A	136573495	3	1	98	1	0	0	0	0	1	0	0	0	16140	1000	35	3	195	3	TMEM22	3	136573495	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	505400	136573495	61448935	101	36381										
ZIC1	7545	broad.mit.edu	37	chr3	147130317	147130317	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggcaccaggggagaagccctTcaagtgcgagtttgagggct	16	9	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:147130317T>G	uc003ewe.2	+	2	1714	c.995T>G	c.(994-996)TTC>TGC	p.F332C		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	332	C2H2-type 4.				behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GAGAAGCCCTTCAAGTGCGAG	0.473													10	71	---	---	---	---	PASS	G	147130317	G	G	147130317	3	3	98	1	0	0	0	0	1	0	0	0	17675	1783	62	5	1001	5	ZIC1	3	147130317	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	10556822	147130317	50892113	102	36382										
SGEF	26084	broad.mit.edu	37	chr3	153909148	153909148	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aagactgtaggaacttacccAtgatctcttttctcattctc	5	11	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:153909148A>G	uc011bog.1	+	8	1922	c.1711A>G	c.(1711-1713)ATG>GTG	p.M571V	SGEF_uc011boh.1_Missense_Mutation_p.M571V	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	571	DH.				regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			GAACTTACCCATGATCTCTTT	0.463													16	33	---	---	---	---	PASS	G	153909148	G	G	153909148	3	3	98	1	0	0	0	0	1	0	0	0	14205	217	8	5	1737	5	SGEF	3	153909148	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	6778831	153909148	44113282	103	36383										
GPR149	344758	broad.mit.edu	37	chr3	154139080	154139080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctgtccagagagggcgtggtGctgatttctacttttatagc	12	8	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:154139080G>T	uc003faa.2	-	3	1471	c.1371C>A	c.(1369-1371)AGC>AGA	p.S457R		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	457	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			AGGGCGTGGTGCTGATTTCTA	0.408													13	206	---	---	---	---	PASS	T	154139080	T	T	154139080	3	4	98	1	0	0	0	0	1	0	0	0	6654	1310	46	3	832	3	GPR149	3	154139080	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	229932	154139080	43883350	104	36384										
MME	4311	broad.mit.edu	37	chr3	154859822	154859822	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caaatgaaatcatgtcaactGtgaatattagtattacaaat	5	5	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:154859822G>T	uc010hvr.1	+	11	1211	c.1000G>T	c.(1000-1002)GTG>TTG	p.V334L	MME_uc003fab.1_Missense_Mutation_p.V334L|MME_uc003fac.1_Missense_Mutation_p.V334L|MME_uc003fad.1_Missense_Mutation_p.V334L|MME_uc003fae.1_Missense_Mutation_p.V334L	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	334	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	CATGTCAACTGTGAATATTAG	0.363													54	57	---	---	---	---	PASS	T	154859822	T	T	154859822	3	4	98	1	0	0	0	0	1	0	0	0	9645	1377	48	3	1038	3	MME	3	154859822	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	720742	154859822	43162608	105	36385										
MFSD1	64747	broad.mit.edu	37	chr3	158541245	158541245	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gggactctcctactcattgcTtgcctgtgcattgtggccaa	10	12	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:158541245T>C	uc003fcl.1	+	12	1136	c.1106T>C	c.(1105-1107)CTT>CCT	p.L369P	MFSD1_uc003fcm.1_RNA|MFSD1_uc003fcn.1_Missense_Mutation_p.L272P|MFSD1_uc011bow.1_Missense_Mutation_p.L330P|MFSD1_uc011box.1_Missense_Mutation_p.L296P	NM_022736	NP_073573	Q9H3U5	MFSD1_HUMAN	major facilitator superfamily domain containing	369	Helical; (Potential).				transmembrane transport	integral to membrane					0			Lung(72;0.00372)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TACTCATTGCTTGCCTGTGCA	0.428													30	103	---	---	---	---	PASS	C	158541245	C	C	158541245	3	2	98	1	0	0	0	0	1	0	0	0	9527	1609	56	5	1299	5	MFSD1	3	158541245	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	3681423	158541245	39481185	106	36386										
SI	6476	broad.mit.edu	37	chr3	164750383	164750383	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tttccgccactctaacttctGtaacactgtctgtcaaccca	4	15	4	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:164750383G>T	uc003fei.2	-	24	2725	c.2663C>A	c.(2662-2664)ACA>AAA	p.T888K		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	888	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)	TCTAACTTCTGTAACACTGTC	0.348										HNSCC(35;0.089)			24	37	---	---	---	---	PASS	T	164750383	T	T	164750383	3	4	98	1	0	0	0	0	1	0	0	0	14297	1377	48	3	2920	3	SI	3	164750383	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	6209138	164750383	33272047	107	36387										
USP13	8975	broad.mit.edu	37	chr3	179501871	179501871	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgaccacaaagtttgtgcctCagaaaggccccctaaagacc	8	13	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:179501871C>G	uc003fkh.2	+	21	2615	c.2534C>G	c.(2533-2535)TCA>TGA	p.S845*		NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	845					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			GTTTGTGCCTCAGAAAGGCCC	0.398													58	176	---	---	---	---	PASS	G	179501871	G	G	179501871	4	3	98	1	0	0	0	0	0	1	0	0	17041	838	29	2	2616	2	USP13	3	179501871	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	14751488	179501871	18520559	108	36388										
KNG1	3827	broad.mit.edu	37	chr3	186445035	186445035	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aattgtttcaggtggtggctGgattgaactttcgaattacc	11	6	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:186445035G>T	uc011bsa.1	+	5	786	c.574G>T	c.(574-576)GGA>TGA	p.G192*	KNG1_uc003fqr.2_Nonsense_Mutation_p.G192*	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	192	Cystatin 2.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	GGTGGTGGCTGGATTGAACTT	0.368													6	61	---	---	---	---	PASS	T	186445035	T	T	186445035	4	4	98	1	0	0	0	0	0	1	0	0	8427	1349	47	3	592	3	KNG1	3	186445035	Nonsense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	6943164	186445035	11577395	109	36389										
KIAA0226	9711	broad.mit.edu	37	chr3	197427648	197427648	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cctggtcccctaaggaagagGcagcagaatctggcttctgg	13	11	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr3:197427648G>A	uc003fyc.2	-	7	1280	c.1097C>T	c.(1096-1098)GCC>GTC	p.A366V	KIAA0226_uc003fyd.3_Missense_Mutation_p.A306V|KIAA0226_uc003fye.1_Missense_Mutation_p.A73V|KIAA0226_uc003fyf.2_Missense_Mutation_p.A199V|KIAA0226_uc003fyg.2_Missense_Mutation_p.A359V	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	366	Ser-rich.				autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		TAAGGAAGAGGCAGCAGAATC	0.597													14	37	---	---	---	---	PASS	A	197427648	A	A	197427648	3	1	98	1	0	0	0	0	1	0	0	0	8162	1203	42	3	1926	3	KIAA0226	3	197427648	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	10982613	197427648	594782	110	36390										
PDE6B	5158	broad.mit.edu	37	chr4	656969	656969	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtttgggaagttcctgctctCggaggaggttggtatactca	14	7	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:656969C>A	uc003gap.2	+	15	1966	c.1913C>A	c.(1912-1914)TCG>TAG	p.S638*	PDE6B_uc003gao.3_Nonsense_Mutation_p.S638*|PDE6B_uc011buy.1_Nonsense_Mutation_p.S359*|PDE6B_uc011buz.1_Nonsense_Mutation_p.S70*	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	638					cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						TTCCTGCTCTCGGAGGAGGTT	0.617													3	21	---	---	---	---	PASS	A	656969	A	A	656969	4	1	98	1	0	0	0	0	0	1	0	0	11646	893	31	2	1971	2	PDE6B	4	656969	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08		656969	190497307	111	36391										
RGS12	6002	broad.mit.edu	37	chr4	3318706	3318706	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggcagagcagaaaatccactCgctggtgaccatgaagatca	11	10	1	5			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:3318706C>A	uc003ggw.2	+	2	1713	c.809C>A	c.(808-810)TCG>TAG	p.S270*	RGS12_uc003ggu.2_Nonsense_Mutation_p.S270*|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Nonsense_Mutation_p.S270*|RGS12_uc003ggx.1_Nonsense_Mutation_p.S270*	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	270	PID.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		AAAATCCACTCGCTGGTGACC	0.617													3	27	---	---	---	---	PASS	A	3318706	A	A	3318706	4	1	98	1	0	0	0	0	0	1	0	0	13295	893	31	2	811	2	RGS12	4	3318706	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	2661737	3318706	187835570	112	36392										
FGFBP2	83888	broad.mit.edu	37	chr4	15964609	15964609	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ccagcaccttgccccaagctGctgggacgcatagtgcagga	12	14	0	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:15964609G>C	uc003gon.2	-	1	251	c.144C>G	c.(142-144)AGC>AGG	p.S48R		NM_031950	NP_114156	Q9BYJ0	FGFP2_HUMAN	killer-specific secretory protein of 37 kDa	48						extracellular space	growth factor binding				0						GCCCCAAGCTGCTGGGACGCA	0.592													11	32	---	---	---	---	PASS	C	15964609	C	C	15964609	3	2	98	1	0	0	0	0	1	0	0	0	5861	1310	46	4	531	4	FGFBP2	4	15964609	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	12645903	15964609	175189667	113	36393										
SLIT2	9353	broad.mit.edu	37	chr4	20533630	20533630	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tctcaataataatgaatttaCcgtgttggaagccacaggaa	8	7	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:20533630C>T	uc003gpr.1	+	17	1841	c.1637C>T	c.(1636-1638)ACC>ATC	p.T546I	SLIT2_uc003gps.1_Missense_Mutation_p.T538I	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	546	LRR 12.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						AATGAATTTACCGTGTTGGAA	0.299													14	31	---	---	---	---	PASS	T	20533630	T	T	20533630	3	4	98	1	0	0	0	0	1	0	0	0	14740	507	18	3	1703	3	SLIT2	4	20533630	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	4569021	20533630	170620646	114	36394										
SEL1L3	23231	broad.mit.edu	37	chr4	25821452	25821452	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcttcttgtctctcgcccccGtgctttgctgcagatgcata	9	14	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:25821452G>A	uc003gru.3	-	8	1553	c.1401C>T	c.(1399-1401)CAC>CAT	p.H467H		NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	467						integral to membrane	binding				0						TCTCGCCCCCGTGCTTTGCTG	0.433													12	33	---	---	---	---	PASS	A	25821452	A	A	25821452	2	1	98	1	0	0	0	0	0	0	0	1	14012	1136	40	1		1	SEL1L3	4	25821452	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	5287822	25821452	165332824	115	36395										
LNX1	84708	broad.mit.edu	37	chr4	54327114	54327114	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aagaaacaatagttagagtaAttcttcctttaagttctttc	5	6	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:54327114A>G	uc003hag.3	-	11	2403	c.2147T>C	c.(2146-2148)ATT>ACT	p.I716T	PDGFRA_uc003haa.2_Intron|LNX1_uc003haf.3_Missense_Mutation_p.I620T|LNX1_uc003hah.3_RNA	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	716	PDZ 4.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			AGTTAGAGTAATTCTTCCTTT	0.363													27	54	---	---	---	---	PASS	G	54327114	G	G	54327114	3	3	98	1	0	0	0	0	1	0	0	0	8865	101	4	5	43	5	LNX1	4	54327114	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	28505662	54327114	136827162	116	36396										
PPAT	5471	broad.mit.edu	37	chr4	57261688	57261688	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agatgaaaccagtccttctaCtgacagatacacaacactgt	6	11	1	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:57261688C>T	uc003hbr.2	-	11	1586	c.1384G>A	c.(1384-1386)GTA>ATA	p.V462I		NM_002703	NP_002694	Q06203	PUR1_HUMAN	phosphoribosyl pyrophosphate amidotransferase	462					glutamine metabolic process|nucleoside metabolic process|purine base biosynthetic process|purine ribonucleoside monophosphate biosynthetic process	cytosol	4 iron, 4 sulfur cluster binding|amidophosphoribosyltransferase activity|metal ion binding				0	Glioma(25;0.08)|all_neural(26;0.101)				L-Glutamine(DB00130)|Thioguanine(DB00352)	AGTCCTTCTACTGACAGATAC	0.343													16	36	---	---	---	---	PASS	T	57261688	T	T	57261688	3	4	98	1	0	0	0	0	1	0	0	0	12302	565	20	3	173	3	PPAT	4	57261688	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	2934574	57261688	133892588	117	36397										
GK2	2712	broad.mit.edu	37	chr4	80328018	80328018	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caggcataaagggttttattActggaatatgaagaatatct	9	4	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:80328018A>G	uc003hlu.2	-	1	1355	c.1337T>C	c.(1336-1338)GTA>GCA	p.V446A		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	446					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						GGGTTTTATTACTGGAATATG	0.473													4	43	---	---	---	---	PASS	G	80328018	G	G	80328018	3	3	98	1	0	0	0	0	1	0	0	0	6421	391	14	5	328	5	GK2	4	80328018	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	23066330	80328018	110826258	118	36398										
UNC5C	8633	broad.mit.edu	37	chr4	96163623	96163623	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cagttcttggattgcaagacGaggccgtcgcagtccttgcc	12	12	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:96163623G>T	uc003htp.1	-	7	1219	c.1065C>A	c.(1063-1065)CTC>CTA	p.L355L	UNC5C_uc010ilc.1_Silent_p.L355L|UNC5C_uc003htq.2_Silent_p.L355L	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	355	Extracellular (Potential).|TSP type-1 2.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		ATTGCAAGACGAGGCCGTCGC	0.552													15	11	---	---	---	---	PASS	T	96163623	T	T	96163623	2	4	98	1	0	0	0	0	0	0	0	1	16990	1045	37	2		2	UNC5C	4	96163623	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	15835605	96163623	94990653	119	36399										
NPNT	255743	broad.mit.edu	37	chr4	106888366	106888366	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tggacaatatctgacagtgtCggcagccaaagccccagggg	13	11	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:106888366C>A	uc003hya.2	+	11	1572	c.1367C>A	c.(1366-1368)TCG>TAG	p.S456*	NPNT_uc011cfc.1_Nonsense_Mutation_p.S473*|NPNT_uc011cfd.1_Nonsense_Mutation_p.S486*|NPNT_uc011cfe.1_Nonsense_Mutation_p.S457*|NPNT_uc010ilt.1_Nonsense_Mutation_p.S427*|NPNT_uc011cff.1_Nonsense_Mutation_p.S427*|NPNT_uc010ilu.1_Intron	NM_001033047	NP_001028219	Q6UXI9	NPNT_HUMAN	nephronectin precursor	456	MAM.				cell differentiation	membrane	calcium ion binding			skin(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.41e-07)		CTGACAGTGTCGGCAGCCAAA	0.537													3	19	---	---	---	---	PASS	A	106888366	A	A	106888366	4	1	98	1	0	0	0	0	0	1	0	0	10590	893	31	2	1558	2	NPNT	4	106888366	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	10724743	106888366	84265910	120	36400										
HPGD	3248	broad.mit.edu	37	chr4	175414319	175414319	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tactccaaaattccatagtaTttaatcatatccttgatatg	3	8	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:175414319T>C	uc003itu.2	-	6	835	c.645A>G	c.(643-645)AAA>AAG	p.K215K	HPGD_uc003itt.2_Silent_p.K82K|HPGD_uc003itv.2_Intron|HPGD_uc011ckf.1_Silent_p.K94K|HPGD_uc010irp.2_Silent_p.K94K|HPGD_uc010irq.2_Intron|HPGD_uc011ckg.1_Silent_p.K147K|HPGD_uc011ckh.1_Silent_p.K94K	NM_000860	NP_000851	P15428	PGDH_HUMAN	hydroxyprostaglandin dehydrogenase 15-(NAD)	215					female pregnancy|lipoxygenase pathway|negative regulation of cell cycle|parturition|prostaglandin metabolic process|transforming growth factor beta receptor signaling pathway	cytosol|nucleus	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|NAD+ binding|prostaglandin E receptor activity|protein homodimerization activity				0		Prostate(90;0.00763)|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;2.6e-18)|Epithelial(43;4.19e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.23e-09)|GBM - Glioblastoma multiforme(59;0.00176)|STAD - Stomach adenocarcinoma(60;0.00299)|LUSC - Lung squamous cell carcinoma(193;0.0253)	NADH(DB00157)	TTCCATAGTATTTAATCATAT	0.289													6	10	---	---	---	---	PASS	C	175414319	C	C	175414319	2	2	98	1	0	0	0	0	0	0	0	1	7334	1490	52	5		5	HPGD	4	175414319	Silent	SNP	T	TCGA-43-3920-01A-01D-0983-08	68525953	175414319	15739957	121	36401										
SPCS3	60559	broad.mit.edu	37	chr4	177241318	177241318	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcggctgcttcatcaccaccGccttcaaagacaggagcgtc	9	15	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:177241318G>C	uc003iur.3	+	1	229	c.91G>C	c.(91-93)GCC>CCC	p.A31P		NM_021928	NP_068747	P61009	SPCS3_HUMAN	signal peptidase complex subunit 3	31	Helical; Signal-anchor for type II membrane protein; (Potential).				energy reserve metabolic process|regulation of insulin secretion|signal peptide processing	integral to membrane|microsome|signal peptidase complex	peptidase activity			ovary(1)	1		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.43e-19)|Epithelial(43;1.84e-16)|OV - Ovarian serous cystadenocarcinoma(60;4.51e-09)|GBM - Glioblastoma multiforme(59;0.000142)|STAD - Stomach adenocarcinoma(60;0.00279)|LUSC - Lung squamous cell carcinoma(193;0.0319)		CATCACCACCGCCTTCAAAGA	0.502													11	20	---	---	---	---	PASS	C	177241318	C	C	177241318	3	2	98	1	0	0	0	0	1	0	0	0	15024	1087	38	4	93	4	SPCS3	4	177241318	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	1826999	177241318	13912958	122	36402										
ODZ3	55714	broad.mit.edu	37	chr4	183675635	183675635	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tttacagatcactgaaaatcGtcaagttcgcattgctgctg	8	9	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr4:183675635G>T	uc003ivd.1	+	21	4152	c.4115G>T	c.(4114-4116)CGT>CTT	p.R1372L	ODZ3_uc003ive.1_Missense_Mutation_p.R785L	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1372	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		ACTGAAAATCGTCAAGTTCGC	0.493													13	9	---	---	---	---	PASS	T	183675635	T	T	183675635	3	4	98	1	0	0	0	0	1	0	0	0	10836	1145	40	1	4197	1	ODZ3	4	183675635	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	6434317	183675635	7478641	123	36403										
SLC6A3	6531	broad.mit.edu	37	chr5	1432624	1432624	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcccaaaagtgtcgttgaggCccgagctgtctccactggag	12	12	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr5:1432624C>A	uc003jck.2	-	4	729	c.608G>T	c.(607-609)GGC>GTC	p.G203V		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	203	Extracellular (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	GTCGTTGAGGCCCGAGCTGTC	0.612													4	44	---	---	---	---	PASS	A	1432624	A	A	1432624	3	1	98	1	0	0	0	0	1	0	0	0	14685	739	26	3	1302	3	SLC6A3	5	1432624	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08		1432624	179482636	124	36404										
DNAH5	1767	broad.mit.edu	37	chr5	13716740	13716740	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctcttatcatagtcgtcagtGactctgcctccatattgaat	6	11	4	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr5:13716740G>A	uc003jfd.2	-	74	12807	c.12765C>T	c.(12763-12765)GTC>GTT	p.V4255V	DNAH5_uc003jfc.2_Silent_p.V423V	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4255					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGTCGTCAGTGACTCTGCCTC	0.388									Kartagener_syndrome				20	44	---	---	---	---	PASS	A	13716740	A	A	13716740	2	1	98	1	0	0	0	0	0	0	0	1	4604	1277	45	2		2	DNAH5	5	13716740	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	12284116	13716740	167198520	125	36405										
FAM134B	54463	broad.mit.edu	37	chr5	16475279	16475279	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcatcatttgttcccatgccAttttctagagatggaaaatc	6	9	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr5:16475279A>G	uc003jfs.2	-	9	1103	c.1065T>C	c.(1063-1065)AAT>AAC	p.N355N	FAM134B_uc003jfr.2_Silent_p.N214N	NM_001034850	NP_001030022	Q9H6L5	F134B_HUMAN	hypothetical protein LOC54463 isoform 1	355					sensory perception of pain	cis-Golgi network|endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3						TTCCCATGCCATTTTCTAGAG	0.428													39	46	---	---	---	---	PASS	G	16475279	G	G	16475279	2	3	98	1	0	0	0	0	0	0	0	1	5446	214	8	5		5	FAM134B	5	16475279	Silent	SNP	A	TCGA-43-3920-01A-01D-0983-08	2758539	16475279	164439981	126	36406										
PRDM9	56979	broad.mit.edu	37	chr5	23510030	23510030	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aatttttgcttcttttcaggTctcagagccactcgaccagc	7	12	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr5:23510030T>C	uc003jgo.2	+	4	377	c.195T>C	c.(193-195)GGT>GGC	p.G65G		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	65	KRAB-related.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						TCTTTTCAGGTCTCAGAGCCA	0.488										HNSCC(3;0.000094)			29	46	---	---	---	---	PASS	C	23510030	C	C	23510030	2	2	98	1	0	0	0	0	0	0	0	1	12463	1681	58	5		5	PRDM9	5	23510030	Silent	SNP	T	TCGA-43-3920-01A-01D-0983-08	7034751	23510030	157405230	127	36407										
PRDM9	56979	broad.mit.edu	37	chr5	23526702	23526702	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agaagagtccagaacaggccAgaaagtgaatccagggaaca	12	8	0	5			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr5:23526702A>T	uc003jgo.2	+	11	1687	c.1505A>T	c.(1504-1506)CAG>CTG	p.Q502L		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	502					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AGAACAGGCCAGAAAGTGAAT	0.453										HNSCC(3;0.000094)			29	55	---	---	---	---	PASS	T	23526702	T	T	23526702	3	4	98	1	0	0	0	0	1	0	0	0	12463	188	7	5	1543	5	PRDM9	5	23526702	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	16672	23526702	157388558	128	36408										
CDH6	1004	broad.mit.edu	37	chr5	31299570	31299570	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcttaaatttcacatccacaGgtattatcaagacagctttg	5	9	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr5:31299570G>T	uc003jhe.1	+	5	970	c.644_splice	c.e5-1	p.G215_splice	CDH6_uc003jhd.1_Splice_Site_p.G215_splice	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						CACATCCACAGGTATTATCAA	0.338													6	102	---	---	---	---	PASS	T	31299570	T	T	31299570	5	4	98	1	0	0	0	0	0	0	1	0	3114	1014	35	3	657	3	CDH6	5	31299570	Splice_Site	SNP	G	TCGA-43-3920-01A-01D-0983-08	7772868	31299570	149615690	129	36409										
HSPA9	3313	broad.mit.edu	37	chr5	137895598	137895598	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtattcctattaataagtttGgtaaagacacctcctagagt	7	7	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr5:137895598G>T	uc003ldf.2	-	11	1473	c.1365C>A	c.(1363-1365)ACC>ACA	p.T455T	HSPA9_uc003lde.2_5'Flank|HSPA9_uc011cyw.1_Silent_p.T386T	NM_004134	NP_004125	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 precursor	455					anti-apoptosis|protein folding	cell surface|mitochondrial nucleoid	ATP binding|unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TAATAAGTTTGGTAAAGACAC	0.478													4	29	---	---	---	---	PASS	T	137895598	T	T	137895598	2	4	98	1	0	0	0	0	0	0	0	1	7417	1335	47	3		3	HSPA9	5	137895598	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	106596028	137895598	43019662	130	36410										
PSD2	84249	broad.mit.edu	37	chr5	139193044	139193044	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gatgagagcgacagctgcgtCagcttcgaggcccccctcac	12	15	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr5:139193044C>T	uc003leu.1	+	3	727	c.522C>T	c.(520-522)GTC>GTT	p.V174V		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	174					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAGCTGCGTCAGCTTCGAGG	0.652													13	6	---	---	---	---	PASS	T	139193044	T	T	139193044	2	4	98	1	0	0	0	0	0	0	0	1	12647	813	29	2		2	PSD2	5	139193044	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	1297446	139193044	41722216	131	36411										
PCDHA2	56146	broad.mit.edu	37	chr5	140176083	140176083	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cgagctacgtttcggtgcacGcggagagcggcaaggtgtac	16	10	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr5:140176083G>A	uc003lhd.2	+	1	1640	c.1534G>A	c.(1534-1536)GCG>ACG	p.A512T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.A512T|PCDHA2_uc011czy.1_Missense_Mutation_p.A512T	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	512	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCGGTGCACGCGGAGAGCGG	0.697													16	25	---	---	---	---	PASS	A	140176083	A	A	140176083	3	1	98	1	0	0	0	0	1	0	0	0	11524	1087	38	1	1536	1	PCDHA2	5	140176083	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	983039	140176083	40739177	132	36412										
HAVCR1	26762	broad.mit.edu	37	chr5	156482466	156482466	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tattccagcacatggatgtgAcagctccactgtagtggcag	11	10	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr5:156482466A>G	uc010jij.1	-	3	310	c.125T>C	c.(124-126)GTC>GCC	p.V42A	HAVCR1_uc011ddl.1_5'Flank|HAVCR1_uc003lwi.2_Missense_Mutation_p.V42A|HAVCR1_uc011ddm.1_Missense_Mutation_p.V42A	NM_001099414	NP_001092884	Q96D42	HAVR1_HUMAN	hepatitis A virus cellular receptor 1	42	Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms	integral to membrane	receptor activity			ovary(1)|skin(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CATGGATGTGACAGCTCCACT	0.483													6	4	---	---	---	---	PASS	G	156482466	G	G	156482466	3	3	98	1	0	0	0	0	1	0	0	0	6973	275	10	5	997	5	HAVCR1	5	156482466	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	16306383	156482466	24432794	133	36413										
HIST1H2BA	255626	broad.mit.edu	37	chr6	25727146	25727146	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtgtggtagctatgccggagGtgtcatctaaaggtgctacc	14	8	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:25727146G>A	uc003nfd.2	+	1	10	c.10G>A	c.(10-12)GTG>ATG	p.V4M	HIST1H2AA_uc003nfc.2_5'Flank	NM_170610	NP_733759	Q96A08	H2B1A_HUMAN	histone cluster 1, H2ba	4					nucleosome assembly	nucleosome|nucleus	DNA binding			kidney(1)	1						TATGCCGGAGGTGTCATCTAA	0.473													25	36	---	---	---	---	PASS	A	25727146	A	A	25727146	3	1	98	1	0	0	0	0	1	0	0	0	7140	1261	44	3	12	3	HIST1H2BA	6	25727146	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08		25727146	145387921	134	36414										
SLC17A4	10050	broad.mit.edu	37	chr6	25770337	25770337	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctgaaatccagggaatcatcCtcagctccctcaactatggc	7	14	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:25770337C>G	uc003nfe.2	+	4	459	c.340C>G	c.(340-342)CTC>GTC	p.L114V	SLC17A4_uc011djx.1_Intron|SLC17A4_uc003nff.1_Intron|SLC17A4_uc003nfg.2_Missense_Mutation_p.L51V	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),	114					phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						GGGAATCATCCTCAGCTCCCT	0.458													37	77	---	---	---	---	PASS	G	25770337	G	G	25770337	3	3	98	1	0	0	0	0	1	0	0	0	14419	681	24	4	350	4	SLC17A4	6	25770337	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	43191	25770337	145344730	135	36415										
DEF6	50619	broad.mit.edu	37	chr6	35280413	35280413	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cggctggcagggctacctgtGgaagcgagggcacctgagaa	17	10	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:35280413G>T	uc003okk.2	+	5	710	c.671G>T	c.(670-672)TGG>TTG	p.W224L	DEF6_uc010jvs.2_Missense_Mutation_p.W224L|DEF6_uc010jvt.2_Intron	NM_022047	NP_071330	Q9H4E7	DEFI6_HUMAN	differentially expressed in FDCP 6 homolog	224	PH.					cytoplasm|nucleus|plasma membrane					0						GGCTACCTGTGGAAGCGAGGG	0.612													8	9	---	---	---	---	PASS	T	35280413	T	T	35280413	3	4	98	1	0	0	0	0	1	0	0	0	4386	1357	47	3	689	3	DEF6	6	35280413	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	9510076	35280413	135834654	136	36416										
DNAH8	1769	broad.mit.edu	37	chr6	38939383	38939383	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tacagaatgtagaactatctCaatggggcaaggacaagaag	11	6	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:38939383C>A	uc003ooe.1	+	81	12416	c.11816C>A	c.(11815-11817)TCA>TAA	p.S3939*	DNAH8_uc003oog.1_Nonsense_Mutation_p.S388*	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AGAACTATCTCAATGGGGCAA	0.378													6	90	---	---	---	---	PASS	A	38939383	A	A	38939383	4	1	98	1	0	0	0	0	0	1	0	0	4607	838	29	2	12130	2	DNAH8	6	38939383	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	3658970	38939383	132175684	137	36417										
PKHD1	5314	broad.mit.edu	37	chr6	51907930	51907930	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aatcattaggttgatgtcacCatcttaaaggagaaaagaaa	8	5	3	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:51907930C>G	uc003pah.1	-	27	3100	c.2824G>C	c.(2824-2826)GGT>CGT	p.G942R	PKHD1_uc003pai.2_Missense_Mutation_p.G942R	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	942	IPT/TIG 4.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TTGATGTCACCATCTTAAAGG	0.343													6	9	---	---	---	---	PASS	G	51907930	G	G	51907930	3	3	98	1	0	0	0	0	1	0	0	0	11971	594	21	4	9603	4	PKHD1	6	51907930	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	12968547	51907930	119207137	138	36418										
GSTA1	2938	broad.mit.edu	37	chr6	52656747	52656747	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gctgtagaaacttcttcactGtgggcaggttgctgattctg	12	8	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:52656747G>T	uc003paz.2	-	7	690	c.578C>A	c.(577-579)ACA>AAA	p.T193K		NM_145740	NP_665683	P08263	GSTA1_HUMAN	glutathione S-transferase alpha 1	193	GST C-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.118)				Amsacrine(DB00276)|Busulfan(DB01008)|Glutathione(DB00143)	CTTCTTCACTGTGGGCAGGTT	0.473													8	87	---	---	---	---	PASS	T	52656747	T	T	52656747	3	4	98	1	0	0	0	0	1	0	0	0	6830	1377	48	3	94	3	GSTA1	6	52656747	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	748817	52656747	118458320	139	36419										
RIMS1	22999	broad.mit.edu	37	chr6	72967848	72967848	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	taggctataggtctagtgctAgagaaagtaaatctacaaca	9	6	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:72967848A>G	uc003pga.2	+	17	2868	c.2791A>G	c.(2791-2793)AGA>GGA	p.R931G	RIMS1_uc011dyb.1_Missense_Mutation_p.R556G|RIMS1_uc003pgc.2_Missense_Mutation_p.R557G|RIMS1_uc010kaq.2_Missense_Mutation_p.R404G|RIMS1_uc011dyc.1_Missense_Mutation_p.R405G|RIMS1_uc010kar.2_Missense_Mutation_p.R324G|RIMS1_uc011dyd.1_Missense_Mutation_p.R390G|RIMS1_uc003pgf.2_Missense_Mutation_p.R147G|RIMS1_uc003pgg.2_Missense_Mutation_p.R148G|RIMS1_uc003pgi.2_Missense_Mutation_p.R147G|RIMS1_uc003pgh.2_Missense_Mutation_p.R147G|RIMS1_uc003pgd.2_Missense_Mutation_p.R148G|RIMS1_uc003pge.2_Missense_Mutation_p.R148G|RIMS1_uc011dye.1_5'UTR|RIMS1_uc011dyf.1_5'Flank|RIMS1_uc003pgb.3_Missense_Mutation_p.R557G|RIMS1_uc010kas.1_Missense_Mutation_p.R390G	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	931					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)				GTCTAGTGCTAGAGAAAGTAA	0.373													14	27	---	---	---	---	PASS	G	72967848	G	G	72967848	3	3	98	1	0	0	0	0	1	0	0	0	13367	412	15	5	3020	5	RIMS1	6	72967848	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	20311101	72967848	98147219	140	36420										
KIAA1009	22832	broad.mit.edu	37	chr6	84865148	84865148	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgtatttttatccactgtatCaccagctgctgatgcagcca	7	11	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:84865148C>A	uc010kbp.2	-	22	2960	c.2863G>T	c.(2863-2865)GAT>TAT	p.D955Y	KIAA1009_uc003pkj.3_Missense_Mutation_p.D879Y|KIAA1009_uc003pki.3_Missense_Mutation_p.D341Y	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	955	Potential.				cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		TCCACTGTATCACCAGCTGCT	0.363													13	23	---	---	---	---	PASS	A	84865148	A	A	84865148	3	1	98	1	0	0	0	0	1	0	0	0	8203	826	29	2	1372	2	KIAA1009	6	84865148	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	11897300	84865148	86249919	141	36421										
HACE1	57531	broad.mit.edu	37	chr6	105281021	105281021	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aaggtcatggagtagttctgTccgcccattcacagccagcc	10	13	3	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:105281021T>C	uc003pqu.1	-	6	707	c.430A>G	c.(430-432)ACA>GCA	p.T144A	HACE1_uc010kcy.1_5'UTR|HACE1_uc010kcz.1_Missense_Mutation_p.T144A	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	144	ANK 3.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		AGTAGTTCTGTCCGCCCATTC	0.423													10	56	---	---	---	---	PASS	C	105281021	C	C	105281021	3	2	98	1	0	0	0	0	1	0	0	0	6940	1667	58	5	2375	5	HACE1	6	105281021	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	20415873	105281021	65834046	142	36422										
ARMC2	84071	broad.mit.edu	37	chr6	109175566	109175566	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agtgcagaaatcataagtgaAgcaagaaatgcattaagaac	9	5	1	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:109175566A>G	uc003pss.3	+	2	270	c.96A>G	c.(94-96)GAA>GAG	p.E32E	ARMC2_uc011eao.1_5'UTR	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	32							binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)		TCATAAGTGAAGCAAGAAATG	0.393													41	60	---	---	---	---	PASS	G	109175566	G	G	109175566	2	3	98	1	0	0	0	0	0	0	0	1	951	69	3	5		5	ARMC2	6	109175566	Silent	SNP	A	TCGA-43-3920-01A-01D-0983-08	3894545	109175566	61939501	143	36423										
SESN1	27244	broad.mit.edu	37	chr6	109415214	109415214	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atgttttccaatgctgtctcCctagtagttgaatctctgct	7	10	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:109415214C>A	uc003psu.2	-	1	74	c.63G>T	c.(61-63)AGG>AGT	p.R21S	C6orf182_uc003psv.3_5'Flank|C6orf182_uc003psw.3_5'Flank|C6orf182_uc010kdk.2_5'Flank|C6orf182_uc003psx.3_5'Flank|C6orf182_uc010kdl.2_5'Flank	NM_014454	NP_055269	Q9Y6P5	SESN1_HUMAN	sestrin 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell cycle arrest|negative regulation of cell proliferation|response to DNA damage stimulus	nucleus				ovary(1)	1		all_cancers(87;6.45e-05)|Acute lymphoblastic leukemia(125;3.55e-10)|all_hematologic(75;1.68e-07)|all_epithelial(87;0.0106)|Colorectal(196;0.0637)		Epithelial(106;0.0014)|BRCA - Breast invasive adenocarcinoma(108;0.00146)|all cancers(137;0.0031)|OV - Ovarian serous cystadenocarcinoma(136;0.0117)		ATGCTGTCTCCCTAGTAGTTG	0.443													7	127	---	---	---	---	PASS	A	109415214	A	A	109415214	3	1	98	1	0	0	0	0	1	0	0	0	14124	622	22	3	1632	3	SESN1	6	109415214	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	239648	109415214	61699853	144	36424										
MICAL1	64780	broad.mit.edu	37	chr6	109769511	109769511	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggcctgtgcagacaccaccgGtgtgatgcccagctcattct	11	14	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:109769511G>T	uc003ptj.2	-	12	2004	c.1750C>A	c.(1750-1752)CCG>ACG	p.P584T	MICAL1_uc003ptk.2_Missense_Mutation_p.P584T|MICAL1_uc010kdr.2_Missense_Mutation_p.P498T|MICAL1_uc011eaq.1_Missense_Mutation_p.P603T	NM_022765	NP_073602	Q8TDZ2	MICA1_HUMAN	microtubule associated monoxygenase, calponin	584	CH.				cytoskeleton organization|signal transduction	cytoplasm|intermediate filament	SH3 domain binding|zinc ion binding			breast(2)|ovary(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		GACACCACCGGTGTGATGCCC	0.607													15	100	---	---	---	---	PASS	T	109769511	T	T	109769511	3	4	98	1	0	0	0	0	1	0	0	0	9569	1261	44	3	1505	3	MICAL1	6	109769511	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	354297	109769511	61345556	145	36425										
DDO	8528	broad.mit.edu	37	chr6	110736689	110736689	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cctgtctctgaaaaagcagtCttggaagccaccaaaatctc	7	12	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:110736689C>A	uc003puc.2	-	1	65	c.61G>T	c.(61-63)GAC>TAC	p.D21Y	DDO_uc003pud.2_Missense_Mutation_p.D21Y	NM_003649	NP_003640	Q99489	OXDD_HUMAN	D-aspartate oxidase isoform a	Error:Variant_position_missing_in_Q99489_after_alignment					aspartate catabolic process	peroxisome	binding|D-amino-acid oxidase activity|D-aspartate oxidase activity			ovary(2)|breast(1)	3		all_cancers(87;3.47e-21)|all_epithelial(87;9.03e-20)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_lung(197;2.98e-05)|Lung NSC(302;3.25e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.00327)		all cancers(137;2.54e-48)|Epithelial(106;3.11e-44)|OV - Ovarian serous cystadenocarcinoma(136;2.08e-24)|BRCA - Breast invasive adenocarcinoma(108;0.000141)|GBM - Glioblastoma multiforme(226;0.00046)		AAAAAGCAGTCTTGGAAGCCA	0.507													16	36	---	---	---	---	PASS	A	110736689	A	A	110736689	3	1	98	1	0	0	0	0	1	0	0	0	4334	913	32	2	1068	2	DDO	6	110736689	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	967178	110736689	60378378	146	36426										
CLVS2	134829	broad.mit.edu	37	chr6	123318999	123318999	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gctcaatgaaaacccagacaCgctgcaccaggacatccagg	9	14	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:123318999C>A	uc003pzi.1	+	2	946	c.77C>A	c.(76-78)ACG>AAG	p.T26K		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	26					lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						AACCCAGACACGCTGCACCAG	0.547													27	43	---	---	---	---	PASS	A	123318999	A	A	123318999	3	1	98	1	0	0	0	0	1	0	0	0	3572	536	19	1	79	1	CLVS2	6	123318999	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	12582310	123318999	47796068	147	36427										
THEMIS	387357	broad.mit.edu	37	chr6	128134270	128134270	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agtcatattcaagcggcccaCaggaatttcccagcactccg	8	14	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:128134270C>A	uc003qbi.2	-	5	1835	c.1516G>T	c.(1516-1518)GTG>TTG	p.V506L	THEMIS_uc010kfa.2_Missense_Mutation_p.V409L|THEMIS_uc011ebt.1_Missense_Mutation_p.V506L|THEMIS_uc010kfb.2_Missense_Mutation_p.V471L	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	506	CABIT 2.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						AAGCGGCCCACAGGAATTTCC	0.478													20	38	---	---	---	---	PASS	A	128134270	A	A	128134270	3	1	98	1	0	0	0	0	1	0	0	0	15857	478	17	3	542	3	THEMIS	6	128134270	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	4815271	128134270	42980797	148	36428										
GRM1	2911	broad.mit.edu	37	chr6	146673571	146673571	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tggacttcctcatcaagtccTcattcattggagtatctgga	8	10	5	0	rs151255685		TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:146673571T>A	uc010khw.1	+	5	1842	c.1372T>A	c.(1372-1374)TCA>ACA	p.S458T	GRM1_uc010khv.1_Missense_Mutation_p.S458T|GRM1_uc003qll.2_Missense_Mutation_p.S458T|GRM1_uc011edz.1_Missense_Mutation_p.S458T|GRM1_uc011eea.1_Missense_Mutation_p.S458T	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	458	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CATCAAGTCCTCATTCATTGG	0.522													15	144	---	---	---	---	PASS	A	146673571	A	A	146673571	3	1	98	1	0	0	0	0	1	0	0	0	6796	1551	54	5	1386	5	GRM1	6	146673571	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	18539301	146673571	24441496	149	36429										
C6orf97	80129	broad.mit.edu	37	chr6	151859208	151859208	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cctccgatccaagatgctttCtaaagaagtctcctgtcaag	7	12	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:151859208C>T	uc003qol.2	+	3	304	c.215C>T	c.(214-216)TCT>TTT	p.S72F		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	72	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		AAGATGCTTTCTAAAGAAGTC	0.353													31	48	---	---	---	---	PASS	T	151859208	T	T	151859208	3	4	98	1	0	0	0	0	1	0	0	0	2374	913	32	2	225	2	C6orf97	6	151859208	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	5185637	151859208	19255859	150	36430										
SYNE1	23345	broad.mit.edu	37	chr6	152949431	152949431	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgcatcacattggcgatatcCcgaggacaccgggaggcccc	12	14	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:152949431C>A	uc010kiw.2	-	3	638	c.36G>T	c.(34-36)CGG>CGT	p.R12R	SYNE1_uc003qot.3_Silent_p.R12R|SYNE1_uc003qou.3_Silent_p.R12R|SYNE1_uc010kjb.1_Silent_p.R12R|SYNE1_uc003qpa.1_Silent_p.R12R	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	12	Actin-binding.|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)		TGGCGATATCCCGAGGACACC	0.502										HNSCC(10;0.0054)			17	52	---	---	---	---	PASS	A	152949431	A	A	152949431	2	1	98	1	0	0	0	0	0	0	0	1	15442	610	22	3		3	SYNE1	6	152949431	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	1090223	152949431	18165636	151	36431										
ARID1B	57492	broad.mit.edu	37	chr6	157521975	157521975	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctcctactcgggcccggaccGcaggcccatccagggccagt	12	18	0	0	rs144424476		TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:157521975G>T	uc003qqn.2	+	18	4345	c.4193G>T	c.(4192-4194)CGC>CTC	p.R1398L	ARID1B_uc003qqo.2_Missense_Mutation_p.R1358L|ARID1B_uc003qqp.2_Missense_Mutation_p.R1345L	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1403					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		GGCCCGGACCGCAGGCCCATC	0.632													6	18	---	---	---	---	PASS	T	157521975	T	T	157521975	3	4	98	1	0	0	0	0	1	0	0	0	914	1087	38	1	4317	1	ARID1B	6	157521975	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	4572544	157521975	13593092	152	36432										
TULP4	56995	broad.mit.edu	37	chr6	158914661	158914661	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ccgggctgctcaggagctctCccggtccccacggttgcccc	12	19	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:158914661C>A	uc003qrf.2	+	10	3045	c.1688C>A	c.(1687-1689)TCC>TAC	p.S563Y	TULP4_uc003qrg.2_Missense_Mutation_p.S563Y	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	563					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CAGGAGCTCTCCCGGTCCCCA	0.657													4	29	---	---	---	---	PASS	A	158914661	A	A	158914661	3	1	98	1	0	0	0	0	1	0	0	0	16773	855	30	2	1726	2	TULP4	6	158914661	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1392686	158914661	12200406	153	36433										
LPA	4018	broad.mit.edu	37	chr6	161006101	161006101	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tttggatagtataatgggatCctccgatgccaatgtggtgt	12	6	0	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:161006101C>G	uc003qtl.2	-	27	4386	c.4266G>C	c.(4264-4266)AGG>AGC	p.R1422S		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3930	Kringle 35.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	ATAATGGGATCCTCCGATGCC	0.443													38	91	---	---	---	---	PASS	G	161006101	G	G	161006101	3	3	98	1	0	0	0	0	1	0	0	0	8903	854	30	2	1912	2	LPA	6	161006101	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	2091440	161006101	10108966	154	36434										
C6orf70	55780	broad.mit.edu	37	chr6	170169666	170169666	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gggatttcctgaaccatcagGagggtccccgcataagagat	12	10	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr6:170169666G>C	uc003qxg.1	+	12	1123	c.1090G>C	c.(1090-1092)GAG>CAG	p.E364Q	C6orf70_uc011ehb.1_Missense_Mutation_p.E238Q|C6orf70_uc003qxh.1_Missense_Mutation_p.E364Q|C6orf70_uc010kky.1_Missense_Mutation_p.E238Q|C6orf70_uc003qxi.1_Missense_Mutation_p.E12Q	NM_018341	NP_060811	Q5T6L9	CF070_HUMAN	hypothetical protein LOC55780	364						integral to membrane				ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.2e-22)|BRCA - Breast invasive adenocarcinoma(81;1.49e-07)|GBM - Glioblastoma multiforme(31;0.00191)		GAACCATCAGGAGGGTCCCCG	0.403													7	20	---	---	---	---	PASS	C	170169666	C	C	170169666	3	2	98	1	0	0	0	0	1	0	0	0	2370	1175	41	2	1136	2	C6orf70	6	170169666	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	9163565	170169666	945401	155	36435										
SDK1	221935	broad.mit.edu	37	chr7	4089005	4089005	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	accgcgcccccgcagaacgtGcagacggaagccgtgaactc	12	16	0	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:4089005G>T	uc003smx.2	+	18	2767	c.2628G>T	c.(2626-2628)GTG>GTT	p.V876V	SDK1_uc010kso.2_Silent_p.V152V	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	876	Fibronectin type-III 3.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CGCAGAACGTGCAGACGGAAG	0.572													8	29	---	---	---	---	PASS	T	4089005	T	T	4089005	2	4	98	1	0	0	0	0	0	0	0	1	13968	1306	46	3		3	SDK1	7	4089005	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08		4089005	155049658	156	36436										
COL28A1	340267	broad.mit.edu	37	chr7	7410440	7410440	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aatccaggttgaggtgacgaTgaaccaaaaatttgaacgag	11	6	0	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:7410440T>C	uc003src.1	-	33	3099	c.2982A>G	c.(2980-2982)TCA>TCG	p.S994S	COL28A1_uc011jxe.1_Silent_p.S677S	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	994					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		GAGGTGACGATGAACCAAAAA	0.368													23	39	---	---	---	---	PASS	C	7410440	C	C	7410440	2	2	98	1	0	0	0	0	0	0	0	1	3686	1451	51	5		5	COL28A1	7	7410440	Silent	SNP	T	TCGA-43-3920-01A-01D-0983-08	3321435	7410440	151728223	157	36437										
GLCCI1	113263	broad.mit.edu	37	chr7	8099836	8099836	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ataagtcctgaattagaaaaGgtattcattaaagaaaataa	6	3	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:8099836G>A	uc003srk.2	+	5	1483	c.924G>A	c.(922-924)AAG>AAA	p.K308K		NM_138426	NP_612435	Q86VQ1	GLCI1_HUMAN	glucocorticoid induced transcript 1	308											0		Ovarian(82;0.0608)		UCEC - Uterine corpus endometrioid carcinoma (126;0.206)		AATTAGAAAAGGTATTCATTA	0.368													17	43	---	---	---	---	PASS	A	8099836	A	A	8099836	2	1	98	1	0	0	0	0	0	0	0	1	6431	991	35	3		3	GLCCI1	7	8099836	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	689396	8099836	151038827	158	36438										
ABCB5	340273	broad.mit.edu	37	chr7	20762813	20762813	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgactggatttgccaacaaaGataagcaagaacttaagcat	8	7	0	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:20762813G>A	uc003suw.3	+	12	1807	c.1261G>A	c.(1261-1263)GAT>AAT	p.D421N	ABCB5_uc010kuh.2_Missense_Mutation_p.D866N|ABCB5_uc003sux.1_Missense_Mutation_p.D44N	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	421	Cytoplasmic (Potential).|ABC transmembrane type-1.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						TGCCAACAAAGATAAGCAAGA	0.378													15	33	---	---	---	---	PASS	A	20762813	A	A	20762813	3	1	98	1	0	0	0	0	1	0	0	0	44	942	33	2	2715	2	ABCB5	7	20762813	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	12662977	20762813	138375850	159	36439										
DNAH11	8701	broad.mit.edu	37	chr7	21727028	21727028	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caatatctataagggattggTgcagacaggagcttggggct	14	6	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:21727028T>A	uc003svc.2	+	35	5859	c.5828T>A	c.(5827-5829)GTG>GAG	p.V1943E		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1943	AAA 1 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AAGGGATTGGTGCAGACAGGA	0.408									Kartagener_syndrome				25	31	---	---	---	---	PASS	A	21727028	A	A	21727028	3	1	98	1	0	0	0	0	1	0	0	0	4599	1696	59	5	5963	5	DNAH11	7	21727028	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	964215	21727028	137411635	160	36440										
CREB5	9586	broad.mit.edu	37	chr7	28848907	28848907	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agacgaggatccggacgagaGgcggcggaaatttctggaac	16	8	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:28848907G>A	uc003szq.2	+	9	1520	c.1130G>A	c.(1129-1131)AGG>AAG	p.R377K	CREB5_uc003szo.2_Missense_Mutation_p.R344K|CREB5_uc003szr.2_Missense_Mutation_p.R370K|CREB5_uc003szs.2_Missense_Mutation_p.R238K	NM_182898	NP_878901	Q02930	CREB5_HUMAN	cAMP responsive element binding protein 5	377	Basic motif.				positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						CCGGACGAGAGGCGGCGGAAA	0.592													24	30	---	---	---	---	PASS	A	28848907	A	A	28848907	3	1	98	1	0	0	0	0	1	0	0	0	3860	1000	35	3	1215	3	CREB5	7	28848907	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	7121879	28848907	130289756	161	36441										
GGCT	79017	broad.mit.edu	37	chr7	30544197	30544198	+	Frame_Shift_Del	DEL	CA	-	-													0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcactcacctgcaggcgggcCacacagaagaacgccgccga							TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:30544197_30544198delCA	uc003tba.2	-	1	255_256	c.128_129delTG	c.(127-129)GTGfs	p.V43fs	GGCT_uc003tbb.2_Frame_Shift_Del_p.V43fs|GGCT_uc003tbc.2_RNA	NM_024051	NP_076956	O75223	GGCT_HUMAN	gamma-glutamyl cyclotransferase	43					release of cytochrome c from mitochondria	cytosol	acyltransferase activity|gamma-glutamylcyclotransferase activity|protein homodimerization activity				0						GCAGGCGGGCCACACAGAAGAA	0.668													26	14	---	---	---	---		-	30544198	-	-	30544197	7	5	98	1	0	1	0	1	0	0	0	0	6355	581	21	0	453	0	GGCT	7	30544197	Frame_Shift_Del	DEL	CA	TCGA-43-3920-01A-01D-0983-08	1695290	30544197	128594466	162	36442										
CCDC129	223075	broad.mit.edu	37	chr7	31592800	31592800	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agtctcaccatccccatgctGggtgagaaggactctcaggc	11	13	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:31592800G>T	uc003tcj.1	+	2	1155	c.162G>T	c.(160-162)CTG>CTT	p.L54L	CCDC129_uc011kad.1_Silent_p.L64L|CCDC129_uc003tci.1_Silent_p.L53L|CCDC129_uc011kae.1_Silent_p.L80L|CCDC129_uc003tck.1_5'Flank	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	54											0						TCCCCATGCTGGGTGAGAAGG	0.552													9	14	---	---	---	---	PASS	T	31592800	T	T	31592800	2	4	98	1	0	0	0	0	0	0	0	1	2764	1362	47	3		3	CCDC129	7	31592800	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	1048603	31592800	127545863	163	36443										
ZPBP	11055	broad.mit.edu	37	chr7	50057886	50057886	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atggtctgtacatcgcttggGtcctttttcagtgtctagag	11	8	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:50057886G>T	uc003tou.2	-	6	803	c.733C>A	c.(733-735)CCC>ACC	p.P245T	ZPBP_uc011kci.1_Missense_Mutation_p.P171T|ZPBP_uc010kyw.2_Missense_Mutation_p.P244T	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	245					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					CATCGCTTGGGTCCTTTTTCA	0.299													8	20	---	---	---	---	PASS	T	50057886	T	T	50057886	3	4	98	1	0	0	0	0	1	0	0	0	18216	1261	44	3	334	3	ZPBP	7	50057886	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	18465086	50057886	109080777	164	36444										
MAGI2	9863	broad.mit.edu	37	chr7	78150946	78150946	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggttctgctggcggctttggGgtaccgtagtaattgtctgc	15	8	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:78150946G>T	uc003ugx.2	-	4	809	c.555C>A	c.(553-555)ACC>ACA	p.T185T	MAGI2_uc003ugy.2_Silent_p.T185T|MAGI2_uc011kgr.1_Silent_p.T17T|MAGI2_uc011kgs.1_Silent_p.T22T	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	185	Guanylate kinase-like.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				GCGGCTTTGGGGTACCGTAGT	0.383													8	143	---	---	---	---	PASS	T	78150946	T	T	78150946	2	4	98	1	0	0	0	0	0	0	0	1	9191	1219	43	3		3	MAGI2	7	78150946	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	28093060	78150946	80987717	165	36445										
SPDYE3	441272	broad.mit.edu	37	chr7	99917383	99917383	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aagcgtcggttccagttcttCtgttccatgcgctgcagggc	12	12	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:99917383C>T	uc003uug.1	+	4	651	c.411C>T	c.(409-411)TTC>TTT	p.F137F	uc011kjm.1_5'Flank	NM_001004351	NP_001004351	A6NKU9	SPDE3_HUMAN	speedy homolog E3	514											0						TCCAGTTCTTCTGTTCCATGC	0.607													86	46	---	---	---	---	PASS	T	99917383	T	T	99917383	2	4	98	1	0	0	0	0	0	0	0	1	15029	912	32	2		2	SPDYE3	7	99917383	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	21766437	99917383	59221280	166	36446										
PILRA	29992	broad.mit.edu	37	chr7	99971747	99971747	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cagcctccatgggtggctctGtggaaatccccttctccttc	9	15	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:99971747G>T	uc003uuo.1	+	2	357	c.145G>T	c.(145-147)GTG>TTG	p.V49L	PILRA_uc011kjn.1_Missense_Mutation_p.V49L|PILRA_uc011kjo.1_Missense_Mutation_p.V49L|PILRA_uc003uup.1_Missense_Mutation_p.V49L|PILRA_uc003uuq.1_Missense_Mutation_p.V49L	NM_013439	NP_038467	Q9UKJ1	PILRA_HUMAN	paired immunoglobulin-like type 2 receptor alpha	49	Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms	extracellular region|integral to membrane|plasma membrane	protein binding|receptor activity			skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GGGTGGCTCTGTGGAAATCCC	0.557													6	44	---	---	---	---	PASS	T	99971747	T	T	99971747	3	4	98	1	0	0	0	0	1	0	0	0	11925	1377	48	3	151	3	PILRA	7	99971747	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	54364	99971747	59166916	167	36447										
CADPS2	93664	broad.mit.edu	37	chr7	122111562	122111562	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tctgtgacagcctctcacacCataacgggcacagtactcat	7	14	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:122111562C>A	uc010lkp.2	-	13	2216	c.2053G>T	c.(2053-2055)GGT>TGT	p.G685C	CADPS2_uc011knx.1_Missense_Mutation_p.G56C|CADPS2_uc003vkg.3_Missense_Mutation_p.G382C|CADPS2_uc010lkq.2_Missense_Mutation_p.G682C	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	685					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						CCTCTCACACCATAACGGGCA	0.418													4	23	---	---	---	---	PASS	A	122111562	A	A	122111562	3	1	98	1	0	0	0	0	1	0	0	0	2571	594	21	3	1949	3	CADPS2	7	122111562	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	22139815	122111562	37027101	168	36448										
AGK	55750	broad.mit.edu	37	chr7	141315303	141315303	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aagattcccattggatttatCccactgggagagaccagtag	10	9	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:141315303C>T	uc003vwi.2	+	8	627	c.456C>T	c.(454-456)ATC>ATT	p.I152I	AGK_uc011krg.1_RNA	NM_018238	NP_060708	Q53H12	AGK_HUMAN	acylglycerol kinase precursor	152	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway	mitochondrial membrane	acylglycerol kinase activity|ATP binding|diacylglycerol kinase activity|NAD+ kinase activity			ovary(1)|breast(1)	2	Melanoma(164;0.0171)					TTGGATTTATCCCACTGGGAG	0.438													38	39	---	---	---	---	PASS	T	141315303	T	T	141315303	2	4	98	1	0	0	0	0	0	0	0	1	383	845	30	2		2	AGK	7	141315303	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	19203741	141315303	17823360	169	36449										
FAM115C	285966	broad.mit.edu	37	chr7	143421745	143421745	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cacctgggaaagggagccccCctgtgtgactggaatgtatg	14	10	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:143421745C>T	uc003wdf.2	+	7	2543	c.2460C>T	c.(2458-2460)CCC>CCT	p.P820P	FAM115C_uc003wdg.2_Silent_p.P539P|FAM115C_uc011ktk.1_Silent_p.P820P|FAM115C_uc003wdh.2_Silent_p.P820P|FAM115C_uc011ktm.1_Silent_p.P820P|uc011ktn.1_Intron|uc011kto.1_Intron|uc011ktp.1_Intron|LOC154761_uc011ktq.1_Intron|LOC154761_uc011ktr.1_Intron|LOC154761_uc011kts.1_Intron|LOC154761_uc003wdj.1_Intron|FAM115C_uc011ktt.1_Silent_p.P716P|FAM115C_uc003wdi.1_Silent_p.P539P	NM_001130025	NP_001123497	A6NFQ2	F115C_HUMAN	hypothetical protein LOC285966 isoform A	820											0						AGGGAGCCCCCCTGTGTGACT	0.572													4	11	---	---	---	---	PASS	T	143421745	T	T	143421745	2	4	98	1	0	0	0	0	0	0	0	1	5406	610	22	3		3	FAM115C	7	143421745	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	2106442	143421745	15716918	170	36450										
ZNF862	643641	broad.mit.edu	37	chr7	149545452	149545452	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gatttgaggcaaaaagaaatCactgatggcatccacagctc	9	9	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr7:149545452C>T	uc010lpn.2	+	4	1062	c.870C>T	c.(868-870)ATC>ATT	p.I290I	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	290					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						AAAAAGAAATCACTGATGGCA	0.403													6	6	---	---	---	---	PASS	T	149545452	T	T	149545452	2	4	98	1	0	0	0	0	0	0	0	1	18192	816	29	2		2	ZNF862	7	149545452	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	6123707	149545452	9593211	171	36451										
NEIL2	252969	broad.mit.edu	37	chr8	11640745	11640745	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tttggtggtggtggcttcctGgcattttataattgtcagtt	12	5	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr8:11640745G>T	uc003wug.2	+	4	1200	c.525G>T	c.(523-525)CTG>CTT	p.L175L	NEIL2_uc003wue.2_Silent_p.L175L|NEIL2_uc003wuf.2_Silent_p.L114L|NEIL2_uc011kxd.1_Silent_p.L59L	NM_145043	NP_659480	Q969S2	NEIL2_HUMAN	nei like 2 isoform a	175					base-excision repair|nucleotide-excision repair	nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|hydrolase activity, hydrolyzing N-glycosyl compounds|zinc ion binding				0	all_epithelial(15;0.103)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.166)		GTGGCTTCCTGGCATTTTATA	0.498								BER_DNA_glycosylases					18	13	---	---	---	---	PASS	T	11640745	T	T	11640745	2	4	98	1	0	0	0	0	0	0	0	1	10319	1335	47	3		3	NEIL2	8	11640745	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08		11640745	134723277	172	36452										
FBXO16	157574	broad.mit.edu	37	chr8	28309902	28309902	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttcttaaagaggaagaggacCgaaaagctgataaaggggac	13	5	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr8:28309902C>A	uc003xgu.2	-	6	697	c.599G>T	c.(598-600)CGG>CTG	p.R200L	ZNF395_uc003xgt.2_5'UTR|FBXO16_uc003xgv.2_Missense_Mutation_p.R187L|FBXO16_uc003xgw.2_Missense_Mutation_p.R187L	NM_172366	NP_758954	Q8IX29	FBX16_HUMAN	F-box only protein 16	200										ovary(1)	1		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.121)|Kidney(114;0.144)|Colorectal(74;0.249)		GGAAGAGGACCGAAAAGCTGA	0.423													13	16	---	---	---	---	PASS	A	28309902	A	A	28309902	3	1	98	1	0	0	0	0	1	0	0	0	5729	652	23	1	295	1	FBXO16	8	28309902	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	16669157	28309902	118054120	173	36453										
ZFHX4	79776	broad.mit.edu	37	chr8	77618799	77618799	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agctttatcagtactacctaGcccagaacataggcctgacc	7	13	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr8:77618799G>T	uc003yav.2	+	2	2863	c.2476G>T	c.(2476-2478)GCC>TCC	p.A826S	ZFHX4_uc003yat.1_Missense_Mutation_p.A826S|ZFHX4_uc003yau.1_Missense_Mutation_p.A826S|ZFHX4_uc003yaw.1_Missense_Mutation_p.A826S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	826						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GTACTACCTAGCCCAGAACAT	0.527										HNSCC(33;0.089)			9	21	---	---	---	---	PASS	T	77618799	T	T	77618799	3	4	98	1	0	0	0	0	1	0	0	0	17632	971	34	3	2478	3	ZFHX4	8	77618799	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	49308897	77618799	68745223	174	36454										
ZFHX4	79776	broad.mit.edu	37	chr8	77763701	77763701	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tattccagatgacatgggctCtgaaccaaagcggaccttac	9	11	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr8:77763701C>A	uc003yav.2	+	10	4796	c.4409C>A	c.(4408-4410)TCT>TAT	p.S1470Y	ZFHX4_uc003yau.1_Missense_Mutation_p.S1515Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.S1470Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1470						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GACATGGGCTCTGAACCAAAG	0.448										HNSCC(33;0.089)			20	45	---	---	---	---	PASS	A	77763701	A	A	77763701	3	1	98	1	0	0	0	0	1	0	0	0	17632	913	32	2	4578	2	ZFHX4	8	77763701	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	144902	77763701	68600321	175	36455										
KIAA1429	25962	broad.mit.edu	37	chr8	95543306	95543306	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttaaactgatcttctttctcCccatcagctagtgttttatg	5	10	4	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr8:95543306C>A	uc003ygo.1	-	6	505	c.492G>T	c.(490-492)GGG>GGT	p.G164G	KIAA1429_uc003ygp.2_Silent_p.G164G	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	164	Pro-rich.				mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			CTTCTTTCTCCCCATCAGCTA	0.338													4	28	---	---	---	---	PASS	A	95543306	A	A	95543306	2	1	98	1	0	0	0	0	0	0	0	1	8231	610	22	3		3	KIAA1429	8	95543306	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	17779605	95543306	50820716	176	36456										
CSMD3	114788	broad.mit.edu	37	chr8	113237043	113237043	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcaagttgggatcaaatcgtAccgccttcccttccactgac	7	14	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr8:113237043A>G	uc003ynu.2	-	71	11240	c.11081T>C	c.(11080-11082)GTA>GCA	p.V3694A	CSMD3_uc003yns.2_Missense_Mutation_p.V2896A|CSMD3_uc003ynt.2_Missense_Mutation_p.V3654A|CSMD3_uc011lhx.1_Missense_Mutation_p.V3525A	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3694	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						ATCAAATCGTACCGCCTTCCC	0.438										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			40	82	---	---	---	---	PASS	G	113237043	G	G	113237043	3	3	98	1	0	0	0	0	1	0	0	0	3946	391	14	5	46	5	CSMD3	8	113237043	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	17693737	113237043	33126979	177	36457										
CSMD3	114788	broad.mit.edu	37	chr8	113418774	113418774	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aatacaagtaggtaaggaatCattccactgggccaaagaat	9	7	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr8:113418774C>A	uc003ynu.2	-	35	5947	c.5788G>T	c.(5788-5790)GAT>TAT	p.D1930Y	CSMD3_uc003yns.2_Missense_Mutation_p.D1132Y|CSMD3_uc003ynt.2_Missense_Mutation_p.D1890Y|CSMD3_uc011lhx.1_Missense_Mutation_p.D1826Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1930	Sushi 10.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GGTAAGGAATCATTCCACTGG	0.323										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			26	42	---	---	---	---	PASS	A	113418774	A	A	113418774	3	1	98	1	0	0	0	0	1	0	0	0	3946	826	29	2	5483	2	CSMD3	8	113418774	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	181731	113418774	32945248	178	36458										
NDRG1	10397	broad.mit.edu	37	chr8	134262695	134262695	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cccaatacctgttgtaggcaTtgatgaacaggtgcaggttg	12	8	0	2	rs137993172		TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr8:134262695T>C	uc003yuh.2	-	10	1272	c.686A>G	c.(685-687)AAT>AGT	p.N229S	NDRG1_uc003yuf.1_Missense_Mutation_p.N40S|NDRG1_uc003yug.2_Missense_Mutation_p.N229S|NDRG1_uc010mee.2_Missense_Mutation_p.N148S|NDRG1_uc010mef.2_Missense_Mutation_p.N163S|NDRG1_uc011ljh.1_Missense_Mutation_p.N57S|NDRG1_uc011lji.1_Intron	NM_001135242	NP_001128714	Q92597	NDRG1_HUMAN	N-myc downstream regulated 1	229					cellular response to hypoxia|response to metal ion	cytoplasm|microtubule cytoskeleton|nucleus|plasma membrane	protein binding			ovary(4)	4	all_epithelial(106;4.26e-24)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GTTGTAGGCATTGATGAACAG	0.468													32	81	---	---	---	---	PASS	C	134262695	C	C	134262695	3	2	98	1	0	0	0	0	1	0	0	0	10251	1493	52	5	526	5	NDRG1	8	134262695	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	20843921	134262695	12101327	179	36459										
FAM135B	51059	broad.mit.edu	37	chr8	139164198	139164198	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atgtctatgtatccggggccCtgctggttgtcagcatctaa	11	10	3	0	rs139253577		TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr8:139164198C>A	uc003yuy.2	-	13	2691	c.2520G>T	c.(2518-2520)CAG>CAT	p.Q840H	FAM135B_uc003yux.2_Missense_Mutation_p.Q741H|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.Q402H|FAM135B_uc003yvb.2_Missense_Mutation_p.Q402H	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	840										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)			ATCCGGGGCCCTGCTGGTTGT	0.522										HNSCC(54;0.14)			19	40	---	---	---	---	PASS	A	139164198	A	A	139164198	3	1	98	1	0	0	0	0	1	0	0	0	5449	680	24	3	1732	3	FAM135B	8	139164198	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	4901503	139164198	7199824	180	36460										
TOP1MT	116447	broad.mit.edu	37	chr8	144406775	144406775	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tccttccactggtgccccgcCggcggctcggggatcttcga	13	16	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr8:144406775C>A	uc003yxz.2	-	6	715	c.696G>T	c.(694-696)CCG>CCT	p.P232P	TOP1MT_uc011lkd.1_Silent_p.P134P|TOP1MT_uc011lke.1_Silent_p.P134P|TOP1MT_uc010mfb.2_Silent_p.P134P|TOP1MT_uc011lkf.1_Silent_p.P27P|TOP1MT_uc010mfd.1_Silent_p.P27P	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	232					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	GGTGCCCCGCCGGCGGCTCGG	0.562													29	20	---	---	---	---	PASS	A	144406775	A	A	144406775	2	1	98	1	0	0	0	0	0	0	0	1	16361	639	23	1		1	TOP1MT	8	144406775	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	5242577	144406775	1957247	181	36461										
PLEC	5339	broad.mit.edu	37	chr8	144990859	144990859	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cggcctcgtagtagagccagCccttcttcagggcctgggcg	14	14	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr8:144990859C>G	uc003zaf.1	-	32	13711	c.13541G>C	c.(13540-13542)GGC>GCC	p.G4514A	PLEC_uc003zab.1_Missense_Mutation_p.G4377A|PLEC_uc003zac.1_Missense_Mutation_p.G4381A|PLEC_uc003zad.2_Missense_Mutation_p.G4377A|PLEC_uc003zae.1_Missense_Mutation_p.G4345A|PLEC_uc003zag.1_Missense_Mutation_p.G4355A|PLEC_uc003zah.2_Missense_Mutation_p.G4363A|PLEC_uc003zaj.2_Missense_Mutation_p.G4404A	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4514	Globular 2.|Plectin 31.				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						GTAGAGCCAGCCCTTCTTCAG	0.672													9	24	---	---	---	---	PASS	G	144990859	G	G	144990859	3	3	98	1	0	0	0	0	1	0	0	0	12052	739	26	4	517	4	PLEC	8	144990859	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	584084	144990859	1373163	182	36462										
IFNA5	3442	broad.mit.edu	37	chr9	21305250	21305250	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atcagtaaaacaaagggcaaGgccattggggaggttgcaga	14	6	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr9:21305250G>T	uc011lnh.1	-	1	6	c.6C>A	c.(4-6)GCC>GCA	p.A2A		NM_002169	NP_002160	P01569	IFNA5_HUMAN	interferon, alpha 5 precursor	2					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			ovary(1)	1				Lung(24;2.34e-24)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		CAAAGGGCAAGGCCATTGGGG	0.507													22	11	---	---	---	---	PASS	T	21305250	T	T	21305250	2	4	98	1	0	0	0	0	0	0	0	1	7540	987	35	3		3	IFNA5	9	21305250	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08		21305250	119908181	183	36463										
AQP7	364	broad.mit.edu	37	chr9	33385652	33385652	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gggcaggggcagtacctgaaGacctgtttgccccaaccagc	13	13	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr9:33385652G>A	uc003zst.2	-	7	910	c.738C>T	c.(736-738)GTC>GTT	p.V246V	SUGT1P1_uc010mjq.1_Intron|AQP7_uc003zsu.1_Silent_p.V189V|AQP7_uc010mjs.2_Silent_p.V154V|AQP7_uc010mjt.2_Silent_p.V154V|AQP7_uc011lnx.1_Silent_p.V246V|AQP7_uc011lny.1_Silent_p.V245V|AQP7_uc003zss.3_Silent_p.V154V|AQP7_uc011lnz.1_Silent_p.V154V|AQP7_uc011loa.1_Missense_Mutation_p.L115F	NM_001170	NP_001161	O14520	AQP7_HUMAN	aquaporin 7	246	Extracellular (Potential).				excretion|generation of precursor metabolites and energy	cell-cell junction|cytoplasm|integral to plasma membrane	glycerol channel activity|water channel activity				0			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		AGTACCTGAAGACCTGTTTGC	0.607													5	49	---	---	---	---	PASS	A	33385652	A	A	33385652	2	1	98	1	0	0	0	0	0	0	0	1	831	929	33	2		2	AQP7	9	33385652	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	12080402	33385652	107827779	184	36464										
GALT	2592	broad.mit.edu	37	chr9	34647203	34647203	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcttctgaagacagtgccccGccatgaccctctcaaccctc	7	18	2	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr9:34647203G>A	uc003zve.2	+	2	267	c.200G>A	c.(199-201)CGC>CAC	p.R67H	GALT_uc003zvf.2_5'UTR|GALT_uc003zvg.2_5'UTR|GALT_uc003zvh.2_Missense_Mutation_p.R19H|GALT_uc011lop.1_Missense_Mutation_p.R19H	NM_000155	NP_000146	P07902	GALT_HUMAN	galactose-1-phosphate uridylyltransferase	67			R -> C (in GALCT).		galactose catabolic process	cytosol	UDP-glucose:hexose-1-phosphate uridylyltransferase activity|zinc ion binding				0	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.173)		ACAGTGCCCCGCCATGACCCT	0.632									Galactosemia		OREG0019158	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	11	---	---	---	---	PASS	A	34647203	A	A	34647203	3	1	98	1	0	0	0	0	1	0	0	0	6230	1087	38	1	206	1	GALT	9	34647203	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	1261551	34647203	106566228	185	36465										
GDA	9615	broad.mit.edu	37	chr9	74842874	74842874	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tccagacagtgatggcacacGgctgctacctctctgcagaa	10	13	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr9:74842874G>A	uc004aiq.2	+	9	1021	c.838G>A	c.(838-840)GGC>AGC	p.G280S	GDA_uc011lse.1_Missense_Mutation_p.G206S|GDA_uc011lsf.1_Missense_Mutation_p.G206S|GDA_uc004air.2_Missense_Mutation_p.G280S|GDA_uc010mow.1_RNA|GDA_uc004ais.2_Missense_Mutation_p.G202S|GDA_uc004ait.1_Missense_Mutation_p.G206S	NM_004293	NP_004284	Q9Y2T3	GUAD_HUMAN	guanine deaminase	280					nervous system development|purine base metabolic process|purine nucleotide catabolic process	cytosol	guanine deaminase activity|zinc ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		GATGGCACACGGCTGCTACCT	0.458													12	7	---	---	---	---	PASS	A	74842874	A	A	74842874	3	1	98	1	0	0	0	0	1	0	0	0	6306	1116	39	1	872	1	GDA	9	74842874	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	40195671	74842874	66370557	186	36466										
TRPM6	140803	broad.mit.edu	37	chr9	77407667	77407667	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ccagtttctcatcatggcccCtttccaaatcatactctttc	3	15	4	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr9:77407667C>G	uc004ajl.1	-	19	2649	c.2411G>C	c.(2410-2412)AGG>ACG	p.R804T	TRPM6_uc004ajk.1_Missense_Mutation_p.R799T|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_Intron	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	804	Extracellular (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						ATCATGGCCCCTTTCCAAATC	0.368													12	6	---	---	---	---	PASS	G	77407667	G	G	77407667	3	3	98	1	0	0	0	0	1	0	0	0	16587	681	24	4	3741	4	TRPM6	9	77407667	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	2564793	77407667	63805764	187	36467										
C9orf64	84267	broad.mit.edu	37	chr9	86570396	86570396	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctcggacgcagttgagaaaaGagcctccaaacttctccagc	9	13	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr9:86570396G>C	uc004anb.2	-	2	745	c.497C>G	c.(496-498)TCT>TGT	p.S166C	C9orf64_uc004anc.2_Missense_Mutation_p.S25C	NM_032307	NP_115683	Q5T6V5	CI064_HUMAN	hypothetical protein LOC84267	166											0						GTTGAGAAAAGAGCCTCCAAA	0.443													19	18	---	---	---	---	PASS	C	86570396	C	C	86570396	3	2	98	1	0	0	0	0	1	0	0	0	2489	942	33	2	540	2	C9orf64	9	86570396	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	9162729	86570396	54643035	188	36468										
WNK2	65268	broad.mit.edu	37	chr9	95993306	95993306	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgaaatgtgacaatattttcAtcaccggaccaactgggtct	8	9	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr9:95993306A>T	uc004ati.1	+	3	991	c.991A>T	c.(991-993)ATC>TTC	p.I331F	WNK2_uc011lud.1_Missense_Mutation_p.I331F|WNK2_uc004atj.2_Missense_Mutation_p.I331F|WNK2_uc010mrc.1_Missense_Mutation_p.I331F|WNK2_uc010mrd.1_5'UTR	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	331	Protein kinase.				intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						CAATATTTTCATCACCGGACC	0.537													51	64	---	---	---	---	PASS	T	95993306	T	T	95993306	3	4	98	1	0	0	0	0	1	0	0	0	17375	217	8	5	1001	5	WNK2	9	95993306	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	9422910	95993306	45220125	189	36469										
GRIN3A	116443	broad.mit.edu	37	chr9	104449076	104449076	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caatgagccctaagggcagaCcctctgtcctcagttcctcc	8	16	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr9:104449076C>A	uc004bbp.1	-	2	1707	c.1106G>T	c.(1105-1107)GGT>GTT	p.G369V	GRIN3A_uc004bbq.1_Missense_Mutation_p.G369V	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	369	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	TAAGGGCAGACCCTCTGTCCT	0.517													11	3	---	---	---	---	PASS	A	104449076	A	A	104449076	3	1	98	1	0	0	0	0	1	0	0	0	6783	507	18	3	2273	3	GRIN3A	9	104449076	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	8455770	104449076	36764355	190	36470										
ABCA1	19	broad.mit.edu	37	chr9	107602611	107602611	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttcctcagtgccattgcctcCaaagagggctttgtagttgt	10	10	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr9:107602611C>A	uc004bcl.2	-	9	1316	c.1003G>T	c.(1003-1005)GGA>TGA	p.G335*		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	335	Extracellular.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CCATTGCCTCCAAAGAGGGCT	0.547													18	15	---	---	---	---	PASS	A	107602611	A	A	107602611	4	1	98	1	0	0	0	0	0	1	0	0	28	603	21	3	5950	3	ABCA1	9	107602611	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	3153535	107602611	33610820	191	36471										
TMEM38B	55151	broad.mit.edu	37	chr9	108536277	108536277	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agtgaagcaaagtcaccttcCaatggcgttgggtcattggc	12	9	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr9:108536277C>A	uc004bcu.1	+	6	909	c.792C>A	c.(790-792)TCC>TCA	p.S264S	TMEM38B_uc010mtn.1_3'UTR	NM_018112	NP_060582	Q9NVV0	TM38B_HUMAN	transmembrane protein 38B	264	Cytoplasmic (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			ovary(1)|skin(1)	2						AGTCACCTTCCAATGGCGTTG	0.408													5	41	---	---	---	---	PASS	A	108536277	A	A	108536277	2	1	98	1	0	0	0	0	0	0	0	1	16157	581	21	3		3	TMEM38B	9	108536277	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	933666	108536277	32677154	192	36472										
PTCHD3	374308	broad.mit.edu	37	chr10	27688069	27688069	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtgattgtaatagacactgcCgcttttgaatagacattgga	10	6	0	4	rs140478412		TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr10:27688069C>T	uc001itu.2	-	4	1576	c.1458G>A	c.(1456-1458)GCG>GCA	p.A486A		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	486	SSD.|Helical; (Potential).				spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						TAGACACTGCCGCTTTTGAAT	0.423													42	26	---	---	---	---	PASS	T	27688069	T	T	27688069	2	4	98	1	0	0	0	0	0	0	0	1	12734	639	23	1		1	PTCHD3	10	27688069	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08		27688069	107846678	193	36473										
PTEN	5728	broad.mit.edu	37	chr10	89717708	89717708	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcatgtactttgagttccctCagccgttacctgtgtgtggt	10	10	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr10:89717708C>T	uc001kfb.2	+	8	1764	c.733C>T	c.(733-735)CAG>TAG	p.Q245*		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	245	C2 tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.Q245*(6)|p.R55fs*1(4)|p.N212fs*1(2)|p.Y27fs*1(2)|p.G165_*404del(1)|p.?(1)|p.F243fs*9(1)|p.Q245fs*20(1)|p.G165_K342del(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TGAGTTCCCTCAGCCGTTACC	0.418		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			31	23	---	---	---	---	PASS	T	89717708	T	T	89717708	4	4	98	1	0	0	0	0	0	1	0	0	12738	827	29	2	759	2	PTEN	10	89717708	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	62029639	89717708	45817039	194	36474										
DUSP5	1847	broad.mit.edu	37	chr10	112262559	112262559	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cacaagagaagattgagagtGagagagccctcatcagccag	12	9	2	5			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr10:112262559G>A	uc001kzd.2	+	2	715	c.460G>A	c.(460-462)GAG>AAG	p.E154K		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	154					endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		GATTGAGAGTGAGAGAGCCCT	0.453													28	53	---	---	---	---	PASS	A	112262559	A	A	112262559	3	1	98	1	0	0	0	0	1	0	0	0	4828	1291	45	2	466	2	DUSP5	10	112262559	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	22544851	112262559	23272188	195	36475										
C10orf118	55088	broad.mit.edu	37	chr10	115891764	115891764	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tacaggaaactttatcaaatTgtgactgcaaagaattggat	8	5	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr10:115891764T>C	uc001lbb.1	-	11	2487	c.1835A>G	c.(1834-1836)CAA>CGA	p.Q612R	C10orf118_uc009xyd.1_Missense_Mutation_p.Q210R|C10orf118_uc001lbc.1_Missense_Mutation_p.Q612R|C10orf118_uc009xye.1_RNA	NM_018017	NP_060487	Q7Z3E2	CJ118_HUMAN	CTCL tumor antigen L14-2	612	Potential.									ovary(2)	2		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0161)|all cancers(201;0.0397)		TTTATCAAATTGTGACTGCAA	0.348													22	48	---	---	---	---	PASS	C	115891764	C	C	115891764	3	2	98	1	0	0	0	0	1	0	0	0	1587	1812	63	5	885	5	C10orf118	10	115891764	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	3629205	115891764	19642983	196	36476										
TDRD1	56165	broad.mit.edu	37	chr10	115963163	115963163	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aaagggtacggttaccgaatTcaaacacccaggggacttct	10	10	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr10:115963163T>G	uc001lbg.1	+	8	971	c.818T>G	c.(817-819)TTC>TGC	p.F273C	TDRD1_uc001lbf.2_Missense_Mutation_p.F264C|TDRD1_uc001lbh.1_Missense_Mutation_p.F264C|TDRD1_uc001lbi.1_Missense_Mutation_p.F264C|TDRD1_uc010qsc.1_Translation_Start_Site|TDRD1_uc001lbj.2_Translation_Start_Site	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	273					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		GTTACCGAATTCAAACACCCA	0.348													36	80	---	---	---	---	PASS	G	115963163	G	G	115963163	3	3	98	1	0	0	0	0	1	0	0	0	15727	1783	62	5	844	5	TDRD1	10	115963163	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	71399	115963163	19571584	197	36477										
WDR11	55717	broad.mit.edu	37	chr10	122666322	122666322	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atagagcagccttatttgtgGaagcttgcctcaagtatgga	11	7	1	1	rs141544883		TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr10:122666322G>A	uc010qtf.1	+	28	3710	c.3472G>A	c.(3472-3474)GAA>AAA	p.E1158K	WDR11_uc010qte.1_Missense_Mutation_p.E760K|WDR11_uc001lfd.1_3'UTR|WDR11_uc009xzn.2_Intron|uc001lfe.1_5'Flank	NM_018117	NP_060587	Q9BZH6	WDR11_HUMAN	bromodomain and WD repeat domain containing 2	1158						integral to membrane					0						CTTATTTGTGGAAGCTTGCCT	0.433													23	51	---	---	---	---	PASS	A	122666322	A	A	122666322	3	1	98	1	0	0	0	0	1	0	0	0	17270	1175	41	2	3582	2	WDR11	10	122666322	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	6703159	122666322	12868425	198	36478										
WDR11	55717	broad.mit.edu	37	chr10	122666349	122666349	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcctcaagtatggagcatttGaagtcactgaggacacagat	11	8	2	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr10:122666349G>T	uc010qtf.1	+	28	3737	c.3499G>T	c.(3499-3501)GAA>TAA	p.E1167*	WDR11_uc010qte.1_Nonsense_Mutation_p.E769*|WDR11_uc001lfd.1_3'UTR|WDR11_uc009xzn.2_Intron|uc001lfe.1_5'Flank	NM_018117	NP_060587	Q9BZH6	WDR11_HUMAN	bromodomain and WD repeat domain containing 2	1167						integral to membrane					0						TGGAGCATTTGAAGTCACTGA	0.418													23	50	---	---	---	---	PASS	T	122666349	T	T	122666349	4	4	98	1	0	0	0	0	0	1	0	0	17270	1291	45	2	3609	2	WDR11	10	122666349	Nonsense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	27	122666349	12868398	199	36479										
MUC6	4588	broad.mit.edu	37	chr11	1018514	1018514	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggggttggataggtagtggtGgcatggaaagatgttgcagt	19	2	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:1018514G>T	uc001lsw.2	-	31	4338	c.4287C>A	c.(4285-4287)GCC>GCA	p.A1429A		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1429	Pro-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGGTAGTGGTGGCATGGAAAG	0.567													9	156	---	---	---	---	PASS	T	1018514	T	T	1018514	2	4	98	1	0	0	0	0	0	0	0	1	9980	1335	47	3		3	MUC6	11	1018514	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08		1018514	133988002	200	36480										
BRSK2	9024	broad.mit.edu	37	chr11	1467072	1467072	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aaatccatggaggtgctcagCgtgacggacggcggctcccc	14	13	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:1467072C>A	uc001lti.2	+	12	1547	c.1161C>A	c.(1159-1161)AGC>AGA	p.S387R	BRSK2_uc009ycv.1_Missense_Mutation_p.S387R|BRSK2_uc001lth.1_Missense_Mutation_p.S387R|BRSK2_uc001ltj.2_Missense_Mutation_p.S387R|BRSK2_uc001ltk.2_RNA|BRSK2_uc001ltl.2_Missense_Mutation_p.S387R|BRSK2_uc001ltm.2_Missense_Mutation_p.S433R|BRSK2_uc001ltn.2_RNA|BRSK2_uc010qwx.1_RNA	NM_003957	NP_003948	Q8IWQ3	BRSK2_HUMAN	BR serine/threonine kinase 2	387					establishment of cell polarity|neuron differentiation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)		AGGTGCTCAGCGTGACGGACG	0.692													5	12	---	---	---	---	PASS	A	1467072	A	A	1467072	3	1	98	1	0	0	0	0	1	0	0	0	1524	767	27	1	1207	1	BRSK2	11	1467072	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	448558	1467072	133539444	201	36481										
OR52E2	119678	broad.mit.edu	37	chr11	5080752	5080752	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tatgagtgcgatcatgtacaCagcacagaagggaaagccga	12	8	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:5080752C>G	uc010qyw.1	-	1	106	c.106G>C	c.(106-108)GTG>CTG	p.V36L		NM_001005164	NP_001005164	Q8NGJ4	O52E2_HUMAN	olfactory receptor, family 52, subfamily E,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.03e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.191)		ATCATGTACACAGCACAGAAG	0.512													4	24	---	---	---	---	PASS	G	5080752	G	G	5080752	3	3	98	1	0	0	0	0	1	0	0	0	11115	478	17	4	874	4	OR52E2	11	5080752	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	3613680	5080752	129925764	202	36482										
OR56A3	390083	broad.mit.edu	37	chr11	5969164	5969164	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agactctcctgcgatgatgtCaccatcaatcacctttacca	5	14	4	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:5969164C>T	uc010qzt.1	+	1	588	c.588C>T	c.(586-588)GTC>GTT	p.V196V		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	196	Extracellular (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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCGATGATGTCACCATCAATC	0.473													6	56	---	---	---	---	PASS	T	5969164	T	T	5969164	2	4	98	1	0	0	0	0	0	0	0	1	11134	813	29	2		2	OR56A3	11	5969164	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	888412	5969164	129037352	203	36483										
DENND5A	23258	broad.mit.edu	37	chr11	9167295	9167295	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tctcctgatatacagatccaTgggttggcagtgaacatgga	11	8	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:9167295T>C	uc001mhl.2	-	17	3180	c.2925A>G	c.(2923-2925)CCA>CCG	p.P975P	DENND5A_uc001mhk.2_Silent_p.P318P|DENND5A_uc010rbw.1_Silent_p.P975P|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	975	PLAT.									liver(1)	1						TACAGATCCATGGGTTGGCAG	0.488													87	95	---	---	---	---	PASS	C	9167295	C	C	9167295	2	2	98	1	0	0	0	0	0	0	0	1	4436	1451	51	5		5	DENND5A	11	9167295	Silent	SNP	T	TCGA-43-3920-01A-01D-0983-08	3198131	9167295	125839221	204	36484										
MUC15	143662	broad.mit.edu	37	chr11	26584733	26584733	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttcctttttccacacaacaaGtagcccacaagagtaagcaa	5	12	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:26584733G>A	uc001mqx.2	-	3	1040	c.774C>T	c.(772-774)TAC>TAT	p.Y258Y	ANO3_uc010rdr.1_Intron|ANO3_uc001mqt.3_Intron|ANO3_uc010rds.1_Intron|ANO3_uc010rdt.1_Intron|MUC15_uc001mqw.2_Silent_p.Y285Y|MUC15_uc001mqy.2_Intron	NM_145650	NP_663625	Q8N387	MUC15_HUMAN	mucin 15 isoform b	258	Cytoplasmic (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						CACACAACAAGTAGCCCACAA	0.383													39	50	---	---	---	---	PASS	A	26584733	A	A	26584733	2	1	98	1	0	0	0	0	0	0	0	1	9972	1024	36	3		3	MUC15	11	26584733	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	17417438	26584733	108421783	205	36485										
C11orf41	25758	broad.mit.edu	37	chr11	33564652	33564652	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tccagcccacagagaatcatGcctccccatctcctgtgcca	6	18	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:33564652G>T	uc001mup.3	+	1	776	c.652G>T	c.(652-654)GCC>TCC	p.A218S	C11orf41_uc001mun.1_Missense_Mutation_p.A218S	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	218						integral to membrane				ovary(2)	2						AGAGAATCATGCCTCCCCATC	0.557											OREG0020868	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	45	58	---	---	---	---	PASS	T	33564652	T	T	33564652	3	4	98	1	0	0	0	0	1	0	0	0	1640	1319	46	3	654	3	C11orf41	11	33564652	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	6979919	33564652	101441864	206	36486										
HSD17B12	51144	broad.mit.edu	37	chr11	43775641	43775641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tccttatcagcagatcaaagGataaacttgaccaggtttcc	7	10	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:43775641G>T	uc001mxq.3	+	3	488	c.253G>T	c.(253-255)GAT>TAT	p.D85Y	HSD17B12_uc001mxp.2_RNA	NM_016142	NP_057226	Q53GQ0	DHB12_HUMAN	hydroxysteroid (17-beta) dehydrogenase 12	85					long-chain fatty-acyl-CoA biosynthetic process|steroid biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	estradiol 17-beta-dehydrogenase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity				0						CAGATCAAAGGATAAACTTGA	0.358													19	83	---	---	---	---	PASS	T	43775641	T	T	43775641	3	4	98	1	0	0	0	0	1	0	0	0	7381	1174	41	2	263	2	HSD17B12	11	43775641	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	10210989	43775641	91230875	207	36487										
OR4C3	256144	broad.mit.edu	37	chr11	48346875	48346875	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctgcatggctcagctctttgGagctcattttttgggaggtg	13	8	3	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:48346875G>C	uc010rhv.1	+	1	383	c.383G>C	c.(382-384)GGA>GCA	p.G128A		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	101	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CAGCTCTTTGGAGCTCATTTT	0.458													6	120	---	---	---	---	PASS	C	48346875	C	C	48346875	3	2	98	1	0	0	0	0	1	0	0	0	11050	1174	41	2	385	2	OR4C3	11	48346875	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	4571234	48346875	86659641	208	36488										
FOLH1	2346	broad.mit.edu	37	chr11	49207291	49207291	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aggatatttccacgctggacAccacctccaggaagattcca	8	13	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:49207291A>T	uc001ngy.2	-	6	1017	c.756T>A	c.(754-756)GGT>GGA	p.G252G	FOLH1_uc001ngz.2_Silent_p.G252G|FOLH1_uc009yly.2_Silent_p.G237G|FOLH1_uc009ylz.2_Silent_p.G237G|FOLH1_uc009yma.2_Intron	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	252	Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	CACGCTGGACACCACCTCCAG	0.498													6	30	---	---	---	---	PASS	T	49207291	T	T	49207291	2	4	98	1	0	0	0	0	0	0	0	1	5979	146	6	5		5	FOLH1	11	49207291	Silent	SNP	A	TCGA-43-3920-01A-01D-0983-08	860416	49207291	85799225	209	36489										
TRIM48	79097	broad.mit.edu	37	chr11	55032605	55032605	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gattgaagaagatggcttccCttgccagaaaagccagtctc	10	10	1	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:55032605C>G	uc010rid.1	+	2	360	c.274C>G	c.(274-276)CTT>GTT	p.L92V		NM_024114	NP_077019	Q8IWZ4	TRI48_HUMAN	tripartite motif-containing 48	76						intracellular	zinc ion binding				0						GATGGCTTCCCTTGCCAGAAA	0.448													9	48	---	---	---	---	PASS	G	55032605	G	G	55032605	3	3	98	1	0	0	0	0	1	0	0	0	16520	681	24	4	280	4	TRIM48	11	55032605	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	5825314	55032605	79973911	210	36490										
OR5L1	219437	broad.mit.edu	37	chr11	55579833	55579833	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agcctgagaaataaagatgtGaaagaagctctcagaaaagt	10	5	1	5			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:55579833G>T	uc001nhw.1	+	1	891	c.891G>T	c.(889-891)GTG>GTT	p.V297V		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				ATAAAGATGTGAAAGAAGCTC	0.458													7	30	---	---	---	---	PASS	T	55579833	T	T	55579833	2	4	98	1	0	0	0	0	0	0	0	1	11170	1277	45	2		2	OR5L1	11	55579833	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	547228	55579833	79426683	211	36491										
OR5I1	10798	broad.mit.edu	37	chr11	55703750	55703750	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cagcatcaatccaatgttccCtatcagaattatagcataca	4	11	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:55703750C>A	uc010ris.1	-	1	127	c.127G>T	c.(127-129)GGG>TGG	p.G43W		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCAATGTTCCCTATCAGAATT	0.393													16	41	---	---	---	---	PASS	A	55703750	A	A	55703750	3	1	98	1	0	0	0	0	1	0	0	0	11164	681	24	3	820	3	OR5I1	11	55703750	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	123917	55703750	79302766	212	36492										
OR5AS1	219447	broad.mit.edu	37	chr11	55798323	55798323	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tctaggagagtctgtgtctgCttcattgtgttggcatattt	11	6	4	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:55798323C>A	uc010riw.1	+	1	429	c.429C>A	c.(427-429)TGC>TGA	p.C143*		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					TCTGTGTCTGCTTCATTGTGT	0.468													27	36	---	---	---	---	PASS	A	55798323	A	A	55798323	4	1	98	1	0	0	0	0	0	1	0	0	11146	805	28	3	431	3	OR5AS1	11	55798323	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	94573	55798323	79208193	213	36493										
OR8H2	390151	broad.mit.edu	37	chr11	55873110	55873110	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atacatacaacaccgaaatcCtgatattcattattgttggt	5	8	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:55873110C>T	uc010riy.1	+	1	592	c.592C>T	c.(592-594)CTG>TTG	p.L198L		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	198	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					CACCGAAATCCTGATATTCAT	0.388										HNSCC(53;0.14)			53	78	---	---	---	---	PASS	T	55873110	T	T	55873110	2	4	98	1	0	0	0	0	0	0	0	1	11238	680	24	3		3	OR8H2	11	55873110	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	74787	55873110	79133406	214	36494										
OR5J2	282775	broad.mit.edu	37	chr11	55944669	55944669	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aagctgtcatgttctgacacCtccatgaatgagttgttgct	9	9	2	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:55944669C>T	uc010rjb.1	+	1	576	c.576C>T	c.(574-576)ACC>ACT	p.T192T		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	192	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					GTTCTGACACCTCCATGAATG	0.453													18	44	---	---	---	---	PASS	T	55944669	T	T	55944669	2	4	98	1	0	0	0	0	0	0	0	1	11165	668	24	3		3	OR5J2	11	55944669	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	71559	55944669	79061847	215	36495										
MS4A7	58475	broad.mit.edu	37	chr11	60156870	60156870	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtttctcttccaggacctgaGcagcttgacctcaaatgcag	9	12	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:60156870G>A	uc001npe.2	+	5	492	c.347G>A	c.(346-348)AGC>AAC	p.S116N	MS4A7_uc001npf.2_Missense_Mutation_p.S116N|MS4A7_uc001npg.2_Missense_Mutation_p.S71N|MS4A7_uc001nph.2_Missense_Mutation_p.S71N|MS4A14_uc001npi.2_Intron|MS4A7_uc009ymx.1_Missense_Mutation_p.S71N	NM_206939	NP_996822	Q9GZW8	MS4A7_HUMAN	membrane-spanning 4-domains, subfamily A, member	116	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(1)|central_nervous_system(1)	2						CAGGACCTGAGCAGCTTGACC	0.448													7	23	---	---	---	---	PASS	A	60156870	A	A	60156870	3	1	98	1	0	0	0	0	1	0	0	0	9866	971	34	3	361	3	MS4A7	11	60156870	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	4212201	60156870	74849646	216	36496										
MS4A14	84689	broad.mit.edu	37	chr11	60183336	60183336	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agcttctgcaggaccaagctGcgtcactccaagtttttcca	8	13	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:60183336G>T	uc001npj.2	+	5	1460	c.895G>T	c.(895-897)GCG>TCG	p.A299S	MS4A14_uc001npi.2_Missense_Mutation_p.A187S|MS4A14_uc001npn.2_Missense_Mutation_p.A37S|MS4A14_uc001npk.2_Missense_Mutation_p.A282S|MS4A14_uc001npl.2_Missense_Mutation_p.A37S|MS4A14_uc001npm.2_Missense_Mutation_p.A37S	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	299						integral to membrane	receptor activity			breast(1)	1						GGACCAAGCTGCGTCACTCCA	0.423													13	37	---	---	---	---	PASS	T	60183336	T	T	60183336	3	4	98	1	0	0	0	0	1	0	0	0	9858	1319	46	3	913	3	MS4A14	11	60183336	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	26466	60183336	74823180	217	36497										
RAD9A	5883	broad.mit.edu	37	chr11	67164770	67164770	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atttccctttcacctggcccCcagccccccaagagccccgg	7	21	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:67164770C>A	uc001okr.2	+	10	1086	c.993C>A	c.(991-993)CCC>CCA	p.P331P	RAD9A_uc001oks.2_Silent_p.P188P	NM_004584	NP_004575	Q99638	RAD9A_HUMAN	RAD9 homolog	331	Sufficient for interaction with ABL1.				DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint	nucleoplasm	3'-5' exonuclease activity|exodeoxyribonuclease III activity|histone deacetylase binding|protein kinase binding|SH3 domain binding				0			BRCA - Breast invasive adenocarcinoma(15;8.53e-07)			CACCTGGCCCCCAGCCCCCCA	0.602								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					3	5	---	---	---	---	PASS	A	67164770	A	A	67164770	2	1	98	1	0	0	0	0	0	0	0	1	12995	610	22	3		3	RAD9A	11	67164770	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	6981434	67164770	67841746	218	36498										
IGHMBP2	3508	broad.mit.edu	37	chr11	68673578	68673578	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tctgaaagagctccagagccGaggcgtgtgtttgctgaagc	14	9	1	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:68673578G>T	uc001ook.1	+	2	230	c.128G>T	c.(127-129)CGA>CTA	p.R43L	IGHMBP2_uc001ooj.1_RNA|MRPL21_uc001ooh.2_5'Flank|MRPL21_uc001ooi.2_5'Flank|MRPL21_uc010rqe.1_5'Flank	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	43					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CTCCAGAGCCGAGGCGTGTGT	0.572													6	73	---	---	---	---	PASS	T	68673578	T	T	68673578	3	4	98	1	0	0	0	0	1	0	0	0	7591	1058	37	2	134	2	IGHMBP2	11	68673578	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	1508808	68673578	66332938	219	36499										
CAPN5	726	broad.mit.edu	37	chr11	76831861	76831861	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcctgcgcaccgaccagcccGagggccgctatgtcatcatc	10	17	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:76831861G>T	uc001oxx.2	+	10	1578	c.1393G>T	c.(1393-1395)GAG>TAG	p.E465*	CAPN5_uc009yup.2_Nonsense_Mutation_p.E505*|CAPN5_uc009yuq.2_Nonsense_Mutation_p.E501*|CAPN5_uc001oxy.2_Nonsense_Mutation_p.E505*|CAPN5_uc001oya.2_Nonsense_Mutation_p.E27*	NM_004055	NP_004046	O15484	CAN5_HUMAN	calpain 5	465	Domain III.				proteolysis|signal transduction	intracellular	calcium-dependent cysteine-type endopeptidase activity				0						CGACCAGCCCGAGGGCCGCTA	0.617													8	63	---	---	---	---	PASS	T	76831861	T	T	76831861	4	4	98	1	0	0	0	0	0	1	0	0	2629	1059	37	2	1427	2	CAPN5	11	76831861	Nonsense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	8158283	76831861	58174655	220	36500										
NOX4	50507	broad.mit.edu	37	chr11	89069063	89069063	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aaaagtttccaccgaggacgTcctataaacagtcttgaatt	7	9	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:89069063T>A	uc001pct.2	-	17	1805	c.1566A>T	c.(1564-1566)GGA>GGT	p.G522G	NOX4_uc009yvr.2_Silent_p.G497G|NOX4_uc001pcu.2_Silent_p.G448G|NOX4_uc001pcw.2_Silent_p.G215G|NOX4_uc001pcx.2_Silent_p.G175G|NOX4_uc001pcv.2_Silent_p.G482G|NOX4_uc009yvo.2_RNA|NOX4_uc010rtu.1_Silent_p.G335G|NOX4_uc009yvp.2_Silent_p.G286G|NOX4_uc010rtv.1_Silent_p.G458G|NOX4_uc009yvq.2_Silent_p.G498G	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	522	Cytoplasmic (Potential).|Mediates interaction with TLR4.				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				ACCGAGGACGTCCTATAAACA	0.303													6	49	---	---	---	---	PASS	A	89069063	A	A	89069063	2	1	98	1	0	0	0	0	0	0	0	1	10558	1654	58	5		5	NOX4	11	89069063	Silent	SNP	T	TCGA-43-3920-01A-01D-0983-08	12237202	89069063	45937453	221	36501										
MAML2	84441	broad.mit.edu	37	chr11	95713100	95713100	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggtttgccaaagcctggttaGagtttaagcttattgtggat	12	5	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:95713100G>A	uc001pfw.1	-	5	3768	c.2483C>T	c.(2482-2484)TCT>TTT	p.S828F		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	828					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				AGCCTGGTTAGAGTTTAAGCT	0.408			T	MECT1|CRTC3	salivary gland mucoepidermoid								16	16	---	---	---	---	PASS	A	95713100	A	A	95713100	3	1	98	1	0	0	0	0	1	0	0	0	9206	942	33	2	991	2	MAML2	11	95713100	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	6644037	95713100	39293416	222	36502										
DYNC2H1	79659	broad.mit.edu	37	chr11	102988531	102988531	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcagcgctatgttcctcatcCatggaaaaatgaaaaatatt	7	8	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:102988531C>G	uc001pho.2	+	6	1082	c.938C>G	c.(937-939)CCA>CGA	p.P313R	DYNC2H1_uc001phn.1_Missense_Mutation_p.P313R|DYNC2H1_uc009yxe.1_Missense_Mutation_p.P313R	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	313	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		GTTCCTCATCCATGGAAAAAT	0.368													3	37	---	---	---	---	PASS	G	102988531	G	G	102988531	3	3	98	1	0	0	0	0	1	0	0	0	4846	594	21	4	960	4	DYNC2H1	11	102988531	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	7275431	102988531	32017985	223	36503										
CWF19L2	143884	broad.mit.edu	37	chr11	107299812	107299812	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agtggttcaaattttctgccCttgctgtgaaatgacagttc	9	8	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:107299812C>A	uc010rvp.1	-	8	1176	c.1146G>T	c.(1144-1146)AAG>AAT	p.K382N	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	382							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		ATTTTCTGCCCTTGCTGTGAA	0.398													21	35	---	---	---	---	PASS	A	107299812	A	A	107299812	3	1	98	1	0	0	0	0	1	0	0	0	4072	680	24	3	1582	3	CWF19L2	11	107299812	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	4311281	107299812	27706704	224	36504										
DDX10	1662	broad.mit.edu	37	chr11	108547817	108547817	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgctgtctttttgaggtgctGgaagccttatatcgtctgca	11	8	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:108547817G>T	uc001pkm.2	+	4	449	c.384G>T	c.(382-384)CTG>CTT	p.L128L	DDX10_uc001pkl.1_Silent_p.L128L	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	128	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		TTGAGGTGCTGGAAGCCTTAT	0.458			T	NUP98	AML*								5	48	---	---	---	---	PASS	T	108547817	T	T	108547817	2	4	98	1	0	0	0	0	0	0	0	1	4342	1335	47	3		3	DDX10	11	108547817	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	1248005	108547817	26458699	225	36505										
TMEM225	338661	broad.mit.edu	37	chr11	123755245	123755245	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gagttgtatatatttattttGaggaatcagataggtgaatt	10	1	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:123755245G>C	uc001pzi.2	-	2	488	c.280C>G	c.(280-282)CAA>GAA	p.Q94E		NM_001013743	NP_001013765	Q6GV28	TM225_HUMAN	transmembrane protein 225	94						integral to membrane				upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	3						TATTTATTTTGAGGAATCAGA	0.428													16	19	---	---	---	---	PASS	C	123755245	C	C	123755245	3	2	98	1	0	0	0	0	1	0	0	0	16144	1299	45	2	409	2	TMEM225	11	123755245	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	15207428	123755245	11251271	226	36506										
OR10G8	219869	broad.mit.edu	37	chr11	123901086	123901086	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tggtcctttgcttctttggcCctggtcttttcatttacctg	8	11	3	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:123901086C>A	uc001pzp.1	+	1	757	c.757C>A	c.(757-759)CCT>ACT	p.P253T		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		CTTCTTTGGCCCTGGTCTTTT	0.552													6	35	---	---	---	---	PASS	A	123901086	A	A	123901086	3	1	98	1	0	0	0	0	1	0	0	0	10903	623	22	3	759	3	OR10G8	11	123901086	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	145841	123901086	11105430	227	36507										
OR8B4	283162	broad.mit.edu	37	chr11	124294600	124294600	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aggaaaaagtacatgggggtGtgaaggctaggatttatccc	14	5	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:124294600G>T	uc010sak.1	-	1	168	c.168C>A	c.(166-168)CAC>CAA	p.H56Q		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		ACATGGGGGTGTGAAGGCTAG	0.418													16	27	---	---	---	---	PASS	T	124294600	T	T	124294600	3	4	98	1	0	0	0	0	1	0	0	0	11229	1368	48	3	763	3	OR8B4	11	124294600	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	393514	124294600	10711916	228	36508										
ROBO4	54538	broad.mit.edu	37	chr11	124763909	124763909	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggtccagggaccatgctcacTgggttcttgggtggctcgct	15	11	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:124763909T>G	uc001qbg.2	-	9	1491	c.1351A>C	c.(1351-1353)AGT>CGT	p.S451R	ROBO4_uc010sas.1_Missense_Mutation_p.S306R|ROBO4_uc001qbh.2_Missense_Mutation_p.S341R|ROBO4_uc001qbi.2_Missense_Mutation_p.S9R|ROBO4_uc010sat.1_Missense_Mutation_p.S9R	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	451					angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		CCATGCTCACTGGGTTCTTGG	0.627													6	6	---	---	---	---	PASS	G	124763909	G	G	124763909	3	3	98	1	0	0	0	0	1	0	0	0	13516	1580	55	5	1712	5	ROBO4	11	124763909	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	469309	124763909	10242607	229	36509										
STT3A	3703	broad.mit.edu	37	chr11	125472288	125472288	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gaccgagcctggtaccctttGggacgaatcattggaggaac	13	10	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:125472288G>A	uc001qcd.2	+	4	350	c.240G>A	c.(238-240)TTG>TTA	p.L80L	STT3A_uc009zbm.2_Silent_p.L80L|STT3A_uc001qce.2_Silent_p.L80L|STT3A_uc010sbg.1_5'UTR	NM_152713	NP_689926	P46977	STT3A_HUMAN	integral membrane protein 1	80	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity				0	all_hematologic(175;0.228)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0996)		GGTACCCTTTGGGACGAATCA	0.393													5	21	---	---	---	---	PASS	A	125472288	A	A	125472288	2	1	98	1	0	0	0	0	0	0	0	1	15332	1339	47	3		3	STT3A	11	125472288	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	708379	125472288	9534228	230	36510										
NCAPD3	23310	broad.mit.edu	37	chr11	134038450	134038450	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gaaatttgtagattttcattCgtctctctttgtttgacttt	6	6	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr11:134038450C>A	uc001qhd.1	-	26	3893	c.3287G>T	c.(3286-3288)CGA>CTA	p.R1096L	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_Intron|NCAPD3_uc001qhc.1_Missense_Mutation_p.R46L	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	1096					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		GATTTTCATTCGTCTCTCTTT	0.443													5	28	---	---	---	---	PASS	A	134038450	A	A	134038450	3	1	98	1	0	0	0	0	1	0	0	0	10206	884	31	2	1249	2	NCAPD3	11	134038450	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	8566162	134038450	968066	231	36511										
SLC6A12	6539	broad.mit.edu	37	chr12	319118	319118	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggacccaggagactgcaggaGgcccacactcttgcactgcc	12	15	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:319118G>T	uc001qhz.2	-	4	578	c.35C>A	c.(34-36)CCT>CAT	p.P12H	SLC6A12_uc001qia.2_Missense_Mutation_p.P12H|SLC6A12_uc001qib.2_Missense_Mutation_p.P12H|SLC6A12_uc009zdh.1_Missense_Mutation_p.P12H|SLC6A12_uc009zdi.1_RNA	NM_003044	NP_003035	P48065	S6A12_HUMAN	solute carrier family 6 (neurotransmitter	12	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(10;0.0172)|all_epithelial(11;0.0283)|all_lung(10;0.0392)|Lung NSC(10;0.0567)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00227)			GACTGCAGGAGGCCCACACTC	0.622													16	37	---	---	---	---	PASS	T	319118	T	T	319118	3	4	98	1	0	0	0	0	1	0	0	0	14675	1000	35	3	1865	3	SLC6A12	12	319118	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08		319118	133532777	232	36512										
NRIP2	83714	broad.mit.edu	37	chr12	2943895	2943895	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aggaactgggtggcctgtttGagccggcgctgctggctcag	17	10	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:2943895G>C	uc001qlc.2	-	1	327	c.255C>G	c.(253-255)CTC>CTG	p.L85L	NRIP2_uc010sed.1_Silent_p.L85L|uc009zdz.1_5'Flank	NM_031474	NP_113662	Q9BQI9	NRIP2_HUMAN	nuclear receptor interacting protein 2	85					proteolysis|transcription, DNA-dependent	cytoplasm|nucleus	aspartic-type endopeptidase activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			TGGCCTGTTTGAGCCGGCGCT	0.657													17	68	---	---	---	---	PASS	C	2943895	C	C	2943895	2	2	98	1	0	0	0	0	0	0	0	1	10653	1277	45	2		2	NRIP2	12	2943895	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	2624777	2943895	130908000	233	36513										
KIAA1467	57613	broad.mit.edu	37	chr12	13220127	13220127	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cactgcgggacatttttgttCaggcccaaaatcgagacagc	10	11	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:13220127C>G	uc001rbi.2	+	7	1062	c.1039C>G	c.(1039-1041)CAG>GAG	p.Q347E	KIAA1467_uc009zhx.1_RNA	NM_020853	NP_065904	A2RU67	K1467_HUMAN	hypothetical protein LOC57613	347						integral to membrane				central_nervous_system(2)|skin(1)	3		Prostate(47;0.184)		BRCA - Breast invasive adenocarcinoma(232;0.157)		CATTTTTGTTCAGGCCCAAAA	0.458													32	49	---	---	---	---	PASS	G	13220127	G	G	13220127	3	3	98	1	0	0	0	0	1	0	0	0	8235	827	29	2	1065	2	KIAA1467	12	13220127	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	10276232	13220127	120631768	234	36514										
PLEKHA5	54477	broad.mit.edu	37	chr12	19440426	19440426	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcatgtctatgtgcctgacaGaaggtcagtgccagctggcc	13	11	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:19440426G>A	uc001reb.2	+	12	1867	c.1781G>A	c.(1780-1782)AGA>AAA	p.R594K	PLEKHA5_uc010sie.1_Missense_Mutation_p.R600K|PLEKHA5_uc001rea.2_Missense_Mutation_p.R594K|PLEKHA5_uc009zin.2_Missense_Mutation_p.R352K|PLEKHA5_uc010sif.1_Missense_Mutation_p.R486K|PLEKHA5_uc010sig.1_Missense_Mutation_p.R486K|PLEKHA5_uc010sih.1_Missense_Mutation_p.R486K|PLEKHA5_uc001rec.1_Missense_Mutation_p.R282K	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	594							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					GTGCCTGACAGAAGGTCAGTG	0.388													19	70	---	---	---	---	PASS	A	19440426	A	A	19440426	3	1	98	1	0	0	0	0	1	0	0	0	12059	942	33	2	1827	2	PLEKHA5	12	19440426	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	6220299	19440426	114411469	235	36515										
KIAA0528	9847	broad.mit.edu	37	chr12	22635541	22635541	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgtgatctgaattcttagtcCaaacaaagcattcattcctt	5	9	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:22635541C>A	uc001rfq.2	-	14	1915	c.1687G>T	c.(1687-1689)GGA>TGA	p.G563*	KIAA0528_uc010sir.1_Nonsense_Mutation_p.G378*|KIAA0528_uc010sis.1_Nonsense_Mutation_p.G563*|KIAA0528_uc010sit.1_Nonsense_Mutation_p.G565*|KIAA0528_uc010siu.1_Nonsense_Mutation_p.G563*|KIAA0528_uc001rfr.2_Nonsense_Mutation_p.G554*|KIAA0528_uc009ziy.1_Nonsense_Mutation_p.G565*	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	563							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						ATTCTTAGTCCAAACAAAGCA	0.323													43	45	---	---	---	---	PASS	A	22635541	A	A	22635541	4	1	98	1	0	0	0	0	0	1	0	0	8182	603	21	3	1363	3	KIAA0528	12	22635541	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	3195115	22635541	111216354	236	36516										
TMEM117	84216	broad.mit.edu	37	chr12	44782229	44782229	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	catgaaaagaaaatctccatCagaacatagcaaagacatgg	7	8	2	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:44782229C>A	uc001rod.2	+	8	1385	c.1319C>A	c.(1318-1320)TCA>TAA	p.S440*	TMEM117_uc001roe.2_Nonsense_Mutation_p.S336*|TMEM117_uc009zkc.2_3'UTR	NM_032256	NP_115632	Q9H0C3	TM117_HUMAN	transmembrane protein 117	440						endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		AAATCTCCATCAGAACATAGC	0.408													32	48	---	---	---	---	PASS	A	44782229	A	A	44782229	4	1	98	1	0	0	0	0	0	1	0	0	16028	838	29	2	1345	2	TMEM117	12	44782229	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	22146688	44782229	89069666	237	36517										
RPAP3	79657	broad.mit.edu	37	chr12	48090172	48090172	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcatcatattttccttgtttGaagtatttattgccctgaaa	5	7	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:48090172G>A	uc001rpr.2	-	5	548	c.432C>T	c.(430-432)TTC>TTT	p.F144F	RPAP3_uc010slk.1_5'UTR|RPAP3_uc001rps.2_Silent_p.F144F	NM_024604	NP_078880	Q9H6T3	RPAP3_HUMAN	RNA polymerase II associated protein 3 isoform	144	TPR 2.						binding			ovary(1)	1	Lung SC(27;0.192)					TTCCTTGTTTGAAGTATTTAT	0.284													8	24	---	---	---	---	PASS	A	48090172	A	A	48090172	2	1	98	1	0	0	0	0	0	0	0	1	13543	1281	45	2		2	RPAP3	12	48090172	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	3307943	48090172	85761723	238	36518										
C12orf41	54934	broad.mit.edu	37	chr12	49048747	49048748	+	Frame_Shift_Ins	INS	-	A	A													0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atatccactgggtcttcagcINSaatttctttgactaaatgat							TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:49048747_49048748insA	uc001rrx.2	-	9	1398_1399	c.1323_1324insT	c.(1321-1326)ATTGCTfs	p.I441fs	C12orf41_uc001rrw.2_Frame_Shift_Ins_p.I212fs|C12orf41_uc001rrz.2_Frame_Shift_Ins_p.I624fs|C12orf41_uc001rry.2_RNA|C12orf41_uc001rru.2_Frame_Shift_Ins_p.I72fs|C12orf41_uc001rrv.2_Frame_Shift_Ins_p.I125fs|SNORA34_uc001rsa.1_5'Flank|MIR1291_hsa-mir-1291|MI0006353_5'Flank	NM_017822	NP_060292	Q9H9L4	CL041_HUMAN	hypothetical protein LOC54934	441_442										ovary(2)	2						GGGTCTTCAGCAATTTCTTTGA	0.465													10	6	---	---	---	---		A	49048748	A	A	49048747	7	5	98	1	0	1	1	0	0	0	0	0	1687	710	25	0	162	0	C12orf41	12	49048747	Frame_Shift_Ins	INS	-	TCGA-43-3920-01A-01D-0983-08	958575	49048747	84803148	239	36519										
CALCOCO1	57658	broad.mit.edu	37	chr12	54109789	54109789	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctggcttgaggctgcaagctCctgggcccctcgaagctgct	13	14	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:54109789C>G	uc001sef.2	-	9	1192	c.1048G>C	c.(1048-1050)GAG>CAG	p.E350Q	CALCOCO1_uc001see.2_5'Flank|CALCOCO1_uc010som.1_Missense_Mutation_p.E265Q|CALCOCO1_uc010son.1_Missense_Mutation_p.E227Q|CALCOCO1_uc001seh.2_Missense_Mutation_p.E350Q|CALCOCO1_uc009znd.2_Missense_Mutation_p.E350Q|CALCOCO1_uc001seg.2_Missense_Mutation_p.E175Q|CALCOCO1_uc010soo.1_Missense_Mutation_p.E343Q	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	350					steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						GCTGCAAGCTCCTGGGCCCCT	0.597													3	11	---	---	---	---	PASS	G	54109789	G	G	54109789	3	3	98	1	0	0	0	0	1	0	0	0	2577	864	30	2	1055	2	CALCOCO1	12	54109789	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	5061042	54109789	79742106	240	36520										
LRP1	4035	broad.mit.edu	37	chr12	57605310	57605310	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cccccagctgtctgacctgcGtcggccactgcagcaatggc	11	17	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:57605310G>T	uc001snd.2	+	85	13598	c.13132G>T	c.(13132-13134)GTC>TTC	p.V4378F		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	4378	Extracellular (Potential).|EGF-like 22.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TCTGACCTGCGTCGGCCACTG	0.637													8	11	---	---	---	---	PASS	T	57605310	T	T	57605310	3	4	98	1	0	0	0	0	1	0	0	0	8951	1145	40	1	13470	1	LRP1	12	57605310	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	3495521	57605310	76246585	241	36521										
R3HDM2	22864	broad.mit.edu	37	chr12	57662127	57662127	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggtgggatcatgctatagtaCactggtacccccgctgctgg	13	11	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:57662127C>T	uc009zpm.1	-	16	1982	c.1947G>A	c.(1945-1947)GTG>GTA	p.V649V	R3HDM2_uc010srn.1_RNA|R3HDM2_uc001snu.2_Silent_p.V344V|R3HDM2_uc001snr.2_Silent_p.V376V|R3HDM2_uc001sns.2_Silent_p.V649V|R3HDM2_uc001snt.2_Silent_p.V663V|R3HDM2_uc009zpn.1_Intron	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	649	Gln-rich.					nucleus	nucleic acid binding			ovary(2)	2						TGCTATAGTACACTGGTACCC	0.582													12	45	---	---	---	---	PASS	T	57662127	T	T	57662127	2	4	98	1	0	0	0	0	0	0	0	1	12888	465	17	3		3	R3HDM2	12	57662127	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	56817	57662127	76189768	242	36522										
PTPRB	5787	broad.mit.edu	37	chr12	70918334	70918334	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtagctttcttgctctgaggAcatctcttacacactgatgt	8	10	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:70918334A>T	uc001swb.3	-	31	5918	c.5888T>A	c.(5887-5889)GTC>GAC	p.V1963D	uc001svz.2_Intron|PTPRB_uc010sto.1_Missense_Mutation_p.V1873D|PTPRB_uc010stp.1_Missense_Mutation_p.V1873D|PTPRB_uc001swc.3_Missense_Mutation_p.V2181D|PTPRB_uc001swa.3_Missense_Mutation_p.V2093D	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1963	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			TGCTCTGAGGACATCTCTTAC	0.433													17	54	---	---	---	---	PASS	T	70918334	T	T	70918334	3	4	98	1	0	0	0	0	1	0	0	0	12796	275	10	5	113	5	PTPRB	12	70918334	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	13256207	70918334	62933561	243	36523										
ZDHHC17	23390	broad.mit.edu	37	chr12	77208951	77208951	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agatatgatggatcagaatgGaatgacgcctttaatgtggg	13	4	1	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:77208951G>C	uc001syk.1	+	6	732	c.569G>C	c.(568-570)GGA>GCA	p.G190A	ZDHHC17_uc001syi.1_RNA|ZDHHC17_uc001syj.2_RNA	NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	190	ANK 4.|Cytoplasmic (Potential).				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						GATCAGAATGGAATGACGCCT	0.303													4	4	---	---	---	---	PASS	C	77208951	C	C	77208951	3	2	98	1	0	0	0	0	1	0	0	0	17604	1174	41	2	591	2	ZDHHC17	12	77208951	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	6290617	77208951	56642944	244	36524										
LRRIQ1	84125	broad.mit.edu	37	chr12	85441059	85441059	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aattttggatactgtgaagtGgaagaaaaatgtagacagtc	11	3	0	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:85441059G>T	uc001tac.2	+	6	600	c.489G>T	c.(487-489)GTG>GTT	p.V163V	LRRIQ1_uc001tab.1_Silent_p.V163V|LRRIQ1_uc001taa.1_Silent_p.V163V|LRRIQ1_uc001tad.2_Silent_p.V71V	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	163	Glu-rich.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		ACTGTGAAGTGGAAGAAAAAT	0.338													5	62	---	---	---	---	PASS	T	85441059	T	T	85441059	2	4	98	1	0	0	0	0	0	0	0	1	9029	1335	47	3		3	LRRIQ1	12	85441059	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	8232108	85441059	48410836	245	36525										
C12orf50	160419	broad.mit.edu	37	chr12	88420267	88420267	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttcaaaaaatgtactcactgCtacttggtggcaaaaataat	6	7	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:88420267C>G	uc001tam.1	-	3	299	c.131G>C	c.(130-132)AGC>ACC	p.S44T	C12orf50_uc001tan.2_Missense_Mutation_p.S98T	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	44										skin(2)|ovary(1)	3						GTACTCACTGCTACTTGGTGG	0.368													10	24	---	---	---	---	PASS	G	88420267	G	G	88420267	3	3	98	1	0	0	0	0	1	0	0	0	1695	797	28	4	1157	4	C12orf50	12	88420267	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	2979208	88420267	45431628	246	36526										
VEZT	55591	broad.mit.edu	37	chr12	95611630	95611630	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tggcatggcggagaaggatgAcaccggagtttgacgaagag	17	6	0	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:95611630A>G	uc001tdz.2	+	1	109	c.4A>G	c.(4-6)ACA>GCA	p.T2A	FGD6_uc001tdp.3_5'Flank|FGD6_uc009zsx.2_5'Flank|VEZT_uc009zsy.1_5'UTR|VEZT_uc001tdr.2_5'UTR|VEZT_uc001tds.2_5'UTR|VEZT_uc001tdt.2_5'UTR|VEZT_uc009zsz.1_Missense_Mutation_p.T2A|VEZT_uc001tdv.2_5'UTR|VEZT_uc001tdw.1_5'Flank	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	2						acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						GAGAAGGATGACACCGGAGTT	0.582													13	15	---	---	---	---	PASS	G	95611630	G	G	95611630	3	3	98	1	0	0	0	0	1	0	0	0	17153	275	10	5	6	5	VEZT	12	95611630	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	7191363	95611630	38240265	247	36527										
ANO4	121601	broad.mit.edu	37	chr12	101368626	101368626	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttttgctgttcttccaggagAaaaatctattacctgccccg	7	11	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:101368626A>T	uc010svm.1	+	7	1133	c.561A>T	c.(559-561)AGA>AGT	p.R187S	ANO4_uc010svl.1_RNA|ANO4_uc001thw.2_Missense_Mutation_p.R152S|ANO4_uc001thx.2_Missense_Mutation_p.R187S	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	187	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						CTTCCAGGAGAAAAATCTATT	0.463										HNSCC(74;0.22)			20	59	---	---	---	---	PASS	T	101368626	T	T	101368626	3	4	98	1	0	0	0	0	1	0	0	0	699	243	9	5	474	5	ANO4	12	101368626	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	5756996	101368626	32483269	248	36528										
STAB2	55576	broad.mit.edu	37	chr12	104030921	104030921	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtgcagccttgctctgcccaGaaaattccagatgttcgcct	9	13	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr12:104030921G>C	uc001tjw.2	+	7	802	c.616G>C	c.(616-618)GAA>CAA	p.E206Q		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	206	Extracellular (Potential).|EGF-like 3.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GCTCTGCCCAGAAAATTCCAG	0.453													35	39	---	---	---	---	PASS	C	104030921	C	C	104030921	3	2	98	1	0	0	0	0	1	0	0	0	15237	943	33	2	642	2	STAB2	12	104030921	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	2662295	104030921	29820974	249	36529										
C13orf23	80209	broad.mit.edu	37	chr13	39587671	39587671	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aggctgaggagccacagctaActggcactgacgtggaagct	14	10	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr13:39587671A>T	uc001uwy.2	-	11	2591	c.1718T>A	c.(1717-1719)GTT>GAT	p.V573D	C13orf23_uc001uwz.2_Missense_Mutation_p.V551D	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	573	Ser-rich.									ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		GCCACAGCTAACTGGCACTGA	0.557													30	30	---	---	---	---	PASS	T	39587671	T	T	39587671	3	4	98	1	0	0	0	0	1	0	0	0	1721	43	2	5	1128	5	C13orf23	13	39587671	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08		39587671	75582207	250	36530										
TSC22D1	8848	broad.mit.edu	37	chr13	45148757	45148757	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gggctcccatctctccacttCccacactctctgtatagtga	6	16	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr13:45148757C>A	uc001uzn.3	-	1	1945	c.1454G>T	c.(1453-1455)GGA>GTA	p.G485V	TSC22D1_uc001uzo.1_Missense_Mutation_p.G485V	NM_183422	NP_904358	Q15714	T22D1_HUMAN	TSC22 domain family, member 1 isoform 1	485					transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(4;8.74e-08)|Acute lymphoblastic leukemia(4;1.78e-07)|Lung NSC(96;2.21e-05)|Breast(139;0.000625)|Prostate(109;0.000947)|Hepatocellular(98;0.0202)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000522)|BRCA - Breast invasive adenocarcinoma(63;0.118)		CTCTCCACTTCCCACACTCTC	0.413													18	30	---	---	---	---	PASS	A	45148757	A	A	45148757	3	1	98	1	0	0	0	0	1	0	0	0	16604	855	30	2	1908	2	TSC22D1	13	45148757	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	5561086	45148757	70021121	251	36531										
CYSLTR2	57105	broad.mit.edu	37	chr13	49281313	49281313	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atgtcttattccttgtatgtCaacatgtacagcagtattta	6	7	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr13:49281313C>G	uc010acx.1	+	6	1043	c.360C>G	c.(358-360)GTC>GTG	p.V120V	CYSLTR2_uc010acy.1_Silent_p.V120V|CYSLTR2_uc010acz.1_Silent_p.V120V|CYSLTR2_uc010ada.1_Silent_p.V120V|CYSLTR2_uc010adb.1_Silent_p.V120V|CYSLTR2_uc010adc.1_Silent_p.V120V|CYSLTR2_uc010add.1_Silent_p.V120V|CYSLTR2_uc010acw.1_Silent_p.V120V|CYSLTR2_uc001vck.2_Silent_p.V120V	NM_020377	NP_065110	Q9NS75	CLTR2_HUMAN	cysteinyl leukotriene receptor 2	120	Extracellular (Potential).				immune response	integral to membrane|plasma membrane				lung(2)	2		all_cancers(8;1.66e-53)|all_epithelial(8;1.96e-19)|all_lung(13;9.94e-09)|all_hematologic(8;7.13e-07)|Lung NSC(96;1.72e-06)|Breast(56;1.53e-05)|Acute lymphoblastic leukemia(8;6.86e-05)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0416)|Lung SC(185;0.0787)		GBM - Glioblastoma multiforme(99;1.19e-09)	Nedocromil(DB00716)	CCTTGTATGTCAACATGTACA	0.468													22	34	---	---	---	---	PASS	G	49281313	G	G	49281313	2	3	98	1	0	0	0	0	0	0	0	1	4202	813	29	2		2	CYSLTR2	13	49281313	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	4132556	49281313	65888565	252	36532										
THSD1	55901	broad.mit.edu	37	chr13	52971859	52971859	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcttgaatttcttcttgcctCaggaagactgttggtgaaga	10	7	4	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr13:52971859C>T	uc001vgo.2	-	3	1074	c.529G>A	c.(529-531)GAG>AAG	p.E177K	THSD1_uc001vgp.2_Missense_Mutation_p.E177K|THSD1_uc010tgz.1_Intron|THSD1_uc010aea.2_Intron	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	177	Extracellular (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		CTTCTTGCCTCAGGAAGACTG	0.502													13	15	---	---	---	---	PASS	T	52971859	T	T	52971859	3	4	98	1	0	0	0	0	1	0	0	0	15874	835	29	2	2041	2	THSD1	13	52971859	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	3690546	52971859	62198019	253	36533										
MYCBP2	23077	broad.mit.edu	37	chr13	77672952	77672952	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctactgtgggaatctgacctCaactttgcagcatcagattt	8	10	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr13:77672952C>T	uc001vkf.2	-	57	8314	c.8223G>A	c.(8221-8223)TTG>TTA	p.L2741L	MYCBP2_uc010aev.2_Silent_p.L2145L|MYCBP2_uc001vkg.1_Silent_p.L264L|MYCBP2_uc010aew.2_Silent_p.L127L	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2741	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AATCTGACCTCAACTTTGCAG	0.473													29	31	---	---	---	---	PASS	T	77672952	T	T	77672952	2	4	98	1	0	0	0	0	0	0	0	1	10018	825	29	2		2	MYCBP2	13	77672952	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	24701093	77672952	37496926	254	36534										
GPC5	2262	broad.mit.edu	37	chr13	92380910	92380910	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cagtgaagagacgcttgccaAcagaagaaagtaagacattt	10	7	0	5			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr13:92380910A>G	uc010tif.1	+	4	1511	c.1145A>G	c.(1144-1146)AAC>AGC	p.N382S		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	382						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				ACGCTTGCCAACAGAAGAAAG	0.368													39	50	---	---	---	---	PASS	G	92380910	G	G	92380910	3	3	98	1	0	0	0	0	1	0	0	0	6601	43	2	5	1159	5	GPC5	13	92380910	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	14707958	92380910	22788968	255	36535										
COL4A1	1282	broad.mit.edu	37	chr13	110827678	110827678	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	accttgtgggccagggatgcCaggcacacctttctctccag	11	14	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr13:110827678C>A	uc001vqw.3	-	37	3207	c.3085G>T	c.(3085-3087)GGC>TGC	p.G1029C	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1029	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CCAGGGATGCCAGGCACACCT	0.507													7	5	---	---	---	---	PASS	A	110827678	A	A	110827678	3	1	98	1	0	0	0	0	1	0	0	0	3689	594	21	3	1988	3	COL4A1	13	110827678	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	18446768	110827678	4342200	256	36536										
F7	2155	broad.mit.edu	37	chr13	113768231	113768231	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gaccagctccagtcctatatCtgcttctgcctccctgcctt	6	17	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr13:113768231C>T	uc001vsv.2	+	5	438	c.387C>T	c.(385-387)ATC>ATT	p.I129I	F7_uc010agp.1_Silent_p.I122I|F7_uc001vsw.2_Silent_p.I107I|F7_uc010tjt.1_Silent_p.I60I	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	129	EGF-like 1; calcium-binding (Potential).				anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	AGTCCTATATCTGCTTCTGCC	0.602													11	11	---	---	---	---	PASS	T	113768231	T	T	113768231	2	4	98	1	0	0	0	0	0	0	0	1	5349	903	32	2		2	F7	13	113768231	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	2940553	113768231	1401647	257	36537										
OR11H4	390442	broad.mit.edu	37	chr14	20711715	20711715	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tctacctgtggttctcatttGgttgtggtatctcttttcta	8	8	4	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:20711715G>A	uc010tld.1	+	1	765	c.765G>A	c.(763-765)TTG>TTA	p.L255L		NM_001004479	NP_001004479	Q8NGC9	O11H4_HUMAN	olfactory receptor, family 11, subfamily H,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.000888)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0146)		GTTCTCATTTGGTTGTGGTAT	0.418													45	53	---	---	---	---	PASS	A	20711715	A	A	20711715	2	1	98	1	0	0	0	0	0	0	0	1	10928	1339	47	3		3	OR11H4	14	20711715	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08		20711715	86637825	258	36538										
MYH7	4625	broad.mit.edu	37	chr14	23884939	23884939	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caccacggcacgcaactcctCcagctcagcctgcagcaggt	9	18	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:23884939C>G	uc001wjx.2	-	35	5162	c.5056G>C	c.(5056-5058)GAG>CAG	p.E1686Q		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1686	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CGCAACTCCTCCAGCTCAGCC	0.622													4	32	---	---	---	---	PASS	G	23884939	G	G	23884939	3	3	98	1	0	0	0	0	1	0	0	0	10039	864	30	2	775	2	MYH7	14	23884939	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	3173224	23884939	83464601	259	36539										
C14orf21	161424	broad.mit.edu	37	chr14	24772988	24772988	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caagtggcctgtgtgcctctCtttgccactttgatggctta	10	11	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:24772988C>G	uc001wol.1	+	7	1398	c.1335C>G	c.(1333-1335)CTC>CTG	p.L445L	C14orf21_uc001wom.1_5'UTR	NM_174913	NP_777573	Q86U38	CN021_HUMAN	hypothetical protein LOC161424	445							RNA binding			breast(2)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(265;0.0185)		GTGTGCCTCTCTTTGCCACTT	0.552													12	33	---	---	---	---	PASS	G	24772988	G	G	24772988	2	3	98	1	0	0	0	0	0	0	0	1	1769	900	32	2		2	C14orf21	14	24772988	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	888049	24772988	82576552	260	36540										
BAZ1A	11177	broad.mit.edu	37	chr14	35240723	35240723	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aaacagatacttaccaagtgGagctttcagaaaacgccgct	8	10	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:35240723G>C	uc001wsk.2	-	21	3863	c.3295C>G	c.(3295-3297)CCA>GCA	p.P1099A	BAZ1A_uc001wsl.2_Missense_Mutation_p.P1067A	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1099					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		TTACCAAGTGGAGCTTTCAGA	0.363													40	118	---	---	---	---	PASS	C	35240723	C	C	35240723	3	2	98	1	0	0	0	0	1	0	0	0	1329	1174	41	2	1403	2	BAZ1A	14	35240723	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	10467735	35240723	72108817	261	36541										
INSM2	84684	broad.mit.edu	37	chr14	36004316	36004316	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cagcaccgctgctcccgcatCgtgcgcgtagagtaccgctg	12	16	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:36004316C>A	uc001wth.1	+	1	1069	c.858C>A	c.(856-858)ATC>ATA	p.I286I		NM_032594	NP_115983	Q96T92	INSM2_HUMAN	insulinoma-associated protein IA-6	286					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)|skin(1)	2	Breast(36;0.122)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(9;2.16e-07)|Lung(238;2.63e-07)|Epithelial(34;0.00145)|all cancers(34;0.00452)	GBM - Glioblastoma multiforme(112;0.0223)		GCTCCCGCATCGTGCGCGTAG	0.677													9	16	---	---	---	---	PASS	A	36004316	A	A	36004316	2	1	98	1	0	0	0	0	0	0	0	1	7772	874	31	2		2	INSM2	14	36004316	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	763593	36004316	71345224	262	36542										
KTN1	3895	broad.mit.edu	37	chr14	56085932	56085932	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgaagtttaaagattttcttCtgtccttgaagactatgatg	8	5	2	5			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:56085932C>A	uc001xcb.2	+	6	1167	c.865C>A	c.(865-867)CTG>ATG	p.L289M	KTN1_uc001xce.2_Missense_Mutation_p.L289M|KTN1_uc001xcc.2_Missense_Mutation_p.L289M|KTN1_uc001xcd.2_Missense_Mutation_p.L289M|KTN1_uc010trb.1_Missense_Mutation_p.L289M|KTN1_uc001xcf.1_Missense_Mutation_p.L289M	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	289	Lumenal (Potential).				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						AGATTTTCTTCTGTCCTTGAA	0.313			T	RET	papillary thryoid								10	39	---	---	---	---	PASS	A	56085932	A	A	56085932	3	1	98	1	0	0	0	0	1	0	0	0	8585	912	32	2	879	2	KTN1	14	56085932	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	20081616	56085932	51263608	263	36543										
SLC38A6	145389	broad.mit.edu	37	chr14	61517235	61517235	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttattttatttacagacaaaGtggagtcagaattactaaaa	6	4	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:61517235G>C	uc001xfg.1	+	13	1047	c.931G>C	c.(931-933)GTG>CTG	p.V311L	SLC38A6_uc001xfh.1_Missense_Mutation_p.V311L|SLC38A6_uc001xfi.2_RNA|SLC38A6_uc001xfj.1_RNA|SLC38A6_uc001xfk.2_RNA|SLC38A6_uc010trz.1_Missense_Mutation_p.V288L	NM_153811	NP_722518	Q8IZM9	S38A6_HUMAN	solute carrier family 38, member 6	311					amino acid transport|sodium ion transport	integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(108;0.0981)		TACAGACAAAGTGGAGTCAGA	0.294													4	23	---	---	---	---	PASS	C	61517235	C	C	61517235	3	2	98	1	0	0	0	0	1	0	0	0	14608	1029	36	4	981	4	SLC38A6	14	61517235	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	5431303	61517235	45832305	264	36544										
NEK9	91754	broad.mit.edu	37	chr14	75587213	75587213	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	taattttttttacttcttacCtatgaaggattccagcttta	4	7	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:75587213C>A	uc001xrl.2	-	4	678	c.524G>T	c.(523-525)AGA>ATA	p.R175I		NM_033116	NP_149107	Q8TD19	NEK9_HUMAN	NIMA-related kinase 9	175	Protein kinase.				cell division|mitosis	mitochondrion|nucleus	ATP binding|metal ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(2)|stomach(2)|ovary(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00718)		TACTTCTTACCTATGAAGGAT	0.398													5	46	---	---	---	---	PASS	A	75587213	A	A	75587213	3	1	98	1	0	0	0	0	1	0	0	0	10331	695	24	3	2491	3	NEK9	14	75587213	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	14069978	75587213	31762327	265	36545										
ESRRB	2103	broad.mit.edu	37	chr14	76948971	76948971	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgtctcatacctactggtggCtgagccggacaagctctatg	11	11	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:76948971C>A	uc001xsq.1	+	5	723	c.656C>A	c.(655-657)GCT>GAT	p.A219D	ESRRB_uc001xsr.2_Missense_Mutation_p.A219D|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	219						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		CTACTGGTGGCTGAGCCGGAC	0.567													8	24	---	---	---	---	PASS	A	76948971	A	A	76948971	3	1	98	1	0	0	0	0	1	0	0	0	5261	797	28	3	670	3	ESRRB	14	76948971	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1361758	76948971	30400569	266	36546										
C14orf4	64207	broad.mit.edu	37	chr14	77492209	77492209	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggtagagtgcacggaactgcCatccttgggcgagtgcgctg	16	10	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:77492209C>T	uc001xsy.2	-	1	2826	c.1927G>A	c.(1927-1929)GGC>AGC	p.G643S		NM_024496	NP_078772	Q9H1B7	I2BPL_HUMAN	chromosome 14 open reading frame 4	643						nucleus					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.00347)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)		ACGGAACTGCCATCCTTGGGC	0.672													6	6	---	---	---	---	PASS	T	77492209	T	T	77492209	3	4	98	1	0	0	0	0	1	0	0	0	1773	594	21	3	467	3	C14orf4	14	77492209	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	543238	77492209	29857331	267	36547										
C14orf145	145508	broad.mit.edu	37	chr14	81302659	81302659	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gatcaccttctgctttcgtaAgttgtgtacgcagttcttct	8	10	4	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:81302659A>C	uc001xux.2	-	11	1118	c.947T>G	c.(946-948)CTT>CGT	p.L316R	C14orf145_uc010asz.1_RNA|C14orf145_uc001xuz.2_Missense_Mutation_p.L316R|C14orf145_uc001xuy.1_Missense_Mutation_p.L174R	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	316	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TGCTTTCGTAAGTTGTGTACG	0.408													10	78	---	---	---	---	PASS	C	81302659	C	C	81302659	3	2	98	1	0	0	0	0	1	0	0	0	1749	72	3	5	2393	5	C14orf145	14	81302659	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	3810450	81302659	26046881	268	36548										
CDC42BPB	9578	broad.mit.edu	37	chr14	103442072	103442072	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttcatttagctttttgatttCtttatctcggtttgaattgc	6	6	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:103442072C>G	uc001ymi.1	-	11	1688	c.1456G>C	c.(1456-1458)GAA>CAA	p.E486Q		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	486	Potential.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TTTTTGATTTCTTTATCTCGG	0.448													15	69	---	---	---	---	PASS	G	103442072	G	G	103442072	3	3	98	1	0	0	0	0	1	0	0	0	3073	922	32	2	3787	2	CDC42BPB	14	103442072	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	22139413	103442072	3907468	269	36549										
KIAA0284	283638	broad.mit.edu	37	chr14	105344820	105344820	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gagcgtgtgcagcaccgagtCccggaggaggcactcaaggt	16	11	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:105344820C>T	uc010axb.2	+	5	539	c.315C>T	c.(313-315)GTC>GTT	p.V105V	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Silent_p.V35V|KIAA0284_uc001yps.2_Silent_p.V11V	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	105						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		AGCACCGAGTCCCGGAGGAGG	0.627													19	18	---	---	---	---	PASS	T	105344820	T	T	105344820	2	4	98	1	0	0	0	0	0	0	0	1	8166	842	30	2		2	KIAA0284	14	105344820	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	1902748	105344820	2004720	270	36550										
AHNAK2	113146	broad.mit.edu	37	chr14	105405698	105405698	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cacagaaatctgggatggcaTatcagtacttgaagctttca	9	8	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr14:105405698T>A	uc010axc.1	-	7	16210	c.16090A>T	c.(16090-16092)ATG>TTG	p.M5364L	AHNAK2_uc001ypx.2_Missense_Mutation_p.M5264L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5364						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)			TGGGATGGCATATCAGTACTT	0.443													10	41	---	---	---	---	PASS	A	105405698	A	A	105405698	3	1	98	1	0	0	0	0	1	0	0	0	415	1406	49	5	1301	5	AHNAK2	14	105405698	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	60878	105405698	1943842	271	36551										
TRPM1	4308	broad.mit.edu	37	chr15	31294476	31294476	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttgaactgtactctacatccTggttaaccccaccgaccagc	6	15	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr15:31294476T>C	uc001zfm.2	-	27	4489	c.4361A>G	c.(4360-4362)CAG>CGG	p.Q1454R	TRPM1_uc010azy.2_Missense_Mutation_p.Q1361R|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1454	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		CTCTACATCCTGGTTAACCCC	0.468													31	43	---	---	---	---	PASS	C	31294476	C	C	31294476	3	2	98	1	0	0	0	0	1	0	0	0	16582	1580	55	5	454	5	TRPM1	15	31294476	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08		31294476	71236916	272	36552										
TGM5	9333	broad.mit.edu	37	chr15	43527676	43527676	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cacatgcgtaccttctttagGagagagtgtgatgaacgctg	12	8	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr15:43527676G>T	uc001zrd.1	-	10	1713	c.1705C>A	c.(1705-1707)CCT>ACT	p.P569T	TGM5_uc001zrc.1_Missense_Mutation_p.P226T|TGM5_uc001zre.1_Missense_Mutation_p.P487T	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	569					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	CCTTCTTTAGGAGAGAGTGTG	0.557													4	24	---	---	---	---	PASS	T	43527676	T	T	43527676	3	4	98	1	0	0	0	0	1	0	0	0	15830	1174	41	2	473	2	TGM5	15	43527676	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	12233200	43527676	59003716	273	36553										
ATP8B4	79895	broad.mit.edu	37	chr15	50158593	50158593	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caaagatgccattactgtgcAttgtaaataaaatggagaaa	8	5	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr15:50158593A>C	uc001zxu.2	-	26	3258	c.3116T>G	c.(3115-3117)ATG>AGG	p.M1039R	ATP8B4_uc010ber.2_Missense_Mutation_p.M912R|ATP8B4_uc010ufd.1_Missense_Mutation_p.M849R|ATP8B4_uc010ufe.1_RNA|ATP8B4_uc001zxt.2_Missense_Mutation_p.M42R	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	1039	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		ATTACTGTGCATTGTAAATAA	0.393													11	49	---	---	---	---	PASS	C	50158593	C	C	50158593	3	2	98	1	0	0	0	0	1	0	0	0	1197	217	8	5	474	5	ATP8B4	15	50158593	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	6630917	50158593	52372799	274	36554										
UNC13C	440279	broad.mit.edu	37	chr15	54707216	54707216	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aacatgggaaaaataagtgcCgaaattatgtggactctttt	9	5	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr15:54707216C>T	uc002ack.2	+	17	4884	c.4884C>T	c.(4882-4884)GCC>GCT	p.A1628A	UNC13C_uc002acl.2_Silent_p.A458A	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1628					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AAATAAGTGCCGAAATTATGT	0.313													6	44	---	---	---	---	PASS	T	54707216	T	T	54707216	2	4	98	1	0	0	0	0	0	0	0	1	16983	639	23	1		1	UNC13C	15	54707216	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	4548623	54707216	47824176	275	36555										
LCTL	197021	broad.mit.edu	37	chr15	66850219	66850219	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gttcaatgaaattcccaccaGaccttaaaagaaaagaaaga	6	8	1	5			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr15:66850219G>T	uc002aqc.2	-	8	895	c.763C>A	c.(763-765)CTG>ATG	p.L255M	LCTL_uc002aqd.3_Missense_Mutation_p.L82M|LCTL_uc010bhw.2_Translation_Start_Site	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	255	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						ATTCCCACCAGACCTTAAAAG	0.537													38	45	---	---	---	---	PASS	T	66850219	T	T	66850219	3	4	98	1	0	0	0	0	1	0	0	0	8694	933	33	2	964	2	LCTL	15	66850219	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	12143003	66850219	35681173	276	36556										
ITGA11	22801	broad.mit.edu	37	chr15	68624279	68624279	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggttgtcctccaggggggctCccaccaccacgtcattgtag	12	14	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr15:68624279C>T	uc002ari.2	-	14	1775	c.1688G>A	c.(1687-1689)GGA>GAA	p.G563E	ITGA11_uc010bib.2_Missense_Mutation_p.G563E	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	563	FG-GAP 6.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	CAGGGGGGCTCCCACCACCAC	0.562													5	9	---	---	---	---	PASS	T	68624279	T	T	68624279	3	4	98	1	0	0	0	0	1	0	0	0	7874	855	30	2	1946	2	ITGA11	15	68624279	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1774060	68624279	33907113	277	36557										
AP3B2	8120	broad.mit.edu	37	chr15	83358145	83358145	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cttaccgccacaatcctcttCatggcctccagcttgagaga	7	15	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr15:83358145C>T	uc010uoh.1	-	2	351	c.174G>A	c.(172-174)ATG>ATA	p.M58I	AP3B2_uc010uoi.1_Missense_Mutation_p.M58I|AP3B2_uc010uoj.1_Missense_Mutation_p.M58I|AP3B2_uc010uok.1_Missense_Mutation_p.M58I	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	58					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)			CAATCCTCTTCATGGCCTCCA	0.587													11	14	---	---	---	---	PASS	T	83358145	T	T	83358145	3	4	98	1	0	0	0	0	1	0	0	0	745	826	29	2	3098	2	AP3B2	15	83358145	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	14733866	83358145	19173247	278	36558										
ALPK3	57538	broad.mit.edu	37	chr15	85407730	85407730	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aatatcccatatgctaccctGgaggaagacctgggcaagcc	10	12	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr15:85407730G>A	uc002ble.2	+	12	5330	c.5163G>A	c.(5161-5163)CTG>CTA	p.L1721L	ALPK3_uc010upc.1_Silent_p.L22L	NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1721	Alpha-type protein kinase.				heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			ATGCTACCCTGGAGGAAGACC	0.532													16	35	---	---	---	---	PASS	A	85407730	A	A	85407730	2	1	98	1	0	0	0	0	0	0	0	1	546	1335	47	3		3	ALPK3	15	85407730	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	2049585	85407730	17123662	279	36559										
PDE8A	5151	broad.mit.edu	37	chr15	85661024	85661024	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caattctacacattctgctgAtgtgcttcatgccactgcct	6	13	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr15:85661024A>T	uc002blh.2	+	17	1877	c.1688A>T	c.(1687-1689)GAT>GTT	p.D563V	PDE8A_uc002bli.2_Missense_Mutation_p.D517V|PDE8A_uc010bnc.2_Missense_Mutation_p.D316V|PDE8A_uc010bnd.2_Missense_Mutation_p.D316V|PDE8A_uc002blj.2_Missense_Mutation_p.D183V|PDE8A_uc002blk.2_Missense_Mutation_p.D183V|PDE8A_uc002bll.2_5'Flank	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	563	Catalytic (By similarity).				cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			CATTCTGCTGATGTGCTTCAT	0.448													35	63	---	---	---	---	PASS	T	85661024	T	T	85661024	3	4	98	1	0	0	0	0	1	0	0	0	11653	333	12	5	1754	5	PDE8A	15	85661024	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	253294	85661024	16870368	280	36560										
ARRDC4	91947	broad.mit.edu	37	chr15	98509239	98509239	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aagcgggaactccaggttgtTagtcatgtcgatgtcaacac	11	9	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr15:98509239T>C	uc010bom.2	+	3	648	c.489T>C	c.(487-489)GTT>GTC	p.V163V	ARRDC4_uc002bui.3_Silent_p.V76V	NM_183376	NP_899232	Q8NCT1	ARRD4_HUMAN	arrestin domain containing 4	163					signal transduction						0	Melanoma(26;0.00539)|Lung NSC(78;0.0125)|all_lung(78;0.0222)		OV - Ovarian serous cystadenocarcinoma(32;0.0417)			TCCAGGTTGTTAGTCATGTCG	0.333													5	39	---	---	---	---	PASS	C	98509239	C	C	98509239	2	2	98	1	0	0	0	0	0	0	0	1	985	1741	61	5		5	ARRDC4	15	98509239	Silent	SNP	T	TCGA-43-3920-01A-01D-0983-08	12848215	98509239	4022153	281	36561										
RHOT2	89941	broad.mit.edu	37	chr16	722740	722740	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agatggtctgctggccacatCgctggacgccacctgtgacg	13	13	1	2	rs150996889	byFrequency	TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:722740C>T	uc002cip.2	+	17	1509	c.1442C>T	c.(1441-1443)TCG>TTG	p.S481L	RHOT2_uc002ciq.2_Missense_Mutation_p.S374L|RHOT2_uc010bqy.2_Missense_Mutation_p.S260L|RHBDL1_uc002cir.1_5'Flank|RHBDL1_uc010uun.1_5'Flank	NM_138769	NP_620124	Q8IXI1	MIRO2_HUMAN	ras homolog gene family, member T2	481	Miro 2.|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			pancreas(1)	1		Hepatocellular(780;0.0218)				CTGGCCACATCGCTGGACGCC	0.622													6	11	---	---	---	---	PASS	T	722740	T	T	722740	3	4	98	1	0	0	0	0	1	0	0	0	13344	893	31	2	1508	2	RHOT2	16	722740	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08		722740	89632013	282	36562										
MSLNL	401827	broad.mit.edu	37	chr16	820927	820927	+	Frame_Shift_Del	DEL	G	-	-													0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gagcacgtccttccggctctGggggcaggaggagaggtcca							TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:820927delG	uc002cjz.1	-	13	2458	c.2458delC	c.(2458-2460)CAGfs	p.Q820fs		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	469	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						TTCCGGCTCTGGGGGCAGGAG	0.692													4	2	---	---	---	---		-	820927	-	-	820927	7	5	98	1	0	1	0	1	0	0	0	0	9882	1357	47	0	719	0	MSLNL	16	820927	Frame_Shift_Del	DEL	G	TCGA-43-3920-01A-01D-0983-08	98187	820927	89533826	283	36563										
TIGD7	91151	broad.mit.edu	37	chr16	3349210	3349210	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aaattcagcagtctgcttctCagcttctcctcctttttgaa	5	12	4	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:3349210C>G	uc002cus.2	-	1	2191	c.1405G>C	c.(1405-1407)GAG>CAG	p.E469Q	ZNF263_uc002cur.2_3'UTR	NM_033208	NP_149985	Q6NT04	TIGD7_HUMAN	tigger transposable element derived 7	469					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						GTCTGCTTCTCAGCTTCTCCT	0.398													47	69	---	---	---	---	PASS	G	3349210	G	G	3349210	3	3	98	1	0	0	0	0	1	0	0	0	15898	835	29	2	248	2	TIGD7	16	3349210	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	2528283	3349210	87005543	284	36564										
UBN1	29855	broad.mit.edu	37	chr16	4924300	4924300	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gccctcagatcaccaaacagGaggcctgagtattggggcct	12	12	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:4924300G>A	uc002cyb.2	+	15	2228	c.1889G>A	c.(1888-1890)GGA>GAA	p.G630E	UBN1_uc010uxw.1_Missense_Mutation_p.G630E|UBN1_uc002cyc.2_Missense_Mutation_p.G630E	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	630					chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						CACCAAACAGGAGGCCTGAGT	0.542													20	85	---	---	---	---	PASS	A	4924300	A	A	4924300	3	1	98	1	0	0	0	0	1	0	0	0	16889	1174	41	2	1943	2	UBN1	16	4924300	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	1575090	4924300	85430453	285	36565										
TNP2	7142	broad.mit.edu	37	chr16	11362982	11362982	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gggctctggctggagctctgGctccggctgccacgatggct	16	13	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:11362982G>C	uc002das.2	-	1	179	c.138C>G	c.(136-138)AGC>AGG	p.S46R	C16orf75_uc002daq.1_Intron	NM_005425	NP_005416	Q05952	STP2_HUMAN	transition protein 2 (during histone to	46					cell differentiation|multicellular organismal development|spermatogenesis	nucleosome|nucleus	DNA binding				0						TGGAGCTCTGGCTCCGGCTGC	0.632													12	39	---	---	---	---	PASS	C	11362982	C	C	11362982	3	2	98	1	0	0	0	0	1	0	0	0	16331	1194	42	4	286	4	TNP2	16	11362982	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	6438682	11362982	78991771	286	36566										
KIAA0430	9665	broad.mit.edu	37	chr16	15690595	15690595	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gaaaagttggctgccaatttGactctatttttgggttgctt	10	6	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:15690595G>C	uc002ddr.2	-	27	5377	c.5184C>G	c.(5182-5184)GTC>GTG	p.V1728V	KIAA0430_uc002ddq.2_Silent_p.V1562V|KIAA0430_uc010uzv.1_Silent_p.V1724V|KIAA0430_uc010uzw.1_Silent_p.V1727V	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	1727						peroxisome	nucleotide binding|RNA binding				0						CTGCCAATTTGACTCTATTTT	0.498													20	29	---	---	---	---	PASS	C	15690595	C	C	15690595	2	2	98	1	0	0	0	0	0	0	0	1	8177	1277	45	2		2	KIAA0430	16	15690595	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	4327613	15690595	74664158	287	36567										
SMG1	23049	broad.mit.edu	37	chr16	18847402	18847402	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agtgatgcagttgctccagaCagccacggagcacggagcgc	14	12	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:18847402C>A	uc002dfm.2	-	48	8273	c.7910G>T	c.(7909-7911)TGT>TTT	p.C2637F	SMG1_uc010bwb.2_Missense_Mutation_p.C2497F|SMG1_uc010bwa.2_Missense_Mutation_p.C1368F	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2637					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TTGCTCCAGACAGCCACGGAG	0.567													4	15	---	---	---	---	PASS	A	18847402	A	A	18847402	3	1	98	1	0	0	0	0	1	0	0	0	14795	478	17	3	3139	3	SMG1	16	18847402	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	3156807	18847402	71507351	288	36568										
TMC7	79905	broad.mit.edu	37	chr16	19027784	19027784	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ccatgcagggacattcaagaGacacaaatgaagtatctctc	8	10	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:19027784G>C	uc002dfq.2	+	3	454	c.324G>C	c.(322-324)GAG>GAC	p.E108D	TMC7_uc010vao.1_Missense_Mutation_p.E108D|TMC7_uc002dfp.2_Missense_Mutation_p.E108D|TMC7_uc010vap.1_5'UTR	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	108	Extracellular (Potential).					integral to membrane				skin(2)|ovary(1)	3						ACATTCAAGAGACACAAATGA	0.418													4	39	---	---	---	---	PASS	C	19027784	C	C	19027784	3	2	98	1	0	0	0	0	1	0	0	0	15987	933	33	2	334	2	TMC7	16	19027784	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	180382	19027784	71326969	289	36569										
CP110	9738	broad.mit.edu	37	chr16	19548053	19548053	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gttaccgaaaataatgttatCaaaagtcttacaggttcata	6	6	3	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:19548053C>G	uc002dgl.3	+	4	1309	c.1062C>G	c.(1060-1062)ATC>ATG	p.I354M	CP110_uc002dgk.3_Missense_Mutation_p.I354M			O43303	CP110_HUMAN	RecName: Full=Centrosomal protein of 110 kDa;          Short=Cep110;	354	Interaction with CEP76.				centriole replication|G2/M transition of mitotic cell cycle|regulation of cytokinesis	centriole|cytosol	protein binding				0						ATAATGTTATCAAAAGTCTTA	0.398													7	25	---	---	---	---	PASS	G	19548053	G	G	19548053	3	3	98	1	0	0	0	0	1	0	0	0	3788	816	29	2	1072	2	CP110	16	19548053	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	520269	19548053	70806700	290	36570										
ACSM2B	348158	broad.mit.edu	37	chr16	20565212	20565212	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gatgcttcctggcttccagtCtccacacagtgatgagtggt	11	11	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:20565212C>A	uc002dhj.3	-	6	837	c.627G>T	c.(625-627)GAG>GAT	p.E209D	ACSM2B_uc002dhk.3_Missense_Mutation_p.E209D|ACSM2B_uc010bwf.1_Missense_Mutation_p.E209D	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	209					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						GGCTTCCAGTCTCCACACAGT	0.502													5	46	---	---	---	---	PASS	A	20565212	A	A	20565212	3	1	98	1	0	0	0	0	1	0	0	0	184	912	32	2	1146	2	ACSM2B	16	20565212	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1017159	20565212	69789541	291	36571										
CACNG3	10368	broad.mit.edu	37	chr16	24372945	24372945	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gattccggaggcggtcaagtTctcgctccaccgagcccaga	12	14	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:24372945T>C	uc002dmf.2	+	4	1909	c.709T>C	c.(709-711)TCT>CCT	p.S237P		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	237					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0				GBM - Glioblastoma multiforme(48;0.0809)		GCGGTCAAGTTCTCGCTCCAC	0.567													7	42	---	---	---	---	PASS	C	24372945	C	C	24372945	3	2	98	1	0	0	0	0	1	0	0	0	2558	1783	62	5	723	5	CACNG3	16	24372945	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	3807733	24372945	65981808	292	36572										
MT1A	4489	broad.mit.edu	37	chr16	56673832	56673832	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cagggctgcatctgcaaaggGgcatcagagaagtgcagctg	15	9	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:56673832G>C	uc002ejq.2	+	3	229	c.156G>C	c.(154-156)GGG>GGC	p.G52G	MT1A_uc002eji.2_RNA	NM_005946	NP_005937	P04731	MT1A_HUMAN	metallothionein 1A	52	Alpha.					cytoplasm	cadmium ion binding|copper ion binding|zinc ion binding				0						TCTGCAAAGGGGCATCAGAGA	0.542													12	48	---	---	---	---	PASS	C	56673832	C	C	56673832	2	2	98	1	0	0	0	0	0	0	0	1	9897	1219	43	4		4	MT1A	16	56673832	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	32300887	56673832	33680921	293	36573										
RSPRY1	89970	broad.mit.edu	37	chr16	57250871	57250871	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agtgaccggcttgtcacattGgagtcctgggctaatgatcc	12	10	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:57250871G>T	uc002elb.2	+	8	1103	c.825G>T	c.(823-825)TTG>TTT	p.L275F	RSPRY1_uc002elc.2_Missense_Mutation_p.L275F|RSPRY1_uc002eld.2_Missense_Mutation_p.L275F	NM_133368	NP_588609	Q96DX4	RSPRY_HUMAN	ring finger and SPRY domain containing 1	275						extracellular region	zinc ion binding			ovary(1)	1						TTGTCACATTGGAGTCCTGGG	0.393													5	42	---	---	---	---	PASS	T	57250871	T	T	57250871	3	4	98	1	0	0	0	0	1	0	0	0	13713	1339	47	3	851	3	RSPRY1	16	57250871	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	577039	57250871	33103882	294	36574										
WWP2	11060	broad.mit.edu	37	chr16	69874130	69874130	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tggacgggccaactgttgatCtgggaaatgtgcctaatggc	14	8	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:69874130C>T	uc002exu.1	+	6	531	c.442C>T	c.(442-444)CTG>TTG	p.L148L	WWP2_uc002ext.2_Silent_p.L148L|WWP2_uc002exv.1_Silent_p.L148L|WWP2_uc010vlm.1_Silent_p.L32L	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	148					entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						AACTGTTGATCTGGGAAATGT	0.612													7	32	---	---	---	---	PASS	T	69874130	T	T	69874130	2	4	98	1	0	0	0	0	0	0	0	1	17413	912	32	2		2	WWP2	16	69874130	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	12623259	69874130	20480623	295	36575										
ADAMTS18	170692	broad.mit.edu	37	chr16	77398203	77398203	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ccttttgtgattttccagctGatcttctgggtcgcccagag	10	11	2	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr16:77398203G>C	uc002ffc.3	-	5	1273	c.854C>G	c.(853-855)TCA>TGA	p.S285*	ADAMTS18_uc010chc.1_5'Flank|ADAMTS18_uc002ffe.1_Translation_Start_Site|ADAMTS18_uc010vni.1_RNA	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	285					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TTTTCCAGCTGATCTTCTGGG	0.483													6	26	---	---	---	---	PASS	C	77398203	C	C	77398203	4	2	98	1	0	0	0	0	0	1	0	0	263	1294	45	2	2887	2	ADAMTS18	16	77398203	Nonsense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	7524073	77398203	12956550	296	36576										
OR1D2	4991	broad.mit.edu	37	chr17	2995592	2995592	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtggagaaggctttgtatttCttagagactgagggtattct	13	4	2	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:2995592C>T	uc010vrb.1	-	1	699	c.699G>A	c.(697-699)AAG>AAA	p.K233K		NM_002548	NP_002539	P34982	OR1D2_HUMAN	olfactory receptor, family 1, subfamily D,	233	Cytoplasmic (Potential).				cellular component movement|chemotaxis|protein import into nucleus, translocation|sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						CTTTGTATTTCTTAGAGACTG	0.468													11	74	---	---	---	---	PASS	T	2995592	T	T	2995592	2	4	98	1	0	0	0	0	0	0	0	1	10953	912	32	2		2	OR1D2	17	2995592	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08		2995592	78199618	297	36577										
ASGR1	432	broad.mit.edu	37	chr17	7080327	7080327	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gctcaagcccttgacctgggCctccgtgctcgctgtgaagt	12	14	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:7080327C>A	uc002ges.3	-	4	666	c.256G>T	c.(256-258)GCC>TCC	p.A86S	ASGR1_uc010clx.1_5'UTR	NM_001671	NP_001662	P07306	ASGR1_HUMAN	asialoglycoprotein receptor 1	86	Potential.|Extracellular (Probable).				receptor-mediated endocytosis	integral to plasma membrane	asialoglycoprotein receptor activity|metal ion binding|sugar binding			breast(1)|central_nervous_system(1)	2						TTGACCTGGGCCTCCGTGCTC	0.527													3	13	---	---	---	---	PASS	A	7080327	A	A	7080327	3	1	98	1	0	0	0	0	1	0	0	0	1039	739	26	3	643	3	ASGR1	17	7080327	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	4084735	7080327	74114883	298	36578										
ZBTB4	57659	broad.mit.edu	37	chr17	7365801	7365801	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttcctcagcagcagtgctccCgccacctgcctcaccgctgg	9	19	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:7365801C>A	uc002ghc.3	-	4	2750	c.2500G>T	c.(2500-2502)GGG>TGG	p.G834W	ZBTB4_uc002ghd.3_Missense_Mutation_p.G834W	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	834					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		GCAGTGCTCCCGCCACCTGCC	0.637													4	9	---	---	---	---	PASS	A	7365801	A	A	7365801	3	1	98	1	0	0	0	0	1	0	0	0	17538	652	23	1	545	1	ZBTB4	17	7365801	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	285474	7365801	73829409	299	36579										
TP53	7157	broad.mit.edu	37	chr17	7578271	7578271	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttccttccactcggataagaTgctgaggaggggccagacct	12	11	0	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:7578271T>A	uc002gim.2	-	6	772	c.578A>T	c.(577-579)CAT>CTT	p.H193L	TP53_uc002gig.1_Missense_Mutation_p.H193L|TP53_uc002gih.2_Missense_Mutation_p.H193L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H61L|TP53_uc010cng.1_Missense_Mutation_p.H61L|TP53_uc002gii.1_Missense_Mutation_p.H61L|TP53_uc010cnh.1_Missense_Mutation_p.H193L|TP53_uc010cni.1_Missense_Mutation_p.H193L|TP53_uc002gij.2_Missense_Mutation_p.H193L|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.H100L|TP53_uc002gio.2_Missense_Mutation_p.H61L|TP53_uc010vug.1_Missense_Mutation_p.H154L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	193	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		H -> D (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> Y (in sporadic cancers; somatic mutation).|QH -> HN (in a sporadic cancer; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|QH -> HY (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> R (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H193R(67)|p.H193L(31)|p.H193Y(26)|p.H193P(12)|p.0?(7)|p.H193D(7)|p.H193N(4)|p.A189_V197delAPPQHLIRV(4)|p.H193fs*16(3)|p.H193H(2)|p.P191fs*53(2)|p.K164_P219del(1)|p.P191fs*15(1)|p.P191fs*6(1)|p.H100L(1)|p.H61L(1)|p.H193_I195delHLI(1)|p.H193_I195>AP(1)|p.A189fs*53(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TCGGATAAGATGCTGAGGAGG	0.562		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	14	---	---	---	---	PASS	A	7578271	A	A	7578271	3	1	98	1	0	0	0	0	1	0	0	0	16378	1464	51	5	716	5	TP53	17	7578271	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	212470	7578271	73616939	300	36580										
MYH1	4619	broad.mit.edu	37	chr17	10406144	10406144	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	caggtcatccagggtctgctGgtgggcctcctggagagcct	15	12	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:10406144G>T	uc002gmo.2	-	24	3116	c.3022C>A	c.(3022-3024)CAG>AAG	p.Q1008K	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1008	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						AGGGTCTGCTGGTGGGCCTCC	0.493													6	88	---	---	---	---	PASS	T	10406144	T	T	10406144	3	4	98	1	0	0	0	0	1	0	0	0	10029	1357	47	3	2865	3	MYH1	17	10406144	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	2827873	10406144	70789066	301	36581										
MYH2	4620	broad.mit.edu	37	chr17	10428145	10428145	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcggttggcatggttcagctGgatttccatttcattgaggt	13	7	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:10428145G>T	uc010coi.2	-	34	5028	c.4900C>A	c.(4900-4902)CAG>AAG	p.Q1634K	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.Q1634K|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1634	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle	p.Q1634L(1)		ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TGGTTCAGCTGGATTTCCATT	0.517													40	16	---	---	---	---	PASS	T	10428145	T	T	10428145	3	4	98	1	0	0	0	0	1	0	0	0	10035	1357	47	3	953	3	MYH2	17	10428145	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	22001	10428145	70767065	302	36582										
DNAH9	1770	broad.mit.edu	37	chr17	11603086	11603086	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aaactctttgacaacatggcCaagatgcgattccagctaga	8	10	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:11603086C>G	uc002gne.2	+	23	4979	c.4911C>G	c.(4909-4911)GCC>GCG	p.A1637A	DNAH9_uc010coo.2_Silent_p.A931A	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1637	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		ACAACATGGCCAAGATGCGAT	0.473													8	35	---	---	---	---	PASS	G	11603086	G	G	11603086	2	3	98	1	0	0	0	0	0	0	0	1	4608	581	21	4		4	DNAH9	17	11603086	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	1174941	11603086	69592124	303	36583										
CUEDC1	404093	broad.mit.edu	37	chr17	55948728	55948728	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctgggattcgtatttcaatcGatctggaaaaggaccacatt	9	8	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:55948728G>T	uc002ivd.1	-	6	1506	c.787C>A	c.(787-789)CGA>AGA	p.R263R	CUEDC1_uc002ive.1_Silent_p.R263R	NM_017949	NP_060419	Q9NWM3	CUED1_HUMAN	CUE domain-containing 1	263										skin(2)	2						TATTTCAATCGATCTGGAAAA	0.542													9	40	---	---	---	---	PASS	T	55948728	T	T	55948728	2	4	98	1	0	0	0	0	0	0	0	1	4052	1066	37	2		2	CUEDC1	17	55948728	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	44345642	55948728	25246482	304	36584										
MARCH10	162333	broad.mit.edu	37	chr17	60788625	60788625	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	acctggttgtggttgagcctCatgagttctgcaaacctctg	11	10	3	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:60788625C>G	uc010ddr.2	-	9	2533	c.2295G>C	c.(2293-2295)ATG>ATC	p.M765I	MARCH10_uc002jag.3_Missense_Mutation_p.M765I|MARCH10_uc010dds.2_Missense_Mutation_p.M803I|MARCH10_uc002jah.2_Missense_Mutation_p.M764I|uc002jaj.1_Intron|uc002jak.2_Intron	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	765							ligase activity|zinc ion binding				0						GGTTGAGCCTCATGAGTTCTG	0.507													16	85	---	---	---	---	PASS	G	60788625	G	G	60788625	3	3	98	1	0	0	0	0	1	0	0	0	9299	826	29	2	143	2	MARCH10	17	60788625	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	4839897	60788625	20406585	305	36585										
LRRC37A3	374819	broad.mit.edu	37	chr17	62856037	62856037	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttttcagagatggttccttcTggcatgttagtgttttccat	9	7	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:62856037T>C	uc002jey.2	-	11	4758	c.4227A>G	c.(4225-4227)CCA>CCG	p.P1409P	LRRC37A3_uc010wqg.1_Silent_p.P527P|LRRC37A3_uc002jex.1_Silent_p.P386P|LRRC37A3_uc010wqf.1_Silent_p.P447P|LRRC37A3_uc010dek.1_Silent_p.P415P	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1409	Extracellular (Potential).					integral to membrane					0						TGGTTCCTTCTGGCATGTTAG	0.383													5	88	---	---	---	---	PASS	C	62856037	C	C	62856037	2	2	98	1	0	0	0	0	0	0	0	1	8993	1567	55	5		5	LRRC37A3	17	62856037	Silent	SNP	T	TCGA-43-3920-01A-01D-0983-08	2067412	62856037	18339173	306	36586										
KPNA2	3838	broad.mit.edu	37	chr17	66033297	66033297	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cagctgcccgtcttcacagaTtcaagaacaagggaaaagac	9	11	3	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:66033297T>A	uc002jgk.2	+	2	181	c.49T>A	c.(49-51)TTC>ATC	p.F17I	KPNA2_uc002jgl.2_Missense_Mutation_p.F17I	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	17	IBB.				DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			TCTTCACAGATTCAAGAACAA	0.423													174	71	---	---	---	---	PASS	A	66033297	A	A	66033297	3	1	98	1	0	0	0	0	1	0	0	0	8430	1493	52	5	51	5	KPNA2	17	66033297	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	3177260	66033297	15161913	307	36587										
ABCA6	23460	broad.mit.edu	37	chr17	67119511	67119511	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tggaaacaagatgatgaattCaagaaaaataaaggagaata	9	2	1	5			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:67119511C>G	uc002jhw.1	-	10	1480	c.1305G>C	c.(1303-1305)TTG>TTC	p.L435F		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	435					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					ATGATGAATTCAAGAAAAATA	0.358													32	24	---	---	---	---	PASS	G	67119511	G	G	67119511	3	3	98	1	0	0	0	0	1	0	0	0	36	825	29	2	3668	2	ABCA6	17	67119511	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1086214	67119511	14075699	308	36588										
CD300LB	124599	broad.mit.edu	37	chr17	72519002	72519002	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agtgaccaagatgagcaagaTgggcaccttcacaaatacca	9	10	1	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:72519002T>A	uc002jkx.2	-	4	605	c.592A>T	c.(592-594)ATC>TTC	p.I198F		NM_174892	NP_777552	A8K4G0	CLM7_HUMAN	CD300 molecule-like family member b	161	Helical; (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)	1						ATGAGCAAGATGGGCACCTTC	0.577													7	152	---	---	---	---	PASS	A	72519002	A	A	72519002	3	1	98	1	0	0	0	0	1	0	0	0	2999	1464	51	5	128	5	CD300LB	17	72519002	Missense_Mutation	SNP	T	TCGA-43-3920-01A-01D-0983-08	5399491	72519002	8676208	309	36589										
RNF157	114804	broad.mit.edu	37	chr17	74150388	74150388	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctgcgtgggtgatccatcctCttcctctataacatcatttc	6	13	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr17:74150388C>T	uc002jqz.2	-	17	1855	c.1786G>A	c.(1786-1788)GAG>AAG	p.E596K	RNF157_uc002jra.2_Missense_Mutation_p.E574K|uc002jrb.1_5'Flank	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	596							zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			GATCCATCCTCTTCCTCTATA	0.423													203	62	---	---	---	---	PASS	T	74150388	T	T	74150388	3	4	98	1	0	0	0	0	1	0	0	0	13454	922	32	2	265	2	RNF157	17	74150388	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1631386	74150388	7044822	310	36590										
PTPRM	5797	broad.mit.edu	37	chr18	8113592	8113592	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttccagaatgcttctctgctGaactcacagtactactttgc	6	12	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr18:8113592G>A	uc002knn.3	+	12	2468	c.1965G>A	c.(1963-1965)CTG>CTA	p.L655L	PTPRM_uc010dkv.2_Silent_p.L655L|PTPRM_uc010wzl.1_Silent_p.L442L	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	655	Fibronectin type-III 4.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				CTTCTCTGCTGAACTCACAGT	0.418													31	56	---	---	---	---	PASS	A	8113592	A	A	8113592	2	1	98	1	0	0	0	0	0	0	0	1	12806	1277	45	2		2	PTPRM	18	8113592	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08		8113592	69963656	311	36591										
DSC3	1825	broad.mit.edu	37	chr18	28587056	28587056	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tggtggattatcatttacatCttcaatgttcacagcaagtg	8	7	4	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr18:28587056C>A	uc002kwj.3	-	12	1860	c.1705G>T	c.(1705-1707)GAT>TAT	p.D569Y	DSC3_uc002kwi.3_Missense_Mutation_p.D569Y	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	569	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			TCATTTACATCTTCAATGTTC	0.333													10	41	---	---	---	---	PASS	A	28587056	A	A	28587056	3	1	98	1	0	0	0	0	1	0	0	0	4767	913	32	2	1036	2	DSC3	18	28587056	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	20473464	28587056	49490192	312	36592										
DSG1	1828	broad.mit.edu	37	chr18	28934414	28934414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cagcttcttggataccctggGacctaaatttaagaagttgg	10	8	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr18:28934414G>T	uc002kwp.2	+	15	2467	c.2255G>T	c.(2254-2256)GGA>GTA	p.G752V	DSG1_uc010xbp.1_Missense_Mutation_p.G111V	NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	752	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			GATACCCTGGGACCTAAATTT	0.468													34	65	---	---	---	---	PASS	T	28934414	T	T	28934414	3	4	98	1	0	0	0	0	1	0	0	0	4776	1174	41	2	2313	2	DSG1	18	28934414	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	347358	28934414	49142834	313	36593										
CDH20	28316	broad.mit.edu	37	chr18	59166620	59166620	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ggccaatggagcccgagtcaGagttcatcatcaaaattcaa	9	10	5	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr18:59166620G>C	uc010dps.1	+	2	460	c.448G>C	c.(448-450)GAG>CAG	p.E150Q	CDH20_uc002lif.2_Missense_Mutation_p.E144Q	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	150	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				GCCCGAGTCAGAGTTCATCAT	0.542													13	24	---	---	---	---	PASS	C	59166620	C	C	59166620	3	2	98	1	0	0	0	0	1	0	0	0	3106	943	33	2	454	2	CDH20	18	59166620	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	30232206	59166620	18910628	314	36594										
RNF152	220441	broad.mit.edu	37	chr18	59483298	59483298	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgctgttcagcagggatggtCaccacggtgacggacttctg	14	10	3	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr18:59483298C>A	uc002lih.1	-	2	811	c.399G>T	c.(397-399)GTG>GTT	p.V133V		NM_173557	NP_775828	Q8N8N0	RN152_HUMAN	ring finger protein 152	133					apoptosis|protein K48-linked ubiquitination	integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			breast(1)	1		Colorectal(73;0.186)				CAGGGATGGTCACCACGGTGA	0.677													13	14	---	---	---	---	PASS	A	59483298	A	A	59483298	2	1	98	1	0	0	0	0	0	0	0	1	13453	813	29	2		2	RNF152	18	59483298	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	316678	59483298	18593950	315	36595										
AP3D1	8943	broad.mit.edu	37	chr19	2129329	2129329	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtacttgccagcttgatgatCttgatgaggacccagttgtt	11	8	1	4			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:2129329C>G	uc002luz.2	-	7	943	c.720G>C	c.(718-720)AAG>AAC	p.K240N	AP3D1_uc002luy.2_Intron|AP3D1_uc002lva.2_Missense_Mutation_p.K240N	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	240					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTTGATGATCTTGATGAGGA	0.597													10	8	---	---	---	---	PASS	G	2129329	G	G	2129329	3	3	98	1	0	0	0	0	1	0	0	0	746	912	32	2	2995	2	AP3D1	19	2129329	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08		2129329	56999654	316	36596										
SPPL2B	56928	broad.mit.edu	37	chr19	2345327	2345327	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tacttcgtggcctgcaccatCggtaagtgcctcggttgggc	13	12	0	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:2345327C>T	uc002lvs.2	+	14	1433	c.1353C>T	c.(1351-1353)ATC>ATT	p.I451I	SPPL2B_uc002lvr.2_Silent_p.I451I	NM_152988	NP_694533	Q8TCT7	PSL1_HUMAN	signal peptide peptidase-like 2B isoform 2	451	Helical; (Potential).					Golgi membrane|integral to membrane	aspartic-type endopeptidase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTGCACCATCGGTAAGTGCC	0.542													5	12	---	---	---	---	PASS	T	2345327	T	T	2345327	2	4	98	1	0	0	0	0	0	0	0	1	15088	898	31	2		2	SPPL2B	19	2345327	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	215998	2345327	56783656	317	36597										
INSR	3643	broad.mit.edu	37	chr19	7122698	7122698	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcccgatgcacaaacttcttGgcgttcaggtaggccatccc	9	14	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:7122698G>T	uc002mgd.1	-	19	3565	c.3456C>A	c.(3454-3456)GCC>GCA	p.A1152A	INSR_uc002mge.1_Silent_p.A1140A	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	1152	Protein kinase.|Cytoplasmic (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CAAACTTCTTGGCGTTCAGGT	0.502													6	51	---	---	---	---	PASS	T	7122698	T	T	7122698	2	4	98	1	0	0	0	0	0	0	0	1	7773	1335	47	3		3	INSR	19	7122698	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	4777371	7122698	52006285	318	36598										
CYP4F11	57834	broad.mit.edu	37	chr19	16025601	16025601	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgacgcggccgtctgggagcAcaaagtcctgcgtgcaacat	13	12	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:16025601A>T	uc002nbu.2	-	10	1256	c.1220T>A	c.(1219-1221)GTG>GAG	p.V407E	CYP4F11_uc010eab.1_Missense_Mutation_p.V407E|CYP4F11_uc002nbt.2_Missense_Mutation_p.V407E	NM_001128932	NP_001122404	Q9HBI6	CP4FB_HUMAN	cytochrome P450 family 4 subfamily F polypeptide	407					inflammatory response|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)	1						GTCTGGGAGCACAAAGTCCTG	0.647													45	15	---	---	---	---	PASS	T	16025601	T	T	16025601	3	4	98	1	0	0	0	0	1	0	0	0	4186	159	6	5	370	5	CYP4F11	19	16025601	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	8902903	16025601	43103382	319	36599										
ZNF254	9534	broad.mit.edu	37	chr19	24309470	24309470	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aaaaacctttaattggtcctCaacccttactaatcatagga	4	10	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:24309470C>T	uc002nru.2	+	4	802	c.668C>T	c.(667-669)TCA>TTA	p.S223L	ZNF254_uc010xrk.1_Missense_Mutation_p.S138L	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	223	C2H2-type 1; degenerate.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				AATTGGTCCTCAACCCTTACT	0.323													44	33	---	---	---	---	PASS	T	24309470	T	T	24309470	3	4	98	1	0	0	0	0	1	0	0	0	17795	838	29	2	682	2	ZNF254	19	24309470	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	8283869	24309470	34819513	320	36600										
RBM42	79171	broad.mit.edu	37	chr19	36120495	36120495	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctgcggtgcccactgtccccAcggtccccacagtagaagcg	11	17	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:36120495A>G	uc002oan.2	+	2	278	c.202A>G	c.(202-204)ACG>GCG	p.T68A	RBM42_uc010xsx.1_Missense_Mutation_p.T68A|RBM42_uc010eef.2_Missense_Mutation_p.T68A|RBM42_uc002oao.2_Missense_Mutation_p.T68A|RBM42_uc002oap.2_Missense_Mutation_p.T68A|RBM42_uc002oaq.2_Missense_Mutation_p.T68A|RBM42_uc010eeg.2_Missense_Mutation_p.T68A	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	68						cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CACTGTCCCCACGGTCCCCAC	0.592													15	54	---	---	---	---	PASS	G	36120495	G	G	36120495	3	3	98	1	0	0	0	0	1	0	0	0	13136	159	6	5	208	5	RBM42	19	36120495	Missense_Mutation	SNP	A	TCGA-43-3920-01A-01D-0983-08	11811025	36120495	23008488	321	36601										
NPHS1	4868	broad.mit.edu	37	chr19	36333142	36333142	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtgctgtctccagctgcagcCaccttagttaggggagtggg	15	10	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:36333142C>G	uc002oby.2	-	19	2547	c.2547G>C	c.(2545-2547)GTG>GTC	p.V849V	NPHS1_uc010eem.1_5'Flank	NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	849	Ig-like C2-type 8.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CAGCTGCAGCCACCTTAGTTA	0.602													3	10	---	---	---	---	PASS	G	36333142	G	G	36333142	2	3	98	1	0	0	0	0	0	0	0	1	10582	581	21	4		4	NPHS1	19	36333142	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	212647	36333142	22795841	322	36602										
TBCB	1155	broad.mit.edu	37	chr19	36611661	36611661	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tgagtatgaggacgtgtcccGggtggagaagtacacgatct	15	7	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:36611661G>C	uc002odg.1	+	3	883	c.308G>C	c.(307-309)CGG>CCG	p.R103P	TBCB_uc002odh.1_Missense_Mutation_p.R84P	NM_001281	NP_001272	Q99426	TBCB_HUMAN	cytoskeleton associated protein 1	103					'de novo' posttranslational protein folding|cell differentiation|nervous system development	cytoplasm|microtubule	protein binding				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GACGTGTCCCGGGTGGAGAAG	0.642													21	18	---	---	---	---	PASS	C	36611661	C	C	36611661	3	2	98	1	0	0	0	0	1	0	0	0	15627	1116	39	4	318	4	TBCB	19	36611661	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	278519	36611661	22517322	323	36603										
SPRED3	399473	broad.mit.edu	37	chr19	38882630	38882630	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ccaggcttggtttacaacaaGgtgaatcccatctttcacca	7	12	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:38882630G>A	uc002oim.2	+	2	226	c.222G>A	c.(220-222)AAG>AAA	p.K74K	SPRED3_uc002oil.1_Silent_p.K74K	NM_001042522	NP_001035987	Q2MJR0	SPRE3_HUMAN	sprouty-related, EVH1 domain containing 3	74	WH1.				multicellular organismal development					central_nervous_system(2)|lung(1)|skin(1)	4	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TTTACAACAAGGTGAATCCCA	0.542													15	98	---	---	---	---	PASS	A	38882630	A	A	38882630	2	1	98	1	0	0	0	0	0	0	0	1	15093	991	35	3		3	SPRED3	19	38882630	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	2270969	38882630	20246353	324	36604										
MEGF8	1954	broad.mit.edu	37	chr19	42863021	42863021	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcctgggtcatgggggttccGggaagtcaggaagaagatgg	19	6	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:42863021G>T	uc002otl.3	+	29	5692	c.5057G>T	c.(5056-5058)CGG>CTG	p.R1686L	MEGF8_uc002otm.3_Missense_Mutation_p.R1294L	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	1753	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				TGGGGGTTCCGGGAAGTCAGG	0.577													8	7	---	---	---	---	PASS	T	42863021	T	T	42863021	3	4	98	1	0	0	0	0	1	0	0	0	9463	1116	39	1	5171	1	MEGF8	19	42863021	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	3980391	42863021	16265962	325	36605										
CEACAM8	1088	broad.mit.edu	37	chr19	43092953	43092953	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	taccagagactgtgatcatcCtgactgtggtcctgttgcgg	12	10	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:43092953C>A	uc002oud.2	-	4	1043	c.941G>T	c.(940-942)AGG>ATG	p.R314M	uc010eif.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron	NM_001816	NP_001807	P31997	CEAM8_HUMAN	carcinoembryonic antigen-related cell adhesion	314	Ig-like C2-type 2.				immune response	anchored to membrane|extracellular space|integral to plasma membrane				ovary(1)	1		Prostate(69;0.00899)				TGTGATCATCCTGACTGTGGT	0.478													6	91	---	---	---	---	PASS	A	43092953	A	A	43092953	3	1	98	1	0	0	0	0	1	0	0	0	3198	681	24	3	116	3	CEACAM8	19	43092953	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	229932	43092953	16036030	326	36606										
TEX101	83639	broad.mit.edu	37	chr19	43910665	43910665	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttcagttcccgcatgggggcGaggcaggtacatgggccttg	16	10	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:43910665G>A	uc002owk.2	+	4	570	c.9G>A	c.(7-9)GCG>GCA	p.A3A		NM_031451	NP_113639	Q9BY14	TX101_HUMAN	testis expressed 101 isoform 1	Error:Variant_position_missing_in_Q9BY14_after_alignment						anchored to membrane|plasma membrane				ovary(1)	1		Prostate(69;0.0199)				gcatgggggcgaggcaggtac	0													8	11	---	---	---	---	PASS	A	43910665	A	A	43910665	2	1	98	1	0	0	0	0	0	0	0	1	15770	1045	37	2		2	TEX101	19	43910665	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	817712	43910665	15218318	327	36607										
TMEM160	54958	broad.mit.edu	37	chr19	47549873	47549873	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tatgctgcttcccgacccatGtcactctgcatgaaggagat	9	12	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:47549873G>T	uc002pfz.2	-	2	289	c.279C>A	c.(277-279)GAC>GAA	p.D93E		NM_017854	NP_060324	Q9NX00	TM160_HUMAN	transmembrane protein 160	93						integral to membrane					0		all_cancers(25;8.13e-05)|all_lung(116;0.000901)|all_epithelial(76;0.00185)|Lung NSC(112;0.00215)|all_neural(266;0.0652)|Ovarian(192;0.15)		all cancers(93;5.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;6.95e-05)|Epithelial(262;0.00363)|GBM - Glioblastoma multiforme(486;0.0242)		CCCGACCCATGTCACTCTGCA	0.617													10	78	---	---	---	---	PASS	T	47549873	T	T	47549873	3	4	98	1	0	0	0	0	1	0	0	0	16072	1368	48	3	295	3	TMEM160	19	47549873	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	3639208	47549873	11579110	328	36608										
PPP1R15A	23645	broad.mit.edu	37	chr19	49377887	49377887	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	agccttgggagaagctgagtCagacccacatccctcccacc	9	16	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:49377887C>G	uc002pky.3	+	2	1666	c.1397C>G	c.(1396-1398)TCA>TGA	p.S466*		NM_014330	NP_055145	O75807	PR15A_HUMAN	protein phosphatase 1, regulatory subunit 15A	466	4 X 34 AA approximate repeats.|Glu-rich.|Interaction with SMAD7.				apoptosis|cell cycle arrest|regulation of translation|response to DNA damage stimulus	endoplasmic reticulum	protein binding			lung(1)	1		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000244)|all cancers(93;0.000694)|GBM - Glioblastoma multiforme(486;0.0222)|Epithelial(262;0.033)		GAAGCTGAGTCAGACCCACAT	0.567													9	62	---	---	---	---	PASS	G	49377887	G	G	49377887	4	3	98	1	0	0	0	0	0	1	0	0	12363	838	29	2	1399	2	PPP1R15A	19	49377887	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1828014	49377887	9751096	329	36609										
HRC	3270	broad.mit.edu	37	chr19	49654775	49654775	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tccccttttacacacttactGataaagggacgaggagaaat	8	9	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:49654775G>C	uc002pmv.2	-	5	2249	c.2062C>G	c.(2062-2064)CAG>GAG	p.Q688E		NM_002152	NP_002143	P23327	SRCH_HUMAN	histidine rich calcium binding protein	688					muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			ovary(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		CACACTTACTGATAAAGGGAC	0.398													8	34	---	---	---	---	PASS	C	49654775	C	C	49654775	3	2	98	1	0	0	0	0	1	0	0	0	7352	1304	45	2	45	2	HRC	19	49654775	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	276888	49654775	9474208	330	36610										
SYT3	84258	broad.mit.edu	37	chr19	51132558	51132558	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gagggccactgaccgagccgCcctccacgatgtccctccag	11	18	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:51132558C>T	uc002pst.2	-	4	1908	c.1274G>A	c.(1273-1275)GGC>GAC	p.G425D	SYT3_uc002psv.2_Missense_Mutation_p.G425D|SYT3_uc010ycd.1_Missense_Mutation_p.G425D	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	425	Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		GACCGAGCCGCCCTCCACGAT	0.677													5	3	---	---	---	---	PASS	T	51132558	T	T	51132558	3	4	98	1	0	0	0	0	1	0	0	0	15472	739	26	3	518	3	SYT3	19	51132558	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	1477783	51132558	7996425	331	36611										
ZIM2	23619	broad.mit.edu	37	chr19	57286681	57286681	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtttgttctcttgggatgctGactggggactcgtacatatt	12	7	1	1	rs138884282	by1000genomes	TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr19:57286681G>A	uc002qnr.2	-	11	1341	c.959C>T	c.(958-960)TCA>TTA	p.S320L	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Missense_Mutation_p.S116L|ZIM2_uc010ygr.1_Missense_Mutation_p.S116L|ZIM2_uc002qnq.2_Missense_Mutation_p.S320L|ZIM2_uc010etp.2_Missense_Mutation_p.S320L|ZIM2_uc010ygs.1_Missense_Mutation_p.S320L	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	320					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		TTGGGATGCTGACTGGGGACT	0.453													9	48	---	---	---	---	PASS	A	57286681	A	A	57286681	3	1	98	1	0	0	0	0	1	0	0	0	17681	1294	45	2	628	2	ZIM2	19	57286681	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	6154123	57286681	1842302	332	36612										
HAO1	54363	broad.mit.edu	37	chr20	7915149	7915149	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	acctctcacagtggcaagctCgccgtccacatgagccatgc	9	16	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr20:7915149C>T	uc002wmw.1	-	2	295	c.271G>A	c.(271-273)GAG>AAG	p.E91K	HAO1_uc010gbu.2_Missense_Mutation_p.E91K	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	91	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						GTGGCAAGCTCGCCGTCCACA	0.522													23	110	---	---	---	---	PASS	T	7915149	T	T	7915149	3	4	98	1	0	0	0	0	1	0	0	0	6951	893	31	2	869	2	HAO1	20	7915149	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08		7915149	55110371	333	36613										
TM9SF4	9777	broad.mit.edu	37	chr20	30745599	30745599	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atggtgccatgtctacaggtGccctttcccaccatggtggc	11	13	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr20:30745599G>A	uc002wxj.2	+	14	1567	c.1332G>A	c.(1330-1332)GTG>GTA	p.V444V	TM9SF4_uc010zts.1_Silent_p.V351V|TM9SF4_uc002wxk.2_Silent_p.V427V|TM9SF4_uc010gdz.2_Silent_p.V323V	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	444						integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			GTCTACAGGTGCCCTTTCCCA	0.627													54	56	---	---	---	---	PASS	A	30745599	A	A	30745599	2	1	98	1	0	0	0	0	0	0	0	1	15977	1306	46	3		3	TM9SF4	20	30745599	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	22830450	30745599	32279921	334	36614										
C20orf4	25980	broad.mit.edu	37	chr20	34828318	34828318	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	accaaggaccgcgtggggcaGaatctaccccgctgtggcat	13	13	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr20:34828318G>C	uc002xfc.1	+	2	621	c.528G>C	c.(526-528)CAG>CAC	p.Q176H	C20orf4_uc002xfd.1_Missense_Mutation_p.Q176H|C20orf4_uc002xfe.1_Missense_Mutation_p.Q176H	NM_015511	NP_056326	Q9Y312	CT004_HUMAN	hypothetical protein LOC25980	176											0	Breast(12;0.0162)	Myeloproliferative disorder(115;0.0393)				GCGTGGGGCAGAATCTACCCC	0.582													62	61	---	---	---	---	PASS	C	34828318	C	C	34828318	3	2	98	1	0	0	0	0	1	0	0	0	2111	933	33	2	530	2	C20orf4	20	34828318	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	4082719	34828318	28197202	335	36615										
CDH22	64405	broad.mit.edu	37	chr20	44815288	44815288	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcaggcaccaggcggaaataGaagcggtgcccgccttgggg	16	11	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr20:44815288G>C	uc002xrm.2	-	9	2003	c.1602C>G	c.(1600-1602)TTC>TTG	p.F534L	CDH22_uc010ghk.1_Missense_Mutation_p.F534L	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	534	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				GGCGGAAATAGAAGCGGTGCC	0.587													7	46	---	---	---	---	PASS	C	44815288	C	C	44815288	3	2	98	1	0	0	0	0	1	0	0	0	3107	933	33	2	896	2	CDH22	20	44815288	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	9986970	44815288	18210232	336	36616										
BCAS1	8537	broad.mit.edu	37	chr20	52645430	52645430	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcccaagattctttccgttgGcatccgcaacagcacttatc	6	14	1	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr20:52645430G>T	uc002xws.2	-	4	562	c.224C>A	c.(223-225)GCC>GAC	p.A75D	BCAS1_uc010zzb.1_5'UTR|BCAS1_uc010gim.2_5'UTR|BCAS1_uc002xwt.2_Missense_Mutation_p.A75D|BCAS1_uc010gil.1_Missense_Mutation_p.A75D|BCAS1_uc010zzc.1_5'UTR	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	75						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			CTTTCCGTTGGCATCCGCAAC	0.493													29	19	---	---	---	---	PASS	T	52645430	T	T	52645430	3	4	98	1	0	0	0	0	1	0	0	0	1350	1203	42	3	1566	3	BCAS1	20	52645430	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	7830142	52645430	10380090	337	36617										
NCAM2	4685	broad.mit.edu	37	chr21	22910240	22910240	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tagaaattaaagtttctaacGacatcattcaatcaaaagaa	4	6	4	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr21:22910240G>T	uc002yld.1	+	18	2725	c.2476G>T	c.(2476-2478)GAC>TAC	p.D826Y	NCAM2_uc011acb.1_Missense_Mutation_p.D684Y	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	826	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		AGTTTCTAACGACATCATTCA	0.343													30	21	---	---	---	---	PASS	T	22910240	T	T	22910240	3	4	98	1	0	0	0	0	1	0	0	0	10203	1058	37	2	2546	2	NCAM2	21	22910240	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08		22910240	25219655	338	36618										
USP16	10600	broad.mit.edu	37	chr21	30402983	30402983	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	aaaaaggctttagtgaatgtGgaatggaatatctgccaaga	11	4	1	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr21:30402983G>T	uc002ymy.2	+	3	331	c.129G>T	c.(127-129)GTG>GTT	p.V43V	USP16_uc002ymx.2_Silent_p.V43V|USP16_uc002ymw.2_Silent_p.V43V|USP16_uc011acm.1_Silent_p.V29V|USP16_uc011acn.1_Intron	NM_006447	NP_006438	Q9Y5T5	UBP16_HUMAN	ubiquitin specific protease 16 isoform a	43					cell division|histone deubiquitination|mitosis|positive regulation of transcription, DNA-dependent|protein homotetramerization|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|histone binding|transcription coactivator activity|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(2)|breast(1)|pancreas(1)	4						TAGTGAATGTGGAATGGAATA	0.333													6	53	---	---	---	---	PASS	T	30402983	T	T	30402983	2	4	98	1	0	0	0	0	0	0	0	1	17044	1335	47	3		3	USP16	21	30402983	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	7492743	30402983	17726912	339	36619										
DIP2A	23181	broad.mit.edu	37	chr21	47985788	47985788	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ttcggcgaacagagctcactGatgccagtggaggtgagggg	17	8	1	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr21:47985788G>A	uc002zjo.2	+	36	4510	c.4327G>A	c.(4327-4329)GAT>AAT	p.D1443N	DIP2A_uc011afz.1_Missense_Mutation_p.D1439N|DIP2A_uc002zjs.2_Missense_Mutation_p.D123N|DIP2A_uc002zjt.2_RNA	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1443					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		AGAGCTCACTGATGCCAGTGG	0.602													35	27	---	---	---	---	PASS	A	47985788	A	A	47985788	3	1	98	1	0	0	0	0	1	0	0	0	4527	1290	45	2	4582	2	DIP2A	21	47985788	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	17582805	47985788	144107	340	36620										
DGCR6	8214	broad.mit.edu	37	chr22	18897772	18897773	+	Frame_Shift_Ins	INS	-	GC	GC													0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtgcttcaggcggctcagcaINSgcgagaactagaggtactgg							TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr22:18897772_18897773insGC	uc002zoh.3	+	3	511_512	c.359_360insGC	c.(358-360)CAGfs	p.Q120fs	DGCR6_uc002zog.2_RNA|DGCR6_uc002zoi.3_RNA	NM_005675	NP_005666	Q14129	DGCR6_HUMAN	DiGeorge syndrome critical region protein 6	120	Potential.				cell adhesion|organ morphogenesis	nucleus|proteinaceous extracellular matrix				upper_aerodigestive_tract(1)|central_nervous_system(1)	2						GCGGCTCAGCAGCGAGAACTAG	0.673													3	5	---	---	---	---		GC	18897773	GC	GC	18897772	7	5	98	1	0	1	1	0	0	0	0	0	4462	188	7	0	369	0	DGCR6	22	18897772	Frame_Shift_Ins	INS	-	TCGA-43-3920-01A-01D-0983-08		18897772	32406794	341	36621										
TXNRD2	10587	broad.mit.edu	37	chr22	19865933	19865933	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tcgtccagccaccgtgaactCcagtggtttataatgggcgt	11	11	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr22:19865933C>A	uc011ahc.1	-	15	1336	c.1303G>T	c.(1303-1305)GAG>TAG	p.E435*	TXNRD2_uc002zql.1_Nonsense_Mutation_p.E189*|TXNRD2_uc002zqm.1_RNA|TXNRD2_uc002zqn.1_RNA|TXNRD2_uc002zqo.1_RNA|TXNRD2_uc002zqp.1_RNA|TXNRD2_uc002zqr.1_Nonsense_Mutation_p.E434*|TXNRD2_uc002zqj.1_RNA|TXNRD2_uc002zqq.1_Nonsense_Mutation_p.E85*	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor	435					cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					ACCGTGAACTCCAGTGGTTTA	0.567													21	146	---	---	---	---	PASS	A	19865933	A	A	19865933	4	1	98	1	0	0	0	0	0	1	0	0	16805	864	30	2	283	2	TXNRD2	22	19865933	Nonsense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	968161	19865933	31438633	342	36622										
PI4KA	5297	broad.mit.edu	37	chr22	21119167	21119167	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	atggcgaagtccagcttgttGatgagtgcggacacctcggg	15	9	0	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr22:21119167G>C	uc002zsz.3	-	22	2703	c.2472C>G	c.(2470-2472)ATC>ATG	p.I824M		NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	824					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			CCAGCTTGTTGATGAGTGCGG	0.582													5	36	---	---	---	---	PASS	C	21119167	C	C	21119167	3	2	98	1	0	0	0	0	1	0	0	0	11873	1280	45	2	3798	2	PI4KA	22	21119167	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	1253234	21119167	30185399	343	36623										
KREMEN1	83999	broad.mit.edu	37	chr22	29533453	29533453	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	catccgggttccgggggcctCccacatccacttcagcttcc	9	18	1	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr22:29533453C>T	uc011akm.1	+	6	768	c.755C>T	c.(754-756)TCC>TTC	p.S252F	KREMEN1_uc003ael.2_Missense_Mutation_p.S252F|KREMEN1_uc011akn.1_Missense_Mutation_p.S135F	NM_032045	NP_114434	Q96MU8	KREM1_HUMAN	kringle-containing transmembrane protein 1	250	Extracellular (Potential).|CUB.				cell communication|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane|membrane fraction	protein binding			ovary(3)|lung(2)	5						CCGGGGGCCTCCCACATCCAC	0.597													11	62	---	---	---	---	PASS	T	29533453	T	T	29533453	3	4	98	1	0	0	0	0	1	0	0	0	8442	855	30	2	777	2	KREMEN1	22	29533453	Missense_Mutation	SNP	C	TCGA-43-3920-01A-01D-0983-08	8414286	29533453	21771113	344	36624										
SMCR7L	54471	broad.mit.edu	37	chr22	39908032	39908032	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	ctcctccaccttcgacacagGtgagaagggctgctgcccct	10	16	0	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr22:39908032G>A	uc003axx.2	+	4	820	c.322_splice	c.e4+1	p.D108_splice	SMCR7L_uc003axw.2_Splice_Site_p.D108_splice|SMCR7L_uc010gxz.1_Splice_Site|SMCR7L_uc003axy.2_Splice_Site	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471							integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					TTCGACACAGGTGAGAAGGGC	0.453													9	39	---	---	---	---	PASS	A	39908032	A	A	39908032	5	1	98	1	0	0	0	0	0	0	1	0	14791	1275	44	3	329	3	SMCR7L	22	39908032	Splice_Site	SNP	G	TCGA-43-3920-01A-01D-0983-08	10374579	39908032	11396534	345	36625										
MEI1	150365	broad.mit.edu	37	chr22	42099442	42099442	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cagagagtctgcatccacttCataagtgtgctttttggtaa	9	8	2	1	rs147144334	by1000genomes	TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chr22:42099442C>T	uc003baz.1	+	2	307	c.282C>T	c.(280-282)TTC>TTT	p.F94F	MEI1_uc003bay.3_Silent_p.F94F|MEI1_uc011apd.1_RNA	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	94							binding			central_nervous_system(1)|skin(1)	2						GCATCCACTTCATAAGTGTGC	0.428													6	15	---	---	---	---	PASS	T	42099442	T	T	42099442	2	4	98	1	0	0	0	0	0	0	0	1	9465	825	29	2		2	MEI1	22	42099442	Silent	SNP	C	TCGA-43-3920-01A-01D-0983-08	2191410	42099442	9205124	346	36626										
MTMR8	55613	broad.mit.edu	37	chrX	63568544	63568544	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	actgagaaatagatacctttGgtcttgtgtctacaacatac	7	8	2	2			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chrX:63568544G>T	uc004dvs.2	-	6	796	c.728C>A	c.(727-729)CCA>CAA	p.P243Q	MTMR8_uc011mou.1_Missense_Mutation_p.P243Q|MTMR8_uc004dvt.1_Missense_Mutation_p.P243Q	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	243	Myotubularin phosphatase.					nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						AGATACCTTTGGTCTTGTGTC	0.403													4	24	---	---	---	---	PASS	T	63568544	T	T	63568544	3	4	98	1	0	0	0	0	1	0	0	0	9949	1348	47	3	1422	3	MTMR8	23	63568544	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08		63568544	91702016	347	36627										
TAF1	6872	broad.mit.edu	37	chrX	70678145	70678145	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gtatgtctcgagatgcctctGtatttcaagatgagagcaat	10	7	3	3			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chrX:70678145G>T	uc004dzu.3	+	35	5041	c.4990G>T	c.(4990-4992)GTA>TTA	p.V1664L	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.V1685L|TAF1_uc004dzv.3_Missense_Mutation_p.V838L|TAF1_uc010nle.1_RNA|TAF1_uc010nlf.1_Missense_Mutation_p.V89L|TAF1_uc004dzx.2_RNA|TAF1_uc004dzy.2_RNA|TAF1_uc004dzw.1_RNA|TAF1_uc010nlg.1_5'Flank	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	1664	Asp/Glu-rich (acidic tail).|Protein kinase 2.				G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				AGATGCCTCTGTATTTCAAGA	0.408													48	22	---	---	---	---	PASS	T	70678145	T	T	70678145	3	4	98	1	0	0	0	0	1	0	0	0	15510	1377	48	3	5191	3	TAF1	23	70678145	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	7109601	70678145	84592415	348	36628										
PCDH19	57526	broad.mit.edu	37	chrX	99663159	99663159	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	cgctgtccagcgggatgcgcGtgccagggctggctgcctcc	16	15	0	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chrX:99663159G>A	uc010nmz.2	-	1	2113	c.437C>T	c.(436-438)ACG>ATG	p.T146M	PCDH19_uc004efw.3_Missense_Mutation_p.T146M|PCDH19_uc004efx.3_Missense_Mutation_p.T146M	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	146	Cadherin 2.|Extracellular (Potential).		T -> R (in EIEE9).		homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CGGGATGCGCGTGCCAGGGCT	0.597													14	7	---	---	---	---	PASS	A	99663159	A	A	99663159	3	1	98	1	0	0	0	0	1	0	0	0	11514	1145	40	1	3033	1	PCDH19	23	99663159	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08	28985014	99663159	55607401	349	36629										
XIAP	331	broad.mit.edu	37	chrX	123020331	123020331	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	gcacggatctttacttttggGacatggatatactcagttaa	9	7	2	0			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chrX:123020331G>A	uc010nqu.2	+	2	945	c.819G>A	c.(817-819)GGG>GGA	p.G273G	XIAP_uc004etx.2_Silent_p.G273G|XIAP_uc010nqv.2_Intron	NM_001167	NP_001158	P98170	XIAP_HUMAN	baculoviral IAP repeat-containing protein 4	273	BIR 3.				anti-apoptosis|apoptosis|induction of apoptosis by intracellular signals|response to DNA damage stimulus	cytosol	caspase inhibitor activity|ligase activity|protein binding|zinc ion binding			ovary(1)|lung(1)	2						TTACTTTTGGGACATGGATAT	0.363									X-linked_Lymphoproliferative_syndrome				27	13	---	---	---	---	PASS	A	123020331	A	A	123020331	2	1	98	1	0	0	0	0	0	0	0	1	17425	1161	41	2		2	XIAP	23	123020331	Silent	SNP	G	TCGA-43-3920-01A-01D-0983-08	23357172	123020331	32250229	350	36630										
PCDH11Y	83259	broad.mit.edu	37	chrY	4925417	4925417	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165714285714286	58	1.05303351707984e-10	2.46952681542376	2.83269252357432	2.18889876821652	1	1	35	tatcaattccagagaactcgGctataaactctaaatatact	4	9	2	1			TCGA-43-3920-01A-01D-0983-08	TCGA-43-3920-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	a97333f4-d289-493f-8dff-88e52719fa86	5e11471c-1e1b-45dc-8b95-1d20c3f087b7	g.chrY:4925417G>C	uc004fqo.2	+	1	1287	c.553G>C	c.(553-555)GCT>CCT	p.A185P	PCDH11Y_uc010nwg.1_Missense_Mutation_p.A174P|PCDH11Y_uc004fql.1_Missense_Mutation_p.A174P|PCDH11Y_uc004fqm.1_Missense_Mutation_p.A174P|PCDH11Y_uc004fqn.1_Missense_Mutation_p.A185P	NM_032973	NP_116755	Q9BZA8	PC11Y_HUMAN	protocadherin 11 Y-linked isoform c	185	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						AGAGAACTCGGCTATAAACTC	0.368													11	9	---	---	---	---	PASS	C	4925417	C	C	4925417	3	2	98	1	0	0	0	0	1	0	0	0	11509	1203	42	4	591	4	PCDH11Y	24	4925417	Missense_Mutation	SNP	G	TCGA-43-3920-01A-01D-0983-08		4925417	54448149	351	36631										
ACOT7	11332	broad.mit.edu	37	chr1	6341204	6341204	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gacctgccttcctggctcagCgacacgtaggtgaagaaggc	13	12	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:6341204C>T	uc001ams.2	-	8	1159	c.1002G>A	c.(1000-1002)TCG>TCA	p.S334S	ACOT7_uc010nzq.1_Silent_p.S219S|ACOT7_uc001amt.2_Silent_p.S324S|ACOT7_uc001amu.2_RNA|ACOT7_uc001amv.2_RNA|ACOT7_uc001amq.2_Silent_p.S283S|ACOT7_uc001amr.2_Silent_p.S304S	NM_181864	NP_863654	O00154	BACH_HUMAN	acyl-CoA thioesterase 7 isoform hBACHb	334						mitochondrion|nucleus	carboxylesterase activity|fatty-acyl-CoA binding|palmitoyl-CoA hydrolase activity				0	Ovarian(185;0.0634)|all_lung(157;0.175)	all_cancers(23;1.42e-38)|all_epithelial(116;3.96e-23)|all_lung(118;3.69e-08)|Lung NSC(185;8.52e-07)|all_hematologic(16;6.92e-06)|Colorectal(325;4.53e-05)|Acute lymphoblastic leukemia(12;5e-05)|all_neural(13;0.000164)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0393)|Medulloblastoma(700;0.211)		Epithelial(90;9.16e-37)|GBM - Glioblastoma multiforme(13;5.89e-29)|OV - Ovarian serous cystadenocarcinoma(86;7.63e-19)|Colorectal(212;1.27e-07)|COAD - Colon adenocarcinoma(227;2.06e-05)|Kidney(185;7.74e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00129)|BRCA - Breast invasive adenocarcinoma(365;0.00132)|STAD - Stomach adenocarcinoma(132;0.00195)|READ - Rectum adenocarcinoma(331;0.0481)		CCTGGCTCAGCGACACGTAGG	0.647											OREG0013034	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	22	---	---	---	---	PASS	T	6341204	T	T	6341204	2	4	99	1	0	0	0	0	0	0	0	1	155	755	27	1		1	ACOT7	1	6341204	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08		6341204	242909417	1	36632										
CELA2A	63036	broad.mit.edu	37	chr1	15788058	15788058	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcctttgcttctccccaggtCtccctgcagtacagctccaa	6	17	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:15788058C>G	uc001awk.2	+	3	158	c.132C>G	c.(130-132)GTC>GTG	p.V44V		NM_033440	NP_254275	P08217	CEL2A_HUMAN	elastase 2A preproprotein	44	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						CTCCCCAGGTCTCCCTGCAGT	0.512													9	45	---	---	---	---	PASS	G	15788058	G	G	15788058	2	3	99	1	0	0	0	0	0	0	0	1	3211	900	32	2		2	CELA2A	1	15788058	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	9446854	15788058	233462563	2	36633										
CLCNKA	1187	broad.mit.edu	37	chr1	16358208	16358208	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agcccctctgcctgcagctcCcaccatgtgagggtggagca	12	15	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:16358208C>A	uc001axu.2	+	16	1706	c.1626C>A	c.(1624-1626)TCC>TCA	p.S542S	CLCNKA_uc001axt.2_RNA|CLCNKA_uc001axv.2_Silent_p.S542S|CLCNKA_uc010obw.1_Silent_p.S499S|CLCNKB_uc001axw.3_Intron|CLCNKA_uc010oby.1_Silent_p.S278S	NM_004070	NP_004061	P51800	CLCKA_HUMAN	chloride channel Ka isoform 1	542					excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)	Niflumic Acid(DB04552)	CCTGCAGCTCCCACCATGTGA	0.622													9	22	---	---	---	---	PASS	A	16358208	A	A	16358208	2	1	99	1	0	0	0	0	0	0	0	1	3469	610	22	3		3	CLCNKA	1	16358208	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	570150	16358208	232892413	3	36634										
PADI4	23569	broad.mit.edu	37	chr1	17660457	17660457	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggttcagatttcatactacgGacccaagactccaccagtca	7	13	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:17660457G>T	uc001baj.2	+	3	321	c.293G>T	c.(292-294)GGA>GTA	p.G98V	PADI4_uc009vpc.2_Missense_Mutation_p.G98V	NM_012387	NP_036519	Q9UM07	PADI4_HUMAN	peptidyl arginine deiminase, type IV	98					chromatin modification|peptidyl-citrulline biosynthetic process from peptidyl-arginine|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000338)|Lung NSC(340;0.00042)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00537)|BRCA - Breast invasive adenocarcinoma(304;8.54e-06)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(64;0.000223)|KIRC - Kidney renal clear cell carcinoma(64;0.00313)|STAD - Stomach adenocarcinoma(196;0.00707)|READ - Rectum adenocarcinoma(331;0.0689)|Lung(427;0.199)	L-Citrulline(DB00155)	TCATACTACGGACCCAAGACT	0.393													7	27	---	---	---	---	PASS	T	17660457	T	T	17660457	3	4	99	1	0	0	0	0	1	0	0	0	11380	1174	41	2	303	2	PADI4	1	17660457	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1302249	17660457	231590164	4	36635										
PAX7	5081	broad.mit.edu	37	chr1	19062446	19062446	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agggcctcctgcttgtttatGgagagctacaaggtggtgtc	14	8	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:19062446G>T	uc001bay.2	+	8	2074	c.1476G>T	c.(1474-1476)ATG>ATT	p.M492I	PAX7_uc001baz.2_Missense_Mutation_p.M490I|PAX7_uc010oct.1_Intron	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	492					anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		GCTTGTTTATGGAGAGctaca	0.338			T	FOXO1A	alveolar rhabdomyosarcoma								4	26	---	---	---	---	PASS	T	19062446	T	T	19062446	3	4	99	1	0	0	0	0	1	0	0	0	11484	1348	47	3	1506	3	PAX7	1	19062446	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1401989	19062446	230188175	5	36636										
ALDH4A1	8659	broad.mit.edu	37	chr1	19212005	19212005	+	Missense_Mutation	SNP	G	A	A													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggcgaggatctcagccctgcGcggcccactcagcatgtctg							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:19212005G>A	uc001bbb.2	-	5	691	c.415C>T	c.(415-417)CGC>TGC	p.R139C	ALDH4A1_uc010ocu.1_Missense_Mutation_p.R79C|ALDH4A1_uc001bbc.2_Missense_Mutation_p.R139C	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	139					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	TCAGCCCTGCGCGGCCCACTC	0.453													5	8	---	---	---	---	PASS	A	19212005	A	A	19212005	3	1	99	1	0	0	0	0	1	0	0	0	501	1087	38	1	1320	1	ALDH4A1	1	19212005	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	149559	19212005	230038616	6	36637	680	2								
ALDH4A1	8659	broad.mit.edu	37	chr1	19212006	19212006	+	Silent	SNP	C	G	G													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcgaggatctcagccctgcgCggcccactcagcatgtctgc					rs141755639	byFrequency	TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:19212006C>G	uc001bbb.2	-	5	690	c.414G>C	c.(412-414)CCG>CCC	p.P138P	ALDH4A1_uc010ocu.1_Silent_p.P78P|ALDH4A1_uc001bbc.2_Silent_p.P138P	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	138					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	CAGCCCTGCGCGGCCCACTCA	0.453													5	8	---	---	---	---	PASS	G	19212006	G	G	19212006	2	3	99	1	0	0	0	0	0	0	0	1	501	755	27	4		4	ALDH4A1	1	19212006	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1	19212006	230038615	7	36638	680	2								
UBR4	23352	broad.mit.edu	37	chr1	19451160	19451160	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgttagaagctgagtataggCctcaaacacatcagcagcat	9	9	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:19451160C>A	uc001bbi.2	-	65	9467	c.9463G>T	c.(9463-9465)GCC>TCC	p.A3155S	UBR4_uc001bbk.1_Missense_Mutation_p.A802S	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3155					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TGAGTATAGGCCTCAAACACA	0.433													4	41	---	---	---	---	PASS	A	19451160	A	A	19451160	3	1	99	1	0	0	0	0	1	0	0	0	16901	739	26	3	6256	3	UBR4	1	19451160	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	239154	19451160	229799461	8	36639										
CAPZB	832	broad.mit.edu	37	chr1	19666102	19666102	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tttgatttgtctgcaaaagtCtgcacagacctgcaagggag	11	8	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:19666102C>A	uc010ocz.1	-	9	1256	c.828G>T	c.(826-828)CAG>CAT	p.Q276H	CAPZB_uc001bce.2_Missense_Mutation_p.Q247H|CAPZB_uc009vpk.2_Missense_Mutation_p.D248Y|CAPZB_uc001bcd.2_Missense_Mutation_p.Q235H	NM_004930	NP_004921	P47756	CAPZB_HUMAN	F-actin capping protein beta subunit	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement	cytosol|F-actin capping protein complex|WASH complex	actin binding				0		Colorectal(325;3.93e-05)|Renal(390;0.000147)|all_lung(284;0.000169)|Lung NSC(340;0.000202)|Breast(348;0.000496)|Ovarian(437;0.00428)|Myeloproliferative disorder(586;0.0262)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Kidney(64;8.63e-06)|BRCA - Breast invasive adenocarcinoma(304;4.06e-05)|KIRC - Kidney renal clear cell carcinoma(64;0.000175)|GBM - Glioblastoma multiforme(114;0.000525)|STAD - Stomach adenocarcinoma(196;0.00779)|READ - Rectum adenocarcinoma(331;0.103)|Lung(427;0.173)		CTGCAAAAGTCTGCACAGACC	0.517													32	132	---	---	---	---	PASS	A	19666102	A	A	19666102	3	1	99	1	0	0	0	0	1	0	0	0	2643	912	32	2	81	2	CAPZB	1	19666102	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	214942	19666102	229584519	9	36640										
RHD	6007	broad.mit.edu	37	chr1	25627436	25627436	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcttactgggttttattgcaGacagactaccacatgaacat	7	9	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:25627436G>A	uc001bjz.2	+	4	545	c.487_splice	c.e4-1	p.T163_splice	RHD_uc010oep.1_Splice_Site_p.T163_splice|RHD_uc001bkc.2_Splice_Site_p.T163_splice|RHD_uc009vrm.2_Intron|RHD_uc001bka.2_Splice_Site_p.T163_splice|RHD_uc001bkb.2_Splice_Site_p.T163_splice|RHD_uc009vrn.2_Splice_Site_p.T163_splice|RHD_uc009vro.2_Splice_Site_p.T163_splice|RHD_uc009vrp.2_Splice_Site_p.T163_splice	NM_016124	NP_057208	Q02161	RHD_HUMAN	Rh blood group D antigen isoform 1							integral to plasma membrane				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.39e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000332)|BRCA - Breast invasive adenocarcinoma(304;0.000438)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000908)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TTTTATTGCAGACAGACTACC	0.537													13	88	---	---	---	---	PASS	A	25627436	A	A	25627436	5	1	99	1	0	0	0	0	0	0	1	0	13327	956	33	2	500	2	RHD	1	25627436	Splice_Site	SNP	G	TCGA-43-5668-01A-01D-1632-08	5961334	25627436	223623185	10	36641										
SLC9A1	6548	broad.mit.edu	37	chr1	27480681	27480681	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcgttctcgtggtggctctgAgcttcgaatggtgctggcag	16	9	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:27480681A>C	uc001bnm.2	-	1	771	c.145T>G	c.(145-147)TCA>GCA	p.S49A	SLC9A1_uc010ofk.1_5'UTR|SLC9A1_uc001bnn.2_Missense_Mutation_p.S49A	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	49	Extracellular (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	GGTGGCTCTGAGCTTCGAATG	0.597													8	30	---	---	---	---	PASS	C	27480681	C	C	27480681	3	2	99	1	0	0	0	0	1	0	0	0	14709	304	11	5	2350	5	SLC9A1	1	27480681	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1853245	27480681	221769940	11	36642										
SFRS4	6429	broad.mit.edu	37	chr1	29475183	29475183	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgctcctttgacacggagcgGgatggagatctggactggga	16	9	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:29475183G>A	uc001bro.2	-	6	1597	c.1224C>T	c.(1222-1224)TCC>TCT	p.S408S	SFRS4_uc010ofy.1_3'UTR	NM_005626	NP_005617	Q08170	SRSF4_HUMAN	splicing factor, arginine/serine-rich 4	408	Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|RNA binding				0		Colorectal(325;0.00161)|Breast(348;0.0364)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0529)|Lung NSC(340;0.0654)|all_lung(284;0.074)|Ovarian(437;0.104)|Medulloblastoma(700;0.151)		Colorectal(126;1.01e-07)|COAD - Colon adenocarcinoma(152;6.21e-06)|STAD - Stomach adenocarcinoma(196;0.0196)|BRCA - Breast invasive adenocarcinoma(304;0.0531)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.138)		ACACGGAGCGGGATGGAGATC	0.428													48	126	---	---	---	---	PASS	A	29475183	A	A	29475183	2	1	99	1	0	0	0	0	0	0	0	1	14179	1219	43	3		3	SFRS4	1	29475183	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	1994502	29475183	219775438	12	36643										
CSMD2	114784	broad.mit.edu	37	chr1	34123686	34123686	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cttcccaactgtcaccactcCgactcccattctgcgggatc	6	18	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:34123686C>T	uc001bxn.1	-	27	4216	c.4187G>A	c.(4186-4188)CGG>CAG	p.R1396Q	CSMD2_uc001bxm.1_Missense_Mutation_p.R1436Q|CSMD2_uc001bxo.1_Missense_Mutation_p.R309Q	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1396	Extracellular (Potential).|Sushi 8.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GTCACCACTCCGACTCCCATT	0.587													21	54	---	---	---	---	PASS	T	34123686	T	T	34123686	3	4	99	1	0	0	0	0	1	0	0	0	3945	652	23	1	6448	1	CSMD2	1	34123686	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	4648503	34123686	215126935	13	36644										
GJB5	2709	broad.mit.edu	37	chr1	35223426	35223426	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cctcctgtggtcaagtgccaCgcagatccatgtcccaatat	8	14	1	1	rs149592496	byFrequency	TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:35223426C>T	uc001bxu.2	+	2	595	c.495C>T	c.(493-495)CAC>CAT	p.H165H	GJB4_uc001bxv.1_5'Flank	NM_005268	NP_005259	O95377	CXB5_HUMAN	gap junction protein, beta 5, 31.1kDa	165	Extracellular (Potential).				cell communication|epidermis development	connexon complex|integral to membrane				ovary(1)	1		Myeloproliferative disorder(586;0.0393)				TCAAGTGCCACGCAGATCCAT	0.512													18	50	---	---	---	---	PASS	T	35223426	T	T	35223426	2	4	99	1	0	0	0	0	0	0	0	1	6411	535	19	1		1	GJB5	1	35223426	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1099740	35223426	214027195	14	36645										
MACF1	23499	broad.mit.edu	37	chr1	39823534	39823534	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaaggacaagttgaaggatgCaacagaaagatacactgctc	10	7	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:39823534C>G	uc010oiu.1	+	9	7363	c.7232C>G	c.(7231-7233)GCA>GGA	p.A2411G	MACF1_uc010ois.1_Missense_Mutation_p.A1909G|MACF1_uc001cda.1_Missense_Mutation_p.A1817G|MACF1_uc001cdc.1_Missense_Mutation_p.A996G|MACF1_uc001cdb.1_Missense_Mutation_p.A996G	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3976					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)			TTGAAGGATGCAACAGAAAGA	0.433													10	9	---	---	---	---	PASS	G	39823534	G	G	39823534	3	3	99	1	0	0	0	0	1	0	0	0	9144	710	25	4	12035	4	MACF1	1	39823534	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	4600108	39823534	209427087	15	36646										
KIAA0467	23334	broad.mit.edu	37	chr1	43897158	43897158	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggactatccaatttggccacGccccacagactggctattga	9	13	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:43897158G>T	uc001cjk.1	+	20	2817	c.2355G>T	c.(2353-2355)ACG>ACT	p.T785T		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1684						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				ATTTGGCCACGCCCCACAGAC	0.463													13	101	---	---	---	---	PASS	T	43897158	T	T	43897158	2	4	99	1	0	0	0	0	0	0	0	1	8178	1074	38	1		1	KIAA0467	1	43897158	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	4073624	43897158	205353463	16	36647										
TMEM53	79639	broad.mit.edu	37	chr1	45120240	45120240	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gagcaatggcctcagcagcgGacgcagttgcgcatgaagtc	14	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:45120240G>A	uc001cmc.2	-	3	861	c.825C>T	c.(823-825)GTC>GTT	p.V275V	TMEM53_uc001cmb.1_Intron|TMEM53_uc001cmd.2_Silent_p.V202V|TMEM53_uc009vxh.1_Silent_p.V158V|TMEM53_uc010ola.1_Silent_p.V158V	NM_024587	NP_078863	Q6P2H8	TMM53_HUMAN	transmembrane protein 53	275						integral to membrane				ovary(2)	2	Acute lymphoblastic leukemia(166;0.155)					CTCAGCAGCGGACGCAGTTGC	0.542													5	55	---	---	---	---	PASS	A	45120240	A	A	45120240	2	1	99	1	0	0	0	0	0	0	0	1	16176	1161	41	2		2	TMEM53	1	45120240	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	1223082	45120240	204130381	17	36648										
FOXE3	2301	broad.mit.edu	37	chr1	47882444	47882444	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgctggaccccgcggccgcaGacatgttcgacaacggcagc	13	16	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:47882444G>A	uc001crk.2	+	1	701	c.457G>A	c.(457-459)GAC>AAC	p.D153N		NM_012186	NP_036318	Q13461	FOXE3_HUMAN	forkhead box E3	153	Fork-head.				cell migration|embryonic organ morphogenesis|enteric nervous system development|hair follicle morphogenesis|hard palate development|lens morphogenesis in camera-type eye|pattern specification process|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|soft palate development|thyroid gland development|thyroid hormone generation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0				READ - Rectum adenocarcinoma(2;0.0908)		CGCGGCCGCAGACATGTTCGA	0.557													8	37	---	---	---	---	PASS	A	47882444	A	A	47882444	3	1	99	1	0	0	0	0	1	0	0	0	6004	942	33	2	459	2	FOXE3	1	47882444	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2762204	47882444	201368177	18	36649										
GLIS1	148979	broad.mit.edu	37	chr1	53986384	53986384	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtgtggacgtgtggagctgcTgcaggaccagacactcggtc	16	10	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:53986384T>C	uc001cvr.1	-	6	1691	c.1124A>G	c.(1123-1125)CAG>CGG	p.Q375R		NM_147193	NP_671726	Q8NBF1	GLIS1_HUMAN	GLIS family zinc finger 1	375					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			skin(1)	1						GTGGAGCTGCTGCAGGACCAG	0.672													3	9	---	---	---	---	PASS	C	53986384	C	C	53986384	3	2	99	1	0	0	0	0	1	0	0	0	6445	1580	55	5	758	5	GLIS1	1	53986384	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	6103940	53986384	195264237	19	36650										
C8A	731	broad.mit.edu	37	chr1	57383237	57383237	+	Splice_Site	SNP	G	T	T													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cctgggaaatttcctctgcaGgagccaaagcagatgggagc							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:57383237G>T	uc001cyo.2	+	11	1736	c.1604_splice	c.e11-1	p.G535_splice		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide						complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						TTCCTCTGCAGGAGCCAAAGC	0.413													14	23	---	---	---	---	PASS	T	57383237	T	T	57383237	5	4	99	1	0	0	0	0	0	0	1	0	2416	1014	35	3	1645	3	C8A	1	57383237	Splice_Site	SNP	G	TCGA-43-5668-01A-01D-1632-08	3396853	57383237	191867384	20	36651	681	2								
C8A	731	broad.mit.edu	37	chr1	57383238	57383238	+	Missense_Mutation	SNP	G	T	T													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgggaaatttcctctgcagGagccaaagcagatgggagct							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:57383238G>T	uc001cyo.2	+	11	1736	c.1604G>T	c.(1603-1605)GGA>GTA	p.G535V		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	535					complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						TCCTCTGCAGGAGCCAAAGCA	0.418													14	25	---	---	---	---	PASS	T	57383238	T	T	57383238	3	4	99	1	0	0	0	0	1	0	0	0	2416	1188	41	2	1646	2	C8A	1	57383238	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1	57383238	191867383	21	36652	681	2								
JUN	3725	broad.mit.edu	37	chr1	59248409	59248409	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cagggcgcgcacgaagccctCggcgaagccctcctgctcat	12	17	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:59248409C>G	uc001cze.2	-	1	1377	c.334G>C	c.(334-336)GAG>CAG	p.E112Q	uc001czf.2_5'Flank|uc010oop.1_5'Flank	NM_002228	NP_002219	P05412	JUN_HUMAN	jun oncogene	112					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation by host of viral transcription|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|SMAD protein import into nucleus|SMAD protein signal transduction|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|transforming growth factor beta receptor signaling pathway		R-SMAD binding|Rho GTPase activator activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity|transcription factor binding|transcription regulatory region DNA binding				0	all_cancers(7;8.55e-07)				Arsenic trioxide(DB01169)|Irbesartan(DB01029)|Vinblastine(DB00570)	ACGAAGCCCTCGGCGAAGCCC	0.672			A		sarcoma								19	66	---	---	---	---	PASS	G	59248409	G	G	59248409	3	3	99	1	0	0	0	0	1	0	0	0	7969	893	31	2	665	2	JUN	1	59248409	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1865171	59248409	190002212	22	36653										
ATG4C	84938	broad.mit.edu	37	chr1	63329799	63329799	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgaaaagaaacaattaaaaaGatttagcacggaagagtttg	9	3	0	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:63329799G>C	uc001dat.2	+	11	1508	c.1346G>C	c.(1345-1347)AGA>ACA	p.R449T	ATG4C_uc001dau.2_Missense_Mutation_p.R449T	NM_178221	NP_835739	Q96DT6	ATG4C_HUMAN	APG4 autophagy 4 homolog C isoform 8	449					autophagic vacuole assembly|protein targeting to membrane|proteolysis	cytosol|extracellular region	cysteine-type endopeptidase activity			ovary(1)	1						CAATTAAAAAGATTTAGCACG	0.313													13	35	---	---	---	---	PASS	C	63329799	C	C	63329799	3	2	99	1	0	0	0	0	1	0	0	0	1098	942	33	2	1384	2	ATG4C	1	63329799	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	4081390	63329799	185920822	23	36654										
DNAJC6	9829	broad.mit.edu	37	chr1	65855081	65855081	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcacaaaagatgtcaatcccAgcatcctcttctcttctcac	4	15	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:65855081A>G	uc001dcd.1	+	10	1329	c.1165A>G	c.(1165-1167)AGC>GGC	p.S389G	DNAJC6_uc001dcc.1_Missense_Mutation_p.S420G|DNAJC6_uc010opc.1_Missense_Mutation_p.S376G|DNAJC6_uc001dce.1_Missense_Mutation_p.S446G	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	389					cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						TGTCAATCCCAGCATCCTCTT	0.443													16	39	---	---	---	---	PASS	G	65855081	G	G	65855081	3	3	99	1	0	0	0	0	1	0	0	0	4653	188	7	5	1203	5	DNAJC6	1	65855081	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	2525282	65855081	183395540	24	36655										
LRRC7	57554	broad.mit.edu	37	chr1	70291484	70291484	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtaagtgtttaacaattattGaagccagtgtcaatcccatt	7	7	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:70291484G>T	uc001dep.2	+	3	391	c.361G>T	c.(361-363)GAA>TAA	p.E121*	LRRC7_uc001deo.1_Nonsense_Mutation_p.E159*|LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	121	LRR 5.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						AACAATTATTGAAGCCAGTGT	0.274													4	44	---	---	---	---	PASS	T	70291484	T	T	70291484	4	4	99	1	0	0	0	0	0	1	0	0	9020	1291	45	2	371	2	LRRC7	1	70291484	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	4436403	70291484	178959137	25	36656										
LRRC7	57554	broad.mit.edu	37	chr1	70493891	70493891	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acgatatccaactccttaccCagaggatttaaagaatatgg	7	9	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:70493891C>G	uc001dep.2	+	16	1748	c.1718C>G	c.(1717-1719)CCA>CGA	p.P573R	LRRC7_uc009wbg.2_Intron	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	573						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						ACTCCTTACCCAGAGGATTTA	0.348													12	50	---	---	---	---	PASS	G	70493891	G	G	70493891	3	3	99	1	0	0	0	0	1	0	0	0	9020	594	21	4	1780	4	LRRC7	1	70493891	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	202407	70493891	178756730	26	36657										
PTGER3	5733	broad.mit.edu	37	chr1	71478136	71478136	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcttgcagtgctcaactgatGtctgattgaagatcattttc	8	8	4	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:71478136G>A	uc001dfg.1	-	2	1160	c.929C>T	c.(928-930)ACA>ATA	p.T310I	PTGER3_uc001dfh.1_RNA|PTGER3_uc001dfi.1_RNA|PTGER3_uc001dfj.1_RNA|PTGER3_uc001dfk.1_Missense_Mutation_p.T310I|PTGER3_uc001dfl.1_Missense_Mutation_p.T310I|PTGER3_uc009wbm.1_Missense_Mutation_p.T310I|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Missense_Mutation_p.T310I|PTGER3_uc009wbn.1_Missense_Mutation_p.T310I|PTGER3_uc009wbo.2_Missense_Mutation_p.T310I|PTGER3_uc001dfo.2_Missense_Mutation_p.T310I|PTGER3_uc001dfp.1_Missense_Mutation_p.T310I|PTGER3_uc001dfq.2_Missense_Mutation_p.T310I	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	310	Extracellular (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	CTCAACTGATGTCTGATTGAA	0.333													7	37	---	---	---	---	PASS	A	71478136	A	A	71478136	3	1	99	1	0	0	0	0	1	0	0	0	12744	1377	48	3	558	3	PTGER3	1	71478136	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	984245	71478136	177772485	27	36658										
TNNI3K	51086	broad.mit.edu	37	chr1	74832986	74832986	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagcattataagagaccacaAgatgaattgccctgtaatga	8	7	0	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:74832986A>G	uc001dgf.1	+	12	1275	c.1224A>G	c.(1222-1224)CAA>CAG	p.Q408Q	TNNI3K_uc001dgc.1_Silent_p.Q509Q|TNNI3K_uc001dgd.2_Silent_p.Q509Q|TNNI3K_uc001dge.1_Silent_p.Q509Q	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	408	ANK 10.					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						AGAGACCACAAGATGAATTGC	0.348													16	78	---	---	---	---	PASS	G	74832986	G	G	74832986	2	3	99	1	0	0	0	0	0	0	0	1	16326	69	3	5		5	TNNI3K	1	74832986	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	3354850	74832986	174417635	28	36659										
RABGGTB	5876	broad.mit.edu	37	chr1	76254853	76254853	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tattattttaggaatactgtAtgtctgagtatttgagaatg	9	2	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:76254853A>T	uc001dgy.1	+	3	192	c.121A>T	c.(121-123)ATG>TTG	p.M41L	RABGGTB_uc009wbt.1_RNA|RABGGTB_uc001dha.1_5'UTR|SNORD45B_uc009wbv.1_5'Flank	NM_004582	NP_004573	P53611	PGTB2_HUMAN	RAB geranylgeranyltransferase, beta subunit	41	PFTB 1.				protein modification process|visual perception		metal ion binding|protein binding|Rab geranylgeranyltransferase activity			ovary(1)	1						GGAATACTGTATGTCTGAGTA	0.353													11	65	---	---	---	---	PASS	T	76254853	T	T	76254853	3	4	99	1	0	0	0	0	1	0	0	0	12968	449	16	5	131	5	RABGGTB	1	76254853	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1421867	76254853	172995768	29	36660										
MSH4	4438	broad.mit.edu	37	chr1	76280782	76280782	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtacattgaacagttatgcaTagcagaattcagcactgtcc	8	9	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:76280782T>A	uc001dhd.1	+	5	817	c.776T>A	c.(775-777)ATA>AAA	p.I259K		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	259					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						CAGTTATGCATAGCAGAATTC	0.299								MMR					11	57	---	---	---	---	PASS	A	76280782	A	A	76280782	3	1	99	1	0	0	0	0	1	0	0	0	9872	1406	49	5	794	5	MSH4	1	76280782	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	25929	76280782	172969839	30	36661										
ZZZ3	26009	broad.mit.edu	37	chr1	78099011	78099011	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttaaccccactgttgatcttGtaacacgagtagatcgggaa	9	9	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:78099011G>C	uc001dhq.2	-	5	505	c.29C>G	c.(28-30)ACA>AGA	p.T10R	ZZZ3_uc001dhr.2_Intron|ZZZ3_uc009wbz.1_Missense_Mutation_p.T10R|ZZZ3_uc001dhp.2_Missense_Mutation_p.T10R	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	10					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						TGTTGATCTTGTAACACGAGT	0.403													27	67	---	---	---	---	PASS	C	78099011	C	C	78099011	3	2	99	1	0	0	0	0	1	0	0	0	18253	1377	48	4	2726	4	ZZZ3	1	78099011	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1818229	78099011	171151610	31	36662										
IFI44L	10964	broad.mit.edu	37	chr1	79101166	79101166	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	taaaaggttgtatgccagacAgatatcaggtaagatttctt	9	5	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:79101166A>T	uc010oro.1	+	5	1047	c.868A>T	c.(868-870)AGA>TGA	p.R290*	IFI44L_uc010orp.1_Nonsense_Mutation_p.R27*|IFI44L_uc010orq.1_Nonsense_Mutation_p.R27*	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	290						cytoplasm					0						TATGCCAGACAGATATCAGGT	0.383													9	63	---	---	---	---	PASS	T	79101166	T	T	79101166	4	4	99	1	0	0	0	0	0	1	0	0	7518	180	7	5	882	5	IFI44L	1	79101166	Nonsense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1002155	79101166	170149455	32	36663										
ELTD1	64123	broad.mit.edu	37	chr1	79402025	79402025	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctttggaaatatatttatgtAgtctccatccatattcatat	4	7	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:79402025A>T	uc001diq.3	-	7	988	c.832T>A	c.(832-834)TAC>AAC	p.Y278N		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	278	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)		ATATTTATGTAGTCTCCATCC	0.264													11	90	---	---	---	---	PASS	T	79402025	T	T	79402025	3	4	99	1	0	0	0	0	1	0	0	0	5084	420	15	5	1276	5	ELTD1	1	79402025	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	300859	79402025	169848596	33	36664										
COL24A1	255631	broad.mit.edu	37	chr1	86590959	86590959	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttttgcctcactgatgcgatGagtggtcactgacaggctga	12	9	2	4	rs116613844	by1000genomes	TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:86590959G>T	uc001dlj.2	-	3	1102	c.1060C>A	c.(1060-1062)CAT>AAT	p.H354N	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.H354N	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	354					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)		CTGATGCGATGAGTGGTCACT	0.408													9	67	---	---	---	---	PASS	T	86590959	T	T	86590959	3	4	99	1	0	0	0	0	1	0	0	0	3683	1290	45	2	4316	2	COL24A1	1	86590959	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	7188934	86590959	162659662	34	36665										
RBMXL1	494115	broad.mit.edu	37	chr1	89449001	89449001	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttccactgctgctgcgaactAgtcctgaaggtgcagatctc	10	12	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:89449001A>T	uc009wcx.2	-	3	1225	c.509T>A	c.(508-510)CTA>CAA	p.L170Q	CCBL2_uc001dmp.2_Intron|CCBL2_uc001dmq.2_Intron|CCBL2_uc001dmr.2_Intron|RBMXL1_uc001dms.2_Missense_Mutation_p.L170Q	NM_001162536	NP_001156008	Q96E39	RBMXL_HUMAN	RNA binding motif protein, X-linked-like 1	170							nucleotide binding|RNA binding				0						GCTGCGAACTAGTCCTGAAGG	0.517													47	150	---	---	---	---	PASS	T	89449001	T	T	89449001	3	4	99	1	0	0	0	0	1	0	0	0	13153	420	15	5	667	5	RBMXL1	1	89449001	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	2858042	89449001	159801620	35	36666										
GBP6	163351	broad.mit.edu	37	chr1	89834177	89834177	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ataacaatgagcagctattgGtgaaccagcaagctatacag	9	8	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:89834177G>T	uc001dnf.2	+	2	341	c.67G>T	c.(67-69)GTG>TTG	p.V23L	GBP6_uc010ost.1_Intron	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	23							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		GCAGCTATTGGTGAACCAGCA	0.478													8	58	---	---	---	---	PASS	T	89834177	T	T	89834177	3	4	99	1	0	0	0	0	1	0	0	0	6278	1261	44	3	69	3	GBP6	1	89834177	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	385176	89834177	159416444	36	36667										
ARHGAP29	9411	broad.mit.edu	37	chr1	94668516	94668516	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caaagctcttttatttctttCctttgtttttccatttcatt	2	9	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:94668516C>A	uc001dqj.3	-	10	1281	c.912G>T	c.(910-912)AGG>AGT	p.R304S	ARHGAP29_uc009wdq.1_RNA|ARHGAP29_uc001dql.2_Missense_Mutation_p.R304S	NM_004815	NP_004806	Q52LW3	RHG29_HUMAN	PTPL1-associated RhoGAP 1	304	Potential.				Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|upper_aerodigestive_tract(1)|ovary(1)	11		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		TTATTTCTTTCCTTTGTTTTT	0.308													8	65	---	---	---	---	PASS	A	94668516	A	A	94668516	3	1	99	1	0	0	0	0	1	0	0	0	878	854	30	2	2929	2	ARHGAP29	1	94668516	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	4834339	94668516	154582105	37	36668										
C1orf103	55791	broad.mit.edu	37	chr1	111494390	111494390	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atttgtgatggcagaacatcTgtcccctttttagccaacag	8	10	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:111494390T>A	uc001eaa.2	-	2	1372	c.1116A>T	c.(1114-1116)ACA>ACT	p.T372T	C1orf103_uc001dzz.2_Intron|C1orf103_uc001eab.2_Intron|C1orf103_uc001eac.1_Intron	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	372					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		GCAGAACATCTGTCCCCTTTT	0.408													23	145	---	---	---	---	PASS	A	111494390	A	A	111494390	2	1	99	1	0	0	0	0	0	0	0	1	1977	1567	55	5		5	C1orf103	1	111494390	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	16825874	111494390	137756231	38	36669										
SYCP1	6847	broad.mit.edu	37	chr1	115399895	115399895	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tttcttgcccgtgcttgagcAggtcagttaagcatagtaca	10	9	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:115399895A>T	uc001efr.2	+	4	445	c.236A>T	c.(235-237)CAG>CTG	p.Q79L	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.Q79L|SYCP1_uc009wgw.2_Missense_Mutation_p.Q79L	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	79	Asp/Glu-rich (acidic).				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTGCTTGAGCAGGTCAGTTAA	0.308													6	21	---	---	---	---	PASS	T	115399895	T	T	115399895	3	4	99	1	0	0	0	0	1	0	0	0	15428	202	7	5	246	5	SYCP1	1	115399895	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	3905505	115399895	133850726	39	36670										
SYCP1	6847	broad.mit.edu	37	chr1	115537564	115537564	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tggagctataagaaaaatgcGggaggaccgttgggctgtaa	15	5	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:115537564G>C	uc001efr.2	+	32	3064	c.2855G>C	c.(2854-2856)CGG>CCG	p.R952P	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.R952P|SYCP1_uc009wgw.2_Missense_Mutation_p.R927P	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	952					cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGAAAAATGCGGGAGGACCGT	0.333													15	32	---	---	---	---	PASS	C	115537564	C	C	115537564	3	2	99	1	0	0	0	0	1	0	0	0	15428	1116	39	4	2977	4	SYCP1	1	115537564	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	137669	115537564	133713057	40	36671										
IGSF3	3321	broad.mit.edu	37	chr1	117150580	117150580	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttactgagggggaggactatGatggggatgttcttgggacg	18	4	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:117150580G>T	uc001egr.1	-	5	1911	c.1206C>A	c.(1204-1206)ATC>ATA	p.I402I	IGSF3_uc001egq.1_Silent_p.I402I|IGSF3_uc001egs.1_Silent_p.I75I	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	402	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		GGAGGACTATGATGGGGATGT	0.502													4	66	---	---	---	---	PASS	T	117150580	T	T	117150580	2	4	99	1	0	0	0	0	0	0	0	1	7601	1280	45	2		2	IGSF3	1	117150580	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	1613016	117150580	132100041	41	36672										
PTGFRN	5738	broad.mit.edu	37	chr1	117527364	117527364	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttggcctggacaaggctcctGtgctcctgtcttccctggat	11	13	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:117527364G>T	uc001egv.1	+	8	2367	c.2230G>T	c.(2230-2232)GTG>TTG	p.V744L		NM_020440	NP_065173	Q9P2B2	FPRP_HUMAN	prostaglandin F2 receptor negative regulator	744	Ig-like C2-type 6.|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	protein binding			liver(1)	1	Lung SC(450;0.225)	all_cancers(81;0.00104)|all_lung(203;8.97e-05)|all_epithelial(167;0.000139)|Lung NSC(69;0.000446)		Lung(183;0.0704)|LUSC - Lung squamous cell carcinoma(189;0.227)|Colorectal(144;0.248)		CAAGGCTCCTGTGCTCCTGTC	0.572													15	31	---	---	---	---	PASS	T	117527364	T	T	117527364	3	4	99	1	0	0	0	0	1	0	0	0	12750	1377	48	3	2260	3	PTGFRN	1	117527364	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	376784	117527364	131723257	42	36673										
MAN1A2	10905	broad.mit.edu	37	chr1	118035780	118035780	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttgttacagatcatacatctGtcggtggcctgggagacagt	12	8	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:118035780G>T	uc001ehd.1	+	9	1901	c.1180G>T	c.(1180-1182)GTC>TTC	p.V394F	MAN1A2_uc009whg.1_Missense_Mutation_p.V184F	NM_006699	NP_006690	O60476	MA1A2_HUMAN	mannosidase, alpha, class 1A, member 2	394	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity				0	Lung SC(450;0.225)	all_cancers(81;7.9e-06)|all_epithelial(167;7.39e-07)|all_lung(203;2.84e-06)|Lung NSC(69;1.99e-05)		Lung(183;0.0688)|Kidney(133;0.114)|LUSC - Lung squamous cell carcinoma(189;0.223)|KIRC - Kidney renal clear cell carcinoma(1967;0.237)|Colorectal(144;0.243)		TCATACATCTGTCGGTGGCCT	0.363													11	23	---	---	---	---	PASS	T	118035780	T	T	118035780	3	4	99	1	0	0	0	0	1	0	0	0	9211	1377	48	3	1214	3	MAN1A2	1	118035780	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	508416	118035780	131214841	43	36674										
FLG	2312	broad.mit.edu	37	chr1	152275921	152275921	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctcctgactgttcctcattaCgtgtttctctgcttgcactt	6	13	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:152275921C>T	uc001ezu.1	-	3	11477	c.11441G>A	c.(11440-11442)CGT>CAT	p.R3814H		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3814	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCCTCATTACGTGTTTCTCT	0.577									Ichthyosis				50	355	---	---	---	---	PASS	T	152275921	T	T	152275921	3	4	99	1	0	0	0	0	1	0	0	0	5922	536	19	1	748	1	FLG	1	152275921	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	34240141	152275921	96974700	44	36675										
KPRP	448834	broad.mit.edu	37	chr1	152732892	152732892	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tccccaccaagacgttttgaGccctgctccagcagctacct	7	17	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:152732892G>T	uc001fal.1	+	2	886	c.828G>T	c.(826-828)GAG>GAT	p.E276D		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	276	Pro-rich.					cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GACGTTTTGAGCCCTGCTCCA	0.592													7	36	---	---	---	---	PASS	T	152732892	T	T	152732892	3	4	99	1	0	0	0	0	1	0	0	0	8436	962	34	3	830	3	KPRP	1	152732892	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	456971	152732892	96517729	45	36676										
SNAPIN	23557	broad.mit.edu	37	chr1	153631258	153631258	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gccgctgtatcgggggcaggGaccccggtggcggggcccac	19	14	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:153631258G>T	uc001fcq.2	+	1	114	c.39G>T	c.(37-39)GGG>GGT	p.G13G		NM_012437	NP_036569	O95295	SNAPN_HUMAN	SNAP-associated protein	13					intracellular protein transport|synaptic vesicle exocytosis	BLOC-1 complex|cell junction|perinuclear region of cytoplasm|synaptic vesicle membrane|synaptosome	SNARE binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			CGGGGGCAGGGACCCCGGTGG	0.716													3	6	---	---	---	---	PASS	T	153631258	T	T	153631258	2	4	99	1	0	0	0	0	0	0	0	1	14839	1161	41	2		2	SNAPIN	1	153631258	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	898366	153631258	95619363	46	36677										
GON4L	54856	broad.mit.edu	37	chr1	155735075	155735075	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccctgaggttccttcatcagGgggctcttgagaagatgaag	13	9	3	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:155735075G>A	uc001flz.2	-	21	4286	c.4189C>T	c.(4189-4191)CCT>TCT	p.P1397S	GON4L_uc009wrg.1_RNA|GON4L_uc001fly.1_Missense_Mutation_p.P1397S|GON4L_uc009wrh.1_Missense_Mutation_p.P1397S|GON4L_uc001fma.1_Missense_Mutation_p.P1397S|GON4L_uc001fmb.3_Missense_Mutation_p.P593S|GON4L_uc001fmc.2_Missense_Mutation_p.P1397S|GON4L_uc001fmd.3_Missense_Mutation_p.P1397S|GON4L_uc009wri.2_Missense_Mutation_p.P983S	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	1397					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					CCTTCATCAGGGGGCTCTTGA	0.488													12	80	---	---	---	---	PASS	A	155735075	A	A	155735075	3	1	99	1	0	0	0	0	1	0	0	0	6572	1232	43	3	2698	3	GON4L	1	155735075	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2103817	155735075	93515546	47	36678										
OR10K1	391109	broad.mit.edu	37	chr1	158436059	158436059	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcctccgttggaagatacaaGaccttctccacctgtgcctc	7	15	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:158436059G>T	uc010pij.1	+	1	708	c.708G>T	c.(706-708)AAG>AAT	p.K236N		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GAAGATACAAGACCTTCTCCA	0.453													10	50	---	---	---	---	PASS	T	158436059	T	T	158436059	3	4	99	1	0	0	0	0	1	0	0	0	10913	933	33	2	710	2	OR10K1	1	158436059	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2700984	158436059	90814562	48	36679										
SPTA1	6708	broad.mit.edu	37	chr1	158648278	158648278	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggcgctcccaggcagcattcAcctcattttgcttagactga	9	13	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:158648278A>G	uc001fst.1	-	6	924	c.725T>C	c.(724-726)GTG>GCG	p.V242A		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	242	Spectrin 3.				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)					GGCAGCATTCACCTCATTTTG	0.428													6	46	---	---	---	---	PASS	G	158648278	G	G	158648278	3	3	99	1	0	0	0	0	1	0	0	0	15115	159	6	5	6722	5	SPTA1	1	158648278	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	212219	158648278	90602343	49	36680										
MNDA	4332	broad.mit.edu	37	chr1	158815668	158815668	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aggaagcatcatctgtgtctGactttaatcaaaattttgag	8	6	4	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:158815668G>T	uc001fsz.1	+	5	1062	c.862G>T	c.(862-864)GAC>TAC	p.D288Y		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	288	HIN-200.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					ATCTGTGTCTGACTTTAATCA	0.343													11	72	---	---	---	---	PASS	T	158815668	T	T	158815668	3	4	99	1	0	0	0	0	1	0	0	0	9676	1290	45	2	876	2	MNDA	1	158815668	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	167390	158815668	90434953	50	36681										
LMX1A	4009	broad.mit.edu	37	chr1	165322360	165322360	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttcttgtcccggtagaagcaGgtggtctccaggggctcttt	13	10	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:165322360G>A	uc001gcy.1	-	2	437	c.216C>T	c.(214-216)ACC>ACT	p.T72T	LMX1A_uc001gcz.1_Silent_p.T72T	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	72	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					GGTAGAAGCAGGTGGTCTCCA	0.607													20	39	---	---	---	---	PASS	A	165322360	A	A	165322360	2	1	99	1	0	0	0	0	0	0	0	1	8861	987	35	3		3	LMX1A	1	165322360	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	6506692	165322360	83928261	51	36682										
LRRC52	440699	broad.mit.edu	37	chr1	165513549	165513549	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttactatgtcccttgcttcaGgccctggccctgggtggtta	11	12	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:165513549G>T	uc001gde.2	+	1	72	c.16G>T	c.(16-18)GGC>TGC	p.G6C	LOC400794_uc001gdc.2_Intron|LOC400794_uc001gdd.2_Intron|LOC400794_uc009wvd.2_Intron	NM_001005214	NP_001005214	Q8N7C0	LRC52_HUMAN	leucine rich repeat containing 52 precursor	6						integral to membrane				ovary(1)	1	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)					CCTTGCTTCAGGCCCTGGCCC	0.557													11	74	---	---	---	---	PASS	T	165513549	T	T	165513549	3	4	99	1	0	0	0	0	1	0	0	0	9010	1000	35	3	18	3	LRRC52	1	165513549	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	191189	165513549	83737072	52	36683										
DUSP27	92235	broad.mit.edu	37	chr1	167097464	167097464	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tacaacgagacctcaagttcCcgagaggagagcccagagcc	11	13	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:167097464C>A	uc001geb.1	+	5	3096	c.3096C>A	c.(3094-3096)TCC>TCA	p.S1032S		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	1032	Ser-rich.				protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						CCTCAAGTTCCCGAGAGGAGA	0.572													11	31	---	---	---	---	PASS	A	167097464	A	A	167097464	2	1	99	1	0	0	0	0	0	0	0	1	4824	610	22	3		3	DUSP27	1	167097464	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1583915	167097464	82153157	53	36684										
SLC9A11	284525	broad.mit.edu	37	chr1	173569255	173569255	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aatttattgtacatacagtaCctcaacagaattgtaggcca	6	8	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:173569255C>A	uc001giz.2	-	3	651	c.228_splice	c.e3+1	p.E76_splice	SLC9A11_uc010pmq.1_Intron	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11						sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						ACATACAGTACCTCAACAGAA	0.353													7	29	---	---	---	---	PASS	A	173569255	A	A	173569255	5	1	99	1	0	0	0	0	0	0	1	0	14711	521	18	3	3249	3	SLC9A11	1	173569255	Splice_Site	SNP	C	TCGA-43-5668-01A-01D-1632-08	6471791	173569255	75681366	54	36685										
ASTN1	460	broad.mit.edu	37	chr1	176838113	176838113	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gttgtaggcggtctgctgctCcttcccactagtgtagccat	11	12	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:176838113C>A	uc001glc.2	-	22	3726	c.3514G>T	c.(3514-3516)GAG>TAG	p.E1172*	ASTN1_uc001glb.1_Nonsense_Mutation_p.E1172*|ASTN1_uc001gld.1_Nonsense_Mutation_p.E1172*	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	1180					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GTCTGCTGCTCCTTCCCACTA	0.428													6	41	---	---	---	---	PASS	A	176838113	A	A	176838113	4	1	99	1	0	0	0	0	0	1	0	0	1064	864	30	2	382	2	ASTN1	1	176838113	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3268858	176838113	72412508	55	36686										
FAM5B	57795	broad.mit.edu	37	chr1	177249890	177249890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagcaggatagccgcattgaGgtacactccatcttcatcag	9	11	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:177249890G>T	uc001glf.2	+	8	1890	c.1578G>T	c.(1576-1578)GAG>GAT	p.E526D	FAM5B_uc001glg.2_Missense_Mutation_p.E421D	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	526						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						GCCGCATTGAGGTACACTCCA	0.547													4	18	---	---	---	---	PASS	T	177249890	T	T	177249890	3	4	99	1	0	0	0	0	1	0	0	0	5593	991	35	3	1604	3	FAM5B	1	177249890	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	411777	177249890	72000731	56	36687										
FAM5B	57795	broad.mit.edu	37	chr1	177250164	177250164	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgactgggaaaggactaacGtggatgcagctgcccagtgc	14	10	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:177250164G>C	uc001glf.2	+	8	2164	c.1852G>C	c.(1852-1854)GTG>CTG	p.V618L	FAM5B_uc001glg.2_Missense_Mutation_p.V513L	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	618						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						AAGGACTAACGTGGATGCAGC	0.517													5	19	---	---	---	---	PASS	C	177250164	C	C	177250164	3	2	99	1	0	0	0	0	1	0	0	0	5593	1145	40	4	1878	4	FAM5B	1	177250164	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	274	177250164	72000457	57	36688										
ACBD6	84320	broad.mit.edu	37	chr1	180366651	180366651	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctcttctttatcactcttacCtgacagttaatgtcagctct	4	12	6	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:180366651C>A	uc001gog.2	-	6	1284	c.663G>T	c.(661-663)CAG>CAT	p.Q221H		NM_032360	NP_115736	Q9BR61	ACBD6_HUMAN	acyl-coenzyme A binding domain containing 6	221						cytoplasm|nucleus	fatty-acyl-CoA binding			ovary(1)	1						TCACTCTTACCTGACAGTTAA	0.274													17	137	---	---	---	---	PASS	A	180366651	A	A	180366651	3	1	99	1	0	0	0	0	1	0	0	0	126	695	24	3	197	3	ACBD6	1	180366651	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3116487	180366651	68883970	58	36689										
CACNA1E	777	broad.mit.edu	37	chr1	181727124	181727124	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atcagcgccaaacctctcacCcgctacatgccgcagaacag	7	17	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:181727124C>A	uc001gow.2	+	31	4536	c.4371C>A	c.(4369-4371)ACC>ACA	p.T1457T	CACNA1E_uc009wxs.2_Silent_p.T1345T|CACNA1E_uc001gox.1_Silent_p.T683T|CACNA1E_uc009wxt.2_Silent_p.T683T	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1457	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						AACCTCTCACCCGCTACATGC	0.522													6	57	---	---	---	---	PASS	A	181727124	A	A	181727124	2	1	99	1	0	0	0	0	0	0	0	1	2542	610	22	3		3	CACNA1E	1	181727124	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1360473	181727124	67523497	59	36690										
HMCN1	83872	broad.mit.edu	37	chr1	186076015	186076015	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttcattatttgggttttgtaGgtggaggatacaggaagata	13	2	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:186076015G>A	uc001grq.1	+	70	11000	c.10771_splice	c.e70-1	p.V3591_splice		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor						response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GGGTTTTGTAGGTGGAGGATA	0.333													12	70	---	---	---	---	PASS	A	186076015	A	A	186076015	5	1	99	1	0	0	0	0	0	0	1	0	7220	1014	35	3	11048	3	HMCN1	1	186076015	Splice_Site	SNP	G	TCGA-43-5668-01A-01D-1632-08	4348891	186076015	63174606	60	36691										
TPR	7175	broad.mit.edu	37	chr1	186329965	186329965	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctccaatctccctattttcTcaagcatttctttttccatt	1	13	4	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:186329965T>A	uc001grv.2	-	10	1328	c.1031A>T	c.(1030-1032)GAG>GTG	p.E344V	TPR_uc010pop.1_Missense_Mutation_p.E420V	NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	344	Potential.				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)		CCCTATTTTCTCAAGCATTTC	0.348			T	NTRK1	papillary thyroid								7	35	---	---	---	---	PASS	A	186329965	A	A	186329965	3	1	99	1	0	0	0	0	1	0	0	0	16413	1551	54	5	6228	5	TPR	1	186329965	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	253950	186329965	62920656	61	36692										
B3GALT2	8707	broad.mit.edu	37	chr1	193149618	193149618	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	attgaacacaaactcattggGagggggtacaggatcaattc	11	7	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:193149618G>C	uc001gtc.3	-	2	1790	c.1075C>G	c.(1075-1077)CCC>GCC	p.P359A	CDC73_uc001gtb.2_Intron	NM_003783	NP_003774	O43825	B3GT2_HUMAN	UDP-Gal:betaGlcNAc beta	359	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1						AACTCATTGGGAGGGGGTACA	0.413													6	41	---	---	---	---	PASS	C	193149618	C	C	193149618	3	2	99	1	0	0	0	0	1	0	0	0	1248	1174	41	2	197	2	B3GALT2	1	193149618	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	6819653	193149618	56101003	62	36693										
LMOD1	25802	broad.mit.edu	37	chr1	201915297	201915297	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gttgtacacacccgtggactGtttctccgtctggtttctct	9	12	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:201915297G>A	uc001gxb.2	-	1	420	c.172C>T	c.(172-174)CAG>TAG	p.Q58*	LMOD1_uc010ppu.1_Nonsense_Mutation_p.Q58*	NM_012134	NP_036266	P29536	LMOD1_HUMAN	leiomodin 1 (smooth muscle)	58					muscle contraction	cytoskeleton|cytosol|membrane fraction	tropomyosin binding			ovary(1)|pancreas(1)|skin(1)	3						CCCGTGGACTGTTTCTCCGTC	0.572													13	48	---	---	---	---	PASS	A	201915297	A	A	201915297	4	1	99	1	0	0	0	0	0	1	0	0	8856	1386	48	3	1642	3	LMOD1	1	201915297	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	8765679	201915297	47335324	63	36694										
OPTC	26254	broad.mit.edu	37	chr1	203472827	203472827	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tacttctgcctgcctcggctCcccatcggccgcttcacgta	8	18	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:203472827C>A	uc001gzu.1	+	7	1094	c.978C>A	c.(976-978)CTC>CTA	p.L326L		NM_014359	NP_055174	Q9UBM4	OPT_HUMAN	opticin precursor	326						proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.109)			TGCCTCGGCTCCCCATCGGCC	0.617													6	21	---	---	---	---	PASS	A	203472827	A	A	203472827	2	1	99	1	0	0	0	0	0	0	0	1	10888	842	30	2		2	OPTC	1	203472827	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1557530	203472827	45777794	64	36695										
CNTN2	6900	broad.mit.edu	37	chr1	205039104	205039104	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gagagcgtccggccctacacGccctttgaggtcaagatccg	12	14	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:205039104G>T	uc001hbr.2	+	18	2615	c.2346G>T	c.(2344-2346)ACG>ACT	p.T782T	CNTN2_uc001hbq.1_Silent_p.T673T|CNTN2_uc001hbs.2_Silent_p.T570T	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	782	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)			GGCCCTACACGCCCTTTGAGG	0.662													8	42	---	---	---	---	PASS	T	205039104	T	T	205039104	2	4	99	1	0	0	0	0	0	0	0	1	3641	1074	38	1		1	CNTN2	1	205039104	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	1566277	205039104	44211517	65	36696										
CR1	1378	broad.mit.edu	37	chr1	207741317	207741317	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gacctcattggagagagcacCatccgctgcacaagtgaccc	10	14	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:207741317C>G	uc001hfy.2	+	17	2891	c.2751C>G	c.(2749-2751)ACC>ACG	p.T917T	CR1_uc009xcl.1_Silent_p.T467T|CR1_uc001hfx.2_Silent_p.T1367T|CR1_uc009xck.1_Silent_p.T467T	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	917	Extracellular (Potential).|Sushi 14.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						GAGAGAGCACCATCCGCTGCA	0.537													13	73	---	---	---	---	PASS	G	207741317	G	G	207741317	2	3	99	1	0	0	0	0	0	0	0	1	3840	581	21	4		4	CR1	1	207741317	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	2702213	207741317	41509304	66	36697										
HSD11B1	3290	broad.mit.edu	37	chr1	209880159	209880159	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttgttgcccaagcaggaaagCtcatgggtgaggctgtttct	13	8	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:209880159C>T	uc001hhj.2	+	4	432	c.325C>T	c.(325-327)CTC>TTC	p.L109F	HSD11B1_uc001hhk.2_Missense_Mutation_p.L109F	NM_181755	NP_861420	P28845	DHI1_HUMAN	11-beta-hydroxysteroid dehydrogenase 1	109	Lumenal (Potential).				glucocorticoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	11-beta-hydroxysteroid dehydrogenase (NADP+) activity|11-beta-hydroxysteroid dehydrogenase|binding			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;1.04e-55)|Epithelial(68;1.57e-52)|all cancers(67;1.83e-46)|Colorectal(1306;0.115)	NADH(DB00157)	AGCAGGAAAGCTCATGGGTGA	0.527													16	87	---	---	---	---	PASS	T	209880159	T	T	209880159	3	4	99	1	0	0	0	0	1	0	0	0	7375	797	28	3	335	3	HSD11B1	1	209880159	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2138842	209880159	39370462	67	36698										
TRAF3IP3	80342	broad.mit.edu	37	chr1	209948944	209948944	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcctctctgatctccctcagCgatccctggccctggcagag	9	17	3	2	rs113331659		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:209948944C>A	uc001hho.2	+	11	1206	c.916C>A	c.(916-918)CGA>AGA	p.R306R	TRAF3IP3_uc001hhl.2_Silent_p.R286R|TRAF3IP3_uc001hhm.1_Silent_p.R306R|TRAF3IP3_uc001hhn.2_Silent_p.R286R|TRAF3IP3_uc009xcr.2_Silent_p.R306R	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	306	Cytoplasmic (Potential).|Potential.					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		TCTCCCTCAGCGATCCCTGGC	0.617													8	39	---	---	---	---	PASS	A	209948944	A	A	209948944	2	1	99	1	0	0	0	0	0	0	0	1	16439	782	27	1		1	TRAF3IP3	1	209948944	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	68785	209948944	39301677	68	36699										
ATF3	467	broad.mit.edu	37	chr1	212788546	212788546	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgccaccggatgtcctctgcGctggaatcagtcactgtcag	11	13	4	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:212788546G>A	uc001hjf.2	+	2	316	c.183G>A	c.(181-183)GCG>GCA	p.A61A	ATF3_uc001hjj.2_Silent_p.A61A|ATF3_uc009xdg.1_Intron|ATF3_uc001hjh.2_Silent_p.A61A|ATF3_uc001hji.2_Silent_p.A61A|ATF3_uc010ptg.1_RNA	NM_001030287	NP_001025458	P18847	ATF3_HUMAN	activating transcription factor 3 isoform 1	61						nucleolus	identical protein binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.00628)|all cancers(67;0.0097)|GBM - Glioblastoma multiforme(131;0.0388)|Epithelial(68;0.0933)		TGTCCTCTGCGCTGGAATCAG	0.478													6	26	---	---	---	---	PASS	A	212788546	A	A	212788546	2	1	99	1	0	0	0	0	0	0	0	1	1081	1074	38	1		1	ATF3	1	212788546	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	2839602	212788546	36462075	69	36700										
PROX1	5629	broad.mit.edu	37	chr1	214170585	214170585	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agaacagaagcgagaggagcGccgacagctgaaacagcagc	14	10	0	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:214170585G>T	uc001hkh.2	+	2	979	c.707G>T	c.(706-708)CGC>CTC	p.R236L	PROX1_uc001hkg.1_Missense_Mutation_p.R236L	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	236					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		CGAGAGGAGCGCCGACAGCTG	0.498													4	27	---	---	---	---	PASS	T	214170585	T	T	214170585	3	4	99	1	0	0	0	0	1	0	0	0	12560	1087	38	1	709	1	PROX1	1	214170585	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1382039	214170585	35080036	70	36701										
USH2A	7399	broad.mit.edu	37	chr1	215844535	215844535	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	catttgtacctccagatgtgGagggggttgcatcaaaggtg	14	7	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:215844535G>T	uc001hku.1	-	64	14299	c.13912C>A	c.(13912-13914)CCA>ACA	p.P4638T		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4638	Fibronectin type-III 32.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TCCAGATGTGGAGGGGGTTGC	0.483										HNSCC(13;0.011)			11	59	---	---	---	---	PASS	T	215844535	T	T	215844535	3	4	99	1	0	0	0	0	1	0	0	0	17033	1174	41	2	1732	2	USH2A	1	215844535	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1673950	215844535	33406086	71	36702										
USH2A	7399	broad.mit.edu	37	chr1	216462640	216462640	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acctgatcacaaagaatgctAccatttctagtgccaactgt	6	11	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:216462640A>T	uc001hku.1	-	11	2340	c.1953T>A	c.(1951-1953)GGT>GGA	p.G651G	USH2A_uc001hkv.2_Silent_p.G651G	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	651	Extracellular (Potential).|Laminin EGF-like 3.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AAAGAATGCTACCATTTCTAG	0.403										HNSCC(13;0.011)			12	52	---	---	---	---	PASS	T	216462640	T	T	216462640	2	4	99	1	0	0	0	0	0	0	0	1	17033	378	14	5		5	USH2A	1	216462640	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	618105	216462640	32787981	72	36703										
ESRRG	2104	broad.mit.edu	37	chr1	216741400	216741400	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tccgcatctatcctgcgcttGtacttctgccgacctccacg	7	17	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:216741400G>T	uc001hkw.1	-	4	796	c.630C>A	c.(628-630)TAC>TAA	p.Y210*	ESRRG_uc001hky.1_Nonsense_Mutation_p.Y187*|ESRRG_uc009xdp.1_Nonsense_Mutation_p.Y187*|ESRRG_uc001hkz.1_Nonsense_Mutation_p.Y148*|ESRRG_uc010puc.1_Nonsense_Mutation_p.Y187*|ESRRG_uc001hla.1_Nonsense_Mutation_p.Y187*|ESRRG_uc001hlb.1_Nonsense_Mutation_p.Y187*|ESRRG_uc010pud.1_Nonsense_Mutation_p.Y18*|ESRRG_uc001hlc.1_Nonsense_Mutation_p.Y187*|ESRRG_uc001hld.1_Nonsense_Mutation_p.Y187*|ESRRG_uc001hkx.1_Nonsense_Mutation_p.Y215*|ESRRG_uc009xdo.1_Nonsense_Mutation_p.Y187*|ESRRG_uc001hle.1_Nonsense_Mutation_p.Y187*	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	210					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	TCCTGCGCTTGTACTTCTGCC	0.512													7	51	---	---	---	---	PASS	T	216741400	T	T	216741400	4	4	99	1	0	0	0	0	0	1	0	0	5262	1372	48	3	762	3	ESRRG	1	216741400	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	278760	216741400	32509221	73	36704										
SPATA17	128153	broad.mit.edu	37	chr1	217842374	217842374	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctttttttcttgattcacaGgtagcatattatactatgat	5	6	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:217842374G>C	uc001hlh.1	+	4	267	c.241_splice	c.e4-1	p.V81_splice	SPATA17_uc009xdr.1_Splice_Site|SPATA17_uc001hli.2_Splice_Site_p.V81_splice	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17							cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		TTGATTCACAGGTAGCATATT	0.313													15	79	---	---	---	---	PASS	C	217842374	C	C	217842374	5	2	99	1	0	0	0	0	0	0	1	0	15001	1014	35	4	254	4	SPATA17	1	217842374	Splice_Site	SNP	G	TCGA-43-5668-01A-01D-1632-08	1100974	217842374	31408247	74	36705										
DUSP10	11221	broad.mit.edu	37	chr1	221912285	221912285	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aggggcattacctttcaacaCcagaggttctttgccttctc	8	12	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:221912285C>A	uc001hmy.1	-	2	984	c.802G>T	c.(802-804)GTG>TTG	p.V268L	DUSP10_uc001hmx.1_5'Flank|DUSP10_uc001hmz.1_Intron	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	268	Rhodanese.				inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		CCTTTCAACACCAGAGGTTCT	0.507													7	67	---	---	---	---	PASS	A	221912285	A	A	221912285	3	1	99	1	0	0	0	0	1	0	0	0	4810	507	18	3	658	3	DUSP10	1	221912285	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	4069911	221912285	27338336	75	36706										
HHIPL2	79802	broad.mit.edu	37	chr1	222700356	222700356	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tagatccacgtggtgcatagGcacttgggtaagaggtcgcc	14	9	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:222700356G>T	uc001hnh.1	-	7	1818	c.1760C>A	c.(1759-1761)GCC>GAC	p.A587D		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	587					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		TGGTGCATAGGCACTTGGGTA	0.433													4	14	---	---	---	---	PASS	T	222700356	T	T	222700356	3	4	99	1	0	0	0	0	1	0	0	0	7094	1203	42	3	426	3	HHIPL2	1	222700356	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	788071	222700356	26550265	76	36707										
HHIPL2	79802	broad.mit.edu	37	chr1	222715457	222715457	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gccaaaaagaagttgtccgcCattatggtttgaggctggtt	12	7	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:222715457C>A	uc001hnh.1	-	3	1073	c.1015G>T	c.(1015-1017)GGC>TGC	p.G339C		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	339					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		AGTTGTCCGCCATTATGGTTT	0.473													5	33	---	---	---	---	PASS	A	222715457	A	A	222715457	3	1	99	1	0	0	0	0	1	0	0	0	7094	594	21	3	1187	3	HHIPL2	1	222715457	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	15101	222715457	26535164	77	36708										
DISP1	84976	broad.mit.edu	37	chr1	223178402	223178402	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atctgctctgaatttttcaaCagccaagcaaagaatttagg	7	8	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:223178402C>T	uc001hnu.1	+	8	3810	c.3663C>T	c.(3661-3663)AAC>AAT	p.N1221N		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1221					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		AATTTTTCAACAGCCAAGCAA	0.478													8	52	---	---	---	---	PASS	T	223178402	T	T	223178402	2	4	99	1	0	0	0	0	0	0	0	1	4539	477	17	3		3	DISP1	1	223178402	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	462945	223178402	26072219	78	36709										
TP53BP2	7159	broad.mit.edu	37	chr1	223989849	223989849	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaagcagccccagatctcatGttgggcagtgtctgtatttt	11	9	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:223989849G>A	uc010pvb.1	-	9	1486	c.1194C>T	c.(1192-1194)AAC>AAT	p.N398N	TP53BP2_uc001hod.2_Silent_p.N269N|TP53BP2_uc010puz.1_5'Flank|TP53BP2_uc010pva.1_Silent_p.N37N	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	392					apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		CAGATCTCATGTTGGGCAGTG	0.493													12	66	---	---	---	---	PASS	A	223989849	A	A	223989849	2	1	99	1	0	0	0	0	0	0	0	1	16381	1368	48	3		3	TP53BP2	1	223989849	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	811447	223989849	25260772	79	36710										
OBSCN	84033	broad.mit.edu	37	chr1	228469829	228469829	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atacatcctggtggtccgggAggctgcaccaagtgatgccg	14	11	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:228469829A>T	uc009xez.1	+	31	8437	c.8393A>T	c.(8392-8394)GAG>GTG	p.E2798V	OBSCN_uc001hsn.2_Missense_Mutation_p.E2798V|OBSCN_uc001hsp.1_Missense_Mutation_p.E497V|OBSCN_uc001hsq.1_Missense_Mutation_p.E54V	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2798	Ig-like 27.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GTGGTCCGGGAGGCTGCACCA	0.652													4	9	---	---	---	---	PASS	T	228469829	T	T	228469829	3	4	99	1	0	0	0	0	1	0	0	0	10812	304	11	5	8511	5	OBSCN	1	228469829	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	4479980	228469829	20780792	80	36711										
C1orf198	84886	broad.mit.edu	37	chr1	230979363	230979363	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcagggaggcaagaccttttCccccttctccatggacttga	10	13	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:230979363C>A	uc001hub.2	-	3	708	c.664G>T	c.(664-666)GAA>TAA	p.E222*	C1orf198_uc009xfh.1_Nonsense_Mutation_p.E92*|C1orf198_uc001huc.1_Nonsense_Mutation_p.E5*|C1orf198_uc001hud.1_Nonsense_Mutation_p.E184*	NM_032800	NP_116189	Q9H425	CA198_HUMAN	hypothetical protein LOC84886 isoform 1	222											0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				AAGACCTTTTCCCCCTTCTCC	0.627													9	62	---	---	---	---	PASS	A	230979363	A	A	230979363	4	1	99	1	0	0	0	0	0	1	0	0	2026	864	30	2	327	2	C1orf198	1	230979363	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2509534	230979363	18271258	81	36712										
SIPA1L2	57568	broad.mit.edu	37	chr1	232575113	232575113	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtcggtggaggcccctttgaTgtaggtcagccccagtaatt	13	10	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:232575113T>A	uc001hvg.2	-	13	3930	c.3772A>T	c.(3772-3774)ATC>TTC	p.I1258F	SIPA1L2_uc001hvf.2_Missense_Mutation_p.I332F	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1258					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GCCCCTTTGATGTAGGTCAGC	0.622													5	32	---	---	---	---	PASS	A	232575113	A	A	232575113	3	1	99	1	0	0	0	0	1	0	0	0	14330	1464	51	5	1432	5	SIPA1L2	1	232575113	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	1595750	232575113	16675508	82	36713										
SIPA1L2	57568	broad.mit.edu	37	chr1	232579347	232579347	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	taagataaaaatgaacagtaCccgtcgtagcccacttgtgg	9	9	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:232579347C>A	uc001hvg.2	-	10	3595	c.3437_splice	c.e10+1	p.G1146_splice	SIPA1L2_uc001hvf.2_Splice_Site_p.G220_splice	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like						regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				ATGAACAGTACCCGTCGTAGC	0.527													4	18	---	---	---	---	PASS	A	232579347	A	A	232579347	5	1	99	1	0	0	0	0	0	0	1	0	14330	521	18	3	1778	3	SIPA1L2	1	232579347	Splice_Site	SNP	C	TCGA-43-5668-01A-01D-1632-08	4234	232579347	16671274	83	36714										
EDARADD	128178	broad.mit.edu	37	chr1	236645625	236645625	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgttcctcctgcttgctccgGgcccccaccataagtgactt	8	16	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:236645625G>T	uc001hxu.1	+	6	389	c.324G>T	c.(322-324)CGG>CGT	p.R108R	EDARADD_uc001hxv.1_Silent_p.R98R	NM_145861	NP_665860	Q8WWZ3	EDAD_HUMAN	EDAR-associated death domain isoform A	108					cell differentiation|signal transduction	cytoplasm					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.0232)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			GCTTGCTCCGGGCCCCCACCA	0.488													9	29	---	---	---	---	PASS	T	236645625	T	T	236645625	2	4	99	1	0	0	0	0	0	0	0	1	4906	1219	43	3		3	EDARADD	1	236645625	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	4066278	236645625	12604996	84	36715										
RYR2	6262	broad.mit.edu	37	chr1	237941988	237941988	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tccttgcactgggaatcaacAgagtttggcacacagcaggc	11	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:237941988A>G	uc001hyl.1	+	88	11918	c.11798A>G	c.(11797-11799)CAG>CGG	p.Q3933R	RYR2_uc010pya.1_Missense_Mutation_p.Q348R	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3933					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)			GGGAATCAACAGAGTTTGGCA	0.448													5	21	---	---	---	---	PASS	G	237941988	G	G	237941988	3	3	99	1	0	0	0	0	1	0	0	0	13769	188	7	5	12148	5	RYR2	1	237941988	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1296363	237941988	11308633	85	36716										
RYR2	6262	broad.mit.edu	37	chr1	237947713	237947713	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agagcaggggccgaggatggCtttcttctccattctgacgg	14	10	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:237947713C>G	uc001hyl.1	+	90	12821	c.12701C>G	c.(12700-12702)GCT>GGT	p.A4234G	RYR2_uc010pya.1_Missense_Mutation_p.A649G	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4234	Helical; Name=M3; (Potential).				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)			CCGAGGATGGCTTTCTTCTCC	0.552													4	11	---	---	---	---	PASS	G	237947713	G	G	237947713	3	3	99	1	0	0	0	0	1	0	0	0	13769	797	28	4	13059	4	RYR2	1	237947713	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	5725	237947713	11302908	86	36717										
RGS7	6000	broad.mit.edu	37	chr1	240978064	240978064	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gatgtctatctaactgtattTgccaatattttatctgaaaa	5	6	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:240978064T>G	uc001hyv.2	-	12	1127	c.797A>C	c.(796-798)CAA>CCA	p.Q266P	RGS7_uc010pyh.1_Missense_Mutation_p.Q240P|RGS7_uc010pyj.1_Missense_Mutation_p.Q182P|RGS7_uc001hyu.2_Missense_Mutation_p.Q266P|RGS7_uc009xgn.1_Missense_Mutation_p.Q213P|RGS7_uc001hyw.2_Missense_Mutation_p.Q266P|RGS7_uc001hyt.2_Missense_Mutation_p.Q98P	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	266	G protein gamma.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			TAACTGTATTTGCCAATATTT	0.318													11	71	---	---	---	---	PASS	G	240978064	G	G	240978064	3	3	99	1	0	0	0	0	1	0	0	0	13310	1812	63	5	694	5	RGS7	1	240978064	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	3030351	240978064	8272557	87	36718										
KMO	8564	broad.mit.edu	37	chr1	241753539	241753539	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaataagataccatgaggctGtgcagcgttggcattggcaa	13	7	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:241753539G>A	uc009xgp.2	+	14	1299	c.1234G>A	c.(1234-1236)GTG>ATG	p.V412M	KMO_uc001hyy.2_Missense_Mutation_p.V399M|KMO_uc009xgo.1_Missense_Mutation_p.V412M	NM_003679	NP_003670	O15229	KMO_HUMAN	kynurenine 3-monooxygenase	412					pyridine nucleotide biosynthetic process|response to salt stress	cytosol|integral to membrane|mitochondrial outer membrane	electron carrier activity|flavin adenine dinucleotide binding|kynurenine 3-monooxygenase activity|NAD(P)H oxidase activity			ovary(2)	2	Ovarian(103;0.103)|all_lung(81;0.23)		OV - Ovarian serous cystadenocarcinoma(106;0.0176)			CCATGAGGCTGTGCAGCGTTG	0.318													12	69	---	---	---	---	PASS	A	241753539	A	A	241753539	3	1	99	1	0	0	0	0	1	0	0	0	8424	1377	48	3	1288	3	KMO	1	241753539	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	775475	241753539	7497082	88	36719										
TRIM58	25893	broad.mit.edu	37	chr1	248031145	248031145	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgtgtttttctttccttttcAgggtgtgagaggagtcctga	12	6	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:248031145A>T	uc001ido.2	+	4	796	c.748_splice	c.e4-2	p.G250_splice	OR2W3_uc001idp.1_5'Flank	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58							intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TTTCCTTTTCAGGGTGTGAGA	0.463													7	29	---	---	---	---	PASS	T	248031145	T	T	248031145	5	4	99	1	0	0	0	0	0	0	1	0	16528	202	7	5	760	5	TRIM58	1	248031145	Splice_Site	SNP	A	TCGA-43-5668-01A-01D-1632-08	6277606	248031145	1219476	89	36720										
OR2T33	391195	broad.mit.edu	37	chr1	248436853	248436853	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cagccagcgcgggagatggcCttacttccggtcaagtagtc	13	12	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:248436853C>A	uc010pzi.1	-	1	264	c.264G>T	c.(262-264)AAG>AAT	p.K88N		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GGGAGATGGCCTTACTTCCGG	0.567													16	83	---	---	---	---	PASS	A	248436853	A	A	248436853	3	1	99	1	0	0	0	0	1	0	0	0	11024	680	24	3	701	3	OR2T33	1	248436853	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	405708	248436853	813768	90	36721										
OR2G6	391211	broad.mit.edu	37	chr1	248685066	248685066	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cttctacgtcttgagccttcTggggaacactgccctcatac	8	14	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:248685066T>C	uc001ien.1	+	1	119	c.119T>C	c.(118-120)CTG>CCG	p.L40P		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTGAGCCTTCTGGGGAACACT	0.463													9	52	---	---	---	---	PASS	C	248685066	C	C	248685066	3	2	99	1	0	0	0	0	1	0	0	0	11000	1580	55	5	121	5	OR2G6	1	248685066	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	248213	248685066	565555	91	36722										
PGBD2	267002	broad.mit.edu	37	chr1	249211704	249211704	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	accagcagaggctacttggtGtggtttgagccctcacaggg	14	10	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr1:249211704G>T	uc001ifh.2	+	3	1068	c.921G>T	c.(919-921)GTG>GTT	p.V307V	PGBD2_uc001ifg.2_Silent_p.V56V|PGBD2_uc009xhd.2_Silent_p.V304V	NM_170725	NP_733843	Q6P3X8	PGBD2_HUMAN	hypothetical protein LOC267002 isoform a	307										ovary(1)	1	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.012)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			GCTACTTGGTGTGGTTTGAGC	0.542													7	57	---	---	---	---	PASS	T	249211704	T	T	249211704	2	4	99	1	0	0	0	0	0	0	0	1	11781	1364	48	3		3	PGBD2	1	249211704	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	526638	249211704	38917	92	36723										
TPO	7173	broad.mit.edu	37	chr2	1544421	1544421	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cggagacaggcggaggaactCccgagctgagatgcggaaag	17	9	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:1544421C>T	uc002qww.2	+	16	2765	c.2674C>T	c.(2674-2676)CCC>TCC	p.P892S	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Missense_Mutation_p.P835S|TPO_uc002qwr.2_Missense_Mutation_p.P892S|TPO_uc002qwx.2_Missense_Mutation_p.P835S|TPO_uc010yio.1_Missense_Mutation_p.P719S|TPO_uc010yip.1_Missense_Mutation_p.P848S|TPO_uc002qwy.1_Missense_Mutation_p.P188S|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	892	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CGGAGGAACTCCCGAGCTGAG	0.642													18	45	---	---	---	---	PASS	T	1544421	T	T	1544421	3	4	99	1	0	0	0	0	1	0	0	0	16407	855	30	2	2732	2	TPO	2	1544421	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08		1544421	241654952	93	36724										
PXDN	7837	broad.mit.edu	37	chr2	1680758	1680758	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcggctctgcaggtgaagtaCacggtgttccccgaggtcac	13	12	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:1680758C>A	uc002qxa.2	-	8	853	c.789G>T	c.(787-789)GTG>GTT	p.V263V	PXDN_uc002qxb.1_Silent_p.V263V|PXDN_uc002qxc.1_Silent_p.V80V	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	263	Ig-like C2-type 1.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		AGGTGAAGTACACGGTGTTCC	0.552													3	7	---	---	---	---	PASS	A	1680758	A	A	1680758	2	1	99	1	0	0	0	0	0	0	0	1	12847	465	17	3		3	PXDN	2	1680758	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	136337	1680758	241518615	94	36725										
HS1BP3	64342	broad.mit.edu	37	chr2	20838383	20838383	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gacagaggaatctctgctggTgagccctgcagcccctgggg	15	12	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:20838383T>A	uc002rdw.1	-	4	477	c.436A>T	c.(436-438)ACC>TCC	p.T146S	HS1BP3_uc002rdx.2_Missense_Mutation_p.T146S	NM_022460	NP_071905	Q53T59	H1BP3_HUMAN	HCLS1 binding protein 3	146					cell communication		phosphatidylinositol binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCTCTGCTGGTGAGCCCTGCA	0.542													7	25	---	---	---	---	PASS	A	20838383	A	A	20838383	3	1	99	1	0	0	0	0	1	0	0	0	7361	1696	59	5	758	5	HS1BP3	2	20838383	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	19157625	20838383	222360990	95	36726										
LTBP1	4052	broad.mit.edu	37	chr2	33567903	33567903	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atgttccatgtcttttttgcAgatattgatgaatgtgtaaa	8	4	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:33567903A>C	uc002ros.2	+	25	3734	c.3734_splice	c.e25-2	p.D1245_splice	LTBP1_uc002rot.2_Splice_Site_p.D919_splice|LTBP1_uc002rou.2_Splice_Site_p.D918_splice|LTBP1_uc002rov.2_Splice_Site_p.D865_splice|LTBP1_uc010ymz.1_Intron|LTBP1_uc010yna.1_Intron|LTBP1_uc010ynb.1_Intron	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding						negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				TCTTTTTTGCAGATATTGATG	0.418													24	88	---	---	---	---	PASS	C	33567903	C	C	33567903	5	2	99	1	0	0	0	0	0	0	1	0	9073	202	7	5	3882	5	LTBP1	2	33567903	Splice_Site	SNP	A	TCGA-43-5668-01A-01D-1632-08	12729520	33567903	209631470	96	36727										
THADA	63892	broad.mit.edu	37	chr2	43625176	43625176	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtgcagctggggagtgtggaCaacagagttcgaatggtatt	16	5	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:43625176C>G	uc002rsw.3	-	29	4513	c.4161G>C	c.(4159-4161)TTG>TTC	p.L1387F	THADA_uc010far.2_Missense_Mutation_p.L582F|THADA_uc002rsx.3_Missense_Mutation_p.L1387F|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Missense_Mutation_p.L1096F|THADA_uc010fat.1_Missense_Mutation_p.L534F	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1387							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				GGAGTGTGGACAACAGAGTTC	0.478													11	48	---	---	---	---	PASS	G	43625176	G	G	43625176	3	3	99	1	0	0	0	0	1	0	0	0	15837	477	17	4	1740	4	THADA	2	43625176	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	10057273	43625176	199574197	97	36728										
PRKCE	5581	broad.mit.edu	37	chr2	46386887	46386887	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caagccacccttcaaaccacGcattgtaagttggtccccgt	7	15	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:46386887G>T	uc002rut.2	+	14	2260	c.2063G>T	c.(2062-2064)CGC>CTC	p.R688L		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	688	AGC-kinase C-terminal.				activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			TTCAAACCACGCATTGTAAGT	0.572													19	48	---	---	---	---	PASS	T	46386887	T	T	46386887	3	4	99	1	0	0	0	0	1	0	0	0	12511	1087	38	1	2117	1	PRKCE	2	46386887	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2761711	46386887	196812486	98	36729										
FSHR	2492	broad.mit.edu	37	chr2	49189950	49189950	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgggagctgaagagcagtgGccattccttggatgggtgtt	16	7	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:49189950G>A	uc002rww.2	-	10	2084	c.2010C>T	c.(2008-2010)GGC>GGT	p.G670G	FSHR_uc002rwx.2_Silent_p.G608G|FSHR_uc010fbn.2_Silent_p.G644G	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	670	Cytoplasmic (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	AAGAGCAGTGGCCATTCCTTG	0.438									Gonadal_Dysgenesis_46_XX				13	49	---	---	---	---	PASS	A	49189950	A	A	49189950	2	1	99	1	0	0	0	0	0	0	0	1	6073	1190	42	3		3	FSHR	2	49189950	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	2803063	49189950	194009423	99	36730										
C2orf63	130162	broad.mit.edu	37	chr2	55436852	55436852	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcatctaaatcagccttcctCtgagctggcacatattttat	5	11	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:55436852C>G	uc002ryi.2	-	6	961	c.615G>C	c.(613-615)CAG>CAC	p.Q205H	C2orf63_uc002ryh.2_Intron|C2orf63_uc002ryj.2_Missense_Mutation_p.Q83H	NM_152385	NP_689598	Q8NHS4	CB063_HUMAN	hypothetical protein LOC130162 isoform 1	205	Potential.						binding			ovary(2)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(58;0.179)|Lung(47;0.189)			CAGCCTTCCTCTGAGCTGGCA	0.328													11	44	---	---	---	---	PASS	G	55436852	G	G	55436852	3	3	99	1	0	0	0	0	1	0	0	0	2182	912	32	2	1177	2	C2orf63	2	55436852	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	6246902	55436852	187762521	100	36731										
FIGLA	344018	broad.mit.edu	37	chr2	71012642	71012642	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gccaccatctgcccaaggccCttcctcttcattcttcaagc	5	18	5	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:71012642C>G	uc002she.1	-	3	519	c.514G>C	c.(514-516)GGG>CGG	p.G172R		NM_001004311	NP_001004311	Q6QHK4	FIGLA_HUMAN	factor in the germline alpha	172					multicellular organismal development|oocyte development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcription factor complex	DNA binding|transcription factor binding				0						GCCCAAGGCCCTTCCTCTTCA	0.488													15	210	---	---	---	---	PASS	G	71012642	G	G	71012642	3	3	99	1	0	0	0	0	1	0	0	0	5890	681	24	4	157	4	FIGLA	2	71012642	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	15575790	71012642	172186731	101	36732										
DYSF	8291	broad.mit.edu	37	chr2	71797850	71797850	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgcgcaggagggatctcagCcaaatggaagcactgaaaag	13	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:71797850C>A	uc002sie.2	+	29	3529	c.3153C>A	c.(3151-3153)AGC>AGA	p.S1051R	DYSF_uc010feg.2_Missense_Mutation_p.S1082R|DYSF_uc010feh.2_Missense_Mutation_p.S1037R|DYSF_uc002sig.3_Missense_Mutation_p.S1037R|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.S1051R|DYSF_uc010fef.2_Missense_Mutation_p.S1068R|DYSF_uc010fei.2_Missense_Mutation_p.S1068R|DYSF_uc010fek.2_Missense_Mutation_p.S1069R|DYSF_uc010fej.2_Missense_Mutation_p.S1038R|DYSF_uc010fel.2_Missense_Mutation_p.S1038R|DYSF_uc010feo.2_Missense_Mutation_p.S1083R|DYSF_uc010fem.2_Missense_Mutation_p.S1052R|DYSF_uc010fen.2_Missense_Mutation_p.S1069R|DYSF_uc002sif.2_Missense_Mutation_p.S1052R	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1051	Cytoplasmic (Potential).|Arg-rich.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GGGATCTCAGCCAAATGGAAG	0.637													7	21	---	---	---	---	PASS	A	71797850	A	A	71797850	3	1	99	1	0	0	0	0	1	0	0	0	4859	738	26	3	3459	3	DYSF	2	71797850	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	785208	71797850	171401523	102	36733										
ALMS1	7840	broad.mit.edu	37	chr2	73676776	73676776	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	accagctgaccagaagactgAgataccagcagtacagtcta	9	11	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:73676776A>T	uc002sje.1	+	10	3236	c.3125A>T	c.(3124-3126)GAG>GTG	p.E1042V	ALMS1_uc002sjf.1_Missense_Mutation_p.E998V|ALMS1_uc002sjg.2_Missense_Mutation_p.E428V|ALMS1_uc002sjh.1_Missense_Mutation_p.E428V	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1040	34 X 47 AA approximate tandem repeat.|11.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CAGAAGACTGAGATACCAGCA	0.468													44	80	---	---	---	---	PASS	T	73676776	T	T	73676776	3	4	99	1	0	0	0	0	1	0	0	0	535	304	11	5	3149	5	ALMS1	2	73676776	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1878926	73676776	169522597	103	36734										
ALMS1	7840	broad.mit.edu	37	chr2	73800227	73800227	+	Missense_Mutation	SNP	G	T	T													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcggattgtcggccctcagaGgagagtgagctgctcacaga					rs28730859		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:73800227G>T	uc002sje.1	+	18	11337	c.11226G>T	c.(11224-11226)GAG>GAT	p.E3742D	ALMS1_uc002sjf.1_Missense_Mutation_p.E3698D|ALMS1_uc002sjg.2_Missense_Mutation_p.E3128D|ALMS1_uc002sjh.1_Missense_Mutation_p.E3128D	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3740					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GGCCCTCAGAGGAGAGTGAGC	0.393													13	41	---	---	---	---	PASS	T	73800227	T	T	73800227	3	4	99	1	0	0	0	0	1	0	0	0	535	991	35	3	11282	3	ALMS1	2	73800227	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	123451	73800227	169399146	104	36735	682	2								
ALMS1	7840	broad.mit.edu	37	chr2	73800228	73800228	+	Nonsense_Mutation	SNP	G	T	T													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cggattgtcggccctcagagGagagtgagctgctcacagat							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:73800228G>T	uc002sje.1	+	18	11338	c.11227G>T	c.(11227-11229)GAG>TAG	p.E3743*	ALMS1_uc002sjf.1_Nonsense_Mutation_p.E3699*|ALMS1_uc002sjg.2_Nonsense_Mutation_p.E3129*|ALMS1_uc002sjh.1_Nonsense_Mutation_p.E3129*	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3741					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GCCCTCAGAGGAGAGTGAGCT	0.393													13	40	---	---	---	---	PASS	T	73800228	T	T	73800228	4	4	99	1	0	0	0	0	0	1	0	0	535	1175	41	2	11283	2	ALMS1	2	73800228	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1	73800228	169399145	105	36736	682	2								
SNRNP200	23020	broad.mit.edu	37	chr2	96968949	96968949	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtagcacctcataggtctccCgagtctctttagttttgggc	10	11	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:96968949C>A	uc002svu.2	-	3	415	c.329G>T	c.(328-330)CGG>CTG	p.R110L		NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	110						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						ATAGGTCTCCCGAGTCTCTTT	0.408													101	222	---	---	---	---	PASS	A	96968949	A	A	96968949	3	1	99	1	0	0	0	0	1	0	0	0	14852	652	23	1	6253	1	SNRNP200	2	96968949	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	23168721	96968949	146230424	106	36737										
TMEM131	23505	broad.mit.edu	37	chr2	98411438	98411438	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acagagccagttcccagttaGgtctgggtagggcttctgca	13	10	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:98411438G>A	uc002syh.3	-	29	3570	c.3341C>T	c.(3340-3342)CCT>CTT	p.P1114L		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1114						integral to membrane				ovary(4)|central_nervous_system(2)	6						TTCCCAGTTAGGTCTGGGTAG	0.348													3	15	---	---	---	---	PASS	A	98411438	A	A	98411438	3	1	99	1	0	0	0	0	1	0	0	0	16041	1000	35	3	2362	3	TMEM131	2	98411438	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1442489	98411438	144787935	107	36738										
RALB	5899	broad.mit.edu	37	chr2	121050722	121050722	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	actcctcacccccaggtgttCtttgacctaatgagagaaat	7	12	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:121050722C>A	uc002tmk.2	+	5	697	c.507C>A	c.(505-507)TTC>TTA	p.F169L	RALB_uc010yys.1_Missense_Mutation_p.F191L|RALB_uc002tml.2_Missense_Mutation_p.F190L|RALB_uc002tmm.2_RNA|RALB_uc010yyt.1_RNA	NM_002881	NP_002872	P11234	RALB_HUMAN	v-ral simian leukemia viral oncogene homolog B	169					apoptosis|cell cycle|cytokinesis|nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of exocyst assembly|regulation of exocyst localization	cytosol|midbody|plasma membrane	GTP binding|GTPase activity|protein binding			lung(3)	3		Prostate(154;0.122)				CCCAGGTGTTCTTTGACCTAA	0.343													9	30	---	---	---	---	PASS	A	121050722	A	A	121050722	3	1	99	1	0	0	0	0	1	0	0	0	13011	912	32	2	521	2	RALB	2	121050722	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	22639284	121050722	122148651	108	36739										
SMPD4	55627	broad.mit.edu	37	chr2	130914946	130914946	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aggcgcaccaccaacacatgCtcctcagtaggcgtgaacga	10	14	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:130914946C>A	uc002tqq.1	-	12	1612	c.1092G>T	c.(1090-1092)GAG>GAT	p.E364D	SMPD4_uc002tqo.1_5'UTR|SMPD4_uc002tqp.1_Missense_Mutation_p.E57D|SMPD4_uc010yzy.1_Missense_Mutation_p.E113D|SMPD4_uc010yzz.1_Missense_Mutation_p.E28D|SMPD4_uc002tqr.1_Missense_Mutation_p.E335D|SMPD4_uc002tqs.1_Missense_Mutation_p.E232D|SMPD4_uc002tqt.1_Missense_Mutation_p.E213D|SMPD4_uc010zaa.1_Missense_Mutation_p.E222D|SMPD4_uc010zab.1_Missense_Mutation_p.E262D|SMPD4_uc010zac.1_Missense_Mutation_p.E105D|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	325					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	CCAACACATGCTCCTCAGTAG	0.642													3	5	---	---	---	---	PASS	A	130914946	A	A	130914946	3	1	99	1	0	0	0	0	1	0	0	0	14807	796	28	3	1544	3	SMPD4	2	130914946	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	9864224	130914946	112284427	109	36740										
PTPN18	26469	broad.mit.edu	37	chr2	131128159	131128159	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgggcgaacaggcgtcctgtGcaccgtggattatgtgaggc	16	9	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:131128159G>A	uc002trc.2	+	9	820	c.719G>A	c.(718-720)TGC>TAC	p.C240Y	PTPN18_uc002trd.2_Missense_Mutation_p.C219Y|PTPN18_uc002trb.2_Missense_Mutation_p.C133Y|PTPN18_uc002tre.2_5'Flank	NM_014369	NP_055184	Q99952	PTN18_HUMAN	protein tyrosine phosphatase, non-receptor type	240	Tyrosine-protein phosphatase.					cytoplasm|nucleus	non-membrane spanning protein tyrosine phosphatase activity			ovary(3)|kidney(1)	4	Colorectal(110;0.1)					GGCGTCCTGTGCACCGTGGAT	0.572													17	57	---	---	---	---	PASS	A	131128159	A	A	131128159	3	1	99	1	0	0	0	0	1	0	0	0	12784	1319	46	3	753	3	PTPN18	2	131128159	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	213213	131128159	112071214	110	36741										
LCT	3938	broad.mit.edu	37	chr2	136552210	136552210	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctccctgttggtggacttaCctgtctgcatcaaaagaaga	10	10	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:136552210C>A	uc002tuu.1	-	14	5122	c.5111_splice	c.e14+1	p.R1704_splice		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein						carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		GGTGGACTTACCTGTCTGCAT	0.537													18	34	---	---	---	---	PASS	A	136552210	A	A	136552210	5	1	99	1	0	0	0	0	0	0	1	0	8693	521	18	3	687	3	LCT	2	136552210	Splice_Site	SNP	C	TCGA-43-5668-01A-01D-1632-08	5424051	136552210	106647163	111	36742										
HNMT	3176	broad.mit.edu	37	chr2	138759758	138759758	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagtgggactttattcatatGattcaagtaagaaatatgta	8	3	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:138759758G>T	uc002tvc.2	+	5	571	c.423G>T	c.(421-423)ATG>ATT	p.M141I	HNMT_uc002tvf.2_Missense_Mutation_p.M141I	NM_006895	NP_008826	P50135	HNMT_HUMAN	histamine N-methyltransferase isoform 1	141					respiratory gaseous exchange	cytoplasm	histamine N-methyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.125)	Amodiaquine(DB00613)|Histamine Phosphate(DB00667)|Quinacrine(DB01103)	TTATTCATATGATTCAAGTAA	0.279													4	20	---	---	---	---	PASS	T	138759758	T	T	138759758	3	4	99	1	0	0	0	0	1	0	0	0	7255	1290	45	2	655	2	HNMT	2	138759758	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2207548	138759758	104439615	112	36743										
LRP1B	53353	broad.mit.edu	37	chr2	141108547	141108547	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gatcgccactgtagttgaatGgatatataaaacccaggata	9	7	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:141108547G>T	uc002tvj.1	-	77	12683	c.11711C>A	c.(11710-11712)CCA>CAA	p.P3904Q		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3904	Extracellular (Potential).				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)		GTAGTTGAATGGATATATAAA	0.284										TSP Lung(27;0.18)			20	104	---	---	---	---	PASS	T	141108547	T	T	141108547	3	4	99	1	0	0	0	0	1	0	0	0	8955	1348	47	3	2148	3	LRP1B	2	141108547	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2348789	141108547	102090826	113	36744										
LRP1B	53353	broad.mit.edu	37	chr2	141459804	141459804	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctcgcgattccctccagtctCaaggtcgattctctctatct	6	15	4	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:141459804C>A	uc002tvj.1	-	39	7180	c.6208G>T	c.(6208-6210)GAG>TAG	p.E2070*		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2070	Extracellular (Potential).|LDL-receptor class B 22.				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)		CCTCCAGTCTCAAGGTCGATT	0.408										TSP Lung(27;0.18)			27	71	---	---	---	---	PASS	A	141459804	A	A	141459804	4	1	99	1	0	0	0	0	0	1	0	0	8955	835	29	2	7803	2	LRP1B	2	141459804	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	351257	141459804	101739569	114	36745										
LRP1B	53353	broad.mit.edu	37	chr2	142012191	142012191	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttatactgacaattcagctgTtggcaattggataacagttc	8	7	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:142012191T>C	uc002tvj.1	-	4	1335	c.363A>G	c.(361-363)CAA>CAG	p.Q121Q	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	121	Extracellular (Potential).|EGF-like 1.				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)		AATTCAGCTGTTGGCAATTGG	0.318										TSP Lung(27;0.18)			7	39	---	---	---	---	PASS	C	142012191	C	C	142012191	2	2	99	1	0	0	0	0	0	0	0	1	8955	1722	60	5		5	LRP1B	2	142012191	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	552387	142012191	101187182	115	36746										
GTDC1	79712	broad.mit.edu	37	chr2	144899453	144899453	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agtcaaacatactgacctgcTcacatcaggaaacctgatgg	8	11	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:144899453T>A	uc002tvp.2	-	6	796	c.517A>T	c.(517-519)AGC>TGC	p.S173C	GTDC1_uc002tvo.2_Missense_Mutation_p.S173C|GTDC1_uc002tvq.2_Missense_Mutation_p.S173C|GTDC1_uc002tvr.2_Missense_Mutation_p.S173C|GTDC1_uc010fnn.2_Missense_Mutation_p.S173C|GTDC1_uc002tvs.2_Missense_Mutation_p.S141C|GTDC1_uc010fno.2_Missense_Mutation_p.S44C|GTDC1_uc002tvt.1_Missense_Mutation_p.S173C	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	173					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		ACTGACCTGCTCACATCAGGA	0.368													18	58	---	---	---	---	PASS	A	144899453	A	A	144899453	3	1	99	1	0	0	0	0	1	0	0	0	6851	1551	54	5	887	5	GTDC1	2	144899453	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	2887262	144899453	98299920	116	36747										
ACVR2A	92	broad.mit.edu	37	chr2	148680584	148680584	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctccagaggtattagagggtGctataaacttccaaagggat	11	7	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:148680584G>T	uc002twg.2	+	10	1389	c.1120G>T	c.(1120-1122)GCT>TCT	p.A374S	ACVR2A_uc010zbn.1_Missense_Mutation_p.A266S|ACVR2A_uc002twh.2_Missense_Mutation_p.A374S	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	374	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		ATTAGAGGGTGCTATAAACTT	0.408													38	125	---	---	---	---	PASS	T	148680584	T	T	148680584	3	4	99	1	0	0	0	0	1	0	0	0	223	1319	46	3	1154	3	ACVR2A	2	148680584	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3781131	148680584	94518789	117	36748										
BAZ2B	29994	broad.mit.edu	37	chr2	160335088	160335088	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttaaaaaagggtattcaccaCatgggttgattgtagagcta	10	5	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:160335088C>T	uc002uao.2	-	3	495	c.143G>A	c.(142-144)TGT>TAT	p.C48Y	BAZ2B_uc002uap.2_Missense_Mutation_p.C48Y|BAZ2B_uc002uas.1_Missense_Mutation_p.C48Y|BAZ2B_uc002uau.1_Missense_Mutation_p.C48Y|BAZ2B_uc002uat.3_Missense_Mutation_p.C48Y|BAZ2B_uc010fop.1_Missense_Mutation_p.C48Y	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	48					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						GTATTCACCACATGGGTTGAT	0.358													38	110	---	---	---	---	PASS	T	160335088	T	T	160335088	3	4	99	1	0	0	0	0	1	0	0	0	1332	478	17	3	6503	3	BAZ2B	2	160335088	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	11654504	160335088	82864285	118	36749										
XIRP2	129446	broad.mit.edu	37	chr2	168101642	168101642	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtggctttttgaaaaccaacCaattgataagataaaagaaa	7	5	0	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:168101642C>A	uc002udx.2	+	8	3758	c.3740C>A	c.(3739-3741)CCA>CAA	p.P1247Q	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.P1072Q|XIRP2_uc010fpq.2_Missense_Mutation_p.P1025Q|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1072	Xin 20.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GAAAACCAACCAATTGATAAG	0.348													17	35	---	---	---	---	PASS	A	168101642	A	A	168101642	3	1	99	1	0	0	0	0	1	0	0	0	17427	594	21	3	3770	3	XIRP2	2	168101642	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	7766554	168101642	75097731	119	36750										
LRP2	4036	broad.mit.edu	37	chr2	169993938	169993938	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	actttgacagcactgtctctGgctgagtacattgggttttc	10	9	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:169993938G>A	uc002ues.2	-	76	13797	c.13584C>T	c.(13582-13584)GCC>GCT	p.A4528A		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4528	Cytoplasmic (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CACTGTCTCTGGCTGAGTACA	0.378													16	51	---	---	---	---	PASS	A	169993938	A	A	169993938	2	1	99	1	0	0	0	0	0	0	0	1	8956	1335	47	3		3	LRP2	2	169993938	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	1892296	169993938	73205435	120	36751										
LRP2	4036	broad.mit.edu	37	chr2	170127511	170127511	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaatcaatcccgacaaagaaAgaaggattccccgaaactgg	8	10	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:170127511A>G	uc002ues.2	-	16	2436	c.2223T>C	c.(2221-2223)TCT>TCC	p.S741S	LRP2_uc010zdf.1_Intron	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	741	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CGACAAAGAAAGAAGGATTCC	0.418													11	34	---	---	---	---	PASS	G	170127511	G	G	170127511	2	3	99	1	0	0	0	0	0	0	0	1	8956	59	3	5		5	LRP2	2	170127511	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	133573	170127511	73071862	121	36752										
HOXD12	3238	broad.mit.edu	37	chr2	176964863	176964863	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cggccgctgggccagaggagCgcggtcgtacccggccgtcc	17	16	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:176964863C>T	uc010zev.1	+	1	334	c.334C>T	c.(334-336)CGC>TGC	p.R112C	HOXD12_uc010zew.1_Missense_Mutation_p.R112C	NM_021193	NP_067016	P35452	HXD12_HUMAN	homeobox D12	112						nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0521)|READ - Rectum adenocarcinoma(9;0.0678)		GCCAGAGGAGCGCGGTCGTAC	0.672													6	14	---	---	---	---	PASS	T	176964863	T	T	176964863	3	4	99	1	0	0	0	0	1	0	0	0	7321	768	27	1	336	1	HOXD12	2	176964863	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	6837352	176964863	66234510	122	36753										
HOXD10	3236	broad.mit.edu	37	chr2	176981724	176981724	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgcaaacctgtggactgctcCcgtctctggccaaaagagaa	10	12	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:176981724C>A	uc002ukj.2	+	1	233	c.163C>A	c.(163-165)CCG>ACG	p.P55T		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	55						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		TGGACTGCTCCCGTCTCTGGC	0.488													11	46	---	---	---	---	PASS	A	176981724	A	A	176981724	3	1	99	1	0	0	0	0	1	0	0	0	7319	623	22	3	165	3	HOXD10	2	176981724	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	16861	176981724	66217649	123	36754										
OSBPL6	114880	broad.mit.edu	37	chr2	179226430	179226430	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcattctcttttgaagtctgCatttaatagcatagctatag	7	7	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:179226430C>T	uc002ulx.2	+	13	1553	c.1175C>T	c.(1174-1176)GCA>GTA	p.A392V	OSBPL6_uc002ulw.2_Missense_Mutation_p.A361V|OSBPL6_uc002uly.2_Missense_Mutation_p.A417V|OSBPL6_uc010zfe.1_Missense_Mutation_p.A361V|OSBPL6_uc002ulz.2_Missense_Mutation_p.A392V|OSBPL6_uc002uma.2_Missense_Mutation_p.A396V	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	392					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			TTGAAGTCTGCATTTAATAGC	0.438													21	85	---	---	---	---	PASS	T	179226430	T	T	179226430	3	4	99	1	0	0	0	0	1	0	0	0	11281	710	25	3	1339	3	OSBPL6	2	179226430	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2244706	179226430	63972943	124	36755										
TTN	7273	broad.mit.edu	37	chr2	179588005	179588005	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tccagaattatggacttcccTggttctacagaatgatcact	7	10	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:179588005T>A	uc010zfg.1	-	72	18221	c.17997A>T	c.(17995-17997)CCA>CCT	p.P5999P	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.P2660P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6926							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)			TGGACTTCCCTGGTTCTACAG	0.388													6	26	---	---	---	---	PASS	A	179588005	A	A	179588005	2	1	99	1	0	0	0	0	0	0	0	1	16732	1567	55	5		5	TTN	2	179588005	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	361575	179588005	63611368	125	36756										
TTN	7273	broad.mit.edu	37	chr2	179613192	179613192	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gggctaggaattttttctttAtaatgtatttcctgctgttc	8	6	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:179613192A>G	uc002unb.2	-	46	14159	c.13935T>C	c.(13933-13935)TAT>TAC	p.Y4645Y	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TTTTTTCTTTATAATGTATTT	0.353													12	141	---	---	---	---	PASS	G	179613192	G	G	179613192	2	3	99	1	0	0	0	0	0	0	0	1	16732	456	16	5		5	TTN	2	179613192	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	25187	179613192	63586181	126	36757										
SSFA2	6744	broad.mit.edu	37	chr2	182774642	182774642	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	taaggttcaaagtacggaggGagaagctcctcatgttccag	12	8	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:182774642G>T	uc002uoi.2	+	9	1752	c.1430G>T	c.(1429-1431)GGA>GTA	p.G477V	SSFA2_uc002uoh.2_Missense_Mutation_p.G477V|SSFA2_uc002uoj.2_Missense_Mutation_p.G477V|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Missense_Mutation_p.G324V|SSFA2_uc002uol.2_Missense_Mutation_p.G324V	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	477						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			AGTACGGAGGGAGAAGCTCCT	0.363													12	31	---	---	---	---	PASS	T	182774642	T	T	182774642	3	4	99	1	0	0	0	0	1	0	0	0	15182	1174	41	2	1464	2	SSFA2	2	182774642	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3161450	182774642	60424731	127	36758										
DUSP19	142679	broad.mit.edu	37	chr2	183960174	183960174	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgtaggatggagtggttcttGttcattgtaatgcaggcgtt	14	4	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:183960174G>C	uc002upd.2	+	4	817	c.442G>C	c.(442-444)GTT>CTT	p.V148L	DUSP19_uc010frp.2_Missense_Mutation_p.V97L|DUSP19_uc010zfr.1_RNA|DUSP19_uc002upe.2_Missense_Mutation_p.L108F	NM_080876	NP_543152	Q8WTR2	DUS19_HUMAN	dual specificity phosphatase 19 isoform 1	148	Tyrosine-protein phosphatase.				JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|positive regulation of JNK cascade|positive regulation of JUN kinase activity	cytoplasm	JUN kinase phosphatase activity|MAP-kinase scaffold activity|mitogen-activated protein kinase kinase kinase binding|protein kinase activator activity|protein kinase inhibitor activity|protein tyrosine phosphatase activity			ovary(4)|pancreas(1)	5						AGTGGTTCTTGTTCATTGTAA	0.333													28	66	---	---	---	---	PASS	C	183960174	C	C	183960174	3	2	99	1	0	0	0	0	1	0	0	0	4818	1377	48	4	456	4	DUSP19	2	183960174	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1185532	183960174	59239199	128	36759										
CASP8	841	broad.mit.edu	37	chr2	202136259	202136259	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggtcatgctctatcagatttCagaagaagtgagcagatcag	11	7	5	5			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:202136259C>G	uc002uxr.1	+	4	535	c.326C>G	c.(325-327)TCA>TGA	p.S109*	CASP8_uc010ftc.1_Nonsense_Mutation_p.S109*|CASP8_uc002uxo.1_Nonsense_Mutation_p.S109*|CASP8_uc002uxp.1_Nonsense_Mutation_p.S141*|CASP8_uc002uxq.1_Nonsense_Mutation_p.S109*|CASP8_uc002uxs.1_Nonsense_Mutation_p.S109*|CASP8_uc002uxt.1_Nonsense_Mutation_p.S168*|CASP8_uc002uxu.1_RNA|CASP8_uc010ftd.1_Nonsense_Mutation_p.S6*|CASP8_uc002uxv.1_Nonsense_Mutation_p.S109*|CASP8_uc002uxw.1_Nonsense_Mutation_p.S109*|CASP8_uc002uxy.1_Nonsense_Mutation_p.S109*|CASP8_uc002uxx.1_Nonsense_Mutation_p.S109*|CASP8_uc010ftf.2_Nonsense_Mutation_p.S109*|CASP8_uc010fte.1_Nonsense_Mutation_p.S6*	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	109	DED 2.				activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						TATCAGATTTCAGAAGAAGTG	0.398										HNSCC(4;0.00038)			14	37	---	---	---	---	PASS	G	202136259	G	G	202136259	4	3	99	1	0	0	0	0	0	1	0	0	2677	838	29	2	613	2	CASP8	2	202136259	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	18176085	202136259	41063114	129	36760										
ZDBF2	57683	broad.mit.edu	37	chr2	207170435	207170435	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggaaggaggagcaaattgacCaagaagataactatgagtct	12	5	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:207170435C>T	uc002vbp.2	+	5	1433	c.1183C>T	c.(1183-1185)CAA>TAA	p.Q395*		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	395							nucleic acid binding|zinc ion binding			ovary(3)	3						GCAAATTGACCAAGAAGATAA	0.398													7	32	---	---	---	---	PASS	T	207170435	T	T	207170435	4	4	99	1	0	0	0	0	0	1	0	0	17596	595	21	3	1193	3	ZDBF2	2	207170435	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	5034176	207170435	36028938	130	36761										
SPAG16	79582	broad.mit.edu	37	chr2	214794706	214794706	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcgacaaattggctacttcaAgtggtgacactacagttaaa	9	8	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:214794706A>G	uc002veq.2	+	12	1329	c.1237A>G	c.(1237-1239)AGT>GGT	p.S413G	SPAG16_uc010fuz.1_Missense_Mutation_p.S264G|SPAG16_uc002ver.2_Missense_Mutation_p.S359G|SPAG16_uc010zjk.1_Missense_Mutation_p.S319G	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	413	WD 2.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		GGCTACTTCAAGTGGTGACAC	0.378													33	86	---	---	---	---	PASS	G	214794706	G	G	214794706	3	3	99	1	0	0	0	0	1	0	0	0	14978	72	3	5	1299	5	SPAG16	2	214794706	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	7624271	214794706	28404667	131	36762										
SMARCAL1	50485	broad.mit.edu	37	chr2	217279579	217279579	+	Missense_Mutation	SNP	A	C	C													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caacccattccaggccaagcAaggcccatcccaaaatttcc							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:217279579A>C	uc002vgc.3	+	3	482	c.152A>C	c.(151-153)CAA>CCA	p.Q51P	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.Q51P|SMARCAL1_uc010fvg.2_Missense_Mutation_p.Q51P	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	51					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		CAGGCCAAGCAAGGCCCATCC	0.512									Schimke_Immuno-Osseous_Dysplasia				24	77	---	---	---	---	PASS	C	217279579	C	C	217279579	3	2	99	1	0	0	0	0	1	0	0	0	14773	130	5	5	154	5	SMARCAL1	2	217279579	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	2484873	217279579	25919794	132	36763	683	2								
SMARCAL1	50485	broad.mit.edu	37	chr2	217279581	217279581	+	Missense_Mutation	SNP	G	C	C													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acccattccaggccaagcaaGgcccatcccaaaatttccca							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:217279581G>C	uc002vgc.3	+	3	484	c.154G>C	c.(154-156)GGC>CGC	p.G52R	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.G52R|SMARCAL1_uc010fvg.2_Missense_Mutation_p.G52R	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	52					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		GGCCAAGCAAGGCCCATCCCA	0.512									Schimke_Immuno-Osseous_Dysplasia				22	82	---	---	---	---	PASS	C	217279581	C	C	217279581	3	2	99	1	0	0	0	0	1	0	0	0	14773	1000	35	4	156	4	SMARCAL1	2	217279581	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2	217279581	25919792	133	36764	683	2								
CCDC108	255101	broad.mit.edu	37	chr2	219890788	219890788	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggggatgtggtgctcaaagcCagcgaaatagctgtggcctc	15	9	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:219890788C>T	uc002vjl.1	-	14	2389	c.2305G>A	c.(2305-2307)GGC>AGC	p.G769S		NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	769						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGCTCAAAGCCAGCGAAATAG	0.592													4	51	---	---	---	---	PASS	T	219890788	T	T	219890788	3	4	99	1	0	0	0	0	1	0	0	0	2743	594	21	3	3560	3	CCDC108	2	219890788	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2611207	219890788	23308585	134	36765										
DOCK10	55619	broad.mit.edu	37	chr2	225669970	225669970	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaaaacacatcaggagactcCtggtttctgcttgatctaac	8	10	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:225669970C>A	uc010fwz.1	-	36	4243	c.4004G>T	c.(4003-4005)AGG>ATG	p.R1335M	DOCK10_uc002vob.2_Missense_Mutation_p.R1329M|DOCK10_uc002voa.2_Translation_Start_Site|DOCK10_uc002voc.2_Missense_Mutation_p.R189M	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1335							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		CAGGAGACTCCTGGTTTCTGC	0.363													31	107	---	---	---	---	PASS	A	225669970	A	A	225669970	3	1	99	1	0	0	0	0	1	0	0	0	4685	681	24	3	2640	3	DOCK10	2	225669970	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	5779182	225669970	17529403	135	36766										
GPR55	9290	broad.mit.edu	37	chr2	231775562	231775562	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgaagccatggatggccagcAggttgaggagcaggcccagg	17	9	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:231775562A>T	uc002vrg.2	-	2	309	c.116T>A	c.(115-117)CTG>CAG	p.L39Q	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Missense_Mutation_p.L39Q	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	39	Helical; Name=1; (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		GATGGCCAGCAGGTTGAGGAG	0.552													13	59	---	---	---	---	PASS	T	231775562	T	T	231775562	3	4	99	1	0	0	0	0	1	0	0	0	6699	188	7	5	847	5	GPR55	2	231775562	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	6105592	231775562	11423811	136	36767										
DIS3L2	129563	broad.mit.edu	37	chr2	233199087	233199087	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccctcttcccaggctataggGagcgactagacatggcgccc	11	15	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:233199087G>A	uc010fxz.2	+	18	2443	c.2167G>A	c.(2167-2169)GAG>AAG	p.E723K	DIS3L2_uc002vsm.3_RNA|DIS3L2_uc002vso.2_RNA|DIS3L2_uc002vsp.1_5'Flank	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.	723							exonuclease activity|ribonuclease activity|RNA binding			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(139;0.00809)|Renal(207;0.0113)|Acute lymphoblastic leukemia(138;0.0195)|all_lung(227;0.0465)|Lung NSC(271;0.136)		Epithelial(121;1.6e-13)|BRCA - Breast invasive adenocarcinoma(100;0.00104)|LUSC - Lung squamous cell carcinoma(224;0.0109)|Lung(119;0.0149)		AGGCTATAGGGAGCGACTAGA	0.652													4	17	---	---	---	---	PASS	A	233199087	A	A	233199087	3	1	99	1	0	0	0	0	1	0	0	0	4537	1175	41	2	2233	2	DIS3L2	2	233199087	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1423525	233199087	10000286	137	36768										
CHRNG	1146	broad.mit.edu	37	chr2	233406092	233406092	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgtgcatacagcgtggacgGtgtcttcgaggtggccctct	14	11	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr2:233406092G>A	uc002vsx.1	+	5	380	c.359G>A	c.(358-360)GGT>GAT	p.G120D	CHRNG_uc010fyd.2_Missense_Mutation_p.G120D|CHRNG_uc010fye.1_Intron	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	120	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)		AGCGTGGACGGTGTCTTCGAG	0.637													25	76	---	---	---	---	PASS	A	233406092	A	A	233406092	3	1	99	1	0	0	0	0	1	0	0	0	3396	1261	44	3	377	3	CHRNG	2	233406092	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	207005	233406092	9793281	138	36769										
CHL1	10752	broad.mit.edu	37	chr3	432795	432795	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cttagcctataactctaaagGagctggtcctgaaagtgagc	10	9	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:432795G>T	uc003bou.2	+	21	2967	c.2696G>T	c.(2695-2697)GGA>GTA	p.G899V	CHL1_uc003bot.2_Missense_Mutation_p.G915V|CHL1_uc003bow.1_Missense_Mutation_p.G899V|CHL1_uc011asi.1_Missense_Mutation_p.G915V	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	899	Fibronectin type-III 3.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		AACTCTAAAGGAGCTGGTCCT	0.388													27	19	---	---	---	---	PASS	T	432795	T	T	432795	3	4	99	1	0	0	0	0	1	0	0	0	3349	1174	41	2	2822	2	CHL1	3	432795	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08		432795	197589635	139	36770										
FBLN2	2199	broad.mit.edu	37	chr3	13659585	13659585	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccctgtcctagtttcagaggCagagatggcgggccgagagg	16	10	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:13659585C>T	uc011avb.1	+	6	1864	c.1739C>T	c.(1738-1740)GCA>GTA	p.A580V	FBLN2_uc011auz.1_Missense_Mutation_p.A606V|FBLN2_uc011ava.1_Missense_Mutation_p.A580V|FBLN2_uc011avc.1_Missense_Mutation_p.A580V	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	580						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			GTTTCAGAGGCAGAGATGGCG	0.607													44	59	---	---	---	---	PASS	T	13659585	T	T	13659585	3	4	99	1	0	0	0	0	1	0	0	0	5699	710	25	3	447	3	FBLN2	3	13659585	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	13226790	13659585	184362845	140	36771										
TMEM43	79188	broad.mit.edu	37	chr3	14174420	14174420	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaacttcgaccgagagattgGccacaaaaaccccaggtgag	10	11	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:14174420G>T	uc003byk.2	+	6	751	c.497G>T	c.(496-498)GGC>GTC	p.G166V	TMEM43_uc003byl.1_Missense_Mutation_p.G46V	NM_024334	NP_077310	Q9BTV4	TMM43_HUMAN	transmembrane protein 43	166	Lumenal (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|nuclear inner membrane				ovary(1)	1						CGAGAGATTGGCCACAAAAAC	0.448													23	13	---	---	---	---	PASS	T	14174420	T	T	14174420	3	4	99	1	0	0	0	0	1	0	0	0	16164	1203	42	3	519	3	TMEM43	3	14174420	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	514835	14174420	183848010	141	36772										
SATB1	6304	broad.mit.edu	37	chr3	18427920	18427920	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acggctgggtggtgtgctgaTgaggggggcaggacccatgg	21	7	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:18427920T>G	uc003cbh.2	-	8	3125	c.1390A>C	c.(1390-1392)ATC>CTC	p.I464L	SATB1_uc003cbi.2_Missense_Mutation_p.I464L|SATB1_uc003cbj.2_Missense_Mutation_p.I464L	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	464					cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						GGTGTGCTGATGAGGGGGGCA	0.507													17	105	---	---	---	---	PASS	G	18427920	G	G	18427920	3	3	99	1	0	0	0	0	1	0	0	0	13853	1464	51	5	917	5	SATB1	3	18427920	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	4253500	18427920	179594510	142	36773										
KCNH8	131096	broad.mit.edu	37	chr3	19554491	19554491	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagggaaatggcaacatcaaCaagcgactcccatccattgt	8	11	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:19554491C>A	uc003cbk.1	+	13	2304	c.2109C>A	c.(2107-2109)AAC>AAA	p.N703K	KCNH8_uc010hex.1_Missense_Mutation_p.N164K	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	703	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						GCAACATCAACAAGCGACTCC	0.343													11	16	---	---	---	---	PASS	A	19554491	A	A	19554491	3	1	99	1	0	0	0	0	1	0	0	0	8038	477	17	3	2159	3	KCNH8	3	19554491	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1126571	19554491	178467939	143	36774										
TGFBR2	7048	broad.mit.edu	37	chr3	30713504	30713504	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agtttgagacagtggcagtcAagatctttccctatgaggag	12	7	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:30713504A>G	uc003ceo.2	+	4	1211	c.829A>G	c.(829-831)AAG>GAG	p.K277E	TGFBR2_uc003cen.2_Missense_Mutation_p.K302E	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	277	Protein kinase.|Cytoplasmic (Potential).	ATP (By similarity).		K->R: Abolishes kinase activity, TGF-beta signaling and interaction with DAXX.	activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						AGTGGCAGTCAAGATCTTTCC	0.493													25	31	---	---	---	---	PASS	G	30713504	G	G	30713504	3	3	99	1	0	0	0	0	1	0	0	0	15819	131	5	5	922	5	TGFBR2	3	30713504	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	11159013	30713504	167308926	144	36775										
CCR4	1233	broad.mit.edu	37	chr3	32995297	32995297	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttacagtggcatattctttgTcatgctcatgagcattgata	8	7	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:32995297T>A	uc003cfg.1	+	2	551	c.383T>A	c.(382-384)GTC>GAC	p.V128D		NM_005508	NP_005499	P51679	CCR4_HUMAN	chemokine (C-C motif) receptor 4	128	Helical; Name=3; (Potential).				chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response	integral to plasma membrane				lung(1)	1						ATATTCTTTGTCATGCTCATG	0.483													77	90	---	---	---	---	PASS	A	32995297	A	A	32995297	3	1	99	1	0	0	0	0	1	0	0	0	2943	1667	58	5	385	5	CCR4	3	32995297	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	2281793	32995297	165027133	145	36776										
EXOG	9941	broad.mit.edu	37	chr3	38537942	38537942	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctggggctgtagtgggcgcTgcgggagctgggctcgcggc	22	10	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:38537942T>A	uc003cih.2	+	1	180	c.84T>A	c.(82-84)GCT>GCA	p.A28A	EXOG_uc010hhg.2_RNA|EXOG_uc011ayq.1_Silent_p.A28A|EXOG_uc003cij.2_5'UTR|EXOG_uc010hhd.2_5'UTR|EXOG_uc010hhe.2_5'UTR|EXOG_uc003cik.2_5'UTR|EXOG_uc010hhf.2_5'UTR|EXOG_uc003cii.2_5'UTR	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	28						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						TAGTGGGCGCTGCGGGAGCTG	0.657											OREG0015479	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	22	---	---	---	---	PASS	A	38537942	A	A	38537942	2	1	99	1	0	0	0	0	0	0	0	1	5312	1567	55	5		5	EXOG	3	38537942	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	5542645	38537942	159484488	146	36777										
MYRIP	25924	broad.mit.edu	37	chr3	40231921	40231921	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agcaaagaaccatcttccccCagcgcccagctccgggatct	8	17	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:40231921C>T	uc003cka.2	+	10	1767	c.1632C>T	c.(1630-1632)CCC>CCT	p.P544P	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Silent_p.P544P|MYRIP_uc010hhw.2_Silent_p.P455P|MYRIP_uc011ayz.1_Silent_p.P357P|uc003ckb.2_Intron	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	544	Myosin-binding.|Actin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		CATCTTCCCCCAGCGCCCAGC	0.602													3	35	---	---	---	---	PASS	T	40231921	T	T	40231921	2	4	99	1	0	0	0	0	0	0	0	1	10100	581	21	3		3	MYRIP	3	40231921	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1693979	40231921	157790509	147	36778										
CELSR3	1951	broad.mit.edu	37	chr3	48677267	48677267	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggccgaggagttgaaagaggCaaggatggaggaaagaatgt	18	3	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:48677267C>G	uc003cul.2	-	34	10032	c.9751G>C	c.(9751-9753)GCC>CCC	p.A3251P	CELSR3_uc003cuf.1_Missense_Mutation_p.A3349P|CELSR3_uc010hkf.2_Missense_Mutation_p.A541P|CELSR3_uc010hkg.2_Missense_Mutation_p.A1234P	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	3251	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TTGAAAGAGGCAAGGATGGAG	0.602													48	57	---	---	---	---	PASS	G	48677267	G	G	48677267	3	3	99	1	0	0	0	0	1	0	0	0	3223	710	25	4	195	4	CELSR3	3	48677267	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	8445346	48677267	149345163	148	36779										
RNF123	63891	broad.mit.edu	37	chr3	49736430	49736430	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caggaacggtgtatcactggGcactgcctttgagaacctgt	12	10	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:49736430G>A	uc003cxh.2	+	10	742	c.656G>A	c.(655-657)GGC>GAC	p.G219D	RNF123_uc010hky.1_5'Flank|RNF123_uc003cxi.2_5'Flank	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	219	B30.2/SPRY.					cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		GTATCACTGGGCACTGCCTTT	0.582													43	54	---	---	---	---	PASS	A	49736430	A	A	49736430	3	1	99	1	0	0	0	0	1	0	0	0	13433	1203	42	3	690	3	RNF123	3	49736430	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1059163	49736430	148286000	149	36780										
STAB1	23166	broad.mit.edu	37	chr3	52557073	52557073	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gatgccgaaatggcttcgtgGgtgacgggatcagcacgtgc	16	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:52557073G>C	uc003dej.2	+	63	7017	c.6943G>C	c.(6943-6945)GGT>CGT	p.G2315R	STAB1_uc003dek.1_Missense_Mutation_p.G330R|STAB1_uc003del.2_Missense_Mutation_p.G202R	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2315	Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		TGGCTTCGTGGGTGACGGGAT	0.602													21	43	---	---	---	---	PASS	C	52557073	C	C	52557073	3	2	99	1	0	0	0	0	1	0	0	0	15236	1232	43	4	7193	4	STAB1	3	52557073	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2820643	52557073	145465357	150	36781										
DCP1A	55802	broad.mit.edu	37	chr3	53324879	53324879	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cttcaggatcctggttctgcTgcatagactgaaatgtttat	9	8	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:53324879T>A	uc003dgs.3	-	8	1484	c.1391A>T	c.(1390-1392)CAG>CTG	p.Q464L	DCP1A_uc003dgt.3_RNA	NM_018403	NP_060873	Q9NPI6	DCP1A_HUMAN	DCP1 decapping enzyme homolog A	464					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasmic mRNA processing body|cytosol|nucleus	hydrolase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000164)|KIRC - Kidney renal clear cell carcinoma(197;0.00525)|Kidney(197;0.00579)|OV - Ovarian serous cystadenocarcinoma(275;0.0647)		CTGGTTCTGCTGCATAGACTG	0.363													3	5	---	---	---	---	PASS	A	53324879	A	A	53324879	3	1	99	1	0	0	0	0	1	0	0	0	4298	1580	55	5	369	5	DCP1A	3	53324879	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	767806	53324879	144697551	151	36782										
LRTM1	57408	broad.mit.edu	37	chr3	54952882	54952882	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aggtcctttcccttccaggtGtctggtgattcacagatgat	10	10	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:54952882G>T	uc003dhl.2	-	3	776	c.642C>A	c.(640-642)GAC>GAA	p.D214E	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	214	Extracellular (Potential).|LRRCT.					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		CCTTCCAGGTGTCTGGTGATT	0.502													13	16	---	---	---	---	PASS	T	54952882	T	T	54952882	3	4	99	1	0	0	0	0	1	0	0	0	9044	1368	48	3	399	3	LRTM1	3	54952882	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1628003	54952882	143069548	152	36783										
CNTN3	5067	broad.mit.edu	37	chr3	74315693	74315693	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcccctccatctgttgtggcCttgacttcaataatgtagtc	7	12	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:74315693C>A	uc003dpm.1	-	21	3005	c.2925G>T	c.(2923-2925)AAG>AAT	p.K975N		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	975	Fibronectin type-III 4.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		CTGTTGTGGCCTTGACTTCAA	0.398													20	165	---	---	---	---	PASS	A	74315693	A	A	74315693	3	1	99	1	0	0	0	0	1	0	0	0	3642	680	24	3	169	3	CNTN3	3	74315693	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	19362811	74315693	123706737	153	36784										
OR5H14	403273	broad.mit.edu	37	chr3	97869025	97869025	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atatgggctctgcatccccaCaggctgatgaccaagatatg	10	11	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:97869025C>A	uc003dsg.1	+	1	796	c.796C>A	c.(796-798)CAG>AAG	p.Q266K		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	266	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGCATCCCCACAGGCTGATGA	0.433													14	16	---	---	---	---	PASS	A	97869025	A	A	97869025	3	1	99	1	0	0	0	0	1	0	0	0	11160	479	17	3	798	3	OR5H14	3	97869025	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	23553332	97869025	100153405	154	36785										
MYH15	22989	broad.mit.edu	37	chr3	108163597	108163597	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caaggctttctgtaattgtgCacactcttccttcagtccag	7	12	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:108163597C>T	uc003dxa.1	-	23	2662	c.2605G>A	c.(2605-2607)GCA>ACA	p.A869T		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	869	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TGTAATTGTGCACACTCTTCC	0.433													10	79	---	---	---	---	PASS	T	108163597	T	T	108163597	3	4	99	1	0	0	0	0	1	0	0	0	10034	710	25	3	3315	3	MYH15	3	108163597	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	10294572	108163597	89858833	155	36786										
CCDC80	151887	broad.mit.edu	37	chr3	112357103	112357103	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcattcttcatcttttttttCttctccttctctggtttctc	2	12	8	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:112357103C>T	uc003dzf.2	-	2	1868	c.1650G>A	c.(1648-1650)AAG>AAA	p.K550K	CCDC80_uc011bhv.1_Silent_p.K550K|CCDC80_uc003dzg.2_Silent_p.K550K|CCDC80_uc003dzh.1_Silent_p.K550K	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	550	Lys-rich.									ovary(2)	2						tcttttttttcttctccttct	0.214													6	27	---	---	---	---	PASS	T	112357103	T	T	112357103	2	4	99	1	0	0	0	0	0	0	0	1	2854	912	32	2		2	CCDC80	3	112357103	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	4193506	112357103	85665327	156	36787										
WDR52	55779	broad.mit.edu	37	chr3	113098376	113098376	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcaactccctttgtctctccCtcttttcaatttctattaat	1	13	5	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:113098376C>T	uc003eae.1	-	17	2121	c.2075G>A	c.(2074-2076)AGG>AAG	p.R692K		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	692	Glu-rich.									central_nervous_system(1)	1						TTGTCTCTCCCTCTTTTCAAT	0.328													8	74	---	---	---	---	PASS	T	113098376	T	T	113098376	3	4	99	1	0	0	0	0	1	0	0	0	17301	681	24	3	3580	3	WDR52	3	113098376	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	741273	113098376	84924054	157	36788										
GPR156	165829	broad.mit.edu	37	chr3	119886044	119886044	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagcagatttcacagtagggCcggtggcagcggcagaagaa	15	8	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:119886044C>A	uc011bjf.1	-	9	2280	c.2280G>T	c.(2278-2280)CGG>CGT	p.R760R	GPR156_uc011bjg.1_Silent_p.R756R	NM_153002	NP_694547	Q8NFN8	GP156_HUMAN	G protein-coupled receptor 156	760	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.19)		CACAGTAGGGCCGGTGGCAGC	0.567													37	101	---	---	---	---	PASS	A	119886044	A	A	119886044	2	1	99	1	0	0	0	0	0	0	0	1	6661	726	26	3		3	GPR156	3	119886044	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	6787668	119886044	78136386	158	36789										
STXBP5L	9515	broad.mit.edu	37	chr3	120976075	120976075	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgaaccagaaacaagtcctcCgtttccagatctctcagccc	6	15	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:120976075C>T	uc003eec.3	+	17	1867	c.1727C>T	c.(1726-1728)CCG>CTG	p.P576L	STXBP5L_uc011bji.1_Missense_Mutation_p.P576L	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	576	WD 9.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		ACAAGTCCTCCGTTTCCAGAT	0.388													17	82	---	---	---	---	PASS	T	120976075	T	T	120976075	3	4	99	1	0	0	0	0	1	0	0	0	15356	652	23	1	1789	1	STXBP5L	3	120976075	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1090031	120976075	77046355	159	36790										
PARP9	83666	broad.mit.edu	37	chr3	122259607	122259607	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gatccatgcgtgggcctcatAcatctcttccacgttgaatc	8	13	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:122259607A>T	uc010hri.2	-	8	1727	c.1582T>A	c.(1582-1584)TAT>AAT	p.Y528N	PARP9_uc003eff.3_Missense_Mutation_p.Y493N|PARP9_uc011bjs.1_Missense_Mutation_p.Y493N|PARP9_uc003efg.2_Missense_Mutation_p.Y73N|PARP9_uc003efi.2_Missense_Mutation_p.Y493N|PARP9_uc003efh.2_Missense_Mutation_p.Y528N|PARP9_uc003efj.2_Missense_Mutation_p.Y493N	NM_001146102	NP_001139574	Q8IXQ6	PARP9_HUMAN	poly (ADP-ribose) polymerase family, member 9	528					cell migration	cytosol|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)|pancreas(1)|prostate(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0519)		TGGGCCTCATACATCTCTTCC	0.453													40	91	---	---	---	---	PASS	T	122259607	T	T	122259607	3	4	99	1	0	0	0	0	1	0	0	0	11466	391	14	5	1051	5	PARP9	3	122259607	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1283532	122259607	75762823	160	36791										
ALDH1L1	10840	broad.mit.edu	37	chr3	125822661	125822661	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcgaaggtcactgtcttgacCcgcaggtactcgttcagagc	11	12	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:125822661C>A	uc003eim.1	-	23	2872	c.2682G>T	c.(2680-2682)CGG>CGT	p.R894R	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Silent_p.R793R|SLC41A3_uc011bkh.1_5'Flank	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	894	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	CTGTCTTGACCCGCAGGTACT	0.577													6	17	---	---	---	---	PASS	A	125822661	A	A	125822661	2	1	99	1	0	0	0	0	0	0	0	1	494	610	22	3		3	ALDH1L1	3	125822661	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	3563054	125822661	72199769	161	36792										
RUVBL1	8607	broad.mit.edu	37	chr3	127823761	127823761	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cttccttggtctcctttattCgcagccctggaagaggtggc	11	12	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:127823761C>A	uc003ekh.2	-	4	472	c.368G>T	c.(367-369)CGA>CTA	p.R123L	RUVBL1_uc003ekf.2_Missense_Mutation_p.R63L|RUVBL1_uc010hss.2_Missense_Mutation_p.R123L	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1	123					cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		CTCCTTTATTCGCAGCCCTGG	0.473													18	42	---	---	---	---	PASS	A	127823761	A	A	127823761	3	1	99	1	0	0	0	0	1	0	0	0	13752	884	31	2	1034	2	RUVBL1	3	127823761	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2001100	127823761	70198669	162	36793										
PLXND1	23129	broad.mit.edu	37	chr3	129278510	129278510	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcggggtcggagattcccctCttctcagcctgctcctccag	10	16	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:129278510C>A	uc003emx.2	-	32	5350	c.5250G>T	c.(5248-5250)AAG>AAT	p.K1750N	PLXND1_uc003emw.2_5'Flank|PLXND1_uc011blb.1_Missense_Mutation_p.K418N	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1750	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						AGATTCCCCTCTTCTCAGCCT	0.572													10	89	---	---	---	---	PASS	A	129278510	A	A	129278510	3	1	99	1	0	0	0	0	1	0	0	0	12127	912	32	2	547	2	PLXND1	3	129278510	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1454749	129278510	68743920	163	36794										
TMCC1	23023	broad.mit.edu	37	chr3	129389433	129389433	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaacaatcttcttcactaccAtattttgggctagactgaaa	6	9	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:129389433A>T	uc003emz.3	-	5	1752	c.1251T>A	c.(1249-1251)TAT>TAA	p.Y417*	TMCC1_uc003emy.3_Nonsense_Mutation_p.Y93*|TMCC1_uc011blc.1_Nonsense_Mutation_p.Y238*|TMCC1_uc010htg.2_Nonsense_Mutation_p.Y303*	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	417						integral to membrane				skin(1)	1						CTTCACTACCATATTTTGGGC	0.498													9	35	---	---	---	---	PASS	T	129389433	T	T	129389433	4	4	99	1	0	0	0	0	0	1	0	0	15989	224	8	5	722	5	TMCC1	3	129389433	Nonsense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	110923	129389433	68632997	164	36795										
TMEM108	66000	broad.mit.edu	37	chr3	133098958	133098958	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agccagagggccgccctcgaGggcaggctgcccccaccatc	13	18	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:133098958G>C	uc003eph.2	+	4	677	c.403G>C	c.(403-405)GGG>CGG	p.G135R	TMEM108_uc003epi.2_Missense_Mutation_p.G135R|TMEM108_uc003epj.1_Missense_Mutation_p.G135R|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_Missense_Mutation_p.G86R	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	135	Pro-rich.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						CCGCCCTCGAGGGCAGGCTGC	0.706													4	24	---	---	---	---	PASS	C	133098958	C	C	133098958	3	2	99	1	0	0	0	0	1	0	0	0	16021	1000	35	4	409	4	TMEM108	3	133098958	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3709525	133098958	64923472	165	36796										
TF	7018	broad.mit.edu	37	chr3	133478161	133478161	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gagaccaccgaagactgcatCgccaagatcatggtatgtca	10	11	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:133478161C>A	uc003epu.1	+	14	2919	c.1191C>A	c.(1189-1191)ATC>ATA	p.I397I	TF_uc011blt.1_Silent_p.I270I|TF_uc003epw.1_Intron|TF_uc003epv.1_Silent_p.I397I	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	397	Transferrin-like 2.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	AAGACTGCATCGCCAAGATCA	0.547													20	39	---	---	---	---	PASS	A	133478161	A	A	133478161	2	1	99	1	0	0	0	0	0	0	0	1	15782	874	31	2		2	TF	3	133478161	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	379203	133478161	64544269	166	36797										
RBP1	5947	broad.mit.edu	37	chr3	139258355	139258355	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgaccaacatcttccagtacCcagtgaagtcgactggcatt	8	12	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:139258355C>A	uc003eti.2	-	1	317	c.206G>T	c.(205-207)GGG>GTG	p.G69V	RBP1_uc011bmx.1_Missense_Mutation_p.G69V|RBP1_uc010huj.2_RNA|RBP1_uc011bmy.1_Missense_Mutation_p.G69V	NM_002899	NP_002890	P09455	RET1_HUMAN	retinol binding protein 1, cellular isoform a	7						cytoplasm	retinal binding|retinol binding|transporter activity				0					Vitamin A(DB00162)	CTTCCAGTACCCAGTGAAGTC	0.672													6	11	---	---	---	---	PASS	A	139258355	A	A	139258355	3	1	99	1	0	0	0	0	1	0	0	0	13155	623	22	3	471	3	RBP1	3	139258355	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	5780194	139258355	58764075	167	36798										
TRIM42	287015	broad.mit.edu	37	chr3	140397179	140397179	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atcttcacctcagagcggaaCtgcacctgcttcccctgccc	7	18	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:140397179C>A	uc003eto.1	+	1	299	c.108C>A	c.(106-108)AAC>AAA	p.N36K		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	36	Cys-rich.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						CAGAGCGGAACTGCACCTGCT	0.527													43	109	---	---	---	---	PASS	A	140397179	A	A	140397179	3	1	99	1	0	0	0	0	1	0	0	0	16514	564	20	3	110	3	TRIM42	3	140397179	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1138824	140397179	57625251	168	36799										
PCOLCE2	26577	broad.mit.edu	37	chr3	142557696	142557696	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acacagccacataatcatatCggcagtagttatctcgctcc	6	13	2	0	rs138409602		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:142557696C>A	uc003evd.2	-	5	822	c.626G>T	c.(625-627)CGA>CTA	p.R209L		NM_013363	NP_037495	Q9UKZ9	PCOC2_HUMAN	procollagen C-endopeptidase enhancer 2	209	CUB 2.					extracellular region	collagen binding|heparin binding|peptidase activator activity			ovary(2)|skin(1)	3						ATAATCATATCGGCAGTAGTT	0.378													12	45	---	---	---	---	PASS	A	142557696	A	A	142557696	3	1	99	1	0	0	0	0	1	0	0	0	11595	884	31	2	641	2	PCOLCE2	3	142557696	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2160517	142557696	55464734	169	36800										
PAQR9	344838	broad.mit.edu	37	chr3	142681553	142681553	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caggcagcaccagggcgcggTaggcggcgataaggcgcgtg	19	11	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:142681553T>A	uc003evg.2	-	1	626	c.626A>T	c.(625-627)TAC>TTC	p.Y209F	PAQR9_uc003evf.1_5'Flank	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	209	Helical; (Potential).					integral to membrane	receptor activity				0						CAGGGCGCGGTAGGCGGCGAT	0.652													4	15	---	---	---	---	PASS	A	142681553	A	A	142681553	3	1	99	1	0	0	0	0	1	0	0	0	11442	1638	57	5	511	5	PAQR9	3	142681553	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	123857	142681553	55340877	170	36801										
MED12L	116931	broad.mit.edu	37	chr3	150834175	150834175	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggcttcaataatcagccagcCttcactggagatgaacatgg	10	10	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:150834175C>A	uc003eyp.2	+	2	188	c.150C>A	c.(148-150)GCC>GCA	p.A50A	MED12L_uc011bnz.1_Silent_p.A50A|MED12L_uc003eym.1_Silent_p.A50A|MED12L_uc003eyn.2_Silent_p.A50A|MED12L_uc003eyo.2_Silent_p.A50A	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	50					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)			ATCAGCCAGCCTTCACTGGAG	0.378													7	16	---	---	---	---	PASS	A	150834175	A	A	150834175	2	1	99	1	0	0	0	0	0	0	0	1	9429	668	24	3		3	MED12L	3	150834175	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	8152622	150834175	47188255	171	36802										
IGSF10	285313	broad.mit.edu	37	chr3	151164737	151164737	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgccaattttcctctgcctcCcaaagcgtctgaacagcggg	9	15	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:151164737C>A	uc011bod.1	-	4	3032	c.3032G>T	c.(3031-3033)GGG>GTG	p.G1011V		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1011					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CCTCTGCCTCCCAAAGCGTCT	0.498													23	55	---	---	---	---	PASS	A	151164737	A	A	151164737	3	1	99	1	0	0	0	0	1	0	0	0	7597	623	22	3	4899	3	IGSF10	3	151164737	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	330562	151164737	46857693	172	36803										
SCHIP1	29970	broad.mit.edu	37	chr3	159605586	159605586	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gacttccttacaaggcaaaaGaaattgcaagctgaagccaa	8	9	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:159605586G>C	uc003fcs.1	+	5	1152	c.1086G>C	c.(1084-1086)AAG>AAC	p.K362N	SCHIP1_uc003fcq.1_Missense_Mutation_p.K438N|SCHIP1_uc003fcr.1_Missense_Mutation_p.K351N|SCHIP1_uc003fct.1_Missense_Mutation_p.K349N|SCHIP1_uc010hvz.1_Missense_Mutation_p.K322N|SCHIP1_uc003fcu.1_Missense_Mutation_p.K119N|SCHIP1_uc003fcv.1_Missense_Mutation_p.K135N	NM_014575	NP_055390	Q9P0W5	SCHI1_HUMAN	schwannomin interacting protein 1	362						cytoplasm	identical protein binding|protein binding			ovary(1)|central_nervous_system(1)	2			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			CAAGGCAAAAGAAATTGCAAG	0.453													12	89	---	---	---	---	PASS	C	159605586	C	C	159605586	3	2	99	1	0	0	0	0	1	0	0	0	13904	933	33	2	1104	2	SCHIP1	3	159605586	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	8440849	159605586	38416844	173	36804										
MECOM	2122	broad.mit.edu	37	chr3	168825717	168825717	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ataagtaggaaacttacccaAgttctctgatcaggcagttg	9	8	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:168825717A>G	uc003ffi.3	-	9	2306	c.2037T>C	c.(2035-2037)ACT>ACC	p.T679T	MECOM_uc010hwk.1_Intron|MECOM_uc003ffj.3_Silent_p.T744T|MECOM_uc011bpi.1_Intron|MECOM_uc003ffn.3_Silent_p.T679T|MECOM_uc003ffk.2_Intron|MECOM_uc003ffl.2_Intron|MECOM_uc011bpj.1_Silent_p.T867T|MECOM_uc011bpk.1_Silent_p.T669T|MECOM_uc010hwn.2_Intron	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	679					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						AACTTACCCAAGTTCTCTGAT	0.308													9	36	---	---	---	---	PASS	G	168825717	G	G	168825717	2	3	99	1	0	0	0	0	0	0	0	1	9422	59	3	5		5	MECOM	3	168825717	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	9220131	168825717	29196713	174	36805										
NLGN1	22871	broad.mit.edu	37	chr3	173525560	173525560	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tggaaatttatatgatggaaGtgtcttggcaagttatggca	12	3	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:173525560G>A	uc003fio.1	+	4	1007	c.584G>A	c.(583-585)AGT>AAT	p.S195N	NLGN1_uc010hww.1_Missense_Mutation_p.S235N|NLGN1_uc003fip.1_Missense_Mutation_p.S195N	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	212	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TATGATGGAAGTGTCTTGGCA	0.428													13	48	---	---	---	---	PASS	A	173525560	A	A	173525560	3	1	99	1	0	0	0	0	1	0	0	0	10461	1029	36	3	590	3	NLGN1	3	173525560	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	4699843	173525560	24496870	175	36806										
PIK3CA	5290	broad.mit.edu	37	chr3	178919142	178919142	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gacaagcagaagtatactctGaaaatcaaccatgactgtgt	8	8	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:178919142G>A	uc003fjk.2	+	4	784	c.627G>A	c.(625-627)CTG>CTA	p.L209L		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	209	PI3K-RBD.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AGTATACTCTGAAAATCAACC	0.368		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			40	74	---	---	---	---	PASS	A	178919142	A	A	178919142	2	1	99	1	0	0	0	0	0	0	0	1	11913	1277	45	2		2	PIK3CA	3	178919142	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	5393582	178919142	19103288	176	36807										
MFN1	55669	broad.mit.edu	37	chr3	179076790	179076790	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gatgaaaaaaagagtgtgaaGgtatgatctttaacctttag	10	3	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:179076790G>T	uc003fjs.2	+	4	537	c.411G>T	c.(409-411)AAG>AAT	p.K137N	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Missense_Mutation_p.K165N	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	137	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			AGAGTGTGAAGGTATGATCTT	0.343													10	32	---	---	---	---	PASS	T	179076790	T	T	179076790	3	4	99	1	0	0	0	0	1	0	0	0	9523	1014	35	3	421	3	MFN1	3	179076790	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	157648	179076790	18945640	177	36808										
CLCN2	1181	broad.mit.edu	37	chr3	184076563	184076563	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaagatccaatcttcaccaaCcctggatactaggaacttgt	7	11	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:184076563C>A	uc003foi.2	-	3	383	c.259G>T	c.(259-261)GTT>TTT	p.V87F	CLCN2_uc003foh.2_5'Flank|CLCN2_uc010hya.1_Missense_Mutation_p.V87F|CLCN2_uc011brl.1_Missense_Mutation_p.V87F|CLCN2_uc011brm.1_Intron|CLCN2_uc011brn.1_Missense_Mutation_p.V87F|POLR2H_uc003foj.1_5'Flank	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	87	Cytoplasmic (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	TCTTCACCAACCCTGGATACT	0.557													3	9	---	---	---	---	PASS	A	184076563	A	A	184076563	3	1	99	1	0	0	0	0	1	0	0	0	3463	507	18	3	2525	3	CLCN2	3	184076563	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	4999773	184076563	13945867	178	36809										
EHHADH	1962	broad.mit.edu	37	chr3	184910839	184910839	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atggtagtgggggaagagtaTtggctgggaataacctctaa	15	4	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:184910839T>A	uc003fpf.2	-	7	1374	c.1347A>T	c.(1345-1347)CAA>CAT	p.Q449H	EHHADH_uc011brs.1_Missense_Mutation_p.Q353H	NM_001966	NP_001957	Q08426	ECHP_HUMAN	enoyl-Coenzyme A, hydratase/3-hydroxyacyl	449	3-hydroxyacyl-CoA dehydrogenase.					peroxisome	3-hydroxyacyl-CoA dehydrogenase activity|coenzyme binding|dodecenoyl-CoA delta-isomerase activity|enoyl-CoA hydratase activity			ovary(3)	3	all_cancers(143;4.04e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.98e-32)|OV - Ovarian serous cystadenocarcinoma(80;5.55e-21)		NADH(DB00157)	GGGAAGAGTATTGGCTGGGAA	0.428													19	45	---	---	---	---	PASS	A	184910839	A	A	184910839	3	1	99	1	0	0	0	0	1	0	0	0	4982	1490	52	5	828	5	EHHADH	3	184910839	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	834276	184910839	13111591	179	36810										
FGF12	2257	broad.mit.edu	37	chr3	192078223	192078223	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctaatgtttcttactgtagtCgctgttttcgtccttggtcc	8	10	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr3:192078223C>A	uc003fsx.2	-	2	1130	c.304G>T	c.(304-306)GAC>TAC	p.D102Y	FGF12_uc003fsy.2_Missense_Mutation_p.D40Y	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	102					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		TTACTGTAGTCGCTGTTTTCG	0.433													15	20	---	---	---	---	PASS	A	192078223	A	A	192078223	3	1	99	1	0	0	0	0	1	0	0	0	5841	884	31	2	443	2	FGF12	3	192078223	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	7167384	192078223	5944207	180	36811										
KIAA0232	9778	broad.mit.edu	37	chr4	6826361	6826361	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccatgatttacactcggtatGtcctcagtcttctgctgcat	7	12	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:6826361G>A	uc003gjr.3	+	3	644	c.181G>A	c.(181-183)GTC>ATC	p.V61I	KIAA0232_uc003gjq.3_Missense_Mutation_p.V61I	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	61							ATP binding			ovary(2)	2						CACTCGGTATGTCCTCAGTCT	0.433													8	52	---	---	---	---	PASS	A	6826361	A	A	6826361	3	1	99	1	0	0	0	0	1	0	0	0	8163	1377	48	3	183	3	KIAA0232	4	6826361	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08		6826361	184327915	181	36812										
ACOX3	8310	broad.mit.edu	37	chr4	8368789	8368789	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctttcctgcaggacagcgcCccagaggtttttgtagagct	12	11	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:8368789C>A	uc010idk.2	-	18	2147	c.2002G>T	c.(2002-2004)GGC>TGC	p.G668C	ACOX3_uc003glc.3_Missense_Mutation_p.G668C|ACOX3_uc003gld.3_3'UTR	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	668					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						AGGACAGCGCCCCAGAGGTTT	0.473													8	41	---	---	---	---	PASS	A	8368789	A	A	8368789	3	1	99	1	0	0	0	0	1	0	0	0	160	623	22	3	104	3	ACOX3	4	8368789	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1542428	8368789	182785487	182	36813										
SLIT2	9353	broad.mit.edu	37	chr4	20530638	20530638	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctggcttgccctgaaaagtGtcgctgtgaaggaaccacag	12	10	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:20530638G>T	uc003gpr.1	+	16	1733	c.1529G>T	c.(1528-1530)TGT>TTT	p.C510F	SLIT2_uc003gps.1_Missense_Mutation_p.C502F	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	510	LRRNT 3.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CCTGAAAAGTGTCGCTGTGAA	0.423													8	73	---	---	---	---	PASS	T	20530638	T	T	20530638	3	4	99	1	0	0	0	0	1	0	0	0	14740	1377	48	3	1591	3	SLIT2	4	20530638	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	12161849	20530638	170623638	183	36814										
GPR125	166647	broad.mit.edu	37	chr4	22438203	22438203	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtttccgggatatatcccacTgccatgggtgttccgcgtac	11	12	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:22438203T>A	uc003gqm.1	-	9	1412	c.1147A>T	c.(1147-1149)AGT>TGT	p.S383C	GPR125_uc010ieo.1_Missense_Mutation_p.S257C|GPR125_uc003gqn.1_Missense_Mutation_p.S157C|GPR125_uc003gqo.2_Missense_Mutation_p.S383C	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	383	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				TATATCCCACTGCCATGGGTG	0.458													7	39	---	---	---	---	PASS	A	22438203	A	A	22438203	3	1	99	1	0	0	0	0	1	0	0	0	6639	1580	55	5	2862	5	GPR125	4	22438203	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	1907565	22438203	168716073	184	36815										
GBA3	57733	broad.mit.edu	37	chr4	22748957	22748957	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agatcatcgatgatttgttaAaaaatggggttactcccatt	8	6	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:22748957A>G	uc003gqp.3	+	3	416	c.325A>G	c.(325-327)AAA>GAA	p.K109E	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Missense_Mutation_p.K110E	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	109					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						TGATTTGTTAAAAAATGGGGT	0.363													16	116	---	---	---	---	PASS	G	22748957	G	G	22748957	3	3	99	1	0	0	0	0	1	0	0	0	6268	15	1	5	335	5	GBA3	4	22748957	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	310754	22748957	168405319	185	36816										
PGM2	55276	broad.mit.edu	37	chr4	37848563	37848563	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttctttcagtggtgaatggaGggtgttttcaggcaatgagt	14	4	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:37848563G>A	uc011byb.1	+	9	1092	c.1019G>A	c.(1018-1020)AGG>AAG	p.R340K	PGM2_uc011bya.1_Missense_Mutation_p.R201K|PGM2_uc011byc.1_Missense_Mutation_p.R180K	NM_018290	NP_060760	Q96G03	PGM2_HUMAN	phosphoglucomutase 2	340					glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity|phosphopentomutase activity			ovary(1)	1						GGTGAATGGAGGGTGTTTTCA	0.428													23	58	---	---	---	---	PASS	A	37848563	A	A	37848563	3	1	99	1	0	0	0	0	1	0	0	0	11798	1000	35	3	1053	3	PGM2	4	37848563	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	15099606	37848563	153305713	186	36817										
SHISA3	152573	broad.mit.edu	37	chr4	42403402	42403402	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctggtgtcaccccagtatttCgcttaccccctccagcagga	8	16	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:42403402C>A	uc003gwp.2	+	2	869	c.651C>A	c.(649-651)TTC>TTA	p.F217L		NM_001080505	NP_001073974	A0PJX4	SHSA3_HUMAN	shisa homolog 3 precursor	217	Cytoplasmic (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|skin(1)	2						CCCAGTATTTCGCTTACCCCC	0.612													15	48	---	---	---	---	PASS	A	42403402	A	A	42403402	3	1	99	1	0	0	0	0	1	0	0	0	14281	883	31	2	657	2	SHISA3	4	42403402	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	4554839	42403402	148750874	187	36818										
GRXCR1	389207	broad.mit.edu	37	chr4	42895622	42895622	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agaggcgtcaaatacaaagtGagtgctggccaggctctatt	12	8	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:42895622G>T	uc003gwt.2	+	1	339	c.339G>T	c.(337-339)GTG>GTT	p.V113V		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	113					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						AATACAAAGTGAGTGCTGGCC	0.433													8	72	---	---	---	---	PASS	T	42895622	T	T	42895622	2	4	99	1	0	0	0	0	0	0	0	1	6812	1277	45	2		2	GRXCR1	4	42895622	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	492220	42895622	148258654	188	36819										
GABRG1	2565	broad.mit.edu	37	chr4	46053631	46053631	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tggcaattgtactcagggttGtcatagtcagaactgtagtg	12	6	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:46053631G>T	uc003gxb.2	-	8	1093	c.941C>A	c.(940-942)ACA>AAA	p.T314K		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	314	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		ACTCAGGGTTGTCATAGTCAG	0.358													7	29	---	---	---	---	PASS	T	46053631	T	T	46053631	3	4	99	1	0	0	0	0	1	0	0	0	6171	1377	48	3	464	3	GABRG1	4	46053631	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3158009	46053631	145100645	189	36820										
GABRG1	2565	broad.mit.edu	37	chr4	46067412	46067412	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cagaactcgtccatcattccAaattcgaagcagacgattag	7	11	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:46067412A>C	uc003gxb.2	-	4	663	c.511T>G	c.(511-513)TGG>GGG	p.W171G		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	171	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		CCATCATTCCAAATTCGAAGC	0.318													7	47	---	---	---	---	PASS	C	46067412	C	C	46067412	3	2	99	1	0	0	0	0	1	0	0	0	6171	130	5	5	910	5	GABRG1	4	46067412	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	13781	46067412	145086864	190	36821										
ATP10D	57205	broad.mit.edu	37	chr4	47527573	47527573	+	Splice_Site	SNP	G	T	T													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgattcaaaaaatatttttaGgactctgaagttgatcctga							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:47527573G>T	uc003gxk.1	+	5	855	c.691_splice	c.e5-1	p.D231_splice	ATP10D_uc003gxj.3_Splice_Site_p.D231_splice	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D						ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						AATATTTTTAGGACTCTGAAG	0.338													7	29	---	---	---	---	PASS	T	47527573	T	T	47527573	5	4	99	1	0	0	0	0	0	0	1	0	1118	1014	35	3	704	3	ATP10D	4	47527573	Splice_Site	SNP	G	TCGA-43-5668-01A-01D-1632-08	1460161	47527573	143626703	191	36822	684	2								
ATP10D	57205	broad.mit.edu	37	chr4	47527574	47527574	+	Missense_Mutation	SNP	G	T	T													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gattcaaaaaatatttttagGactctgaagttgatcctgag							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:47527574G>T	uc003gxk.1	+	5	855	c.691G>T	c.(691-693)GAC>TAC	p.D231Y	ATP10D_uc003gxj.3_Missense_Mutation_p.D231Y	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	231	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						ATATTTTTAGGACTCTGAAGT	0.338													7	28	---	---	---	---	PASS	T	47527574	T	T	47527574	3	4	99	1	0	0	0	0	1	0	0	0	1118	1188	41	2	705	2	ATP10D	4	47527574	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1	47527574	143626702	192	36823	684	2								
LRRC66	339977	broad.mit.edu	37	chr4	52883288	52883288	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttaaaattgtactcacccttGggagtgtcactgagtttatt	8	7	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:52883288G>A	uc003gzi.2	-	1	505	c.492C>T	c.(490-492)CCC>CCT	p.P164P		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	164	LRR 3.					integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						ACTCACCCTTGGGAGTGTCAC	0.418													25	66	---	---	---	---	PASS	A	52883288	A	A	52883288	2	1	99	1	0	0	0	0	0	0	0	1	9018	1335	47	3		3	LRRC66	4	52883288	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	5355714	52883288	138270988	193	36824										
SCFD2	152579	broad.mit.edu	37	chr4	54231648	54231648	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caagcaataacgggacatggAacacctcggccgtgtagttc	11	11	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:54231648A>G	uc003gzu.2	-	1	595	c.461T>C	c.(460-462)TTC>TCC	p.F154S	SCFD2_uc010igm.2_Missense_Mutation_p.F154S	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2	154					protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			CGGGACATGGAACACCTCGGC	0.587													3	25	---	---	---	---	PASS	G	54231648	G	G	54231648	3	3	99	1	0	0	0	0	1	0	0	0	13890	246	9	5	1629	5	SCFD2	4	54231648	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1348360	54231648	136922628	194	36825										
LNX1	84708	broad.mit.edu	37	chr4	54343060	54343060	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tccaaagctttgagtactatCgaggatgatgttcttttcaa	8	7	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:54343060C>G	uc003hag.3	-	9	2008	c.1752G>C	c.(1750-1752)TCG>TCC	p.S584S	PDGFRA_uc003haa.2_Intron|LNX1_uc003haf.3_Silent_p.S488S|LNX1_uc003hah.3_RNA	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	584	PDZ 3.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			TGAGTACTATCGAGGATGATG	0.522													22	81	---	---	---	---	PASS	G	54343060	G	G	54343060	2	3	99	1	0	0	0	0	0	0	0	1	8865	871	31	2		2	LNX1	4	54343060	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	111412	54343060	136811216	195	36826										
HOPX	84525	broad.mit.edu	37	chr4	57522051	57522051	+	Missense_Mutation	SNP	T	A	A													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cctcctcggaaaggcctgccTcggccgcgatgaggcacagc							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:57522051T>A	uc011cad.1	-	2	351	c.116A>T	c.(115-117)GAG>GTG	p.E39V	HOPX_uc003hcc.2_Missense_Mutation_p.E57V|HOPX_uc003hca.2_Missense_Mutation_p.E57V|HOPX_uc003hcb.2_Missense_Mutation_p.E39V|HOPX_uc003hcd.2_RNA|HOPX_uc003hce.2_RNA|HOPX_uc003hbz.2_Missense_Mutation_p.E39V	NM_001145459	NP_001138931	Q9BPY8	HOP_HUMAN	HOP homeobox isoform b	39	Homeobox; atypical.				negative regulation of cell differentiation|trophectodermal cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Glioma(25;0.08)|all_neural(26;0.101)					AAGGCCTGCCTCGGCCGCGAT	0.682													5	12	---	---	---	---	PASS	A	57522051	A	A	57522051	3	1	99	1	0	0	0	0	1	0	0	0	7285	1551	54	5	247	5	HOPX	4	57522051	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	3178991	57522051	133632225	196	36827	685	2								
HOPX	84525	broad.mit.edu	37	chr4	57522052	57522052	+	Missense_Mutation	SNP	C	G	G													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctcctcggaaaggcctgcctCggccgcgatgaggcacagcg							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:57522052C>G	uc011cad.1	-	2	350	c.115G>C	c.(115-117)GAG>CAG	p.E39Q	HOPX_uc003hcc.2_Missense_Mutation_p.E57Q|HOPX_uc003hca.2_Missense_Mutation_p.E57Q|HOPX_uc003hcb.2_Missense_Mutation_p.E39Q|HOPX_uc003hcd.2_RNA|HOPX_uc003hce.2_RNA|HOPX_uc003hbz.2_Missense_Mutation_p.E39Q	NM_001145459	NP_001138931	Q9BPY8	HOP_HUMAN	HOP homeobox isoform b	39	Homeobox; atypical.				negative regulation of cell differentiation|trophectodermal cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Glioma(25;0.08)|all_neural(26;0.101)					AGGCCTGCCTCGGCCGCGATG	0.687													5	12	---	---	---	---	PASS	G	57522052	G	G	57522052	3	3	99	1	0	0	0	0	1	0	0	0	7285	893	31	2	248	2	HOPX	4	57522052	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1	57522052	133632224	197	36828	685	2								
EPHA5	2044	broad.mit.edu	37	chr4	66467468	66467468	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	attttgggaggttcatcggtCacagaatggttgacacagga	13	6	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:66467468C>A	uc003hcy.2	-	3	994	c.801G>T	c.(799-801)GTG>GTT	p.V267V	EPHA5_uc003hcx.2_Silent_p.V198V|EPHA5_uc003hcz.2_Silent_p.V267V|EPHA5_uc011cah.1_Silent_p.V267V|EPHA5_uc011cai.1_Silent_p.V267V|EPHA5_uc003hda.2_Silent_p.V267V	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	267	Extracellular (Potential).|Cys-rich.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						GTTCATCGGTCACAGAATGGT	0.527										TSP Lung(17;0.13)			7	18	---	---	---	---	PASS	A	66467468	A	A	66467468	2	1	99	1	0	0	0	0	0	0	0	1	5170	813	29	2		2	EPHA5	4	66467468	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	8945416	66467468	124686808	198	36829										
UGT2A1	10941	broad.mit.edu	37	chr4	70513211	70513211	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caccagaggcaactaggacaGtcacattatgctccttttta	7	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:70513211G>A	uc003hem.3	-	1	215	c.152C>T	c.(151-153)ACT>ATT	p.T51I	UGT2A1_uc011caq.1_Missense_Mutation_p.T51I|UGT2A1_uc010ihu.2_Missense_Mutation_p.T51I|UGT2A1_uc010iht.2_Missense_Mutation_p.T51I	NM_006798	NP_006789	Q9Y4X1	UD2A1_HUMAN	UDP glucuronosyltransferase 2 family,	51	Extracellular (Potential).				detection of chemical stimulus|sensory perception of smell	integral to membrane	glucuronosyltransferase activity|glucuronosyltransferase activity			ovary(1)	1						AACTAGGACAGTCACATTATG	0.388													13	51	---	---	---	---	PASS	A	70513211	A	A	70513211	3	1	99	1	0	0	0	0	1	0	0	0	16950	1029	36	3	1455	3	UGT2A1	4	70513211	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	4045743	70513211	120641065	199	36830										
SULT1B1	27284	broad.mit.edu	37	chr4	70599210	70599210	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agtttttaacatgagtaaacCaggaaccataggccactaaa	7	8	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:70599210C>G	uc003hen.2	-	6	816	c.518G>C	c.(517-519)TGG>TCG	p.W173S		NM_014465	NP_055280	O43704	ST1B1_HUMAN	sulfotransferase family, cytosolic, 1B, member	173					3'-phosphoadenosine 5'-phosphosulfate metabolic process|cellular biogenic amine metabolic process|flavonoid metabolic process|steroid metabolic process|sulfation|thyroid hormone metabolic process|xenobiotic metabolic process	cytosol					0						ATGAGTAAACCAGGAACCATA	0.294													37	76	---	---	---	---	PASS	G	70599210	G	G	70599210	3	3	99	1	0	0	0	0	1	0	0	0	15373	595	21	4	384	4	SULT1B1	4	70599210	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	85999	70599210	120555066	200	36831										
C4orf35	85438	broad.mit.edu	37	chr4	71201257	71201257	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaagtctctggcacactaaaGgacagcagtgctggtgttgc	13	9	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:71201257G>A	uc003hff.2	+	1	587	c.501G>A	c.(499-501)AAG>AAA	p.K167K		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	167						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				GCACACTAAAGGACAGCAGTG	0.433													9	48	---	---	---	---	PASS	A	71201257	A	A	71201257	2	1	99	1	0	0	0	0	0	0	0	1	2265	991	35	3		3	C4orf35	4	71201257	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	602047	71201257	119953019	201	36832										
PROL1	58503	broad.mit.edu	37	chr4	71275312	71275312	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	attctatctcaactctttccAttggaatctattagacaacc	3	11	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:71275312A>T	uc003hfi.2	+	3	441	c.267A>T	c.(265-267)CCA>CCT	p.P89P		NM_021225	NP_067048	Q99935	PROL1_HUMAN	proline rich, lacrimal 1	89	Pro-rich.				regulation of sensory perception of pain	extracellular region	endopeptidase inhibitor activity			large_intestine(1)	1		all_hematologic(202;0.196)				AACTCTTTCCATTGGAATCTA	0.423													30	189	---	---	---	---	PASS	T	71275312	T	T	71275312	2	4	99	1	0	0	0	0	0	0	0	1	12554	204	8	5		5	PROL1	4	71275312	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	74055	71275312	119878964	202	36833										
ENAM	10117	broad.mit.edu	37	chr4	71510502	71510502	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgatgcagatgaacacagtcCatttgaattccttcaaagag	8	8	1	5			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:71510502C>A	uc011caw.1	+	9	3640	c.3359C>A	c.(3358-3360)CCA>CAA	p.P1120Q		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	1120					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			GAACACAGTCCATTTGAATTC	0.418													11	50	---	---	---	---	PASS	A	71510502	A	A	71510502	3	1	99	1	0	0	0	0	1	0	0	0	5112	594	21	3	3389	3	ENAM	4	71510502	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	235190	71510502	119643774	203	36834										
NPFFR2	10886	broad.mit.edu	37	chr4	73003832	73003832	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgtcgcagcttcagtctttaCgttagttgcaattgctgtag	10	8	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:73003832C>T	uc003hgg.2	+	3	808	c.710C>T	c.(709-711)ACG>ATG	p.T237M	NPFFR2_uc010iig.1_Missense_Mutation_p.T19M|NPFFR2_uc003hgi.2_Missense_Mutation_p.T138M|NPFFR2_uc003hgh.2_Missense_Mutation_p.T135M	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	237	Helical; Name=3; (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			TCAGTCTTTACGTTAGTTGCA	0.398													5	22	---	---	---	---	PASS	T	73003832	T	T	73003832	3	4	99	1	0	0	0	0	1	0	0	0	10578	536	19	1	726	1	NPFFR2	4	73003832	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1493330	73003832	118150444	204	36835										
NAA11	84779	broad.mit.edu	37	chr4	80246828	80246828	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agtgaggtgatatggccatgCgggacatcatctggttcctc	13	9	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:80246828C>A	uc003hlt.3	-	1	344	c.204G>T	c.(202-204)CCG>CCT	p.P68P		NM_032693	NP_116082	Q9BSU3	NAA11_HUMAN	alpha-N-acetyltransferase 1B	68	N-acetyltransferase.					cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2						TATGGCCATGCGGGACATCAT	0.582													8	77	---	---	---	---	PASS	A	80246828	A	A	80246828	2	1	99	1	0	0	0	0	0	0	0	1	10117	755	27	1		1	NAA11	4	80246828	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	7242996	80246828	110907448	205	36836										
SEC31A	22872	broad.mit.edu	37	chr4	83748545	83748545	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaaggtatttccaataggagCccctggggcaccttcaatat	10	10	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:83748545C>A	uc003hnf.2	-	24	3432	c.3268G>T	c.(3268-3270)GCT>TCT	p.A1090S	SEC31A_uc003hnd.2_Missense_Mutation_p.A259S|SEC31A_uc003hne.2_Missense_Mutation_p.A839S|SEC31A_uc011ccl.1_Missense_Mutation_p.A1036S|SEC31A_uc003hnl.2_Missense_Mutation_p.A937S|SEC31A_uc003hng.2_Missense_Mutation_p.A1075S|SEC31A_uc003hnh.2_Missense_Mutation_p.A1090S|SEC31A_uc003hni.2_Missense_Mutation_p.A976S|SEC31A_uc003hnj.2_Missense_Mutation_p.A1051S|SEC31A_uc011ccm.1_Missense_Mutation_p.A1070S|SEC31A_uc011ccn.1_Missense_Mutation_p.A1075S|SEC31A_uc003hnk.2_Missense_Mutation_p.A1051S|SEC31A_uc003hnm.2_Missense_Mutation_p.A1090S	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	1090	Interaction with PDCD6.|Pro-rich.				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				CCAATAGGAGCCCCTGGGGCA	0.443													53	124	---	---	---	---	PASS	A	83748545	A	A	83748545	3	1	99	1	0	0	0	0	1	0	0	0	13998	739	26	3	410	3	SEC31A	4	83748545	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3501717	83748545	107405731	206	36837										
GRID2	2895	broad.mit.edu	37	chr4	94377048	94377048	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaactggcttaatcccccacGattacaaatgggatcaatga	8	10	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:94377048G>T	uc011cdt.1	+	11	2039	c.1781G>T	c.(1780-1782)CGA>CTA	p.R594L	GRID2_uc011cdu.1_Missense_Mutation_p.R499L	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	594	Cytoplasmic (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	AATCCCCCACGATTACAAATG	0.443													22	53	---	---	---	---	PASS	T	94377048	T	T	94377048	3	4	99	1	0	0	0	0	1	0	0	0	6772	1058	37	2	1823	2	GRID2	4	94377048	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	10628503	94377048	96777228	207	36838										
ADH7	131	broad.mit.edu	37	chr4	100348953	100348953	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gccagttttaacagcagcgcCatatccagtggaaaacccac	8	13	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:100348953C>A	uc003huv.1	-	5	676	c.577G>T	c.(577-579)GGC>TGC	p.G193C		NM_000673	NP_000664	P40394	ADH7_HUMAN	class IV alcohol dehydrogenase, mu or sigma	193					ethanol oxidation|fatty acid omega-oxidation|response to bacterium|response to ethanol|xenobiotic metabolic process	cytosol|soluble fraction	alcohol dehydrogenase activity, zinc-dependent|aldehyde oxidase activity|ethanol binding|receptor antagonist activity|retinol binding|retinol dehydrogenase activity			lung(2)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(123;1.75e-08)	NADH(DB00157)	ACAGCAGCGCCATATCCAGTG	0.408													13	24	---	---	---	---	PASS	A	100348953	A	A	100348953	3	1	99	1	0	0	0	0	1	0	0	0	313	594	21	3	603	3	ADH7	4	100348953	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	5971905	100348953	90805323	208	36839										
EMCN	51705	broad.mit.edu	37	chr4	101439008	101439008	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggaataagagacaaaaatacCtgtgctgttactgctgcaaa	9	7	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:101439008C>A	uc003hvr.2	-	1	243	c.64G>T	c.(64-66)GGT>TGT	p.G22C	EMCN_uc011cel.1_Missense_Mutation_p.G22C|EMCN_uc011cem.1_Missense_Mutation_p.G22C	NM_016242	NP_057326	Q9ULC0	MUCEN_HUMAN	endomucin isoform 1	22	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(123;2.49e-08)		ACAAAAATACCTGTGCTGTTA	0.443													25	106	---	---	---	---	PASS	A	101439008	A	A	101439008	3	1	99	1	0	0	0	0	1	0	0	0	5086	695	24	3	765	3	EMCN	4	101439008	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1090055	101439008	89715268	209	36840										
BANK1	55024	broad.mit.edu	37	chr4	102751316	102751316	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atgggagatctcaactgaacAggaacctgaagactacatct	9	9	2	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:102751316A>C	uc003hvy.3	+	2	696	c.422A>C	c.(421-423)CAG>CCG	p.Q141P	BANK1_uc003hvx.3_Missense_Mutation_p.Q126P|BANK1_uc010ill.2_Intron|BANK1_uc003hvz.3_Missense_Mutation_p.Q111P	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	141	Interaction with ITPR2.				B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		TCAACTGAACAGGAACCTGAA	0.328													5	48	---	---	---	---	PASS	C	102751316	C	C	102751316	3	2	99	1	0	0	0	0	1	0	0	0	1309	188	7	5	428	5	BANK1	4	102751316	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1312308	102751316	88402960	210	36841										
NDST4	64579	broad.mit.edu	37	chr4	115997237	115997237	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcacatctttgacattcatcCttgttccctctttcccaaca	2	15	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:115997237C>A	uc003ibu.2	-	2	1635	c.956G>T	c.(955-957)AGG>ATG	p.R319M	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	319	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		GACATTCATCCTTGTTCCCTC	0.363													19	47	---	---	---	---	PASS	A	115997237	A	A	115997237	3	1	99	1	0	0	0	0	1	0	0	0	10258	681	24	3	1714	3	NDST4	4	115997237	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	13245921	115997237	75157039	211	36842										
KIAA1109	84162	broad.mit.edu	37	chr4	123175404	123175404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atctacctctgatgcctcctCctccagattcatgtagcatg	6	14	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:123175404C>A	uc003ieh.2	+	36	6022	c.5977C>A	c.(5977-5979)CCT>ACT	p.P1993T	KIAA1109_uc003iel.1_5'Flank|KIAA1109_uc003iek.2_Missense_Mutation_p.P612T	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1993	Poly-Pro.				regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GATGCCTCCTCCTCCAGATTC	0.373													15	68	---	---	---	---	PASS	A	123175404	A	A	123175404	3	1	99	1	0	0	0	0	1	0	0	0	8208	855	30	2	6119	2	KIAA1109	4	123175404	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	7178167	123175404	67978872	212	36843										
SCLT1	132320	broad.mit.edu	37	chr4	129809879	129809879	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcttctgcctgacttagacgCctttgaagtctgttggcttt	9	10	3	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:129809879C>T	uc003igp.2	-	20	2465	c.1959G>A	c.(1957-1959)AGG>AGA	p.R653R	SCLT1_uc003ign.2_Silent_p.R317R|SCLT1_uc003igo.2_Silent_p.R263R|SCLT1_uc003igq.2_Silent_p.R272R|SCLT1_uc010iob.1_Silent_p.R140R	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	653	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						GACTTAGACGCCTTTGAAGTC	0.388													4	74	---	---	---	---	PASS	T	129809879	T	T	129809879	2	4	99	1	0	0	0	0	0	0	0	1	13906	738	26	3		3	SCLT1	4	129809879	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	6634475	129809879	61344397	213	36844										
PCDH10	57575	broad.mit.edu	37	chr4	134076104	134076104	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggaagccgacatagtaagctCtaaggacagtggtcatggag	14	7	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:134076104C>A	uc003iha.2	+	3	3549	c.2723C>A	c.(2722-2724)TCT>TAT	p.S908Y		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	908	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		ATAGTAAGCTCTAAGGACAGT	0.423													11	15	---	---	---	---	PASS	A	134076104	A	A	134076104	3	1	99	1	0	0	0	0	1	0	0	0	11507	913	32	2	2793	2	PCDH10	4	134076104	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	4266225	134076104	57078172	214	36845										
TBC1D9	23158	broad.mit.edu	37	chr4	141590948	141590948	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aggagacgaggctgctgggtCgagagtacacctgtcaatac	14	9	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:141590948C>T	uc010ioj.2	-	8	1549	c.1277G>A	c.(1276-1278)CGA>CAA	p.R426Q		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	426						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				GCTGCTGGGTCGAGAGTACAC	0.522													5	16	---	---	---	---	PASS	T	141590948	T	T	141590948	3	4	99	1	0	0	0	0	1	0	0	0	15624	884	31	2	2579	2	TBC1D9	4	141590948	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	7514844	141590948	49563328	215	36846										
SMAD1	4086	broad.mit.edu	37	chr4	146436166	146436166	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	taagagagtagaaagccctgGtaagtgagttattttatgtt	11	3	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:146436166G>T	uc003ikc.2	+	2	816	c.400_splice	c.e2+1	p.V134_splice	SMAD1_uc003ikd.2_Splice_Site_p.V134_splice|SMAD1_uc010iov.2_Splice_Site_p.V134_splice|SMAD1_uc011cic.1_Splice_Site_p.V134_splice	NM_005900	NP_005891	Q15797	SMAD1_HUMAN	Sma- and Mad-related protein 1						BMP signaling pathway|embryonic pattern specification|primary miRNA processing|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|nuclear inner membrane	co-SMAD binding|I-SMAD binding|identical protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity			ovary(1)	1	all_hematologic(180;0.151)					GAAAGCCCTGGTAAGTGAGTT	0.388													16	104	---	---	---	---	PASS	T	146436166	T	T	146436166	5	4	99	1	0	0	0	0	0	0	1	0	14757	1275	44	3	403	3	SMAD1	4	146436166	Splice_Site	SNP	G	TCGA-43-5668-01A-01D-1632-08	4845218	146436166	44718110	216	36847										
LRBA	987	broad.mit.edu	37	chr4	151773088	151773088	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tccacgttgggactggccttCaactccagcctctcagtatc	8	15	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:151773088C>T	uc010ipj.2	-	23	4248	c.3774G>A	c.(3772-3774)TTG>TTA	p.L1258L	LRBA_uc003ilt.3_5'Flank|LRBA_uc003ilu.3_Silent_p.L1258L	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1258						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					GACTGGCCTTCAACTCCAGCC	0.413													6	26	---	---	---	---	PASS	T	151773088	T	T	151773088	2	4	99	1	0	0	0	0	0	0	0	1	8931	825	29	2		2	LRBA	4	151773088	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	5336922	151773088	39381188	217	36848										
DCHS2	54798	broad.mit.edu	37	chr4	155156647	155156647	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	actgcagtcgtcagttttctGgaaggctttgagcacactgg	12	9	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:155156647G>A	uc003inw.2	-	25	7792	c.7792C>T	c.(7792-7794)CAG>TAG	p.Q2598*		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2598					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TCAGTTTTCTGGAAGGCTTTG	0.433													16	79	---	---	---	---	PASS	A	155156647	A	A	155156647	4	1	99	1	0	0	0	0	0	1	0	0	4288	1357	47	3	962	3	DCHS2	4	155156647	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3383559	155156647	35997629	218	36849										
DDX60	55601	broad.mit.edu	37	chr4	169227871	169227871	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaaatacgcatactcggcatCctgtggaggaggaggtgaag	15	7	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:169227871C>A	uc003irp.2	-	5	557	c.265G>T	c.(265-267)GAT>TAT	p.D89Y		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	89							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		TACTCGGCATCCTGTGGAGGA	0.358													13	35	---	---	---	---	PASS	A	169227871	A	A	169227871	3	1	99	1	0	0	0	0	1	0	0	0	4378	869	30	2	5009	2	DDX60	4	169227871	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	14071224	169227871	21926405	219	36850										
SORBS2	8470	broad.mit.edu	37	chr4	186510909	186510909	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agctccagctcatcttcattCctgggagtatagttatacag	8	10	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:186510909C>T	uc003iyl.2	-	20	4023	c.3165G>A	c.(3163-3165)AGG>AGA	p.R1055R	SORBS2_uc003iyh.2_Silent_p.R779R|SORBS2_uc011ckw.1_Silent_p.R616R|SORBS2_uc003iyi.2_Silent_p.R686R|SORBS2_uc011ckx.1_Silent_p.R621R|SORBS2_uc003iyk.2_Silent_p.R599R|SORBS2_uc003iym.2_Silent_p.R1155R|SORBS2_uc003iyn.1_Silent_p.R646R|SORBS2_uc011cku.1_Silent_p.R447R|SORBS2_uc011ckv.1_Silent_p.R959R|SORBS2_uc003iyd.2_Silent_p.R754R|SORBS2_uc003iye.2_Silent_p.R628R|SORBS2_uc003iya.2_Silent_p.R575R|SORBS2_uc003iyb.2_Silent_p.R528R|SORBS2_uc003iyc.2_Silent_p.R508R|SORBS2_uc003iyg.2_Silent_p.R1169R|SORBS2_uc003iyf.2_Silent_p.R591R	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	1055	SH3 3.					actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		CATCTTCATTCCTGGGAGTAT	0.413													27	67	---	---	---	---	PASS	T	186510909	T	T	186510909	2	4	99	1	0	0	0	0	0	0	0	1	14928	854	30	2		2	SORBS2	4	186510909	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	17283038	186510909	4643367	220	36851										
TRIML2	205860	broad.mit.edu	37	chr4	189020189	189020189	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctttttcccagcatcttacCttgagcaatgccaaggtgcc	7	13	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:189020189C>A	uc003izl.2	-	4	507	c.471G>T	c.(469-471)AAG>AAT	p.K157N	TRIML2_uc003izj.1_Translation_Start_Site|TRIML2_uc003izk.1_Translation_Start_Site|TRIML2_uc011cle.1_Missense_Mutation_p.K207N|TRIML2_uc011clf.1_Missense_Mutation_p.K207N	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	157							ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		AGCATCTTACCTTGAGCAATG	0.453													10	31	---	---	---	---	PASS	A	189020189	A	A	189020189	3	1	99	1	0	0	0	0	1	0	0	0	16548	695	24	3	708	3	TRIML2	4	189020189	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2509280	189020189	2134087	221	36852										
FRG1	2483	broad.mit.edu	37	chr4	190883076	190883076	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gatggatttttgcatgagacGcttctggacaggtagctatt	12	6	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr4:190883076G>T	uc003izs.2	+	8	920	c.729G>T	c.(727-729)ACG>ACT	p.T243T		NM_004477	NP_004468	Q14331	FRG1_HUMAN	FSHD region gene 1	243	Bipartite nuclear localization signal (Potential).				rRNA processing	Cajal body|catalytic step 2 spliceosome|nuclear speck|nucleolus					0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;1.73e-30)|Epithelial(3;5.85e-30)|OV - Ovarian serous cystadenocarcinoma(60;5.56e-15)|BRCA - Breast invasive adenocarcinoma(30;9.14e-06)|Lung(3;3.54e-05)|STAD - Stomach adenocarcinoma(60;8.83e-05)|LUSC - Lung squamous cell carcinoma(40;0.000198)|GBM - Glioblastoma multiforme(59;0.00892)|READ - Rectum adenocarcinoma(43;0.161)		TGCATGAGACGCTTCTGGACA	0.328													24	74	---	---	---	---	PASS	T	190883076	T	T	190883076	2	4	99	1	0	0	0	0	0	0	0	1	6046	1074	38	1		1	FRG1	4	190883076	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	1862887	190883076	271200	222	36853										
CLPTM1L	81037	broad.mit.edu	37	chr5	1344486	1344486	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctttcaaatttggactccacAtcaaagtcttccacattcaa	3	12	4	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:1344486A>G	uc003jch.2	-	2	289	c.243T>C	c.(241-243)GAT>GAC	p.D81D	CLPTM1L_uc003jcg.2_5'Flank	NM_030782	NP_110409	Q96KA5	CLP1L_HUMAN	CLPTM1-like	81	Extracellular (Potential).				apoptosis	integral to membrane				breast(1)|central_nervous_system(1)	2	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		TGGACTCCACATCAAAGTCTT	0.473													5	59	---	---	---	---	PASS	G	1344486	G	G	1344486	2	3	99	1	0	0	0	0	0	0	0	1	3555	214	8	5		5	CLPTM1L	5	1344486	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08		1344486	179570774	223	36854										
SLC6A3	6531	broad.mit.edu	37	chr5	1403118	1403118	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atggaggatgtggcgatgacCcagcccagcgcgttggccca	15	12	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:1403118C>A	uc003jck.2	-	13	1807	c.1686G>T	c.(1684-1686)TGG>TGT	p.W562C		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	562	Helical; Name=12; (Potential).|Interaction with TGFB1I1.				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	TGGCGATGACCCAGCCCAGCG	0.612													11	43	---	---	---	---	PASS	A	1403118	A	A	1403118	3	1	99	1	0	0	0	0	1	0	0	0	14685	624	22	3	188	3	SLC6A3	5	1403118	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	58632	1403118	179512142	224	36855										
SLC6A3	6531	broad.mit.edu	37	chr5	1422081	1422081	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtgagctgccaccgcggaggCcccaggtcgtcgatgccatg	15	14	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:1422081C>G	uc003jck.2	-	5	823	c.702G>C	c.(700-702)GGG>GGC	p.G234G		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	234	Extracellular (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	ACCGCGGAGGCCCCAGGTCGT	0.657													71	68	---	---	---	---	PASS	G	1422081	G	G	1422081	2	3	99	1	0	0	0	0	0	0	0	1	14685	726	26	4		4	SLC6A3	5	1422081	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	18963	1422081	179493179	225	36856										
MARCH6	10299	broad.mit.edu	37	chr5	10411539	10411539	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agcatgctcgaaataacaacGctattcctgtggtgggagaa	11	8	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:10411539G>A	uc003jet.1	+	19	1969	c.1786G>A	c.(1786-1788)GCT>ACT	p.A596T	MARCH6_uc011cmu.1_Missense_Mutation_p.A548T|MARCH6_uc003jeu.1_Missense_Mutation_p.A294T|MARCH6_uc011cmv.1_Missense_Mutation_p.A491T	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	596	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						AAATAACAACGCTATTCCTGT	0.458													27	41	---	---	---	---	PASS	A	10411539	A	A	10411539	3	1	99	1	0	0	0	0	1	0	0	0	9305	1087	38	1	1860	1	MARCH6	5	10411539	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	8989458	10411539	170503721	226	36857										
MYO10	4651	broad.mit.edu	37	chr5	16769217	16769217	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acctgtgccccaccagcagtGataaattctatgttcccaag	7	13	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:16769217G>A	uc003jft.3	-	10	1494	c.1026C>T	c.(1024-1026)ATC>ATT	p.I342I	MYO10_uc010itx.2_5'Flank	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	342	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CACCAGCAGTGATAAATTCTA	0.493													4	16	---	---	---	---	PASS	A	16769217	A	A	16769217	2	1	99	1	0	0	0	0	0	0	0	1	10062	1280	45	2		2	MYO10	5	16769217	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	6357678	16769217	164146043	227	36858										
CDH10	1008	broad.mit.edu	37	chr5	24537582	24537582	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atgaattttgatcacaaactCtgactctggctctactggcc	7	11	4	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:24537582C>T	uc003jgr.1	-	3	765	c.433G>A	c.(433-435)GAG>AAG	p.E145K	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	145	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ATCACAAACTCTGACTCTGGC	0.423										HNSCC(23;0.051)			37	72	---	---	---	---	PASS	T	24537582	T	T	24537582	3	4	99	1	0	0	0	0	1	0	0	0	3096	922	32	2	1973	2	CDH10	5	24537582	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	7768365	24537582	156377678	228	36859										
RNASEN	29102	broad.mit.edu	37	chr5	31466304	31466304	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cagacctccctctgtgccagCttctgtttgtcagtttgttt	8	12	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:31466304C>A	uc003jhg.2	-	18	2810	c.2451G>T	c.(2449-2451)AAG>AAT	p.K817N	RNASEN_uc003jhh.2_Missense_Mutation_p.K780N|RNASEN_uc003jhi.2_Missense_Mutation_p.K780N	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	817	Necessary for interaction with DGCR8 and pri-miRNA processing activity.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						TCTGTGCCAGCTTCTGTTTGT	0.418													26	45	---	---	---	---	PASS	A	31466304	A	A	31466304	3	1	99	1	0	0	0	0	1	0	0	0	13417	796	28	3	1745	3	RNASEN	5	31466304	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	6928722	31466304	149448956	229	36860										
NUP155	9631	broad.mit.edu	37	chr5	37348656	37348656	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggcattctgtgacacagaggCaactctgctcattccttgtc	9	12	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:37348656C>A	uc003jku.1	-	9	1064	c.946G>T	c.(946-948)GCC>TCC	p.A316S	NUP155_uc003jkt.1_Missense_Mutation_p.A257S|NUP155_uc010iuz.1_Missense_Mutation_p.A316S	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	316					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GACACAGAGGCAACTCTGCTC	0.338													10	69	---	---	---	---	PASS	A	37348656	A	A	37348656	3	1	99	1	0	0	0	0	1	0	0	0	10756	710	25	3	3337	3	NUP155	5	37348656	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	5882352	37348656	143566604	230	36861										
C6	729	broad.mit.edu	37	chr5	41181519	41181519	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aattatggttgatattttcaCttctctttgaggaataaaaa	6	4	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:41181519C>A	uc003jmk.2	-	7	1079	c.869G>T	c.(868-870)AGT>ATT	p.S290I	C6_uc003jml.1_Missense_Mutation_p.S290I	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	290	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				GATATTTTCACTTCTCTTTGA	0.358													22	84	---	---	---	---	PASS	A	41181519	A	A	41181519	3	1	99	1	0	0	0	0	1	0	0	0	2315	565	20	3	1983	3	C6	5	41181519	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3832863	41181519	139733741	231	36862										
ISL1	3670	broad.mit.edu	37	chr5	50683438	50683438	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttccgctgtgtggcctgcagCcgccagctcatccctgggga	13	15	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:50683438C>A	uc003jor.2	+	3	881	c.333C>A	c.(331-333)AGC>AGA	p.S111R		NM_002202	NP_002193	P61371	ISL1_HUMAN	islet-1	111	LIM zinc-binding 2.				generation of precursor metabolites and energy|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3		Lung NSC(810;0.000845)|Breast(144;0.0411)				TGGCCTGCAGCCGCCAGCTCA	0.612													13	35	---	---	---	---	PASS	A	50683438	A	A	50683438	3	1	99	1	0	0	0	0	1	0	0	0	7856	738	26	3	343	3	ISL1	5	50683438	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	9501919	50683438	130231822	232	36863										
ITGA1	3672	broad.mit.edu	37	chr5	52206169	52206169	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttaatgacatcgtgataggaGctccgctggaagatgatcac	11	8	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:52206169G>C	uc003jou.2	+	14	1829	c.1777G>C	c.(1777-1779)GCT>CCT	p.A593P	ITGA1_uc003jov.2_RNA|ITGA1_uc003jow.2_Missense_Mutation_p.A124P	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	593	Extracellular (Potential).|FG-GAP 6.				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				CGTGATAGGAGCTCCGCTGGA	0.428													34	23	---	---	---	---	PASS	C	52206169	C	C	52206169	3	2	99	1	0	0	0	0	1	0	0	0	7872	971	34	4	1831	4	ITGA1	5	52206169	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1522731	52206169	128709091	233	36864										
ITGA2	3673	broad.mit.edu	37	chr5	52377486	52377486	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aggacaaacatcttcttctgTatctttcaaaagtgaaaatt	5	7	5	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:52377486T>A	uc003joy.2	+	26	3247	c.3104T>A	c.(3103-3105)GTA>GAA	p.V1035E	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Missense_Mutation_p.V959E|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	1035	Extracellular (Potential).				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				TCTTCTTCTGTATCTTTCAAA	0.393													7	38	---	---	---	---	PASS	A	52377486	A	A	52377486	3	1	99	1	0	0	0	0	1	0	0	0	7875	1638	57	5	3206	5	ITGA2	5	52377486	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	171317	52377486	128537774	234	36865										
CD180	4064	broad.mit.edu	37	chr5	66479329	66479329	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtaagtgagattcagaacctGaaggaaatggaggttttgga	14	3	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:66479329G>A	uc003juy.2	-	3	1490	c.1342C>T	c.(1342-1344)CAG>TAG	p.Q448*		NM_005582	NP_005573	Q99467	CD180_HUMAN	CD180 molecule precursor	448	Extracellular (Potential).|LRR 15.				inflammatory response|innate immune response	integral to membrane|plasma membrane	receptor activity			ovary(1)	1		Lung NSC(167;4.94e-05)|Prostate(74;0.00601)|Ovarian(174;0.0654)|Breast(144;0.198)|Colorectal(97;0.234)		Lung(70;0.0046)		TTCAGAACCTGAAGGAAATGG	0.448													30	38	---	---	---	---	PASS	A	66479329	A	A	66479329	4	1	99	1	0	0	0	0	0	1	0	0	2972	1299	45	2	647	2	CD180	5	66479329	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	14101843	66479329	114435931	235	36866										
CCNB1	891	broad.mit.edu	37	chr5	68470119	68470119	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaatacctactgggtcgggaAgtcactggaaacatgagagc	12	8	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:68470119A>C	uc003jvm.2	+	5	765	c.588A>C	c.(586-588)GAA>GAC	p.E196D	CCNB1_uc011crd.1_Missense_Mutation_p.E196D|CCNB1_uc010ixb.2_Missense_Mutation_p.E196D	NM_031966	NP_114172	P14635	CCNB1_HUMAN	cyclin B1	196					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitotic cell cycle spindle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|mitotic spindle stabilization|positive regulation of attachment of spindle microtubules to kinetochore|positive regulation of mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	condensed nuclear chromosome outer kinetochore|cytosol|microtubule organizing center|nucleoplasm|spindle pole					0		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		TGGGTCGGGAAGTCACTGGAA	0.418													31	41	---	---	---	---	PASS	C	68470119	C	C	68470119	3	2	99	1	0	0	0	0	1	0	0	0	2911	69	3	5	606	5	CCNB1	5	68470119	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1990790	68470119	112445141	236	36867										
NUDT12	83594	broad.mit.edu	37	chr5	102895085	102895085	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccacctttagcagtagctagTaaattagctatatgcttata	6	8	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:102895085T>A	uc003koi.2	-	3	384	c.291A>T	c.(289-291)TTA>TTT	p.L97F	NUDT12_uc011cvb.1_Missense_Mutation_p.L79F	NM_031438	NP_113626	Q9BQG2	NUD12_HUMAN	nudix-type motif 12	97	ANK 3.					nucleus|peroxisome	metal ion binding|NAD+ diphosphatase activity				0		all_cancers(142;6.38e-08)|all_epithelial(76;1.99e-10)|Prostate(80;0.0138)|Lung NSC(167;0.0212)|Colorectal(57;0.0247)|all_lung(232;0.0283)|Ovarian(225;0.0423)		Epithelial(69;9.3e-13)|COAD - Colon adenocarcinoma(37;0.0221)		CAGTAGCTAGTAAATTAGCTA	0.383													21	28	---	---	---	---	PASS	A	102895085	A	A	102895085	3	1	99	1	0	0	0	0	1	0	0	0	10728	1635	57	5	1117	5	NUDT12	5	102895085	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	34424966	102895085	78020175	237	36868										
KIF3A	11127	broad.mit.edu	37	chr5	132034944	132034944	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagactgacgcagactctccTcagtataggcaagatacacg	9	11	2	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:132034944T>C	uc003kxo.2	-	16	2124	c.1970A>G	c.(1969-1971)GAG>GGG	p.E657G	KIF3A_uc003kxm.2_Missense_Mutation_p.E239G|KIF3A_uc003kxn.2_Missense_Mutation_p.E642G|KIF3A_uc011cxf.1_Missense_Mutation_p.E684G|KIF3A_uc003kxp.2_Missense_Mutation_p.E660G	NM_007054	NP_008985	Q9Y496	KIF3A_HUMAN	kinesin family member 3A	657					blood coagulation|organelle organization|plus-end-directed vesicle transport along microtubule	centrosome|cytosol|kinesin II complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|protein binding			pancreas(1)	1		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CAGACTCTCCTCAGTATAGGC	0.433													44	61	---	---	---	---	PASS	C	132034944	C	C	132034944	3	2	99	1	0	0	0	0	1	0	0	0	8300	1551	54	5	137	5	KIF3A	5	132034944	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	29139859	132034944	48880316	238	36869										
H2AFY	9555	broad.mit.edu	37	chr5	134724704	134724704	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcttgatgtaccgcagcatcCgccccacgggaaagatgact	10	13	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:134724704C>A	uc003lam.1	-	2	290	c.80G>T	c.(79-81)CGG>CTG	p.R27L	H2AFY_uc003lao.1_Missense_Mutation_p.R27L|H2AFY_uc003lan.1_Missense_Mutation_p.R27L|H2AFY_uc003lap.1_RNA|H2AFY_uc003laq.1_RNA|H2AFY_uc003lar.1_RNA|H2AFY_uc011cxz.1_Missense_Mutation_p.R27L|H2AFY_uc003las.1_Missense_Mutation_p.R27L|H2AFY_uc003lat.1_Missense_Mutation_p.R27L	NM_138610	NP_613258	O75367	H2AY_HUMAN	H2A histone family, member Y isoform 3	27	Histone H2A.				chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CCGCAGCATCCGCCCCACGGG	0.612													21	25	---	---	---	---	PASS	A	134724704	A	A	134724704	3	1	99	1	0	0	0	0	1	0	0	0	6929	652	23	1	1165	1	H2AFY	5	134724704	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2689760	134724704	46190556	239	36870										
SLC23A1	9963	broad.mit.edu	37	chr5	138716052	138716052	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccaatcaccacctccaccacGctggacaccatgattgcacc	5	19	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:138716052G>T	uc003leh.2	-	6	589	c.492C>A	c.(490-492)AGC>AGA	p.S164R	SLC23A1_uc003leg.2_Missense_Mutation_p.S168R	NM_005847	NP_005838	Q9UHI7	S23A1_HUMAN	solute carrier family 23 (nucleobase	164	Helical; (Potential).				brain development|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|response to toxin|transepithelial L-ascorbic acid transport|water-soluble vitamin metabolic process	apical plasma membrane|cytoplasm|integral to plasma membrane|intracellular organelle|membrane fraction	dehydroascorbic acid transporter activity|L-ascorbate:sodium symporter activity|nucleobase transmembrane transporter activity|protein binding|sodium-dependent L-ascorbate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)		Vitamin C(DB00126)	CCTCCACCACGCTGGACACCA	0.577													3	7	---	---	---	---	PASS	T	138716052	T	T	138716052	3	4	99	1	0	0	0	0	1	0	0	0	14462	1078	38	1	1340	1	SLC23A1	5	138716052	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3991348	138716052	42199208	240	36871										
PCDHB7	56129	broad.mit.edu	37	chr5	140554588	140554588	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gccccggtgggtcgctgctcGgtgcctgagggcccctttcc	15	16	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:140554588G>T	uc003lit.2	+	1	2346	c.2172G>T	c.(2170-2172)TCG>TCT	p.S724S	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	724	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTCGCTGCTCGGTGCCTGAGG	0.667													39	55	---	---	---	---	PASS	T	140554588	T	T	140554588	2	4	99	1	0	0	0	0	0	0	0	1	11547	1103	39	1		1	PCDHB7	5	140554588	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	1838536	140554588	40360672	241	36872										
PCDHB14	56122	broad.mit.edu	37	chr5	140604159	140604159	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gagaattccagagaatgcctCagagaccctagtagctcttt	9	10	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:140604159C>A	uc003ljb.2	+	1	1082	c.1082C>A	c.(1081-1083)TCA>TAA	p.S361*	PCDHB14_uc011dal.1_Nonsense_Mutation_p.S208*	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	361	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGAATGCCTCAGAGACCCTA	0.408													16	35	---	---	---	---	PASS	A	140604159	A	A	140604159	4	1	99	1	0	0	0	0	0	1	0	0	11539	838	29	2	1084	2	PCDHB14	5	140604159	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	49571	140604159	40311101	242	36873										
PCDHGB1	56104	broad.mit.edu	37	chr5	140730146	140730146	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cactagaattcgaaacggtcGctgaaaacccaatgaatgtt	8	9	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:140730146G>T	uc003ljo.1	+	1	319	c.319G>T	c.(319-321)GCT>TCT	p.A107S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Missense_Mutation_p.A107S	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	107	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAAACGGTCGCTGAAAACCC	0.418													14	23	---	---	---	---	PASS	T	140730146	T	T	140730146	3	4	99	1	0	0	0	0	1	0	0	0	11562	1087	38	1	321	1	PCDHGB1	5	140730146	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	125987	140730146	40185114	243	36874										
PCDHGA12	26025	broad.mit.edu	37	chr5	140811264	140811264	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gttggaccacgaggagtcagGattctaccagatggaagtgc	14	8	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:140811264G>T	uc003lkt.1	+	1	1107	c.938G>T	c.(937-939)GGA>GTA	p.G313V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.G313V	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	313	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGGAGTCAGGATTCTACCAG	0.483													22	53	---	---	---	---	PASS	T	140811264	T	T	140811264	3	4	99	1	0	0	0	0	1	0	0	0	11553	1174	41	2	940	2	PCDHGA12	5	140811264	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	81118	140811264	40103996	244	36875										
ADRB2	154	broad.mit.edu	37	chr5	148206670	148206670	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtggtgccctttggggccgcCcatattcttatgaaaatgtg	12	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:148206670C>A	uc003lpr.1	+	1	515	c.276C>A	c.(274-276)GCC>GCA	p.A92A	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	92	Helical; Name=2.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	TTGGGGCCGCCCATATTCTTA	0.542													13	22	---	---	---	---	PASS	A	148206670	A	A	148206670	2	1	99	1	0	0	0	0	0	0	0	1	341	610	22	3		3	ADRB2	5	148206670	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	7395406	148206670	32708590	245	36876										
SLC36A2	153201	broad.mit.edu	37	chr5	150722495	150722495	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccaggcgttggggttggcttCtagtccatgcatcaccgtgt	13	11	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:150722495C>G	uc003lty.2	-	4	524	c.394G>C	c.(394-396)GAA>CAA	p.E132Q	GM2A_uc011dcs.1_Intron|SLC36A2_uc003ltz.2_RNA|SLC36A2_uc003lua.2_5'UTR|SLC36A2_uc010jhv.2_Missense_Mutation_p.E132Q|SLC36A2_uc011dct.1_Missense_Mutation_p.E132Q	NM_181776	NP_861441	Q495M3	S36A2_HUMAN	solute carrier family 36, member 2	132	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	cytoplasm|integral to membrane|plasma membrane	glycine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGGTTGGCTTCTAGTCCATGC	0.512													3	53	---	---	---	---	PASS	G	150722495	G	G	150722495	3	3	99	1	0	0	0	0	1	0	0	0	14594	922	32	2	1085	2	SLC36A2	5	150722495	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2515825	150722495	30192765	246	36877										
NMUR2	56923	broad.mit.edu	37	chr5	151784185	151784185	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gacgatgccgaggatcctgaGggcccggcgccgggtgctct	17	13	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:151784185G>T	uc003luv.2	-	1	656	c.490C>A	c.(490-492)CTC>ATC	p.L164I		NM_020167	NP_064552	Q9GZQ4	NMUR2_HUMAN	neuromedin U receptor 2	164	Cytoplasmic (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|arachidonic acid secretion|calcium ion transport|central nervous system development|elevation of cytosolic calcium ion concentration|regulation of smooth muscle contraction	integral to membrane|plasma membrane	GTP binding|intracellular calcium activated chloride channel activity|neuromedin U receptor activity			ovary(3)|skin(2)|lung(1)|breast(1)|pancreas(1)	8		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)	Kidney(363;0.000106)|KIRC - Kidney renal clear cell carcinoma(527;0.000672)			AGGATCCTGAGGGCCCGGCGC	0.632													9	22	---	---	---	---	PASS	T	151784185	T	T	151784185	3	4	99	1	0	0	0	0	1	0	0	0	10507	1000	35	3	773	3	NMUR2	5	151784185	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1061690	151784185	29131075	247	36878										
KIF4B	285643	broad.mit.edu	37	chr5	154394676	154394676	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acagcccagatgttggagagGatcattttgacagagcaagt	12	7	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:154394676G>T	uc010jih.1	+	1	1417	c.1257G>T	c.(1255-1257)AGG>AGT	p.R419S		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	419	Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TGTTGGAGAGGATCATTTTGA	0.473													19	49	---	---	---	---	PASS	T	154394676	T	T	154394676	3	4	99	1	0	0	0	0	1	0	0	0	8304	1165	41	2	1259	2	KIF4B	5	154394676	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2610491	154394676	26520584	248	36879										
KIF4B	285643	broad.mit.edu	37	chr5	154395465	154395465	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaagaacgagaccgtaagagGcaatatgagctgctcaaact	10	8	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:154395465G>T	uc010jih.1	+	1	2206	c.2046G>T	c.(2044-2046)AGG>AGT	p.R682S		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	682	Interaction with PRC1 (By similarity).|Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			ACCGTAAGAGGCAATATGAGC	0.423													17	40	---	---	---	---	PASS	T	154395465	T	T	154395465	3	4	99	1	0	0	0	0	1	0	0	0	8304	1194	42	3	2048	3	KIF4B	5	154395465	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	789	154395465	26519795	249	36880										
FABP6	2172	broad.mit.edu	37	chr5	159661868	159661868	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gggaagctggtggtgaatttCcccaactatcaccagacctc	10	12	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:159661868C>T	uc003lya.1	+	3	413	c.285C>T	c.(283-285)TTC>TTT	p.F95F	FABP6_uc003lxx.1_Silent_p.F144F|FABP6_uc003lxz.1_Silent_p.F144F	NM_001445	NP_001436	P51161	FABP6_HUMAN	gastrotropin isoform 2	95					bile acid and bile salt transport|bile acid metabolic process|negative regulation of cell proliferation	cytosol	transporter activity				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGGTGAATTTCCCCAACTATC	0.443													10	22	---	---	---	---	PASS	T	159661868	T	T	159661868	2	4	99	1	0	0	0	0	0	0	0	1	5361	854	30	2		2	FABP6	5	159661868	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	5266403	159661868	21253392	250	36881										
SLIT3	6586	broad.mit.edu	37	chr5	168093550	168093550	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	actggaagacgtatttccgcCgcttgctgcgggtgggctgg	16	10	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:168093550C>T	uc003mab.2	-	36	4901	c.4481G>A	c.(4480-4482)CGG>CAG	p.R1494Q	SLIT3_uc010jjg.2_Missense_Mutation_p.R1501Q	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	1494	CTCK.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GTATTTCCGCCGCTTGCTGCG	0.607													11	7	---	---	---	---	PASS	T	168093550	T	T	168093550	3	4	99	1	0	0	0	0	1	0	0	0	14741	652	23	1	94	1	SLIT3	5	168093550	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	8431682	168093550	12821710	251	36882										
SLIT3	6586	broad.mit.edu	37	chr5	168671733	168671733	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctctagctgcttcaggtccTggaaggcgcctctctcgatg	12	13	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:168671733T>A	uc003mab.2	-	3	737	c.317A>T	c.(316-318)CAG>CTG	p.Q106L	SLIT3_uc010jjg.2_Missense_Mutation_p.Q106L|SLIT3_uc010jji.2_Missense_Mutation_p.Q106L	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	106	LRR 2.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTTCAGGTCCTGGAAGGCGCC	0.423													12	26	---	---	---	---	PASS	A	168671733	A	A	168671733	3	1	99	1	0	0	0	0	1	0	0	0	14741	1580	55	5	4390	5	SLIT3	5	168671733	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	578183	168671733	12243527	252	36883										
CCDC99	54908	broad.mit.edu	37	chr5	169023621	169023621	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caaactgaatttgagcagcaGgaacggttgcttgccatgtt	11	8	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:169023621G>T	uc003mae.3	+	8	1227	c.948G>T	c.(946-948)CAG>CAT	p.Q316H	CCDC99_uc010jjj.2_Missense_Mutation_p.Q245H|CCDC99_uc011deq.1_Missense_Mutation_p.Q133H|CCDC99_uc010jjk.2_Missense_Mutation_p.Q42H	NM_017785	NP_060255	Q96EA4	SPDLY_HUMAN	coiled-coil domain containing 99	316	Potential.				cell division|establishment of mitotic spindle orientation|mitotic metaphase plate congression|mitotic prometaphase|protein localization to kinetochore	condensed chromosome outer kinetochore|cytosol|microtubule organizing center|nucleus|spindle pole	kinetochore binding|protein binding			ovary(1)|liver(1)	2	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TTGAGCAGCAGGAACGGTTGC	0.348													20	43	---	---	---	---	PASS	T	169023621	T	T	169023621	3	4	99	1	0	0	0	0	1	0	0	0	2876	991	35	3	974	3	CCDC99	5	169023621	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	351888	169023621	11891639	253	36884										
MAML1	9794	broad.mit.edu	37	chr5	179192629	179192629	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggaggcagtaaccccagtgaGtcatttcctctgagcctgaa	11	11	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr5:179192629G>C	uc003mkm.2	+	2	881	c.618G>C	c.(616-618)GAG>GAC	p.E206D	MAML1_uc003mkn.1_Missense_Mutation_p.E206D	NM_014757	NP_055572	Q92585	MAML1_HUMAN	mastermind-like 1	206					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	peptide antigen binding|protein kinase binding|transcription coactivator activity			lung(4)|ovary(2)	6	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACCCCAGTGAGTCATTTCCTC	0.527													8	14	---	---	---	---	PASS	C	179192629	C	C	179192629	3	2	99	1	0	0	0	0	1	0	0	0	9205	1020	36	4	624	4	MAML1	5	179192629	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	10169008	179192629	1722631	254	36885										
DSP	1832	broad.mit.edu	37	chr6	7580280	7580280	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgtggctctgagataatgcAgaagaagcagcatctggaga	13	7	2	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:7580280A>T	uc003mxp.1	+	23	4136	c.3857A>T	c.(3856-3858)CAG>CTG	p.Q1286L	DSP_uc003mxq.1_Intron	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1286	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GAGATAATGCAGAAGAAGCAG	0.552													13	40	---	---	---	---	PASS	T	7580280	T	T	7580280	3	4	99	1	0	0	0	0	1	0	0	0	4781	188	7	5	3947	5	DSP	6	7580280	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08		7580280	163534787	255	36886										
HIST1H2BF	8343	broad.mit.edu	37	chr6	26200040	26200040	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttcccgcctggcgcattacaAcaagcgctccaccatcacct	6	18	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:26200040A>G	uc003ngx.2	+	1	254	c.254A>G	c.(253-255)AAC>AGC	p.N85S	HIST1H3D_uc003ngv.2_5'Flank|HIST1H2AD_uc003ngw.2_5'Flank	NM_003522	NP_003513	P62807	H2B1C_HUMAN	histone cluster 1, H2bf	85					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0		all_hematologic(11;0.196)				GCGCATTACAACAAGCGCTCC	0.627													17	92	---	---	---	---	PASS	G	26200040	G	G	26200040	3	3	99	1	0	0	0	0	1	0	0	0	7145	43	2	5	256	5	HIST1H2BF	6	26200040	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	18619760	26200040	144915027	256	36887										
BTN2A1	11120	broad.mit.edu	37	chr6	26468327	26468327	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cagccttgtgtcctaggccgGgagagcttcgcttcagggaa	14	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:26468327G>T	uc003nib.1	+	8	1346	c.1134G>T	c.(1132-1134)CGG>CGT	p.R378R	BTN2A1_uc003nic.1_3'UTR|BTN2A1_uc003nid.1_Silent_p.R226R|BTN2A1_uc011dko.1_Silent_p.R317R|BTN2A1_uc010jqk.1_Silent_p.R138R	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1	378	Cytoplasmic (Potential).|B30.2/SPRY.				lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						TCCTAGGCCGGGAGAGCTTCG	0.567													20	52	---	---	---	---	PASS	T	26468327	T	T	26468327	2	4	99	1	0	0	0	0	0	0	0	1	1560	1219	43	3		3	BTN2A1	6	26468327	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	268287	26468327	144646740	257	36888										
NKAPL	222698	broad.mit.edu	37	chr6	28227293	28227293	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgctctcactcccgcggccgTgagggcctcaggcctccttg	12	18	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:28227293T>C	uc003nkt.2	+	1	196	c.144T>C	c.(142-144)CGT>CGC	p.R48R	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	48										upper_aerodigestive_tract(1)|ovary(1)	2						CCCGCGGCCGTGAGGGCCTCA	0.652													14	44	---	---	---	---	PASS	C	28227293	C	C	28227293	2	2	99	1	0	0	0	0	0	0	0	1	10440	1683	59	5		5	NKAPL	6	28227293	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	1758966	28227293	142887774	258	36889										
OR12D2	26529	broad.mit.edu	37	chr6	29365234	29365234	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agttattcttttctatgcacCtgttcttttcacctatatcc	3	11	4	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:29365234C>A	uc003nmf.3	+	1	819	c.758C>A	c.(757-759)CCT>CAT	p.P253H		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTCTATGCACCTGTTCTTTTC	0.453													15	134	---	---	---	---	PASS	A	29365234	A	A	29365234	3	1	99	1	0	0	0	0	1	0	0	0	10931	681	24	3	760	3	OR12D2	6	29365234	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1137941	29365234	141749833	259	36890										
TRIM10	10107	broad.mit.edu	37	chr6	30122178	30122178	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gggttgtctggtgagttctgCcatttgtaggagaactgagc	15	6	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:30122178C>A	uc003npo.3	-	7	1090	c.1014G>T	c.(1012-1014)TGG>TGT	p.W338C	TRIM10_uc003npn.2_Missense_Mutation_p.W338C	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	338	B30.2/SPRY.					cytoplasm	zinc ion binding				0						GTGAGTTCTGCCATTTGTAGG	0.567													7	33	---	---	---	---	PASS	A	30122178	A	A	30122178	3	1	99	1	0	0	0	0	1	0	0	0	16483	740	26	3	523	3	TRIM10	6	30122178	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	756944	30122178	140992889	260	36891										
KIAA1949	170954	broad.mit.edu	37	chr6	30653372	30653372	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctccctcggacttagtctctCttctcttgactctcttccct	4	17	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:30653372C>A	uc003nra.2	-	2	655	c.424G>T	c.(424-426)GAG>TAG	p.E142*	KIAA1949_uc003nrb.3_Nonsense_Mutation_p.E142*	NM_001134870	NP_001128342	Q6NYC8	PHTNS_HUMAN	phostensin	142						cytoplasm|cytoskeleton	actin binding				0						CTTAGTCTCTCTTCTCTTGAC	0.632													20	123	---	---	---	---	PASS	A	30653372	A	A	30653372	4	1	99	1	0	0	0	0	0	1	0	0	8263	922	32	2	1429	2	KIAA1949	6	30653372	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	531194	30653372	140461695	261	36892										
DDR1	780	broad.mit.edu	37	chr6	30865331	30865331	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tggaggacaaggcagccgagGgggcccctggggacgggcag	21	10	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:30865331G>C	uc003nrr.2	+	16	2432	c.2173G>C	c.(2173-2175)GGG>CGG	p.G725R	DDR1_uc010jse.2_Missense_Mutation_p.G688R|DDR1_uc003nrq.2_Missense_Mutation_p.G688R|DDR1_uc003nrs.2_Missense_Mutation_p.G725R|DDR1_uc003nrt.2_Missense_Mutation_p.G688R|DDR1_uc011dms.1_Missense_Mutation_p.G706R|DDR1_uc003nru.2_Missense_Mutation_p.G688R|DDR1_uc003nrv.2_Missense_Mutation_p.G731R|DDR1_uc003nrw.1_Missense_Mutation_p.G460R|DDR1_uc003nrz.1_Missense_Mutation_p.G50R	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	725	Cytoplasmic (Potential).|Protein kinase.				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	GGCAGCCGAGGGGGCCCCTGG	0.642													9	19	---	---	---	---	PASS	C	30865331	C	C	30865331	3	2	99	1	0	0	0	0	1	0	0	0	4336	1232	43	4	2245	4	DDR1	6	30865331	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	211959	30865331	140249736	262	36893										
VARS2	57176	broad.mit.edu	37	chr6	30888132	30888132	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcttcaccggtttgtggcccGggaaaagataatgtctgtgc	12	9	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:30888132G>T	uc003nsc.1	+	13	1948	c.1316G>T	c.(1315-1317)CGG>CTG	p.R439L	VARS2_uc011dmx.1_Missense_Mutation_p.R439L|VARS2_uc011dmy.1_Missense_Mutation_p.R299L|VARS2_uc011dmz.1_Missense_Mutation_p.R469L|VARS2_uc011dna.1_Missense_Mutation_p.R437L|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_5'UTR|VARS2_uc010jsg.1_5'UTR|VARS2_uc010jsh.1_5'Flank	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	439					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						TTTGTGGCCCGGGAAAAGATA	0.517													11	23	---	---	---	---	PASS	T	30888132	T	T	30888132	3	4	99	1	0	0	0	0	1	0	0	0	17121	1116	39	1	1460	1	VARS2	6	30888132	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	22801	30888132	140226935	263	36894										
CCHCR1	54535	broad.mit.edu	37	chr6	31110428	31110428	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaggttgtctccttgacaaaCagcttcctctttggaaatgg	9	9	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:31110428C>A	uc003nsr.3	-	18	2413	c.2290G>T	c.(2290-2292)GTT>TTT	p.V764F	CCHCR1_uc011dne.1_Missense_Mutation_p.V750F|CCHCR1_uc003nsq.3_Missense_Mutation_p.V817F|CCHCR1_uc003nsp.3_Missense_Mutation_p.V853F	NM_019052	NP_061925	Q8TD31	CCHCR_HUMAN	coiled-coil alpha-helical rod protein 1 isoform	764					cell differentiation|multicellular organismal development	cytoplasm|nucleus	protein binding			skin(1)	1						CCTTGACAAACAGCTTCCTCT	0.557													5	43	---	---	---	---	PASS	A	31110428	A	A	31110428	3	1	99	1	0	0	0	0	1	0	0	0	2877	478	17	3	62	3	CCHCR1	6	31110428	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	222296	31110428	140004639	264	36895										
LTB	4050	broad.mit.edu	37	chr6	31548597	31548597	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctccggagctgcaccaggccGccgaaccccacgctcgtgta	11	18	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:31548597G>C	uc003nuk.2	-	4	632	c.624C>G	c.(622-624)GGC>GGG	p.G208G	LTB_uc003nul.2_3'UTR	NM_002341	NP_002332	Q06643	TNFC_HUMAN	lymphotoxin-beta isoform a	208	Extracellular (Potential).				cell-cell signaling|immune response|positive regulation of interleukin-12 biosynthetic process|signal transduction	extracellular space|integral to membrane	cytokine activity|tumor necrosis factor receptor binding				0					Infliximab(DB00065)|Simvastatin(DB00641)	GCACCAGGCCGCCGAACCCCA	0.657													5	10	---	---	---	---	PASS	C	31548597	C	C	31548597	2	2	99	1	0	0	0	0	0	0	0	1	9070	1074	38	4		4	LTB	6	31548597	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	438169	31548597	139566470	265	36896										
EGFL8	80864	broad.mit.edu	37	chr6	32134487	32134487	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgtgttccaggaccatgtaCcgcgttatgtggcgggaggt	15	9	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:32134487C>T	uc003oab.1	+	4	292	c.234C>T	c.(232-234)TAC>TAT	p.Y78Y	PPT2_uc003nzy.1_RNA|EGFL8_uc003oac.1_Silent_p.Y78Y	NM_030652	NP_085155	Q99944	EGFL8_HUMAN	NG3 protein precursor	78	EMI.					extracellular region|integral to membrane	calcium ion binding				0						GGACCATGTACCGCGTTATGT	0.637													12	28	---	---	---	---	PASS	T	32134487	T	T	32134487	2	4	99	1	0	0	0	0	0	0	0	1	4965	518	18	3		3	EGFL8	6	32134487	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	585890	32134487	138980580	266	36897										
RPS10	6204	broad.mit.edu	37	chr6	34386164	34386164	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acaaactggaattcggttgcTgacccagccccagcctcggc	10	15	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:34386164T>A	uc003ojm.2	-	5	658	c.438A>T	c.(436-438)TCA>TCT	p.S146S	RPS10_uc003ojn.2_Silent_p.S146S	NM_001014	NP_001005	P46783	RS10_HUMAN	ribosomal protein S10	146					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding				0						ATTCGGTTGCTGACCCAGCCC	0.458													5	27	---	---	---	---	PASS	A	34386164	A	A	34386164	2	1	99	1	0	0	0	0	0	0	0	1	13620	1567	55	5		5	RPS10	6	34386164	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	2251677	34386164	136728903	267	36898										
UHRF1BP1	54887	broad.mit.edu	37	chr6	34826575	34826575	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acagagctggaggatgtagcAgatgttcatatgcttgtaca	12	6	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:34826575A>G	uc003oju.3	+	14	2676	c.2442A>G	c.(2440-2442)GCA>GCG	p.A814A	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	814										ovary(3)	3						AGGATGTAGCAGATGTTCATA	0.507													22	135	---	---	---	---	PASS	G	34826575	G	G	34826575	2	3	99	1	0	0	0	0	0	0	0	1	16965	175	7	5		5	UHRF1BP1	6	34826575	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	440411	34826575	136288492	268	36899										
SLC26A8	116369	broad.mit.edu	37	chr6	35987385	35987385	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tttgtgttcctgttgaaaggTctcctcattgtatacttcac	7	9	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:35987385T>G	uc003olm.2	-	2	211	c.100A>C	c.(100-102)ACC>CCC	p.T34P	SLC26A8_uc003oln.2_Missense_Mutation_p.T34P|SLC26A8_uc003oll.2_Missense_Mutation_p.T34P	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	34	Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						TGTTGAAAGGTCTCCTCATTG	0.498													9	20	---	---	---	---	PASS	G	35987385	G	G	35987385	3	3	99	1	0	0	0	0	1	0	0	0	14523	1667	58	5	2888	5	SLC26A8	6	35987385	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	1160810	35987385	135127682	269	36900										
MOCS1	4337	broad.mit.edu	37	chr6	39880094	39880094	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgtgatgaagctgatctggcCttggaagccagggattttaa	13	6	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:39880094C>A	uc003opb.2	-	7	1033	c.895G>T	c.(895-897)GGC>TGC	p.G299C	MOCS1_uc003opa.2_Missense_Mutation_p.G299C|MOCS1_uc003opc.2_Missense_Mutation_p.G299C|MOCS1_uc003opd.2_Missense_Mutation_p.G299C|MOCS1_uc003ope.2_Missense_Mutation_p.G212C	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	299	Molybdenum cofactor biosynthesis protein A.				Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding			ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CTGATCTGGCCTTGGAAGCCA	0.557													17	56	---	---	---	---	PASS	A	39880094	A	A	39880094	3	1	99	1	0	0	0	0	1	0	0	0	9690	681	24	3	274	3	MOCS1	6	39880094	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3892709	39880094	131234973	270	36901										
TREM1	54210	broad.mit.edu	37	chr6	41250461	41250461	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctttcagttcatacttttcCtcagttaatttagttgcagc	5	9	4	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:41250461C>T	uc003oqf.1	-	2	142	c.78G>A	c.(76-78)GAG>GAA	p.E26E	TREM1_uc003oqg.1_Silent_p.E26E	NM_018643	NP_061113	Q9NP99	TREM1_HUMAN	triggering receptor expressed on myeloid cells 1	26	Extracellular (Potential).|Ig-like V-type.				blood coagulation|humoral immune response|intracellular signal transduction|leukocyte migration	extracellular region|integral to membrane|intracellular|plasma membrane	receptor activity			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)				Glutathione(DB00143)	CATACTTTTCCTCAGTTAATT	0.448													34	90	---	---	---	---	PASS	T	41250461	T	T	41250461	2	4	99	1	0	0	0	0	0	0	0	1	16467	680	24	3		3	TREM1	6	41250461	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1370367	41250461	129864606	271	36902										
PGC	5225	broad.mit.edu	37	chr6	41704721	41704721	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caggtaggtgggctcgactcCcacggtgcagtagccgttgt	15	11	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:41704721C>A	uc003ora.1	-	9	1085	c.1036G>T	c.(1036-1038)GGA>TGA	p.G346*	TFEB_uc003oqs.1_5'Flank|TFEB_uc003oqt.1_5'Flank|TFEB_uc003oqu.1_5'Flank|TFEB_uc010jxq.1_5'Flank	NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor	346					digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GGCTCGACTCCCACGGTGCAG	0.418													7	19	---	---	---	---	PASS	A	41704721	A	A	41704721	4	1	99	1	0	0	0	0	0	1	0	0	11785	632	22	3	134	3	PGC	6	41704721	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	454260	41704721	129410346	272	36903										
CLIC5	53405	broad.mit.edu	37	chr6	45917079	45917079	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttgaaggtcaggaagggcggGtgcgtgccgggggctaggtt	21	6	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:45917079G>A	uc003oxv.3	-	3	796	c.690C>T	c.(688-690)CAC>CAT	p.H230H	CLIC5_uc003oxu.3_Silent_p.H71H|CLIC5_uc003oxx.2_Silent_p.H71H	NM_001114086	NP_001107558	Q9NZA1	CLIC5_HUMAN	chloride intracellular channel 5 isoform a	230					female pregnancy	actin cytoskeleton|cell cortex|chloride channel complex|Golgi apparatus|Golgi apparatus|insoluble fraction|microtubule organizing center	protein binding|voltage-gated chloride channel activity			ovary(1)|skin(1)	2						GGAAGGGCGGGTGCGTGCCGG	0.542													22	71	---	---	---	---	PASS	A	45917079	A	A	45917079	2	1	99	1	0	0	0	0	0	0	0	1	3529	1252	44	3		3	CLIC5	6	45917079	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	4212358	45917079	125197988	273	36904										
MEP1A	4224	broad.mit.edu	37	chr6	46801051	46801051	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gagccctcgattctacaattCggagggatatggttttgggg	14	7	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:46801051C>A	uc010jzh.1	+	11	1427	c.1385C>A	c.(1384-1386)TCG>TAG	p.S462*	MEP1A_uc011dwg.1_Nonsense_Mutation_p.S184*|MEP1A_uc011dwh.1_Nonsense_Mutation_p.S490*|MEP1A_uc011dwi.1_Nonsense_Mutation_p.S362*	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	462	MATH.|Extracellular (Potential).				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			TTCTACAATTCGGAGGGATAT	0.502													24	38	---	---	---	---	PASS	A	46801051	A	A	46801051	4	1	99	1	0	0	0	0	0	1	0	0	9475	893	31	2	1427	2	MEP1A	6	46801051	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	883972	46801051	124314016	274	36905										
DEFB112	245915	broad.mit.edu	37	chr6	50011361	50011361	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggatccaattatttgggtccGtagggtcacattctgtcacg	11	9	3	0	rs144227676	byFrequency	TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:50011361G>C	uc011dws.1	-	2	269	c.269C>G	c.(268-270)ACG>AGG	p.T90R		NM_001037498	NP_001032587	Q30KQ8	DB112_HUMAN	beta-defensin 112 precursor	90					defense response to bacterium	extracellular region				central_nervous_system(1)	1	Lung NSC(77;0.042)					ATTTGGGTCCGTAGGGTCACA	0.413													15	46	---	---	---	---	PASS	C	50011361	C	C	50011361	3	2	99	1	0	0	0	0	1	0	0	0	4401	1145	40	4	75	4	DEFB112	6	50011361	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3210310	50011361	121103706	275	36906										
C6orf142	90523	broad.mit.edu	37	chr6	54025560	54025560	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttcttctgattctccttcaaGgtccccaaagacattgttgg	7	11	4	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:54025560G>C	uc003pcg.3	+	7	970	c.857G>C	c.(856-858)AGG>ACG	p.R286T	C6orf142_uc003pcf.2_Missense_Mutation_p.R810T|C6orf142_uc003pch.3_Intron|C6orf142_uc011dxa.1_Missense_Mutation_p.R821T	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523	286						nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					TCTCCTTCAAGGTCCCCAAAG	0.244													4	29	---	---	---	---	PASS	C	54025560	C	C	54025560	3	2	99	1	0	0	0	0	1	0	0	0	2333	1000	35	4	883	4	C6orf142	6	54025560	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	4014199	54025560	117089507	276	36907										
KHDRBS2	202559	broad.mit.edu	37	chr6	62442636	62442636	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ataagtctcataggtctggtCatcatattcacccccgtagc	7	12	5	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:62442636C>A	uc003peg.2	-	7	1091	c.844G>T	c.(844-846)GAC>TAC	p.D282Y		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	282					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		TAGGTCTGGTCATCATATTCA	0.383													10	66	---	---	---	---	PASS	A	62442636	A	A	62442636	3	1	99	1	0	0	0	0	1	0	0	0	8147	826	29	2	217	2	KHDRBS2	6	62442636	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	8417076	62442636	108672431	277	36908										
COL19A1	1310	broad.mit.edu	37	chr6	70859619	70859619	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcccaaggaccagctggagaGccaggtattcaggtaagcta	13	10	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:70859619G>A	uc003pfc.1	+	28	2034	c.1917G>A	c.(1915-1917)GAG>GAA	p.E639E	COL19A1_uc010kam.1_Silent_p.E535E	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	639	Triple-helical region 3 (COL3).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CAGCTGGAGAGCCAGGTATTC	0.388													9	44	---	---	---	---	PASS	A	70859619	A	A	70859619	2	1	99	1	0	0	0	0	0	0	0	1	3676	962	34	3		3	COL19A1	6	70859619	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	8416983	70859619	100255448	278	36909										
CD109	135228	broad.mit.edu	37	chr6	74492421	74492421	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgacttttctttgggtagcaGtccacatgtccgaaagcatt	9	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:74492421G>T	uc003php.2	+	18	2473	c.2048G>T	c.(2047-2049)AGT>ATT	p.S683I	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Missense_Mutation_p.S683I|CD109_uc010kba.2_Missense_Mutation_p.S606I	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	683	Bait region (approximate) (By similarity).					anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						TTGGGTAGCAGTCCACATGTC	0.353													16	64	---	---	---	---	PASS	T	74492421	T	T	74492421	3	4	99	1	0	0	0	0	1	0	0	0	2963	1029	36	3	2118	3	CD109	6	74492421	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3632802	74492421	96622646	279	36910										
COL12A1	1303	broad.mit.edu	37	chr6	75892940	75892940	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggcatccttcacaccaactgCaaagatttcaacatctgaat	5	12	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:75892940C>G	uc003phs.2	-	10	1883	c.1717G>C	c.(1717-1719)GCA>CCA	p.A573P	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_Missense_Mutation_p.A231P	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	573	VWFA 2.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						ACACCAACTGCAAAGATTTCA	0.438													19	66	---	---	---	---	PASS	G	75892940	G	G	75892940	3	3	99	1	0	0	0	0	1	0	0	0	3669	710	25	4	7702	4	COL12A1	6	75892940	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1400519	75892940	95222127	280	36911										
PRSS35	167681	broad.mit.edu	37	chr6	84234168	84234168	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaatccaatgatctcctttaCcaatactgcgatgctgagtc	7	11	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:84234168C>A	uc003pjz.2	+	2	1171	c.1008C>A	c.(1006-1008)TAC>TAA	p.Y336*	PRSS35_uc010kbm.2_Nonsense_Mutation_p.Y336*	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	336	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		ATCTCCTTTACCAATACTGCG	0.483													10	49	---	---	---	---	PASS	A	84234168	A	A	84234168	4	1	99	1	0	0	0	0	0	1	0	0	12624	518	18	3	1010	3	PRSS35	6	84234168	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	8341228	84234168	86880899	281	36912										
CYB5R4	51167	broad.mit.edu	37	chr6	84627783	84627783	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagaaggtcctagttatccaAggtatgcattcttatttaaa	7	6	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:84627783A>T	uc003pkf.2	+	6	637	c.505A>T	c.(505-507)AGC>TGC	p.S169C		NM_016230	NP_057314	Q7L1T6	NB5R4_HUMAN	cytochrome b5 reductase 4	169	CS.				cell development|detection of oxygen|generation of precursor metabolites and energy|glucose homeostasis|insulin secretion|response to antibiotic|superoxide metabolic process	endoplasmic reticulum|perinuclear region of cytoplasm	cytochrome-b5 reductase activity|heme binding|NAD(P)H oxidase activity			breast(2)	2		all_cancers(76;7e-07)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00128)		BRCA - Breast invasive adenocarcinoma(397;0.0871)		TAGTTATCCAAGGTATGCATT	0.303													7	46	---	---	---	---	PASS	T	84627783	T	T	84627783	3	4	99	1	0	0	0	0	1	0	0	0	4129	86	3	5	527	5	CYB5R4	6	84627783	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	393615	84627783	86487284	282	36913										
MRAP2	112609	broad.mit.edu	37	chr6	84772676	84772676	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atttttatgttttttgtgctGaccttgctgaccaagacagg	9	7	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:84772676G>T	uc003pkg.3	+	3	382	c.192G>T	c.(190-192)CTG>CTT	p.L64L	MRAP2_uc010kbo.2_Intron	NM_138409	NP_612418	Q96G30	MRAP2_HUMAN	melanocortin 2 receptor accessory protein 2	64					positive regulation of cAMP biosynthetic process|protein localization at cell surface	endoplasmic reticulum|plasma membrane	corticotropin hormone receptor binding|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding|type 5 melanocortin receptor binding			skin(2)	2						TTTTTGTGCTGACCTTGCTGA	0.413													13	51	---	---	---	---	PASS	T	84772676	T	T	84772676	2	4	99	1	0	0	0	0	0	0	0	1	9754	1277	45	2		2	MRAP2	6	84772676	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	144893	84772676	86342391	283	36914										
TBX18	9096	broad.mit.edu	37	chr6	85446454	85446454	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gacagagttaagcttcctagGgtcctagagtcaaagaaact	10	8	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:85446454G>T	uc003pkl.1	-	8	1773	c.1773C>A	c.(1771-1773)ACC>ACA	p.T591T	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	591					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		AGCTTCCTAGGGTCCTAGAGT	0.468													5	44	---	---	---	---	PASS	T	85446454	T	T	85446454	2	4	99	1	0	0	0	0	0	0	0	1	15650	1219	43	3		3	TBX18	6	85446454	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	673778	85446454	85668613	284	36915										
TBX18	9096	broad.mit.edu	37	chr6	85457707	85457707	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gagaatgcctttactccctcCccggatggaacaggcttgat	10	12	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:85457707C>A	uc003pkl.1	-	5	870	c.870G>T	c.(868-870)GGG>GGT	p.G290G	TBX18_uc010kbq.1_Silent_p.G132G	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	290	T-box.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TTACTCCCTCCCCGGATGGAA	0.453													7	31	---	---	---	---	PASS	A	85457707	A	A	85457707	2	1	99	1	0	0	0	0	0	0	0	1	15650	610	22	3		3	TBX18	6	85457707	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	11253	85457707	85657360	285	36916										
CGA	1081	broad.mit.edu	37	chr6	87795487	87795487	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaaacatttaagatttgtgaTaataacaagtactgcagtgg	8	4	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:87795487T>A	uc003plj.1	-	4	439	c.338A>T	c.(337-339)TAT>TTT	p.Y113F		NM_000735	NP_000726	P01215	GLHA_HUMAN	glycoprotein hormones, alpha polypeptide	113					hormone biosynthetic process|peptide hormone processing|signal transduction	extracellular region|soluble fraction	hormone activity			ovary(1)	1		all_cancers(76;5.98e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000102)		BRCA - Breast invasive adenocarcinoma(108;0.0484)		AGATTTGTGATAATAACAAGT	0.363													6	17	---	---	---	---	PASS	A	87795487	A	A	87795487	3	1	99	1	0	0	0	0	1	0	0	0	3295	1406	49	5	16	5	CGA	6	87795487	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	2337780	87795487	83319580	286	36917										
FHL5	9457	broad.mit.edu	37	chr6	97063549	97063549	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	catagcgaatgctttaactgCgggaaatgctctgtctcctt	9	10	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:97063549C>T	uc003pos.1	+	7	1161	c.756C>T	c.(754-756)TGC>TGT	p.C252C	FHL5_uc003pot.1_Silent_p.C252C	NM_020482	NP_065228	Q5TD97	FHL5_HUMAN	activator of cAMP-responsive element modulator	252	LIM zinc-binding 4.					nucleus	zinc ion binding			ovary(2)	2		all_cancers(76;1.57e-07)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00266)|Colorectal(196;0.0341)|Lung NSC(302;0.204)		BRCA - Breast invasive adenocarcinoma(108;0.0948)		GCTTTAACTGCGGGAAATGCT	0.443													14	28	---	---	---	---	PASS	T	97063549	T	T	97063549	2	4	99	1	0	0	0	0	0	0	0	1	5881	776	27	1		1	FHL5	6	97063549	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	9268062	97063549	74051518	287	36918										
GPR63	81491	broad.mit.edu	37	chr6	97247021	97247021	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagaaactgcaatcagaaccTtagctctatatgggtttagc	8	8	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:97247021T>A	uc010kcl.2	-	3	1065	c.587A>T	c.(586-588)AAG>ATG	p.K196M	GPR63_uc003pou.2_Missense_Mutation_p.K196M	NM_001143957	NP_001137429	Q9BZJ6	GPR63_HUMAN	G protein-coupled receptor 63	196	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;6.89e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0618)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0912)		AATCAGAACCTTAGCTCTATA	0.448													17	63	---	---	---	---	PASS	A	97247021	A	A	97247021	3	1	99	1	0	0	0	0	1	0	0	0	6704	1609	56	5	676	5	GPR63	6	97247021	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	183472	97247021	73868046	288	36919										
C6orf167	253714	broad.mit.edu	37	chr6	97610000	97610000	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aggccagaatggatgctaagCgaggaggaggtgaggacccc	17	8	0	2	rs149054595		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:97610000C>T	uc003ppb.2	-	22	3529	c.3263G>A	c.(3262-3264)CGC>CAC	p.R1088H	C6orf167_uc011eaf.1_Missense_Mutation_p.R1048H	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	1088					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		GGATGCTAAGCGAGGAGGAGG	0.408													5	35	---	---	---	---	PASS	T	97610000	T	T	97610000	3	4	99	1	0	0	0	0	1	0	0	0	2342	768	27	1	484	1	C6orf167	6	97610000	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	362979	97610000	73505067	289	36920										
SIM1	6492	broad.mit.edu	37	chr6	100838339	100838339	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcaaagtgtgagccattacaGcccaaggaatagtttctaat	8	8	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:100838339G>T	uc003pqj.3	-	11	2406	c.2199C>A	c.(2197-2199)GGC>GGA	p.G733G	SIM1_uc010kcu.2_Silent_p.G733G	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	733	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		AGCCATTACAGCCCAAGGAAT	0.448													14	87	---	---	---	---	PASS	T	100838339	T	T	100838339	2	4	99	1	0	0	0	0	0	0	0	1	14323	958	34	3		3	SIM1	6	100838339	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	3228339	100838339	70276728	290	36921										
GRIK2	2898	broad.mit.edu	37	chr6	102074447	102074447	+	Missense_Mutation	SNP	C	A	A													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cttctcttcactcagccgtgCcattttagacctggtgcagt							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:102074447C>A	uc003pqp.3	+	3	725	c.476C>A	c.(475-477)GCC>GAC	p.A159D	GRIK2_uc003pqn.2_Missense_Mutation_p.A159D|GRIK2_uc003pqo.3_Missense_Mutation_p.A159D|GRIK2_uc010kcw.2_Missense_Mutation_p.A159D	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	159	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	CTCAGCCGTGCCATTTTAGAC	0.463													11	41	---	---	---	---	PASS	A	102074447	A	A	102074447	3	1	99	1	0	0	0	0	1	0	0	0	6774	739	26	3	486	3	GRIK2	6	102074447	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1236108	102074447	69040620	291	36922	686	2								
GRIK2	2898	broad.mit.edu	37	chr6	102074448	102074448	+	Silent	SNP	C	A	A													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttctcttcactcagccgtgcCattttagacctggtgcagtt							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:102074448C>A	uc003pqp.3	+	3	726	c.477C>A	c.(475-477)GCC>GCA	p.A159A	GRIK2_uc003pqn.2_Silent_p.A159A|GRIK2_uc003pqo.3_Silent_p.A159A|GRIK2_uc010kcw.2_Silent_p.A159A	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	159	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	TCAGCCGTGCCATTTTAGACC	0.458													11	42	---	---	---	---	PASS	A	102074448	A	A	102074448	2	1	99	1	0	0	0	0	0	0	0	1	6774	581	21	3		3	GRIK2	6	102074448	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1	102074448	69040619	292	36923	686	2								
PRDM1	639	broad.mit.edu	37	chr6	106555270	106555270	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cagcctttatgagtcatcagAtctacccctcatgaagttgc	7	12	4	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:106555270A>C	uc003prd.2	+	7	2621	c.2387A>C	c.(2386-2388)GAT>GCT	p.D796A	PRDM1_uc003pre.2_Missense_Mutation_p.D662A	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	796					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)		GAGTCATCAGATCTACCCCTC	0.453			D|N|Mis|F|S		DLBCL								11	45	---	---	---	---	PASS	C	106555270	C	C	106555270	3	2	99	1	0	0	0	0	1	0	0	0	12450	333	12	5	2426	5	PRDM1	6	106555270	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	4480822	106555270	64559797	293	36924										
NR2E1	7101	broad.mit.edu	37	chr6	108499422	108499422	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctaagagtgtgccagccttcTccacgctgtctttgcaagac	9	13	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:108499422T>C	uc003psg.2	+	5	1374	c.619T>C	c.(619-621)TCC>CCC	p.S207P		NM_003269	NP_003260	Q9Y466	NR2E1_HUMAN	nuclear receptor subfamily 2, group E, member 1	207	Ligand-binding (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(87;8.13e-05)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00866)|Colorectal(196;0.0637)		BRCA - Breast invasive adenocarcinoma(108;0.013)|Epithelial(106;0.0521)|all cancers(137;0.068)|OV - Ovarian serous cystadenocarcinoma(136;0.0689)		GCCAGCCTTCTCCACGCTGTC	0.507													11	31	---	---	---	---	PASS	C	108499422	C	C	108499422	3	2	99	1	0	0	0	0	1	0	0	0	10625	1551	54	5	637	5	NR2E1	6	108499422	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	1944152	108499422	62615645	294	36925										
C6orf182	285753	broad.mit.edu	37	chr6	109476454	109476454	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acaagattaaacatttagaaGaaaaacttaaggaagaagaa	7	3	0	5			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:109476454G>A	uc010kdk.2	+	8	1178	c.601G>A	c.(601-603)GAA>AAA	p.E201K	C6orf182_uc003psv.3_Missense_Mutation_p.E185K|C6orf182_uc003psw.3_Missense_Mutation_p.E201K|C6orf182_uc003psx.3_Missense_Mutation_p.E201K|C6orf182_uc010kdl.2_Missense_Mutation_p.E201K|C6orf182_uc003psy.3_Missense_Mutation_p.E201K	NM_001083535	NP_001077004	Q8IYX8	CE57L_HUMAN	hypothetical protein LOC285753	201	Potential.					microtubule|microtubule organizing center					0		all_cancers(87;4.45e-07)|Acute lymphoblastic leukemia(125;2.15e-10)|all_hematologic(75;3.25e-08)|all_epithelial(87;0.000254)|Colorectal(196;0.0293)|all_lung(197;0.11)		BRCA - Breast invasive adenocarcinoma(108;0.00123)|Epithelial(106;0.0022)|all cancers(137;0.00405)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)		ACATTTAGAAGAAAAACTTAA	0.299													14	47	---	---	---	---	PASS	A	109476454	A	A	109476454	3	1	99	1	0	0	0	0	1	0	0	0	2346	943	33	2	619	2	C6orf182	6	109476454	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	977032	109476454	61638613	295	36926										
ZBTB24	9841	broad.mit.edu	37	chr6	109787067	109787067	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttacaggtcagctctgctccTggccaagtggcgttggctgg	14	11	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:109787067T>A	uc003ptl.1	-	7	2249	c.2081A>T	c.(2080-2082)CAG>CTG	p.Q694L	MICAL1_uc011eaq.1_5'UTR|ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Missense_Mutation_p.Q638L|ZBTB24_uc010kdt.1_RNA	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	694					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		GCTCTGCTCCTGGCCAAGTGG	0.552													16	45	---	---	---	---	PASS	A	109787067	A	A	109787067	3	1	99	1	0	0	0	0	1	0	0	0	17528	1580	55	5	16	5	ZBTB24	6	109787067	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	310613	109787067	61328000	296	36927										
FYN	2534	broad.mit.edu	37	chr6	112035579	112035579	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aatatttgaaatttttctccTttgtgaaaactcaggtcatc	5	7	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:112035579T>A	uc003pvj.2	-	4	655	c.315A>T	c.(313-315)AAA>AAT	p.K105N	FYN_uc003pvi.2_Missense_Mutation_p.K105N|FYN_uc003pvk.2_Missense_Mutation_p.K105N|FYN_uc003pvh.2_Missense_Mutation_p.K105N	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	105	SH3.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	ATTTTTCTCCTTTGTGAAAAC	0.438													4	35	---	---	---	---	PASS	A	112035579	A	A	112035579	3	1	99	1	0	0	0	0	1	0	0	0	6126	1606	56	5	1498	5	FYN	6	112035579	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	2248512	112035579	59079488	297	36928										
ENPP1	5167	broad.mit.edu	37	chr6	132179888	132179888	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atcactacagcattgtcaccGtaagctctgcatttcaactt	5	12	4	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:132179888G>A	uc011ecf.1	+	7	815	c.795_splice	c.e7+1	p.T265_splice	ENPP1_uc003qcy.2_5'Flank	NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase						3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	CATTGTCACCGTAAGCTCTGC	0.318													6	15	---	---	---	---	PASS	A	132179888	A	A	132179888	5	1	99	1	0	0	0	0	0	0	1	0	5129	1159	40	1	822	1	ENPP1	6	132179888	Splice_Site	SNP	G	TCGA-43-5668-01A-01D-1632-08	20144309	132179888	38935179	298	36929										
TAAR6	319100	broad.mit.edu	37	chr6	132891790	132891790	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttttgtactttccacacctgCtgtgatgtggcattttgtta	8	8	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:132891790C>A	uc011eck.1	+	1	330	c.330C>A	c.(328-330)TGC>TGA	p.C110*		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	110	Helical; Name=3; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		TCCACACCTGCTGTGATGTGG	0.488													26	108	---	---	---	---	PASS	A	132891790	A	A	132891790	4	1	99	1	0	0	0	0	0	1	0	0	15489	805	28	3	332	3	TAAR6	6	132891790	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	711902	132891790	38223277	299	36930										
VNN2	8875	broad.mit.edu	37	chr6	133072503	133072503	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttctgtactggaaatggtttGatggtggtggcgtaggcatt	15	4	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:133072503G>T	uc003qdt.2	-	5	992	c.981C>A	c.(979-981)ATC>ATA	p.I327I	VNN2_uc003qds.2_Silent_p.I36I|VNN2_uc010kgb.2_Intron|VNN2_uc003qdv.2_Silent_p.I274I	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor	327	CN hydrolase.				cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		GAAATGGTTTGATGGTGGTGG	0.443													18	70	---	---	---	---	PASS	T	133072503	T	T	133072503	2	4	99	1	0	0	0	0	0	0	0	1	17180	1280	45	2		2	VNN2	6	133072503	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	180713	133072503	38042564	300	36931										
UTRN	7402	broad.mit.edu	37	chr6	144835120	144835120	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggctttatcaagctgaagctCtattggatgaaattgaaaag	10	5	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:144835120C>T	uc003qkt.2	+	35	5112	c.5020C>T	c.(5020-5022)CTA>TTA	p.L1674L		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1674	Interaction with SYNM.|Spectrin 12.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		AGCTGAAGCTCTATTGGATGA	0.378													21	44	---	---	---	---	PASS	T	144835120	T	T	144835120	2	4	99	1	0	0	0	0	0	0	0	1	17100	912	32	2		2	UTRN	6	144835120	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	11762617	144835120	26279947	301	36932										
LPA	4018	broad.mit.edu	37	chr6	161007565	161007565	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttccatcactggacattgcgTcaggttgcagtactcccatc	8	13	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr6:161007565T>C	uc003qtl.2	-	26	4165	c.4045A>G	c.(4045-4047)ACG>GCG	p.T1349A		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3857	Kringle 34.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	GGACATTGCGTCAGGTTGCAG	0.522													12	33	---	---	---	---	PASS	C	161007565	C	C	161007565	3	2	99	1	0	0	0	0	1	0	0	0	8903	1667	58	5	2137	5	LPA	6	161007565	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	16172445	161007565	10107502	302	36933										
MICALL2	79778	broad.mit.edu	37	chr7	1489875	1489875	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gccggggcgggggccactcaCcagtttattgttttcataaa	12	10	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:1489875C>A	uc003skj.3	-	2	339	c.192_splice	c.e2+1	p.L64_splice	MICALL2_uc003skl.1_RNA	NM_182924	NP_891554	Q8IY33	MILK2_HUMAN	MICAL-like 2 isoform 1							cytoplasm|cytoskeleton	zinc ion binding			central_nervous_system(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;6.01e-15)		GGGCCACTCACCAGTTTATTG	0.562													30	70	---	---	---	---	PASS	A	1489875	A	A	1489875	5	1	99	1	0	0	0	0	0	0	1	0	9574	521	18	3	2585	3	MICALL2	7	1489875	Splice_Site	SNP	C	TCGA-43-5668-01A-01D-1632-08		1489875	157648788	303	36934										
MMD2	221938	broad.mit.edu	37	chr7	4947082	4947082	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gatagaggtacctccagatgGcatagtagtgggtaccagca	13	8	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:4947082G>A	uc003sno.3	-	7	954	c.758C>T	c.(757-759)GCC>GTC	p.A253V	MMD2_uc003snl.1_RNA|MMD2_uc003snn.3_Missense_Mutation_p.A229V|MMD2_uc010ksq.2_3'UTR	NM_001100600	NP_001094070	Q8IY49	PAQRA_HUMAN	monocyte to macrophage	253	Helical; (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.097)|OV - Ovarian serous cystadenocarcinoma(56;3.4e-14)		CCTCCAGATGGCATAGTAGTG	0.547													19	44	---	---	---	---	PASS	A	4947082	A	A	4947082	3	1	99	1	0	0	0	0	1	0	0	0	9644	1203	42	3	58	3	MMD2	7	4947082	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3457207	4947082	154191581	304	36935										
FERD3L	222894	broad.mit.edu	37	chr7	19184786	19184786	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgtccccctggtccacttcgCactcctcttcttctgggtcc	7	19	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:19184786C>A	uc003suo.1	-	1	259	c.200G>T	c.(199-201)TGC>TTC	p.C67F	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	67	Poly-Glu.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						gtccacttcgcactcctcttc	0.373													5	23	---	---	---	---	PASS	A	19184786	A	A	19184786	3	1	99	1	0	0	0	0	1	0	0	0	5816	710	25	3	304	3	FERD3L	7	19184786	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	14237704	19184786	139953877	305	36936										
EVX1	2128	broad.mit.edu	37	chr7	27285911	27285911	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caacgggctggcgccccgggCtgccgccgcctcggacttca	14	18	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:27285911C>A	uc003szd.1	+	3	1577	c.1091C>A	c.(1090-1092)GCT>GAT	p.A364D	EVX1_uc011jzn.1_Missense_Mutation_p.A182D|EVX1_uc010kuy.1_3'UTR	NM_001989	NP_001980	P49640	EVX1_HUMAN	even-skipped homeobox 1	364	Ala-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						GCGCCCCGGGCTGCCGCCGCC	0.756													4	5	---	---	---	---	PASS	A	27285911	A	A	27285911	3	1	99	1	0	0	0	0	1	0	0	0	5294	797	28	3	1101	3	EVX1	7	27285911	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	8101125	27285911	131852752	306	36937										
FAM188B	84182	broad.mit.edu	37	chr7	30831179	30831179	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaacggcagggcagccagccCgcacctgtcaggtgagtgtg	15	12	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:30831179C>T	uc003tbt.2	+	5	1139	c.1062C>T	c.(1060-1062)CCC>CCT	p.P354P	FAM188B_uc010kwe.2_Silent_p.P325P	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	354											0						GCAGCCAGCCCGCACCTGTCA	0.542													7	21	---	---	---	---	PASS	T	30831179	T	T	30831179	2	4	99	1	0	0	0	0	0	0	0	1	5515	639	23	1		1	FAM188B	7	30831179	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	3545268	30831179	128307484	307	36938										
ANLN	54443	broad.mit.edu	37	chr7	36447361	36447361	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agaaagctacttctccagtgAaatctactacatctatcact	4	11	4	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:36447361A>G	uc003tff.2	+	5	1096	c.892A>G	c.(892-894)AAA>GAA	p.K298E	ANLN_uc011kaz.1_Missense_Mutation_p.K210E|ANLN_uc003tfg.2_Missense_Mutation_p.K298E|ANLN_uc010kxe.2_Missense_Mutation_p.K298E	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	298	Interaction with F-actin.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						TTCTCCAGTGAAATCTACTAC	0.353													16	27	---	---	---	---	PASS	G	36447361	G	G	36447361	3	3	99	1	0	0	0	0	1	0	0	0	694	247	9	5	910	5	ANLN	7	36447361	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	5616182	36447361	122691302	308	36939										
CDK13	8621	broad.mit.edu	37	chr7	40118369	40118369	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttacatgcttgccttggatcCtagtaagcgctgcactgctg	10	11	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:40118369C>G	uc003thh.3	+	11	3230	c.2948C>G	c.(2947-2949)CCT>CGT	p.P983R	CDK13_uc003thi.3_Missense_Mutation_p.P983R|CDK13_uc003thj.2_Missense_Mutation_p.P34R	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	983	Protein kinase.				alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						GCCTTGGATCCTAGTAAGCGC	0.448													10	58	---	---	---	---	PASS	G	40118369	G	G	40118369	3	3	99	1	0	0	0	0	1	0	0	0	3129	681	24	4	2990	4	CDK13	7	40118369	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3671008	40118369	119020294	309	36940										
GLI3	2737	broad.mit.edu	37	chr7	42005485	42005485	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atgctgggaggacagggggaCgagtggaagtttcgggactg	20	5	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:42005485C>T	uc011kbh.1	-	15	3277	c.3186G>A	c.(3184-3186)TCG>TCA	p.S1062S	GLI3_uc011kbg.1_Silent_p.S1003S	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1062					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GACAGGGGGACGAGTGGAAGT	0.642									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				5	34	---	---	---	---	PASS	T	42005485	T	T	42005485	2	4	99	1	0	0	0	0	0	0	0	1	6439	523	19	1		1	GLI3	7	42005485	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1887116	42005485	117133178	310	36941										
ABCA13	154664	broad.mit.edu	37	chr7	48550699	48550699	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctcttttacttggtttccgTctgcctgtgtgttgccgtta	10	10	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:48550699T>C	uc003toq.2	+	51	13569	c.13544T>C	c.(13543-13545)GTC>GCC	p.V4515A	ABCA13_uc010kys.1_Missense_Mutation_p.V1590A|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Missense_Mutation_p.V245A	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4515	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TTGGTTTCCGTCTGCCTGTGT	0.433													6	45	---	---	---	---	PASS	C	48550699	C	C	48550699	3	2	99	1	0	0	0	0	1	0	0	0	31	1667	58	5	13575	5	ABCA13	7	48550699	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	6545214	48550699	110587964	311	36942										
AUTS2	26053	broad.mit.edu	37	chr7	70255478	70255478	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cggagagacccgctgggcagGgacttcctgctaaggaacga	15	11	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:70255478G>A	uc003tvw.3	+	19	4019	c.3276G>A	c.(3274-3276)AGG>AGA	p.R1092R	AUTS2_uc003tvx.3_Silent_p.R1068R|AUTS2_uc011keg.1_Silent_p.R544R	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	1092										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CGCTGGGCAGGGACTTCCTGC	0.627													4	19	---	---	---	---	PASS	A	70255478	A	A	70255478	2	1	99	1	0	0	0	0	0	0	0	1	1225	1223	43	3		3	AUTS2	7	70255478	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	21704779	70255478	88883185	312	36943										
CALN1	83698	broad.mit.edu	37	chr7	71252799	71252799	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agtatctggttggctgcaatCagcatgacactgatgatgaa	11	7	2	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:71252799C>A	uc003twa.3	-	6	1148	c.621G>T	c.(619-621)CTG>CTT	p.L207L	CALN1_uc003twb.3_Silent_p.L249L|CALN1_uc003twc.3_Silent_p.L207L	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2	207	Helical; Anchor for type IV membrane protein; (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				TGGCTGCAATCAGCATGACAC	0.592													4	27	---	---	---	---	PASS	A	71252799	A	A	71252799	2	1	99	1	0	0	0	0	0	0	0	1	2591	813	29	2		2	CALN1	7	71252799	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	997321	71252799	87885864	313	36944										
FGL2	10875	broad.mit.edu	37	chr7	76828528	76828528	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgtatttgttcttggctggGacactttgaacatttgccat	9	8	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:76828528G>T	uc003ugb.2	-	1	623	c.583C>A	c.(583-585)CCC>ACC	p.P195T	CCDC146_uc003ufz.1_Intron|CCDC146_uc003uga.2_Intron	NM_006682	NP_006673	Q14314	FGL2_HUMAN	fibrinogen-like 2 precursor	195					signal transduction	fibrinogen complex	receptor binding			skin(2)	2						TCTTGGCTGGGACACTTTGAA	0.313													13	60	---	---	---	---	PASS	T	76828528	T	T	76828528	3	4	99	1	0	0	0	0	1	0	0	0	5873	1174	41	2	744	2	FGL2	7	76828528	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	5575729	76828528	82310135	314	36945										
ABCB4	5244	broad.mit.edu	37	chr7	87049318	87049318	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cagcgcacactcctacctgtCttagcattgctttaaaagcc	6	14	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:87049318C>A	uc003uiv.1	-	19	2466	c.2390G>T	c.(2389-2391)AGA>ATA	p.R797I	ABCB4_uc003uiw.1_Missense_Mutation_p.R797I|ABCB4_uc003uix.1_Missense_Mutation_p.R797I	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	797	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					TCCTACCTGTCTTAGCATTGC	0.428													20	83	---	---	---	---	PASS	A	87049318	A	A	87049318	3	1	99	1	0	0	0	0	1	0	0	0	43	913	32	2	1510	2	ABCB4	7	87049318	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	10220790	87049318	72089345	315	36946										
ABCB1	5243	broad.mit.edu	37	chr7	87170713	87170713	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagaaataattccaagggctAgaaacaatagtgaaaacaag	8	5	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:87170713A>G	uc003uiz.1	-	19	2697	c.2279T>C	c.(2278-2280)CTA>CCA	p.L760P	ABCB1_uc011khc.1_Missense_Mutation_p.L696P	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	760	Helical; (Potential).|ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	TCCAAGGGCTAGAAACAATAG	0.299													11	49	---	---	---	---	PASS	G	87170713	G	G	87170713	3	3	99	1	0	0	0	0	1	0	0	0	40	420	15	5	1607	5	ABCB1	7	87170713	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	121395	87170713	71967950	316	36947										
ABCB1	5243	broad.mit.edu	37	chr7	87174183	87174183	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctgtcttgggcttgtgatcCacggacactcctacgagttg	11	11	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:87174183C>A	uc003uiz.1	-	17	2438	c.2020G>T	c.(2020-2022)GGA>TGA	p.G674*	ABCB1_uc011khc.1_Nonsense_Mutation_p.G610*	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	674	Cytoplasmic (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	GCTTGTGATCCACGGACACTC	0.408													12	67	---	---	---	---	PASS	A	87174183	A	A	87174183	4	1	99	1	0	0	0	0	0	1	0	0	40	603	21	3	1874	3	ABCB1	7	87174183	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3470	87174183	71964480	317	36948										
COL1A2	1278	broad.mit.edu	37	chr7	94059648	94059648	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cttgatattgcacctttggaCatcggtggtgctgaccagga	12	9	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:94059648C>T	uc003ung.1	+	52	4515	c.4044C>T	c.(4042-4044)GAC>GAT	p.D1348D	COL1A2_uc011kib.1_Silent_p.D200D	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1348	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CACCTTTGGACATCGGTGGTG	0.358										HNSCC(75;0.22)			25	121	---	---	---	---	PASS	T	94059648	T	T	94059648	2	4	99	1	0	0	0	0	0	0	0	1	3678	477	17	3		3	COL1A2	7	94059648	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	6885465	94059648	65079015	318	36949										
ASB4	51666	broad.mit.edu	37	chr7	95125305	95125305	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgctactccttaagtggacaCacagctttgcacttttgtac	7	11	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:95125305C>A	uc011kij.1	+	2	423	c.423C>A	c.(421-423)CAC>CAA	p.H141Q	ASB4_uc003unx.2_Missense_Mutation_p.H141Q	NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	141	ANK 3.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			TAAGTGGACACACAGCTTTGC	0.468													12	41	---	---	---	---	PASS	A	95125305	A	A	95125305	3	1	99	1	0	0	0	0	1	0	0	0	1025	477	17	3	429	3	ASB4	7	95125305	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1065657	95125305	64013358	319	36950										
SLC25A13	10165	broad.mit.edu	37	chr7	95751058	95751058	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgaggatcgaaatacacgagCtttaaaaaaatggagaaatc	9	5	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:95751058C>A	uc003uof.3	-	17	1942	c.1751_splice	c.e17-1	p.A584_splice	SLC25A13_uc003uog.3_Splice_Site_p.A585_splice|SLC25A13_uc011kik.1_Splice_Site_p.A476_splice	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2						ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	AATACACGAGCTTTAAAAAAA	0.348													10	79	---	---	---	---	PASS	A	95751058	A	A	95751058	5	1	99	1	0	0	0	0	0	0	1	0	14475	811	28	3	285	3	SLC25A13	7	95751058	Splice_Site	SNP	C	TCGA-43-5668-01A-01D-1632-08	625753	95751058	63387605	320	36951										
ZAN	7455	broad.mit.edu	37	chr7	100345809	100345809	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cccagagccagctgtggcagTtgatgcaaccagcattgctc	11	13	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:100345809T>C	uc003uwj.2	+	10	1238	c.1073T>C	c.(1072-1074)GTT>GCT	p.V358A	ZAN_uc003uwk.2_Missense_Mutation_p.V358A|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	358	MAM 2.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GCTGTGGCAGTTGATGCAACC	0.617													4	29	---	---	---	---	PASS	C	100345809	C	C	100345809	3	2	99	1	0	0	0	0	1	0	0	0	17510	1725	60	5	1107	5	ZAN	7	100345809	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	4594751	100345809	58792854	321	36952										
MUC17	140453	broad.mit.edu	37	chr7	100679498	100679498	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caacaacccctattgactccAaaactcaggtgaccgcttct	5	15	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:100679498A>C	uc003uxp.1	+	3	4854	c.4801A>C	c.(4801-4803)AAA>CAA	p.K1601Q	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1601	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|25.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TATTGACTCCAAAACTCAGGT	0.468													26	126	---	---	---	---	PASS	C	100679498	C	C	100679498	3	2	99	1	0	0	0	0	1	0	0	0	9974	131	5	5	4811	5	MUC17	7	100679498	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	333689	100679498	58459165	322	36953										
PMPCB	9512	broad.mit.edu	37	chr7	102944925	102944925	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aggggccaagaatagtgcttGctgctgctggaggttagtca	15	7	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:102944925G>T	uc003vbl.2	+	6	758	c.724G>T	c.(724-726)GCT>TCT	p.A242S	PMPCB_uc010liu.1_Missense_Mutation_p.A242S|PMPCB_uc003vbk.1_Missense_Mutation_p.A242S|PMPCB_uc003vbm.2_Missense_Mutation_p.A151S|PMPCB_uc010liv.2_Missense_Mutation_p.A148S|PMPCB_uc010liw.2_Missense_Mutation_p.A151S|PMPCB_uc011kll.1_Missense_Mutation_p.A137S|PMPCB_uc011klm.1_Missense_Mutation_p.A117S	NM_004279	NP_004270	O75439	MPPB_HUMAN	mitochondrial processing peptidase beta subunit	242					proteolysis	mitochondrial matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)	4						AATAGTGCTTGCTGCTGCTGG	0.343													12	63	---	---	---	---	PASS	T	102944925	T	T	102944925	3	4	99	1	0	0	0	0	1	0	0	0	12141	1319	46	3	746	3	PMPCB	7	102944925	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2265427	102944925	56193738	323	36954										
SLC26A5	375611	broad.mit.edu	37	chr7	103014876	103014876	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggagtggcaggagtggcattGggctccaagtcctcctggga	17	9	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:103014876G>C	uc003vbz.2	-	20	2441	c.2205C>G	c.(2203-2205)CCC>CCG	p.P735P	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Silent_p.P703P|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_RNA	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	735	Cytoplasmic (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						GAGTGGCATTGGGCTCCAAGT	0.498													5	22	---	---	---	---	PASS	C	103014876	C	C	103014876	2	2	99	1	0	0	0	0	0	0	0	1	14520	1335	47	4		4	SLC26A5	7	103014876	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	69951	103014876	56123787	324	36955										
TMEM168	64418	broad.mit.edu	37	chr7	112415234	112415234	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atactagattactgtacctgCagaagttggtgggaatcaca	10	7	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:112415234C>A	uc003vgn.2	-	3	1660	c.1268G>T	c.(1267-1269)TGC>TTC	p.C423F	TMEM168_uc010lju.2_Missense_Mutation_p.C423F|TMEM168_uc011kmr.1_Missense_Mutation_p.C39F	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	423						integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						ACTGTACCTGCAGAAGTTGGT	0.343													5	26	---	---	---	---	PASS	A	112415234	A	A	112415234	3	1	99	1	0	0	0	0	1	0	0	0	16080	710	25	3	837	3	TMEM168	7	112415234	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	9400358	112415234	46723429	325	36956										
PPP1R3A	5506	broad.mit.edu	37	chr7	113517826	113517826	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctaccctcttcccaggatagCcaggacaatgacaaaacgta	7	13	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:113517826C>A	uc010ljy.1	-	4	3352	c.3321G>T	c.(3319-3321)TGG>TGT	p.W1107C		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	1107					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						CCCAGGATAGCCAGGACAATG	0.343													6	54	---	---	---	---	PASS	A	113517826	A	A	113517826	3	1	99	1	0	0	0	0	1	0	0	0	12371	740	26	3	51	3	PPP1R3A	7	113517826	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1102592	113517826	45620837	326	36957										
C7orf58	79974	broad.mit.edu	37	chr7	120764491	120764491	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctagcggctgaagtattcaGtgaaacatctactctgggac	11	9	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:120764491G>T	uc003vjq.3	+	8	1472	c.1025G>T	c.(1024-1026)AGT>ATT	p.S342I	C7orf58_uc003vjr.1_Missense_Mutation_p.S342I|C7orf58_uc003vjs.3_Missense_Mutation_p.S342I|C7orf58_uc003vjt.3_Missense_Mutation_p.S122I|C7orf58_uc010lkk.1_Missense_Mutation_p.S122I	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	342						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					GAAGTATTCAGTGAAACATCT	0.338													19	49	---	---	---	---	PASS	T	120764491	T	T	120764491	3	4	99	1	0	0	0	0	1	0	0	0	2405	1029	36	3	1051	3	C7orf58	7	120764491	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	7246665	120764491	38374172	327	36958										
C7orf58	79974	broad.mit.edu	37	chr7	120935621	120935621	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cactgtaacaaattttcgatCgccatatcatgtcagaggtc	7	10	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:120935621C>G	uc003vjq.3	+	23	3443	c.2996C>G	c.(2995-2997)TCG>TGG	p.S999W		NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	999						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					AATTTTCGATCGCCATATCAT	0.363													12	44	---	---	---	---	PASS	G	120935621	G	G	120935621	3	3	99	1	0	0	0	0	1	0	0	0	2405	893	31	2	3128	2	C7orf58	7	120935621	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	171130	120935621	38203042	328	36959										
AASS	10157	broad.mit.edu	37	chr7	121731879	121731879	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggctggaagcccaccacagtAggaaatatatgattcaatct	9	9	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:121731879A>G	uc003vka.2	-	17	1990	c.1894T>C	c.(1894-1896)TAC>CAC	p.Y632H	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.Y632H|AASS_uc011knw.1_Missense_Mutation_p.Y120H	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	632	Saccharopine dehydrogenase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	CCACCACAGTAGGAAATATAT	0.333													3	18	---	---	---	---	PASS	G	121731879	G	G	121731879	3	3	99	1	0	0	0	0	1	0	0	0	24	420	15	5	914	5	AASS	7	121731879	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	796258	121731879	37406784	329	36960										
GRM8	2918	broad.mit.edu	37	chr7	126173172	126173172	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgaccatcaagaggatactgTatccaagtgaacaaatgagt	9	7	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:126173172T>C	uc003vlr.2	-	8	2575	c.2264A>G	c.(2263-2265)TAC>TGC	p.Y755C	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.Y755C|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	755	Helical; Name=5; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	GAGGATACTGTATCCAAGTGA	0.433										HNSCC(24;0.065)			8	17	---	---	---	---	PASS	C	126173172	C	C	126173172	3	2	99	1	0	0	0	0	1	0	0	0	6803	1638	57	5	524	5	GRM8	7	126173172	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	4441293	126173172	32965491	330	36961										
GRM8	2918	broad.mit.edu	37	chr7	126882901	126882901	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tttctctattaatgcctgcaCgaatgttagagactgctcca	7	10	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:126882901C>A	uc003vlr.2	-	1	669	c.358G>T	c.(358-360)GTG>TTG	p.V120L	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.V120L|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	120	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	AATGCCTGCACGAATGTTAGA	0.493										HNSCC(24;0.065)			9	33	---	---	---	---	PASS	A	126882901	A	A	126882901	3	1	99	1	0	0	0	0	1	0	0	0	6803	536	19	1	2458	1	GRM8	7	126882901	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	709729	126882901	32255762	331	36962										
FLNC	2318	broad.mit.edu	37	chr7	128488892	128488892	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccaacatccgggacaatgggGatggcacgtacactgtgtcc	12	12	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:128488892G>T	uc003vnz.3	+	28	4992	c.4783G>T	c.(4783-4785)GAT>TAT	p.D1595Y	FLNC_uc003voa.3_Missense_Mutation_p.D1595Y	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1595	Filamin 14.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GGACAATGGGGATGGCACGTA	0.612													6	35	---	---	---	---	PASS	T	128488892	T	T	128488892	3	4	99	1	0	0	0	0	1	0	0	0	5935	1174	41	2	4893	2	FLNC	7	128488892	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1605991	128488892	30649771	332	36963										
DGKI	9162	broad.mit.edu	37	chr7	137080431	137080431	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tggcaggcagccttgtgcagTgcagtctcacccctaaatca	10	13	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:137080431T>G	uc003vtt.2	-	33	2995	c.2994A>C	c.(2992-2994)GCA>GCC	p.A998A	DGKI_uc003vtu.2_Silent_p.A667A	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	998	ANK 2.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						CCTTGTGCAGTGCAGTCTCAC	0.562													3	23	---	---	---	---	PASS	G	137080431	G	G	137080431	2	3	99	1	0	0	0	0	0	0	0	1	4471	1683	59	5		5	DGKI	7	137080431	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	8591539	137080431	22058232	333	36964										
TAS2R5	54429	broad.mit.edu	37	chr7	141491034	141491034	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagatcctgtggaagacagtGtgtgctcggagatgctgggg	17	6	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:141491034G>T	uc003vwr.1	+	1	1018	c.873G>T	c.(871-873)GTG>GTT	p.V291V		NM_018980	NP_061853	Q9NYW4	TA2R5_HUMAN	taste receptor T2R5	291	Cytoplasmic (Potential).				chemosensory behavior|sensory perception of taste		taste receptor activity				0	Melanoma(164;0.0171)					GGAAGACAGTGTGTGCTCGGA	0.493													12	61	---	---	---	---	PASS	T	141491034	T	T	141491034	2	4	99	1	0	0	0	0	0	0	0	1	15580	1364	48	3		3	TAS2R5	7	141491034	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	4410603	141491034	17647629	334	36965										
TRPV5	56302	broad.mit.edu	37	chr7	142630466	142630466	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atgaagcttgtccaggtgctGgtcccagtcttgttctctga	11	10	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:142630466G>T	uc003wby.1	-	1	355	c.91C>A	c.(91-93)CAG>AAG	p.Q31K	TRPV5_uc003wbz.2_Missense_Mutation_p.Q31K	NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	31	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					TCCAGGTGCTGGTCCCAGTCT	0.567													7	52	---	---	---	---	PASS	T	142630466	T	T	142630466	3	4	99	1	0	0	0	0	1	0	0	0	16596	1357	47	3	2158	3	TRPV5	7	142630466	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1139432	142630466	16508197	335	36966										
TAS2R40	259286	broad.mit.edu	37	chr7	142919978	142919978	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctatttctttccacgtccaaCatctttgacacttacagttc	3	13	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:142919978C>G	uc011ksx.1	+	1	807	c.807C>G	c.(805-807)AAC>AAG	p.N269K		NM_176882	NP_795363	P59535	T2R40_HUMAN	taste receptor, type 2, member 40	269	Extracellular (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			ovary(1)	1	Melanoma(164;0.059)					CCACGTCCAACATCTTTGACA	0.483													10	93	---	---	---	---	PASS	G	142919978	G	G	142919978	3	3	99	1	0	0	0	0	1	0	0	0	15575	477	17	4	809	4	TAS2R40	7	142919978	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	289512	142919978	16218685	336	36967										
TMEM139	135932	broad.mit.edu	37	chr7	142983078	142983078	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caatgcacttactggggagaCtggagaagccgcttctcctc	11	12	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:142983078C>A	uc010lov.2	+	3	167	c.28C>A	c.(28-30)CTG>ATG	p.L10M	CASP2_uc003wco.2_5'Flank|CASP2_uc003wcp.2_5'Flank|CASP2_uc011kta.1_5'Flank|TMEM139_uc003wck.3_Missense_Mutation_p.L10M|TMEM139_uc003wcl.2_Missense_Mutation_p.L10M|TMEM139_uc003wcm.2_Missense_Mutation_p.L10M|TMEM139_uc003wcn.2_Intron	NM_153345	NP_699176	Q8IV31	TM139_HUMAN	transmembrane protein 139 precursor	10						integral to membrane					0	Melanoma(164;0.059)					ACTGGGGAGACTGGAGAAGCC	0.547													12	34	---	---	---	---	PASS	A	142983078	A	A	142983078	3	1	99	1	0	0	0	0	1	0	0	0	16051	564	20	3	30	3	TMEM139	7	142983078	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	63100	142983078	16155585	337	36968										
OR6B1	135946	broad.mit.edu	37	chr7	143701614	143701614	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgtggtcccaatgtcatcaaCcacttcttctgtgacatctc	6	13	5	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:143701614C>A	uc003wdt.1	+	1	525	c.525C>A	c.(523-525)AAC>AAA	p.N175K		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					ATGTCATCAACCACTTCTTCT	0.498													13	39	---	---	---	---	PASS	A	143701614	A	A	143701614	3	1	99	1	0	0	0	0	1	0	0	0	11187	506	18	3	527	3	OR6B1	7	143701614	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	718536	143701614	15437049	338	36969										
CNTNAP2	26047	broad.mit.edu	37	chr7	147914555	147914555	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agcaccaccaaggcgccctgCattctcctctacatcagctc	6	18	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:147914555C>T	uc003weu.1	+	19	3702	c.3186C>T	c.(3184-3186)TGC>TGT	p.C1062C		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	1062	Laminin G-like 4.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			AGGCGCCCTGCATTCTCCTCT	0.562										HNSCC(39;0.1)			17	66	---	---	---	---	PASS	T	147914555	T	T	147914555	2	4	99	1	0	0	0	0	0	0	0	1	3647	718	25	3		3	CNTNAP2	7	147914555	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	4212941	147914555	11224108	339	36970										
KRBA1	84626	broad.mit.edu	37	chr7	149419958	149419958	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgggccccggcaccccgagaCatccccaagcttcttgccac	9	19	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:149419958C>T	uc003wfz.2	+	7	1082	c.683C>T	c.(682-684)ACA>ATA	p.T228I	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_5'Flank	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	228										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CACCCCGAGACATCCCCAAGC	0.622													4	24	---	---	---	---	PASS	T	149419958	T	T	149419958	3	4	99	1	0	0	0	0	1	0	0	0	8439	478	17	3	705	3	KRBA1	7	149419958	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1505403	149419958	9718705	340	36971										
ABP1	26	broad.mit.edu	37	chr7	150554679	150554679	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcagaccaagtacctcgatgTcggctggggcctgggcagcg	16	12	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:150554679T>A	uc003why.1	+	3	5339	c.1121T>A	c.(1120-1122)GTC>GAC	p.V374D	ABP1_uc003whz.1_Missense_Mutation_p.V374D|ABP1_uc003wia.1_Missense_Mutation_p.V374D	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	374					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	TACCTCGATGTCGGCTGGGGC	0.607													7	55	---	---	---	---	PASS	A	150554679	A	A	150554679	3	1	99	1	0	0	0	0	1	0	0	0	98	1667	58	5	1123	5	ABP1	7	150554679	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	1134721	150554679	8583984	341	36972										
KCNH2	3757	broad.mit.edu	37	chr7	150645948	150645948	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agggcagccaactcacatctCgcaggttgaaggtgatctcc	11	12	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:150645948C>T	uc003wic.2	-	10	2601	c.2588G>A	c.(2587-2589)CGA>CAA	p.R863Q	KCNH2_uc003wib.2_Missense_Mutation_p.R523Q|KCNH2_uc011kux.1_Missense_Mutation_p.R767Q	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	863	Cytoplasmic (Potential).				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	ACTCACATCTCGCAGGTTGAA	0.458													3	19	---	---	---	---	PASS	T	150645948	T	T	150645948	3	4	99	1	0	0	0	0	1	0	0	0	8032	884	31	2	915	2	KCNH2	7	150645948	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	91269	150645948	8492715	342	36973										
ACCN3	9311	broad.mit.edu	37	chr7	150746350	150746350	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcagagcacgccgccttcctGcgcgccctgggccggccccc	13	21	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr7:150746350G>T	uc003win.2	+	1	746	c.378G>T	c.(376-378)CTG>CTT	p.L126L	ACCN3_uc003wio.2_Silent_p.L126L|ACCN3_uc003wip.2_Silent_p.L126L|ACCN3_uc003wiq.2_RNA	NM_004769	NP_004760	Q9UHC3	ACCN3_HUMAN	amiloride-sensitive cation channel 3 isoform a	126	Extracellular (Potential).				sensory perception|signal transduction	cytoplasm|integral to plasma membrane	ligand-gated sodium channel activity			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CCGCCTTCCTGCGCGCCCTGG	0.692													11	33	---	---	---	---	PASS	T	150746350	T	T	150746350	2	4	99	1	0	0	0	0	0	0	0	1	130	1306	46	3		3	ACCN3	7	150746350	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	100402	150746350	8392313	343	36974										
CSMD1	64478	broad.mit.edu	37	chr8	2975995	2975995	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgaggacaggatggcctattAgaatgtacccaggataacac	11	8	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:2975995A>T	uc011kwk.1	-	42	6749	c.6359T>A	c.(6358-6360)CTA>CAA	p.L2120Q	CSMD1_uc011kwj.1_Missense_Mutation_p.L1512Q|CSMD1_uc010lrg.2_Missense_Mutation_p.L188Q	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2120	Extracellular (Potential).|Sushi 12.					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)		ATGGCCTATTAGAATGTACCC	0.468													17	24	---	---	---	---	PASS	T	2975995	T	T	2975995	3	4	99	1	0	0	0	0	1	0	0	0	3944	420	15	5	4454	5	CSMD1	8	2975995	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08		2975995	143388027	344	36975										
BLK	640	broad.mit.edu	37	chr8	11421500	11421500	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccgcccgagctgtaccgcggCgtcatcgccgagtgctggcg	15	16	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:11421500C>G	uc003wty.2	+	13	1982	c.1401C>G	c.(1399-1401)GGC>GGG	p.G467G	BLK_uc003wtz.2_Silent_p.G396G|BLK_uc003wua.2_Silent_p.G303G	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	467	Protein kinase.				intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		TGTACCGCGGCGTCATCGCCG	0.711													6	11	---	---	---	---	PASS	G	11421500	G	G	11421500	2	3	99	1	0	0	0	0	0	0	0	1	1444	755	27	4		4	BLK	8	11421500	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	8445505	11421500	134942522	345	36976										
PCM1	5108	broad.mit.edu	37	chr8	17838119	17838119	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gggtatgaaagtgccagtatGtctagcacatgtgaaccttg	12	7	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:17838119G>A	uc003wyi.3	+	24	4385	c.3963G>A	c.(3961-3963)ATG>ATA	p.M1321I	PCM1_uc011kyh.1_Missense_Mutation_p.M1321I|PCM1_uc003wyj.3_Intron|PCM1_uc011kyi.1_Intron|PCM1_uc011kyj.1_Missense_Mutation_p.M58I|PCM1_uc003wyk.3_Intron|PCM1_uc011kyk.1_5'Flank	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	1321	Interaction with HAP1.				centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		GTGCCAGTATGTCTAGCACAT	0.398			T	RET|JAK2	papillary thyroid|CML|MPD								22	46	---	---	---	---	PASS	A	17838119	A	A	17838119	3	1	99	1	0	0	0	0	1	0	0	0	11584	1377	48	3	4049	3	PCM1	8	17838119	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	6416619	17838119	128525903	346	36977										
PXDNL	137902	broad.mit.edu	37	chr8	52258501	52258501	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctctgaactgtcctctactcCtacagtctgtggggaaagaa	9	11	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:52258501C>A	uc003xqu.3	-	20	4009	c.3908G>T	c.(3907-3909)AGG>ATG	p.R1303M	PXDNL_uc003xqt.3_Intron	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1303					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TCCTCTACTCCTACAGTCTGT	0.428													4	40	---	---	---	---	PASS	A	52258501	A	A	52258501	3	1	99	1	0	0	0	0	1	0	0	0	12848	681	24	3	499	3	PXDNL	8	52258501	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	34420382	52258501	94105521	347	36978										
PXDNL	137902	broad.mit.edu	37	chr8	52320778	52320778	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aatgatggtggcagccgaatCcacggccgcagaataagccg	13	11	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:52320778C>T	uc003xqu.3	-	17	3507	c.3406G>A	c.(3406-3408)GAT>AAT	p.D1136N	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1136					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GCAGCCGAATCCACGGCCGCA	0.532													19	68	---	---	---	---	PASS	T	52320778	T	T	52320778	3	4	99	1	0	0	0	0	1	0	0	0	12848	855	30	2	1013	2	PXDNL	8	52320778	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	62277	52320778	94043244	348	36979										
PXDNL	137902	broad.mit.edu	37	chr8	52321169	52321169	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atgtgctgcagctccgcgccCacgatcttcctggcttcctg	10	16	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:52321169C>A	uc003xqu.3	-	17	3116	c.3015G>T	c.(3013-3015)GTG>GTT	p.V1005V	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1005					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GCTCCGCGCCCACGATCTTCC	0.627													5	5	---	---	---	---	PASS	A	52321169	A	A	52321169	2	1	99	1	0	0	0	0	0	0	0	1	12848	581	21	3		3	PXDNL	8	52321169	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	391	52321169	94042853	349	36980										
CPA6	57094	broad.mit.edu	37	chr8	68334855	68334855	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tccaaaatatccagtgtcacGtagttcgaaagcaaatgcat	7	9	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:68334855G>T	uc003xxq.3	-	11	1454	c.1198C>A	c.(1198-1200)CGT>AGT	p.R400S	CPA6_uc003xxr.3_Missense_Mutation_p.R156S	NM_020361	NP_065094	Q8N4T0	CBPA6_HUMAN	carboxypeptidase A6 isoform 1 precursor	400					proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)			CCAGTGTCACGTAGTTCGAAA	0.383													24	73	---	---	---	---	PASS	T	68334855	T	T	68334855	3	4	99	1	0	0	0	0	1	0	0	0	3794	1145	40	1	119	1	CPA6	8	68334855	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	16013686	68334855	78029167	350	36981										
PREX2	80243	broad.mit.edu	37	chr8	69030786	69030786	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgaaacctgttgttttcagtGactgcaacagcaataggaat	9	7	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:69030786G>T	uc003xxv.1	+	27	3355	c.3328G>T	c.(3328-3330)GAC>TAC	p.D1110Y		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1110					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TGTTTTCAGTGACTGCAACAG	0.423													15	41	---	---	---	---	PASS	T	69030786	T	T	69030786	3	4	99	1	0	0	0	0	1	0	0	0	12477	1304	45	2	3663	2	PREX2	8	69030786	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	695931	69030786	77333236	351	36982										
PREX2	80243	broad.mit.edu	37	chr8	69104759	69104759	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgtgcagcagcggtgtgcatCggtatgtgaccctcccgcct	13	13	0	1	rs139672596		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:69104759C>G	uc003xxv.1	+	37	4630	c.4603C>G	c.(4603-4605)CGG>GGG	p.R1535G		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1535					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CGGTGTGCATCGGTATGTGAC	0.488													7	23	---	---	---	---	PASS	G	69104759	G	G	69104759	3	3	99	1	0	0	0	0	1	0	0	0	12477	898	31	2	4978	2	PREX2	8	69104759	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	73973	69104759	77259263	352	36983										
TERF1	7013	broad.mit.edu	37	chr8	73921123	73921123	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cccaagcgagccatttaacaTggcggaggatgtttcctcag	11	11	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:73921123T>C	uc003xzd.2	+	1	27	c.2T>C	c.(1-3)ATG>ACG	p.M1T	TERF1_uc003xzc.2_RNA|TERF1_uc003xze.2_Missense_Mutation_p.M1T	NM_017489	NP_059523	P54274	TERF1_HUMAN	telomeric repeat binding factor 1 isoform 1	1					age-dependent telomere shortening|cell division|G2/M transition of mitotic cell cycle|induction of apoptosis|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of telomere maintenance via semi-conservative replication|negative regulation of telomere maintenance via telomerase|positive regulation of microtubule polymerization|positive regulation of mitosis|positive regulation of mitotic cell cycle|protein homooligomerization|regulation of transcription, DNA-dependent|telomere maintenance via telomerase|telomere maintenance via telomerase|telomere maintenance via telomere shortening	chromosome, telomeric region|cytoplasm|nuclear telomere cap complex|nucleoplasm|nucleus|spindle	caspase activator activity|DNA bending activity|double-stranded telomeric DNA binding|identical protein binding|microtubule binding|protein heterodimerization activity|protein homodimerization activity|telomerase inhibitor activity|telomeric DNA binding			ovary(1)|lung(1)|skin(1)	3	Breast(64;0.218)		Epithelial(68;0.0984)			CCATTTAACATGGCGGAGGAT	0.642													3	4	---	---	---	---	PASS	C	73921123	C	C	73921123	3	2	99	1	0	0	0	0	1	0	0	0	15758	1464	51	5	4	5	TERF1	8	73921123	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	4816364	73921123	72442899	353	36984										
ZFHX4	79776	broad.mit.edu	37	chr8	77761870	77761871	+	Frame_Shift_Ins	INS	-	A	A													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctgtcaggacgtcctcagcINSaacaaaatgcatctccaact							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:77761870_77761871insA	uc003yav.2	+	8	4020_4021	c.3633_3634insA	c.(3631-3636)AGCAACfs	p.S1211fs	ZFHX4_uc003yau.1_Frame_Shift_Ins_p.S1256fs|ZFHX4_uc003yaw.1_Frame_Shift_Ins_p.S1211fs	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1211_1212	C2H2-type 9.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACGTCCTCAGCAACAAAATGCA	0.49										HNSCC(33;0.089)			57	27	---	---	---	---		A	77761871	A	A	77761870	7	5	99	1	0	1	1	0	0	0	0	0	17632	709	25	0	3794	0	ZFHX4	8	77761870	Frame_Shift_Ins	INS	-	TCGA-43-5668-01A-01D-1632-08	3840747	77761870	68602152	354	36985										
ZFHX4	79776	broad.mit.edu	37	chr8	77763598	77763598	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaactatgtcccaggatgacCatggcctagagcaggaaatg	11	9	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:77763598C>A	uc003yav.2	+	10	4693	c.4306C>A	c.(4306-4308)CAT>AAT	p.H1436N	ZFHX4_uc003yau.1_Missense_Mutation_p.H1481N|ZFHX4_uc003yaw.1_Missense_Mutation_p.H1436N	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1436						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCAGGATGACCATGGCCTAGA	0.507										HNSCC(33;0.089)			6	17	---	---	---	---	PASS	A	77763598	A	A	77763598	3	1	99	1	0	0	0	0	1	0	0	0	17632	594	21	3	4475	3	ZFHX4	8	77763598	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1728	77763598	68600424	355	36986										
ZFHX4	79776	broad.mit.edu	37	chr8	77766706	77766706	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aacaccagcacatgcacttcCttgctgctcaaaaccaattc	4	15	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:77766706C>T	uc003yav.2	+	10	7801	c.7414C>T	c.(7414-7416)CTT>TTT	p.L2472F	ZFHX4_uc003yau.1_Missense_Mutation_p.L2517F|ZFHX4_uc003yaw.1_Missense_Mutation_p.L2472F	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2472						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CATGCACTTCCTTGCTGCTCA	0.483										HNSCC(33;0.089)			34	115	---	---	---	---	PASS	T	77766706	T	T	77766706	3	4	99	1	0	0	0	0	1	0	0	0	17632	681	24	3	7583	3	ZFHX4	8	77766706	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3108	77766706	68597316	356	36987										
SLC7A13	157724	broad.mit.edu	37	chr8	87226774	87226774	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agtaatccgctgagaactaaCagaagcacgtagacataatg	9	8	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:87226774C>G	uc003ydq.1	-	4	1379	c.1281G>C	c.(1279-1281)CTG>CTC	p.L427L	SLC7A13_uc003ydr.1_3'UTR	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	427	Helical; Name=12; (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						TGAGAACTAACAGAAGCACGT	0.338													11	37	---	---	---	---	PASS	G	87226774	G	G	87226774	2	3	99	1	0	0	0	0	0	0	0	1	14695	465	17	4		4	SLC7A13	8	87226774	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	9460068	87226774	59137248	357	36988										
GDF6	392255	broad.mit.edu	37	chr8	97156891	97156891	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgctgatgggagtcaatttgGtgggcacgcagcagctgggc	17	8	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:97156891G>T	uc003yhp.2	-	2	1368	c.1268C>A	c.(1267-1269)ACC>AAC	p.T423N		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	423					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					AGTCAATTTGGTGGGCACGCA	0.607													7	19	---	---	---	---	PASS	T	97156891	T	T	97156891	3	4	99	1	0	0	0	0	1	0	0	0	6317	1261	44	3	103	3	GDF6	8	97156891	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	9930117	97156891	49207131	358	36989										
PTDSS1	9791	broad.mit.edu	37	chr8	97316352	97316352	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acctatgttcgatggtttgaCcccaaatcttcttttcagag	7	10	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:97316352C>T	uc003yht.1	+	7	939	c.837C>T	c.(835-837)GAC>GAT	p.D279D	PTDSS1_uc003yhu.1_Silent_p.D133D	NM_014754	NP_055569	P48651	PTSS1_HUMAN	phosphatidylserine synthase 1	279					phosphatidylserine biosynthetic process	integral to membrane	transferase activity			ovary(1)	1	Breast(36;6.18e-05)				Phosphatidylserine(DB00144)	GATGGTTTGACCCCAAATCTT	0.448													30	156	---	---	---	---	PASS	T	97316352	T	T	97316352	2	4	99	1	0	0	0	0	0	0	0	1	12736	506	18	3		3	PTDSS1	8	97316352	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	159461	97316352	49047670	359	36990										
UBR5	51366	broad.mit.edu	37	chr8	103306322	103306322	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttggagttctttcactagtgTacctagtagagtatctaaaa	8	6	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:103306322T>A	uc003ykr.1	-	33	4243	c.4210A>T	c.(4210-4212)ACA>TCA	p.T1404S	UBR5_uc003yks.1_Missense_Mutation_p.T1404S	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1404					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TTCACTAGTGTACCTAGTAGA	0.313													6	41	---	---	---	---	PASS	A	103306322	A	A	103306322	3	1	99	1	0	0	0	0	1	0	0	0	16902	1638	57	5	4297	5	UBR5	8	103306322	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	5989970	103306322	43057700	360	36991										
RIMS2	9699	broad.mit.edu	37	chr8	104987671	104987671	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgttcaccatcagggtctcCtcatcgagtagatgttatag	9	10	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:104987671C>A	uc003yls.2	+	14	2439	c.2198C>A	c.(2197-2199)CCT>CAT	p.P733H	RIMS2_uc003ylp.2_Missense_Mutation_p.P955H|RIMS2_uc003ylw.2_Missense_Mutation_p.P747H|RIMS2_uc003ylq.2_Missense_Mutation_p.P747H|RIMS2_uc003ylr.2_Missense_Mutation_p.P794H|RIMS2_uc003ylt.2_Missense_Mutation_p.P340H	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1017					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TCAGGGTCTCCTCATCGAGTA	0.423										HNSCC(12;0.0054)			12	35	---	---	---	---	PASS	A	104987671	A	A	104987671	3	1	99	1	0	0	0	0	1	0	0	0	13368	681	24	3	3052	3	RIMS2	8	104987671	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1681349	104987671	41376351	361	36992										
DPYS	1807	broad.mit.edu	37	chr8	105405189	105405189	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcgaaaatgttgaagttaacAgcctgatgatgagtttttgc	10	5	0	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:105405189A>C	uc003yly.3	-	8	1395	c.1266T>G	c.(1264-1266)GCT>GCG	p.A422A	DPYS_uc010mcf.1_5'UTR	NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	422					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			TGAAGTTAACAGCCTGATGAT	0.393													14	71	---	---	---	---	PASS	C	105405189	C	C	105405189	2	2	99	1	0	0	0	0	0	0	0	1	4746	175	7	5		5	DPYS	8	105405189	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	417518	105405189	40958833	362	36993										
CSMD3	114788	broad.mit.edu	37	chr8	113301596	113301596	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caattttccaagtggtacctGaacaatgaggttgtgatcca	9	8	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:113301596G>A	uc003ynu.2	-	57	9305	c.9146C>T	c.(9145-9147)TCA>TTA	p.S3049L	CSMD3_uc003yns.2_Missense_Mutation_p.S2251L|CSMD3_uc003ynt.2_Missense_Mutation_p.S3009L|CSMD3_uc011lhx.1_Missense_Mutation_p.S2880L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3049	Sushi 21.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGTGGTACCTGAACAATGAGG	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			32	87	---	---	---	---	PASS	A	113301596	A	A	113301596	3	1	99	1	0	0	0	0	1	0	0	0	3946	1294	45	2	2037	2	CSMD3	8	113301596	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	7896407	113301596	33062426	363	36994										
CSMD3	114788	broad.mit.edu	37	chr8	113697736	113697736	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	taagatgggaaggcacctcaGccccagtaaaggttccaaga	11	10	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:113697736G>T	uc003ynu.2	-	15	2540	c.2381C>A	c.(2380-2382)GCT>GAT	p.A794D	CSMD3_uc003yns.2_Missense_Mutation_p.A66D|CSMD3_uc003ynt.2_Missense_Mutation_p.A754D|CSMD3_uc011lhx.1_Missense_Mutation_p.A690D	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	794	Extracellular (Potential).|CUB 4.					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						AGGCACCTCAGCCCCAGTAAA	0.438										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			14	69	---	---	---	---	PASS	T	113697736	T	T	113697736	3	4	99	1	0	0	0	0	1	0	0	0	3946	971	34	3	8970	3	CSMD3	8	113697736	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	396140	113697736	32666286	364	36995										
EXT1	2131	broad.mit.edu	37	chr8	118812099	118812099	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgcagctctgtcgctgggcaAagtggtcagggtcagcccaa	14	11	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:118812099A>G	uc003yok.1	-	11	2866	c.2093T>C	c.(2092-2094)TTT>TCT	p.F698S		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	698	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			TCGCTGGGCAAAGTGGTCAGG	0.522			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				13	28	---	---	---	---	PASS	G	118812099	G	G	118812099	3	3	99	1	0	0	0	0	1	0	0	0	5323	14	1	5	151	5	EXT1	8	118812099	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	5114363	118812099	27551923	365	36996										
KCNQ3	3786	broad.mit.edu	37	chr8	133153497	133153497	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcttctatggcatctacattCagaggggtaaatagctttcc	8	9	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:133153497C>A	uc003ytj.2	-	10	1569	c.1344G>T	c.(1342-1344)CTG>CTT	p.L448L	KCNQ3_uc010mdt.2_Silent_p.L448L	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	448					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			CATCTACATTCAGAGGGGTAA	0.443													29	92	---	---	---	---	PASS	A	133153497	A	A	133153497	2	1	99	1	0	0	0	0	0	0	0	1	8084	813	29	2		2	KCNQ3	8	133153497	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	14341398	133153497	13210525	366	36997										
LRRC6	23639	broad.mit.edu	37	chr8	133645013	133645013	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cattgatgtctgtgtaccaaCgtccatcaaagcctgcgtta	8	11	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:133645013C>T	uc003ytk.2	-	5	700	c.626G>A	c.(625-627)CGT>CAT	p.R209H	LRRC6_uc003ytl.2_RNA	NM_012472	NP_036604	Q86X45	LRRC6_HUMAN	leucine rich repeat containing 6	209						cytoplasm				ovary(1)|kidney(1)	2	Ovarian(258;0.00352)|Esophageal squamous(12;0.00507)|all_neural(3;0.0052)|Medulloblastoma(3;0.0922)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			TGTGTACCAACGTCCATCAAA	0.378													27	210	---	---	---	---	PASS	T	133645013	T	T	133645013	3	4	99	1	0	0	0	0	1	0	0	0	9016	536	19	1	806	1	LRRC6	8	133645013	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	491516	133645013	12719009	367	36998										
TG	7038	broad.mit.edu	37	chr8	133961149	133961149	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	catatgaccaggagagccacCaggtgatattgcgtcttgga	12	9	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:133961149C>A	uc003ytw.2	+	27	5403	c.5362C>A	c.(5362-5364)CAG>AAG	p.Q1788K	TG_uc010mdw.2_Missense_Mutation_p.Q547K|TG_uc011ljb.1_Missense_Mutation_p.Q157K	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1788	Type IIIB.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GGAGAGCCACCAGGTGATATT	0.473													28	103	---	---	---	---	PASS	A	133961149	A	A	133961149	3	1	99	1	0	0	0	0	1	0	0	0	15810	595	21	3	5468	3	TG	8	133961149	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	316136	133961149	12402873	368	36999										
FAM135B	51059	broad.mit.edu	37	chr8	139151241	139151241	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccactgacctgttttttggcTtagttggtagaggaaacatt	10	7	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:139151241T>A	uc003yuy.2	-	18	4060	c.3889A>T	c.(3889-3891)AGC>TGC	p.S1297C	FAM135B_uc003yux.2_Missense_Mutation_p.S1198C|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1297										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)			GTTTTTTGGCTTAGTTGGTAG	0.443										HNSCC(54;0.14)			9	49	---	---	---	---	PASS	A	139151241	A	A	139151241	3	1	99	1	0	0	0	0	1	0	0	0	5449	1609	56	5	343	5	FAM135B	8	139151241	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	5190092	139151241	7212781	369	37000										
TSNARE1	203062	broad.mit.edu	37	chr8	143425749	143425749	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccgccatccggccatggggcCcagcagccgagtccttcctc	11	19	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:143425749C>A	uc003ywk.2	-	4	441	c.323G>T	c.(322-324)GGG>GTG	p.G108V	TSNARE1_uc011lju.1_Missense_Mutation_p.G108V|TSNARE1_uc003ywj.2_Missense_Mutation_p.G108V|TSNARE1_uc003ywl.3_Intron	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	108					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GCCATGGGGCCCAGCAGCCGA	0.672													4	3	---	---	---	---	PASS	A	143425749	A	A	143425749	3	1	99	1	0	0	0	0	1	0	0	0	16627	623	22	3	1258	3	TSNARE1	8	143425749	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	4274508	143425749	2938273	370	37001										
FAM83H	286077	broad.mit.edu	37	chr8	144809011	144809011	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccccttccgctcagggtaagCcgaggtggggctcccttttg	13	14	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:144809011C>A	uc003yzk.2	-	5	2689	c.2620G>T	c.(2620-2622)GCT>TCT	p.A874S	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	874					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	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)			TCAGGGTAAGCCGAGGTGGGG	0.622													8	24	---	---	---	---	PASS	A	144809011	A	A	144809011	3	1	99	1	0	0	0	0	1	0	0	0	5640	739	26	3	923	3	FAM83H	8	144809011	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1383262	144809011	1555011	371	37002										
KIFC2	90990	broad.mit.edu	37	chr8	145697789	145697789	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gagcgcctggccgtgaggcaGggcccagaaggccagggcgg	20	12	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr8:145697789G>T	uc003zcz.2	+	15	1718	c.1653G>T	c.(1651-1653)CAG>CAT	p.Q551H	KIFC2_uc003zda.2_5'Flank	NM_145754	NP_665697	Q96AC6	KIFC2_HUMAN	kinesin family member C2	551	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CCGTGAGGCAGGGCCCAGAAG	0.652													12	17	---	---	---	---	PASS	T	145697789	T	T	145697789	3	4	99	1	0	0	0	0	1	0	0	0	8313	991	35	3	1711	3	KIFC2	8	145697789	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	888778	145697789	666233	372	37003										
FREM1	158326	broad.mit.edu	37	chr9	14759788	14759788	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acctttatacccacaaaggcCgagtccatggaatatcccct	6	14	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:14759788C>A	uc003zlm.2	-	28	5906	c.5316G>T	c.(5314-5316)TCG>TCT	p.S1772S	FREM1_uc010mic.2_Intron|FREM1_uc003zlk.2_RNA|FREM1_uc003zll.2_Silent_p.S308S	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1772	Calx-beta.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		CCACAAAGGCCGAGTCCATGG	0.353													21	47	---	---	---	---	PASS	A	14759788	A	A	14759788	2	1	99	1	0	0	0	0	0	0	0	1	6044	639	23	1		1	FREM1	9	14759788	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08		14759788	126453643	373	37004										
TAF1L	138474	broad.mit.edu	37	chr9	32630258	32630258	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttcgtcactcccagcatcttCctcatcatcttctccttcag	3	17	7	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:32630258C>A	uc003zrg.1	-	1	5410	c.5320G>T	c.(5320-5322)GAA>TAA	p.E1774*		NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1774					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CCAGCATCTTCCTCATCATCT	0.453													22	63	---	---	---	---	PASS	A	32630258	A	A	32630258	4	1	99	1	0	0	0	0	0	1	0	0	15520	864	30	2	164	2	TAF1L	9	32630258	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	17870470	32630258	108583173	374	37005										
C9orf24	84688	broad.mit.edu	37	chr9	34382827	34382827	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggttccatcctccatgtgttGtaccagtcactgcccaggta	9	13	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:34382827G>T	uc003zuh.1	-	3	539	c.321C>A	c.(319-321)TAC>TAA	p.Y107*	C9orf24_uc003zug.1_5'Flank|C9orf24_uc003zuf.1_5'Flank|C9orf24_uc003zui.1_5'Flank	NM_032596	NP_115985	Q8NCR6	CI024_HUMAN	testes development-related NYD-SP22 isoform 1	107										ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.123)		TCCATGTGTTGTACCAGTCAC	0.493													40	62	---	---	---	---	PASS	T	34382827	T	T	34382827	4	4	99	1	0	0	0	0	0	1	0	0	2475	1372	48	3	593	3	C9orf24	9	34382827	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1752569	34382827	106830604	375	37006										
PCSK5	5125	broad.mit.edu	37	chr9	78804654	78804654	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtgtcaaatgggagccatttGcaaggatggtgagtacaact	13	6	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:78804654G>T	uc004ajz.2	+	20	3156	c.2618G>T	c.(2617-2619)TGC>TTC	p.C873F	PCSK5_uc004aka.2_RNA|PCSK5_uc004akb.2_Missense_Mutation_p.C147F	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	873	PLAC.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						GGAGCCATTTGCAAGGATGGT	0.403													9	17	---	---	---	---	PASS	T	78804654	T	T	78804654	3	4	99	1	0	0	0	0	1	0	0	0	11603	1319	46	3	2696	3	PCSK5	9	78804654	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	44421827	78804654	62408777	376	37007										
GNAQ	2776	broad.mit.edu	37	chr9	80537167	80537167	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagatgttctgatacaccagCttggtgaagccccttttatc	8	10	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:80537167C>T	uc004akw.2	-	2	272	c.231G>A	c.(229-231)AAG>AAA	p.K77K		NM_002072	NP_002063	P50148	GNAQ_HUMAN	guanine nucleotide binding protein (G protein),	77					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|glutamate signaling pathway|negative regulation of protein kinase activity|platelet activation|protein ADP-ribosylation|protein stabilization|regulation of action potential|regulation of catenin import into nucleus	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activator activity|GTPase activity|signal transducer activity			eye(136)|skin(44)|meninges(11)|ovary(1)|kidney(1)	193						GATACACCAGCTTGGTGAAGC	0.473			Mis		uveal melanoma								38	81	---	---	---	---	PASS	T	80537167	T	T	80537167	2	4	99	1	0	0	0	0	0	0	0	1	6509	796	28	3		3	GNAQ	9	80537167	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1732513	80537167	60676264	377	37008										
C9orf79	286234	broad.mit.edu	37	chr9	90503468	90503468	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tccgcgcccaggagaatgtgCcttcctgctgccacaggggt	13	14	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:90503468C>A	uc004app.3	+	4	4101	c.4066C>A	c.(4066-4068)CCT>ACT	p.P1356T		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	1356						integral to membrane				ovary(3)	3						GGAGAATGTGCCTTCCTGCTG	0.602													5	27	---	---	---	---	PASS	A	90503468	A	A	90503468	3	1	99	1	0	0	0	0	1	0	0	0	2497	739	26	3	4080	3	C9orf79	9	90503468	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	9966301	90503468	50709963	378	37009										
LOC286238	286238	broad.mit.edu	37	chr9	91262379	91262379	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctggccagccacagggaagCatgtcccgtgtctgccactc	12	15	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:91262379C>A	uc010mql.1	-	2	397	c.264G>T	c.(262-264)ATG>ATT	p.M88I		NM_001100111	NP_001093581			hypothetical protein LOC286238												0						CACAGGGAAGCATGTCCCGTG	0.433													18	61	---	---	---	---	PASS	A	91262379	A	A	91262379	3	1	99	1	0	0	0	0	1	0	0	0	8874	710	25	3	78	3	LOC286238	9	91262379	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	758911	91262379	49951052	379	37010										
GABBR2	9568	broad.mit.edu	37	chr9	101065634	101065634	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gacgttttagaatcttctttCttctgattctgagtgaactg	8	7	5	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:101065634C>A	uc004ays.2	-	16	2457	c.2301G>T	c.(2299-2301)AAG>AAT	p.K767N		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	767	Cytoplasmic (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	AATCTTCTTTCTTCTGATTCT	0.527													17	33	---	---	---	---	PASS	A	101065634	A	A	101065634	3	1	99	1	0	0	0	0	1	0	0	0	6156	912	32	2	540	2	GABBR2	9	101065634	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	9803255	101065634	40147797	380	37011										
EPB41L4B	54566	broad.mit.edu	37	chr9	112030678	112030678	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctgcttacttacttttcatCtgcttttttatgggtttggc	7	8	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:112030678C>T	uc004bdz.1	-	3	742	c.447G>A	c.(445-447)CAG>CAA	p.Q149Q	EPB41L4B_uc004bea.2_Silent_p.Q149Q	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	149	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						TACTTTTCATCTGCTTTTTTA	0.353													4	26	---	---	---	---	PASS	T	112030678	T	T	112030678	2	4	99	1	0	0	0	0	0	0	0	1	5156	912	32	2		2	EPB41L4B	9	112030678	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	10965044	112030678	29182753	381	37012										
SVEP1	79987	broad.mit.edu	37	chr9	113251936	113251936	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	actatatcacttaccaataaCcttgatatggaaaatgcagc	5	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:113251936C>G	uc010mtz.2	-	9	2261	c.1924G>C	c.(1924-1926)GTT>CTT	p.V642L	SVEP1_uc010mua.1_Missense_Mutation_p.V642L|SVEP1_uc004beu.2_Missense_Mutation_p.V642L	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	642	HYR 1.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TTACCAATAACCTTGATATGG	0.259													4	25	---	---	---	---	PASS	G	113251936	G	G	113251936	3	3	99	1	0	0	0	0	1	0	0	0	15417	507	18	4	8951	4	SVEP1	9	113251936	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1221258	113251936	27961495	382	37013										
COL27A1	85301	broad.mit.edu	37	chr9	117020846	117020846	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tccaggatctcgaggcccacCaggcatgaggggagcaaagg	15	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:117020846C>A	uc011lxl.1	+	28	3167	c.3167C>A	c.(3166-3168)CCA>CAA	p.P1056Q	COL27A1_uc004bii.2_RNA	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1056	Pro-rich.|Collagen-like 7.|Triple-helical region.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						CGAGGCCCACCAGGCATGAGG	0.627													6	17	---	---	---	---	PASS	A	117020846	A	A	117020846	3	1	99	1	0	0	0	0	1	0	0	0	3685	594	21	3	3277	3	COL27A1	9	117020846	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3768910	117020846	24192585	383	37014										
OR5C1	392391	broad.mit.edu	37	chr9	125551984	125551984	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgtggccatgatgtacgggaCactcattttcatgtacctgc	10	11	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:125551984C>A	uc011lzd.1	+	1	773	c.773C>A	c.(772-774)ACA>AAA	p.T258K		NM_001001923	NP_001001923	Q8NGR4	OR5C1_HUMAN	olfactory receptor, family 5, subfamily C,	258	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1						ATGTACGGGACACTCATTTTC	0.602													11	48	---	---	---	---	PASS	A	125551984	A	A	125551984	3	1	99	1	0	0	0	0	1	0	0	0	11153	478	17	3	775	3	OR5C1	9	125551984	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	8531138	125551984	15661447	384	37015										
PBX3	5090	broad.mit.edu	37	chr9	128510846	128510846	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	taggaaacatgccctgaactGtcacagaatgaaaccagcgc	9	11	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:128510846G>T	uc004bqb.2	+	2	334	c.218G>T	c.(217-219)TGT>TTT	p.C73F	PBX3_uc004bqc.2_5'UTR|PBX3_uc004bqd.2_5'UTR|PBX3_uc011lzw.1_5'UTR	NM_006195	NP_006186	P40426	PBX3_HUMAN	pre-B-cell leukemia homeobox 3 isoform 1	73					anterior compartment pattern formation|posterior compartment specification		sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						GCCCTGAACTGTCACAGAATG	0.478													20	102	---	---	---	---	PASS	T	128510846	T	T	128510846	3	4	99	1	0	0	0	0	1	0	0	0	11494	1377	48	3	224	3	PBX3	9	128510846	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2958862	128510846	12702585	385	37016										
LRSAM1	90678	broad.mit.edu	37	chr9	130217333	130217333	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctaaatgtgagctctcagaGgtaaactgaggatagtgttg	12	5	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:130217333G>T	uc004brb.1	+	4	474	c.129G>T	c.(127-129)GAG>GAT	p.E43D	LRSAM1_uc010mxk.1_Missense_Mutation_p.E43D|LRSAM1_uc004brc.1_Missense_Mutation_p.E43D|LRSAM1_uc004brd.1_Missense_Mutation_p.E43D	NM_001005373	NP_001005373	Q6UWE0	LRSM1_HUMAN	leucine rich repeat and sterile alpha motif	43	LRR 1.				negative regulation of endocytosis|non-lytic virus budding|protein autoubiquitination|protein catabolic process|protein polyubiquitination|protein transport|ubiquitin-dependent endocytosis	cytoplasm|extracellular region|membrane part	hormone activity|ubiquitin-protein ligase activity|zinc ion binding				0						AGCTCTCAGAGGTAAACTGAG	0.423													4	128	---	---	---	---	PASS	T	130217333	T	T	130217333	3	4	99	1	0	0	0	0	1	0	0	0	9043	1014	35	3	135	3	LRSAM1	9	130217333	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1706487	130217333	10996098	386	37017										
LAMC3	10319	broad.mit.edu	37	chr9	133962940	133962940	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	accagccagacgcaagccacGctccaacaggcgtcccagca	9	18	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:133962940G>T	uc004caa.1	+	26	4406	c.4308G>T	c.(4306-4308)ACG>ACT	p.T1436T	LAMC3_uc010mze.1_Silent_p.T124T	NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	1436	Domain II and I.|Potential.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		CGCAAGCCACGCTCCAACAGG	0.657													8	65	---	---	---	---	PASS	T	133962940	T	T	133962940	2	4	99	1	0	0	0	0	0	0	0	1	8616	1074	38	1		1	LAMC3	9	133962940	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	3745607	133962940	7250491	387	37018										
NUP214	8021	broad.mit.edu	37	chr9	134015981	134015981	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tccagttctcatgttactttCaacagatggtgtgctttgtc	8	9	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:134015981C>T	uc004cag.2	+	11	1289	c.1178C>T	c.(1177-1179)TCA>TTA	p.S393L	NUP214_uc004cah.2_Missense_Mutation_p.S393L|NUP214_uc004caf.1_Missense_Mutation_p.S393L	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	393					carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		ATGTTACTTTCAACAGATGGT	0.378			T	DEK|SET|ABL1	AML|T-ALL								6	104	---	---	---	---	PASS	T	134015981	T	T	134015981	3	4	99	1	0	0	0	0	1	0	0	0	10762	838	29	2	1220	2	NUP214	9	134015981	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	53041	134015981	7197450	388	37019										
C9orf171	389799	broad.mit.edu	37	chr9	135447886	135447886	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccctgcggatgggcaactacAcccacccctagcccctccct	7	21	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:135447886A>G	uc004cbn.2	+	7	1000	c.952A>G	c.(952-954)ACC>GCC	p.T318A	C9orf171_uc004cbo.2_Missense_Mutation_p.T282A	NM_207417	NP_997300	Q6ZQR2	CI171_HUMAN	hypothetical protein LOC389799	318										ovary(4)|large_intestine(1)	5						GGGCAACTACACCCACCCCTA	0.597													5	7	---	---	---	---	PASS	G	135447886	G	G	135447886	3	3	99	1	0	0	0	0	1	0	0	0	2470	159	6	5	978	5	C9orf171	9	135447886	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1431905	135447886	5765545	389	37020										
SDCCAG3	10807	broad.mit.edu	37	chr9	139301958	139301958	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gatactccaggccatacccgCcggtttgggagggtggggag	17	10	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:139301958C>A	uc004chi.2	-	5	663	c.458G>T	c.(457-459)GGC>GTC	p.G153V	SDCCAG3_uc004chj.2_Missense_Mutation_p.G130V|SDCCAG3_uc004chk.2_Missense_Mutation_p.G80V	NM_001039707	NP_001034796	Q96C92	SDCG3_HUMAN	serologically defined colon cancer antigen 3	153						cytoplasm					0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.18e-06)|Epithelial(140;9.31e-06)		GCCATACCCGCCGGTTTGGGA	0.532													3	13	---	---	---	---	PASS	A	139301958	A	A	139301958	3	1	99	1	0	0	0	0	1	0	0	0	13958	739	26	3	873	3	SDCCAG3	9	139301958	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3854072	139301958	1911473	390	37021										
LCN8	138307	broad.mit.edu	37	chr9	139649901	139649901	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgaaagttcctgccccgccaCatcagggacacccgcaggat	10	16	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:139649901C>T	uc004cjb.1	-	4	643	c.294G>A	c.(292-294)ATG>ATA	p.M98I	LCN8_uc004cja.2_RNA	NM_178469	NP_848564	Q6JVE9	LCN8_HUMAN	lipocalin 8	121					transport	extracellular region	binding			pancreas(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;5.56e-06)|Epithelial(140;8.32e-05)		TGCCCCGCCACATCAGGGACA	0.652													3	12	---	---	---	---	PASS	T	139649901	T	T	139649901	3	4	99	1	0	0	0	0	1	0	0	0	8686	478	17	3	180	3	LCN8	9	139649901	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	347943	139649901	1563530	391	37022										
EHMT1	79813	broad.mit.edu	37	chr9	140611315	140611315	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agaagcggcgaagcaaaaccAcgtcactgccgacgactttg	11	12	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr9:140611315A>T	uc011mfc.1	+	3	360	c.323A>T	c.(322-324)CAC>CTC	p.H108L	EHMT1_uc004coa.2_Missense_Mutation_p.H108L|EHMT1_uc004cob.1_Missense_Mutation_p.H77L	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	108					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		AAGCAAAACCACGTCACTGCC	0.542													12	63	---	---	---	---	PASS	T	140611315	T	T	140611315	3	4	99	1	0	0	0	0	1	0	0	0	4983	159	6	5	333	5	EHMT1	9	140611315	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	961414	140611315	602116	392	37023										
MLLT10	8028	broad.mit.edu	37	chr10	21903765	21903765	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggcttttattttcagcgctcAgtttgccggactgctttgtg	11	9	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:21903765A>T	uc001iqs.2	+	7	863	c.515A>T	c.(514-516)CAG>CTG	p.Q172L	MLLT10_uc001iqt.2_Missense_Mutation_p.Q172L|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Missense_Mutation_p.Q172L|MLLT10_uc001ira.2_5'Flank|MLLT10_uc001iqz.2_5'UTR	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	172	Interaction with FSTL3.|Self-association.|PHD-type 2.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						TTCAGCGCTCAGTTTGCCGGA	0.338			T	MLL|PICALM|CDK6	AL								21	53	---	---	---	---	PASS	T	21903765	T	T	21903765	3	4	99	1	0	0	0	0	1	0	0	0	9626	188	7	5	537	5	MLLT10	10	21903765	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08		21903765	113630982	393	37024										
MYO3A	53904	broad.mit.edu	37	chr10	26463077	26463077	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acttagccaaaggtcaatttAtcaaaatgcaaacagcatgg	7	8	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:26463077A>G	uc001isn.2	+	30	4244	c.3884A>G	c.(3883-3885)TAT>TGT	p.Y1295C	MYO3A_uc009xkp.1_Intron|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1295					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						AGGTCAATTTATCAAAATGCA	0.448													19	53	---	---	---	---	PASS	G	26463077	G	G	26463077	3	3	99	1	0	0	0	0	1	0	0	0	10076	449	16	5	3994	5	MYO3A	10	26463077	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	4559312	26463077	109071670	394	37025										
ARMC4	55130	broad.mit.edu	37	chr10	28224093	28224093	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acgttcttggcagcattctcCcaaggccccaaccacattca	6	16	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:28224093C>T	uc009xky.2	-	16	2439	c.2341G>A	c.(2341-2343)GGA>AGA	p.G781R	ARMC4_uc010qds.1_Missense_Mutation_p.G306R|ARMC4_uc010qdt.1_Missense_Mutation_p.G473R|ARMC4_uc001itz.2_Missense_Mutation_p.G781R	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	781	ARM 5.						binding			ovary(4)|skin(2)	6						CAGCATTCTCCCAAGGCCCCA	0.458													28	61	---	---	---	---	PASS	T	28224093	T	T	28224093	3	4	99	1	0	0	0	0	1	0	0	0	953	632	22	3	813	3	ARMC4	10	28224093	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1761016	28224093	107310654	395	37026										
ZNF438	220929	broad.mit.edu	37	chr10	31138162	31138162	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cctgaaatgccaaaatttcaTctggtaccttccgttttctt	5	11	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:31138162T>C	uc010qdz.1	-	7	1607	c.1172A>G	c.(1171-1173)GAT>GGT	p.D391G	ZNF438_uc001ivn.2_Missense_Mutation_p.D342G|ZNF438_uc010qdy.1_Missense_Mutation_p.D381G|ZNF438_uc001ivo.3_5'UTR|ZNF438_uc009xlg.2_Missense_Mutation_p.D391G|ZNF438_uc001ivp.3_Missense_Mutation_p.D381G|ZNF438_uc010qea.1_Missense_Mutation_p.D391G|ZNF438_uc010qeb.1_Missense_Mutation_p.D391G|ZNF438_uc010qec.1_5'UTR	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	391					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				CAAAATTTCATCTGGTACCTT	0.373													29	101	---	---	---	---	PASS	C	31138162	C	C	31138162	3	2	99	1	0	0	0	0	1	0	0	0	17907	1435	50	5	1322	5	ZNF438	10	31138162	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	2914069	31138162	104396585	396	37027										
ZNF33A	7581	broad.mit.edu	37	chr10	38305892	38305892	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acctggaccctagtcagaggGctctgtatagagatgtgatg	13	8	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:38305892G>A	uc001izh.2	+	3	281	c.103G>A	c.(103-105)GCT>ACT	p.A35T	ZNF33A_uc001izg.2_Missense_Mutation_p.A35T|ZNF33A_uc010qev.1_Missense_Mutation_p.A42T|ZNF33A_uc001izi.1_Missense_Mutation_p.A35T|ZNF33A_uc001izj.2_RNA	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	35	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						TAGTCAGAGGGCTCTGTATAG	0.453													23	52	---	---	---	---	PASS	A	38305892	A	A	38305892	3	1	99	1	0	0	0	0	1	0	0	0	17851	1203	42	3	109	3	ZNF33A	10	38305892	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	7167730	38305892	97228855	397	37028										
MBL2	4153	broad.mit.edu	37	chr10	54529061	54529061	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttttctttctgaggcagccaGgctactatcaccatctagaa	7	11	4	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:54529061G>T	uc001jjt.2	-	3	384	c.319C>A	c.(319-321)CTG>ATG	p.L107M		NM_000242	NP_000233	P11226	MBL2_HUMAN	soluble mannose-binding lectin precursor	107					acute-phase response|complement activation, classical pathway|complement activation, lectin pathway|defense response to Gram-positive bacterium|negative regulation of growth of symbiont in host|opsonization|response to oxidative stress	collagen|extracellular space	bacterial cell surface binding|calcium-dependent protein binding|eukaryotic cell surface binding|mannose binding|receptor binding			ovary(1)	1						GAGGCAGCCAGGCTACTATCA	0.403													15	85	---	---	---	---	PASS	T	54529061	T	T	54529061	3	4	99	1	0	0	0	0	1	0	0	0	9350	991	35	3	435	3	MBL2	10	54529061	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	16223169	54529061	81005686	398	37029										
PCDH15	65217	broad.mit.edu	37	chr10	55582009	55582009	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgaaggaggtggagggcaaGgaatagaaggaggtggtgga	21	2	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:55582009G>A	uc001jju.1	-	33	5872	c.5477C>T	c.(5476-5478)CCT>CTT	p.P1826L	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.P1823L|PCDH15_uc010qhw.1_Missense_Mutation_p.P1786L|PCDH15_uc010qhx.1_Missense_Mutation_p.P1757L|PCDH15_uc010qhy.1_Missense_Mutation_p.P1833L|PCDH15_uc010qhz.1_Missense_Mutation_p.P1828L|PCDH15_uc010qia.1_Missense_Mutation_p.P1806L|PCDH15_uc010qib.1_Missense_Mutation_p.P1803L	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1826	Poly-Pro.|Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				tggagggcaaggaatagaagg	0.269										HNSCC(58;0.16)			10	50	---	---	---	---	PASS	A	55582009	A	A	55582009	3	1	99	1	0	0	0	0	1	0	0	0	11511	1000	35	3	2000	3	PCDH15	10	55582009	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1052948	55582009	79952738	399	37030										
PCDH15	65217	broad.mit.edu	37	chr10	55892716	55892716	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agctgtgggaagcgaggaggGctttgattatttggtggaag	18	3	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:55892716G>T	uc001jju.1	-	15	2231	c.1836C>A	c.(1834-1836)AGC>AGA	p.S612R	PCDH15_uc010qhq.1_Missense_Mutation_p.S617R|PCDH15_uc010qhr.1_Missense_Mutation_p.S612R|PCDH15_uc010qhs.1_Missense_Mutation_p.S624R|PCDH15_uc010qht.1_Missense_Mutation_p.S619R|PCDH15_uc010qhu.1_Missense_Mutation_p.S612R|PCDH15_uc001jjv.1_Missense_Mutation_p.S590R|PCDH15_uc010qhv.1_Missense_Mutation_p.S612R|PCDH15_uc010qhw.1_Missense_Mutation_p.S575R|PCDH15_uc010qhx.1_Intron|PCDH15_uc010qhy.1_Missense_Mutation_p.S617R|PCDH15_uc010qhz.1_Missense_Mutation_p.S612R|PCDH15_uc010qia.1_Missense_Mutation_p.S590R|PCDH15_uc010qib.1_Missense_Mutation_p.S590R|PCDH15_uc001jjw.2_Missense_Mutation_p.S612R	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	612	Cadherin 5.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AGCGAGGAGGGCTTTGATTAT	0.408										HNSCC(58;0.16)			9	33	---	---	---	---	PASS	T	55892716	T	T	55892716	3	4	99	1	0	0	0	0	1	0	0	0	11511	1194	42	3	5726	3	PCDH15	10	55892716	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	310707	55892716	79642031	400	37031										
FAM13C	220965	broad.mit.edu	37	chr10	61029743	61029743	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tttggctgaagatggagcatCgtggcgacagcagtgggtta	16	6	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:61029743C>T	uc001jkn.2	-	8	853	c.719G>A	c.(718-720)CGA>CAA	p.R240Q	FAM13C_uc001jko.2_Missense_Mutation_p.R240Q|FAM13C_uc010qid.1_Missense_Mutation_p.R157Q|FAM13C_uc010qie.1_Missense_Mutation_p.R157Q|FAM13C_uc010qif.1_Missense_Mutation_p.R262Q|FAM13C_uc001jkp.2_Missense_Mutation_p.R157Q	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	240										ovary(2)	2						GATGGAGCATCGTGGCGACAG	0.527													10	35	---	---	---	---	PASS	T	61029743	T	T	61029743	3	4	99	1	0	0	0	0	1	0	0	0	5454	884	31	2	1070	2	FAM13C	10	61029743	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	5137027	61029743	74505004	401	37032										
PPP3CB	5532	broad.mit.edu	37	chr10	75239135	75239135	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccgaaggatggcagcaccctCattgataattctaagcgcaa	9	11	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:75239135C>G	uc001jue.2	-	2	361	c.226G>C	c.(226-228)GAG>CAG	p.E76Q	PPP3CB_uc001juf.2_Missense_Mutation_p.E76Q|PPP3CB_uc001jug.2_Missense_Mutation_p.E76Q|PPP3CB_uc001jui.2_Missense_Mutation_p.E76Q|PPP3CB_uc001juh.2_5'UTR	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	76	Catalytic.									skin(1)	1	Prostate(51;0.0119)					GCAGCACCCTCATTGATAATT	0.393													38	129	---	---	---	---	PASS	G	75239135	G	G	75239135	3	3	99	1	0	0	0	0	1	0	0	0	12398	835	29	2	1403	2	PPP3CB	10	75239135	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	14209392	75239135	60295612	402	37033										
DLG5	9231	broad.mit.edu	37	chr10	79613209	79613209	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctgcagcaggtttcgctccCgcagcagctgcccattctcc	10	17	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:79613209C>A	uc001jzk.2	-	5	837	c.767G>T	c.(766-768)CGG>CTG	p.R256L	DLG5_uc001jzj.2_Missense_Mutation_p.R11L|DLG5_uc009xru.1_RNA	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	256					cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			GTTTCGCTCCCGCAGCAGCTG	0.622													6	7	---	---	---	---	PASS	A	79613209	A	A	79613209	3	1	99	1	0	0	0	0	1	0	0	0	4558	652	23	1	5104	1	DLG5	10	79613209	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	4374074	79613209	55921538	403	37034										
TSPAN14	81619	broad.mit.edu	37	chr10	82271915	82271915	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgcagaaccagtgctgtggcGcatatggccctgaagactgg	14	10	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:82271915G>T	uc001kcj.3	+	6	573	c.466G>T	c.(466-468)GCA>TCA	p.A156S	TSPAN14_uc009xss.2_Missense_Mutation_p.A33S|TSPAN14_uc001kci.3_Missense_Mutation_p.A139S	NM_030927	NP_112189	Q8NG11	TSN14_HUMAN	tetraspanin 14 isoform 1	156						integral to membrane				ovary(1)|central_nervous_system(1)	2			Colorectal(32;0.229)			GTGCTGTGGCGCATATGGCCC	0.577													5	44	---	---	---	---	PASS	T	82271915	T	T	82271915	3	4	99	1	0	0	0	0	1	0	0	0	16635	1087	38	1	484	1	TSPAN14	10	82271915	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2658706	82271915	53262832	404	37035										
OBFC1	79991	broad.mit.edu	37	chr10	105657461	105657461	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	actcgtgagactggggaggtCcagggcgcctggattgctgc	17	10	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:105657461C>A	uc001kxl.2	-	6	673	c.598G>T	c.(598-600)GAC>TAC	p.D200Y	OBFC1_uc001kxm.2_Missense_Mutation_p.D200Y|OBFC1_uc001kxn.2_RNA	NM_024928	NP_079204	Q9H668	STN1_HUMAN	oligonucleotide/oligosaccharide-binding fold	200					positive regulation of DNA replication|telomere maintenance via telomere lengthening		protein binding|single-stranded telomeric DNA binding			ovary(1)	1		Colorectal(252;0.178)		Epithelial(162;3.39e-10)|all cancers(201;1.32e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0151)		CTGGGGAGGTCCAGGGCGCCT	0.463													6	51	---	---	---	---	PASS	A	105657461	A	A	105657461	3	1	99	1	0	0	0	0	1	0	0	0	10807	855	30	2	524	2	OBFC1	10	105657461	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	23385546	105657461	29877286	405	37036										
NRAP	4892	broad.mit.edu	37	chr10	115365538	115365538	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cacatcactggctatatctcCagaggcccgggcagcctgga	11	14	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:115365538C>A	uc001laj.2	-	34	4062	c.3898G>T	c.(3898-3900)GGA>TGA	p.G1300*	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Nonsense_Mutation_p.G1265*|NRAP_uc001lal.3_Nonsense_Mutation_p.G1300*	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	1300	Nebulin 34.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		GCTATATCTCCAGAGGCCCGG	0.463													61	226	---	---	---	---	PASS	A	115365538	A	A	115365538	4	1	99	1	0	0	0	0	0	1	0	0	10638	603	21	3	1330	3	NRAP	10	115365538	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	9708077	115365538	20169209	406	37037										
PNLIP	5406	broad.mit.edu	37	chr10	118321144	118321144	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tagtggagacaaatgttggaAaacagtaagtaatgaaaatc	10	3	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:118321144A>G	uc001lcm.2	+	12	1373	c.1330A>G	c.(1330-1332)AAA>GAA	p.K444E		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	444	PLAT.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	AAATGTTGGAAAACAGTAAGT	0.363													14	36	---	---	---	---	PASS	G	118321144	G	G	118321144	3	3	99	1	0	0	0	0	1	0	0	0	12149	15	1	5	1372	5	PNLIP	10	118321144	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	2955606	118321144	17213603	407	37038										
DMBT1	1755	broad.mit.edu	37	chr10	124339201	124339201	+	Missense_Mutation	SNP	T	C	C													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcaccgtgtgtgatgactacTgggacaccaatgatgccaat							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:124339201T>C	uc001lgk.1	+	10	893	c.787T>C	c.(787-789)TGG>CGG	p.W263R	DMBT1_uc001lgl.1_Missense_Mutation_p.W263R|DMBT1_uc001lgm.1_Missense_Mutation_p.W263R|DMBT1_uc009xzz.1_Missense_Mutation_p.W263R|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yaa.1_Missense_Mutation_p.W115R	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	263	SRCR 2.				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)				TGATGACTACTGGGACACCAA	0.612													41	155	---	---	---	---	PASS	C	124339201	C	C	124339201	3	2	99	1	0	0	0	0	1	0	0	0	4577	1580	55	5	825	5	DMBT1	10	124339201	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	6018057	124339201	11195546	408	37039	687	2								
DMBT1	1755	broad.mit.edu	37	chr10	124339203	124339203	+	Nonsense_Mutation	SNP	G	A	A													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	accgtgtgtgatgactactgGgacaccaatgatgccaatgt							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:124339203G>A	uc001lgk.1	+	10	895	c.789G>A	c.(787-789)TGG>TGA	p.W263*	DMBT1_uc001lgl.1_Nonsense_Mutation_p.W263*|DMBT1_uc001lgm.1_Nonsense_Mutation_p.W263*|DMBT1_uc009xzz.1_Nonsense_Mutation_p.W263*|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yaa.1_Nonsense_Mutation_p.W115*	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	263	SRCR 2.				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)				ATGACTACTGGGACACCAATG	0.617													42	157	---	---	---	---	PASS	A	124339203	A	A	124339203	4	1	99	1	0	0	0	0	0	1	0	0	4577	1241	43	3	827	3	DMBT1	10	124339203	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2	124339203	11195544	409	37040	687	2								
DMBT1	1755	broad.mit.edu	37	chr10	124353098	124353098	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctcacagtttcccagtcccgGccgacacccagtccaggtag	9	17	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr10:124353098G>A	uc001lgk.1	+	21	2620	c.2514G>A	c.(2512-2514)CGG>CGA	p.R838R	DMBT1_uc001lgl.1_Silent_p.R828R|DMBT1_uc001lgm.1_Intron|DMBT1_uc009xzz.1_Silent_p.R838R|DMBT1_uc010qtx.1_Intron	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	838					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)				CCCAGTCCCGGCCGACACCCA	0.517													37	152	---	---	---	---	PASS	A	124353098	A	A	124353098	2	1	99	1	0	0	0	0	0	0	0	1	4577	1190	42	3		3	DMBT1	10	124353098	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	13895	124353098	11181649	410	37041										
TNNI2	7136	broad.mit.edu	37	chr11	1861789	1861789	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcagatagcggccacggagcTggagaaggaggagagccgcc	18	10	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:1861789T>A	uc010qxe.1	+	3	111	c.89T>A	c.(88-90)CTG>CAG	p.L30Q	TNNI2_uc010qxc.1_Missense_Mutation_p.L28Q|TNNI2_uc010qxd.1_Missense_Mutation_p.L28Q	NM_001145841	NP_001139313	P48788	TNNI2_HUMAN	fast-twitch skeletal muscle troponin I isoform	30	Involved in binding TNC.				muscle filament sliding|positive regulation of transcription, DNA-dependent|skeletal muscle contraction	cytosol|nucleus|troponin complex	actin binding|troponin T binding				0		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GCCACGGAGCTGGAGAAGGAG	0.677													8	17	---	---	---	---	PASS	A	1861789	A	A	1861789	3	1	99	1	0	0	0	0	1	0	0	0	16324	1580	55	5	118	5	TNNI2	11	1861789	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08		1861789	133144727	411	37042										
NAP1L4	4676	broad.mit.edu	37	chr11	2981043	2981043	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	accttcaaaggaaaagggatCagccttatctggttctgatt	9	8	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:2981043C>A	uc001lxc.2	-	9	844	c.703G>T	c.(703-705)GAT>TAT	p.D235Y	NAP1L4_uc009ydt.2_RNA|NAP1L4_uc010qxm.1_Missense_Mutation_p.D235Y|NAP1L4_uc010qxn.1_Missense_Mutation_p.D235Y	NM_005969	NP_005960	Q99733	NP1L4_HUMAN	nucleosome assembly protein 1-like 4	235					nucleosome assembly	chromatin assembly complex|cytoplasm	unfolded protein binding			ovary(1)	1		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00301)|LUSC - Lung squamous cell carcinoma(625;0.211)		GAAAAGGGATCAGCCTTATCT	0.373													4	27	---	---	---	---	PASS	A	2981043	A	A	2981043	3	1	99	1	0	0	0	0	1	0	0	0	10159	826	29	2	452	2	NAP1L4	11	2981043	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1119254	2981043	132025473	412	37043										
OR52K2	119774	broad.mit.edu	37	chr11	4470671	4470671	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tggatctccatccctttctgCttagcatatacactggccct	6	14	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:4470671C>T	uc001lyz.1	+	1	102	c.102C>T	c.(100-102)TGC>TGT	p.C34C		NM_001005172	NP_001005172	Q8NGK3	O52K2_HUMAN	olfactory receptor, family 52, subfamily K,	34	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.48e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0821)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCCCTTTCTGCTTAGCATATA	0.512													30	74	---	---	---	---	PASS	T	4470671	T	T	4470671	2	4	99	1	0	0	0	0	0	0	0	1	11124	805	28	3		3	OR52K2	11	4470671	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1489628	4470671	130535845	413	37044										
OR51G1	79324	broad.mit.edu	37	chr11	4945209	4945209	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggccacgtagcggtcaatggAcatggataacagaactgatg	13	8	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:4945209A>T	uc010qyr.1	-	1	361	c.361T>A	c.(361-363)TCC>ACC	p.S121T		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	121	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		CGGTCAATGGACATGGATAAC	0.502													4	32	---	---	---	---	PASS	T	4945209	T	T	4945209	3	4	99	1	0	0	0	0	1	0	0	0	11098	275	10	5	606	5	OR51G1	11	4945209	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	474538	4945209	130061307	414	37045										
OR51B6	390058	broad.mit.edu	37	chr11	5373146	5373146	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atacctctatcctgaccaacAcccaggtaatgaagattggt	7	11	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:5373146A>T	uc010qzb.1	+	1	409	c.409A>T	c.(409-411)ACC>TCC	p.T137S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCTGACCAACACCCAGGTAAT	0.478													7	65	---	---	---	---	PASS	T	5373146	T	T	5373146	3	4	99	1	0	0	0	0	1	0	0	0	11092	159	6	5	411	5	OR51B6	11	5373146	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	427937	5373146	129633370	415	37046										
TRIM6-TRIM34	445372	broad.mit.edu	37	chr11	5626790	5626790	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcaggggtcaacaatggagcTgctgcaggtaaggcttgtga	15	7	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:5626790T>A	uc001mbf.2	+	4	1071	c.827T>A	c.(826-828)CTG>CAG	p.L276Q	HBG2_uc001mak.1_Intron|TRIM6_uc009yeo.1_Missense_Mutation_p.L222Q|TRIM6_uc010qzj.1_Missense_Mutation_p.L73Q|TRIM6_uc001mbc.1_Missense_Mutation_p.L248Q|TRIM6_uc001mbe.2_Missense_Mutation_p.L73Q|TRIM6_uc010qzk.1_Missense_Mutation_p.L73Q|TRIM6_uc010qzl.1_Missense_Mutation_p.L73Q|TRIM6_uc001mbd.2_Missense_Mutation_p.L276Q|TRIM6_uc001mbg.1_Missense_Mutation_p.L73Q|TRIM6_uc009yep.1_Missense_Mutation_p.L73Q	NM_001003819	NP_001003819	B2RNG4	B2RNG4_HUMAN	tripartite motif-containing 6 and tripartite	276						intracellular	zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;1.01e-08)|BRCA - Breast invasive adenocarcinoma(625;0.145)		ACAATGGAGCTGCTGCAGGTA	0.507											OREG0003723	type=REGULATORY REGION|Gene=TRIM6|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	3	19	---	---	---	---	PASS	A	5626790	A	A	5626790	3	1	99	1	0	0	0	0	1	0	0	0	16531	1580	55	5	841	5	TRIM6-TRIM34	11	5626790	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	253644	5626790	129379726	416	37047										
OR52N5	390075	broad.mit.edu	37	chr11	5799597	5799597	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaaccagaagatgcagagtgCattgggtagagtggtggtgc	17	5	0	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:5799597C>A	uc010qzn.1	-	1	268	c.268G>T	c.(268-270)GCA>TCA	p.A90S	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001922	NP_001001922	Q8NH56	O52N5_HUMAN	olfactory receptor, family 52, subfamily N,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		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)		ATGCAGAGTGCATTGGGTAGA	0.448													10	44	---	---	---	---	PASS	A	5799597	A	A	5799597	3	1	99	1	0	0	0	0	1	0	0	0	11130	710	25	3	710	3	OR52N5	11	5799597	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	172807	5799597	129206919	417	37048										
OR52E6	390078	broad.mit.edu	37	chr11	5862836	5862836	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaacatctgagaaaggtagcCtccaaaagatatttccttga	8	8	1	3	rs145073549	by1000genomes	TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:5862836C>A	uc010qzq.1	-	1	292	c.292G>T	c.(292-294)GGC>TGC	p.G98C	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAAAGGTAGCCTCCAAAAGAT	0.468													30	82	---	---	---	---	PASS	A	5862836	A	A	5862836	3	1	99	1	0	0	0	0	1	0	0	0	11117	681	24	3	651	3	OR52E6	11	5862836	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	63239	5862836	129143680	418	37049										
OR52E8	390079	broad.mit.edu	37	chr11	5878459	5878459	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agtggaacaaccatgtacagGctcctcaggacagcaatgcc	10	12	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:5878459G>T	uc010qzr.1	-	1	474	c.474C>A	c.(472-474)AGC>AGA	p.S158R	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCATGTACAGGCTCCTCAGGA	0.507													46	87	---	---	---	---	PASS	T	5878459	T	T	5878459	3	4	99	1	0	0	0	0	1	0	0	0	11118	1194	42	3	481	3	OR52E8	11	5878459	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	15623	5878459	129128057	419	37050										
OR6A2	8590	broad.mit.edu	37	chr11	6816427	6816427	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atgttggggccacagtaagaGaggccagaaataagaaaaac	12	6	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:6816427G>T	uc001mes.1	-	1	713	c.513C>A	c.(511-513)CTC>CTA	p.L171L		NM_003696	NP_003687	O95222	OR6A2_HUMAN	olfactory receptor, family 6, subfamily A,	171	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CACAGTAAGAGAGGCCAGAAA	0.488													7	52	---	---	---	---	PASS	T	6816427	T	T	6816427	2	4	99	1	0	0	0	0	0	0	0	1	11186	929	33	2		2	OR6A2	11	6816427	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	937968	6816427	128190089	420	37051										
OR2D2	120776	broad.mit.edu	37	chr11	6913409	6913409	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaagggcgcactgggtacacCcaaaaatgaggaaaaagaga	13	7	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:6913409C>A	uc010rau.1	-	1	323	c.323G>T	c.(322-324)GGG>GTG	p.G108V		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CTGGGTACACCCAAAAATGAG	0.473													17	38	---	---	---	---	PASS	A	6913409	A	A	6913409	3	1	99	1	0	0	0	0	1	0	0	0	10994	623	22	3	606	3	OR2D2	11	6913409	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	96982	6913409	128093107	421	37052										
NLRP10	338322	broad.mit.edu	37	chr11	7981912	7981912	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctgaatcccttcagctgctAgggagcacagactcctcagg	11	13	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:7981912A>G	uc001mfv.1	-	2	1264	c.1247T>C	c.(1246-1248)CTA>CCA	p.L416P		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	416	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TTCAGCTGCTAGGGAGCACAG	0.547													10	56	---	---	---	---	PASS	G	7981912	G	G	7981912	3	3	99	1	0	0	0	0	1	0	0	0	10472	420	15	5	724	5	NLRP10	11	7981912	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1068503	7981912	127024604	422	37053										
GALNTL4	374378	broad.mit.edu	37	chr11	11348656	11348656	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aggcgtcatcccatggcagaTgtacatgatggggacattct	12	9	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:11348656T>C	uc001mjo.2	-	9	1910	c.1489A>G	c.(1489-1491)ATC>GTC	p.I497V		NM_198516	NP_940918	Q6P9A2	GLTL4_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	497	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)		CCATGGCAGATGTACATGATG	0.517													5	38	---	---	---	---	PASS	C	11348656	C	C	11348656	3	2	99	1	0	0	0	0	1	0	0	0	6223	1464	51	5	346	5	GALNTL4	11	11348656	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	3366744	11348656	123657860	423	37054										
COPB1	1315	broad.mit.edu	37	chr11	14480146	14480146	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tccctggtgaattggcttctCaatgctgacatttgcaagtg	10	9	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:14480146C>A	uc001mli.2	-	21	3041	c.2734G>T	c.(2734-2736)GAG>TAG	p.E912*	COPB1_uc001mlg.2_Nonsense_Mutation_p.E912*|COPB1_uc001mlh.2_Nonsense_Mutation_p.E912*	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	912					COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						ATTGGCTTCTCAATGCTGACA	0.433													9	61	---	---	---	---	PASS	A	14480146	A	A	14480146	4	1	99	1	0	0	0	0	0	1	0	0	3728	835	29	2	135	2	COPB1	11	14480146	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3131490	14480146	120526370	424	37055										
SOX6	55553	broad.mit.edu	37	chr11	16036565	16036565	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	catttgactttcccgttaacTggggccccaaattctcaaag	7	12	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:16036565T>A	uc001mme.2	-	13	1727	c.1694A>T	c.(1693-1695)CAG>CTG	p.Q565L	SOX6_uc001mmd.2_Missense_Mutation_p.Q528L|SOX6_uc001mmf.2_Missense_Mutation_p.Q525L|SOX6_uc001mmg.2_Missense_Mutation_p.Q552L	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	552					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						TCCCGTTAACTGGGGCCCCAA	0.458													4	57	---	---	---	---	PASS	A	16036565	A	A	16036565	3	1	99	1	0	0	0	0	1	0	0	0	14955	1580	55	5	847	5	SOX6	11	16036565	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	1556419	16036565	118969951	425	37056										
IGSF22	283284	broad.mit.edu	37	chr11	18731979	18731979	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atattctgtgtcctccaggaGaccatccacagtgcacttgg	9	12	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:18731979G>A	uc009yht.2	-	17	2786	c.2596C>T	c.(2596-2598)CTC>TTC	p.L866F	IGSF22_uc001mpa.2_RNA	NM_173588	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	864	Fibronectin type-III 2.									ovary(4)|large_intestine(2)|kidney(1)	7						TCCTCCAGGAGACCATCCACA	0.532													7	35	---	---	---	---	PASS	A	18731979	A	A	18731979	3	1	99	1	0	0	0	0	1	0	0	0	7600	942	33	2	1412	2	IGSF22	11	18731979	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2695414	18731979	116274537	426	37057										
SLC6A5	9152	broad.mit.edu	37	chr11	20660004	20660004	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gttgtttctctctcctgttaGggtggaatttacatgtttca	9	7	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:20660004G>C	uc001mqd.2	+	13	2143	c.1870_splice	c.e13-1	p.G624_splice	SLC6A5_uc009yic.2_Splice_Site_p.G389_splice	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter						synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	TCTCCTGTTAGGGTGGAATTT	0.458													15	106	---	---	---	---	PASS	C	20660004	C	C	20660004	5	2	99	1	0	0	0	0	0	0	1	0	14687	1014	35	4	1919	4	SLC6A5	11	20660004	Splice_Site	SNP	G	TCGA-43-5668-01A-01D-1632-08	1928025	20660004	114346512	427	37058										
KCNA4	3739	broad.mit.edu	37	chr11	30034104	30034104	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tggccgctgcaacagcagctGctgcagctgccctggagtga	14	13	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:30034104G>T	uc001msk.2	-	2	1274	c.122C>A	c.(121-123)GCA>GAA	p.A41E		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	41						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						AACAGCAGCTGCTGCAGCTGC	0.667													11	52	---	---	---	---	PASS	T	30034104	T	T	30034104	3	4	99	1	0	0	0	0	1	0	0	0	8005	1319	46	3	1843	3	KCNA4	11	30034104	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	9374100	30034104	104972412	428	37059										
API5	8539	broad.mit.edu	37	chr11	43348117	43348117	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agcaggttctccctaacctcGgtaccttgactaccccagtg	8	15	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:43348117G>C	uc010rfh.1	+	7	984	c.811G>C	c.(811-813)GGT>CGT	p.G271R	API5_uc010rfg.1_Missense_Mutation_p.G260R|API5_uc001mxf.2_Missense_Mutation_p.G271R|API5_uc010rfi.1_Missense_Mutation_p.G217R|API5_uc001mxg.2_Missense_Mutation_p.G145R	NM_001142930	NP_001136402	Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5 isoform a	271					anti-apoptosis|apoptosis	cytoplasm|spliceosomal complex	fibroblast growth factor binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						CCCTAACCTCGGTACCTTGAC	0.368													14	103	---	---	---	---	PASS	C	43348117	C	C	43348117	3	2	99	1	0	0	0	0	1	0	0	0	773	1116	39	4	837	4	API5	11	43348117	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	13314013	43348117	91658399	429	37060										
EXT2	2132	broad.mit.edu	37	chr11	44146495	44146495	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctttctgtccgtaagcgctgCcacaagcaccaggtcttcga	9	14	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:44146495C>T	uc001mxz.2	+	5	1234	c.900C>T	c.(898-900)TGC>TGT	p.C300C	EXT2_uc010rfo.1_Silent_p.C328C|EXT2_uc001mxy.2_Silent_p.C313C|EXT2_uc009ykt.2_Silent_p.C300C|EXT2_uc001mya.2_Silent_p.C333C	NM_207122	NP_997005	Q93063	EXT2_HUMAN	exostosin 2 isoform 2	300	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity			lung(2)|breast(2)|skin(1)	5						GTAAGCGCTGCCACAAGCACC	0.493			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses				15	63	---	---	---	---	PASS	T	44146495	T	T	44146495	2	4	99	1	0	0	0	0	0	0	0	1	5324	747	26	3		3	EXT2	11	44146495	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	798378	44146495	90860021	430	37061										
CHST1	8534	broad.mit.edu	37	chr11	45671602	45671602	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgtacttgcccttgagccacGggggccgcatgaggccggtg	16	12	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:45671602G>T	uc001mys.1	-	4	1543	c.872C>A	c.(871-873)CCG>CAG	p.P291Q		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	291	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CTTGAGCCACGGGGGCCGCAT	0.622													30	51	---	---	---	---	PASS	T	45671602	T	T	45671602	3	4	99	1	0	0	0	0	1	0	0	0	3397	1116	39	1	367	1	CHST1	11	45671602	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1525107	45671602	89334914	431	37062										
MDK	4192	broad.mit.edu	37	chr11	46404190	46404190	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgtgtgatgggggcacaggcAccaaagtccgccaaggcacc	14	13	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:46404190A>C	uc001nco.2	+	4	520	c.298A>C	c.(298-300)ACC>CCC	p.T100P	MDK_uc009ykz.1_Missense_Mutation_p.T100P|MDK_uc001ncp.2_Missense_Mutation_p.T100P|MDK_uc009yla.2_Missense_Mutation_p.T44P|MDK_uc009ylb.2_Intron|MDK_uc001ncq.2_Missense_Mutation_p.T100P|MDK_uc001ncr.2_RNA|MDK_uc001ncs.2_Missense_Mutation_p.T100P	NM_001012334	NP_001012334	P21741	MK_HUMAN	midkine	100					adrenal gland development|cell differentiation|nervous system development|positive regulation of cell division|response to wounding|signal transduction	extracellular region	growth factor activity|heparin binding				0				GBM - Glioblastoma multiforme(35;0.0252)|Lung(87;0.14)		GGGCACAGGCACCAAAGTCCG	0.557													3	23	---	---	---	---	PASS	C	46404190	C	C	46404190	3	2	99	1	0	0	0	0	1	0	0	0	9411	159	6	5	308	5	MDK	11	46404190	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	732588	46404190	88602326	432	37063										
LRP4	4038	broad.mit.edu	37	chr11	46908042	46908042	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgtgtcaaagctgattcgaCggatgtccatccttcgggca	11	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:46908042C>A	uc001ndn.3	-	17	2404	c.2258G>T	c.(2257-2259)CGT>CTT	p.R753L		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	753	Extracellular (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		GCTGATTCGACGGATGTCCAT	0.522													14	33	---	---	---	---	PASS	A	46908042	A	A	46908042	3	1	99	1	0	0	0	0	1	0	0	0	8959	536	19	1	3547	1	LRP4	11	46908042	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	503852	46908042	88098474	433	37064										
MYBPC3	4607	broad.mit.edu	37	chr11	47355296	47355296	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tccaggtcacctgaggccggGgcttgccctgaggggaggaa	17	11	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:47355296G>A	uc001nfa.3	-	28	3057	c.3002C>T	c.(3001-3003)CCC>CTC	p.P1001L		NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	1000	Ig-like C2-type 6.				cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		CTGAGGCCGGGGCTTGCCCTG	0.652													9	11	---	---	---	---	PASS	A	47355296	A	A	47355296	3	1	99	1	0	0	0	0	1	0	0	0	10013	1232	43	3	846	3	MYBPC3	11	47355296	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	447254	47355296	87651220	434	37065										
OR5D16	390144	broad.mit.edu	37	chr11	55606660	55606660	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctcccagaaactctgtgccAtgctggtggttgtattgtat	10	9	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:55606660A>C	uc010rio.1	+	1	433	c.433A>C	c.(433-435)ATG>CTG	p.M145L		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				ACTCTGTGCCATGCTGGTGGT	0.453													8	72	---	---	---	---	PASS	C	55606660	C	C	55606660	3	2	99	1	0	0	0	0	1	0	0	0	11156	217	8	5	435	5	OR5D16	11	55606660	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	8251364	55606660	79399856	435	37066										
OR8J1	219477	broad.mit.edu	37	chr11	56127828	56127828	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tggtctttctggtgctctatGggctgaccatggcagggaac	14	9	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:56127828G>A	uc010rjh.1	+	1	106	c.106G>A	c.(106-108)GGG>AGG	p.G36R		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GGTGCTCTATGGGCTGACCAT	0.498													12	90	---	---	---	---	PASS	A	56127828	A	A	56127828	3	1	99	1	0	0	0	0	1	0	0	0	11241	1348	47	3	108	3	OR8J1	11	56127828	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	521168	56127828	78878688	436	37067										
OR9G9	504191	broad.mit.edu	37	chr11	56468225	56468225	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggctgccgtggcttatgaccGctacgtggccatctccaagc	12	14	1	1	rs148651508		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:56468225G>C	uc010rjn.1	+	1	362	c.362G>C	c.(361-363)CGC>CCC	p.R121P		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GCTTATGACCGCTACGTGGCC	0.527													19	116	---	---	---	---	PASS	C	56468225	C	C	56468225	3	2	99	1	0	0	0	0	1	0	0	0	11252	1087	38	4	364	4	OR9G9	11	56468225	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	340397	56468225	78538291	437	37068										
P2RX3	5024	broad.mit.edu	37	chr11	57114588	57114588	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctcccttcttctcctcccaAgggcacctcggtctttgtca	6	17	5	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:57114588A>G	uc001nju.2	+	3	332	c.256_splice	c.e3-2	p.G86_splice		NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3						positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						TCTCCTCCCAAGGGCACCTCG	0.318													3	36	---	---	---	---	PASS	G	57114588	G	G	57114588	5	3	99	1	0	0	0	0	0	0	1	0	11341	86	3	5	264	5	P2RX3	11	57114588	Splice_Site	SNP	A	TCGA-43-5668-01A-01D-1632-08	646363	57114588	77891928	438	37069										
MS4A14	84689	broad.mit.edu	37	chr11	60183135	60183135	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtagagaatttgtgccagatGaacaaaagcaaagtatcctt	9	6	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:60183135G>T	uc001npj.2	+	5	1259	c.694G>T	c.(694-696)GAA>TAA	p.E232*	MS4A14_uc001npi.2_Nonsense_Mutation_p.E120*|MS4A14_uc001npn.2_5'UTR|MS4A14_uc001npk.2_Nonsense_Mutation_p.E215*|MS4A14_uc001npl.2_5'UTR|MS4A14_uc001npm.2_5'UTR	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	232						integral to membrane	receptor activity			breast(1)	1						TGTGCCAGATGAACAAAAGCA	0.398													33	47	---	---	---	---	PASS	T	60183135	T	T	60183135	4	4	99	1	0	0	0	0	0	1	0	0	9858	1291	45	2	712	2	MS4A14	11	60183135	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3068547	60183135	74823381	439	37070										
MS4A8B	83661	broad.mit.edu	37	chr11	60482507	60482507	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cctacagaaccctggaatggCgatttctggcgtgctgctgg	13	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:60482507C>T	uc001npv.2	+	6	751	c.548C>T	c.(547-549)GCG>GTG	p.A183V		NM_031457	NP_113645	Q9BY19	M4A8B_HUMAN	membrane-spanning 4-domains, subfamily A, member	183	Helical; (Potential).					integral to membrane	receptor activity				0						CCTGGAATGGCGATTTCTGGC	0.318													11	79	---	---	---	---	PASS	T	60482507	T	T	60482507	3	4	99	1	0	0	0	0	1	0	0	0	9867	768	27	1	566	1	MS4A8B	11	60482507	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	299372	60482507	74524009	440	37071										
SLC22A8	9376	broad.mit.edu	37	chr11	62766531	62766531	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgagtgctgtcgacatgatgGcccgcatccgggtaggcacc	14	13	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:62766531G>T	uc001nwo.2	-	5	759	c.623C>A	c.(622-624)GCC>GAC	p.A208D	SLC22A8_uc001nwn.1_5'UTR|SLC22A8_uc001nwp.2_Missense_Mutation_p.A208D|SLC22A8_uc009yom.2_Missense_Mutation_p.A85D|SLC22A8_uc010rmm.1_Missense_Mutation_p.A117D|SLC22A8_uc009yon.2_Missense_Mutation_p.A208D	NM_004254	NP_004245	Q8TCC7	S22A8_HUMAN	solute carrier family 22 member 8	208	Cytoplasmic (Potential).				response to toxin	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|organic anion transmembrane transporter activity			skin(2)|ovary(1)	3						CGACATGATGGCCCGCATCCG	0.607													24	44	---	---	---	---	PASS	T	62766531	T	T	62766531	3	4	99	1	0	0	0	0	1	0	0	0	14460	1203	42	3	1033	3	SLC22A8	11	62766531	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2284024	62766531	72239985	441	37072										
EIF1AD	84285	broad.mit.edu	37	chr11	65767038	65767038	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgatcaaggggaccacctacCaaaacccctccttctgcaga	7	15	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:65767038C>A	uc001ogm.1	-	4	590	c.305G>T	c.(304-306)TGG>TTG	p.W102L	EIF1AD_uc001ogn.1_Missense_Mutation_p.W102L|BANF1_uc001ogo.2_5'Flank|BANF1_uc001ogp.2_5'Flank	NM_032325	NP_115701	Q8N9N8	EIF1A_HUMAN	eukaryotic translation initiation factor 1A	102						nucleus	translation initiation factor activity				0						GACCACCTACCAAAACCCCTC	0.537													7	62	---	---	---	---	PASS	A	65767038	A	A	65767038	3	1	99	1	0	0	0	0	1	0	0	0	4991	608	21	3	204	3	EIF1AD	11	65767038	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3000507	65767038	69239478	442	37073										
RBM4	5936	broad.mit.edu	37	chr11	66411341	66411341	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctacgatagacacctgttgcCgacctcaggagctgctgcca	10	14	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:66411341C>T	uc009yrj.2	+	3	1321	c.833C>T	c.(832-834)CCG>CTG	p.P278L	RBM4_uc009yrk.2_Missense_Mutation_p.P253L|RBM4_uc001oiw.1_Missense_Mutation_p.P278L|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Missense_Mutation_p.P278L|RBM4_uc001oiz.1_Missense_Mutation_p.P278L	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	278	Interaction with TNPO3.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		CACCTGTTGCCGACCTCAGGA	0.433													4	39	---	---	---	---	PASS	T	66411341	T	T	66411341	3	4	99	1	0	0	0	0	1	0	0	0	13134	652	23	1	839	1	RBM4	11	66411341	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	644303	66411341	68595175	443	37074										
TPCN2	219931	broad.mit.edu	37	chr11	68838835	68838835	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctcttgaaggaagcctgtttCtgatgaacctgctgacagcc	10	11	2	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:68838835C>T	uc001oos.2	+	10	1023	c.907C>T	c.(907-909)CTG>TTG	p.L303L	TPCN2_uc009ysk.1_RNA|TPCN2_uc001oor.2_Silent_p.L218L|TPCN2_uc010rqg.1_Silent_p.L303L|TPCN2_uc001oot.2_5'Flank	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	303	Helical; Name=S6 of repeat I; (Potential).				cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			AAGCCTGTTTCTGATGAACCT	0.612													4	17	---	---	---	---	PASS	T	68838835	T	T	68838835	2	4	99	1	0	0	0	0	0	0	0	1	16393	912	32	2		2	TPCN2	11	68838835	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	2427494	68838835	66167681	444	37075										
PPFIA1	8500	broad.mit.edu	37	chr11	70176310	70176310	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaaggaagatatggaagagaGaatcactactcttgaaaaac	9	5	2	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:70176310G>T	uc001opo.2	+	8	1160	c.962G>T	c.(961-963)AGA>ATA	p.R321I	PPFIA1_uc001opn.1_Missense_Mutation_p.R321I|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	321	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			ATGGAAGAGAGAATCACTACT	0.378													14	48	---	---	---	---	PASS	T	70176310	T	T	70176310	3	4	99	1	0	0	0	0	1	0	0	0	12309	942	33	2	988	2	PPFIA1	11	70176310	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1337475	70176310	64830206	445	37076										
OR2AT4	341152	broad.mit.edu	37	chr11	74800671	74800671	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaaaataaaaaacacagggaGgaagaaggtctctggcagag	13	5	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:74800671G>A	uc010rro.1	-	1	88	c.88C>T	c.(88-90)CTC>TTC	p.L30F		NM_001005285	NP_001005285	A6NND4	O2AT4_HUMAN	olfactory receptor, family 2, subfamily AT,	30	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AACACAGGGAGGAAGAAGGTC	0.532													17	26	---	---	---	---	PASS	A	74800671	A	A	74800671	3	1	99	1	0	0	0	0	1	0	0	0	10987	1000	35	3	877	3	OR2AT4	11	74800671	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	4624361	74800671	60205845	446	37077										
C11orf30	56946	broad.mit.edu	37	chr11	76257279	76257279	+	Missense_Mutation	SNP	A	T	T													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgcctgcgacaggccagttcAtgcgtattcagaatgtaggc							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:76257279A>T	uc001oxl.2	+	20	3855	c.3712A>T	c.(3712-3714)ATG>TTG	p.M1238L	C11orf30_uc001oxm.2_Missense_Mutation_p.M1140L|C11orf30_uc010rsb.1_Missense_Mutation_p.M1253L|C11orf30_uc010rsc.1_Missense_Mutation_p.M1239L|C11orf30_uc001oxn.2_Missense_Mutation_p.M1239L|C11orf30_uc010rsd.1_Missense_Mutation_p.M1147L|C11orf30_uc010rse.1_Missense_Mutation_p.M485L|C11orf30_uc001oxp.2_Intron	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	1238					chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						AGGCCAGTTCATGCGTATTCA	0.448													5	42	---	---	---	---	PASS	T	76257279	T	T	76257279	3	4	99	1	0	0	0	0	1	0	0	0	1636	217	8	5	3786	5	C11orf30	11	76257279	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1456608	76257279	58749237	447	37078	688	2								
C11orf30	56946	broad.mit.edu	37	chr11	76257281	76257281	+	Missense_Mutation	SNP	G	T	T													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cctgcgacaggccagttcatGcgtattcagaatgtaggcca							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:76257281G>T	uc001oxl.2	+	20	3857	c.3714G>T	c.(3712-3714)ATG>ATT	p.M1238I	C11orf30_uc001oxm.2_Missense_Mutation_p.M1140I|C11orf30_uc010rsb.1_Missense_Mutation_p.M1253I|C11orf30_uc010rsc.1_Missense_Mutation_p.M1239I|C11orf30_uc001oxn.2_Missense_Mutation_p.M1239I|C11orf30_uc010rsd.1_Missense_Mutation_p.M1147I|C11orf30_uc010rse.1_Missense_Mutation_p.M485I|C11orf30_uc001oxp.2_Intron	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	1238					chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						GCCAGTTCATGCGTATTCAGA	0.448													3	44	---	---	---	---	PASS	T	76257281	T	T	76257281	3	4	99	1	0	0	0	0	1	0	0	0	1636	1319	46	3	3788	3	C11orf30	11	76257281	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2	76257281	58749235	448	37079	688	2								
LRRC32	2615	broad.mit.edu	37	chr11	76372296	76372296	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccaggccaccagcactcagcGcagtggccatcgccagccgg	12	18	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:76372296G>T	uc001oxq.3	-	3	584	c.341C>A	c.(340-342)GCG>GAG	p.A114E	LRRC32_uc001oxr.3_Missense_Mutation_p.A114E|LRRC32_uc010rsf.1_Missense_Mutation_p.A114E	NM_005512	NP_005503	Q14392	LRC32_HUMAN	leucine rich repeat containing 32 precursor	114	LRR 3.|Extracellular (Potential).					integral to plasma membrane					0						AGCACTCAGCGCAGTGGCCAT	0.677													12	31	---	---	---	---	PASS	T	76372296	T	T	76372296	3	4	99	1	0	0	0	0	1	0	0	0	8987	1087	38	1	1651	1	LRRC32	11	76372296	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	115015	76372296	58634220	449	37080										
TSKU	25987	broad.mit.edu	37	chr11	76507479	76507479	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cttaactgggcaggagctgaGgtgttttcaggcctgagctc	14	9	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:76507479G>T	uc001oxt.2	+	2	991	c.819G>T	c.(817-819)GAG>GAT	p.E273D		NM_015516	NP_056331	Q8WUA8	TSK_HUMAN	tsukushin precursor	273	LRR 9.					extracellular region					0	Ovarian(111;0.112)					CAGGAGCTGAGGTGTTTTCAG	0.662													28	40	---	---	---	---	PASS	T	76507479	T	T	76507479	3	4	99	1	0	0	0	0	1	0	0	0	16624	991	35	3	821	3	TSKU	11	76507479	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	135183	76507479	58499037	450	37081										
FAT3	120114	broad.mit.edu	37	chr11	92258043	92258043	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgaagatcctgactccagttCcaatgaaaaactgacataca	6	10	0	5			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:92258043C>A	uc001pdj.3	+	2	3553	c.3536C>A	c.(3535-3537)TCC>TAC	p.S1179Y		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1179	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GACTCCAGTTCCAATGAAAAA	0.388										TCGA Ovarian(4;0.039)			11	13	---	---	---	---	PASS	A	92258043	A	A	92258043	3	1	99	1	0	0	0	0	1	0	0	0	5691	855	30	2	3542	2	FAT3	11	92258043	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	15750564	92258043	42748473	451	37082										
FAT3	120114	broad.mit.edu	37	chr11	92532911	92532911	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggggtcctgaaagttgttagCcctttggattatgaagttac	12	6	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:92532911C>G	uc001pdj.3	+	9	6749	c.6732C>G	c.(6730-6732)AGC>AGG	p.S2244R		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2244	Cadherin 20.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AAGTTGTTAGCCCTTTGGATT	0.443										TCGA Ovarian(4;0.039)			3	6	---	---	---	---	PASS	G	92532911	G	G	92532911	3	3	99	1	0	0	0	0	1	0	0	0	5691	738	26	4	6766	4	FAT3	11	92532911	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	274868	92532911	42473605	452	37083										
MMP8	4317	broad.mit.edu	37	chr11	102592148	102592148	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttacttgcggaggtgttggtCcatgtttcttcggcatcaaa	11	8	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:102592148C>G	uc001phe.2	-	4	705	c.606G>C	c.(604-606)TGG>TGC	p.W202C	MMP8_uc010rut.1_Missense_Mutation_p.W137C|MMP8_uc010ruu.1_Missense_Mutation_p.W179C	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	202					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		AGGTGTTGGTCCATGTTTCTT	0.373													10	38	---	---	---	---	PASS	G	102592148	G	G	102592148	3	3	99	1	0	0	0	0	1	0	0	0	9668	856	30	2	825	2	MMP8	11	102592148	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	10059237	102592148	32414368	453	37084										
NPAT	4863	broad.mit.edu	37	chr11	108057295	108057295	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggtactttttctctgagattCactgaaacacattttaaaag	6	7	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:108057295C>A	uc001pjz.3	-	8	742	c.640G>T	c.(640-642)GAA>TAA	p.E214*	NPAT_uc001pka.2_Nonsense_Mutation_p.E9*	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	214	Interaction with MIZF.				positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		CTCTGAGATTCACTGAAACAC	0.318													21	37	---	---	---	---	PASS	A	108057295	A	A	108057295	4	1	99	1	0	0	0	0	0	1	0	0	10566	840	29	2	3687	2	NPAT	11	108057295	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	5465147	108057295	26949221	454	37085										
ANKK1	255239	broad.mit.edu	37	chr11	113266824	113266824	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgattattatccgagtggcgGcaggcatgcggccctcccta	12	12	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:113266824G>T	uc001pny.2	+	5	812	c.718G>T	c.(718-720)GCA>TCA	p.A240S		NM_178510	NP_848605	Q8NFD2	ANKK1_HUMAN	ankyrin repeat and kinase domain containing 1	240	Protein kinase.						ATP binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|ovary(1)|breast(1)	8		all_cancers(61;1.53e-11)|all_epithelial(67;3e-06)|Melanoma(852;4.04e-05)|all_hematologic(158;0.000315)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0461)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Prostate(24;0.194)		BRCA - Breast invasive adenocarcinoma(274;4.82e-06)|Epithelial(105;5.41e-05)|all cancers(92;0.000442)|OV - Ovarian serous cystadenocarcinoma(223;0.238)		CCGAGTGGCGGCAGGCATGCG	0.597													11	27	---	---	---	---	PASS	T	113266824	T	T	113266824	3	4	99	1	0	0	0	0	1	0	0	0	631	1203	42	3	736	3	ANKK1	11	113266824	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	5209529	113266824	21739692	455	37086										
ABCG4	64137	broad.mit.edu	37	chr11	119031262	119031262	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctctaggtggccacttttgtGggcccagttaccgccatccc	10	15	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:119031262G>A	uc001pvs.2	+	14	1947	c.1611G>A	c.(1609-1611)GTG>GTA	p.V537V	ABCG4_uc009zar.2_Silent_p.V537V	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	537	ABC transmembrane type-2.|Helical; Name=5; (Potential).				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		CCACTTTTGTGGGCCCAGTTA	0.567													77	141	---	---	---	---	PASS	A	119031262	A	A	119031262	2	1	99	1	0	0	0	0	0	0	0	1	70	1335	47	3		3	ABCG4	11	119031262	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	5764438	119031262	15975254	456	37087										
OR8B12	219858	broad.mit.edu	37	chr11	124412845	124412845	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggaactgcaagtactaaaggCtttggacctgccttctgtag	11	9	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:124412845C>T	uc010sam.1	-	1	706	c.706G>A	c.(706-708)GCC>ACC	p.A236T		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		GTACTAAAGGCTTTGGACCTG	0.453													3	19	---	---	---	---	PASS	T	124412845	T	T	124412845	3	4	99	1	0	0	0	0	1	0	0	0	11226	797	28	3	228	3	OR8B12	11	124412845	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	5381583	124412845	10593671	457	37088										
CCDC15	80071	broad.mit.edu	37	chr11	124829068	124829068	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agctaagaaaaaaacaagaaGctttgaaacattttcagaaa	6	5	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:124829068G>A	uc001qbm.3	+	3	494	c.235G>A	c.(235-237)GCT>ACT	p.A79T		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	79	Potential.					centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		AAAACAAGAAGCTTTGAAACA	0.299													4	6	---	---	---	---	PASS	A	124829068	A	A	124829068	3	1	99	1	0	0	0	0	1	0	0	0	2784	971	34	3	241	3	CCDC15	11	124829068	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	416223	124829068	10177448	458	37089										
NCAPD3	23310	broad.mit.edu	37	chr11	134062759	134062759	+	Frame_Shift_Del	DEL	C	-	-													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtccatcaccaccgggaccaCcccccgcaaccaggctttct							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr11:134062759delC	uc001qhd.1	-	16	2476	c.1870delG	c.(1870-1872)GTGfs	p.V624fs	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	624					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		ACCGGGACCACCCCCCGCAAC	0.542													73	32	---	---	---	---		-	134062759	-	-	134062759	7	5	99	1	0	1	0	1	0	0	0	0	10206	507	18	0	2706	0	NCAPD3	11	134062759	Frame_Shift_Del	DEL	C	TCGA-43-5668-01A-01D-1632-08	9233691	134062759	943757	459	37090										
KDM5A	5927	broad.mit.edu	37	chr12	464404	464404	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gttggtaacttttcgtcttcGggtgacctcatcttgaaata	9	8	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:464404G>A	uc001qif.1	-	7	1153	c.790C>T	c.(790-792)CGA>TGA	p.R264*	KDM5A_uc001qie.1_Nonsense_Mutation_p.R264*|KDM5A_uc010sdn.1_Nonsense_Mutation_p.R223*|KDM5A_uc010sdo.1_Intron	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	264					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						TTTCGTCTTCGGGTGACCTCA	0.269			T 	NUP98	AML								10	78	---	---	---	---	PASS	A	464404	A	A	464404	4	1	99	1	0	0	0	0	0	1	0	0	8133	1124	39	1	4370	1	KDM5A	12	464404	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08		464404	133387491	460	37091										
WNK1	65125	broad.mit.edu	37	chr12	862973	862973	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cactgagcaccgcttcttccGccggagcgtcatctgtgact	10	15	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:862973G>C	uc001qio.3	+	1	749	c.242G>C	c.(241-243)CGC>CCC	p.R81P	WNK1_uc001qin.2_Missense_Mutation_p.R81P|WNK1_uc001qip.3_Missense_Mutation_p.R81P	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	81					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CGCTTCTTCCGCCGGAGCGTC	0.672													12	30	---	---	---	---	PASS	C	862973	C	C	862973	3	2	99	1	0	0	0	0	1	0	0	0	17374	1087	38	4	244	4	WNK1	12	862973	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	398569	862973	132988922	461	37092										
CHD4	1108	broad.mit.edu	37	chr12	6703658	6703658	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaatacaggaagactgctgtCtgtacagttttcccaaggcc	10	10	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:6703658C>G	uc001qpo.2	-	15	2444	c.2280G>C	c.(2278-2280)CAG>CAC	p.Q760H	CHD4_uc001qpn.2_Missense_Mutation_p.Q753H|CHD4_uc001qpp.2_Missense_Mutation_p.Q757H	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	760	Helicase ATP-binding.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						AGACTGCTGTCTGTACAGTTT	0.483													17	41	---	---	---	---	PASS	G	6703658	G	G	6703658	3	3	99	1	0	0	0	0	1	0	0	0	3327	912	32	2	3562	2	CHD4	12	6703658	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	5840685	6703658	127148237	462	37093										
CD163	9332	broad.mit.edu	37	chr12	7647932	7647932	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccctaacagtctctgaatctCcacctcaactgtcccagcac	4	18	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:7647932C>A	uc001qsz.3	-	6	1293	c.1165G>T	c.(1165-1167)GAG>TAG	p.E389*	CD163_uc001qta.3_Nonsense_Mutation_p.E389*|CD163_uc009zfw.2_Nonsense_Mutation_p.E389*	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	389	SRCR 4.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						CTCTGAATCTCCACCTCAACT	0.493													14	33	---	---	---	---	PASS	A	7647932	A	A	7647932	4	1	99	1	0	0	0	0	0	1	0	0	2967	864	30	2	2349	2	CD163	12	7647932	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	944274	7647932	126203963	463	37094										
SLC2A3	6515	broad.mit.edu	37	chr12	8083956	8083956	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcacaaaacctgtgcagagtCcgcagaagaggccaataacc	10	12	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:8083956C>A	uc001qtr.2	-	4	657	c.395G>T	c.(394-396)GGA>GTA	p.G132V	SLC2A3_uc001qts.2_Missense_Mutation_p.G132V	NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	132	Helical; Name=4; (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		TGTGCAGAGTCCGCAGAAGAG	0.537													8	18	---	---	---	---	PASS	A	8083956	A	A	8083956	3	1	99	1	0	0	0	0	1	0	0	0	14545	855	30	2	1123	2	SLC2A3	12	8083956	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	436024	8083956	125767939	464	37095										
SLCO1B1	10599	broad.mit.edu	37	chr12	21355512	21355512	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	actgaacaccgttggaattgCcaaattctcatgttttactg	7	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:21355512C>A	uc001req.3	+	10	1327	c.1223C>A	c.(1222-1224)GCC>GAC	p.A408D		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	408	Helical; Name=9; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	GTTGGAATTGCCAAATTCTCA	0.333													13	28	---	---	---	---	PASS	A	21355512	A	A	21355512	3	1	99	1	0	0	0	0	1	0	0	0	14723	739	26	3	1257	3	SLCO1B1	12	21355512	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	13271556	21355512	112496383	465	37096										
ARID2	196528	broad.mit.edu	37	chr12	46240701	46240701	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaatagtggaaatagatagtGagaagtttgcttgtcagtgg	14	2	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:46240701G>T	uc001ros.1	+	12	1561	c.1561G>T	c.(1561-1563)GAG>TAG	p.E521*	ARID2_uc001ror.2_Nonsense_Mutation_p.E521*|ARID2_uc009zkg.1_5'UTR|ARID2_uc009zkh.1_Nonsense_Mutation_p.E148*	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	521					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		AATAGATAGTGAGAAGTTTGC	0.363													58	50	---	---	---	---	PASS	T	46240701	T	T	46240701	4	4	99	1	0	0	0	0	0	1	0	0	915	1291	45	2	1607	2	ARID2	12	46240701	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	24885189	46240701	87611194	466	37097										
AQP5	362	broad.mit.edu	37	chr12	50355822	50355822	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgaagaaggaggtgtgctccGtggccttcctcaaggccgtg	15	10	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:50355822G>T	uc001rvo.2	+	1	544	c.22G>T	c.(22-24)GTG>TTG	p.V8L		NM_001651	NP_001642	P55064	AQP5_HUMAN	aquaporin 5	8	Cytoplasmic (Potential).				carbon dioxide transport|excretion|odontogenesis|pancreatic juice secretion	apical plasma membrane|integral to plasma membrane	protein binding|water channel activity				0						GGTGTGCTCCGTGGCCTTCCT	0.373													11	12	---	---	---	---	PASS	T	50355822	T	T	50355822	3	4	99	1	0	0	0	0	1	0	0	0	829	1145	40	1	24	1	AQP5	12	50355822	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	4115121	50355822	83496073	467	37098										
ACCN2	41	broad.mit.edu	37	chr12	50472763	50472763	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agtgtgcagatcctgctctgGgtgagcgcccctggcctggg	16	12	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:50472763G>A	uc001rvw.2	+	7	1280	c.1051G>A	c.(1051-1053)GAC>AAC	p.D351N	ACCN2_uc001rvv.2_Missense_Mutation_p.D351N|ACCN2_uc009zln.2_Missense_Mutation_p.D142N|ACCN2_uc009zlo.2_Missense_Mutation_p.D351N	NM_001095	NP_001086	P78348	ACCN2_HUMAN	amiloride-sensitive cation channel 2, neuronal	351	Extracellular (By similarity).				calcium ion transport|response to pH|signal transduction	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(1)	1					Amiloride(DB00594)	TCCTGCTCTGGGTGAGCGCCC	0.577													16	108	---	---	---	---	PASS	A	50472763	A	A	50472763	3	1	99	1	0	0	0	0	1	0	0	0	129	1246	43	3	1073	3	ACCN2	12	50472763	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	116941	50472763	83379132	468	37099										
HIGD1C	613227	broad.mit.edu	37	chr12	51347861	51347861	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caggaaatctagagactcccCctttgtccctataggtaagt	8	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:51347861C>T	uc010smw.1	+	1	80	c.80C>T	c.(79-81)CCC>CTC	p.P27L		NM_001109619	NP_001103089	A8MV81	HIG1C_HUMAN	HIG1 domain family, member 1C	27	HIG1.|Helical; (Potential).					integral to membrane					0						AGAGACTCCCCCTTTGTCCCT	0.343													20	33	---	---	---	---	PASS	T	51347861	T	T	51347861	3	4	99	1	0	0	0	0	1	0	0	0	7108	623	22	3	82	3	HIGD1C	12	51347861	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	875098	51347861	82504034	469	37100										
KRT5	3852	broad.mit.edu	37	chr12	52913994	52913994	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gacacggaggtgaagctggtGcgggagacagacggggtgat	20	6	0	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:52913994G>A	uc001san.2	-	1	250	c.87C>T	c.(85-87)CGC>CGT	p.R29R	KRT5_uc009zmh.2_Silent_p.R29R	NM_000424	NP_000415	P13647	K2C5_HUMAN	keratin 5	29	Head.				epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		TGAAGCTGGTGCGGGAGACAG	0.662													21	16	---	---	---	---	PASS	A	52913994	A	A	52913994	2	1	99	1	0	0	0	0	0	0	0	1	8479	1306	46	3		3	KRT5	12	52913994	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	1566133	52913994	80937901	470	37101										
KRT2	3849	broad.mit.edu	37	chr12	53044194	53044194	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgtgatgttctttctgcagtGagcccatccagatatctctt	8	10	3	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:53044194G>C	uc001sat.2	-	2	762	c.729C>G	c.(727-729)CTC>CTG	p.L243L		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	243	Coil 1B.|Rod.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		TTTCTGCAGTGAGCCCATCCA	0.488													40	72	---	---	---	---	PASS	C	53044194	C	C	53044194	2	2	99	1	0	0	0	0	0	0	0	1	8457	1277	45	2		2	KRT2	12	53044194	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	130200	53044194	80807701	471	37102										
OR6C76	390326	broad.mit.edu	37	chr12	55820349	55820349	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctatttttctttatcttcctTggctcaacggagtttttcct	5	10	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:55820349T>C	uc010spm.1	+	1	312	c.312T>C	c.(310-312)CTT>CTC	p.L104L		NM_001005183	NP_001005183	A6NM76	O6C76_HUMAN	olfactory receptor, family 6, subfamily C,	104	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTATCTTCCTTGGCTCAACGG	0.408													23	155	---	---	---	---	PASS	C	55820349	C	C	55820349	2	2	99	1	0	0	0	0	0	0	0	1	11200	1799	63	5		5	OR6C76	12	55820349	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	2776155	55820349	78031546	472	37103										
AGAP2	116986	broad.mit.edu	37	chr12	58127845	58127845	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgccaaggccaggcctcctcGtccctccccgcgaagggaac	11	18	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:58127845G>C	uc001spq.2	-	5	1513	c.1513C>G	c.(1513-1515)CGA>GGA	p.R505G	AGAP2_uc001spp.2_Missense_Mutation_p.R505G|AGAP2_uc001spr.2_Missense_Mutation_p.R169G	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	505	G domain.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						AGGCCTCCTCGTCCCTCCCCG	0.587													12	17	---	---	---	---	PASS	C	58127845	C	C	58127845	3	2	99	1	0	0	0	0	1	0	0	0	368	1153	40	4	2125	4	AGAP2	12	58127845	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2307496	58127845	75724050	473	37104										
DPY19L2	283417	broad.mit.edu	37	chr12	63987866	63987866	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaacaatgatgatataattaCcttagataaatgtttgtagc	6	4	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:63987866C>A	uc001srp.1	-	16	1761	c.1580_splice	c.e16+1	p.R527_splice		NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2						multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		GATATAATTACCTTAGATAAA	0.234													11	12	---	---	---	---	PASS	A	63987866	A	A	63987866	5	1	99	1	0	0	0	0	0	0	1	0	4741	521	18	3	723	3	DPY19L2	12	63987866	Splice_Site	SNP	C	TCGA-43-5668-01A-01D-1632-08	5860021	63987866	69864029	474	37105										
WIF1	11197	broad.mit.edu	37	chr12	65462643	65462643	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atccacttcaaatgctgccaCcccatcctgttttccaagac	4	16	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:65462643C>A	uc001ssk.2	-	4	584	c.439G>T	c.(439-441)GTG>TTG	p.V147L		NM_007191	NP_009122	Q9Y5W5	WIF1_HUMAN	WNT inhibitory factor 1 precursor	147	WIF.				multicellular organismal development|Wnt receptor signaling pathway	extracellular region	protein tyrosine kinase activity			ovary(2)|lung(1)|skin(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0231)		AATGCTGCCACCCCATCCTGT	0.363			T	HMGA2	pleomorphic salivary gland adenoma								16	38	---	---	---	---	PASS	A	65462643	A	A	65462643	3	1	99	1	0	0	0	0	1	0	0	0	17363	507	18	3	728	3	WIF1	12	65462643	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1474777	65462643	68389252	475	37106										
LGR5	8549	broad.mit.edu	37	chr12	71960207	71960207	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tttctatgacaatcccatccAgtttgttgggagatctgctt	8	9	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:71960207A>G	uc001swl.2	+	9	929	c.881A>G	c.(880-882)CAA>CGA	p.Q294R	LGR5_uc001swm.2_Missense_Mutation_p.Q270R|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	294	Extracellular (Potential).|LRR 10.					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						AATCCCATCCAGTTTGTTGGG	0.279													16	24	---	---	---	---	PASS	G	71960207	G	G	71960207	3	3	99	1	0	0	0	0	1	0	0	0	8757	188	7	5	915	5	LGR5	12	71960207	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	6497564	71960207	61891688	476	37107										
KCNC2	3747	broad.mit.edu	37	chr12	75444456	75444456	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cctgaccatgtttgggggtaCatatccccataacccagggt	10	12	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:75444456C>A	uc001sxg.1	-	3	1873	c.1329G>T	c.(1327-1329)ATG>ATT	p.M443I	KCNC2_uc009zry.2_Missense_Mutation_p.M443I|KCNC2_uc001sxe.2_Missense_Mutation_p.M443I|KCNC2_uc001sxf.2_Missense_Mutation_p.M443I|KCNC2_uc010stw.1_Missense_Mutation_p.M443I	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	443					energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						TTTGGGGGTACATATCCCCAT	0.512													15	23	---	---	---	---	PASS	A	75444456	A	A	75444456	3	1	99	1	0	0	0	0	1	0	0	0	8015	478	17	3	665	3	KCNC2	12	75444456	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3484249	75444456	58407439	477	37108										
KCNC2	3747	broad.mit.edu	37	chr12	75444506	75444506	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cactacagcccaccagaaccCaatgggaatgtttttgaact	7	12	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:75444506C>G	uc001sxg.1	-	3	1823	c.1279G>C	c.(1279-1281)GGG>CGG	p.G427R	KCNC2_uc009zry.2_Missense_Mutation_p.G427R|KCNC2_uc001sxe.2_Missense_Mutation_p.G427R|KCNC2_uc001sxf.2_Missense_Mutation_p.G427R|KCNC2_uc010stw.1_Missense_Mutation_p.G427R	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	427					energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						CACCAGAACCCAATGGGAATG	0.512													18	21	---	---	---	---	PASS	G	75444506	G	G	75444506	3	3	99	1	0	0	0	0	1	0	0	0	8015	594	21	4	715	4	KCNC2	12	75444506	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	50	75444506	58407389	478	37109										
NAV3	89795	broad.mit.edu	37	chr12	78513396	78513396	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caatatcgcagcttgccccgCccttcaaaatccagcaccag	6	17	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:78513396C>G	uc001syp.2	+	15	3593	c.3420C>G	c.(3418-3420)CGC>CGG	p.R1140R	NAV3_uc001syo.2_Silent_p.R1140R|NAV3_uc010sub.1_Silent_p.R640R|NAV3_uc009zsf.2_Silent_p.R148R	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1140	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GCTTGCCCCGCCCTTCAAAAT	0.522										HNSCC(70;0.22)			20	25	---	---	---	---	PASS	G	78513396	G	G	78513396	2	3	99	1	0	0	0	0	0	0	0	1	10185	726	26	4		4	NAV3	12	78513396	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	3068890	78513396	55338499	479	37110										
NAV3	89795	broad.mit.edu	37	chr12	78515843	78515843	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caaggcagtctggagtcaccGtcgtccggtacgggcagcat	14	12	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:78515843G>T	uc001syp.2	+	16	4046	c.3873G>T	c.(3871-3873)CCG>CCT	p.P1291P	NAV3_uc001syo.2_Silent_p.P1291P|NAV3_uc010sub.1_Silent_p.P791P|NAV3_uc009zsf.2_Intron	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1291	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TGGAGTCACCGTCGTCCGGTA	0.537										HNSCC(70;0.22)			11	29	---	---	---	---	PASS	T	78515843	T	T	78515843	2	4	99	1	0	0	0	0	0	0	0	1	10185	1132	40	1		1	NAV3	12	78515843	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	2447	78515843	55336052	480	37111										
CHST11	50515	broad.mit.edu	37	chr12	105151514	105151514	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agagcaccaaacgcagctgtAcgaagtctacaaactcgatt	8	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:105151514A>G	uc001tkx.1	+	4	1283	c.992A>G	c.(991-993)TAC>TGC	p.Y331C	CHST11_uc001tky.2_Missense_Mutation_p.Y326C|uc001tkz.2_5'Flank	NM_018413	NP_060883	Q9NPF2	CHSTB_HUMAN	carbohydrate sulfotransferase 11	331	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 4-sulfotransferase activity|N-acetylgalactosamine 4-O-sulfotransferase activity				0						ACGCAGCTGTACGAAGTCTAC	0.433													15	34	---	---	---	---	PASS	G	105151514	G	G	105151514	3	3	99	1	0	0	0	0	1	0	0	0	3399	391	14	5	1002	5	CHST11	12	105151514	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	26635671	105151514	28700381	481	37112										
CRY1	1407	broad.mit.edu	37	chr12	107393465	107393465	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caatccatggaaagcctgtcCggccttccgcccatttggct	9	15	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:107393465C>A	uc001tmi.3	-	7	1860	c.1001G>T	c.(1000-1002)CGG>CTG	p.R334L		NM_004075	NP_004066	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	334	FAD-binding.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			ovary(3)	3						AAAGCCTGTCCGGCCTTCCGC	0.473													12	21	---	---	---	---	PASS	A	107393465	A	A	107393465	3	1	99	1	0	0	0	0	1	0	0	0	3903	652	23	1	783	1	CRY1	12	107393465	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2241951	107393465	26458430	482	37113										
WSCD2	9671	broad.mit.edu	37	chr12	108634306	108634306	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	taggctttgctgcgcatgccCactggaagggcaaaggtaca	13	10	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:108634306C>A	uc001tms.2	+	8	2074	c.1330C>A	c.(1330-1332)CAC>AAC	p.H444N	WSCD2_uc001tmt.2_Missense_Mutation_p.H444N|WSCD2_uc001tmu.2_Missense_Mutation_p.H192N	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	444						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						TGCGCATGCCCACTGGAAGGG	0.557													13	28	---	---	---	---	PASS	A	108634306	A	A	108634306	3	1	99	1	0	0	0	0	1	0	0	0	17404	594	21	3	1356	3	WSCD2	12	108634306	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1240841	108634306	25217589	483	37114										
TBX3	6926	broad.mit.edu	37	chr12	115117336	115117336	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	attctggtatgcagtcacagCgatgaattcagtttcgggga	12	7	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:115117336C>A	uc001tvt.1	-	4	1802	c.838G>T	c.(838-840)GCT>TCT	p.A280S	TBX3_uc001tvu.1_Missense_Mutation_p.A260S	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	280	T-box; second part.				anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		GCAGTCACAGCGATGAATTCA	0.418													27	60	---	---	---	---	PASS	A	115117336	A	A	115117336	3	1	99	1	0	0	0	0	1	0	0	0	15656	768	27	1	1413	1	TBX3	12	115117336	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	6483030	115117336	18734559	484	37115										
MED13L	23389	broad.mit.edu	37	chr12	116549311	116549311	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cattttcccagagtccttctTccacaactgaaaaaaaaaag	4	11	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:116549311T>A	uc001tvw.2	-	3	372	c.317A>T	c.(316-318)GAA>GTA	p.E106V		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	106					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		GAGTCCTTCTTCCACAACTGa	0.328													9	36	---	---	---	---	PASS	A	116549311	A	A	116549311	3	1	99	1	0	0	0	0	1	0	0	0	9431	1783	62	5	6431	5	MED13L	12	116549311	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	1431975	116549311	17302584	485	37116										
P2RX4	5025	broad.mit.edu	37	chr12	121666570	121666570	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	accactacttacctcaagtcGtgcatttatgatgctaaaac	5	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:121666570G>A	uc001tzr.2	+	7	952	c.648G>A	c.(646-648)TCG>TCA	p.S216S	P2RX4_uc010szr.1_RNA|P2RX4_uc010szs.1_RNA|P2RX4_uc009zxc.2_Silent_p.S189S|P2RX4_uc001tzs.2_Silent_p.S232S|P2RX4_uc009zxb.2_RNA|P2RX4_uc010szt.1_Silent_p.S115S	NM_002560	NP_002551	Q99571	P2RX4_HUMAN	purinergic receptor P2X4	216	Extracellular (Potential).				endothelial cell activation|negative regulation of cardiac muscle hypertrophy|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|regulation of apoptosis|regulation of blood pressure|regulation of sodium ion transport|relaxation of cardiac muscle|response to ATP|response to fluid shear stress|sensory perception of pain|tissue homeostasis	cell junction|perinuclear region of cytoplasm	cadherin binding|copper ion binding|extracellular ATP-gated cation channel activity|protein homodimerization activity|purinergic nucleotide receptor activity|receptor binding|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ACCTCAAGTCGTGCATTTATG	0.473													28	57	---	---	---	---	PASS	A	121666570	A	A	121666570	2	1	99	1	0	0	0	0	0	0	0	1	11342	1132	40	1		1	P2RX4	12	121666570	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	5117259	121666570	12185325	486	37117										
ATP6V0A2	23545	broad.mit.edu	37	chr12	124212412	124212412	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctgcaaagggtacaccatcGtgtcctatgcagaactggat	10	10	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:124212412G>A	uc001ufr.2	+	6	852	c.604G>A	c.(604-606)GTG>ATG	p.V202M	ATP6V0A2_uc001ufq.1_Missense_Mutation_p.V202M	NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	202	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		GTACACCATCGTGTCCTATGC	0.433													19	34	---	---	---	---	PASS	A	124212412	A	A	124212412	3	1	99	1	0	0	0	0	1	0	0	0	1169	1145	40	1	626	1	ATP6V0A2	12	124212412	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2545842	124212412	9639483	487	37118										
NCOR2	9612	broad.mit.edu	37	chr12	124950785	124950785	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcgatgggcggcggtgacacGggcttctcaggctcgggcgg	19	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr12:124950785G>C	uc010tba.1	-	5	756	c.639C>G	c.(637-639)CCC>CCG	p.P213P	NCOR2_uc010tay.1_Silent_p.P213P|NCOR2_uc010taz.1_Silent_p.P213P|NCOR2_uc010tbb.1_Silent_p.P213P|NCOR2_uc010tbc.1_Silent_p.P213P|NCOR2_uc001ugj.1_Silent_p.P213P|NCOR2_uc001ugk.1_Silent_p.P213P	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	213	Potential.				cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GCGGTGACACGGGCTTCTCAG	0.682													19	49	---	---	---	---	PASS	C	124950785	C	C	124950785	2	2	99	1	0	0	0	0	0	0	0	1	10236	1103	39	4		4	NCOR2	12	124950785	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	738373	124950785	8901110	488	37119										
N6AMT2	221143	broad.mit.edu	37	chr13	21331602	21331602	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcatttacttacccaattctCttctattattccaatgttat	2	10	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr13:21331602C>A	uc001uno.1	-	2	217	c.136G>T	c.(136-138)GAG>TAG	p.E46*	N6AMT2_uc009zzr.1_Nonsense_Mutation_p.E46*|N6AMT2_uc001unp.2_RNA	NM_174928	NP_777588	Q8WVE0	N6MT2_HUMAN	N-6 adenine-specific DNA methyltransferase 2	46							methyltransferase activity|nucleic acid binding				0		all_cancers(29;5.91e-19)|all_epithelial(30;1.42e-15)|all_lung(29;5.9e-14)|Lung SC(185;0.0367)		all cancers(112;0.000234)|Epithelial(112;0.000471)|OV - Ovarian serous cystadenocarcinoma(117;0.0111)|Lung(94;0.0161)|LUSC - Lung squamous cell carcinoma(192;0.0431)		ACCCAATTCTCTTCTATTATT	0.413													19	48	---	---	---	---	PASS	A	21331602	A	A	21331602	4	1	99	1	0	0	0	0	0	1	0	0	10115	922	32	2	524	2	N6AMT2	13	21331602	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08		21331602	93838276	489	37120										
PABPC3	5042	broad.mit.edu	37	chr13	25670683	25670683	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cattaataataaagcactgtAtgatacagtttctgcttttg	6	6	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr13:25670683A>C	uc001upy.2	+	1	408	c.347A>C	c.(346-348)TAT>TCT	p.Y116S		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	116	RRM 2.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		AAAGCACTGTATGATACAGTT	0.393													25	62	---	---	---	---	PASS	C	25670683	C	C	25670683	3	2	99	1	0	0	0	0	1	0	0	0	11365	449	16	5	349	5	PABPC3	13	25670683	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	4339081	25670683	89499195	490	37121										
ATP8A2	51761	broad.mit.edu	37	chr13	26152955	26152955	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgtttccctattttataggaTaatgtgatttttgagagact	8	4	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr13:26152955T>A	uc001uqk.2	+	21	1927	c.1785T>A	c.(1783-1785)GAT>GAA	p.D595E	ATP8A2_uc010tdi.1_Missense_Mutation_p.D555E|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.D105E	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	555	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		TTTTATAGGATAATGTGATTT	0.373													6	26	---	---	---	---	PASS	A	26152955	A	A	26152955	3	1	99	1	0	0	0	0	1	0	0	0	1193	1403	49	5	1867	5	ATP8A2	13	26152955	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	482272	26152955	89016923	491	37122										
POSTN	10631	broad.mit.edu	37	chr13	38137489	38137489	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttcactgagaacgaccttccCttaatcgtcttctagatcct	5	13	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr13:38137489C>T	uc001uwo.3	-	23	2610	c.2492G>A	c.(2491-2493)AGG>AAG	p.R831K	POSTN_uc010tet.1_Missense_Mutation_p.R332K|POSTN_uc001uwp.3_Missense_Mutation_p.R774K|POSTN_uc001uwr.2_Missense_Mutation_p.R776K|POSTN_uc001uwq.2_Missense_Mutation_p.R746K	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	831					cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		ACGACCTTCCCTTAATCGTCT	0.303													10	37	---	---	---	---	PASS	T	38137489	T	T	38137489	3	4	99	1	0	0	0	0	1	0	0	0	12259	681	24	3	22	3	POSTN	13	38137489	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	11984534	38137489	77032389	492	37123										
FREM2	341640	broad.mit.edu	37	chr13	39264710	39264710	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttgtaggtgaacagttgataGtaatggaaggtgataaaagt	13	1	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr13:39264710G>T	uc001uwv.2	+	1	3538	c.3229G>T	c.(3229-3231)GTA>TTA	p.V1077L		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1077	Extracellular (Potential).|CSPG 7.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		ACAGTTGATAGTAATGGAAGG	0.418													32	51	---	---	---	---	PASS	T	39264710	T	T	39264710	3	4	99	1	0	0	0	0	1	0	0	0	6045	1029	36	3	3231	3	FREM2	13	39264710	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1127221	39264710	75905168	493	37124										
PCDH9	5101	broad.mit.edu	37	chr13	67800109	67800109	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aacaatgaccaccatggcacCggcgatgatggcaatcatga	10	11	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr13:67800109C>A	uc001vik.2	-	2	3156	c.2464G>T	c.(2464-2466)GGT>TGT	p.G822C	PCDH9_uc001vil.2_Missense_Mutation_p.G822C|PCDH9_uc010thl.1_Missense_Mutation_p.G822C|PCDH9_uc001vin.3_Missense_Mutation_p.G822C	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	822	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		ACCATGGCACCGGCGATGATG	0.527													34	70	---	---	---	---	PASS	A	67800109	A	A	67800109	3	1	99	1	0	0	0	0	1	0	0	0	11518	652	23	1	1265	1	PCDH9	13	67800109	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	28535399	67800109	47369769	494	37125										
PCDH9	5101	broad.mit.edu	37	chr13	67802410	67802410	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctggcgctggtccctgtggCagcattgatgtgagaaatgt	15	8	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr13:67802410C>T	uc001vik.2	-	2	855	c.163G>A	c.(163-165)GCC>ACC	p.A55T	PCDH9_uc001vil.2_Missense_Mutation_p.A55T|PCDH9_uc010thl.1_Missense_Mutation_p.A55T|PCDH9_uc001vin.3_Missense_Mutation_p.A55T	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	55	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GTCCCTGTGGCAGCATTGATG	0.448													16	38	---	---	---	---	PASS	T	67802410	T	T	67802410	3	4	99	1	0	0	0	0	1	0	0	0	11518	710	25	3	3566	3	PCDH9	13	67802410	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2301	67802410	47367468	495	37126										
DACH1	1602	broad.mit.edu	37	chr13	72147095	72147095	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtgacagatgctggaggtagGctgacaggaattagagggtg	18	4	0	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr13:72147095G>T	uc010thn.1	-	5	1599	c.1176C>A	c.(1174-1176)AGC>AGA	p.S392R	DACH1_uc010tho.1_Intron|DACH1_uc010thp.1_Intron	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	444					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)		CTGGAGGTAGGCTGACAGGAA	0.458													6	21	---	---	---	---	PASS	T	72147095	T	T	72147095	3	4	99	1	0	0	0	0	1	0	0	0	4220	1194	42	3	976	3	DACH1	13	72147095	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	4344685	72147095	43022783	496	37127										
LMO7	4008	broad.mit.edu	37	chr13	76427226	76427226	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atgagtcttttttgtgtttcAgaggcgaatctttagataac	9	5	3	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr13:76427226A>T	uc001vjv.2	+	25	4426	c.3666_splice	c.e25-2	p.R1222_splice	LMO7_uc010thv.1_Splice_Site_p.R1173_splice|LMO7_uc010thw.1_Splice_Site_p.R1099_splice	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2							cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		TTTGTGTTTCAGAGGCGAATC	0.363													7	20	---	---	---	---	PASS	T	76427226	T	T	76427226	5	4	99	1	0	0	0	0	0	0	1	0	8855	202	7	5	4633	5	LMO7	13	76427226	Splice_Site	SNP	A	TCGA-43-5668-01A-01D-1632-08	4280131	76427226	38742652	497	37128										
SLITRK1	114798	broad.mit.edu	37	chr13	84454000	84454000	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgctcatcagcacttcggaaCccaagcgttctgcccactgc	8	17	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr13:84454000C>A	uc001vlk.2	-	1	2529	c.1643G>T	c.(1642-1644)GGT>GTT	p.G548V		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	548	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CACTTCGGAACCCAAGCGTTC	0.532													7	14	---	---	---	---	PASS	A	84454000	A	A	84454000	3	1	99	1	0	0	0	0	1	0	0	0	14742	507	18	3	451	3	SLITRK1	13	84454000	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	8026774	84454000	30715878	498	37129										
TGDS	23483	broad.mit.edu	37	chr13	95228567	95228567	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aatgattaattcaaaacataCttgttttctttattccttct	2	7	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr13:95228567C>T	uc001vlw.2	-	11	1103	c.982_splice	c.e11+1	p.I328_splice	TGDS_uc001vlx.2_Splice_Site	NM_014305	NP_055120	O95455	TGDS_HUMAN	TDP-glucose 4,6-dehydratase						cellular metabolic process		coenzyme binding|dTDP-glucose 4,6-dehydratase activity|protein binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)					TCAAAACATACTTGTTTTCTT	0.338													11	33	---	---	---	---	PASS	T	95228567	T	T	95228567	5	4	99	1	0	0	0	0	0	0	1	0	15811	579	20	3	77	3	TGDS	13	95228567	Splice_Site	SNP	C	TCGA-43-5668-01A-01D-1632-08	10774567	95228567	19941311	499	37130										
DZIP1	22873	broad.mit.edu	37	chr13	96277157	96277157	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aataacttcaaaaagtcttcCtcttttgttttctgcatttc	3	9	4	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr13:96277157C>T	uc001vmk.2	-	8	1689	c.837G>A	c.(835-837)GAG>GAA	p.E279E	DZIP1_uc001vml.2_Silent_p.E279E	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	279	Potential.				germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			AAAAGTCTTCCTCTTTTGTTT	0.279													6	14	---	---	---	---	PASS	T	96277157	T	T	96277157	2	4	99	1	0	0	0	0	0	0	0	1	4863	680	24	3		3	DZIP1	13	96277157	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1048590	96277157	18892721	500	37131										
OR4K1	79544	broad.mit.edu	37	chr14	20404367	20404367	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggatagcttcttttgtgaccTtcccttggtgatagagctgg	12	8	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:20404367T>A	uc001vwj.1	+	1	542	c.542T>A	c.(541-543)CTT>CAT	p.L181H		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		TTTTGTGACCTTCCCTTGGTG	0.478													15	172	---	---	---	---	PASS	A	20404367	A	A	20404367	3	1	99	1	0	0	0	0	1	0	0	0	11067	1609	56	5	544	5	OR4K1	14	20404367	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08		20404367	86945173	501	37132										
OR4K15	81127	broad.mit.edu	37	chr14	20444303	20444303	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgtgaccttcctctagtgaCcaagttagcctgcatagaca	8	12	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:20444303C>A	uc010tkx.1	+	1	626	c.626C>A	c.(625-627)ACC>AAC	p.T209N		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	209	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CCTCTAGTGACCAAGTTAGCC	0.428													24	203	---	---	---	---	PASS	A	20444303	A	A	20444303	3	1	99	1	0	0	0	0	1	0	0	0	11070	507	18	3	628	3	OR4K15	14	20444303	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	39936	20444303	86905237	502	37133										
RPGRIP1	57096	broad.mit.edu	37	chr14	21793152	21793152	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	catggccagtgaacacagcaCtcttgctgcaggatggattt	11	10	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:21793152C>G	uc001wag.2	+	14	2138	c.2138C>G	c.(2137-2139)ACT>AGT	p.T713S	RPGRIP1_uc001wah.2_Missense_Mutation_p.T355S|RPGRIP1_uc001wai.2_Intron|RPGRIP1_uc001waj.1_Missense_Mutation_p.T178S|RPGRIP1_uc001wak.2_Missense_Mutation_p.T188S|RPGRIP1_uc010aim.2_Missense_Mutation_p.T96S|RPGRIP1_uc001wal.2_Missense_Mutation_p.T72S|RPGRIP1_uc001wam.2_Missense_Mutation_p.T30S	NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	713					response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		GAACACAGCACTCTTGCTGCA	0.522													11	89	---	---	---	---	PASS	G	21793152	G	G	21793152	3	3	99	1	0	0	0	0	1	0	0	0	13549	565	20	4	2192	4	RPGRIP1	14	21793152	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1348849	21793152	85556388	503	37134										
NRL	4901	broad.mit.edu	37	chr14	24551685	24551685	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgaccactcacctggacgtGctgggctcctgtctcctctg	10	16	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:24551685G>T	uc001wlo.2	-	2	504	c.373C>A	c.(373-375)CAC>AAC	p.H125N	NRL_uc001wlp.2_Missense_Mutation_p.H125N|NRL_uc001wlq.2_Missense_Mutation_p.H125N	NM_006177	NP_006168	P54845	NRL_HUMAN	neural retina leucine zipper	125					response to stimulus|transcription from RNA polymerase II promoter|visual perception	nucleus	leucine zipper domain binding|sequence-specific DNA binding				0				GBM - Glioblastoma multiforme(265;0.0181)		ACCTGGACGTGCTGGGCTCCT	0.642													11	76	---	---	---	---	PASS	T	24551685	T	T	24551685	3	4	99	1	0	0	0	0	1	0	0	0	10656	1319	46	3	348	3	NRL	14	24551685	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2758533	24551685	82797855	504	37135										
PSME2	5721	broad.mit.edu	37	chr14	24612869	24612869	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctcgctcatgcaccaaggcCcggtaatccatctgcaatgt	8	14	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:24612869C>T	uc001wmj.2	-	10	629	c.564G>A	c.(562-564)CGG>CGA	p.R188R	FAM158A_uc001wmi.2_5'Flank|PSME2_uc001wmk.2_Silent_p.R111R	NM_002818	NP_002809	Q9UL46	PSME2_HUMAN	proteasome activator subunit 2	188					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome activator complex					0				GBM - Glioblastoma multiforme(265;0.00839)		GCACCAAGGCCCGGTAATCCA	0.537													13	57	---	---	---	---	PASS	T	24612869	T	T	24612869	2	4	99	1	0	0	0	0	0	0	0	1	12707	610	22	3		3	PSME2	14	24612869	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	61184	24612869	82736671	505	37136										
TGM1	7051	broad.mit.edu	37	chr14	24724340	24724340	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	catcagatcctgccccatcaCcgcgtcctgtgcctccacct	6	20	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:24724340C>A	uc001wod.2	-	12	1889	c.1765G>T	c.(1765-1767)GTG>TTG	p.V589L	TGM1_uc010tog.1_Missense_Mutation_p.V147L	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	589					cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	TGCCCCATCACCGCGTCCTGT	0.582													9	45	---	---	---	---	PASS	A	24724340	A	A	24724340	3	1	99	1	0	0	0	0	1	0	0	0	15826	507	18	3	704	3	TGM1	14	24724340	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	111471	24724340	82625200	506	37137										
FOXG1	2290	broad.mit.edu	37	chr14	29237218	29237218	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcttcgtgaaggtgccgcgcCactacgacgacccgggcaag	14	14	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:29237218C>A	uc001wqe.2	+	1	932	c.733C>A	c.(733-735)CAC>AAC	p.H245N		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	245	Fork-head.				axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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	p.H245H(1)		ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		GGTGCCGCGCCACTACGACGA	0.622													8	30	---	---	---	---	PASS	A	29237218	A	A	29237218	3	1	99	1	0	0	0	0	1	0	0	0	6007	594	21	3	735	3	FOXG1	14	29237218	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	4512878	29237218	78112322	507	37138										
SCFD1	23256	broad.mit.edu	37	chr14	31099693	31099693	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tttttaataggtactcatttAtgacagatttggccaagata	7	5	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:31099693A>T	uc001wqm.1	+	3	167	c.143A>T	c.(142-144)TAT>TTT	p.Y48F	SCFD1_uc001wqn.1_5'UTR|SCFD1_uc010tpg.1_Intron|SCFD1_uc010tph.1_5'UTR|SCFD1_uc010amf.1_5'UTR|SCFD1_uc010tpi.1_Intron|SCFD1_uc010amd.1_5'UTR|SCFD1_uc010ame.1_5'UTR	NM_016106	NP_057190	Q8WVM8	SCFD1_HUMAN	vesicle transport-related protein isoform a	48					post-Golgi vesicle-mediated transport|protein transport|regulation of ER to Golgi vesicle-mediated transport|response to toxin|retrograde vesicle-mediated transport, Golgi to ER|vesicle docking involved in exocytosis	cis-Golgi network|endoplasmic reticulum membrane|Golgi cisterna membrane|Golgi-associated vesicle|plasma membrane	syntaxin-5 binding				0	Hepatocellular(127;0.0877)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)	GBM - Glioblastoma multiforme(265;0.0181)		GTACTCATTTATGACAGATTT	0.318													19	50	---	---	---	---	PASS	T	31099693	T	T	31099693	3	4	99	1	0	0	0	0	1	0	0	0	13889	449	16	5	153	5	SCFD1	14	31099693	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1862475	31099693	76249847	508	37139										
PTGDR	5729	broad.mit.edu	37	chr14	52735261	52735261	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgctcctgcaccagggactgTgccgagccgcgcgcggacgg	16	16	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:52735261T>C	uc001wzq.2	+	1	831	c.729T>C	c.(727-729)TGT>TGC	p.C243C		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	243	Cytoplasmic (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	CCAGGGACTGTGCCGAGCCGC	0.687													26	49	---	---	---	---	PASS	C	52735261	C	C	52735261	2	2	99	1	0	0	0	0	0	0	0	1	12741	1702	59	5		5	PTGDR	14	52735261	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	21635568	52735261	54614279	509	37140										
GPR137C	283554	broad.mit.edu	37	chr14	53100290	53100290	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gagaagagtatatagtatttGgaatggtcctctttctgtgg	12	4	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:53100290G>C	uc001wzu.3	+	5	910	c.910G>C	c.(910-912)GGA>CGA	p.G304R	GPR137C_uc001wzt.3_Missense_Mutation_p.G320R	NM_001099652	NP_001093122	Q8N3F9	G137C_HUMAN	G protein-coupled receptor 137C	304	Helical; (Potential).					integral to membrane					0	Breast(41;0.0716)					TATAGTATTTGGAATGGTCCT	0.388													14	24	---	---	---	---	PASS	C	53100290	C	C	53100290	3	2	99	1	0	0	0	0	1	0	0	0	6647	1349	47	4	928	4	GPR137C	14	53100290	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	365029	53100290	54249250	510	37141										
C14orf118	55668	broad.mit.edu	37	chr14	76620929	76620929	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtctggatgaggccactaagGactgtcgagaagtggctccg	15	9	1	2	rs140112317		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:76620929G>T	uc001xsh.2	+	2	309	c.223G>T	c.(223-225)GAC>TAC	p.D75Y	C14orf118_uc001xsi.2_Missense_Mutation_p.D75Y|C14orf118_uc001xsj.1_Missense_Mutation_p.D75Y|C14orf118_uc001xsk.1_Missense_Mutation_p.D75Y|C14orf118_uc001xsl.2_RNA	NM_017926	NP_060396	Q9NWQ4	CN118_HUMAN	hypothetical protein LOC55668 isoform 1	75										ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.0172)		GGCCACTAAGGACTGTCGAGA	0.532													9	51	---	---	---	---	PASS	T	76620929	T	T	76620929	3	4	99	1	0	0	0	0	1	0	0	0	1741	1174	41	2	225	2	C14orf118	14	76620929	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	23520639	76620929	30728611	511	37142										
C14orf166B	145497	broad.mit.edu	37	chr14	77327101	77327101	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tatgccgttcacccgcagctGgacgtggtattcaaggcagt	12	11	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:77327101G>A	uc001xsx.2	+	11	1284	c.1170G>A	c.(1168-1170)CTG>CTA	p.L390L	C14orf166B_uc010asn.1_Silent_p.L150L|C14orf166B_uc001xsw.2_RNA	NM_194287	NP_919263	Q0VAA2	CN16B_HUMAN	hypothetical protein LOC145497	390											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0306)		ACCCGCAGCTGGACGTGGTAT	0.532													9	40	---	---	---	---	PASS	A	77327101	A	A	77327101	2	1	99	1	0	0	0	0	0	0	0	1	1757	1335	47	3		3	C14orf166B	14	77327101	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	706172	77327101	30022439	512	37143										
TMEM63C	57156	broad.mit.edu	37	chr14	77706032	77706032	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caggatccacccctgtgcccGcctgtgcttctgcaagtgct	10	16	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:77706032G>C	uc001xtf.2	+	12	1105	c.893G>C	c.(892-894)CGC>CCC	p.R298P	TMEM63C_uc010asq.1_Missense_Mutation_p.R298P	NM_020431	NP_065164	Q9P1W3	TM63C_HUMAN	transmembrane protein 63C	298						integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0342)		CCCTGTGCCCGCCTGTGCTTC	0.622													2	7	---	---	---	---	PASS	C	77706032	C	C	77706032	3	2	99	1	0	0	0	0	1	0	0	0	16189	1087	38	4	931	4	TMEM63C	14	77706032	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	378931	77706032	29643508	513	37144										
TSHR	7253	broad.mit.edu	37	chr14	81562988	81562988	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctctgttggttgtaggaagcTgtacaacaatggctttactt	10	7	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:81562988T>A	uc001xvd.1	+	7	707	c.551T>A	c.(550-552)CTG>CAG	p.L184Q	TSHR_uc001xvb.1_Missense_Mutation_p.L184Q|TSHR_uc001xvc.2_Missense_Mutation_p.L184Q|TSHR_uc010tvs.1_Missense_Mutation_p.L184Q	NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	184	Extracellular (Potential).|LRR 4.				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	TGTAGGAAGCTGTACAACAAT	0.438			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						10	27	---	---	---	---	PASS	A	81562988	A	A	81562988	3	1	99	1	0	0	0	0	1	0	0	0	16619	1580	55	5	577	5	TSHR	14	81562988	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	3856956	81562988	25786552	514	37145										
EML5	161436	broad.mit.edu	37	chr14	89105221	89105221	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgtgaggcacagaatatcaTcattatgttcctgataaaaa	7	7	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:89105221T>C	uc001xxg.2	-	32	4454	c.4268A>G	c.(4267-4269)GAT>GGT	p.D1423G	EML5_uc001xxf.2_Missense_Mutation_p.D210G|EML5_uc001xxh.1_Missense_Mutation_p.D554G	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	1415	WD 20.					cytoplasm|microtubule				ovary(3)	3						CAGAATATCATCATTATGTTC	0.328													5	1	---	---	---	---	PASS	C	89105221	C	C	89105221	3	2	99	1	0	0	0	0	1	0	0	0	5100	1435	50	5	1717	5	EML5	14	89105221	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	7542233	89105221	18244319	515	37146										
TTC8	123016	broad.mit.edu	37	chr14	89336410	89336410	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgatggagaataggaaatgaAcaatatgtcatcagcagcag	11	5	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:89336410A>G	uc010ath.2	+	11	1099	c.965A>G	c.(964-966)AAC>AGC	p.N322S	TTC8_uc001xxl.2_Missense_Mutation_p.N67S|TTC8_uc010ati.2_Missense_Mutation_p.N108S|TTC8_uc001xxm.2_Missense_Mutation_p.N266S|TTC8_uc010atj.2_Missense_Mutation_p.N41S|TTC8_uc001xxi.2_Missense_Mutation_p.N306S|TTC8_uc001xxj.2_Missense_Mutation_p.N296S|TTC8_uc001xxk.2_Missense_Mutation_p.N266S	NM_198309	NP_938051	Q8TAM2	TTC8_HUMAN	tetratricopeptide repeat domain 8 isoform B	332	TPR 4.				cilium assembly|establishment of anatomical structure orientation|sensory processing	BBSome|centrosome|cilium membrane|microtubule basal body	protein binding				0						TAGGAAATGAACAATATGTCA	0.294									Bardet-Biedl_syndrome				11	41	---	---	---	---	PASS	G	89336410	G	G	89336410	3	3	99	1	0	0	0	0	1	0	0	0	16711	43	2	5	959	5	TTC8	14	89336410	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	231189	89336410	18013130	516	37147										
GOLGA5	9950	broad.mit.edu	37	chr14	93273305	93273305	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaagatccaaagagactcaaGaaggtagaggcttaaattgt	10	5	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:93273305G>T	uc001yaz.1	+	3	951	c.769G>T	c.(769-771)GAA>TAA	p.E257*		NM_005113	NP_005104	Q8TBA6	GOGA5_HUMAN	Golgi autoantigen, golgin subfamily a, 5	257	Cytoplasmic (Potential).|Potential.				Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		AGAGACTCAAGAAGGTAGAGG	0.284			T	RET	papillary thyroid								9	21	---	---	---	---	PASS	T	93273305	T	T	93273305	4	4	99	1	0	0	0	0	0	1	0	0	6556	943	33	2	775	2	GOLGA5	14	93273305	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3936895	93273305	14076235	517	37148										
SERPINA9	327657	broad.mit.edu	37	chr14	94935745	94935745	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	attgcccaagaaatttgcctGcagctgcagctccttcttga	8	12	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:94935745G>T	uc001ydf.2	-	2	648	c.487C>A	c.(487-489)CAG>AAG	p.Q163K	SERPINA9_uc001yde.2_Intron|SERPINA9_uc010avc.2_Missense_Mutation_p.Q14K|SERPINA9_uc001ydg.2_Missense_Mutation_p.Q127K|SERPINA9_uc001ydh.1_Missense_Mutation_p.Q163K|SERPINA9_uc001ydi.1_Missense_Mutation_p.Q127K	NM_175739	NP_783866	Q86WD7	SPA9_HUMAN	serine (or cysteine) proteinase inhibitor, clade	145					regulation of proteolysis	cytoplasm|extracellular region|membrane	serine-type endopeptidase inhibitor activity			lung(1)|central_nervous_system(1)	2		all_cancers(154;0.0691)|all_epithelial(191;0.233)		Epithelial(152;0.144)|COAD - Colon adenocarcinoma(157;0.224)|all cancers(159;0.24)		AAATTTGCCTGCAGCTGCAGC	0.522													12	100	---	---	---	---	PASS	T	94935745	T	T	94935745	3	4	99	1	0	0	0	0	1	0	0	0	14095	1328	46	3	836	3	SERPINA9	14	94935745	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1662440	94935745	12413795	518	37149										
SERPINA12	145264	broad.mit.edu	37	chr14	94964318	94964318	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggctgcagcctctggtcaatGaacagcgtgttcccaatgct	11	12	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:94964318G>T	uc001ydj.2	-	3	1213	c.417C>A	c.(415-417)TTC>TTA	p.F139L		NM_173850	NP_776249	Q8IW75	SPA12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	139					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			central_nervous_system(2)|ovary(1)|lung(1)	4				COAD - Colon adenocarcinoma(157;0.235)		TCTGGTCAATGAACAGCGTGT	0.468													11	79	---	---	---	---	PASS	T	94964318	T	T	94964318	3	4	99	1	0	0	0	0	1	0	0	0	14089	1281	45	2	843	2	SERPINA12	14	94964318	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	28573	94964318	12385222	519	37150										
SERPINA5	5104	broad.mit.edu	37	chr14	95053730	95053730	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcctcctcttgtgcctggtgCttctcagccctcagggggcc	11	16	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:95053730C>T	uc001ydm.2	+	3	241	c.31C>T	c.(31-33)CTT>TTT	p.L11F	SERPINA5_uc010ave.2_Missense_Mutation_p.L11F|SERPINA5_uc001ydn.1_Missense_Mutation_p.L11F	NM_000624	NP_000615	P05154	IPSP_HUMAN	serine (or cysteine) proteinase inhibitor, clade	11					fusion of sperm to egg plasma membrane|regulation of proteolysis|spermatogenesis	extracellular region|membrane|protein complex	acrosin binding|heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(2)	2				COAD - Colon adenocarcinoma(157;0.21)	Drotrecogin alfa(DB00055)|Urokinase(DB00013)	GTGCCTGGTGCTTCTCAGCCC	0.612													23	59	---	---	---	---	PASS	T	95053730	T	T	95053730	3	4	99	1	0	0	0	0	1	0	0	0	14092	797	28	3	33	3	SERPINA5	14	95053730	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	89412	95053730	12295810	520	37151										
CLMN	79789	broad.mit.edu	37	chr14	95679563	95679563	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggctgcggcttactttctcgTtttcctctgcacccacgcca	8	16	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:95679563T>C	uc001yef.2	-	6	717	c.601A>G	c.(601-603)ACG>GCG	p.T201A		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	201	Actin-binding.|CH 2.					integral to membrane	actin binding				0				Epithelial(152;0.193)		TACTTTCTCGTTTTCCTCTGC	0.507													13	48	---	---	---	---	PASS	C	95679563	C	C	95679563	3	2	99	1	0	0	0	0	1	0	0	0	3542	1725	60	5	2439	5	CLMN	14	95679563	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	625833	95679563	11669977	521	37152										
CYP46A1	10858	broad.mit.edu	37	chr14	100173916	100173916	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctcccccaggcagcttttggGatggagaccagtatgctgct	12	12	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:100173916G>A	uc001ygo.2	+	7	594	c.594G>A	c.(592-594)GGG>GGA	p.G198G	CYP46A1_uc001ygn.1_Silent_p.G160G|CYP46A1_uc001ygp.2_Silent_p.G45G	NM_006668	NP_006659	Q9Y6A2	CP46A_HUMAN	cytochrome P450, family 46	198					bile acid biosynthetic process|cholesterol catabolic process|nervous system development|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol 24-hydroxylase activity|electron carrier activity|heme binding|steroid hydroxylase activity				0		Melanoma(154;0.0866)|all_epithelial(191;0.179)				CAGCTTTTGGGATGGAGACCA	0.572													11	68	---	---	---	---	PASS	A	100173916	A	A	100173916	2	1	99	1	0	0	0	0	0	0	0	1	4182	1161	41	2		2	CYP46A1	14	100173916	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	4494353	100173916	7175624	522	37153										
CDC42BPB	9578	broad.mit.edu	37	chr14	103416104	103416104	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgctgcccaaacgcagacctGagatccaagacttggctcgc	10	14	0	3	rs145375683		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:103416104G>A	uc001ymi.1	-	26	3679	c.3447C>T	c.(3445-3447)CTC>CTT	p.L1149L	CDC42BPB_uc001ymj.1_Silent_p.L251L	NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	1149	PH.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		ACGCAGACCTGAGATCCAAGA	0.498													18	25	---	---	---	---	PASS	A	103416104	A	A	103416104	2	1	99	1	0	0	0	0	0	0	0	1	3073	1277	45	2		2	CDC42BPB	14	103416104	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	3242188	103416104	3933436	523	37154										
GPR132	29933	broad.mit.edu	37	chr14	105518189	105518189	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atatagatgacccagagtggCagcgtgcctgtgtacagcag	13	9	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr14:105518189C>A	uc001yqd.2	-	4	1184	c.285G>T	c.(283-285)CTG>CTT	p.L95L	GPR132_uc001yqc.2_5'UTR|GPR132_uc001yqe.2_Silent_p.L86L	NM_013345	NP_037477	Q9UNW8	GP132_HUMAN	G protein-coupled receptor 132	95	Helical; Name=2; (Potential).				response to stress	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.0953)|Melanoma(154;0.155)|all_epithelial(191;0.219)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.02)|all cancers(159;0.0419)|OV - Ovarian serous cystadenocarcinoma(161;0.0521)		CCCAGAGTGGCAGCGTGCCTG	0.612													24	120	---	---	---	---	PASS	A	105518189	A	A	105518189	2	1	99	1	0	0	0	0	0	0	0	1	6642	697	25	3		3	GPR132	14	105518189	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	2102085	105518189	1831351	524	37155										
OR4M2	390538	broad.mit.edu	37	chr15	22369506	22369506	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcaccaaatatattttgtgtAaagagaagtgaaagataaat	7	3	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:22369506A>T	uc010tzu.1	+	1	931	c.931A>T	c.(931-933)AAA>TAA	p.K311*	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TATTTTGTGTAAAGAGAAGTG	0.343													3	27	---	---	---	---	PASS	T	22369506	T	T	22369506	4	4	99	1	0	0	0	0	0	1	0	0	11076	363	13	5	933	5	OR4M2	15	22369506	Nonsense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08		22369506	80161886	525	37156										
MAGEL2	54551	broad.mit.edu	37	chr15	23889445	23889445	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cttcttagtatttccaaagaGaccgtttgtctcccggacat	7	11	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:23889445G>A	uc001ywj.3	-	1	1731	c.1636C>T	c.(1636-1638)CTC>TTC	p.L546F		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		TTTCCAAAGAGACCGTTTGTC	0.458													10	16	---	---	---	---	PASS	A	23889445	A	A	23889445	3	1	99	1	0	0	0	0	1	0	0	0	9189	942	33	2	308	2	MAGEL2	15	23889445	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1519939	23889445	78641947	526	37157										
C15orf2	23742	broad.mit.edu	37	chr15	24921123	24921123	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gggacgcctccccgcccggtCgggctcactctgtacccacc	11	20	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:24921123C>A	uc001ywo.2	+	1	583	c.109C>A	c.(109-111)CGG>AGG	p.R37R		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	37			R -> Q (in a colorectal cancer sample; somatic mutation).		cell differentiation|multicellular organismal development|spermatogenesis			p.R37Q(1)		ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CCCGCCCGGTCGGGCTCACTC	0.711													5	13	---	---	---	---	PASS	A	24921123	A	A	24921123	2	1	99	1	0	0	0	0	0	0	0	1	1784	875	31	2		2	C15orf2	15	24921123	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1031678	24921123	77610269	527	37158										
GABRB3	2562	broad.mit.edu	37	chr15	26806186	26806186	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaaaatgtagttgacaaaggCatactccagaagggccagga	12	7	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:26806186C>G	uc001zaz.2	-	8	1115	c.973G>C	c.(973-975)GCC>CCC	p.A325P	GABRB3_uc010uae.1_Missense_Mutation_p.A240P|GABRB3_uc001zba.2_Missense_Mutation_p.A325P|GABRB3_uc001zbb.2_Missense_Mutation_p.A381P	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	325	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)	TTGACAAAGGCATACTCCAGA	0.483													18	50	---	---	---	---	PASS	G	26806186	G	G	26806186	3	3	99	1	0	0	0	0	1	0	0	0	6168	710	25	4	456	4	GABRB3	15	26806186	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1885063	26806186	75725206	528	37159										
GREM1	26585	broad.mit.edu	37	chr15	33022978	33022978	+	Silent	SNP	C	T	T													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaagggaaaaagaaagggtcCcaaggtgccatccccccgcc							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:33022978C>T	uc001zhe.1	+	2	246	c.87C>T	c.(85-87)TCC>TCT	p.S29S	GREM1_uc001zhd.1_Intron|GREM1_uc010uby.1_Silent_p.S29S	NM_013372	NP_037504	O60565	GREM1_HUMAN	gremlin-1 precursor	29					negative regulation of BMP signaling pathway|nervous system development|regulation of epithelial to mesenchymal transition	extracellular space	cytokine activity				0		all_lung(180;1.49e-09)		all cancers(64;2.97e-18)|Epithelial(43;3.15e-12)|GBM - Glioblastoma multiforme(186;2.32e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0107)		AGAAAGGGTCCCAAGGTGCCA	0.627													10	13	---	---	---	---	PASS	T	33022978	T	T	33022978	2	4	99	1	0	0	0	0	0	0	0	1	6761	610	22	3		3	GREM1	15	33022978	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	6216792	33022978	69508414	529	37160	689	2								
GREM1	26585	broad.mit.edu	37	chr15	33022979	33022979	+	Missense_Mutation	SNP	C	G	G													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagggaaaaagaaagggtccCaaggtgccatccccccgcca							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:33022979C>G	uc001zhe.1	+	2	247	c.88C>G	c.(88-90)CAA>GAA	p.Q30E	GREM1_uc001zhd.1_Intron|GREM1_uc010uby.1_Missense_Mutation_p.Q30E	NM_013372	NP_037504	O60565	GREM1_HUMAN	gremlin-1 precursor	30					negative regulation of BMP signaling pathway|nervous system development|regulation of epithelial to mesenchymal transition	extracellular space	cytokine activity				0		all_lung(180;1.49e-09)		all cancers(64;2.97e-18)|Epithelial(43;3.15e-12)|GBM - Glioblastoma multiforme(186;2.32e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0107)		GAAAGGGTCCCAAGGTGCCAT	0.632													9	13	---	---	---	---	PASS	G	33022979	G	G	33022979	3	3	99	1	0	0	0	0	1	0	0	0	6761	595	21	4	90	4	GREM1	15	33022979	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1	33022979	69508413	530	37161	689	2								
DISP2	85455	broad.mit.edu	37	chr15	40659933	40659933	+	Frame_Shift_Del	DEL	C	-	-													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gccttccgcatggcctacttCcccttcgtcaatctggcagc							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:40659933delC	uc001zlk.1	+	8	1709	c.1620delC	c.(1618-1620)TTCfs	p.F540fs		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	540	SSD.				smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		TGGCCTACTTCCCCTTCGTCA	0.617													29	15	---	---	---	---		-	40659933	-	-	40659933	7	5	99	1	0	1	0	1	0	0	0	0	4540	854	30	0	1650	0	DISP2	15	40659933	Frame_Shift_Del	DEL	C	TCGA-43-5668-01A-01D-1632-08	7636954	40659933	61871459	531	37162										
DUOX1	53905	broad.mit.edu	37	chr15	45456010	45456010	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	catctgtgagcggcacttccAgaaggttctgaaccggagtc	12	11	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:45456010A>G	uc001zus.1	+	34	4773	c.4427A>G	c.(4426-4428)CAG>CGG	p.Q1476R	DUOX1_uc001zut.1_Missense_Mutation_p.Q1476R|DUOX1_uc010bee.1_Missense_Mutation_p.Q856R	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	1476	Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		CGGCACTTCCAGAAGGTTCTG	0.562											OREG0023103	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	50	---	---	---	---	PASS	G	45456010	G	G	45456010	3	3	99	1	0	0	0	0	1	0	0	0	4800	188	7	5	4553	5	DUOX1	15	45456010	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	4796077	45456010	57075382	532	37163										
FBN1	2200	broad.mit.edu	37	chr15	48726794	48726794	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgtttaagagatgtaccttCacatgtcatcattggaccgg	9	9	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:48726794C>T	uc001zwx.1	-	54	6941	c.6613G>A	c.(6613-6615)GAA>AAA	p.E2205K	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2205	EGF-like 37; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GATGTACCTTCACATGTCATC	0.418													17	38	---	---	---	---	PASS	T	48726794	T	T	48726794	3	4	99	1	0	0	0	0	1	0	0	0	5702	835	29	2	2054	2	FBN1	15	48726794	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3270784	48726794	53804598	533	37164										
SLC27A2	11001	broad.mit.edu	37	chr15	50474976	50474976	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgggtaacgagccggcctacGtgtggctgtggctggggctg	19	9	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:50474976G>T	uc001zxw.2	+	1	584	c.352G>T	c.(352-354)GTG>TTG	p.V118L	SLC27A2_uc010bes.2_Missense_Mutation_p.V118L	NM_003645	NP_003636	O14975	S27A2_HUMAN	solute carrier family 27 (fatty acid	118	Helical; (Potential).				bile acid biosynthetic process|fatty acid alpha-oxidation	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity|phytanate-CoA ligase activity|pristanate-CoA ligase activity			ovary(1)|skin(1)	2		all_lung(180;0.00177)		all cancers(107;1.16e-06)|GBM - Glioblastoma multiforme(94;0.000113)		GCCGGCCTACGTGTGGCTGTG	0.667													19	78	---	---	---	---	PASS	T	50474976	T	T	50474976	3	4	99	1	0	0	0	0	1	0	0	0	14526	1145	40	1	354	1	SLC27A2	15	50474976	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1748182	50474976	52056416	534	37165										
VPS13C	54832	broad.mit.edu	37	chr15	62228845	62228845	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcaacttttctcactcttacAgtctcctgcacagactgtgt	5	13	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:62228845A>T	uc002agz.2	-	48	5780	c.5706T>A	c.(5704-5706)ACT>ACA	p.T1902T	VPS13C_uc002aha.2_Silent_p.T1859T|VPS13C_uc002ahb.1_Silent_p.T1902T|VPS13C_uc002ahc.1_Silent_p.T1859T	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	1902					protein localization					ovary(2)	2						TCACTCTTACAGTCTCCTGCA	0.363													7	16	---	---	---	---	PASS	T	62228845	T	T	62228845	2	4	99	1	0	0	0	0	0	0	0	1	17188	175	7	5		5	VPS13C	15	62228845	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	11753869	62228845	40302547	535	37166										
TLN2	83660	broad.mit.edu	37	chr15	63000967	63000967	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	accatcatgtgtgtcaccgaGagcatcttcagctccatggg	10	12	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:63000967G>T	uc002alb.3	+	18	2439	c.2439G>T	c.(2437-2439)GAG>GAT	p.E813D		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	813					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GTGTCACCGAGAGCATCTTCA	0.592													5	13	---	---	---	---	PASS	T	63000967	T	T	63000967	3	4	99	1	0	0	0	0	1	0	0	0	15945	933	33	2	2509	2	TLN2	15	63000967	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	772122	63000967	39530425	536	37167										
FEM1B	10116	broad.mit.edu	37	chr15	68570955	68570955	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggtggtacgcttgctcttagAacattaccgggtgcagactc	12	10	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:68570955A>G	uc002arg.2	+	1	815	c.200A>G	c.(199-201)GAA>GGA	p.E67G		NM_015322	NP_056137	Q9UK73	FEM1B_HUMAN	fem-1 homolog b	67	ANK 1.				apoptosis|induction of apoptosis|regulation of DNA damage checkpoint|regulation of ubiquitin-protein ligase activity	cytoplasm|nucleus	death receptor binding|ubiquitin-protein ligase activity				0						TTGCTCTTAGAACATTACCGG	0.602													9	21	---	---	---	---	PASS	G	68570955	G	G	68570955	3	3	99	1	0	0	0	0	1	0	0	0	5810	246	9	5	202	5	FEM1B	15	68570955	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	5569988	68570955	33960437	537	37168										
THAP10	56906	broad.mit.edu	37	chr15	71184576	71184576	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gacttcccagacttggtggtGttgccgcagtgggcggccac	15	12	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:71184576G>A	uc002asv.2	-	1	178	c.36C>T	c.(34-36)AAC>AAT	p.N12N	LRRC49_uc002asu.2_Intron|LRRC49_uc002asw.2_5'Flank|LRRC49_uc002asx.2_5'Flank|LRRC49_uc010ukf.1_5'Flank	NM_020147	NP_064532	Q9P2Z0	THA10_HUMAN	THAP domain containing 10	12	THAP-type.						DNA binding|metal ion binding			ovary(1)|skin(1)	2						ACTTGGTGGTGTTGCCGCAGT	0.711													4	6	---	---	---	---	PASS	A	71184576	A	A	71184576	2	1	99	1	0	0	0	0	0	0	0	1	15839	1368	48	3		3	THAP10	15	71184576	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	2613621	71184576	31346816	538	37169										
C15orf27	123591	broad.mit.edu	37	chr15	76430220	76430220	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcctgtcaaatctggacgaaGattaccaaagagaagggtag	11	7	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:76430220G>C	uc002bbq.2	+	3	366	c.211G>C	c.(211-213)GAT>CAT	p.D71H	C15orf27_uc010bkp.2_5'UTR|C15orf27_uc002bbr.2_5'UTR	NM_152335	NP_689548	Q2M3C6	CO027_HUMAN	hypothetical protein LOC123591	71						integral to membrane					0						TCTGGACGAAGATTACCAAAG	0.448													14	24	---	---	---	---	PASS	C	76430220	C	C	76430220	3	2	99	1	0	0	0	0	1	0	0	0	1788	942	33	2	217	2	C15orf27	15	76430220	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	5245644	76430220	26101172	539	37170										
RASGRF1	5923	broad.mit.edu	37	chr15	79382708	79382708	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gagcaggttctgcagcagcgCgaaccacttggtttgccatt	12	11	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:79382708C>A	uc002beq.2	-	1	508	c.133G>T	c.(133-135)GCG>TCG	p.A45S	RASGRF1_uc002bep.2_Missense_Mutation_p.A45S|RASGRF1_uc002ber.3_Missense_Mutation_p.A45S	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	45	PH 1.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						TGCAGCAGCGCGAACCACTTG	0.647													47	63	---	---	---	---	PASS	A	79382708	A	A	79382708	3	1	99	1	0	0	0	0	1	0	0	0	13072	768	27	1	3800	1	RASGRF1	15	79382708	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2952488	79382708	23148684	540	37171										
BNC1	646	broad.mit.edu	37	chr15	83936916	83936916	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	catccatgcttgcattggtcAcactgacggtggtttatttt	9	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:83936916A>G	uc002bjt.1	-	2	256	c.168T>C	c.(166-168)TGT>TGC	p.C56C	BNC1_uc010uos.1_Silent_p.C44C	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	56					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						TGCATTGGTCACACTGACGGT	0.448													12	28	---	---	---	---	PASS	G	83936916	G	G	83936916	2	3	99	1	0	0	0	0	0	0	0	1	1474	157	6	5		5	BNC1	15	83936916	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	4554208	83936916	18594476	541	37172										
ALPK3	57538	broad.mit.edu	37	chr15	85383912	85383912	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcgctcctggccagcccacaCactccttgaccccccagccg	8	22	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:85383912C>G	uc002ble.2	+	5	2175	c.2008C>G	c.(2008-2010)CAC>GAC	p.H670D		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	670					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CCAGCCCACACACTCCTTGAC	0.632													15	26	---	---	---	---	PASS	G	85383912	G	G	85383912	3	3	99	1	0	0	0	0	1	0	0	0	546	478	17	4	2026	4	ALPK3	15	85383912	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1446996	85383912	17147480	542	37173										
ACAN	176	broad.mit.edu	37	chr15	89401963	89401963	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gagggtgttactgaaccaacTatttctcaggaactaggcca	10	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr15:89401963T>C	uc010upo.1	+	12	6521	c.6147T>C	c.(6145-6147)ACT>ACC	p.T2049T	ACAN_uc010upp.1_Silent_p.T2049T|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	2049					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CTGAACCAACTATTTCTCAGG	0.507													4	15	---	---	---	---	PASS	C	89401963	C	C	89401963	2	2	99	1	0	0	0	0	0	0	0	1	117	1509	53	5		5	ACAN	15	89401963	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	4018051	89401963	13129429	543	37174										
IFT140	9742	broad.mit.edu	37	chr16	1639764	1639764	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agtggtcttgcccttctcatCcacatagtgcactgtccctg	8	14	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:1639764C>A	uc002cmb.2	-	7	1014	c.652G>T	c.(652-654)GAT>TAT	p.D218Y		NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	218										ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				CCCTTCTCATCCACATAGTGC	0.537													27	48	---	---	---	---	PASS	A	1639764	A	A	1639764	3	1	99	1	0	0	0	0	1	0	0	0	7556	855	30	2	3836	2	IFT140	16	1639764	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08		1639764	88714989	544	37175										
EME2	197342	broad.mit.edu	37	chr16	1823398	1823402	+	Frame_Shift_Del	DEL	GCAGG	-	-													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccgggacccagcgggtgagcGcagggcggctgccgaggcgt							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:1823398_1823402delGCAGG	uc002cmq.1	+	1	170_174	c.170_174delGCAGG	c.(169-174)CGCAGGfs	p.R57fs	NME3_uc002cmm.2_5'Flank|NME3_uc010brv.2_5'Flank|MRPS34_uc002cmn.2_5'Flank|MRPS34_uc002cmo.2_5'Flank|MRPS34_uc002cmp.1_5'Flank|EME2_uc010brw.1_Frame_Shift_Del_p.R57fs	NM_001010865	NP_001010865	A4GXA9	EME2_HUMAN	essential meiotic endonuclease 1 homolog 2	57_58					DNA recombination|DNA repair	nucleus	DNA binding|endonuclease activity			lung(1)|central_nervous_system(1)|pancreas(1)	3						GCGGGTGAGCGCAGGGCGGCTGCCG	0.737								Direct_reversal_of_damage|Homologous_recombination					8	10	---	---	---	---		-	1823402	-	-	1823398	7	5	99	1	0	1	0	1	0	0	0	0	5089	1087	38	0	172	0	EME2	16	1823398	Frame_Shift_Del	DEL	GCAGG	TCGA-43-5668-01A-01D-1632-08	183634	1823398	88531355	545	37176										
PKD1	5310	broad.mit.edu	37	chr16	2161421	2161421	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gggcccgacagcacggtgccGtcccccatgtcgaaggtcca	13	16	0	0	rs148021876	byFrequency	TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:2161421G>A	uc002cos.1	-	15	3956	c.3747C>T	c.(3745-3747)GAC>GAT	p.D1249D	PKD1_uc002cot.1_Silent_p.D1249D	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1249	PKD 7.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GCACGGTGCCGTCCCCCATGT	0.706													5	21	---	---	---	---	PASS	A	2161421	A	A	2161421	2	1	99	1	0	0	0	0	0	0	0	1	11963	1136	40	1		1	PKD1	16	2161421	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	338023	2161421	88193332	546	37177										
SRRM2	23524	broad.mit.edu	37	chr16	2806447	2806447	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcaacctgtccctggtgcggGgccgccggggtgagcggcct	18	14	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:2806447G>T	uc002crk.2	+	2	631	c.82G>T	c.(82-84)GGC>TGC	p.G28C	SRRM2_uc002crj.1_Intron|SRRM2_uc002crl.1_Missense_Mutation_p.G28C|SRRM2_uc010bsu.1_Intron	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	28						Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCTGGTGCGGGGCCGCCGGGG	0.711													7	18	---	---	---	---	PASS	T	2806447	T	T	2806447	3	4	99	1	0	0	0	0	1	0	0	0	15168	1232	43	3	84	3	SRRM2	16	2806447	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	645026	2806447	87548306	547	37178										
NLRC3	197358	broad.mit.edu	37	chr16	3613666	3613666	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgcagcagagcgaggtctacAccaaacgccttcatgtcttg	10	12	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:3613666A>T	uc010btn.2	-	5	1683	c.1272T>A	c.(1270-1272)GGT>GGA	p.G424G		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	424	NACHT.				I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						CGAGGTCTACACCAAACGCCT	0.587													5	17	---	---	---	---	PASS	T	3613666	T	T	3613666	2	4	99	1	0	0	0	0	0	0	0	1	10468	146	6	5		5	NLRC3	16	3613666	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	807219	3613666	86741087	548	37179										
CREBBP	1387	broad.mit.edu	37	chr16	3900414	3900414	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggcgccctgcatggctggagTagggtacggcattccagctc	15	12	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:3900414T>C	uc002cvv.2	-	2	886	c.682A>G	c.(682-684)ACT>GCT	p.T228A	CREBBP_uc002cvw.2_Missense_Mutation_p.T228A	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	228	Interaction with SRCAP.				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)		ATGGCTGGAGTAGGGTACGGC	0.592			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				18	48	---	---	---	---	PASS	C	3900414	C	C	3900414	3	2	99	1	0	0	0	0	1	0	0	0	3861	1638	57	5	6766	5	CREBBP	16	3900414	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	286748	3900414	86454339	549	37180										
ANKS3	124401	broad.mit.edu	37	chr16	4747987	4747987	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	actgctcttaccagctggggGgacggctaggcccagagtgg	16	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:4747987G>A	uc002cxj.1	-	15	2096	c.1801C>T	c.(1801-1803)CCC>TCC	p.P601S	ANKS3_uc010uxr.1_Missense_Mutation_p.P124S|ANKS3_uc002cxh.1_RNA|ANKS3_uc002cxi.1_Missense_Mutation_p.P528S|ANKS3_uc002cxk.2_Missense_Mutation_p.P472S|ANKS3_uc002cxl.2_Missense_Mutation_p.P428S|ANKS3_uc010uxs.1_Missense_Mutation_p.P528S	NM_133450	NP_597707	Q6ZW76	ANKS3_HUMAN	ankyrin repeat and sterile alpha motif domain	601											0						CCAGCTGGGGGGACGGCTAGG	0.617													3	4	---	---	---	---	PASS	A	4747987	A	A	4747987	3	1	99	1	0	0	0	0	1	0	0	0	690	1232	43	3	181	3	ANKS3	16	4747987	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	847573	4747987	85606766	550	37181										
SEC14L5	9717	broad.mit.edu	37	chr16	5046873	5046873	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cagattcccaaagatgagcaCatccttcggttcctgcgggc	10	13	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:5046873C>T	uc002cye.2	+	8	978	c.798C>T	c.(796-798)CAC>CAT	p.H266H		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	266						integral to membrane|intracellular	transporter activity				0						AAGATGAGCACATCCTTCGGT	0.493													4	13	---	---	---	---	PASS	T	5046873	T	T	5046873	2	4	99	1	0	0	0	0	0	0	0	1	13985	477	17	3		3	SEC14L5	16	5046873	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	298886	5046873	85307880	551	37182										
ALG1	56052	broad.mit.edu	37	chr16	5127927	5127927	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gggctgtgaccgtctacgacAagcccgcatctttctttaaa	9	12	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:5127927A>C	uc002cym.2	+	6	690	c.649A>C	c.(649-651)AAG>CAG	p.K217Q	ALG1_uc002cyj.2_Missense_Mutation_p.K106Q|ALG1_uc002cyn.2_Missense_Mutation_p.K217Q|ALG1_uc010bue.2_Missense_Mutation_p.K106Q|ALG1_uc010uxy.1_Missense_Mutation_p.K106Q	NM_019109	NP_061982	Q9BT22	ALG1_HUMAN	beta-1,4-mannosyltransferase	217	Lumenal (Potential).				dolichol-linked oligosaccharide biosynthetic process|lipopolysaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	chitobiosyldiphosphodolichol beta-mannosyltransferase activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(90;0.0164)				CGTCTACGACAAGCCCGCATC	0.567													22	72	---	---	---	---	PASS	C	5127927	C	C	5127927	3	2	99	1	0	0	0	0	1	0	0	0	510	131	5	5	671	5	ALG1	16	5127927	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	81054	5127927	85226826	552	37183										
A2BP1	54715	broad.mit.edu	37	chr16	7568385	7568385	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctcagaccgtctctggcacCgccacagtaagtggacgtgt	12	13	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:7568385C>G	uc002cys.2	+	5	1252	c.264C>G	c.(262-264)ACC>ACG	p.T88T	A2BP1_uc010buf.1_Silent_p.T88T|A2BP1_uc002cyr.1_Silent_p.T88T|A2BP1_uc002cyt.2_Silent_p.T88T|A2BP1_uc010uxz.1_Silent_p.T131T|A2BP1_uc010uya.1_Silent_p.T124T|A2BP1_uc002cyv.1_Silent_p.T88T|A2BP1_uc010uyb.1_Silent_p.T88T|A2BP1_uc002cyw.2_Silent_p.T108T|A2BP1_uc002cyy.2_Silent_p.T108T|A2BP1_uc002cyx.2_Silent_p.T108T|A2BP1_uc010uyc.1_Silent_p.T108T	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	88					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		TCTCTGGCACCGCCACAGTAA	0.652													20	77	---	---	---	---	PASS	G	7568385	G	G	7568385	2	3	99	1	0	0	0	0	0	0	0	1	3	639	23	4		4	A2BP1	16	7568385	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	2440458	7568385	82786368	553	37184										
CLEC16A	23274	broad.mit.edu	37	chr16	11145375	11145375	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	taatgtctcttctagatgaaGcccatgaacgtggaatatct	8	8	3	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:11145375G>A	uc002dao.2	+	18	2102	c.1872G>A	c.(1870-1872)AAG>AAA	p.K624K	CLEC16A_uc002dan.3_Silent_p.K606K	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	624										ovary(1)|central_nervous_system(1)	2						TCTAGATGAAGCCCATGAACG	0.572													25	91	---	---	---	---	PASS	A	11145375	A	A	11145375	2	1	99	1	0	0	0	0	0	0	0	1	3500	962	34	3		3	CLEC16A	16	11145375	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	3576990	11145375	79209378	554	37185										
CPPED1	55313	broad.mit.edu	37	chr16	12758889	12758889	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctgcccagctggcatccaaTggcagatgacaccaccatgt	9	14	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:12758889T>A	uc002dca.3	-	4	910	c.799A>T	c.(799-801)ATT>TTT	p.I267F	CPPED1_uc002dcb.3_Missense_Mutation_p.I125F|CPPED1_uc002dbz.3_RNA	NM_018340	NP_060810	Q9BRF8	CPPED_HUMAN	calcineurin-like phosphoesterase domain	267							hydrolase activity|metal ion binding				0						TGGCATCCAATGGCAGATGAC	0.557													3	55	---	---	---	---	PASS	A	12758889	A	A	12758889	3	1	99	1	0	0	0	0	1	0	0	0	3822	1464	51	5	149	5	CPPED1	16	12758889	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	1613514	12758889	77595864	555	37186										
GP2	2813	broad.mit.edu	37	chr16	20331035	20331035	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgaggatggtgtctctgatgAtgaaatcattgaccaaggag	13	5	2	5			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:20331035A>G	uc002dgv.2	-	7	1006	c.923T>C	c.(922-924)ATC>ACC	p.I308T	GP2_uc002dgw.2_Missense_Mutation_p.I305T|GP2_uc002dgx.2_Missense_Mutation_p.I161T|GP2_uc002dgy.2_Missense_Mutation_p.I158T	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	308	ZP.					anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						GTCTCTGATGATGAAATCATT	0.433													48	135	---	---	---	---	PASS	G	20331035	G	G	20331035	3	3	99	1	0	0	0	0	1	0	0	0	6582	333	12	5	714	5	GP2	16	20331035	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	7572146	20331035	70023718	556	37187										
GP2	2813	broad.mit.edu	37	chr16	20335424	20335424	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctcatgtttttatcgcacccCtgggaccctgctgagttctc	8	14	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:20335424C>A	uc002dgv.2	-	3	332	c.249G>T	c.(247-249)CAG>CAT	p.Q83H	GP2_uc002dgw.2_Missense_Mutation_p.Q83H|GP2_uc002dgx.2_Intron|GP2_uc002dgy.2_Intron	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	83						anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						TATCGCACCCCTGGGACCCTG	0.567													22	51	---	---	---	---	PASS	A	20335424	A	A	20335424	3	1	99	1	0	0	0	0	1	0	0	0	6582	680	24	3	1404	3	GP2	16	20335424	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	4389	20335424	70019329	557	37188										
ACSM5	54988	broad.mit.edu	37	chr16	20451701	20451701	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaactgccaaagacggtttcTggaaagatccaaaggagtaa	11	7	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:20451701T>A	uc002dhe.2	+	14	1839	c.1692T>A	c.(1690-1692)TCT>TCA	p.S564S		NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	564					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2						AGACGGTTTCTGGAAAGATCC	0.438													9	30	---	---	---	---	PASS	A	20451701	A	A	20451701	2	1	99	1	0	0	0	0	0	0	0	1	187	1567	55	5		5	ACSM5	16	20451701	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	116277	20451701	69903052	558	37189										
USP31	57478	broad.mit.edu	37	chr16	23079561	23079561	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggtgacaagctgctcttttcCcgttgtatttgcatttggct	10	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:23079561C>A	uc002dll.2	-	16	3865	c.3865G>T	c.(3865-3867)GGA>TGA	p.G1289*	USP31_uc002dlk.2_Nonsense_Mutation_p.G561*|USP31_uc010vca.1_Nonsense_Mutation_p.G592*|USP31_uc010bxm.2_Nonsense_Mutation_p.G577*	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	1289					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		TGCTCTTTTCCCGTTGTATTT	0.547													50	198	---	---	---	---	PASS	A	23079561	A	A	23079561	4	1	99	1	0	0	0	0	0	1	0	0	17059	632	22	3	197	3	USP31	16	23079561	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2627860	23079561	67275192	559	37190										
PRRT2	112476	broad.mit.edu	37	chr16	29824892	29824892	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccacccctgagattctgtctGagagtgtaggggaaaagcaa	12	9	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:29824892G>T	uc002due.3	+	2	818	c.517G>T	c.(517-519)GAG>TAG	p.E173*	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|uc002duc.1_5'Flank|PRRT2_uc002dud.2_Nonsense_Mutation_p.E173*|PRRT2_uc002duf.1_Nonsense_Mutation_p.E173*|C16orf53_uc002dug.3_5'Flank	NM_145239	NP_660282	Q7Z6L0	PRRT2_HUMAN	proline-rich transmembrane protein 2	173	Extracellular (Potential).|Pro-rich.				response to biotic stimulus	integral to membrane					0						GATTCTGTCTGAGAGTGTAGG	0.627													14	27	---	---	---	---	PASS	T	29824892	T	T	29824892	4	4	99	1	0	0	0	0	0	1	0	0	12610	1291	45	2	519	2	PRRT2	16	29824892	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	6745331	29824892	60529861	560	37191										
ITGAX	3687	broad.mit.edu	37	chr16	31374500	31374500	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgcagtggagaaggtggtgGtgtgatgctgttctctacgg	17	6	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:31374500G>T	uc002ebu.1	+	14	1582	c.1515G>T	c.(1513-1515)TGG>TGT	p.W505C	ITGAX_uc002ebt.2_Missense_Mutation_p.W505C|ITGAX_uc010vfk.1_Missense_Mutation_p.W155C	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	505	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GAAGGTGGTGGTGTGATGCTG	0.637													23	73	---	---	---	---	PASS	T	31374500	T	T	31374500	3	4	99	1	0	0	0	0	1	0	0	0	7889	1270	44	3	1569	3	ITGAX	16	31374500	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1549608	31374500	58980253	561	37192										
MYLK3	91807	broad.mit.edu	37	chr16	46741619	46741619	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agcagcagagttgaagattaGggagaagttggaaatttcct	13	4	0	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:46741619G>T	uc002eei.3	-	13	2573	c.2457C>A	c.(2455-2457)CCC>CCA	p.P819P	MYLK3_uc010vge.1_Silent_p.P478P	NM_182493	NP_872299	Q32MK0	MYLK3_HUMAN	myosin light chain kinase 3	819					cardiac myofibril assembly|cellular response to interleukin-1|positive regulation of sarcomere organization|regulation of vascular permeability involved in acute inflammatory response|sarcomere organization|sarcomerogenesis	cytosol	ATP binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			stomach(2)|skin(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	7		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				TTGAAGATTAGGGAGAAGTTG	0.383													11	27	---	---	---	---	PASS	T	46741619	T	T	46741619	2	4	99	1	0	0	0	0	0	0	0	1	10058	987	35	3		3	MYLK3	16	46741619	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	15367119	46741619	43613134	562	37193										
ZNF423	23090	broad.mit.edu	37	chr16	49670792	49670792	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcagcctccttgcggaagtcCcagttgcaggccgtgcagcg	13	14	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:49670792C>A	uc002efs.2	-	5	2569	c.2271G>T	c.(2269-2271)TGG>TGT	p.W757C	ZNF423_uc010vgn.1_Missense_Mutation_p.W640C	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	757	C2H2-type 18.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				TGCGGAAGTCCCAGTTGCAGG	0.587													9	29	---	---	---	---	PASS	A	49670792	A	A	49670792	3	1	99	1	0	0	0	0	1	0	0	0	17895	624	22	3	1603	3	ZNF423	16	49670792	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2929173	49670792	40683961	563	37194										
ZNF423	23090	broad.mit.edu	37	chr16	49671126	49671126	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcttcaggtgggtctggaagCtctcaaagttggagaacttg	14	7	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:49671126C>A	uc002efs.2	-	5	2235	c.1937G>T	c.(1936-1938)AGC>ATC	p.S646I	ZNF423_uc010vgn.1_Missense_Mutation_p.S529I	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	646	C2H2-type 14.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GGTCTGGAAGCTCTCAAAGTT	0.582													13	23	---	---	---	---	PASS	A	49671126	A	A	49671126	3	1	99	1	0	0	0	0	1	0	0	0	17895	797	28	3	1937	3	ZNF423	16	49671126	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	334	49671126	40683627	564	37195										
ADCY7	113	broad.mit.edu	37	chr16	50347964	50347964	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctcagcgtcgcctcagggcaCgagaaccaggtactcaagcc	11	15	3	1	rs149953515	byFrequency	TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:50347964C>T	uc002egd.1	+	22	3115	c.2847C>T	c.(2845-2847)CAC>CAT	p.H949H		NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	949	Cytoplasmic (Potential).|Guanylate cyclase 2.				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	CCTCAGGGCACGAGAACCAGG	0.552													7	28	---	---	---	---	PASS	T	50347964	T	T	50347964	2	4	99	1	0	0	0	0	0	0	0	1	299	535	19	1		1	ADCY7	16	50347964	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	676838	50347964	40006789	565	37196										
SALL1	6299	broad.mit.edu	37	chr16	51174144	51174144	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aactgctcggacatgagcggCaacaaagggttggtgaaggt	15	7	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:51174144C>A	uc010vgs.1	-	2	2020	c.1989G>T	c.(1987-1989)TTG>TTT	p.L663F	SALL1_uc010vgr.1_Missense_Mutation_p.L566F|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	663					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			ACATGAGCGGCAACAAAGGGT	0.602													22	44	---	---	---	---	PASS	A	51174144	A	A	51174144	3	1	99	1	0	0	0	0	1	0	0	0	13810	709	25	3	1993	3	SALL1	16	51174144	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	826180	51174144	39180609	566	37197										
SALL1	6299	broad.mit.edu	37	chr16	51175307	51175307	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caaggggttggcagatgttcGtaaagtaccttgagaaggac	14	6	0	2	rs104894537		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:51175307G>A	uc010vgs.1	-	2	857	c.826C>T	c.(826-828)CGA>TGA	p.R276*	SALL1_uc010vgr.1_Nonsense_Mutation_p.R179*|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	276					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GCAGATGTTCGTAAAGTACCT	0.502													23	78	---	---	---	---	PASS	A	51175307	A	A	51175307	4	1	99	1	0	0	0	0	0	1	0	0	13810	1153	40	1	3156	1	SALL1	16	51175307	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1163	51175307	39179446	567	37198										
TOX3	27324	broad.mit.edu	37	chr16	52480035	52480035	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaaaacagggcatatgctgaCactggcttctgtggctcatt	10	9	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:52480035C>A	uc002egw.2	-	5	948	c.777G>T	c.(775-777)GTG>GTT	p.V259V	TOX3_uc010vgt.1_Silent_p.V254V|TOX3_uc010vgu.1_Silent_p.V259V	NM_001080430	NP_001073899	O15405	TOX3_HUMAN	TOX high mobility group box family member 3	259	HMG box.				apoptosis|negative regulation of neuron apoptosis|positive regulation of anti-apoptosis|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|estrogen response element binding|phosphoprotein binding|protein homodimerization activity				0						CATATGCTGACACTGGCTTCT	0.448													12	59	---	---	---	---	PASS	A	52480035	A	A	52480035	2	1	99	1	0	0	0	0	0	0	0	1	16376	465	17	3		3	TOX3	16	52480035	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	1304728	52480035	37874718	568	37199										
IRX5	10265	broad.mit.edu	37	chr16	54967505	54967505	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctcgccctcggcgcagtgtcCttttccaggcgggacggtgc	14	15	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:54967505C>T	uc002ehv.2	+	3	1172	c.1172C>T	c.(1171-1173)CCT>CTT	p.P391L	IRX5_uc002ehw.2_Missense_Mutation_p.P325L	NM_005853	NP_005844	P78411	IRX5_HUMAN	iroquois homeobox protein 5	391					response to stimulus|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|vitamin D binding				0						GCGCAGTGTCCTTTTCCAGGC	0.697													4	21	---	---	---	---	PASS	T	54967505	T	T	54967505	3	4	99	1	0	0	0	0	1	0	0	0	7847	681	24	3	1182	3	IRX5	16	54967505	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2487470	54967505	35387248	569	37200										
BBS2	583	broad.mit.edu	37	chr16	56535369	56535369	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tattggctgggattatgcccCgatgcccatcagcctcgttc	10	13	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:56535369C>T	uc002ejd.2	-	10	1355	c.1121G>A	c.(1120-1122)CGG>CAG	p.R374Q	BBS2_uc010ccg.2_3'UTR	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein	374					adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						GATTATGCCCCGATGCCCATC	0.498									Bardet-Biedl_syndrome				21	67	---	---	---	---	PASS	T	56535369	T	T	56535369	3	4	99	1	0	0	0	0	1	0	0	0	1338	652	23	1	1076	1	BBS2	16	56535369	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1567864	56535369	33819384	570	37201										
CCL17	6361	broad.mit.edu	37	chr16	57449013	57449013	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctcgagggaccaatgtgggcCgggagtgctgcctggagtac	17	10	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:57449013C>A	uc002elj.1	+	3	220	c.91C>A	c.(91-93)CGG>AGG	p.R31R	CCL17_uc010ccz.1_Silent_p.R60R	NM_002987	NP_002978	Q92583	CCL17_HUMAN	small inducible cytokine A17 precursor	31					cell-cell signaling|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|inflammatory response|multicellular organismal development	extracellular space	chemokine activity			ovary(1)	1						CAATGTGGGCCGGGAGTGCTG	0.607													37	72	---	---	---	---	PASS	A	57449013	A	A	57449013	2	1	99	1	0	0	0	0	0	0	0	1	2888	643	23	1		1	CCL17	16	57449013	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	913644	57449013	32905740	571	37202										
GPR56	9289	broad.mit.edu	37	chr16	57695777	57695777	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acactgctgggcctcagcctGgtccttggcctgccctgggc	13	16	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:57695777G>T	uc002emb.2	+	14	2143	c.1851G>T	c.(1849-1851)CTG>CTT	p.L617L	GPR56_uc002ema.1_Silent_p.L442L|GPR56_uc002emc.2_Silent_p.L611L|GPR56_uc002emf.2_Silent_p.L611L|GPR56_uc010vhs.1_Silent_p.L617L|GPR56_uc002emd.2_Silent_p.L611L|GPR56_uc002eme.2_Silent_p.L611L|GPR56_uc010vht.1_Silent_p.L616L|GPR56_uc002emg.3_Silent_p.L611L|GPR56_uc010vhu.1_Silent_p.L436L	NM_005682	NP_005673	Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56 isoform a	617	Helical; Name=6; (Potential).				brain development|cell adhesion|cell-cell signaling|neuropeptide signaling pathway	integral to plasma membrane	G-protein coupled receptor activity				0						GCCTCAGCCTGGTCCTTGGCC	0.577													16	39	---	---	---	---	PASS	T	57695777	T	T	57695777	2	4	99	1	0	0	0	0	0	0	0	1	6700	1335	47	3		3	GPR56	16	57695777	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	246764	57695777	32658976	572	37203										
CCDC135	84229	broad.mit.edu	37	chr16	57732937	57732937	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgaacgagtgtgaagtgcccGtaaggctggcatgttgaggg	17	6	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:57732937G>T	uc002emi.2	+	3	467	c.378_splice	c.e3+1	p.P126_splice	CCDC135_uc002emj.2_Splice_Site_p.P126_splice|CCDC135_uc002emk.2_Splice_Site_p.P126_splice	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135							cytoplasm				central_nervous_system(1)	1						TGAAGTGCCCGTAAGGCTGGC	0.642													26	95	---	---	---	---	PASS	T	57732937	T	T	57732937	5	4	99	1	0	0	0	0	0	0	1	0	2769	1159	40	1	385	1	CCDC135	16	57732937	Splice_Site	SNP	G	TCGA-43-5668-01A-01D-1632-08	37160	57732937	32621816	573	37204										
CDH8	1006	broad.mit.edu	37	chr16	61891022	61891022	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttcgaaatttaggccacaaaCctgtttcaggctcaatggaa	8	9	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:61891022C>G	uc002eog.1	-	4	919	c.667_splice	c.e4+1	p.A223_splice	CDH8_uc002eoh.2_Intron	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		AGGCCACAAACCTGTTTCAGG	0.388													15	51	---	---	---	---	PASS	G	61891022	G	G	61891022	5	3	99	1	0	0	0	0	0	0	1	0	3116	521	18	4	1767	4	CDH8	16	61891022	Splice_Site	SNP	C	TCGA-43-5668-01A-01D-1632-08	4158085	61891022	28463731	574	37205										
SLC38A8	146167	broad.mit.edu	37	chr16	84075715	84075715	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtggcagcagccgtggcaggGtgaggcttttctggaaggcc	18	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr16:84075715G>A	uc002fhg.1	-	1	48	c.48C>T	c.(46-48)CAC>CAT	p.H16H		NM_001080442	NP_001073911	A6NNN8	S38A8_HUMAN	solute carrier family 38, member 8	16					amino acid transport|sodium ion transport	integral to membrane					0						CCGTGGCAGGGTGAGGCTTTT	0.622													7	61	---	---	---	---	PASS	A	84075715	A	A	84075715	2	1	99	1	0	0	0	0	0	0	0	1	14610	1252	44	3		3	SLC38A8	16	84075715	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	22184693	84075715	6279038	575	37206										
USP6	9098	broad.mit.edu	37	chr17	5041503	5041503	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggccatgaacgatgacaccgTgctcaagcatcttagggcct	11	12	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:5041503T>A	uc002gau.1	+	21	3243	c.1013T>A	c.(1012-1014)GTG>GAG	p.V338E	USP6_uc002gav.1_Missense_Mutation_p.V338E|USP6_uc010ckz.1_5'UTR|uc002gbd.2_5'Flank	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	338					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						GATGACACCGTGCTCAAGCAT	0.582			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								31	69	---	---	---	---	PASS	A	5041503	A	A	5041503	3	1	99	1	0	0	0	0	1	0	0	0	17083	1696	59	5	1059	5	USP6	17	5041503	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08		5041503	76153707	576	37207										
DLG4	1742	broad.mit.edu	37	chr17	7097029	7097029	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tagctcagaaccgagtcttcTcgacctggtgggaggtgggg	16	9	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:7097029T>A	uc002get.3	-	17	2878	c.1677A>T	c.(1675-1677)CGA>CGT	p.R559R	DLG4_uc010vtm.1_RNA|DLG4_uc010vtn.1_Silent_p.R456R|DLG4_uc010cly.2_Silent_p.R513R|DLG4_uc010vto.1_Silent_p.R556R	NM_001365	NP_001356	P78352	DLG4_HUMAN	post-synaptic density protein 95 isoform 1	516					axon guidance|learning|protein complex assembly|protein localization to synapse|signal transduction|synaptic transmission	cell junction|cortical cytoskeleton|endocytic vesicle membrane|neuron spine|postsynaptic density|postsynaptic membrane|synaptosome	protein binding|protein C-terminus binding			ovary(1)|breast(1)	2						CCGAGTCTTCTCGACCTGGTG	0.617													4	9	---	---	---	---	PASS	A	7097029	A	A	7097029	2	1	99	1	0	0	0	0	0	0	0	1	4557	1538	54	5		5	DLG4	17	7097029	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	2055526	7097029	74098181	577	37208										
ATP1B2	482	broad.mit.edu	37	chr17	7556735	7556735	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gttttttatgggttcctcacCgccatgttcaccctcaccat	6	14	3	0	rs141966039		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:7556735C>G	uc002gif.1	+	2	739	c.156C>G	c.(154-156)ACC>ACG	p.T52T		NM_001678	NP_001669	P14415	AT1B2_HUMAN	Na+/K+ -ATPase beta 2 subunit	52	Helical; Signal-anchor for type II membrane protein; (Potential).				ATP biosynthetic process|blood coagulation|leukocyte migration	integral to membrane|plasma membrane	protein binding|sodium:potassium-exchanging ATPase activity	p.0?(2)|p.?(1)		central_nervous_system(1)|pancreas(1)	2		all_cancers(10;0.000178)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;2.55e-06)|READ - Rectum adenocarcinoma(115;0.168)		GGTTCCTCACCGCCATGTTCA	0.562													31	63	---	---	---	---	PASS	G	7556735	G	G	7556735	2	3	99	1	0	0	0	0	0	0	0	1	1133	639	23	4		4	ATP1B2	17	7556735	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	459706	7556735	73638475	578	37209										
TP53	7157	broad.mit.edu	37	chr17	7577120	7577120	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcccaggacaggcacaaacaCgcacctcaaagctgttccgt	8	15	1	0	rs28934576	by1000genomes	TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:7577120C>A	uc002gim.2	-	8	1012	c.818G>T	c.(817-819)CGT>CTT	p.R273L	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141L|TP53_uc010cng.1_Missense_Mutation_p.R141L|TP53_uc002gii.1_Missense_Mutation_p.R141L|TP53_uc010cnh.1_Missense_Mutation_p.R273L|TP53_uc010cni.1_Missense_Mutation_p.R273L|TP53_uc002gij.2_Missense_Mutation_p.R273L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(469)|p.R273C(394)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(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)		GGCACAAACACGCACCTCAAA	0.542	R273H(NCIH1793_LUNG)|R273H(MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PANC1_PANCREAS)|R273H(NCIH508_LARGE_INTESTINE)|R273H(NCIH1975_LUNG)|R273H(U251MG_CENTRAL_NERVOUS_SYSTEM)|R273H(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273H(NCIH2405_LUNG)|R273H(HEC59_ENDOMETRIUM)|R273H(NCIH1155_LUNG)|R273H(HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(EN_ENDOMETRIUM)|R273H(SNB19_CENTRAL_NERVOUS_SYSTEM)|R273H(MDAMB468_BREAST)|R273H(SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW620_LARGE_INTESTINE)|R273H(SUIT2_PANCREAS)|R273H(SW480_LARGE_INTESTINE)|R273H(SKMEL30_SKIN)|R273H(OC314_OVARY)|R273H(HEC6_ENDOMETRIUM)|R273H(HT29_LARGE_INTESTINE)	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)			7	17	---	---	---	---	PASS	A	7577120	A	A	7577120	3	1	99	1	0	0	0	0	1	0	0	0	16378	536	19	1	468	1	TP53	17	7577120	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	20385	7577120	73618090	579	37210										
MYH4	4622	broad.mit.edu	37	chr17	10353910	10353910	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcctcctcatactgttcccgCagcaggtcacagtcatggcg	9	15	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:10353910C>T	uc002gmn.2	-	30	4152	c.4041G>A	c.(4039-4041)CTG>CTA	p.L1347L	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1347	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						ACTGTTCCCGCAGCAGGTCAC	0.542													17	42	---	---	---	---	PASS	T	10353910	T	T	10353910	2	4	99	1	0	0	0	0	0	0	0	1	10037	697	25	3		3	MYH4	17	10353910	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	2776790	10353910	70841300	580	37211										
DNAH9	1770	broad.mit.edu	37	chr17	11583238	11583238	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgagcccttaaagcagactaTtgaattgctgaagacctatg	9	8	0	5			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:11583238T>C	uc002gne.2	+	18	3586	c.3518T>C	c.(3517-3519)ATT>ACT	p.I1173T	DNAH9_uc010coo.2_Missense_Mutation_p.I467T	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1173	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AAGCAGACTATTGAATTGCTG	0.408													10	53	---	---	---	---	PASS	C	11583238	C	C	11583238	3	2	99	1	0	0	0	0	1	0	0	0	4608	1493	52	5	3588	5	DNAH9	17	11583238	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	1229328	11583238	69611972	581	37212										
DNAH9	1770	broad.mit.edu	37	chr17	11726142	11726142	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cagtaaagcagtcgattagcAaattcatggcctttgtccac	8	10	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:11726142A>T	uc002gne.2	+	48	9105	c.9037A>T	c.(9037-9039)AAA>TAA	p.K3013*	DNAH9_uc010coo.2_Nonsense_Mutation_p.K2307*	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3013	AAA 4 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GTCGATTAGCAAATTCATGGC	0.443													30	45	---	---	---	---	PASS	T	11726142	T	T	11726142	4	4	99	1	0	0	0	0	0	1	0	0	4608	131	5	5	9227	5	DNAH9	17	11726142	Nonsense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	142904	11726142	69469068	582	37213										
COX10	1352	broad.mit.edu	37	chr17	14110505	14110505	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caagcggccgagcggaggcgGggacgcagggccccctccca	17	16	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:14110505G>T	uc002gof.3	+	7	1511	c.1307G>T	c.(1306-1308)GGG>GTG	p.G436V	COX10_uc010vvs.1_Missense_Mutation_p.G219V|COX10_uc010vvt.1_Missense_Mutation_p.G244V	NM_001303	NP_001294	Q12887	COX10_HUMAN	heme A:farnesyltransferase precursor	436					heme a biosynthetic process|heme O biosynthetic process|respiratory chain complex IV assembly	integral to membrane|mitochondrial membrane	protoheme IX farnesyltransferase activity				0		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)		AGCGGAGGCGGGGACGCAGGG	0.662													7	14	---	---	---	---	PASS	T	14110505	T	T	14110505	3	4	99	1	0	0	0	0	1	0	0	0	3762	1232	43	3	1333	3	COX10	17	14110505	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2384363	14110505	67084705	583	37214										
MAP2K3	5606	broad.mit.edu	37	chr17	21205556	21205556	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	attccagaggacatccttggGgagattgctgtgtctgtgag	14	7	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:21205556G>A	uc002gys.2	+	6	766	c.501G>A	c.(499-501)GGG>GGA	p.G167G	MAP2K3_uc002gyt.2_Silent_p.G138G|MAP2K3_uc002gyu.2_Silent_p.G138G	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	167	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		ACATCCTTGGGGAGATTGCTG	0.572													6	31	---	---	---	---	PASS	A	21205556	A	A	21205556	2	1	99	1	0	0	0	0	0	0	0	1	9238	1219	43	3		3	MAP2K3	17	21205556	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	7095051	21205556	59989654	584	37215										
ATAD5	79915	broad.mit.edu	37	chr17	29195408	29195408	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaaaggcagaatctgaagggAaaaagagatgagaaacatga	13	3	1	5			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:29195408A>C	uc002hfs.1	+	12	3637	c.3291A>C	c.(3289-3291)GGA>GGC	p.G1097G	ATAD5_uc002hft.1_Silent_p.G994G	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	1097					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				ATCTGAAGGGAAAAAGAGATG	0.299													14	21	---	---	---	---	PASS	C	29195408	C	C	29195408	2	2	99	1	0	0	0	0	0	0	0	1	1076	233	9	5		5	ATAD5	17	29195408	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	7989852	29195408	51999802	585	37216										
AMAC1	146861	broad.mit.edu	37	chr17	33520778	33520778	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcggtgtagacacccgtggtCccctcctgtagtgtccagag	13	13	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:33520778C>A	uc002hjd.2	-	1	635	c.549G>T	c.(547-549)GGG>GGT	p.G183G		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	183						integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		CACCCGTGGTCCCCTCCTGTA	0.592													23	91	---	---	---	---	PASS	A	33520778	A	A	33520778	2	1	99	1	0	0	0	0	0	0	0	1	559	842	30	2		2	AMAC1	17	33520778	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	4325370	33520778	47674432	586	37217										
GPR179	440435	broad.mit.edu	37	chr17	36499258	36499258	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtacactcttgggtccccctCggccacgctgcggaccagtg	12	16	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:36499258C>A	uc002hpz.2	-	1	436	c.415G>T	c.(415-417)GAG>TAG	p.E139*		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	139	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				GGGTCCCCCTCGGCCACGCTG	0.617													12	62	---	---	---	---	PASS	A	36499258	A	A	36499258	4	1	99	1	0	0	0	0	0	1	0	0	6674	893	31	2	6732	2	GPR179	17	36499258	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2978480	36499258	44695952	587	37218										
KRT37	8688	broad.mit.edu	37	chr17	39579038	39579038	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccagggccacacctgctcgtGgttgctcttgagggagagct	14	12	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:39579038G>C	uc002hwp.1	-	3	771	c.724C>G	c.(724-726)CAC>GAC	p.H242D	uc002hwo.1_Intron	NM_003770	NP_003761	O76014	KRT37_HUMAN	keratin 37	242	Rod.|Coil 1B.					intermediate filament	structural molecule activity			skin(1)	1		Breast(137;0.000496)				ACCTGCTCGTGGTTGCTCTTG	0.687													4	17	---	---	---	---	PASS	C	39579038	C	C	39579038	3	2	99	1	0	0	0	0	1	0	0	0	8474	1348	47	4	645	4	KRT37	17	39579038	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3079780	39579038	41616172	588	37219										
ATP6V0A1	535	broad.mit.edu	37	chr17	40642586	40642586	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	caacctataacaaaaccaacAagtttacctatggctttcag	4	11	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:40642586A>T	uc002hzr.2	+	11	1272	c.1105A>T	c.(1105-1107)AAG>TAG	p.K369*	ATP6V0A1_uc002hzq.2_Nonsense_Mutation_p.K369*|ATP6V0A1_uc002hzs.2_Nonsense_Mutation_p.K376*|ATP6V0A1_uc010wgj.1_Nonsense_Mutation_p.K326*|ATP6V0A1_uc010wgk.1_Nonsense_Mutation_p.K326*|ATP6V0A1_uc010cyg.2_Nonsense_Mutation_p.K15*|ATP6V0A1_uc010wgl.1_Nonsense_Mutation_p.K228*	NM_001130021	NP_001123493	Q93050	VPP1_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a1	369	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytoplasmic vesicle membrane|endosome membrane|Golgi apparatus|integral to membrane|melanosome|nucleus|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1		all_cancers(22;1.18e-05)|Breast(137;0.000105)|all_epithelial(22;0.000254)		BRCA - Breast invasive adenocarcinoma(366;0.137)		CAAAACCAACAAGTTTACCTA	0.383													28	105	---	---	---	---	PASS	T	40642586	T	T	40642586	4	4	99	1	0	0	0	0	0	1	0	0	1168	131	5	5	1164	5	ATP6V0A1	17	40642586	Nonsense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1063548	40642586	40552624	589	37220										
BRCA1	672	broad.mit.edu	37	chr17	41215391	41215391	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tttaatagactgggtcacccCtaaagagatcatagaaaaga	8	7	2	4	rs80358137		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:41215391C>T	uc002icq.2	-	18	5385	c.5153_splice	c.e18-1	p.W1718_splice	BRCA1_uc010whp.1_Splice_Site_p.W567_splice|BRCA1_uc010whl.1_Splice_Site_p.W614_splice|BRCA1_uc010whm.1_Splice_Site_p.W28_splice|BRCA1_uc002icp.3_Splice_Site_p.W1647_splice|BRCA1_uc002icu.2_Splice_Site_p.W614_splice|BRCA1_uc010cyx.2_Splice_Site_p.W1671_splice|BRCA1_uc002ict.2_Splice_Site_p.W1739_splice|BRCA1_uc010whn.1_Splice_Site_p.W209_splice|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1						androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TGGGTCACCCCTAAAGAGATC	0.368			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			10	18	---	---	---	---	PASS	T	41215391	T	T	41215391	5	4	99	1	0	0	0	0	0	0	1	0	1498	695	24	3	463	3	BRCA1	17	41215391	Splice_Site	SNP	C	TCGA-43-5668-01A-01D-1632-08	572805	41215391	39979819	590	37221										
GPATCH8	23131	broad.mit.edu	37	chr17	42475947	42475947	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcttgctcttcccccctttcCaagccagactcttcacactt	3	18	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:42475947C>A	uc002igw.1	-	8	3562	c.3498G>T	c.(3496-3498)TTG>TTT	p.L1166F	GPATCH8_uc002igv.1_Missense_Mutation_p.L1088F|GPATCH8_uc010wiz.1_Missense_Mutation_p.L1088F	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	1166						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)		CCCCCCTTTCCAAGCCAGACT	0.537													44	124	---	---	---	---	PASS	A	42475947	A	A	42475947	3	1	99	1	0	0	0	0	1	0	0	0	6594	593	21	3	1014	3	GPATCH8	17	42475947	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1260556	42475947	38719263	591	37222										
SPATA20	64847	broad.mit.edu	37	chr17	48629453	48629453	+	Missense_Mutation	SNP	G	T	T													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgcggctgcaggacacacaGgacaagctcttttgggactc							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:48629453G>T	uc002irf.2	+	13	1962	c.1821G>T	c.(1819-1821)CAG>CAT	p.Q607H	SPATA20_uc002irc.2_Missense_Mutation_p.Q274H|SPATA20_uc002ire.2_Missense_Mutation_p.Q563H|SPATA20_uc002ird.2_Missense_Mutation_p.Q623H|SPATA20_uc002irg.2_RNA	NM_022827	NP_073738	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	607					cell differentiation|mannose metabolic process|multicellular organismal development|spermatogenesis	extracellular region	mannose-6-phosphate isomerase activity|protein binding				0	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			AGGACACACAGGACAAGCTCT	0.652													5	30	---	---	---	---	PASS	T	48629453	T	T	48629453	3	4	99	1	0	0	0	0	1	0	0	0	15005	991	35	3	1923	3	SPATA20	17	48629453	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	6153506	48629453	32565757	592	37223	690	2								
SPATA20	64847	broad.mit.edu	37	chr17	48629454	48629454	+	Missense_Mutation	SNP	G	T	T													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgcggctgcaggacacacagGacaagctcttttgggactcc							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:48629454G>T	uc002irf.2	+	13	1963	c.1822G>T	c.(1822-1824)GAC>TAC	p.D608Y	SPATA20_uc002irc.2_Missense_Mutation_p.D275Y|SPATA20_uc002ire.2_Missense_Mutation_p.D564Y|SPATA20_uc002ird.2_Missense_Mutation_p.D624Y|SPATA20_uc002irg.2_RNA	NM_022827	NP_073738	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	608					cell differentiation|mannose metabolic process|multicellular organismal development|spermatogenesis	extracellular region	mannose-6-phosphate isomerase activity|protein binding				0	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			GGACACACAGGACAAGCTCTT	0.657													5	31	---	---	---	---	PASS	T	48629454	T	T	48629454	3	4	99	1	0	0	0	0	1	0	0	0	15005	1174	41	2	1924	2	SPATA20	17	48629454	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1	48629454	32565756	593	37224	690	2								
KIF2B	84643	broad.mit.edu	37	chr17	51901800	51901800	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaaaaggcagctggaaggggCagagattaacaagagtcttc	14	6	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:51901800C>A	uc002iua.2	+	1	1562	c.1406C>A	c.(1405-1407)GCA>GAA	p.A469E	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	469	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CTGGAAGGGGCAGAGATTAAC	0.498													10	30	---	---	---	---	PASS	A	51901800	A	A	51901800	3	1	99	1	0	0	0	0	1	0	0	0	8298	710	25	3	1408	3	KIF2B	17	51901800	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3272346	51901800	29293410	594	37225										
OR4D2	124538	broad.mit.edu	37	chr17	56247027	56247027	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agaaaacaccatggaaacagGgaacctcacgtgggtatcag	11	9	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:56247027G>A	uc010wnp.1	+	1	11	c.11G>A	c.(10-12)GGG>GAG	p.G4E		NM_001004707	NP_001004707	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D,	4	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						ATGGAAACAGGGAACCTCACG	0.488													25	96	---	---	---	---	PASS	A	56247027	A	A	56247027	3	1	99	1	0	0	0	0	1	0	0	0	11056	1232	43	3	13	3	OR4D2	17	56247027	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	4345227	56247027	24948183	595	37226										
MPO	4353	broad.mit.edu	37	chr17	56349029	56349029	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcctcaccgatcaccatcccGgagcttcctgaactgggtac	8	16	2	1	rs145497027		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:56349029G>A	uc002ivu.1	-	11	2194	c.2017C>T	c.(2017-2019)CGG>TGG	p.R673W		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	673					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	TCACCATCCCGGAGCTTCCTG	0.637													8	30	---	---	---	---	PASS	A	56349029	A	A	56349029	3	1	99	1	0	0	0	0	1	0	0	0	9732	1115	39	1	228	1	MPO	17	56349029	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	102002	56349029	24846181	596	37227										
CSHL1	1444	broad.mit.edu	37	chr17	61987801	61987801	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gatttctgctgcgtttcctcCatgttggaggatgtcggaat	12	8	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:61987801C>A	uc002jda.1	-	3	347	c.285G>T	c.(283-285)ATG>ATT	p.M95I	CSHL1_uc002jcz.1_Missense_Mutation_p.M72I|CSHL1_uc002jdb.1_Missense_Mutation_p.M1I|CSHL1_uc002jdc.1_Missense_Mutation_p.M12I|CSHL1_uc002jdd.1_Missense_Mutation_p.M33I|CSHL1_uc002jde.2_Missense_Mutation_p.W193L|CSHL1_uc002jdf.2_Missense_Mutation_p.M12I|CSHL1_uc002jdg.2_Missense_Mutation_p.W165L|CSHL1_uc002jdh.2_Missense_Mutation_p.M1I	NM_022579	NP_072101	Q14406	CSHL_HUMAN	chorionic somatomammotropin hormone-like 1	95						extracellular region	hormone activity|metal ion binding				0						GCGTTTCCTCCATGTTGGAGG	0.557													34	86	---	---	---	---	PASS	A	61987801	A	A	61987801	3	1	99	1	0	0	0	0	1	0	0	0	3942	594	21	3	395	3	CSHL1	17	61987801	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	5638772	61987801	19207409	597	37228										
GH1	2688	broad.mit.edu	37	chr17	61995183	61995183	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcatagacgttgctgtcagaGgcgccgtacaccaggctgtt	12	11	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:61995183G>A	uc002jdj.2	-	4	455	c.393C>T	c.(391-393)GCC>GCT	p.A131A	GH1_uc002jdi.2_Silent_p.A116A|GH1_uc002jdk.2_Silent_p.A91A|GH1_uc002jdl.2_Intron|GH1_uc002jdm.2_Intron|GH1_uc002jdn.2_Intron	NM_000515	NP_000506	P01241	SOMA_HUMAN	growth hormone 1 isoform 1	131					glucose transport|growth hormone receptor signaling pathway|JAK-STAT cascade|positive regulation of activation of JAK2 kinase activity|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of MAP kinase activity|positive regulation of multicellular organism growth|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|response to estradiol stimulus	extracellular space	growth factor activity|growth hormone receptor binding|hormone activity|metal ion binding|prolactin receptor binding				0						TGCTGTCAGAGGCGCCGTACA	0.617													20	50	---	---	---	---	PASS	A	61995183	A	A	61995183	2	1	99	1	0	0	0	0	0	0	0	1	6367	987	35	3		3	GH1	17	61995183	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	7382	61995183	19200027	598	37229										
SCN4A	6329	broad.mit.edu	37	chr17	62049162	62049162	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcgacacagaagcctcgggcCagtatcttgatgagggactc	12	11	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:62049162C>A	uc002jds.1	-	4	608	c.531G>T	c.(529-531)CTG>CTT	p.L177L		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	177	Helical; Name=S2 of repeat I; (Potential).|I.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	AGCCTCGGGCCAGTATCTTGA	0.612													7	14	---	---	---	---	PASS	A	62049162	A	A	62049162	2	1	99	1	0	0	0	0	0	0	0	1	13920	581	21	3		3	SCN4A	17	62049162	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	53979	62049162	19146048	599	37230										
RGS9	8787	broad.mit.edu	37	chr17	63185418	63185418	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttacagaaacaaacagtcgtTgctgtcaaaaaagaggtaat	8	6	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:63185418T>C	uc002jfe.2	+	10	779	c.669T>C	c.(667-669)GTT>GTC	p.V223V	RGS9_uc010dem.2_Silent_p.V220V|RGS9_uc002jfd.2_Silent_p.V220V|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_5'UTR	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	223	G protein gamma.				intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						AAACAGTCGTTGCTGTCAAAA	0.348													11	52	---	---	---	---	PASS	C	63185418	C	C	63185418	2	2	99	1	0	0	0	0	0	0	0	1	13313	1799	63	5		5	RGS9	17	63185418	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08	1136256	63185418	18009792	600	37231										
UBE2O	63893	broad.mit.edu	37	chr17	74391933	74391933	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggaactcaattttcttaaaaGaatgatttgctagagggggg	12	4	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:74391933G>A	uc002jrm.3	-	15	2884	c.2819C>T	c.(2818-2820)TCT>TTT	p.S940F	UBE2O_uc002jrn.3_3'UTR|UBE2O_uc002jrl.3_Missense_Mutation_p.S544F	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	940							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						TTTCTTAAAAGAATGATTTGC	0.542													36	48	---	---	---	---	PASS	A	74391933	A	A	74391933	3	1	99	1	0	0	0	0	1	0	0	0	16865	942	33	2	1075	2	UBE2O	17	74391933	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	11206515	74391933	6803277	601	37232										
ENGASE	64772	broad.mit.edu	37	chr17	77073871	77073871	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cctggagcccctggcgtgtcGccagccccctctgagcagcc	12	19	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:77073871G>T	uc002jwv.2	+	3	349	c.341G>T	c.(340-342)CGC>CTC	p.R114L	ENGASE_uc002jwu.1_Missense_Mutation_p.R114L|ENGASE_uc010wtz.1_5'UTR|ENGASE_uc002jww.2_5'Flank	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	114						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						CTGGCGTGTCGCCAGCCCCCT	0.582													16	42	---	---	---	---	PASS	T	77073871	T	T	77073871	3	4	99	1	0	0	0	0	1	0	0	0	5118	1087	38	1	351	1	ENGASE	17	77073871	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2681938	77073871	4121339	602	37233										
ENGASE	64772	broad.mit.edu	37	chr17	77079880	77079880	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctggtaccacctgagcgcccAggagatccagcccttgtttg	11	14	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr17:77079880A>T	uc002jwv.2	+	10	1297	c.1289A>T	c.(1288-1290)CAG>CTG	p.Q430L	ENGASE_uc002jww.2_Missense_Mutation_p.Q136L	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	430						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						CTGAGCGCCCAGGAGATCCAG	0.662													19	64	---	---	---	---	PASS	T	77079880	T	T	77079880	3	4	99	1	0	0	0	0	1	0	0	0	5118	188	7	5	1327	5	ENGASE	17	77079880	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	6009	77079880	4115330	603	37234										
CDH2	1000	broad.mit.edu	37	chr18	25585835	25585835	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggctttgatccctcaggaacTgtcccattccaaacctggtg	9	13	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:25585835T>A	uc002kwg.2	-	6	1284	c.825A>T	c.(823-825)ACA>ACT	p.T275T	CDH2_uc010xbn.1_Silent_p.T244T	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	275	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						CCTCAGGAACTGTCCCATTCC	0.388													54	87	---	---	---	---	PASS	A	25585835	A	A	25585835	2	1	99	1	0	0	0	0	0	0	0	1	3105	1567	55	5		5	CDH2	18	25585835	Silent	SNP	T	TCGA-43-5668-01A-01D-1632-08		25585835	52491413	604	37235										
DSG1	1828	broad.mit.edu	37	chr18	28923448	28923448	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgatctgttgtgattgtggaGgtgctcctcgtagtgcagct	14	7	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:28923448G>A	uc002kwp.2	+	12	1935	c.1723G>A	c.(1723-1725)GGT>AGT	p.G575S	DSG1_uc010xbp.1_5'Flank	NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	575	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			TGATTGTGGAGGTGCTCCTCG	0.478													17	94	---	---	---	---	PASS	A	28923448	A	A	28923448	3	1	99	1	0	0	0	0	1	0	0	0	4776	1000	35	3	1769	3	DSG1	18	28923448	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3337613	28923448	49153800	605	37236										
ASXL3	80816	broad.mit.edu	37	chr18	31324241	31324241	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgtgtaaagtcatcgttgacCacagcaccacgctgacctcc	8	15	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:31324241C>T	uc010dmg.1	+	12	4484	c.4429C>T	c.(4429-4431)CAC>TAC	p.H1477Y	ASXL3_uc002kxq.2_Missense_Mutation_p.H1184Y	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1477					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CATCGTTGACCACAGCACCAC	0.532											OREG0024911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	34	---	---	---	---	PASS	T	31324241	T	T	31324241	3	4	99	1	0	0	0	0	1	0	0	0	1068	594	21	3	4475	3	ASXL3	18	31324241	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2400793	31324241	46753007	606	37237										
ELP2	55250	broad.mit.edu	37	chr18	33722805	33722805	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttaggtagagatcttttcctAgcaagctgttcacaagattg	9	7	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:33722805A>T	uc002kzk.1	+	8	682	c.672A>T	c.(670-672)CTA>CTT	p.L224L	ELP2_uc010xcg.1_Silent_p.L289L|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Silent_p.L198L|ELP2_uc010xch.1_Silent_p.L263L|ELP2_uc002kzn.1_Silent_p.L198L|ELP2_uc002kzo.1_Silent_p.L154L	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	224	WD 5.				regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						ATCTTTTCCTAGCAAGCTGTT	0.264													7	33	---	---	---	---	PASS	T	33722805	T	T	33722805	2	4	99	1	0	0	0	0	0	0	0	1	5080	407	15	5		5	ELP2	18	33722805	Silent	SNP	A	TCGA-43-5668-01A-01D-1632-08	2398564	33722805	44354443	607	37238										
FHOD3	80206	broad.mit.edu	37	chr18	34322742	34322742	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acctgaaggaaggaatagacCagttggagaacaataaaacc	10	7	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:34322742C>A	uc002kzt.1	+	18	3323	c.3226C>A	c.(3226-3228)CAG>AAG	p.Q1076K	FHOD3_uc002kzs.1_Missense_Mutation_p.Q1093K|FHOD3_uc010dmz.1_Missense_Mutation_p.Q808K|FHOD3_uc010dnb.1_Missense_Mutation_p.Q72K	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	1076	FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				AGGAATAGACCAGTTGGAGAA	0.388													31	142	---	---	---	---	PASS	A	34322742	A	A	34322742	3	1	99	1	0	0	0	0	1	0	0	0	5883	595	21	3	3351	3	FHOD3	18	34322742	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	599937	34322742	43754506	608	37239										
SETBP1	26040	broad.mit.edu	37	chr18	42530417	42530417	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tacagaagggaaaagggaagGttattccgcagatagtgccc	13	7	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:42530417G>A	uc010dni.2	+	4	1408	c.1112G>A	c.(1111-1113)GGT>GAT	p.G371D		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	371						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		AAAAGGGAAGGTTATTCCGCA	0.453									Schinzel-Giedion_syndrome				5	38	---	---	---	---	PASS	A	42530417	A	A	42530417	3	1	99	1	0	0	0	0	1	0	0	0	14129	1261	44	3	1315	3	SETBP1	18	42530417	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	8207675	42530417	35546831	609	37240										
PSTPIP2	9050	broad.mit.edu	37	chr18	43577752	43577752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctcactctgccactcttctCggaccttatccagggtgccg	9	16	4	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:43577752C>A	uc002lbp.3	-	9	701	c.605G>T	c.(604-606)CGA>CTA	p.R202L	PSTPIP2_uc002lbq.3_Missense_Mutation_p.R202L	NM_024430	NP_077748	Q9H939	PPIP2_HUMAN	proline-serine-threonine phosphatase interacting	202						membrane				ovary(1)	1						CCACTCTTCTCGGACCTTATC	0.567													7	31	---	---	---	---	PASS	A	43577752	A	A	43577752	3	1	99	1	0	0	0	0	1	0	0	0	12722	884	31	2	423	2	PSTPIP2	18	43577752	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1047335	43577752	34499496	610	37241										
TCEB3B	51224	broad.mit.edu	37	chr18	44560078	44560078	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cacctggagctggcaggcagGcctggagcccgagtacaccg	15	14	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:44560078G>T	uc002lcr.1	-	1	1911	c.1558C>A	c.(1558-1560)CCT>ACT	p.P520T	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	520	Activation domain (By similarity).				regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TGGCAGGCAGGCCTGGAGCCC	0.617													14	65	---	---	---	---	PASS	T	44560078	T	T	44560078	3	4	99	1	0	0	0	0	1	0	0	0	15679	1203	42	3	707	3	TCEB3B	18	44560078	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	982326	44560078	33517170	611	37242										
FECH	2235	broad.mit.edu	37	chr18	55221491	55221491	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaggcagatgggtgcatttaCctccttggctaaaacttgag	11	8	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:55221491C>A	uc002lgq.3	-	9	1194	c.1077_splice	c.e9+1	p.E359_splice	FECH_uc002lgp.3_Splice_Site_p.E365_splice|FECH_uc002lgr.3_Splice_Site_p.E217_splice	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor						generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)				GGTGCATTTACCTCCTTGGCT	0.373													27	121	---	---	---	---	PASS	A	55221491	A	A	55221491	5	1	99	1	0	0	0	0	0	0	1	0	5808	521	18	3	205	3	FECH	18	55221491	Splice_Site	SNP	C	TCGA-43-5668-01A-01D-1632-08	10661413	55221491	22855757	612	37243										
KIAA1468	57614	broad.mit.edu	37	chr18	59854895	59854895	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcctagatcctggctctgcgGgctcgctgtcgccacaggat	13	14	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:59854895G>T	uc002lil.2	+	1	372	c.157G>T	c.(157-159)GGC>TGC	p.G53C	PIGN_uc002lii.3_5'Flank|PIGN_uc002lij.3_5'Flank|KIAA1468_uc002lik.1_Missense_Mutation_p.G53C|KIAA1468_uc010xel.1_Missense_Mutation_p.G53C	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	53							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				TGGCTCTGCGGGCTCGCTGTC	0.687													9	40	---	---	---	---	PASS	T	59854895	T	T	59854895	3	4	99	1	0	0	0	0	1	0	0	0	8236	1232	43	3	159	3	KIAA1468	18	59854895	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	4633404	59854895	18222353	613	37244										
TNFRSF11A	8792	broad.mit.edu	37	chr18	60028957	60028957	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	taataattctgcttctcttcGcgtctgtggccctggtggct	10	11	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:60028957G>A	uc002lin.2	+	7	699	c.661G>A	c.(661-663)GCG>ACG	p.A221T	TNFRSF11A_uc010dpv.2_Intron	NM_003839	NP_003830	Q9Y6Q6	TNR11_HUMAN	tumor necrosis factor receptor superfamily,	221	Helical; (Potential).				adaptive immune response|cell-cell signaling|circadian temperature homeostasis|monocyte chemotaxis|osteoclast differentiation|positive regulation of cell proliferation|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|response to interleukin-1|response to lipopolysaccharide	external side of plasma membrane|integral to membrane	metal ion binding|tumor necrosis factor receptor activity			breast(2)|lung(1)	3		Colorectal(73;0.188)				GCTTCTCTTCGCGTCTGTGGC	0.413									Paget_Disease_of_Bone				31	159	---	---	---	---	PASS	A	60028957	A	A	60028957	3	1	99	1	0	0	0	0	1	0	0	0	16281	1087	38	1	687	1	TNFRSF11A	18	60028957	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	174062	60028957	18048291	614	37245										
PHLPP1	23239	broad.mit.edu	37	chr18	60609017	60609017	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccagccacgctttccgaagaGacaaacagtatcttacaaga	7	12	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:60609017G>C	uc002lis.2	+	12	1669	c.1491G>C	c.(1489-1491)GAG>GAC	p.E497D		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	1009					apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						TTTCCGAAGAGACAAACAGTA	0.448													5	16	---	---	---	---	PASS	C	60609017	C	C	60609017	3	2	99	1	0	0	0	0	1	0	0	0	11854	933	33	2	3069	2	PHLPP1	18	60609017	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	580060	60609017	17468231	615	37246										
SERPINB4	6318	broad.mit.edu	37	chr18	61306466	61306466	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cagcagcacaatcatgcttaGatctttgcctttgtatggta	8	9	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:61306466G>A	uc002ljf.2	-	7	807	c.721C>T	c.(721-723)CTA>TTA	p.L241L	SERPINB4_uc002lje.2_Silent_p.L220L|SERPINB4_uc002ljg.2_Intron	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	241					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						ATCATGCTTAGATCTTTGCCT	0.423													4	69	---	---	---	---	PASS	A	61306466	A	A	61306466	2	1	99	1	0	0	0	0	0	0	0	1	14103	933	33	2		2	SERPINB4	18	61306466	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	697449	61306466	16770782	616	37247										
SERPINB4	6318	broad.mit.edu	37	chr18	61310792	61310792	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgaacatgaacttggtgttgGcttcactgagtgaattcatg	11	7	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:61310792G>C	uc002ljf.2	-	2	106	c.20C>G	c.(19-21)GCC>GGC	p.A7G	SERPINB4_uc002lje.2_Missense_Mutation_p.A7G|SERPINB4_uc002ljg.2_Intron	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	7					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						CTTGGTGTTGGCTTCACTGAG	0.393													22	107	---	---	---	---	PASS	C	61310792	C	C	61310792	3	2	99	1	0	0	0	0	1	0	0	0	14103	1203	42	4	1180	4	SERPINB4	18	61310792	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	4326	61310792	16766456	617	37248										
SALL3	27164	broad.mit.edu	37	chr18	76754395	76754395	+	Missense_Mutation	SNP	G	A	A													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctacgatgacgacatggacGagaactccatggaggacgac							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:76754395G>A	uc002lmt.2	+	2	2404	c.2404G>A	c.(2404-2406)GAG>AAG	p.E802K	SALL3_uc010dra.2_Missense_Mutation_p.E409K	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	802				DDDMDE -> NDNLDK (in Ref. 2; CAB65124).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CGACATGGACGAGAACTCCAT	0.677													4	13	---	---	---	---	PASS	A	76754395	A	A	76754395	3	1	99	1	0	0	0	0	1	0	0	0	13812	1059	37	2	2410	2	SALL3	18	76754395	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	15443603	76754395	1322853	618	37249	691	2								
SALL3	27164	broad.mit.edu	37	chr18	76754397	76754397	+	Silent	SNP	G	A	A													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tacgatgacgacatggacgaGaactccatggaggacgacgc							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:76754397G>A	uc002lmt.2	+	2	2406	c.2406G>A	c.(2404-2406)GAG>GAA	p.E802E	SALL3_uc010dra.2_Silent_p.E409E	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	802				DDDMDE -> NDNLDK (in Ref. 2; CAB65124).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		ACATGGACGAGAACTCCATGG	0.682													4	12	---	---	---	---	PASS	A	76754397	A	A	76754397	2	1	99	1	0	0	0	0	0	0	0	1	13812	933	33	2		2	SALL3	18	76754397	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	2	76754397	1322851	619	37250	691	2								
SALL3	27164	broad.mit.edu	37	chr18	76755125	76755125	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccccaactttgctctaggtcCcagccaaagcactcctagcc	6	18	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr18:76755125C>A	uc002lmt.2	+	2	3134	c.3134C>A	c.(3133-3135)CCC>CAC	p.P1045H	SALL3_uc010dra.2_Missense_Mutation_p.P580H	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1045					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		GCTCTAGGTCCCAGCCAAAGC	0.537													5	36	---	---	---	---	PASS	A	76755125	A	A	76755125	3	1	99	1	0	0	0	0	1	0	0	0	13812	623	22	3	3140	3	SALL3	18	76755125	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	728	76755125	1322123	620	37251										
FAM108A1	81926	broad.mit.edu	37	chr19	1881263	1881263	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggcacgcagcgaacatacatGcaggagacgcggttgccgcg	15	12	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:1881263G>A	uc002lug.2	-	2	709	c.303C>T	c.(301-303)TGC>TGT	p.C101C	FAM108A1_uc002lud.2_Silent_p.C101C|FAM108A1_uc002lue.2_Silent_p.C101C|FAM108A1_uc002luf.2_Silent_p.C101C	NM_001130111	NP_001123583	Q96GS6	F18A1_HUMAN	hypothetical protein LOC81926 isoform 2	101						extracellular region	hydrolase activity				0		Ovarian(11;0.000137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAACATACATGCAGGAGACGC	0.662													5	31	---	---	---	---	PASS	A	1881263	A	A	1881263	2	1	99	1	0	0	0	0	0	0	0	1	5391	1311	46	3		3	FAM108A1	19	1881263	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08		1881263	57247720	621	37252										
THOP1	7064	broad.mit.edu	37	chr19	2799758	2799758	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagaacctgaacgaggacacGaccttcctgcccttcacgct	8	15	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:2799758G>C	uc002lwj.2	+	5	713	c.558G>C	c.(556-558)ACG>ACC	p.T186T	THOP1_uc010xgz.1_Silent_p.T65T	NM_003249	NP_003240	P52888	THOP1_HUMAN	thimet oligopeptidase 1	186					proteolysis	cytoplasm	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGAGGACACGACCTTCCTGC	0.612													3	33	---	---	---	---	PASS	C	2799758	C	C	2799758	2	2	99	1	0	0	0	0	0	0	0	1	15868	1045	37	2		2	THOP1	19	2799758	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	918495	2799758	56329225	622	37253										
ZNRF4	148066	broad.mit.edu	37	chr19	5456269	5456269	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccccgtgctgaccgtgtcctGggtgctgggctgtaccctgg	15	14	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:5456269G>C	uc002mca.3	+	1	844	c.767G>C	c.(766-768)TGG>TCG	p.W256S		NM_181710	NP_859061	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4 precursor	256	Helical; (Potential).					integral to membrane	zinc ion binding			large_intestine(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		ACCGTGTCCTGGGTGCTGGGC	0.682													10	23	---	---	---	---	PASS	C	5456269	C	C	5456269	3	2	99	1	0	0	0	0	1	0	0	0	18211	1357	47	4	769	4	ZNRF4	19	5456269	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2656511	5456269	53672714	623	37254										
ZNF121	7675	broad.mit.edu	37	chr19	9677404	9677404	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aacagacacagcatggcttgTggagtaagtaaaagctctcc	10	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:9677404T>A	uc010xkp.1	-	4	617	c.385A>T	c.(385-387)ACA>TCA	p.T129S	ZNF121_uc010dwt.2_Missense_Mutation_p.T129S|ZNF121_uc010xkq.1_Missense_Mutation_p.T129S	NM_001008727	NP_001008727	P58317	ZN121_HUMAN	zinc finger protein 121	129	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GCATGGCTTGTGGAGTAAGTA	0.368													10	27	---	---	---	---	PASS	A	9677404	A	A	9677404	3	1	99	1	0	0	0	0	1	0	0	0	17716	1696	59	5	791	5	ZNF121	19	9677404	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	4221135	9677404	49451579	624	37255										
ZNF763	284390	broad.mit.edu	37	chr19	12089327	12089327	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgcatggtaatgcacagtggGgatggaccttataaatgtaa	12	6	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:12089327G>T	uc002msw.2	+	4	743	c.588G>T	c.(586-588)GGG>GGT	p.G196G	ZNF763_uc010xmf.1_Silent_p.G216G|ZNF763_uc002msv.2_Silent_p.G199G|ZNF763_uc010xmg.1_Silent_p.G74G	NM_001012753	NP_001012771	Q0D2J5	ZN763_HUMAN	zinc finger protein 763	196					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						TGCACAGTGGGGATGGACCTT	0.403													64	58	---	---	---	---	PASS	T	12089327	T	T	12089327	2	4	99	1	0	0	0	0	0	0	0	1	18134	1219	43	3		3	ZNF763	19	12089327	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	2411923	12089327	47039656	625	37256										
SYCE2	256126	broad.mit.edu	37	chr19	13011312	13011312	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtctttgtacacagtctccaCgctgtggcagacttgtttga	10	10	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:13011312C>T	uc002mvr.2	-	4	472	c.457G>A	c.(457-459)GTG>ATG	p.V153M		NM_001105578	NP_001099048	Q6PIF2	SYCE2_HUMAN	synaptonemal complex central element protein 2	153					cell division	central element					0						ACAGTCTCCACGCTGTGGCAG	0.527													11	48	---	---	---	---	PASS	T	13011312	T	T	13011312	3	4	99	1	0	0	0	0	1	0	0	0	15426	536	19	1	211	1	SYCE2	19	13011312	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	921985	13011312	46117671	626	37257										
RASAL3	64926	broad.mit.edu	37	chr19	15574963	15574963	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttgggaggcgcagataggacCcgacggaatatcgagcgagg	17	8	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:15574963C>A	uc002nbe.2	-	2	293	c.207G>T	c.(205-207)CGG>CGT	p.R69R		NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	69					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0						CAGATAGGACCCGACGGAATA	0.682													24	10	---	---	---	---	PASS	A	15574963	A	A	15574963	2	1	99	1	0	0	0	0	0	0	0	1	13065	610	22	3		3	RASAL3	19	15574963	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	2563651	15574963	43554020	627	37258										
OR10H2	26538	broad.mit.edu	37	chr19	15839146	15839146	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	catcgccttcctggcctgtgCcagtcagatgttcttctcct	8	15	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:15839146C>A	uc002nbm.2	+	1	313	c.293C>A	c.(292-294)GCC>GAC	p.A98D		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					CTGGCCTGTGCCAGTCAGATG	0.632													27	33	---	---	---	---	PASS	A	15839146	A	A	15839146	3	1	99	1	0	0	0	0	1	0	0	0	10906	739	26	3	295	3	OR10H2	19	15839146	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	264183	15839146	43289837	628	37259										
ABHD8	79575	broad.mit.edu	37	chr19	17405196	17405196	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcggcgtggtagacctcgtcGccctcgggccagtactggcc	14	15	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:17405196G>A	uc002ngb.3	-	4	1290	c.1050C>T	c.(1048-1050)GGC>GGT	p.G350G		NM_024527	NP_078803	Q96I13	ABHD8_HUMAN	abhydrolase domain containing 8	350							hydrolase activity				0						AGACCTCGTCGCCCTCGGGCC	0.612													9	108	---	---	---	---	PASS	A	17405196	A	A	17405196	2	1	99	1	0	0	0	0	0	0	0	1	87	1074	38	1		1	ABHD8	19	17405196	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	1566050	17405196	41723787	629	37260										
ZNF430	80264	broad.mit.edu	37	chr19	21240824	21240824	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tggagagaaaccctacaaatGtgaagattgtggcaaagcct	11	7	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:21240824G>A	uc002npj.2	+	5	1820	c.1710G>A	c.(1708-1710)ATG>ATA	p.M570I	ZNF430_uc002npk.2_Missense_Mutation_p.M569I	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	570					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						CCCTACAAATGTGAAGATTGT	0.393													15	16	---	---	---	---	PASS	A	21240824	A	A	21240824	3	1	99	1	0	0	0	0	1	0	0	0	17901	1377	48	3	1728	3	ZNF430	19	21240824	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3835628	21240824	37888159	630	37261										
ZNF98	148198	broad.mit.edu	37	chr19	22574527	22574527	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	catcttatgtgtagtaaggtGtgaggactggttaaaagctt	12	4	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:22574527G>T	uc002nqt.2	-	4	1632	c.1510C>A	c.(1510-1512)CAC>AAC	p.H504N		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	504	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				GTAGTAAGGTGTGAGGACTGG	0.383													94	37	---	---	---	---	PASS	T	22574527	T	T	22574527	3	4	99	1	0	0	0	0	1	0	0	0	18200	1377	48	3	212	3	ZNF98	19	22574527	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1333703	22574527	36554456	631	37262										
ZNF99	7652	broad.mit.edu	37	chr19	22952052	22952052	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ataacattcctatataaattCtgctgagccatgtccaggca	6	10	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:22952052C>T	uc010xrh.1	-	2	141	c.141G>A	c.(139-141)CAG>CAA	p.Q47Q		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)				TATATAAATTCTGCTGAGCCA	0.383													80	39	---	---	---	---	PASS	T	22952052	T	T	22952052	2	4	99	1	0	0	0	0	0	0	0	1	18201	912	32	2		2	ZNF99	19	22952052	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	377525	22952052	36176931	632	37263										
ZNF536	9745	broad.mit.edu	37	chr19	31039578	31039578	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cctccatggagctcatggccCttcatctccaggccaaccac	7	18	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:31039578C>G	uc002nsu.1	+	4	3190	c.3052C>G	c.(3052-3054)CTT>GTT	p.L1018V	ZNF536_uc010edd.1_Missense_Mutation_p.L1018V	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1018					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCTCATGGCCCTTCATCTCCA	0.572													56	18	---	---	---	---	PASS	G	31039578	G	G	31039578	3	3	99	1	0	0	0	0	1	0	0	0	17971	681	24	4	3062	4	ZNF536	19	31039578	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	8087526	31039578	28089405	633	37264										
GPATCH1	55094	broad.mit.edu	37	chr19	33587209	33587209	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagataatgtgcatggtctaGcttacaagggcctggatccc	11	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:33587209G>T	uc002nug.1	+	7	1023	c.709G>T	c.(709-711)GCT>TCT	p.A237S		NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	237						catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					GCATGGTCTAGCTTACAAGGG	0.463													117	78	---	---	---	---	PASS	T	33587209	T	T	33587209	3	4	99	1	0	0	0	0	1	0	0	0	6590	971	34	3	735	3	GPATCH1	19	33587209	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2547631	33587209	25541774	634	37265										
ZNF569	148266	broad.mit.edu	37	chr19	37905157	37905157	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	taagtcatactcatagagatTgtgtctggaagggaaaaaat	10	4	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:37905157T>G	uc002ogi.2	-	6	961	c.403A>C	c.(403-405)AAT>CAT	p.N135H	ZNF569_uc002ogh.2_5'UTR|ZNF569_uc002ogj.2_Missense_Mutation_p.N159H	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCATAGAGATTGTGTCTGGAA	0.313													56	47	---	---	---	---	PASS	G	37905157	G	G	37905157	3	3	99	1	0	0	0	0	1	0	0	0	17997	1812	63	5	1661	5	ZNF569	19	37905157	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	4317948	37905157	21223826	635	37266										
RASGRP4	115727	broad.mit.edu	37	chr19	38912755	38912755	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcacttggcggggccggcctCgccctcctatttttccggtg	13	15	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:38912755C>A	uc002oir.2	-	2	276	c.62G>T	c.(61-63)CGA>CTA	p.R21L	RASGRP4_uc010efz.1_5'Flank|RASGRP4_uc010ega.1_5'Flank|RASGRP4_uc010xua.1_Missense_Mutation_p.R21L|RASGRP4_uc010xub.1_Missense_Mutation_p.R21L|RASGRP4_uc010xuc.1_Missense_Mutation_p.R21L|RASGRP4_uc010xud.1_Missense_Mutation_p.R21L|RASGRP4_uc010xue.1_Missense_Mutation_p.R21L|RASGRP4_uc010egb.2_Missense_Mutation_p.R21L	NM_170604	NP_733749	Q8TDF6	GRP4_HUMAN	RAS guanyl releasing protein 4 isoform a	21					activation of phospholipase C activity|cell growth|cell proliferation|myeloid cell differentiation|positive regulation of Ras protein signal transduction|regulation of G-protein coupled receptor protein signaling pathway|response to extracellular stimulus|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|membrane fraction|plasma membrane|soluble fraction	diacylglycerol binding|GTP-dependent protein binding|metal ion binding|Ras guanyl-nucleotide exchange factor activity			pancreas(1)|lung(1)|skin(1)	3	all_cancers(60;4.21e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GGGCCGGCCTCGCCCTCCTAT	0.617													22	15	---	---	---	---	PASS	A	38912755	A	A	38912755	3	1	99	1	0	0	0	0	1	0	0	0	13077	884	31	2	2023	2	RASGRP4	19	38912755	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1007598	38912755	20216228	636	37267										
RYR1	6261	broad.mit.edu	37	chr19	39019676	39019676	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gttggtcctgcacttcagccGcactgccctgacggaaaaga	11	13	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:39019676G>T	uc002oit.2	+	76	11250	c.11120G>T	c.(11119-11121)CGC>CTC	p.R3707L	RYR1_uc002oiu.2_Missense_Mutation_p.R3702L|RYR1_uc002oiv.1_Missense_Mutation_p.R622L|RYR1_uc010xuf.1_Missense_Mutation_p.R627L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3707					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CACTTCAGCCGCACTGCCCTG	0.522													9	13	---	---	---	---	PASS	T	39019676	T	T	39019676	3	4	99	1	0	0	0	0	1	0	0	0	13768	1087	38	1	11422	1	RYR1	19	39019676	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	106921	39019676	20109307	637	37268										
CYP2A6	1548	broad.mit.edu	37	chr19	41354554	41354554	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gggcgtcgatgaggaagcccGcctcctcctggatgcgctcc	14	15	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:41354554G>A	uc002opl.3	-	3	479	c.458C>T	c.(457-459)GCG>GTG	p.A153V	CYP2A6_uc010ehe.1_5'UTR|CYP2A6_uc010ehf.1_RNA	NM_000762	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A,	153					coumarin catabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|enzyme binding|heme binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Chlorzoxazone(DB00356)|Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Formoterol(DB00983)|Halothane(DB01159)|Letrozole(DB01006)|Methoxsalen(DB00553)|Metyrapone(DB01011)|Nicotine(DB00184)|Pilocarpine(DB01085)|Tolbutamide(DB01124)|Tranylcypromine(DB00752)	GAGGAAGCCCGCCTCCTCCTG	0.706													5	62	---	---	---	---	PASS	A	41354554	A	A	41354554	3	1	99	1	0	0	0	0	1	0	0	0	4162	1087	38	1	1054	1	CYP2A6	19	41354554	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2334878	41354554	17774429	638	37269										
CCDC97	90324	broad.mit.edu	37	chr19	41825636	41825636	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gggagacctgcttgcccgctCtccaacttgctgctccagtc	10	16	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:41825636C>T	uc002oqg.2	+	3	782	c.660C>T	c.(658-660)CTC>CTT	p.L220L	CYP2F1_uc010xvw.1_Intron	NM_052848	NP_443080	Q96F63	CCD97_HUMAN	coiled-coil domain containing 97	220											0						CTTGCCCGCTCTCCAACTTGC	0.522													35	19	---	---	---	---	PASS	T	41825636	T	T	41825636	2	4	99	1	0	0	0	0	0	0	0	1	2875	900	32	2		2	CCDC97	19	41825636	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	471082	41825636	17303347	639	37270										
PSG8	440533	broad.mit.edu	37	chr19	43258691	43258691	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acaagtagaggacttctcctGaacggtaataggtgaatgaa	11	6	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:43258691G>T	uc002ouo.2	-	5	1135	c.1037C>A	c.(1036-1038)TCA>TAA	p.S346*	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc010eim.2_RNA|PSG8_uc002oui.2_Nonsense_Mutation_p.S185*|PSG8_uc002ouh.2_Nonsense_Mutation_p.S346*|PSG8_uc010ein.2_Nonsense_Mutation_p.S224*|PSG8_uc002ouj.3_Nonsense_Mutation_p.S128*|PSG8_uc002ouk.3_Nonsense_Mutation_p.S185*|PSG8_uc002oul.3_Nonsense_Mutation_p.S346*|PSG8_uc002oum.3_Nonsense_Mutation_p.S253*|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Nonsense_Mutation_p.S253*	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	346	Ig-like C2-type 3.					extracellular region					0		Prostate(69;0.00899)				GACTTCTCCTGAACGGTAATA	0.478													109	62	---	---	---	---	PASS	T	43258691	T	T	43258691	4	4	99	1	0	0	0	0	0	1	0	0	12661	1294	45	2	268	2	PSG8	19	43258691	Nonsense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1433055	43258691	15870292	640	37271										
PRKD2	25865	broad.mit.edu	37	chr19	47192836	47192836	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aggcgctcaggcagccggccCttctcactggacaggatcat	12	14	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:47192836C>A	uc002pfh.2	-	15	2271	c.1929G>T	c.(1927-1929)AAG>AAT	p.K643N	PRKD2_uc002pfd.2_Missense_Mutation_p.K17N|PRKD2_uc010eks.2_Missense_Mutation_p.K46N|PRKD2_uc010ekt.2_Translation_Start_Site|PRKD2_uc002pfe.2_Missense_Mutation_p.K163N|PRKD2_uc002pff.2_Missense_Mutation_p.K163N|PRKD2_uc002pfg.2_Missense_Mutation_p.K486N|PRKD2_uc002pfi.2_Missense_Mutation_p.K643N|PRKD2_uc002pfj.2_Missense_Mutation_p.K643N|PRKD2_uc010xye.1_Missense_Mutation_p.K643N|PRKD2_uc002pfk.2_Missense_Mutation_p.K486N	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	643	Protein kinase.				cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		GCAGCCGGCCCTTCTCACTGG	0.602													15	11	---	---	---	---	PASS	A	47192836	A	A	47192836	3	1	99	1	0	0	0	0	1	0	0	0	12519	680	24	3	727	3	PRKD2	19	47192836	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	3934145	47192836	11936147	641	37272										
ZC3H4	23211	broad.mit.edu	37	chr19	47575179	47575179	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtagggcatcattggagggcCgccagggcccatgggtgggc	19	10	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:47575179C>A	uc002pga.3	-	13	2040	c.2002G>T	c.(2002-2004)GGC>TGC	p.G668C	ZC3H4_uc002pgb.1_Intron	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	668	Pro-rich.						nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		ATTGGAGGGCCGCCAGGGCCC	0.438													19	9	---	---	---	---	PASS	A	47575179	A	A	47575179	3	1	99	1	0	0	0	0	1	0	0	0	17567	652	23	1	1921	1	ZC3H4	19	47575179	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	382343	47575179	11553804	642	37273										
SLC8A2	6543	broad.mit.edu	37	chr19	47951365	47951365	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcgaacatgccctgcgcgtcGcccacgcgcaggttcagcag	12	16	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:47951365G>A	uc002pgx.2	-	4	1742	c.1464C>T	c.(1462-1464)GGC>GGT	p.G488G	SLC8A2_uc010xyq.1_Silent_p.G244G|SLC8A2_uc010xyr.1_Intron|SLC8A2_uc010ele.2_Silent_p.G488G	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	488	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		CCTGCGCGTCGCCCACGCGCA	0.692													6	12	---	---	---	---	PASS	A	47951365	A	A	47951365	2	1	99	1	0	0	0	0	0	0	0	1	14707	1074	38	1		1	SLC8A2	19	47951365	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	376186	47951365	11177618	643	37274										
CGB7	94027	broad.mit.edu	37	chr19	49557609	49557609	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gggatggacttggaaggctgGggggaggggcctttgaggaa	22	4	0	1	rs138708969		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:49557609G>T	uc002pmd.2	-	3	802	c.437C>A	c.(436-438)CCC>CAC	p.P146H	CGB_uc010yad.1_Intron|CGB8_uc002pmc.2_Intron|CGB7_uc002pme.2_Missense_Mutation_p.P146H	NM_033142	NP_149133	P01233	CGHB_HUMAN	chorionic gonadotropin, beta polypeptide 7	146					apoptosis|cell-cell signaling|cellular nitrogen compound metabolic process|female gamete generation|hormone biosynthetic process|peptide hormone processing|signal transduction	extracellular region|soluble fraction	hormone activity				0		all_epithelial(76;9.62e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)	Choriogonadotropin alfa(DB00097)	TGGAAGGCTGGGGGGAGGGGC	0.642													31	35	---	---	---	---	PASS	T	49557609	T	T	49557609	3	4	99	1	0	0	0	0	1	0	0	0	3300	1232	43	3	64	3	CGB7	19	49557609	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1606244	49557609	9571374	644	37275										
CD37	951	broad.mit.edu	37	chr19	49842171	49842171	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agacatctgcgctgtccctgCagagagccacatctaccgcg	10	15	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:49842171C>A	uc002pnd.2	+	6	783	c.662C>A	c.(661-663)GCA>GAA	p.A221E	uc002pnb.1_Intron|CD37_uc002pnc.2_RNA|CD37_uc010yam.1_Missense_Mutation_p.A221E|CD37_uc010yan.1_Missense_Mutation_p.A153E|CD37_uc002pnf.3_Missense_Mutation_p.A193E|CD37_uc002pne.2_Missense_Mutation_p.A153E	NM_001774	NP_001765	P11049	CD37_HUMAN	CD37 antigen isoform A	221	Extracellular (Potential).					integral to membrane					0		all_lung(116;2.81e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00088)|GBM - Glioblastoma multiforme(486;0.0443)		GCTGTCCCTGCAGAGAGCCAC	0.622													25	20	---	---	---	---	PASS	A	49842171	A	A	49842171	3	1	99	1	0	0	0	0	1	0	0	0	3008	710	25	3	684	3	CD37	19	49842171	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	284562	49842171	9286812	645	37276										
LRRC4B	94030	broad.mit.edu	37	chr19	51021570	51021570	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgcccccagggccgcccccgCcgctgccggtgcccccggcc	13	24	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:51021570C>A	uc002pss.2	-	3	1537	c.1400G>T	c.(1399-1401)GGC>GTC	p.G467V		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	467	Gly-rich.|Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		gccgcccccgccgctgccggt	0.408													11	11	---	---	---	---	PASS	A	51021570	A	A	51021570	3	1	99	1	0	0	0	0	1	0	0	0	9007	739	26	3	745	3	LRRC4B	19	51021570	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1179399	51021570	8107413	646	37277										
SYT3	84258	broad.mit.edu	37	chr19	51128529	51128529	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggggcccacacggcacacgcCgatcacctcgttgtgcccga	12	17	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:51128529C>A	uc002pst.2	-	7	2231	c.1597G>T	c.(1597-1599)GGC>TGC	p.G533C	SYT3_uc002psv.2_Missense_Mutation_p.G533C|SYT3_uc010ycd.1_Missense_Mutation_p.G533C	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	533	C2 2.|Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		CGGCACACGCCGATCACCTCG	0.687													4	5	---	---	---	---	PASS	A	51128529	A	A	51128529	3	1	99	1	0	0	0	0	1	0	0	0	15472	652	23	1	183	1	SYT3	19	51128529	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	106959	51128529	8000454	647	37278										
KLK11	11012	broad.mit.edu	37	chr19	51527457	51527457	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	attgcggtggtctttgttggGgaggctgttgttgaagccgg	18	5	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:51527457G>A	uc002pvd.1	-	4	515	c.403C>T	c.(403-405)CCC>TCC	p.P135S	KLK11_uc002pvb.1_Missense_Mutation_p.P128S|KLK11_uc002pve.1_5'UTR|KLK11_uc002pvf.1_Missense_Mutation_p.P103S|KLK11_uc002pvc.3_Missense_Mutation_p.P103S|KLK11_uc010eom.2_3'UTR	NM_144947	NP_659196	Q9UBX7	KLK11_HUMAN	kallikrein 11 isoform 2 precursor	135	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00327)|GBM - Glioblastoma multiforme(134;0.00878)		TCTTTGTTGGGGAGGCTGTTG	0.607													42	33	---	---	---	---	PASS	A	51527457	A	A	51527457	3	1	99	1	0	0	0	0	1	0	0	0	8399	1232	43	3	457	3	KLK11	19	51527457	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	398928	51527457	7601526	648	37279										
SIGLEC10	89790	broad.mit.edu	37	chr19	51918210	51918210	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gggcccggctgagctgggggTgacctcgaaggagtcctggc	19	11	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:51918210T>A	uc002pwo.2	-	8	2099	c.1483A>T	c.(1483-1485)ACC>TCC	p.T495S	SIGLEC10_uc002pwp.2_Missense_Mutation_p.T437S|SIGLEC10_uc002pwq.2_Intron|SIGLEC10_uc002pwr.2_Intron|SIGLEC10_uc010ycy.1_Intron|SIGLEC10_uc010ycz.1_Intron|SIGLEC10_uc010eow.2_Intron|SIGLEC10_uc002pws.1_Intron	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	495	Extracellular (Potential).				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GAGCTGGGGGTGACCTCGAAG	0.701													29	22	---	---	---	---	PASS	A	51918210	A	A	51918210	3	1	99	1	0	0	0	0	1	0	0	0	14306	1696	59	5	626	5	SIGLEC10	19	51918210	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	390753	51918210	7210773	649	37280										
HAS1	3036	broad.mit.edu	37	chr19	52217094	52217094	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaggccgccttggccagtgcCacgccctgcacgcacagcag	12	17	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:52217094C>A	uc002pxo.1	-	5	1358	c.1323G>T	c.(1321-1323)GTG>GTT	p.V441V	HAS1_uc010epc.1_Silent_p.V41V|HAS1_uc010epd.1_3'UTR|HAS1_uc002pxn.1_Silent_p.V448V|HAS1_uc002pxp.1_Silent_p.V440V	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1	441	Helical; Name=4; (Potential).				cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding			ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		TGGCCAGTGCCACGCCCTGCA	0.701													20	10	---	---	---	---	PASS	A	52217094	A	A	52217094	2	1	99	1	0	0	0	0	0	0	0	1	6961	581	21	3		3	HAS1	19	52217094	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	298884	52217094	6911889	650	37281										
ZNF611	81856	broad.mit.edu	37	chr19	53208581	53208581	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atacaaggtatgacctgtgaCtgaaggtcttgctgcactca	10	9	2	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:53208581C>A	uc002pzz.2	-	7	2044	c.1727G>T	c.(1726-1728)AGT>ATT	p.S576I	ZNF611_uc010eqc.2_Missense_Mutation_p.S506I|ZNF611_uc010ydo.1_Missense_Mutation_p.S506I|ZNF611_uc010ydr.1_Missense_Mutation_p.S507I|ZNF611_uc010ydp.1_Missense_Mutation_p.S576I|ZNF611_uc010ydq.1_Missense_Mutation_p.S576I|ZNF611_uc002qaa.3_Missense_Mutation_p.S506I	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	576	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		TGACCTGTGACTGAAGGTCTT	0.433													216	115	---	---	---	---	PASS	A	53208581	A	A	53208581	3	1	99	1	0	0	0	0	1	0	0	0	18034	565	20	3	394	3	ZNF611	19	53208581	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	991487	53208581	5920402	651	37282										
ZNF667	63934	broad.mit.edu	37	chr19	56953880	56953880	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcctgtatgaatgttctgatGaagtttaagagagaagcttc	10	5	1	5			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:56953880G>A	uc002qnd.2	-	5	646	c.484C>T	c.(484-486)CAT>TAT	p.H162Y	ZNF667_uc010etl.2_5'UTR|ZNF667_uc002qne.2_Missense_Mutation_p.H162Y|ZNF667_uc010etm.2_Missense_Mutation_p.H105Y	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	162	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		ATGTTCTGATGAAGTTTAAGA	0.373													102	54	---	---	---	---	PASS	A	56953880	A	A	56953880	3	1	99	1	0	0	0	0	1	0	0	0	18071	1290	45	2	1352	2	ZNF667	19	56953880	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	3745299	56953880	2175103	652	37283										
ZNF543	125919	broad.mit.edu	37	chr19	57840469	57840469	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtggaaaggcttttaatcgcGgctcatccctcacacatcat	8	12	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr19:57840469G>C	uc002qoi.1	+	4	1984	c.1639G>C	c.(1639-1641)GGC>CGC	p.G547R		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	547	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TTTTAATCGCGGCTCATCCCT	0.463													37	40	---	---	---	---	PASS	C	57840469	C	C	57840469	3	2	99	1	0	0	0	0	1	0	0	0	17973	1116	39	4	1653	4	ZNF543	19	57840469	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	886589	57840469	1288514	653	37284										
TCF15	6939	broad.mit.edu	37	chr20	590488	590488	+	Missense_Mutation	SNP	C	A	A													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctgcccgtcgtcggccgagtCgcccagcagcagcacgttgg							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:590488C>A	uc002wdz.2	-	1	423	c.394G>T	c.(394-396)GAC>TAC	p.D132Y		NM_004609	NP_004600	Q12870	TCF15_HUMAN	basic helix-loop-helix transcription factor 15	132					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Breast(17;0.231)				TCGGCCGAGTCGCCCAGCAGC	0.542													3	5	---	---	---	---	PASS	A	590488	A	A	590488	3	1	99	1	0	0	0	0	1	0	0	0	15685	884	31	2	213	2	TCF15	20	590488	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08		590488	62435032	654	37285	692	2								
TCF15	6939	broad.mit.edu	37	chr20	590489	590489	+	Silent	SNP	G	C	C													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgcccgtcgtcggccgagtcGcccagcagcagcacgttggc							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:590489G>C	uc002wdz.2	-	1	422	c.393C>G	c.(391-393)GGC>GGG	p.G131G		NM_004609	NP_004600	Q12870	TCF15_HUMAN	basic helix-loop-helix transcription factor 15	131					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Breast(17;0.231)				CGGCCGAGTCGCCCAGCAGCA	0.537													3	5	---	---	---	---	PASS	C	590489	C	C	590489	2	2	99	1	0	0	0	0	0	0	0	1	15685	1074	38	4		4	TCF15	20	590489	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	1	590489	62435031	655	37286	692	2								
SIRPB1	10326	broad.mit.edu	37	chr20	1552405	1552405	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gttggcagtcccacgaagagGgtccccctgcaaggtgatgt	14	11	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:1552405G>A	uc010gai.2	-	3	811	c.712C>T	c.(712-714)CCT>TCT	p.P238S	SIRPB1_uc002wfk.3_Intron	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	238	Ig-like C1-type 1.|Extracellular (Potential).				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						CCACGAAGAGGGTCCCCCTGC	0.617													31	25	---	---	---	---	PASS	A	1552405	A	A	1552405	3	1	99	1	0	0	0	0	1	0	0	0	14333	1232	43	3	496	3	SIRPB1	20	1552405	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	961916	1552405	61473115	656	37287										
CENPB	1059	broad.mit.edu	37	chr20	3766827	3766827	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggctatgcgcagcgccttctCcttgaggatgatgcccttga	12	12	1	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:3766827C>A	uc002wjk.2	-	1	511	c.304G>T	c.(304-306)GAG>TAG	p.E102*	CDC25B_uc010zqk.1_5'Flank|CDC25B_uc010zql.1_5'Flank|CDC25B_uc010zqm.1_5'Flank	NM_001810	NP_001801	P07199	CENPB_HUMAN	centromere protein B	102	HTH CENPB-type.|H-T-H motif.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|satellite DNA binding				0						AGCGCCTTCTCCTTGAGGATG	0.667													26	40	---	---	---	---	PASS	A	3766827	A	A	3766827	4	1	99	1	0	0	0	0	0	1	0	0	3227	864	30	2	1499	2	CENPB	20	3766827	Nonsense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2214422	3766827	59258693	657	37288										
PAK7	57144	broad.mit.edu	37	chr20	9523318	9523318	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctcattgaagtaggggggcTcgccatcaatcatttctatc	10	10	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:9523318T>G	uc002wnl.2	-	10	2464	c.1919A>C	c.(1918-1920)GAG>GCG	p.E640A	PAK7_uc002wnk.2_Missense_Mutation_p.E640A|PAK7_uc002wnj.2_Missense_Mutation_p.E640A|PAK7_uc010gby.1_Intron	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	640	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			GTAGGGGGGCTCGCCATCAAT	0.527													35	42	---	---	---	---	PASS	G	9523318	G	G	9523318	3	3	99	1	0	0	0	0	1	0	0	0	11405	1551	54	5	248	5	PAK7	20	9523318	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	5756491	9523318	53502202	658	37289										
NKX2-4	644524	broad.mit.edu	37	chr20	21376611	21376611	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gccgctgtactccccggcggCcgcgtccagggccgccaggc	15	19	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:21376611C>A	uc010gcz.2	-	2	1013	c.1003G>T	c.(1003-1005)GCC>TCC	p.A335S		NM_033176	NP_149416	Q9H2Z4	NKX24_HUMAN	NK2 homeobox 4	335					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						Tccccggcggccgcgtccagg	0.577													4	12	---	---	---	---	PASS	A	21376611	A	A	21376611	3	1	99	1	0	0	0	0	1	0	0	0	10452	739	26	3	65	3	NKX2-4	20	21376611	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	11853293	21376611	41648909	659	37290										
KIF3B	9371	broad.mit.edu	37	chr20	30898728	30898728	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaggaagaggcgagagaagcGgagggaaggtggtggcagtg	23	3	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:30898728G>C	uc002wxq.2	+	2	1315	c.1148G>C	c.(1147-1149)CGG>CCG	p.R383P	KIF3B_uc010ztv.1_Intron|KIF3B_uc010ztw.1_Intron	NM_004798	NP_004789	O15066	KIF3B_HUMAN	kinesin family member 3B	383	Potential.				anterograde axon cargo transport|blood coagulation|determination of left/right symmetry|mitotic centrosome separation|plus-end-directed vesicle transport along microtubule|spindle assembly involved in mitosis	centrosome|cytosol|kinesin II complex|plus-end kinesin complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|Rho GTPase binding			central_nervous_system(3)|ovary(2)	5			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CGAGAGAAGCGGAGGGAAGGT	0.443													5	19	---	---	---	---	PASS	C	30898728	C	C	30898728	3	2	99	1	0	0	0	0	1	0	0	0	8301	1116	39	4	1150	4	KIF3B	20	30898728	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	9522117	30898728	32126792	660	37291										
SUN5	140732	broad.mit.edu	37	chr20	31592074	31592074	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gggctgccatcctcacctccGgggtctgggattgtgggcca	15	13	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:31592074G>T	uc002wyi.2	-	1	166	c.73C>A	c.(73-75)CGG>AGG	p.R25R		NM_080675	NP_542406	Q8TC36	SUN5_HUMAN	sperm associated antigen 4-like	25					spermatogenesis					skin(1)	1						CCTCACCTCCGGGGTCTGGGA	0.358													2	3	---	---	---	---	PASS	T	31592074	T	T	31592074	2	4	99	1	0	0	0	0	0	0	0	1	15391	1115	39	1		1	SUN5	20	31592074	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	693346	31592074	31433446	661	37292										
C20orf114	92747	broad.mit.edu	37	chr20	31894774	31894774	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggccttgggattcgaggcagCtgagtcctcactgaccaagg	14	11	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:31894774C>A	uc002wyw.1	+	15	1537	c.1376C>A	c.(1375-1377)GCT>GAT	p.A459D	C20orf114_uc002wyx.1_RNA	NM_033197	NP_149974	Q8TDL5	LPLC1_HUMAN	LPLUNC1 protein precursor	459						extracellular space	lipid binding			central_nervous_system(2)|skin(2)	4						TTCGAGGCAGCTGAGTCCTCA	0.463													22	61	---	---	---	---	PASS	A	31894774	A	A	31894774	3	1	99	1	0	0	0	0	1	0	0	0	2082	797	28	3	1430	3	C20orf114	20	31894774	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	302700	31894774	31130746	662	37293										
FAM83C	128876	broad.mit.edu	37	chr20	33874999	33874999	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaagggggcctgagttggggGtaaccccagagtcagggtct	18	8	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:33874999G>A	uc010zux.1	-	4	1701	c.1583C>T	c.(1582-1584)ACC>ATC	p.T528I	EIF6_uc002xbv.1_5'Flank|EIF6_uc002xbx.1_5'Flank|EIF6_uc002xbz.1_5'Flank|EIF6_uc002xby.1_5'Flank|FAM83C_uc002xcb.1_Missense_Mutation_p.T183I	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	528										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TGAGTTGGGGGTAACCCCAGA	0.647													13	45	---	---	---	---	PASS	A	33874999	A	A	33874999	3	1	99	1	0	0	0	0	1	0	0	0	5635	1261	44	3	664	3	FAM83C	20	33874999	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1980225	33874999	29150521	663	37294										
FAM83C	128876	broad.mit.edu	37	chr20	33875022	33875022	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	accccagagtcagggtctccCacttctcgggctctggggaa	12	14	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:33875022C>T	uc010zux.1	-	4	1678	c.1560G>A	c.(1558-1560)GTG>GTA	p.V520V	EIF6_uc002xbv.1_5'Flank|EIF6_uc002xbx.1_5'Flank|EIF6_uc002xbz.1_5'Flank|EIF6_uc002xby.1_5'Flank|FAM83C_uc002xcb.1_Silent_p.V175V	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	520										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			CAGGGTCTCCCACTTCTCGGG	0.642													16	46	---	---	---	---	PASS	T	33875022	T	T	33875022	2	4	99	1	0	0	0	0	0	0	0	1	5635	581	21	3		3	FAM83C	20	33875022	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	23	33875022	29150498	664	37295										
FAM83C	128876	broad.mit.edu	37	chr20	33876313	33876313	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtcaatgaggacgaacttctCcagggcctgccccgtgaagc	12	13	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:33876313C>T	uc010zux.1	-	3	875	c.757G>A	c.(757-759)GAG>AAG	p.E253K	FAM83C_uc002xcb.1_Missense_Mutation_p.E77K	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	253										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			ACGAACTTCTCCAGGGCCTGC	0.632													10	41	---	---	---	---	PASS	T	33876313	T	T	33876313	3	4	99	1	0	0	0	0	1	0	0	0	5635	864	30	2	1494	2	FAM83C	20	33876313	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1291	33876313	29149207	665	37296										
PHF20	51230	broad.mit.edu	37	chr20	34430532	34430532	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagacattgactacgaggaaGgaaaagtactcatccatttc	8	8	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:34430532G>C	uc002xek.1	+	3	232	c.121G>C	c.(121-123)GGA>CGA	p.G41R	PHF20_uc002xei.1_Missense_Mutation_p.G41R|PHF20_uc010gfo.1_Missense_Mutation_p.G41R|PHF20_uc002xej.1_5'UTR|PHF20_uc002xel.1_5'UTR	NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	41					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					CTACGAGGAAGGAAAAGTACT	0.403													6	118	---	---	---	---	PASS	C	34430532	C	C	34430532	3	2	99	1	0	0	0	0	1	0	0	0	11831	1001	35	4	127	4	PHF20	20	34430532	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	554219	34430532	28594988	666	37297										
LBP	3929	broad.mit.edu	37	chr20	36989406	36989406	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cctccgatctacagccttatCtccaaactctgccaggtagg	7	15	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:36989406C>A	uc002xic.1	+	6	672	c.637C>A	c.(637-639)CTC>ATC	p.L213I		NM_004139	NP_004130	P18428	LBP_HUMAN	lipopolysaccharide-binding protein precursor	213					acute-phase response|cellular defense response|cellular response to lipoteichoic acid|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|detection of molecule of bacterial origin|innate immune response|lipid transport|lipopolysaccharide transport|lipopolysaccharide-mediated signaling pathway|macrophage activation involved in immune response|negative regulation of tumor necrosis factor production|opsonization|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of macrophage activation|positive regulation of respiratory burst involved in inflammatory response|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of tumor necrosis factor production|Toll signaling pathway	extracellular space	Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|lipid binding|lipopolysaccharide binding|lipoteichoic acid binding|receptor binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.00878)				ACAGCCTTATCTCCAAACTCT	0.418													26	93	---	---	---	---	PASS	A	36989406	A	A	36989406	3	1	99	1	0	0	0	0	1	0	0	0	8651	913	32	2	659	2	LBP	20	36989406	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2558874	36989406	26036114	667	37298										
CHD6	84181	broad.mit.edu	37	chr20	40102043	40102043	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agattgatccccaggcctccCgctctggtgcacagaagaaa	10	13	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:40102043C>A	uc002xka.1	-	17	2761	c.2583G>T	c.(2581-2583)GCG>GCT	p.A861A	CHD6_uc002xkd.2_Silent_p.A839A	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	861	Helicase C-terminal.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				CCAGGCCTCCCGCTCTGGTGC	0.517													12	32	---	---	---	---	PASS	A	40102043	A	A	40102043	2	1	99	1	0	0	0	0	0	0	0	1	3329	639	23	1		1	CHD6	20	40102043	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	3112637	40102043	22923477	668	37299										
PTPRT	11122	broad.mit.edu	37	chr20	40739007	40739007	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tatgggcccagcttccggggGgttgaggaacttgacctggc	16	10	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:40739007G>A	uc002xkg.2	-	23	3404	c.3220C>T	c.(3220-3222)CCC>TCC	p.P1074S	PTPRT_uc010ggj.2_Missense_Mutation_p.P1093S|PTPRT_uc010ggi.2_Missense_Mutation_p.P277S	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1074	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GCTTCCGGGGGGTTGAGGAAC	0.468													7	30	---	---	---	---	PASS	A	40739007	A	A	40739007	3	1	99	1	0	0	0	0	1	0	0	0	12812	1232	43	3	1141	3	PTPRT	20	40739007	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	636964	40739007	22286513	669	37300										
PTPRT	11122	broad.mit.edu	37	chr20	40827935	40827935	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccttcatcattgcggctggcGctgagcttggtggtgggttt	15	9	2	1	rs145661499	by1000genomes	TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:40827935G>T	uc002xkg.2	-	16	2620	c.2436C>A	c.(2434-2436)AGC>AGA	p.S812R	PTPRT_uc010ggj.2_Missense_Mutation_p.S831R|PTPRT_uc010ggi.2_Missense_Mutation_p.S15R	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	812	Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TGCGGCTGGCGCTGAGCTTGG	0.577													76	193	---	---	---	---	PASS	T	40827935	T	T	40827935	3	4	99	1	0	0	0	0	1	0	0	0	12812	1078	38	1	1953	1	PTPRT	20	40827935	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	88928	40827935	22197585	670	37301										
SERINC3	10955	broad.mit.edu	37	chr20	43135617	43135617	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gattgacaggatataaaaggCgcttgtgaaagacagtaaag	12	4	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:43135617C>A	uc002xme.2	-	6	768	c.634G>T	c.(634-636)GCC>TCC	p.A212S	SERINC3_uc002xmf.1_Missense_Mutation_p.A212S|SERINC3_uc010ggs.1_Missense_Mutation_p.A205S|SERINC3_uc010zwp.1_Missense_Mutation_p.A157S	NM_198941	NP_945179	Q13530	SERC3_HUMAN	tumor differentially expressed protein 1	212	Helical; (Potential).					integral to membrane|plasma membrane	protein binding			skin(3)	3		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.000291)|COAD - Colon adenocarcinoma(18;0.00189)			ATATAAAAGGCGCTTGTGAAA	0.378													11	30	---	---	---	---	PASS	A	43135617	A	A	43135617	3	1	99	1	0	0	0	0	1	0	0	0	14081	768	27	1	807	1	SERINC3	20	43135617	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2307682	43135617	19889903	671	37302										
UBE2C	11065	broad.mit.edu	37	chr20	44444350	44444350	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctgccctgtatgatgtcagGaccattctgctctccatcca	7	14	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:44444350G>T	uc002xpm.2	+	4	467	c.387G>T	c.(385-387)AGG>AGT	p.R129S	UBE2C_uc002xpl.2_Intron|UBE2C_uc002xpn.2_Missense_Mutation_p.R90S|UBE2C_uc002xpo.2_Missense_Mutation_p.R100S|UBE2C_uc002xpp.2_Intron|UBE2C_uc002xpq.2_Missense_Mutation_p.R90S	NM_007019	NP_008950	O00762	UBE2C_HUMAN	ubiquitin-conjugating enzyme E2C isoform 1	129					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cyclin catabolic process|exit from mitosis|free ubiquitin chain polymerization|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|positive regulation of exit from mitosis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|protein K48-linked ubiquitination|spindle organization	anaphase-promoting complex|cytosol|nucleoplasm	ATP binding|protein binding|ubiquitin-protein ligase activity				0		Myeloproliferative disorder(115;0.0122)				ATGATGTCAGGACCATTCTGC	0.552													25	74	---	---	---	---	PASS	T	44444350	T	T	44444350	3	4	99	1	0	0	0	0	1	0	0	0	16843	1165	41	2	552	2	UBE2C	20	44444350	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	1308733	44444350	18581170	672	37303										
MMP9	4318	broad.mit.edu	37	chr20	44642296	44642296	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttccctcctcgctttctcagGaagtactggcgattctctga	8	13	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:44642296G>T	uc002xqz.2	+	10	1630	c.1611G>T	c.(1609-1611)GGG>GGT	p.G537G		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	537	Hemopexin-like 1.				collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	GCTTTCTCAGGAAGTACTGGC	0.677											OREG0025990	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	21	---	---	---	---	PASS	T	44642296	T	T	44642296	2	4	99	1	0	0	0	0	0	0	0	1	9669	1188	41	2		2	MMP9	20	44642296	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	197946	44642296	18383224	673	37304										
SLC12A5	57468	broad.mit.edu	37	chr20	44666000	44666000	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tttgcaggagccatgtacatCctgggcaccatcgaaatcct	9	12	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:44666000C>A	uc010zxl.1	+	6	733	c.657C>A	c.(655-657)ATC>ATA	p.I219I	SLC12A5_uc002xra.2_Silent_p.I196I|SLC12A5_uc010zxm.1_Intron|SLC12A5_uc002xrb.2_Silent_p.I196I	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	219	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	CCATGTACATCCTGGGCACCA	0.473													8	24	---	---	---	---	PASS	A	44666000	A	A	44666000	2	1	99	1	0	0	0	0	0	0	0	1	14386	845	30	2		2	SLC12A5	20	44666000	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	23704	44666000	18359520	674	37305										
B4GALT5	9334	broad.mit.edu	37	chr20	48252856	48252856	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	acattctctcctctcagtacTcgttcacctgagccagctcg	6	16	3	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:48252856T>A	uc002xuu.3	-	9	1354	c.1160A>T	c.(1159-1161)GAG>GTG	p.E387V		NM_004776	NP_004767	O43286	B4GT5_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	387	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	galactosyltransferase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;2.51e-06)			CTCTCAGTACTCGTTCACCTG	0.478													4	59	---	---	---	---	PASS	A	48252856	A	A	48252856	3	1	99	1	0	0	0	0	1	0	0	0	1274	1551	54	5	10	5	B4GALT5	20	48252856	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	3586856	48252856	14772664	675	37306										
GNAS	2778	broad.mit.edu	37	chr20	57415487	57415487	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtacgaggaagagttcgactAcgagaccgagagcgagaccg	15	9	0	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:57415487A>G	uc002xzt.2	+	1	693	c.326A>G	c.(325-327)TAC>TGC	p.Y109C	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			GAGTTCGACTACGAGACCGAG	0.617			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			3	88	---	---	---	---	PASS	G	57415487	G	G	57415487	3	3	99	1	0	0	0	0	1	0	0	0	6510	391	14	5	328	5	GNAS	20	57415487	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	9162631	57415487	5610033	676	37307										
CDH4	1002	broad.mit.edu	37	chr20	60348181	60348181	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgcaaacgggactgggtcatCccgcccatcaacgtgcccga	11	16	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:60348181C>G	uc002ybn.1	+	4	533	c.519C>G	c.(517-519)ATC>ATG	p.I173M	CDH4_uc002ybp.1_Missense_Mutation_p.I99M	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	173	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			ACTGGGTCATCCCGCCCATCA	0.706													5	16	---	---	---	---	PASS	G	60348181	G	G	60348181	3	3	99	1	0	0	0	0	1	0	0	0	3112	845	30	2	533	2	CDH4	20	60348181	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	2932694	60348181	2677339	677	37308										
SLCO4A1	28231	broad.mit.edu	37	chr20	61291766	61291766	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccactgcctcttccacaggaCggagctgaccaccgagagcc	10	17	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:61291766C>T	uc002ydb.1	+	4	1095	c.890C>T	c.(889-891)ACG>ATG	p.T297M	SLCO4A1_uc002ydc.1_RNA	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	297	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)			TTCCACAGGACGGAGCTGACC	0.687													20	19	---	---	---	---	PASS	T	61291766	T	T	61291766	3	4	99	1	0	0	0	0	1	0	0	0	14729	536	19	1	900	1	SLCO4A1	20	61291766	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	943585	61291766	1733754	678	37309										
YTHDF1	54915	broad.mit.edu	37	chr20	61833927	61833927	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcactggtgccgtagtccacGggggacttcatctcggccac	13	14	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:61833927G>A	uc002yeh.2	-	4	1659	c.1365C>T	c.(1363-1365)CCC>CCT	p.P455P	YTHDF1_uc011aaq.1_Silent_p.P405P	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	455	YTH.									ovary(2)	2						CGTAGTCCACGGGGGACTTCA	0.567													10	76	---	---	---	---	PASS	A	61833927	A	A	61833927	2	1	99	1	0	0	0	0	0	0	0	1	17495	1103	39	1		1	YTHDF1	20	61833927	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	542161	61833927	1191593	679	37310										
PRIC285	85441	broad.mit.edu	37	chr20	62192207	62192207	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtaccgctcgaacagagaccGgtccagacccaggttttgca	11	13	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr20:62192207G>A	uc002yfm.2	-	16	8114	c.7222C>T	c.(7222-7224)CGG>TGG	p.R2408W	PRIC285_uc002yfl.1_Missense_Mutation_p.R1839W	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	2408					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			AACAGAGACCGGTCCAGACCC	0.637													9	63	---	---	---	---	PASS	A	62192207	A	A	62192207	3	1	99	1	0	0	0	0	1	0	0	0	12485	1115	39	1	747	1	PRIC285	20	62192207	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	358280	62192207	833313	680	37311										
TPTE	7179	broad.mit.edu	37	chr21	10933867	10933867	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	attacctgtgcctcctttacAgtgaatcgctacgatgtttt	7	10	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr21:10933867A>T	uc002yip.1	-	17	1380	c.1012T>A	c.(1012-1014)TGT>AGT	p.C338S	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.C320S|TPTE_uc002yir.1_Missense_Mutation_p.C300S|TPTE_uc010gkv.1_Missense_Mutation_p.C200S	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	338	Phosphatase tensin-type.	Potential.			signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CCTCCTTTACAGTGAATCGCT	0.328													33	164	---	---	---	---	PASS	T	10933867	T	T	10933867	3	4	99	1	0	0	0	0	1	0	0	0	16427	188	7	5	675	5	TPTE	21	10933867	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08		10933867	37196028	681	37312										
KRTAP27-1	643812	broad.mit.edu	37	chr21	31709432	31709432	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	actcctggagaagattccagGagttgtggctcaggtgcaac	13	9	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr21:31709432G>T	uc002ynx.1	-	1	581	c.555C>A	c.(553-555)CTC>CTA	p.L185L		NM_001077711	NP_001071179	Q3LI81	KR271_HUMAN	keratin associated protein 27-1	185						intermediate filament				ovary(2)	2						AAGATTCCAGGAGTTGTGGCT	0.468													20	31	---	---	---	---	PASS	T	31709432	T	T	31709432	2	4	99	1	0	0	0	0	0	0	0	1	8544	1161	41	2		2	KRTAP27-1	21	31709432	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	20775565	31709432	16420463	682	37313										
KRTAP21-2	337978	broad.mit.edu	37	chr21	32119426	32119426	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atctacagccagagccgtatCcacagccatagccacaacca	6	16	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr21:32119426C>A	uc011adh.1	-	1	95	c.95G>T	c.(94-96)GGA>GTA	p.G32V		NM_181617	NP_853648	Q3LI59	KR212_HUMAN	keratin associated protein 21-2	32						intermediate filament					0						agagccgtatccacagccata	0.095													17	26	---	---	---	---	PASS	A	32119426	A	A	32119426	3	1	99	1	0	0	0	0	1	0	0	0	8539	855	30	2	158	2	KRTAP21-2	21	32119426	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	409994	32119426	16010469	683	37314										
SFRS15	57466	broad.mit.edu	37	chr21	33044451	33044451	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agggacctttcattccatgaGgtggaggcatcgcaaagccc	12	11	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr21:33044451G>T	uc002ypd.2	-	20	3131	c.2705C>A	c.(2704-2706)CCT>CAT	p.P902H	SFRS15_uc002ype.2_Missense_Mutation_p.P880H|SFRS15_uc010glu.2_Missense_Mutation_p.P887H	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	902						nucleus	nucleotide binding|RNA binding				0						CATTCCATGAGGTGGAGGCAT	0.652													14	25	---	---	---	---	PASS	T	33044451	T	T	33044451	3	4	99	1	0	0	0	0	1	0	0	0	14171	1000	35	3	742	3	SFRS15	21	33044451	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	925025	33044451	15085444	684	37315										
KRTAP12-3	386683	broad.mit.edu	37	chr21	46078055	46078055	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gctccctcctgccagccctcCgtgtgcgtgcccgtgagctg	12	18	0	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr21:46078055C>A	uc002zft.2	+	1	207	c.159C>A	c.(157-159)TCC>TCA	p.S53S	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198697	NP_941970	P60328	KR123_HUMAN	keratin associated protein 12-3	53	7.|14 X 5 AA approximate repeats.					intermediate filament				central_nervous_system(1)	1						GCCAGCCCTCCGTGTGCGTGC	0.652													21	48	---	---	---	---	PASS	A	46078055	A	A	46078055	2	1	99	1	0	0	0	0	0	0	0	1	8520	639	23	1		1	KRTAP12-3	21	46078055	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	13033604	46078055	2051840	685	37316										
HIRA	7290	broad.mit.edu	37	chr22	19384447	19384447	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ccctttgaccaagccagaatGacctctcagagtagctagaa	8	12	1	5			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr22:19384447G>A	uc002zpf.1	-	7	737	c.517C>T	c.(517-519)CAT>TAT	p.H173Y	HIRA_uc011agx.1_Missense_Mutation_p.H39Y|HIRA_uc010grn.1_Missense_Mutation_p.H173Y|HIRA_uc010gro.1_Missense_Mutation_p.H129Y|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	173	WD 4.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					AAGCCAGAATGACCTCTCAGA	0.488													11	51	---	---	---	---	PASS	A	19384447	A	A	19384447	3	1	99	1	0	0	0	0	1	0	0	0	7120	1290	45	2	2612	2	HIRA	22	19384447	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08		19384447	31920119	686	37317										
CDC45	8318	broad.mit.edu	37	chr22	19502550	19502550	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agcctgctcagcaaacacctGctcaagtcctttgtgtgttc	8	13	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr22:19502550G>C	uc002zpr.2	+	15	1495	c.1419G>C	c.(1417-1419)CTG>CTC	p.L473L	CDC45_uc011agz.1_3'UTR|CDC45_uc011aha.1_Silent_p.L505L|CDC45_uc002zps.2_Silent_p.L473L|CDC45_uc002zpt.2_Silent_p.L427L	NM_003504	NP_003495	O75419	CDC45_HUMAN	CDC45-like	473					DNA replication checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	centrosome|nucleoplasm	protein binding			lung(1)	1						GCAAACACCTGCTCAAGTCCT	0.607													8	22	---	---	---	---	PASS	C	19502550	C	C	19502550	2	2	99	1	0	0	0	0	0	0	0	1	3081	1306	46	4		4	CDC45	22	19502550	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	118103	19502550	31802016	687	37318										
ZNF74	7625	broad.mit.edu	37	chr22	20760522	20760522	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cggcaaggccttcacctgccActcatccctcaccgtgcatg	8	18	3	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr22:20760522A>G	uc010gsm.2	+	6	1411	c.1199A>G	c.(1198-1200)CAC>CGC	p.H400R	ZNF74_uc002zsg.2_Missense_Mutation_p.H329R|ZNF74_uc002zsh.2_Missense_Mutation_p.H400R|ZNF74_uc002zsi.2_Missense_Mutation_p.H329R|ZNF74_uc010gsn.2_Missense_Mutation_p.H329R	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	400	C2H2-type 6.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			TTCACCTGCCACTCATCCCTC	0.632													9	39	---	---	---	---	PASS	G	20760522	G	G	20760522	3	3	99	1	0	0	0	0	1	0	0	0	18124	159	6	5	1217	5	ZNF74	22	20760522	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	1257972	20760522	30544044	688	37319										
GNAZ	2781	broad.mit.edu	37	chr22	23438181	23438181	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgacttccacaaccccgaccGcgcctacgacgctgtgcagc	9	19	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr22:23438181G>T	uc002zwu.1	+	2	836	c.299G>T	c.(298-300)CGC>CTC	p.R100L	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	100						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		AACCCCGACCGCGCCTACGAC	0.647													41	121	---	---	---	---	PASS	T	23438181	T	T	23438181	3	4	99	1	0	0	0	0	1	0	0	0	6514	1087	38	1	301	1	GNAZ	22	23438181	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2677659	23438181	27866385	689	37320										
MYO18B	84700	broad.mit.edu	37	chr22	26422991	26422991	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgaaaacccaattcagttccTgcgagtccctcttagaatcc	6	14	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr22:26422991T>A	uc003abz.1	+	43	7301	c.7051T>A	c.(7051-7053)TGC>AGC	p.C2351S	MYO18B_uc003aca.1_Missense_Mutation_p.C2232S|MYO18B_uc010guy.1_Missense_Mutation_p.C2233S|MYO18B_uc010guz.1_Missense_Mutation_p.C2231S|MYO18B_uc011aka.1_Missense_Mutation_p.C1505S|MYO18B_uc011akb.1_Missense_Mutation_p.C1864S|MYO18B_uc010gva.1_Missense_Mutation_p.C334S|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2351						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						ATTCAGTTCCTGCGAGTCCCT	0.562													16	65	---	---	---	---	PASS	A	26422991	A	A	26422991	3	1	99	1	0	0	0	0	1	0	0	0	10066	1580	55	5	7217	5	MYO18B	22	26422991	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	2984810	26422991	24881575	690	37321										
C1QTNF6	114904	broad.mit.edu	37	chr22	37581315	37581315	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aggcagggcgtgggggcggcCggaggaagaggctgaggata	23	6	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr22:37581315C>A	uc003aqw.1	-	1	680	c.175G>T	c.(175-177)GGC>TGC	p.G59C	C1QTNF6_uc003aqx.1_Missense_Mutation_p.G78C|C1QTNF6_uc003aqy.1_Missense_Mutation_p.G78C|C1QTNF6_uc003aqz.1_RNA	NM_182486	NP_872292	Q9BXI9	C1QT6_HUMAN	C1q and tumor necrosis factor related protein 6	59						collagen					0						TGGGGGCGGCCGGAGGAAGAG	0.632													13	17	---	---	---	---	PASS	A	37581315	A	A	37581315	3	1	99	1	0	0	0	0	1	0	0	0	1967	652	23	1	612	1	C1QTNF6	22	37581315	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	11158324	37581315	13723251	691	37322										
MCHR1	2847	broad.mit.edu	37	chr22	41077845	41077845	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cgcaaacgcttggtcctgtcGgtgaagcctgcagcccaggg	14	13	0	1	rs139064474		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chr22:41077845G>T	uc003ayz.2	+	2	1450	c.1182G>T	c.(1180-1182)TCG>TCT	p.S394S	MCHR1_uc003aza.2_Silent_p.S283S|uc003azb.1_RNA	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	394	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						TGGTCCTGTCGGTGAAGCCTG	0.582													33	50	---	---	---	---	PASS	T	41077845	T	T	41077845	2	4	99	1	0	0	0	0	0	0	0	1	9382	1103	39	1		1	MCHR1	22	41077845	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	3496530	41077845	10226721	692	37323										
FAM9B	171483	broad.mit.edu	37	chrX	8998330	8998330	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttgcttttttctcaaagcatGtttacttttgttctttgttt	5	6	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:8998330G>A	uc011mhu.1	-	4	342	c.253C>T	c.(253-255)CAT>TAT	p.H85Y	FAM9B_uc011mhv.1_RNA|FAM9B_uc004csh.2_Intron	NM_205849	NP_995321	Q8IZU0	FAM9B_HUMAN	family with sequence similarity 9, member B	85						nucleus					0		Hepatocellular(5;0.219)				CTCAAAGCATGTTTACTTTTG	0.279													4	5	---	---	---	---	PASS	A	8998330	A	A	8998330	3	1	99	1	0	0	0	0	1	0	0	0	5660	1377	48	3	323	3	FAM9B	23	8998330	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08		8998330	146272230	693	37324										
DDX53	168400	broad.mit.edu	37	chrX	23018431	23018431	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cactaaaatacagatcataaAcggggaatctgaagcaaaag	8	7	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:23018431A>G	uc004daj.2	+	1	345	c.257A>G	c.(256-258)AAC>AGC	p.N86S		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	86	KH.					nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						CAGATCATAAACGGGGAATCT	0.338													7	16	---	---	---	---	PASS	G	23018431	G	G	23018431	3	3	99	1	0	0	0	0	1	0	0	0	4371	43	2	5	259	5	DDX53	23	23018431	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	14020101	23018431	132252129	694	37325										
DMD	1756	broad.mit.edu	37	chrX	31462722	31462722	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ggctcacgttctctttcagaGgcgcaatttctcctcgaagt	9	12	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:31462722G>T	uc004dda.1	-	60	9204	c.8960C>A	c.(8959-8961)CCT>CAT	p.P2987H	DMD_uc004dcq.1_Missense_Mutation_p.P258H|DMD_uc004dcr.1_Missense_Mutation_p.P527H|DMD_uc004dcs.1_Missense_Mutation_p.P527H|DMD_uc004dct.1_Missense_Mutation_p.P527H|DMD_uc004dcu.1_Missense_Mutation_p.P527H|DMD_uc004dcv.1_Missense_Mutation_p.P527H|DMD_uc004dcw.2_Missense_Mutation_p.P1643H|DMD_uc004dcx.2_Missense_Mutation_p.P1646H|DMD_uc004dcz.2_Missense_Mutation_p.P2864H|DMD_uc004dcy.1_Missense_Mutation_p.P2983H|DMD_uc004ddb.1_Missense_Mutation_p.P2979H	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2987	Spectrin 22.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTCTTTCAGAGGCGCAATTTC	0.458													38	19	---	---	---	---	PASS	T	31462722	T	T	31462722	3	4	99	1	0	0	0	0	1	0	0	0	4580	1000	35	3	2291	3	DMD	23	31462722	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	8444291	31462722	123807838	695	37326										
DMD	1756	broad.mit.edu	37	chrX	32408279	32408279	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctaaactgatctcatgacttGtcaaatcagattggattttc	6	8	3	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:32408279G>C	uc004dda.1	-	31	4497	c.4253C>G	c.(4252-4254)ACA>AGA	p.T1418R	DMD_uc004dcw.2_Missense_Mutation_p.T74R|DMD_uc004dcx.2_Missense_Mutation_p.T77R|DMD_uc004dcz.2_Missense_Mutation_p.T1295R|DMD_uc004dcy.1_Missense_Mutation_p.T1414R|DMD_uc004ddb.1_Missense_Mutation_p.T1410R|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1418	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTCATGACTTGTCAAATCAGA	0.388													35	15	---	---	---	---	PASS	C	32408279	C	C	32408279	3	2	99	1	0	0	0	0	1	0	0	0	4580	1377	48	4	7148	4	DMD	23	32408279	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	945557	32408279	122862281	696	37327										
USP9X	8239	broad.mit.edu	37	chrX	41010252	41010252	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atgacaaatgggttattcccGcactgaaacaaattagagaa	8	7	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:41010252G>C	uc004dfb.2	+	13	2338	c.1705G>C	c.(1705-1707)GCA>CCA	p.A569P	USP9X_uc004dfc.2_Missense_Mutation_p.A569P	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	569					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						GGTTATTCCCGCACTGAAACA	0.318													5	7	---	---	---	---	PASS	C	41010252	C	C	41010252	3	2	99	1	0	0	0	0	1	0	0	0	17087	1087	38	4	1751	4	USP9X	23	41010252	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	8601973	41010252	114260308	697	37328										
DGKK	139189	broad.mit.edu	37	chrX	50119073	50119073	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctcattgccactgtcttggcCgtaaaatatatcattcagga	7	10	4	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:50119073C>G	uc010njr.1	-	25	3424	c.3364G>C	c.(3364-3366)GGC>CGC	p.G1122R		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	1122					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					CTGTCTTGGCCGTAAAATATA	0.433													7	6	---	---	---	---	PASS	G	50119073	G	G	50119073	3	3	99	1	0	0	0	0	1	0	0	0	4472	652	23	4	471	4	DGKK	23	50119073	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	9108821	50119073	105151487	698	37329										
HUWE1	10075	broad.mit.edu	37	chrX	53674517	53674517	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cacccagtgatataactcgcActggagaggggaggaaaaag	13	8	0	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:53674517A>G	uc004dsp.2	-	6	547	c.145T>C	c.(145-147)TGC>CGC	p.C49R		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	49					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						TATAACTCGCACTGGAGAGGG	0.483													26	35	---	---	---	---	PASS	G	53674517	G	G	53674517	3	3	99	1	0	0	0	0	1	0	0	0	7461	173	6	5	13295	5	HUWE1	23	53674517	Missense_Mutation	SNP	A	TCGA-43-5668-01A-01D-1632-08	3555444	53674517	101596043	699	37330										
ITIH5L	347365	broad.mit.edu	37	chrX	54785033	54785033	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaagtagttggggaaaacggCccaaggggaggccccaacca	14	10	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:54785033C>A	uc004dtj.2	-	8	1504	c.1474G>T	c.(1474-1476)GCC>TCC	p.A492S		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	492					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						GGGAAAACGGCCCAAGGGGAG	0.622													5	8	---	---	---	---	PASS	A	54785033	A	A	54785033	3	1	99	1	0	0	0	0	1	0	0	0	7908	739	26	3	2491	3	ITIH5L	23	54785033	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1110516	54785033	100485527	700	37331										
TRO	7216	broad.mit.edu	37	chrX	54957141	54957141	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aggcctaatgccagcttcgaCagaggactgagtaccatcat	10	11	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:54957141C>A	uc004dtq.2	+	12	4091	c.3984C>A	c.(3982-3984)GAC>GAA	p.D1328E	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Missense_Mutation_p.D859E|TRO_uc004dtw.2_Missense_Mutation_p.D931E|TRO_uc004dtx.2_Missense_Mutation_p.D711E	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	1328	52; approximate.|62 X 10 AA approximate tandem repeats.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						CCAGCTTCGACAGAGGACTGA	0.567													18	15	---	---	---	---	PASS	A	54957141	A	A	54957141	3	1	99	1	0	0	0	0	1	0	0	0	16571	477	17	3	4026	3	TRO	23	54957141	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	172108	54957141	100313419	701	37332										
FAM123B	139285	broad.mit.edu	37	chrX	63412889	63412889	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tcaggccatcgtgggtcttgCtcttgctgagacctttcttg	11	11	4	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:63412889C>A	uc004dvo.2	-	2	551	c.278G>T	c.(277-279)AGC>ATC	p.S93I		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	93					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						GTGGGTCTTGCTCTTGCTGAG	0.537													19	27	---	---	---	---	PASS	A	63412889	A	A	63412889	3	1	99	1	0	0	0	0	1	0	0	0	5423	797	28	3	3133	3	FAM123B	23	63412889	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	8455748	63412889	91857671	702	37333										
MED12	9968	broad.mit.edu	37	chrX	70349258	70349258	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	atggagccgtgtttgctgttCtcaaggctgtgtttgtactt	12	7	1	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:70349258C>G	uc004dyy.2	+	26	3869	c.3670C>G	c.(3670-3672)CTC>GTC	p.L1224V	MED12_uc011mpq.1_Missense_Mutation_p.L1224V|MED12_uc004dyz.2_Missense_Mutation_p.L1224V|MED12_uc004dza.2_Missense_Mutation_p.L1071V|MED12_uc010nla.2_5'Flank	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1224					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					GTTTGCTGTTCTCAAGGCTGT	0.562											OREG0019857	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	11	---	---	---	---	PASS	G	70349258	G	G	70349258	3	3	99	1	0	0	0	0	1	0	0	0	9428	913	32	2	3772	2	MED12	23	70349258	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	6936369	70349258	84921302	703	37334										
PHKA1	5255	broad.mit.edu	37	chrX	71825207	71825207	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gaaacatttcagcaaagaggCcaggctgggttcgcatatac	11	9	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:71825207C>A	uc004eax.3	-	25	3030	c.2729G>T	c.(2728-2730)GGC>GTC	p.G910V	PHKA1_uc004eay.3_Missense_Mutation_p.G910V|PHKA1_uc011mqi.1_Missense_Mutation_p.G851V	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	910					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					AGCAAAGAGGCCAGGCTGGGT	0.423													14	16	---	---	---	---	PASS	A	71825207	A	A	71825207	3	1	99	1	0	0	0	0	1	0	0	0	11843	739	26	3	974	3	PHKA1	23	71825207	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	1475949	71825207	83445353	704	37335										
HDX	139324	broad.mit.edu	37	chrX	83723923	83723923	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tctctgggggtaatcgctaaCtgccaatgaaaacacttcac	8	11	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:83723923C>A	uc004eek.1	-	3	917	c.808G>T	c.(808-810)GTT>TTT	p.V270F	HDX_uc011mqv.1_Missense_Mutation_p.V270F|HDX_uc004eel.1_Missense_Mutation_p.V212F	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	270						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						TAATCGCTAACTGCCAATGAA	0.453													26	40	---	---	---	---	PASS	A	83723923	A	A	83723923	3	1	99	1	0	0	0	0	1	0	0	0	7026	565	20	3	1296	3	HDX	23	83723923	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	11898716	83723923	71546637	705	37336										
ZNF711	7552	broad.mit.edu	37	chrX	84510709	84510709	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tacagaaactgtgattcaagCagctggaggtgttcctggtt	12	7	1	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:84510709C>A	uc004eeo.2	+	4	871	c.524C>A	c.(523-525)GCA>GAA	p.A175E	ZNF711_uc004eep.2_Missense_Mutation_p.A175E|ZNF711_uc004eeq.2_Missense_Mutation_p.A175E	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	175					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						GTGATTCAAGCAGCTGGAGGT	0.403													19	30	---	---	---	---	PASS	A	84510709	A	A	84510709	3	1	99	1	0	0	0	0	1	0	0	0	18113	710	25	3	530	3	ZNF711	23	84510709	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	786786	84510709	70759851	706	37337										
BTK	695	broad.mit.edu	37	chrX	100611048	100611048	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ctaaggtcccaccaggtctcGgtgaaggaactgctttgact	11	11	1	2	rs128621201		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:100611048G>T	uc004ehg.2	-	15	1751	c.1558C>A	c.(1558-1560)CGA>AGA	p.R520R	BTK_uc004ehf.2_Silent_p.R20R|BTK_uc010nnh.2_Intron|BTK_uc010nni.2_Intron|BTK_uc004ehe.2_Intron|BTK_uc010nnj.2_RNA|BTK_uc010nnk.2_Intron|BTK_uc010nnl.2_Intron|BTK_uc010nnm.2_Silent_p.R90R|BTK_uc010nnn.2_Intron|BTK_uc010nno.2_Silent_p.R554R|BTK_uc004ehh.1_Intron|BTK_uc004ehi.2_Silent_p.R520R	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	520	Protein kinase.		R -> Q (in XLA; severe; prevents activation due to absence of contact between the catalytic loop and the regulatory phosphorylated residue).		calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						ACCAGGTCTCGGTGAAGGAAC	0.537									Agammaglobulinemia_X-linked				41	33	---	---	---	---	PASS	T	100611048	T	T	100611048	2	4	99	1	0	0	0	0	0	0	0	1	1557	1124	39	1		1	BTK	23	100611048	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	16100339	100611048	54659512	707	37338										
HNRNPH2	3188	broad.mit.edu	37	chrX	100667656	100667656	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tagcattggcagaggagctgGgtttgaaaggatgaggcgtg	18	4	0	3			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:100667656G>T	uc004ehm.2	+	2	850	c.680G>T	c.(679-681)GGG>GTG	p.G227V	HNRNPH2_uc004ehn.2_Missense_Mutation_p.G227V	NM_019597	NP_062543	P55795	HNRH2_HUMAN	heterogeneous nuclear ribonucleoprotein H2	227					nuclear mRNA splicing, via spliceosome	actin cytoskeleton|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						AGAGGAGCTGGGTTTGAAAGG	0.522													15	20	---	---	---	---	PASS	T	100667656	T	T	100667656	3	4	99	1	0	0	0	0	1	0	0	0	7267	1232	43	3	682	3	HNRNPH2	23	100667656	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	56608	100667656	54602904	708	37339										
NXF5	55998	broad.mit.edu	37	chrX	101097735	101097735	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gtgaccttgaaccatttcctCatgttttcatcttgtgtgtt	7	9	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:101097735C>A	uc011mrk.1	-	3	390	c.30G>T	c.(28-30)ATG>ATT	p.M10I	NXF5_uc004eih.1_RNA|NXF5_uc004eii.1_RNA|NXF5_uc004eij.1_RNA|NXF5_uc004eik.1_RNA|NXF5_uc004eil.1_RNA	NM_032946	NP_116564	Q9H1B4	NXF5_HUMAN	nuclear RNA export factor 5	10					mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nucleus	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						ACCATTTCCTCATGTTTTCAT	0.308													73	61	---	---	---	---	PASS	A	101097735	A	A	101097735	3	1	99	1	0	0	0	0	1	0	0	0	10786	826	29	2	1123	2	NXF5	23	101097735	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	430079	101097735	54172825	709	37340										
ATG4A	115201	broad.mit.edu	37	chrX	107380351	107380351	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttatttgacgaatggaattcCttggctgtttatgtttcaat	8	5	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:107380351C>T	uc004enr.2	+	7	621	c.498C>T	c.(496-498)TCC>TCT	p.S166S	ATG4A_uc004ent.2_Silent_p.S166S|ATG4A_uc004ens.2_Silent_p.S82S|ATG4A_uc011msl.1_Silent_p.S82S|ATG4A_uc010npi.2_Intron|ATG4A_uc004enu.2_Silent_p.S82S	NM_052936	NP_443168	Q8WYN0	ATG4A_HUMAN	autophagy-related cysteine endopeptidase 2	166					autophagy|protein transport|proteolysis	cytoplasm	cysteine-type peptidase activity			pancreas(1)	1						AATGGAATTCCTTGGCTGTTT	0.378													20	31	---	---	---	---	PASS	T	107380351	T	T	107380351	2	4	99	1	0	0	0	0	0	0	0	1	1096	668	24	3		3	ATG4A	23	107380351	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	6282616	107380351	47890209	710	37341										
CAPN6	827	broad.mit.edu	37	chrX	110491218	110491218	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tgggcatgtccagagtcagtTccctagaacatcaaaaataa	8	9	2	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:110491218T>A	uc004epc.1	-	11	1655	c.1487A>T	c.(1486-1488)GAA>GTA	p.E496V	CAPN6_uc011msu.1_Missense_Mutation_p.E241V	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	496					microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						CAGAGTCAGTTCCCTAGAACA	0.433													24	83	---	---	---	---	PASS	A	110491218	A	A	110491218	3	1	99	1	0	0	0	0	1	0	0	0	2630	1783	62	5	450	5	CAPN6	23	110491218	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	3110867	110491218	44779342	711	37342										
CAPN6	827	broad.mit.edu	37	chrX	110494147	110494147	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aaagtaattgactcaaacctGgggattctgcaggaaggtat	11	6	2	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:110494147G>T	uc004epc.1	-	8	1324	c.1156C>A	c.(1156-1158)CAG>AAG	p.Q386K	CAPN6_uc011msu.1_Missense_Mutation_p.Q131K	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	386	Domain III.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						ACTCAAACCTGGGGATTCTGC	0.453													71	57	---	---	---	---	PASS	T	110494147	T	T	110494147	3	4	99	1	0	0	0	0	1	0	0	0	2630	1357	47	3	793	3	CAPN6	23	110494147	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	2929	110494147	44776413	712	37343										
DCX	1641	broad.mit.edu	37	chrX	110653371	110653371	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agacagagatcgcgtcaggtCagccagcaaggcgtcaaagc	13	11	3	2			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:110653371C>T	uc004epd.2	-	2	671	c.499G>A	c.(499-501)GAC>AAC	p.D167N	DCX_uc011msv.1_Missense_Mutation_p.D167N|DCX_uc004epe.2_Missense_Mutation_p.D86N|DCX_uc004epf.2_Missense_Mutation_p.D86N|DCX_uc004epg.2_Missense_Mutation_p.D86N	NM_000555	NP_000546	O43602	DCX_HUMAN	doublecortin isoform a	167	Doublecortin 1.		D -> H (in SBHX).		axon guidance|central nervous system development|intracellular signal transduction	cytosol|microtubule associated complex	microtubule binding			central_nervous_system(2)|lung(1)|skin(1)	4						CGCGTCAGGTCAGCCAGCAAG	0.517													34	22	---	---	---	---	PASS	T	110653371	T	T	110653371	3	4	99	1	0	0	0	0	1	0	0	0	4318	826	29	2	865	2	DCX	23	110653371	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	159224	110653371	44617189	713	37344										
DCAF12L1	139170	broad.mit.edu	37	chrX	125685530	125685530	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	tggcggtagaagctcagcgaCcgcacgcctgtgccaccctc	12	16	1	1	rs138224583	byFrequency	TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:125685530C>T	uc004eul.2	-	1	1313	c.1062G>A	c.(1060-1062)CGG>CGA	p.R354R		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	354	WD 4.									skin(3)|ovary(1)	4						AGCTCAGCGACCGCACGCCTG	0.622													12	16	---	---	---	---	PASS	T	125685530	T	T	125685530	2	4	99	1	0	0	0	0	0	0	0	1	4264	494	18	3		3	DCAF12L1	23	125685530	Silent	SNP	C	TCGA-43-5668-01A-01D-1632-08	15032159	125685530	29585030	714	37345										
FRMD7	90167	broad.mit.edu	37	chrX	131212472	131212472	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	agctggcttcattgcagtggGctctacatagctatgtggac	12	9	2	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:131212472G>T	uc004ewn.2	-	12	1751	c.1573C>A	c.(1573-1575)CCC>ACC	p.P525T	FRMD7_uc011muy.1_Missense_Mutation_p.P510T	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	525					regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					ATTGCAGTGGGCTCTACATAG	0.498													51	80	---	---	---	---	PASS	T	131212472	T	T	131212472	3	4	99	1	0	0	0	0	1	0	0	0	6055	1203	42	3	575	3	FRMD7	23	131212472	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	5526942	131212472	24058088	715	37346										
F9	2158	broad.mit.edu	37	chrX	138633269	138633269	+	Frame_Shift_Del	DEL	C	-	-													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	ttcacaaacttctaagctcaCccgtgctgagactgtttttc							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:138633269delC	uc004fas.1	+	6	598	c.569delC	c.(568-570)ACCfs	p.T190fs	F9_uc004fat.1_Frame_Shift_Del_p.T152fs	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	190					blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	TCTAAGCTCACCCGTGCTGAG	0.368													35	33	---	---	---	---		-	138633269	-	-	138633269	7	5	99	1	0	1	0	1	0	0	0	0	5351	507	18	0	591	0	F9	23	138633269	Frame_Shift_Del	DEL	C	TCGA-43-5668-01A-01D-1632-08	7420797	138633269	16637291	716	37347										
MAGEA11	4110	broad.mit.edu	37	chrX	148798397	148798397	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cccacttcttacccatccctGtatgaagatgctttgagaga	7	12	1	4			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:148798397G>A	uc004fdq.2	+	5	1353	c.1251G>A	c.(1249-1251)CTG>CTA	p.L417L	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Silent_p.L388L	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	417	MAGE.					cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					ACCCATCCCTGTATGAAGATG	0.557													42	23	---	---	---	---	PASS	A	148798397	A	A	148798397	2	1	99	1	0	0	0	0	0	0	0	1	9165	1364	48	3		3	MAGEA11	23	148798397	Silent	SNP	G	TCGA-43-5668-01A-01D-1632-08	10165128	148798397	6472163	717	37348										
MAGEA4	4103	broad.mit.edu	37	chrX	151093042	151093042	+	Frame_Shift_Del	DEL	C	-	-													0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gcaagagttcgcattgcctaCccatccctgcgtgaagcagc							TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:151093042delC	uc004fez.2	+	3	1062	c.906delC	c.(904-906)TACfs	p.Y302fs	MAGEA4_uc004ffa.2_Frame_Shift_Del_p.Y302fs|MAGEA4_uc004ffb.2_Frame_Shift_Del_p.Y302fs|MAGEA4_uc004ffc.2_Frame_Shift_Del_p.Y302fs|MAGEA4_uc004ffd.2_Frame_Shift_Del_p.Y302fs	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	302	MAGE.						protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GCATTGCCTACCCATCCCTGC	0.572													42	40	---	---	---	---		-	151093042	-	-	151093042	7	5	99	1	0	1	0	1	0	0	0	0	9168	518	18	0	908	0	MAGEA4	23	151093042	Frame_Shift_Del	DEL	C	TCGA-43-5668-01A-01D-1632-08	2294645	151093042	4177518	718	37349										
MAGEA10	4109	broad.mit.edu	37	chrX	151303813	151303813	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	aagggaagcaacgaccgaggGggaggagcaggctatctgag	18	7	1	1			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:151303813G>T	uc004ffk.2	-	5	688	c.280C>A	c.(280-282)CCC>ACC	p.P94T	MAGEA10_uc004ffl.2_Missense_Mutation_p.P94T	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	94											0	Acute lymphoblastic leukemia(192;6.56e-05)					ACGACCGAGGGGGAGGAGCAG	0.522													52	65	---	---	---	---	PASS	T	151303813	T	T	151303813	3	4	99	1	0	0	0	0	1	0	0	0	9164	1232	43	3	833	3	MAGEA10	23	151303813	Missense_Mutation	SNP	G	TCGA-43-5668-01A-01D-1632-08	210771	151303813	3966747	719	37350										
IDH3G	3421	broad.mit.edu	37	chrX	153053588	153053588	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	gttatggttggtttcgatgtTgcctacaaaacacaacacag	9	8	0	0			TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:153053588T>A	uc004fip.2	-	6	535	c.349A>T	c.(349-351)AAC>TAC	p.N117Y	IDH3G_uc004fio.2_Missense_Mutation_p.N59Y|IDH3G_uc004fiq.2_Missense_Mutation_p.N117Y|IDH3G_uc010num.2_Missense_Mutation_p.N59Y|IDH3G_uc004fir.2_Missense_Mutation_p.N59Y|IDH3G_uc004fit.1_Missense_Mutation_p.N117Y|IDH3G_uc004fis.2_Missense_Mutation_p.N59Y|IDH3G_uc004fiu.2_5'Flank	NM_004135	NP_004126	P51553	IDH3G_HUMAN	isocitrate dehydrogenase 3 (NAD+) gamma isoform	117					carbohydrate metabolic process|isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleolus	ATP binding|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	GTTTCGATGTTGCCTACAAAA	0.587													52	39	---	---	---	---	PASS	A	153053588	A	A	153053588	3	1	99	1	0	0	0	0	1	0	0	0	7498	1812	63	5	927	5	IDH3G	23	153053588	Missense_Mutation	SNP	T	TCGA-43-5668-01A-01D-1632-08	1749775	153053588	2216972	720	37351										
PLXNA3	55558	broad.mit.edu	37	chrX	153692517	153692517	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0522598870056497	37	0.297974491697868	1.13192952389797	1.13428280773143	1.13080341261569	0.0222660649853544	0.157643740096309	0	cagctgaccgtcaccctgcaCaacgtgccagacctcagtgc	9	17	2	2	rs144165306		TCGA-43-5668-01A-01D-1632-08	TCGA-43-5668-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	f01dfe80-aee9-44f6-b32d-3591fbc3c0f5	4cec06de-d6de-4e8b-ad24-e9559630c0aa	g.chrX:153692517C>G	uc004flm.2	+	8	1862	c.1689C>G	c.(1687-1689)CAC>CAG	p.H563Q		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	563	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TCACCCTGCACAACGTGCCAG	0.697													3	3	---	---	---	---	PASS	G	153692517	G	G	153692517	3	3	99	1	0	0	0	0	1	0	0	0	12121	477	17	4	1715	4	PLXNA3	23	153692517	Missense_Mutation	SNP	C	TCGA-43-5668-01A-01D-1632-08	638929	153692517	1578043	721	37352										
CCDC27	148870	broad.mit.edu	37	chr1	3669365	3669365	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccgctactacaggaagacggTatggggtcccgggaggaggg	18	9	0	1	rs149388135		TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:3669365T>C	uc001akv.2	+	1	399	c.318_splice	c.e1+2	p.T106_splice		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27											skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		AGGAAGACGGTATGGGGTCCC	0.617													6	10	---	---	---	---	PASS	C	3669365	C	C	3669365	5	2	100	1	0	0	0	0	0	0	1	0	2801	1652	57	5	322	5	CCDC27	1	3669365	Splice_Site	SNP	T	TCGA-43-6143-01A-11D-1817-08		3669365	245581256	1	37353										
AJAP1	55966	broad.mit.edu	37	chr1	4834552	4834552	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgagaaatggtttgaaatctCctgctgactggccgaagtct	11	8	2	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:4834552C>G	uc001alm.1	+	5	1610	c.1229C>G	c.(1228-1230)TCC>TGC	p.S410C	AJAP1_uc001aln.2_Missense_Mutation_p.S410C	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	410	Targeting signals.|Cytoplasmic (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		TTTGAAATCTCCTGCTGACTG	0.517													31	104	---	---	---	---	PASS	G	4834552	G	G	4834552	3	3	100	1	0	0	0	0	1	0	0	0	438	855	30	2	1247	2	AJAP1	1	4834552	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	1165187	4834552	244416069	2	37354										
VPS13D	55187	broad.mit.edu	37	chr1	12383778	12383778	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cctagagttacagctggctaGgctgcaggagctgggattca	14	9	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:12383778G>C	uc001atv.2	+	35	8072	c.7931G>C	c.(7930-7932)AGG>ACG	p.R2644T	VPS13D_uc001atw.2_Missense_Mutation_p.R2644T|VPS13D_uc001atx.2_Missense_Mutation_p.R1832T|VPS13D_uc001aty.1_Missense_Mutation_p.R382T	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2644	UBA.				protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		CAGCTGGCTAGGCTGCAGGAG	0.328													9	184	---	---	---	---	PASS	C	12383778	C	C	12383778	3	2	100	1	0	0	0	0	1	0	0	0	17189	1000	35	4	8065	4	VPS13D	1	12383778	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	7549226	12383778	236866843	3	37355										
FUCA1	2517	broad.mit.edu	37	chr1	24192068	24192068	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agttccaagacacaggactcGgccagtttgtgaagccttcg	11	11	0	2	rs2228424	byFrequency	TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:24192068G>C	uc001bie.2	-	2	482	c.437C>G	c.(436-438)CCG>CGG	p.P146R	FUCA1_uc009vqt.1_RNA|FUCA1_uc010oed.1_RNA	NM_000147	NP_000138	P04066	FUCO_HUMAN	fucosidase, alpha-L-1, tissue precursor	146					fucose metabolic process|glycosaminoglycan catabolic process	lysosome	alpha-L-fucosidase activity|cation binding			breast(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.00957)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.11e-24)|Colorectal(126;5.69e-08)|COAD - Colon adenocarcinoma(152;3.15e-06)|GBM - Glioblastoma multiforme(114;9.04e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|KIRC - Kidney renal clear cell carcinoma(1967;0.00342)|STAD - Stomach adenocarcinoma(196;0.0128)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.144)		CACAGGACTCGGCCAGTTTGT	0.512													29	95	---	---	---	---	PASS	C	24192068	C	C	24192068	3	2	100	1	0	0	0	0	1	0	0	0	6094	1116	39	4	991	4	FUCA1	1	24192068	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	11808290	24192068	225058553	4	37356										
MYOM3	127294	broad.mit.edu	37	chr1	24384007	24384007	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atggtgatggtgacctctgtCcccctcacttccatgcggta	10	13	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:24384007C>G	uc001bin.3	-	37	4324	c.4161G>C	c.(4159-4161)GGG>GGC	p.G1387G	MYOM3_uc001bil.3_Silent_p.G280G|MYOM3_uc001bim.3_Silent_p.G1044G	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	1387	Ig-like C2-type 4.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		TGACCTCTGTCCCCCTCACTT	0.557													52	21	---	---	---	---	PASS	G	24384007	G	G	24384007	2	3	100	1	0	0	0	0	0	0	0	1	10093	842	30	2		2	MYOM3	1	24384007	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	191939	24384007	224866614	5	37357										
CSMD2	114784	broad.mit.edu	37	chr1	34035025	34035025	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cccattggccatgcactcacGcaccctggagcccaccagtg	9	18	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:34035025G>C	uc001bxn.1	-	53	8115	c.8086C>G	c.(8086-8088)CGT>GGT	p.R2696G	CSMD2_uc001bxm.1_Missense_Mutation_p.R2694G	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2696	Sushi 17.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				ATGCACTCACGCACCCTGGAG	0.572													34	34	---	---	---	---	PASS	C	34035025	C	C	34035025	3	2	100	1	0	0	0	0	1	0	0	0	3945	1087	38	4	2445	4	CSMD2	1	34035025	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	9651018	34035025	215215596	6	37358										
ZMYM1	79830	broad.mit.edu	37	chr1	35578967	35578967	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	accctggaaaaattcagaaaGcatgaaaaaagtgaaatgca	8	6	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:35578967G>T	uc001bym.2	+	11	1684	c.1536G>T	c.(1534-1536)AAG>AAT	p.K512N	ZMYM1_uc001byn.2_Missense_Mutation_p.K512N|ZMYM1_uc010ohu.1_Missense_Mutation_p.K493N|ZMYM1_uc001byo.2_Missense_Mutation_p.K152N|ZMYM1_uc009vut.2_Missense_Mutation_p.K437N	NM_024772	NP_079048	Q5SVZ6	ZMYM1_HUMAN	zinc finger, MYM domain containing 1	512	TTF-type.					nucleus	nucleic acid binding|protein dimerization activity|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				AATTCAGAAAGCATGAAAAAA	0.363													9	186	---	---	---	---	PASS	T	35578967	T	T	35578967	3	4	100	1	0	0	0	0	1	0	0	0	17696	962	34	3	1570	3	ZMYM1	1	35578967	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	1543942	35578967	213671654	7	37359										
MACF1	23499	broad.mit.edu	37	chr1	39757596	39757596	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tttcagatgaaactggagcgAgcagagtggggcaatgacct	14	7	1	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:39757596A>T	uc010ois.1	+	17	2020	c.1815A>T	c.(1813-1815)CGA>CGT	p.R605R	MACF1_uc001cda.1_Silent_p.R513R	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	605					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)			AACTGGAGCGAGCAGAGTGGG	0.448													34	12	---	---	---	---	PASS	T	39757596	T	T	39757596	2	4	100	1	0	0	0	0	0	0	0	1	9144	291	11	5		5	MACF1	1	39757596	Silent	SNP	A	TCGA-43-6143-01A-11D-1817-08	4178629	39757596	209493025	8	37360										
MACF1	23499	broad.mit.edu	37	chr1	39823278	39823278	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgcagaaatttctgcaggatCataaagagtttgaaagctgg	11	5	2	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:39823278C>A	uc010oiu.1	+	9	7107	c.6976C>A	c.(6976-6978)CAT>AAT	p.H2326N	MACF1_uc010ois.1_Missense_Mutation_p.H1824N|MACF1_uc001cda.1_Missense_Mutation_p.H1732N|MACF1_uc001cdc.1_Missense_Mutation_p.H911N|MACF1_uc001cdb.1_Missense_Mutation_p.H911N	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3891	Spectrin 1.				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)			TCTGCAGGATCATAAAGAGTT	0.502													5	47	---	---	---	---	PASS	A	39823278	A	A	39823278	3	1	100	1	0	0	0	0	1	0	0	0	9144	826	29	2	11779	2	MACF1	1	39823278	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	65682	39823278	209427343	9	37361										
PTCH2	8643	broad.mit.edu	37	chr1	45291982	45291982	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gaggccacaaggatcaccacGgggatggcactcagcttgat	13	11	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:45291982G>A	uc010olf.1	-	19	3066	c.3054C>T	c.(3052-3054)CCC>CCT	p.P1018P	PTCH2_uc010olg.1_Silent_p.P716P	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	1018	Helical; (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					GGATCACCACGGGGATGGCAC	0.582									Basal_Cell_Nevus_syndrome				20	51	---	---	---	---	PASS	A	45291982	A	A	45291982	2	1	100	1	0	0	0	0	0	0	0	1	12731	1103	39	1		1	PTCH2	1	45291982	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	5468704	45291982	203958639	10	37362										
CDCP2	200008	broad.mit.edu	37	chr1	54610420	54610420	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	actctgtgttgtaggggtacAgtctagggaagttggggctg	17	5	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:54610420A>G	uc001cwv.1	-	2	994	c.146T>C	c.(145-147)CTG>CCG	p.L49P		NM_201546	NP_963840	Q5VXM1	CDCP2_HUMAN	CUB domain containing protein 2 precursor	49	CUB 1.					extracellular region				ovary(1)	1						GTAGGGGTACAGTCTAGGGAA	0.567													9	15	---	---	---	---	PASS	G	54610420	G	G	54610420	3	3	100	1	0	0	0	0	1	0	0	0	3094	188	7	5	1215	5	CDCP2	1	54610420	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	9318438	54610420	194640201	11	37363										
LEPR	3953	broad.mit.edu	37	chr1	66036306	66036306	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttcaaattcgaatggacattAtgagacagctgttgaaccta	8	7	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:66036306A>T	uc001dci.2	+	4	393	c.191A>T	c.(190-192)TAT>TTT	p.Y64F	LEPR_uc001dcg.2_Missense_Mutation_p.Y64F|LEPR_uc001dch.2_Missense_Mutation_p.Y64F|LEPR_uc009waq.2_Missense_Mutation_p.Y64F|LEPR_uc001dcj.2_Missense_Mutation_p.Y64F|LEPR_uc001dck.2_Missense_Mutation_p.Y64F	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	64	Extracellular (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)		AATGGACATTATGAGACAGCT	0.383													33	59	---	---	---	---	PASS	T	66036306	T	T	66036306	3	4	100	1	0	0	0	0	1	0	0	0	8728	449	16	5	197	5	LEPR	1	66036306	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	11425886	66036306	183214315	12	37364										
NEGR1	257194	broad.mit.edu	37	chr1	72748157	72748157	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttcgagcaacaagcaccctgCaccaacagcatcatgtccat	6	15	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:72748157C>A	uc001dfw.2	-	1	121	c.21G>T	c.(19-21)GTG>GTT	p.V7V	NEGR1_uc010oqs.1_Silent_p.V7V	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	7					cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		AAGCACCCTGCACCAACAGCA	0.642													3	33	---	---	---	---	PASS	A	72748157	A	A	72748157	2	1	100	1	0	0	0	0	0	0	0	1	10317	697	25	3		3	NEGR1	1	72748157	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	6711851	72748157	176502464	13	37365										
C1orf173	127254	broad.mit.edu	37	chr1	75037348	75037348	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cctctgcggctgtttctgccGtttcaccacctccgtgtaga	9	15	3	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:75037348G>A	uc001dgg.2	-	14	4265	c.4046C>T	c.(4045-4047)ACG>ATG	p.T1349M		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1349	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TGTTTCTGCCGTTTCACCACC	0.532													32	67	---	---	---	---	PASS	A	75037348	A	A	75037348	3	1	100	1	0	0	0	0	1	0	0	0	2014	1145	40	1	550	1	C1orf173	1	75037348	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	2289191	75037348	174213273	14	37366										
AK5	26289	broad.mit.edu	37	chr1	77987624	77987624	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcaaggggaagagttcggacGcagggtgagtggttgttacg	19	5	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:77987624G>A	uc001dhn.2	+	12	1681	c.1424G>A	c.(1423-1425)CGC>CAC	p.R475H	AK5_uc001dho.2_Missense_Mutation_p.R449H	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	475					ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						GAGTTCGGACGCAGGGTGAGT	0.527													19	31	---	---	---	---	PASS	A	77987624	A	A	77987624	3	1	100	1	0	0	0	0	1	0	0	0	443	1087	38	1	1470	1	AK5	1	77987624	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	2950276	77987624	171262997	15	37367										
GIPC2	54810	broad.mit.edu	37	chr1	78511862	78511862	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggcgagccgacgggcgcgggCggcgggagcctctcagcgtc	20	14	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:78511862C>A	uc001dik.2	+	1	274	c.84C>A	c.(82-84)GGC>GGA	p.G28G		NM_017655	NP_060125	Q8TF65	GIPC2_HUMAN	PDZ domain protein GIPC2	28						cytoplasm				ovary(1)	1						CGGGCGCGGGCGGCGGGAGCC	0.721													3	2	---	---	---	---	PASS	A	78511862	A	A	78511862	2	1	100	1	0	0	0	0	0	0	0	1	6393	755	27	1		1	GIPC2	1	78511862	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	524238	78511862	170738759	16	37368										
CDC14A	8556	broad.mit.edu	37	chr1	100819406	100819406	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gatgaggagctggtctatgaAaagtaagtttatgttttgtt	12	2	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:100819406A>T	uc001dtg.3	+	2	626	c.138A>T	c.(136-138)GAA>GAT	p.E46D	CDC14A_uc009web.2_Intron|CDC14A_uc010oui.1_5'UTR|CDC14A_uc001dte.3_Missense_Mutation_p.E46D|CDC14A_uc001dtf.2_Missense_Mutation_p.E46D|CDC14A_uc009wed.1_5'UTR|CDC14A_uc009wee.2_Missense_Mutation_p.E46D|CDC14A_uc009wec.1_Missense_Mutation_p.E46D	NM_003672	NP_003663	Q9UNH5	CC14A_HUMAN	CDC14 homolog A isoform 1	46	A.				cell cycle|cell division|cell proliferation	centrosome|nucleus|spindle	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			large_intestine(1)	1		all_epithelial(167;3.71e-06)|all_lung(203;0.00097)|Lung NSC(277;0.001)		Epithelial(280;0.0676)|all cancers(265;0.127)|COAD - Colon adenocarcinoma(174;0.201)|Lung(183;0.227)|Colorectal(144;0.241)		TGGTCTATGAAAAGTAAGTTT	0.363													8	6	---	---	---	---	PASS	T	100819406	T	T	100819406	3	4	100	1	0	0	0	0	1	0	0	0	3056	11	1	5	144	5	CDC14A	1	100819406	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	22307544	100819406	148431215	17	37369										
CELSR2	1952	broad.mit.edu	37	chr1	109810620	109810620	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agctggccacgcggctgctgGcccacgagagcacccagcgg	15	16	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:109810620G>T	uc001dxa.3	+	17	6317	c.6256G>T	c.(6256-6258)GCC>TCC	p.A2086S		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2086	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		GCGGCTGCTGGCCCACGAGAG	0.657													14	23	---	---	---	---	PASS	T	109810620	T	T	109810620	3	4	100	1	0	0	0	0	1	0	0	0	3222	1203	42	3	6322	3	CELSR2	1	109810620	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	8991214	109810620	139440001	18	37370										
SLC22A15	55356	broad.mit.edu	37	chr1	116519279	116519279	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aggaggcgttccaggcggtgGgggagatgggcatctaccag	19	8	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:116519279G>A	uc001egb.3	+	1	161	c.31G>A	c.(31-33)GGG>AGG	p.G11R	SLC22A15_uc001ega.2_Missense_Mutation_p.G11R	NM_018420	NP_060890	Q8IZD6	S22AF_HUMAN	solute carrier family 22, member 15	11					ion transport	integral to membrane	transmembrane transporter activity			large_intestine(2)	2	Lung SC(450;0.184)	all_cancers(81;3.17e-06)|all_epithelial(167;2.32e-06)|all_lung(203;9.81e-06)|Lung NSC(69;5.94e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		CCAGGCGGTGGGGGAGATGGG	0.711													8	22	---	---	---	---	PASS	A	116519279	A	A	116519279	3	1	100	1	0	0	0	0	1	0	0	0	14446	1232	43	3	33	3	SLC22A15	1	116519279	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	6708659	116519279	132731342	19	37371										
RPRD2	23248	broad.mit.edu	37	chr1	150444718	150444718	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agtgcatccaataggaggatGtcaggggagccgatccagac	14	9	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:150444718G>T	uc009wlr.2	+	11	3495	c.3294G>T	c.(3292-3294)ATG>ATT	p.M1098I	RPRD2_uc010pcc.1_3'UTR|RPRD2_uc001eup.3_Missense_Mutation_p.M1072I	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	1098							protein binding			ovary(1)	1						ATAGGAGGATGTCAGGGGAGC	0.542													18	26	---	---	---	---	PASS	T	150444718	T	T	150444718	3	4	100	1	0	0	0	0	1	0	0	0	13617	1377	48	3	3336	3	RPRD2	1	150444718	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	33925439	150444718	98805903	20	37372										
ADAMTSL4	54507	broad.mit.edu	37	chr1	150526475	150526475	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cctgaccctcagcacccgggCgcctggctgcccctgctgag	12	19	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:150526475C>A	uc001eux.2	+	6	1244	c.1008C>A	c.(1006-1008)GGC>GGA	p.G336G	ADAMTSL4_uc001euw.2_Silent_p.G336G|ADAMTSL4_uc009wlw.2_Silent_p.G336G|ADAMTSL4_uc010pcg.1_Silent_p.G336G	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	336					apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			AGCACCCGGGCGCCTGGCTGC	0.692													23	23	---	---	---	---	PASS	A	150526475	A	A	150526475	2	1	100	1	0	0	0	0	0	0	0	1	277	755	27	1		1	ADAMTSL4	1	150526475	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	81757	150526475	98724146	21	37373										
ATP8B2	57198	broad.mit.edu	37	chr1	154316910	154316910	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctattcctgcaagatgctgaCggatgacatgactgaggttt	11	8	0	5			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:154316910C>T	uc001fex.2	+	20	2174	c.2174C>T	c.(2173-2175)ACG>ATG	p.T725M		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	711	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AAGATGCTGACGGATGACATG	0.562													90	142	---	---	---	---	PASS	T	154316910	T	T	154316910	3	4	100	1	0	0	0	0	1	0	0	0	1195	536	19	1	2382	1	ATP8B2	1	154316910	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	3790435	154316910	94933711	22	37374										
BCAN	63827	broad.mit.edu	37	chr1	156622070	156622070	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	acaatccatggtaccgcccaCggggttctcagaagaggaag	12	11	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:156622070C>A	uc001fpp.2	+	8	1664	c.1328C>A	c.(1327-1329)ACG>AAG	p.T443K	BCAN_uc001fpo.2_Missense_Mutation_p.T443K	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	443	Glu-rich.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTACCGCCCACGGGGTTCTCA	0.333													75	71	---	---	---	---	PASS	A	156622070	A	A	156622070	3	1	100	1	0	0	0	0	1	0	0	0	1345	536	19	1	1354	1	BCAN	1	156622070	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	2305160	156622070	92628551	23	37375										
NES	10763	broad.mit.edu	37	chr1	156639207	156639207	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aggtgaacaggagcccctgcCcaagaggtcttcagagcact	12	12	2	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:156639207C>A	uc001fpq.2	-	4	4906	c.4773G>T	c.(4771-4773)TGG>TGT	p.W1591C		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	1591	Tail.			TSW -> RSS (in Ref. 1; CAA46780).	brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GAGCCCCTGCCCAAGAGGTCT	0.587													85	59	---	---	---	---	PASS	A	156639207	A	A	156639207	3	1	100	1	0	0	0	0	1	0	0	0	10337	624	22	3	96	3	NES	1	156639207	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	17137	156639207	92611414	24	37376										
OR6N1	128372	broad.mit.edu	37	chr1	158735905	158735905	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gacatttatagacgtatcagTgcaagccaaactcagcacag	8	10	2	1	rs75984757	byFrequency	TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:158735905T>A	uc010piq.1	-	1	568	c.568A>T	c.(568-570)ACT>TCT	p.T190S		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	190	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GACGTATCAGTGCAAGCCAAA	0.453													96	130	---	---	---	---	PASS	A	158735905	A	A	158735905	3	1	100	1	0	0	0	0	1	0	0	0	11206	1696	59	5	373	5	OR6N1	1	158735905	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	2096698	158735905	90514716	25	37377										
FCRLA	84824	broad.mit.edu	37	chr1	161680553	161680553	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggccatgccctcttcagctgCcagttttgagacgctgcagt	11	13	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:161680553C>A	uc001gbe.2	+	3	394	c.152C>A	c.(151-153)GCC>GAC	p.A51D	FCRLA_uc001gbd.2_Missense_Mutation_p.A45D|FCRLA_uc001gbf.2_Missense_Mutation_p.A45D|FCRLA_uc001gbg.2_Intron|FCRLA_uc009wuo.2_Intron|FCRLA_uc009wup.2_Missense_Mutation_p.A45D|FCRLA_uc009wuq.2_Intron	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			TCTTCAGCTGCCAGTTTTGAG	0.532													54	61	---	---	---	---	PASS	A	161680553	A	A	161680553	3	1	100	1	0	0	0	0	1	0	0	0	5800	739	26	3	162	3	FCRLA	1	161680553	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	2944648	161680553	87570068	26	37378										
C1orf110	339512	broad.mit.edu	37	chr1	162829412	162829412	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atcaaaatgcttatacaattGtcccctgaccatgtgcctct	5	12	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:162829412G>T	uc001gck.2	-	2	200	c.25C>A	c.(25-27)CAA>AAA	p.Q9K	C1orf110_uc009wux.1_Missense_Mutation_p.Q9K	NM_178550	NP_848645	Q86UF4	CA110_HUMAN	hypothetical protein LOC339512	9											0						TTATACAATTGTCCCCTGACC	0.443													47	52	---	---	---	---	PASS	T	162829412	T	T	162829412	3	4	100	1	0	0	0	0	1	0	0	0	1983	1386	48	3	895	3	C1orf110	1	162829412	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	1148859	162829412	86421209	27	37379										
RGS5	8490	broad.mit.edu	37	chr1	163117197	163117197	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cagagaatccttttccatcaGggcatggattcttttctggg	10	9	3	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:163117197G>T	uc001gcn.2	-	5	728	c.481C>A	c.(481-483)CTG>ATG	p.L161M	RGS5_uc009wvb.2_RNA	NM_003617	NP_003608	O15539	RGS5_HUMAN	regulator of G-protein signalling 5	161	RGS.				negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity				0			LUSC - Lung squamous cell carcinoma(543;0.187)			TTTTCCATCAGGGCATGGATT	0.443													101	106	---	---	---	---	PASS	T	163117197	T	T	163117197	3	4	100	1	0	0	0	0	1	0	0	0	13308	991	35	3	68	3	RGS5	1	163117197	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	287785	163117197	86133424	28	37380										
RXRG	6258	broad.mit.edu	37	chr1	165398161	165398161	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcttccctgtggacaaggctGctgatgggctcatggatgta	14	9	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:165398161G>T	uc001gda.2	-	2	392	c.92C>A	c.(91-93)GCA>GAA	p.A31E		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	31	Modulating (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	GGACAAGGCTGCTGATGGGCT	0.587													54	85	---	---	---	---	PASS	T	165398161	T	T	165398161	3	4	100	1	0	0	0	0	1	0	0	0	13765	1319	46	3	1335	3	RXRG	1	165398161	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	2280964	165398161	83852460	29	37381										
TNR	7143	broad.mit.edu	37	chr1	175372337	175372337	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cagagcccctcctcacattgTcctcgcccactgcaggcatt	7	18	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:175372337T>C	uc001gkp.1	-	2	996	c.915A>G	c.(913-915)GGA>GGG	p.G305G	TNR_uc009wwu.1_Silent_p.G305G|TNR_uc010pmz.1_Silent_p.G305G	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	305	Cys-rich.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CCTCACATTGTCCTCGCCCAC	0.617													66	78	---	---	---	---	PASS	C	175372337	C	C	175372337	2	2	100	1	0	0	0	0	0	0	0	1	16335	1654	58	5		5	TNR	1	175372337	Silent	SNP	T	TCGA-43-6143-01A-11D-1817-08	9974176	175372337	73878284	30	37382										
SMG7	9887	broad.mit.edu	37	chr1	183497094	183497094	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aattttcttcttcttagctcGatacagaaaccagaccagcc	5	12	3	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:183497094G>A	uc001gqg.2	+	6	610	c.488G>A	c.(487-489)CGA>CAA	p.R163Q	SMG7_uc010pob.1_Missense_Mutation_p.R192Q|SMG7_uc001gqf.2_Missense_Mutation_p.R163Q|SMG7_uc001gqh.2_Missense_Mutation_p.R163Q|SMG7_uc001gqi.2_Missense_Mutation_p.R121Q|SMG7_uc010poc.1_Missense_Mutation_p.R121Q	NM_173156	NP_775179	Q92540	SMG7_HUMAN	SMG-7 homolog isoform 1	163	TPR 1.			R->E: Abolishes interaction with UPF1; when associated with E-66.	mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|intermediate filament cytoskeleton|nucleus	protein phosphatase 2A binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TTCTTAGCTCGATACAGAAAC	0.403													4	99	---	---	---	---	PASS	A	183497094	A	A	183497094	3	1	100	1	0	0	0	0	1	0	0	0	14798	1058	37	2	510	2	SMG7	1	183497094	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	8124757	183497094	65753527	31	37383										
TPR	7175	broad.mit.edu	37	chr1	186316424	186316424	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gaattcagaattatacatacCtgtttttccttgttcaggga	7	7	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:186316424C>G	uc001grv.2	-	22	3240	c.2943G>C	c.(2941-2943)CAG>CAC	p.Q981H		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	981	Potential.				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)		TTATACATACCTGTTTTTCCT	0.333			T	NTRK1	papillary thyroid								66	117	---	---	---	---	PASS	G	186316424	G	G	186316424	3	3	100	1	0	0	0	0	1	0	0	0	16413	695	24	4	4268	4	TPR	1	186316424	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	2819330	186316424	62934197	32	37384										
CDC73	79577	broad.mit.edu	37	chr1	193218893	193218893	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tctgaagtatgatgaagttcGtctggatccaaatgttcaga	10	6	3	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:193218893G>T	uc001gtb.2	+	16	1694	c.1451G>T	c.(1450-1452)CGT>CTT	p.R484L		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	484					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						GATGAAGTTCGTCTGGATCCA	0.338									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				39	25	---	---	---	---	PASS	T	193218893	T	T	193218893	3	4	100	1	0	0	0	0	1	0	0	0	3085	1145	40	1	1513	1	CDC73	1	193218893	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	6902469	193218893	56031728	33	37385										
KCNT2	343450	broad.mit.edu	37	chr1	196303136	196303136	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cctctgtaggaagagacaggGtagggccacttgctgatcta	13	9	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:196303136G>T	uc001gtd.1	-	17	1898	c.1838C>A	c.(1837-1839)ACC>AAC	p.T613N	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.T563N|KCNT2_uc001gtf.1_Missense_Mutation_p.T613N|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.T613N|KCNT2_uc001gth.1_Missense_Mutation_p.T134N	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	613	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						AAGAGACAGGGTAGGGCCACT	0.398													5	113	---	---	---	---	PASS	T	196303136	T	T	196303136	3	4	100	1	0	0	0	0	1	0	0	0	8092	1261	44	3	1617	3	KCNT2	1	196303136	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	3084243	196303136	52947485	34	37386										
CFHR5	81494	broad.mit.edu	37	chr1	196963327	196963327	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aaaaaatcttataagagttgGatcagactcagttcaatgtt	7	5	4	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:196963327G>T	uc001gts.3	+	4	676	c.548G>T	c.(547-549)GGA>GTA	p.G183V		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	183	Sushi 3.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						ATAAGAGTTGGATCAGACTCA	0.353													133	152	---	---	---	---	PASS	T	196963327	T	T	196963327	3	4	100	1	0	0	0	0	1	0	0	0	3288	1174	41	2	562	2	CFHR5	1	196963327	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	660191	196963327	52287294	35	37387										
KIF14	9928	broad.mit.edu	37	chr1	200550341	200550341	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttactcacctgccaaaaacaTagtatgttttcaatttgctg	5	9	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:200550341T>C	uc010ppk.1	-	20	3762	c.3323A>G	c.(3322-3324)TAT>TGT	p.Y1108C	KIF14_uc010ppj.1_Missense_Mutation_p.Y617C	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	1108	Required for CIT-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						GCCAAAAACATAGTATGTTTT	0.294													104	46	---	---	---	---	PASS	C	200550341	C	C	200550341	3	2	100	1	0	0	0	0	1	0	0	0	8276	1406	49	5	1667	5	KIF14	1	200550341	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	3587014	200550341	48700280	36	37388										
PPP1R15B	84919	broad.mit.edu	37	chr1	204380189	204380189	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aaagatttctgcgctgtgggGgcggctggtttctcccgtcc	14	11	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:204380189G>A	uc001hav.3	-	1	756	c.351C>T	c.(349-351)GCC>GCT	p.A117A		NM_032833	NP_116222	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	117					regulation of translation					ovary(1)|pancreas(1)	2	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			GCGCTGTGGGGGCGGCTGGTT	0.577													98	198	---	---	---	---	PASS	A	204380189	A	A	204380189	2	1	100	1	0	0	0	0	0	0	0	1	12364	1219	43	3		3	PPP1R15B	1	204380189	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	3829848	204380189	44870432	37	37389										
LRRN2	10446	broad.mit.edu	37	chr1	204588804	204588804	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aatcacagtctcgggcatccGaaaagctgttctgggacagg	12	10	3	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:204588804G>A	uc001hbe.1	-	3	705	c.317C>T	c.(316-318)TCG>TTG	p.S106L	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Missense_Mutation_p.S106L|LRRN2_uc009xbf.1_Missense_Mutation_p.S106L|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	106	LRR 2.|Extracellular (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			TCGGGCATCCGAAAAGCTGTT	0.602													123	160	---	---	---	---	PASS	A	204588804	A	A	204588804	3	1	100	1	0	0	0	0	1	0	0	0	9035	1059	37	2	1828	2	LRRN2	1	204588804	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	208615	204588804	44661817	38	37390										
C1orf186	440712	broad.mit.edu	37	chr1	206239444	206239444	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gttgacaaaataccagaaacTgggcttgtgtctttctggat	10	7	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:206239444T>A	uc001hdt.1	-	6	1093	c.454A>T	c.(454-456)AGT>TGT	p.S152C		NM_001007544	NP_001007545	Q6ZWK4	CA186_HUMAN	hypothetical protein LOC440712	152						integral to membrane					0			BRCA - Breast invasive adenocarcinoma(75;0.0754)			TACCAGAAACTGGGCTTGTGT	0.418													63	20	---	---	---	---	PASS	A	206239444	A	A	206239444	3	1	100	1	0	0	0	0	1	0	0	0	2020	1580	55	5	68	5	C1orf186	1	206239444	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	1650640	206239444	43011177	39	37391										
FAM71A	149647	broad.mit.edu	37	chr1	212798339	212798339	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aagggggagtacgatatattCaagtatgcaccgatatttga	11	5	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:212798339C>A	uc001hjk.2	+	1	524	c.120C>A	c.(118-120)TTC>TTA	p.F40L	uc010pth.1_Intron	NM_153606	NP_705834	Q8IYT1	FA71A_HUMAN	hypothetical protein LOC149647	40										skin(3)|ovary(1)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00631)|all cancers(67;0.00981)|GBM - Glioblastoma multiforme(131;0.0715)|Epithelial(68;0.094)		ACGATATATTCAAGTATGCAC	0.493													109	46	---	---	---	---	PASS	A	212798339	A	A	212798339	3	1	100	1	0	0	0	0	1	0	0	0	5607	825	29	2	122	2	FAM71A	1	212798339	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	6558895	212798339	36452282	40	37392										
TGFB2	7042	broad.mit.edu	37	chr1	218607483	218607483	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tacatcgacagcaaagttgtGaaaacaagagcagaaggcga	11	7	0	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:218607483G>C	uc001hlm.2	+	3	1223	c.570G>C	c.(568-570)GTG>GTC	p.V190V	TGFB2_uc001hln.2_Silent_p.V218V|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	190					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		GCAAAGTTGTGAAAACAAGAG	0.453													56	282	---	---	---	---	PASS	C	218607483	C	C	218607483	2	2	100	1	0	0	0	0	0	0	0	1	15815	1277	45	2		2	TGFB2	1	218607483	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	5809144	218607483	30643138	41	37393										
NVL	4931	broad.mit.edu	37	chr1	224420909	224420909	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggagagaattgtacctttttCatttccactcttctgtcttg	7	9	4	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:224420909C>T	uc001hok.2	-	21	2492	c.2449G>A	c.(2449-2451)GAA>AAA	p.E817K	NVL_uc001hol.2_Missense_Mutation_p.E711K|NVL_uc010pvd.1_Missense_Mutation_p.E726K|NVL_uc010pve.1_Missense_Mutation_p.E628K|NVL_uc010pvf.1_RNA	NM_002533	NP_002524	O15381	NVL_HUMAN	nuclear VCP-like isoform 1	817						aggresome|cytoplasm|nucleolus	ATP binding|nucleoside-triphosphatase activity			skin(2)	2				GBM - Glioblastoma multiforme(131;0.00501)		GTACCTTTTTCATTTCCACTC	0.383													14	119	---	---	---	---	PASS	T	224420909	T	T	224420909	3	4	100	1	0	0	0	0	1	0	0	0	10780	835	29	2	133	2	NVL	1	224420909	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	5813426	224420909	24829712	42	37394										
ZNF695	57116	broad.mit.edu	37	chr1	247151459	247151459	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	attccttaagcgtaatttctCaagacaacatctttcatatc	3	10	3	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:247151459C>T	uc009xgu.2	-	4	503	c.358G>A	c.(358-360)GAG>AAG	p.E120K	ZNF695_uc001ica.2_RNA|ZNF695_uc001icb.1_RNA|ZNF695_uc009xgt.1_RNA|ZNF695_uc001ibx.2_Missense_Mutation_p.E120K|ZNF695_uc001iby.2_Intron|ZNF695_uc001icc.2_Missense_Mutation_p.E108K	NM_020394	NP_065127	Q8IW36	ZN695_HUMAN	zinc finger protein SBZF3	120					regulation of transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			CGTAATTTCTCAAGACAACAT	0.408													6	375	---	---	---	---	PASS	T	247151459	T	T	247151459	3	4	100	1	0	0	0	0	1	0	0	0	18095	835	29	2	1193	2	ZNF695	1	247151459	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	22730550	247151459	2099162	43	37395										
NLRP3	114548	broad.mit.edu	37	chr1	247599379	247599379	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gggggagaatgccttgggagActcaggagtcgcaattttat	15	6	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:247599379A>T	uc001icr.2	+	8	2744	c.2606A>T	c.(2605-2607)GAC>GTC	p.D869V	NLRP3_uc001ics.2_Intron|NLRP3_uc001icu.2_Missense_Mutation_p.D869V|NLRP3_uc001icw.2_Missense_Mutation_p.D812V|NLRP3_uc001icv.2_Intron|NLRP3_uc010pyw.1_Missense_Mutation_p.D847V	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	869	LRR 5.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			GCCTTGGGAGACTCAGGAGTC	0.473													24	88	---	---	---	---	PASS	T	247599379	T	T	247599379	3	4	100	1	0	0	0	0	1	0	0	0	10478	275	10	5	2628	5	NLRP3	1	247599379	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	447920	247599379	1651242	44	37396										
TRIM58	25893	broad.mit.edu	37	chr1	248028112	248028112	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgaggcggctggaggcggagGagcgagcgacgctgcagaga	21	8	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:248028112G>T	uc001ido.2	+	3	670	c.622G>T	c.(622-624)GAG>TAG	p.E208*		NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	208	Potential.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GGAGGCGGAGGAGCGAGCGAC	0.632													25	58	---	---	---	---	PASS	T	248028112	T	T	248028112	4	4	100	1	0	0	0	0	0	1	0	0	16528	1175	41	2	632	2	TRIM58	1	248028112	Nonsense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	428733	248028112	1222509	45	37397										
OR2L2	26246	broad.mit.edu	37	chr1	248202041	248202041	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gctctatcaactcttgtgctCacacagtatatgcactctgt	6	12	5	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:248202041C>T	uc001idw.2	+	1	568	c.472C>T	c.(472-474)CAC>TAC	p.H158Y	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	158	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			CTCTTGTGCTCACACAGTATA	0.428													152	66	---	---	---	---	PASS	T	248202041	T	T	248202041	3	4	100	1	0	0	0	0	1	0	0	0	11007	826	29	2	474	2	OR2L2	1	248202041	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	173929	248202041	1048580	46	37398										
OR2T3	343173	broad.mit.edu	37	chr1	248637193	248637193	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccagtctaggaaaatcctgaGttttttctgtgagactcctg	9	9	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:248637193G>C	uc001iel.1	+	1	542	c.542G>C	c.(541-543)AGT>ACT	p.S181T		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AAAATCCTGAGTTTTTTCTGT	0.522													154	63	---	---	---	---	PASS	C	248637193	C	C	248637193	3	2	100	1	0	0	0	0	1	0	0	0	11023	1029	36	4	544	4	OR2T3	1	248637193	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	435152	248637193	613428	47	37399										
OR2G6	391211	broad.mit.edu	37	chr1	248685741	248685741	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtaccttcaaccggccaataGgagatccaaaaaccagggaa	9	11	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:248685741G>A	uc001ien.1	+	1	794	c.794G>A	c.(793-795)AGG>AAG	p.R265K		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCGGCCAATAGGAGATCCAAA	0.443													25	139	---	---	---	---	PASS	A	248685741	A	A	248685741	3	1	100	1	0	0	0	0	1	0	0	0	11000	1000	35	3	796	3	OR2G6	1	248685741	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	48548	248685741	564880	48	37400										
OR14I1	401994	broad.mit.edu	37	chr1	248845393	248845393	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttaggcacagtgactgagatGtagcacagatccaaaacgga	11	8	0	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr1:248845393G>T	uc001ieu.1	-	1	213	c.213C>A	c.(211-213)TAC>TAA	p.Y71*		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	71	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGACTGAGATGTAGCACAGAT	0.478													30	22	---	---	---	---	PASS	T	248845393	T	T	248845393	4	4	100	1	0	0	0	0	0	1	0	0	10947	1372	48	3	726	3	OR14I1	1	248845393	Nonsense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	159652	248845393	405228	49	37401										
ACP1	52	broad.mit.edu	37	chr2	272235	272235	+	Missense_Mutation	SNP	G	C	C													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttctgactggaacgtgggccGgtccccagacccaagagctg							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:272235G>C	uc002qwg.2	+	3	257	c.161G>C	c.(160-162)CGG>CCG	p.R54P	ACP1_uc002qwd.2_Missense_Mutation_p.G106R|ACP1_uc002qwe.3_RNA|ACP1_uc002qwh.2_RNA|ACP1_uc002qwf.2_Intron	NM_007099	NP_009030	P24666	PPAC_HUMAN	acid phosphatase 1, soluble isoform b	54						cytoplasm|internal side of plasma membrane|nucleus|soluble fraction	acid phosphatase activity|identical protein binding|non-membrane spanning protein tyrosine phosphatase activity			skin(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.00175)|Lung NSC(108;0.216)|all_epithelial(98;0.236)		all cancers(51;0.000391)|Epithelial(75;0.00281)|OV - Ovarian serous cystadenocarcinoma(76;0.00542)|GBM - Glioblastoma multiforme(21;0.127)		AACGTGGGCCGGTCCCCAGAC	0.502													8	16	---	---	---	---	PASS	C	272235	C	C	272235	3	2	100	1	0	0	0	0	1	0	0	0	162	1116	39	4	326	4	ACP1	2	272235	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08		272235	242927138	50	37402	693	2								
ACP1	52	broad.mit.edu	37	chr2	272236	272236	+	Silent	SNP	G	T	T													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tctgactggaacgtgggccgGtccccagacccaagagctgt							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:272236G>T	uc002qwg.2	+	3	258	c.162G>T	c.(160-162)CGG>CGT	p.R54R	ACP1_uc002qwd.2_Missense_Mutation_p.G106V|ACP1_uc002qwe.3_RNA|ACP1_uc002qwh.2_RNA|ACP1_uc002qwf.2_Intron	NM_007099	NP_009030	P24666	PPAC_HUMAN	acid phosphatase 1, soluble isoform b	54						cytoplasm|internal side of plasma membrane|nucleus|soluble fraction	acid phosphatase activity|identical protein binding|non-membrane spanning protein tyrosine phosphatase activity			skin(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.00175)|Lung NSC(108;0.216)|all_epithelial(98;0.236)		all cancers(51;0.000391)|Epithelial(75;0.00281)|OV - Ovarian serous cystadenocarcinoma(76;0.00542)|GBM - Glioblastoma multiforme(21;0.127)		ACGTGGGCCGGTCCCCAGACC	0.498													7	16	---	---	---	---	PASS	T	272236	T	T	272236	2	4	100	1	0	0	0	0	0	0	0	1	162	1261	44	3		3	ACP1	2	272236	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	1	272236	242927137	51	37403	693	2								
MYT1L	23040	broad.mit.edu	37	chr2	1947066	1947066	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aggttcctggggctgtttatCttgtgtttttctttttttcg	10	6	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:1947066C>A	uc002qxe.2	-	9	1020	c.193G>T	c.(193-195)GAT>TAT	p.D65Y	MYT1L_uc002qxd.2_Missense_Mutation_p.D65Y	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	65					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		GGCTGTTTATCTTGTGTTTTT	0.418													11	2	---	---	---	---	PASS	A	1947066	A	A	1947066	3	1	100	1	0	0	0	0	1	0	0	0	10107	913	32	2	3429	2	MYT1L	2	1947066	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	1674830	1947066	241252307	52	37404										
EHD3	30845	broad.mit.edu	37	chr2	31467261	31467261	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctgggaacgccctggtggtgGatcccaagaaacccttcagg	13	12	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:31467261G>A	uc002rnu.2	+	2	957	c.349G>A	c.(349-351)GAT>AAT	p.D117N	EHD3_uc010ymt.1_Missense_Mutation_p.D117N	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	117					blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					CCTGGTGGTGGATCCCAAGAA	0.552													47	28	---	---	---	---	PASS	A	31467261	A	A	31467261	3	1	100	1	0	0	0	0	1	0	0	0	4979	1174	41	2	355	2	EHD3	2	31467261	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	29520195	31467261	211732112	53	37405										
FAM98A	25940	broad.mit.edu	37	chr2	33810284	33810284	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgcttatttcctcttcctccCcctcggccaccatggtcata	5	17	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:33810284C>T	uc002rpa.1	-	8	1190	c.1116G>A	c.(1114-1116)GGG>GGA	p.G372G	FAM98A_uc010yne.1_Silent_p.G177G|FAM98A_uc010ynd.1_Silent_p.G203G|FAM98A_uc002roz.1_Silent_p.G210G	NM_015475	NP_056290	Q8NCA5	FA98A_HUMAN	hypothetical protein LOC25940	373	Gly-rich.									ovary(1)	1	all_hematologic(175;0.115)					CTCTTCCTCCCCCTCGGCCAC	0.562													16	134	---	---	---	---	PASS	T	33810284	T	T	33810284	2	4	100	1	0	0	0	0	0	0	0	1	5656	610	22	3		3	FAM98A	2	33810284	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	2343023	33810284	209389089	54	37406										
SOS1	6654	broad.mit.edu	37	chr2	39250233	39250233	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	acgtgtaagagttccttccaTtataaattcattacaacact	4	9	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:39250233T>A	uc002rrk.3	-	10	1377	c.1336A>T	c.(1336-1338)ATG>TTG	p.M446L	SOS1_uc010ynr.1_RNA|SOS1_uc002rrj.3_Missense_Mutation_p.M60L|SOS1_uc002rrl.2_Missense_Mutation_p.M178L	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	446	PH.				apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				GTTCCTTCCATTATAAATTCA	0.388									Noonan_syndrome				57	122	---	---	---	---	PASS	A	39250233	A	A	39250233	3	1	100	1	0	0	0	0	1	0	0	0	14936	1493	52	5	2721	5	SOS1	2	39250233	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	5439949	39250233	203949140	55	37407										
DYSF	8291	broad.mit.edu	37	chr2	71892406	71892406	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	acagaccgtgtaatgtttcaGgataaagaatattccattga	8	6	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:71892406G>T	uc002sie.2	+	46	5548	c.5172G>T	c.(5170-5172)CAG>CAT	p.Q1724H	DYSF_uc010feg.2_Missense_Mutation_p.Q1755H|DYSF_uc010feh.2_Missense_Mutation_p.Q1731H|DYSF_uc002sig.3_Missense_Mutation_p.Q1710H|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.Q1745H|DYSF_uc010fef.2_Missense_Mutation_p.Q1762H|DYSF_uc010fei.2_Missense_Mutation_p.Q1741H|DYSF_uc010fek.2_Missense_Mutation_p.Q1742H|DYSF_uc010fej.2_Missense_Mutation_p.Q1732H|DYSF_uc010fel.2_Missense_Mutation_p.Q1711H|DYSF_uc010feo.2_Missense_Mutation_p.Q1756H|DYSF_uc010fem.2_Missense_Mutation_p.Q1746H|DYSF_uc010fen.2_Missense_Mutation_p.Q1763H|DYSF_uc002sif.2_Missense_Mutation_p.Q1725H|DYSF_uc010yqy.1_Missense_Mutation_p.Q605H|DYSF_uc010yqz.1_Missense_Mutation_p.Q485H	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1724	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						TAATGTTTCAGGATAAAGAAT	0.557													37	92	---	---	---	---	PASS	T	71892406	T	T	71892406	3	4	100	1	0	0	0	0	1	0	0	0	4859	991	35	3	5613	3	DYSF	2	71892406	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	32642173	71892406	171306967	56	37408										
ALMS1	7840	broad.mit.edu	37	chr2	73613263	73613263	+	Frame_Shift_Del	DEL	T	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	caccccggcaggattttgccTccgctgtcgcccccgcagca							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:73613263delT	uc002sje.1	+	2	381	c.270delT	c.(268-270)CCTfs	p.P90fs	ALMS1_uc002sjf.1_Frame_Shift_Del_p.P89fs	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	89					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GGATTTTGCCTCCGCTGTCGC	0.697													4	2	---	---	---	---		-	73613263	-	-	73613263	7	5	100	1	0	1	0	1	0	0	0	0	535	1538	54	0	269	0	ALMS1	2	73613263	Frame_Shift_Del	DEL	T	TCGA-43-6143-01A-11D-1817-08	1720857	73613263	169586110	57	37409										
C2orf65	130951	broad.mit.edu	37	chr2	74785924	74785924	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttgctggctgctggcatcttGgaggctctgcctgggacagg	16	10	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:74785924G>T	uc002smy.2	-	11	1629	c.1512C>A	c.(1510-1512)TCC>TCA	p.S504S	C2orf65_uc010ysa.1_Silent_p.S500S|C2orf65_uc010ffp.2_Silent_p.S153S|C2orf65_uc002smx.2_Silent_p.S256S	NM_138804	NP_620159	Q8TC57	CB065_HUMAN	hypothetical protein LOC130951	504					chromatin assembly|female gamete generation|RNA processing|spermatogenesis	integral to membrane				ovary(1)|pancreas(1)	2						CTGGCATCTTGGAGGCTCTGC	0.592													87	55	---	---	---	---	PASS	T	74785924	T	T	74785924	2	4	100	1	0	0	0	0	0	0	0	1	2184	1335	47	3		3	C2orf65	2	74785924	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	1172661	74785924	168413449	58	37410										
REG3G	130120	broad.mit.edu	37	chr2	79254169	79254169	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccccctcaaagctggcttgcCagaagcggccctctggaaaa	10	15	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:79254169C>T	uc002snw.2	+	4	290	c.205C>T	c.(205-207)CAG>TAG	p.Q69*	REG3G_uc002snx.2_Nonsense_Mutation_p.Q69*|REG3G_uc010ffu.2_Intron	NM_198448	NP_940850	Q6UW15	REG3G_HUMAN	regenerating islet-derived 3 gamma precursor	69	C-type lectin.				acute-phase response	extracellular region	sugar binding				0						GCTGGCTTGCCAGAAGCGGCC	0.547													58	166	---	---	---	---	PASS	T	79254169	T	T	79254169	4	4	100	1	0	0	0	0	0	1	0	0	13213	595	21	3	215	3	REG3G	2	79254169	Nonsense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	4468245	79254169	163945204	59	37411										
ANAPC1	64682	broad.mit.edu	37	chr2	112536327	112536327	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tcatagagtactgaagaaaaGagatccagaatttcctgttt	8	6	1	5			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:112536327G>C	uc002thi.2	-	45	5557	c.5310C>G	c.(5308-5310)CTC>CTG	p.L1770L		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	1770					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						CTGAAGAAAAGAGATCCAGAA	0.383													20	68	---	---	---	---	PASS	C	112536327	C	C	112536327	2	2	100	1	0	0	0	0	0	0	0	1	598	929	33	2		2	ANAPC1	2	112536327	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	33282158	112536327	130663046	60	37412										
INSIG2	51141	broad.mit.edu	37	chr2	118865897	118865897	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agaaaaatctcatcaggaatGaagaaggcaaaaaatatctt	7	5	3	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:118865897G>A	uc002tlk.2	+	6	883	c.677G>A	c.(676-678)TGA>TAA	p.*226*	INSIG2_uc010yye.1_Silent_p.*118*|INSIG2_uc002tll.2_Missense_Mutation_p.E85K	NM_016133	NP_057217	Q9Y5U4	INSI2_HUMAN	insulin induced protein 2	226					ER-nuclear sterol response pathway	SREBP-SCAP-Insig complex				ovary(1)|central_nervous_system(1)	2						CATCAGGAATGAAGAAGGCAA	0.318													16	68	---	---	---	---	PASS	A	118865897	A	A	118865897	2	1	100	1	0	0	0	0	0	0	0	1	7766	1285	45	2		2	INSIG2	2	118865897	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	6329570	118865897	124333476	61	37413										
CLASP1	23332	broad.mit.edu	37	chr2	122285374	122285374	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tcaggctcatcccagacttaCgcattgagtgttgctataag	9	10	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:122285374C>G	uc002tnc.2	-	5	860	c.470_splice	c.e5+1	p.A157_splice	CLASP1_uc010yyy.1_Splice_Site|CLASP1_uc010yyz.1_Splice_Site_p.A157_splice|CLASP1_uc010yza.1_Splice_Site_p.A157_splice|CLASP1_uc010yzb.1_Splice_Site|CLASP1_uc010yzc.1_Intron|CLASP1_uc002tng.1_Splice_Site_p.A157_splice	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1						axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					CCCAGACTTACGCATTGAGTG	0.318													39	24	---	---	---	---	PASS	G	122285374	G	G	122285374	5	3	100	1	0	0	0	0	0	0	1	0	3454	550	19	4	4341	4	CLASP1	2	122285374	Splice_Site	SNP	C	TCGA-43-6143-01A-11D-1817-08	3419477	122285374	120913999	62	37414										
GPR17	2840	broad.mit.edu	37	chr2	128409093	128409093	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gctccgtctacgtgctgcacTaccgcagccatggggcctcc	11	17	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:128409093T>A	uc010yzn.1	+	4	1479	c.868T>A	c.(868-870)TAC>AAC	p.Y290N	LIMS2_uc002tox.2_Intron|LIMS2_uc010fmb.2_Intron|LIMS2_uc002toy.2_Intron|LIMS2_uc010yzm.1_Intron|LIMS2_uc002tpa.2_Intron|LIMS2_uc002toz.2_Intron|LIMS2_uc002tpb.2_Intron|GPR17_uc002tpc.2_Missense_Mutation_p.Y290N|GPR17_uc010yzo.1_Missense_Mutation_p.Y262N|GPR17_uc002tpd.2_Missense_Mutation_p.Y262N	NM_001161415	NP_001154887	Q13304	GPR17_HUMAN	G protein-coupled receptor 17 isoform a	290	Extracellular (Potential).					integral to plasma membrane	chemokine receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	Colorectal(110;0.1)	Ovarian(717;0.15)		BRCA - Breast invasive adenocarcinoma(221;0.0677)		CGTGCTGCACTACCGCAGCCA	0.642													33	5	---	---	---	---	PASS	A	128409093	A	A	128409093	3	1	100	1	0	0	0	0	1	0	0	0	6667	1522	53	5	874	5	GPR17	2	128409093	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	6123719	128409093	114790280	63	37415										
THSD7B	80731	broad.mit.edu	37	chr2	138373750	138373750	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctctgattttaatagtcatgCgatccccacacaatgcagag	7	11	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:138373750C>G	uc002tva.1	+	17	3342	c.3342C>G	c.(3340-3342)TGC>TGG	p.C1114W	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AATAGTCATGCGATCCCCACA	0.413													112	17	---	---	---	---	PASS	G	138373750	G	G	138373750	3	3	100	1	0	0	0	0	1	0	0	0	15877	776	27	4	3407	4	THSD7B	2	138373750	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	9964657	138373750	104825623	64	37416										
THSD7B	80731	broad.mit.edu	37	chr2	138373770	138373770	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cgatccccacacaatgcagaGaagaactcgccacctgctaa	7	15	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:138373770G>A	uc002tva.1	+	17	3362	c.3362G>A	c.(3361-3363)AGA>AAA	p.R1121K	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		ACAATGCAGAGAAGAACTCGC	0.418													135	18	---	---	---	---	PASS	A	138373770	A	A	138373770	3	1	100	1	0	0	0	0	1	0	0	0	15877	942	33	2	3427	2	THSD7B	2	138373770	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	20	138373770	104825603	65	37417										
MBD5	55777	broad.mit.edu	37	chr2	149227683	149227683	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	caatagtaccccgggttgtgGggcctcaaatactgctttgc	11	11	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:149227683G>A	uc002twm.3	+	9	3159	c.2171G>A	c.(2170-2172)GGG>GAG	p.G724E	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.G724E|MBD5_uc002twn.1_Missense_Mutation_p.G165E	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	724						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		CCGGGTTGTGGGGCCTCAAAT	0.453													21	67	---	---	---	---	PASS	A	149227683	A	A	149227683	3	1	100	1	0	0	0	0	1	0	0	0	9347	1232	43	3	2185	3	MBD5	2	149227683	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	10853913	149227683	93971690	66	37418										
SCN7A	6332	broad.mit.edu	37	chr2	167304128	167304128	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atttagtactttaccttcctTatgtctgagagtagcatctt	6	8	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:167304128T>G	uc002udu.1	-	11	1508	c.1381A>C	c.(1381-1383)AAG>CAG	p.K461Q	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	461					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TTACCTTCCTTATGTCTGAGA	0.343													103	13	---	---	---	---	PASS	G	167304128	G	G	167304128	3	3	100	1	0	0	0	0	1	0	0	0	13923	1763	61	5	3727	5	SCN7A	2	167304128	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	18076445	167304128	75895245	67	37419										
TTN	7273	broad.mit.edu	37	chr2	179509320	179509320	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttctggaacctgaggtttttCaggaactttcttctttggaa	9	7	4	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:179509320C>G	uc010zfg.1	-	167	32952	c.32728G>C	c.(32728-32730)GAA>CAA	p.E10910Q	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc010fre.1_Intron|TTN_uc002umw.1_RNA|TTN_uc002umx.1_Missense_Mutation_p.E177Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11837							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)			TGAGGTTTTTCAGGAACTTTC	0.333													6	24	---	---	---	---	PASS	G	179509320	G	G	179509320	3	3	100	1	0	0	0	0	1	0	0	0	16732	835	29	2	67841	2	TTN	2	179509320	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	12205192	179509320	63690053	68	37420										
C2orf69	205327	broad.mit.edu	37	chr2	200790045	200790045	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gttaatgcttttaatttaagTcagaatagtttatcaaagaa	6	3	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:200790045T>C	uc010zhb.1	+	2	777	c.594T>C	c.(592-594)AGT>AGC	p.S198S		NM_153689	NP_710156	Q8N8R5	CB069_HUMAN	hypothetical protein LOC205327 precursor	198						extracellular region				central_nervous_system(1)	1						TTAATTTAAGTCAGAATAGTT	0.343													149	6	---	---	---	---	PASS	C	200790045	C	C	200790045	2	2	100	1	0	0	0	0	0	0	0	1	2188	1664	58	5		5	C2orf69	2	200790045	Silent	SNP	T	TCGA-43-6143-01A-11D-1817-08	21280725	200790045	42409328	69	37421										
KLF7	8609	broad.mit.edu	37	chr2	207988717	207988717	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cacctttacggagctgagagCagccttcttggccaccagtt	10	13	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:207988717C>A	uc002vbz.1	-	2	836	c.514G>T	c.(514-516)GCT>TCT	p.A172S	KLF7_uc002vca.1_Missense_Mutation_p.A172S|KLF7_uc010zix.1_Missense_Mutation_p.A144S	NM_003709	NP_003700	O75840	KLF7_HUMAN	Kruppel-like factor 7 (ubiquitous)	172					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			central_nervous_system(1)|skin(1)	2				LUSC - Lung squamous cell carcinoma(261;0.0856)|Lung(261;0.166)|Epithelial(149;0.173)		GAGCTGAGAGCAGCCTTCTTG	0.612													110	10	---	---	---	---	PASS	A	207988717	A	A	207988717	3	1	100	1	0	0	0	0	1	0	0	0	8351	710	25	3	406	3	KLF7	2	207988717	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	7198672	207988717	35210656	70	37422										
FN1	2335	broad.mit.edu	37	chr2	216296604	216296604	+	Missense_Mutation	SNP	A	T	T													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tccattaccaagacacacacActctaacatgtaaccaccag							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:216296604A>T	uc002vfa.2	-	4	765	c.499T>A	c.(499-501)TGT>AGT	p.C167S	FN1_uc002vfb.2_Missense_Mutation_p.C167S|FN1_uc002vfc.2_Missense_Mutation_p.C167S|FN1_uc002vfd.2_Missense_Mutation_p.C167S|FN1_uc002vfe.2_Missense_Mutation_p.C167S|FN1_uc002vff.2_Missense_Mutation_p.C167S|FN1_uc002vfg.2_Missense_Mutation_p.C167S|FN1_uc002vfh.2_Missense_Mutation_p.C167S|FN1_uc002vfi.2_Missense_Mutation_p.C167S|FN1_uc002vfj.2_Missense_Mutation_p.C167S|FN1_uc002vfl.2_Missense_Mutation_p.C167S	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	167	Fibrin- and heparin-binding 1.|Fibronectin type-I 3.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGACACACACACTCTAACATG	0.498													222	12	---	---	---	---	PASS	T	216296604	T	T	216296604	3	4	100	1	0	0	0	0	1	0	0	0	5962	159	6	5	7139	5	FN1	2	216296604	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	8307887	216296604	26902769	71	37423	694	2								
FN1	2335	broad.mit.edu	37	chr2	216296609	216296609	+	Nonsense_Mutation	SNP	A	C	C													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	taccaagacacacacactctAacatgtaaccaccagtctca							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:216296609A>C	uc002vfa.2	-	4	760	c.494T>G	c.(493-495)TTA>TGA	p.L165*	FN1_uc002vfb.2_Nonsense_Mutation_p.L165*|FN1_uc002vfc.2_Nonsense_Mutation_p.L165*|FN1_uc002vfd.2_Nonsense_Mutation_p.L165*|FN1_uc002vfe.2_Nonsense_Mutation_p.L165*|FN1_uc002vff.2_Nonsense_Mutation_p.L165*|FN1_uc002vfg.2_Nonsense_Mutation_p.L165*|FN1_uc002vfh.2_Nonsense_Mutation_p.L165*|FN1_uc002vfi.2_Nonsense_Mutation_p.L165*|FN1_uc002vfj.2_Nonsense_Mutation_p.L165*|FN1_uc002vfl.2_Nonsense_Mutation_p.L165*	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	165	Fibrin- and heparin-binding 1.|Fibronectin type-I 3.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CACACACTCTAACATGTAACC	0.483													233	15	---	---	---	---	PASS	C	216296609	C	C	216296609	4	2	100	1	0	0	0	0	0	1	0	0	5962	372	13	5	7144	5	FN1	2	216296609	Nonsense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	5	216296609	26902764	72	37424	694	2								
ZNF142	7701	broad.mit.edu	37	chr2	219513804	219513804	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gctctgctgcggctgctgccGtgtggctcttgaggtgctcc	15	13	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:219513804G>A	uc002vin.2	-	6	1263	c.827C>T	c.(826-828)ACG>ATG	p.T276M	ZNF142_uc002vil.2_Missense_Mutation_p.T237M|ZNF142_uc010fvt.2_Missense_Mutation_p.T113M|ZNF142_uc002vim.2_Missense_Mutation_p.T113M	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	276					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		GGCTGCTGCCGTGTGGCTCTT	0.572											OREG0015202	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	60	---	---	---	---	PASS	A	219513804	A	A	219513804	3	1	100	1	0	0	0	0	1	0	0	0	17728	1145	40	1	4256	1	ZNF142	2	219513804	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	3217195	219513804	23685569	73	37425										
CCDC108	255101	broad.mit.edu	37	chr2	219878062	219878062	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aagtgcacatacttctgctcCggcttcactgtcacacctat	6	14	3	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:219878062C>A	uc002vjl.1	-	24	3960	c.3876G>T	c.(3874-3876)CCG>CCT	p.P1292P		NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	1292						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACTTCTGCTCCGGCTTCACTG	0.532													45	3	---	---	---	---	PASS	A	219878062	A	A	219878062	2	1	100	1	0	0	0	0	0	0	0	1	2743	639	23	1		1	CCDC108	2	219878062	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	364258	219878062	23321311	74	37426										
ABCB6	10058	broad.mit.edu	37	chr2	220075486	220075486	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gatggtgcgggcaatggcgaCgcgctgcttctccccgccgc	15	15	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:220075486C>T	uc002vkc.1	-	16	2480	c.2203G>A	c.(2203-2205)GTC>ATC	p.V735I	ABCB6_uc010fwe.1_Missense_Mutation_p.V689I	NM_005689	NP_005680	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B, member 6	735	ABC transporter.				cadmium ion transmembrane transport|cellular iron ion homeostasis|detoxification of cadmium ion|porphyrin biosynthetic process	ATP-binding cassette (ABC) transporter complex|Golgi apparatus|integral to mitochondrial outer membrane|plasma membrane|vacuolar membrane	ATP binding|efflux transmembrane transporter activity|heme binding|heme-transporting ATPase activity			breast(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;1.22e-06)|all cancers(144;0.000201)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCAATGGCGACGCGCTGCTTC	0.612													13	46	---	---	---	---	PASS	T	220075486	T	T	220075486	3	4	100	1	0	0	0	0	1	0	0	0	45	536	19	1	341	1	ABCB6	2	220075486	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	197424	220075486	23123887	75	37427										
INHA	3623	broad.mit.edu	37	chr2	220439825	220439826	+	Frame_Shift_Ins	INS	-	G	G													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggaccagaccacccagtggaINSggggagagagcccgacgctc					rs12720061	byFrequency	TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:220439825_220439826insG	uc002vmk.1	+	2	822_823	c.678_679insG	c.(676-681)GGAGGGfs	p.G226fs		NM_002191	NP_002182	P05111	INHA_HUMAN	inhibin alpha subunit precursor	226_227					cell cycle arrest|cell surface receptor linked signaling pathway|cell-cell signaling|erythrocyte differentiation|hemoglobin biosynthetic process|induction of apoptosis|negative regulation of B cell differentiation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|regulation of cell proliferation|response to external stimulus|skeletal system development	inhibin A complex|inhibin-betaglycan-ActRII complex	cytokine activity|growth factor activity|hormone activity|signal transducer activity			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;4.58e-07)|all cancers(144;4.31e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		CACCCAGTGGAGGGGAGAGAGC	0.683													10	48	---	---	---	---		G	220439826	G	G	220439825	7	5	100	1	0	1	1	0	0	0	0	0	7740	291	11	0	684	0	INHA	2	220439825	Frame_Shift_Ins	INS	-	TCGA-43-6143-01A-11D-1817-08	364339	220439825	22759548	76	37428										
SLC4A3	6508	broad.mit.edu	37	chr2	220494096	220494096	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aagaggaaggagaatctgagGcagaacctgtggagcccccc	14	10	1	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:220494096G>T	uc002vmp.3	+	4	717	c.448G>T	c.(448-450)GCA>TCA	p.A150S	SLC4A3_uc002vmn.2_Missense_Mutation_p.A150S|SLC4A3_uc002vmo.3_Missense_Mutation_p.A150S|SLC4A3_uc010fwm.2_5'UTR|SLC4A3_uc010fwn.1_5'Flank	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	150	Cytoplasmic.				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGAATCTGAGGCAGAACCTGT	0.547													27	3	---	---	---	---	PASS	T	220494096	T	T	220494096	3	4	100	1	0	0	0	0	1	0	0	0	14655	1203	42	3	458	3	SLC4A3	2	220494096	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	54271	220494096	22705277	77	37429										
SP140	11262	broad.mit.edu	37	chr2	231159004	231159004	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agaatggatttctgcctgatCctccaagaatacgttacagg	9	9	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:231159004C>T	uc002vql.2	+	21	2102	c.1987C>T	c.(1987-1989)CCT>TCT	p.P663S	SP140_uc010zma.1_RNA|SP140_uc002vqn.2_Missense_Mutation_p.P549S|SP140_uc002vqm.2_Missense_Mutation_p.P603S|SP140_uc010fxl.2_Missense_Mutation_p.P636S	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	663					defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		TCTGCCTGATCCTCCAAGAAT	0.363													26	15	---	---	---	---	PASS	T	231159004	T	T	231159004	3	4	100	1	0	0	0	0	1	0	0	0	14962	855	30	2	2186	2	SP140	2	231159004	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	10664908	231159004	12040369	78	37430										
DTYMK	1841	broad.mit.edu	37	chr2	242625274	242625274	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agtaggaactcagaagtttgCcgatttcagttgatctttct	9	7	4	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr2:242625274C>T	uc002wbz.1	-	2	178	c.149G>A	c.(148-150)GGC>GAC	p.G50D	DTYMK_uc010zpa.1_Missense_Mutation_p.G50D|DTYMK_uc010zpb.1_RNA|DTYMK_uc002wca.1_RNA	NM_012145	NP_036277	P23919	KTHY_HUMAN	deoxythymidylate kinase (thymidylate kinase)	50					cell cycle|cell proliferation|nucleobase, nucleoside and nucleotide interconversion	cytosol	ATP binding|nucleoside phosphate kinase activity|thymidylate kinase activity				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.6e-33)|all cancers(36;3.57e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.23e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0825)		CAGAAGTTTGCCGATTTCAGT	0.388													4	120	---	---	---	---	PASS	T	242625274	T	T	242625274	3	4	100	1	0	0	0	0	1	0	0	0	4798	739	26	3	505	3	DTYMK	2	242625274	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	11466270	242625274	574099	79	37431										
FGD5	152273	broad.mit.edu	37	chr3	14941937	14941937	+	Missense_Mutation	SNP	C	T	T													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aaacaacctttgtccggactCcgccgagtacgacaacacac							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:14941937C>T	uc003bzc.2	+	8	3292	c.3182C>T	c.(3181-3183)TCC>TTC	p.S1061F	FGD5_uc011avk.1_Missense_Mutation_p.S1061F|FGD5_uc003bzd.2_Missense_Mutation_p.S139F	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	1061	DH.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						TGTCCGGACTCCGCCGAGTAC	0.587													9	14	---	---	---	---	PASS	T	14941937	T	T	14941937	3	4	100	1	0	0	0	0	1	0	0	0	5836	855	30	2	3212	2	FGD5	3	14941937	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08		14941937	183080493	80	37432	695	2								
FGD5	152273	broad.mit.edu	37	chr3	14941938	14941938	+	Silent	SNP	C	T	T													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aacaacctttgtccggactcCgccgagtacgacaacacaca							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:14941938C>T	uc003bzc.2	+	8	3293	c.3183C>T	c.(3181-3183)TCC>TCT	p.S1061S	FGD5_uc011avk.1_Silent_p.S1061S|FGD5_uc003bzd.2_Silent_p.S139S	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	1061	DH.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						GTCCGGACTCCGCCGAGTACG	0.582													9	14	---	---	---	---	PASS	T	14941938	T	T	14941938	2	4	100	1	0	0	0	0	0	0	0	1	5836	639	23	1		1	FGD5	3	14941938	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	1	14941938	183080492	81	37433	695	2								
KAT2B	8850	broad.mit.edu	37	chr3	20082244	20082244	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tccgcgggccaagaaactggAgaaactcggagtgtactccg	13	11	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:20082244A>G	uc003cbq.2	+	1	721	c.275A>G	c.(274-276)GAG>GGG	p.E92G		NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	92					cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AAGAAACTGGAGAAACTCGGA	0.647													16	3	---	---	---	---	PASS	G	20082244	G	G	20082244	3	3	100	1	0	0	0	0	1	0	0	0	7982	304	11	5	277	5	KAT2B	3	20082244	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	5140306	20082244	177940186	82	37434										
ARPP21	10777	broad.mit.edu	37	chr3	35748492	35748492	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcaaaggttttgtgaacattTaaaagatgaaaaaggtgaag	11	2	0	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:35748492T>C	uc003cgb.2	+	10	977	c.713T>C	c.(712-714)TTA>TCA	p.L238S	ARPP21_uc003cga.2_Missense_Mutation_p.L238S|ARPP21_uc011axy.1_Missense_Mutation_p.L238S|ARPP21_uc003cgf.2_Missense_Mutation_p.L74S	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	238						cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						TGTGAACATTTAAAAGATGAA	0.333													72	18	---	---	---	---	PASS	C	35748492	C	C	35748492	3	2	100	1	0	0	0	0	1	0	0	0	978	1764	61	5	756	5	ARPP21	3	35748492	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	15666248	35748492	162273938	83	37435										
MAP4	4134	broad.mit.edu	37	chr3	47957950	47957950	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccttggtcaagatcacgttgGtttccgggggcagtgtcatg	14	9	3	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:47957950G>C	uc003csb.2	-	7	1893	c.1367C>G	c.(1366-1368)ACC>AGC	p.T456S	MAP4_uc003csc.3_Missense_Mutation_p.T456S|MAP4_uc011bbf.1_Missense_Mutation_p.T433S|MAP4_uc003csf.3_Missense_Mutation_p.T473S	NM_002375	NP_002366	P27816	MAP4_HUMAN	microtubule-associated protein 4 isoform 1	456	12.|17 X 14 AA tandem repeats.				negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000721)|KIRC - Kidney renal clear cell carcinoma(197;0.00641)|Kidney(197;0.00736)		GATCACGTTGGTTTCCGGGGG	0.517													51	7	---	---	---	---	PASS	C	47957950	C	C	47957950	3	2	100	1	0	0	0	0	1	0	0	0	9258	1261	44	4	3502	4	MAP4	3	47957950	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	12209458	47957950	150064480	84	37436										
CACNA2D2	9254	broad.mit.edu	37	chr3	50403720	50403720	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggtcccactgatggttctggTttgacagcaccaggaatcct	11	11	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:50403720T>C	uc003daq.2	-	32	2746	c.2708A>G	c.(2707-2709)AAC>AGC	p.N903S	CACNA2D2_uc003dap.2_Missense_Mutation_p.N896S|CACNA2D2_uc003dao.2_5'Flank	NM_006030	NP_006021	Q9NY47	CA2D2_HUMAN	calcium channel, voltage-dependent, alpha	903	Extracellular (Potential).				energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000365)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)	Gabapentin(DB00996)	ATGGTTCTGGTTTGACAGCAC	0.547													91	23	---	---	---	---	PASS	C	50403720	C	C	50403720	3	2	100	1	0	0	0	0	1	0	0	0	2549	1725	60	5	782	5	CACNA2D2	3	50403720	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	2445770	50403720	147618710	85	37437										
OR5H1	26341	broad.mit.edu	37	chr3	97851543	97851543	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gagggcatgctgtgaggacaTggaagaggaaaatgcaacat	15	5	0	2	rs150362159	byFrequency	TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:97851543T>C	uc011bgt.1	+	1	2	c.2T>C	c.(1-3)ATG>ACG	p.M1T		NM_001005338	NP_001005338	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						TGTGAGGACATGGAAGAGGAA	0.398													82	97	---	---	---	---	PASS	C	97851543	C	C	97851543	3	2	100	1	0	0	0	0	1	0	0	0	11159	1478	51	5	4	5	OR5H1	3	97851543	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	47447823	97851543	100170887	86	37438										
OR5H1	26341	broad.mit.edu	37	chr3	97852069	97852069	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aactccaacatagtacatcaCatttactgtgacactatccc	3	13	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:97852069C>G	uc011bgt.1	+	1	528	c.528C>G	c.(526-528)CAC>CAG	p.H176Q		NM_001005338	NP_001005338	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H,	176	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						TAGTACATCACATTTACTGTG	0.318													36	45	---	---	---	---	PASS	G	97852069	G	G	97852069	3	3	100	1	0	0	0	0	1	0	0	0	11159	477	17	4	530	4	OR5H1	3	97852069	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	526	97852069	100170361	87	37439										
MYH15	22989	broad.mit.edu	37	chr3	108102447	108102447	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gaatatctgccataccttttTcccaaactctcttgctttaa	3	12	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:108102447T>C	uc003dxa.1	-	41	5878	c.5821A>G	c.(5821-5823)AAA>GAA	p.K1941E		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1941	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CATACCTTTTTCCCAAACTCT	0.358													30	142	---	---	---	---	PASS	C	108102447	C	C	108102447	3	2	100	1	0	0	0	0	1	0	0	0	10034	1792	62	5	27	5	MYH15	3	108102447	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	10250378	108102447	89919983	88	37440										
DPPA4	55211	broad.mit.edu	37	chr3	109049619	109049619	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cctttaattttttttgcaatGatttccggattttggcctct	6	8	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:109049619G>C	uc003dxq.3	-	5	486	c.431C>G	c.(430-432)TCA>TGA	p.S144*	DPPA4_uc011bho.1_Intron|DPPA4_uc011bhp.1_Nonsense_Mutation_p.S144*	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	144						nucleus	protein binding			upper_aerodigestive_tract(1)	1						TTTTTGCAATGATTTCCGGAT	0.403													59	62	---	---	---	---	PASS	C	109049619	C	C	109049619	4	2	100	1	0	0	0	0	0	1	0	0	4736	1294	45	2	495	2	DPPA4	3	109049619	Nonsense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	947172	109049619	88972811	89	37441										
SLC9A10	285335	broad.mit.edu	37	chr3	111887848	111887849	+	Frame_Shift_Del	DEL	CT	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cataaatatcagttttggtaCtcattggtatatctactaca							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:111887848_111887849delCT	uc003dyu.2	-	25	3334_3335	c.3112_3113delAG	c.(3112-3114)AGTfs	p.S1038fs	SLC9A10_uc011bhu.1_Frame_Shift_Del_p.S301fs|SLC9A10_uc010hqc.2_Frame_Shift_Del_p.S990fs	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	1038					cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						AGTTTTGGTACTCATTGGTATA	0.302													58	48	---	---	---	---		-	111887849	-	-	111887848	7	5	100	1	0	1	0	1	0	0	0	0	14710	565	20	0	440	0	SLC9A10	3	111887848	Frame_Shift_Del	DEL	CT	TCGA-43-6143-01A-11D-1817-08	2838229	111887848	86134582	90	37442										
PARP9	83666	broad.mit.edu	37	chr3	122259335	122259335	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tcacctaacgagcgccaaagGcctcgctcctttttccttgc	7	16	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:122259335G>A	uc010hri.2	-	8	1999	c.1854C>T	c.(1852-1854)GGC>GGT	p.G618G	PARP9_uc003eff.3_Silent_p.G583G|PARP9_uc011bjs.1_Silent_p.G583G|PARP9_uc003efg.2_Silent_p.G163G|PARP9_uc003efi.2_Silent_p.G583G|PARP9_uc003efh.2_Silent_p.G618G|PARP9_uc003efj.2_Silent_p.G583G	NM_001146102	NP_001139574	Q8IXQ6	PARP9_HUMAN	poly (ADP-ribose) polymerase family, member 9	618					cell migration	cytosol|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)|pancreas(1)|prostate(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0519)		AGCGCCAAAGGCCTCGCTCCT	0.438													34	42	---	---	---	---	PASS	A	122259335	A	A	122259335	2	1	100	1	0	0	0	0	0	0	0	1	11466	1190	42	3		3	PARP9	3	122259335	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	10371487	122259335	75763095	91	37443										
SEMA5B	54437	broad.mit.edu	37	chr3	122632069	122632069	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cggtgtcgcaggagccggagCcgtccgcgggacaggtcctc	17	14	0	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:122632069C>T	uc003efz.1	-	17	2787	c.2483G>A	c.(2482-2484)GGC>GAC	p.G828D	SEMA5B_uc011bju.1_Missense_Mutation_p.G770D|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.G828D|SEMA5B_uc010hro.1_Missense_Mutation_p.G770D|SEMA5B_uc003efy.1_5'Flank	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	828	Extracellular (Potential).				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		GGAGCCGGAGCCGTCCGCGGG	0.647													11	12	---	---	---	---	PASS	T	122632069	T	T	122632069	3	4	100	1	0	0	0	0	1	0	0	0	14038	739	26	3	1000	3	SEMA5B	3	122632069	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	372734	122632069	75390361	92	37444										
ALDH1L1	10840	broad.mit.edu	37	chr3	125856685	125856685	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gctgcactcgccctcctcatCgtcccctcgcagcttcctca	6	21	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:125856685C>T	uc003eim.1	-	10	1385	c.1195G>A	c.(1195-1197)GAT>AAT	p.D399N	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Missense_Mutation_p.D298N|ALDH1L1_uc003eio.2_Missense_Mutation_p.D101N|ALDH1L1_uc010hsf.1_Missense_Mutation_p.D425N	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	399					10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	CCCTCCTCATCGTCCCCTCGC	0.557													10	83	---	---	---	---	PASS	T	125856685	T	T	125856685	3	4	100	1	0	0	0	0	1	0	0	0	494	884	31	2	1569	2	ALDH1L1	3	125856685	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	3224616	125856685	72165745	93	37445										
EPHB1	2047	broad.mit.edu	37	chr3	134911454	134911454	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtacaaggggcgtttgaaacTgccaggcaagagggaaatct	14	7	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:134911454T>A	uc003eqt.2	+	11	2139	c.1919T>A	c.(1918-1920)CTG>CAG	p.L640Q	EPHB1_uc003equ.2_Missense_Mutation_p.L201Q	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	640	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						CGTTTGAAACTGCCAGGCAAG	0.522													17	20	---	---	---	---	PASS	A	134911454	A	A	134911454	3	1	100	1	0	0	0	0	1	0	0	0	5174	1580	55	5	1961	5	EPHB1	3	134911454	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	9054769	134911454	63110976	94	37446										
SOX14	8403	broad.mit.edu	37	chr3	137483941	137483941	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctgggcgacacggacccgctCaaggcggctggcctgcccgt	15	16	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:137483941C>G	uc003erm.1	+	1	363	c.315C>G	c.(313-315)CTC>CTG	p.L105L		NM_004189	NP_004180	O95416	SOX14_HUMAN	SRY-box 14	105					negative regulation of transcription from RNA polymerase II promoter|nervous system development|transcription, DNA-dependent	nucleus	sequence-specific DNA binding				0						CGGACCCGCTCAAGGCGGCTG	0.687													39	41	---	---	---	---	PASS	G	137483941	G	G	137483941	2	3	100	1	0	0	0	0	0	0	0	1	14945	813	29	2		2	SOX14	3	137483941	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	2572487	137483941	60538489	95	37447										
CHST2	9435	broad.mit.edu	37	chr3	142840409	142840409	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tcaccacgctgggcatcttcGgcgcagccaccaacaaggtg	11	15	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:142840409G>T	uc003evm.2	+	2	1640	c.751G>T	c.(751-753)GGC>TGC	p.G251C		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	251	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						GGGCATCTTCGGCGCAGCCAC	0.652													32	38	---	---	---	---	PASS	T	142840409	T	T	142840409	3	4	100	1	0	0	0	0	1	0	0	0	3404	1116	39	1	753	1	CHST2	3	142840409	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	5356468	142840409	55182021	96	37448										
P2RY14	9934	broad.mit.edu	37	chr3	150931768	150931768	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tctgtcaaagctgatgagccCaaagaacacaatgctgacgt	9	10	2	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:150931768C>G	uc003eyr.1	-	3	815	c.337G>C	c.(337-339)GGG>CGG	p.G113R	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY14_uc003eys.1_Missense_Mutation_p.G113R	NM_001081455	NP_001074924	Q15391	P2Y14_HUMAN	P2Y14 receptor	113	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled|UDP-activated nucleotide receptor activity			large_intestine(2)|ovary(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTGATGAGCCCAAAGAACACA	0.458													33	79	---	---	---	---	PASS	G	150931768	G	G	150931768	3	3	100	1	0	0	0	0	1	0	0	0	11351	594	21	4	683	4	P2RY14	3	150931768	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	8091359	150931768	47090662	97	37449										
MLF1	4291	broad.mit.edu	37	chr3	158322912	158322912	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	acctcaacaaagtccagccaTtgaacatggaaggagatcaa	8	10	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:158322912T>C	uc003fcb.2	+	7	865	c.728T>C	c.(727-729)ATT>ACT	p.I243T	MLF1_uc003fbz.2_Missense_Mutation_p.I218T|MLF1_uc003fca.2_Missense_Mutation_p.I218T|MLF1_uc003fbx.2_Missense_Mutation_p.I233T|MLF1_uc003fcc.2_Missense_Mutation_p.I274T|MLF1_uc003fby.2_Missense_Mutation_p.I169T|MLF1_uc010hvx.2_Missense_Mutation_p.I175T	NM_022443	NP_071888	P58340	MLF1_HUMAN	myeloid leukemia factor 1 isoform 1	243					cell cycle arrest|myeloid progenitor cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein domain specific binding				0		Melanoma(1037;0.000458)|Prostate(884;0.0235)|all_neural(597;0.0299)	Lung(72;0.00199)|LUSC - Lung squamous cell carcinoma(72;0.00256)			AGTCCAGCCATTGAACATGGA	0.333			T	NPM1	AML								68	22	---	---	---	---	PASS	C	158322912	C	C	158322912	3	2	100	1	0	0	0	0	1	0	0	0	9614	1493	52	5	754	5	MLF1	3	158322912	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	7391144	158322912	39699518	98	37450										
ZBBX	79740	broad.mit.edu	37	chr3	167016199	167016199	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aagaatctctcaagtccttgAtattgttttgttataggctt	7	6	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:167016199A>T	uc003fep.2	-	18	2096	c.1773T>A	c.(1771-1773)TAT>TAA	p.Y591*	ZBBX_uc011bpc.1_Nonsense_Mutation_p.Y591*|ZBBX_uc003feq.2_Nonsense_Mutation_p.Y562*	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	591						intracellular	zinc ion binding			ovary(2)	2						CAAGTCCTTGATATTGTTTTG	0.299													55	264	---	---	---	---	PASS	T	167016199	T	T	167016199	4	4	100	1	0	0	0	0	0	1	0	0	17513	340	12	5	645	5	ZBBX	3	167016199	Nonsense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	8693287	167016199	31006231	99	37451										
WDR49	151790	broad.mit.edu	37	chr3	167240178	167240178	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctaaacaagattcctccttaGaaaataaagaaatttccttt	3	8	0	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:167240178G>A	uc003fev.1	-	12	1949	c.1643C>T	c.(1642-1644)TCT>TTT	p.S548F	WDR49_uc003feu.1_Missense_Mutation_p.S373F|WDR49_uc011bpd.1_Intron|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	548										large_intestine(1)|ovary(1)|skin(1)	3						TTCCTCCTTAGAAAATAAAGA	0.308													5	185	---	---	---	---	PASS	A	167240178	A	A	167240178	3	1	100	1	0	0	0	0	1	0	0	0	17299	942	33	2	466	2	WDR49	3	167240178	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	223979	167240178	30782252	100	37452										
MECOM	2122	broad.mit.edu	37	chr3	168830641	168830641	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tttaaagcttcaagtgggtcAgttagttttcttttctctac	7	7	4	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:168830641A>G	uc003ffi.3	-	8	2216	c.1947T>C	c.(1945-1947)ACT>ACC	p.T649T	MECOM_uc010hwk.1_Silent_p.T672T|MECOM_uc003ffj.3_Silent_p.T714T|MECOM_uc011bpi.1_Silent_p.T650T|MECOM_uc003ffn.3_Silent_p.T649T|MECOM_uc003ffk.2_Silent_p.T649T|MECOM_uc003ffl.2_Silent_p.T809T|MECOM_uc011bpj.1_Silent_p.T837T|MECOM_uc011bpk.1_Silent_p.T639T|MECOM_uc010hwn.2_Silent_p.T837T	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	649					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						CAAGTGGGTCAGTTAGTTTTC	0.348													54	208	---	---	---	---	PASS	G	168830641	G	G	168830641	2	3	100	1	0	0	0	0	0	0	0	1	9422	175	7	5		5	MECOM	3	168830641	Silent	SNP	A	TCGA-43-6143-01A-11D-1817-08	1590463	168830641	29191789	101	37453										
TNFSF10	8743	broad.mit.edu	37	chr3	172224300	172224300	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agttagccaactaaaaaggcCccaaaaaaactggcttcatg	7	10	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:172224300C>A	uc003fid.2	-	5	923	c.828G>T	c.(826-828)GGG>GGT	p.G276G	TNFSF10_uc003fie.2_3'UTR	NM_003810	NP_003801	P50591	TNF10_HUMAN	tumor necrosis factor (ligand) superfamily,	276	Extracellular (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of apoptosis by extracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane|soluble fraction	cytokine activity|metal ion binding|tumor necrosis factor receptor binding			skin(4)|lung(1)	5	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.67e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			CTAAAAAGGCCCCAAAAAAAC	0.353													101	39	---	---	---	---	PASS	A	172224300	A	A	172224300	2	1	100	1	0	0	0	0	0	0	0	1	16298	610	22	3		3	TNFSF10	3	172224300	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	3393659	172224300	25798130	102	37454										
TTC14	151613	broad.mit.edu	37	chr3	180320683	180320683	+	Nonsense_Mutation	SNP	G	T	T													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tttttttctttttaagaaaaGagaagagagttgacaacatc							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:180320683G>T	uc003fkk.2	+	2	298	c.166G>T	c.(166-168)GAG>TAG	p.E56*	TTC14_uc003fkl.2_Nonsense_Mutation_p.E56*|TTC14_uc003fkm.2_Nonsense_Mutation_p.E56*	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	56							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TTTAAGAAAAGAGAAGAGAGT	0.383													12	81	---	---	---	---	PASS	T	180320683	T	T	180320683	4	4	100	1	0	0	0	0	0	1	0	0	16678	943	33	2	172	2	TTC14	3	180320683	Nonsense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	8096383	180320683	17701747	103	37455	696	2								
TTC14	151613	broad.mit.edu	37	chr3	180320684	180320684	+	Missense_Mutation	SNP	A	T	T													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttttttctttttaagaaaagAgaagagagttgacaacatcg							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:180320684A>T	uc003fkk.2	+	2	299	c.167A>T	c.(166-168)GAG>GTG	p.E56V	TTC14_uc003fkl.2_Missense_Mutation_p.E56V|TTC14_uc003fkm.2_Missense_Mutation_p.E56V	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	56							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TTAAGAAAAGAGAAGAGAGTT	0.378													14	82	---	---	---	---	PASS	T	180320684	T	T	180320684	3	4	100	1	0	0	0	0	1	0	0	0	16678	304	11	5	173	5	TTC14	3	180320684	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	1	180320684	17701746	104	37456	696	2								
AHSG	197	broad.mit.edu	37	chr3	186338466	186338466	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	acctccgtcccctccacttgGcgcacctggactccctccag	7	21	0	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:186338466G>A	uc003fqk.3	+	7	932	c.851G>A	c.(850-852)GGC>GAC	p.G284D	AHSG_uc003fql.3_Missense_Mutation_p.G285D|AHSG_uc003fqm.3_Missense_Mutation_p.G283D|AHSG_uc010hyp.2_Missense_Mutation_p.G247D	NM_001622	NP_001613	P02765	FETUA_HUMAN	alpha-2-HS-glycoprotein	284					acute-phase response|negative regulation of bone mineralization|negative regulation of insulin receptor signaling pathway|pinocytosis|positive regulation of phagocytosis|regulation of inflammatory response|skeletal system development	extracellular space	cysteine-type endopeptidase inhibitor activity|protein binding				0	all_cancers(143;3.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.27e-20)	GBM - Glioblastoma multiforme(93;0.0463)		CCTCCACTTGGCGCACCTGGA	0.637													39	258	---	---	---	---	PASS	A	186338466	A	A	186338466	3	1	100	1	0	0	0	0	1	0	0	0	420	1203	42	3	877	3	AHSG	3	186338466	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	6017782	186338466	11683964	105	37457										
CLDN1	9076	broad.mit.edu	37	chr3	190039819	190039819	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	actttgcactggatctgcccGgtgctctgcgacacgcagga	12	13	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr3:190039819G>A	uc003fsh.2	-	1	397	c.177C>T	c.(175-177)ACC>ACT	p.T59T		NM_021101	NP_066924	O95832	CLD1_HUMAN	claudin 1	59	Extracellular (Potential).				calcium-independent cell-cell adhesion|interspecies interaction between organisms	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity			lung(1)	1	all_cancers(143;2.95e-10)|Ovarian(172;0.0512)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.015)		GGATCTGCCCGGTGCTCTGCG	0.627													173	42	---	---	---	---	PASS	A	190039819	A	A	190039819	2	1	100	1	0	0	0	0	0	0	0	1	3471	1103	39	1		1	CLDN1	3	190039819	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	3701353	190039819	7982611	106	37458										
OTOP1	133060	broad.mit.edu	37	chr4	4190615	4190615	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcatggccaggttgaccacaAttatccagggttcaaagcca	10	11	1	1	rs147866723		TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:4190615A>T	uc003ghp.1	-	6	1784	c.1754T>A	c.(1753-1755)ATT>AAT	p.I585N		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	585	Helical; (Potential).				biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GTTGACCACAATTATCCAGGG	0.468													11	120	---	---	---	---	PASS	T	4190615	T	T	4190615	3	4	100	1	0	0	0	0	1	0	0	0	11305	101	4	5	88	5	OTOP1	4	4190615	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08		4190615	186963661	107	37459										
AFAP1	60312	broad.mit.edu	37	chr4	7844926	7844926	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cactggccgaaccgcttcttCcgcagcaggaaggcgcagat	12	14	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:7844926C>A	uc003gkg.1	-	5	759	c.486G>T	c.(484-486)CGG>CGT	p.R162R	AFAP1_uc011bwk.1_Silent_p.R162R	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	162	PH 1.					actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						ACCGCTTCTTCCGCAGCAGGA	0.547													30	82	---	---	---	---	PASS	A	7844926	A	A	7844926	2	1	100	1	0	0	0	0	0	0	0	1	353	842	30	2		2	AFAP1	4	7844926	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	3654311	7844926	183309350	108	37460										
GPR125	166647	broad.mit.edu	37	chr4	22438155	22438155	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aaagccacctctatcacatcTgcgccaagcttttctctcat	4	15	5	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:22438155T>C	uc003gqm.1	-	9	1460	c.1195A>G	c.(1195-1197)AGA>GGA	p.R399G	GPR125_uc010ieo.1_Missense_Mutation_p.R273G|GPR125_uc003gqn.1_Missense_Mutation_p.R173G|GPR125_uc003gqo.2_Missense_Mutation_p.R399G	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	399	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				CTATCACATCTGCGCCAAGCT	0.448													17	24	---	---	---	---	PASS	C	22438155	C	C	22438155	3	2	100	1	0	0	0	0	1	0	0	0	6639	1588	55	5	2814	5	GPR125	4	22438155	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	14593229	22438155	168716121	109	37461										
APBB2	323	broad.mit.edu	37	chr4	40936686	40936686	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttcaaactcttttaaactggGgtccgggttaacagtggctg	11	8	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:40936686G>A	uc003gvl.2	-	9	1765	c.1135C>T	c.(1135-1137)CCC>TCC	p.P379S	APBB2_uc010ifu.2_5'UTR|APBB2_uc003gvm.2_Missense_Mutation_p.P358S|APBB2_uc003gvn.2_Missense_Mutation_p.P380S|APBB2_uc011byt.1_Missense_Mutation_p.P341S	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	379					cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						TTTAAACTGGGGTCCGGGTTA	0.433													9	25	---	---	---	---	PASS	A	40936686	A	A	40936686	3	1	100	1	0	0	0	0	1	0	0	0	761	1232	43	3	1181	3	APBB2	4	40936686	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	18498531	40936686	150217590	110	37462										
GABRA4	2557	broad.mit.edu	37	chr4	46930469	46930469	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tatcctctgcagtcttgatcCaaacacgtgacgagtagaag	9	10	2	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:46930469C>G	uc003gxg.2	-	9	1577	c.1438G>C	c.(1438-1440)GGA>CGA	p.G480R		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	480	Cytoplasmic (Probable).				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			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	AGTCTTGATCCAAACACGTGA	0.493													37	63	---	---	---	---	PASS	G	46930469	G	G	46930469	3	3	100	1	0	0	0	0	1	0	0	0	6163	603	21	4	230	4	GABRA4	4	46930469	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	5993783	46930469	144223807	111	37463										
PPAT	5471	broad.mit.edu	37	chr4	57269556	57269556	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cttgtagacagaccaataccAtgacgcagaagctatataga	8	9	0	5			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:57269556A>G	uc003hbr.2	-	4	616	c.414T>C	c.(412-414)CAT>CAC	p.H138H		NM_002703	NP_002694	Q06203	PUR1_HUMAN	phosphoribosyl pyrophosphate amidotransferase	138	Glutamine amidotransferase type-2.				glutamine metabolic process|nucleoside metabolic process|purine base biosynthetic process|purine ribonucleoside monophosphate biosynthetic process	cytosol	4 iron, 4 sulfur cluster binding|amidophosphoribosyltransferase activity|metal ion binding				0	Glioma(25;0.08)|all_neural(26;0.101)				L-Glutamine(DB00130)|Thioguanine(DB00352)	GACCAATACCATGACGCAGAA	0.453													26	20	---	---	---	---	PASS	G	57269556	G	G	57269556	2	3	100	1	0	0	0	0	0	0	0	1	12302	214	8	5		5	PPAT	4	57269556	Silent	SNP	A	TCGA-43-6143-01A-11D-1817-08	10339087	57269556	133884720	112	37464										
TECRL	253017	broad.mit.edu	37	chr4	65147199	65147199	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ataaataacatacctcatagGtgtagttaggacatgaaacc	7	7	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:65147199G>A	uc003hcv.2	-	10	1020	c.911C>T	c.(910-912)ACC>ATC	p.T304I	TECRL_uc010ihi.2_RNA	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	304					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						TACCTCATAGGTGTAGTTAGG	0.299													27	17	---	---	---	---	PASS	A	65147199	A	A	65147199	3	1	100	1	0	0	0	0	1	0	0	0	15743	1261	44	3	192	3	TECRL	4	65147199	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	7877643	65147199	126007077	113	37465										
CENPC1	1060	broad.mit.edu	37	chr4	68385091	68385091	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cagaaggtgagccaacggatAagtaaaattcttcatcagct	9	8	3	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:68385091A>G	uc003hdd.1	-	6	644	c.461T>C	c.(460-462)TTA>TCA	p.L154S	CENPC1_uc010ihj.1_RNA|CENPC1_uc010ihk.1_RNA|CENPC1_uc010ihm.1_Missense_Mutation_p.L154S	NM_001812	NP_001803	Q03188	CENPC_HUMAN	centromere protein C 1	154					mitotic prometaphase	condensed chromosome kinetochore|condensed nuclear chromosome, centromeric region|cytosol	DNA binding			urinary_tract(1)|lung(1)	2						GCCAACGGATAAGTAAAATTC	0.353													56	49	---	---	---	---	PASS	G	68385091	G	G	68385091	3	3	100	1	0	0	0	0	1	0	0	0	3229	372	13	5	2426	5	CENPC1	4	68385091	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	3237892	68385091	122769185	114	37466										
SLC4A4	8671	broad.mit.edu	37	chr4	72222840	72222840	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	accaagaaatccaaccttcgGtccctggctgacattgggaa	9	12	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:72222840G>T	uc003hfy.2	+	6	783	c.666G>T	c.(664-666)CGG>CGT	p.R222R	SLC4A4_uc010iic.2_Silent_p.R222R|SLC4A4_uc010iib.2_Silent_p.R222R|SLC4A4_uc003hfz.2_Silent_p.R222R|SLC4A4_uc003hgc.3_Silent_p.R178R|SLC4A4_uc003hga.2_Silent_p.R100R|SLC4A4_uc003hgb.3_Silent_p.R178R	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	222	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			CCAACCTTCGGTCCCTGGCTG	0.478													56	47	---	---	---	---	PASS	T	72222840	T	T	72222840	2	4	100	1	0	0	0	0	0	0	0	1	14656	1248	44	3		3	SLC4A4	4	72222840	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	3837749	72222840	118931436	115	37467										
ANTXR2	118429	broad.mit.edu	37	chr4	80954705	80954705	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agcatgaatcctcttccactTaagacaatctgaaattcctc	4	12	2	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:80954705T>A	uc003hlz.3	-	9	1480	c.717A>T	c.(715-717)TTA>TTT	p.L239F	ANTXR2_uc003hly.3_Missense_Mutation_p.L239F|ANTXR2_uc003hlx.1_RNA|ANTXR2_uc010ijn.2_Intron	NM_001145794	NP_001139266	P58335	ANTR2_HUMAN	anthrax toxin receptor 2 isoform 2	239	Extracellular (Potential).					endoplasmic reticulum membrane|extracellular region|integral to membrane|plasma membrane	metal ion binding|protein binding|receptor activity			ovary(1)	1						CTCTTCCACTTAAGACAATCT	0.353									Juvenile_Hyaline_Fibromatosis				47	20	---	---	---	---	PASS	A	80954705	A	A	80954705	3	1	100	1	0	0	0	0	1	0	0	0	712	1751	61	5	827	5	ANTXR2	4	80954705	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	8731865	80954705	110199571	116	37468										
TACR3	6870	broad.mit.edu	37	chr4	104511076	104511076	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggatgaaacctggtggtcttGagctctagctcatcatagct	11	9	4	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:104511076G>T	uc003hxe.1	-	5	1304	c.1161C>A	c.(1159-1161)CTC>CTA	p.L387L		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	387	Cytoplasmic (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		TGGTGGTCTTGAGCTCTAGCT	0.493													29	72	---	---	---	---	PASS	T	104511076	T	T	104511076	2	4	100	1	0	0	0	0	0	0	0	1	15504	1277	45	2		2	TACR3	4	104511076	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	23556371	104511076	86643200	117	37469										
ANK2	287	broad.mit.edu	37	chr4	114284526	114284526	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aactggatttcactgaggagCaaattcatcaaattcgaatt	7	7	3	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:114284526C>G	uc003ibe.3	+	40	10889	c.10789C>G	c.(10789-10791)CAA>GAA	p.Q3597E	ANK2_uc003ibd.3_Missense_Mutation_p.Q1503E|ANK2_uc003ibf.3_Missense_Mutation_p.Q1512E|ANK2_uc011cgc.1_Missense_Mutation_p.Q688E|ANK2_uc003ibg.3_Missense_Mutation_p.Q496E|ANK2_uc003ibh.3_Missense_Mutation_p.Q186E|ANK2_uc011cgd.1_Missense_Mutation_p.Q899E	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3564	Death.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CACTGAGGAGCAAATTCATCA	0.378													29	23	---	---	---	---	PASS	G	114284526	G	G	114284526	3	3	100	1	0	0	0	0	1	0	0	0	621	711	25	4	11012	4	ANK2	4	114284526	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	9773450	114284526	76869750	118	37470										
PLRG1	5356	broad.mit.edu	37	chr4	155467044	155467044	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cccaggatgtcggtattcacTtccactaggggcagtacgat	11	11	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:155467044T>C	uc003iny.2	-	6	499	c.436A>G	c.(436-438)AGT>GGT	p.S146G	PLRG1_uc003inz.2_Missense_Mutation_p.S137G|PLRG1_uc011cil.1_5'UTR	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	146						catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				CGGTATTCACTTCCACTAGGG	0.428													17	17	---	---	---	---	PASS	C	155467044	C	C	155467044	3	2	100	1	0	0	0	0	1	0	0	0	12106	1609	56	5	1148	5	PLRG1	4	155467044	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	41182518	155467044	35687232	119	37471										
PDGFC	56034	broad.mit.edu	37	chr4	157732119	157732119	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cagtaccagaaccacaccagCgccctaatatagttccatca	5	15	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:157732119C>A	uc003iph.1	-	3	856	c.365G>T	c.(364-366)CGC>CTC	p.R122L	PDGFC_uc003ipi.1_5'UTR|PDGFC_uc011cis.1_5'UTR|PDGFC_uc011cir.1_5'UTR	NM_016205	NP_057289	Q9NRA1	PDGFC_HUMAN	platelet-derived growth factor C precursor	122	CUB.				central nervous system development|platelet-derived growth factor receptor signaling pathway|positive regulation of cell division|positive regulation of DNA replication|positive regulation of fibroblast proliferation|vascular endothelial growth factor receptor signaling pathway	endoplasmic reticulum lumen|extracellular space|Golgi membrane|nucleus	cell surface binding|growth factor activity|platelet-derived growth factor receptor binding|protein homodimerization activity			ovary(1)|lung(1)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.08)|Kidney(143;0.0977)|COAD - Colon adenocarcinoma(41;0.212)		ACCACACCAGCGCCCTAATAT	0.373													15	44	---	---	---	---	PASS	A	157732119	A	A	157732119	3	1	100	1	0	0	0	0	1	0	0	0	11659	768	27	1	688	1	PDGFC	4	157732119	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	2265075	157732119	33422157	120	37472										
RAPGEF2	9693	broad.mit.edu	37	chr4	160264516	160264516	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttcgtcacgttggccgaatgGcttcagtgaacatggaccct	11	11	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:160264516G>T	uc003iqg.3	+	16	3041	c.2731G>T	c.(2731-2733)GCT>TCT	p.A911S		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	911	Ras-GEF.				cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		TGGCCGAATGGCTTCAGTGAA	0.453													31	67	---	---	---	---	PASS	T	160264516	T	T	160264516	3	4	100	1	0	0	0	0	1	0	0	0	13044	1203	42	3	2793	3	RAPGEF2	4	160264516	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	2532397	160264516	30889760	121	37473										
RAPGEF2	9693	broad.mit.edu	37	chr4	160274061	160274061	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aacctgatcagtatagcttgGggtaggtggctctttttaat	11	6	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr4:160274061G>T	uc003iqg.3	+	21	3917	c.3607G>T	c.(3607-3609)GGG>TGG	p.G1203W		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1203					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GTATAGCTTGGGGTAGGTGGC	0.408													15	11	---	---	---	---	PASS	T	160274061	T	T	160274061	3	4	100	1	0	0	0	0	1	0	0	0	13044	1246	43	3	3689	3	RAPGEF2	4	160274061	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	9545	160274061	30880215	122	37474										
IRX1	79192	broad.mit.edu	37	chr5	3599553	3599553	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gggcgagaagatcatgctggCcatcatcaccaagatgaccc	11	12	3	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:3599553C>A	uc003jde.2	+	2	543	c.491C>A	c.(490-492)GCC>GAC	p.A164D		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	164	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						ATCATGCTGGCCATCATCACC	0.632													20	130	---	---	---	---	PASS	A	3599553	A	A	3599553	3	1	100	1	0	0	0	0	1	0	0	0	7843	739	26	3	497	3	IRX1	5	3599553	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08		3599553	177315707	123	37475										
CCT5	22948	broad.mit.edu	37	chr5	10250467	10250467	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgcaccatggcgtccatgggGaccctcgccttcgatgaata	11	13	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:10250467G>T	uc003jeq.2	+	1	186	c.15G>T	c.(13-15)GGG>GGT	p.G5G	FAM173B_uc003jeo.2_5'Flank|FAM173B_uc003jep.2_5'Flank|FAM173B_uc010itr.2_5'Flank|CCT5_uc011cmq.1_5'UTR|CCT5_uc003jer.2_Silent_p.G5G|CCT5_uc010its.2_Silent_p.G5G|CCT5_uc011cmr.1_Silent_p.G5G|CCT5_uc011cms.1_5'Flank|CCT5_uc011cmt.1_5'Flank	NM_012073	NP_036205	P48643	TCPE_HUMAN	chaperonin containing TCP1, subunit 5 (epsilon)	5					'de novo' posttranslational protein folding|response to virus	microtubule organizing center|nucleolus	ATP binding|unfolded protein binding			ovary(2)	2						CGTCCATGGGGACCCTCGCCT	0.582													19	24	---	---	---	---	PASS	T	10250467	T	T	10250467	2	4	100	1	0	0	0	0	0	0	0	1	2956	1161	41	2		2	CCT5	5	10250467	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	6650914	10250467	170664793	124	37476										
CDH10	1008	broad.mit.edu	37	chr5	24535872	24535872	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tatgctgtaaatgactctggCgctgttcccatatgaagggt	11	8	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:24535872C>G	uc003jgr.1	-	4	918	c.586G>C	c.(586-588)GCC>CCC	p.A196P	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	196	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ATGACTCTGGCGCTGTTCCCA	0.453										HNSCC(23;0.051)			36	47	---	---	---	---	PASS	G	24535872	G	G	24535872	3	3	100	1	0	0	0	0	1	0	0	0	3096	768	27	4	1816	4	CDH10	5	24535872	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	14285405	24535872	156379388	125	37477										
CDH6	1004	broad.mit.edu	37	chr5	31317838	31317838	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aatagacacgagatgagcacCtatctcttgcctgtggtcat	9	10	2	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:31317838C>A	uc003jhe.1	+	11	2015	c.1689C>A	c.(1687-1689)ACC>ACA	p.T563T	CDH6_uc003jhd.1_Silent_p.T563T	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	563	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						AGATGAGCACCTATCTCTTGC	0.498													45	37	---	---	---	---	PASS	A	31317838	A	A	31317838	2	1	100	1	0	0	0	0	0	0	0	1	3114	668	24	3		3	CDH6	5	31317838	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	6781966	31317838	149597422	126	37478										
RNASEN	29102	broad.mit.edu	37	chr5	31515295	31515295	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtctttttcttcctcccaacGagctctcttcttctccctac	3	17	5	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:31515295G>T	uc003jhg.2	-	7	1449	c.1090C>A	c.(1090-1092)CGT>AGT	p.R364S	RNASEN_uc003jhh.2_Missense_Mutation_p.R327S|RNASEN_uc003jhi.2_Missense_Mutation_p.R327S|RNASEN_uc010iui.1_Missense_Mutation_p.R287S	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	364					gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						TCCTCCCAACGAGCTCTCTTC	0.433													91	130	---	---	---	---	PASS	T	31515295	T	T	31515295	3	4	100	1	0	0	0	0	1	0	0	0	13417	1058	37	2	3150	2	RNASEN	5	31515295	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	197457	31515295	149399965	127	37479										
ADAMTS12	81792	broad.mit.edu	37	chr5	33576589	33576589	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gagcgtcatttccaggtactCtgatcttggtccatattaca	8	10	3	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:33576589C>A	uc003jia.1	-	19	3705	c.3542G>T	c.(3541-3543)AGA>ATA	p.R1181I	ADAMTS12_uc010iuq.1_Missense_Mutation_p.R1096I	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1181	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TCCAGGTACTCTGATCTTGGT	0.498										HNSCC(64;0.19)			89	113	---	---	---	---	PASS	A	33576589	A	A	33576589	3	1	100	1	0	0	0	0	1	0	0	0	257	913	32	2	1266	2	ADAMTS12	5	33576589	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	2061294	33576589	147338671	128	37480										
ADAMTS12	81792	broad.mit.edu	37	chr5	33684122	33684122	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gttgtgcctctcccacttctCccgccatagctcttgcttct	6	17	4	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:33684122C>A	uc003jia.1	-	4	836	c.673G>T	c.(673-675)GAG>TAG	p.E225*	ADAMTS12_uc010iuq.1_Nonsense_Mutation_p.E225*	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	225					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TCCCACTTCTCCCGCCATAGC	0.468										HNSCC(64;0.19)			39	18	---	---	---	---	PASS	A	33684122	A	A	33684122	4	1	100	1	0	0	0	0	0	1	0	0	257	864	30	2	4195	2	ADAMTS12	5	33684122	Nonsense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	107533	33684122	147231138	129	37481										
C7	730	broad.mit.edu	37	chr5	40955555	40955555	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aggtgcaggcttcatatctgGccttagttacctagagctgg	12	9	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:40955555G>T	uc003jmh.2	+	10	1274	c.1160G>T	c.(1159-1161)GGC>GTC	p.G387V	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	387	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				TTCATATCTGGCCTTAGTTAC	0.438													67	115	---	---	---	---	PASS	T	40955555	T	T	40955555	3	4	100	1	0	0	0	0	1	0	0	0	2375	1203	42	3	1198	3	C7	5	40955555	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	7271433	40955555	139959705	130	37482										
HCN1	348980	broad.mit.edu	37	chr5	45262353	45262353	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcggagagtggcctgacttcCcgggtcaggttggtgttgtg	18	8	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:45262353C>T	uc003jok.2	-	8	2368	c.2343G>A	c.(2341-2343)CGG>CGA	p.R781R		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	781	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GCCTGACTTCCCGGGTCAGGT	0.602													32	34	---	---	---	---	PASS	T	45262353	T	T	45262353	2	4	100	1	0	0	0	0	0	0	0	1	6996	610	22	3		3	HCN1	5	45262353	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	4306798	45262353	135652907	131	37483										
CMYA5	202333	broad.mit.edu	37	chr5	79026563	79026563	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctctctcaccatccacaactGagaagacttcagagaaccag	6	14	3	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:79026563G>C	uc003kgc.2	+	2	2047	c.1975G>C	c.(1975-1977)GAG>CAG	p.E659Q		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	659						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		ATCCACAACTGAGAAGACTTC	0.473													8	30	---	---	---	---	PASS	C	79026563	C	C	79026563	3	2	100	1	0	0	0	0	1	0	0	0	3590	1291	45	2	1981	2	CMYA5	5	79026563	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	33764210	79026563	101888697	132	37484										
GPR98	84059	broad.mit.edu	37	chr5	90012361	90012361	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtgagcactttttcctaagaGagccaacagctctctacgtc	8	12	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:90012361G>C	uc003kju.2	+	43	9358	c.9262G>C	c.(9262-9264)GAG>CAG	p.E3088Q	GPR98_uc003kjt.2_Missense_Mutation_p.E794Q|GPR98_uc003kjv.2_Missense_Mutation_p.E688Q	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3088	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TTTCCTAAGAGAGCCAACAGC	0.408													3	31	---	---	---	---	PASS	C	90012361	C	C	90012361	3	2	100	1	0	0	0	0	1	0	0	0	6721	943	33	2	9432	2	GPR98	5	90012361	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	10985798	90012361	90902899	133	37485										
SLCO6A1	133482	broad.mit.edu	37	chr5	101834339	101834339	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttcttggaaactgaggacttGgcttttttcctttttcggaa	9	7	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:101834339G>A	uc003knn.2	-	1	382	c.210C>T	c.(208-210)GCC>GCT	p.A70A	SLCO6A1_uc003kno.2_Silent_p.A70A|SLCO6A1_uc003knp.2_Silent_p.A70A|SLCO6A1_uc003knq.2_Silent_p.A70A	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	70	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		CTGAGGACTTGGCTTTTTTCC	0.517													126	158	---	---	---	---	PASS	A	101834339	A	A	101834339	2	1	100	1	0	0	0	0	0	0	0	1	14732	1335	47	3		3	SLCO6A1	5	101834339	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	11821978	101834339	79080921	134	37486										
CEP120	153241	broad.mit.edu	37	chr5	122751802	122751802	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggcaaaacattggagtttgaTaggagtacgctgtagcctat	12	6	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:122751802T>A	uc003ktk.2	-	4	305	c.223A>T	c.(223-225)ATC>TTC	p.I75F	CEP120_uc011cwq.1_5'UTR|CEP120_uc010jcz.1_Missense_Mutation_p.I49F	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	75						centrosome				ovary(1)	1						TGGAGTTTGATAGGAGTACGC	0.353													27	23	---	---	---	---	PASS	A	122751802	A	A	122751802	3	1	100	1	0	0	0	0	1	0	0	0	3246	1406	49	5	2809	5	CEP120	5	122751802	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	20917463	122751802	58163458	135	37487										
FBN2	2201	broad.mit.edu	37	chr5	127730856	127730856	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cttcaggaatggttccgatgCcccagcagcggccaggctca	12	14	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:127730856C>G	uc003kuu.2	-	9	1629	c.1190G>C	c.(1189-1191)GGC>GCC	p.G397A	FBN2_uc003kuv.2_Missense_Mutation_p.G364A	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	397	TB 2.				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)		GGTTCCGATGCCCCAGCAGCG	0.562													22	33	---	---	---	---	PASS	G	127730856	G	G	127730856	3	3	100	1	0	0	0	0	1	0	0	0	5703	739	26	4	7776	4	FBN2	5	127730856	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	4979054	127730856	53184404	136	37488										
SHROOM1	134549	broad.mit.edu	37	chr5	132161784	132161784	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccacaggtccaggctgctagTggacgaggccggggaggcgc	18	12	0	0	rs10054043		TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:132161784T>A	uc003kxx.2	-	4	854	c.49A>T	c.(49-51)ACT>TCT	p.T17S	SHROOM1_uc003kxy.1_Missense_Mutation_p.T17S	NM_133456	NP_597713	Q2M3G4	SHRM1_HUMAN	shroom family member 1	17					actin filament bundle assembly|cell morphogenesis	cytoplasm|microtubule	actin filament binding			pancreas(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGGCTGCTAGTGGACGAGGCC	0.711													8	7	---	---	---	---	PASS	A	132161784	A	A	132161784	3	1	100	1	0	0	0	0	1	0	0	0	14293	1696	59	5	2537	5	SHROOM1	5	132161784	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	4430928	132161784	48753476	137	37489										
PCDHA5	56143	broad.mit.edu	37	chr5	140202652	140202652	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gaccgcgcgggacgggggctCgccttcgctgtgggccaccg	18	15	0	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:140202652C>T	uc003lhl.2	+	1	1292	c.1292C>T	c.(1291-1293)TCG>TTG	p.S431L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.S431L|PCDHA5_uc003lhj.1_Missense_Mutation_p.S431L	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	431	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGGGGGCTCGCCTTCGCTG	0.642													15	139	---	---	---	---	PASS	T	140202652	T	T	140202652	3	4	100	1	0	0	0	0	1	0	0	0	11527	893	31	2	1294	2	PCDHA5	5	140202652	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	8040868	140202652	40712608	138	37490										
PCDHA7	56141	broad.mit.edu	37	chr5	140215062	140215062	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tattccagaggacgcccaacCaggtaccgtcatcacattga	8	13	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:140215062C>A	uc003lhq.2	+	1	1094	c.1094C>A	c.(1093-1095)CCA>CAA	p.P365Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.P365Q	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	365	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGCCCAACCAGGTACCGTC	0.507													67	141	---	---	---	---	PASS	A	140215062	A	A	140215062	3	1	100	1	0	0	0	0	1	0	0	0	11529	594	21	3	1096	3	PCDHA7	5	140215062	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	12410	140215062	40700198	139	37491										
PCDHGA3	56112	broad.mit.edu	37	chr5	140725268	140725268	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctgttcgtgctggaccagaaCgacaacgcgcccgagatcct	11	14	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:140725268C>T	uc003ljm.1	+	1	1668	c.1668C>T	c.(1666-1668)AAC>AAT	p.N556N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.N316N|PCDHGA3_uc011dap.1_Silent_p.N556N	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	556	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGACCAGAACGACAACGCGC	0.622													8	231	---	---	---	---	PASS	T	140725268	T	T	140725268	2	4	100	1	0	0	0	0	0	0	0	1	11555	535	19	1		1	PCDHGA3	5	140725268	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	510206	140725268	40189992	140	37492										
PCDHGA8	9708	broad.mit.edu	37	chr5	140772461	140772461	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggaacgctgtgggaaatcggGaggggacagattcgctactc	16	8	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:140772461G>T	uc003lkd.1	+	1	979	c.81G>T	c.(79-81)GGG>GGT	p.G27G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Silent_p.G27G	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	27					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGAAATCGGGAGGGGACAGA	0.607													22	21	---	---	---	---	PASS	T	140772461	T	T	140772461	2	4	100	1	0	0	0	0	0	0	0	1	11560	1161	41	2		2	PCDHGA8	5	140772461	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	47193	140772461	40142799	141	37493										
FCHSD1	89848	broad.mit.edu	37	chr5	141023886	141023886	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcccccaaattctcccctccAgaagccgtcatctactccat	4	19	3	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:141023886A>G	uc003llk.2	-	17	1813	c.1762T>C	c.(1762-1764)TGG>CGG	p.W588R	FCHSD1_uc010jgg.2_Missense_Mutation_p.W271R|FCHSD1_uc003llj.2_RNA	NM_033449	NP_258260	Q86WN1	FCSD1_HUMAN	FCH and double SH3 domains 1	588	SH3 2.								FCHSD1/BRAF(2)	skin(2)|ovary(1)|central_nervous_system(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTCCCCTCCAGAAGCCGTCA	0.627													15	27	---	---	---	---	PASS	G	141023886	G	G	141023886	3	3	100	1	0	0	0	0	1	0	0	0	5789	188	7	5	326	5	FCHSD1	5	141023886	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	251425	141023886	39891374	142	37494										
AFAP1L1	134265	broad.mit.edu	37	chr5	148712275	148712275	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	caggagcaaaattaaaggctCtggaagaagccgtggccacc	12	10	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:148712275C>G	uc003lqh.2	+	17	2124	c.1993C>G	c.(1993-1995)CTG>GTG	p.L665V	AFAP1L1_uc010jgy.2_Missense_Mutation_p.L665V|AFAP1L1_uc003lqi.1_Missense_Mutation_p.L280V	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	665	Potential.						protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTAAAGGCTCTGGAAGAAGC	0.537													55	57	---	---	---	---	PASS	G	148712275	G	G	148712275	3	3	100	1	0	0	0	0	1	0	0	0	354	912	32	2	2059	2	AFAP1L1	5	148712275	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	7688389	148712275	32202985	143	37495										
FAT2	2196	broad.mit.edu	37	chr5	150897185	150897185	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gctggcagtgccttaccttcAgggagacggacgctgtttca	13	11	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:150897185A>C	uc003lue.3	-	19	11472	c.11459T>G	c.(11458-11460)CTG>CGG	p.L3820R	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.L513R	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3820	Extracellular (Potential).|Laminin G-like.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCTTACCTTCAGGGAGACGGA	0.557													34	53	---	---	---	---	PASS	C	150897185	C	C	150897185	3	2	100	1	0	0	0	0	1	0	0	0	5690	188	7	5	1610	5	FAT2	5	150897185	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	2184910	150897185	30018075	144	37496										
GABRG2	2566	broad.mit.edu	37	chr5	161580143	161580143	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agatcagcaaccattcaaatGaataatgctacacaccttca	4	11	3	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:161580143G>T	uc003lyz.3	+	9	1531	c.1173G>T	c.(1171-1173)ATG>ATT	p.M391I	GABRG2_uc010jjc.2_Missense_Mutation_p.M439I|GABRG2_uc003lyy.3_Missense_Mutation_p.M399I|GABRG2_uc011dej.1_Missense_Mutation_p.M296I	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	391	Cytoplasmic (Probable).				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)		CCATTCAAATGAATAATGCTA	0.478													53	67	---	---	---	---	PASS	T	161580143	T	T	161580143	3	4	100	1	0	0	0	0	1	0	0	0	6172	1290	45	2	1359	2	GABRG2	5	161580143	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	10682958	161580143	19335117	145	37497										
SLIT3	6586	broad.mit.edu	37	chr5	168199835	168199835	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tggctgatgcgcttgttggcGagtcggcgcgggctgctgca	18	10	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:168199835G>T	uc003mab.2	-	14	1830	c.1410C>A	c.(1408-1410)CTC>CTA	p.L470L	SLIT3_uc010jjg.2_Silent_p.L470L|SLIT3_uc010jji.2_Silent_p.L470L|SLIT3_uc003mac.1_Silent_p.L267L	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	470	LRRCT 2.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCTTGTTGGCGAGTCGGCGCG	0.612													41	46	---	---	---	---	PASS	T	168199835	T	T	168199835	2	4	100	1	0	0	0	0	0	0	0	1	14741	1045	37	2		2	SLIT3	5	168199835	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	6619692	168199835	12715425	146	37498										
CANX	821	broad.mit.edu	37	chr5	179136000	179136000	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tatgaggttaatttccaaaaTggaatagaatgtggtggtgc	12	3	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr5:179136000T>C	uc003mkk.2	+	6	645	c.468T>C	c.(466-468)AAT>AAC	p.N156N	CANX_uc011dgp.1_Silent_p.N191N|CANX_uc010jlb.1_Silent_p.N92N|CANX_uc003mkl.2_Silent_p.N156N|CANX_uc011dgq.1_Silent_p.N48N	NM_001746	NP_001737	P27824	CALX_HUMAN	calnexin precursor	156	Lumenal (Potential).				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein secretion	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane|melanosome	calcium ion binding|sugar binding|unfolded protein binding				0	all_cancers(89;0.000129)|all_epithelial(37;5.59e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0413)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATTTCCAAAATGGAATAGAAT	0.393													38	43	---	---	---	---	PASS	C	179136000	C	C	179136000	2	2	100	1	0	0	0	0	0	0	0	1	2618	1461	51	5		5	CANX	5	179136000	Silent	SNP	T	TCGA-43-6143-01A-11D-1817-08	10936165	179136000	1779260	147	37499										
MRPS18B	28973	broad.mit.edu	37	chr6	30593547	30593547	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcggaagcctcctccactggGcagacaggccctcagagtgc	13	15	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:30593547G>A	uc003nqo.2	+	7	907	c.750G>A	c.(748-750)GGG>GGA	p.G250G	MRPS18B_uc011dml.1_3'UTR|MRPS18B_uc010jsd.1_Silent_p.G207G|C6orf134_uc003nqr.3_5'Flank|C6orf134_uc003rdc.2_5'Flank|C6orf134_uc003nqs.3_5'Flank|C6orf134_uc003rdd.2_5'Flank|C6orf134_uc003nqu.2_5'Flank|C6orf134_uc003nqt.2_5'Flank|C6orf134_uc011dmm.1_5'Flank|C6orf134_uc003nqv.2_5'Flank	NM_014046	NP_054765	Q9Y676	RT18B_HUMAN	mitochondrial ribosomal protein S18B precursor	250					translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(1)	1						CCTCCACTGGGCAGACAGGCC	0.443													4	44	---	---	---	---	PASS	A	30593547	A	A	30593547	2	1	100	1	0	0	0	0	0	0	0	1	9829	1190	42	3		3	MRPS18B	6	30593547	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08		30593547	140521520	148	37500										
CFB	629	broad.mit.edu	37	chr6	31919166	31919166	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atgccccaggctatgacaaaGtcaaggacatctcagaggtg	11	10	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:31919166G>A	uc003nyj.3	+	16	2283	c.2005G>A	c.(2005-2007)GTC>ATC	p.V669I	CFB_uc011dor.1_Missense_Mutation_p.V1171I	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	669	Peptidase S1.				complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						CTATGACAAAGTCAAGGACAT	0.507													6	87	---	---	---	---	PASS	A	31919166	A	A	31919166	3	1	100	1	0	0	0	0	1	0	0	0	3278	1029	36	3	2067	3	CFB	6	31919166	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	1325619	31919166	139195901	149	37501										
ABCC10	89845	broad.mit.edu	37	chr6	43400473	43400473	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggacatttgccgcctcccccAcagactgcagccaacctacc	7	19	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:43400473A>T	uc003ouy.1	+	3	970	c.755A>T	c.(754-756)CAC>CTC	p.H252L	ABCC10_uc003ouz.1_Missense_Mutation_p.H209L	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	252						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CGCCTCCCCCACAGACTGCAG	0.642													12	27	---	---	---	---	PASS	T	43400473	T	T	43400473	3	4	100	1	0	0	0	0	1	0	0	0	50	159	6	5	628	5	ABCC10	6	43400473	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	11481307	43400473	127714594	150	37502										
TJAP1	93643	broad.mit.edu	37	chr6	43466750	43466750	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	acctcccagaatgactagtgCcgcccctgctaagaaaccct	7	16	0	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:43466750C>G	uc003ovd.2	+	4	387	c.11C>G	c.(10-12)GCC>GGC	p.A4G	TJAP1_uc003ovf.2_Missense_Mutation_p.A4G|TJAP1_uc003ove.2_Missense_Mutation_p.A4G|TJAP1_uc003ovc.2_Missense_Mutation_p.A4G|TJAP1_uc010jyp.2_5'UTR|TJAP1_uc011dvh.1_Missense_Mutation_p.A4G|TJAP1_uc003ovg.2_5'UTR|TJAP1_uc010jyq.2_Missense_Mutation_p.A4G|TJAP1_uc011dvi.1_Missense_Mutation_p.A4G|TJAP1_uc011dvj.1_5'Flank	NM_001146016	NP_001139488	Q5JTD0	TJAP1_HUMAN	tight junction associated protein 1 isoform a	4						Golgi apparatus|tight junction	protein binding				0	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0122)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			ATGACTAGTGCCGCCCCTGCT	0.567													23	22	---	---	---	---	PASS	G	43466750	G	G	43466750	3	3	100	1	0	0	0	0	1	0	0	0	15925	739	26	4	13	4	TJAP1	6	43466750	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	66277	43466750	127648317	151	37503										
EFHC1	114327	broad.mit.edu	37	chr6	52288907	52288907	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	accagtcttaacttatggccAacctaaacaagccccacctg	5	15	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:52288907A>G	uc003pap.3	+	2	442	c.227A>G	c.(226-228)CAA>CGA	p.Q76R	EFHC1_uc011dwv.1_Intron|EFHC1_uc011dww.1_Missense_Mutation_p.Q57R	NM_018100	NP_060570	Q5JVL4	EFHC1_HUMAN	EF-hand domain (C-terminal) containing 1	76						axoneme|neuronal cell body	calcium ion binding|protein C-terminus binding			ovary(2)|skin(1)	3	Lung NSC(77;0.109)					ACTTATGGCCAACCTAAACAA	0.512													20	29	---	---	---	---	PASS	G	52288907	G	G	52288907	3	3	100	1	0	0	0	0	1	0	0	0	4946	130	5	5	243	5	EFHC1	6	52288907	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	8822157	52288907	118826160	152	37504										
RIMS1	22999	broad.mit.edu	37	chr6	72892190	72892190	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aaaacgggatgagggcaaagCggcggatgaggaaaagcaaa	16	5	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:72892190C>A	uc003pga.2	+	6	1093	c.1016C>A	c.(1015-1017)GCG>GAG	p.A339E	RIMS1_uc011dyb.1_5'UTR|RIMS1_uc003pgc.2_5'UTR|RIMS1_uc003pgb.3_5'UTR	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	339					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)				GAGGGCAAAGCGGCGGATGAG	0.572													6	9	---	---	---	---	PASS	A	72892190	A	A	72892190	3	1	100	1	0	0	0	0	1	0	0	0	13367	768	27	1	1038	1	RIMS1	6	72892190	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	20603283	72892190	98222877	153	37505										
KIAA1009	22832	broad.mit.edu	37	chr6	84904694	84904694	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tatcttccactgtgttactcTcaattttttgtttgtcttca	4	9	4	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:84904694T>G	uc010kbp.2	-	10	1032	c.935A>C	c.(934-936)GAG>GCG	p.E312A	KIAA1009_uc003pkj.3_Missense_Mutation_p.E236A|KIAA1009_uc003pkk.2_Missense_Mutation_p.E312A|KIAA1009_uc003pki.3_5'UTR	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	312					cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		TGTGTTACTCTCAATTTTTTG	0.373													18	15	---	---	---	---	PASS	G	84904694	G	G	84904694	3	3	100	1	0	0	0	0	1	0	0	0	8203	1551	54	5	3348	5	KIAA1009	6	84904694	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	12012504	84904694	86210373	154	37506										
LAMA4	3910	broad.mit.edu	37	chr6	112452297	112452297	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atccagtgagatggagaacaCgtctgactgaaatgcaagca	11	8	1	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:112452297C>T	uc003pvu.2	-	29	4150	c.3841G>A	c.(3841-3843)GTG>ATG	p.V1281M	LAMA4_uc003pvv.2_Missense_Mutation_p.V1274M|LAMA4_uc003pvt.2_Missense_Mutation_p.V1274M	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1281	Laminin G-like 3.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		ATGGAGAACACGTCTGACTGA	0.418													31	54	---	---	---	---	PASS	T	112452297	T	T	112452297	3	4	100	1	0	0	0	0	1	0	0	0	8608	536	19	1	1674	1	LAMA4	6	112452297	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	27547603	112452297	58662770	155	37507										
C6orf174	387104	broad.mit.edu	37	chr6	127797193	127797193	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	caggtcggccacgttcctccGcagcagctccgtctcgtctt	10	17	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:127797193G>A	uc003qbd.2	-	6	2843	c.1978C>T	c.(1978-1980)CGG>TGG	p.R660W	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	660	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		ACGTTCCTCCGCAGCAGCTCC	0.647													19	38	---	---	---	---	PASS	A	127797193	A	A	127797193	3	1	100	1	0	0	0	0	1	0	0	0	2345	1086	38	1	873	1	C6orf174	6	127797193	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	15344896	127797193	43317874	156	37508										
PTPRK	5796	broad.mit.edu	37	chr6	128718714	128718714	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aacagagtgactctcaccttGgggcatctcgggtggtagat	13	9	2	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:128718714G>C	uc003qbk.2	-	2	587	c.220C>G	c.(220-222)CAA>GAA	p.Q74E	PTPRK_uc003qbj.2_Missense_Mutation_p.Q74E|PTPRK_uc010kfc.2_Missense_Mutation_p.Q74E|PTPRK_uc011ebu.1_Missense_Mutation_p.Q74E|PTPRK_uc003qbl.1_Silent_p.P34P|PTPRK_uc011ebv.1_Missense_Mutation_p.Q74E|PTPRK_uc003qbm.3_Missense_Mutation_p.Q3E	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	74	Extracellular (Potential).|MAM.				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		CTCTCACCTTGGGGCATCTCG	0.413													6	176	---	---	---	---	PASS	C	128718714	C	C	128718714	3	2	100	1	0	0	0	0	1	0	0	0	12805	1357	47	4	4240	4	PTPRK	6	128718714	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	921521	128718714	42396353	157	37509										
LAMA2	3908	broad.mit.edu	37	chr6	129513893	129513893	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cgagtggctccccagcaggaCgacttggactcacctcagca	11	15	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:129513893C>A	uc003qbn.2	+	12	1782	c.1677C>A	c.(1675-1677)GAC>GAA	p.D559E	LAMA2_uc003qbo.2_Missense_Mutation_p.D559E	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	559	Laminin IV type A 1.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		CCCAGCAGGACGACTTGGACT	0.547													18	34	---	---	---	---	PASS	A	129513893	A	A	129513893	3	1	100	1	0	0	0	0	1	0	0	0	8606	535	19	1	1723	1	LAMA2	6	129513893	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	795179	129513893	41601174	158	37510										
SGK1	6446	broad.mit.edu	37	chr6	134495880	134495880	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctgcactcaccgatgagaatTgccaccatgcccctcatcct	6	17	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:134495880T>G	uc003qen.3	-	1	155	c.66A>C	c.(64-66)GCA>GCC	p.A22A	SGK1_uc003qeo.3_Intron|SGK1_uc011ect.1_5'UTR|SGK1_uc011ecu.1_Silent_p.A22A|SGK1_uc011ecv.1_Intron|SGK1_uc011ecw.1_Intron	NM_005627	NP_005618	O00141	SGK1_HUMAN	serum/glucocorticoid regulated kinase 1 isoform	22	Necessary for localization to the cytoplasm.				apoptosis|response to stress|sodium ion transport	endoplasmic reticulum|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(3)|stomach(1)|lung(1)|central_nervous_system(1)	6	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00317)|GBM - Glioblastoma multiforme(68;0.00847)		CGATGAGAATTGCCACCATGC	0.537											OREG0017675	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	74	---	---	---	---	PASS	G	134495880	G	G	134495880	2	3	100	1	0	0	0	0	0	0	0	1	14207	1799	63	5		5	SGK1	6	134495880	Silent	SNP	T	TCGA-43-6143-01A-11D-1817-08	4981987	134495880	36619187	159	37511										
MAP7	9053	broad.mit.edu	37	chr6	136667017	136667017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cagtctgctgtgtctgaacaCcatctacctgaggcaggggc	12	12	3	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:136667017C>A	uc003qgz.2	-	17	2462	c.2216G>T	c.(2215-2217)GGT>GTT	p.G739V	MAP7_uc011edf.1_Missense_Mutation_p.G724V|MAP7_uc011edg.1_Missense_Mutation_p.G769V|MAP7_uc010kgu.2_Missense_Mutation_p.G761V|MAP7_uc011edh.1_Missense_Mutation_p.G724V|MAP7_uc010kgv.2_Missense_Mutation_p.G761V|MAP7_uc010kgs.2_Missense_Mutation_p.G593V|MAP7_uc011edi.1_Missense_Mutation_p.G593V|MAP7_uc010kgq.1_Missense_Mutation_p.G645V|MAP7_uc003qha.1_Missense_Mutation_p.G702V	NM_003980	NP_003971	Q14244	MAP7_HUMAN	microtubule-associated protein 7	739					establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)		TGTCTGAACACCATCTACCTG	0.488													20	31	---	---	---	---	PASS	A	136667017	A	A	136667017	3	1	100	1	0	0	0	0	1	0	0	0	9266	507	18	3	41	3	MAP7	6	136667017	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	2171137	136667017	34448050	160	37512										
GRM1	2911	broad.mit.edu	37	chr6	146720553	146720553	+	Frame_Shift_Del	DEL	C	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tatcgcgttcaccatgtacaCcacctgtatcatctggctag							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:146720553delC	uc010khw.1	+	8	2848	c.2378delC	c.(2377-2379)ACCfs	p.T793fs	GRM1_uc010khv.1_Frame_Shift_Del_p.T793fs|GRM1_uc003qll.2_Frame_Shift_Del_p.T793fs|GRM1_uc011edz.1_Frame_Shift_Del_p.T793fs|GRM1_uc011eea.1_Frame_Shift_Del_p.T793fs	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	793	Helical; Name=6; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	ACCATGTACACCACCTGTATC	0.478													59	35	---	---	---	---		-	146720553	-	-	146720553	7	5	100	1	0	1	0	1	0	0	0	0	6796	507	18	0	2404	0	GRM1	6	146720553	Frame_Shift_Del	DEL	C	TCGA-43-6143-01A-11D-1817-08	10053536	146720553	24394514	161	37513										
SYNE1	23345	broad.mit.edu	37	chr6	152655215	152655215	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cattcatacagtcatggtaaTctcttgttctctgaagatcc	6	10	4	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:152655215T>C	uc010kiw.2	-	77	13324	c.12722A>G	c.(12721-12723)GAT>GGT	p.D4241G	SYNE1_uc003qot.3_Missense_Mutation_p.D4170G|SYNE1_uc003qou.3_Missense_Mutation_p.D4241G|SYNE1_uc010kiz.2_5'UTR	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4241	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)		GTCATGGTAATCTCTTGTTCT	0.403										HNSCC(10;0.0054)			5	110	---	---	---	---	PASS	C	152655215	C	C	152655215	3	2	100	1	0	0	0	0	1	0	0	0	15442	1435	50	5	14024	5	SYNE1	6	152655215	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	5934662	152655215	18459852	162	37514										
SYNE1	23345	broad.mit.edu	37	chr6	152665306	152665306	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agccaggcctggcactgctgCagggtgtcttgtcggctgac	15	12	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:152665306C>A	uc010kiw.2	-	74	12737	c.12135G>T	c.(12133-12135)CTG>CTT	p.L4045L	SYNE1_uc003qot.3_Silent_p.L3974L|SYNE1_uc003qou.3_Silent_p.L4045L|SYNE1_uc010kja.1_Silent_p.L750L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4045	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)		GGCACTGCTGCAGGGTGTCTT	0.488										HNSCC(10;0.0054)			51	56	---	---	---	---	PASS	A	152665306	A	A	152665306	2	1	100	1	0	0	0	0	0	0	0	1	15442	697	25	3		3	SYNE1	6	152665306	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	10091	152665306	18449761	163	37515										
SYNJ2	8871	broad.mit.edu	37	chr6	158487553	158487553	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agcggatccggattgctatgGggacctggaacgtgaacgga	16	8	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:158487553G>T	uc003qqx.1	+	12	1678	c.1603G>T	c.(1603-1605)GGG>TGG	p.G535W	SYNJ2_uc011efm.1_RNA|SYNJ2_uc003qqw.1_Missense_Mutation_p.G535W|SYNJ2_uc003qqy.1_Missense_Mutation_p.G248W|SYNJ2_uc011efn.1_Missense_Mutation_p.G463W|SYNJ2_uc010kjo.1_Missense_Mutation_p.G484W|SYNJ2_uc003qqz.1_Missense_Mutation_p.G152W	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	535	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		GATTGCTATGGGGACCTGGAA	0.567													27	50	---	---	---	---	PASS	T	158487553	T	T	158487553	3	4	100	1	0	0	0	0	1	0	0	0	15450	1232	43	3	1649	3	SYNJ2	6	158487553	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	5822247	158487553	12627514	164	37516										
FNDC1	84624	broad.mit.edu	37	chr6	159651036	159651036	+	Splice_Site	DEL	G	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cattgtcgctatgccaacaaGtaagcattatgtgtctgtgg							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:159651036delG	uc010kjv.2	+	10	1569	c.1369_splice	c.e10+1	p.T457_splice	FNDC1_uc010kjw.1_Intron	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1							extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		ATGCCAACAAGTAAGCATTAT	0.488													89	61	---	---	---	---		-	159651036	-	-	159651036	8	5	100	1	0	1	0	1	0	0	1	0	5968	1043	36	0	1408	0	FNDC1	6	159651036	Splice_Site	DEL	G	TCGA-43-6143-01A-11D-1817-08	1163483	159651036	11464031	165	37517										
TTLL2	83887	broad.mit.edu	37	chr6	167754494	167754494	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgctgccaattgctttgagcTctttgggtttgatattttga	10	6	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr6:167754494T>A	uc003qvs.1	+	3	1194	c.1106T>A	c.(1105-1107)CTC>CAC	p.L369H	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	369	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		TGCTTTGAGCTCTTTGGGTTT	0.448													90	140	---	---	---	---	PASS	A	167754494	A	A	167754494	3	1	100	1	0	0	0	0	1	0	0	0	16724	1551	54	5	1116	5	TTLL2	6	167754494	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	8103458	167754494	3360573	166	37518										
TRA2A	29896	broad.mit.edu	37	chr7	23552617	23552617	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	accactcaatggtccatatcGagaaaatacttcacgaagat	6	10	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:23552617G>C	uc003swi.2	-	4	635	c.421C>G	c.(421-423)CGA>GGA	p.R141G	TRA2A_uc011jzb.1_RNA|TRA2A_uc011jzc.1_Missense_Mutation_p.R40G|TRA2A_uc011jzd.1_Missense_Mutation_p.R40G|TRA2A_uc010kuo.1_RNA	NM_013293	NP_037425	Q13595	TRA2A_HUMAN	transformer-2 alpha	141	RRM.				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|RNA binding			ovary(1)	1						GGTCCATATCGAGAAAATACT	0.418													40	21	---	---	---	---	PASS	C	23552617	C	C	23552617	3	2	100	1	0	0	0	0	1	0	0	0	16430	1066	37	2	447	2	TRA2A	7	23552617	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08		23552617	135586046	167	37519										
NOD1	10392	broad.mit.edu	37	chr7	30490872	30490872	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gaagcagggctgcagctcccGcacgccgtagtcgttgagat	14	12	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:30490872G>A	uc003tav.2	-	6	2684	c.2161C>T	c.(2161-2163)CGG>TGG	p.R721W		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	721	LRR 2.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						TGCAGCTCCCGCACGCCGTAG	0.657													32	30	---	---	---	---	PASS	A	30490872	A	A	30490872	3	1	100	1	0	0	0	0	1	0	0	0	10516	1086	38	1	736	1	NOD1	7	30490872	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	6938255	30490872	128647791	168	37520										
FAM188B	84182	broad.mit.edu	37	chr7	30893027	30893027	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cagcttacgcttcacagtttGacctgctatgaggacctggt	10	11	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:30893027G>T	uc003tbt.2	+	12	1706	c.1629G>T	c.(1627-1629)TTG>TTT	p.L543F	FAM188B_uc010kwe.2_Missense_Mutation_p.L514F|AQP1_uc011kac.1_5'UTR	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	543											0						TTCACAGTTTGACCTGCTATG	0.498													8	25	---	---	---	---	PASS	T	30893027	T	T	30893027	3	4	100	1	0	0	0	0	1	0	0	0	5515	1281	45	2	1675	2	FAM188B	7	30893027	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	402155	30893027	128245636	169	37521										
AOAH	313	broad.mit.edu	37	chr7	36698786	36698786	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctcaccttgggaagagggtaGagatgacacaatggttggcc	14	8	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:36698786G>C	uc003tfh.3	-	4	776	c.375C>G	c.(373-375)CTC>CTG	p.L125L	AOAH_uc010kxf.2_Silent_p.L125L|AOAH_uc011kba.1_Silent_p.L93L	NM_001637	NP_001628	P28039	AOAH_HUMAN	acyloxyacyl hydrolase precursor	125					inflammatory response|lipid metabolic process	extracellular region	acyloxyacyl hydrolase activity|lipoprotein lipase activity			skin(1)	1						GAAGAGGGTAGAGATGACACA	0.458													71	64	---	---	---	---	PASS	C	36698786	C	C	36698786	2	2	100	1	0	0	0	0	0	0	0	1	726	929	33	2		2	AOAH	7	36698786	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	5805759	36698786	122439877	170	37522										
ELMO1	9844	broad.mit.edu	37	chr7	37311438	37311438	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gaagctaagatcaacttactGgagatgtggttaatcgaagg	12	5	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:37311438G>A	uc003tfk.1	-	5	549	c.242C>T	c.(241-243)CCA>CTA	p.P81L	ELMO1_uc011kbc.1_5'UTR|ELMO1_uc010kxg.1_Missense_Mutation_p.P81L	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	81					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						TCAACTTACTGGAGATGTGGT	0.358													34	89	---	---	---	---	PASS	A	37311438	A	A	37311438	3	1	100	1	0	0	0	0	1	0	0	0	5065	1362	47	3	2013	3	ELMO1	7	37311438	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	612652	37311438	121827225	171	37523										
URGCP	55665	broad.mit.edu	37	chr7	43918685	43918685	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tggtattcctggcatcagcaTtgagggcctgcaacttcctg	11	11	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:43918685T>C	uc003tiw.2	-	6	434	c.377A>G	c.(376-378)AAT>AGT	p.N126S	URGCP_uc003tiu.2_Missense_Mutation_p.N83S|URGCP_uc003tiv.2_Missense_Mutation_p.N51S|URGCP_uc003tix.2_Missense_Mutation_p.N117S|URGCP_uc003tiy.2_Missense_Mutation_p.N83S|URGCP_uc003tiz.2_Missense_Mutation_p.N83S|URGCP_uc011kbj.1_Missense_Mutation_p.N83S	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	126					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						GGCATCAGCATTGAGGGCCTG	0.542													58	62	---	---	---	---	PASS	C	43918685	C	C	43918685	3	2	100	1	0	0	0	0	1	0	0	0	17023	1493	52	5	2422	5	URGCP	7	43918685	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	6607247	43918685	115219978	172	37524										
ZMIZ2	83637	broad.mit.edu	37	chr7	44796711	44796711	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgcagcaaggcgtgtacagcCgcgggggctaccctggggcc	17	13	0	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:44796711C>T	uc003tlr.2	+	4	454	c.331C>T	c.(331-333)CGC>TGC	p.R111C	ZMIZ2_uc003tlq.2_Missense_Mutation_p.R79C|ZMIZ2_uc003tls.2_Missense_Mutation_p.R111C|ZMIZ2_uc003tlt.2_5'Flank|ZMIZ2_uc010kyj.2_5'Flank	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	111	Gly-rich.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						CGTGTACAGCCGCGGGGGCTA	0.652													16	13	---	---	---	---	PASS	T	44796711	T	T	44796711	3	4	100	1	0	0	0	0	1	0	0	0	17694	652	23	1	341	1	ZMIZ2	7	44796711	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	878026	44796711	114341952	173	37525										
CCT6A	908	broad.mit.edu	37	chr7	56125742	56125742	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcatcctgatatgaagaaaaGggtggaggatgcatacatcc	12	7	0	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:56125742G>A	uc003trl.1	+	6	835	c.671G>A	c.(670-672)AGG>AAG	p.R224K	PSPH_uc003trj.2_Intron|CCT6A_uc003trm.1_Missense_Mutation_p.R179K|CCT6A_uc011kcu.1_Missense_Mutation_p.R193K|SNORA15_uc003trn.1_5'Flank	NM_001762	NP_001753	P40227	TCPZ_HUMAN	chaperonin containing TCP1, subunit 6A isoform	224					'de novo' posttranslational protein folding	cytosol	ATP binding|unfolded protein binding			upper_aerodigestive_tract(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			ATGAAGAAAAGGGTGGAGGAT	0.398													18	51	---	---	---	---	PASS	A	56125742	A	A	56125742	3	1	100	1	0	0	0	0	1	0	0	0	2957	1000	35	3	693	3	CCT6A	7	56125742	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	11329031	56125742	103012921	174	37526										
KIAA1324L	222223	broad.mit.edu	37	chr7	86526942	86526942	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccatcacaggtacctgctggGcacttgctaaaatcataaac	7	12	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:86526942G>C	uc011kha.1	-	19	2750	c.2565C>G	c.(2563-2565)TGC>TGG	p.C855W	KIAA1324L_uc003uif.1_Missense_Mutation_p.C615W|KIAA1324L_uc011kgz.1_Missense_Mutation_p.C741W|KIAA1324L_uc003uie.2_Missense_Mutation_p.C688W	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	855	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					TACCTGCTGGGCACTTGCTAA	0.448													20	36	---	---	---	---	PASS	C	86526942	C	C	86526942	3	2	100	1	0	0	0	0	1	0	0	0	8224	1195	42	4	540	4	KIAA1324L	7	86526942	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	30401200	86526942	72611721	175	37527										
RUNDC3B	154661	broad.mit.edu	37	chr7	87400022	87400022	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gaacagttggttcaacaagtGtaagagagttaaacaaaagt	10	4	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:87400022G>T	uc003ujb.2	+	8	1217	c.806G>T	c.(805-807)TGT>TTT	p.C269F	RUNDC3B_uc011khd.1_Missense_Mutation_p.C252F|RUNDC3B_uc011khe.1_Missense_Mutation_p.C252F|RUNDC3B_uc003ujc.2_Missense_Mutation_p.C252F|RUNDC3B_uc003ujd.2_Missense_Mutation_p.C174F	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	269										skin(1)	1	Esophageal squamous(14;0.00164)					TTCAACAAGTGTAAGAGAGTT	0.393													13	38	---	---	---	---	PASS	T	87400022	T	T	87400022	3	4	100	1	0	0	0	0	1	0	0	0	13745	1377	48	3	836	3	RUNDC3B	7	87400022	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	873080	87400022	71738641	176	37528										
ZNF804B	219578	broad.mit.edu	37	chr7	88963673	88963673	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	accactcttcaatggcctacGgaacttctgctctttacaaa	5	13	4	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:88963673G>T	uc011khi.1	+	4	1915	c.1377G>T	c.(1375-1377)ACG>ACT	p.T459T		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	459						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AATGGCCTACGGAACTTCTGC	0.428										HNSCC(36;0.09)			30	65	---	---	---	---	PASS	T	88963673	T	T	88963673	2	4	100	1	0	0	0	0	0	0	0	1	18168	1103	39	1		1	ZNF804B	7	88963673	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	1563651	88963673	70174990	177	37529										
RELN	5649	broad.mit.edu	37	chr7	103183274	103183274	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tagaaaggattccacactttCgagatggtttcccaccactc	7	12	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:103183274C>T	uc003vca.2	-	43	6735	c.6575G>A	c.(6574-6576)CGA>CAA	p.R2192Q	RELN_uc010liz.2_Missense_Mutation_p.R2192Q	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2192					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TCCACACTTTCGAGATGGTTT	0.393													9	77	---	---	---	---	PASS	T	103183274	T	T	103183274	3	4	100	1	0	0	0	0	1	0	0	0	13220	884	31	2	3899	2	RELN	7	103183274	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	14219601	103183274	55955389	178	37530										
PNPLA8	50640	broad.mit.edu	37	chr7	108155826	108155826	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgtggcttatcctccagtaaTgcttaggtgagaacaagaaa	10	7	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:108155826T>C	uc003vff.1	-	4	517	c.110A>G	c.(109-111)CAT>CGT	p.H37R	PNPLA8_uc003vfg.1_RNA|PNPLA8_uc003vfh.1_Missense_Mutation_p.H37R|PNPLA8_uc003vfi.1_5'UTR|PNPLA8_uc003vfj.1_Missense_Mutation_p.H37R|PNPLA8_uc003vfk.1_5'UTR	NM_015723	NP_056538	Q9NP80	PLPL8_HUMAN	patatin-like phospholipase domain containing 8	37					fatty acid metabolic process|lipid catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|membrane fraction|perinuclear region of cytoplasm|peroxisomal membrane	ATP binding|calcium-independent phospholipase A2 activity|lysophospholipase activity			breast(2)	2						CCTCCAGTAATGCTTAGGTGA	0.368													30	22	---	---	---	---	PASS	C	108155826	C	C	108155826	3	2	100	1	0	0	0	0	1	0	0	0	12171	1464	51	5	2274	5	PNPLA8	7	108155826	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	4972552	108155826	50982837	179	37531										
CTTNBP2	83992	broad.mit.edu	37	chr7	117450887	117450887	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttgcattttcttgcagtgggCcatgactgcttcaaggatgg	12	8	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:117450887C>A	uc003vjf.2	-	3	438	c.346G>T	c.(346-348)GCC>TCC	p.A116S		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	116										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		TTGCAGTGGGCCATGACTGCT	0.512													83	173	---	---	---	---	PASS	A	117450887	A	A	117450887	3	1	100	1	0	0	0	0	1	0	0	0	4045	739	26	3	4729	3	CTTNBP2	7	117450887	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	9295061	117450887	41687776	180	37532										
SPAM1	6677	broad.mit.edu	37	chr7	123599605	123599605	+	Frame_Shift_Del	DEL	T	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttacataatcaacgtcacacTagcagccaaaatgtgtagcc							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:123599605delT	uc003vld.2	+	6	1514	c.1112delT	c.(1111-1113)CTAfs	p.L371fs	SPAM1_uc003vle.2_Frame_Shift_Del_p.L371fs|SPAM1_uc011koa.1_Frame_Shift_Del_p.L27fs|SPAM1_uc003vlf.3_Frame_Shift_Del_p.L371fs|SPAM1_uc010lku.2_Frame_Shift_Del_p.L371fs	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	371					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	AACGTCACACTAGCAGCCAAA	0.378													41	48	---	---	---	---		-	123599605	-	-	123599605	7	5	100	1	0	1	0	1	0	0	0	0	14986	1522	53	0	1122	0	SPAM1	7	123599605	Frame_Shift_Del	DEL	T	TCGA-43-6143-01A-11D-1817-08	6148718	123599605	35539058	181	37533										
SMO	6608	broad.mit.edu	37	chr7	128845131	128845131	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	accccaagagctggtacgagGacgtggagggctgcggcatc	16	11	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:128845131G>T	uc003vor.2	+	3	905	c.625G>T	c.(625-627)GAC>TAC	p.D209Y	SMO_uc003vos.2_5'Flank	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	209	Extracellular (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						CTGGTACGAGGACGTGGAGGG	0.607			Mis		skin basal cell 								22	22	---	---	---	---	PASS	T	128845131	T	T	128845131	3	4	100	1	0	0	0	0	1	0	0	0	14800	1174	41	2	635	2	SMO	7	128845131	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	5245526	128845131	30293532	182	37534										
NUP205	23165	broad.mit.edu	37	chr7	135287563	135287563	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tggttgatagggaaaaaacaCctggagaaagcagtacagca	12	6	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:135287563C>T	uc003vsw.2	+	18	2554	c.2523C>T	c.(2521-2523)CAC>CAT	p.H841H		NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	841					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						GGAAAAAACACCTGGAGAAAG	0.338													35	43	---	---	---	---	PASS	T	135287563	T	T	135287563	2	4	100	1	0	0	0	0	0	0	0	1	10759	506	18	3		3	NUP205	7	135287563	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	6442432	135287563	23851100	183	37535										
CHRM2	1129	broad.mit.edu	37	chr7	136700020	136700020	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	acctacccagtcaagcggacCacaaaaatggcaggtatgat	9	11	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:136700020C>A	uc003vtf.1	+	4	1031	c.408C>A	c.(406-408)ACC>ACA	p.T136T	CHRM2_uc003vtg.1_Silent_p.T136T|CHRM2_uc003vtj.1_Silent_p.T136T|CHRM2_uc003vtk.1_Silent_p.T136T|CHRM2_uc003vtl.1_Silent_p.T136T|CHRM2_uc003vtm.1_Silent_p.T136T|CHRM2_uc003vti.1_Silent_p.T136T|CHRM2_uc003vto.1_Silent_p.T136T|CHRM2_uc003vtn.1_Silent_p.T136T|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	136	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	TCAAGCGGACCACAAAAATGG	0.488													31	74	---	---	---	---	PASS	A	136700020	A	A	136700020	2	1	100	1	0	0	0	0	0	0	0	1	3377	581	21	3		3	CHRM2	7	136700020	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	1412457	136700020	22438643	184	37536										
TAS2R3	50831	broad.mit.edu	37	chr7	141464890	141464890	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tcatctgaagcctggatccaAgggacccattttctcttaga	8	11	3	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:141464890A>G	uc003vwp.1	+	1	994	c.932A>G	c.(931-933)AAG>AGG	p.K311R		NM_016943	NP_058639	Q9NYW6	TA2R3_HUMAN	taste receptor T2R3	311	Cytoplasmic (Potential).				sensory perception of taste		taste receptor activity			central_nervous_system(1)	1	Melanoma(164;0.0171)					CCTGGATCCAAGGGACCCATT	0.507													73	46	---	---	---	---	PASS	G	141464890	G	G	141464890	3	3	100	1	0	0	0	0	1	0	0	0	15569	72	3	5	934	5	TAS2R3	7	141464890	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	4764870	141464890	17673773	185	37537										
OR2A1	346528	broad.mit.edu	37	chr7	144015481	144015481	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcgaacctcctgcatccagcCaagcccatctcctttgctgg	8	17	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:144015481C>A	uc011kud.1	+	1	246	c.246C>A	c.(244-246)GCC>GCA	p.A82A	OR2A9P_uc003wec.1_Intron	NM_001001802	NP_001001802	Q8NGT9	OR2A1_HUMAN	olfactory receptor, family 2, subfamily A,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.14)					TGCATCCAGCCAAGCCCATCT	0.562													24	166	---	---	---	---	PASS	A	144015481	A	A	144015481	2	1	100	1	0	0	0	0	0	0	0	1	10974	581	21	3		3	OR2A1	7	144015481	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	2550591	144015481	15123182	186	37538										
CNTNAP2	26047	broad.mit.edu	37	chr7	146818253	146818253	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	actacctggacttggactatGaggtacatgtgatgacgtag	12	7	0	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:146818253G>A	uc003weu.1	+	6	1453	c.937G>A	c.(937-939)GAG>AAG	p.E313K		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	313	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CTTGGACTATGAGGTACATGT	0.423										HNSCC(39;0.1)			16	16	---	---	---	---	PASS	A	146818253	A	A	146818253	3	1	100	1	0	0	0	0	1	0	0	0	3647	1291	45	2	959	2	CNTNAP2	7	146818253	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	2802772	146818253	12320410	187	37539										
ZNF786	136051	broad.mit.edu	37	chr7	148771626	148771626	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agttctggttttggaagtccAtcatctgcacagagaagtca	10	8	4	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:148771626A>G	uc003wfh.2	-	3	287	c.150T>C	c.(148-150)GAT>GAC	p.D50D	ZNF786_uc011kuk.1_Silent_p.D13D|ZNF786_uc003wfi.2_5'UTR	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	50	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TTGGAAGTCCATCATCTGCAC	0.418													29	25	---	---	---	---	PASS	G	148771626	G	G	148771626	2	3	100	1	0	0	0	0	0	0	0	1	18155	214	8	5		5	ZNF786	7	148771626	Silent	SNP	A	TCGA-43-6143-01A-11D-1817-08	1953373	148771626	10367037	188	37540										
SSPO	23145	broad.mit.edu	37	chr7	149522134	149522134	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggttcaggctacgctggagaGaggcagaggccctctgtgga	17	9	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:149522134G>C	uc010lpk.2	+	97	13921	c.13921G>C	c.(13921-13923)GAG>CAG	p.E4641Q	SSPO_uc010lpm.1_RNA|SSPO_uc003wgg.2_Intron|SSPO_uc003wgh.2_RNA|SSPO_uc003wgi.1_Intron	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	4641	TSP type-1 23.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			ACGCTGGAGAGAGGCAGAGGC	0.647													5	22	---	---	---	---	PASS	C	149522134	C	C	149522134	3	2	100	1	0	0	0	0	1	0	0	0	15188	943	33	2	14297	2	SSPO	7	149522134	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	750508	149522134	9616529	189	37541										
MLL3	58508	broad.mit.edu	37	chr7	151871312	151871312	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tggctttcattataggatctGtaattgcatcaaaatctaga	7	6	4	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr7:151871312G>A	uc003wla.2	-	39	9497	c.9278C>T	c.(9277-9279)ACA>ATA	p.T3093I	MLL3_uc003wkz.2_Missense_Mutation_p.T2154I|MLL3_uc003wky.2_Missense_Mutation_p.T602I	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3093	Gln-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TATAGGATCTGTAATTGCATC	0.328			N		medulloblastoma								24	59	---	---	---	---	PASS	A	151871312	A	A	151871312	3	1	100	1	0	0	0	0	1	0	0	0	9622	1377	48	3	5541	3	MLL3	7	151871312	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	2349178	151871312	7267351	190	37542										
RP1L1	94137	broad.mit.edu	37	chr8	10480382	10480382	+	Frame_Shift_Del	DEL	G	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cctggtccactgggggtcttGgggggcttcttatcagagca							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:10480382delG	uc003wtc.2	-	2	559	c.330delC	c.(328-330)CCCfs	p.P110fs		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	110					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TGGGGGTCTTGGGGGGCTTCT	0.652													9	21	---	---	---	---		-	10480382	-	-	10480382	7	5	100	1	0	1	0	1	0	0	0	0	13533	1335	47	0	6884	0	RP1L1	8	10480382	Frame_Shift_Del	DEL	G	TCGA-43-6143-01A-11D-1817-08		10480382	135883640	191	37543										
C8orf74	203076	broad.mit.edu	37	chr8	10532251	10532251	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agcatcctgctggacaccctCtacgagagcatcatctttgc	8	14	3	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:10532251C>A	uc003wtd.1	+	2	173	c.144C>A	c.(142-144)CTC>CTA	p.L48L	C8orf74_uc003wte.1_RNA	NM_001040032	NP_001035121	Q6P047	CH074_HUMAN	hypothetical protein LOC203076	48											0				COAD - Colon adenocarcinoma(149;0.0811)		TGGACACCCTCTACGAGAGCA	0.572													3	13	---	---	---	---	PASS	A	10532251	A	A	10532251	2	1	100	1	0	0	0	0	0	0	0	1	2436	900	32	2		2	C8orf74	8	10532251	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	51869	10532251	135831771	192	37544										
ADAMDEC1	27299	broad.mit.edu	37	chr8	24259568	24259568	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agtgtgtgggaaccaccttcTagaagtgggagaagactgtg	15	6	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:24259568T>C	uc003xdz.2	+	12	1503	c.1283T>C	c.(1282-1284)CTA>CCA	p.L428P	ADAMDEC1_uc010lub.2_Missense_Mutation_p.L349P|ADAMDEC1_uc011lab.1_Missense_Mutation_p.L349P	NM_014479	NP_055294	O15204	ADEC1_HUMAN	ADAM-like, decysin 1 isoform 1	428	Disintegrin.				integrin-mediated signaling pathway|negative regulation of cell adhesion|proteolysis	extracellular region|integral to membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)	2		Prostate(55;0.0181)		Colorectal(74;0.016)|COAD - Colon adenocarcinoma(73;0.0646)|BRCA - Breast invasive adenocarcinoma(99;0.168)		AACCACCTTCTAGAAGTGGGA	0.373													55	8	---	---	---	---	PASS	C	24259568	C	C	24259568	3	2	100	1	0	0	0	0	1	0	0	0	254	1522	53	5	1329	5	ADAMDEC1	8	24259568	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	13727317	24259568	122104454	193	37545										
TEX15	56154	broad.mit.edu	37	chr8	30699552	30699552	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	acaactggaaacagtagtatCttgctgttgttcctgagagt	10	7	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:30699552C>T	uc003xil.2	-	1	6982	c.6982G>A	c.(6982-6984)GAT>AAT	p.D2328N		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2328										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		ACAGTAGTATCTTGCTGTTGT	0.343													53	17	---	---	---	---	PASS	T	30699552	T	T	30699552	3	4	100	1	0	0	0	0	1	0	0	0	15776	913	32	2	1403	2	TEX15	8	30699552	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	6439984	30699552	115664470	194	37546										
TEX15	56154	broad.mit.edu	37	chr8	30704329	30704329	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctattctcccttcctgtggtGctttccaaaacttccatctc	4	15	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:30704329G>C	uc003xil.2	-	1	2205	c.2205C>G	c.(2203-2205)AGC>AGG	p.S735R		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	735										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TTCCTGTGGTGCTTTCCAAAA	0.388													44	12	---	---	---	---	PASS	C	30704329	C	C	30704329	3	2	100	1	0	0	0	0	1	0	0	0	15776	1310	46	4	6180	4	TEX15	8	30704329	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	4777	30704329	115659693	195	37547										
CHD7	55636	broad.mit.edu	37	chr8	61766950	61766950	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtctctagagggaagaatttTgatgaagaaagcaatgcttc	11	5	1	5			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:61766950T>A	uc003xue.2	+	32	7281	c.6804T>A	c.(6802-6804)TTT>TTA	p.F2268L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2268					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)			GGAAGAATTTTGATGAAGAAA	0.438													18	42	---	---	---	---	PASS	A	61766950	A	A	61766950	3	1	100	1	0	0	0	0	1	0	0	0	3330	1809	63	5	6926	5	CHD7	8	61766950	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	31062621	61766950	84597072	196	37548										
MRPS28	28957	broad.mit.edu	37	chr8	80831357	80831357	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	caagatctaatagccgcaacCggaccctggttcctttctgg	9	13	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:80831357C>T	uc003ybp.2	-	3	445	c.422G>A	c.(421-423)CGG>CAG	p.R141Q	MRPS28_uc003ybo.2_Missense_Mutation_p.R50Q|TPD52_uc010lzr.2_RNA	NM_014018	NP_054737	Q9Y2Q9	RT28_HUMAN	mitochondrial ribosomal protein S28	141						mitochondrial small ribosomal subunit					0	Lung NSC(7;1.86e-06)|all_lung(9;6.91e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00769)|Epithelial(68;0.0208)|all cancers(69;0.0805)			TAGCCGCAACCGGACCCTGGT	0.373													98	56	---	---	---	---	PASS	T	80831357	T	T	80831357	3	4	100	1	0	0	0	0	1	0	0	0	9839	652	23	1	145	1	MRPS28	8	80831357	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	19064407	80831357	65532665	197	37549										
FAM82B	51115	broad.mit.edu	37	chr8	87498812	87498812	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttctcctcttctgaggttctGctaagctgagctacatcacg	8	12	5	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:87498812G>T	uc003ydu.2	-	4	556	c.396C>A	c.(394-396)AGC>AGA	p.S132R	FAM82B_uc011lfz.1_Missense_Mutation_p.S132R|FAM82B_uc011lga.1_Missense_Mutation_p.S132R	NM_016033	NP_057117	Q96DB5	RMD1_HUMAN	regulator of microtubule dynamics 1	132						microtubule|spindle pole	binding			ovary(1)	1						CTGAGGTTCTGCTAAGCTGAG	0.388													55	47	---	---	---	---	PASS	T	87498812	T	T	87498812	3	4	100	1	0	0	0	0	1	0	0	0	5632	1310	46	3	576	3	FAM82B	8	87498812	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	6667455	87498812	58865210	198	37550										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885715	88885715	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggaagctacctatgaacagcGacgctgggagcagcacggca	14	11	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:88885715G>T	uc003ydz.2	-	1	582	c.485C>A	c.(484-486)TCG>TAG	p.S162*		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	162										ovary(1)	1						TATGAACAGCGACGCTGGGAG	0.572													77	48	---	---	---	---	PASS	T	88885715	T	T	88885715	4	4	100	1	0	0	0	0	0	1	0	0	4272	1059	37	2	706	2	DCAF4L2	8	88885715	Nonsense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	1386903	88885715	57478307	199	37551										
CSMD3	114788	broad.mit.edu	37	chr8	113266518	113266518	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttgttctgagatccatgccgAggcacacctgggttttcaca	10	11	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:113266518A>T	uc003ynu.2	-	63	10233	c.10074T>A	c.(10072-10074)CCT>CCA	p.P3358P	CSMD3_uc003yns.2_Silent_p.P2560P|CSMD3_uc003ynt.2_Silent_p.P3318P|CSMD3_uc011lhx.1_Silent_p.P3189P	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3358	Extracellular (Potential).|Sushi 27.					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						ATCCATGCCGAGGCACACCTG	0.373										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			169	306	---	---	---	---	PASS	T	113266518	T	T	113266518	2	4	100	1	0	0	0	0	0	0	0	1	3946	291	11	5		5	CSMD3	8	113266518	Silent	SNP	A	TCGA-43-6143-01A-11D-1817-08	24380803	113266518	33097504	200	37552										
ADCY8	114	broad.mit.edu	37	chr8	131812681	131812681	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cttagatttacctcatcgaaGtcagcaatgatctcattgag	7	9	3	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:131812681G>C	uc003ytd.3	-	15	3307	c.3051C>G	c.(3049-3051)GAC>GAG	p.D1017E	ADCY8_uc010mds.2_Missense_Mutation_p.D886E	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1017	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CCTCATCGAAGTCAGCAATGA	0.403										HNSCC(32;0.087)			112	85	---	---	---	---	PASS	C	131812681	C	C	131812681	3	2	100	1	0	0	0	0	1	0	0	0	300	1020	36	4	720	4	ADCY8	8	131812681	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	18546163	131812681	14551341	201	37553										
TG	7038	broad.mit.edu	37	chr8	133899251	133899251	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	taagaaggatggtactatgaAtaagccaactgtgggcagct	12	6	0	2	rs145429573		TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:133899251A>G	uc003ytw.2	+	9	1675	c.1634A>G	c.(1633-1635)AAT>AGT	p.N545S		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	545					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GGTACTATGAATAAGCCAACT	0.453													46	85	---	---	---	---	PASS	G	133899251	G	G	133899251	3	3	100	1	0	0	0	0	1	0	0	0	15810	101	4	5	1668	5	TG	8	133899251	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	2086570	133899251	12464771	202	37554										
PLEC	5339	broad.mit.edu	37	chr8	144993616	144993616	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcaggcggatgccgtgctgcCggagaaccaggcccttctgc	15	14	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:144993616C>A	uc003zaf.1	-	32	10954	c.10784G>T	c.(10783-10785)CGG>CTG	p.R3595L	PLEC_uc003zab.1_Missense_Mutation_p.R3458L|PLEC_uc003zac.1_Missense_Mutation_p.R3462L|PLEC_uc003zad.2_Missense_Mutation_p.R3458L|PLEC_uc003zae.1_Missense_Mutation_p.R3426L|PLEC_uc003zag.1_Missense_Mutation_p.R3436L|PLEC_uc003zah.2_Missense_Mutation_p.R3444L|PLEC_uc003zaj.2_Missense_Mutation_p.R3485L	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3595	Plectin 14.|Globular 2.				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						GCCGTGCTGCCGGAGAACCAG	0.682													41	85	---	---	---	---	PASS	A	144993616	A	A	144993616	3	1	100	1	0	0	0	0	1	0	0	0	12052	652	23	1	3274	1	PLEC	8	144993616	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	11094365	144993616	1370406	203	37555										
GRINA	2907	broad.mit.edu	37	chr8	145066865	145066865	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgctgtcacctccagttcctCgcagtggacacccagctgct	9	16	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr8:145066865C>T	uc003zan.1	+	7	1138	c.972C>T	c.(970-972)CTC>CTT	p.L324L	GRINA_uc003zao.1_Silent_p.L324L|GRINA_uc003zap.1_Silent_p.L324L	NM_001009184	NP_001009184	Q7Z429	GRINA_HUMAN	glutamate receptor, ionotropic, N-methyl	324	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TCCAGTTCCTCGCAGTGGACA	0.592													9	65	---	---	---	---	PASS	T	145066865	T	T	145066865	2	4	100	1	0	0	0	0	0	0	0	1	6785	871	31	2		2	GRINA	8	145066865	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	73249	145066865	1297157	204	37556										
ZDHHC21	340481	broad.mit.edu	37	chr9	14619681	14619681	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttttcaatagatgttgtatcCtattaaaaataaaaaattat	3	3	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr9:14619681C>G	uc003zli.2	-	9	1092	c.622_splice	c.e9-1	p.D208_splice	ZDHHC21_uc003zlg.1_Intron	NM_178566	NP_848661	Q8IVQ6	ZDH21_HUMAN	zinc finger, DHHC-type containing 21						nitric oxide metabolic process|regulation of nitric-oxide synthase activity	Golgi membrane|integral to membrane	palmitoyltransferase activity|zinc ion binding				0				GBM - Glioblastoma multiforme(50;4.31e-06)		ATGTTGTATCCtattaaaaat	0.234													4	77	---	---	---	---	PASS	G	14619681	G	G	14619681	5	3	100	1	0	0	0	0	0	0	1	0	17609	695	24	4	176	4	ZDHHC21	9	14619681	Splice_Site	SNP	C	TCGA-43-6143-01A-11D-1817-08		14619681	126593750	205	37557										
TRPM3	80036	broad.mit.edu	37	chr9	73442928	73442928	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggacatggtctggtatggccGgacaacctgcagggtatcaa	14	9	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr9:73442928G>A	uc004aid.2	-	6	1052	c.808C>T	c.(808-810)CGG>TGG	p.R270W	TRPM3_uc004ahu.2_Missense_Mutation_p.R100W|TRPM3_uc004ahv.2_Missense_Mutation_p.R100W|TRPM3_uc004ahw.2_Missense_Mutation_p.R117W|TRPM3_uc004ahx.2_Missense_Mutation_p.R117W|TRPM3_uc004ahy.2_Missense_Mutation_p.R117W|TRPM3_uc004ahz.2_Missense_Mutation_p.R117W|TRPM3_uc004aia.2_Missense_Mutation_p.R117W|TRPM3_uc004aib.2_Missense_Mutation_p.R117W|TRPM3_uc004aic.2_Missense_Mutation_p.R270W|TRPM3_uc010mor.2_Missense_Mutation_p.R270W|TRPM3_uc004aie.2_Missense_Mutation_p.R117W|TRPM3_uc004aif.2_Missense_Mutation_p.R117W|TRPM3_uc004aig.2_Missense_Mutation_p.R117W|TRPM3_uc004aii.2_Missense_Mutation_p.R272W	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	270	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						TGGTATGGCCGGACAACCTGC	0.453													4	117	---	---	---	---	PASS	A	73442928	A	A	73442928	3	1	100	1	0	0	0	0	1	0	0	0	16584	1115	39	1	4518	1	TRPM3	9	73442928	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	58823247	73442928	67770503	206	37558										
GOLM1	51280	broad.mit.edu	37	chr9	88655734	88655734	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tttggtgacctcttctattcGctcctcacactgttccttca	5	14	4	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr9:88655734G>T	uc004aol.2	-	6	715	c.517C>A	c.(517-519)CGA>AGA	p.R173R	GOLM1_uc010mqd.1_RNA|GOLM1_uc004aom.2_Silent_p.R173R	NM_016548	NP_057632	Q8NBJ4	GOLM1_HUMAN	golgi membrane protein 1	173	Potential.|Lumenal (Potential).					Golgi apparatus|integral to plasma membrane					0						TCTTCTATTCGCTCCTCACAC	0.483													69	6	---	---	---	---	PASS	T	88655734	T	T	88655734	2	4	100	1	0	0	0	0	0	0	0	1	6567	1095	38	1		1	GOLM1	9	88655734	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	15212806	88655734	52557697	207	37559										
RNF20	56254	broad.mit.edu	37	chr9	104324230	104324230	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cgcaggaagctggagaccacAaagaaaccagacaatgtacc	10	11	0	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr9:104324230A>G	uc004bbn.2	+	19	2778	c.2688A>G	c.(2686-2688)ACA>ACG	p.T896T		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	896	Potential.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		TGGAGACCACAAAGAAACCAG	0.388													122	27	---	---	---	---	PASS	G	104324230	G	G	104324230	2	3	100	1	0	0	0	0	0	0	0	1	13473	117	5	5		5	RNF20	9	104324230	Silent	SNP	A	TCGA-43-6143-01A-11D-1817-08	15668496	104324230	36889201	208	37560										
OR13F1	138805	broad.mit.edu	37	chr9	107266756	107266756	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aatctctcctttctggacatCtggtactcctcttctgccct	5	15	5	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr9:107266756C>A	uc011lvm.1	+	1	213	c.213C>A	c.(211-213)ATC>ATA	p.I71I		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	71	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						TTCTGGACATCTGGTACTCCT	0.493													83	26	---	---	---	---	PASS	A	107266756	A	A	107266756	2	1	100	1	0	0	0	0	0	0	0	1	10941	903	32	2		2	OR13F1	9	107266756	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	2942526	107266756	33946675	209	37561										
ASTN2	23245	broad.mit.edu	37	chr9	119858403	119858403	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctgcctctgagcccgacgtcCccttggctctcccaaagctg	9	18	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr9:119858403C>A	uc004bjs.1	-	5	1297	c.1196G>T	c.(1195-1197)GGG>GTG	p.G399V	ASTN2_uc004bjr.1_Missense_Mutation_p.G399V|ASTN2_uc004bjt.1_Missense_Mutation_p.G348V	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	399	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GCCCGACGTCCCCTTGGCTCT	0.542													24	5	---	---	---	---	PASS	A	119858403	A	A	119858403	3	1	100	1	0	0	0	0	1	0	0	0	1065	623	22	3	3131	3	ASTN2	9	119858403	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	12591647	119858403	21355028	210	37562										
DBC1	1620	broad.mit.edu	37	chr9	121930121	121930121	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aagaaggtgtcgaggcggatCtcgttgctgatgaaggtggt	17	5	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr9:121930121C>G	uc004bkc.2	-	8	1983	c.1527G>C	c.(1525-1527)GAG>GAC	p.E509D		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	509					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						CGAGGCGGATCTCGTTGCTGA	0.557													30	9	---	---	---	---	PASS	G	121930121	G	G	121930121	3	3	100	1	0	0	0	0	1	0	0	0	4247	912	32	2	762	2	DBC1	9	121930121	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	2071718	121930121	19283310	211	37563										
CDK5RAP2	55755	broad.mit.edu	37	chr9	123156817	123156817	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aaagatgactttttcctggcGcttgctcagctgcaaaagct	9	10	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr9:123156817G>C	uc004bkf.2	-	36	5732	c.5551C>G	c.(5551-5553)CGC>GGC	p.R1851G	CDK5RAP2_uc010mvi.2_Missense_Mutation_p.R860G|CDK5RAP2_uc004bke.2_Missense_Mutation_p.R1136G|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.R1772G|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.R1116G|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.R1116G|CDK5RAP2_uc011lya.1_Missense_Mutation_p.R1116G|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.R1621G	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	1851	Interaction with PCNT and AKAP9.				brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						TTTTCCTGGCGCTTGCTCAGC	0.478													45	13	---	---	---	---	PASS	C	123156817	C	C	123156817	3	2	100	1	0	0	0	0	1	0	0	0	3146	1087	38	4	142	4	CDK5RAP2	9	123156817	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	1226696	123156817	18056614	212	37564										
DPM2	8818	broad.mit.edu	37	chr9	130699797	130699797	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cccaccacctggtctgtcccCgtggcctggagaaaagggag	13	14	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr9:130699797C>A	uc004bsv.2	-	2	673	c.9G>T	c.(7-9)ACG>ACT	p.T3T		NM_003863	NP_003854	O94777	DPM2_HUMAN	dolichyl-phosphate mannosyltransferase 2	3					C-terminal protein lipidation|dolichol-linked oligosaccharide biosynthetic process|preassembly of GPI anchor in ER membrane|protein N-linked glycosylation via asparagine|protein O-linked mannosylation|regulation of protein stability	dolichol-phosphate-mannose synthase complex|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|integral to endoplasmic reticulum membrane	protein binding				0						GGTCTGTCCCCGTGGCCTGGA	0.592													26	4	---	---	---	---	PASS	A	130699797	A	A	130699797	2	1	100	1	0	0	0	0	0	0	0	1	4725	639	23	1		1	DPM2	9	130699797	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	7542980	130699797	10513634	213	37565										
WDR85	92715	broad.mit.edu	37	chr9	140468735	140468735	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttgatgtgcctgccatgaggCcactttctgcagcctgggcc	12	13	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr9:140468735C>T	uc004cnk.1	-	5	723	c.565G>A	c.(565-567)GCC>ACC	p.A189T	WDR85_uc004cnl.1_Missense_Mutation_p.A13T|WDR85_uc004cnm.1_5'UTR|WDR85_uc004cnn.1_Intron	NM_138778	NP_620133	Q9BTV6	WDR85_HUMAN	WD repeat domain 85	189					peptidyl-diphthamide biosynthetic process from peptidyl-histidine						0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.00029)|Epithelial(140;0.000509)		TGCCATGAGGCCACTTTCTGC	0.547													7	106	---	---	---	---	PASS	T	140468735	T	T	140468735	3	4	100	1	0	0	0	0	1	0	0	0	17330	739	26	3	813	3	WDR85	9	140468735	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	9768938	140468735	744696	214	37566										
APBB1IP	54518	broad.mit.edu	37	chr10	26849102	26849102	+	Missense_Mutation	SNP	C	A	A													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gatgacacaagaacccttaaCcagtgggtcatgggaatacg							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:26849102C>A	uc001iss.2	+	12	1545	c.1224C>A	c.(1222-1224)AAC>AAA	p.N408K		NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	408	PH.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						GAACCCTTAACCAGTGGGTCA	0.493													15	79	---	---	---	---	PASS	A	26849102	A	A	26849102	3	1	100	1	0	0	0	0	1	0	0	0	760	506	18	3	1262	3	APBB1IP	10	26849102	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08		26849102	108685645	215	37567	697	2								
APBB1IP	54518	broad.mit.edu	37	chr10	26849103	26849103	+	Nonsense_Mutation	SNP	C	T	T													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atgacacaagaacccttaacCagtgggtcatgggaatacgg							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:26849103C>T	uc001iss.2	+	12	1546	c.1225C>T	c.(1225-1227)CAG>TAG	p.Q409*		NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	409	PH.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						AACCCTTAACCAGTGGGTCAT	0.493													13	79	---	---	---	---	PASS	T	26849103	T	T	26849103	4	4	100	1	0	0	0	0	0	1	0	0	760	595	21	3	1263	3	APBB1IP	10	26849103	Nonsense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	1	26849103	108685644	216	37568	697	2								
APBB1IP	54518	broad.mit.edu	37	chr10	26849116	26849116	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccttaaccagtgggtcatggGaatacggatagccaaggtga	13	8	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:26849116G>C	uc001iss.2	+	12	1559	c.1238G>C	c.(1237-1239)GGA>GCA	p.G413A		NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	413	PH.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						TGGGTCATGGGAATACGGATA	0.498													9	66	---	---	---	---	PASS	C	26849116	C	C	26849116	3	2	100	1	0	0	0	0	1	0	0	0	760	1174	41	2	1276	2	APBB1IP	10	26849116	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	13	26849116	108685631	217	37569										
MKX	283078	broad.mit.edu	37	chr10	28024303	28024303	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	attagcaaaccaatttgacaCctaaaacagtattatttttc	3	8	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:28024303C>T	uc001ity.3	-	4	574	c.349G>A	c.(349-351)GTG>ATG	p.V117M	MKX_uc001itx.3_Missense_Mutation_p.V117M	NM_173576	NP_775847	Q8IYA7	MKX_HUMAN	mohawk homeobox	117	Homeobox; TALE-type.				muscle organ development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CAATTTGACACCTAAAACAGT	0.358													24	56	---	---	---	---	PASS	T	28024303	T	T	28024303	3	4	100	1	0	0	0	0	1	0	0	0	9610	521	18	3	725	3	MKX	10	28024303	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	1175187	28024303	107510444	218	37570										
ARMC4	55130	broad.mit.edu	37	chr10	28151364	28151364	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aaaaagatgtgttacttactGtatttgccagtttggacaat	8	5	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:28151364G>T	uc009xky.2	-	18	2896	c.2798C>A	c.(2797-2799)ACA>AAA	p.T933K	ARMC4_uc010qds.1_Missense_Mutation_p.T458K|ARMC4_uc010qdt.1_Missense_Mutation_p.T625K|ARMC4_uc001itz.2_Missense_Mutation_p.T933K	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	933	ARM 8.						binding			ovary(4)|skin(2)	6						GTTACTTACTGTATTTGCCAG	0.244													35	48	---	---	---	---	PASS	T	28151364	T	T	28151364	3	4	100	1	0	0	0	0	1	0	0	0	953	1391	48	3	348	3	ARMC4	10	28151364	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	127061	28151364	107383383	219	37571										
ASAH2	56624	broad.mit.edu	37	chr10	52005134	52005134	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggtggctgtggaatgctgggTggctgtggagcgttgggcag	22	5	0	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:52005134T>A	uc001jjd.2	-	2	208	c.208A>T	c.(208-210)ACC>TCC	p.T70S	ASAH2_uc009xos.2_Missense_Mutation_p.T70S	NM_019893	NP_063946	Q9NR71	ASAH2_HUMAN	N-acylsphingosine amidohydrolase 2 isoform a	70	Lumenal (Potential).				apoptosis|ceramide metabolic process|signal transduction	integral to membrane|mitochondrion|plasma membrane	ceramidase activity				0						GAATGCTGGGTGGCTGTGGAG	0.517													51	29	---	---	---	---	PASS	A	52005134	A	A	52005134	3	1	100	1	0	0	0	0	1	0	0	0	1007	1696	59	5	2210	5	ASAH2	10	52005134	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	23853770	52005134	83529613	220	37572										
DKK1	22943	broad.mit.edu	37	chr10	54074771	54074771	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggacgcaggcgtgcaaatctGtctcgcctgcaggaagcgcc	14	13	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:54074771G>T	uc001jjr.2	+	2	486	c.332G>T	c.(331-333)TGT>TTT	p.C111F	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	111	DKK-type Cys-1.				negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						GTGCAAATCTGTCTCGCCTGC	0.607											OREG0020191	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	24	---	---	---	---	PASS	T	54074771	T	T	54074771	3	4	100	1	0	0	0	0	1	0	0	0	4544	1377	48	3	338	3	DKK1	10	54074771	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	2069637	54074771	81459976	221	37573										
TSPAN15	23555	broad.mit.edu	37	chr10	71265996	71265996	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctgggcatcctgcttccccaGgtgggcaggccgtgggttca	15	13	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:71265996G>T	uc001jpo.1	+	7	860	c.735G>T	c.(733-735)CAG>CAT	p.Q245H		NM_012339	NP_036471	O95858	TSN15_HUMAN	transmembrane 4 superfamily member 15	245	Helical; (Potential).					integral to plasma membrane|membrane fraction					0						TGCTTCCCCAGGTGGGCAGGC	0.557													24	33	---	---	---	---	PASS	T	71265996	T	T	71265996	3	4	100	1	0	0	0	0	1	0	0	0	16636	1014	35	3	761	3	TSPAN15	10	71265996	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	17191225	71265996	64268751	222	37574										
NEUROG3	50674	broad.mit.edu	37	chr10	71332658	71332658	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcagcctccctcttccgcctCtgcgcagttcccccgtgtgc	9	20	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:71332658C>T	uc001jpp.2	-	2	300	c.142G>A	c.(142-144)GAG>AAG	p.E48K		NM_020999	NP_066279	Q9Y4Z2	NGN3_HUMAN	neurogenin 3	48					central nervous system development|endocrine pancreas development|peripheral nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	transcription coactivator activity				0						TCTTCCGCCTCTGCGCAGTTC	0.721													6	20	---	---	---	---	PASS	T	71332658	T	T	71332658	3	4	100	1	0	0	0	0	1	0	0	0	10354	922	32	2	506	2	NEUROG3	10	71332658	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	66662	71332658	64202089	223	37575										
ECD	11319	broad.mit.edu	37	chr10	74899087	74899087	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cgaggcagctctgctcccttGtgggttgagactttggatat	13	9	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:74899087G>A	uc001jtn.2	-	11	1644	c.1401C>T	c.(1399-1401)CAC>CAT	p.H467H	ECD_uc009xqx.2_Silent_p.H500H|ECD_uc009xqy.2_Silent_p.H424H|ECD_uc001jto.2_Silent_p.H166H	NM_007265	NP_009196	O95905	SGT1_HUMAN	suppressor of S. cerevisiae gcr2 isoform 1	467					regulation of glycolysis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	transcription coactivator activity			pancreas(1)	1	Prostate(51;0.0119)					CTGCTCCCTTGTGGGTTGAGA	0.393													11	67	---	---	---	---	PASS	A	74899087	A	A	74899087	2	1	100	1	0	0	0	0	0	0	0	1	4888	1368	48	3		3	ECD	10	74899087	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	3566429	74899087	60635660	224	37576										
ZMIZ1	57178	broad.mit.edu	37	chr10	81058846	81058847	+	Frame_Shift_Del	DEL	GG	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcggctcacattccctgtgcGggatggcgtggtgctggagc							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:81058846_81058847delGG	uc001kaf.2	+	16	2278_2279	c.1706_1707delGG	c.(1705-1707)CGGfs	p.R569fs	ZMIZ1_uc001kag.2_Frame_Shift_Del_p.R445fs	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	569					transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			TTCCCTGTGCGGGATGGCGTGG	0.649													14	23	---	---	---	---		-	81058847	-	-	81058846	7	5	100	1	0	1	0	1	0	0	0	0	17693	1116	39	0	1752	0	ZMIZ1	10	81058846	Frame_Shift_Del	DEL	GG	TCGA-43-6143-01A-11D-1817-08	6159759	81058846	54475901	225	37577										
C10orf12	26148	broad.mit.edu	37	chr10	98743831	98743831	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgtgaagaagctcaatactcGccttccaggagacgttcccc	9	13	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:98743831G>T	uc001kmv.2	+	1	2791	c.2684G>T	c.(2683-2685)CGC>CTC	p.R895L		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	895										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		CTCAATACTCGCCTTCCAGGA	0.433													31	54	---	---	---	---	PASS	T	98743831	T	T	98743831	3	4	100	1	0	0	0	0	1	0	0	0	1589	1087	38	1	2686	1	C10orf12	10	98743831	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	17684985	98743831	36790916	226	37578										
SORCS3	22986	broad.mit.edu	37	chr10	107005322	107005322	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tctcatcactttggacagcaGcatttccttcacattccttg	5	13	3	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:107005322G>T	uc001kyi.1	+	21	3118	c.2891G>T	c.(2890-2892)AGC>ATC	p.S964I	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	964	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		TTGGACAGCAGCATTTCCTTC	0.448													52	57	---	---	---	---	PASS	T	107005322	T	T	107005322	3	4	100	1	0	0	0	0	1	0	0	0	14932	971	34	3	2973	3	SORCS3	10	107005322	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	8261491	107005322	28529425	227	37579										
SORCS3	22986	broad.mit.edu	37	chr10	107016620	107016620	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gggcacagcagctcagccatGcttatgctattatcagtggt	11	10	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:107016620G>A	uc001kyi.1	+	25	3608	c.3381G>A	c.(3379-3381)ATG>ATA	p.M1127I		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	1127	Helical; (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GCTCAGCCATGCTTATGCTAT	0.428													39	26	---	---	---	---	PASS	A	107016620	A	A	107016620	3	1	100	1	0	0	0	0	1	0	0	0	14932	1319	46	3	3479	3	SORCS3	10	107016620	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	11298	107016620	28518127	228	37580										
PPAPDC1A	196051	broad.mit.edu	37	chr10	122334709	122334709	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gctgcactgcttcaccgagaGtgggcggggaaagagctggc	17	10	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:122334709G>T	uc001lev.1	+	6	864	c.512G>T	c.(511-513)AGT>ATT	p.S171I	PPAPDC1A_uc010qtd.1_Missense_Mutation_p.S171I|PPAPDC1A_uc009xzl.1_Missense_Mutation_p.S108I|PPAPDC1A_uc001lew.1_Missense_Mutation_p.V78L|PPAPDC1A_uc001lex.1_Intron|PPAPDC1A_uc001ley.1_Missense_Mutation_p.S50I	NM_001030059	NP_001025230	Q5VZY2	PPC1A_HUMAN	phosphatidic acid phosphatase type 2 domain	171					phospholipid dephosphorylation	integral to membrane	phosphatidate phosphatase activity			breast(1)	1		Lung NSC(174;0.1)|all_lung(145;0.132)		all cancers(201;0.0117)		TTCACCGAGAGTGGGCGGGGA	0.577													59	43	---	---	---	---	PASS	T	122334709	T	T	122334709	3	4	100	1	0	0	0	0	1	0	0	0	12293	1029	36	3	534	3	PPAPDC1A	10	122334709	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	15318089	122334709	13200038	229	37581										
C10orf93	255352	broad.mit.edu	37	chr10	134743117	134743117	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gaagccctgggggccgtggcCtggtgaactgctcttccttt	14	12	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:134743117C>A	uc001llt.1	-	9	1134	c.1058G>T	c.(1057-1059)AGG>ATG	p.R353M		NM_173572	NP_775843	Q5SR76	CJ093_HUMAN	hypothetical protein LOC255352	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							binding			pancreas(1)	1		all_cancers(35;1.8e-07)|all_epithelial(44;6.22e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Colorectal(31;0.119)|Glioma(114;0.172)|Melanoma(40;0.175)		Epithelial(32;4.28e-05)|OV - Ovarian serous cystadenocarcinoma(35;4.31e-05)|all cancers(32;5.02e-05)		GGGCCGTGGCCTGGTGAACTG	0.443													85	47	---	---	---	---	PASS	A	134743117	A	A	134743117	3	1	100	1	0	0	0	0	1	0	0	0	1625	681	24	3	163	3	C10orf93	10	134743117	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	12408408	134743117	791630	230	37582										
KNDC1	85442	broad.mit.edu	37	chr10	135000076	135000076	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agccaggggccagcagaggcCcctgcagaccctcgagatgc	14	15	0	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:135000076C>A	uc001llz.1	+	6	1225	c.1224C>A	c.(1222-1224)GCC>GCA	p.A408A	KNDC1_uc001lma.1_Silent_p.A343A	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	408					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		CAGCAGAGGCCCCTGCAGACC	0.672													6	53	---	---	---	---	PASS	A	135000076	A	A	135000076	2	1	100	1	0	0	0	0	0	0	0	1	8426	610	22	3		3	KNDC1	10	135000076	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	256959	135000076	534671	231	37583										
FRG2B	441581	broad.mit.edu	37	chr10	135440199	135440199	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gggggctggtcagtggagcaCtggatggaggagcagtggag	22	5	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr10:135440199C>A	uc010qvg.1	-	1	101	c.48G>T	c.(46-48)CAG>CAT	p.Q16H		NM_001080998	NP_001074467	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	16						nucleus					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		CAGTGGAGCACTGGATGGAGG	0.512													22	348	---	---	---	---	PASS	A	135440199	A	A	135440199	3	1	100	1	0	0	0	0	1	0	0	0	6047	564	20	3	803	3	FRG2B	10	135440199	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	440123	135440199	94548	232	37584										
RASSF7	8045	broad.mit.edu	37	chr11	563234	563234	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgaaccgagagctccgtcagTgcaacctgcagcagttcatc	10	13	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:563234T>A	uc001lqc.2	+	4	903	c.868T>A	c.(868-870)TGC>AGC	p.C290S	C11orf35_uc001lpx.2_5'Flank|RASSF7_uc001lqa.2_Missense_Mutation_p.C290S|RASSF7_uc001lqb.2_Missense_Mutation_p.C290S|RASSF7_uc001lqd.2_Missense_Mutation_p.C290S	NM_003475	NP_003466	Q02833	RASF7_HUMAN	Ras association (RalGDS/AF-6) domain family	290	Potential.				regulation of transcription, DNA-dependent|signal transduction	nucleus	DNA binding|protein binding			skin(1)	1		all_cancers(49;2.16e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;7.18e-28)|Epithelial(43;6.93e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.97e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GCTCCGTCAGTGCAACCTGCA	0.657													22	2	---	---	---	---	PASS	A	563234	A	A	563234	3	1	100	1	0	0	0	0	1	0	0	0	13091	1696	59	5	878	5	RASSF7	11	563234	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08		563234	134443282	233	37585										
OR52J3	119679	broad.mit.edu	37	chr11	5068285	5068285	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttgtcaggctcacataatagCccattcctactgtgagcaca	7	12	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:5068285C>A	uc010qyv.1	+	1	530	c.530C>A	c.(529-531)GCC>GAC	p.A177D		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	177	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		CACATAATAGCCCATTCCTAC	0.423													59	10	---	---	---	---	PASS	A	5068285	A	A	5068285	3	1	100	1	0	0	0	0	1	0	0	0	11122	739	26	3	532	3	OR52J3	11	5068285	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	4505051	5068285	129938231	234	37586										
OR56A4	120793	broad.mit.edu	37	chr11	6023918	6023918	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgttcatgatgaacatctggAggaagcaggctgggaagctg	15	6	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:6023918A>T	uc010qzv.1	-	1	461	c.461T>A	c.(460-462)CTC>CAC	p.L154H		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	102	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAACATCTGGAGGAAGCAGGC	0.532													32	11	---	---	---	---	PASS	T	6023918	T	T	6023918	3	4	100	1	0	0	0	0	1	0	0	0	11135	304	11	5	638	5	OR56A4	11	6023918	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	955633	6023918	128982598	235	37587										
OR4C13	283092	broad.mit.edu	37	chr11	49974874	49974874	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aatgccattaggaaattgtgTagtaggaaagctatttcaag	10	4	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:49974874T>A	uc010rhz.1	+	1	900	c.900T>A	c.(898-900)TGT>TGA	p.C300*		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						GGAAATTGTGTAGTAGGAAAG	0.388													23	6	---	---	---	---	PASS	A	49974874	A	A	49974874	4	1	100	1	0	0	0	0	0	1	0	0	11047	1644	57	5	902	5	OR4C13	11	49974874	Nonsense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	43950956	49974874	85031642	236	37588										
TRIM48	79097	broad.mit.edu	37	chr11	55032389	55032389	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tcctcagaaacatgaattctGgaatctcgcaagtcttccag	7	11	4	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:55032389G>C	uc010rid.1	+	2	144	c.58G>C	c.(58-60)GGA>CGA	p.G20R		NM_024114	NP_077019	Q8IWZ4	TRI48_HUMAN	tripartite motif-containing 48	4						intracellular	zinc ion binding				0						CATGAATTCTGGAATCTCGCA	0.468													170	8	---	---	---	---	PASS	C	55032389	C	C	55032389	3	2	100	1	0	0	0	0	1	0	0	0	16520	1349	47	4	64	4	TRIM48	11	55032389	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	5057515	55032389	79974127	237	37589										
OR4C6	219432	broad.mit.edu	37	chr11	55433053	55433053	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	acgatcatcatgagtccacgGgtgtgctgcctaatggtagg	13	9	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:55433053G>T	uc001nht.3	+	3	676	c.411G>T	c.(409-411)CGG>CGT	p.R137R	OR4C6_uc010rik.1_Silent_p.R137R	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TGAGTCCACGGGTGTGCTGCC	0.512													7	61	---	---	---	---	PASS	T	55433053	T	T	55433053	2	4	100	1	0	0	0	0	0	0	0	1	11052	1219	43	3		3	OR4C6	11	55433053	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	400664	55433053	79573463	238	37590										
OR5W2	390148	broad.mit.edu	37	chr11	55681456	55681456	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agttcaataaaaccaaagacGgtgaataacactaactcatt	5	8	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:55681456G>T	uc010rir.1	-	1	603	c.603C>A	c.(601-603)ACC>ACA	p.T201T		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	201	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AACCAAAGACGGTGAATAACA	0.388													31	40	---	---	---	---	PASS	T	55681456	T	T	55681456	2	4	100	1	0	0	0	0	0	0	0	1	11185	1103	39	1		1	OR5W2	11	55681456	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	248403	55681456	79325060	239	37591										
LRRC55	219527	broad.mit.edu	37	chr11	56954748	56954748	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tggctgagtgccggggccctCctgaagtcgagggcgccccg	17	14	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:56954748C>G	uc001njl.1	+	2	967	c.820C>G	c.(820-822)CCT>GCT	p.P274A	LRRC55_uc001njm.1_5'Flank	NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	244	LRRCT.					integral to membrane					0						CCGGGGCCCTCCTGAAGTCGA	0.587													45	73	---	---	---	---	PASS	G	56954748	G	G	56954748	3	3	100	1	0	0	0	0	1	0	0	0	9011	855	30	2	826	2	LRRC55	11	56954748	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	1273292	56954748	78051768	240	37592										
PRG2	5553	broad.mit.edu	37	chr11	57155270	57155270	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgaccaccgcgggaccagggCtggtgagcagcccagtatgc	15	13	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:57155270C>A	uc001njz.2	-	4	594	c.567G>T	c.(565-567)CAG>CAT	p.Q189H	PRG2_uc001njw.1_RNA|PRG2_uc001njx.1_RNA|PRG2_uc001njy.1_RNA|PRG2_uc001nka.2_Missense_Mutation_p.Q189H|PRG2_uc001nkb.2_Missense_Mutation_p.Q189H|PRG2_uc001nkd.2_Missense_Mutation_p.Q178H|PRG2_uc001nkc.2_Missense_Mutation_p.Q189H|PRG2_uc001nke.2_Missense_Mutation_p.Q469H	NM_002728	NP_002719	P13727	PRG2_HUMAN	proteoglycan 2 preproprotein	189	C-type lectin.				defense response to bacterium|immune response	extracellular region|transport vesicle	heparin binding|sugar binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Sargramostim(DB00020)	GGGACCAGGGCTGGTGAGCAG	0.622													7	13	---	---	---	---	PASS	A	57155270	A	A	57155270	3	1	100	1	0	0	0	0	1	0	0	0	12479	796	28	3	109	3	PRG2	11	57155270	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	200522	57155270	77851246	241	37593										
OR9Q2	219957	broad.mit.edu	37	chr11	57958004	57958004	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtagtgacggagttcttcctTactgcatttactgaacatct	8	9	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:57958004T>C	uc010rka.1	+	1	42	c.42T>C	c.(40-42)CTT>CTC	p.L14L		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				AGTTCTTCCTTACTGCATTTA	0.478													55	68	---	---	---	---	PASS	C	57958004	C	C	57958004	2	2	100	1	0	0	0	0	0	0	0	1	11256	1741	61	5		5	OR9Q2	11	57958004	Silent	SNP	T	TCGA-43-6143-01A-11D-1817-08	802734	57958004	77048512	242	37594										
OR4D11	219986	broad.mit.edu	37	chr11	59271742	59271742	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgaggtctcaggcaggagggGgcaggaggaaagccatctcc	17	9	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:59271742G>C	uc001noa.1	+	1	694	c.694G>C	c.(694-696)GGC>CGC	p.G232R		NM_001004706	NP_001004706	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GGCAGGAGGGGGCAGGAGGAA	0.542													47	182	---	---	---	---	PASS	C	59271742	C	C	59271742	3	2	100	1	0	0	0	0	1	0	0	0	11055	1232	43	4	696	4	OR4D11	11	59271742	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	1313738	59271742	75734774	243	37595										
OR10V1	390201	broad.mit.edu	37	chr11	59480597	59480597	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctaagatgtgagaagagcagGtagagtaggcttgctggcgc	16	6	0	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:59480597G>T	uc001nof.1	-	1	722	c.722C>A	c.(721-723)ACC>AAC	p.T241N		NM_001005324	NP_001005324	Q8NGI7	O10V1_HUMAN	olfactory receptor, family 10, subfamily V,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGAAGAGCAGGTAGAGTAGGC	0.532													37	50	---	---	---	---	PASS	T	59480597	T	T	59480597	3	4	100	1	0	0	0	0	1	0	0	0	10920	1261	44	3	211	3	OR10V1	11	59480597	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	208855	59480597	75525919	244	37596										
SCGB1D1	10648	broad.mit.edu	37	chr11	61960877	61960877	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cttttctatttcagggaaaaAtagcagagaaatgtgatcgc	9	6	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:61960877A>G	uc001nsz.1	+	3	297	c.250A>G	c.(250-252)ATA>GTA	p.I84V		NM_006552	NP_006543	O95968	SG1D1_HUMAN	lipophilin A precursor	84						extracellular space	binding			skin(1)	1						TCAGGGAAAAATAGCAGAGAA	0.413													36	46	---	---	---	---	PASS	G	61960877	G	G	61960877	3	3	100	1	0	0	0	0	1	0	0	0	13896	101	4	5	260	5	SCGB1D1	11	61960877	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	2480280	61960877	73045639	245	37597										
ADRBK1	156	broad.mit.edu	37	chr11	67046935	67046935	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggaggaggagcgtgtggcccGcagccgggagatcttcgact	18	10	1	1	rs71640262		TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:67046935G>A	uc009yrn.1	+	4	577	c.311G>A	c.(310-312)CGC>CAC	p.R104H	ADRBK1_uc009yrm.1_Missense_Mutation_p.R104H	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	104	RGS.|N-terminal.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	CGTGTGGCCCGCAGCCGGGAG	0.597													7	65	---	---	---	---	PASS	A	67046935	A	A	67046935	3	1	100	1	0	0	0	0	1	0	0	0	343	1087	38	1	325	1	ADRBK1	11	67046935	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	5086058	67046935	67959581	246	37598										
ODZ4	26011	broad.mit.edu	37	chr11	78381477	78381477	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atgtttctgtagtagcccacTgagcggatggtctctagtgt	12	8	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:78381477T>A	uc001ozl.3	-	32	6376	c.5913A>T	c.(5911-5913)TCA>TCT	p.S1971S	ODZ4_uc001ozk.3_Silent_p.S196S|ODZ4_uc009yvb.1_Silent_p.S555S	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1971	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						AGTAGCCCACTGAGCGGATGG	0.542													44	46	---	---	---	---	PASS	A	78381477	A	A	78381477	2	1	100	1	0	0	0	0	0	0	0	1	10837	1567	55	5		5	ODZ4	11	78381477	Silent	SNP	T	TCGA-43-6143-01A-11D-1817-08	11334542	78381477	56625039	247	37599										
CCDC83	220047	broad.mit.edu	37	chr11	85597249	85597249	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tttattttcaacagatatgcGcatgcaaataagtaatgctg	7	6	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:85597249G>T	uc001pbh.1	+	5	862	c.350G>T	c.(349-351)CGC>CTC	p.R117L	CCDC83_uc001pbg.1_Missense_Mutation_p.R117L|CCDC83_uc001pbi.1_RNA|CCDC83_uc001pbj.1_Intron	NM_173556	NP_775827	Q8IWF9	CCD83_HUMAN	coiled-coil domain containing 83	117	Potential.									skin(1)	1		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				ACAGATATGCGCATGCAAATA	0.333													13	23	---	---	---	---	PASS	T	85597249	T	T	85597249	3	4	100	1	0	0	0	0	1	0	0	0	2857	1087	38	1	364	1	CCDC83	11	85597249	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	7215772	85597249	49409267	248	37600										
CCDC83	220047	broad.mit.edu	37	chr11	85627158	85627158	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cactatcttacatcttagtcAtgaaaatagcatcgaagatc	5	9	3	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:85627158A>G	uc001pbh.1	+	10	1474	c.962A>G	c.(961-963)CAT>CGT	p.H321R	CCDC83_uc001pbg.1_Missense_Mutation_p.H352R|CCDC83_uc001pbi.1_RNA|CCDC83_uc001pbj.1_Missense_Mutation_p.H221R	NM_173556	NP_775827	Q8IWF9	CCD83_HUMAN	coiled-coil domain containing 83	321										skin(1)	1		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				CATCTTAGTCATGAAAATAGC	0.383													133	116	---	---	---	---	PASS	G	85627158	G	G	85627158	3	3	100	1	0	0	0	0	1	0	0	0	2857	217	8	5	1093	5	CCDC83	11	85627158	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	29909	85627158	49379358	249	37601										
MAML2	84441	broad.mit.edu	37	chr11	95825738	95825738	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtgggctgaatgtctgctgaCcaaaagaagggctggggatt	16	6	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:95825738C>T	uc001pfw.1	-	2	2742	c.1457G>A	c.(1456-1458)GGT>GAT	p.G486D		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	486					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				TGTCTGCTGACCAAAAGAAGG	0.537			T	MECT1|CRTC3	salivary gland mucoepidermoid								51	72	---	---	---	---	PASS	T	95825738	T	T	95825738	3	4	100	1	0	0	0	0	1	0	0	0	9206	507	18	3	2029	3	MAML2	11	95825738	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	10198580	95825738	39180778	250	37602										
MMP27	64066	broad.mit.edu	37	chr11	102565727	102565727	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccagaatcttatctctggggTtctcgtatgcagcttgcaga	10	10	3	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:102565727T>A	uc001phd.1	-	7	1027	c.1004A>T	c.(1003-1005)AAC>ATC	p.N335I		NM_022122	NP_071405	Q9H306	MMP27_HUMAN	matrix metalloproteinase 27 precursor	335	Hemopexin-like 2.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3	all_cancers(8;0.000843)|all_epithelial(12;0.00362)|Lung NSC(15;0.21)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0509)|Lung(13;0.0696)|LUSC - Lung squamous cell carcinoma(19;0.13)|all cancers(10;0.176)	BRCA - Breast invasive adenocarcinoma(274;0.0151)		ATCTCTGGGGTTCTCGTATGC	0.448													4	55	---	---	---	---	PASS	A	102565727	A	A	102565727	3	1	100	1	0	0	0	0	1	0	0	0	9664	1725	60	5	553	5	MMP27	11	102565727	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	6739989	102565727	32440789	251	37603										
SIK3	23387	broad.mit.edu	37	chr11	116744752	116744752	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agccaggtaggagcttctgcAgatcttccataacttccgtg	10	11	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:116744752A>G	uc001ppy.2	-	12	1310	c.1274T>C	c.(1273-1275)CTG>CCG	p.L425P	SIK3_uc001ppz.2_Missense_Mutation_p.L324P|SIK3_uc001pqa.2_Missense_Mutation_p.L377P	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	425						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						GAGCTTCTGCAGATCTTCCAT	0.453													64	63	---	---	---	---	PASS	G	116744752	G	G	116744752	3	3	100	1	0	0	0	0	1	0	0	0	14319	188	7	5	2565	5	SIK3	11	116744752	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	14179025	116744752	18261764	252	37604										
PHLDB1	23187	broad.mit.edu	37	chr11	118498595	118498595	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gccactgagagcccccggctGggtgggcagctgcctgtggt	17	13	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:118498595G>A	uc001ptr.1	+	7	1409	c.1056G>A	c.(1054-1056)CTG>CTA	p.L352L	PHLDB1_uc010ryh.1_Silent_p.L351L|PHLDB1_uc001pts.2_Silent_p.L352L|PHLDB1_uc001ptt.2_Silent_p.L352L|PHLDB1_uc001ptu.1_Intron|PHLDB1_uc001ptv.1_Silent_p.L152L|PHLDB1_uc001ptw.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	352											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		GCCCCCGGCTGGGTGGGCAGC	0.647													12	53	---	---	---	---	PASS	A	118498595	A	A	118498595	2	1	100	1	0	0	0	0	0	0	0	1	11851	1335	47	3		3	PHLDB1	11	118498595	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	1753843	118498595	16507921	253	37605										
SORL1	6653	broad.mit.edu	37	chr11	121391474	121391474	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aatgaggagaacatgagatcGgtcatcacctttgacaaagg	11	7	2	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:121391474G>A	uc001pxx.2	+	9	1400	c.1320G>A	c.(1318-1320)TCG>TCA	p.S440S		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	440	Extracellular (Potential).				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		ACATGAGATCGGTCATCACCT	0.438													44	38	---	---	---	---	PASS	A	121391474	A	A	121391474	2	1	100	1	0	0	0	0	0	0	0	1	14934	1103	39	1		1	SORL1	11	121391474	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	2892879	121391474	13615042	254	37606										
CHEK1	1111	broad.mit.edu	37	chr11	125496665	125496665	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cgaggtgctcggtggagtcaTggcagtgccctttgtggaag	17	8	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr11:125496665T>C	uc009zbo.2	+	2	894	c.2T>C	c.(1-3)ATG>ACG	p.M1T	CHEK1_uc010sbh.1_Missense_Mutation_p.W92R|CHEK1_uc010sbi.1_Missense_Mutation_p.M1T|CHEK1_uc001qcf.3_Missense_Mutation_p.M1T|CHEK1_uc009zbp.2_Missense_Mutation_p.M1T|CHEK1_uc001qcg.3_Missense_Mutation_p.M1T|CHEK1_uc009zbq.2_Missense_Mutation_p.M1T|CHEK1_uc001qci.1_RNA	NM_001114122	NP_001107594	O14757	CHK1_HUMAN	checkpoint kinase 1	1					cellular response to mechanical stimulus|DNA repair|DNA replication|gamete generation|negative regulation of cell proliferation|reciprocal meiotic recombination|regulation of cyclin-dependent protein kinase activity|replicative senescence	condensed nuclear chromosome|microtubule organizing center|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|skin(1)	6	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0748)		GGTGGAGTCATGGCAGTGCCC	0.532								Other_conserved_DNA_damage_response_genes			OREG0021478	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	64	82	---	---	---	---	PASS	C	125496665	C	C	125496665	3	2	100	1	0	0	0	0	1	0	0	0	3334	1464	51	5	4	5	CHEK1	11	125496665	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	4105191	125496665	9509851	255	37607										
IQSEC3	440073	broad.mit.edu	37	chr12	275002	275002	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agatgcagaagttcgtggagGacctgaaggagtccattgct	14	7	0	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr12:275002G>A	uc001qhw.1	+	8	2014	c.2008G>A	c.(2008-2010)GAC>AAC	p.D670N	IQSEC3_uc001qhu.1_Missense_Mutation_p.D670N	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	973	Potential.|PH.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		GTTCGTGGAGGACCTGAAGGA	0.597													3	36	---	---	---	---	PASS	A	275002	A	A	275002	3	1	100	1	0	0	0	0	1	0	0	0	7819	1174	41	2	2959	2	IQSEC3	12	275002	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08		275002	133576893	256	37608										
SLC6A13	6540	broad.mit.edu	37	chr12	347143	347143	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tctcagaggtaccattcaggGagccgttggtcttctggaac	12	10	4	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr12:347143G>C	uc001qic.1	-	5	565	c.512C>G	c.(511-513)TCC>TGC	p.S171C	SLC6A13_uc009zdj.1_Missense_Mutation_p.S171C|SLC6A13_uc010sdl.1_Missense_Mutation_p.S79C|SLC6A13_uc010sdm.1_Missense_Mutation_p.S52C	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	171	Extracellular (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			ACCATTCAGGGAGCCGTTGGT	0.517													18	109	---	---	---	---	PASS	C	347143	C	C	347143	3	2	100	1	0	0	0	0	1	0	0	0	14676	1174	41	2	1340	2	SLC6A13	12	347143	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	72141	347143	133504752	257	37609										
CD163	9332	broad.mit.edu	37	chr12	7640453	7640453	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcagagtgaaagatgggactCatgtccctcacactggaatt	11	9	2	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr12:7640453C>T	uc001qsz.3	-	7	1779	c.1651G>A	c.(1651-1653)GAG>AAG	p.E551K	CD163_uc001qta.3_Missense_Mutation_p.E551K|CD163_uc009zfw.2_Missense_Mutation_p.E551K	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	551	SRCR 5.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						AGATGGGACTCATGTCCCTCA	0.522													64	23	---	---	---	---	PASS	T	7640453	T	T	7640453	3	4	100	1	0	0	0	0	1	0	0	0	2967	835	29	2	1859	2	CD163	12	7640453	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	7293310	7640453	126211442	258	37610										
PTPRO	5800	broad.mit.edu	37	chr12	15702086	15702086	+	Missense_Mutation	SNP	C	A	A													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cagccttcttcctgccactgCctacaattgtagtgtcacca							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr12:15702086C>A	uc001rcv.1	+	14	2537	c.2363C>A	c.(2362-2364)GCC>GAC	p.A788D	PTPRO_uc001rcw.1_Missense_Mutation_p.A788D|PTPRO_uc001rcx.1_5'UTR|PTPRO_uc001rcy.1_5'UTR|PTPRO_uc001rcz.1_5'UTR|PTPRO_uc001rda.1_5'UTR	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	788	Fibronectin type-III 8.|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)				CCTGCCACTGCCTACAATTGT	0.433													136	19	---	---	---	---	PASS	A	15702086	A	A	15702086	3	1	100	1	0	0	0	0	1	0	0	0	12809	739	26	3	2417	3	PTPRO	12	15702086	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	8061633	15702086	118149809	259	37611	698	2								
PTPRO	5800	broad.mit.edu	37	chr12	15702087	15702087	+	Silent	SNP	C	A	A													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agccttcttcctgccactgcCtacaattgtagtgtcaccag							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr12:15702087C>A	uc001rcv.1	+	14	2538	c.2364C>A	c.(2362-2364)GCC>GCA	p.A788A	PTPRO_uc001rcw.1_Silent_p.A788A|PTPRO_uc001rcx.1_5'UTR|PTPRO_uc001rcy.1_5'UTR|PTPRO_uc001rcz.1_5'UTR|PTPRO_uc001rda.1_5'UTR	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	788	Fibronectin type-III 8.|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)				CTGCCACTGCCTACAATTGTA	0.433													139	19	---	---	---	---	PASS	A	15702087	A	A	15702087	2	1	100	1	0	0	0	0	0	0	0	1	12809	668	24	3		3	PTPRO	12	15702087	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	1	15702087	118149808	260	37612	698	2								
CCDC91	55297	broad.mit.edu	37	chr12	28544295	28544295	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tattgaaaaacagtacatttCtgcaattgagaaacaggcac	7	7	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr12:28544295C>T	uc001riq.2	+	7	729	c.713C>T	c.(712-714)TCT>TTT	p.S238F	CCDC91_uc001rio.2_Missense_Mutation_p.S208F|CCDC91_uc009zjk.2_RNA|CCDC91_uc001rip.1_Missense_Mutation_p.S238F|CCDC91_uc001rir.2_Missense_Mutation_p.S76F|CCDC91_uc009zjl.2_Intron	NM_018318	NP_060788	Q7Z6B0	CCD91_HUMAN	GGA binding partner	238	Homodimerization.				protein transport	Golgi apparatus|membrane				central_nervous_system(1)	1	Acute lymphoblastic leukemia(23;0.00718)|all_hematologic(23;0.0113)|Lung SC(9;0.184)					CAGTACATTTCTGCAATTGAG	0.368													10	42	---	---	---	---	PASS	T	28544295	T	T	28544295	3	4	100	1	0	0	0	0	1	0	0	0	2870	913	32	2	739	2	CCDC91	12	28544295	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	12842208	28544295	105307600	261	37613										
C12orf40	283461	broad.mit.edu	37	chr12	40041652	40041652	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gttcagcaaaatagagaactGcagtttcactccatcatctt	6	10	4	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr12:40041652G>A	uc001rmc.2	+	6	610	c.443G>A	c.(442-444)TGC>TAC	p.C148Y	C12orf40_uc009zjv.1_RNA	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	148										ovary(6)	6						ATAGAGAACTGCAGTTTCACT	0.348													36	4	---	---	---	---	PASS	A	40041652	A	A	40041652	3	1	100	1	0	0	0	0	1	0	0	0	1686	1319	46	3	465	3	C12orf40	12	40041652	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	11497357	40041652	93810243	262	37614										
TMEM106C	79022	broad.mit.edu	37	chr12	48358089	48358089	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agcaagaagatgacagggacGgtttgctggctgaacgagag	16	6	0	5			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr12:48358089G>T	uc001rqp.2	+	2	185	c.70G>T	c.(70-72)GGT>TGT	p.G24C	TMEM106C_uc001rqo.2_Missense_Mutation_p.G24C|TMEM106C_uc001rqr.2_Missense_Mutation_p.G24C|TMEM106C_uc001rqq.2_Missense_Mutation_p.G24C	NM_024056	NP_076961	Q9BVX2	T106C_HUMAN	transmembrane protein 106C isoform a	24						endoplasmic reticulum membrane|integral to membrane					0		Acute lymphoblastic leukemia(13;0.11)		GBM - Glioblastoma multiforme(48;0.241)		TGACAGGGACGGTTTGCTGGC	0.567													13	21	---	---	---	---	PASS	T	48358089	T	T	48358089	3	4	100	1	0	0	0	0	1	0	0	0	16019	1116	39	1	72	1	TMEM106C	12	48358089	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	8316437	48358089	85493806	263	37615										
XRCC6BP1	91419	broad.mit.edu	37	chr12	58347452	58347452	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aaatattcaggttacattttGgattaaaacaacaccaccag	5	8	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr12:58347452G>C	uc001sqp.2	+	5	557	c.517G>C	c.(517-519)GGA>CGA	p.G173R		NM_033276	NP_150592	Q9Y6H3	ATP23_HUMAN	XRCC6 binding protein 1	173					double-strand break repair via nonhomologous end joining	DNA-dependent protein kinase-DNA ligase 4 complex	DNA-dependent protein kinase activity|metal ion binding|metalloendopeptidase activity			ovary(1)	1						GTTACATTTTGGATTAAAACA	0.348													41	8	---	---	---	---	PASS	C	58347452	C	C	58347452	3	2	100	1	0	0	0	0	1	0	0	0	17455	1349	47	4	535	4	XRCC6BP1	12	58347452	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	9989363	58347452	75504443	264	37616										
CPM	1368	broad.mit.edu	37	chr12	69250352	69250352	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gatactgggatagaatccaaTtgcccttggaatggaagtag	12	6	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr12:69250352T>C	uc001sup.2	-	9	1258	c.1197A>G	c.(1195-1197)CAA>CAG	p.Q399Q	CPM_uc001sur.2_Silent_p.Q399Q|CPM_uc001suq.2_Silent_p.Q399Q	NM_198320	NP_938079	P14384	CBPM_HUMAN	carboxypeptidase M precursor	399					anatomical structure morphogenesis|proteolysis	anchored to membrane|cytoplasm|nucleus|plasma membrane	metallocarboxypeptidase activity|zinc ion binding				0	all_epithelial(5;1.09e-35)|Lung NSC(4;1.47e-33)|all_lung(4;1.02e-31)|Breast(13;1.59e-06)		all cancers(2;2.69e-50)|GBM - Glioblastoma multiforme(2;7.34e-41)|BRCA - Breast invasive adenocarcinoma(5;5.38e-10)|Lung(24;4.61e-05)|LUAD - Lung adenocarcinoma(15;0.000376)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			TAGAATCCAATTGCCCTTGGA	0.413													63	4	---	---	---	---	PASS	C	69250352	C	C	69250352	2	2	100	1	0	0	0	0	0	0	0	1	3808	1490	52	5		5	CPM	12	69250352	Silent	SNP	T	TCGA-43-6143-01A-11D-1817-08	10902900	69250352	64601543	265	37617										
LGR5	8549	broad.mit.edu	37	chr12	71955575	71955575	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttctagaggatttcatagcaAcaatatcaggtcgatacctg	8	8	3	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr12:71955575A>G	uc001swl.2	+	8	848	c.800A>G	c.(799-801)AAC>AGC	p.N267S	LGR5_uc001swm.2_Intron|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	267	LRR 9.|Extracellular (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						TTTCATAGCAACAATATCAGG	0.368													6	18	---	---	---	---	PASS	G	71955575	G	G	71955575	3	3	100	1	0	0	0	0	1	0	0	0	8757	43	2	5	830	5	LGR5	12	71955575	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	2705223	71955575	61896320	266	37618										
KL	9365	broad.mit.edu	37	chr13	33628177	33628177	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agttcatcaaaggaactgctGacttttttgctctttgcttt	7	8	3	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr13:33628177G>A	uc001uus.2	+	2	1101	c.1093G>A	c.(1093-1095)GAC>AAC	p.D365N	KL_uc001uur.1_Missense_Mutation_p.D58N	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	365	Glycosyl hydrolase-1 1.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		AGGAACTGCTGACTTTTTTGC	0.413													200	26	---	---	---	---	PASS	A	33628177	A	A	33628177	3	1	100	1	0	0	0	0	1	0	0	0	8331	1290	45	2	1099	2	KL	13	33628177	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08		33628177	81541701	267	37619										
RB1	5925	broad.mit.edu	37	chr13	48947589	48947593	+	Frame_Shift_Del	DEL	AAGTG	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atgatgattttaaattcagcAagtgatcaaccttcagaaaa							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr13:48947589_48947593delAAGTG	uc001vcb.2	+	12	1342_1346	c.1176_1180delAAGTG	c.(1174-1182)GCAAGTGATfs	p.A392fs	RB1_uc010act.1_Frame_Shift_Del_p.A93fs	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	392_394	Domain A.|Pocket; binds T and E1A.				androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(7)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TAAATTCAGCAAGTGATCAACCTTC	0.283		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			28	51	---	---	---	---		-	48947593	-	-	48947589	7	5	100	1	0	1	0	1	0	0	0	0	13098	117	5	0	1222	0	RB1	13	48947589	Frame_Shift_Del	DEL	AAGTG	TCGA-43-6143-01A-11D-1817-08	15319412	48947589	66222289	268	37620										
PCDH20	64881	broad.mit.edu	37	chr13	61985741	61985741	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gactgtggagtggagaggctCgggataaccatgatcactca	14	8	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr13:61985741C>A	uc001vid.3	-	2	2855	c.2491G>T	c.(2491-2493)GAG>TAG	p.E831*	PCDH20_uc010thj.1_Nonsense_Mutation_p.E831*	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	804	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		TGGAGAGGCTCGGGATAACCA	0.428													90	9	---	---	---	---	PASS	A	61985741	A	A	61985741	4	1	100	1	0	0	0	0	0	1	0	0	11515	893	31	2	368	2	PCDH20	13	61985741	Nonsense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	13038152	61985741	53184137	269	37621										
OR4M1	441670	broad.mit.edu	37	chr14	20249350	20249350	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	acttaatcccattatttacaCattgagaaacaaggaagtaa	5	7	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr14:20249350C>A	uc010tku.1	+	1	869	c.869C>A	c.(868-870)ACA>AAA	p.T290K		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	290	Helical; Name=7; (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)		ATTATTTACACATTGAGAAAC	0.343													35	80	---	---	---	---	PASS	A	20249350	A	A	20249350	3	1	100	1	0	0	0	0	1	0	0	0	11075	478	17	3	871	3	OR4M1	14	20249350	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08		20249350	87100190	270	37622										
OR4K5	79317	broad.mit.edu	37	chr14	20389688	20389688	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgtgaaccattacctgaggcCaaggagaatttctgaaatgt	10	7	1	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr14:20389688C>A	uc010tkw.1	+	1	923	c.923C>A	c.(922-924)CCA>CAA	p.P308Q		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TACCTGAGGCCAAGGAGAATT	0.373													54	140	---	---	---	---	PASS	A	20389688	A	A	20389688	3	1	100	1	0	0	0	0	1	0	0	0	11073	594	21	3	925	3	OR4K5	14	20389688	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	140338	20389688	86959852	271	37623										
RTN1	6252	broad.mit.edu	37	chr14	60069840	60069840	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccagatattggtcaatctgtGcctacataaagaaaaaaaaa	6	7	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr14:60069840G>T	uc001xen.1	-	8	2440	c.2231C>A	c.(2230-2232)GCA>GAA	p.A744E	RTN1_uc001xem.1_Missense_Mutation_p.A324E|RTN1_uc001xek.1_Missense_Mutation_p.A176E|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Missense_Mutation_p.A161E	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	744	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		GTCAATCTGTGCCTACATAAA	0.363													26	28	---	---	---	---	PASS	T	60069840	T	T	60069840	3	4	100	1	0	0	0	0	1	0	0	0	13725	1333	46	3	107	3	RTN1	14	60069840	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	39680152	60069840	47279700	272	37624										
RHOJ	57381	broad.mit.edu	37	chr14	63757659	63757659	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aaggtctcaaagcggtttttGatgaagcaatcctcaccatt	8	9	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr14:63757659G>C	uc001xgb.1	+	5	1005	c.562G>C	c.(562-564)GAT>CAT	p.D188H		NM_020663	NP_065714	Q9H4E5	RHOJ_HUMAN	ras homolog gene family, member J precursor	188					actin cytoskeleton organization|regulation of cell shape|regulation of small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.00326)|all cancers(60;0.031)|BRCA - Breast invasive adenocarcinoma(234;0.119)		AGCGGTTTTTGATGAAGCAAT	0.443													88	75	---	---	---	---	PASS	C	63757659	C	C	63757659	3	2	100	1	0	0	0	0	1	0	0	0	13341	1290	45	2	580	2	RHOJ	14	63757659	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	3687819	63757659	43591881	273	37625										
CLMN	79789	broad.mit.edu	37	chr14	95690189	95690189	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tttaacttctagaggtgggtTgcactttgaaagagaaggga	13	4	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr14:95690189T>G	uc001yef.2	-	3	264	c.148A>C	c.(148-150)AAC>CAC	p.N50H		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	50	Actin-binding.|CH 1.					integral to membrane	actin binding				0				Epithelial(152;0.193)		AGAGGTGGGTTGCACTTTGAA	0.338													16	36	---	---	---	---	PASS	G	95690189	G	G	95690189	3	3	100	1	0	0	0	0	1	0	0	0	3542	1812	63	5	2904	5	CLMN	14	95690189	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	31932530	95690189	11659351	274	37626										
TJP1	7082	broad.mit.edu	37	chr15	30029502	30029502	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	caccttcctctaagccttccTtggctgcagggctatcttct	7	15	3	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:30029502T>A	uc001zcr.2	-	11	1848	c.1373A>T	c.(1372-1374)AAG>ATG	p.K458M	TJP1_uc010azl.2_Missense_Mutation_p.K446M|TJP1_uc001zcq.2_Missense_Mutation_p.K462M|TJP1_uc001zcs.2_Missense_Mutation_p.K458M	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	458	PDZ 3.				cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		TAAGCCTTCCTTGGCTGCAGG	0.418													59	70	---	---	---	---	PASS	A	30029502	A	A	30029502	3	1	100	1	0	0	0	0	1	0	0	0	15926	1609	56	5	3945	5	TJP1	15	30029502	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08		30029502	72501890	275	37627										
RYR3	6263	broad.mit.edu	37	chr15	33961618	33961618	+	Nonsense_Mutation	SNP	G	T	T													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcccagaggagattcgggagGagctgtatgatttccatgag							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:33961618G>T	uc001zhi.2	+	37	5753	c.5683G>T	c.(5683-5685)GAG>TAG	p.E1895*	RYR3_uc010bar.2_Nonsense_Mutation_p.E1895*	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1895	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GATTCGGGAGGAGCTGTATGA	0.458													33	47	---	---	---	---	PASS	T	33961618	T	T	33961618	4	4	100	1	0	0	0	0	0	1	0	0	13770	1175	41	2	5829	2	RYR3	15	33961618	Nonsense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	3932116	33961618	68569774	276	37628	699	2								
RYR3	6263	broad.mit.edu	37	chr15	33961619	33961619	+	Missense_Mutation	SNP	A	G	G													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cccagaggagattcgggaggAgctgtatgatttccatgagg							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:33961619A>G	uc001zhi.2	+	37	5754	c.5684A>G	c.(5683-5685)GAG>GGG	p.E1895G	RYR3_uc010bar.2_Missense_Mutation_p.E1895G	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1895	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		ATTCGGGAGGAGCTGTATGAT	0.453													35	46	---	---	---	---	PASS	G	33961619	G	G	33961619	3	3	100	1	0	0	0	0	1	0	0	0	13770	304	11	5	5830	5	RYR3	15	33961619	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	1	33961619	68569773	277	37629	699	2								
RYR3	6263	broad.mit.edu	37	chr15	33999173	33999173	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agctgccccatgcttctggcCaaaggataccctgatgtcgg	11	13	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:33999173C>T	uc001zhi.2	+	43	6607	c.6537C>T	c.(6535-6537)GCC>GCT	p.A2179A	RYR3_uc010bar.2_Silent_p.A2179A	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2179	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGCTTCTGGCCAAAGGATACC	0.478													19	17	---	---	---	---	PASS	T	33999173	T	T	33999173	2	4	100	1	0	0	0	0	0	0	0	1	13770	581	21	3		3	RYR3	15	33999173	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	37554	33999173	68532219	278	37630										
RYR3	6263	broad.mit.edu	37	chr15	34146970	34146970	+	Frame_Shift_Del	DEL	T	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctttcttccattcccagtccTttctctaccttgcctggtat							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:34146970delT	uc001zhi.2	+	98	13934	c.13864delT	c.(13864-13866)TTTfs	p.F4622fs	RYR3_uc010bar.2_Frame_Shift_Del_p.F4617fs	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4622	Helical; Name=M7; (Potential).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTCCCAGTCCTTTCTCTACCT	0.423													183	132	---	---	---	---		-	34146970	-	-	34146970	7	5	100	1	0	1	0	1	0	0	0	0	13770	1609	56	0	14254	0	RYR3	15	34146970	Frame_Shift_Del	DEL	T	TCGA-43-6143-01A-11D-1817-08	147797	34146970	68384422	279	37631										
MGA	23269	broad.mit.edu	37	chr15	42034848	42034848	+	Frame_Shift_Del	DEL	G	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcacaccccaaaccctggcaGggacacagaagttcagtatc							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:42034848delG	uc010ucy.1	+	15	4871	c.4690delG	c.(4690-4692)GGGfs	p.G1564fs	MGA_uc010ucz.1_Intron|MGA_uc010uda.1_Frame_Shift_Del_p.G180fs	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1564						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		AACCCTGGCAGGGACACAGAA	0.522													43	34	---	---	---	---		-	42034848	-	-	42034848	7	5	100	1	0	1	0	1	0	0	0	0	9540	1000	35	0	4744	0	MGA	15	42034848	Frame_Shift_Del	DEL	G	TCGA-43-6143-01A-11D-1817-08	7887878	42034848	60496544	280	37632										
TLN2	83660	broad.mit.edu	37	chr15	63029096	63029096	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggggtggctgctagagagacGgcccaagctctgaaaacact	14	10	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:63029096G>T	uc002alb.3	+	26	3378	c.3378G>T	c.(3376-3378)ACG>ACT	p.T1126T		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1126	Ala-rich.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						CTAGAGAGACGGCCCAAGCTC	0.552													14	26	---	---	---	---	PASS	T	63029096	T	T	63029096	2	4	100	1	0	0	0	0	0	0	0	1	15945	1103	39	1		1	TLN2	15	63029096	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	20994248	63029096	39502296	281	37633										
HERC1	8925	broad.mit.edu	37	chr15	64048842	64048842	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	taacttttttaaagttgactGattattggagtctccaaggc	8	6	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:64048842G>A	uc002amp.2	-	5	1475	c.1327C>T	c.(1327-1329)CAG>TAG	p.Q443*	HERC1_uc010uil.1_Intron|HERC1_uc010bgt.1_Nonsense_Mutation_p.Q443*	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	443	WD 1.|RCC1 2.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						AAAGTTGACTGATTATTGGAG	0.433													12	19	---	---	---	---	PASS	A	64048842	A	A	64048842	4	1	100	1	0	0	0	0	0	1	0	0	7057	1299	45	2	13554	2	HERC1	15	64048842	Nonsense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	1019746	64048842	38482550	282	37634										
ZNF609	23060	broad.mit.edu	37	chr15	64791889	64791889	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aggaaggcaaatcaaaatccAaaaggagtaagagtggcaaa	11	5	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:64791889A>T	uc002ann.2	+	1	271	c.271A>T	c.(271-273)AAA>TAA	p.K91*	ZNF609_uc010bgy.2_Nonsense_Mutation_p.K91*	NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	91						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						ATCAAAATCCAAAAGGAGTAA	0.542													51	58	---	---	---	---	PASS	T	64791889	T	T	64791889	4	4	100	1	0	0	0	0	0	1	0	0	18032	131	5	5	273	5	ZNF609	15	64791889	Nonsense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	743047	64791889	37739503	283	37635										
PKM2	5315	broad.mit.edu	37	chr15	72492913	72492913	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggaagatgccacggtacaggTgggcctgacgagctgtctgg	17	9	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:72492913T>C	uc002atx.1	-	10	1632	c.1391A>G	c.(1390-1392)CAC>CGC	p.H464R	GRAMD2_uc002atq.2_5'Flank|GRAMD2_uc010bis.2_5'Flank|PKM2_uc002atr.1_5'UTR|PKM2_uc002ats.1_Missense_Mutation_p.H131R|PKM2_uc002att.1_Missense_Mutation_p.H230R|PKM2_uc002atu.1_Missense_Mutation_p.H230R|PKM2_uc010bit.1_Missense_Mutation_p.H469R|PKM2_uc010uki.1_Missense_Mutation_p.H538R|PKM2_uc002atv.1_Missense_Mutation_p.H499R|PKM2_uc002atw.1_Missense_Mutation_p.H464R|PKM2_uc002aty.1_Missense_Mutation_p.H464R|PKM2_uc010ukj.1_Missense_Mutation_p.H449R|PKM2_uc010ukk.1_Missense_Mutation_p.H390R|PKM2_uc010biu.1_Missense_Mutation_p.H485R	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	464	Interaction with POU5F1.				glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	ACGGTACAGGTGGGCCTGACG	0.622													3	85	---	---	---	---	PASS	C	72492913	C	C	72492913	3	2	100	1	0	0	0	0	1	0	0	0	11977	1696	59	5	212	5	PKM2	15	72492913	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	7701024	72492913	30038479	284	37636										
FBXO22	26263	broad.mit.edu	37	chr15	76225414	76225414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atagctatacaacaataatgGcactcatacatctggggtca	7	9	3	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:76225414G>T	uc002bbk.2	+	7	1288	c.1183G>T	c.(1183-1185)GCA>TCA	p.A395S	FBXO22_uc002bbl.2_Missense_Mutation_p.A291S|FBXO22OS_uc002bbm.1_RNA	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	395					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0						AACAATAATGGCACTCATACA	0.343													48	55	---	---	---	---	PASS	T	76225414	T	T	76225414	3	4	100	1	0	0	0	0	1	0	0	0	5734	1203	42	3	1246	3	FBXO22	15	76225414	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	3732501	76225414	26305978	285	37637										
FSD2	123722	broad.mit.edu	37	chr15	83455327	83455327	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccatctcaattatctgctttTccaatttgtacatgtttttg	4	9	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:83455327T>C	uc002bjd.2	-	3	838	c.671A>G	c.(670-672)GAA>GGA	p.E224G	FSD2_uc010uol.1_Missense_Mutation_p.E224G|FSD2_uc010uom.1_Missense_Mutation_p.E224G	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	224	Potential.									central_nervous_system(1)	1						TATCTGCTTTTCCAATTTGTA	0.373													11	22	---	---	---	---	PASS	C	83455327	C	C	83455327	3	2	100	1	0	0	0	0	1	0	0	0	6071	1783	62	5	1622	5	FSD2	15	83455327	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	7229913	83455327	19076065	286	37638										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84592663	84592663	+	Missense_Mutation	SNP	A	T	T													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttctaacctgcaggccatcaAgaagccatagcagtgtgctt							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:84592663A>T	uc002bjz.3	+	17	2219	c.1995A>T	c.(1993-1995)CAA>CAT	p.Q665H	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.Q665H|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.Q665H	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	665						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)			CAGGCCATCAAGAAGCCATAG	0.433													21	38	---	---	---	---	PASS	T	84592663	T	T	84592663	3	4	100	1	0	0	0	0	1	0	0	0	276	69	3	5	2057	5	ADAMTSL3	15	84592663	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	1137336	84592663	17938729	287	37639	700	2								
ADAMTSL3	57188	broad.mit.edu	37	chr15	84592664	84592664	+	Nonsense_Mutation	SNP	G	T	T													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tctaacctgcaggccatcaaGaagccatagcagtgtgctta							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:84592664G>T	uc002bjz.3	+	17	2220	c.1996G>T	c.(1996-1998)GAA>TAA	p.E666*	ADAMTSL3_uc010bmt.1_Nonsense_Mutation_p.E666*|ADAMTSL3_uc010bmu.1_Nonsense_Mutation_p.E666*	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	666						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)			AGGCCATCAAGAAGCCATAGC	0.433													21	37	---	---	---	---	PASS	T	84592664	T	T	84592664	4	4	100	1	0	0	0	0	0	1	0	0	276	943	33	2	2058	2	ADAMTSL3	15	84592664	Nonsense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	1	84592664	17938728	288	37640	700	2								
MAN2A2	4122	broad.mit.edu	37	chr15	91452555	91452555	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	catgttttttttcctgccccAgggcagccctgcttctggac	9	14	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr15:91452555A>T	uc010bnz.2	+	9	1312	c.1197_splice	c.e9-2	p.R399_splice	MAN2A2_uc010boa.2_Splice_Site_p.R441_splice|MAN2A2_uc002bqc.2_Splice_Site_p.R399_splice|MAN2A2_uc010uql.1_Splice_Site_p.R103_splice|MAN2A2_uc010uqm.1_Splice_Site_p.G46_splice|MAN2A2_uc010uqn.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2						mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			TTCCTGCCCCAGGGCAGCCCT	0.448													40	21	---	---	---	---	PASS	T	91452555	T	T	91452555	5	4	100	1	0	0	0	0	0	0	1	0	9215	202	7	5	1225	5	MAN2A2	15	91452555	Splice_Site	SNP	A	TCGA-43-6143-01A-11D-1817-08	6859891	91452555	11078837	289	37641										
NARFL	64428	broad.mit.edu	37	chr16	789703	789703	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atcttggccacgccacttccCgcccttttttccactttgac	5	17	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:789703C>T	uc002cjr.2	-	2	114	c.102G>A	c.(100-102)GCG>GCA	p.A34A	NARFL_uc002cjp.2_5'Flank|NARFL_uc002cjq.2_5'UTR|NARFL_uc002cjs.2_5'UTR|NARFL_uc010brc.1_Silent_p.A34A|NARFL_uc010uur.1_Silent_p.A34A	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	34					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				CGCCACTTCCCGCCCTTTTTT	0.572													11	57	---	---	---	---	PASS	T	789703	T	T	789703	2	4	100	1	0	0	0	0	0	0	0	1	10168	639	23	1		1	NARFL	16	789703	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08		789703	89565050	290	37642										
SPSB3	90864	broad.mit.edu	37	chr16	1827785	1827785	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttgaaaaaggtgagtgtgccGtgccaggtgtccaggtgcac	15	8	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:1827785G>A	uc002cmr.2	-	5	717	c.684C>T	c.(682-684)CAC>CAT	p.H228H	SPSB3_uc002cms.2_Silent_p.H100H|SPSB3_uc002cmt.2_Silent_p.H100H|SPSB3_uc002cmu.2_Silent_p.H228H|SPSB3_uc002cmv.2_Silent_p.H100H	NM_080861	NP_543137	Q6PJ21	SPSB3_HUMAN	splA/ryanodine receptor domain and SOCS box	228	B30.2/SPRY.				intracellular signal transduction						0						TGAGTGTGCCGTGCCAGGTGT	0.627													28	23	---	---	---	---	PASS	A	1827785	A	A	1827785	2	1	100	1	0	0	0	0	0	0	0	1	15113	1136	40	1		1	SPSB3	16	1827785	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	1038082	1827785	88526968	291	37643										
SRRM2	23524	broad.mit.edu	37	chr16	2816402	2816402	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	accagtgactcgcagaaggtCcagatccaggactccaccag	10	14	0	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:2816402C>G	uc002crk.2	+	11	6422	c.5873C>G	c.(5872-5874)TCC>TGC	p.S1958C	SRRM2_uc002crj.1_Missense_Mutation_p.S1862C|SRRM2_uc002crl.1_Missense_Mutation_p.S1958C|SRRM2_uc010bsu.1_Missense_Mutation_p.S1862C	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1958	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CGCAGAAGGTCCAGATCCAGG	0.567													17	35	---	---	---	---	PASS	G	2816402	G	G	2816402	3	3	100	1	0	0	0	0	1	0	0	0	15168	855	30	2	5911	2	SRRM2	16	2816402	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	988617	2816402	87538351	292	37644										
TNFRSF17	608	broad.mit.edu	37	chr16	12061466	12061466	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggctaacattgacctggaaaAgagcaggactggtgatgaaa	13	6	0	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:12061466A>C	uc002dbv.2	+	3	535	c.317A>C	c.(316-318)AAG>ACG	p.K106T	TNFRSF17_uc010buy.2_3'UTR|TNFRSF17_uc010buz.2_Missense_Mutation_p.K57T	NM_001192	NP_001183	Q02223	TNR17_HUMAN	tumor necrosis factor receptor superfamily,	106	Cytoplasmic (Potential).				cell proliferation|multicellular organismal development	endomembrane system|integral to membrane|plasma membrane					0						GACCTGGAAAAGAGCAGGACT	0.468			T	IL2	intestinal T-cell lymphoma								26	122	---	---	---	---	PASS	C	12061466	C	C	12061466	3	2	100	1	0	0	0	0	1	0	0	0	16287	72	3	5	327	5	TNFRSF17	16	12061466	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	9245064	12061466	78293287	293	37645										
GDE1	51573	broad.mit.edu	37	chr16	19522215	19522215	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtgaggttatggtttaggcaCtctgcaacagcttcccttag	11	9	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:19522215C>G	uc002dgh.2	-	3	653	c.489G>C	c.(487-489)GAG>GAC	p.E163D	GDE1_uc002dgi.2_Missense_Mutation_p.E53D	NM_016641	NP_057725	Q9NZC3	GDE1_HUMAN	glycerophosphodiester phosphodiesterase 1	163	Lumenal (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	cytoplasm|integral to membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol glycerophosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3						GGTTTAGGCACTCTGCAACAG	0.373													4	278	---	---	---	---	PASS	G	19522215	G	G	19522215	3	3	100	1	0	0	0	0	1	0	0	0	6310	564	20	4	522	4	GDE1	16	19522215	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	7460749	19522215	70832538	294	37646										
GP2	2813	broad.mit.edu	37	chr16	20328621	20328621	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atgtccagcaaacatgaacaTctgaactgagaaccggcttt	8	10	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:20328621T>C	uc002dgv.2	-	9	1422	c.1339A>G	c.(1339-1341)ATG>GTG	p.M447V	GP2_uc002dgw.2_Missense_Mutation_p.M444V|GP2_uc002dgx.2_Missense_Mutation_p.M300V|GP2_uc002dgy.2_Missense_Mutation_p.M297V	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	447	ZP.					anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						AACATGAACATCTGAACTGAG	0.488													42	56	---	---	---	---	PASS	C	20328621	C	C	20328621	3	2	100	1	0	0	0	0	1	0	0	0	6582	1435	50	5	290	5	GP2	16	20328621	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	806406	20328621	70026132	295	37647										
CACNG3	10368	broad.mit.edu	37	chr16	24373169	24373169	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aataatccggccaacaggcgCaccacgcccgtctgaactga	9	15	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:24373169C>T	uc002dmf.2	+	4	2133	c.933C>T	c.(931-933)CGC>CGT	p.R311R		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	311					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0				GBM - Glioblastoma multiforme(48;0.0809)		CCAACAGGCGCACCACGCCCG	0.562													23	27	---	---	---	---	PASS	T	24373169	T	T	24373169	2	4	100	1	0	0	0	0	0	0	0	1	2558	697	25	3		3	CACNG3	16	24373169	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	4044548	24373169	65981584	296	37648										
SH2B1	25970	broad.mit.edu	37	chr16	28877797	28877797	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcccttctcgatcatctgagGacctggccggccccctccct	9	19	3	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:28877797G>T	uc002dri.2	+	4	821	c.382G>T	c.(382-384)GAC>TAC	p.D128Y	uc010vct.1_Intron|SH2B1_uc010vdc.1_Intron|SH2B1_uc002drj.2_Missense_Mutation_p.D128Y|SH2B1_uc002drk.2_Missense_Mutation_p.D128Y|SH2B1_uc002drl.2_Missense_Mutation_p.D128Y|SH2B1_uc010vdd.1_Intron|SH2B1_uc010vde.1_Missense_Mutation_p.D128Y|SH2B1_uc002drm.2_Missense_Mutation_p.D128Y	NM_001145795	NP_001139267	Q9NRF2	SH2B1_HUMAN	SH2B adaptor protein 1 isoform 1	128	Interaction with JAK2 (low-affinity binding; independent of JAK2 phosphorylation) (By similarity).|Interaction with RAC1 (By similarity).|Required for NGF signaling (By similarity).				blood coagulation|intracellular signal transduction	cytosol|membrane|nucleus	signal transducer activity			ovary(2)	2						ATCATCTGAGGACCTGGCCGG	0.627													21	39	---	---	---	---	PASS	T	28877797	T	T	28877797	3	4	100	1	0	0	0	0	1	0	0	0	14227	1174	41	2	384	2	SH2B1	16	28877797	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	4504628	28877797	61476956	297	37649										
ZNF646	9726	broad.mit.edu	37	chr16	31088353	31088353	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tcccctcctgctgaggaggaGcggcggtacaaatgtagtca	13	11	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:31088353G>A	uc002eap.2	+	2	997	c.708G>A	c.(706-708)GAG>GAA	p.E236E	ZNF668_uc002eao.2_5'Flank	NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	236					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						CTGAGGAGGAGCGGCGGTACA	0.597													13	56	---	---	---	---	PASS	A	31088353	A	A	31088353	2	1	100	1	0	0	0	0	0	0	0	1	18059	962	34	3		3	ZNF646	16	31088353	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	2210556	31088353	59266400	298	37650										
MYST1	84148	broad.mit.edu	37	chr16	31141588	31141588	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgagcacctgcctcctgcagGagaaggagtccccggatgga	14	12	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:31141588G>T	uc002eay.2	+	8	931	c.913G>T	c.(913-915)GAG>TAG	p.E305*	MYST1_uc002eax.2_Nonsense_Mutation_p.E305*|MYST1_uc002eaz.2_Nonsense_Mutation_p.E147*|MYST1_uc002eba.2_Nonsense_Mutation_p.E89*|MYST1_uc002ebb.2_RNA	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	305					histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						CCTCCTGCAGGAGAAGGAGTC	0.642													34	53	---	---	---	---	PASS	T	31141588	T	T	31141588	4	4	100	1	0	0	0	0	0	1	0	0	10102	1188	41	2	943	2	MYST1	16	31141588	Nonsense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	53235	31141588	59213165	299	37651										
PHKB	5257	broad.mit.edu	37	chr16	47694647	47694647	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggcaaagcagcacccctagtGctcctgaactgggacagcag	12	13	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:47694647G>T	uc002eev.3	+	22	2165	c.2113G>T	c.(2113-2115)GCT>TCT	p.A705S	PHKB_uc002eeu.3_Missense_Mutation_p.A698S	NM_000293	NP_000284	Q93100	KPBB_HUMAN	phosphorylase kinase, beta isoform a	705					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				CACCCCTAGTGCTCCTGAACT	0.423													57	74	---	---	---	---	PASS	T	47694647	T	T	47694647	3	4	100	1	0	0	0	0	1	0	0	0	11845	1319	46	3	2258	3	PHKB	16	47694647	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	16553059	47694647	42660106	300	37652										
LPCAT2	54947	broad.mit.edu	37	chr16	55583305	55583305	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggaatttactaaaattagccGaaaattgaagtaagtgtatt	8	3	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:55583305G>A	uc002eie.3	+	10	1233	c.1052G>A	c.(1051-1053)CGA>CAA	p.R351Q	LPCAT2_uc002eic.2_Missense_Mutation_p.R81Q	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	351	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						AAAATTAGCCGAAAATTGAAG	0.358													37	66	---	---	---	---	PASS	A	55583305	A	A	55583305	3	1	100	1	0	0	0	0	1	0	0	0	8911	1058	37	2	1090	2	LPCAT2	16	55583305	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	7888658	55583305	34771448	301	37653										
CNOT1	23019	broad.mit.edu	37	chr16	58612662	58612662	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aggatggtttccaaggaaaaTtggcatcagagtggagataa	13	4	1	2	rs112226008	byFrequency	TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:58612662T>C	uc002env.2	-	13	1818	c.1525A>G	c.(1525-1527)ATT>GTT	p.I509V	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.I509V|CNOT1_uc002enx.2_Missense_Mutation_p.I509V|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	509					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		CCAAGGAAAATTGGCATCAGA	0.428													49	65	---	---	---	---	PASS	C	58612662	C	C	58612662	3	2	100	1	0	0	0	0	1	0	0	0	3617	1493	52	5	5975	5	CNOT1	16	58612662	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	3029357	58612662	31742091	302	37654										
BCAR1	9564	broad.mit.edu	37	chr16	75269714	75269714	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gccgggggcggcacgtcataCacgtcctcggccggcgggga	18	14	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:75269714C>A	uc002fdv.2	-	5	1206	c.1083G>T	c.(1081-1083)GTG>GTT	p.V361V	BCAR1_uc002fdt.2_5'UTR|BCAR1_uc002fdu.2_Silent_p.V151V|BCAR1_uc010cgu.2_Silent_p.V350V|BCAR1_uc010vna.1_Silent_p.V359V|BCAR1_uc010vnb.1_Silent_p.V407V|BCAR1_uc002fdw.2_Silent_p.V361V|BCAR1_uc010vnc.1_Silent_p.V213V|BCAR1_uc010vnd.1_Silent_p.V379V|BCAR1_uc002fdx.2_Silent_p.V379V	NM_014567	NP_055382	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	361	Substrate for kinases (By similarity).				actin filament organization|B cell receptor signaling pathway|blood coagulation|cell adhesion|cell division|cell migration|cell proliferation|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|integrin-mediated signaling pathway|nerve growth factor receptor signaling pathway|platelet-derived growth factor receptor signaling pathway|positive regulation of cell migration|regulation of apoptosis|regulation of cell growth|T cell receptor signaling pathway	cytosol|focal adhesion|membrane fraction|ruffle	protein kinase binding|protein phosphatase binding|SH3 domain binding|signal transducer activity			central_nervous_system(5)|breast(2)|prostate(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.169)		GCACGTCATACACGTCCTCGG	0.726													8	10	---	---	---	---	PASS	A	75269714	A	A	75269714	2	1	100	1	0	0	0	0	0	0	0	1	1348	465	17	3		3	BCAR1	16	75269714	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	16657052	75269714	15085039	303	37655										
PKD1L2	114780	broad.mit.edu	37	chr16	81204619	81204619	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctcggccagctcctgcacccTctgcacgtcctccaagccgg	9	20	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr16:81204619T>C	uc002fgh.1	-	17	2839	c.2839A>G	c.(2839-2841)AGG>GGG	p.R947G	PKD1L2_uc002fgg.1_RNA|PKD1L2_uc002fgi.2_Missense_Mutation_p.R262G|PKD1L2_uc002fgj.2_Missense_Mutation_p.R947G	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	947	REJ.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TCCTGCACCCTCTGCACGTCC	0.592													21	19	---	---	---	---	PASS	C	81204619	C	C	81204619	3	2	100	1	0	0	0	0	1	0	0	0	11965	1550	54	5	4717	5	PKD1L2	16	81204619	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	5934905	81204619	9150134	304	37656										
TP53	7157	broad.mit.edu	37	chr17	7578208	7578208	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	catagggcaccaccacactaTgtcgaaaagtgtttctgtca	8	11	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr17:7578208T>C	uc002gim.2	-	6	835	c.641A>G	c.(640-642)CAT>CGT	p.H214R	TP53_uc002gig.1_Missense_Mutation_p.H214R|TP53_uc002gih.2_Missense_Mutation_p.H214R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H82R|TP53_uc010cng.1_Missense_Mutation_p.H82R|TP53_uc002gii.1_Missense_Mutation_p.H82R|TP53_uc010cnh.1_Missense_Mutation_p.H214R|TP53_uc010cni.1_Missense_Mutation_p.H214R|TP53_uc002gij.2_Missense_Mutation_p.H214R|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.H121R|TP53_uc002gio.2_Missense_Mutation_p.H82R|TP53_uc010vug.1_Missense_Mutation_p.H175R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	214	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		H -> Y (in sporadic cancers; somatic mutation).|H -> D (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> P (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H214R(45)|p.0?(7)|p.H214Y(4)|p.H214Q(4)|p.H214D(3)|p.H214fs*5(2)|p.H214fs*33(2)|p.D208fs*1(1)|p.K164_P219del(1)|p.H214H(1)|p.H214fs*7(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213fs*32(1)|p.T211_S215delTFRHS(1)|p.H214_S215insX(1)|p.R209fs*6(1)|p.D208_V216delDRNTFRHSV(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)		CACCACACTATGTCGAAAAGT	0.542		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)			20	8	---	---	---	---	PASS	C	7578208	C	C	7578208	3	2	100	1	0	0	0	0	1	0	0	0	16378	1464	51	5	653	5	TP53	17	7578208	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08		7578208	73617002	305	37657										
MYH13	8735	broad.mit.edu	37	chr17	10222449	10222449	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgcttctcaatcttggctctGagcgtgtgttccgcttcaat	9	11	4	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr17:10222449G>C	uc002gmk.1	-	27	3486	c.3396C>G	c.(3394-3396)CTC>CTG	p.L1132L		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1132	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TCTTGGCTCTGAGCGTGTGTT	0.557													56	11	---	---	---	---	PASS	C	10222449	C	C	10222449	2	2	100	1	0	0	0	0	0	0	0	1	10032	1277	45	2		2	MYH13	17	10222449	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	2644241	10222449	70972761	306	37658										
ACACA	31	broad.mit.edu	37	chr17	35614769	35614769	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aatttagctcctgaactgttCctgagctgggcttaaaaccc	8	11	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr17:35614769C>T	uc002hnm.2	-	14	1762	c.1571G>A	c.(1570-1572)GGA>GAA	p.G524E	ACACA_uc002hnk.2_Missense_Mutation_p.G446E|ACACA_uc002hnl.2_Missense_Mutation_p.G466E|ACACA_uc002hnn.2_Missense_Mutation_p.G524E|ACACA_uc002hno.2_Missense_Mutation_p.G561E|ACACA_uc010cuz.2_Missense_Mutation_p.G524E	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	524	Biotin carboxylation.				acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	CTGAACTGTTCCTGAGCTGGG	0.383													40	27	---	---	---	---	PASS	T	35614769	T	T	35614769	3	4	100	1	0	0	0	0	1	0	0	0	106	855	30	2	5641	2	ACACA	17	35614769	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	25392320	35614769	45580441	307	37659										
FBXL20	84961	broad.mit.edu	37	chr17	37439059	37439059	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttgaatgccatccttggttaCttggtcacaccaggaaatgt	9	9	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr17:37439059C>T	uc010wed.1	-	8	765	c.544G>A	c.(544-546)GTA>ATA	p.V182I	FBXL20_uc002hrt.2_Missense_Mutation_p.V182I|FBXL20_uc010cvu.2_Missense_Mutation_p.V150I	NM_032875	NP_116264	Q96IG2	FXL20_HUMAN	F-box and leucine-rich repeat protein 20	182	LRR 5.					cytoplasm				ovary(1)	1			LUAD - Lung adenocarcinoma(14;0.146)			TCCTTGGTTACTTGGTCACAC	0.443													5	161	---	---	---	---	PASS	T	37439059	T	T	37439059	3	4	100	1	0	0	0	0	1	0	0	0	5717	565	20	3	798	3	FBXL20	17	37439059	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	1824290	37439059	43756151	308	37660										
FAM117A	81558	broad.mit.edu	37	chr17	47810055	47810055	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gaggcctacacactgactttTctggggccaccgagcatggg	13	12	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr17:47810055T>C	uc002ipk.2	-	2	293	c.224A>G	c.(223-225)GAA>GGA	p.E75G	FAM117A_uc010wlz.1_5'UTR	NM_030802	NP_110429	Q9C073	F117A_HUMAN	family with sequence similarity 117, member A	75										ovary(1)	1						CACTGACTTTTCTGGGGCCAC	0.597													14	10	---	---	---	---	PASS	C	47810055	C	C	47810055	3	2	100	1	0	0	0	0	1	0	0	0	5409	1783	62	5	1165	5	FAM117A	17	47810055	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	10370996	47810055	33385155	309	37661										
FTSJ3	117246	broad.mit.edu	37	chr17	61902894	61902894	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccaagcaccacactccctgtAccttgtgagtaagcatcatg	7	14	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr17:61902894A>G	uc002jbz.2	-	5	478	c.400_splice	c.e5+1	p.A134_splice	FTSJ3_uc002jca.2_Splice_Site_p.A134_splice|PSMC5_uc002jcb.2_5'Flank|PSMC5_uc010ddy.2_5'Flank|PSMC5_uc010ddz.2_5'Flank|PSMC5_uc002jcc.2_5'Flank|PSMC5_uc002jcd.2_5'Flank	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3						RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						CACTCCCTGTACCTTGTGAGT	0.567													42	25	---	---	---	---	PASS	G	61902894	G	G	61902894	5	3	100	1	0	0	0	0	0	0	1	0	6089	405	14	5	2205	5	FTSJ3	17	61902894	Splice_Site	SNP	A	TCGA-43-6143-01A-11D-1817-08	14092839	61902894	19292316	310	37662										
ITGB4	3691	broad.mit.edu	37	chr17	73747062	73747062	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccccgctccctagtgcccagCgagccagggcgtctggcctt	12	18	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr17:73747062C>A	uc002jpg.2	+	30	3850	c.3663C>A	c.(3661-3663)AGC>AGA	p.S1221R	ITGB4_uc002jph.2_Missense_Mutation_p.S1221R|ITGB4_uc002jpi.3_Missense_Mutation_p.S1221R|ITGB4_uc002jpj.2_Missense_Mutation_p.S1221R	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1221	Fibronectin type-III 2.|Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			TAGTGCCCAGCGAGCCAGGGC	0.632													65	57	---	---	---	---	PASS	A	73747062	A	A	73747062	3	1	100	1	0	0	0	0	1	0	0	0	7897	767	27	1	3777	1	ITGB4	17	73747062	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	11844168	73747062	7448148	311	37663										
C18orf1	753	broad.mit.edu	37	chr18	13621229	13621229	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccacgcggtccttcatcaacCgcccgaaccagagccggagg	11	17	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr18:13621229C>T	uc002ksa.2	+	5	963	c.295C>T	c.(295-297)CGC>TGC	p.R99C	C18orf1_uc002ksb.2_Missense_Mutation_p.R99C|C18orf1_uc002kse.2_Missense_Mutation_p.R62C|C18orf1_uc002ksf.2_Missense_Mutation_p.R62C|C18orf1_uc002ksg.1_Missense_Mutation_p.R22C|C18orf1_uc002ksh.1_Missense_Mutation_p.R41C|C18orf1_uc002ksi.1_Missense_Mutation_p.R41C	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	99	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		CTTCATCAACCGCCCGAACCA	0.637													21	77	---	---	---	---	PASS	T	13621229	T	T	13621229	3	4	100	1	0	0	0	0	1	0	0	0	1894	652	23	1	386	1	C18orf1	18	13621229	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08		13621229	64456019	312	37664										
CDH2	1000	broad.mit.edu	37	chr18	25572701	25572701	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	taggatctccgccactgattCtgtacactgcgttccaggct	9	13	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr18:25572701C>G	uc002kwg.2	-	9	1721	c.1262G>C	c.(1261-1263)AGA>ACA	p.R421T	CDH2_uc010xbn.1_Missense_Mutation_p.R390T	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	421	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						GCCACTGATTCTGTACACTGC	0.517													91	77	---	---	---	---	PASS	G	25572701	G	G	25572701	3	3	100	1	0	0	0	0	1	0	0	0	3105	913	32	2	1490	2	CDH2	18	25572701	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	11951472	25572701	52504547	313	37665										
GALNT1	2589	broad.mit.edu	37	chr18	33234650	33234650	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agaaaatttgcatactgcaaGgtggtcctagccacctcctt	8	11	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr18:33234650G>A	uc010dmu.2	+	2	77	c.24G>A	c.(22-24)AAG>AAA	p.K8K	GALNT1_uc002kyz.3_5'UTR|GALNT1_uc002kza.2_Silent_p.K8K|GALNT1_uc002kzb.2_Silent_p.K8K	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	8	Cytoplasmic (Potential).				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						CATACTGCAAGGTGGTCCTAG	0.338													12	18	---	---	---	---	PASS	A	33234650	A	A	33234650	2	1	100	1	0	0	0	0	0	0	0	1	6207	991	35	3		3	GALNT1	18	33234650	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	7661949	33234650	44842598	314	37666										
WDR7	23335	broad.mit.edu	37	chr18	54339771	54339771	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	caggaaacagccttgttctaCccattgttctttggggtcga	10	10	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr18:54339771C>T	uc002lgk.1	+	2	236	c.25C>T	c.(25-27)CCC>TCC	p.P9S	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.P9S	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	9										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		CCTTGTTCTACCCATTGTTCT	0.408													8	151	---	---	---	---	PASS	T	54339771	T	T	54339771	3	4	100	1	0	0	0	0	1	0	0	0	17317	507	18	3	27	3	WDR7	18	54339771	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	21105121	54339771	23737477	315	37667										
PIGN	23556	broad.mit.edu	37	chr18	59807680	59807680	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttaagaggaaagggaactccAataagggaagtcatcaatgg	12	5	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr18:59807680A>T	uc002lii.3	-	12	1444	c.996T>A	c.(994-996)ATT>ATA	p.I332I	PIGN_uc002lij.3_Silent_p.I332I	NM_176787	NP_789744	O95427	PIGN_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	332	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphotransferase activity, for other substituted phosphate groups			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5		Colorectal(73;0.187)				AGGGAACTCCAATAAGGGAAG	0.303													4	25	---	---	---	---	PASS	T	59807680	T	T	59807680	2	4	100	1	0	0	0	0	0	0	0	1	11893	126	5	5		5	PIGN	18	59807680	Silent	SNP	A	TCGA-43-6143-01A-11D-1817-08	5467909	59807680	18269568	316	37668										
ZNF236	7776	broad.mit.edu	37	chr18	74672689	74672689	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agccttcaaccagaagagtgCgctgcaggtgcacatgaaga	12	10	1	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr18:74672689C>T	uc002lmi.2	+	30	5489	c.5291C>T	c.(5290-5292)GCG>GTG	p.A1764V	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1764	C2H2-type 29.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CAGAAGAGTGCGCTGCAGGTG	0.517													8	226	---	---	---	---	PASS	T	74672689	T	T	74672689	3	4	100	1	0	0	0	0	1	0	0	0	17786	768	27	1	5409	1	ZNF236	18	74672689	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	14865009	74672689	3404559	317	37669										
SAFB	6294	broad.mit.edu	37	chr19	5664451	5664451	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgggagaacgagaaggacagGtaagtctgaagctacagtgg	16	5	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:5664451G>T	uc002mcf.2	+	17	2387	c.2334_splice	c.e17+1	p.Q778_splice	SAFB_uc002mcg.2_Splice_Site_p.Q778_splice|SAFB_uc002mce.3_Splice_Site_p.Q777_splice|SAFB_uc010xir.1_Splice_Site_p.Q777_splice|SAFB_uc010xis.1_Splice_Site_p.Q709_splice|SAFB_uc010xit.1_Splice_Site_p.Q620_splice|SAFB_uc010xiu.1_Splice_Site_p.Q577_splice	NM_002967	NP_002958	Q15424	SAFB1_HUMAN	scaffold attachment factor B						chromatin organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding			ovary(1)|liver(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;0.000222)		AGAAGGACAGGTAAGTCTGAA	0.458													54	3	---	---	---	---	PASS	T	5664451	T	T	5664451	5	4	100	1	0	0	0	0	0	0	1	0	13806	1275	44	3	2401	3	SAFB	19	5664451	Splice_Site	SNP	G	TCGA-43-6143-01A-11D-1817-08		5664451	53464532	318	37670										
MUC16	94025	broad.mit.edu	37	chr19	9058961	9058961	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gcggccagactctcatctgaGgtgatattcatattgggagc	12	9	3	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:9058961G>A	uc002mkp.2	-	3	28689	c.28485C>T	c.(28483-28485)ACC>ACT	p.T9495T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9497	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTCATCTGAGGTGATATTCA	0.473													61	247	---	---	---	---	PASS	A	9058961	A	A	9058961	2	1	100	1	0	0	0	0	0	0	0	1	9973	987	35	3		3	MUC16	19	9058961	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	3394510	9058961	50070022	319	37671										
KEAP1	9817	broad.mit.edu	37	chr19	10600339	10600339	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cccacctgccccgcttcggaTggtgttcattgctgtgatca	10	14	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:10600339T>C	uc002moq.1	-	4	1672	c.1516A>G	c.(1516-1518)ATC>GTC	p.I506V	KEAP1_uc002mop.1_Missense_Mutation_p.I224V|KEAP1_uc002mor.1_Missense_Mutation_p.I506V	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	506	Kelch 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CCGCTTCGGATGGTGTTCATT	0.597													37	5	---	---	---	---	PASS	C	10600339	C	C	10600339	3	2	100	1	0	0	0	0	1	0	0	0	8141	1464	51	5	370	5	KEAP1	19	10600339	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	1541378	10600339	48528644	320	37672										
CACNA1A	773	broad.mit.edu	37	chr19	13397667	13397667	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tggccagcttgttgttcttcAtgttgtcaatatcctctgcc	8	11	4	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:13397667A>T	uc010dze.2	-	20	3442	c.3206T>A	c.(3205-3207)ATG>AAG	p.M1069K	CACNA1A_uc010dzc.2_Missense_Mutation_p.M594K|CACNA1A_uc002mwy.3_Missense_Mutation_p.M1068K|CACNA1A_uc010xne.1_Missense_Mutation_p.M597K	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1069	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	GTTGTTCTTCATGTTGTCAAT	0.667													30	7	---	---	---	---	PASS	T	13397667	T	T	13397667	3	4	100	1	0	0	0	0	1	0	0	0	2538	217	8	5	4531	5	CACNA1A	19	13397667	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	2797328	13397667	45731316	321	37673										
OR7A10	390892	broad.mit.edu	37	chr19	14952418	14952418	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgcagcctgcataggtgatgActttgttgtgtgtctggatg	14	6	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:14952418A>T	uc002mzx.1	-	1	272	c.272T>A	c.(271-273)GTC>GAC	p.V91D		NM_001005190	NP_001005190	O76100	OR7AA_HUMAN	olfactory receptor, family 7, subfamily A,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					ATAGGTGATGACTTTGTTGTG	0.473													63	9	---	---	---	---	PASS	T	14952418	T	T	14952418	3	4	100	1	0	0	0	0	1	0	0	0	11214	275	10	5	661	5	OR7A10	19	14952418	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	1554751	14952418	44176565	322	37674										
BRD4	23476	broad.mit.edu	37	chr19	15354077	15354077	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agggggctgcaccttctgcaGctgctgcaggtacagctgca	14	12	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:15354077G>A	uc002nar.2	-	14	3025	c.2803C>T	c.(2803-2805)CTG>TTG	p.L935L		NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	935					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			ACCTTCTGCAGCTGCTGCAGG	0.478			T	NUT|C15orf55	lethal midline carcinoma of young people								9	3	---	---	---	---	PASS	A	15354077	A	A	15354077	2	1	100	1	0	0	0	0	0	0	0	1	1504	962	34	3		3	BRD4	19	15354077	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	401659	15354077	43774906	323	37675										
ANO8	57719	broad.mit.edu	37	chr19	17435645	17435645	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tcccatctggccgggcctgcCcgcccgccccgttggaccca	11	21	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:17435645C>G	uc002ngf.2	-	17	3371	c.3212G>C	c.(3211-3213)GGG>GCG	p.G1071A	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	1071	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						CCGGGCCTGCCCGCCCGCCCC	0.711													64	13	---	---	---	---	PASS	G	17435645	G	G	17435645	3	3	100	1	0	0	0	0	1	0	0	0	703	623	22	4	494	4	ANO8	19	17435645	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	2081568	17435645	41693338	324	37676										
GMIP	51291	broad.mit.edu	37	chr19	19752824	19752824	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttgtcaggttctgggtcttcTgagagtagagggtctccagc	14	8	5	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:19752824T>C	uc002nnd.2	-	3	258	c.141A>G	c.(139-141)TCA>TCG	p.S47S	GMIP_uc010xrb.1_Silent_p.S47S|GMIP_uc010xrc.1_Silent_p.S47S	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	47					negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						CTGGGTCTTCTGAGAGTAGAG	0.587													18	3	---	---	---	---	PASS	C	19752824	C	C	19752824	2	2	100	1	0	0	0	0	0	0	0	1	6491	1567	55	5		5	GMIP	19	19752824	Silent	SNP	T	TCGA-43-6143-01A-11D-1817-08	2317179	19752824	39376159	325	37677										
COX6B1	1340	broad.mit.edu	37	chr19	36145572	36145572	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtccctctgccccacatcctGggtatgtgcctcctgccagg	10	17	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:36145572G>T	uc002oav.2	+	3	368	c.206G>T	c.(205-207)TGG>TTG	p.W69L		NM_001863	NP_001854	P14854	CX6B1_HUMAN	cytochrome c oxidase subunit VIb polypeptide 1	69					respiratory electron transport chain	mitochondrial inner membrane|mitochondrial intermembrane space	cytochrome-c oxidase activity				0	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCCACATCCTGGGTATGTGCC	0.607													82	53	---	---	---	---	PASS	T	36145572	T	T	36145572	3	4	100	1	0	0	0	0	1	0	0	0	3776	1362	47	3	212	3	COX6B1	19	36145572	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	16392748	36145572	22983411	326	37678										
ZNF569	148266	broad.mit.edu	37	chr19	37903520	37903520	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	taatgagtatgaattctctgGtgtctaacaaggtgcgactt	10	6	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:37903520G>C	uc002ogi.2	-	6	2598	c.2040C>G	c.(2038-2040)CAC>CAG	p.H680Q	ZNF569_uc002ogh.2_Missense_Mutation_p.H521Q|ZNF569_uc002ogj.2_Missense_Mutation_p.H704Q	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	680	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAATTCTCTGGTGTCTAACAA	0.408													63	150	---	---	---	---	PASS	C	37903520	C	C	37903520	3	2	100	1	0	0	0	0	1	0	0	0	17997	1252	44	4	24	4	ZNF569	19	37903520	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	1757948	37903520	21225463	327	37679										
ARHGEF1	9138	broad.mit.edu	37	chr19	42410651	42410651	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtttccggcggaggaagacaAtggggcggggcctcctcgag	18	10	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:42410651A>G	uc002orx.2	+	27	2643	c.2534A>G	c.(2533-2535)AAT>AGT	p.N845S	ARHGEF1_uc002ory.2_Missense_Mutation_p.N812S|ARHGEF1_uc002orz.2_Missense_Mutation_p.N683S|ARHGEF1_uc002osa.2_Missense_Mutation_p.N860S|ARHGEF1_uc002osb.2_Intron|ARHGEF1_uc002osc.2_Intron|ARHGEF1_uc002osd.2_Missense_Mutation_p.N504S|ARHGEF1_uc002ose.2_Missense_Mutation_p.N289S	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	845					cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		GAGGAAGACAATGGGGCGGGG	0.672													31	45	---	---	---	---	PASS	G	42410651	G	G	42410651	3	3	100	1	0	0	0	0	1	0	0	0	893	101	4	5	2685	5	ARHGEF1	19	42410651	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	4507131	42410651	16718332	328	37680										
PSG8	440533	broad.mit.edu	37	chr19	43262165	43262165	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	aatactcacggaggagattcAgggtgaatgggtcactgcgg	15	7	3	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:43262165A>C	uc002ouo.2	-	3	796	c.698T>G	c.(697-699)CTG>CGG	p.L233R	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc010eim.2_RNA|PSG8_uc002oui.2_Missense_Mutation_p.L72R|PSG8_uc002ouh.2_Missense_Mutation_p.L233R|PSG8_uc010ein.2_Missense_Mutation_p.L111R|PSG8_uc002ouj.3_Intron|PSG8_uc002ouk.3_Missense_Mutation_p.L72R|PSG8_uc002oul.3_Missense_Mutation_p.L233R|PSG8_uc002oum.3_Intron|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Intron	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	233	Ig-like C2-type 1.					extracellular region					0		Prostate(69;0.00899)				GAGGAGATTCAGGGTGAATGG	0.532													207	264	---	---	---	---	PASS	C	43262165	C	C	43262165	3	2	100	1	0	0	0	0	1	0	0	0	12661	188	7	5	615	5	PSG8	19	43262165	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	851514	43262165	15866818	329	37681										
PSG4	5672	broad.mit.edu	37	chr19	43699232	43699232	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	taaggtcctgtttcatttctCgtgacattgggtagaatgag	11	6	2	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:43699232C>T	uc002ovy.2	-	4	1005	c.903G>A	c.(901-903)ACG>ACA	p.T301T	PSG6_uc010xwk.1_Intron|PSG4_uc002owa.2_RNA|PSG4_uc002owb.2_Silent_p.T208T|PSG4_uc002ovz.2_Intron	NM_002780	NP_002771	Q00888	PSG4_HUMAN	pregnancy specific beta-1-glycoprotein 4 isoform	301	Ig-like C2-type 2.				defense response|female pregnancy	extracellular region				ovary(1)	1		Prostate(69;0.00682)				TTTCATTTCTCGTGACATTGG	0.478													188	254	---	---	---	---	PASS	T	43699232	T	T	43699232	2	4	100	1	0	0	0	0	0	0	0	1	12657	871	31	2		2	PSG4	19	43699232	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	437067	43699232	15429751	330	37682										
PPP1R13L	10848	broad.mit.edu	37	chr19	45899860	45899860	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggagcctagcagggagctccCgaaggcggacgctggcgcgt	18	12	0	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:45899860C>A	uc002pbn.2	-	4	732	c.655G>T	c.(655-657)GGG>TGG	p.G219W	PPP1R13L_uc002pbo.2_Missense_Mutation_p.G219W|PPP1R13L_uc002pbp.2_Missense_Mutation_p.G219W	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	219	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		AGGGAGCTCCCGAAGGCGGAC	0.766													13	12	---	---	---	---	PASS	A	45899860	A	A	45899860	3	1	100	1	0	0	0	0	1	0	0	0	12358	652	23	1	1871	1	PPP1R13L	19	45899860	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	2200628	45899860	13229123	331	37683										
HIF3A	64344	broad.mit.edu	37	chr19	46842791	46842791	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	catctttgcaggcctgggccCctcactgctctctccgtact	8	17	3	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:46842791C>A	uc002peh.2	+	15	1951	c.1922C>A	c.(1921-1923)CCC>CAC	p.P641H	HIF3A_uc002pek.2_Missense_Mutation_p.P585H|HIF3A_uc010xxy.1_Missense_Mutation_p.P572H|HIF3A_uc002pel.2_Missense_Mutation_p.P639H	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	641					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		GGCCTGGGCCCCTCACTGCTC	0.502													84	74	---	---	---	---	PASS	A	46842791	A	A	46842791	3	1	100	1	0	0	0	0	1	0	0	0	7105	623	22	3	2004	3	HIF3A	19	46842791	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	942931	46842791	12286192	332	37684										
SPHK2	56848	broad.mit.edu	37	chr19	49132810	49132810	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctcgcgggctgcgctgctgcGccttttcttggccatggagc	14	14	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:49132810G>A	uc002pjr.2	+	7	2111	c.1745G>A	c.(1744-1746)CGC>CAC	p.R582H	SPHK2_uc010xzt.1_Missense_Mutation_p.R523H|SPHK2_uc002pjs.2_Missense_Mutation_p.R582H|SPHK2_uc002pjt.2_Missense_Mutation_p.R376H|SPHK2_uc002pju.2_Intron|SPHK2_uc002pjv.2_Missense_Mutation_p.R546H|SPHK2_uc002pjw.2_Missense_Mutation_p.R644H	NM_020126	NP_064511	Q9NRA0	SPHK2_HUMAN	sphingosine kinase 2	582					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|cell proliferation|sphinganine-1-phosphate biosynthetic process	cytosol|lysosomal membrane|membrane fraction	ATP binding|D-erythro-sphingosine kinase activity|diacylglycerol kinase activity|Ras GTPase binding|sphinganine kinase activity			lung(1)	1		all_lung(116;0.000125)|Lung NSC(112;0.000202)|all_epithelial(76;0.000283)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		GCGCTGCTGCGCCTTTTCTTG	0.692													3	19	---	---	---	---	PASS	A	49132810	A	A	49132810	3	1	100	1	0	0	0	0	1	0	0	0	15046	1087	38	1	1767	1	SPHK2	19	49132810	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	2290019	49132810	9996173	333	37685										
DPRX	503834	broad.mit.edu	37	chr19	54140202	54140202	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cgctccaagcttccattctgGctctcctgcctgttcatcta	6	16	4	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:54140202G>T	uc002qcf.1	+	3	587	c.536G>T	c.(535-537)GGC>GTC	p.G179V		NM_001012728	NP_001012746	A6NFQ7	DPRX_HUMAN	divergent-paired related homeobox	179						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.013)		TTCCATTCTGGCTCTCCTGCC	0.388													62	130	---	---	---	---	PASS	T	54140202	T	T	54140202	3	4	100	1	0	0	0	0	1	0	0	0	4738	1203	42	3	546	3	DPRX	19	54140202	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	5007392	54140202	4988781	334	37686										
KIR2DL3	3804	broad.mit.edu	37	chr19	55263688	55263688	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atgctgttgtaatggaccaaGagcctgcagggaacagaaca	12	8	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:55263688G>A	uc002qgv.2	+	7	859	c.841G>A	c.(841-843)GAG>AAG	p.E281K	KIR2DS4_uc010yfj.1_5'Flank|KIR2DL3_uc002qgx.2_Missense_Mutation_p.E281K|KIR2DL3_uc002qgy.2_Missense_Mutation_p.E183K|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_Intron|KIR3DP1_uc010yfi.1_5'Flank	NM_015868	NP_056952	P43628	KI2L3_HUMAN	killer cell immunoglobulin-like receptor, two	281	Cytoplasmic (Potential).				immune response|regulation of immune response	integral to plasma membrane	antigen binding|protein binding|receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		AATGGACCAAGAGCCTGCAGG	0.512													72	144	---	---	---	---	PASS	A	55263688	A	A	55263688	3	1	100	1	0	0	0	0	1	0	0	0	8317	943	33	2	867	2	KIR2DL3	19	55263688	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	1123486	55263688	3865295	335	37687										
FCAR	2204	broad.mit.edu	37	chr19	55401161	55401161	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cctcggcagatgtggctgaaCcgagctggagccaacagatg	14	11	0	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:55401161C>T	uc002qhr.1	+	5	993	c.796C>T	c.(796-798)CCG>TCG	p.P266S	FCAR_uc002qhs.1_RNA|FCAR_uc002qht.1_Missense_Mutation_p.P217S|FCAR_uc010esi.1_Missense_Mutation_p.P143S|FCAR_uc002qhu.1_Missense_Mutation_p.P170S|FCAR_uc002qhv.1_Missense_Mutation_p.P244S|FCAR_uc002qhw.1_Missense_Mutation_p.P254S|FCAR_uc002qhx.1_Missense_Mutation_p.P158S|FCAR_uc002qhy.1_Missense_Mutation_p.P232S|FCAR_uc002qhz.1_3'UTR|FCAR_uc002qia.1_Missense_Mutation_p.P157S	NM_002000	NP_001991	P24071	FCAR_HUMAN	Fc alpha receptor isoform a precursor	266	Cytoplasmic (Potential).				immune response	extracellular region|integral to plasma membrane	IgA binding|receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0443)		TGTGGCTGAACCGAGCTGGAG	0.557													147	152	---	---	---	---	PASS	T	55401161	T	T	55401161	3	4	100	1	0	0	0	0	1	0	0	0	5773	507	18	3	885	3	FCAR	19	55401161	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	137473	55401161	3727822	336	37688										
USP29	57663	broad.mit.edu	37	chr19	57641067	57641067	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgcttgctttgaaagatttcTgtagtacaaagatcaagaga	9	5	2	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:57641067T>C	uc002qny.2	+	4	1380	c.1024T>C	c.(1024-1026)TGT>CGT	p.C342R		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	342					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GAAAGATTTCTGTAGTACAAA	0.383													99	87	---	---	---	---	PASS	C	57641067	C	C	57641067	3	2	100	1	0	0	0	0	1	0	0	0	17056	1580	55	5	1026	5	USP29	19	57641067	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	2239906	57641067	1487916	337	37689										
ZIK1	284307	broad.mit.edu	37	chr19	58099911	58099911	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtccccatcatgacagggctGtgtgacctttgaggacatcg	12	11	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr19:58099911G>T	uc002qpg.2	+	3	174	c.77G>T	c.(76-78)TGT>TTT	p.C26F	ZNF547_uc002qpm.3_Intron|ZIK1_uc002qph.2_5'UTR|ZIK1_uc002qpi.2_Missense_Mutation_p.C13F|ZIK1_uc002qpj.2_Intron	NM_001010879	NP_001010879	Q3SY52	ZIK1_HUMAN	zinc finger protein interacting with K protein	26					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TGACAGGGCTGTGTGACCTTT	0.522													74	112	---	---	---	---	PASS	T	58099911	T	T	58099911	3	4	100	1	0	0	0	0	1	0	0	0	17680	1377	48	3	87	3	ZIK1	19	58099911	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	458844	58099911	1029072	338	37690										
PCSK2	5126	broad.mit.edu	37	chr20	17338980	17338980	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttgtcattccaggtaaagatGgctttgcagcaggaaggatt	12	6	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr20:17338980G>T	uc002wpm.2	+	3	611	c.291G>T	c.(289-291)ATG>ATT	p.M97I	PCSK2_uc002wpl.2_Missense_Mutation_p.M78I|PCSK2_uc010zrm.1_Missense_Mutation_p.M62I	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	97					enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AGGTAAAGATGGCTTTGCAGC	0.373													6	68	---	---	---	---	PASS	T	17338980	T	T	17338980	3	4	100	1	0	0	0	0	1	0	0	0	11601	1348	47	3	301	3	PCSK2	20	17338980	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08		17338980	45686540	339	37691										
DSTN	11034	broad.mit.edu	37	chr20	17587719	17587719	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	caagcaaatggaccagaagaTctcaatcgggcttgtattgc	10	9	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr20:17587719T>G	uc002wpr.2	+	4	681	c.426T>G	c.(424-426)GAT>GAG	p.D142E	DSTN_uc002wpq.2_Missense_Mutation_p.D125E|DSTN_uc010gck.2_Missense_Mutation_p.D125E	NM_006870	NP_006861	P60981	DEST_HUMAN	destrin isoform a	142	ADF-H.				actin filament severing|actin polymerization or depolymerization		actin binding			large_intestine(1)|skin(1)	2						GACCAGAAGATCTCAATCGGG	0.378													5	164	---	---	---	---	PASS	G	17587719	G	G	17587719	3	3	100	1	0	0	0	0	1	0	0	0	4784	1432	50	5	440	5	DSTN	20	17587719	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	248739	17587719	45437801	340	37692										
CST1	1469	broad.mit.edu	37	chr20	23731348	23731348	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtggccttgttatactcgctGatggcgaagtgaagggcacg	15	8	0	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr20:23731348G>T	uc002wtp.2	-	1	227	c.156C>A	c.(154-156)ATC>ATA	p.I52I		NM_001898	NP_001889	P01037	CYTN_HUMAN	cystatin SN precursor	52						extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1	Lung NSC(19;0.0676)|all_lung(19;0.148)					TATACTCGCTGATGGCGAAGT	0.572													90	59	---	---	---	---	PASS	T	23731348	T	T	23731348	2	4	100	1	0	0	0	0	0	0	0	1	3970	1280	45	2		2	CST1	20	23731348	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	6143629	23731348	39294172	341	37693										
ASXL1	171023	broad.mit.edu	37	chr20	31017235	31017235	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccacgtggaatctgcatcagGtatgtgtaaactcatggttg	11	8	3	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr20:31017235G>A	uc002wxs.2	+	6	991	c.565_splice	c.e6+1	p.G189_splice	ASXL1_uc010geb.2_Splice_Site_p.G131_splice	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						TCTGCATCAGGTATGTGTAAA	0.512			F|N|Mis		MDS|CMML								15	64	---	---	---	---	PASS	A	31017235	A	A	31017235	5	1	100	1	0	0	0	0	0	0	1	0	1066	1275	44	3	598	3	ASXL1	20	31017235	Splice_Site	SNP	G	TCGA-43-6143-01A-11D-1817-08	7285887	31017235	32008285	342	37694										
KIAA0406	9675	broad.mit.edu	37	chr20	36641556	36641556	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccttgtttaaagtctcctgtGataagcctggtcagtgcagt	10	9	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr20:36641556G>A	uc002xhl.2	-	3	872	c.663C>T	c.(661-663)ATC>ATT	p.I221I	KIAA0406_uc002xhm.2_Silent_p.I221I	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	221							binding				0		Myeloproliferative disorder(115;0.00874)				AGTCTCCTGTGATAAGCCTGG	0.423													22	148	---	---	---	---	PASS	A	36641556	A	A	36641556	2	1	100	1	0	0	0	0	0	0	0	1	8173	1280	45	2		2	KIAA0406	20	36641556	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	5624321	36641556	26383964	343	37695										
BPI	671	broad.mit.edu	37	chr20	36953175	36953175	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttttctcatctcttgctacaGattccaaaggagtccaaatt	5	10	2	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr20:36953175G>C	uc002xib.2	+	9	1008	c.946_splice	c.e9-1	p.I316_splice		NM_001725	NP_001716	P17213	BPI_HUMAN	bactericidal/permeability-increasing protein						defense response to bacterium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of macrophage activation|negative regulation of tumor necrosis factor production	extracellular region|integral to plasma membrane	lipid binding|lipopolysaccharide binding			ovary(4)	4		Myeloproliferative disorder(115;0.00878)				TCTTGCTACAGATTCCAAAGG	0.443													73	33	---	---	---	---	PASS	C	36953175	C	C	36953175	5	2	100	1	0	0	0	0	0	0	1	0	1490	956	33	2	979	2	BPI	20	36953175	Splice_Site	SNP	G	TCGA-43-6143-01A-11D-1817-08	311619	36953175	26072345	344	37696										
PTPRT	11122	broad.mit.edu	37	chr20	41385134	41385134	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gctccgcgtagttggacacaCcagacccaccatcagagcgg	11	15	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr20:41385134C>T	uc002xkg.2	-	6	1011	c.827G>A	c.(826-828)GGT>GAT	p.G276D	PTPRT_uc010ggj.2_Missense_Mutation_p.G276D	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	276	Extracellular (Potential).|Ig-like C2-type.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GTTGGACACACCAGACCCACC	0.582													3	27	---	---	---	---	PASS	T	41385134	T	T	41385134	3	4	100	1	0	0	0	0	1	0	0	0	12812	507	18	3	3663	3	PTPRT	20	41385134	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	4431959	41385134	21640386	345	37697										
DNTTIP1	116092	broad.mit.edu	37	chr20	44424038	44424038	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atgttggggaggaggtggacGcagagcagctgatccaggaa	18	6	0	2	rs139853820	byFrequency	TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr20:44424038G>A	uc002xpk.2	+	4	396	c.328G>A	c.(328-330)GCA>ACA	p.A110T		NM_052951	NP_443183	Q9H147	TDIF1_HUMAN	terminal deoxynucleotidyltransferase interacting	110						nucleus				ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.0122)				GGAGGTGGACGCAGAGCAGCT	0.562													13	7	---	---	---	---	PASS	A	44424038	A	A	44424038	3	1	100	1	0	0	0	0	1	0	0	0	4681	1087	38	1	342	1	DNTTIP1	20	44424038	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	3038904	44424038	18601482	346	37698										
PCIF1	63935	broad.mit.edu	37	chr20	44569577	44569577	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cagctctcctacgacccactGagtgagtccctgctgattgg	10	14	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr20:44569577G>A	uc002xqs.2	+	6	831	c.517G>A	c.(517-519)GAG>AAG	p.E173K		NM_022104	NP_071387	Q9H4Z3	PCIF1_HUMAN	phosphorylated CTD interacting factor 1	173						nucleus				skin(1)	1						ACGACCCACTGAGTGAGTCCC	0.597													25	63	---	---	---	---	PASS	A	44569577	A	A	44569577	3	1	100	1	0	0	0	0	1	0	0	0	11580	1304	45	2	531	2	PCIF1	20	44569577	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	145539	44569577	18455943	347	37699										
PREX1	57580	broad.mit.edu	37	chr20	47307609	47307609	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	atcttccagccgttggtgacGgtatagccgttgctatggta	12	9	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr20:47307609G>A	uc002xtw.1	-	9	1085	c.1062C>T	c.(1060-1062)ACC>ACT	p.T354T		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	354	PH.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			CGTTGGTGACGGTATAGCCGT	0.567													24	80	---	---	---	---	PASS	A	47307609	A	A	47307609	2	1	100	1	0	0	0	0	0	0	0	1	12476	1103	39	1		1	PREX1	20	47307609	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	2738032	47307609	15717911	348	37700										
LSM14B	149986	broad.mit.edu	37	chr20	60701381	60701381	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cttccctgggttctgcctccGcctcgcccttccagccgcac	8	21	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr20:60701381G>T	uc010gjy.1	+	3	519	c.313G>T	c.(313-315)GCC>TCC	p.A105S	LSM14B_uc002ybt.2_Missense_Mutation_p.A105S|LSM14B_uc010gjx.1_Missense_Mutation_p.A131S|LSM14B_uc002ybv.2_Missense_Mutation_p.A105S|LSM14B_uc010gjz.1_5'UTR|LSM14B_uc010zzz.1_5'UTR	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	105					multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			TTCTGCCTCCGCCTCGCCCTT	0.662													30	14	---	---	---	---	PASS	T	60701381	T	T	60701381	3	4	100	1	0	0	0	0	1	0	0	0	9055	1087	38	1	323	1	LSM14B	20	60701381	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	13393772	60701381	2324139	349	37701										
NCAM2	4685	broad.mit.edu	37	chr21	22707972	22707972	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gaagatgaaaagcaagctttCctccaagtctttggtaagta	9	7	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr21:22707972C>G	uc002yld.1	+	7	1134	c.885C>G	c.(883-885)TTC>TTG	p.F295L	NCAM2_uc011acb.1_Missense_Mutation_p.F153L|NCAM2_uc011acc.1_Missense_Mutation_p.F320L	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	295	Ig-like C2-type 3.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		AGCAAGCTTTCCTCCAAGTCT	0.373													11	30	---	---	---	---	PASS	G	22707972	G	G	22707972	3	3	100	1	0	0	0	0	1	0	0	0	10203	854	30	2	911	2	NCAM2	21	22707972	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08		22707972	25421923	350	37702										
NCAM2	4685	broad.mit.edu	37	chr21	22910202	22910202	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggaagaagatgggaaagaagCtctaaatccagaaactatag	11	5	1	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr21:22910202C>A	uc002yld.1	+	18	2687	c.2438C>A	c.(2437-2439)GCT>GAT	p.A813D	NCAM2_uc011acb.1_Missense_Mutation_p.A671D	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	813	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		GGGAAAGAAGCTCTAAATCCA	0.328													69	39	---	---	---	---	PASS	A	22910202	A	A	22910202	3	1	100	1	0	0	0	0	1	0	0	0	10203	797	28	3	2508	3	NCAM2	21	22910202	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	202230	22910202	25219693	351	37703										
PFKL	5211	broad.mit.edu	37	chr21	45738464	45738464	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cagtgcggctgcccctcatgGagtgcgtgcagatggtaagc	15	11	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr21:45738464G>T	uc002zel.2	+	10	1107	c.1048G>T	c.(1048-1050)GAG>TAG	p.E350*	PFKL_uc002zek.2_Nonsense_Mutation_p.E397*|PFKL_uc002zem.2_5'Flank|PFKL_uc002zen.2_5'Flank	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	350					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)		GCCCCTCATGGAGTGCGTGCA	0.701													38	11	---	---	---	---	PASS	T	45738464	T	T	45738464	4	4	100	1	0	0	0	0	0	1	0	0	11764	1175	41	2	1086	2	PFKL	21	45738464	Nonsense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	22828262	45738464	2391431	352	37704										
KRTAP10-1	386677	broad.mit.edu	37	chr21	45959214	45959214	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cgggcgggagcacgcggggcGgcagaggagggacacgcagg	23	10	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr21:45959214G>C	uc002zfh.1	-	1	865	c.820C>G	c.(820-822)CGC>GGC	p.R274G	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198691	NP_941964	P60331	KR101_HUMAN	keratin associated protein 10-1	274						keratin filament				skin(1)	1						CACGCGGGGCGGCAGAGGAGG	0.731													30	10	---	---	---	---	PASS	C	45959214	C	C	45959214	3	2	100	1	0	0	0	0	1	0	0	0	8505	1116	39	4	32	4	KRTAP10-1	21	45959214	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	220750	45959214	2170681	353	37705										
MMP11	4320	broad.mit.edu	37	chr22	24121524	24121524	+	Missense_Mutation	SNP	G	A	A													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gtggcgtgcccgacccatctGatgggctgagtgcccgcaac							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr22:24121524G>A	uc002zxx.2	+	2	281	c.259G>A	c.(259-261)GAT>AAT	p.D87N	MMP11_uc002zxy.2_RNA|MMP11_uc002zxz.2_5'Flank	NM_005940	NP_005931	P24347	MMP11_HUMAN	matrix metalloproteinase 11 preproprotein	87					collagen catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|large_intestine(1)	3		Medulloblastoma(6;9.86e-08)|all_neural(6;0.000318)				CGACCCATCTGATGGGCTGAG	0.697													14	33	---	---	---	---	PASS	A	24121524	A	A	24121524	3	1	100	1	0	0	0	0	1	0	0	0	9650	1290	45	2	265	2	MMP11	22	24121524	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08		24121524	27183042	354	37706	701	2								
MMP11	4320	broad.mit.edu	37	chr22	24121532	24121532	+	Silent	SNP	G	C	C													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cccgacccatctgatgggctGagtgcccgcaaccgacagaa							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr22:24121532G>C	uc002zxx.2	+	2	289	c.267G>C	c.(265-267)CTG>CTC	p.L89L	MMP11_uc002zxy.2_RNA|MMP11_uc002zxz.2_5'Flank	NM_005940	NP_005931	P24347	MMP11_HUMAN	matrix metalloproteinase 11 preproprotein	89					collagen catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|large_intestine(1)	3		Medulloblastoma(6;9.86e-08)|all_neural(6;0.000318)				CTGATGGGCTGAGTGCCCGCA	0.682													14	31	---	---	---	---	PASS	C	24121532	C	C	24121532	2	2	100	1	0	0	0	0	0	0	0	1	9650	1277	45	2		2	MMP11	22	24121532	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	8	24121532	27183034	355	37707	701	2								
ADRBK2	157	broad.mit.edu	37	chr22	26114280	26114280	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	tgggaaacccatttctgactCagtggcagcgtcgctatttt	10	10	2	1	rs148927409		TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr22:26114280C>T	uc003abx.3	+	19	1870	c.1723C>T	c.(1723-1725)CAG>TAG	p.Q575*	ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	575	PH.						ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	ATTTCTGACTCAGTGGCAGCG	0.463													4	154	---	---	---	---	PASS	T	26114280	T	T	26114280	4	4	100	1	0	0	0	0	0	1	0	0	344	827	29	2	1797	2	ADRBK2	22	26114280	Nonsense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	1992748	26114280	25190286	356	37708										
SEC14L4	284904	broad.mit.edu	37	chr22	30891954	30891954	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gatttctgcaggtcaaagttTcgagctgcaagaagaggagg	14	6	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr22:30891954T>A	uc003aid.2	-	3	235	c.135A>T	c.(133-135)CGA>CGT	p.R45R	SEC14L4_uc011akz.1_Silent_p.R45R|SEC14L4_uc003aie.2_Missense_Mutation_p.E14V|SEC14L4_uc003aif.2_5'UTR	NM_174977	NP_777637	Q9UDX3	S14L4_HUMAN	SEC14p-like protein TAP3 isoform a	45						integral to membrane|intracellular	lipid binding|transporter activity			skin(1)	1					Vitamin E(DB00163)	GGTCAAAGTTTCGAGCTGCAA	0.507													20	31	---	---	---	---	PASS	A	30891954	A	A	30891954	2	1	100	1	0	0	0	0	0	0	0	1	13984	1770	62	5		5	SEC14L4	22	30891954	Silent	SNP	T	TCGA-43-6143-01A-11D-1817-08	4777674	30891954	20412612	357	37709										
PLA2G3	50487	broad.mit.edu	37	chr22	31535854	31535854	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cgaggagttcccagcagaatCtccaactccacaccacagtg	8	15	1	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr22:31535854C>T	uc003aka.2	-	1	616	c.487G>A	c.(487-489)GAT>AAT	p.D163N		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	163	Phospholipase A2-like.				cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						CCAGCAGAATCTCCAACTCCA	0.353													9	99	---	---	---	---	PASS	T	31535854	T	T	31535854	3	4	100	1	0	0	0	0	1	0	0	0	12000	913	32	2	1070	2	PLA2G3	22	31535854	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	643900	31535854	19768712	358	37710										
SFI1	9814	broad.mit.edu	37	chr22	32010810	32010810	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	agcgaggaagcagccgcgacGcccacacttcctgttggagc	13	14	0	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr22:32010810G>T	uc003ale.2	+	28	3425	c.3032G>T	c.(3031-3033)CGC>CTC	p.R1011L	SFI1_uc003alf.2_Missense_Mutation_p.R980L|SFI1_uc003alg.2_Missense_Mutation_p.R929L|SFI1_uc011alp.1_Missense_Mutation_p.R917L|SFI1_uc011alq.1_Missense_Mutation_p.R956L|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_RNA|SFI1_uc003ali.2_Missense_Mutation_p.R103L|SFI1_uc003alj.2_Missense_Mutation_p.A83S	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	1011					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						CAGCCGCGACGCCCACACTTC	0.662													69	48	---	---	---	---	PASS	T	32010810	T	T	32010810	3	4	100	1	0	0	0	0	1	0	0	0	14156	1087	38	1	3138	1	SFI1	22	32010810	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	474956	32010810	19293756	359	37711										
SLC5A4	6527	broad.mit.edu	37	chr22	32644773	32644773	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	caaagatccacccaagaatcAgcaacattactgaggactac	6	12	1	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr22:32644773A>G	uc003ami.2	-	4	331	c.329T>C	c.(328-330)CTG>CCG	p.L110P		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	110	Helical; (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						CCCAAGAATCAGCAACATTAC	0.348													72	107	---	---	---	---	PASS	G	32644773	G	G	32644773	3	3	100	1	0	0	0	0	1	0	0	0	14667	188	7	5	1698	5	SLC5A4	22	32644773	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	633963	32644773	18659793	360	37712										
C1QTNF6	114904	broad.mit.edu	37	chr22	37578345	37578345	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cgcacccagacgcggtccccGtaggccaggtccagcatcac	11	18	1	1	rs144359957		TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr22:37578345G>T	uc003aqw.1	-	2	1168	c.663C>A	c.(661-663)TAC>TAA	p.Y221*	C1QTNF6_uc003aqx.1_Nonsense_Mutation_p.Y240*|C1QTNF6_uc003aqy.1_Nonsense_Mutation_p.Y240*|C1QTNF6_uc003aqz.1_RNA	NM_182486	NP_872292	Q9BXI9	C1QT6_HUMAN	C1q and tumor necrosis factor related protein 6	221	C1q.					collagen					0						CGCGGTCCCCGTAGGCCAGGT	0.592													18	8	---	---	---	---	PASS	T	37578345	T	T	37578345	4	4	100	1	0	0	0	0	0	1	0	0	1967	1140	40	1	120	1	C1QTNF6	22	37578345	Nonsense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	4933572	37578345	13726221	361	37713										
C1QTNF6	114904	broad.mit.edu	37	chr22	37578618	37578618	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctgtgcagggccgtcttgcgGcccactgagaaggcgaagaa	15	11	1	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr22:37578618G>A	uc003aqw.1	-	2	895	c.390C>T	c.(388-390)GGC>GGT	p.G130G	C1QTNF6_uc003aqx.1_Silent_p.G149G|C1QTNF6_uc003aqy.1_Silent_p.G149G|C1QTNF6_uc003aqz.1_RNA	NM_182486	NP_872292	Q9BXI9	C1QT6_HUMAN	C1q and tumor necrosis factor related protein 6	130	C1q.					collagen					0						CCGTCTTGCGGCCCACTGAGA	0.652													35	33	---	---	---	---	PASS	A	37578618	A	A	37578618	2	1	100	1	0	0	0	0	0	0	0	1	1967	1190	42	3		3	C1QTNF6	22	37578618	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	273	37578618	13725948	362	37714										
GCAT	23464	broad.mit.edu	37	chr22	38212584	38212584	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	accctcccaggcatctttgtCatcgggttcagctaccccgt	8	16	3	0	rs149775052		TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr22:38212584C>G	uc003atz.2	+	9	1139	c.1119C>G	c.(1117-1119)GTC>GTG	p.V373V	GCAT_uc003aua.1_Silent_p.V399V	NM_014291	NP_055106	O75600	KBL_HUMAN	glycine C-acetyltransferase precursor	373					biosynthetic process|cellular amino acid metabolic process		glycine C-acetyltransferase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups				0	Melanoma(58;0.045)				Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	GCATCTTTGTCATCGGGTTCA	0.602													45	66	---	---	---	---	PASS	G	38212584	G	G	38212584	2	3	100	1	0	0	0	0	0	0	0	1	6284	813	29	2		2	GCAT	22	38212584	Silent	SNP	C	TCGA-43-6143-01A-11D-1817-08	633966	38212584	13091982	363	37715										
ADSL	158	broad.mit.edu	37	chr22	40754992	40754992	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggggagtaaagggtaccactGgcactcaggccagtttcctg	14	10	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr22:40754992G>T	uc003ayp.3	+	5	666	c.607G>T	c.(607-609)GGC>TGC	p.G203C	ADSL_uc003ays.3_Missense_Mutation_p.G203C|ADSL_uc003ayq.3_Missense_Mutation_p.G203C|ADSL_uc003ayr.3_5'UTR|ADSL_uc003ayt.3_Missense_Mutation_p.G188C|ADSL_uc010gyb.1_RNA	NM_000026	NP_000017	P30566	PUR8_HUMAN	adenylosuccinate lyase isoform a	203					AMP biosynthetic process|protein tetramerization|purine base metabolic process	cytosol	(S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate AMP-lyase (fumarate-forming) activity|N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity			ovary(1)	1						GGGTACCACTGGCACTCAGGC	0.507													23	22	---	---	---	---	PASS	T	40754992	T	T	40754992	3	4	100	1	0	0	0	0	1	0	0	0	346	1348	47	3	625	3	ADSL	22	40754992	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	2542408	40754992	10549574	364	37716										
EFCAB6	64800	broad.mit.edu	37	chr22	43936136	43936136	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	acggccgagtcaccagtggcCattggtgtggctgctgtctc	14	12	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chr22:43936136C>A	uc003bdy.1	-	28	3965	c.3750G>T	c.(3748-3750)ATG>ATT	p.M1250I	EFCAB6_uc003bdz.1_Missense_Mutation_p.M1098I|EFCAB6_uc010gzi.1_Missense_Mutation_p.M1098I|EFCAB6_uc010gzj.1_3'UTR	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1250					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CACCAGTGGCCATTGGTGTGG	0.592													18	57	---	---	---	---	PASS	A	43936136	A	A	43936136	3	1	100	1	0	0	0	0	1	0	0	0	4939	594	21	3	775	3	EFCAB6	22	43936136	Missense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	3181144	43936136	7368430	365	37717										
NHS	4810	broad.mit.edu	37	chrX	17710497	17710497	+	Frame_Shift_Del	DEL	C	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ccgagagcaaagagcagctgCccccctttccattgcagctc							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chrX:17710497delC	uc004cxx.2	+	3	1099	c.761delC	c.(760-762)GCCfs	p.A254fs	NHS_uc011mix.1_Frame_Shift_Del_p.A254fs|NHS_uc004cxy.2_Frame_Shift_Del_p.A77fs|NHS_uc004cxz.2_Frame_Shift_Del_p.A77fs|NHS_uc004cya.2_5'UTR	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	254						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					AGAGCAGCTGCCCCCCTTTCC	0.507													16	49	---	---	---	---		-	17710497	-	-	17710497	7	5	100	1	0	1	0	1	0	0	0	0	10411	739	26	0	809	0	NHS	23	17710497	Frame_Shift_Del	DEL	C	TCGA-43-6143-01A-11D-1817-08		17710497	137560063	366	37718										
IL1RAPL1	11141	broad.mit.edu	37	chrX	29935678	29935678	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ggagaaaaatttattgaagaTctggatgaaaatcgagtttg	11	2	1	4			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chrX:29935678T>C	uc004dby.2	+	7	1384	c.876T>C	c.(874-876)GAT>GAC	p.D292D		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	292	Extracellular (Potential).|Ig-like C2-type 3.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						TTATTGAAGATCTGGATGAAA	0.353													4	40	---	---	---	---	PASS	C	29935678	C	C	29935678	2	2	100	1	0	0	0	0	0	0	0	1	7661	1432	50	5		5	IL1RAPL1	23	29935678	Silent	SNP	T	TCGA-43-6143-01A-11D-1817-08	12225181	29935678	125334882	367	37719										
CCDC22	28952	broad.mit.edu	37	chrX	49099760	49099760	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctgcctccagagccacgggaGttccaggcgagtcccctgct	12	16	0	1			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chrX:49099760G>A	uc004dnd.1	+	6	702	c.546G>A	c.(544-546)GAG>GAA	p.E182E	CCDC22_uc011mna.1_Silent_p.E182E|CCDC22_uc004dnc.1_RNA	NM_014008	NP_054727	O60826	CCD22_HUMAN	coiled-coil domain containing 22	182										central_nervous_system(1)	1						AGCCACGGGAGTTCCAGGCGA	0.657													10	1	---	---	---	---	PASS	A	49099760	A	A	49099760	2	1	100	1	0	0	0	0	0	0	0	1	2797	1020	36	3		3	CCDC22	23	49099760	Silent	SNP	G	TCGA-43-6143-01A-11D-1817-08	19164082	49099760	106170800	368	37720										
HUWE1	10075	broad.mit.edu	37	chrX	53578044	53578044	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctaggacactacggcgcaggTctgagggcagagtctggatg	16	9	2	2			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chrX:53578044T>C	uc004dsp.2	-	65	9605	c.9203A>G	c.(9202-9204)GAC>GGC	p.D3068G	HUWE1_uc004dsn.2_Missense_Mutation_p.D1876G	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3068					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						ACGGCGCAGGTCTGAGGGCAG	0.562													6	27	---	---	---	---	PASS	C	53578044	C	C	53578044	3	2	100	1	0	0	0	0	1	0	0	0	7461	1667	58	5	4001	5	HUWE1	23	53578044	Missense_Mutation	SNP	T	TCGA-43-6143-01A-11D-1817-08	4478284	53578044	101692516	369	37721										
ZMYM3	9203	broad.mit.edu	37	chrX	70472485	70472485	+	Frame_Shift_Del	DEL	C	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ctagagcccccaggtttggtCtgagaactgttgattccatc							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chrX:70472485delC	uc004dzh.1	-	2	708	c.621delG	c.(619-621)CAGfs	p.Q207fs	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Frame_Shift_Del_p.Q207fs|ZMYM3_uc004dzj.1_Frame_Shift_Del_p.Q207fs|ZMYM3_uc011mpu.1_5'Flank|ZMYM3_uc004dzk.3_Frame_Shift_Del_p.Q207fs|ZMYM3_uc004dzl.3_Frame_Shift_Del_p.Q207fs|ZMYM3_uc004dzm.3_Frame_Shift_Del_p.Q207fs	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	207					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					CAGGTTTGGTCTGAGAACTGT	0.592													3	15	---	---	---	---		-	70472485	-	-	70472485	7	5	100	1	0	1	0	1	0	0	0	0	17698	912	32	0	3605	0	ZMYM3	23	70472485	Frame_Shift_Del	DEL	C	TCGA-43-6143-01A-11D-1817-08	16894441	70472485	84798075	370	37722										
GLRA4	441509	broad.mit.edu	37	chrX	102968474	102968474	+	Frame_Shift_Del	DEL	G	-	-													0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	ttggcgcctctgccttcttcGaagtcgtatgaattctttat							TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chrX:102968474delG	uc011mse.1	-	8	1478	c.1057delC	c.(1057-1059)CGAfs	p.R353fs	TMEM31_uc004elh.2_Intron	NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	353	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						TGCCTTCTTCGAAGTCGTATG	0.517													6	52	---	---	---	---		-	102968474	-	-	102968474	7	5	100	1	0	1	0	1	0	0	0	0	6457	1066	37	0	203	0	GLRA4	23	102968474	Frame_Shift_Del	DEL	G	TCGA-43-6143-01A-11D-1817-08	32495989	102968474	52302086	371	37723										
ODZ1	10178	broad.mit.edu	37	chrX	123514841	123514841	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	cagagacccaagcttaatgaAgtagtgagtgtccctcccct	9	12	0	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chrX:123514841A>G	uc004euj.2	-	31	7787	c.7723T>C	c.(7723-7725)TTC>CTC	p.F2575L	ODZ1_uc011muj.1_Missense_Mutation_p.F2581L|ODZ1_uc010nqy.2_Missense_Mutation_p.F2582L	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2575	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						AGCTTAATGAAGTAGTGAGTG	0.498													69	7	---	---	---	---	PASS	G	123514841	G	G	123514841	3	3	100	1	0	0	0	0	1	0	0	0	10834	72	3	5	458	5	ODZ1	23	123514841	Missense_Mutation	SNP	A	TCGA-43-6143-01A-11D-1817-08	20546367	123514841	31755719	372	37724										
SMARCA1	6594	broad.mit.edu	37	chrX	128599711	128599711	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gagccttgtatcttgcaatcTgtgtatttaaacaaaatagt	7	6	2	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chrX:128599711T>G	uc004eun.3	-	23	2931	c.2818_splice	c.e23-1	p.I940_splice	SMARCA1_uc004eup.3_Splice_Site_p.I928_splice|SMARCA1_uc011muk.1_Splice_Site_p.I940_splice|SMARCA1_uc011mul.1_Splice_Site_p.I928_splice	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated						ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						TCTTGCAATCTGTGTATTTAA	0.323													39	7	---	---	---	---	PASS	G	128599711	G	G	128599711	5	3	100	1	0	0	0	0	0	0	1	0	14768	1594	55	5	356	5	SMARCA1	23	128599711	Splice_Site	SNP	T	TCGA-43-6143-01A-11D-1817-08	5084870	128599711	26670849	373	37725										
CNGA2	1260	broad.mit.edu	37	chrX	150911633	150911633	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	acaactacatccacaccctgCagttcaagctggatgtggct	8	13	1	0			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chrX:150911633C>T	uc004fey.1	+	7	882	c.658C>T	c.(658-660)CAG>TAG	p.Q220*		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	220	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCACACCCTGCAGTTCAAGCT	0.522													45	5	---	---	---	---	PASS	T	150911633	T	T	150911633	4	4	100	1	0	0	0	0	0	1	0	0	3597	711	25	3	680	3	CNGA2	23	150911633	Nonsense_Mutation	SNP	C	TCGA-43-6143-01A-11D-1817-08	22311922	150911633	4358927	374	37726										
GABRE	2564	broad.mit.edu	37	chrX	151124015	151124015	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.092896174863388	34	0.00463779485195881	1.6510762564175	2.19645438636537	1.3525534905513	0.826908622506718	1	13	gagaaaaggtgcccaacgtgGtcatggtcagaacagaggtg	15	7	2	3			TCGA-43-6143-01A-11D-1817-08	TCGA-43-6143-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	3874253f-7168-4cd6-b1d6-f426fa207313	cddef425-a065-4f10-b5fc-ceea4c287a0f	g.chrX:151124015G>A	uc004ffi.2	-	8	1016	c.962C>T	c.(961-963)ACC>ATC	p.T321I	GABRE_uc011myd.1_RNA	NM_004961	NP_004952	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor,	321					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GCCCAACGTGGTCATGGTCAG	0.498													42	8	---	---	---	---	PASS	A	151124015	A	A	151124015	3	1	100	1	0	0	0	0	1	0	0	0	6170	1261	44	3	566	3	GABRE	23	151124015	Missense_Mutation	SNP	G	TCGA-43-6143-01A-11D-1817-08	212382	151124015	4146545	375	37727										
KIAA0562	9731	broad.mit.edu	37	chr1	3756192	3756192	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cttttgcaaatcagcaatggCttgttttagtttcttggcat	8	7	2	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr1:3756192C>A	uc001aky.2	-	7	1074	c.715G>T	c.(715-717)GCC>TCC	p.A239S	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Missense_Mutation_p.A239S	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	239	Potential.					centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		TCAGCAATGGCTTGTTTTAGT	0.353													23	125	---	---	---	---	PASS	A	3756192	A	A	3756192	3	1	101	1	0	0	0	0	1	0	0	0	8184	797	28	3	2126	3	KIAA0562	1	3756192	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08		3756192	245494429	1	37728										
VPS13D	55187	broad.mit.edu	37	chr1	12378287	12378287	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tcgccaccgtaactctagcaGcgaatctgctatagttccca	7	14	2	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr1:12378287G>A	uc001atv.2	+	31	7448	c.7307G>A	c.(7306-7308)AGC>AAC	p.S2436N	VPS13D_uc001atw.2_Missense_Mutation_p.S2436N|VPS13D_uc001atx.2_Missense_Mutation_p.S1624N|VPS13D_uc001aty.1_Missense_Mutation_p.S174N	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2436					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AACTCTAGCAGCGAATCTGCT	0.443													4	137	---	---	---	---	PASS	A	12378287	A	A	12378287	3	1	101	1	0	0	0	0	1	0	0	0	17189	971	34	3	7425	3	VPS13D	1	12378287	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	8622095	12378287	236872334	2	37729										
COL16A1	1307	broad.mit.edu	37	chr1	32148971	32148971	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cccggggctccaggctccccCtgcaagtcagaaagggcaga	13	15	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr1:32148971C>T	uc001btk.1	-	35	2745	c.2380_splice	c.e35-1	p.G794_splice	COL16A1_uc001btj.1_Splice_Site_p.G623_splice|COL16A1_uc001btl.3_Splice_Site_p.G794_splice	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor						cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		CAGGCTCCCCCTGCAAGTCAG	0.627													12	180	---	---	---	---	PASS	T	32148971	T	T	32148971	5	4	101	1	0	0	0	0	0	0	1	0	3673	695	24	3	2583	3	COL16A1	1	32148971	Splice_Site	SNP	C	TCGA-43-6647-01A-11D-1817-08	19770684	32148971	217101650	3	37730										
ANKRD34A	284615	broad.mit.edu	37	chr1	145474029	145474029	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttccgagccgctccccaaacCaccacgccatcccccaaaac	4	22	0	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr1:145474029C>T	uc001enq.1	+	4	1994	c.701C>T	c.(700-702)CCA>CTA	p.P234L	NBPF10_uc001emp.3_Intron	NM_001039888	NP_001034977	Q69YU3	AN34A_HUMAN	ankyrin repeat domain 34	234	Pro-rich.										0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CTCCCCAAACCACCACGCCAT	0.627													5	76	---	---	---	---	PASS	T	145474029	T	T	145474029	3	4	101	1	0	0	0	0	1	0	0	0	662	594	21	3	703	3	ANKRD34A	1	145474029	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	113325058	145474029	103776592	4	37731										
LCE3E	353145	broad.mit.edu	37	chr1	152538557	152538557	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cctcggagctagggccacagCccccagagcttggggcacag	14	15	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr1:152538557C>A	uc001faa.2	-	2	184	c.128G>T	c.(127-129)GGC>GTC	p.G43V		NM_178435	NP_848522	Q5T5B0	LCE3E_HUMAN	late cornified envelope 3E	43					keratinization					ovary(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		Lung(1;0.000294)|LUAD - Lung adenocarcinoma(1;0.00527)|LUSC - Lung squamous cell carcinoma(543;0.206)	UCEC - Uterine corpus endometrioid carcinoma (5;0.153)		AGGGCCACAGCCCCCAGAGCT	0.657													7	66	---	---	---	---	PASS	A	152538557	A	A	152538557	3	1	101	1	0	0	0	0	1	0	0	0	8673	739	26	3	154	3	LCE3E	1	152538557	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	7064528	152538557	96712064	5	37732										
CRABP2	1382	broad.mit.edu	37	chr1	156670390	156670390	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccacgaggtcttggggccctCtcccttcaggagcttctgct	11	15	4	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr1:156670390C>A	uc001fpr.2	-	3	447	c.310G>T	c.(310-312)GAG>TAG	p.E104*		NM_001878	NP_001869	P29373	RABP2_HUMAN	cellular retinoic acid binding protein 2	104					epidermis development|regulation of transcription, DNA-dependent|signal transduction	cytoplasm|nucleus	retinal binding|retinol binding|transporter activity			upper_aerodigestive_tract(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)				Alitretinoin(DB00523)	TTGGGGCCCTCTCCCTTCAGG	0.552													12	89	---	---	---	---	PASS	A	156670390	A	A	156670390	4	1	101	1	0	0	0	0	0	1	0	0	3844	922	32	2	114	2	CRABP2	1	156670390	Nonsense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	4131833	156670390	92580231	6	37733										
CD1A	909	broad.mit.edu	37	chr1	158226635	158226635	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gccctggccatctgcagcttGtgtgccatgtctcaggattc	11	13	2	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr1:158226635G>C	uc001frt.2	+	4	1197	c.664G>C	c.(664-666)GTG>CTG	p.V222L		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	222	Extracellular (Potential).|Ig-like.				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	TCTGCAGCTTGTGTGCCATGT	0.582													13	87	---	---	---	---	PASS	C	158226635	C	C	158226635	3	2	101	1	0	0	0	0	1	0	0	0	2974	1377	48	4	678	4	CD1A	1	158226635	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	1556245	158226635	91023986	7	37734										
SLAMF1	6504	broad.mit.edu	37	chr1	160607107	160607107	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gagattctccagataaaactTgtagcgatctcctagataac	7	9	2	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr1:160607107T>A	uc001fwl.3	-	2	635	c.289A>T	c.(289-291)AAG>TAG	p.K97*	SLAMF1_uc010pjk.1_RNA|SLAMF1_uc010pjl.1_RNA|SLAMF1_uc010pjm.1_RNA|SLAMF1_uc001fwm.2_Nonsense_Mutation_p.K97*	NM_003037	NP_003028	Q13291	SLAF1_HUMAN	signaling lymphocytic activation molecule family	97	Extracellular (Potential).				interspecies interaction between organisms|lymphocyte activation|positive regulation of cell proliferation	integral to membrane	antigen binding|transmembrane receptor activity			ovary(1)|breast(1)	2	all_cancers(52;4.94e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			AGATAAAACTTGTAGCGATCT	0.478													19	110	---	---	---	---	PASS	A	160607107	A	A	160607107	4	1	101	1	0	0	0	0	0	1	0	0	14367	1821	63	5	742	5	SLAMF1	1	160607107	Nonsense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	2380472	160607107	88643514	8	37735										
PAPPA2	60676	broad.mit.edu	37	chr1	176740282	176740282	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	atgaatgcaaaccagggtacTatgtggcagaaagtgcagag	13	6	0	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr1:176740282T>A	uc001gkz.2	+	17	5845	c.4681T>A	c.(4681-4683)TAT>AAT	p.Y1561N	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1561	Sushi 3.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						ACCAGGGTACTATGTGGCAGA	0.473													10	58	---	---	---	---	PASS	A	176740282	A	A	176740282	3	1	101	1	0	0	0	0	1	0	0	0	11433	1522	53	5	4796	5	PAPPA2	1	176740282	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	16133175	176740282	72510339	9	37736										
NCF2	4688	broad.mit.edu	37	chr1	183543638	183543638	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttacccagacacactccatcGccttgtcgattttggaatgt	7	12	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr1:183543638G>T	uc001gqj.3	-	4	760	c.485C>A	c.(484-486)GCG>GAG	p.A162E	NCF2_uc010pod.1_Intron|NCF2_uc010poe.1_Intron|NCF2_uc001gqk.3_Missense_Mutation_p.A162E	NM_000433	NP_000424	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	162					cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3						ACACTCCATCGCCTTGTCGAT	0.463													27	245	---	---	---	---	PASS	T	183543638	T	T	183543638	3	4	101	1	0	0	0	0	1	0	0	0	10217	1087	38	1	1143	1	NCF2	1	183543638	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	6803356	183543638	65706983	10	37737										
PPP1R12B	4660	broad.mit.edu	37	chr1	202317984	202317984	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tgccgaggccggagcaatggCggaactggagcacctaggag	17	10	0	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr1:202317984C>T	uc001gya.1	+	1	149	c.5C>T	c.(4-6)GCG>GTG	p.A2V	PPP1R12B_uc001gxy.2_Missense_Mutation_p.A2V|PPP1R12B_uc009xad.1_5'UTR|PPP1R12B_uc009xae.1_Missense_Mutation_p.A2V|PPP1R12B_uc001gxz.1_Missense_Mutation_p.A2V	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	2					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			GGAGCAATGGCGGAACTGGAG	0.652													9	60	---	---	---	---	PASS	T	202317984	T	T	202317984	3	4	101	1	0	0	0	0	1	0	0	0	12355	768	27	1	7	1	PPP1R12B	1	202317984	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	18774346	202317984	46932637	11	37738										
RYR2	6262	broad.mit.edu	37	chr1	237872358	237872358	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cactggccagagatctctatGccttctaccctctcttgatt	6	14	3	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr1:237872358G>T	uc001hyl.1	+	69	10222	c.10102G>T	c.(10102-10104)GCC>TCC	p.A3368S	RYR2_uc010pxz.1_Missense_Mutation_p.A323S	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3368					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)			AGATCTCTATGCCTTCTACCC	0.458													5	44	---	---	---	---	PASS	T	237872358	T	T	237872358	3	4	101	1	0	0	0	0	1	0	0	0	13769	1319	46	3	10376	3	RYR2	1	237872358	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	35554374	237872358	11378263	12	37739										
CPSF3	51692	broad.mit.edu	37	chr2	9582063	9582063	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tgtactgataagaggaatggTgtcattatagcgggatactg	13	4	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:9582063T>C	uc002qzo.1	+	9	1088	c.1053T>C	c.(1051-1053)GGT>GGC	p.G351G	CPSF3_uc010ewx.1_Silent_p.G351G|CPSF3_uc002qzp.1_Silent_p.G314G	NM_016207	NP_057291	Q9UKF6	CPSF3_HUMAN	cleavage and polyadenylation specific factor 3,	351					histone mRNA 3'-end processing|mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex|ribonucleoprotein complex	5'-3' exonuclease activity|endoribonuclease activity|metal ion binding|protein binding|RNA binding			breast(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;2.39e-25)|all_epithelial(98;8.75e-19)|Lung NSC(108;2.38e-06)|Ovarian(717;0.0308)		all cancers(51;2.2e-40)|Epithelial(75;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(76;4.35e-21)|STAD - Stomach adenocarcinoma(1183;0.00644)		AGAGGAATGGTGTCATTATAG	0.458													22	147	---	---	---	---	PASS	C	9582063	C	C	9582063	2	2	101	1	0	0	0	0	0	0	0	1	3826	1683	59	5		5	CPSF3	2	9582063	Silent	SNP	T	TCGA-43-6647-01A-11D-1817-08		9582063	233617310	13	37740										
DDX1	1653	broad.mit.edu	37	chr2	15760423	15760423	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tacatgggttgacttaaaagGagaagactctgttccagata	10	6	1	4			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:15760423G>T	uc002rce.2	+	17	1586	c.1298G>T	c.(1297-1299)GGA>GTA	p.G433V	DDX1_uc010yjq.1_Missense_Mutation_p.G341V	NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	433	Necessary for interaction with RELA.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		GACTTAAAAGGAGAAGACTCT	0.413													21	82	---	---	---	---	PASS	T	15760423	T	T	15760423	3	4	101	1	0	0	0	0	1	0	0	0	4341	1174	41	2	1364	2	DDX1	2	15760423	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	6178360	15760423	227438950	14	37741										
OSR1	130497	broad.mit.edu	37	chr2	19552084	19552084	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tccttcacctgtgagtgtagCgtcttgtggacagcgagagt	13	9	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:19552084C>G	uc002rdc.2	-	3	1056	c.753G>C	c.(751-753)ACG>ACC	p.T251T		NM_145260	NP_660303	Q8TAX0	OSR1_HUMAN	odd-skipped related 1	251	C2H2-type 3.				chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|heart development|mesangial cell development|mesonephric duct morphogenesis|metanephric cap mesenchymal cell proliferation involved in metanephros development|metanephric glomerulus vasculature development|metanephric interstitial cell development|metanephric mesenchymal cell differentiation|metanephric nephron tubule development|metanephric smooth muscle tissue development|middle ear morphogenesis|negative regulation of apoptosis|negative regulation of nephron tubule epithelial cell differentiation|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|pattern specification involved in metanephros development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of gastrulation|positive regulation of transcription from RNA polymerase II promoter|pronephros development|renal vesicle progenitor cell differentiation|specification of anterior mesonephric tubule identity|specification of posterior mesonephric tubule identity|stem cell differentiation|transcription, DNA-dependent|ureter urothelium development|ureteric bud development	nucleolus	nucleic acid binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	Acute lymphoblastic leukemia(84;0.221)				GTGAGTGTAGCGTCTTGTGGA	0.507													10	77	---	---	---	---	PASS	G	19552084	G	G	19552084	2	3	101	1	0	0	0	0	0	0	0	1	11293	755	27	4		4	OSR1	2	19552084	Silent	SNP	C	TCGA-43-6647-01A-11D-1817-08	3791661	19552084	223647289	15	37742										
BIRC6	57448	broad.mit.edu	37	chr2	32842813	32842813	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtcacactgctcagctccgcGaagagttgctgaaacttccc	9	14	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:32842813G>A	uc010ezu.2	+	74	14550	c.14416G>A	c.(14416-14418)GAA>AAA	p.E4806K		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4806					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)					TCAGCTCCGCGAAGAGTTGCT	0.502													7	42	---	---	---	---	PASS	A	32842813	A	A	32842813	3	1	101	1	0	0	0	0	1	0	0	0	1438	1059	37	2	14710	2	BIRC6	2	32842813	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	13290729	32842813	210356560	16	37743										
MAP4K3	8491	broad.mit.edu	37	chr2	39509662	39509662	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tttagtacttacatgcacttTaggtgttggaggaagaccat	10	6	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:39509662T>C	uc002rro.2	-	22	1712	c.1621A>G	c.(1621-1623)AAA>GAA	p.K541E	MAP4K3_uc002rrp.2_Missense_Mutation_p.K520E|MAP4K3_uc010yns.1_Missense_Mutation_p.K94E	NM_003618	NP_003609	Q8IVH8	M4K3_HUMAN	mitogen-activated protein kinase kinase kinase	541					JNK cascade		ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(3)|lung(3)|stomach(1)|pancreas(1)	8		all_hematologic(82;0.211)				ACATGCACTTTAGGTGTTGGA	0.328													7	80	---	---	---	---	PASS	C	39509662	C	C	39509662	3	2	101	1	0	0	0	0	1	0	0	0	9261	1763	61	5	1115	5	MAP4K3	2	39509662	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	6666849	39509662	203689711	17	37744										
PAPOLG	64895	broad.mit.edu	37	chr2	61019336	61019336	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tgtctctggatagcagttgtCtggatagctccagagacact	11	9	2	1	rs149643688		TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:61019336C>G	uc002sai.2	+	17	1822	c.1591C>G	c.(1591-1593)CTG>GTG	p.L531V	PAPOLG_uc002saj.2_Missense_Mutation_p.L220V|PAPOLG_uc002sak.2_Missense_Mutation_p.L66V|PAPOLG_uc010fch.2_Missense_Mutation_p.L220V	NM_022894	NP_075045	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma	531					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(2;0.0797)		LUSC - Lung squamous cell carcinoma(5;1.19e-07)|Lung(5;2.86e-06)|Epithelial(17;0.0768)			TAGCAGTTGTCTGGATAGCTC	0.433													30	121	---	---	---	---	PASS	G	61019336	G	G	61019336	3	3	101	1	0	0	0	0	1	0	0	0	11431	912	32	2	1657	2	PAPOLG	2	61019336	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	21509674	61019336	182180037	18	37745										
REL	5966	broad.mit.edu	37	chr2	61149294	61149294	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	caacatgctgtctaattgttCtgtgaatatgatgacaacca	7	8	2	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:61149294C>G	uc002sam.1	+	11	1708	c.1484C>G	c.(1483-1485)TCT>TGT	p.S495C	REL_uc002san.1_Missense_Mutation_p.S463C	NM_002908	NP_002899	Q04864	REL_HUMAN	v-rel reticuloendotheliosis viral oncogene	495					positive regulation of I-kappaB kinase/NF-kappaB cascade	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	all_hematologic(2;0.0797)	Ovarian(717;0.0728)	LUSC - Lung squamous cell carcinoma(5;6.2e-08)|Lung(5;1.65e-06)|Epithelial(17;0.064)|all cancers(80;0.221)			TCTAATTGTTCTGTGAATATG	0.408			A		Hodgkin Lymphoma								3	153	---	---	---	---	PASS	G	61149294	G	G	61149294	3	3	101	1	0	0	0	0	1	0	0	0	13215	913	32	2	1526	2	REL	2	61149294	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	129958	61149294	182050079	19	37746										
PDCL3	79031	broad.mit.edu	37	chr2	101188144	101188144	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	caaagccatttcaacaacctGcatacccaattatcctgata	3	13	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:101188144G>T	uc002tao.2	+	5	573	c.461G>T	c.(460-462)TGC>TTC	p.C154F		NM_024065	NP_076970	Q9H2J4	PDCL3_HUMAN	phosducin-like 3	154					apoptosis|interspecies interaction between organisms	cytoplasm	protein binding				0						TCAACAACCTGCATACCCAAT	0.433													35	148	---	---	---	---	PASS	T	101188144	T	T	101188144	3	4	101	1	0	0	0	0	1	0	0	0	11628	1319	46	3	479	3	PDCL3	2	101188144	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	40038850	101188144	142011229	20	37747										
DPP10	57628	broad.mit.edu	37	chr2	116572486	116572486	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gatggcagaggaagtggattCcagggtctgaaaattttgca	14	5	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:116572486C>G	uc002tla.1	+	20	2275	c.1818C>G	c.(1816-1818)TTC>TTG	p.F606L	DPP10_uc002tlb.1_Missense_Mutation_p.F556L|DPP10_uc002tlc.1_Missense_Mutation_p.F602L|DPP10_uc002tle.2_Missense_Mutation_p.F610L|DPP10_uc002tlf.1_Missense_Mutation_p.F599L	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	606	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						GAAGTGGATTCCAGGGTCTGA	0.403													11	94	---	---	---	---	PASS	G	116572486	G	G	116572486	3	3	101	1	0	0	0	0	1	0	0	0	4727	854	30	2	2067	2	DPP10	2	116572486	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	15384342	116572486	126626887	21	37748										
TSN	7247	broad.mit.edu	37	chr2	122520626	122520626	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tcatctggatgtagaagattAtctctcaggagttctaattc	8	7	5	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:122520626A>G	uc002tnl.2	+	5	654	c.419A>G	c.(418-420)TAT>TGT	p.Y140C	TSN_uc002tnm.2_Missense_Mutation_p.Y93C|TSN_uc010yze.1_Intron|TSN_uc010flt.2_RNA	NM_004622	NP_004613	Q15631	TSN_HUMAN	translin	140					DNA recombination	cytoplasm|nucleus	sequence-specific DNA binding			breast(2)|large_intestine(1)	3		Ovarian(717;0.0563)|Prostate(154;0.116)				GTAGAAGATTATCTCTCAGGA	0.368													4	45	---	---	---	---	PASS	G	122520626	G	G	122520626	3	3	101	1	0	0	0	0	1	0	0	0	16626	449	16	5	437	5	TSN	2	122520626	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	5948140	122520626	120678747	22	37749										
THSD7B	80731	broad.mit.edu	37	chr2	138414443	138414443	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	atggaagaagctttgagactGtgggccgccagtctagatca	13	8	2	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:138414443G>T	uc002tva.1	+	22	4096	c.4096G>T	c.(4096-4098)GTG>TTG	p.V1366L	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CTTTGAGACTGTGGGCCGCCA	0.473													11	82	---	---	---	---	PASS	T	138414443	T	T	138414443	3	4	101	1	0	0	0	0	1	0	0	0	15877	1377	48	3	4181	3	THSD7B	2	138414443	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	15893817	138414443	104784930	23	37750										
LRP1B	53353	broad.mit.edu	37	chr2	142567923	142567923	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccagctctgggagacacaagTcacgtgatcgtggcaaagaa	12	10	2	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:142567923T>C	uc002tvj.1	-	2	1102	c.130A>G	c.(130-132)ACT>GCT	p.T44A	LRP1B_uc010fnl.1_Missense_Mutation_p.T81A	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	44	Extracellular (Potential).|LDL-receptor class A 1.				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)		GAGACACAAGTCACGTGATCG	0.443										TSP Lung(27;0.18)			6	48	---	---	---	---	PASS	C	142567923	C	C	142567923	3	2	101	1	0	0	0	0	1	0	0	0	8955	1667	58	5	14029	5	LRP1B	2	142567923	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	4153480	142567923	100631450	24	37751										
SCN3A	6328	broad.mit.edu	37	chr2	165947222	165947222	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccagggcagctgcaaaatcaGagagtttagagaactctata	10	8	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:165947222G>T	uc002ucx.2	-	28	5933	c.5441C>A	c.(5440-5442)TCT>TAT	p.S1814Y	SCN3A_uc010zcy.1_Missense_Mutation_p.S297Y|SCN3A_uc002ucy.2_Missense_Mutation_p.S1765Y|SCN3A_uc002ucz.2_Missense_Mutation_p.S1765Y	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1814						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	TGCAAAATCAGAGAGTTTAGA	0.483													27	132	---	---	---	---	PASS	T	165947222	T	T	165947222	3	4	101	1	0	0	0	0	1	0	0	0	13918	942	33	2	565	2	SCN3A	2	165947222	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	23379299	165947222	77252151	25	37752										
SCN9A	6335	broad.mit.edu	37	chr2	167133750	167133750	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aatgaagacgatgatggccaAcactaaggtgaggttaccta	11	7	0	4			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:167133750A>G	uc010fpl.2	-	16	2925	c.2584T>C	c.(2584-2586)TTG>CTG	p.L862L	uc002udp.2_RNA	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	873	II.|Helical; Name=S5 of repeat II; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	ATGATGGCCAACACTAAGGTG	0.463													31	154	---	---	---	---	PASS	G	167133750	G	G	167133750	2	3	101	1	0	0	0	0	0	0	0	1	13925	40	2	5		5	SCN9A	2	167133750	Silent	SNP	A	TCGA-43-6647-01A-11D-1817-08	1186528	167133750	76065623	26	37753										
RBM45	129831	broad.mit.edu	37	chr2	178990747	178990747	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	atcgaagtttaccttgtgtcAggaaaaaatgtggggtatgc	12	5	1	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:178990747A>G	uc002ulv.2	+	9	1361	c.1269A>G	c.(1267-1269)TCA>TCG	p.S423S		NM_152945	NP_694453	Q8IUH3	RBM45_HUMAN	RNA binding motif protein 45	425	RRM 3.				cell differentiation|nervous system development	cytoplasm|nucleus	nucleotide binding|RNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.00957)|all cancers(119;0.037)			ACCTTGTGTCAGGAAAAAATG	0.328													15	70	---	---	---	---	PASS	G	178990747	G	G	178990747	2	3	101	1	0	0	0	0	0	0	0	1	13139	175	7	5		5	RBM45	2	178990747	Silent	SNP	A	TCGA-43-6647-01A-11D-1817-08	11856997	178990747	64208626	27	37754										
TTN	7273	broad.mit.edu	37	chr2	179640666	179640666	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gcccttttcaacttcacaacTtctttggtttcagtggtgtc	7	11	4	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:179640666T>G	uc010zfg.1	-	28	6149	c.5925A>C	c.(5923-5925)GAA>GAC	p.E1975D	TTN_uc010zfh.1_Missense_Mutation_p.E1929D|TTN_uc010zfi.1_Missense_Mutation_p.E1929D|TTN_uc010zfj.1_Missense_Mutation_p.E1929D|TTN_uc002unb.2_Missense_Mutation_p.E1975D|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1975							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)			ACTTCACAACTTCTTTGGTTT	0.448													31	193	---	---	---	---	PASS	G	179640666	G	G	179640666	3	3	101	1	0	0	0	0	1	0	0	0	16732	1606	56	5	105403	5	TTN	2	179640666	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	649919	179640666	63558707	28	37755										
PTPRN	5798	broad.mit.edu	37	chr2	220162155	220162155	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	catgtgctggcggcacaggtCctgtggaggaagaatcaggt	16	8	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr2:220162155C>A	uc002vkz.2	-	14	1977	c.1888G>T	c.(1888-1890)GAC>TAC	p.D630Y	PTPRN_uc010zlc.1_Missense_Mutation_p.D540Y|PTPRN_uc002vla.2_Missense_Mutation_p.D601Y	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	630	Cytoplasmic (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		CGGCACAGGTCCTGTGGAGGA	0.582													4	66	---	---	---	---	PASS	A	220162155	A	A	220162155	3	1	101	1	0	0	0	0	1	0	0	0	12807	869	30	2	1091	2	PTPRN	2	220162155	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	40521489	220162155	23037218	29	37756										
EPM2AIP1	9852	broad.mit.edu	37	chr3	37033218	37033218	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aggatcaaatattttttcatCttccttattttgctgtttta	4	6	3	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr3:37033218C>G	uc003cgk.2	-	1	1578	c.1351G>C	c.(1351-1353)GAT>CAT	p.D451H	MLH1_uc011aye.1_5'Flank|MLH1_uc003cgl.2_5'Flank|MLH1_uc011ayb.1_5'Flank|MLH1_uc010hge.2_5'Flank|MLH1_uc003cgn.3_5'Flank|MLH1_uc011ayc.1_5'Flank|MLH1_uc011ayd.1_5'Flank|MLH1_uc003cgo.2_5'Flank	NM_014805	NP_055620	Q7L775	EPMIP_HUMAN	EPM2A interacting protein 1	451						endoplasmic reticulum					0						ATTTTTTCATCTTCCTTATTT	0.333													3	52	---	---	---	---	PASS	G	37033218	G	G	37033218	3	3	101	1	0	0	0	0	1	0	0	0	5184	913	32	2	476	2	EPM2AIP1	3	37033218	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08		37033218	160989212	30	37757										
COL7A1	1294	broad.mit.edu	37	chr3	48621171	48621171	+	Missense_Mutation	SNP	G	A	A													0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tttttctcctttctttccagGggggccaacggggccttggg							TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr3:48621171G>A	uc003ctz.2	-	39	4322	c.4321C>T	c.(4321-4323)CCT>TCT	p.P1441S		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1441	Triple-helical region.|Interrupted collagenous region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TTCTTTCCAGGGGGGCCAACG	0.577													9	73	---	---	---	---	PASS	A	48621171	A	A	48621171	3	1	101	1	0	0	0	0	1	0	0	0	3704	1232	43	3	4833	3	COL7A1	3	48621171	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	11587953	48621171	149401259	31	37758	702	2								
COL7A1	1294	broad.mit.edu	37	chr3	48621172	48621172	+	Silent	SNP	G	A	A													0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttttctcctttctttccaggGgggccaacggggccttgggg							TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr3:48621172G>A	uc003ctz.2	-	39	4321	c.4320C>T	c.(4318-4320)CCC>CCT	p.P1440P		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1440	Triple-helical region.|Interrupted collagenous region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TCTTTCCAGGGGGGCCAACGG	0.572													9	74	---	---	---	---	PASS	A	48621172	A	A	48621172	2	1	101	1	0	0	0	0	0	0	0	1	3704	1219	43	3		3	COL7A1	3	48621172	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	1	48621172	149401258	32	37759	702	2								
ADAMTS9	56999	broad.mit.edu	37	chr3	64617583	64617583	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccgggcttttgagtttaaaaCatgatcgcatccagcttgct	9	10	0	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr3:64617583C>G	uc003dmg.2	-	15	2226	c.2194G>C	c.(2194-2196)GTT>CTT	p.V732L	ADAMTS9_uc011bfo.1_Missense_Mutation_p.V704L|ADAMTS9_uc003dmh.1_Missense_Mutation_p.V561L|ADAMTS9_uc003dmk.1_Missense_Mutation_p.V732L	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	732	Cys-rich.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		GAGTTTAAAACATGATCGCAT	0.333													12	61	---	---	---	---	PASS	G	64617583	G	G	64617583	3	3	101	1	0	0	0	0	1	0	0	0	273	478	17	4	3713	4	ADAMTS9	3	64617583	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	15996411	64617583	133404847	33	37760										
EPHA6	285220	broad.mit.edu	37	chr3	97454854	97454854	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccagctgatgctccactgctGgcagaaggagagaaatcaca	11	11	1	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr3:97454854G>A	uc010how.1	+	16	3063	c.3020G>A	c.(3019-3021)TGG>TAG	p.W1007*	EPHA6_uc003drt.2_Nonsense_Mutation_p.W399*|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	912	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CTCCACTGCTGGCAGAAGGAG	0.488													6	62	---	---	---	---	PASS	A	97454854	A	A	97454854	4	1	101	1	0	0	0	0	0	1	0	0	5171	1357	47	3	3199	3	EPHA6	3	97454854	Nonsense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	32837271	97454854	100567576	34	37761										
OR5H1	26341	broad.mit.edu	37	chr3	97852280	97852280	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cctgtggagcccatctcttcTctgtctctttatactatgga	7	12	3	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr3:97852280T>A	uc011bgt.1	+	1	739	c.739T>A	c.(739-741)TCT>ACT	p.S247T		NM_001005338	NP_001005338	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H,	247	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						CCATCTCTTCTCTGTCTCTTT	0.408													8	160	---	---	---	---	PASS	A	97852280	A	A	97852280	3	1	101	1	0	0	0	0	1	0	0	0	11159	1551	54	5	741	5	OR5H1	3	97852280	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	397426	97852280	100170150	35	37762										
MYLK	4638	broad.mit.edu	37	chr3	123367836	123367836	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	acgatcctaatctctcctcaAtgtcgtagaagtcagatact	6	11	3	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr3:123367836A>G	uc003ego.2	-	26	4679	c.4397T>C	c.(4396-4398)ATT>ACT	p.I1466T	MYLK_uc010hrr.2_5'UTR|MYLK_uc011bjv.1_Missense_Mutation_p.I266T|MYLK_uc011bjw.1_Missense_Mutation_p.I1466T|MYLK_uc003egp.2_Missense_Mutation_p.I1397T|MYLK_uc003egq.2_Missense_Mutation_p.I1466T|MYLK_uc003egr.2_Missense_Mutation_p.I1397T|MYLK_uc003egs.2_Missense_Mutation_p.I1290T	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1466	Protein kinase.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		TCTCTCCTCAATGTCGTAGAA	0.517													14	112	---	---	---	---	PASS	G	123367836	G	G	123367836	3	3	101	1	0	0	0	0	1	0	0	0	10056	101	4	5	1383	5	MYLK	3	123367836	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	25515556	123367836	74654594	36	37763										
CCDC14	64770	broad.mit.edu	37	chr3	123634171	123634171	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtaaattgtattatccaaatTatgctcatcttctattaaag	4	6	3	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr3:123634171T>C	uc011bjx.1	-	13	2408	c.2317A>G	c.(2317-2319)AAT>GAT	p.N773D	CCDC14_uc003egv.3_Missense_Mutation_p.N414D|CCDC14_uc003egx.3_Missense_Mutation_p.N573D|CCDC14_uc010hrt.2_Missense_Mutation_p.N732D|CCDC14_uc003egy.3_Missense_Mutation_p.N573D|CCDC14_uc003egz.2_Intron	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	773						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		TTATCCAAATTATGCTCATCT	0.403													33	179	---	---	---	---	PASS	C	123634171	C	C	123634171	3	2	101	1	0	0	0	0	1	0	0	0	2773	1754	61	5	548	5	CCDC14	3	123634171	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	266335	123634171	74388259	37	37764										
SLITRK3	22865	broad.mit.edu	37	chr3	164906083	164906083	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tcccccaactactcctgaaaCcccaccaactgctgggtggt	7	17	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr3:164906083C>G	uc003fej.3	-	2	2980	c.2536G>C	c.(2536-2538)GTT>CTT	p.V846L	SLITRK3_uc003fek.2_Missense_Mutation_p.V846L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	846	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						ACTCCTGAAACCCCACCAACT	0.577										HNSCC(40;0.11)			3	129	---	---	---	---	PASS	G	164906083	G	G	164906083	3	3	101	1	0	0	0	0	1	0	0	0	14744	507	18	4	401	4	SLITRK3	3	164906083	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	41271912	164906083	33116347	38	37765										
TLR1	7096	broad.mit.edu	37	chr4	38798666	38798666	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	agctgcagagggaggtcacaGtcacagccaacaccagcatg	12	12	2	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr4:38798666G>A	uc003gtl.2	-	4	2061	c.1787C>T	c.(1786-1788)ACT>ATT	p.T596I		NM_003263	NP_003254	Q15399	TLR1_HUMAN	toll-like receptor 1 precursor	596	Helical; (Potential).				cellular response to triacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|inflammatory response|innate immune response|macrophage activation|positive regulation of interleukin-6 biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	integral to plasma membrane|phagocytic vesicle membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	protein heterodimerization activity|transmembrane receptor activity			lung(2)|skin(2)|prostate(1)	5						GGAGGTCACAGTCACAGCCAA	0.532													13	82	---	---	---	---	PASS	A	38798666	A	A	38798666	3	1	101	1	0	0	0	0	1	0	0	0	15946	1029	36	3	577	3	TLR1	4	38798666	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08		38798666	152355610	39	37766										
MEPE	56955	broad.mit.edu	37	chr4	88766515	88766515	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	actgcgattaaactcctgggGgaagaaaacaaagagaacac	10	8	0	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr4:88766515G>T	uc003hqy.2	+	4	534	c.495G>T	c.(493-495)GGG>GGT	p.G165G	MEPE_uc010ikn.2_Silent_p.G52G	NM_020203	NP_064588	Q9NQ76	MEPE_HUMAN	matrix, extracellular phosphoglycoprotein with	165					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			ovary(1)|lung(1)|skin(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000432)		AACTCCTGGGGGAAGAAAACA	0.403													10	60	---	---	---	---	PASS	T	88766515	T	T	88766515	2	4	101	1	0	0	0	0	0	0	0	1	9478	1219	43	3		3	MEPE	4	88766515	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	49967849	88766515	102387761	40	37767										
CENPE	1062	broad.mit.edu	37	chr4	104030059	104030059	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aaaacaagattttggtgattCctttggcacaggatcttgta	9	6	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr4:104030059C>G	uc003hxb.1	-	48	8002	c.7912G>C	c.(7912-7914)GAA>CAA	p.E2638Q	CENPE_uc003hxc.1_Missense_Mutation_p.E2517Q	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	2638	Globular autoinhibitory domain (By similarity).				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TTTGGTGATTCCTTTGGCACA	0.393													13	120	---	---	---	---	PASS	G	104030059	G	G	104030059	3	3	101	1	0	0	0	0	1	0	0	0	3230	864	30	2	201	2	CENPE	4	104030059	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	15263544	104030059	87124217	41	37768										
CENPE	1062	broad.mit.edu	37	chr4	104068579	104068579	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	acttcaagggcttcttttatCgttttaaggttgtctctttc	7	8	3	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr4:104068579C>A	uc003hxb.1	-	29	4158	c.4068G>T	c.(4066-4068)ACG>ACT	p.T1356T	CENPE_uc003hxc.1_Silent_p.T1331T	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	1356	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		CTTCTTTTATCGTTTTAAGGT	0.343													15	108	---	---	---	---	PASS	A	104068579	A	A	104068579	2	1	101	1	0	0	0	0	0	0	0	1	3230	871	31	2		2	CENPE	4	104068579	Silent	SNP	C	TCGA-43-6647-01A-11D-1817-08	38520	104068579	87085697	42	37769										
QRFPR	84109	broad.mit.edu	37	chr4	122254094	122254094	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cagaataagcatcaccataaGaggcaggaggaagaggatga	13	6	1	4			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr4:122254094G>C	uc010inj.1	-	4	1058	c.679C>G	c.(679-681)CTT>GTT	p.L227V	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Missense_Mutation_p.L227V	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	227	Helical; Name=5; (Potential).			VILFLLPLMVMLILYSKIGYELWIKKRVGDGSVLRTIHGKE MSKIAR -> SSSSSCLLW (in Ref. 1; AAL26488).		plasma membrane	neuropeptide Y receptor activity				0						ATCACCATAAGAGGCAGGAGG	0.423													10	91	---	---	---	---	PASS	C	122254094	C	C	122254094	3	2	101	1	0	0	0	0	1	0	0	0	12878	942	33	2	628	2	QRFPR	4	122254094	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	18185515	122254094	68900182	43	37770										
FAT4	79633	broad.mit.edu	37	chr4	126372108	126372108	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aaatctcagaagcagctcctAaaggtactattgttggagaa	9	7	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr4:126372108A>G	uc003ifj.3	+	9	9937	c.9937A>G	c.(9937-9939)AAA>GAA	p.K3313E	FAT4_uc011cgp.1_Missense_Mutation_p.K1611E|FAT4_uc003ifi.1_Missense_Mutation_p.K791E	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3313	Cadherin 32.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AGCAGCTCCTAAAGGTACTAT	0.383													14	84	---	---	---	---	PASS	G	126372108	G	G	126372108	3	3	101	1	0	0	0	0	1	0	0	0	5692	363	13	5	9971	5	FAT4	4	126372108	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	4118014	126372108	64782168	44	37771										
CLGN	1047	broad.mit.edu	37	chr4	141320055	141320055	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggaatttttgctctttcatcCcattcctcaggttttttatc	5	10	3	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr4:141320055C>T	uc011chi.1	-	9	1052	c.834G>A	c.(832-834)TGG>TGA	p.W278*	CLGN_uc003iii.2_Nonsense_Mutation_p.W278*	NM_001130675	NP_001124147	O14967	CLGN_HUMAN	calmegin precursor	278	Lumenal (Potential).|1-1.				protein folding	endoplasmic reticulum membrane|integral to membrane	calcium ion binding|unfolded protein binding			ovary(2)|skin(1)	3	all_hematologic(180;0.162)					CTCTTTCATCCCATTCCTCAG	0.363													10	258	---	---	---	---	PASS	T	141320055	T	T	141320055	4	4	101	1	0	0	0	0	0	1	0	0	3524	624	22	3	1030	3	CLGN	4	141320055	Nonsense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	14947947	141320055	49834221	45	37772										
ARHGAP10	79658	broad.mit.edu	37	chr4	148876465	148876465	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ctgagctgttcttttcacacAggagtcttccagagcctctc	8	13	4	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr4:148876465A>G	uc003ilf.2	+	16	1392	c.1392_splice	c.e16-2	p.R464_splice	ARHGAP10_uc003ilg.2_Splice_Site_p.R113_splice|ARHGAP10_uc003ilh.2_Splice_Site_p.R45_splice	NM_024605	NP_078881	A1A4S6	RHG10_HUMAN	Rho GTPase activating protein 10						apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			skin(2)|pancreas(1)|lung(1)	4	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)		CTTTTCACACAGGAGTCTTCC	0.328													21	411	---	---	---	---	PASS	G	148876465	G	G	148876465	5	3	101	1	0	0	0	0	0	0	1	0	862	202	7	5	1452	5	ARHGAP10	4	148876465	Splice_Site	SNP	A	TCGA-43-6647-01A-11D-1817-08	7556410	148876465	42277811	46	37773										
PDE4D	5144	broad.mit.edu	37	chr5	58285714	58285714	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tatgtaattaaagtatctacTggaattttaaatgtttttaa	5	2	1	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr5:58285714T>A	uc003jsa.2	-	10	1492	c.1320A>T	c.(1318-1320)CCA>CCT	p.P440P	PDE4D_uc003jrx.2_Silent_p.P304P|PDE4D_uc003jry.2_Silent_p.P138P|PDE4D_uc003jrz.2_Silent_p.P376P|PDE4D_uc003jsb.2_Silent_p.P379P|PDE4D_uc003jrt.2_Silent_p.P138P|PDE4D_uc003jru.2_Silent_p.P216P|PDE4D_uc003jrv.2_Silent_p.P310P|PDE4D_uc003jrw.2_Silent_p.P318P|PDE4D_uc003jrs.2_Silent_p.P149P	NM_001104631	NP_001098101	Q08499	PDE4D_HUMAN	phosphodiesterase 4D isoform 1	440					signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)	AAGTATCTACTGGAATTTTAA	0.318													10	61	---	---	---	---	PASS	A	58285714	A	A	58285714	2	1	101	1	0	0	0	0	0	0	0	1	11642	1567	55	5		5	PDE4D	5	58285714	Silent	SNP	T	TCGA-43-6647-01A-11D-1817-08		58285714	122629546	47	37774										
TGFBI	7045	broad.mit.edu	37	chr5	135390435	135390435	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tccaattgatgcccatacaaGgaatttgcttcggaaccaca	7	11	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr5:135390435G>C	uc003lbf.3	+	10	1456	c.1295G>C	c.(1294-1296)AGG>ACG	p.R432T	TGFBI_uc003lbg.3_Missense_Mutation_p.R165T|TGFBI_uc003lbh.3_Missense_Mutation_p.R258T|TGFBI_uc011cyb.1_Missense_Mutation_p.R258T|TGFBI_uc010jed.2_Missense_Mutation_p.R165T	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	432	FAS1 3.				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)			GCCCATACAAGGAATTTGCTT	0.458													46	314	---	---	---	---	PASS	C	135390435	C	C	135390435	3	2	101	1	0	0	0	0	1	0	0	0	15817	1000	35	4	1333	4	TGFBI	5	135390435	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	77104721	135390435	45524825	48	37775										
PCDHA8	56140	broad.mit.edu	37	chr5	140221414	140221414	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gagctaactccgtgttaaccTacaggcttagctctcatgat	8	11	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr5:140221414T>G	uc003lhs.2	+	1	508	c.508T>G	c.(508-510)TAC>GAC	p.Y170D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.Y170D	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	170	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGTTAACCTACAGGCTTAG	0.443													8	99	---	---	---	---	PASS	G	140221414	G	G	140221414	3	3	101	1	0	0	0	0	1	0	0	0	11530	1522	53	5	510	5	PCDHA8	5	140221414	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	4830979	140221414	40693846	49	37776										
DOCK2	1794	broad.mit.edu	37	chr5	169507178	169507178	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttcctccagctttccaggaaGcatgagttcatgagtgacac	9	11	1	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr5:169507178G>A	uc003maf.2	+	50	5258	c.5178G>A	c.(5176-5178)AAG>AAA	p.K1726K	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.K1218K|DOCK2_uc003mah.2_Silent_p.K282K	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1726					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TTTCCAGGAAGCATGAGTTCA	0.527													4	65	---	---	---	---	PASS	A	169507178	A	A	169507178	2	1	101	1	0	0	0	0	0	0	0	1	4687	962	34	3		3	DOCK2	5	169507178	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	29285764	169507178	11408082	50	37777										
BTNL8	79908	broad.mit.edu	37	chr5	180376262	180376262	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tgagagacgcccggaaacacGcaggtaccaacgcctgagag	13	12	0	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr5:180376262G>A	uc003mmp.2	+	7	1093	c.859G>A	c.(859-861)GCA>ACA	p.A287T	BTNL8_uc003mmq.2_Missense_Mutation_p.R330H|BTNL8_uc011dhg.1_Missense_Mutation_p.A162T|BTNL8_uc010jll.2_Missense_Mutation_p.R323H|BTNL8_uc010jlm.2_Missense_Mutation_p.A171T|BTNL8_uc011dhh.1_Missense_Mutation_p.A103T	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	287	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCGGAAACACGCAGGTACCAA	0.557													10	31	---	---	---	---	PASS	A	180376262	A	A	180376262	3	1	101	1	0	0	0	0	1	0	0	0	1567	1087	38	1	1041	1	BTNL8	5	180376262	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	10869084	180376262	538998	51	37778										
BTN1A1	696	broad.mit.edu	37	chr6	26505289	26505289	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggagagaagtttccatctacAtcagagtccaggaatcctga	10	9	2	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr6:26505289A>T	uc003nif.3	+	3	584	c.564A>T	c.(562-564)ACA>ACT	p.T188T		NM_001732	NP_001723	Q13410	BT1A1_HUMAN	butyrophilin, subfamily 1, member A1 precursor	188	Extracellular (Potential).|Ig-like V-type 2.					extracellular region|integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2						TTCCATCTACATCAGAGTCCA	0.488													6	75	---	---	---	---	PASS	T	26505289	T	T	26505289	2	4	101	1	0	0	0	0	0	0	0	1	1559	204	8	5		5	BTN1A1	6	26505289	Silent	SNP	A	TCGA-43-6647-01A-11D-1817-08		26505289	144609778	52	37779										
MUC21	394263	broad.mit.edu	37	chr6	30955950	30955950	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tcgatagccatggagatgagCgggaggaacagcgggccctg	17	9	0	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr6:30955950C>T	uc003nsh.2	+	3	1931	c.1680C>T	c.(1678-1680)AGC>AGT	p.S560S	MUC21_uc003nsi.1_RNA	NM_001010909	NP_001010909	Q5SSG8	MUC21_HUMAN	mucin 21 precursor	560	Cytoplasmic (Potential).|Cytoplasmic tail.					integral to membrane|plasma membrane				ovary(1)|skin(1)	2						TGGAGATGAGCGGGAGGAACA	0.597													6	39	---	---	---	---	PASS	T	30955950	T	T	30955950	2	4	101	1	0	0	0	0	0	0	0	1	9977	767	27	1		1	MUC21	6	30955950	Silent	SNP	C	TCGA-43-6647-01A-11D-1817-08	4450661	30955950	140159117	53	37780										
SKIV2L	6499	broad.mit.edu	37	chr6	31937189	31937189	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aggttgtatatgagtgggccCggggcatggtgagtacctga	17	6	0	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr6:31937189C>T	uc003nyn.1	+	27	3921	c.3532C>T	c.(3532-3534)CGG>TGG	p.R1178W	SKIV2L_uc011dou.1_Missense_Mutation_p.R1020W|SKIV2L_uc011dov.1_Missense_Mutation_p.R985W|STK19_uc003nyt.2_5'Flank|STK19_uc011dow.1_5'Flank|STK19_uc011dox.1_5'Flank|STK19_uc003nyv.2_5'Flank|STK19_uc003nyw.2_5'Flank|STK19_uc010jtn.1_5'Flank	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	1178						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						TGAGTGGGCCCGGGGCATGGT	0.577													3	47	---	---	---	---	PASS	T	31937189	T	T	31937189	3	4	101	1	0	0	0	0	1	0	0	0	14359	643	23	1	3638	1	SKIV2L	6	31937189	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	981239	31937189	139177878	54	37781										
PGK2	5232	broad.mit.edu	37	chr6	49754268	49754268	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gccactttggctccaccaagTatagccagaaagggtctcac	9	13	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr6:49754268T>A	uc003ozu.2	-	1	740	c.633A>T	c.(631-633)ATA>ATT	p.I211I		NM_138733	NP_620061	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	211					glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			ovary(1)	1	Lung NSC(77;0.0402)					CTCCACCAAGTATAGCCAGAA	0.428													12	159	---	---	---	---	PASS	A	49754268	A	A	49754268	2	1	101	1	0	0	0	0	0	0	0	1	11791	1628	57	5		5	PGK2	6	49754268	Silent	SNP	T	TCGA-43-6647-01A-11D-1817-08	17817079	49754268	121360799	55	37782										
CASP8AP2	9994	broad.mit.edu	37	chr6	90571877	90571877	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tccacattttcgaaataatcAtaaaactgcaaggacatttg	5	8	1	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr6:90571877A>G	uc003pnr.2	+	7	645	c.449A>G	c.(448-450)CAT>CGT	p.H150R	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.H150R|CASP8AP2_uc011dzz.1_Missense_Mutation_p.H150R	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	150					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		CGAAATAATCATAAAACTGCA	0.269													6	42	---	---	---	---	PASS	G	90571877	G	G	90571877	3	3	101	1	0	0	0	0	1	0	0	0	2678	217	8	5	471	5	CASP8AP2	6	90571877	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	40817609	90571877	80543190	56	37783										
FRK	2444	broad.mit.edu	37	chr6	116289818	116289818	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tcacaaattcgttcagtgttGaaaagattcttcttcgcgtg	8	8	4	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr6:116289818G>T	uc003pwi.1	-	3	998	c.551C>A	c.(550-552)TCA>TAA	p.S184*		NM_002031	NP_002022	P42685	FRK_HUMAN	fyn-related kinase	184	SH2.				negative regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|lung(3)	6		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)		GTTCAGTGTTGAAAAGATTCT	0.413													27	151	---	---	---	---	PASS	T	116289818	T	T	116289818	4	4	101	1	0	0	0	0	0	1	0	0	6048	1294	45	2	990	2	FRK	6	116289818	Nonsense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	25717941	116289818	54825249	57	37784										
SAMD3	154075	broad.mit.edu	37	chr6	130530728	130530728	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ctgctccccatgcctggctgGactggaggactcttcatccc	10	16	2	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr6:130530728G>C	uc003qbv.2	-	6	621	c.295C>G	c.(295-297)CCA>GCA	p.P99A	SAMD3_uc003qbx.2_Missense_Mutation_p.P99A|SAMD3_uc003qbw.2_Missense_Mutation_p.P99A|SAMD3_uc010kfg.1_Missense_Mutation_p.P99A|SAMD3_uc003qby.2_Missense_Mutation_p.P99A|SAMD3_uc003qbz.1_Missense_Mutation_p.P58A	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	99										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		TGCCTGGCTGGACTGGAGGAC	0.468													12	69	---	---	---	---	PASS	C	130530728	C	C	130530728	3	2	101	1	0	0	0	0	1	0	0	0	13820	1174	41	2	1315	2	SAMD3	6	130530728	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	14240910	130530728	40584339	58	37785										
GRM1	2911	broad.mit.edu	37	chr6	146625878	146625878	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cctgaaactgaggctggacaCtaacacgaggaatccctggt	11	11	0	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr6:146625878C>G	uc010khw.1	+	4	1552	c.1082C>G	c.(1081-1083)ACT>AGT	p.T361S	GRM1_uc010khv.1_Missense_Mutation_p.T361S|GRM1_uc003qll.2_Missense_Mutation_p.T361S|GRM1_uc011edz.1_Missense_Mutation_p.T361S|GRM1_uc011eea.1_Missense_Mutation_p.T361S	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	361	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	AGGCTGGACACTAACACGAGG	0.498													13	85	---	---	---	---	PASS	G	146625878	G	G	146625878	3	3	101	1	0	0	0	0	1	0	0	0	6796	565	20	4	1092	4	GRM1	6	146625878	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	16095150	146625878	24489189	59	37786										
C6orf118	168090	broad.mit.edu	37	chr6	165711504	165711504	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gctgcttttgtggctgtcacGagcatcctcagctcttccct	9	14	3	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr6:165711504G>A	uc003qum.3	-	5	1059	c.1023C>T	c.(1021-1023)CTC>CTT	p.L341L	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	341											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		TGGCTGTCACGAGCATCCTCA	0.562													19	127	---	---	---	---	PASS	A	165711504	A	A	165711504	2	1	101	1	0	0	0	0	0	0	0	1	2323	1045	37	2		2	C6orf118	6	165711504	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	19085626	165711504	5403563	60	37787										
PMS2	5395	broad.mit.edu	37	chr7	6038907	6038907	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tggaccattttggcatactcCtgtttaaaaaacacaaacac	5	10	0	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr7:6038907C>A	uc003spl.2	-	6	625	c.538_splice	c.e6-1	p.E180_splice	PMS2_uc003spj.2_Splice_Site_p.E74_splice|PMS2_uc003spk.2_Splice_Site_p.E45_splice|PMS2_uc011jwl.1_Splice_Site_p.E45_splice|PMS2_uc010ktg.2_Intron|PMS2_uc010kte.2_Splice_Site_p.E180_splice|PMS2_uc010ktf.1_Splice_Site_p.E180_splice	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform						mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		TGGCATACTCCTGTTTAAAAA	0.393			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				5	61	---	---	---	---	PASS	A	6038907	A	A	6038907	5	1	101	1	0	0	0	0	0	0	1	0	12143	695	24	3	2091	3	PMS2	7	6038907	Splice_Site	SNP	C	TCGA-43-6647-01A-11D-1817-08		6038907	153099756	61	37788										
ABCA13	154664	broad.mit.edu	37	chr7	48550793	48550793	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gccctcctgctgtcacttttCgggtatgtgatgagaaacgc	11	11	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr7:48550793C>A	uc003toq.2	+	51	13663	c.13638C>A	c.(13636-13638)TTC>TTA	p.F4546L	ABCA13_uc010kys.1_Missense_Mutation_p.F1621L|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Missense_Mutation_p.F276L	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4546	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TGTCACTTTTCGGGTATGTGA	0.483													3	67	---	---	---	---	PASS	A	48550793	A	A	48550793	3	1	101	1	0	0	0	0	1	0	0	0	31	883	31	2	13669	2	ABCA13	7	48550793	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	42511886	48550793	110587870	62	37789										
LANCL2	55915	broad.mit.edu	37	chr7	55493059	55493059	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccatgggactgctggcaacgGctattccttcctgtcccttt	9	14	0	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr7:55493059G>A	uc003tqp.2	+	7	1699	c.1121G>A	c.(1120-1122)GGC>GAC	p.G374D		NM_018697	NP_061167	Q9NS86	LANC2_HUMAN	LanC lantibiotic synthetase component C-like 2	374					negative regulation of transcription, DNA-dependent|positive regulation of abscisic acid mediated signaling pathway	cortical actin cytoskeleton|cytosol|nucleus|plasma membrane	ATP binding|catalytic activity|GTP binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding			ovary(1)|skin(1)	2	Breast(14;0.0379)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00128)|Epithelial(13;0.0706)			GCTGGCAACGGCTATTCCTTC	0.532													4	117	---	---	---	---	PASS	A	55493059	A	A	55493059	3	1	101	1	0	0	0	0	1	0	0	0	8621	1203	42	3	1147	3	LANCL2	7	55493059	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	6942266	55493059	103645604	63	37790										
POM121C	100101267	broad.mit.edu	37	chr7	75051114	75051114	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtggctccaaagccggagctGgtggctgcaccgaaggagaa	16	10	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr7:75051114G>A	uc003udk.3	-	13	3306	c.2421C>T	c.(2419-2421)ACC>ACT	p.T807T		NM_001099415	NP_001092885	A8CG34	P121C_HUMAN	POM121 membrane glycoprotein (rat)-like	1049	Pore side (Potential).				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						AGCCGGAGCTGGTGGCTGCAC	0.647													6	87	---	---	---	---	PASS	A	75051114	A	A	75051114	2	1	101	1	0	0	0	0	0	0	0	1	12240	1335	47	3		3	POM121C	7	75051114	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	19558055	75051114	84087549	64	37791										
CACNA2D1	781	broad.mit.edu	37	chr7	81714198	81714198	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aggcacttgtccagttgagtTcatttaacacaattgttgct	8	8	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr7:81714198T>G	uc003uhr.1	-	7	801	c.545A>C	c.(544-546)GAA>GCA	p.E182A		NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	182	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	CCAGTTGAGTTCATTTAACAC	0.328													9	74	---	---	---	---	PASS	G	81714198	G	G	81714198	3	3	101	1	0	0	0	0	1	0	0	0	2548	1783	62	5	2862	5	CACNA2D1	7	81714198	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	6663084	81714198	77424465	65	37792										
GRM3	2913	broad.mit.edu	37	chr7	86415818	86415818	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cgagcaggaagcccgcctgcGcaacatctgcatcgctacgg	12	15	1	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr7:86415818G>C	uc003uid.2	+	3	1809	c.710G>C	c.(709-711)CGC>CCC	p.R237P	GRM3_uc010lef.2_Missense_Mutation_p.R235P|GRM3_uc010leg.2_Missense_Mutation_p.R109P|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	237	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GCCCGCCTGCGCAACATCTGC	0.607													8	61	---	---	---	---	PASS	C	86415818	C	C	86415818	3	2	101	1	0	0	0	0	1	0	0	0	6798	1087	38	4	716	4	GRM3	7	86415818	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	4701620	86415818	72722845	66	37793										
ABCB4	5244	broad.mit.edu	37	chr7	87072693	87072693	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggaccgttgtgctcttcccaCagccactacttccaaccagg	8	16	1	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr7:87072693C>T	uc003uiv.1	-	12	1374	c.1298G>A	c.(1297-1299)TGT>TAT	p.C433Y	ABCB4_uc003uiw.1_Missense_Mutation_p.C433Y|ABCB4_uc003uix.1_Missense_Mutation_p.C433Y	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	433	ABC transporter 1.|Cytoplasmic (By similarity).|ATP 1 (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					GCTCTTCCCACAGCCACTACT	0.517													43	183	---	---	---	---	PASS	T	87072693	T	T	87072693	3	4	101	1	0	0	0	0	1	0	0	0	43	478	17	3	2630	3	ABCB4	7	87072693	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	656875	87072693	72065970	67	37794										
BET1	10282	broad.mit.edu	37	chr7	93623548	93623548	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cacaattacatgcatcacctCagtttaataatccaataaat	2	10	2	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr7:93623548C>A	uc003unf.1	-	4	513	c.351G>T	c.(349-351)CTG>CTT	p.L117L	BET1_uc003une.3_Intron	NM_005868	NP_005859	O15155	BET1_HUMAN	blocked early in transport 1	117	Vesicular (Potential).				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein binding				0	all_cancers(62;2.22e-10)|all_epithelial(64;1.38e-09)|Lung NSC(181;0.218)	Breast(660;0.000162)|Ovarian(593;0.000626)	STAD - Stomach adenocarcinoma(171;0.000967)			TGCATCACCTCAGTTTAATAA	0.328													7	37	---	---	---	---	PASS	A	93623548	A	A	93623548	2	1	101	1	0	0	0	0	0	0	0	1	1408	813	29	2		2	BET1	7	93623548	Silent	SNP	C	TCGA-43-6647-01A-11D-1817-08	6550855	93623548	65515115	68	37795										
LAMB4	22798	broad.mit.edu	37	chr7	107692543	107692543	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aaatacatttttcccttaccCgcaatgcttgcattaaggac	5	11	0	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr7:107692543C>T	uc010ljo.1	-	26	3999	c.3915G>A	c.(3913-3915)GCG>GCA	p.A1305A	LAMB4_uc003vey.2_Silent_p.A1305A|LAMB4_uc010ljp.1_Silent_p.A274A	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	1305	Domain II.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						TTCCCTTACCCGCAATGCTTG	0.408													25	123	---	---	---	---	PASS	T	107692543	T	T	107692543	2	4	101	1	0	0	0	0	0	0	0	1	8613	666	23	1		1	LAMB4	7	107692543	Silent	SNP	C	TCGA-43-6647-01A-11D-1817-08	14068995	107692543	51446120	69	37796										
SLC13A1	6561	broad.mit.edu	37	chr7	122759214	122759214	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttaaagatgtcaccatcaaaGaagatatcagaattattagc	6	6	3	4			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr7:122759214G>C	uc003vkm.2	-	13	1458	c.1433C>G	c.(1432-1434)TCT>TGT	p.S478C	SLC13A1_uc010lks.2_Missense_Mutation_p.S354C	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	478	Helical; (Potential).					integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	CACCATCAAAGAAGATATCAG	0.373													18	75	---	---	---	---	PASS	C	122759214	C	C	122759214	3	2	101	1	0	0	0	0	1	0	0	0	14391	942	33	2	366	2	SLC13A1	7	122759214	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	15066671	122759214	36379449	70	37797										
DUSP4	1846	broad.mit.edu	37	chr8	29194783	29194783	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ctgaagttgggcgagatgatGctgcggcgctgcttaacgaa	15	8	0	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr8:29194783G>T	uc003xhm.2	-	4	1335	c.945C>A	c.(943-945)AGC>AGA	p.S315R	DUSP4_uc003xhl.2_Missense_Mutation_p.S224R	NM_001394	NP_001385	Q13115	DUS4_HUMAN	dual specificity phosphatase 4 isoform 1	315	Tyrosine-protein phosphatase.				endoderm formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|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	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/threonine phosphatase activity	p.S315S(1)		lung(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.094)|Kidney(114;0.113)		GCGAGATGATGCTGCGGCGCT	0.637													3	63	---	---	---	---	PASS	T	29194783	T	T	29194783	3	4	101	1	0	0	0	0	1	0	0	0	4827	1310	46	3	243	3	DUSP4	8	29194783	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08		29194783	117169239	71	37798										
ZBTB10	65986	broad.mit.edu	37	chr8	81412419	81412419	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aaaatgaatctgaaggtcaaAcaaaagtgtttatttggaat	8	3	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr8:81412419A>G	uc003ybx.3	+	2	2261	c.1663A>G	c.(1663-1665)ACA>GCA	p.T555A	ZBTB10_uc003ybv.3_Missense_Mutation_p.T263A|ZBTB10_uc003ybw.3_Missense_Mutation_p.T555A|ZBTB10_uc010lzt.2_Missense_Mutation_p.T555A	NM_001105539	NP_001099009	Q96DT7	ZBT10_HUMAN	zinc finger and BTB domain containing 10 isoform	555					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)	1	all_cancers(3;1.68e-09)|all_epithelial(4;5.13e-11)|Lung NSC(7;1.75e-07)|all_lung(9;7.38e-07)|Breast(3;2.96e-06)		BRCA - Breast invasive adenocarcinoma(6;0.000434)|Epithelial(68;0.00486)|all cancers(69;0.0296)			TGAAGGTCAAACAAAAGTGTT	0.368													3	29	---	---	---	---	PASS	G	81412419	G	G	81412419	3	3	101	1	0	0	0	0	1	0	0	0	17520	43	2	5	1669	5	ZBTB10	8	81412419	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	52217636	81412419	64951603	72	37799										
ZFPM2	23414	broad.mit.edu	37	chr8	106815541	106815541	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gacgaccacaaatctccctcGtggatctctgagaacccatt	7	14	2	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr8:106815541G>T	uc003ymd.2	+	8	3254	c.3231G>T	c.(3229-3231)TCG>TCT	p.S1077S	ZFPM2_uc011lhs.1_Silent_p.S808S	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	1077					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AATCTCCCTCGTGGATCTCTG	0.478													7	36	---	---	---	---	PASS	T	106815541	T	T	106815541	2	4	101	1	0	0	0	0	0	0	0	1	17655	1132	40	1		1	ZFPM2	8	106815541	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	25403122	106815541	39548481	73	37800										
LRRC14	9684	broad.mit.edu	37	chr8	145745252	145745252	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	caagaagacagtggtactgcGcgagttggtacacacgtggc	14	9	0	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr8:145745252G>A	uc003zdk.1	+	2	289	c.143G>A	c.(142-144)CGC>CAC	p.R48H	RECQL4_uc003zdj.2_5'Flank|LRRC14_uc003zdl.1_Missense_Mutation_p.R48H|LRRC14_uc003zdo.2_5'Flank	NM_014665	NP_055480	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	48											0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			GTGGTACTGCGCGAGTTGGTA	0.637													14	97	---	---	---	---	PASS	A	145745252	A	A	145745252	3	1	101	1	0	0	0	0	1	0	0	0	8968	1087	38	1	145	1	LRRC14	8	145745252	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	38929711	145745252	618770	74	37801										
OR13F1	138805	broad.mit.edu	37	chr9	107266678	107266678	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttgctgggcaacatttttctGatctccatcaccattctaga	6	11	4	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr9:107266678G>T	uc011lvm.1	+	1	135	c.135G>T	c.(133-135)CTG>CTT	p.L45L		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						ACATTTTTCTGATCTCCATCA	0.468													22	132	---	---	---	---	PASS	T	107266678	T	T	107266678	2	4	101	1	0	0	0	0	0	0	0	1	10941	1277	45	2		2	OR13F1	9	107266678	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08		107266678	33946753	75	37802										
OBP2B	29989	broad.mit.edu	37	chr9	136081733	136081733	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggcgtgaaaatgtcctcctcCgagagtcccttgcgctgcac	11	14	0	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr9:136081733C>T	uc004ccz.2	-	5	501	c.459G>A	c.(457-459)TCG>TCA	p.S153S	OBP2B_uc010nad.2_RNA|OBP2B_uc011mcy.1_Silent_p.S85S	NM_014581	NP_055396	Q9NPH6	OBP2B_HUMAN	odorant binding protein 2B precursor	153					chemosensory behavior|sensory perception of smell	extracellular region	odorant binding|transporter activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.41e-06)|Epithelial(140;1.88e-05)		TGTCCTCCTCCGAGAGTCCCT	0.582													7	90	---	---	---	---	PASS	T	136081733	T	T	136081733	2	4	101	1	0	0	0	0	0	0	0	1	10811	639	23	1		1	OBP2B	9	136081733	Silent	SNP	C	TCGA-43-6647-01A-11D-1817-08	28815055	136081733	5131698	76	37803										
NDOR1	27158	broad.mit.edu	37	chr9	140110455	140110455	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtctgaccctcatccctgccTtctcccgggaacaggtgtgt	10	15	3	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr9:140110455T>C	uc004clw.2	+	12	1651	c.1540T>C	c.(1540-1542)TTC>CTC	p.F514L	NDOR1_uc004clx.2_Missense_Mutation_p.F514L|NDOR1_uc011mes.1_Missense_Mutation_p.F507L|NDOR1_uc004cly.2_Missense_Mutation_p.F480L	NM_014434	NP_055249	Q9UHB4	NDOR1_HUMAN	NADPH dependent diflavin oxidoreductase 1	514					cell death	cytosol|intermediate filament cytoskeleton|nucleus|perinuclear region of cytoplasm	flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding|oxidoreductase activity|protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		CATCCCTGCCTTCTCCCGGGA	0.617													7	131	---	---	---	---	PASS	C	140110455	C	C	140110455	3	2	101	1	0	0	0	0	1	0	0	0	10249	1609	56	5	1586	5	NDOR1	9	140110455	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	4028722	140110455	1102976	77	37804										
CALML5	51806	broad.mit.edu	37	chr10	5541037	5541037	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccacgtcggcctcgcggatcAtggcgtccagctcctcctgc	11	18	1	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr10:5541037A>G	uc001iic.2	-	1	497	c.365T>C	c.(364-366)ATG>ACG	p.M122T		NM_017422	NP_059118	Q9NZT1	CALL5_HUMAN	calmodulin-like 5	122	EF-hand 4.				epidermis development|signal transduction		calcium ion binding|protein binding				0						CTCGCGGATCATGGCGTCCAG	0.711													7	18	---	---	---	---	PASS	G	5541037	G	G	5541037	3	3	101	1	0	0	0	0	1	0	0	0	2589	217	8	5	79	5	CALML5	10	5541037	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08		5541037	129993710	78	37805										
KIF5B	3799	broad.mit.edu	37	chr10	32320185	32320185	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cagcttgcatattgtcttgaTcccttctggtagatgccaaa	8	10	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr10:32320185T>C	uc001iwe.3	-	14	1867	c.1397A>G	c.(1396-1398)GAT>GGT	p.D466G		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	466					stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				ATTGTCTTGATCCCTTCTGGT	0.383													3	37	---	---	---	---	PASS	C	32320185	C	C	32320185	3	2	101	1	0	0	0	0	1	0	0	0	8306	1435	50	5	1542	5	KIF5B	10	32320185	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	26779148	32320185	103214562	79	37806										
PCDH15	65217	broad.mit.edu	37	chr10	55626456	55626456	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tagtcgtcagttgcaataacTtgaaacttgaagtaggatct	9	6	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr10:55626456T>C	uc001jju.1	-	27	4058	c.3663A>G	c.(3661-3663)CAA>CAG	p.Q1221Q	PCDH15_uc010qhq.1_Silent_p.Q1226Q|PCDH15_uc010qhr.1_Silent_p.Q1221Q|PCDH15_uc010qhs.1_Silent_p.Q1233Q|PCDH15_uc010qht.1_Silent_p.Q1228Q|PCDH15_uc010qhu.1_Silent_p.Q1221Q|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.Q1221Q|PCDH15_uc010qhw.1_Silent_p.Q1184Q|PCDH15_uc010qhx.1_Silent_p.Q1150Q|PCDH15_uc010qhy.1_Silent_p.Q1226Q|PCDH15_uc010qhz.1_Silent_p.Q1221Q|PCDH15_uc010qia.1_Silent_p.Q1199Q|PCDH15_uc010qib.1_Silent_p.Q1199Q	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1221	Cadherin 11.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TTGCAATAACTTGAAACTTGA	0.408										HNSCC(58;0.16)			3	66	---	---	---	---	PASS	C	55626456	C	C	55626456	2	2	101	1	0	0	0	0	0	0	0	1	11511	1606	56	5		5	PCDH15	10	55626456	Silent	SNP	T	TCGA-43-6647-01A-11D-1817-08	23306271	55626456	79908291	80	37807										
C10orf35	219738	broad.mit.edu	37	chr10	71392747	71392747	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tgctcctcttcctgctcatgAtgcttggtgttcgtggcctc	10	13	2	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr10:71392747A>G	uc001jpq.3	+	4	468	c.298A>G	c.(298-300)ATG>GTG	p.M100V		NM_145306	NP_660349	Q96D05	CJ035_HUMAN	hypothetical protein LOC219738	100	Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2						CCTGCTCATGATGCTTGGTGT	0.592													15	124	---	---	---	---	PASS	G	71392747	G	G	71392747	3	3	101	1	0	0	0	0	1	0	0	0	1603	333	12	5	304	5	C10orf35	10	71392747	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	15766291	71392747	64142000	81	37808										
HTR7	3363	broad.mit.edu	37	chr10	92508999	92508999	+	Nonsense_Mutation	SNP	C	A	A													0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtttgcacactcttccacctCcttctggagcttcactatgc							TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr10:92508999C>A	uc001kha.2	-	2	1135	c.892G>T	c.(892-894)GAG>TAG	p.E298*	HTR7_uc001kgz.2_Nonsense_Mutation_p.E298*|HTR7_uc001khb.2_Nonsense_Mutation_p.E298*	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	298	Cytoplasmic (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	TCTTCCACCTCCTTCTGGAGC	0.527													7	52	---	---	---	---	PASS	A	92508999	A	A	92508999	4	1	101	1	0	0	0	0	0	1	0	0	7452	864	30	2	563	2	HTR7	10	92508999	Nonsense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	21116252	92508999	43025748	82	37809	703	2								
HTR7	3363	broad.mit.edu	37	chr10	92509000	92509000	+	Missense_Mutation	SNP	C	A	A													0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tttgcacactcttccacctcCttctggagcttcactatgcc							TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr10:92509000C>A	uc001kha.2	-	2	1134	c.891G>T	c.(889-891)AAG>AAT	p.K297N	HTR7_uc001kgz.2_Missense_Mutation_p.K297N|HTR7_uc001khb.2_Missense_Mutation_p.K297N	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	297	Cytoplasmic (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	CTTCCACCTCCTTCTGGAGCT	0.527													7	51	---	---	---	---	PASS	A	92509000	A	A	92509000	3	1	101	1	0	0	0	0	1	0	0	0	7452	680	24	3	564	3	HTR7	10	92509000	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	1	92509000	43025747	83	37810	703	2								
TNKS2	80351	broad.mit.edu	37	chr10	93600414	93600414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggtataacagagtgtccgtgGtggaatatctgctacagcat	12	7	1	1	rs143595087		TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr10:93600414G>T	uc001khp.2	+	14	1921	c.1624G>T	c.(1624-1626)GTG>TTG	p.V542L		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	542	ANK 10.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				AGTGTCCGTGGTGGAATATCT	0.433													21	101	---	---	---	---	PASS	T	93600414	T	T	93600414	3	4	101	1	0	0	0	0	1	0	0	0	16318	1261	44	3	1678	3	TNKS2	10	93600414	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	1091414	93600414	41934333	84	37811										
TDRD1	56165	broad.mit.edu	37	chr10	115961240	115961240	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtcaaagaagagactggtctGcacacagcatcgtgtgcagg	13	9	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr10:115961240G>T	uc001lbg.1	+	5	754	c.601G>T	c.(601-603)GCA>TCA	p.A201S	TDRD1_uc001lbf.2_Missense_Mutation_p.A192S|TDRD1_uc001lbh.1_Missense_Mutation_p.A192S|TDRD1_uc001lbi.1_Missense_Mutation_p.A192S|TDRD1_uc010qsc.1_5'Flank|TDRD1_uc001lbj.2_5'Flank	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	201	MYND-type.				DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		AGACTGGTCTGCACACAGCAT	0.428													12	116	---	---	---	---	PASS	T	115961240	T	T	115961240	3	4	101	1	0	0	0	0	1	0	0	0	15727	1319	46	3	615	3	TDRD1	10	115961240	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	22360826	115961240	19573507	85	37812										
DMBT1	1755	broad.mit.edu	37	chr10	124396774	124396774	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gagtgtcggccccagataacGccgaacctggtgatattcac	11	12	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr10:124396774G>C	uc001lgk.1	+	51	6607	c.6501G>C	c.(6499-6501)ACG>ACC	p.T2167T	DMBT1_uc001lgl.1_Silent_p.T2157T|DMBT1_uc001lgm.1_Silent_p.T1539T|DMBT1_uc009xzz.1_Silent_p.T2166T|DMBT1_uc010qtx.1_Silent_p.T887T|DMBT1_uc009yab.1_Silent_p.T870T|DMBT1_uc009yac.1_Silent_p.T461T	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	2167	ZP.				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)				CCCAGATAACGCCGAACCTGG	0.527													8	47	---	---	---	---	PASS	C	124396774	C	C	124396774	2	2	101	1	0	0	0	0	0	0	0	1	4577	1074	38	4		4	DMBT1	10	124396774	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	8435534	124396774	11137973	86	37813										
GPR123	84435	broad.mit.edu	37	chr10	134910554	134910554	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggtgtacgcgtgcacggccgTcatgctgctctgcctcctgg	14	14	2	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr10:134910554T>A	uc001llx.3	+	3	516	c.80T>A	c.(79-81)GTC>GAC	p.V27D	GPR123_uc001llw.2_Missense_Mutation_p.V747D	NM_001083909	NP_001077378	Q86SQ6	GP123_HUMAN	G protein-coupled receptor 123	27	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		TGCACGGCCGTCATGCTGCTC	0.622													8	56	---	---	---	---	PASS	A	134910554	A	A	134910554	3	1	101	1	0	0	0	0	1	0	0	0	6637	1667	58	5	86	5	GPR123	10	134910554	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	10513780	134910554	624193	87	37814										
ADAM8	101	broad.mit.edu	37	chr10	135086034	135086034	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tgacgtggaacctgtcctgaCtattccaaatctccaggccc	8	14	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr10:135086034C>G	uc010qva.1	-	8	695	c.644G>C	c.(643-645)AGT>ACT	p.S215T	ADAM8_uc010quz.1_Missense_Mutation_p.S254T|ADAM8_uc009ybi.2_Missense_Mutation_p.S254T|ADAM8_uc010qvb.1_Missense_Mutation_p.S229T|ADAM8_uc009ybj.1_RNA			P78325	ADAM8_HUMAN	SubName: Full=cDNA FLJ50704, highly similar to ADAM 8 (EC 3.4.24.-) (A disintegrinand metalloproteinase domain 8);	215					integrin-mediated signaling pathway|proteolysis		metalloendopeptidase activity			large_intestine(2)|central_nervous_system(1)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;7.72e-06)|OV - Ovarian serous cystadenocarcinoma(35;8.23e-06)|Epithelial(32;1.02e-05)		CCTGTCCTGACTATTCCAAAT	0.607													6	69	---	---	---	---	PASS	G	135086034	G	G	135086034	3	3	101	1	0	0	0	0	1	0	0	0	252	565	20	4	1691	4	ADAM8	10	135086034	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	175480	135086034	448713	88	37815										
OSBPL5	114879	broad.mit.edu	37	chr11	3114761	3114761	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cgctgacaggcctcacctctCggactccagctccgtctgct	9	18	3	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:3114761C>A	uc001lxk.2	-	17	2100	c.1942G>T	c.(1942-1944)GAG>TAG	p.E648*	OSBPL5_uc010qxq.1_Nonsense_Mutation_p.E559*|OSBPL5_uc009ydw.2_Nonsense_Mutation_p.E580*|OSBPL5_uc001lxl.2_Nonsense_Mutation_p.E580*|OSBPL5_uc009ydx.2_Nonsense_Mutation_p.E672*|OSBPL5_uc001lxj.2_Nonsense_Mutation_p.E102*	NM_020896	NP_065947	Q9H0X9	OSBL5_HUMAN	oxysterol-binding protein-like protein 5 isoform	648					cholesterol metabolic process|cholesterol transport|Golgi to plasma membrane transport	cytosol	oxysterol binding|protein binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		CCTCACCTCTCGGACTCCAGC	0.667													15	93	---	---	---	---	PASS	A	3114761	A	A	3114761	4	1	101	1	0	0	0	0	0	1	0	0	11280	893	31	2	721	2	OSBPL5	11	3114761	Nonsense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08		3114761	131891755	89	37816										
OR51F1	256892	broad.mit.edu	37	chr11	4790235	4790235	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tgtaagcagcagactgagcaTagccttgcggatttgttttg	12	7	0	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:4790235T>C	uc010qyl.1	-	1	913	c.913A>G	c.(913-915)ATG>GTG	p.M305V		NM_001004752	NP_001004752	A6NLW9	A6NLW9_HUMAN	olfactory receptor, family 51, subfamily F,	305						integral to membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.87e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0045)|LUSC - Lung squamous cell carcinoma(625;0.192)		AGACTGAGCATAGCCTTGCGG	0.418													10	66	---	---	---	---	PASS	C	4790235	C	C	4790235	3	2	101	1	0	0	0	0	1	0	0	0	11096	1406	49	5	28	5	OR51F1	11	4790235	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	1675474	4790235	130216281	90	37817										
OR51T1	401665	broad.mit.edu	37	chr11	4903293	4903293	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tcttgtcatcattactaagcGgagactccacaaacccatgt	6	12	3	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:4903293G>A	uc010qyp.1	+	1	245	c.245G>A	c.(244-246)CGG>CAG	p.R82Q		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATTACTAAGCGGAGACTCCAC	0.473													11	136	---	---	---	---	PASS	A	4903293	A	A	4903293	3	1	101	1	0	0	0	0	1	0	0	0	11106	1116	39	1	247	1	OR51T1	11	4903293	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	113058	4903293	130103223	91	37818										
OR52E2	119678	broad.mit.edu	37	chr11	5080470	5080470	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggcgctatattggagtggatTgcagatggccacatagctgt	14	7	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:5080470T>C	uc010qyw.1	-	1	388	c.388A>G	c.(388-390)AAT>GAT	p.N130D		NM_001005164	NP_001005164	Q8NGJ4	O52E2_HUMAN	olfactory receptor, family 52, subfamily E,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.03e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.191)		TGGAGTGGATTGCAGATGGCC	0.453													5	38	---	---	---	---	PASS	C	5080470	C	C	5080470	3	2	101	1	0	0	0	0	1	0	0	0	11115	1812	63	5	592	5	OR52E2	11	5080470	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	177177	5080470	129926046	92	37819										
NUCB2	4925	broad.mit.edu	37	chr11	17332477	17332477	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aatatttaaaaacattgaatGaagaaaagagaaaagaagaa	7	1	0	6			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:17332477G>A	uc001mmw.2	+	7	834	c.589G>A	c.(589-591)GAA>AAA	p.E197K	NUCB2_uc001mms.1_Missense_Mutation_p.E198K|NUCB2_uc001mmt.1_Missense_Mutation_p.E197K|NUCB2_uc001mmv.1_Missense_Mutation_p.E197K|NUCB2_uc009ygz.2_Missense_Mutation_p.E197K	NM_005013	NP_005004	P80303	NUCB2_HUMAN	nucleobindin 2 precursor	197	By similarity.					cytosol|ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|plasma membrane	calcium ion binding|DNA binding				0						AACATTGAATGAAGAAAAGAG	0.303													18	139	---	---	---	---	PASS	A	17332477	A	A	17332477	3	1	101	1	0	0	0	0	1	0	0	0	10719	1291	45	2	607	2	NUCB2	11	17332477	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	12252007	17332477	117674039	93	37820										
UEVLD	55293	broad.mit.edu	37	chr11	18566213	18566213	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ataacccatacttctttgccTgaagtctgtgccttcaaaac	5	12	3	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:18566213T>A	uc001mot.2	-	9	1097	c.1017A>T	c.(1015-1017)TCA>TCT	p.S339S	UEVLD_uc001mou.2_Silent_p.S339S|UEVLD_uc010rde.1_Silent_p.S209S|UEVLD_uc010rdf.1_Silent_p.S317S|UEVLD_uc010rdg.1_Silent_p.S209S|UEVLD_uc001mov.2_Silent_p.S317S	NM_001040697	NP_001035787	Q8IX04	UEVLD_HUMAN	ubiquitin-conjugating enzyme E2-like isoform a	339					cellular carbohydrate metabolic process|protein modification process|protein transport		binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor				0						CTTCTTTGCCTGAAGTCTGTG	0.303													16	132	---	---	---	---	PASS	A	18566213	A	A	18566213	2	1	101	1	0	0	0	0	0	0	0	1	16930	1567	55	5		5	UEVLD	11	18566213	Silent	SNP	T	TCGA-43-6647-01A-11D-1817-08	1233736	18566213	116440303	94	37821										
WT1	7490	broad.mit.edu	37	chr11	32439176	32439176	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	caggtcatgcattcaagctgGgatgtcatttggtataaatt	10	6	3	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:32439176G>T	uc001mtn.1	-	4	1093	c.897C>A	c.(895-897)TCC>TCA	p.S299S	WT1_uc001mtl.1_Silent_p.S87S|WT1_uc001mtm.1_Silent_p.S87S|WT1_uc001mto.1_Silent_p.S299S|WT1_uc001mtp.1_Silent_p.S299S|WT1_uc001mtq.1_Silent_p.S299S|WT1_uc009yjs.1_RNA	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D	231					adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding	p.D299Y(1)|p.D299fs*20(1)	EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			ATTCAAGCTGGGATGTCATTT	0.373			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				10	56	---	---	---	---	PASS	T	32439176	T	T	32439176	2	4	101	1	0	0	0	0	0	0	0	1	17405	1219	43	3		3	WT1	11	32439176	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	13872963	32439176	102567340	95	37822										
OR5M11	219487	broad.mit.edu	37	chr11	56310501	56310501	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tattagtcgacatctgcgggGttgcatttgatgtatagcac	11	7	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:56310501G>T	uc010rjl.1	-	1	233	c.233C>A	c.(232-234)ACC>AAC	p.T78N		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	78	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CATCTGCGGGGTTGCATTTGA	0.423													17	112	---	---	---	---	PASS	T	56310501	T	T	56310501	3	4	101	1	0	0	0	0	1	0	0	0	11174	1261	44	3	687	3	OR5M11	11	56310501	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	23871325	56310501	78696015	96	37823										
FTH1	2495	broad.mit.edu	37	chr11	61732988	61732988	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tcgcggtcaaagtagtaagaCtgaaaggggaacactgaatg	13	6	1	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:61732988C>G	uc001nsu.2	-	2	350	c.115_splice	c.e2-1	p.S39_splice		NM_002032	NP_002023	P02794	FRIH_HUMAN	ferritin, heavy polypeptide 1						cell proliferation|cellular membrane organization|immune response|intracellular sequestering of iron ion|iron ion transport|negative regulation of cell proliferation|post-Golgi vesicle-mediated transport	cytosol|intracellular ferritin complex	ferric iron binding|ferroxidase activity|protein binding			ovary(1)	1					Iron Dextran(DB00893)	AGTAGTAAGACTGAAAGGGGA	0.473													15	120	---	---	---	---	PASS	G	61732988	G	G	61732988	5	3	101	1	0	0	0	0	0	0	1	0	6082	579	20	4	449	4	FTH1	11	61732988	Splice_Site	SNP	C	TCGA-43-6647-01A-11D-1817-08	5422487	61732988	73273528	97	37824										
ATL3	25923	broad.mit.edu	37	chr11	63426637	63426637	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gcaagaggatgctggccaagGctttctcatctagctcaaag	11	10	3	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:63426637G>A	uc001nxk.1	-	2	410	c.134C>T	c.(133-135)GCC>GTC	p.A45V	ATL3_uc010rms.1_Missense_Mutation_p.A27V|ATL3_uc001nxl.1_Missense_Mutation_p.A97V	NM_015459	NP_056274	Q6DD88	ATLA3_HUMAN	atlastin 3	45	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			pancreas(1)	1						GCTGGCCAAGGCTTTCTCATC	0.498													9	96	---	---	---	---	PASS	A	63426637	A	A	63426637	3	1	101	1	0	0	0	0	1	0	0	0	1108	1203	42	3	1539	3	ATL3	11	63426637	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	1693649	63426637	71579879	98	37825										
RCOR2	283248	broad.mit.edu	37	chr11	63681598	63681598	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gagacacctggacctcctttTtcccagggcctgggcgtgca	12	14	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:63681598T>C	uc001nyc.2	-	8	1107	c.719A>G	c.(718-720)AAA>AGA	p.K240R		NM_173587	NP_775858	Q8IZ40	RCOR2_HUMAN	REST corepressor 2	240					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)|skin(1)	2						GACCTCCTTTTTCCCAGGGCC	0.637													20	99	---	---	---	---	PASS	C	63681598	C	C	63681598	3	2	101	1	0	0	0	0	1	0	0	0	13183	1841	64	5	872	5	RCOR2	11	63681598	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	254961	63681598	71324918	99	37826										
TRIM49	57093	broad.mit.edu	37	chr11	89531714	89531714	+	Missense_Mutation	SNP	G	T	T													0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gaaatagggtacatcttgatGgtcacatccaatacacatgc							TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:89531714G>T	uc001pdb.2	-	8	1272	c.943C>A	c.(943-945)CAT>AAT	p.H315N		NM_020358	NP_065091	P0CI25	TRI49_HUMAN	ring finger protein 18	315	B30.2/SPRY.					intracellular	zinc ion binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				ACATCTTGATGGTCACATCCA	0.388													5	37	---	---	---	---	PASS	T	89531714	T	T	89531714	3	4	101	1	0	0	0	0	1	0	0	0	16521	1348	47	3	419	3	TRIM49	11	89531714	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	25850116	89531714	45474802	100	37827	704	2								
TRIM49	57093	broad.mit.edu	37	chr11	89531715	89531715	+	Missense_Mutation	SNP	G	T	T													0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aaatagggtacatcttgatgGtcacatccaatacacatgct							TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:89531715G>T	uc001pdb.2	-	8	1271	c.942C>A	c.(940-942)GAC>GAA	p.D314E		NM_020358	NP_065091	P0CI25	TRI49_HUMAN	ring finger protein 18	314	B30.2/SPRY.					intracellular	zinc ion binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				CATCTTGATGGTCACATCCAA	0.383													5	36	---	---	---	---	PASS	T	89531715	T	T	89531715	3	4	101	1	0	0	0	0	1	0	0	0	16521	1252	44	3	420	3	TRIM49	11	89531715	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	1	89531715	45474801	101	37828	704	2								
MMP1	4312	broad.mit.edu	37	chr11	102667499	102667499	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gatttcctccaggtccatcaAaaggagagttgtcccgatga	10	10	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:102667499A>G	uc001phi.2	-	4	664	c.521T>C	c.(520-522)TTT>TCT	p.F174S	uc001phh.1_Intron|MMP1_uc010ruv.1_Missense_Mutation_p.F108S	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	174	Metalloprotease.				blood coagulation|collagen catabolic process|interspecies interaction between organisms|leukocyte migration|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)|lung(1)	4	all_epithelial(12;0.0127)	all_neural(303;0.000318)|all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.072)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.233)	OV - Ovarian serous cystadenocarcinoma(223;1.82e-07)|Epithelial(105;1.51e-06)|BRCA - Breast invasive adenocarcinoma(274;0.014)		AGGTCCATCAAAAGGAGAGTT	0.423													6	57	---	---	---	---	PASS	G	102667499	G	G	102667499	3	3	101	1	0	0	0	0	1	0	0	0	9648	14	1	5	916	5	MMP1	11	102667499	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	13135784	102667499	32339017	102	37829										
OR6M1	390261	broad.mit.edu	37	chr11	123676137	123676137	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	caagttttcctttgtatcaaGgtcatgattctgttcactgt	7	8	4	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:123676137G>T	uc010rzz.1	-	1	921	c.921C>A	c.(919-921)ACC>ACA	p.T307T		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	307	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		TTTGTATCAAGGTCATGATTC	0.308													15	110	---	---	---	---	PASS	T	123676137	T	T	123676137	2	4	101	1	0	0	0	0	0	0	0	1	11205	987	35	3		3	OR6M1	11	123676137	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	21008638	123676137	11330379	103	37830										
OR10G8	219869	broad.mit.edu	37	chr11	123900741	123900741	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	acaccagcatgatgactgggCgctcgtgtactcttctggcc	11	13	2	2	rs149526223		TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr11:123900741C>T	uc001pzp.1	+	1	412	c.412C>T	c.(412-414)CGC>TGC	p.R138C		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		GATGACTGGGCGCTCGTGTAC	0.562													21	135	---	---	---	---	PASS	T	123900741	T	T	123900741	3	4	101	1	0	0	0	0	1	0	0	0	10903	768	27	1	414	1	OR10G8	11	123900741	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	224604	123900741	11105775	104	37831										
LRTM2	654429	broad.mit.edu	37	chr12	1943683	1943683	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cagaggcaccggccggcgagCgtgaggcgagccatgggcac	18	13	0	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr12:1943683C>T	uc001qjt.2	+	5	1715	c.909C>T	c.(907-909)AGC>AGT	p.S303S	CACNA2D4_uc001qjp.2_Intron|CACNA2D4_uc009zds.1_Intron|CACNA2D4_uc009zdt.1_Intron|CACNA2D4_uc009zdr.1_Intron|LRTM2_uc001qju.2_Silent_p.S303S|LRTM2_uc010sdx.1_Silent_p.S303S|LRTM2_uc001qjv.2_Silent_p.S65S	NM_001039029	NP_001034118	Q8N967	LRTM2_HUMAN	leucine-rich repeats and transmembrane domains 2	303	Extracellular (Potential).					integral to membrane				large_intestine(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000834)			GGCCGGCGAGCGTGAGGCGAG	0.677													12	57	---	---	---	---	PASS	T	1943683	T	T	1943683	2	4	101	1	0	0	0	0	0	0	0	1	9045	767	27	1		1	LRTM2	12	1943683	Silent	SNP	C	TCGA-43-6647-01A-11D-1817-08		1943683	131908212	105	37832										
CLECL1	160365	broad.mit.edu	37	chr12	9885651	9885651	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cagatcaaaaagagagagaaGaccacaaatgatgtcccact	8	9	1	5			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr12:9885651G>A	uc001qwj.2	-	1	210	c.210C>T	c.(208-210)GTC>GTT	p.V70V		NM_172004	NP_742001	Q8IZS7	CLCL1_HUMAN	type II transmembrane protein DCAL1	70	Helical; Signal-anchor for type II membrane protein; (Potential).					integral to membrane|plasma membrane	sugar binding				0						AGAGAGAGAAGACCACAAATG	0.438													17	84	---	---	---	---	PASS	A	9885651	A	A	9885651	2	1	101	1	0	0	0	0	0	0	0	1	3523	929	33	2		2	CLECL1	12	9885651	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	7941968	9885651	123966244	106	37833										
STYK1	55359	broad.mit.edu	37	chr12	10780269	10780269	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aaggacctgctttccgatgtGatatacttgtttttctgtga	9	7	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr12:10780269G>C	uc001qys.2	-	7	1209	c.688C>G	c.(688-690)CAC>GAC	p.H230D		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	230	Protein kinase.					integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						TTTCCGATGTGATATACTTGT	0.403										HNSCC(73;0.22)			6	78	---	---	---	---	PASS	C	10780269	C	C	10780269	3	2	101	1	0	0	0	0	1	0	0	0	15358	1290	45	2	600	2	STYK1	12	10780269	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	894618	10780269	123071626	107	37834										
PDE3A	5139	broad.mit.edu	37	chr12	20769197	20769197	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtttgcctcctggcttgttgAgacgagtttcttccacttgg	11	10	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr12:20769197A>C	uc001reh.1	+	4	1325	c.1303A>C	c.(1303-1305)AGA>CGA	p.R435R		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	435					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	TGGCTTGTTGAGACGAGTTTC	0.468													5	132	---	---	---	---	PASS	C	20769197	C	C	20769197	2	2	101	1	0	0	0	0	0	0	0	1	11637	296	11	5		5	PDE3A	12	20769197	Silent	SNP	A	TCGA-43-6647-01A-11D-1817-08	9988928	20769197	113082698	108	37835										
ADAMTS20	80070	broad.mit.edu	37	chr12	43925895	43925895	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	agttatttaagtcttgtctgTatataagatgtggcttgttg	10	3	2	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr12:43925895T>C	uc010skx.1	-	3	557	c.557A>G	c.(556-558)TAC>TGC	p.Y186C		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	186						proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		GTCTTGTCTGTATATAAGATG	0.353													6	67	---	---	---	---	PASS	C	43925895	C	C	43925895	3	2	101	1	0	0	0	0	1	0	0	0	266	1638	57	5	5322	5	ADAMTS20	12	43925895	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	23156698	43925895	89926000	109	37836										
PLEKHA9	51054	broad.mit.edu	37	chr12	45567091	45567091	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	caccttcctttacggttaacGcggccacaaaatcttcatag	6	13	2	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr12:45567091G>A	uc001rom.1	-	3	1595	c.1058C>T	c.(1057-1059)GCG>GTG	p.A353V	PLEKHA9_uc009zke.2_Missense_Mutation_p.A353V	NM_015899	NP_056983			pleckstrin homology domain containing, family A												0	Lung SC(27;0.192)|Renal(347;0.236)			GBM - Glioblastoma multiforme(48;0.173)		TACGGTTAACGCGGCCACAAA	0.502													5	86	---	---	---	---	PASS	A	45567091	A	A	45567091	3	1	101	1	0	0	0	0	1	0	0	0	12063	1087	38	1	121	1	PLEKHA9	12	45567091	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	1641196	45567091	88284804	110	37837										
USP15	9958	broad.mit.edu	37	chr12	62786902	62786902	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttatggtccctgcctccagtActtgtagtacatctcaagcg	8	12	1	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr12:62786902A>T	uc001src.1	+	19	2499	c.2490A>T	c.(2488-2490)GTA>GTT	p.V830V	USP15_uc001srb.1_Silent_p.V801V	NM_006313	NP_006304	Q9Y4E8	UBP15_HUMAN	ubiquitin specific peptidase 15	830					protein deubiquitination|ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)	3			GBM - Glioblastoma multiforme(1;0.000276)	GBM - Glioblastoma multiforme(28;0.0622)		TGCCTCCAGTACTTGTAGTAC	0.353													13	84	---	---	---	---	PASS	T	62786902	T	T	62786902	2	4	101	1	0	0	0	0	0	0	0	1	17043	378	14	5		5	USP15	12	62786902	Silent	SNP	A	TCGA-43-6647-01A-11D-1817-08	17219811	62786902	71064993	111	37838										
NAV3	89795	broad.mit.edu	37	chr12	78400700	78400700	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aaatctcagcaataaaaagtCtttgctacagccaaaggaaa	6	8	2	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr12:78400700C>T	uc001syp.2	+	8	1555	c.1382C>T	c.(1381-1383)TCT>TTT	p.S461F	NAV3_uc001syo.2_Missense_Mutation_p.S461F	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	461						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AATAAAAAGTCTTTGCTACAG	0.413										HNSCC(70;0.22)			7	87	---	---	---	---	PASS	T	78400700	T	T	78400700	3	4	101	1	0	0	0	0	1	0	0	0	10185	913	32	2	1412	2	NAV3	12	78400700	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	15613798	78400700	55451195	112	37839										
TPCN1	53373	broad.mit.edu	37	chr12	113706674	113706674	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tcggtattgcggtggcgtccGgcggtaaggcccgggtgggg	21	9	0	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr12:113706674G>A	uc001tuw.2	+	6	953	c.656G>A	c.(655-657)CGG>CAG	p.R219Q	TPCN1_uc001tux.2_Missense_Mutation_p.R291Q|TPCN1_uc010syt.1_Missense_Mutation_p.R151Q	NM_017901	NP_060371	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1 isoform 2	219	Helical; Name=S4 of repeat I; (Potential).					endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated ion channel activity			skin(2)|ovary(1)	3						GGTGGCGTCCGGCGGTAAGGC	0.627													9	59	---	---	---	---	PASS	A	113706674	A	A	113706674	3	1	101	1	0	0	0	0	1	0	0	0	16392	1116	39	1	894	1	TPCN1	12	113706674	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	35305974	113706674	20145221	113	37840										
FZD10	11211	broad.mit.edu	37	chr12	130648774	130648774	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	atccggagggtgatgaagacGggcggcgagaacacggacaa	17	8	0	4			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr12:130648774G>A	uc001uii.2	+	1	1743	c.1287G>A	c.(1285-1287)ACG>ACA	p.T429T	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	429	Cytoplasmic (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		TGATGAAGACGGGCGGCGAGA	0.612													6	61	---	---	---	---	PASS	A	130648774	A	A	130648774	2	1	101	1	0	0	0	0	0	0	0	1	6129	1103	39	1		1	FZD10	12	130648774	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	16942100	130648774	3203121	114	37841										
POLE	5426	broad.mit.edu	37	chr12	133201572	133201572	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tccttcaccccgcggcacttCaggcagacctgaaagggagc	11	15	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr12:133201572C>G	uc001uks.1	-	48	6710	c.6666G>C	c.(6664-6666)CTG>CTC	p.L2222L	POLE_uc001ukq.1_Silent_p.L432L|POLE_uc001ukr.1_Silent_p.L1026L|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	2222	C4-type (Potential).				base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CGCGGCACTTCAGGCAGACCT	0.657								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					4	42	---	---	---	---	PASS	G	133201572	G	G	133201572	2	3	101	1	0	0	0	0	0	0	0	1	12196	813	29	2		2	POLE	12	133201572	Silent	SNP	C	TCGA-43-6647-01A-11D-1817-08	2552798	133201572	650323	115	37842										
RNF17	56163	broad.mit.edu	37	chr13	25442751	25442751	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gttttaggaattgctttcggCtgaaacagacactcctcttt	8	9	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr13:25442751C>G	uc001upr.2	+	31	4216	c.4175C>G	c.(4174-4176)GCT>GGT	p.A1392G	RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.A1388G|RNF17_uc001ups.2_Missense_Mutation_p.A1331G|RNF17_uc010aac.2_Missense_Mutation_p.A584G|RNF17_uc010aad.2_Missense_Mutation_p.A402G	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	1392					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		TTGCTTTCGGCTGAAACAGAC	0.363													13	104	---	---	---	---	PASS	G	25442751	G	G	25442751	3	3	101	1	0	0	0	0	1	0	0	0	13461	797	28	4	4297	4	RNF17	13	25442751	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08		25442751	89727127	116	37843										
FAM123A	219287	broad.mit.edu	37	chr13	25745075	25745075	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccaggctggcggtgagcgagCcgggtaggatcaagccgccc	17	13	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr13:25745075C>A	uc001uqb.2	-	1	783	c.683G>T	c.(682-684)GGC>GTC	p.G228V	FAM123A_uc001uqa.2_Missense_Mutation_p.G228V|FAM123A_uc001uqc.2_Missense_Mutation_p.G228V	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	228										ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		GGTGAGCGAGCCGGGTAGGAT	0.597													3	8	---	---	---	---	PASS	A	25745075	A	A	25745075	3	1	101	1	0	0	0	0	1	0	0	0	5422	739	26	3	1336	3	FAM123A	13	25745075	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	302324	25745075	89424803	117	37844										
ZIC5	85416	broad.mit.edu	37	chr13	100617671	100617671	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cttcagggttcccgtaaattTcctcatcttcagtctcagag	7	12	5	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr13:100617671T>C	uc001vom.1	-	2	2201	c.1952A>G	c.(1951-1953)GAA>GGA	p.E651G		NM_033132	NP_149123	Q96T25	ZIC5_HUMAN	zinc finger protein of the cerebellum 5	651					cell differentiation	nucleus	DNA binding|zinc ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CCCGTAAATTTCCTCATCTTC	0.468													18	119	---	---	---	---	PASS	C	100617671	C	C	100617671	3	2	101	1	0	0	0	0	1	0	0	0	17679	1783	62	5	43	5	ZIC5	13	100617671	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	74872596	100617671	14552207	118	37845										
OR4K2	390431	broad.mit.edu	37	chr14	20345270	20345270	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ataccatctttactcccactCtgaacccaataatctatact	1	14	3	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr14:20345270C>A	uc001vwh.1	+	1	844	c.844C>A	c.(844-846)CTG>ATG	p.L282M		NM_001005501	NP_001005501	Q8NGD2	OR4K2_HUMAN	olfactory receptor, family 4, subfamily K,	282	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TACTCCCACTCTGAACCCAAT	0.373													5	166	---	---	---	---	PASS	A	20345270	A	A	20345270	3	1	101	1	0	0	0	0	1	0	0	0	11072	912	32	2	846	2	OR4K2	14	20345270	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08		20345270	87004270	119	37846										
RNASE11	122651	broad.mit.edu	37	chr14	21052471	21052471	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	atttttaactaacaggatcgGgttcattaatatctcaatgg	7	6	2	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr14:21052471G>A	uc010ahv.2	-	2	348	c.163C>T	c.(163-165)CCG>TCG	p.P55S	RNASE11_uc010ahx.2_Missense_Mutation_p.P55S|RNASE11_uc010ahw.2_Missense_Mutation_p.P55S|RNASE11_uc001vxs.2_Missense_Mutation_p.P55S	NM_145250	NP_660293	Q8TAA1	RNS11_HUMAN	ribonuclease, RNase A family, 11 (non-active)	55						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			ovary(3)	3	all_cancers(95;0.00238)	all_lung(585;0.235)	Epithelial(56;1.85e-06)|all cancers(55;1.46e-05)	GBM - Glioblastoma multiforme(265;0.0139)		AACAGGATCGGGTTCATTAAT	0.368													27	243	---	---	---	---	PASS	A	21052471	A	A	21052471	3	1	101	1	0	0	0	0	1	0	0	0	13401	1232	43	3	440	3	RNASE11	14	21052471	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	707201	21052471	86297069	120	37847										
AKAP6	9472	broad.mit.edu	37	chr14	33291766	33291766	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	atttatttggattgggcatcTttaaaaatggcagtgacagc	10	5	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr14:33291766T>C	uc001wrq.2	+	13	4917	c.4747T>C	c.(4747-4749)TTT>CTT	p.F1583L		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1583	Ser-rich.				protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		ATTGGGCATCTTTAAAAATGG	0.428													21	127	---	---	---	---	PASS	C	33291766	C	C	33291766	3	2	101	1	0	0	0	0	1	0	0	0	455	1609	56	5	4793	5	AKAP6	14	33291766	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	12239295	33291766	74057774	121	37848										
DACT1	51339	broad.mit.edu	37	chr14	59113810	59113810	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aacctcaagaagaagatcctCcgctttcggtctggctcttt	8	12	3	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr14:59113810C>G	uc001xdw.2	+	4	2633	c.2469C>G	c.(2467-2469)CTC>CTG	p.L823L	DACT1_uc010trv.1_Silent_p.L542L|DACT1_uc001xdx.2_Silent_p.L786L|DACT1_uc010trw.1_Silent_p.L542L	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	823					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						AGAAGATCCTCCGCTTTCGGT	0.453													28	175	---	---	---	---	PASS	G	59113810	G	G	59113810	2	3	101	1	0	0	0	0	0	0	0	1	4222	842	30	2		2	DACT1	14	59113810	Silent	SNP	C	TCGA-43-6647-01A-11D-1817-08	25822044	59113810	48235730	122	37849										
RTN1	6252	broad.mit.edu	37	chr14	60212638	60212638	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gagccctgcgctgttcttcaGagagatcatctatgtatgga	11	9	4	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr14:60212638G>A	uc001xen.1	-	2	1012	c.803C>T	c.(802-804)TCT>TTT	p.S268F		NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	268					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		CTGTTCTTCAGAGAGATCATC	0.473													9	155	---	---	---	---	PASS	A	60212638	A	A	60212638	3	1	101	1	0	0	0	0	1	0	0	0	13725	942	33	2	1624	2	RTN1	14	60212638	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	1098828	60212638	47136902	123	37850										
PCNX	22990	broad.mit.edu	37	chr14	71575553	71575553	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtgaaccaaatggaaccctcAggtcagagcggcctggcctg	13	12	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr14:71575553A>C	uc001xmo.2	+	34	6980	c.6534A>C	c.(6532-6534)TCA>TCC	p.S2178S	PCNX_uc010are.1_Silent_p.S2067S|PCNX_uc010arf.1_Silent_p.S966S|PCNX_uc001xmp.2_Silent_p.S262S	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	2178	Ser-rich.					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)		TGGAACCCTCAGGTCAGAGCG	0.562													5	69	---	---	---	---	PASS	C	71575553	C	C	71575553	2	2	101	1	0	0	0	0	0	0	0	1	11591	175	7	5		5	PCNX	14	71575553	Silent	SNP	A	TCGA-43-6647-01A-11D-1817-08	11362915	71575553	35773987	124	37851										
HEATR4	399671	broad.mit.edu	37	chr14	73989131	73989131	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tcatcccgaatgtgactccaGtcgtactgctggcgcaggaa	11	12	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr14:73989131G>T	uc010tub.1	-	3	1048	c.726C>A	c.(724-726)GAC>GAA	p.D242E	HEATR4_uc010tua.1_Missense_Mutation_p.D195E	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		TGTGACTCCAGTCGTACTGCT	0.577													14	81	---	---	---	---	PASS	T	73989131	T	T	73989131	3	4	101	1	0	0	0	0	1	0	0	0	7030	1020	36	3	2418	3	HEATR4	14	73989131	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	2413578	73989131	33360409	125	37852										
TTC7B	145567	broad.mit.edu	37	chr14	91252596	91252596	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggcttggggcctcggggactGgccccctgcctcagggggtg	19	13	1	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr14:91252596G>A	uc001xyp.2	-	2	320	c.198C>T	c.(196-198)GCC>GCT	p.A66A		NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	66							binding			ovary(2)	2		Melanoma(154;0.222)				CTCGGGGACTGGCCCCCTGCC	0.602													16	69	---	---	---	---	PASS	A	91252596	A	A	91252596	2	1	101	1	0	0	0	0	0	0	0	1	16710	1335	47	3		3	TTC7B	14	91252596	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	17263465	91252596	16096944	126	37853										
SERPINA6	866	broad.mit.edu	37	chr14	94780437	94780437	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tccagccctgaaaacaagtcGacaattttcccctgtgtctt	6	13	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr14:94780437G>A	uc001ycv.2	-	2	653	c.549C>T	c.(547-549)GTC>GTT	p.V183V	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	183					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	AAAACAAGTCGACAATTTTCC	0.488													4	114	---	---	---	---	PASS	A	94780437	A	A	94780437	2	1	101	1	0	0	0	0	0	0	0	1	14093	1045	37	2		2	SERPINA6	14	94780437	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	3527841	94780437	12569103	127	37854										
CLMN	79789	broad.mit.edu	37	chr14	95669821	95669821	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtttgtccatcttaacttgaGgctctggcgaatccttcttt	8	10	3	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr14:95669821G>A	uc001yef.2	-	9	1981	c.1865C>T	c.(1864-1866)CCT>CTT	p.P622L		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	622						integral to membrane	actin binding				0				Epithelial(152;0.193)		CTTAACTTGAGGCTCTGGCGA	0.448													5	77	---	---	---	---	PASS	A	95669821	A	A	95669821	3	1	101	1	0	0	0	0	1	0	0	0	3542	1000	35	3	1163	3	CLMN	14	95669821	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	889384	95669821	11679719	128	37855										
INF2	64423	broad.mit.edu	37	chr14	105175017	105175017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gggttttctagatcactttcCtcgatgccaagaagagcctg	10	10	2	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr14:105175017C>A	uc001ypb.2	+	10	2040	c.1897C>A	c.(1897-1899)CTC>ATC	p.L633I	INF2_uc010tyi.1_Missense_Mutation_p.L633I|INF2_uc001ypc.2_Missense_Mutation_p.L633I|INF2_uc010awz.1_RNA	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	633	FH2.				actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)		GATCACTTTCCTCGATGCCAA	0.622											OREG0022959	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	173	---	---	---	---	PASS	A	105175017	A	A	105175017	3	1	101	1	0	0	0	0	1	0	0	0	7734	681	24	3	1935	3	INF2	14	105175017	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	9505196	105175017	2174523	129	37856										
C15orf2	23742	broad.mit.edu	37	chr15	24921331	24921331	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gctgcctgctcggaacccccCgaggtttggacaccccagtt	11	16	0	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr15:24921331C>T	uc001ywo.2	+	1	791	c.317C>T	c.(316-318)CCG>CTG	p.P106L		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	106					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CGGAACCCCCCGAGGTTTGGA	0.677													3	60	---	---	---	---	PASS	T	24921331	T	T	24921331	3	4	101	1	0	0	0	0	1	0	0	0	1784	652	23	1	319	1	C15orf2	15	24921331	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08		24921331	77610061	130	37857										
C15orf41	84529	broad.mit.edu	37	chr15	36989572	36989572	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ctgagagacttgcttctagaGaaaaacctgtccttcctagg	9	10	1	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr15:36989572G>T	uc001zje.3	+	8	775	c.525G>T	c.(523-525)GAG>GAT	p.E175D	C15orf41_uc001zjd.2_Missense_Mutation_p.E175D|C15orf41_uc010bbb.1_Missense_Mutation_p.E77D|C15orf41_uc001zjf.2_Missense_Mutation_p.E77D|C15orf41_uc010uci.1_Missense_Mutation_p.E77D	NM_001130010	NP_001123482	Q9Y2V0	CO041_HUMAN	hypothetical protein LOC84529 isoform 1	175							protein binding			pancreas(1)	1		all_epithelial(112;3.06e-10)|Lung NSC(122;6.48e-08)|all_lung(180;8.31e-07)|Melanoma(134;0.222)		all cancers(64;1.76e-19)|GBM - Glioblastoma multiforme(113;5.03e-07)|BRCA - Breast invasive adenocarcinoma(123;0.11)		TGCTTCTAGAGAAAAACCTGT	0.408													10	162	---	---	---	---	PASS	T	36989572	T	T	36989572	3	4	101	1	0	0	0	0	1	0	0	0	1795	933	33	2	555	2	C15orf41	15	36989572	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	12068241	36989572	65541820	131	37858										
TMOD3	29766	broad.mit.edu	37	chr15	52155121	52155121	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aggacttagaaaagtacaaaGaccttgatgaagatgagctc	10	6	0	6			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr15:52155121G>C	uc002abm.2	+	2	259	c.40G>C	c.(40-42)GAC>CAC	p.D14H		NM_014547	NP_055362	Q9NYL9	TMOD3_HUMAN	tropomodulin 3 (ubiquitous)	14						cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(1)	1				all cancers(107;0.00194)		AAAGTACAAAGACCTTGATGA	0.443													6	76	---	---	---	---	PASS	C	52155121	C	C	52155121	3	2	101	1	0	0	0	0	1	0	0	0	16232	942	33	2	42	2	TMOD3	15	52155121	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	15165549	52155121	50376271	132	37859										
CHRNA3	1136	broad.mit.edu	37	chr15	78894314	78894314	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtcggggtagatctcctcgcAgcagttgtacttgatgtcgt	13	9	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr15:78894314A>C	uc002bec.2	-	5	856	c.670T>G	c.(670-672)TGC>GGC	p.C224G	CHRNA3_uc002bea.2_RNA|CHRNA3_uc002beb.2_Missense_Mutation_p.C224G	NM_000743	NP_000734	P32297	ACHA3_HUMAN	cholinergic receptor, nicotinic, alpha 3	224	Extracellular (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|behavioral response to nicotine|locomotory behavior|regulation of acetylcholine secretion|regulation of dendrite morphogenesis|regulation of excitatory postsynaptic membrane potential|regulation of smooth muscle contraction|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|dendrite|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic density|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(3)|ovary(1)	4						ATCTCCTCGCAGCAGTTGTAC	0.547													4	50	---	---	---	---	PASS	C	78894314	C	C	78894314	3	2	101	1	0	0	0	0	1	0	0	0	3384	188	7	5	940	5	CHRNA3	15	78894314	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	26739193	78894314	23637078	133	37860										
TMEM8A	58986	broad.mit.edu	37	chr16	424040	424040	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cttgagccgtgccatgcacaGgatggtgacccagatggccg	14	12	0	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr16:424040G>A	uc002cgu.3	-	11	1996	c.1867C>T	c.(1867-1869)CTG>TTG	p.L623L	TMEM8A_uc002cgv.3_Silent_p.L430L	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	623	Helical; (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						GCCATGCACAGGATGGTGACC	0.662											OREG0003702	type=REGULATORY REGION|Gene=TMEM8|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	5	21	---	---	---	---	PASS	A	424040	A	A	424040	2	1	101	1	0	0	0	0	0	0	0	1	16211	991	35	3		3	TMEM8A	16	424040	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08		424040	89930713	134	37861										
TSC2	7249	broad.mit.edu	37	chr16	2129610	2129610	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aggaggcgccggccaagctgGagtcccaggctgggcagcag	18	12	0	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr16:2129610G>T	uc002con.2	+	29	3443	c.3337G>T	c.(3337-3339)GAG>TAG	p.E1113*	TSC2_uc010bsd.2_Nonsense_Mutation_p.E1113*|TSC2_uc002coo.2_Nonsense_Mutation_p.E1069*|TSC2_uc010uvv.1_Nonsense_Mutation_p.E1033*|TSC2_uc010uvw.1_Nonsense_Mutation_p.E1021*|TSC2_uc002cop.2_Nonsense_Mutation_p.E869*	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	1113					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				GGCCAAGCTGGAGTCCCAGGC	0.682			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				4	16	---	---	---	---	PASS	T	2129610	T	T	2129610	4	4	101	1	0	0	0	0	0	1	0	0	16603	1175	41	2	3447	2	TSC2	16	2129610	Nonsense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	1705570	2129610	88225143	135	37862										
ADCY9	115	broad.mit.edu	37	chr16	4016686	4016686	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ctccgctgtcatggttcttgGagtaggtctgggacaccttc	12	11	3	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr16:4016686G>C	uc002cvx.2	-	11	3691	c.3152C>G	c.(3151-3153)TCC>TGC	p.S1051C		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	1051	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						ATGGTTCTTGGAGTAGGTCTG	0.592													38	171	---	---	---	---	PASS	C	4016686	C	C	4016686	3	2	101	1	0	0	0	0	1	0	0	0	301	1174	41	2	913	2	ADCY9	16	4016686	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	1887076	4016686	86338067	136	37863										
ZP2	7783	broad.mit.edu	37	chr16	21211169	21211169	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gagccgactggatggaaggtGgtctggtagttgtccaggtc	17	7	1	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr16:21211169G>C	uc002dii.2	-	15	1725	c.1725C>G	c.(1723-1725)ACC>ACG	p.T575T	ZP2_uc010bwn.1_Silent_p.T605T	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	575	Extracellular (Potential).|ZP.				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		GATGGAAGGTGGTCTGGTAGT	0.498													8	111	---	---	---	---	PASS	C	21211169	C	C	21211169	2	2	101	1	0	0	0	0	0	0	0	1	18213	1335	47	4		4	ZP2	16	21211169	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	17194483	21211169	69143584	137	37864										
IL21R	50615	broad.mit.edu	37	chr16	27448887	27448887	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gcccacaatgccacgcatgcCacctacacctgccacatgga	7	18	0	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr16:27448887C>A	uc002doq.1	+	4	464	c.231C>A	c.(229-231)GCC>GCA	p.A77A	IL21R_uc002dor.1_Silent_p.A77A|IL21R_uc002dos.1_Silent_p.A77A	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	77	Extracellular (Potential).				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						CCACGCATGCCACCTACACCT	0.557			T	BCL6	NHL								8	58	---	---	---	---	PASS	A	27448887	A	A	27448887	2	1	101	1	0	0	0	0	0	0	0	1	7671	581	21	3		3	IL21R	16	27448887	Silent	SNP	C	TCGA-43-6647-01A-11D-1817-08	6237718	27448887	62905866	138	37865										
C16orf86	388284	broad.mit.edu	37	chr16	67702132	67702132	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	agcgcctgcggccgctgtacCagtacgtcaactattgcaac	10	14	1	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr16:67702132C>T	uc002ety.2	+	4	740	c.583C>T	c.(583-585)CAG>TAG	p.Q195*	C16orf48_uc002etw.1_5'Flank|C16orf48_uc010cem.1_5'Flank|C16orf86_uc002etx.1_3'UTR|C16orf86_uc002etz.2_RNA	NM_001012984	NP_001013002	Q6ZW13	CP086_HUMAN	hypothetical protein LOC388284	195											0		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		GCCGCTGTACCAGTACGTCAA	0.672											OREG0023886	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	19	---	---	---	---	PASS	T	67702132	T	T	67702132	4	4	101	1	0	0	0	0	0	1	0	0	1839	595	21	3	597	3	C16orf86	16	67702132	Nonsense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	40253245	67702132	22652621	139	37866										
HAS3	3038	broad.mit.edu	37	chr16	69143365	69143365	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tgtttgccctggcagtgctgGgtggcatcctggcagcctat	14	11	0	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr16:69143365G>T	uc010cfh.2	+	2	291	c.67G>T	c.(67-69)GGT>TGT	p.G23C	HAS3_uc002ewk.2_Missense_Mutation_p.G23C|HAS3_uc010vlk.1_Missense_Mutation_p.G23C|HAS3_uc002ewl.2_Missense_Mutation_p.G23C	NM_005329	NP_005320	O00219	HAS3_HUMAN	hyaluronan synthase 3 isoform a	23	Helical; Name=1; (Potential).				carbohydrate metabolic process	integral to plasma membrane	hyaluronan synthase activity				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.0694)		GGCAGTGCTGGGTGGCATCCT	0.632													4	47	---	---	---	---	PASS	T	69143365	T	T	69143365	3	4	101	1	0	0	0	0	1	0	0	0	6963	1232	43	3	69	3	HAS3	16	69143365	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	1441233	69143365	21211388	140	37867										
CPNE7	27132	broad.mit.edu	37	chr16	89661838	89661838	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	acatggccgacacacgggagGccattgtgcgtgcctcacgc	13	14	1	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr16:89661838G>A	uc002fnp.2	+	16	1721	c.1591G>A	c.(1591-1593)GCC>ACC	p.A531T	CPNE7_uc002fnq.2_Missense_Mutation_p.A456T	NM_014427	NP_055242	Q9UBL6	CPNE7_HUMAN	copine 7 isoform b	531	VWFA.				lipid metabolic process		transporter activity				0		all_hematologic(23;0.0748)		all cancers(4;3.63e-08)|OV - Ovarian serous cystadenocarcinoma(4;1.7e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0147)		CACACGGGAGGCCATTGTGCG	0.627													4	42	---	---	---	---	PASS	A	89661838	A	A	89661838	3	1	101	1	0	0	0	0	1	0	0	0	3817	1203	42	3	1653	3	CPNE7	16	89661838	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	20518473	89661838	692915	141	37868										
POLR2A	5430	broad.mit.edu	37	chr17	7402446	7402446	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	catgatggggcatcgggtccGcattctcccatggtctacct	11	13	2	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr17:7402446G>A	uc002ghf.3	+	9	1658	c.1424G>A	c.(1423-1425)CGC>CAC	p.R475H	POLR2A_uc002ghe.2_Missense_Mutation_p.R475H	NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	475					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				CATCGGGTCCGCATTCTCCCA	0.562													4	139	---	---	---	---	PASS	A	7402446	A	A	7402446	3	1	101	1	0	0	0	0	1	0	0	0	12214	1087	38	1	1458	1	POLR2A	17	7402446	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08		7402446	73792764	142	37869										
PER1	5187	broad.mit.edu	37	chr17	8047094	8047094	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggtgaggggtgtgagacataGcagggcgcttcagcccgagg	19	8	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr17:8047094G>A	uc002gkd.2	-	19	2800	c.2562C>T	c.(2560-2562)TGC>TGT	p.C854C	PER1_uc010cns.2_5'Flank|PER1_uc010vuq.1_Intron	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	854	Pro-rich.				circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						GTGAGACATAGCAGGGCGCTT	0.697			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					6	38	---	---	---	---	PASS	A	8047094	A	A	8047094	2	1	101	1	0	0	0	0	0	0	0	1	11729	963	34	3		3	PER1	17	8047094	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	644648	8047094	73148116	143	37870										
MYH4	4622	broad.mit.edu	37	chr17	10351379	10351379	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	caatttttcggtcaatctcaGatttcacctgatttagctca	5	10	4	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr17:10351379G>A	uc002gmn.2	-	34	4832	c.4721C>T	c.(4720-4722)TCT>TTT	p.S1574F	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1574	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						GTCAATCTCAGATTTCACCTG	0.383													18	80	---	---	---	---	PASS	A	10351379	A	A	10351379	3	1	101	1	0	0	0	0	1	0	0	0	10037	942	33	2	1126	2	MYH4	17	10351379	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	2304285	10351379	70843831	144	37871										
PIGL	9487	broad.mit.edu	37	chr17	16137283	16137283	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	actgtatatttgttaccctcAggaaattactacaatcaagg	6	8	2	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr17:16137283A>T	uc002gpv.2	+	2	268	c.236_splice	c.e2-2	p.G79_splice	PIGL_uc010vwd.1_Splice_Site_p.G79_splice	NM_004278	NP_004269	Q9Y2B2	PIGL_HUMAN	phosphatidylinositol glycan anchor biosynthesis,						C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	N-acetylglucosaminylphosphatidylinositol deacetylase activity				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0934)		TGTTACCCTCAGGAAATTACT	0.348													5	46	---	---	---	---	PASS	T	16137283	T	T	16137283	5	4	101	1	0	0	0	0	0	0	1	0	11891	202	7	5	240	5	PIGL	17	16137283	Splice_Site	SNP	A	TCGA-43-6647-01A-11D-1817-08	5785904	16137283	65057927	145	37872										
TAOK1	57551	broad.mit.edu	37	chr17	27805292	27805292	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	acaaaaagccattacaagaaGtggaaatagcagcaattaca	7	7	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr17:27805292G>A	uc002hdz.1	+	6	570	c.376G>A	c.(376-378)GTG>ATG	p.V126M	TAOK1_uc010wbe.1_Missense_Mutation_p.V126M|TAOK1_uc010wbf.1_Missense_Mutation_p.V126M|TAOK1_uc002heb.1_5'Flank	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	126	Protein kinase.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			ATTACAAGAAGTGGAAATAGC	0.289													13	95	---	---	---	---	PASS	A	27805292	A	A	27805292	3	1	101	1	0	0	0	0	1	0	0	0	15544	1029	36	3	394	3	TAOK1	17	27805292	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	11668009	27805292	53389918	146	37873										
KRT35	3886	broad.mit.edu	37	chr17	39635146	39635146	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tccaccagggtttcatactgGcacctcatctcctccagaac	6	16	3	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr17:39635146G>T	uc002hws.2	-	4	856	c.813C>A	c.(811-813)TGC>TGA	p.C271*		NM_002280	NP_002271	Q92764	KRT35_HUMAN	keratin 35	271	Rod.|Coil 2.				anatomical structure morphogenesis	intermediate filament	protein binding|structural molecule activity			ovary(1)|skin(1)	2		Breast(137;0.000286)				TTTCATACTGGCACCTCATCT	0.557													4	94	---	---	---	---	PASS	T	39635146	T	T	39635146	4	4	101	1	0	0	0	0	0	1	0	0	8472	1195	42	3	570	3	KRT35	17	39635146	Nonsense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	11829854	39635146	41560064	147	37874										
DBF4B	80174	broad.mit.edu	37	chr17	42800348	42800348	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttggatctgcctgctggcaaGaatctccagtttttgacggg	12	9	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr17:42800348G>T	uc002ihf.2	+	3	396	c.183G>T	c.(181-183)AAG>AAT	p.K61N	DBF4B_uc002ihd.1_Missense_Mutation_p.K61N|DBF4B_uc010wjb.1_RNA|DBF4B_uc002ihe.2_5'UTR|DBF4B_uc010wjc.1_Missense_Mutation_p.K45N|DBF4B_uc002ihg.2_Missense_Mutation_p.K45N	NM_145663	NP_663696	Q8NFT6	DBF4B_HUMAN	DBF4 homolog B isoform 1	61	BRCT.				cell cycle	nucleus	nucleic acid binding|zinc ion binding				0		Prostate(33;0.0322)				CTGCTGGCAAGAATCTCCAGT	0.527													15	82	---	---	---	---	PASS	T	42800348	T	T	42800348	3	4	101	1	0	0	0	0	1	0	0	0	4249	933	33	2	193	2	DBF4B	17	42800348	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	3165202	42800348	38394862	148	37875										
MGAT5B	146664	broad.mit.edu	37	chr17	74934111	74934111	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	atcctgaacaaatacatggaGatccatggcaccgtgtacta	8	10	0	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr17:74934111G>C	uc002jti.2	+	11	1600	c.1497G>C	c.(1495-1497)GAG>GAC	p.E499D	MGAT5B_uc002jth.2_Missense_Mutation_p.E488D	NM_198955	NP_945193	Q3V5L5	MGT5B_HUMAN	N-acetylglucosaminyltranferase VB isoform 2	490	Lumenal (Potential).					Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						AATACATGGAGATCCATGGCA	0.552													5	71	---	---	---	---	PASS	C	74934111	C	C	74934111	3	2	101	1	0	0	0	0	1	0	0	0	9549	933	33	2	1611	2	MGAT5B	17	74934111	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	32133763	74934111	6261099	149	37876										
SMAD4	4089	broad.mit.edu	37	chr18	48581307	48581307	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cccagctctgttagccccatCtgagtctaatgctaccagca	7	15	3	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr18:48581307C>A	uc010xdp.1	+	5	1149	c.611C>A	c.(610-612)TCT>TAT	p.S204Y	SMAD4_uc010xdo.1_RNA|SMAD4_uc002lfb.3_Missense_Mutation_p.S49Y	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	204					BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(3)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TTAGCCCCATCTGAGTCTAAT	0.468									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				10	116	---	---	---	---	PASS	A	48581307	A	A	48581307	3	1	101	1	0	0	0	0	1	0	0	0	14760	913	32	2	625	2	SMAD4	18	48581307	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08		48581307	29495941	150	37877										
STK11	6794	broad.mit.edu	37	chr19	1218443	1218443	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	caactactgaggaggttacgGcacaaaaatgtcatccagct	9	10	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:1218443G>A	uc002lrl.1	+	2	1433	c.318G>A	c.(316-318)CGG>CGA	p.R106R		NM_000455	NP_000446	Q15831	STK11_HUMAN	serine/threonine protein kinase 11	106	Protein kinase.				anoikis|cell cycle arrest|energy reserve metabolic process|insulin receptor signaling pathway|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.0?(19)|p.?(3)|p.E98_G155del(3)|p.R106R(1)|p.G52_P179del(1)		lung(174)|cervix(35)|skin(15)|large_intestine(12)|pancreas(6)|gastrointestinal_tract_(site_indeterminate)(5)|stomach(4)|ovary(4)|breast(2)|upper_aerodigestive_tract(1)|testis(1)|liver(1)|biliary_tract(1)|small_intestine(1)|urinary_tract(1)|oesophagus(1)|prostate(1)|kidney(1)	266		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Renal(1328;0.0183)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.00942)|STAD - Stomach adenocarcinoma(1328;0.18)		GGAGGTTACGGCACAAAAATG	0.552		14	D|Mis|N|F|S		NSCLC|pancreatic	jejunal harmartoma|ovarian|testicular|pancreatic			Peutz-Jeghers_syndrome	TSP Lung(3;<1E-08)			4	189	---	---	---	---	PASS	A	1218443	A	A	1218443	2	1	101	1	0	0	0	0	0	0	0	1	15286	1190	42	3		3	STK11	19	1218443	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08		1218443	57910540	151	37878										
ZNF77	58492	broad.mit.edu	37	chr19	2936662	2936662	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccattcccaaaaacgtccctCtgagaacttgatccactggt	6	14	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:2936662C>A	uc002lws.3	-	3	302	c.171G>T	c.(169-171)CAG>CAT	p.Q57H		NM_021217	NP_067040	Q15935	ZNF77_HUMAN	zinc finger protein 77	57	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|GBM - Glioblastoma multiforme(1328;2.11e-07)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.174)|STAD - Stomach adenocarcinoma(1328;0.18)		AAACGTCCCTCTGAGAACTTG	0.348													10	67	---	---	---	---	PASS	A	2936662	A	A	2936662	3	1	101	1	0	0	0	0	1	0	0	0	18139	912	32	2	1474	2	ZNF77	19	2936662	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	1718219	2936662	56192321	152	37879										
FUT3	2525	broad.mit.edu	37	chr19	5844073	5844073	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ctccagggcgttcctccacaGcttctcggtgatgtagtcgg	12	13	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:5844073G>T	uc002mdk.2	-	2	875	c.778C>A	c.(778-780)CTG>ATG	p.L260M	FUT3_uc002mdm.2_Missense_Mutation_p.L260M|FUT3_uc002mdj.2_Missense_Mutation_p.L260M|FUT3_uc002mdl.2_Missense_Mutation_p.L260M	NM_001097641	NP_001091110	P21217	FUT3_HUMAN	fucosyltransferase 3	260	Lumenal (Potential).				protein glycosylation	Golgi cisterna membrane|integral to membrane|membrane fraction	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity				0						TTCCTCCACAGCTTCTCGGTG	0.632													20	119	---	---	---	---	PASS	T	5844073	T	T	5844073	3	4	101	1	0	0	0	0	1	0	0	0	6105	962	34	3	311	3	FUT3	19	5844073	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	2907411	5844073	53284910	153	37880										
MUC16	94025	broad.mit.edu	37	chr19	8993440	8993440	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtgatgctgtgggtcagctgGctcagctccaaatacagctg	13	10	2	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:8993440G>A	uc002mkp.2	-	66	41853	c.41649C>T	c.(41647-41649)AGC>AGT	p.S13883S	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.S700S|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13886	Extracellular (Potential).|SEA 12.			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						GGGTCAGCTGGCTCAGCTCCA	0.592													8	146	---	---	---	---	PASS	A	8993440	A	A	8993440	2	1	101	1	0	0	0	0	0	0	0	1	9973	1194	42	3		3	MUC16	19	8993440	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	3149367	8993440	50135543	154	37881										
ICAM5	7087	broad.mit.edu	37	chr19	10403724	10403724	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccaggagttggacgtggcccGagggcccagagcagacgctg	17	12	0	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:10403724G>A	uc002mnu.3	+	6	1332	c.1267G>A	c.(1267-1269)GAG>AAG	p.E423K	ICAM5_uc002mnv.3_Missense_Mutation_p.E298K	NM_003259	NP_003250	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5 precursor	423	Extracellular (Potential).|Ig-like C2-type 5.				cell-cell adhesion	integral to plasma membrane				breast(3)	3			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			GACGTGGCCCGAGGGCCCAGA	0.692													9	67	---	---	---	---	PASS	A	10403724	A	A	10403724	3	1	101	1	0	0	0	0	1	0	0	0	7483	1059	37	2	1289	2	ICAM5	19	10403724	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	1410284	10403724	48725259	155	37882										
TMEM205	374882	broad.mit.edu	37	chr19	11453492	11453492	+	Nonstop_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttagcatgcagggcccatgcTagaggctccttatttccagg	11	11	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:11453492T>A	uc002mrb.2	-	4	757	c.569A>T	c.(568-570)TAG>TTG	p.*190L	TMEM205_uc002mra.2_Nonstop_Mutation_p.*190L|TMEM205_uc002mqz.2_Nonstop_Mutation_p.*190L|TMEM205_uc002mrc.2_Nonstop_Mutation_p.*190L	NM_001145416	NP_001138888	Q6UW68	TM205_HUMAN	transmembrane protein 205	190						integral to membrane					0						GGGCCCATGCTAGAGGCTCCT	0.542													23	157	---	---	---	---	PASS	A	11453492	A	A	11453492	4	1	101	1	0	0	0	0	0	0	0	0	16127	1535	53	5	4	5	TMEM205	19	11453492	Nonstop_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	1049768	11453492	47675491	156	37883										
ZNF536	9745	broad.mit.edu	37	chr19	31039443	31039443	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggaagtccgagaaatctcagTatgaacccctggacttgtct	10	10	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:31039443T>A	uc002nsu.1	+	4	3055	c.2917T>A	c.(2917-2919)TAT>AAT	p.Y973N	ZNF536_uc010edd.1_Missense_Mutation_p.Y973N	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	973					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GAAATCTCAGTATGAACCCCT	0.592													21	121	---	---	---	---	PASS	A	31039443	A	A	31039443	3	1	101	1	0	0	0	0	1	0	0	0	17971	1638	57	5	2927	5	ZNF536	19	31039443	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	19585951	31039443	28089540	157	37884										
ZNF536	9745	broad.mit.edu	37	chr19	31039656	31039656	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tcacagtcaactgcaaagacCaagcccgggaggcgagtaag	12	11	2	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:31039656C>T	uc002nsu.1	+	4	3268	c.3130C>T	c.(3130-3132)CAA>TAA	p.Q1044*	ZNF536_uc010edd.1_Nonsense_Mutation_p.Q1044*	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1044					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CTGCAAAGACCAAGCCCGGGA	0.542													5	66	---	---	---	---	PASS	T	31039656	T	T	31039656	4	4	101	1	0	0	0	0	0	1	0	0	17971	595	21	3	3140	3	ZNF536	19	31039656	Nonsense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	213	31039656	28089327	158	37885										
LIN37	55957	broad.mit.edu	37	chr19	36245292	36245292	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	agtctcccctctgcctccccAggtggaaggaggcctctcat	10	16	3	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:36245292A>T	uc002obm.2	+	10	774	c.660_splice	c.e10-2	p.R220_splice	uc002obl.2_5'Flank	NM_019104	NP_061977	Q96GY3	LIN37_HUMAN	lin-37 homolog								protein binding				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTGCCTCCCCAGGTGGAAGGA	0.597													21	55	---	---	---	---	PASS	T	36245292	T	T	36245292	5	4	101	1	0	0	0	0	0	0	1	0	8807	202	7	5	692	5	LIN37	19	36245292	Splice_Site	SNP	A	TCGA-43-6647-01A-11D-1817-08	5205636	36245292	22883691	159	37886										
NPHS1	4868	broad.mit.edu	37	chr19	36339628	36339628	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gcgactggacttgctgacacAggagagtgtcacgttcttgt	13	9	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:36339628A>T	uc002oby.2	-	9	1081	c.1081T>A	c.(1081-1083)TGT>AGT	p.C361S		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	361	Ig-like C2-type 4.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TTGCTGACACAGGAGAGTGTC	0.577													9	92	---	---	---	---	PASS	T	36339628	T	T	36339628	3	4	101	1	0	0	0	0	1	0	0	0	10582	188	7	5	2728	5	NPHS1	19	36339628	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	94336	36339628	22789355	160	37887										
KIRREL2	84063	broad.mit.edu	37	chr19	36350435	36350435	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggagagcaccttaaccctgaCccctttcagccatgatgatg	9	13	1	4			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:36350435C>A	uc002ocb.3	+	5	787	c.575C>A	c.(574-576)ACC>AAC	p.T192N	KIRREL2_uc002obz.3_Missense_Mutation_p.T192N|KIRREL2_uc002oca.3_Missense_Mutation_p.T142N|KIRREL2_uc002occ.3_Missense_Mutation_p.T139N|KIRREL2_uc002ocd.3_Missense_Mutation_p.T189N	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	192	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TTAACCCTGACCCCTTTCAGC	0.542													12	112	---	---	---	---	PASS	A	36350435	A	A	36350435	3	1	101	1	0	0	0	0	1	0	0	0	8325	507	18	3	593	3	KIRREL2	19	36350435	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	10807	36350435	22778548	161	37888										
ZNF226	7769	broad.mit.edu	37	chr19	44680803	44680803	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tagtcggccttcaagtcttcAggcccatcagggagttcaca	10	12	5	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:44680803A>G	uc002oyp.2	+	6	1532	c.1388A>G	c.(1387-1389)CAG>CGG	p.Q463R	ZNF226_uc002oyq.2_Missense_Mutation_p.Q346R|ZNF226_uc002oyr.2_Missense_Mutation_p.Q346R|ZNF226_uc010ejg.2_3'UTR|ZNF226_uc002oys.2_Missense_Mutation_p.Q463R|ZNF226_uc002oyt.2_Missense_Mutation_p.Q463R	NM_001032373	NP_001027545	Q9NYT6	ZN226_HUMAN	zinc finger protein 226 isoform a	463	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				TCAAGTCTTCAGGCCCATCAG	0.433													3	89	---	---	---	---	PASS	G	44680803	G	G	44680803	3	3	101	1	0	0	0	0	1	0	0	0	17777	188	7	5	1456	5	ZNF226	19	44680803	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	8330368	44680803	14448180	162	37889										
KLK12	43849	broad.mit.edu	37	chr19	51535168	51535168	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gatgccccagcctgagacgtGgcactcggtgccagcggttg	15	13	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:51535168G>T	uc002pvg.1	-	3	541	c.421C>A	c.(421-423)CAC>AAC	p.H141N	KLK12_uc010ycp.1_RNA|KLK12_uc010ycq.1_Intron|KLK12_uc010ycr.1_Intron|KLK12_uc010ycs.1_Intron|KLK12_uc002pvh.1_Missense_Mutation_p.H141N|KLK12_uc002pvi.1_Missense_Mutation_p.H141N|KLK12_uc002pvj.1_Intron	NM_145894	NP_665901	Q9UKR0	KLK12_HUMAN	kallikrein 12 isoform 2	141	Peptidase S1.				proteolysis	extracellular region|soluble fraction	serine-type endopeptidase activity			ovary(1)	1		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00399)		CCTGAGACGTGGCACTCGGTG	0.677													18	136	---	---	---	---	PASS	T	51535168	T	T	51535168	3	4	101	1	0	0	0	0	1	0	0	0	8400	1348	47	3	399	3	KLK12	19	51535168	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	6854365	51535168	7593815	163	37890										
ZNF816A	125893	broad.mit.edu	37	chr19	53454512	53454512	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tggttactaattttccctttAgtctgaaacatgtggagttc	8	7	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr19:53454512A>G	uc002qal.1	-	5	817	c.516T>C	c.(514-516)ACT>ACC	p.T172T	ZNF321_uc010eqj.2_Intron|ZNF321_uc002qak.1_Intron|ZNF816A_uc002qam.1_Silent_p.T156T	NM_001031665	NP_001026835	Q0VGE8	ZN816_HUMAN	zinc finger protein 816A	172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0313)		TTTTCCCTTTAGTCTGAAACA	0.403													23	167	---	---	---	---	PASS	G	53454512	G	G	53454512	2	3	101	1	0	0	0	0	0	0	0	1	18174	407	15	5		5	ZNF816A	19	53454512	Silent	SNP	A	TCGA-43-6647-01A-11D-1817-08	1919344	53454512	5674471	164	37891										
SIRPG	55423	broad.mit.edu	37	chr20	1616921	1616921	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ctcgcagatgacctgagagcGaacgtcccaggggtccagta	13	12	0	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr20:1616921G>A	uc002wfm.1	-	3	726	c.661C>T	c.(661-663)CGC>TGC	p.R221C	SIRPG_uc002wfn.1_Missense_Mutation_p.R221C|SIRPG_uc002wfo.1_Intron|uc002wfp.1_Intron	NM_018556	NP_061026	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma isoform 1	221	Extracellular (Potential).|Ig-like C1-type 1.				blood coagulation|cell adhesion|cell junction assembly|cell-cell signaling|intracellular signal transduction|leukocyte migration|negative regulation of cell proliferation|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to membrane|intracellular|plasma membrane	protein binding			ovary(1)	1						ACCTGAGAGCGAACGTCCCAG	0.617													4	114	---	---	---	---	PASS	A	1616921	A	A	1616921	3	1	101	1	0	0	0	0	1	0	0	0	14336	1058	37	2	514	2	SIRPG	20	1616921	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08		1616921	61408599	165	37892										
BFSP1	631	broad.mit.edu	37	chr20	17495386	17495386	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cttcttgtgcctgtcctttgCcgcactgatatcatcttgca	7	13	3	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr20:17495386C>A	uc002wpo.2	-	3	553	c.514G>T	c.(514-516)GCA>TCA	p.A172S	BFSP1_uc002wpp.2_Missense_Mutation_p.A47S|BFSP1_uc010zrn.1_Missense_Mutation_p.A33S|BFSP1_uc010zro.1_Missense_Mutation_p.A33S	NM_001195	NP_001186	Q12934	BFSP1_HUMAN	filensin isoform 1	172	Rod.|Coil 1B.					cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens			central_nervous_system(1)	1						CTGTCCTTTGCCGCACTGATA	0.502													11	240	---	---	---	---	PASS	A	17495386	A	A	17495386	3	1	101	1	0	0	0	0	1	0	0	0	1415	739	26	3	1507	3	BFSP1	20	17495386	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	15878465	17495386	45530134	166	37893										
BCL2L1	598	broad.mit.edu	37	chr20	30253775	30253775	+	Missense_Mutation	SNP	C	A	A													0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tttccgactgaagagtgagcCcagcagaaccacgccggcca							TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr20:30253775C>A	uc002wwl.2	-	3	1045	c.679G>T	c.(679-681)GGC>TGC	p.G227C	BCL2L1_uc002wwk.2_RNA|BCL2L1_uc002wwm.2_Missense_Mutation_p.G164C|BCL2L1_uc002wwn.2_Missense_Mutation_p.G227C	NM_138578	NP_612815	Q07817	B2CL1_HUMAN	BCL2-like 1 isoform 1	227					induction of apoptosis by intracellular signals|negative regulation of establishment of protein localization in plasma membrane|negative regulation of survival gene product expression|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|release of cytochrome c from mitochondria|response to cytokine stimulus	integral to membrane|mitochondrial outer membrane|nuclear membrane	BH3 domain binding|identical protein binding			lung(1)|central_nervous_system(1)	2	all_cancers(5;3.47e-06)|all_epithelial(3;1.83e-06)|Lung NSC(7;2.08e-06)|all_lung(7;3.63e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Epithelial(4;2.97e-06)|all cancers(5;3.21e-05)|OV - Ovarian serous cystadenocarcinoma(3;0.00052)|Colorectal(19;0.0055)|COAD - Colon adenocarcinoma(19;0.0264)			AAGAGTGAGCCCAGCAGAACC	0.602													11	70	---	---	---	---	PASS	A	30253775	A	A	30253775	3	1	101	1	0	0	0	0	1	0	0	0	1367	623	22	3	26	3	BCL2L1	20	30253775	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	12758389	30253775	32771745	167	37894	705	2								
BCL2L1	598	broad.mit.edu	37	chr20	30253776	30253776	+	Silent	SNP	C	G	G													0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttccgactgaagagtgagccCagcagaaccacgccggccac							TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr20:30253776C>G	uc002wwl.2	-	3	1044	c.678G>C	c.(676-678)CTG>CTC	p.L226L	BCL2L1_uc002wwk.2_RNA|BCL2L1_uc002wwm.2_Silent_p.L163L|BCL2L1_uc002wwn.2_Silent_p.L226L	NM_138578	NP_612815	Q07817	B2CL1_HUMAN	BCL2-like 1 isoform 1	226	Helical; (Potential).				induction of apoptosis by intracellular signals|negative regulation of establishment of protein localization in plasma membrane|negative regulation of survival gene product expression|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|release of cytochrome c from mitochondria|response to cytokine stimulus	integral to membrane|mitochondrial outer membrane|nuclear membrane	BH3 domain binding|identical protein binding			lung(1)|central_nervous_system(1)	2	all_cancers(5;3.47e-06)|all_epithelial(3;1.83e-06)|Lung NSC(7;2.08e-06)|all_lung(7;3.63e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Epithelial(4;2.97e-06)|all cancers(5;3.21e-05)|OV - Ovarian serous cystadenocarcinoma(3;0.00052)|Colorectal(19;0.0055)|COAD - Colon adenocarcinoma(19;0.0264)			AGAGTGAGCCCAGCAGAACCA	0.602													10	71	---	---	---	---	PASS	G	30253776	G	G	30253776	2	3	101	1	0	0	0	0	0	0	0	1	1367	581	21	4		4	BCL2L1	20	30253776	Silent	SNP	C	TCGA-43-6647-01A-11D-1817-08	1	30253776	32771744	168	37895	705	2								
SEMG2	6407	broad.mit.edu	37	chr20	43850507	43850507	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gacatcaatgatcatgactgGacccgaaaaagtcagcaata	8	9	3	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr20:43850507G>A	uc010ggz.2	+	2	291	c.234G>A	c.(232-234)TGG>TGA	p.W78*	SEMG2_uc002xnk.2_Nonsense_Mutation_p.W78*|SEMG2_uc002xnl.2_Nonsense_Mutation_p.W78*	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	78	Repeat-rich region.|3-1.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				ATCATGACTGGACCCGAAAAA	0.373													6	75	---	---	---	---	PASS	A	43850507	A	A	43850507	4	1	101	1	0	0	0	0	0	1	0	0	14045	1183	41	2	240	2	SEMG2	20	43850507	Nonsense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	13596731	43850507	19175013	169	37896										
MTMR3	8897	broad.mit.edu	37	chr22	30415501	30415501	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tagatcatacgacaatctgaCcacagcctgtgacaacacag	7	12	2	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr22:30415501C>A	uc003agv.3	+	17	2181	c.1853C>A	c.(1852-1854)ACC>AAC	p.T618N	MTMR3_uc003agu.3_Missense_Mutation_p.T618N|MTMR3_uc003agw.3_Missense_Mutation_p.T618N	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	618					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			GACAATCTGACCACAGCCTGT	0.532													3	86	---	---	---	---	PASS	A	30415501	A	A	30415501	3	1	101	1	0	0	0	0	1	0	0	0	9945	507	18	3	1911	3	MTMR3	22	30415501	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08		30415501	20889065	170	37897										
CSF2RB	1439	broad.mit.edu	37	chr22	37333578	37333578	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cagccaggcccgcctgccgcCtcccacacacctgagaaaca	8	20	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr22:37333578C>T	uc003aqa.3	+	14	1945	c.1728C>T	c.(1726-1728)GCC>GCT	p.A576A	CSF2RB_uc003aqc.3_Silent_p.A582A	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	576	Cytoplasmic (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	CGCCTGCCGCCTCCCACACAC	0.657													4	26	---	---	---	---	PASS	T	37333578	T	T	37333578	2	4	101	1	0	0	0	0	0	0	0	1	3935	668	24	3		3	CSF2RB	22	37333578	Silent	SNP	C	TCGA-43-6647-01A-11D-1817-08	6918077	37333578	13970988	171	37898										
KLHDC7B	113730	broad.mit.edu	37	chr22	50988132	50988132	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccgccgtgatgcgctacaacAcagtgaccggctcctggagc	12	15	0	2	rs137863644		TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chr22:50988132A>G	uc003bmi.2	+	1	1671	c.1537A>G	c.(1537-1539)ACA>GCA	p.T513A		NM_138433	NP_612442	Q96G42	KLD7B_HUMAN	kelch domain containing 7B	513	Kelch 5.									central_nervous_system(1)	1		all_cancers(38;1.53e-10)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		OV - Ovarian serous cystadenocarcinoma(4;7.49e-69)|all cancers(3;9.79e-66)|Epithelial(4;1.3e-63)|GBM - Glioblastoma multiforme(4;0.000399)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GCGCTACAACACAGTGACCGG	0.697													3	57	---	---	---	---	PASS	G	50988132	G	G	50988132	3	3	101	1	0	0	0	0	1	0	0	0	8361	159	6	5	1539	5	KLHDC7B	22	50988132	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	13654554	50988132	316434	172	37899										
SHROOM2	357	broad.mit.edu	37	chrX	9863737	9863737	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tgacccaggaggggaagcgcCggcctgagagcagtccagag	17	11	0	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:9863737C>G	uc004csu.1	+	4	1879	c.1789C>G	c.(1789-1791)CGG>GGG	p.R597G		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	597					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				GGGGAAGCGCCGGCCTGAGAG	0.682													2	9	---	---	---	---	PASS	G	9863737	G	G	9863737	3	3	101	1	0	0	0	0	1	0	0	0	14294	643	23	4	1803	4	SHROOM2	23	9863737	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08		9863737	145406823	173	37900										
DCAF8L1	139425	broad.mit.edu	37	chrX	27999274	27999274	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttctgtgctggcatcgttcaGgaaaccaccatccctggtat	9	12	2	0	rs139451923	byFrequency	TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:27999274G>T	uc004dbx.1	-	1	293	c.178C>A	c.(178-180)CTG>ATG	p.L60M		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	60										ovary(3)|skin(1)	4						GCATCGTTCAGGAAACCACCA	0.507													12	105	---	---	---	---	PASS	T	27999274	T	T	27999274	3	4	101	1	0	0	0	0	1	0	0	0	4277	991	35	3	1628	3	DCAF8L1	23	27999274	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	18135537	27999274	127271286	174	37901										
DMD	1756	broad.mit.edu	37	chrX	32360339	32360339	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cccatcctcagacaagccctCagcttgcctacgcactgcat	6	18	2	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:32360339C>G	uc004dda.1	-	41	6044	c.5800G>C	c.(5800-5802)GAG>CAG	p.E1934Q	DMD_uc004dcw.2_Missense_Mutation_p.E590Q|DMD_uc004dcx.2_Missense_Mutation_p.E593Q|DMD_uc004dcz.2_Missense_Mutation_p.E1811Q|DMD_uc004dcy.1_Missense_Mutation_p.E1930Q|DMD_uc004ddb.1_Missense_Mutation_p.E1926Q|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1934	Spectrin 13.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GACAAGCCCTCAGCTTGCCTA	0.522													12	59	---	---	---	---	PASS	G	32360339	G	G	32360339	3	3	101	1	0	0	0	0	1	0	0	0	4580	835	29	2	5561	2	DMD	23	32360339	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	4361065	32360339	122910221	175	37902										
SSX5	6758	broad.mit.edu	37	chrX	48047126	48047126	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aatcaccagttgctttctctCacgcactctgtgggtccagg	9	13	4	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:48047126C>G	uc004dja.1	-	7	561	c.508G>C	c.(508-510)GAG>CAG	p.E170Q	SSX5_uc004diz.1_Missense_Mutation_p.E211Q	NM_175723	NP_783729	O60225	SSX5_HUMAN	synovial sarcoma, X breakpoint 5 isoform b	170					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding				0						TGCTTTCTCTCACGCACTCTG	0.498													29	468	---	---	---	---	PASS	G	48047126	G	G	48047126	3	3	101	1	0	0	0	0	1	0	0	0	15207	835	29	2	62	2	SSX5	23	48047126	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	15686787	48047126	107223434	176	37903										
KCND1	3750	broad.mit.edu	37	chrX	48825921	48825921	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggaagcggcaacggctggggGcggcaaacagccgcaggagg	20	10	0	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:48825921G>T	uc004dlx.1	-	1	2331	c.758C>A	c.(757-759)GCC>GAC	p.A253D	KCND1_uc004dlw.1_5'Flank	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	253	Cytoplasmic (Potential).					voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						ACGGCTGGGGGCGGCAAACAG	0.582													4	37	---	---	---	---	PASS	T	48825921	T	T	48825921	3	4	101	1	0	0	0	0	1	0	0	0	8018	1203	42	3	1209	3	KCND1	23	48825921	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	778795	48825921	106444639	177	37904										
CCNB3	85417	broad.mit.edu	37	chrX	50053412	50053412	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	aaacatacagacacaattatCtttaaagaagaagtccactt	4	8	1	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:50053412C>T	uc004dox.3	+	6	2541	c.2243C>T	c.(2242-2244)TCT>TTT	p.S748F	CCNB3_uc004doy.2_Missense_Mutation_p.S748F|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	748					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					ACACAATTATCTTTAAAGAAG	0.418													4	29	---	---	---	---	PASS	T	50053412	T	T	50053412	3	4	101	1	0	0	0	0	1	0	0	0	2914	913	32	2	2257	2	CCNB3	23	50053412	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	1227491	50053412	105217148	178	37905										
DGKK	139189	broad.mit.edu	37	chrX	50133404	50133404	+	Missense_Mutation	SNP	C	A	A													0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtctcacgaatcatcacactCcatctgaaatgaatttcaaa							TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:50133404C>A	uc010njr.1	-	12	1908	c.1848G>T	c.(1846-1848)TGG>TGT	p.W616C		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	616	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					TCATCACACTCCATCTGAAAT	0.388													27	176	---	---	---	---	PASS	A	50133404	A	A	50133404	3	1	101	1	0	0	0	0	1	0	0	0	4472	856	30	2	2034	2	DGKK	23	50133404	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	79992	50133404	105137156	179	37906	706	2								
DGKK	139189	broad.mit.edu	37	chrX	50133405	50133405	+	Missense_Mutation	SNP	C	G	G													0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tctcacgaatcatcacactcCatctgaaatgaatttcaaag							TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:50133405C>G	uc010njr.1	-	12	1907	c.1847G>C	c.(1846-1848)TGG>TCG	p.W616S		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	616	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					CATCACACTCCATCTGAAATG	0.393													26	175	---	---	---	---	PASS	G	50133405	G	G	50133405	3	3	101	1	0	0	0	0	1	0	0	0	4472	595	21	4	2035	4	DGKK	23	50133405	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	1	50133405	105137155	180	37907	706	2								
SHROOM4	57477	broad.mit.edu	37	chrX	50376730	50376730	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tgagatgtagataaggatttGctactctcttcaaagaactt	8	6	2	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:50376730G>T	uc004dpe.2	-	4	2369	c.2343C>A	c.(2341-2343)AGC>AGA	p.S781R	SHROOM4_uc004dpd.3_RNA|SHROOM4_uc004dpf.1_Missense_Mutation_p.S665R	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	781					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					ATAAGGATTTGCTACTCTCTT	0.433													17	135	---	---	---	---	PASS	T	50376730	T	T	50376730	3	4	101	1	0	0	0	0	1	0	0	0	14296	1310	46	3	2162	3	SHROOM4	23	50376730	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	243325	50376730	104893830	181	37908										
MAGED2	10916	broad.mit.edu	37	chrX	54838617	54838617	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggattcaattgaaggaaattGataagaatgaccacttgtac	9	5	1	4			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:54838617G>T	uc004dtk.1	+	7	1112	c.1018G>T	c.(1018-1020)GAT>TAT	p.D340Y	MAGED2_uc004dtl.1_Missense_Mutation_p.D340Y|MAGED2_uc004dtm.1_Missense_Mutation_p.D255Y|MAGED2_uc010nkc.1_Missense_Mutation_p.D340Y|MAGED2_uc004dtn.1_Missense_Mutation_p.D340Y|MAGED2_uc004dto.1_Missense_Mutation_p.D314Y|SNORA11_uc004dtp.1_5'Flank	NM_177433	NP_803182	Q9UNF1	MAGD2_HUMAN	melanoma antigen family D, 2	340	MAGE.									ovary(2)|breast(1)	3						GAAGGAAATTGATAAGAATGA	0.498													6	70	---	---	---	---	PASS	T	54838617	T	T	54838617	3	4	101	1	0	0	0	0	1	0	0	0	9184	1290	45	2	1040	2	MAGED2	23	54838617	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	4461887	54838617	100431943	182	37909										
FOXR2	139628	broad.mit.edu	37	chrX	55650240	55650240	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	atgaggaatgagttatttctGccttgtaccacagaccagtg	10	8	1	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:55650240G>A	uc004duo.2	+	1	408	c.96G>A	c.(94-96)CTG>CTA	p.L32L		NM_198451	NP_940853	Q6PJQ5	FOXR2_HUMAN	forkhead box R2	32					embryo development|organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			lung(2)|central_nervous_system(1)	3						AGTTATTTCTGCCTTGTACCA	0.468													13	100	---	---	---	---	PASS	A	55650240	A	A	55650240	2	1	101	1	0	0	0	0	0	0	0	1	6032	1306	46	3		3	FOXR2	23	55650240	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	811623	55650240	99620320	183	37910										
FAM123B	139285	broad.mit.edu	37	chrX	63411933	63411933	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccgtggatacatttgggcagTttcccacagatattctaagt	9	9	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:63411933T>G	uc004dvo.2	-	2	1507	c.1234A>C	c.(1234-1236)ACT>CCT	p.T412P		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	412					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						ATTTGGGCAGTTTCCCACAGA	0.333													6	118	---	---	---	---	PASS	G	63411933	G	G	63411933	3	3	101	1	0	0	0	0	1	0	0	0	5423	1725	60	5	2177	5	FAM123B	23	63411933	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	7761693	63411933	91858627	184	37911										
AR	367	broad.mit.edu	37	chrX	66765851	66765851	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cactccttgtgccccattggCcgaatgcaaaggttctctgc	9	14	1	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:66765851C>A	uc004dwu.1	+	1	1978	c.863C>A	c.(862-864)GCC>GAC	p.A288D	AR_uc011mpd.1_Missense_Mutation_p.A288D|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.A288D	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	286	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	GCCCCATTGGCCGAATGCAAA	0.557									Androgen_Insensitivity_Syndrome				6	57	---	---	---	---	PASS	A	66765851	A	A	66765851	3	1	101	1	0	0	0	0	1	0	0	0	836	739	26	3	865	3	AR	23	66765851	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	3353918	66765851	88504709	185	37912										
KIAA2022	340533	broad.mit.edu	37	chrX	73963303	73963303	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ctcacatcagggaccttgaaTtgggaaaaatcactgctctg	9	10	4	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:73963303T>C	uc004eby.2	-	3	1706	c.1089A>G	c.(1087-1089)CAA>CAG	p.Q363Q		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	363					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GGACCTTGAATTGGGAAAAAT	0.478													18	83	---	---	---	---	PASS	C	73963303	C	C	73963303	2	2	101	1	0	0	0	0	0	0	0	1	8269	1490	52	5		5	KIAA2022	23	73963303	Silent	SNP	T	TCGA-43-6647-01A-11D-1817-08	7197452	73963303	81307257	186	37913										
BRWD3	254065	broad.mit.edu	37	chrX	79946652	79946652	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ggcactgagatccactggaaCagcaaaagggctggcaaaat	12	9	0	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:79946652C>T	uc004edt.2	-	31	3765	c.3502G>A	c.(3502-3504)GTT>ATT	p.V1168I	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.V764I|BRWD3_uc004edp.2_Missense_Mutation_p.V997I|BRWD3_uc004edq.2_Missense_Mutation_p.V764I|BRWD3_uc010nmj.1_Missense_Mutation_p.V764I|BRWD3_uc004edr.2_Missense_Mutation_p.V838I|BRWD3_uc004eds.2_Missense_Mutation_p.V764I|BRWD3_uc004edu.2_Missense_Mutation_p.V838I|BRWD3_uc004edv.2_Missense_Mutation_p.V764I|BRWD3_uc004edw.2_Missense_Mutation_p.V764I|BRWD3_uc004edx.2_Missense_Mutation_p.V764I|BRWD3_uc004edy.2_Missense_Mutation_p.V764I|BRWD3_uc004edz.2_Missense_Mutation_p.V838I|BRWD3_uc004eea.2_Missense_Mutation_p.V838I|BRWD3_uc004eeb.2_Missense_Mutation_p.V764I	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	1168	Bromo 1.									ovary(4)	4						TCCACTGGAACAGCAAAAGGG	0.368													10	59	---	---	---	---	PASS	T	79946652	T	T	79946652	3	4	101	1	0	0	0	0	1	0	0	0	1526	478	17	3	1950	3	BRWD3	23	79946652	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	5983349	79946652	75323908	187	37914										
HDX	139324	broad.mit.edu	37	chrX	83724491	83724491	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttaaccacatttctgactgtGatgtctggagctgacaaaga	9	8	2	4			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:83724491G>A	uc004eek.1	-	3	349	c.240C>T	c.(238-240)ATC>ATT	p.I80I	HDX_uc011mqv.1_Silent_p.I80I|HDX_uc004eel.1_Silent_p.I22I	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	80						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						TTCTGACTGTGATGTCTGGAG	0.438													14	56	---	---	---	---	PASS	A	83724491	A	A	83724491	2	1	101	1	0	0	0	0	0	0	0	1	7026	1280	45	2		2	HDX	23	83724491	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	3777839	83724491	71546069	188	37915										
BHLHB9	80823	broad.mit.edu	37	chrX	102004380	102004380	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tctgtgctgaggagttggaaCctgcggctggggccgattgc	17	9	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:102004380C>G	uc010nog.2	+	4	1028	c.457C>G	c.(457-459)CCT>GCT	p.P153A	BHLHB9_uc011mrq.1_Missense_Mutation_p.P153A|BHLHB9_uc011mrr.1_Missense_Mutation_p.P153A|BHLHB9_uc011mrs.1_Missense_Mutation_p.P153A|BHLHB9_uc011mrt.1_Missense_Mutation_p.P153A|BHLHB9_uc004ejo.2_Missense_Mutation_p.P153A|BHLHB9_uc011mru.1_Missense_Mutation_p.P153A|BHLHB9_uc011mrv.1_Missense_Mutation_p.P153A	NM_001142526	NP_001135998	Q6PI77	BHLH9_HUMAN	basic helix-loop-helix domain containing, class	153						cytoplasm|nucleus	binding			ovary(2)	2						GGAGTTGGAACCTGCGGCTGG	0.488													34	181	---	---	---	---	PASS	G	102004380	G	G	102004380	3	3	101	1	0	0	0	0	1	0	0	0	1420	507	18	4	459	4	BHLHB9	23	102004380	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	18279889	102004380	53266180	189	37916										
STAG2	10735	broad.mit.edu	37	chrX	123205067	123205067	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	atgtcaggagggcgtgacatGttagagccattagtgtatac	13	6	1	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:123205067G>T	uc004etz.3	+	24	2766	c.2427G>T	c.(2425-2427)ATG>ATT	p.M809I	STAG2_uc004eua.2_Missense_Mutation_p.M809I|STAG2_uc004eub.2_Missense_Mutation_p.M809I|STAG2_uc004euc.2_Missense_Mutation_p.M809I|STAG2_uc004eud.2_Missense_Mutation_p.M809I|STAG2_uc004eue.2_Missense_Mutation_p.M809I	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	809					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						GGCGTGACATGTTAGAGCCAT	0.363													29	235	---	---	---	---	PASS	T	123205067	T	T	123205067	3	4	101	1	0	0	0	0	1	0	0	0	15242	1377	48	3	2517	3	STAG2	23	123205067	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	21200687	123205067	32065493	190	37917										
DCAF12L2	340578	broad.mit.edu	37	chrX	125299535	125299535	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cgtgatgtggcctgactgcaCgtccaccacaaacagcgtat	10	13	0	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:125299535C>G	uc004euk.1	-	1	400	c.373G>C	c.(373-375)GTG>CTG	p.V125L		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	125										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						CCTGACTGCACGTCCACCACA	0.642													21	87	---	---	---	---	PASS	G	125299535	G	G	125299535	3	3	101	1	0	0	0	0	1	0	0	0	4265	536	19	4	1022	4	DCAF12L2	23	125299535	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	2094468	125299535	29971025	191	37918										
SMARCA1	6594	broad.mit.edu	37	chrX	128649887	128649887	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ttacatgaaggtgacacctcAaatctaatacacacattaga	5	9	2	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:128649887A>T	uc004eun.3	-	4	626	c.513T>A	c.(511-513)TTT>TTA	p.F171L	SMARCA1_uc004eup.3_Missense_Mutation_p.F171L|SMARCA1_uc011muk.1_Missense_Mutation_p.F171L|SMARCA1_uc011mul.1_Missense_Mutation_p.F171L	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	171					ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						GTGACACCTCAAATCTAATAC	0.348													13	83	---	---	---	---	PASS	T	128649887	T	T	128649887	3	4	101	1	0	0	0	0	1	0	0	0	14768	127	5	5	2735	5	SMARCA1	23	128649887	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	3350352	128649887	26620673	192	37919										
ENOX2	10495	broad.mit.edu	37	chrX	129799638	129799638	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	tcagcttgtttgcaccacacGctgatgttcttccgctgggc	10	13	2	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:129799638G>T	uc004evw.2	-	10	1498	c.1080C>A	c.(1078-1080)AGC>AGA	p.S360R	ENOX2_uc004evx.2_Missense_Mutation_p.S331R|ENOX2_uc004evy.2_Missense_Mutation_p.S331R|ENOX2_uc004evv.2_Missense_Mutation_p.S187R	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	360					cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						TGCACCACACGCTGATGTTCT	0.483													5	33	---	---	---	---	PASS	T	129799638	T	T	129799638	3	4	101	1	0	0	0	0	1	0	0	0	5127	1078	38	1	780	1	ENOX2	23	129799638	Missense_Mutation	SNP	G	TCGA-43-6647-01A-11D-1817-08	1149751	129799638	25470922	193	37920										
ARHGAP36	158763	broad.mit.edu	37	chrX	130217853	130217853	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cgtcgtcggggaaacgtggtGcgaagggtgtttggccgcat	18	8	0	0			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:130217853G>T	uc004evz.2	+	4	810	c.465G>T	c.(463-465)GTG>GTT	p.V155V	ARHGAP36_uc004ewa.2_Silent_p.V143V|ARHGAP36_uc004ewb.2_Silent_p.V124V|ARHGAP36_uc004ewc.2_Silent_p.V19V	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	155	Arg-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						GAAACGTGGTGCGAAGGGTGT	0.612													26	97	---	---	---	---	PASS	T	130217853	T	T	130217853	2	4	101	1	0	0	0	0	0	0	0	1	883	1306	46	3		3	ARHGAP36	23	130217853	Silent	SNP	G	TCGA-43-6647-01A-11D-1817-08	418215	130217853	25052707	194	37921										
MAGEA1	4100	broad.mit.edu	37	chrX	152482623	152482623	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtaatttttgatgacactctCcagcatttctgcctttgtga	7	9	2	3			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:152482623C>T	uc004fhf.2	-	3	608	c.388G>A	c.(388-390)GAG>AAG	p.E130K		NM_004988	NP_004979	P43355	MAGA1_HUMAN	melanoma antigen family A, 1	130	MAGE.					cytoplasm|plasma membrane				central_nervous_system(7)|ovary(1)|lung(1)|breast(1)	10	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ATGACACTCTCCAGCATTTCT	0.473													31	207	---	---	---	---	PASS	T	152482623	T	T	152482623	3	4	101	1	0	0	0	0	1	0	0	0	9163	864	30	2	545	2	MAGEA1	23	152482623	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	22264770	152482623	2787937	195	37922										
FLNA	2316	broad.mit.edu	37	chrX	153582286	153582286	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	ccagagctattgctcaccctCtcctgcatccttggtgttga	8	14	2	2			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:153582286C>A	uc004fkk.2	-	35	5932	c.5683G>T	c.(5683-5685)GAG>TAG	p.E1895*	FLNA_uc004fki.2_5'UTR|FLNA_uc011mzn.1_Nonsense_Mutation_p.E86*|FLNA_uc010nuu.1_Nonsense_Mutation_p.E1887*	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1895	Filamin 17.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGCTCACCCTCTCCTGCATCC	0.587											OREG0003596	type=REGULATORY REGION|Gene=BC028089|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	8	88	---	---	---	---	PASS	A	153582286	A	A	153582286	4	1	101	1	0	0	0	0	0	1	0	0	5933	922	32	2	2316	2	FLNA	23	153582286	Nonsense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	1099663	153582286	1688274	196	37923										
PLXNA3	55558	broad.mit.edu	37	chrX	153695768	153695768	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cagctttgagccgctggggcCctctggcgtgctggacgtca	15	13	2	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:153695768C>T	uc004flm.2	+	19	3568	c.3395C>T	c.(3394-3396)CCC>CTC	p.P1132L		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1132	IPT/TIG 4.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCGCTGGGGCCCTCTGGCGTG	0.662													17	30	---	---	---	---	PASS	T	153695768	T	T	153695768	3	4	101	1	0	0	0	0	1	0	0	0	12121	623	22	3	3465	3	PLXNA3	23	153695768	Missense_Mutation	SNP	C	TCGA-43-6647-01A-11D-1817-08	113482	153695768	1574792	197	37924										
VBP1	7411	broad.mit.edu	37	chrX	154448554	154448554	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	gtaccagaagtataagtttaTggaactcaaccttgctcaaa	7	8	2	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:154448554T>C	uc004fnc.2	+	2	247	c.188T>C	c.(187-189)ATG>ACG	p.M63T	VBP1_uc004fnd.2_Missense_Mutation_p.M26T	NM_003372	NP_003363	P61758	PFD3_HUMAN	von Hippel-Lindau binding protein 1	63					'de novo' posttranslational protein folding	nucleus|prefoldin complex	unfolded protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TATAAGTTTATGGAACTCAAC	0.299													18	47	---	---	---	---	PASS	C	154448554	C	C	154448554	3	2	101	1	0	0	0	0	1	0	0	0	17133	1464	51	5	194	5	VBP1	23	154448554	Missense_Mutation	SNP	T	TCGA-43-6647-01A-11D-1817-08	752786	154448554	822006	198	37925										
TMLHE	55217	broad.mit.edu	37	chrX	154741382	154741382	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0927835051546392	18	0.09103209741298	1.46323406391166	2.48067997215131	0.889764551994768	0.398508976829821	0.801546464759981	0	cagtgtgccgatccagagctAgcttggtgtacgcagtgtca	13	10	1	1			TCGA-43-6647-01A-11D-1817-08	TCGA-43-6647-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	90b97948-26f7-4431-be89-af8c432baae0	5a5e1d10-f089-48cb-9e33-15d8e46585d1	g.chrX:154741382A>T	uc004fnn.2	-	5	876	c.710T>A	c.(709-711)CTA>CAA	p.L237Q	TMLHE_uc004fno.2_Missense_Mutation_p.L237Q|TMLHE_uc004fnp.3_Missense_Mutation_p.L237Q	NM_018196	NP_060666	Q9NVH6	TMLH_HUMAN	trimethyllysine hydroxylase, epsilon	237					carnitine biosynthetic process	mitochondrial matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|trimethyllysine dioxygenase activity			ovary(1)	1	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Succinic acid(DB00139)|Vitamin C(DB00126)	ATCCAGAGCTAGCTTGGTGTA	0.418													34	138	---	---	---	---	PASS	T	154741382	T	T	154741382	3	4	101	1	0	0	0	0	1	0	0	0	16229	420	15	5	711	5	TMLHE	23	154741382	Missense_Mutation	SNP	A	TCGA-43-6647-01A-11D-1817-08	292828	154741382	529178	199	37926										
NECAP2	55707	broad.mit.edu	37	chr1	16775693	16775693	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cagaccatcaagctcaacatCgcagtgagttctacccttgc	7	14	3	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:16775693C>T	uc001ayo.2	+	5	576	c.486C>T	c.(484-486)ATC>ATT	p.I162I	NECAP2_uc001ayp.3_RNA|NECAP2_uc010ocd.1_Silent_p.I136I|NECAP2_uc001ayq.2_Silent_p.I162I	NM_018090	NP_060560	Q9NVZ3	NECP2_HUMAN	NECAP endocytosis associated 2 isoform 1	162					endocytosis|protein transport	clathrin vesicle coat|coated pit|plasma membrane					0		Colorectal(325;0.000147)|Renal(390;0.00145)|Lung NSC(340;0.00215)|Breast(348;0.00224)|all_lung(284;0.00351)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(227;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|Kidney(64;0.000181)|KIRC - Kidney renal clear cell carcinoma(64;0.00268)|STAD - Stomach adenocarcinoma(196;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		AGCTCAACATCGCAGTGAGTT	0.502													6	12	---	---	---	---	PASS	T	16775693	T	T	16775693	2	4	102	1	0	0	0	0	0	0	0	1	10308	874	31	2		2	NECAP2	1	16775693	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08		16775693	232474928	1	37927										
EPHA8	2046	broad.mit.edu	37	chr1	22913107	22913107	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	actaccgtgcagccctggacCcgccgtcctcagcctgcacc	9	20	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:22913107C>T	uc001bfx.1	+	4	1083	c.958C>T	c.(958-960)CCG>TCG	p.P320S	EPHA8_uc001bfw.2_Missense_Mutation_p.P320S	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	320	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		AGCCCTGGACCCGCCGTCCTC	0.677													17	24	---	---	---	---	PASS	T	22913107	T	T	22913107	3	4	102	1	0	0	0	0	1	0	0	0	5173	623	22	3	972	3	EPHA8	1	22913107	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	6137414	22913107	226337514	2	37928										
PTPRU	10076	broad.mit.edu	37	chr1	29609186	29609186	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gtacgctctcctccctgtccAgtgtgtaccaggtgattgtg	11	12	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:29609186A>T	uc001bru.2	+	12	1979	c.1869_splice	c.e12-2	p.S623_splice	PTPRU_uc001brv.2_Splice_Site_p.S623_splice|PTPRU_uc001brw.2_Splice_Site_p.S623_splice|PTPRU_uc009vtq.2_Splice_Site_p.S623_splice|PTPRU_uc009vtr.2_Splice_Site_p.S623_splice	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U						canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		CTCCCTGTCCAGTGTGTACCA	0.493													8	37	---	---	---	---	PASS	T	29609186	T	T	29609186	5	4	102	1	0	0	0	0	0	0	1	0	12813	202	7	5	1913	5	PTPRU	1	29609186	Splice_Site	SNP	A	TCGA-43-6770-01A-11D-1817-08	6696079	29609186	219641435	3	37929										
WDR63	126820	broad.mit.edu	37	chr1	85564330	85564330	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cagatatacactggttgtctGacacatttgaggtgagactt	10	7	1	4			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:85564330G>A	uc001dkt.2	+	13	1659	c.1468G>A	c.(1468-1470)GAC>AAC	p.D490N	WDR63_uc009wcl.2_Missense_Mutation_p.D451N	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	490	WD 2.									upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		CTGGTTGTCTGACACATTTGA	0.348													49	61	---	---	---	---	PASS	A	85564330	A	A	85564330	3	1	102	1	0	0	0	0	1	0	0	0	17311	1290	45	2	1514	2	WDR63	1	85564330	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	55955144	85564330	163686291	4	37930										
PALMD	54873	broad.mit.edu	37	chr1	100154844	100154844	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agaagagaagcttcacacccCgcaaaaaaggctaatgactc	8	11	1	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:100154844C>T	uc001dsg.2	+	7	1471	c.1028C>T	c.(1027-1029)CCG>CTG	p.P343L	PALMD_uc001dsf.2_Missense_Mutation_p.P343L	NM_017734	NP_060204	Q9NP74	PALMD_HUMAN	palmdelphin	343					regulation of cell shape	cytoplasm|membrane				ovary(2)|pancreas(1)	3		all_epithelial(167;0.000813)|all_lung(203;0.0214)|Lung NSC(277;0.0216)		Epithelial(280;0.067)|all cancers(265;0.117)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)		CTTCACACCCCGCAAAAAAGG	0.488													25	37	---	---	---	---	PASS	T	100154844	T	T	100154844	3	4	102	1	0	0	0	0	1	0	0	0	11411	652	23	1	1054	1	PALMD	1	100154844	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	14590514	100154844	149095777	5	37931										
RSBN1	54665	broad.mit.edu	37	chr1	114319901	114319901	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gttctcctggccttacccacAttataggcccatcatcactc	5	16	3	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:114319901A>G	uc001edq.2	-	4	1625	c.1589T>C	c.(1588-1590)ATG>ACG	p.M530T	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	530						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCTTACCCACATTATAGGCCC	0.443													47	110	---	---	---	---	PASS	G	114319901	G	G	114319901	3	3	102	1	0	0	0	0	1	0	0	0	13696	217	8	5	835	5	RSBN1	1	114319901	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	14165057	114319901	134930720	6	37932										
IGSF3	3321	broad.mit.edu	37	chr1	117131648	117131648	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tctggctagtctgagacttgActgagcagttcaactgaatg	11	8	3	4			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:117131648A>T	uc001egr.1	-	8	2813	c.2108T>A	c.(2107-2109)GTC>GAC	p.V703D	IGSF3_uc001egq.1_Missense_Mutation_p.V723D|IGSF3_uc001egs.1_Missense_Mutation_p.V376D	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	703	Ig-like C2-type 6.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		CTGAGACTTGACTGAGCAGTT	0.527													46	101	---	---	---	---	PASS	T	117131648	T	T	117131648	3	4	102	1	0	0	0	0	1	0	0	0	7601	275	10	5	1492	5	IGSF3	1	117131648	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	2811747	117131648	132118973	7	37933										
ANKRD35	148741	broad.mit.edu	37	chr1	145562900	145562900	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gttggaaaagtataatacggCctgccgggaagtgggtcggc	16	7	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:145562900C>T	uc001eob.1	+	10	2696	c.2588C>T	c.(2587-2589)GCC>GTC	p.A863V	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Missense_Mutation_p.A706V	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	863	Potential.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TATAATACGGCCTGCCGGGAA	0.677													7	19	---	---	---	---	PASS	T	145562900	T	T	145562900	3	4	102	1	0	0	0	0	1	0	0	0	664	739	26	3	2626	3	ANKRD35	1	145562900	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	28431252	145562900	103687721	8	37934										
FLG	2312	broad.mit.edu	37	chr1	152283513	152283513	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gcagacccagacaacctctcGgagtcgtctgagtgtctctc	10	14	3	3	rs150992326	byFrequency	TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:152283513G>A	uc001ezu.1	-	3	3885	c.3849C>T	c.(3847-3849)TCC>TCT	p.S1283S	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1283	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACAACCTCTCGGAGTCGTCTG	0.383									Ichthyosis				111	238	---	---	---	---	PASS	A	152283513	A	A	152283513	2	1	102	1	0	0	0	0	0	0	0	1	5922	1103	39	1		1	FLG	1	152283513	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	6720613	152283513	96967108	9	37935										
INTS3	65123	broad.mit.edu	37	chr1	153735804	153735804	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttgaccagttggatgagtccCtgagggacaaagtactccag	12	9	0	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:153735804C>T	uc009wom.2	+	17	1953	c.1732C>T	c.(1732-1734)CTG>TTG	p.L578L	INTS3_uc001fct.2_Silent_p.L578L|INTS3_uc001fcu.2_Silent_p.L270L|INTS3_uc001fcv.2_Silent_p.L372L|INTS3_uc010peb.1_Silent_p.L372L|INTS3_uc001fcw.2_Silent_p.L91L|INTS3_uc010pec.1_Silent_p.L91L	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	579					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GGATGAGTCCCTGAGGGACAA	0.512													4	176	---	---	---	---	PASS	T	153735804	T	T	153735804	2	4	102	1	0	0	0	0	0	0	0	1	7779	680	24	3		3	INTS3	1	153735804	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	1452291	153735804	95514817	10	37936										
TDRD10	126668	broad.mit.edu	37	chr1	154492811	154492811	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gtaccttctaaaggacttcaAccctcttgatgtccacaaaa	5	12	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:154492811A>G	uc009wow.2	+	5	1011	c.173A>G	c.(172-174)AAC>AGC	p.N58S	TDRD10_uc001ffd.2_Missense_Mutation_p.N58S|TDRD10_uc001ffe.2_5'Flank	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	58	RRM.						nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			AAGGACTTCAACCCTCTTGAT	0.418													28	62	---	---	---	---	PASS	G	154492811	G	G	154492811	3	3	102	1	0	0	0	0	1	0	0	0	15728	43	2	5	187	5	TDRD10	1	154492811	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	757007	154492811	94757810	11	37937										
CHRNB2	1141	broad.mit.edu	37	chr1	154544002	154544002	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tcatcattcgccgcaagccgCtcttctacaccatcaacctc	4	18	5	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:154544002C>T	uc001ffg.2	+	5	967	c.703C>T	c.(703-705)CTC>TTC	p.L235F		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	235	Helical; (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	CCGCAAGCCGCTCTTCTACAC	0.572													50	134	---	---	---	---	PASS	T	154544002	T	T	154544002	3	4	102	1	0	0	0	0	1	0	0	0	3391	797	28	3	721	3	CHRNB2	1	154544002	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	51191	154544002	94706619	12	37938										
CRABP2	1382	broad.mit.edu	37	chr1	156675204	156675204	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	attcctcgaagttttccgatCggatgattttccagttgcca	8	10	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:156675204C>T	uc001fpr.2	-	1	172	c.35G>A	c.(34-36)CGA>CAA	p.R12Q		NM_001878	NP_001869	P29373	RABP2_HUMAN	cellular retinoic acid binding protein 2	12					epidermis development|regulation of transcription, DNA-dependent|signal transduction	cytoplasm|nucleus	retinal binding|retinol binding|transporter activity			upper_aerodigestive_tract(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)				Alitretinoin(DB00523)	GTTTTCCGATCGGATGATTTT	0.577													34	86	---	---	---	---	PASS	T	156675204	T	T	156675204	3	4	102	1	0	0	0	0	1	0	0	0	3844	884	31	2	397	2	CRABP2	1	156675204	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	2131202	156675204	92575417	13	37939										
PYHIN1	149628	broad.mit.edu	37	chr1	158943530	158943530	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctctttcttctgacacttccAccaaccgccatccagcagtt	4	17	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:158943530A>T	uc001ftb.2	+	8	1698	c.1453A>T	c.(1453-1455)ACC>TCC	p.T485S	PYHIN1_uc001ftc.2_Missense_Mutation_p.T476S|PYHIN1_uc001ftd.2_Intron|PYHIN1_uc001fte.2_Intron	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	485					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					TGACACTTCCACCAACCGCCA	0.458													35	79	---	---	---	---	PASS	T	158943530	T	T	158943530	3	4	102	1	0	0	0	0	1	0	0	0	12865	159	6	5	1479	5	PYHIN1	1	158943530	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	2268326	158943530	90307091	14	37940										
PAPPA2	60676	broad.mit.edu	37	chr1	176760601	176760601	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttctgtggagtacaaatgtgAacaaggatatgggattggta	13	3	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:176760601A>T	uc001gkz.2	+	19	6167	c.5003A>T	c.(5002-5004)GAA>GTA	p.E1668V	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1668	Sushi 5.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TACAAATGTGAACAAGGATAT	0.388													17	60	---	---	---	---	PASS	T	176760601	T	T	176760601	3	4	102	1	0	0	0	0	1	0	0	0	11433	246	9	5	5126	5	PAPPA2	1	176760601	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	17817071	176760601	72490020	15	37941										
ZNF648	127665	broad.mit.edu	37	chr1	182025847	182025847	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gtctggtgctcggacagattGgaggacttggtgaagcactt	15	7	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:182025847G>A	uc001goz.2	-	2	1507	c.1299C>T	c.(1297-1299)TCC>TCT	p.S433S		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	433	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CGGACAGATTGGAGGACTTGG	0.692													3	4	---	---	---	---	PASS	A	182025847	A	A	182025847	2	1	102	1	0	0	0	0	0	0	0	1	18060	1335	47	3		3	ZNF648	1	182025847	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	5265246	182025847	67224774	16	37942										
PRG4	10216	broad.mit.edu	37	chr1	186278006	186278006	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	accaaagacgacaccaactcCccgcaagatgacatcaacaa	5	15	1	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:186278006C>G	uc001gru.3	+	7	3206	c.3155C>G	c.(3154-3156)CCC>CGC	p.P1052R	PRG4_uc001grt.3_Missense_Mutation_p.P1011R|PRG4_uc009wyl.2_Missense_Mutation_p.P959R|PRG4_uc009wym.2_Missense_Mutation_p.P918R|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	1052					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						ACACCAACTCCCCGCAAGATG	0.458													5	107	---	---	---	---	PASS	G	186278006	G	G	186278006	3	3	102	1	0	0	0	0	1	0	0	0	12481	623	22	4	3177	4	PRG4	1	186278006	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	4252159	186278006	62972615	17	37943										
CRB1	23418	broad.mit.edu	37	chr1	197403847	197403847	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tctcattaggtattgcaaatGctgtttttaatggacaaagc	8	6	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:197403847G>T	uc001gtz.2	+	9	2989	c.2854G>T	c.(2854-2856)GCT>TCT	p.A952S	CRB1_uc010poz.1_Missense_Mutation_p.A928S|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.A840S|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.A433S|CRB1_uc001gub.1_Missense_Mutation_p.A601S	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	952	Extracellular (Potential).|EGF-like 14.|Laminin G-like 3.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TATTGCAAATGCTGTTTTTAA	0.308													22	54	---	---	---	---	PASS	T	197403847	T	T	197403847	3	4	102	1	0	0	0	0	1	0	0	0	3848	1319	46	3	2888	3	CRB1	1	197403847	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	11125841	197403847	51846774	18	37944										
IGFN1	91156	broad.mit.edu	37	chr1	201196154	201196154	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gcagggctcgccccggccccAcgtcacctggttcaagaatg	12	16	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:201196154A>G	uc001gwc.2	+	12	3183	c.2411A>G	c.(2410-2412)CAC>CGC	p.H804R	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						CCCCGGCCCCACGTCACCTGG	0.677													26	64	---	---	---	---	PASS	G	201196154	G	G	201196154	3	3	102	1	0	0	0	0	1	0	0	0	7590	159	6	5	11017	5	IGFN1	1	201196154	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	3792307	201196154	48054467	19	37945										
USH2A	7399	broad.mit.edu	37	chr1	216420069	216420069	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgttgaaaattgtcaatggtCaaattgtacctgtgaggctc	10	6	2	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:216420069C>G	uc001hku.1	-	13	3054	c.2667G>C	c.(2665-2667)TTG>TTC	p.L889F	USH2A_uc001hkv.2_Missense_Mutation_p.L889F	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	889	Laminin EGF-like 7.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGTCAATGGTCAAATTGTACC	0.468										HNSCC(13;0.011)			97	142	---	---	---	---	PASS	G	216420069	G	G	216420069	3	3	102	1	0	0	0	0	1	0	0	0	17033	825	29	2	13195	2	USH2A	1	216420069	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	15223915	216420069	32830552	20	37946										
SNAP47	116841	broad.mit.edu	37	chr1	227935399	227935399	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctcttctccttcagaggcagAagaggcctggaccttggcgc	12	13	3	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr1:227935399A>G	uc001hrf.2	+	2	511	c.97A>G	c.(97-99)AAG>GAG	p.K33E	SNAP47_uc001hqz.2_5'UTR|SNAP47_uc001hra.2_Intron|SNAP47_uc001hrd.2_Missense_Mutation_p.K33E|SNAP47_uc001hre.2_Intron|SNAP47_uc001hrg.1_5'UTR	NM_053052	NP_444280	Q5SQN1	SNP47_HUMAN	synaptosomal-associated protein, 47kDa	33						endomembrane system|membrane|perinuclear region of cytoplasm				ovary(1)	1						TCAGAGGCAGAAGAGGCCTGG	0.607													24	47	---	---	---	---	PASS	G	227935399	G	G	227935399	3	3	102	1	0	0	0	0	1	0	0	0	14832	247	9	5	103	5	SNAP47	1	227935399	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	11515330	227935399	21315222	21	37947										
KCNF1	3754	broad.mit.edu	37	chr2	11053295	11053295	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cttctcgtcacccaacaagcTgcacttcgcgctgtccttca	6	17	3	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:11053295T>A	uc002rax.2	+	1	1233	c.743T>A	c.(742-744)CTG>CAG	p.L248Q		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	248	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		CCCAACAAGCTGCACTTCGCG	0.617													24	59	---	---	---	---	PASS	A	11053295	A	A	11053295	3	1	102	1	0	0	0	0	1	0	0	0	8026	1580	55	5	745	5	KCNF1	2	11053295	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08		11053295	232146078	22	37948										
APOB	338	broad.mit.edu	37	chr2	21252821	21252821	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccagtgcagtcatcttgaatCtgttccatcaggtaattagc	8	10	4	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:21252821C>T	uc002red.2	-	11	1547	c.1419G>A	c.(1417-1419)CAG>CAA	p.Q473Q		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	473	Vitellogenin.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CATCTTGAATCTGTTCCATCA	0.418													25	124	---	---	---	---	PASS	T	21252821	T	T	21252821	2	4	102	1	0	0	0	0	0	0	0	1	785	912	32	2		2	APOB	2	21252821	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	10199526	21252821	221946552	23	37949										
ATAD2B	54454	broad.mit.edu	37	chr2	24118806	24118806	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gtttggctggaggagatacgTggctatcacttaaactacca	11	8	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:24118806T>A	uc002rek.3	-	2	545	c.251A>T	c.(250-252)CAC>CTC	p.H84L	ATAD2B_uc010yki.1_RNA|ATAD2B_uc010exx.1_Missense_Mutation_p.H84L	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	84							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGGAGATACGTGGCTATCACT	0.343													29	39	---	---	---	---	PASS	A	24118806	A	A	24118806	3	1	102	1	0	0	0	0	1	0	0	0	1072	1696	59	5	4233	5	ATAD2B	2	24118806	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	2865985	24118806	219080567	24	37950										
ZNF513	130557	broad.mit.edu	37	chr2	27600640	27600640	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cggaagggcttctcgcctgtGtgccgcagcatgtgacgttt	14	11	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:27600640G>T	uc002rkk.2	-	4	1598	c.1398C>A	c.(1396-1398)CAC>CAA	p.H466Q	ZNF513_uc002rkj.2_Missense_Mutation_p.H404Q	NM_144631	NP_653232	Q8N8E2	ZN513_HUMAN	zinc finger protein 513	466	C2H2-type 7.				regulation of transcription, DNA-dependent|response to stimulus|retina development in camera-type eye|transcription, DNA-dependent|visual perception	nucleus	transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCTCGCCTGTGTGCCGCAGCA	0.587													68	194	---	---	---	---	PASS	T	27600640	T	T	27600640	3	4	102	1	0	0	0	0	1	0	0	0	17955	1368	48	3	231	3	ZNF513	2	27600640	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	3481834	27600640	215598733	25	37951										
PLB1	151056	broad.mit.edu	37	chr2	28766132	28766132	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gcctggcatctctggaatagGatggtgagtagatggggcct	16	7	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:28766132G>T	uc002rmb.1	+	14	933	c.933G>T	c.(931-933)AGG>AGT	p.R311S	PLB1_uc010ezj.1_Missense_Mutation_p.R322S	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	311	4 X 308-326 AA approximate repeats.|Extracellular (Potential).|1.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					TCTGGAATAGGATGGTGAGTA	0.627													6	16	---	---	---	---	PASS	T	28766132	T	T	28766132	3	4	102	1	0	0	0	0	1	0	0	0	12024	1165	41	2	1020	2	PLB1	2	28766132	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	1165492	28766132	214433241	26	37952										
BIRC6	57448	broad.mit.edu	37	chr2	32703790	32703790	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agctggaaagactgctgttaCttttggttggaactgacttc	11	7	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:32703790C>G	uc010ezu.2	+	36	7290	c.7156C>G	c.(7156-7158)CTT>GTT	p.L2386V		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	2386					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)					ACTGCTGTTACTTTTGGTTGG	0.433													29	132	---	---	---	---	PASS	G	32703790	G	G	32703790	3	3	102	1	0	0	0	0	1	0	0	0	1438	565	20	4	7298	4	BIRC6	2	32703790	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	3937658	32703790	210495583	27	37953										
RPIA	22934	broad.mit.edu	37	chr2	88991249	88991249	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gggcccttcagcaccctctaCgggcgggtcttggccccgct	13	17	3	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:88991249C>G	uc002ste.2	+	1	74	c.33C>G	c.(31-33)TAC>TAG	p.Y11*		NM_144563	NP_653164	P49247	RPIA_HUMAN	ribose 5-phosphate isomerase A	11					pentose-phosphate shunt, non-oxidative branch	cytosol	ribose-5-phosphate isomerase activity			ovary(1)	1		Acute lymphoblastic leukemia(2;0.000456)|all_hematologic(2;0.00287)				GCACCCTCTACGGGCGGGTCT	0.572													17	33	---	---	---	---	PASS	G	88991249	G	G	88991249	4	3	102	1	0	0	0	0	0	1	0	0	13553	547	19	4	35	4	RPIA	2	88991249	Nonsense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	56287459	88991249	154208124	28	37954										
FAM123C	205147	broad.mit.edu	37	chr2	131520797	131520797	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gaatccgtgtccacaagtgaCgagggctactatgattcctt	10	10	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:131520797C>T	uc002trw.2	+	2	1342	c.1152C>T	c.(1150-1152)GAC>GAT	p.D384D	FAM123C_uc010fmv.2_Silent_p.D384D|FAM123C_uc010fms.1_Silent_p.D384D|FAM123C_uc010fmt.1_Silent_p.D384D|FAM123C_uc010fmu.1_Silent_p.D384D	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	384										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		CCACAAGTGACGAGGGCTACT	0.627													33	47	---	---	---	---	PASS	T	131520797	T	T	131520797	2	4	102	1	0	0	0	0	0	0	0	1	5424	535	19	1		1	FAM123C	2	131520797	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	42529548	131520797	111678576	29	37955										
NCKAP5	344148	broad.mit.edu	37	chr2	133531461	133531461	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttgcaagttttcatttgcctCttttacctgcaggaagaaga	8	8	2	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:133531461C>G	uc002ttp.2	-	16	5430	c.5056G>C	c.(5056-5058)GAG>CAG	p.E1686Q	NCKAP5_uc002ttq.2_Missense_Mutation_p.E367Q	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1686							protein binding				0						TCATTTGCCTCTTTTACCTGC	0.328													11	181	---	---	---	---	PASS	G	133531461	G	G	133531461	3	3	102	1	0	0	0	0	1	0	0	0	10223	922	32	2	693	2	NCKAP5	2	133531461	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	2010664	133531461	109667912	30	37956										
LRP1B	53353	broad.mit.edu	37	chr2	141274521	141274521	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atcgcatatccaggtattcaAaatgcatcttccactaggac	6	11	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:141274521A>G	uc002tvj.1	-	50	9058	c.8086T>C	c.(8086-8088)TTG>CTG	p.L2696L		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2696	Extracellular (Potential).|LDL-receptor class A 15.				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)		CAGGTATTCAAAATGCATCTT	0.333										TSP Lung(27;0.18)			3	48	---	---	---	---	PASS	G	141274521	G	G	141274521	2	3	102	1	0	0	0	0	0	0	0	1	8955	11	1	5		5	LRP1B	2	141274521	Silent	SNP	A	TCGA-43-6770-01A-11D-1817-08	7743060	141274521	101924852	31	37957										
LRP1B	53353	broad.mit.edu	37	chr2	141533667	141533667	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aattcattagtgtgatttacCttgctgtgcttctttatcat	6	7	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:141533667C>A	uc002tvj.1	-	33	6472	c.5500G>T	c.(5500-5502)GGC>TGC	p.G1834C		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1834	Extracellular (Potential).|EGF-like 4.				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)		TGTGATTTACCTTGCTGTGCT	0.383										TSP Lung(27;0.18)			22	49	---	---	---	---	PASS	A	141533667	A	A	141533667	3	1	102	1	0	0	0	0	1	0	0	0	8955	695	24	3	8535	3	LRP1B	2	141533667	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	259146	141533667	101665706	32	37958										
DCAF17	80067	broad.mit.edu	37	chr2	172305295	172305295	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	actacgggaaaaatccttgaGaaaatatatcttgcacctta	6	8	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:172305295G>T	uc002ugx.2	+	4	655	c.426G>T	c.(424-426)GAG>GAT	p.E142D	DCAF17_uc010zdq.1_RNA|DCAF17_uc010fqf.1_Missense_Mutation_p.E142D|DCAF17_uc010zdr.1_RNA	NM_025000	NP_079276	Q5H9S7	DCA17_HUMAN	DDB1 and CUL4 associated factor 17 isoform 1	142						CUL4 RING ubiquitin ligase complex|integral to membrane|nucleolus					0						AAATCCTTGAGAAAATATATC	0.318													6	131	---	---	---	---	PASS	T	172305295	T	T	172305295	3	4	102	1	0	0	0	0	1	0	0	0	4269	933	33	2	440	2	DCAF17	2	172305295	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	30771628	172305295	70894078	33	37959										
EVX2	344191	broad.mit.edu	37	chr2	176948394	176948394	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgcgaattttccagggcctcGagcacagcattgccagccga	11	13	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:176948394G>T	uc010zeu.1	-	1	297	c.111C>A	c.(109-111)CTC>CTA	p.L37L		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	37						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		CCAGGGCCTCGAGCACAGCAT	0.597													43	74	---	---	---	---	PASS	T	176948394	T	T	176948394	2	4	102	1	0	0	0	0	0	0	0	1	5295	1045	37	2		2	EVX2	2	176948394	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	4643099	176948394	66250979	34	37960										
TTN	7273	broad.mit.edu	37	chr2	179593626	179593626	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tagcttacaaaccttgtactAaaaggaaagcataacacctc	5	10	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:179593626A>G	uc010zfg.1	-	62	15631	c.15407T>C	c.(15406-15408)TTA>TCA	p.L5136S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.L1797S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6063							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)			ACCTTGTACTAAAAGGAAAGC	0.393													15	36	---	---	---	---	PASS	G	179593626	G	G	179593626	3	3	102	1	0	0	0	0	1	0	0	0	16732	372	13	5	85582	5	TTN	2	179593626	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	2645232	179593626	63605747	35	37961										
TTN	7273	broad.mit.edu	37	chr2	179611814	179611814	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccctgggggtgtggaatatcGctctagagtctctcctgggg	15	10	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:179611814G>A	uc002unb.2	-	46	15537	c.15313C>T	c.(15313-15315)CGA>TGA	p.R5105*	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			GTGGAATATCGCTCTAGAGTC	0.493													37	88	---	---	---	---	PASS	A	179611814	A	A	179611814	4	1	102	1	0	0	0	0	0	1	0	0	16732	1095	38	1	94984	1	TTN	2	179611814	Nonsense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	18188	179611814	63587559	36	37962										
TTN	7273	broad.mit.edu	37	chr2	179635302	179635302	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	acaactccatttttgatccaCtggacacctttgacattagg	6	11	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:179635302C>G	uc010zfg.1	-	35	8441	c.8217G>C	c.(8215-8217)CAG>CAC	p.Q2739H	TTN_uc010zfh.1_Missense_Mutation_p.Q2693H|TTN_uc010zfi.1_Missense_Mutation_p.Q2693H|TTN_uc010zfj.1_Missense_Mutation_p.Q2693H|TTN_uc002unb.2_Missense_Mutation_p.Q2739H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2739							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)			TTTTGATCCACTGGACACCTT	0.413													39	90	---	---	---	---	PASS	G	179635302	G	G	179635302	3	3	102	1	0	0	0	0	1	0	0	0	16732	564	20	4	103083	4	TTN	2	179635302	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	23488	179635302	63564071	37	37963										
PDE1A	5136	broad.mit.edu	37	chr2	183066211	183066211	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gccatggtccaccgataatgCagcttccaggatttggctgg	12	11	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:183066211C>G	uc002uos.2	-	11	1212	c.1128G>C	c.(1126-1128)CTG>CTC	p.L376L	PDE1A_uc010zfp.1_Silent_p.L272L|PDE1A_uc002uoq.1_Silent_p.L376L|PDE1A_uc010zfq.1_Silent_p.L376L|PDE1A_uc002uor.2_Silent_p.L360L|PDE1A_uc002uou.2_Silent_p.L342L	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	376	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			ACCGATAATGCAGCTTCCAGG	0.473													48	85	---	---	---	---	PASS	G	183066211	G	G	183066211	2	3	102	1	0	0	0	0	0	0	0	1	11633	697	25	4		4	PDE1A	2	183066211	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	3430909	183066211	60133162	38	37964										
GLS	2744	broad.mit.edu	37	chr2	191792155	191792155	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aagcagttcgaaatacattgAgtttgatgcattcctgtggc	10	7	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:191792155A>T	uc002usf.2	+	12	1636	c.1372A>T	c.(1372-1374)AGT>TGT	p.S458C	GLS_uc002use.2_Missense_Mutation_p.S458C|GLS_uc002usg.1_Missense_Mutation_p.S119C|GLS_uc002ush.2_Missense_Mutation_p.S119C|GLS_uc010zgi.1_Missense_Mutation_p.S29C|GLS_uc010zgj.1_5'Flank	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	458					cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	AAATACATTGAGTTTGATGCA	0.428													28	72	---	---	---	---	PASS	T	191792155	T	T	191792155	3	4	102	1	0	0	0	0	1	0	0	0	6463	304	11	5	1418	5	GLS	2	191792155	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	8725944	191792155	51407218	39	37965										
SMARCAL1	50485	broad.mit.edu	37	chr2	217293404	217293404	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tttgcttctcagctcaagaaGacatctctcagtctcacgcc	6	14	5	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:217293404G>C	uc002vgc.3	+	7	1563	c.1233G>C	c.(1231-1233)AAG>AAC	p.K411N	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.K411N|SMARCAL1_uc010fvg.2_Missense_Mutation_p.K411N	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	411					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		AGCTCAAGAAGACATCTCTCA	0.537									Schimke_Immuno-Osseous_Dysplasia				41	107	---	---	---	---	PASS	C	217293404	C	C	217293404	3	2	102	1	0	0	0	0	1	0	0	0	14773	933	33	2	1251	2	SMARCAL1	2	217293404	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	25501249	217293404	25905969	40	37966										
SP100	6672	broad.mit.edu	37	chr2	231326018	231326018	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	accatggaatccaaattaatTcctgttctgtgcgactggtg	9	9	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:231326018T>C	uc002vqt.2	+	9	1003	c.862T>C	c.(862-864)TCC>CCC	p.S288P	SP100_uc002vqs.2_Missense_Mutation_p.S288P|SP100_uc002vqu.1_Missense_Mutation_p.S288P|SP100_uc010zmb.1_Missense_Mutation_p.S288P|SP100_uc002vqq.1_Missense_Mutation_p.S288P|SP100_uc002vqr.1_Missense_Mutation_p.S263P|SP100_uc010zmc.1_Missense_Mutation_p.S263P|SP100_uc002vqv.1_Missense_Mutation_p.S252P	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	288	PxVxL motif.				DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CCAAATTAATTCCTGTTCTGT	0.403													10	47	---	---	---	---	PASS	C	231326018	C	C	231326018	3	2	102	1	0	0	0	0	1	0	0	0	14960	1783	62	5	896	5	SP100	2	231326018	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	14032614	231326018	11873355	41	37967										
DGKD	8527	broad.mit.edu	37	chr2	234372821	234372821	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctggagcagcagctggatccGcctcagaaggagcagctggg	16	11	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr2:234372821G>C	uc002vui.1	+	27	3210	c.3198G>C	c.(3196-3198)CCG>CCC	p.P1066P	DGKD_uc002vuj.1_Silent_p.P1022P|DGKD_uc010fyi.1_RNA	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	1066					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	AGCTGGATCCGCCTCAGAAGG	0.677													14	45	---	---	---	---	PASS	C	234372821	C	C	234372821	2	2	102	1	0	0	0	0	0	0	0	1	4467	1074	38	4		4	DGKD	2	234372821	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	3046803	234372821	8826552	42	37968										
FBLN2	2199	broad.mit.edu	37	chr3	13671366	13671366	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ggccgcctgtgccagcacacGtgtgagaacacactcggctc	12	15	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:13671366G>A	uc011avb.1	+	13	2873	c.2748G>A	c.(2746-2748)ACG>ACA	p.T916T	FBLN2_uc011auz.1_Silent_p.T942T|FBLN2_uc011ava.1_Silent_p.T963T|FBLN2_uc011avc.1_Silent_p.T963T	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	916	EGF-like 7; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			GCCAGCACACGTGTGAGAACA	0.647													6	6	---	---	---	---	PASS	A	13671366	A	A	13671366	2	1	102	1	0	0	0	0	0	0	0	1	5699	1132	40	1		1	FBLN2	3	13671366	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08		13671366	184351064	43	37969										
FBXW12	285231	broad.mit.edu	37	chr3	48423471	48423471	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgctatgtgctcaccacatcCgagaactctgtgcacgtgta	9	12	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:48423471C>A	uc003csr.2	+	10	1377	c.1191C>A	c.(1189-1191)TCC>TCA	p.S397S	FBXW12_uc010hjv.2_Silent_p.S378S|FBXW12_uc003css.2_Silent_p.S327S|FBXW12_uc010hjw.2_Silent_p.S296S	NM_207102	NP_996985	Q6X9E4	FBW12_HUMAN	F-box and WD repeat domain containing 12 isoform	397	WD 5.										0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TCACCACATCCGAGAACTCTG	0.507													4	96	---	---	---	---	PASS	A	48423471	A	A	48423471	2	1	102	1	0	0	0	0	0	0	0	1	5765	639	23	1		1	FBXW12	3	48423471	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	34752105	48423471	149598959	44	37970										
COL7A1	1294	broad.mit.edu	37	chr3	48612666	48612666	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tccacgttctcctttctctcCccgttctccctgaaatgcaa	4	17	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:48612666C>A	uc003ctz.2	-	74	6191	c.6190G>T	c.(6190-6192)GGA>TGA	p.G2064*		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2064	Triple-helical region.		G -> R (in DDEB).		cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CCTTTCTCTCCCCGTTCTCCC	0.632													37	54	---	---	---	---	PASS	A	48612666	A	A	48612666	4	1	102	1	0	0	0	0	0	1	0	0	3704	632	22	3	2824	3	COL7A1	3	48612666	Nonsense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	189195	48612666	149409764	45	37971										
P4HTM	54681	broad.mit.edu	37	chr3	49044195	49044195	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cggcaccaagtggattgccaAcaactggattaatgtggacc	11	10	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:49044195A>G	uc003cvg.2	+	9	1713	c.1364A>G	c.(1363-1365)AAC>AGC	p.N455S	P4HTM_uc003cvh.2_Missense_Mutation_p.N516S|WDR6_uc011bbx.1_5'Flank|WDR6_uc003cvj.2_5'Flank|WDR6_uc011bby.1_5'Flank|WDR6_uc010hkn.2_5'Flank|WDR6_uc011bbz.1_5'Flank	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	455	Lumenal (Potential).|Fe2OG dioxygenase.					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|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			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	TGGATTGCCAACAACTGGATT	0.632													23	32	---	---	---	---	PASS	G	49044195	G	G	49044195	3	3	102	1	0	0	0	0	1	0	0	0	11360	43	2	5	1581	5	P4HTM	3	49044195	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	431529	49044195	148978235	46	37972										
GNAT1	2779	broad.mit.edu	37	chr3	50231296	50231296	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	catcgagacgcagttctcctTcaaggatctcaacttccggt	8	13	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:50231296T>G	uc003cym.2	+	5	676	c.560T>G	c.(559-561)TTC>TGC	p.F187C	GNAT1_uc003cyl.2_Missense_Mutation_p.F187C	NM_144499	NP_653082	P11488	GNAT1_HUMAN	rod-type transducin alpha subunit	187					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|negative regulation of cyclic-nucleotide phosphodiesterase activity|rhodopsin mediated phototransduction|sensory perception of umami taste	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	acyl binding|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GDP binding|GTP binding|GTPase activity|protein kinase binding|signal transducer activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		CAGTTCTCCTTCAAGGATCTC	0.652													28	39	---	---	---	---	PASS	G	50231296	G	G	50231296	3	3	102	1	0	0	0	0	1	0	0	0	6511	1783	62	5	578	5	GNAT1	3	50231296	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	1187101	50231296	147791134	47	37973										
KIAA2018	205717	broad.mit.edu	37	chr3	113377404	113377404	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gtttgggatgtaaattcacaCttgaatcaactattttagga	8	5	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:113377404C>G	uc003eam.2	-	7	3536	c.3125G>C	c.(3124-3126)AGT>ACT	p.S1042T	KIAA2018_uc003eal.2_Missense_Mutation_p.S986T	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1042					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						TAAATTCACACTTGAATCAAC	0.358													3	104	---	---	---	---	PASS	G	113377404	G	G	113377404	3	3	102	1	0	0	0	0	1	0	0	0	8268	565	20	4	3616	4	KIAA2018	3	113377404	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	63146108	113377404	84645026	48	37974										
ADPRH	141	broad.mit.edu	37	chr3	119301046	119301046	+	Silent	SNP	G	T	T													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tatgtggctgctatggtgctGagtgcagctggagatgccct							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:119301046G>T	uc003ecs.2	+	3	328	c.30G>T	c.(28-30)CTG>CTT	p.L10L	ADPRH_uc010hqv.2_Silent_p.L10L|ADPRH_uc011bjb.1_Intron|ADPRH_uc003ect.2_Silent_p.L10L	NM_001125	NP_001116	P54922	ADPRH_HUMAN	ADP-ribosylarginine hydrolase	10					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding			ovary(1)	1		Lung NSC(201;0.0977)		GBM - Glioblastoma multiforme(114;0.23)		CTATGGTGCTGAGTGCAGCTG	0.547													17	59	---	---	---	---	PASS	T	119301046	T	T	119301046	2	4	102	1	0	0	0	0	0	0	0	1	331	1277	45	2		2	ADPRH	3	119301046	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	5923642	119301046	78721384	49	37975	707	2								
ADPRH	141	broad.mit.edu	37	chr3	119301047	119301047	+	Missense_Mutation	SNP	A	C	C													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atgtggctgctatggtgctgAgtgcagctggagatgccctg							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:119301047A>C	uc003ecs.2	+	3	329	c.31A>C	c.(31-33)AGT>CGT	p.S11R	ADPRH_uc010hqv.2_Missense_Mutation_p.S11R|ADPRH_uc011bjb.1_Intron|ADPRH_uc003ect.2_Missense_Mutation_p.S11R	NM_001125	NP_001116	P54922	ADPRH_HUMAN	ADP-ribosylarginine hydrolase	11					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding			ovary(1)	1		Lung NSC(201;0.0977)		GBM - Glioblastoma multiforme(114;0.23)		TATGGTGCTGAGTGCAGCTGG	0.542													16	57	---	---	---	---	PASS	C	119301047	C	C	119301047	3	2	102	1	0	0	0	0	1	0	0	0	331	304	11	5	33	5	ADPRH	3	119301047	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	1	119301047	78721383	50	37976	707	2								
UROC1	131669	broad.mit.edu	37	chr3	126224833	126224833	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ggaccgatgtagcagtagctAcctgctgtcatctggccgta	12	11	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:126224833A>G	uc003eiz.1	-	7	656	c.624T>C	c.(622-624)GGT>GGC	p.G208G	UROC1_uc010hsi.1_Silent_p.G208G	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	208					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		AGCAGTAGCTACCTGCTGTCA	0.637													3	64	---	---	---	---	PASS	G	126224833	G	G	126224833	2	3	102	1	0	0	0	0	0	0	0	1	17025	378	14	5		5	UROC1	3	126224833	Silent	SNP	A	TCGA-43-6770-01A-11D-1817-08	6923786	126224833	71797597	51	37977										
PLSCR2	57047	broad.mit.edu	37	chr3	146173087	146173087	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gtggtctttccagagttatgActtctcgacccacattatca	7	11	3	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:146173087A>T	uc003evv.1	-	5	593	c.260T>A	c.(259-261)GTC>GAC	p.V87D	PLSCR2_uc003evw.1_Missense_Mutation_p.V156D	NM_020359	NP_065092	Q9NRY7	PLS2_HUMAN	phospholipid scramblase 2	87	Cytoplasmic (By similarity).				phospholipid scrambling	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity				0						CAGAGTTATGACTTCTCGACC	0.408													45	116	---	---	---	---	PASS	T	146173087	T	T	146173087	3	4	102	1	0	0	0	0	1	0	0	0	12110	275	10	5	430	5	PLSCR2	3	146173087	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	19948254	146173087	51849343	52	37978										
GPR149	344758	broad.mit.edu	37	chr3	154146767	154146767	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccgaacacagcaatcggtgaGtgagtgggactgagaggccc	15	10	0	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:154146767G>C	uc003faa.2	-	1	738	c.638C>G	c.(637-639)ACT>AGT	p.T213S		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	213	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			CAATCGGTGAGTGAGTGGGAC	0.592													61	122	---	---	---	---	PASS	C	154146767	C	C	154146767	3	2	102	1	0	0	0	0	1	0	0	0	6654	1029	36	4	1573	4	GPR149	3	154146767	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	7973680	154146767	43875663	53	37979										
C3orf33	285315	broad.mit.edu	37	chr3	155493633	155493633	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccgaagagcttgtaaattttGatgtctattgatttacaggg	10	5	1	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:155493633G>C	uc003fal.1	-	4	320	c.50C>G	c.(49-51)TCA>TGA	p.S17*	C3orf33_uc003fam.1_Nonsense_Mutation_p.S60*	NM_173657	NP_775928	Q96NB5	Q96NB5_HUMAN	hypothetical protein LOC285315	17							hydrolase activity, acting on ester bonds|nucleic acid binding				0			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TGTAAATTTTGATGTCTATTG	0.284													7	198	---	---	---	---	PASS	C	155493633	C	C	155493633	4	2	102	1	0	0	0	0	0	1	0	0	2223	1294	45	2	717	2	C3orf33	3	155493633	Nonsense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	1346866	155493633	42528797	54	37980										
GFM1	85476	broad.mit.edu	37	chr3	158371155	158371155	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	actcctgtatttttgggaagCgccttgaagaacaaaggagt	11	7	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:158371155C>A	uc003fce.2	+	7	1004	c.897C>A	c.(895-897)AGC>AGA	p.S299R	GFM1_uc003fcd.2_Missense_Mutation_p.S299R|GFM1_uc003fcf.2_RNA|GFM1_uc003fcg.2_Missense_Mutation_p.S230R	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor	299					mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			TTTTGGGAAGCGCCTTGAAGA	0.353													38	73	---	---	---	---	PASS	A	158371155	A	A	158371155	3	1	102	1	0	0	0	0	1	0	0	0	6341	767	27	1	923	1	GFM1	3	158371155	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	2877522	158371155	39651275	55	37981										
RTP1	132112	broad.mit.edu	37	chr3	186915549	186915549	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctgagccctggttggaagcaGtacctggaattgcatgcttc	12	10	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:186915549G>C	uc003frg.2	+	1	276	c.246G>C	c.(244-246)CAG>CAC	p.Q82H		NM_153708	NP_714919	P59025	RTP1_HUMAN	receptor transporting protein 1	82	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding			ovary(2)|breast(1)	3	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		GTTGGAAGCAGTACCTGGAAT	0.572													20	234	---	---	---	---	PASS	C	186915549	C	C	186915549	3	2	102	1	0	0	0	0	1	0	0	0	13733	1020	36	4	248	4	RTP1	3	186915549	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	28544394	186915549	11106881	56	37982										
MFI2	4241	broad.mit.edu	37	chr3	196754711	196754711	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cccgcttcccggaaggcctcGctcatgttgccgcacttgtg	11	16	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr3:196754711G>T	uc003fxk.3	-	2	233	c.120C>A	c.(118-120)AGC>AGA	p.S40R	MFI2_uc003fxl.3_Missense_Mutation_p.S40R|MFI2_uc011bua.1_Missense_Mutation_p.S40R	NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	40	Transferrin-like 1.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		GGAAGGCCTCGCTCATGTTGC	0.701													3	35	---	---	---	---	PASS	T	196754711	T	T	196754711	3	4	102	1	0	0	0	0	1	0	0	0	9522	1078	38	1	2357	1	MFI2	3	196754711	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	9839162	196754711	1267719	57	37983										
NKX3-2	579	broad.mit.edu	37	chr4	13544131	13544131	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tggggccaacaccgtcgtccTcggtccttgggctgcggtcg	15	14	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr4:13544131T>C	uc003gmx.2	-	2	564	c.488A>G	c.(487-489)GAG>GGG	p.E163G		NM_001189	NP_001180	P78367	NKX32_HUMAN	NK3 homeobox 2	163					negative regulation of chondrocyte differentiation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						ACCGTCGTCCTCGGTCCTTGG	0.483													3	32	---	---	---	---	PASS	C	13544131	C	C	13544131	3	2	102	1	0	0	0	0	1	0	0	0	10456	1551	54	5	517	5	NKX3-2	4	13544131	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08		13544131	177610145	58	37984										
PACRGL	133015	broad.mit.edu	37	chr4	20715163	20715163	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgaagcatctgcttacaagcGtaagtactgcaaagattaga	9	7	1	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr4:20715163G>T	uc010iek.2	+	7	1000	c.609_splice	c.e7+1	p.S203_splice	PACRGL_uc003gpu.2_Splice_Site|PACRGL_uc003gpz.2_Splice_Site_p.S203_splice|PACRGL_uc011bxm.1_Splice_Site_p.S150_splice|PACRGL_uc003gqa.2_Splice_Site_p.S105_splice|PACRGL_uc003gpx.3_Splice_Site|PACRGL_uc003gpv.2_Splice_Site_p.S203_splice|PACRGL_uc003gpw.2_Splice_Site|PACRGL_uc010iej.1_Splice_Site|PACRGL_uc011bxn.1_Splice_Site_p.S105_splice|PACRGL_uc003gpy.2_Splice_Site_p.S150_splice	NM_145048	NP_659485	Q8N7B6	PACRL_HUMAN	PARK2 co-regulated-like isoform 1								binding				0						GCTTACAAGCGTAAGTACTGC	0.368													18	44	---	---	---	---	PASS	T	20715163	T	T	20715163	5	4	102	1	0	0	0	0	0	0	1	0	11371	1159	40	1	632	1	PACRGL	4	20715163	Splice_Site	SNP	G	TCGA-43-6770-01A-11D-1817-08	7171032	20715163	170439113	59	37985										
TECRL	253017	broad.mit.edu	37	chr4	65175582	65175582	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aggtgtgtgtcctgcagaaaCtttgtgaacaaataaggttt	11	5	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr4:65175582C>G	uc003hcv.2	-	6	728	c.619G>C	c.(619-621)GTT>CTT	p.V207L	TECRL_uc003hcw.2_Missense_Mutation_p.V207L	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	207					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						CCTGCAGAAACTTTGTGAACA	0.318													57	127	---	---	---	---	PASS	G	65175582	G	G	65175582	3	3	102	1	0	0	0	0	1	0	0	0	15743	565	20	4	500	4	TECRL	4	65175582	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	44460419	65175582	125978694	60	37986										
SHROOM3	57619	broad.mit.edu	37	chr4	77676030	77676030	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aaaacagcagagtcttccaaGtttatgcagcacttctgacc	7	11	2	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr4:77676030G>T	uc011cbx.1	+	7	5347	c.4394G>T	c.(4393-4395)AGT>ATT	p.S1465I	SHROOM3_uc003hkg.2_Missense_Mutation_p.S1243I	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	1465					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			AGTCTTCCAAGTTTATGCAGC	0.562													6	110	---	---	---	---	PASS	T	77676030	T	T	77676030	3	4	102	1	0	0	0	0	1	0	0	0	14295	1029	36	3	4420	3	SHROOM3	4	77676030	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	12500448	77676030	113478246	61	37987										
GPRIN3	285513	broad.mit.edu	37	chr4	90169836	90169836	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	acttgtttcagcttgactgcAtgcactgatagaaatctggt	9	8	2	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr4:90169836A>G	uc003hsm.1	-	2	1945	c.1426T>C	c.(1426-1428)TGC>CGC	p.C476R		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	476										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		GCTTGACTGCATGCACTGATA	0.453													8	115	---	---	---	---	PASS	G	90169836	G	G	90169836	3	3	102	1	0	0	0	0	1	0	0	0	6731	217	8	5	908	5	GPRIN3	4	90169836	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	12493806	90169836	100984440	62	37988										
HSPA4L	22824	broad.mit.edu	37	chr4	128725243	128725243	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agcagtaatggaacaagctaGtaagtggaaattactggact	11	5	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr4:128725243G>T	uc003ifm.2	+	8	1238	c.985_splice	c.e8+1	p.N329_splice	HSPA4L_uc010iny.1_Splice_Site_p.N288_splice|HSPA4L_uc011cgr.1_Splice_Site_p.N296_splice	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like						protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						GAACAAGCTAGTAAGTGGAAA	0.328													18	72	---	---	---	---	PASS	T	128725243	T	T	128725243	5	4	102	1	0	0	0	0	0	0	1	0	7413	1043	36	3	1016	3	HSPA4L	4	128725243	Splice_Site	SNP	G	TCGA-43-6770-01A-11D-1817-08	38555407	128725243	62429033	63	37989										
KIAA0922	23240	broad.mit.edu	37	chr4	154523864	154523864	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ggagtcattttggaggctcaCggtcttctttgtcaggtaaa	12	7	5	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr4:154523864C>T	uc003inm.3	+	23	2673	c.2621C>T	c.(2620-2622)ACG>ATG	p.T874M	KIAA0922_uc010ipp.2_Missense_Mutation_p.T875M|KIAA0922_uc010ipq.2_Missense_Mutation_p.T643M	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	874	Helical; (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				TGGAGGCTCACGGTCTTCTTT	0.512													13	207	---	---	---	---	PASS	T	154523864	T	T	154523864	3	4	102	1	0	0	0	0	1	0	0	0	8201	536	19	1	2714	1	KIAA0922	4	154523864	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	25798621	154523864	36630412	64	37990										
DCHS2	54798	broad.mit.edu	37	chr4	155155906	155155906	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cggaggcacctgccccaggtTtactgccggcattcttggtg	13	13	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr4:155155906T>G	uc003inw.2	-	25	8533	c.8533A>C	c.(8533-8535)AAC>CAC	p.N2845H		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2845					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TGCCCCAGGTTTACTGCCGGC	0.502													69	131	---	---	---	---	PASS	G	155155906	G	G	155155906	3	3	102	1	0	0	0	0	1	0	0	0	4288	1841	64	5	221	5	DCHS2	4	155155906	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	632042	155155906	35998370	65	37991										
TKTL2	84076	broad.mit.edu	37	chr4	164393737	164393737	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agcaaaagcaatggttcgacCacgtgtagcacagcctagtg	11	10	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr4:164393737C>A	uc003iqp.3	-	1	1311	c.1150G>T	c.(1150-1152)GGT>TGT	p.G384C		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	384						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				ATGGTTCGACCACGTGTAGCA	0.433													19	67	---	---	---	---	PASS	A	164393737	A	A	164393737	3	1	102	1	0	0	0	0	1	0	0	0	15933	594	21	3	734	3	TKTL2	4	164393737	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	9237831	164393737	26760539	66	37992										
TKTL2	84076	broad.mit.edu	37	chr4	164394531	164394531	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gggaccctgttgccacgtcaAcaaacggcaatcggggggta	14	11	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr4:164394531A>G	uc003iqp.3	-	1	517	c.356T>C	c.(355-357)GTT>GCT	p.V119A		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	119						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TGCCACGTCAACAAACGGCAA	0.542													18	47	---	---	---	---	PASS	G	164394531	G	G	164394531	3	3	102	1	0	0	0	0	1	0	0	0	15933	43	2	5	1528	5	TKTL2	4	164394531	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	794	164394531	26759745	67	37993										
GHR	2690	broad.mit.edu	37	chr5	42695031	42695031	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cattttaggaacactcaagaAtggactcaagaatggaaaga	9	6	2	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr5:42695031A>G	uc003jmt.2	+	5	322	c.279A>G	c.(277-279)GAA>GAG	p.E93E	GHR_uc011cpq.1_5'UTR	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	93	Extracellular (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	ACactcaagaatggactcaag	0.303													10	23	---	---	---	---	PASS	G	42695031	G	G	42695031	2	3	102	1	0	0	0	0	0	0	0	1	6371	98	4	5		5	GHR	5	42695031	Silent	SNP	A	TCGA-43-6770-01A-11D-1817-08		42695031	138220229	68	37994										
PARP8	79668	broad.mit.edu	37	chr5	50137846	50137846	+	Missense_Mutation	SNP	G	A	A													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	caaatattaatacacaagaaGgaggcattcacaaagagatc							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr5:50137846G>A	uc003jon.3	+	27	2691	c.2509G>A	c.(2509-2511)GGA>AGA	p.G837R	PARP8_uc011cpz.1_Missense_Mutation_p.G729R|PARP8_uc003joo.2_Missense_Mutation_p.G837R|PARP8_uc003jop.2_Missense_Mutation_p.G795R	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	837	PARP catalytic.					intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				TACACAAGAAGGAGGCATTCA	0.358													19	79	---	---	---	---	PASS	A	50137846	A	A	50137846	3	1	102	1	0	0	0	0	1	0	0	0	11465	1001	35	3	2611	3	PARP8	5	50137846	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	7442815	50137846	130777414	69	37995	708	2								
PARP8	79668	broad.mit.edu	37	chr5	50137849	50137849	+	Missense_Mutation	SNP	G	C	C													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atattaatacacaagaaggaGgcattcacaaagagatcctc							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr5:50137849G>C	uc003jon.3	+	27	2694	c.2512G>C	c.(2512-2514)GGC>CGC	p.G838R	PARP8_uc011cpz.1_Missense_Mutation_p.G730R|PARP8_uc003joo.2_Missense_Mutation_p.G838R|PARP8_uc003jop.2_Missense_Mutation_p.G796R	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	838	PARP catalytic.					intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				ACAAGAAGGAGGCATTCACAA	0.363													19	74	---	---	---	---	PASS	C	50137849	C	C	50137849	3	2	102	1	0	0	0	0	1	0	0	0	11465	1000	35	4	2614	4	PARP8	5	50137849	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	3	50137849	130777411	70	37996	708	2								
TMEM161B	153396	broad.mit.edu	37	chr5	87493533	87493533	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gaagcagcattaccagaggcGccacatactgcagtgcaatg	11	11	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr5:87493533G>A	uc003kjc.2	-	11	1264	c.1139C>T	c.(1138-1140)GCG>GTG	p.A380V	TMEM161B_uc011cty.1_Missense_Mutation_p.A369V|TMEM161B_uc010jax.2_RNA|TMEM161B_uc011ctx.1_Missense_Mutation_p.A171V	NM_153354	NP_699185	Q8NDZ6	T161B_HUMAN	transmembrane protein 161B	380	Helical; (Potential).					integral to membrane				skin(2)	2		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)		TACCAGAGGCGCCACATACTG	0.418													9	115	---	---	---	---	PASS	A	87493533	A	A	87493533	3	1	102	1	0	0	0	0	1	0	0	0	16074	1087	38	1	332	1	TMEM161B	5	87493533	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	37355684	87493533	93421727	71	37997										
PAM	5066	broad.mit.edu	37	chr5	102295636	102295636	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atgtattacatggaagccaaGcatgcagtttctttcatgac	8	8	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr5:102295636G>T	uc003knw.2	+	12	1336	c.963G>T	c.(961-963)AAG>AAT	p.K321N	PAM_uc003kns.2_Missense_Mutation_p.K321N|PAM_uc003knt.2_Missense_Mutation_p.K321N|PAM_uc003knu.2_Missense_Mutation_p.K321N|PAM_uc003knv.2_Missense_Mutation_p.K321N|PAM_uc011cuz.1_Missense_Mutation_p.K224N|PAM_uc003knx.1_Missense_Mutation_p.K13N	NM_000919	NP_000910	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	321	Peptidylglycine alpha-hydroxylating monooxygenase (By similarity).|Intragranular (Potential).				peptide metabolic process|protein modification process	extracellular region|integral to membrane|stored secretory granule	L-ascorbic acid binding|peptidylamidoglycolate lyase activity|peptidylglycine monooxygenase activity|protein binding				0		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	TGGAAGCCAAGCATGCAGTTT	0.393													22	24	---	---	---	---	PASS	T	102295636	T	T	102295636	3	4	102	1	0	0	0	0	1	0	0	0	11412	962	34	3	1009	3	PAM	5	102295636	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	14802103	102295636	78619624	72	37998										
PRR16	51334	broad.mit.edu	37	chr5	119800226	119800226	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccctcctcgtcctgtccagcCgagggaccgccggcagcctc	11	20	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr5:119800226C>A	uc003ksq.2	+	1	208	c.45C>A	c.(43-45)GCC>GCA	p.A15A	PRR16_uc003ksp.2_5'UTR	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16	15										pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		CCTGTCCAGCCGAGGGACCGC	0.612													4	8	---	---	---	---	PASS	A	119800226	A	A	119800226	2	1	102	1	0	0	0	0	0	0	0	1	12589	667	23	1		1	PRR16	5	119800226	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	17504590	119800226	61115034	73	37999										
DPYSL3	1809	broad.mit.edu	37	chr5	146777324	146777324	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ggtcacgtgcaggttgccatCttccagcatgatcttgccct	10	13	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr5:146777324C>T	uc003lon.1	-	12	1476	c.1366G>A	c.(1366-1368)GAT>AAT	p.D456N	DPYSL3_uc003loo.2_Missense_Mutation_p.D570N	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	456					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGTTGCCATCTTCCAGCATG	0.577													58	24	---	---	---	---	PASS	T	146777324	T	T	146777324	3	4	102	1	0	0	0	0	1	0	0	0	4748	913	32	2	358	2	DPYSL3	5	146777324	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	26977098	146777324	34137936	74	38000										
ADAM19	8728	broad.mit.edu	37	chr5	156936311	156936311	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tggaaaaaggctatttacgtGattaattgggcgttgtcatg	12	4	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr5:156936311G>T	uc003lwz.2	-	9	967	c.903C>A	c.(901-903)ATC>ATA	p.I301I	ADAM19_uc003lww.1_Silent_p.I34I|ADAM19_uc011ddr.1_Silent_p.I232I	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	301	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTATTTACGTGATTAATTGGG	0.493													21	18	---	---	---	---	PASS	T	156936311	T	T	156936311	2	4	102	1	0	0	0	0	0	0	0	1	240	1280	45	2		2	ADAM19	5	156936311	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	10158987	156936311	23978949	75	38001										
CDHR2	54825	broad.mit.edu	37	chr5	176011425	176011425	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccacaggagtgctagtgggcGtggtgaaggcctgggacgcg	19	9	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr5:176011425G>A	uc003mem.1	+	19	2209	c.2143G>A	c.(2143-2145)GTG>ATG	p.V715M	CDHR2_uc003men.1_Missense_Mutation_p.V715M	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	715	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GCTAGTGGGCGTGGTGAAGGC	0.612													66	60	---	---	---	---	PASS	A	176011425	A	A	176011425	3	1	102	1	0	0	0	0	1	0	0	0	3119	1145	40	1	2213	1	CDHR2	5	176011425	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	19075114	176011425	4903835	76	38002										
SERPINB6	5269	broad.mit.edu	37	chr6	2954829	2954829	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	taacaatacattttcaccttCtgtcttttcagctacccagg	4	12	4	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr6:2954829C>A	uc003muk.2	-	3	2422	c.427G>T	c.(427-429)GAA>TAA	p.E143*	SERPINB6_uc003mui.2_Nonsense_Mutation_p.E26*|SERPINB6_uc003muj.2_RNA|SERPINB6_uc003mul.2_Nonsense_Mutation_p.E143*|SERPINB6_uc003mum.2_Nonsense_Mutation_p.E143*|SERPINB6_uc003mun.2_Nonsense_Mutation_p.E143*|SERPINB6_uc003muo.2_Nonsense_Mutation_p.E143*	NM_004568	NP_004559	P35237	SPB6_HUMAN	serine (or cysteine) proteinase inhibitor, clade	143					regulation of proteolysis	centrosome|cytosol|protein complex	protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Drotrecogin alfa(DB00055)	TTTTCACCTTCTGTCTTTTCA	0.373													7	72	---	---	---	---	PASS	A	2954829	A	A	2954829	4	1	102	1	0	0	0	0	0	1	0	0	14105	922	32	2	719	2	SERPINB6	6	2954829	Nonsense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08		2954829	168160238	77	38003										
HIST1H3E	8353	broad.mit.edu	37	chr6	26225532	26225532	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cctggcaccgtggctctgcgCgagatccgtcgctaccagaa	12	15	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr6:26225532C>G	uc003nhb.2	+	2	510	c.150C>G	c.(148-150)CGC>CGG	p.R50R	HIST1H3E_uc003nhc.3_Silent_p.R50R	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	50					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.0223)|Acute lymphoblastic leukemia(11;0.0351)				TGGCTCTGCGCGAGATCCGTC	0.632													6	82	---	---	---	---	PASS	G	26225532	G	G	26225532	2	3	102	1	0	0	0	0	0	0	0	1	7159	755	27	4		4	HIST1H3E	6	26225532	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	23270703	26225532	144889535	78	38004										
HSP90AB1	3326	broad.mit.edu	37	chr6	44216403	44216403	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	accatggagaggaggaggtgGagacttttgcctttcaggca	15	7	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr6:44216403G>C	uc003oxa.1	+	2	121	c.37G>C	c.(37-39)GAG>CAG	p.E13Q	HSP90AB1_uc011dvr.1_Missense_Mutation_p.E13Q|HSP90AB1_uc003oxb.1_Missense_Mutation_p.E13Q|HSP90AB1_uc011dvs.1_5'UTR|HSP90AB1_uc003oxc.1_5'Flank	NM_007355	NP_031381	P08238	HS90B_HUMAN	heat shock 90kDa protein 1, beta	13					axon guidance|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of nitric oxide biosynthetic process|protein folding|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to unfolded protein	cytosol|melanosome	ATP binding|nitric-oxide synthase regulator activity|TPR domain binding|unfolded protein binding			lung(3)|breast(1)	4	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GGAGGAGGTGGAGACTTTTGC	0.408													7	149	---	---	---	---	PASS	C	44216403	C	C	44216403	3	2	102	1	0	0	0	0	1	0	0	0	7402	1175	41	2	39	2	HSP90AB1	6	44216403	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	17990871	44216403	126898664	79	38005										
OPN5	221391	broad.mit.edu	37	chr6	47763175	47763175	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cttcttctgcctcttgctccCaacggctgtgatcgtgttct	8	14	4	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr6:47763175C>A	uc003ozc.2	+	4	637	c.632C>A	c.(631-633)CCA>CAA	p.P211Q	OPN5_uc003ozd.2_Missense_Mutation_p.P46Q	NM_181744	NP_859528	Q6U736	OPN5_HUMAN	opsin 5 isoform 1	211	Helical; Name=5; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1						CTCTTGCTCCCAACGGCTGTG	0.542													42	108	---	---	---	---	PASS	A	47763175	A	A	47763175	3	1	102	1	0	0	0	0	1	0	0	0	10883	594	21	3	646	3	OPN5	6	47763175	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	3546772	47763175	123351892	80	38006										
RIMS1	22999	broad.mit.edu	37	chr6	72967967	72967967	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aagccgcgttcacgtttaccAaatgtgccattacagaggta	9	10	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr6:72967967A>T	uc003pga.2	+	17	2987	c.2910A>T	c.(2908-2910)CCA>CCT	p.P970P	RIMS1_uc011dyb.1_Silent_p.P595P|RIMS1_uc003pgc.2_Silent_p.P596P|RIMS1_uc010kaq.2_Silent_p.P443P|RIMS1_uc011dyc.1_Silent_p.P444P|RIMS1_uc010kar.2_Silent_p.P363P|RIMS1_uc011dyd.1_Silent_p.P429P|RIMS1_uc003pgf.2_Silent_p.P186P|RIMS1_uc003pgg.2_Silent_p.P187P|RIMS1_uc003pgi.2_Silent_p.P186P|RIMS1_uc003pgh.2_Silent_p.P186P|RIMS1_uc003pgd.2_Silent_p.P187P|RIMS1_uc003pge.2_Silent_p.P187P|RIMS1_uc011dye.1_5'UTR|RIMS1_uc011dyf.1_5'Flank|RIMS1_uc003pgb.3_Silent_p.P596P|RIMS1_uc010kas.1_Silent_p.P429P	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	970					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)				CACGTTTACCAAATGTGCCAT	0.433													17	47	---	---	---	---	PASS	T	72967967	T	T	72967967	2	4	102	1	0	0	0	0	0	0	0	1	13367	117	5	5		5	RIMS1	6	72967967	Silent	SNP	A	TCGA-43-6770-01A-11D-1817-08	25204792	72967967	98147100	81	38007										
LAMA2	3908	broad.mit.edu	37	chr6	129609117	129609117	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cttgtctggctcctgtctgaTatgtaaaccaggtacaacag	9	10	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr6:129609117T>C	uc003qbn.2	+	19	2768	c.2663T>C	c.(2662-2664)ATA>ACA	p.I888T	LAMA2_uc003qbo.2_Missense_Mutation_p.I888T	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	888	Laminin EGF-like 8.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TCCTGTCTGATATGTAAACCA	0.502													84	209	---	---	---	---	PASS	C	129609117	C	C	129609117	3	2	102	1	0	0	0	0	1	0	0	0	8606	1406	49	5	2737	5	LAMA2	6	129609117	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	56641150	129609117	41505950	82	38008										
LAMA2	3908	broad.mit.edu	37	chr6	129833550	129833550	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ggaccttcttgtagaatttgAattccgcacaactacaacga	7	10	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr6:129833550A>C	uc003qbn.2	+	62	9005	c.8900A>C	c.(8899-8901)GAA>GCA	p.E2967A	LAMA2_uc003qbo.2_Missense_Mutation_p.E2963A|uc003qbq.2_Intron	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2967	Laminin G-like 5.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GTAGAATTTGAATTCCGCACA	0.368													5	91	---	---	---	---	PASS	C	129833550	C	C	129833550	3	2	102	1	0	0	0	0	1	0	0	0	8606	246	9	5	9150	5	LAMA2	6	129833550	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	224433	129833550	41281517	83	38009										
SASH1	23328	broad.mit.edu	37	chr6	148855979	148855979	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttggatgagttaaatatcagGgacccggaacacagagctgt	12	7	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr6:148855979G>A	uc003qme.1	+	16	2512	c.2037G>A	c.(2035-2037)AGG>AGA	p.R679R	SASH1_uc011eeb.1_Silent_p.R440R|SASH1_uc003qmf.1_Silent_p.R89R	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	679	SAM 1.						protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		TAAATATCAGGGACCCGGAAC	0.483													7	75	---	---	---	---	PASS	A	148855979	A	A	148855979	2	1	102	1	0	0	0	0	0	0	0	1	13848	1223	43	3		3	SASH1	6	148855979	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	19022429	148855979	22259088	84	38010										
OPRM1	4988	broad.mit.edu	37	chr6	154360850	154360850	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gacctgggcgggagagacagCctgtgccctccgaccggcag	16	14	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr6:154360850C>G	uc003qpr.2	+	1	408	c.171C>G	c.(169-171)AGC>AGG	p.S57R	OPRM1_uc011efb.1_Missense_Mutation_p.S105R|OPRM1_uc011efc.1_Intron|OPRM1_uc011efd.1_Intron|OPRM1_uc011efe.1_Missense_Mutation_p.S150R|OPRM1_uc003qpn.2_Missense_Mutation_p.S57R|OPRM1_uc003qpo.1_Missense_Mutation_p.S57R|OPRM1_uc011eff.1_Missense_Mutation_p.S57R|OPRM1_uc011efg.1_Missense_Mutation_p.S57R|OPRM1_uc011efh.1_Missense_Mutation_p.S57R|OPRM1_uc003qpq.1_Missense_Mutation_p.S57R|OPRM1_uc003qpt.1_Missense_Mutation_p.S57R|OPRM1_uc011efi.1_Missense_Mutation_p.S57R|OPRM1_uc003qpp.2_RNA|OPRM1_uc003qps.2_RNA	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	57	Extracellular (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	GGAGAGACAGCCTGTGCCCTC	0.637													31	30	---	---	---	---	PASS	G	154360850	G	G	154360850	3	3	102	1	0	0	0	0	1	0	0	0	10887	738	26	4	507	4	OPRM1	6	154360850	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	5504871	154360850	16754217	85	38011										
SLC22A1	6580	broad.mit.edu	37	chr6	160553345	160553345	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atggccttctcgcccaactaCatgtccatgctgctcttccg	7	16	2	0	rs151091788	byFrequency	TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr6:160553345C>G	uc003qtc.2	+	3	702	c.597C>G	c.(595-597)TAC>TAG	p.Y199*	SLC22A1_uc003qtd.2_Nonsense_Mutation_p.Y199*	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	199	Extracellular (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		CGCCCAACTACATGTCCATGC	0.577													5	118	---	---	---	---	PASS	G	160553345	G	G	160553345	4	3	102	1	0	0	0	0	0	1	0	0	14440	489	17	4	607	4	SLC22A1	6	160553345	Nonsense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	6192495	160553345	10561722	86	38012										
PACRG	135138	broad.mit.edu	37	chr6	163483206	163483206	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aaattgagaagctggattacCatcattatctgcctctgttt	7	8	3	1	rs143858923		TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr6:163483206C>T	uc003qua.2	+	4	540	c.316C>T	c.(316-318)CAT>TAT	p.H106Y	PACRG_uc003qub.2_Missense_Mutation_p.H106Y|PACRG_uc003quc.2_Missense_Mutation_p.H106Y	NM_152410	NP_689623	Q96M98	PACRG_HUMAN	parkin co-regulated gene protein isoform 1	106											0		Breast(66;2.41e-05)|Ovarian(120;0.0245)|Prostate(117;0.0273)|all_neural(5;0.0416)|Glioma(2;0.203)		OV - Ovarian serous cystadenocarcinoma(33;4.31e-19)|GBM - Glioblastoma multiforme(2;7.42e-11)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)|KIRC - Kidney renal clear cell carcinoma(3;0.205)|Kidney(3;0.242)		GCTGGATTACCATCATTATCT	0.453													26	64	---	---	---	---	PASS	T	163483206	T	T	163483206	3	4	102	1	0	0	0	0	1	0	0	0	11370	594	21	3	326	3	PACRG	6	163483206	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	2929861	163483206	7631861	87	38013										
WDR27	253769	broad.mit.edu	37	chr6	170068228	170068228	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aggaaggtcggtggtgggacTttgtggcggttattaacatc	16	5	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr6:170068228T>G	uc003qwx.2	-	5	1030	c.510A>C	c.(508-510)AAA>AAC	p.K170N	WDR27_uc010kkw.1_Missense_Mutation_p.K170N|WDR27_uc003qwy.2_Intron|WDR27_uc011egw.1_Intron			A2RRH5	WDR27_HUMAN	RecName: Full=WD repeat-containing protein 27;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										pancreas(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.216)		OV - Ovarian serous cystadenocarcinoma(33;6.48e-20)|BRCA - Breast invasive adenocarcinoma(81;3.56e-07)|GBM - Glioblastoma multiforme(31;0.00168)		GTGGTGGGACTTTGTGGCGGT	0.507													32	43	---	---	---	---	PASS	G	170068228	G	G	170068228	3	3	102	1	0	0	0	0	1	0	0	0	17281	1606	56	5	2147	5	WDR27	6	170068228	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	6585022	170068228	1046839	88	38014										
SDK1	221935	broad.mit.edu	37	chr7	3991545	3991545	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agggcgacggcctttcttttCatcataggtaatgcgggagc	13	9	3	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr7:3991545C>G	uc003smx.2	+	7	1282	c.1143C>G	c.(1141-1143)TTC>TTG	p.F381L		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	381					cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CCTTTCTTTTCATCATAGGTA	0.577													27	42	---	---	---	---	PASS	G	3991545	G	G	3991545	3	3	102	1	0	0	0	0	1	0	0	0	13968	825	29	2	1169	2	SDK1	7	3991545	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08		3991545	155147118	89	38015										
ZNF479	90827	broad.mit.edu	37	chr7	57200012	57200012	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccatttctcggcttccagggGgtcctggtcttttagccata	10	12	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr7:57200012G>T	uc010kzo.2	-	2	291	c.20C>A	c.(19-21)CCC>CAC	p.P7H		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	7					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			GCTTCCAGGGGGTCCTGGTCT	0.557													21	59	---	---	---	---	PASS	T	57200012	T	T	57200012	3	4	102	1	0	0	0	0	1	0	0	0	17930	1232	43	3	1570	3	ZNF479	7	57200012	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	53208467	57200012	101938651	90	38016										
PEX1	5189	broad.mit.edu	37	chr7	92146842	92146842	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	actagctttccatatgtcacAgtaaagctgggctctacatc	7	11	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr7:92146842A>C	uc003uly.2	-	5	1083	c.987T>G	c.(985-987)ACT>ACG	p.T329T	PEX1_uc011khr.1_Silent_p.T121T|PEX1_uc010ley.2_Silent_p.T329T|PEX1_uc011khs.1_Intron|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	329					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			CATATGTCACAGTAAAGCTGG	0.378													10	59	---	---	---	---	PASS	C	92146842	C	C	92146842	2	2	102	1	0	0	0	0	0	0	0	1	11735	175	7	5		5	PEX1	7	92146842	Silent	SNP	A	TCGA-43-6770-01A-11D-1817-08	34946830	92146842	66991821	91	38017										
GAL3ST4	79690	broad.mit.edu	37	chr7	99757893	99757893	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cgtgcccagagactgcggttGaagtggacatagagagccca	14	10	0	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr7:99757893G>A	uc003utt.2	-	3	2136	c.1119C>T	c.(1117-1119)TTC>TTT	p.F373F	C7orf43_uc011kjj.1_5'Flank|C7orf43_uc003utr.2_5'Flank|C7orf43_uc003uts.2_5'Flank|GAL3ST4_uc003utu.2_Silent_p.F373F|GAL3ST4_uc010lgq.2_Silent_p.F311F	NM_024637	NP_078913	Q96RP7	G3ST4_HUMAN	galactose-3-O-sulfotransferase 4	373	Lumenal (Potential).				cell-cell signaling|oligosaccharide metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane|membrane fraction	3'-phosphoadenosine 5'-phosphosulfate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(3)	3	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GACTGCGGTTGAAGTGGACAT	0.627													5	131	---	---	---	---	PASS	A	99757893	A	A	99757893	2	1	102	1	0	0	0	0	0	0	0	1	6200	1281	45	2		2	GAL3ST4	7	99757893	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	7611051	99757893	59380770	92	38018										
MUC17	140453	broad.mit.edu	37	chr7	100696357	100696357	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tacggcctcgtgggggcaggGgtcgtgctgatgctgatcat	17	9	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr7:100696357G>T	uc003uxp.1	+	10	13247	c.13194G>T	c.(13192-13194)GGG>GGT	p.G4398G	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	4398	Helical; (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TGGGGGCAGGGGTCGTGCTGA	0.597													10	55	---	---	---	---	PASS	T	100696357	T	T	100696357	2	4	102	1	0	0	0	0	0	0	0	1	9974	1219	43	3		3	MUC17	7	100696357	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	938464	100696357	58442306	93	38019										
ORC5L	5001	broad.mit.edu	37	chr7	103824482	103824482	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gcgagtatcacgttcacttgCtaccccaaagggaagaaaat	9	10	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr7:103824482C>A	uc003vcb.2	-	8	845	c.734_splice	c.e8-1	p.A245_splice	ORC5L_uc011klp.1_Splice_Site_p.A113_splice|ORC5L_uc003vcc.2_Splice_Site_p.A245_splice	NM_002553	NP_002544	O43913	ORC5_HUMAN	origin recognition complex subunit 5 isoform 1						cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	cytoplasm|nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|identical protein binding				0						CGTTCACTTGCTACCCCAAAG	0.318													5	108	---	---	---	---	PASS	A	103824482	A	A	103824482	5	1	102	1	0	0	0	0	0	0	1	0	11265	811	28	3	700	3	ORC5L	7	103824482	Splice_Site	SNP	C	TCGA-43-6770-01A-11D-1817-08	3128125	103824482	55314181	94	38020										
SSPO	23145	broad.mit.edu	37	chr7	149515170	149515170	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gtggtcagggctgccgtgggCcccgccaggacctcgagtaa	16	13	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr7:149515170C>T	uc010lpk.2	+	81	11560	c.11560C>T	c.(11560-11562)CCC>TCC	p.P3854S		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3854	TSP type-1 16.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CTGCCGTGGGCCCCGCCAGGA	0.642													9	12	---	---	---	---	PASS	T	149515170	T	T	149515170	3	4	102	1	0	0	0	0	1	0	0	0	15188	739	26	3	11872	3	SSPO	7	149515170	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	45690688	149515170	9623493	95	38021										
ATG9B	285973	broad.mit.edu	37	chr7	150720201	150720201	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgctgtggaacggcccaggtCtggtatggttacttggttgg	16	7	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr7:150720201C>G	uc011kvc.1	-	4	828	c.752G>C	c.(751-753)AGA>ACA	p.R251T	ATG9B_uc003wig.3_RNA	NM_173681	NP_775952	Q674R7	ATG9B_HUMAN	ATG9 autophagy related 9 homolog B	251	Lumenal (By similarity).				autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane				ovary(1)	1	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGGCCCAGGTCTGGTATGGTT	0.527													46	287	---	---	---	---	PASS	G	150720201	G	G	150720201	3	3	102	1	0	0	0	0	1	0	0	0	1103	913	32	2	2061	2	ATG9B	7	150720201	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	1205031	150720201	8418462	96	38022										
CNPY1	285888	broad.mit.edu	37	chr7	155301727	155301727	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tcttcctcaagcttgtagtcGttcattcgctcacagacttt	6	12	4	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr7:155301727G>A	uc003wmc.1	-	2	151	c.6C>T	c.(4-6)AAC>AAT	p.N2N		NM_001103176	NP_001096646	Q3B7I2	CNPY1_HUMAN	canopy 1 homolog	2											0	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		GCTTGTAGTCGTTCATTCGCT	0.438													50	66	---	---	---	---	PASS	A	155301727	A	A	155301727	2	1	102	1	0	0	0	0	0	0	0	1	3627	1136	40	1		1	CNPY1	7	155301727	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	4581526	155301727	3836936	97	38023										
SGK223	157285	broad.mit.edu	37	chr8	8234654	8234654	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cctgtgacttggaaggcaccGgagctgccttcttcctcttg	11	13	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:8234654G>A	uc003wsh.3	-	2	1265	c.1265C>T	c.(1264-1266)CCG>CTG	p.P422L		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	422							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GGAAGGCACCGGAGCTGCCTT	0.627													3	61	---	---	---	---	PASS	A	8234654	A	A	8234654	3	1	102	1	0	0	0	0	1	0	0	0	14210	1116	39	1	2959	1	SGK223	8	8234654	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08		8234654	138129368	98	38024										
PXDNL	137902	broad.mit.edu	37	chr8	52321350	52321350	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ggctctcctgctcctgtcgcGcgcactcggtgggtgggcct	15	15	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:52321350G>A	uc003xqu.3	-	17	2935	c.2834C>T	c.(2833-2835)GCG>GTG	p.A945V	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	945					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CTCCTGTCGCGCGCACTCGGT	0.652													5	22	---	---	---	---	PASS	A	52321350	A	A	52321350	3	1	102	1	0	0	0	0	1	0	0	0	12848	1087	38	1	1585	1	PXDNL	8	52321350	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	44086696	52321350	94042672	99	38025										
NSMAF	8439	broad.mit.edu	37	chr8	59502566	59502566	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cagggtgcacagatacatacAcattattatcccatgaagaa	7	9	0	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:59502566A>G	uc003xtt.2	-	25	2301	c.2087T>C	c.(2086-2088)GTC>GCC	p.V696A	NSMAF_uc011lee.1_Missense_Mutation_p.V727A	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	696	WD 2.				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)				AGATACATACACATTATTATC	0.428													15	31	---	---	---	---	PASS	G	59502566	G	G	59502566	3	3	102	1	0	0	0	0	1	0	0	0	10674	173	6	5	694	5	NSMAF	8	59502566	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	7181216	59502566	86861456	100	38026										
PREX2	80243	broad.mit.edu	37	chr8	69069635	69069635	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agctcagataaatgcagcctCactggaaaaggtcaaacagt	9	9	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:69069635C>T	uc003xxv.1	+	35	4337	c.4310C>T	c.(4309-4311)TCA>TTA	p.S1437L		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1437					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						AATGCAGCCTCACTGGAAAAG	0.343													11	38	---	---	---	---	PASS	T	69069635	T	T	69069635	3	4	102	1	0	0	0	0	1	0	0	0	12477	838	29	2	4677	2	PREX2	8	69069635	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	9567069	69069635	77294387	101	38027										
EYA1	2138	broad.mit.edu	37	chr8	72184094	72184094	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	caatcgatcagaatctgaatCtttaatgggtgttgatgggc	11	6	3	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:72184094C>G	uc003xys.3	-	9	1152	c.865G>C	c.(865-867)GAT>CAT	p.D289H	EYA1_uc003xyr.3_Missense_Mutation_p.D284H|EYA1_uc003xyt.3_Missense_Mutation_p.D256H|EYA1_uc010lzf.2_Missense_Mutation_p.D216H|EYA1_uc003xyu.2_Missense_Mutation_p.D289H|EYA1_uc011lfe.1_Missense_Mutation_p.D283H|EYA1_uc003xyv.2_Missense_Mutation_p.D167H	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	289					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			GAATCTGAATCTTTAATGGGT	0.458													14	331	---	---	---	---	PASS	G	72184094	G	G	72184094	3	3	102	1	0	0	0	0	1	0	0	0	5328	913	32	2	949	2	EYA1	8	72184094	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	3114459	72184094	74179928	102	38028										
TRPA1	8989	broad.mit.edu	37	chr8	72938268	72938268	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gatccactttgcgtagaaacCaaagtggcagcttcttctct	8	11	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:72938268C>G	uc003xza.2	-	25	3153	c.2978G>C	c.(2977-2979)TGG>TCG	p.W993S	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	993	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GCGTAGAAACCAAAGTGGCAG	0.363													51	103	---	---	---	---	PASS	G	72938268	G	G	72938268	3	3	102	1	0	0	0	0	1	0	0	0	16574	595	21	4	393	4	TRPA1	8	72938268	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	754174	72938268	73425754	103	38029										
ZFHX4	79776	broad.mit.edu	37	chr8	77764838	77764838	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gcaaaaatccttggaaccatCcatcccaccaccccgaatag	5	16	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:77764838C>A	uc003yav.2	+	10	5933	c.5546C>A	c.(5545-5547)TCC>TAC	p.S1849Y	ZFHX4_uc003yau.1_Missense_Mutation_p.S1894Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.S1849Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1849						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTGGAACCATCCATCCCACCA	0.418										HNSCC(33;0.089)			18	11	---	---	---	---	PASS	A	77764838	A	A	77764838	3	1	102	1	0	0	0	0	1	0	0	0	17632	855	30	2	5715	2	ZFHX4	8	77764838	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	4826570	77764838	68599184	104	38030			1	47		4	3	1100	N	C	4.069337e-05
ZFHX4	79776	broad.mit.edu	37	chr8	77765435	77765435	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gcaacaccctgcgcttcctcCccagcttgccctgcagctgc	8	20	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:77765435C>A	uc003yav.2	+	10	6530	c.6143C>A	c.(6142-6144)CCC>CAC	p.P2048H	ZFHX4_uc003yau.1_Missense_Mutation_p.P2093H|ZFHX4_uc003yaw.1_Missense_Mutation_p.P2048H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2048	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GCGCTTCCTCCCCAGCTTGCC	0.507										HNSCC(33;0.089)			4	1	---	---	---	---	PASS	A	77765435	A	A	77765435	3	1	102	1	0	0	0	0	1	0	0	0	17632	623	22	3	6312	3	ZFHX4	8	77765435	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	597	77765435	68598587	105	38031			1	47		4	3	1100	N	C	4.069337e-05
ZFHX4	79776	broad.mit.edu	37	chr8	77765936	77765936	+	Missense_Mutation	SNP	C	A	A													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgatgaaatagaacaactctCcactgttctcaatctgccta							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:77765936C>A	uc003yav.2	+	10	7031	c.6644C>A	c.(6643-6645)TCC>TAC	p.S2215Y	ZFHX4_uc003yau.1_Missense_Mutation_p.S2260Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.S2215Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2215	Homeobox 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GAACAACTCTCCACTGTTCTC	0.408										HNSCC(33;0.089)			11	13	---	---	---	---	PASS	A	77765936	A	A	77765936	3	1	102	1	0	0	0	0	1	0	0	0	17632	855	30	2	6813	2	ZFHX4	8	77765936	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	501	77765936	68598086	106	38032	709	2	1	47		4	3	1100	N	C	4.069337e-05
ZFHX4	79776	broad.mit.edu	37	chr8	77765937	77765937	+	Silent	SNP	C	A	A													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gatgaaatagaacaactctcCactgttctcaatctgcctac							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:77765937C>A	uc003yav.2	+	10	7032	c.6645C>A	c.(6643-6645)TCC>TCA	p.S2215S	ZFHX4_uc003yau.1_Silent_p.S2260S|ZFHX4_uc003yaw.1_Silent_p.S2215S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2215	Homeobox 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AACAACTCTCCACTGTTCTCA	0.408										HNSCC(33;0.089)			11	13	---	---	---	---	PASS	A	77765937	A	A	77765937	2	1	102	1	0	0	0	0	0	0	0	1	17632	581	21	3		3	ZFHX4	8	77765937	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	1	77765937	68598085	107	38033	709	2	1	47		4	3	1100	N	C	4.069337e-05
PKHD1L1	93035	broad.mit.edu	37	chr8	110437406	110437406	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	attcaaagaattcaagctgcAtctccacctctaagtggcag	7	11	4	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:110437406A>T	uc003yne.2	+	24	2894	c.2790A>T	c.(2788-2790)GCA>GCT	p.A930A		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	930	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTCAAGCTGCATCTCCACCTC	0.348										HNSCC(38;0.096)			3	39	---	---	---	---	PASS	T	110437406	T	T	110437406	2	4	102	1	0	0	0	0	0	0	0	1	11972	204	8	5		5	PKHD1L1	8	110437406	Silent	SNP	A	TCGA-43-6770-01A-11D-1817-08	32671469	110437406	35926616	108	38034										
KIAA0196	9897	broad.mit.edu	37	chr8	126049491	126049494	+	Frame_Shift_Del	DEL	TGTA	-	-													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atacgtacccagatttttgtTgtattgaagttttggcaact							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:126049491_126049494delTGTA	uc003yrt.2	-	26	3495_3498	c.3166_3169delTACA	c.(3166-3171)TACAACfs	p.Y1056fs	KIAA0196_uc011lir.1_Frame_Shift_Del_p.Y908fs|KIAA0196_uc003yru.1_Frame_Shift_Del_p.Y630fs	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	1056_1057					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			AGATTTTTGTTGTATTGAAGTTTT	0.304													81	39	---	---	---	---		-	126049494	-	-	126049491	7	5	102	1	0	1	0	1	0	0	0	0	8161	1812	63	0	326	0	KIAA0196	8	126049491	Frame_Shift_Del	DEL	TGTA	TCGA-43-6770-01A-11D-1817-08	15612085	126049491	20314531	109	38035										
SCRIB	23513	broad.mit.edu	37	chr8	144891120	144891120	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cccgcctggcagggtccaggGggcctcaggctgcccctcct	14	18	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:144891120G>A	uc003yzp.1	-	15	1781	c.1774C>T	c.(1774-1776)CCC>TCC	p.P592S	SCRIB_uc003yzo.1_Missense_Mutation_p.P592S	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	592	Sufficient for targeting to adherens junction and to inhibit cell proliferation.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			AGGGTCCAGGGGGCCTCAGGC	0.647													59	85	---	---	---	---	PASS	A	144891120	A	A	144891120	3	1	102	1	0	0	0	0	1	0	0	0	13937	1232	43	3	3285	3	SCRIB	8	144891120	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	18841629	144891120	1472902	110	38036										
EXOSC4	54512	broad.mit.edu	37	chr8	145135352	145135352	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgctgccagcctcaggacagAttgcgctgcttgagatggat	13	10	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr8:145135352A>G	uc003zau.2	+	3	696	c.586A>G	c.(586-588)ATT>GTT	p.I196V	GPAA1_uc003zav.1_5'Flank|GPAA1_uc003zaw.1_5'Flank|GPAA1_uc003zax.2_5'Flank	NM_019037	NP_061910	Q9NPD3	EXOS4_HUMAN	exosome component 4	196					DNA deamination|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear mRNA surveillance|positive regulation of cell growth	cytosol|exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5'-exoribonuclease activity|AU-rich element binding|protein binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;3.48e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CTCAGGACAGATTGCGCTGCT	0.667													27	123	---	---	---	---	PASS	G	145135352	G	G	145135352	3	3	102	1	0	0	0	0	1	0	0	0	5317	333	12	5	596	5	EXOSC4	8	145135352	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	244232	145135352	1228670	111	38037										
AGTPBP1	23287	broad.mit.edu	37	chr9	88292479	88292479	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cacctttggtgactaagaaaCtcactcttcgacctccacct	5	15	2	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr9:88292479C>T	uc011ltd.1	-	5	341	c.308G>A	c.(307-309)AGT>AAT	p.S103N	AGTPBP1_uc011ltc.1_Missense_Mutation_p.S45N|AGTPBP1_uc010mqc.2_Missense_Mutation_p.S103N|AGTPBP1_uc011lte.1_Missense_Mutation_p.S155N	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	103					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						GACTAAGAAACTCACTCTTCG	0.279													31	68	---	---	---	---	PASS	T	88292479	T	T	88292479	3	4	102	1	0	0	0	0	1	0	0	0	400	565	20	3	3336	3	AGTPBP1	9	88292479	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08		88292479	52920952	112	38038										
FAM120A	23196	broad.mit.edu	37	chr9	96326821	96326821	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgtcttaaataaagaagagtAaacttattttttatagaggg	8	2	1	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr9:96326821A>G	uc004atw.2	+	18	3381	c.3356A>G	c.(3355-3357)TAA>TGA	p.*1119*	FAM120A_uc004aty.2_Silent_p.*900*|FAM120A_uc004atz.2_Silent_p.*767*|FAM120A_uc010mrg.2_Silent_p.*386*|FAM120A_uc004aua.1_RNA	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	1119						cytoplasm|plasma membrane	RNA binding				0						AAAGAAGAGTAAACTTATTTT	0.408													41	60	---	---	---	---	PASS	G	96326821	G	G	96326821	2	3	102	1	0	0	0	0	0	0	0	1	5415	369	13	5		5	FAM120A	9	96326821	Silent	SNP	A	TCGA-43-6770-01A-11D-1817-08	8034342	96326821	44886610	113	38039										
FANCC	2176	broad.mit.edu	37	chr9	97912344	97912344	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgggacacaaactcgtgacaGggacgccactcgctcgggag	14	12	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr9:97912344G>C	uc004avh.2	-	7	809	c.547C>G	c.(547-549)CTG>GTG	p.L183V	FANCC_uc004avi.3_Missense_Mutation_p.L183V|FANCC_uc010mrm.1_RNA|FANCC_uc011lul.1_RNA	NM_000136	NP_000127	Q00597	FANCC_HUMAN	Fanconi anemia, complementation group C	183					protein complex assembly	cytosol|nucleoplasm	protein binding			kidney(1)	1		Acute lymphoblastic leukemia(62;0.138)				ACTCGTGACAGGGACGCCACT	0.463			D|Mis|N|F|S			AML|leukemia		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				17	65	---	---	---	---	PASS	C	97912344	C	C	97912344	3	2	102	1	0	0	0	0	1	0	0	0	5664	991	35	4	1165	4	FANCC	9	97912344	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	1585523	97912344	43301087	114	38040										
ZNF782	158431	broad.mit.edu	37	chr9	99581208	99581208	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tcccacattcattatactcaTagggttttgcccttatgtga	6	10	2	1	rs145150698	byFrequency	TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr9:99581208T>C	uc004awp.1	-	6	1378	c.1097A>G	c.(1096-1098)TAT>TGT	p.Y366C	ZNF782_uc011lup.1_Missense_Mutation_p.Y234C	NM_001001662	NP_001001662	Q6ZMW2	ZN782_HUMAN	zinc finger protein 782	366	C2H2-type 4; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				ATTATACTCATAGGGTTTTGC	0.418													11	214	---	---	---	---	PASS	C	99581208	C	C	99581208	3	2	102	1	0	0	0	0	1	0	0	0	18152	1406	49	5	1006	5	ZNF782	9	99581208	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	1668864	99581208	41632223	115	38041										
GRIN3A	116443	broad.mit.edu	37	chr9	104433328	104433328	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gttgttttctgagctgacgaTggtggaaccttttactctga	11	7	2	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr9:104433328T>C	uc004bbp.1	-	3	1967	c.1366A>G	c.(1366-1368)ATC>GTC	p.I456V	GRIN3A_uc004bbq.1_Missense_Mutation_p.I456V	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	456	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	GAGCTGACGATGGTGGAACCT	0.483													65	170	---	---	---	---	PASS	C	104433328	C	C	104433328	3	2	102	1	0	0	0	0	1	0	0	0	6783	1464	51	5	2009	5	GRIN3A	9	104433328	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	4852120	104433328	36780103	116	38042										
SUSD1	64420	broad.mit.edu	37	chr9	114886687	114886687	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tcctaccaagatggcgtgccGcatttctggagggttgccac	12	12	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr9:114886687G>A	uc004bfu.2	-	6	777	c.736C>T	c.(736-738)CGG>TGG	p.R246W	SUSD1_uc010mui.2_Missense_Mutation_p.R246W|SUSD1_uc010muj.2_Missense_Mutation_p.R246W	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	246	Sushi 2.|Extracellular (Potential).					integral to membrane	calcium ion binding				0						ATGGCGTGCCGCATTTCTGGA	0.507													45	71	---	---	---	---	PASS	A	114886687	A	A	114886687	3	1	102	1	0	0	0	0	1	0	0	0	15404	1086	38	1	1555	1	SUSD1	9	114886687	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	10453359	114886687	26326744	117	38043										
PHF19	26147	broad.mit.edu	37	chr9	123632136	123632136	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ggctcacccgcacagccagtGcgaagatgcagcgtcggcag	14	14	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr9:123632136G>A	uc004bks.1	-	5	705	c.452C>T	c.(451-453)GCA>GTA	p.A151V	PHF19_uc011lyf.1_5'Flank|PHF19_uc004bkr.2_5'Flank|PHF19_uc004bkt.2_Missense_Mutation_p.A151V|PHF19_uc010mvk.2_3'UTR	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a	151	PHD-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						CACAGCCAGTGCGAAGATGCA	0.632													4	31	---	---	---	---	PASS	A	123632136	A	A	123632136	3	1	102	1	0	0	0	0	1	0	0	0	11829	1319	46	3	1493	3	PHF19	9	123632136	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	8745449	123632136	17581295	118	38044										
KCNT1	57582	broad.mit.edu	37	chr9	138683697	138683697	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cgtcctcatcaaccctccgcCcgacacgaggctggagccca	9	19	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr9:138683697C>A	uc011mdq.1	+	30	3631	c.3557C>A	c.(3556-3558)CCC>CAC	p.P1186H	KCNT1_uc011mdr.1_Missense_Mutation_p.P1034H|KCNT1_uc010nbf.2_Missense_Mutation_p.P1162H	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	1186						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		AACCCTCCGCCCGACACGAGG	0.642													19	68	---	---	---	---	PASS	A	138683697	A	A	138683697	3	1	102	1	0	0	0	0	1	0	0	0	8091	623	22	3	3675	3	KCNT1	9	138683697	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	15051561	138683697	2529734	119	38045										
FBXO18	84893	broad.mit.edu	37	chr10	5948139	5948139	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atgatctttcctgcagagagCagctgtgcactgcctcagga	11	11	2	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr10:5948139C>T	uc001iis.2	+	3	392	c.297C>T	c.(295-297)AGC>AGT	p.S99S	FBXO18_uc001iir.2_Silent_p.S25S|FBXO18_uc009xig.2_Silent_p.S25S|FBXO18_uc001iit.2_Silent_p.S150S	NM_178150	NP_835363	Q8NFZ0	FBX18_HUMAN	F-box only protein, helicase, 18 isoform 2	99					DNA repair	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(2)|skin(1)	3						CTGCAGAGAGCAGCTGTGCAC	0.597													9	64	---	---	---	---	PASS	T	5948139	T	T	5948139	2	4	102	1	0	0	0	0	0	0	0	1	5731	709	25	3		3	FBXO18	10	5948139	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08		5948139	129586608	120	38046										
C10orf140	387640	broad.mit.edu	37	chr10	21805147	21805147	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aaacaactccccaggctggcCgggcagtacaccggagatgc	12	14	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr10:21805147C>T	uc009xkd.2	-	4	3858	c.1605G>A	c.(1603-1605)CCG>CCA	p.P535P	uc001iqp.1_RNA	NM_207371	NP_997254	Q1XH10	DLN1_HUMAN	hypothetical protein LOC387640	454						nucleus	nucleotide binding			ovary(1)	1						CCAGGCTGGCCGGGCAGTACA	0.547													21	48	---	---	---	---	PASS	T	21805147	T	T	21805147	2	4	102	1	0	0	0	0	0	0	0	1	1595	639	23	1		1	C10orf140	10	21805147	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	15857008	21805147	113729600	121	38047										
PTCHD3	374308	broad.mit.edu	37	chr10	27702399	27702399	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cgggttggggggcacgcagaGcgccctgtacctcgcgcaca	16	14	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr10:27702399G>T	uc001itu.2	-	1	899	c.781C>A	c.(781-783)CTC>ATC	p.L261I		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	261					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GGCACGCAGAGCGCCCTGTAC	0.632													17	24	---	---	---	---	PASS	T	27702399	T	T	27702399	3	4	102	1	0	0	0	0	1	0	0	0	12734	971	34	3	1538	3	PTCHD3	10	27702399	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	5897252	27702399	107832348	122	38048										
KIAA1462	57608	broad.mit.edu	37	chr10	30315900	30315900	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccctctagctcactggcaccCtgttcttgcccaggggtgag	11	15	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr10:30315900C>T	uc001iux.2	-	2	3236	c.3177G>A	c.(3175-3177)CAG>CAA	p.Q1059Q	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Silent_p.Q921Q|KIAA1462_uc009xle.1_Silent_p.Q1059Q	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	1059										ovary(4)	4						CACTGGCACCCTGTTCTTGCC	0.597													12	205	---	---	---	---	PASS	T	30315900	T	T	30315900	2	4	102	1	0	0	0	0	0	0	0	1	8234	680	24	3		3	KIAA1462	10	30315900	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	2613501	30315900	105218847	123	38049										
ANKRD30A	91074	broad.mit.edu	37	chr10	37508513	37508513	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	caaagagaccaacgtgaaacAcagtgtcaaatgaaggaagc	10	8	1	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr10:37508513A>C	uc001iza.1	+	34	3804	c.3705A>C	c.(3703-3705)ACA>ACC	p.T1235T		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1291	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AACGTGAAACACAGTGTCAAA	0.363													5	30	---	---	---	---	PASS	C	37508513	C	C	37508513	2	2	102	1	0	0	0	0	0	0	0	1	658	146	6	5		5	ANKRD30A	10	37508513	Silent	SNP	A	TCGA-43-6770-01A-11D-1817-08	7192613	37508513	98026234	124	38050										
LZTS2	84445	broad.mit.edu	37	chr10	102766372	102766372	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ggaggcccgtgctacgctgcGggtcagtgagggccgtgcgc	19	12	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr10:102766372G>C	uc001ksj.2	+	5	1526	c.1457G>C	c.(1456-1458)CGG>CCG	p.R486P	LZTS2_uc010qpw.1_Missense_Mutation_p.R486P|LZTS2_uc001ksk.2_Missense_Mutation_p.R486P|LZTS2_uc001ksl.2_Missense_Mutation_p.R486P|LZTS2_uc001ksm.2_RNA	NM_032429	NP_115805	Q9BRK4	LZTS2_HUMAN	leucine zipper, putative tumor suppressor 2	486	Potential.|Sufficient for interaction with KATNB1 and for inhibition of katanin-mediated microtubule severing (By similarity).|Sufficient for interaction with CTNNB1.				cell division|mitosis|Wnt receptor signaling pathway	membrane|microtubule|microtubule organizing center				ovary(2)|large_intestine(1)|breast(1)	4				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		GCTACGCTGCGGGTCAGTGAG	0.687													5	5	---	---	---	---	PASS	C	102766372	C	C	102766372	3	2	102	1	0	0	0	0	1	0	0	0	9139	1116	39	4	1471	4	LZTS2	10	102766372	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	65257859	102766372	32768375	125	38051										
PNLIPRP2	5408	broad.mit.edu	37	chr10	118396302	118396302	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tttttttccactagagtaagTgtttcccttgtccagctgaa	7	9	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr10:118396302T>G	uc001lcq.2	+	12	969	c.946T>G	c.(946-948)TGT>GGT	p.C316G	PNLIPRP2_uc009xyv.1_RNA	NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2	315					galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		CTAGAGTAAGTGTTTCCCTTG	0.383													3	10	---	---	---	---	PASS	G	118396302	G	G	118396302	3	3	102	1	0	0	0	0	1	0	0	0	12151	1696	59	5	983	5	PNLIPRP2	10	118396302	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	15629930	118396302	17138445	126	38052										
INPP5A	3632	broad.mit.edu	37	chr10	134579331	134579331	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aggacagactgtatgaactgGacatctcgttccctcccagg	10	12	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr10:134579331G>C	uc001llp.2	+	12	1206	c.958G>C	c.(958-960)GAC>CAC	p.D320H	INPP5A_uc001llo.1_Missense_Mutation_p.D320H|INPP5A_uc001llq.2_Missense_Mutation_p.D215H	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	320					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		GTATGAACTGGACATCTCGTT	0.493													4	89	---	---	---	---	PASS	C	134579331	C	C	134579331	3	2	102	1	0	0	0	0	1	0	0	0	7754	1174	41	2	1004	2	INPP5A	10	134579331	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	16183029	134579331	955416	127	38053										
PHRF1	57661	broad.mit.edu	37	chr11	608509	608509	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cagggagcacggacggacgcGctctgggacgcgctctgaat	16	12	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:608509G>T	uc001lqe.2	+	14	3184	c.3053G>T	c.(3052-3054)CGC>CTC	p.R1018L	PHRF1_uc010qwc.1_Missense_Mutation_p.R1017L|PHRF1_uc010qwd.1_Missense_Mutation_p.R1016L|PHRF1_uc010qwe.1_Missense_Mutation_p.R1014L|PHRF1_uc009ybz.1_Missense_Mutation_p.R808L|PHRF1_uc009yca.1_RNA	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	1018	Arg-rich.						RNA polymerase binding|zinc ion binding				0						GGACGGACGCGCTCTGGGACG	0.672													14	43	---	---	---	---	PASS	T	608509	T	T	608509	3	4	102	1	0	0	0	0	1	0	0	0	11861	1087	38	1	3100	1	PHRF1	11	608509	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08		608509	134398007	128	38054										
KCNQ1	3784	broad.mit.edu	37	chr11	2608873	2608873	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctacatccggaaggccccccGgagccacactctgctgtcac	9	18	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:2608873G>T	uc001lwn.2	+	9	1310	c.1202G>T	c.(1201-1203)CGG>CTG	p.R401L	KCNQ1_uc009ydp.1_Missense_Mutation_p.R185L|KCNQ1_uc001lwo.2_Missense_Mutation_p.R274L	NM_000218	NP_000209	P51787	KCNQ1_HUMAN	potassium voltage-gated channel, KQT-like	401	Cytoplasmic (Potential).				blood circulation|membrane depolarization|muscle contraction|sensory perception of sound		delayed rectifier potassium channel activity|protein binding			ovary(1)	1		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)	AAGGCCCCCCGGAGCCACACT	0.642													31	76	---	---	---	---	PASS	T	2608873	T	T	2608873	3	4	102	1	0	0	0	0	1	0	0	0	8082	1116	39	1	1245	1	KCNQ1	11	2608873	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	2000364	2608873	132397643	129	38055										
OR51B5	282763	broad.mit.edu	37	chr11	5364468	5364468	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gtataaagtaggcctgggaaAagcaggccgcacttccaatc	11	10	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:5364468A>G	uc001map.1	-	1	287	c.287T>C	c.(286-288)TTT>TCT	p.F96S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Missense_Mutation_p.F96S	NM_001005567	NP_001005567	Q9H339	O51B5_HUMAN	olfactory receptor, family 51, subfamily B,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.05e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGCCTGGGAAAAGCAGGCCGC	0.552													4	53	---	---	---	---	PASS	G	5364468	G	G	5364468	3	3	102	1	0	0	0	0	1	0	0	0	11091	14	1	5	655	5	OR51B5	11	5364468	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	2755595	5364468	129642048	130	38056										
OR51I1	390063	broad.mit.edu	37	chr11	5462308	5462308	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tggtaaggatgcccagacccAtagccaatatacggttgtga	11	9	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:5462308A>G	uc010qze.1	-	1	437	c.437T>C	c.(436-438)ATG>ACG	p.M146T	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,	146	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)		GCCCAGACCCATAGCCAATAT	0.483													35	54	---	---	---	---	PASS	G	5462308	G	G	5462308	3	3	102	1	0	0	0	0	1	0	0	0	11100	217	8	5	511	5	OR51I1	11	5462308	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	97840	5462308	129544208	131	38057										
OR56B1	387748	broad.mit.edu	37	chr11	5758258	5758258	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgtcactccagtgcctgtgcTtgcagcacagcgtgattatt	10	11	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:5758258T>A	uc001mbt.1	+	1	512	c.512T>A	c.(511-513)CTT>CAT	p.L171H	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|OR56B1_uc001mbs.1_Missense_Mutation_p.L171H|OR56B1_uc009yev.1_Missense_Mutation_p.L171H	NM_001005180	NP_001005180	Q8NGI3	O56B1_HUMAN	olfactory receptor, family 56, subfamily B,	171	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.086)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.184)		GTGCCTGTGCTTGCAGCACAG	0.473													42	84	---	---	---	---	PASS	A	5758258	A	A	5758258	3	1	102	1	0	0	0	0	1	0	0	0	11137	1609	56	5	514	5	OR56B1	11	5758258	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	295950	5758258	129248258	132	38058										
OR52N4	390072	broad.mit.edu	37	chr11	5776678	5776678	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctctcctcagcagatgctcgGcagaaggcctttaatacctg	9	13	2	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:5776678G>A	uc001mbu.2	+	1	756	c.708G>A	c.(706-708)CGG>CGA	p.R236R	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005175	NP_001005175	Q8NGI2	O52N4_HUMAN	olfactory receptor, family 52, subfamily N,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;1.87e-10)|LUSC - Lung squamous cell carcinoma(625;0.114)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.197)		CAGATGCTCGGCAGAAGGCCT	0.502													66	113	---	---	---	---	PASS	A	5776678	A	A	5776678	2	1	102	1	0	0	0	0	0	0	0	1	11129	1190	42	3		3	OR52N4	11	5776678	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	18420	5776678	129229838	133	38059										
NLRP14	338323	broad.mit.edu	37	chr11	7079556	7079556	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gctggctgtgagtatctttcTttggctctcatcagcaataa	9	9	4	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:7079556T>C	uc001mfb.1	+	8	2831	c.2508T>C	c.(2506-2508)TCT>TCC	p.S836S		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	836	LRR 4.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		AGTATCTTTCTTTGGCTCTCA	0.453													49	84	---	---	---	---	PASS	C	7079556	C	C	7079556	2	2	102	1	0	0	0	0	0	0	0	1	10476	1596	56	5		5	NLRP14	11	7079556	Silent	SNP	T	TCGA-43-6770-01A-11D-1817-08	1302878	7079556	127926960	134	38060										
SBF2	81846	broad.mit.edu	37	chr11	9861056	9861056	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cacacttacctccggcagagTgaatacatcctgttggaggc	10	12	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:9861056T>C	uc001mib.2	-	26	3582	c.3444A>G	c.(3442-3444)TCA>TCG	p.S1148S	SBF2_uc001mif.3_Silent_p.S904S|uc001mig.2_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1148	Myotubularin phosphatase.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		TCCGGCAGAGTGAATACATCC	0.443													67	130	---	---	---	---	PASS	C	9861056	C	C	9861056	2	2	102	1	0	0	0	0	0	0	0	1	13859	1683	59	5		5	SBF2	11	9861056	Silent	SNP	T	TCGA-43-6770-01A-11D-1817-08	2781500	9861056	125145460	135	38061										
PIK3C2A	5286	broad.mit.edu	37	chr11	17113137	17113137	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgatgaaaagagtaccatttCggtaagagatggataatttc	10	4	0	4			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:17113137C>A	uc001mmq.3	-	30	4775	c.4709G>T	c.(4708-4710)CGA>CTA	p.R1570L	PIK3C2A_uc009ygu.1_Missense_Mutation_p.R173L|PIK3C2A_uc010rcw.1_Missense_Mutation_p.R1190L|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	1570	C2.				cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	AGTACCATTTCGGTAAGAGAT	0.383													3	74	---	---	---	---	PASS	A	17113137	A	A	17113137	3	1	102	1	0	0	0	0	1	0	0	0	11909	884	31	2	363	2	PIK3C2A	11	17113137	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	7252081	17113137	117893379	136	38062										
PIK3C2A	5286	broad.mit.edu	37	chr11	17153551	17153551	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aaaaagatcctttccattgtGagacagtgaacatatcaagt	7	7	1	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:17153551G>C	uc001mmq.3	-	11	2209	c.2143C>G	c.(2143-2145)CAC>GAC	p.H715D	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Missense_Mutation_p.H335D|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	715					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	TTTCCATTGTGAGACAGTGAA	0.274													22	142	---	---	---	---	PASS	C	17153551	C	C	17153551	3	2	102	1	0	0	0	0	1	0	0	0	11909	1290	45	2	3005	2	PIK3C2A	11	17153551	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	40414	17153551	117852965	137	38063										
LRRC4C	57689	broad.mit.edu	37	chr11	40136309	40136309	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tcctgggatcccactgtttaTatcagtcactgggatggtga	11	9	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:40136309T>C	uc001mxa.1	-	2	3498	c.1534A>G	c.(1534-1536)ATA>GTA	p.I512V	LRRC4C_uc001mxc.1_Missense_Mutation_p.I508V|LRRC4C_uc001mxd.1_Missense_Mutation_p.I508V|LRRC4C_uc001mxb.1_Missense_Mutation_p.I508V	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	512					regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				CCACTGTTTATATCAGTCACT	0.498													29	67	---	---	---	---	PASS	C	40136309	C	C	40136309	3	2	102	1	0	0	0	0	1	0	0	0	9008	1406	49	5	392	5	LRRC4C	11	40136309	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	22982758	40136309	94870207	138	38064										
OR4C6	219432	broad.mit.edu	37	chr11	55432843	55432843	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cttaccttcttgtcccttttGgatgtcatgttctcatctgt	6	11	4	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:55432843G>A	uc001nht.3	+	3	466	c.201G>A	c.(199-201)TTG>TTA	p.L67L	OR4C6_uc010rik.1_Silent_p.L67L	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TGTCCCTTTTGGATGTCATGT	0.448													25	115	---	---	---	---	PASS	A	55432843	A	A	55432843	2	1	102	1	0	0	0	0	0	0	0	1	11052	1339	47	3		3	OR4C6	11	55432843	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	15296534	55432843	79573673	139	38065										
OR4C6	219432	broad.mit.edu	37	chr11	55433068	55433068	+	Missense_Mutation	SNP	G	A	A													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccacgggtgtgctgcctaatGgtaggaggggcttgggtggg							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:55433068G>A	uc001nht.3	+	3	691	c.426G>A	c.(424-426)ATG>ATA	p.M142I	OR4C6_uc010rik.1_Missense_Mutation_p.M142I	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GCTGCCTAATGGTAGGAGGGG	0.493													43	75	---	---	---	---	PASS	A	55433068	A	A	55433068	3	1	102	1	0	0	0	0	1	0	0	0	11052	1348	47	3	428	3	OR4C6	11	55433068	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	225	55433068	79573448	140	38066	710	2								
OR4C6	219432	broad.mit.edu	37	chr11	55433069	55433069	+	Missense_Mutation	SNP	G	T	T													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cacgggtgtgctgcctaatgGtaggaggggcttgggtgggg							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:55433069G>T	uc001nht.3	+	3	692	c.427G>T	c.(427-429)GTA>TTA	p.V143L	OR4C6_uc010rik.1_Missense_Mutation_p.V143L	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CTGCCTAATGGTAGGAGGGGC	0.488													42	75	---	---	---	---	PASS	T	55433069	T	T	55433069	3	4	102	1	0	0	0	0	1	0	0	0	11052	1261	44	3	429	3	OR4C6	11	55433069	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	1	55433069	79573447	141	38067	710	2								
OR10W1	81341	broad.mit.edu	37	chr11	58034971	58034971	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atgaggagagggtactgcaaCgggtggcaaatggccacata	15	7	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:58034971C>T	uc001nmq.1	-	1	762	c.360G>A	c.(358-360)CCG>CCA	p.P120P		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	120	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				GGTACTGCAACGGGTGGCAAA	0.532													9	41	---	---	---	---	PASS	T	58034971	T	T	58034971	2	4	102	1	0	0	0	0	0	0	0	1	10921	523	19	1		1	OR10W1	11	58034971	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	2601902	58034971	76971545	142	38068										
TIGD3	220359	broad.mit.edu	37	chr11	65123817	65123817	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttggctgtgctgaattgcccTtgctgtatcgggcagtgccc	13	11	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:65123817T>A	uc001odo.3	+	2	701	c.538T>A	c.(538-540)TTG>ATG	p.L180M		NM_145719	NP_663771	Q6B0B8	TIGD3_HUMAN	tigger transposable element derived 3	180	DDE.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						TGAATTGCCCTTGCTGTATCG	0.602													34	180	---	---	---	---	PASS	A	65123817	A	A	65123817	3	1	102	1	0	0	0	0	1	0	0	0	15894	1606	56	5	540	5	TIGD3	11	65123817	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	7088846	65123817	69882699	143	38069										
CNIH2	254263	broad.mit.edu	37	chr11	66050605	66050605	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tcaacatccccctcctcttcTaccacctctggaggtgaggg	8	16	4	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:66050605T>C	uc001ohi.1	+	4	530	c.298T>C	c.(298-300)TAC>CAC	p.Y100H	CNIH2_uc001ohh.2_Missense_Mutation_p.Y100H|CNIH2_uc009yrb.1_RNA	NM_182553	NP_872359	Q6PI25	CNIH2_HUMAN	cornichon homolog 2	100	Cytoplasmic (Potential).				intracellular signal transduction|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic shaft|dendritic spine|endoplasmic reticulum membrane|postsynaptic density|postsynaptic membrane	protein binding				0						CCTCCTCTTCTACCACCTCTG	0.612											OREG0021100	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	97	---	---	---	---	PASS	C	66050605	C	C	66050605	3	2	102	1	0	0	0	0	1	0	0	0	3603	1522	53	5	312	5	CNIH2	11	66050605	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	926788	66050605	68955911	144	38070										
NUDT8	254552	broad.mit.edu	37	chr11	67396482	67396482	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttcccgcagggccgtgtgcaCcacatcttggtcagccgggt	13	14	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:67396482C>G	uc001omo.1	-	2	254	c.235G>C	c.(235-237)GTG>CTG	p.V79L	NUDT8_uc001omn.2_Missense_Mutation_p.V79L	NM_181843	NP_862826	Q8WV74	NUDT8_HUMAN	nudix-type motif 8	79	Nudix box.|Nudix hydrolase.					mitochondrion	hydrolase activity|metal ion binding				0						GCCGTGTGCACCACATCTTGG	0.642											OREG0021134	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	100	---	---	---	---	PASS	G	67396482	G	G	67396482	3	3	102	1	0	0	0	0	1	0	0	0	10745	507	18	4	195	4	NUDT8	11	67396482	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	1345877	67396482	67610034	145	38071										
CLPB	81570	broad.mit.edu	37	chr11	72091393	72091393	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgaaatcatctccaaggtttGgatcagccccagcagcaagc	9	12	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:72091393G>C	uc001osj.2	-	4	628	c.578C>G	c.(577-579)CCA>CGA	p.P193R	CLPB_uc010rqx.1_Missense_Mutation_p.P148R|CLPB_uc010rqy.1_Missense_Mutation_p.P164R|CLPB_uc001osk.2_Missense_Mutation_p.P193R|CLPB_uc009ytg.2_RNA|CLPB_uc010rqz.1_Missense_Mutation_p.P22R	NM_030813	NP_110440	Q9H078	CLPB_HUMAN	caseinolytic peptidase B	193	ANK 2.				cellular response to heat		ATP binding|nucleoside-triphosphatase activity|protein binding			pancreas(1)	1						TCCAAGGTTTGGATCAGCCCC	0.488													5	57	---	---	---	---	PASS	C	72091393	C	C	72091393	3	2	102	1	0	0	0	0	1	0	0	0	3551	1348	47	4	1601	4	CLPB	11	72091393	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	4694911	72091393	62915123	146	38072										
MYO7A	4647	broad.mit.edu	37	chr11	76893063	76893063	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cagccctgcccctgcctgacGaggatgaggaggacctctct	12	15	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:76893063G>T	uc001oyb.2	+	24	3243	c.2971G>T	c.(2971-2973)GAG>TAG	p.E991*	MYO7A_uc010rsl.1_Nonsense_Mutation_p.E991*|MYO7A_uc010rsm.1_Nonsense_Mutation_p.E980*|MYO7A_uc001oyc.2_Nonsense_Mutation_p.E991*|MYO7A_uc001oyd.2_Nonsense_Mutation_p.E331*|MYO7A_uc009yus.1_RNA|MYO7A_uc009yut.1_Nonsense_Mutation_p.E202*	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	991					actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						CCTGCCTGACGAGGATGAGGA	0.567													19	116	---	---	---	---	PASS	T	76893063	T	T	76893063	4	4	102	1	0	0	0	0	0	1	0	0	10082	1059	37	2	3061	2	MYO7A	11	76893063	Nonsense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	4801670	76893063	58113453	147	38073										
DLG2	1740	broad.mit.edu	37	chr11	83497769	83497769	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgctataatcgtcactgtctGtccagccccctttagtgcag	8	13	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:83497769G>C	uc001paj.2	-	13	1777	c.1474C>G	c.(1474-1476)CAG>GAG	p.Q492E	DLG2_uc001pai.2_Missense_Mutation_p.Q389E|DLG2_uc010rsy.1_Missense_Mutation_p.Q459E|DLG2_uc010rsz.1_Missense_Mutation_p.Q492E|DLG2_uc010rta.1_Missense_Mutation_p.Q492E|DLG2_uc001pak.2_Missense_Mutation_p.Q597E|DLG2_uc010rtb.1_Missense_Mutation_p.Q459E|DLG2_uc001pal.1_Missense_Mutation_p.Q492E|DLG2_uc001pam.1_Missense_Mutation_p.Q531E	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	492	PDZ 3.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				GTCACTGTCTGTCCAGCCCCC	0.468													10	87	---	---	---	---	PASS	C	83497769	C	C	83497769	3	2	102	1	0	0	0	0	1	0	0	0	4555	1386	48	4	1232	4	DLG2	11	83497769	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	6604706	83497769	51508747	148	38074										
NPAT	4863	broad.mit.edu	37	chr11	108042941	108042941	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gttaccttgtgaaaagtttgGtgacacagcttggttgacag	12	6	0	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:108042941G>A	uc001pjz.3	-	13	2872	c.2770C>T	c.(2770-2772)CCA>TCA	p.P924S	NPAT_uc010rvv.1_5'Flank|NPAT_uc001pka.2_Missense_Mutation_p.P719S	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	924					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		GAAAAGTTTGGTGACACAGCT	0.393													14	151	---	---	---	---	PASS	A	108042941	A	A	108042941	3	1	102	1	0	0	0	0	1	0	0	0	10566	1261	44	3	1537	3	NPAT	11	108042941	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	24545172	108042941	26963575	149	38075										
IGSF9B	22997	broad.mit.edu	37	chr11	133801456	133801456	+	Frame_Shift_Del	DEL	G	-	-													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cctggtagcaccgtgaaataGggggggtcctggggaggaaa							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr11:133801456delG	uc001qgx.3	-	10	1491	c.1260delC	c.(1258-1260)CCCfs	p.P420fs	IGSF9B_uc001qgy.1_Frame_Shift_Del_p.P262fs	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	420	Extracellular (Potential).|Ig-like 5.					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		CCGTGAAATAGGGGGGGTCCT	0.652													24	18	---	---	---	---		-	133801456	-	-	133801456	7	5	102	1	0	1	0	1	0	0	0	0	7606	987	35	0	2829	0	IGSF9B	11	133801456	Frame_Shift_Del	DEL	G	TCGA-43-6770-01A-11D-1817-08	25758515	133801456	1205060	150	38076										
VWF	7450	broad.mit.edu	37	chr12	6172175	6172175	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tctgcaggtcctccccgtagCtgaggcgcacggaggccgtc	14	15	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr12:6172175C>G	uc001qnn.1	-	13	1728	c.1478G>C	c.(1477-1479)AGC>ACC	p.S493T	VWF_uc010set.1_Missense_Mutation_p.S493T	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	493	VWFD 2.				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)	CTCCCCGTAGCTGAGGCGCAC	0.667											OREG0021618	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	67	---	---	---	---	PASS	G	6172175	G	G	6172175	3	3	102	1	0	0	0	0	1	0	0	0	17243	797	28	4	7123	4	VWF	12	6172175	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08		6172175	127679720	151	38077										
ACRBP	84519	broad.mit.edu	37	chr12	6756072	6756072	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tctgccttccaggttggagtCagcagtgcgaagaagcgttc	13	10	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr12:6756072C>T	uc001qpu.1	-	2	198	c.150G>A	c.(148-150)CTG>CTA	p.L50L	ACRBP_uc010sfg.1_Silent_p.L50L	NM_032489	NP_115878	Q8NEB7	ACRBP_HUMAN	proacrosin binding protein sp32 precursor	50						acrosomal vesicle|extracellular region				central_nervous_system(1)	1						AGGTTGGAGTCAGCAGTGCGA	0.607													55	88	---	---	---	---	PASS	T	6756072	T	T	6756072	2	4	102	1	0	0	0	0	0	0	0	1	170	813	29	2		2	ACRBP	12	6756072	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	583897	6756072	127095823	152	38078										
CD163	9332	broad.mit.edu	37	chr12	7639173	7639173	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgaatggcactgccaaatgcGggattcttttccattgcatt	9	9	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr12:7639173G>T	uc001qsz.3	-	10	2508	c.2380C>A	c.(2380-2382)CGC>AGC	p.R794S	CD163_uc001qta.3_Missense_Mutation_p.R794S|CD163_uc009zfw.2_Missense_Mutation_p.R827S	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	794	SRCR 7.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						TGCCAAATGCGGGATTCTTTT	0.507													11	360	---	---	---	---	PASS	T	7639173	T	T	7639173	3	4	102	1	0	0	0	0	1	0	0	0	2967	1116	39	1	1118	1	CD163	12	7639173	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	883101	7639173	126212722	153	38079										
GRIN2B	2904	broad.mit.edu	37	chr12	13716959	13716959	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gcggcattgccctcgatgttCccataggtgacggtgtgggt	15	10	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr12:13716959C>T	uc001rbt.2	-	13	3392	c.3213G>A	c.(3211-3213)GGG>GGA	p.G1071G		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1071	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CCTCGATGTTCCCATAGGTGA	0.567													28	52	---	---	---	---	PASS	T	13716959	T	T	13716959	2	4	102	1	0	0	0	0	0	0	0	1	6780	842	30	2		2	GRIN2B	12	13716959	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	6077786	13716959	120134936	154	38080										
ARHGDIB	397	broad.mit.edu	37	chr12	15095561	15095561	+	Silent	SNP	C	A	A													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttgtggtacgtgcctcgcgcCagcatgcccttgggagcctc							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr12:15095561C>A	uc001rcq.1	-	6	605	c.501G>T	c.(499-501)CTG>CTT	p.L167L	ARHGDIB_uc001rcp.1_RNA	NM_001175	NP_001166	P52566	GDIR2_HUMAN	Rho GDP dissociation inhibitor (GDI) beta	167					actin cytoskeleton organization|cellular component movement|immune response|multicellular organismal development|negative regulation of cell adhesion|regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytoplasmic membrane-bounded vesicle|cytoskeleton|cytosol	GTPase activator activity|Rho GDP-dissociation inhibitor activity				0						TGCCTCGCGCCAGCATGCCCT	0.532													50	188	---	---	---	---	PASS	A	15095561	A	A	15095561	2	1	102	1	0	0	0	0	0	0	0	1	891	581	21	3		3	ARHGDIB	12	15095561	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	1378602	15095561	118756334	155	38081	711	2								
ARHGDIB	397	broad.mit.edu	37	chr12	15095562	15095562	+	Missense_Mutation	SNP	A	G	G													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgtggtacgtgcctcgcgccAgcatgcccttgggagcctcc							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr12:15095562A>G	uc001rcq.1	-	6	604	c.500T>C	c.(499-501)CTG>CCG	p.L167P	ARHGDIB_uc001rcp.1_RNA	NM_001175	NP_001166	P52566	GDIR2_HUMAN	Rho GDP dissociation inhibitor (GDI) beta	167					actin cytoskeleton organization|cellular component movement|immune response|multicellular organismal development|negative regulation of cell adhesion|regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytoplasmic membrane-bounded vesicle|cytoskeleton|cytosol	GTPase activator activity|Rho GDP-dissociation inhibitor activity				0						GCCTCGCGCCAGCATGCCCTT	0.527													50	187	---	---	---	---	PASS	G	15095562	G	G	15095562	3	3	102	1	0	0	0	0	1	0	0	0	891	188	7	5	109	5	ARHGDIB	12	15095562	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	1	15095562	118756333	156	38082	711	2								
METTL7B	196410	broad.mit.edu	37	chr12	56075807	56075807	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	caactttcagttctacccacCgggctgcagggtcacctgcc	9	16	3	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr12:56075807C>A	uc010spr.1	+	1	478	c.269C>A	c.(268-270)CCG>CAG	p.P90Q		NM_152637	NP_689850	Q6UX53	MET7B_HUMAN	methyltransferase like 7B precursor	90							methyltransferase activity				0						TTCTACCCACCGGGCTGCAGG	0.567													17	50	---	---	---	---	PASS	A	56075807	A	A	56075807	3	1	102	1	0	0	0	0	1	0	0	0	9506	652	23	1	271	1	METTL7B	12	56075807	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	40980245	56075807	77776088	157	38083										
ITGA7	3679	broad.mit.edu	37	chr12	56094858	56094858	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atggccaggtcctggctgagCacaaagcagcgaccaatcat	11	12	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr12:56094858C>T	uc001shh.2	-	4	715	c.495G>A	c.(493-495)GTG>GTA	p.V165V	ITGA7_uc001shg.2_Silent_p.V165V|ITGA7_uc010sps.1_Silent_p.V68V|ITGA7_uc009znx.2_Silent_p.V52V	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	165	FG-GAP 2.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						CCTGGCTGAGCACAAAGCAGC	0.592													24	66	---	---	---	---	PASS	T	56094858	T	T	56094858	2	4	102	1	0	0	0	0	0	0	0	1	7881	697	25	3		3	ITGA7	12	56094858	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	19051	56094858	77757037	158	38084										
CCDC38	120935	broad.mit.edu	37	chr12	96300166	96300166	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gaaaagttatttttactaccTcgagcagaaacctgtctctc	6	10	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr12:96300166T>C	uc001tek.1	-	5	602	c.368A>G	c.(367-369)GAG>GGG	p.E123G		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	123										skin(1)	1						TTTTACTACCTCGAGCAGAAA	0.363													11	48	---	---	---	---	PASS	C	96300166	C	C	96300166	3	2	102	1	0	0	0	0	1	0	0	0	2810	1565	54	5	1371	5	CCDC38	12	96300166	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	40205308	96300166	37551729	159	38085										
IGF1	3479	broad.mit.edu	37	chr12	102813396	102813396	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gcctccttagatcacagctcCggaagcagcactcatccacg	8	16	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr12:102813396C>T	uc001tjp.3	-	3	512	c.293G>A	c.(292-294)CGG>CAG	p.R98Q	IGF1_uc001tjn.2_Missense_Mutation_p.R82Q|IGF1_uc001tjm.2_Missense_Mutation_p.R98Q|IGF1_uc001tjo.2_Missense_Mutation_p.R98Q	NM_001111285	NP_001104755	P05019	IGF1_HUMAN	insulin-like growth factor 1 isoform 3	98	A.				anti-apoptosis|bone mineralization involved in bone maturation|cellular component movement|DNA replication|glycolate metabolic process|muscle hypertrophy|myoblast differentiation|myoblast proliferation|myotube cell development|negative regulation of smooth muscle cell apoptosis|phosphatidylinositol-mediated signaling|platelet activation|platelet degranulation|positive regulation of activated T cell proliferation|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis|positive regulation of osteoblast differentiation|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of Ras protein signal transduction|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tyrosine phosphorylation of Stat5 protein|Ras protein signal transduction|regulation of multicellular organism growth|satellite cell maintenance involved in skeletal muscle regeneration	platelet alpha granule lumen	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|integrin binding			central_nervous_system(1)|pancreas(1)	2						ATCACAGCTCCGGAAGCAGCA	0.597													3	53	---	---	---	---	PASS	T	102813396	T	T	102813396	3	4	102	1	0	0	0	0	1	0	0	0	7570	652	23	1	366	1	IGF1	12	102813396	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	6513230	102813396	31038499	160	38086										
TMEM132D	121256	broad.mit.edu	37	chr12	129559245	129559245	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgcgagggttttttgggcctTctgtcactgacattgttttc	11	8	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr12:129559245T>C	uc009zyl.1	-	9	2803	c.2475A>G	c.(2473-2475)AGA>AGG	p.R825R	TMEM132D_uc001uia.2_Silent_p.R363R	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	825	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TTTTGGGCCTTCTGTCACTGA	0.512													4	95	---	---	---	---	PASS	C	129559245	C	C	129559245	2	2	102	1	0	0	0	0	0	0	0	1	16044	1780	62	5		5	TMEM132D	12	129559245	Silent	SNP	T	TCGA-43-6770-01A-11D-1817-08	26745849	129559245	4292650	161	38087										
UGGT2	55757	broad.mit.edu	37	chr13	96513097	96513097	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgaaaaaatgtttaggacatCtttttcctttttgttttctt	5	5	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr13:96513097C>A	uc001vmt.2	-	32	3855	c.3685G>T	c.(3685-3687)GAT>TAT	p.D1229Y		NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	1229	Glucosyltransferase.				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						TTTAGGACATCTTTTTCCTTT	0.259													19	22	---	---	---	---	PASS	A	96513097	A	A	96513097	3	1	102	1	0	0	0	0	1	0	0	0	16939	913	32	2	897	2	UGGT2	13	96513097	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08		96513097	18656781	162	38088										
TM9SF2	9375	broad.mit.edu	37	chr13	100181844	100181844	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgttattgaattatcaacatCactggtaaggcatgaatatt	7	5	2	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr13:100181844C>T	uc001voj.1	+	4	590	c.457C>T	c.(457-459)CAC>TAC	p.H153Y	TM9SF2_uc010afz.1_Intron	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor	153	Lumenal (Potential).				transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)					TTATCAACATCACTGGTAAGG	0.294													23	72	---	---	---	---	PASS	T	100181844	T	T	100181844	3	4	102	1	0	0	0	0	1	0	0	0	15975	826	29	2	471	2	TM9SF2	13	100181844	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	3668747	100181844	14988034	163	38089										
NALCN	259232	broad.mit.edu	37	chr13	101763490	101763490	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atttacctgcgctcttggcgGatatgatgctgcacgctgag	12	10	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr13:101763490G>A	uc001vox.1	-	19	2469	c.2280C>T	c.(2278-2280)ATC>ATT	p.I760I		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	760	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GCTCTTGGCGGATATGATGCT	0.522													12	217	---	---	---	---	PASS	A	101763490	A	A	101763490	2	1	102	1	0	0	0	0	0	0	0	1	10148	1164	41	2		2	NALCN	13	101763490	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	1581646	101763490	13406388	164	38090										
TMCO3	55002	broad.mit.edu	37	chr13	114203835	114203835	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aggtgtgtgcccagaccggaGagacggtccagcctctgatg	15	11	1	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr13:114203835G>A	uc001vtu.3	+	13	2377	c.2016G>A	c.(2014-2016)GAG>GAA	p.E672E		NM_017905	NP_060375	Q6UWJ1	TMCO3_HUMAN	transmembrane and coiled-coil domains 3	672						integral to membrane	solute:hydrogen antiporter activity				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0145)|all_epithelial(44;0.00286)|all_lung(25;0.0273)|Breast(118;0.0411)|Lung NSC(25;0.0983)	all cancers(43;0.0317)			CCAGACCGGAGAGACGGTCCA	0.607													8	34	---	---	---	---	PASS	A	114203835	A	A	114203835	2	1	102	1	0	0	0	0	0	0	0	1	15994	933	33	2		2	TMCO3	13	114203835	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	12440345	114203835	966043	165	38091										
OR4N5	390437	broad.mit.edu	37	chr14	20612092	20612092	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tatttctttctgggcaacttGgccttactggatgcatccta	8	10	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr14:20612092G>T	uc010tla.1	+	1	198	c.198G>T	c.(196-198)TTG>TTT	p.L66F		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)		TGGGCAACTTGGCCTTACTGG	0.468													14	209	---	---	---	---	PASS	T	20612092	T	T	20612092	3	4	102	1	0	0	0	0	1	0	0	0	11079	1339	47	3	200	3	OR4N5	14	20612092	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08		20612092	86737448	166	38092										
PARP2	10038	broad.mit.edu	37	chr14	20824553	20824553	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atttgtttgaagtggagaagGatggtgagaaagaagccttc	14	3	0	4			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr14:20824553G>C	uc001vxc.2	+	12	1256	c.1228G>C	c.(1228-1230)GAT>CAT	p.D410H	PARP2_uc001vxd.2_Missense_Mutation_p.D397H|PARP2_uc001vxb.1_Missense_Mutation_p.D410H|PARP2_uc010tle.1_Missense_Mutation_p.D160H	NM_005484	NP_005475	Q9UGN5	PARP2_HUMAN	poly (ADP-ribose) polymerase family, member 2	410	PARP catalytic.				protein ADP-ribosylation	nucleolus|nucleoplasm	DNA binding|NAD+ ADP-ribosyltransferase activity			ovary(1)|pancreas(1)	2	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;5.34e-07)|all cancers(55;3.7e-06)	GBM - Glioblastoma multiforme(265;0.00888)|READ - Rectum adenocarcinoma(17;0.0649)		AGTGGAGAAGGATGGTGAGAA	0.458								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					18	166	---	---	---	---	PASS	C	20824553	C	C	20824553	3	2	102	1	0	0	0	0	1	0	0	0	11461	1174	41	2	1274	2	PARP2	14	20824553	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	212461	20824553	86524987	167	38093										
TPPP2	122664	broad.mit.edu	37	chr14	21500193	21500193	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgacaacacaggctatgtgaGtggttacaagggttctggca	13	7	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr14:21500193G>C	uc001vzh.2	+	4	658	c.470G>C	c.(469-471)AGT>ACT	p.S157T	NDRG2_uc010tll.1_Intron	NM_173846	NP_776245	P59282	TPPP2_HUMAN	tubulin polymerization-promoting protein family	157						cytoplasm					0	all_cancers(95;0.000759)		OV - Ovarian serous cystadenocarcinoma(11;6.85e-11)|Epithelial(56;9.49e-09)|all cancers(55;3.84e-08)	GBM - Glioblastoma multiforme(265;0.0191)		GGCTATGTGAGTGGTTACAAG	0.542													9	63	---	---	---	---	PASS	C	21500193	C	C	21500193	3	2	102	1	0	0	0	0	1	0	0	0	16411	1029	36	4	480	4	TPPP2	14	21500193	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	675640	21500193	85849347	168	38094										
LRFN5	145581	broad.mit.edu	37	chr14	42361139	42361139	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttctgtcacagaggggcccaCgtctaaaagagcacatataa	9	10	3	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr14:42361139C>A	uc001wvm.2	+	4	3270	c.2072C>A	c.(2071-2073)ACG>AAG	p.T691K	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	691	Cytoplasmic (Potential).					integral to membrane		p.T691M(1)		ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		GAGGGGCCCACGTCTAAAAGA	0.468										HNSCC(30;0.082)			20	28	---	---	---	---	PASS	A	42361139	A	A	42361139	3	1	102	1	0	0	0	0	1	0	0	0	8941	536	19	1	2078	1	LRFN5	14	42361139	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	20860946	42361139	64988401	169	38095										
C15orf55	256646	broad.mit.edu	37	chr15	34649392	34649392	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aaacttagcctctcaccaagGgagcatcccctcagtcctca	6	16	3	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:34649392G>C	uc001zif.2	+	7	3254	c.3099G>C	c.(3097-3099)AGG>AGC	p.R1033S	C15orf55_uc010ucc.1_Missense_Mutation_p.R1061S|C15orf55_uc010ucd.1_Missense_Mutation_p.R1051S	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	1033						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		TCTCACCAAGGGAGCATCCCC	0.532			T	BRD3|BRD4	lethal midline carcinoma								25	51	---	---	---	---	PASS	C	34649392	C	C	34649392	3	2	102	1	0	0	0	0	1	0	0	0	1803	1223	43	4	3125	4	C15orf55	15	34649392	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08		34649392	67882000	170	38096										
TUBGCP4	27229	broad.mit.edu	37	chr15	43692396	43692396	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atcacatggcatttttggtgGataatcttcagtactatctc	7	8	4	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:43692396G>C	uc001zro.2	+	14	1816	c.1576G>C	c.(1576-1578)GAT>CAT	p.D526H	TUBGCP4_uc001zrn.2_Missense_Mutation_p.D525H|TUBGCP4_uc010bdh.2_RNA	NM_014444	NP_055259	Q9UGJ1	GCP4_HUMAN	tubulin, gamma complex associated protein 4	526					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	structural constituent of cytoskeleton			ovary(3)	3		all_cancers(109;1.27e-10)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.72e-06)|all_lung(180;1.59e-05)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;3.53e-07)		ATTTTTGGTGGATAATCTTCA	0.488													29	112	---	---	---	---	PASS	C	43692396	C	C	43692396	3	2	102	1	0	0	0	0	1	0	0	0	16765	1174	41	2	1627	2	TUBGCP4	15	43692396	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	9043004	43692396	58838996	171	38097										
DUOX1	53905	broad.mit.edu	37	chr15	45426062	45426062	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttccctccattctcacacagGagctcagaaccccatttcgt	5	16	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:45426062G>T	uc001zus.1	+	4	405	c.59G>T	c.(58-60)GGA>GTA	p.G20V	DUOX1_uc001zut.1_Missense_Mutation_p.G20V|DUOX1_uc010bee.1_5'UTR	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	20					cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		TCTCACACAGGAGCTCAGAAC	0.577													35	93	---	---	---	---	PASS	T	45426062	T	T	45426062	3	4	102	1	0	0	0	0	1	0	0	0	4800	1188	41	2	65	2	DUOX1	15	45426062	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	1733666	45426062	57105330	172	38098										
SLC24A5	283652	broad.mit.edu	37	chr15	48413351	48413351	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctccctgccccaacgtctccCaagggccacaggtaggtgga	11	16	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:48413351C>A	uc001zwe.2	+	1	183	c.110C>A	c.(109-111)CCA>CAA	p.P37Q	SLC24A5_uc001zwd.2_Missense_Mutation_p.P37Q|SLC24A5_uc010bel.2_Missense_Mutation_p.P37Q	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	37	Extracellular (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)		CAACGTCTCCCAAGGGCCACA	0.572													15	38	---	---	---	---	PASS	A	48413351	A	A	48413351	3	1	102	1	0	0	0	0	1	0	0	0	14469	594	21	3	112	3	SLC24A5	15	48413351	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	2987289	48413351	54118041	173	38099										
FBN1	2200	broad.mit.edu	37	chr15	48717600	48717600	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccatcctcttgcagaatgtaGcctttcgggcatgaacactg	9	12	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:48717600G>T	uc001zwx.1	-	60	7747	c.7419C>A	c.(7417-7419)GGC>GGA	p.G2473G	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2473	EGF-like 42; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GCAGAATGTAGCCTTTCGGGC	0.473													6	115	---	---	---	---	PASS	T	48717600	T	T	48717600	2	4	102	1	0	0	0	0	0	0	0	1	5702	958	34	3		3	FBN1	15	48717600	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	304249	48717600	53813792	174	38100										
UNC13C	440279	broad.mit.edu	37	chr15	54630593	54630593	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aagccccccaaaagcgagcaTggtggtgaaggactgtgtaa	13	9	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:54630593T>C	uc002ack.2	+	15	4619	c.4619T>C	c.(4618-4620)ATG>ACG	p.M1540T	UNC13C_uc002acl.2_Missense_Mutation_p.M370T	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1540					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AAAGCGAGCATGGTGGTGAAG	0.433													67	177	---	---	---	---	PASS	C	54630593	C	C	54630593	3	2	102	1	0	0	0	0	1	0	0	0	16983	1464	51	5	4677	5	UNC13C	15	54630593	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	5912993	54630593	47900799	175	38101										
TLN2	83660	broad.mit.edu	37	chr15	63084986	63084986	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gcccgtgccgtcacggaaaaGgtaaggagcagccctcagtt	13	12	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:63084986G>T	uc002alb.3	+	43	5883	c.5883G>T	c.(5881-5883)AAG>AAT	p.K1961N	TLN2_uc002alc.3_Missense_Mutation_p.K354N	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1961					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						TCACGGAAAAGGTAAGGAGCA	0.552													5	32	---	---	---	---	PASS	T	63084986	T	T	63084986	3	4	102	1	0	0	0	0	1	0	0	0	15945	1014	35	3	6053	3	TLN2	15	63084986	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	8454393	63084986	39446406	176	38102										
PLEKHO2	80301	broad.mit.edu	37	chr15	65158077	65158077	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ggtgaccctctacaggagaaGtgcaccctagggccttctgg	13	12	2	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:65158077G>T	uc002anv.2	+	6	1597	c.1463G>T	c.(1462-1464)AGT>ATT	p.S488I	PLEKHO2_uc010bgz.2_Missense_Mutation_p.S164I|PLEKHO2_uc002anw.2_Missense_Mutation_p.S438I	NM_025201	NP_079477	Q8TD55	PKHO2_HUMAN	pleckstrin homology domain containing, family O	488										ovary(1)|lung(1)	2						TACAGGAGAAGTGCACCCTAG	0.577													15	49	---	---	---	---	PASS	T	65158077	T	T	65158077	3	4	102	1	0	0	0	0	1	0	0	0	12085	1029	36	3	1485	3	PLEKHO2	15	65158077	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	2073091	65158077	37373315	177	38103										
MAN2C1	4123	broad.mit.edu	37	chr15	75656349	75656349	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgctgtcctacctgtatcaaTgtggcagtgccctgtggcat	11	11	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:75656349T>C	uc002baf.2	-	6	798	c.781A>G	c.(781-783)ATT>GTT	p.I261V	MAN2C1_uc002bag.2_Missense_Mutation_p.I261V|MAN2C1_uc002bah.2_Missense_Mutation_p.I261V|MAN2C1_uc010bkk.2_Intron|MAN2C1_uc010umi.1_Missense_Mutation_p.I43V|MAN2C1_uc010umj.1_Intron|MAN2C1_uc010umk.1_RNA	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	261					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						CCTGTATCAATGTGGCAGTGC	0.418													19	54	---	---	---	---	PASS	C	75656349	C	C	75656349	3	2	102	1	0	0	0	0	1	0	0	0	9218	1464	51	5	2425	5	MAN2C1	15	75656349	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	10498272	75656349	26875043	178	38104										
HMG20A	10363	broad.mit.edu	37	chr15	77771649	77771649	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gagaagttgtgaacagactcGatcgttagggaatggtgagt	15	4	0	4			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:77771649G>T	uc002bcr.2	+	10	1237	c.1036G>T	c.(1036-1038)GAT>TAT	p.D346Y	HMG20A_uc002bcs.2_Missense_Mutation_p.D346Y	NM_018200	NP_060670	Q9NP66	HM20A_HUMAN	high-mobility group 20A	346					chromatin modification	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity	p.D346N(1)		upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						GAACAGACTCGATCGTTAGGG	0.358													22	27	---	---	---	---	PASS	T	77771649	T	T	77771649	3	4	102	1	0	0	0	0	1	0	0	0	7221	1058	37	2	1066	2	HMG20A	15	77771649	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	2115300	77771649	24759743	179	38105										
AP3B2	8120	broad.mit.edu	37	chr15	83331597	83331597	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aaaggttggcggctgaaggtGtagtccacagccagcccctc	13	12	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:83331597G>T	uc010uoh.1	-	22	2802	c.2625C>A	c.(2623-2625)TAC>TAA	p.Y875*	AP3B2_uc010uoi.1_Nonsense_Mutation_p.Y894*|AP3B2_uc010uoj.1_Nonsense_Mutation_p.Y843*|AP3B2_uc010bmp.2_5'Flank|AP3B2_uc010uog.1_Nonsense_Mutation_p.Y511*	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	875					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)			GGCTGAAGGTGTAGTCCACAG	0.617													4	38	---	---	---	---	PASS	T	83331597	T	T	83331597	4	4	102	1	0	0	0	0	0	1	0	0	745	1372	48	3	643	3	AP3B2	15	83331597	Nonsense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	5559948	83331597	19199795	180	38106										
AKAP13	11214	broad.mit.edu	37	chr15	86124590	86124590	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gttacaggggttaatgctctAcaaggtatggctgagcccag	13	8	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:86124590A>G	uc002blv.1	+	7	3461	c.3291A>G	c.(3289-3291)CTA>CTG	p.L1097L	AKAP13_uc002blt.1_Silent_p.L1097L|AKAP13_uc002blu.1_Silent_p.L1097L|AKAP13_uc010bne.1_5'Flank	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1097					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TTAATGCTCTACAAGGTATGG	0.473													16	110	---	---	---	---	PASS	G	86124590	G	G	86124590	2	3	102	1	0	0	0	0	0	0	0	1	449	378	14	5		5	AKAP13	15	86124590	Silent	SNP	A	TCGA-43-6770-01A-11D-1817-08	2792993	86124590	16406802	181	38107										
ISG20	3669	broad.mit.edu	37	chr15	89198686	89198686	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctcggtggaagatgcgagggCaacgatggagctctatcaaa	14	8	2	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:89198686C>T	uc002bmv.1	+	4	763	c.470C>T	c.(469-471)GCA>GTA	p.A157V	ISG20_uc002bmu.1_RNA|ISG20_uc002bmw.1_RNA|ISG20_uc010upn.1_RNA	NM_002201	NP_002192	Q96AZ6	ISG20_HUMAN	interferon stimulated exonuclease	157					cell proliferation|DNA catabolic process, exonucleolytic|response to virus|RNA catabolic process|type I interferon-mediated signaling pathway	PML body	3'-5'-exoribonuclease activity|exoribonuclease II activity|metal ion binding|RNA binding|single-stranded DNA specific 3'-5' exodeoxyribonuclease activity				0	Lung NSC(78;0.0554)|all_lung(78;0.103)		BRCA - Breast invasive adenocarcinoma(143;0.12)			GATGCGAGGGCAACGATGGAG	0.602													18	100	---	---	---	---	PASS	T	89198686	T	T	89198686	3	4	102	1	0	0	0	0	1	0	0	0	7854	710	25	3	480	3	ISG20	15	89198686	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	3074096	89198686	13332706	182	38108										
PRC1	9055	broad.mit.edu	37	chr15	91524812	91524812	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttcacacaccacatctctttCaaagcttgtgtctggggtgt	8	11	4	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr15:91524812C>G	uc002bqm.2	-	5	746	c.589G>C	c.(589-591)GAA>CAA	p.E197Q	PRC1_uc002bqn.2_Missense_Mutation_p.E197Q|PRC1_uc002bqo.2_Missense_Mutation_p.E197Q|PRC1_uc010uqs.1_Missense_Mutation_p.E156Q|PRC1_uc010uqt.1_Missense_Mutation_p.E145Q	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	197	Dimerization.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					ACATCTCTTTCAAAGCTTGTG	0.413													13	66	---	---	---	---	PASS	G	91524812	G	G	91524812	3	3	102	1	0	0	0	0	1	0	0	0	12446	835	29	2	1317	2	PRC1	15	91524812	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	2326126	91524812	11006580	183	38109										
FLYWCH1	84256	broad.mit.edu	37	chr16	2987296	2987296	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccggcgggtcatggtcatgcGcaggcactgccacccaccgg	14	16	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr16:2987296G>T	uc002csd.2	+	7	2051	c.1688G>T	c.(1687-1689)CGC>CTC	p.R563L	FLYWCH1_uc002csb.2_Missense_Mutation_p.R562L|FLYWCH1_uc002csc.2_Missense_Mutation_p.R562L|FLYWCH1_uc010bsv.2_Missense_Mutation_p.R287L|FLYWCH1_uc002cse.2_Missense_Mutation_p.R18L	NM_032296	NP_115672	Q4VC44	FWCH1_HUMAN	FLYWCH-type zinc finger 1 isoform a	563	FLYWCH-type 4.					nucleus	DNA binding|metal ion binding				0						ATGGTCATGCGCAGGCACTGC	0.726													11	13	---	---	---	---	PASS	T	2987296	T	T	2987296	3	4	102	1	0	0	0	0	1	0	0	0	5947	1087	38	1	1703	1	FLYWCH1	16	2987296	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08		2987296	87367457	184	38110										
ABCC11	85320	broad.mit.edu	37	chr16	48256530	48256530	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tctcctgaggtgatgtgtatTacagacttaaattggatgag	11	5	1	4			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr16:48256530T>A	uc002eff.1	-	5	1106	c.756A>T	c.(754-756)GTA>GTT	p.V252V	ABCC11_uc002efg.1_Silent_p.V252V|ABCC11_uc002efh.1_Silent_p.V252V|ABCC11_uc010vgl.1_Silent_p.V252V	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	252	ABC transmembrane type-1 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				TGATGTGTATTACAGACTTAA	0.512									Cerumen_Type				23	62	---	---	---	---	PASS	A	48256530	A	A	48256530	2	1	102	1	0	0	0	0	0	0	0	1	51	1741	61	5		5	ABCC11	16	48256530	Silent	SNP	T	TCGA-43-6770-01A-11D-1817-08	45269234	48256530	42098223	185	38111										
PKD1L2	114780	broad.mit.edu	37	chr16	81209275	81209275	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ggcagaaataactactgtcaGcacaaagtcattgttctcct	7	10	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr16:81209275G>C	uc002fgh.1	-	15	2518	c.2518C>G	c.(2518-2520)CTG>GTG	p.L840V	PKD1L2_uc002fgg.1_RNA|PKD1L2_uc002fgi.2_Missense_Mutation_p.L155V|PKD1L2_uc002fgj.2_Missense_Mutation_p.L840V|PKD1L2_uc002fgk.1_5'UTR|PKD1L2_uc002fgl.1_Missense_Mutation_p.L96V	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	840	REJ.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						ACTACTGTCAGCACAAAGTCA	0.522													17	100	---	---	---	---	PASS	C	81209275	C	C	81209275	3	2	102	1	0	0	0	0	1	0	0	0	11965	962	34	4	5046	4	PKD1L2	16	81209275	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	32952745	81209275	9145478	186	38112										
TP53	7157	broad.mit.edu	37	chr17	7578235	7578235	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aagtgtttctgtcatccaaaTactccacacgcaaatttcct	4	12	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:7578235T>C	uc002gim.2	-	6	808	c.614A>G	c.(613-615)TAT>TGT	p.Y205C	TP53_uc002gig.1_Missense_Mutation_p.Y205C|TP53_uc002gih.2_Missense_Mutation_p.Y205C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y73C|TP53_uc010cng.1_Missense_Mutation_p.Y73C|TP53_uc002gii.1_Missense_Mutation_p.Y73C|TP53_uc010cnh.1_Missense_Mutation_p.Y205C|TP53_uc010cni.1_Missense_Mutation_p.Y205C|TP53_uc002gij.2_Missense_Mutation_p.Y205C|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.Y112C|TP53_uc002gio.2_Missense_Mutation_p.Y73C|TP53_uc010vug.1_Missense_Mutation_p.Y166C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	205	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> N (in sporadic cancers; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).|Y -> F (in sporadic cancers; somatic mutation).|Y -> S (in sporadic cancers; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> C (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Y205C(55)|p.Y205D(13)|p.Y205S(11)|p.Y205F(8)|p.0?(7)|p.Y205H(5)|p.Y205*(4)|p.Y205N(2)|p.K164_P219del(1)|p.Y205fs*42(1)|p.Y112C(1)|p.Y205fs*43(1)|p.E204fs*39(1)|p.Y73C(1)|p.E204_N210delEYLDDRN(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)		GTCATCCAAATACTCCACACG	0.542		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)			33	22	---	---	---	---	PASS	C	7578235	C	C	7578235	3	2	102	1	0	0	0	0	1	0	0	0	16378	1406	49	5	680	5	TP53	17	7578235	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08		7578235	73616975	187	38113										
MYH3	4621	broad.mit.edu	37	chr17	10543520	10543520	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttcatccagggccagtgcttGacgttcatgaatgagcgaat	11	9	2	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:10543520G>A	uc002gmq.1	-	21	2552	c.2475C>T	c.(2473-2475)GTC>GTT	p.V825V		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	825			V -> D (in DA2A).		muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						GCCAGTGCTTGACGTTCATGA	0.468													43	96	---	---	---	---	PASS	A	10543520	A	A	10543520	2	1	102	1	0	0	0	0	0	0	0	1	10036	1277	45	2		2	MYH3	17	10543520	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	2965285	10543520	70651690	188	38114										
TRIM16L	147166	broad.mit.edu	37	chr17	18638695	18638695	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gccttctggctttccaagaaGgaaaacgccatccggattgt	10	11	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:18638695G>C	uc002gug.1	+	10	1656	c.969G>C	c.(967-969)AAG>AAC	p.K323N	TRIM16L_uc010vyf.1_Missense_Mutation_p.K377N|TRIM16L_uc002guh.1_Missense_Mutation_p.K323N|TRIM16L_uc010cqg.1_Missense_Mutation_p.K425N|TRIM16L_uc002gui.1_Missense_Mutation_p.K323N|TRIM16L_uc010vyg.1_Missense_Mutation_p.K323N|TRIM16L_uc010vyh.1_3'UTR	NM_001037330	NP_001032407	Q309B1	TR16L_HUMAN	tripartite motif-containing 16-like	323	B30.2/SPRY.					cytoplasm					0						TTTCCAAGAAGGAAAACGCCA	0.512													30	45	---	---	---	---	PASS	C	18638695	C	C	18638695	3	2	102	1	0	0	0	0	1	0	0	0	16489	991	35	4	983	4	TRIM16L	17	18638695	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	8095175	18638695	62556515	189	38115										
SLFN13	146857	broad.mit.edu	37	chr17	33767706	33767706	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gtcagctgtccttggatggaTcccaaacactatgctccttt	8	12	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:33767706T>A	uc002hjk.1	-	4	2932	c.2602A>T	c.(2602-2604)ATC>TTC	p.I868F	SLFN13_uc010wch.1_Missense_Mutation_p.I868F|SLFN13_uc002hjl.2_Missense_Mutation_p.I868F|SLFN13_uc010ctt.2_Missense_Mutation_p.I550F|SLFN13_uc002hjm.2_Missense_Mutation_p.I537F	NM_144682	NP_653283	Q68D06	SLN13_HUMAN	schlafen family member 13	868						intracellular	ATP binding			ovary(1)|breast(1)	2				UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		CTTGGATGGATCCCAAACACT	0.483													57	104	---	---	---	---	PASS	A	33767706	A	A	33767706	3	1	102	1	0	0	0	0	1	0	0	0	14736	1435	50	5	95	5	SLFN13	17	33767706	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	15129011	33767706	47427504	190	38116										
ACACA	31	broad.mit.edu	37	chr17	35487070	35487070	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tcatcacacacagtgcagtgGgtcaccccattgttgtgcat	9	12	3	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:35487070G>T	uc002hnm.2	-	46	5834	c.5643C>A	c.(5641-5643)ACC>ACA	p.T1881T	ACACA_uc002hnk.2_Silent_p.T1803T|ACACA_uc002hnl.2_Silent_p.T1823T|ACACA_uc002hnn.2_Silent_p.T1881T|ACACA_uc002hno.2_Silent_p.T1918T|ACACA_uc010cuy.2_Silent_p.T526T|ACACA_uc010wdc.1_Silent_p.T7T	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1881	Carboxyltransferase.				acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	CAGTGCAGTGGGTCACCCCAT	0.532													54	83	---	---	---	---	PASS	T	35487070	T	T	35487070	2	4	102	1	0	0	0	0	0	0	0	1	106	1219	43	3		3	ACACA	17	35487070	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	1719364	35487070	45708140	191	38117										
OR4D2	124538	broad.mit.edu	37	chr17	56247203	56247203	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	acacacccatgtactttctgCtccgaaacctggctgtccta	6	15	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:56247203C>T	uc010wnp.1	+	1	187	c.187C>T	c.(187-189)CTC>TTC	p.L63F		NM_001004707	NP_001004707	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D,	63	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						GTACTTTCTGCTCCGAAACCT	0.473													100	130	---	---	---	---	PASS	T	56247203	T	T	56247203	3	4	102	1	0	0	0	0	1	0	0	0	11056	797	28	3	189	3	OR4D2	17	56247203	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	20760133	56247203	24948007	192	38118										
MRC2	9902	broad.mit.edu	37	chr17	60753804	60753804	+	Silent	SNP	G	T	T													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gagggcgagtacttctggacGgccctgcaggacctcaacag							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:60753804G>T	uc002jad.2	+	11	2148	c.1746G>T	c.(1744-1746)ACG>ACT	p.T582T	MRC2_uc002jac.2_Silent_p.T582T|MRC2_uc010ddq.1_RNA	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	582	Extracellular (Potential).|C-type lectin 3.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						ACTTCTGGACGGCCCTGCAGG	0.612													45	63	---	---	---	---	PASS	T	60753804	T	T	60753804	2	4	102	1	0	0	0	0	0	0	0	1	9758	1103	39	1		1	MRC2	17	60753804	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	4506601	60753804	20441406	193	38119	712	2								
MRC2	9902	broad.mit.edu	37	chr17	60753805	60753805	+	Missense_Mutation	SNP	G	T	T													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agggcgagtacttctggacgGccctgcaggacctcaacagc							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:60753805G>T	uc002jad.2	+	11	2149	c.1747G>T	c.(1747-1749)GCC>TCC	p.A583S	MRC2_uc002jac.2_Missense_Mutation_p.A583S|MRC2_uc010ddq.1_RNA	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	583	Extracellular (Potential).|C-type lectin 3.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CTTCTGGACGGCCCTGCAGGA	0.612													45	63	---	---	---	---	PASS	T	60753805	T	T	60753805	3	4	102	1	0	0	0	0	1	0	0	0	9758	1203	42	3	1789	3	MRC2	17	60753805	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	1	60753805	20441405	194	38120	712	2								
HELZ	9931	broad.mit.edu	37	chr17	65134182	65134182	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atctaacttcccccacgctaCtggccacttccttcttaact	3	17	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:65134182C>A	uc010wqk.1	-	22	3008	c.2821G>T	c.(2821-2823)GTA>TTA	p.V941L	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.V940L	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					CCCCACGCTACTGGCCACTTC	0.398													48	80	---	---	---	---	PASS	A	65134182	A	A	65134182	3	1	102	1	0	0	0	0	1	0	0	0	7049	565	20	3	3058	3	HELZ	17	65134182	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	4380377	65134182	16061028	195	38121										
GRIN2C	2905	broad.mit.edu	37	chr17	72842296	72842296	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccgtagccagtggtagcaaaGaccttgccagacccaatggt	11	12	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:72842296G>C	uc002jlt.1	-	11	2415	c.2259C>G	c.(2257-2259)GTC>GTG	p.V753V	GRIN2C_uc010wrh.1_RNA|GRIN2C_uc002jlu.1_Silent_p.V753V	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	753	Extracellular (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	TGGTAGCAAAGACCTTGCCAG	0.587													7	146	---	---	---	---	PASS	C	72842296	C	C	72842296	2	2	102	1	0	0	0	0	0	0	0	1	6781	929	33	2		2	GRIN2C	17	72842296	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	7708114	72842296	8352914	196	38122										
GRIN2C	2905	broad.mit.edu	37	chr17	72846477	72846477	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tcgatgcagaatcccttacaGcagagcttggtgtagggggc	14	9	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:72846477G>A	uc002jlt.1	-	6	1515	c.1359C>T	c.(1357-1359)TGC>TGT	p.C453C	GRIN2C_uc010wrh.1_RNA|GRIN2C_uc002jlu.1_Silent_p.C453C	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	453	Extracellular (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	ATCCCTTACAGCAGAGCTTGG	0.617													100	118	---	---	---	---	PASS	A	72846477	A	A	72846477	2	1	102	1	0	0	0	0	0	0	0	1	6781	963	34	3		3	GRIN2C	17	72846477	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	4181	72846477	8348733	197	38123										
C17orf28	283987	broad.mit.edu	37	chr17	72955976	72955976	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	actgtggggactggacttgcCtcctcacgatggatgcggga	15	10	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:72955976C>T	uc002jmj.3	-	8	1157	c.1008G>A	c.(1006-1008)GAG>GAA	p.E336E	C17orf28_uc010wrs.1_Silent_p.E135E|C17orf28_uc002jmk.2_Silent_p.E335E	NM_030630	NP_085133	Q8IV36	CQ028_HUMAN	hypothetical protein LOC283987	336						integral to membrane|plasma membrane	protein binding				0	all_lung(278;0.151)|Lung NSC(278;0.185)					CTGGACTTGCCTCCTCACGAT	0.602													98	104	---	---	---	---	PASS	T	72955976	T	T	72955976	2	4	102	1	0	0	0	0	0	0	0	1	1853	695	24	3		3	C17orf28	17	72955976	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	109499	72955976	8239234	198	38124										
CCDC40	55036	broad.mit.edu	37	chr17	78073416	78073416	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgttcctgttccgctccaagCagtccctagtgctggagcgc	11	14	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:78073416C>A	uc010dht.2	+	20	3298	c.3271C>A	c.(3271-3273)CAG>AAG	p.Q1091K	CCDC40_uc002jxm.3_Missense_Mutation_p.Q874K|CCDC40_uc002jxn.3_Missense_Mutation_p.Q487K|GAA_uc002jxo.2_5'Flank|GAA_uc002jxp.2_5'Flank|GAA_uc002jxq.2_5'Flank	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	1091					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			CCGCTCCAAGCAGTCCCTAGT	0.632													4	68	---	---	---	---	PASS	A	78073416	A	A	78073416	3	1	102	1	0	0	0	0	1	0	0	0	2812	711	25	3	3349	3	CCDC40	17	78073416	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	5117440	78073416	3121794	199	38125										
AZI1	22994	broad.mit.edu	37	chr17	79164546	79164546	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gctgccagccggtcctcgaaCtcctggcggatcacctgggc	13	16	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr17:79164546C>A	uc002jzp.1	-	24	3209	c.3009G>T	c.(3007-3009)GAG>GAT	p.E1003D	AZI1_uc002jzm.1_Missense_Mutation_p.E435D|AZI1_uc002jzn.1_Missense_Mutation_p.E1000D|AZI1_uc002jzo.1_Missense_Mutation_p.E964D|AZI1_uc010wum.1_Missense_Mutation_p.E967D|AZI1_uc002jzq.2_Missense_Mutation_p.E151D	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	1003					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			GGTCCTCGAACTCCTGGCGGA	0.692													6	37	---	---	---	---	PASS	A	79164546	A	A	79164546	3	1	102	1	0	0	0	0	1	0	0	0	1240	564	20	3	254	3	AZI1	17	79164546	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	1091130	79164546	2030664	200	38126										
MYOM1	8736	broad.mit.edu	37	chr18	3215167	3215167	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ggtgctgcgcacgtccttgtTgcggtagctgagatcatagt	14	9	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr18:3215167T>C	uc002klp.2	-	2	389	c.55A>G	c.(55-57)AAC>GAC	p.N19D	MYOM1_uc002klq.2_Missense_Mutation_p.N19D	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	19						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						ACGTCCTTGTTGCGGTAGCTG	0.587													17	38	---	---	---	---	PASS	C	3215167	C	C	3215167	3	2	102	1	0	0	0	0	1	0	0	0	10091	1812	63	5	5150	5	MYOM1	18	3215167	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08		3215167	74862081	201	38127										
LAMA1	284217	broad.mit.edu	37	chr18	6943182	6943182	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	caggtacccgtacataccagGatagccaccaacataaatgg	8	12	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr18:6943182G>C	uc002knm.2	-	62	9158	c.9064C>G	c.(9064-9066)CCT>GCT	p.P3022A	LAMA1_uc002knk.2_Missense_Mutation_p.P352A|LAMA1_uc002knl.2_Missense_Mutation_p.P475A|LAMA1_uc010wzj.1_Missense_Mutation_p.P2498A	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	3022	Laminin G-like 5.				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)	TACATACCAGGATAGCCACCA	0.498													31	69	---	---	---	---	PASS	C	6943182	C	C	6943182	3	2	102	1	0	0	0	0	1	0	0	0	8605	1174	41	2	171	2	LAMA1	18	6943182	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	3728015	6943182	71134066	202	38128										
KIAA0802	23255	broad.mit.edu	37	chr18	8784453	8784453	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cacggagctcctgaaggcccGggaggactctgagtacctag	14	12	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr18:8784453G>T	uc002knr.2	+	6	1485	c.1343G>T	c.(1342-1344)CGG>CTG	p.R448L	KIAA0802_uc002knq.2_Missense_Mutation_p.R448L|KIAA0802_uc010dkw.1_Missense_Mutation_p.R286L	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	799											0						CTGAAGGCCCGGGAGGACTCT	0.622													63	119	---	---	---	---	PASS	T	8784453	T	T	8784453	3	4	102	1	0	0	0	0	1	0	0	0	8194	1116	39	1	1357	1	KIAA0802	18	8784453	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	1841271	8784453	69292795	203	38129										
TAF4B	6875	broad.mit.edu	37	chr18	23866131	23866131	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	attctgtgggcccaactgctGcaacaggaggaacaacagct	11	11	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr18:23866131G>A	uc002kvu.3	+	7	1747	c.1258G>A	c.(1258-1260)GCA>ACA	p.A420T	TAF4B_uc002kvs.3_RNA|TAF4B_uc002kvt.3_Missense_Mutation_p.A420T	NM_005640	NP_005631	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding	420					transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			CCCAACTGCTGCAACAGGAGG	0.507													33	83	---	---	---	---	PASS	A	23866131	A	A	23866131	3	1	102	1	0	0	0	0	1	0	0	0	15524	1319	46	3	1284	3	TAF4B	18	23866131	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	15081678	23866131	54211117	204	38130										
RIT2	6014	broad.mit.edu	37	chr18	40503645	40503645	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aacttggcagcctcctgaaaTgattgacggtcagtgacgga	12	9	1	4			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr18:40503645T>A	uc002lav.2	-	4	491	c.318A>T	c.(316-318)TCA>TCT	p.S106S	RIT2_uc010dnf.2_Silent_p.S106S	NM_002930	NP_002921	Q99578	RIT2_HUMAN	Ras-like without CAAX 2	106					nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1						CCTCCTGAAATGATTGACGGT	0.483													117	261	---	---	---	---	PASS	A	40503645	A	A	40503645	2	1	102	1	0	0	0	0	0	0	0	1	13387	1451	51	5		5	RIT2	18	40503645	Silent	SNP	T	TCGA-43-6770-01A-11D-1817-08	16637514	40503645	37573603	205	38131										
SLC14A1	6563	broad.mit.edu	37	chr18	43314309	43314309	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tactcatggctgtcttttcgGacaagggagactatttctgg	11	8	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr18:43314309G>T	uc010xcn.1	+	6	731	c.412G>T	c.(412-414)GAC>TAC	p.D138Y	SLC14A1_uc010dnk.2_Missense_Mutation_p.D194Y|SLC14A1_uc002lbf.3_Missense_Mutation_p.D138Y|SLC14A1_uc002lbg.3_RNA|SLC14A1_uc010xco.1_Missense_Mutation_p.D33Y|SLC14A1_uc002lbh.3_Missense_Mutation_p.D30Y|SLC14A1_uc002lbi.3_Missense_Mutation_p.D6Y|SLC14A1_uc002lbj.3_Missense_Mutation_p.D194Y|SLC14A1_uc002lbk.3_Missense_Mutation_p.D138Y	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	138						integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						TGTCTTTTCGGACAAGGGAGA	0.448													55	132	---	---	---	---	PASS	T	43314309	T	T	43314309	3	4	102	1	0	0	0	0	1	0	0	0	14396	1174	41	2	594	2	SLC14A1	18	43314309	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	2810664	43314309	34762939	206	38132										
KIAA0427	9811	broad.mit.edu	37	chr18	46284498	46284498	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	caccaggcgacaagggggagGcaggcgcacaccgcaatgcc	15	14	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr18:46284498G>A	uc002ldc.2	+	8	1078	c.793G>A	c.(793-795)GCA>ACA	p.A265T	KIAA0427_uc002ldd.2_Missense_Mutation_p.A265T|KIAA0427_uc002lde.3_5'Flank	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	265	Interaction with NCBP1/CBP80.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						CAAGGGGGAGGCAGGCGCACA	0.647													20	56	---	---	---	---	PASS	A	46284498	A	A	46284498	3	1	102	1	0	0	0	0	1	0	0	0	8176	1203	42	3	819	3	KIAA0427	18	46284498	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	2970189	46284498	31792750	207	38133										
ALPK2	115701	broad.mit.edu	37	chr18	56246255	56246255	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agtcgctgctgctgtggtgtGagaagtctctcttttatcac	11	9	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr18:56246255G>A	uc002lhj.3	-	4	1967	c.1753C>T	c.(1753-1755)CAC>TAC	p.H585Y		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	585							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						GCTGTGGTGTGAGAAGTCTCT	0.488											OREG0025011	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	55	84	---	---	---	---	PASS	A	56246255	A	A	56246255	3	1	102	1	0	0	0	0	1	0	0	0	545	1290	45	2	4799	2	ALPK2	18	56246255	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	9961757	56246255	21830993	208	38134										
CELF5	60680	broad.mit.edu	37	chr19	3278102	3278102	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gccttgcatgggagccagacCatgccggtgagttggagctg	16	10	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:3278102C>T	uc002lxm.2	+	5	634	c.597C>T	c.(595-597)ACC>ACT	p.T199T	CELF5_uc002lxl.1_Silent_p.T199T|CELF5_uc010dtj.1_Silent_p.T199T|CELF5_uc010xhg.1_Silent_p.T85T|CELF5_uc002lxn.2_RNA	NM_021938	NP_068757	Q8N6W0	CELF5_HUMAN	bruno-like 5, RNA binding protein	199	RRM 2.				mRNA processing	cytoplasm|nucleus	nucleotide binding|RNA binding			ovary(2)	2						GGAGCCAGACCATGCCGGTGA	0.617													9	21	---	---	---	---	PASS	T	3278102	T	T	3278102	2	4	102	1	0	0	0	0	0	0	0	1	3219	581	21	3		3	CELF5	19	3278102	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08		3278102	55850881	209	38135										
FSD1	79187	broad.mit.edu	37	chr19	4323157	4323157	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gctgcaggtcagcttcacggCcaagcacgccaacaaggtca	11	14	3	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:4323157C>A	uc002lzy.2	+	11	1367	c.1214C>A	c.(1213-1215)GCC>GAC	p.A405D	FSD1_uc002lzz.2_Intron|FSD1_uc002maa.2_Missense_Mutation_p.A218D	NM_024333	NP_077309	Q9BTV5	FSD1_HUMAN	fibronectin type III and SPRY domain containing	405	B30.2/SPRY.				cell division|mitosis	cleavage furrow|microtubule|microtubule organizing center|nucleus				skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.034)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCTTCACGGCCAAGCACGCC	0.667													27	49	---	---	---	---	PASS	A	4323157	A	A	4323157	3	1	102	1	0	0	0	0	1	0	0	0	6070	739	26	3	1256	3	FSD1	19	4323157	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	1045055	4323157	54805826	210	38136										
ACTL9	284382	broad.mit.edu	37	chr19	8808441	8808441	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cctggaagacgggcactgtgTaggtgaccccgtgtcccgtg	15	12	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:8808441T>C	uc002mkl.2	-	1	732	c.611A>G	c.(610-612)TAC>TGC	p.Y204C		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	204						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						GGGCACTGTGTAGGTGACCCC	0.667													34	53	---	---	---	---	PASS	C	8808441	C	C	8808441	3	2	102	1	0	0	0	0	1	0	0	0	203	1638	57	5	643	5	ACTL9	19	8808441	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	4485284	8808441	50320542	211	38137										
MUC16	94025	broad.mit.edu	37	chr19	9064008	9064008	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tcctagtctcaaggaaggcaGgagttgatgtgagaacactt	12	7	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:9064008G>A	uc002mkp.2	-	3	23642	c.23438C>T	c.(23437-23439)CCT>CTT	p.P7813L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7815	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AAGGAAGGCAGGAGTTGATGT	0.537													49	136	---	---	---	---	PASS	A	9064008	A	A	9064008	3	1	102	1	0	0	0	0	1	0	0	0	9973	1000	35	3	20413	3	MUC16	19	9064008	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	255567	9064008	50064975	212	38138										
ATG4D	84971	broad.mit.edu	37	chr19	10662585	10662585	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccctgcaggaactcctgcgtTgcgagctgtgcctgggcatc	13	14	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:10662585T>C	uc002mov.2	+	7	1099	c.979T>C	c.(979-981)TGC>CGC	p.C327R	ATG4D_uc010xlh.1_Missense_Mutation_p.C264R|ATG4D_uc010dxh.2_RNA|ATG4D_uc010dxi.2_RNA|ATG4D_uc010dxj.2_5'UTR|MIR1238_hsa-mir-1238|MI0006328_5'Flank	NM_032885	NP_116274	Q86TL0	ATG4D_HUMAN	APG4 autophagy 4 homolog D	327					autophagy|protein transport	cytoplasm	cysteine-type endopeptidase activity				0			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			ACTCCTGCGTTGCGAGCTGTG	0.348													14	24	---	---	---	---	PASS	C	10662585	C	C	10662585	3	2	102	1	0	0	0	0	1	0	0	0	1099	1812	63	5	1005	5	ATG4D	19	10662585	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	1598577	10662585	48466398	213	38139										
CHERP	10523	broad.mit.edu	37	chr19	16632349	16632349	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tacctgttcctgggcctgtcGtgggacggggggctgtagaa	17	9	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:16632349G>C	uc002nei.1	-	12	2171	c.2097C>G	c.(2095-2097)CAC>CAG	p.H699Q	MED26_uc002nee.2_Intron|CHERP_uc010xpg.1_Missense_Mutation_p.H238Q	NM_006387	NP_006378	Q8IWX8	CHERP_HUMAN	calcium homeostasis endoplasmic reticulum	699					cellular calcium ion homeostasis|negative regulation of cell proliferation|nervous system development|RNA processing	endoplasmic reticulum|perinuclear region of cytoplasm	RNA binding			ovary(2)	2						TGGGCCTGTCGTGGGACGGGG	0.672													8	21	---	---	---	---	PASS	C	16632349	C	C	16632349	3	2	102	1	0	0	0	0	1	0	0	0	3336	1136	40	4	677	4	CHERP	19	16632349	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	5969764	16632349	42496634	214	38140										
ANO8	57719	broad.mit.edu	37	chr19	17438618	17438618	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agggcgcacagcgccgccagGgggaaggcggacgagaagag	20	10	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:17438618G>T	uc002ngf.2	-	14	2457	c.2298C>A	c.(2296-2298)CCC>CCA	p.P766P	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	766	Helical; (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						GCGCCGCCAGGGGGAAGGCGG	0.652													50	112	---	---	---	---	PASS	T	17438618	T	T	17438618	2	4	102	1	0	0	0	0	0	0	0	1	703	1219	43	3		3	ANO8	19	17438618	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	806269	17438618	41690365	215	38141										
ZNF714	148206	broad.mit.edu	37	chr19	21300974	21300974	+	Nonsense_Mutation	SNP	C	T	T													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttactaaacataggaaaattCagcagggcatggtggctcat							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:21300974C>T	uc002npo.3	+	6	1867	c.1507C>T	c.(1507-1509)CAG>TAG	p.Q503*	ZNF714_uc002npl.2_Nonsense_Mutation_p.Q348*|ZNF714_uc010ecp.1_Nonsense_Mutation_p.Q454*|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	503	C2H2-type 14; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TAGGAAAATTCAgcagggcat	0.154													9	15	---	---	---	---	PASS	T	21300974	T	T	21300974	4	4	102	1	0	0	0	0	0	1	0	0	18115	827	29	2	1514	2	ZNF714	19	21300974	Nonsense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	3862356	21300974	37828009	216	38142	713	2								
ZNF714	148206	broad.mit.edu	37	chr19	21300975	21300975	+	Missense_Mutation	SNP	A	G	G													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tactaaacataggaaaattcAgcagggcatggtggctcatg							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:21300975A>G	uc002npo.3	+	6	1868	c.1508A>G	c.(1507-1509)CAG>CGG	p.Q503R	ZNF714_uc002npl.2_Missense_Mutation_p.Q348R|ZNF714_uc010ecp.1_Missense_Mutation_p.Q454R|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	503	C2H2-type 14; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGGAAAATTCAgcagggcatg	0.154													9	15	---	---	---	---	PASS	G	21300975	G	G	21300975	3	3	102	1	0	0	0	0	1	0	0	0	18115	188	7	5	1515	5	ZNF714	19	21300975	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	1	21300975	37828008	217	38143	713	2								
ZNF431	170959	broad.mit.edu	37	chr19	21366002	21366002	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atgtggcaaagccttcaaccGgtcctcacaccttactacac	6	15	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:21366002G>C	uc002npp.2	+	5	1043	c.896G>C	c.(895-897)CGG>CCG	p.R299P	ZNF431_uc010ecq.2_Missense_Mutation_p.R208P|ZNF431_uc010ecr.2_Missense_Mutation_p.R300P	NM_133473	NP_597730	Q8TF32	ZN431_HUMAN	zinc finger protein 431	299	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2						GCCTTCAACCGGTCCTCACAC	0.408													18	50	---	---	---	---	PASS	C	21366002	C	C	21366002	3	2	102	1	0	0	0	0	1	0	0	0	17902	1116	39	4	914	4	ZNF431	19	21366002	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	65027	21366002	37762981	218	38144										
ZNF429	353088	broad.mit.edu	37	chr19	21720399	21720399	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctacaaatgtgaagaatgtgGcaaagcttttatcctgtcct	8	8	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:21720399G>A	uc002nqd.1	+	4	1681	c.1544G>A	c.(1543-1545)GGC>GAC	p.G515D	ZNF429_uc010ecu.1_Intron	NM_001001415	NP_001001415	Q86V71	ZN429_HUMAN	zinc finger protein 429	515	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GAAGAATGTGGCAAAGCTTTT	0.368													12	32	---	---	---	---	PASS	A	21720399	A	A	21720399	3	1	102	1	0	0	0	0	1	0	0	0	17899	1203	42	3	1558	3	ZNF429	19	21720399	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	354397	21720399	37408584	219	38145										
PPFIA3	8541	broad.mit.edu	37	chr19	49631295	49631295	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gcacaggacgggttggctacAgcgcagctgcggctgcgcga	17	12	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:49631295A>G	uc002pmr.2	+	2	497	c.165A>G	c.(163-165)ACA>ACG	p.T55T	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_5'Flank|PPFIA3_uc010yaj.1_5'Flank|PPFIA3_uc002pms.2_5'Flank	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	55	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		GGTTGGCTACAGCGCAGCTGC	0.726													12	11	---	---	---	---	PASS	G	49631295	G	G	49631295	2	3	102	1	0	0	0	0	0	0	0	1	12311	175	7	5		5	PPFIA3	19	49631295	Silent	SNP	A	TCGA-43-6770-01A-11D-1817-08	27910896	49631295	9497688	220	38146										
NLRP4	147945	broad.mit.edu	37	chr19	56369695	56369695	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gataggttagtgtatttctgCtgtttcttcaaagacccgaa	9	7	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr19:56369695C>G	uc002qmd.3	+	3	1358	c.936C>G	c.(934-936)TGC>TGG	p.C312W	NLRP4_uc002qmf.2_Missense_Mutation_p.C237W|NLRP4_uc010etf.2_Missense_Mutation_p.C143W	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	312	NACHT.						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)		TGTATTTCTGCTGTTTCTTCA	0.493													4	80	---	---	---	---	PASS	G	56369695	G	G	56369695	3	3	102	1	0	0	0	0	1	0	0	0	10479	805	28	4	942	4	NLRP4	19	56369695	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	6738400	56369695	2759288	221	38147										
SPATA2	9825	broad.mit.edu	37	chr20	48524716	48524716	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atgcttctgaattccttcttCcacgggtagaggaagaggtt	11	8	2	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr20:48524716C>A	uc010gie.2	-	2	662	c.312G>T	c.(310-312)TGG>TGT	p.W104C	SPATA2_uc002xuw.2_Missense_Mutation_p.W104C|SPATA2_uc010zyn.1_Intron	NM_001135773	NP_001129245	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	104					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			ATTCCTTCTTCCACGGGTAGA	0.602													37	138	---	---	---	---	PASS	A	48524716	A	A	48524716	3	1	102	1	0	0	0	0	1	0	0	0	15004	856	30	2	1258	2	SPATA2	20	48524716	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08		48524716	14500804	222	38148										
TMEM189-UBE2V1	387522	broad.mit.edu	37	chr20	48746194	48746194	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccgtgtgatagctgtcgggtCaatgtggtgctcccggaagg	16	9	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr20:48746194C>G	uc002xvf.2	-	4	528	c.367G>C	c.(367-369)GAC>CAC	p.D123H	TMEM189_uc010zyq.1_RNA|TMEM189_uc002xvg.2_Missense_Mutation_p.D123H|TMEM189_uc010gif.2_Missense_Mutation_p.D120H|TMEM189_uc010zyp.1_Missense_Mutation_p.D48H	NM_199203	NP_954673	Q13404	UB2V1_HUMAN	TMEM189-UBE2V1 readthrough transcript	Error:Variant_position_missing_in_Q13404_after_alignment					cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein K63-linked ubiquitination|regulation of DNA repair|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus|UBC13-UEV1A complex|ubiquitin ligase complex	acid-amino acid ligase activity|protein binding				0			BRCA - Breast invasive adenocarcinoma(9;8.29e-07)			GCTGTCGGGTCAATGTGGTGC	0.602													6	119	---	---	---	---	PASS	G	48746194	G	G	48746194	3	3	102	1	0	0	0	0	1	0	0	0	16109	826	29	2	765	2	TMEM189-UBE2V1	20	48746194	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	221478	48746194	14279326	223	38149										
CDH26	60437	broad.mit.edu	37	chr20	58559798	58559798	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aaacaccattactgaaagaaAgtggtttccgggttgatcgc	10	8	0	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr20:58559798A>C	uc002ybe.2	+	6	946	c.646A>C	c.(646-648)AGT>CGT	p.S216R	CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	216	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			ACTGAAAGAAAGTGGTTTCCG	0.358													82	85	---	---	---	---	PASS	C	58559798	C	C	58559798	3	2	102	1	0	0	0	0	1	0	0	0	3110	72	3	5	668	5	CDH26	20	58559798	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	9813604	58559798	4465722	224	38150										
RBM11	54033	broad.mit.edu	37	chr21	15591904	15591904	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gcggggccactaaccaaagtGactatatgcaaagacagaga	11	9	0	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr21:15591904G>C	uc002yjo.3	+	2	159	c.117G>C	c.(115-117)GTG>GTC	p.V39V	RBM11_uc002yjn.3_5'UTR|RBM11_uc002yjp.3_Intron	NM_144770	NP_658983	P57052	RBM11_HUMAN	RNA binding motif protein 11	39	RRM.						nucleotide binding|RNA binding				0				Epithelial(23;0.000314)|COAD - Colon adenocarcinoma(22;0.00242)|Colorectal(24;0.0129)|Lung(58;0.141)		TAACCAAAGTGACTATATGCA	0.338													4	13	---	---	---	---	PASS	C	15591904	C	C	15591904	2	2	102	1	0	0	0	0	0	0	0	1	13112	1277	45	2		2	RBM11	21	15591904	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08		15591904	32537991	225	38151										
KRTAP13-3	337960	broad.mit.edu	37	chr21	31798087	31798087	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cccctatagagagaggaaccCagctggcaggtgctgggaga	15	10	0	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr21:31798087C>A	uc002yob.1	-	1	144	c.144G>T	c.(142-144)CTG>CTT	p.L48L		NM_181622	NP_853653	Q3SY46	KR133_HUMAN	keratin associated protein 13-3	48	1.|5 X 10 AA approximate repeats.					intermediate filament				ovary(1)|lung(1)	2						GAGAGGAACCCAGCTGGCAGG	0.597													30	78	---	---	---	---	PASS	A	31798087	A	A	31798087	2	1	102	1	0	0	0	0	0	0	0	1	8524	581	21	3		3	KRTAP13-3	21	31798087	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	16206183	31798087	16331808	226	38152										
DSCAM	1826	broad.mit.edu	37	chr21	41414584	41414584	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gcactttctgtggagaccatGctgcttcttgctcgatctac	9	12	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr21:41414584G>T	uc002yyq.1	-	32	5852	c.5400C>A	c.(5398-5400)AGC>AGA	p.S1800R	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1800	Cytoplasmic (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TGGAGACCATGCTGCTTCTTG	0.542													16	52	---	---	---	---	PASS	T	41414584	T	T	41414584	3	4	102	1	0	0	0	0	1	0	0	0	4768	1310	46	3	646	3	DSCAM	21	41414584	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	9616497	41414584	6715311	227	38153										
KRTAP10-9	386676	broad.mit.edu	37	chr21	46047883	46047883	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cccagctattgccgccaggcCtcctgtgtgtcccttctctg	9	17	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr21:46047883C>A	uc002zfp.3	+	1	844	c.795C>A	c.(793-795)GCC>GCA	p.A265A	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9	265						keratin filament					0						GCCGCCAGGCCTCCTGTGTGT	0.697													51	106	---	---	---	---	PASS	A	46047883	A	A	46047883	2	1	102	1	0	0	0	0	0	0	0	1	8516	668	24	3		3	KRTAP10-9	21	46047883	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	4633299	46047883	2082012	228	38154										
TSSK2	23617	broad.mit.edu	37	chr22	19119491	19119491	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctgcagagcatcccctaccaGcccaaggtgtatgacatctg	9	14	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr22:19119491G>T	uc002zow.2	+	1	1171	c.579G>T	c.(577-579)CAG>CAT	p.Q193H	DGCR14_uc002zot.2_3'UTR|DGCR14_uc002zou.2_3'UTR|DGCR14_uc002zov.2_RNA	NM_053006	NP_443732	Q96PF2	TSSK2_HUMAN	testis-specific serine kinase 2	193	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1	Colorectal(54;0.0993)					TCCCCTACCAGCCCAAGGTGT	0.602													14	150	---	---	---	---	PASS	T	19119491	T	T	19119491	3	4	102	1	0	0	0	0	1	0	0	0	16666	962	34	3	581	3	TSSK2	22	19119491	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08		19119491	32185075	229	38155										
TXNRD2	10587	broad.mit.edu	37	chr22	19864720	19864720	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agagcatgtgggatggatacCcacggtccgcatcacctgcg	13	12	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr22:19864720C>A	uc011ahc.1	-	17	1516	c.1483G>T	c.(1483-1485)GGT>TGT	p.G495C	TXNRD2_uc002zql.1_Missense_Mutation_p.G249C|TXNRD2_uc002zqm.1_RNA|TXNRD2_uc002zqn.1_RNA|TXNRD2_uc002zqo.1_RNA|TXNRD2_uc002zqp.1_RNA|TXNRD2_uc002zqr.1_Missense_Mutation_p.G494C|TXNRD2_uc002zqj.1_RNA|TXNRD2_uc002zqq.1_Missense_Mutation_p.G145C	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor	495					cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					GGATGGATACCCACGGTCCGC	0.652													13	39	---	---	---	---	PASS	A	19864720	A	A	19864720	3	1	102	1	0	0	0	0	1	0	0	0	16805	623	22	3	95	3	TXNRD2	22	19864720	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	745229	19864720	31439846	230	38156										
RFPL1	5988	broad.mit.edu	37	chr22	29837976	29837976	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gtctatacattcaggagtgtCtctgctgaggagccactgca	11	10	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr22:29837976C>A	uc003afn.2	+	2	1028	c.819C>A	c.(817-819)GTC>GTA	p.V273V	RFPL1S_uc003afm.1_RNA	NM_021026	NP_066306	O75677	RFPL1_HUMAN	ret finger protein-like 1	273	B30.2/SPRY.						zinc ion binding				0						TCAGGAGTGTCTCTGCTGAGG	0.468													5	173	---	---	---	---	PASS	A	29837976	A	A	29837976	2	1	102	1	0	0	0	0	0	0	0	1	13253	900	32	2		2	RFPL1	22	29837976	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	9973256	29837976	21466590	231	38157										
CCDC157	550631	broad.mit.edu	37	chr22	30766590	30766590	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agcgtccagggaagcctgcaGaaggtgggcaaggtggtcat	17	8	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chr22:30766590G>A	uc011aku.1	+	5	1356	c.696G>A	c.(694-696)CAG>CAA	p.Q232Q	CCDC157_uc011akv.1_Silent_p.Q232Q	NM_001017437	NP_001017437	Q569K6	CC157_HUMAN	coiled-coil domain containing 157	232										central_nervous_system(1)	1						GAAGCCTGCAGAAGGTGGGCA	0.622													7	107	---	---	---	---	PASS	A	30766590	A	A	30766590	2	1	102	1	0	0	0	0	0	0	0	1	2789	933	33	2		2	CCDC157	22	30766590	Silent	SNP	G	TCGA-43-6770-01A-11D-1817-08	928614	30766590	20537976	232	38158										
MOSPD2	158747	broad.mit.edu	37	chrX	14936842	14936842	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aaagcagtaaaccaaacactCttacgttaaaagacaatgct	5	9	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:14936842C>G	uc004cwi.2	+	14	1445	c.1357C>G	c.(1357-1359)CTT>GTT	p.L453V	MOSPD2_uc004cwj.2_Missense_Mutation_p.L390V	NM_152581	NP_689794	Q8NHP6	MSPD2_HUMAN	motile sperm domain containing 2	453						integral to membrane	structural molecule activity			lung(1)	1	Hepatocellular(33;0.183)					ACCAAACACTCTTACGTTAAA	0.279													33	77	---	---	---	---	PASS	G	14936842	G	G	14936842	3	3	102	1	0	0	0	0	1	0	0	0	9716	913	32	2	1411	2	MOSPD2	23	14936842	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08		14936842	140333718	233	38159										
ACE2	59272	broad.mit.edu	37	chrX	15605982	15605982	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgttcatataatggtttaatCtgaaaagcccaggaagaaag	9	5	2	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:15605982C>T	uc004cxa.1	-	6	865	c.697_splice	c.e6-1	p.I233_splice	ACE2_uc004cxb.2_Splice_Site_p.I233_splice	NM_021804	NP_068576	Q9BYF1	ACE2_HUMAN	angiotensin I converting enzyme 2 precursor						angiotensin-mediated drinking behavior|proteolysis|receptor biosynthetic process|regulation of cell proliferation|virion attachment, binding of host cell surface receptor	cell surface|extracellular space|integral to membrane|membrane raft|plasma membrane	carboxypeptidase activity|glycoprotein binding|metallopeptidase activity|peptidyl-dipeptidase activity|viral receptor activity|zinc ion binding			ovary(3)	3	Hepatocellular(33;0.183)				Moexipril(DB00691)	ATGGTTTAATCTGAAAAGCCC	0.368													7	75	---	---	---	---	PASS	T	15605982	T	T	15605982	5	4	102	1	0	0	0	0	0	0	1	0	137	927	32	2	1773	2	ACE2	23	15605982	Splice_Site	SNP	C	TCGA-43-6770-01A-11D-1817-08	669140	15605982	139664578	234	38160										
PHKA2	5256	broad.mit.edu	37	chrX	18963197	18963197	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	caaacaggacaactgtcaccTtggccattcctacggagctt	8	13	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:18963197T>C	uc004cyv.3	-	6	1047	c.617A>G	c.(616-618)AAG>AGG	p.K206R	PHKA2_uc010nfh.1_RNA|PHKA2_uc010nfi.1_Missense_Mutation_p.K148R	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	206					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					AACTGTCACCTTGGCCATTCC	0.438													28	65	---	---	---	---	PASS	C	18963197	C	C	18963197	3	2	102	1	0	0	0	0	1	0	0	0	11844	1623	56	5	3202	5	PHKA2	23	18963197	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	3357215	18963197	136307363	235	38161										
PDK3	5165	broad.mit.edu	37	chrX	24544369	24544369	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tgtgccctcacatctgtttcAtatgctatttgagttgttca	7	9	4	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:24544369A>G	uc004dbg.2	+	7	957	c.728A>G	c.(727-729)CAT>CGT	p.H243R	PDK3_uc004dbh.2_Missense_Mutation_p.H243R	NM_005391	NP_005382	Q15120	PDK3_HUMAN	pyruvate dehydrogenase kinase 3 isoform 2	243	Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|protein binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						CATCTGTTTCATATGCTATTT	0.368													18	44	---	---	---	---	PASS	G	24544369	G	G	24544369	3	3	102	1	0	0	0	0	1	0	0	0	11677	217	8	5	754	5	PDK3	23	24544369	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	5581172	24544369	130726191	236	38162										
POLA1	5422	broad.mit.edu	37	chrX	24766501	24766501	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cattttgcccagagagatccGgaaactggtagaacggagaa	12	8	0	4			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:24766501G>A	uc004dbl.2	+	25	2770	c.2747G>A	c.(2746-2748)CGG>CAG	p.R916Q		NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	916					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	AGAGAGATCCGGAAACTGGTA	0.284													11	38	---	---	---	---	PASS	A	24766501	A	A	24766501	3	1	102	1	0	0	0	0	1	0	0	0	12187	1116	39	1	2845	1	POLA1	23	24766501	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	222132	24766501	130504059	237	38163										
DMD	1756	broad.mit.edu	37	chrX	32366646	32366646	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tccttcaaaggaatggaggcCtaaaaaaaaagatagtgcta	9	6	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:32366646C>T	uc004dda.1	-	38	5570	c.5326_splice	c.e38-1	p.A1776_splice	DMD_uc004dcw.2_Splice_Site_p.A432_splice|DMD_uc004dcx.2_Splice_Site_p.A435_splice|DMD_uc004dcz.2_Splice_Site_p.A1653_splice|DMD_uc004dcy.1_Splice_Site_p.A1772_splice|DMD_uc004ddb.1_Splice_Site_p.A1768_splice|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform						muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GAATGGAGGCCTAAAAAAAAA	0.333													14	21	---	---	---	---	PASS	T	32366646	T	T	32366646	5	4	102	1	0	0	0	0	0	0	1	0	4580	695	24	3	6048	3	DMD	23	32366646	Splice_Site	SNP	C	TCGA-43-6770-01A-11D-1817-08	7600145	32366646	122903914	238	38164										
FAM47A	158724	broad.mit.edu	37	chrX	34149282	34149282	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctccgcgtggagactggaccCccgacgagtcttgggaggcg	16	13	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:34149282C>A	uc004ddg.2	-	1	1147	c.1114G>T	c.(1114-1116)GGG>TGG	p.G372W		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	372										ovary(4)|central_nervous_system(1)	5						AGACTGGACCCCCGACGAGTC	0.632													22	50	---	---	---	---	PASS	A	34149282	A	A	34149282	3	1	102	1	0	0	0	0	1	0	0	0	5569	623	22	3	1265	3	FAM47A	23	34149282	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	1782636	34149282	121121278	239	38165										
FAM47B	170062	broad.mit.edu	37	chrX	34961596	34961596	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agtcgccgcccagagcctccCaagactcgggtgtccagtct	11	16	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:34961596C>A	uc004ddi.1	+	1	666	c.648C>A	c.(646-648)CCC>CCA	p.P216P		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	216	Pro-rich.									ovary(3)|breast(1)	4						CAGAGCCTCCCAAGACTCGGG	0.672													25	63	---	---	---	---	PASS	A	34961596	A	A	34961596	2	1	102	1	0	0	0	0	0	0	0	1	5570	581	21	3		3	FAM47B	23	34961596	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	812314	34961596	120308964	240	38166										
MED14	9282	broad.mit.edu	37	chrX	40513614	40513614	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atattgtctactggtcatgtAccttgtcgtggtggattcat	10	7	3	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:40513614A>T	uc004dex.3	-	30	4431	c.4291_splice	c.e30+1	p.G1431_splice	MED14_uc004dey.1_Silent_p.G333G	NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14						androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						CTGGTCATGTACCTTGTCGTG	0.433													14	72	---	---	---	---	PASS	T	40513614	T	T	40513614	5	4	102	1	0	0	0	0	0	0	1	0	9432	405	14	5	79	5	MED14	23	40513614	Splice_Site	SNP	A	TCGA-43-6770-01A-11D-1817-08	5552018	40513614	114756946	241	38167										
HUWE1	10075	broad.mit.edu	37	chrX	53592131	53592131	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctgccaaaaaggctactgggCtggttcacaatccgggaaag	12	10	1	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:53592131C>G	uc004dsp.2	-	50	7179	c.6777G>C	c.(6775-6777)CAG>CAC	p.Q2259H	HUWE1_uc004dsn.2_Missense_Mutation_p.Q1083H	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2259					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GGCTACTGGGCTGGTTCACAA	0.502													19	75	---	---	---	---	PASS	G	53592131	G	G	53592131	3	3	102	1	0	0	0	0	1	0	0	0	7461	796	28	4	6487	4	HUWE1	23	53592131	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	13078517	53592131	101678429	242	38168										
ITIH5L	347365	broad.mit.edu	37	chrX	54780108	54780108	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctttgggtcctctatgagctGcagcaagtccccagggtgcc	12	13	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:54780108G>T	uc004dtj.2	-	11	3358	c.3328C>A	c.(3328-3330)CAG>AAG	p.Q1110K		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	1110					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						TCTATGAGCTGCAGCAAGTCC	0.522													23	63	---	---	---	---	PASS	T	54780108	T	T	54780108	3	4	102	1	0	0	0	0	1	0	0	0	7908	1328	46	3	625	3	ITIH5L	23	54780108	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	1187977	54780108	100490452	243	38169										
TRO	7216	broad.mit.edu	37	chrX	54950182	54950182	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ggagcccacaaccaggacccGgggcaaaagaaaccgaaagg	13	12	0	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:54950182G>A	uc004dtq.2	+	3	1324	c.1217G>A	c.(1216-1218)CGG>CAG	p.R406Q	TRO_uc011moj.1_Missense_Mutation_p.R349Q|TRO_uc004dts.2_Missense_Mutation_p.R406Q|TRO_uc004dtr.2_Missense_Mutation_p.R406Q|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Intron|TRO_uc004dtw.2_Intron|TRO_uc004dtx.2_5'Flank	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	406					embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						ACCAGGACCCGGGGCAAAAGA	0.473													14	44	---	---	---	---	PASS	A	54950182	A	A	54950182	3	1	102	1	0	0	0	0	1	0	0	0	16571	1116	39	1	1223	1	TRO	23	54950182	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	170074	54950182	100320378	244	38170										
ZXDB	158586	broad.mit.edu	37	chrX	57619097	57619097	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccgctcctgcccagcagcccGggtgtctgatcgccccgcaa	11	19	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:57619097G>A	uc004dvd.2	+	1	829	c.616G>A	c.(616-618)GGG>AGG	p.G206R		NM_007157	NP_009088	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	206					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						CCAGCAGCCCGGGTGTCTGAT	0.711													3	44	---	---	---	---	PASS	A	57619097	A	A	57619097	3	1	102	1	0	0	0	0	1	0	0	0	18248	1116	39	1	618	1	ZXDB	23	57619097	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	2668915	57619097	97651463	245	38171										
SNX12	29934	broad.mit.edu	37	chrX	70288146	70288146	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gccgggtatcagctactgccGtgtccgacatctttccgaag	11	13	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:70288146G>T	uc004dyr.1	-	1	86	c.11C>A	c.(10-12)ACG>AAG	p.T4K	SNX12_uc004dyp.1_RNA	NM_013346	NP_037478	Q9UMY4	SNX12_HUMAN	sorting nexin 12	4					cell communication|protein transport	membrane	phosphatidylinositol binding|protein binding				0	Renal(35;0.156)					AGCTACTGCCGTGTCCGACAT	0.617													11	16	---	---	---	---	PASS	T	70288146	T	T	70288146	3	4	102	1	0	0	0	0	1	0	0	0	14883	1145	40	1	493	1	SNX12	23	70288146	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	12669049	70288146	84982414	246	38172										
CXorf65	158830	broad.mit.edu	37	chrX	70323957	70323957	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ttgtctgatcgtcctgattgCttggactagaaaaagaaagt	10	6	1	4			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:70323957C>A	uc011mpo.1	-	6	446	c.432G>T	c.(430-432)AAG>AAT	p.K144N	CXorf65_uc011mpp.1_Missense_Mutation_p.K96N	NM_001025265	NP_001020436	A6NEN9	CX065_HUMAN	hypothetical protein LOC158830	144										central_nervous_system(1)	1						GTCCTGATTGCTTGGACTAGA	0.443													23	41	---	---	---	---	PASS	A	70323957	A	A	70323957	3	1	102	1	0	0	0	0	1	0	0	0	4117	796	28	3	123	3	CXorf65	23	70323957	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	35811	70323957	84946603	247	38173										
ZMYM3	9203	broad.mit.edu	37	chrX	70469495	70469495	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aagaatcgctgcagagccggTgtaccacgctgccattgctg	12	12	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:70469495T>G	uc004dzh.1	-	7	1373	c.1286A>C	c.(1285-1287)CAC>CCC	p.H429P	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Missense_Mutation_p.H429P|ZMYM3_uc004dzj.1_Missense_Mutation_p.H429P|ZMYM3_uc011mpu.1_Missense_Mutation_p.H160P|ZMYM3_uc004dzk.3_Missense_Mutation_p.H429P|ZMYM3_uc004dzl.3_Missense_Mutation_p.H429P|ZMYM3_uc004dzm.3_Missense_Mutation_p.H429P	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	429	MYM-type 3.				multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					GCAGAGCCGGTGTACCACGCT	0.582													7	84	---	---	---	---	PASS	G	70469495	G	G	70469495	3	3	102	1	0	0	0	0	1	0	0	0	17698	1696	59	5	2920	5	ZMYM3	23	70469495	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	145538	70469495	84801065	248	38174										
RLIM	51132	broad.mit.edu	37	chrX	73812546	73812546	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ctgacctctggtaggtgggaCctctgttaacgcttcagttg	12	10	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:73812546C>A	uc004ebu.2	-	5	894	c.604G>T	c.(604-606)GTC>TTC	p.V202F	RLIM_uc004ebw.2_Missense_Mutation_p.V202F	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	202					random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GTAGGTGGGACCTCTGTTAAC	0.498													56	333	---	---	---	---	PASS	A	73812546	A	A	73812546	3	1	102	1	0	0	0	0	1	0	0	0	13390	507	18	3	1274	3	RLIM	23	73812546	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	3343051	73812546	81458014	249	38175										
MAGEE2	139599	broad.mit.edu	37	chrX	75003354	75003354	+	Frame_Shift_Del	DEL	T	-	-													0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aacatgatagttgcctcagaTttggctctggcctcctcatc							TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:75003354delT	uc004ecj.1	-	1	1718	c.1533delA	c.(1531-1533)AAAfs	p.K511fs		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	511										ovary(1)|skin(1)	2						TTGCCTCAGATTTGGCTCTGG	0.463													124	72	---	---	---	---		-	75003354	-	-	75003354	7	5	102	1	0	1	0	1	0	0	0	0	9186	1490	52	0	42	0	MAGEE2	23	75003354	Frame_Shift_Del	DEL	T	TCGA-43-6770-01A-11D-1817-08	1190808	75003354	80267206	250	38176										
ARL13A	392509	broad.mit.edu	37	chrX	100242485	100242485	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tacttgccaactaccacctaCctcgagcatctcaatctcca	3	17	2	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:100242485C>T	uc004ego.2	+	6	709	c.593C>T	c.(592-594)ACC>ATC	p.T198I	ARL13A_uc011mrf.1_Missense_Mutation_p.T198I|ARL13A_uc010nng.2_Missense_Mutation_p.T198I	NM_001012990	NP_001013008	Q5H913	AR13A_HUMAN	ADP-ribosylation factor-like 13 isoform a	198							GTP binding			ovary(1)	1						CTACCACCTACCTCGAGCATC	0.453													11	155	---	---	---	---	PASS	T	100242485	T	T	100242485	3	4	102	1	0	0	0	0	1	0	0	0	928	507	18	3	611	3	ARL13A	23	100242485	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	25239131	100242485	55028075	251	38177										
TEX13A	56157	broad.mit.edu	37	chrX	104464650	104464650	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	agcggcttccaactcaccttGtctctctctttctgcacctc	5	17	4	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:104464650G>T	uc004ema.2	-	2	544	c.432C>A	c.(430-432)GAC>GAA	p.D144E	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Missense_Mutation_p.D144E	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	144						intracellular	zinc ion binding			ovary(2)	2						AACTCACCTTGTCTCTCTCTT	0.478													40	57	---	---	---	---	PASS	T	104464650	T	T	104464650	3	4	102	1	0	0	0	0	1	0	0	0	15773	1368	48	3	807	3	TEX13A	23	104464650	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	4222165	104464650	50805910	252	38178										
NRK	203447	broad.mit.edu	37	chrX	105153033	105153033	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tctacaaatgcagattaaggCacctccacgactacggaggg	10	11	1	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:105153033C>G	uc004emd.2	+	13	1703	c.1400C>G	c.(1399-1401)GCA>GGA	p.A467G	NRK_uc010npc.1_Missense_Mutation_p.A135G	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	467	Gln-rich.						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						CAGATTAAGGCACCTCCACGA	0.552										HNSCC(51;0.14)			29	41	---	---	---	---	PASS	G	105153033	G	G	105153033	3	3	102	1	0	0	0	0	1	0	0	0	10655	710	25	4	1450	4	NRK	23	105153033	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	688383	105153033	50117527	253	38179										
NRK	203447	broad.mit.edu	37	chrX	105168796	105168796	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	atacagccaatagaagccatGgaggaagtgcagccagtgag	13	8	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:105168796G>T	uc004emd.2	+	19	3388	c.3085G>T	c.(3085-3087)GGA>TGA	p.G1029*	NRK_uc010npc.1_Nonsense_Mutation_p.G697*	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1029							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						TAGAAGCCATGGAGGAAGTGC	0.502										HNSCC(51;0.14)			25	25	---	---	---	---	PASS	T	105168796	T	T	105168796	4	4	102	1	0	0	0	0	0	1	0	0	10655	1349	47	3	3159	3	NRK	23	105168796	Nonsense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	15763	105168796	50101764	254	38180										
IRS4	8471	broad.mit.edu	37	chrX	107979218	107979218	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	gccgcggcgcggacactgtgCcggaacttcctggcattttc	13	14	0	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:107979218C>A	uc004eoc.2	-	1	390	c.357G>T	c.(355-357)CGG>CGT	p.R119R		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	119	PH.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						GGACACTGTGCCGGAACTTCC	0.652													31	72	---	---	---	---	PASS	A	107979218	A	A	107979218	2	1	102	1	0	0	0	0	0	0	0	1	7842	726	26	3		3	IRS4	23	107979218	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	2810422	107979218	47291342	255	38181										
DOCK11	139818	broad.mit.edu	37	chrX	117743289	117743289	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	caaagtcaatggccacatacTtgttggaagagaataagatt	9	6	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:117743289T>A	uc004eqp.2	+	27	2989	c.2926T>A	c.(2926-2928)TTG>ATG	p.L976M	DOCK11_uc004eqq.2_Missense_Mutation_p.L742M	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	976					blood coagulation	cytosol	GTP binding			ovary(3)	3						GGCCACATACTTGTTGGAAGA	0.279													41	141	---	---	---	---	PASS	A	117743289	A	A	117743289	3	1	102	1	0	0	0	0	1	0	0	0	4686	1606	56	5	3032	5	DOCK11	23	117743289	Missense_Mutation	SNP	T	TCGA-43-6770-01A-11D-1817-08	9764071	117743289	37527271	256	38182										
UBE2A	7319	broad.mit.edu	37	chrX	118717208	118717208	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aatagtagaacaaagctggcGtgattgttgaccccgggtac	12	8	0	3			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:118717208G>T	uc004erl.2	+	6	625	c.449G>T	c.(448-450)CGT>CTT	p.R150L	UBE2A_uc004erm.2_Missense_Mutation_p.R120L|UBE2A_uc004ern.2_RNA|UBE2A_uc004ero.2_RNA|UBE2A_uc004erp.2_Missense_Mutation_p.R75L	NM_003336	NP_003327	P49459	UBE2A_HUMAN	ubiquitin-conjugating enzyme E2A isoform 1	150					histone H2A ubiquitination|positive regulation of cell proliferation|postreplication repair|protein autoubiquitination|protein K11-linked ubiquitination|protein K48-linked ubiquitination|response to UV|ubiquitin-dependent protein catabolic process		ATP binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity				0						CAAAGCTGGCGTGATTGTTGA	0.423								Direct_reversal_of_damage|Rad6_pathway					40	190	---	---	---	---	PASS	T	118717208	T	T	118717208	3	4	102	1	0	0	0	0	1	0	0	0	16841	1145	40	1	471	1	UBE2A	23	118717208	Missense_Mutation	SNP	G	TCGA-43-6770-01A-11D-1817-08	973919	118717208	36553352	257	38183										
HS6ST2	90161	broad.mit.edu	37	chrX	131762512	131762512	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aggagccttcccttcagaaaTttgcgttgttcctgacgctt	9	11	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:131762512T>C	uc011mve.1	-	4	1973	c.1557A>G	c.(1555-1557)AAA>AAG	p.K519K	HS6ST2_uc011mvb.1_Silent_p.K413K|HS6ST2_uc011mvc.1_Silent_p.K373K|HS6ST2_uc011mvd.1_Silent_p.K559K|HS6ST2_uc011mva.1_Silent_p.K245K	NM_147175	NP_671704	Q96MM7	H6ST2_HUMAN	heparan sulfate 6-O-sulfotransferase 2 isoform	519	Lumenal (Potential).					integral to membrane	sulfotransferase activity				0	Acute lymphoblastic leukemia(192;0.000127)					CCTTCAGAAATTTGCGTTGTT	0.373													38	118	---	---	---	---	PASS	C	131762512	C	C	131762512	2	2	102	1	0	0	0	0	0	0	0	1	7371	1490	52	5		5	HS6ST2	23	131762512	Silent	SNP	T	TCGA-43-6770-01A-11D-1817-08	13045304	131762512	23508048	258	38184										
GPR112	139378	broad.mit.edu	37	chrX	135432363	135432363	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	ccaactgcatcatcaccctcTactttaattattcctaagcc	2	15	3	0			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:135432363T>A	uc004ezu.1	+	6	6789	c.6498T>A	c.(6496-6498)TCT>TCA	p.S2166S	GPR112_uc010nsb.1_Silent_p.S1961S|GPR112_uc010nsc.1_Silent_p.S1933S	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	2166	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					CATCACCCTCTACTTTAATTA	0.443													48	151	---	---	---	---	PASS	A	135432363	A	A	135432363	2	1	102	1	0	0	0	0	0	0	0	1	6629	1509	53	5		5	GPR112	23	135432363	Silent	SNP	T	TCGA-43-6770-01A-11D-1817-08	3669851	135432363	19838197	259	38185										
MAGEC1	9947	broad.mit.edu	37	chrX	140995353	140995353	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	cctgagtgggaggactccctCtctcctctccactttcctca	7	17	3	1			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:140995353C>A	uc004fbt.2	+	4	2449	c.2163C>A	c.(2161-2163)CTC>CTA	p.L721L	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	721							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AGGACTCCCTCTCTCCTCTCC	0.542										HNSCC(15;0.026)			67	235	---	---	---	---	PASS	A	140995353	A	A	140995353	2	1	102	1	0	0	0	0	0	0	0	1	9180	900	32	2		2	MAGEC1	23	140995353	Silent	SNP	C	TCGA-43-6770-01A-11D-1817-08	5562990	140995353	14275207	260	38186										
UBE2NL	389898	broad.mit.edu	37	chrX	142967587	142967587	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	tagcaaatgatgtagtggagCagtggaagaccaacgaagcc	13	7	0	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:142967587C>G	uc004fca.2	+	1	415	c.385C>G	c.(385-387)CAG>GAG	p.Q129E		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	129							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					TGTAGTGGAGCAGTGGAAGAC	0.463													41	147	---	---	---	---	PASS	G	142967587	G	G	142967587	3	3	102	1	0	0	0	0	1	0	0	0	16864	711	25	4	387	4	UBE2NL	23	142967587	Missense_Mutation	SNP	C	TCGA-43-6770-01A-11D-1817-08	1972234	142967587	12302973	261	38187										
ZNF185	7739	broad.mit.edu	37	chrX	152128349	152128349	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	25	0.0040482471180994	1.84452718842209	2.19806156620299	1.57082315401107	1	1	11	aaggagacccagctgtacccActcagcaacctgcagatccc	8	16	1	2			TCGA-43-6770-01A-11D-1817-08	TCGA-43-6770-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	404ca8c2-f1bb-4749-8abd-87f491a8111c	c110c1d0-f64c-4bdf-b3b2-a6fc4f5bbc61	g.chrX:152128349A>T	uc010ntv.1	+	17	1550	c.1513A>T	c.(1513-1515)ACT>TCT	p.T505S	ZNF185_uc011myg.1_Missense_Mutation_p.T537S|ZNF185_uc011myh.1_Missense_Mutation_p.T508S|ZNF185_uc011myi.1_Missense_Mutation_p.T476S|ZNF185_uc011myj.1_Missense_Mutation_p.T446S|ZNF185_uc011myk.1_Missense_Mutation_p.T506S|ZNF185_uc004fgw.3_Missense_Mutation_p.T284S|ZNF185_uc004fgu.2_Missense_Mutation_p.T134S|ZNF185_uc004fgv.2_Missense_Mutation_p.T202S|ZNF185_uc004fgx.2_Missense_Mutation_p.T143S	NM_007150	NP_009081	O15231	ZN185_HUMAN	zinc finger protein 185	505						cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AGCTGTACCCACTCAGCAACC	0.607													9	51	---	---	---	---	PASS	T	152128349	T	T	152128349	3	4	102	1	0	0	0	0	1	0	0	0	17749	159	6	5	1823	5	ZNF185	23	152128349	Missense_Mutation	SNP	A	TCGA-43-6770-01A-11D-1817-08	9160762	152128349	3142211	262	38188										
MTOR	2475	broad.mit.edu	37	chr1	11193214	11193214	+	Missense_Mutation	SNP	C	A	A													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gattgtgctctcattgatgcCctgtagattcagctgccact							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:11193214C>A	uc001asd.2	-	38	5408	c.5287G>T	c.(5287-5289)GGC>TGC	p.G1763C	MTOR_uc001asc.2_5'Flank	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	1763	FAT.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TCATTGATGCCCTGTAGATTC	0.542													23	78	---	---	---	---	PASS	A	11193214	A	A	11193214	3	1	103	1	0	0	0	0	1	0	0	0	9954	623	22	3	2446	3	MTOR	1	11193214	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08		11193214	238057407	1	38189	714	2								
MTOR	2475	broad.mit.edu	37	chr1	11193215	11193215	+	Missense_Mutation	SNP	C	G	G													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	attgtgctctcattgatgccCtgtagattcagctgccactc							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:11193215C>G	uc001asd.2	-	38	5407	c.5286G>C	c.(5284-5286)CAG>CAC	p.Q1762H	MTOR_uc001asc.2_5'Flank	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	1762	FAT.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						CATTGATGCCCTGTAGATTCA	0.542													23	77	---	---	---	---	PASS	G	11193215	G	G	11193215	3	3	103	1	0	0	0	0	1	0	0	0	9954	680	24	4	2447	4	MTOR	1	11193215	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	1	11193215	238057406	2	38190	714	2								
TAS1R2	80834	broad.mit.edu	37	chr1	19181214	19181214	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aggcgctggcgctcctctgaCgtcatgttctggttgggctg	15	11	3	1	rs146100319		TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:19181214C>T	uc001bba.1	-	3	751	c.750G>A	c.(748-750)ACG>ACA	p.T250T		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	250	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	GCTCCTCTGACGTCATGTTCT	0.652													5	24	---	---	---	---	PASS	T	19181214	T	T	19181214	2	4	103	1	0	0	0	0	0	0	0	1	15560	523	19	1		1	TAS1R2	1	19181214	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	7987999	19181214	230069407	3	38191										
EPHA8	2046	broad.mit.edu	37	chr1	22927417	22927417	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agctctgtggaggaggggtaCcgcctgcccgcacccatggg	16	13	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:22927417C>A	uc001bfx.1	+	15	2690	c.2565C>A	c.(2563-2565)TAC>TAA	p.Y855*		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	855	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		AGGAGGGGTACCGCCTGCCCG	0.701													22	54	---	---	---	---	PASS	A	22927417	A	A	22927417	4	1	103	1	0	0	0	0	0	1	0	0	5173	518	18	3	2796	3	EPHA8	1	22927417	Nonsense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	3746203	22927417	226323204	4	38192										
C1orf128	57095	broad.mit.edu	37	chr1	24113866	24113866	+	Nonstop_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cagacacactttatttcctaAgggctggccaaggctcccat	8	13	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:24113866A>T	uc001bhq.2	+	6	766	c.636A>T	c.(634-636)TAA>TAT	p.*212Y	C1orf128_uc010oeb.1_Nonstop_Mutation_p.*119Y	NM_020362	NP_065095	Q9GZP4	PITH1_HUMAN	chromosome 1 open reading frame 128	212											0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.0034)|all_lung(284;0.00519)|Breast(348;0.0222)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0561)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;1.97e-24)|Colorectal(126;5.06e-08)|COAD - Colon adenocarcinoma(152;2.92e-06)|GBM - Glioblastoma multiforme(114;4.4e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|KIRC - Kidney renal clear cell carcinoma(1967;0.00322)|STAD - Stomach adenocarcinoma(196;0.0124)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0837)|LUSC - Lung squamous cell carcinoma(448;0.185)		TTATTTCCTAAGGGCTGGCCA	0.542													14	62	---	---	---	---	PASS	T	24113866	T	T	24113866	4	4	103	1	0	0	0	0	0	0	0	0	1995	79	3	5	658	5	C1orf128	1	24113866	Nonstop_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	1186449	24113866	225136755	5	38193										
CNR2	1269	broad.mit.edu	37	chr1	24202075	24202075	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tccaagccatccttggagccAttggctatctctgtcaccca	7	15	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:24202075A>T	uc001bif.2	-	2	160	c.33T>A	c.(31-33)AAT>AAA	p.N11K		NM_001841	NP_001832	P34972	CNR2_HUMAN	cannabinoid receptor 2 (macrophage)	11	Extracellular (Potential).				behavior|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	dendrite|integral to plasma membrane|perikaryon	cannabinoid receptor activity			skin(2)|central_nervous_system(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.00957)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.32e-24)|Colorectal(126;6.09e-08)|COAD - Colon adenocarcinoma(152;3.33e-06)|GBM - Glioblastoma multiforme(114;2.9e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00359)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.146)	Nabilone(DB00486)	CCTTGGAGCCATTGGCTATCT	0.512													29	154	---	---	---	---	PASS	T	24202075	T	T	24202075	3	4	103	1	0	0	0	0	1	0	0	0	3632	214	8	5	1053	5	CNR2	1	24202075	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	88209	24202075	225048546	6	38194										
SESN2	83667	broad.mit.edu	37	chr1	28601391	28601391	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccagcggctttaccctgaggGtgggcagctgctggatgaga	16	10	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:28601391G>T	uc001bps.2	+	8	1429	c.1076G>T	c.(1075-1077)GGT>GTT	p.G359V		NM_031459	NP_113647	P58004	SESN2_HUMAN	sestrin 2	359					cell cycle arrest	cytoplasm|nucleus				skin(3)|ovary(2)|pancreas(1)|lung(1)	7		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;4.76e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;2.98e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|READ - Rectum adenocarcinoma(331;0.0649)		TACCCTGAGGGTGGGCAGCTG	0.572													23	86	---	---	---	---	PASS	T	28601391	T	T	28601391	3	4	103	1	0	0	0	0	1	0	0	0	14125	1261	44	3	1106	3	SESN2	1	28601391	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	4399316	28601391	220649230	7	38195										
STK40	83931	broad.mit.edu	37	chr1	36820883	36820883	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tctcgctgagcctcttctccTtgatgacgtagtgctgcagg	11	12	3	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:36820883T>A	uc001cak.1	-	6	901	c.494A>T	c.(493-495)AAG>ATG	p.K165M	STK40_uc001cal.1_Missense_Mutation_p.K170M|STK40_uc001cam.1_Missense_Mutation_p.K165M|STK40_uc009vva.1_Missense_Mutation_p.K165M|STK40_uc001can.1_Missense_Mutation_p.K165M	NM_032017	NP_114406	Q8N2I9	STK40_HUMAN	serine/threonine kinase 40	165	Protein kinase.					cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1		Myeloproliferative disorder(586;0.0393)				CCTCTTCTCCTTGATGACGTA	0.582													53	134	---	---	---	---	PASS	A	36820883	A	A	36820883	3	1	103	1	0	0	0	0	1	0	0	0	15306	1609	56	5	841	5	STK40	1	36820883	Missense_Mutation	SNP	T	TCGA-43-6771-01A-11D-1817-08	8219492	36820883	212429738	8	38196										
MUTYH	4595	broad.mit.edu	37	chr1	45796905	45796905	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgaaattcctcctgcgtcagCcagcgagcacctggtggtac	11	13	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:45796905C>A	uc001cnm.2	-	14	1632	c.1416G>T	c.(1414-1416)TGG>TGT	p.W472C	MUTYH_uc009vxn.2_Missense_Mutation_p.W297C|MUTYH_uc001cnf.2_Missense_Mutation_p.W447C|MUTYH_uc009vxo.2_Missense_Mutation_p.W447C|MUTYH_uc001cng.2_Missense_Mutation_p.W458C|MUTYH_uc001cnj.2_Missense_Mutation_p.W355C|MUTYH_uc001cni.2_Missense_Mutation_p.W447C|MUTYH_uc001cnh.2_Missense_Mutation_p.W448C|MUTYH_uc001cno.2_Missense_Mutation_p.W355C|MUTYH_uc001cnk.2_Missense_Mutation_p.W332C|MUTYH_uc010oll.1_Missense_Mutation_p.W156C|MUTYH_uc001cnl.2_Missense_Mutation_p.W461C|MUTYH_uc009vxp.2_Missense_Mutation_p.W475C|MUTYH_uc001cnn.2_Missense_Mutation_p.W462C	NM_012222	NP_036354	Q9UIF7	MUTYH_HUMAN	mutY homolog isoform 1	472	Nudix hydrolase.				depurination|mismatch repair	nucleoplasm	4 iron, 4 sulfur cluster binding|DNA N-glycosylase activity|endonuclease activity|metal ion binding|MutSalpha complex binding				0	Acute lymphoblastic leukemia(166;0.155)					CCTGCGTCAGCCAGCGAGCAC	0.507			Mis			colorectal		BER_DNA_glycosylases	MUTYH-associated_polyposis				28	100	---	---	---	---	PASS	A	45796905	A	A	45796905	3	1	103	1	0	0	0	0	1	0	0	0	9993	740	26	3	236	3	MUTYH	1	45796905	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	8976022	45796905	203453716	9	38197										
ZFYVE9	9372	broad.mit.edu	37	chr1	52703701	52703701	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agtataaatgagtccactgaAaaagatatgaattcagagaa	8	4	1	5			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:52703701A>T	uc001cto.2	+	4	784	c.612A>T	c.(610-612)GAA>GAT	p.E204D	ZFYVE9_uc001ctn.2_Missense_Mutation_p.E204D|ZFYVE9_uc001ctp.2_Missense_Mutation_p.E204D	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	204					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						AGTCCACTGAAAAAGATATGA	0.343													19	61	---	---	---	---	PASS	T	52703701	T	T	52703701	3	4	103	1	0	0	0	0	1	0	0	0	17668	11	1	5	618	5	ZFYVE9	1	52703701	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	6906796	52703701	196546920	10	38198										
LPHN2	23266	broad.mit.edu	37	chr1	82447526	82447526	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gcgctttcgctcttctgtgtCttcttggcctcacctggtcc	9	15	5	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:82447526C>G	uc001dit.3	+	18	3278	c.3097C>G	c.(3097-3099)CTT>GTT	p.L1033V	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.L1033V|LPHN2_uc001div.2_Missense_Mutation_p.L1033V|LPHN2_uc009wcd.2_Missense_Mutation_p.L1033V|LPHN2_uc001diw.2_Missense_Mutation_p.L617V|LPHN2_uc009wce.1_Missense_Mutation_p.L134V	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	1046	Helical; Name=6; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		TCTTCTGTGTCTTCTTGGCCT	0.403													61	249	---	---	---	---	PASS	G	82447526	G	G	82447526	3	3	103	1	0	0	0	0	1	0	0	0	8916	913	32	2	3159	2	LPHN2	1	82447526	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	29743825	82447526	166803095	11	38199										
PRKACB	5567	broad.mit.edu	37	chr1	84544037	84544037	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cgcggcgaccgccaagaaagGcagcgaggtggagagcggtg	19	10	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:84544037G>T	uc001djj.2	+	1	293	c.29G>T	c.(28-30)GGC>GTC	p.G10V	PRKACB_uc001djh.1_RNA|PRKACB_uc001dji.2_Missense_Mutation_p.G10V	NM_002731	NP_002722	P22694	KAPCB_HUMAN	cAMP-dependent protein kinase catalytic subunit	10					activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|regulation of insulin secretion|synaptic transmission|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|magnesium ion binding|protein binding			lung(2)|ovary(1)	3				all cancers(265;0.00536)|Epithelial(280;0.0161)|OV - Ovarian serous cystadenocarcinoma(397;0.141)		GCCAAGAAAGGCAGCGAGGTG	0.711													3	31	---	---	---	---	PASS	T	84544037	T	T	84544037	3	4	103	1	0	0	0	0	1	0	0	0	12498	1203	42	3	31	3	PRKACB	1	84544037	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	2096511	84544037	164706584	12	38200										
LCE5A	254910	broad.mit.edu	37	chr1	152484143	152484143	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cccagtgttcagccccatgcCcacctccagtctcttcctgc	6	20	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:152484143C>T	uc001ezy.2	+	2	309	c.133C>T	c.(133-135)CCA>TCA	p.P45S	CRCT1_uc001ezz.2_5'Flank	NM_178438	NP_848525	Q5TCM9	LCE5A_HUMAN	late cornified envelope 5A	45	Cys-rich.				keratinization					ovary(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGCCCCATGCCCACCTCCAGT	0.502													20	66	---	---	---	---	PASS	T	152484143	T	T	152484143	3	4	103	1	0	0	0	0	1	0	0	0	8675	623	22	3	135	3	LCE5A	1	152484143	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	67940106	152484143	96766478	13	38201										
CHRNB2	1141	broad.mit.edu	37	chr1	154543919	154543919	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tggtgagtgggacatcgtggCgctgccgggccggcgcaacg	19	11	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:154543919C>T	uc001ffg.2	+	5	884	c.620C>T	c.(619-621)GCG>GTG	p.A207V		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	207	Extracellular (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	GACATCGTGGCGCTGCCGGGC	0.592													15	68	---	---	---	---	PASS	T	154543919	T	T	154543919	3	4	103	1	0	0	0	0	1	0	0	0	3391	768	27	1	638	1	CHRNB2	1	154543919	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	2059776	154543919	94706702	14	38202										
NES	10763	broad.mit.edu	37	chr1	156639957	156639957	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tctgagggtggggcctcaagGccctcggaagccaggacagc	16	12	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:156639957G>T	uc001fpq.2	-	4	4156	c.4023C>A	c.(4021-4023)GGC>GGA	p.G1341G		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	1341	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GGGCCTCAAGGCCCTCGGAAG	0.537													24	96	---	---	---	---	PASS	T	156639957	T	T	156639957	2	4	103	1	0	0	0	0	0	0	0	1	10337	1190	42	3		3	NES	1	156639957	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08	2096038	156639957	92610664	15	38203										
KCNJ9	3765	broad.mit.edu	37	chr1	160054285	160054285	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gtgaacgccttcatggtgggCtgcatgttcgtcaagatctc	12	10	3	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:160054285C>A	uc001fuy.1	+	2	707	c.465C>A	c.(463-465)GGC>GGA	p.G155G		NM_004983	NP_004974	Q92806	IRK9_HUMAN	potassium inwardly-rectifying channel subfamily	155	Helical; Name=M2; (By similarity).				synaptic transmission	integral to membrane|plasma membrane	G-protein activated inward rectifier potassium channel activity|protein binding			ovary(1)|skin(1)	2	all_cancers(52;5.86e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCATGGTGGGCTGCATGTTCG	0.667													17	28	---	---	---	---	PASS	A	160054285	A	A	160054285	2	1	103	1	0	0	0	0	0	0	0	1	8057	784	28	3		3	KCNJ9	1	160054285	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	3414328	160054285	89196336	16	38204										
FAM5C	339479	broad.mit.edu	37	chr1	190195413	190195413	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	caaagctgcttgtacaaaacGttcctgaagatagtctggga	10	8	1	2	rs148869641		TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:190195413G>T	uc001gse.1	-	6	992	c.760C>A	c.(760-762)CGT>AGT	p.R254S	FAM5C_uc010pot.1_Missense_Mutation_p.R152S	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	254						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TGTACAAAACGTTCCTGAAGA	0.353													11	54	---	---	---	---	PASS	T	190195413	T	T	190195413	3	4	103	1	0	0	0	0	1	0	0	0	5594	1145	40	1	1552	1	FAM5C	1	190195413	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	30141128	190195413	59055208	17	38205										
MARK1	4139	broad.mit.edu	37	chr1	220809369	220809369	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aatcttcaactattccaagtGtgagtaaatactctggtata	6	7	3	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:220809369G>C	uc001hmn.3	+	13	2067	c.1470_splice	c.e13+1	p.S490_splice	MARK1_uc009xdw.2_Splice_Site_p.S490_splice|MARK1_uc010pun.1_Splice_Site_p.S490_splice|MARK1_uc001hmm.3_Splice_Site_p.S468_splice	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1						intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		TATTCCAAGTGTGAGTAAATA	0.333													6	41	---	---	---	---	PASS	C	220809369	C	C	220809369	5	2	103	1	0	0	0	0	0	0	1	0	9312	1391	48	4	1521	4	MARK1	1	220809369	Splice_Site	SNP	G	TCGA-43-6771-01A-11D-1817-08	30613956	220809369	28441252	18	38206										
SUSD4	55061	broad.mit.edu	37	chr1	223465960	223465960	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgaagccattctcgggaatgCcggggtcagcacacacttga	12	11	2	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:223465960C>T	uc001hnx.2	-	2	816	c.182G>A	c.(181-183)GGC>GAC	p.G61D	SUSD4_uc001hny.3_Missense_Mutation_p.G61D|SUSD4_uc010puw.1_5'UTR|SUSD4_uc001hnz.2_Missense_Mutation_p.G61D|SUSD4_uc010pux.1_Intron	NM_017982	NP_060452	Q5VX71	SUSD4_HUMAN	sushi domain containing 4 isoform a	61	Sushi 1.|Extracellular (Potential).					integral to membrane					0				GBM - Glioblastoma multiforme(131;0.0611)		CTCGGGAATGCCGGGGTCAGC	0.522													3	72	---	---	---	---	PASS	T	223465960	T	T	223465960	3	4	103	1	0	0	0	0	1	0	0	0	15407	739	26	3	1471	3	SUSD4	1	223465960	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	2656591	223465960	25784661	19	38207										
RYR2	6262	broad.mit.edu	37	chr1	237801714	237801714	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gccagatgctggtgtctaagGgctatccagacattgggtgg	15	8	1	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:237801714G>T	uc001hyl.1	+	45	6970	c.6850G>T	c.(6850-6852)GGC>TGC	p.G2284C		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2284	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GGTGTCTAAGGGCTATCCAGA	0.428													48	192	---	---	---	---	PASS	T	237801714	T	T	237801714	3	4	103	1	0	0	0	0	1	0	0	0	13769	1232	43	3	7028	3	RYR2	1	237801714	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	14335754	237801714	11448907	20	38208										
OR2L13	284521	broad.mit.edu	37	chr1	248262831	248262831	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ttcacctcatccacgtggatCctcgtctccacacaccgatg	6	17	3	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:248262831C>T	uc001ids.2	+	3	491	c.154C>T	c.(154-156)CCT>TCT	p.P52S		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	52	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			CCACGTGGATCCTCGTCTCCA	0.498													44	113	---	---	---	---	PASS	T	248262831	T	T	248262831	3	4	103	1	0	0	0	0	1	0	0	0	11006	855	30	2	156	2	OR2L13	1	248262831	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	10461117	248262831	987790	21	38209										
OR2M2	391194	broad.mit.edu	37	chr1	248344136	248344136	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ttctacaccatcctcactccCatgctgaatcccctcatcta	2	18	4	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:248344136C>T	uc010pzf.1	+	1	849	c.849C>T	c.(847-849)CCC>CCT	p.P283P		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TCCTCACTCCCATGCTGAATC	0.483													41	140	---	---	---	---	PASS	T	248344136	T	T	248344136	2	4	103	1	0	0	0	0	0	0	0	1	11010	581	21	3		3	OR2M2	1	248344136	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	81305	248344136	906485	22	38210										
OR2T6	254879	broad.mit.edu	37	chr1	248551173	248551173	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctggtagattatctcatgggCgaggggaccatctctttcat	11	9	3	1	rs151042656	byFrequency	TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:248551173C>A	uc001iei.1	+	1	264	c.264C>A	c.(262-264)GGC>GGA	p.G88G		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.G88G(1)		ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATCTCATGGGCGAGGGGACCA	0.527													33	73	---	---	---	---	PASS	A	248551173	A	A	248551173	2	1	103	1	0	0	0	0	0	0	0	1	11029	755	27	1		1	OR2T6	1	248551173	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	207037	248551173	699448	23	38211										
OR2T5	401993	broad.mit.edu	37	chr1	248651974	248651974	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tcagacgatccaaacatccaGctctacttagtgtggtcatc	7	12	3	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr1:248651974G>T	uc001iem.1	+	1	85	c.85G>T	c.(85-87)GCT>TCT	p.A29S		NM_001004697	NP_001004697	Q6IEZ7	OR2T5_HUMAN	olfactory receptor, family 2, subfamily T,	29	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CAAACATCCAGCTCTACTTAG	0.507													23	130	---	---	---	---	PASS	T	248651974	T	T	248651974	3	4	103	1	0	0	0	0	1	0	0	0	11028	971	34	3	87	3	OR2T5	1	248651974	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	100801	248651974	598647	24	38212										
HADHB	3032	broad.mit.edu	37	chr2	26502066	26502066	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	actctgcagaccgactggccGctgcctttgctgtttctcgg	11	14	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:26502066G>T	uc002rgz.2	+	9	945	c.694G>T	c.(694-696)GCT>TCT	p.A232S	HADHB_uc010ykv.1_Missense_Mutation_p.A210S|HADHB_uc010ykw.1_Missense_Mutation_p.A217S|HADHB_uc002rha.2_Intron|HADHB_uc010ykx.1_Missense_Mutation_p.A158S	NM_000183	NP_000174	P55084	ECHB_HUMAN	mitochondrial trifunctional protein, beta	232					fatty acid beta-oxidation	mitochondrial nucleoid	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acyltransferase activity|enoyl-CoA hydratase activity|protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCGACTGGCCGCTGCCTTTGC	0.542													30	109	---	---	---	---	PASS	T	26502066	T	T	26502066	3	4	103	1	0	0	0	0	1	0	0	0	6944	1087	38	1	724	1	HADHB	2	26502066	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08		26502066	216697307	25	38213										
BIRC6	57448	broad.mit.edu	37	chr2	32740406	32740406	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctcttcttgtgaggagtctgGctagtttctgctttagccac	10	10	4	1	rs112352145		TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:32740406G>T	uc010ezu.2	+	55	11052	c.10918G>T	c.(10918-10920)GCT>TCT	p.A3640S		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3640					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)					GAGGAGTCTGGCTAGTTTCTG	0.438													14	48	---	---	---	---	PASS	T	32740406	T	T	32740406	3	4	103	1	0	0	0	0	1	0	0	0	1438	1203	42	3	11136	3	BIRC6	2	32740406	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	6238340	32740406	210458967	26	38214										
BIRC6	57448	broad.mit.edu	37	chr2	32750596	32750596	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gcccaccatccaggagggggAggacaatacctgataaaata	11	10	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:32750596A>T	uc010ezu.2	+	59	11955	c.11821A>T	c.(11821-11823)AGG>TGG	p.R3941W		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3941					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)					CAGGAGGGGGAGGACAATACC	0.458													14	62	---	---	---	---	PASS	T	32750596	T	T	32750596	3	4	103	1	0	0	0	0	1	0	0	0	1438	295	11	5	12055	5	BIRC6	2	32750596	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	10190	32750596	210448777	27	38215										
NRXN1	9378	broad.mit.edu	37	chr2	50149153	50149153	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cgcactgctgggttgtttctCctttacaacagccccattgg	9	13	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:50149153C>A	uc010fbp.2	-	6	2065	c.1258G>T	c.(1258-1260)GAG>TAG	p.E420*	NRXN1_uc002rxb.3_Nonsense_Mutation_p.E1154*|NRXN1_uc010fbq.2_Nonsense_Mutation_p.E1525*|NRXN1_uc002rxe.3_Nonsense_Mutation_p.E1455*|NRXN1_uc010yon.1_Nonsense_Mutation_p.E120*|NRXN1_uc002rxa.3_Nonsense_Mutation_p.E117*	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	420	Cytoplasmic (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GGTTGTTTCTCCTTTACAACA	0.413													26	75	---	---	---	---	PASS	A	50149153	A	A	50149153	4	1	103	1	0	0	0	0	0	1	0	0	10665	864	30	2	74	2	NRXN1	2	50149153	Nonsense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	17398557	50149153	193050220	28	38216										
INPP4A	3631	broad.mit.edu	37	chr2	99155388	99155388	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cgatgagagcttgacggaggCgttaggaatccgatccaaat	13	8	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:99155388C>T	uc002syy.2	+	9	1007	c.614C>T	c.(613-615)GCG>GTG	p.A205V	INPP4A_uc010yvj.1_Missense_Mutation_p.A205V|INPP4A_uc010yvk.1_Missense_Mutation_p.A205V|INPP4A_uc002syx.2_Missense_Mutation_p.A205V|INPP4A_uc010fik.2_Intron	NM_001134224	NP_001127696	Q96PE3	INP4A_HUMAN	inositol polyphosphate-4-phosphatase, type 1	205					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			kidney(1)	1						TTGACGGAGGCGTTAGGAATC	0.438													6	25	---	---	---	---	PASS	T	99155388	T	T	99155388	3	4	103	1	0	0	0	0	1	0	0	0	7752	768	27	1	640	1	INPP4A	2	99155388	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	49006235	99155388	144043985	29	38217										
CNTNAP5	129684	broad.mit.edu	37	chr2	125284887	125284887	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cccgacaatctcaccgattcCcaatgtttaaatcccattaa	3	14	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:125284887C>A	uc002tno.2	+	10	1864	c.1500C>A	c.(1498-1500)TCC>TCA	p.S500S	CNTNAP5_uc010flu.2_Silent_p.S501S	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	500	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TCACCGATTCCCAATGTTTAA	0.463													11	62	---	---	---	---	PASS	A	125284887	A	A	125284887	2	1	103	1	0	0	0	0	0	0	0	1	3650	610	22	3		3	CNTNAP5	2	125284887	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	26129499	125284887	117914486	30	38218										
LRP1B	53353	broad.mit.edu	37	chr2	141116407	141116407	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	taccaccacagtgatcttcaTctgaattgtcaccgcattca	5	13	5	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:141116407T>G	uc002tvj.1	-	73	12212	c.11240A>C	c.(11239-11241)GAT>GCT	p.D3747A		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3747	Extracellular (Potential).|LDL-receptor class A 31.				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)		GTGATCTTCATCTGAATTGTC	0.388										TSP Lung(27;0.18)			4	129	---	---	---	---	PASS	G	141116407	G	G	141116407	3	3	103	1	0	0	0	0	1	0	0	0	8955	1435	50	5	2635	5	LRP1B	2	141116407	Missense_Mutation	SNP	T	TCGA-43-6771-01A-11D-1817-08	15831520	141116407	102082966	31	38219										
LRP1B	53353	broad.mit.edu	37	chr2	141660699	141660699	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tccaggaacaacagaacagtGgttgctacagcctccattgt	9	11	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:141660699G>T	uc002tvj.1	-	23	4528	c.3556C>A	c.(3556-3558)CAC>AAC	p.H1186N	LRP1B_uc010fnl.1_Missense_Mutation_p.H368N	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1186	Extracellular (Potential).				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)		ACAGAACAGTGGTTGCTACAG	0.388										TSP Lung(27;0.18)			9	45	---	---	---	---	PASS	T	141660699	T	T	141660699	3	4	103	1	0	0	0	0	1	0	0	0	8955	1348	47	3	10519	3	LRP1B	2	141660699	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	544292	141660699	101538674	32	38220										
LRP1B	53353	broad.mit.edu	37	chr2	141665614	141665614	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	atcttcgcaatcaatatctcCatcacacacccatgctttgt	3	14	4	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:141665614C>T	uc002tvj.1	-	22	4324	c.3352G>A	c.(3352-3354)GGA>AGA	p.G1118R	LRP1B_uc010fnl.1_Missense_Mutation_p.G300R	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1118	Extracellular (Potential).|LDL-receptor class A 9.				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)		TCAATATCTCCATCACACACC	0.413										TSP Lung(27;0.18)			16	60	---	---	---	---	PASS	T	141665614	T	T	141665614	3	4	103	1	0	0	0	0	1	0	0	0	8955	603	21	3	10727	3	LRP1B	2	141665614	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	4915	141665614	101533759	33	38221										
LRP1B	53353	broad.mit.edu	37	chr2	141762970	141762970	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agcacacacccggcctcctgGgatagccaagcaaagtgtac	10	14	0	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:141762970G>T	uc002tvj.1	-	15	3409	c.2437C>A	c.(2437-2439)CCA>ACA	p.P813T	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	813	Extracellular (Potential).|EGF-like 3.				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)		CGGCCTCCTGGGATAGCCAAG	0.428										TSP Lung(27;0.18)			16	66	---	---	---	---	PASS	T	141762970	T	T	141762970	3	4	103	1	0	0	0	0	1	0	0	0	8955	1232	43	3	11670	3	LRP1B	2	141762970	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	97356	141762970	101436403	34	38222										
ZEB2	9839	broad.mit.edu	37	chr2	145156530	145156530	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gtggagttctgctatagatgGtgatgttatggagtccatag	14	4	1	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:145156530G>T	uc002tvu.2	-	8	2704	c.2224C>A	c.(2224-2226)CCA>ACA	p.P742T	ZEB2_uc002tvv.2_Missense_Mutation_p.P736T|ZEB2_uc010zbm.1_Missense_Mutation_p.P713T|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.P771T	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	742						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		GCTATAGATGGTGATGTTATG	0.418													60	205	---	---	---	---	PASS	T	145156530	T	T	145156530	3	4	103	1	0	0	0	0	1	0	0	0	17621	1261	44	3	1432	3	ZEB2	2	145156530	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	3393560	145156530	98042843	35	38223										
SLC4A10	57282	broad.mit.edu	37	chr2	162760576	162760576	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	atacttctggagtgacttcaGagatgctttcagcctgcagt	10	9	3	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:162760576G>A	uc002ubx.3	+	13	1689	c.1505G>A	c.(1504-1506)AGA>AAA	p.R502K	SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.R472K|SLC4A10_uc010zcs.1_Missense_Mutation_p.R483K	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	502	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						AGTGACTTCAGAGATGCTTTC	0.433													4	12	---	---	---	---	PASS	A	162760576	A	A	162760576	3	1	103	1	0	0	0	0	1	0	0	0	14651	942	33	2	1640	2	SLC4A10	2	162760576	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	17604046	162760576	80438797	36	38224										
CALCRL	10203	broad.mit.edu	37	chr2	188210986	188210986	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tttccatttaagtgttcactAggacagtcatgactataacc	6	9	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:188210986A>T	uc002upv.3	-	15	1859	c.1311T>A	c.(1309-1311)CCT>CCA	p.P437P	CALCRL_uc010frt.2_Silent_p.P437P	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	437	Cytoplasmic (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			AGTGTTCACTAGGACAGTCAT	0.363													10	41	---	---	---	---	PASS	T	188210986	T	T	188210986	2	4	103	1	0	0	0	0	0	0	0	1	2580	407	15	5		5	CALCRL	2	188210986	Silent	SNP	A	TCGA-43-6771-01A-11D-1817-08	25450410	188210986	54988387	37	38225										
DIRC1	116093	broad.mit.edu	37	chr2	189599601	189599601	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgcttccgtggtctgtggtgGgcagtgatgtttgcagtttt	15	6	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:189599601G>T	uc002uqi.1	-	2	318	c.47C>A	c.(46-48)CCC>CAC	p.P16H		NM_052952	NP_443184	Q969H9	DIRC1_HUMAN	disrupted in renal carcinoma 1	16											0			OV - Ovarian serous cystadenocarcinoma(117;0.00842)|Epithelial(96;0.102)			GTCTGTGGTGGGCAGTGATGT	0.522													19	66	---	---	---	---	PASS	T	189599601	T	T	189599601	3	4	103	1	0	0	0	0	1	0	0	0	4533	1232	43	3	271	3	DIRC1	2	189599601	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	1388615	189599601	53599772	38	38226										
FAM117B	150864	broad.mit.edu	37	chr2	203622139	203622139	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccttgctcagcggatgacctGcttgttgatcccagagataa	10	11	1	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:203622139G>T	uc010zhx.1	+	6	1318	c.1308G>T	c.(1306-1308)CTG>CTT	p.L436L		NM_173511	NP_775782	Q6P1L5	F117B_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	436										ovary(1)	1						CGGATGACCTGCTTGTTGATC	0.468													15	44	---	---	---	---	PASS	T	203622139	T	T	203622139	2	4	103	1	0	0	0	0	0	0	0	1	5410	1306	46	3		3	FAM117B	2	203622139	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08	14022538	203622139	39577234	39	38227										
GPR1	2825	broad.mit.edu	37	chr2	207040914	207040914	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aagtaataacttattgagctGtttccaggagacacagattc	8	7	0	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr2:207040914G>C	uc002vbl.3	-	3	1444	c.1058C>G	c.(1057-1059)ACA>AGA	p.T353R	GPR1_uc010fue.2_Missense_Mutation_p.T353R|GPR1_uc010fuf.2_Missense_Mutation_p.T353R	NM_005279	NP_005270	P46091	GPR1_HUMAN	G protein-coupled receptor 1	353	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0		Lung NSC(271;7.93e-06)|Renal(323;0.000147)|Hepatocellular(293;0.000888)		UCEC - Uterine corpus endometrioid carcinoma (47;0.000241)|Epithelial(149;1.91e-37)|STAD - Stomach adenocarcinoma(1183;0.00178)|Lung(261;0.111)|LUSC - Lung squamous cell carcinoma(261;0.184)		TTATTGAGCTGTTTCCAGGAG	0.413													8	33	---	---	---	---	PASS	C	207040914	C	C	207040914	3	2	103	1	0	0	0	0	1	0	0	0	6621	1377	48	4	13	4	GPR1	2	207040914	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	3418775	207040914	36158459	40	38228										
ATP2B2	491	broad.mit.edu	37	chr3	10400554	10400554	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cttctttaccatctcgtcccGgtcgcggggccggaagacac	11	15	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:10400554G>A	uc003bvt.2	-	14	2396	c.1957C>T	c.(1957-1959)CGG>TGG	p.R653W	ATP2B2_uc003bvv.2_Missense_Mutation_p.R608W|ATP2B2_uc003bvw.2_Missense_Mutation_p.R608W|ATP2B2_uc010hdo.2_Missense_Mutation_p.R358W	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	653	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						ATCTCGTCCCGGTCGCGGGGC	0.637													5	52	---	---	---	---	PASS	A	10400554	A	A	10400554	3	1	103	1	0	0	0	0	1	0	0	0	1140	1115	39	1	1814	1	ATP2B2	3	10400554	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08		10400554	187621876	41	38229										
FBLN2	2199	broad.mit.edu	37	chr3	13611931	13611931	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccctgggccccagcgtggccGcagctgcccctcggcaggac	14	19	0	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:13611931G>T	uc011avb.1	+	2	201	c.76G>T	c.(76-78)GCA>TCA	p.A26S	FBLN2_uc011auz.1_Missense_Mutation_p.A52S|FBLN2_uc011ava.1_Missense_Mutation_p.A26S|FBLN2_uc011avc.1_Missense_Mutation_p.A26S	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	26						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			CAGCGTGGCCGCAGCTGCCCC	0.721													4	6	---	---	---	---	PASS	T	13611931	T	T	13611931	3	4	103	1	0	0	0	0	1	0	0	0	5699	1087	38	1		1	FBLN2	3	13611931	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	3211377	13611931	184410499	42	38230										
NR2C2	7182	broad.mit.edu	37	chr3	15064835	15064835	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tagctactcccacgtttgtgGcagacaaagatggagcaagg	12	9	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:15064835G>T	uc003bzj.3	+	6	902	c.685G>T	c.(685-687)GCA>TCA	p.A229S	NR2C2_uc003bzi.2_Missense_Mutation_p.A248S	NM_003298	NP_003289	P49116	NR2C2_HUMAN	nuclear receptor subfamily 2, group C, member 2	229					cell differentiation|nervous system development|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						CACGTTTGTGGCAGACAAAGA	0.507													4	136	---	---	---	---	PASS	T	15064835	T	T	15064835	3	4	103	1	0	0	0	0	1	0	0	0	10623	1203	42	3	764	3	NR2C2	3	15064835	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	1452904	15064835	182957595	43	38231										
LRRC3B	116135	broad.mit.edu	37	chr3	26751354	26751354	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aatacctagagatcttcctcCtgaaacagtcttactgtatc	5	11	2	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:26751354C>A	uc003cdp.2	+	2	780	c.191C>A	c.(190-192)CCT>CAT	p.P64H	LRRC3B_uc003cdq.2_Missense_Mutation_p.P64H	NM_052953	NP_443185	Q96PB8	LRC3B_HUMAN	leucine rich repeat containing 3B precursor	64	LRRNT.					integral to membrane				pancreas(2)|ovary(1)|skin(1)	4						GATCTTCCTCCTGAAACAGTC	0.428													21	59	---	---	---	---	PASS	A	26751354	A	A	26751354	3	1	103	1	0	0	0	0	1	0	0	0	8996	681	24	3	193	3	LRRC3B	3	26751354	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	11686519	26751354	171271076	44	38232										
USP19	10869	broad.mit.edu	37	chr3	49146522	49146522	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ggtagggccacgtggtagggGgcccacccagtcttggggcc	18	12	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:49146522G>A	uc003cwd.1	-	26	3987	c.3826C>T	c.(3826-3828)CCC>TCC	p.P1276S	USP19_uc003cwa.2_Intron|USP19_uc003cvz.3_Intron|USP19_uc011bcg.1_Intron|USP19_uc003cwb.2_Intron|USP19_uc003cwc.1_Missense_Mutation_p.P1034S|USP19_uc011bch.1_Missense_Mutation_p.P1377S	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	1276	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CGTGGTAGGGGGCCCACCCAG	0.672													3	13	---	---	---	---	PASS	A	49146522	A	A	49146522	3	1	103	1	0	0	0	0	1	0	0	0	17047	1232	43	3	134	3	USP19	3	49146522	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	22395168	49146522	148875908	45	38233										
ROBO2	6092	broad.mit.edu	37	chr3	77147370	77147370	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	atgcttctgcccagcggatcCttattcttcttgcgcatcgt	8	13	3	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:77147370C>A	uc003dpy.3	+	2	910	c.267C>A	c.(265-267)TCC>TCA	p.S89S	ROBO2_uc003dpz.2_Silent_p.S89S|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Silent_p.S89S	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	89	Ig-like C2-type 1.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CCAGCGGATCCTTATTCTTCT	0.557													23	79	---	---	---	---	PASS	A	77147370	A	A	77147370	2	1	103	1	0	0	0	0	0	0	0	1	13514	681	24	3		3	ROBO2	3	77147370	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	28000848	77147370	120875060	46	38234										
GPR128	84873	broad.mit.edu	37	chr3	100378607	100378607	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tcattcatcgtacctgtaacCattatcctcatcagcaatgt	4	12	4	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:100378607C>A	uc003duc.2	+	14	2167	c.1899C>A	c.(1897-1899)ACC>ACA	p.T633T	GPR128_uc011bhc.1_Silent_p.T334T|GPR128_uc003dud.2_Silent_p.T156T	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	633	Helical; Name=5; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						TACCTGTAACCATTATCCTCA	0.403													20	72	---	---	---	---	PASS	A	100378607	A	A	100378607	2	1	103	1	0	0	0	0	0	0	0	1	6641	581	21	3		3	GPR128	3	100378607	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	23231237	100378607	97643823	47	38235										
ZPLD1	131368	broad.mit.edu	37	chr3	102183089	102183089	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgacattcgatatgatctttTccttaggtaagacttagctg	8	7	1	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:102183089T>A	uc003dvs.1	+	14	1637	c.755T>A	c.(754-756)TTC>TAC	p.F252Y	ZPLD1_uc003dvt.1_Missense_Mutation_p.F268Y|ZPLD1_uc011bhg.1_Missense_Mutation_p.F252Y	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	252	ZP.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						TATGATCTTTTCCTTAGGTAA	0.318													25	97	---	---	---	---	PASS	A	102183089	A	A	102183089	3	1	103	1	0	0	0	0	1	0	0	0	18218	1783	62	5	829	5	ZPLD1	3	102183089	Missense_Mutation	SNP	T	TCGA-43-6771-01A-11D-1817-08	1804482	102183089	95839341	48	38236										
DRD3	1814	broad.mit.edu	37	chr3	113878657	113878657	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ggctgtacacatcatgacatCcagggtgacaaaaacatcac	8	11	2	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:113878657C>T	uc003ebd.2	-	4	751	c.328G>A	c.(328-330)GAT>AAT	p.D110N	DRD3_uc010hqn.1_Missense_Mutation_p.D110N|DRD3_uc003ebb.1_Missense_Mutation_p.D110N|DRD3_uc003ebc.1_Missense_Mutation_p.D110N	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	110	Helical; Name=3.	Agonist.			activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	ATCATGACATCCAGGGTGACA	0.502													61	107	---	---	---	---	PASS	T	113878657	T	T	113878657	3	4	103	1	0	0	0	0	1	0	0	0	4758	855	30	2	894	2	DRD3	3	113878657	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	11695568	113878657	84143773	49	38237										
POLQ	10721	broad.mit.edu	37	chr3	121228898	121228898	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	acacttaccttctgttccatCactggcttctgtactctgga	6	13	4	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:121228898C>A	uc003eee.3	-	11	1933	c.1804G>T	c.(1804-1806)GAT>TAT	p.D602Y		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	602					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TCTGTTCCATCACTGGCTTCT	0.408								DNA_polymerases_(catalytic_subunits)					39	108	---	---	---	---	PASS	A	121228898	A	A	121228898	3	1	103	1	0	0	0	0	1	0	0	0	12208	826	29	2	6048	2	POLQ	3	121228898	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	7350241	121228898	76793532	50	38238										
CLSTN2	64084	broad.mit.edu	37	chr3	140251217	140251217	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tcaatgtggagtttcctgtgGtaaccttatacatggatgga	11	6	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:140251217G>A	uc003etn.2	+	9	1586	c.1396G>A	c.(1396-1398)GTA>ATA	p.V466I	CLSTN2_uc003etm.2_Missense_Mutation_p.V466I	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	466	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						GTTTCCTGTGGTAACCTTATA	0.408										HNSCC(16;0.037)			14	118	---	---	---	---	PASS	A	140251217	A	A	140251217	3	1	103	1	0	0	0	0	1	0	0	0	3562	1261	44	3	1430	3	CLSTN2	3	140251217	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	19022319	140251217	57771213	51	38239										
ZIC4	84107	broad.mit.edu	37	chr3	147113994	147113994	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cggaagaaagcgccaggaccGtggggcgcagcgaggttcac	17	11	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:147113994G>T	uc003ewd.1	-	3	606	c.333C>A	c.(331-333)CAC>CAA	p.H111Q	ZIC4_uc003ewc.1_Missense_Mutation_p.H41Q|ZIC4_uc011bno.1_Missense_Mutation_p.H161Q	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	111						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						CGCCAGGACCGTGGGGCGCAG	0.701													11	33	---	---	---	---	PASS	T	147113994	T	T	147113994	3	4	103	1	0	0	0	0	1	0	0	0	17678	1136	40	1	683	1	ZIC4	3	147113994	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	6862777	147113994	50908436	52	38240										
ZIC1	7545	broad.mit.edu	37	chr3	147128391	147128391	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gtggtcaacgggcagatgagGctcggcttctcgggggacat	17	9	2	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:147128391G>T	uc003ewe.2	+	1	1211	c.492G>T	c.(490-492)AGG>AGT	p.R164S		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	164					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GGCAGATGAGGCTCGGCTTCT	0.701													16	20	---	---	---	---	PASS	T	147128391	T	T	147128391	3	4	103	1	0	0	0	0	1	0	0	0	17675	1194	42	3	494	3	ZIC1	3	147128391	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	14397	147128391	50894039	53	38241										
ZIC1	7545	broad.mit.edu	37	chr3	147130402	147130402	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cacgtgcacacgagcgacaaGccctatctttgcaagatgtg	10	12	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:147130402G>T	uc003ewe.2	+	2	1799	c.1080G>T	c.(1078-1080)AAG>AAT	p.K360N		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	360					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CGAGCGACAAGCCCTATCTTT	0.582													15	116	---	---	---	---	PASS	T	147130402	T	T	147130402	3	4	103	1	0	0	0	0	1	0	0	0	17675	962	34	3	1086	3	ZIC1	3	147130402	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	2011	147130402	50892028	54	38242										
CPA3	1359	broad.mit.edu	37	chr3	148596536	148596536	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	atccactatatgttctgaagGtaaaaataactcaagaacca	5	8	2	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:148596536G>T	uc003ewm.2	+	5	526	c.474_splice	c.e5+1	p.K158_splice		NM_001870	NP_001861	P15088	CBPA3_HUMAN	carboxypeptidase A3 precursor						proteolysis	stored secretory granule|transport vesicle	metallocarboxypeptidase activity|zinc ion binding			breast(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			TGTTCTGAAGGTAAAAATAAC	0.308													27	71	---	---	---	---	PASS	T	148596536	T	T	148596536	5	4	103	1	0	0	0	0	0	0	1	0	3791	1275	44	3	493	3	CPA3	3	148596536	Splice_Site	SNP	G	TCGA-43-6771-01A-11D-1817-08	1466134	148596536	49425894	55	38243										
PHC3	80012	broad.mit.edu	37	chr3	169847268	169847268	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tcagctgatgatgggaaactTtggaaggtggtgaatgaaga	15	3	1	5			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:169847268T>G	uc010hws.1	-	8	1020	c.956A>C	c.(955-957)AAA>ACA	p.K319T	PHC3_uc003fgl.2_Missense_Mutation_p.K331T|PHC3_uc011bpq.1_Missense_Mutation_p.K278T|PHC3_uc011bpr.1_Missense_Mutation_p.K245T	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	319					multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			ATGGGAAACTTTGGAAGGTGG	0.408													58	141	---	---	---	---	PASS	G	169847268	G	G	169847268	3	3	103	1	0	0	0	0	1	0	0	0	11818	1841	64	5	2027	5	PHC3	3	169847268	Missense_Mutation	SNP	T	TCGA-43-6771-01A-11D-1817-08	21250732	169847268	28175162	56	38244										
ABCC5	10057	broad.mit.edu	37	chr3	183696311	183696311	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctgtgctgctgtcagatcgaAgcccagggtcatatgaacag	12	10	2	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:183696311A>T	uc003fmg.2	-	9	1441	c.1276T>A	c.(1276-1278)TTC>ATC	p.F426I	ABCC5_uc011bqt.1_5'UTR|ABCC5_uc010hxl.2_Missense_Mutation_p.F426I	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	426	ABC transmembrane type-1 1.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GTCAGATCGAAGCCCAGGGTC	0.443													21	75	---	---	---	---	PASS	T	183696311	T	T	183696311	3	4	103	1	0	0	0	0	1	0	0	0	56	72	3	5	3125	5	ABCC5	3	183696311	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	13849043	183696311	14326119	57	38245										
CLDN1	9076	broad.mit.edu	37	chr3	190039968	190039968	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	caggaaggcgagaatgaagcCcaacagctgcagccccgcgt	13	13	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr3:190039968C>G	uc003fsh.2	-	1	248	c.28G>C	c.(28-30)GGC>CGC	p.G10R		NM_021101	NP_066924	O95832	CLD1_HUMAN	claudin 1	10	Helical; (Potential).				calcium-independent cell-cell adhesion|interspecies interaction between organisms	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity			lung(1)	1	all_cancers(143;2.95e-10)|Ovarian(172;0.0512)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.015)		AGAATGAAGCCCAACAGCTGC	0.657													13	48	---	---	---	---	PASS	G	190039968	G	G	190039968	3	3	103	1	0	0	0	0	1	0	0	0	3471	623	22	4	623	4	CLDN1	3	190039968	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	6343657	190039968	7982462	58	38246										
AMBN	258	broad.mit.edu	37	chr4	71472446	71472446	+	Nonstop_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	atggcatttccaagagccctGacagctctaagatattagct	8	10	1	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr4:71472446G>C	uc003hfl.2	+	13	1418	c.1343G>C	c.(1342-1344)TGA>TCA	p.*448S		NM_016519	NP_057603	Q9NP70	AMBN_HUMAN	ameloblastin precursor	448					bone mineralization|cell adhesion|cell proliferation|odontogenesis of dentine-containing tooth	proteinaceous extracellular matrix	growth factor activity|structural constituent of tooth enamel			ovary(3)|skin(1)	4			Lung(101;0.235)			CAAGAGCCCTGACAGCTCTAA	0.483													22	25	---	---	---	---	PASS	C	71472446	C	C	71472446	4	2	103	1	0	0	0	0	0	0	0	0	563	1285	45	2	1393	2	AMBN	4	71472446	Nonstop_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08		71472446	119681830	59	38247										
ANTXR2	118429	broad.mit.edu	37	chr4	80990634	80990634	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	atagttgcttgagaagaaaaCacaatgaaagataatctcat	7	5	1	4			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr4:80990634C>T	uc003hlz.3	-	3	1015	c.252G>A	c.(250-252)GTG>GTA	p.V84V	ANTXR2_uc003hly.3_Silent_p.V84V|ANTXR2_uc003hlx.1_RNA|ANTXR2_uc010ijn.2_Silent_p.V84V	NM_001145794	NP_001139266	P58335	ANTR2_HUMAN	anthrax toxin receptor 2 isoform 2	84	Extracellular (Potential).|VWFA.					endoplasmic reticulum membrane|extracellular region|integral to membrane|plasma membrane	metal ion binding|protein binding|receptor activity			ovary(1)	1						GAGAAGAAAACACAATGAAAG	0.313									Juvenile_Hyaline_Fibromatosis				5	10	---	---	---	---	PASS	T	80990634	T	T	80990634	2	4	103	1	0	0	0	0	0	0	0	1	712	465	17	3		3	ANTXR2	4	80990634	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	9518188	80990634	110163642	60	38248										
MAPK10	5602	broad.mit.edu	37	chr4	86988994	86988994	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agagtttggggaaggtgagtCccgcatacttgggccgattc	15	8	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr4:86988994C>A	uc003hpq.2	-	9	984	c.917G>T	c.(916-918)GGA>GTA	p.G306V	MAPK10_uc010ikg.2_Missense_Mutation_p.G268V|MAPK10_uc003hpr.2_Missense_Mutation_p.G268V|MAPK10_uc003hps.2_Missense_Mutation_p.G306V|MAPK10_uc003hpt.2_Missense_Mutation_p.G306V|MAPK10_uc003hpu.2_Missense_Mutation_p.G306V|MAPK10_uc003hpv.2_Missense_Mutation_p.G161V|MAPK10_uc003hpn.2_Missense_Mutation_p.G54V|MAPK10_uc003hpo.2_Missense_Mutation_p.G161V|MAPK10_uc011ccw.1_Missense_Mutation_p.G192V|MAPK10_uc003hpp.2_Missense_Mutation_p.G161V	NM_138982	NP_620448	P53779	MK10_HUMAN	mitogen-activated protein kinase 10 isoform 2	306	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|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|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)		GAAGGTGAGTCCCGCATACTT	0.458													22	36	---	---	---	---	PASS	A	86988994	A	A	86988994	3	1	103	1	0	0	0	0	1	0	0	0	9272	855	30	2	502	2	MAPK10	4	86988994	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	5998360	86988994	104165282	61	38249										
ANK2	287	broad.mit.edu	37	chr4	114277038	114277038	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gccgagatagcgaagtcctcAgcgctgtggctgatgactca	13	11	2	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr4:114277038A>C	uc003ibe.3	+	38	7364	c.7264A>C	c.(7264-7266)AGC>CGC	p.S2422R	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Intron|ANK2_uc011cgb.1_Missense_Mutation_p.S2437R	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2389					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CGAAGTCCTCAGCGCTGTGGC	0.483													9	55	---	---	---	---	PASS	C	114277038	C	C	114277038	3	2	103	1	0	0	0	0	1	0	0	0	621	188	7	5	7479	5	ANK2	4	114277038	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	27288044	114277038	76877238	62	38250										
PDZD2	23037	broad.mit.edu	37	chr5	32101331	32101331	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agatgggcccttggtcattaAaagagtgtacaaaggtaatg	12	5	1	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:32101331A>G	uc003jhl.2	+	24	8727	c.8339A>G	c.(8338-8340)AAA>AGA	p.K2780R	PDZD2_uc003jhm.2_Missense_Mutation_p.K2780R|PDZD2_uc003jhn.2_RNA	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2780	PDZ 6.				cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						TTGGTCATTAAAAGAGTGTAC	0.468													15	32	---	---	---	---	PASS	G	32101331	G	G	32101331	3	3	103	1	0	0	0	0	1	0	0	0	11701	14	1	5	8429	5	PDZD2	5	32101331	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08		32101331	148813929	63	38251										
MTMR12	54545	broad.mit.edu	37	chr5	32274181	32274181	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cccatgctgacaggaatcttCctggacatacttcagtactg	8	12	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:32274181C>A	uc003jhq.2	-	3	360	c.190G>T	c.(190-192)GAA>TAA	p.E64*	MTMR12_uc010iuk.2_Nonsense_Mutation_p.E64*|MTMR12_uc010iul.2_Nonsense_Mutation_p.E64*	NM_001040446	NP_001035536	Q9C0I1	MTMRC_HUMAN	myotubularin related protein 12	64						cytoplasm	phosphatase activity			ovary(1)	1						CAGGAATCTTCCTGGACATAC	0.458													35	105	---	---	---	---	PASS	A	32274181	A	A	32274181	4	1	103	1	0	0	0	0	0	1	0	0	9941	864	30	2	2109	2	MTMR12	5	32274181	Nonsense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	172850	32274181	148641079	64	38252										
CAPSL	133690	broad.mit.edu	37	chr5	35921196	35921196	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ttggcctggatcgccatctcTcggtcatggcgcgctgtccc	12	15	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:35921196T>A	uc003jjt.1	-	2	122	c.27A>T	c.(25-27)CGA>CGT	p.R9R	CAPSL_uc003jju.1_Silent_p.R9R	NM_001042625	NP_001036090	Q8WWF8	CAPSL_HUMAN	calcyphosine-like	9						cytoplasm	calcium ion binding			skin(1)	1	all_lung(31;0.000268)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.167)|Colorectal(62;0.202)			TCGCCATCTCTCGGTCATGGC	0.612													19	45	---	---	---	---	PASS	A	35921196	A	A	35921196	2	1	103	1	0	0	0	0	0	0	0	1	2639	1538	54	5		5	CAPSL	5	35921196	Silent	SNP	T	TCGA-43-6771-01A-11D-1817-08	3647015	35921196	144994064	65	38253										
IL31RA	133396	broad.mit.edu	37	chr5	55195757	55195757	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ggttcagaaggcaagaggagCcccagtcctagagaaaacac	12	10	1	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:55195757C>A	uc003jql.2	+	8	931	c.866C>A	c.(865-867)GCC>GAC	p.A289D	IL31RA_uc003jqk.2_Missense_Mutation_p.A289D|IL31RA_uc011cqj.1_Missense_Mutation_p.A147D|IL31RA_uc003jqm.2_Missense_Mutation_p.A257D|IL31RA_uc003jqn.2_Missense_Mutation_p.A289D|IL31RA_uc010iwa.1_Missense_Mutation_p.A257D|IL31RA_uc003jqo.2_Missense_Mutation_p.A147D	NM_139017	NP_620586	Q8NI17	IL31R_HUMAN	gp130-like monocyte receptor	257	Extracellular (Potential).|Fibronectin type-III 3.				anti-apoptosis|defense response|homeostatic process|JAK-STAT cascade|macrophage differentiation|MAPKKK cascade|monocyte differentiation|negative regulation of macrophage activation|positive regulation of cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|plasma membrane	cytokine receptor activity|protein kinase binding|transcription coactivator activity			ovary(1)	1		Lung NSC(810;6.93e-05)|Prostate(74;0.00741)|Breast(144;0.0544)|Ovarian(174;0.223)				GCAAGAGGAGCCCCAGTCCTA	0.433													12	64	---	---	---	---	PASS	A	55195757	A	A	55195757	3	1	103	1	0	0	0	0	1	0	0	0	7691	739	26	3	896	3	IL31RA	5	55195757	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	19274561	55195757	125719503	66	38254										
DEPDC1B	55789	broad.mit.edu	37	chr5	59893658	59893658	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	attagcagctgtggtttcggTttgggtttttcaggaaacag	13	5	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:59893658T>C	uc003jsh.2	-	11	1585	c.1512A>G	c.(1510-1512)AAA>AAG	p.K504K	DEPDC1B_uc011cqm.1_Silent_p.K442K|DEPDC1B_uc011cqn.1_Silent_p.K415K	NM_018369	NP_060839	Q8WUY9	DEP1B_HUMAN	DEP domain containing 1B isoform 1	504					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)	1		Lung NSC(810;0.000214)|Prostate(74;0.0147)|Breast(144;0.0991)|Ovarian(174;0.17)				GTGGTTTCGGTTTGGGTTTTT	0.388													3	126	---	---	---	---	PASS	C	59893658	C	C	59893658	2	2	103	1	0	0	0	0	0	0	0	1	4440	1722	60	5		5	DEPDC1B	5	59893658	Silent	SNP	T	TCGA-43-6771-01A-11D-1817-08	4697901	59893658	121021602	67	38255										
ERBB2IP	55914	broad.mit.edu	37	chr5	65344565	65344565	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	accaccattaattgaaacctCtattaaccagccaaaagtcg	4	12	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:65344565C>T	uc003juk.1	+	19	2167	c.1859C>T	c.(1858-1860)TCT>TTT	p.S620F	ERBB2IP_uc003juh.1_Missense_Mutation_p.S616F|ERBB2IP_uc003jui.1_Missense_Mutation_p.S620F|ERBB2IP_uc003juj.1_Missense_Mutation_p.S620F|ERBB2IP_uc011cqx.1_Missense_Mutation_p.S620F|ERBB2IP_uc011cqy.1_Missense_Mutation_p.S620F|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Missense_Mutation_p.S616F|ERBB2IP_uc003jul.1_Missense_Mutation_p.S616F	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	620					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		ATTGAAACCTCTATTAACCAG	0.353													9	55	---	---	---	---	PASS	T	65344565	T	T	65344565	3	4	103	1	0	0	0	0	1	0	0	0	5207	913	32	2	1925	2	ERBB2IP	5	65344565	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	5450907	65344565	115570695	68	38256										
TTC37	9652	broad.mit.edu	37	chr5	94848321	94848321	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cataacctaatgctccttcaGtctttaaaaaagccaacgtt	4	11	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:94848321G>A	uc003klb.2	-	28	3050	c.2780C>T	c.(2779-2781)ACT>ATT	p.T927I		NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	927							binding			ovary(3)|pancreas(1)	4						TGCTCCTTCAGTCTTTAAAAA	0.333													13	62	---	---	---	---	PASS	A	94848321	A	A	94848321	3	1	103	1	0	0	0	0	1	0	0	0	16702	1043	36	3	1978	3	TTC37	5	94848321	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	29503756	94848321	86066939	69	38257										
COMMD10	51397	broad.mit.edu	37	chr5	115628185	115628185	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	acagctggattcccttacatGatgttttcgaagactgtttt	8	8	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:115628185G>A	uc003krt.1	+	7	631	c.608G>A	c.(607-609)TGA>TAA	p.*203*		NM_016144	NP_057228	Q9Y6G5	COMDA_HUMAN	COMM domain containing 10	203							protein binding			ovary(1)	1		all_cancers(142;0.0834)|all_epithelial(76;0.00314)|Prostate(80;0.0102)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;4.3e-07)|Epithelial(69;8.06e-07)|all cancers(49;4.06e-05)		TCCCTTACATGATGTTTTCGA	0.373													23	94	---	---	---	---	PASS	A	115628185	A	A	115628185	2	1	103	1	0	0	0	0	0	0	0	1	3715	1285	45	2		2	COMMD10	5	115628185	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08	20779864	115628185	65287075	70	38258										
AFF4	27125	broad.mit.edu	37	chr5	132269995	132269995	+	Silent	SNP	A	C	C													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tccatgggccgcacataggcAgtgggtttctgtaacattga							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:132269995A>C	uc003kyd.2	-	3	1170	c.762T>G	c.(760-762)ACT>ACG	p.T254T	AFF4_uc011cxk.1_5'UTR|AFF4_uc003kye.1_Silent_p.T254T|AFF4_uc003kyf.3_Silent_p.T254T	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	254	Ser-rich.				transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GCACATAGGCAGTGGGTTTCT	0.502													17	122	---	---	---	---	PASS	C	132269995	C	C	132269995	2	2	103	1	0	0	0	0	0	0	0	1	359	175	7	5		5	AFF4	5	132269995	Silent	SNP	A	TCGA-43-6771-01A-11D-1817-08	16641810	132269995	48645265	71	38259	715	2								
AFF4	27125	broad.mit.edu	37	chr5	132269996	132269996	+	Missense_Mutation	SNP	G	A	A													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccatgggccgcacataggcaGtgggtttctgtaacattgaa							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:132269996G>A	uc003kyd.2	-	3	1169	c.761C>T	c.(760-762)ACT>ATT	p.T254I	AFF4_uc011cxk.1_5'UTR|AFF4_uc003kye.1_Missense_Mutation_p.T254I|AFF4_uc003kyf.3_Missense_Mutation_p.T254I	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	254	Ser-rich.				transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CACATAGGCAGTGGGTTTCTG	0.507													16	123	---	---	---	---	PASS	A	132269996	A	A	132269996	3	1	103	1	0	0	0	0	1	0	0	0	359	1029	36	3	2806	3	AFF4	5	132269996	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	1	132269996	48645264	72	38260	715	2								
FAM13B	51306	broad.mit.edu	37	chr5	137284746	137284746	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ggttttttctccttctgaatGaccttgggttcatcttcatt	7	9	5	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:137284746G>T	uc003lbz.2	-	17	2526	c.1992C>A	c.(1990-1992)GTC>GTA	p.V664V	FAM13B_uc003lcb.2_Silent_p.V568V|FAM13B_uc003lca.2_Silent_p.V664V	NM_016603	NP_057687	Q9NYF5	FA13B_HUMAN	hypothetical protein LOC51306 isoform 1	664					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						CCTTCTGAATGACCTTGGGTT	0.383													4	142	---	---	---	---	PASS	T	137284746	T	T	137284746	2	4	103	1	0	0	0	0	0	0	0	1	5453	1277	45	2		2	FAM13B	5	137284746	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08	5014750	137284746	43630514	73	38261										
PCDHA4	56144	broad.mit.edu	37	chr5	140188054	140188054	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	atgagctggtggtgaccgcgCgagacgggggctcgccttcg	18	11	0	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:140188054C>T	uc003lhi.2	+	1	1383	c.1282C>T	c.(1282-1284)CGA>TGA	p.R428*	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Nonsense_Mutation_p.R428*|PCDHA4_uc011daa.1_Nonsense_Mutation_p.R428*	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	428	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGACCGCGCGAGACGGGGG	0.622													36	122	---	---	---	---	PASS	T	140188054	T	T	140188054	4	4	103	1	0	0	0	0	0	1	0	0	11526	760	27	1	1284	1	PCDHA4	5	140188054	Nonsense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	2903308	140188054	40727206	74	38262										
PCDHA7	56141	broad.mit.edu	37	chr5	140215252	140215252	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gagctggtggttaccgcgcgGgacgggggctcgccttctct	17	12	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:140215252G>T	uc003lhq.2	+	1	1284	c.1284G>T	c.(1282-1284)CGG>CGT	p.R428R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.R428R	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	428	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTACCGCGCGGGACGGGGGCT	0.622													35	159	---	---	---	---	PASS	T	140215252	T	T	140215252	2	4	103	1	0	0	0	0	0	0	0	1	11529	1219	43	3		3	PCDHA7	5	140215252	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08	27198	140215252	40700008	75	38263										
PCDHB12	56124	broad.mit.edu	37	chr5	140590315	140590315	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctgctcaaggccacggagccCgggctattcggcgtgtgggc	16	13	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:140590315C>T	uc003liz.2	+	1	2025	c.1836C>T	c.(1834-1836)CCC>CCT	p.P612P	PCDHB12_uc011dak.1_Silent_p.P275P	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	612	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCACGGAGCCCGGGCTATTCG	0.701													12	139	---	---	---	---	PASS	T	140590315	T	T	140590315	2	4	103	1	0	0	0	0	0	0	0	1	11537	639	23	1		1	PCDHB12	5	140590315	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	375063	140590315	40324945	76	38264										
PCDHGA2	56113	broad.mit.edu	37	chr5	140720255	140720255	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccttccccacagacggttccActggcgtggagctggcgccc	12	17	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:140720255A>T	uc003ljk.1	+	1	1902	c.1717A>T	c.(1717-1719)ACT>TCT	p.T573S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.T573S	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	573	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGACGGTTCCACTGGCGTGGA	0.627													42	154	---	---	---	---	PASS	T	140720255	T	T	140720255	3	4	103	1	0	0	0	0	1	0	0	0	11554	159	6	5	1719	5	PCDHGA2	5	140720255	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	129940	140720255	40195005	77	38265										
PCDHGB7	56099	broad.mit.edu	37	chr5	140799073	140799073	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agcgccaatgtgagcctgcgCgtgttggtgggcgaccgtaa	16	10	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:140799073C>T	uc003lkn.1	+	1	1792	c.1647C>T	c.(1645-1647)CGC>CGT	p.R549R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Silent_p.R549R|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	549	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAGCCTGCGCGTGTTGGTGG	0.726													6	50	---	---	---	---	PASS	T	140799073	T	T	140799073	2	4	103	1	0	0	0	0	0	0	0	1	11568	755	27	1		1	PCDHGB7	5	140799073	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	78818	140799073	40116187	78	38266										
PCDHGA11	56105	broad.mit.edu	37	chr5	140801878	140801878	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	attcaattctggaaaactctCctccaggtacagtgattgct	7	10	3	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:140801878C>T	uc003lkq.1	+	1	1342	c.1084C>T	c.(1084-1086)CCT>TCT	p.P362S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.P362S|PCDHGA11_uc003lkp.1_Missense_Mutation_p.P362S	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	362	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAAAACTCTCCTCCAGGTAC	0.388													6	33	---	---	---	---	PASS	T	140801878	T	T	140801878	3	4	103	1	0	0	0	0	1	0	0	0	11552	855	30	2	1086	2	PCDHGA11	5	140801878	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	2805	140801878	40113382	79	38267										
PCDHGA12	26025	broad.mit.edu	37	chr5	140812405	140812405	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tcagacctcactctgtacctGgtggtagcggtggccgcggt	14	12	3	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:140812405G>C	uc003lkt.1	+	1	2248	c.2079G>C	c.(2077-2079)CTG>CTC	p.L693L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.L693L	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	693	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCTGTACCTGGTGGTAGCGG	0.652													32	147	---	---	---	---	PASS	C	140812405	C	C	140812405	2	2	103	1	0	0	0	0	0	0	0	1	11553	1335	47	4		4	PCDHGA12	5	140812405	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08	10527	140812405	40102855	80	38268										
NDST1	3340	broad.mit.edu	37	chr5	149907838	149907838	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cgtgggcaaggagggcacacGcatgaaggtggaggacgtga	19	7	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:149907838G>T	uc003lsk.3	+	3	1488	c.986G>T	c.(985-987)CGC>CTC	p.R329L	NDST1_uc011dcj.1_Missense_Mutation_p.R329L|NDST1_uc003lsl.2_Missense_Mutation_p.R329L	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	329	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAGGGCACACGCATGAAGGTG	0.632													19	59	---	---	---	---	PASS	T	149907838	T	T	149907838	3	4	103	1	0	0	0	0	1	0	0	0	10255	1087	38	1	992	1	NDST1	5	149907838	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	9095433	149907838	31007422	81	38269										
KIF4B	285643	broad.mit.edu	37	chr5	154397042	154397042	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ataccaacaaaataagcctcCagggaagaaaaagaaacgag	8	8	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:154397042C>T	uc010jih.1	+	1	3783	c.3623C>T	c.(3622-3624)CCA>CTA	p.P1208L		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	1208	Interaction with PRC1 (By similarity).|Globular (By similarity).				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			AATAAGCCTCCAGGGAAGAAA	0.507													11	31	---	---	---	---	PASS	T	154397042	T	T	154397042	3	4	103	1	0	0	0	0	1	0	0	0	8304	594	21	3	3625	3	KIF4B	5	154397042	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	4489204	154397042	26518218	82	38270										
FAM71B	153745	broad.mit.edu	37	chr5	156590131	156590131	+	Missense_Mutation	SNP	G	T	T													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tttctgctgcacacttgctgGtcgtaatactgcctgcaaac							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:156590131G>T	uc003lwn.2	-	2	1245	c.1145C>A	c.(1144-1146)ACC>AAC	p.T382N		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	382						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ACACTTGCTGGTCGTAATACT	0.572													15	55	---	---	---	---	PASS	T	156590131	T	T	156590131	3	4	103	1	0	0	0	0	1	0	0	0	5608	1261	44	3	676	3	FAM71B	5	156590131	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	2193089	156590131	24325129	83	38271	716	2								
FAM71B	153745	broad.mit.edu	37	chr5	156590133	156590133	+	Silent	SNP	C	G	G													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tctgctgcacacttgctggtCgtaatactgcctgcaaacgc							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:156590133C>G	uc003lwn.2	-	2	1243	c.1143G>C	c.(1141-1143)ACG>ACC	p.T381T		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	381						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ACTTGCTGGTCGTAATACTGC	0.572													17	55	---	---	---	---	PASS	G	156590133	G	G	156590133	2	3	103	1	0	0	0	0	0	0	0	1	5608	871	31	2		2	FAM71B	5	156590133	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	2	156590133	24325127	84	38272	716	2								
FAM71B	153745	broad.mit.edu	37	chr5	156590401	156590401	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctatgctcatagcacctgttGcaggactcattgctgcccct	8	14	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:156590401G>T	uc003lwn.2	-	2	975	c.875C>A	c.(874-876)GCA>GAA	p.A292E		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	292	Ala-rich.					nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AGCACCTGTTGCAGGACTCAT	0.537													37	138	---	---	---	---	PASS	T	156590401	T	T	156590401	3	4	103	1	0	0	0	0	1	0	0	0	5608	1319	46	3	946	3	FAM71B	5	156590401	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	268	156590401	24324859	85	38273										
SLIT3	6586	broad.mit.edu	37	chr5	168201328	168201328	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ggagagcaagttgaggttctGcaggtcctgaaacgtgttca	14	7	2	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:168201328G>C	uc003mab.2	-	13	1627	c.1207C>G	c.(1207-1209)CAG>GAG	p.Q403E	SLIT3_uc010jjg.2_Missense_Mutation_p.Q403E|SLIT3_uc010jji.2_Missense_Mutation_p.Q403E|SLIT3_uc003mac.1_Missense_Mutation_p.Q200E	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	403					apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TTGAGGTTCTGCAGGTCCTGA	0.517													64	211	---	---	---	---	PASS	C	168201328	C	C	168201328	3	2	103	1	0	0	0	0	1	0	0	0	14741	1328	46	4	3460	4	SLIT3	5	168201328	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	11610927	168201328	12713932	86	38274										
ERGIC1	57222	broad.mit.edu	37	chr5	172351073	172351073	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccacagaacccagacatgacGcatgtcatccacaagctctc	6	16	2	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr5:172351073G>T	uc003mbw.3	+	6	635	c.441G>T	c.(439-441)ACG>ACT	p.T147T	ERGIC1_uc003mby.3_Silent_p.T55T|ERGIC1_uc011dfa.1_Silent_p.T92T	NM_001031711	NP_001026881	Q969X5	ERGI1_HUMAN	endoplasmic reticulum-golgi intermediate	147	Lumenal (Potential).				ER to Golgi vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	protein binding			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00344)|all_lung(126;0.00594)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CAGACATGACGCATGTCATCC	0.602													5	30	---	---	---	---	PASS	T	172351073	T	T	172351073	2	4	103	1	0	0	0	0	0	0	0	1	5223	1074	38	1		1	ERGIC1	5	172351073	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08	4149745	172351073	8564187	87	38275										
SYNGAP1	8831	broad.mit.edu	37	chr6	33403080	33403080	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgggccaggagttctgttttGaggtactgggtctggtgggc	18	6	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr6:33403080G>A	uc011dri.1	+	6	856	c.661G>A	c.(661-663)GAG>AAG	p.E221K	SYNGAP1_uc003oeo.1_Missense_Mutation_p.E206K|SYNGAP1_uc010juy.2_Missense_Mutation_p.E206K|SYNGAP1_uc010juz.2_5'Flank	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	221	PH.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						GTTCTGTTTTGAGGTACTGGG	0.562													35	31	---	---	---	---	PASS	A	33403080	A	A	33403080	3	1	103	1	0	0	0	0	1	0	0	0	15444	1291	45	2	683	2	SYNGAP1	6	33403080	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08		33403080	137711987	88	38276										
DEF6	50619	broad.mit.edu	37	chr6	35278241	35278241	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cagccctggtggcaggtggaGgagggggcttttgttaaaga	18	6	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr6:35278241G>T	uc003okk.2	+	3	282	c.243G>T	c.(241-243)GAG>GAT	p.E81D	DEF6_uc010jvs.2_Missense_Mutation_p.E81D|DEF6_uc010jvt.2_Translation_Start_Site	NM_022047	NP_071330	Q9H4E7	DEFI6_HUMAN	differentially expressed in FDCP 6 homolog	81						cytoplasm|nucleus|plasma membrane					0						GGCAGGTGGAGGAGGGGGCTT	0.542													25	40	---	---	---	---	PASS	T	35278241	T	T	35278241	3	4	103	1	0	0	0	0	1	0	0	0	4386	991	35	3	253	3	DEF6	6	35278241	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	1875161	35278241	135836826	89	38277										
BAI3	577	broad.mit.edu	37	chr6	69349089	69349089	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgccatgtattatgtacttgGttggagagctgcttaaaatc	10	6	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr6:69349089G>T	uc003pev.3	+	3	970	c.522G>T	c.(520-522)TGG>TGT	p.W174C	BAI3_uc010kak.2_Missense_Mutation_p.W174C	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	174	Extracellular (Potential).				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)				TATGTACTTGGTTGGAGAGCT	0.418													44	44	---	---	---	---	PASS	T	69349089	T	T	69349089	3	4	103	1	0	0	0	0	1	0	0	0	1300	1270	44	3	524	3	BAI3	6	69349089	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	34070848	69349089	101765978	90	38278										
KPNA5	3841	broad.mit.edu	37	chr6	117037477	117037477	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aaaccctcctccaaactttaGtaaggtatgagtaaaataca	5	9	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr6:117037477G>T	uc003pxh.2	+	8	883	c.752G>T	c.(751-753)AGT>ATT	p.S251I		NM_002269	NP_002260	O15131	IMA5_HUMAN	karyopherin alpha 5	248	ARM 5.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding|protein transporter activity			breast(3)|skin(1)	4		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0298)|all cancers(137;0.0461)|OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.212)		CCAAACTTTAGTAAGGTATGA	0.328													27	33	---	---	---	---	PASS	T	117037477	T	T	117037477	3	4	103	1	0	0	0	0	1	0	0	0	8433	1029	36	3	782	3	KPNA5	6	117037477	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	47688388	117037477	54077590	91	38279										
RFX6	222546	broad.mit.edu	37	chr6	117248301	117248301	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	accaatggcagggaggccccCaagtgtgggcccagtactgt	14	12	0	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr6:117248301C>T	uc003pxm.2	+	17	2060	c.1997C>T	c.(1996-1998)CCA>CTA	p.P666L		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	666					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						GGGAGGCCCCCAAGTGTGGGC	0.527													59	90	---	---	---	---	PASS	T	117248301	T	T	117248301	3	4	103	1	0	0	0	0	1	0	0	0	13267	594	21	3	2063	3	RFX6	6	117248301	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	210824	117248301	53866766	92	38280										
NCOA7	135112	broad.mit.edu	37	chr6	126176353	126176353	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gtaatcagttaaaggagatcAggcgtacagaactaaagaga	11	5	2	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr6:126176353A>G	uc010kes.2	+	5	687	c.238A>G	c.(238-240)AGG>GGG	p.R80G	NCOA7_uc003qae.3_Missense_Mutation_p.R80G|NCOA7_uc003qah.2_Missense_Mutation_p.R80G|NCOA7_uc003qai.2_Missense_Mutation_p.R80G|NCOA7_uc010ket.2_Intron|NCOA7_uc003qaf.2_Missense_Mutation_p.R80G|NCOA7_uc003qag.2_Missense_Mutation_p.R80G|NCOA7_uc003qaj.2_Missense_Mutation_p.R80G	NM_181782	NP_861447	Q8NI08	NCOA7_HUMAN	nuclear receptor coactivator 7 isoform 1	80					cell wall macromolecule catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)		AAAGGAGATCAGGCGTACAGA	0.313													3	160	---	---	---	---	PASS	G	126176353	G	G	126176353	3	3	103	1	0	0	0	0	1	0	0	0	10234	179	7	5	244	5	NCOA7	6	126176353	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	8928052	126176353	44938714	93	38281										
CCDC129	223075	broad.mit.edu	37	chr7	31617997	31617997	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tttcagactaacaagctcaaGagcttgtctcatcttgcagg	8	10	4	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr7:31617997G>C	uc003tcj.1	+	8	2112	c.1119G>C	c.(1117-1119)AAG>AAC	p.K373N	CCDC129_uc011kad.1_Missense_Mutation_p.K383N|CCDC129_uc003tci.1_Intron|CCDC129_uc011kae.1_Missense_Mutation_p.K399N|CCDC129_uc003tck.1_Missense_Mutation_p.K281N	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	373											0						ACAAGCTCAAGAGCTTGTCTC	0.498													20	72	---	---	---	---	PASS	C	31617997	C	C	31617997	3	2	103	1	0	0	0	0	1	0	0	0	2764	933	33	2	1145	2	CCDC129	7	31617997	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08		31617997	127520666	94	38282										
BMPER	168667	broad.mit.edu	37	chr7	34182925	34182925	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ggcatatacccgggcctgccAgagagagggcatcaaagtcc	13	12	1	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr7:34182925A>C	uc011kap.1	+	14	1943	c.1829A>C	c.(1828-1830)CAG>CCG	p.Q610P		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	610					blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						CGGGCCTGCCAGAGAGAGGGC	0.473													54	86	---	---	---	---	PASS	C	34182925	C	C	34182925	3	2	103	1	0	0	0	0	1	0	0	0	1468	188	7	5	1883	5	BMPER	7	34182925	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	2564928	34182925	124955738	95	38283										
CACNA2D1	781	broad.mit.edu	37	chr7	81667449	81667449	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cttataatctgtaattccttTggctgtgatattattcaccg	6	8	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr7:81667449T>C	uc003uhr.1	-	11	1238	c.982A>G	c.(982-984)AAA>GAA	p.K328E		NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	328	Extracellular (Potential).|VWFA.					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	gtaattcctttggctGTGATA	0.294													39	64	---	---	---	---	PASS	C	81667449	C	C	81667449	3	2	103	1	0	0	0	0	1	0	0	0	2548	1821	63	5	2409	5	CACNA2D1	7	81667449	Missense_Mutation	SNP	T	TCGA-43-6771-01A-11D-1817-08	47484524	81667449	77471214	96	38284										
POT1	25913	broad.mit.edu	37	chr7	124499166	124499166	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgtcctggtgccatcccataCctgccataagagagtagagt	10	11	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr7:124499166C>A	uc003vlm.2	-	9	1148	c.547G>T	c.(547-549)GTA>TTA	p.V183L	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_Missense_Mutation_p.V52L|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	183					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						CCATCCCATACCTGCCATAAG	0.353													18	20	---	---	---	---	PASS	A	124499166	A	A	124499166	3	1	103	1	0	0	0	0	1	0	0	0	12260	521	18	3	1401	3	POT1	7	124499166	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	42831717	124499166	34639497	97	38285										
OR2A5	393046	broad.mit.edu	37	chr7	143747807	143747807	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	caatgcagacctttttatacAtggcttttgctcacactgag	7	10	1	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr7:143747807A>G	uc011ktw.1	+	1	313	c.313A>G	c.(313-315)ATG>GTG	p.M105V		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					CTTTTTATACATGGCTTTTGC	0.438													18	129	---	---	---	---	PASS	G	143747807	G	G	143747807	3	3	103	1	0	0	0	0	1	0	0	0	10981	217	8	5	315	5	OR2A5	7	143747807	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	19248641	143747807	15390856	98	38286										
RP1L1	94137	broad.mit.edu	37	chr8	10464903	10464903	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tctgactctggctgggcctcCccttcagcctccggggtctc	11	17	4	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr8:10464903C>T	uc003wtc.2	-	4	6934	c.6705G>A	c.(6703-6705)GGG>GGA	p.G2235G		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	2235					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GCTGGGCCTCCCCTTCAGCCT	0.592													23	118	---	---	---	---	PASS	T	10464903	T	T	10464903	2	4	103	1	0	0	0	0	0	0	0	1	13533	610	22	3		3	RP1L1	8	10464903	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08		10464903	135899119	99	38287										
DOCK5	80005	broad.mit.edu	37	chr8	25234906	25234906	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agagcttaaagagaagctgtAtcaagaaatcatatcatatt	7	5	3	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr8:25234906A>G	uc003xeg.2	+	38	4039	c.3902A>G	c.(3901-3903)TAT>TGT	p.Y1301C	PPP2R2A_uc003xek.2_Missense_Mutation_p.Y90C|DOCK5_uc003xei.2_Missense_Mutation_p.Y871C|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1301	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		GAGAAGCTGTATCAAGAAATC	0.378													7	37	---	---	---	---	PASS	G	25234906	G	G	25234906	3	3	103	1	0	0	0	0	1	0	0	0	4690	449	16	5	4052	5	DOCK5	8	25234906	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	14770003	25234906	121129116	100	38288										
NOV	4856	broad.mit.edu	37	chr8	120435214	120435214	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gctgctgcactccccacaatAccaaaaccatccaggcagag	7	16	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr8:120435214A>G	uc003yoq.2	+	5	1137	c.916A>G	c.(916-918)ACC>GCC	p.T306A		NM_002514	NP_002505	P48745	NOV_HUMAN	nephroblastoma overexpressed precursor	306	CTCK.				regulation of cell growth		growth factor activity|insulin-like growth factor binding			ovary(2)|skin(2)|kidney(1)	5	all_cancers(13;3.84e-26)|Lung NSC(37;1.19e-08)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000507)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TCCCCACAATACCAAAACCAT	0.552													18	107	---	---	---	---	PASS	G	120435214	G	G	120435214	3	3	103	1	0	0	0	0	1	0	0	0	10553	391	14	5	934	5	NOV	8	120435214	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	95200308	120435214	25928808	101	38289										
FER1L6	654463	broad.mit.edu	37	chr8	125083789	125083789	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gcccccaggattctagctctGaggacagcgggcagctgaga	14	12	2	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr8:125083789G>C	uc003yqw.2	+	31	4215	c.4009G>C	c.(4009-4011)GAG>CAG	p.E1337Q	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1337	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TTCTAGCTCTGAGGACAGCGG	0.512													9	61	---	---	---	---	PASS	C	125083789	C	C	125083789	3	2	103	1	0	0	0	0	1	0	0	0	5815	1291	45	2	4127	2	FER1L6	8	125083789	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	4648575	125083789	21280233	102	38290										
KCNK9	51305	broad.mit.edu	37	chr8	140630959	140630959	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	caggatatacataaagctaaAggccacgtagagcggcttct	10	9	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr8:140630959A>T	uc003yvf.1	-	2	731	c.667T>A	c.(667-669)TTT>ATT	p.F223I	KCNK9_uc003yvg.1_Missense_Mutation_p.F223I|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	223	Helical; (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			ATAAAGCTAAAGGCCACGTAG	0.562													9	67	---	---	---	---	PASS	T	140630959	T	T	140630959	3	4	103	1	0	0	0	0	1	0	0	0	8072	72	3	5	461	5	KCNK9	8	140630959	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	15547170	140630959	5733063	103	38291										
CYP11B1	1584	broad.mit.edu	37	chr8	143958589	143958589	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctgcacagcgttgggcgacaGcacttctggattcagccgca	12	13	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr8:143958589G>T	uc003yxi.2	-	3	452	c.445C>A	c.(445-447)CTG>ATG	p.L149M	CYP11B1_uc010mex.2_5'Flank|CYP11B1_uc003yxh.2_5'Flank|CYP11B1_uc003yxj.2_Missense_Mutation_p.L149M|CYP11B1_uc010mey.2_Missense_Mutation_p.L220M	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	149					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	TTGGGCGACAGCACTTCTGGA	0.627									Familial_Hyperaldosteronism_type_I				4	40	---	---	---	---	PASS	T	143958589	T	T	143958589	3	4	103	1	0	0	0	0	1	0	0	0	4145	962	34	3	1094	3	CYP11B1	8	143958589	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	3327630	143958589	2405433	104	38292										
TPD52L3	89882	broad.mit.edu	37	chr9	6328676	6328676	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctggaggatctgacagagccCgagcaaagagagctcaaaac	12	10	2	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr9:6328676C>T	uc003zjw.2	+	1	302	c.81C>T	c.(79-81)CCC>CCT	p.P27P	TPD52L3_uc003zjv.2_Silent_p.P27P|TPD52L3_uc003zjx.1_Silent_p.P27P	NM_033516	NP_277051	Q96J77	TPD55_HUMAN	protein kinase NYD-SP25 isoform 1	27							protein binding				0		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0198)|Lung(218;0.1)		TGACAGAGCCCGAGCAAAGAG	0.502													39	85	---	---	---	---	PASS	T	6328676	T	T	6328676	2	4	103	1	0	0	0	0	0	0	0	1	16397	639	23	1		1	TPD52L3	9	6328676	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08		6328676	134884755	105	38293										
KIAA1045	23349	broad.mit.edu	37	chr9	34971600	34971600	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gacaagtcgattcacaccccCtgcgttcatccgccccaccc	6	20	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr9:34971600C>A	uc003zvq.2	+	2	483	c.305C>A	c.(304-306)CCT>CAT	p.P102H	KIAA1045_uc003zvr.2_Missense_Mutation_p.P102H	NM_015297	NP_056112	Q9UPV7	K1045_HUMAN	hypothetical protein LOC23349	102							calcium ion binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00575)			TTCACACCCCCTGCGTTCATC	0.612													65	103	---	---	---	---	PASS	A	34971600	A	A	34971600	3	1	103	1	0	0	0	0	1	0	0	0	8207	681	24	3	307	3	KIAA1045	9	34971600	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	28642924	34971600	106241831	106	38294										
C9orf3	84909	broad.mit.edu	37	chr9	97522149	97522149	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cttgtgaagcactatgtactGgatttggatgtggattttga	12	4	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr9:97522149G>T	uc004ava.2	+	1	219	c.84G>T	c.(82-84)CTG>CTT	p.L28L	C9orf3_uc011lui.1_RNA|C9orf3_uc004aux.1_Silent_p.L28L|C9orf3_uc004auy.2_Silent_p.L28L|C9orf3_uc004auz.1_Silent_p.L28L	NM_032823	NP_116212	Q8N6M6	AMPO_HUMAN	aminopeptidase O	28					leukotriene biosynthetic process|proteolysis	cytoplasm	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(323;0.000275)		ACTATGTACTGGATTTGGATG	0.448													19	34	---	---	---	---	PASS	T	97522149	T	T	97522149	2	4	103	1	0	0	0	0	0	0	0	1	2477	1335	47	3		3	C9orf3	9	97522149	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08	62550549	97522149	43691282	107	38295										
CUBN	8029	broad.mit.edu	37	chr10	17157565	17157565	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gtcatatttggatgcacactGgggtccgtacgtctcaggtg	13	9	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr10:17157565G>A	uc001ioo.2	-	7	677	c.625C>T	c.(625-627)CAG>TAG	p.Q209*		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	209	EGF-like 2; calcium-binding (Potential).				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)	GATGCACACTGGGGTCCGTAC	0.537													21	73	---	---	---	---	PASS	A	17157565	A	A	17157565	4	1	103	1	0	0	0	0	0	1	0	0	4051	1357	47	3	10490	3	CUBN	10	17157565	Nonsense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08		17157565	118377182	108	38296										
ZNF239	8187	broad.mit.edu	37	chr10	44052638	44052638	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agctctgactaaagcccttcCcacacttgtcacatttataa	4	13	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr10:44052638C>A	uc001jaw.3	-	2	1543	c.890G>T	c.(889-891)GGG>GTG	p.G297V	ZNF239_uc001jax.3_Missense_Mutation_p.G297V|ZNF239_uc009xmj.2_Missense_Mutation_p.G297V|ZNF239_uc009xmk.2_Missense_Mutation_p.G297V	NM_005674	NP_005665	Q16600	ZN239_HUMAN	zinc finger protein 239	297	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|RNA binding|zinc ion binding				0						AAAGCCCTTCCCACACTTGTC	0.507													28	115	---	---	---	---	PASS	A	44052638	A	A	44052638	3	1	103	1	0	0	0	0	1	0	0	0	17788	623	22	3	490	3	ZNF239	10	44052638	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	26895073	44052638	91482109	109	38297										
KIAA1279	26128	broad.mit.edu	37	chr10	70748591	70748591	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	caggcagtagaggccgctatGgcgaacgttccgtgggcaga	16	10	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr10:70748591G>T	uc001joy.2	+	1	99	c.3G>T	c.(1-3)ATG>ATT	p.M1I		NM_015634	NP_056449	Q96EK5	KBP_HUMAN	KIF1 binding protein	1					cell differentiation|mitochondrial transport|nervous system development	mitochondrion	kinesin binding			ovary(1)	1						AGGCCGCTATGGCGAACGTTC	0.562											OREG0020215	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	41	---	---	---	---	PASS	T	70748591	T	T	70748591	3	4	103	1	0	0	0	0	1	0	0	0	8221	1348	47	3	5	3	KIAA1279	10	70748591	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	26695953	70748591	64786156	110	38298										
OIT3	170392	broad.mit.edu	37	chr10	74690336	74690336	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	taaagcagtacacatcccggGatcacctagcaaagcacttc	7	13	1	0	rs149032084		TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr10:74690336G>A	uc001jte.1	+	8	1626	c.1408G>A	c.(1408-1410)GAT>AAT	p.D470N	OIT3_uc009xqs.1_RNA	NM_152635	NP_689848	Q8WWZ8	OIT3_HUMAN	oncoprotein-induced transcript 3 precursor	470	ZP.					nuclear envelope	calcium ion binding			ovary(2)	2	Prostate(51;0.0198)					CACATCCCGGGATCACCTAGC	0.443													56	201	---	---	---	---	PASS	A	74690336	A	A	74690336	3	1	103	1	0	0	0	0	1	0	0	0	10849	1174	41	2	1438	2	OIT3	10	74690336	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	3941745	74690336	60844411	111	38299										
PNLIPRP2	5408	broad.mit.edu	37	chr10	118389530	118389530	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccatctgacgccgtgtttgtGgatgtgattcacacagattc	10	10	2	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr10:118389530G>T	uc001lcq.2	+	9	680	c.657G>T	c.(655-657)GTG>GTT	p.V219V	PNLIPRP2_uc009xyu.1_RNA|PNLIPRP2_uc009xyv.1_RNA	NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2	218					galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		CCGTGTTTGTGGATGTGATTC	0.537													5	22	---	---	---	---	PASS	T	118389530	T	T	118389530	2	4	103	1	0	0	0	0	0	0	0	1	12151	1335	47	3		3	PNLIPRP2	10	118389530	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08	43699194	118389530	17145217	112	38300										
C10orf88	80007	broad.mit.edu	37	chr10	124708324	124708324	+	Silent	SNP	C	A	A													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aaaactgatctcatgtgtacCacaactttactgatgaacac							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr10:124708324C>A	uc001lgw.2	-	4	714	c.489G>T	c.(487-489)GTG>GTT	p.V163V	C10orf88_uc001lgx.2_Silent_p.V65V	NM_024942	NP_079218	Q9H8K7	CJ088_HUMAN	hypothetical protein LOC80007	163											0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)		TCATGTGTACCACAACTTTAC	0.373													12	68	---	---	---	---	PASS	A	124708324	A	A	124708324	2	1	103	1	0	0	0	0	0	0	0	1	1622	581	21	3		3	C10orf88	10	124708324	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	6318794	124708324	10826423	113	38301	717	2								
C10orf88	80007	broad.mit.edu	37	chr10	124708325	124708325	+	Missense_Mutation	SNP	A	C	C													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aaactgatctcatgtgtaccAcaactttactgatgaacaca							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr10:124708325A>C	uc001lgw.2	-	4	713	c.488T>G	c.(487-489)GTG>GGG	p.V163G	C10orf88_uc001lgx.2_Missense_Mutation_p.V65G	NM_024942	NP_079218	Q9H8K7	CJ088_HUMAN	hypothetical protein LOC80007	163											0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)		CATGTGTACCACAACTTTACT	0.368													13	68	---	---	---	---	PASS	C	124708325	C	C	124708325	3	2	103	1	0	0	0	0	1	0	0	0	1622	159	6	5	861	5	C10orf88	10	124708325	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	1	124708325	10826422	114	38302	717	2								
FAM196A	642938	broad.mit.edu	37	chr10	128973730	128973730	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tcgggggacaggcactgcatCgggggtgagcaggccagggc	20	10	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr10:128973730C>G	uc001lju.1	-	1	971	c.930G>C	c.(928-930)CCG>CCC	p.P310P	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Silent_p.P310P|FAM196A_uc001ljv.1_Silent_p.P310P|FAM196A_uc009yap.1_Silent_p.P310P	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	310										ovary(2)	2						GGCACTGCATCGGGGGTGAGC	0.672													25	78	---	---	---	---	PASS	G	128973730	G	G	128973730	2	3	103	1	0	0	0	0	0	0	0	1	5528	871	31	2		2	FAM196A	10	128973730	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	4265405	128973730	6561017	115	38303										
MUC6	4588	broad.mit.edu	37	chr11	1021225	1021225	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctggacttactgcagggcacGcacaccccctcctcgtggtc	10	17	0	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:1021225G>A	uc001lsw.2	-	27	3630	c.3579C>T	c.(3577-3579)TGC>TGT	p.C1193C		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1193					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGCAGGGCACGCACACCCCCT	0.632													8	19	---	---	---	---	PASS	A	1021225	A	A	1021225	2	1	103	1	0	0	0	0	0	0	0	1	9980	1079	38	1		1	MUC6	11	1021225	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08		1021225	133985291	116	38304										
MRGPRE	116534	broad.mit.edu	37	chr11	3249654	3249654	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cgagtaccaggctgggaagaGggcggccaggcactgctcca	16	12	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:3249654G>A	uc001lxq.3	-	2	683	c.373C>T	c.(373-375)CTC>TTC	p.L125F		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	125	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		Medulloblastoma(188;0.00106)|all_epithelial(84;0.00111)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00529)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCTGGGAAGAGGGCGGCCAGG	0.687													8	17	---	---	---	---	PASS	A	3249654	A	A	3249654	3	1	103	1	0	0	0	0	1	0	0	0	9764	1000	35	3	566	3	MRGPRE	11	3249654	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	2228429	3249654	131756862	117	38305										
OR51V1	283111	broad.mit.edu	37	chr11	5221315	5221315	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aaccagcatcagggcatagtAactattgaatcggatgtctg	10	8	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:5221315A>T	uc010qyz.1	-	1	616	c.616T>A	c.(616-618)TAC>AAC	p.Y206N		NM_001004760	NP_001004760	Q9H2C8	O51V1_HUMAN	olfactory receptor, family 51, subfamily V,	206	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.83e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGGGCATAGTAACTATTGAAT	0.423													18	75	---	---	---	---	PASS	T	5221315	T	T	5221315	3	4	103	1	0	0	0	0	1	0	0	0	11107	362	13	5	352	5	OR51V1	11	5221315	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	1971661	5221315	129785201	118	38306										
OR52E8	390079	broad.mit.edu	37	chr11	5878717	5878717	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aagcccaggtcaatggaatcCaacatggccaggaagtagta	11	9	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:5878717C>A	uc010qzr.1	-	1	216	c.216G>T	c.(214-216)TTG>TTT	p.L72F	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	72	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAATGGAATCCAACATGGCCA	0.468													39	152	---	---	---	---	PASS	A	5878717	A	A	5878717	3	1	103	1	0	0	0	0	1	0	0	0	11118	593	21	3	739	3	OR52E8	11	5878717	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	657402	5878717	129127799	119	38307										
ILK	3611	broad.mit.edu	37	chr11	6631392	6631392	+	Missense_Mutation	SNP	G	T	T													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tctccagctctgcagaagaaGcctgaagacacaaacagacg							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:6631392G>T	uc001mee.2	+	12	1227	c.1092G>T	c.(1090-1092)AAG>AAT	p.K364N	ILK_uc001mef.2_Missense_Mutation_p.K364N|ILK_uc010rap.1_Missense_Mutation_p.K230N|ILK_uc010raq.1_Missense_Mutation_p.K303N|ILK_uc001meg.2_Missense_Mutation_p.K210N|ILK_uc001meh.2_Missense_Mutation_p.K364N|ILK_uc001mei.2_5'UTR	NM_001014794	NP_001014794	Q13418	ILK_HUMAN	integrin-linked kinase	364	Protein kinase.				cell junction assembly|cell proliferation|cell-matrix adhesion|integrin-mediated signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent	cytosol|focal adhesion	ATP binding|protein serine/threonine kinase activity			central_nervous_system(1)	1		Breast(177;7.61e-05)|Medulloblastoma(188;0.00263)|all_neural(188;0.026)|all_lung(207;0.152)		Epithelial(150;5.49e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00012)|Lung(200;0.00942)|LUSC - Lung squamous cell carcinoma(625;0.0163)		TGCAGAAGAAGCCTGAAGACA	0.532													36	77	---	---	---	---	PASS	T	6631392	T	T	6631392	3	4	103	1	0	0	0	0	1	0	0	0	7713	962	34	3	1134	3	ILK	11	6631392	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	752675	6631392	128375124	120	38308	718	2								
ILK	3611	broad.mit.edu	37	chr11	6631393	6631393	+	Missense_Mutation	SNP	C	A	A													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctccagctctgcagaagaagCctgaagacacaaacagacgc							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:6631393C>A	uc001mee.2	+	12	1228	c.1093C>A	c.(1093-1095)CCT>ACT	p.P365T	ILK_uc001mef.2_Missense_Mutation_p.P365T|ILK_uc010rap.1_Missense_Mutation_p.P231T|ILK_uc010raq.1_Missense_Mutation_p.P304T|ILK_uc001meg.2_Missense_Mutation_p.P211T|ILK_uc001meh.2_Missense_Mutation_p.P365T|ILK_uc001mei.2_5'UTR	NM_001014794	NP_001014794	Q13418	ILK_HUMAN	integrin-linked kinase	365	Protein kinase.				cell junction assembly|cell proliferation|cell-matrix adhesion|integrin-mediated signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent	cytosol|focal adhesion	ATP binding|protein serine/threonine kinase activity			central_nervous_system(1)	1		Breast(177;7.61e-05)|Medulloblastoma(188;0.00263)|all_neural(188;0.026)|all_lung(207;0.152)		Epithelial(150;5.49e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00012)|Lung(200;0.00942)|LUSC - Lung squamous cell carcinoma(625;0.0163)		GCAGAAGAAGCCTGAAGACAC	0.527													37	76	---	---	---	---	PASS	A	6631393	A	A	6631393	3	1	103	1	0	0	0	0	1	0	0	0	7713	739	26	3	1135	3	ILK	11	6631393	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	1	6631393	128375123	121	38309	718	2								
OR10A3	26496	broad.mit.edu	37	chr11	7960135	7960135	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	caacacaatcagaatgtgtgTaaaatcacttttcttcgcca	5	10	3	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:7960135T>C	uc010rbi.1	-	1	933	c.933A>G	c.(931-933)TTA>TTG	p.L311L		NM_001003745	NP_001003745	P58181	O10A3_HUMAN	olfactory receptor, family 10, subfamily A,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1				Epithelial(150;1.38e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AGAATGTGTGTAAAATCACTT	0.383													8	47	---	---	---	---	PASS	C	7960135	C	C	7960135	2	2	103	1	0	0	0	0	0	0	0	1	10891	1635	57	5		5	OR10A3	11	7960135	Silent	SNP	T	TCGA-43-6771-01A-11D-1817-08	1328742	7960135	127046381	122	38310										
RRAS2	22800	broad.mit.edu	37	chr11	14316390	14316390	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tcatggctccaaactcttctTgtcctgctgtatccaaaact	5	13	3	0	rs113954997		TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:14316390T>A	uc001mlf.3	-	3	528	c.215A>T	c.(214-216)CAA>CTA	p.Q72L	RRAS2_uc009ygq.2_5'UTR|RRAS2_uc010rco.1_Missense_Mutation_p.Q78L	NM_012250	NP_036382	P62070	RRAS2_HUMAN	related RAS viral (r-ras) oncogene homolog 2	72	GTP (By similarity).		Q -> L (in an ovarian cancer sample; somatic mutation).			endoplasmic reticulum|plasma membrane	GTP binding|GTPase activity|protein binding			breast(1)	1				Epithelial(150;0.203)		AAACTCTTCTTGTCCTGCTGT	0.393													406	131	---	---	---	---	PASS	A	14316390	A	A	14316390	3	1	103	1	0	0	0	0	1	0	0	0	13677	1812	63	5	415	5	RRAS2	11	14316390	Missense_Mutation	SNP	T	TCGA-43-6771-01A-11D-1817-08	6356255	14316390	120690126	123	38311										
LRRC4C	57689	broad.mit.edu	37	chr11	40137376	40137376	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgctttcaatggggttgtttCgcaaccagagctccttcagt	10	10	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:40137376C>T	uc001mxa.1	-	2	2431	c.467G>A	c.(466-468)CGA>CAA	p.R156Q	LRRC4C_uc001mxc.1_Missense_Mutation_p.R152Q|LRRC4C_uc001mxd.1_Missense_Mutation_p.R152Q|LRRC4C_uc001mxb.1_Missense_Mutation_p.R152Q	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	156	LRR 4.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				GGGGTTGTTTCGCAACCAGAG	0.428													32	41	---	---	---	---	PASS	T	40137376	T	T	40137376	3	4	103	1	0	0	0	0	1	0	0	0	9008	884	31	2	1459	2	LRRC4C	11	40137376	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	25820986	40137376	94869140	124	38312										
OR4C46	119749	broad.mit.edu	37	chr11	51515501	51515501	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ttgatgcctgctattcctctGtcaatacccctaacctgatc	5	14	2	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:51515501G>T	uc010ric.1	+	1	220	c.220G>T	c.(220-222)GTC>TTC	p.V74F		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	74	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTATTCCTCTGTCAATACCCC	0.483													39	214	---	---	---	---	PASS	T	51515501	T	T	51515501	3	4	103	1	0	0	0	0	1	0	0	0	11051	1377	48	3	222	3	OR4C46	11	51515501	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	11378125	51515501	83491015	125	38313										
OR4S2	219431	broad.mit.edu	37	chr11	55419064	55419064	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccctgagaaagcagtcagcaGaaggcaggcgcaaagccctc	12	13	1	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:55419064G>T	uc001nhs.1	+	1	685	c.685G>T	c.(685-687)GAA>TAA	p.E229*		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				GCAGTCAGCAGAAGGCAGGCG	0.502													44	34	---	---	---	---	PASS	T	55419064	T	T	55419064	4	4	103	1	0	0	0	0	0	1	0	0	11083	943	33	2	687	2	OR4S2	11	55419064	Nonsense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	3903563	55419064	79587452	126	38314										
OR8J3	81168	broad.mit.edu	37	chr11	55904844	55904844	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	acatagcggtcataggccatCacagccagcatcattacctc	7	14	3	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:55904844C>A	uc010riz.1	-	1	351	c.351G>T	c.(349-351)GTG>GTT	p.V117V		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					CATAGGCCATCACAGCCAGCA	0.488													72	118	---	---	---	---	PASS	A	55904844	A	A	55904844	2	1	103	1	0	0	0	0	0	0	0	1	11242	813	29	2		2	OR8J3	11	55904844	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	485780	55904844	79101672	127	38315										
OR5M9	390162	broad.mit.edu	37	chr11	56230220	56230220	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	catgcgtagcacagctactaCaatgagagtgtaggagatga	12	7	0	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:56230220C>A	uc010rjj.1	-	1	658	c.658G>T	c.(658-660)GTA>TTA	p.V220L		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					ACAGCTACTACAATGAGAGTG	0.498													9	19	---	---	---	---	PASS	A	56230220	A	A	56230220	3	1	103	1	0	0	0	0	1	0	0	0	11177	478	17	3	276	3	OR5M9	11	56230220	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	325376	56230220	78776296	128	38316										
OR5AP2	338675	broad.mit.edu	37	chr11	56409790	56409790	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aaattgcccaccatgtttgcCatatagatcaacagaaacaa	5	10	1	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:56409790C>A	uc001njb.1	-	1	126	c.126G>T	c.(124-126)ATG>ATT	p.M42I		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	42	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						CCATGTTTGCCATATAGATCA	0.403													27	85	---	---	---	---	PASS	A	56409790	A	A	56409790	3	1	103	1	0	0	0	0	1	0	0	0	11144	594	21	3	828	3	OR5AP2	11	56409790	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	179570	56409790	78596726	129	38317										
OR9G4	283189	broad.mit.edu	37	chr11	56510447	56510447	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tttgtccctctctagggagtAggtggaactaggccttgaat	12	8	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:56510447A>G	uc010rjo.1	-	1	841	c.841T>C	c.(841-843)TAC>CAC	p.Y281H		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	281	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TCTAGGGAGTAGGTGGAACTA	0.458													38	108	---	---	---	---	PASS	G	56510447	G	G	56510447	3	3	103	1	0	0	0	0	1	0	0	0	11251	420	15	5	145	5	OR9G4	11	56510447	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	100657	56510447	78496069	130	38318										
MPEG1	219972	broad.mit.edu	37	chr11	58978773	58978773	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccaaaggggaccgcaaacctGcttcccaactcatagtcctg	8	15	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:58978773G>T	uc001nnu.3	-	1	1722	c.1566C>A	c.(1564-1566)AGC>AGA	p.S522R		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	522	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				CCGCAAACCTGCTTCCCAACT	0.507													39	52	---	---	---	---	PASS	T	58978773	T	T	58978773	3	4	103	1	0	0	0	0	1	0	0	0	9723	1310	46	3	588	3	MPEG1	11	58978773	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	2468326	58978773	76027743	131	38319										
TMEM151A	256472	broad.mit.edu	37	chr11	66061904	66061904	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gggccgtggtggcctggtgtCgcctggccacagtgccgcgg	19	13	0	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:66061904C>T	uc001ohl.2	+	2	299	c.187C>T	c.(187-189)CGC>TGC	p.R63C		NM_153266	NP_694998	Q8N4L1	T151A_HUMAN	transmembrane protein 151A	63	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						GGCCTGGTGTCGCCTGGCCAC	0.741													4	71	---	---	---	---	PASS	T	66061904	T	T	66061904	3	4	103	1	0	0	0	0	1	0	0	0	16067	884	31	2	193	2	TMEM151A	11	66061904	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	7083131	66061904	68944612	132	38320										
LRP5	4041	broad.mit.edu	37	chr11	68201211	68201211	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccccgtgtgctccgccgcccAgttcccctgcgcgcggggtc	13	20	0	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:68201211A>T	uc001ont.2	+	18	3980	c.3905A>T	c.(3904-3906)CAG>CTG	p.Q1302L	LRP5_uc009ysg.2_Missense_Mutation_p.Q712L	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1302	LDL-receptor class A 2.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						TCCGCCGCCCAGTTCCCCTGC	0.701													268	120	---	---	---	---	PASS	T	68201211	T	T	68201211	3	4	103	1	0	0	0	0	1	0	0	0	8960	188	7	5	3975	5	LRP5	11	68201211	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	2139307	68201211	66805305	133	38321										
PPFIA1	8500	broad.mit.edu	37	chr11	70189989	70189989	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gcagctggacgccatcaacaAagagatcaggtgtgtgcaac	12	10	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:70189989A>T	uc001opo.2	+	15	2120	c.1922A>T	c.(1921-1923)AAA>ATA	p.K641I	PPFIA1_uc001opn.1_Missense_Mutation_p.K641I|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	641	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			GCCATCAACAAAGAGATCAGG	0.537													8	27	---	---	---	---	PASS	T	70189989	T	T	70189989	3	4	103	1	0	0	0	0	1	0	0	0	12309	14	1	5	1976	5	PPFIA1	11	70189989	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	1988778	70189989	64816527	134	38322										
CASP5	838	broad.mit.edu	37	chr11	104879648	104879648	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gaagttatccaatccactctGaaggatacctttgaacatag	7	9	1	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:104879648G>A	uc010rva.1	-	2	99	c.67C>T	c.(67-69)CAG>TAG	p.Q23*	CASP5_uc010ruz.1_Nonsense_Mutation_p.Q36*|CASP5_uc010rvb.1_Intron|CASP5_uc010rvc.1_Intron|CASP5_uc009yxh.2_Intron|CASP5_uc010rvd.1_Intron	NM_004347	NP_004338	P51878	CASP5_HUMAN	caspase 5 isoform a precursor	23					apoptosis|cellular response to mechanical stimulus|proteolysis|regulation of apoptosis	intracellular	cysteine-type endopeptidase activity|protein binding			ovary(2)|lung(1)	3		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000943)|Epithelial(105;0.0104)|all cancers(92;0.042)		AATCCACTCTGAAGGATACCT	0.398													35	46	---	---	---	---	PASS	A	104879648	A	A	104879648	4	1	103	1	0	0	0	0	0	1	0	0	2674	1299	45	2	1269	2	CASP5	11	104879648	Nonsense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	34689659	104879648	30126868	135	38323										
ARHGEF12	23365	broad.mit.edu	37	chr11	120345304	120345304	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aaaaggaagatgattcatgaAgggccattggtttggaaggt	14	3	1	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr11:120345304A>G	uc001pxl.1	+	32	3076	c.3069A>G	c.(3067-3069)GAA>GAG	p.E1023E	ARHGEF12_uc009zat.2_Silent_p.E1004E|ARHGEF12_uc010rzn.1_Silent_p.E920E|ARHGEF12_uc009zau.1_Silent_p.E920E	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	1023	PH.				apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		TGATTCATGAAGGGCCATTGG	0.343			T	MLL	AML								37	51	---	---	---	---	PASS	G	120345304	G	G	120345304	2	3	103	1	0	0	0	0	0	0	0	1	897	69	3	5		5	ARHGEF12	11	120345304	Silent	SNP	A	TCGA-43-6771-01A-11D-1817-08	15465656	120345304	14661212	136	38324										
VWF	7450	broad.mit.edu	37	chr12	6132840	6132840	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gtcaccaccttgccatgctgGgcacacacgtgggcataggc	12	14	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:6132840G>T	uc001qnn.1	-	25	3586	c.3336C>A	c.(3334-3336)GCC>GCA	p.A1112A	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1112					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)	TGCCATGCTGGGCACACACGT	0.567													25	77	---	---	---	---	PASS	T	6132840	T	T	6132840	2	4	103	1	0	0	0	0	0	0	0	1	17243	1219	43	3		3	VWF	12	6132840	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08		6132840	127719055	137	38325										
PZP	5858	broad.mit.edu	37	chr12	9349036	9349036	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gtttgcagtgacttccaggtCtgaaaaatataaagagtcag	10	6	2	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:9349036C>T	uc001qvl.2	-	10	1012	c.983_splice	c.e10-1	p.D328_splice	PZP_uc009zgl.2_Splice_Site_p.D197_splice	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						ACTTCCAGGTCTGAAAAATAT	0.318													16	38	---	---	---	---	PASS	T	9349036	T	T	9349036	5	4	103	1	0	0	0	0	0	0	1	0	12869	927	32	2	3574	2	PZP	12	9349036	Splice_Site	SNP	C	TCGA-43-6771-01A-11D-1817-08	3216196	9349036	124502859	138	38326										
LST-3TM12	338821	broad.mit.edu	37	chr12	21207473	21207473	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gtgaatgcccaagagatgatGcttgtacaaggaaatcttac	10	7	1	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:21207473G>T	uc010sin.1	+	10	1444	c.1444G>T	c.(1444-1446)GCT>TCT	p.A482S	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Missense_Mutation_p.A529S	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	482						membrane	transporter activity				0						AAGAGATGATGCTTGTACAAG	0.378													27	49	---	---	---	---	PASS	T	21207473	T	T	21207473	3	4	103	1	0	0	0	0	1	0	0	0	9066	1319	46	3	1482	3	LST-3TM12	12	21207473	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	11858437	21207473	112644422	139	38327										
SYT10	341359	broad.mit.edu	37	chr12	33579085	33579085	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ttccttaccgggttgatgacGtaggctcagtaatttgtctt	10	8	2	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:33579085G>T	uc001rll.1	-	2	794	c.497C>A	c.(496-498)ACG>AAG	p.T166K	SYT10_uc009zju.1_5'UTR	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	166	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					GGTTGATGACGTAGGCTCAGT	0.284													72	164	---	---	---	---	PASS	T	33579085	T	T	33579085	3	4	103	1	0	0	0	0	1	0	0	0	15463	1145	40	1	1098	1	SYT10	12	33579085	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	12371612	33579085	100272810	140	38328										
SP1	6667	broad.mit.edu	37	chr12	53776695	53776695	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccagttccagctcctttttcAccaatgccaatagctactca	4	15	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:53776695A>T	uc001scw.2	+	3	1061	c.964A>T	c.(964-966)ACC>TCC	p.T322S	SP1_uc010sog.1_Missense_Mutation_p.T315S	NM_138473	NP_612482	P08047	SP1_HUMAN	Sp1 transcription factor isoform a	322	Transactivation domain B (Gln-rich).|Ser/Thr-rich.				positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)		CTCCTTTTTCACCAATGCCAA	0.502													21	131	---	---	---	---	PASS	T	53776695	T	T	53776695	3	4	103	1	0	0	0	0	1	0	0	0	14959	159	6	5	974	5	SP1	12	53776695	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	20197610	53776695	80075200	141	38329										
NCKAP1L	3071	broad.mit.edu	37	chr12	54903516	54903516	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gaccaccctctgaagaagctGacagaagagtttgggcctca	11	11	2	5			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:54903516G>T	uc001sgc.3	+	6	649	c.570G>T	c.(568-570)CTG>CTT	p.L190L	NCKAP1L_uc010sox.1_5'UTR|NCKAP1L_uc010soy.1_Silent_p.L140L	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	190					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						TGAAGAAGCTGACAGAAGAGT	0.498													36	231	---	---	---	---	PASS	T	54903516	T	T	54903516	2	4	103	1	0	0	0	0	0	0	0	1	10222	1277	45	2		2	NCKAP1L	12	54903516	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08	1126821	54903516	78948379	142	38330										
LRP1	4035	broad.mit.edu	37	chr12	57567680	57567680	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctcgcacccttgtgccaacaAcacctcagtctgcctgcccc	6	20	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:57567680A>T	uc001snd.2	+	22	3930	c.3464A>T	c.(3463-3465)AAC>ATC	p.N1155I		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1155	LDL-receptor class A 10.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TGTGCCAACAACACCTCAGTC	0.627													8	71	---	---	---	---	PASS	T	57567680	T	T	57567680	3	4	103	1	0	0	0	0	1	0	0	0	8951	43	2	5	3550	5	LRP1	12	57567680	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	2664164	57567680	76284215	143	38331										
SLC26A10	65012	broad.mit.edu	37	chr12	58017834	58017834	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gcatgcgccaggtgttctgcCagatgcaggaacttccacaa	11	12	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:58017834C>A	uc001spe.2	+	9	1491	c.1180C>A	c.(1180-1182)CAG>AAG	p.Q394K	SLC26A10_uc001spf.2_RNA|SLC26A10_uc009zpz.1_RNA	NM_133489	NP_597996	Q8NG04	S2610_HUMAN	solute carrier family 26, member 10	394						integral to membrane	antiporter activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(17;0.122)					GGTGTTCTGCCAGATGCAGGA	0.542													29	151	---	---	---	---	PASS	A	58017834	A	A	58017834	3	1	103	1	0	0	0	0	1	0	0	0	14515	595	21	3	1214	3	SLC26A10	12	58017834	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	450154	58017834	75834061	144	38332										
BEST3	144453	broad.mit.edu	37	chr12	70048997	70048997	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cctcagcgctggctgaaactGtctggggactggggcctcca	14	13	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:70048997G>T	uc001svg.2	-	10	1924	c.1697C>A	c.(1696-1698)ACA>AAA	p.T566K	BEST3_uc001svd.1_Intron|BEST3_uc001sve.1_Intron|BEST3_uc001svf.2_Missense_Mutation_p.T353K|BEST3_uc010stm.1_Missense_Mutation_p.T460K	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	566	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			GGCTGAAACTGTCTGGGGACT	0.557													30	51	---	---	---	---	PASS	T	70048997	T	T	70048997	3	4	103	1	0	0	0	0	1	0	0	0	1406	1377	48	3	313	3	BEST3	12	70048997	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	12031163	70048997	63802898	145	38333										
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100433449	100433449	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	caaggaacccctgggcttgtCtgagtggcttgcgtgacact	13	11	1	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:100433449C>A	uc001tgq.2	-	20	4429	c.4200G>T	c.(4198-4200)CAG>CAT	p.Q1400H	UHRF1BP1L_uc001tgp.2_Missense_Mutation_p.Q1050H	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	1400										ovary(2)	2						CTGGGCTTGTCTGAGTGGCTT	0.453													30	57	---	---	---	---	PASS	A	100433449	A	A	100433449	3	1	103	1	0	0	0	0	1	0	0	0	16966	912	32	2	202	2	UHRF1BP1L	12	100433449	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	30384452	100433449	33418446	146	38334										
GLT8D2	83468	broad.mit.edu	37	chr12	104413419	104413419	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aaatcttactttttcgtaacAgagccatgtgtattcacgcg	7	9	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:104413419A>G	uc001tkh.1	-	3	414	c.8T>C	c.(7-9)CTG>CCG	p.L3P	GLT8D2_uc001tki.1_Missense_Mutation_p.L3P	NM_031302	NP_112592	Q9H1C3	GL8D2_HUMAN	glycosyltransferase 8 domain containing 2	3	Cytoplasmic (Potential).					integral to membrane	transferase activity, transferring glycosyl groups			ovary(1)|skin(1)	2						TTTTCGTAACAGAGCCATGTG	0.338													9	22	---	---	---	---	PASS	G	104413419	G	G	104413419	3	3	103	1	0	0	0	0	1	0	0	0	6470	188	7	5	1077	5	GLT8D2	12	104413419	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	3979970	104413419	29438476	147	38335										
DAO	1610	broad.mit.edu	37	chr12	109283249	109283249	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgtccttcctcttcaggaccCttcctggaaggacacagttc	8	14	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:109283249C>T	uc001tnr.3	+	4	467	c.314C>T	c.(313-315)CCT>CTT	p.P105L	DAO_uc001tnq.3_Intron|DAO_uc009zvb.2_RNA|DAO_uc001tns.3_RNA	NM_001917	NP_001908	P14920	OXDA_HUMAN	D-amino-acid oxidase	105					glyoxylate metabolic process	peroxisomal matrix	binding|D-amino-acid oxidase activity			ovary(1)|skin(1)	2						CTTCAGGACCCTTCCTGGAAG	0.408													15	83	---	---	---	---	PASS	T	109283249	T	T	109283249	3	4	103	1	0	0	0	0	1	0	0	0	4231	681	24	3	324	3	DAO	12	109283249	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	4869830	109283249	24568646	148	38336										
CCDC63	160762	broad.mit.edu	37	chr12	111336867	111336867	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gataaactgtgacgccaccaAgatcctggtgcagttagggg	13	9	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:111336867A>G	uc001trv.1	+	10	1475	c.1280A>G	c.(1279-1281)AAG>AGG	p.K427R	CCDC63_uc010sye.1_Missense_Mutation_p.K387R|CCDC63_uc001trw.1_Missense_Mutation_p.K342R	NM_152591	NP_689804	Q8NA47	CCD63_HUMAN	coiled-coil domain containing 63	427										skin(6)|ovary(1)|pancreas(1)	8						GACGCCACCAAGATCCTGGTG	0.488													9	54	---	---	---	---	PASS	G	111336867	G	G	111336867	3	3	103	1	0	0	0	0	1	0	0	0	2834	72	3	5	1314	5	CCDC63	12	111336867	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	2053618	111336867	22515028	149	38337										
NOS1	4842	broad.mit.edu	37	chr12	117768451	117768451	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgccaggggctgttctttgcCggccggtggctggtgggaca	18	10	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:117768451C>T	uc001twm.1	-	2	1110	c.424G>A	c.(424-426)GGC>AGC	p.G142S		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	142	Interaction with NOSIP (By similarity).				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	TGTTCTTTGCCGGCCGGTGGC	0.662													19	60	---	---	---	---	PASS	T	117768451	T	T	117768451	3	4	103	1	0	0	0	0	1	0	0	0	10541	652	23	1	3992	1	NOS1	12	117768451	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	6431584	117768451	16083444	150	38338										
KNTC1	9735	broad.mit.edu	37	chr12	123099563	123099563	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aagattggtgactgagctgtGtttagaatacaaaatctatg	10	4	1	4			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:123099563G>A	uc001ucv.2	+	56	6066	c.5903G>A	c.(5902-5904)TGT>TAT	p.C1968Y	KNTC1_uc010taf.1_Missense_Mutation_p.C893Y	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	1968					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		ACTGAGCTGTGTTTAGAATAC	0.403													9	22	---	---	---	---	PASS	A	123099563	A	A	123099563	3	1	103	1	0	0	0	0	1	0	0	0	8428	1377	48	3	6121	3	KNTC1	12	123099563	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	5331112	123099563	10752332	151	38339										
NCOR2	9612	broad.mit.edu	37	chr12	124839417	124839417	+	Missense_Mutation	SNP	C	A	A													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tccatgggcaggggcagcccCatggtgacagggcccaccgg							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:124839417C>A	uc010tba.1	-	25	3591	c.3474G>T	c.(3472-3474)ATG>ATT	p.M1158I	NCOR2_uc010tay.1_Missense_Mutation_p.M1157I|NCOR2_uc010taz.1_Missense_Mutation_p.M1141I|NCOR2_uc010tbb.1_Missense_Mutation_p.M1150I|NCOR2_uc010tbc.1_Missense_Mutation_p.M1140I|NCOR2_uc001ugj.1_Missense_Mutation_p.M1158I	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1158					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GGGGCAGCCCCATGGTGACAG	0.677													17	46	---	---	---	---	PASS	A	124839417	A	A	124839417	3	1	103	1	0	0	0	0	1	0	0	0	10236	594	21	3	4186	3	NCOR2	12	124839417	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	1739854	124839417	9012478	152	38340	719	2								
NCOR2	9612	broad.mit.edu	37	chr12	124839419	124839419	+	Missense_Mutation	SNP	T	A	A													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	catgggcaggggcagccccaTggtgacagggcccaccgggg							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr12:124839419T>A	uc010tba.1	-	25	3589	c.3472A>T	c.(3472-3474)ATG>TTG	p.M1158L	NCOR2_uc010tay.1_Missense_Mutation_p.M1157L|NCOR2_uc010taz.1_Missense_Mutation_p.M1141L|NCOR2_uc010tbb.1_Missense_Mutation_p.M1150L|NCOR2_uc010tbc.1_Missense_Mutation_p.M1140L|NCOR2_uc001ugj.1_Missense_Mutation_p.M1158L	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1158					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GGCAGCCCCATGGTGACAGGG	0.672													17	47	---	---	---	---	PASS	A	124839419	A	A	124839419	3	1	103	1	0	0	0	0	1	0	0	0	10236	1464	51	5	4188	5	NCOR2	12	124839419	Missense_Mutation	SNP	T	TCGA-43-6771-01A-11D-1817-08	2	124839419	9012476	153	38341	719	2								
ZMYM5	9205	broad.mit.edu	37	chr13	20426215	20426215	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	taaaggacaagctggatgacCaaatgaatcccctatgtcca	8	10	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr13:20426215C>A	uc010tcn.1	-	3	371	c.106G>T	c.(106-108)GGT>TGT	p.G36C	ZMYM5_uc001umm.1_5'UTR|ZMYM5_uc001umn.2_Missense_Mutation_p.G36C|ZMYM5_uc001umo.2_Missense_Mutation_p.G36C	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	36						nucleus	zinc ion binding				0		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		GCTGGATGACCAAATGAATCC	0.373													38	168	---	---	---	---	PASS	A	20426215	A	A	20426215	3	1	103	1	0	0	0	0	1	0	0	0	17700	594	21	3	2038	3	ZMYM5	13	20426215	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08		20426215	94743663	154	38342										
SLITRK1	114798	broad.mit.edu	37	chr13	84454735	84454735	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ttgtacctccgtttggagcaGaccctggtgtggcatgatcc	12	11	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr13:84454735G>T	uc001vlk.2	-	1	1794	c.908C>A	c.(907-909)TCT>TAT	p.S303Y		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	303	Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GTTTGGAGCAGACCCTGGTGT	0.562													13	59	---	---	---	---	PASS	T	84454735	T	T	84454735	3	4	103	1	0	0	0	0	1	0	0	0	14742	942	33	2	1186	2	SLITRK1	13	84454735	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	64028520	84454735	30715143	155	38343										
SLITRK5	26050	broad.mit.edu	37	chr13	88327856	88327856	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgtgaaaaccgggggatcatCagtctctctgaaattagccc	10	10	4	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr13:88327856C>A	uc001vln.2	+	2	432	c.213C>A	c.(211-213)ATC>ATA	p.I71I	SLITRK5_uc010tic.1_Intron	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	71	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GGGGGATCATCAGTCTCTCTG	0.448													60	176	---	---	---	---	PASS	A	88327856	A	A	88327856	2	1	103	1	0	0	0	0	0	0	0	1	14746	816	29	2		2	SLITRK5	13	88327856	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	3873121	88327856	26842022	156	38344										
DCT	1638	broad.mit.edu	37	chr13	95095825	95095825	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ggccagctcctgaggccaggCatctgcaggaggattaaatc	13	11	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr13:95095825C>T	uc001vlv.3	-	7	1673	c.1246G>A	c.(1246-1248)GCC>ACC	p.A416T	DCT_uc010afh.2_Missense_Mutation_p.A449T	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	416	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		TGAGGCCAGGCATCTGCAGGA	0.428													8	48	---	---	---	---	PASS	T	95095825	T	T	95095825	3	4	103	1	0	0	0	0	1	0	0	0	4304	710	25	3	321	3	DCT	13	95095825	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	6767969	95095825	20074053	157	38345										
ERCC5	2073	broad.mit.edu	37	chr13	103460094	103460094	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	acaaattcgaaacacaaatcAggtaaggagggagccatgaa	10	7	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr13:103460094A>T	uc001vpu.1	+	1	599	c.477A>T	c.(475-477)TCA>TCT	p.S159S	BIVM_uc001vps.2_Silent_p.S159S|BIVM_uc010agc.2_Intron|BIVM_uc001vpt.2_Silent_p.S159S	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AACACAAATCAGGTAAGGAGG	0.378			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				6	31	---	---	---	---	PASS	T	103460094	T	T	103460094	2	4	103	1	0	0	0	0	0	0	0	1	5216	202	7	5		5	ERCC5	13	103460094	Silent	SNP	A	TCGA-43-6771-01A-11D-1817-08	8364269	103460094	11709784	158	38346										
SLC7A7	9056	broad.mit.edu	37	chr14	23242900	23242900	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gcagcaactgacatacacagGacctggaggtaccttgtggc	12	11	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr14:23242900G>T	uc001wgr.3	-	10	1593	c.1455C>A	c.(1453-1455)GTC>GTA	p.V485V	SLC7A7_uc001wgs.3_Silent_p.V485V|SLC7A7_uc001wgt.3_Silent_p.V485V|SLC7A7_uc001wgu.3_Silent_p.V485V|SLC7A7_uc001wgv.3_Silent_p.V485V	NM_003982	NP_003973	Q9UM01	YLAT1_HUMAN	solute carrier family 7 member 7	485					blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity			ovary(1)|breast(1)	2	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.00741)		ACATACACAGGACCTGGAGGT	0.473													23	85	---	---	---	---	PASS	T	23242900	T	T	23242900	2	4	103	1	0	0	0	0	0	0	0	1	14703	1161	41	2		2	SLC7A7	14	23242900	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08		23242900	84106640	159	38347										
DLGAP5	9787	broad.mit.edu	37	chr14	55636119	55636119	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aaatattgaaccacatacctGaaaactaaccatatcccaaa	2	11	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr14:55636119G>T	uc001xbs.2	-	12	1763	c.1546C>A	c.(1546-1548)CAG>AAG	p.Q516K	DLGAP5_uc001xbt.2_Missense_Mutation_p.Q516K	NM_014750	NP_055565	Q15398	DLGP5_HUMAN	discs large homolog 7 isoform a	516					cell proliferation|cell-cell signaling|mitotic chromosome movement towards spindle pole|positive regulation of mitotic metaphase/anaphase transition	nucleus|spindle pole centrosome	phosphoprotein phosphatase activity|protein binding			ovary(1)|skin(1)	2						CCACATACCTGAAAACTAACC	0.269													36	83	---	---	---	---	PASS	T	55636119	T	T	55636119	3	4	103	1	0	0	0	0	1	0	0	0	4563	1299	45	2	1121	2	DLGAP5	14	55636119	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	32393219	55636119	51713421	160	38348										
SERPINA5	5104	broad.mit.edu	37	chr14	95058452	95058452	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aaccagagcagcggcagccaCggggacaatattcactttca	10	12	2	1	rs150557947		TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr14:95058452C>A	uc001ydm.2	+	6	1307	c.1097C>A	c.(1096-1098)ACG>AAG	p.T366K	SERPINA3_uc001ydo.3_5'UTR	NM_000624	NP_000615	P05154	IPSP_HUMAN	serine (or cysteine) proteinase inhibitor, clade	366					fusion of sperm to egg plasma membrane|regulation of proteolysis|spermatogenesis	extracellular region|membrane|protein complex	acrosin binding|heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(2)	2				COAD - Colon adenocarcinoma(157;0.21)	Drotrecogin alfa(DB00055)|Urokinase(DB00013)	GCGGCAGCCACGGGGACAATA	0.567													110	273	---	---	---	---	PASS	A	95058452	A	A	95058452	3	1	103	1	0	0	0	0	1	0	0	0	14092	536	19	1	1111	1	SERPINA5	14	95058452	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	39422333	95058452	12291088	161	38349										
AK7	122481	broad.mit.edu	37	chr14	96909082	96909082	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ttcagatggcttggttgggcGagattcctgcattaccagtt	12	8	1	2	rs114393353	by1000genomes	TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr14:96909082G>T	uc001yfn.2	+	7	750	c.706G>T	c.(706-708)GAG>TAG	p.E236*		NM_152327	NP_689540	Q96M32	KAD7_HUMAN	adenylate kinase 7	236	Potential.				cell projection organization	cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity			ovary(1)	1		all_cancers(154;0.0482)|all_epithelial(191;0.128)|Melanoma(154;0.155)		Epithelial(152;0.134)|COAD - Colon adenocarcinoma(157;0.228)		TTGGTTGGGCGAGATTCCTGC	0.448													43	196	---	---	---	---	PASS	T	96909082	T	T	96909082	4	4	103	1	0	0	0	0	0	1	0	0	444	1059	37	2	732	2	AK7	14	96909082	Nonsense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	1850630	96909082	10440458	162	38350										
AHNAK2	113146	broad.mit.edu	37	chr14	105419189	105419189	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctgcatggaggagaggctcaCgtcggcctccaccttcggcg	14	14	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr14:105419189C>T	uc010axc.1	-	7	2719	c.2599G>A	c.(2599-2601)GTG>ATG	p.V867M	AHNAK2_uc001ypx.2_Missense_Mutation_p.V767M	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	867						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)			GAGAGGCTCACGTCGGCCTCC	0.612													65	266	---	---	---	---	PASS	T	105419189	T	T	105419189	3	4	103	1	0	0	0	0	1	0	0	0	415	536	19	1	14792	1	AHNAK2	14	105419189	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	8510107	105419189	1930351	163	38351										
APBA2	321	broad.mit.edu	37	chr15	29393969	29393969	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cagtataagatgatctgccaTgtgttcgagtcggaggatgt	13	6	1	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr15:29393969T>C	uc001zck.2	+	9	1713	c.1506T>C	c.(1504-1506)CAT>CAC	p.H502H	APBA2_uc010azj.2_Silent_p.H490H|APBA2_uc010uat.1_Silent_p.H490H|APBA2_uc001zcl.2_Silent_p.H490H|APBA2_uc001zcm.1_Silent_p.H194H	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	502	PID.				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)		TGATCTGCCATGTGTTCGAGT	0.612													9	22	---	---	---	---	PASS	C	29393969	C	C	29393969	2	2	103	1	0	0	0	0	0	0	0	1	757	1461	51	5		5	APBA2	15	29393969	Silent	SNP	T	TCGA-43-6771-01A-11D-1817-08		29393969	73137423	164	38352										
FBN1	2200	broad.mit.edu	37	chr15	48777639	48777639	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tacattcatagctgccttcaGagtttgtgcagaaggtttca	9	8	3	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr15:48777639G>C	uc001zwx.1	-	30	3972	c.3644C>G	c.(3643-3645)TCT>TGT	p.S1215C		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1215	EGF-like 19; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GCTGCCTTCAGAGTTTGTGCA	0.388													25	91	---	---	---	---	PASS	C	48777639	C	C	48777639	3	2	103	1	0	0	0	0	1	0	0	0	5702	942	33	2	5119	2	FBN1	15	48777639	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	19383670	48777639	53753753	165	38353										
CCDC33	80125	broad.mit.edu	37	chr15	74559079	74559079	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gttgttgtcctacaaaatccCcatcaagtacctgcgtgtct	7	12	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr15:74559079C>T	uc002axo.2	+	4	774	c.380C>T	c.(379-381)CCC>CTC	p.P127L	CCDC33_uc002axp.2_5'UTR	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	330							protein binding			ovary(3)|skin(2)	5						TACAAAATCCCCATCAAGTAC	0.493													24	136	---	---	---	---	PASS	T	74559079	T	T	74559079	3	4	103	1	0	0	0	0	1	0	0	0	2806	623	22	3	394	3	CCDC33	15	74559079	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	25781440	74559079	27972313	166	38354										
C15orf26	161502	broad.mit.edu	37	chr15	81436089	81436089	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tacctaacagatgaggtctcCcatgtgaactgctggcaggc	11	11	1	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr15:81436089C>T	uc002bgb.2	+	5	591	c.564C>T	c.(562-564)TCC>TCT	p.S188S	C15orf26_uc010blp.1_Silent_p.S163S	NM_173528	NP_775799	Q6P656	CO026_HUMAN	hypothetical protein LOC161502	188											0						ATGAGGTCTCCCATGTGAACT	0.537													38	127	---	---	---	---	PASS	T	81436089	T	T	81436089	2	4	103	1	0	0	0	0	0	0	0	1	1787	610	22	3		3	C15orf26	15	81436089	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	6877010	81436089	21095303	167	38355										
AKAP13	11214	broad.mit.edu	37	chr15	86259125	86259125	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cagcagagtgtctcgctctcCaaaagtgtctccatacagaa	8	12	3	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr15:86259125C>T	uc002blv.1	+	20	5876	c.5706C>T	c.(5704-5706)TCC>TCT	p.S1902S	AKAP13_uc002blu.1_Silent_p.S1906S|AKAP13_uc010bnf.1_Silent_p.S523S|AKAP13_uc002blw.1_Silent_p.S369S|AKAP13_uc002blx.1_Silent_p.S147S	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1902					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TCTCGCTCTCCAAAAGTGTCT	0.478													21	69	---	---	---	---	PASS	T	86259125	T	T	86259125	2	4	103	1	0	0	0	0	0	0	0	1	449	581	21	3		3	AKAP13	15	86259125	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	4823036	86259125	16272267	168	38356										
SOX8	30812	broad.mit.edu	37	chr16	1035307	1035307	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctacgcctcacccctgctcaAcggcctggccctgccgcccg	9	22	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr16:1035307A>G	uc002ckn.2	+	3	1377	c.1262A>G	c.(1261-1263)AAC>AGC	p.N421S		NM_014587	NP_055402	P57073	SOX8_HUMAN	SRY (sex determining region Y)-box 8	421					adipose tissue development|enteric nervous system development|fat cell differentiation|in utero embryonic development|metanephric nephron tubule formation|morphogenesis of a branching epithelium|negative regulation of apoptosis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|neural crest cell migration|oligodendrocyte differentiation|osteoblast differentiation|peripheral nervous system development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of gliogenesis|positive regulation of osteoblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone levels|renal vesicle induction|retinal rod cell differentiation|Sertoli cell development|signal transduction|spermatogenesis|ureter morphogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2		Hepatocellular(780;0.00308)				CCCCTGCTCAACGGCCTGGCC	0.716													6	12	---	---	---	---	PASS	G	1035307	G	G	1035307	3	3	103	1	0	0	0	0	1	0	0	0	14957	43	2	5	1272	5	SOX8	16	1035307	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08		1035307	89319446	169	38357										
C16orf90	646174	broad.mit.edu	37	chr16	3544718	3544718	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgggtggcgggtggctctccAggtagaggcccaggccccgg	19	12	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr16:3544718A>T	uc002cvi.2	-	2	206	c.206T>A	c.(205-207)CTG>CAG	p.L69Q		NM_001080524	NP_001073993	A8MZG2	CP090_HUMAN	hypothetical protein LOC646174	59											0						GTGGCTCTCCAGGTAGAGGCC	0.726													8	16	---	---	---	---	PASS	T	3544718	T	T	3544718	3	4	103	1	0	0	0	0	1	0	0	0	1843	188	7	5	350	5	C16orf90	16	3544718	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	2509411	3544718	86810035	170	38358										
NKD1	85407	broad.mit.edu	37	chr16	50666270	50666270	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aacatcgagaggagaaaccaCtacttagatctcgccgggat	10	10	1	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr16:50666270C>G	uc002egg.1	+	9	998	c.774C>G	c.(772-774)CAC>CAG	p.H258Q		NM_033119	NP_149110	Q969G9	NKD1_HUMAN	naked cuticle homolog 1	258					Wnt receptor signaling pathway	cytoplasm|plasma membrane	calcium ion binding|protein binding				0		all_cancers(37;0.229)		GBM - Glioblastoma multiforme(240;0.243)		GGAGAAACCACTACTTAGATC	0.577													11	36	---	---	---	---	PASS	G	50666270	G	G	50666270	3	3	103	1	0	0	0	0	1	0	0	0	10441	564	20	4	808	4	NKD1	16	50666270	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	47121552	50666270	39688483	171	38359										
CCDC135	84229	broad.mit.edu	37	chr16	57762439	57762439	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctcaaggatgagtgcctcagCgacttcaagcagcggctcat	11	12	4	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr16:57762439C>A	uc002emi.2	+	16	2423	c.2334C>A	c.(2332-2334)AGC>AGA	p.S778R	CCDC135_uc002emj.2_Missense_Mutation_p.S778R|CCDC135_uc002emk.2_Missense_Mutation_p.S713R	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	778						cytoplasm				central_nervous_system(1)	1						AGTGCCTCAGCGACTTCAAGC	0.592													10	29	---	---	---	---	PASS	A	57762439	A	A	57762439	3	1	103	1	0	0	0	0	1	0	0	0	2769	767	27	1	2392	1	CCDC135	16	57762439	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	7096169	57762439	32592314	172	38360										
CLEC18C	283971	broad.mit.edu	37	chr16	70219866	70219866	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgcaaaacccgaaaccgttaCatctgccagtttggtgaggg	11	10	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr16:70219866C>T	uc002exy.2	+	12	1410	c.1290C>T	c.(1288-1290)TAC>TAT	p.Y430Y	CLEC18C_uc010vlt.1_Silent_p.Y430Y|CLEC18C_uc002eyk.2_Silent_p.Y430Y	NM_182619	NP_872425	Q8NCF0	CL18C_HUMAN	secretory protein LOC348174 precursor	430	C-type lectin.					extracellular region	sugar binding				0						GAAACCGTTACATCTGCCAGT	0.587													17	72	---	---	---	---	PASS	T	70219866	T	T	70219866	2	4	103	1	0	0	0	0	0	0	0	1	3504	489	17	3		3	CLEC18C	16	70219866	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	12457427	70219866	20134887	173	38361										
KCNG4	93107	broad.mit.edu	37	chr16	84270969	84270969	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cccaccttccgcaccctccgGtagtaaaggcccttgatgga	9	16	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr16:84270969G>T	uc010voc.1	-	2	244	c.123C>A	c.(121-123)TAC>TAA	p.Y41*	KCNG4_uc002fhu.1_Nonsense_Mutation_p.Y41*	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	41	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						GCACCCTCCGGTAGTAAAGGC	0.632													16	52	---	---	---	---	PASS	T	84270969	T	T	84270969	4	4	103	1	0	0	0	0	0	1	0	0	8030	1256	44	3	1442	3	KCNG4	16	84270969	Nonsense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	14051103	84270969	6083784	174	38362										
DNAH2	146754	broad.mit.edu	37	chr17	7690250	7690250	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agaagtggatcctgttcgatGgccccgtggacacactgtgg	14	10	0	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr17:7690250G>C	uc002giu.1	+	41	6516	c.6502G>C	c.(6502-6504)GGC>CGC	p.G2168R		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2168	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CCTGTTCGATGGCCCCGTGGA	0.582													13	44	---	---	---	---	PASS	C	7690250	C	C	7690250	3	2	103	1	0	0	0	0	1	0	0	0	4602	1348	47	4	6664	4	DNAH2	17	7690250	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08		7690250	73504960	175	38363										
NCOR1	9611	broad.mit.edu	37	chr17	15983977	15983977	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gagagatagatcccactgacGgcttgggtgtttcttgagtg	14	7	1	4			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr17:15983977G>A	uc002gpo.2	-	24	3482	c.3242C>T	c.(3241-3243)CCG>CTG	p.P1081L	NCOR1_uc002gpn.2_Missense_Mutation_p.P1097L|NCOR1_uc002gpp.1_Missense_Mutation_p.P988L|NCOR1_uc010vwb.1_5'Flank|NCOR1_uc010coy.2_5'Flank|NCOR1_uc010vwc.1_5'Flank	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1081	Interaction with ETO.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		TCCCACTGACGGCTTGGGTGT	0.403													14	104	---	---	---	---	PASS	A	15983977	A	A	15983977	3	1	103	1	0	0	0	0	1	0	0	0	10235	1116	39	1	4172	1	NCOR1	17	15983977	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	8293727	15983977	65211233	176	38364										
RASD1	51655	broad.mit.edu	37	chr17	17399430	17399430	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	atgaccatgcgatagcagttCttggccgggatactcagctc	11	11	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr17:17399430C>A	uc002gri.2	-	1	278	c.66G>T	c.(64-66)AAG>AAT	p.K22N		NM_016084	NP_057168	Q9Y272	RASD1_HUMAN	RAS, dexamethasone-induced 1 precursor	22					G-protein coupled receptor protein signaling pathway|small GTPase mediated signal transduction	nucleus|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity				0						GATAGCAGTTCTTGGCCGGGA	0.657													3	40	---	---	---	---	PASS	A	17399430	A	A	17399430	3	1	103	1	0	0	0	0	1	0	0	0	13066	912	32	2	787	2	RASD1	17	17399430	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	1415453	17399430	63795780	177	38365										
TAOK1	57551	broad.mit.edu	37	chr17	27861296	27861296	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgaacagagggtctccctccGgagggcactcttagaacaaa	11	11	2	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr17:27861296G>A	uc002hdz.1	+	19	2716	c.2522G>A	c.(2521-2523)CGG>CAG	p.R841Q	TAOK1_uc010wbe.1_Missense_Mutation_p.R693Q|TAOK1_uc010wbf.1_Missense_Mutation_p.R841Q	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	841	Potential.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			GTCTCCCTCCGGAGGGCACTC	0.403													9	45	---	---	---	---	PASS	A	27861296	A	A	27861296	3	1	103	1	0	0	0	0	1	0	0	0	15544	1116	39	1	2592	1	TAOK1	17	27861296	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	10461866	27861296	53333914	178	38366										
SYNRG	11276	broad.mit.edu	37	chr17	35913588	35913588	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gagaaagttgtctgaagacaTcgtacttggtagacgcagca	12	7	1	4			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr17:35913588T>A	uc002hoa.2	-	14	2320	c.2237A>T	c.(2236-2238)GAT>GTT	p.D746V	SYNRG_uc010wde.1_Missense_Mutation_p.D668V|SYNRG_uc010wdf.1_Missense_Mutation_p.D668V|SYNRG_uc002hoc.2_Missense_Mutation_p.D667V|SYNRG_uc002hoe.2_Missense_Mutation_p.D668V|SYNRG_uc002hod.2_Missense_Mutation_p.D668V|SYNRG_uc010wdg.1_Missense_Mutation_p.D585V|SYNRG_uc002hob.2_Missense_Mutation_p.D746V|SYNRG_uc002hof.2_Missense_Mutation_p.D458V|SYNRG_uc010cvd.1_Missense_Mutation_p.D546V	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	746	Interaction with A1P1G1 and A1P1G2.				endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						TCTGAAGACATCGTACTTGGT	0.478													24	68	---	---	---	---	PASS	A	35913588	A	A	35913588	3	1	103	1	0	0	0	0	1	0	0	0	15457	1435	50	5	1816	5	SYNRG	17	35913588	Missense_Mutation	SNP	T	TCGA-43-6771-01A-11D-1817-08	8052292	35913588	45281622	179	38367										
KRT16	3868	broad.mit.edu	37	chr17	39767921	39767921	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agtcatcggctgccagcctgGcattgtcaatctgcaaaatg	10	11	3	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr17:39767921G>A	uc002hxg.3	-	2	723	c.584C>T	c.(583-585)GCC>GTC	p.A195V	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	195	Coil 1B.|Rod.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				TGCCAGCCTGGCATTGTCAAT	0.607													3	43	---	---	---	---	PASS	A	39767921	A	A	39767921	3	1	103	1	0	0	0	0	1	0	0	0	8453	1203	42	3	865	3	KRT16	17	39767921	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	3854333	39767921	41427289	180	38368										
KLHL11	55175	broad.mit.edu	37	chr17	40011341	40011341	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gagaacctcttcagaatcaaCtgtaatttccaaatctgaaa	5	9	4	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr17:40011341C>G	uc002hyf.1	-	2	784	c.778G>C	c.(778-780)GTT>CTT	p.V260L		NM_018143	NP_060613	Q9NVR0	KLH11_HUMAN	kelch-like 11 precursor	260	BACK.					extracellular region					0		Breast(137;0.00156)				TCAGAATCAACTGTAATTTCC	0.353													17	66	---	---	---	---	PASS	G	40011341	G	G	40011341	3	3	103	1	0	0	0	0	1	0	0	0	8367	565	20	4	1352	4	KLHL11	17	40011341	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	243420	40011341	41183869	181	38369										
DBF4B	80174	broad.mit.edu	37	chr17	42800368	42800368	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gaatctccagtttttgacggGggccattcagcaactgggtg	13	9	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr17:42800368G>C	uc002ihf.2	+	3	416	c.203G>C	c.(202-204)GGG>GCG	p.G68A	DBF4B_uc002ihd.1_Missense_Mutation_p.G68A|DBF4B_uc010wjb.1_RNA|DBF4B_uc002ihe.2_5'UTR|DBF4B_uc010wjc.1_Missense_Mutation_p.G52A|DBF4B_uc002ihg.2_Missense_Mutation_p.G52A	NM_145663	NP_663696	Q8NFT6	DBF4B_HUMAN	DBF4 homolog B isoform 1	68	BRCT.				cell cycle	nucleus	nucleic acid binding|zinc ion binding				0		Prostate(33;0.0322)				TTTTTGACGGGGGCCATTCAG	0.512													20	75	---	---	---	---	PASS	C	42800368	C	C	42800368	3	2	103	1	0	0	0	0	1	0	0	0	4249	1232	43	4	213	4	DBF4B	17	42800368	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	2789027	42800368	38394842	182	38370										
HSF5	124535	broad.mit.edu	37	chr17	56536130	56536130	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agagcacaataatccttaccAggggactttccttgttgtga	9	9	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr17:56536130A>G	uc002iwi.1	-	5	1843	c.1719T>C	c.(1717-1719)CCT>CCC	p.P573P		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	573						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AATCCTTACCAGGGGACTTTC	0.418													12	43	---	---	---	---	PASS	G	56536130	G	G	56536130	2	3	103	1	0	0	0	0	0	0	0	1	7399	202	7	5		5	HSF5	17	56536130	Silent	SNP	A	TCGA-43-6771-01A-11D-1817-08	13735762	56536130	24659080	183	38371										
TBX2	6909	broad.mit.edu	37	chr17	59485479	59485479	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cacctacatggcagcagcagCcgcagccgcctcggctttgc	11	17	0	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr17:59485479C>T	uc010wox.1	+	7	2032	c.1751C>T	c.(1750-1752)GCC>GTC	p.A584V	TBX2_uc002ize.2_3'UTR|TBX2_uc002izg.2_Missense_Mutation_p.A430V	NM_005994	NP_005985	Q13207	TBX2_HUMAN	T-box 2	584	Ala-rich.				cell aging|positive regulation of cell proliferation		sequence-specific DNA binding				0						gcagcagcagccgcagccgcc	0.388													10	28	---	---	---	---	PASS	T	59485479	T	T	59485479	3	4	103	1	0	0	0	0	1	0	0	0	15652	739	26	3	1777	3	TBX2	17	59485479	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	2949349	59485479	21709731	184	38372										
EFCAB3	146779	broad.mit.edu	37	chr17	60469293	60469293	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgaatctgaccaagcatgatGtctataatgaattgaaatgt	8	5	2	5			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr17:60469293G>T	uc002izu.1	+	4	340	c.262G>T	c.(262-264)GTC>TTC	p.V88F	EFCAB3_uc010wpc.1_Missense_Mutation_p.V140F	NM_173503	NP_775774	Q8N7B9	EFCB3_HUMAN	EF-hand calcium binding domain 3 isoform b	88	EF-hand 2.						calcium ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(2;2.27e-11)			CAAGCATGATGTCTATAATGA	0.353													29	114	---	---	---	---	PASS	T	60469293	T	T	60469293	3	4	103	1	0	0	0	0	1	0	0	0	4935	1377	48	3	440	3	EFCAB3	17	60469293	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	983814	60469293	20725917	185	38373										
RPTOR	57521	broad.mit.edu	37	chr17	78896603	78896603	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccccgccagccccaccaacaAgggcgtgcacatccaccagg	9	20	0	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr17:78896603A>G	uc002jyt.1	+	22	3405	c.2600A>G	c.(2599-2601)AAG>AGG	p.K867R	RPTOR_uc010wug.1_Missense_Mutation_p.K709R	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	867					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						CCCACCAACAAGGGCGTGCAC	0.726													2	3	---	---	---	---	PASS	G	78896603	G	G	78896603	3	3	103	1	0	0	0	0	1	0	0	0	13665	72	3	5	2686	5	RPTOR	17	78896603	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	18427310	78896603	2298607	186	38374										
ANKRD12	23253	broad.mit.edu	37	chr18	9257705	9257705	+	Missense_Mutation	SNP	G	T	T													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ccaggaaactcttgtgctcaGgatccggcatcctttatgcc							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr18:9257705G>T	uc002knv.2	+	9	4697	c.4440G>T	c.(4438-4440)CAG>CAT	p.Q1480H	ANKRD12_uc002knw.2_Missense_Mutation_p.Q1457H|ANKRD12_uc002knx.2_Missense_Mutation_p.Q1457H|ANKRD12_uc010dkx.1_Missense_Mutation_p.Q1187H	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	1480						nucleus				ovary(2)|central_nervous_system(1)	3						CTTGTGCTCAGGATCCGGCAT	0.418													13	79	---	---	---	---	PASS	T	9257705	T	T	9257705	3	4	103	1	0	0	0	0	1	0	0	0	640	991	35	3	4470	3	ANKRD12	18	9257705	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08		9257705	68819543	187	38375	720	2								
ANKRD12	23253	broad.mit.edu	37	chr18	9257706	9257706	+	Missense_Mutation	SNP	G	T	T													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	caggaaactcttgtgctcagGatccggcatcctttatgcct							TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr18:9257706G>T	uc002knv.2	+	9	4698	c.4441G>T	c.(4441-4443)GAT>TAT	p.D1481Y	ANKRD12_uc002knw.2_Missense_Mutation_p.D1458Y|ANKRD12_uc002knx.2_Missense_Mutation_p.D1458Y|ANKRD12_uc010dkx.1_Missense_Mutation_p.D1188Y	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	1481						nucleus				ovary(2)|central_nervous_system(1)	3						TTGTGCTCAGGATCCGGCATC	0.413													14	78	---	---	---	---	PASS	T	9257706	T	T	9257706	3	4	103	1	0	0	0	0	1	0	0	0	640	1174	41	2	4471	2	ANKRD12	18	9257706	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	1	9257706	68819542	188	38376	720	2								
DSG4	147409	broad.mit.edu	37	chr18	28986104	28986104	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ttttatgaaatcccaatcctGgtgaaggacagctataacag	8	8	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr18:28986104G>T	uc002kwq.2	+	12	1836	c.1701G>T	c.(1699-1701)CTG>CTT	p.L567L	DSG4_uc002kwr.2_Silent_p.L567L	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	567	Extracellular (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TCCCAATCCTGGTGAAGGACA	0.448													12	55	---	---	---	---	PASS	T	28986104	T	T	28986104	2	4	103	1	0	0	0	0	0	0	0	1	4779	1335	47	3		3	DSG4	18	28986104	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08	19728398	28986104	49091144	189	38377										
GALNT1	2589	broad.mit.edu	37	chr18	33263543	33263543	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gatggctggagcctctcttgGccaggatcaaacatgacagg	13	10	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr18:33263543G>T	uc010dmu.2	+	5	723	c.670G>T	c.(670-672)GCC>TCC	p.A224S	GALNT1_uc002kyz.3_Missense_Mutation_p.A164S|GALNT1_uc002kzb.2_Missense_Mutation_p.A224S	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	224	Lumenal (Potential).|Catalytic subdomain A.				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						GCCTCTCTTGGCCAGGATCAA	0.423													5	34	---	---	---	---	PASS	T	33263543	T	T	33263543	3	4	103	1	0	0	0	0	1	0	0	0	6207	1203	42	3	684	3	GALNT1	18	33263543	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	4277439	33263543	44813705	190	38378										
DSEL	92126	broad.mit.edu	37	chr18	65178549	65178549	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tttgctagccacaagtgagaCaagagggacactgcatttga	11	8	0	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr18:65178549C>A	uc002lke.1	-	2	4551	c.3327G>T	c.(3325-3327)TTG>TTT	p.L1109F		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	1099						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				ACAAGTGAGACAAGAGGGACA	0.393													14	34	---	---	---	---	PASS	A	65178549	A	A	65178549	3	1	103	1	0	0	0	0	1	0	0	0	4775	477	17	3	345	3	DSEL	18	65178549	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	31915006	65178549	12898699	191	38379										
RASAL3	64926	broad.mit.edu	37	chr19	15569435	15569435	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cagttcagagagtgtggccaGcgactccctagagcccagag	13	12	1	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:15569435G>T	uc002nbe.2	-	7	780	c.694C>A	c.(694-696)CTG>ATG	p.L232M	RASAL3_uc010eaa.1_5'Flank	NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	232	PH.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0						AGTGTGGCCAGCGACTCCCTA	0.647													9	21	---	---	---	---	PASS	T	15569435	T	T	15569435	3	4	103	1	0	0	0	0	1	0	0	0	13065	962	34	3	2389	3	RASAL3	19	15569435	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08		15569435	43559548	192	38380										
SLC27A1	376497	broad.mit.edu	37	chr19	17608160	17608160	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgcgcctggcggtggggaacGggctgcgtcctgccatctgg	18	12	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:17608160G>A	uc002ngu.1	+	7	1143	c.1093G>A	c.(1093-1095)GGG>AGG	p.G365R	SLC27A1_uc002ngt.1_Missense_Mutation_p.G97R|SLC27A1_uc010xpp.1_Missense_Mutation_p.G186R|SLC27A1_uc002ngv.1_5'UTR	NM_198580	NP_940982	Q6PCB7	S27A1_HUMAN	solute carrier family 27, member 1	365	Sufficient for oligomerization (By similarity).|Cytoplasmic (Potential).				cardiolipin biosynthetic process|fatty acid metabolic process|long-chain fatty acid transport|negative regulation of phospholipid biosynthetic process|phosphatidic acid biosynthetic process|phosphatidylcholine biosynthetic process|phosphatidylethanolamine biosynthetic process|phosphatidylinositol biosynthetic process|phosphatidylserine biosynthetic process|transmembrane transport	endomembrane system|integral to membrane	fatty acid transporter activity|nucleotide binding				0						GGTGGGGAACGGGCTGCGTCC	0.662													6	25	---	---	---	---	PASS	A	17608160	A	A	17608160	3	1	103	1	0	0	0	0	1	0	0	0	14525	1116	39	1	1119	1	SLC27A1	19	17608160	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	2038725	17608160	41520823	193	38381										
ZNF626	199777	broad.mit.edu	37	chr19	20829130	20829130	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctctaacatcacattcctatAtaaattccgctgtgcagtgt	5	11	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:20829130A>G	uc002npb.1	-	2	235	c.85T>C	c.(85-87)TAT>CAT	p.Y29H	ZNF626_uc002npc.1_Intron|ZNF626_uc002npd.1_Missense_Mutation_p.Y29H	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	29	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						ACATTCCTATATAAATTCCGC	0.383													39	92	---	---	---	---	PASS	G	20829130	G	G	20829130	3	3	103	1	0	0	0	0	1	0	0	0	18047	449	16	5	1570	5	ZNF626	19	20829130	Missense_Mutation	SNP	A	TCGA-43-6771-01A-11D-1817-08	3220970	20829130	38299853	194	38382										
ZNF536	9745	broad.mit.edu	37	chr19	31039987	31039987	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cctgatccccgaaaccacgaGtaagaacactactgatgacc	7	14	0	4			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:31039987G>T	uc002nsu.1	+	4	3599	c.3461G>T	c.(3460-3462)AGT>ATT	p.S1154I	ZNF536_uc010edd.1_Missense_Mutation_p.S1154I	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1154					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GAAACCACGAGTAAGAACACT	0.547													19	53	---	---	---	---	PASS	T	31039987	T	T	31039987	3	4	103	1	0	0	0	0	1	0	0	0	17971	1029	36	3	3471	3	ZNF536	19	31039987	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	10210857	31039987	28088996	195	38383										
ZFP14	57677	broad.mit.edu	37	chr19	36853129	36853129	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tctatggccacatccctgaaTgtcactgaaccctgaaaaaa	6	12	2	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:36853129T>A	uc002odx.1	-	2	114	c.21A>T	c.(19-21)ACA>ACT	p.T7T	ZFP14_uc010xtd.1_Silent_p.T7T|ZFP14_uc010eex.1_Silent_p.T7T	NM_020917	NP_065968	Q9HCL3	ZFP14_HUMAN	zinc finger protein 14-like	7	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.162)					CATCCCTGAATGTCACTGAAC	0.403													14	53	---	---	---	---	PASS	A	36853129	A	A	36853129	2	1	103	1	0	0	0	0	0	0	0	1	17636	1451	51	5		5	ZFP14	19	36853129	Silent	SNP	T	TCGA-43-6771-01A-11D-1817-08	5813142	36853129	22275854	196	38384										
RYR1	6261	broad.mit.edu	37	chr19	38959968	38959968	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tcctgcccgtctgcagcttgGgacctggccaggtgggtcat	14	13	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:38959968G>T	uc002oit.2	+	27	3710	c.3580G>T	c.(3580-3582)GGA>TGA	p.G1194*	RYR1_uc002oiu.2_Nonsense_Mutation_p.G1194*	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1194	6 X approximate repeats.|Cytoplasmic.|B30.2/SPRY 2.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CTGCAGCTTGGGACCTGGCCA	0.388													13	72	---	---	---	---	PASS	T	38959968	T	T	38959968	4	4	103	1	0	0	0	0	0	1	0	0	13768	1233	43	3	3686	3	RYR1	19	38959968	Nonsense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	2106839	38959968	20169015	197	38385										
ADCK4	79934	broad.mit.edu	37	chr19	41201934	41201934	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	actctgtcccaaactcccggCttgcaccaaagtccagcagg	8	16	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:41201934C>A	uc002oor.2	-	13	1471	c.1169G>T	c.(1168-1170)AGC>ATC	p.S390I	ADCK4_uc002oop.1_Missense_Mutation_p.S67I|ADCK4_uc002ooq.1_Missense_Mutation_p.S349I	NM_024876	NP_079152	Q96D53	ADCK4_HUMAN	aarF domain containing kinase 4 isoform a	390	Protein kinase.					integral to membrane	protein serine/threonine kinase activity				0			Lung(22;9.49e-05)|LUSC - Lung squamous cell carcinoma(20;0.000219)			AAACTCCCGGCTTGCACCAAA	0.557													29	121	---	---	---	---	PASS	A	41201934	A	A	41201934	3	1	103	1	0	0	0	0	1	0	0	0	290	797	28	3	477	3	ADCK4	19	41201934	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	2241966	41201934	17927049	198	38386										
MEGF8	1954	broad.mit.edu	37	chr19	42847671	42847671	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tcggtactcacatgtagctgCggtgcttggtggcagcgtcc	14	11	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:42847671C>T	uc002otl.3	+	9	2191	c.1556C>T	c.(1555-1557)GCG>GTG	p.A519V	MEGF8_uc002otm.3_Missense_Mutation_p.A60V	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	519	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				CATGTAGCTGCGGTGCTTGGT	0.632													6	52	---	---	---	---	PASS	T	42847671	T	T	42847671	3	4	103	1	0	0	0	0	1	0	0	0	9463	768	27	1	1590	1	MEGF8	19	42847671	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	1645737	42847671	16281312	199	38387										
PSG9	5678	broad.mit.edu	37	chr19	43763083	43763083	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tttcacattgatagggtcctGtttcatttctcgtgacactg	8	9	3	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:43763083G>T	uc002owd.3	-	4	1013	c.914C>A	c.(913-915)ACA>AAA	p.T305K	PSG9_uc002owe.3_Intron|PSG9_uc010xwm.1_Missense_Mutation_p.T212K|PSG9_uc002owf.3_Intron|PSG9_uc002owg.2_Intron|PSG9_uc002owh.2_Intron	NM_002784	NP_002775	Q00887	PSG9_HUMAN	pregnancy specific beta-1-glycoprotein 9	305	Ig-like C2-type 2.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				ATAGGGTCCTGTTTCATTTCT	0.498													67	188	---	---	---	---	PASS	T	43763083	T	T	43763083	3	4	103	1	0	0	0	0	1	0	0	0	12662	1377	48	3	378	3	PSG9	19	43763083	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	915412	43763083	15365900	200	38388										
IRGQ	126298	broad.mit.edu	37	chr19	44097332	44097332	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	atccaatccaagcagcatgtCcaccacaaggcccacgtcag	7	16	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:44097332C>T	uc002oww.2	-	2	836	c.718G>A	c.(718-720)GAC>AAC	p.D240N	IRGQ_uc010eiv.2_Missense_Mutation_p.D240N	NM_001007561	NP_001007562	Q8WZA9	IRGQ_HUMAN	immunity-related GTPase family, Q	240							protein binding			ovary(1)|pancreas(1)	2		Prostate(69;0.0199)				AGCAGCATGTCCACCACAAGG	0.687													14	64	---	---	---	---	PASS	T	44097332	T	T	44097332	3	4	103	1	0	0	0	0	1	0	0	0	7839	855	30	2	1157	2	IRGQ	19	44097332	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	334249	44097332	15031651	201	38389										
NUP62	23636	broad.mit.edu	37	chr19	50413004	50413004	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgtggttgttgccgtctttgCagtgccaaacgtgaacccgc	12	11	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:50413004C>A	uc002pqx.2	-	2	165	c.61G>T	c.(61-63)GCA>TCA	p.A21S	IL4I1_uc002pqv.1_Intron|IL4I1_uc010eno.1_Intron|IL4I1_uc002pqw.1_Intron|IL4I1_uc002pqu.1_Intron|NUP62_uc002pqy.2_Missense_Mutation_p.A21S|NUP62_uc002pqz.2_Missense_Mutation_p.A21S|NUP62_uc002pra.2_Missense_Mutation_p.A21S|NUP62_uc002prb.2_Missense_Mutation_p.A21S|NUP62_uc002prc.2_Missense_Mutation_p.A21S	NM_153719	NP_714941	P37198	NUP62_HUMAN	nucleoporin 62kDa	21	15 X 9 AA approximate repeats.|2.|Thr-rich.				carbohydrate metabolic process|cell death|cell surface receptor linked signaling pathway|glucose transport|hormone-mediated signaling pathway|mRNA transport|negative regulation of apoptosis|negative regulation of cell proliferation|nucleocytoplasmic transport|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|protein transport|regulation of glucose transport|transcription, DNA-dependent|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleocytoplasmic shuttling complex|ribonucleoprotein complex|spindle pole	chromatin binding|protein serine/threonine kinase activity|receptor signaling complex scaffold activity|SH2 domain binding|structural constituent of nuclear pore|thyroid hormone receptor binding|ubiquitin binding				0		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00242)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		GCCGTCTTTGCAGTGCCAAAC	0.567													14	60	---	---	---	---	PASS	A	50413004	A	A	50413004	3	1	103	1	0	0	0	0	1	0	0	0	10768	710	25	3	1511	3	NUP62	19	50413004	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	6315672	50413004	8715979	202	38390										
KCNC3	3748	broad.mit.edu	37	chr19	50824011	50824011	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agtcctcgtgggcaagcgcaGctgctgccggatccccattg	13	14	0	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:50824011G>T	uc002pru.1	-	3	2304	c.2009C>A	c.(2008-2010)GCT>GAT	p.A670D	KCNC3_uc002prt.1_Missense_Mutation_p.A306D	NM_004977	NP_004968	Q14003	KCNC3_HUMAN	Shaw-related voltage-gated potassium channel	670	Cytoplasmic (Potential).|Poly-Ala.				cell death	voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1		all_neural(266;0.057)|Ovarian(192;0.208)		OV - Ovarian serous cystadenocarcinoma(262;0.00283)|GBM - Glioblastoma multiforme(134;0.0181)		GGCAAGCGCAGCTGCTGCCGG	0.642													4	50	---	---	---	---	PASS	T	50824011	T	T	50824011	3	4	103	1	0	0	0	0	1	0	0	0	8016	971	34	3	272	3	KCNC3	19	50824011	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	411007	50824011	8304972	203	38391										
CEACAM18	729767	broad.mit.edu	37	chr19	51983848	51983848	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cagcctgttgatcaggccgaCtgcattaaatgacacgggaa	11	10	1	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:51983848C>A	uc002pwv.1	+	3	497	c.497C>A	c.(496-498)ACT>AAT	p.T166N		NM_001080405	NP_001073874	A8MTB9	CEA18_HUMAN	carcinoembryonic antigen-related cell adhesion	166						integral to membrane				skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		ATCAGGCCGACTGCATTAAAT	0.557													19	64	---	---	---	---	PASS	A	51983848	A	A	51983848	3	1	103	1	0	0	0	0	1	0	0	0	3189	565	20	3	507	3	CEACAM18	19	51983848	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	1159837	51983848	7145135	204	38392										
SIGLEC5	8778	broad.mit.edu	37	chr19	52131184	52131184	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gcagaccttactcgacgaagCtccaagatcccggtattgga	10	12	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:52131184C>G	uc002pxe.2	-	5	1039	c.900G>C	c.(898-900)GAG>GAC	p.E300D		NM_003830	NP_003821	O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5 precursor	300	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to membrane	sugar binding			skin(2)|breast(1)|central_nervous_system(1)	4		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		CTCGACGAAGCTCCAAGATCC	0.582													25	89	---	---	---	---	PASS	G	52131184	G	G	52131184	3	3	103	1	0	0	0	0	1	0	0	0	14311	796	28	4	775	4	SIGLEC5	19	52131184	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	147336	52131184	6997799	205	38393										
NLRP9	338321	broad.mit.edu	37	chr19	56244704	56244704	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctctgcccagtccaacatcaCttttcttaaaagggttgttt	6	11	3	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:56244704C>T	uc002qly.2	-	2	521	c.493G>A	c.(493-495)GTG>ATG	p.V165M		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	165	NACHT.					cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		TCCAACATCACTTTTCTTAAA	0.438													22	61	---	---	---	---	PASS	T	56244704	T	T	56244704	3	4	103	1	0	0	0	0	1	0	0	0	10484	565	20	3	2514	3	NLRP9	19	56244704	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	4113520	56244704	2884279	206	38394										
PEG3	5178	broad.mit.edu	37	chr19	57327108	57327108	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cacttttctgaggtttggcaCggaatacactctgtatgaca	9	9	2	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr19:57327108C>T	uc002qnu.2	-	7	3053	c.2702G>A	c.(2701-2703)CGT>CAT	p.R901H	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.R872H|PEG3_uc002qnv.2_Missense_Mutation_p.R901H|PEG3_uc002qnw.2_Missense_Mutation_p.R777H|PEG3_uc002qnx.2_Missense_Mutation_p.R775H|PEG3_uc010etr.2_Missense_Mutation_p.R901H	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	901					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		AGGTTTGGCACGGAATACACT	0.463													27	119	---	---	---	---	PASS	T	57327108	T	T	57327108	3	4	103	1	0	0	0	0	1	0	0	0	11720	536	19	1	2068	1	PEG3	19	57327108	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	1082404	57327108	1801875	207	38395										
ENTPD6	955	broad.mit.edu	37	chr20	25203568	25203568	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gtgaagcatgtggacttctaTgctttctcctactattacga	8	9	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr20:25203568T>C	uc002wuj.2	+	12	1320	c.1140T>C	c.(1138-1140)TAT>TAC	p.Y380Y	ENTPD6_uc010zsz.1_Silent_p.Y162Y|ENTPD6_uc002wum.2_Silent_p.Y363Y|ENTPD6_uc010zta.1_Silent_p.Y380Y|ENTPD6_uc002wun.2_Silent_p.Y346Y|ENTPD6_uc002wuk.2_Silent_p.Y379Y|ENTPD6_uc002wul.2_Silent_p.Y379Y|ENTPD6_uc010ztb.1_Silent_p.Y352Y|ENTPD6_uc010ztc.1_Silent_p.Y352Y|ENTPD6_uc002wuo.2_Silent_p.Y132Y|ENTPD6_uc010ztd.1_Silent_p.Y128Y|ENTPD6_uc010gdk.1_RNA|ENTPD6_uc010gdl.1_RNA	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	380	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						TGGACTTCTATGCTTTCTCCT	0.612													54	94	---	---	---	---	PASS	C	25203568	C	C	25203568	2	2	103	1	0	0	0	0	0	0	0	1	5143	1471	51	5		5	ENTPD6	20	25203568	Silent	SNP	T	TCGA-43-6771-01A-11D-1817-08		25203568	37821952	208	38396										
SPAG4	6676	broad.mit.edu	37	chr20	34207663	34207663	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gcgccccccgcgatttcgcgGtctttgtgagtgcggacgag	15	13	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr20:34207663G>T	uc002xdb.1	+	10	1189	c.1072G>T	c.(1072-1074)GTC>TTC	p.V358F	SPAG4_uc010zvi.1_Missense_Mutation_p.V281F	NM_003116	NP_003107	Q9NPE6	SPAG4_HUMAN	sperm associated antigen 4	358	SUN.				spermatogenesis	cilium|flagellar axoneme|integral to membrane	structural molecule activity				0	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			CGATTTCGCGGTCTTTGTGAG	0.567													3	49	---	---	---	---	PASS	T	34207663	T	T	34207663	3	4	103	1	0	0	0	0	1	0	0	0	14980	1261	44	3	1110	3	SPAG4	20	34207663	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	9004095	34207663	28817857	209	38397										
ZFP64	55734	broad.mit.edu	37	chr20	50781293	50781293	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cataagcagtcttgaattggCaacctaaaaaaaaaaaggaa	7	6	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr20:50781293C>A	uc002xwl.2	-	4	801	c.452G>T	c.(451-453)TGC>TTC	p.C151F	ZFP64_uc002xwk.2_Missense_Mutation_p.C151F|ZFP64_uc002xwm.2_Missense_Mutation_p.C149F|ZFP64_uc002xwn.2_Missense_Mutation_p.C97F	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTTGAATTGGCAACCTAAAAA	0.254													13	48	---	---	---	---	PASS	A	50781293	A	A	50781293	3	1	103	1	0	0	0	0	1	0	0	0	17649	710	25	3	2796	3	ZFP64	20	50781293	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	16573630	50781293	12244227	210	38398										
COL20A1	57642	broad.mit.edu	37	chr20	61944518	61944518	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cgtcctgcctggcctagggaGgcacacagagtacgacgtca	13	13	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr20:61944518G>C	uc011aau.1	+	17	2226	c.2126G>C	c.(2125-2127)AGG>ACG	p.R709T	COL20A1_uc011aav.1_Missense_Mutation_p.R530T	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	709	Fibronectin type-III 5.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					GGCCTAGGGAGGCACACAGAG	0.657													8	31	---	---	---	---	PASS	C	61944518	C	C	61944518	3	2	103	1	0	0	0	0	1	0	0	0	3679	1000	35	4	2188	4	COL20A1	20	61944518	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	11163225	61944518	1081002	211	38399										
KRTAP11-1	337880	broad.mit.edu	37	chr21	32253437	32253437	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gctggcagacagtagagactCctcccactggttggcagaca	12	12	0	3			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr21:32253437C>A	uc002yov.2	-	1	438	c.407G>T	c.(406-408)GGA>GTA	p.G136V		NM_175858	NP_787054	Q8IUC1	KR111_HUMAN	keratin associated protein 11-1	136	3.|4 X 10 AA approximate repeats.					keratin filament	structural molecule activity			pancreas(1)	1						AGTAGAGACTCCTCCCACTGG	0.597													13	68	---	---	---	---	PASS	A	32253437	A	A	32253437	3	1	103	1	0	0	0	0	1	0	0	0	8517	855	30	2	88	2	KRTAP11-1	21	32253437	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08		32253437	15876458	212	38400										
RIPK4	54101	broad.mit.edu	37	chr21	43164076	43164076	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tcccgctcaaaggacagcgaCagtgatcctctggaagagaa	11	11	2	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr21:43164076C>A	uc002yzn.1	-	7	1209	c.1161G>T	c.(1159-1161)CTG>CTT	p.L387L		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	387						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						AGGACAGCGACAGTGATCCTC	0.632													16	54	---	---	---	---	PASS	A	43164076	A	A	43164076	2	1	103	1	0	0	0	0	0	0	0	1	13383	465	17	3		3	RIPK4	21	43164076	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	10910639	43164076	4965819	213	38401										
CCT8L2	150160	broad.mit.edu	37	chr22	17073086	17073086	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agccttcagcagctgctctgCctgttccagcaaggcttccg	10	15	2	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr22:17073086C>A	uc002zlp.1	-	1	615	c.355G>T	c.(355-357)GCA>TCA	p.A119S		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	119					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				AGCTGCTCTGCCTGTTCCAGC	0.657													12	33	---	---	---	---	PASS	A	17073086	A	A	17073086	3	1	103	1	0	0	0	0	1	0	0	0	2961	739	26	3	1322	3	CCT8L2	22	17073086	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08		17073086	34231480	214	38402										
CECR1	51816	broad.mit.edu	37	chr22	17669238	17669238	+	Missense_Mutation	SNP	C	G	G													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cgcaggctcacctgtttctcCggcgtggaagaagtaaggca					rs45511697	by1000genomes	TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr22:17669238C>G	uc002zmk.1	-	6	1284	c.1072G>C	c.(1072-1074)GGA>CGA	p.G358R	CECR1_uc010gqu.1_Missense_Mutation_p.G358R|CECR1_uc011agi.1_Missense_Mutation_p.G316R|CECR1_uc002zmj.1_Missense_Mutation_p.G117R	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	358					adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				CCTGTTTCTCCGGCGTGGAAG	0.602													12	79	---	---	---	---	PASS	G	17669238	G	G	17669238	3	3	103	1	0	0	0	0	1	0	0	0	3205	661	23	4	479	4	CECR1	22	17669238	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	596152	17669238	33635328	215	38403	721	2								
CECR1	51816	broad.mit.edu	37	chr22	17669239	17669239	+	Silent	SNP	G	A	A													0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	gcaggctcacctgtttctccGgcgtggaagaagtaaggcag					rs144447953		TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr22:17669239G>A	uc002zmk.1	-	6	1283	c.1071C>T	c.(1069-1071)GCC>GCT	p.A357A	CECR1_uc010gqu.1_Silent_p.A357A|CECR1_uc011agi.1_Silent_p.A315A|CECR1_uc002zmj.1_Silent_p.A116A	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	357					adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				CTGTTTCTCCGGCGTGGAAGA	0.597													12	79	---	---	---	---	PASS	A	17669239	A	A	17669239	2	1	103	1	0	0	0	0	0	0	0	1	3205	1103	39	1		1	CECR1	22	17669239	Silent	SNP	G	TCGA-43-6771-01A-11D-1817-08	1	17669239	33635327	216	38404	721	2								
PRR5	55615	broad.mit.edu	37	chr22	45133072	45133072	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	cattgactttggccggggccGgggctctggcatgtccgact	15	12	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr22:45133072G>T	uc003bfb.1	+	8	1384	c.1112G>T	c.(1111-1113)CGG>CTG	p.R371L	PRR5_uc003bew.1_Missense_Mutation_p.R362L|PRR5_uc003bex.1_Missense_Mutation_p.R276L|PRR5_uc010gzt.1_Missense_Mutation_p.R394L|PRR5_uc010gzu.1_Missense_Mutation_p.R335L|PRR5_uc003bey.1_Missense_Mutation_p.R362L|PRR5_uc003bez.1_Missense_Mutation_p.R276L|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.R264L|PRR5_uc003bfe.1_RNA|PRR5-ARHGAP8_uc003bfg.1_Intron|PRR5_uc003bfh.1_Missense_Mutation_p.R270L	NM_181333	NP_851850	P85299	PRR5_HUMAN	proline rich 5 (renal) isoform 1	371					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)		GGCCGGGGCCGGGGCTCTGGC	0.622													27	67	---	---	---	---	PASS	T	45133072	T	T	45133072	3	4	103	1	0	0	0	0	1	0	0	0	12600	1116	39	1	1142	1	PRR5	22	45133072	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	27463833	45133072	6171494	217	38405										
SMC1B	27127	broad.mit.edu	37	chr22	45802744	45802744	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aaagcgaaattctgagcatcCccctaaaataaaaaaataaa	4	8	1	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr22:45802744C>A	uc003bgc.2	-	3	353	c.301G>T	c.(301-303)GGA>TGA	p.G101*	SMC1B_uc003bgd.2_Nonsense_Mutation_p.G101*|SMC1B_uc003bge.1_5'UTR	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	101					chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TCTGAGCATCCCCCTAAAATA	0.279													5	40	---	---	---	---	PASS	A	45802744	A	A	45802744	4	1	103	1	0	0	0	0	0	1	0	0	14782	632	22	3	3498	3	SMC1B	22	45802744	Nonsense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	669672	45802744	5501822	218	38406										
FAM19A5	25817	broad.mit.edu	37	chr22	49042449	49042449	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tgtgagattgtgaccttggaCcgggacagcagccagcctcg	14	11	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chr22:49042449C>T	uc003bim.3	+	2	270	c.153C>T	c.(151-153)GAC>GAT	p.D51D	FAM19A5_uc003bio.3_Silent_p.D44D	NM_001082967	NP_001076436	Q7Z5A7	F19A5_HUMAN	family with sequence similarity 19 (chemokine	51						extracellular region|integral to membrane				large_intestine(1)	1		all_cancers(38;2.95e-11)|all_epithelial(38;3.07e-10)|all_lung(38;2.89e-05)|Breast(42;0.000396)|Lung NSC(38;0.000471)|Ovarian(80;0.00934)|Lung SC(80;0.195)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0227)|BRCA - Breast invasive adenocarcinoma(115;0.119)		TGACCTTGGACCGGGACAGCA	0.657													6	43	---	---	---	---	PASS	T	49042449	T	T	49042449	2	4	103	1	0	0	0	0	0	0	0	1	5535	506	18	3		3	FAM19A5	22	49042449	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	3239705	49042449	2262117	219	38407										
MXRA5	25878	broad.mit.edu	37	chrX	3242791	3242791	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	agatgctccactggggcagtTggaatttctccaggatgagc	13	9	1	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chrX:3242791T>A	uc004crg.3	-	5	1092	c.935A>T	c.(934-936)CAA>CTA	p.Q312L		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	312						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				CTGGGGCAGTTGGAATTTCTC	0.493													24	33	---	---	---	---	PASS	A	3242791	A	A	3242791	3	1	103	1	0	0	0	0	1	0	0	0	10003	1812	63	5	7563	5	MXRA5	23	3242791	Missense_Mutation	SNP	T	TCGA-43-6771-01A-11D-1817-08		3242791	152027769	220	38408										
MAGEB10	139422	broad.mit.edu	37	chrX	27839468	27839468	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	ctccgtgccagggaaaaacgCcgtcaggcccgaggagggct	15	13	1	0			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chrX:27839468C>A	uc004dbw.2	+	3	272	c.45C>A	c.(43-45)CGC>CGA	p.R15R		NM_182506	NP_872312	Q96LZ2	MAGBA_HUMAN	melanoma antigen family B, 10	15										lung(1)|breast(1)|central_nervous_system(1)	3						GGGAAAAACGCCGTCAGGCCC	0.532													10	16	---	---	---	---	PASS	A	27839468	A	A	27839468	2	1	103	1	0	0	0	0	0	0	0	1	9173	726	26	3		3	MAGEB10	23	27839468	Silent	SNP	C	TCGA-43-6771-01A-11D-1817-08	24596677	27839468	127431092	221	38409										
RGAG1	57529	broad.mit.edu	37	chrX	109694807	109694807	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	tccaggctctgaagtaatgtCcacaccgctactgtcagtcc	8	14	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chrX:109694807C>G	uc004eor.1	+	3	1208	c.962C>G	c.(961-963)TCC>TGC	p.S321C	RGAG1_uc011msr.1_Missense_Mutation_p.S321C	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	321										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GAAGTAATGTCCACACCGCTA	0.493													62	109	---	---	---	---	PASS	G	109694807	G	G	109694807	3	3	103	1	0	0	0	0	1	0	0	0	13274	855	30	2	964	2	RGAG1	23	109694807	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	81855339	109694807	45575753	222	38410										
GABRE	2564	broad.mit.edu	37	chrX	151138714	151138714	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	caggatagtgttcaggatgcGagaggcttctggcagtttgc	15	7	2	1			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chrX:151138714G>C	uc004ffi.2	-	2	271	c.217C>G	c.(217-219)CGC>GGC	p.R73G	GABRE_uc011myd.1_RNA|GABRE_uc011mye.1_RNA	NM_004961	NP_004952	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor,	73	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TTCAGGATGCGAGAGGCTTCT	0.547													37	55	---	---	---	---	PASS	C	151138714	C	C	151138714	3	2	103	1	0	0	0	0	1	0	0	0	6170	1058	37	2	1335	2	GABRE	23	151138714	Missense_Mutation	SNP	G	TCGA-43-6771-01A-11D-1817-08	41443907	151138714	4131846	223	38411										
RENBP	5973	broad.mit.edu	37	chrX	153207088	153207088	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0509259259259259	11	0.422544569088431	1.15826271186441	1.99509366636931	0.858266709306044	1	1	0	aatgacggagcagaaaccagCcggcttccagcgtgtggcct	13	12	0	2			TCGA-43-6771-01A-11D-1817-08	TCGA-43-6771-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	20735861-1f84-4141-a467-f598108e1e41	45949c1f-3899-4e80-b71e-5385c76237c9	g.chrX:153207088C>A	uc004fjo.1	-	8	958	c.788G>T	c.(787-789)GGC>GTC	p.G263V	RENBP_uc011mzh.1_Missense_Mutation_p.A236S	NM_002910	NP_002901	P51606	RENBP_HUMAN	renin binding protein	263					mannose metabolic process|regulation of blood pressure		endopeptidase inhibitor activity|mannose-6-phosphate isomerase activity|N-acylglucosamine 2-epimerase activity			ovary(1)|pancreas(1)	2	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				N-Acetyl-D-glucosamine(DB00141)	CAGAAACCAGCCGGCTTCCAG	0.627													16	17	---	---	---	---	PASS	A	153207088	A	A	153207088	3	1	103	1	0	0	0	0	1	0	0	0	13225	739	26	3	511	3	RENBP	23	153207088	Missense_Mutation	SNP	C	TCGA-43-6771-01A-11D-1817-08	2068374	153207088	2063472	224	38412										
RERE	473	broad.mit.edu	37	chr1	8416169	8416169	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggaagtcttaccgaaaactgGgtggcgaagcatctcgtgct	13	9	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:8416169G>T	uc001ape.2	-	22	5287	c.4477C>A	c.(4477-4479)CCA>ACA	p.P1493T	RERE_uc001apf.2_Missense_Mutation_p.P1493T|RERE_uc001apd.2_Missense_Mutation_p.P939T	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1493	Pro-rich.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		CCGAAAACTGGGTGGCGAAGC	0.587													6	85	---	---	---	---	PASS	T	8416169	T	T	8416169	3	4	104	1	0	0	0	0	1	0	0	0	13231	1232	43	3	235	3	RERE	1	8416169	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08		8416169	240834452	1	38413										
PRAMEF12	390999	broad.mit.edu	37	chr1	12835767	12835767	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tctggagcttctgcactctcCccagaggccctgagtaagag	11	13	3	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:12835767C>A	uc001aui.2	+	2	396	c.369C>A	c.(367-369)TCC>TCA	p.S123S		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	123										ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CTGCACTCTCCCCAGAGGCCC	0.537													6	109	---	---	---	---	PASS	A	12835767	A	A	12835767	2	1	104	1	0	0	0	0	0	0	0	1	12428	610	22	3		3	PRAMEF12	1	12835767	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	4419598	12835767	236414854	2	38414										
PIK3R3	8503	broad.mit.edu	37	chr1	46511683	46511683	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcaagtcctctgcttgtactCgattgatatcctcaacaaac	6	12	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:46511683C>A	uc001cpb.3	-	9	1850	c.1094G>T	c.(1093-1095)CGA>CTA	p.R365L	PIK3R3_uc009vyb.2_Missense_Mutation_p.R306L|PIK3R3_uc009vyc.2_Missense_Mutation_p.R382L|PIK3R3_uc001cpc.3_Missense_Mutation_p.R365L|PIK3R3_uc010olw.1_Missense_Mutation_p.R411L|PIK3R3_uc010olv.1_Missense_Mutation_p.R155L	NM_003629	NP_003620	Q92569	P55G_HUMAN	phosphoinositide-3-kinase, regulatory subunit 3	365	SH2 2.				insulin receptor signaling pathway|platelet activation|T cell costimulation		1-phosphatidylinositol-3-kinase activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					TGCTTGTACTCGATTGATATC	0.373													4	81	---	---	---	---	PASS	A	46511683	A	A	46511683	3	1	104	1	0	0	0	0	1	0	0	0	11920	884	31	2	299	2	PIK3R3	1	46511683	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	33675916	46511683	202738938	3	38415										
SLC5A9	200010	broad.mit.edu	37	chr1	48701497	48701497	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	caccctgttcaccattgatgTgtggcagcgcttccgcagga	11	13	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:48701497T>C	uc001cro.2	+	10	1290	c.1238T>C	c.(1237-1239)GTG>GCG	p.V413A	SLC5A9_uc010oms.1_RNA|SLC5A9_uc001crn.2_Missense_Mutation_p.V438A|SLC5A9_uc010omt.1_Missense_Mutation_p.V427A|SLC5A9_uc001crp.2_Missense_Mutation_p.V80A|SLC5A9_uc010omu.1_Missense_Mutation_p.V80A	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	413	Cytoplasmic (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						ACCATTGATGTGTGGCAGCGC	0.617													15	34	---	---	---	---	PASS	C	48701497	C	C	48701497	3	2	104	1	0	0	0	0	1	0	0	0	14672	1696	59	5	1355	5	SLC5A9	1	48701497	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	2189814	48701497	200549124	4	38416										
PRPF38A	84950	broad.mit.edu	37	chr1	52870481	52870481	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggcaccaaccctcaatatctGgtggagaagatcattcgaac	9	11	3	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:52870481G>T	uc001ctv.3	+	1	263	c.60G>T	c.(58-60)CTG>CTT	p.L20L	ORC1L_uc001ctt.2_5'Flank|ORC1L_uc010oni.1_5'Flank|ORC1L_uc001ctu.2_5'Flank|ORC1L_uc009vzd.2_5'Flank|PRPF38A_uc001ctw.3_5'UTR	NM_032864	NP_116253	Q8NAV1	PR38A_HUMAN	PRP38 pre-mRNA processing factor 38 (yeast)	20					mRNA processing|RNA splicing	spliceosomal complex					0						CTCAATATCTGGTGGAGAAGA	0.483											OREG0013487	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	115	---	---	---	---	PASS	T	52870481	T	T	52870481	2	4	104	1	0	0	0	0	0	0	0	1	12567	1335	47	3		3	PRPF38A	1	52870481	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	4168984	52870481	196380140	5	38417										
USP24	23358	broad.mit.edu	37	chr1	55572963	55572963	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aagaagggtcttgatgaggcGtaagtgccctgccagtaaga	14	7	1	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:55572963G>A	uc001cyg.3	-	37	4231	c.4231C>T	c.(4231-4233)CGC>TGC	p.R1411C		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	1571					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						TTGATGAGGCGTAAGTGCCCT	0.453													19	46	---	---	---	---	PASS	A	55572963	A	A	55572963	3	1	104	1	0	0	0	0	1	0	0	0	17052	1145	40	1	3267	1	USP24	1	55572963	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2702482	55572963	193677658	6	38418										
GBP2	2634	broad.mit.edu	37	chr1	89579960	89579960	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctgatggcattgacgtaggtCagcaccaggctctctagacc	11	12	2	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:89579960C>T	uc001dmz.1	-	7	1159	c.888G>A	c.(886-888)CTG>CTA	p.L296L	GBP2_uc001dmy.1_RNA	NM_004120	NP_004111	P32456	GBP2_HUMAN	guanylate binding protein 2,	296					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)	1		Lung NSC(277;0.0908)		all cancers(265;0.0151)|Epithelial(280;0.0284)		TGACGTAGGTCAGCACCAGGC	0.483													8	48	---	---	---	---	PASS	T	89579960	T	T	89579960	2	4	104	1	0	0	0	0	0	0	0	1	6274	813	29	2		2	GBP2	1	89579960	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	34006997	89579960	159670661	7	38419										
GLMN	11146	broad.mit.edu	37	chr1	92733508	92733508	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	actcttgatttctaagtactGgtaaagtagactattgtctt	7	6	3	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:92733508G>T	uc001dor.2	-	11	1175	c.1060C>A	c.(1060-1062)CAG>AAG	p.Q354K	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Missense_Mutation_p.Q354K	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	354					muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		TCTAAGTACTGGTAAAGTAGA	0.313									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				5	68	---	---	---	---	PASS	T	92733508	T	T	92733508	3	4	104	1	0	0	0	0	1	0	0	0	6448	1357	47	3	760	3	GLMN	1	92733508	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	3153548	92733508	156517113	8	38420										
SORT1	6272	broad.mit.edu	37	chr1	109883449	109883449	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agatgtcggtccaaagacttGgaatagacaatgcctcgatc	10	9	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:109883449G>A	uc001dxm.1	-	10	1210	c.1161C>T	c.(1159-1161)TCC>TCT	p.S387S	SORT1_uc010ovi.1_Silent_p.S250S	NM_002959	NP_002950	Q99523	SORT_HUMAN	sortilin 1 preproprotein	387	BNR 6.|Extracellular (Potential).				endocytosis|endosome to lysosome transport|endosome transport via multivesicular body sorting pathway|glucose import|Golgi to endosome transport|induction of apoptosis by extracellular signals|myotube differentiation|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|neuropeptide signaling pathway|ossification|plasma membrane to endosome transport|regulation of gene expression|response to insulin stimulus|vesicle organization	cell surface|coated pit|early endosome|endoplasmic reticulum membrane|endosome membrane|Golgi cisterna membrane|integral to membrane|lysosomal membrane|microsome|nuclear membrane|perinuclear region of cytoplasm|plasma membrane	enzyme binding|nerve growth factor binding|nerve growth factor receptor activity|neurotensin receptor activity, non-G-protein coupled			ovary(1)	1		all_epithelial(167;4.69e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0529)|Colorectal(144;0.142)|Epithelial(280;0.145)|Kidney(133;0.169)|all cancers(265;0.184)		CCAAAGACTTGGAATAGACAA	0.483													8	42	---	---	---	---	PASS	A	109883449	A	A	109883449	2	1	104	1	0	0	0	0	0	0	0	1	14935	1335	47	3		3	SORT1	1	109883449	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	17149941	109883449	139367172	9	38421										
ATXN7L2	127002	broad.mit.edu	37	chr1	110033990	110033990	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctctggctgtaggggcctctCggccaaaactaaaacagccc	10	14	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:110033990C>T	uc001dxr.2	+	10	1820	c.1805C>T	c.(1804-1806)TCG>TTG	p.S602L	ATXN7L2_uc001dxs.2_Missense_Mutation_p.S229L|ATXN7L2_uc001dxt.2_Missense_Mutation_p.S105L|CYB561D1_uc010ovl.1_5'Flank|CYB561D1_uc010ovm.1_5'Flank|CYB561D1_uc001dxu.2_5'Flank|CYB561D1_uc001dxw.2_5'Flank|CYB561D1_uc010ovn.1_5'Flank|CYB561D1_uc010ovo.1_5'Flank|CYB561D1_uc009wfd.2_5'Flank|CYB561D1_uc010ovp.1_5'Flank	NM_153340	NP_699171	Q5T6C5	AT7L2_HUMAN	ataxin 7-like 2	602										ovary(2)	2		all_epithelial(167;0.00197)|all_lung(203;0.00291)|Lung NSC(277;0.00453)		Colorectal(144;0.0129)|Lung(183;0.0426)|Epithelial(280;0.0675)|READ - Rectum adenocarcinoma(129;0.0693)|all cancers(265;0.071)|LUSC - Lung squamous cell carcinoma(189;0.228)		AGGGGCCTCTCGGCCAAAACT	0.587													10	45	---	---	---	---	PASS	T	110033990	T	T	110033990	3	4	104	1	0	0	0	0	1	0	0	0	1217	893	31	2	1843	2	ATXN7L2	1	110033990	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	150541	110033990	139216631	10	38422										
KCNA3	3738	broad.mit.edu	37	chr1	111216270	111216270	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggacgccttcagcgtttgccCgaggatctgcagccccttgg	13	14	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:111216270C>G	uc001dzv.1	-	1	1386	c.1162G>C	c.(1162-1164)GGG>CGG	p.G388R		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	388						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)		AGCGTTTGCCCGAGGATCTGC	0.587													13	71	---	---	---	---	PASS	G	111216270	G	G	111216270	3	3	104	1	0	0	0	0	1	0	0	0	8004	652	23	4	569	4	KCNA3	1	111216270	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	1182280	111216270	138034351	11	38423										
C1orf88	128344	broad.mit.edu	37	chr1	111891246	111891246	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgcctcgatttaagaactacCcaaaggacacttactatccc	5	13	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:111891246C>A	uc001eaw.2	+	4	447	c.367C>A	c.(367-369)CCA>ACA	p.P123T	C1orf88_uc001eax.2_Missense_Mutation_p.P90T|C1orf88_uc009wge.1_Intron|C1orf88_uc001eay.2_Missense_Mutation_p.P36T	NM_181643	NP_857594	Q8TCI5	CA088_HUMAN	hypothetical protein LOC128344	123										ovary(1)|skin(1)	2		all_cancers(81;3.21e-05)|all_epithelial(167;1.19e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0239)|Colorectal(144;0.0301)|all cancers(265;0.0677)|Epithelial(280;0.0897)|COAD - Colon adenocarcinoma(174;0.116)|LUSC - Lung squamous cell carcinoma(189;0.135)		TAAGAACTACCCAAAGGACAC	0.403													9	255	---	---	---	---	PASS	A	111891246	A	A	111891246	3	1	104	1	0	0	0	0	1	0	0	0	2065	623	22	3	381	3	C1orf88	1	111891246	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	674976	111891246	137359375	12	38424										
ANKRD35	148741	broad.mit.edu	37	chr1	145562806	145562806	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gggcccgggaggcagccagcCtacggcaacacgagaaaact	14	13	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:145562806C>A	uc001eob.1	+	10	2602	c.2494C>A	c.(2494-2496)CTA>ATA	p.L832I	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Missense_Mutation_p.L675I	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	832										ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GGCAGCCAGCCTACGGCAACA	0.602													4	8	---	---	---	---	PASS	A	145562806	A	A	145562806	3	1	104	1	0	0	0	0	1	0	0	0	664	680	24	3	2532	3	ANKRD35	1	145562806	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	33671560	145562806	103687815	13	38425										
PLEKHO1	51177	broad.mit.edu	37	chr1	150131510	150131510	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaaggccaaggacccccctcGgtctccgccggattctgagt	11	15	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:150131510G>C	uc001ett.2	+	6	1300	c.1022G>C	c.(1021-1023)CGG>CCG	p.R341P	PLEKHO1_uc001etr.2_Missense_Mutation_p.R169P|PLEKHO1_uc001ets.2_Missense_Mutation_p.R158P|PLEKHO1_uc001etu.2_Missense_Mutation_p.R169P	NM_016274	NP_057358	Q53GL0	PKHO1_HUMAN	pleckstrin homology domain containing, family O	341	Negative regulator of AP-1 activity.					cytoplasm|nucleus|plasma membrane				lung(1)	1	Lung NSC(24;7.78e-28)|Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GACCCCCCTCGGTCTCCGCCG	0.602													6	28	---	---	---	---	PASS	C	150131510	C	C	150131510	3	2	104	1	0	0	0	0	1	0	0	0	12084	1116	39	4	1044	4	PLEKHO1	1	150131510	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	4568704	150131510	99119111	14	38426										
GOLPH3L	55204	broad.mit.edu	37	chr1	150634405	150634405	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctgtctgactttagcagtacCtttgagaaaaggagaaagaa	10	6	1	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:150634405C>A	uc001evj.2	-	4	533	c.316_splice	c.e4-1	p.V106_splice	GOLPH3L_uc010pci.1_Splice_Site_p.V62_splice	NM_018178	NP_060648	Q9H4A5	GLP3L_HUMAN	Golgi phosphoprotein 3-like							Golgi cisterna membrane				ovary(1)	1	all_cancers(9;3.09e-52)|all_epithelial(9;4.47e-43)|all_lung(15;1.09e-34)|Lung NSC(24;4.04e-31)|Breast(34;0.000615)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;1.2e-23)|all cancers(9;4.81e-23)|OV - Ovarian serous cystadenocarcinoma(6;1.93e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			TTAGCAGTACCTTTGAGAAAA	0.363													5	60	---	---	---	---	PASS	A	150634405	A	A	150634405	5	1	104	1	0	0	0	0	0	0	1	0	6569	695	24	3	550	3	GOLPH3L	1	150634405	Splice_Site	SNP	C	TCGA-46-3765-01A-01D-0983-08	502895	150634405	98616216	15	38427										
PSMB4	5692	broad.mit.edu	37	chr1	151372089	151372089	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agcgtttttggggtcgcggtCcggactttgggcggggggtc	20	8	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:151372089C>T	uc001eyc.1	+	1	49	c.26C>T	c.(25-27)TCC>TTC	p.S9F	PSMB4_uc010pda.1_Missense_Mutation_p.S9F|PSMB4_uc001eyb.1_Missense_Mutation_p.S9F	NM_002796	NP_002787	P28070	PSB4_HUMAN	proteasome beta 4 subunit	9					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|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity			ovary(2)	2	Lung SC(34;0.00471)|Ovarian(49;0.00871)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GGGTCGCGGTCCGGACTTTGG	0.552													12	67	---	---	---	---	PASS	T	151372089	T	T	151372089	3	4	104	1	0	0	0	0	1	0	0	0	12679	855	30	2	28	2	PSMB4	1	151372089	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	737684	151372089	97878532	16	38428										
FLG	2312	broad.mit.edu	37	chr1	152276145	152276145	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gagctgtctcgtgcctgctcGtggcgggatccttgtcttcc	13	13	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:152276145G>A	uc001ezu.1	-	3	11253	c.11217C>T	c.(11215-11217)CAC>CAT	p.H3739H		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3739	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTGCCTGCTCGTGGCGGGATC	0.602									Ichthyosis				87	127	---	---	---	---	PASS	A	152276145	A	A	152276145	2	1	104	1	0	0	0	0	0	0	0	1	5922	1136	40	1		1	FLG	1	152276145	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	904056	152276145	96974476	17	38429										
FLG2	388698	broad.mit.edu	37	chr1	152326835	152326835	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acctgatctgtactcatgctGtgcaaagccagaggatttac	9	10	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:152326835G>C	uc001ezw.3	-	3	3500	c.3427C>G	c.(3427-3429)CAG>GAG	p.Q1143E	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1143	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TACTCATGCTGTGCAAAGCCA	0.527													23	147	---	---	---	---	PASS	C	152326835	C	C	152326835	3	2	104	1	0	0	0	0	1	0	0	0	5923	1386	48	4	3752	4	FLG2	1	152326835	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	50690	152326835	96923786	18	38430										
IQGAP3	128239	broad.mit.edu	37	chr1	156503909	156503909	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cgctcctctggctctggcacCtggcaggctctatggatgaa	12	13	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:156503909C>T	uc001fpf.2	-	30	3840	c.3765G>A	c.(3763-3765)CAG>CAA	p.Q1255Q		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1255					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCTCTGGCACCTGGCAGGCTC	0.592													7	52	---	---	---	---	PASS	T	156503909	T	T	156503909	2	4	104	1	0	0	0	0	0	0	0	1	7816	680	24	3		3	IQGAP3	1	156503909	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	4177074	156503909	92746712	19	38431										
FCRL1	115350	broad.mit.edu	37	chr1	157771327	157771327	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtgctgagcagcccctcaatGactcctgaggtaagatgatt	11	10	1	5			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:157771327G>T	uc001frg.2	-	6	1040	c.927C>A	c.(925-927)GTC>GTA	p.V309V	FCRL1_uc001frf.2_RNA|FCRL1_uc001frh.2_Silent_p.V309V|FCRL1_uc001fri.2_Intron|FCRL1_uc001frj.2_RNA	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	309	Helical; (Potential).					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GCCCCTCAATGACTCCTGAGG	0.507													17	37	---	---	---	---	PASS	T	157771327	T	T	157771327	2	4	104	1	0	0	0	0	0	0	0	1	5794	1277	45	2		2	FCRL1	1	157771327	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	1267418	157771327	91479294	20	38432										
OR10J1	26476	broad.mit.edu	37	chr1	159409868	159409868	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccagcccatatcattggcagGgtgtgccacacagatgttct	10	12	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:159409868G>T	uc010piv.1	+	1	320	c.320G>T	c.(319-321)GGG>GTG	p.G107V	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	107	Extracellular (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)					TCATTGGCAGGGTGTGCCACA	0.493													5	34	---	---	---	---	PASS	T	159409868	T	T	159409868	3	4	104	1	0	0	0	0	1	0	0	0	10910	1232	43	3	322	3	OR10J1	1	159409868	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1638541	159409868	89840753	21	38433										
FCGR3A	2214	broad.mit.edu	37	chr1	161518412	161518412	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cttcagagtcacactgtcctTctcgagcaccctgtaccatt	6	15	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:161518412T>A	uc001gat.3	-	4	255	c.118A>T	c.(118-120)AAG>TAG	p.K40*	FCGR3A_uc001gar.2_Nonsense_Mutation_p.K76*|FCGR3A_uc001gas.2_Nonsense_Mutation_p.K75*|FCGR3A_uc009wuh.2_Nonsense_Mutation_p.K39*|FCGR3A_uc009wui.2_Nonsense_Mutation_p.K40*	NM_001127595	NP_001121067	P08637	FCG3A_HUMAN	Fc fragment of IgG, low affinity IIIa, receptor	40	Ig-like C2-type 1.|Extracellular (Potential).				immune response|regulation of immune response	extracellular region|integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	ACACTGTCCTTCTCGAGCACC	0.552													17	66	---	---	---	---	PASS	A	161518412	A	A	161518412	4	1	104	1	0	0	0	0	0	1	0	0	5784	1792	62	5	658	5	FCGR3A	1	161518412	Nonsense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	2108544	161518412	87732209	22	38434										
BLZF1	8548	broad.mit.edu	37	chr1	169356240	169356240	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcttattttccttaggttctAagaattttagatccagttac	5	7	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:169356240A>G	uc001gfx.1	+	7	1460	c.1023A>G	c.(1021-1023)CTA>CTG	p.L341L	BLZF1_uc001gfy.2_Silent_p.L341L|BLZF1_uc009wvp.1_Silent_p.*245*	NM_003666	NP_003657	Q9H2G9	GO45_HUMAN	basic leucine zipper nuclear factor 1	341					cell proliferation|Golgi organization|Golgi to plasma membrane protein transport|regulation of cell growth|regulation of transcription from RNA polymerase II promoter	Golgi lumen|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|ubiquitin protein ligase binding			skin(1)	1	all_hematologic(923;0.208)					CTTAGGTTCTAAGAATTTTAG	0.328													4	36	---	---	---	---	PASS	G	169356240	G	G	169356240	2	3	104	1	0	0	0	0	0	0	0	1	1453	349	13	5		5	BLZF1	1	169356240	Silent	SNP	A	TCGA-46-3765-01A-01D-0983-08	7837828	169356240	79894381	23	38435										
C1orf125	126859	broad.mit.edu	37	chr1	179503957	179503957	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tataaaaaataaagatctagAggaattagtcatgacatcaa	6	4	3	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:179503957A>T	uc001gmo.2	+	25	3018	c.2891A>T	c.(2890-2892)GAG>GTG	p.E964V	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.E890V|C1orf125_uc009wxh.2_RNA	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	964	Glu-rich.										0						AAAGATCTAGAGGAATTAGTC	0.244													6	46	---	---	---	---	PASS	T	179503957	T	T	179503957	3	4	104	1	0	0	0	0	1	0	0	0	1993	304	11	5	2985	5	C1orf125	1	179503957	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	10147717	179503957	69746664	24	38436										
CEP350	9857	broad.mit.edu	37	chr1	179966093	179966093	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tctactagtacttctaattcCcaaagattagatattctaaa	3	8	3	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:179966093C>A	uc001gnt.2	+	6	1184	c.801C>A	c.(799-801)TCC>TCA	p.S267S	CEP350_uc001gnr.1_Silent_p.S241S|CEP350_uc009wxl.2_Silent_p.S266S|CEP350_uc001gnu.2_Silent_p.S101S	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	267						centrosome|nucleus|spindle				ovary(4)	4						CTTCTAATTCCCAAAGATTAG	0.378													7	84	---	---	---	---	PASS	A	179966093	A	A	179966093	2	1	104	1	0	0	0	0	0	0	0	1	3254	610	22	3		3	CEP350	1	179966093	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	462136	179966093	69284528	25	38437										
PRG4	10216	broad.mit.edu	37	chr1	186276847	186276847	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccacccctgaggagcctgctCccaccactcccaaggcagcg	9	20	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:186276847C>A	uc001gru.3	+	7	2047	c.1996C>A	c.(1996-1998)CCC>ACC	p.P666T	PRG4_uc001grt.3_Missense_Mutation_p.P625T|PRG4_uc009wyl.2_Missense_Mutation_p.P573T|PRG4_uc009wym.2_Missense_Mutation_p.P532T|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	666	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|38; approximate.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GGAGCCTGCTCCCACCACTCC	0.667													5	52	---	---	---	---	PASS	A	186276847	A	A	186276847	3	1	104	1	0	0	0	0	1	0	0	0	12481	855	30	2	2018	2	PRG4	1	186276847	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	6310754	186276847	62973774	26	38438										
ATP6V1G3	127124	broad.mit.edu	37	chr1	198509707	198509707	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggtgagacttactcttcttgGcttcctctagcttgtccttg	9	11	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:198509707G>C	uc001gup.2	-	2	180	c.74C>G	c.(73-75)GCC>GGC	p.A25G	ATP6V1G3_uc009wzd.2_Missense_Mutation_p.A25G|ATP6V1G3_uc001guo.2_Missense_Mutation_p.A25G	NM_133262	NP_573569	Q96LB4	VATG3_HUMAN	ATPase, H+ transporting, lysosomal, V1 subunit	25	Potential.				cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase complex	ATPase binding			central_nervous_system(1)	1						ACTCTTCTTGGCTTCCTCTAG	0.378													18	59	---	---	---	---	PASS	C	198509707	C	C	198509707	3	2	104	1	0	0	0	0	1	0	0	0	1188	1203	42	4	344	4	ATP6V1G3	1	198509707	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	12232860	198509707	50740914	27	38439										
LAX1	54900	broad.mit.edu	37	chr1	203741202	203741202	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctctgtcctttcagggagacAtgagtcgaggagtatgcgca	13	9	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:203741202A>G	uc001haa.2	+	4	727	c.317A>G	c.(316-318)CAT>CGT	p.H106R	LAX1_uc010pql.1_Missense_Mutation_p.H90R|LAX1_uc001hab.2_Missense_Mutation_p.H30R	NM_017773	NP_060243	Q8IWV1	LAX1_HUMAN	lymphocyte transmembrane adaptor 1 isoform a	106	Cytoplasmic (Potential).				B cell activation|immune response|inactivation of MAPK activity|intracellular signal transduction|negative regulation of T cell activation	Golgi apparatus|integral to membrane|plasma membrane	protein kinase binding|SH2 domain binding			central_nervous_system(2)	2	all_cancers(21;0.0915)		BRCA - Breast invasive adenocarcinoma(75;0.109)			TCAGGGAGACATGAGTCGAGG	0.493													23	41	---	---	---	---	PASS	G	203741202	G	G	203741202	3	3	104	1	0	0	0	0	1	0	0	0	8648	217	8	5	376	5	LAX1	1	203741202	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	5231495	203741202	45509419	28	38440										
IARS2	55699	broad.mit.edu	37	chr1	220287687	220287687	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaaggtgaaatttattcctgGatcagcactgaatggcatgg	11	6	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:220287687G>T	uc001hmc.2	+	12	1615	c.1511G>T	c.(1510-1512)GGA>GTA	p.G504V		NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase	504					isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	TTTATTCCTGGATCAGCACTG	0.373													34	71	---	---	---	---	PASS	T	220287687	T	T	220287687	3	4	104	1	0	0	0	0	1	0	0	0	7474	1174	41	2	1557	2	IARS2	1	220287687	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	16546485	220287687	28962934	29	38441										
HHIPL2	79802	broad.mit.edu	37	chr1	222717191	222717191	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cgtccccagcatggaccatgGagacggggttcctcagcccg	13	15	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:222717191G>C	uc001hnh.1	-	2	720	c.662C>G	c.(661-663)TCC>TGC	p.S221C		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	221					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		ATGGACCATGGAGACGGGGTT	0.637													13	32	---	---	---	---	PASS	C	222717191	C	C	222717191	3	2	104	1	0	0	0	0	1	0	0	0	7094	1174	41	2	1544	2	HHIPL2	1	222717191	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2429504	222717191	26533430	30	38442										
KIAA1804	84451	broad.mit.edu	37	chr1	233497839	233497839	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggagctgactcgggcggctcTgcagcagaagtctcaggagg	17	10	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:233497839T>G	uc001hvt.3	+	5	1613	c.1352T>G	c.(1351-1353)CTG>CGG	p.L451R	KIAA1804_uc001hvs.1_Missense_Mutation_p.L451R	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	451					activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				CGGGCGGCTCTGCAGCAGAAG	0.582													4	8	---	---	---	---	PASS	G	233497839	G	G	233497839	3	3	104	1	0	0	0	0	1	0	0	0	8259	1580	55	5	1370	5	KIAA1804	1	233497839	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	10780648	233497839	15752782	31	38443										
RGS7	6000	broad.mit.edu	37	chr1	240966246	240966246	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcctgataggcactggatctTataaaacgtgggtatgaatc	10	7	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:240966246T>A	uc001hyv.2	-	16	1647	c.1317A>T	c.(1315-1317)ATA>ATT	p.I439I	RGS7_uc010pyh.1_Silent_p.I413I|RGS7_uc010pyj.1_Silent_p.I355I|RGS7_uc001hyu.2_Silent_p.I439I|RGS7_uc009xgn.1_Silent_p.I386I|RGS7_uc001hyw.2_Silent_p.I439I|RGS7_uc001hyt.2_Silent_p.I271I	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	439	RGS.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			CACTGGATCTTATAAAACGTG	0.348													36	59	---	---	---	---	PASS	A	240966246	A	A	240966246	2	1	104	1	0	0	0	0	0	0	0	1	13310	1744	61	5		5	RGS7	1	240966246	Silent	SNP	T	TCGA-46-3765-01A-01D-0983-08	7468407	240966246	8284375	32	38444										
RGS7	6000	broad.mit.edu	37	chr1	241033393	241033393	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctccagtcgtgccttgttttGcattgttctcttgcagaggt	10	10	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:241033393G>T	uc001hyv.2	-	7	742	c.412C>A	c.(412-414)CAA>AAA	p.Q138K	RGS7_uc010pyh.1_Missense_Mutation_p.Q112K|RGS7_uc010pyj.1_Missense_Mutation_p.Q54K|RGS7_uc001hyu.2_Missense_Mutation_p.Q138K|RGS7_uc009xgn.1_Missense_Mutation_p.Q85K|RGS7_uc001hyw.2_Missense_Mutation_p.Q138K|RGS7_uc001hyt.2_5'Flank	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	138					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			GCCTTGTTTTGCATTGTTCTC	0.428													32	60	---	---	---	---	PASS	T	241033393	T	T	241033393	3	4	104	1	0	0	0	0	1	0	0	0	13310	1328	46	3	1099	3	RGS7	1	241033393	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	67147	241033393	8217228	33	38445										
SMYD3	64754	broad.mit.edu	37	chr1	246078937	246078937	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agcatatccaggtagcagatGgtgagctgtgcaggccagag	15	8	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:246078937G>T	uc001ibl.2	-	8	803	c.708C>A	c.(706-708)ACC>ACA	p.T236T	SMYD3_uc001ibk.2_Silent_p.T177T|SMYD3_uc001ibi.2_Silent_p.T47T|SMYD3_uc001ibj.2_Silent_p.T47T	NM_022743	NP_073580	Q9H7B4	SMYD3_HUMAN	SET and MYND domain containing 3	236	SET.					cytoplasm|nucleus	histone-lysine N-methyltransferase activity|protein binding|zinc ion binding				0	all_cancers(71;0.000291)|all_epithelial(71;0.000174)|Ovarian(71;0.0377)|all_lung(81;0.0568)|Lung NSC(105;0.0804)|Breast(184;0.173)|Melanoma(84;0.242)	all_cancers(173;0.0496)|Acute lymphoblastic leukemia(190;0.164)	OV - Ovarian serous cystadenocarcinoma(106;0.0129)	all cancers(4;0.028)|GBM - Glioblastoma multiforme(49;0.0537)		GGTAGCAGATGGTGAGCTGTG	0.473													6	53	---	---	---	---	PASS	T	246078937	T	T	246078937	2	4	104	1	0	0	0	0	0	0	0	1	14823	1335	47	3		3	SMYD3	1	246078937	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	5045544	246078937	3171684	34	38446										
NLRP3	114548	broad.mit.edu	37	chr1	247588746	247588746	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atggaccacatggtttcttcCttttgcattgagaactgtca	8	9	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:247588746C>A	uc001icr.2	+	5	2139	c.2001C>A	c.(1999-2001)TCC>TCA	p.S667S	NLRP3_uc001ics.2_Silent_p.S667S|NLRP3_uc001icu.2_Silent_p.S667S|NLRP3_uc001icw.2_Silent_p.S667S|NLRP3_uc001icv.2_Silent_p.S667S|NLRP3_uc010pyw.1_Silent_p.S665S|NLRP3_uc001ict.1_Silent_p.S665S	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	667					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			TGGTTTCTTCCTTTTGCATTG	0.512													5	36	---	---	---	---	PASS	A	247588746	A	A	247588746	2	1	104	1	0	0	0	0	0	0	0	1	10478	668	24	3		3	NLRP3	1	247588746	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	1509809	247588746	1661875	35	38447										
OR14A16	284532	broad.mit.edu	37	chr1	247978831	247978831	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	actgaaataaggcagagatcCaagaaagatagattcttcaa	8	6	2	5			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:247978831C>A	uc001idm.1	-	1	201	c.201G>T	c.(199-201)TTG>TTT	p.L67F		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGCAGAGATCCAAGAAAGATA	0.433													5	76	---	---	---	---	PASS	A	247978831	A	A	247978831	3	1	104	1	0	0	0	0	1	0	0	0	10945	593	21	3	732	3	OR14A16	1	247978831	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	390085	247978831	1271790	36	38448										
OR2L13	284521	broad.mit.edu	37	chr1	248263099	248263099	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	catgagtaaaatgatgtgtgTgaagatgattggaggctctt	13	3	1	5			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:248263099T>A	uc001ids.2	+	3	759	c.422T>A	c.(421-423)GTG>GAG	p.V141E		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			ATGATGTGTGTGAAGATGATT	0.488													41	132	---	---	---	---	PASS	A	248263099	A	A	248263099	3	1	104	1	0	0	0	0	1	0	0	0	11006	1696	59	5	424	5	OR2L13	1	248263099	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	284268	248263099	987522	37	38449										
OR2M3	127062	broad.mit.edu	37	chr1	248367107	248367107	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acttgttcctctcacctcttGgtggtgggaatgtactatgg	11	9	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:248367107G>T	uc010pzg.1	+	1	738	c.738G>T	c.(736-738)TTG>TTT	p.L246F		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CTCACCTCTTGGTGGTGGGAA	0.483													18	128	---	---	---	---	PASS	T	248367107	T	T	248367107	3	4	104	1	0	0	0	0	1	0	0	0	11011	1339	47	3	740	3	OR2M3	1	248367107	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	104008	248367107	883514	38	38450										
OR2T1	26696	broad.mit.edu	37	chr1	248570351	248570351	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gatgtgactggagctctgaaGagggccttggggaggttcaa	17	6	2	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:248570351G>T	uc010pzm.1	+	1	1056	c.1056G>T	c.(1054-1056)AAG>AAT	p.K352N		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	352	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GAGCTCTGAAGAGGGCCTTGG	0.517													7	132	---	---	---	---	PASS	T	248570351	T	T	248570351	3	4	104	1	0	0	0	0	1	0	0	0	11016	933	33	2	1058	2	OR2T1	1	248570351	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	203244	248570351	680270	39	38451										
OR2T27	403239	broad.mit.edu	37	chr1	248814146	248814146	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gttgctgaacaaacccagaaGgataaagtcggcatacacgg	11	9	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr1:248814146G>A	uc010pzo.1	-	1	40	c.40C>T	c.(40-42)CTT>TTT	p.L14F		NM_001001824	NP_001001824	Q8NH04	O2T27_HUMAN	olfactory receptor, family 2, subfamily T,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;1.15e-05)|all_epithelial(71;5.29e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.089)|Lung NSC(105;0.0969)|Melanoma(84;0.199)	all_cancers(173;0.237)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AAACCCAGAAGGATAAAGTCG	0.448													8	41	---	---	---	---	PASS	A	248814146	A	A	248814146	3	1	104	1	0	0	0	0	1	0	0	0	11021	1000	35	3	916	3	OR2T27	1	248814146	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	243795	248814146	436475	40	38452										
TSSC1	7260	broad.mit.edu	37	chr2	3197910	3197910	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aggtcccgcaccagctgtccGtgggcattctctatgcagta	11	13	1	0	rs148611386	by1000genomes	TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:3197910G>T	uc002qxj.2	-	7	874	c.681C>A	c.(679-681)CAC>CAA	p.H227Q	TSSC1_uc002qxi.2_RNA	NM_003310	NP_003301	Q53HC9	TSSC1_HUMAN	tumor suppressing subtransferable candidate 1	227	WD 3.						protein binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.212)		OV - Ovarian serous cystadenocarcinoma(76;0.00877)|Epithelial(75;0.0283)|all cancers(51;0.0464)		CCAGCTGTCCGTGGGCATTCT	0.507													4	87	---	---	---	---	PASS	T	3197910	T	T	3197910	3	4	104	1	0	0	0	0	1	0	0	0	16663	1136	40	1	494	1	TSSC1	2	3197910	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08		3197910	240001463	41	38453										
DDX1	1653	broad.mit.edu	37	chr2	15770902	15770902	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tatttgtgtgtgatgcaggtGgaagctataaaggccatgtg	14	4	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:15770902G>T	uc002rce.2	+	26	2383	c.2095G>T	c.(2095-2097)GGA>TGA	p.G699*		NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	699	Necessary for interaction with HNRNPK.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		TGATGCAGGTGGAAGCTATAA	0.403													7	175	---	---	---	---	PASS	T	15770902	T	T	15770902	4	4	104	1	0	0	0	0	0	1	0	0	4341	1349	47	3	2197	3	DDX1	2	15770902	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	12572992	15770902	227428471	42	38454										
APOB	338	broad.mit.edu	37	chr2	21255260	21255260	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gctcagcgcatacaaggtggCtcggctgcgctgatccctcg	13	14	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:21255260C>A	uc002red.2	-	10	1446	c.1318G>T	c.(1318-1320)GCC>TCC	p.A440S		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	440	Vitellogenin.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TACAAGGTGGCTCGGCTGCGC	0.562													31	48	---	---	---	---	PASS	A	21255260	A	A	21255260	3	1	104	1	0	0	0	0	1	0	0	0	785	797	28	3	12453	3	APOB	2	21255260	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	5484358	21255260	221944113	43	38455										
C2orf71	388939	broad.mit.edu	37	chr2	29296003	29296003	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gacttccattcttcgggctcTggtgcaaggtcccagctggt	12	12	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:29296003T>C	uc002rmt.1	-	1	1125	c.1125A>G	c.(1123-1125)CCA>CCG	p.P375P		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	375					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						CTTCGGGCTCTGGTGCAAGGT	0.577													12	39	---	---	---	---	PASS	C	29296003	C	C	29296003	2	2	104	1	0	0	0	0	0	0	0	1	2191	1567	55	5		5	C2orf71	2	29296003	Silent	SNP	T	TCGA-46-3765-01A-01D-0983-08	8040743	29296003	213903370	44	38456										
NLRC4	58484	broad.mit.edu	37	chr2	32449823	32449823	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtttttcagagggttctttcCaaaaaatgcacctgggtaaa	9	7	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:32449823C>A	uc002roi.2	-	9	3040	c.2794G>T	c.(2794-2796)GGA>TGA	p.G932*	NLRC4_uc002roj.1_Nonsense_Mutation_p.G932*|NLRC4_uc010ezt.1_Nonsense_Mutation_p.G267*	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	932	LRR 11.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					GGGTTCTTTCCAAAAAATGCA	0.328													5	55	---	---	---	---	PASS	A	32449823	A	A	32449823	4	1	104	1	0	0	0	0	0	1	0	0	10469	603	21	3	284	3	NLRC4	2	32449823	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3153820	32449823	210749550	45	38457										
LTBP1	4052	broad.mit.edu	37	chr2	33246006	33246006	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tccgccatgtcagaatggagGgatgtgtctccggccacaac	12	12	2	1	rs148571124		TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:33246006G>T	uc002ros.2	+	3	596	c.596G>T	c.(595-597)GGG>GTG	p.G199V		NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	199	EGF-like 1.				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CAGAATGGAGGGATGTGTCTC	0.488													9	259	---	---	---	---	PASS	T	33246006	T	T	33246006	3	4	104	1	0	0	0	0	1	0	0	0	9073	1232	43	3	606	3	LTBP1	2	33246006	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	796183	33246006	209953367	46	38458										
HEATR5B	54497	broad.mit.edu	37	chr2	37283723	37283723	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atagaggaaggatcatgctcCagagccccacttccagaggc	11	12	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:37283723C>A	uc002rpp.1	-	16	2355	c.2259G>T	c.(2257-2259)CTG>CTT	p.L753L		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	753							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				GATCATGCTCCAGAGCCCCAC	0.448													6	139	---	---	---	---	PASS	A	37283723	A	A	37283723	2	1	104	1	0	0	0	0	0	0	0	1	7032	581	21	3		3	HEATR5B	2	37283723	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	4037717	37283723	205915650	47	38459										
GALM	130589	broad.mit.edu	37	chr2	38956735	38956735	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	caaggcactgcattcgacctGagaaagccagtggagcttgg	13	10	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:38956735G>T	uc002rqy.2	+	5	924	c.672G>T	c.(670-672)CTG>CTT	p.L224L		NM_138801	NP_620156	Q96C23	GALM_HUMAN	galactose mutarotase	224					hexose metabolic process	cytoplasm	aldose 1-epimerase activity|carbohydrate binding				0		all_hematologic(82;0.248)				CATTCGACCTGAGAAAGCCAG	0.443													6	110	---	---	---	---	PASS	T	38956735	T	T	38956735	2	4	104	1	0	0	0	0	0	0	0	1	6205	1277	45	2		2	GALM	2	38956735	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	1673012	38956735	204242638	48	38460										
C2orf61	285051	broad.mit.edu	37	chr2	47357337	47357337	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	taataagtatataattacctGgaagcatatttgggaactgg	9	4	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:47357337G>T	uc002rvs.2	-	4	589	c.462C>A	c.(460-462)TCC>TCA	p.S154S	C2orf61_uc010fbd.2_RNA|C2orf61_uc010yog.1_Silent_p.S154S	NM_173649	NP_775920	Q8N801	CB061_HUMAN	hypothetical protein LOC285051 isoform 2	154											0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)			ATAATTACCTGGAAGCATATT	0.403													6	60	---	---	---	---	PASS	T	47357337	T	T	47357337	2	4	104	1	0	0	0	0	0	0	0	1	2180	1335	47	3		3	C2orf61	2	47357337	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	8400602	47357337	195842036	49	38461										
NRXN1	9378	broad.mit.edu	37	chr2	50318467	50318467	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	attcacttgcttacctgcagGgtagcgctcgatcactggcc	10	13	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:50318467G>T	uc010fbp.2	-	3	1414	c.607C>A	c.(607-609)CCT>ACT	p.P203T	NRXN1_uc002rxb.3_Missense_Mutation_p.P910T|NRXN1_uc010fbq.2_Missense_Mutation_p.P1278T|NRXN1_uc002rxe.3_Missense_Mutation_p.P1238T	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	203	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TTACCTGCAGGGTAGCGCTCG	0.448													9	176	---	---	---	---	PASS	T	50318467	T	T	50318467	3	4	104	1	0	0	0	0	1	0	0	0	10665	1232	43	3	831	3	NRXN1	2	50318467	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2961130	50318467	192880906	50	38462										
ERLEC1	27248	broad.mit.edu	37	chr2	54036405	54036405	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcaaacatgtacatcaatacCatgaggtatagaatagcatt	7	7	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:54036405C>A	uc002rxl.2	+	10	1376	c.1096C>A	c.(1096-1098)CAT>AAT	p.H366N	ASB3_uc002rxi.3_Intron|ERLEC1_uc002rxm.2_Missense_Mutation_p.H366N|ERLEC1_uc002rxn.2_Missense_Mutation_p.H312N	NM_015701	NP_056516	Q96DZ1	ERLEC_HUMAN	erlectin isoform 1	366	PRKCSH 2.				ER-associated protein catabolic process	endoplasmic reticulum lumen	glycoprotein binding|protein binding			ovary(2)	2						ACATCAATACCATGAGGTATA	0.318													5	78	---	---	---	---	PASS	A	54036405	A	A	54036405	3	1	104	1	0	0	0	0	1	0	0	0	5231	594	21	3	1134	3	ERLEC1	2	54036405	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3717938	54036405	189162968	51	38463										
PUS10	150962	broad.mit.edu	37	chr2	61194650	61194650	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccaatacctttccatcaatgGgaacacccagttcctctgaa	5	14	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:61194650G>T	uc010fci.2	-	6	662	c.602C>A	c.(601-603)CCC>CAC	p.P201H	PUS10_uc002sao.2_Missense_Mutation_p.P201H|PUS10_uc010ypk.1_5'UTR	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	201					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)			TCCATCAATGGGAACACCCAG	0.383													7	153	---	---	---	---	PASS	T	61194650	T	T	61194650	3	4	104	1	0	0	0	0	1	0	0	0	12831	1232	43	3	1039	3	PUS10	2	61194650	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	7158245	61194650	182004723	52	38464										
PUS10	150962	broad.mit.edu	37	chr2	61194689	61194689	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaaacagggggtgagttatcCatttgtaggcttcttttagc	11	6	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:61194689C>A	uc010fci.2	-	6	623	c.563G>T	c.(562-564)TGG>TTG	p.W188L	PUS10_uc002sao.2_Missense_Mutation_p.W188L|PUS10_uc010ypk.1_5'UTR	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	188					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)			GTGAGTTATCCATTTGTAGGC	0.363													8	208	---	---	---	---	PASS	A	61194689	A	A	61194689	3	1	104	1	0	0	0	0	1	0	0	0	12831	595	21	3	1078	3	PUS10	2	61194689	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	39	61194689	182004684	53	38465										
ALMS1	7840	broad.mit.edu	37	chr2	73678881	73678881	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgaaagtttcagctgttcctCaaccagctgaccagaagact	8	11	2	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:73678881C>T	uc002sje.1	+	10	5341	c.5230C>T	c.(5230-5232)CAA>TAA	p.Q1744*	ALMS1_uc002sjf.1_Nonsense_Mutation_p.Q1700*|ALMS1_uc002sjg.2_Nonsense_Mutation_p.Q1130*|ALMS1_uc002sjh.1_Nonsense_Mutation_p.Q1130*	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1742	34 X 47 AA approximate tandem repeat.|26.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AGCTGTTCCTCAACCAGCTGA	0.428													12	133	---	---	---	---	PASS	T	73678881	T	T	73678881	4	4	104	1	0	0	0	0	0	1	0	0	535	827	29	2	5254	2	ALMS1	2	73678881	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	12484192	73678881	169520492	54	38466										
ALMS1	7840	broad.mit.edu	37	chr2	73717021	73717021	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	catttcaaagtttggaattcCttgcagttaaaaagtcattc	6	7	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:73717021C>A	uc002sje.1	+	12	8049	c.7938C>A	c.(7936-7938)TCC>TCA	p.S2646S	ALMS1_uc002sjf.1_Silent_p.S2602S|ALMS1_uc002sjg.2_Silent_p.S2032S|ALMS1_uc002sjh.1_Silent_p.S2032S	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2644					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TTTGGAATTCCTTGCAGTTAA	0.423													6	79	---	---	---	---	PASS	A	73717021	A	A	73717021	2	1	104	1	0	0	0	0	0	0	0	1	535	668	24	3		3	ALMS1	2	73717021	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	38140	73717021	169482352	55	38467										
DNAH6	1768	broad.mit.edu	37	chr2	84775477	84775477	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atgagttgcccacttatggaGactctgagaaaatgacatat	9	7	1	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:84775477G>T	uc010fgb.2	+	8	1389	c.1252G>T	c.(1252-1254)GAC>TAC	p.D418Y	DNAH6_uc002soo.2_5'UTR|DNAH6_uc002sop.2_5'UTR	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	418	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1						CACTTATGGAGACTCTGAGAA	0.368													24	51	---	---	---	---	PASS	T	84775477	T	T	84775477	3	4	104	1	0	0	0	0	1	0	0	0	4605	942	33	2	1278	2	DNAH6	2	84775477	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	11058456	84775477	158423896	56	38468										
USP39	10713	broad.mit.edu	37	chr2	85850862	85850862	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cctcaagttttactgccttcCagacaactatgagatcatcg	6	12	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:85850862C>A	uc002sqe.2	+	4	563	c.527C>A	c.(526-528)CCA>CAA	p.P176Q	USP39_uc002sqb.2_5'UTR|USP39_uc010ysu.1_Missense_Mutation_p.P98Q|USP39_uc010ysv.1_Missense_Mutation_p.P73Q|USP39_uc010fgn.1_Missense_Mutation_p.P176Q|USP39_uc002sqf.2_Missense_Mutation_p.P176Q|USP39_uc002sqg.2_Missense_Mutation_p.P176Q|USP39_uc010fgo.2_Missense_Mutation_p.P176Q	NM_006590	NP_006581	Q53GS9	SNUT2_HUMAN	ubiquitin specific protease 39	176	UBP-type.				spliceosome assembly|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)	1						TACTGCCTTCCAGACAACTAT	0.493													8	151	---	---	---	---	PASS	A	85850862	A	A	85850862	3	1	104	1	0	0	0	0	1	0	0	0	17067	594	21	3	541	3	USP39	2	85850862	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	1075385	85850862	157348511	57	38469										
EIF2AK3	9451	broad.mit.edu	37	chr2	88885387	88885387	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gatgaggatggaaaagcctgCgcacaataaacgttgttgct	12	7	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:88885387C>T	uc002stc.3	-	9	1824	c.1622G>A	c.(1621-1623)CGC>CAC	p.R541H		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	541	Cytoplasmic (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						GAAAAGCCTGCGCACAATAAA	0.308													16	41	---	---	---	---	PASS	T	88885387	T	T	88885387	3	4	104	1	0	0	0	0	1	0	0	0	4998	768	27	1	1764	1	EIF2AK3	2	88885387	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3034525	88885387	154313986	58	38470										
TMEM131	23505	broad.mit.edu	37	chr2	98412760	98412760	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tttaaagccatatccttcacAtgagtatccactgatttcaa	4	10	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:98412760A>C	uc002syh.3	-	28	3350	c.3121T>G	c.(3121-3123)TGT>GGT	p.C1041G		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1041						integral to membrane				ovary(4)|central_nervous_system(2)	6						TATCCTTCACATGAGTATCCA	0.303													4	7	---	---	---	---	PASS	C	98412760	C	C	98412760	3	2	104	1	0	0	0	0	1	0	0	0	16041	217	8	5	2586	5	TMEM131	2	98412760	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	9527373	98412760	144786613	59	38471										
IMP4	92856	broad.mit.edu	37	chr2	131103469	131103469	+	Missense_Mutation	SNP	T	C	C													0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtcggaggccaagccccaccTcatcacacacggcttctcct							TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:131103469T>C	uc002tra.1	+	6	574	c.557T>C	c.(556-558)CTC>CCC	p.L186P		NM_033416	NP_219484	Q96G21	IMP4_HUMAN	IMP4, U3 small nucleolar ribonucleoprotein,	186	Brix.				rRNA processing|translation	nucleolus|ribonucleoprotein complex	aminoacyl-tRNA ligase activity|ATP binding|protein binding			central_nervous_system(2)	2	Colorectal(110;0.1)					AAGCCCCACCTCATCACACAC	0.637													5	25	---	---	---	---	PASS	C	131103469	C	C	131103469	3	2	104	1	0	0	0	0	1	0	0	0	7720	1551	54	5	579	5	IMP4	2	131103469	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	32690709	131103469	112095904	60	38472	722	2								
IMP4	92856	broad.mit.edu	37	chr2	131103470	131103470	+	Silent	SNP	C	T	T													0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcggaggccaagccccacctCatcacacacggcttctcctc							TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:131103470C>T	uc002tra.1	+	6	575	c.558C>T	c.(556-558)CTC>CTT	p.L186L		NM_033416	NP_219484	Q96G21	IMP4_HUMAN	IMP4, U3 small nucleolar ribonucleoprotein,	186	Brix.				rRNA processing|translation	nucleolus|ribonucleoprotein complex	aminoacyl-tRNA ligase activity|ATP binding|protein binding			central_nervous_system(2)	2	Colorectal(110;0.1)					AGCCCCACCTCATCACACACG	0.637													5	26	---	---	---	---	PASS	T	131103470	T	T	131103470	2	4	104	1	0	0	0	0	0	0	0	1	7720	813	29	2		2	IMP4	2	131103470	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	1	131103470	112095903	61	38473	722	2								
LRP1B	53353	broad.mit.edu	37	chr2	141081591	141081591	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atttttaggtcctgctccatAtatataatcttcaaagatat	4	7	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:141081591A>T	uc002tvj.1	-	81	13357	c.12385T>A	c.(12385-12387)TAT>AAT	p.Y4129N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4129	Extracellular (Potential).				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)		CCTGCTCCATATATATAATCT	0.294										TSP Lung(27;0.18)			34	36	---	---	---	---	PASS	T	141081591	T	T	141081591	3	4	104	1	0	0	0	0	1	0	0	0	8955	449	16	5	1458	5	LRP1B	2	141081591	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	9978121	141081591	102117782	62	38474										
TANK	10010	broad.mit.edu	37	chr2	162087607	162087607	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcacatctgtcacaccaagaGgactgtgcagagatgaggaa	11	9	3	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:162087607G>T	uc002ubr.1	+	7	804	c.646G>T	c.(646-648)GGA>TGA	p.G216*	TANK_uc002ubs.2_Nonsense_Mutation_p.G216*	NM_004180	NP_004171	Q92844	TANK_HUMAN	TRAF interacting protein TANK isoform a	216						cytosol	metal ion binding|protein binding			ovary(1)	1						CACACCAAGAGGACTGTGCAG	0.403													6	91	---	---	---	---	PASS	T	162087607	T	T	162087607	4	4	104	1	0	0	0	0	0	1	0	0	15543	1001	35	3	701	3	TANK	2	162087607	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	21006016	162087607	81111766	63	38475										
GORASP2	26003	broad.mit.edu	37	chr2	171822450	171822450	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gctgtcttccctcccgcccaCcagcaacgcaccctccgacc	6	23	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:171822450C>G	uc002ugk.2	+	10	1309	c.1169C>G	c.(1168-1170)ACC>AGC	p.T390S	GORASP2_uc002ugj.2_Missense_Mutation_p.T322S|GORASP2_uc010zdl.1_Missense_Mutation_p.T402S|GORASP2_uc010zdm.1_Missense_Mutation_p.T346S|GORASP2_uc002ugl.2_Missense_Mutation_p.T322S|GORASP2_uc002ugm.2_Missense_Mutation_p.T172S	NM_015530	NP_056345	Q9H8Y8	GORS2_HUMAN	golgi reassembly stacking protein 2	390						Golgi membrane				breast(1)|central_nervous_system(1)	2						CTCCCGCCCACCAGCAACGCA	0.637													8	38	---	---	---	---	PASS	G	171822450	G	G	171822450	3	3	104	1	0	0	0	0	1	0	0	0	6576	507	18	4	1207	4	GORASP2	2	171822450	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	9734843	171822450	71376923	64	38476										
SP3	6670	broad.mit.edu	37	chr2	174777852	174777852	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acttcgagtaaatcttttacCacagtacatccagttacaaa	4	10	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:174777852C>A	uc002uig.2	-	6	2139	c.1975G>T	c.(1975-1977)GGT>TGT	p.G659C	SP3_uc002uie.2_Missense_Mutation_p.G591C|SP3_uc002uif.2_Missense_Mutation_p.G606C|SP3_uc010zel.1_Missense_Mutation_p.G656C	NM_003111	NP_003102	Q02447	SP3_HUMAN	Sp3 transcription factor isoform 1	659	C2H2-type 2.				negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	protein binding|zinc ion binding		EWSR1/SP3(3)	soft_tissue(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.185)			AATCTTTTACCACAGTACATC	0.398													5	67	---	---	---	---	PASS	A	174777852	A	A	174777852	3	1	104	1	0	0	0	0	1	0	0	0	14965	594	21	3	378	3	SP3	2	174777852	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	2955402	174777852	68421521	65	38477										
NFE2L2	4780	broad.mit.edu	37	chr2	178098957	178098957	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tacttctcgacttactccaaGatctatatcttgcctccaaa	3	13	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:178098957G>A	uc002ulh.3	-	2	643	c.88C>T	c.(88-90)CTT>TTT	p.L30F	NFE2L2_uc002ulg.3_Missense_Mutation_p.L14F|NFE2L2_uc010zfa.1_Missense_Mutation_p.L14F|NFE2L2_uc002uli.3_Missense_Mutation_p.L14F|NFE2L2_uc010fra.2_Missense_Mutation_p.L14F|NFE2L2_uc010frb.2_Missense_Mutation_p.L14F	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	30					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			CTTACTCCAAGATCTATATCT	0.368			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			11	102	---	---	---	---	PASS	A	178098957	A	A	178098957	3	1	104	1	0	0	0	0	1	0	0	0	10368	942	33	2	1745	2	NFE2L2	2	178098957	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	3321105	178098957	65100416	66	38478										
TTN	7273	broad.mit.edu	37	chr2	179407938	179407938	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tctaggactgtgggttttaaGgtgacaaccttcatccatct	9	9	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:179407938G>T	uc010zfg.1	-	296	89282	c.89058C>A	c.(89056-89058)ACC>ACA	p.T29686T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.T23381T|TTN_uc010zfi.1_Silent_p.T23314T|TTN_uc010zfj.1_Silent_p.T23189T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30613							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)			TGGGTTTTAAGGTGACAACCT	0.448													14	504	---	---	---	---	PASS	T	179407938	T	T	179407938	2	4	104	1	0	0	0	0	0	0	0	1	16732	987	35	3		3	TTN	2	179407938	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	1308981	179407938	63791435	67	38479										
TTN	7273	broad.mit.edu	37	chr2	179416982	179416982	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agggtgatgactgtaatgggGactgcaattctacacactgc	12	8	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:179416982G>T	uc010zfg.1	-	284	83165	c.82941C>A	c.(82939-82941)GTC>GTA	p.V27647V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.V21342V|TTN_uc010zfi.1_Silent_p.V21275V|TTN_uc010zfj.1_Silent_p.V21150V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28574							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)			CTGTAATGGGGACTGCAATTC	0.408													22	233	---	---	---	---	PASS	T	179416982	T	T	179416982	2	4	104	1	0	0	0	0	0	0	0	1	16732	1161	41	2		2	TTN	2	179416982	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	9044	179416982	63782391	68	38480										
TTN	7273	broad.mit.edu	37	chr2	179438954	179438954	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gttggccttcagccaccgtcCattaggaaggtctctctttt	9	12	3	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:179438954C>A	uc010zfg.1	-	275	64425	c.64201G>T	c.(64201-64203)GGA>TGA	p.G21401*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.G15096*|TTN_uc010zfi.1_Nonsense_Mutation_p.G15029*|TTN_uc010zfj.1_Nonsense_Mutation_p.G14904*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22328							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)			AGCCACCGTCCATTAGGAAGG	0.413													18	102	---	---	---	---	PASS	A	179438954	A	A	179438954	4	1	104	1	0	0	0	0	0	1	0	0	16732	603	21	3	36222	3	TTN	2	179438954	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	21972	179438954	63760419	69	38481										
TTN	7273	broad.mit.edu	37	chr2	179604870	179604870	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctgcactttctttattgccaCgggctctcttttagactcaa	6	12	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:179604870C>T	uc010zfh.1	-	46	12801	c.12577G>A	c.(12577-12579)GTG>ATG	p.V4193M	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.V4126M|TTN_uc010zfj.1_Missense_Mutation_p.V4001M|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TTTATTGCCACGGGCTCTCTT	0.448													33	163	---	---	---	---	PASS	T	179604870	T	T	179604870	3	4	104	1	0	0	0	0	1	0	0	0	16732	536	19	1	91699	1	TTN	2	179604870	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	165916	179604870	63594503	70	38482										
TTN	7273	broad.mit.edu	37	chr2	179611618	179611618	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttggctcaatggcttcattgGgtgtaccaaatgaatcggaa	11	7	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:179611618G>T	uc002unb.2	-	46	15733	c.15509C>A	c.(15508-15510)CCC>CAC	p.P5170H	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			GGCTTCATTGGGTGTACCAAA	0.408													8	184	---	---	---	---	PASS	T	179611618	T	T	179611618	3	4	104	1	0	0	0	0	1	0	0	0	16732	1232	43	3	94788	3	TTN	2	179611618	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	6748	179611618	63587755	71	38483										
TTN	7273	broad.mit.edu	37	chr2	179614291	179614291	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aatgtgcccttacagattctCcctggtcttgcagttgctga	9	11	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:179614291C>A	uc002unb.2	-	46	13060	c.12836G>T	c.(12835-12837)GGA>GTA	p.G4279V	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TACAGATTCTCCCTGGTCTTG	0.373													21	93	---	---	---	---	PASS	A	179614291	A	A	179614291	3	1	104	1	0	0	0	0	1	0	0	0	16732	855	30	2	97461	2	TTN	2	179614291	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	2673	179614291	63585082	72	38484										
CCDC141	285025	broad.mit.edu	37	chr2	179736207	179736207	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcgtagatctaaaatgaactGgaggctccctccgaggtcaa	10	10	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:179736207G>T	uc002unf.1	-	4	484	c.427C>A	c.(427-429)CAG>AAG	p.Q143K		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	143							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			AAAATGAACTGGAGGCTCCCT	0.388													10	289	---	---	---	---	PASS	T	179736207	T	T	179736207	3	4	104	1	0	0	0	0	1	0	0	0	2775	1357	47	3	2240	3	CCDC141	2	179736207	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	121916	179736207	63463166	73	38485										
COL5A2	1290	broad.mit.edu	37	chr2	189927594	189927594	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acacaaaaatcacataccggCgggcccacaggaccagaagg	10	13	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:189927594C>A	uc002uqk.2	-	29	2249	c.1974G>T	c.(1972-1974)CCG>CCT	p.P658P	COL5A2_uc010frx.2_Silent_p.P234P	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	658					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			CACATACCGGCGGGCCCACAG	0.398													4	66	---	---	---	---	PASS	A	189927594	A	A	189927594	2	1	104	1	0	0	0	0	0	0	0	1	3697	755	27	1		1	COL5A2	2	189927594	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	10191387	189927594	53271779	74	38486										
HIBCH	26275	broad.mit.edu	37	chr2	191117026	191117026	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	taacctccacccacatcaggGaacagtcctgtaattaaatg	6	12	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:191117026G>T	uc002uru.2	-	8	608	c.525C>A	c.(523-525)TTC>TTA	p.F175L	HIBCH_uc002urv.2_Missense_Mutation_p.F175L	NM_014362	NP_055177	Q6NVY1	HIBCH_HUMAN	3-hydroxyisobutyryl-Coenzyme A hydrolase isoform	175					branched chain family amino acid catabolic process	mitochondrial matrix	3-hydroxyisobutyryl-CoA hydrolase activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000586)|Epithelial(96;0.0286)|all cancers(119;0.0814)			CCACATCAGGGAACAGTCCTG	0.363													13	22	---	---	---	---	PASS	T	191117026	T	T	191117026	3	4	104	1	0	0	0	0	1	0	0	0	7100	1165	41	2	663	2	HIBCH	2	191117026	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1189432	191117026	52082347	75	38487										
DNAH7	56171	broad.mit.edu	37	chr2	196636525	196636525	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctcatggcagcctcgatgtcGaagttgtttggaagtttgcc	12	9	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:196636525G>A	uc002utj.3	-	61	11393	c.11292C>T	c.(11290-11292)TTC>TTT	p.F3764F	DNAH7_uc002uti.3_Silent_p.F247F	NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3764					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CCTCGATGTCGAAGTTGTTTG	0.448													16	150	---	---	---	---	PASS	A	196636525	A	A	196636525	2	1	104	1	0	0	0	0	0	0	0	1	4606	1049	37	2		2	DNAH7	2	196636525	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	5519499	196636525	46562848	76	38488										
CCDC150	284992	broad.mit.edu	37	chr2	197541356	197541356	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agaacagctgtgcaaaaagaGctgctagaatcaactattgc	9	8	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:197541356G>A	uc002utp.1	+	12	1476	c.1341G>A	c.(1339-1341)GAG>GAA	p.E447E	CCDC150_uc010zgq.1_RNA|CCDC150_uc010zgr.1_RNA|CCDC150_uc010zgs.1_Silent_p.E115E	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150	447	Potential.										0						TGCAAAAAGAGCTGCTAGAAT	0.428													23	68	---	---	---	---	PASS	A	197541356	A	A	197541356	2	1	104	1	0	0	0	0	0	0	0	1	2785	962	34	3		3	CCDC150	2	197541356	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	904831	197541356	45658017	77	38489										
PLCL1	5334	broad.mit.edu	37	chr2	198948853	198948853	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tatgagtctctggacctagtTgccaattcagcagatgtggc	11	9	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:198948853T>G	uc010fsp.2	+	2	903	c.612T>G	c.(610-612)GTT>GTG	p.V204V	PLCL1_uc002uuv.3_Silent_p.V125V	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	204	PH.|Interaction with PPP1C.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TGGACCTAGTTGCCAATTCAG	0.478													12	79	---	---	---	---	PASS	G	198948853	G	G	198948853	2	3	104	1	0	0	0	0	0	0	0	1	12039	1799	63	5		5	PLCL1	2	198948853	Silent	SNP	T	TCGA-46-3765-01A-01D-0983-08	1407497	198948853	44250520	78	38490										
SPATS2L	26010	broad.mit.edu	37	chr2	201337626	201337626	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgcctctgctgaatgcgcacGcagcaacctctgggaaacag	11	13	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:201337626G>T	uc002uvn.3	+	12	1484	c.1132G>T	c.(1132-1134)GCA>TCA	p.A378S	SPATS2L_uc010fst.2_Missense_Mutation_p.A378S|SPATS2L_uc002uvo.3_Missense_Mutation_p.A318S|SPATS2L_uc002uvp.3_Missense_Mutation_p.A378S|SPATS2L_uc002uvq.3_Missense_Mutation_p.A309S|SPATS2L_uc002uvr.3_Missense_Mutation_p.A378S|SPATS2L_uc010zhc.1_Missense_Mutation_p.A408S	NM_015535	NP_056350	Q9NUQ6	SPS2L_HUMAN	SPATS2-like protein isoform a	378						cytoplasm|nucleolus				ovary(2)|pancreas(1)	3						GAATGCGCACGCAGCAACCTC	0.478													6	62	---	---	---	---	PASS	T	201337626	T	T	201337626	3	4	104	1	0	0	0	0	1	0	0	0	15019	1087	38	1	1170	1	SPATS2L	2	201337626	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2388773	201337626	41861747	79	38491										
AOX1	316	broad.mit.edu	37	chr2	201507519	201507519	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccaaatgtggactatcccctGagaaggtaatactaaatcag	8	9	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:201507519G>C	uc002uvx.2	+	25	2943	c.2842G>C	c.(2842-2844)GAG>CAG	p.E948Q	AOX1_uc010zhf.1_Missense_Mutation_p.E504Q|AOX1_uc010fsu.2_Missense_Mutation_p.E314Q	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	948					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	ACTATCCCCTGAGAAGGTAAT	0.323													7	43	---	---	---	---	PASS	C	201507519	C	C	201507519	3	2	104	1	0	0	0	0	1	0	0	0	729	1291	45	2	2940	2	AOX1	2	201507519	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	169893	201507519	41691854	80	38492										
MAP2	4133	broad.mit.edu	37	chr2	210557999	210557999	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccaaagatagttttaaaattGaagagccccatgaggctaaa	8	7	0	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:210557999G>A	uc002vde.1	+	7	1353	c.1105G>A	c.(1105-1107)GAA>AAA	p.E369K	MAP2_uc002vdc.1_Missense_Mutation_p.E369K|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.E365K	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	369					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)	TTTTAAAATTGAAGAGCCCCA	0.458													9	48	---	---	---	---	PASS	A	210557999	A	A	210557999	3	1	104	1	0	0	0	0	1	0	0	0	9235	1291	45	2	1119	2	MAP2	2	210557999	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	9050480	210557999	32641374	81	38493										
ERBB4	2066	broad.mit.edu	37	chr2	212251789	212251789	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcaccctgtgccacaggagcTtctggaattgtgctagttgg	13	10	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:212251789T>G	uc002veg.1	-	27	3368	c.3270A>C	c.(3268-3270)GAA>GAC	p.E1090D	ERBB4_uc002veh.1_Missense_Mutation_p.E1074D|ERBB4_uc010zji.1_Missense_Mutation_p.E1080D|ERBB4_uc010zjj.1_Missense_Mutation_p.E1064D	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1090	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CCACAGGAGCTTCTGGAATTG	0.502										TSP Lung(8;0.080)			9	112	---	---	---	---	PASS	G	212251789	G	G	212251789	3	3	104	1	0	0	0	0	1	0	0	0	5209	1606	56	5	664	5	ERBB4	2	212251789	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	1693790	212251789	30947584	82	38494										
FN1	2335	broad.mit.edu	37	chr2	216274800	216274800	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgtaggagtttaagtggcctGgtatggtagcttccttccaa	12	7	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr2:216274800G>T	uc002vfa.2	-	14	2245	c.1979C>A	c.(1978-1980)CCA>CAA	p.P660Q	FN1_uc002vfb.2_Missense_Mutation_p.P660Q|FN1_uc002vfc.2_Missense_Mutation_p.P660Q|FN1_uc002vfd.2_Missense_Mutation_p.P660Q|FN1_uc002vfe.2_Missense_Mutation_p.P660Q|FN1_uc002vff.2_Missense_Mutation_p.P660Q|FN1_uc002vfg.2_Missense_Mutation_p.P660Q|FN1_uc002vfh.2_Missense_Mutation_p.P660Q|FN1_uc002vfi.2_Missense_Mutation_p.P660Q|FN1_uc002vfj.2_Missense_Mutation_p.P660Q	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	660	Fibronectin type-III 1.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TAAGTGGCCTGGTATGGTAGC	0.403													5	17	---	---	---	---	PASS	T	216274800	T	T	216274800	3	4	104	1	0	0	0	0	1	0	0	0	5962	1348	47	3	5586	3	FN1	2	216274800	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	4023011	216274800	26924573	83	38495										
THUMPD3	25917	broad.mit.edu	37	chr3	9406810	9406810	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atgtgaaccttcatgagaacCagaagtctgtacaagtgaca	9	8	2	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr3:9406810C>A	uc003bro.3	+	2	206	c.58C>A	c.(58-60)CAG>AAG	p.Q20K	LOC440944_uc003brm.2_Intron|THUMPD3_uc003brn.3_Missense_Mutation_p.Q20K	NM_001114092	NP_001107564	Q9BV44	THUM3_HUMAN	THUMP domain containing 3	20							methyltransferase activity|protein binding|RNA binding			ovary(1)	1	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.101)		TCATGAGAACCAGAAGTCTGT	0.453													5	78	---	---	---	---	PASS	A	9406810	A	A	9406810	3	1	104	1	0	0	0	0	1	0	0	0	15881	595	21	3	60	3	THUMPD3	3	9406810	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08		9406810	188615620	84	38496										
ZFYVE20	64145	broad.mit.edu	37	chr3	15116107	15116107	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccgctgcaggtcctcctcctCagcctgcctccgggacagct	10	19	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr3:15116107C>T	uc003bzm.1	-	14	2151	c.1537G>A	c.(1537-1539)GAG>AAG	p.E513K	ZFYVE20_uc010hek.1_Missense_Mutation_p.E513K	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	513	UIM.|Potential.|Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						TCCTCCTCCTCAGCCTGCCTC	0.612													30	34	---	---	---	---	PASS	T	15116107	T	T	15116107	3	4	104	1	0	0	0	0	1	0	0	0	17663	835	29	2	821	2	ZFYVE20	3	15116107	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	5709297	15116107	182906323	85	38497										
CADPS	8618	broad.mit.edu	37	chr3	62452069	62452069	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tttcttcaattagttcgtctAtttttgaatggtattgatgc	7	5	3	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr3:62452069A>G	uc003dll.2	-	25	3857	c.3497T>C	c.(3496-3498)ATA>ACA	p.I1166T	CADPS_uc003dlj.1_Missense_Mutation_p.I121T|CADPS_uc003dlk.1_Missense_Mutation_p.I614T|CADPS_uc003dlm.2_Missense_Mutation_p.I1127T|CADPS_uc003dln.2_Missense_Mutation_p.I1087T	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	1166					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		TAGTTCGTCTATTTTTGAATG	0.358													12	19	---	---	---	---	PASS	G	62452069	G	G	62452069	3	3	104	1	0	0	0	0	1	0	0	0	2570	449	16	5	588	5	CADPS	3	62452069	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	47335962	62452069	135570361	86	38498										
SUCLG2	8801	broad.mit.edu	37	chr3	67426195	67426195	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttggccacactggccacagcCttcttggctgcatcctccag	9	16	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr3:67426195C>A	uc003dna.3	-	11	1300	c.1272G>T	c.(1270-1272)AAG>AAT	p.K424N	SUCLG2_uc010hob.2_Missense_Mutation_p.K171N	NM_003848	NP_003839	Q96I99	SUCB2_HUMAN	succinate-CoA ligase, GDP-forming beta subunit	424					succinyl-CoA metabolic process|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|GTP binding|succinate-CoA ligase (GDP-forming) activity			central_nervous_system(1)|skin(1)	2		Renal(2;0.00294)|Lung NSC(201;0.012)|Hepatocellular(537;0.121)		BRCA - Breast invasive adenocarcinoma(55;3.53e-05)|Epithelial(33;0.000153)	Succinic acid(DB00139)	TGGCCACAGCCTTCTTGGCTG	0.488													12	15	---	---	---	---	PASS	A	67426195	A	A	67426195	3	1	104	1	0	0	0	0	1	0	0	0	15364	680	24	3	174	3	SUCLG2	3	67426195	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	4974126	67426195	130596235	87	38499										
GXYLT2	727936	broad.mit.edu	37	chr3	72971411	72971411	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gagcacagaatctaccccatCacattttctgttggaaaccc	6	13	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr3:72971411C>T	uc003dpg.2	+	3	525	c.525C>T	c.(523-525)ATC>ATT	p.I175I		NM_001080393	NP_001073862	A0PJZ3	GXLT2_HUMAN	glycosyltransferase 8 domain containing 4	175	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						TCTACCCCATCACATTTTCTG	0.453													58	118	---	---	---	---	PASS	T	72971411	T	T	72971411	2	4	104	1	0	0	0	0	0	0	0	1	6904	816	29	2		2	GXYLT2	3	72971411	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	5545216	72971411	125051019	88	38500										
EPHA3	2042	broad.mit.edu	37	chr3	89521662	89521662	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aatgtggatatcactaccttCcgcacaacaggtgactggct	9	11	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr3:89521662C>T	uc003dqy.2	+	16	2964	c.2739C>T	c.(2737-2739)TTC>TTT	p.F913F	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	913	Cytoplasmic (Potential).|SAM.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		TCACTACCTTCCGCACAACAG	0.468										TSP Lung(6;0.00050)			23	77	---	---	---	---	PASS	T	89521662	T	T	89521662	2	4	104	1	0	0	0	0	0	0	0	1	5168	854	30	2		2	EPHA3	3	89521662	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	16550251	89521662	108500768	89	38501										
BBX	56987	broad.mit.edu	37	chr3	107429440	107429440	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atttttcagaagaggaagaaGaggaagacgaagaggaggat	15	2	1	6			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr3:107429440G>T	uc010hpr.2	+	4	460	c.133G>T	c.(133-135)GAG>TAG	p.E45*	BBX_uc003dwk.3_Nonsense_Mutation_p.E45*|BBX_uc003dwl.3_Nonsense_Mutation_p.E45*|BBX_uc010hps.1_Nonsense_Mutation_p.E66*|BBX_uc003dwm.3_Nonsense_Mutation_p.E45*	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	45	Poly-Glu.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			agaggaagaagaggaagacga	0.294													5	47	---	---	---	---	PASS	T	107429440	T	T	107429440	4	4	104	1	0	0	0	0	0	1	0	0	1343	943	33	2	135	2	BBX	3	107429440	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	17907778	107429440	90592990	90	38502										
CASR	846	broad.mit.edu	37	chr3	121973103	121973103	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acacctctgcctacgggccaGaccagcgagcccaaaagaag	10	15	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr3:121973103G>A	uc003eev.3	+	2	439	c.67G>A	c.(67-69)GAC>AAC	p.D23N	CASR_uc003eew.3_Missense_Mutation_p.D23N	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	23	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	CTACGGGCCAGACCAGCGAGC	0.537													34	117	---	---	---	---	PASS	A	121973103	A	A	121973103	3	1	104	1	0	0	0	0	1	0	0	0	2682	942	33	2	69	2	CASR	3	121973103	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	14543663	121973103	76049327	91	38503										
TOPBP1	11073	broad.mit.edu	37	chr3	133362168	133362168	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tactggaactggtgtgaagaGaggattcgactttggatcaa	13	5	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr3:133362168G>A	uc003eps.2	-	12	2029	c.1897C>T	c.(1897-1899)CTC>TTC	p.L633F		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	633	BRCT 4.				DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						GGTGTGAAGAGAGGATTCGAC	0.373								Other_conserved_DNA_damage_response_genes					5	66	---	---	---	---	PASS	A	133362168	A	A	133362168	3	1	104	1	0	0	0	0	1	0	0	0	16366	942	33	2	2739	2	TOPBP1	3	133362168	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	11389065	133362168	64660262	92	38504										
TMEM44	93109	broad.mit.edu	37	chr3	194309345	194309345	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acattttctttgctgccttcGaggttcacatcttcagggtc	8	11	4	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr3:194309345G>T	uc010hzn.2	-	11	1510	c.1341C>A	c.(1339-1341)CTC>CTA	p.L447L	TMEM44_uc010hzm.2_3'UTR|TMEM44_uc003fuc.2_Silent_p.L132L|TMEM44_uc003fue.2_Silent_p.L400L|TMEM44_uc003fud.2_Silent_p.L411L|TMEM44_uc003fuf.2_3'UTR|TMEM44_uc011bsv.1_Silent_p.L410L|uc003fug.2_5'Flank	NM_001011655	NP_001011655	Q2T9K0	TMM44_HUMAN	transmembrane protein 44 isoform b	447	Cytoplasmic (Potential).					integral to membrane					0	all_cancers(143;1.41e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;9.06e-06)		TGCTGCCTTCGAGGTTCACAT	0.507													6	124	---	---	---	---	PASS	T	194309345	T	T	194309345	2	4	104	1	0	0	0	0	0	0	0	1	16165	1045	37	2		2	TMEM44	3	194309345	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	60947177	194309345	3713085	93	38505										
HTT	3064	broad.mit.edu	37	chr4	3105586	3105586	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aatcttccaaggttacagctCgagctctataaggaaattaa	7	8	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:3105586C>A	uc011bvq.1	+	5	655	c.510C>A	c.(508-510)CTC>CTA	p.L170L		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	168					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GGTTACAGCTCGAGCTCTATA	0.294													4	92	---	---	---	---	PASS	A	3105586	A	A	3105586	2	1	104	1	0	0	0	0	0	0	0	1	7457	871	31	2		2	HTT	4	3105586	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08		3105586	188048690	94	38506										
BOD1L	259282	broad.mit.edu	37	chr4	13604824	13604824	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tctatgaacagtttcagaatCtatattcacttcagtagttc	5	8	5	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:13604824C>G	uc003gmz.1	-	10	3817	c.3700G>C	c.(3700-3702)GAT>CAT	p.D1234H	BOD1L_uc010idr.1_Missense_Mutation_p.D571H	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1234							DNA binding			ovary(5)|breast(1)	6						GTTTCAGAATCTATATTCACT	0.393													25	68	---	---	---	---	PASS	G	13604824	G	G	13604824	3	3	104	1	0	0	0	0	1	0	0	0	1483	913	32	2	5523	2	BOD1L	4	13604824	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	10499238	13604824	177549452	95	38507										
LDB2	9079	broad.mit.edu	37	chr4	16900050	16900050	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtaccatgtatggtgtatgcCtcctataaaatgggccgaaa	10	8	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:16900050C>G	uc003goz.2	-	1	375	c.59G>C	c.(58-60)AGG>ACG	p.R20T	LDB2_uc003gpa.2_Missense_Mutation_p.R20T|LDB2_uc003gpb.2_Missense_Mutation_p.R20T|LDB2_uc011bxh.1_Missense_Mutation_p.R20T|LDB2_uc010iee.2_Missense_Mutation_p.R20T	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	20							LIM domain binding|transcription cofactor activity				0						TGGTGTATGCCTCCTATAAAA	0.453													8	48	---	---	---	---	PASS	G	16900050	G	G	16900050	3	3	104	1	0	0	0	0	1	0	0	0	8696	681	24	4	1203	4	LDB2	4	16900050	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3295226	16900050	174254226	96	38508										
CORIN	10699	broad.mit.edu	37	chr4	47667122	47667122	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggtgcaagaaaagaacatgaGgtatttataacagttggttt	11	3	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:47667122G>T	uc003gxm.2	-	11	1609	c.1516C>A	c.(1516-1518)CTC>ATC	p.L506I	CORIN_uc011bzf.1_Missense_Mutation_p.L367I|CORIN_uc011bzg.1_Missense_Mutation_p.L439I|CORIN_uc011bzh.1_Missense_Mutation_p.L469I|CORIN_uc011bzi.1_Missense_Mutation_p.L469I	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	506	Extracellular (Potential).|FZ 2.				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						AAGAACATGAGGTATTTATAA	0.423													6	100	---	---	---	---	PASS	T	47667122	T	T	47667122	3	4	104	1	0	0	0	0	1	0	0	0	3752	1000	35	3	1660	3	CORIN	4	47667122	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	30767072	47667122	143487154	97	38509										
AFP	174	broad.mit.edu	37	chr4	74301996	74301996	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaccatgaagtgggtggaatCaatttttttaattttcctac	7	6	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:74301996C>T	uc003hgz.1	+	1	64	c.17C>T	c.(16-18)TCA>TTA	p.S6L	AFP_uc003hha.1_Missense_Mutation_p.S6L|AFP_uc003hgy.1_Intron	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	6					transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TGGGTGGAATCAATTTTTTTA	0.318									Alpha-Fetoprotein_Hereditary_Persistence_of				7	40	---	---	---	---	PASS	T	74301996	T	T	74301996	3	4	104	1	0	0	0	0	1	0	0	0	363	838	29	2	19	2	AFP	4	74301996	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	26634874	74301996	116852280	98	38510										
AFP	174	broad.mit.edu	37	chr4	74302032	74302032	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cctactaaattttactgaatCcagaacactgcatagaaatg	5	9	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:74302032C>G	uc003hgz.1	+	1	100	c.53C>G	c.(52-54)TCC>TGC	p.S18C	AFP_uc003hha.1_Missense_Mutation_p.S18C|AFP_uc003hgy.1_Intron	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	18					transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TTTACTGAATCCAGAACACTG	0.284									Alpha-Fetoprotein_Hereditary_Persistence_of				6	33	---	---	---	---	PASS	G	74302032	G	G	74302032	3	3	104	1	0	0	0	0	1	0	0	0	363	855	30	2	55	2	AFP	4	74302032	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	36	74302032	116852244	99	38511										
AREG	374	broad.mit.edu	37	chr4	75312365	75312365	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctcaagaagtgagatgtcttCagggagtgagatttcccctg	12	8	3	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:75312365C>T	uc011cbl.1	+	2	386	c.176C>T	c.(175-177)TCA>TTA	p.S59L		NM_001657	NP_001648	P15514	AREG_HUMAN	amphiregulin preproprotein	59					cell proliferation|cell-cell signaling|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|positive regulation of DNA replication	cell surface|extracellular space|integral to membrane	cytokine activity|growth factor activity				0			Lung(101;0.196)			GAGATGTCTTCAGGGAGTGAG	0.483													47	33	---	---	---	---	PASS	T	75312365	T	T	75312365	3	4	104	1	0	0	0	0	1	0	0	0	843	838	29	2	182	2	AREG	4	75312365	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	1010333	75312365	115841911	100	38512										
COPS4	51138	broad.mit.edu	37	chr4	83996472	83996472	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cgagaagccctgccaacgtgGgataagcagatccaatcact	10	12	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:83996472G>T	uc003hoa.2	+	10	1249	c.1110G>T	c.(1108-1110)TGG>TGT	p.W370C	COPS4_uc003hob.2_Nonsense_Mutation_p.G420*|COPS4_uc010ijw.2_Missense_Mutation_p.W402C|COPS4_uc010ijx.2_Missense_Mutation_p.G342V	NM_016129	NP_057213	Q9BT78	CSN4_HUMAN	COP9 signalosome subunit 4	370					cullin deneddylation	cytoplasm|signalosome	protein binding			kidney(1)	1		Hepatocellular(203;0.114)				TGCCAACGTGGGATAAGCAGA	0.383													5	41	---	---	---	---	PASS	T	83996472	T	T	83996472	3	4	104	1	0	0	0	0	1	0	0	0	3735	1241	43	3	1148	3	COPS4	4	83996472	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	8684107	83996472	107157804	101	38513										
PTPN13	5783	broad.mit.edu	37	chr4	87690984	87690984	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	taggattcagtttttctcgaGaagataatcttataccggag	9	6	3	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:87690984G>A	uc003hpz.2	+	29	5032	c.4552G>A	c.(4552-4554)GAA>AAA	p.E1518K	PTPN13_uc003hpy.2_Missense_Mutation_p.E1523K|PTPN13_uc003hqa.2_Missense_Mutation_p.E1499K|PTPN13_uc003hqb.2_Missense_Mutation_p.E1327K|PTPN13_uc003hqc.1_5'UTR	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1518	PDZ 3.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		TTTTTCTCGAGAAGATAATCT	0.318													6	57	---	---	---	---	PASS	A	87690984	A	A	87690984	3	1	104	1	0	0	0	0	1	0	0	0	12782	943	33	2	4677	2	PTPN13	4	87690984	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	3694512	87690984	103463292	102	38514										
AFF1	4299	broad.mit.edu	37	chr4	87967424	87967424	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctgaaaagattcccctttttGgagagccctacaaggtattt	8	9	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:87967424G>T	uc003hqj.3	+	2	531	c.124G>T	c.(124-126)GGA>TGA	p.G42*	AFF1_uc011ccx.1_Intron|AFF1_uc003hqh.1_Nonsense_Mutation_p.G49*|AFF1_uc011ccy.1_Nonsense_Mutation_p.G49*|AFF1_uc011ccz.1_Nonsense_Mutation_p.G49*|AFF1_uc003hqk.3_Nonsense_Mutation_p.G42*|AFF1_uc011cda.1_Intron	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	42						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		TCCCCTTTTTGGAGAGCCCTA	0.408													7	130	---	---	---	---	PASS	T	87967424	T	T	87967424	4	4	104	1	0	0	0	0	0	1	0	0	356	1349	47	3	172	3	AFF1	4	87967424	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	276440	87967424	103186852	103	38515										
HERC6	55008	broad.mit.edu	37	chr4	89317227	89317227	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agctgggatacagccccactCctgagaagagaggtccacaa	11	12	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:89317227C>A	uc011cdi.1	+	6	1003	c.820C>A	c.(820-822)CCT>ACT	p.P274T	HERC6_uc003hrp.1_RNA|HERC6_uc011cdj.1_Missense_Mutation_p.P274T|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	274	RCC1 5.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		CAGCCCCACTCCTGAGAAGAG	0.428													21	53	---	---	---	---	PASS	A	89317227	A	A	89317227	3	1	104	1	0	0	0	0	1	0	0	0	7062	855	30	2	639	2	HERC6	4	89317227	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	1349803	89317227	101837049	104	38516										
TBCK	93627	broad.mit.edu	37	chr4	107229955	107229955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cctagaaatatccacatactGgcagagtctgggatgggtga	12	8	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:107229955G>T	uc010ilv.2	-	2	528	c.163C>A	c.(163-165)CAG>AAG	p.Q55K	TBCK_uc003hye.2_Missense_Mutation_p.Q55K|TBCK_uc003hyc.2_Missense_Mutation_p.Q55K|TBCK_uc003hyd.2_5'UTR|TBCK_uc003hyf.2_Missense_Mutation_p.Q55K	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like	55	Protein kinase.					intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						TCCACATACTGGCAGAGTCTG	0.363													5	65	---	---	---	---	PASS	T	107229955	T	T	107229955	3	4	104	1	0	0	0	0	1	0	0	0	15633	1357	47	3	2618	3	TBCK	4	107229955	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	17912728	107229955	83924321	105	38517										
C4orf31	79625	broad.mit.edu	37	chr4	121966917	121966917	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	catctgaaaaagttcctcatCccgggtgggtaacttctggg	11	10	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:121966917C>T	uc003idq.1	-	2	603	c.76G>A	c.(76-78)GAT>AAT	p.D26N		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	26											0						AGTTCCTCATCCCGGGTGGGT	0.478													13	18	---	---	---	---	PASS	T	121966917	T	T	121966917	3	4	104	1	0	0	0	0	1	0	0	0	2261	855	30	2	1642	2	C4orf31	4	121966917	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	14736962	121966917	69187359	106	38518										
BBS7	55212	broad.mit.edu	37	chr4	122782823	122782823	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atcttcggcccgggtaaagtCttgaacactgcctgaaaaaa	9	10	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:122782823C>A	uc003ied.2	-	4	351	c.177G>T	c.(175-177)AAG>AAT	p.K59N	BBS7_uc003iee.1_Missense_Mutation_p.K59N|BBS7_uc010inq.1_Missense_Mutation_p.K15N	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	59					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						CGGGTAAAGTCTTGAACACTG	0.373									Bardet-Biedl_syndrome				7	14	---	---	---	---	PASS	A	122782823	A	A	122782823	3	1	104	1	0	0	0	0	1	0	0	0	1341	912	32	2	2039	2	BBS7	4	122782823	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	815906	122782823	68371453	107	38519										
KIAA1109	84162	broad.mit.edu	37	chr4	123246404	123246404	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gttctcgagtaggagaaactGaagagctcccagaaatccgt	11	9	1	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:123246404G>A	uc003ieh.2	+	63	10969	c.10924G>A	c.(10924-10926)GAA>AAA	p.E3642K	KIAA1109_uc003iel.1_Missense_Mutation_p.E1577K|KIAA1109_uc003iem.2_Missense_Mutation_p.E12K	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3642					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGGAGAAACTGAAGAGCTCCC	0.338													6	38	---	---	---	---	PASS	A	123246404	A	A	123246404	3	1	104	1	0	0	0	0	1	0	0	0	8208	1291	45	2	11174	2	KIAA1109	4	123246404	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	463581	123246404	67907872	108	38520										
TKTL2	84076	broad.mit.edu	37	chr4	164393214	164393214	+	Missense_Mutation	SNP	C	G	G													0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cctccactgtgataactcggCcgcctgtggcttttgcactg							TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:164393214C>G	uc003iqp.3	-	1	1834	c.1673G>C	c.(1672-1674)GGC>GCC	p.G558A		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	558						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				GATAACTCGGCCGCCTGTGGC	0.507													15	27	---	---	---	---	PASS	G	164393214	G	G	164393214	3	3	104	1	0	0	0	0	1	0	0	0	15933	739	26	4	211	4	TKTL2	4	164393214	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	41146810	164393214	26761062	109	38521	723	2								
TKTL2	84076	broad.mit.edu	37	chr4	164393215	164393215	+	Missense_Mutation	SNP	C	A	A													0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctccactgtgataactcggcCgcctgtggcttttgcactgg							TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:164393215C>A	uc003iqp.3	-	1	1833	c.1672G>T	c.(1672-1674)GGC>TGC	p.G558C		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	558						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				ATAACTCGGCCGCCTGTGGCT	0.507													15	31	---	---	---	---	PASS	A	164393215	A	A	164393215	3	1	104	1	0	0	0	0	1	0	0	0	15933	652	23	1	212	1	TKTL2	4	164393215	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	1	164393215	26761061	110	38522	723	2								
FBXO8	26269	broad.mit.edu	37	chr4	175160165	175160165	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	caggactaaggccaagttctCgcattaaatcagggttgcaa	10	9	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:175160165C>A	uc003itp.2	-	5	1602	c.752G>T	c.(751-753)CGA>CTA	p.R251L	FBXO8_uc003itq.2_Missense_Mutation_p.R210L	NM_012180	NP_036312	Q9NRD0	FBX8_HUMAN	F-box only protein 8	251	SEC7.				regulation of ARF protein signal transduction|ubiquitin-dependent protein catabolic process	cytoplasm|ubiquitin ligase complex	ARF guanyl-nucleotide exchange factor activity			breast(2)	2		Prostate(90;0.00201)|Melanoma(52;0.012)|Renal(120;0.0183)|all_neural(102;0.0887)|all_hematologic(60;0.107)		all cancers(43;7.29e-18)|Epithelial(43;1.85e-15)|OV - Ovarian serous cystadenocarcinoma(60;5.62e-09)|GBM - Glioblastoma multiforme(59;0.00115)|STAD - Stomach adenocarcinoma(60;0.00299)|LUSC - Lung squamous cell carcinoma(193;0.1)		GCCAAGTTCTCGCATTAAATC	0.388													4	20	---	---	---	---	PASS	A	175160165	A	A	175160165	3	1	104	1	0	0	0	0	1	0	0	0	5761	884	31	2	215	2	FBXO8	4	175160165	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	10766950	175160165	15994111	111	38523										
ADAM29	11086	broad.mit.edu	37	chr4	175899083	175899083	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aacctcctgtgacaccctccCagaggcaacctcagttgatg	8	15	1	3	rs141115697		TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:175899083C>T	uc003iuc.2	+	5	3077	c.2407C>T	c.(2407-2409)CAG>TAG	p.Q803*	ADAM29_uc003iud.2_Nonsense_Mutation_p.Q803*|ADAM29_uc010irr.2_Nonsense_Mutation_p.Q803*|ADAM29_uc011cki.1_Nonsense_Mutation_p.Q803*	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	803	8.|Cytoplasmic (Potential).|9 X 9 AA approximate repeats.				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		GACACCCTCCCAGAGGCAACC	0.567													16	49	---	---	---	---	PASS	T	175899083	T	T	175899083	4	4	104	1	0	0	0	0	0	1	0	0	247	595	21	3	2409	3	ADAM29	4	175899083	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	738918	175899083	15255193	112	38524										
ADAM29	11086	broad.mit.edu	37	chr4	175899130	175899130	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cagagtcaacctcctgtgacGccctcctagagccaacctca	7	17	2	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:175899130G>A	uc003iuc.2	+	5	3124	c.2454G>A	c.(2452-2454)ACG>ACA	p.T818T	ADAM29_uc003iud.2_Silent_p.T818T|ADAM29_uc010irr.2_Silent_p.T818T|ADAM29_uc011cki.1_Silent_p.T818T	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	818	Cytoplasmic (Potential).|9 X 9 AA approximate repeats.|9.				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		CTCCTGTGACGCCCTCCTAGA	0.587													11	44	---	---	---	---	PASS	A	175899130	A	A	175899130	2	1	104	1	0	0	0	0	0	0	0	1	247	1074	38	1		1	ADAM29	4	175899130	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	47	175899130	15255146	113	38525										
SORBS2	8470	broad.mit.edu	37	chr4	186545420	186545420	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cgtcgtttaggagatcgtcaCagctccgggatttgattttg	12	8	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr4:186545420C>A	uc003iyl.2	-	13	2009	c.1151G>T	c.(1150-1152)TGT>TTT	p.C384F	SORBS2_uc003iyh.2_Intron|SORBS2_uc011ckw.1_Intron|SORBS2_uc003iyi.2_Intron|SORBS2_uc011ckx.1_Intron|SORBS2_uc003iyk.2_Intron|SORBS2_uc003iym.2_Missense_Mutation_p.C484F|SORBS2_uc003iyn.1_Intron|SORBS2_uc011cku.1_Intron|SORBS2_uc011ckv.1_Missense_Mutation_p.C288F|SORBS2_uc003iyd.2_Intron|SORBS2_uc003iye.2_Intron|SORBS2_uc003iya.2_Intron|SORBS2_uc003iyb.2_Intron|SORBS2_uc003iyc.2_Intron|SORBS2_uc003iyg.2_Missense_Mutation_p.C498F|SORBS2_uc003iyf.2_Intron|SORBS2_uc003iyo.1_Intron	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	384						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		GAGATCGTCACAGCTCCGGGA	0.537													5	12	---	---	---	---	PASS	A	186545420	A	A	186545420	3	1	104	1	0	0	0	0	1	0	0	0	14928	478	17	3	2187	3	SORBS2	4	186545420	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	10646290	186545420	4608856	114	38526										
SLC45A2	51151	broad.mit.edu	37	chr5	33947345	33947345	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggtgctggacattacaccaaAcaggctgcacaggaccaggg	13	11	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:33947345A>G	uc003jid.2	-	6	1383	c.1291T>C	c.(1291-1293)TTT>CTT	p.F431L	SLC45A2_uc003jie.2_Missense_Mutation_p.F431L	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	431	Helical; Name=10; (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						ATTACACCAAACAGGCTGCAC	0.512													47	247	---	---	---	---	PASS	G	33947345	G	G	33947345	3	3	104	1	0	0	0	0	1	0	0	0	14641	43	2	5	324	5	SLC45A2	5	33947345	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08		33947345	146967915	115	38527										
SLC1A3	6507	broad.mit.edu	37	chr5	36677103	36677103	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggccatggagactcttacccGaatcacagaggagctggtcc	12	12	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:36677103G>A	uc003jkj.3	+	6	1153	c.677G>A	c.(676-678)CGA>CAA	p.R226Q	SLC1A3_uc011cox.1_Missense_Mutation_p.R119Q|SLC1A3_uc010iuy.2_Missense_Mutation_p.R226Q	NM_004172	NP_004163	P43003	EAA1_HUMAN	solute carrier family 1 (glial high affinity	226	Extracellular (Potential).				D-aspartate import|L-glutamate import|neurotransmitter uptake	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0	all_lung(31;0.000245)		Epithelial(62;0.0444)|Lung(74;0.111)|all cancers(62;0.128)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)		L-Glutamic Acid(DB00142)	ACTCTTACCCGAATCACAGAG	0.488													10	87	---	---	---	---	PASS	A	36677103	A	A	36677103	3	1	104	1	0	0	0	0	1	0	0	0	14433	1058	37	2	712	2	SLC1A3	5	36677103	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2729758	36677103	144238157	116	38528										
NIPBL	25836	broad.mit.edu	37	chr5	37017247	37017247	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaatggatcaaggatctataGaacgcattttaaaacaggta	8	5	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:37017247G>A	uc003jkl.3	+	24	5402	c.4903G>A	c.(4903-4905)GAA>AAA	p.E1635K	NIPBL_uc003jkk.3_Missense_Mutation_p.E1635K	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1635					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			AGGATCTATAGAACGCATTTT	0.333													10	49	---	---	---	---	PASS	A	37017247	A	A	37017247	3	1	104	1	0	0	0	0	1	0	0	0	10428	943	33	2	4993	2	NIPBL	5	37017247	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	340144	37017247	143898013	117	38529										
OSMR	9180	broad.mit.edu	37	chr5	38881856	38881856	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agcaactggagttcctgggaGgaagtcagtggtaagaagtg	16	5	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:38881856G>T	uc003jln.1	+	4	775	c.408G>T	c.(406-408)GAG>GAT	p.E136D	OSMR_uc003jlm.1_Missense_Mutation_p.E136D	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	136	Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					GTTCCTGGGAGGAAGTCAGTG	0.418													7	121	---	---	---	---	PASS	T	38881856	T	T	38881856	3	4	104	1	0	0	0	0	1	0	0	0	11292	991	35	3	418	3	OSMR	5	38881856	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1864609	38881856	142033404	118	38530										
CARD6	84674	broad.mit.edu	37	chr5	40843654	40843654	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gaagatgcagaagccactgtGgaagaggaggtttatgatga	15	4	0	5			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:40843654G>T	uc003jmg.2	+	2	759	c.684G>T	c.(682-684)GTG>GTT	p.V228V		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	228	Asp/Glu-rich.				apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						AAGCCACTGTGGAAGAGGAGG	0.433													5	66	---	---	---	---	PASS	T	40843654	T	T	40843654	2	4	104	1	0	0	0	0	0	0	0	1	2650	1335	47	3		3	CARD6	5	40843654	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	1961798	40843654	140071606	119	38531										
FBXO4	26272	broad.mit.edu	37	chr5	41927172	41927172	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctcatgatctgtgtcagttgGgaagtacaaatcattattgg	10	6	4	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:41927172G>T	uc003jmq.2	+	2	303	c.247G>T	c.(247-249)GGA>TGA	p.G83*	FBXO4_uc003jmp.2_Nonsense_Mutation_p.G83*|FBXO4_uc003jmr.2_Nonsense_Mutation_p.G83*	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	83	F-box.				positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)				GTGTCAGTTGGGAAGTACAAA	0.373													7	134	---	---	---	---	PASS	T	41927172	T	T	41927172	4	4	104	1	0	0	0	0	0	1	0	0	5748	1233	43	3	253	3	FBXO4	5	41927172	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1083518	41927172	138988088	120	38532										
NNT	23530	broad.mit.edu	37	chr5	43659273	43659273	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgatttgattgttgttctagGgtgtgactttgacagctgct	12	5	1	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:43659273G>T	uc003joe.2	+	17	2710	c.2455G>T	c.(2455-2457)GGT>TGT	p.G819C	NNT_uc003jof.2_Missense_Mutation_p.G819C	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	819	Helical; (Potential).				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	GTTGTTCTAGGGTGTGACTTT	0.413													7	160	---	---	---	---	PASS	T	43659273	T	T	43659273	3	4	104	1	0	0	0	0	1	0	0	0	10510	1246	43	3	2517	3	NNT	5	43659273	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1732101	43659273	137255987	121	38533										
HCN1	348980	broad.mit.edu	37	chr5	45461983	45461983	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agacacccagcaatctggtgGgaagtcctgcagtagtggta	13	9	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:45461983G>T	uc003jok.2	-	3	1001	c.976C>A	c.(976-978)CCA>ACA	p.P326T		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	326	Extracellular (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CAATCTGGTGGGAAGTCCTGC	0.408													42	27	---	---	---	---	PASS	T	45461983	T	T	45461983	3	4	104	1	0	0	0	0	1	0	0	0	6996	1232	43	3	1720	3	HCN1	5	45461983	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1802710	45461983	135453277	122	38534										
VCAN	1462	broad.mit.edu	37	chr5	82850838	82850838	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtttgagcatgacttccgttGgactgatggcagcacactgg	13	9	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:82850838G>C	uc003kii.3	+	12	10072	c.9716G>C	c.(9715-9717)TGG>TCG	p.W3239S	VCAN_uc003kij.3_Missense_Mutation_p.W2252S|VCAN_uc010jau.2_Missense_Mutation_p.W1485S|VCAN_uc003kik.3_Missense_Mutation_p.W498S|VCAN_uc003kil.3_Missense_Mutation_p.W1903S	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3239	C-type lectin.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GACTTCCGTTGGACTGATGGC	0.413													6	18	---	---	---	---	PASS	C	82850838	C	C	82850838	3	2	104	1	0	0	0	0	1	0	0	0	17135	1357	47	4	9758	4	VCAN	5	82850838	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	37388855	82850838	98064422	123	38535										
MEGF10	84466	broad.mit.edu	37	chr5	126734484	126734484	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atgctcttgcccttctggctGgatggtaagcttccttccca	9	13	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:126734484G>T	uc003kuh.3	+	8	1138	c.776G>T	c.(775-777)TGG>TTG	p.W259L	MEGF10_uc010jdc.1_Missense_Mutation_p.W259L|MEGF10_uc010jdd.1_Missense_Mutation_p.W259L|MEGF10_uc003kui.3_Missense_Mutation_p.W259L	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	259	Extracellular (Potential).|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.|EGF-like 4.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		CCTTCTGGCTGGATGGTAAGC	0.507													19	19	---	---	---	---	PASS	T	126734484	T	T	126734484	3	4	104	1	0	0	0	0	1	0	0	0	9460	1357	47	3	798	3	MEGF10	5	126734484	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	43883646	126734484	54180776	124	38536										
MEGF10	84466	broad.mit.edu	37	chr5	126769147	126769147	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atggggcttcatgctcccctGatgatggcatctgcgagtgt	13	10	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:126769147G>T	uc003kuh.3	+	15	2148	c.1786G>T	c.(1786-1788)GAT>TAT	p.D596Y	MEGF10_uc003kui.3_Missense_Mutation_p.D596Y	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	596	Extracellular (Potential).|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.|EGF-like 11.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		ATGCTCCCCTGATGATGGCAT	0.562													14	24	---	---	---	---	PASS	T	126769147	T	T	126769147	3	4	104	1	0	0	0	0	1	0	0	0	9460	1290	45	2	1836	2	MEGF10	5	126769147	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	34663	126769147	54146113	125	38537										
PCDHA3	56145	broad.mit.edu	37	chr5	140181452	140181452	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtgggaaaccagagctcactGgcacgactcaactaaagatc	10	11	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:140181452G>A	uc003lhf.2	+	1	670	c.670G>A	c.(670-672)GGC>AGC	p.G224S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.G224S	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	224	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAGCTCACTGGCACGACTCA	0.403													15	31	---	---	---	---	PASS	A	140181452	A	A	140181452	3	1	104	1	0	0	0	0	1	0	0	0	11525	1348	47	3	672	3	PCDHA3	5	140181452	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	13412305	140181452	40733808	126	38538										
PCDHA12	56137	broad.mit.edu	37	chr5	140255775	140255775	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tggatgtgaatgacaatggtCcggcgtttgataagcccagc	13	8	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:140255775C>T	uc003lic.2	+	1	845	c.718C>T	c.(718-720)CCG>TCG	p.P240S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.P240S	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	240	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGACAATGGTCCGGCGTTTGA	0.428													18	51	---	---	---	---	PASS	T	140255775	T	T	140255775	3	4	104	1	0	0	0	0	1	0	0	0	11522	855	30	2	720	2	PCDHA12	5	140255775	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	74323	140255775	40659485	127	38539										
SH3RF2	153769	broad.mit.edu	37	chr5	145428766	145428766	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cgtctccttggtcaccgggcGagtcggcatcttcccaaaca	10	15	3	0	rs146377978		TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:145428766G>T	uc003lnt.2	+	7	1518	c.1280G>T	c.(1279-1281)CGA>CTA	p.R427L	SH3RF2_uc011dbl.1_Missense_Mutation_p.R427L|SH3RF2_uc011dbm.1_5'Flank|SH3RF2_uc003lnu.2_5'Flank	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	427	SH3 3.						ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GTCACCGGGCGAGTCGGCATC	0.612											OREG0016895	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	23	---	---	---	---	PASS	T	145428766	T	T	145428766	3	4	104	1	0	0	0	0	1	0	0	0	14259	1058	37	2	1302	2	SH3RF2	5	145428766	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	5172991	145428766	35486494	128	38540										
JAKMIP2	9832	broad.mit.edu	37	chr5	147023671	147023671	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctcaatgacctgaagttttaGaaactctgtttcttgttctt	6	8	4	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr5:147023671G>C	uc003loq.1	-	7	1556	c.1174C>G	c.(1174-1176)CTA>GTA	p.L392V	JAKMIP2_uc011dbx.1_Missense_Mutation_p.L350V|JAKMIP2_uc003lor.1_Missense_Mutation_p.L392V|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.L392V	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	392	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAAGTTTTAGAAACTCTGTT	0.393													13	24	---	---	---	---	PASS	C	147023671	C	C	147023671	3	2	104	1	0	0	0	0	1	0	0	0	7941	933	33	2	1318	2	JAKMIP2	5	147023671	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1594905	147023671	33891589	129	38541										
TRIM38	10475	broad.mit.edu	37	chr6	25983517	25983517	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccaggagatttactgccttcCcctgtgtcttgggttgtgaa	11	10	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:25983517C>T	uc003nfm.2	+	8	1435	c.1000C>T	c.(1000-1002)CCC>TCC	p.P334S	TRIM38_uc003nfn.2_Missense_Mutation_p.P316S|TRIM38_uc010jqd.2_5'UTR	NM_006355	NP_006346	O00635	TRI38_HUMAN	tripartite motif-containing 38	334	B30.2/SPRY.				positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular	signal transducer activity|zinc ion binding				0						TACTGCCTTCCCCTGTGTCTT	0.478													5	81	---	---	---	---	PASS	T	25983517	T	T	25983517	3	4	104	1	0	0	0	0	1	0	0	0	16509	623	22	3	1022	3	TRIM38	6	25983517	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08		25983517	145131550	130	38542										
HIST1H1C	3006	broad.mit.edu	37	chr6	26056651	26056651	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggagcggcaggagcagtctcGgacatgttgagaatcaaaaa	14	7	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:26056651G>A	uc003nfw.2	-	1	49	c.6C>T	c.(4-6)TCC>TCT	p.S2S		NM_005319	NP_005310	P16403	H12_HUMAN	histone cluster 1, H1c	2					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)|skin(2)	5						GAGCAGTCTCGGACATGTTGA	0.612													9	10	---	---	---	---	PASS	A	26056651	A	A	26056651	2	1	104	1	0	0	0	0	0	0	0	1	7124	1103	39	1		1	HIST1H1C	6	26056651	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	73134	26056651	145058416	131	38543										
BTN2A2	10385	broad.mit.edu	37	chr6	26390287	26390287	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggccctagctgtcatcctgaCcgcatctccctggatggtgt	11	14	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:26390287C>T	uc003nhq.2	+	5	865	c.779C>T	c.(778-780)ACC>ATC	p.T260I	BTN2A2_uc011dkf.1_Missense_Mutation_p.T144I|BTN2A2_uc011dkg.1_Missense_Mutation_p.T166I|BTN2A2_uc003nhr.2_Missense_Mutation_p.T144I|BTN2A2_uc011dkh.1_Missense_Mutation_p.T50I|BTN2A2_uc003nhs.2_Missense_Mutation_p.T260I|BTN2A2_uc003nht.2_Missense_Mutation_p.T260I|BTN2A2_uc011dki.1_Missense_Mutation_p.T9I	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	260	Extracellular (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						GTCATCCTGACCGCATCTCCC	0.468													14	77	---	---	---	---	PASS	T	26390287	T	T	26390287	3	4	104	1	0	0	0	0	1	0	0	0	1561	507	18	3	793	3	BTN2A2	6	26390287	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	333636	26390287	144724780	132	38544										
BTN3A3	10384	broad.mit.edu	37	chr6	26448623	26448623	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cagggagacagaaagagagcGagagatgaaagaaatgggat	16	3	0	6	rs140949337		TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:26448623G>T	uc003nhz.2	+	6	1043	c.863G>T	c.(862-864)CGA>CTA	p.R288L	BTN3A3_uc003nia.2_Missense_Mutation_p.R246L|BTN3A3_uc011dkn.1_Missense_Mutation_p.R246L	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	288	Cytoplasmic (Potential).					integral to membrane					0						GAAAGAGAGCGAGAGATGAAA	0.493													5	58	---	---	---	---	PASS	T	26448623	T	T	26448623	3	4	104	1	0	0	0	0	1	0	0	0	1564	1058	37	2	877	2	BTN3A3	6	26448623	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	58336	26448623	144666444	133	38545										
OR14J1	442191	broad.mit.edu	37	chr6	29274478	29274478	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agagagactatggtcaatttGacttcaatgagtggattcct	10	6	2	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:29274478G>C	uc011dln.1	+	1	12	c.12G>C	c.(10-12)TTG>TTC	p.L4F		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	4	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TGGTCAATTTGACTTCAATGA	0.398													32	74	---	---	---	---	PASS	C	29274478	C	C	29274478	3	2	104	1	0	0	0	0	1	0	0	0	10948	1281	45	2	14	2	OR14J1	6	29274478	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2825855	29274478	141840589	134	38546										
TUBB	203068	broad.mit.edu	37	chr6	30691668	30691668	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttgcccctctcaccagccgtGgaagccagcagtatcgagct	10	15	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:30691668G>T	uc003nrl.2	+	4	956	c.829G>T	c.(829-831)GGA>TGA	p.G277*	TUBB_uc003nrk.1_Nonsense_Mutation_p.G277*|TUBB_uc011dmq.1_Nonsense_Mutation_p.G205*	NM_178014	NP_821133	P07437	TBB5_HUMAN	tubulin, beta	277					cellular component movement|G2/M transition of mitotic cell cycle|microtubule-based movement|natural killer cell mediated cytotoxicity|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|MHC class I protein binding			ovary(1)	1					Colchicine(DB01394)|Vinblastine(DB00570)|Vincristine(DB00541)|Vinorelbine(DB00361)	CACCAGCCGTGGAAGCCAGCA	0.587													6	66	---	---	---	---	PASS	T	30691668	T	T	30691668	4	4	104	1	0	0	0	0	0	1	0	0	16749	1349	47	3	843	3	TUBB	6	30691668	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1417190	30691668	140423399	135	38547										
SYNGAP1	8831	broad.mit.edu	37	chr6	33411229	33411229	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccaccaccatcaccaccaccGaggtggagagccccctgggg	11	18	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:33411229G>A	uc011dri.1	+	15	3095	c.2900G>A	c.(2899-2901)CGA>CAA	p.R967Q	SYNGAP1_uc010juy.2_Missense_Mutation_p.R938Q|SYNGAP1_uc010juz.2_Missense_Mutation_p.R679Q	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	967					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						caccaccaccGAGGTGGAGAG	0.562													18	71	---	---	---	---	PASS	A	33411229	A	A	33411229	3	1	104	1	0	0	0	0	1	0	0	0	15444	1058	37	2	2958	2	SYNGAP1	6	33411229	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2719561	33411229	137703838	136	38548										
PACSIN1	29993	broad.mit.edu	37	chr6	34498116	34498116	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agcaccagtggccccggcatGcccatgaactggccccagtt	11	16	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:34498116G>A	uc003ojo.2	+	7	1091	c.885G>A	c.(883-885)ATG>ATA	p.M295I	PACSIN1_uc003ojp.2_Missense_Mutation_p.M295I	NM_020804	NP_065855	Q9BY11	PACN1_HUMAN	protein kinase C and casein kinase substrate in	295					endocytosis		protein kinase activity				0						GCCCCGGCATGCCCATGAACT	0.617													12	13	---	---	---	---	PASS	A	34498116	A	A	34498116	3	1	104	1	0	0	0	0	1	0	0	0	11374	1319	46	3	907	3	PACSIN1	6	34498116	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1086887	34498116	136616951	137	38549										
CPNE5	57699	broad.mit.edu	37	chr6	36714347	36714347	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgcagggatgtggactgtgaGgggttccctgtaacacagga	16	7	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:36714347G>A	uc003omr.1	-	16	1093	c.1026C>T	c.(1024-1026)CCC>CCT	p.P342P	CPNE5_uc003omp.1_Silent_p.P50P|CPNE5_uc010jwn.1_5'UTR|CPNE5_uc003omq.1_5'UTR	NM_020939	NP_065990	Q9HCH3	CPNE5_HUMAN	copine V	342	VWFA.									skin(1)	1						TGGACTGTGAGGGGTTCCCTG	0.592													7	20	---	---	---	---	PASS	A	36714347	A	A	36714347	2	1	104	1	0	0	0	0	0	0	0	1	3815	987	35	3		3	CPNE5	6	36714347	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	2216231	36714347	134400720	138	38550										
KCNK17	89822	broad.mit.edu	37	chr6	39271746	39271746	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctctcaccaatcacgtagtcGccgaagcccacggtgctgag	10	15	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:39271746G>T	uc003ooo.2	-	4	815	c.675C>A	c.(673-675)GGC>GGA	p.G225G	KCNK17_uc003oop.2_Silent_p.G225G	NM_031460	NP_113648	Q96T54	KCNKH_HUMAN	potassium channel, subfamily K, member 17	225						integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2						TCACGTAGTCGCCGAAGCCCA	0.622													4	66	---	---	---	---	PASS	T	39271746	T	T	39271746	2	4	104	1	0	0	0	0	0	0	0	1	8064	1074	38	1		1	KCNK17	6	39271746	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	2557399	39271746	131843321	139	38551										
PEX6	5190	broad.mit.edu	37	chr6	42937458	42937458	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gagttcagacaccaaggcctCcaggcctggaggagacaaac	12	12	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:42937458C>A	uc003otf.2	-	5	1408	c.1315G>T	c.(1315-1317)GAG>TAG	p.E439*	PEX6_uc010jya.2_RNA	NM_000287	NP_000278	Q13608	PEX6_HUMAN	peroxisomal biogenesis factor 6	439					protein import into peroxisome matrix, translocation|protein stabilization	cytosol|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)	1			all cancers(41;0.00235)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0562)			ACCAAGGCCTCCAGGCCTGGA	0.547													5	61	---	---	---	---	PASS	A	42937458	A	A	42937458	4	1	104	1	0	0	0	0	0	1	0	0	11750	864	30	2	1679	2	PEX6	6	42937458	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3665712	42937458	128177609	140	38552										
CUL7	9820	broad.mit.edu	37	chr6	43008367	43008367	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgcagctccttagaggtgctCaggctctgcaacatctgctg	11	12	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:43008367C>A	uc003otq.2	-	21	4227	c.3924G>T	c.(3922-3924)CTG>CTT	p.L1308L	CUL7_uc010jyg.2_Silent_p.L587L|CUL7_uc011dvb.1_Silent_p.L1392L|CUL7_uc010jyh.2_Silent_p.L301L|KLC4_uc003otr.1_5'Flank	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	1308					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			TAGAGGTGCTCAGGCTCTGCA	0.612													5	75	---	---	---	---	PASS	A	43008367	A	A	43008367	2	1	104	1	0	0	0	0	0	0	0	1	4060	813	29	2		2	CUL7	6	43008367	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	70909	43008367	128106700	141	38553										
XPO5	57510	broad.mit.edu	37	chr6	43534990	43534990	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agcaaacacagtatctccagGagtttacagttttcagcagt	8	9	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:43534990G>T	uc003ovp.2	-	7	961	c.750C>A	c.(748-750)CTC>CTA	p.L250L		NM_020750	NP_065801	Q9HAV4	XPO5_HUMAN	exportin 5	250					gene silencing by RNA	cytosol|nucleoplasm	protein binding|tRNA binding			skin(2)|breast(1)|kidney(1)	4	all_cancers(18;2.08e-05)|Lung NSC(15;0.000907)|all_lung(25;0.00243)		all cancers(41;0.000321)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0524)			GTATCTCCAGGAGTTTACAGT	0.453													12	49	---	---	---	---	PASS	T	43534990	T	T	43534990	2	4	104	1	0	0	0	0	0	0	0	1	17444	1161	41	2		2	XPO5	6	43534990	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	526623	43534990	127580077	142	38554										
GPR111	222611	broad.mit.edu	37	chr6	47649797	47649797	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tttgctgatggcagatgtgtGgttcattgtggcttcctttc	12	7	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:47649797G>T	uc010jzj.1	+	6	1503	c.1502G>T	c.(1501-1503)TGG>TTG	p.W501L	GPR111_uc010jzk.1_Missense_Mutation_p.W433L|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	501	Helical; Name=2; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						GCAGATGTGTGGTTCATTGTG	0.438													4	30	---	---	---	---	PASS	T	47649797	T	T	47649797	3	4	104	1	0	0	0	0	1	0	0	0	6628	1357	47	3	1316	3	GPR111	6	47649797	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	4114807	47649797	123465270	143	38555										
BAI3	577	broad.mit.edu	37	chr6	69349136	69349136	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgggagaacagaatcatgtgGgatcatgtatacaaaatgca	11	5	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:69349136G>T	uc003pev.3	+	3	1017	c.569G>T	c.(568-570)GGG>GTG	p.G190V	BAI3_uc010kak.2_Missense_Mutation_p.G190V	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	190	Extracellular (Potential).				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)				GAATCATGTGGGATCATGTAT	0.448													6	42	---	---	---	---	PASS	T	69349136	T	T	69349136	3	4	104	1	0	0	0	0	1	0	0	0	1300	1232	43	3	571	3	BAI3	6	69349136	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	21699339	69349136	101765931	144	38556										
BAI3	577	broad.mit.edu	37	chr6	69949100	69949100	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atcctcatactggttggacaGactcagacacataataaggt	8	9	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:69949100G>T	uc003pev.3	+	20	3244	c.2796G>T	c.(2794-2796)CAG>CAT	p.Q932H	BAI3_uc010kak.2_Missense_Mutation_p.Q932H|BAI3_uc011dxx.1_Missense_Mutation_p.Q138H|BAI3_uc003pex.1_Missense_Mutation_p.Q62H	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	932	Extracellular (Potential).				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)				TGGTTGGACAGACTCAGACAC	0.333													5	62	---	---	---	---	PASS	T	69949100	T	T	69949100	3	4	104	1	0	0	0	0	1	0	0	0	1300	933	33	2	2866	2	BAI3	6	69949100	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	599964	69949100	101165967	145	38557										
CD109	135228	broad.mit.edu	37	chr6	74440235	74440235	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	caaagcaagaagtgaagtttCgcattgttacactcttctca	7	9	2	2	rs137899447	by1000genomes	TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:74440235C>T	uc003php.2	+	4	870	c.445C>T	c.(445-447)CGC>TGC	p.R149C	CD109_uc010kaz.2_Missense_Mutation_p.R149C|CD109_uc003phq.2_Missense_Mutation_p.R149C|CD109_uc010kba.2_Intron	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	149						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						AGTGAAGTTTCGCATTGTTAC	0.373													7	38	---	---	---	---	PASS	T	74440235	T	T	74440235	3	4	104	1	0	0	0	0	1	0	0	0	2963	884	31	2	459	2	CD109	6	74440235	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	4491135	74440235	96674832	146	38558										
TPBG	7162	broad.mit.edu	37	chr6	83075567	83075567	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcctggacaacaatccctggGtctgcgactgccacatggca	10	14	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:83075567G>A	uc003pjn.3	+	3	1825	c.889G>A	c.(889-891)GTC>ATC	p.V297I	TPBG_uc010kbj.2_Missense_Mutation_p.V297I|TPBG_uc003pjo.2_Missense_Mutation_p.V297I	NM_006670	NP_006661	Q13641	TPBG_HUMAN	trophoblast glycoprotein precursor	297	Extracellular (Potential).|LRRCT.				cell adhesion	integral to plasma membrane				central_nervous_system(1)	1		all_cancers(76;0.000805)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0897)		BRCA - Breast invasive adenocarcinoma(397;0.107)		CAATCCCTGGGTCTGCGACTG	0.547													15	46	---	---	---	---	PASS	A	83075567	A	A	83075567	3	1	104	1	0	0	0	0	1	0	0	0	16391	1261	44	3	891	3	TPBG	6	83075567	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	8635332	83075567	88039500	147	38559										
ME1	4199	broad.mit.edu	37	chr6	84108236	84108236	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gatccattaagagaagatacCtgtaaaaattggacataatt	7	5	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:84108236C>A	uc003pjy.2	-	3	319	c.213_splice	c.e3-1	p.R71_splice	ME1_uc011dzb.1_Splice_Site|ME1_uc011dzc.1_Intron	NM_002395	NP_002386	P48163	MAOX_HUMAN	cytosolic malic enzyme 1						carbohydrate metabolic process|cellular lipid metabolic process|malate metabolic process|NADP biosynthetic process|response to carbohydrate stimulus|response to hormone stimulus	cytosol	ADP binding|electron carrier activity|malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|manganese ion binding|NAD binding|NADP binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;1.28e-06)|Acute lymphoblastic leukemia(125;5.03e-07)|all_hematologic(105;0.000238)|all_epithelial(107;0.00218)		BRCA - Breast invasive adenocarcinoma(397;0.0641)	NADH(DB00157)	GAGAAGATACCTGTAAAAATT	0.294													5	39	---	---	---	---	PASS	A	84108236	A	A	84108236	5	1	104	1	0	0	0	0	0	0	1	0	9417	695	24	3	1554	3	ME1	6	84108236	Splice_Site	SNP	C	TCGA-46-3765-01A-01D-0983-08	1032669	84108236	87006831	148	38560										
ZNF292	23036	broad.mit.edu	37	chr6	87967475	87967475	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atcagagatgggaaatttatCtgtagcaggtgttacagggc	13	5	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:87967475C>A	uc003plm.3	+	8	4169	c.4128C>A	c.(4126-4128)ATC>ATA	p.I1376I		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1376	C2H2-type 8; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		GGAAATTTATCTGTAGCAGGT	0.458													9	23	---	---	---	---	PASS	A	87967475	A	A	87967475	2	1	104	1	0	0	0	0	0	0	0	1	17823	903	32	2		2	ZNF292	6	87967475	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	3859239	87967475	83147592	149	38561										
GABRR1	2569	broad.mit.edu	37	chr6	89888538	89888538	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgaataaaatgtatgctgctGgaaagatgatcctggagtat	11	4	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:89888538G>T	uc003pna.2	-	10	1846	c.1391C>A	c.(1390-1392)CCA>CAA	p.P464Q	GABRR1_uc011dzv.1_Missense_Mutation_p.P441Q	NM_002042	NP_002033	P24046	GBRR1_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 1	464	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|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			pancreas(1)	1		all_cancers(76;9.49e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.46e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00917)	Picrotoxin(DB00466)	GTATGCTGCTGGAAAGATGAT	0.398													5	50	---	---	---	---	PASS	T	89888538	T	T	89888538	3	4	104	1	0	0	0	0	1	0	0	0	6176	1348	47	3	52	3	GABRR1	6	89888538	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1921063	89888538	81226529	150	38562										
MDN1	23195	broad.mit.edu	37	chr6	90428724	90428724	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acgggtgaggaacacagctcCcacgggaaaggactgagtag	15	9	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:90428724C>A	uc003pnn.1	-	42	6199	c.6083G>T	c.(6082-6084)GGG>GTG	p.G2028V		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2028					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)		AACACAGCTCCCACGGGAAAG	0.517													7	36	---	---	---	---	PASS	A	90428724	A	A	90428724	3	1	104	1	0	0	0	0	1	0	0	0	9415	623	22	3	10951	3	MDN1	6	90428724	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	540186	90428724	80686343	151	38563										
SLC22A16	85413	broad.mit.edu	37	chr6	110763720	110763720	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gatgtcaactattttttgtgCttcttcatatcgtccctctg	6	10	4	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:110763720C>T	uc003puf.2	-	4	977	c.910G>A	c.(910-912)GCA>ACA	p.A304T	SLC22A16_uc003pue.2_Missense_Mutation_p.A285T	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	304					acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		ATTTTTTGTGCTTCTTCATAT	0.468													11	44	---	---	---	---	PASS	T	110763720	T	T	110763720	3	4	104	1	0	0	0	0	1	0	0	0	14447	797	28	3	843	3	SLC22A16	6	110763720	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	20334996	110763720	60351347	152	38564										
NKAIN2	154215	broad.mit.edu	37	chr6	124604269	124604269	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtttggaactattcaatataGacctcgttacataacaggag	8	7	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:124604269G>T	uc003pzo.2	+	2	450	c.173G>T	c.(172-174)AGA>ATA	p.R58I	NKAIN2_uc003pzn.1_Missense_Mutation_p.R58I|NKAIN2_uc003pzp.2_Missense_Mutation_p.R57I|NKAIN2_uc010keq.2_Missense_Mutation_p.R58I|NKAIN2_uc010ker.2_5'UTR|NKAIN2_uc010kep.1_RNA	NM_001040214	NP_001035304	Q5VXU1	NKAI2_HUMAN	T-cell lymphoma breakpoint-associated target 1	58						integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)		ATTCAATATAGACCTCGTTAC	0.333													10	306	---	---	---	---	PASS	T	124604269	T	T	124604269	3	4	104	1	0	0	0	0	1	0	0	0	10436	942	33	2	179	2	NKAIN2	6	124604269	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	13840549	124604269	46510798	153	38565										
NCOA7	135112	broad.mit.edu	37	chr6	126206305	126206305	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cctgttgctttctcctgcagGgtgtggttggcggtgttatg	15	8	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:126206305G>T	uc010kes.2	+	10	1149	c.700G>T	c.(700-702)GGT>TGT	p.G234C	NCOA7_uc003qae.3_Missense_Mutation_p.G234C|NCOA7_uc003qah.2_Missense_Mutation_p.G234C|NCOA7_uc003qai.2_Missense_Mutation_p.G234C|NCOA7_uc010ket.2_Missense_Mutation_p.G130C|NCOA7_uc003qag.2_Missense_Mutation_p.G234C	NM_181782	NP_861447	Q8NI08	NCOA7_HUMAN	nuclear receptor coactivator 7 isoform 1	234					cell wall macromolecule catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)		TCTCCTGCAGGGTGTGGTTGG	0.443													15	805	---	---	---	---	PASS	T	126206305	T	T	126206305	3	4	104	1	0	0	0	0	1	0	0	0	10234	1246	43	3	726	3	NCOA7	6	126206305	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1602036	126206305	44908762	154	38566										
TRMT11	60487	broad.mit.edu	37	chr6	126329537	126329537	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	caaaattgtgtgatttttcaGgtggcctgctgatagcatgt	11	6	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:126329537G>T	uc003qam.2	+	8	801	c.680_splice	c.e8-1	p.G227_splice	TRMT11_uc003qan.2_Splice_Site|TRMT11_uc010kev.2_Splice_Site_p.G227_splice	NM_001031712	NP_001026882	Q7Z4G4	TRM11_HUMAN	tRNA methyltransferase 11						tRNA processing		methyltransferase activity|nucleic acid binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0356)		TGATTTTTCAGGTGGCCTGCT	0.423													12	576	---	---	---	---	PASS	T	126329537	T	T	126329537	5	4	104	1	0	0	0	0	0	0	1	0	16559	1014	35	3	709	3	TRMT11	6	126329537	Splice_Site	SNP	G	TCGA-46-3765-01A-01D-0983-08	123232	126329537	44785530	155	38567										
ARHGAP18	93663	broad.mit.edu	37	chr6	129929122	129929122	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gaagagcttcagcaggctggCggcatcatgctgtttgacac	13	10	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:129929122C>G	uc003qbr.2	-	9	1287	c.1198G>C	c.(1198-1200)GCC>CCC	p.A400P	ARHGAP18_uc011ebw.1_Missense_Mutation_p.A400P	NM_033515	NP_277050	Q8N392	RHG18_HUMAN	Rho GTPase activating protein 18	400	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			ovary(2)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(136;0.0621)|GBM - Glioblastoma multiforme(226;0.0638)|all cancers(137;0.074)		AGCAGGCTGGCGGCATCATGC	0.453													10	49	---	---	---	---	PASS	G	129929122	G	G	129929122	3	3	104	1	0	0	0	0	1	0	0	0	868	768	27	4	821	4	ARHGAP18	6	129929122	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3599585	129929122	41185945	156	38568										
EPB41L2	2037	broad.mit.edu	37	chr6	131277400	131277400	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aagccatggcggtatgaaccGagaaatacccctgctctccg	10	13	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:131277400G>T	uc003qch.2	-	2	408	c.226C>A	c.(226-228)CGG>AGG	p.R76R	EPB41L2_uc003qcg.1_Silent_p.R76R|EPB41L2_uc011eby.1_Silent_p.R76R|EPB41L2_uc003qci.2_Silent_p.R76R|EPB41L2_uc010kfk.2_Silent_p.R76R|EPB41L2_uc010kfl.1_Silent_p.R76R	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	76					cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		GGTATGAACCGAGAAATACCC	0.348													6	92	---	---	---	---	PASS	T	131277400	T	T	131277400	2	4	104	1	0	0	0	0	0	0	0	1	5153	1057	37	2		2	EPB41L2	6	131277400	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	1348278	131277400	39837667	157	38569										
SLC35D3	340146	broad.mit.edu	37	chr6	137245753	137245753	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcgttaaaagatgcttacctCgaggtatggaggttggttag	13	5	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:137245753C>A	uc003qhe.2	+	2	1335	c.1170C>A	c.(1168-1170)CTC>CTA	p.L390L		NM_001008783	NP_001008783	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	390					carbohydrate transport	integral to membrane				ovary(1)|central_nervous_system(1)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		ATGCTTACCTCGAGGTATGGA	0.532													4	49	---	---	---	---	PASS	A	137245753	A	A	137245753	2	1	104	1	0	0	0	0	0	0	0	1	14583	871	31	2		2	SLC35D3	6	137245753	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	5968353	137245753	33869314	158	38570										
CCDC28A	25901	broad.mit.edu	37	chr6	139094876	139094876	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggcggggcttccgcttggggCatggaggctgtacctcttac	16	11	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:139094876C>A	uc003qie.2	+	1	220	c.65C>A	c.(64-66)GCA>GAA	p.A22E	uc003qid.1_5'Flank	NM_015439	NP_056254	Q8IWP9	CC28A_HUMAN	coiled-coil domain containing 28A	22											0				OV - Ovarian serous cystadenocarcinoma(155;0.000201)|GBM - Glioblastoma multiforme(68;0.000306)		CCGCTTGGGGCATGGAGGCTG	0.617													10	38	---	---	---	---	PASS	A	139094876	A	A	139094876	3	1	104	1	0	0	0	0	1	0	0	0	2802	710	25	3	67	3	CCDC28A	6	139094876	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	1849123	139094876	32020191	159	38571										
SYNE1	23345	broad.mit.edu	37	chr6	152861157	152861157	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttgtactatctcttgctcatCtagaaggaaaaagaaatctg	7	7	4	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:152861157C>A	uc010kiw.2	-	4	670	c.68_splice	c.e4-1	p.D23_splice	SYNE1_uc003qot.3_Splice_Site_p.D23_splice|SYNE1_uc003qou.3_Splice_Site_p.D23_splice|SYNE1_uc010kjb.1_Splice_Site_p.D23_splice|SYNE1_uc003qpa.1_Splice_Site_p.D23_splice	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1						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)		TCTTGCTCATCTAGAAGGAAA	0.343										HNSCC(10;0.0054)			17	46	---	---	---	---	PASS	A	152861157	A	A	152861157	5	1	104	1	0	0	0	0	0	0	1	0	15442	927	32	2	26996	2	SYNE1	6	152861157	Splice_Site	SNP	C	TCGA-46-3765-01A-01D-0983-08	13766281	152861157	18253910	160	38572										
LPA	4018	broad.mit.edu	37	chr6	161007644	161007644	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcagcatctggattcctgcaGtagttcctggtcaggccact	10	12	3	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr6:161007644G>T	uc003qtl.2	-	26	4086	c.3966C>A	c.(3964-3966)TAC>TAA	p.Y1322*		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3830	Kringle 34.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	GATTCCTGCAGTAGTTCCTGG	0.483													7	49	---	---	---	---	PASS	T	161007644	T	T	161007644	4	4	104	1	0	0	0	0	0	1	0	0	8903	1024	36	3	2216	3	LPA	6	161007644	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	8146487	161007644	10107423	161	38573										
GPER	2852	broad.mit.edu	37	chr7	1131687	1131687	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggcggtggcggacctcatccTggtggccgactccctcattg	14	14	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:1131687T>A	uc010ksd.1	+	2	712	c.323T>A	c.(322-324)CTG>CAG	p.L108Q	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPER_uc003sjz.1_Missense_Mutation_p.L108Q|GPER_uc003ska.1_Missense_Mutation_p.L108Q|GPER_uc003skb.2_Missense_Mutation_p.L108Q	NM_001098201	NP_001091671	Q99527	GPER_HUMAN	G protein-coupled receptor 30	108	Helical; Name=2; (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;2.32e-16)		GACCTCATCCTGGTGGCCGAC	0.577													9	76	---	---	---	---	PASS	A	1131687	A	A	1131687	3	1	104	1	0	0	0	0	1	0	0	0	6607	1580	55	5	325	5	GPER	7	1131687	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08		1131687	158006976	162	38574										
KIAA0415	9907	broad.mit.edu	37	chr7	4831000	4831000	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gctggtggagagggaggccgGcctcatgccagggtgaaggg	21	8	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:4831000G>A	uc003sne.2	+	17	2491	c.2408G>A	c.(2407-2409)GGC>GAC	p.G803D	KIAA0415_uc010ksp.2_RNA|KIAA0415_uc003snf.2_Missense_Mutation_p.G280D	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	803					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		AGGGAGGCCGGCCTCATGCCA	0.677													5	8	---	---	---	---	PASS	A	4831000	A	A	4831000	3	1	104	1	0	0	0	0	1	0	0	0	8175	1203	42	3	2474	3	KIAA0415	7	4831000	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	3699313	4831000	154307663	163	38575										
AIMP2	7965	broad.mit.edu	37	chr7	6054848	6054848	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttaaaacgtctgtatgagttGaaagctgcagttgatggcct	11	6	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:6054848G>C	uc003spo.2	+	2	320	c.207G>C	c.(205-207)TTG>TTC	p.L69F		NM_006303	NP_006294	Q13155	AIMP2_HUMAN	aminoacyl tRNA synthetase complex-interacting	69					apoptosis|cell differentiation|multicellular organismal development|tRNA aminoacylation for protein translation	cytosol|nucleus	protein binding			ovary(1)	1						TGTATGAGTTGAAAGCTGCAG	0.433													28	111	---	---	---	---	PASS	C	6054848	C	C	6054848	3	2	104	1	0	0	0	0	1	0	0	0	434	1281	45	2	213	2	AIMP2	7	6054848	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1223848	6054848	153083815	164	38576										
TWIST1	7291	broad.mit.edu	37	chr7	19156538	19156538	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcttgtccgagggcagcgtgGggatgatcttccgcagcgcg	17	11	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:19156538G>T	uc003sum.2	-	1	758	c.407C>A	c.(406-408)CCC>CAC	p.P136H		NM_000474	NP_000465	Q15672	TWST1_HUMAN	twist	136	Helix-loop-helix motif.				aortic valve morphogenesis|cellular response to hypoxia|embryonic camera-type eye formation|embryonic cranial skeleton morphogenesis|eyelid development in camera-type eye|muscle organ development|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of histone phosphorylation|negative regulation of osteoblast differentiation|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of transcription from RNA polymerase II promoter|positive regulation of angiogenesis|positive regulation of cell motility|positive regulation of epithelial to mesenchymal transition|positive regulation of fatty acid beta-oxidation|positive regulation of monocyte chemotactic protein-1 production|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of tumor necrosis factor production|regulation of bone mineralization	nucleus	bHLH transcription factor binding|E-box binding|sequence-specific DNA binding RNA polymerase II transcription factor activity				0						GGGCAGCGTGGGGATGATCTT	0.647									Saethre-Chotzen_syndrome				21	34	---	---	---	---	PASS	T	19156538	T	T	19156538	3	4	104	1	0	0	0	0	1	0	0	0	16780	1232	43	3	205	3	TWIST1	7	19156538	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	13101690	19156538	139982125	165	38577										
NPC1L1	29881	broad.mit.edu	37	chr7	44556482	44556482	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aggcagaggctgagcatgaaGagcccctcagggaggatggt	17	8	1	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:44556482G>C	uc003tlb.2	-	17	3476	c.3420C>G	c.(3418-3420)CTC>CTG	p.L1140L	NPC1L1_uc003tlc.2_Silent_p.L1113L|NPC1L1_uc011kbw.1_Silent_p.L1067L|NPC1L1_uc003tla.2_Intron	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	1140	Helical; Name=10; (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	TGAGCATGAAGAGCCCCTCAG	0.607													7	27	---	---	---	---	PASS	C	44556482	C	C	44556482	2	2	104	1	0	0	0	0	0	0	0	1	10571	929	33	2		2	NPC1L1	7	44556482	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	25399944	44556482	114582181	166	38578										
CCM2	83605	broad.mit.edu	37	chr7	45112369	45112369	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttaaggagacctacgaggtgGaagccagcactttgtgagtg	14	7	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:45112369G>T	uc003tmo.2	+	7	936	c.790G>T	c.(790-792)GAA>TAA	p.E264*	CCM2_uc003tmn.2_RNA|CCM2_uc003tmp.2_Nonsense_Mutation_p.E206*|CCM2_uc003tmq.2_Intron|CCM2_uc003tmr.2_Nonsense_Mutation_p.E173*|CCM2_uc011kcc.1_3'UTR|CCM2_uc003tms.2_Nonsense_Mutation_p.E285*	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2	264					endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						CTACGAGGTGGAAGCCAGCAC	0.522									Familial_Cerebral_Cavernous_Angioma				17	44	---	---	---	---	PASS	T	45112369	T	T	45112369	4	4	104	1	0	0	0	0	0	1	0	0	2908	1175	41	2	913	2	CCM2	7	45112369	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	555887	45112369	114026294	167	38579										
KCTD7	154881	broad.mit.edu	37	chr7	66103967	66103967	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	accccctatgagtgtccgctCctcaactccctgcgatttga	7	16	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:66103967C>G	uc003tve.2	+	4	780	c.618C>G	c.(616-618)CTC>CTG	p.L206L	RABGEF1_uc003tvf.2_Intron|KCTD7_uc003tvd.3_Silent_p.L206L	NM_153033	NP_694578	Q96MP8	KCTD7_HUMAN	potassium channel tetramerisation domain	206						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)	3						AGTGTCCGCTCCTCAACTCCC	0.602													239	29	---	---	---	---	PASS	G	66103967	G	G	66103967	2	3	104	1	0	0	0	0	0	0	0	1	8114	842	30	2		2	KCTD7	7	66103967	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	20991598	66103967	93034696	168	38580										
SEMA3D	223117	broad.mit.edu	37	chr7	84666276	84666276	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtctgcactttccttatgagCatatggaccattaaaaactg	7	9	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:84666276C>A	uc003uic.2	-	10	1160	c.1120G>T	c.(1120-1122)GCT>TCT	p.A374S	SEMA3D_uc010led.2_Missense_Mutation_p.A374S|SEMA3D_uc003uib.2_Missense_Mutation_p.A13S	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	374	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						TCCTTATGAGCATATGGACCA	0.403													8	42	---	---	---	---	PASS	A	84666276	A	A	84666276	3	1	104	1	0	0	0	0	1	0	0	0	14027	710	25	3	1245	3	SEMA3D	7	84666276	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	18562309	84666276	74472387	169	38581										
CCDC132	55610	broad.mit.edu	37	chr7	92935226	92935226	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcttcaaaaacagtgaccttGtttgagcagtactgtagtgg	10	7	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:92935226G>T	uc003umo.2	+	18	1667	c.1539G>T	c.(1537-1539)TTG>TTT	p.L513F	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.L483F|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Missense_Mutation_p.L233F	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	513											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			CAGTGACCTTGTTTGAGCAGT	0.403													15	31	---	---	---	---	PASS	T	92935226	T	T	92935226	3	4	104	1	0	0	0	0	1	0	0	0	2767	1368	48	3	1651	3	CCDC132	7	92935226	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	8268950	92935226	66203437	170	38582										
DLX6	1750	broad.mit.edu	37	chr7	96639256	96639256	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agtctgggacgtttctgcctCggccaagggtgtcagtatgc	14	10	3	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:96639256C>T	uc003uom.2	+	4	695	c.695C>T	c.(694-696)TCG>TTG	p.S232L	DLX6AS_uc003uol.2_Intron|DLX6AS_uc010lfo.1_Intron	NM_005222	NP_005213	P56179	DLX6_HUMAN	distal-less homeobox 6	142					nervous system development|skeletal system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					GTTTCTGCCTCGGCCAAGGGT	0.617													9	8	---	---	---	---	PASS	T	96639256	T	T	96639256	3	4	104	1	0	0	0	0	1	0	0	0	4575	893	31	2	789	2	DLX6	7	96639256	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3704030	96639256	62499407	171	38583										
HBP1	26959	broad.mit.edu	37	chr7	106836436	106836436	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cacctggatcatcacagctcTcttccaattctttgtatgct	5	13	4	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:106836436T>A	uc003vdy.2	+	9	1411	c.1225T>A	c.(1225-1227)TCT>ACT	p.S409T	HBP1_uc011klv.1_Missense_Mutation_p.S419T|HBP1_uc003vdz.2_Missense_Mutation_p.S409T|HBP1_uc003vea.2_Missense_Mutation_p.S409T|HBP1_uc003veb.1_Missense_Mutation_p.S409T	NM_012257	NP_036389	O60381	HBP1_HUMAN	HMG-box transcription factor 1	409					cell cycle arrest|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	DNA binding			skin(1)	1						ATCACAGCTCTCTTCCAATTC	0.458													22	35	---	---	---	---	PASS	A	106836436	A	A	106836436	3	1	104	1	0	0	0	0	1	0	0	0	6985	1551	54	5	1255	5	HBP1	7	106836436	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	10197180	106836436	52302227	172	38584										
IQUB	154865	broad.mit.edu	37	chr7	123109370	123109370	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttttgcagctctctggctctGatggtgaactgcgtatccat	10	10	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:123109370G>A	uc003vkn.2	-	9	2056	c.1479C>T	c.(1477-1479)ATC>ATT	p.I493I	IQUB_uc003vko.2_Silent_p.I493I|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Silent_p.I493I	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	493										ovary(3)|large_intestine(1)	4						CTCTGGCTCTGATGGTGAACT	0.353													22	33	---	---	---	---	PASS	A	123109370	A	A	123109370	2	1	104	1	0	0	0	0	0	0	0	1	7820	1280	45	2		2	IQUB	7	123109370	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	16272934	123109370	36029293	173	38585										
ATP6V0A4	50617	broad.mit.edu	37	chr7	138429990	138429990	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gagaagatgcccataagtagGatcagatagcgcccgtggaa	13	8	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:138429990G>A	uc003vuf.2	-	13	1594	c.1356C>T	c.(1354-1356)ATC>ATT	p.I452I	ATP6V0A4_uc003vug.2_Silent_p.I452I|ATP6V0A4_uc003vuh.2_Silent_p.I452I	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	452	Helical; (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						CCATAAGTAGGATCAGATAGC	0.507													33	62	---	---	---	---	PASS	A	138429990	A	A	138429990	2	1	104	1	0	0	0	0	0	0	0	1	1170	1164	41	2		2	ATP6V0A4	7	138429990	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	15320620	138429990	20708673	174	38586										
OR6B1	135946	broad.mit.edu	37	chr7	143701805	143701805	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcagaaagcgttctccacttGtgcctcccatcttgtggtgg	11	12	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr7:143701805G>A	uc003wdt.1	+	1	716	c.716G>A	c.(715-717)TGT>TAT	p.C239Y		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	239	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					TTCTCCACTTGTGCCTCCCAT	0.433													25	69	---	---	---	---	PASS	A	143701805	A	A	143701805	3	1	104	1	0	0	0	0	1	0	0	0	11187	1377	48	3	718	3	OR6B1	7	143701805	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	5271815	143701805	15436858	175	38587										
PPP1R3B	79660	broad.mit.edu	37	chr8	8998583	8998583	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcgggcaagctgatgtcgaaGgagaacgtgtccctgtctga	14	9	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:8998583G>T	uc003wsn.3	-	2	744	c.579C>A	c.(577-579)TCC>TCA	p.S193S	PPP1R3B_uc003wso.3_Silent_p.S192S	NM_024607	NP_078883	Q86XI6	PPR3B_HUMAN	protein phosphatase 1, regulatory (inhibitor)	193	CBM21.				glycogen metabolic process					ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(149;0.0717)|READ - Rectum adenocarcinoma(644;0.241)		TGATGTCGAAGGAGAACGTGT	0.478													6	79	---	---	---	---	PASS	T	8998583	T	T	8998583	2	4	104	1	0	0	0	0	0	0	0	1	12372	987	35	3		3	PPP1R3B	8	8998583	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08		8998583	137365439	176	38588										
ADAM7	8756	broad.mit.edu	37	chr8	24324415	24324415	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ataacctgagggtgccgtatGgtgccaattattcctgtaca	10	9	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:24324415G>T	uc003xeb.2	+	6	606	c.493G>T	c.(493-495)GGT>TGT	p.G165C	ADAM7_uc003xea.1_Missense_Mutation_p.G165C	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	165	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		GGTGCCGTATGGTGCCAATTA	0.368													5	82	---	---	---	---	PASS	T	24324415	T	T	24324415	3	4	104	1	0	0	0	0	1	0	0	0	251	1348	47	3	515	3	ADAM7	8	24324415	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	15325832	24324415	122039607	177	38589										
WRN	7486	broad.mit.edu	37	chr8	31015003	31015003	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggcctgactccagaggttcaGaagattattgctgatgttat	11	7	1	5			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:31015003G>C	uc003xio.3	+	33	4727	c.3939G>C	c.(3937-3939)CAG>CAC	p.Q1313H	WRN_uc010lvk.2_Missense_Mutation_p.Q780H	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	1313					base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		CAGAGGTTCAGAAGATTATTG	0.502			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				15	18	---	---	---	---	PASS	C	31015003	C	C	31015003	3	2	104	1	0	0	0	0	1	0	0	0	17399	933	33	2	4065	2	WRN	8	31015003	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	6690588	31015003	115349019	178	38590										
UNC5D	137970	broad.mit.edu	37	chr8	35608161	35608161	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccttttggacccctttgcgtGtcatgtgctcctggacagct	10	13	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:35608161G>T	uc003xjr.1	+	13	2325	c.1997G>T	c.(1996-1998)TGT>TTT	p.C666F	UNC5D_uc003xjs.1_Missense_Mutation_p.C661F|UNC5D_uc003xju.1_Missense_Mutation_p.C242F	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	666	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CCCTTTGCGTGTCATGTGCTC	0.488													149	63	---	---	---	---	PASS	T	35608161	T	T	35608161	3	4	104	1	0	0	0	0	1	0	0	0	16992	1377	48	3	2047	3	UNC5D	8	35608161	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	4593158	35608161	110755861	179	38591										
UNC5D	137970	broad.mit.edu	37	chr8	35624481	35624481	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cctgcactgtgccttctcccTggagcgttatacgcccacta	8	16	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:35624481T>C	uc003xjr.1	+	15	2703	c.2375T>C	c.(2374-2376)CTG>CCG	p.L792P	UNC5D_uc003xjs.1_Missense_Mutation_p.L787P|UNC5D_uc003xju.1_Missense_Mutation_p.L368P	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	792	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		GCCTTCTCCCTGGAGCGTTAT	0.582													14	122	---	---	---	---	PASS	C	35624481	C	C	35624481	3	2	104	1	0	0	0	0	1	0	0	0	16992	1580	55	5	2433	5	UNC5D	8	35624481	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	16320	35624481	110739541	180	38592										
ADAM18	8749	broad.mit.edu	37	chr8	39495087	39495087	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gttcaaattgactgttatacTgtcttccttggaattgtggt	9	6	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:39495087T>C	uc003xni.2	+	9	692	c.692T>C	c.(691-693)CTG>CCG	p.L231P	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.L207P	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	231	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			ACTGTTATACTGTCTTCCTTG	0.313													8	33	---	---	---	---	PASS	C	39495087	C	C	39495087	3	2	104	1	0	0	0	0	1	0	0	0	239	1580	55	5	726	5	ADAM18	8	39495087	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	3870606	39495087	106868935	181	38593										
MYST3	7994	broad.mit.edu	37	chr8	41804152	41804152	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tagcccttacgctggtattgAggaagaatcattatacagga	10	7	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:41804152A>C	uc010lxb.2	-	13	2497	c.1953T>G	c.(1951-1953)CCT>CCG	p.P651P	MYST3_uc010lxc.2_Silent_p.P651P|MYST3_uc003xon.3_Silent_p.P651P|MYST3_uc010lxd.2_Silent_p.P651P	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	651	Mediates interaction with BRPF1, required for histone H3 acetyltransferase activity.|Catalytic.|Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			GCTGGTATTGAGGAAGAATCA	0.378													7	38	---	---	---	---	PASS	C	41804152	C	C	41804152	2	2	104	1	0	0	0	0	0	0	0	1	10104	291	11	5		5	MYST3	8	41804152	Silent	SNP	A	TCGA-46-3765-01A-01D-0983-08	2309065	41804152	104559870	182	38594										
PXDNL	137902	broad.mit.edu	37	chr8	52387662	52387662	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaaagctcccccagccacatCagatcacagtcacaaaccag	5	16	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:52387662C>T	uc003xqu.3	-	7	665	c.564G>A	c.(562-564)CTG>CTA	p.L188L		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	188	LRRCT.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CCAGCCACATCAGATCACAGT	0.517													5	34	---	---	---	---	PASS	T	52387662	T	T	52387662	2	4	104	1	0	0	0	0	0	0	0	1	12848	813	29	2		2	PXDNL	8	52387662	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	10583510	52387662	93976360	183	38595										
PREX2	80243	broad.mit.edu	37	chr8	69002947	69002947	+	Silent	SNP	G	T	T													0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aggaagtacaggcggccaacGaaggtaagtggcccttcaga							TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:69002947G>T	uc003xxv.1	+	20	2274	c.2247G>T	c.(2245-2247)ACG>ACT	p.T749T	PREX2_uc003xxu.1_Silent_p.T749T|PREX2_uc011lez.1_Silent_p.T684T	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	749	PDZ 2.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GGCGGCCAACGAAGGTAAGTG	0.473													10	32	---	---	---	---	PASS	T	69002947	T	T	69002947	2	4	104	1	0	0	0	0	0	0	0	1	12477	1045	37	2		2	PREX2	8	69002947	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	16615285	69002947	77361075	184	38596	724	2								
PREX2	80243	broad.mit.edu	37	chr8	69002948	69002948	+	Nonsense_Mutation	SNP	A	T	T													0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggaagtacaggcggccaacgAaggtaagtggcccttcagat							TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:69002948A>T	uc003xxv.1	+	20	2275	c.2248A>T	c.(2248-2250)AAG>TAG	p.K750*	PREX2_uc003xxu.1_Nonsense_Mutation_p.K750*|PREX2_uc011lez.1_Nonsense_Mutation_p.K685*	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	750	PDZ 2.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GCGGCCAACGAAGGTAAGTGG	0.468													9	31	---	---	---	---	PASS	T	69002948	T	T	69002948	4	4	104	1	0	0	0	0	0	1	0	0	12477	247	9	5	2326	5	PREX2	8	69002948	Nonsense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	1	69002948	77361074	185	38597	724	2								
CNGB3	54714	broad.mit.edu	37	chr8	87751931	87751931	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cgtgactggagttgacttggTtttgagagatttctcttcac	11	7	2	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:87751931T>A	uc003ydx.2	-	2	209	c.163A>T	c.(163-165)ACC>TCC	p.T55S		NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	55	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding	p.T55P(1)		ovary(2)|pancreas(1)	3						GTTGACTTGGTTTTGAGAGAT	0.313													13	35	---	---	---	---	PASS	A	87751931	A	A	87751931	3	1	104	1	0	0	0	0	1	0	0	0	3601	1725	60	5	2334	5	CNGB3	8	87751931	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	18748983	87751931	58612091	186	38598										
CNBD1	168975	broad.mit.edu	37	chr8	87917412	87917412	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttcctaaacttttcaaacagGaggaacaaaggtaatgatac	7	7	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:87917412G>T	uc003ydy.2	+	3	310	c.262G>T	c.(262-264)GAG>TAG	p.E88*		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	88										ovary(3)	3						TTTCAAACAGGAGGAACAAAG	0.368													8	17	---	---	---	---	PASS	T	87917412	T	T	87917412	4	4	104	1	0	0	0	0	0	1	0	0	3591	1175	41	2	272	2	CNBD1	8	87917412	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	165481	87917412	58446610	187	38599										
RBM12B	389677	broad.mit.edu	37	chr8	94747128	94747128	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ataaatgggaatggtcacctCgctcacgtgactgtgagcga	12	9	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:94747128C>A	uc003yfz.2	-	3	1704	c.1511G>T	c.(1510-1512)CGA>CTA	p.R504L		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	504							nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			ATGGTCACCTCGCTCACGTGA	0.403													6	93	---	---	---	---	PASS	A	94747128	A	A	94747128	3	1	104	1	0	0	0	0	1	0	0	0	13114	884	31	2	1498	2	RBM12B	8	94747128	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	6829716	94747128	51616894	188	38600										
TRHR	7201	broad.mit.edu	37	chr8	110100339	110100339	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	taatggactttggtgtctttTatgttgtgccaatgatcctg	10	6	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:110100339T>C	uc003ymz.3	+	1	614	c.598T>C	c.(598-600)TAT>CAT	p.Y200H		NM_003301	NP_003292	P34981	TRFR_HUMAN	thyrotropin-releasing hormone receptor	200	Helical; Name=5; (Potential).					integral to plasma membrane	thyrotropin-releasing hormone receptor activity			skin(2)|lung(1)	3			OV - Ovarian serous cystadenocarcinoma(57;2.3e-11)			TGGTGTCTTTTATGTTGTGCC	0.388													11	39	---	---	---	---	PASS	C	110100339	C	C	110100339	3	2	104	1	0	0	0	0	1	0	0	0	16477	1754	61	5	600	5	TRHR	8	110100339	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	15353211	110100339	36263683	189	38601										
SYBU	55638	broad.mit.edu	37	chr8	110588198	110588198	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cctcctcaatccagtcctctCgcatgcgggccagctgggac	10	17	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:110588198C>A	uc003ynj.3	-	7	1092	c.929G>T	c.(928-930)CGA>CTA	p.R310L	SYBU_uc003yni.3_Missense_Mutation_p.R307L|SYBU_uc003ynk.3_Missense_Mutation_p.R191L|SYBU_uc010mco.2_Missense_Mutation_p.R309L|SYBU_uc003ynl.3_Missense_Mutation_p.R309L|SYBU_uc010mcp.2_Missense_Mutation_p.R310L|SYBU_uc010mcq.2_Missense_Mutation_p.R310L|SYBU_uc003yno.3_Missense_Mutation_p.R191L|SYBU_uc010mcr.2_Missense_Mutation_p.R310L|SYBU_uc003ynm.3_Missense_Mutation_p.R309L|SYBU_uc003ynn.3_Missense_Mutation_p.R309L|SYBU_uc010mcs.2_Missense_Mutation_p.R191L|SYBU_uc010mct.2_Missense_Mutation_p.R310L|SYBU_uc010mcu.2_Missense_Mutation_p.R309L|SYBU_uc003ynp.3_Missense_Mutation_p.R242L|SYBU_uc010mcv.2_Missense_Mutation_p.R310L|SYBU_uc003ynh.3_Missense_Mutation_p.R104L|SYBU_uc011lhw.1_Missense_Mutation_p.R180L	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	310	Sufficient for interaction with STX1A.|Potential.|Sufficient for interaction with KIF5B.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						CCAGTCCTCTCGCATGCGGGC	0.443													4	47	---	---	---	---	PASS	A	110588198	A	A	110588198	3	1	104	1	0	0	0	0	1	0	0	0	15424	884	31	2	1066	2	SYBU	8	110588198	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	487859	110588198	35775824	190	38602										
CSMD3	114788	broad.mit.edu	37	chr8	113303805	113303805	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tatcaaaactgaagatccaaAtaaaaaatatccaggattgc	5	7	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:113303805A>T	uc003ynu.2	-	56	9067	c.8908T>A	c.(8908-8910)TTT>ATT	p.F2970I	CSMD3_uc003yns.2_Missense_Mutation_p.F2172I|CSMD3_uc003ynt.2_Missense_Mutation_p.F2930I|CSMD3_uc011lhx.1_Missense_Mutation_p.F2801I	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2970	Extracellular (Potential).|Sushi 20.					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						GAAGATCCAAATAAAAAATAT	0.333										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			14	49	---	---	---	---	PASS	T	113303805	T	T	113303805	3	4	104	1	0	0	0	0	1	0	0	0	3946	101	4	5	2279	5	CSMD3	8	113303805	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	2715607	113303805	33060217	191	38603										
PHF20L1	51105	broad.mit.edu	37	chr8	133816985	133816985	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctcgacttaacaagattactGgtaaactacaatgatttttt	5	7	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:133816985G>T	uc003ytt.2	+	8	1172	c.847G>T	c.(847-849)GGT>TGT	p.G283C	PHF20L1_uc003ytr.2_Missense_Mutation_p.G257C|PHF20L1_uc010mdv.2_Missense_Mutation_p.G257C|PHF20L1_uc003yts.2_Missense_Mutation_p.G283C|PHF20L1_uc011lja.1_Missense_Mutation_p.G257C|PHF20L1_uc003ytu.1_RNA|PHF20L1_uc003ytv.2_Missense_Mutation_p.G122C	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	283							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			CAAGATTACTGGTAAACTACA	0.338													8	108	---	---	---	---	PASS	T	133816985	T	T	133816985	3	4	104	1	0	0	0	0	1	0	0	0	11832	1362	47	3	873	3	PHF20L1	8	133816985	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	20513180	133816985	12547037	192	38604										
PTK2	5747	broad.mit.edu	37	chr8	141678480	141678480	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acaccttatcattcgaccggTccaggttggcagtaggaggg	13	10	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:141678480T>C	uc003yvu.2	-	30	2983	c.2753A>G	c.(2752-2754)GAC>GGC	p.D918G	PTK2_uc011ljp.1_Missense_Mutation_p.D226G|PTK2_uc003yvo.2_Missense_Mutation_p.D546G|PTK2_uc011ljq.1_Missense_Mutation_p.D616G|PTK2_uc003yvp.2_Missense_Mutation_p.D586G|PTK2_uc003yvq.2_Missense_Mutation_p.D423G|PTK2_uc003yvr.2_Missense_Mutation_p.D861G|PTK2_uc003yvs.2_Missense_Mutation_p.D872G|PTK2_uc003yvt.2_Missense_Mutation_p.D940G|PTK2_uc003yvv.2_Missense_Mutation_p.D821G|PTK2_uc011ljr.1_Missense_Mutation_p.D931G	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	918	Interaction with TGFB1I1.|Interaction with RGNEF (By similarity).				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			ATTCGACCGGTCCAGGTTGGC	0.542											OREG0019022	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	43	---	---	---	---	PASS	C	141678480	C	C	141678480	3	2	104	1	0	0	0	0	1	0	0	0	12762	1667	58	5	417	5	PTK2	8	141678480	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	7861495	141678480	4685542	193	38605										
NFKBIL2	4796	broad.mit.edu	37	chr8	145667759	145667759	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tggatggtgcccaggttgtaGcgggcgcggaataggtcctc	17	9	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr8:145667759G>C	uc011llg.1	-	6	630	c.615C>G	c.(613-615)CGC>CGG	p.R205R		NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	205	TPR 5.				cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CCAGGTTGTAGCGGGCGCGGA	0.647													5	21	---	---	---	---	PASS	C	145667759	C	C	145667759	2	2	104	1	0	0	0	0	0	0	0	1	10382	958	34	4		4	NFKBIL2	8	145667759	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	3989279	145667759	696263	194	38606										
C9orf123	90871	broad.mit.edu	37	chr9	7799633	7799633	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgttctgctggggaggtcggCgctccgggtgtagctggggg	21	8	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:7799633C>A	uc003zki.2	-	1	146	c.102G>T	c.(100-102)GCG>GCT	p.A34A	C9orf123_uc003zkj.2_Silent_p.A34A			Q96GE9	CI123_HUMAN	Homo sapiens cDNA FLJ46908 fis, clone FEBRA2004867.	34						integral to membrane					0		all_cancers(3;0.0539)|Lung NSC(3;3.36e-05)|all_lung(3;0.000156)|all_epithelial(3;0.0356)		GBM - Glioblastoma multiforme(50;0.0561)		GGGAGGTCGGCGCTCCGGGTG	0.672													6	11	---	---	---	---	PASS	A	7799633	A	A	7799633	2	1	104	1	0	0	0	0	0	0	0	1	2453	755	27	1		1	C9orf123	9	7799633	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08		7799633	133413798	195	38607										
PLIN2	123	broad.mit.edu	37	chr9	19120960	19120960	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttttctacgccactgctcacGagctgcatcatccgactccc	6	17	3	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:19120960G>T	uc003zno.2	-	5	692	c.513C>A	c.(511-513)CTC>CTA	p.L171L	PLIN2_uc011lna.1_Silent_p.L143L|PLIN2_uc011lnb.1_Intron	NM_001122	NP_001113	Q99541	PLIN2_HUMAN	adipose differentiation-related protein	171					cellular lipid metabolic process	endoplasmic reticulum|extracellular region|lipid particle				ovary(2)	2						CACTGCTCACGAGCTGCATCA	0.498													4	74	---	---	---	---	PASS	T	19120960	T	T	19120960	2	4	104	1	0	0	0	0	0	0	0	1	12090	1045	37	2		2	PLIN2	9	19120960	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	11321327	19120960	122092471	196	38608										
CDKN2A	1029	broad.mit.edu	37	chr9	21971065	21971065	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccagccgcgccccggcccggTgcagcaccaccagcgtgtcc	12	21	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:21971065T>G	uc003zpk.2	-	2	505	c.293A>C	c.(292-294)CAC>CCC	p.H98P	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Silent_p.A153A	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	98	ANK 3.		H -> P (in CMM2).|H -> Q (in CMM2).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(13)|p.H98R(2)|p.H83fs*2(2)|p.H98Y(1)|p.H98H(1)|p.H98P(1)|p.L97fs*21(1)|p.T93_D105del(1)|p.A68fs*3(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCCGGCCCGGTGCAGCACCAC	0.746		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			4	3	---	---	---	---	PASS	G	21971065	G	G	21971065	3	3	104	1	0	0	0	0	1	0	0	0	3161	1696	59	5	185	5	CDKN2A	9	21971065	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	2850105	21971065	119242366	197	38609										
C9orf128	392307	broad.mit.edu	37	chr9	35825821	35825821	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aagacagacagacatagtctCgtgattggggaggaagagta	14	5	1	5			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:35825821C>A	uc010mlc.2	-	2	623	c.338G>T	c.(337-339)CGA>CTA	p.R113L	C9orf128_uc003zyj.2_RNA|C9orf128_uc011lpg.1_Missense_Mutation_p.R113L	NM_001012446	NP_001012448	A6H8Z2	CI128_HUMAN	hypothetical protein LOC392307	113											0	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			GACATAGTCTCGTGATTGGGG	0.493											OREG0019180	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	281	---	---	---	---	PASS	A	35825821	A	A	35825821	3	1	104	1	0	0	0	0	1	0	0	0	2455	884	31	2	894	2	C9orf128	9	35825821	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	13854756	35825821	105387610	198	38610										
RECK	8434	broad.mit.edu	37	chr9	36087870	36087870	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaagctcacaatctgttcacCctggagtcactgtacaccct	6	14	4	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:36087870C>A	uc003zyv.2	+	9	903	c.817C>A	c.(817-819)CCT>ACT	p.P273T	RECK_uc003zyw.2_Missense_Mutation_p.P145T|RECK_uc003zyx.2_RNA	NM_021111	NP_066934	O95980	RECK_HUMAN	RECK protein precursor	273	5 X Knot repeats.					anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)			ATCTGTTCACCCTGGAGTCAC	0.453													6	90	---	---	---	---	PASS	A	36087870	A	A	36087870	3	1	104	1	0	0	0	0	1	0	0	0	13200	623	22	3	851	3	RECK	9	36087870	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	262049	36087870	105125561	199	38611										
RECK	8434	broad.mit.edu	37	chr9	36118794	36118794	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcccgtatgtgggcacaatgGtgagacctacagcagtgtgt	14	9	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:36118794G>T	uc003zyv.2	+	18	2380	c.2294G>T	c.(2293-2295)GGT>GTT	p.G765V	RECK_uc003zyw.2_Missense_Mutation_p.G637V|RECK_uc003zyx.2_RNA	NM_021111	NP_066934	O95980	RECK_HUMAN	RECK protein precursor	765	Kazal-like 3.					anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)			GGGCACAATGGTGAGACCTAC	0.542													35	34	---	---	---	---	PASS	T	36118794	T	T	36118794	3	4	104	1	0	0	0	0	1	0	0	0	13200	1261	44	3	2364	3	RECK	9	36118794	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	30924	36118794	105094637	200	38612										
TDRD7	23424	broad.mit.edu	37	chr9	100232913	100232913	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	caaattaaacccgaagttttGttcactctcatttcaagcta	4	10	3	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:100232913G>A	uc004axj.2	+	9	1928	c.1703G>A	c.(1702-1704)TGT>TAT	p.C568Y	TDRD7_uc011lux.1_Missense_Mutation_p.C494Y|TDRD7_uc010msp.1_Intron|TDRD7_uc011luy.1_5'UTR	NM_014290	NP_055105	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	568	Tudor 1.				lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)				CCGAAGTTTTGTTCACTCTCA	0.318													20	31	---	---	---	---	PASS	A	100232913	A	A	100232913	3	1	104	1	0	0	0	0	1	0	0	0	15732	1377	48	3	1733	3	TDRD7	9	100232913	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	64114119	100232913	40980518	201	38613										
ZNF618	114991	broad.mit.edu	37	chr9	116812065	116812065	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcacgaggagatcatcggcaAggtctgtgagctcatcaacg	13	10	4	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:116812065A>T	uc004bid.2	+	15	2582	c.2483A>T	c.(2482-2484)AAG>ATG	p.K828M	ZNF618_uc004bic.2_Missense_Mutation_p.K735M|ZNF618_uc011lxi.1_Missense_Mutation_p.K795M|ZNF618_uc011lxj.1_Missense_Mutation_p.K796M|ZNF618_uc010mvb.2_Missense_Mutation_p.K418M	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	828					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATCATCGGCAAGGTCTGTGAG	0.642													11	49	---	---	---	---	PASS	T	116812065	T	T	116812065	3	4	104	1	0	0	0	0	1	0	0	0	18039	72	3	5	2258	5	ZNF618	9	116812065	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	16579152	116812065	24401366	202	38614										
TRIM32	22954	broad.mit.edu	37	chr9	119461418	119461418	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccactgcgtggcctgtcacaGgagccagctgagcaaaccat	11	14	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:119461418G>T	uc004bjx.2	+	2	1555	c.1397G>T	c.(1396-1398)AGG>ATG	p.R466M	ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjs.1_Intron|ASTN2_uc004bjt.1_Intron|TRIM32_uc004bjw.2_Missense_Mutation_p.R466M	NM_001099679	NP_001093149	Q13049	TRI32_HUMAN	tripartite motif-containing 32	466	NHL 3.				fat cell differentiation|innate immune response|negative regulation of apoptosis|negative regulation of fibroblast proliferation|positive regulation of cell cycle|positive regulation of cell growth|positive regulation of cell migration|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein catabolic process|positive regulation of proteolysis|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to tumor necrosis factor|response to UV	nucleus	myosin binding|protein self-association|RNA binding|Tat protein binding|transcription coactivator activity|translation initiation factor binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(2)|kidney(1)	3						GCCTGTCACAGGAGCCAGCTG	0.512									Bardet-Biedl_syndrome				6	75	---	---	---	---	PASS	T	119461418	T	T	119461418	3	4	104	1	0	0	0	0	1	0	0	0	16503	1000	35	3	1399	3	TRIM32	9	119461418	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2649353	119461418	21752013	203	38615										
OR1L6	392390	broad.mit.edu	37	chr9	125512589	125512589	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gttcttgcagcatctcccacCtacattccctgttccgcgtg	7	16	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:125512589C>A	uc011lzc.1	+	1	571	c.571C>A	c.(571-573)CTA>ATA	p.L191I		NM_001004453	NP_001004453	Q8NGR2	OR1L6_HUMAN	olfactory receptor, family 1, subfamily L,	191	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CATCTCCCACCTACATTCCCT	0.507													6	87	---	---	---	---	PASS	A	125512589	A	A	125512589	3	1	104	1	0	0	0	0	1	0	0	0	10966	680	24	3	465	3	OR1L6	9	125512589	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	6051171	125512589	15700842	204	38616										
GARNL3	84253	broad.mit.edu	37	chr9	130098406	130098406	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgttatttatgctcactacaGgtggaaaggaaacgccacat	9	8	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:130098406G>T	uc011mae.1	+	11	1275	c.874_splice	c.e11-1	p.V292_splice	GARNL3_uc011mad.1_Splice_Site_p.V270_splice|GARNL3_uc004bqt.1_Splice_Site_p.V73_splice	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3						regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GCTCACTACAGGTGGAAAGGA	0.423													5	68	---	---	---	---	PASS	T	130098406	T	T	130098406	5	4	104	1	0	0	0	0	0	0	1	0	6241	1014	35	3	915	3	GARNL3	9	130098406	Splice_Site	SNP	G	TCGA-46-3765-01A-01D-0983-08	4585817	130098406	11115025	205	38617										
RAPGEF1	2889	broad.mit.edu	37	chr9	134471736	134471736	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	taagatgtccccagatcctcCgcggacgtccggcccgtcat	10	16	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:134471736C>G	uc004cbc.2	-	14	2210	c.2080G>C	c.(2080-2082)GGA>CGA	p.G694R	RAPGEF1_uc004cbb.2_Missense_Mutation_p.G712R|RAPGEF1_uc010mzm.2_RNA|RAPGEF1_uc010mzn.2_Missense_Mutation_p.G869R|RAPGEF1_uc004cbd.2_Missense_Mutation_p.G699R	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	694	N-terminal Ras-GEF.				activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		CCAGATCCTCCGCGGACGTCC	0.552													30	19	---	---	---	---	PASS	G	134471736	G	G	134471736	3	3	104	1	0	0	0	0	1	0	0	0	13043	661	23	4	1197	4	RAPGEF1	9	134471736	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	4373330	134471736	6741695	206	38618										
RXRA	6256	broad.mit.edu	37	chr9	137293518	137293518	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcctccctcacctccccgacGgggcgaggctccatggctgc	11	19	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:137293518G>T	uc004cfb.2	+	2	231	c.69G>T	c.(67-69)ACG>ACT	p.T23T	RXRA_uc004cfa.1_Missense_Mutation_p.G74W	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	23	Modulating (By similarity).				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)	CCTCCCCGACGGGGCGAGGCT	0.657													28	24	---	---	---	---	PASS	T	137293518	T	T	137293518	2	4	104	1	0	0	0	0	0	0	0	1	13763	1103	39	1		1	RXRA	9	137293518	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	2821782	137293518	3919913	207	38619										
EHMT1	79813	broad.mit.edu	37	chr9	140637893	140637893	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agaatgggaacctatagcctGgttcctaagaaaaagaccaa	9	8	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr9:140637893G>T	uc011mfc.1	+	5	931	c.894G>T	c.(892-894)CTG>CTT	p.L298L	EHMT1_uc004coa.2_Silent_p.L298L|EHMT1_uc004cob.1_Silent_p.L267L|EHMT1_uc010ncn.1_RNA	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	298					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		CCTATAGCCTGGTTCCTAAGA	0.318													5	48	---	---	---	---	PASS	T	140637893	T	T	140637893	2	4	104	1	0	0	0	0	0	0	0	1	4983	1335	47	3		3	EHMT1	9	140637893	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	3344375	140637893	575538	208	38620										
FBXO18	84893	broad.mit.edu	37	chr10	5959446	5959446	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agctgggggagtgcacagaaGaggcgcaccagatgactcat	15	9	1	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:5959446G>A	uc001iis.2	+	11	1947	c.1852G>A	c.(1852-1854)GAG>AAG	p.E618K	FBXO18_uc001iir.2_Missense_Mutation_p.E544K|FBXO18_uc009xig.2_Missense_Mutation_p.E544K|FBXO18_uc001iit.2_Missense_Mutation_p.E669K	NM_178150	NP_835363	Q8NFZ0	FBX18_HUMAN	F-box only protein, helicase, 18 isoform 2	618					DNA repair	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(2)|skin(1)	3						GTGCACAGAAGAGGCGCACCA	0.562													7	15	---	---	---	---	PASS	A	5959446	A	A	5959446	3	1	104	1	0	0	0	0	1	0	0	0	5731	943	33	2	2056	2	FBXO18	10	5959446	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08		5959446	129575301	209	38621										
PFKFB3	5209	broad.mit.edu	37	chr10	6263484	6263484	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tggaaggcgctcaatgagatCgacgcggtgagtcctgggag	17	8	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:6263484C>T	uc001ije.2	+	9	1356	c.972C>T	c.(970-972)ATC>ATT	p.I324I	PFKFB3_uc001ijd.2_Silent_p.I304I|PFKFB3_uc009xii.2_RNA|PFKFB3_uc010qaw.1_Silent_p.I338I|PFKFB3_uc001ijf.2_Silent_p.I324I|PFKFB3_uc001ijg.2_5'Flank|PFKFB3_uc009xij.2_5'Flank|PFKFB3_uc009xik.2_5'Flank|PFKFB3_uc009xil.2_5'Flank	NM_004566	NP_004557	Q16875	F263_HUMAN	6-phosphofructo-2-kinase/fructose-2,	324	Fructose-2,6-bisphosphatase.				fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(2)|central_nervous_system(1)	3						TCAATGAGATCGACGCGGTGA	0.662													6	11	---	---	---	---	PASS	T	6263484	T	T	6263484	2	4	104	1	0	0	0	0	0	0	0	1	11762	874	31	2		2	PFKFB3	10	6263484	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	304038	6263484	129271263	210	38622										
ITIH5	80760	broad.mit.edu	37	chr10	7679270	7679270	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcgatgcccgcgctctccagGatattcacgtccacgctcag	10	16	3	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:7679270G>T	uc001ijq.2	-	5	652	c.573C>A	c.(571-573)ATC>ATA	p.I191I	ITIH5_uc001ijr.1_Silent_p.I191I	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	191					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CGCTCTCCAGGATATTCACGT	0.652													14	34	---	---	---	---	PASS	T	7679270	T	T	7679270	2	4	104	1	0	0	0	0	0	0	0	1	7907	1164	41	2		2	ITIH5	10	7679270	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	1415786	7679270	127855477	211	38623										
OLAH	55301	broad.mit.edu	37	chr10	15107717	15107717	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtgaaacaatgtagtcccatCataagggcagatctgaacat	9	8	2	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:15107717C>T	uc001inu.2	+	6	791	c.537C>T	c.(535-537)ATC>ATT	p.I179I	ACBD7_uc010qby.1_Intron|OLAH_uc001int.2_Silent_p.I232I	NM_001039702	NP_001034791	Q9NV23	SAST_HUMAN	oleoyl-ACP hydrolase isoform 2	179					fatty acid biosynthetic process		myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity				0						GTAGTCCCATCATAAGGGCAG	0.353													6	49	---	---	---	---	PASS	T	15107717	T	T	15107717	2	4	104	1	0	0	0	0	0	0	0	1	10851	816	29	2		2	OLAH	10	15107717	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	7428447	15107717	120427030	212	38624										
STAM	8027	broad.mit.edu	37	chr10	17730044	17730044	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agggtcatcctaaagtatgtGaaaaattaaaggctcttatg	9	5	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:17730044G>T	uc001ipj.1	+	5	532	c.316G>T	c.(316-318)GAA>TAA	p.E106*	STAM_uc010qcf.1_5'UTR	NM_003473	NP_003464	Q92783	STAM1_HUMAN	signal transducing adaptor molecule 1	106	VHS.				cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	SH3/SH2 adaptor activity			large_intestine(1)|ovary(1)	2						TAAAGTATGTGAAAAATTAAA	0.303													5	84	---	---	---	---	PASS	T	17730044	T	T	17730044	4	4	104	1	0	0	0	0	0	1	0	0	15247	1291	45	2	334	2	STAM	10	17730044	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2622327	17730044	117804703	213	38625										
SLC39A12	221074	broad.mit.edu	37	chr10	18284589	18284589	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttttaatttaaaatagaaaaGcccagaagattcacaggcag	7	6	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:18284589G>T	uc001ipo.2	+	10	1811	c.1538G>T	c.(1537-1539)AGC>ATC	p.S513I	SLC39A12_uc001ipn.2_Missense_Mutation_p.S476I|SLC39A12_uc001ipp.2_Missense_Mutation_p.S512I|SLC39A12_uc010qck.1_Missense_Mutation_p.S379I	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	513	Extracellular (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						AAATAGAAAAGCCCAGAAGAT	0.353													7	63	---	---	---	---	PASS	T	18284589	T	T	18284589	3	4	104	1	0	0	0	0	1	0	0	0	14615	971	34	3	1572	3	SLC39A12	10	18284589	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	554545	18284589	117250158	214	38626										
NEBL	10529	broad.mit.edu	37	chr10	21108409	21108409	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tatctccggggtcatgcttaCcggagtggccttgtagtttt	12	9	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:21108409C>A	uc001iqi.2	-	20	2396	c.1999G>T	c.(1999-2001)GTA>TTA	p.V667L	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_RNA	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	667	Nebulin 19.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						GTCATGCTTACCGGAGTGGCC	0.438													22	115	---	---	---	---	PASS	A	21108409	A	A	21108409	3	1	104	1	0	0	0	0	1	0	0	0	10303	507	18	3	1081	3	NEBL	10	21108409	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	2823820	21108409	114426338	215	38627										
SLC25A16	8034	broad.mit.edu	37	chr10	70253288	70253288	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggaatgctaggcggaccctaAccatgtcaagagggtaagta	13	8	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:70253288A>T	uc001joi.2	-	5	913	c.461T>A	c.(460-462)GTT>GAT	p.V154D	SLC25A16_uc010qix.1_Missense_Mutation_p.V20D|SLC25A16_uc010qiy.1_Missense_Mutation_p.V56D|SLC25A16_uc001joj.2_Missense_Mutation_p.V56D	NM_152707	NP_689920	P16260	GDC_HUMAN	solute carrier family 25, member 16	154	Helical; Name=3; (Potential).|Solcar 2.				coenzyme biosynthetic process|pantothenate metabolic process	integral to membrane|mitochondrial inner membrane	binding|solute:solute antiporter activity				0						GCGGACCCTAACCATGTCAAG	0.353													15	53	---	---	---	---	PASS	T	70253288	T	T	70253288	3	4	104	1	0	0	0	0	1	0	0	0	14478	43	2	5	557	5	SLC25A16	10	70253288	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	49144879	70253288	65281459	216	38628										
C10orf54	64115	broad.mit.edu	37	chr10	73521605	73521605	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aacgtgaggttgcggatgggCcggcgctctgagcaggtctg	18	9	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:73521605C>T	uc001jsd.2	-	2	402	c.261G>A	c.(259-261)CGG>CGA	p.R87R	CDH23_uc001jrx.3_Intron|C10orf54_uc001jse.2_5'UTR|C10orf54_uc009xqm.2_Intron|C10orf54_uc001jsf.1_Silent_p.R87R	NM_022153	NP_071436	Q9H7M9	GI24_HUMAN	platelet receptor Gi24 precursor	87	Ig-like.|Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)|central_nervous_system(1)	3						TGCGGATGGGCCGGCGCTCTG	0.652													10	38	---	---	---	---	PASS	T	73521605	T	T	73521605	2	4	104	1	0	0	0	0	0	0	0	1	1607	726	26	3		3	C10orf54	10	73521605	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	3268317	73521605	62013142	217	38629										
LCOR	84458	broad.mit.edu	37	chr10	98715105	98715105	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agcaaaacaagatggaaaaaAggatgtgagccattcatctc	9	7	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:98715105A>G	uc001kms.1	+	8	1249	c.728A>G	c.(727-729)AAG>AGG	p.K243R	LCOR_uc001kmr.2_Missense_Mutation_p.K243R|C10orf12_uc009xvg.1_Intron|LCOR_uc001kmt.1_Missense_Mutation_p.K243R|LCOR_uc001kmu.1_Missense_Mutation_p.K243R	NM_032440	NP_115816	Q96JN0	LCOR_HUMAN	ligand dependent nuclear receptor corepressor	243						nucleus	DNA binding			ovary(3)	3		Colorectal(252;0.162)		Epithelial(162;4.43e-09)|all cancers(201;2.96e-07)		GATGGAAAAAAGGATGTGAGC	0.433													19	33	---	---	---	---	PASS	G	98715105	G	G	98715105	3	3	104	1	0	0	0	0	1	0	0	0	8689	72	3	5	738	5	LCOR	10	98715105	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	25193500	98715105	36819642	218	38630										
SCD	6319	broad.mit.edu	37	chr10	102120670	102120670	+	Missense_Mutation	SNP	G	C	C													0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggattaaaagaaccggagatGgaaactacaagagtggctga							TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:102120670G>C	uc001kqy.2	+	6	1550	c.1060G>C	c.(1060-1062)GGA>CGA	p.G354R		NM_005063	NP_005054	O00767	ACOD_HUMAN	stearoyl-CoA desaturase 1	354	Cytoplasmic (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity				0		Colorectal(252;0.0323)		Epithelial(162;1.97e-10)|all cancers(201;1.73e-08)		AACCGGAGATGGAAACTACAA	0.473													12	27	---	---	---	---	PASS	C	102120670	C	C	102120670	3	2	104	1	0	0	0	0	1	0	0	0	13886	1349	47	4	1082	4	SCD	10	102120670	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	3405565	102120670	33414077	219	38631	725	2								
SCD	6319	broad.mit.edu	37	chr10	102120671	102120671	+	Missense_Mutation	SNP	G	T	T													0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gattaaaagaaccggagatgGaaactacaagagtggctgag							TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:102120671G>T	uc001kqy.2	+	6	1551	c.1061G>T	c.(1060-1062)GGA>GTA	p.G354V		NM_005063	NP_005054	O00767	ACOD_HUMAN	stearoyl-CoA desaturase 1	354	Cytoplasmic (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity				0		Colorectal(252;0.0323)		Epithelial(162;1.97e-10)|all cancers(201;1.73e-08)		ACCGGAGATGGAAACTACAAG	0.473													12	27	---	---	---	---	PASS	T	102120671	T	T	102120671	3	4	104	1	0	0	0	0	1	0	0	0	13886	1174	41	2	1083	2	SCD	10	102120671	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1	102120671	33414076	220	38632	725	2								
COL17A1	1308	broad.mit.edu	37	chr10	105836091	105836091	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggcgggtaacgtgagttttcCtttcaaaggttgagcctggg	15	7	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:105836091C>A	uc001kxr.2	-	5	468	c.299G>T	c.(298-300)AGG>ATG	p.R100M	COL17A1_uc010qqv.1_Missense_Mutation_p.R100M|COL17A1_uc009xxp.1_Missense_Mutation_p.R100M	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	100	Cytoplasmic (Potential).|Nonhelical region (NC16).				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GTGAGTTTTCCTTTCAAAGGT	0.522													5	72	---	---	---	---	PASS	A	105836091	A	A	105836091	3	1	104	1	0	0	0	0	1	0	0	0	3674	681	24	3	4402	3	COL17A1	10	105836091	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3715420	105836091	29698656	221	38633										
PNLIP	5406	broad.mit.edu	37	chr10	118321053	118321053	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtggatgttggggacttgcaGatggttaaatttatttggta	14	2	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr10:118321053G>A	uc001lcm.2	+	12	1282	c.1239G>A	c.(1237-1239)CAG>CAA	p.Q413Q		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	413	PLAT.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	GGGACTTGCAGATGGTTAAAT	0.373													17	33	---	---	---	---	PASS	A	118321053	A	A	118321053	2	1	104	1	0	0	0	0	0	0	0	1	12149	933	33	2		2	PNLIP	10	118321053	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	12484962	118321053	17213694	222	38634										
CARS	833	broad.mit.edu	37	chr11	3050251	3050251	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	accgttgtccacaatcttctGgacaaagttcacaatttctg	6	11	4	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:3050251G>T	uc001lxh.2	-	8	831	c.757C>A	c.(757-759)CAG>AAG	p.Q253K	CARS_uc001lxe.2_Missense_Mutation_p.Q243K|CARS_uc001lxf.2_Missense_Mutation_p.Q336K|CARS_uc001lxg.2_Missense_Mutation_p.Q253K|CARS_uc010qxo.1_Missense_Mutation_p.Q336K|CARS_uc010qxp.1_Missense_Mutation_p.Q266K|uc001lxi.1_5'Flank	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	253					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	ACAATCTTCTGGACAAAGTTC	0.527			T	ALK	ALCL								6	89	---	---	---	---	PASS	T	3050251	T	T	3050251	3	4	104	1	0	0	0	0	1	0	0	0	2657	1357	47	3	1557	3	CARS	11	3050251	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08		3050251	131956265	223	38635										
STIM1	6786	broad.mit.edu	37	chr11	4104506	4104506	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcttcaggcaagcactgagcGaggtgacagcagcattgcgg	14	10	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:4104506G>T	uc001lyv.2	+	10	1820	c.1252G>T	c.(1252-1254)GAG>TAG	p.E418*	STIM1_uc009yef.2_Nonsense_Mutation_p.E418*|STIM1_uc009yeg.2_Nonsense_Mutation_p.E245*	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	418	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		AGCACTGAGCGAGGTGACAGC	0.542													4	52	---	---	---	---	PASS	T	4104506	T	T	4104506	4	4	104	1	0	0	0	0	0	1	0	0	15282	1059	37	2	1290	2	STIM1	11	4104506	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1054255	4104506	130902010	224	38636										
NLRP10	338322	broad.mit.edu	37	chr11	7981752	7981752	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atggcatgaaaaaagtcctgGaagctgatgtggcggaagct	14	6	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:7981752G>A	uc001mfv.1	-	2	1424	c.1407C>T	c.(1405-1407)TTC>TTT	p.F469F		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	469	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AAAAGTCCTGGAAGCTGATGT	0.512													13	72	---	---	---	---	PASS	A	7981752	A	A	7981752	2	1	104	1	0	0	0	0	0	0	0	1	10472	1165	41	2		2	NLRP10	11	7981752	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	3877246	7981752	127024764	225	38637										
ANO3	63982	broad.mit.edu	37	chr11	26619981	26619981	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tacttgggaccttatcgaatGggaagaagaggaggtaagat	14	4	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:26619981G>T	uc001mqt.3	+	15	1662	c.1517G>T	c.(1516-1518)TGG>TTG	p.W506L	ANO3_uc010rdr.1_Missense_Mutation_p.W490L|ANO3_uc010rds.1_Missense_Mutation_p.W345L|ANO3_uc010rdt.1_Missense_Mutation_p.W360L	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	506	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CTTATCGAATGGGAAGAAGAG	0.403													24	61	---	---	---	---	PASS	T	26619981	T	T	26619981	3	4	104	1	0	0	0	0	1	0	0	0	698	1357	47	3	1575	3	ANO3	11	26619981	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	18638229	26619981	108386535	226	38638										
CD44	960	broad.mit.edu	37	chr11	35250813	35250813	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	caaggagtcgtcagaaactcCagaccagtttatgacagctg	10	10	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:35250813C>A	uc001mvu.2	+	18	2596	c.2162C>A	c.(2161-2163)CCA>CAA	p.P721Q	CD44_uc001mvv.2_Missense_Mutation_p.P678Q|CD44_uc001mvw.2_Missense_Mutation_p.P472Q|CD44_uc001mvx.2_Missense_Mutation_p.P340Q|CD44_uc001mvy.2_Silent_p.S133S|CD44_uc001mwc.3_Missense_Mutation_p.P408Q|CD44_uc010rer.1_Missense_Mutation_p.P319Q|CD44_uc009ykh.2_RNA	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	721	Cytoplasmic (Potential).				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	all_cancers(35;0.212)|all_lung(20;0.0874)|all_epithelial(35;0.112)	all_hematologic(20;0.107)	STAD - Stomach adenocarcinoma(6;0.00731)		Hyaluronidase(DB00070)	TCAGAAACTCCAGACCAGTTT	0.478													7	168	---	---	---	---	PASS	A	35250813	A	A	35250813	3	1	104	1	0	0	0	0	1	0	0	0	3017	594	21	3	2232	3	CD44	11	35250813	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	8630832	35250813	99755703	227	38639										
SYT13	57586	broad.mit.edu	37	chr11	45274068	45274068	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tccccggccacgctgtgacgGgagaagcggtcgcaggtcct	15	14	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:45274068G>A	uc001myq.2	-	4	876	c.750C>T	c.(748-750)TCC>TCT	p.S250S	SYT13_uc009yku.1_Silent_p.S106S	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	250	Cytoplasmic (Potential).|C2 1.					transport vesicle				ovary(1)	1						CGCTGTGACGGGAGAAGCGGT	0.687											OREG0020928	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	33	---	---	---	---	PASS	A	45274068	A	A	45274068	2	1	104	1	0	0	0	0	0	0	0	1	15466	1219	43	3		3	SYT13	11	45274068	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	10023255	45274068	89732448	228	38640										
C11orf49	79096	broad.mit.edu	37	chr11	47073976	47073976	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agggaacacacattctctttCgagaattcagcttcgtccaa	7	11	2	1	rs14051		TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:47073976C>T	uc001ndp.2	+	3	293	c.187C>T	c.(187-189)CGA>TGA	p.R63*	C11orf49_uc001nds.2_Nonsense_Mutation_p.R63*|C11orf49_uc001ndq.2_Nonsense_Mutation_p.R63*|C11orf49_uc001ndr.2_Nonsense_Mutation_p.R63*|C11orf49_uc010rgx.1_5'UTR|C11orf49_uc010rgy.1_Nonsense_Mutation_p.R54*|C11orf49_uc010rgz.1_Intron	NM_024113	NP_077018	Q9H6J7	CK049_HUMAN	hypothetical protein LOC79096 isoform 3	63											0						CATTCTCTTTCGAGAATTCAG	0.453													28	60	---	---	---	---	PASS	T	47073976	T	T	47073976	4	4	104	1	0	0	0	0	0	1	0	0	1645	876	31	2	197	2	C11orf49	11	47073976	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	1799908	47073976	87932540	229	38641										
OR4A15	81328	broad.mit.edu	37	chr11	55136361	55136361	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaactttggagtaaaaaagtAagcttagctgggaaatggct	11	4	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:55136361A>C	uc010rif.1	+	1	1002	c.1002A>C	c.(1000-1002)GTA>GTC	p.V334V		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	334	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GTAAAAAAGTAAGCTTAGCTG	0.368													15	59	---	---	---	---	PASS	C	55136361	C	C	55136361	2	2	104	1	0	0	0	0	0	0	0	1	11040	349	13	5		5	OR4A15	11	55136361	Silent	SNP	A	TCGA-46-3765-01A-01D-0983-08	8062385	55136361	79870155	230	38642										
OR5D14	219436	broad.mit.edu	37	chr11	55563596	55563596	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agtatactgctctcatctctGtgtctggctctgatatactc	7	11	4	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:55563596G>C	uc010rim.1	+	1	565	c.565G>C	c.(565-567)GTG>CTG	p.V189L		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				TCTCATCTCTGTGTCTGGCTC	0.448													19	84	---	---	---	---	PASS	C	55563596	C	C	55563596	3	2	104	1	0	0	0	0	1	0	0	0	11155	1377	48	4	567	4	OR5D14	11	55563596	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	427235	55563596	79442920	231	38643										
OR5D18	219438	broad.mit.edu	37	chr11	55587562	55587562	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttgtgggatcctatgcctggGgagtctcatgttccttggaa	13	8	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:55587562G>A	uc010rin.1	+	1	457	c.457G>A	c.(457-459)GGA>AGA	p.G153R		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	153	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				CTATGCCTGGGGAGTCTCATG	0.478													12	84	---	---	---	---	PASS	A	55587562	A	A	55587562	3	1	104	1	0	0	0	0	1	0	0	0	11157	1233	43	3	459	3	OR5D18	11	55587562	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	23966	55587562	79418954	232	38644										
UBE2L6	9246	broad.mit.edu	37	chr11	57319960	57319960	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctgatattcggtctattcacCagcacattgagggcctccag	9	12	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:57319960C>A	uc001nkn.1	-	4	429	c.333G>T	c.(331-333)CTG>CTT	p.L111L	UBE2L6_uc001nko.1_Silent_p.L45L	NM_004223	NP_004214	O14933	UB2L6_HUMAN	ubiquitin-conjugating enzyme E2L 6 isoform 1	111					negative regulation of type I interferon production	cytosol	protein binding|ubiquitin-protein ligase activity			ovary(1)	1						GTCTATTCACCAGCACATTGA	0.572													5	92	---	---	---	---	PASS	A	57319960	A	A	57319960	2	1	104	1	0	0	0	0	0	0	0	1	16861	581	21	3		3	UBE2L6	11	57319960	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	1732398	57319960	77686556	233	38645										
OR4D9	390199	broad.mit.edu	37	chr11	59282973	59282973	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	actgacaccttcactctggaGctcctgatgatttcaaataa	6	11	3	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:59282973G>T	uc010rkv.1	+	1	588	c.588G>T	c.(586-588)GAG>GAT	p.E196D		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	196	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCACTCTGGAGCTCCTGATGA	0.468													15	72	---	---	---	---	PASS	T	59282973	T	T	59282973	3	4	104	1	0	0	0	0	1	0	0	0	11059	962	34	3	590	3	OR4D9	11	59282973	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1963013	59282973	75723543	234	38646										
EIF1AD	84285	broad.mit.edu	37	chr11	65766854	65766854	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgtgtttctcagccacttcaGagaaggcctcaggcctatgc	10	12	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:65766854G>T	uc001ogm.1	-	5	605	c.320C>A	c.(319-321)TCT>TAT	p.S107Y	EIF1AD_uc001ogn.1_Missense_Mutation_p.S107Y|BANF1_uc001ogo.2_5'Flank|BANF1_uc001ogp.2_5'Flank	NM_032325	NP_115701	Q8N9N8	EIF1A_HUMAN	eukaryotic translation initiation factor 1A	107						nucleus	translation initiation factor activity				0						AGCCACTTCAGAGAAGGCCTC	0.498													9	290	---	---	---	---	PASS	T	65766854	T	T	65766854	3	4	104	1	0	0	0	0	1	0	0	0	4991	942	33	2	185	2	EIF1AD	11	65766854	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	6483881	65766854	69239662	235	38647										
C11orf80	79703	broad.mit.edu	37	chr11	66571479	66571479	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctgacagtagaccaaattttGgtacaattgaatcacactgc	7	9	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:66571479G>T	uc001ojf.2	+	9	863	c.856G>T	c.(856-858)GGT>TGT	p.G286C	C11orf80_uc001ojg.2_Missense_Mutation_p.G52C|C11orf80_uc001ojh.2_Missense_Mutation_p.G53C|C11orf80_uc001oji.2_Missense_Mutation_p.G53C|C11orf80_uc010rpk.1_Missense_Mutation_p.G121C	NM_024650	NP_078926	Q8N6T0	CK080_HUMAN	hypothetical protein LOC79703	131											0						ACCAAATTTTGGTACAATTGA	0.368													6	171	---	---	---	---	PASS	T	66571479	T	T	66571479	3	4	104	1	0	0	0	0	1	0	0	0	1664	1348	47	3	890	3	C11orf80	11	66571479	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	804625	66571479	68435037	236	38648										
TPCN2	219931	broad.mit.edu	37	chr11	68840410	68840410	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gttcctatggcagtgttctgCtctcagctgaggagtttcag	12	9	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:68840410C>T	uc001oos.2	+	13	1287	c.1171C>T	c.(1171-1173)CTC>TTC	p.L391F	TPCN2_uc009ysk.1_RNA|TPCN2_uc001oor.2_Missense_Mutation_p.L306F|TPCN2_uc010rqg.1_Missense_Mutation_p.L391F|TPCN2_uc001oot.2_RNA	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	391	Cytoplasmic (Potential).				cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CAGTGTTCTGCTCTCAGCTGA	0.607													9	27	---	---	---	---	PASS	T	68840410	T	T	68840410	3	4	104	1	0	0	0	0	1	0	0	0	16393	797	28	3	1221	3	TPCN2	11	68840410	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	2268931	68840410	66166106	237	38649										
CHRDL2	25884	broad.mit.edu	37	chr11	74413877	74413877	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggtagatctccaccaagtccGaggcctcgtgttccagggca	12	13	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:74413877G>T	uc001ovi.2	-	9	1335	c.1082C>A	c.(1081-1083)TCG>TAG	p.S361*	CHRDL2_uc001ovg.2_Nonsense_Mutation_p.S245*|CHRDL2_uc001ovh.2_Nonsense_Mutation_p.S361*|CHRDL2_uc001ovj.1_RNA|CHRDL2_uc001ovk.1_Nonsense_Mutation_p.S296*			Q6WN34	CRDL2_HUMAN	RecName: Full=Chordin-like protein 2; AltName: Full=Chordin-related protein 2; AltName: Full=Breast tumor novel factor 1;          Short=BNF-1; Flags: Precursor;	361					cartilage development|cell differentiation|ossification	extracellular region|mitochondrion					0	Hepatocellular(1;0.098)					CACCAAGTCCGAGGCCTCGTG	0.632											OREG0021223	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	60	---	---	---	---	PASS	T	74413877	T	T	74413877	4	4	104	1	0	0	0	0	0	1	0	0	3374	1059	37	2	289	2	CHRDL2	11	74413877	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	5573467	74413877	60592639	238	38650										
USP35	57558	broad.mit.edu	37	chr11	77921353	77921353	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tctctttcgacctgcgcaccAtgcggcgccgcaagatcctg	10	16	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:77921353A>T	uc009yva.1	+	10	2698	c.2452A>T	c.(2452-2454)ATG>TTG	p.M818L	USP35_uc001oze.2_Missense_Mutation_p.M574L|USP35_uc001ozc.2_Missense_Mutation_p.M386L|USP35_uc010rsp.1_Missense_Mutation_p.M250L|USP35_uc001ozd.2_Missense_Mutation_p.M429L|USP35_uc001ozf.2_Missense_Mutation_p.M549L	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	818					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			CCTGCGCACCATGCGGCGCCG	0.647													12	41	---	---	---	---	PASS	T	77921353	T	T	77921353	3	4	104	1	0	0	0	0	1	0	0	0	17063	217	8	5	2486	5	USP35	11	77921353	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	3507476	77921353	57085163	239	38651										
FAT3	120114	broad.mit.edu	37	chr11	92531931	92531931	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	actctgaggtaccccctgaaCtgacatacagcctaatggaa	8	12	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:92531931C>G	uc001pdj.3	+	9	5769	c.5752C>G	c.(5752-5754)CTG>GTG	p.L1918V		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1918	Cadherin 17.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACCCCCTGAACTGACATACAG	0.423										TCGA Ovarian(4;0.039)			17	39	---	---	---	---	PASS	G	92531931	G	G	92531931	3	3	104	1	0	0	0	0	1	0	0	0	5691	564	20	4	5786	4	FAT3	11	92531931	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	14610578	92531931	42474585	240	38652										
FAT3	120114	broad.mit.edu	37	chr11	92533017	92533017	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttgacttgctagttaatgatGtaaatgacaacccccctatt	6	9	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:92533017G>T	uc001pdj.3	+	9	6855	c.6838G>T	c.(6838-6840)GTA>TTA	p.V2280L		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2280	Cadherin 20.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGTTAATGATGTAAATGACAA	0.418										TCGA Ovarian(4;0.039)			11	35	---	---	---	---	PASS	T	92533017	T	T	92533017	3	4	104	1	0	0	0	0	1	0	0	0	5691	1377	48	3	6872	3	FAT3	11	92533017	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1086	92533017	42473499	241	38653										
SORL1	6653	broad.mit.edu	37	chr11	121460075	121460075	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acgggatggatgattgcggcGattattctgatgaagccaac	13	7	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:121460075G>C	uc001pxx.2	+	29	4134	c.4054G>C	c.(4054-4056)GAT>CAT	p.D1352H	SORL1_uc010rzp.1_Missense_Mutation_p.D198H|SORL1_uc010rzq.1_5'Flank	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1352	Extracellular (Potential).|LDL-receptor class A 7.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		TGATTGCGGCGATTATTCTGA	0.483													31	92	---	---	---	---	PASS	C	121460075	C	C	121460075	3	2	104	1	0	0	0	0	1	0	0	0	14934	1058	37	2	4168	2	SORL1	11	121460075	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	28927058	121460075	13546441	242	38654										
GRAMD1B	57476	broad.mit.edu	37	chr11	123476185	123476185	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gagcagtgaggcccccgtctCggtatgggcagtcagccttt	14	12	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:123476185C>A	uc001pyx.2	+	9	1222	c.893C>A	c.(892-894)TCG>TAG	p.S298*	GRAMD1B_uc001pyw.2_Nonsense_Mutation_p.S305*|GRAMD1B_uc010rzw.1_Nonsense_Mutation_p.S258*|GRAMD1B_uc010rzx.1_Nonsense_Mutation_p.S258*|GRAMD1B_uc009zbe.1_Nonsense_Mutation_p.S294*|GRAMD1B_uc001pyy.2_5'Flank	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	298						integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		GCCCCCGTCTCGGTATGGGCA	0.562													4	81	---	---	---	---	PASS	A	123476185	A	A	123476185	4	1	104	1	0	0	0	0	0	1	0	0	6748	898	31	2	927	2	GRAMD1B	11	123476185	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	2016110	123476185	11530331	243	38655										
ARHGAP32	9743	broad.mit.edu	37	chr11	128839232	128839232	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agggtcgctccatctctttgGagagccttacctctttgtgg	11	11	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:128839232G>A	uc009zcp.2	-	22	5834	c.5834C>T	c.(5833-5835)TCC>TTC	p.S1945F	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.S904F|ARHGAP32_uc001qez.2_Missense_Mutation_p.S1596F	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1945	Interaction with FYN.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						CATCTCTTTGGAGAGCCTTAC	0.507													15	41	---	---	---	---	PASS	A	128839232	A	A	128839232	3	1	104	1	0	0	0	0	1	0	0	0	881	1174	41	2	433	2	ARHGAP32	11	128839232	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	5363047	128839232	6167284	244	38656										
VPS26B	112936	broad.mit.edu	37	chr11	134114844	134114844	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccctacaggagagtccatccCgatccggctcttcctggccg	10	17	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr11:134114844C>T	uc001qhe.2	+	5	1190	c.734C>T	c.(733-735)CCG>CTG	p.P245L		NM_052875	NP_443107	Q4G0F5	VP26B_HUMAN	vacuolar protein sorting 26 homolog B	245					protein transport|vacuolar transport	cytosol|retromer complex					0	all_hematologic(175;0.127)	all_cancers(12;1.1e-21)|all_epithelial(12;3.77e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;2.43e-10)|all cancers(11;2.94e-09)|BRCA - Breast invasive adenocarcinoma(10;9.57e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00164)|Lung(977;0.216)		GAGTCCATCCCGATCCGGCTC	0.582											OREG0021548	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	28	---	---	---	---	PASS	T	134114844	T	T	134114844	3	4	104	1	0	0	0	0	1	0	0	0	17195	652	23	1	752	1	VPS26B	11	134114844	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	5275612	134114844	891672	245	38657										
VWF	7450	broad.mit.edu	37	chr12	6058963	6058963	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agcccttacctggcagtagtGgatatccacctctacttcag	8	13	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:6058963G>T	uc001qnn.1	-	51	8492	c.8242C>A	c.(8242-8244)CAC>AAC	p.H2748N	VWF_uc010set.1_3'UTR	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2748	CTCK.				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)	TGGCAGTAGTGGATATCCACC	0.522													5	67	---	---	---	---	PASS	T	6058963	T	T	6058963	3	4	104	1	0	0	0	0	1	0	0	0	17243	1348	47	3	207	3	VWF	12	6058963	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08		6058963	127792932	246	38658										
ITPR2	3709	broad.mit.edu	37	chr12	26780971	26780971	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtcacaaaaagatacctgatGgtagtaaagtgtctggagat	11	5	2	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:26780971G>T	uc001rhg.2	-	23	3476	c.3059C>A	c.(3058-3060)CCA>CAA	p.P1020Q		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1020	Cytoplasmic (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)					GATACCTGATGGTAGTAAAGT	0.318													13	204	---	---	---	---	PASS	T	26780971	T	T	26780971	3	4	104	1	0	0	0	0	1	0	0	0	7921	1348	47	3	5186	3	ITPR2	12	26780971	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	20722008	26780971	107070924	247	38659										
BICD1	636	broad.mit.edu	37	chr12	32490544	32490544	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atggctatccagcaaaaactCgccctgacccagaggctgga	10	13	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:32490544C>G	uc001rku.2	+	7	2445	c.2364C>G	c.(2362-2364)CTC>CTG	p.L788L	BICD1_uc001rkv.2_Silent_p.L788L|BICD1_uc010skd.1_RNA|BICD1_uc001rkw.1_Silent_p.L70L	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	788	Potential.|Interacts with RAB6A.				anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			AGCAAAAACTCGCCCTGACCC	0.498													12	38	---	---	---	---	PASS	G	32490544	G	G	32490544	2	3	104	1	0	0	0	0	0	0	0	1	1428	871	31	2		2	BICD1	12	32490544	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	5709573	32490544	101361351	248	38660										
SLC2A13	114134	broad.mit.edu	37	chr12	40422151	40422151	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aatgttgtttttgatgctatCatattcctcatcaatggtct	6	7	4	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:40422151C>T	uc010skm.1	-	3	928	c.877G>A	c.(877-879)GAT>AAT	p.D293N	SLC2A13_uc001rmf.2_Missense_Mutation_p.D293N	NM_052885	NP_443117	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose	293	Cytoplasmic (Potential).					integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)				TTGATGCTATCATATTCCTCA	0.383										HNSCC(50;0.14)			30	83	---	---	---	---	PASS	T	40422151	T	T	40422151	3	4	104	1	0	0	0	0	1	0	0	0	14542	826	29	2	1101	2	SLC2A13	12	40422151	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	7931607	40422151	93429744	249	38661										
TMEM106C	79022	broad.mit.edu	37	chr12	48360006	48360006	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cttattccacctcggagtgaGcaactggtatgctgttcttt	9	10	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:48360006G>T	uc001rqp.2	+	5	661	c.546G>T	c.(544-546)GAG>GAT	p.E182D	TMEM106C_uc001rqo.2_Intron|TMEM106C_uc001rqr.2_Missense_Mutation_p.E182D|TMEM106C_uc001rqq.2_Intron	NM_024056	NP_076961	Q9BVX2	T106C_HUMAN	transmembrane protein 106C isoform a	182						endoplasmic reticulum membrane|integral to membrane					0		Acute lymphoblastic leukemia(13;0.11)		GBM - Glioblastoma multiforme(48;0.241)		CTCGGAGTGAGCAACTGGTAT	0.493													8	33	---	---	---	---	PASS	T	48360006	T	T	48360006	3	4	104	1	0	0	0	0	1	0	0	0	16019	962	34	3	560	3	TMEM106C	12	48360006	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	7937855	48360006	85491889	250	38662										
MLL2	8085	broad.mit.edu	37	chr12	49420064	49420064	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gttctcaccaatagaacagcGatagcagcagcgacgattgt	10	10	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:49420064G>T	uc001rta.3	-	48	15685	c.15685C>A	c.(15685-15687)CGC>AGC	p.R5229S		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5229	FYR N-terminal.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						ATAGAACAGCGATAGCAGCAG	0.582			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			4	53	---	---	---	---	PASS	T	49420064	T	T	49420064	3	4	104	1	0	0	0	0	1	0	0	0	9621	1058	37	2	956	2	MLL2	12	49420064	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1060058	49420064	84431831	251	38663										
MLL2	8085	broad.mit.edu	37	chr12	49446494	49446494	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aggctctgggggtgaaaatcTgcagagggtacaggggagca	18	6	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:49446494T>A	uc001rta.3	-	9	1113	c.1113_splice	c.e9-1	p.R371_splice		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2						chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GGTGAAAATCTGCAGAGGGTA	0.597			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			6	14	---	---	---	---	PASS	A	49446494	A	A	49446494	5	1	104	1	0	0	0	0	0	0	1	0	9621	1594	55	5	15686	5	MLL2	12	49446494	Splice_Site	SNP	T	TCGA-46-3765-01A-01D-0983-08	26430	49446494	84405401	252	38664										
LMBR1L	55716	broad.mit.edu	37	chr12	49491879	49491879	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agtcacccagcaggtcaaagCgagtgagccctgaagcacaa	11	12	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:49491879C>A	uc001rth.3	-	16	1592	c.1250G>T	c.(1249-1251)CGC>CTC	p.R417L	LMBR1L_uc001rtg.3_Missense_Mutation_p.R412L|LMBR1L_uc001rti.3_Missense_Mutation_p.R397L	NM_018113	NP_060583	Q6UX01	LMBRL_HUMAN	lipocalin-interacting membrane receptor	417	Extracellular (Potential).				endocytosis	integral to membrane|plasma membrane	receptor activity			pancreas(1)	1						CAGGTCAAAGCGAGTGAGCCC	0.557											OREG0021783	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	52	132	---	---	---	---	PASS	A	49491879	A	A	49491879	3	1	104	1	0	0	0	0	1	0	0	0	8841	768	27	1	227	1	LMBR1L	12	49491879	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	45385	49491879	84360016	253	38665										
KRT77	374454	broad.mit.edu	37	chr12	53091605	53091605	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gggctccaggttgttggttcCagttgaggtgttcacctgct	14	9	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:53091605C>A	uc001saw.2	-	2	648	c.619G>T	c.(619-621)GGA>TGA	p.G207*	KRT77_uc009zmi.2_5'UTR	NM_175078	NP_778253	Q7Z794	K2C1B_HUMAN	keratin 77	207	Linker 1.|Rod.					keratin filament	structural molecule activity			ovary(1)	1						TTGTTGGTTCCAGTTGAGGTG	0.567													7	169	---	---	---	---	PASS	A	53091605	A	A	53091605	4	1	104	1	0	0	0	0	0	1	0	0	8490	603	21	3	1149	3	KRT77	12	53091605	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3599726	53091605	80760290	254	38666										
SOAT2	8435	broad.mit.edu	37	chr12	53516877	53516877	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cctgccagctccttggtgccCgggcccgaggggtagccatg	15	15	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:53516877C>T	uc001sbv.2	+	13	1337	c.1249C>T	c.(1249-1251)CGG>TGG	p.R417W	SOAT2_uc009zms.2_RNA	NM_003578	NP_003569	O75908	SOAT2_HUMAN	acyl-CoA:cholesterol acyltransferase 2	417					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|macrophage derived foam cell differentiation|very-low-density lipoprotein particle assembly	brush border|endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			ovary(1)	1						CCTTGGTGCCCGGGCCCGAGG	0.532													7	9	---	---	---	---	PASS	T	53516877	T	T	53516877	3	4	104	1	0	0	0	0	1	0	0	0	14911	643	23	1	1299	1	SOAT2	12	53516877	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	425272	53516877	80335018	255	38667										
CSAD	51380	broad.mit.edu	37	chr12	53565707	53565707	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cagagctccagcccaccaggGcccgcagtttcctcagcacc	9	19	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:53565707G>A	uc001sby.2	-	6	536	c.410C>T	c.(409-411)GCC>GTC	p.A137V	CSAD_uc001sbw.2_Intron|CSAD_uc009zmt.2_5'UTR|CSAD_uc010snx.1_Missense_Mutation_p.A164V|CSAD_uc001sbz.2_Missense_Mutation_p.A137V|CSAD_uc009zmu.2_Intron|CSAD_uc001sca.3_RNA|CSAD_uc010sny.1_Missense_Mutation_p.A137V	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	137					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	GCCCACCAGGGCCCGCAGTTT	0.557									Hereditary_Prostate_Cancer				10	43	---	---	---	---	PASS	A	53565707	A	A	53565707	3	1	104	1	0	0	0	0	1	0	0	0	3925	1203	42	3	1115	3	CSAD	12	53565707	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	48830	53565707	80286188	256	38668										
ITGA5	3678	broad.mit.edu	37	chr12	54792386	54792386	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tggccctagactcacctgacGctctttttggggcagctgcc	11	14	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:54792386G>T	uc001sga.2	-	28	3006	c.2938C>A	c.(2938-2940)CGT>AGT	p.R980S		NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	980	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						CTCACCTGACGCTCTTTTTGG	0.582													9	20	---	---	---	---	PASS	T	54792386	T	T	54792386	3	4	104	1	0	0	0	0	1	0	0	0	7879	1087	38	1	223	1	ITGA5	12	54792386	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1226679	54792386	79059509	257	38669										
HELB	92797	broad.mit.edu	37	chr12	66725230	66725230	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcatctccactccctgtagtCacagaccacgccatgacaaa	6	16	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:66725230C>T	uc001sti.2	+	12	2995	c.2967C>T	c.(2965-2967)GTC>GTT	p.V989V	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	989					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		TCCCTGTAGTCACAGACCACG	0.562													7	31	---	---	---	---	PASS	T	66725230	T	T	66725230	2	4	104	1	0	0	0	0	0	0	0	1	7045	813	29	2		2	HELB	12	66725230	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	11932844	66725230	67126665	258	38670										
PTPRB	5787	broad.mit.edu	37	chr12	70928645	70928645	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaactcccggatggtccactCaggcaggacggactctgaga	12	12	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:70928645C>T	uc001swb.3	-	28	5548	c.5518G>A	c.(5518-5520)GAG>AAG	p.E1840K	uc001svz.2_Intron|PTPRB_uc010sto.1_Missense_Mutation_p.E1750K|PTPRB_uc010stp.1_Missense_Mutation_p.E1750K|PTPRB_uc001swc.3_Missense_Mutation_p.E2058K|PTPRB_uc001swa.3_Missense_Mutation_p.E1970K	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1840	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			ATGGTCCACTCAGGCAGGACG	0.507													19	48	---	---	---	---	PASS	T	70928645	T	T	70928645	3	4	104	1	0	0	0	0	1	0	0	0	12796	835	29	2	495	2	PTPRB	12	70928645	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	4203415	70928645	62923250	259	38671										
NAV3	89795	broad.mit.edu	37	chr12	78400703	78400703	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tctcagcaataaaaagtcttTgctacagccaaaggaaaaag	7	8	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:78400703T>A	uc001syp.2	+	8	1558	c.1385T>A	c.(1384-1386)TTG>TAG	p.L462*	NAV3_uc001syo.2_Nonsense_Mutation_p.L462*	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	462						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AAAAAGTCTTTGCTACAGCCA	0.418										HNSCC(70;0.22)			29	73	---	---	---	---	PASS	A	78400703	A	A	78400703	4	1	104	1	0	0	0	0	0	1	0	0	10185	1821	63	5	1415	5	NAV3	12	78400703	Nonsense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	7472058	78400703	55451192	260	38672										
IKBIP	121457	broad.mit.edu	37	chr12	99007382	99007382	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	actaattcatatctgaaatgTgtgctatttcatctttaata	4	6	4	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:99007382T>C	uc001tfv.2	-	3	1144	c.1034A>G	c.(1033-1035)CAC>CGC	p.H345R	IKBIP_uc001tfw.2_3'UTR	NM_201612	NP_963906	Q70UQ0	IKIP_HUMAN	IKK interacting protein isoform 2	345					induction of apoptosis|response to X-ray	endoplasmic reticulum membrane|integral to membrane	protein binding				0						ATCTGAAATGTGTGCTATTTC	0.274													17	50	---	---	---	---	PASS	C	99007382	C	C	99007382	3	2	104	1	0	0	0	0	1	0	0	0	7609	1696	59	5	22	5	IKBIP	12	99007382	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	20606679	99007382	34844513	261	38673										
NUP37	79023	broad.mit.edu	37	chr12	102505967	102505967	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgactccatggtgaaatgttCgaagtgttttatactgaatg	10	5	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:102505967C>A	uc001tjc.2	-	2	265	c.200G>T	c.(199-201)CGA>CTA	p.R67L	NUP37_uc009zub.1_Missense_Mutation_p.R67L	NM_024057	NP_076962	Q8NFH4	NUP37_HUMAN	nucleoporin 37kDa	67					carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			ovary(1)	1						GTGAAATGTTCGAAGTGTTTT	0.368													4	66	---	---	---	---	PASS	A	102505967	A	A	102505967	3	1	104	1	0	0	0	0	1	0	0	0	10764	884	31	2	812	2	NUP37	12	102505967	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3498585	102505967	31345928	262	38674										
CORO1C	23603	broad.mit.edu	37	chr12	109042780	109042780	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aataggttcacactttctctCatgaagtttgaagaatcttc	6	8	4	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:109042780C>A	uc001tnj.2	-	9	1114	c.1018G>T	c.(1018-1020)GAG>TAG	p.E340*	CORO1C_uc009zva.2_Nonsense_Mutation_p.E393*|CORO1C_uc010sxf.1_Nonsense_Mutation_p.E303*	NM_014325	NP_055140	Q9ULV4	COR1C_HUMAN	coronin, actin binding protein, 1C isoform 1	340					actin cytoskeleton organization|phagocytosis|signal transduction	actin cytoskeleton	actin filament binding			skin(3)	3						CACTTTCTCTCATGAAGTTTG	0.328													5	44	---	---	---	---	PASS	A	109042780	A	A	109042780	4	1	104	1	0	0	0	0	0	1	0	0	3755	835	29	2	418	2	CORO1C	12	109042780	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	6536813	109042780	24809115	263	38675										
HNF1A	6927	broad.mit.edu	37	chr12	121434449	121434449	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agcagccccagaacctcatcAtggcctcacttcctggggtc	9	16	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr12:121434449A>T	uc001tzg.2	+	6	1236	c.1213A>T	c.(1213-1215)ATG>TTG	p.M405L	HNF1A_uc001tze.1_Missense_Mutation_p.M405L|HNF1A_uc001tzf.2_Missense_Mutation_p.M405L|HNF1A_uc010szn.1_Missense_Mutation_p.M405L	NM_000545	NP_000536	P20823	HNF1A_HUMAN	hepatic nuclear factor-1-alpha	405					glucose homeostasis|glucose import|insulin secretion|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|renal glucose absorption	cytoplasm|nucleus|protein complex	DNA binding|protein dimerization activity|protein heterodimerization activity|protein homodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			liver(92)|large_intestine(15)|endometrium(6)|breast(2)|lung(1)	116	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GAACCTCATCATGGCCTCACT	0.637									Hepatic_Adenoma_Familial_Clustering_of				5	15	---	---	---	---	PASS	T	121434449	T	T	121434449	3	4	104	1	0	0	0	0	1	0	0	0	7251	217	8	5	1235	5	HNF1A	12	121434449	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	12391669	121434449	12417446	264	38676										
XPO4	64328	broad.mit.edu	37	chr13	21436984	21436984	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcttgaaagaggacatagtcCactttactagtttctgagga	10	7	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr13:21436984C>A	uc001unq.3	-	3	225	c.189G>T	c.(187-189)GTG>GTT	p.V63V	XPO4_uc010tcr.1_5'UTR	NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	63					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		GGACATAGTCCACTTTACTAG	0.348													7	170	---	---	---	---	PASS	A	21436984	A	A	21436984	2	1	104	1	0	0	0	0	0	0	0	1	17443	581	21	3		3	XPO4	13	21436984	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08		21436984	93732894	265	38677										
PABPC3	5042	broad.mit.edu	37	chr13	25670378	25670378	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tacccaacggcctcgctctaCgtgggggacctccaccccga	10	18	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr13:25670378C>G	uc001upy.2	+	1	103	c.42C>G	c.(40-42)TAC>TAG	p.Y14*		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	14	RRM 1.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		CCTCGCTCTACGTGGGGGACC	0.637													11	20	---	---	---	---	PASS	G	25670378	G	G	25670378	4	3	104	1	0	0	0	0	0	1	0	0	11365	547	19	4	44	4	PABPC3	13	25670378	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	4233394	25670378	89499500	266	38678										
SHISA2	387914	broad.mit.edu	37	chr13	26620919	26620919	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcatggtcccttccggcaagCaacagttggtctgtgacctt	10	12	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr13:26620919C>A	uc001uqm.1	-	2	705	c.620G>T	c.(619-621)TGC>TTC	p.C207F		NM_001007538	NP_001007539	Q6UWI4	SHSA2_HUMAN	shisa homolog 2 precursor	207	Cytoplasmic (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2						TTCCGGCAAGCAACAGTTGGT	0.602													7	33	---	---	---	---	PASS	A	26620919	A	A	26620919	3	1	104	1	0	0	0	0	1	0	0	0	14280	710	25	3	271	3	SHISA2	13	26620919	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	950541	26620919	88548959	267	38679										
FLT1	2321	broad.mit.edu	37	chr13	28919617	28919617	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gataaagagggttaataggaGccagaagagagtcgcagcca	14	6	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr13:28919617G>T	uc001usb.3	-	16	2605	c.2320C>A	c.(2320-2322)CTC>ATC	p.L774I	FLT1_uc001usa.3_5'UTR	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	774	Helical; (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)	GTTAATAGGAGCCAGAAGAGA	0.413													8	18	---	---	---	---	PASS	T	28919617	T	T	28919617	3	4	104	1	0	0	0	0	1	0	0	0	5941	971	34	3	1756	3	FLT1	13	28919617	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2298698	28919617	86250261	268	38680										
FRY	10129	broad.mit.edu	37	chr13	32709039	32709039	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atactctttttctgcttcccAggaatgtgcacattacttcc	5	12	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr13:32709039A>T	uc001utx.2	+	9	1382	c.886_splice	c.e9-2	p.E296_splice	FRY_uc010tdw.1_Splice_Site	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog						regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		TCTGCTTCCCAGGAATGTGCA	0.393													22	57	---	---	---	---	PASS	T	32709039	T	T	32709039	5	4	104	1	0	0	0	0	0	0	1	0	6063	202	7	5	918	5	FRY	13	32709039	Splice_Site	SNP	A	TCGA-46-3765-01A-01D-0983-08	3789422	32709039	82460839	269	38681										
PDS5B	23047	broad.mit.edu	37	chr13	33344601	33344601	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaaaaaaatctggacctccaGcaccagaggaggaggaagaa	11	8	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr13:33344601G>T	uc010abf.2	+	32	4125	c.3967G>T	c.(3967-3969)GCA>TCA	p.A1323S	PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1323					cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		TGGACCTCCAGCACCAGAGGA	0.453													11	55	---	---	---	---	PASS	T	33344601	T	T	33344601	3	4	104	1	0	0	0	0	1	0	0	0	11692	971	34	3	4089	3	PDS5B	13	33344601	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	635562	33344601	81825277	270	38682										
LECT1	11061	broad.mit.edu	37	chr13	53307398	53307398	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgcttcttcagctccacttcCcattttaaaggtctccaagt	5	13	3	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr13:53307398C>A	uc001vhf.2	-	3	421	c.310G>T	c.(310-312)GGA>TGA	p.G104*	LECT1_uc001vhg.2_Nonsense_Mutation_p.G104*|LECT1_uc001vhh.2_Nonsense_Mutation_p.G131*	NM_007015	NP_008946	O75829	LECT1_HUMAN	leukocyte cell derived chemotaxin 1 isoform 1	104	BRICHOS.				cartilage development|proteoglycan metabolic process	endomembrane system|extracellular region|integral to membrane				ovary(2)	2		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.38e-08)		GCTCCACTTCCCATTTTAAAG	0.388													6	93	---	---	---	---	PASS	A	53307398	A	A	53307398	4	1	104	1	0	0	0	0	0	1	0	0	8712	632	22	3	714	3	LECT1	13	53307398	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	19962797	53307398	61862480	271	38683										
KLHL1	57626	broad.mit.edu	37	chr13	70681347	70681347	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tactgtacctgtgtccacatCcttcacctgttgcctggcta	7	14	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr13:70681347C>G	uc001vip.2	-	1	1279	c.485G>C	c.(484-486)GGA>GCA	p.G162A	KLHL1_uc010thm.1_Missense_Mutation_p.G162A|ATXN8OS_uc010aej.1_RNA	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	162					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		GTGTCCACATCCTTCACCTGT	0.517													25	40	---	---	---	---	PASS	G	70681347	G	G	70681347	3	3	104	1	0	0	0	0	1	0	0	0	8365	855	30	2	1805	2	KLHL1	13	70681347	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	17373949	70681347	44488531	272	38684										
CLDN10	9071	broad.mit.edu	37	chr13	96086185	96086185	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgagtggaaagtgaccacgcGagcctcctcggtgataacag	13	10	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr13:96086185G>A	uc001vmg.2	+	1	333	c.98G>A	c.(97-99)CGA>CAA	p.R33Q	CLDN10_uc010tii.1_Missense_Mutation_p.R33Q	NM_182848	NP_878268	P78369	CLD10_HUMAN	claudin 10 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.18)			GTGACCACGCGAGCCTCCTCG	0.562													8	29	---	---	---	---	PASS	A	96086185	A	A	96086185	3	1	104	1	0	0	0	0	1	0	0	0	3472	1058	37	2	100	2	CLDN10	13	96086185	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	25404838	96086185	19083693	273	38685										
RASA3	22821	broad.mit.edu	37	chr13	114781703	114781703	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcaaggttttctccgtctttCaacttcacagggtcgatttc	7	11	5	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr13:114781703C>T	uc001vui.2	-	13	1382	c.1251G>A	c.(1249-1251)TTG>TTA	p.L417L	RASA3_uc010tkk.1_Silent_p.L385L|RASA3_uc001vuj.2_Silent_p.L34L	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	417	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			CTCCGTCTTTCAACTTCACAG	0.517													4	15	---	---	---	---	PASS	T	114781703	T	T	114781703	2	4	104	1	0	0	0	0	0	0	0	1	13062	825	29	2		2	RASA3	13	114781703	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	18695518	114781703	388175	274	38686										
ZNF828	283489	broad.mit.edu	37	chr13	115091231	115091231	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agtagtagtgagtacataaaAacagatttggatgcgatgga	12	3	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr13:115091231A>T	uc010ahb.2	+	3	2243	c.1914A>T	c.(1912-1914)AAA>AAT	p.K638N	ZNF828_uc001vuv.2_Missense_Mutation_p.K638N|ZNF828_uc010tko.1_Missense_Mutation_p.K638N	NM_001164144	NP_001157616	Q96JM3	ZN828_HUMAN	zinc finger protein 828	638	Mediates localization to the chromosome and the spindle and negatively regulates chromosome alignment.				attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|protein localization to kinetochore|protein localization to microtubule|sister chromatid biorientation	condensed chromosome kinetochore|cytoplasm|nucleus|spindle	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_epithelial(44;0.122)|all_lung(25;0.123)	BRCA - Breast invasive adenocarcinoma(86;0.104)	OV - Ovarian serous cystadenocarcinoma(48;0.193)|Epithelial(10;0.197)		AGTACATAAAAACAGATTTGG	0.393													10	73	---	---	---	---	PASS	T	115091231	T	T	115091231	3	4	104	1	0	0	0	0	1	0	0	0	18178	11	1	5	1916	5	ZNF828	13	115091231	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	309528	115091231	78647	275	38687										
OR11H12	440153	broad.mit.edu	37	chr14	19378014	19378014	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cctttgatcagtaccttgctAtctgccgtcccttgctctat	6	14	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr14:19378014A>G	uc010tkp.1	+	1	421	c.421A>G	c.(421-423)ATC>GTC	p.I141V		NM_001013354	NP_001013372	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H,	141	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GTACCTTGCTATCTGCCGTCC	0.453													11	148	---	---	---	---	PASS	G	19378014	G	G	19378014	3	3	104	1	0	0	0	0	1	0	0	0	10927	449	16	5	423	5	OR11H12	14	19378014	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08		19378014	87971526	276	38688										
MYH7	4625	broad.mit.edu	37	chr14	23884304	23884304	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccagctcattctccagctccCgcacccgcgcttccagcttc	6	21	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr14:23884304C>T	uc001wjx.2	-	37	5565	c.5459G>A	c.(5458-5460)CGG>CAG	p.R1820Q		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1820	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CTCCAGCTCCCGCACCCGCGC	0.627													10	81	---	---	---	---	PASS	T	23884304	T	T	23884304	3	4	104	1	0	0	0	0	1	0	0	0	10039	652	23	1	364	1	MYH7	14	23884304	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	4506290	23884304	83465236	277	38689										
NOVA1	4857	broad.mit.edu	37	chr14	26917955	26917955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgagacagctgccactttgtGgatcctcttgtatcttctgg	10	10	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr14:26917955G>T	uc001wpy.2	-	5	1052	c.734C>A	c.(733-735)CCA>CAA	p.P245Q	NOVA1_uc001wpz.2_Missense_Mutation_p.P221Q|NOVA1_uc001wqa.2_Missense_Mutation_p.P123Q	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	248					locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		GCCACTTTGTGGATCCTCTTG	0.453													5	52	---	---	---	---	PASS	T	26917955	T	T	26917955	3	4	104	1	0	0	0	0	1	0	0	0	10554	1348	47	3	793	3	NOVA1	14	26917955	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	3033651	26917955	80431585	278	38690										
NID2	22795	broad.mit.edu	37	chr14	52520558	52520558	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tggagctgggcttctggtctCtctctcatcccagggctcaa	11	13	5	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr14:52520558C>G	uc001wzo.2	-	5	1402	c.1168G>C	c.(1168-1170)GAG>CAG	p.E390Q	NID2_uc010tqs.1_Missense_Mutation_p.E390Q|NID2_uc010tqt.1_Missense_Mutation_p.E390Q|NID2_uc001wzp.2_Missense_Mutation_p.E390Q	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	390						basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CTTCTGGTCTCTCTCTCATCC	0.547													14	31	---	---	---	---	PASS	G	52520558	G	G	52520558	3	3	104	1	0	0	0	0	1	0	0	0	10415	922	32	2	3031	2	NID2	14	52520558	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	25602603	52520558	54828982	279	38691										
SAMD4A	23034	broad.mit.edu	37	chr14	55231189	55231189	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acagtgtgcacacagctcttGgtctccagacctgatgagga	11	11	2	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr14:55231189G>T	uc001xbb.2	+	7	1525	c.1524G>T	c.(1522-1524)TTG>TTT	p.L508F	SAMD4A_uc001xbc.2_Missense_Mutation_p.L420F|SAMD4A_uc001xbg.2_Missense_Mutation_p.L100F	NM_015589	NP_056404	Q9UPU9	SMAG1_HUMAN	sterile alpha motif domain containing 4 isoform	509					positive regulation of translation	cell junction|cytoplasm|dendrite|synapse|synaptosome	translation repressor activity				0						CACAGCTCTTGGTCTCCAGAC	0.388													6	169	---	---	---	---	PASS	T	55231189	T	T	55231189	3	4	104	1	0	0	0	0	1	0	0	0	13821	1339	47	3	1550	3	SAMD4A	14	55231189	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2710631	55231189	52118351	280	38692										
SYNE2	23224	broad.mit.edu	37	chr14	64599130	64599130	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aagaaaagtcacgccaatgtGgtatgaagctgcagagtttg	12	6	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr14:64599130G>T	uc001xgm.2	+	77	14718	c.14488G>T	c.(14488-14490)GGT>TGT	p.G4830C	SYNE2_uc001xgl.2_Missense_Mutation_p.G4830C|SYNE2_uc010apy.2_Missense_Mutation_p.G1215C|SYNE2_uc010apz.1_Missense_Mutation_p.G722C	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	4830	Cytoplasmic (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)		ACGCCAATGTGGTATGAAGCT	0.403													6	77	---	---	---	---	PASS	T	64599130	T	T	64599130	3	4	104	1	0	0	0	0	1	0	0	0	15443	1348	47	3	14790	3	SYNE2	14	64599130	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	9367941	64599130	42750410	281	38693										
ZFYVE26	23503	broad.mit.edu	37	chr14	68220848	68220848	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agggttggcagaggcaaagtGgtgatttgagaggtcccagc	17	6	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr14:68220848G>T	uc001xka.2	-	38	7207	c.7068C>A	c.(7066-7068)ACC>ACA	p.T2356T	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkb.2_Silent_p.T202T	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	2356					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		GAGGCAAAGTGGTGATTTGAG	0.488													8	185	---	---	---	---	PASS	T	68220848	T	T	68220848	2	4	104	1	0	0	0	0	0	0	0	1	17665	1335	47	3		3	ZFYVE26	14	68220848	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	3621718	68220848	39128692	282	38694										
PTPN21	11099	broad.mit.edu	37	chr14	88945368	88945368	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggctcggtagcggcctgacgTggtgaggtcggactccgaca	17	11	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr14:88945368T>A	uc001xwv.3	-	13	2738	c.2407A>T	c.(2407-2409)ACG>TCG	p.T803S	PTPN21_uc010twc.1_Missense_Mutation_p.T599S	NM_007039	NP_008970	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type	803						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			ovary(3)|skin(1)	4						CGGCCTGACGTGGTGAGGTCG	0.652													9	22	---	---	---	---	PASS	A	88945368	A	A	88945368	3	1	104	1	0	0	0	0	1	0	0	0	12786	1696	59	5	1145	5	PTPN21	14	88945368	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	20724520	88945368	18404172	283	38695										
KIAA1409	57578	broad.mit.edu	37	chr14	94008943	94008943	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggaagtctggtggaaaagctGaagcctcagtttgtcaccaa	12	8	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr14:94008943G>A	uc001ybv.1	+	11	1208	c.1125G>A	c.(1123-1125)CTG>CTA	p.L375L	KIAA1409_uc001ybs.1_Silent_p.L375L	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	552						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TGGAAAAGCTGAAGCCTCAGT	0.498													20	61	---	---	---	---	PASS	A	94008943	A	A	94008943	2	1	104	1	0	0	0	0	0	0	0	1	8230	1277	45	2		2	KIAA1409	14	94008943	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	5063575	94008943	13340597	284	38696										
MKRN3	7681	broad.mit.edu	37	chr15	23811260	23811260	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atatacatgggcagtgcaagGagggggagaactgtcgctat	15	6	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr15:23811260G>T	uc001ywh.3	+	1	807	c.331G>T	c.(331-333)GAG>TAG	p.E111*	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Nonsense_Mutation_p.E111*	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	111	C3H1-type 1.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		GCAGTGCAAGGAGGGGGAGAA	0.597													31	46	---	---	---	---	PASS	T	23811260	T	T	23811260	4	4	104	1	0	0	0	0	0	1	0	0	9608	1175	41	2	333	2	MKRN3	15	23811260	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08		23811260	78720132	285	38697										
TGM5	9333	broad.mit.edu	37	chr15	43527770	43527770	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctcaggttcactttgaggtcCttgaactgggaggacatgtt	12	8	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr15:43527770C>A	uc001zrd.1	-	10	1619	c.1611G>T	c.(1609-1611)AAG>AAT	p.K537N	TGM5_uc001zrc.1_Missense_Mutation_p.K194N|TGM5_uc001zre.1_Missense_Mutation_p.K455N	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	537					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	CTTTGAGGTCCTTGAACTGGG	0.557													12	23	---	---	---	---	PASS	A	43527770	A	A	43527770	3	1	104	1	0	0	0	0	1	0	0	0	15830	680	24	3	567	3	TGM5	15	43527770	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	19716510	43527770	59003622	286	38698										
TP53BP1	7158	broad.mit.edu	37	chr15	43707872	43707872	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgataagttttcttttgcctGagagaactcccatggaggca	10	8	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr15:43707872G>C	uc001zrs.2	-	23	5142	c.4994C>G	c.(4993-4995)TCA>TGA	p.S1665*	TP53BP1_uc010udp.1_Nonsense_Mutation_p.S1665*|TP53BP1_uc001zrq.3_Nonsense_Mutation_p.S1670*|TP53BP1_uc001zrr.3_Nonsense_Mutation_p.S1670*|TP53BP1_uc010udq.1_Nonsense_Mutation_p.S1670*|TP53BP1_uc001zrp.2_Nonsense_Mutation_p.S82*	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	1665					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		TCTTTTGCCTGAGAGAACTCC	0.537								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					4	91	---	---	---	---	PASS	C	43707872	C	C	43707872	4	2	104	1	0	0	0	0	0	1	0	0	16380	1294	45	2	948	2	TP53BP1	15	43707872	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	180102	43707872	58823520	287	38699										
GLDN	342035	broad.mit.edu	37	chr15	51676070	51676070	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaaggagaaaaaggagcaaaTggaaaaagaggaaaaatggg	14	1	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr15:51676070T>C	uc002aba.2	+	4	691	c.522T>C	c.(520-522)AAT>AAC	p.N174N	GLDN_uc010bez.1_Missense_Mutation_p.M157T|GLDN_uc002abb.2_Silent_p.N50N	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	174	Extracellular (Potential).|Collagen-like 1.				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		AAGGAGCAAATGGAAAAAGAG	0.468													7	12	---	---	---	---	PASS	C	51676070	C	C	51676070	2	2	104	1	0	0	0	0	0	0	0	1	6434	1461	51	5		5	GLDN	15	51676070	Silent	SNP	T	TCGA-46-3765-01A-01D-0983-08	7968198	51676070	50855322	288	38700										
WDR72	256764	broad.mit.edu	37	chr15	53889379	53889379	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cagttaccattctctgccatGgacactggttgactattgac	8	11	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr15:53889379G>T	uc002acj.2	-	18	3087	c.3045C>A	c.(3043-3045)TCC>TCA	p.S1015S		NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	1015										lung(1)|skin(1)	2				all cancers(107;0.0511)		TCTCTGCCATGGACACTGGTT	0.448													7	153	---	---	---	---	PASS	T	53889379	T	T	53889379	2	4	104	1	0	0	0	0	0	0	0	1	17319	1335	47	3		3	WDR72	15	53889379	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	2213309	53889379	48642013	289	38701										
LRRC49	54839	broad.mit.edu	37	chr15	71302258	71302258	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcaaggaaatccagttgtcaAttttacactctggaaatact	6	8	3	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr15:71302258A>G	uc002asw.2	+	13	1767	c.1520A>G	c.(1519-1521)AAT>AGT	p.N507S	LRRC49_uc002asu.2_Missense_Mutation_p.N497S|LRRC49_uc002asx.2_Missense_Mutation_p.N463S|LRRC49_uc010ukf.1_Missense_Mutation_p.N512S|LRRC49_uc002asy.2_Missense_Mutation_p.N213S|LRRC49_uc002asz.2_Missense_Mutation_p.N479S	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	507						cytoplasm|microtubule				ovary(1)	1						CCAGTTGTCAATTTTACACTC	0.373													21	44	---	---	---	---	PASS	G	71302258	G	G	71302258	3	3	104	1	0	0	0	0	1	0	0	0	9006	101	4	5	1570	5	LRRC49	15	71302258	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	17412879	71302258	31229134	290	38702										
SGK269	79834	broad.mit.edu	37	chr15	77471444	77471444	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tctctcgctctttctctttgTcatcctcctcatctgttttc	3	15	6	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr15:77471444T>A	uc002bcm.2	-	3	3133	c.2825A>T	c.(2824-2826)GAC>GTC	p.D942V	SGK269_uc002bcn.2_Missense_Mutation_p.D942V	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	942					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		TTTCTCTTTGTCATCCTCCTC	0.522													11	35	---	---	---	---	PASS	A	77471444	A	A	77471444	3	1	104	1	0	0	0	0	1	0	0	0	14211	1667	58	5	2431	5	SGK269	15	77471444	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	6169186	77471444	25059948	291	38703										
AKAP13	11214	broad.mit.edu	37	chr15	86122678	86122678	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gccaggcacagcccagtattCctctggaggtgaactgggag	14	11	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr15:86122678C>T	uc002blv.1	+	7	1549	c.1379C>T	c.(1378-1380)TCC>TTC	p.S460F	AKAP13_uc002blt.1_Missense_Mutation_p.S460F|AKAP13_uc002blu.1_Missense_Mutation_p.S460F	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	460					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						GCCCAGTATTCCTCTGGAGGT	0.522													7	114	---	---	---	---	PASS	T	86122678	T	T	86122678	3	4	104	1	0	0	0	0	1	0	0	0	449	855	30	2	1401	2	AKAP13	15	86122678	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	8651234	86122678	16408714	292	38704										
AKAP13	11214	broad.mit.edu	37	chr15	86124952	86124952	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgtgagggaagtcatgcgagCcccgccttcaggcagggaaa	15	10	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr15:86124952C>T	uc002blv.1	+	7	3823	c.3653C>T	c.(3652-3654)GCC>GTC	p.A1218V	AKAP13_uc002blt.1_Missense_Mutation_p.A1218V|AKAP13_uc002blu.1_Missense_Mutation_p.A1218V|AKAP13_uc010bne.1_5'Flank	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1218					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						GTCATGCGAGCCCCGCCTTCA	0.612													6	34	---	---	---	---	PASS	T	86124952	T	T	86124952	3	4	104	1	0	0	0	0	1	0	0	0	449	739	26	3	3675	3	AKAP13	15	86124952	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	2274	86124952	16406440	293	38705										
AKAP13	11214	broad.mit.edu	37	chr15	86125189	86125189	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aggactagagagtgcttttaCagaaaaagtgagtactttcc	10	6	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr15:86125189C>T	uc002blv.1	+	7	4060	c.3890C>T	c.(3889-3891)ACA>ATA	p.T1297I	AKAP13_uc002blt.1_Missense_Mutation_p.T1297I|AKAP13_uc002blu.1_Missense_Mutation_p.T1297I|AKAP13_uc010bne.1_5'Flank	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1297					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						AGTGCTTTTACAGAAAAAGTG	0.552													14	84	---	---	---	---	PASS	T	86125189	T	T	86125189	3	4	104	1	0	0	0	0	1	0	0	0	449	478	17	3	3912	3	AKAP13	15	86125189	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	237	86125189	16406203	294	38706										
RHOT2	89941	broad.mit.edu	37	chr16	723528	723528	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcttccttctggctccggggGctgctgggggttgtcggggc	18	11	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr16:723528G>T	uc002cip.2	+	19	1846	c.1779G>T	c.(1777-1779)GGG>GGT	p.G593G	RHOT2_uc002ciq.2_Silent_p.G486G|RHOT2_uc010bqy.2_Silent_p.G372G|RHBDL1_uc002cir.1_5'Flank|RHBDL1_uc010uun.1_5'Flank|RHBDL1_uc002cis.1_5'Flank	NM_138769	NP_620124	Q8IXI1	MIRO2_HUMAN	ras homolog gene family, member T2	593	Miro 2.|Helical; Anchor for type IV membrane protein; (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			pancreas(1)	1		Hepatocellular(780;0.0218)				GGCTCCGGGGGCTGCTGGGGG	0.622													12	46	---	---	---	---	PASS	T	723528	T	T	723528	2	4	104	1	0	0	0	0	0	0	0	1	13344	1190	42	3		3	RHOT2	16	723528	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08		723528	89631225	295	38707										
HCFC1R1	54985	broad.mit.edu	37	chr16	3073520	3073520	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgctcatgggcacagctcctCggagaggggagctgggaaaa	16	9	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr16:3073520C>A	uc002csx.1	-	3	240	c.107G>T	c.(106-108)CGA>CTA	p.R36L	HCFC1R1_uc002csy.1_Missense_Mutation_p.R36L|HCFC1R1_uc002csz.1_Intron|THOC6_uc002ctb.2_5'Flank|THOC6_uc002ctd.2_5'Flank|THOC6_uc002ctc.2_5'Flank|THOC6_uc002cta.2_5'Flank	NM_001002018	NP_001002018	Q9NWW0	HPIP_HUMAN	host cell factor C1 regulator 1 (XPO1 dependant)	36						cytoplasm|nucleus					0						CACAGCTCCTCGGAGAGGGGA	0.632													3	11	---	---	---	---	PASS	A	3073520	A	A	3073520	3	1	104	1	0	0	0	0	1	0	0	0	6992	884	31	2	321	2	HCFC1R1	16	3073520	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	2349992	3073520	87281233	296	38708										
GLYR1	84656	broad.mit.edu	37	chr16	4871572	4871572	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcacatattttcaacttcttCgtgattgcctggtaacagac	6	10	3	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr16:4871572C>T	uc002cxx.3	-	8	745	c.708G>A	c.(706-708)ACG>ACA	p.T236T	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Intron|GLYR1_uc002cya.2_Silent_p.T236T|GLYR1_uc010uxv.1_Silent_p.T155T	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	236					pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						TCAACTTCTTCGTGATTGCCT	0.448													7	38	---	---	---	---	PASS	T	4871572	T	T	4871572	2	4	104	1	0	0	0	0	0	0	0	1	6483	871	31	2		2	GLYR1	16	4871572	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	1798052	4871572	85483181	297	38709										
PALB2	79728	broad.mit.edu	37	chr16	23614791	23614791	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	taccctaacttatgaatagtGgtatacaaatatatttccat	4	7	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr16:23614791G>T	uc002dlx.1	-	13	3750	c.3550C>A	c.(3550-3552)CAC>AAC	p.H1184N		NM_024675	NP_078951	Q86YC2	PALB2_HUMAN	partner and localizer of BRCA2	1184	Interaction with RAD51 and BRCA2.|WD 7.				double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)		TATGAATAGTGGTATACAAAT	0.358			F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				5	47	---	---	---	---	PASS	T	23614791	T	T	23614791	3	4	104	1	0	0	0	0	1	0	0	0	11406	1348	47	3	14	3	PALB2	16	23614791	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	18743219	23614791	66739962	298	38710										
TAOK2	9344	broad.mit.edu	37	chr16	29997772	29997772	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acaacaagcggcgtgagcaaGagttgcggcagaagcatgcg	15	9	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr16:29997772G>T	uc002dva.1	+	16	2962	c.2179G>T	c.(2179-2181)GAG>TAG	p.E727*	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Nonsense_Mutation_p.E727*|TAOK2_uc002dvc.1_Nonsense_Mutation_p.E727*|TAOK2_uc010bzm.1_Nonsense_Mutation_p.E734*|TAOK2_uc002dvd.1_Nonsense_Mutation_p.E554*	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	727					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						GCGTGAGCAAGAGTTGCGGCA	0.677													7	56	---	---	---	---	PASS	T	29997772	T	T	29997772	4	4	104	1	0	0	0	0	0	1	0	0	15545	943	33	2	2237	2	TAOK2	16	29997772	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	6382981	29997772	60356981	299	38711										
STX1B	112755	broad.mit.edu	37	chr16	31008036	31008036	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gatggccagcttcccgctctCcagcatgtcttccagttctt	8	15	3	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr16:31008036C>G	uc010cad.2	-	7	617	c.505G>C	c.(505-507)GAG>CAG	p.E169Q	STX1B_uc010vfd.1_Missense_Mutation_p.E169Q	NM_052874	NP_443106	P61266	STX1B_HUMAN	syntaxin 1B	169	Cytoplasmic (Potential).				intracellular protein transport|neurotransmitter transport|synaptic transmission	integral to plasma membrane	extracellular-glutamate-gated ion channel activity|SNAP receptor activity				0						TTCCCGCTCTCCAGCATGTCT	0.607													8	35	---	---	---	---	PASS	G	31008036	G	G	31008036	3	3	104	1	0	0	0	0	1	0	0	0	15343	864	30	2	377	2	STX1B	16	31008036	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	1010264	31008036	59346717	300	38712										
ZNF423	23090	broad.mit.edu	37	chr16	49671724	49671724	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gagggtgggcatggagtccaGgcagatctgacatgtgtggc	18	7	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr16:49671724G>T	uc002efs.2	-	5	1637	c.1339C>A	c.(1339-1341)CTG>ATG	p.L447M	ZNF423_uc010vgn.1_Missense_Mutation_p.L330M	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	447	C2H2-type 10.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				ATGGAGTCCAGGCAGATCTGA	0.562													5	55	---	---	---	---	PASS	T	49671724	T	T	49671724	3	4	104	1	0	0	0	0	1	0	0	0	17895	991	35	3	2535	3	ZNF423	16	49671724	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	18663688	49671724	40683029	301	38713										
CHD9	80205	broad.mit.edu	37	chr16	53272410	53272410	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggagagagaatttcgtacgtGgactgatattaacgttgtgg	14	4	0	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr16:53272410G>T	uc002ehb.2	+	11	2953	c.2789G>T	c.(2788-2790)TGG>TTG	p.W930L	CHD9_uc002egy.2_Missense_Mutation_p.W930L|CHD9_uc002eha.1_Missense_Mutation_p.W930L|CHD9_uc002ehc.2_Missense_Mutation_p.W930L|CHD9_uc002ehf.2_Missense_Mutation_p.W44L|CHD9_uc002ehd.2_Missense_Mutation_p.W456L|CHD9_uc002ehe.1_Missense_Mutation_p.W44L	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	930	Helicase ATP-binding.				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)				TTTCGTACGTGGACTGATATT	0.403													6	141	---	---	---	---	PASS	T	53272410	T	T	53272410	3	4	104	1	0	0	0	0	1	0	0	0	3332	1357	47	3	2831	3	CHD9	16	53272410	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	3600686	53272410	37082343	302	38714										
SLC9A5	6553	broad.mit.edu	37	chr16	67286512	67286512	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctgctgattttgctgggcctGgtgctagggggaattgtttt	15	6	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr16:67286512G>A	uc002esm.2	+	2	318	c.255G>A	c.(253-255)CTG>CTA	p.L85L	SLC9A5_uc010cee.2_5'UTR|SLC9A5_uc010vji.1_5'UTR	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	85	Helical; (Potential).				regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		TGCTGGGCCTGGTGCTAGGGG	0.522													28	57	---	---	---	---	PASS	A	67286512	A	A	67286512	2	1	104	1	0	0	0	0	0	0	0	1	14717	1335	47	3		3	SLC9A5	16	67286512	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	14014102	67286512	23068241	303	38715										
FAM65A	79567	broad.mit.edu	37	chr16	67575630	67575630	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cacagtcaccaagcgcttctCcacctatagccagagcccac	6	18	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr16:67575630C>A	uc010vjp.1	+	12	1181	c.1085C>A	c.(1084-1086)TCC>TAC	p.S362Y	FAM65A_uc010cei.1_Missense_Mutation_p.S184Y|FAM65A_uc002eth.2_Missense_Mutation_p.S342Y|FAM65A_uc010cej.2_Missense_Mutation_p.S345Y|FAM65A_uc002eti.1_Missense_Mutation_p.S305Y|FAM65A_uc010vjq.1_Missense_Mutation_p.S356Y|FAM65A_uc002etj.1_Missense_Mutation_p.S341Y|FAM65A_uc002etk.2_Missense_Mutation_p.S341Y	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	346						cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		AAGCGCTTCTCCACCTATAGC	0.592													5	50	---	---	---	---	PASS	A	67575630	A	A	67575630	3	1	104	1	0	0	0	0	1	0	0	0	5599	855	30	2	1067	2	FAM65A	16	67575630	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	289118	67575630	22779123	304	38716										
ADAT1	23536	broad.mit.edu	37	chr16	75637051	75637051	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tggaatgatctgaagagttcCactttgctgatttgggatct	11	6	2	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr16:75637051C>A	uc002feo.1	-	10	1410	c.1308G>T	c.(1306-1308)GTG>GTT	p.V436V	ADAT1_uc002fep.1_Silent_p.V287V	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	436	A to I editase.				tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						TGAAGAGTTCCACTTTGCTGA	0.413													8	212	---	---	---	---	PASS	A	75637051	A	A	75637051	2	1	104	1	0	0	0	0	0	0	0	1	284	581	21	3		3	ADAT1	16	75637051	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	8061421	75637051	14717702	305	38717										
DPEP1	1800	broad.mit.edu	37	chr16	89702987	89702987	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaggtggccagcctgatcggCgtggagggcggccactccat	16	12	0	1	rs150009384	byFrequency	TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr16:89702987C>T	uc010cin.2	+	5	620	c.417C>T	c.(415-417)GGC>GGT	p.G139G	DPEP1_uc002fnr.3_Silent_p.G139G|DPEP1_uc002fns.3_Silent_p.G139G	NM_001128141	NP_001121613	P16444	DPEP1_HUMAN	dipeptidase 1 precursor	139					proteolysis	anchored to membrane|apical plasma membrane|microvillus membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity|protein binding			large_intestine(1)	1		all_lung(18;0.0054)|all_hematologic(23;0.094)		BRCA - Breast invasive adenocarcinoma(80;0.0258)	Cilastatin(DB01597)	GCCTGATCGGCGTGGAGGGCG	0.657													6	11	---	---	---	---	PASS	T	89702987	T	T	89702987	2	4	104	1	0	0	0	0	0	0	0	1	4713	755	27	1		1	DPEP1	16	89702987	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	14065936	89702987	651766	306	38718										
SUPT6H	6830	broad.mit.edu	37	chr17	27026896	27026896	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gatggtttaaggatcactacCaggatcctgtaccaggtgag	12	8	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr17:27026896C>A	uc002hby.2	+	33	4636	c.4546C>A	c.(4546-4548)CAG>AAG	p.Q1516K	SUPT6H_uc010crt.2_Missense_Mutation_p.Q1516K	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	1516					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					GGATCACTACCAGGATCCTGT	0.527													6	114	---	---	---	---	PASS	A	27026896	A	A	27026896	3	1	104	1	0	0	0	0	1	0	0	0	15397	595	21	3	4672	3	SUPT6H	17	27026896	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08		27026896	54168314	307	38719										
KRTAP1-3	81850	broad.mit.edu	37	chr17	39190915	39190915	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	caactggagctgcaggtcccActagttgagaagctaggaaa	12	9	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr17:39190915A>G	uc002hvv.2	-	1	193	c.159T>C	c.(157-159)AGT>AGC	p.S53S		NM_030966	NP_112228	Q8IUG1	KRA13_HUMAN	keratin associated protein 1-3	63			Missing (in allele KAP1.9).	GFPSFSTSGTCSS -> DFLASQLVDLQL (in Ref. 1).		extracellular region|keratin filament	structural constituent of epidermis				0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			TGCAGGTCCCACTAGTTGAGA	0.627													16	28	---	---	---	---	PASS	G	39190915	G	G	39190915	2	3	104	1	0	0	0	0	0	0	0	1	8503	156	6	5		5	KRTAP1-3	17	39190915	Silent	SNP	A	TCGA-46-3765-01A-01D-0983-08	12164019	39190915	42004295	308	38720										
KRT16	3868	broad.mit.edu	37	chr17	39768931	39768932	+	Frame_Shift_Ins	INS	-	G	G													0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gaggtgaactggcggctgcaINSggtggtcatggtgccaagga							TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr17:39768931_39768932insG	uc002hxg.3	-	1	148_149	c.9_10insC	c.(7-12)ACCTGCfs	p.T3fs	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	3_4	Head.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				TGGCGGCTGCAGGTGGTCATGG	0.653													4	2	---	---	---	---		G	39768932	G	G	39768931	7	5	104	1	0	1	1	0	0	0	0	0	8453	188	7	0	1443	0	KRT16	17	39768931	Frame_Shift_Ins	INS	-	TCGA-46-3765-01A-01D-0983-08	578016	39768931	41426279	309	38721										
NFE2L1	4779	broad.mit.edu	37	chr17	46135698	46135698	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcaagtgaaatcctgtacagTgcccctcctggagacccact	9	14	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr17:46135698T>C	uc002imz.3	+	6	1665	c.1014T>C	c.(1012-1014)AGT>AGC	p.S338S	NFE2L1_uc002ina.3_Silent_p.S308S|NFE2L1_uc002inb.3_Silent_p.S308S|NFE2L1_uc010wle.1_Silent_p.S150S|NFE2L1_uc010wlf.1_Silent_p.S182S	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	338					anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						TCCTGTACAGTGCCCCTCCTG	0.582													19	56	---	---	---	---	PASS	C	46135698	C	C	46135698	2	2	104	1	0	0	0	0	0	0	0	1	10367	1693	59	5		5	NFE2L1	17	46135698	Silent	SNP	T	TCGA-46-3765-01A-01D-0983-08	6366767	46135698	35059512	310	38722										
TTLL6	284076	broad.mit.edu	37	chr17	46847099	46847099	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctggcactcacgtgacaggtTattcatccccagcttggggt	11	12	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr17:46847099T>C	uc010wlo.1	-	15	2436	c.2401A>G	c.(2401-2403)AAC>GAC	p.N801D	TTLL6_uc002iob.2_Missense_Mutation_p.N494D|TTLL6_uc010dbi.2_Intron|TTLL6_uc002ioc.2_Missense_Mutation_p.N554D|TTLL6_uc002iod.2_Intron	NM_001130918	NP_001124390	Q8N841	TTLL6_HUMAN	tubulin tyrosine ligase-like family, member 6	753						cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity				0						CGTGACAGGTTATTCATCCCC	0.338													13	52	---	---	---	---	PASS	C	46847099	C	C	46847099	3	2	104	1	0	0	0	0	1	0	0	0	16728	1754	61	5	282	5	TTLL6	17	46847099	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	711401	46847099	34348111	311	38723										
NGFR	4804	broad.mit.edu	37	chr17	47583905	47583905	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtgtgcgaggagtgccccgaCggcacgtattccgacgaggc	16	12	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr17:47583905C>T	uc002ioz.3	+	3	578	c.453C>T	c.(451-453)GAC>GAT	p.D151D		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	151	Extracellular (Potential).|TNFR-Cys 4.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					AGTGCCCCGACGGCACGTATT	0.711													10	17	---	---	---	---	PASS	T	47583905	T	T	47583905	2	4	104	1	0	0	0	0	0	0	0	1	10396	535	19	1		1	NGFR	17	47583905	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	736806	47583905	33611305	312	38724										
MBTD1	54799	broad.mit.edu	37	chr17	49281158	49281158	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aataaactacttacttctagGaggaacaagaggttttccgc	8	8	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr17:49281158G>T	uc002itr.3	-	8	1077	c.733C>A	c.(733-735)CCT>ACT	p.P245T	MBTD1_uc002itp.3_Missense_Mutation_p.P81T|MBTD1_uc002itq.3_Missense_Mutation_p.P245T	NM_017643	NP_060113	Q05BQ5	MBTD1_HUMAN	mbt domain containing 1	245	MBT 1.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(22;1.54e-08)			TTACTTCTAGGAGGAACAAGA	0.348													6	138	---	---	---	---	PASS	T	49281158	T	T	49281158	3	4	104	1	0	0	0	0	1	0	0	0	9360	1174	41	2	1193	2	MBTD1	17	49281158	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1697253	49281158	31914052	313	38725										
BRIP1	83990	broad.mit.edu	37	chr17	59821886	59821886	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctgtggttctacaatgactgTcttcaccaactccagattat	6	11	3	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr17:59821886T>C	uc002izk.1	-	15	2305	c.2164A>G	c.(2164-2166)ACA>GCA	p.T722A	BRIP1_uc002izl.1_Missense_Mutation_p.T103A	NM_032043	NP_114432	Q9BX63	FANCJ_HUMAN	BRCA1 interacting protein C-terminal helicase 1	722					DNA damage checkpoint|double-strand break repair|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(1)	1						ACAATGACTGTCTTCACCAAC	0.353			F|N|Mis			AML|leukemia|breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				26	92	---	---	---	---	PASS	C	59821886	C	C	59821886	3	2	104	1	0	0	0	0	1	0	0	0	1514	1667	58	5	1609	5	BRIP1	17	59821886	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	10540728	59821886	21373324	314	38726										
MARCH10	162333	broad.mit.edu	37	chr17	60813646	60813646	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgtttactgggaaataattaTggttttcggcactggcaaat	10	5	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr17:60813646T>C	uc010ddr.2	-	6	1821	c.1583A>G	c.(1582-1584)CAT>CGT	p.H528R	MARCH10_uc002jag.3_Missense_Mutation_p.H528R|MARCH10_uc010dds.2_Missense_Mutation_p.H566R|MARCH10_uc002jah.2_Missense_Mutation_p.H527R|uc002jaj.1_RNA|uc002jak.2_RNA	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	528							ligase activity|zinc ion binding				0						GAAATAATTATGGTTTTCGGC	0.453													14	57	---	---	---	---	PASS	C	60813646	C	C	60813646	3	2	104	1	0	0	0	0	1	0	0	0	9299	1464	51	5	867	5	MARCH10	17	60813646	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	991760	60813646	20381564	315	38727										
RNF213	57674	broad.mit.edu	37	chr17	78348267	78348267	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctgtattccaggggctgcggCaggaccacccaggccagatg	14	13	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr17:78348267C>A	uc002jyh.1	+	25	7394	c.7171C>A	c.(7171-7173)CAG>AAG	p.Q2391K	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.Q773K	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)			GGGGCTGCGGCAGGACCACCC	0.552													7	24	---	---	---	---	PASS	A	78348267	A	A	78348267	3	1	104	1	0	0	0	0	1	0	0	0	13477	711	25	3	13465	3	RNF213	17	78348267	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	17534621	78348267	2846943	316	38728										
RNF213	57674	broad.mit.edu	37	chr17	78355400	78355400	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gatccaaaaggctttctgcaGcagcacatcctgaaggacct	9	12	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr17:78355400G>A	uc002jyh.1	+	32	8293	c.8070G>A	c.(8068-8070)CAG>CAA	p.Q2690Q	uc002jyi.1_Intron|RNF213_uc010dhw.1_Silent_p.Q1072Q	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)			GCTTTCTGCAGCAGCACATCC	0.572													21	46	---	---	---	---	PASS	A	78355400	A	A	78355400	2	1	104	1	0	0	0	0	0	0	0	1	13477	962	34	3		3	RNF213	17	78355400	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	7133	78355400	2839810	317	38729										
RAB12	201475	broad.mit.edu	37	chr18	8609907	8609907	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	caagaccagcctgatggagcGcttcaccgacgacaccttct	9	15	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr18:8609907G>A	uc002knp.2	+	1	465	c.182G>A	c.(181-183)CGC>CAC	p.R61H	RAB12_uc002kno.1_Missense_Mutation_p.R157H	NM_001025300	NP_001020471	Q6IQ22	RAB12_HUMAN	RAB12, member RAS oncogene family	61					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding				0						CTGATGGAGCGCTTCACCGAC	0.706													4	10	---	---	---	---	PASS	A	8609907	A	A	8609907	3	1	104	1	0	0	0	0	1	0	0	0	12898	1087	38	1	184	1	RAB12	18	8609907	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08		8609907	69467341	318	38730										
ASXL3	80816	broad.mit.edu	37	chr18	31323263	31323263	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tctcttctacccctgaaacaAaaatggaaggttcgactggt	8	10	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr18:31323263A>G	uc010dmg.1	+	12	3506	c.3451A>G	c.(3451-3453)AAA>GAA	p.K1151E	ASXL3_uc002kxq.2_Missense_Mutation_p.K858E	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CCCTGAAACAAAAATGGAAGG	0.502													7	21	---	---	---	---	PASS	G	31323263	G	G	31323263	3	3	104	1	0	0	0	0	1	0	0	0	1068	15	1	5	3497	5	ASXL3	18	31323263	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	22713356	31323263	46753985	319	38731										
ASXL3	80816	broad.mit.edu	37	chr18	31325671	31325671	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctgttacaggcctcttccaaGaccccagtggggtgtaatgc	11	12	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr18:31325671G>T	uc010dmg.1	+	12	5914	c.5859G>T	c.(5857-5859)AAG>AAT	p.K1953N	ASXL3_uc002kxq.2_Missense_Mutation_p.K1660N	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1953					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CCTCTTCCAAGACCCCAGTGG	0.527													11	61	---	---	---	---	PASS	T	31325671	T	T	31325671	3	4	104	1	0	0	0	0	1	0	0	0	1068	933	33	2	5905	2	ASXL3	18	31325671	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2408	31325671	46751577	320	38732										
ASXL3	80816	broad.mit.edu	37	chr18	31325735	31325735	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aacagaagggattgggagagGttagtctttcctcagcacct	12	8	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr18:31325735G>C	uc010dmg.1	+	12	5978	c.5923G>C	c.(5923-5925)GTT>CTT	p.V1975L	ASXL3_uc002kxq.2_Missense_Mutation_p.V1682L	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1975					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						ATTGGGAGAGGTTAGTCTTTC	0.507													16	89	---	---	---	---	PASS	C	31325735	C	C	31325735	3	2	104	1	0	0	0	0	1	0	0	0	1068	1261	44	4	5969	4	ASXL3	18	31325735	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	64	31325735	46751513	321	38733										
KIAA1632	57724	broad.mit.edu	37	chr18	43469849	43469849	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcttgcaactgcttcacttcCttccgtaaaacatgaagctg	7	12	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr18:43469849C>A	uc002lbm.2	-	28	4966	c.4866G>T	c.(4864-4866)AAG>AAT	p.K1622N	KIAA1632_uc010xcq.1_Missense_Mutation_p.K176N|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.K497N	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1622	Potential.				autophagy						0						GCTTCACTTCCTTCCGTAAAA	0.398													7	69	---	---	---	---	PASS	A	43469849	A	A	43469849	3	1	104	1	0	0	0	0	1	0	0	0	8249	680	24	3	2941	3	KIAA1632	18	43469849	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	12144114	43469849	34607399	322	38734										
WDR7	23335	broad.mit.edu	37	chr18	54424511	54424511	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcatctcctgtctatcatttCtttggcaaatactttaatga	5	9	4	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr18:54424511C>G	uc002lgk.1	+	15	2898	c.2687C>G	c.(2686-2688)TCT>TGT	p.S896C	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.S896C	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	896										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		TCTATCATTTCTTTGGCAAAT	0.443													22	44	---	---	---	---	PASS	G	54424511	G	G	54424511	3	3	104	1	0	0	0	0	1	0	0	0	17317	913	32	2	2741	2	WDR7	18	54424511	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	10954662	54424511	23652737	323	38735										
CCBE1	147372	broad.mit.edu	37	chr18	57103145	57103145	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cggtgttgggatgtgctatgGgtagaagtctctgggggctc	18	6	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr18:57103145G>T	uc002lib.2	-	11	1286	c.1216C>A	c.(1216-1218)CCA>ACA	p.P406T	CCBE1_uc010dpq.2_Missense_Mutation_p.P135T|CCBE1_uc002lia.2_Missense_Mutation_p.P259T	NM_133459	NP_597716	Q6UXH8	CCBE1_HUMAN	collagen and calcium binding EGF domains 1	406					lymphangiogenesis|sprouting angiogenesis|venous blood vessel morphogenesis	collagen	calcium ion binding			skin(2)|ovary(1)	3		Colorectal(73;0.175)				ATGTGCTATGGGTAGAAGTCT	0.493													10	218	---	---	---	---	PASS	T	57103145	T	T	57103145	3	4	104	1	0	0	0	0	1	0	0	0	2731	1232	43	3	8	3	CCBE1	18	57103145	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2678634	57103145	20974103	324	38736										
CDH19	28513	broad.mit.edu	37	chr18	64172361	64172361	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcgcttgtggttttccgagtCttgcgttcccgcattatggt	12	10	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr18:64172361C>G	uc002lkc.1	-	12	2145	c.2007G>C	c.(2005-2007)AAG>AAC	p.K669N	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_3'UTR	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	669	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				TTTTCCGAGTCTTGCGTTCCC	0.463													11	93	---	---	---	---	PASS	G	64172361	G	G	64172361	3	3	104	1	0	0	0	0	1	0	0	0	3104	912	32	2	315	2	CDH19	18	64172361	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	7069216	64172361	13904887	325	38737										
CBLN2	147381	broad.mit.edu	37	chr18	70205487	70205487	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggttgcctctctcaagtttgAgatgcactttgtcttccctt	8	11	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr18:70205487A>G	uc002lku.2	-	4	834	c.599T>C	c.(598-600)CTC>CCC	p.L200P	CBLN2_uc002lkv.2_Missense_Mutation_p.L200P	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	200	C1q.					integral to membrane					0		Esophageal squamous(42;0.131)				CTCAAGTTTGAGATGCACTTT	0.527													14	50	---	---	---	---	PASS	G	70205487	G	G	70205487	3	3	104	1	0	0	0	0	1	0	0	0	2705	304	11	5	79	5	CBLN2	18	70205487	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	6033126	70205487	7871761	326	38738										
ABCA7	10347	broad.mit.edu	37	chr19	1058728	1058728	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cacactactgctgcagcaccGaagccaactcctgccacagt	7	17	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:1058728G>T	uc002lqw.3	+	38	5492	c.5261G>T	c.(5260-5262)CGA>CTA	p.R1754L	ABCA7_uc002lqy.2_Missense_Mutation_p.R207L|ABCA7_uc010dsc.2_RNA	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	1754					phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGCAGCACCGAAGCCAACTC	0.587													4	47	---	---	---	---	PASS	T	1058728	T	T	1058728	3	4	104	1	0	0	0	0	1	0	0	0	37	1058	37	2	5407	2	ABCA7	19	1058728	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08		1058728	58070255	327	38739										
XAB2	56949	broad.mit.edu	37	chr19	7688675	7688675	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gccactcgtgcacgtggtgtGggttttggcgcagcaagacg	16	10	0	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:7688675G>A	uc002mgx.2	-	8	1087	c.1061C>T	c.(1060-1062)CCA>CTA	p.P354L		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	354					transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						CACGTGGTGTGGGTTTTGGCG	0.667								Direct_reversal_of_damage|NER					4	13	---	---	---	---	PASS	A	7688675	A	A	7688675	3	1	104	1	0	0	0	0	1	0	0	0	17415	1348	47	3	1554	3	XAB2	19	7688675	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	6629947	7688675	51440308	328	38740										
FBN3	84467	broad.mit.edu	37	chr19	8201158	8201158	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggggatgttgacgcagtcacCgtggtggcaggggctgctgg	20	8	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:8201158C>A	uc002mjf.2	-	11	1402	c.1381G>T	c.(1381-1383)GGT>TGT	p.G461C		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	461	EGF-like 4; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						ACGCAGTCACCGTGGTGGCAG	0.667													8	12	---	---	---	---	PASS	A	8201158	A	A	8201158	3	1	104	1	0	0	0	0	1	0	0	0	5704	652	23	1	7260	1	FBN3	19	8201158	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	512483	8201158	50927825	329	38741										
MUC16	94025	broad.mit.edu	37	chr19	9059671	9059671	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aacatttgtatctcctgtggGgtaggtgatacccattgaag	11	7	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:9059671G>T	uc002mkp.2	-	3	27979	c.27775C>A	c.(27775-27777)CCC>ACC	p.P9259T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9261	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTCCTGTGGGGTAGGTGATA	0.468													6	80	---	---	---	---	PASS	T	9059671	T	T	9059671	3	4	104	1	0	0	0	0	1	0	0	0	9973	1232	43	3	16076	3	MUC16	19	9059671	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	858513	9059671	50069312	330	38742										
MUC16	94025	broad.mit.edu	37	chr19	9070727	9070727	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aggataccctgtgatgtagcCccaggagtagttgtttgagt	13	7	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:9070727C>T	uc002mkp.2	-	3	16923	c.16719G>A	c.(16717-16719)GGG>GGA	p.G5573G		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5575	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGATGTAGCCCCAGGAGTAG	0.512													13	156	---	---	---	---	PASS	T	9070727	T	T	9070727	2	4	104	1	0	0	0	0	0	0	0	1	9973	610	22	3		3	MUC16	19	9070727	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	11056	9070727	50058256	331	38743										
USE1	55850	broad.mit.edu	37	chr19	17327016	17327016	+	Silent	SNP	G	T	T													0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcactggccaaccagttcctGgcccctggccgtgtgccaac							TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:17327016G>T	uc002nfo.2	+	4	330	c.270G>T	c.(268-270)CTG>CTT	p.L90L	USE1_uc002nfn.2_Silent_p.L90L|USE1_uc010eal.1_Silent_p.L90L	NM_018467	NP_060937	Q9NZ43	USE1_HUMAN	unconventional SNARE in the ER 1 homolog	90	Cytoplasmic (Potential).				lysosomal transport|protein catabolic process|protein transport|secretion by cell|vesicle-mediated transport	endoplasmic reticulum membrane|integral to membrane	protein binding				0						ACCAGTTCCTGGCCCCTGGCC	0.617													11	24	---	---	---	---	PASS	T	17327016	T	T	17327016	2	4	104	1	0	0	0	0	0	0	0	1	17028	1335	47	3		3	USE1	19	17327016	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	8256289	17327016	41801967	332	38744	726	2								
USE1	55850	broad.mit.edu	37	chr19	17327017	17327017	+	Missense_Mutation	SNP	G	T	T													0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cactggccaaccagttcctgGcccctggccgtgtgccaacc							TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:17327017G>T	uc002nfo.2	+	4	331	c.271G>T	c.(271-273)GCC>TCC	p.A91S	USE1_uc002nfn.2_Missense_Mutation_p.A91S|USE1_uc010eal.1_Missense_Mutation_p.A91S	NM_018467	NP_060937	Q9NZ43	USE1_HUMAN	unconventional SNARE in the ER 1 homolog	91	Cytoplasmic (Potential).				lysosomal transport|protein catabolic process|protein transport|secretion by cell|vesicle-mediated transport	endoplasmic reticulum membrane|integral to membrane	protein binding				0						CCAGTTCCTGGCCCCTGGCCG	0.617													12	24	---	---	---	---	PASS	T	17327017	T	T	17327017	3	4	104	1	0	0	0	0	1	0	0	0	17028	1203	42	3	285	3	USE1	19	17327017	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1	17327017	41801966	333	38745	726	2								
ZNF99	7652	broad.mit.edu	37	chr19	22940797	22940797	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ccagtatgaattatctcatgTtttctaagggttgaggactg	10	6	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:22940797T>C	uc010xrh.1	-	5	1641	c.1641A>G	c.(1639-1641)AAA>AAG	p.K547K		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)				TTATCTCATGTTTTCTAAGGG	0.368													11	36	---	---	---	---	PASS	C	22940797	C	C	22940797	2	2	104	1	0	0	0	0	0	0	0	1	18201	1722	60	5		5	ZNF99	19	22940797	Silent	SNP	T	TCGA-46-3765-01A-01D-0983-08	5613780	22940797	36188186	334	38746										
ZNF91	7644	broad.mit.edu	37	chr19	23544231	23544231	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cacattcttcaaatttgtagGgtttctctccagtatgaatt	6	8	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:23544231G>C	uc002nre.2	-	4	1663	c.1550C>G	c.(1549-1551)CCC>CGC	p.P517R	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.P485R	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	517						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				AAATTTGTAGGGTTTCTCTCC	0.353													8	44	---	---	---	---	PASS	C	23544231	C	C	23544231	3	2	104	1	0	0	0	0	1	0	0	0	18197	1232	43	4	2029	4	ZNF91	19	23544231	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	603434	23544231	35584752	335	38747										
ZNF91	7644	broad.mit.edu	37	chr19	23578154	23578154	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aggcttccaggggttcctggCatcttagctgtggctctcca	12	12	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:23578154C>G	uc002nre.2	-	1	116	c.3G>C	c.(1-3)ATG>ATC	p.M1I	ZNF91_uc010xrj.1_Missense_Mutation_p.M1I	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	1						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				GGGTTCCTGGCATCTTAGCTG	0.612													15	63	---	---	---	---	PASS	G	23578154	G	G	23578154	3	3	104	1	0	0	0	0	1	0	0	0	18197	710	25	4	3588	4	ZNF91	19	23578154	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	33923	23578154	35550829	336	38748										
FFAR3	2865	broad.mit.edu	37	chr19	35849930	35849930	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gtgggcaagctgcagcgccgCccggtggccgtggacgtgct	18	13	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:35849930C>T	uc002nzd.2	+	2	213	c.138C>T	c.(136-138)CGC>CGT	p.R46R	FFAR3_uc010xsu.1_RNA	NM_005304	NP_005295	O14843	FFAR3_HUMAN	free fatty acid receptor 3	46	Cytoplasmic.					integral to plasma membrane	G-protein coupled receptor activity|lipid binding				0	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;1.29e-19)|OV - Ovarian serous cystadenocarcinoma(14;4.63e-18)|all cancers(14;5.19e-17)|LUSC - Lung squamous cell carcinoma(66;0.0221)			TGCAGCGCCGCCCGGTGGCCG	0.642													14	132	---	---	---	---	PASS	T	35849930	T	T	35849930	2	4	104	1	0	0	0	0	0	0	0	1	5829	726	26	3		3	FFAR3	19	35849930	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	12271776	35849930	23279053	337	38749										
PSMC4	5704	broad.mit.edu	37	chr19	40478439	40478439	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggaggctgtggatcagaataCagccatcgtgggctctacca	13	10	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:40478439C>T	uc002omq.2	+	3	336	c.299C>T	c.(298-300)ACA>ATA	p.T100I	PSMC4_uc002omr.2_Missense_Mutation_p.T69I	NM_006503	NP_006494	P43686	PRS6B_HUMAN	proteasome 26S ATPase subunit 4 isoform 1	100					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding			ovary(1)	1	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					GATCAGAATACAGCCATCGTG	0.488													7	22	---	---	---	---	PASS	T	40478439	T	T	40478439	3	4	104	1	0	0	0	0	1	0	0	0	12689	478	17	3	309	3	PSMC4	19	40478439	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	4628509	40478439	18650544	338	38750										
LYPD4	147719	broad.mit.edu	37	chr19	42342205	42342205	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaattggtgaggttgttgcaGagataagaccggcagacgcg	15	6	0	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:42342205G>A	uc002orp.1	-	4	1326	c.342C>T	c.(340-342)CTC>CTT	p.L114L	LYPD4_uc002orq.1_Silent_p.L79L	NM_173506	NP_775777	Q6UWN0	LYPD4_HUMAN	LY6/PLAUR domain containing 4 precursor	114						anchored to membrane|plasma membrane				ovary(1)	1						GGTTGTTGCAGAGATAAGACC	0.552													17	62	---	---	---	---	PASS	A	42342205	A	A	42342205	2	1	104	1	0	0	0	0	0	0	0	1	9112	929	33	2		2	LYPD4	19	42342205	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	1863766	42342205	16786778	339	38751										
CIC	23152	broad.mit.edu	37	chr19	42794659	42794659	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cccaccccctggggctggggGtccagcgacaccttccaagg	13	17	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:42794659G>C	uc002otf.1	+	10	1779	c.1739G>C	c.(1738-1740)GGT>GCT	p.G580A		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	580	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				GGGGCTGGGGGTCCAGCGACA	0.677			T	DUX4	soft tissue sarcoma								15	31	---	---	---	---	PASS	C	42794659	C	C	42794659	3	2	104	1	0	0	0	0	1	0	0	0	3424	1261	44	4	1777	4	CIC	19	42794659	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	452454	42794659	16334324	340	38752										
IGFL1	374918	broad.mit.edu	37	chr19	46733753	46733753	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctgcgactcagcccggacctCggatgacaggctttgtcgca	12	14	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:46733753C>A	uc002pee.2	+	3	325	c.302C>A	c.(301-303)TCG>TAG	p.S101*		NM_198541	NP_940943	Q6UW32	IGFL1_HUMAN	IGF-like family member 1 precursor	101						extracellular space	protein binding				0		Ovarian(192;0.0731)|all_neural(266;0.196)		OV - Ovarian serous cystadenocarcinoma(262;0.00242)|all cancers(93;0.0132)|GBM - Glioblastoma multiforme(486;0.0294)|Epithelial(262;0.201)		GCCCGGACCTCGGATGACAGG	0.587													5	102	---	---	---	---	PASS	A	46733753	A	A	46733753	4	1	104	1	0	0	0	0	0	1	0	0	7586	893	31	2	312	2	IGFL1	19	46733753	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3939094	46733753	12395230	341	38753										
C5AR1	728	broad.mit.edu	37	chr19	47823500	47823500	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gggctggcttggcctggatcGcctgtgccgtggcttggggt	19	10	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:47823500G>T	uc002pgj.1	+	2	515	c.466G>T	c.(466-468)GCC>TCC	p.A156S		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	156	Helical; Name=4; (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		GGCCTGGATCGCCTGTGCCGT	0.607													10	45	---	---	---	---	PASS	T	47823500	T	T	47823500	3	4	104	1	0	0	0	0	1	0	0	0	2281	1087	38	1	471	1	C5AR1	19	47823500	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1089747	47823500	11305483	342	38754										
CARD8	22900	broad.mit.edu	37	chr19	48737714	48737714	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gaacagcacggaacaataatGgctctgcctctgtctcatca	8	12	4	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:48737714G>A	uc002pie.3	-	3	335	c.22C>T	c.(22-24)CAT>TAT	p.H8Y	CARD8_uc002pii.3_Missense_Mutation_p.P99L|CARD8_uc010xzi.1_Missense_Mutation_p.H8Y|CARD8_uc010els.2_5'Flank|CARD8_uc010xzj.1_Missense_Mutation_p.P99L|CARD8_uc010xzk.1_Missense_Mutation_p.H32Y|CARD8_uc002pif.3_Missense_Mutation_p.H8Y|CARD8_uc002pig.3_5'UTR|CARD8_uc002pih.3_Missense_Mutation_p.P49L|CARD8_uc010xzl.1_Missense_Mutation_p.P49L|CARD8_uc010xzm.1_Missense_Mutation_p.P99L	NM_014959	NP_055774	Q9Y2G2	CARD8_HUMAN	caspase recruitment domain family, member 8	8					negative regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion	cytoplasm|nucleus	caspase activator activity|NACHT domain binding|protein homodimerization activity				0		all_lung(116;0.000112)|Lung NSC(112;0.000192)|all_epithelial(76;0.000349)|all_neural(266;0.0228)|Ovarian(192;0.113)|Prostate(7;0.184)		OV - Ovarian serous cystadenocarcinoma(262;0.000112)|all cancers(93;0.000293)|Epithelial(262;0.0129)|GBM - Glioblastoma multiforme(486;0.0336)		GAACAATAATGGCTCTGCCTC	0.458													17	57	---	---	---	---	PASS	A	48737714	A	A	48737714	3	1	104	1	0	0	0	0	1	0	0	0	2651	1348	47	3	1353	3	CARD8	19	48737714	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	914214	48737714	10391269	343	38755										
SLC6A16	28968	broad.mit.edu	37	chr19	49793961	49793961	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acaactggacacagatggggCcacagccaaccaaagatggg	12	11	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:49793961C>A	uc002pmz.2	-	11	2076	c.1842G>T	c.(1840-1842)TGG>TGT	p.W614C	SLC6A16_uc002pna.2_Missense_Mutation_p.W614C	NM_014037	NP_054756	Q9GZN6	S6A16_HUMAN	solute carrier family 6, member 16	614	Helical; Name=11; (Potential).					integral to membrane|intracellular	neurotransmitter:sodium symporter activity			skin(2)|ovary(1)|kidney(1)	4		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00099)|GBM - Glioblastoma multiforme(486;0.0336)		ACAGATGGGGCCACAGCCAAC	0.537													3	9	---	---	---	---	PASS	A	49793961	A	A	49793961	3	1	104	1	0	0	0	0	1	0	0	0	14679	740	26	3	376	3	SLC6A16	19	49793961	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	1056247	49793961	9335022	344	38756										
ZNF761	388561	broad.mit.edu	37	chr19	53958064	53958064	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	catgactatgaatttcaatgGcaagaagatgaaagaaatgg	10	4	1	6			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:53958064G>T	uc010eqp.2	+	7	761	c.303G>T	c.(301-303)TGG>TGT	p.W101C	ZNF761_uc010ydy.1_Missense_Mutation_p.W47C|ZNF761_uc002qbt.1_Missense_Mutation_p.W47C	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		AATTTCAATGGCAAGAAGATG	0.363													23	57	---	---	---	---	PASS	T	53958064	T	T	53958064	3	4	104	1	0	0	0	0	1	0	0	0	18133	1212	42	3	314	3	ZNF761	19	53958064	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	4164103	53958064	5170919	345	38757										
NLRP12	91662	broad.mit.edu	37	chr19	54313983	54313983	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ttctcctcccagcagaggcaCcagggtccctgaggatcgtg	12	14	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:54313983C>T	uc002qch.3	-	3	1150	c.930G>A	c.(928-930)TGG>TGA	p.W310*	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Nonsense_Mutation_p.W310*|NLRP12_uc002qcj.3_Nonsense_Mutation_p.W310*|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Nonsense_Mutation_p.W310*	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	310	NACHT.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		AGCAGAGGCACCAGGGTCCCT	0.572													10	25	---	---	---	---	PASS	T	54313983	T	T	54313983	4	4	104	1	0	0	0	0	0	1	0	0	10474	508	18	3	2383	3	NLRP12	19	54313983	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	355919	54313983	4815000	346	38758										
ZNF471	57573	broad.mit.edu	37	chr19	57037235	57037235	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cactggccaaaggccctatcAgtgttttgaatgtgggaagg	13	8	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:57037235A>T	uc002qnh.2	+	5	1932	c.1799A>T	c.(1798-1800)CAG>CTG	p.Q600L		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	600	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		AGGCCCTATCAGTGTTTTGAA	0.423													22	42	---	---	---	---	PASS	T	57037235	T	T	57037235	3	4	104	1	0	0	0	0	1	0	0	0	17927	188	7	5	1813	5	ZNF471	19	57037235	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	2723252	57037235	2091748	347	38759										
PEG3	5178	broad.mit.edu	37	chr19	57328739	57328739	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	cgctgctggatcactgactcCctcttgttcaatgaaatgtc	8	12	3	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:57328739C>A	uc002qnu.2	-	7	1422	c.1071G>T	c.(1069-1071)AGG>AGT	p.R357S	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.R328S|PEG3_uc002qnv.2_Missense_Mutation_p.R357S|PEG3_uc002qnw.2_Missense_Mutation_p.R233S|PEG3_uc002qnx.2_Missense_Mutation_p.R231S|PEG3_uc010etr.2_Missense_Mutation_p.R357S	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	357					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TCACTGACTCCCTCTTGTTCA	0.458													20	47	---	---	---	---	PASS	A	57328739	A	A	57328739	3	1	104	1	0	0	0	0	1	0	0	0	11720	622	22	3	3699	3	PEG3	19	57328739	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	291504	57328739	1800244	348	38760										
USP29	57663	broad.mit.edu	37	chr19	57641512	57641512	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atataactgtcagatgtgtaAgcagaagagttgtgttgcaa	11	4	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:57641512A>C	uc002qny.2	+	4	1825	c.1469A>C	c.(1468-1470)AAG>ACG	p.K490T		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	490					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CAGATGTGTAAGCAGAAGAGT	0.393													18	110	---	---	---	---	PASS	C	57641512	C	C	57641512	3	2	104	1	0	0	0	0	1	0	0	0	17056	72	3	5	1471	5	USP29	19	57641512	Missense_Mutation	SNP	A	TCGA-46-3765-01A-01D-0983-08	312773	57641512	1487471	349	38761										
ZIK1	284307	broad.mit.edu	37	chr19	58099930	58099930	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgtgtgacctttgaggacatCgccatttacttctcacagga	9	10	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr19:58099930C>A	uc002qpg.2	+	3	193	c.96C>A	c.(94-96)ATC>ATA	p.I32I	ZNF547_uc002qpm.3_Intron|ZIK1_uc002qph.2_5'UTR|ZIK1_uc002qpi.2_Silent_p.I19I|ZIK1_uc002qpj.2_Intron	NM_001010879	NP_001010879	Q3SY52	ZIK1_HUMAN	zinc finger protein interacting with K protein	32	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TTGAGGACATCGCCATTTACT	0.522													25	63	---	---	---	---	PASS	A	58099930	A	A	58099930	2	1	104	1	0	0	0	0	0	0	0	1	17680	874	31	2		2	ZIK1	19	58099930	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	458418	58099930	1029053	350	38762										
TRPC4AP	26133	broad.mit.edu	37	chr20	33623108	33623108	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agccaggaatgctgagaaggGccgctgccagggaaagaaca	15	9	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr20:33623108G>T	uc002xbk.2	-	8	903	c.869C>A	c.(868-870)GCC>GAC	p.A290D	TRPC4AP_uc010zuq.1_5'UTR|TRPC4AP_uc002xbl.2_Missense_Mutation_p.A290D|TRPC4AP_uc010zur.1_Missense_Mutation_p.A251D|TRPC4AP_uc002xbm.1_Missense_Mutation_p.A290D	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	290	Interaction with TNFRSF1A (By similarity).				protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			GCTGAGAAGGGCCGCTGCCAG	0.483													13	22	---	---	---	---	PASS	T	33623108	T	T	33623108	3	4	104	1	0	0	0	0	1	0	0	0	16578	1203	42	3	1572	3	TRPC4AP	20	33623108	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08		33623108	29402412	351	38763										
PTPRT	11122	broad.mit.edu	37	chr20	40710638	40710638	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcagatggcacagaaggttcCactacggcctcccccatttc	9	15	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr20:40710638C>A	uc002xkg.2	-	30	4340	c.4156G>T	c.(4156-4158)GGA>TGA	p.G1386*	PTPRT_uc010ggj.2_Nonsense_Mutation_p.G1405*|PTPRT_uc010ggi.2_Nonsense_Mutation_p.G589*	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1386	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CAGAAGGTTCCACTACGGCCT	0.478													5	54	---	---	---	---	PASS	A	40710638	A	A	40710638	4	1	104	1	0	0	0	0	0	1	0	0	12812	603	21	3	177	3	PTPRT	20	40710638	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	7087530	40710638	22314882	352	38764										
PTPRT	11122	broad.mit.edu	37	chr20	40713348	40713348	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tggaccacagtacgtccctcCctcccgtcatactgctcctg	7	18	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr20:40713348C>A	uc002xkg.2	-	29	4294	c.4110G>T	c.(4108-4110)AGG>AGT	p.R1370S	PTPRT_uc010ggj.2_Missense_Mutation_p.R1389S|PTPRT_uc010ggi.2_Missense_Mutation_p.R573S	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1370	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TACGTCCCTCCCTCCCGTCAT	0.607													4	17	---	---	---	---	PASS	A	40713348	A	A	40713348	3	1	104	1	0	0	0	0	1	0	0	0	12812	622	22	3	227	3	PTPRT	20	40713348	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	2710	40713348	22312172	353	38765										
NPBWR2	2832	broad.mit.edu	37	chr20	62737703	62737703	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggctggcgaccttcgcccccCggtaggtgcgccagggcatg	16	15	0	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr20:62737703C>T	uc011abt.1	-	1	482	c.482G>A	c.(481-483)CGG>CAG	p.R161Q		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	161	Cytoplasmic (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					CTTCGCCCCCCGGTAGGTGCG	0.632													7	8	---	---	---	---	PASS	T	62737703	T	T	62737703	3	4	104	1	0	0	0	0	1	0	0	0	10569	652	23	1	522	1	NPBWR2	20	62737703	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	22024355	62737703	287817	354	38766										
TPTE	7179	broad.mit.edu	37	chr21	10920107	10920107	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agaaggagtttttactccctGaaatttttcgctgtgggttt	10	6	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr21:10920107G>A	uc002yip.1	-	19	1515	c.1147C>T	c.(1147-1149)CAG>TAG	p.Q383*	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Nonsense_Mutation_p.Q365*|TPTE_uc002yir.1_Nonsense_Mutation_p.Q345*|TPTE_uc010gkv.1_Nonsense_Mutation_p.Q245*	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	383	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTTACTCCCTGAAATTTTTCG	0.378													7	85	---	---	---	---	PASS	A	10920107	A	A	10920107	4	1	104	1	0	0	0	0	0	1	0	0	16427	1299	45	2	532	2	TPTE	21	10920107	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08		10920107	37209788	355	38767										
BRWD1	54014	broad.mit.edu	37	chr21	40570785	40570785	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	acactgggacatagcaatagGgtcacagttcagatttcctg	10	9	2	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr21:40570785G>T	uc002yxk.1	-	40	5696	c.5557C>A	c.(5557-5559)CCT>ACT	p.P1853T	BRWD1_uc010goc.1_Missense_Mutation_p.P496T|BRWD1_uc002yxl.2_Missense_Mutation_p.P1853T	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1853					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				ATAGCAATAGGGTCACAGTTC	0.363													8	106	---	---	---	---	PASS	T	40570785	T	T	40570785	3	4	104	1	0	0	0	0	1	0	0	0	1525	1232	43	3	1656	3	BRWD1	21	40570785	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	29650678	40570785	7559110	356	38768										
C21orf57	54059	broad.mit.edu	37	chr21	47707005	47707005	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tctacagagatagaaatgtcCcaaccgatgtgctttctttt	7	9	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr21:47707005C>A	uc002ziv.2	+	2	607	c.178C>A	c.(178-180)CCA>ACA	p.P60T	C21orf57_uc002zit.1_Missense_Mutation_p.P60T|C21orf57_uc002ziu.1_Missense_Mutation_p.P60T|C21orf57_uc002ziw.2_Intron|C21orf57_uc002zix.2_Missense_Mutation_p.P60T|C21orf57_uc010gqh.2_Intron|C21orf57_uc002ziy.2_Missense_Mutation_p.P60T|MCM3AP_uc002zir.1_5'Flank	NM_058181	NP_478061	P58557	YBEY_HUMAN	hypothetical protein LOC54059 isoform 1	60							metal ion binding|metalloendopeptidase activity				0	Breast(49;0.112)			Colorectal(79;0.236)		TAGAAATGTCCCAACCGATGT	0.363													5	46	---	---	---	---	PASS	A	47707005	A	A	47707005	3	1	104	1	0	0	0	0	1	0	0	0	2128	623	22	3	180	3	C21orf57	21	47707005	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	7136220	47707005	422890	357	38769										
PPM1F	9647	broad.mit.edu	37	chr22	22288587	22288587	+	Frame_Shift_Del	DEL	G	-	-													0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gaaactctgtgccaggctttGggcatccagcactgatgggc							TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr22:22288587delG	uc002zvp.1	-	4	481	c.367delC	c.(367-369)CAAfs	p.Q123fs	PPM1F_uc011aik.1_Frame_Shift_Del_p.Q19fs|PPM1F_uc002zvq.2_Frame_Shift_Del_p.Q123fs	NM_014634	NP_055449	P49593	PPM1F_HUMAN	protein phosphatase 1F	123					apoptosis|protein dephosphorylation	protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(2)|large_intestine(1)|breast(1)|kidney(1)	5	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.155)		GCCAGGCTTTGGGCATCCAGC	0.627													4	8	---	---	---	---		-	22288587	-	-	22288587	7	5	104	1	0	1	0	1	0	0	0	0	12339	1357	47	0	1017	0	PPM1F	22	22288587	Frame_Shift_Del	DEL	G	TCGA-46-3765-01A-01D-0983-08		22288587	29015979	358	38770										
VPREB1	7441	broad.mit.edu	37	chr22	22599440	22599440	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	atccgcctcacctgcaccctGaggaacgaccatgacatcgg	9	16	1	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr22:22599440G>A	uc002zvx.1	+	2	155	c.129G>A	c.(127-129)CTG>CTA	p.L43L	LOC96610_uc011aim.1_Intron	NM_007128	NP_009059	P12018	VPREB_HUMAN	immunoglobulin iota chain precursor	43	Ig-like V-type.|Complementarity-determining-1.				immune response	extracellular region	antigen binding|protein binding				0	all_hematologic(9;0.0312)|Acute lymphoblastic leukemia(84;0.155)	all_cancers(3;3.14e-14)|Acute lymphoblastic leukemia(3;2.97e-57)|all_hematologic(3;5.9e-52)		READ - Rectum adenocarcinoma(21;0.145)		CCTGCACCCTGAGGAACGACC	0.592													11	89	---	---	---	---	PASS	A	22599440	A	A	22599440	2	1	104	1	0	0	0	0	0	0	0	1	17183	1277	45	2		2	VPREB1	22	22599440	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	310853	22599440	28705126	359	38771										
SLC2A11	66035	broad.mit.edu	37	chr22	24210776	24210776	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tcgtgtctctgtatcccctgGgaggcctctttggagcactg	12	12	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr22:24210776G>T	uc002zyn.3	+	3	328	c.229G>T	c.(229-231)GGA>TGA	p.G77*	SLC2A11_uc002zyl.1_Nonsense_Mutation_p.G84*|SLC2A11_uc002zym.3_Nonsense_Mutation_p.G84*|SLC2A11_uc002zyo.3_RNA|SLC2A11_uc011ajc.1_Nonsense_Mutation_p.G84*|SLC2A11_uc011ajd.1_Nonsense_Mutation_p.G71*|SLC2A11_uc002zyp.3_Nonsense_Mutation_p.G80*	NM_001024938	NP_001020109	Q9BYW1	GTR11_HUMAN	glucose transporter protein 10 isoform c	77	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity			ovary(1)	1						GTATCCCCTGGGAGGCCTCTT	0.567													5	35	---	---	---	---	PASS	T	24210776	T	T	24210776	4	4	104	1	0	0	0	0	0	1	0	0	14540	1233	43	3	319	3	SLC2A11	22	24210776	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	1611336	24210776	27093790	360	38772										
C22orf28	51493	broad.mit.edu	37	chr22	32802670	32802670	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tggggatactactgcttcagGgtcattcatatcaaaggctg	11	8	4	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr22:32802670G>T	uc003amm.2	-	4	450	c.319C>A	c.(319-321)CCT>ACT	p.P107T	C22orf28_uc011ama.1_RNA	NM_014306	NP_055121	Q9Y3I0	RTCB_HUMAN	hypothetical protein LOC51493	107					cell-matrix adhesion|substrate adhesion-dependent cell spreading|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|tRNA-splicing ligase complex	ATP binding|metal ion binding|RNA ligase (ATP) activity|vinculin binding				0						ACTGCTTCAGGGTCATTCATA	0.343													7	137	---	---	---	---	PASS	T	32802670	T	T	32802670	3	4	104	1	0	0	0	0	1	0	0	0	2140	1232	43	3	1234	3	C22orf28	22	32802670	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	8591894	32802670	18501896	361	38773										
RBM9	23543	broad.mit.edu	37	chr22	36177730	36177730	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tttcggggtagatttactctCtgaattttcactactttgtg	8	7	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr22:36177730C>A	uc003aon.3	-	4	638	c.526G>T	c.(526-528)GAG>TAG	p.E176*	RBM9_uc003aog.3_Nonsense_Mutation_p.E86*|RBM9_uc003aol.3_Nonsense_Mutation_p.E105*|RBM9_uc003aoj.3_Nonsense_Mutation_p.E105*|RBM9_uc003aok.3_Nonsense_Mutation_p.E106*|RBM9_uc003aoh.3_Nonsense_Mutation_p.E105*|RBM9_uc003aom.3_Nonsense_Mutation_p.E105*|RBM9_uc010gwu.2_Nonsense_Mutation_p.E85*|RBM9_uc003aoo.3_Nonsense_Mutation_p.E175*|RBM9_uc003aop.3_Nonsense_Mutation_p.E105*	NM_001082578	NP_001076047	O43251	RFOX2_HUMAN	RNA binding motif protein 9 isoform 5	115					estrogen receptor signaling pathway|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of cell proliferation|RNA splicing	cytoplasm|nucleus	nucleotide binding|RNA binding|transcription corepressor activity|transcription factor binding				0						GATTTACTCTCTGAATTTTCA	0.453													8	176	---	---	---	---	PASS	A	36177730	A	A	36177730	4	1	104	1	0	0	0	0	0	1	0	0	13147	922	32	2	883	2	RBM9	22	36177730	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3375060	36177730	15126836	362	38774										
MICALL1	85377	broad.mit.edu	37	chr22	38333762	38333762	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcttatttcagggaggaagaGgaagacaagatgttggaagc	15	4	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr22:38333762G>T	uc003aui.2	+	15	2517	c.2433G>T	c.(2431-2433)GAG>GAT	p.E811D		NM_033386	NP_203744	Q8N3F8	MILK1_HUMAN	molecule interacting with Rab13	811	Potential.					cytoplasm|cytoskeleton	protein binding|zinc ion binding			breast(1)	1	Melanoma(58;0.045)					GGGAGGAAGAGGAAGACAAGA	0.338													8	198	---	---	---	---	PASS	T	38333762	T	T	38333762	3	4	104	1	0	0	0	0	1	0	0	0	9573	991	35	3	2491	3	MICALL1	22	38333762	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	2156032	38333762	12970804	363	38775										
DMC1	11144	broad.mit.edu	37	chr22	38934604	38934604	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gctacataatcaagtagctcCatctgatgttcacctgatgg	8	10	3	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr22:38934604C>A	uc003avz.1	-	10	775	c.600G>T	c.(598-600)ATG>ATT	p.M200I	DMC1_uc011anv.1_Missense_Mutation_p.M145I	NM_007068	NP_008999	Q14565	DMC1_HUMAN	DMC1 dosage suppressor of mck1 homolog	200					reciprocal meiotic recombination	condensed nuclear chromosome	ATP binding|DNA binding|DNA-dependent ATPase activity|protein binding			ovary(1)	1	Melanoma(58;0.0286)					CAAGTAGCTCCATCTGATGTT	0.383								Homologous_recombination					8	188	---	---	---	---	PASS	A	38934604	A	A	38934604	3	1	104	1	0	0	0	0	1	0	0	0	4579	594	21	3	442	3	DMC1	22	38934604	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	600842	38934604	12369962	364	38776										
MCHR1	2847	broad.mit.edu	37	chr22	41077580	41077580	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gatcctgcagcgcatgacgtCctcagtggcccccgcctccc	10	19	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr22:41077580C>T	uc003ayz.2	+	2	1185	c.917C>T	c.(916-918)TCC>TTC	p.S306F	MCHR1_uc003aza.2_Missense_Mutation_p.S195F|uc003azb.1_RNA	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	306	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						CGCATGACGTCCTCAGTGGCC	0.602													7	51	---	---	---	---	PASS	T	41077580	T	T	41077580	3	4	104	1	0	0	0	0	1	0	0	0	9382	855	30	2	923	2	MCHR1	22	41077580	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	2142976	41077580	10226986	365	38777										
CRELD2	79174	broad.mit.edu	37	chr22	50318061	50318061	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aaggcccaggaaactgtaaaGagtgtatctctggctacgcg	12	9	1	1	rs113168785	byFrequency	TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr22:50318061G>T	uc003bja.2	+	8	961	c.826G>T	c.(826-828)GAG>TAG	p.E276*	CRELD2_uc010haj.2_Nonsense_Mutation_p.E276*|CRELD2_uc010hal.2_Nonsense_Mutation_p.E325*|CRELD2_uc010hak.2_Nonsense_Mutation_p.E248*|CRELD2_uc010ham.2_Intron	NM_024324	NP_077300	Q6UXH1	CREL2_HUMAN	cysteine-rich with EGF-like domains 2 isoform b	276	FU 2.					endoplasmic reticulum|extracellular region	calcium ion binding				0		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.198)|LUAD - Lung adenocarcinoma(64;0.247)		AAACTGTAAAGAGTGTATCTC	0.602													4	13	---	---	---	---	PASS	T	50318061	T	T	50318061	4	4	104	1	0	0	0	0	0	1	0	0	3867	943	33	2	1007	2	CRELD2	22	50318061	Nonsense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	9240481	50318061	986505	366	38778										
SELO	83642	broad.mit.edu	37	chr22	50649059	50649059	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ctctcttgccccgtgtggcaGgtacgaccccgaccacgtgt	11	16	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr22:50649059G>T	uc011arr.1	+	5	1129	c.1071_splice	c.e5-1	p.R357_splice	SELO_uc010hap.2_Splice_Site_p.R168_splice|SELO_uc003bjy.2_Splice_Site_p.R37_splice|SELO_uc003bjz.2_Splice_Site_p.R37_splice	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O												0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		CCGTGTGGCAGGTACGACCCC	0.672											OREG0026676	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	19	---	---	---	---	PASS	T	50649059	T	T	50649059	5	4	104	1	0	0	0	0	0	0	1	0	14018	1014	35	3	1088	3	SELO	22	50649059	Splice_Site	SNP	G	TCGA-46-3765-01A-01D-0983-08	330998	50649059	655507	367	38779										
MAPK8IP2	23542	broad.mit.edu	37	chr22	51040245	51040245	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	caggacataagcctggaagaAtttgacgacgaagatctgtc	11	8	1	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chr22:51040245A>G	uc003bmx.2	+	2	210	c.93A>G	c.(91-93)GAA>GAG	p.E31E	MAPK8IP2_uc003bmy.2_5'Flank	NM_012324	NP_036456	Q13387	JIP2_HUMAN	mitogen-activated protein kinase 8 interacting	31	Asp/Glu-rich (acidic).				behavioral fear response|dendrite morphogenesis|MAPKKK cascade|nonassociative learning|positive regulation of anti-apoptosis|regulation of excitatory postsynaptic membrane potential|regulation of JNK cascade|regulation of receptor activity|regulation of synaptic transmission, glutamatergic|signal complex assembly|social behavior	cytoplasm|postsynaptic density	beta-amyloid binding|kinesin binding|MAP-kinase scaffold activity|protein kinase activator activity|protein kinase binding			large_intestine(2)|central_nervous_system(1)	3		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		OV - Ovarian serous cystadenocarcinoma(4;1.28e-70)|Epithelial(4;3.46e-65)|GBM - Glioblastoma multiforme(4;4.83e-06)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GCCTGGAAGAATTTGACGACG	0.587													4	76	---	---	---	---	PASS	G	51040245	G	G	51040245	2	3	104	1	0	0	0	0	0	0	0	1	9285	98	4	5		5	MAPK8IP2	22	51040245	Silent	SNP	A	TCGA-46-3765-01A-01D-0983-08	391186	51040245	264321	368	38780										
STS	412	broad.mit.edu	37	chrX	7268042	7268042	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	ggagttatgtcacccatcacGacccacctttactctttgat	6	13	3	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chrX:7268042G>A	uc004cry.3	+	10	1737	c.1492G>A	c.(1492-1494)GAC>AAC	p.D498N		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	498	Lumenal.				female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)	CACCCATCACGACCCACCTTT	0.493									Ichthyosis				15	19	---	---	---	---	PASS	A	7268042	A	A	7268042	3	1	104	1	0	0	0	0	1	0	0	0	15331	1058	37	2	1530	2	STS	23	7268042	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08		7268042	148002518	369	38781										
TLR7	51284	broad.mit.edu	37	chrX	12905841	12905841	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	aataatcaaatcaggagtctGacgaagtattttctacaaga	7	6	4	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chrX:12905841G>A	uc004cvc.2	+	3	2353	c.2214G>A	c.(2212-2214)CTG>CTA	p.L738L		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	738	LRR 25.|Extracellular (Potential).			L -> P (in Ref. 2; AAF78035).	cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	TCAGGAGTCTGACGAAGTATT	0.423													20	50	---	---	---	---	PASS	A	12905841	A	A	12905841	2	1	104	1	0	0	0	0	0	0	0	1	15953	1277	45	2		2	TLR7	23	12905841	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	5637799	12905841	142364719	370	38782										
TXLNG	55787	broad.mit.edu	37	chrX	16846272	16846272	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gatcctgcagaagaagcaagCccagattgtgaaagagaaag	12	7	0	5			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chrX:16846272C>A	uc004cxq.1	+	4	605	c.554C>A	c.(553-555)GCC>GAC	p.A185D	TXLNG_uc010ney.1_Missense_Mutation_p.A53D	NM_018360	NP_060830	Q9NUQ3	TXLNG_HUMAN	gamma-taxilin	185	Potential.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1						AAGAAGCAAGCCCAGATTGTG	0.418													21	42	---	---	---	---	PASS	A	16846272	A	A	16846272	3	1	104	1	0	0	0	0	1	0	0	0	16786	739	26	3	568	3	TXLNG	23	16846272	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3940431	16846272	138424288	371	38783										
KLF8	11279	broad.mit.edu	37	chrX	56295866	56295866	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	attccaagtgacagtgaggaGagtacaattgagagtggatc	13	5	0	4			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chrX:56295866G>C	uc004dur.2	+	4	1648	c.702G>C	c.(700-702)GAG>GAC	p.E234D	KLF8_uc010nkg.2_3'UTR|KLF8_uc011mop.1_Missense_Mutation_p.E234D|KLF8_uc010nkh.2_RNA	NM_007250	NP_009181	O95600	KLF8_HUMAN	Kruppel-like factor 8 isoform 1	234					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ACAGTGAGGAGAGTACAATTG	0.433													8	15	---	---	---	---	PASS	C	56295866	C	C	56295866	3	2	104	1	0	0	0	0	1	0	0	0	8352	933	33	2	716	2	KLF8	23	56295866	Missense_Mutation	SNP	G	TCGA-46-3765-01A-01D-0983-08	39449594	56295866	98974694	372	38784										
ZXDA	7789	broad.mit.edu	37	chrX	57935671	57935671	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgataaatgtcttcttgcagCcagaaaacgcgcactggtaa	9	9	2	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chrX:57935671C>A	uc004dve.2	-	1	1397	c.1184G>T	c.(1183-1185)GGC>GTC	p.G395V		NM_007156	NP_009087	P98168	ZXDA_HUMAN	zinc finger, X-linked, duplicated A	395	C2H2-type 5.|Required for interaction with ZXDC.				positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						CTTCTTGCAGCCAGAAAACGC	0.572													16	32	---	---	---	---	PASS	A	57935671	A	A	57935671	3	1	104	1	0	0	0	0	1	0	0	0	18247	739	26	3	1219	3	ZXDA	23	57935671	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	1639805	57935671	97334889	373	38785										
AWAT2	158835	broad.mit.edu	37	chrX	69262236	69262236	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	taggcaggtattagaggcacCctgcagagcaaaagcatatc	11	9	0	2			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chrX:69262236C>A	uc004dxt.1	-	6	654	c.648G>T	c.(646-648)GGG>GGT	p.G216G		NM_001002254	NP_001002254	Q6E213	AWAT2_HUMAN	wax synthase 2	216						endoplasmic reticulum membrane|integral to membrane	long-chain-alcohol O-fatty-acyltransferase activity				0						TTAGAGGCACCCTGCAGAGCA	0.542													4	27	---	---	---	---	PASS	A	69262236	A	A	69262236	2	1	104	1	0	0	0	0	0	0	0	1	1235	637	22	3		3	AWAT2	23	69262236	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	11326565	69262236	86008324	374	38786										
ATRX	546	broad.mit.edu	37	chrX	76763844	76763844	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	caaaatcacattgatttcccTtgggaaggtcctggattttt	8	8	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chrX:76763844T>A	uc004ecp.3	-	35	7696	c.7464A>T	c.(7462-7464)CAA>CAT	p.Q2488H	ATRX_uc004ecq.3_Missense_Mutation_p.Q2450H|ATRX_uc004eco.3_Missense_Mutation_p.Q2273H	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	2488					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TTGATTTCCCTTGGGAAGGTC	0.398			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						31	62	---	---	---	---	PASS	A	76763844	A	A	76763844	3	1	104	1	0	0	0	0	1	0	0	0	1208	1606	56	5	18	5	ATRX	23	76763844	Missense_Mutation	SNP	T	TCGA-46-3765-01A-01D-0983-08	7501608	76763844	78506716	375	38787										
BRWD3	254065	broad.mit.edu	37	chrX	79936891	79936891	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgatttggctttccctgggtCatggctatttccacttcggc	10	11	1	1			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chrX:79936891C>A	uc004edt.2	-	40	4866	c.4603G>T	c.(4603-4605)GAC>TAC	p.D1535Y	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.D1131Y|BRWD3_uc004edp.2_Missense_Mutation_p.D1364Y|BRWD3_uc004edq.2_Missense_Mutation_p.D1131Y|BRWD3_uc010nmj.1_Missense_Mutation_p.D1131Y|BRWD3_uc004edr.2_Missense_Mutation_p.D1205Y|BRWD3_uc004eds.2_Missense_Mutation_p.D1131Y|BRWD3_uc004edu.2_Missense_Mutation_p.D1205Y|BRWD3_uc004edv.2_Missense_Mutation_p.D1131Y|BRWD3_uc004edw.2_Missense_Mutation_p.D1131Y|BRWD3_uc004edx.2_Missense_Mutation_p.D1131Y|BRWD3_uc004edy.2_Missense_Mutation_p.D1131Y|BRWD3_uc004edz.2_Missense_Mutation_p.D1205Y|BRWD3_uc004eea.2_Missense_Mutation_p.D1205Y|BRWD3_uc004eeb.2_Missense_Mutation_p.D1131Y	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	1535										ovary(4)	4						TTCCCTGGGTCATGGCTATTT	0.393													24	60	---	---	---	---	PASS	A	79936891	A	A	79936891	3	1	104	1	0	0	0	0	1	0	0	0	1526	826	29	2	813	2	BRWD3	23	79936891	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	3173047	79936891	75333669	376	38788										
BEX1	55859	broad.mit.edu	37	chrX	102317936	102317936	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	agcttttccatcagctgtctCacctcctccccaatcctttc	3	18	2	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chrX:102317936C>T	uc004ejt.1	-	3	507	c.267G>A	c.(265-267)GTG>GTA	p.V89V		NM_018476	NP_060946	Q9HBH7	BEX1_HUMAN	brain expressed, X-linked 1	89					cell differentiation|nervous system development	cytoplasm|nucleus				ovary(1)	1						TCAGCTGTCTCACCTCCTCCC	0.512													33	73	---	---	---	---	PASS	T	102317936	T	T	102317936	2	4	104	1	0	0	0	0	0	0	0	1	1410	813	29	2		2	BEX1	23	102317936	Silent	SNP	C	TCGA-46-3765-01A-01D-0983-08	22381045	102317936	52952624	377	38789										
DCAF12L1	139170	broad.mit.edu	37	chrX	125686327	125686327	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	gcccagctccagttggcgctCcgtcagcagctcgggcagcc	13	17	1	0			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chrX:125686327C>A	uc004eul.2	-	1	516	c.265G>T	c.(265-267)GAG>TAG	p.E89*		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	89										skin(3)|ovary(1)	4						AGTTGGCGCTCCGTCAGCAGC	0.657													11	15	---	---	---	---	PASS	A	125686327	A	A	125686327	4	1	104	1	0	0	0	0	0	1	0	0	4264	864	30	2	1130	2	DCAF12L1	23	125686327	Nonsense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	23368391	125686327	29584233	378	38790										
MST4	51765	broad.mit.edu	37	chrX	131206864	131206864	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	caagatcttgtgcaaaccctGagttgtttgtctatgataat	8	7	2	3			TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chrX:131206864G>C	uc004ewk.1	+	10	1351	c.1050G>C	c.(1048-1050)CTG>CTC	p.L350L	MST4_uc004ewl.1_Silent_p.L273L|MST4_uc011mux.1_Silent_p.L372L|MST4_uc010nrj.1_Intron|MST4_uc004ewm.1_Silent_p.L288L	NM_016542	NP_057626	Q9P289	MST4_HUMAN	serine/threonine protein kinase MST4 isoform 1	350					cellular component disassembly involved in apoptosis|regulation of apoptosis	cytosol|Golgi membrane	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(3)|stomach(2)|upper_aerodigestive_tract(1)	9	Acute lymphoblastic leukemia(192;0.000127)					TGCAAACCCTGAGTTGTTTGT	0.284													15	40	---	---	---	---	PASS	C	131206864	C	C	131206864	2	2	104	1	0	0	0	0	0	0	0	1	9892	1277	45	2		2	MST4	23	131206864	Silent	SNP	G	TCGA-46-3765-01A-01D-0983-08	5520537	131206864	24063696	379	38791										
SLC6A8	6535	broad.mit.edu	37	chrX	152959701	152959701	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.109333333333333	41	3.65405461342577e-06	2.15655710872911	2.32127488532652	2.08777386135877	0.00691925076705544	0.0693055757800466	22	tgtgccctctgctttgtcatCgatctctccatggtgactga	9	12	3	2	rs3179358		TCGA-46-3765-01A-01D-0983-08	TCGA-46-3765-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c4bb09f-46c8-4a42-bf4f-8bad5316603d	901a8f87-7ff9-4ae7-add8-d20380fc31fa	g.chrX:152959701C>G	uc004fib.3	+	9	1649	c.1371C>G	c.(1369-1371)ATC>ATG	p.I457M	SLC6A8_uc004fic.3_Missense_Mutation_p.I447M|SLC6A8_uc011myx.1_Missense_Mutation_p.I342M|SLC6A8_uc010nuj.2_RNA	NM_005629	NP_005620	P48029	SC6A8_HUMAN	solute carrier family 6 member 8 isoform 1	457	Helical; (Potential).				creatine metabolic process|muscle contraction	integral to plasma membrane	creatine:sodium symporter activity|neurotransmitter:sodium symporter activity			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Creatine(DB00148)	GCTTTGTCATCGATCTCTCCA	0.617													39	59	---	---	---	---	PASS	G	152959701	G	G	152959701	3	3	104	1	0	0	0	0	1	0	0	0	14690	874	31	2	1405	2	SLC6A8	23	152959701	Missense_Mutation	SNP	C	TCGA-46-3765-01A-01D-0983-08	21752837	152959701	2310859	380	38792										
TAS1R1	80835	broad.mit.edu	37	chr1	6637114	6637114	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gtgccctgtggggctgggacCttcctcaacaagagtggtga	15	10	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:6637114C>A	uc001ant.2	+	5	1578	c.1578C>A	c.(1576-1578)ACC>ACA	p.T526T	TAS1R1_uc001anu.2_Silent_p.T272T|TAS1R1_uc001anv.2_Silent_p.T272T|TAS1R1_uc001anw.2_Intron|ZBTB48_uc009vmc.1_5'Flank|ZBTB48_uc001anx.2_5'Flank|ZBTB48_uc009vmd.1_5'Flank	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	526	Extracellular (Potential).				sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;8.73e-34)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		GGGCTGGGACCTTCCTCAACA	0.617													4	19	---	---	---	---	PASS	A	6637114	A	A	6637114	2	1	106	1	0	0	0	0	0	0	0	1	15559	668	24	3		3	TAS1R1	1	6637114	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08		6637114	242613507	1	38793										
PINK1	65018	broad.mit.edu	37	chr1	20975099	20975099	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gctggtacgtggatcggggcGgaaacggctgtctgatggcc	18	9	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:20975099G>C	uc001bdm.2	+	6	1319	c.1225G>C	c.(1225-1227)GGA>CGA	p.G409R	PINK1_uc001bdn.2_Missense_Mutation_p.G102R	NM_032409	NP_115785	Q9BXM7	PINK1_HUMAN	PTEN induced putative kinase 1 precursor	409	Protein kinase.|Cytoplasmic (Potential).		G -> V (in PARK6).		cell death|intracellular protein kinase cascade|mitochondrion degradation|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of release of cytochrome c from mitochondria|regulation of protein complex assembly|regulation of protein ubiquitination|response to stress	cytosol|integral to membrane|mitochondrial outer membrane	ATP binding|C3HC4-type RING finger domain binding|calcium-dependent protein kinase activity|magnesium ion binding|protein serine/threonine kinase activity|ubiquitin protein ligase binding			ovary(2)|central_nervous_system(1)	3		all_lung(284;2.72e-05)|Lung NSC(340;2.94e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.21e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000146)|Kidney(64;0.000182)|GBM - Glioblastoma multiforme(114;0.000497)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GGATCGGGGCGGAAACGGCTG	0.627													5	28	---	---	---	---	PASS	C	20975099	C	C	20975099	3	2	106	1	0	0	0	0	1	0	0	0	11932	1117	39	4	1247	4	PINK1	1	20975099	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	14337985	20975099	228275522	2	38794										
CATSPER4	378807	broad.mit.edu	37	chr1	26524860	26524860	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	caggttgcgctgtacaccctCttcatctgcatcacccagga	8	15	4	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:26524860C>A	uc010oez.1	+	6	762	c.762C>A	c.(760-762)CTC>CTA	p.L254L	CATSPER4_uc010oey.1_Silent_p.L76L|CATSPER4_uc009vsf.2_RNA	NM_198137	NP_937770	Q7RTX7	CTSR4_HUMAN	cation channel, sperm associated 4	254					cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_cancers(24;2.05e-18)|Colorectal(325;0.000147)|Renal(390;0.00211)|all_lung(284;0.00218)|Lung NSC(340;0.00239)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-26)|Colorectal(126;1.34e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|BRCA - Breast invasive adenocarcinoma(304;0.000995)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00878)|READ - Rectum adenocarcinoma(331;0.0649)		TGTACACCCTCTTCATCTGCA	0.522													6	104	---	---	---	---	PASS	A	26524860	A	A	26524860	2	1	106	1	0	0	0	0	0	0	0	1	2690	900	32	2		2	CATSPER4	1	26524860	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	5549761	26524860	222725761	3	38795										
GRIK3	2899	broad.mit.edu	37	chr1	37356697	37356697	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ccgcatactcgaagattcctCctgtgaaagatgagtaaaat	8	9	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:37356697C>A	uc001caz.2	-	2	251	c.116G>T	c.(115-117)GGA>GTA	p.G39V	GRIK3_uc001cba.1_Missense_Mutation_p.G39V	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	39	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GAAGATTCCTCCTGTGAAAGA	0.502													5	89	---	---	---	---	PASS	A	37356697	A	A	37356697	3	1	106	1	0	0	0	0	1	0	0	0	6775	869	30	2	2703	2	GRIK3	1	37356697	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	10831837	37356697	211893924	4	38796										
RAVER2	55225	broad.mit.edu	37	chr1	65296547	65296547	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	atctttaagaaatgaaaagcGaggctcatcatatctcatct	6	8	5	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:65296547G>T	uc001dbs.1	+	12	1994	c.1916G>T	c.(1915-1917)CGA>CTA	p.R639L	RAVER2_uc001dbt.1_Missense_Mutation_p.R531L|RAVER2_uc010opb.1_Missense_Mutation_p.R364L	NM_018211	NP_060681	Q9HCJ3	RAVR2_HUMAN	ribonucleoprotein, PTB-binding 2	652						cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)	1						AATGAAAAGCGAGGCTCATCA	0.358													4	106	---	---	---	---	PASS	T	65296547	T	T	65296547	3	4	106	1	0	0	0	0	1	0	0	0	13095	1058	37	2	1962	2	RAVER2	1	65296547	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	27939850	65296547	183954074	5	38797										
COL24A1	255631	broad.mit.edu	37	chr1	86523649	86523649	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	acctggattaccttctggtcCagctaaaccctggtgtaaac	8	12	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:86523649C>A	uc001dlj.2	-	10	1858	c.1816G>T	c.(1816-1818)GGA>TGA	p.G606*	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Nonsense_Mutation_p.G606*	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	606	Collagen-like 2.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		CCTTCTGGTCCAGCTAAACCC	0.333													5	31	---	---	---	---	PASS	A	86523649	A	A	86523649	4	1	106	1	0	0	0	0	0	1	0	0	3683	603	21	3	3532	3	COL24A1	1	86523649	Nonsense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	21227102	86523649	162726972	6	38798										
TARS2	80222	broad.mit.edu	37	chr1	150477118	150477118	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tcctttcaaggcaggcgggtGccctggagcgtccagtcctc	13	14	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:150477118G>T	uc001euq.2	+	15	1736	c.1729G>T	c.(1729-1731)GCC>TCC	p.A577S	TARS2_uc001eur.2_Missense_Mutation_p.A495S|TARS2_uc009wlt.2_Missense_Mutation_p.A203S|TARS2_uc009wls.2_Missense_Mutation_p.A447S	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	577					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	GCAGGCGGGTGCCCTGGAGCG	0.527													5	102	---	---	---	---	PASS	T	150477118	T	T	150477118	3	4	106	1	0	0	0	0	1	0	0	0	15557	1319	46	3	1787	3	TARS2	1	150477118	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	63953469	150477118	98773503	7	38799										
LCE1F	353137	broad.mit.edu	37	chr1	152748937	152748937	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgccccacaccgaagtgcccCccaaagtgtccccctaagtg	8	18	0	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:152748937C>A	uc010pdv.1	+	1	90	c.90C>A	c.(88-90)CCC>CCA	p.P30P		NM_178354	NP_848131	Q5T754	LCE1F_HUMAN	late cornified envelope 1F	30	Pro-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			cgaagtgccccccaaagtgtc	0.403													17	40	---	---	---	---	PASS	A	152748937	A	A	152748937	2	1	106	1	0	0	0	0	0	0	0	1	8664	610	22	3		3	LCE1F	1	152748937	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	2271819	152748937	96501684	8	38800										
DENND4B	9909	broad.mit.edu	37	chr1	153914391	153914391	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgagacggagtagcggtaaaGgaaggtgaggaaggcgcgga	20	4	0	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:153914391G>T	uc001fdd.1	-	6	1410	c.1009C>A	c.(1009-1011)CTT>ATT	p.L337I		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	337	DENN.									ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TAGCGGTAAAGGAAGGTGAGG	0.667													5	28	---	---	---	---	PASS	T	153914391	T	T	153914391	3	4	106	1	0	0	0	0	1	0	0	0	4434	1000	35	3	3573	3	DENND4B	1	153914391	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	1165454	153914391	95336230	9	38801										
NES	10763	broad.mit.edu	37	chr1	156640754	156640754	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gacctctggggaggcttggtCaccccctggggccacatcat	13	14	3	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:156640754C>A	uc001fpq.2	-	4	3359	c.3226G>T	c.(3226-3228)GAC>TAC	p.D1076Y		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	1076	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GAGGCTTGGTCACCCCCTGGG	0.692													5	17	---	---	---	---	PASS	A	156640754	A	A	156640754	3	1	106	1	0	0	0	0	1	0	0	0	10337	826	29	2	1643	2	NES	1	156640754	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	2726363	156640754	92609867	10	38802										
CD1B	910	broad.mit.edu	37	chr1	158298754	158298754	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aaggcatagcaaaaggagcaAggaaggcactattattgcca	11	7	0	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:158298754A>T	uc001frx.2	-	5	1045	c.937T>A	c.(937-939)TTG>ATG	p.L313M	CD1B_uc001frw.2_Missense_Mutation_p.L151M	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	313	Helical; (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					AAAAGGAGCAAGGAAGGCACT	0.428													13	61	---	---	---	---	PASS	T	158298754	T	T	158298754	3	4	106	1	0	0	0	0	1	0	0	0	2975	69	3	5	72	5	CD1B	1	158298754	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	1658000	158298754	90951867	11	38803										
MNDA	4332	broad.mit.edu	37	chr1	158812030	158812030	+	Silent	SNP	G	C	C													0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	acatcaattaagtccttactGgcctatgatttaggactaac							TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:158812030G>C	uc001fsz.1	+	2	287	c.87G>C	c.(85-87)CTG>CTC	p.L29L		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	29	DAPIN.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					AGTCCTTACTGGCCTATGATT	0.333													6	48	---	---	---	---	PASS	C	158812030	C	C	158812030	2	2	106	1	0	0	0	0	0	0	0	1	9676	1335	47	4		4	MNDA	1	158812030	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	513276	158812030	90438591	12	38804	727	2								
MNDA	4332	broad.mit.edu	37	chr1	158812031	158812031	+	Missense_Mutation	SNP	G	A	A													0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	catcaattaagtccttactgGcctatgatttaggactaact							TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:158812031G>A	uc001fsz.1	+	2	288	c.88G>A	c.(88-90)GCC>ACC	p.A30T		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	30	DAPIN.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					GTCCTTACTGGCCTATGATTT	0.328													6	48	---	---	---	---	PASS	A	158812031	A	A	158812031	3	1	106	1	0	0	0	0	1	0	0	0	9676	1203	42	3	90	3	MNDA	1	158812031	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	1	158812031	90438590	13	38805	727	2								
FCER1A	2205	broad.mit.edu	37	chr1	159275872	159275872	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aggaactgggatgtgtacaaGgtgatctattataaggatgg	14	3	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:159275872G>A	uc001ftq.2	+	5	525	c.426G>A	c.(424-426)AAG>AAA	p.K142K		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	142	Ig-like 2.|Extracellular (Potential).					integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	ATGTGTACAAGGTGATCTATT	0.502													13	54	---	---	---	---	PASS	A	159275872	A	A	159275872	2	1	106	1	0	0	0	0	0	0	0	1	5774	991	35	3		3	FCER1A	1	159275872	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	463841	159275872	89974749	14	38806										
GPR161	23432	broad.mit.edu	37	chr1	168056836	168056836	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agccaacctttgatttgttcCacttcatcctcaaatgtcac	4	13	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:168056836C>A	uc001gfc.2	-	7	1625	c.1311G>T	c.(1309-1311)GTG>GTT	p.V437V	GPR161_uc001gfb.2_Silent_p.V305V|GPR161_uc010pll.1_Silent_p.V347V|GPR161_uc010plm.1_Silent_p.V323V|GPR161_uc009wvo.2_Silent_p.V454V|GPR161_uc001gfd.2_Silent_p.V437V|GPR161_uc010pln.1_Silent_p.V457V	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2	437	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)					TGATTTGTTCCACTTCATCCT	0.483													6	119	---	---	---	---	PASS	A	168056836	A	A	168056836	2	1	106	1	0	0	0	0	0	0	0	1	6665	581	21	3		3	GPR161	1	168056836	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	8780964	168056836	81193785	15	38807										
NCF2	4688	broad.mit.edu	37	chr1	183559390	183559390	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	acggcactgaaggcatccagGgctcccttccagtccttctt	9	15	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:183559390G>T	uc001gqj.3	-	1	350	c.75C>A	c.(73-75)GCC>GCA	p.A25A	NCF2_uc010pod.1_Silent_p.A25A|NCF2_uc010poe.1_Silent_p.A25A|NCF2_uc001gqk.3_Silent_p.A25A	NM_000433	NP_000424	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	25					cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3						AGGCATCCAGGGCTCCCTTCC	0.552													13	82	---	---	---	---	PASS	T	183559390	T	T	183559390	2	4	106	1	0	0	0	0	0	0	0	1	10217	1219	43	3		3	NCF2	1	183559390	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	15502554	183559390	65691231	16	38808										
EDEM3	80267	broad.mit.edu	37	chr1	184695505	184695505	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ccgagcttctggttttctgaTgccaaactttaaattaatct	6	9	3	1	rs142115161		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:184695505T>C	uc010pok.1	-	7	892	c.631A>G	c.(631-633)ATC>GTC	p.I211V	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.I211V|EDEM3_uc001gqy.2_Missense_Mutation_p.I134V	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	211					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						GGTTTTCTGATGCCAAACTTT	0.368													11	39	---	---	---	---	PASS	C	184695505	C	C	184695505	3	2	106	1	0	0	0	0	1	0	0	0	4913	1464	51	5	2223	5	EDEM3	1	184695505	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	1136115	184695505	64555116	17	38809										
LHX9	56956	broad.mit.edu	37	chr1	197898339	197898339	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ccgtgacctctaacatggacAgccacgaatccggaagcccc	9	16	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:197898339A>T	uc001guk.1	+	5	1581	c.1144A>T	c.(1144-1146)AGC>TGC	p.S382C	LHX9_uc001gui.1_Missense_Mutation_p.S373C|LHX9_uc001guj.1_Intron	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	382					motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						TAACATGGACAGCCACGAATC	0.428													7	75	---	---	---	---	PASS	T	197898339	T	T	197898339	3	4	106	1	0	0	0	0	1	0	0	0	8777	188	7	5	1194	5	LHX9	1	197898339	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	13202834	197898339	51352282	18	38810										
PTPRC	5788	broad.mit.edu	37	chr1	198668711	198668711	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aggtgtttcatcagtacagaCgcctcaccttcccacgcacg	8	15	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:198668711C>G	uc001gur.1	+	5	491	c.311C>G	c.(310-312)ACG>AGG	p.T104R	PTPRC_uc001gus.1_Missense_Mutation_p.T104R|PTPRC_uc001gut.1_Intron|PTPRC_uc009wze.1_Missense_Mutation_p.T40R|PTPRC_uc009wzf.1_Missense_Mutation_p.T40R|PTPRC_uc010ppg.1_Missense_Mutation_p.T40R|PTPRC_uc001guu.1_Missense_Mutation_p.T147R|PTPRC_uc001guv.1_RNA|PTPRC_uc001guw.1_RNA	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	104	Extracellular (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TCAGTACAGACGCCTCACCTT	0.502											OREG0014061	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	96	---	---	---	---	PASS	G	198668711	G	G	198668711	3	3	106	1	0	0	0	0	1	0	0	0	12797	536	19	4	336	4	PTPRC	1	198668711	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	770372	198668711	50581910	19	38811										
PPP1R15B	84919	broad.mit.edu	37	chr1	204375323	204375323	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agcaatatccaatagcatctTctgtttcttgaattcgtttc	5	9	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:204375323T>C	uc001hav.3	-	2	2444	c.2039A>G	c.(2038-2040)GAA>GGA	p.E680G		NM_032833	NP_116222	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	680					regulation of translation					ovary(1)|pancreas(1)	2	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			AATAGCATCTTCTGTTTCTTG	0.388													6	58	---	---	---	---	PASS	C	204375323	C	C	204375323	3	2	106	1	0	0	0	0	1	0	0	0	12364	1783	62	5	106	5	PPP1R15B	1	204375323	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	5706612	204375323	44875298	20	38812										
ACBD3	64746	broad.mit.edu	37	chr1	226334402	226334402	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggagatagactcctctccctGgatattgatggctgccagca	11	11	1	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:226334402G>T	uc001hpy.2	-	8	1543	c.1496C>A	c.(1495-1497)CCA>CAA	p.P499Q		NM_022735	NP_073572	Q9H3P7	GCP60_HUMAN	acyl-Coenzyme A binding domain containing 3	499	GOLD.				steroid biosynthetic process|transport	Golgi membrane|integral to membrane|mitochondrion	fatty-acyl-CoA binding|protein binding				0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.121)		TCCTCTCCCTGGATATTGATG	0.443													5	97	---	---	---	---	PASS	T	226334402	T	T	226334402	3	4	106	1	0	0	0	0	1	0	0	0	123	1348	47	3	94	3	ACBD3	1	226334402	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	21959079	226334402	22916219	21	38813										
RYR2	6262	broad.mit.edu	37	chr1	237755079	237755079	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agccagattacagcacaagcCattctgcaagactcaccgaa	7	13	2	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:237755079C>T	uc001hyl.1	+	32	4321	c.4201C>T	c.(4201-4203)CAT>TAT	p.H1401Y		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1401	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CAGCACAAGCCATTCTGCAAG	0.388													6	30	---	---	---	---	PASS	T	237755079	T	T	237755079	3	4	106	1	0	0	0	0	1	0	0	0	13769	594	21	3	4327	3	RYR2	1	237755079	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	11420677	237755079	11495542	22	38814										
MAP1LC3C	440738	broad.mit.edu	37	chr1	242161882	242161882	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggaacttggttttgtccagcGggggcaggaacgtctccctg	15	10	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:242161882G>A	uc001hzk.2	-	3	230	c.155C>T	c.(154-156)CCG>CTG	p.P52L		NM_001004343	NP_001004343	Q9BXW4	MLP3C_HUMAN	microtubule-associated protein 1 light chain 3	52					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule	protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TTTGTCCAGCGGGGGCAGGAA	0.582											OREG0014354	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	42	---	---	---	---	PASS	A	242161882	A	A	242161882	3	1	106	1	0	0	0	0	1	0	0	0	9233	1116	39	1	296	1	MAP1LC3C	1	242161882	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	4406803	242161882	7088739	23	38815										
OR2W5	441932	broad.mit.edu	37	chr1	247655381	247655381	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gctggggagcctcaacgaggGgaacactctagtaatgtaga	14	8	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:247655381G>T	uc001icz.1	+	1	952	c.952G>T	c.(952-954)GGA>TGA	p.G318*		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	318					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CTCAACGAGGGGAACACTCTA	0.498													9	36	---	---	---	---	PASS	T	247655381	T	T	247655381	4	4	106	1	0	0	0	0	0	1	0	0	11034	1233	43	3	954	3	OR2W5	1	247655381	Nonsense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	5493499	247655381	1595240	24	38816										
OR6F1	343169	broad.mit.edu	37	chr1	247875729	247875729	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctgccaggaggaagtactctGtgcagcctaatgagaaaaca	11	9	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:247875729G>C	uc001idj.1	-	1	329	c.329C>G	c.(328-330)ACA>AGA	p.T110R		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			GAAGTACTCTGTGCAGCCTAA	0.502													4	60	---	---	---	---	PASS	C	247875729	C	C	247875729	3	2	106	1	0	0	0	0	1	0	0	0	11201	1377	48	4	601	4	OR6F1	1	247875729	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	220348	247875729	1374892	25	38817										
OR2T33	391195	broad.mit.edu	37	chr1	248436338	248436338	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tagtggacctatgggatttgGgtctcatataggtaaaaatg	12	4	1	0	rs147622928		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:248436338G>C	uc010pzi.1	-	1	779	c.779C>G	c.(778-780)CCC>CGC	p.P260R		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	260	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ATGGGATTTGGGTCTCATATA	0.478													14	77	---	---	---	---	PASS	C	248436338	C	C	248436338	3	2	106	1	0	0	0	0	1	0	0	0	11024	1232	43	4	186	4	OR2T33	1	248436338	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	560609	248436338	814283	26	38818										
OR2T1	26696	broad.mit.edu	37	chr1	248569858	248569858	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ataccctgtcctcatgagccGccgggtctgttggatgatta	11	11	2	2	rs141385938	by1000genomes	TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:248569858G>T	uc010pzm.1	+	1	563	c.563G>T	c.(562-564)CGC>CTC	p.R188L		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	188	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTCATGAGCCGCCGGGTCTGT	0.542													11	51	---	---	---	---	PASS	T	248569858	T	T	248569858	3	4	106	1	0	0	0	0	1	0	0	0	11016	1087	38	1	565	1	OR2T1	1	248569858	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	133520	248569858	680763	27	38819										
OTOF	9381	broad.mit.edu	37	chr2	26699098	26699098	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gccgcacaggaactccttgcGctgtttgctgaggcccagcc	12	15	0	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:26699098G>T	uc002rhk.2	-	23	2891	c.2764C>A	c.(2764-2766)CGC>AGC	p.R922S	OTOF_uc010yla.1_5'Flank|OTOF_uc002rhh.2_Missense_Mutation_p.R175S|OTOF_uc002rhi.2_Missense_Mutation_p.R232S|OTOF_uc002rhj.2_Missense_Mutation_p.R175S	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	922	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AACTCCTTGCGCTGTTTGCTG	0.677													3	26	---	---	---	---	PASS	T	26699098	T	T	26699098	3	4	106	1	0	0	0	0	1	0	0	0	11303	1087	38	1	3510	1	OTOF	2	26699098	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08		26699098	216500275	28	38820										
BIRC6	57448	broad.mit.edu	37	chr2	32726824	32726824	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aacatgaaaactttcatggtGggttggatgccatatcagtt	10	6	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:32726824G>T	uc010ezu.2	+	47	9210	c.9076G>T	c.(9076-9078)GGG>TGG	p.G3026W		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3026					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					CTTTCATGGTGGGTTGGATGC	0.333													18	48	---	---	---	---	PASS	T	32726824	T	T	32726824	3	4	106	1	0	0	0	0	1	0	0	0	1438	1348	47	3	9262	3	BIRC6	2	32726824	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	6027726	32726824	210472549	29	38821										
THADA	63892	broad.mit.edu	37	chr2	43732780	43732780	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cctgggggactgtactctgtAtgtcatctgtaggcccagcc	12	12	3	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:43732780A>T	uc002rsw.3	-	24	3954	c.3602T>A	c.(3601-3603)ATA>AAA	p.I1201K	THADA_uc010far.2_Missense_Mutation_p.I470K|THADA_uc002rsx.3_Missense_Mutation_p.I1201K|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Missense_Mutation_p.I910K|THADA_uc010fat.1_Missense_Mutation_p.I348K|THADA_uc002rta.2_Missense_Mutation_p.I911K	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1201							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				TGTACTCTGTATGTCATCTGT	0.328													3	9	---	---	---	---	PASS	T	43732780	T	T	43732780	3	4	106	1	0	0	0	0	1	0	0	0	15837	449	16	5	2319	5	THADA	2	43732780	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	11005956	43732780	199466593	30	38822										
CTNNA2	1496	broad.mit.edu	37	chr2	80620402	80620402	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agatgactaagaaaacaagaGatctaaggagacaggtacta	10	5	1	5			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:80620402G>T	uc010ysh.1	+	7	1128	c.1123G>T	c.(1123-1125)GAT>TAT	p.D375Y	CTNNA2_uc010yse.1_Missense_Mutation_p.D375Y|CTNNA2_uc010ysf.1_Missense_Mutation_p.D375Y|CTNNA2_uc010ysg.1_Missense_Mutation_p.D375Y|CTNNA2_uc010ysi.1_Missense_Mutation_p.D7Y	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	375					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GAAAACAAGAGATCTAAGGAG	0.333													7	79	---	---	---	---	PASS	T	80620402	T	T	80620402	3	4	106	1	0	0	0	0	1	0	0	0	4013	942	33	2	941	2	CTNNA2	2	80620402	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	36887622	80620402	162578971	31	38823										
MFSD9	84804	broad.mit.edu	37	chr2	103343376	103343376	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aaggagatagcccagagcacTgagtagaatgcatgccagca	12	9	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:103343376T>C	uc002tcb.2	-	4	423	c.355A>G	c.(355-357)AGT>GGT	p.S119G	MFSD9_uc010fja.2_RNA	NM_032718	NP_116107	Q8NBP5	MFSD9_HUMAN	major facilitator superfamily domain containing	119	Helical; (Potential).				transmembrane transport	integral to membrane|plasma membrane	transporter activity			ovary(2)|breast(2)	4						CCCAGAGCACTGAGTAGAATG	0.483													7	85	---	---	---	---	PASS	C	103343376	C	C	103343376	3	2	106	1	0	0	0	0	1	0	0	0	9539	1580	55	5	1081	5	MFSD9	2	103343376	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	22722974	103343376	139855997	32	38824										
ST6GAL2	84620	broad.mit.edu	37	chr2	107459731	107459731	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cttcccgcggaagcgcacccCgtgcttgttggcggtcaggt	14	14	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:107459731C>A	uc002tdq.2	-	2	822	c.703G>T	c.(703-705)GGG>TGG	p.G235W	ST6GAL2_uc002tdr.2_Missense_Mutation_p.G235W|ST6GAL2_uc002tds.3_Missense_Mutation_p.G235W	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	235	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						AAGCGCACCCCGTGCTTGTTG	0.677													5	6	---	---	---	---	PASS	A	107459731	A	A	107459731	3	1	106	1	0	0	0	0	1	0	0	0	15221	652	23	1	993	1	ST6GAL2	2	107459731	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	4116355	107459731	135739642	33	38825										
R3HDM1	23518	broad.mit.edu	37	chr2	136432940	136432940	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	accagcagcaaaactaccaaGgaatagttggagttcagcaa	9	9	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:136432940G>T	uc002tuo.2	+	19	2456	c.2086G>T	c.(2086-2088)GGA>TGA	p.G696*	R3HDM1_uc010fni.2_Nonsense_Mutation_p.G695*|R3HDM1_uc002tup.2_Nonsense_Mutation_p.G641*|R3HDM1_uc010zbh.1_Nonsense_Mutation_p.G444*	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	696							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		AAACTACCAAGGAATAGTTGG	0.413													5	68	---	---	---	---	PASS	T	136432940	T	T	136432940	4	4	106	1	0	0	0	0	0	1	0	0	12887	1001	35	3	2152	3	R3HDM1	2	136432940	Nonsense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	28973209	136432940	106766433	34	38826										
UBXN4	23190	broad.mit.edu	37	chr2	136537802	136537802	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctcttccagcggagacatttGgaccttgttgggaacagtgc	12	10	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:136537802G>T	uc002tur.2	+	12	1546	c.1235G>T	c.(1234-1236)TGG>TTG	p.W412L	UBXN4_uc002tus.2_Missense_Mutation_p.W178L|UBXN4_uc002tut.2_Missense_Mutation_p.W48L	NM_014607	NP_055422	Q92575	UBXN4_HUMAN	UBX domain containing 2	412	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|nuclear envelope	protein binding			skin(2)	2						GGAGACATTTGGACCTTGTTG	0.413													5	64	---	---	---	---	PASS	T	136537802	T	T	136537802	3	4	106	1	0	0	0	0	1	0	0	0	16913	1357	47	3	1281	3	UBXN4	2	136537802	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	104862	136537802	106661571	35	38827										
IFIH1	64135	broad.mit.edu	37	chr2	163174569	163174569	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agagggctgccggttctccgGagggcctccacgaattcccg	14	14	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:163174569G>T	uc002uce.2	-	1	471	c.249C>A	c.(247-249)CTC>CTA	p.L83L	IFIH1_uc002ucf.2_Silent_p.L83L	NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	83	CARD 1.				detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1						CGGTTCTCCGGAGGGCCTCCA	0.592													5	50	---	---	---	---	PASS	T	163174569	T	T	163174569	2	4	106	1	0	0	0	0	0	0	0	1	7520	1161	41	2		2	IFIH1	2	163174569	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	26636767	163174569	80024804	36	38828										
TTN	7273	broad.mit.edu	37	chr2	179583529	179583529	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cctcaaacaactccagttctGtgacaaaatcttccagagag	6	12	3	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:179583529G>T	uc010zfg.1	-	81	20890	c.20666C>A	c.(20665-20667)ACA>AAA	p.T6889K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T3550K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7816							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTCCAGTTCTGTGACAAAATC	0.478													9	72	---	---	---	---	PASS	T	179583529	T	T	179583529	3	4	106	1	0	0	0	0	1	0	0	0	16732	1377	48	3	80247	3	TTN	2	179583529	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	16408960	179583529	63615844	37	38829										
TRAK2	66008	broad.mit.edu	37	chr2	202245669	202245669	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aagggcaaggtgagtgagatGgtgaatttggtggtgtggaa	19	1	0	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:202245669G>T	uc002uyb.3	-	16	2788	c.2342C>A	c.(2341-2343)CCA>CAA	p.P781Q		NM_015049	NP_055864	O60296	TRAK2_HUMAN	trafficking protein, kinesin binding 2	781				Missing (in Ref. 2).		early endosome|plasma membrane	GABA receptor binding				0						TGAGTGAGATGGTGAATTTGG	0.522													6	94	---	---	---	---	PASS	T	202245669	T	T	202245669	3	4	106	1	0	0	0	0	1	0	0	0	16447	1348	47	3	406	3	TRAK2	2	202245669	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	22662140	202245669	40953704	38	38830										
ALS2	57679	broad.mit.edu	37	chr2	202590178	202590178	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggattctgtattctccatacCtgccatgaaaaagaaaaaat	6	8	2	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:202590178C>A	uc002uyo.2	-	20	3605	c.3249_splice	c.e20-1	p.G1083_splice	ALS2_uc002uyp.3_Splice_Site_p.G1083_splice|ALS2_uc010ftl.2_Splice_Site	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1						cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						TTCTCCATACCTGCCATGAAA	0.363													5	83	---	---	---	---	PASS	A	202590178	A	A	202590178	5	1	106	1	0	0	0	0	0	0	1	0	550	695	24	3	1785	3	ALS2	2	202590178	Splice_Site	SNP	C	TCGA-46-3767-01A-01D-0983-08	344509	202590178	40609195	39	38831										
DYTN	391475	broad.mit.edu	37	chr2	207527889	207527889	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctggtgctgtgcaaagtggtCtctggtgattctggatttcg	14	7	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:207527889C>T	uc002vbr.1	-	11	1488	c.1371G>A	c.(1369-1371)GAG>GAA	p.E457E		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	457						plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		GCAAAGTGGTCTCTGGTGATT	0.488													5	57	---	---	---	---	PASS	T	207527889	T	T	207527889	2	4	106	1	0	0	0	0	0	0	0	1	4861	912	32	2		2	DYTN	2	207527889	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	4937711	207527889	35671484	40	38832										
C2orf67	151050	broad.mit.edu	37	chr2	211018789	211018789	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aaagtgcattctcttgatacCatttacagttttgtagttgt	7	6	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:211018789C>A	uc002vds.2	-	2	726	c.518G>T	c.(517-519)TGG>TTG	p.W173L	C2orf67_uc002vdt.2_Missense_Mutation_p.W173L|C2orf67_uc002vdw.2_Missense_Mutation_p.W173L|C2orf67_uc002vdy.1_Missense_Mutation_p.W173L|C2orf67_uc002vdv.2_Missense_Mutation_p.W173L|C2orf67_uc002vdx.1_Missense_Mutation_p.W173L	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	173										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		CTCTTGATACCATTTACAGTT	0.338													6	64	---	---	---	---	PASS	A	211018789	A	A	211018789	3	1	106	1	0	0	0	0	1	0	0	0	2186	595	21	3	2501	3	C2orf67	2	211018789	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	3490900	211018789	32180584	41	38833										
UGT1A1	54658	broad.mit.edu	37	chr2	234669706	234669706	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	atctgtctggctgtttagaaGtgactttgtgaaggattacc	11	6	2	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:234669706G>C	uc002vvb.2	+	1	788	c.773G>C	c.(772-774)AGT>ACT	p.S258T	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron|UGT1A9_uc002vva.2_Intron|UGT1A1_uc010znc.1_Missense_Mutation_p.S258T	NM_000463	NP_000454	P22309	UD11_HUMAN	UDP glycosyltransferase 1 family, polypeptide A1	258					bilirubin conjugation|digestion|estrogen metabolic process|flavone metabolic process|heme catabolic process	endoplasmic reticulum membrane|microsome	enzyme binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding|steroid binding			central_nervous_system(1)|skin(1)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;4.1e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000435)|Lung(119;0.00211)|LUSC - Lung squamous cell carcinoma(224;0.0054)	Abacavir(DB01048)|Adenine(DB00173)|Diclofenac(DB00586)|Estradiol(DB00783)|Ezetimibe(DB00973)|Irinotecan(DB00762)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Propofol(DB00818)|Rifampin(DB01045)|Troglitazone(DB00197)	CTGTTTAGAAGTGACTTTGTG	0.468													4	68	---	---	---	---	PASS	C	234669706	C	C	234669706	3	2	106	1	0	0	0	0	1	0	0	0	16941	1029	36	4	775	4	UGT1A1	2	234669706	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	23650917	234669706	8529667	42	38834										
MLPH	79083	broad.mit.edu	37	chr2	238419719	238419719	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agtgccaaggtcatccggtcCctccacgggcggctgcaggg	15	14	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:238419719C>A	uc002vwt.2	+	4	647	c.420C>A	c.(418-420)TCC>TCA	p.S140S	MLPH_uc002vws.2_Silent_p.S140S|MLPH_uc010fyt.1_Silent_p.S140S|MLPH_uc002vwu.2_Silent_p.S140S|MLPH_uc002vwv.2_Silent_p.S140S|MLPH_uc002vww.2_Silent_p.S116S	NM_024101	NP_077006	Q9BV36	MELPH_HUMAN	melanophilin isoform 1	140							metal ion binding			ovary(1)	1		Breast(86;0.000381)|Renal(207;0.000966)|Ovarian(221;0.0695)|all_hematologic(139;0.095)|all_lung(227;0.17)|Melanoma(123;0.203)		Epithelial(121;1.17e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.02e-10)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.15e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000439)|Lung(119;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0316)		TCATCCGGTCCCTCCACGGGC	0.522													7	177	---	---	---	---	PASS	A	238419719	A	A	238419719	2	1	106	1	0	0	0	0	0	0	0	1	9633	610	22	3		3	MLPH	2	238419719	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	3750013	238419719	4779654	43	38835										
CNTN4	152330	broad.mit.edu	37	chr3	2787299	2787299	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	atcaataaccccaataaaacCcaagatgctggaacgtacca	5	12	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:2787299C>A	uc003bpc.2	+	5	497	c.276C>A	c.(274-276)ACC>ACA	p.T92T	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Silent_p.T92T	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	92	Ig-like C2-type 1.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding	p.K92N(1)		large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		CCAATAAAACCCAAGATGCTG	0.413													5	68	---	---	---	---	PASS	A	2787299	A	A	2787299	2	1	106	1	0	0	0	0	0	0	0	1	3643	610	22	3		3	CNTN4	3	2787299	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08		2787299	195235131	44	38836										
IMPG2	50939	broad.mit.edu	37	chr3	100964871	100964871	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gccagtggctgagggaggacCagagctgaaatcaagtggtg	17	7	1	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:100964871C>G	uc003duq.1	-	12	1521	c.1318G>C	c.(1318-1320)GGT>CGT	p.G440R	IMPG2_uc011bhe.1_Missense_Mutation_p.G303R	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	440	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GAGGGAGGACCAGAGCTGAAA	0.493													8	43	---	---	---	---	PASS	G	100964871	G	G	100964871	3	3	106	1	0	0	0	0	1	0	0	0	7729	594	21	4	2439	4	IMPG2	3	100964871	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	98177572	100964871	97057559	45	38837										
DZIP3	9666	broad.mit.edu	37	chr3	108394691	108394691	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gttggaatgccattgtggcaGatgttagaaacaagattgca	12	5	0	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:108394691G>A	uc003dxd.2	+	25	3174	c.2752G>A	c.(2752-2754)GAT>AAT	p.D918N	DZIP3_uc003dxf.1_Missense_Mutation_p.D918N|DZIP3_uc011bhm.1_Missense_Mutation_p.D369N	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	918	Potential.				protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CATTGTGGCAGATGTTAGAAA	0.363													6	16	---	---	---	---	PASS	A	108394691	A	A	108394691	3	1	106	1	0	0	0	0	1	0	0	0	4865	942	33	2	2846	2	DZIP3	3	108394691	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	7429820	108394691	89627739	46	38838										
DPPA4	55211	broad.mit.edu	37	chr3	109049388	109049388	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	taccagaggcctcttgtggaGattccactgcctctggtgtc	11	12	2	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:109049388G>A	uc003dxq.3	-	5	717	c.662C>T	c.(661-663)TCT>TTT	p.S221F	DPPA4_uc011bho.1_Intron|DPPA4_uc011bhp.1_Missense_Mutation_p.S221F	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	221						nucleus	protein binding			upper_aerodigestive_tract(1)	1						CTCTTGTGGAGATTCCACTGC	0.473													4	36	---	---	---	---	PASS	A	109049388	A	A	109049388	3	1	106	1	0	0	0	0	1	0	0	0	4736	942	33	2	264	2	DPPA4	3	109049388	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	654697	109049388	88973042	47	38839										
FAM162A	26355	broad.mit.edu	37	chr3	122128637	122128637	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgaacttagaaaagaaagctCgtctgaaagaggaagcagct	11	6	1	5			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:122128637C>A	uc003eez.2	+	5	514	c.424C>A	c.(424-426)CGT>AGT	p.R142S		NM_014367	NP_055182	Q96A26	F162A_HUMAN	growth and transformation-dependent protein	142						integral to membrane				ovary(1)	1						AAAGAAAGCTCGTCTGAAAGA	0.433													5	107	---	---	---	---	PASS	A	122128637	A	A	122128637	3	1	106	1	0	0	0	0	1	0	0	0	5474	884	31	2	442	2	FAM162A	3	122128637	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	13079249	122128637	75893793	48	38840										
EPHB1	2047	broad.mit.edu	37	chr3	134851685	134851685	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	catcatctgcaaaaagtgccGggcagaccgccggagctgct	12	13	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:134851685G>A	uc003eqt.2	+	5	1311	c.1091G>A	c.(1090-1092)CGG>CAG	p.R364Q	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_3'UTR|EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	364	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding	p.R364L(2)		lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						AAAAAGTGCCGGGCAGACCGC	0.602													4	35	---	---	---	---	PASS	A	134851685	A	A	134851685	3	1	106	1	0	0	0	0	1	0	0	0	5174	1116	39	1	1109	1	EPHB1	3	134851685	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	12723048	134851685	63170745	49	38841										
P2RY13	53829	broad.mit.edu	37	chr3	151046127	151046127	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tccttacttttggactttctAtaagaatcatatactttttt	3	7	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:151046127A>G	uc003eyv.2	-	2	738	c.717T>C	c.(715-717)TAT>TAC	p.Y239Y	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_176894	NP_795713	Q9BPV8	P2Y13_HUMAN	purinergic receptor P2Y, G-protein coupled, 13	239	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(3)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0189)|Lung(72;0.0278)			TGGACTTTCTATAAGAATCAT	0.318													5	60	---	---	---	---	PASS	G	151046127	G	G	151046127	2	3	106	1	0	0	0	0	0	0	0	1	11350	456	16	5		5	P2RY13	3	151046127	Silent	SNP	A	TCGA-46-3767-01A-01D-0983-08	16194442	151046127	46976303	50	38842										
SLITRK3	22865	broad.mit.edu	37	chr3	164905718	164905718	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gttgtcttctccaggacttcGaggtaatccggcttggtttg	12	9	2	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:164905718G>T	uc003fej.3	-	2	3345	c.2901C>A	c.(2899-2901)CTC>CTA	p.L967L	SLITRK3_uc003fek.2_Silent_p.L967L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	967	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						CCAGGACTTCGAGGTAATCCG	0.388										HNSCC(40;0.11)			5	145	---	---	---	---	PASS	T	164905718	T	T	164905718	2	4	106	1	0	0	0	0	0	0	0	1	14744	1045	37	2		2	SLITRK3	3	164905718	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	13859591	164905718	33116712	51	38843										
SLITRK3	22865	broad.mit.edu	37	chr3	164907242	164907242	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ttgccattaaggaagaggctCtttaagttgggcaagttgat	12	5	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:164907242C>G	uc003fej.3	-	2	1821	c.1377G>C	c.(1375-1377)AAG>AAC	p.K459N	SLITRK3_uc003fek.2_Missense_Mutation_p.K459N	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	459	LRR 9.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GGAAGAGGCTCTTTAAGTTGG	0.433										HNSCC(40;0.11)			4	49	---	---	---	---	PASS	G	164907242	G	G	164907242	3	3	106	1	0	0	0	0	1	0	0	0	14744	912	32	2	1560	2	SLITRK3	3	164907242	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	1524	164907242	33115188	52	38844										
FNDC3B	64778	broad.mit.edu	37	chr3	172052809	172052809	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cgacgagtcctgacaggcctGgacctcctaccagaccgctt	10	16	0	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:172052809G>T	uc003fhy.2	+	15	1889	c.1717G>T	c.(1717-1719)GGA>TGA	p.G573*	FNDC3B_uc003fhz.3_Nonsense_Mutation_p.G573*|FNDC3B_uc003fia.2_Nonsense_Mutation_p.G504*	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	573	Fibronectin type-III 4.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		TGACAGGCCTGGACCTCCTAC	0.453													7	199	---	---	---	---	PASS	T	172052809	T	T	172052809	4	4	106	1	0	0	0	0	0	1	0	0	5970	1349	47	3	1771	3	FNDC3B	3	172052809	Nonsense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	7145567	172052809	25969621	53	38845										
PIK3CA	5290	broad.mit.edu	37	chr3	178921477	178921477	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agctacaccatatatgaatgGagaaacatctacaaaatccc	5	10	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:178921477G>T	uc003fjk.2	+	5	1116	c.959G>T	c.(958-960)GGA>GTA	p.G320V		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	320					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TATATGAATGGAGAAACATCT	0.358		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			5	83	---	---	---	---	PASS	T	178921477	T	T	178921477	3	4	106	1	0	0	0	0	1	0	0	0	11913	1174	41	2	973	2	PIK3CA	3	178921477	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	6868668	178921477	19100953	54	38846										
MFN1	55669	broad.mit.edu	37	chr3	179069752	179069752	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gatctggtagaaatgcaaggAtataaagacaagctttccat	9	6	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:179069752A>T	uc003fjs.2	+	3	303	c.177A>T	c.(175-177)GGA>GGT	p.G59G	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Silent_p.G87G	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	59	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			AAATGCAAGGATATAAAGACA	0.353													35	111	---	---	---	---	PASS	T	179069752	T	T	179069752	2	4	106	1	0	0	0	0	0	0	0	1	9523	320	12	5		5	MFN1	3	179069752	Silent	SNP	A	TCGA-46-3767-01A-01D-0983-08	148275	179069752	18952678	55	38847										
PCDH7	5099	broad.mit.edu	37	chr4	31144376	31144376	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cagctagtttcagcaaaaatGaggaagccaaccctgaggat	10	9	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:31144376G>T	uc011bxx.1	+	3	4657	c.3649G>T	c.(3649-3651)GAG>TAG	p.E1217*	PCDH7_uc011bxw.1_Nonsense_Mutation_p.E1170*	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	Error:Variant_position_missing_in_O60245_after_alignment					homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						CAGCAAAAATGAGGAAGCCAA	0.463													6	128	---	---	---	---	PASS	T	31144376	T	T	31144376	4	4	106	1	0	0	0	0	0	1	0	0	11516	1291	45	2	3768	2	PCDH7	4	31144376	Nonsense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08		31144376	160009900	56	38848										
CEP135	9662	broad.mit.edu	37	chr4	56832003	56832003	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agaagtgcttgagactgctgAtaaagagcttggggaagcaa	14	5	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:56832003A>T	uc003hbi.2	+	8	1256	c.1022A>T	c.(1021-1023)GAT>GTT	p.D341V	CEP135_uc003hbj.2_Missense_Mutation_p.D47V|CEP135_uc010igz.1_Missense_Mutation_p.D171V	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	341	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					GAGACTGCTGATAAAGAGCTT	0.363													9	25	---	---	---	---	PASS	T	56832003	T	T	56832003	3	4	106	1	0	0	0	0	1	0	0	0	3247	333	12	5	1048	5	CEP135	4	56832003	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	25687627	56832003	134322273	57	38849										
AP1AR	55435	broad.mit.edu	37	chr4	113189328	113189328	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agaatgcttccaatgagagaAcgttccaaaacagaggaaga	10	7	0	5			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:113189328A>G	uc003iaj.3	+	10	1025	c.672A>G	c.(670-672)GAA>GAG	p.E224E	AP1AR_uc003iak.3_Silent_p.E191E	NM_018569	NP_061039	Q63HQ0	AP1AR_HUMAN	adaptor-related protein complex 1 associated	224					protein transport	early endosome|Golgi apparatus|late endosome|transport vesicle					0						CAATGAGAGAACGTTCCAAAA	0.363													4	35	---	---	---	---	PASS	G	113189328	G	G	113189328	2	3	106	1	0	0	0	0	0	0	0	1	730	40	2	5		5	AP1AR	4	113189328	Silent	SNP	A	TCGA-46-3767-01A-01D-0983-08	56357325	113189328	77964948	58	38850										
GUCY1A3	2982	broad.mit.edu	37	chr4	156632319	156632319	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	actccaaaaatcaaccagacGtttagcgggatcatgactat	7	10	2	2	rs1049509		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:156632319G>T	uc003iov.2	+	7	1538	c.1002G>T	c.(1000-1002)ACG>ACT	p.T334T	GUCY1A3_uc003iou.2_Silent_p.T334T|GUCY1A3_uc010iqc.2_Silent_p.T334T|GUCY1A3_uc003iow.2_Silent_p.T334T|GUCY1A3_uc010iqd.2_Silent_p.T333T|GUCY1A3_uc003iox.2_Silent_p.T334T|GUCY1A3_uc003ioz.2_Silent_p.T99T|GUCY1A3_uc003ioy.2_Silent_p.T334T|GUCY1A3_uc010iqe.2_Silent_p.T99T|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Silent_p.T334T	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	334					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		TCAACCAGACGTTTAGCGGGA	0.388													11	62	---	---	---	---	PASS	T	156632319	T	T	156632319	2	4	106	1	0	0	0	0	0	0	0	1	6894	1132	40	1		1	GUCY1A3	4	156632319	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	43442991	156632319	34521957	59	38851										
WDR17	116966	broad.mit.edu	37	chr4	177094441	177094441	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	acatcagtagctcagactggActttggataccatataccct	7	11	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:177094441A>T	uc003iuj.2	+	27	3541	c.3385A>T	c.(3385-3387)ACT>TCT	p.T1129S	WDR17_uc003iuk.2_Missense_Mutation_p.T1105S|WDR17_uc003ium.3_Missense_Mutation_p.T1090S|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.T340S	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	1129										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		CTCAGACTGGACTTTGGATAC	0.318													4	23	---	---	---	---	PASS	T	177094441	T	T	177094441	3	4	106	1	0	0	0	0	1	0	0	0	17274	275	10	5	3487	5	WDR17	4	177094441	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	20462122	177094441	14059835	60	38852										
ODZ3	55714	broad.mit.edu	37	chr4	183603016	183603016	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	catggtgtgtgtatccacggGgaatgtcactgcagtccagg	14	9	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:183603016G>T	uc003ivd.1	+	10	1921	c.1884G>T	c.(1882-1884)GGG>GGT	p.G628G	ODZ3_uc003ive.1_Silent_p.G34G	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	628	EGF-like 4.|Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GTATCCACGGGGAATGTCACT	0.448													5	26	---	---	---	---	PASS	T	183603016	T	T	183603016	2	4	106	1	0	0	0	0	0	0	0	1	10836	1219	43	3		3	ODZ3	4	183603016	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	6508575	183603016	7551260	61	38853										
ODZ3	55714	broad.mit.edu	37	chr4	183675766	183675766	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctgtgtcctacagtggggtcCtgtacattactgaaactgat	10	9	0	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:183675766C>A	uc003ivd.1	+	21	4283	c.4246C>A	c.(4246-4248)CTG>ATG	p.L1416M	ODZ3_uc003ive.1_Missense_Mutation_p.L829M	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1416	Extracellular (Potential).|NHL 4.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CAGTGGGGTCCTGTACATTAC	0.502													4	35	---	---	---	---	PASS	A	183675766	A	A	183675766	3	1	106	1	0	0	0	0	1	0	0	0	10836	680	24	3	4328	3	ODZ3	4	183675766	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	72750	183675766	7478510	62	38854										
ACSL1	2180	broad.mit.edu	37	chr4	185687866	185687866	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tctttcctcttggaggcaaaGtccaagagccatcgcttcag	9	12	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:185687866G>T	uc003iww.2	-	13	1467	c.1173C>A	c.(1171-1173)GAC>GAA	p.D391E	ACSL1_uc011ckm.1_Missense_Mutation_p.D220E|ACSL1_uc003iwt.1_Missense_Mutation_p.D391E|ACSL1_uc003iwu.1_Missense_Mutation_p.D391E|ACSL1_uc011ckn.1_Missense_Mutation_p.D357E|ACSL1_uc003iws.1_5'UTR	NM_001995	NP_001986	P33121	ACSL1_HUMAN	acyl-CoA synthetase long-chain family member 1	391	Cytoplasmic (Potential).				digestion|fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|regulation of fatty acid oxidation|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			ovary(2)	2		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Colorectal(36;0.00172)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0315)|all_neural(102;0.107)|Medulloblastoma(177;0.146)		all cancers(43;1.33e-28)|Epithelial(43;5.3e-25)|OV - Ovarian serous cystadenocarcinoma(60;4.88e-11)|Colorectal(24;3.59e-06)|STAD - Stomach adenocarcinoma(60;2.72e-05)|GBM - Glioblastoma multiforme(59;2.83e-05)|BRCA - Breast invasive adenocarcinoma(30;7.66e-05)|COAD - Colon adenocarcinoma(29;0.000538)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.0419)	Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TGGAGGCAAAGTCCAAGAGCC	0.423													4	76	---	---	---	---	PASS	T	185687866	T	T	185687866	3	4	106	1	0	0	0	0	1	0	0	0	177	1020	36	3	959	3	ACSL1	4	185687866	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	2012100	185687866	5466410	63	38855										
UFSP2	55325	broad.mit.edu	37	chr4	186343691	186343691	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aggcctcctcttattctgaaGagtatatccatactttctga	6	10	3	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:186343691G>C	uc003ixo.2	-	2	147	c.30C>G	c.(28-30)CTC>CTG	p.L10L	UFSP2_uc003ixq.2_5'UTR|UFSP2_uc003ixp.2_RNA	NM_018359	NP_060829	Q9NUQ7	UFSP2_HUMAN	UFM1-specific peptidase 2	10						endoplasmic reticulum|nucleus	small conjugating protein-specific protease activity				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;3.4e-25)|Epithelial(43;2.23e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;8.1e-05)|GBM - Glioblastoma multiforme(59;0.000148)|STAD - Stomach adenocarcinoma(60;0.000782)|LUSC - Lung squamous cell carcinoma(40;0.00939)|COAD - Colon adenocarcinoma(29;0.0108)|READ - Rectum adenocarcinoma(43;0.166)		TTATTCTGAAGAGTATATCCA	0.294													4	32	---	---	---	---	PASS	C	186343691	C	C	186343691	2	2	106	1	0	0	0	0	0	0	0	1	16935	929	33	2		2	UFSP2	4	186343691	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	655825	186343691	4810585	64	38856										
ADAMTS16	170690	broad.mit.edu	37	chr5	5240017	5240017	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ttaatcgctactggaccaacCaacgagacactgattgtgga	9	10	0	2	rs72647759		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:5240017C>G	uc003jdl.2	+	16	2640	c.2502C>G	c.(2500-2502)ACC>ACG	p.T834T	ADAMTS16_uc003jdk.1_Silent_p.T834T	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	834	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CTGGACCAACCAACGAGACAC	0.507													18	104	---	---	---	---	PASS	G	5240017	G	G	5240017	2	3	106	1	0	0	0	0	0	0	0	1	261	581	21	4		4	ADAMTS16	5	5240017	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08		5240017	175675243	65	38857										
CDH10	1008	broad.mit.edu	37	chr5	24537668	24537668	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ccttttcctccctatcaattCgccttgtggcatgaatatca	5	13	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:24537668C>A	uc003jgr.1	-	3	679	c.347G>T	c.(346-348)CGA>CTA	p.R116L	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	116	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CCTATCAATTCGCCTTGTGGC	0.398										HNSCC(23;0.051)			4	87	---	---	---	---	PASS	A	24537668	A	A	24537668	3	1	106	1	0	0	0	0	1	0	0	0	3096	884	31	2	2059	2	CDH10	5	24537668	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	19297651	24537668	156377592	66	38858										
SEC24A	10802	broad.mit.edu	37	chr5	133996855	133996855	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tcacaagagtcagtgagccaAggatacaatttccagcttcc	8	11	2	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:133996855A>G	uc003kzs.2	+	2	432	c.144A>G	c.(142-144)CAA>CAG	p.Q48Q	SEC24A_uc011cxu.1_5'UTR	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A	48					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CAGTGAGCCAAGGATACAATT	0.418													42	246	---	---	---	---	PASS	G	133996855	G	G	133996855	2	3	106	1	0	0	0	0	0	0	0	1	13994	69	3	5		5	SEC24A	5	133996855	Silent	SNP	A	TCGA-46-3767-01A-01D-0983-08	109459187	133996855	46918405	67	38859										
PCDHA5	56143	broad.mit.edu	37	chr5	140202419	140202419	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ccagagatggccataaccacCcttttcctgcctgtcaaaga	7	14	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:140202419C>A	uc003lhl.2	+	1	1059	c.1059C>A	c.(1057-1059)ACC>ACA	p.T353T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.T353T|PCDHA5_uc003lhj.1_Silent_p.T353T	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	353	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCATAACCACCCTTTTCCTGC	0.498													5	59	---	---	---	---	PASS	A	140202419	A	A	140202419	2	1	106	1	0	0	0	0	0	0	0	1	11527	610	22	3		3	PCDHA5	5	140202419	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	6205564	140202419	40712841	68	38860										
PCDHA13	56136	broad.mit.edu	37	chr5	140262130	140262130	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgaattctcggatcgaccgcGaggagctgtgtgggcggagc	17	9	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:140262130G>T	uc003lif.2	+	1	277	c.277G>T	c.(277-279)GAG>TAG	p.E93*	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Nonsense_Mutation_p.E93*|PCDHA13_uc003lid.2_Nonsense_Mutation_p.E93*	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	93	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATCGACCGCGAGGAGCTGTG	0.587													5	140	---	---	---	---	PASS	T	140262130	T	T	140262130	4	4	106	1	0	0	0	0	0	1	0	0	11523	1059	37	2	279	2	PCDHA13	5	140262130	Nonsense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	59711	140262130	40653130	69	38861										
PCDHAC2	56134	broad.mit.edu	37	chr5	140347837	140347837	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gtactgtgcaagccacagacCcagatgaaaaggagaatgca	11	9	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:140347837C>A	uc003lii.2	+	1	1726	c.1486C>A	c.(1486-1488)CCA>ACA	p.P496T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Missense_Mutation_p.P496T	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	496	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCCACAGACCCAGATGAAAA	0.502													16	77	---	---	---	---	PASS	A	140347837	A	A	140347837	3	1	106	1	0	0	0	0	1	0	0	0	11533	623	22	3	1488	3	PCDHAC2	5	140347837	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	85707	140347837	40567423	70	38862										
PCDHB16	57717	broad.mit.edu	37	chr5	140564189	140564189	+	Silent	SNP	G	T	T													0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggccagacccaggccaactcGctcactgtctacctggtggt							TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:140564189G>T	uc003liv.2	+	1	3210	c.2055G>T	c.(2053-2055)TCG>TCT	p.S685S	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	685	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGCCAACTCGCTCACTGTCT	0.692													4	39	---	---	---	---	PASS	T	140564189	T	T	140564189	2	4	106	1	0	0	0	0	0	0	0	1	11541	1074	38	1		1	PCDHB16	5	140564189	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	216352	140564189	40351071	71	38863	728	2								
PCDHB16	57717	broad.mit.edu	37	chr5	140564195	140564195	+	Silent	SNP	T	C	C													0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	acccaggccaactcgctcacTgtctacctggtggtggcgtt							TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:140564195T>C	uc003liv.2	+	1	3216	c.2061T>C	c.(2059-2061)ACT>ACC	p.T687T	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	687	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACTCGCTCACTGTCTACCTGG	0.692													6	49	---	---	---	---	PASS	C	140564195	C	C	140564195	2	2	106	1	0	0	0	0	0	0	0	1	11541	1567	55	5		5	PCDHB16	5	140564195	Silent	SNP	T	TCGA-46-3767-01A-01D-0983-08	6	140564195	40351065	72	38864	728	2								
GRPEL2	134266	broad.mit.edu	37	chr5	148730657	148730657	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgtttgccaagcatggcctgGagaaactgacacccattggt	11	10	0	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:148730657G>T	uc003lqj.2	+	4	616	c.490G>T	c.(490-492)GAG>TAG	p.E164*	GRPEL2_uc011dca.1_3'UTR	NM_152407	NP_689620	Q8TAA5	GRPE2_HUMAN	GrpE-like 2, mitochondrial precursor	164					protein folding	mitochondrial matrix	adenyl-nucleotide exchange factor activity|chaperone binding|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCATGGCCTGGAGAAACTGAC	0.517													7	151	---	---	---	---	PASS	T	148730657	T	T	148730657	4	4	106	1	0	0	0	0	0	1	0	0	6807	1175	41	2	504	2	GRPEL2	5	148730657	Nonsense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	8166462	148730657	32184603	73	38865										
PCYOX1L	78991	broad.mit.edu	37	chr5	148747746	148747746	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	accgtcgtctccttggtccaCggctacctcaactcgtccta	7	17	2	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:148747746C>T	uc003lqk.2	+	6	1076	c.1014C>T	c.(1012-1014)CAC>CAT	p.H338H	PCYOX1L_uc003lql.2_Silent_p.H321H|PCYOX1L_uc010jgz.2_Silent_p.H262H|PCYOX1L_uc003lqm.2_Silent_p.H220H|PCYOX1L_uc003lqn.2_Silent_p.H248H	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	338				H -> P (in Ref. 7; BAC03391).	prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTTGGTCCACGGCTACCTCA	0.552											OREG0016912	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	123	---	---	---	---	PASS	T	148747746	T	T	148747746	2	4	106	1	0	0	0	0	0	0	0	1	11609	535	19	1		1	PCYOX1L	5	148747746	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	17089	148747746	32167514	74	38866										
PDGFRB	5159	broad.mit.edu	37	chr5	149511557	149511557	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	atcaccattgatctgtagctGgaaggagagctggacctcag	12	9	3	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:149511557G>T	uc003lro.2	-	8	1697	c.1228C>A	c.(1228-1230)CAG>AAG	p.Q410K	PDGFRB_uc010jhd.2_Missense_Mutation_p.Q249K	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	410	Extracellular (Potential).				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	ATCTGTAGCTGGAAGGAGAGC	0.423			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								4	25	---	---	---	---	PASS	T	149511557	T	T	149511557	3	4	106	1	0	0	0	0	1	0	0	0	11662	1357	47	3	2156	3	PDGFRB	5	149511557	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	763811	149511557	31403703	75	38867										
FABP6	2172	broad.mit.edu	37	chr5	159640821	159640821	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gaatgaaacagacacataaaGgaaaggtatggggtagaaga	13	3	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:159640821G>C	uc003lxx.1	+	3	276	c.130G>C	c.(130-132)GGA>CGA	p.G44R	FABP6_uc003lxz.1_Missense_Mutation_p.G44R	NM_001130958	NP_001124430	P51161	FABP6_HUMAN	gastrotropin isoform 1	Error:Variant_position_missing_in_P51161_after_alignment					bile acid and bile salt transport|bile acid metabolic process|negative regulation of cell proliferation	cytosol	transporter activity				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GACACATAAAGGAAAGGTATG	0.478													9	42	---	---	---	---	PASS	C	159640821	C	C	159640821	3	2	106	1	0	0	0	0	1	0	0	0	5361	1001	35	4	136	4	FABP6	5	159640821	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	10129264	159640821	21274439	76	38868										
OR2J3	442186	broad.mit.edu	37	chr6	29080293	29080293	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	catgatcacaagctccatatTtgttctcatacctctcatcc	3	14	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:29080293T>G	uc011dll.1	+	1	626	c.626T>G	c.(625-627)TTT>TGT	p.F209C		NM_001005216	NP_001005216	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J,	209	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGCTCCATATTTGTTCTCATA	0.448													5	60	---	---	---	---	PASS	G	29080293	G	G	29080293	3	3	106	1	0	0	0	0	1	0	0	0	11004	1841	64	5	628	5	OR2J3	6	29080293	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08		29080293	142034774	77	38869										
MAS1L	116511	broad.mit.edu	37	chr6	29454983	29454983	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	catcacaagtgaaaggatagCatggaagagcccagaaagct	11	8	1	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:29454983C>A	uc011dlq.1	-	1	697	c.697G>T	c.(697-699)GCT>TCT	p.A233S		NM_052967	NP_443199	P35410	MAS1L_HUMAN	MAS1 oncogene-like	233	Helical; Name=5; (Potential).					cytoplasm|integral to membrane|nucleus|plasma membrane	G-protein coupled receptor activity			ovary(7)|lung(2)	9						GAAAGGATAGCATGGAAGAGC	0.443													5	47	---	---	---	---	PASS	A	29454983	A	A	29454983	3	1	106	1	0	0	0	0	1	0	0	0	9321	710	25	3	441	3	MAS1L	6	29454983	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	374690	29454983	141660084	78	38870										
LY6G5B	58496	broad.mit.edu	37	chr6	31638749	31638749	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgaaggtccatatgcttgtaGgtgtgctggtcatggtgggc	16	6	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:31638749G>T	uc003nvt.1	+	1	22	c.22G>T	c.(22-24)GGT>TGT	p.G8C	CSNK2B_uc003nvs.1_Intron	NM_021221	NP_067044	Q8NDX9	LY65B_HUMAN	lymphocyte antigen 6 complex G5B precursor	8						extracellular region					0						TATGCTTGTAGGTGTGCTGGT	0.572													6	149	---	---	---	---	PASS	T	31638749	T	T	31638749	3	4	106	1	0	0	0	0	1	0	0	0	9092	1000	35	3	24	3	LY6G5B	6	31638749	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	2183766	31638749	139476318	79	38871										
COL11A2	1302	broad.mit.edu	37	chr6	33146896	33146896	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctgtgaggccctgaggtcctCtggggccctggtgagaggag	18	10	1	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:33146896C>A	uc003ocx.1	-	16	1793	c.1565G>T	c.(1564-1566)AGA>ATA	p.R522I	COL11A2_uc010jul.1_5'Flank|COL11A2_uc003ocy.1_Missense_Mutation_p.R436I|COL11A2_uc003ocz.1_Missense_Mutation_p.R415I	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	522	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						CTGAGGTCCTCTGGGGCCCTG	0.652													4	16	---	---	---	---	PASS	A	33146896	A	A	33146896	3	1	106	1	0	0	0	0	1	0	0	0	3668	913	32	2	3849	2	COL11A2	6	33146896	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	1508147	33146896	137968171	80	38872										
PKHD1	5314	broad.mit.edu	37	chr6	51890462	51890462	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggcatcactgcaaattgctgGagcaccacagacatattagc	9	11	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:51890462G>T	uc003pah.1	-	32	4422	c.4146C>A	c.(4144-4146)CTC>CTA	p.L1382L	PKHD1_uc003pai.2_Silent_p.L1382L	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1382	IPT/TIG 8; atypical.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CAAATTGCTGGAGCACCACAG	0.512													16	66	---	---	---	---	PASS	T	51890462	T	T	51890462	2	4	106	1	0	0	0	0	0	0	0	1	11971	1161	41	2		2	PKHD1	6	51890462	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	18743566	51890462	119224605	81	38873										
FAM83B	222584	broad.mit.edu	37	chr6	54735295	54735295	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tggtactgatgattcctgtgAtgataccttatcttcaggga	10	7	2	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:54735295A>T	uc003pck.2	+	2	367	c.251A>T	c.(250-252)GAT>GTT	p.D84V		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	84										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					GATTCCTGTGATGATACCTTA	0.433													5	91	---	---	---	---	PASS	T	54735295	T	T	54735295	3	4	106	1	0	0	0	0	1	0	0	0	5634	333	12	5	253	5	FAM83B	6	54735295	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	2844833	54735295	116379772	82	38874										
PHF3	23469	broad.mit.edu	37	chr6	64404570	64404570	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgggacaaccagttttacctCggagatcctcagaagaaaaa	9	9	1	3	rs139681301		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:64404570C>A	uc003pep.1	+	5	2622	c.2596C>A	c.(2596-2598)CGG>AGG	p.R866R	PHF3_uc010kaf.1_Silent_p.R866R|PHF3_uc003pem.2_Silent_p.R819R|PHF3_uc010kag.1_Silent_p.R778R|PHF3_uc010kah.1_Silent_p.R680R|PHF3_uc003pen.2_Silent_p.R778R|PHF3_uc011dxs.1_Silent_p.R135R	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	866					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			AGTTTTACCTCGGAGATCCTC	0.403													5	188	---	---	---	---	PASS	A	64404570	A	A	64404570	2	1	106	1	0	0	0	0	0	0	0	1	11836	875	31	2		2	PHF3	6	64404570	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	9669275	64404570	106710497	83	38875										
CD109	135228	broad.mit.edu	37	chr6	74477846	74477846	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	atgttctctttaacaccagaAaattcttggactccaaaagc	5	10	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:74477846A>G	uc003php.2	+	14	1991	c.1566A>G	c.(1564-1566)GAA>GAG	p.E522E	CD109_uc010kaz.2_Silent_p.E522E|CD109_uc003phq.2_Silent_p.E522E|CD109_uc010kba.2_Silent_p.E445E	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	522						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						TAACACCAGAAAATTCTTGGA	0.338													5	54	---	---	---	---	PASS	G	74477846	G	G	74477846	2	3	106	1	0	0	0	0	0	0	0	1	2963	11	1	5		5	CD109	6	74477846	Silent	SNP	A	TCGA-46-3767-01A-01D-0983-08	10073276	74477846	96637221	84	38876										
ENPP3	5169	broad.mit.edu	37	chr6	132014691	132014691	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgactcctgatttgccaaagCgactgcactatgccaagaac	8	12	0	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:132014691C>T	uc003qcu.3	+	16	1686	c.1339C>T	c.(1339-1341)CGA>TGA	p.R447*	ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Nonsense_Mutation_p.R447*	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	447	Extracellular (Potential).|Phosphodiesterase.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		TTTGCCAAAGCGACTGCACTA	0.393													10	80	---	---	---	---	PASS	T	132014691	T	T	132014691	4	4	106	1	0	0	0	0	0	1	0	0	5131	760	27	1	1397	1	ENPP3	6	132014691	Nonsense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	57536845	132014691	39100376	85	38877										
SLC35D3	340146	broad.mit.edu	37	chr6	137245645	137245645	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggtggggaggcagcaggtggCcccgctcaggagagcaggca	20	10	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:137245645C>T	uc003qhe.2	+	2	1227	c.1062C>T	c.(1060-1062)GGC>GGT	p.G354G		NM_001008783	NP_001008783	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	354					carbohydrate transport	integral to membrane				ovary(1)|central_nervous_system(1)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		CAGCAGGTGGCCCCGCTCAGG	0.652													6	11	---	---	---	---	PASS	T	137245645	T	T	137245645	2	4	106	1	0	0	0	0	0	0	0	1	14583	726	26	3		3	SLC35D3	6	137245645	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	5230954	137245645	33869422	86	38878										
RAB32	10981	broad.mit.edu	37	chr6	146870640	146870640	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	atgacccgagtatactacaaGgaagctgttggtgcttttgt	11	7	0	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:146870640G>T	uc003qln.1	+	2	471	c.291G>T	c.(289-291)AAG>AAT	p.K97N		NM_006834	NP_006825	Q13637	RAB32_HUMAN	RAB32, member RAS oncogene family	97					protein transport|small GTPase mediated signal transduction	mitochondrion	GTP binding				0		Ovarian(120;0.142)		OV - Ovarian serous cystadenocarcinoma(155;2.68e-09)|GBM - Glioblastoma multiforme(68;0.00608)		TATACTACAAGGAAGCTGTTG	0.358													5	51	---	---	---	---	PASS	T	146870640	T	T	146870640	3	4	106	1	0	0	0	0	1	0	0	0	12921	991	35	3	297	3	RAB32	6	146870640	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	9624995	146870640	24244427	87	38879										
PDE10A	10846	broad.mit.edu	37	chr6	165756886	165756886	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aatcaaggacatacctcagcCcagaattctgcatatatatc	5	11	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:165756886C>A	uc003qun.2	-	20	2302	c.2061G>T	c.(2059-2061)TGG>TGT	p.W687C	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.W617C|PDE10A_uc003quo.2_Missense_Mutation_p.W697C	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	687					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	ATACCTCAGCCCAGAATTCTG	0.368													7	49	---	---	---	---	PASS	A	165756886	A	A	165756886	3	1	106	1	0	0	0	0	1	0	0	0	11630	624	22	3	294	3	PDE10A	6	165756886	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	18886246	165756886	5358181	88	38880										
MLLT4	4301	broad.mit.edu	37	chr6	168347398	168347398	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgattccagtttcagatcgtCgtggctcaggtaaaccccga	10	11	2	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:168347398C>T	uc003qwd.2	+	26	3488	c.3346C>T	c.(3346-3348)CGT>TGT	p.R1116C	MLLT4_uc003qwb.1_Missense_Mutation_p.R1101C|MLLT4_uc003qwc.1_Missense_Mutation_p.R1117C|MLLT4_uc003qwg.1_Missense_Mutation_p.R426C	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1117					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		TTCAGATCGTCGTGGCTCAGG	0.393			T	MLL	AL								9	57	---	---	---	---	PASS	T	168347398	T	T	168347398	3	4	106	1	0	0	0	0	1	0	0	0	9629	884	31	2	3451	2	MLLT4	6	168347398	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	2590512	168347398	2767669	89	38881										
GRM3	2913	broad.mit.edu	37	chr7	86493636	86493636	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgccaacggtgtgcaatgggCgggaagtcctcgactccacc	13	13	0	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:86493636C>A	uc003uid.2	+	6	3704	c.2605C>A	c.(2605-2607)CGG>AGG	p.R869R	GRM3_uc010lef.2_Missense_Mutation_p.A511E|GRM3_uc010leg.2_Silent_p.R741R|GRM3_uc010leh.2_Silent_p.R461R	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	869	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GTGCAATGGGCGGGAAGTCCT	0.433													33	89	---	---	---	---	PASS	A	86493636	A	A	86493636	2	1	106	1	0	0	0	0	0	0	0	1	6798	759	27	1		1	GRM3	7	86493636	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08		86493636	72645027	90	38882										
CADPS2	93664	broad.mit.edu	37	chr7	122303469	122303469	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tggcatcatatttggctatcCatgagctcaacactgtctct	7	11	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:122303469C>A	uc010lkp.2	-	3	771	c.608G>T	c.(607-609)TGG>TTG	p.W203L	CADPS2_uc010lkq.2_Missense_Mutation_p.W203L	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	203					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						TTTGGCTATCCATGAGCTCAA	0.413													5	62	---	---	---	---	PASS	A	122303469	A	A	122303469	3	1	106	1	0	0	0	0	1	0	0	0	2571	595	21	3	3438	3	CADPS2	7	122303469	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	35809833	122303469	36835194	91	38883										
RNF133	168433	broad.mit.edu	37	chr7	122338498	122338498	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	atggaaaatttccgtgccttTtaagttaccaatcataacca	5	9	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:122338498T>A	uc003vkj.1	-	1	711	c.475A>T	c.(475-477)AAA>TAA	p.K159*	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron	NM_139175	NP_631914	Q8WVZ7	RN133_HUMAN	ring finger protein 133	159	PA.					endoplasmic reticulum membrane|integral to membrane	ligase activity|zinc ion binding			skin(1)	1						TCCGTGCCTTTTAAGTTACCA	0.423													14	73	---	---	---	---	PASS	A	122338498	A	A	122338498	4	1	106	1	0	0	0	0	0	1	0	0	13439	1850	64	5	659	5	RNF133	7	122338498	Nonsense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	35029	122338498	36800165	92	38884										
PLXNA4	91584	broad.mit.edu	37	chr7	132193312	132193312	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aggtgattgaaaccctcggcGggctctcctcggaatgtgac	13	11	1	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:132193312G>C	uc003vra.3	-	2	370	c.141C>G	c.(139-141)CCC>CCG	p.P47P	PLXNA4_uc003vrc.2_Silent_p.P47P|PLXNA4_uc003vrb.2_Silent_p.P47P	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	47	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						AACCCTCGGCGGGCTCTCCTC	0.587													9	26	---	---	---	---	PASS	C	132193312	C	C	132193312	2	2	106	1	0	0	0	0	0	0	0	1	12122	1103	39	4		4	PLXNA4	7	132193312	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	9854814	132193312	26945351	93	38885										
EXOC4	60412	broad.mit.edu	37	chr7	133314881	133314881	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gaaacattaccgtcatattcCacccattactaaggtaagtc	5	11	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:133314881C>A	uc003vrk.2	+	10	1536	c.1501C>A	c.(1501-1503)CAC>AAC	p.H501N	EXOC4_uc011kpo.1_Missense_Mutation_p.H400N|EXOC4_uc003vrl.2_Missense_Mutation_p.H111N|EXOC4_uc011kpp.1_Missense_Mutation_p.H33N	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	501					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				CGTCATATTCCACCCATTACT	0.383													5	77	---	---	---	---	PASS	A	133314881	A	A	133314881	3	1	106	1	0	0	0	0	1	0	0	0	5306	594	21	3	1548	3	EXOC4	7	133314881	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	1121569	133314881	25823782	94	38886										
OR2A12	346525	broad.mit.edu	37	chr7	143793122	143793122	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agagagtcctttggaaacagAgatcaatgtgaagaatcatt	10	5	2	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:143793122A>C	uc011kty.1	+	1	922	c.922A>C	c.(922-924)AGA>CGA	p.R308R		NM_001004135	NP_001004135	Q8NGT7	O2A12_HUMAN	olfactory receptor, family 2, subfamily A,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	Melanoma(164;0.0783)					TTGGAAACAGAGATCAATGTG	0.423													6	135	---	---	---	---	PASS	C	143793122	C	C	143793122	2	2	106	1	0	0	0	0	0	0	0	1	10975	296	11	5		5	OR2A12	7	143793122	Silent	SNP	A	TCGA-46-3767-01A-01D-0983-08	10478241	143793122	15345541	95	38887										
CUL1	8454	broad.mit.edu	37	chr7	148495745	148495745	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	accacacacaaaaacatcgaGgaagaccgcaaactactgat	6	12	0	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:148495745G>T	uc010lpg.2	+	20	2638	c.2112G>T	c.(2110-2112)GAG>GAT	p.E704D	CUL1_uc003wey.2_Missense_Mutation_p.E704D|CUL1_uc003wez.2_Missense_Mutation_p.E594D|CUL1_uc003wfa.2_Missense_Mutation_p.E365D	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	704					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			AAAACATCGAGGAAGACCGCA	0.483													7	179	---	---	---	---	PASS	T	148495745	T	T	148495745	3	4	106	1	0	0	0	0	1	0	0	0	4054	991	35	3	2186	3	CUL1	7	148495745	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	4702623	148495745	10642918	96	38888										
UBE3C	9690	broad.mit.edu	37	chr7	156974359	156974359	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ttacaactcctgtccggaagGtgcgaggtgagactggaatg	14	8	0	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:156974359G>T	uc010lqs.2	+	7	1076	c.764G>T	c.(763-765)GGT>GTT	p.G255V	UBE3C_uc003wnf.2_Missense_Mutation_p.G212V|UBE3C_uc003wng.2_Missense_Mutation_p.G255V	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	255					protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		TGTCCGGAAGGTGCGAGGTGA	0.338													8	75	---	---	---	---	PASS	T	156974359	T	T	156974359	3	4	106	1	0	0	0	0	1	0	0	0	16878	1261	44	3	790	3	UBE3C	7	156974359	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	8478614	156974359	2164304	97	38889										
SNTG1	54212	broad.mit.edu	37	chr8	51449319	51449319	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gcgacctcagactgatccctCtacttcattcgcgcttctct	6	16	4	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:51449319C>A	uc010lxy.1	+	12	1002	c.631C>A	c.(631-633)CTA>ATA	p.L211I	SNTG1_uc003xqs.1_Missense_Mutation_p.L211I|SNTG1_uc010lxz.1_Missense_Mutation_p.L211I|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	211					cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				ACTGATCCCTCTACTTCATTC	0.483													6	148	---	---	---	---	PASS	A	51449319	A	A	51449319	3	1	106	1	0	0	0	0	1	0	0	0	14874	912	32	2	665	2	SNTG1	8	51449319	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08		51449319	94914703	98	38890										
CPA6	57094	broad.mit.edu	37	chr8	68423884	68423884	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gttttctgaagatcttctatGaggaccctgaatttggaatg	10	6	3	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:68423884G>T	uc003xxq.3	-	4	580	c.324C>A	c.(322-324)CTC>CTA	p.L108L	CPA6_uc003xxr.3_5'UTR|CPA6_uc003xxs.2_Silent_p.L108L	NM_020361	NP_065094	Q8N4T0	CBPA6_HUMAN	carboxypeptidase A6 isoform 1 precursor	108					proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)			GATCTTCTATGAGGACCCTGA	0.383													6	125	---	---	---	---	PASS	T	68423884	T	T	68423884	2	4	106	1	0	0	0	0	0	0	0	1	3794	1277	45	2		2	CPA6	8	68423884	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	16974565	68423884	77940138	99	38891										
PREX2	80243	broad.mit.edu	37	chr8	69009359	69009359	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	atggtgtcgtgtatgagtacGacagcacagctggcatcaag	13	8	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:69009359G>T	uc003xxv.1	+	22	2503	c.2476G>T	c.(2476-2478)GAC>TAC	p.D826Y	PREX2_uc003xxu.1_Missense_Mutation_p.D826Y|PREX2_uc011lez.1_Missense_Mutation_p.D761Y	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	826					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GTATGAGTACGACAGCACAGC	0.458													12	78	---	---	---	---	PASS	T	69009359	T	T	69009359	3	4	106	1	0	0	0	0	1	0	0	0	12477	1058	37	2	2562	2	PREX2	8	69009359	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	585475	69009359	77354663	100	38892										
SLCO5A1	81796	broad.mit.edu	37	chr8	70744099	70744099	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cccattccaatgagaatctgCgcgcaaatgaataaagccac	7	12	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:70744099C>G	uc003xyl.2	-	2	1517	c.810G>C	c.(808-810)GCG>GCC	p.A270A	SLCO5A1_uc010lzb.2_Silent_p.A270A|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Silent_p.A270A|SLCO5A1_uc010lzc.2_Silent_p.A270A	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	270	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			TGAGAATCTGCGCGCAAATGA	0.502													10	66	---	---	---	---	PASS	G	70744099	G	G	70744099	2	3	106	1	0	0	0	0	0	0	0	1	14731	755	27	4		4	SLCO5A1	8	70744099	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	1734740	70744099	75619923	101	38893										
FBXO43	286151	broad.mit.edu	37	chr8	101153374	101153374	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tcttgtctttcttatggtgtCcccaactttgggagtcccct	8	12	3	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:101153374C>A	uc003yjd.2	-	2	1821	c.1108G>T	c.(1108-1110)GAC>TAC	p.D370Y	FBXO43_uc003yje.2_Missense_Mutation_p.D336Y|FBXO43_uc010mbp.1_Missense_Mutation_p.D370Y	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	370					meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			CTTATGGTGTCCCCAACTTTG	0.463													20	64	---	---	---	---	PASS	A	101153374	A	A	101153374	3	1	106	1	0	0	0	0	1	0	0	0	5752	855	30	2	1034	2	FBXO43	8	101153374	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	30409275	101153374	45210648	102	38894										
PKHD1L1	93035	broad.mit.edu	37	chr8	110453071	110453071	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	acaataccagctgagaatacCgtgctgttaggtaagagctt	10	8	0	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:110453071C>T	uc003yne.2	+	33	4193	c.4089C>T	c.(4087-4089)ACC>ACT	p.T1363T		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1363	Extracellular (Potential).|IPT/TIG 7.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CTGAGAATACCGTGCTGTTAG	0.383										HNSCC(38;0.096)			12	129	---	---	---	---	PASS	T	110453071	T	T	110453071	2	4	106	1	0	0	0	0	0	0	0	1	11972	639	23	1		1	PKHD1L1	8	110453071	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	9299697	110453071	35910951	103	38895										
ZFAT	57623	broad.mit.edu	37	chr8	135621002	135621002	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tcattggttgctcataaggtGtctgctgaatggcgtattcc	11	8	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:135621002G>A	uc003yup.2	-	5	930	c.755C>T	c.(754-756)ACA>ATA	p.T252I	ZFAT_uc003yun.2_Missense_Mutation_p.T240I|ZFAT_uc003yuo.2_Missense_Mutation_p.T240I|ZFAT_uc010meh.2_Missense_Mutation_p.T240I|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.T240I|ZFAT_uc010mej.2_Missense_Mutation_p.T190I|ZFAT_uc003yur.2_Missense_Mutation_p.T240I	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	252					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			CTCATAAGGTGTCTGCTGAAT	0.512													8	105	---	---	---	---	PASS	A	135621002	A	A	135621002	3	1	106	1	0	0	0	0	1	0	0	0	17629	1377	48	3	3024	3	ZFAT	8	135621002	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	25167931	135621002	10743020	104	38896										
DENND3	22898	broad.mit.edu	37	chr8	142178277	142178277	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggcccgctatttgtacctccGagggctcgtttatctgatgc	11	12	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:142178277G>T	uc003yvy.2	+	13	1966	c.1688G>T	c.(1687-1689)CGA>CTA	p.R563L	DENND3_uc010mep.2_Missense_Mutation_p.R524L|DENND3_uc003yvz.1_Missense_Mutation_p.R247L	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	563										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			TTGTACCTCCGAGGGCTCGTT	0.532													4	84	---	---	---	---	PASS	T	142178277	T	T	142178277	3	4	106	1	0	0	0	0	1	0	0	0	4432	1058	37	2	1734	2	DENND3	8	142178277	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	6557275	142178277	4185745	105	38897										
ELAVL2	1993	broad.mit.edu	37	chr9	23701384	23701384	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aaaccagacttacctaaaacGctgtgcctgctgagctagcg	9	12	0	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr9:23701384G>C	uc003zpu.2	-	5	981	c.706C>G	c.(706-708)CGT>GGT	p.R236G	ELAVL2_uc003zps.2_Missense_Mutation_p.R236G|ELAVL2_uc003zpt.2_Missense_Mutation_p.R236G|ELAVL2_uc003zpv.2_Missense_Mutation_p.R236G|ELAVL2_uc003zpw.2_Missense_Mutation_p.R236G	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	236					regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		TACCTAAAACGCTGTGCCTGC	0.458													30	182	---	---	---	---	PASS	C	23701384	C	C	23701384	3	2	106	1	0	0	0	0	1	0	0	0	5050	1087	38	4	385	4	ELAVL2	9	23701384	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08		23701384	117512047	106	38898										
PRUNE2	158471	broad.mit.edu	37	chr9	79323950	79323950	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agttgcatcatgctggggtcGtcgtaactggactggctgct	14	9	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr9:79323950G>C	uc010mpk.2	-	8	3364	c.3240C>G	c.(3238-3240)GAC>GAG	p.D1080E		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1080					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TGCTGGGGTCGTCGTAACTGG	0.512													18	89	---	---	---	---	PASS	C	79323950	C	C	79323950	3	2	106	1	0	0	0	0	1	0	0	0	12641	1136	40	4	6074	4	PRUNE2	9	79323950	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	55622566	79323950	61889481	107	38899										
HEMGN	55363	broad.mit.edu	37	chr9	100693232	100693232	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tactgctatttcttggtactCagaaaaattctcctgatata	5	8	3	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr9:100693232C>A	uc004axy.2	-	3	553	c.445G>T	c.(445-447)GAG>TAG	p.E149*	HEMGN_uc004axz.2_Nonsense_Mutation_p.E149*	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	149					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TCTTGGTACTCAGAAAAATTC	0.378													5	93	---	---	---	---	PASS	A	100693232	A	A	100693232	4	1	106	1	0	0	0	0	0	1	0	0	7050	835	29	2	1017	2	HEMGN	9	100693232	Nonsense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	21369282	100693232	40520199	108	38900										
CEP110	11064	broad.mit.edu	37	chr9	123875857	123875857	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aagagaaatatgtttgccacAgagagttatattattgacag	9	4	0	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr9:123875857A>T	uc004bkx.1	+	8	1231	c.1200A>T	c.(1198-1200)ACA>ACT	p.T400T	CEP110_uc004bkw.2_Silent_p.T400T|CEP110_uc004bky.1_Silent_p.T4T	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	400					cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						TGTTTGCCACAGAGAGTTATA	0.378													13	92	---	---	---	---	PASS	T	123875857	T	T	123875857	2	4	106	1	0	0	0	0	0	0	0	1	3245	175	7	5		5	CEP110	9	123875857	Silent	SNP	A	TCGA-46-3767-01A-01D-0983-08	23182625	123875857	17337574	109	38901										
CEL	1056	broad.mit.edu	37	chr9	135941993	135941993	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gcggccttcgggggggacccCaacaacatcacgctcttcgg	13	15	2	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr9:135941993C>T	uc010naa.1	+	5	640	c.624C>T	c.(622-624)CCC>CCT	p.P208P		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	205					cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		GGGGGGACCCCAACAACATCA	0.642													12	65	---	---	---	---	PASS	T	135941993	T	T	135941993	2	4	106	1	0	0	0	0	0	0	0	1	3209	581	21	3		3	CEL	9	135941993	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	12066136	135941993	5271438	110	38902										
LYZL2	119180	broad.mit.edu	37	chr10	30915048	30915048	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cctcacctgagcaggcgacgTggcagtggttgttctccttc	12	13	2	1	rs143775752	byFrequency	TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:30915048T>A	uc001ivk.2	-	3	435	c.422A>T	c.(421-423)CAC>CTC	p.H141L		NM_183058	NP_898881	Q7Z4W2	LYZL2_HUMAN	lysozyme-like 2	95					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Prostate(175;0.151)				GCAGGCGACGTGGCAGTGGTT	0.557													6	75	---	---	---	---	PASS	A	30915048	A	A	30915048	3	1	106	1	0	0	0	0	1	0	0	0	9132	1696	59	5	174	5	LYZL2	10	30915048	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08		30915048	104619699	111	38903										
ZEB1	6935	broad.mit.edu	37	chr10	31791294	31791294	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agtaaaagatgatgaatgcgAgtcagatgcagaaaatgagc	12	4	1	6			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:31791294A>T	uc001ivs.3	+	4	401	c.338A>T	c.(337-339)GAG>GTG	p.E113V	ZEB1_uc001ivr.3_5'UTR|ZEB1_uc010qee.1_5'UTR|ZEB1_uc010qef.1_5'UTR|ZEB1_uc009xlh.1_RNA|ZEB1_uc009xli.1_RNA|ZEB1_uc009xlj.1_Intron|ZEB1_uc010qeg.1_Intron|ZEB1_uc009xlk.1_5'UTR|ZEB1_uc001ivt.3_5'UTR|ZEB1_uc001ivu.3_Missense_Mutation_p.E114V|ZEB1_uc001ivv.3_Missense_Mutation_p.E93V|ZEB1_uc010qeh.1_Missense_Mutation_p.E46V|ZEB1_uc009xll.2_RNA|ZEB1_uc009xlm.1_RNA|ZEB1_uc009xln.1_RNA|ZEB1_uc009xlo.1_Missense_Mutation_p.E96V|ZEB1_uc009xlp.2_Missense_Mutation_p.E97V	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	113					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				GATGAATGCGAGTCAGATGCA	0.338													5	26	---	---	---	---	PASS	T	31791294	T	T	31791294	3	4	106	1	0	0	0	0	1	0	0	0	17620	304	11	5	366	5	ZEB1	10	31791294	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	876246	31791294	103743453	112	38904										
TMEM72	643236	broad.mit.edu	37	chr10	45430487	45430487	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gtctggatgatggggacagtGagccagaggagaccacctct	15	9	2	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:45430487G>A	uc001jbn.2	+	5	930	c.733G>A	c.(733-735)GAG>AAG	p.E245K	uc001jbk.1_Intron|uc001jbl.2_Intron|TMEM72_uc009xmm.1_Missense_Mutation_p.E127K	NM_001123376	NP_001116848	A0PK05	TMM72_HUMAN	transmembrane protein 72	245						integral to membrane					0						TGGGGACAGTGAGCCAGAGGA	0.602													15	56	---	---	---	---	PASS	A	45430487	A	A	45430487	3	1	106	1	0	0	0	0	1	0	0	0	16198	1291	45	2	751	2	TMEM72	10	45430487	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	13639193	45430487	90104260	113	38905										
FRMPD2	143162	broad.mit.edu	37	chr10	49457087	49457087	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agatgcatcaggctgctcatCctcactctgtccctgtagca	8	14	4	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:49457087C>A	uc001jgi.2	-	3	393	c.286G>T	c.(286-288)GAT>TAT	p.D96Y	FRMPD2_uc001jgh.2_Missense_Mutation_p.D87Y|FRMPD2_uc001jgj.2_Missense_Mutation_p.D96Y	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	96	KIND.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		GGCTGCTCATCCTCACTCTGT	0.567													5	39	---	---	---	---	PASS	A	49457087	A	A	49457087	3	1	106	1	0	0	0	0	1	0	0	0	6058	855	30	2	3751	2	FRMPD2	10	49457087	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	4026600	49457087	86077660	114	38906										
SLC18A3	6572	broad.mit.edu	37	chr10	50820303	50820303	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gcgtgagcgtcctgtgtctgGccaggacggcgagcctcgca	16	13	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:50820303G>T	uc001jhw.2	+	1	1957	c.1517G>T	c.(1516-1518)GGC>GTC	p.G506V	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	506	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CCTGTGTCTGGCCAGGACGGC	0.652													5	29	---	---	---	---	PASS	T	50820303	T	T	50820303	3	4	106	1	0	0	0	0	1	0	0	0	14427	1203	42	3	1519	3	SLC18A3	10	50820303	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	1363216	50820303	84714444	115	38907										
A1CF	29974	broad.mit.edu	37	chr10	52595861	52595861	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cagtttcctcctcgccatggCagctgctcgatgactctcat	8	15	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:52595861C>A	uc001jjj.2	-	6	765	c.577G>T	c.(577-579)GCC>TCC	p.A193S	A1CF_uc010qhn.1_Missense_Mutation_p.A201S|A1CF_uc001jji.2_Missense_Mutation_p.A193S|A1CF_uc001jjh.2_Missense_Mutation_p.A201S|A1CF_uc010qho.1_Missense_Mutation_p.A201S|A1CF_uc009xov.2_Missense_Mutation_p.A193S	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	193	RRM 2.				cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						CTCGCCATGGCAGCTGCTCGA	0.498													5	63	---	---	---	---	PASS	A	52595861	A	A	52595861	3	1	106	1	0	0	0	0	1	0	0	0	2	710	25	3	1239	3	A1CF	10	52595861	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	1775558	52595861	82938886	116	38908										
RUFY2	55680	broad.mit.edu	37	chr10	70161474	70161474	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gccccagatggttttgttgtAactcaaaaatgattttctta	7	7	2	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:70161474A>T	uc001job.2	-	3	631	c.304T>A	c.(304-306)TAC>AAC	p.Y102N	RUFY2_uc001jnz.1_RNA|RUFY2_uc001joc.2_Missense_Mutation_p.Y67N|RUFY2_uc010qiw.1_Missense_Mutation_p.Y9N|RUFY2_uc001jod.1_Missense_Mutation_p.Y67N|RUFY2_uc009xpv.1_5'UTR|RUFY2_uc001joe.1_Missense_Mutation_p.Y67N	NM_017987	NP_060457	Q8WXA3	RUFY2_HUMAN	RUN and FYVE domain-containing 2 isoform a	116	RUN.					nucleus	metal ion binding			ovary(1)	1						GTTTTGTTGTAACTCAAAAAT	0.373													6	41	---	---	---	---	PASS	T	70161474	T	T	70161474	3	4	106	1	0	0	0	0	1	0	0	0	13739	362	13	5	1798	5	RUFY2	10	70161474	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	17565613	70161474	65373273	117	38909										
CBARA1	10367	broad.mit.edu	37	chr10	74267937	74267937	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aagaacagttgtgaggaaaaTgtagtctgaaaaggatatga	12	2	1	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:74267937T>C	uc001jtb.1	-	7	767	c.634A>G	c.(634-636)ATT>GTT	p.I212V	CBARA1_uc010qjw.1_5'UTR|CBARA1_uc010qjx.1_Intron|CBARA1_uc009xqo.1_RNA	NM_006077	NP_006068	Q9BPX6	MICU1_HUMAN	calcium binding atopy-related autoantigen 1	210					calcium ion import|defense response|elevation of mitochondrial calcium ion concentration	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			ovary(1)	1						GTGAGGAAAATGTAGTCTGAA	0.328													3	9	---	---	---	---	PASS	C	74267937	C	C	74267937	3	2	106	1	0	0	0	0	1	0	0	0	2696	1464	51	5	830	5	CBARA1	10	74267937	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	4106463	74267937	61266810	118	38910										
RPP30	10556	broad.mit.edu	37	chr10	92631758	92631758	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ttcagcatggcggtgtttgcAgatttggacctgcgagcggg	16	8	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:92631758A>T	uc009xtx.2	+	1	50	c.15A>T	c.(13-15)GCA>GCT	p.A5A	RPP30_uc001khd.2_Silent_p.A5A|RPP30_uc010qnj.1_Silent_p.A5A	NM_006413	NP_006404	P78346	RPP30_HUMAN	ribonuclease P/MRP 30kDa subunit isoform b	5					tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity				0						CGGTGTTTGCAGATTTGGACC	0.652													8	114	---	---	---	---	PASS	T	92631758	T	T	92631758	2	4	106	1	0	0	0	0	0	0	0	1	13612	175	7	5		5	RPP30	10	92631758	Silent	SNP	A	TCGA-46-3767-01A-01D-0983-08	18363821	92631758	42902989	119	38911										
SORCS1	114815	broad.mit.edu	37	chr10	108432656	108432656	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agctgccaaggtctgtagtcCtcttcggcacaccgtctatc	9	14	3	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:108432656C>G	uc001kym.2	-	15	2036	c.2028G>C	c.(2026-2028)GAG>GAC	p.E676D	SORCS1_uc001kyl.2_Missense_Mutation_p.E676D|SORCS1_uc009xxs.2_Missense_Mutation_p.E676D|SORCS1_uc001kyn.1_Missense_Mutation_p.E676D|SORCS1_uc001kyo.2_Missense_Mutation_p.E676D	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	676	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		GTCTGTAGTCCTCTTCGGCAC	0.507													4	30	---	---	---	---	PASS	G	108432656	G	G	108432656	3	3	106	1	0	0	0	0	1	0	0	0	14930	680	24	4	1760	4	SORCS1	10	108432656	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	15800898	108432656	27102091	120	38912										
C10orf137	26098	broad.mit.edu	37	chr10	127418024	127418024	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	catatttggaggaggcagatAcccagcagtcagcttacgtc	11	10	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:127418024A>G	uc001liq.1	+	8	1285	c.992A>G	c.(991-993)TAC>TGC	p.Y331C	C10orf137_uc001lin.2_Missense_Mutation_p.Y297C|C10orf137_uc001lio.1_Missense_Mutation_p.Y297C|C10orf137_uc001lip.1_Missense_Mutation_p.T30A	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	331					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GGAGGCAGATACCCAGCAGTC	0.398													5	62	---	---	---	---	PASS	G	127418024	G	G	127418024	3	3	106	1	0	0	0	0	1	0	0	0	1594	391	14	5	916	5	C10orf137	10	127418024	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	18985368	127418024	8116723	121	38913										
JAKMIP3	282973	broad.mit.edu	37	chr10	133978215	133978215	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agaatagaagctcagaagagAcaaataaaggaactggagga	12	4	1	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:133978215A>G	uc001lkx.3	+	20	2460	c.2460A>G	c.(2458-2460)AGA>AGG	p.R820R	JAKMIP3_uc009yba.1_Silent_p.R257R	NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CTCAGAAGAGACAAATAAAGG	0.418													11	74	---	---	---	---	PASS	G	133978215	G	G	133978215	2	3	106	1	0	0	0	0	0	0	0	1	7942	272	10	5		5	JAKMIP3	10	133978215	Silent	SNP	A	TCGA-46-3767-01A-01D-0983-08	6560191	133978215	1556532	122	38914										
OR52E6	390078	broad.mit.edu	37	chr11	5862634	5862634	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cacagaagggcaaccttaagAggagaaacaccagtggaatg	12	8	0	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:5862634A>T	uc010qzq.1	-	1	494	c.494T>A	c.(493-495)CTC>CAC	p.L165H	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAACCTTAAGAGGAGAAACAC	0.493													25	128	---	---	---	---	PASS	T	5862634	T	T	5862634	3	4	106	1	0	0	0	0	1	0	0	0	11117	304	11	5	449	5	OR52E6	11	5862634	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08		5862634	129143882	123	38915										
FAM160A2	84067	broad.mit.edu	37	chr11	6245017	6245017	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gcggctccaggctcaggaggTggctgcaggaagaactcgag	17	10	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:6245017T>A	uc001mcl.3	-	3	959	c.600A>T	c.(598-600)CCA>CCT	p.P200P	FAM160A2_uc001mck.3_Silent_p.P200P|FAM160A2_uc001mcm.2_Silent_p.P200P	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	200					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						GCTCAGGAGGTGGCTGCAGGA	0.602													14	74	---	---	---	---	PASS	A	6245017	A	A	6245017	2	1	106	1	0	0	0	0	0	0	0	1	5469	1683	59	5		5	FAM160A2	11	6245017	Silent	SNP	T	TCGA-46-3767-01A-01D-0983-08	382383	6245017	128761499	124	38916										
WEE1	7465	broad.mit.edu	37	chr11	9608129	9608129	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gggtagattacctcggatacCacaagtgctttcccaagaat	9	10	0	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:9608129C>A	uc001mhs.2	+	9	1857	c.1604C>A	c.(1603-1605)CCA>CAA	p.P535Q	WEE1_uc001mht.2_Missense_Mutation_p.P321Q	NM_003390	NP_003381	P30291	WEE1_HUMAN	WEE1 tyrosine kinase isoform 1	535	Protein kinase.				blood coagulation|cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|S phase of mitotic cell cycle	nucleoplasm	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	5				all cancers(16;4.59e-09)|Epithelial(150;3.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0484)		CCTCGGATACCACAAGTGCTT	0.413													5	83	---	---	---	---	PASS	A	9608129	A	A	9608129	3	1	106	1	0	0	0	0	1	0	0	0	17341	594	21	3	1638	3	WEE1	11	9608129	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	3363112	9608129	125398387	125	38917										
SERGEF	26297	broad.mit.edu	37	chr11	18014479	18014479	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgaaagagctggtacctaccTgttaatgaagctgagtggtc	12	7	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:18014479T>G	uc001mnm.2	-	7	764	c.684A>C	c.(682-684)ACA>ACC	p.T228T	SERGEF_uc009yhd.2_RNA|SERGEF_uc001mnn.2_Silent_p.T228T|SERGEF_uc010rcz.1_Silent_p.T114T|SERGEF_uc001mno.1_Silent_p.T114T	NM_012139	NP_036271	Q9UGK8	SRGEF_HUMAN	deafness locus associated putative guanine	228	RCC1 4.				negative regulation of protein secretion|signal transduction	cytoplasm|nucleus	protein binding|Ran guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1						GGTACCTACCTGTTAATGAAG	0.338													8	38	---	---	---	---	PASS	G	18014479	G	G	18014479	2	3	106	1	0	0	0	0	0	0	0	1	14077	1594	55	5		5	SERGEF	11	18014479	Silent	SNP	T	TCGA-46-3767-01A-01D-0983-08	8406350	18014479	116992037	126	38918										
C11orf41	25758	broad.mit.edu	37	chr11	33565038	33565038	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	actgttttcccatctcttggCttttccagcaccaagccaga	6	14	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:33565038C>T	uc001mup.3	+	1	1162	c.1038C>T	c.(1036-1038)GGC>GGT	p.G346G	C11orf41_uc001mun.1_Silent_p.G346G	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	346						integral to membrane				ovary(2)	2						CATCTCTTGGCTTTTCCAGCA	0.537											OREG0020868	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	113	---	---	---	---	PASS	T	33565038	T	T	33565038	2	4	106	1	0	0	0	0	0	0	0	1	1640	784	28	3		3	C11orf41	11	33565038	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	15550559	33565038	101441478	127	38919										
SPRYD5	84767	broad.mit.edu	37	chr11	55655543	55655543	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aggatagaagcaatcagagcTgaatatcagaagatgcctgc	11	7	2	5			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:55655543T>A	uc010rip.1	+	4	635	c.543T>A	c.(541-543)GCT>GCA	p.A181A	SPRYD5_uc010riq.1_Silent_p.A38A	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	181						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				CAATCAGAGCTGAATATCAGA	0.393													5	28	---	---	---	---	PASS	A	55655543	A	A	55655543	2	1	106	1	0	0	0	0	0	0	0	1	15110	1567	55	5		5	SPRYD5	11	55655543	Silent	SNP	T	TCGA-46-3767-01A-01D-0983-08	22090505	55655543	79350973	128	38920										
OR5T1	390155	broad.mit.edu	37	chr11	56043875	56043875	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aaaagtcttctctacatgtgGagctcacctaactggagtga	9	9	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:56043875G>T	uc001nio.1	+	1	761	c.761G>T	c.(760-762)GGA>GTA	p.G254V		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TCTACATGTGGAGCTCACCTA	0.438													12	140	---	---	---	---	PASS	T	56043875	T	T	56043875	3	4	106	1	0	0	0	0	1	0	0	0	11181	1174	41	2	763	2	OR5T1	11	56043875	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	388332	56043875	78962641	129	38921										
OR5M10	390167	broad.mit.edu	37	chr11	56344723	56344723	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gtgaaaggtcagcagtgtctGagagagcccattaaggaagc	14	7	2	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:56344723G>C	uc001niz.1	-	1	475	c.475C>G	c.(475-477)CAG>GAG	p.Q159E		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGCAGTGTCTGAGAGAGCCCA	0.468													4	149	---	---	---	---	PASS	C	56344723	C	C	56344723	3	2	106	1	0	0	0	0	1	0	0	0	11173	1299	45	2	476	2	OR5M10	11	56344723	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	300848	56344723	78661793	130	38922										
FAM111B	374393	broad.mit.edu	37	chr11	58892347	58892347	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cagtccatggtggatgaagtAtctggaaaagtcttagaaat	11	5	2	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:58892347A>G	uc001nnl.2	+	4	1020	c.777A>G	c.(775-777)GTA>GTG	p.V259V	FAM111B_uc001nnm.2_Silent_p.V229V|FAM111B_uc010rko.1_Silent_p.V229V	NM_198947	NP_945185	Q6SJ93	F111B_HUMAN	hypothetical protein LOC374393 isoform a	259							catalytic activity			ovary(2)	2						TGGATGAAGTATCTGGAAAAG	0.338													7	46	---	---	---	---	PASS	G	58892347	G	G	58892347	2	3	106	1	0	0	0	0	0	0	0	1	5400	436	16	5		5	FAM111B	11	58892347	Silent	SNP	A	TCGA-46-3767-01A-01D-0983-08	2547624	58892347	76114169	131	38923										
PPFIA1	8500	broad.mit.edu	37	chr11	70118486	70118486	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	taacccaggggaagttacacGaggttggtcatgaaagagat	13	6	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:70118486G>T	uc001opo.2	+	2	406	c.208G>T	c.(208-210)GAG>TAG	p.E70*	PPFIA1_uc001opn.1_Nonsense_Mutation_p.E70*|PPFIA1_uc001opp.2_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	70	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			GAAGTTACACGAGGTTGGTCA	0.458													5	99	---	---	---	---	PASS	T	70118486	T	T	70118486	4	4	106	1	0	0	0	0	0	1	0	0	12309	1059	37	2	210	2	PPFIA1	11	70118486	Nonsense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	11226139	70118486	64888030	132	38924										
C11orf30	56946	broad.mit.edu	37	chr11	76171008	76171008	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tattcctacacaagtaccacGtcaaccccaacctctacccc	2	19	2	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:76171008G>T	uc001oxl.2	+	6	593	c.450G>T	c.(448-450)ACG>ACT	p.T150T	C11orf30_uc001oxk.2_3'UTR|C11orf30_uc009yuj.1_Silent_p.T165T|C11orf30_uc010rsa.1_Intron|C11orf30_uc001oxm.2_Silent_p.T151T|C11orf30_uc010rsb.1_Silent_p.T165T|C11orf30_uc010rsc.1_Silent_p.T165T|C11orf30_uc001oxn.2_Silent_p.T151T|C11orf30_uc010rsd.1_Silent_p.T164T	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	150	Interaction with BRCA2.				chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						CAAGTACCACGTCAACCCCAA	0.443													6	106	---	---	---	---	PASS	T	76171008	T	T	76171008	2	4	106	1	0	0	0	0	0	0	0	1	1636	1132	40	1		1	C11orf30	11	76171008	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	6052522	76171008	58835508	133	38925										
C11orf82	220042	broad.mit.edu	37	chr11	82644903	82644903	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agaagccctattgtatctggTgtttcacaaccagacgtttt	8	9	2	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:82644903T>C	uc001ozt.2	+	6	2767	c.2523T>C	c.(2521-2523)GGT>GGC	p.G841G	C11orf82_uc010rsr.1_Silent_p.G540G|C11orf82_uc010rss.1_Silent_p.G540G|C11orf82_uc009yvd.2_Intron	NM_145018	NP_659455	Q8IXT1	NOXIN_HUMAN	nitric oxide-inducible gene protein	841					apoptosis|cell cycle arrest	cytoplasm|nucleus				ovary(2)	2						TTGTATCTGGTGTTTCACAAC	0.403													6	54	---	---	---	---	PASS	C	82644903	C	C	82644903	2	2	106	1	0	0	0	0	0	0	0	1	1665	1683	59	5		5	C11orf82	11	82644903	Silent	SNP	T	TCGA-46-3767-01A-01D-0983-08	6473895	82644903	52361613	134	38926										
CHORDC1	26973	broad.mit.edu	37	chr11	89935578	89935578	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ccttccatctcccactcaatCtgttgtggcatctttttgtt	5	13	4	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:89935578C>G	uc001pdg.2	-	11	1404	c.994G>C	c.(994-996)GAT>CAT	p.D332H	CHORDC1_uc009yvz.2_Missense_Mutation_p.D313H	NM_012124	NP_036256	Q9UHD1	CHRD1_HUMAN	cysteine and histidine-rich domain-containing	332					chaperone-mediated protein folding|regulation of response to stress|response to stress		Hsp90 protein binding|identical protein binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.00915)				CCCACTCAATCTGTTGTGGCA	0.398													4	28	---	---	---	---	PASS	G	89935578	G	G	89935578	3	3	106	1	0	0	0	0	1	0	0	0	3365	913	32	2	8	2	CHORDC1	11	89935578	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	7290675	89935578	45070938	135	38927										
FAT3	120114	broad.mit.edu	37	chr11	92495063	92495063	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ccctctccaaaacagtcaacCatttgggtggtggttcaggt	10	11	3	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:92495063C>A	uc001pdj.3	+	4	3728	c.3711C>A	c.(3709-3711)ACC>ACA	p.T1237T		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1237	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AACAGTCAACCATTTGGGTGG	0.438										TCGA Ovarian(4;0.039)			7	170	---	---	---	---	PASS	A	92495063	A	A	92495063	2	1	106	1	0	0	0	0	0	0	0	1	5691	581	21	3		3	FAT3	11	92495063	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	2559485	92495063	42511453	136	38928										
FAT3	120114	broad.mit.edu	37	chr11	92534954	92534954	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gacaatgcaccagtcttcgcGcaggaagtgtaccgagggaa	13	10	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:92534954G>T	uc001pdj.3	+	9	8792	c.8775G>T	c.(8773-8775)GCG>GCT	p.A2925A		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2925	Cadherin 27.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CAGTCTTCGCGCAGGAAGTGT	0.567										TCGA Ovarian(4;0.039)			4	79	---	---	---	---	PASS	T	92534954	T	T	92534954	2	4	106	1	0	0	0	0	0	0	0	1	5691	1074	38	1		1	FAT3	11	92534954	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	39891	92534954	42471562	137	38929										
GRAMD1B	57476	broad.mit.edu	37	chr11	123477373	123477373	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggagacgggtccctggaaaaGgagctcgccattgacaacat	13	10	0	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:123477373G>T	uc001pyx.2	+	10	1280	c.951G>T	c.(949-951)AAG>AAT	p.K317N	GRAMD1B_uc001pyw.2_Missense_Mutation_p.K324N|GRAMD1B_uc010rzw.1_Missense_Mutation_p.K277N|GRAMD1B_uc010rzx.1_Missense_Mutation_p.K277N|GRAMD1B_uc009zbe.1_Missense_Mutation_p.K313N|GRAMD1B_uc001pyy.2_5'Flank	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	317						integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		CCCTGGAAAAGGAGCTCGCCA	0.562													4	17	---	---	---	---	PASS	T	123477373	T	T	123477373	3	4	106	1	0	0	0	0	1	0	0	0	6748	991	35	3	989	3	GRAMD1B	11	123477373	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	30942419	123477373	11529143	138	38930										
TMEM225	338661	broad.mit.edu	37	chr11	123754822	123754822	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	acatttaagtaagcagtataCatgatccaggtgatcctata	7	7	0	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:123754822C>T	uc001pzi.2	-	3	631	c.423G>A	c.(421-423)ATG>ATA	p.M141I		NM_001013743	NP_001013765	Q6GV28	TM225_HUMAN	transmembrane protein 225	141	Helical; (Potential).					integral to membrane				upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	3						AAGCAGTATACATGATCCAGG	0.448													6	70	---	---	---	---	PASS	T	123754822	T	T	123754822	3	4	106	1	0	0	0	0	1	0	0	0	16144	478	17	3	262	3	TMEM225	11	123754822	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	277449	123754822	11251694	139	38931										
OR10G4	390264	broad.mit.edu	37	chr11	123887173	123887173	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	acaaggaggtgaagaaagctGtgttgaaacttagagacaaa	12	4	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:123887173G>T	uc010sac.1	+	1	892	c.892G>T	c.(892-894)GTG>TTG	p.V298L		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	298	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		GAAGAAAGCTGTGTTGAAACT	0.393													10	52	---	---	---	---	PASS	T	123887173	T	T	123887173	3	4	106	1	0	0	0	0	1	0	0	0	10901	1377	48	3	894	3	OR10G4	11	123887173	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	132351	123887173	11119343	140	38932										
GALNT8	26290	broad.mit.edu	37	chr12	4874599	4874599	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgggacaactgattgcagagGccagtgctagtgatcgctgc	14	9	0	3	rs144271473	by1000genomes	TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:4874599G>T	uc001qne.1	+	10	1740	c.1648G>T	c.(1648-1650)GCC>TCC	p.A550S		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	550	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						GATTGCAGAGGCCAGTGCTAG	0.458													6	41	---	---	---	---	PASS	T	4874599	T	T	4874599	3	4	106	1	0	0	0	0	1	0	0	0	6219	1203	42	3	1686	3	GALNT8	12	4874599	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08		4874599	128977296	141	38933										
CD163	9332	broad.mit.edu	37	chr12	7647710	7647710	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tttggcttcttcatagtgatCacaggtaagtccaccccatt	7	11	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:7647710C>T	uc001qsz.3	-	6	1515	c.1387G>A	c.(1387-1389)GAT>AAT	p.D463N	CD163_uc001qta.3_Missense_Mutation_p.D463N|CD163_uc009zfw.2_Missense_Mutation_p.D463N	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	463	SRCR 4.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						TCATAGTGATCACAGGTAAGT	0.398													16	98	---	---	---	---	PASS	T	7647710	T	T	7647710	3	4	106	1	0	0	0	0	1	0	0	0	2967	826	29	2	2127	2	CD163	12	7647710	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	2773111	7647710	126204185	142	38934										
CMAS	55907	broad.mit.edu	37	chr12	22218072	22218072	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	taggaaatgaagtgtctgatGaagagtgcttgaagagagtg	15	2	1	6			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:22218072G>T	uc001rfm.2	+	8	1211	c.1132G>T	c.(1132-1134)GAA>TAA	p.E378*	CMAS_uc001rfn.2_RNA	NM_018686	NP_061156	Q8NFW8	NEUA_HUMAN	cytidine monophospho-N-acetylneuraminic acid	378					lipopolysaccharide biosynthetic process	nucleus	N-acylneuraminate cytidylyltransferase activity			ovary(1)|pancreas(1)|skin(1)	3						AGTGTCTGATGAAGAGTGCTT	0.423													16	113	---	---	---	---	PASS	T	22218072	T	T	22218072	4	4	106	1	0	0	0	0	0	1	0	0	3575	1291	45	2	1162	2	CMAS	12	22218072	Nonsense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	14570362	22218072	111633823	143	38935										
C12orf40	283461	broad.mit.edu	37	chr12	40114794	40114794	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aaataatacagatcagtttcCacagttgcagtgcaattcag	7	8	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:40114794C>A	uc001rmc.2	+	13	1867	c.1700C>A	c.(1699-1701)CCA>CAA	p.P567Q	C12orf40_uc009zjv.1_Intron	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	567										ovary(6)	6						GATCAGTTTCCACAGTTGCAG	0.388													6	61	---	---	---	---	PASS	A	40114794	A	A	40114794	3	1	106	1	0	0	0	0	1	0	0	0	1686	594	21	3	1750	3	C12orf40	12	40114794	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	17896722	40114794	93737101	144	38936										
GXYLT1	283464	broad.mit.edu	37	chr12	42512879	42512879	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tttgatgctgaaaatgatagCtgacttcaacatggtcatag	9	6	2	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:42512879C>G	uc001rms.3	-	3	634	c.409G>C	c.(409-411)GCT>CCT	p.A137P	GXYLT1_uc001rmt.3_Missense_Mutation_p.A106P	NM_173601	NP_775872	Q4G148	GXLT1_HUMAN	glycosyltransferase 8 domain containing 3	137	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						AAAATGATAGCTGACTTCAAC	0.373													4	66	---	---	---	---	PASS	G	42512879	G	G	42512879	3	3	106	1	0	0	0	0	1	0	0	0	6903	797	28	4	937	4	GXYLT1	12	42512879	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	2398085	42512879	91339016	145	38937										
BIN2	51411	broad.mit.edu	37	chr12	51696919	51696919	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gtccttgtacagcttgtggcCttctgcctgaaagagaaaag	11	9	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:51696919C>A	uc001ryg.2	-	3	221	c.169G>T	c.(169-171)GGC>TGC	p.G57C	BIN2_uc009zlz.2_Missense_Mutation_p.G57C|BIN2_uc001ryh.2_Translation_Start_Site|BIN2_uc010sng.1_Missense_Mutation_p.G31C	NM_016293	NP_057377	Q9UBW5	BIN2_HUMAN	bridging integrator 2	57	BAR.					cytoplasm	protein binding			ovary(1)	1						AGCTTGTGGCCTTCTGCCTGA	0.418													5	44	---	---	---	---	PASS	A	51696919	A	A	51696919	3	1	106	1	0	0	0	0	1	0	0	0	1433	681	24	3	1572	3	BIN2	12	51696919	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	9184040	51696919	82154976	146	38938										
ACVR1B	91	broad.mit.edu	37	chr12	52380615	52380615	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	attgcagatacatggcccctGaagtacttgatgaaaccatt	8	9	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:52380615G>C	uc001rzn.2	+	7	1192	c.1150G>C	c.(1150-1152)GAA>CAA	p.E384Q	ACVR1B_uc001rzl.2_Missense_Mutation_p.E384Q|ACVR1B_uc001rzm.2_Missense_Mutation_p.E384Q|ACVR1B_uc010snn.1_Missense_Mutation_p.E425Q	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	384	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	CATGGCCCCTGAAGTACTTGA	0.393													10	67	---	---	---	---	PASS	C	52380615	C	C	52380615	3	2	106	1	0	0	0	0	1	0	0	0	221	1291	45	2	1303	2	ACVR1B	12	52380615	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	683696	52380615	81471280	147	38939										
KRT6B	3854	broad.mit.edu	37	chr12	52841120	52841120	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aacgccaagaccactgccatAggagtagctgcttcctccac	8	15	0	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:52841120A>T	uc001sak.2	-	9	1597	c.1549T>A	c.(1549-1551)TAT>AAT	p.Y517N		NM_005555	NP_005546	P04259	K2C6B_HUMAN	keratin 6B	517	Tail.				ectoderm development	keratin filament	structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.083)		CCACTGCCATAGGAGTAGCTG	0.632													5	35	---	---	---	---	PASS	T	52841120	T	T	52841120	3	4	106	1	0	0	0	0	1	0	0	0	8481	420	15	5	149	5	KRT6B	12	52841120	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	460505	52841120	81010775	148	38940										
HOXC5	3222	broad.mit.edu	37	chr12	54428081	54428081	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gagacggacggcaagcggtcCcgaaccagttacacgcgcta	13	13	0	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:54428081C>A	uc001sew.2	+	2	549	c.474C>A	c.(472-474)TCC>TCA	p.S158S	HOXC5_uc001set.2_RNA|HOXC4_uc001seu.2_Intron	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	158	Homeobox.				regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GCAAGCGGTCCCGAACCAGTT	0.597													7	116	---	---	---	---	PASS	A	54428081	A	A	54428081	2	1	106	1	0	0	0	0	0	0	0	1	7314	610	22	3		3	HOXC5	12	54428081	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	1586961	54428081	79423814	149	38941										
NCKAP1L	3071	broad.mit.edu	37	chr12	54925091	54925091	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gcccctatggcatgaagttcCtgagtgaaaacctgatgtgg	12	9	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:54925091C>A	uc001sgc.3	+	23	2633	c.2554C>A	c.(2554-2556)CTG>ATG	p.L852M	NCKAP1L_uc010sox.1_Missense_Mutation_p.L394M|NCKAP1L_uc010soy.1_Missense_Mutation_p.L802M	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	852					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						CATGAAGTTCCTGAGTGAAAA	0.512													6	146	---	---	---	---	PASS	A	54925091	A	A	54925091	3	1	106	1	0	0	0	0	1	0	0	0	10222	680	24	3	2644	3	NCKAP1L	12	54925091	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	497010	54925091	78926804	150	38942										
TPH2	121278	broad.mit.edu	37	chr12	72425388	72425388	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	attctgaaagacaccagaagTattgaaaatgtggtgcagga	11	5	1	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:72425388T>A	uc009zrw.1	+	11	1527	c.1386T>A	c.(1384-1386)AGT>AGA	p.S462R	TPH2_uc001swy.2_Missense_Mutation_p.S372R	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	462					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	ACACCAGAAGTATTGAAAATG	0.408													14	57	---	---	---	---	PASS	A	72425388	A	A	72425388	3	1	106	1	0	0	0	0	1	0	0	0	16399	1635	57	5	1428	5	TPH2	12	72425388	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	17500297	72425388	61426507	151	38943										
C12orf26	84190	broad.mit.edu	37	chr12	82780723	82780723	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	acagttgcttgtagcccttcGaggaaatcaaaaccagagaa	9	9	1	1	rs149436881		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:82780723G>T	uc001szq.2	+	2	422	c.401G>T	c.(400-402)CGA>CTA	p.R134L		NM_032230	NP_115606	Q8N6Q8	CL026_HUMAN	hypothetical protein LOC84190	134											0						GTAGCCCTTCGAGGAAATCAA	0.373													4	80	---	---	---	---	PASS	T	82780723	T	T	82780723	3	4	106	1	0	0	0	0	1	0	0	0	1679	1058	37	2	407	2	C12orf26	12	82780723	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	10355335	82780723	51071172	152	38944										
NT5DC3	51559	broad.mit.edu	37	chr12	104179133	104179133	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctgcatctgttccaataagcCagtcaaggtctgcagccagg	10	12	3	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:104179133C>A	uc010swe.1	-	12	1350	c.1309G>T	c.(1309-1311)GGC>TGC	p.G437C		NM_001031701	NP_001026871	Q86UY8	NT5D3_HUMAN	5'-nucleotidase domain containing 3	437							hydrolase activity|metal ion binding			ovary(2)|skin(1)	3						TCCAATAAGCCAGTCAAGGTC	0.408													11	89	---	---	---	---	PASS	A	104179133	A	A	104179133	3	1	106	1	0	0	0	0	1	0	0	0	10692	594	21	3	349	3	NT5DC3	12	104179133	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	21398410	104179133	29672762	153	38945										
ALDH1L2	160428	broad.mit.edu	37	chr12	105420472	105420472	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctcttgtaaaaacccctgagGccaaaccatactctgtacta	5	13	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:105420472G>T	uc001tlc.2	-	22	2694	c.2567C>A	c.(2566-2568)GCC>GAC	p.A856D	ALDH1L2_uc009zuo.2_Missense_Mutation_p.A311D|ALDH1L2_uc009zup.2_RNA	NM_001034173	NP_001029345	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	856	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1						AACCCCTGAGGCCAAACCATA	0.373													5	89	---	---	---	---	PASS	T	105420472	T	T	105420472	3	4	106	1	0	0	0	0	1	0	0	0	495	1203	42	3	212	3	ALDH1L2	12	105420472	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	1241339	105420472	28431423	154	38946										
NAA25	80018	broad.mit.edu	37	chr12	112481017	112481017	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	caggaccaaggaaaggatacTggaaaaaagggagaaaaata	12	4	0	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:112481017T>A	uc001ttm.2	-	19	2271	c.2251_splice	c.e19-1	p.Y751_splice	NAA25_uc001ttn.3_Splice_Site|NAA25_uc009zvz.1_Splice_Site_p.Y723_splice|NAA25_uc009zwa.1_Splice_Site_p.Y751_splice	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20							cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						GAAAGGATACTGGAAAAAAGG	0.358													9	61	---	---	---	---	PASS	A	112481017	A	A	112481017	5	1	106	1	0	0	0	0	0	0	1	0	10121	1594	55	5	693	5	NAA25	12	112481017	Splice_Site	SNP	T	TCGA-46-3767-01A-01D-0983-08	7060545	112481017	21370878	155	38947										
VSIG10	54621	broad.mit.edu	37	chr12	118533522	118533522	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aggaagacaggctccgagttGttccggtaccaggtcacctg	13	11	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:118533522G>T	uc001tws.2	-	2	511	c.177C>A	c.(175-177)AAC>AAA	p.N59K		NM_019086	NP_061959	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	59	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane					0						GCTCCGAGTTGTTCCGGTACC	0.557													3	32	---	---	---	---	PASS	T	118533522	T	T	118533522	3	4	106	1	0	0	0	0	1	0	0	0	17220	1368	48	3	1477	3	VSIG10	12	118533522	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	6052505	118533522	15318373	156	38948										
C12orf43	64897	broad.mit.edu	37	chr12	121448635	121448635	+	Missense_Mutation	SNP	C	A	A													0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctccacctttgtttacctgtCcagcagggctcccagcttct							TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:121448635C>A	uc001tzh.1	-	3	306	c.283G>T	c.(283-285)GAC>TAC	p.D95Y	C12orf43_uc009zxa.1_Missense_Mutation_p.D126Y|C12orf43_uc010szo.1_Missense_Mutation_p.D53Y|C12orf43_uc010szp.1_Missense_Mutation_p.D95Y|C12orf43_uc001tzi.1_Missense_Mutation_p.D95Y	NM_022895	NP_075046	Q96C57	CL043_HUMAN	hypothetical protein LOC64897	95											0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GTTTACCTGTCCAGCAGGGCT	0.393													5	42	---	---	---	---	PASS	A	121448635	A	A	121448635	3	1	106	1	0	0	0	0	1	0	0	0	1689	855	30	2	521	2	C12orf43	12	121448635	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	2915113	121448635	12403260	157	38949	729	2								
C12orf43	64897	broad.mit.edu	37	chr12	121448636	121448636	+	Silent	SNP	C	A	A													0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tccacctttgtttacctgtcCagcagggctcccagcttctt							TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:121448636C>A	uc001tzh.1	-	3	305	c.282G>T	c.(280-282)CTG>CTT	p.L94L	C12orf43_uc009zxa.1_Silent_p.L125L|C12orf43_uc010szo.1_Silent_p.L52L|C12orf43_uc010szp.1_Silent_p.L94L|C12orf43_uc001tzi.1_Silent_p.L94L	NM_022895	NP_075046	Q96C57	CL043_HUMAN	hypothetical protein LOC64897	94											0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TTTACCTGTCCAGCAGGGCTC	0.398													6	41	---	---	---	---	PASS	A	121448636	A	A	121448636	2	1	106	1	0	0	0	0	0	0	0	1	1689	581	21	3		3	C12orf43	12	121448636	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	1	121448636	12403259	158	38950	729	2								
NBEA	26960	broad.mit.edu	37	chr13	35770415	35770415	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agaaacacaagctattcttcCtatgcagtttcattcctttg	5	10	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr13:35770415C>A	uc001uvb.2	+	31	5548	c.5342C>A	c.(5341-5343)CCT>CAT	p.P1781H	NBEA_uc010abi.2_Missense_Mutation_p.P437H	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1781						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GCTATTCTTCCTATGCAGTTT	0.368													5	59	---	---	---	---	PASS	A	35770415	A	A	35770415	3	1	106	1	0	0	0	0	1	0	0	0	10187	681	24	3	5464	3	NBEA	13	35770415	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08		35770415	79399463	159	38951										
PSMC6	5706	broad.mit.edu	37	chr14	53185722	53185722	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tcggttttctgagggtacttCagctgacagagagattcaga	12	7	3	5			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:53185722C>T	uc010tqx.1	+	10	785	c.785C>T	c.(784-786)TCA>TTA	p.S262L	PSMC6_uc001wzy.2_5'Flank	NM_002806	NP_002797	P62333	PRS10_HUMAN	proteasome 26S ATPase subunit 6	248					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding, bridging			lung(1)	1	Breast(41;0.176)					GAGGGTACTTCAGCTGACAGA	0.348													5	71	---	---	---	---	PASS	T	53185722	T	T	53185722	3	4	106	1	0	0	0	0	1	0	0	0	12691	838	29	2	823	2	PSMC6	14	53185722	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08		53185722	54163818	160	38952										
PLEK2	26499	broad.mit.edu	37	chr14	67854081	67854081	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gatagcttcaatccactcggCtcgctcagccttgctgctgg	10	14	2	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:67854081C>T	uc001xjh.1	-	9	1079	c.1027G>A	c.(1027-1029)GCC>ACC	p.A343T		NM_016445	NP_057529	Q9NYT0	PLEK2_HUMAN	pleckstrin 2	343	PH 2.				actin cytoskeleton organization|intracellular signal transduction	cytoplasm|cytoskeleton|lamellipodium membrane				ovary(1)|pancreas(1)	2				all cancers(60;0.000728)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.00953)		ATCCACTCGGCTCGCTCAGCC	0.488													5	79	---	---	---	---	PASS	T	67854081	T	T	67854081	3	4	106	1	0	0	0	0	1	0	0	0	12054	797	28	3	38	3	PLEK2	14	67854081	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	14668359	67854081	39495459	161	38953										
RBM25	58517	broad.mit.edu	37	chr14	73577735	73577735	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tccatctgtttcctctgccaGtggcaatgcaacacctaaca	6	14	2	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:73577735G>T	uc001xno.2	+	15	2097	c.1889G>T	c.(1888-1890)AGT>ATT	p.S630I	RBM25_uc010ttu.1_Missense_Mutation_p.S630I|RBM25_uc001xnp.2_Missense_Mutation_p.S425I	NM_021239	NP_067062	P49756	RBM25_HUMAN	RNA binding motif protein 25	630	Necessary for nuclear speckle localization.				apoptosis|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|RNA splicing	cytoplasm|nuclear speck	mRNA binding|nucleotide binding|protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)		TCCTCTGCCAGTGGCAATGCA	0.483													4	30	---	---	---	---	PASS	T	73577735	T	T	73577735	3	4	106	1	0	0	0	0	1	0	0	0	13125	1029	36	3	1943	3	RBM25	14	73577735	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	5723654	73577735	33771805	162	38954										
YLPM1	56252	broad.mit.edu	37	chr14	75269258	75269258	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gtcaattttatttgtttgcaGggaacagaaagaacagcttc	9	6	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:75269258G>A	uc001xqj.3	+	6	4525	c.4401_splice	c.e6-1	p.R1467_splice	YLPM1_uc001xql.3_Splice_Site	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		TTTGTTTGCAGGGAACAGAAA	0.358													4	67	---	---	---	---	PASS	A	75269258	A	A	75269258	5	1	106	1	0	0	0	0	0	0	1	0	17483	1014	35	3	4422	3	YLPM1	14	75269258	Splice_Site	SNP	G	TCGA-46-3767-01A-01D-0983-08	1691523	75269258	32080282	163	38955										
KIAA1737	85457	broad.mit.edu	37	chr14	77579782	77579782	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cttcagggcagcagctcatcCcagctccagtcgtggactgt	11	14	2	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:77579782C>G	uc001xtd.2	+	4	500	c.321C>G	c.(319-321)TCC>TCG	p.S107S	KIAA1737_uc001xtc.1_Silent_p.S9S	NM_033426	NP_219494	Q9C0C6	K1737_HUMAN	KIAA1737 protein	107	Poly-Ser.										0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		GCAGCTCATCCCAGCTCCAGT	0.517													5	55	---	---	---	---	PASS	G	77579782	G	G	77579782	2	3	106	1	0	0	0	0	0	0	0	1	8255	610	22	4		4	KIAA1737	14	77579782	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	2310524	77579782	29769758	164	38956										
DLK1	8788	broad.mit.edu	37	chr14	101200491	101200491	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cctgttgtgttgcagctcccCctgccagcacggaggcacct	11	16	0	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:101200491C>T	uc001yhs.3	+	5	563	c.410C>T	c.(409-411)CCC>CTC	p.P137L	DLK1_uc001yhu.3_Missense_Mutation_p.P137L	NM_003836	NP_003827	P80370	DLK1_HUMAN	delta-like 1 homolog precursor	137	Extracellular (Potential).|EGF-like 4.				multicellular organismal development	extracellular space|integral to membrane|soluble fraction				ovary(2)|breast(1)|skin(1)	4		Melanoma(154;0.155)				TGCAGCTCCCCCTGCCAGCAC	0.647													4	24	---	---	---	---	PASS	T	101200491	T	T	101200491	3	4	106	1	0	0	0	0	1	0	0	0	4564	623	22	3	428	3	DLK1	14	101200491	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	23620709	101200491	6149049	165	38957										
RTL1	388015	broad.mit.edu	37	chr14	101348215	101348215	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gaagtgggagaagaagaagaCccaatgcccggggagaagta	16	6	0	5			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:101348215C>T	uc010txj.1	-	1	2970	c.2911G>A	c.(2911-2913)GTC>ATC	p.V971I	MIR433_hsa-mir-433|MI0001723_5'Flank|uc001yig.3_5'Flank|MIR127_hsa-mir-127|MI0000472_5'Flank|MIR432_hsa-mir-432|MI0003133_5'Flank|uc010txk.1_5'Flank|MIR136_hsa-mir-136|MI0000475_5'Flank	NM_001134888	NP_001128360	A6NKG5	RTL1_HUMAN	retrotransposon-like 1	971										pancreas(1)	1						AAGAAGAAGACCCAATGCCCG	0.557													14	120	---	---	---	---	PASS	T	101348215	T	T	101348215	3	4	106	1	0	0	0	0	1	0	0	0	13724	507	18	3	1169	3	RTL1	14	101348215	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	147724	101348215	6001325	166	38958										
AKT1	207	broad.mit.edu	37	chr14	105246551	105246551	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ccgccaggtcttgatgtactCccctacagacgtgcgggtgg	13	13	1	2	rs34409589		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:105246551C>T	uc001ypk.2	-	3	603	c.49G>A	c.(49-51)GAG>AAG	p.E17K	INF2_uc010tyi.1_Intron|AKT1_uc001ypl.2_Missense_Mutation_p.E17K|AKT1_uc010axa.2_Missense_Mutation_p.E17K|AKT1_uc001ypm.2_Missense_Mutation_p.E17K|AKT1_uc001ypn.2_Missense_Mutation_p.E17K|AKT1_uc010tyk.1_5'Flank	NM_005163	NP_005154	P31749	AKT1_HUMAN	AKT1 kinase	17	PH.		E -> K (in breast cancer; also detected in colorectal and ovarian cancer; somatic mutation; alters the PH domain conformation; results in activation of the protein; alters the subcellular location of the protein to the plasma membrane).	E->K: Increase in basal ubiquitination, phosphorylation at T-308 and important increase in membrane recruitment. Decrease in ubiquitination, phosphorylation at T-308 as well as impaired association with the membrane; when associated with R-8.	activation of pro-apoptotic gene products|activation-induced cell death of T cells|endocrine pancreas development|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen biosynthetic process|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|mRNA metabolic process|negative regulation of fatty acid beta-oxidation|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|nitric oxide biosynthetic process|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of blood vessel endothelial cell migration|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of establishment of protein localization in plasma membrane|positive regulation of fat cell differentiation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|positive regulation of nitric oxide biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|protein autophosphorylation|protein import into nucleus, translocation|regulation of neuron projection development|regulation of translation|response to fluid shear stress|response to heat|response to UV-A|T cell costimulation	cytosol|nucleoplasm|plasma membrane	enzyme binding|identical protein binding|nitric-oxide synthase regulator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein serine/threonine kinase activity	p.E17K(126)		breast(86)|urinary_tract(12)|thyroid(10)|lung(7)|endometrium(5)|large_intestine(4)|skin(4)|prostate(3)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|NS(1)	134		all_cancers(154;3.77e-06)|all_lung(585;3.24e-07)|all_epithelial(191;3.45e-05)|all_neural(303;0.0459)|Melanoma(154;0.155)	all cancers(16;0.000486)|OV - Ovarian serous cystadenocarcinoma(23;0.00647)|Epithelial(46;0.0153)|GBM - Glioblastoma multiforme(11;0.116)	all cancers(159;0.0107)|OV - Ovarian serous cystadenocarcinoma(161;0.0132)|Epithelial(152;0.243)	Adenosine triphosphate(DB00171)|Arsenic trioxide(DB01169)	TTGATGTACTCCCCTACAGAC	0.612	E17K(KU1919_URINARY_TRACT)	1	Mis		breast|colorectal|ovarian|NSCLC								4	21	---	---	---	---	PASS	T	105246551	T	T	105246551	3	4	106	1	0	0	0	0	1	0	0	0	478	864	30	2	1441	2	AKT1	14	105246551	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	3898336	105246551	2102989	167	38959										
OR4M2	390538	broad.mit.edu	37	chr15	22368589	22368589	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgaagaaatggaaactgcaaAttacaccaaggtgacagaat	9	6	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:22368589A>C	uc010tzu.1	+	1	14	c.14A>C	c.(13-15)AAT>ACT	p.N5T	LOC727924_uc001yua.2_RNA|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	5	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GAAACTGCAAATTACACCAAG	0.328													5	132	---	---	---	---	PASS	C	22368589	C	C	22368589	3	2	106	1	0	0	0	0	1	0	0	0	11076	101	4	5	16	5	OR4M2	15	22368589	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08		22368589	80162803	168	38960										
OR4N4	283694	broad.mit.edu	37	chr15	22382889	22382889	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tcaactgtcatgaaccctagAgcctgctatgcaatgatgtt	8	10	2	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:22382889A>T	uc001yuc.1	+	7	1398	c.417A>T	c.(415-417)AGA>AGT	p.R139S	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.R139S	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TGAACCCTAGAGCCTGCTATG	0.542													6	81	---	---	---	---	PASS	T	22382889	T	T	22382889	3	4	106	1	0	0	0	0	1	0	0	0	11078	301	11	5	419	5	OR4N4	15	22382889	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	14300	22382889	80148503	169	38961										
GABRB3	2562	broad.mit.edu	37	chr15	26866631	26866631	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agagggatcccagaataggcGagccttttatctctccaata	9	10	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:26866631G>C	uc001zaz.2	-	4	433	c.291C>G	c.(289-291)CTC>CTG	p.L97L	GABRB3_uc010uae.1_Silent_p.L12L|GABRB3_uc001zba.2_Silent_p.L97L|GABRB3_uc001zbb.2_Silent_p.L153L|GABRB3_uc001zbc.2_RNA	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	97	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	CAGAATAGGCGAGCCTTTTAT	0.428													3	32	---	---	---	---	PASS	C	26866631	C	C	26866631	2	2	106	1	0	0	0	0	0	0	0	1	6168	1045	37	2		2	GABRB3	15	26866631	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	4483742	26866631	75664761	170	38962										
OCA2	4948	broad.mit.edu	37	chr15	28235745	28235745	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gccaatcacagccagtgctgCcagtgctgcaagggaaccca	11	14	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:28235745C>A	uc001zbh.3	-	10	1203	c.1093G>T	c.(1093-1095)GCA>TCA	p.A365S	OCA2_uc010ayv.2_Intron	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	365	Helical; (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		GCCAGTGCTGCCAGTGCTGCA	0.537									Oculocutaneous_Albinism				11	110	---	---	---	---	PASS	A	28235745	A	A	28235745	3	1	106	1	0	0	0	0	1	0	0	0	10815	739	26	3	1483	3	OCA2	15	28235745	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	1369114	28235745	74295647	171	38963										
C15orf55	256646	broad.mit.edu	37	chr15	34648683	34648683	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cacagttgcggcagctgcccTagaaaagagaaactattgca	10	10	0	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:34648683T>A	uc001zif.2	+	7	2545	c.2390T>A	c.(2389-2391)CTA>CAA	p.L797Q	C15orf55_uc010ucc.1_Missense_Mutation_p.L825Q|C15orf55_uc010ucd.1_Missense_Mutation_p.L815Q	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	797						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		GCAGCTGCCCTAGAAAAGAGA	0.542			T	BRD3|BRD4	lethal midline carcinoma								9	43	---	---	---	---	PASS	A	34648683	A	A	34648683	3	1	106	1	0	0	0	0	1	0	0	0	1803	1522	53	5	2416	5	C15orf55	15	34648683	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	6412938	34648683	67882709	172	38964										
PLA2G4D	283748	broad.mit.edu	37	chr15	42378498	42378498	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	accttgaagcagatgtcatcCtccgtgactgagtcctcatc	8	13	2	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:42378498C>T	uc001zox.2	-	4	395	c.300G>A	c.(298-300)GAG>GAA	p.E100E		NM_178034	NP_828848	Q86XP0	PA24D_HUMAN	phospholipase A2, group IVD	100	C2.				phospholipid catabolic process	cytoplasmic vesicle membrane|cytosol	metal ion binding|phospholipase A2 activity			large_intestine(1)|skin(1)	2		all_cancers(109;6.37e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.019)|Ovarian(310;0.143)|Colorectal(260;0.245)		OV - Ovarian serous cystadenocarcinoma(18;4.9e-17)|GBM - Glioblastoma multiforme(94;1.02e-06)		AGATGTCATCCTCCGTGACTG	0.512													10	40	---	---	---	---	PASS	T	42378498	T	T	42378498	2	4	106	1	0	0	0	0	0	0	0	1	12004	680	24	3		3	PLA2G4D	15	42378498	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	7729815	42378498	60152894	173	38965										
ANKDD1A	348094	broad.mit.edu	37	chr15	65219162	65219162	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctggatgctctggacttcctCgtgggctctggctgtgacca	13	12	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:65219162C>A	uc002aoa.2	+	6	563	c.534C>A	c.(532-534)CTC>CTA	p.L178L	ANKDD1A_uc002anx.1_Silent_p.L174L|ANKDD1A_uc002any.2_Silent_p.L87L|ANKDD1A_uc002anz.2_Silent_p.L87L|ANKDD1A_uc002aob.2_Intron|ANKDD1A_uc002aoc.2_RNA|ANKDD1A_uc010bha.2_Silent_p.L87L	NM_182703	NP_874362	Q495B1	AKD1A_HUMAN	ankyrin repeat and death domain containing 1A	178	ANK 5.				signal transduction					ovary(1)	1						TGGACTTCCTCGTGGGCTCTG	0.612													4	60	---	---	---	---	PASS	A	65219162	A	A	65219162	2	1	106	1	0	0	0	0	0	0	0	1	624	871	31	2		2	ANKDD1A	15	65219162	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	22840664	65219162	37312230	174	38966										
TSPAN3	10099	broad.mit.edu	37	chr15	77348510	77348510	+	Missense_Mutation	SNP	G	C	C													0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gatcactacagcagggatgaGcgtgtacacatcttcaaaga							TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:77348510G>C	uc002bcj.2	-	2	368	c.151C>G	c.(151-153)CTC>GTC	p.L51V	TSPAN3_uc002bck.2_Missense_Mutation_p.L51V|TSPAN3_uc010ump.1_Intron|TSPAN3_uc010bkx.2_Intron	NM_005724	NP_005715	O60637	TSN3_HUMAN	transmembrane 4 superfamily member 8 isoform 1	51	Helical; (Potential).					integral to membrane					0				all cancers(203;1.14e-19)		GCAGGGATGAGCGTGTACACA	0.478													7	123	---	---	---	---	PASS	C	77348510	C	C	77348510	3	2	106	1	0	0	0	0	1	0	0	0	16642	971	34	4	634	4	TSPAN3	15	77348510	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	12129348	77348510	25182882	175	38967	730	2								
TSPAN3	10099	broad.mit.edu	37	chr15	77348511	77348511	+	Silent	SNP	C	A	A													0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	atcactacagcagggatgagCgtgtacacatcttcaaagaa							TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:77348511C>A	uc002bcj.2	-	2	367	c.150G>T	c.(148-150)ACG>ACT	p.T50T	TSPAN3_uc002bck.2_Silent_p.T50T|TSPAN3_uc010ump.1_Intron|TSPAN3_uc010bkx.2_Intron	NM_005724	NP_005715	O60637	TSN3_HUMAN	transmembrane 4 superfamily member 8 isoform 1	50	Extracellular (Potential).					integral to membrane					0				all cancers(203;1.14e-19)		CAGGGATGAGCGTGTACACAT	0.473													7	123	---	---	---	---	PASS	A	77348511	A	A	77348511	2	1	106	1	0	0	0	0	0	0	0	1	16642	755	27	1		1	TSPAN3	15	77348511	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	1	77348511	25182881	176	38968	730	2								
SLC28A1	9154	broad.mit.edu	37	chr15	85438170	85438170	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctcctctgtctcatcccccaGggctctctgccttcctgctg	7	19	3	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:85438170G>T	uc002blg.2	+	6	480	c.278_splice	c.e6-1	p.G93_splice	SLC28A1_uc010upd.1_Splice_Site_p.G15_splice|SLC28A1_uc010bnb.2_Splice_Site_p.G93_splice|SLC28A1_uc010upe.1_Splice_Site_p.G93_splice|SLC28A1_uc010upf.1_Splice_Site_p.G93_splice|SLC28A1_uc010upg.1_Splice_Site_p.G93_splice|SLC28A1_uc002blf.2_Splice_Site_p.G93_splice	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1						nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			TCATCCCCCAGGGCTCTCTGC	0.647													18	41	---	---	---	---	PASS	T	85438170	T	T	85438170	5	4	106	1	0	0	0	0	0	0	1	0	14531	1014	35	3	291	3	SLC28A1	15	85438170	Splice_Site	SNP	G	TCGA-46-3767-01A-01D-0983-08	8089659	85438170	17093222	177	38969										
PRR25	388199	broad.mit.edu	37	chr16	863772	863772	+	Frame_Shift_Del	DEL	G	-	-													0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cctgccctgggcggatccccGgggccgcgcggttcgggccg							TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:863772delG	uc010uut.1	+	3	1120	c.1120delG	c.(1120-1122)GGGfs	p.G374fs		NM_001013638	NP_001013660	Q96S07	PRR25_HUMAN	proline rich 25	374										large_intestine(1)	1						GCGGATCCCCGGGGCCGCGCG	0.796													4	2	---	---	---	---		-	863772	-	-	863772	7	5	106	1	0	1	0	1	0	0	0	0	12597	1116	39	0	1130	0	PRR25	16	863772	Frame_Shift_Del	DEL	G	TCGA-46-3767-01A-01D-0983-08		863772	89490981	178	38970										
PAQR4	124222	broad.mit.edu	37	chr16	3021766	3021766	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctgcgcatggacgcactggcGctgcttgggggactggtaaa	16	10	0	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:3021766G>A	uc002csj.3	+	3	973	c.639G>A	c.(637-639)GCG>GCA	p.A213A	PAQR4_uc002csk.3_Silent_p.A174A|PAQR4_uc002csl.3_Silent_p.A139A|PAQR4_uc010uwm.1_Silent_p.A144A	NM_152341	NP_689554	Q8N4S7	PAQR4_HUMAN	progestin and adipoQ receptor family member IV	213						integral to membrane	receptor activity				0						ACGCACTGGCGCTGCTTGGGG	0.657													5	29	---	---	---	---	PASS	A	3021766	A	A	3021766	2	1	106	1	0	0	0	0	0	0	0	1	11437	1074	38	1		1	PAQR4	16	3021766	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	2157994	3021766	87332987	179	38971										
CREBBP	1387	broad.mit.edu	37	chr16	3832794	3832794	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tggttcatgtaggggagtccGagagcagcataggctcgctg	16	8	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:3832794G>T	uc002cvv.2	-	6	1668	c.1464C>A	c.(1462-1464)CTC>CTA	p.L488L	CREBBP_uc002cvw.2_Silent_p.L450L	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	488					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		AGGGGAGTCCGAGAGCAGCAT	0.557			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				4	51	---	---	---	---	PASS	T	3832794	T	T	3832794	2	4	106	1	0	0	0	0	0	0	0	1	3861	1045	37	2		2	CREBBP	16	3832794	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	811028	3832794	86521959	180	38972										
GP2	2813	broad.mit.edu	37	chr16	20329643	20329643	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cacatacagcacggactcaaCagacagttcaactgcatccc	6	15	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:20329643C>A	uc002dgv.2	-	8	1209	c.1126G>T	c.(1126-1128)GTT>TTT	p.V376F	GP2_uc002dgw.2_Missense_Mutation_p.V373F|GP2_uc002dgx.2_Missense_Mutation_p.V229F|GP2_uc002dgy.2_Missense_Mutation_p.V226F	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	376	ZP.					anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						ACGGACTCAACAGACAGTTCA	0.527													23	128	---	---	---	---	PASS	A	20329643	A	A	20329643	3	1	106	1	0	0	0	0	1	0	0	0	6582	478	17	3	507	3	GP2	16	20329643	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	16496849	20329643	70025110	181	38973										
ACSM1	116285	broad.mit.edu	37	chr16	20682918	20682918	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gccatcttggggaagcctgtGgtcccactggtgaagaagat	14	9	1	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:20682918G>A	uc002dhm.1	-	4	755	c.687C>T	c.(685-687)ACC>ACT	p.T229T	ACSM1_uc002dhn.1_RNA|ACSM1_uc010bwg.1_Silent_p.T229T	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	229	ATP (By similarity).				benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						GGAAGCCTGTGGTCCCACTGG	0.532													9	47	---	---	---	---	PASS	A	20682918	A	A	20682918	2	1	106	1	0	0	0	0	0	0	0	1	182	1335	47	3		3	ACSM1	16	20682918	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	353275	20682918	69671835	182	38974										
KIAA0556	23247	broad.mit.edu	37	chr16	27789275	27789275	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ccaacgcgaaacggaagcagAgcgttgttgacccaggtcag	13	11	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:27789275A>C	uc002dow.2	+	27	4810	c.4786A>C	c.(4786-4788)AGC>CGC	p.S1596R	KIAA0556_uc010vco.1_Missense_Mutation_p.S98R	NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	1596										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						ACGGAAGCAGAGCGTTGTTGA	0.512													8	66	---	---	---	---	PASS	C	27789275	C	C	27789275	3	2	106	1	0	0	0	0	1	0	0	0	8183	304	11	5	4892	5	KIAA0556	16	27789275	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	7106357	27789275	62565478	183	38975										
MYLK3	91807	broad.mit.edu	37	chr16	46782053	46782053	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tggttgttaagcaggtcttgCccaaccctggcagcccccca	10	15	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:46782053C>A	uc002eei.3	-	1	169	c.53G>T	c.(52-54)GGC>GTC	p.G18V	MYLK3_uc010vge.1_Intron	NM_182493	NP_872299	Q32MK0	MYLK3_HUMAN	myosin light chain kinase 3	18					cardiac myofibril assembly|cellular response to interleukin-1|positive regulation of sarcomere organization|regulation of vascular permeability involved in acute inflammatory response|sarcomere organization|sarcomerogenesis	cytosol	ATP binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			stomach(2)|skin(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	7		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				GCAGGTCTTGCCCAACCCTGG	0.562													11	38	---	---	---	---	PASS	A	46782053	A	A	46782053	3	1	106	1	0	0	0	0	1	0	0	0	10058	739	26	3	2458	3	MYLK3	16	46782053	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	18992778	46782053	43572700	184	38976										
DPEP3	64180	broad.mit.edu	37	chr16	68010022	68010022	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cacttgtctgaagacccgcaGcaggtttccacgaaggacac	10	13	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:68010022G>T	uc002evc.3	-	9	1373	c.1279C>A	c.(1279-1281)CTG>ATG	p.L427M	DPEP3_uc010cex.2_Missense_Mutation_p.L426M	NM_022357	NP_071752	Q9H4B8	DPEP3_HUMAN	dipeptidase 3 isoform a	402					meiosis	anchored to membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			breast(3)	3		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0117)|Epithelial(162;0.0481)|all cancers(182;0.236)		AAGACCCGCAGCAGGTTTCCA	0.562													29	187	---	---	---	---	PASS	T	68010022	T	T	68010022	3	4	106	1	0	0	0	0	1	0	0	0	4715	962	34	3	270	3	DPEP3	16	68010022	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	21227969	68010022	22344731	185	38977										
ADAT1	23536	broad.mit.edu	37	chr16	75634194	75634194	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gagtgtgctccaggcttcctGgtaagaggacgcagcctcct	13	12	0	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:75634194G>T	uc002feo.1	-	11	1531	c.1429C>A	c.(1429-1431)CAG>AAG	p.Q477K	ADAT1_uc002fep.1_Missense_Mutation_p.Q328K	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	477	A to I editase.				tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						CAGGCTTCCTGGTAAGAGGAC	0.512													5	70	---	---	---	---	PASS	T	75634194	T	T	75634194	3	4	106	1	0	0	0	0	1	0	0	0	284	1357	47	3	83	3	ADAT1	16	75634194	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	7624172	75634194	14720559	186	38978										
TUSC5	286753	broad.mit.edu	37	chr17	1183600	1183600	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ccaagaccaagaagcccccaGagattacctcatcctggccg	8	16	1	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:1183600G>C	uc002fsi.1	+	1	644	c.305G>C	c.(304-306)AGA>ACA	p.R102T		NM_172367	NP_758955	Q8IXB3	TUSC5_HUMAN	LOST1	102					response to biotic stimulus	integral to membrane				skin(2)	2				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GAAGCCCCCAGAGATTACCTC	0.627													6	31	---	---	---	---	PASS	C	1183600	C	C	1183600	3	2	106	1	0	0	0	0	1	0	0	0	16776	942	33	2	307	2	TUSC5	17	1183600	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08		1183600	80011610	187	38979										
SERPINF2	5345	broad.mit.edu	37	chr17	1657687	1657687	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agtgcaccgcgggagctcaaGgaacagcaggattccccggg	15	12	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:1657687G>T	uc002ftk.1	+	10	1412	c.1335G>T	c.(1333-1335)AAG>AAT	p.K445N	SERPINF2_uc010vqr.1_Missense_Mutation_p.K381N	NM_000934	NP_000925	P08697	A2AP_HUMAN	alpha-2-antiplasmin isoform a precursor	445					acute-phase response|fibrinolysis|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)	Streptokinase(DB00086)	GGGAGCTCAAGGAACAGCAGG	0.607													6	69	---	---	---	---	PASS	T	1657687	T	T	1657687	3	4	106	1	0	0	0	0	1	0	0	0	14115	991	35	3	1379	3	SERPINF2	17	1657687	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	474087	1657687	79537523	188	38980										
TP53	7157	broad.mit.edu	37	chr17	7578271	7578271	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ttccttccactcggataagaTgctgaggaggggccagacct	12	11	0	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:7578271T>C	uc002gim.2	-	6	772	c.578A>G	c.(577-579)CAT>CGT	p.H193R	TP53_uc002gig.1_Missense_Mutation_p.H193R|TP53_uc002gih.2_Missense_Mutation_p.H193R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H61R|TP53_uc010cng.1_Missense_Mutation_p.H61R|TP53_uc002gii.1_Missense_Mutation_p.H61R|TP53_uc010cnh.1_Missense_Mutation_p.H193R|TP53_uc010cni.1_Missense_Mutation_p.H193R|TP53_uc002gij.2_Missense_Mutation_p.H193R|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.H100R|TP53_uc002gio.2_Missense_Mutation_p.H61R|TP53_uc010vug.1_Missense_Mutation_p.H154R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	193	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		H -> D (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> Y (in sporadic cancers; somatic mutation).|QH -> HN (in a sporadic cancer; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|QH -> HY (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> R (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H193R(67)|p.H193L(31)|p.H193Y(26)|p.H193P(12)|p.0?(7)|p.H193D(7)|p.H193N(4)|p.A189_V197delAPPQHLIRV(4)|p.H193fs*16(3)|p.H193H(2)|p.P191fs*53(2)|p.K164_P219del(1)|p.P191fs*15(1)|p.P191fs*6(1)|p.H100L(1)|p.H61L(1)|p.H193_I195delHLI(1)|p.H193_I195>AP(1)|p.A189fs*53(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TCGGATAAGATGCTGAGGAGG	0.562		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			5	16	---	---	---	---	PASS	C	7578271	C	C	7578271	3	2	106	1	0	0	0	0	1	0	0	0	16378	1464	51	5	716	5	TP53	17	7578271	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	5920584	7578271	73616939	189	38981										
MYH13	8735	broad.mit.edu	37	chr17	10216043	10216043	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cgccgtctccgtgttctcctCtgcttcctggagcctctggg	11	16	4	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:10216043C>A	uc002gmk.1	-	31	4303	c.4213G>T	c.(4213-4215)GAG>TAG	p.E1405*		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1405	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GTGTTCTCCTCTGCTTCCTGG	0.517													7	21	---	---	---	---	PASS	A	10216043	A	A	10216043	4	1	106	1	0	0	0	0	0	1	0	0	10032	922	32	2	1647	2	MYH13	17	10216043	Nonsense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	2637772	10216043	70979167	190	38982										
MYH2	4620	broad.mit.edu	37	chr17	10443358	10443358	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tggagaccttttcttcattaGtaaagcccaaaatatcaata	5	8	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:10443358G>T	uc010coi.2	-	12	1162	c.1034C>A	c.(1033-1035)ACT>AAT	p.T345N	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.T345N|MYH2_uc010coj.2_Missense_Mutation_p.T345N	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	345	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TTCTTCATTAGTAAAGCCCAA	0.418													16	79	---	---	---	---	PASS	T	10443358	T	T	10443358	3	4	106	1	0	0	0	0	1	0	0	0	10035	1029	36	3	4907	3	MYH2	17	10443358	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	227315	10443358	70751852	191	38983										
TEKT3	64518	broad.mit.edu	37	chr17	15207316	15207316	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cgcatgctcatgcatttttcCtggtcgatgtacagggaatt	10	9	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:15207316C>G	uc002gon.2	-	9	1597	c.1410G>C	c.(1408-1410)CAG>CAC	p.Q470H		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	470					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		TGCATTTTTCCTGGTCGATGT	0.562													8	34	---	---	---	---	PASS	G	15207316	G	G	15207316	3	3	106	1	0	0	0	0	1	0	0	0	15751	680	24	4	66	4	TEKT3	17	15207316	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	4763958	15207316	65987894	192	38984										
ATAD5	79915	broad.mit.edu	37	chr17	29162429	29162429	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	taggaagagatgataattctAaaaaaatcatggaaaattct	7	3	3	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:29162429A>T	uc002hfs.1	+	2	1676	c.1330A>T	c.(1330-1332)AAA>TAA	p.K444*	ATAD5_uc002hft.1_Nonsense_Mutation_p.K341*	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	444					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				TGATAATTCTAAAAAAATCAT	0.294													9	27	---	---	---	---	PASS	T	29162429	T	T	29162429	4	4	106	1	0	0	0	0	0	1	0	0	1076	363	13	5	1336	5	ATAD5	17	29162429	Nonsense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	13955113	29162429	52032781	193	38985										
ITGA2B	3674	broad.mit.edu	37	chr17	42463236	42463236	+	Frame_Shift_Del	DEL	G	-	-													0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gaccgacgcccccagtccttGgcgggccttgaaggtttgta							TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:42463236delG	uc002igt.1	-	3	396	c.364delC	c.(364-366)CAAfs	p.Q122fs		NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	122	Extracellular (Potential).|FG-GAP 2.				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	CCCAGTCCTTGGCGGGCCTTG	0.642													4	2	---	---	---	---		-	42463236	-	-	42463236	7	5	106	1	0	1	0	1	0	0	0	0	7876	1357	47	0	2867	0	ITGA2B	17	42463236	Frame_Shift_Del	DEL	G	TCGA-46-3767-01A-01D-0983-08	13300807	42463236	38731974	194	38986										
FZD2	2535	broad.mit.edu	37	chr17	42636019	42636019	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	taccgcacggtggtgcagggCaccaagaaggagggctgcac	16	11	0	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:42636019C>T	uc002igx.1	+	1	1095	c.963C>T	c.(961-963)GGC>GGT	p.G321G		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	321	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		TGGTGCAGGGCACCAAGAAGG	0.617													14	30	---	---	---	---	PASS	T	42636019	T	T	42636019	2	4	106	1	0	0	0	0	0	0	0	1	6130	697	25	3		3	FZD2	17	42636019	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	172783	42636019	38559191	195	38987										
HOXB2	3212	broad.mit.edu	37	chr17	46622226	46622226	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gtcagacactcggcgagcgaCggctggctgtttataaaccc	12	12	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:46622226C>A	uc002inm.2	-	1	168	c.48G>T	c.(46-48)CCG>CCT	p.P16P		NM_002145	NP_002136	P14652	HXB2_HUMAN	homeobox B2	16					blood circulation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CGGCGAGCGACGGCTGGCTGT	0.527													11	32	---	---	---	---	PASS	A	46622226	A	A	46622226	2	1	106	1	0	0	0	0	0	0	0	1	7301	523	19	1		1	HOXB2	17	46622226	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	3986207	46622226	34572984	196	38988										
BPTF	2186	broad.mit.edu	37	chr17	65871037	65871037	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agactgagaatgactctaaaGatgctgagaaaaacagagaa	10	5	1	6			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:65871037G>C	uc002jgf.2	+	4	1826	c.1765G>C	c.(1765-1767)GAT>CAT	p.D589H	BPTF_uc002jge.2_Missense_Mutation_p.D589H|BPTF_uc010wqm.1_Missense_Mutation_p.D589H	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TGACTCTAAAGATGCTGAGAA	0.388													5	184	---	---	---	---	PASS	C	65871037	C	C	65871037	3	2	106	1	0	0	0	0	1	0	0	0	1495	942	33	2	1779	2	BPTF	17	65871037	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	19248811	65871037	15324173	197	38989										
TNRC6C	57690	broad.mit.edu	37	chr17	76099517	76099517	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgatggttctacactgcggaCattgtgtttgcaacatgggc	12	8	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:76099517C>T	uc002jud.2	+	20	5195	c.4595C>T	c.(4594-4596)ACA>ATA	p.T1532I	TNRC6C_uc002juf.2_Missense_Mutation_p.T1568I	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	1532	Sufficient for translational repression when tethered to a target mRNA.				gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			ACACTGCGGACATTGTGTTTG	0.473													10	34	---	---	---	---	PASS	T	76099517	T	T	76099517	3	4	106	1	0	0	0	0	1	0	0	0	16339	478	17	3	4782	3	TNRC6C	17	76099517	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	10228480	76099517	5095693	198	38990										
ARHGAP28	79822	broad.mit.edu	37	chr18	6873571	6873571	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aacagagaaagtaaaaggacGaggtaactaagaagactgat	11	4	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr18:6873571G>T	uc010wzi.1	+	7	825	c.587G>T	c.(586-588)CGA>CTA	p.R196L	ARHGAP28_uc002knc.2_Missense_Mutation_p.R321L|ARHGAP28_uc002knd.2_Missense_Mutation_p.R214L|ARHGAP28_uc002kne.2_Missense_Mutation_p.R214L|ARHGAP28_uc002knf.2_Missense_Mutation_p.R205L			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	196					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				GTAAAAGGACGAGGTAACTAA	0.358													6	94	---	---	---	---	PASS	T	6873571	T	T	6873571	3	4	106	1	0	0	0	0	1	0	0	0	877	1058	37	2	663	2	ARHGAP28	18	6873571	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08		6873571	71203677	199	38991										
PPP4R1	9989	broad.mit.edu	37	chr18	9557344	9557344	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tccaagaataactgcaagctCgtggatggagaatgctagag	12	7	0	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr18:9557344C>A	uc002koe.1	-	15	2183	c.2065G>T	c.(2065-2067)GAG>TAG	p.E689*	PPP4R1_uc002kof.2_Nonsense_Mutation_p.E106*|PPP4R1_uc010wzo.1_Nonsense_Mutation_p.E535*|PPP4R1_uc002kod.1_Nonsense_Mutation_p.E672*	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	689					protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						ACTGCAAGCTCGTGGATGGAG	0.398													4	118	---	---	---	---	PASS	A	9557344	A	A	9557344	4	1	106	1	0	0	0	0	0	1	0	0	12403	893	31	2	811	2	PPP4R1	18	9557344	Nonsense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	2683773	9557344	68519904	200	38992										
ASXL3	80816	broad.mit.edu	37	chr18	31323945	31323945	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgagaagatagccatacctgGgagtgaagaacaggccactg	13	8	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr18:31323945G>T	uc010dmg.1	+	12	4188	c.4133G>T	c.(4132-4134)GGG>GTG	p.G1378V	ASXL3_uc002kxq.2_Missense_Mutation_p.G1085V	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1378					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						GCCATACCTGGGAGTGAAGAA	0.502											OREG0024911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	103	---	---	---	---	PASS	T	31323945	T	T	31323945	3	4	106	1	0	0	0	0	1	0	0	0	1068	1232	43	3	4179	3	ASXL3	18	31323945	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	21766601	31323945	46753303	201	38993										
GALNT1	2589	broad.mit.edu	37	chr18	33283583	33283583	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgccaccacctaaaaggcaaCcaactctgggagtatgaccc	8	14	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr18:33283583C>T	uc010dmu.2	+	11	1562	c.1509C>T	c.(1507-1509)AAC>AAT	p.N503N	GALNT1_uc002kyz.3_Silent_p.N443N|GALNT1_uc002kzb.2_Silent_p.N503N	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	503	Lumenal (Potential).|Ricin B-type lectin.				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						TAAAAGGCAACCAACTCTGGG	0.373													7	70	---	---	---	---	PASS	T	33283583	T	T	33283583	2	4	106	1	0	0	0	0	0	0	0	1	6207	506	18	3		3	GALNT1	18	33283583	Silent	SNP	C	TCGA-46-3767-01A-01D-0983-08	1959638	33283583	44793665	202	38994										
C18orf32	497661	broad.mit.edu	37	chr18	47010053	47010053	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gaaaccagagggtatatataTggctccaggaattttttgta	10	5	0	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr18:47010053T>C	uc002ldk.1	-	2	278	c.66A>G	c.(64-66)CCA>CCG	p.P22P	C18orf32_uc002ldl.2_Silent_p.P22P|C18orf32_uc002ldm.1_Missense_Mutation_p.H199R	NM_001035005	NP_001030177	Q8TCD1	CR032_HUMAN	hypothetical protein LOC497661	22					positive regulation of I-kappaB kinase/NF-kappaB cascade		signal transducer activity				0						GGTATATATATGGCTCCAGGA	0.398													10	83	---	---	---	---	PASS	C	47010053	C	C	47010053	2	2	106	1	0	0	0	0	0	0	0	1	1901	1451	51	5		5	C18orf32	18	47010053	Silent	SNP	T	TCGA-46-3767-01A-01D-0983-08	13726470	47010053	31067195	203	38995										
SERPINB4	6318	broad.mit.edu	37	chr18	61328424	61328424	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aacaggtcgaacatgaacttGgtgttggcttcactgagtga	12	7	1	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr18:61328424G>A	uc002ljg.2	-	1	53	c.27C>T	c.(25-27)ACC>ACT	p.T9T	SERPINB3_uc002lji.2_Silent_p.T9T|SERPINB3_uc010dqa.2_Silent_p.T9T|SERPINB3_uc010dqb.2_Silent_p.T9T|SERPINB3_uc010dqc.2_Silent_p.T9T			P48594	SPB4_HUMAN	SubName: Full=Squamous cell carcinoma antigen 2;	9					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						ACATGAACTTGGTGTTGGCTT	0.413													14	115	---	---	---	---	PASS	A	61328424	A	A	61328424	2	1	106	1	0	0	0	0	0	0	0	1	14103	1335	47	3		3	SERPINB4	18	61328424	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	14318371	61328424	16748824	204	38996										
MYO1F	4542	broad.mit.edu	37	chr19	8609217	8609217	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tggatgacgaagccggcgctCcagctgttgaaatgctcgtg	14	10	0	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:8609217C>T	uc002mkg.2	-	14	1602	c.1488G>A	c.(1486-1488)TGG>TGA	p.W496*		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	496	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						AGCCGGCGCTCCAGCTGTTGA	0.677													4	15	---	---	---	---	PASS	T	8609217	T	T	8609217	4	4	106	1	0	0	0	0	0	1	0	0	10073	856	30	2	1868	2	MYO1F	19	8609217	Nonsense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08		8609217	50519766	205	38997										
MUC16	94025	broad.mit.edu	37	chr19	9074998	9074998	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggtttcttccacagagggagGgcttggctgtgatgtatcct	14	8	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:9074998G>T	uc002mkp.2	-	3	12652	c.12448C>A	c.(12448-12450)CCT>ACT	p.P4150T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4152	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACAGAGGGAGGGCTTGGCTGT	0.502													13	74	---	---	---	---	PASS	T	9074998	T	T	9074998	3	4	106	1	0	0	0	0	1	0	0	0	9973	1232	43	3	31403	3	MUC16	19	9074998	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	465781	9074998	50053985	206	38998										
ZNF442	79973	broad.mit.edu	37	chr19	12460784	12460784	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ttcatatggcttctctccagTgtgaatcctttcatggactt	7	10	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:12460784T>G	uc002mtr.1	-	6	2226	c.1615A>C	c.(1615-1617)ACT>CCT	p.T539P	ZNF442_uc010xmk.1_Missense_Mutation_p.T470P	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	539					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						TTCTCTCCAGTGTGAATCCTT	0.383													9	59	---	---	---	---	PASS	G	12460784	G	G	12460784	3	3	106	1	0	0	0	0	1	0	0	0	17912	1696	59	5	272	5	ZNF442	19	12460784	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	3385786	12460784	46668199	207	38999										
PDE4C	5143	broad.mit.edu	37	chr19	18321932	18321932	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	atctgtcaggcccgtcccgcTcggggttggtgaggtctgag	16	11	3	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:18321932T>C	uc010xqc.1	-	15	2426	c.1946A>G	c.(1945-1947)GAG>GGG	p.E649G	PDE4C_uc002nik.3_Missense_Mutation_p.E649G|PDE4C_uc002nil.3_Missense_Mutation_p.E649G|PDE4C_uc002nif.3_Missense_Mutation_p.E418G|PDE4C_uc002nig.3_Missense_Mutation_p.E364G|PDE4C_uc002nih.3_Missense_Mutation_p.E419G|PDE4C_uc010ebk.2_Missense_Mutation_p.E543G|PDE4C_uc002nii.3_Missense_Mutation_p.E617G|PDE4C_uc010ebl.2_Missense_Mutation_p.E363G	NM_001098819	NP_001092289	Q08493	PDE4C_HUMAN	phosphodiesterase 4C isoform PDE4C-2	649					signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|skin(2)|central_nervous_system(1)	5					Dyphylline(DB00651)	CCCGTCCCGCTCGGGGTTGGT	0.443													8	56	---	---	---	---	PASS	C	18321932	C	C	18321932	3	2	106	1	0	0	0	0	1	0	0	0	11641	1551	54	5	196	5	PDE4C	19	18321932	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	5861148	18321932	40807051	208	39000										
SFRS14	10147	broad.mit.edu	37	chr19	19135671	19135671	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gacagcttctaagattttctCctgccggaaagaagaggcca	10	10	2	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:19135671C>A	uc002nkx.2	-	3	1632	c.1486G>T	c.(1486-1488)GAG>TAG	p.E496*	SFRS14_uc002nkz.1_Nonsense_Mutation_p.E510*|SFRS14_uc002nla.1_Nonsense_Mutation_p.E496*|SFRS14_uc002nlb.2_Nonsense_Mutation_p.E496*|SFRS14_uc010xqk.1_Nonsense_Mutation_p.E265*	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	496					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			AAGATTTTCTCCTGCCGGAAA	0.507													7	148	---	---	---	---	PASS	A	19135671	A	A	19135671	4	1	106	1	0	0	0	0	0	1	0	0	14170	864	30	2	1794	2	SFRS14	19	19135671	Nonsense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	813739	19135671	39993312	209	39001										
MAP4K1	11184	broad.mit.edu	37	chr19	39088220	39088220	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aaggatgctatgagaatacaGgtggggggtctttcctgcag	15	6	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:39088220G>A	uc002oix.1	-	23	1792	c.1684C>T	c.(1684-1686)CTG>TTG	p.L562L	MAP4K1_uc002oiw.1_Silent_p.L149L|MAP4K1_uc002oiy.1_Silent_p.L562L|MAP4K1_uc010xug.1_Silent_p.T203T	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	562	CNH.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TGAGAATACAGGTGGGGGGTC	0.552													6	24	---	---	---	---	PASS	A	39088220	A	A	39088220	2	1	106	1	0	0	0	0	0	0	0	1	9259	991	35	3		3	MAP4K1	19	39088220	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	19952549	39088220	20040763	210	39002										
GRIK5	2901	broad.mit.edu	37	chr19	42566697	42566697	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gttgaaggacttgaggattcGggagaccgccaagctgacgt	15	8	0	4			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:42566697G>A	uc002osj.1	-	4	486	c.451C>T	c.(451-453)CGA>TGA	p.R151*	GRIK5_uc010eib.1_Nonsense_Mutation_p.R70*	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	151	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	TTGAGGATTCGGGAGACCGCC	0.577													10	45	---	---	---	---	PASS	A	42566697	A	A	42566697	4	1	106	1	0	0	0	0	0	1	0	0	6777	1124	39	1	2555	1	GRIK5	19	42566697	Nonsense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	3478477	42566697	16562286	211	39003										
PSG3	5671	broad.mit.edu	37	chr19	43243198	43243198	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gttggctcggcttcaatcgtGacttgggcagtggtaggcaa	15	8	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:43243198G>T	uc002oue.2	-	2	240	c.108C>A	c.(106-108)GTC>GTA	p.V36V	PSG3_uc002ouf.2_RNA|PSG1_uc002oug.1_Intron|PSG3_uc010eil.2_Silent_p.V58V	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	36	Ig-like V-type.				defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				CTTCAATCGTGACTTGGGCAG	0.463													10	65	---	---	---	---	PASS	T	43243198	T	T	43243198	2	4	106	1	0	0	0	0	0	0	0	1	12656	1277	45	2		2	PSG3	19	43243198	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08	676501	43243198	15885785	212	39004										
HIF3A	64344	broad.mit.edu	37	chr19	46842856	46842856	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggggccccttccagccaaggGcaggctcagcccaggctgac	14	16	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:46842856G>T	uc002peh.2	+	15	2016	c.1987G>T	c.(1987-1989)GCA>TCA	p.A663S	HIF3A_uc002pek.2_Missense_Mutation_p.A607S|HIF3A_uc010xxy.1_Missense_Mutation_p.A594S|HIF3A_uc002pel.2_Missense_Mutation_p.A661S	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	663					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		CCAGCCAAGGGCAGGCTCAGC	0.622													8	32	---	---	---	---	PASS	T	46842856	T	T	46842856	3	4	106	1	0	0	0	0	1	0	0	0	7105	1203	42	3	2069	3	HIF3A	19	46842856	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	3599658	46842856	12286127	213	39005										
ELSPBP1	64100	broad.mit.edu	37	chr19	48525518	48525518	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgcactaacgaaggatcaaaGgagaaccttgtgtggtgtgc	13	7	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:48525518G>T	uc002pht.2	+	6	761	c.606G>T	c.(604-606)AAG>AAT	p.K202N		NM_022142	NP_071425	Q96BH3	ESPB1_HUMAN	epididymal sperm binding protein 1 precursor	202	Fibronectin type-II 4.				single fertilization	extracellular region					0		all_cancers(25;8.7e-09)|all_lung(116;1.15e-06)|all_epithelial(76;1.17e-06)|Lung NSC(112;2.56e-06)|all_neural(266;0.0138)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000253)|all cancers(93;0.00129)|Epithelial(262;0.0314)|GBM - Glioblastoma multiforme(486;0.0606)		AAGGATCAAAGGAGAACCTTG	0.458													5	76	---	---	---	---	PASS	T	48525518	T	T	48525518	3	4	106	1	0	0	0	0	1	0	0	0	5083	991	35	3	624	3	ELSPBP1	19	48525518	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	1682662	48525518	10603465	214	39006										
SIGLEC7	27036	broad.mit.edu	37	chr19	51645698	51645698	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggacagaagagtaaccggaaGgattactcgctgacgatgca	13	8	0	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:51645698G>T	uc002pvv.1	+	1	141	c.72G>T	c.(70-72)AAG>AAT	p.K24N	SIGLEC7_uc002pvw.1_Missense_Mutation_p.K24N|SIGLEC7_uc010eoq.1_RNA|SIGLEC7_uc010eor.1_Missense_Mutation_p.K24N	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	24	Extracellular (Potential).				cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		GTAACCGGAAGGATTACTCGC	0.512													6	22	---	---	---	---	PASS	T	51645698	T	T	51645698	3	4	106	1	0	0	0	0	1	0	0	0	14313	991	35	3	74	3	SIGLEC7	19	51645698	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	3120180	51645698	7483285	215	39007										
LILRA2	11027	broad.mit.edu	37	chr19	55087509	55087509	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gtggggacctacagatgctaCagctcactcagctccaaccc	9	15	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:55087509C>A	uc002qgg.3	+	6	1277	c.1188C>A	c.(1186-1188)TAC>TAA	p.Y396*	LILRA2_uc010ern.2_Nonsense_Mutation_p.Y396*|LILRA2_uc002qgf.2_Nonsense_Mutation_p.Y396*|LILRA2_uc010yfe.1_Nonsense_Mutation_p.Y396*|LILRA2_uc010yff.1_Nonsense_Mutation_p.Y384*|LILRA2_uc010ero.2_Nonsense_Mutation_p.Y384*|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	396	Ig-like C2-type 4.|Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		ACAGATGCTACAGCTCACTCA	0.602													14	99	---	---	---	---	PASS	A	55087509	A	A	55087509	4	1	106	1	0	0	0	0	0	1	0	0	8785	489	17	3	1210	3	LILRA2	19	55087509	Nonsense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	3441811	55087509	4041474	216	39008										
NLRP7	199713	broad.mit.edu	37	chr19	55435122	55435122	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggctgctcagcaaaaaaagtCacagcacggaggtgccgttg	13	10	2	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:55435122C>A	uc002qih.3	-	10	3005	c.2929G>T	c.(2929-2931)GAC>TAC	p.D977Y	NLRP7_uc002qig.3_Missense_Mutation_p.D1006Y|NLRP7_uc002qii.3_Missense_Mutation_p.D1034Y|NLRP7_uc010esk.2_3'UTR|NLRP7_uc010esl.2_Missense_Mutation_p.D1062Y	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	977							ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CAAAAAAAGTCACAGCACGGA	0.473													13	67	---	---	---	---	PASS	A	55435122	A	A	55435122	3	1	106	1	0	0	0	0	1	0	0	0	10482	826	29	2	17	2	NLRP7	19	55435122	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	347613	55435122	3693861	217	39009										
NLRP4	147945	broad.mit.edu	37	chr19	56382329	56382329	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tgaaaactctctgcgaggccTtgaaacatccggactgctgc	10	12	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:56382329T>A	uc002qmd.3	+	7	2913	c.2491T>A	c.(2491-2493)TTG>ATG	p.L831M	NLRP4_uc002qmf.2_Missense_Mutation_p.L756M|NLRP4_uc010etf.2_Missense_Mutation_p.L606M	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	831	LRR 5.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		CTGCGAGGCCTTGAAACATCC	0.493													11	78	---	---	---	---	PASS	A	56382329	A	A	56382329	3	1	106	1	0	0	0	0	1	0	0	0	10479	1606	56	5	2513	5	NLRP4	19	56382329	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	947207	56382329	2746654	218	39010										
NLRP13	126204	broad.mit.edu	37	chr19	56423244	56423244	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cttctttgtgaagtcttcctCctgggactcgtgtaggcagt	11	10	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:56423244C>A	uc010ygg.1	-	5	1964	c.1939G>T	c.(1939-1941)GAG>TAG	p.E647*		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	647							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		AAGTCTTCCTCCTGGGACTCG	0.423													5	70	---	---	---	---	PASS	A	56423244	A	A	56423244	4	1	106	1	0	0	0	0	0	1	0	0	10475	864	30	2	1218	2	NLRP13	19	56423244	Nonsense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	40915	56423244	2705739	219	39011										
ZNF274	10782	broad.mit.edu	37	chr19	58723027	58723027	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	taccgcgatgtgatgctggaGacctttgggcacctggtctc	13	11	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:58723027G>C	uc002qrq.1	+	9	1413	c.954G>C	c.(952-954)GAG>GAC	p.E318D	ZNF274_uc002qrr.1_Missense_Mutation_p.E286D|ZNF274_uc002qrs.1_Missense_Mutation_p.E213D|ZNF274_uc010eum.1_Missense_Mutation_p.E77D	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	318	KRAB 2.				viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		TGATGCTGGAGACCTTTGGGC	0.632													4	57	---	---	---	---	PASS	C	58723027	C	C	58723027	3	2	106	1	0	0	0	0	1	0	0	0	17806	933	33	2	975	2	ZNF274	19	58723027	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	2299783	58723027	405956	220	39012										
SLC27A5	10998	broad.mit.edu	37	chr19	59010941	59010941	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gtccccggtgttgtagtaaaCgtcgcccgattgccgcacgt	12	13	0	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:59010941C>A	uc002qtc.2	-	7	1695	c.1585G>T	c.(1585-1587)GTT>TTT	p.V529F	SLC27A5_uc002qtb.2_5'Flank	NM_012254	NP_036386	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid	529	Cytoplasmic (Probable).				bile acid and bile salt transport|bile acid biosynthetic process|very long-chain fatty acid metabolic process	endoplasmic reticulum membrane|integral to membrane	ATP binding|cholate-CoA ligase activity|long-chain fatty acid-CoA ligase activity				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.181)		TTGTAGTAAACGTCGCCCGAT	0.647													7	46	---	---	---	---	PASS	A	59010941	A	A	59010941	3	1	106	1	0	0	0	0	1	0	0	0	14529	536	19	1	503	1	SLC27A5	19	59010941	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	287914	59010941	118042	221	39013										
SEC23B	10483	broad.mit.edu	37	chr20	18516382	18516382	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	catctattttgaagttgtcaAtcaggtgagttggatttctt	9	5	4	2	rs150210442		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr20:18516382A>G	uc002wqz.1	+	12	1843	c.1400A>G	c.(1399-1401)AAT>AGT	p.N467S	SEC23B_uc002wra.1_Missense_Mutation_p.N467S|SEC23B_uc002wrb.1_Missense_Mutation_p.N467S|SEC23B_uc010zsb.1_Missense_Mutation_p.N449S|SEC23B_uc002wrc.1_Missense_Mutation_p.N467S	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	467					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						GAAGTTGTCAATCAGGTGAGT	0.438													9	37	---	---	---	---	PASS	G	18516382	G	G	18516382	3	3	106	1	0	0	0	0	1	0	0	0	13992	101	4	5	1442	5	SEC23B	20	18516382	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08		18516382	44509138	222	39014										
CST8	10047	broad.mit.edu	37	chr20	23472308	23472308	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctcttgcccaagggaccatgCccaggtgccggtggctctcc	12	16	2	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr20:23472308C>G	uc002wth.1	+	2	361	c.4C>G	c.(4-6)CCC>GCC	p.P2A		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	2						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					AGGGACCATGCCCAGGTGCCG	0.612													14	66	---	---	---	---	PASS	G	23472308	G	G	23472308	3	3	106	1	0	0	0	0	1	0	0	0	3978	739	26	4	6	4	CST8	20	23472308	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	4955926	23472308	39553212	223	39015										
ENTPD6	955	broad.mit.edu	37	chr20	25187731	25187731	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gcagccgcagcacggtccttGgcaaacaaggatgagaaaaa	12	10	0	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr20:25187731G>T	uc002wuj.2	+	3	254	c.74G>T	c.(73-75)TGG>TTG	p.W25L	ENTPD6_uc010zsy.1_Missense_Mutation_p.W25L|ENTPD6_uc010gdj.1_5'UTR|ENTPD6_uc010zsz.1_Intron|ENTPD6_uc002wum.2_Missense_Mutation_p.W8L|ENTPD6_uc010zta.1_Missense_Mutation_p.W25L|ENTPD6_uc002wun.2_Missense_Mutation_p.W25L|ENTPD6_uc002wuk.2_Missense_Mutation_p.W24L|ENTPD6_uc002wul.2_Missense_Mutation_p.W24L|ENTPD6_uc010ztb.1_5'UTR|ENTPD6_uc010ztc.1_5'UTR|ENTPD6_uc002wuo.2_Intron|ENTPD6_uc010ztd.1_5'Flank	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	25	Cytoplasmic (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						CACGGTCCTTGGCAAACAAGG	0.607													5	45	---	---	---	---	PASS	T	25187731	T	T	25187731	3	4	106	1	0	0	0	0	1	0	0	0	5143	1357	47	3	87	3	ENTPD6	20	25187731	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	1715423	25187731	37837789	224	39016										
SNAI1	6615	broad.mit.edu	37	chr20	48600466	48600466	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gccaatgctcatctgggactCtgtcctggcgccccaagccc	10	17	3	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr20:48600466C>G	uc002xuz.2	+	2	258	c.188C>G	c.(187-189)TCT>TGT	p.S63C		NM_005985	NP_005976	O95863	SNAI1_HUMAN	snail 1 homolog	63					epithelial to mesenchymal transition|mesoderm formation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|zinc ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			ATCTGGGACTCTGTCCTGGCG	0.652													8	33	---	---	---	---	PASS	G	48600466	G	G	48600466	3	3	106	1	0	0	0	0	1	0	0	0	14826	913	32	2	194	2	SNAI1	20	48600466	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	23412735	48600466	14425054	225	39017										
DIDO1	11083	broad.mit.edu	37	chr20	61541126	61541126	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctaccctttatcccttggtcTtcgctagacttctgctctat	5	14	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr20:61541126T>G	uc002ydr.1	-	4	1350	c.1086A>C	c.(1084-1086)GAA>GAC	p.E362D	DIDO1_uc002yds.1_Missense_Mutation_p.E362D|DIDO1_uc002ydt.1_Missense_Mutation_p.E362D|DIDO1_uc002ydu.1_Missense_Mutation_p.E362D|DIDO1_uc002ydv.1_Missense_Mutation_p.E362D|DIDO1_uc002ydw.1_Missense_Mutation_p.E362D|DIDO1_uc002ydx.1_Missense_Mutation_p.E362D|DIDO1_uc011aao.1_Missense_Mutation_p.E362D	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	362					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					TCCCTTGGTCTTCGCTAGACT	0.458													23	154	---	---	---	---	PASS	G	61541126	G	G	61541126	3	3	106	1	0	0	0	0	1	0	0	0	4522	1606	56	5	5818	5	DIDO1	20	61541126	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	12940660	61541126	1484394	226	39018										
RNF160	26046	broad.mit.edu	37	chr21	30304833	30304833	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	taactgcagcatccagttccGccactgctgaacagctactc	7	15	0	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr21:30304833G>T	uc002ymr.2	-	28	5180	c.5167C>A	c.(5167-5169)CGG>AGG	p.R1723R		NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	1677							ligase activity|zinc ion binding				0						ATCCAGTTCCGCCACTGCTGA	0.378													5	172	---	---	---	---	PASS	T	30304833	T	T	30304833	2	4	106	1	0	0	0	0	0	0	0	1	13455	1086	38	1		1	RNF160	21	30304833	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08		30304833	17825062	227	39019										
SLC37A1	54020	broad.mit.edu	37	chr21	43959738	43959738	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctacaacatccacagtttcgGattctacgtggtaactcagg	8	11	2	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr21:43959738G>T	uc002zbi.2	+	7	879	c.467G>T	c.(466-468)GGA>GTA	p.G156V	SLC37A1_uc002zbj.2_Missense_Mutation_p.G156V	NM_018964	NP_061837	P57057	GLPT_HUMAN	solute carrier family 37 member 1	156					carbohydrate transport|transmembrane transport	integral to membrane					0						CACAGTTTCGGATTCTACGTG	0.522													6	51	---	---	---	---	PASS	T	43959738	T	T	43959738	3	4	106	1	0	0	0	0	1	0	0	0	14597	1174	41	2	485	2	SLC37A1	21	43959738	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	13654905	43959738	4170157	228	39020										
KRTAP10-7	386675	broad.mit.edu	37	chr21	46021203	46021203	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	cggcttgctgcacctcctccCcctgccagcaggcctgctgt	10	19	0	0	rs672479		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr21:46021203C>T	uc002zfn.3	+	2	692	c.667C>T	c.(667-669)CCT>TCT	p.P223S	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198689	NP_941962	P60409	KR107_HUMAN	keratin associated protein 10-7	228	30 X 5 AA repeats of C-C-X(3).					keratin filament					0						CACCTCCTCCCCCTGCCAGCA	0.652													8	84	---	---	---	---	PASS	T	46021203	T	T	46021203	3	4	106	1	0	0	0	0	1	0	0	0	8514	623	22	3	673	3	KRTAP10-7	21	46021203	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	2061465	46021203	2108692	229	39021										
MYO18B	84700	broad.mit.edu	37	chr22	26423089	26423089	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tcgcccacactgcgtcctcgGaggcggtgtctggagtcctc	13	15	1	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr22:26423089G>T	uc003abz.1	+	43	7399	c.7149G>T	c.(7147-7149)CGG>CGT	p.R2383R	MYO18B_uc003aca.1_Silent_p.R2264R|MYO18B_uc010guy.1_Silent_p.R2265R|MYO18B_uc010guz.1_Silent_p.R2263R|MYO18B_uc011aka.1_Silent_p.R1537R|MYO18B_uc011akb.1_Silent_p.R1896R|MYO18B_uc010gva.1_Silent_p.R366R|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2383						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TGCGTCCTCGGAGGCGGTGTC	0.602													15	57	---	---	---	---	PASS	T	26423089	T	T	26423089	2	4	106	1	0	0	0	0	0	0	0	1	10066	1161	41	2		2	MYO18B	22	26423089	Silent	SNP	G	TCGA-46-3767-01A-01D-0983-08		26423089	24881477	230	39022										
SEC14L2	23541	broad.mit.edu	37	chr22	30818328	30818328	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agaaggtcaatttcactgtgGaggtcctgcttccagacaaa	10	9	2	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr22:30818328G>T	uc003ahr.2	+	12	1317	c.1144G>T	c.(1144-1146)GAG>TAG	p.E382*	SEC14L2_uc011akx.1_Nonsense_Mutation_p.E328*|SEC14L2_uc003ahs.2_Nonsense_Mutation_p.E308*|SEC14L2_uc011aky.1_Nonsense_Mutation_p.E299*|SEC14L2_uc003aht.2_RNA|SEC14L2_uc003ahu.3_Intron|SEC14L2_uc010gvv.2_RNA|SEC14L2_uc010gvw.1_Intron|MTP18_uc010gvx.1_Intron|MTP18_uc003ahv.1_Intron|MTP18_uc010gvy.1_Intron	NM_012429	NP_036561	O76054	S14L2_HUMAN	SEC14-like 2 isoform 1	382	GOLD.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	phospholipid binding|transporter activity|vitamin E binding				0					Vitamin E(DB00163)	TTTCACTGTGGAGGTCCTGCT	0.522													6	59	---	---	---	---	PASS	T	30818328	T	T	30818328	4	4	106	1	0	0	0	0	0	1	0	0	13982	1175	41	2	1288	2	SEC14L2	22	30818328	Nonsense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	4395239	30818328	20486238	231	39023										
FAM47C	442444	broad.mit.edu	37	chrX	37027657	37027657	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ctcgcgtacctcctctccgcCcagagacccccaagaatgga	8	18	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:37027657C>G	uc004ddl.1	+	1	1188	c.1174C>G	c.(1174-1176)CCA>GCA	p.P392A		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	392										ovary(3)	3						TCCTCTCCGCCCAGAGACCCC	0.612													3	15	---	---	---	---	PASS	G	37027657	G	G	37027657	3	3	106	1	0	0	0	0	1	0	0	0	5571	623	22	4	1176	4	FAM47C	23	37027657	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08		37027657	118242903	232	39024										
CACNA1F	778	broad.mit.edu	37	chrX	49067838	49067838	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggcgatggcaaaattgctacCacaggtaaactcttcaccag	9	11	2	0			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:49067838C>A	uc004dnb.2	-	36	4299	c.4237G>T	c.(4237-4239)GGT>TGT	p.G1413C	CACNA1F_uc010nip.2_Missense_Mutation_p.G1402C	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	1413	Phenylalkylamine binding (By similarity).|Extracellular (Potential).|IV.|Dihydropyridine binding (By similarity).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	AAATTGCTACCACAGGTAAAC	0.537													4	31	---	---	---	---	PASS	A	49067838	A	A	49067838	3	1	106	1	0	0	0	0	1	0	0	0	2543	594	21	3	1748	3	CACNA1F	23	49067838	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	12040181	49067838	106202722	233	39025										
HEPH	9843	broad.mit.edu	37	chrX	65392409	65392409	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tcgtccctataccatccaccCtcatggtgtcttctacgaga	6	15	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:65392409C>G	uc011moz.1	+	3	449	c.389C>G	c.(388-390)CCT>CGT	p.P130R	HEPH_uc004dwn.2_Missense_Mutation_p.P130R|HEPH_uc004dwo.2_5'UTR|HEPH_uc010nkr.2_Missense_Mutation_p.P130R|HEPH_uc011mpa.1_Missense_Mutation_p.P130R	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	127	Extracellular (Potential).|Plastocyanin-like 1.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						ACCATCCACCCTCATGGTGTC	0.493													5	31	---	---	---	---	PASS	G	65392409	G	G	65392409	3	3	106	1	0	0	0	0	1	0	0	0	7054	681	24	4	552	4	HEPH	23	65392409	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	16324571	65392409	89878151	234	39026										
HEPH	9843	broad.mit.edu	37	chrX	65427122	65427122	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tcagggaatacactgatggtAcattcaggatccctcggcca	10	11	2	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:65427122A>G	uc011moz.1	+	14	2446	c.2386A>G	c.(2386-2388)ACA>GCA	p.T796A	HEPH_uc004dwn.2_Missense_Mutation_p.T796A|HEPH_uc004dwo.2_Missense_Mutation_p.T526A|HEPH_uc010nkr.2_Missense_Mutation_p.T604A|HEPH_uc011mpa.1_Missense_Mutation_p.T796A|HEPH_uc010nks.2_Missense_Mutation_p.T85A	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	793	Extracellular (Potential).|Plastocyanin-like 5.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						CACTGATGGTACATTCAGGAT	0.468													5	15	---	---	---	---	PASS	G	65427122	G	G	65427122	3	3	106	1	0	0	0	0	1	0	0	0	7054	391	14	5	2593	5	HEPH	23	65427122	Missense_Mutation	SNP	A	TCGA-46-3767-01A-01D-0983-08	34713	65427122	89843438	235	39027										
HEPH	9843	broad.mit.edu	37	chrX	65427158	65427158	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	ggccaaggactggaccagaaGaacacttgggaatcttgggt	14	8	1	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:65427158G>T	uc011moz.1	+	14	2482	c.2422G>T	c.(2422-2424)GAA>TAA	p.E808*	HEPH_uc004dwn.2_Nonsense_Mutation_p.E808*|HEPH_uc004dwo.2_Nonsense_Mutation_p.E538*|HEPH_uc010nkr.2_Nonsense_Mutation_p.E616*|HEPH_uc011mpa.1_Nonsense_Mutation_p.E808*|HEPH_uc010nks.2_Nonsense_Mutation_p.E97*	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	805	Extracellular (Potential).|Plastocyanin-like 5.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						TGGACCAGAAGAACACTTGGG	0.493													4	17	---	---	---	---	PASS	T	65427158	T	T	65427158	4	4	106	1	0	0	0	0	0	1	0	0	7054	943	33	2	2629	2	HEPH	23	65427158	Nonsense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	36	65427158	89843402	236	39028										
CYLC1	1538	broad.mit.edu	37	chrX	83128462	83128462	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	tttaaatgttgatttcctcaTgttagtgggacagtctgatg	10	5	2	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:83128462T>C	uc004eei.1	+	4	767	c.746T>C	c.(745-747)ATG>ACG	p.M249T	CYLC1_uc004eeh.1_Missense_Mutation_p.M248T	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	249					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						GATTTCCTCATGTTAGTGGGA	0.313													4	15	---	---	---	---	PASS	C	83128462	C	C	83128462	3	2	106	1	0	0	0	0	1	0	0	0	4141	1464	51	5	760	5	CYLC1	23	83128462	Missense_Mutation	SNP	T	TCGA-46-3767-01A-01D-0983-08	17701304	83128462	72142098	237	39029										
CHRDL1	91851	broad.mit.edu	37	chrX	109924818	109924818	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gaatacagactcatacacagGcatcgtttcttccccgcaga	7	13	2	2			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:109924818G>C	uc004eou.3	-	10	1397	c.1048C>G	c.(1048-1050)CCT>GCT	p.P350A	CHRDL1_uc004eov.2_Missense_Mutation_p.P339A|CHRDL1_uc004eow.2_Missense_Mutation_p.P348A|CHRDL1_uc010nps.2_Missense_Mutation_p.P349A|CHRDL1_uc004eot.2_Missense_Mutation_p.P269A|CHRDL1_uc011mss.1_Missense_Mutation_p.P264A	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	342					BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						TCATACACAGGCATCGTTTCT	0.453													6	43	---	---	---	---	PASS	C	109924818	C	C	109924818	3	2	106	1	0	0	0	0	1	0	0	0	3373	1203	42	4	340	4	CHRDL1	23	109924818	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	26796356	109924818	45345742	238	39030										
ARHGAP36	158763	broad.mit.edu	37	chrX	130218636	130218636	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	gatttttacccttgaatactCcgtgcagcgagtgcgtcagg	11	10	1	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:130218636C>A	uc004evz.2	+	6	1130	c.785C>A	c.(784-786)TCC>TAC	p.S262Y	ARHGAP36_uc004ewa.2_Missense_Mutation_p.S250Y|ARHGAP36_uc004ewb.2_Missense_Mutation_p.S231Y|ARHGAP36_uc004ewc.2_Missense_Mutation_p.S126Y	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	262	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						CTTGAATACTCCGTGCAGCGA	0.473													8	45	---	---	---	---	PASS	A	130218636	A	A	130218636	3	1	106	1	0	0	0	0	1	0	0	0	883	855	30	2	803	2	ARHGAP36	23	130218636	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	20293818	130218636	25051924	239	39031										
IGSF1	3547	broad.mit.edu	37	chrX	130417031	130417031	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	agtaaaaacagaggtaatgtCcagtatcttggatcttcaaa	8	6	3	1			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:130417031C>T	uc004ewd.2	-	6	1113	c.875G>A	c.(874-876)GGA>GAA	p.G292E	IGSF1_uc004ewe.3_Missense_Mutation_p.G281E|IGSF1_uc004ewf.2_Missense_Mutation_p.G272E	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	292	Ig-like C2-type 3.|Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GAGGTAATGTCCAGTATCTTG	0.398													4	31	---	---	---	---	PASS	T	130417031	T	T	130417031	3	4	106	1	0	0	0	0	1	0	0	0	7596	855	30	2	3210	2	IGSF1	23	130417031	Missense_Mutation	SNP	C	TCGA-46-3767-01A-01D-0983-08	198395	130417031	24853529	240	39032										
F9	2158	broad.mit.edu	37	chrX	138623348	138623348	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0632911392405063	15	0.0862832672054575	1.5323936376568	2.02275960170697	1.12375533428165	0.547152630062323	0.857044385141869	0	aaggaaagaactgtgaattaGgtaagtaactattttttgaa	9	2	0	3			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:138623348G>T	uc004fas.1	+	4	420	c.391G>T	c.(391-393)GAT>TAT	p.D131Y	F9_uc004fat.1_Intron	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	131	EGF-like 2.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	CTGTGAATTAGGTAAGTAACT	0.338													4	21	---	---	---	---	PASS	T	138623348	T	T	138623348	3	4	106	1	0	0	0	0	1	0	0	0	5351	1014	35	3	405	3	F9	23	138623348	Missense_Mutation	SNP	G	TCGA-46-3767-01A-01D-0983-08	8206317	138623348	16647212	241	39033										
DFFB	1677	broad.mit.edu	37	chr1	3800177	3800177	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atggcctgctttttacctcaGagaacctaaaactagtgcac	7	11	1	1	rs59649948		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:3800177G>T	uc001alc.2	+	7	1212	c.889G>T	c.(889-891)GAG>TAG	p.E297*	DFFB_uc001ale.2_RNA|DFFB_uc009vlp.2_RNA|DFFB_uc001alb.2_RNA|DFFB_uc010nzn.1_Nonsense_Mutation_p.E321*|DFFB_uc009vlq.2_RNA|DFFB_uc009vlr.2_Nonsense_Mutation_p.E248*|DFFB_uc001ald.2_Nonsense_Mutation_p.E233*	NM_004402	NP_004393	O76075	DFFB_HUMAN	DNA fragmentation factor, 40 kD, beta	297					apoptotic chromosome condensation|DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction	cytosol|nucleoplasm	deoxyribonuclease activity|enzyme binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;2.05e-30)|all_epithelial(116;6.22e-21)|all_lung(118;2.65e-08)|Lung NSC(185;6.25e-06)|Breast(487;0.000659)|Renal(390;0.00121)|all_neural(13;0.0019)|Hepatocellular(190;0.00705)|Colorectal(325;0.0113)|all_hematologic(16;0.0194)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0548)|Medulloblastoma(700;0.211)		Epithelial(90;1.18e-39)|OV - Ovarian serous cystadenocarcinoma(86;7.28e-23)|GBM - Glioblastoma multiforme(42;2.95e-17)|Colorectal(212;1.23e-05)|COAD - Colon adenocarcinoma(227;5.94e-05)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00038)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		TTTTACCTCAGAGAACCTAAA	0.443													5	93	---	---	---	---	PASS	T	3800177	T	T	3800177	4	4	107	1	0	0	0	0	0	1	0	0	4453	943	33	2	915	2	DFFB	1	3800177	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08		3800177	245450444	1	39034										
ANGPTL7	10218	broad.mit.edu	37	chr1	11249665	11249665	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aaagcctctctcagctgtgaCctggctctgcattttcatcg	8	13	4	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:11249665C>A	uc001ase.2	+	1	268	c.29C>A	c.(28-30)ACC>AAC	p.T10N	MTOR_uc001asd.2_Intron	NM_021146	NP_066969	O43827	ANGL7_HUMAN	angiopoietin-like 7 precursor	10					response to oxidative stress|signal transduction	extracellular region	receptor binding				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000818)|all_lung(284;0.00105)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.39e-06)|COAD - Colon adenocarcinoma(227;0.000244)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0487)		TCAGCTGTGACCTGGCTCTGC	0.557													49	44	---	---	---	---	PASS	A	11249665	A	A	11249665	3	1	107	1	0	0	0	0	1	0	0	0	619	507	18	3	31	3	ANGPTL7	1	11249665	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	7449488	11249665	238000956	2	39035										
MTHFR	4524	broad.mit.edu	37	chr1	11861293	11861293	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gcccgtgatctcctccaggcGctgacggcagcaggtcatgt	13	14	2	2	rs45550133		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:11861293G>A	uc001atc.1	-	3	584	c.400C>T	c.(400-402)CGC>TGC	p.R134C	MTHFR_uc001atb.1_Missense_Mutation_p.R157C	NM_005957	NP_005948	P42898	MTHR_HUMAN	5,10-methylenetetrahydrofolate reductase	134					blood circulation|folic acid metabolic process	cytosol	methylenetetrahydrofolate reductase (NADPH) activity|protein binding				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)	Benazepril(DB00542)|Cyanocobalamin(DB00115)|Folic Acid(DB00158)|L-Methionine(DB00134)|Menadione(DB00170)|Methotrexate(DB00563)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|Raltitrexed(DB00293)|Riboflavin(DB00140)|S-Adenosylmethionine(DB00118)|Tetrahydrofolic acid(DB00116)	TCCTCCAGGCGCTGACGGCAG	0.617													31	8	---	---	---	---	PASS	A	11861293	A	A	11861293	3	1	107	1	0	0	0	0	1	0	0	0	9931	1087	38	1	1610	1	MTHFR	1	11861293	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	611628	11861293	237389328	3	39036										
PHC2	1912	broad.mit.edu	37	chr1	33790576	33790576	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gagcagcagcagggcttgccCgtcgatttcctgggcacgga	15	12	0	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:33790576C>G	uc001bxg.1	-	14	2521	c.2467G>C	c.(2467-2469)GGG>CGG	p.G823R	PHC2_uc001bxh.1_Missense_Mutation_p.G795R|PHC2_uc009vuh.1_Missense_Mutation_p.G824R|PHC2_uc001bxe.1_Missense_Mutation_p.G288R|PHC2_uc001bxf.1_3'UTR	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	823	SAM.				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)				AGGGCTTGCCCGTCGATTTCC	0.592													6	5	---	---	---	---	PASS	G	33790576	G	G	33790576	3	3	107	1	0	0	0	0	1	0	0	0	11817	652	23	4	113	4	PHC2	1	33790576	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	21929283	33790576	215460045	4	39037										
MACF1	23499	broad.mit.edu	37	chr1	39797468	39797468	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gtcaaacaattggcagggggGatggtgagcttgaaatcagg	16	5	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:39797468G>T	uc010oiu.1	+	1	659	c.528G>T	c.(526-528)GGG>GGT	p.G176G	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1741					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)			TGGCAGGGGGGATGGTGAGCT	0.493													22	11	---	---	---	---	PASS	T	39797468	T	T	39797468	2	4	107	1	0	0	0	0	0	0	0	1	9144	1161	41	2		2	MACF1	1	39797468	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	6006892	39797468	209453153	5	39038										
PTPRF	5792	broad.mit.edu	37	chr1	44071241	44071241	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gcccattgaccgtgtgggcgGgagcatgctgacgccaaggt	16	11	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:44071241G>T	uc001cjr.2	+	19	3771	c.3431G>T	c.(3430-3432)GGG>GTG	p.G1144V	PTPRF_uc001cjs.2_Missense_Mutation_p.G1135V|PTPRF_uc001cju.2_Missense_Mutation_p.G522V|PTPRF_uc009vwt.2_Missense_Mutation_p.G704V|PTPRF_uc001cjv.2_Missense_Mutation_p.G604V|PTPRF_uc001cjw.2_Missense_Mutation_p.G370V	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1144	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CGTGTGGGCGGGAGCATGCTG	0.627													14	9	---	---	---	---	PASS	T	44071241	T	T	44071241	3	4	107	1	0	0	0	0	1	0	0	0	12801	1232	43	3	3497	3	PTPRF	1	44071241	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	4273773	44071241	205179380	6	39039										
TAL1	6886	broad.mit.edu	37	chr1	47685806	47685806	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgctgccgccatcgctcccgGctgttggtgaagatacgccg	13	14	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:47685806G>T	uc001cqx.2	-	4	1159	c.582C>A	c.(580-582)AGC>AGA	p.S194R	TAL1_uc009vyq.2_5'UTR|TAL1_uc001cqy.2_Missense_Mutation_p.S194R	NM_003189	NP_003180	P17542	TAL1_HUMAN	T-cell acute lymphocytic leukemia 1	194	Basic motif.				basophil differentiation|cell fate commitment|cell proliferation|embryonic hemopoiesis|erythrocyte differentiation|megakaryocyte differentiation|positive regulation of cell division|positive regulation of chromatin assembly or disassembly|positive regulation of erythrocyte differentiation|positive regulation of mitotic cell cycle|positive regulation of protein complex assembly|positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	E-box binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity			lung(1)	1						ATCGCTCCCGGCTGTTGGTGA	0.562			T	TRD@|SIL	lymphoblastic leukemia/biphasic								21	7	---	---	---	---	PASS	T	47685806	T	T	47685806	3	4	107	1	0	0	0	0	1	0	0	0	15538	1194	42	3	417	3	TAL1	1	47685806	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	3614565	47685806	201564815	7	39040										
EPS8L3	79574	broad.mit.edu	37	chr1	110302413	110302413	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cagcttctgcaaggcatcctCgggcccctggactctctgac	10	16	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:110302413C>A	uc001dyr.1	-	4	287	c.142G>T	c.(142-144)GAG>TAG	p.E48*	EPS8L3_uc001dys.1_Nonsense_Mutation_p.E48*|EPS8L3_uc001dyq.1_Nonsense_Mutation_p.E48*|EPS8L3_uc009wfm.1_Nonsense_Mutation_p.E14*|EPS8L3_uc009wfn.1_Nonsense_Mutation_p.E14*|EPS8L3_uc009wfo.1_Intron	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	48						cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		AAGGCATCCTCGGGCCCCTGG	0.612													4	32	---	---	---	---	PASS	A	110302413	A	A	110302413	4	1	107	1	0	0	0	0	0	1	0	0	5197	893	31	2	1706	2	EPS8L3	1	110302413	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	62616607	110302413	138948208	8	39041										
OVGP1	5016	broad.mit.edu	37	chr1	111963989	111963989	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gcaacccattcttagaggctTtgaggaggcgaaaggtacgt	13	8	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:111963989T>A	uc001eba.2	-	8	868	c.812A>T	c.(811-813)AAA>ATA	p.K271I	OVGP1_uc001eaz.2_Missense_Mutation_p.K233I|OVGP1_uc010owb.1_Intron	NM_002557	NP_002548	Q12889	OVGP1_HUMAN	oviductal glycoprotein 1 precursor	271					chitin catabolic process|female pregnancy|single fertilization	transport vesicle	cation binding|chitinase activity	p.K271fs*4(1)		ovary(4)|large_intestine(1)	5		all_cancers(81;8.18e-06)|all_epithelial(167;5.64e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000302)		Lung(183;0.0253)|Colorectal(144;0.033)|all cancers(265;0.0552)|Epithelial(280;0.0802)|COAD - Colon adenocarcinoma(174;0.123)|LUSC - Lung squamous cell carcinoma(189;0.14)		CTTAGAGGCTTTGAGGAGGCG	0.517													36	19	---	---	---	---	PASS	A	111963989	A	A	111963989	3	1	107	1	0	0	0	0	1	0	0	0	11325	1841	64	5	1240	5	OVGP1	1	111963989	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	1661576	111963989	137286632	9	39042										
SYCP1	6847	broad.mit.edu	37	chr1	115524061	115524061	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aatttcacatcagttgatcaTggcatatccaaagataaaag	6	7	3	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:115524061T>A	uc001efr.2	+	29	2696	c.2487T>A	c.(2485-2487)CAT>CAA	p.H829Q	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.H829Q|SYCP1_uc009wgw.2_Missense_Mutation_p.H804Q	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	829					cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CAGTTGATCATGGCATATCCA	0.333													27	7	---	---	---	---	PASS	A	115524061	A	A	115524061	3	1	107	1	0	0	0	0	1	0	0	0	15428	1461	51	5	2597	5	SYCP1	1	115524061	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	3560072	115524061	133726560	10	39043										
ITGA10	8515	broad.mit.edu	37	chr1	145534248	145534248	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agggagcactgtacctgtacCatggaacccagagtggagtc	13	10	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:145534248C>A	uc001eoa.2	+	14	1829	c.1753C>A	c.(1753-1755)CAT>AAT	p.H585N	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.H454N|ITGA10_uc009wiw.2_Missense_Mutation_p.H442N|ITGA10_uc010oyw.1_Missense_Mutation_p.H530N	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	585	Extracellular (Potential).|FG-GAP 6.				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GTACCTGTACCATGGAACCCA	0.567													5	95	---	---	---	---	PASS	A	145534248	A	A	145534248	3	1	107	1	0	0	0	0	1	0	0	0	7873	594	21	3	1807	3	ITGA10	1	145534248	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	30010187	145534248	103716373	11	39044										
CD160	11126	broad.mit.edu	37	chr1	145706688	145706688	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tctagggtctatcctcaccaCcagactggatgtccacaatt	7	13	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:145706688C>G	uc001eol.1	-	3	289	c.71G>C	c.(70-72)GGT>GCT	p.G24A	NBPF10_uc001emp.3_Intron|CD160_uc001eom.1_Missense_Mutation_p.G24A|CD160_uc010oyz.1_RNA	NM_007053	NP_008984	O95971	BY55_HUMAN	CD160 antigen precursor	24					cell proliferation|cell surface receptor linked signaling pathway|cellular defense response|regulation of immune response	anchored to plasma membrane	MHC class I receptor activity|receptor binding				0	all_hematologic(18;0.00473)|Acute lymphoblastic leukemia(18;0.0786)		KIRC - Kidney renal clear cell carcinoma(6;0.0764)|Kidney(552;0.118)|Colorectal(543;0.229)			ATCCTCACCACCAGACTGGAT	0.587													16	49	---	---	---	---	PASS	G	145706688	G	G	145706688	3	3	107	1	0	0	0	0	1	0	0	0	2966	507	18	4	490	4	CD160	1	145706688	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	172440	145706688	103543933	12	39045										
TCHHL1	126637	broad.mit.edu	37	chr1	152059147	152059147	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggtgtctggtcagcatccttTcctggttcttgagtgtcaaa	11	9	4	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:152059147T>C	uc001ezo.1	-	3	1076	c.1011A>G	c.(1009-1011)GGA>GGG	p.G337G		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	337							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			CAGCATCCTTTCCTGGTTCTT	0.448													49	163	---	---	---	---	PASS	C	152059147	C	C	152059147	2	2	107	1	0	0	0	0	0	0	0	1	15698	1770	62	5		5	TCHHL1	1	152059147	Silent	SNP	T	TCGA-46-3768-01A-01D-0983-08	6352459	152059147	97191474	13	39046										
FCRL4	83417	broad.mit.edu	37	chr1	157548310	157548310	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gtctggatctcagagtatacCaaatctccctttttggggtg	10	9	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:157548310C>T	uc001fqw.2	-	10	1519	c.1383G>A	c.(1381-1383)TTG>TTA	p.L461L	FCRL4_uc010phy.1_RNA	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	461	Cytoplasmic (Potential).|ITIM motif 2.					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				CAGAGTATACCAAATCTCCCT	0.393													7	46	---	---	---	---	PASS	T	157548310	T	T	157548310	2	4	107	1	0	0	0	0	0	0	0	1	5797	593	21	3		3	FCRL4	1	157548310	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	5489163	157548310	91702311	14	39047										
OR10J1	26476	broad.mit.edu	37	chr1	159409849	159409849	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccagcctcgtaggtatgagcCagcccatatcattggcaggg	12	12	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:159409849C>T	uc010piv.1	+	1	301	c.301C>T	c.(301-303)CAG>TAG	p.Q101*	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	101	Extracellular (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)					AGGTATGAGCCAGCCCATATC	0.478													13	47	---	---	---	---	PASS	T	159409849	T	T	159409849	4	4	107	1	0	0	0	0	0	1	0	0	10910	595	21	3	303	3	OR10J1	1	159409849	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1861539	159409849	89840772	15	39048										
KCNJ10	3766	broad.mit.edu	37	chr1	160012156	160012156	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gcatgtcaatgaaggttgtcCacaggtccttgaggtagagg	14	7	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:160012156C>T	uc001fuw.1	-	2	317	c.167G>A	c.(166-168)TGG>TAG	p.W56*		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	56	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GAAGGTTGTCCACAGGTCCTT	0.542													26	107	---	---	---	---	PASS	T	160012156	T	T	160012156	4	4	107	1	0	0	0	0	0	1	0	0	8044	595	21	3	976	3	KCNJ10	1	160012156	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	602307	160012156	89238465	16	39049										
B4GALT3	8703	broad.mit.edu	37	chr1	161143746	161143746	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttctggcaagaggtccacatCgtgcaagaacaggcagtccc	11	12	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:161143746C>T	uc001fyq.1	-	5	845	c.583G>A	c.(583-585)GAT>AAT	p.D195N	PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_Intron|B4GALT3_uc001fyo.1_5'UTR|B4GALT3_uc001fyp.1_RNA|B4GALT3_uc001fyr.1_Missense_Mutation_p.D195N|B4GALT3_uc001fys.1_Missense_Mutation_p.D195N|B4GALT3_uc009wud.1_Missense_Mutation_p.D195N	NM_003779	NP_003770	O60512	B4GT3_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	195	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|metal ion binding|N-acetyllactosamine synthase activity				0	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)		N-Acetyl-D-glucosamine(DB00141)	AGGTCCACATCGTGCAAGAAC	0.522													17	43	---	---	---	---	PASS	T	161143746	T	T	161143746	3	4	107	1	0	0	0	0	1	0	0	0	1272	884	31	2	614	2	B4GALT3	1	161143746	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1131590	161143746	88106875	17	39050										
TADA1	117143	broad.mit.edu	37	chr1	166829516	166829516	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	catatttaaaatgaccatctCgtaaccgataagctttcctt	4	10	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:166829516C>T	uc001gdw.2	-	6	783	c.599G>A	c.(598-600)CGA>CAA	p.R200Q	TADA1_uc001gdv.2_Missense_Mutation_p.R58Q	NM_053053	NP_444281	Q96BN2	TADA1_HUMAN	transcriptional adaptor 1-like	200					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(1)	1						ATGACCATCTCGTAACCGATA	0.363													17	30	---	---	---	---	PASS	T	166829516	T	T	166829516	3	4	107	1	0	0	0	0	1	0	0	0	15506	884	31	2	420	2	TADA1	1	166829516	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	5685770	166829516	82421105	18	39051										
SLC19A2	10560	broad.mit.edu	37	chr1	169439384	169439384	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agcacatcaggaaatcattcCatagtactttcaatacaagg	6	9	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:169439384C>A	uc001gge.3	-	3	1052	c.848G>T	c.(847-849)TGG>TTG	p.W283L	SLC19A2_uc001ggf.3_Missense_Mutation_p.W82L	NM_006996	NP_008927	O60779	S19A2_HUMAN	solute carrier family 19, member 2	283	Cytoplasmic (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|folic acid transporter activity|reduced folate carrier activity|thiamine uptake transmembrane transporter activity				0	all_hematologic(923;0.208)					GAAATCATTCCATAGTACTTT	0.448													5	56	---	---	---	---	PASS	A	169439384	A	A	169439384	3	1	107	1	0	0	0	0	1	0	0	0	14429	595	21	3	661	3	SLC19A2	1	169439384	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	2609868	169439384	79811237	19	39052										
SCYL3	57147	broad.mit.edu	37	chr1	169823643	169823643	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gttctgatggaaccttaaggGgcctttcttgtgatgacact	11	8	2	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:169823643G>C	uc001ggs.2	-	13	2135	c.1937C>G	c.(1936-1938)CCC>CGC	p.P646R	SCYL3_uc010plw.1_Missense_Mutation_p.P238R|SCYL3_uc001ggt.2_Missense_Mutation_p.P592R|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	646	Interaction with EZR.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AACCTTAAGGGGCCTTTCTTG	0.438													18	86	---	---	---	---	PASS	C	169823643	C	C	169823643	3	2	107	1	0	0	0	0	1	0	0	0	13949	1232	43	4	299	4	SCYL3	1	169823643	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	384259	169823643	79426978	20	39053										
BAT2L2	23215	broad.mit.edu	37	chr1	171510347	171510347	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gagaagaaagtgaaacacggAgtgagagctctgattttgaa	13	4	1	6			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:171510347A>T	uc010pmg.1	+	16	4002	c.3736A>T	c.(3736-3738)AGT>TGT	p.S1246C	BAT2L2_uc010pmh.1_Missense_Mutation_p.S223C	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	1246							protein C-terminus binding				0						TGAAACACGGAGTGAGAGCTC	0.473													56	45	---	---	---	---	PASS	T	171510347	T	T	171510347	3	4	107	1	0	0	0	0	1	0	0	0	1321	304	11	5	3794	5	BAT2L2	1	171510347	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	1686704	171510347	77740274	21	39054										
BAT2L2	23215	broad.mit.edu	37	chr1	171511306	171511306	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggtccacccaaatcaggaagGaatttctcaggtcctagaaa	9	10	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:171511306G>T	uc010pmg.1	+	16	4961	c.4695G>T	c.(4693-4695)AGG>AGT	p.R1565S	BAT2L2_uc010pmh.1_Missense_Mutation_p.R542S	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	1565							protein C-terminus binding				0						AATCAGGAAGGAATTTCTCAG	0.428													19	7	---	---	---	---	PASS	T	171511306	T	T	171511306	3	4	107	1	0	0	0	0	1	0	0	0	1321	1165	41	2	4753	2	BAT2L2	1	171511306	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	959	171511306	77739315	22	39055										
PAPPA2	60676	broad.mit.edu	37	chr1	176564385	176564385	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgagtgaggagcagattcgtCtgcagcacgaggcactgaat	14	8	1	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:176564385C>A	uc001gkz.2	+	3	2809	c.1645C>A	c.(1645-1647)CTG>ATG	p.L549M	PAPPA2_uc001gky.1_Missense_Mutation_p.L549M|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	549	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GCAGATTCGTCTGCAGCACGA	0.567													10	42	---	---	---	---	PASS	A	176564385	A	A	176564385	3	1	107	1	0	0	0	0	1	0	0	0	11433	912	32	2	1651	2	PAPPA2	1	176564385	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	5053079	176564385	72686236	23	39056										
PAPPA2	60676	broad.mit.edu	37	chr1	176564722	176564722	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gacctgctttgaccctgactCacccaagaggtaagggactg	11	12	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:176564722C>A	uc001gkz.2	+	3	3146	c.1982C>A	c.(1981-1983)TCA>TAA	p.S661*	PAPPA2_uc001gky.1_Nonsense_Mutation_p.S661*|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	661	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GACCCTGACTCACCCAAGAGG	0.498													4	29	---	---	---	---	PASS	A	176564722	A	A	176564722	4	1	107	1	0	0	0	0	0	1	0	0	11433	838	29	2	1988	2	PAPPA2	1	176564722	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	337	176564722	72685899	24	39057										
PAPPA2	60676	broad.mit.edu	37	chr1	176769217	176769217	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agcattgtgtgcactggccgGcgtcaatggcacccagaccc	12	14	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:176769217G>A	uc001gkz.2	+	21	6315	c.5151G>A	c.(5149-5151)CGG>CGA	p.R1717R	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1717	Sushi 5.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GCACTGGCCGGCGTCAATGGC	0.498													34	79	---	---	---	---	PASS	A	176769217	A	A	176769217	2	1	107	1	0	0	0	0	0	0	0	1	11433	1190	42	3		3	PAPPA2	1	176769217	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	204495	176769217	72481404	25	39058										
PRG4	10216	broad.mit.edu	37	chr1	186277488	186277488	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cctgatgaatcaactcctgaGctttctgcagaacccacacc	6	15	2	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:186277488G>A	uc001gru.3	+	7	2688	c.2637G>A	c.(2635-2637)GAG>GAA	p.E879E	PRG4_uc001grt.3_Silent_p.E838E|PRG4_uc009wyl.2_Silent_p.E786E|PRG4_uc009wym.2_Silent_p.E745E|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	879					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CAACTCCTGAGCTTTCTGCAG	0.488													165	116	---	---	---	---	PASS	A	186277488	A	A	186277488	2	1	107	1	0	0	0	0	0	0	0	1	12481	962	34	3		3	PRG4	1	186277488	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	9508271	186277488	62973133	26	39059										
CFHR4	10877	broad.mit.edu	37	chr1	196881962	196881962	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ataaagaaatacaatataaaTgtaaaccaggatatgcaaca	5	5	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:196881962T>A	uc001gto.2	+	3	418	c.349T>A	c.(349-351)TGT>AGT	p.C117S	CFHR4_uc009wyy.2_Missense_Mutation_p.C363S|CFHR4_uc001gtp.2_Missense_Mutation_p.C364S	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	117	Sushi 2.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						acaatataaatGTAAACCAGG	0.279													26	54	---	---	---	---	PASS	A	196881962	A	A	196881962	3	1	107	1	0	0	0	0	1	0	0	0	3287	1464	51	5	359	5	CFHR4	1	196881962	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	10604474	196881962	52368659	27	39060										
FAM58B	339521	broad.mit.edu	37	chr1	200183331	200183331	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atggagtcgaggtgcccgccGaggtcgaggctgagaagctg	18	9	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:200183331G>T	uc009wzi.1	+	1	676	c.640G>T	c.(640-642)GAG>TAG	p.E214*		NM_001105517	NP_001098987	P0C7Q3	FA58B_HUMAN	family with sequence similarity 58 member B	214					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	Prostate(682;0.19)					GGTGCCCGCCGAGGTCGAGGC	0.562													4	69	---	---	---	---	PASS	T	200183331	T	T	200183331	4	4	107	1	0	0	0	0	0	1	0	0	5591	1059	37	2	642	2	FAM58B	1	200183331	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	3301369	200183331	49067290	28	39061										
CNTN2	6900	broad.mit.edu	37	chr1	205034927	205034927	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccgtgtgcagaaggagaccaTtggggatctgaccatcctga	13	10	1	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:205034927T>A	uc001hbr.2	+	14	1975	c.1706T>A	c.(1705-1707)ATT>AAT	p.I569N	CNTN2_uc001hbq.1_Missense_Mutation_p.I460N|CNTN2_uc001hbs.2_Missense_Mutation_p.I357N	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	569	Ig-like C2-type 6.				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)			AAGGAGACCATTGGGGATCTG	0.637													11	36	---	---	---	---	PASS	A	205034927	A	A	205034927	3	1	107	1	0	0	0	0	1	0	0	0	3641	1493	52	5	1756	5	CNTN2	1	205034927	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	4851596	205034927	44215694	29	39062										
CR2	1380	broad.mit.edu	37	chr1	207639950	207639950	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cccattgctgttggtaccgtGataaggtacagttgttcagg	12	8	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:207639950G>A	uc001hfw.2	+	2	232	c.138G>A	c.(136-138)GTG>GTA	p.V46V	CR2_uc001hfv.2_Silent_p.V46V|CR2_uc009xch.2_Silent_p.V46V	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	46	Sushi 1.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TTGGTACCGTGATAAGGTACA	0.433													8	127	---	---	---	---	PASS	A	207639950	A	A	207639950	2	1	107	1	0	0	0	0	0	0	0	1	3842	1277	45	2		2	CR2	1	207639950	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	2605023	207639950	41610671	30	39063										
EPRS	2058	broad.mit.edu	37	chr1	220153567	220153567	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atatacctgagcatataagtCaagtatctgcaagacctgta	7	8	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:220153567C>G	uc001hly.1	-	26	3841	c.3571G>C	c.(3571-3573)GAC>CAC	p.D1191H		NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	1191	Prolyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	GCATATAAGTCAAGTATCTGC	0.328													42	34	---	---	---	---	PASS	G	220153567	G	G	220153567	3	3	107	1	0	0	0	0	1	0	0	0	5191	826	29	2	995	2	EPRS	1	220153567	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	12513617	220153567	29097054	31	39064										
DUSP10	11221	broad.mit.edu	37	chr1	221912353	221912353	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gtggctgggagggcatcactCggcttggttcattggtattc	15	8	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:221912353C>A	uc001hmy.1	-	2	916	c.734G>T	c.(733-735)CGA>CTA	p.R245L	DUSP10_uc001hmx.1_5'Flank|DUSP10_uc001hmz.1_Intron	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	245	Rhodanese.				inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		GGGCATCACTCGGCTTGGTTC	0.468													4	106	---	---	---	---	PASS	A	221912353	A	A	221912353	3	1	107	1	0	0	0	0	1	0	0	0	4810	884	31	2	726	2	DUSP10	1	221912353	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1758786	221912353	27338268	32	39065										
HHIPL2	79802	broad.mit.edu	37	chr1	222717398	222717398	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cctggaggccgcggtcattgGtcagcagggaaatggctgag	17	9	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:222717398G>A	uc001hnh.1	-	2	513	c.455C>T	c.(454-456)ACC>ATC	p.T152I		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	152					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		GCGGTCATTGGTCAGCAGGGA	0.572													13	91	---	---	---	---	PASS	A	222717398	A	A	222717398	3	1	107	1	0	0	0	0	1	0	0	0	7094	1261	44	3	1751	3	HHIPL2	1	222717398	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	805045	222717398	26533223	33	39066										
VN1R5	317705	broad.mit.edu	37	chr1	247420126	247420126	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	acaataagaggctatctcagTgccttcacacagccagcctg	8	13	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:247420126T>A	uc010pyu.1	+	2	753	c.753T>A	c.(751-753)AGT>AGA	p.S251R		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	251	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			GCTATCTCAGTGCCTTCACAC	0.468													25	90	---	---	---	---	PASS	A	247420126	A	A	247420126	3	1	107	1	0	0	0	0	1	0	0	0	17178	1693	59	5	755	5	VN1R5	1	247420126	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	24702728	247420126	1830495	34	39067										
OR2G2	81470	broad.mit.edu	37	chr1	247751925	247751926	+	Frame_Shift_Ins	INS	-	T	T													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cccagctcctggtaaacctgINStgggaacccatgaaaactat							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:247751925_247751926insT	uc010pyy.1	+	1	264_265	c.264_265insT	c.(262-267)CTGTGGfs	p.L88fs		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	88_89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TGGTAAACCTGTGGGAACCCAT	0.515													50	50	---	---	---	---		T	247751926	T	T	247751925	7	5	107	1	0	1	1	0	0	0	0	0	10998	1364	48	0	266	0	OR2G2	1	247751925	Frame_Shift_Ins	INS	-	TCGA-46-3768-01A-01D-0983-08	331799	247751925	1498696	35	39068										
OR2T33	391195	broad.mit.edu	37	chr1	248436684	248436684	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgcacccaggagccaacacgAcatggtcatcctcaggcaca	9	15	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:248436684A>G	uc010pzi.1	-	1	433	c.433T>C	c.(433-435)TCG>CCG	p.S145P		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AGCCAACACGACATGGTCATC	0.577													43	116	---	---	---	---	PASS	G	248436684	G	G	248436684	3	3	107	1	0	0	0	0	1	0	0	0	11024	275	10	5	532	5	OR2T33	1	248436684	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	684759	248436684	813937	36	39069										
OR14C36	127066	broad.mit.edu	37	chr1	248512734	248512734	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcaggtcttacattcacatcTtttcgaccgtgctcgggttt	8	11	4	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:248512734T>A	uc010pzl.1	+	1	658	c.658T>A	c.(658-660)TTT>ATT	p.F220I		NM_001001918	NP_001001918	Q8NHC7	O14CZ_HUMAN	olfactory receptor, family 14, subfamily C,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						CATTCACATCTTTTCGACCGT	0.498													18	59	---	---	---	---	PASS	A	248512734	A	A	248512734	3	1	107	1	0	0	0	0	1	0	0	0	10946	1609	56	5	660	5	OR14C36	1	248512734	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	76050	248512734	737887	37	39070										
OR14I1	401994	broad.mit.edu	37	chr1	248845378	248845378	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gagttacggatggatttaggCacagtgactgagatgtagca	14	5	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:248845378C>A	uc001ieu.1	-	1	228	c.228G>T	c.(226-228)GTG>GTT	p.V76V		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	76	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGGATTTAGGCACAGTGACTG	0.473													11	38	---	---	---	---	PASS	A	248845378	A	A	248845378	2	1	107	1	0	0	0	0	0	0	0	1	10947	697	25	3		3	OR14I1	1	248845378	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	332644	248845378	405243	38	39071										
SMC6	79677	broad.mit.edu	37	chr2	17906556	17906556	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atgtatctgctcctttgttcTttctttcgtttccataatgt	5	9	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:17906556T>C	uc002rco.2	-	9	990	c.694A>G	c.(694-696)AGA>GGA	p.R232G	SMC6_uc010exo.2_Missense_Mutation_p.R232G|SMC6_uc002rcn.2_Missense_Mutation_p.R232G|SMC6_uc002rcp.1_Missense_Mutation_p.R258G|SMC6_uc002rcq.2_Missense_Mutation_p.R258G|SMC6_uc002rcr.1_Missense_Mutation_p.R232G	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	232	Potential.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TCCTTTGTTCTTTCTTTCGTT	0.303													26	28	---	---	---	---	PASS	C	17906556	C	C	17906556	3	2	107	1	0	0	0	0	1	0	0	0	14787	1617	56	5	2661	5	SMC6	2	17906556	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08		17906556	225292817	39	39072										
APOB	338	broad.mit.edu	37	chr2	21232746	21232746	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tctgaaggcattgattttctCagctacttcaaaatccccaa	5	11	3	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:21232746C>T	uc002red.2	-	26	7122	c.6994G>A	c.(6994-6996)GAG>AAG	p.E2332K		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2332					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTGATTTTCTCAGCTACTTCA	0.343													13	84	---	---	---	---	PASS	T	21232746	T	T	21232746	3	4	107	1	0	0	0	0	1	0	0	0	785	835	29	2	6713	2	APOB	2	21232746	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	3326190	21232746	221966627	40	39073										
DPYSL5	56896	broad.mit.edu	37	chr2	27121593	27121593	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tccaccagaccttcatgaatGccacgtgcgtggacgacttc	9	14	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:27121593G>T	uc002rhu.3	+	2	384	c.226G>T	c.(226-228)GCC>TCC	p.A76S	DPYSL5_uc002rhv.3_Missense_Mutation_p.A76S	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	76					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTCATGAATGCCACGTGCGT	0.537													14	40	---	---	---	---	PASS	T	27121593	T	T	27121593	3	4	107	1	0	0	0	0	1	0	0	0	4750	1319	46	3	228	3	DPYSL5	2	27121593	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	5888847	27121593	216077780	41	39074										
C2orf16	84226	broad.mit.edu	37	chr2	27800671	27800671	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tctgacctgtaagcaatggcTacaaatggaggaatctttag	10	7	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:27800671T>A	uc002rkz.3	+	1	1283	c.1232T>A	c.(1231-1233)CTA>CAA	p.L411Q		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	411										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					AAGCAATGGCTACAAATGGAG	0.468													16	68	---	---	---	---	PASS	A	27800671	A	A	27800671	3	1	107	1	0	0	0	0	1	0	0	0	2157	1522	53	5	1234	5	C2orf16	2	27800671	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	679078	27800671	215398702	42	39075										
C2orf16	84226	broad.mit.edu	37	chr2	27801331	27801331	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aggaattgaagcaataaattGtgtggatttacttccaaggc	10	5	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:27801331G>A	uc002rkz.3	+	1	1943	c.1892G>A	c.(1891-1893)TGT>TAT	p.C631Y		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	631										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					GCAATAAATTGTGTGGATTTA	0.408													54	22	---	---	---	---	PASS	A	27801331	A	A	27801331	3	1	107	1	0	0	0	0	1	0	0	0	2157	1377	48	3	1894	3	C2orf16	2	27801331	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	660	27801331	215398042	43	39076										
GPN1	11321	broad.mit.edu	37	chr2	27852010	27852010	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgttggtgttgggaatggcgGgatccgggaaaaccactttt	15	6	0	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:27852010G>T	uc010ymc.1	+	1	148	c.127G>T	c.(127-129)GGA>TGA	p.G43*	ZNF512_uc010yly.1_Intron|CCDC121_uc010eze.2_5'Flank|CCDC121_uc002rld.2_5'Flank|CCDC121_uc002rle.2_5'Flank|GPN1_uc010ezf.2_Intron|GPN1_uc010yma.1_Intron|GPN1_uc010ymb.1_Intron|GPN1_uc010ymd.1_5'UTR|GPN1_uc010yme.1_Nonsense_Mutation_p.G43*|GPN1_uc010ezg.1_5'Flank	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	29	GTP (Pootential).					cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						GGGAATGGCGGGATCCGGGAA	0.622													8	38	---	---	---	---	PASS	T	27852010	T	T	27852010	4	4	107	1	0	0	0	0	0	1	0	0	6617	1233	43	3	140	3	GPN1	2	27852010	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	50679	27852010	215347363	44	39077										
SLC4A1AP	22950	broad.mit.edu	37	chr2	27887973	27887973	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccttggttcatcagggaccaGaggaagaccgagaggcagaa	14	9	2	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:27887973G>T	uc002rlk.3	+	2	1114	c.832G>T	c.(832-834)GAG>TAG	p.E278*	SUPT7L_uc002rlh.1_5'Flank|SUPT7L_uc002rli.1_5'Flank|SUPT7L_uc010ymf.1_5'Flank|SUPT7L_uc002rlj.1_5'Flank|SUPT7L_uc010ezh.1_5'Flank	NM_018158	NP_060628	Q9BWU0	NADAP_HUMAN	solute carrier family 4 (anion exchanger),	278						cytoplasm|nucleus	double-stranded RNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)					TCAGGGACCAGAGGAAGACCG	0.294													7	135	---	---	---	---	PASS	T	27887973	T	T	27887973	4	4	107	1	0	0	0	0	0	1	0	0	14653	943	33	2	838	2	SLC4A1AP	2	27887973	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	35963	27887973	215311400	45	39078										
PLEKHH2	130271	broad.mit.edu	37	chr2	43927638	43927638	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgatgatggattattttcctAtgactccttggactctccaa	7	9	1	3	rs144437669		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:43927638A>G	uc010yny.1	+	8	1624	c.1541A>G	c.(1540-1542)TAT>TGT	p.Y514C	PLEKHH2_uc002rte.3_Missense_Mutation_p.Y514C|PLEKHH2_uc002rtf.3_Missense_Mutation_p.Y513C	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	514						cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TTATTTTCCTATGACTCCTTG	0.448													22	124	---	---	---	---	PASS	G	43927638	G	G	43927638	3	3	107	1	0	0	0	0	1	0	0	0	12077	449	16	5	1567	5	PLEKHH2	2	43927638	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	16039665	43927638	199271735	46	39079										
MSH6	2956	broad.mit.edu	37	chr2	48027187	48027187	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctgctctaggtggttgtgtcTtctacctcaaaaaatgcctt	8	10	4	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:48027187T>G	uc002rwd.3	+	4	2217	c.2065T>G	c.(2065-2067)TTC>GTC	p.F689V	MSH6_uc002rwc.2_Missense_Mutation_p.F689V|MSH6_uc010fbj.2_Missense_Mutation_p.F387V|MSH6_uc010yoi.1_Missense_Mutation_p.F559V|MSH6_uc010yoj.1_Missense_Mutation_p.F387V	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	689					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TGGTTGTGTCTTCTACCTCAA	0.423			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				42	152	---	---	---	---	PASS	G	48027187	G	G	48027187	3	3	107	1	0	0	0	0	1	0	0	0	9874	1609	56	5	2079	5	MSH6	2	48027187	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	4099549	48027187	195172186	47	39080										
FANCL	55120	broad.mit.edu	37	chr2	58392929	58392929	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agtacccaggtcttctcatcGatttcatccataacatccca	4	14	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:58392929G>T	uc002rzw.3	-	8	688	c.621C>A	c.(619-621)ATC>ATA	p.I207I	FANCL_uc002rzx.3_Silent_p.I212I|FANCL_uc010fce.2_Silent_p.I207I|FANCL_uc010fcf.1_Silent_p.I148I	NM_018062	NP_060532	Q9NW38	FANCL_HUMAN	Fanconi anemia, complementation group L isoform	207					DNA repair	cytoplasm|nucleoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TCTTCTCATCGATTTCATCCA	0.408								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				52	25	---	---	---	---	PASS	T	58392929	T	T	58392929	2	4	107	1	0	0	0	0	0	0	0	1	5670	1048	37	2		2	FANCL	2	58392929	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	10365742	58392929	184806444	48	39081										
C2orf86	51057	broad.mit.edu	37	chr2	63720003	63720003	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	catttacccgcaatgtgtaaGgtattcttcaaagaccacag	7	10	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:63720003G>T	uc002sch.2	-	2	593	c.147C>A	c.(145-147)ACC>ACA	p.T49T	C2orf86_uc002sci.1_Silent_p.T25T	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	49					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						CAATGTGTAAGGTATTCTTCA	0.348													8	235	---	---	---	---	PASS	T	63720003	T	T	63720003	2	4	107	1	0	0	0	0	0	0	0	1	2201	987	35	3		3	C2orf86	2	63720003	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	5327074	63720003	179479370	49	39082										
DYSF	8291	broad.mit.edu	37	chr2	71883310	71883310	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aggtctatgacacacagctgGagaatgtggaggcctttgag	14	7	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:71883310G>T	uc002sie.2	+	42	4904	c.4528G>T	c.(4528-4530)GAG>TAG	p.E1510*	DYSF_uc010feg.2_Nonsense_Mutation_p.E1541*|DYSF_uc010feh.2_Nonsense_Mutation_p.E1517*|DYSF_uc002sig.3_Nonsense_Mutation_p.E1496*|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Nonsense_Mutation_p.E1531*|DYSF_uc010fef.2_Nonsense_Mutation_p.E1548*|DYSF_uc010fei.2_Nonsense_Mutation_p.E1527*|DYSF_uc010fek.2_Nonsense_Mutation_p.E1528*|DYSF_uc010fej.2_Nonsense_Mutation_p.E1518*|DYSF_uc010fel.2_Nonsense_Mutation_p.E1497*|DYSF_uc010feo.2_Nonsense_Mutation_p.E1542*|DYSF_uc010fem.2_Nonsense_Mutation_p.E1532*|DYSF_uc010fen.2_Nonsense_Mutation_p.E1549*|DYSF_uc002sif.2_Nonsense_Mutation_p.E1511*|DYSF_uc010yqy.1_Nonsense_Mutation_p.E391*|DYSF_uc010yqz.1_Nonsense_Mutation_p.E271*	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1510	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CACACAGCTGGAGAATGTGGA	0.358													7	175	---	---	---	---	PASS	T	71883310	T	T	71883310	4	4	107	1	0	0	0	0	0	1	0	0	4859	1175	41	2	4953	2	DYSF	2	71883310	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	8163307	71883310	171316063	50	39083										
ALMS1	7840	broad.mit.edu	37	chr2	73762076	73762076	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccgttgaaagctcccattcaGgtattatgcagaaattattc	7	9	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:73762076G>T	uc002sje.1	+	14	10021	c.9910G>T	c.(9910-9912)GGA>TGA	p.G3304*	ALMS1_uc002sjf.1_Nonsense_Mutation_p.G3260*|ALMS1_uc002sjg.2_Nonsense_Mutation_p.G2690*|ALMS1_uc002sjh.1_Nonsense_Mutation_p.G2690*|ALMS1_uc010fev.1_Missense_Mutation_p.D119Y	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3302					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CTCCCATTCAGGTATTATGCA	0.358													10	233	---	---	---	---	PASS	T	73762076	T	T	73762076	4	4	107	1	0	0	0	0	0	1	0	0	535	1014	35	3	9950	3	ALMS1	2	73762076	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1878766	73762076	169437297	51	39084										
LRRTM4	80059	broad.mit.edu	37	chr2	77746050	77746050	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aaaggacaaatgctccgactGcattcccacatatttccaga	6	12	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:77746050G>A	uc002snr.2	-	3	1360	c.945C>T	c.(943-945)TGC>TGT	p.C315C	LRRTM4_uc002snq.2_Silent_p.C315C|LRRTM4_uc002sns.2_Silent_p.C315C|LRRTM4_uc002snt.2_Silent_p.C316C	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	315	LRRCT.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TGCTCCGACTGCATTCCCACA	0.393													6	19	---	---	---	---	PASS	A	77746050	A	A	77746050	2	1	107	1	0	0	0	0	0	0	0	1	9042	1311	46	3		3	LRRTM4	2	77746050	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	3983974	77746050	165453323	52	39085										
LRRTM4	80059	broad.mit.edu	37	chr2	77746622	77746622	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgggtgaaatgttttattgtGcagataagtaattttgttgg	12	1	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:77746622G>C	uc002snr.2	-	3	788	c.373C>G	c.(373-375)CAC>GAC	p.H125D	LRRTM4_uc002snq.2_Missense_Mutation_p.H125D|LRRTM4_uc002sns.2_Missense_Mutation_p.H125D|LRRTM4_uc002snt.2_Missense_Mutation_p.H126D	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	125	LRR 3.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GTTTTATTGTGCAGATAAGTA	0.383													15	59	---	---	---	---	PASS	C	77746622	C	C	77746622	3	2	107	1	0	0	0	0	1	0	0	0	9042	1319	46	4	1413	4	LRRTM4	2	77746622	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	572	77746622	165452751	53	39086										
POLR1A	25885	broad.mit.edu	37	chr2	86292414	86292414	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tacctgttttcctgtccacaGcggaaagggcttcaggatgg	12	10	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:86292414G>A	uc002sqs.2	-	14	2420	c.2041C>T	c.(2041-2043)CTG>TTG	p.L681L	POLR1A_uc010ytb.1_Silent_p.L47L	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	681					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						CCTGTCCACAGCGGAAAGGGC	0.493													14	114	---	---	---	---	PASS	A	86292414	A	A	86292414	2	1	107	1	0	0	0	0	0	0	0	1	12209	962	34	3		3	POLR1A	2	86292414	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	8545792	86292414	156906959	54	39087										
RMND5A	64795	broad.mit.edu	37	chr2	86980655	86980655	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agaatattagaggcattaaaGgtcagagttctgagacctgc	11	6	2	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:86980655G>T	uc010ytm.1	+	4	872	c.495G>T	c.(493-495)AAG>AAT	p.K165N	RMND5A_uc002srs.3_Intron|RMND5A_uc002srr.2_Missense_Mutation_p.K165N	NM_022780	NP_073617	Q9H871	RMD5A_HUMAN	required for meiotic nuclear division 5 homolog	165	CTLH.									ovary(1)|skin(1)	2						AGGCATTAAAGGTCAGAGTTC	0.368													5	71	---	---	---	---	PASS	T	86980655	T	T	86980655	3	4	107	1	0	0	0	0	1	0	0	0	13397	991	35	3	509	3	RMND5A	2	86980655	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	688241	86980655	156218718	55	39088										
FER1L5	90342	broad.mit.edu	37	chr2	97370014	97370014	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aaacttctgctatattttctGgaaacgctatcgcttcaaac	5	10	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:97370014G>T	uc010fia.2	+	51	5972	c.5972G>T	c.(5971-5973)TGG>TTG	p.W1991L	FER1L5_uc002sws.3_Missense_Mutation_p.W700L|FER1L5_uc002swt.3_Missense_Mutation_p.W700L|FER1L5_uc010yus.1_Missense_Mutation_p.W699L	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1991						integral to membrane				ovary(1)	1						TATATTTTCTGGAAACGCTAT	0.473													7	147	---	---	---	---	PASS	T	97370014	T	T	97370014	3	4	107	1	0	0	0	0	1	0	0	0	5814	1357	47	3	6174	3	FER1L5	2	97370014	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	10389359	97370014	145829359	56	39089										
CNNM4	26504	broad.mit.edu	37	chr2	97427870	97427870	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	actgtagaggatatcatgacCcagctccaggactgcttcat	9	11	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:97427870C>A	uc002swx.2	+	1	1232	c.1134C>A	c.(1132-1134)ACC>ACA	p.T378T		NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	378	CBS 1.				biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						ATATCATGACCCAGCTCCAGG	0.522													5	60	---	---	---	---	PASS	A	97427870	A	A	97427870	2	1	107	1	0	0	0	0	0	0	0	1	3615	610	22	3		3	CNNM4	2	97427870	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	57856	97427870	145771503	57	39090										
MAP4K4	9448	broad.mit.edu	37	chr2	102314986	102314986	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tggttggaaatggcacctatGgacaagtctataaggtcggt	13	6	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:102314986G>T	uc002tbg.2	+	2	164	c.109G>T	c.(109-111)GGA>TGA	p.G37*	MAP4K4_uc002tbc.2_Nonsense_Mutation_p.G37*|MAP4K4_uc002tbd.2_Nonsense_Mutation_p.G37*|MAP4K4_uc002tbe.2_Nonsense_Mutation_p.G37*|MAP4K4_uc002tbf.2_Nonsense_Mutation_p.G37*|MAP4K4_uc010yvy.1_Nonsense_Mutation_p.G37*|MAP4K4_uc002tbh.2_Nonsense_Mutation_p.G37*|MAP4K4_uc002tbi.2_Nonsense_Mutation_p.G37*	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	37	Protein kinase.|ATP (By similarity).				intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TGGCACCTATGGACAAGTCTA	0.488													12	492	---	---	---	---	PASS	T	102314986	T	T	102314986	4	4	107	1	0	0	0	0	0	1	0	0	9262	1349	47	3	115	3	MAP4K4	2	102314986	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	4887116	102314986	140884387	58	39091										
RANBP2	5903	broad.mit.edu	37	chr2	109379712	109379712	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gggcccagtctatggcatgaAtaggcttccaccccaacagc	10	14	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:109379712A>G	uc002tem.3	+	20	2843	c.2717A>G	c.(2716-2718)AAT>AGT	p.N906S		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	906					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TATGGCATGAATAGGCTTCCA	0.408													33	51	---	---	---	---	PASS	G	109379712	G	G	109379712	3	3	107	1	0	0	0	0	1	0	0	0	13028	101	4	5	2795	5	RANBP2	2	109379712	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	7064726	109379712	133819661	59	39092										
SAP130	79595	broad.mit.edu	37	chr2	128767876	128767876	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cagtagcatgcgccgctgtcGtagtgatgactggagactga	14	9	0	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:128767876G>A	uc002tpp.2	-	7	1046	c.914C>T	c.(913-915)ACG>ATG	p.T305M	SAP130_uc002tpn.2_Missense_Mutation_p.T66M|SAP130_uc002tpo.2_Missense_Mutation_p.T50M|SAP130_uc010fmd.2_Missense_Mutation_p.T305M|SAP130_uc002tpq.1_Missense_Mutation_p.T279M	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	305					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		CGCCGCTGTCGTAGTGATGAC	0.512													47	7	---	---	---	---	PASS	A	128767876	A	A	128767876	3	1	107	1	0	0	0	0	1	0	0	0	13831	1145	40	1	2397	1	SAP130	2	128767876	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	19388164	128767876	114431497	60	39093										
TUBA3D	113457	broad.mit.edu	37	chr2	132237812	132237812	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caggtctccacagccgtggtGgagccctacaactccatcct	9	16	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:132237812G>T	uc002tsu.3	+	4	653	c.546G>T	c.(544-546)GTG>GTT	p.V182V		NM_080386	NP_525125	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	182					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(221;0.13)		CAGCCGTGGTGGAGCCCTACA	0.552													6	128	---	---	---	---	PASS	T	132237812	T	T	132237812	2	4	107	1	0	0	0	0	0	0	0	1	16744	1335	47	3		3	TUBA3D	2	132237812	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	3469936	132237812	110961561	61	39094										
XIRP2	129446	broad.mit.edu	37	chr2	168107064	168107064	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agtcttgatgaaacatcatcCaaagtatctaatgttcatgt	6	7	4	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:168107064C>A	uc002udx.2	+	8	9180	c.9162C>A	c.(9160-9162)TCC>TCA	p.S3054S	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.S2879S|XIRP2_uc010fpq.2_Silent_p.S2832S|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2879					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAACATCATCCAAAGTATCTA	0.353													6	133	---	---	---	---	PASS	A	168107064	A	A	168107064	2	1	107	1	0	0	0	0	0	0	0	1	17427	581	21	3		3	XIRP2	2	168107064	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	35869252	168107064	75092309	62	39095										
HOXD10	3236	broad.mit.edu	37	chr2	176983941	176983941	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cggatccgagaactgaccgcCaacctcacgttttcttaggt	9	13	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:176983941C>A	uc002ukj.2	+	2	1075	c.1005C>A	c.(1003-1005)GCC>GCA	p.A335A		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	335						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		AACTGACCGCCAACCTCACGT	0.463													5	82	---	---	---	---	PASS	A	176983941	A	A	176983941	2	1	107	1	0	0	0	0	0	0	0	1	7319	581	21	3		3	HOXD10	2	176983941	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	8876877	176983941	66215432	63	39096										
NFE2L2	4780	broad.mit.edu	37	chr2	178098960	178098960	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttctcgacttactccaagatCtatatcttgcctccaaagta	4	12	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:178098960C>G	uc002ulh.3	-	2	640	c.85G>C	c.(85-87)GAT>CAT	p.D29H	NFE2L2_uc002ulg.3_Missense_Mutation_p.D13H|NFE2L2_uc010zfa.1_Missense_Mutation_p.D13H|NFE2L2_uc002uli.3_Missense_Mutation_p.D13H|NFE2L2_uc010fra.2_Missense_Mutation_p.D13H|NFE2L2_uc010frb.2_Missense_Mutation_p.D13H	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	29					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			ACTCCAAGATCTATATCTTGC	0.363			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			39	5	---	---	---	---	PASS	G	178098960	G	G	178098960	3	3	107	1	0	0	0	0	1	0	0	0	10368	913	32	2	1748	2	NFE2L2	2	178098960	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1115019	178098960	65100413	64	39097										
TTC30B	150737	broad.mit.edu	37	chr2	178415699	178415699	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gaagcatgattgtgtgttttGacatgttttctaacaaggac	10	5	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:178415699G>C	uc002uln.2	-	1	1826	c.1793C>G	c.(1792-1794)TCA>TGA	p.S598*	TTC30B_uc010zfc.1_Nonsense_Mutation_p.S370*	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	598					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			TGTGTGTTTTGACATGTTTTC	0.388													7	165	---	---	---	---	PASS	C	178415699	C	C	178415699	4	2	107	1	0	0	0	0	0	1	0	0	16696	1294	45	2	208	2	TTC30B	2	178415699	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	316739	178415699	64783674	65	39098										
HECW2	57520	broad.mit.edu	37	chr2	197157413	197157413	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gttcaaagtggtgggtgtccCtccggactttggtgatcatg	14	8	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:197157413C>A	uc002utm.1	-	14	3059	c.2876G>T	c.(2875-2877)AGG>ATG	p.R959M	HECW2_uc002utl.1_Missense_Mutation_p.R603M	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	959	Interaction with TP73.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						GTGGGTGTCCCTCCGGACTTT	0.493													51	4	---	---	---	---	PASS	A	197157413	A	A	197157413	3	1	107	1	0	0	0	0	1	0	0	0	7043	681	24	3	1906	3	HECW2	2	197157413	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	18741714	197157413	46041960	66	39099										
PLCL1	5334	broad.mit.edu	37	chr2	198949015	198949015	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gatgttgatgggaatgggatTatgttggaagacacctctgt	14	4	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:198949015T>C	uc010fsp.2	+	2	1065	c.774T>C	c.(772-774)ATT>ATC	p.I258I	PLCL1_uc002uuv.3_Silent_p.I179I	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	258					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	GGAATGGGATTATGTTGGAAG	0.423													15	114	---	---	---	---	PASS	C	198949015	C	C	198949015	2	2	107	1	0	0	0	0	0	0	0	1	12039	1742	61	5		5	PLCL1	2	198949015	Silent	SNP	T	TCGA-46-3768-01A-01D-0983-08	1791602	198949015	44250358	67	39100										
INHA	3623	broad.mit.edu	37	chr2	220439980	220439980	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccaggagctgggctgggaacGgtggatcgtgtaccctccca	15	12	0	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:220439980G>T	uc002vmk.1	+	2	977	c.833G>T	c.(832-834)CGG>CTG	p.R278L		NM_002191	NP_002182	P05111	INHA_HUMAN	inhibin alpha subunit precursor	278					cell cycle arrest|cell surface receptor linked signaling pathway|cell-cell signaling|erythrocyte differentiation|hemoglobin biosynthetic process|induction of apoptosis|negative regulation of B cell differentiation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|regulation of cell proliferation|response to external stimulus|skeletal system development	inhibin A complex|inhibin-betaglycan-ActRII complex	cytokine activity|growth factor activity|hormone activity|signal transducer activity			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;4.58e-07)|all cancers(144;4.31e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		GGCTGGGAACGGTGGATCGTG	0.612													49	6	---	---	---	---	PASS	T	220439980	T	T	220439980	3	4	107	1	0	0	0	0	1	0	0	0	7740	1116	39	1	839	1	INHA	2	220439980	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	21490965	220439980	22759393	68	39101										
COL4A3	1285	broad.mit.edu	37	chr2	228148491	228148491	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttgtttccataggtgaagatGgagtgattgggatgatgggc	16	3	0	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:228148491G>T	uc002vom.1	+	33	2827	c.2665G>T	c.(2665-2667)GGA>TGA	p.G889*	COL4A3_uc002von.1_Nonsense_Mutation_p.G889*|COL4A3_uc002voo.1_Nonsense_Mutation_p.G889*|COL4A3_uc002vop.1_Nonsense_Mutation_p.G889*|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	889	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)		AGGTGAAGATGGAGTGATTGG	0.458													5	71	---	---	---	---	PASS	T	228148491	T	T	228148491	4	4	107	1	0	0	0	0	0	1	0	0	3691	1349	47	3	2795	3	COL4A3	2	228148491	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	7708511	228148491	15050882	69	39102										
BTD	686	broad.mit.edu	37	chr3	15677003	15677003	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgcggctgttacgtggttgcCctgggagcccacaccgggga	16	12	0	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:15677003C>T	uc003cah.2	+	2	220	c.117C>T	c.(115-117)GCC>GCT	p.A39A	BTD_uc011avv.1_Silent_p.A41A|BTD_uc011avw.1_Silent_p.A41A|BTD_uc011avx.1_Silent_p.A19A	NM_000060	NP_000051	P43251	BTD_HUMAN	biotinidase precursor	39					central nervous system development|epidermis development|nitrogen compound metabolic process	extracellular space	biotin carboxylase activity|biotinidase activity				0						ACGTGGTTGCCCTGGGAGCCC	0.537													6	59	---	---	---	---	PASS	T	15677003	T	T	15677003	2	4	107	1	0	0	0	0	0	0	0	1	1550	610	22	3		3	BTD	3	15677003	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08		15677003	182345427	70	39103										
KCNH8	131096	broad.mit.edu	37	chr3	19554758	19554758	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cataataaaaggaaagagaaGaacttgaaattgcaactttc	7	5	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:19554758G>T	uc003cbk.1	+	13	2571	c.2376G>T	c.(2374-2376)AAG>AAT	p.K792N	KCNH8_uc010hex.1_Missense_Mutation_p.K253N	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	792	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						GGAAAGAGAAGAACTTGAAAT	0.448													19	28	---	---	---	---	PASS	T	19554758	T	T	19554758	3	4	107	1	0	0	0	0	1	0	0	0	8038	933	33	2	2426	2	KCNH8	3	19554758	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	3877755	19554758	178467672	71	39104										
BSN	8927	broad.mit.edu	37	chr3	49692819	49692819	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gcagcagccccttctatggtCcccgggaccctgagcctcct	10	18	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:49692819C>T	uc003cxe.3	+	5	5944	c.5830C>T	c.(5830-5832)CCC>TCC	p.P1944S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1944					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CTTCTATGGTCCCCGGGACCC	0.687													7	12	---	---	---	---	PASS	T	49692819	T	T	49692819	3	4	107	1	0	0	0	0	1	0	0	0	1530	855	30	2	5848	2	BSN	3	49692819	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	30138061	49692819	148329611	72	39105										
SLMAP	7871	broad.mit.edu	37	chr3	57908716	57908716	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgagctcaaacagtgtaaaaAcaacctgaagctgctccgag	9	10	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:57908716A>G	uc003dje.1	+	21	2565	c.2360A>G	c.(2359-2361)AAC>AGC	p.N787S	SLMAP_uc003djd.1_Missense_Mutation_p.N770S|SLMAP_uc003djf.1_Missense_Mutation_p.N749S|SLMAP_uc003djg.1_Missense_Mutation_p.N381S|SLMAP_uc011bez.1_Missense_Mutation_p.N255S|SLMAP_uc011bfa.1_Missense_Mutation_p.N321S|SLMAP_uc003dji.1_Missense_Mutation_p.N321S|SLMAP_uc011bfb.1_Missense_Mutation_p.N321S|SLMAP_uc011bfc.1_Missense_Mutation_p.N280S	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	787	Cytoplasmic (Potential).|Potential.				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)		CAGTGTAAAAACAACCTGAAG	0.383													49	13	---	---	---	---	PASS	G	57908716	G	G	57908716	3	3	107	1	0	0	0	0	1	0	0	0	14749	43	2	5	2387	5	SLMAP	3	57908716	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	8215897	57908716	140113714	73	39106										
FLNB	2317	broad.mit.edu	37	chr3	58089694	58089694	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tccttcccacagagggtctgGaggagctggtgaagcagaaa	14	9	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:58089694G>T	uc003djj.2	+	10	1657	c.1492G>T	c.(1492-1494)GAG>TAG	p.E498*	FLNB_uc010hne.2_Nonsense_Mutation_p.E498*|FLNB_uc003djk.2_Nonsense_Mutation_p.E498*|FLNB_uc010hnf.2_Nonsense_Mutation_p.E498*|FLNB_uc003djl.2_Nonsense_Mutation_p.E329*|FLNB_uc003djm.2_Nonsense_Mutation_p.E329*	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	498	Filamin 3.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		AGAGGGTCTGGAGGAGCTGGT	0.517													5	47	---	---	---	---	PASS	T	58089694	T	T	58089694	4	4	107	1	0	0	0	0	0	1	0	0	5934	1175	41	2	1530	2	FLNB	3	58089694	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	180978	58089694	139932736	74	39107										
MINA	84864	broad.mit.edu	37	chr3	97664061	97664061	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	attaaacattctgtccagagGgataataccaggctttcctt	7	9	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:97664061G>T	uc003drz.1	-	10	1871	c.1365C>A	c.(1363-1365)TCC>TCA	p.S455S	MINA_uc003dry.1_Silent_p.S126S|MINA_uc003dsa.1_Silent_p.S454S|MINA_uc003dsb.1_Silent_p.S455S|MINA_uc003dsc.1_Silent_p.S454S	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	455					ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1						CTGTCCAGAGGGATAATACCA	0.373													12	176	---	---	---	---	PASS	T	97664061	T	T	97664061	2	4	107	1	0	0	0	0	0	0	0	1	9586	1219	43	3		3	MINA	3	97664061	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	39574367	97664061	100358369	75	39108										
TMEM45A	55076	broad.mit.edu	37	chr3	100295772	100295772	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cttttctttctcctcaggttGgttaaatctagacttaagag	7	8	4	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:100295772G>T	uc003dtz.1	+	6	1051	c.738G>T	c.(736-738)TTG>TTT	p.L246F	TMEM45A_uc003dua.1_Missense_Mutation_p.L262F|TMEM45A_uc003dub.1_RNA	NM_018004	NP_060474	Q9NWC5	TM45A_HUMAN	transmembrane protein 45A	246						integral to membrane				skin(2)|ovary(1)	3						TCCTCAGGTTGGTTAAATCTA	0.383													6	87	---	---	---	---	PASS	T	100295772	T	T	100295772	3	4	107	1	0	0	0	0	1	0	0	0	16166	1339	47	3	756	3	TMEM45A	3	100295772	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	2631711	100295772	97726658	76	39109										
CEP97	79598	broad.mit.edu	37	chr3	101476034	101476034	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aagattgccagatatcccagGaaagtggtaagaaatgaatt	10	5	0	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:101476034G>A	uc003dvk.1	+	8	1048	c.1021G>A	c.(1021-1023)GAA>AAA	p.E341K	CEP97_uc010hpm.1_Missense_Mutation_p.E307K|CEP97_uc011bhf.1_Missense_Mutation_p.E341K|CEP97_uc003dvl.1_Missense_Mutation_p.E37K|CEP97_uc003dvm.1_Missense_Mutation_p.E179K	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	341	CEP110 binding.					centrosome|nucleus	protein binding			ovary(2)	2						GATATCCCAGGAAAGTGGTAA	0.378													5	93	---	---	---	---	PASS	A	101476034	A	A	101476034	3	1	107	1	0	0	0	0	1	0	0	0	3263	1175	41	2	1051	2	CEP97	3	101476034	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1180262	101476034	96546396	77	39110										
MYH15	22989	broad.mit.edu	37	chr3	108175659	108175659	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcggtttggaaaaccttcacGgcatatcctagtcccttcca	7	13	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:108175659G>T	uc003dxa.1	-	20	2209	c.2152C>A	c.(2152-2154)CGT>AGT	p.R718S		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	718	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						AAACCTTCACGGCATATCCTA	0.433													60	121	---	---	---	---	PASS	T	108175659	T	T	108175659	3	4	107	1	0	0	0	0	1	0	0	0	10034	1116	39	1	3780	1	MYH15	3	108175659	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	6699625	108175659	89846771	78	39111										
BOC	91653	broad.mit.edu	37	chr3	112993496	112993496	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	catgagggcagtggccgggcGccaatcctctactatgtggt	14	11	1	1	rs139797362		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:112993496G>C	uc003dzx.2	+	9	2130	c.1509G>C	c.(1507-1509)GCG>GCC	p.A503A	BOC_uc003dzy.2_Silent_p.A503A|BOC_uc003dzz.2_Silent_p.A503A|BOC_uc003eab.2_Silent_p.A204A	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	503	Fibronectin type-III 1.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			GTGGCCGGGCGCCAATCCTCT	0.632													8	28	---	---	---	---	PASS	C	112993496	C	C	112993496	2	2	107	1	0	0	0	0	0	0	0	1	1481	1074	38	4		4	BOC	3	112993496	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	4817837	112993496	85028934	79	39112										
DRD3	1814	broad.mit.edu	37	chr3	113858465	113858465	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	catagacaaggacagtcactCcaaagggcaggtagaaggac	12	9	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:113858465C>A	uc003ebd.2	-	6	1028	c.605G>T	c.(604-606)GGA>GTA	p.G202V	DRD3_uc010hqn.1_Missense_Mutation_p.G202V|DRD3_uc003ebb.1_Missense_Mutation_p.G202V|DRD3_uc003ebc.1_Missense_Mutation_p.G202V	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	202	Helical; Name=5.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	GACAGTCACTCCAAAGGGCAG	0.512													62	147	---	---	---	---	PASS	A	113858465	A	A	113858465	3	1	107	1	0	0	0	0	1	0	0	0	4758	855	30	2	609	2	DRD3	3	113858465	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	864969	113858465	84163965	80	39113										
GOLGB1	2804	broad.mit.edu	37	chr3	121410336	121410336	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aaagtaccttcttcttgcaaGgctgttacttgtcttgttag	8	8	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:121410336G>T	uc003eei.3	-	14	7986	c.7860C>A	c.(7858-7860)GCC>GCA	p.A2620A	GOLGB1_uc010hrc.2_Silent_p.A2625A|GOLGB1_uc003eej.3_Silent_p.A2586A	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	2620	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CTTCTTGCAAGGCTGTTACTT	0.378													7	106	---	---	---	---	PASS	T	121410336	T	T	121410336	2	4	107	1	0	0	0	0	0	0	0	1	6565	987	35	3		3	GOLGB1	3	121410336	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	7551871	121410336	76612094	81	39114										
GOLGB1	2804	broad.mit.edu	37	chr3	121417435	121417435	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctactttgatgttcagtgctCgcctgttctttttcaactgc	7	11	3	1	rs112783488	byFrequency	TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:121417435C>A	uc003eei.3	-	13	2046	c.1920G>T	c.(1918-1920)GCG>GCT	p.A640A	GOLGB1_uc010hrc.2_Silent_p.A645A|GOLGB1_uc003eej.3_Silent_p.A606A|GOLGB1_uc011bjm.1_Silent_p.A526A|GOLGB1_uc010hrd.1_Silent_p.A604A	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	640	Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		GTTCAGTGCTCGCCTGTTCTT	0.373													6	102	---	---	---	---	PASS	A	121417435	A	A	121417435	2	1	107	1	0	0	0	0	0	0	0	1	6565	871	31	2		2	GOLGB1	3	121417435	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	7099	121417435	76604995	82	39115										
CD86	942	broad.mit.edu	37	chr3	121825266	121825266	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcagcttgtctgtttcattcCctgatgttacgagcaatatg	8	9	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:121825266C>A	uc003eet.2	+	4	738	c.622C>A	c.(622-624)CCT>ACT	p.P208T	CD86_uc011bjo.1_Missense_Mutation_p.P126T|CD86_uc011bjp.1_Missense_Mutation_p.P96T|CD86_uc003eeu.2_Missense_Mutation_p.P202T	NM_175862	NP_787058	P42081	CD86_HUMAN	CD86 antigen isoform 1	208	Ig-like C2-type.|Extracellular (Potential).				interspecies interaction between organisms|positive regulation of cell proliferation|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of lymphotoxin A biosynthetic process|positive regulation of T-helper 2 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation		coreceptor activity|protein binding			pancreas(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.156)	Abatacept(DB01281)	TGTTTCATTCCCTGATGTTAC	0.393													9	220	---	---	---	---	PASS	A	121825266	A	A	121825266	3	1	107	1	0	0	0	0	1	0	0	0	3043	623	22	3	636	3	CD86	3	121825266	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	407831	121825266	76197164	83	39116										
MUC13	56667	broad.mit.edu	37	chr3	124641091	124641092	+	Frame_Shift_Del	DEL	TC	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttgataggccatggaatgttTctcttctgggtcaaatgttt							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:124641091_124641092delTC	uc003ehq.1	-	4	717_718	c.693_694delGA	c.(691-696)GAGAAAfs	p.E231fs		NM_033049	NP_149038	Q9H3R2	MUC13_HUMAN	mucin 13, epithelial transmembrane	231_232	SEA.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane					0						ATGGAATGTTTCTCTTCTGGGT	0.361													22	55	---	---	---	---		-	124641092	-	-	124641091	7	5	107	1	0	1	0	1	0	0	0	0	9971	1792	62	0	873	0	MUC13	3	124641091	Frame_Shift_Del	DEL	TC	TCGA-46-3768-01A-01D-0983-08	2815825	124641091	73381339	84	39117										
MCM2	4171	broad.mit.edu	37	chr3	127337913	127337913	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggtgggcagccacgtcagacAccaccccagcaacaaggagg	13	14	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:127337913A>T	uc003ejp.2	+	13	2114	c.2057A>T	c.(2056-2058)CAC>CTC	p.H686L	MCM2_uc011bkm.1_Missense_Mutation_p.H556L|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.H639L	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	686					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						CACGTCAGACACCACCCCAGC	0.647													11	6	---	---	---	---	PASS	T	127337913	T	T	127337913	3	4	107	1	0	0	0	0	1	0	0	0	9386	159	6	5	2107	5	MCM2	3	127337913	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	2696822	127337913	70684517	85	39118										
DNAJC13	23317	broad.mit.edu	37	chr3	132169490	132169490	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	taatactgattctgtctttaGagatacaactgctataagca	6	7	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:132169490G>C	uc003eor.2	+	6	402	c.337_splice	c.e6-1	p.R113_splice	DNAJC13_uc010htq.1_Splice_Site_p.R113_splice	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13								heat shock protein binding			ovary(1)|breast(1)	2						TCTGTCTTTAGAGATACAACT	0.313													14	45	---	---	---	---	PASS	C	132169490	C	C	132169490	5	2	107	1	0	0	0	0	0	0	1	0	4632	956	33	2	354	2	DNAJC13	3	132169490	Splice_Site	SNP	G	TCGA-46-3768-01A-01D-0983-08	4831577	132169490	65852940	86	39119										
A4GNT	51146	broad.mit.edu	37	chr3	137849890	137849890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcttggcagcagactctacgGaacaggagaccaaatggggt	13	9	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:137849890G>T	uc003ers.2	-	2	411	c.209C>A	c.(208-210)TCC>TAC	p.S70Y		NM_016161	NP_057245	Q9UNA3	A4GCT_HUMAN	alpha-1,4-N-acetylglucosaminyltransferase	70	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	acetylglucosaminyltransferase activity|galactosyltransferase activity			central_nervous_system(1)	1						AGACTCTACGGAACAGGAGAC	0.527													7	138	---	---	---	---	PASS	T	137849890	T	T	137849890	3	4	107	1	0	0	0	0	1	0	0	0	7	1174	41	2	821	2	A4GNT	3	137849890	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	5680400	137849890	60172540	87	39120										
MRAS	22808	broad.mit.edu	37	chr3	138119441	138119441	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gacaaagccttccatgacctCgttagagtaattaggtgagc	10	9	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:138119441C>A	uc003esh.3	+	5	1074	c.513C>A	c.(511-513)CTC>CTA	p.L171L	MRAS_uc011bmi.1_Silent_p.L95L|MRAS_uc003esi.3_Silent_p.L171L|MRAS_uc011bmj.1_Silent_p.L95L	NM_012219	NP_036351	O14807	RASM_HUMAN	muscle RAS oncogene homolog precursor	171					actin cytoskeleton organization|muscle organ development|Ras protein signal transduction	intracellular|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity			lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TCCATGACCTCGTTAGAGTAA	0.542													6	239	---	---	---	---	PASS	A	138119441	A	A	138119441	2	1	107	1	0	0	0	0	0	0	0	1	9755	871	31	2		2	MRAS	3	138119441	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	269551	138119441	59902989	88	39121										
SI	6476	broad.mit.edu	37	chr3	164760854	164760854	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aagaggctcttacttcatatCcgtcagaattatggtttctg	8	8	4	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:164760854C>G	uc003fei.2	-	17	2059	c.1997G>C	c.(1996-1998)GGA>GCA	p.G666A		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	666	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)	TACTTCATATCCGTCAGAATT	0.353										HNSCC(35;0.089)			7	204	---	---	---	---	PASS	G	164760854	G	G	164760854	3	3	107	1	0	0	0	0	1	0	0	0	14297	855	30	2	3614	2	SI	3	164760854	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	26641413	164760854	33261576	89	39122										
SI	6476	broad.mit.edu	37	chr3	164793766	164793766	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgacaaaaaggacaatcagaGagatttccaatccactaaat	6	8	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:164793766G>C	uc003fei.2	-	2	97	c.35C>G	c.(34-36)TCT>TGT	p.S12C		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	12	Cytoplasmic.				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)	GACAATCAGAGAGATTTCCAA	0.264										HNSCC(35;0.089)			112	12	---	---	---	---	PASS	C	164793766	C	C	164793766	3	2	107	1	0	0	0	0	1	0	0	0	14297	942	33	2	5636	2	SI	3	164793766	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	32912	164793766	33228664	90	39123										
SLITRK3	22865	broad.mit.edu	37	chr3	164907978	164907978	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caatgtgatctagcattcctCggtaaaaaagaacctttaac	6	9	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:164907978C>A	uc003fej.3	-	2	1085	c.641G>T	c.(640-642)CGA>CTA	p.R214L	SLITRK3_uc003fek.2_Missense_Mutation_p.R214L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	214	Extracellular (Potential).|LRR 6.					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						TAGCATTCCTCGGTAAAAAAG	0.418										HNSCC(40;0.11)			5	171	---	---	---	---	PASS	A	164907978	A	A	164907978	3	1	107	1	0	0	0	0	1	0	0	0	14744	884	31	2	2296	2	SLITRK3	3	164907978	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	114212	164907978	33114452	91	39124										
PHC3	80012	broad.mit.edu	37	chr3	169846536	169846536	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccgcaacagtctgtggaggaGgaagagtctgaaatggcaac	14	8	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:169846536G>C	uc010hws.1	-	8	1752	c.1688C>G	c.(1687-1689)CCT>CGT	p.P563R	PHC3_uc003fgl.2_Missense_Mutation_p.P575R|PHC3_uc011bpq.1_Missense_Mutation_p.P522R|PHC3_uc011bpr.1_Missense_Mutation_p.P489R	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	563	Pro-rich.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			CTGTGGAGGAGGAAGAGTCTG	0.502													334	65	---	---	---	---	PASS	C	169846536	C	C	169846536	3	2	107	1	0	0	0	0	1	0	0	0	11818	1000	35	4	1295	4	PHC3	3	169846536	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	4938558	169846536	28175894	92	39125										
PHC3	80012	broad.mit.edu	37	chr3	169896648	169896648	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gtggtgatggtggtggtggtGgtactgctggttgttgttga	20	2	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:169896648G>T	uc010hws.1	-	2	121	c.57C>A	c.(55-57)ACC>ACA	p.T19T	PHC3_uc003fgl.2_Silent_p.T31T|PHC3_uc011bpq.1_Silent_p.T31T|PHC3_uc011bpr.1_Silent_p.T31T|PHC3_uc003fgm.2_Silent_p.T31T|PHC3_uc003fgo.1_Silent_p.T19T|PHC3_uc003fgp.3_Silent_p.T31T|PHC3_uc003fgq.3_Silent_p.T31T|PHC3_uc003fgr.1_RNA	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	19	Poly-Thr.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			tggtggtggtggtACTGCTGG	0.418													11	656	---	---	---	---	PASS	T	169896648	T	T	169896648	2	4	107	1	0	0	0	0	0	0	0	1	11818	1335	47	3		3	PHC3	3	169896648	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	50112	169896648	28125782	93	39126										
SKIL	6498	broad.mit.edu	37	chr3	170078995	170078995	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gctccgtgtattcaatgtctGgagtgttgtggaatgtttgc	13	6	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:170078995G>T	uc003fgu.2	+	2	1588	c.876G>T	c.(874-876)CTG>CTT	p.L292L	SKIL_uc011bps.1_Silent_p.L272L|SKIL_uc003fgv.2_Silent_p.L292L|SKIL_uc003fgw.2_Silent_p.L292L	NM_005414	NP_005405	P12757	SKIL_HUMAN	SKI-like isoform 1	292					cell cycle arrest|negative regulation of cell differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of axonogenesis|protein heterotrimerization|protein homotrimerization|regulation of apoptosis|regulation of apoptosis|response to antibiotic|response to growth factor stimulus|skeletal muscle tissue development	cytoplasm|PML body	chromatin binding|nucleotide binding|protein complex binding|protein domain specific binding|SMAD binding|transcription corepressor activity|transcription repressor activity			ovary(2)|skin(1)	3	all_cancers(22;7.13e-23)|all_epithelial(15;9.95e-28)|all_lung(20;1.23e-16)|Lung NSC(18;5.15e-16)|Ovarian(172;0.000337)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			TTCAATGTCTGGAGTGTTGTG	0.468													7	269	---	---	---	---	PASS	T	170078995	T	T	170078995	2	4	107	1	0	0	0	0	0	0	0	1	14358	1335	47	3		3	SKIL	3	170078995	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	182347	170078995	27943435	94	39127										
NLGN1	22871	broad.mit.edu	37	chr3	173997089	173997089	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgaaggcaaagatgttttgaGagaaaccattaagttcatgt	10	4	1	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:173997089G>T	uc003fio.1	+	6	1721	c.1298G>T	c.(1297-1299)AGA>ATA	p.R433I	NLGN1_uc010hww.1_Missense_Mutation_p.R473I|NLGN1_uc003fip.1_Missense_Mutation_p.R433I	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	450	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			GATGTTTTGAGAGAAACCATT	0.383													7	249	---	---	---	---	PASS	T	173997089	T	T	173997089	3	4	107	1	0	0	0	0	1	0	0	0	10461	942	33	2	1312	2	NLGN1	3	173997089	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	3918094	173997089	24025341	95	39128										
ACTL6A	86	broad.mit.edu	37	chr3	179292177	179292177	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gtggaatactagagcaaagaGagagaaactgacagagttaa	12	4	0	5			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:179292177G>T	uc003fjw.2	+	5	571	c.398G>T	c.(397-399)AGA>ATA	p.R133I	ACTL6A_uc003fjx.2_Missense_Mutation_p.R91I|ACTL6A_uc003fjy.2_Missense_Mutation_p.R91I	NM_004301	NP_004292	O96019	ACL6A_HUMAN	actin-like 6A isoform 1	133					chromatin remodeling|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|nervous system development|regulation of growth|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	Ino80 complex|npBAF complex|NuA4 histone acetyltransferase complex|plasma membrane|SWI/SNF complex	ATP binding|chromatin binding			ovary(1)	1	all_cancers(143;3.94e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)			AGAGCAAAGAGAGAGAAACTG	0.353													8	439	---	---	---	---	PASS	T	179292177	T	T	179292177	3	4	107	1	0	0	0	0	1	0	0	0	198	942	33	2	416	2	ACTL6A	3	179292177	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	5295088	179292177	18730253	96	39129										
USP13	8975	broad.mit.edu	37	chr3	179481915	179481915	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tagctatcatcacctccatgGgatttcagcgaaatcaggct	8	11	4	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:179481915G>T	uc003fkh.2	+	18	2299	c.2218G>T	c.(2218-2220)GGA>TGA	p.G740*		NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	740	UBA 2.				ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			CACCTCCATGGGATTTCAGCG	0.408													10	391	---	---	---	---	PASS	T	179481915	T	T	179481915	4	4	107	1	0	0	0	0	0	1	0	0	17041	1233	43	3	2288	3	USP13	3	179481915	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	189738	179481915	18540515	97	39130										
ATP11B	23200	broad.mit.edu	37	chr3	182554253	182554253	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gtttggacggagaaactaacCtgaaggtttgcttgcatatg	12	6	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:182554253C>A	uc003flb.2	+	6	804	c.547C>A	c.(547-549)CTG>ATG	p.L183M	ATP11B_uc003fla.2_Missense_Mutation_p.L183M	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	183	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			AGAAACTAACCTGAAGGTTTG	0.388													10	617	---	---	---	---	PASS	A	182554253	A	A	182554253	3	1	107	1	0	0	0	0	1	0	0	0	1120	680	24	3	569	3	ATP11B	3	182554253	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	3072338	182554253	15468177	98	39131										
EIF2B5	8893	broad.mit.edu	37	chr3	183860854	183860854	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttcagtgttccagaatgaaGttttaggaacactacagcgg	10	7	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:183860854G>A	uc003fmp.2	+	12	2033	c.1669G>A	c.(1669-1671)GTT>ATT	p.V557I	EIF2B5_uc003fmq.2_Missense_Mutation_p.V278I|EIF2B5_uc003fmr.2_5'Flank	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	557	W2.				astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			CCAGAATGAAGTTTTAGGAAC	0.438													8	106	---	---	---	---	PASS	A	183860854	A	A	183860854	3	1	107	1	0	0	0	0	1	0	0	0	5004	1029	36	3	1715	3	EIF2B5	3	183860854	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1306601	183860854	14161576	99	39132										
ECE2	9718	broad.mit.edu	37	chr3	184003289	184003289	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cctgaacaattacctgatctGgaacctggtgcaaaagacaa	8	10	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:184003289G>T	uc003fni.3	+	10	1564	c.1526G>T	c.(1525-1527)TGG>TTG	p.W509L	ECE2_uc011brh.1_Missense_Mutation_p.W362L|ECE2_uc003fnl.3_Missense_Mutation_p.W437L|ECE2_uc003fnm.3_Missense_Mutation_p.W391L|ECE2_uc003fnk.3_Missense_Mutation_p.W362L|ECE2_uc011bri.1_Missense_Mutation_p.W424L|ECE2_uc010hxv.2_Missense_Mutation_p.W153L	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	509	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TACCTGATCTGGAACCTGGTG	0.517											OREG0015945	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	313	---	---	---	---	PASS	T	184003289	T	T	184003289	3	4	107	1	0	0	0	0	1	0	0	0	4890	1357	47	3	2128	3	ECE2	3	184003289	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	142435	184003289	14019141	100	39133										
SENP2	59343	broad.mit.edu	37	chr3	185316246	185316246	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agtctctacaatgctgccagCttatttggattcccattcca	6	12	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:185316246C>T	uc003fpn.2	+	3	375	c.204C>T	c.(202-204)AGC>AGT	p.S68S	SENP2_uc011brv.1_Silent_p.S58S|SENP2_uc011brw.1_5'UTR	NM_021627	NP_067640	Q9HC62	SENP2_HUMAN	SUMO1/sentrin/SMT3 specific protease 2	68					mRNA transport|protein desumoylation|protein transport|proteolysis|regulation of Wnt receptor signaling pathway|transmembrane transport|Wnt receptor signaling pathway	cytoplasm|nuclear membrane|nuclear pore	protein binding|SUMO-specific protease activity				0	all_cancers(143;1.28e-10)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			ATGCTGCCAGCTTATTTGGAT	0.413													15	143	---	---	---	---	PASS	T	185316246	T	T	185316246	2	4	107	1	0	0	0	0	0	0	0	1	14047	796	28	3		3	SENP2	3	185316246	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	1312957	185316246	12706184	101	39134										
MASP1	5648	broad.mit.edu	37	chr3	186980345	186980345	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	acttacccacagccatgtagTgggcatcaaagcctgtgaaa	9	11	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:186980345T>A	uc003frh.1	-	3	733	c.401A>T	c.(400-402)CAC>CTC	p.H134L	MASP1_uc003fri.2_Missense_Mutation_p.H134L|MASP1_uc003frj.2_Missense_Mutation_p.H103L|MASP1_uc003frk.1_Missense_Mutation_p.H134L|MASP1_uc011bse.1_Missense_Mutation_p.H108L	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	134	Interaction with FCN2.|Interaction with MBL2.|Homodimerization (By similarity).|CUB 1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		AGCCATGTAGTGGGCATCAAA	0.507													43	179	---	---	---	---	PASS	A	186980345	A	A	186980345	3	1	107	1	0	0	0	0	1	0	0	0	9322	1696	59	5	2699	5	MASP1	3	186980345	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	1664099	186980345	11042085	102	39135										
ATP13A3	79572	broad.mit.edu	37	chr3	194151920	194151920	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	taacgagtcatttgaagatcCtctaagctatcatggaccaa	7	9	3	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:194151920C>T	uc003fty.3	-	22	2859	c.2457G>A	c.(2455-2457)GAG>GAA	p.E819E	ATP13A3_uc003ftz.1_Silent_p.E525E	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	819					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		TTTGAAGATCCTCTAAGCTAT	0.348													16	136	---	---	---	---	PASS	T	194151920	T	T	194151920	2	4	107	1	0	0	0	0	0	0	0	1	1125	680	24	3		3	ATP13A3	3	194151920	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	7171575	194151920	3870510	103	39136										
LRCH3	84859	broad.mit.edu	37	chr3	197598320	197598320	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgtcccaagcattcatgttcCctcaccagctgtagtaagtt	7	12	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:197598320C>A	uc011bul.1	+	19	2122	c.2117C>A	c.(2116-2118)CCC>CAC	p.P706H	LRCH3_uc003fyj.1_Missense_Mutation_p.P706H|LRCH3_uc011bum.1_Missense_Mutation_p.P654H|LRCH3_uc011bun.1_Missense_Mutation_p.P552H|LRCH3_uc003fyk.2_Missense_Mutation_p.P301H	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	706	CH.					extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		ATTCATGTTCCCTCACCAGCT	0.393													8	290	---	---	---	---	PASS	A	197598320	A	A	197598320	3	1	107	1	0	0	0	0	1	0	0	0	8934	623	22	3	2191	3	LRCH3	3	197598320	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	3446400	197598320	424110	104	39137										
ZNF518B	85460	broad.mit.edu	37	chr4	10445265	10445265	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	attttgtttttcttcctggaTaagtgtacttgtttggtttt	8	4	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:10445265T>A	uc003gmn.2	-	3	3175	c.2688A>T	c.(2686-2688)TTA>TTT	p.L896F		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	896					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						TCTTCCTGGATAAGTGTACTT	0.393													11	52	---	---	---	---	PASS	A	10445265	A	A	10445265	3	1	107	1	0	0	0	0	1	0	0	0	17960	1403	49	5	540	5	ZNF518B	4	10445265	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08		10445265	180709011	105	39138										
MED28	80306	broad.mit.edu	37	chr4	17623283	17623283	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttttcttacaaaaaagattGcagttatctgtccagaaacc	5	8	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:17623283G>T	uc003gpi.1	+	3	312	c.300G>T	c.(298-300)TTG>TTT	p.L100F	MED28_uc003gpj.2_RNA	NM_025205	NP_079481	Q9H204	MED28_HUMAN	mediator complex subunit 28	100					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|membrane|nucleus	actin binding				0						AAAAAAGATTGCAGTTATCTG	0.353													4	26	---	---	---	---	PASS	T	17623283	T	T	17623283	3	4	107	1	0	0	0	0	1	0	0	0	9446	1310	46	3	310	3	MED28	4	17623283	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	7178018	17623283	173530993	106	39139										
KIT	3815	broad.mit.edu	37	chr4	55564640	55564640	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atcatgatcaaaagtgtgaaAcgcgcctaccatcggctctg	9	11	3	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:55564640A>T	uc010igr.2	+	3	615	c.528A>T	c.(526-528)AAA>AAT	p.K176N	KIT_uc010igs.2_Missense_Mutation_p.K176N	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	176	Extracellular (Potential).|Ig-like C2-type 2.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	AAAGTGTGAAACGCGCCTACC	0.527		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				22	23	---	---	---	---	PASS	T	55564640	T	T	55564640	3	4	107	1	0	0	0	0	1	0	0	0	8329	40	2	5	538	5	KIT	4	55564640	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	37941357	55564640	135589636	107	39140										
KDR	3791	broad.mit.edu	37	chr4	55964865	55964865	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agggaaattatttttttaccCgcttaacggtccgtaggatg	10	7	0	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:55964865C>G	uc003has.2	-	16	2674	c.2372G>C	c.(2371-2373)CGG>CCG	p.R791P	KDR_uc003hat.1_Missense_Mutation_p.R791P	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	791	Cytoplasmic (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)	TTTTTTTACCCGCTTAACGGT	0.418			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			17	42	---	---	---	---	PASS	G	55964865	G	G	55964865	3	3	107	1	0	0	0	0	1	0	0	0	8139	666	23	4	1758	4	KDR	4	55964865	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	400225	55964865	135189411	108	39141										
REST	5978	broad.mit.edu	37	chr4	57796520	57796520	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcgaaaatcagtaacagaggTgaaagagatggatgtgcata	12	4	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:57796520T>A	uc003hch.2	+	4	1843	c.1496T>A	c.(1495-1497)GTG>GAG	p.V499E	REST_uc003hci.2_Missense_Mutation_p.V499E|REST_uc010ihf.2_Missense_Mutation_p.V173E	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	499	Lys-rich.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					GTAACAGAGGTGAAAGAGATG	0.383													6	67	---	---	---	---	PASS	A	57796520	A	A	57796520	3	1	107	1	0	0	0	0	1	0	0	0	13234	1696	59	5	1506	5	REST	4	57796520	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	1831655	57796520	133357756	109	39142										
LPHN3	23284	broad.mit.edu	37	chr4	62775359	62775359	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	acttgaatgctggggacatcAcctactctgtccgggccatg	11	12	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:62775359A>G	uc010ihh.2	+	9	1938	c.1765A>G	c.(1765-1767)ACC>GCC	p.T589A	LPHN3_uc003hcq.3_Missense_Mutation_p.T589A|LPHN3_uc003hct.2_5'UTR|LPHN3_uc003hcs.1_Missense_Mutation_p.T418A	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	589	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						TGGGGACATCACCTACTCTGT	0.478													7	9	---	---	---	---	PASS	G	62775359	G	G	62775359	3	3	107	1	0	0	0	0	1	0	0	0	8917	159	6	5	1799	5	LPHN3	4	62775359	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	4978839	62775359	128378917	110	39143										
ENAM	10117	broad.mit.edu	37	chr4	71508091	71508091	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agaccaagtcagccaaatatTcgtgaaaatcatccatatcc	5	11	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:71508091T>G	uc011caw.1	+	9	1229	c.948T>G	c.(946-948)ATT>ATG	p.I316M		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	316					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			AGCCAAATATTCGTGAAAATC	0.468													36	16	---	---	---	---	PASS	G	71508091	G	G	71508091	3	3	107	1	0	0	0	0	1	0	0	0	5112	1771	62	5	978	5	ENAM	4	71508091	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	8732732	71508091	119646185	111	39144										
CCDC158	339965	broad.mit.edu	37	chr4	77290776	77290776	+	Missense_Mutation	SNP	C	A	A													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctcccttttgtgtagatcagCctaaaaaaagagaggaatgc							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:77290776C>A	uc003hkb.3	-	10	1303	c.1150G>T	c.(1150-1152)GCT>TCT	p.A384S		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	384	Potential.									skin(3)|ovary(2)|pancreas(1)	6						TGTAGATCAGCCTAAAAAAAG	0.393													15	9	---	---	---	---	PASS	A	77290776	A	A	77290776	3	1	107	1	0	0	0	0	1	0	0	0	2790	753	26	3	2251	3	CCDC158	4	77290776	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	5782685	77290776	113863500	112	39145	731	2								
CCDC158	339965	broad.mit.edu	37	chr4	77290777	77290777	+	Splice_Site	SNP	C	A	A													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcccttttgtgtagatcagcCtaaaaaaagagaggaatgct							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:77290777C>A	uc003hkb.3	-	10	1303	c.1150_splice	c.e10-1	p.A384_splice		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158											skin(3)|ovary(2)|pancreas(1)	6						GTAGATCAGCCTAAAAAAAGA	0.393													14	9	---	---	---	---	PASS	A	77290777	A	A	77290777	5	1	107	1	0	0	0	0	0	0	1	0	2790	695	24	3	2252	3	CCDC158	4	77290777	Splice_Site	SNP	C	TCGA-46-3768-01A-01D-0983-08	1	77290777	113863499	113	39146	731	2								
DDX60	55601	broad.mit.edu	37	chr4	169197228	169197228	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atacttaaggcatctggctaTgagttgccgatcatcttctt	8	9	4	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:169197228T>C	uc003irp.2	-	15	2375	c.2083A>G	c.(2083-2085)ATA>GTA	p.I695V		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	695							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		CATCTGGCTATGAGTTGCCGA	0.373													29	11	---	---	---	---	PASS	C	169197228	C	C	169197228	3	2	107	1	0	0	0	0	1	0	0	0	4378	1464	51	5	3151	5	DDX60	4	169197228	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	91906451	169197228	21957048	114	39147										
DNAH5	1767	broad.mit.edu	37	chr5	13793634	13793634	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgatctttaccaaagatcttGtccacagaagcttcagaggg	9	9	3	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:13793634G>T	uc003jfd.2	-	49	8256	c.8214C>A	c.(8212-8214)GAC>GAA	p.D2738E		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2738	AAA 3 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CAAAGATCTTGTCCACAGAAG	0.478									Kartagener_syndrome				15	99	---	---	---	---	PASS	T	13793634	T	T	13793634	3	4	107	1	0	0	0	0	1	0	0	0	4604	1368	48	3	5784	3	DNAH5	5	13793634	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08		13793634	167121626	115	39148										
TRIO	7204	broad.mit.edu	37	chr5	14507302	14507302	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgaagggaagatcagggcgcAcctgggggaggttctggaag	19	6	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:14507302A>T	uc003jff.2	+	56	8690	c.8684A>T	c.(8683-8685)CAC>CTC	p.H2895L	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2895	Protein kinase.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					ATCAGGGCGCACCTGGGGGAG	0.622													13	17	---	---	---	---	PASS	T	14507302	T	T	14507302	3	4	107	1	0	0	0	0	1	0	0	0	16549	159	6	5	8906	5	TRIO	5	14507302	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	713668	14507302	166407958	116	39149										
CDH18	1016	broad.mit.edu	37	chr5	19544111	19544111	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcaacattgtagttgatgaaGtatctagagaaaaaaagaga	9	3	2	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:19544111G>C	uc003jgc.2	-	8	1634	c.1257C>G	c.(1255-1257)TAC>TAG	p.Y419*	CDH18_uc003jgd.2_Nonsense_Mutation_p.Y419*|CDH18_uc011cnm.1_Nonsense_Mutation_p.Y419*	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	419	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					AGTTGATGAAGTATCTAGAGA	0.308													5	40	---	---	---	---	PASS	C	19544111	C	C	19544111	4	2	107	1	0	0	0	0	0	1	0	0	3103	1024	36	4	1135	4	CDH18	5	19544111	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	5036809	19544111	161371149	117	39150										
CDH12	1010	broad.mit.edu	37	chr5	21760696	21760696	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cacgaactgtaaaatttggtTtgatagcagcctcaggtgat	10	7	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:21760696T>A	uc010iuc.2	-	10	2062	c.1604A>T	c.(1603-1605)AAA>ATA	p.K535I	CDH12_uc011cno.1_Missense_Mutation_p.K495I|CDH12_uc003jgk.2_Missense_Mutation_p.K535I|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	535	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						AAAATTTGGTTTGATAGCAGC	0.388										HNSCC(59;0.17)			8	125	---	---	---	---	PASS	A	21760696	A	A	21760696	3	1	107	1	0	0	0	0	1	0	0	0	3098	1841	64	5	792	5	CDH12	5	21760696	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	2216585	21760696	159154564	118	39151										
CDH9	1007	broad.mit.edu	37	chr5	26885766	26885766	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agaatcgcaacgagagctccCgtgctcaggccggctgaaag	13	12	1	3	rs145328141	byFrequency	TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:26885766C>A	uc003jgs.1	-	11	2008	c.1839G>T	c.(1837-1839)ACG>ACT	p.T613T	CDH9_uc011cnv.1_Silent_p.T206T	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	613	Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						CGAGAGCTCCCGTGCTCAGGC	0.512													35	19	---	---	---	---	PASS	A	26885766	A	A	26885766	2	1	107	1	0	0	0	0	0	0	0	1	3117	639	23	1		1	CDH9	5	26885766	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	5125070	26885766	154029494	119	39152										
PDZD2	23037	broad.mit.edu	37	chr5	31983601	31983601	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tagaaaatggcccagattctCtcaaggaggtggctggaccc	12	10	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:31983601C>G	uc003jhl.2	+	3	1205	c.817C>G	c.(817-819)CTC>GTC	p.L273V	PDZD2_uc003jhm.2_Missense_Mutation_p.L273V|PDZD2_uc011cnx.1_Missense_Mutation_p.L99V	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	273					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CCCAGATTCTCTCAAGGAGGT	0.532													9	127	---	---	---	---	PASS	G	31983601	G	G	31983601	3	3	107	1	0	0	0	0	1	0	0	0	11701	913	32	2	823	2	PDZD2	5	31983601	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	5097835	31983601	148931659	120	39153										
PDZD2	23037	broad.mit.edu	37	chr5	32090546	32090546	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctggccccatgaatctacctCatttttctctgtgaagcagc	7	13	3	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:32090546C>A	uc003jhl.2	+	20	7380	c.6992C>A	c.(6991-6993)TCA>TAA	p.S2331*	PDZD2_uc003jhm.2_Nonsense_Mutation_p.S2331*	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2331					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GAATCTACCTCATTTTTCTCT	0.507													6	188	---	---	---	---	PASS	A	32090546	A	A	32090546	4	1	107	1	0	0	0	0	0	1	0	0	11701	838	29	2	7066	2	PDZD2	5	32090546	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	106945	32090546	148824714	121	39154										
HEATR7B2	133558	broad.mit.edu	37	chr5	40998243	40998243	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gacactaatacacggatcttGacgaagtgcttggagtcctg	11	9	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:40998243G>T	uc003jmj.3	-	42	5159	c.4669C>A	c.(4669-4671)CAA>AAA	p.Q1557K	HEATR7B2_uc003jmi.3_Missense_Mutation_p.Q1112K	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1557							binding			ovary(6)|central_nervous_system(2)	8						CACGGATCTTGACGAAGTGCT	0.488													124	119	---	---	---	---	PASS	T	40998243	T	T	40998243	3	4	107	1	0	0	0	0	1	0	0	0	7035	1299	45	2	92	2	HEATR7B2	5	40998243	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	8907697	40998243	139917017	122	39155										
HCN1	348980	broad.mit.edu	37	chr5	45262468	45262468	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gctgtggctgagtctgcggcGgctgggactgctgtacctgc	17	11	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:45262468G>T	uc003jok.2	-	8	2253	c.2228C>A	c.(2227-2229)CCG>CAG	p.P743Q		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	743	Gln-rich.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						agtctgcggcggctgggactg	0.428													6	4	---	---	---	---	PASS	T	45262468	T	T	45262468	3	4	107	1	0	0	0	0	1	0	0	0	6996	1116	39	1	448	1	HCN1	5	45262468	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	4264225	45262468	135652792	123	39156										
HCN1	348980	broad.mit.edu	37	chr5	45262722	45262722	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggagattgtgtcctcatgcgGgaggtcggggtcgtagtaga	18	6	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:45262722G>C	uc003jok.2	-	8	1999	c.1974C>G	c.(1972-1974)TCC>TCG	p.S658S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	658	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TCCTCATGCGGGAGGTCGGGG	0.557													20	44	---	---	---	---	PASS	C	45262722	C	C	45262722	2	2	107	1	0	0	0	0	0	0	0	1	6996	1219	43	4		4	HCN1	5	45262722	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	254	45262722	135652538	124	39157										
HCN1	348980	broad.mit.edu	37	chr5	45267206	45267206	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agtacctattcgatctagtcGgtcaatggcaactgtctcaa	8	10	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:45267206G>A	uc003jok.2	-	7	1793	c.1768C>T	c.(1768-1770)CGA>TGA	p.R590*		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	590	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CGATCTAGTCGGTCAATGGCA	0.388													53	33	---	---	---	---	PASS	A	45267206	A	A	45267206	4	1	107	1	0	0	0	0	0	1	0	0	6996	1124	39	1	912	1	HCN1	5	45267206	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	4484	45267206	135648054	125	39158										
IL6ST	3572	broad.mit.edu	37	chr5	55247854	55247854	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tggtcccactctaagacagcTtcgtttttccctactttttt	5	12	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:55247854T>A	uc003jqq.2	-	13	1857	c.1602A>T	c.(1600-1602)GAA>GAT	p.E534D	IL6ST_uc010iwb.2_Missense_Mutation_p.E473D|IL6ST_uc010iwc.2_Intron|IL6ST_uc010iwd.2_Intron|IL6ST_uc011cqk.1_Missense_Mutation_p.E245D|IL6ST_uc003jqr.2_3'UTR|IL6ST_uc010iwe.1_5'Flank	NM_002184	NP_002175	P40189	IL6RB_HUMAN	interleukin 6 signal transducer isoform 1	534	Extracellular (Potential).|Fibronectin type-III 5.				interleukin-6-mediated signaling pathway|leukemia inhibitory factor signaling pathway|negative regulation of interleukin-6-mediated signaling pathway|positive regulation of anti-apoptosis|positive regulation of cardiac muscle hypertrophy|positive regulation of osteoblast differentiation|positive regulation of T cell proliferation|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation vascular endothelial growth factor production	ciliary neurotrophic factor receptor complex|extracellular region|extracellular space|interleukin-6 receptor complex|oncostatin-M receptor complex	ciliary neurotrophic factor receptor activity|ciliary neurotrophic factor receptor binding|growth factor binding|protein homodimerization activity			large_intestine(1)|ovary(1)	2		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)				CTAAGACAGCTTCGTTTTTCC	0.353			O		hepatocellular ca								12	5	---	---	---	---	PASS	A	55247854	A	A	55247854	3	1	107	1	0	0	0	0	1	0	0	0	7703	1606	56	5	1174	5	IL6ST	5	55247854	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	9980648	55247854	125667406	126	39159										
CWC27	10283	broad.mit.edu	37	chr5	64082402	64082402	+	Frame_Shift_Del	DEL	A	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caagggaaattaaaaggctgAaaaaagagaaaccagaggag							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:64082402delA	uc003jtn.1	+	6	766	c.547delA	c.(547-549)AAAfs	p.K183fs	CWC27_uc003jtl.2_Frame_Shift_Del_p.K183fs|CWC27_uc003jtm.2_Frame_Shift_Del_p.K183fs|CWC27_uc010iwt.1_Frame_Shift_Del_p.K183fs	NM_005869	NP_005860	Q6UX04	CWC27_HUMAN	serologically defined colon cancer antigen 10	183					protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity				0						TAAAAGGCTGAAAAAAGAGAA	0.308													10	26	---	---	---	---		-	64082402	-	-	64082402	7	5	107	1	0	1	0	1	0	0	0	0	4070	247	9	0	569	0	CWC27	5	64082402	Frame_Shift_Del	DEL	A	TCGA-46-3768-01A-01D-0983-08	8834548	64082402	116832858	127	39160										
PIK3R1	5295	broad.mit.edu	37	chr5	67593336	67593336	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tacagctctctgaaagaactGgtgctacattaccaacacac	6	12	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:67593336G>T	uc003jva.2	+	16	2642	c.2082G>T	c.(2080-2082)CTG>CTT	p.L694L	PIK3R1_uc003jvb.2_Silent_p.L694L|PIK3R1_uc003jvc.2_Silent_p.L394L|PIK3R1_uc003jvd.2_Silent_p.L424L|PIK3R1_uc003jve.2_Silent_p.L373L	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	694	SH2 2.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoproterenol(DB01064)	TGAAAGAACTGGTGCTACATT	0.493			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			7	150	---	---	---	---	PASS	T	67593336	T	T	67593336	2	4	107	1	0	0	0	0	0	0	0	1	11918	1335	47	3		3	PIK3R1	5	67593336	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	3510934	67593336	113321924	128	39161										
CMYA5	202333	broad.mit.edu	37	chr5	79031807	79031807	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcacaaaggaatcagagaaaCcagagtcaattattttgcca	7	8	3	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:79031807C>T	uc003kgc.2	+	2	7291	c.7219C>T	c.(7219-7221)CCA>TCA	p.P2407S		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2407						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		ATCAGAGAAACCAGAGTCAAT	0.358													9	25	---	---	---	---	PASS	T	79031807	T	T	79031807	3	4	107	1	0	0	0	0	1	0	0	0	3590	507	18	3	7225	3	CMYA5	5	79031807	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	11438471	79031807	101883453	129	39162										
FBN2	2201	broad.mit.edu	37	chr5	127800548	127800548	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	acagagtcttcgtgcagacaAtgcctgtcagctgcccttgg	11	12	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:127800548A>T	uc003kuu.2	-	6	1134	c.695T>A	c.(694-696)ATT>AAT	p.I232N	FBN2_uc003kuv.2_Missense_Mutation_p.I199N|FBN2_uc003kuw.3_Missense_Mutation_p.I232N|FBN2_uc003kux.1_Missense_Mutation_p.I232N	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	232	TB 1.				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)		CGTGCAGACAATGCCTGTCAG	0.567													31	6	---	---	---	---	PASS	T	127800548	T	T	127800548	3	4	107	1	0	0	0	0	1	0	0	0	5703	101	4	5	8283	5	FBN2	5	127800548	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	48768741	127800548	53114712	130	39163										
HSPA4	3308	broad.mit.edu	37	chr5	132424810	132424810	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcactgatgtagtaccatatCcaatatctctgagatggaat	7	8	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:132424810C>T	uc003kyj.2	+	10	1482	c.1201C>T	c.(1201-1203)CCA>TCA	p.P401S		NM_002154	NP_002145	P34932	HSP74_HUMAN	heat shock 70kDa protein 4	401					cellular chaperone-mediated protein complex assembly|protein import into mitochondrial outer membrane|response to unfolded protein	cytoplasm|nucleus	ATP binding			lung(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGTACCATATCCAATATCTCT	0.328													5	32	---	---	---	---	PASS	T	132424810	T	T	132424810	3	4	107	1	0	0	0	0	1	0	0	0	7412	855	30	2	1239	2	HSPA4	5	132424810	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	4624262	132424810	48490450	131	39164										
TRPC7	57113	broad.mit.edu	37	chr5	135692600	135692600	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgatgtcgtgggagaagcgcGtgccgtcctcgtcgtaggca	16	10	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:135692600G>A	uc003lbn.1	-	1	476	c.473C>T	c.(472-474)ACG>ATG	p.T158M	TRPC7_uc010jef.1_Missense_Mutation_p.T150M|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.T150M|TRPC7_uc010jei.1_Missense_Mutation_p.T150M|TRPC7_uc010jej.1_Translation_Start_Site	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	159	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GGAGAAGCGCGTGCCGTCCTC	0.667													49	11	---	---	---	---	PASS	A	135692600	A	A	135692600	3	1	107	1	0	0	0	0	1	0	0	0	16581	1145	40	1	2156	1	TRPC7	5	135692600	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	3267790	135692600	45222660	132	39165										
FLT4	2324	broad.mit.edu	37	chr5	180048825	180048825	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcgtacttgtagctgtcggcTtggcagctcaggagcaccgg	14	11	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:180048825T>C	uc003mma.3	-	13	1816	c.1737A>G	c.(1735-1737)CAA>CAG	p.Q579Q	FLT4_uc003mlz.3_Silent_p.Q579Q|FLT4_uc003mmb.1_Silent_p.Q112Q|FLT4_uc011dgy.1_Silent_p.Q579Q	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	579	Ig-like C2-type 6.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	AGCTGTCGGCTTGGCAGCTCA	0.622									Congenital_Hereditary_Lymphedema				10	8	---	---	---	---	PASS	C	180048825	C	C	180048825	2	2	107	1	0	0	0	0	0	0	0	1	5944	1606	56	5		5	FLT4	5	180048825	Silent	SNP	T	TCGA-46-3768-01A-01D-0983-08	44356225	180048825	866435	133	39166										
C6orf145	221749	broad.mit.edu	37	chr6	3737340	3737340	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttgactggactttgaaagcTgggttgaattttatgcacat	10	5	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:3737340T>A	uc003mvt.2	-	3	920	c.439A>T	c.(439-441)AGC>TGC	p.S147C		NM_183373	NP_899229	Q5TGL8	CF145_HUMAN	hypothetical protein LOC221749	147					cell communication		phosphatidylinositol binding			breast(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				CTTTGAAAGCTGGGTTGAATT	0.448													11	78	---	---	---	---	PASS	A	3737340	A	A	3737340	3	1	107	1	0	0	0	0	1	0	0	0	2334	1580	55	5	268	5	C6orf145	6	3737340	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08		3737340	167377727	134	39167										
BTN3A1	11119	broad.mit.edu	37	chr6	26413559	26413559	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgagagcttcatatcagggaGacattactgggaggtggagg	16	5	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:26413559G>T	uc003nhv.2	+	10	1549	c.1181G>T	c.(1180-1182)AGA>ATA	p.R394I	BTN3A1_uc011dkj.1_3'UTR|BTN3A1_uc011dkk.1_Missense_Mutation_p.R342I|BTN3A1_uc010jqj.2_3'UTR	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a	394	Cytoplasmic (Potential).|B30.2/SPRY.				lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						ATATCAGGGAGACATTACTGG	0.507													38	26	---	---	---	---	PASS	T	26413559	T	T	26413559	3	4	107	1	0	0	0	0	1	0	0	0	1562	942	33	2	1383	2	BTN3A1	6	26413559	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	22676219	26413559	144701508	135	39168										
OR2B2	81697	broad.mit.edu	37	chr6	27879772	27879772	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccaggagaagacattctgtgGaacccaaggccaggaaaatg	12	9	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:27879772G>T	uc011dkw.1	-	1	326	c.326C>A	c.(325-327)TCC>TAC	p.S109Y		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACATTCTGTGGAACCCAAGGC	0.463													26	20	---	---	---	---	PASS	T	27879772	T	T	27879772	3	4	107	1	0	0	0	0	1	0	0	0	10989	1174	41	2	751	2	OR2B2	6	27879772	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1466213	27879772	143235295	136	39169										
ZSCAN23	222696	broad.mit.edu	37	chr6	28402480	28402480	+	Frame_Shift_Del	DEL	C	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cattctggctgaaggctttgCcacaaacactgcactggtag							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:28402480delC	uc003nli.3	-	4	1113	c.932delG	c.(931-933)GGCfs	p.G311fs	ZSCAN23_uc003nlh.2_RNA|ZSCAN23_uc010jrf.1_RNA|ZSCAN23_uc011dli.1_3'UTR	NM_001012455	NP_001012458	Q3MJ62	ZSC23_HUMAN	zinc finger protein 390	311	C2H2-type 3.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GAAGGCTTTGCCACAAACACT	0.532													7	10	---	---	---	---		-	28402480	-	-	28402480	7	5	107	1	0	1	0	1	0	0	0	0	18232	739	26	0	241	0	ZSCAN23	6	28402480	Frame_Shift_Del	DEL	C	TCGA-46-3768-01A-01D-0983-08	522708	28402480	142712587	137	39170										
GABBR1	2550	broad.mit.edu	37	chr6	29574776	29574776	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gcatacagcttccagggttcCagagtctggataaatatgtg	11	8	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:29574776C>A	uc003nmt.3	-	18	2451	c.2115G>T	c.(2113-2115)CTG>CTT	p.L705L	GABBR1_uc003nmp.3_Silent_p.L588L|GABBR1_uc003nms.3_Silent_p.L588L|GABBR1_uc003nmu.3_Silent_p.L643L|GABBR1_uc011dlr.1_Silent_p.L528L	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	705	Cytoplasmic (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	TCCAGGGTTCCAGAGTCTGGA	0.592													5	35	---	---	---	---	PASS	A	29574776	A	A	29574776	2	1	107	1	0	0	0	0	0	0	0	1	6155	581	21	3		3	GABBR1	6	29574776	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	1172296	29574776	141540291	138	39171										
FLOT1	10211	broad.mit.edu	37	chr6	30708458	30708458	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcaattgcctagttttacctGgtcatcgtgaatgtccttca	7	10	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:30708458G>T	uc003nrm.2	-	6	636	c.472C>A	c.(472-474)CAG>AAG	p.Q158K	FLOT1_uc011dmr.1_Missense_Mutation_p.Q110K	NM_005803	NP_005794	O75955	FLOT1_HUMAN	flotillin 1	158						centriolar satellite|endosome|integral to membrane|melanosome|membrane fraction					0						AGTTTTACCTGGTCATCGTGA	0.468													5	79	---	---	---	---	PASS	T	30708458	T	T	30708458	3	4	107	1	0	0	0	0	1	0	0	0	5936	1357	47	3	843	3	FLOT1	6	30708458	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1133682	30708458	140406609	139	39172										
LY6G5C	80741	broad.mit.edu	37	chr6	31644735	31644735	+	Nonstop_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aaagtttgctgcagtcacacTaaggagtatagagccctctg	10	9	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:31644735T>A	uc003nvu.1	-	3	443	c.443A>T	c.(442-444)TAG>TTG	p.*148L	LY6G5C_uc003nvw.1_RNA|LY6G5C_uc010jtb.1_RNA	NM_025262	NP_079538	Q5SRR4	LY65C_HUMAN	lymphocyte antigen 6 complex G5C	148	UPAR/Ly6.					extracellular region					0						GCAGTCACACTAAGGAGTATA	0.478													8	69	---	---	---	---	PASS	A	31644735	A	A	31644735	4	1	107	1	0	0	0	0	0	0	0	0	9093	1535	53	5	4	5	LY6G5C	6	31644735	Nonstop_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	936277	31644735	139470332	140	39173										
TNFRSF21	27242	broad.mit.edu	37	chr6	47200539	47200539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atggctataaacagagtccaGgagggtctggctggcttcct	13	9	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:47200539G>T	uc003oyv.2	-	6	2363	c.1930C>A	c.(1930-1932)CTG>ATG	p.L644M		NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,	644	Cytoplasmic (Potential).				cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)			ACAGAGTCCAGGAGGGTCTGG	0.468													6	145	---	---	---	---	PASS	T	47200539	T	T	47200539	3	4	107	1	0	0	0	0	1	0	0	0	16292	991	35	3	41	3	TNFRSF21	6	47200539	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	15555804	47200539	123914528	141	39174										
PAQR8	85315	broad.mit.edu	37	chr6	52268753	52268753	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aggagcaagcagcctggtacCacaccctccagatcctcttc	8	16	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:52268753C>A	uc003pao.3	+	2	916	c.742C>A	c.(742-744)CAC>AAC	p.H248N		NM_133367	NP_588608	Q8TEZ7	MPRB_HUMAN	progestin and adipoQ receptor family member	248	Helical; Name=5; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding				0	Lung NSC(77;0.0875)					AGCCTGGTACCACACCCTCCA	0.592													5	53	---	---	---	---	PASS	A	52268753	A	A	52268753	3	1	107	1	0	0	0	0	1	0	0	0	11441	594	21	3	744	3	PAQR8	6	52268753	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	5068214	52268753	118846314	142	39175										
GCLC	2729	broad.mit.edu	37	chr6	53385711	53385711	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgtagggctgtcctggtgtcCcttcaatcatgtaactccca	9	13	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:53385711C>A	uc003pbw.1	-	3	699	c.311G>T	c.(310-312)GGG>GTG	p.G104V	GCLC_uc003pbx.2_Missense_Mutation_p.G104V	NM_001498	NP_001489	P48506	GSH1_HUMAN	glutamate-cysteine ligase, catalytic subunit	104					anti-apoptosis|cell redox homeostasis|cysteine metabolic process|glutamate metabolic process|glutathione biosynthetic process|negative regulation of transcription, DNA-dependent|regulation of blood vessel size|response to heat|response to hormone stimulus|response to oxidative stress|xenobiotic metabolic process	cytosol	ADP binding|ATP binding|coenzyme binding|glutamate binding|glutamate-cysteine ligase activity|magnesium ion binding			ovary(1)|central_nervous_system(1)	2	Lung NSC(77;0.0137)				L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)	TCCTGGTGTCCCTTCAATCAT	0.458													8	264	---	---	---	---	PASS	A	53385711	A	A	53385711	3	1	107	1	0	0	0	0	1	0	0	0	6295	623	22	3	1658	3	GCLC	6	53385711	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1116958	53385711	117729356	143	39176										
LRRC1	55227	broad.mit.edu	37	chr6	53784346	53784346	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cttgaagttgaaggctctgtGgctatctgacaaccagtccc	10	11	2	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:53784346G>T	uc003pcd.1	+	12	1434	c.1157G>T	c.(1156-1158)TGG>TTG	p.W386L		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	386	LRR 17.					cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		AAGGCTCTGTGGCTATCTGAC	0.418													6	72	---	---	---	---	PASS	T	53784346	T	T	53784346	3	4	107	1	0	0	0	0	1	0	0	0	8966	1357	47	3	1203	3	LRRC1	6	53784346	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	398635	53784346	117330721	144	39177										
IBTK	25998	broad.mit.edu	37	chr6	82950160	82950160	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggacatccaaagcatgcttcAgggatcgacactttgatgtg	11	9	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:82950160A>C	uc003pjl.1	-	2	571	c.44T>G	c.(43-45)CTG>CGG	p.L15R	IBTK_uc011dyv.1_Missense_Mutation_p.L15R|IBTK_uc011dyw.1_Missense_Mutation_p.L15R|IBTK_uc010kbi.1_5'UTR|IBTK_uc003pjm.2_Missense_Mutation_p.L15R	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	15					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		AGCATGCTTCAGGGATCGACA	0.403													7	90	---	---	---	---	PASS	C	82950160	C	C	82950160	3	2	107	1	0	0	0	0	1	0	0	0	7476	188	7	5	4129	5	IBTK	6	82950160	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	29165814	82950160	88164907	145	39178										
CASP8AP2	9994	broad.mit.edu	37	chr6	90572028	90572028	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcactgccaaatctggaaaaGgaaggaaaaccacattctga	8	9	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:90572028G>T	uc003pnr.2	+	7	796	c.600G>T	c.(598-600)AAG>AAT	p.K200N	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.K200N|CASP8AP2_uc011dzz.1_Missense_Mutation_p.K200N	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	200					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		ATCTGGAAAAGGAAGGAAAAC	0.383													7	203	---	---	---	---	PASS	T	90572028	T	T	90572028	3	4	107	1	0	0	0	0	1	0	0	0	2678	991	35	3	622	3	CASP8AP2	6	90572028	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	7621868	90572028	80543039	146	39179										
C6orf167	253714	broad.mit.edu	37	chr6	97679333	97679333	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttgtttccaaggatgagggcCattgctcttcattgcttttt	9	8	2	1	rs138260692		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:97679333C>A	uc003ppb.2	-	13	1764	c.1498G>T	c.(1498-1500)GGC>TGC	p.G500C	C6orf167_uc011eaf.1_Missense_Mutation_p.G460C|C6orf167_uc010kcn.1_Missense_Mutation_p.G274C	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	500					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		GGATGAGGGCCATTGCTCTTC	0.348													5	16	---	---	---	---	PASS	A	97679333	A	A	97679333	3	1	107	1	0	0	0	0	1	0	0	0	2342	594	21	3	2285	3	C6orf167	6	97679333	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	7107305	97679333	73435734	147	39180										
PRDM13	59336	broad.mit.edu	37	chr6	100062259	100062259	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctactgtggcaagctgtactCgcgcaagtatgggctcaaga	12	10	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:100062259C>A	uc003pqg.1	+	4	2009	c.1748C>A	c.(1747-1749)TCG>TAG	p.S583*		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	583	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		AAGCTGTACTCGCGCAAGTAT	0.453													13	13	---	---	---	---	PASS	A	100062259	A	A	100062259	4	1	107	1	0	0	0	0	0	1	0	0	12454	893	31	2	1762	2	PRDM13	6	100062259	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	2382926	100062259	71052808	148	39181										
SIM1	6492	broad.mit.edu	37	chr6	100896428	100896428	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	attgctgtgtagcttgatctCcgtgacggcgctgggaggca	15	9	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:100896428C>T	uc003pqj.3	-	6	877	c.670G>A	c.(670-672)GAG>AAG	p.E224K	SIM1_uc010kcu.2_Missense_Mutation_p.E224K	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	224	PAS 2.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		AGCTTGATCTCCGTGACGGCG	0.617													10	20	---	---	---	---	PASS	T	100896428	T	T	100896428	3	4	107	1	0	0	0	0	1	0	0	0	14323	864	30	2	1654	2	SIM1	6	100896428	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	834169	100896428	70218639	149	39182										
LAMA4	3910	broad.mit.edu	37	chr6	112486384	112486384	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttattatatcatcaagttctGaaagagttagacgaggtgtt	9	4	3	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:112486384G>T	uc003pvu.2	-	13	1955	c.1646C>A	c.(1645-1647)TCA>TAA	p.S549*	LAMA4_uc003pvv.2_Nonsense_Mutation_p.S542*|LAMA4_uc003pvt.2_Nonsense_Mutation_p.S542*	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	549	Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		ATCAAGTTCTGAAAGAGTTAG	0.433													6	63	---	---	---	---	PASS	T	112486384	T	T	112486384	4	4	107	1	0	0	0	0	0	1	0	0	8608	1294	45	2	3933	2	LAMA4	6	112486384	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	11589956	112486384	58628683	150	39183										
FRK	2444	broad.mit.edu	37	chr6	116381198	116381198	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atagccttgtagttgctgacTggagccatctcgtcttttct	9	10	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:116381198T>C	uc003pwi.1	-	1	724	c.277A>G	c.(277-279)AGT>GGT	p.S93G		NM_002031	NP_002022	P42685	FRK_HUMAN	fyn-related kinase	93	SH3.				negative regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|lung(3)	6		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)		AGTTGCTGACTGGAGCCATCT	0.473													62	118	---	---	---	---	PASS	C	116381198	C	C	116381198	3	2	107	1	0	0	0	0	1	0	0	0	6048	1580	55	5	1272	5	FRK	6	116381198	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	3894814	116381198	54733869	151	39184										
KPNA5	3841	broad.mit.edu	37	chr6	117043288	117043288	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atgctctttcttcccttacaGgtttcaccttgcttaaatgt	5	11	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:117043288G>T	uc003pxh.2	+	9	888	c.757_splice	c.e9-1	p.V253_splice		NM_002269	NP_002260	O15131	IMA5_HUMAN	karyopherin alpha 5						NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding|protein transporter activity			breast(3)|skin(1)	4		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0298)|all cancers(137;0.0461)|OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.212)		TTCCCTTACAGGTTTCACCTT	0.323													4	27	---	---	---	---	PASS	T	117043288	T	T	117043288	5	4	107	1	0	0	0	0	0	0	1	0	8433	1014	35	3	790	3	KPNA5	6	117043288	Splice_Site	SNP	G	TCGA-46-3768-01A-01D-0983-08	662090	117043288	54071779	152	39185										
THEMIS	387357	broad.mit.edu	37	chr6	128222064	128222064	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gggagtggacgaattcttccAgtgataatgccattgctatg	12	7	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:128222064A>G	uc003qbi.2	-	2	333	c.14T>C	c.(13-15)CTG>CCG	p.L5P	THEMIS_uc011ebt.1_Missense_Mutation_p.L5P|THEMIS_uc010kfb.2_Intron	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	5	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						GAATTCTTCCAGTGATAATGC	0.493													24	72	---	---	---	---	PASS	G	128222064	G	G	128222064	3	3	107	1	0	0	0	0	1	0	0	0	15857	188	7	5	2056	5	THEMIS	6	128222064	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	11178776	128222064	42893003	153	39186										
LAMA2	3908	broad.mit.edu	37	chr6	129712691	129712691	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctaggaactcgagacgaggcCtttgagagaaatttggaagg	14	6	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:129712691C>T	uc003qbn.2	+	36	5232	c.5127C>T	c.(5125-5127)GCC>GCT	p.A1709A	LAMA2_uc003qbo.2_Silent_p.A1709A	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1709	Domain II and I.|Potential.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GAGACGAGGCCTTTGAGAGAA	0.363													36	95	---	---	---	---	PASS	T	129712691	T	T	129712691	2	4	107	1	0	0	0	0	0	0	0	1	8606	668	24	3		3	LAMA2	6	129712691	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	1490627	129712691	41402376	154	39187										
SYNE1	23345	broad.mit.edu	37	chr6	152734570	152734570	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	acttcaggtgcaaaagctacAtctttctgggcaatttgctt	8	9	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:152734570A>G	uc010kiw.2	-	42	6749	c.6147T>C	c.(6145-6147)GAT>GAC	p.D2049D	SYNE1_uc003qot.3_Silent_p.D2056D|SYNE1_uc003qou.3_Silent_p.D2049D|SYNE1_uc010kjb.1_Silent_p.D2032D	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2049	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)		CAAAAGCTACATCTTTCTGGG	0.403										HNSCC(10;0.0054)			28	53	---	---	---	---	PASS	G	152734570	G	G	152734570	2	3	107	1	0	0	0	0	0	0	0	1	15442	214	8	5		5	SYNE1	6	152734570	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	23021879	152734570	18380497	155	39188										
TULP4	56995	broad.mit.edu	37	chr6	158923577	158923577	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caccggggacccacccccgtAtcctgaaattgccagccagc	9	18	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:158923577A>G	uc003qrf.2	+	13	4239	c.2882A>G	c.(2881-2883)TAT>TGT	p.Y961C	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	961					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CCACCCCCGTATCCTGAAATT	0.662													10	11	---	---	---	---	PASS	G	158923577	G	G	158923577	3	3	107	1	0	0	0	0	1	0	0	0	16773	449	16	5	2932	5	TULP4	6	158923577	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	6189007	158923577	12191490	156	39189										
MAP3K4	4216	broad.mit.edu	37	chr6	161470015	161470015	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cttttgctaaagcttacctcAgtctcaaagaaaaaagacag	6	9	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:161470015A>T	uc003qtn.2	+	3	853	c.711A>T	c.(709-711)TCA>TCT	p.S237S	MAP3K4_uc010kkc.1_Silent_p.S237S|MAP3K4_uc003qto.2_Silent_p.S237S|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_5'UTR	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	237					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)		AGCTTACCTCAGTCTCAAAGA	0.433													17	22	---	---	---	---	PASS	T	161470015	T	T	161470015	2	4	107	1	0	0	0	0	0	0	0	1	9252	175	7	5		5	MAP3K4	6	161470015	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	2546438	161470015	9645052	157	39190										
KIAA0415	9907	broad.mit.edu	37	chr7	4820834	4820834	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aggacgaggagctgaagaagTtctgttcccggatctgtaaa	13	7	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:4820834T>A	uc003sne.2	+	2	153	c.70T>A	c.(70-72)TTC>ATC	p.F24I	KIAA0415_uc010ksp.2_RNA	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	24					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		GCTGAAGAAGTTCTGTTCCCG	0.542													29	29	---	---	---	---	PASS	A	4820834	A	A	4820834	3	1	107	1	0	0	0	0	1	0	0	0	8175	1725	60	5	76	5	KIAA0415	7	4820834	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08		4820834	154317829	158	39191										
SP4	6671	broad.mit.edu	37	chr7	21521591	21521591	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agcatatctgtcatattgaaGgatgtggtaaagtttatggc	11	4	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:21521591G>A	uc003sva.2	+	5	2138	c.1957G>A	c.(1957-1959)GGA>AGA	p.G653R	SP4_uc003svb.2_Missense_Mutation_p.G340R	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	653	C2H2-type 1.				regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						TCATATTGAAGGATGTGGTAA	0.373													8	69	---	---	---	---	PASS	A	21521591	A	A	21521591	3	1	107	1	0	0	0	0	1	0	0	0	14966	1001	35	3	1975	3	SP4	7	21521591	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	16700757	21521591	137617072	159	39192										
KLHL7	55975	broad.mit.edu	37	chr7	23207573	23207573	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gtggaagccaatggcctaatCtatgtttgtggtggaagttt	13	5	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:23207573C>G	uc003svs.3	+	9	1589	c.1296C>G	c.(1294-1296)ATC>ATG	p.I432M	KLHL7_uc003svr.3_Missense_Mutation_p.I410M|KLHL7_uc011jys.1_Missense_Mutation_p.I356M|KLHL7_uc011jyt.1_Missense_Mutation_p.I207M|KLHL7_uc003svt.2_Missense_Mutation_p.I384M|KLHL7_uc011jyv.1_Intron	NM_001031710	NP_001026880	Q8IXQ5	KLHL7_HUMAN	kelch-like 7 isoform 1	432	Kelch 4.					Golgi apparatus|nucleolus|plasma membrane					0						ATGGCCTAATCTATGTTTGTG	0.443													31	58	---	---	---	---	PASS	G	23207573	G	G	23207573	3	3	107	1	0	0	0	0	1	0	0	0	8394	903	32	2	1393	2	KLHL7	7	23207573	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1685982	23207573	135931090	160	39193										
HOXA2	3199	broad.mit.edu	37	chr7	27141032	27141032	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agctgtgtgttggtgtaagcAgttctcaggcgccgcgatcc	14	10	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:27141032A>T	uc003syh.2	-	2	719	c.444T>A	c.(442-444)ACT>ACA	p.T148T		NM_006735	NP_006726	O43364	HXA2_HUMAN	homeobox A2	148	Homeobox.					nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						TGGTGTAAGCAGTTCTCAGGC	0.537													11	10	---	---	---	---	PASS	T	27141032	T	T	27141032	2	4	107	1	0	0	0	0	0	0	0	1	7292	175	7	5		5	HOXA2	7	27141032	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	3933459	27141032	131997631	161	39194										
C7orf16	10842	broad.mit.edu	37	chr7	31736665	31736665	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tccctgttcttcataacactGacctggaacagaaaaagcca	6	12	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:31736665G>C	uc003tcl.2	+	4	480	c.322G>C	c.(322-324)GAC>CAC	p.D108H	C7orf16_uc011kaf.1_Missense_Mutation_p.D57H	NM_006658	NP_006649	O96001	GSUB_HUMAN	G-substrate isoform 1	108					behavior|central nervous system development|intracellular protein kinase cascade|protein phosphorylation	soluble fraction				ovary(2)|central_nervous_system(1)	3			GBM - Glioblastoma multiforme(11;0.216)			TCATAACACTGACCTGGAACA	0.458													29	59	---	---	---	---	PASS	C	31736665	C	C	31736665	3	2	107	1	0	0	0	0	1	0	0	0	2378	1290	45	2	332	2	C7orf16	7	31736665	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	4595633	31736665	127401998	162	39195										
PKD1L1	168507	broad.mit.edu	37	chr7	47979871	47979871	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agagcacaccaaggacagccAcacttcccatcactcataag	6	15	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:47979871A>G	uc003tny.1	-	3	204	c.204T>C	c.(202-204)TGT>TGC	p.C68C		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	68	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AAGGACAGCCACACTTCCCAT	0.473													38	37	---	---	---	---	PASS	G	47979871	G	G	47979871	2	3	107	1	0	0	0	0	0	0	0	1	11964	157	6	5		5	PKD1L1	7	47979871	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	16243206	47979871	111158792	163	39196										
FKBP6	8468	broad.mit.edu	37	chr7	72756882	72756882	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccctgtggcgatggttctacAgcaggagaaagttgaaggta	14	7	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:72756882A>T	uc003tya.2	+	8	1101	c.969A>T	c.(967-969)ACA>ACT	p.T323T	FKBP6_uc003twz.2_Silent_p.T293T|FKBP6_uc011kew.1_Silent_p.T318T	NM_003602	NP_003593	O75344	FKBP6_HUMAN	FK506 binding protein 6 isoform a	323					protein folding	membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				ATGGTTCTACAGCAGGAGAAA	0.537											OREG0018106	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	49	68	---	---	---	---	PASS	T	72756882	T	T	72756882	2	4	107	1	0	0	0	0	0	0	0	1	5912	175	7	5		5	FKBP6	7	72756882	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	24777011	72756882	86381781	164	39197										
PHTF2	57157	broad.mit.edu	37	chr7	77539631	77539631	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tctagtaccacagataacacAcaagagggagcagttcagaa	9	9	2	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:77539631A>G	uc003ugs.3	+	8	807	c.681A>G	c.(679-681)ACA>ACG	p.T227T	PHTF2_uc003ugo.3_Silent_p.T189T|PHTF2_uc003ugp.2_Silent_p.T189T|PHTF2_uc003ugq.3_Silent_p.T189T|PHTF2_uc010ldv.2_Silent_p.T189T|PHTF2_uc003ugr.3_Silent_p.T193T|PHTF2_uc003ugt.3_Silent_p.T193T|PHTF2_uc003ugu.3_Silent_p.T189T|PHTF2_uc003ugv.2_Silent_p.T52T|PHTF2_uc010ldw.1_Silent_p.T52T	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	227					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						CAGATAACACACAAGAGGGAG	0.448													45	49	---	---	---	---	PASS	G	77539631	G	G	77539631	2	3	107	1	0	0	0	0	0	0	0	1	11863	146	6	5		5	PHTF2	7	77539631	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	4782749	77539631	81599032	165	39198										
ABCB1	5243	broad.mit.edu	37	chr7	87196249	87196249	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgaaacctgaatgtaagcagCaaccagcaccccagcaccaa	7	14	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:87196249C>A	uc003uiz.1	-	7	800	c.382G>T	c.(382-384)GCT>TCT	p.A128S	ABCB1_uc011khc.1_Intron	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	128	ABC transmembrane type-1 1.|Helical; (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	ATGTAAGCAGCAACCAGCACC	0.403													9	53	---	---	---	---	PASS	A	87196249	A	A	87196249	3	1	107	1	0	0	0	0	1	0	0	0	40	710	25	3	3552	3	ABCB1	7	87196249	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	9656618	87196249	71942414	166	39199										
CLDN12	9069	broad.mit.edu	37	chr7	90042424	90042424	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gctatttttcctggcaggtaCtgtgagcctctccccatcta	8	13	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:90042424C>G	uc003ukp.2	+	5	1070	c.434C>G	c.(433-435)ACT>AGT	p.T145S	CLDN12_uc003ukq.2_Missense_Mutation_p.T145S|CLDN12_uc010leq.2_Missense_Mutation_p.T145S|CLDN12_uc003ukr.2_Missense_Mutation_p.T145S|CLDN12_uc003uks.2_Missense_Mutation_p.T145S	NM_012129	NP_036261	P56749	CLD12_HUMAN	claudin 12	145	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CTGGCAGGTACTGTGAGCCTC	0.488													11	68	---	---	---	---	PASS	G	90042424	G	G	90042424	3	3	107	1	0	0	0	0	1	0	0	0	3474	565	20	4	436	4	CLDN12	7	90042424	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	2846175	90042424	69096239	167	39200										
CASD1	64921	broad.mit.edu	37	chr7	94174935	94174935	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atcaattctattactttgtcCccttggtcactgtatggttc	6	10	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:94174935C>T	uc003uni.3	+	12	1782	c.1555C>T	c.(1555-1557)CCC>TCC	p.P519S	CASD1_uc003unj.3_Missense_Mutation_p.P519S	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	519	Helical; (Potential).					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)			TTACTTTGTCCCCTTGGTCAC	0.328													29	21	---	---	---	---	PASS	T	94174935	T	T	94174935	3	4	107	1	0	0	0	0	1	0	0	0	2664	623	22	3	1601	3	CASD1	7	94174935	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	4132511	94174935	64963728	168	39201										
ZNHIT1	10467	broad.mit.edu	37	chr7	100866982	100866982	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgtggccgagggccctaactAcctgacggcctgtgcgggac	15	13	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:100866982A>G	uc003uye.2	+	4	794	c.302A>G	c.(301-303)TAC>TGC	p.Y101C	ZNHIT1_uc003uyf.2_RNA	NM_006349	NP_006340	O43257	ZNHI1_HUMAN	zinc finger, HIT domain containing 1	101							metal ion binding|protein binding			large_intestine(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					GGCCCTAACTACCTGACGGCC	0.682													17	21	---	---	---	---	PASS	G	100866982	G	G	100866982	3	3	107	1	0	0	0	0	1	0	0	0	18203	391	14	5	316	5	ZNHIT1	7	100866982	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	6692047	100866982	58271681	169	39202										
SLC26A4	5172	broad.mit.edu	37	chr7	107323902	107323902	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcttttgttttatttcagacGataattgctactgccatttc	5	8	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:107323902G>C	uc003vep.2	+	8	1145	c.921G>C	c.(919-921)ACG>ACC	p.T307T		NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	307	Helical; (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						TATTTCAGACGATAATTGCTA	0.348									Pendred_syndrome				19	35	---	---	---	---	PASS	C	107323902	C	C	107323902	2	2	107	1	0	0	0	0	0	0	0	1	14519	1045	37	2		2	SLC26A4	7	107323902	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	6456920	107323902	51814761	170	39203										
PPP1R3A	5506	broad.mit.edu	37	chr7	113519573	113519573	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttctttgtttttcattaacaCctaaatatattctttgttct	2	7	4	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:113519573C>T	uc010ljy.1	-	4	1605	c.1574G>A	c.(1573-1575)GGT>GAT	p.G525D		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	525					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TTCATTAACACCTAAATATAT	0.353													12	23	---	---	---	---	PASS	T	113519573	T	T	113519573	3	4	107	1	0	0	0	0	1	0	0	0	12371	507	18	3	1798	3	PPP1R3A	7	113519573	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	6195671	113519573	45619090	171	39204										
FOXP2	93986	broad.mit.edu	37	chr7	114271687	114271687	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cagcagcagcagcatctgctCagccttcagcgtcagggact	11	14	4	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:114271687C>T	uc003vhb.2	+	6	1076	c.702C>T	c.(700-702)CTC>CTT	p.L234L	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Silent_p.L259L|FOXP2_uc003vha.2_Silent_p.L142L|FOXP2_uc011kmu.1_Silent_p.L251L|FOXP2_uc011kmv.1_Silent_p.L233L|FOXP2_uc010ljz.1_Silent_p.L142L|FOXP2_uc003vgt.1_RNA|FOXP2_uc003vgv.1_Silent_p.L234L|FOXP2_uc003vgx.2_Silent_p.L234L|FOXP2_uc003vhd.2_Silent_p.L234L|FOXP2_uc003vhc.2_Silent_p.L259L	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	234	Gln-rich.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	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(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						AGCATCTGCTCAGCCTTCAGC	0.478													14	18	---	---	---	---	PASS	T	114271687	T	T	114271687	2	4	107	1	0	0	0	0	0	0	0	1	6027	813	29	2		2	FOXP2	7	114271687	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	752114	114271687	44866976	172	39205										
TES	26136	broad.mit.edu	37	chr7	115892000	115892000	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gcagacattactgtgacagcGagaaaccccgatgtgctggc	12	11	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:115892000G>T	uc003vho.2	+	5	1070	c.889G>T	c.(889-891)GAG>TAG	p.E297*	TES_uc011kmy.1_Nonsense_Mutation_p.E55*|TES_uc003vhp.2_Nonsense_Mutation_p.E288*|uc003vhq.1_5'Flank	NM_015641	NP_056456	Q9UGI8	TES_HUMAN	testin isoform 1	297	LIM zinc-binding 1.				negative regulation of cell proliferation	cytoplasm|focal adhesion|nucleus|protein complex	zinc ion binding				0	Lung NSC(10;0.0137)|all_lung(10;0.0148)	Breast(660;0.0602)	STAD - Stomach adenocarcinoma(10;0.00878)			CTGTGACAGCGAGAAACCCCG	0.493													31	32	---	---	---	---	PASS	T	115892000	T	T	115892000	4	4	107	1	0	0	0	0	0	1	0	0	15762	1059	37	2	907	2	TES	7	115892000	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1620313	115892000	43246663	173	39206										
AASS	10157	broad.mit.edu	37	chr7	121753271	121753271	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atggaacacatcaggatcccCgagccttcaacactaaaagc	7	13	2	0	rs139733515		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:121753271C>G	uc003vka.2	-	10	1275	c.1179G>C	c.(1177-1179)TCG>TCC	p.S393S	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Silent_p.S393S|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	393	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	TCAGGATCCCCGAGCCTTCAA	0.408													12	16	---	---	---	---	PASS	G	121753271	G	G	121753271	2	3	107	1	0	0	0	0	0	0	0	1	24	639	23	4		4	AASS	7	121753271	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	5861271	121753271	37385392	174	39207										
LUC7L2	51631	broad.mit.edu	37	chr7	139030286	139030286	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gcagagcccaacatgagcttCatttccaagctgccacctat	7	14	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:139030286C>T	uc011kqt.1	+	2	412	c.178C>T	c.(178-180)CAT>TAT	p.H60Y	LUC7L2_uc011kqs.1_Intron|C7orf55_uc003vuw.3_Missense_Mutation_p.H60Y	NM_016019	NP_057103	Q9Y383	LC7L2_HUMAN	LUC7-like 2	Error:Variant_position_missing_in_Q9Y383_after_alignment							enzyme binding|metal ion binding				0	Melanoma(164;0.242)					ACATGAGCTTCATTTCCAAGC	0.507													14	42	---	---	---	---	PASS	T	139030286	T	T	139030286	3	4	107	1	0	0	0	0	1	0	0	0	9083	826	29	2		2	LUC7L2	7	139030286	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	17277015	139030286	20108377	175	39208										
DENND2A	27147	broad.mit.edu	37	chr7	140301390	140301390	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggcatgtttgaacgttctccGgggttttggcagagggttga	16	6	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:140301390G>A	uc010lnj.2	-	1	953	c.808C>T	c.(808-810)CGG>TGG	p.R270W	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.R270W|DENND2A_uc003vvw.2_Missense_Mutation_p.R270W|DENND2A_uc003vvx.2_Missense_Mutation_p.R270W	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	270										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					AACGTTCTCCGGGGTTTTGGC	0.498													65	96	---	---	---	---	PASS	A	140301390	A	A	140301390	3	1	107	1	0	0	0	0	1	0	0	0	4429	1115	39	1	2293	1	DENND2A	7	140301390	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1271104	140301390	18837273	176	39209										
TAS2R38	5726	broad.mit.edu	37	chr7	141673168	141673168	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gctgaggcaggcagcaagccAgaggttggcttggtttgcaa	16	8	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:141673168A>T	uc003vwx.1	-	1	406	c.322T>A	c.(322-324)TGG>AGG	p.W108R		NM_176817	NP_789787	P59533	T2R38_HUMAN	taste receptor, type 2, member 38	108	Helical; Name=3; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			kidney(1)|skin(1)	2	Melanoma(164;0.0171)					GCAGCAAGCCAGAGGTTGGCT	0.517													30	33	---	---	---	---	PASS	T	141673168	T	T	141673168	3	4	107	1	0	0	0	0	1	0	0	0	15572	188	7	5	683	5	TAS2R38	7	141673168	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	1371778	141673168	17465495	177	39210										
MGAM	8972	broad.mit.edu	37	chr7	141800656	141800656	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gatgatgaaggaactgctggGggctggctcttctgggatga	17	6	2	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:141800656G>A	uc003vwy.2	+	45	5295	c.5241G>A	c.(5239-5241)GGG>GGA	p.G1747G		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1747	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GAACTGCTGGGGGCTGGCTCT	0.498													5	25	---	---	---	---	PASS	A	141800656	A	A	141800656	2	1	107	1	0	0	0	0	0	0	0	1	9541	1219	43	3		3	MGAM	7	141800656	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	127488	141800656	17338007	178	39211										
OR9A2	135924	broad.mit.edu	37	chr7	142723686	142723686	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caggacagtttgagcaattgCcctcggtcacagtaaaaatg	10	9	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:142723686C>G	uc003wcc.1	-	1	534	c.534G>C	c.(532-534)GGG>GGC	p.G178G		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	178	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					TGAGCAATTGCCCTCGGTCAC	0.398													33	49	---	---	---	---	PASS	G	142723686	G	G	142723686	2	3	107	1	0	0	0	0	0	0	0	1	11248	726	26	4		4	OR9A2	7	142723686	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	923030	142723686	16414977	179	39212										
MLL3	58508	broad.mit.edu	37	chr7	151878701	151878701	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	attatgagaaaaattatctaTaggtcttggtgtcaaagcag	9	4	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:151878701T>C	uc003wla.2	-	36	6463	c.6244A>G	c.(6244-6246)ATA>GTA	p.I2082V	MLL3_uc003wkz.2_Missense_Mutation_p.I1143V	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2082	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		AAATTATCTATAGGTCTTGGT	0.458			N		medulloblastoma								27	35	---	---	---	---	PASS	C	151878701	C	C	151878701	3	2	107	1	0	0	0	0	1	0	0	0	9622	1406	49	5	8587	5	MLL3	7	151878701	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	9155015	151878701	7259962	180	39213										
CSMD1	64478	broad.mit.edu	37	chr8	2876056	2876056	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgccaagcactctctgacatGagaccccacaagcgtgtagc	9	14	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:2876056G>T	uc011kwk.1	-	52	8365	c.7975C>A	c.(7975-7977)CAT>AAT	p.H2659N	CSMD1_uc011kwj.1_Missense_Mutation_p.H1988N|CSMD1_uc010lrg.2_Intron	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2659	Extracellular (Potential).|Sushi 17.					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)		TCTCTGACATGAGACCCCACA	0.488													101	44	---	---	---	---	PASS	T	2876056	T	T	2876056	3	4	107	1	0	0	0	0	1	0	0	0	3944	1290	45	2	2798	2	CSMD1	8	2876056	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08		2876056	143487966	181	39214										
CSMD1	64478	broad.mit.edu	37	chr8	3245035	3245035	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccgtcgcagctgggcaaggcGtggttccactggtggttcct	15	12	0	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:3245035G>A	uc011kwk.1	-	18	3156	c.2766C>T	c.(2764-2766)CAC>CAT	p.H922H	CSMD1_uc011kwj.1_Silent_p.H314H|CSMD1_uc003wqe.2_Silent_p.H78H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	922	Extracellular (Potential).|Sushi 5.					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)		TGGGCAAGGCGTGGTTCCACT	0.582													4	1	---	---	---	---	PASS	A	3245035	A	A	3245035	2	1	107	1	0	0	0	0	0	0	0	1	3944	1136	40	1		1	CSMD1	8	3245035	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	368979	3245035	143118987	182	39215										
DLC1	10395	broad.mit.edu	37	chr8	12957525	12957525	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gatcgaagccctctaagtacAtgcccacccgcttgttgcac	8	15	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:12957525A>T	uc003wwm.2	-	9	2765	c.2321T>A	c.(2320-2322)ATG>AAG	p.M774K	DLC1_uc003wwk.1_Missense_Mutation_p.M337K|DLC1_uc003wwl.1_Missense_Mutation_p.M371K|DLC1_uc011kxx.1_Missense_Mutation_p.M263K	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	774					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CTCTAAGTACATGCCCACCCG	0.577													16	3	---	---	---	---	PASS	T	12957525	T	T	12957525	3	4	107	1	0	0	0	0	1	0	0	0	4550	217	8	5	2305	5	DLC1	8	12957525	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	9712490	12957525	133406497	183	39216										
CLU	1191	broad.mit.edu	37	chr8	27468014	27468014	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tggagctcattgtctgagacCgtctggtcccccaggacctg	12	13	3	1	rs141237968	byFrequency	TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:27468014C>A	uc003xfw.1	-	1	133	c.75G>T	c.(73-75)ACG>ACT	p.T25T	CLU_uc010lux.1_5'UTR|CLU_uc003xfx.1_Silent_p.T25T|CLU_uc003xfy.1_Silent_p.T36T|CLU_uc003xfz.1_Silent_p.T77T	NM_203339	NP_976084	P10909	CLUS_HUMAN	clusterin isoform 2	25					chaperone-mediated protein folding|complement activation, classical pathway|innate immune response|lipid metabolic process|negative regulation of apoptosis|negative regulation of protein homooligomerization|platelet activation|platelet degranulation|positive regulation of NF-kappaB transcription factor activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|response to misfolded protein|response to virus|reverse cholesterol transport	chromaffin granule|cytosol|endoplasmic reticulum|microsome|mitochondrial membrane|nucleus|perinuclear region of cytoplasm|platelet alpha granule lumen|spherical high-density lipoprotein particle	misfolded protein binding|ubiquitin protein ligase binding			ovary(2)	2		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|Colorectal(74;0.132)		TGTCTGAGACCGTCTGGTCCC	0.567													17	9	---	---	---	---	PASS	A	27468014	A	A	27468014	2	1	107	1	0	0	0	0	0	0	0	1	3568	639	23	1		1	CLU	8	27468014	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	14510489	27468014	118896008	184	39217										
TEX15	56154	broad.mit.edu	37	chr8	30703523	30703523	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctcttctatgagctttttttAagtgaacaactgctttgtct	6	8	3	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:30703523A>T	uc003xil.2	-	1	3011	c.3011T>A	c.(3010-3012)TTA>TAA	p.L1004*		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1004										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		AGCTTTTTTTAAGTGAACAAC	0.338													54	19	---	---	---	---	PASS	T	30703523	T	T	30703523	4	4	107	1	0	0	0	0	0	1	0	0	15776	372	13	5	5374	5	TEX15	8	30703523	Nonsense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	3235509	30703523	115660499	185	39218										
HTRA4	203100	broad.mit.edu	37	chr8	38832580	38832580	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgcaggcccgctcaggaggaAttacaacttcatcgccgcgg	12	14	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:38832580A>G	uc003xmj.2	+	2	612	c.497A>G	c.(496-498)AAT>AGT	p.N166S		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	166					proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			CTCAGGAGGAATTACAACTTC	0.557													59	27	---	---	---	---	PASS	G	38832580	G	G	38832580	3	3	107	1	0	0	0	0	1	0	0	0	7456	101	4	5	503	5	HTRA4	8	38832580	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	8129057	38832580	107531442	186	39219										
PCMTD1	115294	broad.mit.edu	37	chr8	52733199	52733199	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggaatccccttggcctgcatCtcatcatttatgaaatttct	6	11	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:52733199C>T	uc003xqx.3	-	6	1127	c.786G>A	c.(784-786)GAG>GAA	p.E262E	PCMTD1_uc011ldm.1_Silent_p.E132E|PCMTD1_uc003xqw.3_Silent_p.E262E|PCMTD1_uc011ldn.1_Silent_p.E74E|PCMTD1_uc010lya.2_Silent_p.E186E	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	262						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				TGGCCTGCATCTCATCATTTA	0.408													7	102	---	---	---	---	PASS	T	52733199	T	T	52733199	2	4	107	1	0	0	0	0	0	0	0	1	11586	912	32	2		2	PCMTD1	8	52733199	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	13900619	52733199	93630823	187	39220										
RP1	6101	broad.mit.edu	37	chr8	55534821	55534821	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctcagcgtgtgtaccccaagGgaaatgcaaagtcagaaagc	11	10	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:55534821G>T	uc003xsd.1	+	3	908	c.760G>T	c.(760-762)GGA>TGA	p.G254*	RP1_uc011ldy.1_Nonsense_Mutation_p.G254*	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	254					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GTACCCCAAGGGAAATGCAAA	0.423													39	12	---	---	---	---	PASS	T	55534821	T	T	55534821	4	4	107	1	0	0	0	0	0	1	0	0	13532	1233	43	3	766	3	RP1	8	55534821	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	2801622	55534821	90829201	188	39221										
ZFHX4	79776	broad.mit.edu	37	chr8	77616390	77616390	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agagcacatcaaagctatgtGgaacgacacaacttgataat	8	8	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:77616390G>T	uc003yav.2	+	2	454	c.67G>T	c.(67-69)GGA>TGA	p.G23*	ZFHX4_uc003yat.1_Nonsense_Mutation_p.G23*|ZFHX4_uc003yau.1_Nonsense_Mutation_p.G23*|ZFHX4_uc003yaw.1_Nonsense_Mutation_p.G23*	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	23						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAAGCTATGTGGAACGACACA	0.493										HNSCC(33;0.089)			5	53	---	---	---	---	PASS	T	77616390	T	T	77616390	4	4	107	1	0	0	0	0	0	1	0	0	17632	1349	47	3	69	3	ZFHX4	8	77616390	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	22081569	77616390	68747632	189	39222										
ZFHX4	79776	broad.mit.edu	37	chr8	77775461	77775461	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctccaccacctcctcctcctCctcctccttcatcctctctg	1	24	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:77775461C>A	uc003yav.2	+	11	9763	c.9376C>A	c.(9376-9378)CCT>ACT	p.P3126T		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3122	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			tcctcctcctcctcctccttc	0.358										HNSCC(33;0.089)			18	9	---	---	---	---	PASS	A	77775461	A	A	77775461	3	1	107	1	0	0	0	0	1	0	0	0	17632	855	30	2	9549	2	ZFHX4	8	77775461	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	159071	77775461	68588561	190	39223										
RALYL	138046	broad.mit.edu	37	chr8	85799928	85799928	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atcactctacagaggagcctGctgaaggagggccagatgcc	13	11	2	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:85799928G>A	uc003ycq.3	+	9	1191	c.775G>A	c.(775-777)GCT>ACT	p.A259T	RALYL_uc003ycr.3_Missense_Mutation_p.A259T|RALYL_uc003ycs.3_Missense_Mutation_p.A259T|RALYL_uc010lzy.2_Missense_Mutation_p.A248T|RALYL_uc003yct.3_Missense_Mutation_p.A272T|RALYL_uc003ycu.3_Missense_Mutation_p.A186T|RALYL_uc003ycv.3_Intron	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2	259							identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						AGAGGAGCCTGCTGAAGGAGG	0.507													9	137	---	---	---	---	PASS	A	85799928	A	A	85799928	3	1	107	1	0	0	0	0	1	0	0	0	13020	1319	46	3	844	3	RALYL	8	85799928	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	8024467	85799928	60564094	191	39224										
CTHRC1	115908	broad.mit.edu	37	chr8	104390442	104390442	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aggaagccctgaaatgaattCaacaattaatattcatcgca	6	8	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:104390442C>T	uc003ylk.2	+	3	659	c.560C>T	c.(559-561)TCA>TTA	p.S187L		NM_138455	NP_612464	Q96CG8	CTHR1_HUMAN	collagen triple helix repeat containing 1	187						collagen				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(57;2.79e-06)|STAD - Stomach adenocarcinoma(118;0.197)			GAAATGAATTCAACAATTAAT	0.373													8	46	---	---	---	---	PASS	T	104390442	T	T	104390442	3	4	107	1	0	0	0	0	1	0	0	0	4010	838	29	2	570	2	CTHRC1	8	104390442	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	18590514	104390442	41973580	192	39225										
ZFPM2	23414	broad.mit.edu	37	chr8	106815050	106815050	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcagctacgaaagaagcataAtaaaatgtgagaaaaatggg	10	4	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:106815050A>G	uc003ymd.2	+	8	2763	c.2740A>G	c.(2740-2742)ATA>GTA	p.I914V	ZFPM2_uc011lhs.1_Missense_Mutation_p.I645V	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	914					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AAGAAGCATAATAAAATGTGA	0.453													23	22	---	---	---	---	PASS	G	106815050	G	G	106815050	3	3	107	1	0	0	0	0	1	0	0	0	17655	101	4	5	2770	5	ZFPM2	8	106815050	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	2424608	106815050	39548972	193	39226										
TAF2	6873	broad.mit.edu	37	chr8	120759010	120759010	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgcagcttcttggttgcctgCtactgactctggaattatgg	11	9	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:120759010C>G	uc003you.2	-	23	3313	c.3043G>C	c.(3043-3045)GCA>CCA	p.A1015P		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	1015					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TGGTTGCCTGCTACTGACTCT	0.428													17	125	---	---	---	---	PASS	G	120759010	G	G	120759010	3	3	107	1	0	0	0	0	1	0	0	0	15521	797	28	4	572	4	TAF2	8	120759010	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	13943960	120759010	25605012	194	39227										
COL22A1	169044	broad.mit.edu	37	chr8	139890382	139890382	+	Frame_Shift_Del	DEL	A	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agccaaagagtcccaactcgAaggccgtggtgggccggtcg							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:139890382delA	uc003yvd.2	-	3	716	c.269delT	c.(268-270)TTCfs	p.F90fs		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	90	VWFA.				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)			TCCCAACTCGAAGGCCGTGGT	0.701										HNSCC(7;0.00092)			4	2	---	---	---	---		-	139890382	-	-	139890382	7	5	107	1	0	1	0	1	0	0	0	0	3681	246	9	0	4863	0	COL22A1	8	139890382	Frame_Shift_Del	DEL	A	TCGA-46-3768-01A-01D-0983-08	19131372	139890382	6473640	195	39228										
ARC	23237	broad.mit.edu	37	chr8	143694528	143694528	+	Frame_Shift_Del	DEL	G	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctcatcctccaccgggaggtGggggccggccggctcggccg							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:143694528delG	uc003ywn.1	-	1	1306	c.1105delC	c.(1105-1107)CACfs	p.H369fs		NM_015193	NP_056008	Q7LC44	ARC_HUMAN	activity-regulated cytoskeleton-associated	369					endocytosis	acrosomal vesicle|cell junction|dendritic spine|endosome|postsynaptic density|postsynaptic membrane				breast(1)	1	all_cancers(97;3.55e-12)|all_epithelial(106;1.03e-08)|Lung NSC(106;0.000353)|all_lung(105;0.00092)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.0279)				ACCGGGAGGTGGGGGCCGGCC	0.711													2	4	---	---	---	---		-	143694528	-	-	143694528	7	5	107	1	0	1	0	1	0	0	0	0	841	1348	47	0	89	0	ARC	8	143694528	Frame_Shift_Del	DEL	G	TCGA-46-3768-01A-01D-0983-08	3804146	143694528	2669494	196	39229										
ZNF34	80778	broad.mit.edu	37	chr8	145999031	145999031	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gtggcttctctgatgttccaCgagtttggttttttgaatga	11	6	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:145999031C>A	uc003zdy.3	-	6	1405	c.1303G>T	c.(1303-1305)GTG>TTG	p.V435L	ZNF34_uc010mgb.2_Missense_Mutation_p.V332L|ZNF34_uc003zdx.3_Missense_Mutation_p.V414L	NM_030580	NP_085057	Q8IZ26	ZNF34_HUMAN	zinc finger protein 34	435	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.221)	OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;5.18e-38)|all cancers(56;4.41e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.0179)		TGATGTTCCACGAGTTTGGTT	0.413													39	13	---	---	---	---	PASS	A	145999031	A	A	145999031	3	1	107	1	0	0	0	0	1	0	0	0	17853	536	19	1	383	1	ZNF34	8	145999031	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	2304503	145999031	364991	197	39230										
DMRT1	1761	broad.mit.edu	37	chr9	893917	893917	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttcttccaatttagagggaCgtatggtcatccaggatatt	9	7	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:893917C>T	uc003zgv.2	+	3	693	c.544C>T	c.(544-546)CGT>TGT	p.R182C	DMRT1_uc003zgu.1_Missense_Mutation_p.R182C	NM_021951	NP_068770	Q9Y5R6	DMRT1_HUMAN	doublesex and mab-3 related transcription factor	182					cell differentiation|male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(10;2.66e-10)|Lung NSC(10;2.82e-10)|Breast(48;0.232)		Lung(218;0.037)		TTTAGAGGGACGTATGGTCAT	0.448											OREG0019071	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	18	---	---	---	---	PASS	T	893917	T	T	893917	3	4	107	1	0	0	0	0	1	0	0	0	4585	536	19	1	554	1	DMRT1	9	893917	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08		893917	140319514	198	39231										
C9orf68	55064	broad.mit.edu	37	chr9	4605351	4605351	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tataagaaagtctaaccttgTtttggtgcagctgtgctctg	10	7	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:4605351T>C	uc011llz.1	-	9	1149	c.911A>G	c.(910-912)AAC>AGC	p.N304S	C9orf68_uc003zik.2_RNA|C9orf68_uc003zil.2_RNA|C9orf68_uc010mhj.2_Missense_Mutation_p.N362S|C9orf68_uc011lly.1_Missense_Mutation_p.N239S	NM_001039395	NP_001034484	B4DIY4	B4DIY4_HUMAN	hypothetical protein LOC55064	304											0		Breast(48;0.0456)		GBM - Glioblastoma multiforme(50;0.0222)		TCTAACCTTGTTTTGGTGCAG	0.328													29	7	---	---	---	---	PASS	C	4605351	C	C	4605351	3	2	107	1	0	0	0	0	1	0	0	0	2491	1725	60	5	101	5	C9orf68	9	4605351	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	3711434	4605351	136608080	199	39232										
C9orf72	203228	broad.mit.edu	37	chr9	27556758	27556758	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gggatatggagcatacatgaCttgccggaaaggcagcacaa	13	8	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:27556758C>T	uc003zqq.2	-	8	989	c.892G>A	c.(892-894)GTC>ATC	p.V298I		NM_018325	NP_060795	Q96LT7	CI072_HUMAN	hypothetical protein LOC203228 isoform a	298										ovary(3)|central_nervous_system(1)	4		all_neural(11;7.57e-10)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.00016)		GCATACATGACTTGCCGGAAA	0.378													46	27	---	---	---	---	PASS	T	27556758	T	T	27556758	3	4	107	1	0	0	0	0	1	0	0	0	2495	565	20	3	569	3	C9orf72	9	27556758	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	22951407	27556758	113656673	200	39233										
UBAP1	51271	broad.mit.edu	37	chr9	34241647	34241647	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aggggaggctctgggtctgtGttacaggatgaggaggtcct	18	6	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:34241647G>C	uc003ztx.2	+	4	859	c.624G>C	c.(622-624)GTG>GTC	p.V208V	UBAP1_uc010mka.1_Silent_p.V244V|UBAP1_uc003zty.2_Silent_p.V208V|UBAP1_uc011loi.1_Silent_p.V244V|UBAP1_uc011loj.1_Silent_p.V272V|KIF24_uc010mkb.2_Intron|UBAP1_uc003ztz.2_Silent_p.V208V	NM_016525	NP_057609	Q9NZ09	UBAP1_HUMAN	ubiquitin associated protein 1	208						cytoplasm					0			LUSC - Lung squamous cell carcinoma(29;0.00272)			CTGGGTCTGTGTTACAGGATG	0.483													13	162	---	---	---	---	PASS	C	34241647	C	C	34241647	2	2	107	1	0	0	0	0	0	0	0	1	16833	1364	48	4		4	UBAP1	9	34241647	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	6684889	34241647	106971784	201	39234										
KIF24	347240	broad.mit.edu	37	chr9	34257596	34257596	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgcccattcgatttttctcaGagcacaatggtgctgactct	8	11	2	2	rs10972026		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:34257596G>T	uc003zua.3	-	11	2129	c.2009C>A	c.(2008-2010)TCT>TAT	p.S670Y	KIF24_uc010mkb.2_Intron	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	670					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			ATTTTTCTCAGAGCACAATGG	0.527													11	443	---	---	---	---	PASS	T	34257596	T	T	34257596	3	4	107	1	0	0	0	0	1	0	0	0	8292	942	33	2	2109	2	KIF24	9	34257596	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	15949	34257596	106955835	202	39235										
VCP	7415	broad.mit.edu	37	chr9	35061053	35061053	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgctagagagttcatgacctCggcatcaatggtctcatcct	9	11	3	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:35061053C>A	uc003zvy.2	-	11	1707	c.1318G>T	c.(1318-1320)GAG>TAG	p.E440*	VCP_uc003zvz.2_RNA|VCP_uc010mkh.1_Nonsense_Mutation_p.E109*|VCP_uc010mki.1_Nonsense_Mutation_p.E395*	NM_007126	NP_009057	P55072	TERA_HUMAN	valosin-containing protein	440					activation of caspase activity|double-strand break repair|endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|retrograde protein transport, ER to cytosol	cytosol|endoplasmic reticulum|microsome|nucleus|proteasome complex	ATP binding|ATPase activity|lipid binding|polyubiquitin binding|protein domain specific binding|protein phosphatase binding			upper_aerodigestive_tract(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			TTCATGACCTCGGCATCAATG	0.527													11	882	---	---	---	---	PASS	A	35061053	A	A	35061053	4	1	107	1	0	0	0	0	0	1	0	0	17137	893	31	2	1130	2	VCP	9	35061053	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	803457	35061053	106152378	203	39236										
FAM166B	730112	broad.mit.edu	37	chr9	35563227	35563227	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgcctgacaggtagactctcCctgggaacctcaggagatct	11	13	3	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:35563227C>A	uc010mkr.2	-	2	293	c.222G>T	c.(220-222)AGG>AGT	p.R74S	FAM166B_uc011lov.1_Missense_Mutation_p.R74S|FAM166B_uc011low.1_Missense_Mutation_p.R74S|FAM166B_uc003zwy.2_Missense_Mutation_p.R74S	NM_001164310	NP_001157782	A8MTA8	F166B_HUMAN	hypothetical protein LOC730112 isoform 1	74											0						GTAGACTCTCCCTGGGAACCT	0.617													12	552	---	---	---	---	PASS	A	35563227	A	A	35563227	3	1	107	1	0	0	0	0	1	0	0	0	5482	622	22	3	444	3	FAM166B	9	35563227	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	502174	35563227	105650204	204	39237										
MSMP	692094	broad.mit.edu	37	chr9	35753243	35753243	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcctgcctcctgacgtacctCacacccagccgggaagtcga	9	17	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:35753243C>A	uc003zyb.1	-	3	420	c.274G>T	c.(274-276)GAG>TAG	p.E92*		NM_001044264	NP_001037729	Q1L6U9	MSMP_HUMAN	PC3-secreted microprotein precursor	92						extracellular region					0						TGACGTACCTCACACCCAGCC	0.602													6	129	---	---	---	---	PASS	A	35753243	A	A	35753243	4	1	107	1	0	0	0	0	0	1	0	0	9884	835	29	2	149	2	MSMP	9	35753243	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	190016	35753243	105460188	205	39238										
NPR2	4882	broad.mit.edu	37	chr9	35807326	35807326	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctgcttttctatcccttttaGgtagtgacacttcttaatga	6	9	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:35807326G>T	uc003zyd.2	+	18	2644	c.2644_splice	c.e18-1	p.V882_splice	NPR2_uc010mlb.2_Splice_Site_p.V858_splice	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor						intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	ATCCCTTTTAGGTAGTGACAC	0.423													12	689	---	---	---	---	PASS	T	35807326	T	T	35807326	5	4	107	1	0	0	0	0	0	0	1	0	10595	1014	35	3	2713	3	NPR2	9	35807326	Splice_Site	SNP	G	TCGA-46-3768-01A-01D-0983-08	54083	35807326	105406105	206	39239										
TMEM8B	51754	broad.mit.edu	37	chr9	35853137	35853137	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cccttgagtctctttctctaGgtgctgtatttgctgggagc	11	10	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:35853137G>T	uc003zym.2	+	13	1982	c.967_splice	c.e13-1	p.V323_splice	TMEM8B_uc003zyo.2_Splice_Site_p.V323_splice	NM_001042589	NP_001036054	A6NDV4	TMM8B_HUMAN	transmembrane protein 8B isoform a						cell-matrix adhesion|regulation of growth|regulation of mitotic cell cycle	cell surface|endoplasmic reticulum|integral to membrane|mitochondrion|nucleus|plasma membrane	protein binding			ovary(1)	1						TCTTTCTCTAGGTGCTGTATT	0.582													11	831	---	---	---	---	PASS	T	35853137	T	T	35853137	5	4	107	1	0	0	0	0	0	0	1	0	16212	1014	35	3	1190	3	TMEM8B	9	35853137	Splice_Site	SNP	G	TCGA-46-3768-01A-01D-0983-08	45811	35853137	105360294	207	39240										
TRPM3	80036	broad.mit.edu	37	chr9	73235238	73235238	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caatgtccacctcttcttcaCgtttcttggttgtctttctt	5	12	6	0	rs145000157		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:73235238C>A	uc004aid.2	-	15	2091	c.1847G>T	c.(1846-1848)CGT>CTT	p.R616L	TRPM3_uc004ahu.2_Missense_Mutation_p.R446L|TRPM3_uc004ahv.2_Missense_Mutation_p.R418L|TRPM3_uc004ahw.2_Missense_Mutation_p.R488L|TRPM3_uc004ahx.2_Missense_Mutation_p.R475L|TRPM3_uc004ahy.2_Missense_Mutation_p.R478L|TRPM3_uc004ahz.2_Missense_Mutation_p.R465L|TRPM3_uc004aia.2_Missense_Mutation_p.R463L|TRPM3_uc004aib.2_Missense_Mutation_p.R453L|TRPM3_uc004aic.2_Missense_Mutation_p.R616L	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	641	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						CTCTTCTTCACGTTTCTTGGT	0.433													129	26	---	---	---	---	PASS	A	73235238	A	A	73235238	3	1	107	1	0	0	0	0	1	0	0	0	16584	536	19	1	3320	1	TRPM3	9	73235238	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	37382101	73235238	67978193	208	39241										
PRUNE2	158471	broad.mit.edu	37	chr9	79324805	79324805	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gcactccaggctgggaatggCgccacagctgctggttcacc	13	14	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:79324805C>A	uc010mpk.2	-	8	2509	c.2385G>T	c.(2383-2385)GCG>GCT	p.A795A		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	795					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CTGGGAATGGCGCCACAGCTG	0.488													7	35	---	---	---	---	PASS	A	79324805	A	A	79324805	2	1	107	1	0	0	0	0	0	0	0	1	12641	755	27	1		1	PRUNE2	9	79324805	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	6089567	79324805	61888626	209	39242										
GKAP1	80318	broad.mit.edu	37	chr9	86403544	86403544	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gctcttcatattctagtttaCttagtaacaatgccttctca	4	10	4	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:86403544C>A	uc004amy.2	-	5	906	c.410G>T	c.(409-411)AGT>ATT	p.S137I	GKAP1_uc004amz.2_Missense_Mutation_p.S137I|GKAP1_uc011lsu.1_RNA	NM_025211	NP_079487	Q5VSY0	GKAP1_HUMAN	G kinase anchoring protein 1 isoform a	137	Potential.				signal transduction	Golgi apparatus					0						TTCTAGTTTACTTAGTAACAA	0.303													4	107	---	---	---	---	PASS	A	86403544	A	A	86403544	3	1	107	1	0	0	0	0	1	0	0	0	6423	565	20	3	726	3	GKAP1	9	86403544	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	7078739	86403544	54809887	210	39243										
C9orf79	286234	broad.mit.edu	37	chr9	90500668	90500668	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctgccccgtcctcagcaagtCtctgatgccacaaccgtggg	10	16	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:90500668C>A	uc004app.3	+	4	1301	c.1266C>A	c.(1264-1266)GTC>GTA	p.V422V	C9orf79_uc004apo.1_Silent_p.V234V	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	422						integral to membrane				ovary(3)	3						CTCAGCAAGTCTCTGATGCCA	0.577													75	19	---	---	---	---	PASS	A	90500668	A	A	90500668	2	1	107	1	0	0	0	0	0	0	0	1	2497	900	32	2		2	C9orf79	9	90500668	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	4097124	90500668	50712763	211	39244										
FANCC	2176	broad.mit.edu	37	chr9	97864116	97864116	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caatgatctcgtgagttatcTcagcagtgtgagccatctgc	10	10	3	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:97864116T>A	uc004avh.2	-	15	1812	c.1550A>T	c.(1549-1551)GAG>GTG	p.E517V		NM_000136	NP_000127	Q00597	FANCC_HUMAN	Fanconi anemia, complementation group C	517					protein complex assembly	cytosol|nucleoplasm	protein binding			kidney(1)	1		Acute lymphoblastic leukemia(62;0.138)				GTGAGTTATCTCAGCAGTGTG	0.473			D|Mis|N|F|S			AML|leukemia		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				17	64	---	---	---	---	PASS	A	97864116	A	A	97864116	3	1	107	1	0	0	0	0	1	0	0	0	5664	1551	54	5	130	5	FANCC	9	97864116	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	7363448	97864116	43349315	212	39245										
IKBKAP	8518	broad.mit.edu	37	chr9	111640903	111640903	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	catcaggactgagaatatacCtttcaggttttcagtgttct	8	8	4	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:111640903C>A	uc004bdm.3	-	34	4220	c.3700G>T	c.(3700-3702)GAT>TAT	p.D1234Y	IKBKAP_uc004bdl.2_Missense_Mutation_p.D885Y|IKBKAP_uc011lwc.1_Missense_Mutation_p.D1120Y|IKBKAP_uc010mtq.2_Missense_Mutation_p.D885Y|IKBKAP_uc004bdk.2_Missense_Mutation_p.D238Y|IKBKAP_uc010mtp.2_RNA	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	1234					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						GAGAATATACCTTTCAGGTTT	0.498													8	175	---	---	---	---	PASS	A	111640903	A	A	111640903	3	1	107	1	0	0	0	0	1	0	0	0	7610	695	24	3	314	3	IKBKAP	9	111640903	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	13776787	111640903	29572528	213	39246										
ZNF483	158399	broad.mit.edu	37	chr9	114296103	114296103	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cttttcaaaaggagctatatAaggaagtgctactggaaaac	9	6	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:114296103A>C	uc004bff.2	+	4	810	c.586A>C	c.(586-588)AAG>CAG	p.K196Q	ZNF483_uc011lwq.1_Missense_Mutation_p.K196Q|ZNF483_uc004bfg.2_Missense_Mutation_p.K196Q	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	196	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						GGAGCTATATAAGGAAGTGCT	0.408													6	64	---	---	---	---	PASS	C	114296103	C	C	114296103	3	2	107	1	0	0	0	0	1	0	0	0	17933	363	13	5	596	5	ZNF483	9	114296103	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	2655200	114296103	26917328	214	39247										
C10orf18	54906	broad.mit.edu	37	chr10	5799560	5799560	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agccctggagatgttcttgaTcacacctaccaagaactgtt	8	11	2	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:5799560T>C	uc001iij.2	+	17	7435	c.6810T>C	c.(6808-6810)GAT>GAC	p.D2270D	C10orf18_uc001iik.2_Silent_p.D1114D	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	2270										ovary(1)|central_nervous_system(1)	2						ATGTTCTTGATCACACCTACC	0.438													43	159	---	---	---	---	PASS	C	5799560	C	C	5799560	2	2	107	1	0	0	0	0	0	0	0	1	1596	1432	50	5		5	C10orf18	10	5799560	Silent	SNP	T	TCGA-46-3768-01A-01D-0983-08		5799560	129735187	215	39248										
CUBN	8029	broad.mit.edu	37	chr10	17156039	17156039	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aatgtacctgttggacaggcCccacagtagaaagagccttg	11	10	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:17156039C>A	uc001ioo.2	-	8	922	c.870G>T	c.(868-870)GGG>GGT	p.G290G		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	290	EGF-like 3; calcium-binding (Potential).				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)	TTGGACAGGCCCCACAGTAGA	0.552													7	12	---	---	---	---	PASS	A	17156039	A	A	17156039	2	1	107	1	0	0	0	0	0	0	0	1	4051	610	22	3		3	CUBN	10	17156039	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	11356479	17156039	118378708	216	39249										
ZEB1	6935	broad.mit.edu	37	chr10	31810412	31810412	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttcctcatccagaaatacaCagggttacttgtacacagct	6	11	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:31810412C>A	uc001ivs.3	+	7	2212	c.2149C>A	c.(2149-2151)CAG>AAG	p.Q717K	ZEB1_uc001ivr.3_Missense_Mutation_p.Q499K|ZEB1_uc010qee.1_Missense_Mutation_p.Q499K|ZEB1_uc010qef.1_Missense_Mutation_p.Q499K|ZEB1_uc009xlj.1_Missense_Mutation_p.Q643K|ZEB1_uc010qeg.1_Missense_Mutation_p.Q576K|ZEB1_uc009xlk.1_Missense_Mutation_p.Q499K|ZEB1_uc001ivt.3_Missense_Mutation_p.Q499K|ZEB1_uc001ivu.3_Missense_Mutation_p.Q718K|ZEB1_uc001ivv.3_Missense_Mutation_p.Q697K|ZEB1_uc010qeh.1_Missense_Mutation_p.Q650K|ZEB1_uc009xlo.1_Missense_Mutation_p.Q700K|ZEB1_uc009xlp.2_Missense_Mutation_p.Q701K	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	717					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				CAGAAATACACAGGGTTACTT	0.453													16	41	---	---	---	---	PASS	A	31810412	A	A	31810412	3	1	107	1	0	0	0	0	1	0	0	0	17620	479	17	3	2189	3	ZEB1	10	31810412	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	14654373	31810412	103724335	217	39250										
ZNF33A	7581	broad.mit.edu	37	chr10	38345348	38345348	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctcaaaagtcaaatctcattGtacatcagagaagacatata	5	8	4	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:38345348G>C	uc001izh.2	+	5	2471	c.2293G>C	c.(2293-2295)GTA>CTA	p.V765L	ZNF33A_uc001izg.2_Missense_Mutation_p.V766L|ZNF33A_uc010qev.1_Missense_Mutation_p.V772L|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	765	C2H2-type 16.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						AAATCTCATTGTACATCAGAG	0.378													25	39	---	---	---	---	PASS	C	38345348	C	C	38345348	3	2	107	1	0	0	0	0	1	0	0	0	17851	1377	48	4	2310	4	ZNF33A	10	38345348	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	6534936	38345348	97189399	218	39251										
FRMPD2	143162	broad.mit.edu	37	chr10	49392662	49392662	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caggggaattctggatcatcCtaacagccatgttgaatgtg	11	8	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:49392662C>G	uc001jgi.2	-	20	2638	c.2531G>C	c.(2530-2532)AGG>ACG	p.R844T	FRMPD2_uc001jgh.2_Missense_Mutation_p.R812T|FRMPD2_uc001jgj.2_Missense_Mutation_p.R822T	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	844	PDZ 1.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		CTGGATCATCCTAACAGCCAT	0.408													16	25	---	---	---	---	PASS	G	49392662	G	G	49392662	3	3	107	1	0	0	0	0	1	0	0	0	6058	681	24	4	1438	4	FRMPD2	10	49392662	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	11047314	49392662	86142085	219	39252										
SAMD8	142891	broad.mit.edu	37	chr10	76910349	76910349	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aagcatgtagctgtgtggctGaaggatgaaggcttttttga	14	4	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:76910349G>A	uc001jwx.1	+	2	166	c.63G>A	c.(61-63)CTG>CTA	p.L21L	SAMD8_uc001jwy.1_Silent_p.L21L	NM_144660	NP_653261	Q96LT4	SAMD8_HUMAN	sterile alpha motif domain containing 8	21	SAM.				sphingomyelin biosynthetic process	integral to membrane					0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					CTGTGTGGCTGAAGGATGAAG	0.453													23	26	---	---	---	---	PASS	A	76910349	A	A	76910349	2	1	107	1	0	0	0	0	0	0	0	1	13825	1277	45	2		2	SAMD8	10	76910349	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	27517687	76910349	58624398	220	39253										
GBF1	8729	broad.mit.edu	37	chr10	104135269	104135269	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccacactcttcacactgctgGagtgcatcggctcaggtgtg	11	13	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:104135269G>C	uc001kux.1	+	30	4051	c.3811G>C	c.(3811-3813)GAG>CAG	p.E1271Q	GBF1_uc001kuy.1_Missense_Mutation_p.E1271Q|GBF1_uc001kuz.1_Missense_Mutation_p.E1272Q	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1271					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CACACTGCTGGAGTGCATCGG	0.592													16	8	---	---	---	---	PASS	C	104135269	C	C	104135269	3	2	107	1	0	0	0	0	1	0	0	0	6271	1175	41	2	3925	2	GBF1	10	104135269	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	27224920	104135269	31399478	221	39254										
SORCS3	22986	broad.mit.edu	37	chr10	106907389	106907389	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttcaggacatgcacatcatCagtacagacgagaaccaagt	8	10	3	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:106907389C>T	uc001kyi.1	+	9	1544	c.1317C>T	c.(1315-1317)ATC>ATT	p.I439I		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	439	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		TGCACATCATCAGTACAGACG	0.458													11	19	---	---	---	---	PASS	T	106907389	T	T	106907389	2	4	107	1	0	0	0	0	0	0	0	1	14932	816	29	2		2	SORCS3	10	106907389	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	2772120	106907389	28627358	222	39255										
ABLIM1	3983	broad.mit.edu	37	chr10	116232760	116232760	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccaaggctctgtctctcctgTttgtcatcatagcccgaagt	8	13	4	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:116232760T>C	uc010qsg.1	-	10	1350	c.1251A>G	c.(1249-1251)AAA>AAG	p.K417K	ABLIM1_uc010qsh.1_Silent_p.K385K|ABLIM1_uc010qsi.1_Silent_p.K357K|ABLIM1_uc010qsk.1_Silent_p.K341K|ABLIM1_uc009xyp.2_Silent_p.K379K|ABLIM1_uc010qsf.1_Silent_p.K129K|ABLIM1_uc009xyn.2_Silent_p.K68K|ABLIM1_uc010qsj.1_Silent_p.K94K|ABLIM1_uc009xyo.2_Silent_p.K265K	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	417					axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		GTCTCTCCTGTTTGTCATCAT	0.403													44	14	---	---	---	---	PASS	C	116232760	C	C	116232760	2	2	107	1	0	0	0	0	0	0	0	1	94	1722	60	5		5	ABLIM1	10	116232760	Silent	SNP	T	TCGA-46-3768-01A-01D-0983-08	9325371	116232760	19301987	223	39256										
MKI67	4288	broad.mit.edu	37	chr10	129913759	129913759	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttgttcaggtgaagcaggctCtgccacagcgtggccgctcc	13	13	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:129913759C>G	uc001lke.2	-	7	1108	c.913G>C	c.(913-915)GAG>CAG	p.E305Q	MKI67_uc001lkf.2_Intron|MKI67_uc009yav.1_Intron|MKI67_uc009yaw.1_Intron	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	305					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GAAGCAGGCTCTGCCACAGCG	0.552													4	20	---	---	---	---	PASS	G	129913759	G	G	129913759	3	3	107	1	0	0	0	0	1	0	0	0	9598	922	32	2	8893	2	MKI67	10	129913759	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	13680999	129913759	5620988	224	39257										
TCERG1L	256536	broad.mit.edu	37	chr10	133106547	133106547	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gccggcctggacagagacacAgctacttgatttgccagcaa	11	12	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:133106547A>C	uc001lkp.2	-	3	683	c.597T>G	c.(595-597)GCT>GCG	p.A199A		NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	199										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		ACAGAGACACAGCTACTTGAT	0.522													21	8	---	---	---	---	PASS	C	133106547	C	C	133106547	2	2	107	1	0	0	0	0	0	0	0	1	15683	175	7	5		5	TCERG1L	10	133106547	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	3192788	133106547	2428200	225	39258										
MUC6	4588	broad.mit.edu	37	chr11	1020215	1020215	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agctgagaagcccgatggtgGtggaggttcccgtcatgggc	17	9	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:1020215G>T	uc001lsw.2	-	29	3734	c.3683C>A	c.(3682-3684)ACC>AAC	p.T1228N		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1228					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCCGATGGTGGTGGAGGTTCC	0.657													16	6	---	---	---	---	PASS	T	1020215	T	T	1020215	3	4	107	1	0	0	0	0	1	0	0	0	9980	1261	44	3	3656	3	MUC6	11	1020215	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08		1020215	133986301	226	39259										
OR51M1	390059	broad.mit.edu	37	chr11	5411036	5411036	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atgtcctttgaccgccttgtGgccatctgccaccctctgag	9	15	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:5411036G>T	uc010qzc.1	+	1	408	c.408G>T	c.(406-408)GTG>GTT	p.V136V	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,	136						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)		ACCGCCTTGTGGCCATCTGCC	0.517													83	37	---	---	---	---	PASS	T	5411036	T	T	5411036	2	4	107	1	0	0	0	0	0	0	0	1	11103	1335	47	3		3	OR51M1	11	5411036	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	4390821	5411036	129595480	227	39260										
OR52H1	390067	broad.mit.edu	37	chr11	5566079	5566079	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gcacagaggatgtgtgcgtaGgaaacagcaatgagaatcac	13	7	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:5566079G>T	uc010qzh.1	-	1	675	c.675C>A	c.(673-675)TCC>TCA	p.S225S	HBG2_uc001mak.1_Intron	NM_001005289	NP_001005289	Q8NGJ2	O52H1_HUMAN	olfactory receptor, family 52, subfamily H,	225	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;5.33e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGTGTGCGTAGGAAACAGCAA	0.507													4	28	---	---	---	---	PASS	T	5566079	T	T	5566079	2	4	107	1	0	0	0	0	0	0	0	1	11119	987	35	3		3	OR52H1	11	5566079	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	155043	5566079	129440437	228	39261										
FAR1	84188	broad.mit.edu	37	chr11	13729455	13729455	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctttttaaacagagatgctgTtcagttaaatgtgattgcaa	8	5	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:13729455T>C	uc001mld.2	+	4	529	c.374T>C	c.(373-375)GTT>GCT	p.V125A	FAR1_uc009ygp.2_Missense_Mutation_p.V125A	NM_032228	NP_115604	Q8WVX9	FACR1_HUMAN	fatty acyl CoA reductase 1	125					ether lipid biosynthetic process	integral to membrane|peroxisomal matrix|peroxisomal membrane	protein binding			ovary(1)|skin(1)	2						AGAGATGCTGTTCAGTTAAAT	0.343													16	1	---	---	---	---	PASS	C	13729455	C	C	13729455	3	2	107	1	0	0	0	0	1	0	0	0	5674	1725	60	5	384	5	FAR1	11	13729455	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	8163376	13729455	121277061	229	39262										
SPON1	10418	broad.mit.edu	37	chr11	14280884	14280884	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcgccctgcagcatctcctgCggcatgggcatgaggtcccg	13	15	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:14280884C>A	uc001mle.2	+	13	2089	c.1551C>A	c.(1549-1551)TGC>TGA	p.C517*		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	517	TSP type-1 2.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		GCATCTCCTGCGGCATGGGCA	0.632													8	3	---	---	---	---	PASS	A	14280884	A	A	14280884	4	1	107	1	0	0	0	0	0	1	0	0	15081	776	27	1	1596	1	SPON1	11	14280884	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	551429	14280884	120725632	230	39263										
SLC6A5	9152	broad.mit.edu	37	chr11	20668427	20668427	+	Missense_Mutation	SNP	C	G	G													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agatgatgattggattccagCctaacatcttctggaaagtc							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:20668427C>G	uc001mqd.2	+	14	2290	c.2017C>G	c.(2017-2019)CCT>GCT	p.P673A	SLC6A5_uc009yic.2_Missense_Mutation_p.P438A	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	673					synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	TGGATTCCAGCCTAACATCTT	0.433													23	12	---	---	---	---	PASS	G	20668427	G	G	20668427	3	3	107	1	0	0	0	0	1	0	0	0	14687	739	26	4	2071	4	SLC6A5	11	20668427	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	6387543	20668427	114338089	231	39264	732	2								
SLC6A5	9152	broad.mit.edu	37	chr11	20668428	20668428	+	Missense_Mutation	SNP	C	G	G													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gatgatgattggattccagcCtaacatcttctggaaagtct							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:20668428C>G	uc001mqd.2	+	14	2291	c.2018C>G	c.(2017-2019)CCT>CGT	p.P673R	SLC6A5_uc009yic.2_Missense_Mutation_p.P438R	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	673					synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	GGATTCCAGCCTAACATCTTC	0.428													23	12	---	---	---	---	PASS	G	20668428	G	G	20668428	3	3	107	1	0	0	0	0	1	0	0	0	14687	681	24	4	2072	4	SLC6A5	11	20668428	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1	20668428	114338088	232	39265	732	2								
ANO3	63982	broad.mit.edu	37	chr11	26620410	26620410	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcgtttctctcataggaaacActtcgtccccagtttgaagc	7	12	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:26620410A>T	uc001mqt.3	+	16	1681	c.1536A>T	c.(1534-1536)ACA>ACT	p.T512T	ANO3_uc010rdr.1_Silent_p.T496T|ANO3_uc010rds.1_Silent_p.T351T|ANO3_uc010rdt.1_Silent_p.T366T	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	512	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CATAGGAAACACTTCGTCCCC	0.393													6	14	---	---	---	---	PASS	T	26620410	T	T	26620410	2	4	107	1	0	0	0	0	0	0	0	1	698	146	6	5		5	ANO3	11	26620410	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	5951982	26620410	108386106	233	39266										
SLC35C1	55343	broad.mit.edu	37	chr11	45832809	45832810	+	Frame_Shift_Ins	INS	-	T	T													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctcctccgcctacacctgggINStcaggggctgggagatgaag							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:45832809_45832810insT	uc001nbp.2	+	2	1730_1731	c.1018_1019insT	c.(1018-1020)GTCfs	p.V340fs	SLC35C1_uc001nbo.2_Frame_Shift_Ins_p.V327fs|SLC35C1_uc010rgm.1_Frame_Shift_Ins_p.V327fs	NM_018389	NP_060859	Q96A29	FUCT1_HUMAN	GDP-fucose transporter 1 isoform a	340						Golgi membrane|integral to membrane	GDP-fucose transmembrane transporter activity				0				GBM - Glioblastoma multiforme(35;0.227)		CTACACCTGGGTCAGGGGCTGG	0.634													2	11	---	---	---	---		T	45832810	T	T	45832809	7	5	107	1	0	1	1	0	0	0	0	0	14579	1261	44	0	1024	0	SLC35C1	11	45832809	Frame_Shift_Ins	INS	-	TCGA-46-3768-01A-01D-0983-08	19212399	45832809	89173707	234	39267										
OR4C6	219432	broad.mit.edu	37	chr11	55433025	55433025	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgtggccatctgtaagccccTgcactacacgatcatcatga	8	14	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:55433025T>A	uc001nht.3	+	3	648	c.383T>A	c.(382-384)CTG>CAG	p.L128Q	OR4C6_uc010rik.1_Missense_Mutation_p.L128Q	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	128	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TGTAAGCCCCTGCACTACACG	0.537													26	11	---	---	---	---	PASS	A	55433025	A	A	55433025	3	1	107	1	0	0	0	0	1	0	0	0	11052	1580	55	5	385	5	OR4C6	11	55433025	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	9600216	55433025	79573491	235	39268										
TMEM132A	54972	broad.mit.edu	37	chr11	60704035	60704035	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aggaactgagccgccagctgGaccggcagtcccctggcccg	14	16	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:60704035G>C	uc001nqj.2	+	11	2921	c.2728G>C	c.(2728-2730)GAC>CAC	p.D910H	TMEM132A_uc001nqi.2_Missense_Mutation_p.D911H|TMEM132A_uc001nqm.2_Missense_Mutation_p.D120H	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	910	Binds to HSPA5/GRP78 (By similarity).|Cytoplasmic (Potential).|Confers cellular localization similar to full-length form (By similarity).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						CCGCCAGCTGGACCGGCAGTC	0.721													3	7	---	---	---	---	PASS	C	60704035	C	C	60704035	3	2	107	1	0	0	0	0	1	0	0	0	16042	1174	41	2	2773	2	TMEM132A	11	60704035	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	5271010	60704035	74302481	236	39269										
INTS5	80789	broad.mit.edu	37	chr11	62416108	62416108	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgtctctccacacagctctcCaacatggtttttgagcgcat	7	14	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:62416108C>A	uc001nud.2	-	2	1497	c.1444G>T	c.(1444-1446)GGA>TGA	p.G482*	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	482					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						CACAGCTCTCCAACATGGTTT	0.602													5	76	---	---	---	---	PASS	A	62416108	A	A	62416108	4	1	107	1	0	0	0	0	0	1	0	0	7781	603	21	3	1619	3	INTS5	11	62416108	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1712073	62416108	72590408	237	39270										
MRGPRF	116535	broad.mit.edu	37	chr11	68773711	68773711	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gctgtagagttccggggcctCgctcaggccagggcacatct	14	13	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:68773711C>A	uc001ooo.3	-	3	434	c.67G>T	c.(67-69)GAG>TAG	p.E23*	MRGPRF_uc001oop.3_Nonsense_Mutation_p.E23*	NM_001098515	NP_001091985	Q96AM1	MRGRF_HUMAN	MAS-related GPR, member F	23	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TCCGGGGCCTCGCTCAGGCCA	0.667													3	9	---	---	---	---	PASS	A	68773711	A	A	68773711	4	1	107	1	0	0	0	0	0	1	0	0	9765	893	31	2	968	2	MRGPRF	11	68773711	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	6357603	68773711	66232805	238	39271										
ANO1	55107	broad.mit.edu	37	chr11	70009436	70009436	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gtacattttccgttccttccGaatggaagaggtaaccgaaa	9	9	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:70009436G>A	uc001opj.2	+	19	2245	c.1940G>A	c.(1939-1941)CGA>CAA	p.R647Q	ANO1_uc001opk.1_Missense_Mutation_p.R589Q|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.R356Q	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	647	Extracellular (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						CGTTCCTTCCGAATGGAAGAG	0.517													10	13	---	---	---	---	PASS	A	70009436	A	A	70009436	3	1	107	1	0	0	0	0	1	0	0	0	695	1058	37	2	2014	2	ANO1	11	70009436	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1235725	70009436	64997080	239	39272										
DLG2	1740	broad.mit.edu	37	chr11	83344300	83344300	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggttcgcagggatccggaccCggagctcatgctgtggttca	15	11	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:83344300C>A	uc001paj.2	-	14	1882	c.1579G>T	c.(1579-1581)GGG>TGG	p.G527W	DLG2_uc001pai.2_Missense_Mutation_p.G424W|DLG2_uc010rsy.1_Missense_Mutation_p.G494W|DLG2_uc010rsz.1_Missense_Mutation_p.G527W|DLG2_uc010rta.1_Missense_Mutation_p.G527W|DLG2_uc001pak.2_Missense_Mutation_p.G632W|DLG2_uc010rtb.1_Missense_Mutation_p.G494W|DLG2_uc001pal.1_Missense_Mutation_p.G527W|DLG2_uc010rsw.1_Missense_Mutation_p.G9W|DLG2_uc010rsx.1_Missense_Mutation_p.G8W	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	527						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				GATCCGGACCCGGAGCTCATG	0.468													25	10	---	---	---	---	PASS	A	83344300	A	A	83344300	3	1	107	1	0	0	0	0	1	0	0	0	4555	652	23	1	1123	1	DLG2	11	83344300	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	13334864	83344300	51662216	240	39273										
CNTN5	53942	broad.mit.edu	37	chr11	100061878	100061878	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aatagctattcttccagacgGgagtctacggatcctaaatg	9	9	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:100061878G>T	uc001pga.2	+	14	1940	c.1601G>T	c.(1600-1602)GGG>GTG	p.G534V	CNTN5_uc009ywv.1_Missense_Mutation_p.G534V|CNTN5_uc001pfz.2_Missense_Mutation_p.G534V|CNTN5_uc001pgb.2_Missense_Mutation_p.G460V|CNTN5_uc010ruk.1_5'UTR	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	534	Ig-like C2-type 5.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CTTCCAGACGGGAGTCTACGG	0.368													18	11	---	---	---	---	PASS	T	100061878	T	T	100061878	3	4	107	1	0	0	0	0	1	0	0	0	3644	1232	43	3	1647	3	CNTN5	11	100061878	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	16717578	100061878	34944638	241	39274										
GRIA4	2893	broad.mit.edu	37	chr11	105623843	105623843	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttccctactgagggggagagCcagtttgtgctgcaactaag	13	9	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:105623843C>G	uc001pix.2	+	4	830	c.384C>G	c.(382-384)AGC>AGG	p.S128R	GRIA4_uc001piu.1_Missense_Mutation_p.S128R|GRIA4_uc001piw.2_Missense_Mutation_p.S128R|GRIA4_uc001piv.2_Missense_Mutation_p.S128R|GRIA4_uc009yxk.1_Missense_Mutation_p.S128R	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	128	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	AGGGGGAGAGCCAGTTTGTGC	0.473													26	11	---	---	---	---	PASS	G	105623843	G	G	105623843	3	3	107	1	0	0	0	0	1	0	0	0	6770	738	26	4	394	4	GRIA4	11	105623843	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	5561965	105623843	29382673	242	39275										
GRIA4	2893	broad.mit.edu	37	chr11	105795143	105795143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agaaagcagagattgctattGcccctctgacaatcactttg	8	10	2	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:105795143G>T	uc001pix.2	+	12	1941	c.1495G>T	c.(1495-1497)GCC>TCC	p.A499S	GRIA4_uc001piw.2_Missense_Mutation_p.A499S	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	499	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	GATTGCTATTGCCCCTCTGAC	0.383													36	10	---	---	---	---	PASS	T	105795143	T	T	105795143	3	4	107	1	0	0	0	0	1	0	0	0	6770	1319	46	3	1574	3	GRIA4	11	105795143	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	171300	105795143	29211373	243	39276										
GUCY1A2	2977	broad.mit.edu	37	chr11	106680751	106680751	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caaaaatccacactggtggtCaaatctggtgtacagttcat	8	9	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:106680751C>G	uc001pjg.1	-	5	2050	c.1660G>C	c.(1660-1662)GAC>CAC	p.D554H	GUCY1A2_uc010rvo.1_Missense_Mutation_p.D575H|GUCY1A2_uc009yxn.1_Missense_Mutation_p.D554H	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	554	Guanylate cyclase.				intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CACTGGTGGTCAAATCTGGTG	0.358													4	18	---	---	---	---	PASS	G	106680751	G	G	106680751	3	3	107	1	0	0	0	0	1	0	0	0	6893	826	29	2	554	2	GUCY1A2	11	106680751	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	885608	106680751	28325765	244	39277										
GUCY1A2	2977	broad.mit.edu	37	chr11	106849403	106849403	+	Frame_Shift_Del	DEL	G	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcttcaatttcttctttgttGgagtggtctgcataggagca							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:106849403delG	uc001pjg.1	-	3	819	c.429delC	c.(427-429)TCCfs	p.S143fs	GUCY1A2_uc010rvo.1_Frame_Shift_Del_p.S143fs|GUCY1A2_uc009yxn.1_Frame_Shift_Del_p.S143fs	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	143					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CTTCTTTGTTGGAGTGGTCTG	0.323													10	21	---	---	---	---		-	106849403	-	-	106849403	7	5	107	1	0	1	0	1	0	0	0	0	6893	1335	47	0	1793	0	GUCY1A2	11	106849403	Frame_Shift_Del	DEL	G	TCGA-46-3768-01A-01D-0983-08	168652	106849403	28157113	245	39278										
EXPH5	23086	broad.mit.edu	37	chr11	108380315	108380315	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aggtagtattcatcatctgtGgttgtgtctgtgtcacaatt	10	6	5	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:108380315G>T	uc001pkk.2	-	6	6030	c.5919C>A	c.(5917-5919)ACC>ACA	p.T1973T	EXPH5_uc010rvy.1_Silent_p.T1785T|EXPH5_uc010rvz.1_Silent_p.T1817T|EXPH5_uc010rwa.1_Silent_p.T1897T	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1973					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		CATCATCTGTGGTTGTGTCTG	0.403													6	76	---	---	---	---	PASS	T	108380315	T	T	108380315	2	4	107	1	0	0	0	0	0	0	0	1	5322	1335	47	3		3	EXPH5	11	108380315	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	1530912	108380315	26626201	246	39279										
BACE1	23621	broad.mit.edu	37	chr11	117160476	117160476	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gccacagtcttccatgtccaAggtgacaaaagggccttcca	9	13	1	1	rs138594731	byFrequency	TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:117160476A>G	uc001pqz.2	-	9	1773	c.1312T>C	c.(1312-1314)TTG>CTG	p.L438L	BACE1_uc001pqw.2_Silent_p.L413L|BACE1_uc001pqx.2_Silent_p.L369L|BACE1_uc001pqy.2_Silent_p.L394L|BACE1_uc010rxg.1_Silent_p.L313L|BACE1_uc010rxh.1_Silent_p.L338L|uc010rxi.1_5'Flank	NM_012104	NP_036236	P56817	BACE1_HUMAN	beta-site APP-cleaving enzyme 1 isoform A	438	Extracellular (Potential).				beta-amyloid metabolic process|membrane protein ectodomain proteolysis	cell surface|cytoplasmic vesicle membrane|endoplasmic reticulum|endosome|integral to plasma membrane|trans-Golgi network	aspartic-type endopeptidase activity|beta-aspartyl-peptidase activity|protein binding			ovary(1)	1	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;1.69e-05)|Epithelial(105;0.000563)|all cancers(92;0.0032)		TCCATGTCCAAGGTGACAAAA	0.368													15	7	---	---	---	---	PASS	G	117160476	G	G	117160476	2	3	107	1	0	0	0	0	0	0	0	1	1281	69	3	5		5	BACE1	11	117160476	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	8780161	117160476	17846040	247	39280										
OR8A1	390275	broad.mit.edu	37	chr11	124440879	124440879	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cccatgttgaatcccctaatCtacagcctgaggaacaagga	8	12	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:124440879C>A	uc010san.1	+	1	915	c.915C>A	c.(913-915)ATC>ATA	p.I305I		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	305	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		ATCCCCTAATCTACAGCCTGA	0.443													20	8	---	---	---	---	PASS	A	124440879	A	A	124440879	2	1	107	1	0	0	0	0	0	0	0	1	11225	903	32	2		2	OR8A1	11	124440879	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	7280403	124440879	10565637	248	39281										
PATE1	160065	broad.mit.edu	37	chr11	125618497	125618497	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttttctcccctccacagggGatggtaatccctggttaacc	8	13	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:125618497G>T	uc001qct.2	+	5	262	c.250G>T	c.(250-252)GAT>TAT	p.D84Y	PATE1_uc009zbr.2_Missense_Mutation_p.D72Y	NM_138294	NP_612151	Q8WXA2	PATE1_HUMAN	expressed in prostate and testis precursor	84						extracellular region					0						CTCCACAGGGGATGGTAATCC	0.448													13	8	---	---	---	---	PASS	T	125618497	T	T	125618497	3	4	107	1	0	0	0	0	1	0	0	0	11473	1174	41	2	268	2	PATE1	11	125618497	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1177618	125618497	9388019	249	39282										
FAM118B	79607	broad.mit.edu	37	chr11	126126634	126126634	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agatgagttcaaaaagcttcGagaaaacatgctggacaagg	11	6	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:126126634G>T	uc001qdf.2	+	7	1052	c.869G>T	c.(868-870)CGA>CTA	p.R290L	FAM118B_uc009zca.2_Missense_Mutation_p.R294L|FAM118B_uc001qdg.2_Missense_Mutation_p.R290L	NM_024556	NP_078832	Q9BPY3	F118B_HUMAN	hypothetical protein LOC79607	290											0	all_hematologic(175;0.145)	Breast(109;0.00156)|Lung NSC(97;0.00948)|all_lung(97;0.0101)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0784)		AAAAAGCTTCGAGAAAACATG	0.443													4	99	---	---	---	---	PASS	T	126126634	T	T	126126634	3	4	107	1	0	0	0	0	1	0	0	0	5412	1058	37	2	887	2	FAM118B	11	126126634	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	508137	126126634	8879882	250	39283										
ZNF705A	440077	broad.mit.edu	37	chr12	8330139	8330139	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gaaaccacatgcttgtcttcTatgtgggaaggccttcagtc	10	10	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:8330139T>A	uc001qud.1	+	5	935	c.863T>A	c.(862-864)CTA>CAA	p.L288Q	FAM66C_uc001que.3_5'Flank|FAM66C_uc001quf.3_5'Flank|FAM66C_uc009zgc.2_5'Flank|FAM66C_uc001qug.3_5'Flank	NM_001004328	NP_001004328	Q6ZN79	Z705A_HUMAN	zinc finger protein 705A	288					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				Kidney(36;0.0877)		GCTTGTCTTCTATGTGGGAAG	0.418													9	46	---	---	---	---	PASS	A	8330139	A	A	8330139	3	1	107	1	0	0	0	0	1	0	0	0	18105	1522	53	5	881	5	ZNF705A	12	8330139	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08		8330139	125521756	251	39284										
CLEC4E	26253	broad.mit.edu	37	chr12	8689737	8689737	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctcctgtgagttgataaccaCcaggtgagcccccatggctg	11	13	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:8689737C>A	uc001quo.1	-	4	511	c.346G>T	c.(346-348)GTG>TTG	p.V116L		NM_014358	NP_055173	Q9ULY5	CLC4E_HUMAN	C-type lectin domain family 4, member E	116	C-type lectin.|Extracellular (Potential).					integral to membrane	sugar binding			central_nervous_system(1)	1	Lung SC(5;0.184)					TTGATAACCACCAGGTGAGCC	0.478													20	14	---	---	---	---	PASS	A	8689737	A	A	8689737	3	1	107	1	0	0	0	0	1	0	0	0	3515	507	18	3	325	3	CLEC4E	12	8689737	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	359598	8689737	125162158	252	39285										
CLEC1B	51266	broad.mit.edu	37	chr12	10149584	10149584	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tccagtttgtgtcacaggggCtgcatttatgaccttctgga	11	9	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:10149584C>A	uc001qwu.2	-	4	499	c.299G>T	c.(298-300)AGC>ATC	p.S100I	CLEC1B_uc009zhd.2_Missense_Mutation_p.S67I	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform	100	Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0						GTCACAGGGGCTGCATTTATG	0.413													33	44	---	---	---	---	PASS	A	10149584	A	A	10149584	3	1	107	1	0	0	0	0	1	0	0	0	3506	797	28	3	402	3	CLEC1B	12	10149584	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1459847	10149584	123702311	253	39286										
ATF7IP	55729	broad.mit.edu	37	chr12	14633957	14633957	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctccaactaccgtgaatgtaAcacatcgtccagtaactcag	6	13	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:14633957A>G	uc001rbw.2	+	13	3276	c.3118A>G	c.(3118-3120)ACA>GCA	p.T1040A	ATF7IP_uc001rbv.1_Missense_Mutation_p.T1039A|ATF7IP_uc001rbx.2_Missense_Mutation_p.T1039A|ATF7IP_uc001rby.3_Missense_Mutation_p.T1040A|ATF7IP_uc001rca.2_Missense_Mutation_p.T1040A	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1040					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						CGTGAATGTAACACATCGTCC	0.423													41	65	---	---	---	---	PASS	G	14633957	G	G	14633957	3	3	107	1	0	0	0	0	1	0	0	0	1087	43	2	5	3164	5	ATF7IP	12	14633957	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	4484373	14633957	119217938	254	39287										
FAM60A	58516	broad.mit.edu	37	chr12	31448254	31448254	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	attgcagatgtctcctgaacGagtctcatgcaatctgataa	8	9	3	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:31448254G>T	uc010sjz.1	-	3	381	c.142C>A	c.(142-144)CGT>AGT	p.R48S	FAM60A_uc001rkd.2_Missense_Mutation_p.R48S|FAM60A_uc010ska.1_Missense_Mutation_p.R48S|FAM60A_uc001rke.2_Missense_Mutation_p.R48S|FAM60A_uc010skb.1_Intron|FAM60A_uc001rkc.2_Missense_Mutation_p.R73S	NM_021238	NP_067061	Q9NP50	FA60A_HUMAN	family with sequence similarity 60, member A	48											0	all_cancers(9;5.22e-13)|all_epithelial(9;4e-13)|all_lung(12;1.2e-11)|Lung NSC(12;2.17e-09)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0207)|Lung SC(12;0.0592)|Esophageal squamous(101;0.162)					TCTCCTGAACGAGTCTCATGC	0.383													4	44	---	---	---	---	PASS	T	31448254	T	T	31448254	3	4	107	1	0	0	0	0	1	0	0	0	5595	1058	37	2	539	2	FAM60A	12	31448254	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	16814297	31448254	102403641	255	39288										
H3F3C	440093	broad.mit.edu	37	chr12	31945016	31945016	+	Frame_Shift_Del	DEL	T	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cccgcaggtagagggggtgcTtttcctggcagctttcgtgg							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:31945016delT	uc001rkr.2	-	1	160	c.85delA	c.(85-87)AGCfs	p.S29fs		NM_001013699	NP_001013721	Q6NXT2	H3C_HUMAN	histone H3-like	29					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GAGGGGGTGCTTTTCCTGGCA	0.587										HNSCC(67;0.2)			32	17	---	---	---	---		-	31945016	-	-	31945016	7	5	107	1	0	1	0	1	0	0	0	0	6935	1609	56	0	326	0	H3F3C	12	31945016	Frame_Shift_Del	DEL	T	TCGA-46-3768-01A-01D-0983-08	496762	31945016	101906879	256	39289										
LRRK2	120892	broad.mit.edu	37	chr12	40692290	40692290	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aaactggagcagctcattttAgaagggtaagaaagagctca	11	6	2	3	rs35808389		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:40692290A>T	uc001rmg.3	+	24	3463	c.3342A>T	c.(3340-3342)TTA>TTT	p.L1114F	LRRK2_uc001rmh.1_Missense_Mutation_p.L736F|LRRK2_uc009zjw.2_5'UTR	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1114	LRR 6.				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)				AGCTCATTTTAGAAGGGTAAG	0.343													46	61	---	---	---	---	PASS	T	40692290	T	T	40692290	3	4	107	1	0	0	0	0	1	0	0	0	9033	417	15	5	3436	5	LRRK2	12	40692290	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	8747274	40692290	93159605	257	39290										
PPHLN1	51535	broad.mit.edu	37	chr12	42729762	42729762	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgagagaacgagcacctcctCgaagtcatcccagtgtaagt	10	12	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:42729762C>A	uc001rng.1	+	2	163	c.58C>A	c.(58-60)CGA>AGA	p.R20R	PPHLN1_uc001rmy.2_Silent_p.R38R|PPHLN1_uc001rna.2_Silent_p.R27R|PPHLN1_uc001rne.2_Silent_p.R27R|PPHLN1_uc001rnb.2_Silent_p.R27R|PPHLN1_uc001rnd.2_Silent_p.R27R|PPHLN1_uc001rnc.2_Silent_p.R20R|PPHLN1_uc001rnf.2_Silent_p.R20R|PPHLN1_uc010skq.1_Silent_p.R20R|PPHLN1_uc010skr.1_Silent_p.R20R|PPHLN1_uc010sks.1_Silent_p.R20R|PPHLN1_uc010skt.1_Intron|PPHLN1_uc001rni.1_Silent_p.R20R|PPHLN1_uc001rnh.1_RNA|PPHLN1_uc010sku.1_Silent_p.R27R	NM_016488	NP_057572	Q8NEY8	PPHLN_HUMAN	periphilin 1 isoform 1	20					keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)		AGCACCTCCTCGAAGTCATCC	0.368													4	97	---	---	---	---	PASS	A	42729762	A	A	42729762	2	1	107	1	0	0	0	0	0	0	0	1	12315	876	31	2		2	PPHLN1	12	42729762	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	2037472	42729762	91122133	258	39291										
KCNH3	23416	broad.mit.edu	37	chr12	49949466	49949466	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgctggaggagaaggagacaGatggggagcagggccccacg	19	9	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:49949466G>C	uc001ruh.1	+	12	2460	c.2200G>C	c.(2200-2202)GAT>CAT	p.D734H	KCNH3_uc010smj.1_Missense_Mutation_p.D674H	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	734	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						GAAGGAGACAGATGGGGAGCA	0.637													5	20	---	---	---	---	PASS	C	49949466	C	C	49949466	3	2	107	1	0	0	0	0	1	0	0	0	8033	942	33	2	2246	2	KCNH3	12	49949466	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	7219704	49949466	83902429	259	39292										
KRT84	3890	broad.mit.edu	37	chr12	52778981	52778981	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tagatggggctgctgggactCcaacccctccaactctgtaa	10	13	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:52778981C>A	uc001sah.1	-	1	437	c.389G>T	c.(388-390)GGA>GTA	p.G130V		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	130	Head.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		TGCTGGGACTCCAACCCCTCC	0.572													58	81	---	---	---	---	PASS	A	52778981	A	A	52778981	3	1	107	1	0	0	0	0	1	0	0	0	8498	855	30	2	1449	2	KRT84	12	52778981	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	2829515	52778981	81072914	260	39293										
KRT74	121391	broad.mit.edu	37	chr12	52962040	52962040	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcatgagctcctggtactcgCgcagcatccgcgccagctcc	10	17	1	1	rs139298074		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:52962040C>G	uc001sap.1	-	7	1316	c.1268G>C	c.(1267-1269)CGC>CCC	p.R423P		NM_175053	NP_778223	Q7RTS7	K2C74_HUMAN	keratin 6 irs4	423	Rod.|Coil 2.					keratin filament	structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.191)		CTGGTACTCGCGCAGCATCCG	0.652													24	44	---	---	---	---	PASS	G	52962040	G	G	52962040	3	3	107	1	0	0	0	0	1	0	0	0	8487	768	27	4	333	4	KRT74	12	52962040	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	183059	52962040	80889855	261	39294										
KRT74	121391	broad.mit.edu	37	chr12	52967522	52967522	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgaatgcacactgaagttgcCcttgtcaccactggacttga	9	12	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:52967522C>A	uc001sap.1	-	1	88	c.40G>T	c.(40-42)GGC>TGC	p.G14C		NM_175053	NP_778223	Q7RTS7	K2C74_HUMAN	keratin 6 irs4	14	Head.|Gly-rich.					keratin filament	structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.191)		CTGAAGTTGCCCTTGTCACCA	0.557													32	37	---	---	---	---	PASS	A	52967522	A	A	52967522	3	1	107	1	0	0	0	0	1	0	0	0	8487	623	22	3	1585	3	KRT74	12	52967522	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	5482	52967522	80884373	262	39295										
KRT77	374454	broad.mit.edu	37	chr12	53091506	53091506	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gacatcctgcatgctcctgaCctccgcgttctggcgcatct	9	16	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:53091506C>A	uc001saw.2	-	2	747	c.718G>T	c.(718-720)GTC>TTC	p.V240F	KRT77_uc009zmi.2_5'UTR	NM_175078	NP_778253	Q7Z794	K2C1B_HUMAN	keratin 77	240	Coil 1B.|Rod.					keratin filament	structural molecule activity			ovary(1)	1						ATGCTCCTGACCTCCGCGTTC	0.592													30	331	---	---	---	---	PASS	A	53091506	A	A	53091506	3	1	107	1	0	0	0	0	1	0	0	0	8490	507	18	3	1050	3	KRT77	12	53091506	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	123984	53091506	80760389	263	39296										
OR6C75	390323	broad.mit.edu	37	chr12	55759748	55759748	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agtggctcctctcttgaatcCcttcatatacacactgagaa	6	12	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:55759748C>T	uc010spk.1	+	1	854	c.854C>T	c.(853-855)CCC>CTC	p.P285L		NM_001005497	NP_001005497	A6NL08	O6C75_HUMAN	olfactory receptor, family 6, subfamily C,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3						CTCTTGAATCCCTTCATATAC	0.383													12	49	---	---	---	---	PASS	T	55759748	T	T	55759748	3	4	107	1	0	0	0	0	1	0	0	0	11199	623	22	3	856	3	OR6C75	12	55759748	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	2668242	55759748	78092147	264	39297										
MON2	23041	broad.mit.edu	37	chr12	62894643	62894643	+	Missense_Mutation	SNP	G	T	T													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcaaaccttgtgctaaagatGcatatatgcttttccaggta							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:62894643G>T	uc001sre.2	+	6	1037	c.646G>T	c.(646-648)GCA>TCA	p.A216S	MON2_uc009zqj.2_Missense_Mutation_p.A216S|MON2_uc010ssl.1_Missense_Mutation_p.A144S|MON2_uc010ssm.1_Missense_Mutation_p.A216S|MON2_uc010ssn.1_Missense_Mutation_p.A216S|MON2_uc001srf.2_5'Flank|MON2_uc001srd.1_Missense_Mutation_p.A108S	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	216					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		TGCTAAAGATGCATATATGCT	0.303													32	41	---	---	---	---	PASS	T	62894643	T	T	62894643	3	4	107	1	0	0	0	0	1	0	0	0	9700	1319	46	3	668	3	MON2	12	62894643	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	7134895	62894643	70957252	265	39298	733	2								
MON2	23041	broad.mit.edu	37	chr12	62894645	62894645	+	Silent	SNP	A	T	T													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aaaccttgtgctaaagatgcAtatatgcttttccaggtatt							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:62894645A>T	uc001sre.2	+	6	1039	c.648A>T	c.(646-648)GCA>GCT	p.A216A	MON2_uc009zqj.2_Silent_p.A216A|MON2_uc010ssl.1_Silent_p.A144A|MON2_uc010ssm.1_Silent_p.A216A|MON2_uc010ssn.1_Silent_p.A216A|MON2_uc001srf.2_5'Flank|MON2_uc001srd.1_Silent_p.A108A	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	216					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		CTAAAGATGCATATATGCTTT	0.294													32	41	---	---	---	---	PASS	T	62894645	T	T	62894645	2	4	107	1	0	0	0	0	0	0	0	1	9700	204	8	5		5	MON2	12	62894645	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	2	62894645	70957250	266	39299	733	2								
PTPRR	5801	broad.mit.edu	37	chr12	71095029	71095029	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttgctaccttctcccgtggtGttggtatagacacaaagggt	11	9	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:71095029G>A	uc001swi.1	-	7	1498	c.1082C>T	c.(1081-1083)ACA>ATA	p.T361I	PTPRR_uc001swh.1_Missense_Mutation_p.T116I|PTPRR_uc009zrs.2_Missense_Mutation_p.T210I|PTPRR_uc010stq.1_Missense_Mutation_p.T249I|PTPRR_uc010str.1_Missense_Mutation_p.T210I	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	361	Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		CTCCCGTGGTGTTGGTATAGA	0.463													6	78	---	---	---	---	PASS	A	71095029	A	A	71095029	3	1	107	1	0	0	0	0	1	0	0	0	12810	1377	48	3	923	3	PTPRR	12	71095029	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	8200384	71095029	62756866	267	39300										
E2F7	144455	broad.mit.edu	37	chr12	77419463	77419463	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gggctgactctgaagctgagGgtctgcagaagggagtgtgg	19	6	2	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:77419463G>A	uc001sym.3	-	12	2676	c.2440C>T	c.(2440-2442)CCT>TCT	p.P814S	E2F7_uc009zse.2_Intron	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	814					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						TGAAGCTGAGGGTCTGCAGAA	0.537													17	52	---	---	---	---	PASS	A	77419463	A	A	77419463	3	1	107	1	0	0	0	0	1	0	0	0	4872	1232	43	3	303	3	E2F7	12	77419463	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	6324434	77419463	56432432	268	39301										
MGAT4C	25834	broad.mit.edu	37	chr12	86373490	86373490	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agacttgcaggggggttatcAggaatgtcaaatgactcctc	12	8	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:86373490A>T	uc001tai.3	-	8	2264	c.1014T>A	c.(1012-1014)CCT>CCA	p.P338P	MGAT4C_uc001tal.3_Silent_p.P338P|MGAT4C_uc001taj.3_Silent_p.P338P|MGAT4C_uc001tak.3_Silent_p.P338P|MGAT4C_uc010sum.1_Silent_p.P362P|MGAT4C_uc001tah.3_Silent_p.P338P	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	338	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						GGGGGTTATCAGGAATGTCAA	0.408													20	34	---	---	---	---	PASS	T	86373490	T	T	86373490	2	4	107	1	0	0	0	0	0	0	0	1	9547	175	7	5		5	MGAT4C	12	86373490	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	8954027	86373490	47478405	269	39302										
FGD6	55785	broad.mit.edu	37	chr12	95488424	95488424	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttcttggcatactcttctaTtgccctggaaatcgcttcta	6	11	4	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:95488424T>A	uc001tdp.3	-	15	3768	c.3544A>T	c.(3544-3546)ATA>TTA	p.I1182L	FGD6_uc009zsx.2_Missense_Mutation_p.I315L|FGD6_uc001tdq.1_Missense_Mutation_p.I218L	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	1182	PH 1.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						TACTCTTCTATTGCCCTGGAA	0.378													12	44	---	---	---	---	PASS	A	95488424	A	A	95488424	3	1	107	1	0	0	0	0	1	0	0	0	5837	1493	52	5	776	5	FGD6	12	95488424	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	9114934	95488424	38363471	270	39303										
NUP37	79023	broad.mit.edu	37	chr12	102492903	102492903	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cctgcaggtgtgatcgtcacTcacacttgcaatttcttggc	9	12	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:102492903T>A	uc001tjc.2	-	4	495	c.430A>T	c.(430-432)AGT>TGT	p.S144C	NUP37_uc009zub.1_Missense_Mutation_p.S144C	NM_024057	NP_076962	Q8NFH4	NUP37_HUMAN	nucleoporin 37kDa	144	WD 2.				carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			ovary(1)	1						TGATCGTCACTCACACTTGCA	0.343													18	20	---	---	---	---	PASS	A	102492903	A	A	102492903	3	1	107	1	0	0	0	0	1	0	0	0	10764	1551	54	5	574	5	NUP37	12	102492903	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	7004479	102492903	31358992	271	39304										
KIAA1033	23325	broad.mit.edu	37	chr12	105551091	105551091	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcttgcagaagaaacattaaAagcagcaaggtaatctaaat	7	6	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:105551091A>G	uc001tld.2	+	28	2990	c.2903A>G	c.(2902-2904)AAA>AGA	p.K968R	KIAA1033_uc010swr.1_Missense_Mutation_p.K969R|KIAA1033_uc010sws.1_Missense_Mutation_p.K780R	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	968					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						GAAACATTAAAAGCAGCAAGG	0.303													26	31	---	---	---	---	PASS	G	105551091	G	G	105551091	3	3	107	1	0	0	0	0	1	0	0	0	8206	14	1	5	3013	5	KIAA1033	12	105551091	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	3058188	105551091	28300804	272	39305										
SSH1	54434	broad.mit.edu	37	chr12	109201450	109201450	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gagtcgggccgcgtagactcCaggtcctgcatggcgttcca	14	13	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:109201450C>A	uc001tnm.2	-	8	777	c.690G>T	c.(688-690)CTG>CTT	p.L230L	SSH1_uc001tnl.2_5'Flank|SSH1_uc010sxg.1_Silent_p.L241L|SSH1_uc001tnn.3_Silent_p.L230L|SSH1_uc001tno.1_Silent_p.L134L	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	230				L -> P (in Ref. 1; BAB84116).	actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						GCGTAGACTCCAGGTCCTGCA	0.617													6	49	---	---	---	---	PASS	A	109201450	A	A	109201450	2	1	107	1	0	0	0	0	0	0	0	1	15183	581	21	3		3	SSH1	12	109201450	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	3650359	109201450	24650445	273	39306										
C12orf51	283450	broad.mit.edu	37	chr12	112688130	112688130	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agaggcagtggagaggggctCggagtaagggcaggggagat	22	4	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:112688130C>A	uc009zwc.2	-	18	2520	c.2502G>T	c.(2500-2502)CCG>CCT	p.P834P	C12orf51_uc010syk.1_Silent_p.P656P|C12orf51_uc001tts.2_Silent_p.P647P|C12orf51_uc001ttt.3_Silent_p.P645P	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						GAGAGGGGCTCGGAGTAAGGG	0.542													4	55	---	---	---	---	PASS	A	112688130	A	A	112688130	2	1	107	1	0	0	0	0	0	0	0	1	1696	871	31	2		2	C12orf51	12	112688130	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	3486680	112688130	21163765	274	39307										
SDS	10993	broad.mit.edu	37	chr12	113837484	113837484	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atgctgtcacggatgggggtCttcacgtgcaggggttctcc	15	10	4	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:113837484C>A	uc001tvg.2	-	2	152	c.30G>T	c.(28-30)AAG>AAT	p.K10N	SDS_uc001tvh.1_Missense_Mutation_p.K10N	NM_006843	NP_006834	P20132	SDHL_HUMAN	serine dehydratase	10					gluconeogenesis|L-serine catabolic process|pyruvate biosynthetic process	cytoplasm	L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|protein homodimerization activity|pyridoxal phosphate binding			pancreas(1)	1					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	GGATGGGGGTCTTCACGTGCA	0.602													6	7	---	---	---	---	PASS	A	113837484	A	A	113837484	3	1	107	1	0	0	0	0	1	0	0	0	13975	912	32	2	984	2	SDS	12	113837484	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1149354	113837484	20014411	275	39308										
P2RX7	5027	broad.mit.edu	37	chr12	121592748	121592748	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	acaccgcagactacaccttcCctttgcaggtgagcacctcg	8	16	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:121592748C>A	uc001tzm.2	+	2	382	c.286C>A	c.(286-288)CCT>ACT	p.P96T	P2RX7_uc001tzn.2_5'UTR|P2RX7_uc001tzo.2_RNA|P2RX7_uc001tzp.2_5'UTR|P2RX7_uc001tzq.2_5'UTR	NM_002562	NP_002553	Q99572	P2RX7_HUMAN	purinergic receptor P2X7	96						integral to membrane	ATP binding|ion channel activity|receptor activity			large_intestine(2)|lung(1)|breast(1)|skin(1)	5	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CTACACCTTCCCTTTGCAGGT	0.567													5	64	---	---	---	---	PASS	A	121592748	A	A	121592748	3	1	107	1	0	0	0	0	1	0	0	0	11345	623	22	3	292	3	P2RX7	12	121592748	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	7755264	121592748	12259147	276	39309										
DNAH10	196385	broad.mit.edu	37	chr12	124317842	124317842	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atttgtggggccttttctgcAaactgttcacaaatgggaaa	10	7	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:124317842A>G	uc001uft.3	+	26	4398	c.4373A>G	c.(4372-4374)CAA>CGA	p.Q1458R		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1458	Stem (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)		CCTTTTCTGCAAACTGTTCAC	0.423													17	18	---	---	---	---	PASS	G	124317842	G	G	124317842	3	3	107	1	0	0	0	0	1	0	0	0	4598	130	5	5	4475	5	DNAH10	12	124317842	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	2725094	124317842	9534053	277	39310										
TMEM132D	121256	broad.mit.edu	37	chr12	129558710	129558710	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttttgggagtttgtgctgaGgagatatttactttcctcga	11	5	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:129558710G>T	uc009zyl.1	-	9	3338	c.3010C>A	c.(3010-3012)CTC>ATC	p.L1004I	TMEM132D_uc001uia.2_Missense_Mutation_p.L542I	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	1004	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TTTGTGCTGAGGAGATATTTA	0.463													5	68	---	---	---	---	PASS	T	129558710	T	T	129558710	3	4	107	1	0	0	0	0	1	0	0	0	16044	1000	35	3	293	3	TMEM132D	12	129558710	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	5240868	129558710	4293185	278	39311										
SACS	26278	broad.mit.edu	37	chr13	23906110	23906110	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gctcaataatcgaggtctaaGtttttgaggaaagagcatta	10	5	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:23906110G>A	uc001uon.2	-	10	12494	c.11905C>T	c.(11905-11907)CTT>TTT	p.L3969F	SACS_uc001uoo.2_Missense_Mutation_p.L3822F|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3969					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CGAGGTCTAAGTTTTTGAGGA	0.393													10	76	---	---	---	---	PASS	A	23906110	A	A	23906110	3	1	107	1	0	0	0	0	1	0	0	0	13804	1029	36	3	1838	3	SACS	13	23906110	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08		23906110	91263768	279	39312										
MIPEP	4285	broad.mit.edu	37	chr13	24380178	24380178	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cctcaggggatgcttcccatGgtagatttgatccagagtgg	13	9	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:24380178G>T	uc001uox.3	-	16	1859	c.1759C>A	c.(1759-1761)CAT>AAT	p.H587N		NM_005932	NP_005923	Q99797	MIPEP_HUMAN	mitochondrial intermediate peptidase precursor	587					protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)		TGCTTCCCATGGTAGATTTGA	0.413													6	83	---	---	---	---	PASS	T	24380178	T	T	24380178	3	4	107	1	0	0	0	0	1	0	0	0	9592	1348	47	3	398	3	MIPEP	13	24380178	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	474068	24380178	90789700	280	39313										
PARP4	143	broad.mit.edu	37	chr13	25026687	25026687	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tacaataagctaagatatcgGagtgttttccagaagtctgt	9	6	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:25026687G>C	uc001upl.2	-	24	2977	c.2871C>G	c.(2869-2871)CTC>CTG	p.L957L	PARP4_uc010tdc.1_Silent_p.L957L	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	957	VWFA.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		TAAGATATCGGAGTGTTTTCC	0.493													39	42	---	---	---	---	PASS	C	25026687	C	C	25026687	2	2	107	1	0	0	0	0	0	0	0	1	11463	1161	41	2		2	PARP4	13	25026687	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	646509	25026687	90143191	281	39314										
PAN3	255967	broad.mit.edu	37	chr13	28794441	28794441	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gctgagtaacgtgtcccagtCaaatatgtctgccttctctc	8	12	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:28794441C>A	uc001urz.2	+	5	496	c.488C>A	c.(487-489)TCA>TAA	p.S163*	PAN3_uc010tdo.1_Nonsense_Mutation_p.S309*|PAN3_uc001ury.2_5'UTR|PAN3_uc001urx.2_Nonsense_Mutation_p.S109*	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	309	Interaction with polyadenylate-binding protein.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		GTGTCCCAGTCAAATATGTCT	0.428													34	203	---	---	---	---	PASS	A	28794441	A	A	28794441	4	1	107	1	0	0	0	0	0	1	0	0	11415	838	29	2	948	2	PAN3	13	28794441	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	3767754	28794441	86375437	282	39315										
KL	9365	broad.mit.edu	37	chr13	33638087	33638087	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atcgttatgctgcagatcagTttgagcccaaggcatccatg	10	10	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:33638087T>A	uc001uus.2	+	5	2811	c.2803T>A	c.(2803-2805)TTT>ATT	p.F935I		NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	935	Glycosyl hydrolase-1 2.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		TGCAGATCAGTTTGAGCCCAA	0.448													40	32	---	---	---	---	PASS	A	33638087	A	A	33638087	3	1	107	1	0	0	0	0	1	0	0	0	8331	1725	60	5	2821	5	KL	13	33638087	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	4843646	33638087	81531791	283	39316										
NBEA	26960	broad.mit.edu	37	chr13	35517158	35517158	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	attaacccttcggtgccgatCcgcaacatccggatgaaatt	8	12	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:35517158C>T	uc001uvb.2	+	2	407	c.201C>T	c.(199-201)ATC>ATT	p.I67I		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	67						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CGGTGCCGATCCGCAACATCC	0.532													20	44	---	---	---	---	PASS	T	35517158	T	T	35517158	2	4	107	1	0	0	0	0	0	0	0	1	10187	845	30	2		2	NBEA	13	35517158	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	1879071	35517158	79652720	284	39317										
FREM2	341640	broad.mit.edu	37	chr13	39271908	39271908	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	acaagtgatatgttctatttTgcagttgaagatggtggtaa	11	3	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:39271908T>C	uc001uwv.2	+	2	5556	c.5247T>C	c.(5245-5247)TTT>TTC	p.F1749F		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1749	Extracellular (Potential).|CSPG 12.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TGTTCTATTTTGCAGTTGAAG	0.393													4	33	---	---	---	---	PASS	C	39271908	C	C	39271908	2	2	107	1	0	0	0	0	0	0	0	1	6045	1809	63	5		5	FREM2	13	39271908	Silent	SNP	T	TCGA-46-3768-01A-01D-0983-08	3754750	39271908	75897970	285	39318										
KIAA0564	23078	broad.mit.edu	37	chr13	42385440	42385440	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccgacgagaaattcgcaacaGttgtctggtagaaagtgatg	12	7	1	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:42385440G>C	uc001uyj.2	-	17	2054	c.1984C>G	c.(1984-1986)CTG>GTG	p.L662V	KIAA0564_uc001uyk.2_Missense_Mutation_p.L662V	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	662						extracellular region	ATP binding|ATPase activity	p.L662L(1)		ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		ATTCGCAACAGTTGTCTGGTA	0.393													4	73	---	---	---	---	PASS	C	42385440	C	C	42385440	3	2	107	1	0	0	0	0	1	0	0	0	8185	1020	36	4	3853	4	KIAA0564	13	42385440	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	3113532	42385440	72784438	286	39319										
COG3	83548	broad.mit.edu	37	chr13	46085956	46085956	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tctgcctgcattcagtccttActtggagcgtcagagtctat	9	11	4	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:46085956A>T	uc001vak.2	+	16	1877	c.1776A>T	c.(1774-1776)TTA>TTT	p.L592F	COG3_uc001vaj.1_Missense_Mutation_p.L592F|COG3_uc010tfv.1_Missense_Mutation_p.L429F|COG3_uc010aci.2_Missense_Mutation_p.L368F	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3	592					ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)		TTCAGTCCTTACTTGGAGCGT	0.398													17	16	---	---	---	---	PASS	T	46085956	T	T	46085956	3	4	107	1	0	0	0	0	1	0	0	0	3659	388	14	5	1838	5	COG3	13	46085956	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	3700516	46085956	69083922	287	39320										
PCDH17	27253	broad.mit.edu	37	chr13	58208948	58208948	+	Frame_Shift_Del	DEL	G	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccgcagctgggtgggggcaaGggcaagaagaagaagatcaa							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:58208948delG	uc001vhq.1	+	1	3160	c.2268delG	c.(2266-2268)AAGfs	p.K756fs	PCDH17_uc010aec.1_Frame_Shift_Del_p.K756fs	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	756	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GTGGGGGCAAGGGCAAGAAGA	0.557													27	22	---	---	---	---		-	58208948	-	-	58208948	7	5	107	1	0	1	0	1	0	0	0	0	11512	991	35	0	2270	0	PCDH17	13	58208948	Frame_Shift_Del	DEL	G	TCGA-46-3768-01A-01D-0983-08	12122992	58208948	56960930	288	39321										
PCDH9	5101	broad.mit.edu	37	chr13	67800610	67800610	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tacttttgcagtagaggaacGaggtggttgtcctccatcag	12	8	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:67800610G>T	uc001vik.2	-	2	2655	c.1963C>A	c.(1963-1965)CGT>AGT	p.R655S	PCDH9_uc001vil.2_Missense_Mutation_p.R655S|PCDH9_uc010thl.1_Missense_Mutation_p.R655S|PCDH9_uc001vin.3_Missense_Mutation_p.R655S	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	655	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GTAGAGGAACGAGGTGGTTGT	0.433													4	60	---	---	---	---	PASS	T	67800610	T	T	67800610	3	4	107	1	0	0	0	0	1	0	0	0	11518	1058	37	2	1766	2	PCDH9	13	67800610	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	9591662	67800610	47369268	289	39322										
LMO7	4008	broad.mit.edu	37	chr13	76382282	76382282	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gctgacttgaagagatgggaGgccatccgggaggccagcag	17	9	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:76382282G>T	uc001vjv.2	+	7	1924	c.1164G>T	c.(1162-1164)GAG>GAT	p.E388D	LMO7_uc010thv.1_Intron|LMO7_uc001vjt.1_Intron|LMO7_uc010thw.1_Intron|LMO7_uc001vjw.1_Missense_Mutation_p.E294D	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	673						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		AGAGATGGGAGGCCATCCGGG	0.532													16	17	---	---	---	---	PASS	T	76382282	T	T	76382282	3	4	107	1	0	0	0	0	1	0	0	0	8855	991	35	3	2061	3	LMO7	13	76382282	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	8581672	76382282	38787596	290	39323										
LIG4	3981	broad.mit.edu	37	chr13	108861116	108861116	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	taatagctaaccttgtccccTcatttttggtactcaggtca	6	11	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:108861116T>A	uc001vqn.2	-	2	2774	c.2501A>T	c.(2500-2502)GAG>GTG	p.E834V	LIG4_uc001vqo.2_Missense_Mutation_p.E834V|LIG4_uc010agg.1_Missense_Mutation_p.E767V|LIG4_uc010agf.2_Missense_Mutation_p.E834V|LIG4_uc001vqp.2_Missense_Mutation_p.E834V	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	834	BRCT 2.				cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					CCTTGTCCCCTCATTTTTGGT	0.428								NHEJ					21	33	---	---	---	---	PASS	A	108861116	A	A	108861116	3	1	107	1	0	0	0	0	1	0	0	0	8783	1551	54	5	238	5	LIG4	13	108861116	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	32478834	108861116	6308762	291	39324										
OR4Q3	441669	broad.mit.edu	37	chr14	20215703	20215703	+	Silent	SNP	C	A	A													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttttttacattgctattgtCctgggaaacctcttgatagt							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:20215703C>A	uc010tkt.1	+	1	117	c.117C>A	c.(115-117)GTC>GTA	p.V39V		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TTGCTATTGTCCTGGGAAACC	0.383													41	43	---	---	---	---	PASS	A	20215703	A	A	20215703	2	1	107	1	0	0	0	0	0	0	0	1	11081	842	30	2		2	OR4Q3	14	20215703	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08		20215703	87133837	292	39325	734	2								
OR4Q3	441669	broad.mit.edu	37	chr14	20215704	20215704	+	Missense_Mutation	SNP	C	G	G													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttttttacattgctattgtcCtgggaaacctcttgatagtg							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:20215704C>G	uc010tkt.1	+	1	118	c.118C>G	c.(118-120)CTG>GTG	p.L40V		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.L40L(3)		breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGCTATTGTCCTGGGAAACCT	0.388													44	41	---	---	---	---	PASS	G	20215704	G	G	20215704	3	3	107	1	0	0	0	0	1	0	0	0	11081	680	24	4	120	4	OR4Q3	14	20215704	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1	20215704	87133836	293	39326	734	2								
AP4S1	11154	broad.mit.edu	37	chr14	31549788	31549788	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctgtcttccagagtgaattaGatgtatcctttttcaatact	6	8	2	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:31549788G>T	uc001wqy.3	+	5	686	c.304G>T	c.(304-306)GAT>TAT	p.D102Y	AP4S1_uc001wqw.3_Missense_Mutation_p.D102Y|AP4S1_uc001wqx.3_Missense_Mutation_p.D102Y|AP4S1_uc010amh.2_Intron|AP4S1_uc001wqz.3_Intron	NM_001128126	NP_001121598	Q9Y587	AP4S1_HUMAN	adaptor-related protein complex 4, sigma 1	102						coated pit|Golgi apparatus	protein transporter activity				0	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.221)	GBM - Glioblastoma multiforme(265;0.00553)		GAGTGAATTAGATGTATCCTT	0.443													4	22	---	---	---	---	PASS	T	31549788	T	T	31549788	3	4	107	1	0	0	0	0	1	0	0	0	754	942	33	2	318	2	AP4S1	14	31549788	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	11334084	31549788	75799752	294	39327										
SLC10A1	6554	broad.mit.edu	37	chr14	70245986	70245986	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aggaggtggcaatcaagagtGgtgtcatggcaaacatgatg	15	5	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:70245986G>T	uc001xlr.2	-	3	793	c.659C>A	c.(658-660)CCA>CAA	p.P220Q		NM_003049	NP_003040	Q14973	NTCP_HUMAN	solute carrier family 10, member 1	220	Helical; (Potential).				bile acid metabolic process|organic anion transport	integral to plasma membrane	bile acid:sodium symporter activity			ovary(1)	1				all cancers(60;0.00228)|BRCA - Breast invasive adenocarcinoma(234;0.0137)|OV - Ovarian serous cystadenocarcinoma(108;0.0226)		AATCAAGAGTGGTGTCATGGC	0.488													5	34	---	---	---	---	PASS	T	70245986	T	T	70245986	3	4	107	1	0	0	0	0	1	0	0	0	14373	1348	47	3	402	3	SLC10A1	14	70245986	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	38696198	70245986	37103554	295	39328										
TMEM63C	57156	broad.mit.edu	37	chr14	77686394	77686394	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cagagcgagaagacatctccCtcggagacttccttggagat	11	11	1	5			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:77686394C>A	uc001xtf.2	+	5	488	c.276C>A	c.(274-276)CCC>CCA	p.P92P	TMEM63C_uc010asq.1_Silent_p.P92P	NM_020431	NP_065164	Q9P1W3	TM63C_HUMAN	transmembrane protein 63C	92						integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0342)		AGACATCTCCCTCGGAGACTT	0.547													3	5	---	---	---	---	PASS	A	77686394	A	A	77686394	2	1	107	1	0	0	0	0	0	0	0	1	16189	668	24	3		3	TMEM63C	14	77686394	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	7440408	77686394	29663146	296	39329										
ADCK1	57143	broad.mit.edu	37	chr14	78353520	78353520	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aaggcagtgctgcatgatggGcggacggtggccgtgaaggt	19	7	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:78353520G>C	uc001xui.2	+	5	609	c.510G>C	c.(508-510)GGG>GGC	p.G170G	ADCK1_uc010tvo.1_Intron|ADCK1_uc001xuj.2_Silent_p.G102G|ADCK1_uc001xuk.1_Silent_p.G44G	NM_020421	NP_065154	Q86TW2	ADCK1_HUMAN	aarF domain containing kinase 1 isoform a	177	Protein kinase.					extracellular region	ATP binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)	3			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0376)		TGCATGATGGGCGGACGGTGG	0.607													17	5	---	---	---	---	PASS	C	78353520	C	C	78353520	2	2	107	1	0	0	0	0	0	0	0	1	288	1190	42	4		4	ADCK1	14	78353520	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	667126	78353520	28996020	297	39330										
NRXN3	9369	broad.mit.edu	37	chr14	80130287	80130287	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gccagtgaatgaacattatcCtacaggtacatgttgttcgc	9	9	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:80130287C>A	uc001xun.2	+	14	2983	c.2492C>A	c.(2491-2493)CCT>CAT	p.P831H	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Missense_Mutation_p.P199H|NRXN3_uc010asw.2_Missense_Mutation_p.P199H|NRXN3_uc001xur.3_Missense_Mutation_p.P199H	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1204	Extracellular (Potential).|Laminin G-like 6.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GAACATTATCCTACAGGTACA	0.478													12	3	---	---	---	---	PASS	A	80130287	A	A	80130287	3	1	107	1	0	0	0	0	1	0	0	0	10667	681	24	3	2789	3	NRXN3	14	80130287	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1776767	80130287	27219253	298	39331										
CINP	51550	broad.mit.edu	37	chr14	102816311	102816311	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggtcgtttactctcctccccAtaatggtagttttctagttc	7	11	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:102816311A>G	uc001ylv.1	-	4	446	c.381T>C	c.(379-381)TAT>TAC	p.Y127Y	CINP_uc001ylu.1_RNA	NM_032630	NP_116019	Q9BW66	CINP_HUMAN	cyclin-dependent kinase 2-interacting protein	127					cell cycle|cell division|DNA repair|DNA replication	nucleus	protein binding			large_intestine(1)	1						TCTCCTCCCCATAATGGTAGT	0.408													23	13	---	---	---	---	PASS	G	102816311	G	G	102816311	2	3	107	1	0	0	0	0	0	0	0	1	3431	224	8	5		5	CINP	14	102816311	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	22686024	102816311	4533229	299	39332										
VPS39	23339	broad.mit.edu	37	chr15	42459085	42459085	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgattgttctccaggcgtagCaagggggccaccagggccac	14	12	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:42459085C>A	uc001zpd.2	-	15	1588	c.1437G>T	c.(1435-1437)TTG>TTT	p.L479F	VPS39_uc001zpc.2_Missense_Mutation_p.L468F|VPS39_uc001zpb.2_5'Flank	NM_015289	NP_056104	Q96JC1	VPS39_HUMAN	vacuolar protein sorting 39	479					protein transport	HOPS complex|late endosome membrane|lysosomal membrane	small GTPase regulator activity			ovary(1)|pancreas(1)|skin(1)	3		all_cancers(109;6.78e-16)|all_epithelial(112;1.81e-14)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;3.05e-06)		CCAGGCGTAGCAAGGGGGCCA	0.562													10	28	---	---	---	---	PASS	A	42459085	A	A	42459085	3	1	107	1	0	0	0	0	1	0	0	0	17206	709	25	3	1271	3	VPS39	15	42459085	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08		42459085	60072307	300	39333										
SLC30A4	7782	broad.mit.edu	37	chr15	45814396	45814396	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttccggggcttcggaaccgtCatcggccaccacaactcgaa	10	15	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:45814396C>A	uc001zvj.2	-	2	469	c.157G>T	c.(157-159)GAC>TAC	p.D53Y	C15orf21_uc010beg.1_Intron|C15orf21_uc010beh.1_Intron|C15orf21_uc010bei.1_Intron|C15orf21_uc010bej.1_Intron|C15orf21_uc001zvm.1_Intron|C15orf21_uc001zvn.1_Intron	NM_013309	NP_037441	O14863	ZNT4_HUMAN	solute carrier family 30 (zinc transporter),	53	Cytoplasmic (Potential).|Asp-rich (acidic).				regulation of sequestering of zinc ion|response to toxin	endosome membrane|integral to membrane|late endosome	zinc ion transmembrane transporter activity				0		Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.58e-16)|GBM - Glioblastoma multiforme(94;2.15e-06)		TCGGAACCGTCATCGGCCACC	0.572													21	30	---	---	---	---	PASS	A	45814396	A	A	45814396	3	1	107	1	0	0	0	0	1	0	0	0	14557	826	29	2	1160	2	SLC30A4	15	45814396	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	3355311	45814396	56716996	301	39334										
SEMA6D	80031	broad.mit.edu	37	chr15	48056121	48056121	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgggtcctggagaaacactgGacttcatttctaaaggctcg	11	10	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:48056121G>C	uc010bek.2	+	10	1182	c.822G>C	c.(820-822)TGG>TGC	p.W274C	SEMA6D_uc001zvw.2_Missense_Mutation_p.W274C|SEMA6D_uc001zvx.1_Missense_Mutation_p.W274C|SEMA6D_uc001zvy.2_Missense_Mutation_p.W274C|SEMA6D_uc001zvz.2_Missense_Mutation_p.W274C|SEMA6D_uc001zwa.2_Missense_Mutation_p.W274C|SEMA6D_uc001zwb.2_Missense_Mutation_p.W274C|SEMA6D_uc001zwc.2_Missense_Mutation_p.W274C	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	274	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		AGAAACACTGGACTTCATTTC	0.468													32	48	---	---	---	---	PASS	C	48056121	C	C	48056121	3	2	107	1	0	0	0	0	1	0	0	0	14042	1183	41	2	856	2	SEMA6D	15	48056121	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	2241725	48056121	54475271	302	39335										
ATP8B4	79895	broad.mit.edu	37	chr15	50190438	50190438	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cattcttgacatcactttctAgggcatgagcctgtatgatt	8	9	3	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:50190438A>G	uc001zxu.2	-	22	2442	c.2300T>C	c.(2299-2301)CTA>CCA	p.L767P	ATP8B4_uc010ber.2_Missense_Mutation_p.L640P|ATP8B4_uc010ufd.1_Missense_Mutation_p.L577P|ATP8B4_uc010ufe.1_RNA|ATP8B4_uc001zxv.1_Missense_Mutation_p.L65P	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	767	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		ATCACTTTCTAGGGCATGAGC	0.383													15	17	---	---	---	---	PASS	G	50190438	G	G	50190438	3	3	107	1	0	0	0	0	1	0	0	0	1197	420	15	5	1306	5	ATP8B4	15	50190438	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	2134317	50190438	52340954	303	39336										
UNC13C	440279	broad.mit.edu	37	chr15	54305821	54305821	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gctgcattagccaaacacatGatgtcatggaaatgatcttt	8	8	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:54305821G>A	uc002ack.2	+	1	721	c.721G>A	c.(721-723)GAT>AAT	p.D241N		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	241					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		CCAAACACATGATGTCATGGA	0.448													42	49	---	---	---	---	PASS	A	54305821	A	A	54305821	3	1	107	1	0	0	0	0	1	0	0	0	16983	1290	45	2	723	2	UNC13C	15	54305821	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	4115383	54305821	48225571	304	39337										
UNC13C	440279	broad.mit.edu	37	chr15	54305932	54305932	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agcactccatcgatgagatcTccagcagtgtggaggttgta	12	9	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:54305932T>A	uc002ack.2	+	1	832	c.832T>A	c.(832-834)TCC>ACC	p.S278T		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	278					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		CGATGAGATCTCCAGCAGTGT	0.438													42	67	---	---	---	---	PASS	A	54305932	A	A	54305932	3	1	107	1	0	0	0	0	1	0	0	0	16983	1551	54	5	834	5	UNC13C	15	54305932	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	111	54305932	48225460	305	39338										
UNC13C	440279	broad.mit.edu	37	chr15	54592473	54592473	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aaaatcccagaagtcaaaggGgatgaagcctggaaggtttt	12	6	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:54592473G>C	uc002ack.2	+	11	4170	c.4170G>C	c.(4168-4170)GGG>GGC	p.G1390G	UNC13C_uc002acl.2_Silent_p.G220G	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1390					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AAGTCAAAGGGGATGAAGCCT	0.368													9	5	---	---	---	---	PASS	C	54592473	C	C	54592473	2	2	107	1	0	0	0	0	0	0	0	1	16983	1219	43	4		4	UNC13C	15	54592473	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	286541	54592473	47938919	306	39339										
SLTM	79811	broad.mit.edu	37	chr15	59225621	59225621	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	acctgcttgagtcgggagatGagcacggtcttgactccggt	14	10	1	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:59225621G>C	uc002afp.2	-	1	232	c.144C>G	c.(142-144)CTC>CTG	p.L48L	SLTM_uc002afo.2_Silent_p.L48L|SLTM_uc002afq.2_5'UTR|SLTM_uc010bgd.2_5'UTR|SLTM_uc002afr.1_Silent_p.L48L	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	48	SAP.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						GTCGGGAGATGAGCACGGTCT	0.637													3	7	---	---	---	---	PASS	C	59225621	C	C	59225621	2	2	107	1	0	0	0	0	0	0	0	1	14754	1277	45	2		2	SLTM	15	59225621	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	4633148	59225621	43305771	307	39340										
CILP	8483	broad.mit.edu	37	chr15	65499327	65499327	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gaagcgaatggcgtccagccGctcatagtcgcccttcccgc	11	16	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:65499327G>T	uc002aon.2	-	4	398	c.217C>A	c.(217-219)CGG>AGG	p.R73R		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	73					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix		p.R73Q(1)		ovary(4)|pancreas(2)|skin(1)	7						GCGTCCAGCCGCTCATAGTCG	0.612													7	15	---	---	---	---	PASS	T	65499327	T	T	65499327	2	4	107	1	0	0	0	0	0	0	0	1	3429	1086	38	1		1	CILP	15	65499327	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	6273706	65499327	37032065	308	39341										
PIAS1	8554	broad.mit.edu	37	chr15	68378917	68378917	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccattccacaactcacttacGatggtcaccctgcatcatcg	5	16	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:68378917G>T	uc002aqz.2	+	2	394	c.298G>T	c.(298-300)GAT>TAT	p.D100Y	PIAS1_uc010ujx.1_Missense_Mutation_p.D100Y	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	100					androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						ACTCACTTACGATGGTCACCC	0.478													4	114	---	---	---	---	PASS	T	68378917	T	T	68378917	3	4	107	1	0	0	0	0	1	0	0	0	11875	1058	37	2	304	2	PIAS1	15	68378917	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	2879590	68378917	34152475	309	39342										
CYP1A1	1543	broad.mit.edu	37	chr15	75013955	75013974	+	Frame_Shift_Del	DEL	ATGTTAATGATCTTCTCATC	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctccaaagaggtccaagacgAtgttaatgatcttctcatct							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:75013955_75013974delATGTTAATGATCTTCTCATC	uc002ayp.3	-	3	1032_1051	c.910_929delGATGAGAAGATCATTAACAT	c.(910-930)GATGAGAAGATCATTAACATCfs	p.D304fs	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Frame_Shift_Del_p.D40fs|CYP1A1_uc010bjx.2_Frame_Shift_Del_p.D40fs|CYP1A1_uc002ayq.3_Frame_Shift_Del_p.D304fs|CYP1A1_uc010bjy.2_Frame_Shift_Del_p.D304fs|CYP1A1_uc010bjz.1_Frame_Shift_Del_p.D40fs	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	304_310					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	GTCCAAGACGATGTTAATGATCTTCTCATCTGACAGCTGG	0.514									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				26	12	---	---	---	---		-	75013974	-	-	75013955	7	5	107	1	0	1	0	1	0	0	0	0	4149	333	12	0	629	0	CYP1A1	15	75013955	Frame_Shift_Del	DEL	ATGTTAATGATCTTCTCATC	TCGA-46-3768-01A-01D-0983-08	6635038	75013955	27517437	310	39343										
MSLNL	401827	broad.mit.edu	37	chr16	823224	823224	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tctgaggatgcagccatccaGgcaggactcaagctctgcac	11	13	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:823224G>A	uc002cjz.1	-	10	2044	c.2044C>T	c.(2044-2046)CTG>TTG	p.L682L		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	331	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						CAGCCATCCAGGCAGGACTCA	0.632													21	14	---	---	---	---	PASS	A	823224	A	A	823224	2	1	107	1	0	0	0	0	0	0	0	1	9882	991	35	3		3	MSLNL	16	823224	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08		823224	89531529	311	39344										
TELO2	9894	broad.mit.edu	37	chr16	1557674	1557674	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cctgctgcgcgcctgctggaGgacctgatggacgagctgct	15	13	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:1557674G>T	uc002cly.2	+	20	2655	c.2364G>T	c.(2362-2364)GAG>GAT	p.E788D		NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	788						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				GCCTGCTGGAGGACCTGATGG	0.662													4	8	---	---	---	---	PASS	T	1557674	T	T	1557674	3	4	107	1	0	0	0	0	1	0	0	0	15754	991	35	3	2438	3	TELO2	16	1557674	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	734450	1557674	88797079	312	39345										
ABCA3	21	broad.mit.edu	37	chr16	2331382	2331382	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	accccaaattgcaagggtacCttggagagctccttgataat	9	10	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:2331382C>A	uc002cpy.1	-	27	4876	c.4164G>T	c.(4162-4164)AAG>AAT	p.K1388N	ABCA3_uc010bsk.1_Missense_Mutation_p.K1330N	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1388	ABC transporter 2.				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				GCAAGGGTACCTTGGAGAGCT	0.607													5	62	---	---	---	---	PASS	A	2331382	A	A	2331382	3	1	107	1	0	0	0	0	1	0	0	0	33	695	24	3	978	3	ABCA3	16	2331382	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	773708	2331382	88023371	313	39346										
ZNF213	7760	broad.mit.edu	37	chr16	3187644	3187644	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gaggctgtcgccttggtggaGgacctacagaagcagccagt	15	10	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:3187644G>A	uc010uws.1	+	2	810	c.363G>A	c.(361-363)GAG>GAA	p.E121E	ZNF213_uc002cud.2_RNA|ZNF213_uc010btf.2_Silent_p.E121E|ZNF213_uc010bth.2_Silent_p.E121E|ZNF213_uc010uwt.1_Silent_p.E121E	NM_004220	NP_004211	O14771	ZN213_HUMAN	zinc finger protein 213	121	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCTTGGTGGAGGACCTACAGA	0.627													8	4	---	---	---	---	PASS	A	3187644	A	A	3187644	2	1	107	1	0	0	0	0	0	0	0	1	17766	991	35	3		3	ZNF213	16	3187644	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	856262	3187644	87167109	314	39347										
NLRC3	197358	broad.mit.edu	37	chr16	3614540	3614540	+	Missense_Mutation	SNP	C	T	T													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cccggggtgggacagacaccCgggagagaggcaggaagagc							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:3614540C>T	uc010btn.2	-	5	809	c.398G>A	c.(397-399)CGG>CAG	p.R133Q		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	133					I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						GACAGACACCCGGGAGAGAGG	0.701													7	11	---	---	---	---	PASS	T	3614540	T	T	3614540	3	4	107	1	0	0	0	0	1	0	0	0	10468	652	23	1	2864	1	NLRC3	16	3614540	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	426896	3614540	86740213	315	39348	735	2								
NLRC3	197358	broad.mit.edu	37	chr16	3614541	3614541	+	Silent	SNP	G	T	T													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccggggtgggacagacacccGggagagaggcaggaagagcc							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:3614541G>T	uc010btn.2	-	5	808	c.397C>A	c.(397-399)CGG>AGG	p.R133R		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	133					I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						ACAGACACCCGGGAGAGAGGC	0.701													7	12	---	---	---	---	PASS	T	3614541	T	T	3614541	2	4	107	1	0	0	0	0	0	0	0	1	10468	1115	39	1		1	NLRC3	16	3614541	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	1	3614541	86740212	316	39349	735	2								
ADCY9	115	broad.mit.edu	37	chr16	4163760	4163760	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agtgcacatacctttcaactGgtcagcaaccacgctctggc	8	14	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:4163760G>T	uc002cvx.2	-	2	2223	c.1684C>A	c.(1684-1686)CAG>AAG	p.Q562K		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	562	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						CCTTTCAACTGGTCAGCAACC	0.468													5	85	---	---	---	---	PASS	T	4163760	T	T	4163760	3	4	107	1	0	0	0	0	1	0	0	0	301	1357	47	3	2417	3	ADCY9	16	4163760	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	549219	4163760	86190993	317	39350										
GP2	2813	broad.mit.edu	37	chr16	20335151	20335151	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgctcacctgtgcagtatctCagattacaccagggagtgcc	10	12	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:20335151C>A	uc002dgv.2	-	3	605	c.522G>T	c.(520-522)CTG>CTT	p.L174L	GP2_uc002dgw.2_Silent_p.L174L|GP2_uc002dgx.2_Intron|GP2_uc002dgy.2_Intron	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	174						anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						TGCAGTATCTCAGATTACACC	0.572													8	8	---	---	---	---	PASS	A	20335151	A	A	20335151	2	1	107	1	0	0	0	0	0	0	0	1	6582	813	29	2		2	GP2	16	20335151	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	16171391	20335151	70019602	318	39351										
COG7	91949	broad.mit.edu	37	chr16	23456434	23456434	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cttatctgcttcctgaagagAttcggcagcaagttgcattc	9	10	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:23456434A>T	uc002dlo.2	-	3	558	c.370T>A	c.(370-372)TCT>ACT	p.S124T		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	124					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		TCCTGAAGAGATTCGGCAGCA	0.453													8	87	---	---	---	---	PASS	T	23456434	T	T	23456434	3	4	107	1	0	0	0	0	1	0	0	0	3663	333	12	5	2002	5	COG7	16	23456434	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	3121283	23456434	66898319	319	39352										
RBBP6	5930	broad.mit.edu	37	chr16	24583481	24583481	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agccacagcagccccagcgtCagccccagcagaagccacag	10	18	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:24583481C>G	uc002dmh.2	+	18	6134	c.5094C>G	c.(5092-5094)GTC>GTG	p.V1698V	RBBP6_uc002dmi.2_Silent_p.V1664V|RBBP6_uc010bxr.2_Silent_p.V858V|RBBP6_uc002dmk.2_Silent_p.V1531V	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1698					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		GCCCCAGCGTCAGCCCCAGCA	0.443													8	31	---	---	---	---	PASS	G	24583481	G	G	24583481	2	3	107	1	0	0	0	0	0	0	0	1	13103	813	29	2		2	RBBP6	16	24583481	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	1127047	24583481	65771272	320	39353										
SLC5A11	115584	broad.mit.edu	37	chr16	24922792	24922792	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	accccttggtgaagaccctcCtggacgtcaacctcattttc	7	15	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:24922792C>A	uc002dmu.2	+	16	2198	c.1966C>A	c.(1966-1968)CTG>ATG	p.L656M	SLC5A11_uc002dms.2_Missense_Mutation_p.L592M|SLC5A11_uc010vcd.1_Missense_Mutation_p.L621M|SLC5A11_uc002dmt.2_Missense_Mutation_p.L500M|SLC5A11_uc010vce.1_Missense_Mutation_p.L586M|SLC5A11_uc010bxt.2_Missense_Mutation_p.L592M|SLC5A11_uc002dmv.2_Missense_Mutation_p.L279M	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	656	Helical; (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		GAAGACCCTCCTGGACGTCAA	0.527													79	84	---	---	---	---	PASS	A	24922792	A	A	24922792	3	1	107	1	0	0	0	0	1	0	0	0	14663	680	24	3	2024	3	SLC5A11	16	24922792	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	339311	24922792	65431961	321	39354										
ATXN2L	11273	broad.mit.edu	37	chr16	28847341	28847341	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgatgctgctgcacccacccCagagtcatggggggcccccc	12	17	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:28847341C>T	uc002drc.2	+	22	3151	c.2983C>T	c.(2983-2985)CAG>TAG	p.Q995*	uc010vct.1_Intron|ATXN2L_uc002drb.2_Nonsense_Mutation_p.Q995*|ATXN2L_uc002dqy.2_Nonsense_Mutation_p.Q995*|ATXN2L_uc002dra.2_Nonsense_Mutation_p.Q995*|ATXN2L_uc002dqz.2_Nonsense_Mutation_p.Q995*|ATXN2L_uc010vdb.1_Nonsense_Mutation_p.Q1001*|ATXN2L_uc002dre.2_Nonsense_Mutation_p.Q995*|ATXN2L_uc002drf.2_Nonsense_Mutation_p.Q404*|ATXN2L_uc002drg.2_Nonsense_Mutation_p.Q278*	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	995						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						GCACCCACCCCAGAGTCATGG	0.672													6	28	---	---	---	---	PASS	T	28847341	T	T	28847341	4	4	107	1	0	0	0	0	0	1	0	0	1212	595	21	3	3069	3	ATXN2L	16	28847341	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	3924549	28847341	61507412	322	39355										
ZNF646	9726	broad.mit.edu	37	chr16	31089893	31089893	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gggatgagacccatttccagGgtgataaagagagcggaggc	16	7	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:31089893G>A	uc002eap.2	+	2	2537	c.2248G>A	c.(2248-2250)GGT>AGT	p.G750S		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	750					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						CCATTTCCAGGGTGATAAAGA	0.532													15	79	---	---	---	---	PASS	A	31089893	A	A	31089893	3	1	107	1	0	0	0	0	1	0	0	0	18059	1232	43	3	2250	3	ZNF646	16	31089893	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	2242552	31089893	59264860	323	39356										
ABCC12	94160	broad.mit.edu	37	chr16	48119595	48119595	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttctgtgacttctgcctgtAatttttctgggagtttcatt	8	7	4	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:48119595A>G	uc002efc.1	-	27	4083	c.3737T>C	c.(3736-3738)TTA>TCA	p.L1246S	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1246	ABC transporter 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TTCTGCCTGTAATTTTTCTGG	0.403													12	40	---	---	---	---	PASS	G	48119595	G	G	48119595	3	3	107	1	0	0	0	0	1	0	0	0	52	372	13	5	354	5	ABCC12	16	48119595	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	17029702	48119595	42235158	324	39357										
RBL2	5934	broad.mit.edu	37	chr16	53499487	53499487	+	Missense_Mutation	SNP	T	G	G													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgggaaaaaattagagacaaTgaaaacagagttcctacatg							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:53499487T>G	uc002ehi.3	+	13	1954	c.1836T>G	c.(1834-1836)AAT>AAG	p.N612K	RBL2_uc010vgv.1_Missense_Mutation_p.N538K|RBL2_uc002ehj.2_Missense_Mutation_p.N322K|RBL2_uc010vgw.1_Missense_Mutation_p.N396K	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	612	Domain A.|Pocket; binds E1A.				cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						TTAGAGACAATGAAAACAGAG	0.338													12	34	---	---	---	---	PASS	G	53499487	G	G	53499487	3	3	107	1	0	0	0	0	1	0	0	0	13110	1461	51	5	1886	5	RBL2	16	53499487	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	5379892	53499487	36855266	325	39358	736	2								
RBL2	5934	broad.mit.edu	37	chr16	53499488	53499488	+	Nonsense_Mutation	SNP	G	T	T													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gggaaaaaattagagacaatGaaaacagagttcctacatgt							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:53499488G>T	uc002ehi.3	+	13	1955	c.1837G>T	c.(1837-1839)GAA>TAA	p.E613*	RBL2_uc010vgv.1_Nonsense_Mutation_p.E539*|RBL2_uc002ehj.2_Nonsense_Mutation_p.E323*|RBL2_uc010vgw.1_Nonsense_Mutation_p.E397*	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	613	Domain A.|Pocket; binds E1A.				cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						TAGAGACAATGAAAACAGAGT	0.338													12	34	---	---	---	---	PASS	T	53499488	T	T	53499488	4	4	107	1	0	0	0	0	0	1	0	0	13110	1291	45	2	1887	2	RBL2	16	53499488	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1	53499488	36855265	326	39359	736	2								
PMFBP1	83449	broad.mit.edu	37	chr16	72157488	72157488	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caagttggtcataatctgatCattccctcggtagagcctac	8	11	3	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:72157488C>G	uc002fcc.3	-	18	2837	c.2665G>C	c.(2665-2667)GAT>CAT	p.D889H	PMFBP1_uc002fcd.2_Missense_Mutation_p.D884H|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.D739H	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	889										ovary(2)	2		Ovarian(137;0.179)				ATAATCTGATCATTCCCTCGG	0.557													24	18	---	---	---	---	PASS	G	72157488	G	G	72157488	3	3	107	1	0	0	0	0	1	0	0	0	12134	826	29	2	449	2	PMFBP1	16	72157488	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	18658000	72157488	18197265	327	39360										
MLYCD	23417	broad.mit.edu	37	chr16	83941731	83941731	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctttataaattccgccccagGgctgaggctgtgcatcctgt	10	12	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:83941731G>T	uc002fgz.2	+	3	662	c.642G>T	c.(640-642)GAG>GAT	p.E214D		NM_012213	NP_036345	O95822	DCMC_HUMAN	malonyl-CoA decarboxylase precursor	214					acyl-CoA metabolic process|fatty acid biosynthetic process	mitochondrion|peroxisome	malonyl-CoA decarboxylase activity|methylmalonyl-CoA decarboxylase activity				0						TCCGCCCCAGGGCTGAGGCTG	0.468													21	13	---	---	---	---	PASS	T	83941731	T	T	83941731	3	4	107	1	0	0	0	0	1	0	0	0	9638	1246	43	3	652	3	MLYCD	16	83941731	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	11784243	83941731	6413022	328	39361										
TAF1C	9013	broad.mit.edu	37	chr16	84218511	84218511	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agtgcgtctcgccagctgcaCatgaaagagaggtcagggac	14	10	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:84218511C>A	uc002fhn.2	-	2	312	c.84G>T	c.(82-84)ATG>ATT	p.M28I	TAF1C_uc002fhm.2_Intron|TAF1C_uc010vnx.1_Missense_Mutation_p.M28I|TAF1C_uc010vny.1_Intron|TAF1C_uc010vnz.1_Intron|TAF1C_uc002fho.2_Intron|TAF1C_uc010voa.1_Intron|TAF1C_uc002fhp.1_RNA|TAF1C_uc010vob.1_Missense_Mutation_p.M28I	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	28					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						GCCAGCTGCACATGAAAGAGA	0.627													8	11	---	---	---	---	PASS	A	84218511	A	A	84218511	3	1	107	1	0	0	0	0	1	0	0	0	15518	478	17	3	2577	3	TAF1C	16	84218511	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	276780	84218511	6136242	329	39362										
GAS8	2622	broad.mit.edu	37	chr16	90102917	90102917	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	acacgctgatgcagcgccacGaggaggccttcaccgacatt	11	14	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:90102917G>T	uc002fqi.1	+	6	801	c.679G>T	c.(679-681)GAG>TAG	p.E227*	GAS8_uc010vps.1_Nonsense_Mutation_p.E202*|GAS8_uc002fqh.2_Nonsense_Mutation_p.E144*|GAS8_uc010vpt.1_3'UTR|GAS8_uc010vpu.1_Nonsense_Mutation_p.E144*|GAS8_uc010vpv.1_Nonsense_Mutation_p.E198*|GAS8_uc010cjc.1_Nonsense_Mutation_p.E144*|GAS8_uc010vpw.1_Nonsense_Mutation_p.E144*|GAS8_uc002fqj.1_Nonsense_Mutation_p.E35*	NM_001481	NP_001472	O95995	GAS8_HUMAN	growth arrest-specific 8	227	Microtubule-binding.				negative regulation of cell proliferation|sperm motility	cilium|Golgi apparatus|microtubule|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.029)		GCAGCGCCACGAGGAGGCCTT	0.567													4	23	---	---	---	---	PASS	T	90102917	T	T	90102917	4	4	107	1	0	0	0	0	0	1	0	0	6251	1059	37	2	701	2	GAS8	16	90102917	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	5884406	90102917	251836	330	39363										
SMG6	23293	broad.mit.edu	37	chr17	2075968	2075968	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgaccttatccgaggttttcTccacgtagcaggggtcctga	11	11	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:2075968T>A	uc002fub.1	-	13	3396	c.3341A>T	c.(3340-3342)GAG>GTG	p.E1114V	SMG6_uc010vqv.1_Missense_Mutation_p.E206V	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	1114					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						CGAGGTTTTCTCCACGTAGCA	0.547													30	5	---	---	---	---	PASS	A	2075968	A	A	2075968	3	1	107	1	0	0	0	0	1	0	0	0	14797	1551	54	5	946	5	SMG6	17	2075968	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08		2075968	79119242	331	39364										
OR1A2	26189	broad.mit.edu	37	chr17	3101463	3101463	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctatgcatcattgtctcctaTgttcaggtcttttccacagt	6	11	4	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:3101463T>C	uc002fvd.1	+	1	651	c.651T>C	c.(649-651)TAT>TAC	p.Y217Y		NM_012352	NP_036484	Q9Y585	OR1A2_HUMAN	olfactory receptor, family 1, subfamily A,	217	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TTGTCTCCTATGTTCAGGTCT	0.433													103	32	---	---	---	---	PASS	C	3101463	C	C	3101463	2	2	107	1	0	0	0	0	0	0	0	1	10950	1471	51	5		5	OR1A2	17	3101463	Silent	SNP	T	TCGA-46-3768-01A-01D-0983-08	1025495	3101463	78093747	332	39365										
OR1E2	8388	broad.mit.edu	37	chr17	3337053	3337053	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	acatggccaagaacagggcaTagcacaggttttgctgctct	11	10	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:3337053T>C	uc010vre.1	-	1	83	c.83A>G	c.(82-84)TAT>TGT	p.Y28C		NM_003554	NP_003545	P47887	OR1E2_HUMAN	olfactory receptor, family 1, subfamily E,	28	Helical; Name=1; (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			large_intestine(1)	1						GAACAGGGCATAGCACAGGTT	0.522													40	12	---	---	---	---	PASS	C	3337053	C	C	3337053	3	2	107	1	0	0	0	0	1	0	0	0	10955	1406	49	5	891	5	OR1E2	17	3337053	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	235590	3337053	77858157	333	39366										
TP53	7157	broad.mit.edu	37	chr17	7577538	7577538	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgatggtgaggatgggcctcCggttcatgccgcccatgcag	15	11	1	2	rs11540652		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:7577538C>G	uc002gim.2	-	7	937	c.743G>C	c.(742-744)CGG>CCG	p.R248P	TP53_uc002gig.1_Missense_Mutation_p.R248P|TP53_uc002gih.2_Missense_Mutation_p.R248P|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R116P|TP53_uc010cng.1_Missense_Mutation_p.R116P|TP53_uc002gii.1_Missense_Mutation_p.R116P|TP53_uc010cnh.1_Missense_Mutation_p.R248P|TP53_uc010cni.1_Missense_Mutation_p.R248P|TP53_uc002gij.2_Missense_Mutation_p.R248P|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R155P|TP53_uc002gio.2_Missense_Mutation_p.R116P	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	248	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		R -> W (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|NR -> KW (in sporadic cancers; somatic mutation).|R -> C (in a sporadic cancer; somatic mutation).|NR -> IP (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R248Q(523)|p.R248W(443)|p.R248L(63)|p.R248P(12)|p.R248G(11)|p.R248R(10)|p.0?(7)|p.R155Q(4)|p.N247_R248delNR(2)|p.N247_R248>KW(2)|p.M246_P250delMNRRP(2)|p.R248fs*97(2)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.N247_P250delNRRP(1)|p.R249fs*96(1)|p.R248C(1)|p.G245fs*14(1)|p.N247_R248>IP(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)		GATGGGCCTCCGGTTCATGCC	0.572	R248Q(KASUMI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HS683_CENTRAL_NERVOUS_SYSTEM)|R248Q(NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HCC1143_BREAST)|R248Q(BL41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SKUT1_SOFT_TISSUE)|R248Q(HSC4_UPPER_AERODIGESTIVE_TRACT)|R248Q(HEC1A_ENDOMETRIUM)|R248Q(SF295_CENTRAL_NERVOUS_SYSTEM)|R248Q(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(WSUDLCL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIN87_STOMACH)|R248Q(P12ICHIKAWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(RT112_URINARY_TRACT)|R248Q(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PANC0203_PANCREAS)|R248Q(EM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(CI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(MOLM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NIHOVCAR3_OVARY)|R248Q(CA46_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SW1463_LARGE_INTESTINE)|R248Q(HCC70_BREAST)|R248Q(KYSE150_OESOPHAGUS)|R248Q(NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIH211_LUNG)|R248Q(KYO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PC14_LUNG)	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)			25	8	---	---	---	---	PASS	G	7577538	G	G	7577538	3	3	107	1	0	0	0	0	1	0	0	0	16378	652	23	4	547	4	TP53	17	7577538	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	4240485	7577538	73617672	334	39367										
DNAH2	146754	broad.mit.edu	37	chr17	7710538	7710538	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcagataaggttctgaagaaGattggggcctactgcgccca	12	9	2	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:7710538G>T	uc002giu.1	+	61	9527	c.9513G>T	c.(9511-9513)AAG>AAT	p.K3171N	DNAH2_uc010cnm.1_Missense_Mutation_p.K109N	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3171	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TTCTGAAGAAGATTGGGGCCT	0.527													54	16	---	---	---	---	PASS	T	7710538	T	T	7710538	3	4	107	1	0	0	0	0	1	0	0	0	4602	933	33	2	9755	2	DNAH2	17	7710538	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	133000	7710538	73484672	335	39368										
MYH1	4619	broad.mit.edu	37	chr17	10412856	10412856	+	Missense_Mutation	SNP	C	A	A													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atcccaaagtcaatgaacgtCcactcaatgccttccttctt							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:10412856C>A	uc002gmo.2	-	15	1627	c.1533G>T	c.(1531-1533)TGG>TGT	p.W511C	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	511	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CAATGAACGTCCACTCAATGC	0.483													44	29	---	---	---	---	PASS	A	10412856	A	A	10412856	3	1	107	1	0	0	0	0	1	0	0	0	10029	856	30	2	4390	2	MYH1	17	10412856	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	2702318	10412856	70782354	336	39369	737	2								
MYH1	4619	broad.mit.edu	37	chr17	10412857	10412857	+	Missense_Mutation	SNP	C	A	A													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcccaaagtcaatgaacgtcCactcaatgccttccttcttg							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:10412857C>A	uc002gmo.2	-	15	1626	c.1532G>T	c.(1531-1533)TGG>TTG	p.W511L	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	511	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						AATGAACGTCCACTCAATGCC	0.488													45	27	---	---	---	---	PASS	A	10412857	A	A	10412857	3	1	107	1	0	0	0	0	1	0	0	0	10029	595	21	3	4391	3	MYH1	17	10412857	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1	10412857	70782353	337	39370	737	2								
RICH2	9912	broad.mit.edu	37	chr17	12860030	12860030	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttgttgggatcattgaacctAtcatccagcatgcagactgg	10	9	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:12860030A>G	uc002gnr.3	+	15	1636	c.1309A>G	c.(1309-1311)ATC>GTC	p.I437V	RICH2_uc010vvk.1_Missense_Mutation_p.I437V|RICH2_uc010vvl.1_Missense_Mutation_p.I437V|RICH2_uc002gns.3_Missense_Mutation_p.I237V|RICH2_uc010vvm.1_Missense_Mutation_p.I437V|RICH2_uc010vvn.1_RNA|RICH2_uc002gnt.1_Missense_Mutation_p.I160V	NM_014859	NP_055674	Q17R89	RHG44_HUMAN	Rho GTPase-activating protein RICH2	437	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						CATTGAACCTATCATCCAGCA	0.527													17	7	---	---	---	---	PASS	G	12860030	G	G	12860030	3	3	107	1	0	0	0	0	1	0	0	0	13357	449	16	5	1367	5	RICH2	17	12860030	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	2447173	12860030	68335180	338	39371										
ZNF207	7756	broad.mit.edu	37	chr17	30696771	30696771	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgtaatgtcgcaaggtggccGttactgatcttacttcatcc	9	10	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:30696771G>T	uc002hhh.3	+	11	1578	c.1430G>T	c.(1429-1431)CGT>CTT	p.R477L	ZNF207_uc002hhj.3_Missense_Mutation_p.R493L|ZNF207_uc002hhi.3_Missense_Mutation_p.R462L|ZNF207_uc010csz.2_Missense_Mutation_p.R496L|ZNF207_uc002hhk.1_Intron|ZNF207_uc002hhl.1_RNA	NM_003457	NP_003448	O43670	ZN207_HUMAN	zinc finger protein 207 isoform a	477						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			CAAGGTGGCCGTTACTGATCT	0.507													14	24	---	---	---	---	PASS	T	30696771	T	T	30696771	3	4	107	1	0	0	0	0	1	0	0	0	17762	1145	40	1	1524	1	ZNF207	17	30696771	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	17836741	30696771	50498439	339	39372										
FBXO47	494188	broad.mit.edu	37	chr17	37099956	37099956	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcagactgaattcatctgtaGgttcttctatcatttcctgc	6	10	6	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:37099956G>T	uc002hrc.2	-	8	1027	c.827C>A	c.(826-828)CCT>CAT	p.P276H		NM_001008777	NP_001008777	Q5MNV8	FBX47_HUMAN	F-box protein 47	276											0						TTCATCTGTAGGTTCTTCTAT	0.383													5	58	---	---	---	---	PASS	T	37099956	T	T	37099956	3	4	107	1	0	0	0	0	1	0	0	0	5756	1000	35	3	547	3	FBXO47	17	37099956	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	6403185	37099956	44095254	340	39373										
PLCD3	113026	broad.mit.edu	37	chr17	43195803	43195803	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gttgtccaaggcagccccctCcggcgacaacaggtacatca	10	15	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:43195803C>A	uc002iib.2	-	6	1084	c.970G>T	c.(970-972)GAG>TAG	p.E324*		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	324					intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	GCAGCCCCCTCCGGCGACAAC	0.577													5	59	---	---	---	---	PASS	A	43195803	A	A	43195803	4	1	107	1	0	0	0	0	0	1	0	0	12032	864	30	2	1438	2	PLCD3	17	43195803	Nonsense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	6095847	43195803	37999407	341	39374										
HOXB7	3217	broad.mit.edu	37	chr17	46688189	46688189	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggttggaagcaaacgcacaaGaagtttgttctgggaaggct	14	6	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:46688189G>A	uc002inv.2	-	1	195	c.92C>T	c.(91-93)TCT>TTT	p.S31F		NM_004502	NP_004493	P09629	HXB7_HUMAN	homeobox B7	31						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AAACGCACAAGAAGTTTGTTC	0.552													13	37	---	---	---	---	PASS	A	46688189	A	A	46688189	3	1	107	1	0	0	0	0	1	0	0	0	7306	942	33	2	569	2	HOXB7	17	46688189	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	3492386	46688189	34507021	342	39375										
PRR11	55771	broad.mit.edu	37	chr17	57262807	57262807	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	attattaatttcagagtttaGaagtattgaaagacaccatc	6	5	1	4			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:57262807G>A	uc002ixf.1	+	4	365	c.286G>A	c.(286-288)GAA>AAA	p.E96K	PRR11_uc002ixg.1_RNA	NM_018304	NP_060774	Q96HE9	PRR11_HUMAN	proline rich 11	96										ovary(2)	2	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TCAGAGTTTAGAAGTATTGAA	0.323													21	41	---	---	---	---	PASS	A	57262807	A	A	57262807	3	1	107	1	0	0	0	0	1	0	0	0	12583	943	33	2	296	2	PRR11	17	57262807	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	10574618	57262807	23932403	343	39376										
CD300C	10871	broad.mit.edu	37	chr17	72539071	72539071	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gtgtgcacgggcagcttcgtGggaggacctgaggtgcccat	17	10	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:72539071G>T	uc002jky.1	-	3	817	c.456C>A	c.(454-456)CCC>CCA	p.P152P		NM_006678	NP_006669	Q08708	CLM6_HUMAN	CD300C antigen precursor	152	Pro-rich.|Extracellular (Potential).				cellular defense response	integral to plasma membrane	transmembrane receptor activity				0						GCAGCTTCGTGGGAGGACCTG	0.637													15	14	---	---	---	---	PASS	T	72539071	T	T	72539071	2	4	107	1	0	0	0	0	0	0	0	1	2997	1335	47	3		3	CD300C	17	72539071	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	15276264	72539071	8656139	344	39377										
KIAA0195	9772	broad.mit.edu	37	chr17	73489806	73489806	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agtgctggacttctaccagcGagcctgcctgtctgggtatt	12	11	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:73489806G>T	uc002jnz.3	+	18	2491	c.2216G>T	c.(2215-2217)CGA>CTA	p.R739L	KIAA0195_uc010wsa.1_Missense_Mutation_p.R749L|KIAA0195_uc010wsb.1_Missense_Mutation_p.R379L|KIAA0195_uc002job.3_5'Flank	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	739					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			TTCTACCAGCGAGCCTGCCTG	0.607													4	103	---	---	---	---	PASS	T	73489806	T	T	73489806	3	4	107	1	0	0	0	0	1	0	0	0	8160	1058	37	2	2282	2	KIAA0195	17	73489806	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	950735	73489806	7705404	345	39378										
RNF213	57674	broad.mit.edu	37	chr17	78337588	78337588	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caggctgtcatcagggaagtCaggtgagacccaggagccct	14	11	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:78337588C>G	uc002jyh.1	+	16	6190	c.5967C>G	c.(5965-5967)GTC>GTG	p.V1989V	uc002jyi.1_Intron|RNF213_uc010dhw.1_Silent_p.V371V	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)			TCAGGGAAGTCAGGTGAGACC	0.607													3	9	---	---	---	---	PASS	G	78337588	G	G	78337588	2	3	107	1	0	0	0	0	0	0	0	1	13477	813	29	2		2	RNF213	17	78337588	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	4847782	78337588	2857622	346	39379										
KIAA0802	23255	broad.mit.edu	37	chr18	8783855	8783855	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgcggggccagcaggagcggGagggcccgggtcgggaccac	21	12	0	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:8783855G>T	uc002knr.2	+	6	887	c.745G>T	c.(745-747)GAG>TAG	p.E249*	KIAA0802_uc002knq.2_Nonsense_Mutation_p.E249*|KIAA0802_uc010dkw.1_Nonsense_Mutation_p.E87*	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	600	Potential.										0						GCAGGAGCGGGAGGGCCCGGG	0.647													6	31	---	---	---	---	PASS	T	8783855	T	T	8783855	4	4	107	1	0	0	0	0	0	1	0	0	8194	1175	41	2	759	2	KIAA0802	18	8783855	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08		8783855	69293393	347	39380										
MC5R	4161	broad.mit.edu	37	chr18	13826055	13826055	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgggagaccatcaccatctaCctactcaacaacaagcacct	5	15	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:13826055C>T	uc010xaf.1	+	1	291	c.291C>T	c.(289-291)TAC>TAT	p.Y97Y		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	97	Helical; Name=2; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6						TCACCATCTACCTACTCAACA	0.522													4	27	---	---	---	---	PASS	T	13826055	T	T	13826055	2	4	107	1	0	0	0	0	0	0	0	1	9367	518	18	3		3	MC5R	18	13826055	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	5042200	13826055	64251193	348	39381										
OSBPL1A	114876	broad.mit.edu	37	chr18	21758027	21758027	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggttctgcttctacactcttCccccagaatttcagtttggg	8	12	4	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:21758027C>T	uc002kve.2	-	21	2217	c.2043G>A	c.(2041-2043)GGG>GGA	p.G681G	OSBPL1A_uc002kvd.2_Silent_p.G168G|OSBPL1A_uc010xbc.1_Silent_p.G299G	NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	681					cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					CTACACTCTTCCCCCAGAATT	0.443													8	42	---	---	---	---	PASS	T	21758027	T	T	21758027	2	4	107	1	0	0	0	0	0	0	0	1	11277	842	30	2		2	OSBPL1A	18	21758027	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	7931972	21758027	56319221	349	39382										
ASXL3	80816	broad.mit.edu	37	chr18	31324435	31324435	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cacagttccactttcattgcTgcttcggcagcaaaacaaga	7	12	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:31324435T>C	uc010dmg.1	+	12	4678	c.4623T>C	c.(4621-4623)GCT>GCC	p.A1541A	ASXL3_uc002kxq.2_Silent_p.A1248A	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1541					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CTTTCATTGCTGCTTCGGCAG	0.507											OREG0024911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	12	---	---	---	---	PASS	C	31324435	C	C	31324435	2	2	107	1	0	0	0	0	0	0	0	1	1068	1567	55	5		5	ASXL3	18	31324435	Silent	SNP	T	TCGA-46-3768-01A-01D-0983-08	9566408	31324435	46752813	350	39383										
RPRD1A	55197	broad.mit.edu	37	chr18	33613794	33613794	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gaaaagtaagcttcctgtttGgtttggctgaaaaataagaa	10	4	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:33613794G>A	uc002kzf.1	-	2	164	c.158C>T	c.(157-159)CCA>CTA	p.P53L	RPRD1A_uc002kze.1_Missense_Mutation_p.P17L|RPRD1A_uc002kzg.2_Missense_Mutation_p.P53L|RPRD1A_uc010dmw.2_Missense_Mutation_p.P17L|RPRD1A_uc010dmx.2_Missense_Mutation_p.P53L	NM_018170	NP_060640	Q96P16	RPR1A_HUMAN	regulation of nuclear pre-mRNA domain containing	53	CID.									ovary(1)|breast(1)	2						CTTCCTGTTTGGTTTGGCTGA	0.333													8	27	---	---	---	---	PASS	A	33613794	A	A	33613794	3	1	107	1	0	0	0	0	1	0	0	0	13615	1348	47	3	804	3	RPRD1A	18	33613794	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	2289359	33613794	44463454	351	39384										
KIAA1632	57724	broad.mit.edu	37	chr18	43446904	43446904	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	taacttagcacactctggtaCgacacaatatccacaagatg	6	11	1	1	rs142224776	by1000genomes	TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:43446904C>A	uc002lbm.2	-	38	6580	c.6480G>T	c.(6478-6480)TCG>TCT	p.S2160S	KIAA1632_uc010xcq.1_Silent_p.S714S|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Silent_p.S1035S	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	2160					autophagy						0						CACTCTGGTACGACACAATAT	0.398													34	18	---	---	---	---	PASS	A	43446904	A	A	43446904	2	1	107	1	0	0	0	0	0	0	0	1	8249	523	19	1		1	KIAA1632	18	43446904	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	9833110	43446904	34630344	352	39385										
DSEL	92126	broad.mit.edu	37	chr18	65181344	65181344	+	Missense_Mutation	SNP	C	A	A													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	taaggaatggccaattggaaCctcatctcctggtgcattct							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:65181344C>A	uc002lke.1	-	2	1756	c.532G>T	c.(532-534)GTT>TTT	p.V178F		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	168						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				CCAATTGGAACCTCATCTCCT	0.383													26	14	---	---	---	---	PASS	A	65181344	A	A	65181344	3	1	107	1	0	0	0	0	1	0	0	0	4775	507	18	3	3140	3	DSEL	18	65181344	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	21734440	65181344	12895904	353	39386	738	2								
DSEL	92126	broad.mit.edu	37	chr18	65181345	65181345	+	Missense_Mutation	SNP	C	G	G													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aaggaatggccaattggaacCtcatctcctggtgcattctc							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:65181345C>G	uc002lke.1	-	2	1755	c.531G>C	c.(529-531)GAG>GAC	p.E177D		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	167						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				CAATTGGAACCTCATCTCCTG	0.378													27	14	---	---	---	---	PASS	G	65181345	G	G	65181345	3	3	107	1	0	0	0	0	1	0	0	0	4775	680	24	4	3141	4	DSEL	18	65181345	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1	65181345	12895903	354	39387	738	2								
MADCAM1	8174	broad.mit.edu	37	chr19	498595	498595	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cacgcccgtggaccccaacgCgctctccttctccctgctcg	8	21	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:498595C>T	uc002los.2	+	3	447	c.437C>T	c.(436-438)GCG>GTG	p.A146V	MADCAM1_uc002lot.2_Missense_Mutation_p.A146V|MADCAM1_uc010drq.2_Missense_Mutation_p.A51V	NM_130760	NP_570116	Q13477	MADCA_HUMAN	mucosal vascular addressin cell adhesion	146	Extracellular (Potential).|Ig-like 2.				cell adhesion|immune response|regulation of immune response|signal transduction	integral to membrane|membrane fraction|plasma membrane					0		all_cancers(10;4.25e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GACCCCAACGCGCTCTCCTTC	0.716													11	2	---	---	---	---	PASS	T	498595	T	T	498595	3	4	107	1	0	0	0	0	1	0	0	0	9151	768	27	1	447	1	MADCAM1	19	498595	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08		498595	58630388	355	39388										
DOT1L	84444	broad.mit.edu	37	chr19	2217007	2217007	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ccagagccccagcgtgcctgGcagcatgaagctgagccctc	12	16	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:2217007G>C	uc002lvb.3	+	21	2498	c.2462G>C	c.(2461-2463)GGC>GCC	p.G821A	DOT1L_uc002lvc.1_Missense_Mutation_p.G115A|uc002lvd.1_5'Flank|DOT1L_uc002lve.1_Missense_Mutation_p.G115A	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	821						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCGTGCCTGGCAGCATGAAG	0.657													8	21	---	---	---	---	PASS	C	2217007	C	C	2217007	3	2	107	1	0	0	0	0	1	0	0	0	4709	1203	42	4	2544	4	DOT1L	19	2217007	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1718412	2217007	56911976	356	39389										
ZNF556	80032	broad.mit.edu	37	chr19	2877439	2877439	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ctcttcacccattcctcatcCctgataaggcacaaaagagc	5	15	3	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:2877439C>G	uc002lwp.1	+	4	570	c.483C>G	c.(481-483)TCC>TCG	p.S161S	ZNF556_uc002lwq.2_Silent_p.S160S	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	161	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATTCCTCATCCCTGATAAGGC	0.433													33	47	---	---	---	---	PASS	G	2877439	G	G	2877439	2	3	107	1	0	0	0	0	0	0	0	1	17984	610	22	4		4	ZNF556	19	2877439	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	660432	2877439	56251544	357	39390										
ZNF556	80032	broad.mit.edu	37	chr19	2877512	2877512	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aatgtgggaaagccttcagtCgcccttcctacctacagacg	9	13	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:2877512C>T	uc002lwp.1	+	4	643	c.556C>T	c.(556-558)CGC>TGC	p.R186C	ZNF556_uc002lwq.2_Missense_Mutation_p.R185C	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	186	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCCTTCAGTCGCCCTTCCTA	0.453													45	38	---	---	---	---	PASS	T	2877512	T	T	2877512	3	4	107	1	0	0	0	0	1	0	0	0	17984	884	31	2	570	2	ZNF556	19	2877512	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	73	2877512	56251471	358	39391										
UBXN6	80700	broad.mit.edu	37	chr19	4447574	4447574	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	accttgttctgcagcttgatCttccggtacttctcctcctc	6	15	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:4447574C>T	uc002man.1	-	6	684	c.588G>A	c.(586-588)AAG>AAA	p.K196K	UBXN6_uc010dty.1_Silent_p.K100K|UBXN6_uc002mam.1_Silent_p.K143K	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	196	PUB.					microtubule organizing center|nucleus	protein binding				0						GCAGCTTGATCTTCCGGTACT	0.677													18	61	---	---	---	---	PASS	T	4447574	T	T	4447574	2	4	107	1	0	0	0	0	0	0	0	1	16914	912	32	2		2	UBXN6	19	4447574	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	1570062	4447574	54681409	359	39392										
LRG1	116844	broad.mit.edu	37	chr19	4538248	4538248	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gaaggcaccggctgccacccTggccagcttgttgccgttca	12	15	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:4538248T>A	uc002mau.2	-	2	759	c.748A>T	c.(748-750)AGG>TGG	p.R250W	PLIN5_uc002mat.1_Intron	NM_052972	NP_443204	P02750	A2GL_HUMAN	leucine-rich alpha-2-glycoprotein 1 precursor	250	LRR 7.					extracellular region|membrane				ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTGCCACCCTGGCCAGCTTG	0.607													77	38	---	---	---	---	PASS	A	4538248	A	A	4538248	3	1	107	1	0	0	0	0	1	0	0	0	8942	1579	55	5	299	5	LRG1	19	4538248	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	90674	4538248	54590735	360	39393										
PNPLA6	10908	broad.mit.edu	37	chr19	7605533	7605533	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caggacgggaaggagtgtgtGgtgaaggaagtggttcctgg	20	4	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:7605533G>T	uc010xjq.1	+	8	954	c.759G>T	c.(757-759)GTG>GTT	p.V253V	PNPLA6_uc002mgq.1_Silent_p.V205V|PNPLA6_uc010xjp.1_Silent_p.V205V|PNPLA6_uc002mgr.1_Silent_p.V205V|PNPLA6_uc002mgs.2_Silent_p.V244V	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	244	cNMP 1.|Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						AGGAGTGTGTGGTGAAGGAAG	0.602													5	66	---	---	---	---	PASS	T	7605533	T	T	7605533	2	4	107	1	0	0	0	0	0	0	0	1	12169	1335	47	3		3	PNPLA6	19	7605533	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	3067285	7605533	51523450	361	39394										
MUC16	94025	broad.mit.edu	37	chr19	9090237	9090237	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgctggggttcactaaattgCtgagctgtgctttcactggt	12	8	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:9090237C>T	uc002mkp.2	-	1	1782	c.1578G>A	c.(1576-1578)CAG>CAA	p.Q526Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	526	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CACTAAATTGCTGAGCTGTGC	0.542													38	41	---	---	---	---	PASS	T	9090237	T	T	9090237	2	4	107	1	0	0	0	0	0	0	0	1	9973	796	28	3		3	MUC16	19	9090237	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	1484704	9090237	50038746	362	39395										
ZNF791	163049	broad.mit.edu	37	chr19	12739314	12739314	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcatgaaagaattcatactgGagagaagccctataaatgta	8	6	2	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:12739314G>T	uc002mua.2	+	4	1133	c.971G>T	c.(970-972)GGA>GTA	p.G324V	ZNF791_uc010xml.1_Missense_Mutation_p.G292V|ZNF791_uc010dyu.1_Missense_Mutation_p.G215V|ZNF791_uc010xmm.1_Missense_Mutation_p.G215V	NM_153358	NP_699189	Q3KP31	ZN791_HUMAN	zinc finger protein 791	324					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ATTCATACTGGAGAGAAGCCC	0.408													5	57	---	---	---	---	PASS	T	12739314	T	T	12739314	3	4	107	1	0	0	0	0	1	0	0	0	18160	1174	41	2	985	2	ZNF791	19	12739314	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	3649077	12739314	46389669	363	39396										
CPAMD8	27151	broad.mit.edu	37	chr19	17091325	17091325	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	acctgtctcagaaaggtgtgTtaaacgaatcggtttctcca	9	9	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:17091325T>A	uc002nfb.2	-	14	1740	c.1708A>T	c.(1708-1710)ACA>TCA	p.T570S		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	523						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						GAAAGGTGTGTTAAACGAATC	0.587													9	25	---	---	---	---	PASS	A	17091325	A	A	17091325	3	1	107	1	0	0	0	0	1	0	0	0	3795	1725	60	5	4206	5	CPAMD8	19	17091325	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	4352011	17091325	42037658	364	39397										
FKBP8	23770	broad.mit.edu	37	chr19	18649073	18649073	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tggcgaggtcgtaggagttgGcggccaggacgaagtccgcc	18	10	0	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:18649073G>A	uc002njk.1	-	5	835	c.722C>T	c.(721-723)GCC>GTC	p.A241V	FKBP8_uc002nji.1_Missense_Mutation_p.A79V|FKBP8_uc010xqi.1_Missense_Mutation_p.A270V|FKBP8_uc002njj.1_Missense_Mutation_p.A242V|FKBP8_uc002njl.1_Missense_Mutation_p.A242V|FKBP8_uc002njm.1_Missense_Mutation_p.A241V|FKBP8_uc010ebr.1_Missense_Mutation_p.A80V|FKBP8_uc002njn.2_RNA	NM_012181	NP_036313	Q14318	FKBP8_HUMAN	FK506-binding protein 8	241	TPR 1.				apoptosis|interspecies interaction between organisms|intracellular signal transduction|protein folding	integral to endoplasmic reticulum membrane|mitochondrial membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|protein binding			ovary(1)	1						GTAGGAGTTGGCGGCCAGGAC	0.662													7	41	---	---	---	---	PASS	A	18649073	A	A	18649073	3	1	107	1	0	0	0	0	1	0	0	0	5914	1203	42	3	536	3	FKBP8	19	18649073	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1557748	18649073	40479910	365	39398										
ZNF85	7639	broad.mit.edu	37	chr19	21131712	21131712	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	taagatgcacaaaggaggttGtaatggacttaaccaatgtc	10	6	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:21131712G>T	uc002npg.3	+	4	519	c.392G>T	c.(391-393)TGT>TTT	p.C131F	ZNF85_uc010ecn.2_Missense_Mutation_p.C66F|ZNF85_uc010eco.2_Missense_Mutation_p.C79F|ZNF85_uc002npi.2_Missense_Mutation_p.C72F	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	131						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						AAAGGAGGTTGTAATGGACTT	0.328													4	71	---	---	---	---	PASS	T	21131712	T	T	21131712	3	4	107	1	0	0	0	0	1	0	0	0	18190	1377	48	3	406	3	ZNF85	19	21131712	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	2482639	21131712	37997271	366	39399										
ZNF714	148206	broad.mit.edu	37	chr19	21300186	21300186	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atgtggcaaagccttctaccAttcttcacaccttactacac	4	14	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:21300186A>G	uc002npo.3	+	6	1079	c.719A>G	c.(718-720)CAT>CGT	p.H240R	ZNF714_uc002npl.2_Missense_Mutation_p.H85R|ZNF714_uc010ecp.1_Missense_Mutation_p.H191R|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	240	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCCTTCTACCATTCTTCACAC	0.413													26	16	---	---	---	---	PASS	G	21300186	G	G	21300186	3	3	107	1	0	0	0	0	1	0	0	0	18115	217	8	5	726	5	ZNF714	19	21300186	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	168474	21300186	37828797	367	39400										
ZNF599	148103	broad.mit.edu	37	chr19	35250747	35250747	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caaatgaggagctgtagtaaAaagctttcccacattctttg	8	8	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:35250747A>G	uc010edn.1	-	4	1347	c.959T>C	c.(958-960)TTT>TCT	p.F320S	ZNF599_uc010edm.1_Missense_Mutation_p.F283S	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	320	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			GCTGTAGTAAAAAGCTTTCCC	0.433													3	69	---	---	---	---	PASS	G	35250747	G	G	35250747	3	3	107	1	0	0	0	0	1	0	0	0	18026	14	1	5	811	5	ZNF599	19	35250747	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	13950561	35250747	23878236	368	39401										
HKR1	284459	broad.mit.edu	37	chr19	37854631	37854631	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aaagtgtggacggggctttaGtcggaagtccaaccttatca	12	8	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:37854631G>C	uc002ogb.2	+	6	2203	c.1934G>C	c.(1933-1935)AGT>ACT	p.S645T	HKR1_uc002ofx.2_Missense_Mutation_p.S361T|HKR1_uc002ofy.2_Missense_Mutation_p.S361T|HKR1_uc002oga.2_Missense_Mutation_p.S627T|HKR1_uc010xto.1_Missense_Mutation_p.S627T|HKR1_uc002ogc.2_Missense_Mutation_p.S626T|HKR1_uc010xtp.1_Missense_Mutation_p.S584T|HKR1_uc002ogd.2_Missense_Mutation_p.S584T	NM_181786	NP_861451	P10072	HKR1_HUMAN	GLI-Kruppel family member HKR1	645	C2H2-type 13.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CGGGGCTTTAGTCGGAAGTCC	0.473													4	49	---	---	---	---	PASS	C	37854631	C	C	37854631	3	2	107	1	0	0	0	0	1	0	0	0	7194	1029	36	4	1948	4	HKR1	19	37854631	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	2603884	37854631	21274352	369	39402										
CEACAM21	90273	broad.mit.edu	37	chr19	42085944	42085944	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gaggtctccaacccagtcagCtccaacaggagcgaccccct	9	17	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:42085944C>A	uc002ore.3	+	3	759	c.663C>A	c.(661-663)AGC>AGA	p.S221R	CEACAM21_uc002orc.1_RNA|CEACAM21_uc002ord.1_RNA|CEACAM21_uc002orf.2_RNA|CEACAM21_uc002org.3_Missense_Mutation_p.S221R	NM_001098506	NP_001091976	Q3KPI0	CEA21_HUMAN	carcinoembryonic antigen-related cell adhesion	221	Ig-like C2-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1						ACCCAGTCAGCTCCAACAGGA	0.547													6	8	---	---	---	---	PASS	A	42085944	A	A	42085944	3	1	107	1	0	0	0	0	1	0	0	0	3192	796	28	3	673	3	CEACAM21	19	42085944	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	4231313	42085944	17043039	370	39403										
PSG6	5675	broad.mit.edu	37	chr19	43529139	43529139	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gaacatccttcccctcggacActttgggtggctgggcttca	11	13	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:43529139A>T	uc002ovh.1	-	2	241	c.152T>A	c.(151-153)GTG>GAG	p.V51E	PSG11_uc002ouw.2_Missense_Mutation_p.V51E|PSG10_uc002ouv.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Missense_Mutation_p.V51E|PSG11_uc002ovm.1_Missense_Mutation_p.V45E|PSG11_uc002ovn.1_Missense_Mutation_p.V51E|PSG11_uc002ovo.1_Intron|PSG11_uc002ovp.1_Intron			Q00889	PSG6_HUMAN	SubName: Full=Putative uncharacterized protein PSG6;	45	Ig-like V-type.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				CCCCTCGGACACTTTGGGTGG	0.468													80	117	---	---	---	---	PASS	T	43529139	T	T	43529139	3	4	107	1	0	0	0	0	1	0	0	0	12659	159	6	5		5	PSG6	19	43529139	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	1443195	43529139	15599844	371	39404										
IRGQ	126298	broad.mit.edu	37	chr19	44096824	44096826	+	In_Frame_Del	DEL	TCT	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggcttaacgcagcggcccgcTctgagtcgccaccacctgat							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:44096824_44096826delTCT	uc002oww.2	-	2	1342_1344	c.1224_1226delAGA	c.(1222-1227)TCAGAG>TCG	p.E409del	IRGQ_uc010eiv.2_In_Frame_Del_p.E409del	NM_001007561	NP_001007562	Q8WZA9	IRGQ_HUMAN	immunity-related GTPase family, Q	409							protein binding			ovary(1)|pancreas(1)	2		Prostate(69;0.0199)				AGCGGCCCGCTCTGAGTCGCCAC	0.66													65	32	---	---	---	---		-	44096826	-	-	44096824	7	5	107	1	0	1	0	1	0	0	0	0	7839	1551	54	0	649	0	IRGQ	19	44096824	In_Frame_Del	DEL	TCT	TCGA-46-3768-01A-01D-0983-08	567685	44096824	15032159	372	39405										
ZNF227	7770	broad.mit.edu	37	chr19	44740694	44740694	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tggtaggagcttgaatcttcGccatcatcagagggtccaca	11	10	3	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:44740694G>T	uc002oyu.2	+	6	2316	c.2111G>T	c.(2110-2112)CGC>CTC	p.R704L	ZNF227_uc010xwu.1_Missense_Mutation_p.R653L|ZNF227_uc002oyv.2_Missense_Mutation_p.R704L|ZNF227_uc010xwv.1_Missense_Mutation_p.R653L|ZNF227_uc010xww.1_Missense_Mutation_p.R625L|ZNF227_uc002oyw.2_Missense_Mutation_p.R676L|ZNF227_uc010ejh.2_Missense_Mutation_p.R697L|ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_3'UTR	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	704	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)				TTGAATCTTCGCCATCATCAG	0.483													4	82	---	---	---	---	PASS	T	44740694	T	T	44740694	3	4	107	1	0	0	0	0	1	0	0	0	17778	1087	38	1	2125	1	ZNF227	19	44740694	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	643870	44740694	14388289	373	39406										
CEACAM16	388551	broad.mit.edu	37	chr19	45211185	45211185	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cccaccaagccaacggagggCcaggacgtaacactgaccgt	11	15	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:45211185C>A	uc010xxd.1	+	6	1199	c.993C>A	c.(991-993)GGC>GGA	p.G331G	CEACAM16_uc002ozq.2_Silent_p.G390G	NM_001039213	NP_001034302	A7LI12	A7LI12_HUMAN	carcinoembryonic antigen-related cell adhesion	331										ovary(1)	1	Lung NSC(12;0.000698)|all_lung(12;0.002)	Prostate(69;0.0376)|Ovarian(192;0.231)				CAACGGAGGGCCAGGACGTAA	0.662													3	11	---	---	---	---	PASS	A	45211185	A	A	45211185	2	1	107	1	0	0	0	0	0	0	0	1	3188	726	26	3		3	CEACAM16	19	45211185	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	470491	45211185	13917798	374	39407										
FOSB	2354	broad.mit.edu	37	chr19	45975850	45975850	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gaaaaagcagagctggagtcGgagatcgccgagctccaaaa	13	9	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:45975850G>T	uc002pbx.3	+	4	1189	c.597G>T	c.(595-597)TCG>TCT	p.S199S	ERCC1_uc002pbu.1_Intron|FOSB_uc010eke.2_Silent_p.S124S|FOSB_uc002pby.3_Silent_p.S163S|FOSB_uc010eka.1_Silent_p.S160S|FOSB_uc010ekb.1_Silent_p.S199S|FOSB_uc010ekc.1_Silent_p.S56S|FOSB_uc010ekf.2_Silent_p.S160S|FOSB_uc010ekd.1_Silent_p.S163S|FOSB_uc010ekg.2_Silent_p.S56S|FOSB_uc002pca.3_Silent_p.S150S	NM_006732	NP_006723	P53539	FOSB_HUMAN	FBJ murine osteosarcoma viral oncogene homolog B	199	Leucine-zipper.				behavior|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(2)|lung(1)	3		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00814)|Epithelial(262;0.18)|GBM - Glioblastoma multiforme(486;0.242)		AGCTGGAGTCGGAGATCGCCG	0.577													13	16	---	---	---	---	PASS	T	45975850	T	T	45975850	2	4	107	1	0	0	0	0	0	0	0	1	5986	1103	39	1		1	FOSB	19	45975850	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	764665	45975850	13153133	375	39408										
LIG1	3978	broad.mit.edu	37	chr19	48624466	48624466	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcctcactgtcctcgtcgtaGgaggccagcaggaagccccc	11	16	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:48624466G>T	uc002pia.1	-	24	2466	c.2346C>A	c.(2344-2346)TCC>TCA	p.S782S	LIG1_uc010xze.1_Silent_p.S475S|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Silent_p.S714S|LIG1_uc010xzg.1_Silent_p.S751S	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	782					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	CCTCGTCGTAGGAGGCCAGCA	0.662								NER					6	67	---	---	---	---	PASS	T	48624466	T	T	48624466	2	4	107	1	0	0	0	0	0	0	0	1	8781	987	35	3		3	LIG1	19	48624466	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	2648616	48624466	10504517	376	39409										
CCDC155	147872	broad.mit.edu	37	chr19	49901368	49901368	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gggtcagcacgccttggggaGgagatcttggctctgcgtaa	16	9	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:49901368G>T	uc002pnm.1	+	7	771	c.597G>T	c.(595-597)GAG>GAT	p.E199D	CCDC155_uc002pnl.1_Missense_Mutation_p.E199D|CCDC155_uc010emx.1_Missense_Mutation_p.E172D	NM_144688	NP_653289	Q8N6L0	CC155_HUMAN	coiled-coil domain containing 155	199	Potential.					integral to membrane	calcium ion binding			ovary(1)|central_nervous_system(1)	2						GCCTTGGGGAGGAGATCTTGG	0.647													4	22	---	---	---	---	PASS	T	49901368	T	T	49901368	3	4	107	1	0	0	0	0	1	0	0	0	2788	991	35	3	619	3	CCDC155	19	49901368	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1276902	49901368	9227615	377	39410										
PRR12	57479	broad.mit.edu	37	chr19	50099409	50099409	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cctggcacctccgggagctgGcagctatgcagccggagcag	15	14	0	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:50099409G>T	uc002poo.3	+	4	1817	c.1817G>T	c.(1816-1818)GGC>GTC	p.G606V		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		CCGGGAGCTGGCAGCTATGCA	0.682													12	14	---	---	---	---	PASS	T	50099409	T	T	50099409	3	4	107	1	0	0	0	0	1	0	0	0	12584	1203	42	3	1831	3	PRR12	19	50099409	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	198041	50099409	9029574	378	39411										
SHANK1	50944	broad.mit.edu	37	chr19	51192460	51192460	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cggctggcactcacccttggCcccccggagcacgaacccaa	10	19	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:51192460C>A	uc002psx.1	-	15	2060	c.2041G>T	c.(2041-2043)GCC>TCC	p.A681S	SHANK1_uc002psw.1_Missense_Mutation_p.A65S	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	681	PDZ.				cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		TCACCCTTGGCCCCCCGGAGC	0.607													5	70	---	---	---	---	PASS	A	51192460	A	A	51192460	3	1	107	1	0	0	0	0	1	0	0	0	14264	739	26	3	4480	3	SHANK1	19	51192460	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1093051	51192460	7936523	379	39412										
ZNF701	55762	broad.mit.edu	37	chr19	53085781	53085781	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aagtgcacatatttcaccccGaagggaaaattggtaatcaa	8	8	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:53085781G>A	uc002pzs.1	+	4	596	c.469G>A	c.(469-471)GAA>AAA	p.E157K	ZNF701_uc010ydn.1_Missense_Mutation_p.E223K	NM_018260	NP_060730	Q9NV72	ZN701_HUMAN	zinc finger protein 701	157					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0105)|GBM - Glioblastoma multiforme(134;0.0402)		ATTTCACCCCGAAGGGAAAAT	0.413													32	91	---	---	---	---	PASS	A	53085781	A	A	53085781	3	1	107	1	0	0	0	0	1	0	0	0	18102	1059	37	2	681	2	ZNF701	19	53085781	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	1893321	53085781	6043202	380	39413										
MBOAT7	79143	broad.mit.edu	37	chr19	54687471	54687471	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	agggagggcacgtcgggcagCagccccagggtgggcccctt	18	13	0	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:54687471C>T	uc002qdq.2	-	6	692	c.426G>A	c.(424-426)CTG>CTA	p.L142L	MBOAT7_uc010erg.2_5'UTR|MBOAT7_uc010yem.1_Silent_p.L124L|MBOAT7_uc002qdr.2_Silent_p.L142L|MBOAT7_uc002qds.2_Silent_p.L69L|MBOAT7_uc010yen.1_Silent_p.L69L|MBOAT7_uc002qdt.3_Silent_p.L142L	NM_024298	NP_077274	Q96N66	MBOA7_HUMAN	membrane bound O-acyltransferase domain	142					phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CGTCGGGCAGCAGCCCCAGGG	0.627													17	27	---	---	---	---	PASS	T	54687471	T	T	54687471	2	4	107	1	0	0	0	0	0	0	0	1	9358	697	25	3		3	MBOAT7	19	54687471	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	1601690	54687471	4441512	381	39414										
PTPRH	5794	broad.mit.edu	37	chr19	55711656	55711656	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgtgctccatttttttctgcCcatacagagaatgtgtacaa	7	10	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:55711656C>A	uc002qjq.2	-	7	1441	c.1368G>T	c.(1366-1368)TGG>TGT	p.W456C	PTPRH_uc010esv.2_Missense_Mutation_p.W278C|PTPRH_uc002qjs.2_Missense_Mutation_p.W463C	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	456	Extracellular (Potential).|Fibronectin type-III 5.				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)		TTTTTTCTGCCCATACAGAGA	0.517													18	16	---	---	---	---	PASS	A	55711656	A	A	55711656	3	1	107	1	0	0	0	0	1	0	0	0	12803	624	22	3	2035	3	PTPRH	19	55711656	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	1024185	55711656	3417327	382	39415										
ZNF835	90485	broad.mit.edu	37	chr19	57175601	57175601	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gtgtggatgcgccggtgctcGgccagagaggcgctctggct	18	11	1	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:57175601G>A	uc010ygo.1	-	2	1032	c.1032C>T	c.(1030-1032)GCC>GCT	p.A344A	ZNF835_uc010ygn.1_Silent_p.A322A	NM_001005850	NP_001005850			zinc finger protein 835									p.G334fs*26(1)		pancreas(3)|skin(1)	4						GCCGGTGCTCGGCCAGAGAGG	0.701													11	18	---	---	---	---	PASS	A	57175601	A	A	57175601	2	1	107	1	0	0	0	0	0	0	0	1	18183	1103	39	1		1	ZNF835	19	57175601	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	1463945	57175601	1953382	383	39416										
ZNF586	54807	broad.mit.edu	37	chr19	58290273	58290273	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aagtcctgcctcactgaaccCagaagagatcacaaacacag	7	13	2	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:58290273C>T	uc002qqd.2	+	3	504	c.318C>T	c.(316-318)CCC>CCT	p.P106P	ZNF587_uc002qqb.2_Intron|ZNF586_uc002qqe.2_Missense_Mutation_p.P64L|ZNF586_uc010euh.2_Silent_p.P63P|ZNF586_uc002qqf.1_Intron	NM_017652	NP_060122	Q9NXT0	ZN586_HUMAN	zinc finger protein 586	106	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TCACTGAACCCAGAAGAGATC	0.413													14	70	---	---	---	---	PASS	T	58290273	T	T	58290273	2	4	107	1	0	0	0	0	0	0	0	1	18016	581	21	3		3	ZNF586	19	58290273	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08	1114672	58290273	838710	384	39417										
ZNF446	55663	broad.mit.edu	37	chr19	58991863	58991863	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gggaaagcacagagaagccaCcacaaggggaggtggccttt	15	9	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:58991863C>T	uc002qsz.2	+	7	1240	c.1123C>T	c.(1123-1125)CCA>TCA	p.P375S	ZNF446_uc002qta.2_3'UTR|ZNF446_uc010eur.2_3'UTR|SLC27A5_uc002qtb.2_RNA	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	375					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		AGAGAAGCCACCACAAGGGGA	0.647													7	7	---	---	---	---	PASS	T	58991863	T	T	58991863	3	4	107	1	0	0	0	0	1	0	0	0	17916	507	18	3	1145	3	ZNF446	19	58991863	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	701590	58991863	137120	385	39418										
CPXM1	56265	broad.mit.edu	37	chr20	2778860	2778860	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgggtggggtgcccagcgtcCacctgaaaccatggatcggc	15	13	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:2778860C>A	uc002wgu.2	-	4	592	c.528G>T	c.(526-528)GTG>GTT	p.V176V	CPXM1_uc010gas.2_Silent_p.V176V	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	176	F5/8 type C.				cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						GCCCAGCGTCCACCTGAAACC	0.592													5	46	---	---	---	---	PASS	A	2778860	A	A	2778860	2	1	107	1	0	0	0	0	0	0	0	1	3837	581	21	3		3	CPXM1	20	2778860	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08		2778860	60246660	386	39419										
PLCB1	23236	broad.mit.edu	37	chr20	8769342	8769342	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggagaagataacagaagctaAatccaaagacaaaagtcaga	9	6	1	5			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:8769342A>T	uc002wnb.2	+	29	3254	c.3251A>T	c.(3250-3252)AAA>ATA	p.K1084I	PLCB1_uc002wna.2_Missense_Mutation_p.K1084I	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	1084					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						ACAGAAGCTAAATCCAAAGAC	0.363													10	28	---	---	---	---	PASS	T	8769342	T	T	8769342	3	4	107	1	0	0	0	0	1	0	0	0	12027	14	1	5	3365	5	PLCB1	20	8769342	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	5990482	8769342	54256178	387	39420										
C20orf26	26074	broad.mit.edu	37	chr20	20079402	20079402	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttccacggactctgtttccCacatcctgatgacgttctgg	8	13	2	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:20079402C>A	uc002wru.2	+	8	879	c.803C>A	c.(802-804)CCA>CAA	p.P268Q	C20orf26_uc010gcw.1_Missense_Mutation_p.P222Q|C20orf26_uc010zse.1_Missense_Mutation_p.P268Q|C20orf26_uc010zsf.1_Missense_Mutation_p.P268Q	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	268										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		CTCTGTTTCCCACATCCTGAT	0.488													16	41	---	---	---	---	PASS	A	20079402	A	A	20079402	3	1	107	1	0	0	0	0	1	0	0	0	2106	594	21	3	829	3	C20orf26	20	20079402	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	11310060	20079402	42946118	388	39421										
PAX1	5075	broad.mit.edu	37	chr20	21687473	21687473	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgcaacaagatcggcagcctGgcgcagcccggaccgtacga	13	15	0	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:21687473G>T	uc002wsj.2	+	2	738	c.684G>T	c.(682-684)CTG>CTT	p.L228L	PAX1_uc010zsl.1_Silent_p.L228L|PAX1_uc010zsm.1_Silent_p.L204L	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	228					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						TCGGCAGCCTGGCGCAGCCCG	0.642													26	10	---	---	---	---	PASS	T	21687473	T	T	21687473	2	4	107	1	0	0	0	0	0	0	0	1	11478	1335	47	3		3	PAX1	20	21687473	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	1608071	21687473	41338047	389	39422										
MAPRE1	22919	broad.mit.edu	37	chr20	31421598	31421598	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gaaagtgaaattccaagctaAgctagaacacgagtacatcc	8	9	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:31421598A>C	uc002wyh.2	+	3	336	c.197A>C	c.(196-198)AAG>ACG	p.K66T		NM_012325	NP_036457	Q15691	MARE1_HUMAN	microtubule-associated protein, RP/EB family,	66	CH.				cell division|cell proliferation|G2/M transition of mitotic cell cycle|mitotic prometaphase|negative regulation of microtubule polymerization|protein localization to microtubule	centrosome|cortical microtubule cytoskeleton|cytosol	microtubule plus-end binding|protein C-terminus binding				0						TTCCAAGCTAAGCTAGAACAC	0.398													51	62	---	---	---	---	PASS	C	31421598	C	C	31421598	3	2	107	1	0	0	0	0	1	0	0	0	9294	72	3	5	203	5	MAPRE1	20	31421598	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	9734125	31421598	31603922	390	39423										
SLC12A5	57468	broad.mit.edu	37	chr20	44663663	44663663	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggaaaggagtatgatggcaaGaacatggccttgtttgaggt	15	4	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:44663663G>A	uc010zxl.1	+	2	274	c.198G>A	c.(196-198)AAG>AAA	p.K66K	SLC12A5_uc002xra.2_Silent_p.K43K|SLC12A5_uc010zxm.1_RNA|SLC12A5_uc002xrb.2_Silent_p.K43K	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	66	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	ATGATGGCAAGAACATGGCCT	0.547													43	74	---	---	---	---	PASS	A	44663663	A	A	44663663	2	1	107	1	0	0	0	0	0	0	0	1	14386	933	33	2		2	SLC12A5	20	44663663	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	13242065	44663663	18361857	391	39424										
PTPN1	5770	broad.mit.edu	37	chr20	49177930	49177930	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	atgaagccagtgacttcccaTgtagagtggccaagcttcct	10	11	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:49177930T>G	uc002xvl.2	+	2	268	c.94T>G	c.(94-96)TGT>GGT	p.C32G	PTPN1_uc010zys.1_Intron	NM_002827	NP_002818	P18031	PTN1_HUMAN	protein tyrosine phosphatase, non-receptor type	32	Tyrosine-protein phosphatase.				blood coagulation|interferon-gamma-mediated signaling pathway|negative regulation of insulin receptor signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol|endoplasmic reticulum membrane	protein tyrosine phosphatase activity|zinc ion binding				0		Lung NSC(126;0.163)			Clodronate(DB00720)|Tiludronate(DB01133)	TGACTTCCCATGTAGAGTGGC	0.453													6	57	---	---	---	---	PASS	G	49177930	G	G	49177930	3	3	107	1	0	0	0	0	1	0	0	0	12779	1464	51	5	100	5	PTPN1	20	49177930	Missense_Mutation	SNP	T	TCGA-46-3768-01A-01D-0983-08	4514267	49177930	13847590	392	39425										
KRTAP13-1	140258	broad.mit.edu	37	chr21	31768868	31768868	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cccaacctacttggcttctaGgagctgccagtcttcttgct	8	14	3	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr21:31768868G>A	uc002yoa.2	+	1	477	c.464G>A	c.(463-465)AGG>AAG	p.R155K		NM_181599	NP_853630	Q8IUC0	KR131_HUMAN	keratin associated protein 13-1	155						intermediate filament				ovary(1)	1						TTGGCTTCTAGGAGCTGCCAG	0.502													16	15	---	---	---	---	PASS	A	31768868	A	A	31768868	3	1	107	1	0	0	0	0	1	0	0	0	8522	1000	35	3	466	3	KRTAP13-1	21	31768868	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08		31768868	16361027	393	39426										
CSF2RB	1439	broad.mit.edu	37	chr22	37333986	37333986	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ggagtggcctctggttatgtCtcctctgcagacctggtatt	12	10	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr22:37333986C>A	uc003aqa.3	+	14	2353	c.2136C>A	c.(2134-2136)GTC>GTA	p.V712V	CSF2RB_uc003aqc.3_Silent_p.V718V	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	712	Cytoplasmic (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	CTGGTTATGTCTCCTCTGCAG	0.597													17	19	---	---	---	---	PASS	A	37333986	A	A	37333986	2	1	107	1	0	0	0	0	0	0	0	1	3935	900	32	2		2	CSF2RB	22	37333986	Silent	SNP	C	TCGA-46-3768-01A-01D-0983-08		37333986	13970580	394	39427										
CARD10	29775	broad.mit.edu	37	chr22	37890147	37890147	+	Frame_Shift_Del	DEL	C	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gtcccctgcaggcgcccccaCgggcttgggcctcaccagcc							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr22:37890147delC	uc003asx.1	-	16	2425	c.2422delG	c.(2422-2424)GTGfs	p.V808fs	CARD10_uc003ast.1_RNA|CARD10_uc003asu.1_5'Flank|CARD10_uc003asv.1_5'UTR|CARD10_uc011ank.1_Frame_Shift_Del_p.V126fs|CARD10_uc003asw.1_Frame_Shift_Del_p.V522fs|CARD10_uc003asy.1_Frame_Shift_Del_p.V808fs	NM_014550	NP_055365	Q9BWT7	CAR10_HUMAN	caspase recruitment domain protein 10	808					activation of NF-kappaB-inducing kinase activity|protein complex assembly|regulation of apoptosis	CBM complex	receptor signaling complex scaffold activity			upper_aerodigestive_tract(1)|lung(1)|breast(1)|ovary(1)|prostate(1)|kidney(1)	6	Melanoma(58;0.0574)					GGCGCCCCCACGGGCTTGGGC	0.677													4	3	---	---	---	---		-	37890147	-	-	37890147	7	5	107	1	0	1	0	1	0	0	0	0	2644	536	19	0	696	0	CARD10	22	37890147	Frame_Shift_Del	DEL	C	TCGA-46-3768-01A-01D-0983-08	556161	37890147	13414419	395	39428										
JOSD1	9929	broad.mit.edu	37	chr22	39085044	39085044	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cagatccagtgctgccttttGaggggcagtttcagtggacc	13	10	1	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr22:39085044G>C	uc003awf.2	-	3	872	c.405C>G	c.(403-405)CTC>CTG	p.L135L		NM_014876	NP_055691	Q15040	JOS1_HUMAN	Josephin domain containing 1	135	Josephin.						peptidase activity				0	Melanoma(58;0.04)					GCTGCCTTTTGAGGGGCAGTT	0.572													27	33	---	---	---	---	PASS	C	39085044	C	C	39085044	2	2	107	1	0	0	0	0	0	0	0	1	7958	1277	45	2		2	JOSD1	22	39085044	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	1194897	39085044	12219522	396	39429										
PARVB	29780	broad.mit.edu	37	chr22	44532354	44532354	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tttcagaaacgggaaggcctGctgcattccagccacatctc	9	13	2	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr22:44532354G>T	uc003ben.2	+	7	700	c.648G>T	c.(646-648)CTG>CTT	p.L216L	PARVB_uc003bem.2_Silent_p.L249L|PARVB_uc010gzn.2_Silent_p.L164L|PARVB_uc003beo.2_Silent_p.L179L	NM_013327	NP_037459	Q9HBI1	PARVB_HUMAN	parvin, beta isoform b	216					cell adhesion|cell junction assembly	cytoskeleton|cytosol|focal adhesion	actin binding				0		Ovarian(80;0.0246)|all_neural(38;0.0423)				GGGAAGGCCTGCTGCATTCCA	0.562													17	20	---	---	---	---	PASS	T	44532354	T	T	44532354	2	4	107	1	0	0	0	0	0	0	0	1	11469	1306	46	3		3	PARVB	22	44532354	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	5447310	44532354	6772212	397	39430										
FAM48B1	100130302	broad.mit.edu	37	chrX	24382817	24382817	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tgcaggaatcagtggcagtgAccttcagtcctcaggaggtc	13	10	3	1			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:24382817A>G	uc011mjx.1	+	1	1940	c.1940A>G	c.(1939-1941)GAC>GGC	p.D647G		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						AGTGGCAGTGACCTTCAGTCC	0.612													10	5	---	---	---	---	PASS	G	24382817	G	G	24382817	3	3	107	1	0	0	0	0	1	0	0	0	5573	275	10	5	1942	5	FAM48B1	23	24382817	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08		24382817	130887743	398	39431										
POLA1	5422	broad.mit.edu	37	chrX	24753605	24753605	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	attgatcctgatatcattgtGgtgagtagatgtttgatcat	10	4	2	5			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:24753605G>T	uc004dbl.2	+	18	1928	c.1905G>T	c.(1903-1905)GTG>GTT	p.V635V		NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	635					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	ATATCATTGTGGTGAGTAGAT	0.368													5	43	---	---	---	---	PASS	T	24753605	T	T	24753605	2	4	107	1	0	0	0	0	0	0	0	1	12187	1362	47	3		3	POLA1	23	24753605	Silent	SNP	G	TCGA-46-3768-01A-01D-0983-08	370788	24753605	130516955	399	39432										
MAGEB6	158809	broad.mit.edu	37	chrX	26213027	26213027	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	caacagtgatcctccatgctAtgagttcctgtggggtccac	10	12	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:26213027A>G	uc004dbr.2	+	2	1213	c.1064A>G	c.(1063-1065)TAT>TGT	p.Y355C	MAGEB6_uc010ngc.1_Missense_Mutation_p.Y135C	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	355	MAGE.									ovary(3)	3						CCTCCATGCTATGAGTTCCTG	0.498													28	5	---	---	---	---	PASS	G	26213027	G	G	26213027	3	3	107	1	0	0	0	0	1	0	0	0	9179	449	16	5	1066	5	MAGEB6	23	26213027	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	1459422	26213027	129057533	400	39433										
CYBB	1536	broad.mit.edu	37	chrX	37663222	37663222	+	Frame_Shift_Del	DEL	A	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tacatttttgtcaagtgcccAaaggtgtccaagctggagtg							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:37663222delA	uc004ddr.2	+	9	1051	c.990delA	c.(988-990)CCAfs	p.P330fs	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Frame_Shift_Del_p.P298fs|CYBB_uc011mkg.1_Frame_Shift_Del_p.P63fs	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	330	Cytoplasmic (Potential).|FAD-binding FR-type.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						TCAAGTGCCCAAAGGTGTCCA	0.478													13	30	---	---	---	---		-	37663222	-	-	37663222	7	5	107	1	0	1	0	1	0	0	0	0	4133	117	5	0	1024	0	CYBB	23	37663222	Frame_Shift_Del	DEL	A	TCGA-46-3768-01A-01D-0983-08	11450195	37663222	117607338	401	39434										
BCOR	54880	broad.mit.edu	37	chrX	39934379	39934379	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	ttcccggatcaggccagtgcGgtccatgctcagtgctgcca	12	14	2	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:39934379G>T	uc004den.3	-	4	512	c.220C>A	c.(220-222)CGC>AGC	p.R74S	BCOR_uc004dep.3_Missense_Mutation_p.R74S|BCOR_uc004deo.3_Missense_Mutation_p.R74S|BCOR_uc004dem.3_Missense_Mutation_p.R74S|BCOR_uc004deq.3_Missense_Mutation_p.R74S	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	74					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						AGGCCAGTGCGGTCCATGCTC	0.582													4	9	---	---	---	---	PASS	T	39934379	T	T	39934379	3	4	107	1	0	0	0	0	1	0	0	0	1386	1116	39	1	5095	1	BCOR	23	39934379	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	2271157	39934379	115336181	402	39435										
UBA1	7317	broad.mit.edu	37	chrX	47070573	47070573	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aattcacccccaagtctggcGtcaagatccatgtttctgac	7	13	4	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:47070573G>C	uc004dhj.3	+	20	2564	c.2413G>C	c.(2413-2415)GTC>CTC	p.V805L	UBA1_uc004dhk.3_Missense_Mutation_p.V805L|UBA1_uc004dhm.2_Missense_Mutation_p.V253L	NM_153280	NP_695012	P22314	UBA1_HUMAN	ubiquitin-activating enzyme E1	805					cell death|protein modification process		ATP binding|ligase activity|protein binding|small protein activating enzyme activity			ovary(1)	1						CAAGTCTGGCGTCAAGATCCA	0.607													4	39	---	---	---	---	PASS	C	47070573	C	C	47070573	3	2	107	1	0	0	0	0	1	0	0	0	16824	1145	40	4	2487	4	UBA1	23	47070573	Missense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	7136194	47070573	108199987	403	39436										
MAGED1	9500	broad.mit.edu	37	chrX	51638459	51638459	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	taagtcccaaaatgctacccCaaagggtccaaatgctgcct	7	13	0	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:51638459C>A	uc004dpm.2	+	3	451	c.356C>A	c.(355-357)CCA>CAA	p.P119Q	MAGED1_uc004dpn.2_Missense_Mutation_p.P175Q|MAGED1_uc004dpo.2_Missense_Mutation_p.P119Q|MAGED1_uc011mnx.1_Intron	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	119				P -> S (in Ref. 1; AAG09704).	apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					AATGCTACCCCAAAGGGTCCA	0.502										Multiple Myeloma(10;0.10)			3	6	---	---	---	---	PASS	A	51638459	A	A	51638459	3	1	107	1	0	0	0	0	1	0	0	0	9183	594	21	3	534	3	MAGED1	23	51638459	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	4567886	51638459	103632101	404	39437										
NXF3	56000	broad.mit.edu	37	chrX	102334777	102334778	+	Frame_Shift_Del	DEL	AG	-	-													0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aggagaccctgtcgatctccAgagtcatagatcaagtaata							TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:102334777_102334778delAG	uc004eju.2	-	13	1144_1145	c.1073_1074delCT	c.(1072-1074)TCTfs	p.S358fs	NXF3_uc010noi.1_Frame_Shift_Del_p.S208fs	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	358	NTF2.					cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3						GTCGATCTCCAGAGTCATAGAT	0.52													19	46	---	---	---	---		-	102334778	-	-	102334777	7	5	107	1	0	1	0	1	0	0	0	0	10785	175	7	0	549	0	NXF3	23	102334777	Frame_Shift_Del	DEL	AG	TCGA-46-3768-01A-01D-0983-08	50696318	102334777	52935783	405	39438										
NKRF	55922	broad.mit.edu	37	chrX	118724197	118724197	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	tcgtcggcagctgcatgtttActtgttttcttggttccata	9	9	1	0			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:118724197A>G	uc004erq.2	-	2	1844	c.1191T>C	c.(1189-1191)AGT>AGC	p.S397S	NKRF_uc004err.2_Silent_p.S397S	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	397					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2						CTGCATGTTTACTTGTTTTCT	0.413													71	10	---	---	---	---	PASS	G	118724197	G	G	118724197	2	3	107	1	0	0	0	0	0	0	0	1	10447	388	14	5		5	NKRF	23	118724197	Silent	SNP	A	TCGA-46-3768-01A-01D-0983-08	16389420	118724197	36546363	406	39439										
CXorf66	347487	broad.mit.edu	37	chrX	139038229	139038229	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	cgaaaggacctggaagaggaCttgactttgcttgaaacatg	12	7	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:139038229C>A	uc004fbb.2	-	3	934	c.912G>T	c.(910-912)AAG>AAT	p.K304N		NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor	304	Cytoplasmic (Potential).					integral to membrane					0						TGGAAGAGGACTTGACTTTGC	0.378													15	35	---	---	---	---	PASS	A	139038229	A	A	139038229	3	1	107	1	0	0	0	0	1	0	0	0	4118	564	20	3	177	3	CXorf66	23	139038229	Missense_Mutation	SNP	C	TCGA-46-3768-01A-01D-0983-08	20314032	139038229	16232331	407	39440										
UBE2NL	389898	broad.mit.edu	37	chrX	142967551	142967551	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	aggccttgttaaatgctcccAatccagatgatccattagca	7	11	0	2			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:142967551A>C	uc004fca.2	+	1	379	c.349A>C	c.(349-351)AAT>CAT	p.N117H		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	117							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					AAATGCTCCCAATCCAGATGA	0.453													30	39	---	---	---	---	PASS	C	142967551	C	C	142967551	3	2	107	1	0	0	0	0	1	0	0	0	16864	130	5	5	351	5	UBE2NL	23	142967551	Missense_Mutation	SNP	A	TCGA-46-3768-01A-01D-0983-08	3929322	142967551	12303009	408	39441										
GDI1	2664	broad.mit.edu	37	chrX	153667172	153667172	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0723192019950125	29	0.0107219874743901	1.62079831932773	2.21695402298851	1.21776347741622	0.662311513260241	0.925645401874291	11	gatgggccgaggccgagactGgaatgttgacctgattccca	14	10	0	3			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:153667172G>A	uc004fli.3	+	3	557	c.215G>A	c.(214-216)TGG>TAG	p.W72*	GDI1_uc011mzo.1_Nonsense_Mutation_p.W72*	NM_001493	NP_001484	P31150	GDIA_HUMAN	GDP dissociation inhibitor 1	72					protein transport|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|midbody	GTPase activator activity|protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGCCGAGACTGGAATGTTGAC	0.572													86	11	---	---	---	---	PASS	A	153667172	A	A	153667172	4	1	107	1	0	0	0	0	0	1	0	0	6320	1357	47	3	225	3	GDI1	23	153667172	Nonsense_Mutation	SNP	G	TCGA-46-3768-01A-01D-0983-08	10699621	153667172	1603388	409	39442										
GABRD	2563	broad.mit.edu	37	chr1	1961080	1961080	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	catcaaggcactggacgtctActtctggatctgctatgtct	9	11	5	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:1961080A>T	uc001aip.2	+	8	1033	c.938A>T	c.(937-939)TAC>TTC	p.Y313F		NM_000815	NP_000806	O14764	GBRD_HUMAN	gamma-aminobutyric acid (GABA) A receptor, delta	313	Helical; (Probable).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;2.7e-19)|all_lung(118;1.22e-08)|Lung NSC(185;1.24e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;2.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.17e-24)|GBM - Glioblastoma multiforme(42;9.56e-08)|Colorectal(212;4.12e-05)|COAD - Colon adenocarcinoma(227;0.000194)|Kidney(185;0.00231)|BRCA - Breast invasive adenocarcinoma(365;0.00441)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		CTGGACGTCTACTTCTGGATC	0.587													6	39	---	---	---	---	PASS	T	1961080	T	T	1961080	3	4	108	1	0	0	0	0	1	0	0	0	6169	391	14	5	968	5	GABRD	1	1961080	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08		1961080	247289541	1	39443										
MMEL1	79258	broad.mit.edu	37	chr1	2529710	2529710	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	taccaatgcggtccagcaccAggcgccagaccaggtagttc	11	14	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:2529710A>T	uc001ajy.2	-	13	1422	c.1208T>A	c.(1207-1209)CTG>CAG	p.L403Q	MMEL1_uc009vlg.1_RNA	NM_033467	NP_258428	Q495T6	MMEL1_HUMAN	membrane metallo-endopeptidase-like 1	403	Lumenal (Potential).				proteolysis	extracellular region|integral to membrane|intracellular membrane-bounded organelle	metal ion binding|metalloendopeptidase activity				0	all_cancers(77;0.000233)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.03e-20)|all_lung(118;5.15e-09)|Lung NSC(185;9.02e-07)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;8.52e-23)|GBM - Glioblastoma multiforme(42;1.49e-08)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;0.000213)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00219)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.131)		GTCCAGCACCAGGCGCCAGAC	0.592													7	65	---	---	---	---	PASS	T	2529710	T	T	2529710	3	4	108	1	0	0	0	0	1	0	0	0	9646	188	7	5	1179	5	MMEL1	1	2529710	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	568630	2529710	246720911	2	39444										
ACTRT2	140625	broad.mit.edu	37	chr1	2938634	2938634	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagatggcagaagtcatgttCgagaacttcggcgtgcccgc	13	10	1	3	rs137995220		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:2938634C>G	uc001ajz.2	+	1	589	c.384C>G	c.(382-384)TTC>TTG	p.F128L		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	128						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		AAGTCATGTTCGAGAACTTCG	0.632													18	31	---	---	---	---	PASS	G	2938634	G	G	2938634	3	3	108	1	0	0	0	0	1	0	0	0	219	883	31	2	386	2	ACTRT2	1	2938634	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	408924	2938634	246311987	3	39445										
CHD5	26038	broad.mit.edu	37	chr1	6170001	6170001	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggtcctgcgtcatgttcaggTacgcggccctccggagctgc	14	14	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:6170001T>C	uc001amb.1	-	38	5532	c.5432A>G	c.(5431-5433)TAC>TGC	p.Y1811C	CHD5_uc001alz.1_Missense_Mutation_p.Y668C|CHD5_uc001ama.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1811					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		CATGTTCAGGTACGCGGCCCT	0.701													5	28	---	---	---	---	PASS	C	6170001	C	C	6170001	3	2	108	1	0	0	0	0	1	0	0	0	3328	1638	57	5	448	5	CHD5	1	6170001	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	3231367	6170001	243080620	4	39446										
KIF1B	23095	broad.mit.edu	37	chr1	10328302	10328302	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaagaaacacgataatgagaCcaacctttccactgagaagg	9	9	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:10328302C>A	uc001aqx.3	+	7	903	c.701C>A	c.(700-702)ACC>AAC	p.T234N	KIF1B_uc001aqv.3_Missense_Mutation_p.T234N|KIF1B_uc001aqw.3_Missense_Mutation_p.T234N|KIF1B_uc001aqy.2_Missense_Mutation_p.T234N|KIF1B_uc001aqz.2_Missense_Mutation_p.T234N|KIF1B_uc001ara.2_Missense_Mutation_p.T234N|KIF1B_uc001arb.2_Missense_Mutation_p.T234N|KIF1B_uc009vmt.2_RNA	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	234	Kinesin-motor.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		GATAATGAGACCAACCTTTCC	0.433													13	10	---	---	---	---	PASS	A	10328302	A	A	10328302	3	1	108	1	0	0	0	0	1	0	0	0	8284	507	18	3	723	3	KIF1B	1	10328302	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4158301	10328302	238922319	5	39447										
KIAA2013	90231	broad.mit.edu	37	chr1	11983449	11983449	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggctcagggaggggctgagCagtggggctggcgagcagga	22	7	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:11983449C>T	uc001atk.2	-	2	1325	c.1131G>A	c.(1129-1131)CTG>CTA	p.L377L	KIAA2013_uc001atl.1_Silent_p.L377L	NM_138346	NP_612355	Q8IYS2	K2013_HUMAN	hypothetical protein LOC90231 precursor	377	Extracellular (Potential).					integral to membrane				ovary(1)	1	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00149)|all_lung(284;0.00189)|Breast(348;0.00586)|Colorectal(325;0.0062)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0556)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AGGGGCTGAGCAGTGGGGCTG	0.597													5	58	---	---	---	---	PASS	T	11983449	T	T	11983449	2	4	108	1	0	0	0	0	0	0	0	1	8267	697	25	3		3	KIAA2013	1	11983449	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1655147	11983449	237267172	6	39448										
VPS13D	55187	broad.mit.edu	37	chr1	12567003	12567003	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gactacgtggatcgagaagcCattttcctagaagtcaaata	9	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:12567003C>T	uc001atv.2	+	69	13032	c.12891C>T	c.(12889-12891)GCC>GCT	p.A4297A	VPS13D_uc001atw.2_Silent_p.A4272A|VPS13D_uc001atx.2_Silent_p.A3484A|VPS13D_uc009vnl.2_RNA|VPS13D_uc010obd.1_Silent_p.A295A|SNORA59B_uc001atz.1_5'Flank	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	4296					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		ATCGAGAAGCCATTTTCCTAG	0.493													15	82	---	---	---	---	PASS	T	12567003	T	T	12567003	2	4	108	1	0	0	0	0	0	0	0	1	17189	581	21	3		3	VPS13D	1	12567003	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	583554	12567003	236683618	7	39449										
PRAMEF8	391002	broad.mit.edu	37	chr1	12979852	12979852	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgctggagcaagttgtggcCaccctgcagaccctggactt	12	13	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:12979852C>A	uc001aup.2	+	4	1127	c.1044C>A	c.(1042-1044)GCC>GCA	p.A348A		NM_001012276	NP_001012276	Q5VWM4	PRAM8_HUMAN	PRAME family member 8	348	LRR 2.										0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AAGTTGTGGCCACCCTGCAGA	0.602													22	56	---	---	---	---	PASS	A	12979852	A	A	12979852	2	1	108	1	0	0	0	0	0	0	0	1	12440	581	21	3		3	PRAMEF8	1	12979852	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	412849	12979852	236270769	8	39450										
SPATA21	374955	broad.mit.edu	37	chr1	16727236	16727236	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atagttctgctgcttcagccGgctcaggatactgaggacct	11	11	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:16727236G>T	uc001ayn.2	-	11	1636	c.1153C>A	c.(1153-1155)CGG>AGG	p.R385R	SPATA21_uc001ayl.1_RNA|SPATA21_uc010occ.1_Silent_p.R362R	NM_198546	NP_940948	Q7Z572	SPT21_HUMAN	spermatogenesis associated 21	385							calcium ion binding			ovary(2)|breast(1)	3		Colorectal(325;0.000147)|Renal(390;0.00145)|Lung NSC(340;0.00215)|Breast(348;0.00224)|all_lung(284;0.00351)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(227;1.15e-05)|BRCA - Breast invasive adenocarcinoma(304;4.2e-05)|Kidney(64;0.000183)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.0122)|READ - Rectum adenocarcinoma(331;0.0651)		TGCTTCAGCCGGCTCAGGATA	0.597													82	59	---	---	---	---	PASS	T	16727236	T	T	16727236	2	4	108	1	0	0	0	0	0	0	0	1	15006	1115	39	1		1	SPATA21	1	16727236	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	3747384	16727236	232523385	9	39451										
PADI1	29943	broad.mit.edu	37	chr1	17552641	17552641	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attccaaaagagtgagggtcTtctgtgccaggggtgagtgg	16	6	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:17552641T>G	uc001bah.1	+	6	732	c.640T>G	c.(640-642)TTC>GTC	p.F214V		NM_013358	NP_037490	Q9ULC6	PADI1_HUMAN	peptidylarginine deiminase type I	214					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity				0		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00522)|BRCA - Breast invasive adenocarcinoma(304;1.3e-05)|COAD - Colon adenocarcinoma(227;1.31e-05)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(196;0.0069)|READ - Rectum adenocarcinoma(331;0.0681)|Lung(427;0.197)	L-Citrulline(DB00155)	AGTGAGGGTCTTCTGTGCCAG	0.512													16	35	---	---	---	---	PASS	G	17552641	G	G	17552641	3	3	108	1	0	0	0	0	1	0	0	0	11377	1609	56	5	662	5	PADI1	1	17552641	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	825405	17552641	231697980	10	39452										
PADI1	29943	broad.mit.edu	37	chr1	17555289	17555289	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agtgtcagcctggtggacccGggggtgtgtacagcactggg	18	9	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:17555289G>T	uc001bah.1	+	7	914	c.822G>T	c.(820-822)CCG>CCT	p.P274P		NM_013358	NP_037490	Q9ULC6	PADI1_HUMAN	peptidylarginine deiminase type I	274					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity				0		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00522)|BRCA - Breast invasive adenocarcinoma(304;1.3e-05)|COAD - Colon adenocarcinoma(227;1.31e-05)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(196;0.0069)|READ - Rectum adenocarcinoma(331;0.0681)|Lung(427;0.197)	L-Citrulline(DB00155)	TGGTGGACCCGGGGGTGTGTA	0.657													54	31	---	---	---	---	PASS	T	17555289	T	T	17555289	2	4	108	1	0	0	0	0	0	0	0	1	11377	1103	39	1		1	PADI1	1	17555289	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2648	17555289	231695332	11	39453										
TCEB3	6924	broad.mit.edu	37	chr1	24078941	24078941	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccagacctcccgttacccgcGatacaggccaattaccgtcc	7	18	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:24078941G>A	uc001bho.2	+	5	1608	c.1548G>A	c.(1546-1548)GCG>GCA	p.A516A		NM_003198	NP_003189	Q14241	ELOA1_HUMAN	elongin A	516					positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|viral reproduction	integral to membrane	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.42e-24)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;4.74e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|KIRC - Kidney renal clear cell carcinoma(1967;0.00334)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		CGTTACCCGCGATACAGGCCA	0.507													10	8	---	---	---	---	PASS	A	24078941	A	A	24078941	2	1	108	1	0	0	0	0	0	0	0	1	15678	1045	37	2		2	TCEB3	1	24078941	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	6523652	24078941	225171680	12	39454										
C1orf201	90529	broad.mit.edu	37	chr1	24706237	24706237	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acgaattactaaagtctctcTtggaaataaaatccgatggg	8	7	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:24706237T>C	uc001bjc.2	-	5	503	c.368A>G	c.(367-369)AAG>AGG	p.K123R	C1orf201_uc001bja.2_Missense_Mutation_p.K76R|C1orf201_uc001bjb.2_Missense_Mutation_p.K31R|C1orf201_uc001bjd.2_Missense_Mutation_p.K123R|C1orf201_uc001bje.1_Missense_Mutation_p.K76R|C1orf201_uc001bjf.2_5'UTR			Q5TH74	CA201_HUMAN	RecName: Full=UPF0490 protein C1orf201;	123										ovary(1)|breast(1)	2		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.0191)|all_lung(284;0.0251)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.056)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.48e-25)|Colorectal(126;7.29e-08)|COAD - Colon adenocarcinoma(152;3.85e-06)|GBM - Glioblastoma multiforme(114;0.000399)|BRCA - Breast invasive adenocarcinoma(304;0.00107)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00393)|READ - Rectum adenocarcinoma(331;0.0672)|Lung(427;0.145)		AAAGTCTCTCTTGGAAATAAA	0.413													33	37	---	---	---	---	PASS	C	24706237	C	C	24706237	3	2	108	1	0	0	0	0	1	0	0	0	2027	1609	56	5	656	5	C1orf201	1	24706237	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	627296	24706237	224544384	13	39455										
PTAFR	5724	broad.mit.edu	37	chr1	28477001	28477001	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gactggcacgctgcccttctCgtaatgctcaaagcagcgag	11	13	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:28477001C>T	uc001bpl.2	-	2	659	c.532G>A	c.(532-534)GAG>AAG	p.E178K	PTAFR_uc001bpm.3_Missense_Mutation_p.E178K|PTAFR_uc009vte.2_Missense_Mutation_p.E178K	NM_000952	NP_000943	P25105	PTAFR_HUMAN	platelet-activating factor receptor	178	Extracellular (Potential).				chemotaxis|inflammatory response|interferon-gamma-mediated signaling pathway|phosphatidylinositol-mediated signaling	integral to plasma membrane|nucleus	phospholipid binding|platelet activating factor receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00715)|all_lung(284;0.00732)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.215)|OV - Ovarian serous cystadenocarcinoma(117;6e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|STAD - Stomach adenocarcinoma(196;0.00678)|READ - Rectum adenocarcinoma(331;0.0649)		CTGCCCTTCTCGTAATGCTCA	0.542													12	26	---	---	---	---	PASS	T	28477001	T	T	28477001	3	4	108	1	0	0	0	0	1	0	0	0	12723	893	31	2	500	2	PTAFR	1	28477001	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3770764	28477001	220773620	14	39456										
YTHDF2	51441	broad.mit.edu	37	chr1	29070237	29070237	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tacaacacatgtgcaggtgtGtggtcccaggacaaatggaa	12	8	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:29070237G>T	uc001brc.2	+	4	1952	c.1455G>T	c.(1453-1455)GTG>GTT	p.V485V	YTHDF2_uc001brd.2_Silent_p.V482V|YTHDF2_uc010ofx.1_Silent_p.V435V|YTHDF2_uc001bre.2_Silent_p.V435V	NM_016258	NP_057342	Q9Y5A9	YTHD2_HUMAN	high glucose-regulated protein 8	485	YTH.				humoral immune response					ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000601)|all_lung(284;0.000771)|Breast(348;0.00502)|Renal(390;0.00758)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;5.46e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0221)|KIRC - Kidney renal clear cell carcinoma(1967;0.0296)|READ - Rectum adenocarcinoma(331;0.0649)		GTGCAGGTGTGTGGTCCCAGG	0.493													23	39	---	---	---	---	PASS	T	29070237	T	T	29070237	2	4	108	1	0	0	0	0	0	0	0	1	17496	1364	48	3		3	YTHDF2	1	29070237	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	593236	29070237	220180384	15	39457										
CSMD2	114784	broad.mit.edu	37	chr1	34102088	34102088	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgacggaggagcccagcttcAggtcggaccccacccgtgtg	14	14	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:34102088A>T	uc001bxn.1	-	30	4750	c.4721T>A	c.(4720-4722)CTG>CAG	p.L1574Q	CSMD2_uc001bxm.1_Missense_Mutation_p.L1614Q|CSMD2_uc001bxo.1_Missense_Mutation_p.L487Q	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1574	Extracellular (Potential).|Sushi 9.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GCCCAGCTTCAGGTCGGACCC	0.582													15	9	---	---	---	---	PASS	T	34102088	T	T	34102088	3	4	108	1	0	0	0	0	1	0	0	0	3945	188	7	5	5902	5	CSMD2	1	34102088	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	5031851	34102088	215148533	16	39458										
CSMD2	114784	broad.mit.edu	37	chr1	34191097	34191097	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgctgagtaagtccgcccatCgcgtacttccagggtgtcat	11	13	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:34191097C>A	uc001bxn.1	-	17	2457	c.2428G>T	c.(2428-2430)GAT>TAT	p.D810Y	CSMD2_uc001bxm.1_Missense_Mutation_p.D850Y	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	810	CUB 5.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GTCCGCCCATCGCGTACTTCC	0.493													19	33	---	---	---	---	PASS	A	34191097	A	A	34191097	3	1	108	1	0	0	0	0	1	0	0	0	3945	884	31	2	8247	2	CSMD2	1	34191097	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	89009	34191097	215059524	17	39459										
DLGAP3	58512	broad.mit.edu	37	chr1	35365738	35365738	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggcgactgctttgggagatGtcttggggctgccgtctgag	18	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:35365738G>C	uc001byc.2	-	2	1244	c.1244C>G	c.(1243-1245)ACA>AGA	p.T415R		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	415					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				TTTGGGAGATGTCTTGGGGCT	0.662													10	48	---	---	---	---	PASS	C	35365738	C	C	35365738	3	2	108	1	0	0	0	0	1	0	0	0	4561	1377	48	4	1731	4	DLGAP3	1	35365738	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1174641	35365738	213884883	18	39460										
KIAA0319L	79932	broad.mit.edu	37	chr1	35921739	35921739	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttggggcagggtgatcacttGgttggggcctgcgttggcca	18	8	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:35921739G>A	uc001byx.2	-	10	1789	c.1531C>T	c.(1531-1533)CAA>TAA	p.Q511*	KIAA0319L_uc001byw.2_5'Flank|KIAA0319L_uc010ohv.1_Nonsense_Mutation_p.Q153*	NM_024874	NP_079150	Q8IZA0	K319L_HUMAN	dyslexia susceptibility 2-like	511	PKD 3.|Extracellular (Potential).					cytoplasmic vesicle part|integral to membrane	protein binding			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GTGATCACTTGGTTGGGGCCT	0.532													69	46	---	---	---	---	PASS	A	35921739	A	A	35921739	4	1	108	1	0	0	0	0	0	1	0	0	8169	1357	47	3	1666	3	KIAA0319L	1	35921739	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	556001	35921739	213328882	19	39461										
GRIK3	2899	broad.mit.edu	37	chr1	37325587	37325587	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcaggttcacgcctgagtagCggtagggctccaggtctaaa	13	10	3	1	rs114188187	by1000genomes	TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:37325587C>A	uc001caz.2	-	6	953	c.818G>T	c.(817-819)CGC>CTC	p.R273L	GRIK3_uc001cba.1_Missense_Mutation_p.R273L	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	273	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GCCTGAGTAGCGGTAGGGCTC	0.567													35	34	---	---	---	---	PASS	A	37325587	A	A	37325587	3	1	108	1	0	0	0	0	1	0	0	0	6775	768	27	1	1985	1	GRIK3	1	37325587	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1403848	37325587	211925034	20	39462										
MEAF6	64769	broad.mit.edu	37	chr1	37961483	37961484	+	Splice_Site	INS	-	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagtggtccggctgatacttINSacagctcgtggttttttgtt							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:37961483_37961484insA	uc001cbg.1	-	6	584	c.567_splice	c.e6+1	p.A189_splice	MEAF6_uc001cbd.1_Splice_Site_p.A167_splice|MEAF6_uc001cbe.1_Splice_Site_p.A199_splice|MEAF6_uc009vvd.1_Splice_Site|MEAF6_uc001cbf.1_Splice_Site	NM_022756	NP_073593	Q9HAF1	EAF6_HUMAN	MYST/Esa1-associated factor 6						histone H2A acetylation|histone H3-K14 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|NuA4 histone acetyltransferase complex|nucleolus	protein binding				0						GGCTGATACTTACAGCTCGTGG	0.371													47	21	---	---	---	---		A	37961484	A	A	37961483	8	5	108	1	0	1	1	0	0	0	1	0	9421	1769	61	0		0	MEAF6	1	37961483	Splice_Site	INS	-	TCGA-46-3769-01A-01D-0983-08	635896	37961483	211289138	21	39463										
MACF1	23499	broad.mit.edu	37	chr1	39715746	39715746	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atggccataacctgatctctCtgttggaggtcctctcaggc	10	12	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:39715746C>G	uc010ois.1	+	5	548	c.343C>G	c.(343-345)CTG>GTG	p.L115V	MACF1_uc001cda.1_Missense_Mutation_p.L23V|MACF1_uc010oit.1_Missense_Mutation_p.L78V	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	115	Actin-binding.|CH 1.				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)			CCTGATCTCTCTGTTGGAGGT	0.433													69	41	---	---	---	---	PASS	G	39715746	G	G	39715746	3	3	108	1	0	0	0	0	1	0	0	0	9144	912	32	2	353	2	MACF1	1	39715746	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1754263	39715746	209534875	22	39464										
KIAA0754	643314	broad.mit.edu	37	chr1	39876940	39876940	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttatgatggaggctgagggaGagtgggaggaagagaaactg	19	2	0	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:39876940G>C	uc009vvt.1	+	1	1765	c.1003G>C	c.(1003-1005)GAG>CAG	p.E335Q	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc010oiu.1_Intron	NM_015038	NP_055853	O94854	K0754_HUMAN	hypothetical protein LOC643314	199											0	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	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)			GGCTGAGGGAGAGTGGGAGGA	0.448											OREG0013393	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	53	---	---	---	---	PASS	C	39876940	C	C	39876940	3	2	108	1	0	0	0	0	1	0	0	0	8192	943	33	2	1005	2	KIAA0754	1	39876940	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	161194	39876940	209373681	23	39465										
MACF1	23499	broad.mit.edu	37	chr1	39945559	39945559	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccccttccgctcacggggtCgaaggtccaaaccatcttcc	8	18	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:39945559C>T	uc010oiu.1	+	62	17439	c.17308C>T	c.(17308-17310)CGA>TGA	p.R5770*	MACF1_uc010ois.1_Nonsense_Mutation_p.R5262*|MACF1_uc001cde.1_Nonsense_Mutation_p.R139*|MACF1_uc001cdf.1_Nonsense_Mutation_p.R145*|MACF1_uc001cdg.2_Nonsense_Mutation_p.R53*|MACF1_uc001cdh.2_Nonsense_Mutation_p.R53*	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7220	C-terminal tail (By similarity).				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)			CTCACGGGGTCGAAGGTCCAA	0.522													11	37	---	---	---	---	PASS	T	39945559	T	T	39945559	4	4	108	1	0	0	0	0	0	1	0	0	9144	876	31	2	22323	2	MACF1	1	39945559	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	68619	39945559	209305062	24	39466										
CTPS	1503	broad.mit.edu	37	chr1	41474386	41474386	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggcaccgccaccgatttgaGgtgaggattccagcttgctg	13	11	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:41474386G>T	uc001cgk.3	+	15	1957	c.1449G>T	c.(1447-1449)GAG>GAT	p.E483D	CTPS_uc010ojo.1_Missense_Mutation_p.E252D|CTPS_uc001cgl.3_Missense_Mutation_p.E483D|CTPS_uc010ojq.1_Missense_Mutation_p.E327D|CTPS_uc009vwe.2_Intron	NM_001905	NP_001896	P17812	PYRG1_HUMAN	CTP synthase	483	Glutamine amidotransferase type-1.				CTP biosynthetic process|glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|response to drug	cytosol	ATP binding|CTP synthase activity|protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)			L-Glutamine(DB00130)	ACCGATTTGAGGTGAGGATTC	0.468													25	40	---	---	---	---	PASS	T	41474386	T	T	41474386	3	4	108	1	0	0	0	0	1	0	0	0	4022	1014	35	3	1503	3	CTPS	1	41474386	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1528827	41474386	207776235	25	39467										
CLDN19	149461	broad.mit.edu	37	chr1	43204186	43204186	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtacacttcatgccaactacGctgaggaccatggccacgaa	9	13	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:43204186G>C	uc001cht.1	-	2	485	c.294C>G	c.(292-294)AGC>AGG	p.S98R	CLDN19_uc001chu.2_Missense_Mutation_p.S98R|CLDN19_uc010ojv.1_Missense_Mutation_p.S98R	NM_148960	NP_683763	Q8N6F1	CLD19_HUMAN	claudin 19 isoform a	98	Helical; (Potential).				calcium-independent cell-cell adhesion|response to stimulus|visual perception	basolateral plasma membrane|integral to membrane|tight junction	identical protein binding				0	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGCCAACTACGCTGAGGACCA	0.642													4	27	---	---	---	---	PASS	C	43204186	C	C	43204186	3	2	108	1	0	0	0	0	1	0	0	0	3480	1078	38	4	512	4	CLDN19	1	43204186	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1729800	43204186	206046435	26	39468										
TIE1	7075	broad.mit.edu	37	chr1	43777783	43777783	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcctgggggcctcccaccctCatgaccacagactgtcctgg	11	17	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:43777783C>T	uc001ciu.2	+	11	1690	c.1611C>T	c.(1609-1611)CTC>CTT	p.L537L	TIE1_uc010okd.1_Silent_p.L537L|TIE1_uc010oke.1_Silent_p.L492L|TIE1_uc009vwq.2_Silent_p.L493L|TIE1_uc010okf.1_Silent_p.L182L|TIE1_uc010okg.1_Silent_p.L182L	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	537	Extracellular (Potential).|Fibronectin type-III 1.				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CTCCCACCCTCATGACCACAG	0.612													17	9	---	---	---	---	PASS	T	43777783	T	T	43777783	2	4	108	1	0	0	0	0	0	0	0	1	15890	813	29	2		2	TIE1	1	43777783	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	573597	43777783	205472838	27	39469										
KIF2C	11004	broad.mit.edu	37	chr1	45223802	45223802	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtgacattcttcgagatctAcaatgggaaggtagctggca	12	7	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:45223802A>G	uc001cmg.3	+	13	1329	c.1214A>G	c.(1213-1215)TAC>TGC	p.Y405C	KIF2C_uc010olb.1_Missense_Mutation_p.Y364C|KIF2C_uc010olc.1_Missense_Mutation_p.Y292C|KIF2C_uc001cmh.3_Missense_Mutation_p.Y351C	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	405	Kinesin-motor.				blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TTCGAGATCTACAATGGGAAG	0.507													20	62	---	---	---	---	PASS	G	45223802	G	G	45223802	3	3	108	1	0	0	0	0	1	0	0	0	8299	391	14	5	1264	5	KIF2C	1	45223802	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	1446019	45223802	204026819	28	39470										
HECTD3	79654	broad.mit.edu	37	chr1	45469374	45469374	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcaggaagagggtgctggagCaagtggaagactcgggcagc	19	7	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:45469374C>T	uc009vxk.2	-	20	2566	c.2468G>A	c.(2467-2469)TGC>TAC	p.C823Y	HECTD3_uc001cmx.3_Missense_Mutation_p.C172Y|HECTD3_uc001cmy.3_Missense_Mutation_p.C433Y|HECTD3_uc010olh.1_Missense_Mutation_p.C539Y	NM_024602	NP_078878	Q5T447	HECD3_HUMAN	HECT domain containing 3	823	HECT.	Glycyl thioester intermediate.		C->A: Loss of ubiquitin-ligase activity.	proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	ubiquitin-protein ligase activity				0	Acute lymphoblastic leukemia(166;0.155)					GGTGCTGGAGCAAGTGGAAGA	0.597													20	19	---	---	---	---	PASS	T	45469374	T	T	45469374	3	4	108	1	0	0	0	0	1	0	0	0	7041	710	25	3	125	3	HECTD3	1	45469374	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	245572	45469374	203781247	29	39471										
CYP4B1	1580	broad.mit.edu	37	chr1	47283849	47283849	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgagaatgcatccaaacgccAtccctttgcctttatgccct	6	14	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:47283849A>G	uc001cqm.3	+	11	1400	c.1316A>G	c.(1315-1317)CAT>CGT	p.H439R	CYP4B1_uc001cqn.3_Missense_Mutation_p.H440R|CYP4B1_uc009vym.2_Missense_Mutation_p.H425R|CYP4B1_uc010omk.1_Missense_Mutation_p.H276R	NM_000779	NP_000770	P13584	CP4B1_HUMAN	cytochrome P450, family 4, subfamily B,	439					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					TCCAAACGCCATCCCTTTGCC	0.562													43	26	---	---	---	---	PASS	G	47283849	G	G	47283849	3	3	108	1	0	0	0	0	1	0	0	0	4185	217	8	5	1361	5	CYP4B1	1	47283849	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	1814475	47283849	201966772	30	39472										
ELAVL4	1996	broad.mit.edu	37	chr1	50642799	50642799	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gatttgttaactatattgatCcaaaggatgcagagaaagcc	9	6	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:50642799C>G	uc001csb.2	+	3	557	c.289C>G	c.(289-291)CCA>GCA	p.P97A	ELAVL4_uc001cry.3_Missense_Mutation_p.P100A|ELAVL4_uc001crz.3_Missense_Mutation_p.P97A|ELAVL4_uc001csa.3_Missense_Mutation_p.P114A|ELAVL4_uc001csc.3_Missense_Mutation_p.P97A|ELAVL4_uc009vyu.2_Missense_Mutation_p.P102A|ELAVL4_uc010omz.1_Missense_Mutation_p.P102A	NM_021952	NP_068771	P26378	ELAV4_HUMAN	ELAV-like 4 isoform 1	97	RRM 1.				mRNA processing		AU-rich element binding|mRNA 3'-UTR binding|nucleotide binding			ovary(1)|pancreas(1)	2						CTATATTGATCCAAAGGATGC	0.313													10	49	---	---	---	---	PASS	G	50642799	G	G	50642799	3	3	108	1	0	0	0	0	1	0	0	0	5052	855	30	2	398	2	ELAVL4	1	50642799	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3358950	50642799	198607822	31	39473										
C1orf168	199920	broad.mit.edu	37	chr1	57216842	57216842	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtgtggacgttggtcatcTgaattttttcaggtgtccct	11	8	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:57216842T>A	uc001cym.3	-	9	1668	c.1262A>T	c.(1261-1263)CAG>CTG	p.Q421L	C1orf168_uc009vzu.1_RNA|C1orf168_uc001cyl.2_RNA	NM_001004303	NP_001004303	Q5VWT5	CA168_HUMAN	hypothetical protein LOC199920	421										ovary(3)|skin(2)	5						GTTGGTCATCTGAATTTTTTC	0.458													6	33	---	---	---	---	PASS	A	57216842	A	A	57216842	3	1	108	1	0	0	0	0	1	0	0	0	2012	1580	55	5	972	5	C1orf168	1	57216842	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	6574043	57216842	192033779	32	39474										
EFCAB7	84455	broad.mit.edu	37	chr1	64034182	64034182	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctggataacgtcagttattGaaaacaaggtatcaattatg	8	6	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:64034182G>A	uc001dbf.2	+	12	1993	c.1699G>A	c.(1699-1701)GAA>AAA	p.E567K		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	567							calcium ion binding				0						GTCAGTTATTGAAAACAAGGT	0.333													10	17	---	---	---	---	PASS	A	64034182	A	A	64034182	3	1	108	1	0	0	0	0	1	0	0	0	4940	1291	45	2	1741	2	EFCAB7	1	64034182	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	6817340	64034182	185216439	33	39475										
SGIP1	84251	broad.mit.edu	37	chr1	67205146	67205146	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgacgactgctgtggccctCaacaatgtgcagttcctggt	11	11	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:67205146C>A	uc001dcr.2	+	22	2377	c.2160C>A	c.(2158-2160)CTC>CTA	p.L720L	SGIP1_uc010opd.1_Silent_p.L320L|SGIP1_uc001dcs.2_Silent_p.L320L|SGIP1_uc001dct.2_Silent_p.L322L|SGIP1_uc009wat.2_Silent_p.L514L|SGIP1_uc001dcu.2_Silent_p.L225L	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	720					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						CTGTGGCCCTCAACAATGTGC	0.527													23	34	---	---	---	---	PASS	A	67205146	A	A	67205146	2	1	108	1	0	0	0	0	0	0	0	1	14206	813	29	2		2	SGIP1	1	67205146	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	3170964	67205146	182045475	34	39476										
WDR78	79819	broad.mit.edu	37	chr1	67390477	67390477	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccaagctcctccgttagcgGctcgggccgaggctccggaa	13	16	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:67390477G>C	uc001dcx.2	-	1	94	c.38C>G	c.(37-39)GCC>GGC	p.A13G	WDR78_uc001dcy.2_Missense_Mutation_p.A13G|WDR78_uc001dcz.2_Missense_Mutation_p.A13G|MIER1_uc001dda.3_5'Flank|MIER1_uc010opf.1_5'Flank|MIER1_uc009way.2_5'Flank|MIER1_uc001ddc.2_5'Flank|MIER1_uc001ddh.2_5'Flank|MIER1_uc001ddf.2_5'Flank|MIER1_uc001ddg.2_5'Flank|MIER1_uc010opg.1_5'Flank|MIER1_uc001dde.2_5'Flank	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	13										ovary(2)	2						TCCGTTAGCGGCTCGGGCCGA	0.682													38	39	---	---	---	---	PASS	C	67390477	C	C	67390477	3	2	108	1	0	0	0	0	1	0	0	0	17325	1203	42	4	2633	4	WDR78	1	67390477	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	185331	67390477	181860144	35	39477										
LRRC7	57554	broad.mit.edu	37	chr1	70477575	70477575	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tagtcttcggacattagcagTtgatgagaatttccttccag	9	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:70477575T>C	uc001dep.2	+	10	1016	c.986T>C	c.(985-987)GTT>GCT	p.V329A	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	329	LRR 14.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						ACATTAGCAGTTGATGAGAAT	0.318													16	15	---	---	---	---	PASS	C	70477575	C	C	70477575	3	2	108	1	0	0	0	0	1	0	0	0	9020	1725	60	5	1024	5	LRRC7	1	70477575	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	3087098	70477575	178773046	36	39478										
NEGR1	257194	broad.mit.edu	37	chr1	72241934	72241934	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtaagagtgacgttggttccTtcattgacggtcatatcatt	10	7	3	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:72241934T>A	uc001dfw.2	-	3	556	c.456A>T	c.(454-456)GAA>GAT	p.E152D	NEGR1_uc001dfv.2_Missense_Mutation_p.E24D|NEGR1_uc010oqs.1_Missense_Mutation_p.E152D	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	152	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		CGTTGGTTCCTTCATTGACGG	0.383													17	20	---	---	---	---	PASS	A	72241934	A	A	72241934	3	1	108	1	0	0	0	0	1	0	0	0	10317	1606	56	5	628	5	NEGR1	1	72241934	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	1764359	72241934	177008687	37	39479										
LRRIQ3	127255	broad.mit.edu	37	chr1	74507259	74507259	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcattaacagctactctaacTctttctcgagcaacttgtgc	5	12	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:74507259T>C	uc001dfy.3	-	7	1548	c.1356A>G	c.(1354-1356)AGA>AGG	p.R452R	LRRIQ3_uc001dfz.3_Intron	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	452										ovary(2)	2						CTACTCTAACTCTTTCTCGAG	0.318													19	81	---	---	---	---	PASS	C	74507259	C	C	74507259	2	2	108	1	0	0	0	0	0	0	0	1	9030	1548	54	5		5	LRRIQ3	1	74507259	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	2265325	74507259	174743362	38	39480										
FPGT	8790	broad.mit.edu	37	chr1	74671168	74671168	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgcaagacaacttgaaaaaGagtgtgaaaacattgtcaga	10	5	1	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:74671168G>C	uc001dgb.1	+	4	1474	c.1437G>C	c.(1435-1437)AAG>AAC	p.K479N	TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron|FPGT_uc010oqt.1_Missense_Mutation_p.K104N|FPGT_uc010oqu.1_Missense_Mutation_p.K225N|FPGT_uc010oqv.1_Intron	NM_003838	NP_003829	O14772	FPGT_HUMAN	fucose-1-phosphate guanyltransferase	479					fucose metabolic process	cytoplasm	fucose-1-phosphate guanylyltransferase activity|GTP binding			skin(1)	1						ACTTGAAAAAGAGTGTGAAAA	0.363													4	46	---	---	---	---	PASS	C	74671168	C	C	74671168	3	2	108	1	0	0	0	0	1	0	0	0	6037	933	33	2	1451	2	FPGT	1	74671168	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	163909	74671168	174579453	39	39481										
MCOLN3	55283	broad.mit.edu	37	chr1	85486931	85486931	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	catttatcagagagaaaaggCactcagagaccatgttcaga	9	8	3	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:85486931C>A	uc001dkp.2	-	12	1442	c.1349G>T	c.(1348-1350)TGC>TTC	p.C450F	MCOLN3_uc001dko.2_Missense_Mutation_p.C69F|MCOLN3_uc001dkq.2_Missense_Mutation_p.C394F	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	450						integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		AGAGAAAAGGCACTCAGAGAC	0.373													30	43	---	---	---	---	PASS	A	85486931	A	A	85486931	3	1	108	1	0	0	0	0	1	0	0	0	9397	710	25	3	320	3	MCOLN3	1	85486931	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	10815763	85486931	163763690	40	39482										
COL24A1	255631	broad.mit.edu	37	chr1	86590593	86590593	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagcattgtatttagatcctCataataataataatcataaa	3	5	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:86590593C>T	uc001dlj.2	-	3	1468	c.1426G>A	c.(1426-1428)GAG>AAG	p.E476K	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.E476K	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	476					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)		TTTAGATCCTCATAATAATAA	0.338													23	19	---	---	---	---	PASS	T	86590593	T	T	86590593	3	4	108	1	0	0	0	0	1	0	0	0	3683	835	29	2	3950	2	COL24A1	1	86590593	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1103662	86590593	162660028	41	39483										
GBP4	115361	broad.mit.edu	37	chr1	89654377	89654377	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcctctcaaaatgctttctGtcaggtgctctgaaagccgc	8	12	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:89654377G>A	uc001dnb.2	-	8	1414	c.1298C>T	c.(1297-1299)ACA>ATA	p.T433I		NM_052941	NP_443173	Q96PP9	GBP4_HUMAN	guanylate binding protein 4	433						cytoplasm	GTP binding|GTPase activity				0				all cancers(265;0.00723)|Epithelial(280;0.0291)		AATGCTTTCTGTCAGGTGCTC	0.448													88	191	---	---	---	---	PASS	A	89654377	A	A	89654377	3	1	108	1	0	0	0	0	1	0	0	0	6276	1377	48	3	640	3	GBP4	1	89654377	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3063784	89654377	159596244	42	39484										
ABCA4	24	broad.mit.edu	37	chr1	94502704	94502704	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggaatctctactttacctcTtccaggggagtgtcagaaat	9	9	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:94502704T>A	uc001dqh.2	-	25	3914	c.3810A>T	c.(3808-3810)GAA>GAT	p.E1270D		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1270	Cytoplasmic.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		ACTTTACCTCTTCCAGGGGAG	0.453													72	81	---	---	---	---	PASS	A	94502704	A	A	94502704	3	1	108	1	0	0	0	0	1	0	0	0	34	1606	56	5	3115	5	ABCA4	1	94502704	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	4848327	94502704	154747917	43	39485										
LPPR4	9890	broad.mit.edu	37	chr1	99771402	99771402	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctcatacagaaggcatcctCaaccgaaaccacagagatgc	8	13	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:99771402C>T	uc001dse.2	+	7	1234	c.1128C>T	c.(1126-1128)CTC>CTT	p.L376L	LPPR4_uc010oue.1_Silent_p.L318L	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	376							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		AAGGCATCCTCAACCGAAACC	0.468													8	103	---	---	---	---	PASS	T	99771402	T	T	99771402	2	4	108	1	0	0	0	0	0	0	0	1	8927	813	29	2		2	LPPR4	1	99771402	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	5268698	99771402	149479219	44	39486										
OLFM3	118427	broad.mit.edu	37	chr1	102270177	102270177	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcccacagcccgatttcatCagccattaggtcgatgtcag	9	13	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:102270177C>T	uc001duf.2	-	6	1125	c.1054G>A	c.(1054-1056)GAT>AAT	p.D352N	OLFM3_uc001dug.2_Missense_Mutation_p.D332N|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_Missense_Mutation_p.D257N|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	352	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)		CCGATTTCATCAGCCATTAGG	0.478													24	29	---	---	---	---	PASS	T	102270177	T	T	102270177	3	4	108	1	0	0	0	0	1	0	0	0	10854	826	29	2	386	2	OLFM3	1	102270177	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2498775	102270177	146980444	45	39487										
OLFM3	118427	broad.mit.edu	37	chr1	102302551	102302551	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atcctgagctgagctgtacaCctgccacccttctttaggac	8	14	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:102302551C>A	uc001duf.2	-	2	231	c.160G>T	c.(160-162)GTG>TTG	p.V54L	OLFM3_uc001dug.2_Missense_Mutation_p.V34L|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_5'UTR|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	54						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)		GAGCTGTACACCTGCCACCCT	0.473													4	46	---	---	---	---	PASS	A	102302551	A	A	102302551	3	1	108	1	0	0	0	0	1	0	0	0	10854	507	18	3	1296	3	OLFM3	1	102302551	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	32374	102302551	146948070	46	39488										
COL11A1	1301	broad.mit.edu	37	chr1	103352543	103352543	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atctgcatctgcttgcatgcCttcagtatgtcttctcgttt	7	11	5	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:103352543C>A	uc001dul.2	-	63	4996	c.4678G>T	c.(4678-4680)GGC>TGC	p.G1560C	COL11A1_uc001duk.2_Missense_Mutation_p.G756C|COL11A1_uc001dum.2_Missense_Mutation_p.G1572C|COL11A1_uc001dun.2_Missense_Mutation_p.G1521C|COL11A1_uc009weh.2_Missense_Mutation_p.G1444C	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1560	Nonhelical region (C-terminal).				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GCTTGCATGCCTTCAGTATGT	0.393													15	86	---	---	---	---	PASS	A	103352543	A	A	103352543	3	1	108	1	0	0	0	0	1	0	0	0	3667	681	24	3	762	3	COL11A1	1	103352543	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1049992	103352543	145898078	47	39489										
COL11A1	1301	broad.mit.edu	37	chr1	103428220	103428220	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgttgtacctttgcaccttCttttcctgcagcaccaggaa	7	12	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:103428220C>T	uc001dul.2	-	39	3331	c.3013G>A	c.(3013-3015)GAA>AAA	p.E1005K	COL11A1_uc001duk.2_Missense_Mutation_p.E201K|COL11A1_uc001dum.2_Missense_Mutation_p.E1017K|COL11A1_uc001dun.2_Missense_Mutation_p.E966K|COL11A1_uc009weh.2_Missense_Mutation_p.E889K	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1005	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TTTGCACCTTCTTTTCCTGCA	0.468													7	29	---	---	---	---	PASS	T	103428220	T	T	103428220	3	4	108	1	0	0	0	0	1	0	0	0	3667	922	32	2	2523	2	COL11A1	1	103428220	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	75677	103428220	145822401	48	39490										
COL11A1	1301	broad.mit.edu	37	chr1	103453221	103453221	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgacctgaaggacctgggtCtccagttgggcctgctcgac	13	12	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:103453221C>A	uc001dul.2	-	30	2788	c.2470G>T	c.(2470-2472)GAC>TAC	p.D824Y	COL11A1_uc001duk.2_Missense_Mutation_p.E14D|COL11A1_uc001dum.2_Missense_Mutation_p.D836Y|COL11A1_uc001dun.2_Missense_Mutation_p.D785Y|COL11A1_uc009weh.2_Missense_Mutation_p.D708Y	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	824	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GGACCTGGGTCTCCAGTTGGG	0.453													14	52	---	---	---	---	PASS	A	103453221	A	A	103453221	3	1	108	1	0	0	0	0	1	0	0	0	3667	913	32	2	3102	2	COL11A1	1	103453221	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	25001	103453221	145797400	49	39491										
CELSR2	1952	broad.mit.edu	37	chr1	109803812	109803812	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccctactgccaggtgaccacGcgcagcttccccgcccactc	8	21	0	1	rs148583272		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:109803812G>T	uc001dxa.3	+	3	4168	c.4107G>T	c.(4105-4107)ACG>ACT	p.T1369T		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	1369	Extracellular (Potential).|Laminin G-like 1.				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		AGGTGACCACGCGCAGCTTCC	0.632													13	52	---	---	---	---	PASS	T	109803812	T	T	109803812	2	4	108	1	0	0	0	0	0	0	0	1	3222	1074	38	1		1	CELSR2	1	109803812	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	6350591	109803812	139446809	50	39492										
KCNA3	3738	broad.mit.edu	37	chr1	111216168	111216168	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaaacctgaagtggggtcgtCtgcctcggcaaagtagaccg	14	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:111216168C>T	uc001dzv.1	-	1	1488	c.1264G>A	c.(1264-1266)GAC>AAC	p.D422N		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	422						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)		GTGGGGTCGTCTGCCTCGGCA	0.557													24	39	---	---	---	---	PASS	T	111216168	T	T	111216168	3	4	108	1	0	0	0	0	1	0	0	0	8004	913	32	2	467	2	KCNA3	1	111216168	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1412356	111216168	138034453	51	39493										
RSBN1	54665	broad.mit.edu	37	chr1	114308797	114308797	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcttcagattcagtttttatCctcacacattgggagtcaac	6	10	5	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:114308797C>A	uc001edq.2	-	7	2250	c.2214G>T	c.(2212-2214)AGG>AGT	p.R738S	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	738						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CAGTTTTTATCCTCACACATT	0.413													26	57	---	---	---	---	PASS	A	114308797	A	A	114308797	3	1	108	1	0	0	0	0	1	0	0	0	13696	854	30	2	198	2	RSBN1	1	114308797	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3092629	114308797	134941824	52	39494										
RSBN1	54665	broad.mit.edu	37	chr1	114310948	114310948	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctctagtcctatcttcaaaGagaacttcgcggggttcact	9	11	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:114310948G>C	uc001edq.2	-	5	1758	c.1722C>G	c.(1720-1722)CTC>CTG	p.L574L	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	574						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TATCTTCAAAGAGAACTTCGC	0.438													13	76	---	---	---	---	PASS	C	114310948	C	C	114310948	2	2	108	1	0	0	0	0	0	0	0	1	13696	929	33	2		2	RSBN1	1	114310948	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2151	114310948	134939673	53	39495										
TRIM33	51592	broad.mit.edu	37	chr1	114970445	114970445	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgaagttcataacatgcttCacctgccgggaaaggcctgt	11	10	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:114970445C>T	uc001eew.2	-	7	1311	c.1227G>A	c.(1225-1227)GTG>GTA	p.V409V	TRIM33_uc010owr.1_Silent_p.V17V|TRIM33_uc010ows.1_Silent_p.V17V|TRIM33_uc001eex.2_Silent_p.V409V	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	409					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TAACATGCTTCACCTGCCGGG	0.433			T	RET	papillary thyroid								19	23	---	---	---	---	PASS	T	114970445	T	T	114970445	2	4	108	1	0	0	0	0	0	0	0	1	16504	813	29	2		2	TRIM33	1	114970445	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	659497	114970445	134280176	54	39496										
NOTCH2	4853	broad.mit.edu	37	chr1	120509091	120509091	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gacattcatttatttctaatTcacaatgcacacctttgaaa	3	9	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:120509091T>C	uc001eik.2	-	9	1731	c.1475A>G	c.(1474-1476)GAA>GGA	p.E492G	NOTCH2_uc001eil.2_Missense_Mutation_p.E492G|NOTCH2_uc001eim.3_Missense_Mutation_p.E409G	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	492	Extracellular (Potential).|EGF-like 12; calcium-binding (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TATTTCTAATTCACAATGCAC	0.418			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				28	59	---	---	---	---	PASS	C	120509091	C	C	120509091	3	2	108	1	0	0	0	0	1	0	0	0	10548	1783	62	5	6044	5	NOTCH2	1	120509091	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	5538646	120509091	128741530	55	39497										
HFE2	148738	broad.mit.edu	37	chr1	145415320	145415320	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccgctgcaatgctgagtacGtatcgtccactctgagcctt	9	13	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:145415320G>C	uc001eni.2	+	3	464	c.139G>C	c.(139-141)GTA>CTA	p.V47L	NBPF10_uc001emp.3_Intron|HFE2_uc001enj.2_Intron|HFE2_uc001enk.2_5'UTR|HFE2_uc001enl.2_Intron	NM_213653	NP_998818	Q6ZVN8	RGMC_HUMAN	hemojuvelin isoform a precursor	47					axon guidance	anchored to membrane				ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TGCTGAGTACGTATCGTCCAC	0.582													7	69	---	---	---	---	PASS	C	145415320	C	C	145415320	3	2	108	1	0	0	0	0	1	0	0	0	7082	1145	40	4	145	4	HFE2	1	145415320	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	24906229	145415320	103835301	56	39498										
BCL9	607	broad.mit.edu	37	chr1	147084987	147084987	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgggactccaaacgatgactCtgacattaaaggtatgtcta	9	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:147084987C>G	uc001epq.2	+	5	1099	c.359C>G	c.(358-360)TCT>TGT	p.S120C	BCL9_uc010ozr.1_Intron	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	120					Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					AACGATGACTCTGACATTAAA	0.498			T	IGH@|IGL@	B-ALL								10	35	---	---	---	---	PASS	G	147084987	G	G	147084987	3	3	108	1	0	0	0	0	1	0	0	0	1381	913	32	2	365	2	BCL9	1	147084987	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1669667	147084987	102165634	57	39499										
TCHHL1	126637	broad.mit.edu	37	chr1	152058373	152058373	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcaccaggtgttccctgcctCtgggtatctgggttattatt	10	10	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:152058373C>T	uc001ezo.1	-	3	1850	c.1785G>A	c.(1783-1785)CAG>CAA	p.Q595Q		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	595							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			TTCCCTGCCTCTGGGTATCTG	0.547													30	75	---	---	---	---	PASS	T	152058373	T	T	152058373	2	4	108	1	0	0	0	0	0	0	0	1	15698	912	32	2		2	TCHHL1	1	152058373	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	4973386	152058373	97192248	58	39500										
RPTN	126638	broad.mit.edu	37	chr1	152129161	152129161	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgggaatctccgtcttgtctCtcaggctgactgtggtggga	14	9	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:152129161C>T	uc001ezs.1	-	3	479	c.414G>A	c.(412-414)GAG>GAA	p.E138E		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	138	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						CGTCTTGTCTCTCAGGCTGAC	0.522													64	170	---	---	---	---	PASS	T	152129161	T	T	152129161	2	4	108	1	0	0	0	0	0	0	0	1	13664	912	32	2		2	RPTN	1	152129161	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	70788	152129161	97121460	59	39501										
SYT11	23208	broad.mit.edu	37	chr1	155838213	155838213	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctaggatccctcaccttctcAgtggactataacttcccgaa	6	14	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:155838213A>G	uc001fmg.2	+	2	755	c.492A>G	c.(490-492)TCA>TCG	p.S164S	SYT11_uc010pgq.1_Intron	NM_152280	NP_689493	Q9BT88	SYT11_HUMAN	synaptotagmin XI	164	Cytoplasmic (Potential).					cell junction|synaptic vesicle membrane	protein binding|transporter activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;0.000162)			TCACCTTCTCAGTGGACTATA	0.542													14	79	---	---	---	---	PASS	G	155838213	G	G	155838213	2	3	108	1	0	0	0	0	0	0	0	1	15464	175	7	5		5	SYT11	1	155838213	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	3709052	155838213	93412408	60	39502										
FCRL3	115352	broad.mit.edu	37	chr1	157665335	157665335	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcacagtgaagctccagcaGgtcccccaccacagtgtggg	11	15	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:157665335G>A	uc001frb.2	-	8	1487	c.1195C>T	c.(1195-1197)CTG>TTG	p.L399L	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Silent_p.L399L|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Silent_p.L125L|FCRL3_uc001frc.1_Silent_p.L399L	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	399	Ig-like C2-type 5.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					AGCTCCAGCAGGTCCCCCACC	0.587													20	47	---	---	---	---	PASS	A	157665335	A	A	157665335	2	1	108	1	0	0	0	0	0	0	0	1	5796	991	35	3		3	FCRL3	1	157665335	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1827122	157665335	91585286	61	39503										
OR10Z1	128368	broad.mit.edu	37	chr1	158576522	158576522	+	Silent	SNP	T	C	C													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atctcctatgtgggctgtgcTgcccagatgttcttttctgc							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:158576522T>C	uc010pio.1	+	1	294	c.294T>C	c.(292-294)GCT>GCC	p.A98A		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					TGGGCTGTGCTGCCCAGATGT	0.547													27	87	---	---	---	---	PASS	C	158576522	C	C	158576522	2	2	108	1	0	0	0	0	0	0	0	1	10923	1567	55	5		5	OR10Z1	1	158576522	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	911187	158576522	90674099	62	39504	739	2								
OR10Z1	128368	broad.mit.edu	37	chr1	158576523	158576523	+	Missense_Mutation	SNP	G	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctcctatgtgggctgtgctGcccagatgttcttttctgcc							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:158576523G>T	uc010pio.1	+	1	295	c.295G>T	c.(295-297)GCC>TCC	p.A99S		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	99	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					GGGCTGTGCTGCCCAGATGTT	0.547													27	85	---	---	---	---	PASS	T	158576523	T	T	158576523	3	4	108	1	0	0	0	0	1	0	0	0	10923	1319	46	3	297	3	OR10Z1	1	158576523	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1	158576523	90674098	63	39505	739	2								
SPTA1	6708	broad.mit.edu	37	chr1	158592826	158592826	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtctgtggactgccgaggCttccagcaactgttcccagc	11	14	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:158592826C>G	uc001fst.1	-	43	6266	c.6067G>C	c.(6067-6069)GCC>CCC	p.A2023P		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2023	Spectrin 19.				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)					ACTGCCGAGGCTTCCAGCAAC	0.458													42	155	---	---	---	---	PASS	G	158592826	G	G	158592826	3	3	108	1	0	0	0	0	1	0	0	0	15115	797	28	4	1232	4	SPTA1	1	158592826	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	16303	158592826	90657795	64	39506										
SPTA1	6708	broad.mit.edu	37	chr1	158615329	158615329	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tatgccagttaagtcttcggCcagctcctgtgatgatacca	9	11	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:158615329C>A	uc001fst.1	-	28	4151	c.3952G>T	c.(3952-3954)GCC>TCC	p.A1318S		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1318	Spectrin 13.				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)					AAGTCTTCGGCCAGCTCCTGT	0.433													16	109	---	---	---	---	PASS	A	158615329	A	A	158615329	3	1	108	1	0	0	0	0	1	0	0	0	15115	739	26	3	3407	3	SPTA1	1	158615329	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	22503	158615329	90635292	65	39507										
SPTA1	6708	broad.mit.edu	37	chr1	158624460	158624460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttcatggtgacttctcgggGgctgcgggcctggaagtcat	15	10	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:158624460G>T	uc001fst.1	-	21	3176	c.2977C>A	c.(2977-2979)CCC>ACC	p.P993T		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	993	SH3.				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)					ACTTCTCGGGGGCTGCGGGCC	0.473													9	31	---	---	---	---	PASS	T	158624460	T	T	158624460	3	4	108	1	0	0	0	0	1	0	0	0	15115	1232	43	3	4410	3	SPTA1	1	158624460	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	9131	158624460	90626161	66	39508										
SPTA1	6708	broad.mit.edu	37	chr1	158648259	158648259	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggagagccaaaccacgaagGcgctcccaggcagcattcac	11	14	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:158648259G>T	uc001fst.1	-	6	943	c.744C>A	c.(742-744)CGC>CGA	p.R248R		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	248	Spectrin 3.				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)					AACCACGAAGGCGCTCCCAGG	0.448													23	51	---	---	---	---	PASS	T	158648259	T	T	158648259	2	4	108	1	0	0	0	0	0	0	0	1	15115	1190	42	3		3	SPTA1	1	158648259	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	23799	158648259	90602362	67	39509										
OR6N2	81442	broad.mit.edu	37	chr1	158747070	158747070	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggccaggtatctatcatagGccatggctgtaagaaggtag	13	7	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:158747070G>T	uc010pir.1	-	1	356	c.356C>A	c.(355-357)GCC>GAC	p.A119D		NM_001005278	NP_001005278	Q8NGY6	OR6N2_HUMAN	olfactory receptor, family 6, subfamily N,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_hematologic(112;0.0378)					TCTATCATAGGCCATGGCTGT	0.498													17	84	---	---	---	---	PASS	T	158747070	T	T	158747070	3	4	108	1	0	0	0	0	1	0	0	0	11207	1203	42	3	600	3	OR6N2	1	158747070	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	98811	158747070	90503551	68	39510										
MNDA	4332	broad.mit.edu	37	chr1	158813875	158813875	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcatcccccactaccccagaCctcatcatcaactccatcca	1	21	4	1	rs148142374	byFrequency	TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:158813875C>A	uc001fsz.1	+	4	733	c.533C>A	c.(532-534)ACC>AAC	p.T178N		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	178					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					CTACCCCAGACCTCATCATCA	0.507													24	159	---	---	---	---	PASS	A	158813875	A	A	158813875	3	1	108	1	0	0	0	0	1	0	0	0	9676	507	18	3	543	3	MNDA	1	158813875	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	66805	158813875	90436746	69	39511										
ITLN2	142683	broad.mit.edu	37	chr1	160920953	160920953	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctggaccagcgatcacccacCgtgcacttcccacgcatgtc	8	18	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:160920953C>A	uc001fxd.2	-	4	379	c.321G>T	c.(319-321)ACG>ACT	p.T107T	ITLN2_uc009wts.2_Silent_p.T106T|ITLN2_uc010pju.1_Silent_p.T24T	NM_080878	NP_543154	Q8WWU7	ITLN2_HUMAN	intelectin 2 precursor	107	Fibrinogen C-terminal.				signal transduction	extracellular region	receptor binding|sugar binding			ovary(1)	1	all_cancers(52;2.99e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GATCACCCACCGTGCACTTCC	0.592													36	52	---	---	---	---	PASS	A	160920953	A	A	160920953	2	1	108	1	0	0	0	0	0	0	0	1	7911	639	23	1		1	ITLN2	1	160920953	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	2107078	160920953	88329668	70	39512										
OLFML2B	25903	broad.mit.edu	37	chr1	161967803	161967803	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccggaggagctggggctgctGgttgctgggtggctgtgtgg	22	7	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:161967803G>A	uc001gbu.2	-	6	1710	c.1286C>T	c.(1285-1287)CCA>CTA	p.P429L	OLFML2B_uc010pkq.1_Missense_Mutation_p.P430L	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	429										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			TGGGGCTGCTGGTTGCTGGGT	0.607													14	30	---	---	---	---	PASS	A	161967803	A	A	161967803	3	1	108	1	0	0	0	0	1	0	0	0	10858	1348	47	3	978	3	OLFML2B	1	161967803	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1046850	161967803	87282818	71	39513										
PBX1	5087	broad.mit.edu	37	chr1	164776878	164776878	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccagtgaggaagccaaagaGgagttagccaagaagtgtgg	15	7	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:164776878G>T	uc001gct.2	+	5	1059	c.801G>T	c.(799-801)GAG>GAT	p.E267D	PBX1_uc010pku.1_Missense_Mutation_p.E267D|PBX1_uc010pkv.1_Missense_Mutation_p.E184D|PBX1_uc001gcs.2_Missense_Mutation_p.E267D|PBX1_uc010pkw.1_Missense_Mutation_p.E157D	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	267	Homeobox; TALE-type.				negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						AAGCCAAAGAGGAGTTAGCCA	0.542			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								24	146	---	---	---	---	PASS	T	164776878	T	T	164776878	3	4	108	1	0	0	0	0	1	0	0	0	11492	991	35	3	819	3	PBX1	1	164776878	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2809075	164776878	84473743	72	39514										
ILDR2	387597	broad.mit.edu	37	chr1	166891994	166891994	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atctgatggaaagactggcgGaaattgctgtcctcctcatg	11	9	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:166891994G>A	uc001gdx.1	-	8	1103	c.1047C>T	c.(1045-1047)TTC>TTT	p.F349F		NM_199351	NP_955383	Q71H61	ILDR2_HUMAN	immunoglobulin-like domain containing receptor	349	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						AAGACTGGCGGAAATTGCTGT	0.488													32	99	---	---	---	---	PASS	A	166891994	A	A	166891994	2	1	108	1	0	0	0	0	0	0	0	1	7710	1165	41	2		2	ILDR2	1	166891994	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2115116	166891994	82358627	73	39515										
C1orf9	51430	broad.mit.edu	37	chr1	172520690	172520690	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgttgtaaagagagttcttCagcttcagcgtcatcatatt	8	7	5	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:172520690C>T	uc001giq.3	+	2	417	c.101C>T	c.(100-102)TCA>TTA	p.S34L	C1orf9_uc010pmm.1_Missense_Mutation_p.S34L|C1orf9_uc009wwd.2_Missense_Mutation_p.S34L|C1orf9_uc010pmn.1_Missense_Mutation_p.S34L|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	34					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		GAGAGTTCTTCAGCTTCAGCG	0.383													10	30	---	---	---	---	PASS	T	172520690	T	T	172520690	3	4	108	1	0	0	0	0	1	0	0	0	2067	838	29	2	107	2	C1orf9	1	172520690	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5628696	172520690	76729931	74	39516										
SLC9A11	284525	broad.mit.edu	37	chr1	173503744	173503744	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcataggataaatatatatcAaatttataatctgtcctgta	4	5	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:173503744A>C	uc001giz.2	-	16	2276	c.1853T>G	c.(1852-1854)TTG>TGG	p.L618W	SLC9A11_uc009wwe.2_Missense_Mutation_p.L176W|SLC9A11_uc010pmq.1_Intron	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	618	Helical; (Potential).				sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						AATATATATCAAATTTATAAT	0.254													6	11	---	---	---	---	PASS	C	173503744	C	C	173503744	3	2	108	1	0	0	0	0	1	0	0	0	14711	131	5	5	1573	5	SLC9A11	1	173503744	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	983054	173503744	75746877	75	39517										
SERPINC1	462	broad.mit.edu	37	chr1	173881102	173881102	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagttcagtttggcaaagaaGaagtggatctgatcagatgt	12	5	3	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:173881102G>C	uc001gjt.2	-	3	578	c.459C>G	c.(457-459)TTC>TTG	p.F153L		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	153			Missing (in AT3D; type-I).|Missing (in AT3D; type-I).		blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	TGGCAAAGAAGAAGTGGATCT	0.408													26	56	---	---	---	---	PASS	C	173881102	C	C	173881102	3	2	108	1	0	0	0	0	1	0	0	0	14109	933	33	2	955	2	SERPINC1	1	173881102	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	377358	173881102	75369519	76	39518										
TNR	7143	broad.mit.edu	37	chr1	175372675	175372675	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcaattcttgccaaaccagcCttcgttgcagatgcagccac	8	14	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:175372675C>A	uc001gkp.1	-	2	658	c.577G>T	c.(577-579)GGC>TGC	p.G193C	TNR_uc009wwu.1_Missense_Mutation_p.G193C|TNR_uc010pmz.1_Missense_Mutation_p.G193C	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	193	EGF-like 1.|Cys-rich.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CCAAACCAGCCTTCGTTGCAG	0.572													13	92	---	---	---	---	PASS	A	175372675	A	A	175372675	3	1	108	1	0	0	0	0	1	0	0	0	16335	681	24	3	3579	3	TNR	1	175372675	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1491573	175372675	73877946	77	39519										
TNR	7143	broad.mit.edu	37	chr1	175375662	175375662	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgtacacgtggttgaagacCacaggctgctctttgctgga	12	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:175375662C>A	uc001gkp.1	-	1	270	c.189G>T	c.(187-189)GTG>GTT	p.V63V	TNR_uc009wwu.1_Silent_p.V63V|TNR_uc010pmz.1_Silent_p.V63V	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	63					axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GGTTGAAGACCACAGGCTGCT	0.552													17	71	---	---	---	---	PASS	A	175375662	A	A	175375662	2	1	108	1	0	0	0	0	0	0	0	1	16335	581	21	3		3	TNR	1	175375662	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	2987	175375662	73874959	78	39520										
PAPPA2	60676	broad.mit.edu	37	chr1	176760590	176760590	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcagagctgaattctgtggaGtacaaatgtgaacaaggata	11	5	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:176760590G>T	uc001gkz.2	+	19	6156	c.4992G>T	c.(4990-4992)GAG>GAT	p.E1664D	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1664	Sushi 5.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						ATTCTGTGGAGTACAAATGTG	0.418													19	49	---	---	---	---	PASS	T	176760590	T	T	176760590	3	4	108	1	0	0	0	0	1	0	0	0	11433	1020	36	3	5115	3	PAPPA2	1	176760590	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1384928	176760590	72490031	79	39521										
CEP350	9857	broad.mit.edu	37	chr1	180062650	180062650	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgatgaaaagtaaggagcgCagtgatgtggagcatgaaca	14	5	0	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:180062650C>T	uc001gnt.2	+	34	7793	c.7410C>T	c.(7408-7410)CGC>CGT	p.R2470R	CEP350_uc009wxl.2_Silent_p.R2469R|CEP350_uc001gnv.2_Silent_p.R605R|CEP350_uc001gnw.1_Silent_p.R227R|CEP350_uc001gnx.1_Silent_p.R227R	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	2470						centrosome|nucleus|spindle				ovary(4)	4						GTAAGGAGCGCAGTGATGTGG	0.453													9	24	---	---	---	---	PASS	T	180062650	T	T	180062650	2	4	108	1	0	0	0	0	0	0	0	1	3254	697	25	3		3	CEP350	1	180062650	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	3302060	180062650	69187971	80	39522										
QSOX1	5768	broad.mit.edu	37	chr1	180163490	180163490	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aacgccgctgtcctctggctCtggtctagccacaacagggt	11	14	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:180163490C>T	uc001gnz.2	+	11	1506	c.1431C>T	c.(1429-1431)CTC>CTT	p.L477L	QSOX1_uc001gny.2_Silent_p.L477L|QSOX1_uc001goa.2_Silent_p.L477L|QSOX1_uc001goc.2_Silent_p.L19L	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	477	ERV/ALR sulfhydryl oxidase.				cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						TCCTCTGGCTCTGGTCTAGCC	0.612													7	20	---	---	---	---	PASS	T	180163490	T	T	180163490	2	4	108	1	0	0	0	0	0	0	0	1	12883	900	32	2		2	QSOX1	1	180163490	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	100840	180163490	69087131	81	39523										
CACNA1E	777	broad.mit.edu	37	chr1	181549846	181549846	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atcacccagtttgataacatCctttttgctgtgctgactgt	7	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:181549846C>A	uc001gow.2	+	6	1050	c.885C>A	c.(883-885)ATC>ATA	p.I295I	CACNA1E_uc009wxr.2_Silent_p.I202I|CACNA1E_uc009wxs.2_Silent_p.I202I	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	295	I.|Extracellular (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TTGATAACATCCTTTTTGCTG	0.547													12	62	---	---	---	---	PASS	A	181549846	A	A	181549846	2	1	108	1	0	0	0	0	0	0	0	1	2542	845	30	2		2	CACNA1E	1	181549846	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1386356	181549846	67700775	82	39524										
GLT25D2	23127	broad.mit.edu	37	chr1	183907946	183907946	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agggaggttggcggtggcagGgcctctgtgttcttggcatt	18	7	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:183907946G>A	uc001gqr.2	-	12	2202	c.1830C>T	c.(1828-1830)GCC>GCT	p.A610A	GLT25D2_uc010poj.1_Intron|GLT25D2_uc001gqp.2_Silent_p.A218A|GLT25D2_uc001gqq.2_Silent_p.A347A|GLT25D2_uc001gqs.2_Silent_p.A490A	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	610					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						GCGGTGGCAGGGCCTCTGTGT	0.562													17	38	---	---	---	---	PASS	A	183907946	A	A	183907946	2	1	108	1	0	0	0	0	0	0	0	1	6467	1219	43	3		3	GLT25D2	1	183907946	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2358100	183907946	65342675	83	39525										
HMCN1	83872	broad.mit.edu	37	chr1	186010270	186010270	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attgacctccgagtatatggTgagacattttagtaattaat	8	5	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:186010270T>C	uc001grq.1	+	40	6533	c.6304_splice	c.e40+2	p.V2102_splice		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor						response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GAGTATATGGTGAGACATTTT	0.408													13	58	---	---	---	---	PASS	C	186010270	C	C	186010270	5	2	108	1	0	0	0	0	0	0	1	0	7220	1710	59	5	6464	5	HMCN1	1	186010270	Splice_Site	SNP	T	TCGA-46-3769-01A-01D-0983-08	2102324	186010270	63240351	84	39526										
HMCN1	83872	broad.mit.edu	37	chr1	186099657	186099657	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agaacctccagtcttcaaagGtgattatccttctaactgga	7	10	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:186099657G>T	uc001grq.1	+	85	13287	c.13058G>T	c.(13057-13059)GGT>GTT	p.G4353V	HMCN1_uc001grs.1_5'UTR	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4353	Ig-like C2-type 43.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GTCTTCAAAGGTGATTATCCT	0.403													28	58	---	---	---	---	PASS	T	186099657	T	T	186099657	3	4	108	1	0	0	0	0	1	0	0	0	7220	1261	44	3	13396	3	HMCN1	1	186099657	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	89387	186099657	63150964	85	39527										
TPR	7175	broad.mit.edu	37	chr1	186326588	186326588	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccccaagctctctaagggcCactaagagacgttgattttg	9	11	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:186326588C>A	uc001grv.2	-	14	1962	c.1665G>T	c.(1663-1665)GTG>GTT	p.V555V	TPR_uc010pop.1_Silent_p.V631V	NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	555	Potential.				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)		CTCTAAGGGCCACTAAGAGAC	0.383			T	NTRK1	papillary thyroid								14	30	---	---	---	---	PASS	A	186326588	A	A	186326588	2	1	108	1	0	0	0	0	0	0	0	1	16413	581	21	3		3	TPR	1	186326588	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	226931	186326588	62924033	86	39528										
PLA2G4A	5321	broad.mit.edu	37	chr1	186925289	186925289	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agtgataatcaagcaagttgGattcatcgtatgataatggc	10	5	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:186925289G>T	uc001gsc.2	+	14	1597	c.1392G>T	c.(1390-1392)TGG>TGT	p.W464C	PLA2G4A_uc010pos.1_Missense_Mutation_p.W404C	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	464	PLA2c.				phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	AAGCAAGTTGGATTCATCGTA	0.408													5	34	---	---	---	---	PASS	T	186925289	T	T	186925289	3	4	108	1	0	0	0	0	1	0	0	0	12001	1183	41	2	1442	2	PLA2G4A	1	186925289	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	598701	186925289	62325332	87	39529										
TROVE2	6738	broad.mit.edu	37	chr1	193038214	193038214	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctgtaaaccaaatgcagccActgaatgagaagcagatagc	9	9	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:193038214A>T	uc001gss.2	+	2	205	c.30A>T	c.(28-30)CCA>CCT	p.P10P	TROVE2_uc001gst.1_Intron|TROVE2_uc001gsu.1_Intron|TROVE2_uc001gsv.1_Silent_p.P10P|TROVE2_uc001gsw.2_Silent_p.P10P|TROVE2_uc009wyp.2_Silent_p.P10P|TROVE2_uc009wyq.2_Silent_p.P10P|TROVE2_uc001gsx.1_Silent_p.P10P	NM_004600	NP_004591	P10155	RO60_HUMAN	TROVE domain family, member 2 isoform 2	10					transcription from RNA polymerase III promoter	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0						AAATGCAGCCACTGAATGAGA	0.378													7	31	---	---	---	---	PASS	T	193038214	T	T	193038214	2	4	108	1	0	0	0	0	0	0	0	1	16573	146	6	5		5	TROVE2	1	193038214	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	6112925	193038214	56212407	88	39530										
ASPM	259266	broad.mit.edu	37	chr1	197112698	197112698	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gttgcaccatggcattcattGaaagcagggctaataggtga	12	7	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:197112698G>A	uc001gtu.2	-	3	941	c.684C>T	c.(682-684)TTC>TTT	p.F228F	ASPM_uc001gtv.2_Silent_p.F228F|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	228					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GGCATTCATTGAAAGCAGGGC	0.393													19	53	---	---	---	---	PASS	A	197112698	A	A	197112698	2	1	108	1	0	0	0	0	0	0	0	1	1056	1281	45	2		2	ASPM	1	197112698	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	4074484	197112698	52137923	89	39531										
ZC3H11A	9877	broad.mit.edu	37	chr1	203798581	203798581	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgattttgtgcgtttagctGtgttgcccactgtgcctgag	12	9	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:203798581G>T	uc001hac.2	+	8	917	c.301G>T	c.(301-303)GTG>TTG	p.V101L	ZC3H11A_uc001had.2_Missense_Mutation_p.V101L|ZC3H11A_uc001hae.2_Missense_Mutation_p.V101L|ZC3H11A_uc001haf.2_Missense_Mutation_p.V101L|ZC3H11A_uc010pqm.1_Missense_Mutation_p.V47L|ZC3H11A_uc001hag.1_Missense_Mutation_p.V101L	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	101							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			GCGTTTAGCTGTGTTGCCCAC	0.418													13	57	---	---	---	---	PASS	T	203798581	T	T	203798581	3	4	108	1	0	0	0	0	1	0	0	0	17557	1377	48	3	315	3	ZC3H11A	1	203798581	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	6685883	203798581	45452040	90	39532										
PPP1R15B	84919	broad.mit.edu	37	chr1	204380249	204380249	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtagactccagcaaaatcTagccatctggtcggaaacat	8	11	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:204380249T>C	uc001hav.3	-	1	696	c.291A>G	c.(289-291)CTA>CTG	p.L97L		NM_032833	NP_116222	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	97					regulation of translation					ovary(1)|pancreas(1)	2	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			CAGCAAAATCTAGCCATCTGG	0.567													32	68	---	---	---	---	PASS	C	204380249	C	C	204380249	2	2	108	1	0	0	0	0	0	0	0	1	12364	1509	53	5		5	PPP1R15B	1	204380249	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	581668	204380249	44870372	91	39533										
LPGAT1	9926	broad.mit.edu	37	chr1	211952259	211952259	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtactaatatagaattcttaCctgtaatgtacatgtgtgac	7	6	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:211952259C>G	uc001hiu.2	-	6	1667	c.854_splice	c.e6+1	p.R285_splice	LPGAT1_uc001hiv.2_Splice_Site_p.R285_splice	NM_014873	NP_055688	Q92604	LGAT1_HUMAN	lysophosphatidylglycerol acyltransferase 1						phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.00773)|all cancers(67;0.0765)|Epithelial(68;0.114)		AGAATTCTTACCTGTAATGTA	0.318													10	76	---	---	---	---	PASS	G	211952259	G	G	211952259	5	3	108	1	0	0	0	0	0	0	1	0	8914	521	18	4	269	4	LPGAT1	1	211952259	Splice_Site	SNP	C	TCGA-46-3769-01A-01D-0983-08	7572010	211952259	37298362	92	39534										
CENPF	1063	broad.mit.edu	37	chr1	214805946	214805946	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agctgaggagaagcatggagGtaagggaggaggatgccgaa	19	4	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:214805946G>T	uc001hkm.2	+	10	1620	c.1446_splice	c.e10+1	p.E482_splice		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F						cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		AAGCATGGAGGTAAGGGAGGA	0.438													8	19	---	---	---	---	PASS	T	214805946	T	T	214805946	5	4	108	1	0	0	0	0	0	0	1	0	3231	1275	44	3	1481	3	CENPF	1	214805946	Splice_Site	SNP	G	TCGA-46-3769-01A-01D-0983-08	2853687	214805946	34444675	93	39535										
CENPF	1063	broad.mit.edu	37	chr1	214816281	214816281	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttgcagcagtctgcaggagGagaatctgaccaggaaagaa	13	7	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:214816281G>T	uc001hkm.2	+	12	4774	c.4600G>T	c.(4600-4602)GAG>TAG	p.E1534*		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	1630					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TCTGCAGGAGGAGAATCTGAC	0.498													8	52	---	---	---	---	PASS	T	214816281	T	T	214816281	4	4	108	1	0	0	0	0	0	1	0	0	3231	1175	41	2	4642	2	CENPF	1	214816281	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	10335	214816281	34434340	94	39536										
USH2A	7399	broad.mit.edu	37	chr1	215823956	215823956	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtctcagccccatgggcgCtgctggagaacagcctgtag	13	13	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:215823956C>T	uc001hku.1	-	65	14708	c.14321G>A	c.(14320-14322)AGC>AAC	p.S4774N		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4774	Fibronectin type-III 33.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CCCATGGGCGCTGCTGGAGAA	0.483										HNSCC(13;0.011)			9	83	---	---	---	---	PASS	T	215823956	T	T	215823956	3	4	108	1	0	0	0	0	1	0	0	0	17033	797	28	3	1319	3	USH2A	1	215823956	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1007675	215823956	33426665	95	39537										
USH2A	7399	broad.mit.edu	37	chr1	215901539	215901539	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcccaaggagctggaaaatCttgaggtggagcttccagag	14	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:215901539C>G	uc001hku.1	-	61	12286	c.11899G>C	c.(11899-11901)GAT>CAT	p.D3967H		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3967	Fibronectin type-III 25.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GCTGGAAAATCTTGAGGTGGA	0.483										HNSCC(13;0.011)			19	36	---	---	---	---	PASS	G	215901539	G	G	215901539	3	3	108	1	0	0	0	0	1	0	0	0	17033	913	32	2	3757	2	USH2A	1	215901539	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	77583	215901539	33349082	96	39538										
USH2A	7399	broad.mit.edu	37	chr1	215990448	215990448	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcactaacttttgagttttaGcgcatggataccatgttttc	8	8	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:215990448G>C	uc001hku.1	-	48	9848	c.9461C>G	c.(9460-9462)GCT>GGT	p.A3154G		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3154	Extracellular (Potential).|Fibronectin type-III 18.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTGAGTTTTAGCGCATGGATA	0.428										HNSCC(13;0.011)			25	41	---	---	---	---	PASS	C	215990448	C	C	215990448	3	2	108	1	0	0	0	0	1	0	0	0	17033	971	34	4	6247	4	USH2A	1	215990448	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	88909	215990448	33260173	97	39539										
USH2A	7399	broad.mit.edu	37	chr1	216052200	216052200	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agacaatgggccaacattctGaggtacggtggggtgagtgg	17	6	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:216052200G>C	uc001hku.1	-	42	8851	c.8464C>G	c.(8464-8466)CAG>GAG	p.Q2822E		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2822	Extracellular (Potential).|Fibronectin type-III 15.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CCAACATTCTGAGGTACGGTG	0.458										HNSCC(13;0.011)			23	67	---	---	---	---	PASS	C	216052200	C	C	216052200	3	2	108	1	0	0	0	0	1	0	0	0	17033	1299	45	2	7268	2	USH2A	1	216052200	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	61752	216052200	33198421	98	39540										
USH2A	7399	broad.mit.edu	37	chr1	216052283	216052283	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cattaccccctgagcaagcaAcaatggtgacagaataatta	7	10	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:216052283A>T	uc001hku.1	-	42	8768	c.8381T>A	c.(8380-8382)GTT>GAT	p.V2794D		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2794	Fibronectin type-III 14.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGAGCAAGCAACAATGGTGAC	0.458										HNSCC(13;0.011)			24	122	---	---	---	---	PASS	T	216052283	T	T	216052283	3	4	108	1	0	0	0	0	1	0	0	0	17033	43	2	5	7351	5	USH2A	1	216052283	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	83	216052283	33198338	99	39541										
USH2A	7399	broad.mit.edu	37	chr1	216363668	216363668	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctataaggtttcagtccttcTacagtgtaagatagttcttg	8	7	3	1	rs142068313		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:216363668T>A	uc001hku.1	-	20	4680	c.4293A>T	c.(4291-4293)GTA>GTT	p.V1431V	USH2A_uc001hkv.2_Silent_p.V1431V	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1431	Extracellular (Potential).|Fibronectin type-III 4.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TCAGTCCTTCTACAGTGTAAG	0.348										HNSCC(13;0.011)			14	42	---	---	---	---	PASS	A	216363668	A	A	216363668	2	1	108	1	0	0	0	0	0	0	0	1	17033	1509	53	5		5	USH2A	1	216363668	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	311385	216363668	32886953	100	39542										
USH2A	7399	broad.mit.edu	37	chr1	216595351	216595351	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagatcattcttgtctggtgTgatgcagctactgaggcctg	12	9	3	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:216595351T>C	uc001hku.1	-	2	715	c.328A>G	c.(328-330)ACA>GCA	p.T110A	USH2A_uc001hkv.2_Missense_Mutation_p.T110A	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	110	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTGTCTGGTGTGATGCAGCTA	0.453										HNSCC(13;0.011)			10	40	---	---	---	---	PASS	C	216595351	C	C	216595351	3	2	108	1	0	0	0	0	1	0	0	0	17033	1696	59	5	15578	5	USH2A	1	216595351	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	231683	216595351	32655270	101	39543										
RRP15	51018	broad.mit.edu	37	chr1	218458684	218458684	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agccgccgctccggactcacGtgtgagtgaggaagaaaacc	13	12	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:218458684G>T	uc001hlj.2	+	1	56	c.26G>T	c.(25-27)CGT>CTT	p.R9L		NM_016052	NP_057136	Q9Y3B9	RRP15_HUMAN	ribosomal RNA processing 15 homolog	9						mitochondrion|nucleolus	protein binding				0				all cancers(67;0.0315)|OV - Ovarian serous cystadenocarcinoma(81;0.0411)|GBM - Glioblastoma multiforme(131;0.06)|Epithelial(68;0.248)		CCGGACTCACGTGTGAGTGAG	0.547													3	20	---	---	---	---	PASS	T	218458684	T	T	218458684	3	4	108	1	0	0	0	0	1	0	0	0	13687	1145	40	1	28	1	RRP15	1	218458684	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1863333	218458684	30791937	102	39544										
EPRS	2058	broad.mit.edu	37	chr1	220152881	220152881	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gataggcaaattgcttctctCctggtatctttggatcttca	8	9	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:220152881C>A	uc001hly.1	-	27	4058	c.3788G>T	c.(3787-3789)GGA>GTA	p.G1263V		NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	1263	Prolyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	TTGCTTCTCTCCTGGTATCTT	0.388													11	63	---	---	---	---	PASS	A	220152881	A	A	220152881	3	1	108	1	0	0	0	0	1	0	0	0	5191	855	30	2	774	2	EPRS	1	220152881	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1694197	220152881	29097740	103	39545										
DUSP10	11221	broad.mit.edu	37	chr1	221912899	221912899	+	Missense_Mutation	SNP	G	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcgggcagagccgctggatGagggcatatacgtcagattc							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:221912899G>A	uc001hmy.1	-	2	370	c.188C>T	c.(187-189)TCA>TTA	p.S63L	DUSP10_uc001hmx.1_5'Flank|DUSP10_uc001hmz.1_Intron	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	63					inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		GCCGCTGGATGAGGGCATATA	0.587													10	51	---	---	---	---	PASS	A	221912899	A	A	221912899	3	1	108	1	0	0	0	0	1	0	0	0	4810	1294	45	2	1272	2	DUSP10	1	221912899	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1760018	221912899	27337722	104	39546	740	2								
DUSP10	11221	broad.mit.edu	37	chr1	221912900	221912900	+	Missense_Mutation	SNP	A	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcgggcagagccgctggatgAgggcatatacgtcagattcg							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:221912900A>T	uc001hmy.1	-	2	369	c.187T>A	c.(187-189)TCA>ACA	p.S63T	DUSP10_uc001hmx.1_5'Flank|DUSP10_uc001hmz.1_Intron	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	63					inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		CCGCTGGATGAGGGCATATAC	0.582													10	51	---	---	---	---	PASS	T	221912900	T	T	221912900	3	4	108	1	0	0	0	0	1	0	0	0	4810	304	11	5	1273	5	DUSP10	1	221912900	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	1	221912900	27337721	105	39547	740	2								
ACTA1	58	broad.mit.edu	37	chr1	229568800	229568800	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcgtcatccccggcgaagccGgctttcaccaggccggagcc	13	17	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:229568800G>C	uc001htm.2	-	2	168	c.63C>G	c.(61-63)GCC>GCG	p.A21A		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	21					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	CGGCGAAGCCGGCTTTCACCA	0.672													6	31	---	---	---	---	PASS	C	229568800	C	C	229568800	2	2	108	1	0	0	0	0	0	0	0	1	191	1103	39	4		4	ACTA1	1	229568800	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	7655900	229568800	19681821	106	39548										
DISC1	27185	broad.mit.edu	37	chr1	231885718	231885718	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gacctggaacaagagaaaatCagcctgcactttcaacttcc	7	12	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:231885718C>A	uc001huz.2	+	4	1217	c.1164C>A	c.(1162-1164)ATC>ATA	p.I388I	TSNAX-DISC1_uc010pwf.1_3'UTR|TSNAX-DISC1_uc010pwg.1_Silent_p.I377I|TSNAX-DISC1_uc010pwh.1_Silent_p.I343I|TSNAX-DISC1_uc010pwi.1_Silent_p.I343I|TSNAX-DISC1_uc010pwj.1_Silent_p.I377I|TSNAX-DISC1_uc010pwk.1_Silent_p.I377I|TSNAX-DISC1_uc010pwl.1_RNA|DISC1_uc010pwo.1_3'UTR|DISC1_uc010pwp.1_Silent_p.I388I|DISC1_uc010pwq.1_Silent_p.I388I|DISC1_uc010pwr.1_Silent_p.I388I|DISC1_uc010pws.1_Silent_p.I388I|DISC1_uc010pwt.1_Silent_p.I388I|DISC1_uc010pwu.1_Silent_p.I38I|DISC1_uc010pwv.1_RNA|DISC1_uc010pww.1_Silent_p.I388I|DISC1_uc010pwx.1_Intron|DISC1_uc010pwy.1_RNA|DISC1_uc010pwz.1_RNA|DISC1_uc010pxa.1_RNA|DISC1_uc001huy.2_Silent_p.I388I|DISC1_uc010pxb.1_Silent_p.I388I|DISC1_uc010pxc.1_Silent_p.I388I|DISC1_uc010pxd.1_Silent_p.I33I|DISC1_uc010pxe.1_Silent_p.I388I|DISC1_uc009xfr.2_Silent_p.I343I|DISC1_uc010pxf.1_Silent_p.I388I|DISC1_uc010pxg.1_Silent_p.I388I|DISC1_uc010pxh.1_Silent_p.I420I|DISC1_uc010pxi.1_Intron|DISC1_uc010pxj.1_Silent_p.I33I|DISC1_uc010pxk.1_RNA|DISC1_uc010pxl.1_RNA|DISC1_uc010pxm.1_Silent_p.I388I|DISC1_uc010pxn.1_Silent_p.I33I|DISC1_uc001hva.2_Silent_p.I388I	NM_018662	NP_061132	Q9NRI5	DISC1_HUMAN	disrupted in schizophrenia 1 isoform L	388	Interaction with TRAF3IP1.|Potential.				microtubule cytoskeleton organization|neuron migration|positive regulation of neuroblast proliferation|positive regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	centrosome|microtubule	protein binding			skin(1)	1		all_cancers(173;0.0208)|Prostate(94;0.0975)				AAGAGAAAATCAGCCTGCACT	0.483													32	53	---	---	---	---	PASS	A	231885718	A	A	231885718	2	1	108	1	0	0	0	0	0	0	0	1	4538	816	29	2		2	DISC1	1	231885718	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	2316918	231885718	17364903	107	39549										
SLC35F3	148641	broad.mit.edu	37	chr1	234041325	234041325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccggagactgtccgacatcaGcccccagctccggcagctca	10	18	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:234041325G>T	uc001hvy.1	+	2	249	c.104G>T	c.(103-105)AGC>ATC	p.S35I		NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	Error:Variant_position_missing_in_Q8IY50_after_alignment					transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			TCCGACATCAGCCCCCAGCTC	0.667													23	30	---	---	---	---	PASS	T	234041325	T	T	234041325	3	4	108	1	0	0	0	0	1	0	0	0	14590	971	34	3	110	3	SLC35F3	1	234041325	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2155607	234041325	15209296	108	39550										
TARBP1	6894	broad.mit.edu	37	chr1	234565935	234565935	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaaggaagctttccaggggcCcagcatggagagagtccagc	14	10	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:234565935C>A	uc001hwd.2	-	15	2507	c.2507G>T	c.(2506-2508)GGG>GTG	p.G836V		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	836					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			TTCCAGGGGCCCAGCATGGAG	0.572													22	102	---	---	---	---	PASS	A	234565935	A	A	234565935	3	1	108	1	0	0	0	0	1	0	0	0	15552	623	22	3	2422	3	TARBP1	1	234565935	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	524610	234565935	14684686	109	39551										
LGALS8	3964	broad.mit.edu	37	chr1	236702237	236702237	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcgagccgatgtggcctttCatttcaatcctcgtttcaaa	7	12	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:236702237C>A	uc001hxz.1	+	5	574	c.193C>A	c.(193-195)CAT>AAT	p.H65N	LGALS8_uc001hxw.1_Missense_Mutation_p.H65N|LGALS8_uc001hxy.1_Missense_Mutation_p.H65N|LGALS8_uc009xgg.1_RNA|LGALS8_uc001hya.1_Missense_Mutation_p.H65N|LGALS8_uc001hyb.1_Missense_Mutation_p.H65N|LGALS8_uc001hyc.1_Missense_Mutation_p.H65N	NM_201543	NP_963837	O00214	LEG8_HUMAN	galectin-8 isoform b	65	Galectin 1.					cytoplasm|extracellular space	sugar binding			ovary(1)	1	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.0253)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			TGTGGCCTTTCATTTCAATCC	0.478													12	31	---	---	---	---	PASS	A	236702237	A	A	236702237	3	1	108	1	0	0	0	0	1	0	0	0	8747	826	29	2	203	2	LGALS8	1	236702237	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2136302	236702237	12548384	110	39552										
LGALS8	3964	broad.mit.edu	37	chr1	236711372	236711372	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	taaatggcgtacacagcctgGagtacaaacacagatttaaa	8	8	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:236711372G>C	uc001hxz.1	+	11	1246	c.865G>C	c.(865-867)GAG>CAG	p.E289Q	LGALS8_uc001hxw.1_Missense_Mutation_p.E331Q|LGALS8_uc001hxy.1_Missense_Mutation_p.E331Q|LGALS8_uc009xgg.1_RNA|LGALS8_uc001hya.1_Missense_Mutation_p.E289Q|LGALS8_uc001hyb.1_Missense_Mutation_p.E289Q|LGALS8_uc001hyc.1_Missense_Mutation_p.E272Q	NM_201543	NP_963837	O00214	LEG8_HUMAN	galectin-8 isoform b	289	Galectin 2.					cytoplasm|extracellular space	sugar binding			ovary(1)	1	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.0253)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			ACACAGCCTGGAGTACAAACA	0.418													23	50	---	---	---	---	PASS	C	236711372	C	C	236711372	3	2	108	1	0	0	0	0	1	0	0	0	8747	1175	41	2	1029	2	LGALS8	1	236711372	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	9135	236711372	12539249	111	39553										
HEATR1	55127	broad.mit.edu	37	chr1	236751300	236751300	+	Missense_Mutation	SNP	C	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctatattatcatcacctaatCgggctaaaacagcttctttt							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:236751300C>A	uc001hyd.1	-	13	1699	c.1574G>T	c.(1573-1575)CGA>CTA	p.R525L		NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	525					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			ATCACCTAATCGGGCTAAAAC	0.328													8	38	---	---	---	---	PASS	A	236751300	A	A	236751300	3	1	108	1	0	0	0	0	1	0	0	0	7027	884	31	2	4992	2	HEATR1	1	236751300	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	39928	236751300	12499321	112	39554	741	2								
HEATR1	55127	broad.mit.edu	37	chr1	236751301	236751301	+	Nonsense_Mutation	SNP	G	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tatattatcatcacctaatcGggctaaaacagcttctttta							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:236751301G>A	uc001hyd.1	-	13	1698	c.1573C>T	c.(1573-1575)CGA>TGA	p.R525*		NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	525					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			TCACCTAATCGGGCTAAAACA	0.333													9	38	---	---	---	---	PASS	A	236751301	A	A	236751301	4	1	108	1	0	0	0	0	0	1	0	0	7027	1124	39	1	4993	1	HEATR1	1	236751301	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1	236751301	12499320	113	39555	741	2								
ACTN2	88	broad.mit.edu	37	chr1	236911049	236911049	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggaccgactgggaacgcttActcagaagaggagagaagcc	15	9	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:236911049A>G	uc001hyf.2	+	13	1693	c.1489A>G	c.(1489-1491)ACT>GCT	p.T497A	ACTN2_uc001hyg.2_Missense_Mutation_p.T289A|ACTN2_uc009xgi.1_Missense_Mutation_p.T497A|ACTN2_uc010pxu.1_Missense_Mutation_p.T186A|ACTN2_uc001hyh.2_Missense_Mutation_p.T185A	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	497	Spectrin 2.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GGGAACGCTTACTCAGAAGAG	0.398													13	35	---	---	---	---	PASS	G	236911049	G	G	236911049	3	3	108	1	0	0	0	0	1	0	0	0	205	391	14	5	1539	5	ACTN2	1	236911049	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	159748	236911049	12339572	114	39556										
RYR2	6262	broad.mit.edu	37	chr1	237617764	237617764	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tagagtccgtaagcctaagtCtgcaggatctcattggctac	10	10	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:237617764C>A	uc001hyl.1	+	15	1486	c.1366C>A	c.(1366-1368)CTG>ATG	p.L456M		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	456	Cytoplasmic (By similarity).				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)			AAGCCTAAGTCTGCAGGATCT	0.453													10	125	---	---	---	---	PASS	A	237617764	A	A	237617764	3	1	108	1	0	0	0	0	1	0	0	0	13769	912	32	2	1424	2	RYR2	1	237617764	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	706715	237617764	11632857	115	39557										
RYR2	6262	broad.mit.edu	37	chr1	237619941	237619941	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagtgcatagaccgtttgcaCgtctacagcagtgcagcaca	11	11	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:237619941C>G	uc001hyl.1	+	16	1638	c.1518C>G	c.(1516-1518)CAC>CAG	p.H506Q		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	506	Cytoplasmic (By similarity).				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)			ACCGTTTGCACGTCTACAGCA	0.433													62	112	---	---	---	---	PASS	G	237619941	G	G	237619941	3	3	108	1	0	0	0	0	1	0	0	0	13769	535	19	4	1580	4	RYR2	1	237619941	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2177	237619941	11630680	116	39558										
RYR2	6262	broad.mit.edu	37	chr1	237632437	237632437	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaactgtgctcaattttctgGctccctcgactggttgatca	8	11	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:237632437G>T	uc001hyl.1	+	17	1778	c.1658G>T	c.(1657-1659)GGC>GTC	p.G553V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	553	Cytoplasmic (By similarity).				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)			CAATTTTCTGGCTCCCTCGAC	0.373													10	77	---	---	---	---	PASS	T	237632437	T	T	237632437	3	4	108	1	0	0	0	0	1	0	0	0	13769	1203	42	3	1724	3	RYR2	1	237632437	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	12496	237632437	11618184	117	39559										
RYR2	6262	broad.mit.edu	37	chr1	237730076	237730076	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgcctttgatggcttcaagGtgagtggactttgtcctgtg	13	7	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:237730076G>T	uc001hyl.1	+	28	3543	c.3423_splice	c.e28+1	p.K1141_splice		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor						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)			TGGCTTCAAGGTGAGTGGACT	0.537													50	191	---	---	---	---	PASS	T	237730076	T	T	237730076	5	4	108	1	0	0	0	0	0	0	1	0	13769	1275	44	3	3534	3	RYR2	1	237730076	Splice_Site	SNP	G	TCGA-46-3769-01A-01D-0983-08	97639	237730076	11520545	118	39560										
RYR2	6262	broad.mit.edu	37	chr1	237778138	237778138	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aactgccagagccagttaaaTtgcaggtaatcagaacaaga	9	8	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:237778138T>C	uc001hyl.1	+	37	5830	c.5710T>C	c.(5710-5712)TTG>CTG	p.L1904L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1904	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GCCAGTTAAATTGCAGGTAAT	0.458													9	45	---	---	---	---	PASS	C	237778138	C	C	237778138	2	2	108	1	0	0	0	0	0	0	0	1	13769	1490	52	5		5	RYR2	1	237778138	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	48062	237778138	11472483	119	39561										
RYR2	6262	broad.mit.edu	37	chr1	237948232	237948232	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgggctcagtgacctcatgaGcaacccagtccccatgcctg	10	15	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:237948232G>C	uc001hyl.1	+	90	13340	c.13220G>C	c.(13219-13221)AGC>ACC	p.S4407T	RYR2_uc010pya.1_Missense_Mutation_p.S822T	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4407					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)			GACCTCATGAGCAACCCAGTC	0.458													7	34	---	---	---	---	PASS	C	237948232	C	C	237948232	3	2	108	1	0	0	0	0	1	0	0	0	13769	971	34	4	13578	4	RYR2	1	237948232	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	170094	237948232	11302389	120	39562										
RYR2	6262	broad.mit.edu	37	chr1	237955581	237955581	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atcttagctattctgcacacGgtcatttctttcttctgcat	5	11	6	0	rs115854664	by1000genomes	TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:237955581G>C	uc001hyl.1	+	94	13860	c.13740G>C	c.(13738-13740)ACG>ACC	p.T4580T	RYR2_uc010pyb.1_Silent_p.T13T	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4580	Helical; Name=M6; (Potential).				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)			TTCTGCACACGGTCATTTCTT	0.393													9	95	---	---	---	---	PASS	C	237955581	C	C	237955581	2	2	108	1	0	0	0	0	0	0	0	1	13769	1103	39	4		4	RYR2	1	237955581	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	7349	237955581	11295040	121	39563										
RYR2	6262	broad.mit.edu	37	chr1	237982461	237982461	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gacatcactttcttcttcttTgttattgtcattctcttggc	5	10	6	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:237982461T>G	uc001hyl.1	+	101	14679	c.14559T>G	c.(14557-14559)TTT>TTG	p.F4853L	RYR2_uc010pyb.1_Missense_Mutation_p.F286L	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4853	Helical; Name=M10; (Potential).				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)			TCTTCTTCTTTGTTATTGTCA	0.408													27	140	---	---	---	---	PASS	G	237982461	G	G	237982461	3	3	108	1	0	0	0	0	1	0	0	0	13769	1809	63	5	14961	5	RYR2	1	237982461	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	26880	237982461	11268160	122	39564										
ZP4	57829	broad.mit.edu	37	chr1	238050774	238050774	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtcattcctaagggccaagCgcacagaatccaagagcagt	10	11	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:238050774C>A	uc001hym.2	-	5	641	c.641G>T	c.(640-642)CGC>CTC	p.R214L	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	214	ZP.|Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			AAGGGCCAAGCGCACAGAATC	0.507													38	154	---	---	---	---	PASS	A	238050774	A	A	238050774	3	1	108	1	0	0	0	0	1	0	0	0	18215	768	27	1	1013	1	ZP4	1	238050774	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	68313	238050774	11199847	123	39565										
CEP170	9859	broad.mit.edu	37	chr1	243349566	243349566	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcagtttgacttacaacagCttggtcttgatgcttttcag	9	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:243349566C>A	uc001hzs.2	-	9	1675	c.1267G>T	c.(1267-1269)GCT>TCT	p.A423S	CEP170_uc001hzt.2_Missense_Mutation_p.A423S|CEP170_uc001hzu.2_Missense_Mutation_p.A423S	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	423						centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			CTTACAACAGCTTGGTCTTGA	0.413													31	172	---	---	---	---	PASS	A	243349566	A	A	243349566	3	1	108	1	0	0	0	0	1	0	0	0	3250	797	28	3	3565	3	CEP170	1	243349566	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5298792	243349566	5901055	124	39566										
SDCCAG8	10806	broad.mit.edu	37	chr1	243480191	243480191	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggaagccaattttgaaaaaaCcaaggcaagtctaataagat	8	6	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:243480191C>A	uc001hzw.2	+	9	1220	c.1064C>A	c.(1063-1065)ACC>AAC	p.T355N	SDCCAG8_uc010pyk.1_Missense_Mutation_p.T210N|SDCCAG8_uc010pyl.1_Missense_Mutation_p.T167N|SDCCAG8_uc001hzx.2_Missense_Mutation_p.T167N	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	355	Potential.|Sufficient for homodimerization (By similarity).				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		TTTGAAAAAACCAAGGCAAGT	0.328													34	32	---	---	---	---	PASS	A	243480191	A	A	243480191	3	1	108	1	0	0	0	0	1	0	0	0	13959	507	18	3	1098	3	SDCCAG8	1	243480191	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	130625	243480191	5770430	125	39567										
VN1R5	317705	broad.mit.edu	37	chr1	247419484	247419484	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aattttccttctaagatgatCaaacttcctggttttattac	4	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:247419484C>G	uc010pyu.1	+	1	111	c.111C>G	c.(109-111)ATC>ATG	p.I37M		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	37	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			CTAAGATGATCAAACTTCCTG	0.343													23	104	---	---	---	---	PASS	G	247419484	G	G	247419484	3	3	108	1	0	0	0	0	1	0	0	0	17178	816	29	2	113	2	VN1R5	1	247419484	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3939293	247419484	1831137	126	39568										
NLRP3	114548	broad.mit.edu	37	chr1	247582273	247582273	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gatctagccacgctaatgatCgacttcaatggggaggagaa	12	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:247582273C>A	uc001icr.2	+	3	315	c.177C>A	c.(175-177)ATC>ATA	p.I59I	NLRP3_uc001ics.2_Silent_p.I59I|NLRP3_uc001icu.2_Silent_p.I59I|NLRP3_uc001icw.2_Silent_p.I59I|NLRP3_uc001icv.2_Silent_p.I59I|NLRP3_uc010pyw.1_Silent_p.I57I|NLRP3_uc001ict.1_Silent_p.I57I	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	59	DAPIN.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding	p.I59M(1)		lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			CGCTAATGATCGACTTCAATG	0.547													11	35	---	---	---	---	PASS	A	247582273	A	A	247582273	2	1	108	1	0	0	0	0	0	0	0	1	10478	874	31	2		2	NLRP3	1	247582273	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	162789	247582273	1668348	127	39569										
OR6F1	343169	broad.mit.edu	37	chr1	247875361	247875361	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggagaaggctttgctccggcCactggcagaggggatcctga	16	10	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:247875361C>A	uc001idj.1	-	1	697	c.697G>T	c.(697-699)GGC>TGC	p.G233C		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	233	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TTGCTCCGGCCACTGGCAGAG	0.517													32	120	---	---	---	---	PASS	A	247875361	A	A	247875361	3	1	108	1	0	0	0	0	1	0	0	0	11201	594	21	3	233	3	OR6F1	1	247875361	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	293088	247875361	1375260	128	39570										
OR1C1	26188	broad.mit.edu	37	chr1	247920865	247920865	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaaaggattcagcatcggagCcaccattgaatacatgatgg	11	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:247920865C>G	uc010pza.1	-	1	844	c.844G>C	c.(844-846)GCT>CCT	p.A282P		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	282	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			AGCATCGGAGCCACCATTGAA	0.478													24	115	---	---	---	---	PASS	G	247920865	G	G	247920865	3	3	108	1	0	0	0	0	1	0	0	0	10952	739	26	4	102	4	OR1C1	1	247920865	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	45504	247920865	1329756	129	39571										
OR2L13	284521	broad.mit.edu	37	chr1	248263520	248263520	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtcttctacaccatccttacCcccatgctcaatcccattat	2	17	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:248263520C>A	uc001ids.2	+	3	1180	c.843C>A	c.(841-843)ACC>ACA	p.T281T		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	281	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			CCATCCTTACCCCCATGCTCA	0.463													15	82	---	---	---	---	PASS	A	248263520	A	A	248263520	2	1	108	1	0	0	0	0	0	0	0	1	11006	610	22	3		3	OR2L13	1	248263520	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	342655	248263520	987101	130	39572										
OR2T4	127074	broad.mit.edu	37	chr1	248525735	248525735	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtggtcatcctcttctatGgggctgccatctacacctac	8	14	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:248525735G>T	uc001ieh.1	+	1	853	c.853G>T	c.(853-855)GGG>TGG	p.G285W		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	285	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCTCTTCTATGGGGCTGCCAT	0.547													110	81	---	---	---	---	PASS	T	248525735	T	T	248525735	3	4	108	1	0	0	0	0	1	0	0	0	11027	1348	47	3	855	3	OR2T4	1	248525735	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	262215	248525735	724886	131	39573										
OR2T2	401992	broad.mit.edu	37	chr1	248616135	248616135	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttctccagaactccactaacTtcgtcctcacaggcctcatc	4	17	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:248616135T>G	uc001iek.1	+	1	37	c.37T>G	c.(37-39)TTC>GTC	p.F13V		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	13	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTCCACTAACTTCGTCCTCAC	0.502													14	149	---	---	---	---	PASS	G	248616135	G	G	248616135	3	3	108	1	0	0	0	0	1	0	0	0	11020	1609	56	5	39	5	OR2T2	1	248616135	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	90400	248616135	634486	132	39574										
OR2T3	343173	broad.mit.edu	37	chr1	248637586	248637586	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctgaggagcatgatgcagtCaagaatgaaccaagaaaagt	11	6	2	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:248637586C>A	uc001iel.1	+	1	935	c.935C>A	c.(934-936)TCA>TAA	p.S312*		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATGATGCAGTCAAGAATGAAC	0.478													35	297	---	---	---	---	PASS	A	248637586	A	A	248637586	4	1	108	1	0	0	0	0	0	1	0	0	11023	838	29	2	937	2	OR2T3	1	248637586	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	21451	248637586	613035	133	39575										
OR2G6	391211	broad.mit.edu	37	chr1	248685105	248685105	+	Missense_Mutation	SNP	C	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	actagtatgttgtctggactCcagactccacactccaatgt							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:248685105C>A	uc001ien.1	+	1	158	c.158C>A	c.(157-159)TCC>TAC	p.S53Y		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	53	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGTCTGGACTCCAGACTCCAC	0.483													5	75	---	---	---	---	PASS	A	248685105	A	A	248685105	3	1	108	1	0	0	0	0	1	0	0	0	11000	855	30	2	160	2	OR2G6	1	248685105	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	47519	248685105	565516	134	39576	742	3								
OR2G6	391211	broad.mit.edu	37	chr1	248685106	248685106	+	Silent	SNP	C	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctagtatgttgtctggactcCagactccacactccaatgta							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:248685106C>A	uc001ien.1	+	1	159	c.159C>A	c.(157-159)TCC>TCA	p.S53S		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	53	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GTCTGGACTCCAGACTCCACA	0.478													7	75	---	---	---	---	PASS	A	248685106	A	A	248685106	2	1	108	1	0	0	0	0	0	0	0	1	11000	581	21	3		3	OR2G6	1	248685106	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1	248685106	565515	135	39577	742	3								
OR2G6	391211	broad.mit.edu	37	chr1	248685110	248685110	+	Missense_Mutation	SNP	C	G	G													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tatgttgtctggactccagaCtccacactccaatgtacttc							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:248685110C>G	uc001ien.1	+	1	163	c.163C>G	c.(163-165)CTC>GTC	p.L55V		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGACTCCAGACTCCACACTCC	0.468													42	38	---	---	---	---	PASS	G	248685110	G	G	248685110	3	3	108	1	0	0	0	0	1	0	0	0	11000	565	20	4	165	4	OR2G6	1	248685110	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4	248685110	565511	136	39578	742	3								
OR2T10	127069	broad.mit.edu	37	chr1	248756222	248756222	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaatgataggattcaagacaGgtgtaaggatagtgtagaaa	12	2	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:248756222G>A	uc010pzn.1	-	1	848	c.848C>T	c.(847-849)CCT>CTT	p.P283L		NM_001004693	NP_001004693	Q8NGZ9	O2T10_HUMAN	olfactory receptor, family 2, subfamily T,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATTCAAGACAGGTGTAAGGAT	0.398													8	43	---	---	---	---	PASS	A	248756222	A	A	248756222	3	1	108	1	0	0	0	0	1	0	0	0	11017	1000	35	3	93	3	OR2T10	1	248756222	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	71112	248756222	494399	137	39579										
OR2T10	127069	broad.mit.edu	37	chr1	248756589	248756589	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggggaagctcatggcgatggGagtgagcatgaagccatcca	16	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:248756589G>T	uc010pzn.1	-	1	481	c.481C>A	c.(481-483)CCC>ACC	p.P161T		NM_001004693	NP_001004693	Q8NGZ9	O2T10_HUMAN	olfactory receptor, family 2, subfamily T,	161	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATGGCGATGGGAGTGAGCATG	0.537													14	150	---	---	---	---	PASS	T	248756589	T	T	248756589	3	4	108	1	0	0	0	0	1	0	0	0	11017	1174	41	2	460	2	OR2T10	1	248756589	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	367	248756589	494032	138	39580										
OR2T11	127077	broad.mit.edu	37	chr1	248790288	248790288	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggtgtggaggcgagagtccaCctgaatcaagaatatcatga	13	7	2	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr1:248790288C>T	uc001ier.1	-	1	142	c.142G>A	c.(142-144)GTG>ATG	p.V48M		NM_001001964	NP_001001964	Q8NH01	O2T11_HUMAN	olfactory receptor, family 2, subfamily T,	48	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CGAGAGTCCACCTGAATCAAG	0.498													19	87	---	---	---	---	PASS	T	248790288	T	T	248790288	3	4	108	1	0	0	0	0	1	0	0	0	11018	507	18	3	812	3	OR2T11	1	248790288	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	33699	248790288	460333	139	39581										
TMEM18	129787	broad.mit.edu	37	chr2	675608	675608	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggtggccagccccatgagcCagggctcagtccagtccgtc	13	15	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:675608C>A	uc002qwl.2	-	2	174	c.80G>T	c.(79-81)TGG>TTG	p.W27L	TMEM18_uc002qwk.2_RNA|uc002qwm.1_5'Flank	NM_152834	NP_690047	Q96B42	TMM18_HUMAN	transmembrane protein 18	27	Helical; (Potential).				cell migration	integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;5.27e-05)|all_epithelial(98;2.11e-06)|Ovarian(717;0.0253)		all cancers(51;1.95e-21)|Epithelial(75;9.47e-21)|OV - Ovarian serous cystadenocarcinoma(76;8.15e-18)|GBM - Glioblastoma multiforme(21;0.0285)		CCCCATGAGCCAGGGCTCAGT	0.612													4	25	---	---	---	---	PASS	A	675608	A	A	675608	3	1	108	1	0	0	0	0	1	0	0	0	16095	595	21	3	358	3	TMEM18	2	675608	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08		675608	242523765	140	39582										
MYT1L	23040	broad.mit.edu	37	chr2	1926494	1926494	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcatgttctgctgcggattCctctcctgcgggttggtctc	11	12	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:1926494C>T	uc002qxe.2	-	10	1874	c.1047G>A	c.(1045-1047)AGG>AGA	p.R349R	MYT1L_uc002qxd.2_Silent_p.R349R|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	349					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		GCTGCGGATTCCTCTCCTGCG	0.567													8	33	---	---	---	---	PASS	T	1926494	T	T	1926494	2	4	108	1	0	0	0	0	0	0	0	1	10107	854	30	2		2	MYT1L	2	1926494	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1250886	1926494	241272879	141	39583										
MYT1L	23040	broad.mit.edu	37	chr2	1927027	1927027	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agtattgtgacaattcatttGatggtcttctgcaaagaaaa	8	5	3	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:1927027G>A	uc002qxe.2	-	10	1341	c.514C>T	c.(514-516)CAA>TAA	p.Q172*	MYT1L_uc002qxd.2_Nonsense_Mutation_p.Q172*|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	172					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CAATTCATTTGATGGTCTTCT	0.313													4	12	---	---	---	---	PASS	A	1927027	A	A	1927027	4	1	108	1	0	0	0	0	0	1	0	0	10107	1299	45	2	3104	2	MYT1L	2	1927027	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	533	1927027	241272346	142	39584										
KCNS3	3790	broad.mit.edu	37	chr2	18113462	18113462	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgcatcatctgtggcatctTggtggtggcccttcccatca	10	12	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:18113462T>A	uc002rcv.2	+	3	1638	c.1187T>A	c.(1186-1188)TTG>TAG	p.L396*	KCNS3_uc002rcw.2_Nonsense_Mutation_p.L396*	NM_002252	NP_002243	Q9BQ31	KCNS3_HUMAN	potassium voltage-gated channel	396	Helical; Name=Segment S6; (Potential).				energy reserve metabolic process|regulation of insulin secretion	Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TGTGGCATCTTGGTGGTGGCC	0.532													7	48	---	---	---	---	PASS	A	18113462	A	A	18113462	4	1	108	1	0	0	0	0	0	1	0	0	8090	1821	63	5	1189	5	KCNS3	2	18113462	Nonsense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	16186435	18113462	225085911	143	39585										
NT5C1B	93034	broad.mit.edu	37	chr2	18765908	18765908	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggacagagagttgcggtccaGctgggtggaggcggggtaga	21	6	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:18765908G>A	uc002rcz.2	-	5	879	c.775C>T	c.(775-777)CTG>TTG	p.L259L	NT5C1B_uc002rcy.2_Silent_p.L259L|NT5C1B_uc010exr.2_Silent_p.L201L|NT5C1B_uc010yju.1_Silent_p.L199L|NT5C1B_uc002rda.2_Silent_p.L199L|NT5C1B_uc010yjv.1_Silent_p.L276L|NT5C1B_uc010yjw.1_Silent_p.L242L|NT5C1B_uc010exs.2_Silent_p.L261L|NT5C1B_uc002rdb.1_Silent_p.L51L	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	259					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				TTGCGGTCCAGCTGGGTGGAG	0.652													4	7	---	---	---	---	PASS	A	18765908	A	A	18765908	2	1	108	1	0	0	0	0	0	0	0	1	10686	962	34	3		3	NT5C1B	2	18765908	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	652446	18765908	224433465	144	39586										
APOB	338	broad.mit.edu	37	chr2	21234330	21234330	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gttggtgagatccagagcatTgtatttcaggtcactgttta	11	6	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:21234330T>C	uc002red.2	-	26	5538	c.5410A>G	c.(5410-5412)AAT>GAT	p.N1804D		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1804					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TCCAGAGCATTGTATTTCAGG	0.393													19	104	---	---	---	---	PASS	C	21234330	C	C	21234330	3	2	108	1	0	0	0	0	1	0	0	0	785	1812	63	5	8297	5	APOB	2	21234330	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	2468422	21234330	221965043	145	39587										
ADCY3	109	broad.mit.edu	37	chr2	25061456	25061456	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccacatcaaactcccctttcAggcagtccatggtgctctgg	8	15	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:25061456A>T	uc002rfs.3	-	7	1590	c.1391T>A	c.(1390-1392)CTG>CAG	p.L464Q	ADCY3_uc002rfr.3_Missense_Mutation_p.L97Q|ADCY3_uc010ykm.1_Missense_Mutation_p.L464Q	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	464	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					CTCCCCTTTCAGGCAGTCCAT	0.597													21	114	---	---	---	---	PASS	T	25061456	T	T	25061456	3	4	108	1	0	0	0	0	1	0	0	0	295	188	7	5	2103	5	ADCY3	2	25061456	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	3827126	25061456	218137917	146	39588										
HADHA	3030	broad.mit.edu	37	chr2	26424190	26424190	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcttcactttgtcattcaatCtagaaaaaacacattcctag	3	10	5	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:26424190C>G	uc002rgy.2	-	13	1351	c.1221_splice	c.e13-1	p.G407_splice	HADHA_uc010yks.1_Splice_Site_p.G320_splice	NM_000182	NP_000173	P40939	ECHA_HUMAN	mitochondrial trifunctional protein, alpha						fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)	GTCATTCAATCTAGAAAAAAC	0.259													8	33	---	---	---	---	PASS	G	26424190	G	G	26424190	5	3	108	1	0	0	0	0	0	0	1	0	6943	927	32	2	1103	2	HADHA	2	26424190	Splice_Site	SNP	C	TCGA-46-3769-01A-01D-0983-08	1362734	26424190	216775183	147	39589										
DPYSL5	56896	broad.mit.edu	37	chr2	27167686	27167686	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcacgaatccagcttcagcCtctctggtaagagtcagggg	11	11	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:27167686C>A	uc002rhu.3	+	12	1761	c.1603C>A	c.(1603-1605)CTC>ATC	p.L535I	DPYSL5_uc002rhv.3_Missense_Mutation_p.L535I	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	535					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGCTTCAGCCTCTCTGGTAA	0.607													11	28	---	---	---	---	PASS	A	27167686	A	A	27167686	3	1	108	1	0	0	0	0	1	0	0	0	4750	681	24	3	1645	3	DPYSL5	2	27167686	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	743496	27167686	216031687	148	39590										
GTF3C2	2976	broad.mit.edu	37	chr2	27552333	27552333	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agagctttaaggagccatcaGagagccgtatccgctgcagg	13	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:27552333G>C	uc002rjv.1	-	14	2153	c.1790C>G	c.(1789-1791)TCT>TGT	p.S597C	GTF3C2_uc010eyy.1_Missense_Mutation_p.S52C|GTF3C2_uc002rju.1_Missense_Mutation_p.S608C|GTF3C2_uc002rjw.1_Missense_Mutation_p.S597C	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	597						transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAGCCATCAGAGAGCCGTAT	0.493													29	139	---	---	---	---	PASS	C	27552333	C	C	27552333	3	2	108	1	0	0	0	0	1	0	0	0	6873	942	33	2	973	2	GTF3C2	2	27552333	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	384647	27552333	215647040	149	39591										
IFT172	26160	broad.mit.edu	37	chr2	27684180	27684180	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagggctgcagtgatgtgttCtaccagctctgtgttggcta	13	8	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:27684180C>G	uc002rku.2	-	22	2449	c.2398G>C	c.(2398-2400)GAA>CAA	p.E800Q		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	800					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					GTGATGTGTTCTACCAGCTCT	0.557													25	65	---	---	---	---	PASS	G	27684180	G	G	27684180	3	3	108	1	0	0	0	0	1	0	0	0	7557	922	32	2	2959	2	IFT172	2	27684180	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	131847	27684180	215515193	150	39592										
CAPN13	92291	broad.mit.edu	37	chr2	30998812	30998812	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtacccggaaacggaaaatgCcagcatactggtgtgaaaag	12	8	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:30998812C>G	uc002rnn.2	-	4	547	c.371G>C	c.(370-372)GGC>GCC	p.G124A	CAPN13_uc002rnp.1_Missense_Mutation_p.G124A	NM_144575	NP_653176	Q6MZZ7	CAN13_HUMAN	calpain 13	124	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			large_intestine(1)|ovary(1)	2	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					ACGGAAAATGCCAGCATACTG	0.512													11	60	---	---	---	---	PASS	G	30998812	G	G	30998812	3	3	108	1	0	0	0	0	1	0	0	0	2626	739	26	4	1714	4	CAPN13	2	30998812	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3314632	30998812	212200561	151	39593										
LTBP1	4052	broad.mit.edu	37	chr2	33500942	33500942	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtgggggccttccggtgtGaatactgtgacagcgggtac	16	9	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:33500942G>T	uc002ros.2	+	18	2947	c.2947G>T	c.(2947-2949)GAA>TAA	p.E983*	LTBP1_uc002rot.2_Nonsense_Mutation_p.E657*|LTBP1_uc002rou.2_Nonsense_Mutation_p.E656*|LTBP1_uc002rov.2_Nonsense_Mutation_p.E603*|LTBP1_uc010ymz.1_Nonsense_Mutation_p.E656*|LTBP1_uc010yna.1_Nonsense_Mutation_p.E603*	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	982	EGF-like 6; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CTTCCGGTGTGAATACTGTGA	0.557													9	63	---	---	---	---	PASS	T	33500942	T	T	33500942	4	4	108	1	0	0	0	0	0	1	0	0	9073	1291	45	2	3069	2	LTBP1	2	33500942	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2502130	33500942	209698431	152	39594										
VIT	5212	broad.mit.edu	37	chr2	37002155	37002155	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atcccctcaggtatccaaagGcaagatccttcaggagctgc	9	13	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:37002155G>A	uc002rpl.2	+	9	968	c.747G>A	c.(745-747)AGG>AGA	p.R249R	VIT_uc002rpm.2_Silent_p.R242R|VIT_uc010ezv.2_Intron|VIT_uc010ezw.2_Silent_p.R242R	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	249						proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				GTATCCAAAGGCAAGATCCTT	0.507													5	44	---	---	---	---	PASS	A	37002155	A	A	37002155	2	1	108	1	0	0	0	0	0	0	0	1	17168	1194	42	3		3	VIT	2	37002155	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	3501213	37002155	206197218	153	39595										
DHX57	90957	broad.mit.edu	37	chr2	39089399	39089399	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtcgggaacgagggaaggttCctgtccagctggccagtacc	15	11	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:39089399C>A	uc002rrf.2	-	4	559	c.460G>T	c.(460-462)GAA>TAA	p.E154*	DHX57_uc002rre.2_5'UTR|DHX57_uc002rrg.2_Nonsense_Mutation_p.E154*	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	154							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				AGGGAAGGTTCCTGTCCAGCT	0.498													6	39	---	---	---	---	PASS	A	39089399	A	A	39089399	4	1	108	1	0	0	0	0	0	1	0	0	4513	864	30	2	3784	2	DHX57	2	39089399	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2087244	39089399	204109974	154	39596										
SRBD1	55133	broad.mit.edu	37	chr2	45832512	45832512	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tatgcttacaactcagagaaTgaagaaaattcatctttcag	6	7	4	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:45832512T>A	uc002rus.2	-	2	145	c.69A>T	c.(67-69)TCA>TCT	p.S23S		NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	23					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			ACTCAGAGAATGAAGAAAATT	0.358													11	66	---	---	---	---	PASS	A	45832512	A	A	45832512	2	1	108	1	0	0	0	0	0	0	0	1	15132	1451	51	5		5	SRBD1	2	45832512	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	6743113	45832512	197366861	155	39597										
KLRAQ1	129285	broad.mit.edu	37	chr2	48713811	48713811	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaaaagctgcaatagagcatGaacttccaacagcaacacag	7	10	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:48713811G>C	uc002rwm.2	+	14	1545	c.1360G>C	c.(1360-1362)GAA>CAA	p.E454Q	KLRAQ1_uc002rwj.2_Missense_Mutation_p.E454Q|KLRAQ1_uc002rwl.2_Missense_Mutation_p.E408Q|KLRAQ1_uc002rwk.2_Missense_Mutation_p.E454Q|KLRAQ1_uc010yok.1_Missense_Mutation_p.E454Q	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	454										ovary(1)	1						AATAGAGCATGAACTTCCAAC	0.323													3	46	---	---	---	---	PASS	C	48713811	C	C	48713811	3	2	108	1	0	0	0	0	1	0	0	0	8413	1291	45	2	1414	2	KLRAQ1	2	48713811	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2881299	48713811	194485562	156	39598										
FSHR	2492	broad.mit.edu	37	chr2	49190184	49190184	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	accttgagggaggcagaaatGgcaaagaaagaaatgggtgc	15	5	0	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:49190184G>T	uc002rww.2	-	10	1850	c.1776C>A	c.(1774-1776)GCC>GCA	p.A592A	FSHR_uc002rwx.2_Silent_p.A530A|FSHR_uc010fbn.2_Silent_p.A566A	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	592	Helical; Name=6; (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	AGGCAGAAATGGCAAAGAAAG	0.527									Gonadal_Dysgenesis_46_XX				8	31	---	---	---	---	PASS	T	49190184	T	T	49190184	2	4	108	1	0	0	0	0	0	0	0	1	6073	1335	47	3		3	FSHR	2	49190184	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	476373	49190184	194009189	157	39599										
NRXN1	9378	broad.mit.edu	37	chr2	50699459	50699459	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cacatcctctctcgatctgtCcgttgcagaaaagagcatcg	8	13	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:50699459C>A	uc010fbq.2	-	16	4818	c.3341G>T	c.(3340-3342)GGA>GTA	p.G1114V	NRXN1_uc002rxb.3_Missense_Mutation_p.G746V|NRXN1_uc002rxe.3_Missense_Mutation_p.G1074V|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CTCGATCTGTCCGTTGCAGAA	0.438													9	34	---	---	---	---	PASS	A	50699459	A	A	50699459	3	1	108	1	0	0	0	0	1	0	0	0	10665	855	30	2	1597	2	NRXN1	2	50699459	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1509275	50699459	192499914	158	39600										
GPR75	10936	broad.mit.edu	37	chr2	54080608	54080608	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttggagataacatgtaggcaGagtttgtttcatgatgggag	14	3	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:54080608G>A	uc002rxo.3	-	2	1557	c.1286C>T	c.(1285-1287)TCT>TTT	p.S429F	ASB3_uc002rxi.3_Intron	NM_006794	NP_006785	O95800	GPR75_HUMAN	G protein-coupled receptor 75	429	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|skin(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			CATGTAGGCAGAGTTTGTTTC	0.448													41	60	---	---	---	---	PASS	A	54080608	A	A	54080608	3	1	108	1	0	0	0	0	1	0	0	0	6708	942	33	2	340	2	GPR75	2	54080608	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3381149	54080608	189118765	159	39601										
PAPOLG	64895	broad.mit.edu	37	chr2	61002258	61002258	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtcaaattatgggcaaaaCgtaagtatccctagtctttt	7	8	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:61002258C>T	uc002sai.2	+	8	925	c.694C>T	c.(694-696)CGA>TGA	p.R232*	PAPOLG_uc002saj.2_Translation_Start_Site|PAPOLG_uc002sak.2_Translation_Start_Site	NM_022894	NP_075045	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma	232					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(2;0.0797)		LUSC - Lung squamous cell carcinoma(5;1.19e-07)|Lung(5;2.86e-06)|Epithelial(17;0.0768)			ATGGGCAAAACGTAAGTATCC	0.318													6	21	---	---	---	---	PASS	T	61002258	T	T	61002258	4	4	108	1	0	0	0	0	0	1	0	0	11431	550	19	1	724	1	PAPOLG	2	61002258	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6921650	61002258	182197115	160	39602										
EHBP1	23301	broad.mit.edu	37	chr2	63176204	63176204	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agagatctagaccttgctaaGaaaaaacatgcttccctgag	8	9	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:63176204G>A	uc002sby.2	+	14	2810	c.2328G>A	c.(2326-2328)AAG>AAA	p.K776K	EHBP1_uc010fcp.2_Silent_p.K741K|EHBP1_uc002sbz.2_Silent_p.K741K|EHBP1_uc002scb.2_Silent_p.K741K	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	776						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			ACCTTGCTAAGAAAAAACATG	0.378									Hereditary_Prostate_Cancer				13	39	---	---	---	---	PASS	A	63176204	A	A	63176204	2	1	108	1	0	0	0	0	0	0	0	1	4975	933	33	2		2	EHBP1	2	63176204	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2173946	63176204	180023169	161	39603										
ARHGAP25	9938	broad.mit.edu	37	chr2	69046400	69046400	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcccgaagctctgtaggctgGgatgccactgaagacctccg	13	13	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:69046400G>T	uc002seu.2	+	9	1510	c.1146G>T	c.(1144-1146)TGG>TGT	p.W382C	ARHGAP25_uc010fdg.2_Missense_Mutation_p.W383C|ARHGAP25_uc010yql.1_Missense_Mutation_p.W343C|ARHGAP25_uc002sev.2_Missense_Mutation_p.W376C|ARHGAP25_uc002sew.2_Missense_Mutation_p.W375C|ARHGAP25_uc002sex.2_Missense_Mutation_p.W376C|ARHGAP25_uc002sey.2_Missense_Mutation_p.W109C	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	382					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						CTGTAGGCTGGGATGCCACTG	0.522													16	98	---	---	---	---	PASS	T	69046400	T	T	69046400	3	4	108	1	0	0	0	0	1	0	0	0	874	1241	43	3	1223	3	ARHGAP25	2	69046400	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	5870196	69046400	174152973	162	39604										
ANTXR1	84168	broad.mit.edu	37	chr2	69409643	69409643	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggttcgttggggagaaaagGgctccacagaagaaggtgct	16	6	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:69409643G>T	uc002sfg.2	+	16	1560	c.1204G>T	c.(1204-1206)GGC>TGC	p.G402C		NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	402	Cytoplasmic (Potential).				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						GGGAGAAAAGGGCTCCACAGA	0.413									Familial_Infantile_Hemangioma				27	45	---	---	---	---	PASS	T	69409643	T	T	69409643	3	4	108	1	0	0	0	0	1	0	0	0	711	1232	43	3	1343	3	ANTXR1	2	69409643	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	363243	69409643	173789730	163	39605										
ASPRV1	151516	broad.mit.edu	37	chr2	70187820	70187820	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctcctgccgcccttcttctGaggaggggtcctcctctatg	11	15	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:70187820G>C	uc002sfz.3	-	1	1578	c.1001C>G	c.(1000-1002)TCA>TGA	p.S334*		NM_152792	NP_690005	Q53RT3	APRV1_HUMAN	aspartic peptidase, retroviral-like 1 precursor	334	Extracellular (Potential).				protein maturation by peptide bond cleavage|skin development		aspartic-type endopeptidase activity			ovary(1)	1						CCCTTCTTCTGAGGAGGGGTC	0.552													17	97	---	---	---	---	PASS	C	70187820	C	C	70187820	4	2	108	1	0	0	0	0	0	1	0	0	1058	1294	45	2	34	2	ASPRV1	2	70187820	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	778177	70187820	173011553	164	39606										
MCEE	84693	broad.mit.edu	37	chr2	71351516	71351516	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acctgggcccccagaatattCttataaaatgctgcagcctt	7	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:71351516C>A	uc002shs.2	-	2	243	c.198G>T	c.(196-198)AAG>AAT	p.K66N		NM_032601	NP_115990	Q96PE7	MCEE_HUMAN	methylmalonyl CoA epimerase precursor	66					fatty acid beta-oxidation|L-methylmalonyl-CoA metabolic process	mitochondrial matrix	methylmalonyl-CoA epimerase activity			ovary(1)	1						CCAGAATATTCTTATAAAATG	0.478													16	119	---	---	---	---	PASS	A	71351516	A	A	71351516	3	1	108	1	0	0	0	0	1	0	0	0	9377	912	32	2	340	2	MCEE	2	71351516	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1163696	71351516	171847857	165	39607										
DYSF	8291	broad.mit.edu	37	chr2	71838380	71838380	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgctgtccactgcagtctgaGgacacagacctgccctaccc	9	16	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:71838380G>T	uc002sie.2	+	37	4285	c.3909G>T	c.(3907-3909)GAG>GAT	p.E1303D	DYSF_uc010feg.2_Missense_Mutation_p.E1334D|DYSF_uc010feh.2_Missense_Mutation_p.E1289D|DYSF_uc002sig.3_Missense_Mutation_p.E1289D|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.E1303D|DYSF_uc010fef.2_Missense_Mutation_p.E1320D|DYSF_uc010fei.2_Missense_Mutation_p.E1320D|DYSF_uc010fek.2_Missense_Mutation_p.E1321D|DYSF_uc010fej.2_Missense_Mutation_p.E1290D|DYSF_uc010fel.2_Missense_Mutation_p.E1290D|DYSF_uc010feo.2_Missense_Mutation_p.E1335D|DYSF_uc010fem.2_Missense_Mutation_p.E1304D|DYSF_uc010fen.2_Missense_Mutation_p.E1321D|DYSF_uc002sif.2_Missense_Mutation_p.E1304D|DYSF_uc010yqy.1_Missense_Mutation_p.E184D|DYSF_uc010yqz.1_Missense_Mutation_p.E43D	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1303	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						TGCAGTCTGAGGACACAGACC	0.403													7	26	---	---	---	---	PASS	T	71838380	T	T	71838380	3	4	108	1	0	0	0	0	1	0	0	0	4859	991	35	3	4247	3	DYSF	2	71838380	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	486864	71838380	171360993	166	39608										
CCT7	10574	broad.mit.edu	37	chr2	73476157	73476157	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gatgctgagtggaacattctCtatgacaagttagagaagat	11	5	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:73476157C>G	uc002siz.2	+	8	924	c.822C>G	c.(820-822)CTC>CTG	p.L274L	CCT7_uc002sja.2_Silent_p.L70L|CCT7_uc010yrf.1_Silent_p.L230L|CCT7_uc010feu.2_Silent_p.L232L|CCT7_uc010yrg.1_Silent_p.L174L|CCT7_uc010yrh.1_Silent_p.L146L|CCT7_uc010yri.1_Silent_p.L187L	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	274					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						GGAACATTCTCTATGACAAGT	0.468													20	35	---	---	---	---	PASS	G	73476157	G	G	73476157	2	3	108	1	0	0	0	0	0	0	0	1	2959	900	32	2		2	CCT7	2	73476157	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1637777	73476157	169723216	167	39609										
ACTG2	72	broad.mit.edu	37	chr2	74141957	74141957	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tatcaccattggcaatgagcGcttccgctgccctgagaccc	9	15	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:74141957G>T	uc002sjw.2	+	7	886	c.764G>T	c.(763-765)CGC>CTC	p.R255L	ACTG2_uc010fey.2_Missense_Mutation_p.R255L|ACTG2_uc010yrn.1_Missense_Mutation_p.R212L	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	255					muscle contraction	cytoskeleton|cytosol	ATP binding				0						GGCAATGAGCGCTTCCGCTGC	0.567													5	37	---	---	---	---	PASS	T	74141957	T	T	74141957	3	4	108	1	0	0	0	0	1	0	0	0	197	1087	38	1	786	1	ACTG2	2	74141957	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	665800	74141957	169057416	168	39610										
LRRTM4	80059	broad.mit.edu	37	chr2	77745792	77745792	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaccctggggaagggcttggTgtttcaaaggtggattgggt	17	5	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:77745792T>A	uc002snr.2	-	3	1618	c.1203A>T	c.(1201-1203)ACA>ACT	p.T401T	LRRTM4_uc002snq.2_Silent_p.T401T|LRRTM4_uc002sns.2_Silent_p.T401T|LRRTM4_uc002snt.2_Silent_p.T402T	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	401	Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		AAGGGCTTGGTGTTTCAAAGG	0.488													24	31	---	---	---	---	PASS	A	77745792	A	A	77745792	2	1	108	1	0	0	0	0	0	0	0	1	9042	1683	59	5		5	LRRTM4	2	77745792	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	3603835	77745792	165453581	169	39611										
REG1A	5967	broad.mit.edu	37	chr2	79347993	79347993	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcattgcagctcagcatggcTcagaccagctcatacttcat	7	13	5	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:79347993T>A	uc002snz.2	+	2	109	c.6T>A	c.(4-6)GCT>GCA	p.A2A	REG1A_uc010ffx.1_Silent_p.A2A|REG1A_uc010ysd.1_Silent_p.A2A	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	2					positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						TCAGCATGGCTCAGACCAGCT	0.463													8	25	---	---	---	---	PASS	A	79347993	A	A	79347993	2	1	108	1	0	0	0	0	0	0	0	1	13210	1538	54	5		5	REG1A	2	79347993	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	1602201	79347993	163851380	170	39612										
ZAP70	7535	broad.mit.edu	37	chr2	98351741	98351741	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcgacgtggccatcaaggtgCtgaagcagggcacggagaag	16	9	1	2	rs56202620		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:98351741C>A	uc002syd.1	+	10	1318	c.1111C>A	c.(1111-1113)CTG>ATG	p.L371M	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Missense_Mutation_p.L261M|ZAP70_uc002syf.1_Missense_Mutation_p.L64M	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	371	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						CATCAAGGTGCTGAAGCAGGG	0.672													8	62	---	---	---	---	PASS	A	98351741	A	A	98351741	3	1	108	1	0	0	0	0	1	0	0	0	17511	796	28	3	1141	3	ZAP70	2	98351741	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	19003748	98351741	144847632	171	39613										
MRPL30	51263	broad.mit.edu	37	chr2	99812039	99812039	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attttcttgtgtcacagaatCaagcccttgaagttgccaca	7	10	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:99812039C>G	uc002szu.2	+	6	519	c.357C>G	c.(355-357)ATC>ATG	p.I119M	MRPL30_uc002szl.1_RNA|MRPL30_uc002szt.1_RNA|MRPL30_uc002szv.2_Missense_Mutation_p.I119M	NM_145213	NP_660214	Q8TCC3	RM30_HUMAN	RecName: Full=39S ribosomal protein L30, mitochondrial;          Short=L30mt; AltName: Full=MRP-L30; AltName: Full=MRP-L28; Flags: Precursor;	119					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1						GTCACAGAATCAAGCCCTTGA	0.299													81	133	---	---	---	---	PASS	G	99812039	G	G	99812039	3	3	108	1	0	0	0	0	1	0	0	0	9794	816	29	2	375	2	MRPL30	2	99812039	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1460298	99812039	143387334	172	39614										
NPAS2	4862	broad.mit.edu	37	chr2	101592003	101592003	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccaagagttacctgtccccGggctcagccaggcagccacc	10	18	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:101592003G>T	uc002tap.1	+	14	1652	c.1366G>T	c.(1366-1368)GGG>TGG	p.G456W	NPAS2_uc010yvt.1_Missense_Mutation_p.G521W|NPAS2_uc010fit.1_Missense_Mutation_p.G34W	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	456					central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						ACCTGTCCCCGGGCTCAGCCA	0.617													15	36	---	---	---	---	PASS	T	101592003	T	T	101592003	3	4	108	1	0	0	0	0	1	0	0	0	10563	1116	39	1	1416	1	NPAS2	2	101592003	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1779964	101592003	141607370	173	39615										
SLC5A7	60482	broad.mit.edu	37	chr2	108618456	108618456	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtggctgggaactgttgactCatctgaagtctactcttggc	12	9	4	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:108618456C>T	uc002tdv.2	+	6	977	c.701C>T	c.(700-702)TCA>TTA	p.S234L	SLC5A7_uc010ywm.1_5'UTR|SLC5A7_uc010fjj.2_Missense_Mutation_p.S234L|SLC5A7_uc010ywn.1_Missense_Mutation_p.S121L	NM_021815	NP_068587	Q9GZV3	SC5A7_HUMAN	solute carrier family 5 (choline transporter),	234	Cytoplasmic (Potential).				acetylcholine biosynthetic process|neurotransmitter secretion	integral to membrane|plasma membrane	choline:sodium symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4					Choline(DB00122)	ACTGTTGACTCATCTGAAGTC	0.428													17	40	---	---	---	---	PASS	T	108618456	T	T	108618456	3	4	108	1	0	0	0	0	1	0	0	0	14670	838	29	2	719	2	SLC5A7	2	108618456	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	7026453	108618456	134580917	174	39616										
SLC5A7	60482	broad.mit.edu	37	chr2	108626752	108626752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtgtttggagcatctgcaaCagccatggccttgctgacga	12	10	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:108626752C>A	uc002tdv.2	+	9	1454	c.1178C>A	c.(1177-1179)ACA>AAA	p.T393K	SLC5A7_uc010ywm.1_Missense_Mutation_p.T146K|SLC5A7_uc010fjj.2_Missense_Mutation_p.T393K|SLC5A7_uc010ywn.1_Missense_Mutation_p.T280K	NM_021815	NP_068587	Q9GZV3	SC5A7_HUMAN	solute carrier family 5 (choline transporter),	393	Helical; (Potential).				acetylcholine biosynthetic process|neurotransmitter secretion	integral to membrane|plasma membrane	choline:sodium symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4					Choline(DB00122)	GCATCTGCAACAGCCATGGCC	0.458													16	33	---	---	---	---	PASS	A	108626752	A	A	108626752	3	1	108	1	0	0	0	0	1	0	0	0	14670	478	17	3	1208	3	SLC5A7	2	108626752	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	8296	108626752	134572621	175	39617										
SH3RF3	344558	broad.mit.edu	37	chr2	110049062	110049062	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtcaggatggctggttcaaGggggcgtctctgaggaccgg	18	8	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:110049062G>C	uc010ywt.1	+	6	1509	c.1509G>C	c.(1507-1509)AAG>AAC	p.K503N		NM_001099289	NP_001092759	Q8TEJ3	SH3R3_HUMAN	SH3 domain containing ring finger 3	503	SH3 3.						zinc ion binding			ovary(1)	1						GCTGGTTCAAGGGGGCGTCTC	0.617													10	20	---	---	---	---	PASS	C	110049062	C	C	110049062	3	2	108	1	0	0	0	0	1	0	0	0	14260	991	35	4	1531	4	SH3RF3	2	110049062	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1422310	110049062	133150311	176	39618										
CNTNAP5	129684	broad.mit.edu	37	chr2	124999952	124999952	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgcaactggaaacagtacaaAcaagaagacagcatctgggt	10	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:124999952A>T	uc002tno.2	+	3	727	c.363A>T	c.(361-363)AAA>AAT	p.K121N	CNTNAP5_uc010flu.2_Missense_Mutation_p.K121N	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	121	F5/8 type C.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		AACAGTACAAACAAGAAGACA	0.443													19	32	---	---	---	---	PASS	T	124999952	T	T	124999952	3	4	108	1	0	0	0	0	1	0	0	0	3650	40	2	5	373	5	CNTNAP5	2	124999952	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	14950890	124999952	118199421	177	39619										
CNTNAP5	129684	broad.mit.edu	37	chr2	125281886	125281886	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtttctcttgcaggcagcaActtgaatgatggcctgtggc	12	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:125281886A>C	uc002tno.2	+	9	1695	c.1331A>C	c.(1330-1332)AAC>ACC	p.N444T	CNTNAP5_uc010flu.2_Missense_Mutation_p.N445T	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	444	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GCAGGCAGCAACTTGAATGAT	0.557													21	23	---	---	---	---	PASS	C	125281886	C	C	125281886	3	2	108	1	0	0	0	0	1	0	0	0	3650	43	2	5	1365	5	CNTNAP5	2	125281886	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	281934	125281886	117917487	178	39620										
CNTNAP5	129684	broad.mit.edu	37	chr2	125530503	125530503	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagaggaacctcaaggagacCtccctgcaggtggacaacct	12	12	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:125530503C>A	uc002tno.2	+	17	3022	c.2658C>A	c.(2656-2658)ACC>ACA	p.T886T	CNTNAP5_uc010flu.2_Silent_p.T887T	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	886	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TCAAGGAGACCTCCCTGCAGG	0.547													34	35	---	---	---	---	PASS	A	125530503	A	A	125530503	2	1	108	1	0	0	0	0	0	0	0	1	3650	668	24	3		3	CNTNAP5	2	125530503	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	248617	125530503	117668870	179	39621										
CNTNAP5	129684	broad.mit.edu	37	chr2	125669111	125669111	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgaagtgattcggcagtcatCggaggtaaacaattcattgt	11	7	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:125669111C>T	uc002tno.2	+	23	4084	c.3720C>T	c.(3718-3720)ATC>ATT	p.I1240I	CNTNAP5_uc010flu.2_Silent_p.I1241I	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	1240	Helical; (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		CGGCAGTCATCGGAGGTAAAC	0.413													5	7	---	---	---	---	PASS	T	125669111	T	T	125669111	2	4	108	1	0	0	0	0	0	0	0	1	3650	874	31	2		2	CNTNAP5	2	125669111	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	138608	125669111	117530262	180	39622										
GPR148	344561	broad.mit.edu	37	chr2	131487661	131487661	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggtactcatgatgcttcccCgtgccatgctcacatacctg	8	14	2	1	rs147627830		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:131487661C>T	uc002trv.1	+	1	939	c.937C>T	c.(937-939)CGT>TGT	p.R313C		NM_207364	NP_997247	Q8TDV2	GP148_HUMAN	G protein-coupled receptor 148	313	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1	Colorectal(110;0.1)					GATGCTTCCCCGTGCCATGCT	0.587													33	23	---	---	---	---	PASS	T	131487661	T	T	131487661	3	4	108	1	0	0	0	0	1	0	0	0	6653	652	23	1	939	1	GPR148	2	131487661	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5818550	131487661	111711712	181	39623										
R3HDM1	23518	broad.mit.edu	37	chr2	136467716	136467716	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atcttgtgcccactcaccccCgcagtggaaacaaaacaaat	6	14	2	0	rs145608320		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:136467716C>T	uc002tuo.2	+	22	2916	c.2546C>T	c.(2545-2547)CCG>CTG	p.P849L	R3HDM1_uc010fni.2_Missense_Mutation_p.P848L|R3HDM1_uc002tup.2_Missense_Mutation_p.P794L|R3HDM1_uc010zbh.1_Missense_Mutation_p.P597L	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	849							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		CACTCACCCCCGCAGTGGAAA	0.468											OREG0014997	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	47	---	---	---	---	PASS	T	136467716	T	T	136467716	3	4	108	1	0	0	0	0	1	0	0	0	12887	652	23	1	2624	1	R3HDM1	2	136467716	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4980055	136467716	106731657	182	39624										
LRP1B	53353	broad.mit.edu	37	chr2	142004852	142004852	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	taggtagccttccacacaacTgcaagtgtaggatccatgtg	10	10	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:142004852T>A	uc002tvj.1	-	5	1507	c.535A>T	c.(535-537)AGT>TGT	p.S179C	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	179	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).				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)		TCCACACAACTGCAAGTGTAG	0.388										TSP Lung(27;0.18)			34	33	---	---	---	---	PASS	A	142004852	A	A	142004852	3	1	108	1	0	0	0	0	1	0	0	0	8955	1580	55	5	13612	5	LRP1B	2	142004852	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	5537136	142004852	101194521	183	39625										
EPC2	26122	broad.mit.edu	37	chr2	149539297	149539297	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcagcaacttgcccagcttcAgcagaaacagcaatctcagc	8	14	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:149539297A>T	uc010zbt.1	+	11	1832	c.1805A>T	c.(1804-1806)CAG>CTG	p.Q602L		NM_015630	NP_056445	Q52LR7	EPC2_HUMAN	enhancer of polycomb homolog 2	602	Gln-rich.				chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)|breast(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0516)		GCCCAGCTTCAGCAGAAACAG	0.433													8	124	---	---	---	---	PASS	T	149539297	T	T	149539297	3	4	108	1	0	0	0	0	1	0	0	0	5161	188	7	5	1847	5	EPC2	2	149539297	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	7534445	149539297	93660076	184	39626										
NEB	4703	broad.mit.edu	37	chr2	152374923	152374923	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctttactcttctcatacttcTtcttgtactggtactgaggg	7	10	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:152374923T>C	uc010fnx.2	-	128	17797	c.17606A>G	c.(17605-17607)AAG>AGG	p.K5869R	NEB_uc002txr.2_Missense_Mutation_p.K2292R|NEB_uc002txt.3_Missense_Mutation_p.K374R	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	5869	Nebulin 160.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CTCATACTTCTTCTTGTACTG	0.438													8	125	---	---	---	---	PASS	C	152374923	C	C	152374923	3	2	108	1	0	0	0	0	1	0	0	0	10302	1609	56	5	2976	5	NEB	2	152374923	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	2835626	152374923	90824450	185	39627										
TANC1	85461	broad.mit.edu	37	chr2	160031569	160031569	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccggtcccatcagctggccGcctacagagaccttctgata	10	15	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:160031569G>T	uc002uag.2	+	12	1883	c.1609G>T	c.(1609-1611)GCC>TCC	p.A537S	TANC1_uc010fol.1_Missense_Mutation_p.A431S|TANC1_uc010zcm.1_Missense_Mutation_p.A529S|TANC1_uc010fom.1_Missense_Mutation_p.A343S|TANC1_uc002uai.1_5'Flank	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	537						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						TCAGCTGGCCGCCTACAGAGA	0.592													5	130	---	---	---	---	PASS	T	160031569	T	T	160031569	3	4	108	1	0	0	0	0	1	0	0	0	15541	1087	38	1	1647	1	TANC1	2	160031569	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	7656646	160031569	83167804	186	39628										
TANC1	85461	broad.mit.edu	37	chr2	160076237	160076237	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctctagacaaagagggtctGtcagcattaagctgggcttg	12	8	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:160076237G>A	uc002uag.2	+	22	3811	c.3537G>A	c.(3535-3537)CTG>CTA	p.L1179L	TANC1_uc010zcm.1_Silent_p.L1171L|TANC1_uc010fom.1_Silent_p.L985L|TANC1_uc010fon.2_Silent_p.L23L	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1179	ANK 9.					cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						AAGAGGGTCTGTCAGCATTAA	0.468													26	17	---	---	---	---	PASS	A	160076237	A	A	160076237	2	1	108	1	0	0	0	0	0	0	0	1	15541	1364	48	3		3	TANC1	2	160076237	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	44668	160076237	83123136	187	39629										
SLC4A10	57282	broad.mit.edu	37	chr2	162760565	162760565	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agaaaagctccatacttctgGagtgacttcagagatgcttt	9	8	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:162760565G>T	uc002ubx.3	+	13	1678	c.1494G>T	c.(1492-1494)TGG>TGT	p.W498C	SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.W468C|SLC4A10_uc010zcs.1_Missense_Mutation_p.W479C	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	498	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						CATACTTCTGGAGTGACTTCA	0.418													8	7	---	---	---	---	PASS	T	162760565	T	T	162760565	3	4	108	1	0	0	0	0	1	0	0	0	14651	1183	41	2	1629	2	SLC4A10	2	162760565	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2684328	162760565	80438808	188	39630										
DPP4	1803	broad.mit.edu	37	chr2	162873370	162873370	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgaattgtcttccaggactCtcagccctaaagaaatacag	7	11	2	2	rs17848907		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:162873370C>G	uc002ubz.2	-	18	2036	c.1475G>C	c.(1474-1476)AGA>ACA	p.R492T	DPP4_uc010fpb.2_Missense_Mutation_p.R168T	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	492	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	TTCCAGGACTCTCAGCCCTAA	0.368													5	34	---	---	---	---	PASS	G	162873370	G	G	162873370	3	3	108	1	0	0	0	0	1	0	0	0	4729	913	32	2	861	2	DPP4	2	162873370	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	112805	162873370	80326003	189	39631										
XIRP2	129446	broad.mit.edu	37	chr2	168101798	168101798	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctatatcagcaccaagaaaaCaattactgaagaagtaatac	5	8	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:168101798C>T	uc002udx.2	+	8	3914	c.3896C>T	c.(3895-3897)ACA>ATA	p.T1299I	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.T1124I|XIRP2_uc010fpq.2_Missense_Mutation_p.T1077I|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1124					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ACCAAGAAAACAATTACTGAA	0.378													15	59	---	---	---	---	PASS	T	168101798	T	T	168101798	3	4	108	1	0	0	0	0	1	0	0	0	17427	478	17	3	3926	3	XIRP2	2	168101798	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5228428	168101798	75097575	190	39632										
XIRP2	129446	broad.mit.edu	37	chr2	168102608	168102608	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaaagttatccaggctcctgGaatcatcattgaagctgatg	9	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:168102608G>T	uc002udx.2	+	8	4724	c.4706G>T	c.(4705-4707)GGA>GTA	p.G1569V	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.G1394V|XIRP2_uc010fpq.2_Missense_Mutation_p.G1347V|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1394					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CAGGCTCCTGGAATCATCATT	0.353													6	48	---	---	---	---	PASS	T	168102608	T	T	168102608	3	4	108	1	0	0	0	0	1	0	0	0	17427	1174	41	2	4736	2	XIRP2	2	168102608	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	810	168102608	75096765	191	39633										
XIRP2	129446	broad.mit.edu	37	chr2	168106535	168106535	+	Missense_Mutation	SNP	A	G	G													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aacacaaatacagaccgctgAaagtaaagctgaacataaaa							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:168106535A>G	uc002udx.2	+	8	8651	c.8633A>G	c.(8632-8634)GAA>GGA	p.E2878G	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E2703G|XIRP2_uc010fpq.2_Missense_Mutation_p.E2656G|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.E224G	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2703					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CAGACCGCTGAAAGTAAAGCT	0.388													8	106	---	---	---	---	PASS	G	168106535	G	G	168106535	3	3	108	1	0	0	0	0	1	0	0	0	17427	246	9	5	8663	5	XIRP2	2	168106535	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	3927	168106535	75092838	192	39634	743	2								
XIRP2	129446	broad.mit.edu	37	chr2	168106537	168106537	+	Missense_Mutation	SNP	A	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cacaaatacagaccgctgaaAgtaaagctgaacataaaaaa							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:168106537A>T	uc002udx.2	+	8	8653	c.8635A>T	c.(8635-8637)AGT>TGT	p.S2879C	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.S2704C|XIRP2_uc010fpq.2_Missense_Mutation_p.S2657C|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.S225C	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2704					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GACCGCTGAAAGTAAAGCTGA	0.388													8	104	---	---	---	---	PASS	T	168106537	T	T	168106537	3	4	108	1	0	0	0	0	1	0	0	0	17427	72	3	5	8665	5	XIRP2	2	168106537	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	2	168106537	75092836	193	39635	743	2								
ABCB11	8647	broad.mit.edu	37	chr2	169814626	169814626	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcaacttcttcctgcacagGaatgtccttgtccttgagca	7	12	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:169814626G>T	uc002ueo.1	-	19	2317	c.2191C>A	c.(2191-2193)CCT>ACT	p.P731T	ABCB11_uc010zda.1_Missense_Mutation_p.P173T|ABCB11_uc010zdb.1_Missense_Mutation_p.P207T	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	731	Cytoplasmic (Potential).				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	TCCTGCACAGGAATGTCCTTG	0.383													28	33	---	---	---	---	PASS	T	169814626	T	T	169814626	3	4	108	1	0	0	0	0	1	0	0	0	42	1174	41	2	1814	2	ABCB11	2	169814626	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1708089	169814626	73384747	194	39636										
LRP2	4036	broad.mit.edu	37	chr2	170062925	170062925	+	Silent	SNP	G	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccagaggctaaattttgtgtGaagtagattctatcacttac							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:170062925G>A	uc002ues.2	-	39	7518	c.7305C>T	c.(7303-7305)TTC>TTT	p.F2435F		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2435	LDL-receptor class B 25.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AATTTTGTGTGAAGTAGATTC	0.433													6	42	---	---	---	---	PASS	A	170062925	A	A	170062925	2	1	108	1	0	0	0	0	0	0	0	1	8956	1281	45	2		2	LRP2	2	170062925	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	248299	170062925	73136448	195	39637	744	2								
LRP2	4036	broad.mit.edu	37	chr2	170062926	170062926	+	Missense_Mutation	SNP	A	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagaggctaaattttgtgtgAagtagattctatcacttaca							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:170062926A>T	uc002ues.2	-	39	7517	c.7304T>A	c.(7303-7305)TTC>TAC	p.F2435Y		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2435	LDL-receptor class B 25.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ATTTTGTGTGAAGTAGATTCT	0.433													6	43	---	---	---	---	PASS	T	170062926	T	T	170062926	3	4	108	1	0	0	0	0	1	0	0	0	8956	246	9	5	6827	5	LRP2	2	170062926	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	1	170062926	73136447	196	39638	744	2								
GAD1	2571	broad.mit.edu	37	chr2	171709293	171709293	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagtgctctgccattctcgtCaaggaaaaggtctgtactcc	9	12	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:171709293C>A	uc002ugi.2	+	13	1676	c.1254C>A	c.(1252-1254)GTC>GTA	p.V418V	GAD1_uc010fqc.2_Silent_p.V37V	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	418					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CCATTCTCGTCAAGGAAAAGG	0.507													21	37	---	---	---	---	PASS	A	171709293	A	A	171709293	2	1	108	1	0	0	0	0	0	0	0	1	6179	813	29	2		2	GAD1	2	171709293	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1646367	171709293	71490080	197	39639										
SLC25A12	8604	broad.mit.edu	37	chr2	172712451	172712451	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgccaaaaactcttgatagGagatcaacctggaataaaat	7	7	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:172712451G>C	uc002uhh.2	-	4	307	c.218C>G	c.(217-219)TCC>TGC	p.S73C	SLC25A12_uc010fqh.2_Intron|SLC25A12_uc010zdv.1_RNA	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12	73	1.|EF-hand 1.				gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)		L-Aspartic Acid(DB00128)	CTCTTGATAGGAGATCAACCT	0.259													26	107	---	---	---	---	PASS	C	172712451	C	C	172712451	3	2	108	1	0	0	0	0	1	0	0	0	14474	1174	41	2	1878	2	SLC25A12	2	172712451	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1003158	172712451	70486922	198	39640										
CHN1	1123	broad.mit.edu	37	chr2	175665003	175665003	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcataagattctccttttcGtggagggtcactctgaaaaa	8	8	4	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:175665003G>T	uc002uji.2	-	13	1751	c.1221C>A	c.(1219-1221)CAC>CAA	p.H407Q	CHN1_uc010zeq.1_Missense_Mutation_p.H381Q|CHN1_uc002ujj.2_Missense_Mutation_p.H182Q|CHN1_uc002ujg.2_Missense_Mutation_p.H282Q	NM_001822	NP_001813	P15882	CHIN_HUMAN	chimerin (chimaerin) 1 isoform a	407	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.226)			TCTCCTTTTCGTGGAGGGTCA	0.403			T	TAF15	extraskeletal myxoid chondrosarcoma								5	122	---	---	---	---	PASS	T	175665003	T	T	175665003	3	4	108	1	0	0	0	0	1	0	0	0	3362	1136	40	1	162	1	CHN1	2	175665003	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2952552	175665003	67534370	199	39641										
HOXD10	3236	broad.mit.edu	37	chr2	176982280	176982280	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgaggtctccgtgtccagtcCcgaagtgcaggagaaggaaa	14	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:176982280C>A	uc002ukj.2	+	1	789	c.719C>A	c.(718-720)CCC>CAC	p.P240H		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	240						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		GTGTCCAGTCCCGAAGTGCAG	0.672													7	31	---	---	---	---	PASS	A	176982280	A	A	176982280	3	1	108	1	0	0	0	0	1	0	0	0	7319	623	22	3	721	3	HOXD10	2	176982280	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1317277	176982280	66217093	200	39642										
HOXD3	3232	broad.mit.edu	37	chr2	177034272	177034272	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagtgcctgccaagaagcccAaaggtgggcccaatgcttct	12	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:177034272A>T	uc002ukt.1	+	2	606	c.430A>T	c.(430-432)AAA>TAA	p.K144*		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	144					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		CAAGAAGCCCAAAGGTGGGCC	0.418													30	63	---	---	---	---	PASS	T	177034272	T	T	177034272	4	4	108	1	0	0	0	0	0	1	0	0	7323	131	5	5	432	5	HOXD3	2	177034272	Nonsense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	51992	177034272	66165101	201	39643										
MTX2	10651	broad.mit.edu	37	chr2	177202252	177202252	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgacgcactggtatttggcCatctatacaccattcttacc	6	12	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:177202252C>T	uc002ukx.2	+	10	887	c.652C>T	c.(652-654)CAT>TAT	p.H218Y	MTX2_uc002ukw.2_Missense_Mutation_p.H208Y	NM_006554	NP_006545	O75431	MTX2_HUMAN	metaxin 2	218					protein targeting to mitochondrion	mitochondrial outer membrane				ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00365)|Epithelial(96;0.0654)|all cancers(119;0.181)			GGTATTTGGCCATCTATACAC	0.343													34	93	---	---	---	---	PASS	T	177202252	T	T	177202252	3	4	108	1	0	0	0	0	1	0	0	0	9968	594	21	3	690	3	MTX2	2	177202252	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	167980	177202252	65997121	202	39644										
TTN	7273	broad.mit.edu	37	chr2	179412919	179412919	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttcaagcaggtagccagtgAtccggctgcctccatcgtgg	12	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:179412919A>T	uc010zfg.1	-	288	85954	c.85730T>A	c.(85729-85731)ATC>AAC	p.I28577N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I22272N|TTN_uc010zfi.1_Missense_Mutation_p.I22205N|TTN_uc010zfj.1_Missense_Mutation_p.I22080N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29504							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)			GTAGCCAGTGATCCGGCTGCC	0.493													38	124	---	---	---	---	PASS	T	179412919	T	T	179412919	3	4	108	1	0	0	0	0	1	0	0	0	16732	333	12	5	14641	5	TTN	2	179412919	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	2210667	179412919	63786454	203	39645										
TTN	7273	broad.mit.edu	37	chr2	179443892	179443892	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caacattcttaagtgtgattGtgtattttccagcatcagat	7	7	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:179443892G>T	uc010zfg.1	-	269	60385	c.60161C>A	c.(60160-60162)ACA>AAA	p.T20054K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T13749K|TTN_uc010zfi.1_Missense_Mutation_p.T13682K|TTN_uc010zfj.1_Missense_Mutation_p.T13557K|uc002umv.1_Missense_Mutation_p.V40L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20981							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)			AAGTGTGATTGTGTATTTTCC	0.428													37	82	---	---	---	---	PASS	T	179443892	T	T	179443892	3	4	108	1	0	0	0	0	1	0	0	0	16732	1377	48	3	40286	3	TTN	2	179443892	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	30973	179443892	63755481	204	39646										
TTN	7273	broad.mit.edu	37	chr2	179452854	179452854	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aacatatccaatgatcggtgCaccaccatcatagactggtt	7	11	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:179452854C>A	uc010zfg.1	-	254	55800	c.55576G>T	c.(55576-55578)GCA>TCA	p.A18526S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A12221S|TTN_uc010zfi.1_Missense_Mutation_p.A12154S|TTN_uc010zfj.1_Missense_Mutation_p.A12029S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19453							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)			ATGATCGGTGCACCACCATCA	0.468													15	32	---	---	---	---	PASS	A	179452854	A	A	179452854	3	1	108	1	0	0	0	0	1	0	0	0	16732	710	25	3	44931	3	TTN	2	179452854	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	8962	179452854	63746519	205	39647										
TTN	7273	broad.mit.edu	37	chr2	179455492	179455492	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcagcgataggtgttttgttGaccctcacccatttgccagt	9	11	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:179455492G>T	uc010zfg.1	-	253	53480	c.53256C>A	c.(53254-53256)GTC>GTA	p.V17752V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.V11447V|TTN_uc010zfi.1_Silent_p.V11380V|TTN_uc010zfj.1_Silent_p.V11255V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	18679							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)			GTGTTTTGTTGACCCTCACCC	0.438													28	89	---	---	---	---	PASS	T	179455492	T	T	179455492	2	4	108	1	0	0	0	0	0	0	0	1	16732	1277	45	2		2	TTN	2	179455492	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2638	179455492	63743881	206	39648										
TTN	7273	broad.mit.edu	37	chr2	179460333	179460333	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaaaaagtaggcttttccttGaatgagaccctggacagtag	11	7	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:179460333G>A	uc010zfg.1	-	244	50268	c.50044C>T	c.(50044-50046)CAA>TAA	p.Q16682*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.Q10377*|TTN_uc010zfi.1_Nonsense_Mutation_p.Q10310*|TTN_uc010zfj.1_Nonsense_Mutation_p.Q10185*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17609							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)			GCTTTTCCTTGAATGAGACCC	0.443													7	9	---	---	---	---	PASS	A	179460333	A	A	179460333	4	1	108	1	0	0	0	0	0	1	0	0	16732	1299	45	2	50503	2	TTN	2	179460333	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4841	179460333	63739040	207	39649										
TTN	7273	broad.mit.edu	37	chr2	179475959	179475959	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttaacttttcaccttcaataAcaataatgtcatgagtctcc	3	10	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:179475959A>T	uc010zfg.1	-	219	43417	c.43193T>A	c.(43192-43194)GTT>GAT	p.V14398D	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V8093D|TTN_uc010zfi.1_Missense_Mutation_p.V8026D|TTN_uc010zfj.1_Missense_Mutation_p.V7901D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15325							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)			ACCTTCAATAACAATAATGTC	0.373													14	36	---	---	---	---	PASS	T	179475959	T	T	179475959	3	4	108	1	0	0	0	0	1	0	0	0	16732	43	2	5	57168	5	TTN	2	179475959	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	15626	179475959	63723414	208	39650										
TTN	7273	broad.mit.edu	37	chr2	179482066	179482066	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acctaccttgtaagtcagttCagggacaagtttcatattgc	8	9	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:179482066C>T	uc010zfg.1	-	203	40266	c.40042G>A	c.(40042-40044)GAA>AAA	p.E13348K	TTN_uc010zfh.1_Missense_Mutation_p.E7043K|TTN_uc010zfi.1_Missense_Mutation_p.E6976K|TTN_uc010zfj.1_Missense_Mutation_p.E6851K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14275							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)			TAAGTCAGTTCAGGGACAAGT	0.333													4	8	---	---	---	---	PASS	T	179482066	T	T	179482066	3	4	108	1	0	0	0	0	1	0	0	0	16732	835	29	2	60383	2	TTN	2	179482066	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6107	179482066	63717307	209	39651										
TTN	7273	broad.mit.edu	37	chr2	179575619	179575619	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagcatccacaggggcaagaCggatgtcaaagaagggtggg	16	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:179575619C>A	uc010zfg.1	-	95	24697	c.24473G>T	c.(24472-24474)CGT>CTT	p.R8158L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.R4819L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9085							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)			AGGGGCAAGACGGATGTCAAA	0.493													31	67	---	---	---	---	PASS	A	179575619	A	A	179575619	3	1	108	1	0	0	0	0	1	0	0	0	16732	536	19	1	76384	1	TTN	2	179575619	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	93553	179575619	63623754	210	39652										
TTN	7273	broad.mit.edu	37	chr2	179595510	179595510	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttttggtgaatgaaggaggtAtgataagatctattcaatga	11	2	2	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:179595510A>T	uc010zfg.1	-	58	14242	c.14018T>A	c.(14017-14019)ATA>AAA	p.I4673K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.I1334K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5600							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)			TGAAGGAGGTATGATAAGATC	0.318													4	85	---	---	---	---	PASS	T	179595510	T	T	179595510	3	4	108	1	0	0	0	0	1	0	0	0	16732	449	16	5	86987	5	TTN	2	179595510	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	19891	179595510	63603863	211	39653										
TTN	7273	broad.mit.edu	37	chr2	179610930	179610930	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atccctatgactgaacatttGaatacagcatctgaattttc	5	9	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:179610930G>C	uc002unb.2	-	46	16421	c.16197C>G	c.(16195-16197)TTC>TTG	p.F5399L	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CTGAACATTTGAATACAGCAT	0.328													34	38	---	---	---	---	PASS	C	179610930	C	C	179610930	3	2	108	1	0	0	0	0	1	0	0	0	16732	1281	45	2	94100	2	TTN	2	179610930	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	15420	179610930	63588443	212	39654										
ZNF804A	91752	broad.mit.edu	37	chr2	185803014	185803014	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgaaaggaactttagacagtCacagcctaaatcctatcttt	6	9	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:185803014C>A	uc002uph.2	+	4	3485	c.2891C>A	c.(2890-2892)TCA>TAA	p.S964*		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	964						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TTTAGACAGTCACAGCCTAAA	0.388													20	63	---	---	---	---	PASS	A	185803014	A	A	185803014	4	1	108	1	0	0	0	0	0	1	0	0	18167	838	29	2	2905	2	ZNF804A	2	185803014	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6192084	185803014	57396359	213	39655										
WDR75	84128	broad.mit.edu	37	chr2	190331241	190331241	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaaaaatctgaacagcccacCttggttacagctagcaaaga	8	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:190331241C>G	uc002uql.1	+	13	1440	c.1380C>G	c.(1378-1380)ACC>ACG	p.T460T	WDR75_uc002uqm.1_Silent_p.T396T|WDR75_uc002uqn.1_Silent_p.T238T|WDR75_uc002uqo.1_Silent_p.T238T	NM_032168	NP_115544	Q8IWA0	WDR75_HUMAN	WD repeat domain 75	460	WD 7.					nucleolus				ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00105)|Epithelial(96;0.0129)|all cancers(119;0.0456)			AACAGCCCACCTTGGTTACAG	0.353													20	57	---	---	---	---	PASS	G	190331241	G	G	190331241	2	3	108	1	0	0	0	0	0	0	0	1	17322	668	24	4		4	WDR75	2	190331241	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	4528227	190331241	52868132	214	39656										
MSTN	2660	broad.mit.edu	37	chr2	190924989	190924989	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attccagtataccttgtaccGtctttcataggtttgatgag	8	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:190924989G>A	uc002urp.2	-	2	679	c.546C>T	c.(544-546)GAC>GAT	p.D182D		NM_005259	NP_005250	O14793	GDF8_HUMAN	myostatin precursor	182					muscle organ development|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000742)|Epithelial(96;0.0121)|all cancers(119;0.0395)			ACCTTGTACCGTCTTTCATAG	0.428													17	93	---	---	---	---	PASS	A	190924989	A	A	190924989	2	1	108	1	0	0	0	0	0	0	0	1	9893	1136	40	1		1	MSTN	2	190924989	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	593748	190924989	52274384	215	39657										
PIKFYVE	200576	broad.mit.edu	37	chr2	209190082	209190082	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggaggctctgattatgagctGgctcgagttaaggagatcct	14	7	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:209190082G>C	uc002vcz.2	+	20	2705	c.2547G>C	c.(2545-2547)CTG>CTC	p.L849L	PIKFYVE_uc010fun.1_Silent_p.L530L|PIKFYVE_uc002vcy.1_Silent_p.L793L	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	849					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						ATTATGAGCTGGCTCGAGTTA	0.393													22	17	---	---	---	---	PASS	C	209190082	C	C	209190082	2	2	108	1	0	0	0	0	0	0	0	1	11924	1335	47	4		4	PIKFYVE	2	209190082	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	18265093	209190082	34009291	216	39658										
TTLL4	9654	broad.mit.edu	37	chr2	219602602	219602602	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gacactgtcagcagggttggGcccaggcctcttgggcgtcc	15	13	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:219602602G>T	uc002viy.2	+	3	573	c.203G>T	c.(202-204)GGC>GTC	p.G68V	TTLL4_uc010zkl.1_Intron|TTLL4_uc010fvx.2_Missense_Mutation_p.G68V	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	68					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)		GCAGGGTTGGGCCCAGGCCTC	0.577													37	31	---	---	---	---	PASS	T	219602602	T	T	219602602	3	4	108	1	0	0	0	0	1	0	0	0	16726	1203	42	3	205	3	TTLL4	2	219602602	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	10412520	219602602	23596771	217	39659										
SPEG	10290	broad.mit.edu	37	chr2	220354143	220354143	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cggcctcctgactctcctacCtcactggccccacccctagc	6	22	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:220354143C>A	uc010fwg.2	+	36	8403	c.8403C>A	c.(8401-8403)ACC>ACA	p.T2801T		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2801	Pro-rich.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		ACTCTCCTACCTCACTGGCCC	0.642													9	18	---	---	---	---	PASS	A	220354143	A	A	220354143	2	1	108	1	0	0	0	0	0	0	0	1	15035	668	24	3		3	SPEG	2	220354143	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	751541	220354143	22845230	218	39660										
EFHD1	80303	broad.mit.edu	37	chr2	233527618	233527618	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcctgaagagcatgatcaagGaggtggatgaggacttcgat	15	6	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:233527618G>T	uc002vtc.2	+	2	617	c.409G>T	c.(409-411)GAG>TAG	p.E137*	EFHD1_uc010fyf.2_Nonsense_Mutation_p.E41*|EFHD1_uc002vtd.2_Nonsense_Mutation_p.E25*	NM_025202	NP_079478	Q9BUP0	EFHD1_HUMAN	EF-hand domain family, member D1	137	EF-hand 2.						calcium ion binding|protein binding				0		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Breast(86;0.0199)|Renal(207;0.025)		Epithelial(121;2.08e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00825)|Lung(119;0.0101)		CATGATCAAGGAGGTGGATGA	0.632													15	21	---	---	---	---	PASS	T	233527618	T	T	233527618	4	4	108	1	0	0	0	0	0	1	0	0	4948	1175	41	2	415	2	EFHD1	2	233527618	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	13173475	233527618	9671755	219	39661										
INPP5D	3635	broad.mit.edu	37	chr2	233986827	233986827	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtcctcaggcatccgaagGcgtctccatgaggttcttca	10	13	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:233986827G>T	uc010zmo.1	+	3	362	c.209G>T	c.(208-210)GGC>GTC	p.G70V	INPP5D_uc010zmp.1_Missense_Mutation_p.G70V	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	70	SH2.				apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		GCATCCGAAGGCGTCTCCATG	0.522													34	40	---	---	---	---	PASS	T	233986827	T	T	233986827	3	4	108	1	0	0	0	0	1	0	0	0	7756	1203	42	3	219	3	INPP5D	2	233986827	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	459209	233986827	9212546	220	39662										
UGT1A7	54577	broad.mit.edu	37	chr2	234591121	234591121	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttgccactatcttgaagaaGgtgcacagtgccctgctcct	9	12	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:234591121G>T	uc002vut.2	+	1	538	c.538G>T	c.(538-540)GGT>TGT	p.G180C	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Missense_Mutation_p.G180C	NM_019077	NP_061950	Q9HAW7	UD17_HUMAN	UDP glycosyltransferase 1 family, polypeptide A7	180					drug metabolic process|negative regulation of fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	drug binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding|retinoic acid binding			ovary(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;8.93e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000412)|Lung(119;0.00333)|LUSC - Lung squamous cell carcinoma(224;0.00746)		TCTTGAAGAAGGTGCACAGTG	0.483													73	66	---	---	---	---	PASS	T	234591121	T	T	234591121	3	4	108	1	0	0	0	0	1	0	0	0	16947	1000	35	3	540	3	UGT1A7	2	234591121	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	604294	234591121	8608252	221	39663										
HDAC4	9759	broad.mit.edu	37	chr2	240016748	240016748	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cggacgaacacggaggcgagCgagcctgtgggggggaggga	22	8	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:240016748C>T	uc002vyk.3	-	17	3015	c.2223G>A	c.(2221-2223)TCG>TCA	p.S741S	HDAC4_uc010fyz.1_Silent_p.S736S|HDAC4_uc010zoa.1_Silent_p.S741S|HDAC4_uc010fza.2_Silent_p.S746S|HDAC4_uc010fyy.2_Silent_p.S698S|HDAC4_uc010znz.1_Silent_p.S624S	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	741	Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		CGGAGGCGAGCGAGCCTGTGG	0.612													26	13	---	---	---	---	PASS	T	240016748	T	T	240016748	2	4	108	1	0	0	0	0	0	0	0	1	7009	755	27	1		1	HDAC4	2	240016748	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	5425627	240016748	3182625	222	39664										
KIF1A	547	broad.mit.edu	37	chr2	241658612	241658612	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	taccccttcttggaaacgatCgggctgaaggcagagagagc	13	10	1	3	rs148176695	by1000genomes	TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:241658612C>A	uc002vzy.2	-	45	4868	c.4722G>T	c.(4720-4722)CCG>CCT	p.P1574P	KIF1A_uc010fzk.2_Silent_p.P1675P|KIF1A_uc002vzw.2_Silent_p.P235P|KIF1A_uc002vzx.2_Silent_p.P301P	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	1574					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		TGGAAACGATCGGGCTGAAGG	0.652													29	39	---	---	---	---	PASS	A	241658612	A	A	241658612	2	1	108	1	0	0	0	0	0	0	0	1	8283	871	31	2		2	KIF1A	2	241658612	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1641864	241658612	1540761	223	39665										
HDLBP	3069	broad.mit.edu	37	chr2	242192394	242192394	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttggcaccgctcttcccaatGaggtgcctgtggaacttgtg	12	11	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr2:242192394G>C	uc002waz.2	-	11	1578	c.1350C>G	c.(1348-1350)CTC>CTG	p.L450L	HDLBP_uc002wba.2_Silent_p.L450L|HDLBP_uc002wbb.2_Silent_p.L402L	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	450	KH 5.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		TCTTCCCAATGAGGTGCCTGT	0.567													36	42	---	---	---	---	PASS	C	242192394	C	C	242192394	2	2	108	1	0	0	0	0	0	0	0	1	7025	1277	45	2		2	HDLBP	2	242192394	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	533782	242192394	1006979	224	39666										
IL5RA	3568	broad.mit.edu	37	chr3	3139615	3139615	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcagagtgcttgctggagccGttaacaagcaccgcaagcca	12	12	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:3139615G>T	uc011ask.1	-	8	1292	c.648C>A	c.(646-648)AAC>AAA	p.N216K	IL5RA_uc010hbq.2_Missense_Mutation_p.N216K|IL5RA_uc010hbr.2_Intron|IL5RA_uc010hbs.2_Missense_Mutation_p.N216K|IL5RA_uc011asl.1_Missense_Mutation_p.N216K|IL5RA_uc011asm.1_Missense_Mutation_p.N216K|IL5RA_uc010hbt.2_Missense_Mutation_p.N216K|IL5RA_uc011asn.1_Missense_Mutation_p.N216K|IL5RA_uc010hbu.2_Missense_Mutation_p.N216K	NM_000564	NP_000555	Q01344	IL5RA_HUMAN	interleukin 5 receptor, alpha isoform 1	216	Extracellular (Potential).				cell proliferation	extracellular space|integral to membrane|plasma membrane	interleukin-5 receptor activity			ovary(1)	1				Epithelial(13;0.00278)|all cancers(10;0.00809)|OV - Ovarian serous cystadenocarcinoma(96;0.00944)		TGCTGGAGCCGTTAACAAGCA	0.478													10	32	---	---	---	---	PASS	T	3139615	T	T	3139615	3	4	108	1	0	0	0	0	1	0	0	0	7700	1136	40	1	664	1	IL5RA	3	3139615	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08		3139615	194882815	225	39667										
BRPF1	7862	broad.mit.edu	37	chr3	9782562	9782562	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagcggcagtcacggaatggGgtcccattgctacgtcgcct	13	12	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:9782562G>T	uc003bse.2	+	4	2058	c.1659G>T	c.(1657-1659)GGG>GGT	p.G553G	BRPF1_uc003bsf.2_Silent_p.G553G|BRPF1_uc003bsg.2_Silent_p.G553G|BRPF1_uc011ati.1_Silent_p.G553G	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	553	Required for RUNX1 and RUNX2 transcriptional activation.|Interaction with MEAF6 and ING5.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					CACGGAATGGGGTCCCATTGC	0.552													16	28	---	---	---	---	PASS	T	9782562	T	T	9782562	2	4	108	1	0	0	0	0	0	0	0	1	1520	1219	43	3		3	BRPF1	3	9782562	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	6642947	9782562	188239868	226	39668										
SLC6A11	6538	broad.mit.edu	37	chr3	10861482	10861482	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgggccattttttacctgagCaactgcttcactactgagct	8	11	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:10861482C>A	uc003bvz.2	+	3	511	c.477C>A	c.(475-477)AGC>AGA	p.S159R	SLC6A11_uc003bvy.1_Missense_Mutation_p.S159R	NM_014229	NP_055044	P48066	S6A11_HUMAN	solute carrier family 6 (neurotransmitter	159	Extracellular (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.229)		TTTACCTGAGCAACTGCTTCA	0.527													14	36	---	---	---	---	PASS	A	10861482	A	A	10861482	3	1	108	1	0	0	0	0	1	0	0	0	14674	709	25	3	487	3	SLC6A11	3	10861482	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1078920	10861482	187160948	227	39669										
ATG7	10533	broad.mit.edu	37	chr3	11383696	11383696	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttggacaaggttgtgtctgtCaaatgtctgctgcttggagc	13	7	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:11383696C>G	uc003bwc.2	+	11	1185	c.1068C>G	c.(1066-1068)GTC>GTG	p.V356V	ATG7_uc003bwd.2_Silent_p.V356V|ATG7_uc011aum.1_Silent_p.V317V	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	356					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						TTGTGTCTGTCAAATGTCTGC	0.473													36	57	---	---	---	---	PASS	G	11383696	G	G	11383696	2	3	108	1	0	0	0	0	0	0	0	1	1101	813	29	2		2	ATG7	3	11383696	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	522214	11383696	186638734	228	39670										
GALNTL2	117248	broad.mit.edu	37	chr3	16254180	16254180	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcgaccaggaggccaccctGaggaacagggttcgcattgc	13	13	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:16254180G>A	uc003car.3	+	6	1777	c.1302G>A	c.(1300-1302)CTG>CTA	p.L434L	GALNTL2_uc003caq.3_Silent_p.L167L	NM_054110	NP_473451	Q8N3T1	GLTL2_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	434	Lumenal (Potential).					Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1						AGGCCACCCTGAGGAACAGGG	0.547													52	27	---	---	---	---	PASS	A	16254180	A	A	16254180	2	1	108	1	0	0	0	0	0	0	0	1	6222	1277	45	2		2	GALNTL2	3	16254180	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	4870484	16254180	181768250	229	39671										
NEK10	152110	broad.mit.edu	37	chr3	27244048	27244048	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcactcttcagtacctcgggGctgaagtaaaataaggacat	9	9	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:27244048G>A	uc010hfk.2	-	3	256	c.27C>T	c.(25-27)CCC>CCT	p.P9P	NEK10_uc003cds.1_Silent_p.C94C|NEK10_uc010hfj.2_Silent_p.P9P			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	Error:Variant_position_missing_in_Q6ZWH5_after_alignment							ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						GTACCTCGGGGCTGAAGTAAA	0.443													16	13	---	---	---	---	PASS	A	27244048	A	A	27244048	2	1	108	1	0	0	0	0	0	0	0	1	10322	1218	42	3		3	NEK10	3	27244048	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	10989868	27244048	170778382	230	39672										
STAC	6769	broad.mit.edu	37	chr3	36422172	36422172	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcccccgcgaggacggcgtgGacgggctgcccaaggaggcg	19	14	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:36422172G>T	uc003cgh.1	+	1	76	c.37G>T	c.(37-39)GAC>TAC	p.D13Y	STAC_uc010hgd.1_RNA|STAC_uc011aya.1_Missense_Mutation_p.D13Y	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	13					intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						GGACGGCGTGGACGGGCTGCC	0.706													6	5	---	---	---	---	PASS	T	36422172	T	T	36422172	3	4	108	1	0	0	0	0	1	0	0	0	15238	1174	41	2	39	2	STAC	3	36422172	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	9178124	36422172	161600258	231	39673										
SCN10A	6336	broad.mit.edu	37	chr3	38770299	38770299	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gacaatgatggccaggatgaTggtgaggttccccagtgccc	14	10	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:38770299T>C	uc003ciq.2	-	15	2374	c.2374A>G	c.(2374-2376)ATC>GTC	p.I792V		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	792	Helical; Name=S5 of repeat II; (Potential).|II.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GCCAGGATGATGGTGAGGTTC	0.517													14	74	---	---	---	---	PASS	C	38770299	C	C	38770299	3	2	108	1	0	0	0	0	1	0	0	0	13912	1464	51	5	3548	5	SCN10A	3	38770299	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	2348127	38770299	159252131	232	39674										
SCN10A	6336	broad.mit.edu	37	chr3	38781048	38781048	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gacaggcttcccttcttggcCacgcccagctctagcagact	9	16	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:38781048C>A	uc003ciq.2	-	14	2238	c.2238G>T	c.(2236-2238)GTG>GTT	p.V746V		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	746	Helical; Name=S3 of repeat II; (Potential).|II.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CCTTCTTGGCCACGCCCAGCT	0.483													28	14	---	---	---	---	PASS	A	38781048	A	A	38781048	2	1	108	1	0	0	0	0	0	0	0	1	13912	581	21	3		3	SCN10A	3	38781048	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	10749	38781048	159241382	233	39675										
SCN11A	11280	broad.mit.edu	37	chr3	38968411	38968411	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttcaaaaatataaatcccaGtgaagacacacctaaaaagc	4	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:38968411G>A	uc011ays.1	-	4	699	c.500C>T	c.(499-501)ACT>ATT	p.T167I		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	167	Helical; Name=S2 of repeat I; (By similarity).|I.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	ATAAATCCCAGTGAAGACACA	0.363													20	43	---	---	---	---	PASS	A	38968411	A	A	38968411	3	1	108	1	0	0	0	0	1	0	0	0	13913	1029	36	3	4967	3	SCN11A	3	38968411	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	187363	38968411	159054019	234	39676										
CX3CR1	1524	broad.mit.edu	37	chr3	39307072	39307072	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cacacaggacagccaggcatTtcccatacaggtggtaaagg	11	11	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:39307072T>A	uc003cjl.2	-	2	1021	c.929A>T	c.(928-930)AAA>ATA	p.K310I		NM_001337	NP_001328	P49238	CX3C1_HUMAN	chemokine (C-X3-C motif) receptor 1	310	Cytoplasmic (Potential).				cell adhesion|cellular defense response|chemotaxis|interspecies interaction between organisms|response to wounding	integral to plasma membrane	chemokine receptor activity			lung(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.0557)|Kidney(284;0.0699)		AGCCAGGCATTTCCCATACAG	0.478													25	96	---	---	---	---	PASS	A	39307072	A	A	39307072	3	1	108	1	0	0	0	0	1	0	0	0	4075	1841	64	5	142	5	CX3CR1	3	39307072	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	338661	39307072	158715358	235	39677										
ZNF621	285268	broad.mit.edu	37	chr3	40571728	40571728	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccattccccaaacctgctctGatctcccacctggagagagg	8	16	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:40571728G>A	uc003ckm.2	+	4	396	c.180G>A	c.(178-180)CTG>CTA	p.L60L	ZNF621_uc003ckn.2_Silent_p.L60L|ZNF621_uc003cko.2_Silent_p.L25L|ZNF621_uc011aze.1_Silent_p.L52L	NM_001098414	NP_001091884	Q6ZSS3	ZN621_HUMAN	zinc finger protein 621	60	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0515)|Kidney(284;0.0648)		AACCTGCTCTGATCTCCCACC	0.522													23	30	---	---	---	---	PASS	A	40571728	A	A	40571728	2	1	108	1	0	0	0	0	0	0	0	1	18042	1277	45	2		2	ZNF621	3	40571728	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1264656	40571728	157450702	236	39678										
RTP3	83597	broad.mit.edu	37	chr3	46541960	46541960	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgaagatgagggtgtttacCcagagatgtaagaagtgccc	14	6	0	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:46541960C>A	uc003cps.1	+	2	338	c.270C>A	c.(268-270)ACC>ACA	p.T90T		NM_031440	NP_113628	Q9BQQ7	RTP3_HUMAN	transmembrane protein 7	90	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste|protein targeting to membrane	cytoplasm|integral to membrane	protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0173)|Kidney(197;0.0204)		GGGTGTTTACCCAGAGATGTA	0.512													23	109	---	---	---	---	PASS	A	46541960	A	A	46541960	2	1	108	1	0	0	0	0	0	0	0	1	13735	610	22	3		3	RTP3	3	46541960	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	5970232	46541960	151480470	237	39679										
PTH1R	5745	broad.mit.edu	37	chr3	46945048	46945048	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggctgctcccaaggacgatGggttcctcaacggctcctgc	12	14	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:46945048G>A	uc003cqm.2	+	16	1887	c.1684G>A	c.(1684-1686)GGG>AGG	p.G562R	PTH1R_uc003cqn.2_Missense_Mutation_p.G562R	NM_000316	NP_000307	Q03431	PTH1R_HUMAN	parathyroid hormone receptor 1 precursor	562	Cytoplasmic (Potential).					cytoplasm|integral to plasma membrane|nucleus	parathyroid hormone receptor activity|peptide hormone binding|protein self-association			breast(1)	1						CAAGGACGATGGGTTCCTCAA	0.662									Ollier_disease_/_Maffuci_syndrome				11	27	---	---	---	---	PASS	A	46945048	A	A	46945048	3	1	108	1	0	0	0	0	1	0	0	0	12758	1348	47	3	1738	3	PTH1R	3	46945048	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	403088	46945048	151077382	238	39680										
CCDC51	79714	broad.mit.edu	37	chr3	48473987	48473987	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccagcaagaagctgggcataGccccgtctgctggttccacc	11	15	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:48473987G>T	uc003csz.2	-	4	1188	c.1067C>A	c.(1066-1068)GCT>GAT	p.A356D	PLXNB1_uc003csx.2_5'Flank|CCDC51_uc003cta.2_Missense_Mutation_p.A247D|CCDC51_uc003ctb.2_Missense_Mutation_p.A247D|CCDC51_uc003ctc.2_Missense_Mutation_p.A356D|CCDC51_uc003ctd.2_Missense_Mutation_p.A247D	NM_024661	NP_078937	Q96ER9	CCD51_HUMAN	coiled-coil domain containing 51	356						integral to membrane					0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		GCTGGGCATAGCCCCGTCTGC	0.547													7	33	---	---	---	---	PASS	T	48473987	T	T	48473987	3	4	108	1	0	0	0	0	1	0	0	0	2821	971	34	3	172	3	CCDC51	3	48473987	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1528939	48473987	149548443	239	39681										
PRICKLE2	166336	broad.mit.edu	37	chr3	64142967	64142967	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acagtgcatacgaagcacggCgggtgccagcaaacgccgtg	14	12	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:64142967C>A	uc003dmf.2	-	5	1057	c.471G>T	c.(469-471)CCG>CCT	p.P157P		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	157	LIM zinc-binding 1.					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)		CGAAGCACGGCGGGTGCCAGC	0.547													5	15	---	---	---	---	PASS	A	64142967	A	A	64142967	2	1	108	1	0	0	0	0	0	0	0	1	12487	755	27	1		1	PRICKLE2	3	64142967	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	15668980	64142967	133879463	240	39682										
ADAMTS9	56999	broad.mit.edu	37	chr3	64547256	64547256	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctttgtggctctacttacttCttgccattcctctgccctcc	5	16	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:64547256C>T	uc003dmg.2	-	30	4728	c.4696G>A	c.(4696-4698)GAA>AAA	p.E1566K	ADAMTS9_uc011bfo.1_Missense_Mutation_p.E1538K|ADAMTS9_uc003dmh.1_Missense_Mutation_p.E1395K|ADAMTS9_uc011bfp.1_Missense_Mutation_p.E477K|uc003dmi.1_5'Flank	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1566	TSP type-1 13.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CTACTTACTTCTTGCCATTCC	0.567													23	42	---	---	---	---	PASS	T	64547256	T	T	64547256	3	4	108	1	0	0	0	0	1	0	0	0	273	922	32	2	1151	2	ADAMTS9	3	64547256	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	404289	64547256	133475174	241	39683										
LRIG1	26018	broad.mit.edu	37	chr3	66502051	66502051	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctgtcaactcattattattGaggtacctgtaacaacaaca	6	9	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:66502051G>C	uc003dmx.2	-	3	311	c.297C>G	c.(295-297)CTC>CTG	p.L99L	LRIG1_uc010hnz.2_5'UTR|LRIG1_uc010hoa.2_Silent_p.L99L	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	99	Extracellular (Potential).|LRR 2.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		CATTATTATTGAGGTACCTGT	0.428													28	58	---	---	---	---	PASS	C	66502051	C	C	66502051	2	2	108	1	0	0	0	0	0	0	0	1	8944	1277	45	2		2	LRIG1	3	66502051	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1954795	66502051	131520379	242	39684										
EPHA6	285220	broad.mit.edu	37	chr3	97356890	97356890	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gattttggtctctccagagtGctggaagatgatccagaagc	12	8	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:97356890G>C	uc010how.1	+	14	2791	c.2748G>C	c.(2746-2748)GTG>GTC	p.V916V	EPHA6_uc011bgp.1_3'UTR|EPHA6_uc003drs.3_Silent_p.V308V|EPHA6_uc003drr.3_Silent_p.V308V|EPHA6_uc003drt.2_Silent_p.V308V|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	821	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						TCTCCAGAGTGCTGGAAGATG	0.368													14	44	---	---	---	---	PASS	C	97356890	C	C	97356890	2	2	108	1	0	0	0	0	0	0	0	1	5171	1306	46	4		4	EPHA6	3	97356890	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	30854839	97356890	100665540	243	39685										
OR5H6	79295	broad.mit.edu	37	chr3	97983218	97983218	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgctgacagagtttgttctCacaggatttttacatcaacc	7	9	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:97983218C>T	uc003dsi.1	+	1	90	c.90C>T	c.(88-90)CTC>CTT	p.L30L		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	30	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						AGTTTGTTCTCACAGGATTTT	0.398													38	119	---	---	---	---	PASS	T	97983218	T	T	97983218	2	4	108	1	0	0	0	0	0	0	0	1	11163	813	29	2		2	OR5H6	3	97983218	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	626328	97983218	100039212	244	39686										
OR5H6	79295	broad.mit.edu	37	chr3	97983944	97983944	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttatactatggccccctcacCttcaaatatctgggctctgc	6	14	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:97983944C>A	uc003dsi.1	+	1	816	c.816C>A	c.(814-816)ACC>ACA	p.T272T		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	272	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						GCCCCCTCACCTTCAAATATC	0.408													17	50	---	---	---	---	PASS	A	97983944	A	A	97983944	2	1	108	1	0	0	0	0	0	0	0	1	11163	668	24	3		3	OR5H6	3	97983944	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	726	97983944	100038486	245	39687										
TMEM45A	55076	broad.mit.edu	37	chr3	100287758	100287758	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcaccatatgcttttgttgGcattatgcagtaaccattgt	7	9	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:100287758G>T	uc003dtz.1	+	5	994	c.681G>T	c.(679-681)TGG>TGT	p.W227C	TMEM45A_uc003dua.1_Missense_Mutation_p.W243C|TMEM45A_uc003dub.1_RNA	NM_018004	NP_060474	Q9NWC5	TM45A_HUMAN	transmembrane protein 45A	227	Helical; (Potential).					integral to membrane				skin(2)|ovary(1)	3						GCTTTTGTTGGCATTATGCAG	0.393													51	96	---	---	---	---	PASS	T	100287758	T	T	100287758	3	4	108	1	0	0	0	0	1	0	0	0	16166	1212	42	3	695	3	TMEM45A	3	100287758	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2303814	100287758	97734672	246	39688										
RG9MTD1	54931	broad.mit.edu	37	chr3	101283908	101283908	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagatcctctagctgccaccAgagagttcattgagatgtgg	11	9	2	3	rs71684018		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:101283908A>T	uc003duz.2	+	2	431	c.283A>T	c.(283-285)AGA>TGA	p.R95*		NM_017819	NP_060289	Q7L0Y3	MRRP1_HUMAN	RNA (guanine-9-) methyltransferase domain	95					tRNA processing	mitochondrion	methyltransferase activity|protein binding			ovary(1)	1						AGCTGCCACCAGAGAGTTCAT	0.418													23	66	---	---	---	---	PASS	T	101283908	T	T	101283908	4	4	108	1	0	0	0	0	0	1	0	0	13271	180	7	5	285	5	RG9MTD1	3	101283908	Nonsense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	996150	101283908	96738522	247	39689										
ALCAM	214	broad.mit.edu	37	chr3	105252517	105252517	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtacaggaatggaaaagtgcTacatccccttgaaggaggtg	13	7	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:105252517T>A	uc003dvx.2	+	5	1070	c.530T>A	c.(529-531)CTA>CAA	p.L177Q	ALCAM_uc003dvw.1_Missense_Mutation_p.L177Q|ALCAM_uc003dvy.2_Missense_Mutation_p.L177Q|ALCAM_uc011bhh.1_Missense_Mutation_p.L126Q|ALCAM_uc010hpp.2_5'UTR	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	177	Extracellular (Potential).|Ig-like V-type 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						GGAAAAGTGCTACATCCCCTT	0.423													20	57	---	---	---	---	PASS	A	105252517	A	A	105252517	3	1	108	1	0	0	0	0	1	0	0	0	487	1522	53	5	548	5	ALCAM	3	105252517	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	3968609	105252517	92769913	248	39690										
DPPA4	55211	broad.mit.edu	37	chr3	109047846	109047846	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccttcttgcttttctggaaCccaggcttgaccagcatgaa	8	13	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:109047846C>A	uc003dxq.3	-	6	824	c.769G>T	c.(769-771)GTT>TTT	p.V257F	DPPA4_uc011bho.1_Missense_Mutation_p.G158V	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	257						nucleus	protein binding			upper_aerodigestive_tract(1)	1						TTTTCTGGAACCCAGGCTTGA	0.527													5	13	---	---	---	---	PASS	A	109047846	A	A	109047846	3	1	108	1	0	0	0	0	1	0	0	0	4736	507	18	3	153	3	DPPA4	3	109047846	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3795329	109047846	88974584	249	39691										
SIDT1	54847	broad.mit.edu	37	chr3	113329854	113329854	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctcctcctttgggtcctcaGacacctccttcatgtacatg	7	15	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:113329854G>C	uc003eak.2	+	18	2372	c.1721_splice	c.e18-1	p.D574_splice	SIDT1_uc011bif.1_Splice_Site|SIDT1_uc003eaj.1_Splice_Site_p.D574_splice|SIDT1_uc011big.1_Splice_Site_p.D327_splice|SIDT1_uc011bih.1_Splice_Site|SIDT1_uc011bii.1_Splice_Site_p.D27_splice	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor							integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						TGGGTCCTCAGACACCTCCTT	0.502													31	65	---	---	---	---	PASS	C	113329854	C	C	113329854	5	2	108	1	0	0	0	0	0	0	1	0	14302	956	33	2	1790	2	SIDT1	3	113329854	Splice_Site	SNP	G	TCGA-46-3769-01A-01D-0983-08	4282008	113329854	84692576	250	39692										
LSAMP	4045	broad.mit.edu	37	chr3	115571360	115571360	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaccttgacttgtttgacatCcgccgaggagacctcgttgg	12	11	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:115571360C>T	uc003ebt.2	-	4	1119	c.619G>A	c.(619-621)GAT>AAT	p.D207N	LSAMP_uc011bis.1_Missense_Mutation_p.D207N	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein	207	Ig-like C2-type 2.				cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)		TGTTTGACATCCGCCGAGGAG	0.527													5	37	---	---	---	---	PASS	T	115571360	T	T	115571360	3	4	108	1	0	0	0	0	1	0	0	0	9048	855	30	2	413	2	LSAMP	3	115571360	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2241506	115571360	82451070	251	39693										
STXBP5L	9515	broad.mit.edu	37	chr3	120977893	120977893	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtttttgttcttaaagtgtGaagacacggccagtgcgaat	11	6	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:120977893G>T	uc003eec.3	+	18	1976	c.1836G>T	c.(1834-1836)GTG>GTT	p.V612V	STXBP5L_uc011bji.1_Silent_p.V612V	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	612	WD 9.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		CTTAAAGTGTGAAGACACGGC	0.363													23	42	---	---	---	---	PASS	T	120977893	T	T	120977893	2	4	108	1	0	0	0	0	0	0	0	1	15356	1277	45	2		2	STXBP5L	3	120977893	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	5406533	120977893	77044537	252	39694										
POLQ	10721	broad.mit.edu	37	chr3	121230774	121230774	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgctgccagttacttcttctCcttctcgtctttgcagacag	7	13	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:121230774C>G	uc003eee.3	-	10	1700	c.1571G>C	c.(1570-1572)GGA>GCA	p.G524A		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	524	Helicase C-terminal.				DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TACTTCTTCTCCTTCTCGTCT	0.383								DNA_polymerases_(catalytic_subunits)					13	66	---	---	---	---	PASS	G	121230774	G	G	121230774	3	3	108	1	0	0	0	0	1	0	0	0	12208	855	30	2	6285	2	POLQ	3	121230774	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	252881	121230774	76791656	253	39695										
FBXO40	51725	broad.mit.edu	37	chr3	121340752	121340752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggctactgaggaggaaccaaCtatgaatggtgaaaccagtg	13	7	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:121340752C>A	uc003eeg.2	+	3	686	c.476C>A	c.(475-477)ACT>AAT	p.T159N		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	159					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		GAGGAACCAACTATGAATGGT	0.507													8	25	---	---	---	---	PASS	A	121340752	A	A	121340752	3	1	108	1	0	0	0	0	1	0	0	0	5749	565	20	3	482	3	FBXO40	3	121340752	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	109978	121340752	76681678	254	39696										
GOLGB1	2804	broad.mit.edu	37	chr3	121445853	121445853	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcttatgttttatcttttcTatttccatctcttcctctgt	3	10	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:121445853T>C	uc003eei.3	-	5	564	c.438A>G	c.(436-438)ATA>ATG	p.I146M	GOLGB1_uc010hrc.2_Missense_Mutation_p.I146M|GOLGB1_uc003eej.3_Missense_Mutation_p.I107M|GOLGB1_uc011bjm.1_Missense_Mutation_p.I107M|GOLGB1_uc010hrd.1_Missense_Mutation_p.I146M	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	146	Potential.|Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TTATCTTTTCTATTTCCATCT	0.378													14	36	---	---	---	---	PASS	C	121445853	C	C	121445853	3	2	108	1	0	0	0	0	1	0	0	0	6565	1512	53	5	9413	5	GOLGB1	3	121445853	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	105101	121445853	76576577	255	39697										
KALRN	8997	broad.mit.edu	37	chr3	124114075	124114075	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggaactgatcaagcagttcCagcagcagcagaccgccact	10	13	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:124114075C>A	uc003ehg.2	+	12	2177	c.2050C>A	c.(2050-2052)CAG>AAG	p.Q684K	KALRN_uc010hrv.1_Missense_Mutation_p.Q684K|KALRN_uc003ehf.1_Missense_Mutation_p.Q684K|KALRN_uc011bjy.1_Missense_Mutation_p.Q684K|KALRN_uc003ehh.1_Missense_Mutation_p.Q43K	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	684	Poly-Gln.				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						CAAGCAGTTCCAGCAGCAGCA	0.537													9	14	---	---	---	---	PASS	A	124114075	A	A	124114075	3	1	108	1	0	0	0	0	1	0	0	0	7975	595	21	3	2096	3	KALRN	3	124114075	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2668222	124114075	73908355	256	39698										
KALRN	8997	broad.mit.edu	37	chr3	124431863	124431863	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaatttgttagcaaaaaaatGaagaagaaagaacaggctgc	9	4	0	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:124431863G>A	uc003ehg.2	+	58	8284	c.8157G>A	c.(8155-8157)ATG>ATA	p.M2719I	KALRN_uc003ehk.2_Missense_Mutation_p.M1022I	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2718	Protein kinase.				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						GCAAAAAAATGAAGAAGAAAG	0.473													4	42	---	---	---	---	PASS	A	124431863	A	A	124431863	3	1	108	1	0	0	0	0	1	0	0	0	7975	1290	45	2	8543	2	KALRN	3	124431863	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	317788	124431863	73590567	257	39699										
PLXNA1	5361	broad.mit.edu	37	chr3	126749203	126749203	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acttcctggatgagcaggccGacaagcaccagatccacgat	10	13	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:126749203G>C	uc003ejg.2	+	28	5114	c.5110G>C	c.(5110-5112)GAC>CAC	p.D1704H	PLXNA1_uc003ejh.2_Missense_Mutation_p.D372H	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1727	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TGAGCAGGCCGACAAGCACCA	0.622													22	60	---	---	---	---	PASS	C	126749203	C	C	126749203	3	2	108	1	0	0	0	0	1	0	0	0	12119	1058	37	2	5289	2	PLXNA1	3	126749203	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2317340	126749203	71273227	258	39700										
DNAJC13	23317	broad.mit.edu	37	chr3	132203456	132203456	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caagacaatgccatcattcgGcctctacccaaagtgaaaag	7	12	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:132203456G>T	uc003eor.2	+	29	3272	c.3207G>T	c.(3205-3207)CGG>CGT	p.R1069R		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1069							heat shock protein binding			ovary(1)|breast(1)	2						CCATCATTCGGCCTCTACCCA	0.358													9	79	---	---	---	---	PASS	T	132203456	T	T	132203456	2	4	108	1	0	0	0	0	0	0	0	1	4632	1190	42	3		3	DNAJC13	3	132203456	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	5454253	132203456	65818974	259	39701										
TMEM108	66000	broad.mit.edu	37	chr3	133098820	133098820	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caacaccgacaccccgtgcaGaggggcaccctcctacgcac	9	19	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:133098820G>C	uc003eph.2	+	4	539	c.265G>C	c.(265-267)GAG>CAG	p.E89Q	TMEM108_uc003epi.2_Missense_Mutation_p.E89Q|TMEM108_uc003epj.1_Missense_Mutation_p.E89Q|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_Missense_Mutation_p.E40Q	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	89	Pro-rich.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						ACCCCGTGCAGAGGGGCACCC	0.627													13	59	---	---	---	---	PASS	C	133098820	C	C	133098820	3	2	108	1	0	0	0	0	1	0	0	0	16021	943	33	2	271	2	TMEM108	3	133098820	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	895364	133098820	64923610	260	39702										
SRPRB	58477	broad.mit.edu	37	chr3	133526599	133526599	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttttttacagttgttaacaGgcctttatagagacactcag	7	7	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:133526599G>T	uc003epx.1	+	3	275	c.259G>T	c.(259-261)GGC>TGC	p.G87C		NM_021203	NP_067026	Q9Y5M8	SRPRB_HUMAN	signal recognition particle receptor, beta	87						endoplasmic reticulum membrane|integral to membrane	GTP binding|protein binding|receptor activity			ovary(1)	1						GTTGTTAACAGGCCTTTATAG	0.368													17	39	---	---	---	---	PASS	T	133526599	T	T	133526599	3	4	108	1	0	0	0	0	1	0	0	0	15162	1000	35	3	269	3	SRPRB	3	133526599	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	427779	133526599	64495831	261	39703										
CEP63	80254	broad.mit.edu	37	chr3	134269059	134269059	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agacatggaaaagcgactcaGagcagagatgcaaaaggcag	13	7	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:134269059G>C	uc003eqo.1	+	12	1786	c.1337G>C	c.(1336-1338)AGA>ACA	p.R446T	CEP63_uc003eql.1_Missense_Mutation_p.R400T|CEP63_uc003eqm.2_Missense_Mutation_p.R400T|CEP63_uc003eqn.1_Missense_Mutation_p.R446T|CEP63_uc003eqp.1_Missense_Mutation_p.R75T	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	446	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						AAGCGACTCAGAGCAGAGATG	0.393													29	76	---	---	---	---	PASS	C	134269059	C	C	134269059	3	2	108	1	0	0	0	0	1	0	0	0	3257	942	33	2	1375	2	CEP63	3	134269059	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	742460	134269059	63753371	262	39704										
PRR23B	389151	broad.mit.edu	37	chr3	138738743	138738743	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtctccgggccttgcacggaGggcgttccgggagcggcgag	19	12	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:138738743G>A	uc003esy.1	-	1	1026	c.761C>T	c.(760-762)CCT>CTT	p.P254L		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	254	Pro-rich.									breast(1)	1						CTTGCACGGAGGGCGTTCCGG	0.672													8	15	---	---	---	---	PASS	A	138738743	A	A	138738743	3	1	108	1	0	0	0	0	1	0	0	0	12595	1000	35	3	40	3	PRR23B	3	138738743	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4469684	138738743	59283687	263	39705										
CLSTN2	64084	broad.mit.edu	37	chr3	140140019	140140019	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gacaaacaacaccagtatgaGatcctggtgaccgcctacga	9	12	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:140140019G>C	uc003etn.2	+	5	880	c.690G>C	c.(688-690)GAG>GAC	p.E230D	CLSTN2_uc003etm.2_Missense_Mutation_p.E230D	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	230	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						ACCAGTATGAGATCCTGGTGA	0.517										HNSCC(16;0.037)			17	99	---	---	---	---	PASS	C	140140019	C	C	140140019	3	2	108	1	0	0	0	0	1	0	0	0	3562	933	33	2	708	2	CLSTN2	3	140140019	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1401276	140140019	57882411	264	39706										
GRK7	131890	broad.mit.edu	37	chr3	141526697	141526697	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccagcatgataacttcacaGaggaagcaaaagatatttgc	8	8	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:141526697G>C	uc011bnd.1	+	3	1345	c.1261G>C	c.(1261-1263)GAG>CAG	p.E421Q		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	421	Protein kinase.				visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						TAACTTCACAGAGGAAGCAAA	0.428													11	41	---	---	---	---	PASS	C	141526697	C	C	141526697	3	2	108	1	0	0	0	0	1	0	0	0	6794	943	33	2	1271	2	GRK7	3	141526697	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1386678	141526697	56495733	265	39707										
TRPC1	7220	broad.mit.edu	37	chr3	142455268	142455268	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggaggaaaacagttcaggtGacttgaacataaattgcgta	11	5	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:142455268G>C	uc003evc.2	+	2	356	c.220G>C	c.(220-222)GAC>CAC	p.D74H	TRPC1_uc003evb.2_Missense_Mutation_p.D74H	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	74	Cytoplasmic (Potential).|ANK 1.				axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						CAGTTCAGGTGACTTGAACAT	0.333													19	50	---	---	---	---	PASS	C	142455268	C	C	142455268	3	2	108	1	0	0	0	0	1	0	0	0	16575	1290	45	2	226	2	TRPC1	3	142455268	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	928571	142455268	55567162	266	39708										
IGSF10	285313	broad.mit.edu	37	chr3	151171201	151171201	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctgtatccagtcagacaacCactttaaatggcaatcacag	6	12	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:151171201C>T	uc011bod.1	-	3	686	c.686G>A	c.(685-687)TGG>TAG	p.W229*		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	229	LRRCT.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GTCAGACAACCACTTTAAATG	0.433													14	62	---	---	---	---	PASS	T	151171201	T	T	151171201	4	4	108	1	0	0	0	0	0	1	0	0	7597	595	21	3	7249	3	IGSF10	3	151171201	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	8715933	151171201	46851229	267	39709										
GPR149	344758	broad.mit.edu	37	chr3	154147144	154147144	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggccactgcaaaaacatgaaGatggtcaccgacaggacgct	11	11	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:154147144G>T	uc003faa.2	-	1	361	c.261C>A	c.(259-261)ATC>ATA	p.I87I		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	87	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			AAAACATGAAGATGGTCACCG	0.488													14	87	---	---	---	---	PASS	T	154147144	T	T	154147144	2	4	108	1	0	0	0	0	0	0	0	1	6654	932	33	2		2	GPR149	3	154147144	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2975943	154147144	43875286	268	39710										
MLF1	4291	broad.mit.edu	37	chr3	158317862	158317862	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggactagaaaaaatggctatTggtcatcatatccatgaccg	9	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:158317862T>A	uc003fcb.2	+	5	605	c.468T>A	c.(466-468)ATT>ATA	p.I156I	MLF1_uc003fbz.2_Silent_p.I131I|MLF1_uc003fca.2_Silent_p.I131I|MLF1_uc003fbx.2_Silent_p.I146I|MLF1_uc003fcc.2_Silent_p.I187I|MLF1_uc003fby.2_Silent_p.I82I|MLF1_uc010hvx.2_Silent_p.I88I	NM_022443	NP_071888	P58340	MLF1_HUMAN	myeloid leukemia factor 1 isoform 1	156					cell cycle arrest|myeloid progenitor cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein domain specific binding				0		Melanoma(1037;0.000458)|Prostate(884;0.0235)|all_neural(597;0.0299)	Lung(72;0.00199)|LUSC - Lung squamous cell carcinoma(72;0.00256)			AAATGGCTATTGGTCATCATA	0.313			T	NPM1	AML								21	56	---	---	---	---	PASS	A	158317862	A	A	158317862	2	1	108	1	0	0	0	0	0	0	0	1	9614	1800	63	5		5	MLF1	3	158317862	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	4170718	158317862	39704568	269	39711										
SI	6476	broad.mit.edu	37	chr3	164712057	164712057	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtacttactcatgcaaaaggGgtcggataacagtgccacca	10	10	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:164712057G>T	uc003fei.2	-	41	4891	c.4829C>A	c.(4828-4830)CCC>CAC	p.P1610H		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1610	Sucrase.|Lumenal.				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)	ATGCAAAAGGGGTCGGATAAC	0.318										HNSCC(35;0.089)			8	39	---	---	---	---	PASS	T	164712057	T	T	164712057	3	4	108	1	0	0	0	0	1	0	0	0	14297	1232	43	3	686	3	SI	3	164712057	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	6394195	164712057	33310373	270	39712										
ARPM1	84517	broad.mit.edu	37	chr3	169485440	169485440	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctaaaccagggaaagaggttGatcccccggcaaggataata	11	9	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:169485440G>C	uc003ffs.1	-	2	1274	c.899C>G	c.(898-900)TCA>TGA	p.S300*	TERC_uc003ffr.1_5'Flank	NM_032487	NP_115876	Q9BYD9	ARPM1_HUMAN	actin related protein M1	300						cytoplasm|cytoskeleton					0	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;5.01e-59)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			GAAAGAGGTTGATCCCCCGGC	0.463													30	133	---	---	---	---	PASS	C	169485440	C	C	169485440	4	2	108	1	0	0	0	0	0	1	0	0	976	1294	45	2	223	2	ARPM1	3	169485440	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4773383	169485440	28536990	271	39713										
TBL1XR1	79718	broad.mit.edu	37	chr3	176769497	176769497	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agagactctattggtcgaccAtcaaacaaggtaccatcctg	8	11	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:176769497A>G	uc003fiw.3	-	5	482	c.222T>C	c.(220-222)GAT>GAC	p.D74D	TBL1XR1_uc003fix.3_Silent_p.D74D|TBL1XR1_uc011bpz.1_5'UTR|TBL1XR1_uc003fiy.2_Silent_p.D74D	NM_024665	NP_078941	Q9BZK7	TBL1R_HUMAN	transducin (beta)-like 1 X-linked receptor 1	74	F-box-like.				canonical Wnt receptor signaling pathway|cellular lipid metabolic process|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein N-terminus binding|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(143;1.44e-17)|Ovarian(172;0.00163)|Breast(254;0.214)	Acute lymphoblastic leukemia(1;0.00599)|all_hematologic(1;0.0632)|Prostate(884;0.215)	OV - Ovarian serous cystadenocarcinoma(80;9.83e-31)			TTGGTCGACCATCAAACAAGG	0.358													7	42	---	---	---	---	PASS	G	176769497	G	G	176769497	2	3	108	1	0	0	0	0	0	0	0	1	15637	214	8	5		5	TBL1XR1	3	176769497	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	7284057	176769497	21252933	272	39714										
GNB4	59345	broad.mit.edu	37	chr3	179131506	179131506	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttctggaataaacttaccaaGttgtatctcctgaacttgta	6	8	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:179131506G>A	uc003fjv.3	-	7	774	c.494C>T	c.(493-495)ACT>ATT	p.T165I	GNB4_uc003fju.3_Missense_Mutation_p.T76I	NM_021629	NP_067642	Q9HAV0	GBB4_HUMAN	guanine nucleotide-binding protein, beta-4	165	WD 3.				cellular response to glucagon stimulus|energy reserve metabolic process	plasma membrane	signal transducer activity			skin(2)	2	all_cancers(143;2.01e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.237)			AACTTACCAAGTTGTATCTCC	0.358													9	42	---	---	---	---	PASS	A	179131506	A	A	179131506	3	1	108	1	0	0	0	0	1	0	0	0	6520	1029	36	3	544	3	GNB4	3	179131506	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2362009	179131506	18890924	273	39715										
CCDC39	339829	broad.mit.edu	37	chr3	180377513	180377513	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgtcaagtatctttcttttCtgattacattccaaagttag	5	7	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:180377513C>G	uc010hxe.2	-	5	676	c.561G>C	c.(559-561)CAG>CAC	p.Q187H	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	187	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TCTTTCTTTTCTGATTACATT	0.289													11	44	---	---	---	---	PASS	G	180377513	G	G	180377513	3	3	108	1	0	0	0	0	1	0	0	0	2811	912	32	2	2328	2	CCDC39	3	180377513	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1246007	180377513	17644917	274	39716										
FXR1	8087	broad.mit.edu	37	chr3	180685922	180685922	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attggtcattggcaggagaaGatgatcgagacagccgacat	13	7	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:180685922G>A	uc003fkq.2	+	14	1304	c.1282G>A	c.(1282-1284)GAT>AAT	p.D428N	FXR1_uc003fkp.2_Missense_Mutation_p.D343N|FXR1_uc003fkr.2_Missense_Mutation_p.D428N|FXR1_uc011bqj.1_Missense_Mutation_p.D342N|FXR1_uc003fks.2_Missense_Mutation_p.D371N|FXR1_uc011bqk.1_Missense_Mutation_p.D379N|FXR1_uc011bql.1_Missense_Mutation_p.D415N	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	428					apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			GGCAGGAGAAGATGATCGAGA	0.527													7	53	---	---	---	---	PASS	A	180685922	A	A	180685922	3	1	108	1	0	0	0	0	1	0	0	0	6115	942	33	2	1336	2	FXR1	3	180685922	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	308409	180685922	17336508	275	39717										
ABCF3	55324	broad.mit.edu	37	chr3	183907720	183907720	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcaagatgctggagaagctGtgagtacagcatccttggcc	12	10	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:183907720G>A	uc003fmz.2	+	14	1524	c.1391_splice	c.e14+1	p.L464_splice	ABCF3_uc003fna.2_Splice_Site_p.L458_splice|ABCF3_uc003fnb.2_Splice_Site_p.L145_splice	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),								ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TGGAGAAGCTGTGAGTACAGC	0.547													13	37	---	---	---	---	PASS	A	183907720	A	A	183907720	5	1	108	1	0	0	0	0	0	0	1	0	67	1391	48	3	1446	3	ABCF3	3	183907720	Splice_Site	SNP	G	TCGA-46-3769-01A-01D-0983-08	3221798	183907720	14114710	276	39718										
EIF4G1	1981	broad.mit.edu	37	chr3	184040983	184040983	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccggacaacccttagcacccGtgggcccccaaggggtgggc	14	16	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:184040983G>A	uc003fnp.2	+	14	2240	c.2042G>A	c.(2041-2043)CGT>CAT	p.R681H	EIF4G1_uc003fno.1_Missense_Mutation_p.R622H|EIF4G1_uc010hxw.1_Missense_Mutation_p.R517H|EIF4G1_uc003fnt.2_Missense_Mutation_p.R392H|EIF4G1_uc003fnq.2_Missense_Mutation_p.R594H|EIF4G1_uc003fnr.2_Missense_Mutation_p.R517H|EIF4G1_uc010hxx.2_Missense_Mutation_p.R688H|EIF4G1_uc003fns.2_Missense_Mutation_p.R641H|EIF4G1_uc010hxy.2_Missense_Mutation_p.R688H|EIF4G1_uc003fnv.3_Missense_Mutation_p.R681H|EIF4G1_uc003fnu.3_Missense_Mutation_p.R681H|EIF4G1_uc003fnw.2_Missense_Mutation_p.R688H|EIF4G1_uc003fnx.2_Missense_Mutation_p.R485H|EIF4G1_uc003fny.3_Missense_Mutation_p.R485H|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	681	MIF4G.	Cleavage; by enterovirus/rhinovirus protease 2A.			insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CTTAGCACCCGTGGGCCCCCA	0.627													18	88	---	---	---	---	PASS	A	184040983	A	A	184040983	3	1	108	1	0	0	0	0	1	0	0	0	5036	1145	40	1	2088	1	EIF4G1	3	184040983	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	133263	184040983	13981447	277	39719										
EIF4G1	1981	broad.mit.edu	37	chr3	184041675	184041675	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atcgacaccgaggaacgcctCaaaggggtcattgacctcat	10	12	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:184041675C>G	uc003fnp.2	+	16	2580	c.2382C>G	c.(2380-2382)CTC>CTG	p.L794L	EIF4G1_uc003fno.1_Silent_p.L735L|EIF4G1_uc010hxw.1_Silent_p.L630L|EIF4G1_uc003fnt.2_Silent_p.L505L|EIF4G1_uc003fnq.2_Silent_p.L707L|EIF4G1_uc003fnr.2_Silent_p.L630L|EIF4G1_uc010hxx.2_Silent_p.L801L|EIF4G1_uc003fns.2_Silent_p.L754L|EIF4G1_uc010hxy.2_Silent_p.L801L|EIF4G1_uc003fnv.3_Silent_p.L795L|EIF4G1_uc003fnu.3_Silent_p.L794L|EIF4G1_uc003fnw.2_Silent_p.L801L|EIF4G1_uc003fnx.2_Silent_p.L599L|EIF4G1_uc003fny.3_Silent_p.L598L|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	794	eIF3/EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGGAACGCCTCAAAGGGGTCA	0.547													5	84	---	---	---	---	PASS	G	184041675	G	G	184041675	2	3	108	1	0	0	0	0	0	0	0	1	5036	813	29	2		2	EIF4G1	3	184041675	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	692	184041675	13980755	278	39720										
EIF4G1	1981	broad.mit.edu	37	chr3	184042714	184042714	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agctggaagaggctcgggacAtagcccggcggcgctcttta	15	11	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:184042714A>G	uc003fnp.2	+	18	2866	c.2668A>G	c.(2668-2670)ATA>GTA	p.I890V	EIF4G1_uc003fno.1_Missense_Mutation_p.I831V|EIF4G1_uc010hxw.1_Missense_Mutation_p.I726V|EIF4G1_uc003fnt.2_Missense_Mutation_p.I601V|EIF4G1_uc003fnq.2_Missense_Mutation_p.I803V|EIF4G1_uc003fnr.2_Missense_Mutation_p.I726V|EIF4G1_uc010hxx.2_Missense_Mutation_p.I897V|EIF4G1_uc003fns.2_Missense_Mutation_p.I850V|EIF4G1_uc010hxy.2_Missense_Mutation_p.I897V|EIF4G1_uc003fnv.3_Missense_Mutation_p.I891V|EIF4G1_uc003fnu.3_Missense_Mutation_p.I890V|EIF4G1_uc003fnw.2_Missense_Mutation_p.I897V|EIF4G1_uc003fnx.2_Missense_Mutation_p.I695V|EIF4G1_uc003fny.3_Missense_Mutation_p.I694V|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	890	eIF3/EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GGCTCGGGACATAGCCCGGCG	0.493													12	62	---	---	---	---	PASS	G	184042714	G	G	184042714	3	3	108	1	0	0	0	0	1	0	0	0	5036	217	8	5	2730	5	EIF4G1	3	184042714	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	1039	184042714	13979716	279	39721										
EPHB3	2049	broad.mit.edu	37	chr3	184294689	184294689	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgaaacctcactgatcctcGagtggagtgagccccgggac	12	12	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:184294689G>A	uc003foz.2	+	5	1509	c.1072G>A	c.(1072-1074)GAG>AAG	p.E358K		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	358	Fibronectin type-III 1.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			ACTGATCCTCGAGTGGAGTGA	0.597													13	78	---	---	---	---	PASS	A	184294689	A	A	184294689	3	1	108	1	0	0	0	0	1	0	0	0	5176	1059	37	2	1090	2	EPHB3	3	184294689	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	251975	184294689	13727741	280	39722										
MASP1	5648	broad.mit.edu	37	chr3	186940980	186940980	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccgctgacgatgaccatggCtcctggaggagagaagatac	14	10	0	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:186940980C>T	uc003frh.1	-	14	2076	c.1744G>A	c.(1744-1746)GCC>ACC	p.A582T		NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	582	Peptidase S1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		ATGACCATGGCTCCTGGAGGA	0.522													15	29	---	---	---	---	PASS	T	186940980	T	T	186940980	3	4	108	1	0	0	0	0	1	0	0	0	9322	797	28	3	367	3	MASP1	3	186940980	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2646291	186940980	11081450	281	39723										
SST	6750	broad.mit.edu	37	chr3	187386958	187386958	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gatctctgcagctcaagcctCatttcatcctgctcagcagc	7	15	5	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:187386958C>T	uc003frn.2	-	2	368	c.246G>A	c.(244-246)ATG>ATA	p.M82I		NM_001048	NP_001039	P61278	SMS_HUMAN	somatostatin preproprotein	82					digestion|G-protein coupled receptor protein signaling pathway|induction of apoptosis by hormones|negative regulation of cell proliferation|response to nutrient|synaptic transmission	extracellular space	hormone activity			pancreas(1)	1	all_cancers(143;4.06e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.00444)	Bromocriptine(DB01200)|Cysteamine(DB00847)	GCTCAAGCCTCATTTCATCCT	0.522													75	201	---	---	---	---	PASS	T	187386958	T	T	187386958	3	4	108	1	0	0	0	0	1	0	0	0	15195	826	29	2	108	2	SST	3	187386958	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	445978	187386958	10635472	282	39724										
CPN2	1370	broad.mit.edu	37	chr3	194062502	194062502	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaacgcaggttggacaggtgGgcaaaggtgccctcagcgac	16	10	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:194062502G>T	uc003fts.2	-	2	1020	c.930C>A	c.(928-930)GCC>GCA	p.A310A		NM_001080513	NP_001073982	P22792	CPN2_HUMAN	carboxypeptidase N, polypeptide 2	310	LRR 9.				protein stabilization	extracellular region	enzyme regulator activity			ovary(5)	5	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.65e-05)		TGGACAGGTGGGCAAAGGTGC	0.592													11	33	---	---	---	---	PASS	T	194062502	T	T	194062502	2	4	108	1	0	0	0	0	0	0	0	1	3810	1219	43	3		3	CPN2	3	194062502	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	6675544	194062502	3959928	283	39725										
LSG1	55341	broad.mit.edu	37	chr3	194373677	194373677	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcttcttctgagcacgtctgCcagtcgtcttcctcctcctc	6	17	5	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:194373677C>A	uc003fui.2	-	8	1269	c.954G>T	c.(952-954)TGG>TGT	p.W318C		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	318					nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		AGCACGTCTGCCAGTCGTCTT	0.527													25	66	---	---	---	---	PASS	A	194373677	A	A	194373677	3	1	108	1	0	0	0	0	1	0	0	0	9049	740	26	3	1050	3	LSG1	3	194373677	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	311175	194373677	3648753	284	39726										
BDH1	622	broad.mit.edu	37	chr3	197239159	197239159	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccgagaaagcctctaccccGaacttggtgatgcagtacgg	11	12	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:197239159G>T	uc003fxr.2	-	8	1041	c.639C>A	c.(637-639)TTC>TTA	p.F213L	BDH1_uc003fxs.2_Missense_Mutation_p.F213L|BDH1_uc003fxt.2_Missense_Mutation_p.F126L|BDH1_uc003fxu.2_Missense_Mutation_p.F213L	NM_203314	NP_976059	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1	213					cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			ovary(1)	1	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	CCTCTACCCCGAACTTGGTGA	0.632													15	22	---	---	---	---	PASS	T	197239159	T	T	197239159	3	4	108	1	0	0	0	0	1	0	0	0	1390	1049	37	2	396	2	BDH1	3	197239159	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2865482	197239159	783271	285	39727										
LMLN	89782	broad.mit.edu	37	chr3	197707242	197707242	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agtggcctcatggagcagtgGgtgtgccagaccaagaaggc	16	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr3:197707242G>T	uc011buo.1	+	6	617	c.595G>T	c.(595-597)GGT>TGT	p.G199C	LMLN_uc003fyt.2_Missense_Mutation_p.G147C|LMLN_uc010iar.2_Missense_Mutation_p.G199C|LMLN_uc010ias.2_Missense_Mutation_p.G147C|LMLN_uc003fyu.2_5'UTR	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2	199					cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		TGGAGCAGTGGGTGTGCCAGA	0.527													27	71	---	---	---	---	PASS	T	197707242	T	T	197707242	3	4	108	1	0	0	0	0	1	0	0	0	8847	1232	43	3	617	3	LMLN	3	197707242	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	468083	197707242	315188	286	39728										
CTBP1	1487	broad.mit.edu	37	chr4	1207352	1207352	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	accatgcagcatggggggtgCagatgaggttgggtgcatcc	17	8	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:1207352C>A	uc003gcv.1	-	7	1100	c.935G>T	c.(934-936)TGC>TTC	p.C312F	uc003gcs.1_Intron|CTBP1_uc003gct.1_Missense_Mutation_p.C293F|CTBP1_uc003gcu.1_Missense_Mutation_p.C301F|CTBP1_uc003gcw.2_5'UTR	NM_001328	NP_001319	Q13363	CTBP1_HUMAN	C-terminal binding protein 1 isoform 1	312	Interaction with GLIS2 2 (By similarity).				interspecies interaction between organisms|negative regulation of cell proliferation|negative regulation of histone H4 acetylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone deacetylation|protein phosphorylation|regulation of cell cycle|regulation of transcription by chromatin organization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|viral genome replication|white fat cell differentiation	cytoplasm|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein C-terminus binding|protein domain specific binding|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00818)	Colorectal(103;0.2)		ATGGGGGGTGCAGATGAGGTT	0.642													14	19	---	---	---	---	PASS	A	1207352	A	A	1207352	3	1	108	1	0	0	0	0	1	0	0	0	3997	710	25	3	399	3	CTBP1	4	1207352	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08		1207352	189946924	287	39729										
OTOP1	133060	broad.mit.edu	37	chr4	4199533	4199533	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acatgatgagtgccgactcgCtcttggtcttggagcgccca	12	12	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:4199533C>A	uc003ghp.1	-	5	1058	c.1028G>T	c.(1027-1029)AGC>ATC	p.S343I		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	343					biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TGCCGACTCGCTCTTGGTCTT	0.587													14	33	---	---	---	---	PASS	A	4199533	A	A	4199533	3	1	108	1	0	0	0	0	1	0	0	0	11305	797	28	3	818	3	OTOP1	4	4199533	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2992181	4199533	186954743	288	39730										
KIAA0232	9778	broad.mit.edu	37	chr4	6862821	6862821	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcaccaaggaaagaagcagtGaagtacccaccactgtgcat	9	11	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:6862821G>C	uc003gjr.3	+	7	1175	c.712G>C	c.(712-714)GAA>CAA	p.E238Q	KIAA0232_uc003gjq.3_Missense_Mutation_p.E238Q	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	238							ATP binding			ovary(2)	2						AAGAAGCAGTGAAGTACCCAC	0.438													26	88	---	---	---	---	PASS	C	6862821	C	C	6862821	3	2	108	1	0	0	0	0	1	0	0	0	8163	1291	45	2	730	2	KIAA0232	4	6862821	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2663288	6862821	184291455	289	39731										
CPZ	8532	broad.mit.edu	37	chr4	8609035	8609035	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atcatgaagtggatgcagacCataccctttgtgctctcagc	9	11	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:8609035C>A	uc003glm.2	+	7	1236	c.1110C>A	c.(1108-1110)ACC>ACA	p.T370T	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Silent_p.T233T|CPZ_uc003glo.2_Silent_p.T359T|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	370					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						GGATGCAGACCATACCCTTTG	0.612											OREG0016100	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	42	---	---	---	---	PASS	A	8609035	A	A	8609035	2	1	108	1	0	0	0	0	0	0	0	1	3839	581	21	3		3	CPZ	4	8609035	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1746214	8609035	182545241	290	39732										
BOD1L	259282	broad.mit.edu	37	chr4	13602546	13602546	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaatagtggtatcttcaactTtttcgagctgactgtcactt	7	8	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:13602546T>A	uc003gmz.1	-	10	6095	c.5978A>T	c.(5977-5979)AAA>ATA	p.K1993I	BOD1L_uc010idr.1_Missense_Mutation_p.K1330I	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1993							DNA binding			ovary(5)|breast(1)	6						ATCTTCAACTTTTTCGAGCTG	0.478													8	64	---	---	---	---	PASS	A	13602546	A	A	13602546	3	1	108	1	0	0	0	0	1	0	0	0	1483	1841	64	5	3245	5	BOD1L	4	13602546	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	4993511	13602546	177551730	291	39733										
STIM2	57620	broad.mit.edu	37	chr4	27000893	27000893	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcatttatgatctcccagttGaaaatcagtgaccggagtca	8	9	4	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:27000893G>A	uc003gsh.3	+	5	1026	c.810G>A	c.(808-810)TTG>TTA	p.L270L	STIM2_uc003gsg.3_Silent_p.L270L|STIM2_uc010iex.2_Silent_p.L270L	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2	183	SAM.|Extracellular (Potential).				activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)				TCTCCCAGTTGAAAATCAGTG	0.343													21	24	---	---	---	---	PASS	A	27000893	A	A	27000893	2	1	108	1	0	0	0	0	0	0	0	1	15283	1281	45	2		2	STIM2	4	27000893	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	13398347	27000893	164153383	292	39734										
GNPDA2	132789	broad.mit.edu	37	chr4	44713028	44713028	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagccatagttggcacttttGataaatctccatcaaaatat	6	8	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:44713028G>C	uc003gwy.2	-	5	693	c.536C>G	c.(535-537)TCA>TGA	p.S179*	GNPDA2_uc010iga.2_Nonsense_Mutation_p.S145*|GNPDA2_uc011bzb.1_Nonsense_Mutation_p.S109*|GNPDA2_uc003gwz.1_Nonsense_Mutation_p.S179*	NM_138335	NP_612208	Q8TDQ7	GNPI2_HUMAN	glucosamine-6-phosphate deaminase 2	179					N-acetylglucosamine metabolic process	cytoplasm	glucosamine-6-phosphate deaminase activity|hydrolase activity			ovary(1)	1						TGGCACTTTTGATAAATCTCC	0.378													12	75	---	---	---	---	PASS	C	44713028	C	C	44713028	4	2	108	1	0	0	0	0	0	1	0	0	6543	1294	45	2	306	2	GNPDA2	4	44713028	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	17712135	44713028	146441248	293	39735										
GABRA2	2555	broad.mit.edu	37	chr4	46305529	46305529	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttaagccagaatgaaacttgGgagagaatgacagtcatgat	11	5	1	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:46305529G>T	uc003gxc.3	-	7	1477	c.804C>A	c.(802-804)TCC>TCA	p.S268S	GABRA2_uc010igc.2_Silent_p.S268S|GABRA2_uc011bzc.1_Silent_p.S213S|GABRA2_uc003gxe.2_Silent_p.S268S	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	268	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ATGAAACTTGGGAGAGAATGA	0.318													36	57	---	---	---	---	PASS	T	46305529	T	T	46305529	2	4	108	1	0	0	0	0	0	0	0	1	6161	1219	43	3		3	GABRA2	4	46305529	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1592501	46305529	144848747	294	39736										
CNGA1	1259	broad.mit.edu	37	chr4	47939827	47939827	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttaagttcttcctttaccagCagtccttgttctaggtaacc	6	11	2	0	rs149504668	by1000genomes	TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:47939827C>G	uc003gxt.3	-	11	950	c.684G>C	c.(682-684)CTG>CTC	p.L228L	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Silent_p.L297L	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	228	Cytoplasmic (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						CCTTTACCAGCAGTCCTTGTT	0.284													17	69	---	---	---	---	PASS	G	47939827	G	G	47939827	2	3	108	1	0	0	0	0	0	0	0	1	3596	697	25	4		4	CNGA1	4	47939827	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1634298	47939827	143214449	295	39737										
TXK	7294	broad.mit.edu	37	chr4	48115301	48115301	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggaagctcttcatctgtgcTcaggcttatctgtgttctca	9	10	6	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:48115301T>A	uc003gxx.3	-	3	183	c.97A>T	c.(97-99)AGC>TGC	p.S33C	TXK_uc003gxy.1_Missense_Mutation_p.S33C	NM_003328	NP_003319	P42681	TXK_HUMAN	TXK tyrosine kinase	33						cytoplasm	ATP binding|non-membrane spanning protein tyrosine kinase activity				0						TCATCTGTGCTCAGGCTTATC	0.378													14	73	---	---	---	---	PASS	A	48115301	A	A	48115301	3	1	108	1	0	0	0	0	1	0	0	0	16783	1551	54	5	1538	5	TXK	4	48115301	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	175474	48115301	143038975	296	39738										
CHIC2	26511	broad.mit.edu	37	chr4	54930367	54930367	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acacggtgacgtgaccggagCcgcggacgaccaccgggtcc	15	15	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:54930367C>A	uc003haj.1	-	1	422	c.101G>T	c.(100-102)GGC>GTC	p.G34V	PDGFRA_uc003haa.2_Intron	NM_012110	NP_036242	Q9UKJ5	CHIC2_HUMAN	cysteine-rich hydrophobic domain 2	34						plasma membrane	protein binding			central_nervous_system(1)	1	all_cancers(7;0.0193)|all_neural(26;0.0209)|Lung NSC(11;0.0281)|Glioma(25;0.08)		LUSC - Lung squamous cell carcinoma(32;0.00216)			GTGACCGGAGCCGCGGACGAC	0.682			T	ETV6	AML								5	5	---	---	---	---	PASS	A	54930367	A	A	54930367	3	1	108	1	0	0	0	0	1	0	0	0	3344	739	26	3	420	3	CHIC2	4	54930367	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6815066	54930367	136223909	297	39739										
PDGFRA	5156	broad.mit.edu	37	chr4	55156543	55156543	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgctgtggcacgcatgcgtGtggactcagacaatgcatac	12	11	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:55156543G>T	uc003han.3	+	22	3275	c.2944G>T	c.(2944-2946)GTG>TTG	p.V982L	PDGFRA_uc003haa.2_Missense_Mutation_p.V742L	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	982	Cytoplasmic (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	ACGCATGCGTGTGGACTCAGA	0.448			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			25	266	---	---	---	---	PASS	T	55156543	T	T	55156543	3	4	108	1	0	0	0	0	1	0	0	0	11661	1377	48	3	3026	3	PDGFRA	4	55156543	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	226176	55156543	135997733	298	39740										
KIT	3815	broad.mit.edu	37	chr4	55592146	55592146	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagcacaatggcacggttgaAtgtaaggcttacaacgatgt	11	7	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:55592146A>T	uc010igr.2	+	9	1557	c.1470A>T	c.(1468-1470)GAA>GAT	p.E490D	KIT_uc010igs.2_Missense_Mutation_p.E490D|KIT_uc011bzw.1_5'Flank|KIT_uc010igt.1_5'Flank	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	490	Extracellular (Potential).|Ig-like C2-type 5.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity	p.E490_F504>DHIVVSLTF(1)		soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	GCACGGTTGAATGTAAGGCTT	0.398		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				178	48	---	---	---	---	PASS	T	55592146	T	T	55592146	3	4	108	1	0	0	0	0	1	0	0	0	8329	98	4	5	1504	5	KIT	4	55592146	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	435603	55592146	135562130	299	39741										
KIT	3815	broad.mit.edu	37	chr4	55599352	55599352	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gattctaattatgtggttaaAggaaacgtgagtacccattc	9	6	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:55599352A>C	uc010igr.2	+	17	2565	c.2478A>C	c.(2476-2478)AAA>AAC	p.K826N	KIT_uc010igs.2_Missense_Mutation_p.K822N	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	826	Protein kinase.|Cytoplasmic (Potential).				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	ATGTGGTTAAAGGAAACGTGA	0.368		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				23	368	---	---	---	---	PASS	C	55599352	C	C	55599352	3	2	108	1	0	0	0	0	1	0	0	0	8329	69	3	5	2544	5	KIT	4	55599352	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	7206	55599352	135554924	300	39742										
REST	5978	broad.mit.edu	37	chr4	57798239	57798239	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgatcgttctttcagaaaggGaaaagattacagcaaacacc	8	8	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:57798239G>A	uc003hch.2	+	4	3562	c.3215G>A	c.(3214-3216)GGA>GAA	p.G1072E	REST_uc003hci.2_Missense_Mutation_p.G1072E|REST_uc010ihf.2_Missense_Mutation_p.G746E	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	1072	C2H2-type 9.|Interaction with RCOR1.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					TTCAGAAAGGGAAAAGATTAC	0.408													55	32	---	---	---	---	PASS	A	57798239	A	A	57798239	3	1	108	1	0	0	0	0	1	0	0	0	13234	1174	41	2	3225	2	REST	4	57798239	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2198887	57798239	133356037	301	39743										
UGT2B11	10720	broad.mit.edu	37	chr4	70066419	70066419	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgttgaattcttgataatttCataatattctctttatatct	3	5	4	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:70066419C>A	uc003heh.2	-	6	1338	c.1329G>T	c.(1327-1329)ATG>ATT	p.M443I	uc003hei.1_Intron	NM_001073	NP_001064	O75310	UDB11_HUMAN	UDP glucuronosyltransferase 2 family,	443					estrogen metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3						TTGATAATTTCATAATATTCT	0.358													35	46	---	---	---	---	PASS	A	70066419	A	A	70066419	3	1	108	1	0	0	0	0	1	0	0	0	16954	826	29	2	264	2	UGT2B11	4	70066419	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	12268180	70066419	121087857	302	39744										
UGT2B28	54490	broad.mit.edu	37	chr4	70146511	70146511	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcaacaggttaagagatggtCagacattcaaaaagatagct	10	6	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:70146511C>T	uc003hej.2	+	1	295	c.293C>T	c.(292-294)TCA>TTA	p.S98L	UGT2B28_uc010ihr.2_Missense_Mutation_p.S98L	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	98					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	AAGAGATGGTCAGACATTCAA	0.323													20	84	---	---	---	---	PASS	T	70146511	T	T	70146511	3	4	108	1	0	0	0	0	1	0	0	0	16957	838	29	2	295	2	UGT2B28	4	70146511	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	80092	70146511	121007765	303	39745										
ADAMTS3	9508	broad.mit.edu	37	chr4	73434420	73434420	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttccacttacttgtccatcAgctgaagtcctaacctctac	4	14	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:73434420A>T	uc003hgk.1	-	1	97	c.60T>A	c.(58-60)GCT>GCA	p.A20A		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	20					collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CTTGTCCATCAGCTGAAGTCC	0.443													19	14	---	---	---	---	PASS	T	73434420	T	T	73434420	2	4	108	1	0	0	0	0	0	0	0	1	267	175	7	5		5	ADAMTS3	4	73434420	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	3287909	73434420	117719856	304	39746										
ALB	213	broad.mit.edu	37	chr4	74275097	74275097	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tatatgaaattgccagaagaCatccttacttttatgccccg	6	10	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:74275097C>T	uc003hgs.3	+	5	581	c.508C>T	c.(508-510)CAT>TAT	p.H170Y	ALB_uc003hgw.3_Intron|ALB_uc011cbe.1_5'UTR|ALB_uc003hgt.3_Missense_Mutation_p.H170Y|ALB_uc010iii.2_Missense_Mutation_p.H55Y|ALB_uc003hgu.3_Missense_Mutation_p.H20Y|ALB_uc003hgv.3_5'UTR|ALB_uc011cbf.1_Missense_Mutation_p.H60Y|ALB_uc010iij.2_RNA|ALB_uc003hgx.3_5'UTR	NM_000477	NP_000468	P02768	ALBU_HUMAN	albumin preproprotein	170	Albumin 1.				bile acid and bile salt transport|bile acid metabolic process|cellular response to starvation|hemolysis by symbiont of host erythrocytes|lipoprotein metabolic process|maintenance of mitochondrion location|negative regulation of apoptosis|platelet activation|platelet degranulation|sodium-independent organic anion transport|transmembrane transport	extracellular space|platelet alpha granule lumen|protein complex	antioxidant activity|chaperone binding|copper ion binding|DNA binding|drug binding|fatty acid binding|pyridoxal phosphate binding|toxin binding			ovary(3)|skin(3)	6	Breast(15;0.00102)		Epithelial(6;4.8e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000263)|all cancers(17;0.000472)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Acenocoumarol(DB01418)|Acitretin(DB00459)|Alfentanil(DB00802)|Aluminium(DB01370)|Auranofin(DB00995)|Bismuth(DB01402)|Captopril(DB01197)|Carboplatin(DB00958)|Cefalotin(DB00456)|Cefazolin(DB01327)|Cefonicid(DB01328)|Cefoperazone(DB01329)|Chlorpheniramine(DB01114)|Chlorpromazine(DB00477)|Ciprofloxacin(DB00537)|Clonazepam(DB01068)|Cloxacillin(DB01147)|Cytarabine(DB00987)|Dantrolene(DB01219)|Diclofenac(DB00586)|Diflunisal(DB00861)|Digitoxin(DB01396)|Estrone(DB00655)|Ethacrynic acid(DB00903)|Etodolac(DB00749)|Flurbiprofen(DB00712)|Gadobenate Dimeglumine(DB00743)|Gatifloxacin(DB01044)|Gliclazide(DB01120)|Halothane(DB01159)|Human Serum Albumin(DB00062)|Hyaluronidase(DB00070)|Ibuprofen(DB01050)|Insulin-detemir(DB01307)|Insulin-glargine(DB01308)|Iodipamide(DB04711)|Ketoprofen(DB01009)|Levamisole(DB00848)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Mefenamic acid(DB00784)|Mephenytoin(DB00532)|Methotrexate(DB00563)|Nortriptyline(DB00540)|Oxazepam(DB00842)|Paclitaxel(DB01229)|Phenprocoumon(DB00946)|Probenecid(DB01032)|Propofol(DB00818)|Pyridoxine(DB00165)|Salicyclic acid(DB00936)|Saquinavir(DB01232)|Serum albumin(DB00096)|Serum albumin iodonated(DB00064)|Sodium lauryl sulfate(DB00815)|Sucralfate(DB00364)|Sulfamethizole(DB00576)|Sulindac(DB00605)|Suprofen(DB00870)|Testosterone(DB00624)|Xanthophyll(DB00137)	TGCCAGAAGACATCCTTACTT	0.343													10	56	---	---	---	---	PASS	T	74275097	T	T	74275097	3	4	108	1	0	0	0	0	1	0	0	0	486	478	17	3	526	3	ALB	4	74275097	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	840677	74275097	116879179	305	39747										
G3BP2	9908	broad.mit.edu	37	chr4	76570810	76570810	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgcgatcatcaccaccacctCtggtttctcgctctcttgca	6	16	5	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:76570810C>G	uc003hir.2	-	12	1418	c.1253G>C	c.(1252-1254)AGA>ACA	p.R418T	G3BP2_uc003his.2_Missense_Mutation_p.R418T|G3BP2_uc003hit.2_Missense_Mutation_p.R385T	NM_012297	NP_036429	Q9UN86	G3BP2_HUMAN	Ras-GTPase activating protein SH3 domain-binding	418					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)			ACCACCACCTCTGGTTTCTCG	0.458													36	25	---	---	---	---	PASS	G	76570810	G	G	76570810	3	3	108	1	0	0	0	0	1	0	0	0	6142	913	32	2	199	2	G3BP2	4	76570810	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2295713	76570810	114583466	306	39748										
STBD1	8987	broad.mit.edu	37	chr4	77230773	77230773	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	taaacctaaaccagggaatgGacaatggaagaagcactttg	10	7	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:77230773G>T	uc003hka.2	+	2	943	c.697G>T	c.(697-699)GAC>TAC	p.D233Y	STBD1_uc003hjy.2_3'UTR|STBD1_uc011cbv.1_3'UTR|STBD1_uc011cbw.1_Missense_Mutation_p.D84Y	NM_003943	NP_003934	O95210	STBD1_HUMAN	starch binding domain 1	233	Cytoplasmic (Potential).				carbohydrate metabolic process|muscle contraction	integral to plasma membrane|membrane fraction	carbohydrate binding|catalytic activity|protein binding			ovary(1)	1			Lung(101;0.196)			CCAGGGAATGGACAATGGAAG	0.517													15	16	---	---	---	---	PASS	T	77230773	T	T	77230773	3	4	108	1	0	0	0	0	1	0	0	0	15273	1174	41	2	703	2	STBD1	4	77230773	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	659963	77230773	113923503	307	39749										
FRAS1	80144	broad.mit.edu	37	chr4	79353585	79353585	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atggttcctctacccgggaaGacagcatggagatctcagtc	11	11	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:79353585G>C	uc003hlb.2	+	38	5484	c.5044G>C	c.(5044-5046)GAC>CAC	p.D1682H	FRAS1_uc003hkw.2_Missense_Mutation_p.D1682H|FRAS1_uc010ijj.1_Missense_Mutation_p.D102H	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	1681	CSPG 5.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TACCCGGGAAGACAGCATGGA	0.478													12	7	---	---	---	---	PASS	C	79353585	C	C	79353585	3	2	108	1	0	0	0	0	1	0	0	0	6042	942	33	2	5194	2	FRAS1	4	79353585	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2122812	79353585	111800691	308	39750										
MEPE	56955	broad.mit.edu	37	chr4	88766732	88766732	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaatccccagtgattttgaaGgcagcggttatacagatctt	9	8	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:88766732G>T	uc003hqy.2	+	4	751	c.712G>T	c.(712-714)GGC>TGC	p.G238C	MEPE_uc010ikn.2_Missense_Mutation_p.G125C	NM_020203	NP_064588	Q9NQ76	MEPE_HUMAN	matrix, extracellular phosphoglycoprotein with	238					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			ovary(1)|lung(1)|skin(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000432)		TGATTTTGAAGGCAGCGGTTA	0.413													21	36	---	---	---	---	PASS	T	88766732	T	T	88766732	3	4	108	1	0	0	0	0	1	0	0	0	9478	1000	35	3	722	3	MEPE	4	88766732	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	9413147	88766732	102387544	309	39751										
PKD2	5311	broad.mit.edu	37	chr4	88989210	88989210	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgtttcttacgaagagtttcAagtgtaagtataaaggaatt	9	4	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:88989210A>C	uc003hre.2	+	13	2585	c.2519A>C	c.(2518-2520)CAA>CCA	p.Q840P	PKD2_uc011cdf.1_Missense_Mutation_p.Q258P|PKD2_uc011cdg.1_Missense_Mutation_p.Q166P|PKD2_uc011cdh.1_Missense_Mutation_p.Q63P	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	840	Potential.|C-terminal coiled coil domain.|Cytoplasmic (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		GAAGAGTTTCAAGTGTAAGTA	0.458													28	38	---	---	---	---	PASS	C	88989210	C	C	88989210	3	2	108	1	0	0	0	0	1	0	0	0	11966	130	5	5	2569	5	PKD2	4	88989210	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	222478	88989210	102165066	310	39752										
C4orf37	285555	broad.mit.edu	37	chr4	98893523	98893523	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	accaaatgcacttttcttctGtttctttgagcagatatttc	5	9	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:98893523G>A	uc003htt.1	-	7	931	c.841C>T	c.(841-843)CAG>TAG	p.Q281*		NM_174952	NP_777612	Q8N412	CD037_HUMAN	hypothetical protein LOC285555	281											0				OV - Ovarian serous cystadenocarcinoma(123;2.27e-08)		CTTTTCTTCTGTTTCTTTGAG	0.353													34	26	---	---	---	---	PASS	A	98893523	A	A	98893523	4	1	108	1	0	0	0	0	0	1	0	0	2267	1386	48	3	558	3	C4orf37	4	98893523	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	9904313	98893523	92260753	311	39753										
MTTP	4547	broad.mit.edu	37	chr4	100515905	100515905	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgcaggcagaaattagagctGaagacaaccgaagcaggccc	12	10	0	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:100515905G>C	uc003hvc.3	+	8	1030	c.774G>C	c.(772-774)CTG>CTC	p.L258L	MTTP_uc011cej.1_Silent_p.L285L	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	258	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	AATTAGAGCTGAAGACAACCG	0.418													28	34	---	---	---	---	PASS	C	100515905	C	C	100515905	2	2	108	1	0	0	0	0	0	0	0	1	9964	1277	45	2		2	MTTP	4	100515905	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1622382	100515905	90638371	312	39754										
CENPE	1062	broad.mit.edu	37	chr4	104054854	104054854	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atttaaaataaattatacctCaatatgtagatccatattct	2	6	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:104054854C>A	uc003hxb.1	-	41	6808	c.6718G>T	c.(6718-6720)GAG>TAG	p.E2240*	CENPE_uc003hxc.1_Nonsense_Mutation_p.E2119*	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	2240	Kinetochore-binding domain.|Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		AATTATACCTCAATATGTAGA	0.303													6	16	---	---	---	---	PASS	A	104054854	A	A	104054854	4	1	108	1	0	0	0	0	0	1	0	0	3230	835	29	2	1423	2	CENPE	4	104054854	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3538949	104054854	87099422	313	39755										
ALPK1	80216	broad.mit.edu	37	chr4	113348773	113348773	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcagacatctttgtttccatGagcaagaacgattatgaaaa	8	7	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:113348773G>C	uc003iap.3	+	9	1026	c.747G>C	c.(745-747)ATG>ATC	p.M249I	ALPK1_uc003ian.3_Missense_Mutation_p.M249I|ALPK1_uc011cfx.1_Missense_Mutation_p.M171I|ALPK1_uc003iao.3_RNA|ALPK1_uc010imo.2_Missense_Mutation_p.M77I	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	249							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		TTGTTTCCATGAGCAAGAACG	0.388													5	10	---	---	---	---	PASS	C	113348773	C	C	113348773	3	2	108	1	0	0	0	0	1	0	0	0	544	1290	45	2	773	2	ALPK1	4	113348773	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	9293919	113348773	77805503	314	39756										
ANK2	287	broad.mit.edu	37	chr4	114282011	114282011	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcaggaacggatcgaggaaAggctggcttatattgctgat	14	6	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:114282011A>T	uc003ibe.3	+	39	10814	c.10714A>T	c.(10714-10716)AGG>TGG	p.R3572W	ANK2_uc003ibd.3_Missense_Mutation_p.R1478W|ANK2_uc003ibf.3_Missense_Mutation_p.R1487W|ANK2_uc011cgc.1_Missense_Mutation_p.R663W|ANK2_uc003ibg.3_Missense_Mutation_p.R471W|ANK2_uc003ibh.3_Missense_Mutation_p.R161W|ANK2_uc011cgd.1_Missense_Mutation_p.R874W	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3539	Death.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GATCGAGGAAAGGCTGGCTTA	0.463													5	2	---	---	---	---	PASS	T	114282011	T	T	114282011	3	4	108	1	0	0	0	0	1	0	0	0	621	63	3	5	10933	5	ANK2	4	114282011	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	933238	114282011	76872265	315	39757										
NDST4	64579	broad.mit.edu	37	chr4	115891700	115891700	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caccagaactcatccacagaCcgaagtaaaaggtcatctcc	6	14	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:115891700C>A	uc003ibu.2	-	4	1786	c.1107G>T	c.(1105-1107)CGG>CGT	p.R369R	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	369	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		CATCCACAGACCGAAGTAAAA	0.393													11	26	---	---	---	---	PASS	A	115891700	A	A	115891700	2	1	108	1	0	0	0	0	0	0	0	1	10258	494	18	3		3	NDST4	4	115891700	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1609689	115891700	75262576	316	39758										
KIAA1109	84162	broad.mit.edu	37	chr4	123207785	123207785	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagatatgtcaaccattcctCcttctgccagtcttaacctt	4	14	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:123207785C>A	uc003ieh.2	+	51	9172	c.9127C>A	c.(9127-9129)CCT>ACT	p.P3043T	KIAA1109_uc003iel.1_Missense_Mutation_p.P978T	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3043					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AACCATTCCTCCTTCTGCCAG	0.398													22	51	---	---	---	---	PASS	A	123207785	A	A	123207785	3	1	108	1	0	0	0	0	1	0	0	0	8208	855	30	2	9329	2	KIAA1109	4	123207785	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	7316085	123207785	67946491	317	39759										
ADAD1	132612	broad.mit.edu	37	chr4	123333783	123333783	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttgaagccaatgaagaactCtgtctccacgtggctgttga	10	9	2	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:123333783C>G	uc003ieo.2	+	10	1300	c.1068C>G	c.(1066-1068)CTC>CTG	p.L356L	ADAD1_uc003iep.2_Silent_p.L345L|ADAD1_uc003ieq.2_Silent_p.L338L	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	356	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						ATGAAGAACTCTGTCTCCACG	0.358													48	30	---	---	---	---	PASS	G	123333783	G	G	123333783	2	3	108	1	0	0	0	0	0	0	0	1	231	900	32	2		2	ADAD1	4	123333783	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	125998	123333783	67820493	318	39760										
ANKRD50	57182	broad.mit.edu	37	chr4	125599908	125599908	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccatggtggaaagaactcaTggtgaccagctaaaagtgct	12	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:125599908T>C	uc003ifg.3	-	2	931	c.665A>G	c.(664-666)CAT>CGT	p.H222R	ANKRD50_uc011cgo.1_Missense_Mutation_p.H43R|ANKRD50_uc010inw.2_Missense_Mutation_p.H222R	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	222										central_nervous_system(1)	1						AAAGAACTCATGGTGACCAGC	0.428													53	93	---	---	---	---	PASS	C	125599908	C	C	125599908	3	2	108	1	0	0	0	0	1	0	0	0	677	1464	51	5	3632	5	ANKRD50	4	125599908	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	2266125	125599908	65554368	319	39761										
FAT4	79633	broad.mit.edu	37	chr4	126412468	126412468	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctagaacaaggaatccagcgGatggcattccagctccagaa	10	11	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:126412468G>C	uc003ifj.3	+	17	14491	c.14491G>C	c.(14491-14493)GAT>CAT	p.D4831H	FAT4_uc011cgp.1_Missense_Mutation_p.D3072H|FAT4_uc003ifi.1_Missense_Mutation_p.D2308H	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4831	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAATCCAGCGGATGGCATTCC	0.488													9	43	---	---	---	---	PASS	C	126412468	C	C	126412468	3	2	108	1	0	0	0	0	1	0	0	0	5692	1174	41	2	14557	2	FAT4	4	126412468	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	812560	126412468	64741808	320	39762										
GAB1	2549	broad.mit.edu	37	chr4	144390295	144390295	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccgggaagcctggacagatGggagacagtccacagaatca	13	11	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:144390295G>T	uc003ije.2	+	10	2397	c.2038G>T	c.(2038-2040)GGG>TGG	p.G680W	GAB1_uc003ijd.2_Missense_Mutation_p.G710W|GAB1_uc011chq.1_Missense_Mutation_p.G577W	NM_002039	NP_002030	Q13480	GAB1_HUMAN	GRB2-associated binding protein 1 isoform b	680					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)					CTGGACAGATGGGAGACAGTC	0.438													22	28	---	---	---	---	PASS	T	144390295	T	T	144390295	3	4	108	1	0	0	0	0	1	0	0	0	6148	1348	47	3	2170	3	GAB1	4	144390295	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	17977827	144390295	46763981	321	39763										
DCHS2	54798	broad.mit.edu	37	chr4	155254549	155254549	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggctgcgtctcgtgatccagGggcttccgggtgcgaatagt	16	10	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:155254549G>T	uc003inw.2	-	9	1314	c.1314C>A	c.(1312-1314)CCC>CCA	p.P438P	DCHS2_uc003inx.2_Silent_p.P937P	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	438	Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CGTGATCCAGGGGCTTCCGGG	0.597													12	21	---	---	---	---	PASS	T	155254549	T	T	155254549	2	4	108	1	0	0	0	0	0	0	0	1	4288	1219	43	3		3	DCHS2	4	155254549	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	10864254	155254549	35899727	322	39764										
PLRG1	5356	broad.mit.edu	37	chr4	155459240	155459240	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	actgctttatgttatctggaGaaccagatgcaaatgtgtaa	9	6	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:155459240G>C	uc003iny.2	-	13	1235	c.1172C>G	c.(1171-1173)TCT>TGT	p.S391C	PLRG1_uc003inz.2_Missense_Mutation_p.S382C	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	391	WD 5.					catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				GTTATCTGGAGAACCAGATGC	0.303													4	23	---	---	---	---	PASS	C	155459240	C	C	155459240	3	2	108	1	0	0	0	0	1	0	0	0	12106	942	33	2	384	2	PLRG1	4	155459240	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	204691	155459240	35695036	323	39765										
TLL1	7092	broad.mit.edu	37	chr4	167020663	167020663	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aacagctgtggggcttggtcGattctgtggatccggggtaa	16	7	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:167020663G>C	uc003irh.1	+	20	3538	c.2891G>C	c.(2890-2892)CGA>CCA	p.R964P	TLL1_uc011cjn.1_Missense_Mutation_p.R987P|TLL1_uc011cjo.1_Missense_Mutation_p.R788P	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	964	CUB 5.				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		GGGCTTGGTCGATTCTGTGGA	0.423													47	44	---	---	---	---	PASS	C	167020663	C	C	167020663	3	2	108	1	0	0	0	0	1	0	0	0	15942	1058	37	2	2969	2	TLL1	4	167020663	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	11561423	167020663	24133613	324	39766										
DDX60L	91351	broad.mit.edu	37	chr4	169337864	169337864	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atttgggttatttatggtagCtgaaagaaccaaaaagggac	11	4	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:169337864C>G	uc003irq.3	-	20	2916	c.2695G>C	c.(2695-2697)GCT>CCT	p.A899P	DDX60L_uc003irr.1_Missense_Mutation_p.A899P|DDX60L_uc003irs.1_Missense_Mutation_p.A594P	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	899	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		TTTATGGTAGCTGAAAGAACC	0.358													18	41	---	---	---	---	PASS	G	169337864	G	G	169337864	3	3	108	1	0	0	0	0	1	0	0	0	4379	797	28	4	2501	4	DDX60L	4	169337864	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2317201	169337864	21816412	325	39767										
GALNTL6	442117	broad.mit.edu	37	chr4	173150831	173150831	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttccactgggcctgggagatGggcaattctattcatggaca	12	9	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:173150831G>T	uc003isv.2	+	3	899	c.163G>T	c.(163-165)GGG>TGG	p.G55W		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	55	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						CCTGGGAGATGGGCAATTCTA	0.398													15	18	---	---	---	---	PASS	T	173150831	T	T	173150831	3	4	108	1	0	0	0	0	1	0	0	0	6225	1348	47	3	169	3	GALNTL6	4	173150831	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3812967	173150831	18003445	326	39768										
ING2	3622	broad.mit.edu	37	chr4	184431872	184431872	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaagggaagcttcacctgttGagtttgcaatagatcctaat	9	7	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:184431872G>C	uc003ivs.1	+	2	739	c.610G>C	c.(610-612)GAG>CAG	p.E204Q	ING2_uc011ckk.1_Missense_Mutation_p.E164Q	NM_001564	NP_001555	Q9H160	ING2_HUMAN	inhibitor of growth family, member 2	204					chromatin modification|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of growth|signal transduction|transcription, DNA-dependent	CCAAT-binding factor complex|Sin3 complex	chromatin binding|DNA binding|protein complex binding|zinc ion binding			ovary(1)	1		all_lung(41;5.16e-14)|Lung NSC(41;1.33e-13)|Colorectal(36;0.00139)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|all_hematologic(60;0.0207)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.15e-26)|Epithelial(43;2.98e-22)|OV - Ovarian serous cystadenocarcinoma(60;7.64e-10)|GBM - Glioblastoma multiforme(59;4.22e-06)|Colorectal(24;5.87e-06)|STAD - Stomach adenocarcinoma(60;2.09e-05)|COAD - Colon adenocarcinoma(29;5.15e-05)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		TTCACCTGTTGAGTTTGCAAT	0.418													18	11	---	---	---	---	PASS	C	184431872	C	C	184431872	3	2	108	1	0	0	0	0	1	0	0	0	7736	1291	45	2	616	2	ING2	4	184431872	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	11281041	184431872	6722404	327	39769										
FAT1	2195	broad.mit.edu	37	chr4	187549470	187549470	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attcgtgtcgctgacattgaCcacaatccttgcaaagttgc	8	11	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:187549470C>T	uc003izf.2	-	9	4836	c.4648G>A	c.(4648-4650)GTC>ATC	p.V1550I		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1550	Extracellular (Potential).|Cadherin 13.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTGACATTGACCACAATCCTT	0.468										HNSCC(5;0.00058)			11	13	---	---	---	---	PASS	T	187549470	T	T	187549470	3	4	108	1	0	0	0	0	1	0	0	0	5689	507	18	3	9194	3	FAT1	4	187549470	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3117598	187549470	3604806	328	39770										
ZFP42	132625	broad.mit.edu	37	chr4	188924664	188924664	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agagctcaaaactaaagagaCatttcctggttcatactgga	8	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr4:188924664C>A	uc003izg.1	+	3	948	c.703C>A	c.(703-705)CAT>AAT	p.H235N	ZFP42_uc003izh.1_Missense_Mutation_p.H235N|ZFP42_uc003izi.1_Missense_Mutation_p.H235N	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	235	C2H2-type 2.				female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		ACTAAAGAGACATTTCCTGGT	0.507													5	44	---	---	---	---	PASS	A	188924664	A	A	188924664	3	1	108	1	0	0	0	0	1	0	0	0	17647	478	17	3	705	3	ZFP42	4	188924664	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1375194	188924664	2229612	329	39771										
ADAMTS16	170690	broad.mit.edu	37	chr5	5182170	5182170	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttccagtcaggcatgatacGaacagaagaggcagattact	10	8	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:5182170G>T	uc003jdl.2	+	4	653	c.515G>T	c.(514-516)CGA>CTA	p.R172L	ADAMTS16_uc003jdk.1_Missense_Mutation_p.R172L|ADAMTS16_uc003jdj.1_Missense_Mutation_p.R172L	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	172					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GGCATGATACGAACAGAAGAG	0.463													52	105	---	---	---	---	PASS	T	5182170	T	T	5182170	3	4	108	1	0	0	0	0	1	0	0	0	261	1058	37	2	529	2	ADAMTS16	5	5182170	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08		5182170	175733090	330	39772										
SRD5A1	6715	broad.mit.edu	37	chr5	6651984	6651984	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttacccatttctgatgcgagGaggaaagcctatgccactgt	10	10	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:6651984G>C	uc003jdw.2	+	2	513	c.323G>C	c.(322-324)GGA>GCA	p.G108A	SRD5A1_uc011cml.1_RNA|SRD5A1_uc011cmm.1_Intron	NM_001047	NP_001038	P18405	S5A1_HUMAN	steroid-5-alpha-reductase 1	108					androgen biosynthetic process|cell differentiation|sex determination|sex differentiation	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|electron carrier activity				0					Dutasteride(DB01126)|Finasteride(DB01216)	CTGATGCGAGGAGGAAAGCCT	0.373													31	71	---	---	---	---	PASS	C	6651984	C	C	6651984	3	2	108	1	0	0	0	0	1	0	0	0	15137	1174	41	2	329	2	SRD5A1	5	6651984	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1469814	6651984	174263276	331	39773										
SRD5A1	6715	broad.mit.edu	37	chr5	6668313	6668313	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttttttaatttttttttcttAggtggtacctccggaaattt	6	5	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:6668313A>T	uc003jdw.2	+	5	904	c.714_splice	c.e5-2	p.E238_splice	SRD5A1_uc011cml.1_Splice_Site|SRD5A1_uc011cmm.1_Splice_Site_p.E191_splice	NM_001047	NP_001038	P18405	S5A1_HUMAN	steroid-5-alpha-reductase 1						androgen biosynthetic process|cell differentiation|sex determination|sex differentiation	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|electron carrier activity				0					Dutasteride(DB01126)|Finasteride(DB01216)	TTTTTTTCTTAGGTGGTACCT	0.279													20	45	---	---	---	---	PASS	T	6668313	T	T	6668313	5	4	108	1	0	0	0	0	0	0	1	0	15137	434	15	5	730	5	SRD5A1	5	6668313	Splice_Site	SNP	A	TCGA-46-3769-01A-01D-0983-08	16329	6668313	174246947	332	39774										
ADCY2	108	broad.mit.edu	37	chr5	7709423	7709423	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgacccggtacttggagtccTggggggcagccaagcccttt	14	12	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:7709423T>A	uc003jdz.1	+	10	1568	c.1501T>A	c.(1501-1503)TGG>AGG	p.W501R	ADCY2_uc011cmo.1_Missense_Mutation_p.W321R	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	501	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CTTGGAGTCCTGGGGGGCAGC	0.607													13	25	---	---	---	---	PASS	A	7709423	A	A	7709423	3	1	108	1	0	0	0	0	1	0	0	0	294	1580	55	5	1539	5	ADCY2	5	7709423	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	1041110	7709423	173205837	333	39775										
ADCY2	108	broad.mit.edu	37	chr5	7826896	7826896	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgcacctgtcgaggaataaTcaacgtgaaaggaaaggggg	15	6	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:7826896T>A	uc003jdz.1	+	25	3255	c.3188T>A	c.(3187-3189)ATC>AAC	p.I1063N	ADCY2_uc011cmo.1_Missense_Mutation_p.I883N|ADCY2_uc010itm.1_Missense_Mutation_p.I259N	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	1063	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CGAGGAATAATCAACGTGAAA	0.522													36	100	---	---	---	---	PASS	A	7826896	A	A	7826896	3	1	108	1	0	0	0	0	1	0	0	0	294	1435	50	5	3286	5	ADCY2	5	7826896	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	117473	7826896	173088364	334	39776										
TAS2R1	50834	broad.mit.edu	37	chr5	9629796	9629796	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggatatcctcatcttcaaccAgatgaagagtgggtgacgga	12	8	3	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:9629796A>T	uc003jem.1	-	1	668	c.349T>A	c.(349-351)TGG>AGG	p.W117R		NM_019599	NP_062545	Q9NYW7	TA2R1_HUMAN	taste receptor T2R1	117	Cytoplasmic (Potential).				chemosensory behavior|sensory perception of taste	integral to membrane	taste receptor activity			ovary(3)	3						ATCTTCAACCAGATGAAGAGT	0.438													15	30	---	---	---	---	PASS	T	9629796	T	T	9629796	3	4	108	1	0	0	0	0	1	0	0	0	15562	188	7	5	554	5	TAS2R1	5	9629796	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	1802900	9629796	171285464	335	39777										
MYO10	4651	broad.mit.edu	37	chr5	16689976	16689976	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aatcaggtggaaagtcctatCggccataatgatgtcgatcc	10	9	1	1	rs145872653	by1000genomes	TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:16689976C>A	uc003jft.3	-	28	4321	c.3853G>T	c.(3853-3855)GAT>TAT	p.D1285Y	MYO10_uc011cnc.1_Missense_Mutation_p.D164Y|MYO10_uc011cnd.1_Missense_Mutation_p.D642Y|MYO10_uc011cne.1_Missense_Mutation_p.D642Y|MYO10_uc010itx.2_Missense_Mutation_p.D908Y	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1285	PH 1.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						AAAGTCCTATCGGCCATAATG	0.483													33	71	---	---	---	---	PASS	A	16689976	A	A	16689976	3	1	108	1	0	0	0	0	1	0	0	0	10062	884	31	2	2379	2	MYO10	5	16689976	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	7060180	16689976	164225284	336	39778										
CDH12	1010	broad.mit.edu	37	chr5	21975227	21975227	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agacatttctggaacagtagCaacataaggtccatccaaaa	7	9	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:21975227C>A	uc010iuc.2	-	3	957	c.499G>T	c.(499-501)GCT>TCT	p.A167S	CDH12_uc011cno.1_Missense_Mutation_p.A167S|CDH12_uc003jgk.2_Missense_Mutation_p.A167S	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	167	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						GGAACAGTAGCAACATAAGGT	0.398										HNSCC(59;0.17)			38	95	---	---	---	---	PASS	A	21975227	A	A	21975227	3	1	108	1	0	0	0	0	1	0	0	0	3098	710	25	3	1925	3	CDH12	5	21975227	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5285251	21975227	158940033	337	39779										
IL7R	3575	broad.mit.edu	37	chr5	35867468	35867468	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctacaagagatatatttcatCgagacaaagaaattcttact	5	7	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:35867468C>T	uc003jjs.2	+	3	371	c.282C>T	c.(280-282)ATC>ATT	p.I94I	IL7R_uc011coo.1_Silent_p.I94I|IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	94	Extracellular (Potential).				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			TATATTTCATCGAGACAAAGA	0.388													31	68	---	---	---	---	PASS	T	35867468	T	T	35867468	2	4	108	1	0	0	0	0	0	0	0	1	7705	874	31	2		2	IL7R	5	35867468	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	13892241	35867468	145047792	338	39780										
NIPBL	25836	broad.mit.edu	37	chr5	37000524	37000524	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gataaagcttgggaatatgaAgagcgtgacagaagaagctc	13	5	0	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:37000524A>G	uc003jkl.3	+	12	3853	c.3354A>G	c.(3352-3354)GAA>GAG	p.E1118E	NIPBL_uc003jkk.3_Silent_p.E1118E	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1118					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GGGAATATGAAGAGCGTGACA	0.418													65	16	---	---	---	---	PASS	G	37000524	G	G	37000524	2	3	108	1	0	0	0	0	0	0	0	1	10428	69	3	5		5	NIPBL	5	37000524	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	1133056	37000524	143914736	339	39781										
HEATR7B2	133558	broad.mit.edu	37	chr5	41057273	41057273	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttactggaggctctggagctCtgcagatctgaatgggggtg	16	7	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:41057273C>T	uc003jmj.3	-	9	1347	c.857G>A	c.(856-858)AGA>AAA	p.R286K	HEATR7B2_uc003jmi.3_Intron	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	286	HEAT 3.						binding			ovary(6)|central_nervous_system(2)	8						CTCTGGAGCTCTGCAGATCTG	0.413													31	17	---	---	---	---	PASS	T	41057273	T	T	41057273	3	4	108	1	0	0	0	0	1	0	0	0	7035	913	32	2	4036	2	HEATR7B2	5	41057273	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4056749	41057273	139857987	340	39782										
HCN1	348980	broad.mit.edu	37	chr5	45303823	45303823	+	Missense_Mutation	SNP	C	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttctcgtatgatataatctCcaggttgaaacacctcaaat							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:45303823C>A	uc003jok.2	-	6	1521	c.1496G>T	c.(1495-1497)GGA>GTA	p.G499V		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	499	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GATATAATCTCCAGGTTGAAA	0.408													40	69	---	---	---	---	PASS	A	45303823	A	A	45303823	3	1	108	1	0	0	0	0	1	0	0	0	6996	855	30	2	1188	2	HCN1	5	45303823	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4246550	45303823	135611437	341	39783	745	2								
HCN1	348980	broad.mit.edu	37	chr5	45303824	45303824	+	Missense_Mutation	SNP	C	G	G													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttctcgtatgatataatctcCaggttgaaacacctcaaatc							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:45303824C>G	uc003jok.2	-	6	1520	c.1495G>C	c.(1495-1497)GGA>CGA	p.G499R		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	499	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						ATATAATCTCCAGGTTGAAAC	0.408													41	70	---	---	---	---	PASS	G	45303824	G	G	45303824	3	3	108	1	0	0	0	0	1	0	0	0	6996	603	21	4	1189	4	HCN1	5	45303824	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1	45303824	135611436	342	39784	745	2								
HCN1	348980	broad.mit.edu	37	chr5	45462083	45462083	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaaattctcaccactgcactGgcgagatcatatgtcatgtg	8	10	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:45462083G>A	uc003jok.2	-	3	901	c.876C>T	c.(874-876)GCC>GCT	p.A292A		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	292	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CCACTGCACTGGCGAGATCAT	0.388													15	40	---	---	---	---	PASS	A	45462083	A	A	45462083	2	1	108	1	0	0	0	0	0	0	0	1	6996	1335	47	3		3	HCN1	5	45462083	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	158259	45462083	135453177	343	39785										
ITGA1	3672	broad.mit.edu	37	chr5	52157370	52157371	+	Frame_Shift_Ins	INS	-	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggagaggtgaatcattaccINSttgtgtaaagttggatctac							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:52157370_52157371insT	uc003jou.2	+	3	324_325	c.272_273insT	c.(271-273)CCTfs	p.P91fs	ITGA1_uc003jov.2_RNA	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	91	Extracellular (Potential).|FG-GAP 1.				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				GAATCATTACCTTGTGTAAAGT	0.292													27	13	---	---	---	---		T	52157371	T	T	52157370	7	5	108	1	0	1	1	0	0	0	0	0	7872	681	24	0	282	0	ITGA1	5	52157370	Frame_Shift_Ins	INS	-	TCGA-46-3769-01A-01D-0983-08	6695287	52157370	128757890	344	39786										
FST	10468	broad.mit.edu	37	chr5	52780903	52780903	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcaaggttgggagaggccgGtgttccctctgtgatgagct	15	8	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:52780903G>T	uc003jpd.2	+	5	825	c.798G>T	c.(796-798)CGG>CGT	p.R266R	FST_uc003jpc.2_Silent_p.R266R	NM_013409	NP_037541	P19883	FST_HUMAN	follistatin isoform FST344 precursor	266	Kazal-like 3.|Follistatin-like 3.				hemopoietic progenitor cell differentiation|negative regulation of activin receptor signaling pathway|negative regulation of follicle-stimulating hormone secretion|negative regulation of transcription from RNA polymerase II promoter|positive regulation of hair follicle development	extracellular region	activin binding|protein binding|signal transducer activity				0		Ovarian(174;1.78e-06)|Lung NSC(810;3.55e-06)|Breast(144;4.08e-05)				GGAGAGGCCGGTGTTCCCTCT	0.488													24	36	---	---	---	---	PASS	T	52780903	T	T	52780903	2	4	108	1	0	0	0	0	0	0	0	1	6076	1248	44	3		3	FST	5	52780903	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	623533	52780903	128134357	345	39787										
BDP1	55814	broad.mit.edu	37	chr5	70837292	70837292	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttcttcagtaggagtatgtAtaattcctcatgttcattca	6	7	5	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:70837292A>T	uc003kbp.1	+	29	6297	c.6034A>T	c.(6034-6036)ATA>TTA	p.I2012L	BDP1_uc003kbo.2_Missense_Mutation_p.I2012L|BDP1_uc003kbq.1_RNA|BDP1_uc003kbr.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	2012					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AGGAGTATGTATAATTCCTCA	0.279													9	37	---	---	---	---	PASS	T	70837292	T	T	70837292	3	4	108	1	0	0	0	0	1	0	0	0	1395	449	16	5	6148	5	BDP1	5	70837292	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	18056389	70837292	110077968	346	39788										
MAP1B	4131	broad.mit.edu	37	chr5	71493547	71493547	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acttctactagtctttaccaAgacaaacaggaagggaaaag	8	8	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:71493547A>T	uc003kbw.3	+	5	4606	c.4365A>T	c.(4363-4365)CAA>CAT	p.Q1455H	MAP1B_uc010iyw.1_Missense_Mutation_p.Q1472H|MAP1B_uc010iyx.1_Missense_Mutation_p.Q1329H|MAP1B_uc010iyy.1_Missense_Mutation_p.Q1329H	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1455						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		GTCTTTACCAAGACAAACAGG	0.418													19	31	---	---	---	---	PASS	T	71493547	T	T	71493547	3	4	108	1	0	0	0	0	1	0	0	0	9228	69	3	5	4383	5	MAP1B	5	71493547	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	656255	71493547	109421713	347	39789										
ZNF366	167465	broad.mit.edu	37	chr5	71756484	71756484	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccgcagtgcgtgcacgcgtgCggcttgatcccactgtggcc	14	15	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:71756484C>T	uc003kce.1	-	2	1026	c.840G>A	c.(838-840)CCG>CCA	p.P280P		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	280					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		TGCACGCGTGCGGCTTGATCC	0.642													13	59	---	---	---	---	PASS	T	71756484	T	T	71756484	2	4	108	1	0	0	0	0	0	0	0	1	17867	755	27	1		1	ZNF366	5	71756484	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	262937	71756484	109158776	348	39790										
CMYA5	202333	broad.mit.edu	37	chr5	79026607	79026607	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccactgttttcaacagttacAccagaatacatggtcctatc	5	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:79026607A>C	uc003kgc.2	+	2	2091	c.2019A>C	c.(2017-2019)ACA>ACC	p.T673T		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	673						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CAACAGTTACACCAGAATACA	0.483													5	24	---	---	---	---	PASS	C	79026607	C	C	79026607	2	2	108	1	0	0	0	0	0	0	0	1	3590	146	6	5		5	CMYA5	5	79026607	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	7270123	79026607	101888653	349	39791										
CKMT2	1160	broad.mit.edu	37	chr5	80559433	80559433	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tagatagaattggtcgatcaGaggtaacgtctctctcactt	9	8	3	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:80559433G>T	uc003khc.3	+	10	1380	c.1138G>T	c.(1138-1140)GAG>TAG	p.E380*	RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Nonsense_Mutation_p.E380*|CKMT2_uc003khd.3_Nonsense_Mutation_p.E380*|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816	P17540	KCRS_HUMAN	sarcomeric mitochondrial creatine kinase	380	Phosphagen kinase C-terminal.				creatine metabolic process|muscle contraction	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;2.29e-44)|Epithelial(54;1.05e-38)|all cancers(79;4.15e-34)	Creatine(DB00148)	TGGTCGATCAGAGGTAACGTC	0.453													4	59	---	---	---	---	PASS	T	80559433	T	T	80559433	4	4	108	1	0	0	0	0	0	1	0	0	3451	943	33	2	1168	2	CKMT2	5	80559433	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1532826	80559433	100355827	350	39792										
GPR98	84059	broad.mit.edu	37	chr5	89924618	89924618	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aattctgcctcatacaatacGaggaggtgcagaagtgagcg	12	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:89924618G>A	uc003kju.2	+	8	1574	c.1478G>A	c.(1477-1479)CGA>CAA	p.R493Q	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	493	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CATACAATACGAGGAGGTGCA	0.428													23	19	---	---	---	---	PASS	A	89924618	A	A	89924618	3	1	108	1	0	0	0	0	1	0	0	0	6721	1058	37	2	1508	2	GPR98	5	89924618	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	9365185	89924618	90990642	351	39793										
MCTP1	79772	broad.mit.edu	37	chr5	94050558	94050558	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acatacctcctggatggcatAgattttatttataaatccct	5	9	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:94050558A>G	uc003kkx.2	-	20	2644	c.2644T>C	c.(2644-2646)TAT>CAT	p.Y882H	MCTP1_uc003kkv.2_Missense_Mutation_p.Y661H|MCTP1_uc003kkw.2_Missense_Mutation_p.Y575H|MCTP1_uc003kku.2_Missense_Mutation_p.Y398H	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L	882					calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		TGGATGGCATAGATTTTATTT	0.378													18	83	---	---	---	---	PASS	G	94050558	G	G	94050558	3	3	108	1	0	0	0	0	1	0	0	0	9400	420	15	5	371	5	MCTP1	5	94050558	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	4125940	94050558	86864702	352	39794										
PAM	5066	broad.mit.edu	37	chr5	102363902	102363902	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttagcagattctgaacacaaActcgagacgagttcaggaag	10	8	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:102363902A>T	uc003knw.2	+	24	3076	c.2703A>T	c.(2701-2703)AAA>AAT	p.K901N	PAM_uc003kns.2_Missense_Mutation_p.K794N|PAM_uc003knt.2_Missense_Mutation_p.K902N|PAM_uc003knu.2_Missense_Mutation_p.K833N|PAM_uc003knv.2_Intron|PAM_uc011cuz.1_Missense_Mutation_p.K803N|PAM_uc003knz.2_Intron	NM_000919	NP_000910	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	901	Cytoplasmic (Potential).				peptide metabolic process|protein modification process	extracellular region|integral to membrane|stored secretory granule	L-ascorbic acid binding|peptidylamidoglycolate lyase activity|peptidylglycine monooxygenase activity|protein binding				0		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	CTGAACACAAACTCGAGACGA	0.398													27	25	---	---	---	---	PASS	T	102363902	T	T	102363902	3	4	108	1	0	0	0	0	1	0	0	0	11412	40	2	5	2800	5	PAM	5	102363902	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	8313344	102363902	78551358	353	39795										
TNFAIP8	25816	broad.mit.edu	37	chr5	118728655	118728655	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgagctctacagagtgaccaGggagtacacccaaaacaaga	10	10	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:118728655G>T	uc003ksh.2	+	3	864	c.176G>T	c.(175-177)AGG>ATG	p.R59M	TNFAIP8_uc003ksf.1_Intron|TNFAIP8_uc003ksg.2_Missense_Mutation_p.R49M|TNFAIP8_uc011cwf.1_Missense_Mutation_p.R53M|TNFAIP8_uc003ksi.2_Missense_Mutation_p.R59M	NM_014350	NP_055165	O95379	TFIP8_HUMAN	tumor necrosis factor, alpha-induced protein 8	59	Potential.				anti-apoptosis|apoptosis|negative regulation of anti-apoptosis	cytoplasm	caspase inhibitor activity|protein binding			ovary(1)	1		all_cancers(142;0.0317)|Prostate(80;0.111)|Breast(839;0.231)		Epithelial(69;4.63e-83)|OV - Ovarian serous cystadenocarcinoma(64;1.39e-82)|all cancers(49;4.88e-75)|GBM - Glioblastoma multiforme(465;0.00338)|BRCA - Breast invasive adenocarcinoma(61;0.0148)|COAD - Colon adenocarcinoma(49;0.0829)		AGAGTGACCAGGGAGTACACC	0.433													21	12	---	---	---	---	PASS	T	118728655	T	T	118728655	3	4	108	1	0	0	0	0	1	0	0	0	16273	1000	35	3	187	3	TNFAIP8	5	118728655	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	16364753	118728655	62186605	354	39796										
FBN2	2201	broad.mit.edu	37	chr5	127681162	127681162	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggggcactcctcacactcgGtgccccaagccgccccgaca	10	19	1	0	rs145565243		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:127681162G>T	uc003kuu.2	-	24	3543	c.3104C>A	c.(3103-3105)ACC>AAC	p.T1035N	FBN2_uc003kuv.2_Missense_Mutation_p.T1002N	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1035	TB 5.				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)		CTCACACTCGGTGCCCCAAGC	0.602													15	13	---	---	---	---	PASS	T	127681162	T	T	127681162	3	4	108	1	0	0	0	0	1	0	0	0	5703	1261	44	3	5802	3	FBN2	5	127681162	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	8952507	127681162	53234098	355	39797										
SHROOM1	134549	broad.mit.edu	37	chr5	132158542	132158542	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggaggacaggtccctgggggCcgcgccgggctgggagacgg	22	11	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:132158542C>A	uc003kxx.2	-	10	3310	c.2505G>T	c.(2503-2505)CGG>CGT	p.R835R	SHROOM1_uc003kxy.1_Silent_p.R830R	NM_133456	NP_597713	Q2M3G4	SHRM1_HUMAN	shroom family member 1	835					actin filament bundle assembly|cell morphogenesis	cytoplasm|microtubule	actin filament binding			pancreas(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCCCTGGGGGCCGCGCCGGGC	0.647													3	3	---	---	---	---	PASS	A	132158542	A	A	132158542	2	1	108	1	0	0	0	0	0	0	0	1	14293	726	26	3		3	SHROOM1	5	132158542	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	4477380	132158542	48756718	356	39798										
SEC24A	10802	broad.mit.edu	37	chr5	134023936	134023945	+	Frame_Shift_Del	DEL	GTCTTCAGGA	-	-													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagtacaatccatttctacgGtcttcaggaaagtctctctc							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:134023936_134023945delGTCTTCAGGA	uc003kzs.2	+	11	1958_1967	c.1670_1679delGTCTTCAGGA	c.(1669-1680)GGTCTTCAGGAAfs	p.G557fs	SEC24A_uc011cxu.1_Frame_Shift_Del_p.G321fs	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A	557_560					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CATTTCTACGGTCTTCAGGAAAGTCTCTCT	0.31													22	14	---	---	---	---		-	134023945	-	-	134023936	7	5	108	1	0	1	0	1	0	0	0	0	13994	1261	44	0	1712	0	SEC24A	5	134023936	Frame_Shift_Del	DEL	GTCTTCAGGA	TCGA-46-3769-01A-01D-0983-08	1865394	134023936	46891324	357	39799										
PCDHA7	56141	broad.mit.edu	37	chr5	140215673	140215673	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgccggcactgctggcgcctCgggtgggtggcactggtggc	19	13	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:140215673C>T	uc003lhq.2	+	1	1705	c.1705C>T	c.(1705-1707)CGG>TGG	p.R569W	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.R569W	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	569	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGGCGCCTCGGGTGGGTGG	0.692													37	41	---	---	---	---	PASS	T	140215673	T	T	140215673	3	4	108	1	0	0	0	0	1	0	0	0	11529	875	31	2	1707	2	PCDHA7	5	140215673	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6191737	140215673	40699587	358	39800										
PCDHB7	56129	broad.mit.edu	37	chr5	140552867	140552867	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaagtaccactccaggggcgGcatttctcctagagagtgca	11	11	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:140552867G>T	uc003lit.2	+	1	625	c.451G>T	c.(451-453)GCA>TCA	p.A151S		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	151	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCAGGGGCGGCATTTCTCCT	0.448													28	22	---	---	---	---	PASS	T	140552867	T	T	140552867	3	4	108	1	0	0	0	0	1	0	0	0	11547	1203	42	3	453	3	PCDHB7	5	140552867	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	337194	140552867	40362393	359	39801										
PCDHGB1	56104	broad.mit.edu	37	chr5	140731747	140731747	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcccgccagcgcctgctggtCgctgtgcgtgatggaggaca	16	13	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:140731747C>A	uc003ljo.1	+	1	1920	c.1920C>A	c.(1918-1920)GTC>GTA	p.V640V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Silent_p.V640V	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	640	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCTGCTGGTCGCTGTGCGTG	0.692													12	13	---	---	---	---	PASS	A	140731747	A	A	140731747	2	1	108	1	0	0	0	0	0	0	0	1	11562	871	31	2		2	PCDHGB1	5	140731747	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	178880	140731747	40183513	360	39802										
PCDH1	5097	broad.mit.edu	37	chr5	141236853	141236853	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	catctctcctatgctgccatCaggggtggtgcgctcatagt	11	12	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:141236853C>G	uc003llp.2	-	4	3400	c.3283G>C	c.(3283-3285)GAT>CAT	p.D1095H		NM_032420	NP_115796	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 2 precursor	Error:Variant_position_missing_in_Q08174_after_alignment					cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		ATGCTGCCATCAGGGGTGGTG	0.622													12	10	---	---	---	---	PASS	G	141236853	G	G	141236853	3	3	108	1	0	0	0	0	1	0	0	0	11506	826	29	2	438	2	PCDH1	5	141236853	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	505106	141236853	39678407	361	39803										
ABLIM3	22885	broad.mit.edu	37	chr5	148627474	148627474	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccctgcacacagctggctatGagatgtccctcaatggctgt	10	13	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:148627474G>C	uc003lpy.2	+	18	1932	c.1681G>C	c.(1681-1683)GAG>CAG	p.E561Q	ABLIM3_uc003lpz.1_Missense_Mutation_p.E561Q|ABLIM3_uc003lqa.1_Missense_Mutation_p.E458Q|ABLIM3_uc003lqb.2_Missense_Mutation_p.E450Q|ABLIM3_uc003lqc.1_Missense_Mutation_p.E528Q|ABLIM3_uc003lqd.1_Missense_Mutation_p.E466Q|ABLIM3_uc003lqf.2_Missense_Mutation_p.E450Q|ABLIM3_uc003lqe.1_Missense_Mutation_p.E450Q	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3	561					axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCTGGCTATGAGATGTCCCT	0.602													14	11	---	---	---	---	PASS	C	148627474	C	C	148627474	3	2	108	1	0	0	0	0	1	0	0	0	96	1291	45	2	1747	2	ABLIM3	5	148627474	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	7390621	148627474	32287786	362	39804										
EBF1	1879	broad.mit.edu	37	chr5	158204441	158204441	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtataaatgaatctgcctGgtgttcctttgcagaactgc	9	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:158204441G>T	uc010jip.2	-	10	1318	c.1016C>A	c.(1015-1017)CCA>CAA	p.P339Q	EBF1_uc011ddw.1_Missense_Mutation_p.P207Q|EBF1_uc011ddx.1_Missense_Mutation_p.P340Q|EBF1_uc003lxl.3_Missense_Mutation_p.P308Q	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	339	IPT/TIG.				multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAATCTGCCTGGTGTTCCTTT	0.498			T	HMGA2	lipoma								4	72	---	---	---	---	PASS	T	158204441	T	T	158204441	3	4	108	1	0	0	0	0	1	0	0	0	4880	1348	47	3	787	3	EBF1	5	158204441	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	9576967	158204441	22710819	363	39805										
GABRA6	2559	broad.mit.edu	37	chr5	161116112	161116112	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	taaaaagtccattgctcacaAcatgacaactcctaataaac	3	11	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:161116112A>G	uc003lyu.2	+	4	721	c.383A>G	c.(382-384)AAC>AGC	p.N128S	GABRA6_uc003lyv.2_5'Flank	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	128	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ATTGCTCACAACATGACAACT	0.403										TCGA Ovarian(5;0.080)			16	14	---	---	---	---	PASS	G	161116112	G	G	161116112	3	3	108	1	0	0	0	0	1	0	0	0	6165	43	2	5	397	5	GABRA6	5	161116112	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	2911671	161116112	19799148	364	39806										
GABRA1	2554	broad.mit.edu	37	chr5	161324409	161324409	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagagagcctcagctaaaagCccccacaccacatcaataga	6	15	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:161324409C>T	uc010jiw.2	+	11	1820	c.1352C>T	c.(1351-1353)GCC>GTC	p.A451V	GABRA1_uc010jix.2_Missense_Mutation_p.A451V|GABRA1_uc010jiy.2_Missense_Mutation_p.A451V|GABRA1_uc003lyx.3_Missense_Mutation_p.A451V|GABRA1_uc010jiz.2_Missense_Mutation_p.A451V|GABRA1_uc010jja.2_Missense_Mutation_p.A451V|GABRA1_uc010jjb.2_Missense_Mutation_p.A451V	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	451					gamma-aminobutyric acid signaling pathway|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			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	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;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	CAGCTAAAAGCCCCCACACCA	0.413													38	56	---	---	---	---	PASS	T	161324409	T	T	161324409	3	4	108	1	0	0	0	0	1	0	0	0	6160	739	26	3	1386	3	GABRA1	5	161324409	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	208297	161324409	19590851	365	39807										
ODZ2	57451	broad.mit.edu	37	chr5	167643784	167643784	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttgctcaggtattgcagtaGacaagaatgggctcatgtac	11	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:167643784G>A	uc010jjd.2	+	22	4063	c.4063G>A	c.(4063-4065)GAC>AAC	p.D1355N	ODZ2_uc003lzr.3_Missense_Mutation_p.D1125N|ODZ2_uc003lzt.3_Missense_Mutation_p.D728N|ODZ2_uc010jje.2_Missense_Mutation_p.D619N	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		TATTGCAGTAGACAAGAATGG	0.517													5	49	---	---	---	---	PASS	A	167643784	A	A	167643784	3	1	108	1	0	0	0	0	1	0	0	0	10835	942	33	2	4149	2	ODZ2	5	167643784	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	6319375	167643784	13271476	366	39808										
SLIT3	6586	broad.mit.edu	37	chr5	168216618	168216618	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctggagcaatatccgatatCtgattcttgctgatgtctct	8	9	4	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:168216618C>T	uc003mab.2	-	11	1446	c.1026G>A	c.(1024-1026)CAG>CAA	p.Q342Q	SLIT3_uc010jjg.2_Silent_p.Q342Q|SLIT3_uc010jji.2_Silent_p.Q342Q|SLIT3_uc003mac.1_Silent_p.Q139Q	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	342	LRR 8.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TATCCGATATCTGATTCTTGC	0.517													8	14	---	---	---	---	PASS	T	168216618	T	T	168216618	2	4	108	1	0	0	0	0	0	0	0	1	14741	912	32	2		2	SLIT3	5	168216618	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	572834	168216618	12698642	367	39809										
DOCK2	1794	broad.mit.edu	37	chr5	169116285	169116285	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctagtgcgatggggcagccGgggcttccctaaggagattg	16	10	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:169116285G>T	uc003maf.2	+	9	871	c.791G>T	c.(790-792)CGG>CTG	p.R264L	DOCK2_uc011der.1_RNA	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	264					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGGGGCAGCCGGGGCTTCCCT	0.478													20	14	---	---	---	---	PASS	T	169116285	T	T	169116285	3	4	108	1	0	0	0	0	1	0	0	0	4687	1116	39	1	825	1	DOCK2	5	169116285	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	899667	169116285	11798975	368	39810										
DOCK2	1794	broad.mit.edu	37	chr5	169506093	169506093	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggtccaagaagaggacaaaGagaagcagcgtagtttttgc	13	6	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:169506093G>C	uc003maf.2	+	49	5189	c.5109G>C	c.(5107-5109)AAG>AAC	p.K1703N	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.K1195N|DOCK2_uc003mah.2_Missense_Mutation_p.K259N	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1703					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGAGGACAAAGAGAAGCAGCG	0.587													17	35	---	---	---	---	PASS	C	169506093	C	C	169506093	3	2	108	1	0	0	0	0	1	0	0	0	4687	933	33	2	5303	2	DOCK2	5	169506093	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	389808	169506093	11409167	369	39811										
BTNL3	10917	broad.mit.edu	37	chr5	180419834	180419834	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acagtggcaagtcactggacCgggcaagtttgtccaggcct	13	11	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:180419834C>A	uc003mmr.2	+	2	199	c.71C>A	c.(70-72)CCG>CAG	p.P24Q		NM_197975	NP_932079	Q6UXE8	BTNL3_HUMAN	butyrophilin-like 3 precursor	24	Extracellular (Potential).				lipid metabolic process	integral to membrane					0	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.00336)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)|all_lung(500;0.248)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000272)			GTCACTGGACCGGGCAAGTTT	0.552													11	15	---	---	---	---	PASS	A	180419834	A	A	180419834	3	1	108	1	0	0	0	0	1	0	0	0	1566	652	23	1	77	1	BTNL3	5	180419834	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	10913741	180419834	495426	370	39812										
TRIM7	81786	broad.mit.edu	37	chr5	180622557	180622557	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acgccaggacgcgggtgttgGtgtcgaagcggcaggggtgg	21	8	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr5:180622557G>T	uc003mmz.1	-	7	1212	c.1145C>A	c.(1144-1146)ACC>AAC	p.T382N	TRIM7_uc003mmv.1_Missense_Mutation_p.T200N|TRIM7_uc003mmw.1_Missense_Mutation_p.T174N|TRIM7_uc003mmx.1_Missense_Mutation_p.T174N|TRIM7_uc003mmy.1_Missense_Mutation_p.T174N	NM_203293	NP_976038	Q9C029	TRIM7_HUMAN	tripartite motif-containing 7 isoform 1	382	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;6.03e-06)|all_epithelial(37;7.1e-07)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000172)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;2e-06)|Epithelial(171;1.35e-05)|OV - Ovarian serous cystadenocarcinoma(192;0.000128)|Kidney(146;0.0674)|GBM - Glioblastoma multiforme(465;0.0802)		GCGGGTGTTGGTGTCGAAGCG	0.701													6	11	---	---	---	---	PASS	T	180622557	T	T	180622557	3	4	108	1	0	0	0	0	1	0	0	0	16540	1261	44	3	394	3	TRIM7	5	180622557	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	202723	180622557	292703	371	39813										
F13A1	2162	broad.mit.edu	37	chr6	6182372	6182372	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgtaaatgaggtcgctgttGacctggaaacaggagaggag	15	5	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:6182372G>T	uc003mwv.2	-	11	1431	c.1308C>A	c.(1306-1308)GTC>GTA	p.V436V	F13A1_uc011dib.1_Silent_p.V373V	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	436					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	GGTCGCTGTTGACCTGGAAAC	0.448													8	14	---	---	---	---	PASS	T	6182372	T	T	6182372	2	4	108	1	0	0	0	0	0	0	0	1	5340	1277	45	2		2	F13A1	6	6182372	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08		6182372	164932695	372	39814										
RREB1	6239	broad.mit.edu	37	chr6	7232080	7232080	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgcagaagatcacctgtcccCactgtccccgggttttccct	8	16	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:7232080C>T	uc003mxc.2	+	10	4138	c.3748C>T	c.(3748-3750)CAC>TAC	p.H1250Y	RREB1_uc003mxb.2_Missense_Mutation_p.H1250Y|RREB1_uc010jnx.2_Missense_Mutation_p.H1250Y	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1250	C2H2-type 12.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				CACCTGTCCCCACTGTCCCCG	0.607													10	15	---	---	---	---	PASS	T	7232080	T	T	7232080	3	4	108	1	0	0	0	0	1	0	0	0	13679	594	21	3	3774	3	RREB1	6	7232080	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1049708	7232080	163882987	373	39815										
TMEM14C	51522	broad.mit.edu	37	chr6	10725208	10725208	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttcagagtgcctttgcattGgtttggctttggctacgcag	12	8	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:10725208G>A	uc003mzh.2	+	3	216	c.35G>A	c.(34-36)TGG>TAG	p.W12*	TMEM14C_uc010joq.1_Nonsense_Mutation_p.W12*|TMEM14C_uc003mzi.2_Nonsense_Mutation_p.W12*	NM_016462	NP_057546	Q9P0S9	TM14C_HUMAN	transmembrane protein 14C	12	Helical; (Potential).				heme biosynthetic process	integral to membrane|mitochondrial membrane					0	Ovarian(93;0.107)|Breast(50;0.137)	all_hematologic(90;0.135)	Epithelial(50;0.246)			CCTTTGCATTGGTTTGGCTTT	0.433													43	70	---	---	---	---	PASS	A	10725208	A	A	10725208	4	1	108	1	0	0	0	0	0	1	0	0	16062	1357	47	3	41	3	TMEM14C	6	10725208	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3493128	10725208	160389859	374	39816										
HIVEP1	3096	broad.mit.edu	37	chr6	12161767	12161767	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgaaaatgaagacgatgatGaggacagccaggctgaatca	12	6	1	6			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:12161767G>A	uc003nac.2	+	8	6762	c.6583G>A	c.(6583-6585)GAG>AAG	p.E2195K	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2195					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				AGACGATGATGAGGACAGCCA	0.473													17	22	---	---	---	---	PASS	A	12161767	A	A	12161767	3	1	108	1	0	0	0	0	1	0	0	0	7186	1291	45	2	6609	2	HIVEP1	6	12161767	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1436559	12161767	158953300	375	39817										
NUP153	9972	broad.mit.edu	37	chr6	17637456	17637456	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aacacagcatactgaacactCccaagatccaatgggccttt	6	13	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:17637456C>A	uc003ncd.1	-	16	2592	c.2392G>T	c.(2392-2394)GAG>TAG	p.E798*	NUP153_uc011dje.1_Nonsense_Mutation_p.E829*|NUP153_uc010jpl.1_Nonsense_Mutation_p.E756*	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	798	RanBP2-type 3.				carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			ACTGAACACTCCCAAGATCCA	0.408													56	76	---	---	---	---	PASS	A	17637456	A	A	17637456	4	1	108	1	0	0	0	0	0	1	0	0	10755	864	30	2	2063	2	NUP153	6	17637456	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5475689	17637456	153477611	376	39818										
CDKAL1	54901	broad.mit.edu	37	chr6	21201499	21201499	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagggagaagtctcgggtttGacaaaggtaagtaaaagatg	14	3	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:21201499G>A	uc003ndc.1	+	15	1716	c.1542G>A	c.(1540-1542)TTG>TTA	p.L514L	CDKAL1_uc003ndd.1_Silent_p.L514L|CDKAL1_uc003nde.1_Silent_p.L423L|CDKAL1_uc003ndf.1_Intron|CDKAL1_uc003ndg.2_RNA	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	514					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)			TCTCGGGTTTGACAAAGGTAA	0.453													42	59	---	---	---	---	PASS	A	21201499	A	A	21201499	2	1	108	1	0	0	0	0	0	0	0	1	3152	1281	45	2		2	CDKAL1	6	21201499	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	3564043	21201499	149913568	377	39819										
LRRC16A	55604	broad.mit.edu	37	chr6	25554286	25554286	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtctgatagaattgtggatGaaatcctggatgcactctca	10	7	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:25554286G>A	uc011djw.1	+	28	2930	c.2554G>A	c.(2554-2556)GAA>AAA	p.E852K	LRRC16A_uc010jpx.2_Missense_Mutation_p.E852K|LRRC16A_uc010jpy.2_Missense_Mutation_p.E852K|LRRC16A_uc003nfa.1_Missense_Mutation_p.E206K	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	852					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						AATTGTGGATGAAATCCTGGA	0.448													10	17	---	---	---	---	PASS	A	25554286	A	A	25554286	3	1	108	1	0	0	0	0	1	0	0	0	8971	1291	45	2	2664	2	LRRC16A	6	25554286	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4352787	25554286	145560781	378	39820										
SLC17A1	6568	broad.mit.edu	37	chr6	25811931	25811931	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcctggtcaggaagaagtctGataactgacctgctaggtta	11	8	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:25811931G>C	uc003nfh.3	-	9	1081	c.965C>G	c.(964-966)TCA>TGA	p.S322*	SLC17A1_uc011djy.1_RNA|SLC17A1_uc010jqb.1_Nonsense_Mutation_p.S320*|SLC17A1_uc010jqc.1_Nonsense_Mutation_p.S266*	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),	322					sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						GAAGAAGTCTGATAACTGACC	0.448													5	90	---	---	---	---	PASS	C	25811931	C	C	25811931	4	2	108	1	0	0	0	0	0	1	0	0	14416	1294	45	2	454	2	SLC17A1	6	25811931	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	257645	25811931	145303136	379	39821										
HIST1H3D	8351	broad.mit.edu	37	chr6	26197084	26197084	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caatttacgccctctccccaCgaatgcggcgagcaagctgg	10	15	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:26197084C>A	uc003ngv.2	-	2	792	c.395G>T	c.(394-396)CGT>CTT	p.R132L	HIST1H2BF_uc003ngx.2_5'Flank	NM_003530	NP_003521	P68431	H31_HUMAN	histone cluster 1, H3d	132					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.196)				CCTCTCCCCACGAATGCGGCG	0.507													25	86	---	---	---	---	PASS	A	26197084	A	A	26197084	3	1	108	1	0	0	0	0	1	0	0	0	7158	536	19	1	19	1	HIST1H3D	6	26197084	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	385153	26197084	144917983	380	39822										
HIST1H1D	3007	broad.mit.edu	37	chr6	26234618	26234618	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttggcagctttttttggctGaggtgttttcacctttttcg	10	8	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:26234618G>A	uc003nhd.2	-	1	599	c.544C>T	c.(544-546)CAG>TAG	p.Q182*		NM_005320	NP_005311	P16402	H13_HUMAN	histone cluster 1, H1d	182					nucleosome assembly	nucleosome|nucleus	DNA binding			skin(1)	1		all_hematologic(11;0.0945)|Acute lymphoblastic leukemia(11;0.167)				TTTTTTGGCTGAGGTGTTTTC	0.502													40	57	---	---	---	---	PASS	A	26234618	A	A	26234618	4	1	108	1	0	0	0	0	0	1	0	0	7125	1299	45	2	125	2	HIST1H1D	6	26234618	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	37534	26234618	144880449	381	39823										
BTN2A2	10385	broad.mit.edu	37	chr6	26393166	26393166	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgaagagggcctgaaacttCacagagtggggacccaccag	13	11	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:26393166C>T	uc003nhq.2	+	8	1629	c.1543C>T	c.(1543-1545)CAC>TAC	p.H515Y	BTN2A2_uc011dkg.1_3'UTR|BTN2A2_uc003nhr.2_Missense_Mutation_p.H399Y|BTN2A2_uc011dkh.1_Missense_Mutation_p.H305Y|BTN2A2_uc003nhs.2_Intron|BTN2A2_uc003nht.2_Missense_Mutation_p.H515Y|BTN2A2_uc011dki.1_3'UTR	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	515	Cytoplasmic (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						CCTGAAACTTCACAGAGTGGG	0.572													52	49	---	---	---	---	PASS	T	26393166	T	T	26393166	3	4	108	1	0	0	0	0	1	0	0	0	1561	826	29	2	1569	2	BTN2A2	6	26393166	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	158548	26393166	144721901	382	39824										
BTN3A3	10384	broad.mit.edu	37	chr6	26444514	26444514	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acttctacgaaaaagccctgGtggagctgaaggttgcaggt	13	8	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:26444514G>T	uc003nhz.2	+	4	595	c.415G>T	c.(415-417)GTG>TTG	p.V139L	BTN3A3_uc003nia.2_Missense_Mutation_p.V97L|BTN3A3_uc011dkn.1_Missense_Mutation_p.V97L	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	139	Extracellular (Potential).|Ig-like V-type 1.					integral to membrane					0						AAAAGCCCTGGTGGAGCTGAA	0.488													23	118	---	---	---	---	PASS	T	26444514	T	T	26444514	3	4	108	1	0	0	0	0	1	0	0	0	1564	1261	44	3	421	3	BTN3A3	6	26444514	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	51348	26444514	144670553	383	39825										
BTN3A3	10384	broad.mit.edu	37	chr6	26445991	26445991	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggatggagggatccatctgGagtgcaggtccactggctgg	17	8	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:26445991G>T	uc003nhz.2	+	5	673	c.493G>T	c.(493-495)GAG>TAG	p.E165*	BTN3A3_uc003nia.2_Nonsense_Mutation_p.E123*|BTN3A3_uc011dkn.1_Nonsense_Mutation_p.E123*	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	165	Extracellular (Potential).|Ig-like V-type 2.					integral to membrane					0						GATCCATCTGGAGTGCAGGTC	0.507													7	77	---	---	---	---	PASS	T	26445991	T	T	26445991	4	4	108	1	0	0	0	0	0	1	0	0	1564	1175	41	2	503	2	BTN3A3	6	26445991	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1477	26445991	144669076	384	39826										
HIST1H1B	3009	broad.mit.edu	37	chr6	27834802	27834802	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcttagggctcttcgccaccTttttgacgccagccgccgcg	10	16	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:27834802T>A	uc003njx.2	-	1	558	c.506A>T	c.(505-507)AAG>ATG	p.K169M		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	169					nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						CTTCGCCACCTTTTTGACGCC	0.597													53	37	---	---	---	---	PASS	A	27834802	A	A	27834802	3	1	108	1	0	0	0	0	1	0	0	0	7123	1609	56	5	178	5	HIST1H1B	6	27834802	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	1388811	27834802	143280265	385	39827										
HIST1H4L	8368	broad.mit.edu	37	chr6	27841265	27841265	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctcctttgcccagacccttCccgcctttgccgcgcccaga	7	21	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:27841265C>G	uc003njz.2	-	1	25	c.24G>C	c.(22-24)GGG>GGC	p.G8G	HIST1H3I_uc003njy.2_5'Flank	NM_003546	NP_003537	P62805	H4_HUMAN	histone cluster 1, H4l	8					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)|breast(1)	2						CCAGACccttcccgcctttgc	0.448													7	46	---	---	---	---	PASS	G	27841265	G	G	27841265	2	3	108	1	0	0	0	0	0	0	0	1	7176	842	30	2		2	HIST1H4L	6	27841265	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	6463	27841265	143273802	386	39828										
ZNF165	7718	broad.mit.edu	37	chr6	28053318	28053318	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccagaggatgaaggacttctGatagtgaagatagaagagga	14	4	1	7			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:28053318G>A	uc003nkg.2	+	3	1144	c.60G>A	c.(58-60)CTG>CTA	p.L20L	ZNF165_uc003nkh.2_Silent_p.L20L|ZNF165_uc003nki.3_Silent_p.L20L	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	20					viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AAGGACTTCTGATAGTGAAGA	0.448													56	163	---	---	---	---	PASS	A	28053318	A	A	28053318	2	1	108	1	0	0	0	0	0	0	0	1	17737	1277	45	2		2	ZNF165	6	28053318	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	212053	28053318	143061749	387	39829										
OR2B3	442184	broad.mit.edu	37	chr6	29054912	29054912	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atggacacattgccaaatatGgtgattgtgtatgatattaa	9	4	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:29054912G>C	uc003nlx.2	-	1	179	c.114C>G	c.(112-114)ACC>ACG	p.T38T		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						TGCCAAATATGGTGATTGTGT	0.408													16	59	---	---	---	---	PASS	C	29054912	C	C	29054912	2	2	108	1	0	0	0	0	0	0	0	1	10990	1335	47	4		4	OR2B3	6	29054912	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1001594	29054912	142060155	388	39830										
OR5V1	81696	broad.mit.edu	37	chr6	29323495	29323495	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caggcagaatgtcaacactgTatgcaccactgagttaagga	10	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:29323495T>C	uc011dlo.1	-	1	560	c.478A>G	c.(478-480)ACA>GCA	p.T160A		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	160	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4						GTCAACACTGTATGCACCACT	0.443													43	90	---	---	---	---	PASS	C	29323495	C	C	29323495	3	2	108	1	0	0	0	0	1	0	0	0	11184	1638	57	5	490	5	OR5V1	6	29323495	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	268583	29323495	141791572	389	39831										
OR11A1	26531	broad.mit.edu	37	chr6	29395013	29395013	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtaccgtctgggccccatcaGgagtgggtagtggagtgggt	18	8	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:29395013G>T	uc003nmg.2	-	1	497	c.406C>A	c.(406-408)CTG>ATG	p.L136M		NM_013937	NP_039225	Q9GZK7	O11A1_HUMAN	olfactory receptor, family 11, subfamily A,	136	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GGCCCCATCAGGAGTGGGTAG	0.562													38	12	---	---	---	---	PASS	T	29395013	T	T	29395013	3	4	108	1	0	0	0	0	1	0	0	0	10924	991	35	3	545	3	OR11A1	6	29395013	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	71518	29395013	141720054	390	39832										
UBD	10537	broad.mit.edu	37	chr6	29524035	29524035	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcctgcacaggaaccttggtCttagaccggacatgttcttt	9	11	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:29524035C>G	uc003nmo.2	-	2	344	c.120G>C	c.(118-120)AAG>AAC	p.K40N	GABBR1_uc003nmp.3_3'UTR	NM_006398	NP_006389	O15205	UBD_HUMAN	ubiquitin D	40	Ubiquitin 1.				aggresome assembly|myeloid dendritic cell differentiation|negative regulation of mitotic prometaphase|positive regulation of apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein ubiquitination|response to interferon-gamma|response to tumor necrosis factor|ubiquitin-dependent protein catabolic process	aggresome|cytoplasm|nucleus	proteasome binding				0						GAACCTTGGTCTTAGACCGGA	0.473													26	26	---	---	---	---	PASS	G	29524035	G	G	29524035	3	3	108	1	0	0	0	0	1	0	0	0	16840	912	32	2	381	2	UBD	6	29524035	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	129022	29524035	141591032	391	39833										
GABBR1	2550	broad.mit.edu	37	chr6	29577154	29577154	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctggtcagctgggggggaccCtcctgcatggcacaggggag	18	11	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:29577154C>A	uc003nmt.3	-	15	2047	c.1711G>T	c.(1711-1713)GGG>TGG	p.G571W	GABBR1_uc003nmp.3_Missense_Mutation_p.G454W|GABBR1_uc003nms.3_Missense_Mutation_p.G454W|GABBR1_uc003nmu.3_Missense_Mutation_p.G509W|GABBR1_uc011dlr.1_Missense_Mutation_p.G394W|GABBR1_uc011dls.1_Intron	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	571	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	GGGGGGGACCCTCCTGCATGG	0.353													35	19	---	---	---	---	PASS	A	29577154	A	A	29577154	3	1	108	1	0	0	0	0	1	0	0	0	6155	681	24	3	1210	3	GABBR1	6	29577154	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	53119	29577154	141537913	392	39834										
MOG	4340	broad.mit.edu	37	chr6	29627135	29627135	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	accaagacaccctatccgggCtctggtcggggatgaagtgg	14	11	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:29627135C>T	uc003nnf.2	+	2	306	c.128C>T	c.(127-129)GCT>GTT	p.A43V	MOG_uc003qzk.1_Missense_Mutation_p.A43V|MOG_uc010kle.1_Intron|MOG_uc010klf.1_Intron|MOG_uc003nmy.1_Missense_Mutation_p.A43V|MOG_uc003nmz.2_Missense_Mutation_p.A43V|MOG_uc011dlt.1_5'UTR|MOG_uc003nna.2_Intron|MOG_uc011dlu.1_Intron|MOG_uc011dlv.1_Intron|MOG_uc003nnd.2_Missense_Mutation_p.A43V|MOG_uc003nne.2_Missense_Mutation_p.A43V|MOG_uc003nng.2_Missense_Mutation_p.A43V|MOG_uc003nnh.2_Missense_Mutation_p.A43V|MOG_uc003nni.2_Missense_Mutation_p.A43V|MOG_uc003nnj.2_Missense_Mutation_p.A43V|MOG_uc003nnk.2_Missense_Mutation_p.A43V	NM_206809	NP_996532	Q16653	MOG_HUMAN	myelin oligodendrocyte glycoprotein isoform	43	Ig-like V-type.|Extracellular (Potential).				cell adhesion|central nervous system development|positive regulation of MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)	1						CCTATCCGGGCTCTGGTCGGG	0.557													55	168	---	---	---	---	PASS	T	29627135	T	T	29627135	3	4	108	1	0	0	0	0	1	0	0	0	9693	797	28	3	134	3	MOG	6	29627135	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	49981	29627135	141487932	393	39835										
TNXB	7148	broad.mit.edu	37	chr6	32017776	32017776	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctcccatcattcactcaccCgtcaccccaatggcagacac	5	19	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:32017776C>G	uc003nzl.2	-	27	9634	c.9432G>C	c.(9430-9432)ACG>ACC	p.T3144T		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3191					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TTCACTCACCCGTCACCCCAA	0.602													6	71	---	---	---	---	PASS	G	32017776	G	G	32017776	2	3	108	1	0	0	0	0	0	0	0	1	16343	666	23	4		4	TNXB	6	32017776	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	2390641	32017776	139097291	394	39836										
ZBTB22	9278	broad.mit.edu	37	chr6	33284035	33284035	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgcaaatgcctcttgggagGaagatgagaaatcagtggac	13	7	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:33284035G>T	uc003oeb.2	-	2	811	c.659C>A	c.(658-660)TCC>TAC	p.S220Y	TAPBP_uc003odx.1_5'Flank|TAPBP_uc010jus.1_5'Flank|TAPBP_uc003ody.2_5'Flank|TAPBP_uc003odz.2_5'Flank|TAPBP_uc010jut.1_5'Flank|TAPBP_uc011drc.1_5'Flank|ZBTB22_uc010juu.2_Missense_Mutation_p.S220Y	NM_005453	NP_005444	O15209	ZBT22_HUMAN	zinc finger and BTB domain containing 22	220					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTCTTGGGAGGAAGATGAGAA	0.617													8	53	---	---	---	---	PASS	T	33284035	T	T	33284035	3	4	108	1	0	0	0	0	1	0	0	0	17527	1174	41	2	1249	2	ZBTB22	6	33284035	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1266259	33284035	137831032	395	39837										
ITPR3	3710	broad.mit.edu	37	chr6	33641418	33641418	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atatcctacctgctgtctgtCttcaagaaggagtttgtgga	10	8	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:33641418C>G	uc011drk.1	+	23	3198	c.2979C>G	c.(2977-2979)GTC>GTG	p.V993V		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	993	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						TGCTGTCTGTCTTCAAGAAGG	0.552													86	74	---	---	---	---	PASS	G	33641418	G	G	33641418	2	3	108	1	0	0	0	0	0	0	0	1	7922	900	32	2		2	ITPR3	6	33641418	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	357383	33641418	137473649	396	39838										
ABCC10	89845	broad.mit.edu	37	chr6	43403589	43403589	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggccaaagtgtccttggaccGgatccagcttttcctcgacc	10	14	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:43403589G>A	uc003ouy.1	+	5	1924	c.1709G>A	c.(1708-1710)CGG>CAG	p.R570Q	ABCC10_uc003ouz.1_Missense_Mutation_p.R527Q|ABCC10_uc010jyo.1_5'UTR	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	570						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			TCCTTGGACCGGATCCAGCTT	0.567													13	71	---	---	---	---	PASS	A	43403589	A	A	43403589	3	1	108	1	0	0	0	0	1	0	0	0	50	1116	39	1	1590	1	ABCC10	6	43403589	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	9762171	43403589	127711478	397	39839										
YIPF3	25844	broad.mit.edu	37	chr6	43480033	43480033	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gatgggcgggatgttggggcCctccagtgtgtccaggatcc	17	10	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:43480033C>A	uc003ovl.1	-	9	1082	c.925G>T	c.(925-927)GGC>TGC	p.G309C	C6orf154_uc003ovk.1_5'Flank|YIPF3_uc011dvk.1_Missense_Mutation_p.G274C|YIPF3_uc010jyr.1_Missense_Mutation_p.G315C|YIPF3_uc010jys.1_Missense_Mutation_p.G152C|YIPF3_uc003ovm.1_Missense_Mutation_p.G183C|YIPF3_uc010jyt.1_Missense_Mutation_p.G220C	NM_015388	NP_056203	Q9GZM5	YIPF3_HUMAN	natural killer cell-specific antigen KLIP1	309					cell differentiation	integral to membrane|plasma membrane|transport vesicle					0	all_cancers(18;3.79e-05)|Lung NSC(15;0.00217)|all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00736)|OV - Ovarian serous cystadenocarcinoma(102;0.0711)			ATGTTGGGGCCCTCCAGTGTG	0.612													41	37	---	---	---	---	PASS	A	43480033	A	A	43480033	3	1	108	1	0	0	0	0	1	0	0	0	17476	623	22	3	131	3	YIPF3	6	43480033	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	76444	43480033	127635034	398	39840										
TDRD6	221400	broad.mit.edu	37	chr6	46656656	46656656	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccaagtgtgccatccccaccGcattcactgccagctccgca	7	19	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:46656656G>T	uc003oyj.2	+	1	791	c.791G>T	c.(790-792)CGC>CTC	p.R264L	TDRD6_uc010jze.2_Missense_Mutation_p.R258L	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	264					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			CATCCCCACCGCATTCACTGC	0.622													5	27	---	---	---	---	PASS	T	46656656	T	T	46656656	3	4	108	1	0	0	0	0	1	0	0	0	15731	1087	38	1	793	1	TDRD6	6	46656656	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3176623	46656656	124458411	399	39841										
C6orf138	442213	broad.mit.edu	37	chr6	47846520	47846520	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggtgacgctaagaattagcCagaagtttcccagagggtgg	14	7	0	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:47846520C>G	uc011dwm.1	-	3	2094	c.2009G>C	c.(2008-2010)TGG>TCG	p.W670S	C6orf138_uc011dwn.1_Missense_Mutation_p.W434S	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	687	Helical; (Potential).					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						AAGAATTAGCCAGAAGTTTCC	0.458													13	131	---	---	---	---	PASS	G	47846520	G	G	47846520	3	3	108	1	0	0	0	0	1	0	0	0	2332	595	21	4	484	4	C6orf138	6	47846520	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1189864	47846520	123268547	400	39842										
C6orf138	442213	broad.mit.edu	37	chr6	47847511	47847511	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcctctatgtttgtgaatgGgctggcacccatgccaaaag	11	10	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:47847511G>T	uc011dwm.1	-	3	1103	c.1018C>A	c.(1018-1020)CCA>ACA	p.P340T	C6orf138_uc011dwn.1_Missense_Mutation_p.P104T	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	357	SSD.					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						TTTGTGAATGGGCTGGCACCC	0.453													28	43	---	---	---	---	PASS	T	47847511	T	T	47847511	3	4	108	1	0	0	0	0	1	0	0	0	2332	1232	43	3	1475	3	C6orf138	6	47847511	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	991	47847511	123267556	401	39843										
DEFB110	245913	broad.mit.edu	37	chr6	49986761	49986761	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aatttcattttcatgacactGatttttacattgaccattac	3	8	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:49986761G>A	uc003pac.2	-	2	179	c.133C>T	c.(133-135)CAG>TAG	p.Q45*	DEFB110_uc011dwr.1_Intron	NM_001037497	NP_001032586	Q30KQ9	DB110_HUMAN	beta-defensin 110 isoform a	45					defense response to bacterium	extracellular region				ovary(1)	1	Lung NSC(77;0.042)					TCATGACACTGATTTTTACAT	0.398													39	58	---	---	---	---	PASS	A	49986761	A	A	49986761	4	1	108	1	0	0	0	0	0	1	0	0	4400	1299	45	2	210	2	DEFB110	6	49986761	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2139250	49986761	121128306	402	39844										
PKHD1	5314	broad.mit.edu	37	chr6	51799118	51799118	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggccatgaaaatcagcttgcCccctaatggacaaagggaaa	10	10	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:51799118C>T	uc003pah.1	-	37	6187	c.5911G>A	c.(5911-5913)GGC>AGC	p.G1971S	PKHD1_uc010jzn.1_5'UTR|PKHD1_uc003pai.2_Missense_Mutation_p.G1971S	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1971	Extracellular (Potential).|G8 1.		G -> D (in ARPKD).		cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					ATCAGCTTGCCCCCTAATGGA	0.498											OREG0017491	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	71	---	---	---	---	PASS	T	51799118	T	T	51799118	3	4	108	1	0	0	0	0	1	0	0	0	11971	623	22	3	6476	3	PKHD1	6	51799118	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1812357	51799118	119315949	403	39845										
ELOVL5	60481	broad.mit.edu	37	chr6	53135398	53135398	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggtgagatttacctgaatgTagaagtttgtgaagagagca	14	3	0	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:53135398T>A	uc003pbq.1	-	7	1197	c.749A>T	c.(748-750)TAC>TTC	p.Y250F	ELOVL5_uc003pbr.1_Missense_Mutation_p.Y250F|ELOVL5_uc011dwx.1_Missense_Mutation_p.Y277F|ELOVL5_uc003pbs.1_Silent_p.L208L|ELOVL5_uc003pbt.3_RNA	NM_021814	NP_068586	Q9NYP7	ELOV5_HUMAN	elongation of very long chain fatty acids-like	250				YFGATLNSFIHVLMYSYYGLSSVPSMRPYLWWKKYITQGQL LQFVLTIIQTSCGVIWPCTFPLGWLYFQIGYMISLIALFTN FYIQTYNKKGASRR -> SVCADNHPDQLRGHLAVHIPSWL VVFPDWIHDFPDCSLHKLLHSDLQQERGLPKERPPEGPPEW VHGCCEWTHQQLFTPGKQCEAKEAAEGLKSKN (in Ref. 4; BAD93035).	fatty acid elongation, monounsaturated fatty acid|fatty acid elongation, polyunsaturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding				0	Lung NSC(77;0.116)					TACCTGAATGTAGAAGTTTGT	0.403													5	56	---	---	---	---	PASS	A	53135398	A	A	53135398	3	1	108	1	0	0	0	0	1	0	0	0	5077	1638	57	5	158	5	ELOVL5	6	53135398	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	1336280	53135398	117979669	404	39846										
ELOVL5	60481	broad.mit.edu	37	chr6	53160466	53160466	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggcctagcaatgccttgaaaTaggtactaagtgatgcatca	10	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:53160466T>C	uc003pbq.1	-	2	480	c.32A>G	c.(31-33)TAT>TGT	p.Y11C	ELOVL5_uc003pbr.1_Missense_Mutation_p.Y11C|ELOVL5_uc011dwx.1_Missense_Mutation_p.Y11C|ELOVL5_uc003pbs.1_Missense_Mutation_p.Y11C|ELOVL5_uc003pbu.2_Missense_Mutation_p.Y11C|ELOVL5_uc011dwy.1_RNA	NM_021814	NP_068586	Q9NYP7	ELOV5_HUMAN	elongation of very long chain fatty acids-like	11					fatty acid elongation, monounsaturated fatty acid|fatty acid elongation, polyunsaturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding				0	Lung NSC(77;0.116)					TGCCTTGAAATAGGTACTAAG	0.353													6	39	---	---	---	---	PASS	C	53160466	C	C	53160466	3	2	108	1	0	0	0	0	1	0	0	0	5077	1406	49	5	895	5	ELOVL5	6	53160466	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	25068	53160466	117954601	405	39847										
GFRAL	389400	broad.mit.edu	37	chr6	55196525	55196525	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tattcaagctatggggttaaGcttggaaaatgaatacactt	9	5	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:55196525G>T	uc003pcm.1	+	2	121	c.35G>T	c.(34-36)AGC>ATC	p.S12I		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	12						integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			ATGGGGTTAAGCTTGGAAAAT	0.323													37	47	---	---	---	---	PASS	T	55196525	T	T	55196525	3	4	108	1	0	0	0	0	1	0	0	0	6351	971	34	3	41	3	GFRAL	6	55196525	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2036059	55196525	115918542	406	39848										
GFRAL	389400	broad.mit.edu	37	chr6	55264069	55264069	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	actggatttcattcccccttCaatggtcagttaaaaatcaa	5	10	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:55264069C>T	uc003pcm.1	+	7	1130	c.1044C>T	c.(1042-1044)TTC>TTT	p.F348F		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	348	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			ATTCCCCCTTCAATGGTCAGT	0.299													10	12	---	---	---	---	PASS	T	55264069	T	T	55264069	2	4	108	1	0	0	0	0	0	0	0	1	6351	825	29	2		2	GFRAL	6	55264069	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	67544	55264069	115850998	407	39849										
BMP5	653	broad.mit.edu	37	chr6	55623910	55623910	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccttctggtgctataatccAgtcctgacacatacacacac	5	14	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:55623910A>G	uc003pcq.2	-	6	1820	c.1108T>C	c.(1108-1110)TGG>CGG	p.W370R	BMP5_uc011dxf.1_Intron	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	370					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			GCTATAATCCAGTCCTGacac	0.249													6	63	---	---	---	---	PASS	G	55623910	G	G	55623910	3	3	108	1	0	0	0	0	1	0	0	0	1463	188	7	5	264	5	BMP5	6	55623910	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	359841	55623910	115491157	408	39850										
KIAA1586	57691	broad.mit.edu	37	chr6	56918885	56918885	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tacaagaccttgctttaatgAttgacattcttgaagaattt	6	6	1	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:56918885A>G	uc003pdj.2	+	4	1758	c.1588A>G	c.(1588-1590)ATT>GTT	p.I530V	KIAA1586_uc011dxm.1_Missense_Mutation_p.I503V	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	530							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TGCTTTAATGATTGACATTCT	0.313													21	48	---	---	---	---	PASS	G	56918885	G	G	56918885	3	3	108	1	0	0	0	0	1	0	0	0	8245	333	12	5	1602	5	KIAA1586	6	56918885	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	1294975	56918885	114196182	409	39851										
EYS	346007	broad.mit.edu	37	chr6	66112499	66112499	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaacagatgcacataacatcCtaggaaagattaaaaaaata	6	6	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:66112499C>A	uc011dxu.1	-	7	1595	c.1057_splice	c.e7-1	p.D353_splice	EYS_uc003peq.2_Splice_Site_p.D353_splice|EYS_uc003per.1_Splice_Site_p.D353_splice	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						ACATAACATCCTAGGAAAGAT	0.303													5	24	---	---	---	---	PASS	A	66112499	A	A	66112499	5	1	108	1	0	0	0	0	0	0	1	0	5332	695	24	3	8488	3	EYS	6	66112499	Splice_Site	SNP	C	TCGA-46-3769-01A-01D-0983-08	9193614	66112499	105002568	410	39852										
COL19A1	1310	broad.mit.edu	37	chr6	70778345	70778345	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggatacaaggcccccaaggtCcacctggaaaagagggtcag	13	11	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:70778345C>A	uc003pfc.1	+	15	1318	c.1201C>A	c.(1201-1203)CCA>ACA	p.P401T	COL19A1_uc010kam.1_Missense_Mutation_p.P297T	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	401	Triple-helical region 2 (COL2).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CCCCCAAGGTCCACCTGGAAA	0.438													20	28	---	---	---	---	PASS	A	70778345	A	A	70778345	3	1	108	1	0	0	0	0	1	0	0	0	3676	855	30	2	1255	2	COL19A1	6	70778345	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4665846	70778345	100336722	411	39853										
COL12A1	1303	broad.mit.edu	37	chr6	75857502	75857502	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttcagcactgtgctagtttCcattcgactcacataaaact	5	11	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:75857502C>T	uc003phs.2	-	23	4472	c.4306G>A	c.(4306-4308)GAA>AAA	p.E1436K	COL12A1_uc003pht.2_Missense_Mutation_p.E272K	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1436	Fibronectin type-III 9.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GTGCTAGTTTCCATTCGACTC	0.373													43	52	---	---	---	---	PASS	T	75857502	T	T	75857502	3	4	108	1	0	0	0	0	1	0	0	0	3669	864	30	2	5061	2	COL12A1	6	75857502	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5079157	75857502	95257565	412	39854										
TBX18	9096	broad.mit.edu	37	chr6	85448296	85448296	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgcatatgattccaccaaggCttccaaacccattctaaatg	5	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:85448296C>T	uc003pkl.1	-	7	1018	c.1018G>A	c.(1018-1020)GCC>ACC	p.A340T	TBX18_uc010kbq.1_Missense_Mutation_p.A182T	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	340					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TCCACCAAGGCTTCCAAACCC	0.453													44	118	---	---	---	---	PASS	T	85448296	T	T	85448296	3	4	108	1	0	0	0	0	1	0	0	0	15650	797	28	3	813	3	TBX18	6	85448296	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	9590794	85448296	85666771	413	39855										
C6orf165	154313	broad.mit.edu	37	chr6	88144698	88144698	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgacatagttagagaaaaggCcaaaaaaaatacagagttaa	8	4	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:88144698C>A	uc003plv.2	+	11	1513	c.1421C>A	c.(1420-1422)GCC>GAC	p.A474D	SLC35A1_uc003plx.2_5'Flank|C6orf165_uc003plw.2_Missense_Mutation_p.A286D|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.A474D	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	474										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		AGAGAAAAGGCCAAAAAAAAT	0.269													11	38	---	---	---	---	PASS	A	88144698	A	A	88144698	3	1	108	1	0	0	0	0	1	0	0	0	2341	739	26	3	1459	3	C6orf165	6	88144698	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2696402	88144698	82970369	414	39856										
MDN1	23195	broad.mit.edu	37	chr6	90472117	90472117	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcaggagatcatgccaccgTttctgtctgtaacaggtctg	10	11	5	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:90472117T>C	uc003pnn.1	-	16	2393	c.2277A>G	c.(2275-2277)AAA>AAG	p.K759K	MDN1_uc003pno.1_Silent_p.K177K	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	759					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)		CATGCCACCGTTTCTGTCTGT	0.453													32	78	---	---	---	---	PASS	C	90472117	C	C	90472117	2	2	108	1	0	0	0	0	0	0	0	1	9415	1722	60	5		5	MDN1	6	90472117	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	2327419	90472117	80642950	415	39857										
MDN1	23195	broad.mit.edu	37	chr6	90482321	90482321	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagccaagtattggatggtaGaggttttgccagtcccggtc	14	8	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:90482321G>C	uc003pnn.1	-	14	2170	c.2054C>G	c.(2053-2055)TCT>TGT	p.S685C	MDN1_uc003pno.1_Missense_Mutation_p.S103C	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	685					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)		TTGGATGGTAGAGGTTTTGCC	0.473													36	74	---	---	---	---	PASS	C	90482321	C	C	90482321	3	2	108	1	0	0	0	0	1	0	0	0	9415	942	33	2	15092	2	MDN1	6	90482321	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	10204	90482321	80632746	416	39858										
MDN1	23195	broad.mit.edu	37	chr6	90482391	90482391	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctgacacacactgcaagctGctcgatgagaacagaggacg	12	11	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:90482391G>A	uc003pnn.1	-	14	2100	c.1984C>T	c.(1984-1986)CAG>TAG	p.Q662*	MDN1_uc003pno.1_Nonsense_Mutation_p.Q80*	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	662					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)		ACTGCAAGCTGCTCGATGAGA	0.517													41	85	---	---	---	---	PASS	A	90482391	A	A	90482391	4	1	108	1	0	0	0	0	0	1	0	0	9415	1328	46	3	15162	3	MDN1	6	90482391	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	70	90482391	80632676	417	39859										
GJA10	84694	broad.mit.edu	37	chr6	90605460	90605460	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctggatagacagatctcgcCcaggcagtcgcaaggccagc	12	13	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:90605460C>T	uc011eaa.1	+	1	1273	c.1273C>T	c.(1273-1275)CCA>TCA	p.P425S		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	425	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		CAGATCTCGCCCAGGCAGTCG	0.532													14	56	---	---	---	---	PASS	T	90605460	T	T	90605460	3	4	108	1	0	0	0	0	1	0	0	0	6401	623	22	3	1275	3	GJA10	6	90605460	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	123069	90605460	80509607	418	39860										
EPHA7	2045	broad.mit.edu	37	chr6	93964367	93964367	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aatgaatgtaacacctacatCttgatttgacatgtcccaat	5	9	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:93964367C>G	uc003poe.2	-	14	2771	c.2530G>C	c.(2530-2532)GAT>CAT	p.D844H	EPHA7_uc003pof.2_Missense_Mutation_p.D839H|EPHA7_uc011eac.1_Missense_Mutation_p.D840H	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	844	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		ACACCTACATCTTGATTTGAC	0.358													11	19	---	---	---	---	PASS	G	93964367	G	G	93964367	3	3	108	1	0	0	0	0	1	0	0	0	5172	913	32	2	482	2	EPHA7	6	93964367	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3358907	93964367	77150700	419	39861										
KLHL32	114792	broad.mit.edu	37	chr6	97489367	97489367	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttctccctttcctcacctcaGgcaatgttcagtctttgtat	5	13	5	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:97489367G>T	uc010kcm.1	+	4	677	c.205_splice	c.e4-1	p.A69_splice	KLHL32_uc003poy.2_Splice_Site_p.A69_splice|KLHL32_uc011ead.1_Intron|KLHL32_uc003poz.2_Splice_Site|KLHL32_uc011eae.1_Intron|KLHL32_uc003ppa.2_Splice_Site	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32											ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		CCTCACCTCAGGCAATGTTCA	0.428													15	48	---	---	---	---	PASS	T	97489367	T	T	97489367	5	4	108	1	0	0	0	0	0	0	1	0	8386	1014	35	3	214	3	KLHL32	6	97489367	Splice_Site	SNP	G	TCGA-46-3769-01A-01D-0983-08	3525000	97489367	73625700	420	39862										
SIM1	6492	broad.mit.edu	37	chr6	100838631	100838631	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggctcaacatttttccctctCtctgctggatatggtcacat	7	12	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:100838631C>G	uc003pqj.3	-	11	2114	c.1907G>C	c.(1906-1908)AGA>ACA	p.R636T	SIM1_uc010kcu.2_Missense_Mutation_p.R636T	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	636	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		TTTTCCCTCTCTCTGCTGGAT	0.488													44	107	---	---	---	---	PASS	G	100838631	G	G	100838631	3	3	108	1	0	0	0	0	1	0	0	0	14323	913	32	2	397	2	SIM1	6	100838631	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3349264	100838631	70276436	421	39863										
LIN28B	389421	broad.mit.edu	37	chr6	105526586	105526586	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcacctcaagaagcttcctcCacgaagtcatctatagcacc	5	15	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:105526586C>A	uc003pqv.1	+	4	884	c.681C>A	c.(679-681)TCC>TCA	p.S227S	LIN28B_uc010kda.1_3'UTR	NM_001004317	NP_001004317	Q6ZN17	LN28B_HUMAN	lin-28 homolog B	227					miRNA catabolic process|pre-miRNA processing|regulation of transcription, DNA-dependent|RNA 3'-end processing	cytoplasm|nucleus	DNA binding|protein binding|RNA binding|zinc ion binding				0		all_cancers(87;0.00346)|Acute lymphoblastic leukemia(125;2.26e-08)|all_hematologic(75;2.79e-06)|all_epithelial(87;0.204)				AAGCTTCCTCCACGAAGTCAT	0.483													10	48	---	---	---	---	PASS	A	105526586	A	A	105526586	2	1	108	1	0	0	0	0	0	0	0	1	8806	581	21	3		3	LIN28B	6	105526586	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	4687955	105526586	65588481	422	39864										
ZBTB24	9841	broad.mit.edu	37	chr6	109802814	109802816	+	In_Frame_Del	DEL	GTT	-	-													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggcaccagcagtgttcaaaGttgttggctttggggagcta							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:109802814_109802816delGTT	uc003ptl.1	-	2	582_584	c.414_416delAAC	c.(412-417)ACAACT>ACT	p.138_139TT>T	ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_In_Frame_Del_p.138_139TT>T|ZBTB24_uc010kdt.1_RNA|ZBTB24_uc003ptm.2_In_Frame_Del_p.138_139TT>T	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	138_139					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		AGTGTTCAAAGTTGTTGGCTTTG	0.424													104	46	---	---	---	---		-	109802816	-	-	109802814	7	5	108	1	0	1	0	1	0	0	0	0	17528	1029	36	0	1751	0	ZBTB24	6	109802814	In_Frame_Del	DEL	GTT	TCGA-46-3769-01A-01D-0983-08	4276228	109802814	61312253	423	39865										
LAMA4	3910	broad.mit.edu	37	chr6	112451158	112451158	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagccaccgaagtaaaacttCttttcacttgcttgtgtctg	8	10	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:112451158C>G	uc003pvu.2	-	30	4362	c.4053G>C	c.(4051-4053)AAG>AAC	p.K1351N	LAMA4_uc003pvv.2_Missense_Mutation_p.K1344N|LAMA4_uc003pvt.2_Missense_Mutation_p.K1344N	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1351	Laminin G-like 3.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		AGTAAAACTTCTTTTCACTTG	0.358													4	21	---	---	---	---	PASS	G	112451158	G	G	112451158	3	3	108	1	0	0	0	0	1	0	0	0	8608	912	32	2	1458	2	LAMA4	6	112451158	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2648344	112451158	58663909	424	39866										
RSPH4A	345895	broad.mit.edu	37	chr6	116948888	116948888	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agacataccgcatatttcttGccctcaagcagcttactgat	6	12	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:116948888G>A	uc003pxe.2	+	3	1163	c.1018G>A	c.(1018-1020)GCC>ACC	p.A340T	RSPH4A_uc010kee.2_Missense_Mutation_p.A340T	NM_001010892	NP_001010892	Q5TD94	RSH4A_HUMAN	radial spoke head 4 homolog A isoform 1	340					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton|radial spoke					0						CATATTTCTTGCCCTCAAGCA	0.438									Kartagener_syndrome				30	67	---	---	---	---	PASS	A	116948888	A	A	116948888	3	1	108	1	0	0	0	0	1	0	0	0	13706	1319	46	3	1028	3	RSPH4A	6	116948888	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4497730	116948888	54166179	425	39867										
TRDN	10345	broad.mit.edu	37	chr6	123892185	123892185	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctgaacgtcgtcactatgtCttctgtgactgtcctcttca	8	12	5	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:123892185C>A	uc003pzj.1	-	2	137	c.115G>T	c.(115-117)GAC>TAC	p.D39Y	TRDN_uc003pzk.1_Missense_Mutation_p.D39Y|TRDN_uc003pzl.1_Missense_Mutation_p.D39Y|TRDN_uc010ken.2_Missense_Mutation_p.D39Y|TRDN_uc010keo.1_Missense_Mutation_p.D39Y	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	39	Cytoplasmic.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		GTCACTATGTCTTCTGTGACT	0.473													20	45	---	---	---	---	PASS	A	123892185	A	A	123892185	3	1	108	1	0	0	0	0	1	0	0	0	16465	913	32	2	2234	2	TRDN	6	123892185	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6943297	123892185	47222882	426	39868										
LAMA2	3908	broad.mit.edu	37	chr6	129674308	129674308	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttgtcactgtttcaattcaGgtgtgcccctggctatactg	9	10	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:129674308G>T	uc003qbn.2	+	32	4629	c.4524_splice	c.e32-1	p.R1508_splice	LAMA2_uc003qbo.2_Splice_Site_p.R1508_splice	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor						cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TTTCAATTCAGGTGTGCCCCT	0.483													5	18	---	---	---	---	PASS	T	129674308	T	T	129674308	5	4	108	1	0	0	0	0	0	0	1	0	8606	1014	35	3	4649	3	LAMA2	6	129674308	Splice_Site	SNP	G	TCGA-46-3769-01A-01D-0983-08	5782123	129674308	41440759	427	39869										
SLC2A12	154091	broad.mit.edu	37	chr6	134350675	134350675	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtctatcaggacccctccGgtgagtgaggcaaggagggc	15	11	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:134350675G>T	uc003qem.1	-	2	459	c.288C>A	c.(286-288)ACC>ACA	p.T96T		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	96	Helical; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		GGACCCCTCCGGTGAGTGAGG	0.507													34	46	---	---	---	---	PASS	T	134350675	T	T	134350675	2	4	108	1	0	0	0	0	0	0	0	1	14541	1103	39	1		1	SLC2A12	6	134350675	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	4676367	134350675	36764392	428	39870										
MAP3K5	4217	broad.mit.edu	37	chr6	136888770	136888770	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acgtcagtgtaggacttaccTattggtttctattttcatcc	7	9	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:136888770T>A	uc003qhc.2	-	26	4121	c.3760A>T	c.(3760-3762)AGA>TGA	p.R1254*	MAP3K5_uc011edj.1_Nonsense_Mutation_p.R501*|MAP3K5_uc011edk.1_Nonsense_Mutation_p.R1100*	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	1254					activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		AGGACTTACCTATTGGTTTCT	0.423													16	26	---	---	---	---	PASS	A	136888770	A	A	136888770	4	1	108	1	0	0	0	0	0	1	0	0	9253	1536	53	5	384	5	MAP3K5	6	136888770	Nonsense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	2538095	136888770	34226297	429	39871										
TNFAIP3	7128	broad.mit.edu	37	chr6	138198379	138198379	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaccatggcacaactcatctCatcaatgccgcaaagtaagc	7	13	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:138198379C>T	uc003qhr.2	+	6	1038	c.972C>T	c.(970-972)CTC>CTT	p.L324L	TNFAIP3_uc003qhs.2_Silent_p.L324L	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	324	2 X approximate repeats.|2.				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)|p.L324fs*7(1)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		CAACTCATCTCATCAATGCCG	0.463			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								20	42	---	---	---	---	PASS	T	138198379	T	T	138198379	2	4	108	1	0	0	0	0	0	0	0	1	16271	813	29	2		2	TNFAIP3	6	138198379	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1309609	138198379	32916688	430	39872										
UTRN	7402	broad.mit.edu	37	chr6	144820427	144820427	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acaggatctggaaagagcatCacagttggcccggaaaatga	12	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:144820427C>A	uc003qkt.2	+	33	4720	c.4628C>A	c.(4627-4629)TCA>TAA	p.S1543*		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1543	Interaction with SYNM.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GAAAGAGCATCACAGTTGGCC	0.463													14	46	---	---	---	---	PASS	A	144820427	A	A	144820427	4	1	108	1	0	0	0	0	0	1	0	0	17100	838	29	2	4758	2	UTRN	6	144820427	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6622048	144820427	26294640	431	39873										
GRM1	2911	broad.mit.edu	37	chr6	146720825	146720825	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaagaaagaaggcaggggcaGggaatgccaagtgagttatc	16	5	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:146720825G>C	uc010khw.1	+	8	3120	c.2650G>C	c.(2650-2652)GGG>CGG	p.G884R	GRM1_uc010khv.1_Missense_Mutation_p.G884R|GRM1_uc003qll.2_Missense_Mutation_p.G884R|GRM1_uc011edz.1_Missense_Mutation_p.G884R|GRM1_uc011eea.1_Missense_Mutation_p.G884R	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	884	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GGCAGGGGCAGGGAATGCCAA	0.353													5	26	---	---	---	---	PASS	C	146720825	C	C	146720825	3	2	108	1	0	0	0	0	1	0	0	0	6796	1000	35	4	2676	4	GRM1	6	146720825	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1900398	146720825	24394242	432	39874										
PLEKHG1	57480	broad.mit.edu	37	chr6	151107545	151107545	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgaacttctgcaagatttgGaaaactgtgaaaatgatcct	9	6	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:151107545G>T	uc003qny.1	+	5	844	c.532G>T	c.(532-534)GAA>TAA	p.E178*	PLEKHG1_uc011eel.1_Nonsense_Mutation_p.E218*|PLEKHG1_uc011eem.1_Nonsense_Mutation_p.E237*|PLEKHG1_uc003qnz.2_Nonsense_Mutation_p.E178*	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	178	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		GCAAGATTTGGAAAACTGTGA	0.378													19	31	---	---	---	---	PASS	T	151107545	T	T	151107545	4	4	108	1	0	0	0	0	0	1	0	0	12068	1175	41	2	542	2	PLEKHG1	6	151107545	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4386720	151107545	20007522	433	39875										
SYNE1	23345	broad.mit.edu	37	chr6	152782735	152782735	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttaaattattttcgcaccttGgttagctgctctttgagctt	7	8	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:152782735G>T	uc010kiw.2	-	21	2993	c.2391C>A	c.(2389-2391)ACC>ACA	p.T797T	SYNE1_uc003qot.3_Silent_p.T804T|SYNE1_uc003qou.3_Silent_p.T797T|SYNE1_uc010kjb.1_Silent_p.T780T|SYNE1_uc003qow.2_Silent_p.T92T|SYNE1_uc003qox.1_Silent_p.T313T|SYNE1_uc003qoz.2_Silent_p.T229T|SYNE1_uc003qoy.2_Silent_p.T364T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	797	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)		TTCGCACCTTGGTTAGCTGCT	0.433										HNSCC(10;0.0054)			4	69	---	---	---	---	PASS	T	152782735	T	T	152782735	2	4	108	1	0	0	0	0	0	0	0	1	15442	1335	47	3		3	SYNE1	6	152782735	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1675190	152782735	18332332	434	39876										
FNDC1	84624	broad.mit.edu	37	chr6	159687195	159687195	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	catggacggcaatatgtgaaGcgcacgtggtatcgaaagtt	13	7	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:159687195G>T	uc010kjv.2	+	21	5564	c.5364G>T	c.(5362-5364)AAG>AAT	p.K1788N		NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	1788						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		AATATGTGAAGCGCACGTGGT	0.468													34	92	---	---	---	---	PASS	T	159687195	T	T	159687195	3	4	108	1	0	0	0	0	1	0	0	0	5968	962	34	3	5446	3	FNDC1	6	159687195	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	6904460	159687195	11427872	435	39877										
AGPAT4	56895	broad.mit.edu	37	chr6	161574454	161574454	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgatgcttgaggcgaggcagCcccttggcccgggccacctg	15	14	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:161574454C>A	uc003qtr.1	-	5	815	c.588G>T	c.(586-588)GGG>GGT	p.G196G	AGPAT4_uc003qts.1_Silent_p.G56G|AGPAT4_uc011egb.1_Intron|AGPAT4_uc003qtt.1_RNA|AGPAT4_uc011egc.1_3'UTR|AGPAT4_uc011egd.1_3'UTR|AGPAT4_uc011ege.1_3'UTR	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	196					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		GGCGAGGCAGCCCCTTGGCCC	0.587													4	9	---	---	---	---	PASS	A	161574454	A	A	161574454	2	1	108	1	0	0	0	0	0	0	0	1	389	726	26	3		3	AGPAT4	6	161574454	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1887259	161574454	9540613	436	39878										
PACRG	135138	broad.mit.edu	37	chr6	163483209	163483209	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgagaagctggattaccatCattatctgcctctgtttttt	7	8	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:163483209C>A	uc003qua.2	+	4	543	c.319C>A	c.(319-321)CAT>AAT	p.H107N	PACRG_uc003qub.2_Missense_Mutation_p.H107N|PACRG_uc003quc.2_Missense_Mutation_p.H107N	NM_152410	NP_689623	Q96M98	PACRG_HUMAN	parkin co-regulated gene protein isoform 1	107											0		Breast(66;2.41e-05)|Ovarian(120;0.0245)|Prostate(117;0.0273)|all_neural(5;0.0416)|Glioma(2;0.203)		OV - Ovarian serous cystadenocarcinoma(33;4.31e-19)|GBM - Glioblastoma multiforme(2;7.42e-11)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)|KIRC - Kidney renal clear cell carcinoma(3;0.205)|Kidney(3;0.242)		GGATTACCATCATTATCTGCC	0.453													16	41	---	---	---	---	PASS	A	163483209	A	A	163483209	3	1	108	1	0	0	0	0	1	0	0	0	11370	826	29	2	329	2	PACRG	6	163483209	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1908755	163483209	7631858	437	39879										
TTLL2	83887	broad.mit.edu	37	chr6	167753790	167753790	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcctctttccgaatgaccgaAcacaacagtgttaaaccgtg	7	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:167753790A>G	uc003qvs.1	+	3	490	c.402A>G	c.(400-402)GAA>GAG	p.E134E	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	134	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GAATGACCGAACACAACAGTG	0.527													13	24	---	---	---	---	PASS	G	167753790	G	G	167753790	2	3	108	1	0	0	0	0	0	0	0	1	16724	40	2	5		5	TTLL2	6	167753790	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	4270581	167753790	3361277	438	39880										
THBS2	7058	broad.mit.edu	37	chr6	169646362	169646362	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttttcaaacactaggtggacGttctgaagcaaaccctgtaa	8	9	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:169646362G>A	uc003qwt.2	-	5	872	c.624C>T	c.(622-624)AAC>AAT	p.N208N		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	208	TSP N-terminal.|Heparin-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CTAGGTGGACGTTCTGAAGCA	0.388													10	53	---	---	---	---	PASS	A	169646362	A	A	169646362	2	1	108	1	0	0	0	0	0	0	0	1	15851	1136	40	1		1	THBS2	6	169646362	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1892572	169646362	1468705	439	39881										
THBS2	7058	broad.mit.edu	37	chr6	169649011	169649011	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcttggcgccaatggtcttgCggttgatgttgctgatactg	14	8	1	2	rs150716666		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr6:169649011C>T	uc003qwt.2	-	4	358	c.110G>A	c.(109-111)CGC>CAC	p.R37H		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	37	TSP N-terminal.|Heparin-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		AATGGTCTTGCGGTTGATGTT	0.592													6	25	---	---	---	---	PASS	T	169649011	T	T	169649011	3	4	108	1	0	0	0	0	1	0	0	0	15851	768	27	1	3488	1	THBS2	6	169649011	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2649	169649011	1466056	440	39882										
NUDT1	4521	broad.mit.edu	37	chr7	2284214	2284214	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcagaacccagggaccatggGcgcctccaggctctataccc	10	16	2	1	rs144573336		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:2284214G>C	uc003slp.1	+	3	176	c.74G>C	c.(73-75)GGC>GCC	p.G25A	FTSJ2_uc003slk.2_5'Flank|FTSJ2_uc003sll.2_5'Flank|FTSJ2_uc003slm.2_5'Flank|FTSJ2_uc003sln.2_5'Flank|FTSJ2_uc003slo.2_5'Flank|NUDT1_uc003slq.1_Missense_Mutation_p.G2A|NUDT1_uc003slr.1_Missense_Mutation_p.G2A|NUDT1_uc003sls.1_Missense_Mutation_p.G25A|NUDT1_uc003slt.1_Missense_Mutation_p.G2A|NUDT1_uc003slu.1_Missense_Mutation_p.G25A|NUDT1_uc003slv.1_Missense_Mutation_p.G2A	NM_198949	NP_945187	P36639	8ODP_HUMAN	nudix-type motif 1 isoform p22	43					DNA protection|DNA repair|response to oxidative stress	cytoplasm	8-oxo-7,8-dihydrodeoxyguanosine triphosphate pyrophosphatase activity|8-oxo-7,8-dihydroguanosine triphosphate pyrophosphatase activity|GTPase activity|metal ion binding|protein binding				0		Ovarian(82;0.0253)|Melanoma(862;0.155)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0822)|OV - Ovarian serous cystadenocarcinoma(56;2.8e-14)|BRCA - Breast invasive adenocarcinoma(126;0.15)		GGGACCATGGGCGCCTCCAGG	0.632								Direct_reversal_of_damage|Modulation_of_nucleotide_pools					8	62	---	---	---	---	PASS	C	2284214	C	C	2284214	3	2	108	1	0	0	0	0	1	0	0	0	10725	1203	42	4	80	4	NUDT1	7	2284214	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08		2284214	156854449	441	39883										
SDK1	221935	broad.mit.edu	37	chr7	3991404	3991404	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acctggaagaggaatggagtGagaatcaccagtggcctcca	13	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:3991404G>T	uc003smx.2	+	7	1141	c.1002G>T	c.(1000-1002)GTG>GTT	p.V334V		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	334	Ig-like C2-type 3.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GGAATGGAGTGAGAATCACCA	0.607													11	53	---	---	---	---	PASS	T	3991404	T	T	3991404	2	4	108	1	0	0	0	0	0	0	0	1	13968	1277	45	2		2	SDK1	7	3991404	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1707190	3991404	155147259	442	39884										
PMS2	5395	broad.mit.edu	37	chr7	6027050	6027050	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagacagcataccccttttcTgtcctagagggctccttctt	7	13	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:6027050T>C	uc003spl.2	-	11	1433	c.1346A>G	c.(1345-1347)CAG>CGG	p.Q449R	PMS2_uc003spj.2_Missense_Mutation_p.Q343R|PMS2_uc003spk.2_Missense_Mutation_p.Q314R|PMS2_uc011jwl.1_Missense_Mutation_p.Q314R|PMS2_uc010ktg.2_Missense_Mutation_p.Q138R|PMS2_uc010kte.2_Intron|PMS2_uc010ktf.1_Missense_Mutation_p.Q449R	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	449					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		ACCCCTTTTCTGTCCTAGAGG	0.522			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				25	63	---	---	---	---	PASS	C	6027050	C	C	6027050	3	2	108	1	0	0	0	0	1	0	0	0	12143	1580	55	5	1262	5	PMS2	7	6027050	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	2035646	6027050	153111613	443	39885										
PMS2	5395	broad.mit.edu	37	chr7	6048643	6048643	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcacctcgagctctcagctCgctccatggatgcaacaccc	7	18	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:6048643C>T	uc003spl.2	-	1	95	c.8G>A	c.(7-9)CGA>CAA	p.R3Q	PMS2_uc003spk.2_5'UTR|PMS2_uc011jwl.1_5'UTR|PMS2_uc010ktg.2_5'UTR|PMS2_uc010kte.2_Missense_Mutation_p.R3Q|PMS2_uc010ktf.1_Missense_Mutation_p.R3Q|AIMP2_uc003spo.2_5'Flank	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	3					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		GCTCTCAGCTCGCTCCATGGA	0.647			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				17	44	---	---	---	---	PASS	T	6048643	T	T	6048643	3	4	108	1	0	0	0	0	1	0	0	0	12143	884	31	2	2640	2	PMS2	7	6048643	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	21593	6048643	153090020	444	39886										
ICA1	3382	broad.mit.edu	37	chr7	8167699	8167699	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaggaggaagcattgaagatCtcactcaacagcagcaggtc	11	9	2	2	rs144420664		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:8167699C>G	uc003srm.2	-	13	1201	c.1134G>C	c.(1132-1134)GAG>GAC	p.E378D	ICA1_uc010ktr.2_Missense_Mutation_p.E407D|ICA1_uc003srl.2_Missense_Mutation_p.E366D|ICA1_uc003srn.3_Missense_Mutation_p.E304D|ICA1_uc003srp.3_Missense_Mutation_p.E377D|ICA1_uc010kts.2_RNA|ICA1_uc003srq.2_Missense_Mutation_p.E378D|ICA1_uc003srr.2_Missense_Mutation_p.E377D|ICA1_uc003sro.3_Missense_Mutation_p.E378D	NM_022307	NP_071682	Q05084	ICA69_HUMAN	islet cell autoantigen 1	378					neurotransmitter transport	cell junction|cytosol|Golgi membrane|nucleus|secretory granule membrane|synaptic vesicle membrane|transport vesicle membrane				central_nervous_system(1)	1		Ovarian(82;0.0612)		UCEC - Uterine corpus endometrioid carcinoma (126;0.246)		CATTGAAGATCTCACTCAACA	0.552													46	181	---	---	---	---	PASS	G	8167699	G	G	8167699	3	3	108	1	0	0	0	0	1	0	0	0	7477	912	32	2	325	2	ICA1	7	8167699	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2119056	8167699	150970964	445	39887										
PHF14	9678	broad.mit.edu	37	chr7	11022091	11022091	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagaaaatattttagaagaaGaactgaatgaagatattaaa	7	1	0	7			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:11022091G>T	uc003sry.1	+	3	640	c.205G>T	c.(205-207)GAA>TAA	p.E69*	PHF14_uc011jxi.1_Intron|PHF14_uc003srz.2_Nonsense_Mutation_p.E69*|PHF14_uc011jxj.1_Intron	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	69	Glu/Lys-rich.						zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		TTTAGAAGAAGAACTGAATGA	0.318													23	24	---	---	---	---	PASS	T	11022091	T	T	11022091	4	4	108	1	0	0	0	0	0	1	0	0	11825	943	33	2	215	2	PHF14	7	11022091	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2854392	11022091	148116572	446	39888										
PHF14	9678	broad.mit.edu	37	chr7	11078410	11078410	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtgaatctttagaagaactAcaaaacctgaatggaaaact	7	6	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:11078410A>G	uc003sry.1	+	11	2439	c.2004A>G	c.(2002-2004)CTA>CTG	p.L668L	PHF14_uc011jxi.1_Silent_p.L383L|PHF14_uc003srz.2_Silent_p.L668L|PHF14_uc011jxj.1_Silent_p.L383L	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	668							zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		TAGAAGAACTACAAAACCTGA	0.343													9	30	---	---	---	---	PASS	G	11078410	G	G	11078410	2	3	108	1	0	0	0	0	0	0	0	1	11825	378	14	5		5	PHF14	7	11078410	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	56319	11078410	148060253	447	39889										
SNX13	23161	broad.mit.edu	37	chr7	17930043	17930043	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcctaatttcaagaagaaaaGattcatcatcgcttagtgta	7	7	3	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:17930043G>C	uc003stw.1	-	5	596	c.383C>G	c.(382-384)TCT>TGT	p.S128C	SNX13_uc003stv.2_Missense_Mutation_p.S128C|SNX13_uc010kuc.2_Translation_Start_Site|SNX13_uc003stx.1_Missense_Mutation_p.S48C|SNX13_uc003sty.2_Missense_Mutation_p.S128C			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;	128	PXA.				cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					AAGAAGAAAAGATTCATCATC	0.318													25	59	---	---	---	---	PASS	C	17930043	C	C	17930043	3	2	108	1	0	0	0	0	1	0	0	0	14884	942	33	2	2578	2	SNX13	7	17930043	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	6851633	17930043	141208620	448	39890										
PRPS1L1	221823	broad.mit.edu	37	chr7	18066588	18066588	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctcatcttgaggtatggtaTtggtgactaccactgcttca	9	9	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:18066588T>A	uc003stz.2	-	1	899	c.818A>T	c.(817-819)AAT>ATT	p.N273I		NM_175886	NP_787082	P21108	PRPS3_HUMAN	phosphoribosyl pyrophosphate synthetase 1-like	273					nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			ovary(1)	1	Lung NSC(10;0.0385)|all_lung(11;0.0736)					AGGTATGGTATTGGTGACTAC	0.438													41	151	---	---	---	---	PASS	A	18066588	A	A	18066588	3	1	108	1	0	0	0	0	1	0	0	0	12579	1493	52	5	142	5	PRPS1L1	7	18066588	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	136545	18066588	141072075	449	39891										
HDAC9	9734	broad.mit.edu	37	chr7	18705919	18705919	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagcttcagggggaccaggcGatgcaggaagacagagcgcc	17	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:18705919G>C	uc003suh.2	+	11	1583	c.1542G>C	c.(1540-1542)GCG>GCC	p.A514A	HDAC9_uc003sue.2_Silent_p.A514A|HDAC9_uc011jyd.1_Silent_p.A514A|HDAC9_uc003sui.2_Silent_p.A517A|HDAC9_uc003suj.2_Silent_p.A473A|HDAC9_uc011jya.1_Silent_p.A511A|HDAC9_uc003sua.1_Silent_p.A492A|HDAC9_uc011jyb.1_Silent_p.A470A|HDAC9_uc003sud.1_Silent_p.A514A|HDAC9_uc011jyc.1_Silent_p.A473A|HDAC9_uc003suf.1_Silent_p.A545A|HDAC9_uc010kud.1_Silent_p.A517A|HDAC9_uc011jye.1_Silent_p.A486A|HDAC9_uc011jyf.1_Silent_p.A437A|HDAC9_uc010kue.1_Intron	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	514					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	GGGACCAGGCGATGCAGGAAG	0.532											OREG0017877	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	102	---	---	---	---	PASS	C	18705919	C	C	18705919	2	2	108	1	0	0	0	0	0	0	0	1	7014	1045	37	2		2	HDAC9	7	18705919	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	639331	18705919	140432744	450	39892										
ABCB5	340273	broad.mit.edu	37	chr7	20691164	20691164	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagtaacaatatcaagtatgGacgagatgatgtgactgatg	11	5	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:20691164G>T	uc003suw.3	+	4	665	c.119G>T	c.(118-120)GGA>GTA	p.G40V	ABCB5_uc010kuh.2_Missense_Mutation_p.G485V|ABCB5_uc003suv.3_Missense_Mutation_p.G40V|ABCB5_uc011jyi.1_Missense_Mutation_p.G40V	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	40	ABC transporter 1.|Extracellular (Potential).				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						ATCAAGTATGGACGAGATGAT	0.433													9	164	---	---	---	---	PASS	T	20691164	T	T	20691164	3	4	108	1	0	0	0	0	1	0	0	0	44	1174	41	2	1500	2	ABCB5	7	20691164	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1985245	20691164	138447499	451	39893										
ABCB5	340273	broad.mit.edu	37	chr7	20784959	20784959	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcaactgcagcattgctgaGaacatcgcctatggtgacaa	9	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:20784959G>A	uc003suw.3	+	17	2538	c.1992G>A	c.(1990-1992)GAG>GAA	p.E664E	ABCB5_uc010kuh.2_Silent_p.E1109E	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	664	Cytoplasmic (Potential).|ABC transporter 2.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						GCATTGCTGAGAACATCGCCT	0.458													20	91	---	---	---	---	PASS	A	20784959	A	A	20784959	2	1	108	1	0	0	0	0	0	0	0	1	44	933	33	2		2	ABCB5	7	20784959	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	93795	20784959	138353704	452	39894										
SP4	6671	broad.mit.edu	37	chr7	21468913	21468913	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccattttgggtaggactctCagccctctcctctggcttta	8	14	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:21468913C>T	uc003sva.2	+	3	311	c.130C>T	c.(130-132)CAG>TAG	p.Q44*	SP4_uc003svb.2_Intron	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	44					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						GTAGGACTCTCAGCCCTCTCC	0.483													13	25	---	---	---	---	PASS	T	21468913	T	T	21468913	4	4	108	1	0	0	0	0	0	1	0	0	14966	827	29	2	140	2	SP4	7	21468913	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	683954	21468913	137669750	453	39895										
DNAH11	8701	broad.mit.edu	37	chr7	21639594	21639594	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cacaaatgatcttgttgcctCctgagattgtgtttaaacct	7	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:21639594C>T	uc003svc.2	+	15	2888	c.2857C>T	c.(2857-2859)CCT>TCT	p.P953S		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	953	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTTGTTGCCTCCTGAGATTGT	0.398									Kartagener_syndrome				10	78	---	---	---	---	PASS	T	21639594	T	T	21639594	3	4	108	1	0	0	0	0	1	0	0	0	4599	855	30	2	2915	2	DNAH11	7	21639594	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	170681	21639594	137499069	454	39896										
TRA2A	29896	broad.mit.edu	37	chr7	23561452	23561452	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttggagattttgactgagagCgagactcctaacaaagaaga	11	6	0	6			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:23561452C>T	uc003swi.2	-	2	258	c.44G>A	c.(43-45)CGC>CAC	p.R15H	TRA2A_uc011jzb.1_RNA|TRA2A_uc011jzc.1_5'UTR|TRA2A_uc011jzd.1_5'UTR|TRA2A_uc010kuo.1_RNA	NM_013293	NP_037425	Q13595	TRA2A_HUMAN	transformer-2 alpha	15					nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|RNA binding			ovary(1)	1						TGACTGAGAGCGAGACTCCTA	0.423													44	57	---	---	---	---	PASS	T	23561452	T	T	23561452	3	4	108	1	0	0	0	0	1	0	0	0	16430	768	27	1	832	1	TRA2A	7	23561452	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1921858	23561452	135577211	455	39897										
HOXA3	3200	broad.mit.edu	37	chr7	27148264	27148264	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctccagctccaccagctgcGcgctcgtgtaggccgtgcgc	12	17	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:27148264G>C	uc011jzl.1	-	3	802	c.602C>G	c.(601-603)GCG>GGG	p.A201G	HOXA3_uc011jzk.1_Missense_Mutation_p.A43G|HOXA3_uc003syk.2_Missense_Mutation_p.A201G	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	201	Homeobox.				angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						CACCAGCTGCGCGCTCGTGTA	0.667													10	53	---	---	---	---	PASS	C	27148264	C	C	27148264	3	2	108	1	0	0	0	0	1	0	0	0	7293	1087	38	4	733	4	HOXA3	7	27148264	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3586812	27148264	131990399	456	39898										
PDE1C	5137	broad.mit.edu	37	chr7	31864492	31864492	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccactgacctcgaacgcctCtgtcctgtcccaccagtttg	7	18	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:31864492C>A	uc003tcm.1	-	13	1864	c.1395G>T	c.(1393-1395)CAG>CAT	p.Q465H	PDE1C_uc003tcn.1_Missense_Mutation_p.Q465H|PDE1C_uc003tco.1_Missense_Mutation_p.Q525H|PDE1C_uc003tcr.2_Missense_Mutation_p.Q465H|PDE1C_uc003tcs.2_Missense_Mutation_p.Q465H	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	465	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			TCGAACGCCTCTGTCCTGTCC	0.507													31	102	---	---	---	---	PASS	A	31864492	A	A	31864492	3	1	108	1	0	0	0	0	1	0	0	0	11635	912	32	2	529	2	PDE1C	7	31864492	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4716228	31864492	127274171	457	39899										
BMPER	168667	broad.mit.edu	37	chr7	34097706	34097706	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcctctatcaattgtaccatCtgtgcttgtgtgaaaggcag	9	9	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:34097706C>A	uc011kap.1	+	10	1077	c.963C>A	c.(961-963)ATC>ATA	p.I321I		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	321	VWFC 5.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						ATTGTACCATCTGTGCTTGTG	0.502													13	39	---	---	---	---	PASS	A	34097706	A	A	34097706	2	1	108	1	0	0	0	0	0	0	0	1	1468	903	32	2		2	BMPER	7	34097706	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	2233214	34097706	125040957	458	39900										
BMPER	168667	broad.mit.edu	37	chr7	34182965	34182965	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cactgggagcctcagcagaaTtgtgcaggtaagaaagtcct	12	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:34182965T>C	uc011kap.1	+	14	1983	c.1869T>C	c.(1867-1869)AAT>AAC	p.N623N		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	623					blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						CTCAGCAGAATTGTGCAGGTA	0.488													11	42	---	---	---	---	PASS	C	34182965	C	C	34182965	2	2	108	1	0	0	0	0	0	0	0	1	1468	1490	52	5		5	BMPER	7	34182965	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	85259	34182965	124955698	459	39901										
AMPH	273	broad.mit.edu	37	chr7	38516551	38516551	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atagtccactagcttcctgcTgcgcttggcgatgcgattct	10	12	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:38516551T>A	uc003tgu.2	-	6	484	c.415A>T	c.(415-417)AGC>TGC	p.S139C	AMPH_uc003tgv.2_Missense_Mutation_p.S139C	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	139	BAR.				endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						AGCTTCCTGCTGCGCTTGGCG	0.502													15	45	---	---	---	---	PASS	A	38516551	A	A	38516551	3	1	108	1	0	0	0	0	1	0	0	0	588	1580	55	5	1736	5	AMPH	7	38516551	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	4333586	38516551	120622112	460	39902										
POU6F2	11281	broad.mit.edu	37	chr7	39243867	39243867	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccagcattatcagacccagGcactcctgaccaacaccagg	7	17	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:39243867G>T	uc003thb.1	+	3	266	c.224G>T	c.(223-225)GGC>GTC	p.G75V	POU6F2_uc010kxo.2_Missense_Mutation_p.G67V	NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1	75					central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						TCAGACCCAGGCACTCCTGAC	0.493													15	34	---	---	---	---	PASS	T	39243867	T	T	39243867	3	4	108	1	0	0	0	0	1	0	0	0	12285	1203	42	3	234	3	POU6F2	7	39243867	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	727316	39243867	119894796	461	39903										
GLI3	2737	broad.mit.edu	37	chr7	42004165	42004165	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atggcatcgaagtcaatctgTaccccttccaggtcatggct	9	12	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:42004165T>A	uc011kbh.1	-	15	4597	c.4506A>T	c.(4504-4506)GTA>GTT	p.V1502V	GLI3_uc011kbg.1_Silent_p.V1443V	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1502	Asp/Glu-rich (acidic).				negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						AGTCAATCTGTACCCCTTCCA	0.542									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				9	33	---	---	---	---	PASS	A	42004165	A	A	42004165	2	1	108	1	0	0	0	0	0	0	0	1	6439	1625	57	5		5	GLI3	7	42004165	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	2760298	42004165	117134498	462	39904										
GLI3	2737	broad.mit.edu	37	chr7	42063099	42063099	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcttgggtgtcgaactcccTcgcgcagccttcccagtggc	11	16	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:42063099T>A	uc011kbh.1	-	10	1556	c.1465A>T	c.(1465-1467)AGG>TGG	p.R489W	GLI3_uc011kbg.1_Missense_Mutation_p.R430W	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	489	C2H2-type 1.				negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						TCGAACTCCCTCGCGCAGCCT	0.527									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				8	41	---	---	---	---	PASS	A	42063099	A	A	42063099	3	1	108	1	0	0	0	0	1	0	0	0	6439	1550	54	5	3301	5	GLI3	7	42063099	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	58934	42063099	117075564	463	39905										
C7orf25	79020	broad.mit.edu	37	chr7	42950098	42950098	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttttgtcaccatattggccCctgcccagccagatgttatg	8	13	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:42950098C>A	uc003thw.2	-	2	866	c.402G>T	c.(400-402)AGG>AGT	p.R134S	C7orf25_uc010kxq.2_Missense_Mutation_p.R134S|C7orf25_uc003thx.3_Missense_Mutation_p.R192S|C7orf25_uc010kxr.2_Missense_Mutation_p.R192S	NM_024054	NP_076959	Q9BPX7	CG025_HUMAN	hypothetical protein LOC79020 b	134										skin(1)	1						CATATTGGCCCCTGCCCAGCC	0.507													23	51	---	---	---	---	PASS	A	42950098	A	A	42950098	3	1	108	1	0	0	0	0	1	0	0	0	2380	622	22	3	867	3	C7orf25	7	42950098	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	886999	42950098	116188565	464	39906										
MRPL32	64983	broad.mit.edu	37	chr7	42976962	42976962	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaatgtggtcacctgaaacaGaaacatgtcctttgtgccta	9	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:42976962G>T	uc003tia.2	+	3	401	c.354G>T	c.(352-354)CAG>CAT	p.Q118H	MRPL32_uc003tib.2_RNA|MRPL32_uc003tic.2_Missense_Mutation_p.Q65H	NM_031903	NP_114109	Q9BYC8	RM32_HUMAN	mitochondrial ribosomal protein L32 precursor	118					translation	large ribosomal subunit|mitochondrial ribosome	structural constituent of ribosome				0						ACCTGAAACAGAAACATGTCC	0.403													17	73	---	---	---	---	PASS	T	42976962	T	T	42976962	3	4	108	1	0	0	0	0	1	0	0	0	9795	933	33	2	364	2	MRPL32	7	42976962	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	26864	42976962	116161701	465	39907										
GCK	2645	broad.mit.edu	37	chr7	44184789	44184789	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	accgccgagaccagggccgcGccccggccactgccctcctc	11	22	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:44184789G>T	uc003tkl.2	-	10	1814	c.1344C>A	c.(1342-1344)GGC>GGA	p.G448G	GCK_uc003tkh.1_Silent_p.G121G|GCK_uc003tki.1_Silent_p.G126G|GCK_uc003tkj.1_Silent_p.G447G|GCK_uc003tkk.1_Silent_p.G449G	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	448					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						CCAGGGCCGCGCCCCGGCCAC	0.672													4	10	---	---	---	---	PASS	T	44184789	T	T	44184789	2	4	108	1	0	0	0	0	0	0	0	1	6293	1074	38	1		1	GCK	7	44184789	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1207827	44184789	114953874	466	39908										
ABCA13	154664	broad.mit.edu	37	chr7	48314472	48314472	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agctctcacgcctgtttcctAaagatgttgtggatgctgtg	11	9	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:48314472A>G	uc003toq.2	+	17	5234	c.5209A>G	c.(5209-5211)AAA>GAA	p.K1737E	ABCA13_uc010kyr.2_Missense_Mutation_p.K1240E	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1737					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CCTGTTTCCTAAAGATGTTGT	0.438													19	55	---	---	---	---	PASS	G	48314472	G	G	48314472	3	3	108	1	0	0	0	0	1	0	0	0	31	363	13	5	5104	5	ABCA13	7	48314472	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	4129683	48314472	110824191	467	39909										
EGFR	1956	broad.mit.edu	37	chr7	55233016	55233016	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgcccactacattgacggccCccactgcgtcaagacctgcc	8	18	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:55233016C>T	uc003tqk.2	+	15	2012	c.1766C>T	c.(1765-1767)CCC>CTC	p.P589L	EGFR_uc003tqi.2_Missense_Mutation_p.P589L|EGFR_uc003tqj.2_Missense_Mutation_p.P589L|EGFR_uc010kzg.1_Missense_Mutation_p.P544L|EGFR_uc011kco.1_Missense_Mutation_p.P536L|EGFR_uc011kcp.1_Intron|EGFR_uc011kcq.1_RNA|EGFR_uc003tqn.2_RNA	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	589	Approximate.|Extracellular (Potential).			DGPH->AGPA: Decreases intramolecular interactions and facilitates EGF binding.	activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	ATTGACGGCCCCCACTGCGTC	0.532		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			18	214	---	---	---	---	PASS	T	55233016	T	T	55233016	3	4	108	1	0	0	0	0	1	0	0	0	4967	623	22	3	1835	3	EGFR	7	55233016	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6918544	55233016	103905647	468	39910										
CHCHD2	51142	broad.mit.edu	37	chr7	56172045	56172045	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccagctgcagtggttgccatCtgggccatcagacctggctg	13	13	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:56172045C>T	uc003tsa.2	-	2	255	c.174G>A	c.(172-174)CAG>CAA	p.Q58Q	PSPH_uc003trj.2_Intron	NM_016139	NP_057223	Q9Y6H1	CHCH2_HUMAN	coiled-coil-helix-coiled-coil-helix domain	58						mitochondrion					0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TGGTTGCCATCTGGGCCATCA	0.647													24	53	---	---	---	---	PASS	T	56172045	T	T	56172045	2	4	108	1	0	0	0	0	0	0	0	1	3316	912	32	2		2	CHCHD2	7	56172045	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	939029	56172045	102966618	469	39911										
ZNF479	90827	broad.mit.edu	37	chr7	57188465	57188465	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaggagcagttaaaggatttGccacattctttgcatttgta	10	6	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:57188465G>T	uc010kzo.2	-	5	928	c.657C>A	c.(655-657)GGC>GGA	p.G219G		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	219	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TAAAGGATTTGCCACATTCTT	0.363													9	14	---	---	---	---	PASS	T	57188465	T	T	57188465	2	4	108	1	0	0	0	0	0	0	0	1	17930	1306	46	3		3	ZNF479	7	57188465	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1016420	57188465	101950198	470	39912										
WBSCR17	64409	broad.mit.edu	37	chr7	70800691	70800691	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgaaaaaatttcactggacCgttccattccggattatcgt	8	9	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:70800691C>G	uc003tvy.2	+	2	394	c.394C>G	c.(394-396)CGT>GGT	p.R132G	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	132	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TTCACTGGACCGTTCCATTCC	0.488													19	23	---	---	---	---	PASS	G	70800691	G	G	70800691	3	3	108	1	0	0	0	0	1	0	0	0	17261	652	23	4	400	4	WBSCR17	7	70800691	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	13612226	70800691	88337972	471	39913										
GNAI1	2770	broad.mit.edu	37	chr7	79846649	79846649	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atatgaagaggcagctgcatAtattcaatgtcagtttgaag	10	5	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:79846649A>G	uc003uhb.1	+	8	1242	c.905A>G	c.(904-906)TAT>TGT	p.Y302C	GNAI1_uc011kgt.1_Missense_Mutation_p.Y250C	NM_002069	NP_002060	P63096	GNAI1_HUMAN	guanine nucleotide binding protein (G protein),	302					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody|nucleus	G-protein beta/gamma-subunit complex binding|GTP binding|metabotropic serotonin receptor binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						GCAGCTGCATATATTCAATGT	0.338													5	50	---	---	---	---	PASS	G	79846649	G	G	79846649	3	3	108	1	0	0	0	0	1	0	0	0	6504	449	16	5	935	5	GNAI1	7	79846649	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	9045958	79846649	79292014	472	39914										
PCLO	27445	broad.mit.edu	37	chr7	82784244	82784244	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgttttgcagatggagacacTgttggtggctgcagaggttt	15	5	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:82784244T>A	uc003uhx.2	-	2	2002	c.1713A>T	c.(1711-1713)ACA>ACT	p.T571T	PCLO_uc003uhv.2_Silent_p.T571T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	517	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ATGGAGACACTGTTGGTGGCT	0.498													176	133	---	---	---	---	PASS	A	82784244	A	A	82784244	2	1	108	1	0	0	0	0	0	0	0	1	11583	1567	55	5		5	PCLO	7	82784244	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	2937595	82784244	76354419	473	39915										
PCLO	27445	broad.mit.edu	37	chr7	82784705	82784705	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgttgagctaggggttttgGtgtccccacctgctgggttg	15	8	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:82784705G>A	uc003uhx.2	-	2	1541	c.1252C>T	c.(1252-1254)CCA>TCA	p.P418S	PCLO_uc003uhv.2_Missense_Mutation_p.P418S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGGGGTTTTGGTGTCCCCACC	0.587													12	124	---	---	---	---	PASS	A	82784705	A	A	82784705	3	1	108	1	0	0	0	0	1	0	0	0	11583	1261	44	3	14289	3	PCLO	7	82784705	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	461	82784705	76353958	474	39916										
ABCB4	5244	broad.mit.edu	37	chr7	87104757	87104757	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgtggggcgccaggctgttcCgttctttgccgcctcaagat	13	13	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:87104757C>G	uc003uiv.1	-	2	101	c.25G>C	c.(25-27)GGA>CGA	p.G9R	ABCB4_uc003uiw.1_Missense_Mutation_p.G9R|ABCB4_uc003uix.1_Missense_Mutation_p.G9R|ABCB4_uc003uiy.2_Missense_Mutation_p.G9R	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	9	Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CAGGCTGTTCCGTTCTTTGCC	0.632													5	29	---	---	---	---	PASS	G	87104757	G	G	87104757	3	3	108	1	0	0	0	0	1	0	0	0	43	661	23	4	3943	4	ABCB4	7	87104757	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4320052	87104757	72033906	475	39917										
PPP1R9A	55607	broad.mit.edu	37	chr7	94917904	94917904	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtcagaatcgggccgttcaGgaatggagtgtgcagcaggt	16	7	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:94917904G>T	uc003unp.2	+	15	3240	c.2958G>T	c.(2956-2958)CAG>CAT	p.Q986H	PPP1R9A_uc010lfj.2_Missense_Mutation_p.Q1262H|PPP1R9A_uc011kif.1_Missense_Mutation_p.Q1184H|PPP1R9A_uc003unq.2_Intron|PPP1R9A_uc011kig.1_Missense_Mutation_p.Q978H|PPP1R9A_uc003unr.2_Missense_Mutation_p.Q275H	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	986	Interacts with TGN38 (By similarity).					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			GGGCCGTTCAGGAATGGAGTG	0.453										HNSCC(28;0.073)			39	38	---	---	---	---	PASS	T	94917904	T	T	94917904	3	4	108	1	0	0	0	0	1	0	0	0	12378	991	35	3	3884	3	PPP1R9A	7	94917904	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	7813147	94917904	64220759	476	39918										
ZKSCAN5	23660	broad.mit.edu	37	chr7	99129345	99129345	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agaaatcccatcagtgtcgtGaatgtggggaaatctttttt	10	6	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:99129345G>T	uc003uqv.2	+	7	2117	c.1993G>T	c.(1993-1995)GAA>TAA	p.E665*	ZKSCAN5_uc010lfx.2_Nonsense_Mutation_p.E665*|ZKSCAN5_uc003uqw.2_Nonsense_Mutation_p.E665*|ZKSCAN5_uc003uqx.2_Nonsense_Mutation_p.E592*|ZKSCAN5_uc003uqy.2_Nonsense_Mutation_p.E401*	NM_145102	NP_659570	Q9Y2L8	ZKSC5_HUMAN	zinc finger with KRAB and SCAN domains 5	665	C2H2-type 9.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					TCAGTGTCGTGAATGTGGGGA	0.468													42	41	---	---	---	---	PASS	T	99129345	T	T	99129345	4	4	108	1	0	0	0	0	0	1	0	0	17687	1291	45	2	2015	2	ZKSCAN5	7	99129345	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4211441	99129345	60009318	477	39919										
MOSPD3	64598	broad.mit.edu	37	chr7	100210858	100210858	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aatacacggtgtttgacgcaGagggatatgtgaagccccag	13	8	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:100210858G>C	uc003uvq.2	+	3	449	c.247G>C	c.(247-249)GAG>CAG	p.E83Q	MOSPD3_uc003uvr.2_Missense_Mutation_p.E83Q|MOSPD3_uc003uvs.2_Missense_Mutation_p.E83Q|MOSPD3_uc003uvt.2_Missense_Mutation_p.E83Q	NM_001040097	NP_001035186	O75425	MSPD3_HUMAN	motile sperm domain containing 3 isoform a	83	MSP.					integral to membrane	structural molecule activity			ovary(2)	2	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					GTTTGACGCAGAGGGATATGT	0.567													86	124	---	---	---	---	PASS	C	100210858	C	C	100210858	3	2	108	1	0	0	0	0	1	0	0	0	9717	943	33	2	253	2	MOSPD3	7	100210858	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1081513	100210858	58927805	478	39920										
ORC5L	5001	broad.mit.edu	37	chr7	103808925	103808925	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atacttcctctgatacctttCagttgccccggatctgtgtc	7	13	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:103808925C>T	uc003vcb.2	-	9	984	c.873G>A	c.(871-873)CTG>CTA	p.L291L	ORC5L_uc011klp.1_Silent_p.L159L|ORC5L_uc003vcc.2_Silent_p.L291L	NM_002553	NP_002544	O43913	ORC5_HUMAN	origin recognition complex subunit 5 isoform 1	291					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	cytoplasm|nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|identical protein binding				0						TGATACCTTTCAGTTGCCCCG	0.333													32	22	---	---	---	---	PASS	T	103808925	T	T	103808925	2	4	108	1	0	0	0	0	0	0	0	1	11265	813	29	2		2	ORC5L	7	103808925	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	3598067	103808925	55329738	479	39921										
PIK3CG	5294	broad.mit.edu	37	chr7	106509912	106509912	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agctcctggactgcaacttcTcagatgaaaatgtaagagcc	9	10	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:106509912T>C	uc003vdv.3	+	2	1991	c.1906T>C	c.(1906-1908)TCA>CCA	p.S636P	PIK3CG_uc003vdu.2_Missense_Mutation_p.S636P|PIK3CG_uc003vdw.2_Missense_Mutation_p.S636P	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	636					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						CTGCAACTTCTCAGATGAAAA	0.338													9	62	---	---	---	---	PASS	C	106509912	C	C	106509912	3	2	108	1	0	0	0	0	1	0	0	0	11916	1551	54	5	1908	5	PIK3CG	7	106509912	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	2700987	106509912	52628751	480	39922										
PIK3CG	5294	broad.mit.edu	37	chr7	106524666	106524666	+	Nonsense_Mutation	SNP	G	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgtggcaacctttgttcttGgaataggcgacagacacaat							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:106524666G>T	uc003vdv.3	+	9	2912	c.2827G>T	c.(2827-2829)GGA>TGA	p.G943*	PIK3CG_uc003vdu.2_Nonsense_Mutation_p.G943*|PIK3CG_uc003vdw.2_Nonsense_Mutation_p.G943*	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	943	PI3K/PI4K.				G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						CTTTGTTCTTGGAATAGGCGA	0.328													30	60	---	---	---	---	PASS	T	106524666	T	T	106524666	4	4	108	1	0	0	0	0	0	1	0	0	11916	1349	47	3	2857	3	PIK3CG	7	106524666	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	14754	106524666	52613997	481	39923	746	2								
PIK3CG	5294	broad.mit.edu	37	chr7	106524667	106524667	+	Missense_Mutation	SNP	G	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtggcaacctttgttcttgGaataggcgacagacacaatg							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:106524667G>T	uc003vdv.3	+	9	2913	c.2828G>T	c.(2827-2829)GGA>GTA	p.G943V	PIK3CG_uc003vdu.2_Missense_Mutation_p.G943V|PIK3CG_uc003vdw.2_Missense_Mutation_p.G943V	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	943	PI3K/PI4K.				G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						TTTGTTCTTGGAATAGGCGAC	0.323													29	62	---	---	---	---	PASS	T	106524667	T	T	106524667	3	4	108	1	0	0	0	0	1	0	0	0	11916	1174	41	2	2858	2	PIK3CG	7	106524667	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1	106524667	52613996	482	39924	746	2								
AASS	10157	broad.mit.edu	37	chr7	121726155	121726155	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	actgtctctgttaggatagcCttccaaatttaatcctggaa	7	9	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:121726155C>A	uc003vka.2	-	18	2191	c.2095G>T	c.(2095-2097)GGC>TGC	p.G699C	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.G699C|AASS_uc011knw.1_Missense_Mutation_p.G187C	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	699	Saccharopine dehydrogenase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	TTAGGATAGCCTTCCAAATTT	0.438													23	34	---	---	---	---	PASS	A	121726155	A	A	121726155	3	1	108	1	0	0	0	0	1	0	0	0	24	681	24	3	709	3	AASS	7	121726155	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	15201488	121726155	37412508	483	39925										
CADPS2	93664	broad.mit.edu	37	chr7	122111611	122111611	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagacttggccagggctaaaCcatccctgcaaaataaaaaa	7	10	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:122111611C>A	uc010lkp.2	-	13	2167	c.2004G>T	c.(2002-2004)TGG>TGT	p.W668C	CADPS2_uc011knx.1_Missense_Mutation_p.W39C|CADPS2_uc003vkg.3_Missense_Mutation_p.W365C|CADPS2_uc010lkq.2_Missense_Mutation_p.W665C	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	668					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						CAGGGCTAAACCATCCCTGCA	0.413													8	11	---	---	---	---	PASS	A	122111611	A	A	122111611	3	1	108	1	0	0	0	0	1	0	0	0	2571	508	18	3	1998	3	CADPS2	7	122111611	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	385456	122111611	37027052	484	39926										
SPAM1	6677	broad.mit.edu	37	chr7	123594272	123594272	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttcggccaaatcacttgtgGggttattatctttttccgga	9	9	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:123594272G>T	uc003vld.2	+	4	1050	c.648G>T	c.(646-648)TGG>TGT	p.W216C	SPAM1_uc003vle.2_Missense_Mutation_p.W216C|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.W216C|SPAM1_uc010lku.2_Missense_Mutation_p.W216C	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	216					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	ATCACTTGTGGGGTTATTATC	0.368													25	40	---	---	---	---	PASS	T	123594272	T	T	123594272	3	4	108	1	0	0	0	0	1	0	0	0	14986	1241	43	3	650	3	SPAM1	7	123594272	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1482661	123594272	35544391	485	39927										
IMPDH1	3614	broad.mit.edu	37	chr7	128038584	128038584	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgggaatccttggaggccaGagggtagtctcggttcttct	14	9	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:128038584G>A	uc011kol.1	-	7	809	c.703C>T	c.(703-705)CTG>TTG	p.L235L	IMPDH1_uc011kom.1_Silent_p.L230L|IMPDH1_uc003vmt.2_Silent_p.L210L|IMPDH1_uc003vmu.2_Silent_p.L320L|IMPDH1_uc003vmw.2_Silent_p.L310L|IMPDH1_uc011kon.1_Silent_p.L287L|IMPDH1_uc003vmv.2_Silent_p.L284L|IMPDH1_uc003vmx.2_Silent_p.L243L|IMPDH1_uc003vmy.2_Silent_p.L251L	NM_001142573	NP_001136045	P20839	IMDH1_HUMAN	inosine monophosphate dehydrogenase 1 isoform e	235	CBS 2.				GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	DNA binding|IMP dehydrogenase activity|metal ion binding			skin(2)|lung(1)|central_nervous_system(1)	4					Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)|Ribavirin(DB00811)|Thioguanine(DB00352)	TTGGAGGCCAGAGGGTAGTCT	0.597											OREG0018292	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	35	---	---	---	---	PASS	A	128038584	A	A	128038584	2	1	108	1	0	0	0	0	0	0	0	1	7726	933	33	2		2	IMPDH1	7	128038584	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	4444312	128038584	31100079	486	39928										
IMPDH1	3614	broad.mit.edu	37	chr7	128041089	128041089	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agccatggcaatggccatgtCagcctctgtcacagtgtcca	10	13	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:128041089C>A	uc011kol.1	-	3	335	c.229G>T	c.(229-231)GAC>TAC	p.D77Y	IMPDH1_uc011kom.1_Missense_Mutation_p.D77Y|IMPDH1_uc003vmt.2_Missense_Mutation_p.D77Y|IMPDH1_uc003vmu.2_Missense_Mutation_p.D162Y|IMPDH1_uc003vmw.2_Missense_Mutation_p.D152Y|IMPDH1_uc011kon.1_Missense_Mutation_p.D129Y|IMPDH1_uc003vmv.2_Missense_Mutation_p.D126Y|IMPDH1_uc003vmx.2_Missense_Mutation_p.D85Y|IMPDH1_uc003vmy.2_Missense_Mutation_p.D93Y	NM_001142573	NP_001136045	P20839	IMDH1_HUMAN	inosine monophosphate dehydrogenase 1 isoform e	77					GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	DNA binding|IMP dehydrogenase activity|metal ion binding			skin(2)|lung(1)|central_nervous_system(1)	4					Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)|Ribavirin(DB00811)|Thioguanine(DB00352)	ATGGCCATGTCAGCCTCTGTC	0.612													17	15	---	---	---	---	PASS	A	128041089	A	A	128041089	3	1	108	1	0	0	0	0	1	0	0	0	7726	826	29	2	1363	2	IMPDH1	7	128041089	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2505	128041089	31097574	487	39929										
PLXNA4	91584	broad.mit.edu	37	chr7	131872353	131872353	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccggctgggcttcagatctGagagagtcagtgtctgtgta	14	9	4	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:131872353G>A	uc003vra.3	-	15	3099	c.2870C>T	c.(2869-2871)TCA>TTA	p.S957L		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	957	IPT/TIG 2.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CTTCAGATCTGAGAGAGTCAG	0.607													84	59	---	---	---	---	PASS	A	131872353	A	A	131872353	3	1	108	1	0	0	0	0	1	0	0	0	12122	1294	45	2	2886	2	PLXNA4	7	131872353	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3831264	131872353	27266310	488	39930										
CNOT4	4850	broad.mit.edu	37	chr7	135048770	135048770	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgggtagaagtgcccttagcCcgtcctgccattccttcata	9	13	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:135048770C>A	uc011kpy.1	-	10	1768	c.1676G>T	c.(1675-1677)GGG>GTG	p.G559V	CNOT4_uc003vss.2_Intron|CNOT4_uc011kpz.1_Missense_Mutation_p.G556V|CNOT4_uc003vst.2_Intron	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						TGCCCTTAGCCCGTCCTGCCA	0.423													12	133	---	---	---	---	PASS	A	135048770	A	A	135048770	3	1	108	1	0	0	0	0	1	0	0	0	3621	638	22	3		3	CNOT4	7	135048770	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3176417	135048770	24089893	489	39931										
WEE2	494551	broad.mit.edu	37	chr7	141429329	141429329	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctttttctccctcgcacttcAgggaactgagagaagcccag	9	13	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:141429329A>C	uc003vwn.2	+	11	1942	c.1536_splice	c.e11-2	p.R512_splice	FLJ40852_uc011krh.1_Intron|FLJ40852_uc010lnm.2_Intron|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028	P0C1S8	WEE2_HUMAN	WEE1 homolog 2						egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)					CTCGCACTTCAGGGAACTGAG	0.448													14	81	---	---	---	---	PASS	C	141429329	C	C	141429329	5	2	108	1	0	0	0	0	0	0	1	0	17342	202	7	5	1576	5	WEE2	7	141429329	Splice_Site	SNP	A	TCGA-46-3769-01A-01D-0983-08	6380559	141429329	17709334	490	39932										
OR6V1	346517	broad.mit.edu	37	chr7	142750136	142750136	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccctctgccagcagctgccaGaaggctttctccacttgcgg	10	16	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:142750136G>T	uc011ksv.1	+	1	699	c.699G>T	c.(697-699)CAG>CAT	p.Q233H		NM_001001667	NP_001001667	Q8N148	OR6V1_HUMAN	olfactory receptor, family 6, subfamily V,	233	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.059)					GCAGCTGCCAGAAGGCTTTCT	0.552													48	35	---	---	---	---	PASS	T	142750136	T	T	142750136	3	4	108	1	0	0	0	0	1	0	0	0	11211	933	33	2	701	2	OR6V1	7	142750136	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1320807	142750136	16388527	491	39933										
TAS2R41	259287	broad.mit.edu	37	chr7	143175872	143175872	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agctcctgttgttggcaaggGgcttctgggtggcctagatg	16	8	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:143175872G>T	uc003wdc.1	+	1	907	c.907G>T	c.(907-909)GGC>TGC	p.G303C	uc003wda.2_Intron	NM_176883	NP_795364	P59536	T2R41_HUMAN	taste receptor, type 2, member 41	303	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			pancreas(1)|skin(1)	2	Melanoma(164;0.15)					GTTGGCAAGGGGCTTCTGGGT	0.522													16	10	---	---	---	---	PASS	T	143175872	T	T	143175872	3	4	108	1	0	0	0	0	1	0	0	0	15576	1232	43	3	909	3	TAS2R41	7	143175872	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	425736	143175872	15962791	492	39934										
GIMAP1	170575	broad.mit.edu	37	chr7	150417175	150417175	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtcccggcaggagtccacgcGgaggctcatccttgttggga	15	12	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:150417175G>A	uc003whq.2	+	3	170	c.83G>A	c.(82-84)CGG>CAG	p.R28Q	GIMAP1_uc003whp.2_Missense_Mutation_p.R36Q	NM_130759	NP_570115	Q8WWP7	GIMA1_HUMAN	GTPase, IMAP family member 1	28	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GAGTCCACGCGGAGGCTCATC	0.557													83	101	---	---	---	---	PASS	A	150417175	A	A	150417175	3	1	108	1	0	0	0	0	1	0	0	0	6379	1116	39	1	89	1	GIMAP1	7	150417175	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	7241303	150417175	8721488	493	39935										
ABCF2	10061	broad.mit.edu	37	chr7	150921165	150921165	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgctcagggatgggcacttCacgcttcccaatagcagaga	12	11	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:150921165C>T	uc003wjp.2	-	4	514	c.403G>A	c.(403-405)GAA>AAA	p.E135K	ABCF2_uc003wjo.1_Missense_Mutation_p.E135K	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	135	ABC transporter 1.					ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ATGGGCACTTCACGCTTCCCA	0.532													38	25	---	---	---	---	PASS	T	150921165	T	T	150921165	3	4	108	1	0	0	0	0	1	0	0	0	66	835	29	2	1557	2	ABCF2	7	150921165	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	503990	150921165	8217498	494	39936										
DPP6	1804	broad.mit.edu	37	chr7	154564582	154564582	+	Silent	SNP	C	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgagaaccccagcatttccCtacacgttattggcttaaat							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:154564582C>T	uc003wlk.2	+	10	1195	c.1066C>T	c.(1066-1068)CTA>TTA	p.L356L	DPP6_uc003wli.2_Silent_p.L292L|DPP6_uc003wlm.2_Silent_p.L294L|DPP6_uc011kvq.1_Silent_p.L249L	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	356	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CAGCATTTCCCTACACGTTAT	0.468													17	27	---	---	---	---	PASS	T	154564582	T	T	154564582	2	4	108	1	0	0	0	0	0	0	0	1	4730	680	24	3		3	DPP6	7	154564582	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	3643417	154564582	4574081	495	39937	747	2								
DPP6	1804	broad.mit.edu	37	chr7	154564583	154564583	+	Missense_Mutation	SNP	T	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgagaaccccagcatttcccTacacgttattggcttaaatg							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:154564583T>A	uc003wlk.2	+	10	1196	c.1067T>A	c.(1066-1068)CTA>CAA	p.L356Q	DPP6_uc003wli.2_Missense_Mutation_p.L292Q|DPP6_uc003wlm.2_Missense_Mutation_p.L294Q|DPP6_uc011kvq.1_Missense_Mutation_p.L249Q	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	356	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			AGCATTTCCCTACACGTTATT	0.468													17	27	---	---	---	---	PASS	A	154564583	A	A	154564583	3	1	108	1	0	0	0	0	1	0	0	0	4730	1522	53	5	1221	5	DPP6	7	154564583	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	1	154564583	4574080	496	39938	747	2								
SHH	6469	broad.mit.edu	37	chr7	155598997	155598997	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agggccagcttacctgctttCaccgagcagtggatatgtgc	12	11	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:155598997C>T	uc003wmk.1	-	2	706	c.555G>A	c.(553-555)GTG>GTA	p.V185V	SHH_uc003wmh.1_RNA|SHH_uc003wmi.1_Silent_p.V98V|SHH_uc003wmj.1_Silent_p.V98V	NM_000193	NP_000184	Q15465	SHH_HUMAN	sonic hedgehog preproprotein	185					androgen metabolic process|axon guidance|branching involved in ureteric bud morphogenesis|CD4-positive or CD8-positive, alpha-beta T cell lineage commitment|embryonic digit morphogenesis|hindbrain development|intein-mediated protein splicing|lymphoid progenitor cell differentiation|metanephric mesenchymal cell proliferation involved in metanephros development|midbrain development|negative regulation of cell migration|negative regulation of kidney smooth muscle cell differentiation|negative regulation of ureter smooth muscle cell differentiation|negative thymic T cell selection|neural crest cell migration|neuroblast proliferation|patterning of blood vessels|positive regulation of alpha-beta T cell differentiation|positive regulation of immature T cell proliferation in thymus|positive regulation of kidney smooth muscle cell differentiation|positive regulation of mesenchymal cell proliferation involved in ureter development|positive regulation of T cell differentiation in thymus|positive regulation of ureter smooth muscle cell differentiation|positive thymic T cell selection|proteolysis|sclerotome development|stem cell development|thymus development|vasculogenesis|ventral midline development	cell surface|extracellular space|membrane raft|plasma membrane	calcium ion binding|laminin-1 binding|peptidase activity|signal transducer activity|zinc ion binding			central_nervous_system(3)|lung(1)	4	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00882)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TACCTGCTTTCACCGAGCAGT	0.627													7	31	---	---	---	---	PASS	T	155598997	T	T	155598997	2	4	108	1	0	0	0	0	0	0	0	1	14279	813	29	2		2	SHH	7	155598997	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1034414	155598997	3539666	497	39939										
PTPRN2	5799	broad.mit.edu	37	chr7	157396693	157396693	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtcccggcagtgcacttaCgatggggctagcgttgatgt	14	10	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr7:157396693C>T	uc003wno.2	-	16	2539	c.2418_splice	c.e16+1	p.I806_splice	PTPRN2_uc003wnp.2_Splice_Site_p.I789_splice|PTPRN2_uc003wnq.2_Splice_Site_p.I777_splice|PTPRN2_uc003wnr.2_Splice_Site_p.I768_splice|PTPRN2_uc011kwa.1_Splice_Site_p.I829_splice	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		AGTGCACTTACGATGGGGCTA	0.627													10	24	---	---	---	---	PASS	T	157396693	T	T	157396693	5	4	108	1	0	0	0	0	0	0	1	0	12808	550	19	1	660	1	PTPRN2	7	157396693	Splice_Site	SNP	C	TCGA-46-3769-01A-01D-0983-08	1797696	157396693	1741970	498	39940										
DEFA5	1670	broad.mit.edu	37	chr8	6914138	6914138	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgcttctgggttgtagcctCatcagctctttcctggagtg	11	11	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:6914138C>A	uc003wra.1	-	1	122	c.82G>T	c.(82-84)GAG>TAG	p.E28*		NM_021010	NP_066290	Q01523	DEF5_HUMAN	defensin, alpha 5 preproprotein	28					defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular space					0				COAD - Colon adenocarcinoma(149;0.0572)|READ - Rectum adenocarcinoma(644;0.121)		GTTGTAGCCTCATCAGCTCTT	0.567													22	22	---	---	---	---	PASS	A	6914138	A	A	6914138	4	1	108	1	0	0	0	0	0	1	0	0	4392	835	29	2	210	2	DEFA5	8	6914138	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08		6914138	139449884	499	39941										
SORBS3	10174	broad.mit.edu	37	chr8	22421834	22421834	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaagtagacaatgtctggacGgaagagtcctggaaccagtt	12	7	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:22421834G>C	uc003xbv.2	+	9	1054	c.714G>C	c.(712-714)ACG>ACC	p.T238T	SORBS3_uc011kzk.1_RNA|SORBS3_uc003xbw.3_5'Flank	NM_005775	NP_005766	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3 isoform 1	238					muscle contraction|positive regulation of stress fiber assembly	cytoskeleton|cytosol|nucleus	protein binding|structural constituent of cytoskeleton|vinculin binding				0		Prostate(55;0.0421)|Breast(100;0.102)		BRCA - Breast invasive adenocarcinoma(99;0.00566)|Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		ATGTCTGGACGGAAGAGTCCT	0.582													7	9	---	---	---	---	PASS	C	22421834	C	C	22421834	2	2	108	1	0	0	0	0	0	0	0	1	14929	1103	39	4		4	SORBS3	8	22421834	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	15507696	22421834	123942188	500	39942										
FZD3	7976	broad.mit.edu	37	chr8	28384825	28384825	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttattcttttctgcatgtgcGtgattgttcacctccttgtc	7	10	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:28384825G>T	uc003xgx.2	+	5	1026	c.548G>T	c.(547-549)CGT>CTT	p.R183L	FZD3_uc010lvb.2_Missense_Mutation_p.R183L	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	183	Extracellular (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		CTGCATGTGCGTGATTGTTCA	0.438													28	37	---	---	---	---	PASS	T	28384825	T	T	28384825	3	4	108	1	0	0	0	0	1	0	0	0	6131	1145	40	1	558	1	FZD3	8	28384825	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	5962991	28384825	117979197	501	39943										
FZD3	7976	broad.mit.edu	37	chr8	28385267	28385267	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attgagaagaaagcattgctGtttcacgccagtgcatgggg	13	7	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:28385267G>A	uc003xgx.2	+	5	1468	c.990G>A	c.(988-990)CTG>CTA	p.L330L	FZD3_uc010lvb.2_Silent_p.L330L	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	330	Helical; Name=4; (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		AAGCATTGCTGTTTCACGCCA	0.448													30	28	---	---	---	---	PASS	A	28385267	A	A	28385267	2	1	108	1	0	0	0	0	0	0	0	1	6131	1364	48	3		3	FZD3	8	28385267	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	442	28385267	117978755	502	39944										
XKR4	114786	broad.mit.edu	37	chr8	56436703	56436703	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaaaggctattttagcttttGaatgttccccatctcctcca	6	11	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:56436703G>C	uc003xsf.2	+	3	1902	c.1870G>C	c.(1870-1872)GAA>CAA	p.E624Q		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	624						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			TTTAGCTTTTGAATGTTCCCC	0.438													30	14	---	---	---	---	PASS	C	56436703	C	C	56436703	3	2	108	1	0	0	0	0	1	0	0	0	17430	1291	45	2	1880	2	XKR4	8	56436703	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	28051436	56436703	89927319	503	39945										
TGS1	96764	broad.mit.edu	37	chr8	56699597	56699597	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcaactcatcggggaatacAaacacagacccaccagctga	8	13	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:56699597A>C	uc003xsj.3	+	4	1527	c.1140A>C	c.(1138-1140)ACA>ACC	p.T380T	TGS1_uc010lyh.2_Silent_p.T284T	NM_024831	NP_079107	Q96RS0	TGS1_HUMAN	trimethylguanosine synthase homolog	380					cellular lipid metabolic process|ncRNA metabolic process|regulation of transcription, DNA-dependent|RNA capping|spliceosomal snRNP assembly|transcription, DNA-dependent	Cajal body|cytosol	RNA trimethylguanosine synthase activity			ovary(1)|lung(1)|breast(1)	3		all_lung(136;0.119)|all_epithelial(80;0.125)|Lung NSC(129;0.147)	Epithelial(17;0.00027)|all cancers(17;0.00251)			CGGGGAATACAAACACAGACC	0.413													21	20	---	---	---	---	PASS	C	56699597	C	C	56699597	2	2	108	1	0	0	0	0	0	0	0	1	15834	117	5	5		5	TGS1	8	56699597	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	262894	56699597	89664425	504	39946										
CYP7A1	1581	broad.mit.edu	37	chr8	59409573	59409573	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaatacatcccttctgtcacCcaggcagcggtctttgagtt	9	12	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:59409573C>A	uc003xtm.3	-	3	561	c.498G>T	c.(496-498)TGG>TGT	p.W166C		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	166					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				CTTCTGTCACCCAGGCAGCGG	0.483									Neonatal_Giant_Cell_Hepatitis				42	41	---	---	---	---	PASS	A	59409573	A	A	59409573	3	1	108	1	0	0	0	0	1	0	0	0	4196	624	22	3	1032	3	CYP7A1	8	59409573	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2709976	59409573	86954449	505	39947										
SGK3	23678	broad.mit.edu	37	chr8	67726104	67726104	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccagattttattaaacaaagAcgagcaggactaaacgaatt	7	7	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:67726104A>G	uc003xwr.2	+	5	569	c.270A>G	c.(268-270)AGA>AGG	p.R90R	SGK3_uc003xwp.2_Silent_p.R84R|SGK3_uc003xwt.2_Silent_p.R90R|SGK3_uc003xwu.2_Silent_p.R90R	NM_001033578	NP_001028750	Q96BR1	SGK3_HUMAN	serum/glucocorticoid regulated kinase 3 isoform	90	PX.			R->A: Partially localized to the membrane.	cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)			TTAAACAAAGACGAGCAGGAC	0.308													23	28	---	---	---	---	PASS	G	67726104	G	G	67726104	2	3	108	1	0	0	0	0	0	0	0	1	14212	272	10	5		5	SGK3	8	67726104	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	8316531	67726104	78637918	506	39948										
CPA6	57094	broad.mit.edu	37	chr8	68423882	68423882	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgttttctgaagatcttctAtgaggaccctgaatttggaa	10	6	3	4	rs151119622		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:68423882A>G	uc003xxq.3	-	4	582	c.326T>C	c.(325-327)ATA>ACA	p.I109T	CPA6_uc003xxr.3_5'UTR|CPA6_uc003xxs.2_Missense_Mutation_p.I109T	NM_020361	NP_065094	Q8N4T0	CBPA6_HUMAN	carboxypeptidase A6 isoform 1 precursor	109					proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)			AAGATCTTCTATGAGGACCCT	0.378													55	42	---	---	---	---	PASS	G	68423882	G	G	68423882	3	3	108	1	0	0	0	0	1	0	0	0	3794	449	16	5	1019	5	CPA6	8	68423882	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	697778	68423882	77940140	507	39949										
SULF1	23213	broad.mit.edu	37	chr8	70501234	70501234	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcacagacttaatcactaacGagagcattaattacttcaaa	4	9	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:70501234G>A	uc010lza.1	+	8	1309	c.592G>A	c.(592-594)GAG>AAG	p.E198K	SULF1_uc003xyd.2_Missense_Mutation_p.E198K|SULF1_uc003xye.2_Missense_Mutation_p.E198K|SULF1_uc003xyf.2_Missense_Mutation_p.E198K|SULF1_uc003xyg.2_Missense_Mutation_p.E198K	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	198					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			AATCACTAACGAGAGCATTAA	0.428													14	15	---	---	---	---	PASS	A	70501234	A	A	70501234	3	1	108	1	0	0	0	0	1	0	0	0	15369	1059	37	2	606	2	SULF1	8	70501234	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2077352	70501234	75862788	508	39950										
SULF1	23213	broad.mit.edu	37	chr8	70541837	70541837	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaagagacggcagaggaaggGggaagagtgcagcctgcctg	19	7	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:70541837G>A	uc010lza.1	+	19	2924	c.2207G>A	c.(2206-2208)GGG>GAG	p.G736E	SULF1_uc003xyd.2_Missense_Mutation_p.G736E|SULF1_uc003xye.2_Missense_Mutation_p.G736E|SULF1_uc003xyf.2_Missense_Mutation_p.G736E|SULF1_uc003xyg.2_Missense_Mutation_p.G736E|SULF1_uc003xyh.1_RNA|SULF1_uc003xyi.1_5'UTR	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	736					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			CAGAGGAAGGGGGAAGAGTGC	0.537													33	34	---	---	---	---	PASS	A	70541837	A	A	70541837	3	1	108	1	0	0	0	0	1	0	0	0	15369	1232	43	3	2265	3	SULF1	8	70541837	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	40603	70541837	75822185	509	39951										
ZFHX4	79776	broad.mit.edu	37	chr8	77616923	77616923	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acttttcatatcgcttcatcCctcgggaaaccatttacagc	5	13	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:77616923C>G	uc003yav.2	+	2	987	c.600C>G	c.(598-600)TCC>TCG	p.S200S	ZFHX4_uc003yat.1_Silent_p.S200S|ZFHX4_uc003yau.1_Silent_p.S200S|ZFHX4_uc003yaw.1_Silent_p.S200S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	200						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCGCTTCATCCCTCGGGAAAC	0.493										HNSCC(33;0.089)			8	60	---	---	---	---	PASS	G	77616923	G	G	77616923	2	3	108	1	0	0	0	0	0	0	0	1	17632	610	22	4		4	ZFHX4	8	77616923	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	7075086	77616923	68747099	510	39952										
ZFHX4	79776	broad.mit.edu	37	chr8	77766955	77766955	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagaaggagggaatagcggtGaagaccaacaccgagataaa	13	6	0	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:77766955G>A	uc003yav.2	+	10	8050	c.7663G>A	c.(7663-7665)GAA>AAA	p.E2555K	ZFHX4_uc003yau.1_Missense_Mutation_p.E2600K|ZFHX4_uc003yaw.1_Missense_Mutation_p.E2555K	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2555						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GAATAGCGGTGAAGACCAACA	0.448										HNSCC(33;0.089)			33	67	---	---	---	---	PASS	A	77766955	A	A	77766955	3	1	108	1	0	0	0	0	1	0	0	0	17632	1291	45	2	7832	2	ZFHX4	8	77766955	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	150032	77766955	68597067	511	39953										
CALB1	793	broad.mit.edu	37	chr8	91072419	91072419	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctctagttatccccagcacaGagaataagagcaagatccgt	8	11	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:91072419G>C	uc003yel.1	-	11	950	c.768C>G	c.(766-768)CTC>CTG	p.L256L	CALB1_uc011lge.1_Silent_p.L199L	NM_004929	NP_004920	P05937	CALB1_HUMAN	calbindin 1	256						nucleus	calcium ion binding|vitamin D binding			pancreas(1)	1			BRCA - Breast invasive adenocarcinoma(11;0.00953)			CCCCAGCACAGAGAATAAGAG	0.408													48	96	---	---	---	---	PASS	C	91072419	C	C	91072419	2	2	108	1	0	0	0	0	0	0	0	1	2573	929	33	2		2	CALB1	8	91072419	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	13305464	91072419	55291603	512	39954										
KIAA1429	25962	broad.mit.edu	37	chr8	95538842	95538842	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	accagcagtaacaaccctcaCagtctgatctaaaagtatga	6	11	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:95538842C>G	uc003ygo.1	-	8	1643	c.1630G>C	c.(1630-1632)GTG>CTG	p.V544L	KIAA1429_uc003ygp.2_Missense_Mutation_p.V544L|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	544					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			ACAACCCTCACAGTCTGATCT	0.378													15	154	---	---	---	---	PASS	G	95538842	G	G	95538842	3	3	108	1	0	0	0	0	1	0	0	0	8231	478	17	4	3930	4	KIAA1429	8	95538842	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4466423	95538842	50825180	513	39955										
INTS8	55656	broad.mit.edu	37	chr8	95848775	95848775	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgctatgatttgggcgcagcAtacttccagcaaggctccac	10	12	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:95848775A>T	uc003yhb.2	+	7	903	c.777A>T	c.(775-777)GCA>GCT	p.A259A	INTS8_uc003yha.1_Silent_p.A259A|INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Silent_p.A86A	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	259	TPR 1.				snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					TGGGCGCAGCATACTTCCAGC	0.373													39	57	---	---	---	---	PASS	T	95848775	T	T	95848775	2	4	108	1	0	0	0	0	0	0	0	1	7784	204	8	5		5	INTS8	8	95848775	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	309933	95848775	50515247	514	39956										
KCNS2	3788	broad.mit.edu	37	chr8	99440426	99440426	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgggagttctacttcgaccgCaaccctgagctcttccccta	8	16	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:99440426C>A	uc003yin.2	+	2	569	c.219C>A	c.(217-219)CGC>CGA	p.R73R		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	73	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			ACTTCGACCGCAACCCTGAGC	0.592													21	61	---	---	---	---	PASS	A	99440426	A	A	99440426	2	1	108	1	0	0	0	0	0	0	0	1	8089	697	25	3		3	KCNS2	8	99440426	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	3591651	99440426	46923596	515	39957										
VPS13B	157680	broad.mit.edu	37	chr8	100133616	100133616	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caacaaaaagcacagactttGaaggatcctattgtttctat	6	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:100133616G>C	uc003yiv.2	+	8	1260	c.1149G>C	c.(1147-1149)TTG>TTC	p.L383F	VPS13B_uc003yiw.2_Missense_Mutation_p.L383F|VPS13B_uc003yit.2_Missense_Mutation_p.L383F|VPS13B_uc003yiu.1_Missense_Mutation_p.L383F|VPS13B_uc003yis.2_Missense_Mutation_p.L383F|VPS13B_uc011lgy.1_Missense_Mutation_p.L259F	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	383					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CACAGACTTTGAAGGATCCTA	0.398													12	80	---	---	---	---	PASS	C	100133616	C	C	100133616	3	2	108	1	0	0	0	0	1	0	0	0	17187	1281	45	2	1175	2	VPS13B	8	100133616	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	693190	100133616	46230406	516	39958										
PKHD1L1	93035	broad.mit.edu	37	chr8	110523031	110523031	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caggatcatggctggtgtgcTggatatacatgccagagaag	14	7	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:110523031T>A	uc003yne.2	+	71	11525	c.11421T>A	c.(11419-11421)GCT>GCA	p.A3807A		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3807	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GCTGGTGTGCTGGATATACAT	0.403										HNSCC(38;0.096)			58	43	---	---	---	---	PASS	A	110523031	A	A	110523031	2	1	108	1	0	0	0	0	0	0	0	1	11972	1567	55	5		5	PKHD1L1	8	110523031	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	10389415	110523031	35840991	517	39959										
CSMD3	114788	broad.mit.edu	37	chr8	113317125	113317125	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgttccaagataaaggaattGatgcttggacatgtaacaac	9	6	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:113317125G>A	uc003ynu.2	-	52	8250	c.8091C>T	c.(8089-8091)ATC>ATT	p.I2697I	CSMD3_uc003yns.2_Silent_p.I1899I|CSMD3_uc003ynt.2_Silent_p.I2657I|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2697	Extracellular (Potential).|Sushi 16.					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						TAAAGGAATTGATGCTTGGAC	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	6	---	---	---	---	PASS	A	113317125	A	A	113317125	2	1	108	1	0	0	0	0	0	0	0	1	3946	1280	45	2		2	CSMD3	8	113317125	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2794094	113317125	33046897	518	39960										
CSMD3	114788	broad.mit.edu	37	chr8	113599332	113599332	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgctaaatgaaatgttctgGctgaaatattgattcccttt	8	6	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:113599332G>C	uc003ynu.2	-	23	4007	c.3848C>G	c.(3847-3849)GCC>GGC	p.A1283G	CSMD3_uc003yns.2_Missense_Mutation_p.A555G|CSMD3_uc003ynt.2_Missense_Mutation_p.A1243G|CSMD3_uc011lhx.1_Missense_Mutation_p.A1179G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1283	Extracellular (Potential).|CUB 7.					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						AAATGTTCTGGCTGAAATATT	0.313										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			24	28	---	---	---	---	PASS	C	113599332	C	C	113599332	3	2	108	1	0	0	0	0	1	0	0	0	3946	1203	42	4	7471	4	CSMD3	8	113599332	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	282207	113599332	32764690	519	39961										
HAS2	3037	broad.mit.edu	37	chr8	122641427	122641427	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gatgaggtgtgatgccaaaaAggcaccatacagtccaaaag	11	8	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:122641427A>T	uc003yph.2	-	2	692	c.154T>A	c.(154-156)TTT>ATT	p.F52I		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	52	Helical; Name=2; (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			GATGCCAAAAAGGCACCATAC	0.408													50	62	---	---	---	---	PASS	T	122641427	T	T	122641427	3	4	108	1	0	0	0	0	1	0	0	0	6962	72	3	5	1516	5	HAS2	8	122641427	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	9042095	122641427	23722595	520	39962										
FER1L6	654463	broad.mit.edu	37	chr8	125058105	125058105	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggagctggcagagtccccgcCcttagtggtggtggagctgt	17	10	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:125058105C>A	uc003yqw.2	+	21	2893	c.2687C>A	c.(2686-2688)CCC>CAC	p.P896H		NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	896	Cytoplasmic (Potential).|C2 3.					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			GAGTCCCCGCCCTTAGTGGTG	0.552													20	153	---	---	---	---	PASS	A	125058105	A	A	125058105	3	1	108	1	0	0	0	0	1	0	0	0	5815	623	22	3	2765	3	FER1L6	8	125058105	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2416678	125058105	21305917	521	39963										
TMEM71	137835	broad.mit.edu	37	chr8	133740110	133740110	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgggactgaagagacaagcTatgggagtttcctccaggag	14	8	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:133740110T>A	uc003ytp.2	-	6	836	c.607A>T	c.(607-609)AGC>TGC	p.S203C	TMEM71_uc003ytm.1_Missense_Mutation_p.S25C|TMEM71_uc003ytn.2_Missense_Mutation_p.S185C|TMEM71_uc003yto.2_Intron	NM_144649	NP_653250	Q6P5X7	TMM71_HUMAN	transmembrane protein 71 isoform 1	204						integral to membrane				ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			AGAGACAAGCTATGGGAGTTT	0.473													33	64	---	---	---	---	PASS	A	133740110	A	A	133740110	3	1	108	1	0	0	0	0	1	0	0	0	16197	1522	53	5	297	5	TMEM71	8	133740110	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	8682005	133740110	12623912	522	39964										
TG	7038	broad.mit.edu	37	chr8	133900481	133900481	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agtgaagatcatgagctacaGagaagcagcttccggaaact	11	8	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:133900481G>C	uc003ytw.2	+	10	2470	c.2429G>C	c.(2428-2430)AGA>ACA	p.R810T		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	810	Thyroglobulin type-1 7.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		ATGAGCTACAGAGAAGCAGCT	0.517													8	25	---	---	---	---	PASS	C	133900481	C	C	133900481	3	2	108	1	0	0	0	0	1	0	0	0	15810	942	33	2	2467	2	TG	8	133900481	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	160371	133900481	12463541	523	39965										
TG	7038	broad.mit.edu	37	chr8	133905937	133905937	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttatttttattcccctaggtCctggctcctgtgaggaagca	9	10	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:133905937C>A	uc003ytw.2	+	11	2805	c.2764C>A	c.(2764-2766)CCT>ACT	p.P922T		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	922	Thyroglobulin type-1 8.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCCCCTAGGTCCTGGCTCCTG	0.463													7	46	---	---	---	---	PASS	A	133905937	A	A	133905937	3	1	108	1	0	0	0	0	1	0	0	0	15810	855	30	2	2806	2	TG	8	133905937	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5456	133905937	12458085	524	39966										
COL22A1	169044	broad.mit.edu	37	chr8	139696707	139696707	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggagtccaggtgatccacgGagtccctggagaaataaata	13	8	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:139696707G>C	uc003yvd.2	-	39	3420	c.2973C>G	c.(2971-2973)CTC>CTG	p.L991L	COL22A1_uc011ljo.1_Silent_p.L291L	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	991	Pro-rich.|Gly-rich.				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)			GTGATCCACGGAGTCCCTGGA	0.532										HNSCC(7;0.00092)			24	32	---	---	---	---	PASS	C	139696707	C	C	139696707	2	2	108	1	0	0	0	0	0	0	0	1	3681	1161	41	2		2	COL22A1	8	139696707	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	5790770	139696707	6667315	525	39967										
DENND3	22898	broad.mit.edu	37	chr8	142146830	142146830	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccccagagcgccagagcctGaggatgtcgccgtcccgggc	14	17	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:142146830G>C	uc003yvy.2	+	2	363	c.85G>C	c.(85-87)GAG>CAG	p.E29Q	DENND3_uc003yvw.1_Missense_Mutation_p.E42Q|DENND3_uc003yvx.2_Missense_Mutation_p.E109Q|DENND3_uc010mep.2_Missense_Mutation_p.E42Q	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	29	UDENN.									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)			GCCAGAGCCTGAGGATGTCGC	0.662													3	4	---	---	---	---	PASS	C	142146830	C	C	142146830	3	2	108	1	0	0	0	0	1	0	0	0	4432	1291	45	2	87	2	DENND3	8	142146830	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2450123	142146830	4217192	526	39968										
BAI1	575	broad.mit.edu	37	chr8	143570401	143570401	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgcactttcttccagaggccGatgaagcatccgtgtttgtg	11	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:143570401G>A	uc003ywm.2	+	14	2641	c.2458G>A	c.(2458-2460)GAT>AAT	p.D820N		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	820	Extracellular (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					TCCAGAGGCCGATGAAGCATC	0.662													11	12	---	---	---	---	PASS	A	143570401	A	A	143570401	3	1	108	1	0	0	0	0	1	0	0	0	1298	1058	37	2	2512	2	BAI1	8	143570401	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1423571	143570401	2793621	527	39969										
GLI4	2738	broad.mit.edu	37	chr8	144358654	144358654	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agaagccctacaagtgcggcGagtgcggccaggccttcagc	14	13	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:144358654G>A	uc003yxx.2	+	4	896	c.811G>A	c.(811-813)GAG>AAG	p.E271K	ZFP41_uc003yxv.2_RNA	NM_138465	NP_612474	P10075	GLI4_HUMAN	GLI-Kruppel family member GLI4	271	C2H2-type 4.					nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			CAAGTGCGGCGAGTGCGGCCA	0.682													17	39	---	---	---	---	PASS	A	144358654	A	A	144358654	3	1	108	1	0	0	0	0	1	0	0	0	6440	1059	37	2	821	2	GLI4	8	144358654	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	788253	144358654	2005368	528	39970										
SCRIB	23513	broad.mit.edu	37	chr8	144892670	144892670	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcctctgcaggcaagggcgaCccagagtctggctggcaagg	15	12	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr8:144892670C>G	uc003yzp.1	-	13	1516	c.1509G>C	c.(1507-1509)GGG>GGC	p.G503G	SCRIB_uc003yzo.1_Silent_p.G503G	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	503	Sufficient for targeting to adherens junction and to inhibit cell proliferation.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			GCAAGGGCGACCCAGAGTCTG	0.697													5	38	---	---	---	---	PASS	G	144892670	G	G	144892670	2	3	108	1	0	0	0	0	0	0	0	1	13937	494	18	4		4	SCRIB	8	144892670	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	534016	144892670	1471352	529	39971										
PPAPDC2	403313	broad.mit.edu	37	chr9	4663258	4663258	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctttttactgtggagtcaaCgatgacaccatctcattgat	7	9	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:4663258C>G	uc003zin.2	+	1	961	c.883C>G	c.(883-885)CGA>GGA	p.R295G	C9orf68_uc003zik.2_Intron|C9orf68_uc003zil.2_Intron|C9orf68_uc010mhj.2_Intron|C9orf68_uc011lly.1_Intron|C9orf68_uc011llz.1_Intron|C9orf68_uc003zim.2_Intron	NM_203453	NP_982278	Q8IY26	PPAC2_HUMAN	phosphatidic acid phosphatase type 2 domain	295						integral to membrane	hydrolase activity				0	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.026)		GTGGAGTCAACGATGACACCA	0.483													35	51	---	---	---	---	PASS	G	4663258	G	G	4663258	3	3	108	1	0	0	0	0	1	0	0	0	12295	528	19	4	885	4	PPAPDC2	9	4663258	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08		4663258	136550173	530	39972										
FREM1	158326	broad.mit.edu	37	chr9	14842506	14842506	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgggggactatcatctttggGcaagacgttgatggggaatt	15	6	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:14842506G>A	uc003zlm.2	-	9	2136	c.1546C>T	c.(1546-1548)CCC>TCC	p.P516S	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	516	CSPG 3.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		TCATCTTTGGGCAAGACGTTG	0.502													40	58	---	---	---	---	PASS	A	14842506	A	A	14842506	3	1	108	1	0	0	0	0	1	0	0	0	6044	1203	42	3	5159	3	FREM1	9	14842506	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	10179248	14842506	126370925	531	39973										
FAM154A	158297	broad.mit.edu	37	chr9	18928832	18928832	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cacaaagcgcttctccacggGgtgggccacatagctcatct	10	14	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:18928832G>C	uc003zni.1	-	4	921	c.643C>G	c.(643-645)CCC>GCC	p.P215A	FAM154A_uc010mip.1_Missense_Mutation_p.P23A	NM_153707	NP_714918	Q8IYX7	F154A_HUMAN	hypothetical protein LOC158297	215										pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.53e-16)		TTCTCCACGGGGTGGGCCACA	0.502													24	32	---	---	---	---	PASS	C	18928832	C	C	18928832	3	2	108	1	0	0	0	0	1	0	0	0	5463	1232	43	4	785	4	FAM154A	9	18928832	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4086326	18928832	122284599	532	39974										
DNAJB5	25822	broad.mit.edu	37	chr9	34996700	34996700	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctgcacatagtcatcaagcGtggctggaaggaaggcacca	12	11	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:34996700G>A	uc003zvt.2	+	3	788	c.650G>A	c.(649-651)CGT>CAT	p.R217H	DNAJB5_uc003zvs.2_Missense_Mutation_p.R251H|DNAJB5_uc011los.1_Missense_Mutation_p.R289H	NM_012266	NP_036398	O75953	DNJB5_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 5	217					protein folding|response to unfolded protein		heat shock protein binding|unfolded protein binding				0			LUSC - Lung squamous cell carcinoma(32;0.00575)			GTCATCAAGCGTGGCTGGAAG	0.562													12	35	---	---	---	---	PASS	A	34996700	A	A	34996700	3	1	108	1	0	0	0	0	1	0	0	0	4623	1145	40	1	876	1	DNAJB5	9	34996700	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	16067868	34996700	106216731	533	39975										
KIAA1539	80256	broad.mit.edu	37	chr9	35108045	35108045	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggcctctcttcagctcccggGgaccctcagtggatggggct	14	14	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:35108045G>A	uc003zwl.2	-	3	552	c.227C>T	c.(226-228)CCC>CTC	p.P76L	KIAA1539_uc003zwm.2_Missense_Mutation_p.P76L|KIAA1539_uc003zwn.2_Intron|KIAA1539_uc003zwo.2_Missense_Mutation_p.P76L|KIAA1539_uc003zwp.1_Missense_Mutation_p.P76L|KIAA1539_uc010mkk.1_Intron	NM_025182	NP_079458	Q7L5A3	K1539_HUMAN	hypothetical protein LOC80256	76						nucleus				ovary(2)	2	all_epithelial(49;0.217)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			CAGCTCCCGGGGACCCTCAGT	0.637													5	35	---	---	---	---	PASS	A	35108045	A	A	35108045	3	1	108	1	0	0	0	0	1	0	0	0	8242	1232	43	3	1417	3	KIAA1539	9	35108045	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	111345	35108045	106105386	534	39976										
TRPM6	140803	broad.mit.edu	37	chr9	77455096	77455096	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggcagttccattttccactCtttcaacattaaatgtaaca	5	10	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:77455096C>T	uc004ajl.1	-	5	626	c.388G>A	c.(388-390)GAG>AAG	p.E130K	TRPM6_uc004ajk.1_Missense_Mutation_p.E125K|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.E130K|TRPM6_uc010mpd.1_Missense_Mutation_p.E130K|TRPM6_uc010mpe.1_Missense_Mutation_p.E130K|TRPM6_uc004ajn.1_Missense_Mutation_p.E130K	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	130	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						ATTTTCCACTCTTTCAACATT	0.363													19	17	---	---	---	---	PASS	T	77455096	T	T	77455096	3	4	108	1	0	0	0	0	1	0	0	0	16587	922	32	2	5820	2	TRPM6	9	77455096	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	42347051	77455096	63758335	535	39977										
PCSK5	5125	broad.mit.edu	37	chr9	78686749	78686749	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccagctggggcccggatgatGatggcaagactgtggacgga	17	9	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:78686749G>T	uc004ajz.2	+	7	1367	c.829G>T	c.(829-831)GAT>TAT	p.D277Y	PCSK5_uc004ajy.2_Missense_Mutation_p.D277Y|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	277	Catalytic.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						CCCGGATGATGATGGCAAGAC	0.532													22	98	---	---	---	---	PASS	T	78686749	T	T	78686749	3	4	108	1	0	0	0	0	1	0	0	0	11603	1290	45	2	855	2	PCSK5	9	78686749	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1231653	78686749	62526682	536	39978										
PRUNE2	158471	broad.mit.edu	37	chr9	79322998	79322998	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcatactctaaaacttcctCtggttcctcggtttgaggac	7	12	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:79322998C>A	uc010mpk.2	-	8	4316	c.4192G>T	c.(4192-4194)GAG>TAG	p.E1398*		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1398					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						AAAACTTCCTCTGGTTCCTCG	0.458													17	21	---	---	---	---	PASS	A	79322998	A	A	79322998	4	1	108	1	0	0	0	0	0	1	0	0	12641	922	32	2	5122	2	PRUNE2	9	79322998	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	636249	79322998	61890433	537	39979										
CEP78	84131	broad.mit.edu	37	chr9	80856685	80856685	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggatgtaatctgacatggcaGggagcagatcacatggccaa	13	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:80856685G>A	uc004akx.2	+	4	849	c.573G>A	c.(571-573)CAG>CAA	p.Q191Q	CEP78_uc004aky.3_Silent_p.Q191Q|CEP78_uc010mpp.2_Silent_p.Q191Q|CEP78_uc011lsp.1_Silent_p.Q104Q	NM_032171	NP_115547	Q5JTW2	CEP78_HUMAN	centrosomal protein 78kDa isoform b	191					G2/M transition of mitotic cell cycle	centrosome|cytosol				ovary(1)	1						TGACATGGCAGGGAGCAGATC	0.343													8	54	---	---	---	---	PASS	A	80856685	A	A	80856685	2	1	108	1	0	0	0	0	0	0	0	1	3262	991	35	3		3	CEP78	9	80856685	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1533687	80856685	60356746	538	39980										
FLJ46321	389763	broad.mit.edu	37	chr9	84607342	84607342	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccaggaagacttttgtcctCcagctcccaatcctgaattg	7	14	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:84607342C>G	uc004amn.2	+	4	2004	c.1957C>G	c.(1957-1959)CCA>GCA	p.P653A		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	653						integral to membrane					0						CTTTTGTCCTCCAGCTCCCAA	0.463													22	43	---	---	---	---	PASS	G	84607342	G	G	84607342	3	3	108	1	0	0	0	0	1	0	0	0	5932	855	30	2	1971	2	FLJ46321	9	84607342	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3750657	84607342	56606089	539	39981										
AGTPBP1	23287	broad.mit.edu	37	chr9	88203362	88203362	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttagtttctccaggatgtacCcgagcagacaagaaaacgta	9	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:88203362C>A	uc011ltd.1	-	20	2787	c.2754G>T	c.(2752-2754)CGG>CGT	p.R918R	AGTPBP1_uc004aod.3_Silent_p.R544R|AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Silent_p.R878R|AGTPBP1_uc011lte.1_Silent_p.R930R	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	918					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						CAGGATGTACCCGAGCAGACA	0.378													14	24	---	---	---	---	PASS	A	88203362	A	A	88203362	2	1	108	1	0	0	0	0	0	0	0	1	400	610	22	3		3	AGTPBP1	9	88203362	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	3596020	88203362	53010069	540	39982										
ASPN	54829	broad.mit.edu	37	chr9	95219630	95219630	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaaacacaacgaaatgttgcAggttgcatttcccagtattt	7	8	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:95219630A>G	uc004ase.1	-	8	1327	c.1083T>C	c.(1081-1083)CCT>CCC	p.P361P	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ASPN_uc010mqy.1_3'UTR	NM_017680	NP_060150	Q9BXN1	ASPN_HUMAN	asporin precursor	361	LRR 11.				bone mineralization|negative regulation of tooth mineralization|negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	calcium ion binding				0						GAAATGTTGCAGGTTGCATTT	0.353													12	34	---	---	---	---	PASS	G	95219630	G	G	95219630	2	3	108	1	0	0	0	0	0	0	0	1	1057	175	7	5		5	ASPN	9	95219630	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	7016268	95219630	45993801	541	39983										
FAM120AOS	158293	broad.mit.edu	37	chr9	96212824	96212824	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcgtgcaggctccatgtgctGggcagcagctgtccggccac	15	14	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:96212824G>A	uc004atu.3	-	2	1504	c.621C>T	c.(619-621)CCC>CCT	p.P207P	FAM120AOS_uc004atm.2_RNA|FAM120AOS_uc004atn.3_RNA|FAM120AOS_uc004ato.3_RNA|FAM120AOS_uc004atp.3_RNA|FAM120AOS_uc004atq.3_RNA|FAM120AOS_uc004atr.3_RNA|FAM120AOS_uc004ats.3_RNA|FAM120AOS_uc004att.3_RNA|FAM120A_uc004atv.2_5'Flank|FAM120A_uc004atw.2_5'Flank	NM_198841	NP_942138	Q5T036	F120S_HUMAN	hypothetical protein LOC158293	207											0						TCCATGTGCTGGGCAGCAGCT	0.507													9	34	---	---	---	---	PASS	A	96212824	A	A	96212824	2	1	108	1	0	0	0	0	0	0	0	1	5416	1335	47	3		3	FAM120AOS	9	96212824	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	993194	96212824	45000607	542	39984										
HABP4	22927	broad.mit.edu	37	chr9	99228025	99228025	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaagacaacatgggtggatgTggagttcgaacctggggatc	16	6	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:99228025T>C	uc010msg.2	+	4	856	c.708T>C	c.(706-708)TGT>TGC	p.C236C	HABP4_uc010msh.2_Intron	NM_014282	NP_055097	Q5JVS0	HABP4_HUMAN	hyaluronan binding protein 4	236					platelet activation|platelet degranulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|extracellular region|nucleus	protein binding			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0169)|all_hematologic(171;0.214)				TGGGTGGATGTGGAGTTCGAA	0.453													4	17	---	---	---	---	PASS	C	99228025	C	C	99228025	2	2	108	1	0	0	0	0	0	0	0	1	6939	1702	59	5		5	HABP4	9	99228025	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	3015201	99228025	41985406	543	39985										
PPP3R2	5535	broad.mit.edu	37	chr9	104356946	104356946	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcaacttctgctcctcgtcGcccttgacgctgaactggga	9	15	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:104356946G>A	uc004bbr.2	-	1	338	c.267C>T	c.(265-267)GGC>GGT	p.G89G	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_Intron	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	86							calcium ion binding	p.G89C(1)		ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	GCTCCTCGTCGCCCTTGACGC	0.537													17	71	---	---	---	---	PASS	A	104356946	A	A	104356946	2	1	108	1	0	0	0	0	0	0	0	1	12401	1074	38	1		1	PPP3R2	9	104356946	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	5128921	104356946	36856485	544	39986										
CYLC2	1539	broad.mit.edu	37	chr9	105767520	105767520	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caaacaaaggcaaagactcgGcaacagaatctgaaggtgaa	10	8	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:105767520G>T	uc004bbs.2	+	5	677	c.607G>T	c.(607-609)GCA>TCA	p.A203S		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	203	3 X approximate tandem repeats.|31 X 3 AA repeats of K-K-X.|2.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				CAAAGACTCGGCAACAGAATC	0.239													26	67	---	---	---	---	PASS	T	105767520	T	T	105767520	3	4	108	1	0	0	0	0	1	0	0	0	4142	1203	42	3	625	3	CYLC2	9	105767520	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1410574	105767520	35445911	545	39987										
OR13D1	286365	broad.mit.edu	37	chr9	107457200	107457200	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aacccactgaggtactccatCatcatgaacggagtgctgta	9	11	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:107457200C>A	uc011lvs.1	+	1	498	c.498C>A	c.(496-498)ATC>ATA	p.I166I		NM_001004484	NP_001004484	Q8NGV5	O13D1_HUMAN	olfactory receptor, family 13, subfamily D,	166	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GGTACTCCATCATCATGAACG	0.517													15	53	---	---	---	---	PASS	A	107457200	A	A	107457200	2	1	108	1	0	0	0	0	0	0	0	1	10940	816	29	2		2	OR13D1	9	107457200	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1689680	107457200	33756231	546	39988										
ABCA1	19	broad.mit.edu	37	chr9	107576733	107576733	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtctcagcatccaccccactCtcttcggccaccttgaggaa	7	17	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:107576733C>G	uc004bcl.2	-	26	4075	c.3762G>C	c.(3760-3762)GAG>GAC	p.E1254D		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1254					Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CCACCCCACTCTCTTCGGCCA	0.458													5	19	---	---	---	---	PASS	G	107576733	G	G	107576733	3	3	108	1	0	0	0	0	1	0	0	0	28	912	32	2	3123	2	ABCA1	9	107576733	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	119533	107576733	33636698	547	39989										
ACTL7A	10881	broad.mit.edu	37	chr9	111625099	111625099	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gatcgccccggaggagcatgCggtcttggtttcagacccgc	14	13	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:111625099C>T	uc004bdj.1	+	1	497	c.497C>T	c.(496-498)GCG>GTG	p.A166V		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	166						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						GAGGAGCATGCGGTCTTGGTT	0.527													10	27	---	---	---	---	PASS	T	111625099	T	T	111625099	3	4	108	1	0	0	0	0	1	0	0	0	200	768	27	1	499	1	ACTL7A	9	111625099	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4048366	111625099	29588332	548	39990										
CTNNAL1	8727	broad.mit.edu	37	chr9	111741743	111741743	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgaaaataaagattctcccGaagagcttcaatattcatct	5	9	4	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:111741743G>A	uc004bdo.1	-	7	961	c.919C>T	c.(919-921)CGG>TGG	p.R307W	CTNNAL1_uc010mts.1_Missense_Mutation_p.R43W|CTNNAL1_uc010mtt.1_Missense_Mutation_p.R307W|CTNNAL1_uc004bdp.1_Missense_Mutation_p.R307W	NM_003798	NP_003789	Q9UBT7	CTNL1_HUMAN	catenin, alpha-like 1	307					cell adhesion|Rho protein signal transduction	actin cytoskeleton|cytosol|plasma membrane	cadherin binding|structural molecule activity			ovary(1)	1				STAD - Stomach adenocarcinoma(157;0.0768)		AGATTCTCCCGAAGAGCTTCA	0.418													4	16	---	---	---	---	PASS	A	111741743	A	A	111741743	3	1	108	1	0	0	0	0	1	0	0	0	4015	1057	37	2	1337	2	CTNNAL1	9	111741743	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	116644	111741743	29471688	549	39991										
ASTN2	23245	broad.mit.edu	37	chr9	119582947	119582947	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	catcgtagggcaggggcagcGtctgctgcaggcacagctgc	16	12	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:119582947G>T	uc004bjs.1	-	12	2257	c.2156C>A	c.(2155-2157)ACG>AAG	p.T719K	ASTN2_uc004bjr.1_Missense_Mutation_p.T715K|ASTN2_uc004bjt.1_Missense_Mutation_p.T668K	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	719	Extracellular (Potential).|EGF-like 3.					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CAGGGGCAGCGTCTGCTGCAG	0.577													7	30	---	---	---	---	PASS	T	119582947	T	T	119582947	3	4	108	1	0	0	0	0	1	0	0	0	1065	1145	40	1	2143	1	ASTN2	9	119582947	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	7841204	119582947	21630484	550	39992										
FAM129B	64855	broad.mit.edu	37	chr9	130279211	130279211	+	Missense_Mutation	SNP	C	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcggatgacggcctgcatggCcggctgcacctgctgcacct							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:130279211C>A	uc004brh.2	-	8	1100	c.898G>T	c.(898-900)GCC>TCC	p.A300S	FAM129B_uc004bri.2_Missense_Mutation_p.A287S|FAM129B_uc004brj.3_Missense_Mutation_p.A300S	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	300							protein binding				0						GCCTGCATGGCCGGCTGCACC	0.622													27	103	---	---	---	---	PASS	A	130279211	A	A	130279211	3	1	108	1	0	0	0	0	1	0	0	0	5437	739	26	3	1370	3	FAM129B	9	130279211	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	10696264	130279211	10934220	551	39993	748	2								
FAM129B	64855	broad.mit.edu	37	chr9	130279214	130279214	+	Missense_Mutation	SNP	G	C	C													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gatgacggcctgcatggccgGctgcacctgctgcaccttgg							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:130279214G>C	uc004brh.2	-	8	1097	c.895C>G	c.(895-897)CCG>GCG	p.P299A	FAM129B_uc004bri.2_Missense_Mutation_p.P286A|FAM129B_uc004brj.3_Missense_Mutation_p.P299A	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	299							protein binding				0						TGCATGGCCGGCTGCACCTGC	0.622													28	103	---	---	---	---	PASS	C	130279214	C	C	130279214	3	2	108	1	0	0	0	0	1	0	0	0	5437	1203	42	4	1373	4	FAM129B	9	130279214	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3	130279214	10934217	552	39994	748	2								
C9orf117	286207	broad.mit.edu	37	chr9	130473730	130473730	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaacagctggagctgctggaGaacacccagaaggtcatggc	13	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:130473730G>A	uc004brn.1	+	4	850	c.810G>A	c.(808-810)GAG>GAA	p.E270E	PTRH1_uc004brm.2_Intron|C9orf117_uc010mxl.1_RNA	NM_001012502	NP_001012520	Q5JU67	CI117_HUMAN	hypothetical protein LOC286207	270	Potential.										0						AGCTGCTGGAGAACACCCAGA	0.587													45	28	---	---	---	---	PASS	A	130473730	A	A	130473730	2	1	108	1	0	0	0	0	0	0	0	1	2451	933	33	2		2	C9orf117	9	130473730	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	194516	130473730	10739701	553	39995										
USP20	10868	broad.mit.edu	37	chr9	132623876	132623876	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctacatgaacgctgccctgcAggccctgtccaattggtagg	11	13	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:132623876A>C	uc004bys.2	+	8	693	c.482A>C	c.(481-483)CAG>CCG	p.Q161P	USP20_uc004byr.2_Missense_Mutation_p.Q161P|USP20_uc004byt.1_Missense_Mutation_p.Q161P	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	161					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				GCTGCCCTGCAGGCCCTGTCC	0.622													19	20	---	---	---	---	PASS	C	132623876	C	C	132623876	3	2	108	1	0	0	0	0	1	0	0	0	17049	188	7	5	504	5	USP20	9	132623876	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	2150146	132623876	8589555	554	39996										
NUP214	8021	broad.mit.edu	37	chr9	134049561	134049561	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgcacggacgtcctgtaaaGatgacgaggcagtggttcag	14	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:134049561G>C	uc004cag.2	+	22	3124	c.3013G>C	c.(3013-3015)GAT>CAT	p.D1005H	NUP214_uc004cah.2_Missense_Mutation_p.D995H|NUP214_uc004cai.2_Missense_Mutation_p.D435H|NUP214_uc004caf.1_Missense_Mutation_p.D994H|NUP214_uc010mzf.2_Missense_Mutation_p.D303H	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	1005	11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		GTCCTGTAAAGATGACGAGGC	0.537			T	DEK|SET|ABL1	AML|T-ALL								13	53	---	---	---	---	PASS	C	134049561	C	C	134049561	3	2	108	1	0	0	0	0	1	0	0	0	10762	942	33	2	3099	2	NUP214	9	134049561	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1425685	134049561	7163870	555	39997										
RPL7A	6130	broad.mit.edu	37	chr9	136216887	136216887	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggggacgtcccaacgaagaGaccacctgtccttcgagcag	12	13	0	1	rs11549063		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:136216887G>C	uc004cde.1	+	4	425	c.395G>C	c.(394-396)AGA>ACA	p.R132T	MED22_uc004cdc.2_5'Flank|MED22_uc004cdd.2_5'Flank|RPL7A_uc004cdf.1_5'UTR|SNORD36B_uc010nai.1_5'Flank|SNORD36A_uc010naj.2_5'Flank|SNORD36C_uc010nak.2_5'Flank	NM_000972	NP_000963	P62424	RL7A_HUMAN	ribosomal protein L7a	132					endocrine pancreas development|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|membrane fraction|polysomal ribosome	RNA binding|structural constituent of ribosome				0				OV - Ovarian serous cystadenocarcinoma(145;4.93e-07)|Epithelial(140;4.09e-06)|all cancers(34;3.78e-05)		CCAACGAAGAGACCACCTGTC	0.552													23	18	---	---	---	---	PASS	C	136216887	C	C	136216887	3	2	108	1	0	0	0	0	1	0	0	0	13600	942	33	2	409	2	RPL7A	9	136216887	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2167326	136216887	4996544	556	39998										
SNAPC4	6621	broad.mit.edu	37	chr9	139288772	139288772	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttcggagcaaggccttttcCcagtttttccctgaggagaa	10	10	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:139288772C>T	uc004chh.2	-	6	570	c.561G>A	c.(559-561)TGG>TGA	p.W187*		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	187					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		AGGCCTTTTCCCAGTTTTTCC	0.552													22	33	---	---	---	---	PASS	T	139288772	T	T	139288772	4	4	108	1	0	0	0	0	0	1	0	0	14837	624	22	3	3916	3	SNAPC4	9	139288772	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3071885	139288772	1924659	557	39999										
FAM166A	401565	broad.mit.edu	37	chr9	140139971	140139971	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtccacctccaagggtgggaGctggcccagaatctcaaagt	12	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:140139971G>A	uc004cmi.1	-	3	365	c.310C>T	c.(310-312)CTC>TTC	p.L104F		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	104										ovary(1)	1						AAGGGTGGGAGCTGGCCCAGA	0.642													39	28	---	---	---	---	PASS	A	140139971	A	A	140139971	3	1	108	1	0	0	0	0	1	0	0	0	5481	971	34	3	663	3	FAM166A	9	140139971	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	851199	140139971	1073460	558	40000										
C9orf173	441476	broad.mit.edu	37	chr9	140146505	140146505	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctggaagtccccagccccacCaggtaccaggtgccgagccc	11	18	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr9:140146505C>G	uc004cmk.1	+	3	330	c.318C>G	c.(316-318)ACC>ACG	p.T106T	C9orf173_uc004cmj.1_Silent_p.T107T|C9orf173_uc011meu.1_RNA|C9orf173_uc010ncd.1_Intron|C9orf173_uc011mev.1_Silent_p.T106T|C9orf173_uc004cml.1_Silent_p.T106T			Q8N7X2	CI173_HUMAN	SubName: Full=LOC441476 protein;	107										pancreas(1)	1						CCAGCCCCACCAGGTACCAGG	0.672													9	7	---	---	---	---	PASS	G	140146505	G	G	140146505	2	3	108	1	0	0	0	0	0	0	0	1	2472	581	21	4		4	C9orf173	9	140146505	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	6534	140146505	1066926	559	40001										
DHTKD1	55526	broad.mit.edu	37	chr10	12159705	12159705	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcttcaagaaatggcaccaGgaacaacatttaacccggtc	7	12	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:12159705G>T	uc001ild.3	+	14	2452	c.2353G>T	c.(2353-2355)GGA>TGA	p.G785*		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	785					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			AATGGCACCAGGAACAACATT	0.428													5	69	---	---	---	---	PASS	T	12159705	T	T	12159705	4	4	108	1	0	0	0	0	0	1	0	0	4500	1001	35	3	2407	3	DHTKD1	10	12159705	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08		12159705	123375042	560	40002										
CUBN	8029	broad.mit.edu	37	chr10	16981039	16981039	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	accatggacaacgtgagatgCattcacatttactgtccatt	7	10	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:16981039C>A	uc001ioo.2	-	38	5708	c.5656G>T	c.(5656-5658)GCA>TCA	p.A1886S		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1886	CUB 13.				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)	ACGTGAGATGCATTCACATTT	0.393													13	26	---	---	---	---	PASS	A	16981039	A	A	16981039	3	1	108	1	0	0	0	0	1	0	0	0	4051	710	25	3	5335	3	CUBN	10	16981039	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4821334	16981039	118553708	561	40003										
ST8SIA6	338596	broad.mit.edu	37	chr10	17369069	17369070	+	Frame_Shift_Ins	INS	-	C	C													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agagagacttattcagaattINScccccatttccgaccactgc							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:17369069_17369070insC	uc001ipd.2	-	6	578_579	c.578_579insG	c.(577-579)GGAfs	p.G193fs	ST8SIA6_uc010qce.1_Intron	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	193	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						TATTCAGAATTCCCCCATTTCC	0.391													41	20	---	---	---	---		C	17369070	C	C	17369069	7	5	108	1	0	1	1	0	0	0	0	0	15235	1770	62	0	629	0	ST8SIA6	10	17369069	Frame_Shift_Ins	INS	-	TCGA-46-3769-01A-01D-0983-08	388030	17369069	118165678	562	40004										
ST8SIA6	338596	broad.mit.edu	37	chr10	17373464	17373464	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atttcttttttgctttccacCtcgtaactcatattagtccc	3	12	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:17373464C>A	uc001ipd.2	-	5	465	c.465G>T	c.(463-465)GAG>GAT	p.E155D	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	155	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						TGCTTTCCACCTCGTAACTCA	0.383													16	23	---	---	---	---	PASS	A	17373464	A	A	17373464	3	1	108	1	0	0	0	0	1	0	0	0	15235	680	24	3	747	3	ST8SIA6	10	17373464	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4395	17373464	118161283	563	40005										
SLC39A12	221074	broad.mit.edu	37	chr10	18242259	18242259	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgccattgtttcttctactCagccgtgttttttctactga	7	10	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:18242259C>A	uc001ipo.2	+	2	327	c.54C>A	c.(52-54)CTC>CTA	p.L18L	SLC39A12_uc001ipn.2_Silent_p.L18L|SLC39A12_uc001ipp.2_Silent_p.L18L|SLC39A12_uc010qck.1_Intron	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	18	Extracellular (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						TTCTTCTACTCAGCCGTGTTT	0.527													26	46	---	---	---	---	PASS	A	18242259	A	A	18242259	2	1	108	1	0	0	0	0	0	0	0	1	14615	813	29	2		2	SLC39A12	10	18242259	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	868795	18242259	117292488	564	40006										
PIP4K2A	5305	broad.mit.edu	37	chr10	23003205	23003205	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acgaagtgcttcttcttggtCttggtcttgctcgccaggac	11	11	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:23003205C>G	uc001irl.3	-	1	299	c.51G>C	c.(49-51)AAG>AAC	p.K17N		NM_005028	NP_005019	P48426	PI42A_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	17							1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding			ovary(1)|skin(1)	2						TCTTCTTGGTCTTGGTCTTGC	0.647													7	14	---	---	---	---	PASS	G	23003205	G	G	23003205	3	3	108	1	0	0	0	0	1	0	0	0	11936	912	32	2	1209	2	PIP4K2A	10	23003205	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4760946	23003205	112531542	565	40007										
ARHGAP21	57584	broad.mit.edu	37	chr10	24874831	24874831	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgttttctgcccagtgtctCactttcttttttggactcct	6	12	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:24874831C>T	uc001isb.2	-	26	4874	c.4387G>A	c.(4387-4389)GAG>AAG	p.E1463K	ARHGAP21_uc010qdb.1_RNA	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	1462					signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						CCCAGTGTCTCACTTTCTTTT	0.388													28	45	---	---	---	---	PASS	T	24874831	T	T	24874831	3	4	108	1	0	0	0	0	1	0	0	0	871	835	29	2	1493	2	ARHGAP21	10	24874831	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1871626	24874831	110659916	566	40008										
PARD3	56288	broad.mit.edu	37	chr10	34573173	34573173	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcttttcgatgtttgccaaaCctgttaataacaaaaaattc	4	8	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:34573173C>A	uc010qej.1	-	21	3075	c.3075G>T	c.(3073-3075)AGG>AGT	p.R1025S	PARD3_uc010qek.1_Missense_Mutation_p.R1022S|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Missense_Mutation_p.R1009S|PARD3_uc010qen.1_Missense_Mutation_p.R979S|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Missense_Mutation_p.R935S|PARD3_uc010qeq.1_Intron	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	1025	Lys-rich.				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)				GTTTGCCAAACCTGTTAATAA	0.323													11	76	---	---	---	---	PASS	A	34573173	A	A	34573173	3	1	108	1	0	0	0	0	1	0	0	0	11443	521	18	3	1015	3	PARD3	10	34573173	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	9698342	34573173	100961574	567	40009										
CREM	1390	broad.mit.edu	37	chr10	35467822	35467822	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aatcttgtattataggtagcAgcaattgcagagacagatga	10	5	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:35467822A>T	uc001iyb.2	+	4	336	c.174A>T	c.(172-174)GCA>GCT	p.A58A	CREM_uc001ixx.2_Silent_p.A42A|CREM_uc001ixy.2_Intron|CREM_uc001ixz.2_Intron|CREM_uc001iya.2_Silent_p.A58A|CREM_uc001iyc.2_Silent_p.A42A|CREM_uc001iyd.2_Silent_p.A58A|CREM_uc001iye.2_Silent_p.A58A|CREM_uc001iyf.2_Silent_p.A28A|CREM_uc001iyg.2_Silent_p.A28A|CREM_uc001iyh.2_Silent_p.A3A|CREM_uc001iyi.2_Silent_p.A3A|CREM_uc001iyj.2_5'UTR|CREM_uc001iyk.2_5'UTR	NM_181571	NP_853549	Q03060	CREM_HUMAN	cAMP responsive element modulator isoform a	107	KID.				cell differentiation|multicellular organismal development|signal transduction|spermatogenesis	nucleus	cAMP response element binding protein binding|protein binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TATAGGTAGCAGCAATTGCAG	0.358													6	22	---	---	---	---	PASS	T	35467822	T	T	35467822	2	4	108	1	0	0	0	0	0	0	0	1	3868	175	7	5		5	CREM	10	35467822	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	894649	35467822	100066925	568	40010										
ZNF25	219749	broad.mit.edu	37	chr10	38246038	38246038	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgcatttggcttattcacatGgtaacctatgaatggaaaat	8	6	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:38246038G>A	uc001ize.1	-	4	253	c.148C>T	c.(148-150)CAT>TAT	p.H50Y	ZNF25_uc001izf.1_Missense_Mutation_p.H14Y	NM_145011	NP_659448	P17030	ZNF25_HUMAN	zinc finger protein 25	50	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|central_nervous_system(1)	4		all_neural(218;0.0218)|Breast(68;0.0389)|Ovarian(717;0.0443)|Renal(717;0.157)				TTATTCACATGGTAACCTATG	0.388													6	37	---	---	---	---	PASS	A	38246038	A	A	38246038	3	1	108	1	0	0	0	0	1	0	0	0	17791	1348	47	3	1234	3	ZNF25	10	38246038	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2778216	38246038	97288709	569	40011										
ZNF33A	7581	broad.mit.edu	37	chr10	38343517	38343517	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcaacactgtttcagaattGgttatcagtaagataaacta	6	6	3	2	rs141144828		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:38343517G>T	uc001izh.2	+	5	640	c.462G>T	c.(460-462)TTG>TTT	p.L154F	ZNF33A_uc001izg.2_Missense_Mutation_p.L155F|ZNF33A_uc010qev.1_Missense_Mutation_p.L161F|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	154						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						TTTCAGAATTGGTTATCAGTA	0.323													13	56	---	---	---	---	PASS	T	38343517	T	T	38343517	3	4	108	1	0	0	0	0	1	0	0	0	17851	1339	47	3	479	3	ZNF33A	10	38343517	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	97479	38343517	97191230	570	40012										
ZNF33B	7582	broad.mit.edu	37	chr10	43088981	43088981	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acaaaaggatttcccacactCaagacattcaaaaggtttct	5	10	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:43088981C>A	uc001jaf.1	-	5	1532	c.1417G>T	c.(1417-1419)GAG>TAG	p.E473*	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Nonsense_Mutation_p.E361*|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	473	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTCCCACACTCAAGACATTCA	0.378													15	38	---	---	---	---	PASS	A	43088981	A	A	43088981	4	1	108	1	0	0	0	0	0	1	0	0	17852	835	29	2	923	2	ZNF33B	10	43088981	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4745464	43088981	92445766	571	40013										
RASSF4	83937	broad.mit.edu	37	chr10	45486418	45486418	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cggacaaaattaaaagactgCgagtacccgctgatttccag	9	10	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:45486418C>T	uc001jbo.2	+	9	842	c.708C>T	c.(706-708)TGC>TGT	p.C236C	RASSF4_uc001jbp.2_Silent_p.C267C|RASSF4_uc009xmn.2_Silent_p.C166C|RASSF4_uc001jbq.2_Silent_p.C133C|RASSF4_uc001jbt.2_Silent_p.C193C	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	236	Ras-associating.				cell cycle|signal transduction		protein binding			large_intestine(1)	1						TAAAAGACTGCGAGTACCCGC	0.473													10	65	---	---	---	---	PASS	T	45486418	T	T	45486418	2	4	108	1	0	0	0	0	0	0	0	1	13088	776	27	1		1	RASSF4	10	45486418	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	2397437	45486418	90048329	572	40014										
OR13A1	79290	broad.mit.edu	37	chr10	45799210	45799210	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cactatgccgtagaaagcatCcgccaggacaatcatgacac	8	13	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:45799210C>A	uc001jcc.1	-	4	970	c.661G>T	c.(661-663)GAT>TAT	p.D221Y	OR13A1_uc001jcd.1_Missense_Mutation_p.D217Y	NM_001004297	NP_001004297	Q8NGR1	O13A1_HUMAN	olfactory receptor, family 13, subfamily A,	221	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TAGAAAGCATCCGCCAGGACA	0.547													9	56	---	---	---	---	PASS	A	45799210	A	A	45799210	3	1	108	1	0	0	0	0	1	0	0	0	10933	855	30	2	329	2	OR13A1	10	45799210	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	312792	45799210	89735537	573	40015										
RBP3	5949	broad.mit.edu	37	chr10	48389621	48389621	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	accagtgcttgccggatagcCtcgtcctcaggcaactctgg	11	14	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:48389621C>G	uc001jez.2	-	1	1371	c.1257G>C	c.(1255-1257)GAG>GAC	p.E419D		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	419	4 X approximate tandem repeats.|2.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	GCCGGATAGCCTCGTCCTCAG	0.637													4	27	---	---	---	---	PASS	G	48389621	G	G	48389621	3	3	108	1	0	0	0	0	1	0	0	0	13157	680	24	4	2502	4	RBP3	10	48389621	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2590411	48389621	87145126	574	40016										
C10orf71	118461	broad.mit.edu	37	chr10	50531521	50531521	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcactatggggacacgaccTtgctaagagaaccctgtcct	10	12	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:50531521T>C	uc010qgp.1	+	3	1270	c.931T>C	c.(931-933)TTG>CTG	p.L311L		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	311											0						GGACACGACCTTGCTAAGAGA	0.572													7	51	---	---	---	---	PASS	C	50531521	C	C	50531521	2	2	108	1	0	0	0	0	0	0	0	1	1614	1606	56	5		5	C10orf71	10	50531521	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	2141900	50531521	85003226	575	40017										
DRGX	644168	broad.mit.edu	37	chr10	50574366	50574366	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgcggttactctggcagccaTaggtgggaaggaaggagagt	17	6	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:50574366T>G	uc010qgq.1	-	6	602	c.602A>C	c.(601-603)TAT>TCT	p.Y201S		NM_001080520	NP_001073989	A6NNA5	DRGX_HUMAN	dorsal root ganglia homeobox	201					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CTGGCAGCCATAGGTGGGAAG	0.612													11	17	---	---	---	---	PASS	G	50574366	G	G	50574366	3	3	108	1	0	0	0	0	1	0	0	0	4763	1406	49	5	207	5	DRGX	10	50574366	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	42845	50574366	84960381	576	40018										
A1CF	29974	broad.mit.edu	37	chr10	52566514	52566514	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggtgccatatccatcccctCgggcagtcactgcaaaagtt	9	13	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:52566514C>T	uc001jjj.2	-	13	1948	c.1760G>A	c.(1759-1761)CGA>CAA	p.R587Q	A1CF_uc010qhn.1_Missense_Mutation_p.R587Q|A1CF_uc001jji.2_Missense_Mutation_p.R579Q|A1CF_uc001jjh.2_Missense_Mutation_p.R587Q|A1CF_uc010qho.1_Missense_Mutation_p.R595Q|A1CF_uc009xov.2_Missense_Mutation_p.R579Q	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	587					cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						TCCATCCCCTCGGGCAGTCAC	0.418													10	37	---	---	---	---	PASS	T	52566514	T	T	52566514	3	4	108	1	0	0	0	0	1	0	0	0	2	884	31	2	28	2	A1CF	10	52566514	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1992148	52566514	82968233	577	40019										
PCDH15	65217	broad.mit.edu	37	chr10	55587246	55587246	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctggtgcaggagccggcactGctggtttagccgcgggtaat	16	10	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:55587246G>C	uc001jju.1	-	32	4669	c.4274C>G	c.(4273-4275)GCA>GGA	p.A1425G	PCDH15_uc010qhq.1_Missense_Mutation_p.A1430G|PCDH15_uc010qhr.1_Missense_Mutation_p.A1425G|PCDH15_uc010qhs.1_Missense_Mutation_p.A1437G|PCDH15_uc010qht.1_Missense_Mutation_p.A1432G|PCDH15_uc010qhu.1_Missense_Mutation_p.A1425G|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.A1422G|PCDH15_uc010qhw.1_Missense_Mutation_p.A1385G|PCDH15_uc010qhx.1_Missense_Mutation_p.A1354G|PCDH15_uc010qhy.1_Missense_Mutation_p.A1430G|PCDH15_uc010qhz.1_Missense_Mutation_p.A1425G|PCDH15_uc010qia.1_Missense_Mutation_p.A1403G|PCDH15_uc010qib.1_Missense_Mutation_p.A1400G	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1425	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AGCCGGCACTGCTGGTTTAGC	0.418										HNSCC(58;0.16)			3	25	---	---	---	---	PASS	C	55587246	C	C	55587246	3	2	108	1	0	0	0	0	1	0	0	0	11511	1319	46	4	3220	4	PCDH15	10	55587246	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3020732	55587246	79947501	578	40020										
PCDH15	65217	broad.mit.edu	37	chr10	55839174	55839174	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagtgctttccctaaggttaGaatccccgtgctagtgacaa	9	11	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:55839174G>A	uc001jju.1	-	17	2403	c.2008C>T	c.(2008-2010)CTA>TTA	p.L670L	PCDH15_uc010qhq.1_Silent_p.L675L|PCDH15_uc010qhr.1_Silent_p.L670L|PCDH15_uc010qhs.1_Silent_p.L682L|PCDH15_uc010qht.1_Silent_p.L677L|PCDH15_uc010qhu.1_Silent_p.L670L|PCDH15_uc001jjv.1_Silent_p.L648L|PCDH15_uc010qhv.1_Silent_p.L670L|PCDH15_uc010qhw.1_Silent_p.L633L|PCDH15_uc010qhx.1_Silent_p.L599L|PCDH15_uc010qhy.1_Silent_p.L675L|PCDH15_uc010qhz.1_Silent_p.L670L|PCDH15_uc010qia.1_Silent_p.L648L|PCDH15_uc010qib.1_Silent_p.L648L|PCDH15_uc001jjw.2_Silent_p.L670L	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	670	Cadherin 6.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CCTAAGGTTAGAATCCCCGTG	0.423										HNSCC(58;0.16)			25	116	---	---	---	---	PASS	A	55839174	A	A	55839174	2	1	108	1	0	0	0	0	0	0	0	1	11511	933	33	2		2	PCDH15	10	55839174	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	251928	55839174	79695573	579	40021										
PCDH15	65217	broad.mit.edu	37	chr10	55973758	55973758	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggctccaggagactaagttCtgctgtcctaggatgcatat	11	9	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:55973758C>G	uc001jju.1	-	10	1431	c.1036G>C	c.(1036-1038)GAA>CAA	p.E346Q	PCDH15_uc010qhq.1_Missense_Mutation_p.E351Q|PCDH15_uc010qhr.1_Missense_Mutation_p.E346Q|PCDH15_uc010qhs.1_Missense_Mutation_p.E351Q|PCDH15_uc010qht.1_Missense_Mutation_p.E346Q|PCDH15_uc010qhu.1_Missense_Mutation_p.E346Q|PCDH15_uc001jjv.1_Missense_Mutation_p.E324Q|PCDH15_uc010qhv.1_Missense_Mutation_p.E346Q|PCDH15_uc010qhw.1_Missense_Mutation_p.E309Q|PCDH15_uc010qhx.1_Missense_Mutation_p.E346Q|PCDH15_uc010qhy.1_Missense_Mutation_p.E351Q|PCDH15_uc010qhz.1_Missense_Mutation_p.E346Q|PCDH15_uc010qia.1_Missense_Mutation_p.E324Q|PCDH15_uc010qib.1_Missense_Mutation_p.E324Q|PCDH15_uc001jjw.2_Missense_Mutation_p.E346Q	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	346	Cadherin 3.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AGACTAAGTTCTGCTGTCCTA	0.358										HNSCC(58;0.16)			21	68	---	---	---	---	PASS	G	55973758	G	G	55973758	3	3	108	1	0	0	0	0	1	0	0	0	11511	922	32	2	6571	2	PCDH15	10	55973758	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	134584	55973758	79560989	580	40022										
PCDH15	65217	broad.mit.edu	37	chr10	56106233	56106233	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctgtgaatattgtggtaccAactggagtgagctgaaagga	13	6	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:56106233A>G	uc001jju.1	-	6	881	c.486T>C	c.(484-486)GTT>GTC	p.V162V	PCDH15_uc010qhq.1_Silent_p.V167V|PCDH15_uc010qhr.1_Silent_p.V162V|PCDH15_uc010qhs.1_Silent_p.V167V|PCDH15_uc010qht.1_Silent_p.V162V|PCDH15_uc010qhu.1_Silent_p.V162V|PCDH15_uc001jjv.1_Silent_p.V140V|PCDH15_uc010qhv.1_Silent_p.V162V|PCDH15_uc010qhw.1_Silent_p.V162V|PCDH15_uc010qhx.1_Silent_p.V162V|PCDH15_uc010qhy.1_Silent_p.V167V|PCDH15_uc010qhz.1_Silent_p.V162V|PCDH15_uc010qia.1_Silent_p.V140V|PCDH15_uc010qib.1_Silent_p.V140V|PCDH15_uc001jjw.2_Silent_p.V162V	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	162	Extracellular (Potential).|Cadherin 2.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TTGTGGTACCAACTGGAGTGA	0.338										HNSCC(58;0.16)			31	95	---	---	---	---	PASS	G	56106233	G	G	56106233	2	3	108	1	0	0	0	0	0	0	0	1	11511	117	5	5		5	PCDH15	10	56106233	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	132475	56106233	79428514	581	40023										
RTKN2	219790	broad.mit.edu	37	chr10	63983069	63983069	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caaggttagggtagtgtgagCtagcaaattatactttacac	10	6	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:63983069C>A	uc001jlw.2	-	7	806	c.709G>T	c.(709-711)GCT>TCT	p.A237S	RTKN2_uc009xpf.1_Missense_Mutation_p.A18S	NM_145307	NP_660350	Q8IZC4	RTKN2_HUMAN	rhotekin 2	237					signal transduction	intracellular					0	Prostate(12;0.0297)|all_hematologic(501;0.215)					GTAGTGTGAGCTAGCAAATTA	0.284													5	69	---	---	---	---	PASS	A	63983069	A	A	63983069	3	1	108	1	0	0	0	0	1	0	0	0	13723	797	28	3	1144	3	RTKN2	10	63983069	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	7876836	63983069	71551678	582	40024										
JMJD1C	221037	broad.mit.edu	37	chr10	64943277	64943277	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atatttacaacatcagaaacTtcaatatggagatttgttgt	6	5	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:64943277T>C	uc001jmn.2	-	22	7314	c.7014A>G	c.(7012-7014)GAA>GAG	p.E2338E	JMJD1C_uc001jml.2_Silent_p.E2101E|JMJD1C_uc001jmm.2_Silent_p.E2050E|JMJD1C_uc010qiq.1_Silent_p.E2156E|JMJD1C_uc009xpi.2_Silent_p.E2156E|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmo.2_Silent_p.E245E	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	2338	JmjC.	Iron; catalytic (By similarity).			blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					CATCAGAAACTTCAATATGGA	0.279													29	70	---	---	---	---	PASS	C	64943277	C	C	64943277	2	2	108	1	0	0	0	0	0	0	0	1	7950	1606	56	5		5	JMJD1C	10	64943277	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	960208	64943277	70591470	583	40025										
MYPN	84665	broad.mit.edu	37	chr10	69926318	69926318	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtggtgaccaccagacagaCcaggcccgattctttccagg	11	13	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:69926318C>T	uc001jnm.3	+	11	2053	c.1868C>T	c.(1867-1869)ACC>ATC	p.T623I	MYPN_uc001jnl.1_Missense_Mutation_p.T623I|MYPN_uc001jnn.3_Missense_Mutation_p.T348I|MYPN_uc001jno.3_Missense_Mutation_p.T623I|MYPN_uc009xps.2_Missense_Mutation_p.T623I|MYPN_uc009xpt.2_Missense_Mutation_p.T623I|MYPN_uc010qit.1_Missense_Mutation_p.T329I|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	623						nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						ACCAGACAGACCAGGCCCGAT	0.567													6	73	---	---	---	---	PASS	T	69926318	T	T	69926318	3	4	108	1	0	0	0	0	1	0	0	0	10098	507	18	3	1902	3	MYPN	10	69926318	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4983041	69926318	65608429	584	40026										
MYPN	84665	broad.mit.edu	37	chr10	69961673	69961673	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccccgtgagactggagtgccGcgtgataggcatgcccccac	13	15	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:69961673G>A	uc001jnm.3	+	19	3766	c.3581G>A	c.(3580-3582)CGC>CAC	p.R1194H	MYPN_uc001jnn.3_Missense_Mutation_p.R919H|MYPN_uc001jno.3_Missense_Mutation_p.R1194H|MYPN_uc009xpt.2_Missense_Mutation_p.R1194H|MYPN_uc010qit.1_Missense_Mutation_p.R900H|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	1194	Interaction with ACTN.|Ig-like 5.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						CTGGAGTGCCGCGTGATAGGC	0.547													14	126	---	---	---	---	PASS	A	69961673	A	A	69961673	3	1	108	1	0	0	0	0	1	0	0	0	10098	1087	38	1	3647	1	MYPN	10	69961673	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	35355	69961673	65573074	585	40027										
DDX21	9188	broad.mit.edu	37	chr10	70719870	70719870	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gatgctcctaagcccaagaaGatgaagaaagaaaaggaaat	10	6	0	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:70719870G>A	uc001jov.1	+	2	486	c.396G>A	c.(394-396)AAG>AAA	p.K132K	DDX21_uc001jow.1_Silent_p.K64K	NM_004728	NP_004719	Q9NR30	DDX21_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 21	132						nucleolus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)	3						AGCCCAAGAAGATGAAGAAAG	0.408													16	57	---	---	---	---	PASS	A	70719870	A	A	70719870	2	1	108	1	0	0	0	0	0	0	0	1	4349	933	33	2		2	DDX21	10	70719870	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	758197	70719870	64814877	586	40028										
SRGN	5552	broad.mit.edu	37	chr10	70863695	70863695	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctactctggatcaggcttcgGctccggctccggctctggat	12	14	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:70863695G>T	uc001joz.2	+	3	382	c.296G>T	c.(295-297)GGC>GTC	p.G99V		NM_002727	NP_002718	P10124	SRGN_HUMAN	serglycin precursor	99	3.|9 X 2 AA tandem repeats of [SF]-G.				apoptosis|biomineral tissue development|maintenance of granzyme B location in T cell secretory granule|maintenance of protease location in mast cell secretory granule|negative regulation of bone mineralization|negative regulation of cytokine secretion|platelet activation|platelet degranulation|protein maturation by peptide bond cleavage	extracellular space|mast cell granule|platelet alpha granule lumen					0						TCAGGCTTCGGCTCCGGCTCC	0.468													7	49	---	---	---	---	PASS	T	70863695	T	T	70863695	3	4	108	1	0	0	0	0	1	0	0	0	15147	1203	42	3	306	3	SRGN	10	70863695	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	143825	70863695	64671052	587	40029										
TYSND1	219743	broad.mit.edu	37	chr10	71899758	71899758	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	actggctcagcagcgcggtcCagctcacggaggccacctag	13	15	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:71899758C>G	uc001jqr.2	-	4	1777	c.1623G>C	c.(1621-1623)CTG>CTC	p.L541L	TYSND1_uc001jqq.2_RNA|TYSND1_uc001jqs.2_3'UTR|TYSND1_uc001jqt.2_RNA	NM_173555	NP_775826	Q2T9J0	TYSD1_HUMAN	trypsin domain containing 1 isoform a	541					proteolysis	peroxisome	serine-type endopeptidase activity			large_intestine(1)	1						CAGCGCGGTCCAGCTCACGGA	0.652													9	59	---	---	---	---	PASS	G	71899758	G	G	71899758	2	3	108	1	0	0	0	0	0	0	0	1	16814	581	21	4		4	TYSND1	10	71899758	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1036063	71899758	63634989	588	40030										
SAR1A	56681	broad.mit.edu	37	chr10	71917543	71917543	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagctcaactttggattccaCgaggcgagaatgatctgcac	10	10	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:71917543C>A	uc010qjh.1	-	6	528	c.325G>T	c.(325-327)GTG>TTG	p.V109L	SAR1A_uc010qji.1_Missense_Mutation_p.V109L|SAR1A_uc010qjj.1_Missense_Mutation_p.V66L	NM_001142648	NP_001136120	Q9NR31	SAR1A_HUMAN	SAR1a gene homolog 1	109					ER to Golgi vesicle-mediated transport|intracellular protein transport	Golgi apparatus	GTP binding|GTPase activity				0						TTGGATTCCACGAGGCGAGAA	0.338													29	48	---	---	---	---	PASS	A	71917543	A	A	71917543	3	1	108	1	0	0	0	0	1	0	0	0	13839	536	19	1	283	1	SAR1A	10	71917543	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	17785	71917543	63617204	589	40031										
ADAMTS14	140766	broad.mit.edu	37	chr10	72503416	72503416	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	taccgggacccatacagcgtCtgtgcgcgtggcgagtgtgt	15	11	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:72503416C>G	uc001jrh.2	+	13	2037	c.2037C>G	c.(2035-2037)GTC>GTG	p.V679V	ADAMTS14_uc001jrg.2_Silent_p.V682V|ADAMTS14_uc001jri.1_Silent_p.V202V	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	679	Cys-rich.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						CATACAGCGTCTGTGCGCGTG	0.657													8	15	---	---	---	---	PASS	G	72503416	G	G	72503416	2	3	108	1	0	0	0	0	0	0	0	1	259	900	32	2		2	ADAMTS14	10	72503416	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	585873	72503416	63031331	590	40032										
UNC5B	219699	broad.mit.edu	37	chr10	73046577	73046577	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aactatacctgcgtggccaaGaacatcgtggccaaacgccg	10	13	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:73046577G>C	uc001jro.2	+	5	1129	c.684G>C	c.(682-684)AAG>AAC	p.K228N	UNC5B_uc001jrp.2_Missense_Mutation_p.K228N	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	228	Ig-like C2-type.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						GCGTGGCCAAGAACATCGTGG	0.637													42	139	---	---	---	---	PASS	C	73046577	C	C	73046577	3	2	108	1	0	0	0	0	1	0	0	0	16989	933	33	2	702	2	UNC5B	10	73046577	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	543161	73046577	62488170	591	40033										
CDH23	64072	broad.mit.edu	37	chr10	73501524	73501524	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgggatcaacagtgttctgtCctactacatcaccgagggca	10	12	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:73501524C>G	uc001jrx.3	+	36	5068	c.4691C>G	c.(4690-4692)TCC>TGC	p.S1564C	CDH23_uc001jsc.1_Missense_Mutation_p.S371C	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1564	Cadherin 15.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						AGTGTTCTGTCCTACTACATC	0.617													11	27	---	---	---	---	PASS	G	73501524	G	G	73501524	3	3	108	1	0	0	0	0	1	0	0	0	3108	855	30	2	5182	2	CDH23	10	73501524	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	454947	73501524	62033223	592	40034										
TTC18	118491	broad.mit.edu	37	chr10	75013743	75013743	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggaggggtatcagaaagatGgatttccaaagccaactgtt	12	6	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:75013743G>A	uc009xrc.2	-	28	3477	c.3356C>T	c.(3355-3357)CCA>CTA	p.P1119L	TTC18_uc001jty.2_Missense_Mutation_p.P1119L|MRPS16_uc010qkh.1_5'Flank|MRPS16_uc001jts.1_5'Flank|MRPS16_uc001jtt.1_5'Flank|uc001jtu.1_RNA|TTC18_uc001jtv.3_Missense_Mutation_p.P223L|TTC18_uc001jtw.3_Missense_Mutation_p.P193L|TTC18_uc001jtx.2_Missense_Mutation_p.P470L	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18	1119							binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					TCAGAAAGATGGATTTCCAAA	0.448													7	96	---	---	---	---	PASS	A	75013743	A	A	75013743	3	1	108	1	0	0	0	0	1	0	0	0	16682	1348	47	3	13	3	TTC18	10	75013743	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1512219	75013743	60521004	593	40035										
KIAA0913	23053	broad.mit.edu	37	chr10	75550015	75550015	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gacaacatcaaaaagacactGcacaagttctgtggcccctc	7	13	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:75550015G>T	uc009xrl.2	+	7	938	c.906G>T	c.(904-906)CTG>CTT	p.L302L	KIAA0913_uc001jve.2_Silent_p.L302L|KIAA0913_uc001jvf.2_Silent_p.L302L|KIAA0913_uc001jvh.2_5'Flank|KIAA0913_uc001jvi.2_5'Flank|KIAA0913_uc010qkr.1_5'Flank|KIAA0913_uc001jvj.2_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	302							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					AAAAGACACTGCACAAGTTCT	0.552													10	182	---	---	---	---	PASS	T	75550015	T	T	75550015	2	4	108	1	0	0	0	0	0	0	0	1	8200	1306	46	3		3	KIAA0913	10	75550015	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	536272	75550015	59984732	594	40036										
POLR3A	11128	broad.mit.edu	37	chr10	79777381	79777381	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcgagggctgccgattgaaCagcaccacatctccatcgat	10	13	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:79777381C>A	uc001jzn.2	-	10	1477	c.1383G>T	c.(1381-1383)CTG>CTT	p.L461L		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	461					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			GCCGATTGAACAGCACCACAT	0.438													14	105	---	---	---	---	PASS	A	79777381	A	A	79777381	2	1	108	1	0	0	0	0	0	0	0	1	12228	465	17	3		3	POLR3A	10	79777381	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	4227366	79777381	55757366	595	40037										
SFTPA1	653509	broad.mit.edu	37	chr10	81373497	81373497	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	actcctctgctctcagccctCagtctgcagggctccataat	7	16	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:81373497C>T	uc001kap.2	+	6	496	c.375C>T	c.(373-375)CTC>CTT	p.L125L	SFTPA1_uc001kaq.2_Silent_p.L125L|SFTPA1_uc009xry.2_Silent_p.L140L|SFTPA1_uc001kar.2_Silent_p.L125L|SFTPA1_uc010qlt.1_Silent_p.L66L|SFTPA1_uc009xrz.2_Silent_p.L55L|SFTPA1_uc009xsa.2_Silent_p.L125L|SFTPA1_uc009xsf.2_5'Flank	NM_005411	NP_005402	Q8IWL2	SFTA1_HUMAN	surfactant protein A1 isoform 1	125					cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	lipid transporter activity|sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			TCTCAGCCCTCAGTCTGCAGG	0.562													65	173	---	---	---	---	PASS	T	81373497	T	T	81373497	2	4	108	1	0	0	0	0	0	0	0	1	14189	813	29	2		2	SFTPA1	10	81373497	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1596116	81373497	54161250	596	40038										
CDHR1	92211	broad.mit.edu	37	chr10	85968559	85968559	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtggttccacagacagtcctGaatgaagcccaagtcacaat	9	11	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:85968559G>C	uc001kcv.2	+	12	1242	c.1242G>C	c.(1240-1242)CTG>CTC	p.L414L	CDHR1_uc001kcw.2_Silent_p.L414L|CDHR1_uc009xst.2_Silent_p.L173L	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	414	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						AGACAGTCCTGAATGAAGCCC	0.478													7	29	---	---	---	---	PASS	C	85968559	C	C	85968559	2	2	108	1	0	0	0	0	0	0	0	1	3118	1277	45	2		2	CDHR1	10	85968559	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	4595062	85968559	49566188	597	40039										
GPR120	338557	broad.mit.edu	37	chr10	95347066	95347066	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcccagcaggacttccggctCttccgcaccctcttcctcct	6	20	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:95347066C>G	uc010qnt.1	+	4	890	c.834C>G	c.(832-834)CTC>CTG	p.L278L	GPR120_uc010qnu.1_Silent_p.L262L	NM_181745	NP_859529	Q5NUL3	O3FA1_HUMAN	G protein-coupled receptor 120	278	Cytoplasmic (Potential).				negative regulation of cytokine secretion|negative regulation of inflammatory response|regulation of glucose transport	integral to membrane|plasma membrane	fatty acid binding				0		Colorectal(252;0.122)				ACTTCCGGCTCTTCCGCACCC	0.552													26	35	---	---	---	---	PASS	G	95347066	G	G	95347066	2	3	108	1	0	0	0	0	0	0	0	1	6636	900	32	2		2	GPR120	10	95347066	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	9378507	95347066	40187681	598	40040										
ARHGAP19	84986	broad.mit.edu	37	chr10	99003889	99003889	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagctgaaaggacttagtatGacatgaagctatgaggtcaa	11	6	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:99003889G>A	uc001knb.2	-	8	1050	c.1021C>T	c.(1021-1023)CAT>TAT	p.H341Y	ARHGAP19_uc001kmy.2_RNA|ARHGAP19_uc001kna.2_Missense_Mutation_p.H332Y|ARHGAP19_uc009xvi.2_RNA|ARHGAP19_uc009xvj.2_Missense_Mutation_p.H312Y|ARHGAP19_uc009xvk.2_Missense_Mutation_p.H135Y	NM_032900	NP_116289	Q14CB8	RHG19_HUMAN	Rho GTPase activating protein 19	341					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	GTPase activator activity				0		Colorectal(252;0.0854)		Epithelial(162;7.65e-09)|all cancers(201;4.49e-07)		GACTTAGTATGACATGAAGCT	0.443													10	34	---	---	---	---	PASS	A	99003889	A	A	99003889	3	1	108	1	0	0	0	0	1	0	0	0	869	1290	45	2	483	2	ARHGAP19	10	99003889	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3656823	99003889	36530858	599	40041										
DNMBP	23268	broad.mit.edu	37	chr10	101656026	101656026	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccaggatggggatctcacctGaggagcaaagccagtgagat	14	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:101656026G>A	uc001kqj.2	-	10	3141	c.3049C>T	c.(3049-3051)CAG>TAG	p.Q1017*	DNMBP_uc010qpl.1_Intron|DNMBP_uc001kqg.2_Nonsense_Mutation_p.Q305*|DNMBP_uc001kqh.2_Nonsense_Mutation_p.Q649*	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	1017	BAR.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		GATCTCACCTGAGGAGCAAAG	0.502													10	9	---	---	---	---	PASS	A	101656026	A	A	101656026	4	1	108	1	0	0	0	0	0	1	0	0	4674	1299	45	2	1716	2	DNMBP	10	101656026	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2652137	101656026	33878721	600	40042										
TDRD1	56165	broad.mit.edu	37	chr10	115986958	115986958	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtccatacagtgtcagttgaGaaatgttctgagaatgggac	12	6	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:115986958G>T	uc001lbg.1	+	23	3456	c.3303G>T	c.(3301-3303)GAG>GAT	p.E1101D	TDRD1_uc001lbf.2_Missense_Mutation_p.E978D|TDRD1_uc001lbh.1_Missense_Mutation_p.E1088D|TDRD1_uc001lbi.1_Missense_Mutation_p.E1092D|TDRD1_uc010qsc.1_Intron|TDRD1_uc001lbj.2_Missense_Mutation_p.E810D	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	1101					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		TGTCAGTTGAGAAATGTTCTG	0.348													12	31	---	---	---	---	PASS	T	115986958	T	T	115986958	3	4	108	1	0	0	0	0	1	0	0	0	15727	933	33	2	3389	2	TDRD1	10	115986958	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	14330932	115986958	19547789	601	40043										
ATRNL1	26033	broad.mit.edu	37	chr10	116919865	116919865	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attctgccaaacgttaaaccCttcagtccttctgtaggtcg	7	12	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:116919865C>A	uc001lcg.2	+	6	1280	c.894C>A	c.(892-894)CCC>CCA	p.P298P	ATRNL1_uc001lce.2_RNA|ATRNL1_uc001lcf.2_Silent_p.P298P|ATRNL1_uc009xyq.2_Silent_p.P298P	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	298	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)		ACGTTAAACCCTTCAGTCCTT	0.363													20	58	---	---	---	---	PASS	A	116919865	A	A	116919865	2	1	108	1	0	0	0	0	0	0	0	1	1207	668	24	3		3	ATRNL1	10	116919865	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	932907	116919865	18614882	602	40044										
C10orf96	374355	broad.mit.edu	37	chr10	118101703	118101703	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttagaaaaccaagcaaacatGttgaaaagtggtatgaataa	8	4	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:118101703G>C	uc001lck.2	+	5	689	c.438G>C	c.(436-438)ATG>ATC	p.M146I		NM_198515	NP_940917	P0C7W6	CJ096_HUMAN	hypothetical protein LOC374355	146	Potential.									ovary(2)	2		Lung NSC(174;0.204)|all_lung(145;0.248)		all cancers(201;0.014)		AAGCAAACATGTTGAAAAGTG	0.254													6	29	---	---	---	---	PASS	C	118101703	C	C	118101703	3	2	108	1	0	0	0	0	1	0	0	0	1627	1377	48	4	452	4	C10orf96	10	118101703	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1181838	118101703	17433044	603	40045										
PNLIPRP3	119548	broad.mit.edu	37	chr10	118220751	118220751	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggaagcacatgccaggatgtGaagacttaattacaccttta	9	8	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:118220751G>A	uc001lcl.3	+	7	858	c.757G>A	c.(757-759)GAA>AAA	p.E253K		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	253					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		GCCAGGATGTGAAGACTTAAT	0.353													31	14	---	---	---	---	PASS	A	118220751	A	A	118220751	3	1	108	1	0	0	0	0	1	0	0	0	12152	1291	45	2	783	2	PNLIPRP3	10	118220751	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	119048	118220751	17313996	604	40046										
PPAPDC1A	196051	broad.mit.edu	37	chr10	122273500	122273500	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acagacaagactgaaattaaGgaagccttcttaggtagagt	10	6	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:122273500G>T	uc001lev.1	+	3	595	c.243G>T	c.(241-243)AAG>AAT	p.K81N	PPAPDC1A_uc010qtd.1_Missense_Mutation_p.K81N|PPAPDC1A_uc009xzl.1_Missense_Mutation_p.K81N|PPAPDC1A_uc001lew.1_Intron|PPAPDC1A_uc001lex.1_Intron|PPAPDC1A_uc001ley.1_Translation_Start_Site	NM_001030059	NP_001025230	Q5VZY2	PPC1A_HUMAN	phosphatidic acid phosphatase type 2 domain	81					phospholipid dephosphorylation	integral to membrane	phosphatidate phosphatase activity			breast(1)	1		Lung NSC(174;0.1)|all_lung(145;0.132)		all cancers(201;0.0117)		CTGAAATTAAGGAAGCCTTCT	0.408													30	44	---	---	---	---	PASS	T	122273500	T	T	122273500	3	4	108	1	0	0	0	0	1	0	0	0	12293	991	35	3	253	3	PPAPDC1A	10	122273500	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4052749	122273500	13261247	605	40047										
TACC2	10579	broad.mit.edu	37	chr10	123846008	123846008	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccatgccatgcctggaccgGatgccacttctggccaaggg	12	14	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:123846008G>A	uc001lfv.2	+	4	4353	c.3993G>A	c.(3991-3993)CGG>CGA	p.R1331R	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Silent_p.R1331R|TACC2_uc010qtv.1_Silent_p.R1331R	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1331						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				GCCTGGACCGGATGCCACTTC	0.617													6	31	---	---	---	---	PASS	A	123846008	A	A	123846008	2	1	108	1	0	0	0	0	0	0	0	1	15499	1161	41	2		2	TACC2	10	123846008	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1572508	123846008	11688739	606	40048										
GPR26	2849	broad.mit.edu	37	chr10	125447671	125447671	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agaacattctgccggtgtctGagtgaaggaccgcgctcctg	13	11	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:125447671G>C	uc001lhh.2	+	3	1062	c.1009G>C	c.(1009-1011)GAG>CAG	p.E337Q		NM_153442	NP_703143	Q8NDV2	GPR26_HUMAN	G protein-coupled receptor 26	337	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1		Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)				GCCGGTGTCTGAGTGAAGGAC	0.607													12	8	---	---	---	---	PASS	C	125447671	C	C	125447671	3	2	108	1	0	0	0	0	1	0	0	0	6684	1291	45	2	1019	2	GPR26	10	125447671	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1601663	125447671	10087076	607	40049										
C10orf90	118611	broad.mit.edu	37	chr10	128150051	128150051	+	Silent	SNP	G	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggctccctgctccatcgcgGggtgctggcgagggtgctgc							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:128150051G>T	uc001ljq.2	-	5	1759	c.1638C>A	c.(1636-1638)CCC>CCA	p.P546P	C10orf90_uc001ljp.2_Silent_p.P402P|C10orf90_uc010qum.1_Silent_p.P643P|C10orf90_uc001ljo.2_RNA	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	546										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		CTCCATCGCGGGGTGCTGGCG	0.542													13	11	---	---	---	---	PASS	T	128150051	T	T	128150051	2	4	108	1	0	0	0	0	0	0	0	1	1623	1219	43	3		3	C10orf90	10	128150051	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2702380	128150051	7384696	608	40050	749	2								
C10orf90	118611	broad.mit.edu	37	chr10	128150052	128150052	+	Missense_Mutation	SNP	G	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggctccctgctccatcgcggGgtgctggcgagggtgctgct							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:128150052G>T	uc001ljq.2	-	5	1758	c.1637C>A	c.(1636-1638)CCC>CAC	p.P546H	C10orf90_uc001ljp.2_Missense_Mutation_p.P402H|C10orf90_uc010qum.1_Missense_Mutation_p.P643H|C10orf90_uc001ljo.2_RNA	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	546										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		TCCATCGCGGGGTGCTGGCGA	0.542													13	11	---	---	---	---	PASS	T	128150052	T	T	128150052	3	4	108	1	0	0	0	0	1	0	0	0	1623	1232	43	3	482	3	C10orf90	10	128150052	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1	128150052	7384695	609	40051	749	2								
DOCK1	1793	broad.mit.edu	37	chr10	129201358	129201358	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccttgggcaaggagctagccGagcagtatgagaacgaaatg	14	8	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr10:129201358G>A	uc001ljt.2	+	39	3968	c.3904G>A	c.(3904-3906)GAG>AAG	p.E1302K	DOCK1_uc010qun.1_Missense_Mutation_p.E1323K|DOCK1_uc009yaq.2_Missense_Mutation_p.E297K	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	1302	DHR-2.				apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		GGAGCTAGCCGAGCAGTATGA	0.423													5	12	---	---	---	---	PASS	A	129201358	A	A	129201358	3	1	108	1	0	0	0	0	1	0	0	0	4684	1059	37	2	4058	2	DOCK1	10	129201358	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1051306	129201358	6333389	610	40052										
MUC5B	727897	broad.mit.edu	37	chr11	1261425	1261425	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagcctgcacctgcacctatGaggacaggacctacagctac	9	15	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:1261425G>A	uc009ycr.1	+	46	5995	c.5869G>A	c.(5869-5871)GAG>AAG	p.E1957K	MUC5B_uc001ltb.2_Missense_Mutation_p.E1267K|MUC5B_uc001lta.2_Missense_Mutation_p.E932K	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1264					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTGCACCTATGAGGACAGGAC	0.647													10	13	---	---	---	---	PASS	A	1261425	A	A	1261425	3	1	108	1	0	0	0	0	1	0	0	0	9979	1291	45	2	3917	2	MUC5B	11	1261425	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08		1261425	133745091	611	40053										
KCNQ1	3784	broad.mit.edu	37	chr11	2604670	2604670	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccctctccctgcaggtcacAgtcaccaccatcggctatgg	8	17	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:2604670A>T	uc001lwn.2	+	7	1035	c.927A>T	c.(925-927)ACA>ACT	p.T309T	KCNQ1_uc009ydp.1_Silent_p.T93T|KCNQ1_uc001lwo.2_Silent_p.T182T	NM_000218	NP_000209	P51787	KCNQ1_HUMAN	potassium voltage-gated channel, KQT-like	309			T -> R (in LQT1).		blood circulation|membrane depolarization|muscle contraction|sensory perception of sound		delayed rectifier potassium channel activity|protein binding			ovary(1)	1		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)	TGCAGGTCACAGTCACCACCA	0.612													5	27	---	---	---	---	PASS	T	2604670	T	T	2604670	2	4	108	1	0	0	0	0	0	0	0	1	8082	175	7	5		5	KCNQ1	11	2604670	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	1343245	2604670	132401846	612	40054										
OR52I2	143502	broad.mit.edu	37	chr11	4608328	4608328	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtattgctttctgtgtgttCtggctgctgtggacattgtt	12	6	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:4608328C>T	uc010qyh.1	+	1	286	c.286C>T	c.(286-288)CTG>TTG	p.L96L		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	96	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCTGTGTGTTCTGGCTGCTGT	0.493													19	125	---	---	---	---	PASS	T	4608328	T	T	4608328	2	4	108	1	0	0	0	0	0	0	0	1	11121	912	32	2		2	OR52I2	11	4608328	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	2003658	4608328	130398188	613	40055										
OR51S1	119692	broad.mit.edu	37	chr11	4869826	4869826	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagaaccacaaataggctgtAggctgcaccccaagcttctg	9	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:4869826A>G	uc010qyo.1	-	1	613	c.613T>C	c.(613-615)TAC>CAC	p.Y205H		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	205	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		AATAGGCTGTAGGCTGCACCC	0.537													17	38	---	---	---	---	PASS	G	4869826	G	G	4869826	3	3	108	1	0	0	0	0	1	0	0	0	11105	420	15	5	361	5	OR51S1	11	4869826	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	261498	4869826	130136690	614	40056										
OR51S1	119692	broad.mit.edu	37	chr11	4869963	4869963	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcagatggagacccaggcatCgaaaagaaatggccaggctg	14	9	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:4869963C>T	uc010qyo.1	-	1	476	c.476G>A	c.(475-477)CGA>CAA	p.R159Q		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACCCAGGCATCGAAAAGAAAT	0.542													9	50	---	---	---	---	PASS	T	4869963	T	T	4869963	3	4	108	1	0	0	0	0	1	0	0	0	11105	884	31	2	498	2	OR51S1	11	4869963	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	137	4869963	130136553	615	40057										
HBB	3043	broad.mit.edu	37	chr11	5246869	5246869	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggcattagccacaccagccaCcactttctgataggcagcct	8	15	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:5246869C>A	uc001mae.1	-	3	453	c.403G>T	c.(403-405)GTG>TTG	p.V135L		NM_000518	NP_000509	P68871	HBB_HUMAN	beta globin	135			V -> E (in North Shore-Caracas; unstable).		blood coagulation|hydrogen peroxide catabolic process|nitric oxide transport|positive regulation of cell death|positive regulation of nitric oxide biosynthetic process|protein heterooligomerization|regulation of blood pressure|regulation of blood vessel size	haptoglobin-hemoglobin complex|hemoglobin complex	heme binding|hemoglobin binding|oxygen binding|oxygen transporter activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)	Iron Dextran(DB00893)	ACACCAGCCACCACTTTCTGA	0.517									Sickle_Cell_Trait				9	24	---	---	---	---	PASS	A	5246869	A	A	5246869	3	1	108	1	0	0	0	0	1	0	0	0	6978	507	18	3	44	3	HBB	11	5246869	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	376906	5246869	129759647	616	40058										
UBQLN3	50613	broad.mit.edu	37	chr11	5529375	5529375	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggcagccagggaggctcagGgattccaggaatggctgccg	17	10	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:5529375G>T	uc001may.1	-	2	1500	c.1414C>A	c.(1414-1416)CCT>ACT	p.P472T	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	472										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGAGGCTCAGGGATTCCAGGA	0.542													11	27	---	---	---	---	PASS	T	5529375	T	T	5529375	3	4	108	1	0	0	0	0	1	0	0	0	16895	1232	43	3	557	3	UBQLN3	11	5529375	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	282506	5529375	129477141	617	40059										
OR2D3	120775	broad.mit.edu	37	chr11	6942862	6942862	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcttccatagacacttacagCacagaaatggccatcttttc	6	12	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:6942862C>A	uc010rav.1	+	1	630	c.630C>A	c.(628-630)AGC>AGA	p.S210R		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	210	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		ACACTTACAGCACAGAAATGG	0.453													11	15	---	---	---	---	PASS	A	6942862	A	A	6942862	3	1	108	1	0	0	0	0	1	0	0	0	10995	709	25	3	632	3	OR2D3	11	6942862	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1413487	6942862	128063654	618	40060										
ZNF215	7762	broad.mit.edu	37	chr11	6977732	6977732	+	Missense_Mutation	SNP	T	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agttcaaaccttgttaaacaTcaaaaactgcatactcgaga							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:6977732T>A	uc001mey.2	+	7	2112	c.1524T>A	c.(1522-1524)CAT>CAA	p.H508Q	ZNF215_uc010raw.1_3'UTR|ZNF215_uc010rax.1_Missense_Mutation_p.H270Q|ZNF215_uc001mez.1_Intron	NM_013250	NP_037382	Q9UL58	ZN215_HUMAN	zinc finger protein 215	508	C2H2-type 4.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;6.33e-08)|BRCA - Breast invasive adenocarcinoma(625;0.134)		TTGTTAAACATCAAAAACTGC	0.358													13	29	---	---	---	---	PASS	A	6977732	A	A	6977732	3	1	108	1	0	0	0	0	1	0	0	0	17768	1432	50	5	1542	5	ZNF215	11	6977732	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	34870	6977732	128028784	619	40061	750	2								
ZNF215	7762	broad.mit.edu	37	chr11	6977739	6977739	+	Missense_Mutation	SNP	C	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	accttgttaaacatcaaaaaCtgcatactcgagataagtcc							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:6977739C>A	uc001mey.2	+	7	2119	c.1531C>A	c.(1531-1533)CTG>ATG	p.L511M	ZNF215_uc010raw.1_3'UTR|ZNF215_uc010rax.1_Missense_Mutation_p.L273M|ZNF215_uc001mez.1_Intron	NM_013250	NP_037382	Q9UL58	ZN215_HUMAN	zinc finger protein 215	511	C2H2-type 4.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;6.33e-08)|BRCA - Breast invasive adenocarcinoma(625;0.134)		ACATCAAAAACTGCATACTCG	0.338													15	25	---	---	---	---	PASS	A	6977739	A	A	6977739	3	1	108	1	0	0	0	0	1	0	0	0	17768	564	20	3	1549	3	ZNF215	11	6977739	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	7	6977739	128028777	620	40062	750	2								
NLRP14	338323	broad.mit.edu	37	chr11	7059931	7059931	+	Missense_Mutation	SNP	G	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttattcctaaaggagaccatGgaacctgagcatggcctgac							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:7059931G>T	uc001mfb.1	+	2	437	c.114G>T	c.(112-114)ATG>ATT	p.M38I		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	38	DAPIN.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		AGGAGACCATGGAACCTGAGC	0.433													9	45	---	---	---	---	PASS	T	7059931	T	T	7059931	3	4	108	1	0	0	0	0	1	0	0	0	10476	1348	47	3	116	3	NLRP14	11	7059931	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	82192	7059931	127946585	621	40063	751	2								
NLRP14	338323	broad.mit.edu	37	chr11	7059932	7059932	+	Nonsense_Mutation	SNP	G	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tattcctaaaggagaccatgGaacctgagcatggcctgaca							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:7059932G>T	uc001mfb.1	+	2	438	c.115G>T	c.(115-117)GAA>TAA	p.E39*		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	39	DAPIN.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		GGAGACCATGGAACCTGAGCA	0.433													9	46	---	---	---	---	PASS	T	7059932	T	T	7059932	4	4	108	1	0	0	0	0	0	1	0	0	10476	1175	41	2	117	2	NLRP14	11	7059932	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1	7059932	127946584	622	40064	751	2								
OR5P2	120065	broad.mit.edu	37	chr11	7817698	7817698	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gacaccaccttgttctggtcAgttgagtagctaaaattggg	11	8	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:7817698A>T	uc001mfp.1	-	1	792	c.792T>A	c.(790-792)ACT>ACA	p.T264T		NM_153444	NP_703145	Q8WZ92	OR5P2_HUMAN	olfactory receptor, family 5, subfamily P,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TGTTCTGGTCAGTTGAGTAGC	0.488													9	55	---	---	---	---	PASS	T	7817698	T	T	7817698	2	4	108	1	0	0	0	0	0	0	0	1	11178	175	7	5		5	OR5P2	11	7817698	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	757766	7817698	127188818	623	40065										
ST5	6764	broad.mit.edu	37	chr11	8737282	8737282	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgtcgtcatggctgtgcctCttgggtaatcgtggcagccg	14	10	2	0	rs139182184		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:8737282C>A	uc001mgt.2	-	6	1899	c.1713G>T	c.(1711-1713)AAG>AAT	p.K571N	ST5_uc009yfr.2_Missense_Mutation_p.K151N|ST5_uc001mgu.2_Missense_Mutation_p.K151N|ST5_uc001mgv.2_Missense_Mutation_p.K571N|ST5_uc010rbq.1_RNA|ST5_uc010rbp.1_Missense_Mutation_p.K84N	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	571					positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		GGCTGTGCCTCTTGGGTAATC	0.617													7	25	---	---	---	---	PASS	A	8737282	A	A	8737282	3	1	108	1	0	0	0	0	1	0	0	0	15219	912	32	2	1760	2	ST5	11	8737282	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	919584	8737282	126269234	624	40066										
SBF2	81846	broad.mit.edu	37	chr11	9861114	9861114	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgggtcttgaacgggaagagCtgccacttatggttcctaaa	12	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:9861114C>A	uc001mib.2	-	26	3524	c.3386G>T	c.(3385-3387)AGC>ATC	p.S1129I	SBF2_uc001mif.3_Missense_Mutation_p.S885I|uc001mig.2_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1129	Myotubularin phosphatase.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		ACGGGAAGAGCTGCCACTTAT	0.473													26	61	---	---	---	---	PASS	A	9861114	A	A	9861114	3	1	108	1	0	0	0	0	1	0	0	0	13859	797	28	3	2223	3	SBF2	11	9861114	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1123832	9861114	125145402	625	40067										
MRGPRX3	117195	broad.mit.edu	37	chr11	18158752	18158752	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agactggggtttctgagcatGgattcaaccatcccagtctt	10	10	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:18158752G>C	uc001mnu.2	+	3	364	c.3G>C	c.(1-3)ATG>ATC	p.M1I		NM_054031	NP_473372	Q96LB0	MRGX3_HUMAN	MAS-related GPR, member X3	1	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						TTCTGAGCATGGATTCAACCA	0.428													45	64	---	---	---	---	PASS	C	18158752	C	C	18158752	3	2	108	1	0	0	0	0	1	0	0	0	9768	1348	47	4	5	4	MRGPRX3	11	18158752	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	8297638	18158752	116847764	626	40068										
BDNF	627	broad.mit.edu	37	chr11	27680064	27680064	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctttcatgggggcagccttCatgcaaccaaagtatgaaat	9	9	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:27680064C>T	uc010rdu.1	-	2	899	c.48G>A	c.(46-48)ATG>ATA	p.M16I	BDNFOS_uc001mrm.2_Intron|BDNFOS_uc009yij.2_RNA|BDNFOS_uc009yik.2_Intron|BDNFOS_uc009yil.2_RNA|BDNFOS_uc001mrp.2_Intron|BDNFOS_uc009yim.2_RNA|BDNFOS_uc009yin.2_Intron|BDNFOS_uc009yio.2_RNA|BDNFOS_uc009yip.2_RNA|BDNFOS_uc001mrn.2_Intron|BDNFOS_uc009yiq.2_RNA|BDNFOS_uc001mro.2_Intron|BDNFOS_uc009yir.2_RNA|BDNFOS_uc009yis.2_Intron|BDNFOS_uc009yit.2_Intron|BDNFOS_uc009yiu.2_RNA|BDNFOS_uc009yiv.2_Intron|BDNFOS_uc009yiw.2_RNA|BDNFOS_uc009yix.2_Intron|BDNFOS_uc009yiy.2_RNA|BDNFOS_uc009yiz.2_RNA|BDNFOS_uc001mrq.3_Intron|BDNFOS_uc001mrr.3_Intron|BDNFOS_uc009yja.2_Intron|BDNFOS_uc009yjb.2_RNA|BDNF_uc010rdv.1_Missense_Mutation_p.M16I|BDNF_uc001mrt.2_Missense_Mutation_p.M31I|BDNF_uc010rdw.1_Missense_Mutation_p.M16I|BDNF_uc009yjd.2_Missense_Mutation_p.M16I|BDNF_uc001mru.2_Missense_Mutation_p.M16I|BDNF_uc010rdx.1_Missense_Mutation_p.M16I|BDNF_uc010rdy.1_Missense_Mutation_p.M16I|BDNF_uc009yjg.2_Missense_Mutation_p.M16I|BDNF_uc009yje.2_Missense_Mutation_p.M98I|BDNF_uc009yjf.2_Missense_Mutation_p.M45I|BDNF_uc001mrv.2_Missense_Mutation_p.M16I|BDNF_uc001mrw.3_Missense_Mutation_p.M16I|BDNF_uc001mrx.2_Missense_Mutation_p.M16I|BDNF_uc001mry.3_Missense_Mutation_p.M16I|BDNF_uc001mrz.3_Missense_Mutation_p.M16I|BDNF_uc001msa.2_Missense_Mutation_p.M24I	NM_001143816	NP_001137288	P23560	BDNF_HUMAN	brain-derived neurotrophic factor isoform a	16						extracellular region	growth factor activity				0						GGGCAGCCTTCATGCAACCAA	0.502													31	88	---	---	---	---	PASS	T	27680064	T	T	27680064	3	4	108	1	0	0	0	0	1	0	0	0	1394	826	29	2	699	2	BDNF	11	27680064	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	9521312	27680064	107326452	627	40069										
KCNA4	3739	broad.mit.edu	37	chr11	30032317	30032317	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acagttgtttttatctgtctCactgtcatccccctttccct	4	14	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:30032317C>T	uc001msk.2	-	2	3061	c.1909G>A	c.(1909-1911)GAG>AAG	p.E637K		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	637						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TTATCTGTCTCACTGTCATCC	0.468													17	45	---	---	---	---	PASS	T	30032317	T	T	30032317	3	4	108	1	0	0	0	0	1	0	0	0	8005	835	29	2	56	2	KCNA4	11	30032317	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2352253	30032317	104974199	628	40070										
DCDC1	341019	broad.mit.edu	37	chr11	31327851	31327851	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgtaagctgttactttaatCactcttggttgaagtttgtg	9	5	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:31327851C>A	uc001msv.2	-	5	721	c.519G>T	c.(517-519)GTG>GTT	p.V173V	DCDC1_uc001msu.1_5'UTR	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	173	Doublecortin.				intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					TTACTTTAATCACTCTTGGTT	0.383													12	42	---	---	---	---	PASS	A	31327851	A	A	31327851	2	1	108	1	0	0	0	0	0	0	0	1	4284	813	29	2		2	DCDC1	11	31327851	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1295534	31327851	103678665	629	40071										
PAX6	5080	broad.mit.edu	37	chr11	31815649	31815649	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcaaacacatctggataatgGgttctctcaaactctgaaag	8	9	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:31815649G>T	uc001mtd.3	-	8	1586	c.696C>A	c.(694-696)ACC>ACA	p.T232T	PAX6_uc001mte.3_Silent_p.T232T|PAX6_uc001mtg.3_Silent_p.T246T|PAX6_uc001mtf.3_Silent_p.T232T|PAX6_uc001mth.3_Silent_p.T232T|PAX6_uc009yjr.2_Silent_p.T232T	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	232	Homeobox.				blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					CTGGATAATGGGTTCTCTCAA	0.423									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				17	110	---	---	---	---	PASS	T	31815649	T	T	31815649	2	4	108	1	0	0	0	0	0	0	0	1	11483	1219	43	3		3	PAX6	11	31815649	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	487798	31815649	103190867	630	40072										
WT1	7490	broad.mit.edu	37	chr11	32417924	32417924	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gatgccgaccgtacaagagtCggggctactccaggcacacg	13	13	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:32417924C>A	uc001mtn.1	-	7	1324	c.1128G>T	c.(1126-1128)CCG>CCT	p.P376P	WT1_uc001mtl.1_Silent_p.P164P|WT1_uc001mtm.1_Silent_p.P147P|WT1_uc001mto.1_Silent_p.P376P|WT1_uc001mtp.1_Silent_p.P359P|WT1_uc001mtq.1_Silent_p.P359P|WT1_uc009yjs.1_RNA	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D	308					adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding	p.T309fs*73(3)|p.T309fs*12(3)|p.T309fs*9(2)|p.T309fs*8(2)|p.R301fs*3(1)|p.A307fs*69(1)|p.P308fs*67(1)|p.A307fs*70(1)|p.T309fs*75(1)|p.P308fs*9(1)|p.V300fs*6(1)|p.R301fs*73(1)|p.T309fs*71(1)|p.R302fs*12(1)	EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			GTACAAGAGTCGGGGCTACTC	0.517			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				13	26	---	---	---	---	PASS	A	32417924	A	A	32417924	2	1	108	1	0	0	0	0	0	0	0	1	17405	871	31	2		2	WT1	11	32417924	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	602275	32417924	102588592	631	40073										
WT1	7490	broad.mit.edu	37	chr11	32450097	32450097	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttgaatgagtggttggggaActgcgccgcatggtgcgagg	18	7	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:32450097A>G	uc001mtn.1	-	2	911	c.715T>C	c.(715-717)TTC>CTC	p.F239L	WT1_uc001mtl.1_Missense_Mutation_p.F27L|WT1_uc001mtm.1_Missense_Mutation_p.F27L|WT1_uc001mto.1_Missense_Mutation_p.F239L|WT1_uc001mtp.1_Missense_Mutation_p.F239L|WT1_uc001mtq.1_Missense_Mutation_p.F239L|WT1_uc009yjs.1_RNA	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D	171					adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding		EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			TGGTTGGGGAACTGCGCCGCA	0.632			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				8	20	---	---	---	---	PASS	G	32450097	G	G	32450097	3	3	108	1	0	0	0	0	1	0	0	0	17405	43	2	5	874	5	WT1	11	32450097	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	32173	32450097	102556419	632	40074										
CCDC73	493860	broad.mit.edu	37	chr11	32635972	32635972	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttttttttatatctagagacGagtccaaatctgctttggtt	7	6	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:32635972G>C	uc001mtv.2	-	16	1936	c.1892C>G	c.(1891-1893)TCG>TGG	p.S631W		NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	631										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					ATCTAGAGACGAGTCCAAATC	0.328													9	18	---	---	---	---	PASS	C	32635972	C	C	32635972	3	2	108	1	0	0	0	0	1	0	0	0	2846	1059	37	2	1359	2	CCDC73	11	32635972	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	185875	32635972	102370544	633	40075										
QSER1	79832	broad.mit.edu	37	chr11	32956358	32956358	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccaatctggggatgcagtcaGtgtcaagattgaagaagaaa	12	6	3	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:32956358G>T	uc001mty.2	+	4	3434	c.3167G>T	c.(3166-3168)AGT>ATT	p.S1056I	QSER1_uc001mtz.1_Missense_Mutation_p.S817I|QSER1_uc001mua.2_Missense_Mutation_p.S561I	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	1056										ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					GATGCAGTCAGTGTCAAGATT	0.428													13	69	---	---	---	---	PASS	T	32956358	T	T	32956358	3	4	108	1	0	0	0	0	1	0	0	0	12882	1029	36	3	3173	3	QSER1	11	32956358	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	320386	32956358	102050158	634	40076										
C11orf41	25758	broad.mit.edu	37	chr11	33572687	33572687	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgatcgaaatgctgggtgtGtatggagtcagcaacgtcac	14	7	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:33572687G>C	uc001mup.3	+	4	2854	c.2730G>C	c.(2728-2730)GTG>GTC	p.V910V	C11orf41_uc001mun.1_Silent_p.V910V	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	904						integral to membrane				ovary(2)	2						TGCTGGGTGTGTATGGAGTCA	0.493													59	86	---	---	---	---	PASS	C	33572687	C	C	33572687	2	2	108	1	0	0	0	0	0	0	0	1	1640	1364	48	4		4	C11orf41	11	33572687	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	616329	33572687	101433829	635	40077										
TRAF6	7189	broad.mit.edu	37	chr11	36511715	36511715	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggctgtcatattctccttgCattgtgtggacaaaaaggga	11	7	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:36511715C>T	uc001mwr.1	-	8	1582	c.1242G>A	c.(1240-1242)ATG>ATA	p.M414I	uc001mwq.1_5'Flank|TRAF6_uc001mws.1_Missense_Mutation_p.M414I	NM_145803	NP_665802	Q9Y4K3	TRAF6_HUMAN	TNF receptor-associated factor 6	414	MATH.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|ossification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell cytokine production|protein autoubiquitination|protein K63-linked ubiquitination|response to interleukin-1|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cell cortex|cytosol|endosome membrane|internal side of plasma membrane|nuclear membrane	histone deacetylase binding|mitogen-activated protein kinase kinase kinase binding|protein kinase B binding|protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				ATTCTCCTTGCATTGTGTGGA	0.493													12	26	---	---	---	---	PASS	T	36511715	T	T	36511715	3	4	108	1	0	0	0	0	1	0	0	0	16442	710	25	3	330	3	TRAF6	11	36511715	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2939028	36511715	98494801	636	40078										
RAG1	5896	broad.mit.edu	37	chr11	36595604	36595604	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agacaagcccgtcagcacaaGagaagagctcaggcaaggat	12	10	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:36595604G>T	uc001mwu.3	+	2	874	c.750G>T	c.(748-750)AAG>AAT	p.K250N	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	250	Interaction with importin alpha-1.				histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				GTCAGCACAAGAGAAGAGCTC	0.498									Familial_Hemophagocytic_Lymphohistiocytosis				9	51	---	---	---	---	PASS	T	36595604	T	T	36595604	3	4	108	1	0	0	0	0	1	0	0	0	13003	933	33	2	752	2	RAG1	11	36595604	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	83889	36595604	98410912	637	40079										
LRRC4C	57689	broad.mit.edu	37	chr11	40137549	40137549	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggatttccaagtgtctcaaGtgcttgaagctgttcacttt	9	8	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:40137549G>C	uc001mxa.1	-	2	2258	c.294C>G	c.(292-294)CAC>CAG	p.H98Q	LRRC4C_uc001mxc.1_Missense_Mutation_p.H94Q|LRRC4C_uc001mxd.1_Missense_Mutation_p.H94Q|LRRC4C_uc001mxb.1_Missense_Mutation_p.H94Q	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	98	LRR 1.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				AGTGTCTCAAGTGCTTGAAGC	0.473													6	42	---	---	---	---	PASS	C	40137549	C	C	40137549	3	2	108	1	0	0	0	0	1	0	0	0	9008	1020	36	4	1632	4	LRRC4C	11	40137549	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3541945	40137549	94868967	638	40080										
DDB2	1643	broad.mit.edu	37	chr11	47238436	47238436	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcagtcctttttgcacactCtggattcttaccggatatta	7	10	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:47238436C>G	uc001neb.2	+	3	487	c.292C>G	c.(292-294)CTG>GTG	p.L98V	DDB2_uc001nec.2_RNA|DDB2_uc009yli.1_Intron|DDB2_uc001ned.2_RNA|DDB2_uc001nee.2_Missense_Mutation_p.L98V|DDB2_uc001nef.2_Missense_Mutation_p.L84V|DDB2_uc001neg.2_5'UTR|DDB2_uc001neh.2_RNA	NM_000107	NP_000098	Q92466	DDB2_HUMAN	damage-specific DNA binding protein 2	98	Required for interaction with DDB1.				nucleotide-excision repair, DNA damage removal|protein autoubiquitination|protein polyubiquitination|response to UV	nucleoplasm|protein complex	damaged DNA binding|protein binding			kidney(2)|ovary(1)	3						TTTGCACACTCTGGATTCTTA	0.512			Mis|N			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				6	13	---	---	---	---	PASS	G	47238436	G	G	47238436	3	3	108	1	0	0	0	0	1	0	0	0	4324	912	32	2	302	2	DDB2	11	47238436	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	7100887	47238436	87768080	639	40081										
MADD	8567	broad.mit.edu	37	chr11	47312322	47312322	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caggaaagggtcctaaggaaCtggacaccagaagtttaaag	12	7	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:47312322C>T	uc001ner.1	+	20	3507	c.3316C>T	c.(3316-3318)CTG>TTG	p.L1106L	MADD_uc001neq.2_Silent_p.L1086L|MADD_uc001nev.1_Silent_p.L1043L|MADD_uc001nes.1_Silent_p.L1063L|MADD_uc001net.1_Silent_p.L1106L|MADD_uc009yln.1_Silent_p.L1043L|MADD_uc001neu.1_Silent_p.L1043L|MADD_uc001nex.2_Silent_p.L1106L|MADD_uc001nez.2_Silent_p.L1043L|MADD_uc001new.2_Silent_p.L1086L|MADD_uc009ylo.2_Silent_p.L24L	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	1106					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		TCCTAAGGAACTGGACACCAG	0.507													13	40	---	---	---	---	PASS	T	47312322	T	T	47312322	2	4	108	1	0	0	0	0	0	0	0	1	9152	564	20	3		3	MADD	11	47312322	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	73886	47312322	87694194	640	40082										
OR4B1	119765	broad.mit.edu	37	chr11	48239093	48239093	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtgcttctcacatcacagtGgtcatcttgttttttggacc	8	10	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:48239093G>C	uc010rhs.1	+	1	732	c.732G>C	c.(730-732)GTG>GTC	p.V244V		NM_001005470	NP_001005470	Q8NGF8	OR4B1_HUMAN	olfactory receptor, family 4, subfamily B,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|pancreas(1)	4						ACATCACAGTGGTCATCTTGT	0.468													5	63	---	---	---	---	PASS	C	48239093	C	C	48239093	2	2	108	1	0	0	0	0	0	0	0	1	11044	1335	47	4		4	OR4B1	11	48239093	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	926771	48239093	86767423	641	40083										
OR4A5	81318	broad.mit.edu	37	chr11	51411878	51411878	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggtgcatgtcacaactgaaaTgaacaatgacattgggacca	10	8	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:51411878T>C	uc001nhi.1	-	1	518	c.518A>G	c.(517-519)CAT>CGT	p.H173R		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	173	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				ACAACTGAAATGAACAATGAC	0.443													5	42	---	---	---	---	PASS	C	51411878	C	C	51411878	3	2	108	1	0	0	0	0	1	0	0	0	11043	1464	51	5	433	5	OR4A5	11	51411878	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	3172785	51411878	83594638	642	40084										
OR4C6	219432	broad.mit.edu	37	chr11	55433256	55433256	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctcaacagtgggatgatgtGtgtggccatctttcttatct	10	9	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:55433256G>T	uc001nht.3	+	3	879	c.614G>T	c.(613-615)TGT>TTT	p.C205F	OR4C6_uc010rik.1_Missense_Mutation_p.C205F	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	205	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GGGATGATGTGTGTGGCCATC	0.478													14	56	---	---	---	---	PASS	T	55433256	T	T	55433256	3	4	108	1	0	0	0	0	1	0	0	0	11052	1377	48	3	616	3	OR4C6	11	55433256	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4021378	55433256	79573260	643	40085										
OR5D18	219438	broad.mit.edu	37	chr11	55587261	55587261	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgattgtgatcatcaaaatCaaccccaaactgcatacccc	4	13	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:55587261C>G	uc010rin.1	+	1	156	c.156C>G	c.(154-156)ATC>ATG	p.I52M		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	52	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				TCATCAAAATCAACCCCAAAC	0.453													14	99	---	---	---	---	PASS	G	55587261	G	G	55587261	3	3	108	1	0	0	0	0	1	0	0	0	11157	816	29	2	158	2	OR5D18	11	55587261	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	154005	55587261	79419255	644	40086										
OR5L2	26338	broad.mit.edu	37	chr11	55595417	55595417	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cacaaagctttctccacctgTgcctcccacctcacagccat	4	19	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:55595417T>C	uc001nhy.1	+	1	723	c.723T>C	c.(721-723)TGT>TGC	p.C241C		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				TCTCCACCTGTGCCTCCCACC	0.493										HNSCC(27;0.073)			29	53	---	---	---	---	PASS	C	55595417	C	C	55595417	2	2	108	1	0	0	0	0	0	0	0	1	11171	1702	59	5		5	OR5L2	11	55595417	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	8156	55595417	79411099	645	40087										
OR8I2	120586	broad.mit.edu	37	chr11	55861081	55861081	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctttgttggctgctttgttCaaatgtacttttttgttgga	9	6	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:55861081C>G	uc010rix.1	+	1	298	c.298C>G	c.(298-300)CAA>GAA	p.Q100E		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	100	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					CTGCTTTGTTCAAATGTACTT	0.398													16	100	---	---	---	---	PASS	G	55861081	G	G	55861081	3	3	108	1	0	0	0	0	1	0	0	0	11240	827	29	2	300	2	OR8I2	11	55861081	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	265664	55861081	79145435	646	40088										
OR5J2	282775	broad.mit.edu	37	chr11	55944717	55944717	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttctccggagtcattgccatGgccaccttcttgactgtgat	9	12	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:55944717G>T	uc010rjb.1	+	1	624	c.624G>T	c.(622-624)ATG>ATT	p.M208I		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	208	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					TCATTGCCATGGCCACCTTCT	0.478													14	61	---	---	---	---	PASS	T	55944717	T	T	55944717	3	4	108	1	0	0	0	0	1	0	0	0	11165	1348	47	3	626	3	OR5J2	11	55944717	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	83636	55944717	79061799	647	40089										
OR5M9	390162	broad.mit.edu	37	chr11	56230190	56230190	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaacgccttcctcctgccatCggcagagcgcatgcgtagca	11	15	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:56230190C>T	uc010rjj.1	-	1	688	c.688G>A	c.(688-690)GAT>AAT	p.D230N		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	230	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					CTCCTGCCATCGGCAGAGCGC	0.498													12	9	---	---	---	---	PASS	T	56230190	T	T	56230190	3	4	108	1	0	0	0	0	1	0	0	0	11177	884	31	2	246	2	OR5M9	11	56230190	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	285473	56230190	78776326	648	40090										
OR5AR1	219493	broad.mit.edu	37	chr11	56431331	56431331	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aacagacactcagcttcacaCacccatgtattttttcctct	3	14	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:56431331C>G	uc010rjm.1	+	1	170	c.170C>G	c.(169-171)ACA>AGA	p.T57R		NM_001004730	NP_001004730	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR,	57	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CAGCTTCACACACCCATGTAT	0.448													33	118	---	---	---	---	PASS	G	56431331	G	G	56431331	3	3	108	1	0	0	0	0	1	0	0	0	11145	478	17	4	172	4	OR5AR1	11	56431331	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	201141	56431331	78575185	649	40091										
OR9G9	504191	broad.mit.edu	37	chr11	56468215	56468215	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctacctgctggctgccgtgGcttatgaccgctacgtggcc	13	14	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:56468215G>C	uc010rjn.1	+	1	352	c.352G>C	c.(352-354)GCT>CCT	p.A118P		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	118	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGCTGCCGTGGCTTATGACCG	0.537													4	52	---	---	---	---	PASS	C	56468215	C	C	56468215	3	2	108	1	0	0	0	0	1	0	0	0	11252	1203	42	4	354	4	OR9G9	11	56468215	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	36884	56468215	78538301	650	40092										
LRRC55	219527	broad.mit.edu	37	chr11	56949613	56949613	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gatgccggcaccagctgcccCgtcctttgcacatgccgtaa	10	16	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:56949613C>G	uc001njl.1	+	1	393	c.246C>G	c.(244-246)CCC>CCG	p.P82P		NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	52	LRRNT.					integral to membrane					0						CCAGCTGCCCCGTCCTTTGCA	0.647													7	25	---	---	---	---	PASS	G	56949613	G	G	56949613	2	3	108	1	0	0	0	0	0	0	0	1	9011	639	23	4		4	LRRC55	11	56949613	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	481398	56949613	78056903	651	40093										
OR5B12	390191	broad.mit.edu	37	chr11	58207465	58207465	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaagaagtacatgggggtgtGgagacaggagtccagtagaa	17	4	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:58207465G>C	uc010rkh.1	-	1	160	c.160C>G	c.(160-162)CAC>GAC	p.H54D		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	54	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				ATGGGGGTGTGGAGACAGGAG	0.493													16	39	---	---	---	---	PASS	C	58207465	C	C	58207465	3	2	108	1	0	0	0	0	1	0	0	0	11148	1348	47	4	788	4	OR5B12	11	58207465	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1257852	58207465	76799051	652	40094										
OR5A1	219982	broad.mit.edu	37	chr11	59211286	59211286	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtcggaggaacatcgttcctCcaactccttatctcctatgg	8	13	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:59211286C>G	uc001nnx.1	+	1	645	c.645C>G	c.(643-645)CTC>CTG	p.L215L		NM_001004728	NP_001004728	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2						CATCGTTCCTCCAACTCCTTA	0.547													44	92	---	---	---	---	PASS	G	59211286	G	G	59211286	2	3	108	1	0	0	0	0	0	0	0	1	11139	842	30	2		2	OR5A1	11	59211286	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1003821	59211286	75795230	653	40095										
OR4D9	390199	broad.mit.edu	37	chr11	59282638	59282638	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcctaaggtcctgatagatCttctatcagagacaaaaacc	6	11	3	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:59282638C>A	uc010rkv.1	+	1	253	c.253C>A	c.(253-255)CTT>ATT	p.L85I		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCTGATAGATCTTCTATCAGA	0.463													19	56	---	---	---	---	PASS	A	59282638	A	A	59282638	3	1	108	1	0	0	0	0	1	0	0	0	11059	913	32	2	255	2	OR4D9	11	59282638	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	71352	59282638	75723878	654	40096										
MRPL16	54948	broad.mit.edu	37	chr11	59574004	59574004	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcttctctagagtcccgcggCtcacagcctttgctgcgaag	10	14	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:59574004C>G	uc001noh.2	-	4	786	c.572G>C	c.(571-573)AGC>ACC	p.S191T		NM_017840	NP_060310	Q9NX20	RM16_HUMAN	mitochondrial ribosomal protein L16 precursor	191							rRNA binding			central_nervous_system(1)	1						AGTCCCGCGGCTCACAGCCTT	0.512													13	86	---	---	---	---	PASS	G	59574004	G	G	59574004	3	3	108	1	0	0	0	0	1	0	0	0	9781	797	28	4	187	4	MRPL16	11	59574004	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	291366	59574004	75432512	655	40097										
MS4A6E	245802	broad.mit.edu	37	chr11	60105243	60105243	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcctggctggaagcattctGagtgctctgtctgccctggt	13	11	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:60105243G>C	uc001npd.2	+	2	191	c.177G>C	c.(175-177)CTG>CTC	p.L59L		NM_139249	NP_640342	Q96DS6	M4A6E_HUMAN	membrane-spanning 4-domains, subfamily A, member	59	Helical; (Potential).					integral to membrane	receptor activity				0						GAAGCATTCTGAGTGCTCTGT	0.483													9	67	---	---	---	---	PASS	C	60105243	C	C	60105243	2	2	108	1	0	0	0	0	0	0	0	1	9865	1277	45	2		2	MS4A6E	11	60105243	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	531239	60105243	74901273	656	40098										
TMEM109	79073	broad.mit.edu	37	chr11	60687196	60687196	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccagcatcagttcaccatggGgaaagcatgtgttcaaagcc	10	11	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:60687196G>T	uc001nqg.2	+	2	409	c.31G>T	c.(31-33)GGA>TGA	p.G11*	TMEM109_uc001nqh.2_Nonsense_Mutation_p.G11*	NM_024092	NP_076997	Q9BVC6	TM109_HUMAN	transmembrane protein 109 precursor	11						integral to membrane|nuclear outer membrane|sarcoplasmic reticulum membrane					0						TTCACCATGGGGAAAGCATGT	0.562													24	41	---	---	---	---	PASS	T	60687196	T	T	60687196	4	4	108	1	0	0	0	0	0	1	0	0	16022	1233	43	3	33	3	TMEM109	11	60687196	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	581953	60687196	74319320	657	40099										
CD6	923	broad.mit.edu	37	chr11	60785239	60785239	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcctgccttaggacttgaaGagttgcatgcctcccacatc	8	13	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:60785239G>A	uc001nqq.2	+	11	1814	c.1591G>A	c.(1591-1593)GAG>AAG	p.E531K	CD6_uc001nqp.2_Missense_Mutation_p.E531K|CD6_uc001nqr.2_Missense_Mutation_p.E499K|CD6_uc001nqs.2_RNA|CD6_uc001nqt.2_Missense_Mutation_p.E490K	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule precursor	531	Cytoplasmic (Potential).				cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1						AGGACTTGAAGAGTTGCATGC	0.408													15	82	---	---	---	---	PASS	A	60785239	A	A	60785239	3	1	108	1	0	0	0	0	1	0	0	0	3028	943	33	2	1633	2	CD6	11	60785239	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	98043	60785239	74221277	658	40100										
PGA3	643834	broad.mit.edu	37	chr11	60971058	60971058	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgaagtggctgctgctgctgGgtctggtggcactctctgag	16	9	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:60971058G>C	uc001nqx.2	+	1	75	c.22G>C	c.(22-24)GGT>CGT	p.G8R	PGA3_uc010rld.1_Missense_Mutation_p.G8R	NM_001079807	NP_001073275			pepsinogen 3, group I precursor											ovary(1)|skin(1)	2						GCTGCTGCTGGGTCTGGTGGC	0.582													9	13	---	---	---	---	PASS	C	60971058	C	C	60971058	3	2	108	1	0	0	0	0	1	0	0	0	11771	1232	43	4	24	4	PGA3	11	60971058	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	185819	60971058	74035458	659	40101										
INCENP	3619	broad.mit.edu	37	chr11	61919412	61919412	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccctgcagggcgccagggtCcccagcagcctggcctacag	13	18	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:61919412C>G	uc001nsw.1	+	19	2923	c.2721C>G	c.(2719-2721)GTC>GTG	p.V907V	INCENP_uc001nsx.1_Silent_p.V903V|INCENP_uc001nsy.1_Silent_p.V321V	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	907					chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						GCGCCAGGGTCCCCAGCAGCC	0.557													5	18	---	---	---	---	PASS	G	61919412	G	G	61919412	2	3	108	1	0	0	0	0	0	0	0	1	7733	842	30	2		2	INCENP	11	61919412	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	948354	61919412	73087104	660	40102										
ACY3	91703	broad.mit.edu	37	chr11	67413199	67413199	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggtgcatggcaaagacttcGtgggaggacttcgcgattaa	14	7	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:67413199G>A	uc001omq.2	-	4	567	c.396C>T	c.(394-396)CAC>CAT	p.H132H		NM_080658	NP_542389	Q96HD9	ACY3_HUMAN	aspartoacylase 3	132					interspecies interaction between organisms	apical plasma membrane|cytoplasm	hydrolase activity, acting on ester bonds|metal ion binding				0					L-Aspartic Acid(DB00128)	CAAAGACTTCGTGGGAGGACT	0.652													44	31	---	---	---	---	PASS	A	67413199	A	A	67413199	2	1	108	1	0	0	0	0	0	0	0	1	227	1136	40	1		1	ACY3	11	67413199	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	5493787	67413199	67593317	661	40103										
KRTAP5-11	440051	broad.mit.edu	37	chr11	71293514	71293514	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctggattggcagcagcaggGcttgcagcagctggactggc	17	10	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:71293514G>A	uc001oqu.2	-	1	408	c.370C>T	c.(370-372)CCC>TCC	p.P124S		NM_001005405	NP_001005405	Q6L8G4	KR511_HUMAN	keratin associated protein 5-11	124	5.|6 X 4 AA repeats of C-C-X-P.					keratin filament					0						cagcagcagggcttgcagcag	0.085													7	67	---	---	---	---	PASS	A	71293514	A	A	71293514	3	1	108	1	0	0	0	0	1	0	0	0	8560	1203	42	3	104	3	KRTAP5-11	11	71293514	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3880315	71293514	63713002	662	40104										
ARHGEF17	9828	broad.mit.edu	37	chr11	73020284	73020284	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aagggaggctgcgccggccgCagcagcaacaggagcgggcg	19	12	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:73020284C>A	uc001otu.2	+	1	622	c.601C>A	c.(601-603)CAG>AAG	p.Q201K		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	201	Poly-Gln.				actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						GCGCCGGCCGCAGCAGCAACA	0.716													12	11	---	---	---	---	PASS	A	73020284	A	A	73020284	3	1	108	1	0	0	0	0	1	0	0	0	900	711	25	3	603	3	ARHGEF17	11	73020284	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1726770	73020284	61986232	663	40105										
C11orf30	56946	broad.mit.edu	37	chr11	76162994	76162994	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcttggagaactatcaaaaGttcttaggtaaattattgta	7	4	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:76162994G>C	uc001oxl.2	+	3	306	c.163G>C	c.(163-165)GTT>CTT	p.V55L	C11orf30_uc001oxj.2_Missense_Mutation_p.V55L|C11orf30_uc001oxk.2_Missense_Mutation_p.V55L|C11orf30_uc009yuj.1_Missense_Mutation_p.V55L|C11orf30_uc010rsa.1_Missense_Mutation_p.V55L|C11orf30_uc001oxm.2_Missense_Mutation_p.V55L|C11orf30_uc010rsb.1_Missense_Mutation_p.V55L|C11orf30_uc010rsc.1_Missense_Mutation_p.V55L|C11orf30_uc001oxn.2_Missense_Mutation_p.V55L|C11orf30_uc010rsd.1_Missense_Mutation_p.V55L	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	55	Interaction with BRCA2.|ENT.				chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						ACTATCAAAAGTTCTTAGGTA	0.348													3	30	---	---	---	---	PASS	C	76162994	C	C	76162994	3	2	108	1	0	0	0	0	1	0	0	0	1636	1029	36	4	169	4	C11orf30	11	76162994	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3142710	76162994	58843522	664	40106										
NARS2	79731	broad.mit.edu	37	chr11	78285425	78285425	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcgctccccactcgcgttctGagccccgagagcgtcccgca	11	19	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:78285425G>C	uc001ozi.2	-	1	485	c.109C>G	c.(109-111)CAG>GAG	p.Q37E	NARS2_uc010rsq.1_Intron	NM_024678	NP_078954	Q96I59	SYNM_HUMAN	asparaginyl-tRNA synthetase 2, mitochondrial	37					asparaginyl-tRNA aminoacylation	mitochondrial matrix	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding			ovary(2)	2	all_cancers(14;2.63e-17)|all_epithelial(13;1.85e-19)				L-Asparagine(DB00174)	CTCGCGTTCTGAGCCCCGAGA	0.577													107	73	---	---	---	---	PASS	C	78285425	C	C	78285425	3	2	108	1	0	0	0	0	1	0	0	0	10171	1299	45	2	1380	2	NARS2	11	78285425	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2122431	78285425	56721091	665	40107										
SYTL2	54843	broad.mit.edu	37	chr11	85447559	85447559	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttaccctcttttgaagtctGaaataaaccagttcttccat	4	10	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:85447559G>C	uc010rth.1	-	5	844	c.568C>G	c.(568-570)CAG>GAG	p.Q190E	SYTL2_uc010rtg.1_Missense_Mutation_p.Q191E|SYTL2_uc010rti.1_Missense_Mutation_p.Q190E|SYTL2_uc010rtj.1_Missense_Mutation_p.Q142E|SYTL2_uc001pbf.3_Missense_Mutation_p.Q190E|SYTL2_uc010rtf.1_Missense_Mutation_p.Q48E	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	190					intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding	p.G190V(1)		ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		TTTGAAGTCTGAAATAAACCA	0.333													11	24	---	---	---	---	PASS	C	85447559	C	C	85447559	3	2	108	1	0	0	0	0	1	0	0	0	15480	1299	45	2	4773	2	SYTL2	11	85447559	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	7162134	85447559	49558957	666	40108										
FAT3	120114	broad.mit.edu	37	chr11	92533735	92533735	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aacaaaggtaattcatgttcGagccacagatggtgatccag	10	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:92533735G>C	uc001pdj.3	+	9	7573	c.7556G>C	c.(7555-7557)CGA>CCA	p.R2519P		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2519	Cadherin 23.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ATTCATGTTCGAGCCACAGAT	0.493										TCGA Ovarian(4;0.039)			10	23	---	---	---	---	PASS	C	92533735	C	C	92533735	3	2	108	1	0	0	0	0	1	0	0	0	5691	1058	37	2	7590	2	FAT3	11	92533735	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	7086176	92533735	42472781	667	40109										
FAT3	120114	broad.mit.edu	37	chr11	92600001	92600001	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtcaacgacgggagctggcActcggtcttcctggagctca	13	12	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:92600001A>T	uc001pdj.3	+	21	11770	c.11753A>T	c.(11752-11754)CAC>CTC	p.H3918L	FAT3_uc001pdi.3_Missense_Mutation_p.H358L	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3918	Laminin G-like.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GGGAGCTGGCACTCGGTCTTC	0.637										TCGA Ovarian(4;0.039)			12	15	---	---	---	---	PASS	T	92600001	T	T	92600001	3	4	108	1	0	0	0	0	1	0	0	0	5691	159	6	5	11835	5	FAT3	11	92600001	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	66266	92600001	42406515	668	40110										
SLC36A4	120103	broad.mit.edu	37	chr11	92881849	92881849	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccaacaactccagtgaatgCtatagaaatatttttcagga	7	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:92881849C>A	uc001pdn.2	-	11	1466	c.1369G>T	c.(1369-1371)GCA>TCA	p.A457S	uc001pdl.1_5'Flank|SLC36A4_uc001pdm.2_Missense_Mutation_p.A322S	NM_152313	NP_689526	Q6YBV0	S36A4_HUMAN	solute carrier family 36 (proton/amino acid	457	Helical; (Potential).				L-alanine transport|proline transport|tryptophan transport	integral to membrane	symporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CCAGTGAATGCTATAGAAATA	0.378													15	49	---	---	---	---	PASS	A	92881849	A	A	92881849	3	1	108	1	0	0	0	0	1	0	0	0	14596	797	28	3	149	3	SLC36A4	11	92881849	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	281848	92881849	42124667	669	40111										
ENDOD1	23052	broad.mit.edu	37	chr11	94861787	94861787	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgaatctccacagcctaatgGaccgggctttgaccccacag	9	14	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:94861787G>A	uc001pfh.2	+	2	622	c.547G>A	c.(547-549)GAC>AAC	p.D183N		NM_015036	NP_055851	O94919	ENDD1_HUMAN	endonuclease domain containing 1 precursor	183						extracellular region	endonuclease activity|metal ion binding|nucleic acid binding				0		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.00824)				CAGCCTAATGGACCGGGCTTT	0.517													15	32	---	---	---	---	PASS	A	94861787	A	A	94861787	3	1	108	1	0	0	0	0	1	0	0	0	5114	1174	41	2	553	2	ENDOD1	11	94861787	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1979938	94861787	40144729	670	40112										
KIAA1377	57562	broad.mit.edu	37	chr11	101834216	101834216	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tagaagtggtaaaaatatacAagtgtctcagtgtcaaccag	9	6	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:101834216A>C	uc001pgm.2	+	6	2720	c.2450A>C	c.(2449-2451)CAA>CCA	p.Q817P	KIAA1377_uc001pgn.2_Missense_Mutation_p.Q773P|KIAA1377_uc010run.1_Missense_Mutation_p.Q618P|KIAA1377_uc009yxa.1_Missense_Mutation_p.Q618P	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	817							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		AAAAATATACAAGTGTCTCAG	0.338													18	29	---	---	---	---	PASS	C	101834216	C	C	101834216	3	2	108	1	0	0	0	0	1	0	0	0	8227	130	5	5	2472	5	KIAA1377	11	101834216	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	6972429	101834216	33172300	671	40113										
EXPH5	23086	broad.mit.edu	37	chr11	108382262	108382262	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcagtcatattttcagtggtGagcgtctgatcagagttgac	12	7	4	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:108382262G>C	uc001pkk.2	-	6	4083	c.3972C>G	c.(3970-3972)CTC>CTG	p.L1324L	EXPH5_uc010rvy.1_Silent_p.L1136L|EXPH5_uc010rvz.1_Silent_p.L1168L|EXPH5_uc010rwa.1_Silent_p.L1248L	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1324					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		TTTCAGTGGTGAGCGTCTGAT	0.438													12	18	---	---	---	---	PASS	C	108382262	C	C	108382262	2	2	108	1	0	0	0	0	0	0	0	1	5322	1277	45	2		2	EXPH5	11	108382262	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	6548046	108382262	26624254	672	40114										
ARHGAP20	57569	broad.mit.edu	37	chr11	110456944	110456944	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaattagaataattacctttGaacagtatttattttctctt	3	5	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:110456944G>C	uc001pkz.1	-	13	1696	c.1411C>G	c.(1411-1413)CAA>GAA	p.Q471E	ARHGAP20_uc001pky.1_Missense_Mutation_p.Q448E|ARHGAP20_uc009yyb.1_Missense_Mutation_p.Q435E|ARHGAP20_uc001pla.1_Missense_Mutation_p.Q435E|ARHGAP20_uc001plb.2_Missense_Mutation_p.Q14E	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	471	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		AATTACCTTTGAACAGTATTT	0.264													5	28	---	---	---	---	PASS	C	110456944	C	C	110456944	3	2	108	1	0	0	0	0	1	0	0	0	870	1299	45	2	2180	2	ARHGAP20	11	110456944	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2074682	110456944	24549572	673	40115										
APOA4	337	broad.mit.edu	37	chr11	116693478	116693478	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	catcaccgtggccacctggtCagcactgacctcagccctgg	10	17	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:116693478C>T	uc001pps.1	-	2	177	c.73G>A	c.(73-75)GAC>AAC	p.D25N		NM_000482	NP_000473			apolipoprotein A-IV precursor												0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		GCCACCTGGTCAGCACTGACC	0.582													20	32	---	---	---	---	PASS	T	116693478	T	T	116693478	3	4	108	1	0	0	0	0	1	0	0	0	783	826	29	2	1125	2	APOA4	11	116693478	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6236534	116693478	18313038	674	40116										
SORL1	6653	broad.mit.edu	37	chr11	121476146	121476146	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	catatggaagactctggagaCccacagcaataagacaaaca	8	10	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:121476146C>T	uc001pxx.2	+	35	4894	c.4814C>T	c.(4813-4815)ACC>ATC	p.T1605I	SORL1_uc010rzp.1_Missense_Mutation_p.T451I|SORL1_uc010rzq.1_Missense_Mutation_p.T220I	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1605	Extracellular (Potential).|Fibronectin type-III 1.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		ACTCTGGAGACCCACAGCAAT	0.453													43	89	---	---	---	---	PASS	T	121476146	T	T	121476146	3	4	108	1	0	0	0	0	1	0	0	0	14934	507	18	3	4952	3	SORL1	11	121476146	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4782668	121476146	13530370	675	40117										
SORL1	6653	broad.mit.edu	37	chr11	121485651	121485651	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgacttgggggatagccctCtggcatttgagcatgttatg	13	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:121485651C>G	uc001pxx.2	+	41	5571	c.5491C>G	c.(5491-5493)CTG>GTG	p.L1831V	SORL1_uc010rzp.1_Missense_Mutation_p.L677V|SORL1_uc010rzq.1_Missense_Mutation_p.L446V	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1831	Extracellular (Potential).|Fibronectin type-III 3.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		GGATAGCCCTCTGGCATTTGA	0.527													18	39	---	---	---	---	PASS	G	121485651	G	G	121485651	3	3	108	1	0	0	0	0	1	0	0	0	14934	912	32	2	5653	2	SORL1	11	121485651	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	9505	121485651	13520865	676	40118										
OR6M1	390261	broad.mit.edu	37	chr11	123676886	123676886	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caaattactgaggaagaagtAcattggagtttgcaggcgat	12	5	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:123676886A>T	uc010rzz.1	-	1	172	c.172T>A	c.(172-174)TAC>AAC	p.Y58N		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		AGGAAGAAGTACATTGGAGTT	0.423													13	73	---	---	---	---	PASS	T	123676886	T	T	123676886	3	4	108	1	0	0	0	0	1	0	0	0	11205	391	14	5	772	5	OR6M1	11	123676886	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	2191235	123676886	11329630	677	40119										
OR6T1	219874	broad.mit.edu	37	chr11	123814316	123814316	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgacaagcatcttgggaaccAcaacagttaccagcaacagc	8	13	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:123814316A>T	uc010sab.1	-	1	230	c.230T>A	c.(229-231)GTG>GAG	p.V77E		NM_001005187	NP_001005187	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T,	77	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		CTTGGGAACCACAACAGTTAC	0.488													38	56	---	---	---	---	PASS	T	123814316	T	T	123814316	3	4	108	1	0	0	0	0	1	0	0	0	11210	159	6	5	744	5	OR6T1	11	123814316	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	137430	123814316	11192200	678	40120										
OR10G9	219870	broad.mit.edu	37	chr11	123893820	123893820	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aatcttcctggtggtttacgTgctcactgtgctggggaacc	12	10	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:123893820T>A	uc010sad.1	+	1	101	c.101T>A	c.(100-102)GTG>GAG	p.V34E		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	34	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GTGGTTTACGTGCTCACTGTG	0.572													13	68	---	---	---	---	PASS	A	123893820	A	A	123893820	3	1	108	1	0	0	0	0	1	0	0	0	10904	1696	59	5	103	5	OR10G9	11	123893820	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	79504	123893820	11112696	679	40121										
OR8G2	26492	broad.mit.edu	37	chr11	124096236	124096236	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcagccatcatctgtcagctCcatggaccaggggaaagtgt	12	11	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:124096236C>A	uc010saf.1	+	1	839	c.839C>A	c.(838-840)TCC>TAC	p.S280Y		NM_001007249	NP_001007250	Q15614	OR8G2_HUMAN	olfactory receptor, family 8, subfamily G,	280						integral to membrane	olfactory receptor activity				0		Breast(109;0.0157)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.91e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		TCTGTCAGCTCCATGGACCAG	0.478													36	68	---	---	---	---	PASS	A	124096236	A	A	124096236	3	1	108	1	0	0	0	0	1	0	0	0	11235	855	30	2	841	2	OR8G2	11	124096236	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	202416	124096236	10910280	680	40122										
HEPACAM	220296	broad.mit.edu	37	chr11	124793658	124793658	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttgacaggcaggctgcggcCctggctgatggggttctcca	15	12	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:124793658C>A	uc001qbk.2	-	3	1082	c.676G>T	c.(676-678)GGC>TGC	p.G226C	HEPACAM_uc009zbj.2_5'Flank|HEPACAM_uc001qbl.1_Missense_Mutation_p.G226C	NM_152722	NP_689935	Q14CZ8	HECAM_HUMAN	hepatocyte cell adhesion molecule precursor	226	Extracellular (Potential).|Ig-like C2-type.				cell adhesion|cell cycle arrest|regulation of growth	cytoplasm|integral to membrane				pancreas(1)	1	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.54e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		AGGCTGCGGCCCTGGCTGATG	0.577													5	25	---	---	---	---	PASS	A	124793658	A	A	124793658	3	1	108	1	0	0	0	0	1	0	0	0	7052	623	22	3	594	3	HEPACAM	11	124793658	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	697422	124793658	10212858	681	40123										
KCNJ1	3758	broad.mit.edu	37	chr11	128710133	128710133	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acccatttccgaagatgtttGaacatactttctgtcaacac	5	11	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr11:128710133G>C	uc001qeo.1	-	2	114	c.63C>G	c.(61-63)TTC>TTG	p.F21L	KCNJ1_uc001qep.1_Missense_Mutation_p.F2L|KCNJ1_uc001qeq.1_Missense_Mutation_p.F2L|KCNJ1_uc001qer.1_Missense_Mutation_p.F2L|KCNJ1_uc001qes.1_Missense_Mutation_p.F2L	NM_000220	NP_000211	P48048	IRK1_HUMAN	potassium inwardly-rectifying channel J1 isoform	21	Cytoplasmic (By similarity).				excretion	voltage-gated potassium channel complex	ATP binding|inward rectifier potassium channel activity			ovary(3)|breast(1)	4	all_hematologic(175;0.0641)	all_lung(97;4.89e-06)|Lung NSC(97;9.34e-06)|Breast(109;0.00123)|all_hematologic(192;0.00793)|Renal(330;0.0112)|all_neural(223;0.0189)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;4.05e-06)|LUSC - Lung squamous cell carcinoma(976;0.008)|Lung(977;0.00942)	Acetohexamide(DB00414)|Chlorpropamide(DB00672)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Glimepiride(DB00222)|Glipizide(DB01067)|Glycodiazine(DB01382)|Minoxidil(DB00350)|Nateglinide(DB00731)|Repaglinide(DB00912)|Tolazamide(DB00839)|Tolbutamide(DB01124)	GAAGATGTTTGAACATACTTT	0.403													13	50	---	---	---	---	PASS	C	128710133	C	C	128710133	3	2	108	1	0	0	0	0	1	0	0	0	8043	1281	45	2	1116	2	KCNJ1	11	128710133	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3916475	128710133	6296383	682	40124										
KDM5A	5927	broad.mit.edu	37	chr12	427394	427394	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaccctaccccagagtctatCagcttcttcatgacatccaa	4	15	4	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:427394C>G	uc001qif.1	-	19	3138	c.2775G>C	c.(2773-2775)CTG>CTC	p.L925L	KDM5A_uc001qie.1_Silent_p.L925L|KDM5A_uc010sdn.1_Silent_p.L884L	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	925					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						CAGAGTCTATCAGCTTCTTCA	0.502			T 	NUP98	AML								57	39	---	---	---	---	PASS	G	427394	G	G	427394	2	3	108	1	0	0	0	0	0	0	0	1	8133	813	29	2		2	KDM5A	12	427394	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08		427394	133424501	683	40125										
CACNA1C	775	broad.mit.edu	37	chr12	2693757	2693757	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcccaaaaggaggaggaagaGgagaaggagagaaagaagct	17	4	0	4	rs150598253	by1000genomes	TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:2693757G>T	uc009zdu.1	+	16	2626	c.2313G>T	c.(2311-2313)GAG>GAT	p.E771D	CACNA1C_uc009zdv.1_Missense_Mutation_p.E768D|CACNA1C_uc001qkb.2_Missense_Mutation_p.E771D|CACNA1C_uc001qkc.2_Missense_Mutation_p.E771D|CACNA1C_uc001qke.2_Missense_Mutation_p.E771D|CACNA1C_uc001qkf.2_Missense_Mutation_p.E771D|CACNA1C_uc001qjz.2_Missense_Mutation_p.E771D|CACNA1C_uc001qkd.2_Missense_Mutation_p.E771D|CACNA1C_uc001qkg.2_Missense_Mutation_p.E771D|CACNA1C_uc009zdw.1_Missense_Mutation_p.E771D|CACNA1C_uc001qkh.2_Missense_Mutation_p.E771D|CACNA1C_uc001qkl.2_Missense_Mutation_p.E771D|CACNA1C_uc001qkn.2_Missense_Mutation_p.E771D|CACNA1C_uc001qko.2_Missense_Mutation_p.E771D|CACNA1C_uc001qkp.2_Missense_Mutation_p.E771D|CACNA1C_uc001qkr.2_Missense_Mutation_p.E771D|CACNA1C_uc001qku.2_Missense_Mutation_p.E771D|CACNA1C_uc001qkq.2_Missense_Mutation_p.E771D|CACNA1C_uc001qks.2_Missense_Mutation_p.E771D|CACNA1C_uc001qkt.2_Missense_Mutation_p.E771D|CACNA1C_uc001qka.1_Missense_Mutation_p.E306D|CACNA1C_uc001qki.1_Missense_Mutation_p.E507D|CACNA1C_uc001qkj.1_Missense_Mutation_p.E507D|CACNA1C_uc001qkk.1_Missense_Mutation_p.E507D|CACNA1C_uc001qkm.1_Missense_Mutation_p.E507D|CACNA1C_uc001qkw.2_Missense_Mutation_p.E60D	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	771	Cytoplasmic (Potential).|Poly-Glu.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	aggaggaagaggagaaggaga	0.468													19	45	---	---	---	---	PASS	T	2693757	T	T	2693757	3	4	108	1	0	0	0	0	1	0	0	0	2540	991	35	3	2483	3	CACNA1C	12	2693757	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2266363	2693757	131158138	684	40126										
CACNA1C	775	broad.mit.edu	37	chr12	2702441	2702441	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcccacgaccactctctgagCttcaccttaaggaaaaggca	8	14	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:2702441C>T	uc009zdu.1	+	19	2906	c.2593C>T	c.(2593-2595)CTT>TTT	p.L865F	CACNA1C_uc009zdv.1_Missense_Mutation_p.L862F|CACNA1C_uc001qkb.2_Missense_Mutation_p.L865F|CACNA1C_uc001qkc.2_Missense_Mutation_p.L865F|CACNA1C_uc001qke.2_Missense_Mutation_p.L865F|CACNA1C_uc001qkf.2_Missense_Mutation_p.L865F|CACNA1C_uc001qjz.2_Missense_Mutation_p.L865F|CACNA1C_uc001qkd.2_Missense_Mutation_p.L865F|CACNA1C_uc001qkg.2_Missense_Mutation_p.L865F|CACNA1C_uc009zdw.1_Missense_Mutation_p.L865F|CACNA1C_uc001qkh.2_Missense_Mutation_p.L865F|CACNA1C_uc001qkl.2_Missense_Mutation_p.L865F|CACNA1C_uc001qkn.2_Missense_Mutation_p.L865F|CACNA1C_uc001qko.2_Missense_Mutation_p.L865F|CACNA1C_uc001qkp.2_Missense_Mutation_p.L865F|CACNA1C_uc001qkr.2_Missense_Mutation_p.L865F|CACNA1C_uc001qku.2_Missense_Mutation_p.L865F|CACNA1C_uc001qkq.2_Missense_Mutation_p.L865F|CACNA1C_uc001qks.2_Missense_Mutation_p.L865F|CACNA1C_uc001qkt.2_Missense_Mutation_p.L865F|CACNA1C_uc001qka.1_Missense_Mutation_p.L400F|CACNA1C_uc001qki.1_Missense_Mutation_p.L601F|CACNA1C_uc001qkj.1_Missense_Mutation_p.L601F|CACNA1C_uc001qkk.1_Missense_Mutation_p.L601F|CACNA1C_uc001qkm.1_Missense_Mutation_p.L601F|CACNA1C_uc001qkw.2_Missense_Mutation_p.L154F	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	865	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	ACTCTCTGAGCTTCACCTTAA	0.537													5	33	---	---	---	---	PASS	T	2702441	T	T	2702441	3	4	108	1	0	0	0	0	1	0	0	0	2540	797	28	3	2775	3	CACNA1C	12	2702441	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	8684	2702441	131149454	685	40127										
FKBP4	2288	broad.mit.edu	37	chr12	2906971	2906971	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgccacatcacctgcaaaccAgaatatgcctacggttcagc	7	14	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:2906971A>G	uc001qkz.2	+	3	525	c.327A>G	c.(325-327)CCA>CCG	p.P109P		NM_002014	NP_002005	Q02790	FKBP4_HUMAN	FK506 binding protein 52	109	PPIase FKBP-type 1.				negative regulation of microtubule polymerization or depolymerization|negative regulation of neuron projection development|protein folding	axonal growth cone|cytosol|membrane|microtubule|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity|protein binding, bridging				0			OV - Ovarian serous cystadenocarcinoma(31;0.00105)		Dimethyl sulfoxide(DB01093)	CCTGCAAACCAGAATATGCCT	0.532													14	111	---	---	---	---	PASS	G	2906971	G	G	2906971	2	3	108	1	0	0	0	0	0	0	0	1	5910	175	7	5		5	FKBP4	12	2906971	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	204530	2906971	130944924	686	40128										
VWF	7450	broad.mit.edu	37	chr12	6138553	6138553	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagatgctcaggtggcggtcCcagaccacggagagggcttt	16	10	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:6138553C>A	uc001qnn.1	-	22	3172	c.2922G>T	c.(2920-2922)TGG>TGT	p.W974C	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	974	VWFD 3.				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)	GGTGGCGGTCCCAGACCACGG	0.542													106	52	---	---	---	---	PASS	A	6138553	A	A	6138553	3	1	108	1	0	0	0	0	1	0	0	0	17243	624	22	3	5643	3	VWF	12	6138553	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3231582	6138553	127713342	687	40129										
VWF	7450	broad.mit.edu	37	chr12	6138585	6138585	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagggctttgcccagcagcaGaatgatgtaccggccagact	13	11	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:6138585G>A	uc001qnn.1	-	22	3140	c.2890C>T	c.(2890-2892)CTG>TTG	p.L964L	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	964	VWFD 3.				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)	CCCAGCAGCAGAATGATGTAC	0.547													80	42	---	---	---	---	PASS	A	6138585	A	A	6138585	2	1	108	1	0	0	0	0	0	0	0	1	17243	933	33	2		2	VWF	12	6138585	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	32	6138585	127713310	688	40130										
IFFO1	25900	broad.mit.edu	37	chr12	6649720	6649720	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcttggcggcggcggcgggtCgctaagcgggaccgcagtga	20	11	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:6649720C>A	uc001qpd.1	-	9	1643	c.1609G>T	c.(1609-1611)GAC>TAC	p.D537Y	IFFO1_uc001qoy.2_RNA|IFFO1_uc001qpa.1_Missense_Mutation_p.D177Y|IFFO1_uc001qpb.1_Missense_Mutation_p.D214Y|IFFO1_uc001qpe.1_RNA|IFFO1_uc010sfe.1_Missense_Mutation_p.D549Y|IFFO1_uc001qpf.1_Missense_Mutation_p.D540Y|IFFO1_uc001qoz.1_Missense_Mutation_p.D178Y|IFFO1_uc001qpc.1_Missense_Mutation_p.D541Y|IFFO1_uc001qpg.2_Silent_p.A176A	NM_080730	NP_542768	Q0D2I5	IFFO1_HUMAN	intermediate filament family orphan isoform 2	537						intermediate filament					0						GGCGGCGGGTCGCTAAGCGGG	0.602													3	29	---	---	---	---	PASS	A	6649720	A	A	6649720	3	1	108	1	0	0	0	0	1	0	0	0	7510	884	31	2	74	2	IFFO1	12	6649720	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	511135	6649720	127202175	689	40131										
CD4	920	broad.mit.edu	37	chr12	6925470	6925470	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgctccacctcaccctgcccCaggccttgcctcagtatgct	7	20	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:6925470C>T	uc001qqv.1	+	6	1101	c.856C>T	c.(856-858)CAG>TAG	p.Q286*	CD4_uc009zez.1_3'UTR|CD4_uc009zfa.1_RNA|CD4_uc009zfb.1_RNA|CD4_uc010sfj.1_Nonsense_Mutation_p.Q13*|CD4_uc009zfc.1_Nonsense_Mutation_p.Q107*|CD4_uc010sfk.1_Nonsense_Mutation_p.Q13*|CD4_uc010sfl.1_Nonsense_Mutation_p.Q13*|CD4_uc010sfm.1_Nonsense_Mutation_p.Q13*	NM_000616	NP_000607	P01730	CD4_HUMAN	CD4 antigen precursor	286	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|entry into host cell|immune response|induction by virus of host cell-cell fusion|initiation of viral infection|maintenance of protein location in cell|positive regulation of interleukin-2 biosynthetic process|positive regulation of protein kinase activity|protein palmitoleylation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|T cell selection|transmembrane receptor protein tyrosine kinase signaling pathway	early endosome|endoplasmic reticulum membrane|integral to membrane|T cell receptor complex	coreceptor activity|extracellular matrix structural constituent|glycoprotein binding|MHC class II protein binding|protein homodimerization activity|protein kinase binding|transmembrane receptor activity|zinc ion binding				0		Myeloproliferative disorder(1001;0.0122)				CACCCTGCCCCAGGCCTTGCC	0.552													49	21	---	---	---	---	PASS	T	6925470	T	T	6925470	4	4	108	1	0	0	0	0	0	1	0	0	3014	595	21	3	874	3	CD4	12	6925470	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	275750	6925470	126926425	690	40132										
LPCAT3	10162	broad.mit.edu	37	chr12	7090191	7090191	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggtatctttcctggtatgtCaatcagctctccctgcacca	7	13	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:7090191C>A	uc001qsi.2	-	6	766	c.652G>T	c.(652-654)GAC>TAC	p.D218Y	EMG1_uc010sfv.1_Intron|LPCAT3_uc010sfw.1_Missense_Mutation_p.D112Y|LPCAT3_uc009zfp.2_RNA|LPCAT3_uc010sfx.1_RNA|LPCAT3_uc009zfq.1_Missense_Mutation_p.D76Y	NM_005768	NP_005759	Q6P1A2	MBOA5_HUMAN	lysophosphatidylcholine acyltransferase 3	218					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity			ovary(1)	1						CCTGGTATGTCAATCAGCTCT	0.473													33	175	---	---	---	---	PASS	A	7090191	A	A	7090191	3	1	108	1	0	0	0	0	1	0	0	0	8912	826	29	2	839	2	LPCAT3	12	7090191	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	164721	7090191	126761704	691	40133										
LPCAT3	10162	broad.mit.edu	37	chr12	7090202	7090202	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctggtatgtcaatcagctctCcctgcaccagcttcatgtag	8	13	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:7090202C>T	uc001qsi.2	-	6	755	c.641G>A	c.(640-642)GGA>GAA	p.G214E	EMG1_uc010sfv.1_Intron|LPCAT3_uc010sfw.1_Missense_Mutation_p.G108E|LPCAT3_uc009zfp.2_RNA|LPCAT3_uc010sfx.1_RNA|LPCAT3_uc009zfq.1_Missense_Mutation_p.G72E	NM_005768	NP_005759	Q6P1A2	MBOA5_HUMAN	lysophosphatidylcholine acyltransferase 3	214					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity			ovary(1)	1						AATCAGCTCTCCCTGCACCAG	0.478													22	161	---	---	---	---	PASS	T	7090202	T	T	7090202	3	4	108	1	0	0	0	0	1	0	0	0	8912	855	30	2	850	2	LPCAT3	12	7090202	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	11	7090202	126761693	692	40134										
C3AR1	719	broad.mit.edu	37	chr12	8212271	8212271	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	accaaatttgtagccacatcTattatggttgtctgtagtga	8	7	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:8212271T>A	uc001qtv.1	-	2	603	c.511A>T	c.(511-513)AGA>TGA	p.R171*		NM_004054	NP_004045	Q16581	C3AR_HUMAN	complement component 3a receptor 1	171	Extracellular (Potential).				blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)		TAGCCACATCTATTATGGTTG	0.443													24	85	---	---	---	---	PASS	A	8212271	A	A	8212271	4	1	108	1	0	0	0	0	0	1	0	0	2205	1530	53	5	941	5	C3AR1	12	8212271	Nonsense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	1122069	8212271	125639624	693	40135										
PRH2	5555	broad.mit.edu	37	chr12	11081921	11081921	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgctggccttcagctcagctCaggacttagatgaaggtaag	12	9	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:11081921C>A	uc009zhr.2	+	1	87	c.49C>A	c.(49-51)CAG>AAG	p.Q17K	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH2_uc001qzh.2_Missense_Mutation_p.Q17K|PRH2_uc001qzi.3_Missense_Mutation_p.Q17K	NM_001110213	NP_001103683	P02810	PRPC_HUMAN	proline-rich protein HaeIII subfamily 2	17	Inhibits hydroxyapatite formation, binds to hydroxyapatite and calcium.					extracellular space	protein binding				0						CAGCTCAGCTCAGGACTTAGA	0.517													35	74	---	---	---	---	PASS	A	11081921	A	A	11081921	3	1	108	1	0	0	0	0	1	0	0	0	12483	827	29	2	51	2	PRH2	12	11081921	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2869650	11081921	122769974	694	40136										
LRP6	4040	broad.mit.edu	37	chr12	12303970	12303970	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaagagcaggaaagtcgtagGagcttaaaaggaagaaaaga	14	3	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:12303970G>A	uc001rah.3	-	13	2936	c.2794C>T	c.(2794-2796)CCT>TCT	p.P932S	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.P932S	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	932	Extracellular (Potential).				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				AAAGTCGTAGGAGCTTAAAAG	0.348													7	36	---	---	---	---	PASS	A	12303970	A	A	12303970	3	1	108	1	0	0	0	0	1	0	0	0	8962	1174	41	2	2091	2	LRP6	12	12303970	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1222049	12303970	121547925	695	40137										
GRIN2B	2904	broad.mit.edu	37	chr12	13769432	13769432	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggggactgtgttcctcatgcAggttccactcagagggtcca	13	11	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:13769432A>T	uc001rbt.2	-	5	1464	c.1285T>A	c.(1285-1287)TGC>AGC	p.C429S		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	429	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TTCCTCATGCAGGTTCCACTC	0.517													16	42	---	---	---	---	PASS	T	13769432	T	T	13769432	3	4	108	1	0	0	0	0	1	0	0	0	6780	188	7	5	3205	5	GRIN2B	12	13769432	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	1465462	13769432	120082463	696	40138										
ATF7IP	55729	broad.mit.edu	37	chr12	14577231	14577231	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagtctctaaactgcctgctGaaccagtttctggtgatcca	8	12	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:14577231G>T	uc001rbw.2	+	2	540	c.382G>T	c.(382-384)GAA>TAA	p.E128*	ATF7IP_uc010shs.1_Nonsense_Mutation_p.E128*|ATF7IP_uc001rbu.2_Nonsense_Mutation_p.E128*|ATF7IP_uc001rbv.1_Nonsense_Mutation_p.E128*|ATF7IP_uc001rbx.2_Nonsense_Mutation_p.E128*|ATF7IP_uc010sht.1_Nonsense_Mutation_p.E128*|ATF7IP_uc001rby.3_Nonsense_Mutation_p.E128*|ATF7IP_uc001rbz.1_Nonsense_Mutation_p.E128*|ATF7IP_uc001rca.2_Nonsense_Mutation_p.E128*|ATF7IP_uc001rcb.2_5'Flank	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	128					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						ACTGCCTGCTGAACCAGTTTC	0.483													29	21	---	---	---	---	PASS	T	14577231	T	T	14577231	4	4	108	1	0	0	0	0	0	1	0	0	1087	1291	45	2	384	2	ATF7IP	12	14577231	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	807799	14577231	119274664	697	40139										
ABCC9	10060	broad.mit.edu	37	chr12	21958144	21958144	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	accaaagtggaaaagaggccAttcttgtgggcgagcaaatt	12	7	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:21958144A>C	uc001rfi.1	-	38	4634	c.4614T>G	c.(4612-4614)AAT>AAG	p.N1538K	ABCC9_uc001rfh.2_Intron|ABCC9_uc001rfj.1_Missense_Mutation_p.N1502K|ABCC9_uc001rfg.2_Intron	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1538	Cytoplasmic (Potential).|ABC transporter 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AAAAGAGGCCATTCTTGTGGG	0.433													6	82	---	---	---	---	PASS	C	21958144	C	C	21958144	3	2	108	1	0	0	0	0	1	0	0	0	59	214	8	5	181	5	ABCC9	12	21958144	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	7380913	21958144	111893751	698	40140										
ARNTL2	56938	broad.mit.edu	37	chr12	27553476	27553476	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctttgaattagagcacagaaAattctatactatccattgca	5	8	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:27553476A>G	uc001rht.1	+	10	947	c.929A>G	c.(928-930)AAA>AGA	p.K310R	ARNTL2_uc001rhw.2_Missense_Mutation_p.K273R|ARNTL2_uc010sjp.1_Missense_Mutation_p.K273R|ARNTL2_uc001rhu.1_Missense_Mutation_p.K296R|ARNTL2_uc009zji.1_Missense_Mutation_p.K276R|ARNTL2_uc001rhv.1_Missense_Mutation_p.K262R|uc001rhx.2_Intron	NM_020183	NP_064568	Q8WYA1	BMAL2_HUMAN	aryl hydrocarbon receptor nuclear	310					circadian rhythm|entrainment of circadian clock|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|skin(1)	2	Colorectal(261;0.0847)|Lung SC(9;0.184)					GAGCACAGAAAATTCTATACT	0.289													11	81	---	---	---	---	PASS	G	27553476	G	G	27553476	3	3	108	1	0	0	0	0	1	0	0	0	968	14	1	5	967	5	ARNTL2	12	27553476	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	5595332	27553476	106298419	699	40141										
REP15	387849	broad.mit.edu	37	chr12	27849721	27849721	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaaagggagttgatgagtggCtgaccaccaccaagatgacc	12	9	0	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:27849721C>A	uc001rig.1	+	1	294	c.226C>A	c.(226-228)CTG>ATG	p.L76M		NM_001029874	NP_001025045	Q6BDI9	REP15_HUMAN	RAB15 effector protein	76						early endosome membrane				ovary(1)	1	Lung SC(9;0.0873)					TGATGAGTGGCTGACCACCAC	0.458													47	36	---	---	---	---	PASS	A	27849721	A	A	27849721	3	1	108	1	0	0	0	0	1	0	0	0	13226	796	28	3	228	3	REP15	12	27849721	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	296245	27849721	106002174	700	40142										
PTHLH	5744	broad.mit.edu	37	chr12	28116594	28116594	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctccgaggtagctctgatttCagctgtgtggatttctgcga	12	9	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:28116594C>T	uc001rik.2	-	3	514	c.211G>A	c.(211-213)GAA>AAA	p.E71K	PTHLH_uc001ril.2_Missense_Mutation_p.E71K|PTHLH_uc001rim.2_Missense_Mutation_p.E71K|PTHLH_uc001rin.2_Missense_Mutation_p.E71K	NM_198966	NP_945317	P12272	PTHR_HUMAN	parathyroid hormone-like hormone isoform 1	71					activation of adenylate cyclase activity by G-protein signaling pathway|cAMP metabolic process|cell-cell signaling|epidermis development|female pregnancy|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation	cytoplasm|extracellular space|nucleus	hormone activity|peptide hormone receptor binding			breast(1)	1	Lung SC(9;0.184)					GCTCTGATTTCAGCTGTGTGG	0.517													89	92	---	---	---	---	PASS	T	28116594	T	T	28116594	3	4	108	1	0	0	0	0	1	0	0	0	12761	835	29	2	334	2	PTHLH	12	28116594	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	266873	28116594	105735301	701	40143										
OVCH1	341350	broad.mit.edu	37	chr12	29639211	29639211	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctctggcttccattcacttcTtggacagaactcagggcctt	8	13	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:29639211T>C	uc001rix.1	-	8	963	c.963A>G	c.(961-963)CAA>CAG	p.Q321Q		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	321	CUB 1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					CATTCACTTCTTGGACAGAAC	0.448													25	117	---	---	---	---	PASS	C	29639211	C	C	29639211	2	2	108	1	0	0	0	0	0	0	0	1	11323	1606	56	5		5	OVCH1	12	29639211	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	1522617	29639211	104212684	702	40144										
TMTC1	83857	broad.mit.edu	37	chr12	29659798	29659798	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctatgtttgatccttttctCgaacttcttgtaatcgtttt	6	8	2	1	rs79931373	byFrequency	TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:29659798C>G	uc001rjb.2	-	18	2780	c.2306G>C	c.(2305-2307)CGA>CCA	p.R769P	TMTC1_uc001riz.2_Missense_Mutation_p.R526P|TMTC1_uc001rja.2_Missense_Mutation_p.R613P|TMTC1_uc001riy.2_Missense_Mutation_p.R222P	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	877						integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					ATCCTTTTCTCGAACTTCTTG	0.453													26	124	---	---	---	---	PASS	G	29659798	G	G	29659798	3	3	108	1	0	0	0	0	1	0	0	0	16257	884	31	2	22	2	TMTC1	12	29659798	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	20587	29659798	104192097	703	40145										
C12orf35	55196	broad.mit.edu	37	chr12	32137137	32137137	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggccagcaaactacataccAgacctcagaagatcaaactg	8	12	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:32137137A>T	uc001rks.2	+	4	3662	c.3248A>T	c.(3247-3249)CAG>CTG	p.Q1083L	C12orf35_uc001rkt.2_5'Flank	NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	1083										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			ACTACATACCAGACCTCAGAA	0.408													10	127	---	---	---	---	PASS	T	32137137	T	T	32137137	3	4	108	1	0	0	0	0	1	0	0	0	1682	188	7	5	3250	5	C12orf35	12	32137137	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	2477339	32137137	101714758	704	40146										
PKP2	5318	broad.mit.edu	37	chr12	32974420	32974420	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccacagccactccacgcccTtggggttgctcttttcctcc	8	18	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:32974420T>C	uc001rlj.3	-	10	2130	c.2015A>G	c.(2014-2016)AAG>AGG	p.K672R	PKP2_uc001rlk.3_Missense_Mutation_p.K628R|PKP2_uc010skj.1_Missense_Mutation_p.K625R	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	672	ARM 5.				cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					CTCCACGCCCTTGGGGTTGCT	0.478													9	49	---	---	---	---	PASS	C	32974420	C	C	32974420	3	2	108	1	0	0	0	0	1	0	0	0	11985	1609	56	5	650	5	PKP2	12	32974420	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	837283	32974420	100877475	705	40147										
CNTN1	1272	broad.mit.edu	37	chr12	41327314	41327314	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agttcagttcaaggatgtatAtgcattgatgggccaaaatg	11	5	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:41327314A>T	uc001rmm.1	+	8	868	c.755A>T	c.(754-756)TAT>TTT	p.Y252F	CNTN1_uc009zjy.1_Missense_Mutation_p.Y252F|CNTN1_uc001rmn.1_Missense_Mutation_p.Y241F|CNTN1_uc001rmo.2_Missense_Mutation_p.Y252F	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	252	Ig-like C2-type 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				AAGGATGTATATGCATTGATG	0.303													30	35	---	---	---	---	PASS	T	41327314	T	T	41327314	3	4	108	1	0	0	0	0	1	0	0	0	3640	449	16	5	781	5	CNTN1	12	41327314	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	8352894	41327314	92524581	706	40148										
SLC38A1	81539	broad.mit.edu	37	chr12	46591814	46591814	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cataaattaaactttgttttCttagccagttcaaataaaga	4	6	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:46591814C>G	uc001rpa.2	-	15	1410	c.1152G>C	c.(1150-1152)AAG>AAC	p.K384N	SLC38A1_uc001rpb.2_Missense_Mutation_p.K384N|SLC38A1_uc001rpc.2_Missense_Mutation_p.K384N|SLC38A1_uc001rpd.2_Missense_Mutation_p.K384N|SLC38A1_uc001rpe.2_Missense_Mutation_p.K384N|SLC38A1_uc009zkj.1_Missense_Mutation_p.K384N	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	384	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)			ACTTTGTTTTCTTAGCCAGTT	0.373													9	35	---	---	---	---	PASS	G	46591814	G	G	46591814	3	3	108	1	0	0	0	0	1	0	0	0	14601	912	32	2	323	2	SLC38A1	12	46591814	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5264500	46591814	87260081	707	40149										
ADCY6	112	broad.mit.edu	37	chr12	49176824	49176824	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcgctccagcttggccgaacGgaactgcttcgactggaaca	12	13	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:49176824G>A	uc001rsh.3	-	1	1054	c.394C>T	c.(394-396)CGT>TGT	p.R132C	ADCY6_uc001rsj.3_Missense_Mutation_p.R132C|ADCY6_uc001rsi.3_Missense_Mutation_p.R132C	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	132	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						TTGGCCGAACGGAACTGCTTC	0.667													24	35	---	---	---	---	PASS	A	49176824	A	A	49176824	3	1	108	1	0	0	0	0	1	0	0	0	298	1116	39	1	3196	1	ADCY6	12	49176824	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2585010	49176824	84675071	708	40150										
DDX23	9416	broad.mit.edu	37	chr12	49230475	49230475	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtagtcctcacggaagatCcgccagtccctgtccgtcat	9	15	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:49230475C>G	uc001rsm.2	-	10	1204	c.1113G>C	c.(1111-1113)CGG>CGC	p.R371R		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	371						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6						CACGGAAGATCCGCCAGTCCC	0.527													47	89	---	---	---	---	PASS	G	49230475	G	G	49230475	2	3	108	1	0	0	0	0	0	0	0	1	4350	842	30	2		2	DDX23	12	49230475	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	53651	49230475	84621420	709	40151										
TMBIM6	7009	broad.mit.edu	37	chr12	50149493	50149493	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cacctcatagccatgaaactGaacagaaaagactgggactt	8	10	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:50149493G>T	uc001rux.2	+	4	373	c.241G>T	c.(241-243)GAA>TAA	p.E81*	TMBIM6_uc010sml.1_Nonsense_Mutation_p.E81*|TMBIM6_uc001ruy.2_Nonsense_Mutation_p.E139*|TMBIM6_uc001ruz.2_Nonsense_Mutation_p.E81*	NM_003217	NP_003208	P55061	BI1_HUMAN	testis enhanced gene transcript (BAX inhibitor	81					apoptosis|negative regulation of apoptosis	endoplasmic reticulum|insoluble fraction|integral to plasma membrane|nucleus					0						CCATGAAACTGAACAGAAAAG	0.438													60	85	---	---	---	---	PASS	T	50149493	T	T	50149493	4	4	108	1	0	0	0	0	0	1	0	0	15980	1291	45	2	429	2	TMBIM6	12	50149493	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	919018	50149493	83702402	710	40152										
NCKAP5L	57701	broad.mit.edu	37	chr12	50186285	50186285	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgggcacatgagagggtccgAggagctgccggctgccctag	17	11	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:50186285A>T	uc009zlk.2	-	12	3938	c.3736T>A	c.(3736-3738)TCG>ACG	p.S1246T	NCKAP5L_uc001rvc.3_Missense_Mutation_p.S450T|NCKAP5L_uc001rvb.2_Missense_Mutation_p.S839T	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	1242	Pro-rich.									central_nervous_system(1)	1						AGAGGGTCCGAGGAGCTGCCG	0.622													10	14	---	---	---	---	PASS	T	50186285	T	T	50186285	3	4	108	1	0	0	0	0	1	0	0	0	10224	304	11	5	276	5	NCKAP5L	12	50186285	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	36792	50186285	83665610	711	40153										
GPD1	2819	broad.mit.edu	37	chr12	50498416	50498416	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccagctggcacagtttgaccCacgggtgaccatgtgggtat	13	11	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:50498416C>A	uc001rvz.2	+	2	134	c.101C>A	c.(100-102)CCA>CAA	p.P34Q	GPD1_uc010smp.1_Missense_Mutation_p.P34Q|GPD1_uc001rwa.2_Missense_Mutation_p.P34Q	NM_005276	NP_005267	P21695	GPDA_HUMAN	glycerol-3-phosphate dehydrogenase 1 (soluble)	34					glycerol-3-phosphate catabolic process|triglyceride biosynthetic process	cytosol|glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|protein homodimerization activity				0					NADH(DB00157)	CAGTTTGACCCACGGGTGACC	0.557													76	72	---	---	---	---	PASS	A	50498416	A	A	50498416	3	1	108	1	0	0	0	0	1	0	0	0	6604	594	21	3	107	3	GPD1	12	50498416	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	312131	50498416	83353479	712	40154										
SLC4A8	9498	broad.mit.edu	37	chr12	51851227	51851227	+	Nonsense_Mutation	SNP	C	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttctcaaaaagcatcatcatCagaatgaaaagaagagaaac							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:51851227C>T	uc001rys.1	+	6	845	c.667C>T	c.(667-669)CAG>TAG	p.Q223*	SLC4A8_uc010sni.1_Nonsense_Mutation_p.Q170*|SLC4A8_uc001rym.2_Nonsense_Mutation_p.Q170*|SLC4A8_uc001ryn.2_Nonsense_Mutation_p.Q170*|SLC4A8_uc001ryo.2_Nonsense_Mutation_p.Q170*|SLC4A8_uc001ryp.1_Nonsense_Mutation_p.Q170*|SLC4A8_uc010snj.1_Nonsense_Mutation_p.Q250*|SLC4A8_uc001ryq.3_Nonsense_Mutation_p.Q223*|SLC4A8_uc001ryr.2_Nonsense_Mutation_p.Q223*|SLC4A8_uc010snk.1_Nonsense_Mutation_p.Q170*	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	223	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		GCATCATCATCAGAATGAAAA	0.448													31	74	---	---	---	---	PASS	T	51851227	T	T	51851227	4	4	108	1	0	0	0	0	0	1	0	0	14659	827	29	2	689	2	SLC4A8	12	51851227	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1352811	51851227	82000668	713	40155	752	2								
SLC4A8	9498	broad.mit.edu	37	chr12	51851228	51851228	+	Missense_Mutation	SNP	A	C	C													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctcaaaaagcatcatcatcAgaatgaaaagaagagaaaca							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:51851228A>C	uc001rys.1	+	6	846	c.668A>C	c.(667-669)CAG>CCG	p.Q223P	SLC4A8_uc010sni.1_Missense_Mutation_p.Q170P|SLC4A8_uc001rym.2_Missense_Mutation_p.Q170P|SLC4A8_uc001ryn.2_Missense_Mutation_p.Q170P|SLC4A8_uc001ryo.2_Missense_Mutation_p.Q170P|SLC4A8_uc001ryp.1_Missense_Mutation_p.Q170P|SLC4A8_uc010snj.1_Missense_Mutation_p.Q250P|SLC4A8_uc001ryq.3_Missense_Mutation_p.Q223P|SLC4A8_uc001ryr.2_Missense_Mutation_p.Q223P|SLC4A8_uc010snk.1_Missense_Mutation_p.Q170P	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	223	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		CATCATCATCAGAATGAAAAG	0.448													31	77	---	---	---	---	PASS	C	51851228	C	C	51851228	3	2	108	1	0	0	0	0	1	0	0	0	14659	188	7	5	690	5	SLC4A8	12	51851228	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	1	51851228	82000667	714	40156	752	2								
KRT85	3891	broad.mit.edu	37	chr12	52758919	52758919	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggtagaactgccacttggtCtccagcagcttgttctgctg	11	11	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:52758919C>T	uc001sag.2	-	2	576	c.456G>A	c.(454-456)GAG>GAA	p.E152E		NM_002283	NP_002274	P78386	KRT85_HUMAN	keratin 85	152	Rod.|Coil 1A.				epidermis development	keratin filament	protein binding|structural molecule activity			ovary(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		GCCACTTGGTCTCCAGCAGCT	0.617													25	22	---	---	---	---	PASS	T	52758919	T	T	52758919	2	4	108	1	0	0	0	0	0	0	0	1	8499	912	32	2		2	KRT85	12	52758919	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	907691	52758919	81092976	715	40157										
KRT77	374454	broad.mit.edu	37	chr12	53096844	53096844	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggacaataaggaccaaagccCccaagcccaaaattgctagt	8	12	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:53096844C>G	uc001saw.2	-	1	404	c.375G>C	c.(373-375)GGG>GGC	p.G125G	KRT77_uc009zmi.2_5'UTR	NM_175078	NP_778253	Q7Z794	K2C1B_HUMAN	keratin 77	125	Head.					keratin filament	structural molecule activity			ovary(1)	1						GACCAAAGCCCCCAAGCCCAA	0.577													11	76	---	---	---	---	PASS	G	53096844	G	G	53096844	2	3	108	1	0	0	0	0	0	0	0	1	8490	610	22	4		4	KRT77	12	53096844	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	337925	53096844	80755051	716	40158										
OR6C65	403282	broad.mit.edu	37	chr12	55794480	55794480	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aatattcatttgaaaactccTatgtatttcttcctcaggaa	4	8	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:55794480T>A	uc010spl.1	+	1	168	c.168T>A	c.(166-168)CCT>CCA	p.P56P		NM_001005518	NP_001005518	A6NJZ3	O6C65_HUMAN	olfactory receptor, family 6, subfamily C,	56	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGAAAACTCCTATGTATTTCT	0.313													7	26	---	---	---	---	PASS	A	55794480	A	A	55794480	2	1	108	1	0	0	0	0	0	0	0	1	11195	1509	53	5		5	OR6C65	12	55794480	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	2697636	55794480	78057415	717	40159										
ITGA7	3679	broad.mit.edu	37	chr12	56094770	56094770	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtgccctgctggcagaaccCaaattgttcatggccttggg	12	11	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:56094770C>T	uc001shh.2	-	4	803	c.583G>A	c.(583-585)GGG>AGG	p.G195R	ITGA7_uc001shg.2_Missense_Mutation_p.G195R|ITGA7_uc010sps.1_Missense_Mutation_p.G98R|ITGA7_uc009znx.2_Missense_Mutation_p.G82R	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	195	FG-GAP 3.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						TGGCAGAACCCAAATTGTTCA	0.582													4	53	---	---	---	---	PASS	T	56094770	T	T	56094770	3	4	108	1	0	0	0	0	1	0	0	0	7881	594	21	3	3054	3	ITGA7	12	56094770	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	300290	56094770	77757125	718	40160										
MARS	4141	broad.mit.edu	37	chr12	57910229	57910229	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttatcttagggaaacattgtCcgagaactgaaagcacaaaa	8	7	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:57910229C>T	uc001sog.2	+	21	2591	c.2568C>T	c.(2566-2568)GTC>GTT	p.V856V	MARS_uc001sof.1_RNA|MARS_uc001soh.1_3'UTR	NM_004990	NP_004981	P56192	SYMC_HUMAN	methionyl-tRNA synthetase	856	WHEP-TRS.				methionyl-tRNA aminoacylation	cytosol	ATP binding|methionine-tRNA ligase activity|protein binding|tRNA binding			ovary(3)|central_nervous_system(1)|pancreas(1)	5			GBM - Glioblastoma multiforme(3;4.27e-41)		L-Methionine(DB00134)	GAAACATTGTCCGAGAACTGA	0.483													18	63	---	---	---	---	PASS	T	57910229	T	T	57910229	2	4	108	1	0	0	0	0	0	0	0	1	9316	842	30	2		2	MARS	12	57910229	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1815459	57910229	75941666	719	40161										
TBK1	29110	broad.mit.edu	37	chr12	64854058	64854058	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgagagaatttgaagtgttGaaaaaactcaatcacaaaaa	7	4	2	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:64854058G>T	uc001ssc.1	+	3	239	c.177G>T	c.(175-177)TTG>TTT	p.L59F		NM_013254	NP_037386	Q9UHD2	TBK1_HUMAN	TANK-binding kinase 1	59	Protein kinase.				I-kappaB kinase/NF-kappaB cascade|innate immune response|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription from RNA polymerase II promoter|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|large_intestine(1)|breast(1)	5				GBM - Glioblastoma multiforme(28;0.0386)		TTGAAGTGTTGAAAAAACTCA	0.284													10	42	---	---	---	---	PASS	T	64854058	T	T	64854058	3	4	108	1	0	0	0	0	1	0	0	0	15634	1281	45	2	183	2	TBK1	12	64854058	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	6943829	64854058	68997837	720	40162										
PTPRR	5801	broad.mit.edu	37	chr12	71092078	71092078	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttatagcgatttttagttcCatgacgcggaatatcaattt	7	7	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:71092078C>G	uc001swi.1	-	8	1662	c.1246G>C	c.(1246-1248)GGA>CGA	p.G416R	PTPRR_uc001swh.1_Missense_Mutation_p.G171R|PTPRR_uc009zrs.2_Missense_Mutation_p.G265R|PTPRR_uc010stq.1_Missense_Mutation_p.G304R|PTPRR_uc010str.1_Missense_Mutation_p.G265R	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	416	Tyrosine-protein phosphatase.|Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		TTTTTAGTTCCATGACGCGGA	0.254													4	29	---	---	---	---	PASS	G	71092078	G	G	71092078	3	3	108	1	0	0	0	0	1	0	0	0	12810	603	21	4	755	4	PTPRR	12	71092078	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6238020	71092078	62759817	721	40163										
LRRIQ1	84125	broad.mit.edu	37	chr12	85432046	85432046	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggaaaaagaagacattgagaGtgatgcaaaatcagaaaccc	10	6	1	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:85432046G>T	uc001tac.2	+	2	203	c.92G>T	c.(91-93)AGT>ATT	p.S31I	LRRIQ1_uc001tab.1_Missense_Mutation_p.S31I|TSPAN19_uc009zsj.2_5'Flank|LRRIQ1_uc001taa.1_Missense_Mutation_p.S31I|LRRIQ1_uc001tad.2_5'Flank	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	31										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		GACATTGAGAGTGATGCAAAA	0.373													23	31	---	---	---	---	PASS	T	85432046	T	T	85432046	3	4	108	1	0	0	0	0	1	0	0	0	9029	1029	36	3	94	3	LRRIQ1	12	85432046	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	14339968	85432046	48419849	722	40164										
NT5DC3	51559	broad.mit.edu	37	chr12	104190720	104190720	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcatagtcgatgttgttcttGaggaagtattcattcacgca	9	7	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:104190720G>C	uc010swe.1	-	6	746	c.705C>G	c.(703-705)CTC>CTG	p.L235L		NM_001031701	NP_001026871	Q86UY8	NT5D3_HUMAN	5'-nucleotidase domain containing 3	235							hydrolase activity|metal ion binding			ovary(2)|skin(1)	3						TGTTGTTCTTGAGGAAGTATT	0.478													26	53	---	---	---	---	PASS	C	104190720	C	C	104190720	2	2	108	1	0	0	0	0	0	0	0	1	10692	1277	45	2		2	NT5DC3	12	104190720	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	18758674	104190720	29661175	723	40165										
APPL2	55198	broad.mit.edu	37	chr12	105600901	105600901	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgctttctgtactgcagcgCgttgagggcacagtagtact	12	9	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:105600901C>A	uc001tlf.1	-	8	777	c.559G>T	c.(559-561)GCG>TCG	p.A187S	APPL2_uc010swt.1_Missense_Mutation_p.A144S|APPL2_uc001tlg.1_5'UTR|APPL2_uc010swu.1_Missense_Mutation_p.A193S|APPL2_uc009zuq.2_Missense_Mutation_p.A144S	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH	187	Required for RAB5A binding (By similarity).				cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1						TACTGCAGCGCGTTGAGGGCA	0.567													13	30	---	---	---	---	PASS	A	105600901	A	A	105600901	3	1	108	1	0	0	0	0	1	0	0	0	818	768	27	1	1491	1	APPL2	12	105600901	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1410181	105600901	28250994	724	40166										
NUAK1	9891	broad.mit.edu	37	chr12	106460588	106460588	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgccctggaatgctagttgaGcttgctgcagatctccagcg	12	12	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:106460588G>C	uc001tlj.1	-	7	3358	c.1978C>G	c.(1978-1980)CTC>GTC	p.L660V		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	660							ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						TGCTAGTTGAGCTTGCTGCAG	0.612													9	91	---	---	---	---	PASS	C	106460588	C	C	106460588	3	2	108	1	0	0	0	0	1	0	0	0	10712	971	34	4	11	4	NUAK1	12	106460588	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	859687	106460588	27391307	725	40167										
POLR3B	55703	broad.mit.edu	37	chr12	106824224	106824224	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccatctcagtggggaatgctGtgtccttcggacactcctga	11	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:106824224G>A	uc001tlp.2	+	14	1659	c.1437G>A	c.(1435-1437)CTG>CTA	p.L479L	POLR3B_uc001tlq.2_Silent_p.L421L	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	479					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						GGGGAATGCTGTGTCCTTCGG	0.522													26	43	---	---	---	---	PASS	A	106824224	A	A	106824224	2	1	108	1	0	0	0	0	0	0	0	1	12229	1364	48	3		3	POLR3B	12	106824224	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	363636	106824224	27027671	726	40168										
CMKLR1	1240	broad.mit.edu	37	chr12	108685783	108685783	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aacttcttgaagtcctgaccCatgaaaacatacagaatggg	8	9	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:108685783C>A	uc009zuw.2	-	3	1148	c.957G>T	c.(955-957)ATG>ATT	p.M319I	CMKLR1_uc001tmw.2_Missense_Mutation_p.M319I|CMKLR1_uc001tmv.2_Missense_Mutation_p.M317I|CMKLR1_uc009zuv.2_Missense_Mutation_p.M319I	NM_001142345	NP_001135817	Q99788	CML1_HUMAN	chemokine-like receptor 1 isoform a	319	Helical; Name=7; (Potential).				chemotaxis|immune response|negative regulation of interleukin-12 production|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage chemotaxis|regulation of calcium-mediated signaling|skeletal system development	integral to plasma membrane	chemokine receptor activity			lung(3)|ovary(1)|pancreas(1)	5						AGTCCTGACCCATGAAAACAT	0.537													23	33	---	---	---	---	PASS	A	108685783	A	A	108685783	3	1	108	1	0	0	0	0	1	0	0	0	3579	594	21	3	168	3	CMKLR1	12	108685783	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1861559	108685783	25166112	727	40169										
MYO1H	283446	broad.mit.edu	37	chr12	109843825	109843825	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atcccagacacccatgagatCaagtggatagccaaggtgat	10	10	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:109843825C>T	uc010sxn.1	+	7	900	c.900C>T	c.(898-900)ATC>ATT	p.I300I		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						CCCATGAGATCAAGTGGATAG	0.522													16	23	---	---	---	---	PASS	T	109843825	T	T	109843825	2	4	108	1	0	0	0	0	0	0	0	1	10075	816	29	2		2	MYO1H	12	109843825	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1158042	109843825	24008070	728	40170										
C12orf76	400073	broad.mit.edu	37	chr12	110495092	110495092	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcagcaaagttcctctccccCttacagctcctaaggttcca	5	16	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:110495092C>T	uc001tqd.1	-	4	566	c.201G>A	c.(199-201)AAG>AAA	p.K67K	C12orf76_uc001tqe.1_RNA|C12orf76_uc010sxx.1_RNA|uc001tqf.1_Intron	NM_207435	NP_997318	Q8N812	CL076_HUMAN	hypothetical protein LOC400073	67										large_intestine(1)	1						TCCTCTCCCCCTTACAGCTCC	0.522													4	12	---	---	---	---	PASS	T	110495092	T	T	110495092	2	4	108	1	0	0	0	0	0	0	0	1	1715	680	24	3		3	C12orf76	12	110495092	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	651267	110495092	23356803	729	40171										
C12orf51	283450	broad.mit.edu	37	chr12	112654880	112654880	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcatagataaaagtgccccgGggcaggcctcccccagcgct	12	15	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:112654880G>A	uc009zwc.2	-	39	5946	c.5928C>T	c.(5926-5928)CCC>CCT	p.P1976P	C12orf51_uc001ttr.1_Silent_p.P151P	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						AAGTGCCCCGGGGCAGGCCTC	0.547													10	17	---	---	---	---	PASS	A	112654880	A	A	112654880	2	1	108	1	0	0	0	0	0	0	0	1	1696	1219	43	3		3	C12orf51	12	112654880	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2159788	112654880	21197015	730	40172										
TBX3	6926	broad.mit.edu	37	chr12	115114170	115114170	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctggagaagaagcctgggcGaagcagttgaaagctgcttg	16	7	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:115114170G>A	uc001tvt.1	-	6	2011	c.1047C>T	c.(1045-1047)TTC>TTT	p.F349F	TBX3_uc001tvu.1_Silent_p.F329F	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	349					anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		AAGCCTGGGCGAAGCAGTTGA	0.527													15	48	---	---	---	---	PASS	A	115114170	A	A	115114170	2	1	108	1	0	0	0	0	0	0	0	1	15656	1049	37	2		2	TBX3	12	115114170	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2459290	115114170	18737725	731	40173										
TBX3	6926	broad.mit.edu	37	chr12	115120647	115120647	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggtaatgaccatctcggtgCcccgcttgtgaaactgatcc	10	12	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:115120647C>A	uc001tvt.1	-	1	1323	c.359G>T	c.(358-360)GGC>GTC	p.G120V	TBX3_uc001tvu.1_Missense_Mutation_p.G120V|TBX3_uc010syw.1_Missense_Mutation_p.G120V	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	120	T-box; first part.				anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		CATCTCGGTGCCCCGCTTGTG	0.547													13	30	---	---	---	---	PASS	A	115120647	A	A	115120647	3	1	108	1	0	0	0	0	1	0	0	0	15656	739	26	3	1904	3	TBX3	12	115120647	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6477	115120647	18731248	732	40174										
HSPB8	26353	broad.mit.edu	37	chr12	119624881	119624881	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cattgtttctaagaacttcaCaaagaaaatccagtaagtaa	5	7	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:119624881C>A	uc001txb.2	+	2	942	c.419C>A	c.(418-420)ACA>AAA	p.T140K	HSPB8_uc001txc.2_Intron	NM_014365	NP_055180	Q9UJY1	HSPB8_HUMAN	heat shock 22kDa protein 8	140					cell death|response to heat	cytoplasm|nucleus	identical protein binding|protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AAGAACTTCACAAAGAAAATC	0.507													31	35	---	---	---	---	PASS	A	119624881	A	A	119624881	3	1	108	1	0	0	0	0	1	0	0	0	7423	478	17	3	425	3	HSPB8	12	119624881	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4504234	119624881	14227014	733	40175										
DNAH10	196385	broad.mit.edu	37	chr12	124303771	124303771	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttttacagtgaaggccctgGttctgttggtgatgatcttg	12	6	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:124303771G>T	uc001uft.3	+	22	3645	c.3620G>T	c.(3619-3621)GGT>GTT	p.G1207V		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1207	Stem (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)		GAAGGCCCTGGTTCTGTTGGT	0.388													12	4	---	---	---	---	PASS	T	124303771	T	T	124303771	3	4	108	1	0	0	0	0	1	0	0	0	4598	1261	44	3	3706	3	DNAH10	12	124303771	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4678890	124303771	9548124	734	40176										
TMEM132B	114795	broad.mit.edu	37	chr12	126138695	126138695	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gacctcacagtgacctcaagGgggctaacggacttggagat	13	10	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:126138695G>C	uc001uhe.1	+	9	2684	c.2676G>C	c.(2674-2676)AGG>AGC	p.R892S	TMEM132B_uc001uhf.1_Missense_Mutation_p.R404S	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	892	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		TGACCTCAAGGGGGCTAACGG	0.512													14	48	---	---	---	---	PASS	C	126138695	C	C	126138695	3	2	108	1	0	0	0	0	1	0	0	0	16043	1223	43	4	2710	4	TMEM132B	12	126138695	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1834924	126138695	7713200	735	40177										
TMEM132D	121256	broad.mit.edu	37	chr12	129559279	129559279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgttttccatgtgaacccctGcccctgtgtgtctgctgtca	9	13	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr12:129559279G>T	uc009zyl.1	-	9	2769	c.2441C>A	c.(2440-2442)GCA>GAA	p.A814E	TMEM132D_uc001uia.2_Missense_Mutation_p.A352E	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	814	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GTGAACCCCTGCCCCTGTGTG	0.488													9	58	---	---	---	---	PASS	T	129559279	T	T	129559279	3	4	108	1	0	0	0	0	1	0	0	0	16044	1319	46	3	862	3	TMEM132D	12	129559279	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3420584	129559279	4292616	736	40178										
IFT88	8100	broad.mit.edu	37	chr13	21189974	21189974	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attatgacatctgcaaaactCattgctcctgtaattgaaac	5	9	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:21189974C>G	uc001unh.2	+	16	1578	c.1182C>G	c.(1180-1182)CTC>CTG	p.L394L	IFT88_uc001uni.2_Silent_p.L385L|IFT88_uc001unj.2_Silent_p.L384L|IFT88_uc010tcq.1_Silent_p.L365L|IFT88_uc001unk.2_Silent_p.L140L|IFT88_uc001unl.1_Silent_p.L12L	NM_175605	NP_783195	Q13099	IFT88_HUMAN	intraflagellar transport 88 homolog isoform 1	394					cilium morphogenesis	centriole|intraflagellar transport particle B|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(29;5.79e-25)|all_epithelial(30;2.57e-20)|all_lung(29;3.13e-16)|Lung SC(185;0.0262)|Ovarian(182;0.0825)|Hepatocellular(188;0.244)		all cancers(112;0.000667)|Epithelial(112;0.00119)|OV - Ovarian serous cystadenocarcinoma(117;0.0141)|Lung(94;0.0183)|LUSC - Lung squamous cell carcinoma(192;0.0528)		CTGCAAAACTCATTGCTCCTG	0.284													6	19	---	---	---	---	PASS	G	21189974	G	G	21189974	2	3	108	1	0	0	0	0	0	0	0	1	7566	813	29	2		2	IFT88	13	21189974	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08		21189974	93979904	737	40179										
IFT88	8100	broad.mit.edu	37	chr13	21219051	21219051	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctattacattgacacccaaTtttgggaaaaagctattcag	6	9	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:21219051T>A	uc001unh.2	+	22	2326	c.1930T>A	c.(1930-1932)TTT>ATT	p.F644I	IFT88_uc001uni.2_Missense_Mutation_p.F635I|IFT88_uc001unj.2_Missense_Mutation_p.F634I|IFT88_uc010tcq.1_Missense_Mutation_p.F615I	NM_175605	NP_783195	Q13099	IFT88_HUMAN	intraflagellar transport 88 homolog isoform 1	644	TPR 11.				cilium morphogenesis	centriole|intraflagellar transport particle B|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(29;5.79e-25)|all_epithelial(30;2.57e-20)|all_lung(29;3.13e-16)|Lung SC(185;0.0262)|Ovarian(182;0.0825)|Hepatocellular(188;0.244)		all cancers(112;0.000667)|Epithelial(112;0.00119)|OV - Ovarian serous cystadenocarcinoma(117;0.0141)|Lung(94;0.0183)|LUSC - Lung squamous cell carcinoma(192;0.0528)		TGACACCCAATTTTGGGAAAA	0.303													9	39	---	---	---	---	PASS	A	21219051	A	A	21219051	3	1	108	1	0	0	0	0	1	0	0	0	7566	1493	52	5	2008	5	IFT88	13	21219051	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	29077	21219051	93950827	738	40180										
LATS2	26524	broad.mit.edu	37	chr13	21562336	21562336	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtccaggtcgtactgctccGacttgctgcgcagcagcagg	13	13	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:21562336G>A	uc009zzs.2	-	4	1948	c.1583C>T	c.(1582-1584)TCG>TTG	p.S528L	LATS2_uc001unr.3_Missense_Mutation_p.S528L	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	528					cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		GTACTGCTCCGACTTGCTGCG	0.716													9	14	---	---	---	---	PASS	A	21562336	A	A	21562336	3	1	108	1	0	0	0	0	1	0	0	0	8647	1059	37	2	1703	2	LATS2	13	21562336	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	343285	21562336	93607542	739	40181										
CENPJ	55835	broad.mit.edu	37	chr13	25480240	25480240	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcacactcactctccttctCacgtgcagtgtggtccaaat	6	14	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:25480240C>T	uc001upt.3	-	7	2189	c.1936G>A	c.(1936-1938)GAG>AAG	p.E646K	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA|CENPJ_uc001upu.2_5'Flank	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	646					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		CTCTCCTTCTCACGTGCAGTG	0.488													5	35	---	---	---	---	PASS	T	25480240	T	T	25480240	3	4	108	1	0	0	0	0	1	0	0	0	3234	835	29	2	2124	2	CENPJ	13	25480240	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3917904	25480240	89689638	740	40182										
FLT1	2321	broad.mit.edu	37	chr13	29001924	29001924	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggcagtgaggtttttaaacAcatttgactgttttatgctc	9	6	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:29001924A>G	uc001usb.3	-	9	1526	c.1241T>C	c.(1240-1242)GTG>GCG	p.V414A	FLT1_uc010aar.1_Missense_Mutation_p.V414A|FLT1_uc001usc.3_Missense_Mutation_p.V414A|FLT1_uc010tdp.1_Missense_Mutation_p.V414A	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	414	Ig-like C2-type 4.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	GTTTTTAAACACATTTGACTG	0.378													12	44	---	---	---	---	PASS	G	29001924	G	G	29001924	3	3	108	1	0	0	0	0	1	0	0	0	5941	159	6	5	3126	5	FLT1	13	29001924	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	3521684	29001924	86167954	741	40183										
TRPC4	7223	broad.mit.edu	37	chr13	38213200	38213200	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaagttctcttcggtcaggcCttcttcagttttagcatctc	7	11	5	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:38213200C>A	uc001uws.2	-	10	2423	c.2188G>T	c.(2188-2190)GGC>TGC	p.G730C	TRPC4_uc010abv.2_Missense_Mutation_p.G310C|TRPC4_uc001uwt.2_Missense_Mutation_p.G730C|TRPC4_uc010tey.1_Missense_Mutation_p.V730F|TRPC4_uc010abw.2_Missense_Mutation_p.G557C|TRPC4_uc010abx.2_Missense_Mutation_p.G735C|TRPC4_uc010aby.2_Missense_Mutation_p.G665C	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	730	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		TCGGTCAGGCCTTCTTCAGTT	0.398													16	88	---	---	---	---	PASS	A	38213200	A	A	38213200	3	1	108	1	0	0	0	0	1	0	0	0	16577	695	24	3	753	3	TRPC4	13	38213200	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	9211276	38213200	76956678	742	40184										
FREM2	341640	broad.mit.edu	37	chr13	39264956	39264956	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccataaaggggtggaacctGtggaggaccgatttgtattt	13	6	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:39264956G>T	uc001uwv.2	+	1	3784	c.3475G>T	c.(3475-3477)GTG>TTG	p.V1159L		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1159	Extracellular (Potential).|CSPG 7.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GGTGGAACCTGTGGAGGACCG	0.443													10	59	---	---	---	---	PASS	T	39264956	T	T	39264956	3	4	108	1	0	0	0	0	1	0	0	0	6045	1377	48	3	3477	3	FREM2	13	39264956	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1051756	39264956	75904922	743	40185										
FREM2	341640	broad.mit.edu	37	chr13	39266606	39266606	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggcccctcaacatggatatCttctcaacctggacaaaggc	8	13	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:39266606C>G	uc001uwv.2	+	1	5434	c.5125C>G	c.(5125-5127)CTT>GTT	p.L1709V		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1709	Extracellular (Potential).|CSPG 12.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		ACATGGATATCTTCTCAACCT	0.423													19	73	---	---	---	---	PASS	G	39266606	G	G	39266606	3	3	108	1	0	0	0	0	1	0	0	0	6045	913	32	2	5127	2	FREM2	13	39266606	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1650	39266606	75903272	744	40186										
SLC25A15	10166	broad.mit.edu	37	chr13	41379369	41379369	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtatgagatggagacatcaGggaagatagccaagagccag	14	6	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:41379369G>C	uc001uxn.2	+	4	752	c.430G>C	c.(430-432)GGG>CGG	p.G144R	SUGT1L1_uc001uxp.1_Intron|SLC25A15_uc010tfb.1_Missense_Mutation_p.G50R|SUGT1L1_uc001uxo.1_Intron	NM_014252	NP_055067	Q9Y619	ORNT1_HUMAN	mitochondrial ornithine transporter 1	144	Solcar 2.				cellular amino acid metabolic process|mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity				0		Lung NSC(96;3.55e-06)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;1.48e-08)|Epithelial(112;7.51e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000191)|GBM - Glioblastoma multiforme(144;0.00231)|BRCA - Breast invasive adenocarcinoma(63;0.0704)	L-Ornithine(DB00129)	GGAGACATCAGGGAAGATAGC	0.517													6	31	---	---	---	---	PASS	C	41379369	C	C	41379369	3	2	108	1	0	0	0	0	1	0	0	0	14477	1000	35	4	440	4	SLC25A15	13	41379369	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2112763	41379369	73790509	745	40187										
PCDH17	27253	broad.mit.edu	37	chr13	58207038	58207038	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggagatctgcatgatcaagGtagagatccaggacatcaac	11	8	3	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:58207038G>T	uc001vhq.1	+	1	1250	c.358G>T	c.(358-360)GTA>TTA	p.V120L	PCDH17_uc010aec.1_Missense_Mutation_p.V120L	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	120	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CATGATCAAGGTAGAGATCCA	0.602													7	15	---	---	---	---	PASS	T	58207038	T	T	58207038	3	4	108	1	0	0	0	0	1	0	0	0	11512	1261	44	3	360	3	PCDH17	13	58207038	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	16827669	58207038	56962840	746	40188										
PCDH9	5101	broad.mit.edu	37	chr13	66879051	66879051	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggagatttggggtgttgataTggacccaagccaggaggcat	16	6	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:66879051T>A	uc001vik.2	-	5	4142	c.3450A>T	c.(3448-3450)CCA>CCT	p.P1150P	PCDH9_uc010aei.2_RNA|PCDH9_uc001vil.2_Silent_p.P1116P|PCDH9_uc010thl.1_Silent_p.P1108P	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	1150	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GGTGTTGATATGGACCCAAGC	0.517													14	44	---	---	---	---	PASS	A	66879051	A	A	66879051	2	1	108	1	0	0	0	0	0	0	0	1	11518	1451	51	5		5	PCDH9	13	66879051	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	8672013	66879051	48290827	747	40189										
MYCBP2	23077	broad.mit.edu	37	chr13	77739409	77739409	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaagataattcattcttaccTcatcaggtccagggctaaat	6	9	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:77739409T>A	uc001vkf.2	-	43	6435	c.6344A>T	c.(6343-6345)GAG>GTG	p.E2115V	MYCBP2_uc010aev.2_Missense_Mutation_p.E1519V	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2115					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CATTCTTACCTCATCAGGTCC	0.353													11	30	---	---	---	---	PASS	A	77739409	A	A	77739409	3	1	108	1	0	0	0	0	1	0	0	0	10018	1565	54	5	7746	5	MYCBP2	13	77739409	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	10860358	77739409	37430469	748	40190										
CLDN10	9071	broad.mit.edu	37	chr13	96086270	96086270	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcgttgggttctttccattgCcgaccgcattttactatctt	8	11	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:96086270C>T	uc001vmg.2	+	1	418	c.183C>T	c.(181-183)TGC>TGT	p.C61C	CLDN10_uc010tii.1_Intron	NM_182848	NP_878268	P78369	CLD10_HUMAN	claudin 10 isoform a	63	Extracellular (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.18)			CTTTCCATTGCCGACCGCATT	0.493													10	32	---	---	---	---	PASS	T	96086270	T	T	96086270	2	4	108	1	0	0	0	0	0	0	0	1	3472	747	26	3		3	CLDN10	13	96086270	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	18346861	96086270	19083608	749	40191										
TM9SF2	9375	broad.mit.edu	37	chr13	100181719	100181719	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttccacttccttttaatacAgtttacgtttaataagaagg	5	7	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:100181719A>T	uc001voj.1	+	4	467	c.334_splice	c.e4-2	p.F112_splice	TM9SF2_uc010afz.1_Intron	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor						transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)					CTTTTAATACAGTTTACGTTT	0.303													3	19	---	---	---	---	PASS	T	100181719	T	T	100181719	5	4	108	1	0	0	0	0	0	0	1	0	15975	202	7	5	346	5	TM9SF2	13	100181719	Splice_Site	SNP	A	TCGA-46-3769-01A-01D-0983-08	4095449	100181719	14988159	750	40192										
PCCA	5095	broad.mit.edu	37	chr13	100925585	100925585	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aatttttatttcttggaaatGaatacaagactccaggtaac	6	6	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:100925585G>C	uc001voo.2	+	12	1088	c.1050G>C	c.(1048-1050)ATG>ATC	p.M350I	PCCA_uc010aga.2_Missense_Mutation_p.M324I|PCCA_uc010tiz.1_Missense_Mutation_p.M350I	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	350	ATP-grasp.|Biotin carboxylation.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	TCTTGGAAATGAATACAAGAC	0.388													7	9	---	---	---	---	PASS	C	100925585	C	C	100925585	3	2	108	1	0	0	0	0	1	0	0	0	11504	1290	45	2	1096	2	PCCA	13	100925585	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	743866	100925585	14244293	751	40193										
PROZ	8858	broad.mit.edu	37	chr13	113814408	113814408	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atcttctggaagaactcttcGagggaaacttggaaaaagaa	10	6	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr13:113814408G>A	uc001vta.1	+	2	158	c.151G>A	c.(151-153)GAG>AAG	p.E51K	PROZ_uc010agr.1_Missense_Mutation_p.E73K	NM_003891	NP_003882	P22891	PROZ_HUMAN	protein Z, vitamin K-dependent plasma	51	Gla.				blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.216)	all cancers(43;0.104)		Menadione(DB00170)	AGAACTCTTCGAGGGAAACTT	0.458													34	77	---	---	---	---	PASS	A	113814408	A	A	113814408	3	1	108	1	0	0	0	0	1	0	0	0	12562	1059	37	2	157	2	PROZ	13	113814408	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	12888823	113814408	1355470	752	40194										
POTEG	404785	broad.mit.edu	37	chr14	19553804	19553804	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acgacgacagcgctttcatgGagccgaggtaccacgtccgt	12	13	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:19553804G>T	uc001vuz.1	+	1	440	c.388G>T	c.(388-390)GAG>TAG	p.E130*	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	130										ovary(1)	1						CGCTTTCATGGAGCCGAGGTA	0.592													13	317	---	---	---	---	PASS	T	19553804	T	T	19553804	4	4	108	1	0	0	0	0	0	1	0	0	12266	1175	41	2	390	2	POTEG	14	19553804	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08		19553804	87795736	753	40195										
POTEG	404785	broad.mit.edu	37	chr14	19563531	19563531	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagagtatgctgtttctagtCatcataatgtgtaagtgttt	10	4	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:19563531C>A	uc001vuz.1	+	5	1097	c.1045C>A	c.(1045-1047)CAT>AAT	p.H349N	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA|uc001vvb.2_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	349				H -> R (in Ref. 1; AAS58868/AAS58871).						ovary(1)	1						TGTTTCTAGTCATCATAATGT	0.353													15	174	---	---	---	---	PASS	A	19563531	A	A	19563531	3	1	108	1	0	0	0	0	1	0	0	0	12266	826	29	2	1063	2	POTEG	14	19563531	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	9727	19563531	87786009	754	40196										
OR4M1	441670	broad.mit.edu	37	chr14	20249222	20249222	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acctgctattcccacattacCattgtggtgctaatgtttgg	8	10	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:20249222C>A	uc010tku.1	+	1	741	c.741C>A	c.(739-741)ACC>ACA	p.T247T		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	247	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)		CCCACATTACCATTGTGGTGC	0.438													9	104	---	---	---	---	PASS	A	20249222	A	A	20249222	2	1	108	1	0	0	0	0	0	0	0	1	11075	581	21	3		3	OR4M1	14	20249222	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	685691	20249222	87100318	755	40197										
OR4N2	390429	broad.mit.edu	37	chr14	20296240	20296240	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgatgacactcctgtgcttTctggggcttctggcctccta	10	13	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:20296240T>A	uc010tkv.1	+	1	633	c.633T>A	c.(631-633)TTT>TTA	p.F211L		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	211	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCCTGTGCTTTCTGGGGCTTC	0.517													9	63	---	---	---	---	PASS	A	20296240	A	A	20296240	3	1	108	1	0	0	0	0	1	0	0	0	11077	1780	62	5	635	5	OR4N2	14	20296240	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	47018	20296240	87053300	756	40198										
OR4K15	81127	broad.mit.edu	37	chr14	20444459	20444459	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgcaagcatggcgaaggcccGctccacattgactgctcaca	10	14	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:20444459G>T	uc010tkx.1	+	1	782	c.782G>T	c.(781-783)CGC>CTC	p.R261L		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	261	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GCGAAGGCCCGCTCCACATTG	0.463													15	38	---	---	---	---	PASS	T	20444459	T	T	20444459	3	4	108	1	0	0	0	0	1	0	0	0	11070	1087	38	1	784	1	OR4K15	14	20444459	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	148219	20444459	86905081	757	40199										
OR4K13	390433	broad.mit.edu	37	chr14	20502373	20502373	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggcaagtttaatcacaaggGgaaggtcacagaaaaagctg	12	6	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:20502373G>T	uc010tkz.1	-	1	545	c.545C>A	c.(544-546)CCC>CAC	p.P182H		NM_001004714	NP_001004714	Q8NH42	OR4KD_HUMAN	olfactory receptor, family 4, subfamily K,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		AATCACAAGGGGAAGGTCACA	0.473													5	84	---	---	---	---	PASS	T	20502373	T	T	20502373	3	4	108	1	0	0	0	0	1	0	0	0	11068	1232	43	3	371	3	OR4K13	14	20502373	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	57914	20502373	86847167	758	40200										
MYH6	4624	broad.mit.edu	37	chr14	23874503	23874503	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggcctcactcctcttcttgCcccggtaggcggccaccacc	10	19	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:23874503C>G	uc001wjv.2	-	5	498	c.431G>C	c.(430-432)GGC>GCC	p.G144A	MYH6_uc010akp.1_Missense_Mutation_p.G144A	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	144	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CCTCTTCTTGCCCCGGTAGGC	0.612													30	35	---	---	---	---	PASS	G	23874503	G	G	23874503	3	3	108	1	0	0	0	0	1	0	0	0	10038	739	26	4	5528	4	MYH6	14	23874503	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3372130	23874503	83475037	759	40201										
MYH6	4624	broad.mit.edu	37	chr14	23874944	23874944	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgtcgaacttgggtgggttCtgctgcaacacctggtcctc	12	11	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:23874944C>G	uc001wjv.2	-	4	304	c.237G>C	c.(235-237)CAG>CAC	p.Q79H	MYH6_uc010akp.1_Missense_Mutation_p.Q79H	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	79	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TGGGTGGGTTCTGCTGCAACA	0.602													17	85	---	---	---	---	PASS	G	23874944	G	G	23874944	3	3	108	1	0	0	0	0	1	0	0	0	10038	912	32	2	5726	2	MYH6	14	23874944	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	441	23874944	83474596	760	40202										
RABGGTA	5875	broad.mit.edu	37	chr14	24735655	24735655	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cggttgttgcacagtagcagCtcctgcagccggggtaggtt	15	10	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:24735655C>A	uc001wof.2	-	15	1958	c.1536G>T	c.(1534-1536)GAG>GAT	p.E512D	RABGGTA_uc001woe.2_RNA|RABGGTA_uc001wog.2_Missense_Mutation_p.E512D|RABGGTA_uc001woh.2_RNA|RABGGTA_uc001woi.2_RNA	NM_004581	NP_004572	Q92696	PGTA_HUMAN	Rab geranylgeranyltransferase alpha	512	LRR 4.				visual perception		Rab geranylgeranyltransferase activity|zinc ion binding				0				GBM - Glioblastoma multiforme(265;0.0184)		ACAGTAGCAGCTCCTGCAGCC	0.612													8	61	---	---	---	---	PASS	A	24735655	A	A	24735655	3	1	108	1	0	0	0	0	1	0	0	0	12967	796	28	3	175	3	RABGGTA	14	24735655	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	860711	24735655	82613885	761	40203										
FOXG1	2290	broad.mit.edu	37	chr14	29237355	29237355	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctggccttcaagcgcggtgcGcgcctcacctccaccggcct	11	19	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:29237355G>C	uc001wqe.2	+	1	1069	c.870G>C	c.(868-870)GCG>GCC	p.A290A		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	290				FKRGAR -> AFRWCA (in Ref. 1; CAA52241).	axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		AGCGCGGTGCGCGCCTCACCT	0.716													6	37	---	---	---	---	PASS	C	29237355	C	C	29237355	2	2	108	1	0	0	0	0	0	0	0	1	6007	1074	38	4		4	FOXG1	14	29237355	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	4501700	29237355	78112185	762	40204										
PRKD1	5587	broad.mit.edu	37	chr14	30100056	30100056	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cacatctgcaccaacgccacTggtgagaacactgttatttg	8	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:30100056T>A	uc001wqh.2	-	10	1745	c.1564A>T	c.(1564-1566)AGT>TGT	p.S522C		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	522	PH.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		CCAACGCCACTGGTGAGAACA	0.502													51	48	---	---	---	---	PASS	A	30100056	A	A	30100056	3	1	108	1	0	0	0	0	1	0	0	0	12518	1580	55	5	1210	5	PRKD1	14	30100056	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	862701	30100056	77249484	763	40205										
NPAS3	64067	broad.mit.edu	37	chr14	34270285	34270285	+	Frame_Shift_Del	DEL	G	-	-													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tacagcaacggcatccacgcGgcacagactctggagcgcaa							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:34270285delG	uc001wru.2	+	12	2836	c.2772delG	c.(2770-2772)GCGfs	p.A924fs	NPAS3_uc001wrs.2_Frame_Shift_Del_p.A911fs|NPAS3_uc001wrt.2_Frame_Shift_Del_p.A892fs|NPAS3_uc001wrv.2_Frame_Shift_Del_p.A894fs	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	924					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		GCATCCACGCGGCACAGACTC	0.667													6	3	---	---	---	---		-	34270285	-	-	34270285	7	5	108	1	0	1	0	1	0	0	0	0	10564	1103	39	0	2873	0	NPAS3	14	34270285	Frame_Shift_Del	DEL	G	TCGA-46-3769-01A-01D-0983-08	4170229	34270285	73079255	764	40206										
EGLN3	112399	broad.mit.edu	37	chr14	34419656	34419656	+	Silent	SNP	C	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cggctcccgcagtagaggacCagcctgtcgatgagggacag							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:34419656C>A	uc001wsa.3	-	1	629	c.303G>T	c.(301-303)CTG>CTT	p.L101L	EGLN3_uc001wry.2_Intron|EGLN3_uc001wrz.2_Silent_p.L101L|EGLN3_uc001wsb.1_Silent_p.L101L	NM_022073	NP_071356	Q9H6Z9	EGLN3_HUMAN	egl nine homolog 3	101					apoptosis	cytoplasm|nucleus	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|protein binding				0	Breast(36;0.0303)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.000246)|Lung(238;0.000959)|Epithelial(34;0.155)	GBM - Glioblastoma multiforme(112;0.0118)	Vitamin C(DB00126)	AGTAGAGGACCAGCCTGTCGA	0.667													8	23	---	---	---	---	PASS	A	34419656	A	A	34419656	2	1	108	1	0	0	0	0	0	0	0	1	4970	581	21	3		3	EGLN3	14	34419656	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	149371	34419656	72929884	765	40207	753	2								
EGLN3	112399	broad.mit.edu	37	chr14	34419657	34419657	+	Missense_Mutation	SNP	A	G	G													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggctcccgcagtagaggaccAgcctgtcgatgagggacagg							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:34419657A>G	uc001wsa.3	-	1	628	c.302T>C	c.(301-303)CTG>CCG	p.L101P	EGLN3_uc001wry.2_Intron|EGLN3_uc001wrz.2_Missense_Mutation_p.L101P|EGLN3_uc001wsb.1_Missense_Mutation_p.L101P	NM_022073	NP_071356	Q9H6Z9	EGLN3_HUMAN	egl nine homolog 3	101					apoptosis	cytoplasm|nucleus	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|protein binding				0	Breast(36;0.0303)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.000246)|Lung(238;0.000959)|Epithelial(34;0.155)	GBM - Glioblastoma multiforme(112;0.0118)	Vitamin C(DB00126)	GTAGAGGACCAGCCTGTCGAT	0.667													9	22	---	---	---	---	PASS	G	34419657	G	G	34419657	3	3	108	1	0	0	0	0	1	0	0	0	4970	188	7	5	437	5	EGLN3	14	34419657	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	1	34419657	72929883	766	40208	753	2								
CFL2	1073	broad.mit.edu	37	chr14	35182474	35182474	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acacaccagaatataaatacTaggtcttctttcttagactc	4	10	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:35182474T>C	uc001wsg.3	-	2	438	c.297A>G	c.(295-297)CTA>CTG	p.L99L	CFL2_uc010tpn.1_Silent_p.L82L|CFL2_uc001wsh.3_Silent_p.L99L|CFL2_uc001wsi.3_Intron|CFL2_uc001wsj.3_Intron	NM_021914	NP_068733	Q9Y281	COF2_HUMAN	cofilin 2	99	ADF-H.					cytoplasm|cytoskeleton|nuclear matrix	actin binding			breast(2)	2	Breast(36;0.0361)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;6.07e-06)|Lung(238;2.23e-05)|Epithelial(34;0.0387)|all cancers(34;0.0814)	GBM - Glioblastoma multiforme(112;0.0424)		ATATAAATACTAGGTCTTCTT	0.318													11	42	---	---	---	---	PASS	C	35182474	C	C	35182474	2	2	108	1	0	0	0	0	0	0	0	1	3291	1509	53	5		5	CFL2	14	35182474	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	762817	35182474	72167066	767	40209										
KLHDC1	122773	broad.mit.edu	37	chr14	50201309	50201309	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	actgtcatgatattgcaggtGatggttggattcataatgtc	11	5	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:50201309G>A	uc001www.2	+	10	854	c.826G>A	c.(826-828)GAT>AAT	p.D276N	SDCCAG1_uc010anj.1_Intron|KLHDC1_uc010tqg.1_Missense_Mutation_p.D231N|KLHDC1_uc010tqh.1_Missense_Mutation_p.D191N	NM_172193	NP_751943	Q8N7A1	KLDC1_HUMAN	kelch domain containing 1	276	Kelch 5.					cytoplasm				pancreas(1)	1	all_epithelial(31;0.00244)|Breast(41;0.00964)					TATTGCAGGTGATGGTTGGAT	0.313													9	18	---	---	---	---	PASS	A	50201309	A	A	50201309	3	1	108	1	0	0	0	0	1	0	0	0	8354	1290	45	2	864	2	KLHDC1	14	50201309	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	15018835	50201309	57148231	768	40210										
SOS2	6655	broad.mit.edu	37	chr14	50626482	50626482	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcaaatgcatgcttgtgctCacaagtatcttctttatcac	5	10	5	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:50626482C>T	uc001wxs.3	-	10	1617	c.1519G>A	c.(1519-1521)GAG>AAG	p.E507K	SOS2_uc010tql.1_Missense_Mutation_p.E474K|SOS2_uc010tqm.1_RNA|SOS2_uc001wxt.2_Missense_Mutation_p.E195K	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	507	PH.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TGCTTGTGCTCACAAGTATCT	0.373													28	46	---	---	---	---	PASS	T	50626482	T	T	50626482	3	4	108	1	0	0	0	0	1	0	0	0	14937	835	29	2	2535	2	SOS2	14	50626482	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	425173	50626482	56723058	769	40211										
SOS2	6655	broad.mit.edu	37	chr14	50671113	50671113	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttagctgagagagtgggatgCacttgttcctgaacctttaa	11	7	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:50671113C>A	uc001wxs.3	-	2	200	c.102G>T	c.(100-102)GTG>GTT	p.V34V	SOS2_uc010tql.1_Silent_p.V34V	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	34					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					GAGTGGGATGCACTTGTTCCT	0.313													23	61	---	---	---	---	PASS	A	50671113	A	A	50671113	2	1	108	1	0	0	0	0	0	0	0	1	14937	697	25	3		3	SOS2	14	50671113	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	44631	50671113	56678427	770	40212										
NIN	51199	broad.mit.edu	37	chr14	51219373	51219373	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attaagttcttgcagtttttCctggttttgagagttctttt	8	5	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:51219373C>A	uc001wym.2	-	21	5004	c.4813G>T	c.(4813-4815)GAA>TAA	p.E1605*	NIN_uc001wyi.2_Nonsense_Mutation_p.E1605*|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Nonsense_Mutation_p.E892*|NIN_uc010tqp.1_Nonsense_Mutation_p.E1611*|NIN_uc001wyo.2_Nonsense_Mutation_p.E1605*	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1605	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					TGCAGTTTTTCCTGGTTTTGA	0.333			T	PDGFRB	MPD								20	108	---	---	---	---	PASS	A	51219373	A	A	51219373	4	1	108	1	0	0	0	0	0	1	0	0	10417	864	30	2	1780	2	NIN	14	51219373	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	548260	51219373	56130167	771	40213										
DDHD1	80821	broad.mit.edu	37	chr14	53513567	53513567	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaaagaaaaagggcaacatcCaaggatgaccaataggcagt	10	7	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:53513567C>A	uc001xai.2	-	13	2852	c.2622G>T	c.(2620-2622)TTG>TTT	p.L874F	DDHD1_uc001xaj.2_Missense_Mutation_p.L853F|DDHD1_uc001xah.2_Missense_Mutation_p.L846F|DDHD1_uc001xag.2_Missense_Mutation_p.L428F	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	874	DDHD.				lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					GGGCAACATCCAAGGATGACC	0.433													15	42	---	---	---	---	PASS	A	53513567	A	A	53513567	3	1	108	1	0	0	0	0	1	0	0	0	4326	593	21	3	84	3	DDHD1	14	53513567	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2294194	53513567	53835973	772	40214										
OTX2	5015	broad.mit.edu	37	chr14	57272080	57272080	+	Frame_Shift_Del	DEL	G	-	-													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcagcagggctcacttacccGggtagcccacggaggggtgc							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:57272080delG	uc001xcp.2	-	1	266	c.95delC	c.(94-96)CCGfs	p.P32fs	OTX2_uc010aou.2_Frame_Shift_Del_p.P32fs|OTX2_uc001xcq.2_Frame_Shift_Del_p.P32fs	NM_172337	NP_758840	P32243	OTX2_HUMAN	orthodenticle homeobox 2 isoform b	32					axon guidance|forebrain development|midbrain development|positive regulation of embryonic development|positive regulation of gastrulation|primitive streak formation|protein complex assembly|regulation of fibroblast growth factor receptor signaling pathway|regulation of smoothened signaling pathway	growth cone|nucleus|protein complex	eukaryotic initiation factor 4E binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding			ovary(1)	1	Medulloblastoma(1;0.00184)|all_neural(1;0.00414)					TCACTTACCCGGGTAGCCCAC	0.597													22	10	---	---	---	---		-	57272080	-	-	57272080	7	5	108	1	0	1	0	1	0	0	0	0	11321	1116	39	0	810	0	OTX2	14	57272080	Frame_Shift_Del	DEL	G	TCGA-46-3769-01A-01D-0983-08	3758513	57272080	50077460	773	40215										
RTN1	6252	broad.mit.edu	37	chr14	60069930	60069930	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgacatcacatagaacttacCtggtgcttaacatacactac	5	11	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:60069930C>G	uc001xen.1	-	7	2438	c.2229G>C	c.(2227-2229)CAG>CAC	p.Q743H	RTN1_uc001xem.1_Missense_Mutation_p.Q323H|RTN1_uc001xek.1_Missense_Mutation_p.Q175H|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Missense_Mutation_p.Q160H	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	743	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		TAGAACTTACCTGGTGCTTAA	0.318													8	18	---	---	---	---	PASS	G	60069930	G	G	60069930	3	3	108	1	0	0	0	0	1	0	0	0	13725	695	24	4	113	4	RTN1	14	60069930	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2797850	60069930	47279610	774	40216										
SYNE2	23224	broad.mit.edu	37	chr14	64606673	64606673	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgttagttataacagagattCggatcagttaaccaagtggt	10	5	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:64606673C>T	uc001xgm.2	+	80	15088	c.14858C>T	c.(14857-14859)TCG>TTG	p.S4953L	SYNE2_uc001xgl.2_Missense_Mutation_p.S4953L|SYNE2_uc010apy.2_Missense_Mutation_p.S1338L|SYNE2_uc001xgn.2_5'UTR|SYNE2_uc001xgo.2_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	4953	Spectrin 1.|Cytoplasmic (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)		AACAGAGATTCGGATCAGTTA	0.378													5	48	---	---	---	---	PASS	T	64606673	T	T	64606673	3	4	108	1	0	0	0	0	1	0	0	0	15443	893	31	2	15172	2	SYNE2	14	64606673	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4536743	64606673	42742867	775	40217										
ZFYVE26	23503	broad.mit.edu	37	chr14	68251916	68251916	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggaggagctgagtctggatcTgcacagggtgggcctctgcc	17	10	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:68251916T>A	uc001xka.2	-	19	3522	c.3383A>T	c.(3382-3384)CAG>CTG	p.Q1128L	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.Q1128L	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1128					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		AGTCTGGATCTGCACAGGGTG	0.597													3	35	---	---	---	---	PASS	A	68251916	A	A	68251916	3	1	108	1	0	0	0	0	1	0	0	0	17665	1580	55	5	4332	5	ZFYVE26	14	68251916	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	3645243	68251916	39097624	776	40218										
PCNX	22990	broad.mit.edu	37	chr14	71568774	71568774	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgaagccatagtatctcatgAgaagaacctcgtaatagccc	8	10	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:71568774A>T	uc001xmo.2	+	31	6103	c.5657A>T	c.(5656-5658)GAG>GTG	p.E1886V	PCNX_uc010are.1_Missense_Mutation_p.E1775V|PCNX_uc010arf.1_Missense_Mutation_p.E674V|PCNX_uc001xmp.2_5'UTR	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1886						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)		GTATCTCATGAGAAGAACCTC	0.418													26	58	---	---	---	---	PASS	T	71568774	T	T	71568774	3	4	108	1	0	0	0	0	1	0	0	0	11591	304	11	5	5779	5	PCNX	14	71568774	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	3316858	71568774	35780766	777	40219										
LTBP2	4053	broad.mit.edu	37	chr14	74971752	74971752	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccctgggtgcagcagcattCagcctgtgtggtgttccggc	15	12	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:74971752C>T	uc001xqa.2	-	29	4690	c.4303G>A	c.(4303-4305)GAA>AAA	p.E1435K		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1435	TB 3.				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CAGCAGCATTCAGCCTGTGTG	0.662													21	27	---	---	---	---	PASS	T	74971752	T	T	74971752	3	4	108	1	0	0	0	0	1	0	0	0	9074	835	29	2	1194	2	LTBP2	14	74971752	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3402978	74971752	32377788	778	40220										
DLST	1743	broad.mit.edu	37	chr14	75366627	75366627	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtattttctctctcatagtGattgacgacacaaccaaaga	6	9	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:75366627G>A	uc001xqv.2	+	12	966	c.903G>A	c.(901-903)GTG>GTA	p.V301V	DLST_uc001xqu.2_Silent_p.V213V|DLST_uc001xqt.2_Silent_p.V217V|DLST_uc010tuw.1_Silent_p.V215V	NM_001933	NP_001924	P36957	ODO2_HUMAN	dihydrolipoamide S-succinyltransferase (E2	301					lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	dihydrolipoyllysine-residue succinyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00698)		CTCTCATAGTGATTGACGACA	0.448													6	47	---	---	---	---	PASS	A	75366627	A	A	75366627	2	1	108	1	0	0	0	0	0	0	0	1	4569	1304	45	2		2	DLST	14	75366627	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	394875	75366627	31982913	779	40221										
TTLL5	23093	broad.mit.edu	37	chr14	76286427	76286427	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccaaccctccgacccatcatCagtcctagtggcccgacatg	7	18	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:76286427C>T	uc001xrx.2	+	28	3454	c.3249C>T	c.(3247-3249)ATC>ATT	p.I1083I	TTLL5_uc010ask.1_Silent_p.I1098I|TTLL5_uc001xrz.2_Silent_p.I658I|TTLL5_uc001xsa.2_Silent_p.I157I	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	1083					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		GACCCATCATCAGTCCTAGTG	0.517													23	24	---	---	---	---	PASS	T	76286427	T	T	76286427	2	4	108	1	0	0	0	0	0	0	0	1	16727	816	29	2		2	TTLL5	14	76286427	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	919800	76286427	31063113	780	40222										
ANGEL1	23357	broad.mit.edu	37	chr14	77255657	77255657	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gttgggtaagccattggcagCccagagtatctcttcagaga	12	9	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:77255657C>A	uc001xsv.2	-	10	2040	c.1927G>T	c.(1927-1929)GCT>TCT	p.A643S	uc001xsu.1_5'Flank|ANGEL1_uc010tvf.1_Intron	NM_015305	NP_056120	Q9UNK9	ANGE1_HUMAN	angel homolog 1	643										ovary(2)|central_nervous_system(1)|skin(1)	4			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0285)		CCATTGGCAGCCCAGAGTATC	0.577													29	71	---	---	---	---	PASS	A	77255657	A	A	77255657	3	1	108	1	0	0	0	0	1	0	0	0	608	739	26	3	89	3	ANGEL1	14	77255657	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	969230	77255657	30093883	781	40223										
GTF2A1	2957	broad.mit.edu	37	chr14	81670361	81670361	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgctgctgctggggttgatGctgctgttgaacttgcagta	14	8	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:81670361G>A	uc001xvf.1	-	3	652	c.220C>T	c.(220-222)CAT>TAT	p.H74Y	GTF2A1_uc010atb.1_Missense_Mutation_p.H24Y|GTF2A1_uc001xvg.1_Missense_Mutation_p.H35Y|GTF2A1_uc001xvh.1_Missense_Mutation_p.H35Y|SNORA79_uc001xvi.1_5'Flank	NM_015859	NP_056943	P52655	TF2AA_HUMAN	TFIIA alpha, p55 isoform 1	74	Poly-Gln.				regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|transcription factor TFIIA complex	DNA binding|protein binding|protein heterodimerization activity|TBP-class protein binding|transcription coactivator activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0287)		tggggttgatgctgctgttga	0.234													14	6	---	---	---	---	PASS	A	81670361	A	A	81670361	3	1	108	1	0	0	0	0	1	0	0	0	6852	1319	46	3	938	3	GTF2A1	14	81670361	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4414704	81670361	25679179	782	40224										
KIAA1409	57578	broad.mit.edu	37	chr14	94046632	94046632	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaggacgaaaaagcaatcgaGtgcaacttatgtcagtctag	10	7	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:94046632G>T	uc001ybv.1	+	16	2123	c.2040G>T	c.(2038-2040)GAG>GAT	p.E680D	KIAA1409_uc001ybs.1_Missense_Mutation_p.E680D	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	857						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		AAGCAATCGAGTGCAACTTAT	0.468													18	52	---	---	---	---	PASS	T	94046632	T	T	94046632	3	4	108	1	0	0	0	0	1	0	0	0	8230	1020	36	3	2102	3	KIAA1409	14	94046632	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	12376271	94046632	13302908	783	40225										
SERPINA4	5267	broad.mit.edu	37	chr14	95033402	95033402	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggtgcccatgatgctgcagGaccaggagcatcactggtat	14	10	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:95033402G>T	uc001ydk.2	+	3	811	c.745G>T	c.(745-747)GAC>TAC	p.D249Y	SERPINA4_uc010avd.2_Missense_Mutation_p.D286Y|SERPINA4_uc001ydl.2_Missense_Mutation_p.D249Y	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	249					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		GATGCTGCAGGACCAGGAGCA	0.493													13	24	---	---	---	---	PASS	T	95033402	T	T	95033402	3	4	108	1	0	0	0	0	1	0	0	0	14091	1174	41	2	751	2	SERPINA4	14	95033402	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	986770	95033402	12316138	784	40226										
ATG2B	55102	broad.mit.edu	37	chr14	96807901	96807901	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttctgtttcaacgtgagactCaactccaacctaccaattaa	4	12	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:96807901C>T	uc001yfi.2	-	6	1247	c.882G>A	c.(880-882)TTG>TTA	p.L294L		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	294										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)		ACGTGAGACTCAACTCCAACC	0.388													14	45	---	---	---	---	PASS	T	96807901	T	T	96807901	2	4	108	1	0	0	0	0	0	0	0	1	1094	825	29	2		2	ATG2B	14	96807901	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1774499	96807901	10541639	785	40227										
WARS	7453	broad.mit.edu	37	chr14	100808747	100808747	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgctcaccttggttttgatCtgcttggccgtgtcggtgag	13	10	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:100808747C>A	uc001yhf.1	-	8	1185	c.1101G>T	c.(1099-1101)CAG>CAT	p.Q367H	WARS_uc001yhe.1_Missense_Mutation_p.Q173H|WARS_uc001yhg.1_Missense_Mutation_p.Q367H|WARS_uc001yhh.1_Missense_Mutation_p.Q367H|WARS_uc001yhi.1_Missense_Mutation_p.Q326H|WARS_uc001yhj.1_Missense_Mutation_p.Q326H|WARS_uc001yhk.1_Missense_Mutation_p.Q326H|WARS_uc001yhl.1_Missense_Mutation_p.Q367H	NM_173701	NP_776049	P23381	SYWC_HUMAN	tryptophanyl-tRNA synthetase isoform a	367					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)	TGGTTTTGATCTGCTTGGCCG	0.622													14	40	---	---	---	---	PASS	A	100808747	A	A	100808747	3	1	108	1	0	0	0	0	1	0	0	0	17246	912	32	2	326	2	WARS	14	100808747	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4000846	100808747	6540793	786	40228										
WARS	7453	broad.mit.edu	37	chr14	100808790	100808790	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agatggaggagttggggtcgCtggcactcattttggtctgg	17	6	2	1	rs145597356		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:100808790C>A	uc001yhf.1	-	8	1142	c.1058G>T	c.(1057-1059)AGC>ATC	p.S353I	WARS_uc001yhe.1_Missense_Mutation_p.S159I|WARS_uc001yhg.1_Missense_Mutation_p.S353I|WARS_uc001yhh.1_Missense_Mutation_p.S353I|WARS_uc001yhi.1_Missense_Mutation_p.S312I|WARS_uc001yhj.1_Missense_Mutation_p.S312I|WARS_uc001yhk.1_Missense_Mutation_p.S312I|WARS_uc001yhl.1_Missense_Mutation_p.S353I	NM_173701	NP_776049	P23381	SYWC_HUMAN	tryptophanyl-tRNA synthetase isoform a	353	KMSKS region.				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)	GTTGGGGTCGCTGGCACTCAT	0.612													42	44	---	---	---	---	PASS	A	100808790	A	A	100808790	3	1	108	1	0	0	0	0	1	0	0	0	17246	797	28	3	369	3	WARS	14	100808790	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	43	100808790	6540750	787	40229										
BEGAIN	57596	broad.mit.edu	37	chr14	101010249	101010249	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcttctagcagatggctgttGagggcaacaatctcgtggct	13	9	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:101010249G>C	uc010txa.1	-	4	443	c.297C>G	c.(295-297)CTC>CTG	p.L99L	BEGAIN_uc001yhp.2_Silent_p.L35L|BEGAIN_uc001yhq.2_Silent_p.L99L	NM_001159531	NP_001153003	Q9BUH8	BEGIN_HUMAN	brain-enriched guanylate kinase-associated	99						cytoplasm|membrane	protein binding				0		Melanoma(154;0.212)				GATGGCTGTTGAGGGCAACAA	0.617													7	11	---	---	---	---	PASS	C	101010249	C	C	101010249	2	2	108	1	0	0	0	0	0	0	0	1	1397	1277	45	2		2	BEGAIN	14	101010249	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	201459	101010249	6339291	788	40230										
CDC42BPB	9578	broad.mit.edu	37	chr14	103406189	103406189	+	Missense_Mutation	SNP	C	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctctgctgcagtctctcttCctctgggaccttgaagacga							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:103406189C>T	uc001ymi.1	-	33	4919	c.4687G>A	c.(4687-4689)GAA>AAA	p.E1563K		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	1563					actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		AGTCTCTCTTCCTCTGGGACC	0.612													42	65	---	---	---	---	PASS	T	103406189	T	T	103406189	3	4	108	1	0	0	0	0	1	0	0	0	3073	864	30	2	468	2	CDC42BPB	14	103406189	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2395940	103406189	3943351	789	40231	754	2								
CDC42BPB	9578	broad.mit.edu	37	chr14	103406192	103406192	+	Missense_Mutation	SNP	C	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgctgcagtctctcttcctCtgggaccttgaagacgaacc							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:103406192C>T	uc001ymi.1	-	33	4916	c.4684G>A	c.(4684-4686)GAG>AAG	p.E1562K		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	1562					actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		CTCTCTTCCTCTGGGACCTTG	0.617													42	68	---	---	---	---	PASS	T	103406192	T	T	103406192	3	4	108	1	0	0	0	0	1	0	0	0	3073	922	32	2	471	2	CDC42BPB	14	103406192	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3	103406192	3943348	790	40232	754	2								
TDRD9	122402	broad.mit.edu	37	chr14	104470664	104470664	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccctgatcatgttgttcctGagatgttggtaattcacttt	8	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:104470664G>C	uc001yom.3	+	14	1603	c.1573G>C	c.(1573-1575)GAG>CAG	p.E525Q	TDRD9_uc001yon.3_Missense_Mutation_p.E263Q	NM_153046	NP_694591	Q8NDG6	TDRD9_HUMAN	tudor domain containing 9	525	Helicase C-terminal.				cell differentiation|DNA methylation involved in gamete generation|fertilization|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	nucleus|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0768)				TGTTGTTCCTGAGATGTTGGT	0.323													4	12	---	---	---	---	PASS	C	104470664	C	C	104470664	3	2	108	1	0	0	0	0	1	0	0	0	15733	1291	45	2	1627	2	TDRD9	14	104470664	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1064472	104470664	2878876	791	40233										
AHNAK2	113146	broad.mit.edu	37	chr14	105410407	105410407	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtctttggcagtcacatccTtgtcggccagggacaggtcc	12	12	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:105410407T>C	uc010axc.1	-	7	11501	c.11381A>G	c.(11380-11382)AAG>AGG	p.K3794R	AHNAK2_uc001ypx.2_Missense_Mutation_p.K3694R	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3794						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)			AGTCACATCCTTGTCGGCCAG	0.582													100	179	---	---	---	---	PASS	C	105410407	C	C	105410407	3	2	108	1	0	0	0	0	1	0	0	0	415	1609	56	5	6010	5	AHNAK2	14	105410407	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	939743	105410407	1939133	792	40234										
AHNAK2	113146	broad.mit.edu	37	chr14	105414568	105414568	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctttgggcatcttgaaactgGgcatctgcagcttgggcagg	14	9	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr14:105414568G>C	uc010axc.1	-	7	7340	c.7220C>G	c.(7219-7221)CCC>CGC	p.P2407R	AHNAK2_uc001ypx.2_Missense_Mutation_p.P2307R	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2407						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)			CTTGAAACTGGGCATCTGCAG	0.627													33	165	---	---	---	---	PASS	C	105414568	C	C	105414568	3	2	108	1	0	0	0	0	1	0	0	0	415	1232	43	4	10171	4	AHNAK2	14	105414568	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4161	105414568	1934972	793	40235										
ARHGAP11B	89839	broad.mit.edu	37	chr15	30919108	30919108	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggtgaagggtgtccgtgggCagtgcgatcgcaggagacat	18	7	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:30919108C>T	uc001zet.1	+	1	230	c.85C>T	c.(85-87)CAG>TAG	p.Q29*	ARHGAP11B_uc010azv.1_Intron|ARHGAP11B_uc001zeu.2_RNA	NM_001039841	NP_001034930	Q3KRB8	RHGBB_HUMAN	Rho GTPase activating protein 11B	29					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0		all_lung(180;2.71e-09)|Breast(32;0.00116)		all cancers(64;1.9e-15)|Epithelial(43;3.59e-12)|GBM - Glioblastoma multiforme(186;9e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)|Lung(196;0.153)		TGTCCGTGGGCAGTGCGATCG	0.502													4	18	---	---	---	---	PASS	T	30919108	T	T	30919108	4	4	108	1	0	0	0	0	0	1	0	0	864	711	25	3	87	3	ARHGAP11B	15	30919108	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08		30919108	71612284	794	40236										
ARHGAP11A	9824	broad.mit.edu	37	chr15	32929102	32929102	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcattcaaatatgccaaaaGattatttaagcaagcaagaa	5	6	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:32929102G>C	uc001zgy.1	+	12	2850	c.2128G>C	c.(2128-2130)GAT>CAT	p.D710H	ARHGAP11A_uc010ubw.1_Missense_Mutation_p.D521H|ARHGAP11A_uc010ubx.1_Missense_Mutation_p.D521H	NM_014783	NP_055598	Q6P4F7	RHGBA_HUMAN	Rho GTPase activating protein 11A isoform 1	710					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			skin(3)|breast(2)|urinary_tract(1)	6		all_lung(180;1.3e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)		TATGCCAAAAGATTATTTAAG	0.284													14	11	---	---	---	---	PASS	C	32929102	C	C	32929102	3	2	108	1	0	0	0	0	1	0	0	0	863	942	33	2	2197	2	ARHGAP11A	15	32929102	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2009994	32929102	69602290	795	40237										
RYR3	6263	broad.mit.edu	37	chr15	33991934	33991934	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccaaagatggttgctagctgCtgccgtttcctttgctattt	9	10	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:33991934C>A	uc001zhi.2	+	41	6349	c.6279C>A	c.(6277-6279)TGC>TGA	p.C2093*	RYR3_uc010bar.2_Nonsense_Mutation_p.C2093*	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2093	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTGCTAGCTGCTGCCGTTTCC	0.438													8	14	---	---	---	---	PASS	A	33991934	A	A	33991934	4	1	108	1	0	0	0	0	0	1	0	0	13770	805	28	3	6441	3	RYR3	15	33991934	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1062832	33991934	68539458	796	40238										
RYR3	6263	broad.mit.edu	37	chr15	34065783	34065783	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	catactgtgcagcctctactCccttgggacgggaaagaaca	10	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:34065783C>A	uc001zhi.2	+	64	9174	c.9104C>A	c.(9103-9105)TCC>TAC	p.S3035Y	RYR3_uc010bar.2_Missense_Mutation_p.S3035Y	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3035					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AGCCTCTACTCCCTTGGGACG	0.388													8	18	---	---	---	---	PASS	A	34065783	A	A	34065783	3	1	108	1	0	0	0	0	1	0	0	0	13770	855	30	2	9358	2	RYR3	15	34065783	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	73849	34065783	68465609	797	40239										
RYR3	6263	broad.mit.edu	37	chr15	34131112	34131112	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagaaattattggcaaggatGaaccccctacattagagagt	9	8	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:34131112G>T	uc001zhi.2	+	89	13001	c.12931G>T	c.(12931-12933)GAA>TAA	p.E4311*	RYR3_uc010bar.2_Nonsense_Mutation_p.E4306*	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4311					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGGCAAGGATGAACCCCCTAC	0.453													16	30	---	---	---	---	PASS	T	34131112	T	T	34131112	4	4	108	1	0	0	0	0	0	1	0	0	13770	1291	45	2	13285	2	RYR3	15	34131112	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	65329	34131112	68400280	798	40240										
MEIS2	4212	broad.mit.edu	37	chr15	37187378	37187378	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccggatccccatgtgttgcTgaccatccaacacaaagctc	8	15	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:37187378T>A	uc001zjr.2	-	11	2158	c.1121A>T	c.(1120-1122)CAG>CTG	p.Q374L	MEIS2_uc001zjl.2_Missense_Mutation_p.Q361L|MEIS2_uc010ucj.1_Missense_Mutation_p.Q354L|MEIS2_uc001zjm.2_Missense_Mutation_p.Q279L|MEIS2_uc001zjn.2_Missense_Mutation_p.Q228L|MEIS2_uc001zjo.2_Missense_Mutation_p.Q374L|MEIS2_uc001zjp.2_Missense_Mutation_p.Q367L|MEIS2_uc001zjs.2_Missense_Mutation_p.Q367L|MEIS2_uc001zju.2_Missense_Mutation_p.Q354L|MEIS2_uc001zjt.2_Missense_Mutation_p.Q367L|MEIS2_uc001zjj.2_Missense_Mutation_p.Q70L|MEIS2_uc001zjk.2_Missense_Mutation_p.Q63L	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	374					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		CATGTGTTGCTGACCATCCAA	0.562													27	39	---	---	---	---	PASS	A	37187378	A	A	37187378	3	1	108	1	0	0	0	0	1	0	0	0	9468	1580	55	5	383	5	MEIS2	15	37187378	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	3056266	37187378	65344014	799	40241										
MEIS2	4212	broad.mit.edu	37	chr15	37390191	37390191	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tagatcgcgtccttgtcccgCttcaaggcgtcgttgacagc	11	13	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:37390191C>A	uc001zjr.2	-	2	1259	c.222G>T	c.(220-222)AAG>AAT	p.K74N	MEIS2_uc001zjl.2_Missense_Mutation_p.K61N|MEIS2_uc010ucj.1_Missense_Mutation_p.K61N|MEIS2_uc001zjm.2_5'UTR|MEIS2_uc001zjn.2_5'UTR|MEIS2_uc001zjo.2_Missense_Mutation_p.K74N|MEIS2_uc001zjp.2_Missense_Mutation_p.K74N|MEIS2_uc001zjs.2_Missense_Mutation_p.K74N|MEIS2_uc001zju.2_Missense_Mutation_p.K61N|MEIS2_uc001zjt.2_Missense_Mutation_p.K74N	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	74					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		CCTTGTCCCGCTTCAAGGCGT	0.627													7	14	---	---	---	---	PASS	A	37390191	A	A	37390191	3	1	108	1	0	0	0	0	1	0	0	0	9468	796	28	3	1318	3	MEIS2	15	37390191	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	202813	37390191	65141201	800	40242										
NDUFAF1	51103	broad.mit.edu	37	chr15	41680695	41680695	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccggattcttcctcgattaGagaagaaaaatttggaaaaa	8	7	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:41680695G>C	uc001znx.2	-	4	1167	c.785C>G	c.(784-786)TCT>TGT	p.S262C	NDUFAF1_uc010bcf.2_RNA	NM_016013	NP_057097	Q9Y375	CIA30_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	262					mitochondrial electron transport, NADH to ubiquinone|protein complex assembly	mitochondrial respiratory chain complex I	unfolded protein binding			ovary(1)	1		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;8e-17)|GBM - Glioblastoma multiforme(113;1.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.114)		TCCTCGATTAGAGAAGAAAAA	0.338													14	23	---	---	---	---	PASS	C	41680695	C	C	41680695	3	2	108	1	0	0	0	0	1	0	0	0	10274	942	33	2	206	2	NDUFAF1	15	41680695	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4290504	41680695	60850697	801	40243										
PLA2G4F	255189	broad.mit.edu	37	chr15	42442310	42442310	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agtcccactcacctcatttcCaccttcatgctcagagccac	4	18	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:42442310C>A	uc001zoz.2	-	10	978	c.915G>T	c.(913-915)GTG>GTT	p.V305V	PLA2G4F_uc001zoy.2_5'Flank|PLA2G4F_uc010bcr.2_Silent_p.V56V|PLA2G4F_uc001zpa.2_Silent_p.V56V|PLA2G4F_uc010bcs.2_Silent_p.V92V	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	305					phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		ACCTCATTTCCACCTTCATGC	0.592													14	9	---	---	---	---	PASS	A	42442310	A	A	42442310	2	1	108	1	0	0	0	0	0	0	0	1	12006	581	21	3		3	PLA2G4F	15	42442310	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	761615	42442310	60089082	802	40244										
ADAL	161823	broad.mit.edu	37	chr15	43641146	43641146	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acacaaatactcctggatctGcttcctgacagaatcgggca	8	12	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:43641146G>A	uc010udo.1	+	10	1168	c.594G>A	c.(592-594)CTG>CTA	p.L198L	ADAL_uc001zrh.2_Silent_p.L225L|ADAL_uc001zri.1_Silent_p.L110L	NM_001159280	NP_001152752	Q6DHV7	ADAL_HUMAN	adenosine deaminase-like isoform 1	225					adenosine catabolic process|inosine biosynthetic process|purine ribonucleoside monophosphate biosynthetic process		adenosine deaminase activity|metal ion binding				0		all_cancers(109;7.96e-11)|all_epithelial(112;2.96e-09)|Lung NSC(122;8.91e-07)|all_lung(180;8.8e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;9.31e-07)		TCCTGGATCTGCTTCCTGACA	0.458													25	26	---	---	---	---	PASS	A	43641146	A	A	43641146	2	1	108	1	0	0	0	0	0	0	0	1	233	1306	46	3		3	ADAL	15	43641146	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1198836	43641146	58890246	803	40245										
SLC27A2	11001	broad.mit.edu	37	chr15	50475061	50475061	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgcgaagtccctgctgcactGcttccagtgctgcggggcga	14	14	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:50475061G>A	uc001zxw.2	+	1	669	c.437G>A	c.(436-438)TGC>TAC	p.C146Y	SLC27A2_uc010bes.2_Missense_Mutation_p.C146Y	NM_003645	NP_003636	O14975	S27A2_HUMAN	solute carrier family 27 (fatty acid	146	Lumenal (Potential).				bile acid biosynthetic process|fatty acid alpha-oxidation	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity|phytanate-CoA ligase activity|pristanate-CoA ligase activity			ovary(1)|skin(1)	2		all_lung(180;0.00177)		all cancers(107;1.16e-06)|GBM - Glioblastoma multiforme(94;0.000113)		CTGCTGCACTGCTTCCAGTGC	0.662													41	44	---	---	---	---	PASS	A	50475061	A	A	50475061	3	1	108	1	0	0	0	0	1	0	0	0	14526	1319	46	3	439	3	SLC27A2	15	50475061	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	6833915	50475061	52056331	804	40246										
SCG3	29106	broad.mit.edu	37	chr15	51973991	51973991	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggcacttggattctggtgttAgtgctcccgattcaagcttt	11	9	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:51973991A>G	uc002abh.2	+	1	447	c.39A>G	c.(37-39)TTA>TTG	p.L13L	SCG3_uc010ufz.1_5'UTR	NM_013243	NP_037375	Q8WXD2	SCG3_HUMAN	secretogranin III isoform 1 precursor	13					platelet activation|platelet degranulation	extracellular region|stored secretory granule				ovary(1)	1				all cancers(107;0.00488)		TTCTGGTGTTAGTGCTCCCGA	0.522													16	11	---	---	---	---	PASS	G	51973991	G	G	51973991	2	3	108	1	0	0	0	0	0	0	0	1	13892	417	15	5		5	SCG3	15	51973991	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	1498930	51973991	50557401	805	40247										
UNC13C	440279	broad.mit.edu	37	chr15	54307002	54307002	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggaatgagtaatggcatggtGtgtgcatctggagaccggag	17	5	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:54307002G>C	uc002ack.2	+	1	1902	c.1902G>C	c.(1900-1902)GTG>GTC	p.V634V		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	634					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ATGGCATGGTGTGTGCATCTG	0.458													38	57	---	---	---	---	PASS	C	54307002	C	C	54307002	2	2	108	1	0	0	0	0	0	0	0	1	16983	1364	48	4		4	UNC13C	15	54307002	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2333011	54307002	48224390	806	40248										
GCNT3	9245	broad.mit.edu	37	chr15	59910815	59910815	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atacagttcccactgagcaaAgaagaggtggagttccctat	10	9	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:59910815A>G	uc002age.2	+	3	827	c.378A>G	c.(376-378)AAA>AAG	p.K126K	GCNT3_uc002agd.2_Silent_p.K126K	NM_004751	NP_004742	O95395	GCNT3_HUMAN	glucosaminyl (N-acetyl) transferase 3, mucin	126	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|membrane fraction	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)	2						CACTGAGCAAAGAAGAGGTGG	0.468													21	30	---	---	---	---	PASS	G	59910815	G	G	59910815	2	3	108	1	0	0	0	0	0	0	0	1	6302	69	3	5		5	GCNT3	15	59910815	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	5603813	59910815	42620577	807	40249										
HCN4	10021	broad.mit.edu	37	chr15	73614857	73614857	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagtttggagcgcactggctCaggcctggccccaggttccc	13	15	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:73614857C>G	uc002avp.2	-	8	4571	c.3577G>C	c.(3577-3579)GAG>CAG	p.E1193Q		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	1193	Cytoplasmic (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		CGCACTGGCTCAGGCCTGGCC	0.458													6	4	---	---	---	---	PASS	G	73614857	G	G	73614857	3	3	108	1	0	0	0	0	1	0	0	0	6999	835	29	2	38	2	HCN4	15	73614857	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	13704042	73614857	28916535	808	40250										
CCDC33	80125	broad.mit.edu	37	chr15	74574143	74574143	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccagcctgaaaactatcaatGatgaggcccccacagtggct	9	13	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:74574143G>A	uc002axo.2	+	10	1442	c.1048G>A	c.(1048-1050)GAT>AAT	p.D350N	CCDC33_uc002axp.2_Missense_Mutation_p.D172N	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	553							protein binding			ovary(3)|skin(2)	5						AACTATCAATGATGAGGCCCC	0.592													40	37	---	---	---	---	PASS	A	74574143	A	A	74574143	3	1	108	1	0	0	0	0	1	0	0	0	2806	1290	45	2	1086	2	CCDC33	15	74574143	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	959286	74574143	27957249	809	40251										
CRABP1	1381	broad.mit.edu	37	chr15	78635882	78635882	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagaacaagatccactgcacGcaaactcttcttgaagggga	10	10	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:78635882G>T	uc002bdp.2	+	3	396	c.291G>T	c.(289-291)ACG>ACT	p.T97T		NM_004378	NP_004369	P29762	RABP1_HUMAN	cellular retinoic acid binding protein 1	97					multicellular organismal development|signal transduction	cytoplasm	retinal binding|retinol binding|transporter activity				0					Alitretinoin(DB00523)|Etretinate(DB00926)	TCCACTGCACGCAAACTCTTC	0.512													11	28	---	---	---	---	PASS	T	78635882	T	T	78635882	2	4	108	1	0	0	0	0	0	0	0	1	3843	1074	38	1		1	CRABP1	15	78635882	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	4061739	78635882	23895510	810	40252										
RASGRF1	5923	broad.mit.edu	37	chr15	79290512	79290512	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgacttcttccaggaagccGatcaccttgcatttgagctc	8	12	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:79290512G>T	uc002beq.2	-	20	3315	c.2940C>A	c.(2938-2940)ATC>ATA	p.I980I	RASGRF1_uc002bep.2_Silent_p.I964I|RASGRF1_uc010blm.1_Silent_p.I889I|RASGRF1_uc002ber.3_Silent_p.I964I|RASGRF1_uc010unh.1_Silent_p.I375I|RASGRF1_uc002beo.2_Silent_p.I196I	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	982					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						CCAGGAAGCCGATCACCTTGC	0.557													13	36	---	---	---	---	PASS	T	79290512	T	T	79290512	2	4	108	1	0	0	0	0	0	0	0	1	13072	1048	37	2		2	RASGRF1	15	79290512	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	654630	79290512	23240880	811	40253										
KIAA1024	23251	broad.mit.edu	37	chr15	79750590	79750590	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgcgggtcaaggccttaaaaAaaagcctcttcaccaggcca	9	12	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:79750590A>T	uc002bew.1	+	2	2176	c.2101A>T	c.(2101-2103)AAA>TAA	p.K701*	KIAA1024_uc010unk.1_Nonsense_Mutation_p.K701*	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	701						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						GGCCTTAAAAAAAAGCCTCTT	0.552													48	80	---	---	---	---	PASS	T	79750590	T	T	79750590	4	4	108	1	0	0	0	0	0	1	0	0	8205	15	1	5	2103	5	KIAA1024	15	79750590	Nonsense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	460078	79750590	22780802	812	40254										
IL16	3603	broad.mit.edu	37	chr15	81578086	81578086	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgattcccctgtgcactgccTgacgctcaatgaagtctaca	8	13	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:81578086T>A	uc002bgh.3	+	10	1623	c.1247T>A	c.(1246-1248)CTG>CAG	p.L416Q	IL16_uc002bgc.2_RNA|IL16_uc010blq.1_Missense_Mutation_p.L416Q|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Missense_Mutation_p.L458Q|IL16_uc002bgg.2_Missense_Mutation_p.L416Q|IL16_uc002bgi.1_5'UTR	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	416	PDZ 2.|Interaction with GRIN2A.				immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						GTGCACTGCCTGACGCTCAAT	0.502													39	26	---	---	---	---	PASS	A	81578086	A	A	81578086	3	1	108	1	0	0	0	0	1	0	0	0	7633	1580	55	5	1281	5	IL16	15	81578086	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	1827496	81578086	20953306	813	40255										
TMC3	342125	broad.mit.edu	37	chr15	81625278	81625278	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctggcgggggacccgggatgCatattgtcgcacgttcctgg	16	11	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:81625278C>T	uc002bgo.1	-	22	2785	c.2785G>A	c.(2785-2787)GCA>ACA	p.A929T	TMC3_uc010blr.1_RNA	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	929	Cytoplasmic (Potential).					integral to membrane				ovary(1)|liver(1)	2						ACCCGGGATGCATATTGTCGC	0.522													15	24	---	---	---	---	PASS	T	81625278	T	T	81625278	3	4	108	1	0	0	0	0	1	0	0	0	15983	710	25	3	521	3	TMC3	15	81625278	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	47192	81625278	20906114	814	40256										
TMC3	342125	broad.mit.edu	37	chr15	81637256	81637256	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctgagccccattccaggccGagatgtggaccatttctctt	9	14	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:81637256G>T	uc002bgo.1	-	13	1369	c.1369C>A	c.(1369-1371)CGG>AGG	p.R457R	TMC3_uc010blr.1_RNA|TMC3_uc002bgp.2_Silent_p.R457R	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	457	Cytoplasmic (Potential).					integral to membrane				ovary(1)|liver(1)	2						ATTCCAGGCCGAGATGTGGAC	0.478													7	27	---	---	---	---	PASS	T	81637256	T	T	81637256	2	4	108	1	0	0	0	0	0	0	0	1	15983	1057	37	2		2	TMC3	15	81637256	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	11978	81637256	20894136	815	40257										
AGBL1	123624	broad.mit.edu	37	chr15	86697678	86697678	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tagataaaaagattggacggAaggccctagaattggaagca	12	5	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr15:86697678A>C	uc002blz.1	+	3	222	c.142A>C	c.(142-144)AAG>CAG	p.K48Q		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	48					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						GATTGGACGGAAGGCCCTAGA	0.448													5	30	---	---	---	---	PASS	C	86697678	C	C	86697678	3	2	108	1	0	0	0	0	1	0	0	0	375	247	9	5	148	5	AGBL1	15	86697678	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	5060422	86697678	15833714	816	40258										
MSLN	10232	broad.mit.edu	37	chr16	818700	818700	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctggacctgttctcaccgtCctggcactgctcctagcctc	8	18	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:818700C>T	uc002cjw.1	+	17	1911	c.1860C>T	c.(1858-1860)GTC>GTT	p.V620V	MSLN_uc002cjt.1_Silent_p.V612V|MSLN_uc002cju.1_Silent_p.V612V|MSLN_uc010brd.1_Silent_p.V611V|MSLN_uc002cjv.1_Silent_p.V602V|MSLN_uc002cjx.1_Silent_p.V612V|MSLN_uc002cjy.1_Missense_Mutation_p.P305S|MIR662_hsa-mir-662|MI0003670_5'Flank	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein	620					cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)				TTCTCACCGTCCTGGCACTGC	0.701													22	12	---	---	---	---	PASS	T	818700	T	T	818700	2	4	108	1	0	0	0	0	0	0	0	1	9881	842	30	2		2	MSLN	16	818700	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08		818700	89536053	817	40259										
ABCA3	21	broad.mit.edu	37	chr16	2373534	2373534	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcttctcaccaggttctccGccatcaggggatgtaggttc	11	12	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:2373534G>T	uc002cpy.1	-	7	1315	c.603C>A	c.(601-603)GGC>GGA	p.G201G	ABCA3_uc010bsk.1_Silent_p.G201G|ABCA3_uc010bsl.1_Silent_p.G201G|ABCA3_uc002cpz.1_Silent_p.G201G	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	201					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				CAGGTTCTCCGCCATCAGGGG	0.532													116	110	---	---	---	---	PASS	T	2373534	T	T	2373534	2	4	108	1	0	0	0	0	0	0	0	1	33	1074	38	1		1	ABCA3	16	2373534	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1554834	2373534	87981219	818	40260										
SEC14L5	9717	broad.mit.edu	37	chr16	5058478	5058478	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acctgggactttgacatcctGcgaggggacgtggtgttcag	15	9	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:5058478G>T	uc002cye.2	+	14	1809	c.1629G>T	c.(1627-1629)CTG>CTT	p.L543L		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	543	GOLD.					integral to membrane|intracellular	transporter activity				0						TTGACATCCTGCGAGGGGACG	0.647													17	6	---	---	---	---	PASS	T	5058478	T	T	5058478	2	4	108	1	0	0	0	0	0	0	0	1	13985	1306	46	3		3	SEC14L5	16	5058478	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2684944	5058478	85296275	819	40261										
NOMO1	23420	broad.mit.edu	37	chr16	14989462	14989462	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caatagcggcccagaagatgCaaagagacaagccaagaaac	10	10	0	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:14989462C>T	uc002dcv.2	+	31	3695	c.3629C>T	c.(3628-3630)GCA>GTA	p.A1210V		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor	1210	Cytoplasmic (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						CCAGAAGATGCAAAGAGACAA	0.582													71	177	---	---	---	---	PASS	T	14989462	T	T	14989462	3	4	108	1	0	0	0	0	1	0	0	0	10531	710	25	3	3751	3	NOMO1	16	14989462	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	9930984	14989462	75365291	820	40262										
XYLT1	64131	broad.mit.edu	37	chr16	17202698	17202698	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtccatggcagtccacatccCgcccaccaacgagtccagcc	8	19	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:17202698C>A	uc002dfa.2	-	12	2819	c.2734G>T	c.(2734-2736)GGG>TGG	p.G912W		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	912	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						GTCCACATCCCGCCCACCAAC	0.682													10	12	---	---	---	---	PASS	A	17202698	A	A	17202698	3	1	108	1	0	0	0	0	1	0	0	0	17460	652	23	1	149	1	XYLT1	16	17202698	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2213236	17202698	73152055	821	40263										
GP2	2813	broad.mit.edu	37	chr16	20329729	20329729	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgacaatgaactctccattcCcgtccacactgacgttcagg	7	14	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:20329729C>T	uc002dgv.2	-	8	1123	c.1040G>A	c.(1039-1041)GGG>GAG	p.G347E	GP2_uc002dgw.2_Missense_Mutation_p.G344E|GP2_uc002dgx.2_Missense_Mutation_p.G200E|GP2_uc002dgy.2_Missense_Mutation_p.G197E	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	347	ZP.					anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						CTCTCCATTCCCGTCCACACT	0.473													29	154	---	---	---	---	PASS	T	20329729	T	T	20329729	3	4	108	1	0	0	0	0	1	0	0	0	6582	623	22	3	593	3	GP2	16	20329729	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3127031	20329729	70025024	822	40264										
DNAH3	55567	broad.mit.edu	37	chr16	21093016	21093016	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagaggcaggtcgtttcggtGggctttatctcatagccaac	13	9	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:21093016G>A	uc010vbe.1	-	20	2910	c.2910C>T	c.(2908-2910)CCC>CCT	p.P970P		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	970	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TCGTTTCGGTGGGCTTTATCT	0.368													14	108	---	---	---	---	PASS	A	21093016	A	A	21093016	2	1	108	1	0	0	0	0	0	0	0	1	4603	1335	47	3		3	DNAH3	16	21093016	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	763287	21093016	69261737	823	40265										
EEF2K	29904	broad.mit.edu	37	chr16	22260121	22260121	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctggatgatgaagttctgatCaagatggcatctcaggtgag	13	6	3	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:22260121C>G	uc002dki.2	+	4	878	c.393C>G	c.(391-393)ATC>ATG	p.I131M	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	131	Alpha-type protein kinase.				insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		AAGTTCTGATCAAGATGGCAT	0.567													18	24	---	---	---	---	PASS	G	22260121	G	G	22260121	3	3	108	1	0	0	0	0	1	0	0	0	4930	816	29	2	403	2	EEF2K	16	22260121	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1167105	22260121	68094632	824	40266										
TNRC6A	27327	broad.mit.edu	37	chr16	24802560	24802560	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aacttcaaggaataaccattGgggtgaggccaataagaaat	10	6	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:24802560G>T	uc002dmm.2	+	6	2711	c.2597G>T	c.(2596-2598)TGG>TTG	p.W866L	TNRC6A_uc010bxs.2_Missense_Mutation_p.W613L|TNRC6A_uc010vcc.1_Missense_Mutation_p.W613L|TNRC6A_uc002dmn.2_Missense_Mutation_p.W613L|TNRC6A_uc002dmo.2_Missense_Mutation_p.W613L	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	866	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		AATAACCATTGGGGTGAGGCC	0.463													20	19	---	---	---	---	PASS	T	24802560	T	T	24802560	3	4	108	1	0	0	0	0	1	0	0	0	16337	1357	47	3	2619	3	TNRC6A	16	24802560	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2542439	24802560	65552193	825	40267										
ARHGAP17	55114	broad.mit.edu	37	chr16	24953356	24953356	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcaccgccatgctagcaggcCgcttcctctccagggtcccc	9	19	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:24953356C>A	uc002dnb.2	-	16	1535	c.1442G>T	c.(1441-1443)CGG>CTG	p.R481L	ARHGAP17_uc002dmz.2_5'Flank|ARHGAP17_uc002dna.2_Missense_Mutation_p.R208L|ARHGAP17_uc002dnc.2_Missense_Mutation_p.R481L|ARHGAP17_uc010vcf.1_Missense_Mutation_p.R302L	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	481					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		GCTAGCAGGCCGCTTCCTCTC	0.483													43	30	---	---	---	---	PASS	A	24953356	A	A	24953356	3	1	108	1	0	0	0	0	1	0	0	0	867	652	23	1	1223	1	ARHGAP17	16	24953356	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	150796	24953356	65401397	826	40268										
C16orf82	162083	broad.mit.edu	37	chr16	27078550	27078550	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccagcgtgcagcacccgagGccagaggagggcagccatgc	15	14	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:27078550G>A	uc010vcm.1	+	1	332	c.234G>A	c.(232-234)AGG>AGA	p.R78R		NM_001145545	NP_001139017	Q7Z2V1	TNT_HUMAN	hypothetical protein LOC162083	141											0						AGCACCCGAGGCCAGAGGAGG	0.647													3	3	---	---	---	---	PASS	A	27078550	A	A	27078550	2	1	108	1	0	0	0	0	0	0	0	1	1838	1194	42	3		3	C16orf82	16	27078550	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	2125194	27078550	63276203	827	40269										
SPN	6693	broad.mit.edu	37	chr16	29675658	29675658	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccactgggaccactggaccCcctgttaccatgacaactgg	9	15	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:29675658C>A	uc002dtm.2	+	2	745	c.609C>A	c.(607-609)CCC>CCA	p.P203P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SPN_uc002dtn.2_Silent_p.P203P|SPN_uc010bzd.2_RNA	NM_001030288	NP_001025459	P16150	LEUK_HUMAN	sialophorin precursor	203	Extracellular (Potential).				blood coagulation|cellular defense response|chemotaxis|defense response to bacterium|establishment or maintenance of cell polarity|immune response|leukocyte migration|negative regulation of cell adhesion|positive regulation of tumor necrosis factor biosynthetic process	extracellular space|integral to plasma membrane	bacterial cell surface binding|transmembrane receptor activity			central_nervous_system(2)	2						CCACTGGACCCCCTGTTACCA	0.567													90	54	---	---	---	---	PASS	A	29675658	A	A	29675658	2	1	108	1	0	0	0	0	0	0	0	1	15072	610	22	3		3	SPN	16	29675658	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	2597108	29675658	60679095	828	40270										
ITGAD	3681	broad.mit.edu	37	chr16	31435470	31435470	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agtgtggctgaaattacgttCgacacatccgtgtactccca	9	11	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:31435470C>T	uc002ebv.1	+	28	3256	c.3207C>T	c.(3205-3207)TTC>TTT	p.F1069F	ITGAD_uc010cap.1_Silent_p.F1070F	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	1069	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						AAATTACGTTCGACACATCCG	0.557													7	33	---	---	---	---	PASS	T	31435470	T	T	31435470	2	4	108	1	0	0	0	0	0	0	0	1	7884	883	31	2		2	ITGAD	16	31435470	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1759812	31435470	58919283	829	40271										
ITGAD	3681	broad.mit.edu	37	chr16	31435806	31435806	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agatggagatggtgctagaaGaagacgaggtctacaatgcc	14	6	1	5			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:31435806G>A	uc002ebv.1	+	29	3329	c.3280G>A	c.(3280-3282)GAA>AAA	p.E1094K	ITGAD_uc010cap.1_Missense_Mutation_p.E1095K	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	1094	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						GGTGCTAGAAGAAGACGAGGT	0.542													11	22	---	---	---	---	PASS	A	31435806	A	A	31435806	3	1	108	1	0	0	0	0	1	0	0	0	7884	943	33	2	3394	2	ITGAD	16	31435806	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	336	31435806	58918947	830	40272										
NETO2	81831	broad.mit.edu	37	chr16	47117419	47117419	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtcgtggatgcagcgggaggCggtggaggagcgccgcatct	20	9	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:47117419C>A	uc002eer.1	-	9	1676	c.1291G>T	c.(1291-1293)GCC>TCC	p.A431S	NETO2_uc002eeq.1_Missense_Mutation_p.A166S|NETO2_uc010vgf.1_Missense_Mutation_p.A288S	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	431	Cytoplasmic (Potential).					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				CAGCGGGAGGCGGTGGAGGAG	0.527										HNSCC(25;0.065)			20	36	---	---	---	---	PASS	A	47117419	A	A	47117419	3	1	108	1	0	0	0	0	1	0	0	0	10340	768	27	1	290	1	NETO2	16	47117419	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	15681613	47117419	43237334	831	40273										
NOD2	64127	broad.mit.edu	37	chr16	50746191	50746191	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctttgtgctgcagcacctccGgcggcccgtggccctgcagc	13	17	0	0	rs5743279	byFrequency	TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:50746191G>T	uc002egm.1	+	4	2474	c.2369G>T	c.(2368-2370)CGG>CTG	p.R790L	NOD2_uc010cbk.1_Missense_Mutation_p.R763L|NOD2_uc002egl.1_Missense_Mutation_p.R568L|NOD2_uc010cbl.1_Missense_Mutation_p.R568L|NOD2_uc010cbm.1_Missense_Mutation_p.R568L|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_RNA|NOD2_uc010cbq.1_5'UTR|NOD2_uc010cbr.1_RNA	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	790					activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				CAGCACCTCCGGCGGCCCGTG	0.607													32	53	---	---	---	---	PASS	T	50746191	T	T	50746191	3	4	108	1	0	0	0	0	1	0	0	0	10517	1116	39	1	2383	1	NOD2	16	50746191	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3628772	50746191	39608562	832	40274										
CNOT1	23019	broad.mit.edu	37	chr16	58559117	58559117	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccacagccaaattctggaaGatatccatgtgtgctgagtg	10	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:58559117G>C	uc002env.2	-	46	7043	c.6750C>G	c.(6748-6750)ATC>ATG	p.I2250M	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.I2245M|CNOT1_uc002ent.2_Missense_Mutation_p.I188M|CNOT1_uc010vik.1_Missense_Mutation_p.I1207M	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	2250					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		AATTCTGGAAGATATCCATGT	0.493													27	64	---	---	---	---	PASS	C	58559117	C	C	58559117	3	2	108	1	0	0	0	0	1	0	0	0	3617	932	33	2	396	2	CNOT1	16	58559117	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	7812926	58559117	31795636	833	40275										
CDH8	1006	broad.mit.edu	37	chr16	61687817	61687817	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgcaaatctggtttaatatCcttacggggtaaaaatccat	7	8	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:61687817C>A	uc002eog.1	-	12	2347	c.2095G>T	c.(2095-2097)GAT>TAT	p.D699Y		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	699	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		GGTTTAATATCCTTACGGGGT	0.428													20	75	---	---	---	---	PASS	A	61687817	A	A	61687817	3	1	108	1	0	0	0	0	1	0	0	0	3116	855	30	2	308	2	CDH8	16	61687817	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3128700	61687817	28666936	834	40276										
PMFBP1	83449	broad.mit.edu	37	chr16	72153940	72153940	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttctcttctatctccttcttCagcttcttgttttcctgctg	4	13	6	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:72153940C>G	uc002fcc.3	-	20	3004	c.2832G>C	c.(2830-2832)CTG>CTC	p.L944L	PMFBP1_uc002fcd.2_Silent_p.L939L|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Silent_p.L814L	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	944	Potential.									ovary(2)	2		Ovarian(137;0.179)				TCTCCTTCTTCAGCTTCTTGT	0.537													25	56	---	---	---	---	PASS	G	72153940	G	G	72153940	2	3	108	1	0	0	0	0	0	0	0	1	12134	813	29	2		2	PMFBP1	16	72153940	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	10466123	72153940	18200813	835	40277										
NUDT7	283927	broad.mit.edu	37	chr16	77769814	77769814	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccacagctctccgggaagcCcaggaggaagtgggtctccg	15	13	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:77769814C>A	uc010chd.2	+	3	348	c.279C>A	c.(277-279)GCC>GCA	p.A93A	NUDT7_uc010vnj.1_Intron	NM_001105663	NP_001099133	P0C024	NUDT7_HUMAN	nudix motif 7	93	Nudix hydrolase.|Nudix box.				nucleoside diphosphate metabolic process	peroxisome	hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides|magnesium ion binding|manganese ion binding			ovary(1)|kidney(1)	2						TCCGGGAAGCCCAGGAGGAAG	0.542													21	63	---	---	---	---	PASS	A	77769814	A	A	77769814	2	1	108	1	0	0	0	0	0	0	0	1	10744	610	22	3		3	NUDT7	16	77769814	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	5615874	77769814	12584939	836	40278										
VAT1L	57687	broad.mit.edu	37	chr16	77913097	77913097	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atggtaactggagagaccaaGagcttcttcagctttgcaaa	10	8	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:77913097G>T	uc002ffg.1	+	6	955	c.858G>T	c.(856-858)AAG>AAT	p.K286N		NM_020927	NP_065978	Q9HCJ6	VAT1L_HUMAN	vesicle amine transport protein 1 homolog (T.	286							oxidoreductase activity|zinc ion binding			central_nervous_system(1)	1						GAGAGACCAAGAGCTTCTTCA	0.368													25	84	---	---	---	---	PASS	T	77913097	T	T	77913097	3	4	108	1	0	0	0	0	1	0	0	0	17127	933	33	2	880	2	VAT1L	16	77913097	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	143283	77913097	12441656	837	40279										
WWOX	51741	broad.mit.edu	37	chr16	79245630	79245630	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctcagagcgaagagacggcCcggaccctgtgggcgctcag	16	13	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:79245630C>G	uc002ffk.2	+	9	1307	c.1182C>G	c.(1180-1182)GCC>GCG	p.A394A	WWOX_uc010vnk.1_Silent_p.A281A|WWOX_uc002ffl.2_Silent_p.A214A|WWOX_uc010che.2_Missense_Mutation_p.P179A	NM_016373	NP_057457	Q9NZC7	WWOX_HUMAN	WW domain-containing oxidoreductase isoform 1	394	Interaction with MAPT (By similarity).				apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)		AAGAGACGGCCCGGACCCTGT	0.627													9	39	---	---	---	---	PASS	G	79245630	G	G	79245630	2	3	108	1	0	0	0	0	0	0	0	1	17411	610	22	4		4	WWOX	16	79245630	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1332533	79245630	11109123	838	40280										
KCNG4	93107	broad.mit.edu	37	chr16	84271026	84271026	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctggacaggagctgactccaAgggctgtgggaaccatagtg	15	9	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:84271026A>G	uc010voc.1	-	2	187	c.66T>C	c.(64-66)CCT>CCC	p.P22P	KCNG4_uc002fhu.1_Silent_p.P22P	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	22	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						GCTGACTCCAAGGGCTGTGGG	0.627													12	29	---	---	---	---	PASS	G	84271026	G	G	84271026	2	3	108	1	0	0	0	0	0	0	0	1	8030	59	3	5		5	KCNG4	16	84271026	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	5025396	84271026	6083727	839	40281										
BANP	54971	broad.mit.edu	37	chr16	88061218	88061218	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cctggcggtcaagagcttctCgcggagaacgcccaactcgt	12	14	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:88061218C>A	uc002fkr.2	+	8	1222	c.998C>A	c.(997-999)TCG>TAG	p.S333*	BANP_uc002fkp.2_Nonsense_Mutation_p.S303*|BANP_uc002fkq.2_Nonsense_Mutation_p.S303*|BANP_uc010vow.1_Nonsense_Mutation_p.S341*|BANP_uc002fks.3_Nonsense_Mutation_p.S302*|BANP_uc002fko.1_Nonsense_Mutation_p.S239*|BANP_uc010vov.1_Nonsense_Mutation_p.S308*	NM_079837	NP_524576	Q8N9N5	BANP_HUMAN	BTG3 associated nuclear protein isoform b	334	Necessary and sufficient for TP53 activation (By similarity).|Interaction with CUX1 and HDAC1 (By similarity).				cell cycle|chromatin modification|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0				BRCA - Breast invasive adenocarcinoma(80;0.00551)		AAGAGCTTCTCGCGGAGAACG	0.677													17	41	---	---	---	---	PASS	A	88061218	A	A	88061218	4	1	108	1	0	0	0	0	0	1	0	0	1310	893	31	2	1069	2	BANP	16	88061218	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	3790192	88061218	2293535	840	40282										
ZC3H18	124245	broad.mit.edu	37	chr16	88691009	88691009	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcgagcctccctgtctcacaGagagaagtcagtgaagaagc	11	11	2	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:88691009G>C	uc002fky.2	+	12	2099	c.1899_splice	c.e12-1	p.G633_splice	ZC3H18_uc010voz.1_Splice_Site_p.G657_splice|ZC3H18_uc010chw.2_Splice_Site|ZC3H18_uc002fkz.2_5'Flank	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18							nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		CTGTCTCACAGAGAGAAGTCA	0.662													6	9	---	---	---	---	PASS	C	88691009	C	C	88691009	5	2	108	1	0	0	0	0	0	0	1	0	17565	956	33	2	1940	2	ZC3H18	16	88691009	Splice_Site	SNP	G	TCGA-46-3769-01A-01D-0983-08	629791	88691009	1663744	841	40283										
MVD	4597	broad.mit.edu	37	chr16	88722558	88722558	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggccagtgtgactcgggggcCacttgccgagcgatgctgtc	16	12	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr16:88722558C>G	uc002flg.1	-	5	565	c.558G>C	c.(556-558)GTG>GTC	p.V186V	MVD_uc002flf.1_Silent_p.V55V	NM_002461	NP_002452	P53602	MVD1_HUMAN	diphosphomevalonate decarboxylase	186					cholesterol biosynthetic process|positive regulation of cell proliferation	cytosol	ATP binding|diphosphomevalonate decarboxylase activity|Hsp70 protein binding|kinase activity|protein homodimerization activity				0				BRCA - Breast invasive adenocarcinoma(80;0.0478)		ACTCGGGGGCCACTTGCCGAG	0.682													11	34	---	---	---	---	PASS	G	88722558	G	G	88722558	2	3	108	1	0	0	0	0	0	0	0	1	9994	581	21	4		4	MVD	16	88722558	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	31549	88722558	1632195	842	40284										
PAFAH1B1	5048	broad.mit.edu	37	chr17	2541586	2541586	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgacattacagccaagatgGtgctgtcccagagacaacga	10	10	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:2541586G>T	uc002fuw.3	+	2	572	c.4G>T	c.(4-6)GTG>TTG	p.V2L	PAFAH1B1_uc010ckb.1_RNA	NM_000430	NP_000421	P43034	LIS1_HUMAN	platelet-activating factor acetylhydrolase,	2	Required for self-association and interaction with PAFAH1B2 and PAFAH1B3 (By similarity).|Interaction with NDEL1 (By similarity).|Interaction with NDE1 (By similarity).				acrosome assembly|actin cytoskeleton organization|adult locomotory behavior|brain morphogenesis|corpus callosum morphogenesis|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|hippocampus development|layer formation in cerebral cortex|learning or memory|lipid catabolic process|microtubule organizing center organization|mitotic prometaphase|neuroblast proliferation|neuromuscular process controlling balance|neuron migration|platelet activating factor metabolic process|regulation of Rho GTPase activity|retrograde axon cargo transport|synaptic transmission|vesicle transport along microtubule	astral microtubule|cell cortex|centrosome|cytosol|kinetochore|motile primary cilium|nuclear membrane|perinuclear region of cytoplasm	dynactin binding|heparin binding|microtubule binding|phospholipase binding|phosphoprotein binding|protein homodimerization activity			skin(1)	1						AGCCAAGATGGTGCTGTCCCA	0.358													4	25	---	---	---	---	PASS	T	2541586	T	T	2541586	3	4	108	1	0	0	0	0	1	0	0	0	11384	1261	44	3	6	3	PAFAH1B1	17	2541586	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08		2541586	78653624	843	40285										
SLC16A11	162515	broad.mit.edu	37	chr17	6946295	6946295	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agatgcagcagatcgctggcGaaagccgagaagacgaagcc	14	10	0	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:6946295G>T	uc002gei.1	-	2	710	c.372C>A	c.(370-372)TTC>TTA	p.F124L		NM_153357	NP_699188	Q8NCK7	MOT11_HUMAN	solute carrier family 16, member 11	124	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(1)	1						GATCGCTGGCGAAAGCCGAGA	0.687													6	7	---	---	---	---	PASS	T	6946295	T	T	6946295	3	4	108	1	0	0	0	0	1	0	0	0	14404	1049	37	2	1055	2	SLC16A11	17	6946295	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4404709	6946295	74248915	844	40286										
TMEM102	284114	broad.mit.edu	37	chr17	7339853	7339853	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcgaagaaagttccaaggaCtggcaaagctctgtagacca	11	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:7339853C>G	uc002ggx.1	+	3	828	c.555C>G	c.(553-555)GAC>GAG	p.D185E	FGF11_uc010vtw.1_Intron|TMEM102_uc002ggy.1_Missense_Mutation_p.D185E	NM_178518	NP_848613	Q8N9M5	TM102_HUMAN	transmembrane protein 102	185	Extracellular (Potential).				regulation of apoptosis|response to cytokine stimulus|signal transduction	cell surface|integral to membrane|intracellular	protein binding				0		Prostate(122;0.173)				GTTCCAAGGACTGGCAAAGCT	0.582													24	42	---	---	---	---	PASS	G	7339853	G	G	7339853	3	3	108	1	0	0	0	0	1	0	0	0	16014	564	20	4	561	4	TMEM102	17	7339853	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	393558	7339853	73855357	845	40287										
TP53	7157	broad.mit.edu	37	chr17	7578230	7578230	+	Frame_Shift_Del	DEL	C	-	-													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcgaaaagtgtttctgtcatCcaaatactccacacgcaaat							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:7578230delC	uc002gim.2	-	6	813	c.619delG	c.(619-621)GATfs	p.D207fs	TP53_uc002gig.1_Frame_Shift_Del_p.D207fs|TP53_uc002gih.2_Frame_Shift_Del_p.D207fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.D75fs|TP53_uc010cng.1_Frame_Shift_Del_p.D75fs|TP53_uc002gii.1_Frame_Shift_Del_p.D75fs|TP53_uc010cnh.1_Frame_Shift_Del_p.D207fs|TP53_uc010cni.1_Frame_Shift_Del_p.D207fs|TP53_uc002gij.2_Frame_Shift_Del_p.D207fs|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Frame_Shift_Del_p.D114fs|TP53_uc002gio.2_Frame_Shift_Del_p.D75fs|TP53_uc010vug.1_Frame_Shift_Del_p.D168fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	207	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		D -> E (in sporadic cancers; somatic mutation).|D -> N (in sporadic cancers; somatic mutation).|D -> V (in a sporadic cancer; somatic mutation).|D -> G (in sporadic cancers; somatic mutation).|DD -> EY (in a sporadic cancer; somatic mutation).|D -> Y (in a sporadic cancer; somatic mutation).|D -> H (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.D207fs*6(2)|p.D207G(2)|p.K164_P219del(1)|p.D207_R213delDDRNTFR(1)|p.D207A(1)|p.D207fs*2(1)|p.D207_V216del10(1)|p.D207D(1)|p.D207E(1)|p.D207Y(1)|p.E204fs*39(1)|p.E204_N210delEYLDDRN(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)		TTTCTGTCATCCAAATACTCC	0.537		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)			14	17	---	---	---	---		-	7578230	-	-	7578230	7	5	108	1	0	1	0	1	0	0	0	0	16378	855	30	0	675	0	TP53	17	7578230	Frame_Shift_Del	DEL	C	TCGA-46-3769-01A-01D-0983-08	238377	7578230	73616980	846	40288										
ODF4	146852	broad.mit.edu	37	chr17	8243550	8243550	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtaacaggtccttgggccagCgccagaactctccgctgccc	11	16	1	1	rs147153349		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:8243550C>A	uc002gle.1	+	1	363	c.181C>A	c.(181-183)CGC>AGC	p.R61S		NM_153007	NP_694552	Q2M2E3	ODFP4_HUMAN	outer dense fiber of sperm tails 4	61					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)	1						CTTGGGCCAGCGCCAGAACTC	0.592													12	22	---	---	---	---	PASS	A	8243550	A	A	8243550	3	1	108	1	0	0	0	0	1	0	0	0	10833	768	27	1	183	1	ODF4	17	8243550	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	665320	8243550	72951660	847	40289										
PIK3R5	23533	broad.mit.edu	37	chr17	8784233	8784233	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctttcctacctgactacactCtgcaggatctttctctcatc	4	15	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:8784233C>A	uc002glt.2	-	18	2551	c.2484G>T	c.(2482-2484)CAG>CAT	p.Q828H	PIK3R5_uc010vuz.1_Missense_Mutation_p.Q828H|PIK3R5_uc002glu.3_Missense_Mutation_p.Q442H	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	828					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						TGACTACACTCTGCAGGATCT	0.577													21	20	---	---	---	---	PASS	A	8784233	A	A	8784233	3	1	108	1	0	0	0	0	1	0	0	0	11922	912	32	2	166	2	PIK3R5	17	8784233	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	540683	8784233	72410977	848	40290										
MYH8	4626	broad.mit.edu	37	chr17	10298521	10298521	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcgattggcatggttcagctGgatttccatttcattcagat	10	8	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:10298521G>T	uc002gmm.2	-	34	4986	c.4891C>A	c.(4891-4893)CAG>AAG	p.Q1631K	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1631	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TGGTTCAGCTGGATTTCCATT	0.468									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				31	71	---	---	---	---	PASS	T	10298521	T	T	10298521	3	4	108	1	0	0	0	0	1	0	0	0	10041	1357	47	3	950	3	MYH8	17	10298521	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1514288	10298521	70896689	849	40291										
MYH8	4626	broad.mit.edu	37	chr17	10302972	10302972	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcttctagagagcggcacatCttttcaaggtttccctacag	8	11	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:10302972C>A	uc002gmm.2	-	28	3845	c.3750G>T	c.(3748-3750)AAG>AAT	p.K1250N	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1250	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						AGCGGCACATCTTTTCAAGGT	0.418									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				8	31	---	---	---	---	PASS	A	10302972	A	A	10302972	3	1	108	1	0	0	0	0	1	0	0	0	10041	912	32	2	2115	2	MYH8	17	10302972	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	4451	10302972	70892238	850	40292										
MYH4	4622	broad.mit.edu	37	chr17	10356530	10356530	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggtgttgactttgtcctccTccatctgcaggtcatccagg	11	12	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:10356530T>A	uc002gmn.2	-	24	3161	c.3050A>T	c.(3049-3051)GAG>GTG	p.E1017V	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1017	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TTTGTCCTCCTCCATCTGCAG	0.488													26	122	---	---	---	---	PASS	A	10356530	A	A	10356530	3	1	108	1	0	0	0	0	1	0	0	0	10037	1551	54	5	2837	5	MYH4	17	10356530	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	53558	10356530	70838680	851	40293										
MYH1	4619	broad.mit.edu	37	chr17	10398576	10398576	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggatgatgtcttccatctctCcctggatttgggaaatgtct	10	9	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:10398576C>T	uc002gmo.2	-	36	5322	c.5228G>A	c.(5227-5229)GGA>GAA	p.G1743E	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1743	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TTCCATCTCTCCCTGGATTTG	0.453													30	57	---	---	---	---	PASS	T	10398576	T	T	10398576	3	4	108	1	0	0	0	0	1	0	0	0	10029	855	30	2	611	2	MYH1	17	10398576	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	42046	10398576	70796634	852	40294										
MYH1	4619	broad.mit.edu	37	chr17	10404776	10404776	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgctttggcccgggaggccCgctctgcctcgatttcctcc	11	17	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:10404776C>G	uc002gmo.2	-	27	3483	c.3389G>C	c.(3388-3390)CGG>CCG	p.R1130P	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1130	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CCGGGAGGCCCGCTCTGCCTC	0.567													19	8	---	---	---	---	PASS	G	10404776	G	G	10404776	3	3	108	1	0	0	0	0	1	0	0	0	10029	652	23	4	2486	4	MYH1	17	10404776	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6200	10404776	70790434	853	40295										
MYH2	4620	broad.mit.edu	37	chr17	10432232	10432232	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attttctggaactcagcctcCcgcttcttgttcatctcaat	5	13	5	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:10432232C>A	uc010coi.2	-	27	3647	c.3519G>T	c.(3517-3519)CGG>CGT	p.R1173R	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.R1173R|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1173	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						ACTCAGCCTCCCGCTTCTTGT	0.602													7	78	---	---	---	---	PASS	A	10432232	A	A	10432232	2	1	108	1	0	0	0	0	0	0	0	1	10035	610	22	3		3	MYH2	17	10432232	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	27456	10432232	70762978	854	40296										
TMEM220	388335	broad.mit.edu	37	chr17	10628381	10628381	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtacgatgcaagaggtaggaCgccaagccaacagcccacac	11	13	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:10628381C>A	uc002gmx.2	-	4	712	c.234G>T	c.(232-234)GCG>GCT	p.A78A	TMEM220_uc002gmy.2_Silent_p.A68A	NM_001004313	NP_001004313	Q6QAJ8	TM220_HUMAN	transmembrane protein 220	78	Helical; (Potential).					integral to membrane					0						AGAGGTAGGACGCCAAGCCAA	0.443													9	38	---	---	---	---	PASS	A	10628381	A	A	10628381	2	1	108	1	0	0	0	0	0	0	0	1	16141	523	19	1		1	TMEM220	17	10628381	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	196149	10628381	70566829	855	40297										
TRPV2	51393	broad.mit.edu	37	chr17	16323463	16323463	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	accgatttgaccgagatcggCtcttcaatgcggtctcccgg	11	13	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:16323463C>A	uc002gpy.2	+	3	602	c.235C>A	c.(235-237)CTC>ATC	p.L79I	TRPV2_uc002gpz.2_5'UTR	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	79	Cytoplasmic (Potential).|Required for interaction with SLC50A1 (By similarity).|ANK 1.				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CCGAGATCGGCTCTTCAATGC	0.572													30	55	---	---	---	---	PASS	A	16323463	A	A	16323463	3	1	108	1	0	0	0	0	1	0	0	0	16593	797	28	3	241	3	TRPV2	17	16323463	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5695082	16323463	64871747	856	40298										
MAP2K3	5606	broad.mit.edu	37	chr17	21203906	21203906	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaccatctcagaactgggccGtggagcctatggggtggtag	16	9	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:21203906G>T	uc002gys.2	+	4	480	c.215G>T	c.(214-216)CGT>CTT	p.R72L	MAP2K3_uc002gyt.2_Missense_Mutation_p.R43L|MAP2K3_uc002gyu.2_Missense_Mutation_p.R43L	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	72	ATP (By similarity).|Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		GAACTGGGCCGTGGAGCCTAT	0.602													4	12	---	---	---	---	PASS	T	21203906	T	T	21203906	3	4	108	1	0	0	0	0	1	0	0	0	9238	1145	40	1	229	1	MAP2K3	17	21203906	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4880443	21203906	59991304	857	40299										
SEZ6	124925	broad.mit.edu	37	chr17	27306729	27306729	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgccatagccagggtagacaGagatgtagaagaagcagtcc	13	9	0	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:27306729G>A	uc002hdp.2	-	3	1021	c.827C>T	c.(826-828)TCT>TTT	p.S276F	SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Missense_Mutation_p.S276F|SEZ6_uc002hdq.1_Missense_Mutation_p.S151F|SEZ6_uc010crz.1_Missense_Mutation_p.S276F	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	276	Extracellular (Potential).					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			AGGGTAGACAGAGATGTAGAA	0.547													28	13	---	---	---	---	PASS	A	27306729	A	A	27306729	3	1	108	1	0	0	0	0	1	0	0	0	14142	942	33	2	2230	2	SEZ6	17	27306729	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	6102823	27306729	53888481	858	40300										
TAOK1	57551	broad.mit.edu	37	chr17	27869857	27869857	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	catccaatgcaaggtggaccCcagccatggggtcacccttc	10	15	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:27869857C>T	uc002hdz.1	+	20	3017	c.2823C>T	c.(2821-2823)CCC>CCT	p.P941P	TAOK1_uc010wbe.1_Silent_p.P793P|TAOK1_uc010wbf.1_Silent_p.P941P	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	941					mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			AAGGTGGACCCCAGCCATGGG	0.622													5	24	---	---	---	---	PASS	T	27869857	T	T	27869857	2	4	108	1	0	0	0	0	0	0	0	1	15544	610	22	3		3	TAOK1	17	27869857	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	563128	27869857	53325353	859	40301										
NF1	4763	broad.mit.edu	37	chr17	29684054	29684054	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctgaatcaaatgttctcttGgatgaagaagtacttactga	8	6	3	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:29684054G>T	uc002hgg.2	+	53	8148	c.7815G>T	c.(7813-7815)TTG>TTT	p.L2605F	NF1_uc002hgh.2_Missense_Mutation_p.L2584F|NF1_uc010cso.2_Missense_Mutation_p.L793F|NF1_uc010wbt.1_Missense_Mutation_p.L83F|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2605					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		ATGTTCTCTTGGATGAAGAAG	0.418			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			18	84	---	---	---	---	PASS	T	29684054	T	T	29684054	3	4	108	1	0	0	0	0	1	0	0	0	10356	1339	47	3	8086	3	NF1	17	29684054	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1814197	29684054	51511156	860	40302										
SLFN12	55106	broad.mit.edu	37	chr17	33738500	33738500	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	taaggctttaaaaagggcttTcagcaagtatttccttcttg	8	7	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:33738500T>A	uc002hji.3	-	4	1971	c.1594A>T	c.(1594-1596)AAA>TAA	p.K532*	SLFN12_uc002hjj.3_Nonsense_Mutation_p.K532*|SLFN12_uc010cts.2_Nonsense_Mutation_p.K532*	NM_018042	NP_060512	Q8IYM2	SLN12_HUMAN	schlafen family member 12	532							ATP binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		AAAAGGGCTTTCAGCAAGTAT	0.388													30	24	---	---	---	---	PASS	A	33738500	A	A	33738500	4	1	108	1	0	0	0	0	0	1	0	0	14734	1792	62	5	146	5	SLFN12	17	33738500	Nonsense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	4054446	33738500	47456710	861	40303										
GAS2L2	246176	broad.mit.edu	37	chr17	34072205	34072205	+	Missense_Mutation	SNP	T	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctcagcttcagcttgtagaTggacgggaccctcttgggct							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:34072205T>A	uc002hjv.1	-	6	2339	c.2311A>T	c.(2311-2313)ATC>TTC	p.I771F		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	771					cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		AGCTTGTAGATGGACGGGACC	0.607													34	95	---	---	---	---	PASS	A	34072205	A	A	34072205	3	1	108	1	0	0	0	0	1	0	0	0	6247	1464	51	5	335	5	GAS2L2	17	34072205	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	333705	34072205	47123005	862	40304	755	2								
GAS2L2	246176	broad.mit.edu	37	chr17	34072206	34072206	+	Silent	SNP	G	C	C													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcagcttcagcttgtagatGgacgggaccctcttgggctt							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:34072206G>C	uc002hjv.1	-	6	2338	c.2310C>G	c.(2308-2310)TCC>TCG	p.S770S		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	770					cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GCTTGTAGATGGACGGGACCC	0.607													34	92	---	---	---	---	PASS	C	34072206	C	C	34072206	2	2	108	1	0	0	0	0	0	0	0	1	6247	1335	47	4		4	GAS2L2	17	34072206	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1	34072206	47123004	863	40305	755	2								
TNS4	84951	broad.mit.edu	37	chr17	38638626	38638626	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gatgcactcctttggcagacGactcgatgaggaagtgtcgg	14	9	0	2	rs142919679		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:38638626G>C	uc010cxb.2	-	7	1708	c.1544C>G	c.(1543-1545)TCG>TGG	p.S515W	TNS4_uc002huu.3_5'Flank	NM_032865	NP_116254	Q8IZW8	TENS4_HUMAN	tensin 4 precursor	515	SH2.				apoptosis|protein localization	cytoplasm|cytoskeleton|focal adhesion	actin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(5;5.91e-05)			TTTGGCAGACGACTCGATGAG	0.522													6	61	---	---	---	---	PASS	C	38638626	C	C	38638626	3	2	108	1	0	0	0	0	1	0	0	0	16342	1059	37	2	631	2	TNS4	17	38638626	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4566420	38638626	42556584	864	40306										
KRT39	390792	broad.mit.edu	37	chr17	39116541	39116541	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tattttacatacttgccatcCgagctctccagaaggctgcg	8	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:39116541C>T	uc002hvo.1	-	6	1245	c.1209G>A	c.(1207-1209)TCG>TCA	p.S403S	KRT39_uc010wfm.1_Silent_p.S136S	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	403	Coil 2.|Rod.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				ACTTGCCATCCGAGCTCTCCA	0.468													15	55	---	---	---	---	PASS	T	39116541	T	T	39116541	2	4	108	1	0	0	0	0	0	0	0	1	8476	639	23	1		1	KRT39	17	39116541	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	477915	39116541	42078669	865	40307										
KRT40	125115	broad.mit.edu	37	chr17	39140113	39140113	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttcaatggtgttgaagtaaCgctgataatccgggcacacc	10	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:39140113C>G	uc010cxh.1	-	3	574	c.413G>C	c.(412-414)CGT>CCT	p.R138P	KRT40_uc002hvq.1_RNA	NM_182497	NP_872303	Q6A162	K1C40_HUMAN	type I hair keratin KA36	138	Rod.|Coil 1B.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)				GTTGAAGTAACGCTGATAATC	0.483													85	48	---	---	---	---	PASS	G	39140113	G	G	39140113	3	3	108	1	0	0	0	0	1	0	0	0	8478	536	19	4	910	4	KRT40	17	39140113	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	23572	39140113	42055097	866	40308										
KRT36	8689	broad.mit.edu	37	chr17	39642717	39642717	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggtgcggatctgagtgccaaCctggggagccggggtgcagg	20	9	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:39642717C>A	uc002hwt.2	-	7	1315	c.1315G>T	c.(1315-1317)GTT>TTT	p.V439F		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	439	Tail.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)				TGAGTGCCAACCTGGGGAGCC	0.622													10	26	---	---	---	---	PASS	A	39642717	A	A	39642717	3	1	108	1	0	0	0	0	1	0	0	0	8473	507	18	3	92	3	KRT36	17	39642717	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	502604	39642717	41552493	867	40309										
PTRF	284119	broad.mit.edu	37	chr17	40556972	40556972	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcgtacaccacgtggtcgggCgtgaaggatttgcgcaactt	14	10	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:40556972C>A	uc002hzo.2	-	2	1065	c.906G>T	c.(904-906)ACG>ACT	p.T302T	PTRF_uc010wgi.1_Silent_p.T284T	NM_012232	NP_036364	Q6NZI2	PTRF_HUMAN	polymerase I and transcript release factor	302					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)		CGTGGTCGGGCGTGAAGGATT	0.642													12	52	---	---	---	---	PASS	A	40556972	A	A	40556972	2	1	108	1	0	0	0	0	0	0	0	1	12815	755	27	1		1	PTRF	17	40556972	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	914255	40556972	40638238	868	40310										
BRCA1	672	broad.mit.edu	37	chr17	41244070	41244070	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agcaaaactagtatcttcctTtatttcaccatcatctaaca	2	11	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:41244070T>A	uc002icq.2	-	10	3710	c.3478A>T	c.(3478-3480)AAG>TAG	p.K1160*	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Nonsense_Mutation_p.K1089*|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Nonsense_Mutation_p.K1113*|BRCA1_uc002ict.2_Nonsense_Mutation_p.K1160*|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Nonsense_Mutation_p.K1160*|BRCA1_uc002ide.1_Nonsense_Mutation_p.K991*|BRCA1_uc010cyy.1_Nonsense_Mutation_p.K1160*|BRCA1_uc010whs.1_Nonsense_Mutation_p.K1160*|BRCA1_uc010cyz.2_Nonsense_Mutation_p.K1113*|BRCA1_uc010cza.2_Nonsense_Mutation_p.K1134*|BRCA1_uc010wht.1_Nonsense_Mutation_p.K864*	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	1160					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		GTATCTTCCTTTATTTCACCA	0.398			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			10	84	---	---	---	---	PASS	A	41244070	A	A	41244070	4	1	108	1	0	0	0	0	0	1	0	0	1498	1850	64	5	2239	5	BRCA1	17	41244070	Nonsense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	687098	41244070	39951140	869	40311										
NBR1	4077	broad.mit.edu	37	chr17	41341074	41341074	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cccagtcgtttccacttgttCcatgtgacacagaccagcct	7	15	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:41341074C>G	uc010czd.2	+	7	558	c.418C>G	c.(418-420)CCA>GCA	p.P140A	NBR1_uc010diz.2_Missense_Mutation_p.P140A|NBR1_uc010whu.1_Missense_Mutation_p.P140A|NBR1_uc010whv.1_Missense_Mutation_p.P140A|NBR1_uc010whw.1_Missense_Mutation_p.P119A|NBR1_uc010whx.1_5'Flank	NM_031862	NP_114068	Q14596	NBR1_HUMAN	neighbor of BRCA1 gene 1	140					macroautophagy|protein oligomerization	autophagic vacuole|cytoplasmic vesicle|cytosol|late endosome|lysosome|sarcomere	ubiquitin binding|zinc ion binding			skin(1)	1		Breast(137;0.00086)		BRCA - Breast invasive adenocarcinoma(366;0.0934)		TCCACTTGTTCCATGTGACAC	0.448													5	67	---	---	---	---	PASS	G	41341074	G	G	41341074	3	3	108	1	0	0	0	0	1	0	0	0	10200	855	30	2	440	2	NBR1	17	41341074	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	97004	41341074	39854136	870	40312										
HOXB3	3213	broad.mit.edu	37	chr17	46628422	46628422	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcgtgtacgccgtccgcgcCcgcttggacgccgccgaccc	12	20	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:46628422C>A	uc002inn.2	-	2	970	c.570G>T	c.(568-570)CGG>CGT	p.R190R	HOXB3_uc010wlm.1_Silent_p.R117R|HOXB3_uc010dbf.2_Silent_p.R190R|HOXB3_uc010dbg.2_Silent_p.R190R|HOXB3_uc002ino.2_Silent_p.R190R|HOXB3_uc010wlk.1_Silent_p.R58R|HOXB3_uc010wll.1_Silent_p.R117R	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	190	Homeobox.				angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CCGTCCGCGCCCGCTTGGACG	0.488													11	34	---	---	---	---	PASS	A	46628422	A	A	46628422	2	1	108	1	0	0	0	0	0	0	0	1	7302	610	22	3		3	HOXB3	17	46628422	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	5287348	46628422	34566788	871	40313										
HOXB6	3216	broad.mit.edu	37	chr17	46673923	46673923	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggcgtgcgcgatctcgatgCgccgccgccgcgtcaggtag	17	14	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:46673923C>A	uc002ins.1	-	4	852	c.527G>T	c.(526-528)CGC>CTC	p.R176L	HOXB5_uc002inr.2_5'Flank|HOXB6_uc010dbh.1_Missense_Mutation_p.R176L|HOXB6_uc002int.1_3'UTR	NM_018952	NP_061825	P17509	HXB6_HUMAN	homeobox B6	176	Homeobox.				anterior/posterior axis specification, embryo	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GATCTCGATGCGCCGCCGCCG	0.607													45	27	---	---	---	---	PASS	A	46673923	A	A	46673923	3	1	108	1	0	0	0	0	1	0	0	0	7305	768	27	1	151	1	HOXB6	17	46673923	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	45501	46673923	34521287	872	40314										
KIF2B	84643	broad.mit.edu	37	chr17	51900869	51900869	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aaatccagaaactgcaggagCagcgggaaaagcgcaggcgg	15	9	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:51900869C>A	uc002iua.2	+	1	631	c.475C>A	c.(475-477)CAG>AAG	p.Q159K	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	159	Potential.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						ACTGCAGGAGCAGCGGGAAAA	0.557													11	23	---	---	---	---	PASS	A	51900869	A	A	51900869	3	1	108	1	0	0	0	0	1	0	0	0	8298	711	25	3	477	3	KIF2B	17	51900869	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5226946	51900869	29294341	873	40315										
KIF2B	84643	broad.mit.edu	37	chr17	51901186	51901186	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tacctgcagaaccagaccttCtgcttcgaccatgccttcga	7	15	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:51901186C>A	uc002iua.2	+	1	948	c.792C>A	c.(790-792)TTC>TTA	p.F264L	uc010wna.1_Intron	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	264	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						ACCAGACCTTCTGCTTCGACC	0.557													15	19	---	---	---	---	PASS	A	51901186	A	A	51901186	3	1	108	1	0	0	0	0	1	0	0	0	8298	912	32	2	794	2	KIF2B	17	51901186	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	317	51901186	29294024	874	40316										
MSI2	124540	broad.mit.edu	37	chr17	55693342	55693342	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtttaacaggtagaatgtaaGaaagctcagccgaaagaagt	11	5	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:55693342G>C	uc002iuz.1	+	9	722	c.549G>C	c.(547-549)AAG>AAC	p.K183N	MSI2_uc010wnm.1_Missense_Mutation_p.K161N|MSI2_uc002iva.2_Missense_Mutation_p.K179N	NM_138962	NP_620412	Q96DH6	MSI2H_HUMAN	musashi 2 isoform a	183	RRM 2.					cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)|pancreas(1)	2	Breast(9;1.78e-08)			GBM - Glioblastoma multiforme(1;0.0025)		TAGAATGTAAGAAAGCTCAGC	0.483			T	HOXA9	CML								22	19	---	---	---	---	PASS	C	55693342	C	C	55693342	3	2	108	1	0	0	0	0	1	0	0	0	9876	933	33	2	633	2	MSI2	17	55693342	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3792156	55693342	25501868	875	40317										
MKS1	54903	broad.mit.edu	37	chr17	56293532	56293532	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acccgaattctccagcttcaGgatctcctgacggtactgat	8	13	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:56293532G>A	uc002ivr.1	-	4	409	c.334C>T	c.(334-336)CTG>TTG	p.L112L	MKS1_uc010wnq.1_5'UTR|MKS1_uc002ivs.1_Silent_p.L112L	NM_017777	NP_060247	Q9NXB0	MKS1_HUMAN	Meckel syndrome type 1 protein isoform 1	112					cilium assembly	centrosome|cilium|microtubule basal body	protein binding			ovary(1)	1						TCCAGCTTCAGGATCTCCTGA	0.428													22	27	---	---	---	---	PASS	A	56293532	A	A	56293532	2	1	108	1	0	0	0	0	0	0	0	1	9609	991	35	3		3	MKS1	17	56293532	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	600190	56293532	24901678	876	40318										
MARCH10	162333	broad.mit.edu	37	chr17	60814365	60814365	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtttcctcttcagtgtcatcGctttctcttctgctgttcaa	6	12	6	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:60814365G>T	uc010ddr.2	-	6	1102	c.864C>A	c.(862-864)AGC>AGA	p.S288R	MARCH10_uc002jag.3_Missense_Mutation_p.S288R|MARCH10_uc010dds.2_Missense_Mutation_p.S326R|MARCH10_uc002jah.2_Missense_Mutation_p.S287R|uc002jaj.1_RNA|uc002jak.2_RNA	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	288							ligase activity|zinc ion binding				0						CAGTGTCATCGCTTTCTCTTC	0.473													75	93	---	---	---	---	PASS	T	60814365	T	T	60814365	3	4	108	1	0	0	0	0	1	0	0	0	9299	1078	38	1	1586	1	MARCH10	17	60814365	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4520833	60814365	20380845	877	40319										
SCN4A	6329	broad.mit.edu	37	chr17	62049739	62049739	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgagcaccttgatggccccgCgcctgactacgctgaagggg	14	13	0	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:62049739C>A	uc002jds.1	-	2	442	c.365G>T	c.(364-366)CGC>CTC	p.R122L		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	122					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GATGGCCCCGCGCCTGACTAC	0.612													13	9	---	---	---	---	PASS	A	62049739	A	A	62049739	3	1	108	1	0	0	0	0	1	0	0	0	13920	768	27	1	5237	1	SCN4A	17	62049739	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1235374	62049739	19145471	878	40320										
ABCA8	10351	broad.mit.edu	37	chr17	66878019	66878019	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccaaccttttctaacacagaAggagacatttctcgtggcta	7	11	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:66878019A>G	uc002jhp.2	-	29	3990	c.3811T>C	c.(3811-3813)TTC>CTC	p.F1271L	ABCA8_uc002jhq.2_Missense_Mutation_p.F1311L|ABCA8_uc010wqq.1_Missense_Mutation_p.F1306L	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	1271	ABC transporter 2.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					CTAACACAGAAGGAGACATTT	0.483													24	30	---	---	---	---	PASS	G	66878019	G	G	66878019	3	3	108	1	0	0	0	0	1	0	0	0	38	72	3	5	974	5	ABCA8	17	66878019	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	4828280	66878019	14317191	879	40321										
ABCA9	10350	broad.mit.edu	37	chr17	66982358	66982358	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agacctttcacggcagcgtaCacctccaggtgctgcctcac	9	16	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:66982358C>A	uc002jhu.2	-	32	4298	c.4155G>T	c.(4153-4155)GTG>GTT	p.V1385V	ABCA9_uc010dez.2_Silent_p.V1347V	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1385	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					CGGCAGCGTACACCTCCAGGT	0.617													16	27	---	---	---	---	PASS	A	66982358	A	A	66982358	2	1	108	1	0	0	0	0	0	0	0	1	39	465	17	3		3	ABCA9	17	66982358	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	104339	66982358	14212852	880	40322										
ABCA9	10350	broad.mit.edu	37	chr17	67029935	67029935	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtcaaaaaccaacatgaaaAgagtagctattatgaggtat	8	5	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:67029935A>T	uc002jhu.2	-	9	1351	c.1208T>A	c.(1207-1209)CTT>CAT	p.L403H	ABCA9_uc010dez.2_Missense_Mutation_p.L403H	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	403	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					CAACATGAAAAGAGTAGCTAT	0.333													22	30	---	---	---	---	PASS	T	67029935	T	T	67029935	3	4	108	1	0	0	0	0	1	0	0	0	39	72	3	5	3790	5	ABCA9	17	67029935	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	47577	67029935	14165275	881	40323										
GPR142	350383	broad.mit.edu	37	chr17	72368181	72368181	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccccaggccggacccgccgGgccattgctgctgtcctgag	13	17	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:72368181G>T	uc010wqy.1	+	4	831	c.831G>T	c.(829-831)CGG>CGT	p.R277R	GPR142_uc010wqx.1_Silent_p.R189R	NM_181790	NP_861455	Q7Z601	GP142_HUMAN	G protein-coupled receptor 142	277	Cytoplasmic (Potential).					cell junction|cytoplasm|integral to membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GGACCCGCCGGGCCATTGCTG	0.657													4	9	---	---	---	---	PASS	T	72368181	T	T	72368181	2	4	108	1	0	0	0	0	0	0	0	1	6650	1219	43	3		3	GPR142	17	72368181	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	5338246	72368181	8827029	882	40324										
ENPP7	339221	broad.mit.edu	37	chr17	77704931	77704931	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctggccgtcctcctcactgtGgctctggccacgctcctggc	11	18	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:77704931G>C	uc002jxa.2	+	1	50	c.30G>C	c.(28-30)GTG>GTC	p.V10V		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	10					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			TCCTCACTGTGGCTCTGGCCA	0.657													7	10	---	---	---	---	PASS	C	77704931	C	C	77704931	2	2	108	1	0	0	0	0	0	0	0	1	5135	1335	47	4		4	ENPP7	17	77704931	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	5336750	77704931	3490279	883	40325										
ENPP7	339221	broad.mit.edu	37	chr17	77711788	77711788	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctctcccgcccagcagcagGcccctcctcgtgatgggact	11	18	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:77711788G>C	uc002jxa.2	+	5	1340	c.1320G>C	c.(1318-1320)AGG>AGC	p.R440S		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	440	Helical; (Potential).				negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CCAGCAGCAGGCCCCTCCTCG	0.607													21	36	---	---	---	---	PASS	C	77711788	C	C	77711788	3	2	108	1	0	0	0	0	1	0	0	0	5135	1194	42	4	1338	4	ENPP7	17	77711788	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	6857	77711788	3483422	884	40326										
RNF213	57674	broad.mit.edu	37	chr17	78323667	78323667	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acccacactcctgtggctgcAgcagtttgacaccgagtact	9	14	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:78323667A>G	uc002jyh.1	+	5	4491	c.4268A>G	c.(4267-4269)CAG>CGG	p.Q1423R		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)			CTGTGGCTGCAGCAGTTTGAC	0.557													18	21	---	---	---	---	PASS	G	78323667	G	G	78323667	3	3	108	1	0	0	0	0	1	0	0	0	13477	188	7	5	10482	5	RNF213	17	78323667	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	611879	78323667	2871543	885	40327										
SLC25A10	1468	broad.mit.edu	37	chr17	79686896	79686896	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccgtggagacagcgaagctCgggcctctggccttttacaa	13	12	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr17:79686896C>G	uc002kbi.2	+	10	827	c.741C>G	c.(739-741)CTC>CTG	p.L247L	SLC25A10_uc010wut.1_Silent_p.L402L|SLC25A10_uc010dif.2_Silent_p.L256L|SLC25A10_uc010wuu.1_Silent_p.L201L	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	247	Solcar 3.				gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)	CAGCGAAGCTCGGGCCTCTGG	0.582													47	50	---	---	---	---	PASS	G	79686896	G	G	79686896	2	3	108	1	0	0	0	0	0	0	0	1	14472	871	31	2		2	SLC25A10	17	79686896	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1363229	79686896	1508314	886	40328										
KIAA0802	23255	broad.mit.edu	37	chr18	8819111	8819111	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgctgactccatcccgtttGaagaccggccgctgtccaag	10	14	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:8819111G>A	uc002knr.2	+	13	3152	c.3010G>A	c.(3010-3012)GAA>AAA	p.E1004K	KIAA0802_uc002knq.2_Missense_Mutation_p.E963K|KIAA0802_uc002kns.2_Missense_Mutation_p.E344K	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1314											0						CATCCCGTTTGAAGACCGGCC	0.607													18	14	---	---	---	---	PASS	A	8819111	A	A	8819111	3	1	108	1	0	0	0	0	1	0	0	0	8194	1291	45	2	3052	2	KIAA0802	18	8819111	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08		8819111	69258137	887	40329										
OSBPL1A	114876	broad.mit.edu	37	chr18	21957471	21957471	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccatttctggcgtgatggagAagctgttgctccgcttctgt	12	10	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:21957471A>T	uc002kve.2	-	2	201	c.27T>A	c.(25-27)CTT>CTA	p.L9L		NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	9					cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					CGTGATGGAGAAGCTGTTGCT	0.353													37	19	---	---	---	---	PASS	T	21957471	T	T	21957471	2	4	108	1	0	0	0	0	0	0	0	1	11277	233	9	5		5	OSBPL1A	18	21957471	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	13138360	21957471	56119777	888	40330										
DSG2	1829	broad.mit.edu	37	chr18	29099864	29099864	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcccccgtggctcttcgggaGggagaggatctgtccaagaa	15	11	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:29099864G>C	uc002kwu.3	+	3	368	c.180G>C	c.(178-180)GAG>GAC	p.E60D		NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	60	Extracellular (Potential).|Cadherin 1.				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			CTCTTCGGGAGGGAGAGGATC	0.463													65	52	---	---	---	---	PASS	C	29099864	C	C	29099864	3	2	108	1	0	0	0	0	1	0	0	0	4777	991	35	4	190	4	DSG2	18	29099864	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	7142393	29099864	48977384	889	40331										
ELP2	55250	broad.mit.edu	37	chr18	33725955	33725955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gattattatctgcttccatgGataaaaccatgattctctgg	7	8	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:33725955G>T	uc002kzk.1	+	10	947	c.937G>T	c.(937-939)GAT>TAT	p.D313Y	ELP2_uc010xcg.1_Missense_Mutation_p.D378Y|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Missense_Mutation_p.D287Y|ELP2_uc010xch.1_Missense_Mutation_p.D352Y|ELP2_uc002kzn.1_Missense_Mutation_p.D287Y|ELP2_uc002kzo.1_Missense_Mutation_p.D243Y	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	313	WD 6.				regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						TGCTTCCATGGATAAAACCAT	0.363													39	256	---	---	---	---	PASS	T	33725955	T	T	33725955	3	4	108	1	0	0	0	0	1	0	0	0	5080	1174	41	2	975	2	ELP2	18	33725955	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4626091	33725955	44351293	890	40332										
RIT2	6014	broad.mit.edu	37	chr18	40503725	40503725	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcccgcatggctgtgaattCtgcctgcaggaaaaaaaaaa	9	10	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:40503725C>G	uc002lav.2	-	4	411	c.238G>C	c.(238-240)GAA>CAA	p.E80Q	RIT2_uc010dnf.2_Missense_Mutation_p.E80Q	NM_002930	NP_002921	Q99578	RIT2_HUMAN	Ras-like without CAAX 2	80					nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1						GCTGTGAATTCTGCCTGCAGG	0.383													282	67	---	---	---	---	PASS	G	40503725	G	G	40503725	3	3	108	1	0	0	0	0	1	0	0	0	13387	922	32	2	423	2	RIT2	18	40503725	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6777770	40503725	37573523	891	40333										
FECH	2235	broad.mit.edu	37	chr18	55247367	55247367	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgggctgtttctgtggtgacGgccgctgcagctgcacctga	15	11	1	2	rs147500247		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:55247367G>A	uc002lgq.3	-	2	249	c.132C>T	c.(130-132)GCC>GCT	p.A44A	FECH_uc002lgp.3_Silent_p.A44A|FECH_uc002lgr.3_5'UTR	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor	44					generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)				CTGTGGTGACGGCCGCTGCAG	0.507													5	17	---	---	---	---	PASS	A	55247367	A	A	55247367	2	1	108	1	0	0	0	0	0	0	0	1	5808	1103	39	1		1	FECH	18	55247367	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	14743642	55247367	22829881	892	40334										
SERPINB12	89777	broad.mit.edu	37	chr18	61226897	61226897	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gacaggatcaagactgattaCacactgagtattgccaacag	9	9	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:61226897C>G	uc010xen.1	+	3	330	c.330C>G	c.(328-330)TAC>TAG	p.Y110*	SERPINB12_uc010xeo.1_Nonsense_Mutation_p.Y130*	NM_080474	NP_536722	Q96P63	SPB12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	110					negative regulation of protein catabolic process|regulation of proteolysis	cytoplasm	enzyme binding|serine-type endopeptidase inhibitor activity				0						AGACTGATTACACACTGAGTA	0.458													7	33	---	---	---	---	PASS	G	61226897	G	G	61226897	4	3	108	1	0	0	0	0	0	1	0	0	14099	489	17	4	340	4	SERPINB12	18	61226897	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5979530	61226897	16850351	893	40335										
SERPINB4	6318	broad.mit.edu	37	chr18	61305083	61305083	+	Missense_Mutation	SNP	G	C	C													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ataattcgactactactacaGcggtggcagctgcagcttcc							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:61305083G>C	uc002ljf.2	-	8	1129	c.1043C>G	c.(1042-1044)GCT>GGT	p.A348G	SERPINB4_uc002lje.2_Missense_Mutation_p.A327G|SERPINB4_uc002ljg.2_Missense_Mutation_p.A348G	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	348					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						TACTACTACAGCGGTGGCAGC	0.468													9	15	---	---	---	---	PASS	C	61305083	C	C	61305083	3	2	108	1	0	0	0	0	1	0	0	0	14103	971	34	4	133	4	SERPINB4	18	61305083	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	78186	61305083	16772165	894	40336	756	2								
SERPINB4	6318	broad.mit.edu	37	chr18	61305084	61305084	+	Missense_Mutation	SNP	C	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	taattcgactactactacagCggtggcagctgcagcttcca							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:61305084C>T	uc002ljf.2	-	8	1128	c.1042G>A	c.(1042-1044)GCT>ACT	p.A348T	SERPINB4_uc002lje.2_Missense_Mutation_p.A327T|SERPINB4_uc002ljg.2_Missense_Mutation_p.A348T	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	348					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						ACTACTACAGCGGTGGCAGCT	0.468													8	15	---	---	---	---	PASS	T	61305084	T	T	61305084	3	4	108	1	0	0	0	0	1	0	0	0	14103	768	27	1	134	1	SERPINB4	18	61305084	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1	61305084	16772164	895	40337	756	2								
SERPINB4	6318	broad.mit.edu	37	chr18	61306500	61306500	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tatggtatttccaggaccttGgcctgtacatcctccagcaa	8	12	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:61306500G>T	uc002ljf.2	-	7	773	c.687C>A	c.(685-687)GCC>GCA	p.A229A	SERPINB4_uc002lje.2_Silent_p.A208A|SERPINB4_uc002ljg.2_Intron	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	229					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						CCAGGACCTTGGCCTGTACAT	0.398													10	23	---	---	---	---	PASS	T	61306500	T	T	61306500	2	4	108	1	0	0	0	0	0	0	0	1	14103	1335	47	3		3	SERPINB4	18	61306500	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1416	61306500	16770748	896	40338										
SERPINB7	8710	broad.mit.edu	37	chr18	61459629	61459629	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttgtgccctgtttacagttGcttcatgttaacactgcctc	7	12	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:61459629G>T	uc002ljl.2	+	3	267	c.171G>T	c.(169-171)TTG>TTT	p.L57F	SERPINB7_uc002ljm.2_Missense_Mutation_p.L57F|SERPINB7_uc010xet.1_Intron|SERPINB7_uc010dqg.2_Missense_Mutation_p.L57F	NM_001040147	NP_001035237	O75635	SPB7_HUMAN	serine (or cysteine) proteinase inhibitor, clade	57					regulation of proteolysis	cytoplasm	serine-type endopeptidase inhibitor activity			lung(2)|central_nervous_system(1)	3		Esophageal squamous(42;0.129)				GTTTACAGTTGCTTCATGTTA	0.313													7	21	---	---	---	---	PASS	T	61459629	T	T	61459629	3	4	108	1	0	0	0	0	1	0	0	0	14106	1310	46	3	177	3	SERPINB7	18	61459629	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	153129	61459629	16617619	897	40339										
NETO1	81832	broad.mit.edu	37	chr18	70532107	70532107	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggatagttgggagaggtaaaGatacctccctctgcatgttt	12	7	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:70532107G>T	uc002lkw.2	-	3	440	c.156C>A	c.(154-156)ATC>ATA	p.I52I	NETO1_uc002lkx.1_Silent_p.I51I|NETO1_uc002lky.1_Silent_p.I52I|NETO1_uc002lkz.2_Silent_p.I51I	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	52	CUB 1.|Extracellular (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		GAGAGGTAAAGATACCTCCCT	0.423													7	31	---	---	---	---	PASS	T	70532107	T	T	70532107	2	4	108	1	0	0	0	0	0	0	0	1	10339	932	33	2		2	NETO1	18	70532107	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	9072478	70532107	7545141	898	40340										
TSHZ1	10194	broad.mit.edu	37	chr18	72998837	72998837	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcagcccgactctcccgcggGgtccacgacttctgaagaaa	11	15	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:72998837G>T	uc002lly.2	+	2	1903	c.1340G>T	c.(1339-1341)GGG>GTG	p.G447V		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	492						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		TCTCCCGCGGGGTCCACGACT	0.607													8	35	---	---	---	---	PASS	T	72998837	T	T	72998837	3	4	108	1	0	0	0	0	1	0	0	0	16620	1232	43	3	1342	3	TSHZ1	18	72998837	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2466730	72998837	5078411	899	40341										
ZNF236	7776	broad.mit.edu	37	chr18	74622041	74622041	+	Nonsense_Mutation	SNP	C	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagatgggtttgtggctccaCaggaccctctgcgagggcac							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:74622041C>T	uc002lmi.2	+	15	2761	c.2563C>T	c.(2563-2565)CAG>TAG	p.Q855*	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	855					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TGTGGCTCCACAGGACCCTCT	0.512													15	54	---	---	---	---	PASS	T	74622041	T	T	74622041	4	4	108	1	0	0	0	0	0	1	0	0	17786	479	17	3	2621	3	ZNF236	18	74622041	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1623204	74622041	3455207	900	40342	757	2								
ZNF236	7776	broad.mit.edu	37	chr18	74622042	74622042	+	Missense_Mutation	SNP	A	T	T													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agatgggtttgtggctccacAggaccctctgcgagggcacg							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:74622042A>T	uc002lmi.2	+	15	2762	c.2564A>T	c.(2563-2565)CAG>CTG	p.Q855L	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	855					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GTGGCTCCACAGGACCCTCTG	0.512													15	54	---	---	---	---	PASS	T	74622042	T	T	74622042	3	4	108	1	0	0	0	0	1	0	0	0	17786	188	7	5	2622	5	ZNF236	18	74622042	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	1	74622042	3455206	901	40343	757	2								
ZNF236	7776	broad.mit.edu	37	chr18	74631815	74631815	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggtcatcactttcacggagGaggagacagcccagttagcc	12	11	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:74631815G>T	uc002lmi.2	+	20	3550	c.3352G>T	c.(3352-3354)GAG>TAG	p.E1118*	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1118					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TTTCACGGAGGAGGAGACAGC	0.532													10	68	---	---	---	---	PASS	T	74631815	T	T	74631815	4	4	108	1	0	0	0	0	0	1	0	0	17786	1175	41	2	3430	2	ZNF236	18	74631815	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	9773	74631815	3445433	902	40344										
C18orf22	79863	broad.mit.edu	37	chr18	77794505	77794505	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggcgccgcgccatgtgggctGcggcgggcgggctgtggcgc	22	13	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr18:77794505G>T	uc002lns.2	+	1	148	c.10G>T	c.(10-12)GCG>TCG	p.A4S	TXNL4A_uc010drg.2_5'Flank|C18orf22_uc010drh.2_Missense_Mutation_p.A4S|C18orf22_uc010dri.1_RNA	NM_024805	NP_079081	Q8N0V3	RBFA_HUMAN	hypothetical protein LOC79863 precursor	4					rRNA processing	mitochondrion					0		all_cancers(4;3.21e-14)|all_epithelial(4;7.11e-09)|all_lung(4;0.00366)|Lung NSC(4;0.00683)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0545)|all_hematologic(56;0.15)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;6.46e-08)|BRCA - Breast invasive adenocarcinoma(31;0.00376)		CATGTGGGCTGCGGCGGGCGG	0.751													3	4	---	---	---	---	PASS	T	77794505	T	T	77794505	3	4	108	1	0	0	0	0	1	0	0	0	1898	1319	46	3	12	3	C18orf22	18	77794505	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3162690	77794505	282743	903	40345										
MIER2	54531	broad.mit.edu	37	chr19	313641	313641	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagctggtcttcgttctcgtAgactgcacaagcagagggca	12	11	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:313641A>G	uc002lok.1	-	8	667	c.658T>C	c.(658-660)TAC>CAC	p.Y220H		NM_017550	NP_060020	Q8N344	MIER2_HUMAN	mesoderm induction early response 1, family	220	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		all_cancers(10;1.05e-30)|all_epithelial(18;3.04e-19)|Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;2.49e-05)|all_lung(49;4.36e-05)|Breast(49;0.000304)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCGTTCTCGTAGACTGCACAA	0.607													11	35	---	---	---	---	PASS	G	313641	G	G	313641	3	3	108	1	0	0	0	0	1	0	0	0	9581	420	15	5	1007	5	MIER2	19	313641	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08		313641	58815342	904	40346										
ABCA7	10347	broad.mit.edu	37	chr19	1043053	1043053	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctctagctcctggcgctgcGcagcctggtggagcttcggg	15	13	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:1043053G>T	uc002lqw.3	+	8	824	c.593G>T	c.(592-594)CGC>CTC	p.R198L	ABCA7_uc010dsb.1_Missense_Mutation_p.R60L	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	198	Extracellular (By similarity).				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGGCGCTGCGCAGCCTGGTG	0.667													5	18	---	---	---	---	PASS	T	1043053	T	T	1043053	3	4	108	1	0	0	0	0	1	0	0	0	37	1087	38	1	619	1	ABCA7	19	1043053	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	729412	1043053	58085930	905	40347										
ABCA7	10347	broad.mit.edu	37	chr19	1056367	1056367	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggctggcactccatggtggcCtttgtcaaccgagccagcaa	12	13	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:1056367C>G	uc002lqw.3	+	33	4686	c.4455C>G	c.(4453-4455)GCC>GCG	p.A1485A	ABCA7_uc002lqy.2_5'Flank|ABCA7_uc010dsc.2_5'Flank	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	1485	Extracellular (By similarity).				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCATGGTGGCCTTTGTCAACC	0.612													6	20	---	---	---	---	PASS	G	1056367	G	G	1056367	2	3	108	1	0	0	0	0	0	0	0	1	37	668	24	4		4	ABCA7	19	1056367	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	13314	1056367	58072616	906	40348										
C19orf29	58509	broad.mit.edu	37	chr19	3611925	3611925	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccgttccccagggccgtcacCgccgatagcggtagcgcttg	13	16	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:3611925C>A	uc002lyh.2	-	10	2326	c.2273G>T	c.(2272-2274)CGG>CTG	p.R758L	C19orf29_uc010xho.1_Missense_Mutation_p.R217L|C19orf29_uc010dtn.2_Missense_Mutation_p.R606L|C19orf29_uc002lyi.3_Missense_Mutation_p.R758L|C19orf29_uc010dto.2_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	758						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGCCGTCACCGCCGATAGCG	0.647													10	14	---	---	---	---	PASS	A	3611925	A	A	3611925	3	1	108	1	0	0	0	0	1	0	0	0	1918	652	23	1	7	1	C19orf29	19	3611925	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2555558	3611925	55517058	907	40349										
ZNRF4	148066	broad.mit.edu	37	chr19	5456134	5456134	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggccagatcgccatcccctCagtgttcgtgagcgaggccg	14	14	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:5456134C>T	uc002mca.3	+	1	709	c.632C>T	c.(631-633)TCA>TTA	p.S211L		NM_181710	NP_859061	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4 precursor	211	Extracellular (Potential).|PA.					integral to membrane	zinc ion binding			large_intestine(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		GCCATCCCCTCAGTGTTCGTG	0.677													11	43	---	---	---	---	PASS	T	5456134	T	T	5456134	3	4	108	1	0	0	0	0	1	0	0	0	18211	838	29	2	634	2	ZNRF4	19	5456134	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1844209	5456134	53672849	908	40350										
SAFB2	9667	broad.mit.edu	37	chr19	5622569	5622569	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccgctccatcaggacgctcTtgttgccgcccgtgtccagg	12	16	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:5622569T>A	uc002mcd.2	-	1	370	c.158A>T	c.(157-159)AAG>ATG	p.K53M	SAFB_uc010xiq.1_5'Flank|SAFB_uc002mcf.2_5'Flank|SAFB_uc002mcg.2_5'Flank|SAFB_uc002mce.3_5'Flank|SAFB_uc010xir.1_5'Flank|SAFB_uc010xis.1_5'Flank|SAFB_uc010xit.1_5'Flank|SAFB_uc010xiu.1_5'Flank|SAFB2_uc010xio.1_Missense_Mutation_p.K53M|SAFB2_uc010xip.1_RNA	NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	53	SAP.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		CAGGACGCTCTTGTTGCCGCC	0.726													5	8	---	---	---	---	PASS	A	5622569	A	A	5622569	3	1	108	1	0	0	0	0	1	0	0	0	13807	1609	56	5	2787	5	SAFB2	19	5622569	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	166435	5622569	53506414	909	40351										
FBN3	84467	broad.mit.edu	37	chr19	8175984	8175984	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggtggggtcaaagcccatctCacattcacagcggtacccgc	11	14	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:8175984C>G	uc002mjf.2	-	32	4189	c.4168G>C	c.(4168-4170)GAG>CAG	p.E1390Q		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1390	EGF-like 21; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						AAGCCCATCTCACATTCACAG	0.642													6	16	---	---	---	---	PASS	G	8175984	G	G	8175984	3	3	108	1	0	0	0	0	1	0	0	0	5704	835	29	2	4389	2	FBN3	19	8175984	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2553415	8175984	50952999	910	40352										
MUC16	94025	broad.mit.edu	37	chr19	9010658	9010658	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggtacttacttgtggggctGgggagggaggatggagtccc	19	6	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:9010658G>A	uc002mkp.2	-	38	39207	c.39003C>T	c.(39001-39003)CCC>CCT	p.P13001P	MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13003	Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTGTGGGGCTGGGGAGGGAGG	0.483													16	10	---	---	---	---	PASS	A	9010658	A	A	9010658	2	1	108	1	0	0	0	0	0	0	0	1	9973	1335	47	3		3	MUC16	19	9010658	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	834674	9010658	50118325	911	40353										
MUC16	94025	broad.mit.edu	37	chr19	9069470	9069470	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaggcttcagaagtgagtatCtcacctgagaagctacttgc	11	9	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:9069470C>A	uc002mkp.2	-	3	18180	c.17976G>T	c.(17974-17976)GAG>GAT	p.E5992D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5994	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AAGTGAGTATCTCACCTGAGA	0.458													21	92	---	---	---	---	PASS	A	9069470	A	A	9069470	3	1	108	1	0	0	0	0	1	0	0	0	9973	912	32	2	25875	2	MUC16	19	9069470	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	58812	9069470	50059513	912	40354										
MUC16	94025	broad.mit.edu	37	chr19	9083474	9083474	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggcatcacagatgccctctCaagcccagctgatgagtcta	9	13	3	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:9083474C>G	uc002mkp.2	-	1	8545	c.8341G>C	c.(8341-8343)GAG>CAG	p.E2781Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2781	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GATGCCCTCTCAAGCCCAGCT	0.493													23	22	---	---	---	---	PASS	G	9083474	G	G	9083474	3	3	108	1	0	0	0	0	1	0	0	0	9973	835	29	2	35518	2	MUC16	19	9083474	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	14004	9083474	50045509	913	40355										
COL5A3	50509	broad.mit.edu	37	chr19	10076996	10076996	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tttgggttactcacgatctcAaacttcttgtcgggatagag	10	8	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:10076996A>T	uc002mmq.1	-	64	4862	c.4776T>A	c.(4774-4776)TTT>TTA	p.F1592L		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1592	Fibrillar collagen NC1.				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)			TCACGATCTCAAACTTCTTGT	0.557													27	16	---	---	---	---	PASS	T	10076996	T	T	10076996	3	4	108	1	0	0	0	0	1	0	0	0	3698	127	5	5	477	5	COL5A3	19	10076996	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	993522	10076996	49051987	914	40356										
SLC44A2	57153	broad.mit.edu	37	chr19	10753987	10753987	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agaggaatgacggctcggccGagaggccttacttcatgtct	13	10	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:10753987G>A	uc002mpf.2	+	22	2186	c.2047G>A	c.(2047-2049)GAG>AAG	p.E683K	SLC44A2_uc002mpe.3_Missense_Mutation_p.E681K|SLC44A2_uc002mpg.1_3'UTR|SLC44A2_uc002mph.2_Missense_Mutation_p.E232K|SLC44A2_uc002mpi.2_3'UTR	NM_020428	NP_065161	Q8IWA5	CTL2_HUMAN	solute carrier family 44, member 2 isoform 1	683	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane|plasma membrane	choline transmembrane transporter activity|signal transducer activity			ovary(1)	1			Epithelial(33;8.7e-06)|all cancers(31;2.77e-05)		Choline(DB00122)	CGGCTCGGCCGAGAGGCCTTA	0.607													3	8	---	---	---	---	PASS	A	10753987	A	A	10753987	3	1	108	1	0	0	0	0	1	0	0	0	14636	1059	37	2	2168	2	SLC44A2	19	10753987	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	676991	10753987	48374996	915	40357										
DNASE2	1777	broad.mit.edu	37	chr19	12989370	12989370	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctggtagttatagacccaggGgtaggtgtaggtcagctgct	15	7	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:12989370G>T	uc002mvn.1	-	5	681	c.535C>A	c.(535-537)CCC>ACC	p.P179T	DNASE2_uc010xmr.1_Missense_Mutation_p.P124T	NM_001375	NP_001366	O00115	DNS2A_HUMAN	deoxyribonuclease II, lysosomal precursor	179					apoptosis	lysosome	deoxyribonuclease II activity|DNA binding|protein binding				0						TAGACCCAGGGGTAGGTGTAG	0.547								Direct_reversal_of_damage					5	38	---	---	---	---	PASS	T	12989370	T	T	12989370	3	4	108	1	0	0	0	0	1	0	0	0	4664	1232	43	3	555	3	DNASE2	19	12989370	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2235383	12989370	46139613	916	40358										
SLC1A6	6511	broad.mit.edu	37	chr19	15072908	15072908	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgtttcatgccaccaatgaCcagcccaaaggccacagaga	9	13	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:15072908C>G	uc002naa.1	-	5	849	c.841G>C	c.(841-843)GTC>CTC	p.V281L	SLC1A6_uc010dzu.1_Missense_Mutation_p.V281L|SLC1A6_uc010xod.1_Missense_Mutation_p.V217L|SLC1A6_uc002nab.2_Missense_Mutation_p.V281L|SLC1A6_uc002nac.2_Missense_Mutation_p.V281L	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	281	Helical; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	CCACCAATGACCAGCCCAAAG	0.562													36	36	---	---	---	---	PASS	G	15072908	G	G	15072908	3	3	108	1	0	0	0	0	1	0	0	0	14436	507	18	4	873	4	SLC1A6	19	15072908	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2083538	15072908	44056075	917	40359										
CCDC105	126402	broad.mit.edu	37	chr19	15133834	15133834	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcgcctgcgcctgcgccagcGgcaaccgcacgtgtgctacg	14	17	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:15133834G>A	uc002nae.2	+	7	1502	c.1403G>A	c.(1402-1404)CGG>CAG	p.R468Q		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	468					microtubule cytoskeleton organization	microtubule				ovary(1)	1						CTGCGCCAGCGGCAACCGCAC	0.687													4	9	---	---	---	---	PASS	A	15133834	A	A	15133834	3	1	108	1	0	0	0	0	1	0	0	0	2740	1116	39	1	1429	1	CCDC105	19	15133834	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	60926	15133834	43995149	918	40360										
OR10H5	284433	broad.mit.edu	37	chr19	15905716	15905716	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acggtcctcacacccttcctCagccccatcatcttcagcct	4	20	5	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:15905716C>A	uc010xos.1	+	1	858	c.858C>A	c.(856-858)CTC>CTA	p.L286L		NM_001004466	NP_001004466	Q8NGA6	O10H5_HUMAN	olfactory receptor, family 10, subfamily H,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CACCCTTCCTCAGCCCCATCA	0.532													8	37	---	---	---	---	PASS	A	15905716	A	A	15905716	2	1	108	1	0	0	0	0	0	0	0	1	10909	813	29	2		2	OR10H5	19	15905716	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	771882	15905716	43223267	919	40361										
MYO9B	4650	broad.mit.edu	37	chr19	17212909	17212909	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgcatatgcagctggtggcgCaggccacagccacccggcgc	14	15	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:17212909C>A	uc010eak.2	+	2	534	c.382C>A	c.(382-384)CAG>AAG	p.Q128K	MYO9B_uc002nfi.2_Missense_Mutation_p.Q128K|MYO9B_uc002nfj.1_Missense_Mutation_p.Q128K	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	128	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						GCTGGTGGCGCAGGCCACAGC	0.627													6	27	---	---	---	---	PASS	A	17212909	A	A	17212909	3	1	108	1	0	0	0	0	1	0	0	0	10085	711	25	3	384	3	MYO9B	19	17212909	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1307193	17212909	41916074	920	40362										
B3GNT3	10331	broad.mit.edu	37	chr19	17922653	17922653	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgctgtcccgcttcacggccGctgccctgcgccgtgctgcc	12	19	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:17922653G>A	uc002nhk.1	+	3	926	c.841G>A	c.(841-843)GCT>ACT	p.A281T	B3GNT3_uc002nhl.1_Missense_Mutation_p.A281T|B3GNT3_uc010ebd.1_Missense_Mutation_p.A281T|B3GNT3_uc010ebe.1_Missense_Mutation_p.A281T	NM_014256	NP_055071	Q9Y2A9	B3GN3_HUMAN	UDP-GlcNAc:betaGal	281	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to plasma membrane	galactosyltransferase activity			upper_aerodigestive_tract(1)	1						CTTCACGGCCGCTGCCCTGCG	0.572													28	25	---	---	---	---	PASS	A	17922653	A	A	17922653	3	1	108	1	0	0	0	0	1	0	0	0	1258	1087	38	1	847	1	B3GNT3	19	17922653	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	709744	17922653	41206330	921	40363										
ZNF208	7757	broad.mit.edu	37	chr19	22156135	22156135	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attttcttatgataactaagGgttgaggaccacttataggc	9	6	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:22156135G>T	uc002nqp.2	-	5	1550	c.1401C>A	c.(1399-1401)ACC>ACA	p.T467T	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GATAACTAAGGGTTGAGGACC	0.343													14	11	---	---	---	---	PASS	T	22156135	T	T	22156135	2	4	108	1	0	0	0	0	0	0	0	1	17763	1219	43	3		3	ZNF208	19	22156135	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	4233482	22156135	36972848	922	40364										
ZNF536	9745	broad.mit.edu	37	chr19	31040208	31040208	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggtctcacctttatcccaaGcaccggagaagcagtggcac	10	13	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:31040208G>T	uc002nsu.1	+	4	3820	c.3682G>T	c.(3682-3684)GCA>TCA	p.A1228S	ZNF536_uc010edd.1_Missense_Mutation_p.A1228S	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1228					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TTTATCCCAAGCACCGGAGAA	0.672													6	16	---	---	---	---	PASS	T	31040208	T	T	31040208	3	4	108	1	0	0	0	0	1	0	0	0	17971	971	34	3	3692	3	ZNF536	19	31040208	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	8884073	31040208	28088775	923	40365										
TSHZ3	57616	broad.mit.edu	37	chr19	31767965	31767965	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgaggtctgccggaggctggCggcaaactgggcctggagga	19	9	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:31767965C>A	uc002nsy.3	-	2	2799	c.2734G>T	c.(2734-2736)GCC>TCC	p.A912S		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	912	Homeobox; atypical.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CGGAGGCTGGCGGCAAACTGG	0.627													6	16	---	---	---	---	PASS	A	31767965	A	A	31767965	3	1	108	1	0	0	0	0	1	0	0	0	16622	768	27	1	515	1	TSHZ3	19	31767965	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	727757	31767965	27361018	924	40366										
CEBPA	1050	broad.mit.edu	37	chr19	33792245	33792245	+	Nonstop_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggtcccacagccgcgcgcctCacgcgcagttgcccatggcc	12	19	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:33792245C>G	uc002nun.2	-	1	1186	c.1076G>C	c.(1075-1077)TGA>TCA	p.*359S	LOC80054_uc002nuo.2_5'Flank	NM_004364	NP_004355	P49715	CEBPA_HUMAN	CCAAT/enhancer binding protein alpha	359					cytokine-mediated signaling pathway|generation of precursor metabolites and energy|interspecies interaction between organisms|positive regulation of transcription from RNA polymerase III promoter		sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding	p.?(5)		haematopoietic_and_lymphoid_tissue(728)|lung(4)|stomach(1)|prostate(1)	734	Esophageal squamous(110;0.137)					CCGCGCGCCTCACGCGCAGTT	0.706			Mis|N|F		AML|MDS				Acute_Myeloid_Leukemia_Familial_associated_with_CEBPA_germline_mutation				7	7	---	---	---	---	PASS	G	33792245	G	G	33792245	4	3	108	1	0	0	0	0	0	0	0	0	3199	837	29	2	4	2	CEBPA	19	33792245	Nonstop_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2024280	33792245	25336738	925	40367										
PEPD	5184	broad.mit.edu	37	chr19	33984220	33984220	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgaggaggacagagggcttCtgtgacgtcaggacgctggc	18	8	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:33984220C>A	uc002nur.3	-	5	552	c.417G>T	c.(415-417)CAG>CAT	p.Q139H	PEPD_uc010xrr.1_Missense_Mutation_p.Q139H|PEPD_uc010xrs.1_Missense_Mutation_p.Q75H	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	139					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)					CAGAGGGCTTCTGTGACGTCA	0.542													5	12	---	---	---	---	PASS	A	33984220	A	A	33984220	3	1	108	1	0	0	0	0	1	0	0	0	11728	912	32	2	1108	2	PEPD	19	33984220	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	191975	33984220	25144763	926	40368										
HAUS5	23354	broad.mit.edu	37	chr19	36110360	36110360	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acaggtccgcctgctcatcaAgggaaactcggccagcaaga	11	13	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:36110360A>G	uc002oam.1	+	14	1265	c.1214A>G	c.(1213-1215)AAG>AGG	p.K405R		NM_015302	NP_056117	O94927	HAUS5_HUMAN	HAUS augmin-like complex, subunit 5	405					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle					0						CTGCTCATCAAGGGAAACTCG	0.642													4	15	---	---	---	---	PASS	G	36110360	G	G	36110360	3	3	108	1	0	0	0	0	1	0	0	0	6969	72	3	5	1268	5	HAUS5	19	36110360	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	2126140	36110360	23018623	927	40369										
SARS2	54938	broad.mit.edu	37	chr19	39421117	39421117	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caggcgcactcacgatcgcgGgcaggtccgccgagcgcagc	15	16	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:39421117G>A	uc002oka.2	-	1	420	c.260C>T	c.(259-261)CCC>CTC	p.P87L	SARS2_uc002ojz.2_5'Flank|SARS2_uc010xup.1_Missense_Mutation_p.P87L|SARS2_uc002okb.2_Missense_Mutation_p.P87L|SARS2_uc010xuq.1_Intron|SARS2_uc010xur.1_RNA|SARS2_uc010xus.1_Missense_Mutation_p.P87L|MRPS12_uc002okc.2_5'Flank|MRPS12_uc002okd.2_5'Flank|MRPS12_uc002oke.2_5'Flank	NM_017827	NP_060297	Q9NP81	SYSM_HUMAN	seryl-tRNA synthetase 2 isoform b precursor	87					seryl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|serine-tRNA ligase activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(60;2.74e-06)|all_epithelial(25;4.36e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			CACGATCGCGGGCAGGTCCGC	0.672											OREG0032101|OREG0025455	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)|type=REGULATORY REGION|TFbs=RELA|Dataset=RELA (p65) ChIP-PET Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with paired-end diTag sequencing (ChIP-PET)	4	11	---	---	---	---	PASS	A	39421117	A	A	39421117	3	1	108	1	0	0	0	0	1	0	0	0	13845	1232	43	3	1441	3	SARS2	19	39421117	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3310757	39421117	19707866	928	40370										
SHKBP1	92799	broad.mit.edu	37	chr19	41083301	41083301	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctcggtgtcccttccctgcaGtcttctgagcggacgcatct	10	15	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:41083301G>T	uc002oob.2	+	3	190	c.141_splice	c.e3-1	p.S47_splice	SHKBP1_uc002ooc.2_Splice_Site_p.S47_splice|SHKBP1_uc002ood.2_Splice_Site_p.S47_splice|SHKBP1_uc010xvl.1_Splice_Site|SHKBP1_uc002ooe.2_5'UTR|SHKBP1_uc002oof.2_5'Flank|SHKBP1_uc010xvm.1_5'Flank|SHKBP1_uc010xvn.1_5'Flank	NM_138392	NP_612401	Q8TBC3	SHKB1_HUMAN	SH3KBP1 binding protein 1							voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|pancreas(1)	2			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CTTCCCTGCAGTCTTCTGAGC	0.617													5	16	---	---	---	---	PASS	T	41083301	T	T	41083301	5	4	108	1	0	0	0	0	0	0	1	0	14284	1043	36	3	150	3	SHKBP1	19	41083301	Splice_Site	SNP	G	TCGA-46-3769-01A-01D-0983-08	1662184	41083301	18045682	929	40371										
ADCK4	79934	broad.mit.edu	37	chr19	41220008	41220008	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcggctgatgcgggaggcagGcaccttgcgttctcgagagc	17	11	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:41220008G>A	uc002oor.2	-	4	555	c.253C>T	c.(253-255)CCT>TCT	p.P85S	ADCK4_uc002ooq.1_Missense_Mutation_p.P85S|ADCK4_uc002oos.2_Missense_Mutation_p.P85S|ITPKC_uc002oot.2_5'Flank	NM_024876	NP_079152	Q96D53	ADCK4_HUMAN	aarF domain containing kinase 4 isoform a	85						integral to membrane	protein serine/threonine kinase activity				0			Lung(22;9.49e-05)|LUSC - Lung squamous cell carcinoma(20;0.000219)			CGGGAGGCAGGCACCTTGCGT	0.567													9	21	---	---	---	---	PASS	A	41220008	A	A	41220008	3	1	108	1	0	0	0	0	1	0	0	0	290	1203	42	3	1429	3	ADCK4	19	41220008	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	136707	41220008	17908975	930	40372										
PHLDB3	653583	broad.mit.edu	37	chr19	44001416	44001416	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ataggcacgttgggccacatCcagttgttccctcatctata	8	12	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:44001416C>A	uc002own.3	-	6	938	c.679G>T	c.(679-681)GAT>TAT	p.D227Y	PHLDB3_uc010eit.2_5'Flank|PHLDB3_uc002owo.2_Missense_Mutation_p.D227Y	NM_198850	NP_942147	Q6NSJ2	PHLB3_HUMAN	pleckstrin homology-like domain, family B,	227	Potential.										0		Prostate(69;0.0153)				TGGGCCACATCCAGTTGTTCC	0.378													6	8	---	---	---	---	PASS	A	44001416	A	A	44001416	3	1	108	1	0	0	0	0	1	0	0	0	11853	855	30	2	1287	2	PHLDB3	19	44001416	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2781408	44001416	15127567	931	40373										
PLAUR	5329	broad.mit.edu	37	chr19	44159726	44159726	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcggtcatcctttggacgccCtatgggggccaggggacaga	16	11	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:44159726C>T	uc002oxf.1	-	5	703	c.473_splice	c.e5-1	p.G158_splice	PLAUR_uc002oxd.1_Splice_Site_p.G158_splice|PLAUR_uc002oxe.1_Splice_Site_p.G153_splice|PLAUR_uc002oxg.1_Intron	NM_002659	NP_002650	Q03405	UPAR_HUMAN	plasminogen activator, urokinase receptor						attachment of GPI anchor to protein|blood coagulation|C-terminal protein lipidation|cellular component movement|chemotaxis|fibrinolysis|regulation of proteolysis	anchored to membrane|cell surface|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|extrinsic to membrane|integral to membrane|plasma membrane	enzyme binding|U-plasminogen activator receptor activity			ovary(1)	1		Prostate(69;0.0153)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Streptokinase(DB00086)|Tenecteplase(DB00031)|Urokinase(DB00013)	TTTGGACGCCCTATGGGGGCC	0.517													7	17	---	---	---	---	PASS	T	44159726	T	T	44159726	5	4	108	1	0	0	0	0	0	0	1	0	12023	695	24	3	643	3	PLAUR	19	44159726	Splice_Site	SNP	C	TCGA-46-3769-01A-01D-0983-08	158310	44159726	14969257	932	40374										
IRGC	56269	broad.mit.edu	37	chr19	44223323	44223323	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgccgagcggctgcgggagGccggcgtggctgaccctcgc	19	14	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:44223323G>C	uc002oxh.2	+	2	760	c.613G>C	c.(613-615)GCC>CCC	p.A205P		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	205						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				GCTGCGGGAGGCCGGCGTGGC	0.706													7	9	---	---	---	---	PASS	C	44223323	C	C	44223323	3	2	108	1	0	0	0	0	1	0	0	0	7838	1203	42	4	615	4	IRGC	19	44223323	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	63597	44223323	14905660	933	40375										
ZNF222	7673	broad.mit.edu	37	chr19	44537160	44537160	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgaatctggatataattttaTcattatttttaaatgacata	4	3	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:44537160T>C	uc002oyc.2	+	4	1516	c.1333T>C	c.(1333-1335)TCA>CCA	p.S445P	ZNF284_uc010ejd.2_Intron|ZNF222_uc002oye.2_Missense_Mutation_p.S485P|ZNF222_uc002oyd.2_Missense_Mutation_p.S391P	NM_013360	NP_037492	Q9UK12	ZN222_HUMAN	zinc finger protein 222 isoform 2	445					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Prostate(69;0.0435)				TATAATTTTATCAttattttt	0.224													9	18	---	---	---	---	PASS	C	44537160	C	C	44537160	3	2	108	1	0	0	0	0	1	0	0	0	17773	1435	50	5	1486	5	ZNF222	19	44537160	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	313837	44537160	14591823	934	40376										
MYADM	91663	broad.mit.edu	37	chr19	54377402	54377402	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agccggccctggagtggtgcGtggcggtgtacgccatctgc	17	12	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:54377402G>T	uc002qcl.2	+	3	767	c.619G>T	c.(619-621)GTG>TTG	p.V207L	MYADM_uc002qcm.2_Missense_Mutation_p.V207L|MYADM_uc002qcn.2_Missense_Mutation_p.V207L|MYADM_uc002qco.2_Missense_Mutation_p.V207L|MYADM_uc002qcp.2_Missense_Mutation_p.V207L	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	207	MARVEL 2.|Helical; (Potential).					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		GGAGTGGTGCGTGGCGGTGTA	0.627													19	26	---	---	---	---	PASS	T	54377402	T	T	54377402	3	4	108	1	0	0	0	0	1	0	0	0	10006	1145	40	1	621	1	MYADM	19	54377402	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	9840242	54377402	4751581	935	40377										
LILRB2	10288	broad.mit.edu	37	chr19	54782788	54782788	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggcccagggtgaagttggcCtgggagagcccagcctgggg	20	10	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:54782788C>T	uc002qfb.2	-	6	1100	c.834G>A	c.(832-834)CAG>CAA	p.Q278Q	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Silent_p.Q278Q|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Silent_p.Q278Q|LILRB2_uc010yet.1_Silent_p.Q162Q|LILRB2_uc010yeu.1_RNA	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	278	Extracellular (Potential).|Ig-like C2-type 3.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TGAAGTTGGCCTGGGAGAGCC	0.637													6	19	---	---	---	---	PASS	T	54782788	T	T	54782788	2	4	108	1	0	0	0	0	0	0	0	1	8791	680	24	3		3	LILRB2	19	54782788	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	405386	54782788	4346195	936	40378										
LILRA3	11026	broad.mit.edu	37	chr19	54803513	54803513	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgctctctgagaggcctgcaGtgtggctgccatagatacag	13	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:54803513G>C	uc002qfd.2	-	3	376	c.311C>G	c.(310-312)ACT>AGT	p.T104S	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Missense_Mutation_p.T104S	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	104	Ig-like C2-type 1.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GAGGCCTGCAGTGTGGCTGCC	0.607													4	25	---	---	---	---	PASS	C	54803513	C	C	54803513	3	2	108	1	0	0	0	0	1	0	0	0	8786	1029	36	4	1028	4	LILRA3	19	54803513	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	20725	54803513	4325470	937	40379										
LILRA4	23547	broad.mit.edu	37	chr19	54848834	54848834	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgccggccagggcgctggggGaggccatcggccccctcctt	16	16	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:54848834G>A	uc002qfj.2	-	5	846	c.789C>T	c.(787-789)CTC>CTT	p.L263L	LILRA4_uc002qfi.2_Silent_p.L197L	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	263	Extracellular (Potential).|Ig-like C2-type 3.					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		GGCGCTGGGGGAGGCCATCGG	0.657													4	15	---	---	---	---	PASS	A	54848834	A	A	54848834	2	1	108	1	0	0	0	0	0	0	0	1	8787	1161	41	2		2	LILRA4	19	54848834	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	45321	54848834	4280149	938	40380										
LILRA2	11027	broad.mit.edu	37	chr19	55086444	55086444	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caggtgctatgcttatgactCgaactctccctatgtgtggt	10	10	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:55086444C>T	uc002qgg.3	+	4	688	c.599C>T	c.(598-600)TCG>TTG	p.S200L	LILRA2_uc010ern.2_Missense_Mutation_p.S200L|LILRA2_uc002qgf.2_Missense_Mutation_p.S200L|LILRA2_uc010yfe.1_Missense_Mutation_p.S200L|LILRA2_uc010yff.1_Missense_Mutation_p.S188L|LILRA2_uc010ero.2_Missense_Mutation_p.S188L|LILRA2_uc010yfg.1_Missense_Mutation_p.S200L	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	200	Extracellular (Potential).|Ig-like C2-type 2.				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		GCTTATGACTCGAACTCTCCC	0.577													29	34	---	---	---	---	PASS	T	55086444	T	T	55086444	3	4	108	1	0	0	0	0	1	0	0	0	8785	893	31	2	613	2	LILRA2	19	55086444	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	237610	55086444	4042539	939	40381										
ZSCAN5B	342933	broad.mit.edu	37	chr19	56701752	56701752	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caggtgtggcttctccttgaGgctcttcttgggaaatggag	14	8	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:56701752G>T	uc010ygh.1	-	4	932	c.932C>A	c.(931-933)CCT>CAT	p.P311H		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	311					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TTCTCCTTGAGGCTCTTCTTG	0.547													12	48	---	---	---	---	PASS	T	56701752	T	T	56701752	3	4	108	1	0	0	0	0	1	0	0	0	18236	1000	35	3	559	3	ZSCAN5B	19	56701752	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1615308	56701752	2427231	940	40382										
PEG3	5178	broad.mit.edu	37	chr19	57327351	57327351	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttcagaggtgttccctccaGcacgaactctctgatggttg	10	12	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:57327351G>T	uc002qnu.2	-	7	2810	c.2459C>A	c.(2458-2460)GCT>GAT	p.A820D	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.A791D|PEG3_uc002qnv.2_Missense_Mutation_p.A820D|PEG3_uc002qnw.2_Missense_Mutation_p.A696D|PEG3_uc002qnx.2_Missense_Mutation_p.A694D|PEG3_uc010etr.2_Missense_Mutation_p.A820D	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	820					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GTTCCCTCCAGCACGAACTCT	0.463													26	47	---	---	---	---	PASS	T	57327351	T	T	57327351	3	4	108	1	0	0	0	0	1	0	0	0	11720	971	34	3	2311	3	PEG3	19	57327351	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	625599	57327351	1801632	941	40383										
PEG3	5178	broad.mit.edu	37	chr19	57328094	57328094	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atcagggcagaactatgaagGaaggtttccttacacaccct	9	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:57328094G>C	uc002qnu.2	-	7	2067	c.1716C>G	c.(1714-1716)TTC>TTG	p.F572L	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.F543L|PEG3_uc002qnv.2_Missense_Mutation_p.F572L|PEG3_uc002qnw.2_Missense_Mutation_p.F448L|PEG3_uc002qnx.2_Missense_Mutation_p.F446L|PEG3_uc010etr.2_Missense_Mutation_p.F572L	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	572	C2H2-type 3.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		AACTATGAAGGAAGGTTTCCT	0.388													6	32	---	---	---	---	PASS	C	57328094	C	C	57328094	3	2	108	1	0	0	0	0	1	0	0	0	11720	1165	41	2	3054	2	PEG3	19	57328094	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	743	57328094	1800889	942	40384										
ZNF749	388567	broad.mit.edu	37	chr19	57955212	57955212	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcagtgaatgtggggaattGtttaggtacaactccaacct	10	7	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:57955212G>A	uc002qoq.2	+	3	950	c.696G>A	c.(694-696)TTG>TTA	p.L232L	ZNF547_uc002qpm.3_Intron	NM_001023561	NP_001018855	O43361	ZN749_HUMAN	zinc finger protein 749	232	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)|Lung(386;0.177)		GTGGGGAATTGTTTAGGTACA	0.428													21	23	---	---	---	---	PASS	A	57955212	A	A	57955212	2	1	108	1	0	0	0	0	0	0	0	1	18128	1368	48	3		3	ZNF749	19	57955212	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	627118	57955212	1173771	943	40385										
ZNF530	348327	broad.mit.edu	37	chr19	58118382	58118382	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cttatgagtgcagtgtatgtGggaaatcttttatccgaaaa	10	5	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr19:58118382G>A	uc002qpk.2	+	3	1709	c.1489G>A	c.(1489-1491)GGG>AGG	p.G497R	ZNF547_uc002qpm.3_Intron|ZNF530_uc002qpl.2_RNA	NM_020880	NP_065931	Q6P9A1	ZN530_HUMAN	zinc finger protein 530	497	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0443)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		CAGTGTATGTGGGAAATCTTT	0.428													22	25	---	---	---	---	PASS	A	58118382	A	A	58118382	3	1	108	1	0	0	0	0	1	0	0	0	17968	1348	47	3	1499	3	ZNF530	19	58118382	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	163170	58118382	1010601	944	40386										
PDYN	5173	broad.mit.edu	37	chr20	1961250	1961250	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggggtcctcctcagcgagatAgagtgtgccagtctccatgg	14	11	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:1961250A>T	uc010gaj.2	-	3	726	c.484T>A	c.(484-486)TAT>AAT	p.Y162N	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.Y162N|PDYN_uc010zpt.1_Missense_Mutation_p.Y7N	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	162					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						TCAGCGAGATAGAGTGTGCCA	0.597													41	34	---	---	---	---	PASS	T	1961250	T	T	1961250	3	4	108	1	0	0	0	0	1	0	0	0	11699	420	15	5	284	5	PDYN	20	1961250	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08		1961250	61064270	945	40387										
PLCB4	5332	broad.mit.edu	37	chr20	9401951	9401951	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgtgctgctacaggttatatCaggtcaattcttatcagata	8	8	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:9401951C>G	uc002wnf.2	+	25	2262	c.2126C>G	c.(2125-2127)TCA>TGA	p.S709*	PLCB4_uc010gbw.1_Nonsense_Mutation_p.S709*|PLCB4_uc010gbx.2_Nonsense_Mutation_p.S721*|PLCB4_uc002wne.2_Nonsense_Mutation_p.S709*|PLCB4_uc002wnh.2_Nonsense_Mutation_p.S556*	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	709	C2.				intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						CAGGTTATATCAGGTCAATTC	0.413													16	13	---	---	---	---	PASS	G	9401951	G	G	9401951	4	3	108	1	0	0	0	0	0	1	0	0	12030	838	29	2	2256	2	PLCB4	20	9401951	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	7440701	9401951	53623569	946	40388										
C20orf26	26074	broad.mit.edu	37	chr20	20171995	20171995	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tatcttttcaggatggaacaCtgctgcaggcatttgtagct	10	8	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:20171995C>A	uc002wru.2	+	15	1598	c.1522C>A	c.(1522-1524)CTG>ATG	p.L508M	C20orf26_uc010zse.1_Missense_Mutation_p.L488M	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	508										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GGATGGAACACTGCTGCAGGC	0.358													11	16	---	---	---	---	PASS	A	20171995	A	A	20171995	3	1	108	1	0	0	0	0	1	0	0	0	2106	564	20	3	1608	3	C20orf26	20	20171995	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	10770044	20171995	42853525	947	40389										
RALGAPA2	57186	broad.mit.edu	37	chr20	20621385	20621385	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggattgatgagtgtctccagTgtgcaagggcccctggatga	15	8	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:20621385T>A	uc002wrz.2	-	6	653	c.510A>T	c.(508-510)ACA>ACT	p.T170T	RALGAPA2_uc010zsg.1_5'UTR	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	170					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						GTGTCTCCAGTGTGCAAGGGC	0.463													19	31	---	---	---	---	PASS	A	20621385	A	A	20621385	2	1	108	1	0	0	0	0	0	0	0	1	13014	1683	59	5		5	RALGAPA2	20	20621385	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	449390	20621385	42404135	948	40390										
PAX1	5075	broad.mit.edu	37	chr20	21687608	21687608	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgggcagccaccccggggtCccgggcacggcgggccacgt	17	16	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:21687608C>A	uc002wsj.2	+	2	873	c.819C>A	c.(817-819)GTC>GTA	p.V273V	PAX1_uc010zsl.1_Silent_p.V273V|PAX1_uc010zsm.1_Silent_p.V249V	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	273					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						ACCCCGGGGTCCCGGGCACGG	0.677													6	11	---	---	---	---	PASS	A	21687608	A	A	21687608	2	1	108	1	0	0	0	0	0	0	0	1	11478	842	30	2		2	PAX1	20	21687608	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1066223	21687608	41337912	949	40391										
NINL	22981	broad.mit.edu	37	chr20	25456757	25456757	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtagaagtttggtttccatgTcatccttctctctctccagc	7	12	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:25456757T>G	uc002wux.1	-	17	3244	c.3170A>C	c.(3169-3171)GAC>GCC	p.D1057A	NINL_uc010gdn.1_Intron	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1057	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						GGTTTCCATGTCATCCTTCTC	0.532													7	55	---	---	---	---	PASS	G	25456757	G	G	25456757	3	3	108	1	0	0	0	0	1	0	0	0	10420	1667	58	5	1010	5	NINL	20	25456757	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	3769149	25456757	37568763	950	40392										
C20orf160	140706	broad.mit.edu	37	chr20	30602789	30602789	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagcagcgtgagccgccggcCcctgcactcgatgccccttt	12	17	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:30602789C>A	uc002wxf.2	+	2	126	c.113C>A	c.(112-114)CCC>CAC	p.P38H		NM_080625	NP_542192	Q9NUG4	CT160_HUMAN	hypothetical protein LOC140706	38										central_nervous_system(3)|ovary(1)	4						AGCCGCCGGCCCCTGCACTCG	0.637													10	42	---	---	---	---	PASS	A	30602789	A	A	30602789	3	1	108	1	0	0	0	0	1	0	0	0	2093	623	22	3	119	3	C20orf160	20	30602789	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5146032	30602789	32422731	951	40393										
SUN5	140732	broad.mit.edu	37	chr20	31590677	31590677	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccttgctcactcatgtttggGgaggtgtcctctgccatcct	10	13	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:31590677G>A	uc002wyi.2	-	2	219	c.126C>T	c.(124-126)TCC>TCT	p.S42S		NM_080675	NP_542406	Q8TC36	SUN5_HUMAN	sperm associated antigen 4-like	42					spermatogenesis					skin(1)	1						TCATGTTTGGGGAGGTGTCCT	0.368													5	30	---	---	---	---	PASS	A	31590677	A	A	31590677	2	1	108	1	0	0	0	0	0	0	0	1	15391	1219	43	3		3	SUN5	20	31590677	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	987888	31590677	31434843	952	40394										
BPIL1	80341	broad.mit.edu	37	chr20	31607502	31607502	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cggctgcagcccttcgtggaGgtcctggccacagcctccaa	12	16	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:31607502G>T	uc002wyj.2	+	11	1220	c.1026G>T	c.(1024-1026)GAG>GAT	p.E342D		NM_025227	NP_079503	Q8N4F0	BPIL1_HUMAN	bactericidal/permeability-increasing	342						extracellular region	lipid binding			skin(2)|large_intestine(1)|ovary(1)	4						CCTTCGTGGAGGTCCTGGCCA	0.637													13	10	---	---	---	---	PASS	T	31607502	T	T	31607502	3	4	108	1	0	0	0	0	1	0	0	0	1491	991	35	3	1064	3	BPIL1	20	31607502	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	16825	31607502	31418018	953	40395										
C20orf186	149954	broad.mit.edu	37	chr20	31671497	31671497	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acctggagttgccactggggCggtgggcccaggtggtttgc	18	10	0	0	rs143050216	byFrequency	TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:31671497C>T	uc010zue.1	+	3	509	c.494C>T	c.(493-495)GCG>GTG	p.A165V		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	165	Gly-rich.					cytoplasm|extracellular region	lipid binding				0						GCCACTGGGGCGGTGGGCCCA	0.677													13	27	---	---	---	---	PASS	T	31671497	T	T	31671497	3	4	108	1	0	0	0	0	1	0	0	0	2098	768	27	1	504	1	C20orf186	20	31671497	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	63995	31671497	31354023	954	40396										
C20orf71	128861	broad.mit.edu	37	chr20	31811649	31811649	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcctcataaagcacaacgcaGaaagccgaattcagaacatc	7	12	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:31811649G>A	uc002wyr.2	+	2	368	c.160G>A	c.(160-162)GAA>AAA	p.E54K	C20orf71_uc002wys.2_Missense_Mutation_p.E54K	NM_178466	NP_848561	Q9BQP9	SPLC3_HUMAN	short long palate, lung and nasal epithelium	54						extracellular region	lipid binding			ovary(1)|skin(1)	2						GCACAACGCAGAAAGCCGAAT	0.423													9	83	---	---	---	---	PASS	A	31811649	A	A	31811649	3	1	108	1	0	0	0	0	1	0	0	0	2117	943	33	2	166	2	C20orf71	20	31811649	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	140152	31811649	31213871	955	40397										
C20orf114	92747	broad.mit.edu	37	chr20	31873902	31873902	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggccggcccgtggaccttcaCccttctctgtggtttgctgg	13	14	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:31873902C>G	uc002wyw.1	+	2	184	c.23C>G	c.(22-24)ACC>AGC	p.T8S	C20orf114_uc010gej.1_Missense_Mutation_p.T8S	NM_033197	NP_149974	Q8TDL5	LPLC1_HUMAN	LPLUNC1 protein precursor	8						extracellular space	lipid binding			central_nervous_system(2)|skin(2)	4						TGGACCTTCACCCTTCTCTGT	0.587													26	59	---	---	---	---	PASS	G	31873902	G	G	31873902	3	3	108	1	0	0	0	0	1	0	0	0	2082	507	18	4	25	4	C20orf114	20	31873902	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	62253	31873902	31151618	956	40398										
RBM12	10137	broad.mit.edu	37	chr20	34242934	34242934	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agctaggtggtggtcctgatCtactggcatttgctggtggt	15	7	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:34242934C>A	uc002xdq.2	-	3	543	c.311G>T	c.(310-312)AGA>ATA	p.R104I	CPNE1_uc010zvj.1_5'Flank|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.R104I|RBM12_uc002xds.2_Missense_Mutation_p.R104I	NM_152838	NP_690051	Q9NTZ6	RBM12_HUMAN	RNA binding motif protein 12	104						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)			TGGTCCTGATCTACTGGCATT	0.438											OREG0004046	type=REGULATORY REGION|Gene=RBM12|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	77	84	---	---	---	---	PASS	A	34242934	A	A	34242934	3	1	108	1	0	0	0	0	1	0	0	0	13113	913	32	2	2491	2	RBM12	20	34242934	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2369032	34242934	28782586	957	40399										
PTPRT	11122	broad.mit.edu	37	chr20	41306547	41306547	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgaggggaggccctggcggtCccgtacccccctcacctggt	14	16	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:41306547C>A	uc002xkg.2	-	7	1296	c.1112G>T	c.(1111-1113)GGA>GTA	p.G371V	PTPRT_uc010ggj.2_Missense_Mutation_p.G371V	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	371	Extracellular (Potential).|Fibronectin type-III 1.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CCCTGGCGGTCCCGTACCCCC	0.547													22	100	---	---	---	---	PASS	A	41306547	A	A	41306547	3	1	108	1	0	0	0	0	1	0	0	0	12812	855	30	2	3374	2	PTPRT	20	41306547	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	7063613	41306547	21718973	958	40400										
MYBL2	4605	broad.mit.edu	37	chr20	42315650	42315650	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaggaggaggaccgcatcatCtgcgaggcccacaaggtgct	15	11	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:42315650C>T	uc002xlb.1	+	5	653	c.438C>T	c.(436-438)ATC>ATT	p.I146I	MYBL2_uc010zwj.1_Silent_p.I122I|MYBL2_uc002xla.1_Silent_p.I146I	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	146	HTH myb-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			ACCGCATCATCTGCGAGGCCC	0.627													11	24	---	---	---	---	PASS	T	42315650	T	T	42315650	2	4	108	1	0	0	0	0	0	0	0	1	10010	903	32	2		2	MYBL2	20	42315650	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	1009103	42315650	20709870	959	40401										
ACOT8	10005	broad.mit.edu	37	chr20	44483870	44483870	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agacttggctgcagccaccaGggcctggcccacgatctgac	12	15	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:44483870G>C	uc002xqa.1	-	2	271	c.190C>G	c.(190-192)CTG>GTG	p.L64V	ACOT8_uc010zxe.1_Missense_Mutation_p.L64V|ACOT8_uc002xqc.1_Intron|ACOT8_uc010zxf.1_Intron|ZSWIM3_uc002xqd.2_5'Flank|ZSWIM3_uc010zxg.1_5'Flank	NM_005469	NP_005460	O14734	ACOT8_HUMAN	peroxisomal acyl-CoA thioesterase 1 isoform a	64					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|interspecies interaction between organisms|peroxisome organization	peroxisomal matrix	acetyl-CoA hydrolase activity|acyl-CoA thioesterase activity|carboxylesterase activity|choloyl-CoA hydrolase activity|protein binding			skin(1)	1		Myeloproliferative disorder(115;0.0122)				GCAGCCACCAGGGCCTGGCCC	0.592													13	73	---	---	---	---	PASS	C	44483870	C	C	44483870	3	2	108	1	0	0	0	0	1	0	0	0	156	991	35	4	789	4	ACOT8	20	44483870	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2168220	44483870	18541650	960	40402										
ELMO2	63916	broad.mit.edu	37	chr20	45016067	45016067	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtcagggtgaatgccagcatCtcactgtagctgagacacgt	12	10	2	2	rs4992415		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:45016067C>G	uc002xrt.1	-	8	645	c.435G>C	c.(433-435)GAG>GAC	p.E145D	ELMO2_uc002xru.1_Missense_Mutation_p.E145D|ELMO2_uc010zxr.1_Missense_Mutation_p.E145D|ELMO2_uc010zxs.1_Intron|ELMO2_uc002xrw.2_5'Flank|ELMO2_uc002xrx.1_Missense_Mutation_p.E145D	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2	145					apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				ATGCCAGCATCTCACTGTAGC	0.468													17	24	---	---	---	---	PASS	G	45016067	G	G	45016067	3	3	108	1	0	0	0	0	1	0	0	0	5066	912	32	2	1787	2	ELMO2	20	45016067	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	532197	45016067	18009453	961	40403										
KCNB1	3745	broad.mit.edu	37	chr20	47990134	47990134	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	catggaactcttggggctctCgatgaagaaactagagtgct	12	8	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:47990134C>T	uc002xur.1	-	2	2127	c.1963G>A	c.(1963-1965)GAG>AAG	p.E655K	KCNB1_uc002xus.1_Missense_Mutation_p.E655K	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	655	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TTGGGGCTCTCGATGAAGAAA	0.567													17	56	---	---	---	---	PASS	T	47990134	T	T	47990134	3	4	108	1	0	0	0	0	1	0	0	0	8012	893	31	2	617	2	KCNB1	20	47990134	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	2974067	47990134	15035386	962	40404										
ZFP64	55734	broad.mit.edu	37	chr20	50776752	50776752	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaagggccgctcgtccgagtGgatcctcaggtgcttgttga	15	10	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:50776752G>A	uc002xwl.2	-	5	1022	c.673C>T	c.(673-675)CAC>TAC	p.H225Y	ZFP64_uc002xwk.2_Missense_Mutation_p.H225Y|ZFP64_uc002xwm.2_Missense_Mutation_p.H223Y|ZFP64_uc002xwn.2_Missense_Mutation_p.H171Y	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	225	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						TCGTCCGAGTGGATCCTCAGG	0.617													47	51	---	---	---	---	PASS	A	50776752	A	A	50776752	3	1	108	1	0	0	0	0	1	0	0	0	17649	1348	47	3	2571	3	ZFP64	20	50776752	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2786618	50776752	12248768	963	40405										
CASS4	57091	broad.mit.edu	37	chr20	55027043	55027043	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cggaagaatcaaggccccacGctctccccagttccagctcc	8	18	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:55027043G>T	uc002xxp.2	+	6	1036	c.811G>T	c.(811-813)GCT>TCT	p.A271S	CASS4_uc002xxq.3_Missense_Mutation_p.A271S|CASS4_uc002xxr.2_Missense_Mutation_p.A271S|CASS4_uc010zze.1_Missense_Mutation_p.A217S|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	271					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						AAGGCCCCACGCTCTCCCCAG	0.507													25	27	---	---	---	---	PASS	T	55027043	T	T	55027043	3	4	108	1	0	0	0	0	1	0	0	0	2683	1087	38	1	829	1	CASS4	20	55027043	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	4250291	55027043	7998477	964	40406										
CTCFL	140690	broad.mit.edu	37	chr20	56099117	56099117	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggccccagaggtacgctcggCctccaactcactagggctcc	11	17	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:56099117C>A	uc010gix.1	-	1	807	c.145G>T	c.(145-147)GCC>TCC	p.A49S	CTCFL_uc010giw.1_Missense_Mutation_p.A49S|CTCFL_uc002xym.2_Missense_Mutation_p.A49S|CTCFL_uc010giz.1_Intron|CTCFL_uc010giy.1_Intron|CTCFL_uc010gja.1_Missense_Mutation_p.A49S|CTCFL_uc010gjb.1_Missense_Mutation_p.A49S|CTCFL_uc010gjc.1_Missense_Mutation_p.A49S|CTCFL_uc010gjd.1_Missense_Mutation_p.A49S|CTCFL_uc010gje.2_Missense_Mutation_p.A49S|CTCFL_uc010gjf.2_Intron|CTCFL_uc010gjg.2_Intron|CTCFL_uc010gjh.1_Missense_Mutation_p.A49S|CTCFL_uc010gji.1_Intron|CTCFL_uc010gjj.1_Missense_Mutation_p.A49S|CTCFL_uc010gjk.1_Missense_Mutation_p.A49S|CTCFL_uc010gjl.1_Missense_Mutation_p.A49S	NM_080618	NP_542185	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor-like protein	49					cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			GTACGCTCGGCCTCCAACTCA	0.577													79	121	---	---	---	---	PASS	A	56099117	A	A	56099117	3	1	108	1	0	0	0	0	1	0	0	0	4001	739	26	3	1886	3	CTCFL	20	56099117	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1072074	56099117	6926403	965	40407										
STX16	8675	broad.mit.edu	37	chr20	57242623	57242623	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	attggtgtgacaaaacggccAcctcctaagtgggtggatgg	14	8	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:57242623A>G	uc002xzi.2	+	3	957	c.222A>G	c.(220-222)CCA>CCG	p.P74P	STX16_uc010zzq.1_5'UTR|STX16_uc002xzk.2_Silent_p.P57P|STX16_uc002xzm.2_Silent_p.P70P|STX16_uc002xzj.2_Silent_p.P53P|STX16_uc002xzl.2_5'UTR	NM_001001433	NP_001001433	O14662	STX16_HUMAN	syntaxin 16 isoform a	74	Cytoplasmic (Potential).				intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|microsome|SNARE complex	SNAP receptor activity			ovary(1)	1	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;3.73e-09)|Epithelial(14;8.54e-06)|all cancers(14;6.89e-05)			CAAAACGGCCACCTCCTAAGT	0.418													10	33	---	---	---	---	PASS	G	57242623	G	G	57242623	2	3	108	1	0	0	0	0	0	0	0	1	15338	146	6	5		5	STX16	20	57242623	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	1143506	57242623	5782897	966	40408										
CDH4	1002	broad.mit.edu	37	chr20	60503462	60503462	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcggccgtgcggaagaactgGaccatcacccgcctgaacgg	14	14	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:60503462G>T	uc002ybn.1	+	12	2000	c.1986G>T	c.(1984-1986)TGG>TGT	p.W662C	CDH4_uc002ybp.1_Missense_Mutation_p.W588C	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	662	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GGAAGAACTGGACCATCACCC	0.672													16	19	---	---	---	---	PASS	T	60503462	T	T	60503462	3	4	108	1	0	0	0	0	1	0	0	0	3112	1183	41	2	2032	2	CDH4	20	60503462	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3260839	60503462	2522058	967	40409										
MYT1	4661	broad.mit.edu	37	chr20	62842683	62842683	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgtccccacaaggataggatCcccccagagagtgagtagct	11	12	0	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr20:62842683C>T	uc002yii.2	+	8	1780	c.1416C>T	c.(1414-1416)ATC>ATT	p.I472I	MYT1_uc002yih.2_Silent_p.I174I|MYT1_uc002yij.2_Silent_p.I104I	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	472					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					AGGATAGGATCCCCCCAGAGA	0.587													36	56	---	---	---	---	PASS	T	62842683	T	T	62842683	2	4	108	1	0	0	0	0	0	0	0	1	10106	845	30	2		2	MYT1	20	62842683	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	2339221	62842683	182837	968	40410										
TPTE	7179	broad.mit.edu	37	chr21	10910396	10910396	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtctgttgtaatgttatcaaGtacctatgaatgaacacatg	8	6	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr21:10910396G>T	uc002yip.1	-	22	1728	c.1360C>A	c.(1360-1362)CTT>ATT	p.L454I	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.L436I|TPTE_uc002yir.1_Missense_Mutation_p.L416I|TPTE_uc010gkv.1_Missense_Mutation_p.L316I	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	454	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ATGTTATCAAGTACCTATGAA	0.318													12	87	---	---	---	---	PASS	T	10910396	T	T	10910396	3	4	108	1	0	0	0	0	1	0	0	0	16427	1029	36	3	307	3	TPTE	21	10910396	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08		10910396	37219499	969	40411										
LIPI	149998	broad.mit.edu	37	chr21	15554098	15554098	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccattggagtcagaatggatGacatccacaaactttgcatc	8	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr21:15554098G>C	uc002yjm.2	-	4	697	c.687C>G	c.(685-687)GTC>GTG	p.V229V	LIPI_uc010gkw.1_Silent_p.V162V	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	208					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		CAGAATGGATGACATCCACAA	0.403													3	19	---	---	---	---	PASS	C	15554098	C	C	15554098	2	2	108	1	0	0	0	0	0	0	0	1	8825	1277	45	2		2	LIPI	21	15554098	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	4643702	15554098	32575797	970	40412										
JAM2	58494	broad.mit.edu	37	chr21	27066164	27066164	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atatcgttgtgaagttagtgCcccatctgagcaaggccaaa	10	9	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr21:27066164C>A	uc002ylp.1	+	4	883	c.338C>A	c.(337-339)GCC>GAC	p.A113D	JAM2_uc011ace.1_Missense_Mutation_p.A113D|JAM2_uc002ylq.1_RNA|JAM2_uc011acf.1_Missense_Mutation_p.A77D|JAM2_uc010glh.1_RNA|JAM2_uc002ylr.1_Missense_Mutation_p.A113D|JAM2_uc010gli.1_Missense_Mutation_p.A113D	NM_021219	NP_067042	P57087	JAM2_HUMAN	junctional adhesion molecule 2 precursor	113	Ig-like V-type.|Extracellular (Potential).				blood coagulation|cell-cell adhesion|leukocyte migration	integral to plasma membrane|tight junction					0						GAAGTTAGTGCCCCATCTGAG	0.428													12	48	---	---	---	---	PASS	A	27066164	A	A	27066164	3	1	108	1	0	0	0	0	1	0	0	0	7943	739	26	3	352	3	JAM2	21	27066164	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	11512066	27066164	21063731	971	40413										
GABPA	2551	broad.mit.edu	37	chr21	27141330	27141330	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgaagatattattacgatggGgacatgatttgtaaagttca	10	3	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr21:27141330G>T	uc002ylx.3	+	10	1679	c.1152G>T	c.(1150-1152)GGG>GGT	p.G384G	GABPA_uc002yly.3_Silent_p.G384G	NM_002040	NP_002031	Q06546	GABPA_HUMAN	GA binding protein transcription factor, alpha	384	ETS.				positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding			ovary(1)|central_nervous_system(1)	2						ATTACGATGGGGACATGATTT	0.348													14	57	---	---	---	---	PASS	T	27141330	T	T	27141330	2	4	108	1	0	0	0	0	0	0	0	1	6157	1219	43	3		3	GABPA	21	27141330	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	75166	27141330	20988565	972	40414										
APP	351	broad.mit.edu	37	chr21	27372439	27372439	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttcccttcagtcacatcaaaGtaccagcgggagatcattgc	8	12	4	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr21:27372439G>C	uc002ylz.2	-	7	1124	c.924C>G	c.(922-924)TAC>TAG	p.Y308*	APP_uc010glk.2_Nonsense_Mutation_p.Y303*|APP_uc002yma.2_Nonsense_Mutation_p.Y308*|APP_uc011ach.1_Nonsense_Mutation_p.Y252*|APP_uc002ymb.2_Intron|APP_uc010glj.2_Intron|APP_uc011aci.1_Intron	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	308	Extracellular (Potential).|BPTI/Kunitz inhibitor.				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				TCACATCAAAGTACCAGCGGG	0.532													4	13	---	---	---	---	PASS	C	27372439	C	C	27372439	4	2	108	1	0	0	0	0	0	1	0	0	815	1024	36	4	1436	4	APP	21	27372439	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	231109	27372439	20757456	973	40415										
SON	6651	broad.mit.edu	37	chr21	34924260	34924260	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agattctgctatgttgggttCaaaatctcctgatccctata	7	9	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr21:34924260C>T	uc002yse.1	+	3	2772	c.2723C>T	c.(2722-2724)TCA>TTA	p.S908L	SON_uc002ysb.1_Missense_Mutation_p.S908L|SON_uc002ysc.2_Missense_Mutation_p.S908L|SON_uc002ysd.2_Intron|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	908					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						ATGTTGGGTTCAAAATCTCCT	0.473													7	15	---	---	---	---	PASS	T	34924260	T	T	34924260	3	4	108	1	0	0	0	0	1	0	0	0	14926	838	29	2	2733	2	SON	21	34924260	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	7551821	34924260	13205635	974	40416										
KRTAP10-4	386672	broad.mit.edu	37	chr21	45994747	45994747	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgccgccccgtgtgcaggcCcgcctgctgcgtgcccgtcc	13	20	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr21:45994747C>A	uc002zfk.1	+	1	1142	c.1112C>A	c.(1111-1113)CCC>CAC	p.P371H	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198687	NP_941960	P60372	KR104_HUMAN	keratin associated protein 10-4	371	36 X 5 AA repeats of C-C-X(3).					keratin filament					0						GTGTGCAGGCCCGCCTGCTGC	0.692													17	60	---	---	---	---	PASS	A	45994747	A	A	45994747	3	1	108	1	0	0	0	0	1	0	0	0	8511	623	22	3	1114	3	KRTAP10-4	21	45994747	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	11070487	45994747	2135148	975	40417										
COL18A1	80781	broad.mit.edu	37	chr21	46925829	46925829	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggctggctcatcttcgtggcCgagcaggaggagctctacgt	15	11	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr21:46925829C>T	uc011afs.1	+	37	4422	c.4401C>T	c.(4399-4401)GCC>GCT	p.A1467A	COL18A1_uc002zhg.2_Silent_p.A1052A|COL18A1_uc002zhi.2_Silent_p.A1232A|SLC19A1_uc010gpy.1_Intron|COL18A1_uc002zhj.2_Silent_p.A33A|COL18A1_uc002zhk.2_5'Flank	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	1470	Nonhelical region 11 (NC11).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		TCTTCGTGGCCGAGCAGGAGG	0.657													6	26	---	---	---	---	PASS	T	46925829	T	T	46925829	2	4	108	1	0	0	0	0	0	0	0	1	3675	639	23	1		1	COL18A1	21	46925829	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	931082	46925829	1204066	976	40418										
PCNT	5116	broad.mit.edu	37	chr21	47836082	47836082	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgaaccgtttgctgtattccAtgaccttccagaatgtggat	9	9	0	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr21:47836082A>T	uc002zji.3	+	30	6357	c.6250A>T	c.(6250-6252)ATG>TTG	p.M2084L	PCNT_uc002zjj.2_Missense_Mutation_p.M1966L	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2084					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					GCTGTATTCCATGACCTTCCA	0.507													6	19	---	---	---	---	PASS	T	47836082	T	T	47836082	3	4	108	1	0	0	0	0	1	0	0	0	11590	217	8	5	6368	5	PCNT	21	47836082	Missense_Mutation	SNP	A	TCGA-46-3769-01A-01D-0983-08	910253	47836082	293813	977	40419										
DIP2A	23181	broad.mit.edu	37	chr21	47918562	47918562	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgactcacctccactccgctCcagagccattccagcgtcga	7	19	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr21:47918562C>A	uc002zjo.2	+	5	654	c.471C>A	c.(469-471)CTC>CTA	p.L157L	DIP2A_uc011afy.1_Silent_p.L93L|DIP2A_uc011afz.1_Silent_p.L157L|DIP2A_uc002zjl.2_Silent_p.L157L|DIP2A_uc002zjm.2_Silent_p.L157L|DIP2A_uc010gql.2_Silent_p.L157L|DIP2A_uc002zjn.2_Silent_p.L157L	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	157					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		CCACTCCGCTCCAGAGCCATT	0.592													15	74	---	---	---	---	PASS	A	47918562	A	A	47918562	2	1	108	1	0	0	0	0	0	0	0	1	4527	842	30	2		2	DIP2A	21	47918562	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	82480	47918562	211333	978	40420										
GAB4	128954	broad.mit.edu	37	chr22	17447154	17447154	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	caccctgggaatcatcgcctGcttgcttcacagccggcagg	11	15	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:17447154G>T	uc002zlw.2	-	6	1232	c.1124C>A	c.(1123-1125)GCA>GAA	p.A375E	GAB4_uc010gqs.1_3'UTR	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	375										large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				ATCATCGCCTGCTTGCTTCAC	0.582													13	14	---	---	---	---	PASS	T	17447154	T	T	17447154	3	4	108	1	0	0	0	0	1	0	0	0	6151	1319	46	3	620	3	GAB4	22	17447154	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08		17447154	33857412	979	40421										
CLDN5	7122	broad.mit.edu	37	chr22	19511547	19511547	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggtgagcgcccgcgccgcctGcacctcggtgctcagagcca	14	17	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:19511547G>T	uc002zpu.2	-	2	702	c.487C>A	c.(487-489)CAG>AAG	p.Q163K	CLDN5_uc010grr.2_Missense_Mutation_p.Q163K	NM_003277	NP_003268	O00501	CLD5_HUMAN	claudin 5	78	Extracellular (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity				0	Colorectal(54;0.0993)					CGCGCCGCCTGCACCTCGGTG	0.697													10	8	---	---	---	---	PASS	T	19511547	T	T	19511547	3	4	108	1	0	0	0	0	1	0	0	0	3488	1328	46	3	428	3	CLDN5	22	19511547	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	2064393	19511547	31793019	980	40422										
PI4KA	5297	broad.mit.edu	37	chr22	21096603	21096603	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgctcattgaacatccggagGggaccccagcacagatgatg	12	11	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:21096603G>A	uc002zsz.3	-	32	3711	c.3480C>T	c.(3478-3480)CCC>CCT	p.P1160P		NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1160					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			ACATCCGGAGGGGACCCCAGC	0.587											OREG0026324	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	92	---	---	---	---	PASS	A	21096603	A	A	21096603	2	1	108	1	0	0	0	0	0	0	0	1	11873	1219	43	3		3	PI4KA	22	21096603	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1585056	21096603	30207963	981	40423										
CRKL	1399	broad.mit.edu	37	chr22	21288526	21288526	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tatgacaagactgccttggcAttagaggtaaaatctgttca	9	7	2	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:21288526A>C	uc002ztf.2	+	2	1280	c.771A>C	c.(769-771)GCA>GCC	p.A257A	CRKL_uc002ztg.1_RNA	NM_005207	NP_005198	P46109	CRKL_HUMAN	v-crk sarcoma virus CT10 oncogene homolog	257	SH3 2.				JNK cascade|Ras protein signal transduction	cytosol	protein tyrosine kinase activity|SH3/SH2 adaptor activity|signal transducer activity				0	all_cancers(11;1.16e-25)|all_epithelial(7;3.37e-24)|Lung NSC(8;7.25e-16)|all_lung(8;1.37e-14)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.176)			CTGCCTTGGCATTAGAGGTAA	0.393													15	41	---	---	---	---	PASS	C	21288526	C	C	21288526	2	2	108	1	0	0	0	0	0	0	0	1	3885	204	8	5		5	CRKL	22	21288526	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	191923	21288526	30016040	982	40424										
RTDR1	27156	broad.mit.edu	37	chr22	23401853	23401853	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atgggggagtgcagcagctcCaggagcaggccgatggcttg	18	9	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:23401853C>A	uc002zwt.2	-	7	992	c.834G>T	c.(832-834)CTG>CTT	p.L278L		NM_014433	NP_055248	Q9UHP6	RTDR1_HUMAN	rhabdoid tumor deletion region protein 1	278							binding			ovary(1)	1	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.175)		GCAGCAGCTCCAGGAGCAGGC	0.662													59	30	---	---	---	---	PASS	A	23401853	A	A	23401853	2	1	108	1	0	0	0	0	0	0	0	1	13719	581	21	3		3	RTDR1	22	23401853	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	2113327	23401853	27902713	983	40425										
GAS2L1	10634	broad.mit.edu	37	chr22	29707967	29707967	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttccgcacacccctgcagctCgacccgcagcaggagcagca	10	18	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:29707967C>T	uc003afa.1	+	7	1726	c.1527C>T	c.(1525-1527)CTC>CTT	p.L509L	GAS2L1_uc010gvm.1_Intron|GAS2L1_uc003afb.1_3'UTR|GAS2L1_uc003afc.1_Silent_p.L509L|GAS2L1_uc003afd.1_Missense_Mutation_p.S509L|GAS2L1_uc003afe.1_Missense_Mutation_p.S509L	NM_152236	NP_689422	Q99501	GA2L1_HUMAN	growth arrest-specific 2 like 1 isoform a	509					cell cycle arrest	cytoplasm|cytoskeleton					0						CCCTGCAGCTCGACCCGCAGC	0.687													15	27	---	---	---	---	PASS	T	29707967	T	T	29707967	2	4	108	1	0	0	0	0	0	0	0	1	6246	893	31	2		2	GAS2L1	22	29707967	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	6306114	29707967	21596599	984	40426										
NF2	4771	broad.mit.edu	37	chr22	30035098	30035098	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggtactggatcatgatgtttCaaaggaagaaccagtcacct	10	8	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:30035098C>G	uc003age.3	+	3	703	c.260C>G	c.(259-261)TCA>TGA	p.S87*	NF2_uc003afy.3_Nonsense_Mutation_p.S87*|NF2_uc003afz.3_Intron|NF2_uc003agf.3_Nonsense_Mutation_p.S87*|NF2_uc003agb.3_Nonsense_Mutation_p.S10*|NF2_uc003agc.3_Nonsense_Mutation_p.S49*|NF2_uc003agd.3_Intron|NF2_uc003agg.3_Nonsense_Mutation_p.S87*|NF2_uc003aga.3_Nonsense_Mutation_p.S45*|NF2_uc003agh.3_Intron|NF2_uc003agi.3_Intron|NF2_uc003agj.3_Nonsense_Mutation_p.S87*|NF2_uc003agk.3_Nonsense_Mutation_p.S49*	NM_000268	NP_000259	P35240	MERL_HUMAN	neurofibromin 2 isoform 1	87	FERM.				actin cytoskeleton organization|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of cell-matrix adhesion|negative regulation of DNA replication|negative regulation of tyrosine phosphorylation of Stat3 protein|negative regulation of tyrosine phosphorylation of Stat5 protein|positive regulation of stress fiber assembly|regulation of hippo signaling cascade|Schwann cell proliferation	cytoskeleton|early endosome|extrinsic to membrane|filopodium membrane|nucleolus|perinuclear region of cytoplasm|ruffle membrane	cytoskeletal protein binding|protein binding	p.H84_F100del(1)|p.V86_Q111>E(1)|p.S87fs*36(1)|p.S87*(1)		meninges(372)|soft_tissue(284)|central_nervous_system(20)|kidney(10)|pleura(9)|skin(7)|large_intestine(5)|breast(5)|urinary_tract(3)|thyroid(2)|endometrium(2)|ovary(2)|lung(2)|stomach(2)|bone(2)|pituitary(1)	728						CATGATGTTTCAAAGGAAGAA	0.428			D|Mis|N|F|S|O		meningioma|acoustic neuroma|renal 	meningioma|acoustic neuroma			Neurofibromatosis_type_2				34	17	---	---	---	---	PASS	G	30035098	G	G	30035098	4	3	108	1	0	0	0	0	0	1	0	0	10357	838	29	2	270	2	NF2	22	30035098	Nonsense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	327131	30035098	21269468	985	40427										
MYH9	4627	broad.mit.edu	37	chr22	36691011	36691011	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tccagctgctccgccagctcCtccacggcctgtgagtgctt	10	17	0	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:36691011C>A	uc003apg.2	-	27	3828	c.3597G>T	c.(3595-3597)GAG>GAT	p.E1199D		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1199	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CCGCCAGCTCCTCCACGGCCT	0.647			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				89	44	---	---	---	---	PASS	A	36691011	A	A	36691011	3	1	108	1	0	0	0	0	1	0	0	0	10042	680	24	3	2345	3	MYH9	22	36691011	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6655913	36691011	14613555	986	40428										
MYH9	4627	broad.mit.edu	37	chr22	36692951	36692951	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgcatcttgagctccgcgatCtgggcctggagctcggcgat	14	12	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:36692951C>A	uc003apg.2	-	25	3441	c.3210G>T	c.(3208-3210)CAG>CAT	p.Q1070H		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1070	Potential.		Missing (in MHA and SBS).		actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GCTCCGCGATCTGGGCCTGGA	0.677			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				11	31	---	---	---	---	PASS	A	36692951	A	A	36692951	3	1	108	1	0	0	0	0	1	0	0	0	10042	912	32	2	2740	2	MYH9	22	36692951	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1940	36692951	14611615	987	40429										
TRIOBP	11078	broad.mit.edu	37	chr22	38130844	38130844	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggaggagaagcccactcatGagctccccagagaactagga	13	11	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:38130844G>A	uc003atr.2	+	9	4772	c.4501G>A	c.(4501-4503)GAG>AAG	p.E1501K	TRIOBP_uc003atu.2_Missense_Mutation_p.E1329K	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1501					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GCCCACTCATGAGCTCCCCAG	0.652													27	20	---	---	---	---	PASS	A	38130844	A	A	38130844	3	1	108	1	0	0	0	0	1	0	0	0	16550	1291	45	2	4527	2	TRIOBP	22	38130844	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1437893	38130844	13173722	988	40430			1	48		3	3	403	G		8.388428e-05
TRIOBP	11078	broad.mit.edu	37	chr22	38130997	38130997	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtccatacccgcgtggctctGagaggcgacccgagcttgac	13	14	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:38130997G>C	uc003atr.2	+	9	4925	c.4654G>C	c.(4654-4656)GAG>CAG	p.E1552Q	TRIOBP_uc003atu.2_Missense_Mutation_p.E1380Q	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1552					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GCGTGGCTCTGAGAGGCGACC	0.687											OREG0026548	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	20	---	---	---	---	PASS	C	38130997	C	C	38130997	3	2	108	1	0	0	0	0	1	0	0	0	16550	1291	45	2	4680	2	TRIOBP	22	38130997	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	153	38130997	13173569	989	40431			1	48		3	3	403	G		8.388428e-05
TRIOBP	11078	broad.mit.edu	37	chr22	38131246	38131246	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccagccagaaggctgggccGaggccaccccagtcaatgga	14	14	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:38131246G>A	uc003atr.2	+	9	5174	c.4903G>A	c.(4903-4905)GAG>AAG	p.E1635K	TRIOBP_uc003atu.2_Missense_Mutation_p.E1463K	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1635					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					AGGCTGGGCCGAGGCCACCCC	0.657											OREG0026548	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	14	---	---	---	---	PASS	A	38131246	A	A	38131246	3	1	108	1	0	0	0	0	1	0	0	0	16550	1059	37	2	4929	2	TRIOBP	22	38131246	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	249	38131246	13173320	990	40432			1	48		3	3	403	G		8.388428e-05
PDGFB	5155	broad.mit.edu	37	chr22	39629506	39629506	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtgggagcgggtcatgttcaGgtccaactcggccccatctt	13	12	3	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:39629506G>A	uc003axf.2	-	3	1173	c.184C>T	c.(184-186)CTG>TTG	p.L62L	PDGFB_uc003axe.2_Silent_p.L47L	NM_002608	NP_002599	P01127	PDGFB_HUMAN	platelet-derived growth factor beta isoform 1	62					activation of protein kinase B activity|cellular response to mycophenolic acid|embryonic placenta development|heart development|hemopoiesis|metanephric glomerular mesangial cell development|monocyte chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|negative regulation of transcription, DNA-dependent|paracrine signaling|peptidyl-serine phosphorylation|peptidyl-tyrosine phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of calcium ion import|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of cyclin-dependent protein kinase activity|positive regulation of DNA biosynthetic process|positive regulation of DNA replication|positive regulation of endothelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of glomerular filtration|positive regulation of glomerular mesangial cell proliferation|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent|reactive oxygen species metabolic process|transforming growth factor beta receptor signaling pathway	basolateral plasma membrane|cell surface|endoplasmic reticulum lumen|extracellular region|Golgi membrane|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|superoxide-generating NADPH oxidase activator activity		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(1)	373	Melanoma(58;0.04)				Becaplermin(DB00102)	GTCATGTTCAGGTCCAACTCG	0.627			T	COL1A1	DFSP								17	19	---	---	---	---	PASS	A	39629506	A	A	39629506	2	1	108	1	0	0	0	0	0	0	0	1	11658	991	35	3		3	PDGFB	22	39629506	Silent	SNP	G	TCGA-46-3769-01A-01D-0983-08	1498260	39629506	11675060	991	40433										
FAM116B	414918	broad.mit.edu	37	chr22	50750580	50750580	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gctttgttctagggagggcaCaagacagcctgcaggtcttt	13	9	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chr22:50750580C>T	uc011aru.1	-	21	1818	c.1746G>A	c.(1744-1746)TTG>TTA	p.L582L	FAM116B_uc011arv.1_Silent_p.L582L	NM_001001794	NP_001001794	Q8NEG7	F116B_HUMAN	family with sequence similarity 116, member B	582											0		all_cancers(38;4.34e-09)|all_epithelial(38;3.03e-08)|all_lung(38;0.00141)|Breast(42;0.00387)|Lung NSC(38;0.0199)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		AGGGAGGGCACAAGACAGCCT	0.657													5	13	---	---	---	---	PASS	T	50750580	T	T	50750580	2	4	108	1	0	0	0	0	0	0	0	1	5408	477	17	3		3	FAM116B	22	50750580	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	11121074	50750580	553986	992	40434										
SHOX	6473	broad.mit.edu	37	chrX	591648	591648	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagccatggaagagctcacgGcttttgtatccaagtctttt	9	10	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:591648G>C	uc004cph.1	+	2	707	c.16G>C	c.(16-18)GCT>CCT	p.A6P	SHOX_uc004cpi.2_Missense_Mutation_p.A6P	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	6					skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AGAGCTCACGGCTTTTGTATC	0.647													16	60	---	---	---	---	PASS	C	591648	C	C	591648	3	2	108	1	0	0	0	0	1	0	0	0	14288	1203	42	4	18	4	SHOX	23	591648	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08		591648	154678912	993	40435										
CRLF2	64109	broad.mit.edu	37	chrX	1314965	1314965	+	RNA	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccaggctggaaattaaaatAaatttggacagctttggttt	10	5	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:1314965A>T	uc004cpm.1	-	6		c.878T>A						Q9HC73	CRLF2_HUMAN	Homo sapiens mRNA for IL-XR, complete cds.							extracellular region|integral to membrane|plasma membrane	receptor activity			haematopoietic_and_lymphoid_tissue(7)	7		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				AAATTAAAATAAATTTGGACA	0.488			Mis|T	P2RY8|IGH@	B-ALL|Downs associated ALL								13	32	---	---	---	---	PASS	T	1314965	T	T	1314965	1	4	108	0	1	0	0	0	0	0	0	0	3887	359	13	5		5	CRLF2	23	1314965	RNA	SNP	A	TCGA-46-3769-01A-01D-0983-08	723317	1314965	153955595	994	40436										
MXRA5	25878	broad.mit.edu	37	chrX	3241309	3241309	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	aggatggaggacttgtggttTtaatcaatgggggtacttct	14	4	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:3241309T>G	uc004crg.3	-	5	2574	c.2417A>C	c.(2416-2418)AAA>ACA	p.K806T		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	806						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				ACTTGTGGTTTTAATCAATGG	0.478													35	20	---	---	---	---	PASS	G	3241309	G	G	3241309	3	3	108	1	0	0	0	0	1	0	0	0	10003	1841	64	5	6081	5	MXRA5	23	3241309	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	1926344	3241309	152029251	995	40437										
SCML2	10389	broad.mit.edu	37	chrX	18259479	18259479	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acatcactcttgagtaggaaCagagccttcccatcaatttc	6	12	3	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:18259479C>A	uc004cyl.2	-	15	2152	c.1995G>T	c.(1993-1995)CTG>CTT	p.L665L	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_3'UTR|SCML2_uc011miz.1_3'UTR|SCML2_uc010nfc.2_3'UTR	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	665	SAM.				anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					TGAGTAGGAACAGAGCCTTCC	0.348													24	21	---	---	---	---	PASS	A	18259479	A	A	18259479	2	1	108	1	0	0	0	0	0	0	0	1	13910	465	17	3		3	SCML2	23	18259479	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08	15018170	18259479	137011081	996	40438										
GPR64	10149	broad.mit.edu	37	chrX	19024151	19024151	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cgaagcttgttagatggctaCaggtacagatggtttcattc	11	7	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:19024151C>G	uc004cyx.2	-	22	1972	c.1808G>C	c.(1807-1809)TGT>TCT	p.C603S	GPR64_uc004cyy.2_Missense_Mutation_p.C600S|GPR64_uc004cyz.2_Missense_Mutation_p.C589S|GPR64_uc004czb.2_Missense_Mutation_p.C603S|GPR64_uc004czc.2_Missense_Mutation_p.C587S|GPR64_uc004czd.2_Missense_Mutation_p.C579S|GPR64_uc004cze.2_Missense_Mutation_p.C573S|GPR64_uc004czf.2_Missense_Mutation_p.C565S|GPR64_uc004cza.2_Missense_Mutation_p.C581S|GPR64_uc004cyw.2_Missense_Mutation_p.C587S|GPR64_uc010nfj.2_Missense_Mutation_p.C484S	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	603	GPS.|Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					TAGATGGCTACAGGTACAGAT	0.502													10	21	---	---	---	---	PASS	G	19024151	G	G	19024151	3	3	108	1	0	0	0	0	1	0	0	0	6705	478	17	4	1277	4	GPR64	23	19024151	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	764672	19024151	136246409	997	40439										
IL1RAPL1	11141	broad.mit.edu	37	chrX	29938136	29938136	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tggactctgtggaagaaggtGacttgggaaattactcctgt	13	6	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:29938136G>A	uc004dby.2	+	8	1490	c.982G>A	c.(982-984)GAC>AAC	p.D328N		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	328	Extracellular (Potential).|Ig-like C2-type 3.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						GGAAGAAGGTGACTTGGGAAA	0.413													23	13	---	---	---	---	PASS	A	29938136	A	A	29938136	3	1	108	1	0	0	0	0	1	0	0	0	7661	1290	45	2	1008	2	IL1RAPL1	23	29938136	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	10913985	29938136	125332424	998	40440										
MAGEB2	4113	broad.mit.edu	37	chrX	30236723	30236723	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcgtggtcagaagagtaagcTccgtgcccgtgagaaacgcc	13	11	1	3			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:30236723T>A	uc004dbz.2	+	2	129	c.26T>A	c.(25-27)CTC>CAC	p.L9H		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	9							protein binding			ovary(1)	1						AAGAGTAAGCTCCGTGCCCGT	0.537													14	5	---	---	---	---	PASS	A	30236723	A	A	30236723	3	1	108	1	0	0	0	0	1	0	0	0	9176	1551	54	5	28	5	MAGEB2	23	30236723	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	298587	30236723	125033837	999	40441										
CXorf59	286464	broad.mit.edu	37	chrX	36117869	36117869	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	actattttatttcttaaagtCttccactaatacgatgcctg	4	9	2	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:36117869C>G	uc004ddk.1	+	7	911	c.725C>G	c.(724-726)TCT>TGT	p.S242C		NM_173695	NP_775966	Q8N9S7	CX059_HUMAN	hypothetical protein LOC286464	242						integral to membrane				central_nervous_system(1)	1						TTCTTAAAGTCTTCCACTAAT	0.303													22	12	---	---	---	---	PASS	G	36117869	G	G	36117869	3	3	108	1	0	0	0	0	1	0	0	0	4115	927	32	2	747	2	CXorf59	23	36117869	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5881146	36117869	119152691	1000	40442										
CASK	8573	broad.mit.edu	37	chrX	41437649	41437649	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ccgaactctggtcacattctCcatatccatgtctccgttag	6	14	4	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:41437649C>T	uc004dfl.3	-	15	1493	c.1447G>A	c.(1447-1449)GAG>AAG	p.E483K	CASK_uc004dfj.3_Missense_Mutation_p.E46K|CASK_uc004dfk.3_Missense_Mutation_p.E298K|CASK_uc004dfm.3_Missense_Mutation_p.E483K|CASK_uc004dfn.3_Missense_Mutation_p.E477K	NM_003688	NP_003679	O14936	CSKP_HUMAN	calcium/calmodulin-dependent serine protein	483					cell adhesion	actin cytoskeleton|cytoplasm|nucleus|plasma membrane	ATP binding|calmodulin binding|guanylate kinase activity|protein serine/threonine kinase activity			ovary(3)|lung(2)|stomach(1)	6						GTCACATTCTCCATATCCATG	0.438													12	8	---	---	---	---	PASS	T	41437649	T	T	41437649	3	4	108	1	0	0	0	0	1	0	0	0	2665	864	30	2	1385	2	CASK	23	41437649	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	5319780	41437649	113832911	1001	40443										
ZNF41	7592	broad.mit.edu	37	chrX	47307673	47307673	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagtgaagacctttccacatTctgtacatatatagggtttc	8	8	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:47307673T>G	uc004dhs.3	-	4	1689	c.1622A>C	c.(1621-1623)GAA>GCA	p.E541A	ZNF41_uc004dhu.3_Missense_Mutation_p.E533A|ZNF41_uc004dht.3_Missense_Mutation_p.E413A|ZNF41_uc004dhv.3_Missense_Mutation_p.E509A|ZNF41_uc004dhw.3_Missense_Mutation_p.E501A|ZNF41_uc004dhy.3_Missense_Mutation_p.E499A|ZNF41_uc004dhx.3_Missense_Mutation_p.E499A|ZNF41_uc011mlm.1_Missense_Mutation_p.E413A	NM_153380	NP_700359	P51814	ZNF41_HUMAN	zinc finger protein 41	541	C2H2-type 9.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3		all_lung(315;0.000129)				CTTTCCACATTCTGTACATAT	0.428													29	8	---	---	---	---	PASS	G	47307673	G	G	47307673	3	3	108	1	0	0	0	0	1	0	0	0	17886	1783	62	5	847	5	ZNF41	23	47307673	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	5870024	47307673	107962887	1002	40444										
HUWE1	10075	broad.mit.edu	37	chrX	53661239	53661239	+	Silent	SNP	T	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agtccaaagccattctccttTccaccccagctcttgaaaaa							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:53661239T>A	uc004dsp.2	-	8	918	c.516A>T	c.(514-516)GGA>GGT	p.G172G		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	172					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CATTCTCCTTTCCACCCCAGC	0.299													12	15	---	---	---	---	PASS	A	53661239	A	A	53661239	2	1	108	1	0	0	0	0	0	0	0	1	7461	1770	62	5		5	HUWE1	23	53661239	Silent	SNP	T	TCGA-46-3769-01A-01D-0983-08	6353566	53661239	101609321	1003	40445	758	2								
HUWE1	10075	broad.mit.edu	37	chrX	53661240	53661240	+	Missense_Mutation	SNP	C	A	A													0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gtccaaagccattctcctttCcaccccagctcttgaaaaag							TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:53661240C>A	uc004dsp.2	-	8	917	c.515G>T	c.(514-516)GGA>GTA	p.G172V		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	172					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						ATTCTCCTTTCCACCCCAGCT	0.294													11	15	---	---	---	---	PASS	A	53661240	A	A	53661240	3	1	108	1	0	0	0	0	1	0	0	0	7461	855	30	2	12917	2	HUWE1	23	53661240	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1	53661240	101609320	1004	40446	758	2								
ITIH5L	347365	broad.mit.edu	37	chrX	54823400	54823400	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gaaattggagataaaggcaaGatgaggcagatccaggtcaa	13	5	1	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:54823400G>C	uc004dtj.2	-	2	262	c.232C>G	c.(232-234)CTT>GTT	p.L78V		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	78	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						ATAAAGGCAAGATGAGGCAGA	0.438													32	26	---	---	---	---	PASS	C	54823400	C	C	54823400	3	2	108	1	0	0	0	0	1	0	0	0	7908	942	33	2	3757	2	ITIH5L	23	54823400	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1162160	54823400	100447160	1005	40447										
ZC4H2	55906	broad.mit.edu	37	chrX	64141826	64141826	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tcaagtgcctcaaactcagcCttcaaacgagccttgatctt	6	13	5	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:64141826C>A	uc004dvu.2	-	2	184	c.96G>T	c.(94-96)AAG>AAT	p.K32N	ZC4H2_uc004dvv.2_Missense_Mutation_p.K9N|ZC4H2_uc011mov.1_Missense_Mutation_p.K9N|ZC4H2_uc011mow.1_Missense_Mutation_p.K32N|ZC4H2_uc004dvw.1_Missense_Mutation_p.K32N	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	32	Potential.						metal ion binding|protein binding			ovary(1)	1						CAAACTCAGCCTTCAAACGAG	0.483													14	9	---	---	---	---	PASS	A	64141826	A	A	64141826	3	1	108	1	0	0	0	0	1	0	0	0	17575	680	24	3	613	3	ZC4H2	23	64141826	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	9318426	64141826	91128734	1006	40448										
EFNB1	1947	broad.mit.edu	37	chrX	68059886	68059886	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ctgtcaagatggccacacagGcccctggtagtcggggctcc	13	14	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:68059886G>T	uc004dxd.3	+	4	1363	c.583G>T	c.(583-585)GCC>TCC	p.A195S	EFNB1_uc004dxe.2_Missense_Mutation_p.A195S	NM_004429	NP_004420	P98172	EFNB1_HUMAN	ephrin-B1 precursor	195	Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to plasma membrane|soluble fraction|synapse	ephrin receptor binding				0						GGCCACACAGGCCCCTGGTAG	0.557													6	6	---	---	---	---	PASS	T	68059886	T	T	68059886	3	4	108	1	0	0	0	0	1	0	0	0	4955	1203	42	3	597	3	EFNB1	23	68059886	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	3918060	68059886	87210674	1007	40449										
OTUD6A	139562	broad.mit.edu	37	chrX	69282924	69282924	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acatgaagaagcacgtcgacGagttcctgcccttcttcagc	9	13	2	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:69282924G>T	uc004dxu.1	+	1	584	c.550G>T	c.(550-552)GAG>TAG	p.E184*		NM_207320	NP_997203	Q7L8S5	OTU6A_HUMAN	OTU domain containing 6A	184	OTU.									lung(1)|skin(1)	2						GCACGTCGACGAGTTCCTGCC	0.602													16	5	---	---	---	---	PASS	T	69282924	T	T	69282924	4	4	108	1	0	0	0	0	0	1	0	0	11316	1059	37	2	552	2	OTUD6A	23	69282924	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	1223038	69282924	85987636	1008	40450										
DGAT2L6	347516	broad.mit.edu	37	chrX	69424174	69424174	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gggcataccttgtcccttcaTattcctttggtgagaacgaa	9	10	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:69424174T>A	uc004dxx.1	+	6	764	c.667T>A	c.(667-669)TAT>AAT	p.Y223N		NM_198512	NP_940914	Q6ZPD8	DG2L6_HUMAN	diacylglycerol O-acyltransferase 2-like 6	223					lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(1)	1						TGTCCCTTCATATTCCTTTGG	0.478													8	2	---	---	---	---	PASS	A	69424174	A	A	69424174	3	1	108	1	0	0	0	0	1	0	0	0	4459	1406	49	5	689	5	DGAT2L6	23	69424174	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	141250	69424174	85846386	1009	40451										
FOXO4	4303	broad.mit.edu	37	chrX	70321014	70321014	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	agctgttagatgggctcaatCtcacctcttcccattccctg	7	14	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:70321014C>G	uc004dys.1	+	2	1287	c.934C>G	c.(934-936)CTC>GTC	p.L312V	FOXO4_uc010nkz.2_Intron|FOXO4_uc004dyt.1_Missense_Mutation_p.L257V	NM_005938	NP_005929	P98177	FOXO4_HUMAN	forkhead box O4	312					cell cycle arrest|cell differentiation|embryo development|G1 phase of mitotic cell cycle|insulin receptor signaling pathway|mitotic cell cycle G2/M transition DNA damage checkpoint|muscle organ development|negative regulation of angiogenesis|negative regulation of cell proliferation|negative regulation of smooth muscle cell differentiation|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase 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			central_nervous_system(2)|prostate(1)	3	Renal(35;0.156)					TGGGCTCAATCTCACCTCTTC	0.557											OREG0019856	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	7	---	---	---	---	PASS	G	70321014	G	G	70321014	3	3	108	1	0	0	0	0	1	0	0	0	6025	913	32	2	940	2	FOXO4	23	70321014	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	896840	70321014	84949546	1010	40452										
ATRX	546	broad.mit.edu	37	chrX	76938926	76938926	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gccatctttatcttgtggaaCttcctgacaatcagcacctt	6	12	3	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:76938926C>A	uc004ecp.3	-	9	2054	c.1822G>T	c.(1822-1824)GTT>TTT	p.V608F	ATRX_uc004ecq.3_Missense_Mutation_p.V570F|ATRX_uc004eco.3_Missense_Mutation_p.V393F|ATRX_uc004ecr.2_Missense_Mutation_p.V540F|ATRX_uc010nlx.1_Missense_Mutation_p.V579F|ATRX_uc010nly.1_Missense_Mutation_p.V553F	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	608					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TCTTGTGGAACTTCCTGACAA	0.358			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						71	75	---	---	---	---	PASS	A	76938926	A	A	76938926	3	1	108	1	0	0	0	0	1	0	0	0	1208	565	20	3	5764	3	ATRX	23	76938926	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	6617912	76938926	78331634	1011	40453										
IL1RAPL2	26280	broad.mit.edu	37	chrX	104440226	104440226	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggcaggtgaaccagtccgagTgaaatgtgcccttttctaca	11	10	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:104440226T>A	uc004elz.1	+	3	908	c.152T>A	c.(151-153)GTG>GAG	p.V51E		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	51	Ig-like C2-type 1.|Extracellular (Potential).				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						CCAGTCCGAGTGAAATGTGCC	0.448													31	17	---	---	---	---	PASS	A	104440226	A	A	104440226	3	1	108	1	0	0	0	0	1	0	0	0	7662	1696	59	5	158	5	IL1RAPL2	23	104440226	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	27501300	104440226	50830334	1012	40454										
GUCY2F	2986	broad.mit.edu	37	chrX	108636213	108636213	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atcaaatcttccaagttgctAgaatattgctccaacatccg	5	11	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:108636213A>G	uc004eod.3	-	13	2772	c.2496T>C	c.(2494-2496)TCT>TCC	p.S832S	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	832	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						CCAAGTTGCTAGAATATTGCT	0.373													84	35	---	---	---	---	PASS	G	108636213	G	G	108636213	2	3	108	1	0	0	0	0	0	0	0	1	6898	407	15	5		5	GUCY2F	23	108636213	Silent	SNP	A	TCGA-46-3769-01A-01D-0983-08	4195987	108636213	46634347	1013	40455										
GPC3	2719	broad.mit.edu	37	chrX	132887889	132887889	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttgcagtgacttggaaacctGggtcataataagcttgggga	13	6	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:132887889G>A	uc004exe.1	-	3	842	c.652C>T	c.(652-654)CAG>TAG	p.Q218*	GPC3_uc004exd.1_Nonsense_Mutation_p.Q90*|GPC3_uc010nrn.1_Nonsense_Mutation_p.Q218*|GPC3_uc011mvh.1_Nonsense_Mutation_p.Q202*|GPC3_uc010nro.1_Nonsense_Mutation_p.Q164*|GPC3_uc010nrp.1_Nonsense_Mutation_p.Q90*	NM_004484	NP_004475	P51654	GPC3_HUMAN	glypican 3 isoform 2 precursor	218						extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding|peptidyl-dipeptidase inhibitor activity			lung(2)|prostate(1)|breast(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					TTGGAAACCTGGGTCATAATA	0.473			T|D|Mis|N|F|S			Wilms tumour			Simpson-Golabi-Behmel_syndrome				61	24	---	---	---	---	PASS	A	132887889	A	A	132887889	4	1	108	1	0	0	0	0	0	1	0	0	6599	1357	47	3	1187	3	GPC3	23	132887889	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	24251676	132887889	22382671	1014	40456										
MAGEC3	139081	broad.mit.edu	37	chrX	140983082	140983082	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	cagccttggcagggttcgcgGatgtgctttcccgacttgca	13	12	0	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:140983082G>T	uc011mwp.1	+	5	937	c.937G>T	c.(937-939)GAT>TAT	p.D313Y	MAGEC3_uc004fbs.2_5'UTR|MAGEC3_uc010nsj.2_5'Flank	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	313	MAGE 1.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AGGGTTCGCGGATGTGCTTTC	0.527													52	20	---	---	---	---	PASS	T	140983082	T	T	140983082	3	4	108	1	0	0	0	0	1	0	0	0	9182	1174	41	2	955	2	MAGEC3	23	140983082	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	8095193	140983082	14287478	1015	40457										
MAGEC1	9947	broad.mit.edu	37	chrX	140995433	140995433	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gagtcctgtgagtatctgctCctcctccacttctttgagtc	8	13	2	2	rs149394425		TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:140995433C>T	uc004fbt.2	+	4	2529	c.2243C>T	c.(2242-2244)TCC>TTC	p.S748F	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	748							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AGTATCTGCTCCTCCTCCACT	0.572										HNSCC(15;0.026)			30	119	---	---	---	---	PASS	T	140995433	T	T	140995433	3	4	108	1	0	0	0	0	1	0	0	0	9180	855	30	2	2249	2	MAGEC1	23	140995433	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	12351	140995433	14275127	1016	40458										
SPANXN2	494119	broad.mit.edu	37	chrX	142795489	142795489	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttctccagttgatttgaattTattttcgtatgcttcctgta	6	7	1	2			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:142795489T>C	uc004fbz.2	-	2	943	c.189A>G	c.(187-189)ATA>ATG	p.I63M		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	63										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					GATTTGAATTTATTTTCGTAT	0.438													65	34	---	---	---	---	PASS	C	142795489	C	C	142795489	3	2	108	1	0	0	0	0	1	0	0	0	14991	1744	61	5	357	5	SPANXN2	23	142795489	Missense_Mutation	SNP	T	TCGA-46-3769-01A-01D-0983-08	1800056	142795489	12475071	1017	40459										
GPR50	9248	broad.mit.edu	37	chrX	150349889	150349889	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ttattgatgttgaagatgatCctgatgaaatggctgtgtga	12	3	0	7			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:150349889C>T	uc010ntg.1	+	2	1969	c.1834C>T	c.(1834-1836)CCT>TCT	p.P612S		NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	612	Cytoplasmic (Potential).|Pro-rich.				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TGAAGATGATCCTGATGAAAT	0.458													62	40	---	---	---	---	PASS	T	150349889	T	T	150349889	3	4	108	1	0	0	0	0	1	0	0	0	6697	855	30	2	1840	2	GPR50	23	150349889	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	7554400	150349889	4920671	1018	40460										
PASD1	139135	broad.mit.edu	37	chrX	150842410	150842410	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tctcttacagtttttatcctGaggcgtatcaagggcccccc	8	13	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:150842410G>A	uc004fev.3	+	15	2259	c.1927G>A	c.(1927-1929)GAG>AAG	p.E643K		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	643						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TTTTTATCCTGAGGCGTATCA	0.468													36	12	---	---	---	---	PASS	A	150842410	A	A	150842410	3	1	108	1	0	0	0	0	1	0	0	0	11471	1291	45	2	1981	2	PASD1	23	150842410	Missense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	492521	150842410	4428150	1019	40461										
CNGA2	1260	broad.mit.edu	37	chrX	150908073	150908073	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	atcatcagagaatgggccaaCaagaatttccgagaggagga	12	7	2	3	rs144004735	by1000genomes	TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:150908073C>A	uc004fey.1	+	4	467	c.243C>A	c.(241-243)AAC>AAA	p.N81K		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	81	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AATGGGCCAACAAGAATTTCC	0.517													26	4	---	---	---	---	PASS	A	150908073	A	A	150908073	3	1	108	1	0	0	0	0	1	0	0	0	3597	477	17	3	253	3	CNGA2	23	150908073	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	65663	150908073	4362487	1020	40462										
GABRQ	55879	broad.mit.edu	37	chrX	151821602	151821602	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	ggatagttgccccccaagccCtgggtgctccttcactgaag	11	14	1	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:151821602C>A	uc004ffp.1	+	9	1777	c.1757C>A	c.(1756-1758)CCT>CAT	p.P586H		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	586						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCCCCAAGCCCTGGGTGCTCC	0.532													35	8	---	---	---	---	PASS	A	151821602	A	A	151821602	3	1	108	1	0	0	0	0	1	0	0	0	6175	681	24	3	1791	3	GABRQ	23	151821602	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	913529	151821602	3448958	1021	40463										
PNMA3	29944	broad.mit.edu	37	chrX	152225749	152225749	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	tgaaccgcttcttagaggagGagaggcggaccgtgtcagat	15	8	2	4			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:152225749G>T	uc004fhc.2	+	2	673	c.337G>T	c.(337-339)GAG>TAG	p.E113*	PNMA5_uc004fha.3_5'Flank|PNMA3_uc004fhd.2_5'Flank	NM_013364	NP_037496	Q9UL41	PNMA3_HUMAN	paraneoplastic cancer-testis-brain antigen	113					apoptosis	nucleolus	nucleic acid binding|zinc ion binding			skin(2)|large_intestine(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					cttagaggaggagaggcggac	0													35	17	---	---	---	---	PASS	T	152225749	T	T	152225749	4	4	108	1	0	0	0	0	0	1	0	0	12155	1175	41	2	339	2	PNMA3	23	152225749	Nonsense_Mutation	SNP	G	TCGA-46-3769-01A-01D-0983-08	404147	152225749	3044811	1022	40464										
FLNA	2316	broad.mit.edu	37	chrX	153581667	153581667	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	acccttcagccgcttacccaCgtggccattacgcagccgct	8	18	1	0			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrX:153581667C>T	uc004fkk.2	-	37	6268	c.6019G>A	c.(6019-6021)GTG>ATG	p.V2007M	FLNA_uc004fki.2_Missense_Mutation_p.V50M|FLNA_uc011mzn.1_Missense_Mutation_p.V140M|FLNA_uc010nuu.1_Missense_Mutation_p.V1999M	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2007	Filamin 18.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CGCTTACCCACGTGGCCATTA	0.637													26	18	---	---	---	---	PASS	T	153581667	T	T	153581667	3	4	108	1	0	0	0	0	1	0	0	0	5933	536	19	1	1972	1	FLNA	23	153581667	Missense_Mutation	SNP	C	TCGA-46-3769-01A-01D-0983-08	1355918	153581667	1688893	1023	40465										
TSPY1	7258	broad.mit.edu	37	chrY	9305960	9305960	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.192422731804586	193	1.09019467388905e-44	2.93437708492851	3.50993719769075	2.44573829531813	0.0981071225514733	0.385888015369128	127	gcaagatcatgttgttctttCggagtaacccctacttccag	8	11	2	1			TCGA-46-3769-01A-01D-0983-08	TCGA-46-3769-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	108a1360-a545-4573-a775-49b3420814e2	1b748008-fc97-46f2-b9e4-1c21fa7ae544	g.chrY:9305960C>A	uc004frw.3	+	3	662	c.616C>A	c.(616-618)CGG>AGG	p.R206R	TSPY1_uc004frx.3_Silent_p.R206R|TSPY1_uc010nwp.1_Intron	NM_003308	NP_003299	Q01534	TSPY1_HUMAN	testis specific protein, Y-linked 1	206					cell differentiation|cell proliferation|gonadal mesoderm development|nucleosome assembly|spermatogenesis	cytoplasm|nucleus	identical protein binding				0						GTTGTTCTTTCGGAGTAACCC	0.478													34	142	---	---	---	---	PASS	A	9305960	A	A	9305960	2	1	108	1	0	0	0	0	0	0	0	1	16654	875	31	2		2	TSPY1	24	9305960	Silent	SNP	C	TCGA-46-3769-01A-01D-0983-08		9305960	50067606	1024	40466										
BSDC1	55108	broad.mit.edu	37	chr1	32842193	32842193	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gctctcactgctctctgatgGagtcacctctgctgggggct	12	13	4	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:32842193G>A	uc001bvh.3	-	9	873	c.826C>T	c.(826-828)CCA>TCA	p.P276S	BSDC1_uc010ohg.1_Missense_Mutation_p.P293S|BSDC1_uc010ohh.1_Missense_Mutation_p.P220S|BSDC1_uc010ohi.1_Missense_Mutation_p.P181S|BSDC1_uc001bvg.3_RNA|BSDC1_uc001bvj.2_Missense_Mutation_p.P172S|BSDC1_uc001bvi.2_Missense_Mutation_p.P293S	NM_018045	NP_060515	Q9NW68	BSDC1_HUMAN	BSD domain containing 1 isoform b	276							protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CTCTCTGATGGAGTCACCTCT	0.567													49	101	---	---	---	---	PASS	A	32842193	A	A	32842193	3	1	109	1	0	0	0	0	1	0	0	0	1528	1174	41	2	478	2	BSDC1	1	32842193	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08		32842193	216408428	1	40467										
MACF1	23499	broad.mit.edu	37	chr1	39800459	39800459	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttaaatggaggaattgttgaCatatttagtgatcagagagt	11	2	1	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:39800459C>T	uc010oiu.1	+	1	3650	c.3519C>T	c.(3517-3519)GAC>GAT	p.D1173D	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2738					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)			GAATTGTTGACATATTTAGTG	0.378													9	39	---	---	---	---	PASS	T	39800459	T	T	39800459	2	4	109	1	0	0	0	0	0	0	0	1	9144	477	17	3		3	MACF1	1	39800459	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	6958266	39800459	209450162	2	40468										
DMAP1	55929	broad.mit.edu	37	chr1	44685944	44685944	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcctgaccccaaggacaccaTcattgatgtggtgggcgcac	11	13	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:44685944T>G	uc001clq.1	+	10	1387	c.1307T>G	c.(1306-1308)ATC>AGC	p.I436S	DMAP1_uc001clr.1_Missense_Mutation_p.I436S|DMAP1_uc001cls.1_Missense_Mutation_p.I436S|DMAP1_uc010oku.1_Missense_Mutation_p.I426S	NM_001034024	NP_001029196	Q9NPF5	DMAP1_HUMAN	DNA methyltransferase 1 associated protein 1	436					DNA methylation|histone H2A acetylation|histone H4 acetylation|negative regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex	DNA binding|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					AAGGACACCATCATTGATGTG	0.652											OREG0013438	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	22	---	---	---	---	PASS	G	44685944	G	G	44685944	3	3	109	1	0	0	0	0	1	0	0	0	4576	1435	50	5	1341	5	DMAP1	1	44685944	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	4885485	44685944	204564677	3	40469										
PLK3	1263	broad.mit.edu	37	chr1	45267395	45267395	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctcaagtacttgcaccagcgCggcatcttgcaccgggacct	10	15	2	0	rs142337193	byFrequency	TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:45267395C>T	uc001cmn.2	+	4	637	c.537C>T	c.(535-537)CGC>CGT	p.R179R	PLK3_uc001cmo.2_RNA	NM_004073	NP_004064	Q9H4B4	PLK3_HUMAN	polo-like kinase 3	179	Protein kinase.					membrane	ATP binding|protein binding|protein serine/threonine kinase activity				0	Acute lymphoblastic leukemia(166;0.155)					TGCACCAGCGCGGCATCTTGC	0.517													21	65	---	---	---	---	PASS	T	45267395	T	T	45267395	2	4	109	1	0	0	0	0	0	0	0	1	12097	755	27	1		1	PLK3	1	45267395	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	581451	45267395	203983226	4	40470										
ALG6	29929	broad.mit.edu	37	chr1	63879795	63879795	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	agattaaggatattttgccaCgtcacatccaattaataatg	6	7	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:63879795C>T	uc010oow.1	+	10	1185	c.880C>T	c.(880-882)CGT>TGT	p.R294C	ALG6_uc001daz.2_RNA|ALG6_uc009waj.2_Intron|ALG6_uc010oox.1_Missense_Mutation_p.R93C	NM_013339	NP_037471	Q9Y672	ALG6_HUMAN	dolichyl pyrophosphate Man9GlcNAc2	294					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity				0						TATTTTGCCACGTCACATCCA	0.269													41	68	---	---	---	---	PASS	T	63879795	T	T	63879795	3	4	109	1	0	0	0	0	1	0	0	0	522	536	19	1	914	1	ALG6	1	63879795	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	18612400	63879795	185370826	5	40471										
COL24A1	255631	broad.mit.edu	37	chr1	86591318	86591318	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gctgtttcacatatctgcagTagtctgcagatgcttctgca	9	10	4	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:86591318T>C	uc001dlj.2	-	3	743	c.701A>G	c.(700-702)TAC>TGC	p.Y234C	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.Y234C	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	234					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)		ATATCTGCAGTAGTCTGCAGA	0.378													32	47	---	---	---	---	PASS	C	86591318	C	C	86591318	3	2	109	1	0	0	0	0	1	0	0	0	3683	1638	57	5	4675	5	COL24A1	1	86591318	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	22711523	86591318	162659303	6	40472										
CLCA2	9635	broad.mit.edu	37	chr1	86920831	86920831	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ccaagatgactttaacaatgCtattttagtaaatacatcaa	4	7	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:86920831C>A	uc001dlr.3	+	14	2615	c.2453C>A	c.(2452-2454)GCT>GAT	p.A818D		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor	818	Extracellular (Potential).				cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		TTTAACAATGCTATTTTAGTA	0.338													3	67	---	---	---	---	PASS	A	86920831	A	A	86920831	3	1	109	1	0	0	0	0	1	0	0	0	3458	797	28	3	2507	3	CLCA2	1	86920831	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	329513	86920831	162329790	7	40473										
KIAA1324	57535	broad.mit.edu	37	chr1	109740262	109740262	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctcacagcctgtcagccttgCtgatcgacttattggtgagt	10	11	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:109740262C>T	uc001dwq.2	+	17	2424	c.2288C>T	c.(2287-2289)GCT>GTT	p.A763V	KIAA1324_uc009wex.1_Missense_Mutation_p.A713V|KIAA1324_uc009wey.2_Missense_Mutation_p.A676V|KIAA1324_uc010ovg.1_Missense_Mutation_p.A661V|KIAA1324_uc001dwr.2_Missense_Mutation_p.A413V|KIAA1324_uc001dws.1_RNA|KIAA1324_uc009wez.1_RNA	NM_020775	NP_065826	Q6UXG2	K1324_HUMAN	hypothetical protein LOC57535 precursor	763	Extracellular (Potential).				macroautophagy|positive regulation of vacuole organization|regulation of apoptosis	integral to plasma membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	5		all_epithelial(167;0.000102)|all_lung(203;0.000323)|Lung NSC(277;0.00063)		Colorectal(144;0.0188)|Lung(183;0.0527)|COAD - Colon adenocarcinoma(174;0.14)|Epithelial(280;0.21)|all cancers(265;0.249)		GTCAGCCTTGCTGATCGACTT	0.448													3	14	---	---	---	---	PASS	T	109740262	T	T	109740262	3	4	109	1	0	0	0	0	1	0	0	0	8223	797	28	3	2350	3	KIAA1324	1	109740262	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	22819431	109740262	139510359	8	40474										
RHOC	389	broad.mit.edu	37	chr1	113244258	113244258	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcccgcactccctccttggtCttggctgagcactcaaggta	9	15	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:113244258C>G	uc001ecp.1	-	6	786	c.486G>C	c.(484-486)AAG>AAC	p.K162N	RHOC_uc001ecq.1_Missense_Mutation_p.K162N|RHOC_uc001ecr.1_Missense_Mutation_p.K162N|RHOC_uc009wgk.1_Missense_Mutation_p.K162N	NM_001042679	NP_001036144	P08134	RHOC_HUMAN	ras homolog gene family, member C precursor	162					axon guidance|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|signal transducer activity			ovary(1)	1	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCTCCTTGGTCTTGGCTGAGC	0.602													30	38	---	---	---	---	PASS	G	113244258	G	G	113244258	3	3	109	1	0	0	0	0	1	0	0	0	13336	912	32	2	99	2	RHOC	1	113244258	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	3503996	113244258	136006363	9	40475										
CD2	914	broad.mit.edu	37	chr1	117297478	117297478	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tggaactctgaaaattaagcAtctgaagaccgatgatcagg	10	7	3	4			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:117297478A>T	uc001egu.3	+	2	316	c.287A>T	c.(286-288)CAT>CTT	p.H96L	CD2_uc010owz.1_Missense_Mutation_p.H96L|CD2_uc010oxa.1_Missense_Mutation_p.H96L	NM_001767	NP_001758	P06729	CD2_HUMAN	CD2 molecule precursor	96	Extracellular (Potential).|Ig-like V-type.				blood coagulation|cell surface receptor linked signaling pathway|cell-cell adhesion|induction of apoptosis|leukocyte migration|membrane raft polarization|natural killer cell activation|positive regulation of myeloid dendritic cell activation|regulation of T cell differentiation|T cell activation	integral to plasma membrane	receptor activity			breast(1)	1	Lung SC(450;0.225)	all_cancers(81;3.15e-06)|Acute lymphoblastic leukemia(138;1.7e-08)|all_epithelial(167;8.38e-07)|all_lung(203;3.37e-06)|Lung NSC(69;2.31e-05)		Epithelial(280;6.71e-26)|OV - Ovarian serous cystadenocarcinoma(397;4.74e-24)|all cancers(265;1.93e-22)|Lung(183;0.0543)|Kidney(133;0.0813)|Colorectal(144;0.174)|KIRC - Kidney renal clear cell carcinoma(1967;0.176)|LUSC - Lung squamous cell carcinoma(189;0.189)|BRCA - Breast invasive adenocarcinoma(282;0.201)	Alefacept(DB00092)	AAAATTAAGCATCTGAAGACC	0.294													8	33	---	---	---	---	PASS	T	117297478	T	T	117297478	3	4	109	1	0	0	0	0	1	0	0	0	2979	217	8	5	293	5	CD2	1	117297478	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	4053220	117297478	131953143	10	40476										
PRKAB2	5565	broad.mit.edu	37	chr1	146638191	146638191	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgtgccaagctgactggtaaCcacaggctgaaacagtgaat	11	9	0	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:146638191C>G	uc001epe.2	-	5	569	c.424G>C	c.(424-426)GTT>CTT	p.V142L	PRKAB2_uc010ozm.1_Missense_Mutation_p.V60L|PRKAB2_uc010ozn.1_Intron|PRKAB2_uc009wjf.1_Missense_Mutation_p.V142L	NM_005399	NP_005390	O43741	AAKB2_HUMAN	AMP-activated protein kinase beta 2	142					carnitine shuttle|cell cycle arrest|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm				lung(2)|skin(1)	3	all_hematologic(923;0.0487)				Adenosine monophosphate(DB00131)	TGACTGGTAACCACAGGCTGA	0.343													15	49	---	---	---	---	PASS	G	146638191	G	G	146638191	3	3	109	1	0	0	0	0	1	0	0	0	12496	507	18	4	410	4	PRKAB2	1	146638191	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	29340713	146638191	102612430	11	40477										
ECM1	1893	broad.mit.edu	37	chr1	150484888	150484888	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctgtgaagacccaccaccacTtgtgttgccgccaccctccc	7	19	0	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:150484888T>A	uc001eus.2	+	8	1343	c.1144T>A	c.(1144-1146)TTG>ATG	p.L382M	ECM1_uc001eut.2_Missense_Mutation_p.L257M|ECM1_uc001euu.2_Missense_Mutation_p.L411M|ECM1_uc001euv.2_Missense_Mutation_p.L409M|ECM1_uc009wlu.2_Missense_Mutation_p.L142M	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	382	2 X approximate repeats.|2.				angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CCACCACCACTTGTGTTGCCG	0.567													44	101	---	---	---	---	PASS	A	150484888	A	A	150484888	3	1	109	1	0	0	0	0	1	0	0	0	4897	1606	56	5	1174	5	ECM1	1	150484888	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	3846697	150484888	98765733	12	40478										
THBS3	7059	broad.mit.edu	37	chr1	155167970	155167970	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cagggggtcgaccacagcatCattgtcaaagtcatcctcac	9	13	4	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:155167970C>G	uc001fix.2	-	18	2139	c.2116G>C	c.(2116-2118)GAT>CAT	p.D706H	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Missense_Mutation_p.D697H|THBS3_uc001fiz.2_Missense_Mutation_p.D669H|THBS3_uc001fiy.2_Missense_Mutation_p.D235H|THBS3_uc010pfu.1_Missense_Mutation_p.D586H|THBS3_uc010pfv.1_RNA	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	706	TSP type-3 8.				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		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)			ACCACAGCATCATTGTCAAAG	0.557													54	111	---	---	---	---	PASS	G	155167970	G	G	155167970	3	3	109	1	0	0	0	0	1	0	0	0	15852	826	29	2	778	2	THBS3	1	155167970	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	4683082	155167970	94082651	13	40479										
DAP3	7818	broad.mit.edu	37	chr1	155695241	155695241	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gaacttctgcattacctgaaAaacaccagttttgcttatcc	5	11	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:155695241A>T	uc001flq.2	+	5	508	c.339A>T	c.(337-339)AAA>AAT	p.K113N	DAP3_uc001flr.2_Missense_Mutation_p.K113N|DAP3_uc001fls.2_Missense_Mutation_p.K113N|DAP3_uc010pgl.1_Missense_Mutation_p.K72N|DAP3_uc001flt.2_Missense_Mutation_p.K79N|DAP3_uc001flu.2_Missense_Mutation_p.K113N|DAP3_uc010pgm.1_Missense_Mutation_p.K79N	NM_033657	NP_387506	P51398	RT29_HUMAN	death-associated protein 3	113					induction of apoptosis by extracellular signals	mitochondrial ribosome|nucleolus|small ribosomal subunit	protein binding			ovary(1)	1	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					ATTACCTGAAAAACACCAGTT	0.448													31	144	---	---	---	---	PASS	T	155695241	T	T	155695241	3	4	109	1	0	0	0	0	1	0	0	0	4234	11	1	5	353	5	DAP3	1	155695241	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	527271	155695241	93555380	14	40480										
FCRL4	83417	broad.mit.edu	37	chr1	157557276	157557276	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctctggaggaagctgtgtttCacagctcaggtttacagaat	11	8	3	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:157557276C>T	uc001fqw.2	-	5	773	c.637G>A	c.(637-639)GAA>AAA	p.E213K	FCRL4_uc010phy.1_RNA	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	213	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				AGCTGTGTTTCACAGCTCAGG	0.498													157	147	---	---	---	---	PASS	T	157557276	T	T	157557276	3	4	109	1	0	0	0	0	1	0	0	0	5797	835	29	2	942	2	FCRL4	1	157557276	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	1862035	157557276	91693345	15	40481										
FCRL3	115352	broad.mit.edu	37	chr1	157660175	157660175	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cctcctccagagtgggccgaGatgttccccaaggtgtcatc	11	14	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:157660175G>A	uc001frb.2	-	9	1852	c.1560C>T	c.(1558-1560)ATC>ATT	p.I520I	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Silent_p.I520I|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Silent_p.I246I|FCRL3_uc001frc.1_Silent_p.I520I	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	520	Ig-like C2-type 6.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					AGTGGGCCGAGATGTTCCCCA	0.567													22	164	---	---	---	---	PASS	A	157660175	A	A	157660175	2	1	109	1	0	0	0	0	0	0	0	1	5796	932	33	2		2	FCRL3	1	157660175	Silent	SNP	G	TCGA-46-6025-01A-11D-1817-08	102899	157660175	91590446	16	40482										
FCRL2	79368	broad.mit.edu	37	chr1	157718392	157718392	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	acctgagaataaaccacatcCacatctacagagcccactgc	5	15	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:157718392C>T	uc001fre.2	-	10	1469	c.1410G>A	c.(1408-1410)GTG>GTA	p.V470V	FCRL2_uc001frd.2_Silent_p.V217V|FCRL2_uc010phz.1_Intron|FCRL2_uc009wsp.2_Intron	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	470	Cytoplasmic (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			AAACCACATCCACATCTACAG	0.493													84	97	---	---	---	---	PASS	T	157718392	T	T	157718392	2	4	109	1	0	0	0	0	0	0	0	1	5795	581	21	3		3	FCRL2	1	157718392	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	58217	157718392	91532229	17	40483										
ITLN2	142683	broad.mit.edu	37	chr1	160917718	160917718	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttgatctccccaaaaactcaCatgctcagtgttacagccag	6	13	3	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:160917718C>G	uc001fxd.2	-	7	883	c.825_splice	c.e7+1	p.H275_splice	ITLN2_uc009wts.2_Splice_Site_p.H274_splice|ITLN2_uc010pju.1_Splice_Site_p.H192_splice	NM_080878	NP_543154	Q8WWU7	ITLN2_HUMAN	intelectin 2 precursor						signal transduction	extracellular region	receptor binding|sugar binding			ovary(1)	1	all_cancers(52;2.99e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CAAAAACTCACATGCTCAGTG	0.308													15	76	---	---	---	---	PASS	G	160917718	G	G	160917718	5	3	109	1	0	0	0	0	0	0	1	0	7911	492	17	4	159	4	ITLN2	1	160917718	Splice_Site	SNP	C	TCGA-46-6025-01A-11D-1817-08	3199326	160917718	88332903	18	40484										
DDR2	4921	broad.mit.edu	37	chr1	162745548	162745548	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	accctctctgtatgatcactGaatacatggagaatggagat	9	8	2	4			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:162745548G>A	uc001gcf.2	+	16	2428	c.1963G>A	c.(1963-1965)GAA>AAA	p.E655K	DDR2_uc001gcg.2_Missense_Mutation_p.E655K	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	655	Cytoplasmic (Potential).|Protein kinase.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			TATGATCACTGAATACATGGA	0.453													10	251	---	---	---	---	PASS	A	162745548	A	A	162745548	3	1	109	1	0	0	0	0	1	0	0	0	4337	1291	45	2	2013	2	DDR2	1	162745548	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	1827830	162745548	86505073	19	40485										
C1orf105	92346	broad.mit.edu	37	chr1	172414239	172414239	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gttccaaaatttgacaagatTccttggcttagtgaggccag	10	8	0	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:172414239T>C	uc001gik.2	+	2	244	c.48T>C	c.(46-48)ATT>ATC	p.I16I	PIGC_uc001gii.1_5'Flank|PIGC_uc001gij.1_5'Flank|PIGC_uc001gil.2_5'Flank|PIGC_uc001gin.2_5'Flank|PIGC_uc001gio.2_5'Flank	NM_139240	NP_640333	O95561	CA105_HUMAN	hypothetical protein LOC92346	16										skin(1)	1						TTGACAAGATTCCTTGGCTTA	0.418													16	81	---	---	---	---	PASS	C	172414239	C	C	172414239	2	2	109	1	0	0	0	0	0	0	0	1	1979	1771	62	5		5	C1orf105	1	172414239	Silent	SNP	T	TCGA-46-6025-01A-11D-1817-08	9668691	172414239	76836382	20	40486										
TNR	7143	broad.mit.edu	37	chr1	175372327	175372327	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttcacagacgcagagcccctCctcacattgtcctcgcccac	6	19	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:175372327C>T	uc001gkp.1	-	2	1006	c.925G>A	c.(925-927)GAG>AAG	p.E309K	TNR_uc009wwu.1_Missense_Mutation_p.E309K|TNR_uc010pmz.1_Missense_Mutation_p.E309K	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	309	Cys-rich.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CAGAGCCCCTCCTCACATTGT	0.607													24	37	---	---	---	---	PASS	T	175372327	T	T	175372327	3	4	109	1	0	0	0	0	1	0	0	0	16335	864	30	2	3231	2	TNR	1	175372327	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	2958088	175372327	73878294	21	40487										
RFWD2	64326	broad.mit.edu	37	chr1	175916338	175916338	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtaaatagcttaccttaattGtaccctgactgttagcagca	7	9	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:175916338G>A	uc001gku.1	-	19	2427	c.2171C>T	c.(2170-2172)ACA>ATA	p.T724I	RFWD2_uc001gkv.1_Missense_Mutation_p.T700I|RFWD2_uc001gkw.1_Missense_Mutation_p.T484I|RFWD2_uc009wwv.2_Missense_Mutation_p.T523I|RFWD2_uc001gkt.1_Missense_Mutation_p.T563I	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	724	WD 7.				DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						TACCTTAATTGTACCCTGACT	0.373													50	179	---	---	---	---	PASS	A	175916338	A	A	175916338	3	1	109	1	0	0	0	0	1	0	0	0	13260	1377	48	3	32	3	RFWD2	1	175916338	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	544011	175916338	73334283	22	40488										
KIF14	9928	broad.mit.edu	37	chr1	200524526	200524526	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	acaattttcgattcagcaaaGatgttttcaagagatctaat	6	6	3	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:200524526G>C	uc010ppk.1	-	28	4849	c.4410C>G	c.(4408-4410)ATC>ATG	p.I1470M	KIF14_uc010ppj.1_Missense_Mutation_p.I979M	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	1470	Required for CIT-binding.|Potential.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						ATTCAGCAAAGATGTTTTCAA	0.239													16	54	---	---	---	---	PASS	C	200524526	C	C	200524526	3	2	109	1	0	0	0	0	1	0	0	0	8276	932	33	2	548	2	KIF14	1	200524526	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	24608188	200524526	48726095	23	40489										
TIMM17A	10440	broad.mit.edu	37	chr1	201926485	201926485	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtggtatctttcaagcaatcAaaggttttcgcaattctcca	7	9	4	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:201926485A>G	uc001gxc.2	+	2	139	c.103A>G	c.(103-105)AAA>GAA	p.K35E		NM_006335	NP_006326	Q99595	TI17A_HUMAN	translocase of inner mitochondrial membrane 17	35	Helical; (Potential).				protein targeting to mitochondrion	integral to membrane|mitochondrial inner membrane presequence translocase complex	P-P-bond-hydrolysis-driven protein transmembrane transporter activity				0						TCAAGCAATCAAAGGTTTTCG	0.448													17	96	---	---	---	---	PASS	G	201926485	G	G	201926485	3	3	109	1	0	0	0	0	1	0	0	0	15905	131	5	5	109	5	TIMM17A	1	201926485	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	1401959	201926485	47324136	24	40490										
PPFIA4	8497	broad.mit.edu	37	chr1	203030153	203030153	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggaaactctggaaacatctaCtaaaacagtgagtctggccc	9	10	3	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:203030153C>T	uc001gyz.2	+	10	1915	c.1322C>T	c.(1321-1323)ACT>ATT	p.T441I	PPFIA4_uc009xaj.2_Missense_Mutation_p.T1072I|PPFIA4_uc010pqf.1_Missense_Mutation_p.T654I|PPFIA4_uc001gza.2_Missense_Mutation_p.T441I|PPFIA4_uc001gzb.1_Missense_Mutation_p.T136I	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	441					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						GAAACATCTACTAAAACAGTG	0.567													61	104	---	---	---	---	PASS	T	203030153	T	T	203030153	3	4	109	1	0	0	0	0	1	0	0	0	12312	565	20	3	1360	3	PPFIA4	1	203030153	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	1103668	203030153	46220468	25	40491										
PLEKHA6	22874	broad.mit.edu	37	chr1	204197299	204197299	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgctcctgcagctggctctcTgagtcctggggcacgtccac	12	15	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:204197299T>G	uc001hau.2	-	21	3260	c.2943A>C	c.(2941-2943)TCA>TCC	p.S981S		NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	981										ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			GCTGGCTCTCTGAGTCCTGGG	0.632													35	43	---	---	---	---	PASS	G	204197299	G	G	204197299	2	3	109	1	0	0	0	0	0	0	0	1	12060	1567	55	5		5	PLEKHA6	1	204197299	Silent	SNP	T	TCGA-46-6025-01A-11D-1817-08	1167146	204197299	45053322	26	40492										
LYST	1130	broad.mit.edu	37	chr1	235972415	235972415	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ataggatctggacacaagtgCtgctcaaggaagcctgctgt	12	9	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr1:235972415C>A	uc001hxj.2	-	5	1878	c.1703G>T	c.(1702-1704)AGC>ATC	p.S568I	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Missense_Mutation_p.S568I	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	568					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GACACAAGTGCTGCTCAAGGA	0.453									Chediak-Higashi_syndrome				4	141	---	---	---	---	PASS	A	235972415	A	A	235972415	3	1	109	1	0	0	0	0	1	0	0	0	9128	797	28	3	9898	3	LYST	1	235972415	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	31775116	235972415	13278206	27	40493										
PXDN	7837	broad.mit.edu	37	chr2	1652209	1652209	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cagccccctgagaagcggatCgatgccgccctcattcacaa	9	16	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:1652209C>T	uc002qxa.2	-	17	3407	c.3343G>A	c.(3343-3345)GAT>AAT	p.D1115N		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1115					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		AGAAGCGGATCGATGCCGCCC	0.592													17	39	---	---	---	---	PASS	T	1652209	T	T	1652209	3	4	109	1	0	0	0	0	1	0	0	0	12847	884	31	2	1124	2	PXDN	2	1652209	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08		1652209	241547164	28	40494										
HS1BP3	64342	broad.mit.edu	37	chr2	20840876	20840876	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgggtagtggggggaggctgGctgctgcataacgactgctc	18	8	0	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:20840876G>C	uc002rdw.1	-	3	304	c.263C>G	c.(262-264)GCC>GGC	p.A88G	HS1BP3_uc002rdx.2_Missense_Mutation_p.A88G|HS1BP3_uc002rdy.2_Missense_Mutation_p.A88G	NM_022460	NP_071905	Q53T59	H1BP3_HUMAN	HCLS1 binding protein 3	88	PX.				cell communication		phosphatidylinositol binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGGGAGGCTGGCTGCTGCATA	0.532													31	260	---	---	---	---	PASS	C	20840876	C	C	20840876	3	2	109	1	0	0	0	0	1	0	0	0	7361	1203	42	4	935	4	HS1BP3	2	20840876	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	19188667	20840876	222358497	29	40495										
APOB	338	broad.mit.edu	37	chr2	21228898	21228898	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gccacttcctggccaaggtcAgggaaatcatggaaggaact	12	10	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:21228898A>C	uc002red.2	-	26	10970	c.10842T>G	c.(10840-10842)CCT>CCG	p.P3614P		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3614					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GGCCAAGGTCAGGGAAATCAT	0.493													24	85	---	---	---	---	PASS	C	21228898	C	C	21228898	2	2	109	1	0	0	0	0	0	0	0	1	785	175	7	5		5	APOB	2	21228898	Silent	SNP	A	TCGA-46-6025-01A-11D-1817-08	388022	21228898	221970475	30	40496										
WDR43	23160	broad.mit.edu	37	chr2	29152454	29152454	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctgttctgtaggttagcattGaagaacgtctgggagcaatg	13	6	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:29152454G>C	uc002rmo.2	+	11	1347	c.1315G>C	c.(1315-1317)GAA>CAA	p.E439Q		NM_015131	NP_055946	Q15061	WDR43_HUMAN	WD repeat domain 43	439						nucleolus				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					GGTTAGCATTGAAGAACGTCT	0.353													26	38	---	---	---	---	PASS	C	29152454	C	C	29152454	3	2	109	1	0	0	0	0	1	0	0	0	17292	1291	45	2	1357	2	WDR43	2	29152454	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	7923556	29152454	214046919	31	40497										
ZFP36L2	678	broad.mit.edu	37	chr2	43452225	43452225	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gaagcccaggtgcaacgcatCgcgcgtgccaaaggcacgca	13	14	0	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:43452225C>T	uc002rsv.3	-	2	1009	c.718G>A	c.(718-720)GAT>AAT	p.D240N	LOC100129726_uc010ynx.1_5'Flank	NM_006887	NP_008818	P47974	TISD_HUMAN	zinc finger protein 36, C3H type-like 2	240					cell proliferation	nucleus	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(82;0.00323)|all_hematologic(82;0.00824)				TGCAACGCATCGCGCGTGCCA	0.612													15	15	---	---	---	---	PASS	T	43452225	T	T	43452225	3	4	109	1	0	0	0	0	1	0	0	0	17644	884	31	2	770	2	ZFP36L2	2	43452225	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	14299771	43452225	199747148	32	40498										
ABCG8	64241	broad.mit.edu	37	chr2	44079798	44079798	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cttcacagcccacaacctggTgaagaccttgtccaggctgg	10	14	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:44079798T>A	uc002rtq.2	+	6	845	c.755T>A	c.(754-756)GTG>GAG	p.V252E	ABCG8_uc010yoa.1_Missense_Mutation_p.V252E	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	252	ABC transporter.|Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CACAACCTGGTGAAGACCTTG	0.582													45	75	---	---	---	---	PASS	A	44079798	A	A	44079798	3	1	109	1	0	0	0	0	1	0	0	0	72	1696	59	5	777	5	ABCG8	2	44079798	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	627573	44079798	199119575	33	40499										
PRKCE	5581	broad.mit.edu	37	chr2	46237534	46237534	+	Frame_Shift_Del	DEL	T	-	-													0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aagtatatgctgtgaaggtcTtaaagaaggacgtcatcctt							TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:46237534delT	uc002rut.2	+	10	1512	c.1315delT	c.(1315-1317)TTAfs	p.L439fs		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	439	Protein kinase.				activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			TGTGAAGGTCTTAAAGAAGGA	0.443													106	58	---	---	---	---		-	46237534	-	-	46237534	7	5	109	1	0	1	0	1	0	0	0	0	12511	1606	56	0	1353	0	PRKCE	2	46237534	Frame_Shift_Del	DEL	T	TCGA-46-6025-01A-11D-1817-08	2157736	46237534	196961839	34	40500										
BMP10	27302	broad.mit.edu	37	chr2	69093080	69093080	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggtcctcttacagtagtttcCtttggcgttccttctgattc	8	11	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:69093080C>T	uc002sez.1	-	2	1117	c.958G>A	c.(958-960)GGA>AGA	p.G320R		NM_014482	NP_055297	O95393	BMP10_HUMAN	bone morphogenetic protein 10 preproprotein	320					activin receptor signaling pathway|adult heart development|atrial cardiac muscle tissue morphogenesis|BMP signaling pathway|cardiac muscle cell proliferation|heart trabecula formation|negative regulation of cardiac muscle hypertrophy|negative regulation of cell growth|negative regulation of endothelial cell migration|Notch signaling pathway|pathway-restricted SMAD protein phosphorylation|positive regulation of cardiac muscle cell proliferation|positive regulation of cardiac muscle hypertrophy|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent|sarcomere organization|ventricular cardiac muscle cell development|ventricular cardiac muscle tissue morphogenesis	cell surface|extracellular space|Z disc	cytokine activity|growth factor activity|receptor serine/threonine kinase binding			ovary(2)	2						CAGTAGTTTCCTTTGGCGTTC	0.517													32	50	---	---	---	---	PASS	T	69093080	T	T	69093080	3	4	109	1	0	0	0	0	1	0	0	0	1457	690	24	3	320	3	BMP10	2	69093080	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	22855546	69093080	174106293	35	40501										
TGFBRAP1	9392	broad.mit.edu	37	chr2	105886097	105886097	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	caggatatgcagcgccttctCatgctcgcccagcttcccgt	9	16	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:105886097C>T	uc002tcq.2	-	11	2122	c.2038G>A	c.(2038-2040)GAG>AAG	p.E680K	TGFBRAP1_uc010fjc.2_Missense_Mutation_p.E449K|TGFBRAP1_uc002tcr.3_Missense_Mutation_p.E680K	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	680					regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						AGCGCCTTCTCATGCTCGCCC	0.642													16	13	---	---	---	---	PASS	T	105886097	T	T	105886097	3	4	109	1	0	0	0	0	1	0	0	0	15821	835	29	2	552	2	TGFBRAP1	2	105886097	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	36793017	105886097	137313276	36	40502										
GCC2	9648	broad.mit.edu	37	chr2	109103003	109103003	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	taacatcagagaagcacaaaAtccacgagcacctgaaaacc	6	12	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:109103003A>G	uc002tec.2	+	16	3983	c.3829A>G	c.(3829-3831)ATC>GTC	p.I1277V	GCC2_uc002ted.2_Missense_Mutation_p.I1176V	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	1277	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						GAAGCACAAAATCCACGAGCA	0.458													9	101	---	---	---	---	PASS	G	109103003	G	G	109103003	3	3	109	1	0	0	0	0	1	0	0	0	6286	101	4	5	3891	5	GCC2	2	109103003	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	3216906	109103003	134096370	37	40503										
CYP27C1	339761	broad.mit.edu	37	chr2	127958804	127958804	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gcatacatggaggtcttgaaCatgctaaacatgagctccag	10	9	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:127958804C>A	uc002tod.2	-	3	413	c.282G>T	c.(280-282)ATG>ATT	p.M94I		NM_001001665	NP_001001665	Q4G0S4	C27C1_HUMAN	cytochrome P450, family 27, subfamily C,	94						membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.071)		AGGTCTTGAACATGCTAAACA	0.552													67	55	---	---	---	---	PASS	A	127958804	A	A	127958804	3	1	109	1	0	0	0	0	1	0	0	0	4160	478	17	3	860	3	CYP27C1	2	127958804	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	18855801	127958804	115240569	38	40504										
SMPD4	55627	broad.mit.edu	37	chr2	130914945	130914945	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	caggcgcaccaccaacacatGctcctcagtaggcgtgaacg	10	15	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:130914945G>T	uc002tqq.1	-	12	1613	c.1093C>A	c.(1093-1095)CAT>AAT	p.H365N	SMPD4_uc002tqo.1_5'UTR|SMPD4_uc002tqp.1_Missense_Mutation_p.H58N|SMPD4_uc010yzy.1_Missense_Mutation_p.H114N|SMPD4_uc010yzz.1_Missense_Mutation_p.H29N|SMPD4_uc002tqr.1_Missense_Mutation_p.H336N|SMPD4_uc002tqs.1_Missense_Mutation_p.H233N|SMPD4_uc002tqt.1_Missense_Mutation_p.H214N|SMPD4_uc010zaa.1_Missense_Mutation_p.H223N|SMPD4_uc010zab.1_Missense_Mutation_p.H263N|SMPD4_uc010zac.1_Missense_Mutation_p.H106N|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	326					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	ACCAACACATGCTCCTCAGTA	0.647													11	12	---	---	---	---	PASS	T	130914945	T	T	130914945	3	4	109	1	0	0	0	0	1	0	0	0	14807	1319	46	3	1543	3	SMPD4	2	130914945	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	2956141	130914945	112284428	39	40505										
IMP4	92856	broad.mit.edu	37	chr2	131103936	131103936	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tccctgcctgcagtgtacatGatccgtctgggcacgctgga	12	13	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:131103936G>C	uc002tra.1	+	9	788	c.771G>C	c.(769-771)ATG>ATC	p.M257I		NM_033416	NP_219484	Q96G21	IMP4_HUMAN	IMP4, U3 small nucleolar ribonucleoprotein,	257	Brix.				rRNA processing|translation	nucleolus|ribonucleoprotein complex	aminoacyl-tRNA ligase activity|ATP binding|protein binding			central_nervous_system(2)	2	Colorectal(110;0.1)					CAGTGTACATGATCCGTCTGG	0.627													7	3	---	---	---	---	PASS	C	131103936	C	C	131103936	3	2	109	1	0	0	0	0	1	0	0	0	7720	1290	45	2	805	2	IMP4	2	131103936	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	188991	131103936	112095437	40	40506										
NR4A2	4929	broad.mit.edu	37	chr2	157186681	157186681	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgaggcgaggacccatactgCgcctgaacacaaggcatggc	13	12	0	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:157186681C>T	uc002tyz.3	-	3	440	c.18G>A	c.(16-18)GCG>GCA	p.A6A	NR4A2_uc002tyx.3_Intron|NR4A2_uc010zcf.1_Silent_p.A6A|NR4A2_uc010zcg.1_5'Flank	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	6					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						ACCCATACTGCGCCTGAACAC	0.537													4	36	---	---	---	---	PASS	T	157186681	T	T	157186681	2	4	109	1	0	0	0	0	0	0	0	1	10633	755	27	1		1	NR4A2	2	157186681	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	26082745	157186681	86012692	41	40507										
WIPF1	7456	broad.mit.edu	37	chr2	175440042	175440042	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	caccgcctccgccaccacctCctccgccaaatccgccgcct	5	25	0	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:175440042C>T	uc002uiy.2	-	5	580	c.248G>A	c.(247-249)GGA>GAA	p.G83E	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Missense_Mutation_p.G83E|WIPF1_uc010fqt.1_Missense_Mutation_p.G83E|WIPF1_uc002ujc.1_Missense_Mutation_p.G83E|WIPF1_uc002uiz.2_Missense_Mutation_p.G83E|WIPF1_uc002ujb.1_Missense_Mutation_p.G83E|WIPF1_uc010zep.1_Missense_Mutation_p.G83E	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	83	Gly-rich.				actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						gccaccacctcctccgccaaa	0.299													37	93	---	---	---	---	PASS	T	175440042	T	T	175440042	3	4	109	1	0	0	0	0	1	0	0	0	17364	855	30	2	1283	2	WIPF1	2	175440042	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	18253361	175440042	67759331	42	40508										
TTN	7273	broad.mit.edu	37	chr2	179434109	179434109	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctttgttccactgctgttttCtaatgtaagcgtatattttc	6	8	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:179434109C>G	uc010zfg.1	-	275	69270	c.69046G>C	c.(69046-69048)GAA>CAA	p.E23016Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E16711Q|TTN_uc010zfi.1_Missense_Mutation_p.E16644Q|TTN_uc010zfj.1_Missense_Mutation_p.E16519Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23943							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)			CTGCTGTTTTCTAATGTAAGC	0.413													71	126	---	---	---	---	PASS	G	179434109	G	G	179434109	3	3	109	1	0	0	0	0	1	0	0	0	16732	922	32	2	31377	2	TTN	2	179434109	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	3994067	179434109	63765264	43	40509										
TTN	7273	broad.mit.edu	37	chr2	179468920	179468920	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttcctggaggtccaggaaggCgataaggatcttgaatgact	13	7	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:179468920C>T	uc010zfg.1	-	231	47014	c.46790G>A	c.(46789-46791)CGC>CAC	p.R15597H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R9292H|TTN_uc010zfi.1_Missense_Mutation_p.R9225H|TTN_uc010zfj.1_Missense_Mutation_p.R9100H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16524							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)			TCCAGGAAGGCGATAAGGATC	0.453													30	104	---	---	---	---	PASS	T	179468920	T	T	179468920	3	4	109	1	0	0	0	0	1	0	0	0	16732	768	27	1	53523	1	TTN	2	179468920	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	34811	179468920	63730453	44	40510										
TTN	7273	broad.mit.edu	37	chr2	179550282	179550282	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tccactctcttagaaataatGtgcagcttttcttccacaac	4	12	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:179550282G>A	uc010zfg.1	-	125	28847	c.28623C>T	c.(28621-28623)CAC>CAT	p.H9541H	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.H6202H|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10468							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)			TAGAAATAATGTGCAGCTTTT	0.348													22	40	---	---	---	---	PASS	A	179550282	A	A	179550282	2	1	109	1	0	0	0	0	0	0	0	1	16732	1368	48	3		3	TTN	2	179550282	Silent	SNP	G	TCGA-46-6025-01A-11D-1817-08	81362	179550282	63649091	45	40511										
CCDC141	285025	broad.mit.edu	37	chr2	179733966	179733966	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttgttgagacttttcttttaCaggggctcctctgccagtta	9	9	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:179733966C>T	uc002unf.1	-	5	604	c.547G>A	c.(547-549)GTA>ATA	p.V183I		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	183	Potential.						protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			TTTTCTTTTACAGGGGCTCCT	0.378													36	74	---	---	---	---	PASS	T	179733966	T	T	179733966	3	4	109	1	0	0	0	0	1	0	0	0	2775	478	17	3	2116	3	CCDC141	2	179733966	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	183684	179733966	63465407	46	40512										
ITGAV	3685	broad.mit.edu	37	chr2	187529339	187529339	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tttccattccactgcaggctGatttcatcggggttgtccga	10	11	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:187529339G>A	uc002upq.2	+	20	2320	c.2044G>A	c.(2044-2046)GAT>AAT	p.D682N	ITGAV_uc010frs.2_Missense_Mutation_p.D646N|ITGAV_uc010zfv.1_Missense_Mutation_p.D636N	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	682	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		ACTGCAGGCTGATTTCATCGG	0.443													48	264	---	---	---	---	PASS	A	187529339	A	A	187529339	3	1	109	1	0	0	0	0	1	0	0	0	7888	1290	45	2	2173	2	ITGAV	2	187529339	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	7795373	187529339	55670034	47	40513										
DNAH7	56171	broad.mit.edu	37	chr2	196722264	196722264	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cttgtcatattcatgaagtgActgcagaaacctcatgtcac	7	10	4	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:196722264A>G	uc002utj.3	-	44	8352	c.8251T>C	c.(8251-8253)TCA>CCA	p.S2751P		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2751	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TCATGAAGTGACTGCAGAAAC	0.378													3	126	---	---	---	---	PASS	G	196722264	G	G	196722264	3	3	109	1	0	0	0	0	1	0	0	0	4606	275	10	5	3911	5	DNAH7	2	196722264	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	9192925	196722264	46477109	48	40514										
FAM119A	151194	broad.mit.edu	37	chr2	208478081	208478081	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctccttaacaacagttttagTttggatatgaggaggtaagt	10	5	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:208478081T>G	uc002vcf.2	-	4	506	c.346A>C	c.(346-348)ACT>CCT	p.T116P	FAM119A_uc002vce.2_Intron|FAM119A_uc010fuk.1_Missense_Mutation_p.T116P|FAM119A_uc002vcg.3_Missense_Mutation_p.T116P	NM_145280	NP_660323	Q8WXB1	MT21A_HUMAN	hypothetical protein LOC151194	116						integral to membrane	methyltransferase activity				0				LUSC - Lung squamous cell carcinoma(261;0.0705)|Epithelial(149;0.131)|Lung(261;0.135)		ACAGTTTTAGTTTGGATATGA	0.383													63	51	---	---	---	---	PASS	G	208478081	G	G	208478081	3	3	109	1	0	0	0	0	1	0	0	0	5413	1725	60	5	314	5	FAM119A	2	208478081	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	11755817	208478081	34721292	49	40515										
ABCB6	10058	broad.mit.edu	37	chr2	220083188	220083188	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctgcagcacgtagggagagaTgcgagggccggccccccaag	16	13	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:220083188T>G	uc002vkc.1	-	1	485	c.208A>C	c.(208-210)ATC>CTC	p.I70L	ABCB6_uc010fwe.1_Missense_Mutation_p.I70L|ABCB6_uc010zku.1_RNA|ATG9A_uc002vkd.1_RNA	NM_005689	NP_005680	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B, member 6	70					cadmium ion transmembrane transport|cellular iron ion homeostasis|detoxification of cadmium ion|porphyrin biosynthetic process	ATP-binding cassette (ABC) transporter complex|Golgi apparatus|integral to mitochondrial outer membrane|plasma membrane|vacuolar membrane	ATP binding|efflux transmembrane transporter activity|heme binding|heme-transporting ATPase activity			breast(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;1.22e-06)|all cancers(144;0.000201)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TAGGGAGAGATGCGAGGGCCG	0.721													4	20	---	---	---	---	PASS	G	220083188	G	G	220083188	3	3	109	1	0	0	0	0	1	0	0	0	45	1464	51	5	2396	5	ABCB6	2	220083188	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	11605107	220083188	23116185	50	40516										
ATG9A	79065	broad.mit.edu	37	chr2	220089359	220089359	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	caaagttgtacttgagaccaCgggtgaagaagacagcttcc	11	9	0	4			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:220089359C>T	uc002vke.1	-	8	920	c.734G>A	c.(733-735)CGT>CAT	p.R245H	ATG9A_uc002vkd.1_RNA|ATG9A_uc002vkf.1_Missense_Mutation_p.R245H	NM_001077198	NP_001070666	Q7Z3C6	ATG9A_HUMAN	APG9 autophagy 9-like 1	245	Cytoplasmic (By similarity).				autophagic vacuole assembly|protein transport	autophagic vacuole membrane|cytoplasmic vesicle|Golgi apparatus|integral to membrane|late endosome membrane				skin(1)	1		Renal(207;0.0474)		Epithelial(149;1.37e-06)|all cancers(144;0.000222)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTTGAGACCACGGGTGAAGAA	0.552													21	60	---	---	---	---	PASS	T	220089359	T	T	220089359	3	4	109	1	0	0	0	0	1	0	0	0	1102	536	19	1	1821	1	ATG9A	2	220089359	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	6171	220089359	23110014	51	40517										
COL6A3	1293	broad.mit.edu	37	chr2	238234216	238234216	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cacttaccaggagcgcaaacCttttcacattctttctgtga	6	12	3	1	rs113992704		TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr2:238234216C>A	uc002vwl.2	-	43	9765	c.9480G>T	c.(9478-9480)AAG>AAT	p.K3160N	COL6A3_uc002vwo.2_Missense_Mutation_p.K2954N|COL6A3_uc010znj.1_Missense_Mutation_p.K2553N|COL6A3_uc002vwj.2_Missense_Mutation_p.K541N	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	3160	Nonhelical region.|BPTI/Kunitz inhibitor.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GAGCGCAAACCTTTTCACATT	0.383													20	115	---	---	---	---	PASS	A	238234216	A	A	238234216	3	1	109	1	0	0	0	0	1	0	0	0	3701	680	24	3	61	3	COL6A3	2	238234216	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	18144857	238234216	4965157	52	40518										
SATB1	6304	broad.mit.edu	37	chr3	18457567	18457567	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	atatctgctactgtagcatcAggggcatctgtcacgtaaga	10	9	4	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr3:18457567A>G	uc003cbh.2	-	4	2182	c.447T>C	c.(445-447)CCT>CCC	p.P149P	SATB1_uc003cbi.2_Silent_p.P149P|SATB1_uc003cbj.2_Silent_p.P149P	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	149	PDZ-like dimerization domain.				cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						CTGTAGCATCAGGGGCATCTG	0.403													3	137	---	---	---	---	PASS	G	18457567	G	G	18457567	2	3	109	1	0	0	0	0	0	0	0	1	13853	175	7	5		5	SATB1	3	18457567	Silent	SNP	A	TCGA-46-6025-01A-11D-1817-08		18457567	179564863	53	40519										
ITGA9	3680	broad.mit.edu	37	chr3	37514869	37514869	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gaatcggggcacgtcctgcgGaaagacctgccgggaagacc	15	12	0	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr3:37514869G>T	uc003chd.2	+	3	391	c.338G>T	c.(337-339)GGA>GTA	p.G113V	ITGA9_uc003chc.2_Missense_Mutation_p.G113V	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	113	Extracellular (Potential).|FG-GAP 2.				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)		ACGTCCTGCGGAAAGACCTGC	0.602													41	16	---	---	---	---	PASS	T	37514869	T	T	37514869	3	4	109	1	0	0	0	0	1	0	0	0	7883	1174	41	2	348	2	ITGA9	3	37514869	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	19057302	37514869	160507561	54	40520										
CCR1	1230	broad.mit.edu	37	chr3	46245443	46245443	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcagcaggatgatgaaaaagAtctcgctgtacaagcctgtg	11	8	2	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr3:46245443A>T	uc003cph.1	-	2	433	c.362T>A	c.(361-363)ATC>AAC	p.I121N	CCR3_uc003cpg.1_Intron	NM_001295	NP_001286	P32246	CCR1_HUMAN	chemokine (C-C motif) receptor 1	121	Helical; Name=3; (Potential).				cell adhesion|cell-cell signaling|cytokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	integral to plasma membrane	C-C chemokine receptor activity			skin(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		GATGAAAAAGATCTCGCTGTA	0.507													38	34	---	---	---	---	PASS	T	46245443	T	T	46245443	3	4	109	1	0	0	0	0	1	0	0	0	2939	333	12	5	709	5	CCR1	3	46245443	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	8730574	46245443	151776987	55	40521										
CCRL2	9034	broad.mit.edu	37	chr3	46449908	46449908	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cattggactgtacttcgtggGcctgtacagtgagacatttt	11	8	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr3:46449908G>A	uc003cpp.3	+	2	623	c.338G>A	c.(337-339)GGC>GAC	p.G113D	CCRL2_uc010hjg.2_Missense_Mutation_p.G125D|CCRL2_uc010hjf.2_Missense_Mutation_p.G113D	NM_003965	NP_003956	O00421	CCRL2_HUMAN	chemokine (C-C motif) receptor-like 2 isoform 1	113	Helical; Name=3; (Potential).				chemotaxis|inflammatory response	integral to plasma membrane	CCR chemokine receptor binding|chemokine receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00112)|KIRC - Kidney renal clear cell carcinoma(197;0.017)|Kidney(197;0.02)		TACTTCGTGGGCCTGTACAGT	0.483													17	106	---	---	---	---	PASS	A	46449908	A	A	46449908	3	1	109	1	0	0	0	0	1	0	0	0	2950	1203	42	3	380	3	CCRL2	3	46449908	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	204465	46449908	151572522	56	40522										
CELSR3	1951	broad.mit.edu	37	chr3	48684274	48684274	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aaacgaggagaatgataatgGagatcccaggctctggctct	12	8	2	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr3:48684274G>C	uc003cul.2	-	21	7498	c.7217C>G	c.(7216-7218)TCC>TGC	p.S2406C	CELSR3_uc003cuf.1_Missense_Mutation_p.S2476C|CELSR3_uc010hkf.2_5'Flank|CELSR3_uc010hkg.2_Missense_Mutation_p.S389C	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	2406	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AATGATAATGGAGATCCCAGG	0.612													14	16	---	---	---	---	PASS	C	48684274	C	C	48684274	3	2	109	1	0	0	0	0	1	0	0	0	3223	1174	41	2	2781	2	CELSR3	3	48684274	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	2234366	48684274	149338156	57	40523										
DALRD3	55152	broad.mit.edu	37	chr3	49053093	49053093	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	acctcacgcacagctctcagAagctgcaggcggacgaacat	10	14	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr3:49053093A>G	uc003cvk.1	-	12	1580	c.1560T>C	c.(1558-1560)CTT>CTC	p.L520L	WDR6_uc003cvj.2_3'UTR|WDR6_uc011bby.1_3'UTR|WDR6_uc010hkn.2_3'UTR|WDR6_uc011bbz.1_3'UTR|DALRD3_uc003cvl.1_Missense_Mutation_p.S512P|DALRD3_uc003cvm.1_Silent_p.L353L|DALRD3_uc010hko.1_Missense_Mutation_p.S382P	NM_001009996	NP_001009996	Q5D0E6	DALD3_HUMAN	DALR anticodon binding domain containing 3	520					arginyl-tRNA aminoacylation	cytoplasm	arginine-tRNA ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CAGCTCTCAGAAGCTGCAGGC	0.562													26	40	---	---	---	---	PASS	G	49053093	G	G	49053093	2	3	109	1	0	0	0	0	0	0	0	1	4229	233	9	5		5	DALRD3	3	49053093	Silent	SNP	A	TCGA-46-6025-01A-11D-1817-08	368819	49053093	148969337	58	40524										
TMPRSS7	344805	broad.mit.edu	37	chr3	111766781	111766781	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctccctgaccatttacgactCccttttgcccatccggagca	6	17	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr3:111766781C>A	uc010hqb.2	+	5	718	c.548C>A	c.(547-549)TCC>TAC	p.S183Y	TMPRSS7_uc011bhr.1_Missense_Mutation_p.S38Y	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	309	Extracellular (Potential).|CUB 1.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						ATTTACGACTCCCTTTTGCCC	0.468													17	70	---	---	---	---	PASS	A	111766781	A	A	111766781	3	1	109	1	0	0	0	0	1	0	0	0	16249	855	30	2	562	2	TMPRSS7	3	111766781	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	62713688	111766781	86255649	59	40525										
SLC9A10	285335	broad.mit.edu	37	chr3	111901040	111901040	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggaatatgatatagaacttcTtcaacagtaagaggcctgat	9	6	2	4			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr3:111901040T>G	uc003dyu.2	-	21	2811	c.2589A>C	c.(2587-2589)GAA>GAC	p.E863D	SLC9A10_uc011bhu.1_Missense_Mutation_p.E126D|SLC9A10_uc010hqc.2_Missense_Mutation_p.E815D	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	863					cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						ATAGAACTTCTTCAACAGTAA	0.254													68	73	---	---	---	---	PASS	G	111901040	G	G	111901040	3	3	109	1	0	0	0	0	1	0	0	0	14710	1606	56	5	980	5	SLC9A10	3	111901040	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	134259	111901040	86121390	60	40526										
CCDC80	151887	broad.mit.edu	37	chr3	112357363	112357363	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cctgtccatgcggttgtcccGgaaacggcctgggccagcag	14	14	0	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr3:112357363G>A	uc003dzf.2	-	2	1608	c.1390C>T	c.(1390-1392)CGG>TGG	p.R464W	CCDC80_uc011bhv.1_Missense_Mutation_p.R464W|CCDC80_uc003dzg.2_Missense_Mutation_p.R464W|CCDC80_uc003dzh.1_Missense_Mutation_p.R464W	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	464										ovary(2)	2						CGGTTGTCCCGGAAACGGCCT	0.612													40	51	---	---	---	---	PASS	A	112357363	A	A	112357363	3	1	109	1	0	0	0	0	1	0	0	0	2854	1115	39	1	1490	1	CCDC80	3	112357363	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	456323	112357363	85665067	61	40527										
PHC3	80012	broad.mit.edu	37	chr3	169824720	169824720	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cttgagcaactcactgtccaTttcttctaatgtctctaaaa	4	11	4	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr3:169824720T>C	uc010hws.1	-	12	2396	c.2332A>G	c.(2332-2334)ATG>GTG	p.M778V	PHC3_uc003fgl.2_Missense_Mutation_p.M790V|PHC3_uc011bpq.1_Missense_Mutation_p.M737V	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	778	FCS-type.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			TCACTGTCCATTTCTTCTAAT	0.333													13	142	---	---	---	---	PASS	C	169824720	C	C	169824720	3	2	109	1	0	0	0	0	1	0	0	0	11818	1493	52	5	635	5	PHC3	3	169824720	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	57467357	169824720	28197710	62	40528										
ABCF3	55324	broad.mit.edu	37	chr3	183904012	183904012	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gaacatggcgacttgcgccgAaatcctgcggagcgagttcc	13	12	0	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr3:183904012A>G	uc003fmz.2	+	1	150	c.17A>G	c.(16-18)GAA>GGA	p.E6G	ABCF3_uc003fna.2_Missense_Mutation_p.E6G|ABCF3_uc003fnb.2_5'Flank	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	6							ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ACTTGCGCCGAAATCCTGCGG	0.647													13	142	---	---	---	---	PASS	G	183904012	G	G	183904012	3	3	109	1	0	0	0	0	1	0	0	0	67	246	9	5	19	5	ABCF3	3	183904012	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	14079292	183904012	14118418	63	40529										
VPS8	23355	broad.mit.edu	37	chr3	184580719	184580719	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cacagttgtgctcttagacaGcgtagagaagttgcatgtga	12	7	1	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr3:184580719G>C	uc003fpb.1	+	15	1424	c.1253G>C	c.(1252-1254)AGC>ACC	p.S418T	VPS8_uc010hyd.1_Missense_Mutation_p.S418T	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	420							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			CTCTTAGACAGCGTAGAGAAG	0.433													36	340	---	---	---	---	PASS	C	184580719	C	C	184580719	3	2	109	1	0	0	0	0	1	0	0	0	17215	971	34	4	1313	4	VPS8	3	184580719	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	676707	184580719	13441711	64	40530										
LETM1	3954	broad.mit.edu	37	chr4	1821200	1821200	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tccttcgtgatctcttcctcCtgggataaaaatgggcaaac	8	11	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr4:1821200C>A	uc003gdv.2	-	11	1906	c.1609_splice	c.e11-1	p.E537_splice		NM_012318	NP_036450	O95202	LETM1_HUMAN	leucine zipper-EF-hand containing transmembrane						cristae formation	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			central_nervous_system(1)	1			all cancers(2;0.00756)|OV - Ovarian serous cystadenocarcinoma(23;0.00989)|Epithelial(3;0.0141)			TCTCTTCCTCCTGGGATAAAA	0.522													30	77	---	---	---	---	PASS	A	1821200	A	A	1821200	5	1	109	1	0	0	0	0	0	0	1	0	8734	695	24	3	627	3	LETM1	4	1821200	Splice_Site	SNP	C	TCGA-46-6025-01A-11D-1817-08		1821200	189333076	65	40531										
HTT	3064	broad.mit.edu	37	chr4	3240265	3240265	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcccaccccaggacatcatgAacaaagtcatcggagagttt	8	12	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr4:3240265A>C	uc011bvq.1	+	66	9134	c.8989A>C	c.(8989-8991)AAC>CAC	p.N2997H		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2995					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GGACATCATGAACAAAGTCAT	0.547													16	37	---	---	---	---	PASS	C	3240265	C	C	3240265	3	2	109	1	0	0	0	0	1	0	0	0	7457	246	9	5	9241	5	HTT	4	3240265	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	1419065	3240265	187914011	66	40532										
GRXCR1	389207	broad.mit.edu	37	chr4	42895454	42895454	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gggatagatggactaggtgaTtccgatggacagcagaatgg	16	5	0	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr4:42895454T>A	uc003gwt.2	+	1	171	c.171T>A	c.(169-171)GAT>GAA	p.D57E		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	57					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						GACTAGGTGATTCCGATGGAC	0.502													124	98	---	---	---	---	PASS	A	42895454	A	A	42895454	3	1	109	1	0	0	0	0	1	0	0	0	6812	1490	52	5	173	5	GRXCR1	4	42895454	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	39655189	42895454	148258822	67	40533										
SPARCL1	8404	broad.mit.edu	37	chr4	88415203	88415203	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gcatcttgcttacttgagttGgttgatcagactcttccaaa	8	9	3	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr4:88415203G>A	uc010ikm.2	-	5	1321	c.749C>T	c.(748-750)CCA>CTA	p.P250L	SPARCL1_uc011cdc.1_Missense_Mutation_p.P125L|SPARCL1_uc003hqs.3_Missense_Mutation_p.P250L|SPARCL1_uc011cdd.1_Missense_Mutation_p.P125L|SPARCL1_uc003hqt.2_Missense_Mutation_p.P250L	NM_001128310	NP_001121782	Q14515	SPRL1_HUMAN	SPARC-like 1 precursor	250					signal transduction	extracellular space|proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00118)		TACTTGAGTTGGTTGATCAGA	0.418													148	250	---	---	---	---	PASS	A	88415203	A	A	88415203	3	1	109	1	0	0	0	0	1	0	0	0	14995	1348	47	3	1277	3	SPARCL1	4	88415203	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	45519749	88415203	102739073	68	40534										
ABCG2	9429	broad.mit.edu	37	chr4	89052230	89052230	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	taccttggagtctgccacttTatccagacctaactcttgaa	6	12	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr4:89052230T>G	uc003hrg.2	-	5	1007	c.514A>C	c.(514-516)AAA>CAA	p.K172Q	ABCG2_uc003hrh.2_Missense_Mutation_p.K172Q|ABCG2_uc003hrf.2_Missense_Mutation_p.K42Q	NM_004827	NP_004818	Q9UNQ0	ABCG2_HUMAN	ATP-binding cassette, sub-family G, member 2	172	ABC transporter.|Cytoplasmic (Potential).				cellular iron ion homeostasis|urate metabolic process	integral to membrane|plasma membrane	ATP binding|heme transporter activity|protein homodimerization activity|xenobiotic-transporting ATPase activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Imatinib(DB00619)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nitrendipine(DB01054)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Topotecan(DB01030)	TCTGCCACTTTATCCAGACCT	0.403													68	171	---	---	---	---	PASS	G	89052230	G	G	89052230	3	3	109	1	0	0	0	0	1	0	0	0	69	1763	61	5	1501	5	ABCG2	4	89052230	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	637027	89052230	102102046	69	40535										
ARHGAP10	79658	broad.mit.edu	37	chr4	148653489	148653489	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tggagttcagcgactgctacCtcgacagcccgtggttccgg	13	13	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr4:148653489C>A	uc003ilf.2	+	1	37	c.37C>A	c.(37-39)CTC>ATC	p.L13I	ARHGAP10_uc003ile.1_Missense_Mutation_p.L13I	NM_024605	NP_078881	A1A4S6	RHG10_HUMAN	Rho GTPase activating protein 10	13	BAR.				apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			skin(2)|pancreas(1)|lung(1)	4	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)		CGACTGCTACCTCGACAGCCC	0.657													9	25	---	---	---	---	PASS	A	148653489	A	A	148653489	3	1	109	1	0	0	0	0	1	0	0	0	862	681	24	3	39	3	ARHGAP10	4	148653489	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	59601259	148653489	42500787	70	40536										
ARHGAP10	79658	broad.mit.edu	37	chr4	148968149	148968149	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cctgggcctcctggaccagaCaaaaaccaccttctggcaga	9	15	1	2	rs149308358		TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr4:148968149C>G	uc003ilf.2	+	20	1974	c.1974C>G	c.(1972-1974)GAC>GAG	p.D658E	ARHGAP10_uc003ilg.2_Missense_Mutation_p.D307E|ARHGAP10_uc003ilh.2_Missense_Mutation_p.D239E|ARHGAP10_uc003ili.2_Missense_Mutation_p.D91E	NM_024605	NP_078881	A1A4S6	RHG10_HUMAN	Rho GTPase activating protein 10	658					apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			skin(2)|pancreas(1)|lung(1)	4	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)		CTGGACCAGACAAAAACCACC	0.567													4	75	---	---	---	---	PASS	G	148968149	G	G	148968149	3	3	109	1	0	0	0	0	1	0	0	0	862	477	17	4	2052	4	ARHGAP10	4	148968149	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	314660	148968149	42186127	71	40537										
RXFP1	59350	broad.mit.edu	37	chr4	159526275	159526275	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctgattgcttcaagaattatCatgatcttcagaagctgtaa	7	7	4	4			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr4:159526275C>G	uc003ipz.2	+	5	530	c.448C>G	c.(448-450)CAT>GAT	p.H150D	RXFP1_uc010iqj.1_Translation_Start_Site|RXFP1_uc011cja.1_Missense_Mutation_p.H69D|RXFP1_uc010iqo.2_Missense_Mutation_p.H150D|RXFP1_uc011cjb.1_Missense_Mutation_p.H96D|RXFP1_uc010iqk.2_Translation_Start_Site|RXFP1_uc011cjc.1_Missense_Mutation_p.H69D|RXFP1_uc011cjd.1_Missense_Mutation_p.H69D|RXFP1_uc010iql.2_Translation_Start_Site|RXFP1_uc011cje.1_Missense_Mutation_p.H177D|RXFP1_uc010iqm.2_Missense_Mutation_p.H117D|RXFP1_uc011cjf.1_Missense_Mutation_p.H20D|RXFP1_uc010iqn.2_Missense_Mutation_p.H96D	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	150	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		CAAGAATTATCATGATCTTCA	0.318													9	28	---	---	---	---	PASS	G	159526275	G	G	159526275	3	3	109	1	0	0	0	0	1	0	0	0	13759	826	29	2	466	2	RXFP1	4	159526275	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	10558126	159526275	31628001	72	40538										
SLC9A3	6550	broad.mit.edu	37	chr5	484769	484769	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gacagcaggaaggcgaagacCacccccaccagcgtgccccc	11	18	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr5:484769C>A	uc003jbe.2	-	5	910	c.798G>T	c.(796-798)GTG>GTT	p.V266V	SLC9A3_uc011clx.1_Silent_p.V266V	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	266	Helical; Name=H/M6; (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			AGGCGAAGACCACCCCCACCA	0.632													45	37	---	---	---	---	PASS	A	484769	A	A	484769	2	1	109	1	0	0	0	0	0	0	0	1	14713	581	21	3		3	SLC9A3	5	484769	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08		484769	180430491	73	40539										
DNAH5	1767	broad.mit.edu	37	chr5	13867922	13867922	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aactggtgacaatcttggagGaatacctccacagcactaat	8	10	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr5:13867922G>A	uc003jfd.2	-	25	4056	c.4014C>T	c.(4012-4014)TTC>TTT	p.F1338F		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1338	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AATCTTGGAGGAATACCTCCA	0.453									Kartagener_syndrome				35	147	---	---	---	---	PASS	A	13867922	A	A	13867922	2	1	109	1	0	0	0	0	0	0	0	1	4604	1165	41	2		2	DNAH5	5	13867922	Silent	SNP	G	TCGA-46-6025-01A-11D-1817-08	13383153	13867922	167047338	74	40540										
ZNF622	90441	broad.mit.edu	37	chr5	16453235	16453235	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	caaatcgctgtttgtagtatCtcatcaaggagcgatgaccc	9	10	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr5:16453235C>A	uc003jfq.2	-	5	1313	c.1193G>T	c.(1192-1194)AGA>ATA	p.R398I		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	398						cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						TTTGTAGTATCTCATCAAGGA	0.478													78	69	---	---	---	---	PASS	A	16453235	A	A	16453235	3	1	109	1	0	0	0	0	1	0	0	0	18043	913	32	2	248	2	ZNF622	5	16453235	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	2585313	16453235	164462025	75	40541										
ADAMTS12	81792	broad.mit.edu	37	chr5	33549326	33549326	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	acctacctggctccaaggctCcacctgccacgcctcacagg	8	19	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr5:33549326C>T	uc003jia.1	-	21	4451	c.4288G>A	c.(4288-4290)GAG>AAG	p.E1430K	ADAMTS12_uc010iuq.1_Missense_Mutation_p.E1345K	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1430	TSP type-1 7.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CTCCAAGGCTCCACCTGCCAC	0.572										HNSCC(64;0.19)			11	114	---	---	---	---	PASS	T	33549326	T	T	33549326	3	4	109	1	0	0	0	0	1	0	0	0	257	864	30	2	512	2	ADAMTS12	5	33549326	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	17096091	33549326	147365934	76	40542										
GPR98	84059	broad.mit.edu	37	chr5	90015976	90015976	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	taggggtgcatgttcaaaccCtgataacagttttgcaaaac	9	8	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr5:90015976C>T	uc003kju.2	+	44	9655	c.9559C>T	c.(9559-9561)CTG>TTG	p.L3187L	GPR98_uc003kjt.2_Silent_p.L893L|GPR98_uc003kjv.2_Silent_p.L787L	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3187	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TGTTCAAACCCTGATAACAGT	0.398													85	30	---	---	---	---	PASS	T	90015976	T	T	90015976	2	4	109	1	0	0	0	0	0	0	0	1	6721	680	24	3		3	GPR98	5	90015976	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	56466650	90015976	90899284	77	40543										
SLCO6A1	133482	broad.mit.edu	37	chr5	101816003	101816003	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttactttttttctgtctccaTagaatgctataaatattgct	4	7	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr5:101816003T>C	uc003knn.2	-	2	666	c.494A>G	c.(493-495)TAT>TGT	p.Y165C	SLCO6A1_uc003kno.2_Missense_Mutation_p.Y165C|SLCO6A1_uc003knp.2_Missense_Mutation_p.Y165C|SLCO6A1_uc003knq.2_Missense_Mutation_p.Y165C	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	165	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		TCTGTCTCCATAGAATGCTAT	0.328													72	50	---	---	---	---	PASS	C	101816003	C	C	101816003	3	2	109	1	0	0	0	0	1	0	0	0	14732	1406	49	5	1713	5	SLCO6A1	5	101816003	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	11800027	101816003	79099257	78	40544										
PSD2	84249	broad.mit.edu	37	chr5	139217217	139217217	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctgccccacccaggatgagtAcaggcctgacaaagctctat	9	14	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr5:139217217A>G	uc003leu.1	+	12	1878	c.1673A>G	c.(1672-1674)TAC>TGC	p.Y558C		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	558	PH.				regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGATGAGTACAGGCCTGAC	0.602													19	55	---	---	---	---	PASS	G	139217217	G	G	139217217	3	3	109	1	0	0	0	0	1	0	0	0	12647	391	14	5	1715	5	PSD2	5	139217217	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	37401214	139217217	41698043	79	40545										
PCDHB12	56124	broad.mit.edu	37	chr5	140590009	140590009	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtctccatcaacgcggacaaCggccacctgtttgccctcag	9	16	3	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr5:140590009C>G	uc003liz.2	+	1	1719	c.1530C>G	c.(1528-1530)AAC>AAG	p.N510K	PCDHB12_uc011dak.1_Missense_Mutation_p.N173K	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	510	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACGCGGACAACGGCCACCTGT	0.677													28	85	---	---	---	---	PASS	G	140590009	G	G	140590009	3	3	109	1	0	0	0	0	1	0	0	0	11537	535	19	4	1532	4	PCDHB12	5	140590009	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	1372792	140590009	40325251	80	40546										
CCDC69	26112	broad.mit.edu	37	chr5	150563006	150563006	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aggccctgcaccctatgtggCgaggaaagagacctcagtgg	14	11	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr5:150563006C>G	uc003ltq.2	-	9	1006	c.883G>C	c.(883-885)GCC>CCC	p.A295P	CCDC69_uc010jhu.2_Missense_Mutation_p.A148P|CCDC69_uc011dcq.1_RNA	NM_015621	NP_056436	A6NI79	CCD69_HUMAN	coiled-coil domain containing 69	295										ovary(2)	2		Medulloblastoma(196;0.091)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCCTATGTGGCGAGGAAAGAG	0.602													3	11	---	---	---	---	PASS	G	150563006	G	G	150563006	3	3	109	1	0	0	0	0	1	0	0	0	2841	768	27	4	11	4	CCDC69	5	150563006	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	9972997	150563006	30352254	81	40547										
SGCD	6444	broad.mit.edu	37	chr5	156184629	156184629	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggtctctagtgatggaggccCcaaaaggagtggaaatcaat	13	7	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr5:156184629C>A	uc003lwd.3	+	7	1086	c.610C>A	c.(610-612)CCA>ACA	p.P204T	SGCD_uc003lwb.2_Missense_Mutation_p.P205T|SGCD_uc003lwc.3_Missense_Mutation_p.P205T	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	204	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GATGGAGGCCCCAAAAGGAGT	0.458													4	14	---	---	---	---	PASS	A	156184629	A	A	156184629	3	1	109	1	0	0	0	0	1	0	0	0	14201	623	22	3	639	3	SGCD	5	156184629	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	5621623	156184629	24730631	82	40548										
OR2B3	442184	broad.mit.edu	37	chr6	29054387	29054387	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aagccataggagatgaggatCaatgtcactggaattagaag	12	5	2	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr6:29054387C>A	uc003nlx.2	-	1	704	c.639G>T	c.(637-639)TTG>TTT	p.L213F		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						AGATGAGGATCAATGTCACTG	0.438													40	35	---	---	---	---	PASS	A	29054387	A	A	29054387	3	1	109	1	0	0	0	0	1	0	0	0	10990	825	29	2	306	2	OR2B3	6	29054387	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08		29054387	142060680	83	40549										
LTA	4049	broad.mit.edu	37	chr6	31541077	31541077	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggagaccccagcaagcagaaCtcactgctctggagagcaaa	11	12	2	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr6:31541077C>G	uc011dnu.1	+	4	438	c.225C>G	c.(223-225)AAC>AAG	p.N75K	LTA_uc003nue.1_Missense_Mutation_p.N75K|LTA_uc003nuf.2_Intron|LTA_uc003nuh.2_Missense_Mutation_p.N22K|LTA_uc003nug.2_Missense_Mutation_p.N22K|LTA_uc010jsr.2_Intron|TNF_uc003nui.2_5'Flank	NM_001159740	NP_001153212	P01374	TNFB_HUMAN	lymphotoxin alpha precursor	75					cell-cell signaling|induction of apoptosis|signal transduction	extracellular space|membrane	cytokine activity|tumor necrosis factor receptor binding				0					Etanercept(DB00005)	GCAAGCAGAACTCACTGCTCT	0.567													8	39	---	---	---	---	PASS	G	31541077	G	G	31541077	3	3	109	1	0	0	0	0	1	0	0	0	9068	564	20	4	235	4	LTA	6	31541077	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	2486690	31541077	139573990	84	40550										
KIAA0240	23506	broad.mit.edu	37	chr6	42832465	42832465	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctcatgagacacagtttggcCggagtgaccagcatggcagt	13	10	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr6:42832465C>T	uc003osn.1	+	13	2672	c.2521C>T	c.(2521-2523)CGG>TGG	p.R841W	KIAA0240_uc011duw.1_Missense_Mutation_p.R841W|KIAA0240_uc003osp.1_Missense_Mutation_p.R841W	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	841										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			ACAGTTTGGCCGGAGTGACCA	0.502													32	138	---	---	---	---	PASS	T	42832465	T	T	42832465	3	4	109	1	0	0	0	0	1	0	0	0	8164	643	23	1	2563	1	KIAA0240	6	42832465	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	11291388	42832465	128282602	85	40551										
SLC29A1	2030	broad.mit.edu	37	chr6	44197764	44197764	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttctttgtcatcaccatgatCaagatcgtgctcattaattg	6	9	5	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr6:44197764C>A	uc003owu.1	+	5	764	c.435C>A	c.(433-435)ATC>ATA	p.I145I	SLC29A1_uc011dvp.1_Silent_p.I164I|SLC29A1_uc003owv.1_Silent_p.I145I|SLC29A1_uc003oww.1_Silent_p.I224I|SLC29A1_uc011dvq.1_Silent_p.I187I|SLC29A1_uc003owx.1_Silent_p.I145I|SLC29A1_uc003owy.1_Silent_p.I145I|SLC29A1_uc003owz.1_Silent_p.I145I	NM_004955	NP_004946	Q99808	S29A1_HUMAN	equilibrative nucleoside transporter 1	145	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|basolateral plasma membrane|integral to plasma membrane|membrane fraction	nucleoside transmembrane transporter activity|protein binding			large_intestine(2)|skin(1)	3	all_cancers(18;3.19e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		Troglitazone(DB00197)	TCACCATGATCAAGATCGTGC	0.557													39	46	---	---	---	---	PASS	A	44197764	A	A	44197764	2	1	109	1	0	0	0	0	0	0	0	1	14534	816	29	2		2	SLC29A1	6	44197764	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	1365299	44197764	126917303	86	40552										
PREP	5550	broad.mit.edu	37	chr6	105821374	105821374	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttggcaccatcaactttcatGaacttgattgtcacccagtc	6	12	3	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr6:105821374G>A	uc003prc.2	-	5	668	c.465C>T	c.(463-465)TTC>TTT	p.F155F		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	155					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)	CAACTTTCATGAACTTGATTG	0.468													31	38	---	---	---	---	PASS	A	105821374	A	A	105821374	2	1	109	1	0	0	0	0	0	0	0	1	12474	1281	45	2		2	PREP	6	105821374	Silent	SNP	G	TCGA-46-6025-01A-11D-1817-08	61623610	105821374	65293693	87	40553										
SLC22A16	85413	broad.mit.edu	37	chr6	110746145	110746145	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	agcccactattattagttgtGagaagtaatttgcttgactt	8	6	0	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr6:110746145G>A	uc003puf.2	-	8	1732	c.1665C>T	c.(1663-1665)CTC>CTT	p.L555L	SLC22A16_uc003pue.2_Silent_p.L536L	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	555					acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		TATTAGTTGTGAGAAGTAATT	0.458													77	61	---	---	---	---	PASS	A	110746145	A	A	110746145	2	1	109	1	0	0	0	0	0	0	0	1	14447	1277	45	2		2	SLC22A16	6	110746145	Silent	SNP	G	TCGA-46-6025-01A-11D-1817-08	4924771	110746145	60368922	88	40554										
TAAR6	319100	broad.mit.edu	37	chr6	132891506	132891506	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tggctgtgcagctgtgctacGcgaacgtgaatgggtcctgt	15	9	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr6:132891506G>A	uc011eck.1	+	1	46	c.46G>A	c.(46-48)GCG>ACG	p.A16T		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	16	Extracellular (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		GCTGTGCTACGCGAACGTGAA	0.483													14	68	---	---	---	---	PASS	A	132891506	A	A	132891506	3	1	109	1	0	0	0	0	1	0	0	0	15489	1087	38	1	48	1	TAAR6	6	132891506	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	22145361	132891506	38223561	89	40555										
IGF2R	3482	broad.mit.edu	37	chr6	160450647	160450647	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttgtgatggtcacagccctgCggtgactattacatttgttt	10	8	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr6:160450647C>T	uc003qta.2	+	7	990	c.842C>T	c.(841-843)GCG>GTG	p.A281V		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	281	2.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		CACAGCCCTGCGGTGACTATT	0.512													15	25	---	---	---	---	PASS	T	160450647	T	T	160450647	3	4	109	1	0	0	0	0	1	0	0	0	7576	768	27	1	868	1	IGF2R	6	160450647	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	27559141	160450647	10664420	90	40556										
HECW1	23072	broad.mit.edu	37	chr7	43436457	43436457	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gagaccgtccaaggacaaggAagtcggaggctgatcagctt	14	9	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr7:43436457A>G	uc003tid.1	+	7	1205	c.600A>G	c.(598-600)GGA>GGG	p.G200G	HECW1_uc011kbi.1_Silent_p.G200G|HECW1_uc003tie.1_Silent_p.G232G	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	200	C2.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						AAGGACAAGGAAGTCGGAGGC	0.418													41	61	---	---	---	---	PASS	G	43436457	G	G	43436457	2	3	109	1	0	0	0	0	0	0	0	1	7042	233	9	5		5	HECW1	7	43436457	Silent	SNP	A	TCGA-46-6025-01A-11D-1817-08		43436457	115702206	91	40557										
BAZ1B	9031	broad.mit.edu	37	chr7	72891722	72891722	+	Missense_Mutation	SNP	T	A	A													0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gcaagcagagccgcaccagcTctgaaacagaatgcagagtc							TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr7:72891722T>A	uc003tyc.2	-	7	2414	c.2069A>T	c.(2068-2070)GAG>GTG	p.E690V		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	690					ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				CCGCACCAGCTCTGAAACAGA	0.473													62	67	---	---	---	---	PASS	A	72891722	A	A	72891722	3	1	109	1	0	0	0	0	1	0	0	0	1330	1551	54	5	2434	5	BAZ1B	7	72891722	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	29455265	72891722	86246941	92	40558	759	2								
BAZ1B	9031	broad.mit.edu	37	chr7	72891723	72891723	+	Nonsense_Mutation	SNP	C	A	A													0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	caagcagagccgcaccagctCtgaaacagaatgcagagtca							TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr7:72891723C>A	uc003tyc.2	-	7	2413	c.2068G>T	c.(2068-2070)GAG>TAG	p.E690*		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	690					ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				CGCACCAGCTCTGAAACAGAA	0.473													63	70	---	---	---	---	PASS	A	72891723	A	A	72891723	4	1	109	1	0	0	0	0	0	1	0	0	1330	922	32	2	2435	2	BAZ1B	7	72891723	Nonsense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	1	72891723	86246940	93	40559	759	2								
TRRAP	8295	broad.mit.edu	37	chr7	98608731	98608731	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	atggtgccgcgcagcatgctCaaggagtgggcgctgcacac	15	12	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr7:98608731C>G	uc003upp.2	+	70	11162	c.10953C>G	c.(10951-10953)CTC>CTG	p.L3651L	TRRAP_uc011kis.1_Silent_p.L3622L|TRRAP_uc003upr.2_Silent_p.L3357L|TRRAP_uc003ups.2_5'Flank	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3651	PI3K/PI4K.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GCAGCATGCTCAAGGAGTGGG	0.572													18	53	---	---	---	---	PASS	G	98608731	G	G	98608731	2	3	109	1	0	0	0	0	0	0	0	1	16598	813	29	2		2	TRRAP	7	98608731	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	25717008	98608731	60529932	94	40560										
SPDYE3	441272	broad.mit.edu	37	chr7	99917242	99917242	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gcccccaaacaaaagatcttCtacttcctgtacgggaagac	7	13	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr7:99917242C>G	uc003uug.1	+	4	510	c.270C>G	c.(268-270)TTC>TTG	p.F90L	uc011kjm.1_5'Flank	NM_001004351	NP_001004351	A6NKU9	SPDE3_HUMAN	speedy homolog E3	467											0						AAAAGATCTTCTACTTCCTGT	0.552													32	112	---	---	---	---	PASS	G	99917242	G	G	99917242	3	3	109	1	0	0	0	0	1	0	0	0	15029	912	32	2	1435	2	SPDYE3	7	99917242	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	1308511	99917242	59221421	95	40561										
LRRC17	10234	broad.mit.edu	37	chr7	102574465	102574465	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cgagtgaatcatggccgggcGggtggaggccggagaggctc	20	9	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr7:102574465G>C	uc003vau.2	+	2	494	c.105G>C	c.(103-105)GCG>GCC	p.A35A	FBXL13_uc010liq.1_Intron|FBXL13_uc003vaq.2_Intron|FBXL13_uc010lir.1_Intron|FBXL13_uc003var.2_Intron|FBXL13_uc003vas.2_Intron|LRRC17_uc003vat.2_Silent_p.A35A	NM_001031692	NP_001026862	Q8N6Y2	LRC17_HUMAN	leucine rich repeat containing 17 isoform 1	35					bone marrow development|negative regulation of osteoclast differentiation|ossification	extracellular space				ovary(1)	1						ATGGCCGGGCGGGTGGAGGCC	0.552													14	41	---	---	---	---	PASS	C	102574465	C	C	102574465	2	2	109	1	0	0	0	0	0	0	0	1	8973	1103	39	4		4	LRRC17	7	102574465	Silent	SNP	G	TCGA-46-6025-01A-11D-1817-08	2657223	102574465	56564198	96	40562										
MKLN1	4289	broad.mit.edu	37	chr7	131099445	131099445	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	caggaatgagaggaggccatCagatggttattgatgttcaa	13	5	2	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr7:131099445C>T	uc011kpm.1	+	8	887	c.823C>T	c.(823-825)CAG>TAG	p.Q275*	MKLN1_uc011kpl.1_Nonsense_Mutation_p.Q252*|MKLN1_uc010lmh.2_Nonsense_Mutation_p.Q275*|MKLN1_uc003vqs.2_Nonsense_Mutation_p.Q68*	NM_013255	NP_037387	Q9UL63	MKLN1_HUMAN	muskelin 1, intracellular mediator containing	275					signal transduction	cytoplasm	protein binding			breast(1)	1	Melanoma(18;0.162)					AGGAGGCCATCAGATGGTTAT	0.418													9	15	---	---	---	---	PASS	T	131099445	T	T	131099445	4	4	109	1	0	0	0	0	0	1	0	0	9603	827	29	2	886	2	MKLN1	7	131099445	Nonsense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	28524980	131099445	28039218	97	40563										
KIAA1549	57670	broad.mit.edu	37	chr7	138546088	138546088	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtgcatggtctggcgtgcctCctcgatggacggctggggtg	18	10	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr7:138546088C>T	uc011kql.1	-	16	5093	c.5044G>A	c.(5044-5046)GAG>AAG	p.E1682K	KIAA1549_uc011kqi.1_Missense_Mutation_p.E466K|KIAA1549_uc003vuk.3_Missense_Mutation_p.E1632K|KIAA1549_uc011kqj.1_Missense_Mutation_p.E1682K|KIAA1549_uc011kqk.1_Missense_Mutation_p.E466K	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1682						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TGGCGTGCCTCCTCGATGGAC	0.682			O	BRAF	pilocytic astrocytoma								36	64	---	---	---	---	PASS	T	138546088	T	T	138546088	3	4	109	1	0	0	0	0	1	0	0	0	8244	864	30	2	828	2	KIAA1549	7	138546088	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	7446643	138546088	20592575	98	40564										
PDIA4	9601	broad.mit.edu	37	chr7	148716172	148716172	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ccactcacatcaaacctgctGgccagcacagacgctgaggt	9	15	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr7:148716172G>A	uc003wff.2	-	3	669	c.387C>T	c.(385-387)GCC>GCT	p.A129A		NM_004911	NP_004902	P13667	PDIA4_HUMAN	protein disulfide isomerase A4 precursor	129	Thioredoxin 1.				cell redox homeostasis|glycerol ether metabolic process|protein secretion	endoplasmic reticulum lumen|melanosome	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			lung(5)|ovary(1)	6	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00385)			CAAACCTGCTGGCCAGCACAG	0.498													38	26	---	---	---	---	PASS	A	148716172	A	A	148716172	2	1	109	1	0	0	0	0	0	0	0	1	11670	1335	47	3		3	PDIA4	7	148716172	Silent	SNP	G	TCGA-46-6025-01A-11D-1817-08	10170084	148716172	10422491	99	40565										
CSMD1	64478	broad.mit.edu	37	chr8	3263552	3263552	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggtggcagggactgcaccttCacagcggggcacggtggagc	18	11	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr8:3263552C>T	uc011kwk.1	-	15	2656	c.2266G>A	c.(2266-2268)GAA>AAA	p.E756K	CSMD1_uc011kwj.1_Missense_Mutation_p.E148K	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	756	Sushi 4.|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)		ACTGCACCTTCACAGCGGGGC	0.498													19	21	---	---	---	---	PASS	T	3263552	T	T	3263552	3	4	109	1	0	0	0	0	1	0	0	0	3944	835	29	2	8655	2	CSMD1	8	3263552	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08		3263552	143100470	100	40566										
ZDHHC2	51201	broad.mit.edu	37	chr8	17053099	17053099	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gttcttaggcgagcagccaaGgatcttcccatctataccag	9	12	3	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr8:17053099G>A	uc003wxe.2	+	4	736	c.339G>A	c.(337-339)AAG>AAA	p.K113K		NM_016353	NP_057437	Q9UIJ5	ZDHC2_HUMAN	zinc finger, DHHC-type containing 2	113						integral to membrane	acyltransferase activity|zinc ion binding				0				Colorectal(111;0.0697)|COAD - Colon adenocarcinoma(73;0.244)		GAGCAGCCAAGGATCTTCCCA	0.423													6	58	---	---	---	---	PASS	A	17053099	A	A	17053099	2	1	109	1	0	0	0	0	0	0	0	1	17607	991	35	3		3	ZDHHC2	8	17053099	Silent	SNP	G	TCGA-46-6025-01A-11D-1817-08	13789547	17053099	129310923	101	40567										
WRN	7486	broad.mit.edu	37	chr8	30916059	30916059	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgtgctgtagaagaaagaaaGgtatgttgttcattgactat	11	3	1	4			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr8:30916059G>T	uc003xio.3	+	2	884	c.96G>T	c.(94-96)AAG>AAT	p.K32N		NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	32	Interaction with WRNIP1 (By similarity).				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		AAGAAAGAAAGGTATGTTGTT	0.338			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				12	9	---	---	---	---	PASS	T	30916059	T	T	30916059	3	4	109	1	0	0	0	0	1	0	0	0	17399	1014	35	3	98	3	WRN	8	30916059	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	13862960	30916059	115447963	102	40568										
KCNU1	157855	broad.mit.edu	37	chr8	36662792	36662792	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	atgctttctttagtttctatTttggattgagggtaagtacc	9	5	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr8:36662792T>A	uc010lvw.2	+	4	544	c.457T>A	c.(457-459)TTT>ATT	p.F153I	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	153	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		TAGTTTCTATTTTGGATTGAG	0.393													4	13	---	---	---	---	PASS	A	36662792	A	A	36662792	3	1	109	1	0	0	0	0	1	0	0	0	8093	1841	64	5	471	5	KCNU1	8	36662792	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	5746733	36662792	109701230	103	40569										
ZFHX4	79776	broad.mit.edu	37	chr8	77617287	77617287	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ataaatgcgtctccgccataAtacaggggattggcaaagac	10	9	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr8:77617287A>G	uc003yav.2	+	2	1351	c.964A>G	c.(964-966)ATA>GTA	p.I322V	ZFHX4_uc003yat.1_Missense_Mutation_p.I322V|ZFHX4_uc003yau.1_Missense_Mutation_p.I322V|ZFHX4_uc003yaw.1_Missense_Mutation_p.I322V	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	322						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTCCGCCATAATACAGGGGAT	0.418										HNSCC(33;0.089)			61	49	---	---	---	---	PASS	G	77617287	G	G	77617287	3	3	109	1	0	0	0	0	1	0	0	0	17632	101	4	5	966	5	ZFHX4	8	77617287	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	40954495	77617287	68746735	104	40570										
ST3GAL1	6482	broad.mit.edu	37	chr8	134488234	134488234	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gaagagcacgaggaaggtgaGcactttcagggtcctcttcc	13	10	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr8:134488234G>C	uc003yuk.2	-	5	863	c.34C>G	c.(34-36)CTC>GTC	p.L12V	ST3GAL1_uc003yum.2_Missense_Mutation_p.L12V	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	12	Cytoplasmic (Potential).			L -> V (in Ref. 2; AAA36612).	protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			AGGAAGGTGAGCACTTTCAGG	0.562													9	59	---	---	---	---	PASS	C	134488234	C	C	134488234	3	2	109	1	0	0	0	0	1	0	0	0	15213	971	34	4	1012	4	ST3GAL1	8	134488234	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	56870947	134488234	11875788	105	40571										
TRPM6	140803	broad.mit.edu	37	chr9	77377803	77377803	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	agcgatctccatgctgcctaGaacctctgcacagatgacat	8	13	2	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr9:77377803G>A	uc004ajl.1	-	26	4022	c.3784C>T	c.(3784-3786)CTA>TTA	p.L1262L	TRPM6_uc004ajk.1_Silent_p.L1257L|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajj.1_Silent_p.L218L	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1262	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						ATGCTGCCTAGAACCTCTGCA	0.512													27	144	---	---	---	---	PASS	A	77377803	A	A	77377803	2	1	109	1	0	0	0	0	0	0	0	1	16587	933	33	2		2	TRPM6	9	77377803	Silent	SNP	G	TCGA-46-6025-01A-11D-1817-08		77377803	63835628	106	40572										
PSAT1	29968	broad.mit.edu	37	chr9	80923366	80923366	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctggtgcccagaagaatgttGgctctgctggggtcaccgtg	15	10	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr9:80923366G>A	uc004ala.2	+	6	675	c.607G>A	c.(607-609)GGC>AGC	p.G203S	PSAT1_uc004alb.2_Missense_Mutation_p.G203S	NM_058179	NP_478059	Q9Y617	SERC_HUMAN	phosphoserine aminotransferase 1 isoform 1	203					L-serine biosynthetic process|pyridoxine biosynthetic process		O-phospho-L-serine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)	GAAGAATGTTGGCTCTGCTGG	0.493													18	76	---	---	---	---	PASS	A	80923366	A	A	80923366	3	1	109	1	0	0	0	0	1	0	0	0	12644	1348	47	3	629	3	PSAT1	9	80923366	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	3545563	80923366	60290065	107	40573										
FLJ46321	389763	broad.mit.edu	37	chr9	84606392	84606392	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tctaggtggctctggtgggtCatccacctctgccccaacaa	10	14	4	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr9:84606392C>A	uc004amn.2	+	4	1054	c.1007C>A	c.(1006-1008)TCA>TAA	p.S336*		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	336						integral to membrane					0						TCTGGTGGGTCATCCACCTCT	0.478													42	143	---	---	---	---	PASS	A	84606392	A	A	84606392	4	1	109	1	0	0	0	0	0	1	0	0	5932	838	29	2	1021	2	FLJ46321	9	84606392	Nonsense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	3683026	84606392	56607039	108	40574										
OR1N2	138882	broad.mit.edu	37	chr9	125316421	125316421	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgggtaaactttttgtcagtGgaaaaacattctttttatga	8	4	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr9:125316421G>T	uc011lyx.1	+	1	973	c.973G>T	c.(973-975)GGA>TGA	p.G325*		NM_001004457	NP_001004457	Q8NGR9	OR1N2_HUMAN	olfactory receptor, family 1, subfamily N,	325	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4						TTTTGTCAGTGGAAAAACATT	0.388													12	47	---	---	---	---	PASS	T	125316421	T	T	125316421	4	4	109	1	0	0	0	0	0	1	0	0	10970	1349	47	3	975	3	OR1N2	9	125316421	Nonsense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	40710029	125316421	15897010	109	40575										
MCM10	55388	broad.mit.edu	37	chr10	13231032	13231032	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	caaagaacggctgtgccaagAtggcttttactacggagggg	14	8	0	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr10:13231032A>G	uc001ima.2	+	10	1471	c.1370A>G	c.(1369-1371)GAT>GGT	p.D457G	MCM10_uc001imb.2_Missense_Mutation_p.D456G|MCM10_uc001imc.2_Missense_Mutation_p.D456G	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	457					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						CTGTGCCAAGATGGCTTTTAC	0.512													32	97	---	---	---	---	PASS	G	13231032	G	G	13231032	3	3	109	1	0	0	0	0	1	0	0	0	9385	333	12	5	1404	5	MCM10	10	13231032	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08		13231032	122303715	110	40576										
CUBN	8029	broad.mit.edu	37	chr10	16967745	16967745	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttgggggacgtgatgatcccTctgtctgcatgcaaatatcc	11	10	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr10:16967745T>G	uc001ioo.2	-	42	6352	c.6300A>C	c.(6298-6300)AGA>AGC	p.R2100S		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2100	CUB 15.				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)	TGATGATCCCTCTGTCTGCAT	0.458													24	58	---	---	---	---	PASS	G	16967745	G	G	16967745	3	3	109	1	0	0	0	0	1	0	0	0	4051	1548	54	5	4675	5	CUBN	10	16967745	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	3736713	16967745	118567002	111	40577										
MASTL	84930	broad.mit.edu	37	chr10	27444468	27444468	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cattgaggaattcagcatagTgaagcccattagccggggcg	13	9	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr10:27444468T>A	uc001itm.2	+	1	752	c.113T>A	c.(112-114)GTG>GAG	p.V38E	YME1L1_uc001iti.2_5'Flank|YME1L1_uc001itj.2_5'Flank|YME1L1_uc010qdl.1_5'Flank|YME1L1_uc009xkv.2_5'Flank|YME1L1_uc001itk.1_5'Flank|MASTL_uc001itl.2_Missense_Mutation_p.V38E|MASTL_uc009xkw.1_Missense_Mutation_p.V38E|MASTL_uc009xkx.1_RNA	NM_032844	NP_116233	Q96GX5	GWL_HUMAN	microtubule associated serine/threonine	38	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|mitosis|negative regulation of protein phosphatase type 2A activity|regulation of cell cycle|response to DNA damage stimulus	centrosome|cleavage furrow|nucleus	ATP binding|protein phosphatase 2A binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						TTCAGCATAGTGAAGCCCATT	0.562													14	55	---	---	---	---	PASS	A	27444468	A	A	27444468	3	1	109	1	0	0	0	0	1	0	0	0	9328	1696	59	5	115	5	MASTL	10	27444468	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	10476723	27444468	108090279	112	40578										
PGBD3	267004	broad.mit.edu	37	chr10	50723771	50723771	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aatgttttcatcagctctgtCtacgcctcccatgaactggt	7	12	4	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr10:50723771C>G	uc001jht.2	-	2	1645	c.1390G>C	c.(1390-1392)GAC>CAC	p.D464H	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Missense_Mutation_p.D932H|PGBD3_uc001jhu.2_Missense_Mutation_p.D932H	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	464										pancreas(1)|breast(1)|skin(1)	3						TCAGCTCTGTCTACGCCTCCC	0.413													80	82	---	---	---	---	PASS	G	50723771	G	G	50723771	3	3	109	1	0	0	0	0	1	0	0	0	11782	913	32	2	395	2	PGBD3	10	50723771	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	23279303	50723771	84810976	113	40579										
MAT1A	4143	broad.mit.edu	37	chr10	82034380	82034380	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtgaagatggaaatggacagCggctcggccacaccaatggc	14	10	0	2	rs149163315		TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr10:82034380C>T	uc001kbw.2	-	8	1236	c.981G>A	c.(979-981)CCG>CCA	p.P327P		NM_000429	NP_000420	Q00266	METK1_HUMAN	methionine adenosyltransferase I, alpha	327					methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0			Colorectal(32;0.229)		L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	AAATGGACAGCGGCTCGGCCA	0.572													21	42	---	---	---	---	PASS	T	82034380	T	T	82034380	2	4	109	1	0	0	0	0	0	0	0	1	9329	755	27	1		1	MAT1A	10	82034380	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	31310609	82034380	53500367	114	40580										
SFXN3	81855	broad.mit.edu	37	chr10	102795364	102795364	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gaaggtggtcctgattggccGcatgtcagcccaggtgccca	14	12	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr10:102795364G>A	uc001ksp.2	+	4	740	c.284G>A	c.(283-285)CGC>CAC	p.R95H	SFXN3_uc001ksq.2_Missense_Mutation_p.R95H|SFXN3_uc010qpx.1_Missense_Mutation_p.R95H	NM_030971	NP_112233	Q9BWM7	SFXN3_HUMAN	sideroflexin 3	95					iron ion homeostasis	integral to membrane|mitochondrial membrane	cation transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		CTGATTGGCCGCATGTCAGCC	0.587													3	29	---	---	---	---	PASS	A	102795364	A	A	102795364	3	1	109	1	0	0	0	0	1	0	0	0	14196	1087	38	1	294	1	SFXN3	10	102795364	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	20760984	102795364	32739383	115	40581										
CNNM2	54805	broad.mit.edu	37	chr10	104679152	104679152	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aagaattacgccaagcgcatCgagccggtgcgcaggcaggg	15	11	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr10:104679152C>G	uc001kwm.2	+	1	1039	c.915C>G	c.(913-915)ATC>ATG	p.I305M	CNNM2_uc001kwn.2_Missense_Mutation_p.I305M|CNNM2_uc001kwl.2_Missense_Mutation_p.I305M	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	305	DUF21.				ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CCAAGCGCATCGAGCCGGTGC	0.637													19	17	---	---	---	---	PASS	G	104679152	G	G	104679152	3	3	109	1	0	0	0	0	1	0	0	0	3613	874	31	2	917	2	CNNM2	10	104679152	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	1883788	104679152	30855595	116	40582										
MKI67	4288	broad.mit.edu	37	chr10	129914179	129914179	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgagtcatctgcggtactgtCttctttgacattcttgatat	8	8	5	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr10:129914179C>G	uc001lke.2	-	7	688	c.493G>C	c.(493-495)GAC>CAC	p.D165H	MKI67_uc001lkf.2_Intron|MKI67_uc009yav.1_Intron|MKI67_uc009yaw.1_Intron	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	165					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GCGGTACTGTCTTCTTTGACA	0.418													36	103	---	---	---	---	PASS	G	129914179	G	G	129914179	3	3	109	1	0	0	0	0	1	0	0	0	9598	913	32	2	9313	2	MKI67	10	129914179	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	25235027	129914179	5620568	117	40583										
MUC2	4583	broad.mit.edu	37	chr11	1101629	1101629	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcgaagtgaagagcaagatgGtgcctggaaggtgctgtcct	15	7	0	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr11:1101629G>A	uc001lsx.1	+	45	14755	c.14728G>A	c.(14728-14730)GTG>ATG	p.V4910M		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4910						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	GAGCAAGATGGTGCCTGGAAG	0.632													8	76	---	---	---	---	PASS	A	1101629	A	A	1101629	3	1	109	1	0	0	0	0	1	0	0	0	9975	1261	44	3	7800	3	MUC2	11	1101629	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08		1101629	133904887	118	40584										
CD81	975	broad.mit.edu	37	chr11	2415336	2415336	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ccccgcaaggcatctacatcCtcatcgctgtgggcgctgtc	10	16	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr11:2415336C>G	uc001lwf.1	+	3	426	c.193C>G	c.(193-195)CTC>GTC	p.L65V	CD81_uc001lwg.1_Missense_Mutation_p.L58V|CD81_uc001lwh.1_5'Flank	NM_004356	NP_004347	P60033	CD81_HUMAN	CD81 antigen	65	Helical; (Potential).				activation of MAPK activity|cell proliferation|phosphatidylinositol biosynthetic process|positive regulation of 1-phosphatidylinositol 4-kinase activity|positive regulation of cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|protein localization|regulation of immune response|virion attachment, binding of host cell surface receptor	integral to plasma membrane	protein binding				0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.000338)|LUSC - Lung squamous cell carcinoma(625;0.191)		CATCTACATCCTCATCGCTGT	0.647													3	58	---	---	---	---	PASS	G	2415336	G	G	2415336	3	3	109	1	0	0	0	0	1	0	0	0	3039	681	24	4	203	4	CD81	11	2415336	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	1313707	2415336	132591180	119	40585										
NAV2	89797	broad.mit.edu	37	chr11	20057595	20057595	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aacaccagctcctccatcagCtcttatgccaacacacctgc	4	18	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr11:20057595C>T	uc010rdm.1	+	13	3289	c.2928C>T	c.(2926-2928)AGC>AGT	p.S976S	NAV2_uc001mpp.2_Silent_p.S889S|NAV2_uc001mpr.3_Silent_p.S953S|NAV2_uc001mpt.2_Silent_p.S39S|NAV2_uc009yhx.2_Silent_p.S39S|NAV2_uc009yhy.1_5'UTR	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	976						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						CCTCCATCAGCTCTTATGCCA	0.587													11	56	---	---	---	---	PASS	T	20057595	T	T	20057595	2	4	109	1	0	0	0	0	0	0	0	1	10184	796	28	3		3	NAV2	11	20057595	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	17642259	20057595	114948921	120	40586										
PDHX	8050	broad.mit.edu	37	chr11	34988250	34988250	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	accgagtccagaccaactccAgcccccacagccactcccac	5	22	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr11:34988250A>G	uc001mvt.2	+	6	1231	c.705A>G	c.(703-705)CCA>CCG	p.P235P	PDHX_uc010rep.1_Silent_p.P220P|PDHX_uc010req.1_Intron	NM_003477	NP_003468	O00330	ODPX_HUMAN	pyruvate dehydrogenase complex, component X	235					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	acyltransferase activity			kidney(1)	1	all_epithelial(35;0.115)|Lung NSC(22;0.218)|all_lung(20;0.242)	all_hematologic(20;0.124)	STAD - Stomach adenocarcinoma(6;0.00113)			GACCAACTCCAGCCCCCACAG	0.522													3	98	---	---	---	---	PASS	G	34988250	G	G	34988250	2	3	109	1	0	0	0	0	0	0	0	1	11667	175	7	5		5	PDHX	11	34988250	Silent	SNP	A	TCGA-46-6025-01A-11D-1817-08	14930655	34988250	100018266	121	40587										
ARHGAP1	392	broad.mit.edu	37	chr11	46709766	46709766	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctggtggctggggggcattcGacaggcactaaacacaatga	14	9	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr11:46709766G>C	uc001ndd.2	-	4	343	c.274C>G	c.(274-276)CGA>GGA	p.R92G	ARHGAP1_uc009yle.1_Missense_Mutation_p.R92G	NM_004308	NP_004299	Q07960	RHG01_HUMAN	Rho GTPase activating protein 1	92	CRAL-TRIO.				Rho protein signal transduction	cytosol|intracellular membrane-bounded organelle	SH3 domain binding|SH3/SH2 adaptor activity			skin(1)	1		Lung NSC(402;1.76e-12)|all_lung(304;1.3e-11)		GBM - Glioblastoma multiforme(35;5.17e-06)|BRCA - Breast invasive adenocarcinoma(625;0.00112)|Lung(87;0.153)		GGGGGCATTCGACAGGCACTA	0.547													6	32	---	---	---	---	PASS	C	46709766	C	C	46709766	3	2	109	1	0	0	0	0	1	0	0	0	861	1066	37	2	1085	2	ARHGAP1	11	46709766	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	11721516	46709766	88296750	122	40588										
SPRYD5	84767	broad.mit.edu	37	chr11	55658946	55658946	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	accacctccccacttgtggtGcaatatgttccaagacctac	6	15	0	1	rs145711485	byFrequency	TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr11:55658946G>A	uc010rip.1	+	7	1289	c.1197G>A	c.(1195-1197)GTG>GTA	p.V399V	SPRYD5_uc010riq.1_Silent_p.V256V	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	399	B30.2/SPRY.					intracellular	zinc ion binding				0		all_epithelial(135;0.226)				CACTTGTGGTGCAATATGTTC	0.448													33	55	---	---	---	---	PASS	A	55658946	A	A	55658946	2	1	109	1	0	0	0	0	0	0	0	1	15110	1306	46	3		3	SPRYD5	11	55658946	Silent	SNP	G	TCGA-46-6025-01A-11D-1817-08	8949180	55658946	79347570	123	40589										
AHNAK	79026	broad.mit.edu	37	chr11	62300231	62300231	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gactgccaagcctagggcctGtcaaggttccctctaggttt	11	12	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr11:62300231G>A	uc001ntl.2	-	5	1958	c.1658C>T	c.(1657-1659)ACA>ATA	p.T553I	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	553					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CCTAGGGCCTGTCAAGGTTCC	0.517													21	195	---	---	---	---	PASS	A	62300231	A	A	62300231	3	1	109	1	0	0	0	0	1	0	0	0	414	1377	48	3	16134	3	AHNAK	11	62300231	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	6641285	62300231	72706285	124	40590										
NCAPD3	23310	broad.mit.edu	37	chr11	134037950	134037950	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	atttgccaaggccatgtcatCttcttccataaggaggtctt	8	10	4	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr11:134037950C>G	uc001qhd.1	-	27	4120	c.3514G>C	c.(3514-3516)GAT>CAT	p.D1172H	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA|NCAPD3_uc001qhc.1_Missense_Mutation_p.D122H	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	1172					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		GCCATGTCATCTTCTTCCATA	0.453													36	108	---	---	---	---	PASS	G	134037950	G	G	134037950	3	3	109	1	0	0	0	0	1	0	0	0	10206	913	32	2	1018	2	NCAPD3	11	134037950	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	71737719	134037950	968566	125	40591										
A2M	2	broad.mit.edu	37	chr12	9227264	9227264	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggggctggctgggccgtgagAtaagcgaggagcacatagga	19	7	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr12:9227264A>G	uc001qvk.1	-	29	3761	c.3648T>C	c.(3646-3648)TAT>TAC	p.Y1216Y	A2M_uc001qvj.1_Silent_p.Y258Y|A2M_uc009zgk.1_Silent_p.Y1066Y	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1216					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GGGCCGTGAGATAAGCGAGGA	0.592													7	39	---	---	---	---	PASS	G	9227264	G	G	9227264	2	3	109	1	0	0	0	0	0	0	0	1	4	340	12	5		5	A2M	12	9227264	Silent	SNP	A	TCGA-46-6025-01A-11D-1817-08		9227264	124624631	126	40592										
NELL2	4753	broad.mit.edu	37	chr12	45000994	45000994	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gaagccttgtgggcaggcacAcacattagcggcaatacagg	13	10	0	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr12:45000994A>C	uc001rog.2	-	15	2216	c.1621T>G	c.(1621-1623)TGT>GGT	p.C541G	NELL2_uc001rof.3_Missense_Mutation_p.C540G|NELL2_uc001roh.2_Missense_Mutation_p.C541G|NELL2_uc009zkd.2_Missense_Mutation_p.C540G|NELL2_uc010skz.1_Missense_Mutation_p.C591G|NELL2_uc010sla.1_Missense_Mutation_p.C564G|NELL2_uc001roi.1_Missense_Mutation_p.C541G|NELL2_uc010slb.1_Missense_Mutation_p.C540G	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	541	EGF-like 4.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		GGGCAGGCACACACATTAGCG	0.383													7	35	---	---	---	---	PASS	C	45000994	C	C	45000994	3	2	109	1	0	0	0	0	1	0	0	0	10334	159	6	5	853	5	NELL2	12	45000994	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	35773730	45000994	88850901	127	40593										
COL2A1	1280	broad.mit.edu	37	chr12	48391460	48391460	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	atttccaggggtcccaggttCtccatctctgccacgaggtc	10	14	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr12:48391460C>G	uc001rqu.2	-	7	641	c.460G>C	c.(460-462)GAA>CAA	p.E154Q	COL2A1_uc001rqv.2_Missense_Mutation_p.E85Q	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	154					axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	GTCCCAGGTTCTCCATCTCTG	0.408													19	77	---	---	---	---	PASS	G	48391460	G	G	48391460	3	3	109	1	0	0	0	0	1	0	0	0	3687	922	32	2	4195	2	COL2A1	12	48391460	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	3390466	48391460	85460435	128	40594										
CALCOCO1	57658	broad.mit.edu	37	chr12	54110074	54110074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgggcctggcctagggtgtcCttcatctgggccaccttgtc	13	13	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr12:54110074C>A	uc001sef.2	-	8	1119	c.975G>T	c.(973-975)AAG>AAT	p.K325N	CALCOCO1_uc001see.2_5'Flank|CALCOCO1_uc010som.1_Intron|CALCOCO1_uc010son.1_Missense_Mutation_p.K202N|CALCOCO1_uc001seh.2_Missense_Mutation_p.K325N|CALCOCO1_uc009znd.2_Missense_Mutation_p.K325N|CALCOCO1_uc001seg.2_Intron|CALCOCO1_uc010soo.1_Missense_Mutation_p.K318N	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	325	Potential.				steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						CTAGGGTGTCCTTCATCTGGG	0.562													26	80	---	---	---	---	PASS	A	54110074	A	A	54110074	3	1	109	1	0	0	0	0	1	0	0	0	2577	680	24	3	1132	3	CALCOCO1	12	54110074	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	5718614	54110074	79741821	129	40595										
NAV3	89795	broad.mit.edu	37	chr12	78593181	78593181	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggcagatatcttcgaagaaaActcatagagatagaaattga	9	5	2	5			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr12:78593181A>G	uc001syp.2	+	37	6758	c.6585A>G	c.(6583-6585)AAA>AAG	p.K2195K	NAV3_uc001syo.2_Silent_p.K2173K|NAV3_uc010sub.1_Silent_p.K1652K|NAV3_uc009zsf.2_Silent_p.K1004K	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2195						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TTCGAAGAAAACTCATAGAGA	0.333										HNSCC(70;0.22)			51	67	---	---	---	---	PASS	G	78593181	G	G	78593181	2	3	109	1	0	0	0	0	0	0	0	1	10185	40	2	5		5	NAV3	12	78593181	Silent	SNP	A	TCGA-46-6025-01A-11D-1817-08	24483107	78593181	55258714	130	40596										
GAS2L3	283431	broad.mit.edu	37	chr12	101018492	101018492	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	agtcagcacagactgtcgctAagagccagcattcaactaaa	8	11	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr12:101018492A>G	uc001thu.2	+	10	2135	c.1909A>G	c.(1909-1911)AAG>GAG	p.K637E	GAS2L3_uc009zty.2_Missense_Mutation_p.K637E|GAS2L3_uc001thv.2_Missense_Mutation_p.K533E	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	637					cell cycle arrest					skin(1)	1						GACTGTCGCTAAGAGCCAGCA	0.512													6	88	---	---	---	---	PASS	G	101018492	G	G	101018492	3	3	109	1	0	0	0	0	1	0	0	0	6248	363	13	5	1939	5	GAS2L3	12	101018492	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	22425311	101018492	32833403	131	40597										
UTP20	27340	broad.mit.edu	37	chr12	101768637	101768637	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtggcttgtttgtggaaagtGaaggagttgattttgagaaa	15	1	0	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr12:101768637G>C	uc001tia.1	+	55	7339	c.7183G>C	c.(7183-7185)GAA>CAA	p.E2395Q		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	2395					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TGTGGAAAGTGAAGGAGTTGA	0.388													30	171	---	---	---	---	PASS	C	101768637	C	C	101768637	3	2	109	1	0	0	0	0	1	0	0	0	17096	1291	45	2	7401	2	UTP20	12	101768637	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	750145	101768637	32083258	132	40598										
PTPN11	5781	broad.mit.edu	37	chr12	112893784	112893784	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cgactcgtataaatgctgctGaaatagaaagcagagttcga	10	7	0	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr12:112893784G>T	uc001ttx.2	+	6	1053	c.673G>T	c.(673-675)GAA>TAA	p.E225*	PTPN11_uc001ttw.1_Nonsense_Mutation_p.E225*	NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	225					axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding			haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						AAATGCTGCTGAAATAGAAAG	0.343			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				21	58	---	---	---	---	PASS	T	112893784	T	T	112893784	4	4	109	1	0	0	0	0	0	1	0	0	12780	1291	45	2	695	2	PTPN11	12	112893784	Nonsense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	11125147	112893784	20958111	133	40599										
DNAH10	196385	broad.mit.edu	37	chr12	124326030	124326030	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	acggcagttttgaatgagatGagaagaactaatagactaat	10	4	0	5			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr12:124326030G>A	uc001uft.3	+	29	4969	c.4944G>A	c.(4942-4944)ATG>ATA	p.M1648I		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1648	Stem (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)		TGAATGAGATGAGAAGAACTA	0.463													74	38	---	---	---	---	PASS	A	124326030	A	A	124326030	3	1	109	1	0	0	0	0	1	0	0	0	4598	1290	45	2	5058	2	DNAH10	12	124326030	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	11432246	124326030	9525865	134	40600										
DHX37	57647	broad.mit.edu	37	chr12	125465138	125465138	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggaggaggaacagtcatcccAgccggcacgggctgactgct	15	12	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr12:125465138A>G	uc001ugy.2	-	4	735	c.636T>C	c.(634-636)GCT>GCC	p.A212A		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	212							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		CAGTCATCCCAGCCGGCACGG	0.692													3	46	---	---	---	---	PASS	G	125465138	G	G	125465138	2	3	109	1	0	0	0	0	0	0	0	1	4510	175	7	5		5	DHX37	12	125465138	Silent	SNP	A	TCGA-46-6025-01A-11D-1817-08	1139108	125465138	8386757	135	40601										
SLC7A1	6541	broad.mit.edu	37	chr13	30096564	30096564	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cagccatggcatagataaccCgaggcatgggaaacatggaa	12	9	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr13:30096564C>T	uc001uso.2	-	8	1466	c.1079G>A	c.(1078-1080)CGG>CAG	p.R360Q		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	360	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	ATAGATAACCCGAGGCATGGG	0.488													38	28	---	---	---	---	PASS	T	30096564	T	T	30096564	3	4	109	1	0	0	0	0	1	0	0	0	14692	652	23	1	834	1	SLC7A1	13	30096564	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08		30096564	85073314	136	40602										
UBL3	5412	broad.mit.edu	37	chr13	30423650	30423650	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	taacttatccgtcacttaccAtatccgccgggacattactg	6	13	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr13:30423650A>G	uc001usp.2	-	1	1171	c.26T>C	c.(25-27)ATG>ACG	p.M9T		NM_007106	NP_009037	O95164	UBL3_HUMAN	ubiquitin-like 3 precursor	9						intracellular|plasma membrane					0		Lung SC(185;0.0281)		all cancers(112;0.0598)|GBM - Glioblastoma multiforme(144;0.142)|OV - Ovarian serous cystadenocarcinoma(117;0.147)		GTCACTTACCATATCCGCCGG	0.423													12	36	---	---	---	---	PASS	G	30423650	G	G	30423650	3	3	109	1	0	0	0	0	1	0	0	0	16883	231	8	5	347	5	UBL3	13	30423650	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	327086	30423650	84746228	137	40603										
COG6	57511	broad.mit.edu	37	chr13	40233518	40233518	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	taggagatgttagaagctctCaaggcactttcaaccttttt	8	8	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr13:40233518C>G	uc001uxh.2	+	2	271	c.171C>G	c.(169-171)CTC>CTG	p.L57L	COG6_uc001uxi.2_Silent_p.L5L|COG6_uc010acb.2_Silent_p.L57L	NM_020751	NP_065802	Q9Y2V7	COG6_HUMAN	component of oligomeric golgi complex 6 isoform	57					protein transport	Golgi membrane|Golgi transport complex				kidney(1)|skin(1)	2		Lung NSC(96;0.000124)|Breast(139;0.0199)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.03e-09)|Epithelial(112;7e-07)|OV - Ovarian serous cystadenocarcinoma(117;0.00015)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.0168)		TAGAAGCTCTCAAGGCACTTT	0.328													26	19	---	---	---	---	PASS	G	40233518	G	G	40233518	2	3	109	1	0	0	0	0	0	0	0	1	3662	813	29	2		2	COG6	13	40233518	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	9809868	40233518	74936360	138	40604										
TEP1	7011	broad.mit.edu	37	chr14	20848129	20848129	+	Missense_Mutation	SNP	G	T	T													0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	acaggtaaactgtcccattgGcagtgcccacagctgctctt							TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr14:20848129G>T	uc001vxe.2	-	35	5127	c.5087C>A	c.(5086-5088)GCC>GAC	p.A1696D	TEP1_uc010ahk.2_Missense_Mutation_p.A1039D|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.A1588D|TEP1_uc010tlh.1_Missense_Mutation_p.A34D	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1696	WD 2.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		TGTCCCATTGGCAGTGCCCAC	0.522													14	43	---	---	---	---	PASS	T	20848129	T	T	20848129	3	4	109	1	0	0	0	0	1	0	0	0	15756	1203	42	3	2880	3	TEP1	14	20848129	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08		20848129	86501411	139	40605	760	2								
TEP1	7011	broad.mit.edu	37	chr14	20848130	20848130	+	Missense_Mutation	SNP	C	A	A													0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	caggtaaactgtcccattggCagtgcccacagctgctcttt							TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr14:20848130C>A	uc001vxe.2	-	35	5126	c.5086G>T	c.(5086-5088)GCC>TCC	p.A1696S	TEP1_uc010ahk.2_Missense_Mutation_p.A1039S|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.A1588S|TEP1_uc010tlh.1_Missense_Mutation_p.A34S	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1696	WD 2.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		GTCCCATTGGCAGTGCCCACA	0.522													14	42	---	---	---	---	PASS	A	20848130	A	A	20848130	3	1	109	1	0	0	0	0	1	0	0	0	15756	710	25	3	2881	3	TEP1	14	20848130	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	1	20848130	86501410	140	40606	760	2								
EDDM3B	64184	broad.mit.edu	37	chr14	21238568	21238568	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gcactagtgacaactggatgGatcgcttccgaaatgcatat	10	9	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr14:21238568G>C	uc001vyd.2	+	2	357	c.259G>C	c.(259-261)GAT>CAT	p.D87H		NM_022360	NP_071755	P56851	EP3B_HUMAN	human epididymis-specific 3 beta precursor	87					spermatid development	extracellular region				ovary(1)	1						CAACTGGATGGATCGCTTCCG	0.413													31	25	---	---	---	---	PASS	C	21238568	C	C	21238568	3	2	109	1	0	0	0	0	1	0	0	0	4910	1174	41	2	261	2	EDDM3B	14	21238568	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	390438	21238568	86110972	141	40607										
FLJ10357	55701	broad.mit.edu	37	chr14	21542304	21542304	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aggaggttcctgtgcccaatGaggcttgtgcctacctattc	11	11	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr14:21542304G>A	uc001vzp.2	+	3	444	c.415G>A	c.(415-417)GAG>AAG	p.E139K	FLJ10357_uc001vzn.1_Missense_Mutation_p.E139K|FLJ10357_uc001vzo.1_Intron|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_5'UTR	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	139					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		TGTGCCCAATGAGGCTTGTGC	0.617													26	53	---	---	---	---	PASS	A	21542304	A	A	21542304	3	1	109	1	0	0	0	0	1	0	0	0	5926	1291	45	2	425	2	FLJ10357	14	21542304	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	303736	21542304	85807236	142	40608										
PTGER2	5732	broad.mit.edu	37	chr14	52794042	52794042	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aattgacccttgggtctttgCcatccttaggcctcctgttc	8	13	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr14:52794042C>T	uc001wzr.2	+	2	1198	c.947C>T	c.(946-948)GCC>GTC	p.A316V		NM_000956	NP_000947	P43116	PE2R2_HUMAN	prostaglandin E receptor 2 (subtype EP2), 53kDa	316	Helical; Name=7; (Potential).					integral to plasma membrane	prostaglandin E receptor activity			lung(1)|breast(1)	2	Breast(41;0.0639)|all_epithelial(31;0.0729)				Alprostadil(DB00770)|Iloprost(DB01088)	TGGGTCTTTGCCATCCTTAGG	0.403													4	99	---	---	---	---	PASS	T	52794042	T	T	52794042	3	4	109	1	0	0	0	0	1	0	0	0	12743	739	26	3	953	3	PTGER2	14	52794042	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	31251738	52794042	54555498	143	40609										
C14orf181	400223	broad.mit.edu	37	chr14	69262518	69262518	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcgggttgaaacgtcatttcGgggactttccaagggtgagg	15	7	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr14:69262518G>C	uc001xkj.1	-	1	673	c.494C>G	c.(493-495)CCG>CGG	p.P165R	ZFP36L1_uc001xkh.1_5'Flank|ZFP36L1_uc001xki.1_5'Flank	NM_207442	NP_997325			hypothetical protein LOC400223												0				all cancers(60;0.002)|BRCA - Breast invasive adenocarcinoma(234;0.00204)|OV - Ovarian serous cystadenocarcinoma(108;0.0399)		ACGTCATTTCGGGGACTTTCC	0.592													4	135	---	---	---	---	PASS	C	69262518	C	C	69262518	3	2	109	1	0	0	0	0	1	0	0	0	1764	1116	39	4	10	4	C14orf181	14	69262518	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	16468476	69262518	38087022	144	40610										
ZFYVE1	53349	broad.mit.edu	37	chr14	73459962	73459962	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aagtccgtgggagggttgtaAgtcctcgttcccttgtagtg	14	8	0	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr14:73459962A>G	uc001xnm.2	-	4	1732	c.1092T>C	c.(1090-1092)ACT>ACC	p.T364T	ZFYVE1_uc010arj.2_Silent_p.T364T	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	364						endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		GAGGGTTGTAAGTCCTCGTTC	0.562													26	70	---	---	---	---	PASS	G	73459962	G	G	73459962	2	3	109	1	0	0	0	0	0	0	0	1	17660	59	3	5		5	ZFYVE1	14	73459962	Silent	SNP	A	TCGA-46-6025-01A-11D-1817-08	4197444	73459962	33889578	145	40611										
IFI27	3429	broad.mit.edu	37	chr14	94582193	94582193	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gggaatcgcctcgtcctccaTagcagccaagatgatgtccg	11	13	0	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr14:94582193T>C	uc010tws.1	+	4	376	c.255T>C	c.(253-255)CAT>CAC	p.H85H	IFI27_uc001ycn.1_RNA|IFI27_uc001yco.2_Missense_Mutation_p.I66T	NM_005532	NP_005523	P40305	IFI27_HUMAN	interferon, alpha-inducible protein 27 isoform	Error:Variant_position_missing_in_P40305_after_alignment					activation of caspase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|type I interferon-mediated signaling pathway	integral to membrane|mitochondrion					0				Epithelial(152;0.112)|all cancers(159;0.187)|COAD - Colon adenocarcinoma(157;0.206)		TCGTCCTCCATAGCAGCCAAG	0.632													5	4	---	---	---	---	PASS	C	94582193	C	C	94582193	2	2	109	1	0	0	0	0	0	0	0	1	7512	1406	49	5		5	IFI27	14	94582193	Silent	SNP	T	TCGA-46-6025-01A-11D-1817-08	21122231	94582193	12767347	146	40612										
OCA2	4948	broad.mit.edu	37	chr15	28231737	28231737	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gcaacatcatacctacctttAcagcacaataatcgaaaaat	3	11	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr15:28231737A>T	uc001zbh.3	-	12	1345	c.1235T>A	c.(1234-1236)GTA>GAA	p.V412E	OCA2_uc010ayv.2_Missense_Mutation_p.V388E	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	412	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		ACCTACCTTTACAGCACAATA	0.289									Oculocutaneous_Albinism				35	164	---	---	---	---	PASS	T	28231737	T	T	28231737	3	4	109	1	0	0	0	0	1	0	0	0	10815	391	14	5	1333	5	OCA2	15	28231737	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08		28231737	74299655	147	40613										
TRPM1	4308	broad.mit.edu	37	chr15	31325029	31325029	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtagggctggttctgtaggcGaagaattgctccaatcatga	13	7	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr15:31325029G>A	uc001zfm.2	-	21	2877	c.2749C>T	c.(2749-2751)CGC>TGC	p.R917C	TRPM1_uc010azy.2_Missense_Mutation_p.R824C|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	917	Helical; (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		TTCTGTAGGCGAAGAATTGCT	0.478													45	116	---	---	---	---	PASS	A	31325029	A	A	31325029	3	1	109	1	0	0	0	0	1	0	0	0	16582	1058	37	2	2090	2	TRPM1	15	31325029	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	3093292	31325029	71206363	148	40614										
MAP1A	4130	broad.mit.edu	37	chr15	43818818	43818818	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcacgagctggatggccaggGggcccgcccacactacactg	13	15	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr15:43818818G>A	uc001zrt.2	+	4	5614	c.5147G>A	c.(5146-5148)GGG>GAG	p.G1716E		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1716						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	GATGGCCAGGGGGCCCGCCCA	0.602													36	34	---	---	---	---	PASS	A	43818818	A	A	43818818	3	1	109	1	0	0	0	0	1	0	0	0	9227	1232	43	3	5149	3	MAP1A	15	43818818	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	12493789	43818818	58712574	149	40615										
TMOD3	29766	broad.mit.edu	37	chr15	52161438	52161438	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cccttctgcctgcagggttcCggcagaagaaccagacatca	10	14	2	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr15:52161438C>G	uc002abm.2	+	3	370	c.151C>G	c.(151-153)CGG>GGG	p.R51G		NM_014547	NP_055362	Q9NYL9	TMOD3_HUMAN	tropomodulin 3 (ubiquitous)	51						cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(1)	1				all cancers(107;0.00194)		TGCAGGGTTCCGGCAGAAGAA	0.448													25	100	---	---	---	---	PASS	G	52161438	G	G	52161438	3	3	109	1	0	0	0	0	1	0	0	0	16232	643	23	4	157	4	TMOD3	15	52161438	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	8342620	52161438	50369954	150	40616										
ONECUT1	3175	broad.mit.edu	37	chr15	53081638	53081638	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcatcccgcatgagcgtgaaGctaccgctcacgttgcccgc	10	16	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr15:53081638G>T	uc002aci.1	-	1	572	c.444C>A	c.(442-444)AGC>AGA	p.S148R		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	148					endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		TGAGCGTGAAGCTACCGCTCA	0.493													9	84	---	---	---	---	PASS	T	53081638	T	T	53081638	3	4	109	1	0	0	0	0	1	0	0	0	10868	962	34	3	961	3	ONECUT1	15	53081638	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	920200	53081638	49449754	151	40617										
TLN2	83660	broad.mit.edu	37	chr15	63111814	63111814	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcatccaggcggcggaagccAtgaaaggtaggctggattct	14	9	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr15:63111814A>G	uc002alb.3	+	50	6871	c.6871A>G	c.(6871-6873)ATG>GTG	p.M2291V	TLN2_uc002alc.3_Missense_Mutation_p.M684V|TLN2_uc010uic.1_5'Flank	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	2291					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GGCGGAAGCCATGAAAGGTAG	0.572													37	20	---	---	---	---	PASS	G	63111814	G	G	63111814	3	3	109	1	0	0	0	0	1	0	0	0	15945	217	8	5	7069	5	TLN2	15	63111814	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	10030176	63111814	39419578	152	40618										
TLE3	7090	broad.mit.edu	37	chr15	70351076	70351076	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggcagggctggtgggggcatCttttttcaggctacgggcct	17	9	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr15:70351076C>G	uc002asm.2	-	11	1963	c.844G>C	c.(844-846)GAT>CAT	p.D282H	TLE3_uc002ask.2_Missense_Mutation_p.D226H|TLE3_uc002asl.2_Missense_Mutation_p.D287H|TLE3_uc010ukd.1_Missense_Mutation_p.D275H|TLE3_uc010bik.1_Intron|TLE3_uc010bil.1_Missense_Mutation_p.D282H|TLE3_uc002asn.2_Missense_Mutation_p.D282H|TLE3_uc002asp.2_Missense_Mutation_p.D282H|TLE3_uc002aso.2_Missense_Mutation_p.D282H	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	282	Pro/Ser-rich.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						GTGGGGGCATCTTTTTTCAGG	0.597													7	17	---	---	---	---	PASS	G	70351076	G	G	70351076	3	3	109	1	0	0	0	0	1	0	0	0	15937	913	32	2	1514	2	TLE3	15	70351076	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	7239262	70351076	32180316	153	40619										
ZNF774	342132	broad.mit.edu	37	chr15	90897929	90897929	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cagggaagagtgggttacctGgacactgcttagagaatcct	13	8	0	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr15:90897929G>A	uc002bpk.3	+	2	223	c.37G>A	c.(37-39)GGA>AGA	p.G13R		NM_001004309	NP_001004309	Q6NX45	ZN774_HUMAN	zinc finger protein 774	13	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(11;0.00551)|Lung NSC(78;0.0158)|all_lung(78;0.0331)		BRCA - Breast invasive adenocarcinoma(143;0.0224)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			TGGGTTACCTGGACACTGCTT	0.448													8	27	---	---	---	---	PASS	A	90897929	A	A	90897929	3	1	109	1	0	0	0	0	1	0	0	0	18144	1349	47	3	39	3	ZNF774	15	90897929	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	20546853	90897929	11633463	154	40620										
MAPK8IP3	23162	broad.mit.edu	37	chr16	1816271	1816271	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcaacccgtcccagtccacaGaggaggccacagaggccacg	11	16	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr16:1816271G>A	uc002cmk.2	+	22	2797	c.2677G>A	c.(2677-2679)GAG>AAG	p.E893K	MAPK8IP3_uc002cml.2_Missense_Mutation_p.E887K|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.E894K	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	893					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						CCAGTCCACAGAGGAGGCCAC	0.647													11	37	---	---	---	---	PASS	A	1816271	A	A	1816271	3	1	109	1	0	0	0	0	1	0	0	0	9286	943	33	2	2779	2	MAPK8IP3	16	1816271	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08		1816271	88538482	155	40621										
TSC2	7249	broad.mit.edu	37	chr16	2126131	2126131	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	catgtggttcatcaggtgccGcctgcccttccggaaggatt	12	12	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr16:2126131G>A	uc002con.2	+	24	2808	c.2702G>A	c.(2701-2703)CGC>CAC	p.R901H	TSC2_uc010bsd.2_Missense_Mutation_p.R901H|TSC2_uc002coo.2_Missense_Mutation_p.R901H|TSC2_uc010uvv.1_Missense_Mutation_p.R864H|TSC2_uc010uvw.1_Missense_Mutation_p.R852H|TSC2_uc002cop.2_Missense_Mutation_p.R701H	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	901					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				ATCAGGTGCCGCCTGCCCTTC	0.572			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				20	59	---	---	---	---	PASS	A	2126131	A	A	2126131	3	1	109	1	0	0	0	0	1	0	0	0	16603	1087	38	1	2792	1	TSC2	16	2126131	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	309860	2126131	88228622	156	40622										
PKD1	5310	broad.mit.edu	37	chr16	2158510	2158510	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ccccacaggcagcgccagccGcggcagcaccagccgaggcc	13	20	0	0	rs145357945		TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr16:2158510G>A	uc002cos.1	-	15	6867	c.6658C>T	c.(6658-6660)CGG>TGG	p.R2220W	PKD1_uc002cot.1_Missense_Mutation_p.R2220W	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2220	Extracellular (Potential).|REJ.		Missing (in ADPKD1).		calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AGCGCCAGCCGCGGCAGCACC	0.697													14	8	---	---	---	---	PASS	A	2158510	A	A	2158510	3	1	109	1	0	0	0	0	1	0	0	0	11963	1086	38	1	6381	1	PKD1	16	2158510	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	32379	2158510	88196243	157	40623										
CREBBP	1387	broad.mit.edu	37	chr16	3823774	3823774	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtgacacgcctgtttgggctGgcggctgccccatgcccaca	13	15	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr16:3823774G>A	uc002cvv.2	-	13	2645	c.2441C>T	c.(2440-2442)CCA>CTA	p.P814L	CREBBP_uc002cvw.2_Missense_Mutation_p.P776L	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	814					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)		TGTTTGGGCTGGCGGCTGCCC	0.547			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				57	25	---	---	---	---	PASS	A	3823774	A	A	3823774	3	1	109	1	0	0	0	0	1	0	0	0	3861	1348	47	3	4963	3	CREBBP	16	3823774	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	1665264	3823774	86530979	158	40624										
ERN2	10595	broad.mit.edu	37	chr16	23702239	23702239	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aggctctcagaggcgcagctCctcatggctcggtgcgtgtg	15	12	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr16:23702239C>G	uc002dma.3	-	22	3007	c.2838G>C	c.(2836-2838)AGG>AGC	p.R946S	ERN2_uc010bxp.2_Missense_Mutation_p.R894S	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	898	KEN.|Cytoplasmic (Potential).				apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		AGGCGCAGCTCCTCATGGCTC	0.642													10	37	---	---	---	---	PASS	G	23702239	G	G	23702239	3	3	109	1	0	0	0	0	1	0	0	0	5238	854	30	2	90	2	ERN2	16	23702239	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	19878465	23702239	66652514	159	40625										
MYLK3	91807	broad.mit.edu	37	chr16	46766205	46766205	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gccctggctgcacagtcctgCtcaggctcagggtttcccgc	12	16	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr16:46766205C>G	uc002eei.3	-	4	1493	c.1377G>C	c.(1375-1377)GAG>GAC	p.E459D	MYLK3_uc010vge.1_Missense_Mutation_p.E118D|MYLK3_uc002eej.1_Missense_Mutation_p.E118D	NM_182493	NP_872299	Q32MK0	MYLK3_HUMAN	myosin light chain kinase 3	459					cardiac myofibril assembly|cellular response to interleukin-1|positive regulation of sarcomere organization|regulation of vascular permeability involved in acute inflammatory response|sarcomere organization|sarcomerogenesis	cytosol	ATP binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			stomach(2)|skin(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	7		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				CACAGTCCTGCTCAGGCTCAG	0.652													16	49	---	---	---	---	PASS	G	46766205	G	G	46766205	3	3	109	1	0	0	0	0	1	0	0	0	10058	796	28	4	1122	4	MYLK3	16	46766205	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	23063966	46766205	43588548	160	40626										
MMP2	4313	broad.mit.edu	37	chr16	55519555	55519555	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gaacgccgatggggagtactGcaagttccccttcttgttca	11	11	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr16:55519555G>T	uc002ehz.3	+	5	1009	c.698G>T	c.(697-699)TGC>TTC	p.C233F	MMP2_uc010vhd.1_Missense_Mutation_p.C157F|MMP2_uc010ccc.2_Missense_Mutation_p.C183F	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	233	Fibronectin type-II 1.|Collagen-binding.				angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	GGGGAGTACTGCAAGTTCCCC	0.537													43	100	---	---	---	---	PASS	T	55519555	T	T	55519555	3	4	109	1	0	0	0	0	1	0	0	0	9658	1319	46	3	723	3	MMP2	16	55519555	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	8753350	55519555	34835198	161	40627										
CNTNAP4	85445	broad.mit.edu	37	chr16	76461469	76461469	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ccaagggcagaattggaatgCgaatcgaagtgttcggatgt	14	6	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr16:76461469C>T	uc002feu.1	+	6	896	c.511C>T	c.(511-513)CGA>TGA	p.R171*	CNTNAP4_uc002fev.1_Nonsense_Mutation_p.R83*|CNTNAP4_uc010chb.1_Nonsense_Mutation_p.R146*|CNTNAP4_uc002fex.1_Nonsense_Mutation_p.R174*|CNTNAP4_uc002few.2_Nonsense_Mutation_p.R146*	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	171	Extracellular (Potential).|F5/8 type C.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						AATTGGAATGCGAATCGAAGT	0.408													14	39	---	---	---	---	PASS	T	76461469	T	T	76461469	4	4	109	1	0	0	0	0	0	1	0	0	3649	760	27	1	538	1	CNTNAP4	16	76461469	Nonsense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	20941914	76461469	13893284	162	40628										
ITGAE	3682	broad.mit.edu	37	chr17	3680912	3680912	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctcccttgggcgtgagccagGgccgggccacatccacattg	13	15	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:3680912G>T	uc002fwo.3	-	2	176	c.77C>A	c.(76-78)CCC>CAC	p.P26H		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	26	FG-GAP 1.|Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		CGTGAGCCAGGGCCGGGCCAC	0.602													18	65	---	---	---	---	PASS	T	3680912	T	T	3680912	3	4	109	1	0	0	0	0	1	0	0	0	7885	1232	43	3	3582	3	ITGAE	17	3680912	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08		3680912	77514298	163	40629										
GPR172B	55065	broad.mit.edu	37	chr17	4936615	4936615	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gcaggggctcaggattgccaGtgccatcaggtaggccccaa	14	12	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:4936615G>T	uc002gap.3	-	4	1788	c.1075C>A	c.(1075-1077)CTG>ATG	p.L359M	GPR172B_uc002gao.3_Missense_Mutation_p.L359M|GPR172B_uc010ckw.2_Missense_Mutation_p.L237M|GPR172B_uc010ckx.2_Intron	NM_001104577	NP_001098047	Q9NWF4	RFT_HUMAN	G protein-coupled receptor 172B precursor	359	Helical; (Potential).					integral to plasma membrane	receptor activity|riboflavin transporter activity				0						AGGATTGCCAGTGCCATCAGG	0.627													37	74	---	---	---	---	PASS	T	4936615	T	T	4936615	3	4	109	1	0	0	0	0	1	0	0	0	6670	1020	36	3	279	3	GPR172B	17	4936615	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	1255703	4936615	76258595	164	40630										
NEURL4	84461	broad.mit.edu	37	chr17	7227500	7227500	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gcatagacgcccgggggcacGttccaggcagcagggccctg	16	14	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:7227500G>C	uc002gga.1	-	11	1996	c.1989C>G	c.(1987-1989)AAC>AAG	p.N663K	NEURL4_uc002ggb.1_Missense_Mutation_p.N663K|NEURL4_uc002ggc.1_Missense_Mutation_p.N9K	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	663	NHR 3.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						CCGGGGGCACGTTCCAGGCAG	0.667											OREG0024134	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	123	---	---	---	---	PASS	C	7227500	C	C	7227500	3	2	109	1	0	0	0	0	1	0	0	0	10347	1136	40	4	2775	4	NEURL4	17	7227500	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	2290885	7227500	73967710	165	40631										
TP53	7157	broad.mit.edu	37	chr17	7578416	7578416	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtgggggcagcgcctcacaaCctccgtcatgtgctgtgact	13	13	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:7578416C>A	uc002gim.2	-	5	708	c.514G>T	c.(514-516)GTT>TTT	p.V172F	TP53_uc002gig.1_Missense_Mutation_p.V172F|TP53_uc002gih.2_Missense_Mutation_p.V172F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.V40F|TP53_uc010cng.1_Missense_Mutation_p.V40F|TP53_uc002gii.1_Missense_Mutation_p.V40F|TP53_uc010cnh.1_Missense_Mutation_p.V172F|TP53_uc010cni.1_Missense_Mutation_p.V172F|TP53_uc002gij.2_Missense_Mutation_p.V172F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.V79F|TP53_uc002gio.2_Missense_Mutation_p.V40F|TP53_uc010vug.1_Missense_Mutation_p.V133F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	172	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> A (in sporadic cancers; somatic mutation).|V -> I (in sporadic cancers; somatic mutation).|V -> F (in LFS; germline mutation and in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).|V -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.V172F(10)|p.V172D(8)|p.V172I(7)|p.0?(7)|p.V172V(4)|p.V172A(4)|p.V172fs*2(3)|p.V172G(3)|p.V173fs*59(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V172_R174delVVR(1)|p.P151_V173del23(1)|p.S149fs*72(1)|p.E171fs*61(1)|p.V172_E180delVVRRCPHHE(1)|p.T170fs*2(1)|p.E171fs*1(1)|p.T170fs*8(1)|p.V172fs*9(1)|p.H168fs*69(1)|p.E171_H179delEVVRRCPHH(1)|p.E171_V172delEV(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)		CGCCTCACAACCTCCGTCATG	0.662		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)			33	36	---	---	---	---	PASS	A	7578416	A	A	7578416	3	1	109	1	0	0	0	0	1	0	0	0	16378	507	18	3	784	3	TP53	17	7578416	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	350916	7578416	73616794	166	40632										
TRIM16L	147166	broad.mit.edu	37	chr17	18638551	18638551	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	accccactcaaagctggcccTttctggaggctcggggtcta	11	14	3	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:18638551T>C	uc002gug.1	+	10	1512	c.825T>C	c.(823-825)CCT>CCC	p.P275P	TRIM16L_uc010vyf.1_Silent_p.P329P|TRIM16L_uc002guh.1_Silent_p.P275P|TRIM16L_uc010cqg.1_Silent_p.P377P|TRIM16L_uc002gui.1_Silent_p.P275P|TRIM16L_uc010vyg.1_Silent_p.P275P|TRIM16L_uc010vyh.1_3'UTR	NM_001037330	NP_001032407	Q309B1	TR16L_HUMAN	tripartite motif-containing 16-like	275	B30.2/SPRY.					cytoplasm					0						AAGCTGGCCCTTTCTGGAGGC	0.522													17	84	---	---	---	---	PASS	C	18638551	C	C	18638551	2	2	109	1	0	0	0	0	0	0	0	1	16489	1596	56	5		5	TRIM16L	17	18638551	Silent	SNP	T	TCGA-46-6025-01A-11D-1817-08	11060135	18638551	62556659	167	40633										
SSH2	85464	broad.mit.edu	37	chr17	27958769	27958769	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tggcagacagtaaatgggttGtatgactgacaaaaggtgct	13	5	0	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:27958769G>T	uc002heo.1	-	15	3362	c.3362C>A	c.(3361-3363)ACA>AAA	p.T1121K	SSH2_uc010wbh.1_Missense_Mutation_p.T1148K	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1121					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TAAATGGGTTGTATGACTGAC	0.542													25	72	---	---	---	---	PASS	T	27958769	T	T	27958769	3	4	109	1	0	0	0	0	1	0	0	0	15184	1377	48	3	913	3	SSH2	17	27958769	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	9320218	27958769	53236441	168	40634										
CPD	1362	broad.mit.edu	37	chr17	28750565	28750565	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttggaaatatgcatggaaatGaagtggttggaagagaactg	14	2	0	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:28750565G>C	uc002hfb.1	+	6	1714	c.1699G>C	c.(1699-1701)GAA>CAA	p.E567Q	CPD_uc010wbo.1_Missense_Mutation_p.E320Q|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	567	Extracellular (Potential).|Carboxypeptidase-like 2.	Zinc 2 (By similarity).			proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						GCATGGAAATGAAGTGGTTGG	0.358													35	26	---	---	---	---	PASS	C	28750565	C	C	28750565	3	2	109	1	0	0	0	0	1	0	0	0	3798	1291	45	2	1721	2	CPD	17	28750565	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	791796	28750565	52444645	169	40635										
PLXDC1	57125	broad.mit.edu	37	chr17	37228713	37228713	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctgtactcaccgtctcctccTgcatagggattcaacttggt	8	13	3	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:37228713T>G	uc002hrg.2	-	12	1424	c.1212A>C	c.(1210-1212)GCA>GCC	p.A404A	uc002hre.1_Intron|uc002hrf.1_Intron|PLXDC1_uc010cvr.1_Intron|PLXDC1_uc002hrh.2_RNA|PLXDC1_uc002hri.2_RNA|PLXDC1_uc002hrj.1_RNA|PLXDC1_uc002hrk.1_RNA	NM_020405	NP_065138	Q8IUK5	PXDC1_HUMAN	plexin domain containing 1 precursor	404	Extracellular (Potential).				angiogenesis	cytoplasm|extracellular region|integral to membrane|tight junction				ovary(1)|kidney(1)|skin(1)	3						CGTCTCCTCCTGCATAGGGAT	0.527													5	8	---	---	---	---	PASS	G	37228713	G	G	37228713	2	3	109	1	0	0	0	0	0	0	0	1	12117	1567	55	5		5	PLXDC1	17	37228713	Silent	SNP	T	TCGA-46-6025-01A-11D-1817-08	8478148	37228713	43966497	170	40636										
PGAP3	93210	broad.mit.edu	37	chr17	37842247	37842247	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtgacccacatacactcataCttacagtcgtcccgacaggt	7	14	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:37842247C>T	uc002hsj.2	-	2	250	c.207G>A	c.(205-207)AAG>AAA	p.K69K	ERBB2_uc002hsm.2_5'Flank|ERBB2_uc010cwa.2_5'Flank|PGAP3_uc010cvy.2_5'Flank|PGAP3_uc010wej.1_Silent_p.K69K|PGAP3_uc002hsk.2_Silent_p.K69K|PGAP3_uc010cvz.2_Silent_p.K69K|ERBB2_uc002hsl.2_5'Flank	NM_033419	NP_219487	Q96FM1	PGAP3_HUMAN	per1-like domain containing 1 precursor	69	Lumenal (Potential).				GPI anchor biosynthetic process	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	hydrolase activity, acting on ester bonds			upper_aerodigestive_tract(1)	1						TACACTCATACTTACAGTCGT	0.542													13	63	---	---	---	---	PASS	T	37842247	T	T	37842247	2	4	109	1	0	0	0	0	0	0	0	1	11779	564	20	3		3	PGAP3	17	37842247	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	613534	37842247	43352963	171	40637										
KRT32	3882	broad.mit.edu	37	chr17	39619203	39619203	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	caggtcagcccggatctcagCcagctgggcctcaacgttgg	13	14	3	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:39619203C>T	uc002hwr.2	-	6	1157	c.1096G>A	c.(1096-1098)GCT>ACT	p.A366T		NM_002278	NP_002269	Q14532	K1H2_HUMAN	keratin 32	366	Coil 2.|Rod.				epidermis development	intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000812)				CGGATCTCAGCCAGCTGGGCC	0.647													15	163	---	---	---	---	PASS	T	39619203	T	T	39619203	3	4	109	1	0	0	0	0	1	0	0	0	8468	739	26	3	258	3	KRT32	17	39619203	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	1776956	39619203	41576007	172	40638										
GFAP	2670	broad.mit.edu	37	chr17	42992539	42992539	+	Missense_Mutation	SNP	C	A	A													0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cagcttggtgggctccttggCccgcagctggttcagctcag							TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:42992539C>A	uc002ihq.2	-	1	376	c.316G>T	c.(316-318)GCC>TCC	p.A106S	GFAP_uc002ihr.2_Missense_Mutation_p.A106S|GFAP_uc010wjg.1_RNA	NM_002055	NP_002046	P14136	GFAP_HUMAN	glial fibrillary acidic protein isoform 1	106	Linker 1.|Rod.					cytoplasm|intermediate filament	structural constituent of cytoskeleton			ovary(1)|pancreas(1)	2		Prostate(33;0.0959)				GGCTCCTTGGCCCGCAGCTGG	0.617													20	134	---	---	---	---	PASS	A	42992539	A	A	42992539	3	1	109	1	0	0	0	0	1	0	0	0	6337	739	26	3	1147	3	GFAP	17	42992539	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	3373336	42992539	38202671	173	40639	761	2								
GFAP	2670	broad.mit.edu	37	chr17	42992540	42992540	+	Silent	SNP	C	G	G													0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	agcttggtgggctccttggcCcgcagctggttcagctcagc							TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:42992540C>G	uc002ihq.2	-	1	375	c.315G>C	c.(313-315)CGG>CGC	p.R105R	GFAP_uc002ihr.2_Silent_p.R105R|GFAP_uc010wjg.1_RNA	NM_002055	NP_002046	P14136	GFAP_HUMAN	glial fibrillary acidic protein isoform 1	105	Linker 1.|Rod.					cytoplasm|intermediate filament	structural constituent of cytoskeleton			ovary(1)|pancreas(1)	2		Prostate(33;0.0959)				GCTCCTTGGCCCGCAGCTGGT	0.617													20	136	---	---	---	---	PASS	G	42992540	G	G	42992540	2	3	109	1	0	0	0	0	0	0	0	1	6337	610	22	4		4	GFAP	17	42992540	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	1	42992540	38202670	174	40640	761	2								
KIF2B	84643	broad.mit.edu	37	chr17	51902198	51902198	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttgaagaggttgaaacattaCccactctgttagggaaggat	11	6	1	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:51902198C>T	uc002iua.2	+	1	1960	c.1804C>T	c.(1804-1806)CCC>TCC	p.P602S	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	602					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TGAAACATTACCCACTCTGTT	0.423													62	134	---	---	---	---	PASS	T	51902198	T	T	51902198	3	4	109	1	0	0	0	0	1	0	0	0	8298	507	18	3	1806	3	KIF2B	17	51902198	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	8909658	51902198	29293012	175	40641										
LPO	4025	broad.mit.edu	37	chr17	56329601	56329601	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	atgcatgcctttcttccgagCtgggttcgtctgccccactc	9	15	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:56329601C>G	uc002ivt.2	+	8	1155	c.839C>G	c.(838-840)GCT>GGT	p.A280G	LPO_uc010wns.1_Missense_Mutation_p.A221G|LPO_uc010dcp.2_Missense_Mutation_p.A197G|LPO_uc010dcq.2_Intron|LPO_uc010dcr.2_5'UTR	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	280					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						TTCTTCCGAGCTGGGTTCGTC	0.592													17	81	---	---	---	---	PASS	G	56329601	G	G	56329601	3	3	109	1	0	0	0	0	1	0	0	0	8922	797	28	4	865	4	LPO	17	56329601	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	4427403	56329601	24865609	176	40642										
MRC2	9902	broad.mit.edu	37	chr17	60759627	60759627	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gaccagaggtgcctgacagcCttgccctacatctgcaagcg	11	14	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:60759627C>A	uc002jad.2	+	20	3237	c.2835C>A	c.(2833-2835)GCC>GCA	p.A945A	MRC2_uc002jae.2_Silent_p.A16A|MRC2_uc002jaf.2_5'UTR	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	945	Extracellular (Potential).|C-type lectin 5.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GCCTGACAGCCTTGCCCTACA	0.562													19	8	---	---	---	---	PASS	A	60759627	A	A	60759627	2	1	109	1	0	0	0	0	0	0	0	1	9758	668	24	3		3	MRC2	17	60759627	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	4430026	60759627	20435583	177	40643										
GH2	2689	broad.mit.edu	37	chr17	61958797	61958797	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttgtcaaaaagcctggataaGggaatggttgggaaggcact	14	5	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:61958797G>A	uc002jco.1	-	2	155	c.93C>T	c.(91-93)CCC>CCT	p.P31P	GH2_uc002jcj.2_Silent_p.P31P|CSH2_uc002jck.2_Intron|GH2_uc002jcl.1_Silent_p.P31P|GH2_uc002jcm.1_Silent_p.P31P|GH2_uc002jcn.1_Silent_p.P31P	NM_002059	NP_002050	P01242	SOM2_HUMAN	growth hormone 2 isoform 1	31						extracellular region	hormone activity			upper_aerodigestive_tract(2)|pancreas(1)	3						GCCTGGATAAGGGAATGGTTG	0.582													39	290	---	---	---	---	PASS	A	61958797	A	A	61958797	2	1	109	1	0	0	0	0	0	0	0	1	6368	987	35	3		3	GH2	17	61958797	Silent	SNP	G	TCGA-46-6025-01A-11D-1817-08	1199170	61958797	19236413	178	40644										
BPTF	2186	broad.mit.edu	37	chr17	65850532	65850532	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tagagaacaagatcaaagttCtacagtttctagtcgatcag	8	7	4	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:65850532C>T	uc002jgf.2	+	2	1151	c.1090C>T	c.(1090-1092)CTA>TTA	p.L364L	BPTF_uc002jge.2_Silent_p.L364L|BPTF_uc010wqm.1_Silent_p.L364L	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	364					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			GATCAAAGTTCTACAGTTTCT	0.433													31	157	---	---	---	---	PASS	T	65850532	T	T	65850532	2	4	109	1	0	0	0	0	0	0	0	1	1495	912	32	2		2	BPTF	17	65850532	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	3891735	65850532	15344678	179	40645										
CD300C	10871	broad.mit.edu	37	chr17	72539080	72539080	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggcagcttcgtgggaggaccTgaggtgcccatggagctctg	17	10	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:72539080T>A	uc002jky.1	-	3	808	c.447A>T	c.(445-447)TCA>TCT	p.S149S		NM_006678	NP_006669	Q08708	CLM6_HUMAN	CD300C antigen precursor	149	Pro-rich.|Extracellular (Potential).				cellular defense response	integral to plasma membrane	transmembrane receptor activity				0						TGGGAGGACCTGAGGTGCCCA	0.632													21	138	---	---	---	---	PASS	A	72539080	A	A	72539080	2	1	109	1	0	0	0	0	0	0	0	1	2997	1567	55	5		5	CD300C	17	72539080	Silent	SNP	T	TCGA-46-6025-01A-11D-1817-08	6688548	72539080	8656130	180	40646										
RNF213	57674	broad.mit.edu	37	chr17	78317711	78317711	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcctcattttacaatacttaAtggatataaatgggaaaatg	6	5	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr17:78317711A>G	uc002jyh.1	+	3	680	c.457A>G	c.(457-459)ATG>GTG	p.M153V		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)			ACAATACTTAATGGATATAAA	0.458													35	204	---	---	---	---	PASS	G	78317711	G	G	78317711	3	3	109	1	0	0	0	0	1	0	0	0	13477	101	4	5	6663	5	RNF213	17	78317711	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	5778631	78317711	2877499	181	40647										
SMCHD1	23347	broad.mit.edu	37	chr18	2656159	2656159	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gcgtcggccacaggacggtgTacttgtttgatcggcgcgaa	15	10	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr18:2656159T>A	uc002klm.3	+	1	274	c.85T>A	c.(85-87)TAC>AAC	p.Y29N		NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	29					chromosome organization		ATP binding				0						CAGGACGGTGTACTTGTTTGA	0.667													11	6	---	---	---	---	PASS	A	2656159	A	A	2656159	3	1	109	1	0	0	0	0	1	0	0	0	14788	1638	57	5	87	5	SMCHD1	18	2656159	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08		2656159	75421089	182	40648										
C18orf34	374864	broad.mit.edu	37	chr18	30926220	30926220	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttgaagtttccagactgaccAagagtcaattttcatgttaa	7	7	2	4			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr18:30926220A>G	uc002kxn.2	-	8	755	c.613T>C	c.(613-615)TGG>CGG	p.W205R	C18orf34_uc010xbr.1_Missense_Mutation_p.W205R|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.W205R|C18orf34_uc002kxp.2_Missense_Mutation_p.W205R	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	205										ovary(1)	1						CAGACTGACCAAGAGTCAATT	0.368													40	35	---	---	---	---	PASS	G	30926220	G	G	30926220	3	3	109	1	0	0	0	0	1	0	0	0	1902	130	5	5	2050	5	C18orf34	18	30926220	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	28270061	30926220	47151028	183	40649										
SLC14A2	8170	broad.mit.edu	37	chr18	43204660	43204660	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cccacagcagtcctctcctgCcagagccactttccagcaga	7	18	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr18:43204660C>A	uc010dnj.2	+	3	352	c.31C>A	c.(31-33)CCA>ACA	p.P11T	SLC14A2_uc002lbb.2_Missense_Mutation_p.P11T|SLC14A2_uc002lbe.2_Missense_Mutation_p.P11T	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	11						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						TCCTCTCCTGCCAGAGCCACT	0.567													31	37	---	---	---	---	PASS	A	43204660	A	A	43204660	3	1	109	1	0	0	0	0	1	0	0	0	14397	739	26	3	33	3	SLC14A2	18	43204660	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	12278440	43204660	34872588	184	40650										
KEAP1	9817	broad.mit.edu	37	chr19	10610487	10610487	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cagtgtgacgtcacacagctGctggctgagccgcagctcgt	13	13	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr19:10610487G>A	uc002moq.1	-	2	379	c.223C>T	c.(223-225)CAG>TAG	p.Q75*	KEAP1_uc002mor.1_Nonsense_Mutation_p.Q75*	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	75					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			TCACACAGCTGCTGGCTGAGC	0.607													38	33	---	---	---	---	PASS	A	10610487	A	A	10610487	4	1	109	1	0	0	0	0	0	1	0	0	8141	1328	46	3	1671	3	KEAP1	19	10610487	Nonsense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08		10610487	48518496	185	40651										
RAB3D	9545	broad.mit.edu	37	chr19	11446165	11446165	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gccatcctcagcaggcacaaCacgttcgtcctccaggtcac	8	17	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr19:11446165C>A	uc002mqy.2	-	4	668	c.430G>T	c.(430-432)GTT>TTT	p.V144F		NM_004283	NP_004274	O95716	RAB3D_HUMAN	RAB3D, member RAS oncogene family	144					exocytosis|protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(2)	2						GCAGGCACAACACGTTCGTCC	0.617													13	24	---	---	---	---	PASS	A	11446165	A	A	11446165	3	1	109	1	0	0	0	0	1	0	0	0	12934	478	17	3	237	3	RAB3D	19	11446165	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	835678	11446165	47682818	186	40652										
AP1M1	8907	broad.mit.edu	37	chr19	16318920	16318920	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgctggacgagctcatggacTtcggctacccccagaccacc	10	16	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr19:16318920T>C	uc002ndu.2	+	4	531	c.358T>C	c.(358-360)TTC>CTC	p.F120L	AP1M1_uc002ndv.2_Missense_Mutation_p.F120L|AP1M1_uc010xpd.1_Missense_Mutation_p.F120L	NM_032493	NP_115882	Q9BXS5	AP1M1_HUMAN	adaptor-related protein complex 1, mu 1 subunit	120					cellular membrane organization|endosome to melanosome transport|interspecies interaction between organisms|intracellular protein transport|melanosome organization|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding			ovary(3)|breast(1)	4						GCTCATGGACTTCGGCTACCC	0.602													44	43	---	---	---	---	PASS	C	16318920	C	C	16318920	3	2	109	1	0	0	0	0	1	0	0	0	734	1609	56	5	372	5	AP1M1	19	16318920	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	4872755	16318920	42810063	187	40653										
SF4	57794	broad.mit.edu	37	chr19	19389509	19389509	+	Frame_Shift_Del	DEL	T	-	-													0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cctggctcaccttcagggccTtgaaggtctccataaacttt							TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr19:19389509delT	uc002nmh.2	-	11	1627	c.1625delA	c.(1624-1626)AAGfs	p.K542fs	SF4_uc002nmf.2_Frame_Shift_Del_p.K92fs|SF4_uc002nmg.2_Frame_Shift_Del_p.K92fs|SF4_uc002nmi.2_Frame_Shift_Del_p.K332fs|SF4_uc002nmj.2_Frame_Shift_Del_p.K332fs|SF4_uc002nme.2_Frame_Shift_Del_p.K92fs	NM_172231	NP_757386	Q8IWZ8	SUGP1_HUMAN	splicing factor 4	542					nuclear mRNA splicing, via spliceosome	nucleoplasm|spliceosomal complex	RNA binding				0						CTTCAGGGCCTTGAAGGTCTC	0.612													14	8	---	---	---	---		-	19389509	-	-	19389509	7	5	109	1	0	1	0	1	0	0	0	0	14155	1609	56	0	328	0	SF4	19	19389509	Frame_Shift_Del	DEL	T	TCGA-46-6025-01A-11D-1817-08	3070589	19389509	39739474	188	40654										
ZNF254	9534	broad.mit.edu	37	chr19	24288805	24288805	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aggagtggcaacacctggacAttgcacagcagaatttatat	10	8	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr19:24288805A>T	uc002nru.2	+	2	228	c.94A>T	c.(94-96)ATT>TTT	p.I32F	ZNF254_uc010xrk.1_Intron|ZNF254_uc002nrt.1_RNA	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	32	KRAB.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				ACACCTGGACATTGCACAGCA	0.403													39	144	---	---	---	---	PASS	T	24288805	T	T	24288805	3	4	109	1	0	0	0	0	1	0	0	0	17795	217	8	5	100	5	ZNF254	19	24288805	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	4899296	24288805	34840178	189	40655										
ZNF585B	92285	broad.mit.edu	37	chr19	37678108	37678108	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggaagctggtttataaccgaTgatttttctatgttgattat	9	4	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr19:37678108T>C	uc002ofq.2	-	5	585	c.331A>G	c.(331-333)ATC>GTC	p.I111V	ZNF585B_uc002ofr.1_5'UTR	NM_152279	NP_689492	Q52M93	Z585B_HUMAN	zinc finger protein 585B	111					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)			TTATAACCGATGATTTTTCTA	0.353													22	86	---	---	---	---	PASS	C	37678108	C	C	37678108	3	2	109	1	0	0	0	0	1	0	0	0	18015	1464	51	5	1982	5	ZNF585B	19	37678108	Missense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	13389303	37678108	21450875	190	40656										
HIPK4	147746	broad.mit.edu	37	chr19	40885636	40885636	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctggctcactcagccattctCcaggacagctgctggggtcg	12	14	3	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr19:40885636C>A	uc002onp.2	-	4	1994	c.1709G>T	c.(1708-1710)GGA>GTA	p.G570V		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	570						cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			CAGCCATTCTCCAGGACAGCT	0.647													7	39	---	---	---	---	PASS	A	40885636	A	A	40885636	3	1	109	1	0	0	0	0	1	0	0	0	7119	855	30	2	145	2	HIPK4	19	40885636	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	3207528	40885636	18243347	191	40657										
ZNF285	26974	broad.mit.edu	37	chr19	44891507	44891507	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgatatctgggaaggtctgaGctctgtttgcagcccatagg	13	8	3	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr19:44891507G>C	uc002ozd.3	-	4	987	c.900C>G	c.(898-900)AGC>AGG	p.S300R	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Missense_Mutation_p.S307R	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	300					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						GAAGGTCTGAGCTCTGTTTGC	0.468													74	151	---	---	---	---	PASS	C	44891507	C	C	44891507	3	2	109	1	0	0	0	0	1	0	0	0	17819	962	34	4	876	4	ZNF285	19	44891507	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	4005871	44891507	14237476	192	40658										
PRKD2	25865	broad.mit.edu	37	chr19	47200993	47200993	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ccgccccggccactcaccagCgtgtccttgttgctgtaatg	10	16	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr19:47200993C>G	uc002pfh.2	-	9	1578	c.1236G>C	c.(1234-1236)ACG>ACC	p.T412T	PRKD2_uc002pfe.2_5'Flank|PRKD2_uc002pff.2_5'Flank|PRKD2_uc002pfg.2_Silent_p.T255T|PRKD2_uc002pfi.2_Silent_p.T412T|PRKD2_uc002pfj.2_Silent_p.T412T|PRKD2_uc010xye.1_Silent_p.T412T|PRKD2_uc002pfk.2_Silent_p.T255T	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	412	PH.				cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		cACTCACCAGCGTGTCCTTGT	0.323													27	78	---	---	---	---	PASS	G	47200993	G	G	47200993	2	3	109	1	0	0	0	0	0	0	0	1	12519	755	27	4		4	PRKD2	19	47200993	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	2309486	47200993	11927990	193	40659										
NUP62	23636	broad.mit.edu	37	chr19	50412728	50412728	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gctgctgcccagcccaaagcCgctggggtttgccatggctg	14	14	0	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr19:50412728C>G	uc002pqx.2	-	2	441	c.337G>C	c.(337-339)GGC>CGC	p.G113R	IL4I1_uc002pqv.1_Intron|IL4I1_uc010eno.1_Intron|IL4I1_uc002pqw.1_Intron|IL4I1_uc002pqu.1_Intron|NUP62_uc002pqy.2_Missense_Mutation_p.G113R|NUP62_uc002pqz.2_Missense_Mutation_p.G113R|NUP62_uc002pra.2_Missense_Mutation_p.G113R|NUP62_uc002prb.2_Missense_Mutation_p.G113R|NUP62_uc002prc.2_Missense_Mutation_p.G113R	NM_153719	NP_714941	P37198	NUP62_HUMAN	nucleoporin 62kDa	113	15 X 9 AA approximate repeats.|Thr-rich.|8.				carbohydrate metabolic process|cell death|cell surface receptor linked signaling pathway|glucose transport|hormone-mediated signaling pathway|mRNA transport|negative regulation of apoptosis|negative regulation of cell proliferation|nucleocytoplasmic transport|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|protein transport|regulation of glucose transport|transcription, DNA-dependent|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleocytoplasmic shuttling complex|ribonucleoprotein complex|spindle pole	chromatin binding|protein serine/threonine kinase activity|receptor signaling complex scaffold activity|SH2 domain binding|structural constituent of nuclear pore|thyroid hormone receptor binding|ubiquitin binding				0		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00242)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		AGCCCAAAGCCGCTGGGGTTT	0.592													108	40	---	---	---	---	PASS	G	50412728	G	G	50412728	3	3	109	1	0	0	0	0	1	0	0	0	10768	652	23	4	1235	4	NUP62	19	50412728	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	3211735	50412728	8716255	194	40660										
DEFB127	140850	broad.mit.edu	37	chr20	139433	139433	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	agtaaccgaacaacttaagaAgtgctggaataactatgtac	8	7	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr20:139433A>T	uc002wcy.1	+	2	68	c.68A>T	c.(67-69)AAG>ATG	p.K23M		NM_139074	NP_620713	Q9H1M4	DB127_HUMAN	defensin, beta 127 preproprotein	23					defense response to bacterium|innate immune response	extracellular region					0		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			CAACTTAAGAAGTGCTGGAAT	0.418													3	29	---	---	---	---	PASS	T	139433	T	T	139433	3	4	109	1	0	0	0	0	1	0	0	0	4413	72	3	5	74	5	DEFB127	20	139433	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08		139433	62886087	195	40661										
HCK	3055	broad.mit.edu	37	chr20	30674582	30674582	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtggtcaccaaggagcccatCtacatcatcacggagttcat	9	12	5	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr20:30674582C>G	uc002wxh.2	+	9	1158	c.987C>G	c.(985-987)ATC>ATG	p.I329M	HCK_uc010gdy.2_Missense_Mutation_p.I308M|HCK_uc002wxi.2_Missense_Mutation_p.I307M	NM_002110	NP_002101	P08631	HCK_HUMAN	hemopoietic cell kinase isoform p61HCK	329	Protein kinase.				interspecies interaction between organisms|mesoderm development|regulation of defense response to virus by virus|viral reproduction	caveola|cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|ovary(2)|central_nervous_system(2)|pancreas(1)	9			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			AGGAGCCCATCTACATCATCA	0.587													17	56	---	---	---	---	PASS	G	30674582	G	G	30674582	3	3	109	1	0	0	0	0	1	0	0	0	6994	903	32	2	1027	2	HCK	20	30674582	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	30535149	30674582	32350938	196	40662										
LPIN3	64900	broad.mit.edu	37	chr20	39978997	39978997	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgggccactctggaggttccAgttcccaccgggcagccaga	13	14	1	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr20:39978997A>T	uc002xjx.2	+	7	1153	c.1062A>T	c.(1060-1062)CCA>CCT	p.P354P	LPIN3_uc010ggh.2_Silent_p.P355P|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	354					fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				TGGAGGTTCCAGTTCCCACCG	0.642													9	23	---	---	---	---	PASS	T	39978997	T	T	39978997	2	4	109	1	0	0	0	0	0	0	0	1	8920	175	7	5		5	LPIN3	20	39978997	Silent	SNP	A	TCGA-46-6025-01A-11D-1817-08	9304415	39978997	23046523	197	40663										
CHD6	84181	broad.mit.edu	37	chr20	40043905	40043905	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	catgtttccgcctccctctcCgcctcctcgtggctgcatca	7	19	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr20:40043905C>A	uc002xka.1	-	34	7038	c.6860G>T	c.(6859-6861)CGG>CTG	p.R2287L	CHD6_uc002xjz.1_5'Flank	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2287	Poly-Arg.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				CCTCCCTCTCCGCCTCCTCGT	0.517													54	106	---	---	---	---	PASS	A	40043905	A	A	40043905	3	1	109	1	0	0	0	0	1	0	0	0	3329	652	23	1	1303	1	CHD6	20	40043905	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	64908	40043905	22981615	198	40664										
CSE1L	1434	broad.mit.edu	37	chr20	47683023	47683023	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgttattaatggagtcctccGtacagcacattcattattta	6	8	1	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr20:47683023G>A	uc002xty.2	+	5	586	c.452G>A	c.(451-453)CGT>CAT	p.R151H	CSE1L_uc010zyg.1_Intron|CSE1L_uc010ghx.2_Missense_Mutation_p.R151H	NM_001316	NP_001307	P55060	XPO2_HUMAN	CSE1 chromosome segregation 1-like protein	151					apoptosis|cell proliferation|intracellular protein transport	cytoplasm|nucleus	importin-alpha export receptor activity			large_intestine(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000491)|Colorectal(8;0.198)			GGAGTCCTCCGTACAGCACAT	0.343													3	58	---	---	---	---	PASS	A	47683023	A	A	47683023	3	1	109	1	0	0	0	0	1	0	0	0	3930	1145	40	1	466	1	CSE1L	20	47683023	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	7639118	47683023	15342497	199	40665										
ZNF512B	57473	broad.mit.edu	37	chr20	62598349	62598349	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcatccttccagtcgttcatCagggagagctaggcgtgggg	14	10	3	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr20:62598349C>A	uc002yhl.1	-	4	327	c.273G>T	c.(271-273)CTG>CTT	p.L91L		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	91					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					AGTCGTTCATCAGGGAGAGCT	0.637													13	96	---	---	---	---	PASS	A	62598349	A	A	62598349	2	1	109	1	0	0	0	0	0	0	0	1	17954	813	29	2		2	ZNF512B	20	62598349	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08	14915326	62598349	427171	200	40666										
DOPEY2	9980	broad.mit.edu	37	chr21	37618877	37618877	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ttgccctacttcggaaagtcCctgggctggacggtgacacc	12	13	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr21:37618877C>G	uc002yvg.2	+	19	4678	c.4599C>G	c.(4597-4599)TCC>TCG	p.S1533S	DOPEY2_uc011aeb.1_Silent_p.S1482S|DOPEY2_uc002yvh.2_Silent_p.S384S	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	1533					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						TCGGAAAGTCCCTGGGCTGGA	0.552													39	57	---	---	---	---	PASS	G	37618877	G	G	37618877	2	3	109	1	0	0	0	0	0	0	0	1	4708	610	22	4		4	DOPEY2	21	37618877	Silent	SNP	C	TCGA-46-6025-01A-11D-1817-08		37618877	10511018	201	40667										
ZNRF3	84133	broad.mit.edu	37	chr22	29445798	29445820	+	Frame_Shift_Del	DEL	GGCCGACTGCCCAGGCAGCGACA	-	-													0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcggtgtgcagtggctacctGgccgactgcccaggcagcga							TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr22:29445798_29445820delGGCCGACTGCCCAGGCAGCGACA	uc003aeg.2	+	8	1494_1516	c.1329_1351delGGCCGACTGCCCAGGCAGCGACA	c.(1327-1353)CTGGCCGACTGCCCAGGCAGCGACAGCfs	p.L443fs	ZNRF3_uc003aeh.1_Frame_Shift_Del_p.L443fs	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	543_551	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						GTGGCTACCTGGCCGACTGCCCAGgcagcgacagcagcagcag	0.587													33	19	---	---	---	---		-	29445820	-	-	29445798	7	5	109	1	0	1	0	1	0	0	0	0	18210	1335	47	0	1355	0	ZNRF3	22	29445798	Frame_Shift_Del	DEL	GGCCGACTGCCCAGGCAGCGACA	TCGA-46-6025-01A-11D-1817-08		29445798	21858768	202	40668										
MTMR3	8897	broad.mit.edu	37	chr22	30415746	30415746	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tgcaggaggccaccaaagagGagagtggagtagaggaacct	16	7	0	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr22:30415746G>T	uc003agv.3	+	17	2426	c.2098G>T	c.(2098-2100)GAG>TAG	p.E700*	MTMR3_uc003agu.3_Nonsense_Mutation_p.E700*|MTMR3_uc003agw.3_Nonsense_Mutation_p.E700*	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	700					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			CACCAAAGAGGAGAGTGGAGT	0.577													38	81	---	---	---	---	PASS	T	30415746	T	T	30415746	4	4	109	1	0	0	0	0	0	1	0	0	9945	1175	41	2	2156	2	MTMR3	22	30415746	Nonsense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	969948	30415746	20888820	203	40669										
PES1	23481	broad.mit.edu	37	chr22	30977576	30977576	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	agttgacaaagcccagcagcGtggtgtagaactcggtgaag	14	8	0	3	rs142214789	by1000genomes	TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr22:30977576G>C	uc003aij.1	-	7	760	c.686C>G	c.(685-687)ACG>AGG	p.T229R	PES1_uc003aik.1_Missense_Mutation_p.T229R|PES1_uc003ail.1_Missense_Mutation_p.T212R|PES1_uc003aim.1_Missense_Mutation_p.T229R|PES1_uc003ain.1_Missense_Mutation_p.T90R|PES1_uc003aio.1_Missense_Mutation_p.T90R	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain	229	Sufficient for nucleolar localization.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						GCCCAGCAGCGTGGTGTAGAA	0.597													4	39	---	---	---	---	PASS	C	30977576	C	C	30977576	3	2	109	1	0	0	0	0	1	0	0	0	11733	1145	40	4	1116	4	PES1	22	30977576	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	561830	30977576	20326990	204	40670										
SFI1	9814	broad.mit.edu	37	chr22	32009832	32009832	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ggctgctgaggagccccacgCcctggagctgtgagtagcct	15	13	0	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr22:32009832C>G	uc003ale.2	+	27	3380	c.2987C>G	c.(2986-2988)GCC>GGC	p.A996G	SFI1_uc003alf.2_Missense_Mutation_p.A965G|SFI1_uc003alg.2_Missense_Mutation_p.A914G|SFI1_uc011alp.1_Missense_Mutation_p.A902G|SFI1_uc011alq.1_Missense_Mutation_p.A941G|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_RNA|SFI1_uc003ali.2_5'Flank|SFI1_uc003alj.2_5'Flank	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	996					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						GAGCCCCACGCCCTGGAGCTG	0.637											OREG0003527	type=REGULATORY REGION|Gene=SFI1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	12	32	---	---	---	---	PASS	G	32009832	G	G	32009832	3	3	109	1	0	0	0	0	1	0	0	0	14156	739	26	4	3089	4	SFI1	22	32009832	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	1032256	32009832	19294734	205	40671										
RASD2	23551	broad.mit.edu	37	chr22	35942906	35942906	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cacgctcagtgtgcccgccaAaaactcataccgcatggtgg	10	14	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr22:35942906A>C	uc003anx.2	+	2	255	c.50A>C	c.(49-51)AAA>ACA	p.K17T	RASD2_uc003any.2_Missense_Mutation_p.K17T	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	17					locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3						GTGCCCGCCAAAAACTCATAC	0.607													6	16	---	---	---	---	PASS	C	35942906	C	C	35942906	3	2	109	1	0	0	0	0	1	0	0	0	13067	14	1	5	52	5	RASD2	22	35942906	Missense_Mutation	SNP	A	TCGA-46-6025-01A-11D-1817-08	3933074	35942906	15361660	206	40672										
MGAT3	4248	broad.mit.edu	37	chr22	39883552	39883552	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cagccccgagccaggaggccCtgacctgctgcgtaccccac	11	19	0	1	rs62230587		TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr22:39883552C>T	uc003axv.3	+	2	439	c.200C>T	c.(199-201)CCT>CTT	p.P67L	MGAT3_uc010gxy.2_Missense_Mutation_p.P67L	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	67	Lumenal (Potential).|Pro-rich.				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					CCAGGAGGCCCTGACCTGCTG	0.682													20	88	---	---	---	---	PASS	T	39883552	T	T	39883552	3	4	109	1	0	0	0	0	1	0	0	0	9544	681	24	3	202	3	MGAT3	22	39883552	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	3940646	39883552	11421014	207	40673										
NAGA	4668	broad.mit.edu	37	chr22	42463813	42463813	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	atgagggaagcgcttgggatCcggcatcaggcggccactgg	17	10	1	1	rs73167107	byFrequency	TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr22:42463813C>T	uc003bbx.2	-	4	417	c.280G>A	c.(280-282)GAT>AAT	p.D94N	NAGA_uc003bby.2_Missense_Mutation_p.D94N|NAGA_uc003bbw.3_Missense_Mutation_p.D94N	NM_000262	NP_000253	P17050	NAGAB_HUMAN	alpha-N-acetylgalactosaminidase precursor	94					glycoside catabolic process|glycosylceramide catabolic process|oligosaccharide metabolic process	lysosome	alpha-galactosidase activity|alpha-N-acetylgalactosaminidase activity|cation binding|protein homodimerization activity			central_nervous_system(1)	1						CGCTTGGGATCCGGCATCAGG	0.617													27	137	---	---	---	---	PASS	T	42463813	T	T	42463813	3	4	109	1	0	0	0	0	1	0	0	0	10141	855	30	2	983	2	NAGA	22	42463813	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	2580261	42463813	8840753	208	40674										
SMC1B	27127	broad.mit.edu	37	chr22	45795100	45795100	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cagggcttttatatcatcttCctgtttagaacattgttttt	6	7	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr22:45795100C>G	uc003bgc.2	-	6	1040	c.988G>C	c.(988-990)GAA>CAA	p.E330Q	SMC1B_uc003bgd.2_Missense_Mutation_p.E330Q|SMC1B_uc003bge.1_Missense_Mutation_p.E113Q	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	330	Potential.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		ATATCATCTTCCTGTTTAGAA	0.363													30	132	---	---	---	---	PASS	G	45795100	G	G	45795100	3	3	109	1	0	0	0	0	1	0	0	0	14782	864	30	2	2799	2	SMC1B	22	45795100	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	3331287	45795100	5509466	209	40675										
CERK	64781	broad.mit.edu	37	chr22	47089354	47089354	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	caaaccatacagtgctttctTctgctcctcctccagctgct	5	16	2	0			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chr22:47089354T>A	uc003bia.2	-	10	1203	c.1096A>T	c.(1096-1098)AAG>TAG	p.K366*	CERK_uc010hae.2_Nonsense_Mutation_p.K168*	NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	366					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		AGTGCTTTCTTCTGCTCCTCC	0.488													22	104	---	---	---	---	PASS	A	47089354	A	A	47089354	4	1	109	1	0	0	0	0	0	1	0	0	3267	1792	62	5	533	5	CERK	22	47089354	Nonsense_Mutation	SNP	T	TCGA-46-6025-01A-11D-1817-08	1294254	47089354	4215212	210	40676										
CXorf23	256643	broad.mit.edu	37	chrX	19968911	19968911	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtgaaaaatgtgctcatcttCattctgtaaccgttcttttc	6	9	5	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chrX:19968911C>T	uc004czp.2	-	7	1705	c.1705G>A	c.(1705-1707)GAA>AAA	p.E569K	CXorf23_uc010nfn.2_RNA|CXorf23_uc011mjg.1_Missense_Mutation_p.E134K|CXorf23_uc004czo.2_Missense_Mutation_p.E519K	NM_198279	NP_938020	A2AJT9	CX023_HUMAN	hypothetical protein LOC256643	569						mitochondrion				lung(1)|skin(1)	2						TGCTCATCTTCATTCTGTAAC	0.373													27	54	---	---	---	---	PASS	T	19968911	T	T	19968911	3	4	109	1	0	0	0	0	1	0	0	0	4103	835	29	2	363	2	CXorf23	23	19968911	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08		19968911	135301649	211	40677										
SLC38A5	92745	broad.mit.edu	37	chrX	48318223	48318223	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	atgtcgtggccagctgaaggCcttgcctgggaaaagcagct	14	10	0	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chrX:48318223C>G	uc010nid.2	-	15	1286	c.1108G>C	c.(1108-1110)GCC>CCC	p.A370P	SLC38A5_uc004djk.3_Missense_Mutation_p.A319P	NM_033518	NP_277053	Q8WUX1	S38A5_HUMAN	solute carrier family 38, member 5	370	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane				ovary(3)	3						CAGCTGAAGGCCTTGCCTGGG	0.577													16	12	---	---	---	---	PASS	G	48318223	G	G	48318223	3	3	109	1	0	0	0	0	1	0	0	0	14607	739	26	4	322	4	SLC38A5	23	48318223	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	28349312	48318223	106952337	212	40678										
CCNB3	85417	broad.mit.edu	37	chrX	50051612	50051612	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	cacctccaaaacacccaacaCtgaggaggcatctctcttca	5	16	3	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chrX:50051612C>G	uc004dox.3	+	6	741	c.443C>G	c.(442-444)ACT>AGT	p.T148S	CCNB3_uc004doy.2_Missense_Mutation_p.T148S|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	148					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					ACACCCAACACTGAGGAGGCA	0.418													22	15	---	---	---	---	PASS	G	50051612	G	G	50051612	3	3	109	1	0	0	0	0	1	0	0	0	2914	565	20	4	457	4	CCNB3	23	50051612	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	1733389	50051612	105218948	213	40679										
HUWE1	10075	broad.mit.edu	37	chrX	53578078	53578078	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	ctggatgaaggtcacagggtCcataggggtgtctgagctgg	17	7	2	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chrX:53578078C>A	uc004dsp.2	-	65	9571	c.9169G>T	c.(9169-9171)GAC>TAC	p.D3057Y	HUWE1_uc004dsn.2_Missense_Mutation_p.D1865Y	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3057					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GTCACAGGGTCCATAGGGGTG	0.547													18	13	---	---	---	---	PASS	A	53578078	A	A	53578078	3	1	109	1	0	0	0	0	1	0	0	0	7461	855	30	2	4035	2	HUWE1	23	53578078	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	3526466	53578078	101692482	214	40680										
HEPH	9843	broad.mit.edu	37	chrX	65420453	65420453	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gtgacacagtggcctggcacCtgctcggcctgggcacagag	15	13	0	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chrX:65420453C>A	uc011moz.1	+	12	2005	c.1945C>A	c.(1945-1947)CTG>ATG	p.L649M	HEPH_uc004dwn.2_Missense_Mutation_p.L649M|HEPH_uc004dwo.2_Missense_Mutation_p.L379M|HEPH_uc010nkr.2_Intron|HEPH_uc011mpa.1_Missense_Mutation_p.L649M|HEPH_uc010nks.2_5'Flank	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	646	Plastocyanin-like 4.|Extracellular (Potential).				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						GGCCTGGCACCTGCTCGGCCT	0.542													6	15	---	---	---	---	PASS	A	65420453	A	A	65420453	3	1	109	1	0	0	0	0	1	0	0	0	7054	680	24	3	2144	3	HEPH	23	65420453	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	11842375	65420453	89850107	215	40681										
KIAA1210	57481	broad.mit.edu	37	chrX	118230627	118230627	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	agtcaaggactgtgagcaatCaggtccagatgataactcag	11	8	3	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chrX:118230627C>G	uc004era.3	-	8	1096	c.1096G>C	c.(1096-1098)GAT>CAT	p.D366H		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	366										ovary(4)|skin(1)	5						TGTGAGCAATCAGGTCCAGAT	0.512													16	8	---	---	---	---	PASS	G	118230627	G	G	118230627	3	3	109	1	0	0	0	0	1	0	0	0	8214	826	29	2	4061	2	KIAA1210	23	118230627	Missense_Mutation	SNP	C	TCGA-46-6025-01A-11D-1817-08	52810174	118230627	37039933	216	40682										
THOC2	57187	broad.mit.edu	37	chrX	122846737	122846737	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	tcatggcttttattttcactGaggatccgacataaatgcaa	7	8	2	1			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chrX:122846737G>A	uc004etu.2	-	2	125	c.93C>T	c.(91-93)CTC>CTT	p.L31L	THOC2_uc011mui.1_5'UTR	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	31					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TATTTTCACTGAGGATCCGAC	0.269													13	28	---	---	---	---	PASS	A	122846737	A	A	122846737	2	1	109	1	0	0	0	0	0	0	0	1	15862	1277	45	2		2	THOC2	23	122846737	Silent	SNP	G	TCGA-46-6025-01A-11D-1817-08	4616110	122846737	32423823	217	40683										
ODZ1	10178	broad.mit.edu	37	chrX	123657279	123657279	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	aaatgatgtgagcggtgaagGaagcacaatagggtttgggc	16	4	0	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chrX:123657279G>C	uc004euj.2	-	17	3032	c.2968C>G	c.(2968-2970)CCT>GCT	p.P990A	ODZ1_uc011muj.1_Missense_Mutation_p.P989A|ODZ1_uc010nqy.2_Missense_Mutation_p.P990A	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	990	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						AGCGGTGAAGGAAGCACAATA	0.448													37	59	---	---	---	---	PASS	C	123657279	C	C	123657279	3	2	109	1	0	0	0	0	1	0	0	0	10834	1174	41	2	5294	2	ODZ1	23	123657279	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	810542	123657279	31613281	218	40684										
ELF4	2000	broad.mit.edu	37	chrX	129205107	129205107	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gctttggagtccaccagtttGaagatgcctttctctcgctg	10	11	1	2			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chrX:129205107G>C	uc004evd.3	-	7	1102	c.717C>G	c.(715-717)TTC>TTG	p.F239L	ELF4_uc004eve.3_Missense_Mutation_p.F239L	NM_001421	NP_001412	Q99607	ELF4_HUMAN	E74-like factor 4	239	ETS.				natural killer cell proliferation|NK T cell proliferation|positive regulation of transcription from RNA polymerase II promoter	PML body	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCACCAGTTTGAAGATGCCTT	0.522			T	ERG	AML								55	97	---	---	---	---	PASS	C	129205107	C	C	129205107	3	2	109	1	0	0	0	0	1	0	0	0	5056	1281	45	2	1286	2	ELF4	23	129205107	Missense_Mutation	SNP	G	TCGA-46-6025-01A-11D-1817-08	5547828	129205107	26065453	219	40685										
UTY	7404	broad.mit.edu	37	chrY	15448075	15448075	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.165898617511521	36	5.94236963321706e-06	2.27864641501005	3.00344462109168	1.75057915057915	0.50862847882284	0.81842946137857	20	gcatccccctgtggtactgaAttactaggcagagtgagatg	12	9	0	3			TCGA-46-6025-01A-11D-1817-08	TCGA-46-6025-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	767a9ae0-2aa4-467b-b9c3-fb3bf701b642	93bbc78d-d792-4bfe-a8b1-d7db55452cd9	g.chrY:15448075A>G	uc004fsx.1	-	16	2916	c.1911T>C	c.(1909-1911)AAT>AAC	p.N637N	UTY_uc004fsw.1_Silent_p.N300N|UTY_uc010nwx.1_Intron|UTY_uc004fsy.2_Silent_p.N637N|UTY_uc004fsz.2_Silent_p.N637N	NM_007125	NP_009056	O14607	UTY_HUMAN	tetratricopeptide repeat protein isoform 3	637					chromatin modification	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GTGGTACTGAATTACTAGGCA	0.473													58	79	---	---	---	---	PASS	G	15448075	G	G	15448075	2	3	109	1	0	0	0	0	0	0	0	1	17104	98	4	5		5	UTY	24	15448075	Silent	SNP	A	TCGA-46-6025-01A-11D-1817-08		15448075	43925491	220	40686										
RAP1GAP	5909	broad.mit.edu	37	chr1	21934781	21934781	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tcgccgcccaagcccatcatGgactggctgtggatgtgtag	13	12	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:21934781G>T	uc001bex.2	-	17	1479	c.1221C>A	c.(1219-1221)TCC>TCA	p.S407S	RAP1GAP_uc001bev.2_Silent_p.S407S|RAP1GAP_uc001bew.2_Silent_p.S471S|RAP1GAP_uc001bey.2_Silent_p.S407S	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	407					regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		AGCCCATCATGGACTGGCTGT	0.647													20	57	---	---	---	---	PASS	T	21934781	T	T	21934781	2	4	110	1	0	0	0	0	0	0	0	1	13037	1335	47	3		3	RAP1GAP	1	21934781	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08		21934781	227315840	1	40687										
WDTC1	23038	broad.mit.edu	37	chr1	27608757	27608757	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	caggatgtgtcaactgtctgGagtggaatgagaaaggagag	16	4	2	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:27608757G>T	uc009vst.2	+	4	695	c.160G>T	c.(160-162)GAG>TAG	p.E54*	WDTC1_uc001bno.2_Nonsense_Mutation_p.E54*|WDTC1_uc001bnp.1_RNA	NM_015023	NP_055838	Q8N5D0	WDTC1_HUMAN	WD and tetratricopeptide repeats 1	54	WD 1.						protein binding			ovary(1)|central_nervous_system(1)	2		all_cancers(24;3.12e-19)|all_epithelial(13;4.18e-18)|Colorectal(325;0.000147)|all_lung(284;0.000366)|Lung NSC(340;0.000548)|Renal(390;0.00211)|Breast(348;0.00257)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0443)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;1.02e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00201)|STAD - Stomach adenocarcinoma(196;0.00321)|READ - Rectum adenocarcinoma(331;0.0476)		CAACTGTCTGGAGTGGAATGA	0.522													35	27	---	---	---	---	PASS	T	27608757	T	T	27608757	4	4	110	1	0	0	0	0	0	1	0	0	17339	1175	41	2	170	2	WDTC1	1	27608757	Nonsense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	5673976	27608757	221641864	2	40688										
EPB41	2035	broad.mit.edu	37	chr1	29362386	29362386	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tcaaacttcccagttaccgaGcagctaagaaattatggaaa	7	9	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:29362386G>T	uc001brm.1	+	9	1421	c.1414G>T	c.(1414-1416)GCA>TCA	p.A472S	EPB41_uc001brg.1_Missense_Mutation_p.A263S|EPB41_uc001brh.1_Missense_Mutation_p.A263S|EPB41_uc001bri.1_Missense_Mutation_p.A437S|EPB41_uc001brj.1_Missense_Mutation_p.A263S|EPB41_uc009vtk.1_Missense_Mutation_p.A437S|EPB41_uc001brk.2_Missense_Mutation_p.A472S|EPB41_uc001brl.1_Missense_Mutation_p.A472S|EPB41_uc009vtl.1_Missense_Mutation_p.A263S|EPB41_uc009vtm.1_Missense_Mutation_p.A105S	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1	472	FERM.				blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)		CAGTTACCGAGCAGCTAAGAA	0.333													16	40	---	---	---	---	PASS	T	29362386	T	T	29362386	3	4	110	1	0	0	0	0	1	0	0	0	5151	971	34	3	1448	3	EPB41	1	29362386	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	1753629	29362386	219888235	3	40689										
KLF17	128209	broad.mit.edu	37	chr1	44595677	44595677	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tcttgtcagtcagccagactCtcaagaaggcccatttctac	7	13	5	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:44595677C>A	uc001clp.2	+	2	792	c.734C>A	c.(733-735)TCT>TAT	p.S245Y	KLF17_uc009vxf.1_Missense_Mutation_p.S208Y	NM_173484	NP_775755	Q5JT82	KLF17_HUMAN	zinc finger protein 393	245					regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					CAGCCAGACTCTCAAGAAGGC	0.567													18	46	---	---	---	---	PASS	A	44595677	A	A	44595677	3	1	110	1	0	0	0	0	1	0	0	0	8345	913	32	2	740	2	KLF17	1	44595677	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	15233291	44595677	204654944	4	40690										
FAM159A	348378	broad.mit.edu	37	chr1	53108671	53108671	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tgggcttgagcttacagacaGcaggtaaggaagttgccagg	15	7	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:53108671G>A	uc001cuf.2	+	2	419	c.319G>A	c.(319-321)GCA>ACA	p.A107T	FAM159A_uc001cug.1_RNA|FAM159A_uc001cuh.2_RNA	NM_001042693	NP_001036158	Q6UWV7	F159A_HUMAN	hypothetical protein LOC348378	107						integral to membrane					0						CTTACAGACAGCAGGTAAGGA	0.483													52	36	---	---	---	---	PASS	A	53108671	A	A	53108671	3	1	110	1	0	0	0	0	1	0	0	0	5468	971	34	3	325	3	FAM159A	1	53108671	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	8512994	53108671	196141950	5	40691										
LRRC7	57554	broad.mit.edu	37	chr1	70486789	70486789	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttgaagacaaaaaagaagatGacgaaaatgctgggaaagtt	11	3	0	5			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:70486789G>A	uc001dep.2	+	14	1438	c.1408G>A	c.(1408-1410)GAC>AAC	p.D470N	LRRC7_uc009wbg.2_Missense_Mutation_p.M1I	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	470						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						AAAAGAAGATGACGAAAATGC	0.378													23	21	---	---	---	---	PASS	A	70486789	A	A	70486789	3	1	110	1	0	0	0	0	1	0	0	0	9020	1290	45	2	1462	2	LRRC7	1	70486789	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	17378118	70486789	178763832	6	40692										
CGN	57530	broad.mit.edu	37	chr1	151491775	151491775	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	agccagaacctgagtcctctCagtggctttagccgttctcg	10	13	2	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:151491775C>A	uc009wmw.2	+	2	924	c.780C>A	c.(778-780)CTC>CTA	p.L260L		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	254	Interacts with ZO-2.|Head.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			TGAGTCCTCTCAGTGGCTTTA	0.582													17	50	---	---	---	---	PASS	A	151491775	A	A	151491775	2	1	110	1	0	0	0	0	0	0	0	1	3303	813	29	2		2	CGN	1	151491775	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	81004986	151491775	97758846	7	40693										
FLG	2312	broad.mit.edu	37	chr1	152285018	152285018	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tcgagacctttcccctgaccGgtcacgtgcggactcttggt	11	14	2	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:152285018G>A	uc001ezu.1	-	3	2380	c.2344C>T	c.(2344-2346)CGG>TGG	p.R782W	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	782	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCCCTGACCGGTCACGTGCG	0.567									Ichthyosis				128	250	---	---	---	---	PASS	A	152285018	A	A	152285018	3	1	110	1	0	0	0	0	1	0	0	0	5922	1115	39	1	9845	1	FLG	1	152285018	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	793243	152285018	96965603	8	40694										
FLG2	388698	broad.mit.edu	37	chr1	152327320	152327320	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	caaagccagaggattttcctGagcctgactcatgttgtcca	9	11	1	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:152327320G>T	uc001ezw.3	-	3	3015	c.2942C>A	c.(2941-2943)TCA>TAA	p.S981*	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	981	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGATTTTCCTGAGCCTGACTC	0.493													178	107	---	---	---	---	PASS	T	152327320	T	T	152327320	4	4	110	1	0	0	0	0	0	1	0	0	5923	1294	45	2	4237	2	FLG2	1	152327320	Nonsense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	42302	152327320	96923301	9	40695										
CCDC19	25790	broad.mit.edu	37	chr1	159846487	159846487	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gcgcattttccttttcctttCtgcgccactctctgtctgca	6	15	3	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:159846487C>T	uc001fui.2	-	10	1229	c.1211G>A	c.(1210-1212)AGA>AAA	p.R404K	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.R319K|CCDC19_uc001ful.2_Missense_Mutation_p.R319K|CCDC19_uc009wtc.1_Silent_p.Q403Q	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	404	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			CTTTTCCTTTCTGCGCCACTC	0.552													10	36	---	---	---	---	PASS	T	159846487	T	T	159846487	3	4	110	1	0	0	0	0	1	0	0	0	2795	913	32	2	456	2	CCDC19	1	159846487	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	7519167	159846487	89404134	10	40696										
ATP1A2	477	broad.mit.edu	37	chr1	160098527	160098527	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggtggagacgctgggctccaCgtccaccatctgctcggaca	13	14	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:160098527C>T	uc001fvc.2	+	9	1235	c.1103C>T	c.(1102-1104)ACG>ATG	p.T368M	ATP1A2_uc001fvb.2_Missense_Mutation_p.T368M|ATP1A2_uc010piz.1_Missense_Mutation_p.T213M|ATP1A2_uc001fvd.2_Missense_Mutation_p.T104M|ATP1A2_uc009wtg.1_Missense_Mutation_p.T56M	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	368	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CTGGGCTCCACGTCCACCATC	0.607													18	76	---	---	---	---	PASS	T	160098527	T	T	160098527	3	4	110	1	0	0	0	0	1	0	0	0	1129	536	19	1	1137	1	ATP1A2	1	160098527	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	252040	160098527	89152094	11	40697										
PBX1	5087	broad.mit.edu	37	chr1	164761842	164761850	+	In_Frame_Del	DEL	CGGCGGCAG	-	-													0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gcctgagaagggcggagggtCggcggcagcggcggcagcgg							TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:164761842_164761850delCGGCGGCAG	uc001gct.2	+	3	635_643	c.377_385delCGGCGGCAG	c.(376-387)TCGGCGGCAGCG>TCG	p.AAA133del	PBX1_uc010pku.1_In_Frame_Del_p.AAA133del|PBX1_uc010pkv.1_In_Frame_Del_p.AAA50del|PBX1_uc001gcs.2_In_Frame_Del_p.AAA133del|PBX1_uc010pkw.1_In_Frame_Del_p.AAA23del	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	133_135	Poly-Ala.				negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						GGCGGAGGGTcggcggcagcggcggcagc	0.502			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								39	29	---	---	---	---		-	164761850	-	-	164761842	7	5	110	1	0	1	0	1	0	0	0	0	11492	893	31	0	387	0	PBX1	1	164761842	In_Frame_Del	DEL	CGGCGGCAG	TCGA-46-6026-01A-11D-1817-08	4663315	164761842	84488779	12	40698										
ADCY10	55811	broad.mit.edu	37	chr1	167871256	167871256	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cttagtaagcccccatacctGcaaatttcaggatgtctcct	6	13	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:167871256G>A	uc001ger.2	-	4	588	c.290C>T	c.(289-291)GCA>GTA	p.A97V	ADCY10_uc009wvk.2_5'UTR|ADCY10_uc010plj.1_5'UTR|ADCY10_uc009wvl.2_Missense_Mutation_p.A96V|ADCY10_uc009wvm.2_RNA	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	97	Guanylate cyclase 1.				intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						CCCCATACCTGCAAATTTCAG	0.403													5	281	---	---	---	---	PASS	A	167871256	A	A	167871256	3	1	110	1	0	0	0	0	1	0	0	0	293	1319	46	3	4662	3	ADCY10	1	167871256	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	3109414	167871256	81379365	13	40699										
RASAL2	9462	broad.mit.edu	37	chr1	178427462	178427462	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tactgggcaggcccagatccGaaaagtggaccagggtgggt	16	9	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:178427462G>A	uc001glr.2	+	12	2737	c.2612G>A	c.(2611-2613)CGA>CAA	p.R871Q	RASAL2_uc001glq.2_Missense_Mutation_p.R1012Q|RASAL2_uc009wxc.2_Missense_Mutation_p.R385Q	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	871					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						GCCCAGATCCGAAAAGTGGAC	0.572													11	46	---	---	---	---	PASS	A	178427462	A	A	178427462	3	1	110	1	0	0	0	0	1	0	0	0	13064	1058	37	2	3127	2	RASAL2	1	178427462	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	10556206	178427462	70823159	14	40700										
HMCN1	83872	broad.mit.edu	37	chr1	186024775	186024775	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gctgtgaatgtagcaggaatGactgacaaaaaatatgactt	10	5	0	4			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:186024775G>T	uc001grq.1	+	45	7342	c.7113G>T	c.(7111-7113)ATG>ATT	p.M2371I		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2371	Ig-like C2-type 21.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TAGCAGGAATGACTGACAAAA	0.413													41	36	---	---	---	---	PASS	T	186024775	T	T	186024775	3	4	110	1	0	0	0	0	1	0	0	0	7220	1290	45	2	7291	2	HMCN1	1	186024775	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	7597313	186024775	63225846	15	40701										
PRG4	10216	broad.mit.edu	37	chr1	186276431	186276431	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggagcctgcacccaccaccaCcaagtctgcacccaccacta	6	20	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:186276431C>G	uc001gru.3	+	7	1631	c.1580C>G	c.(1579-1581)ACC>AGC	p.T527S	PRG4_uc001grt.3_Missense_Mutation_p.T486S|PRG4_uc009wyl.2_Missense_Mutation_p.T434S|PRG4_uc009wym.2_Missense_Mutation_p.T393S|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	527	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|23.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CCCACCACCACCAAGTCTGCA	0.637													27	18	---	---	---	---	PASS	G	186276431	G	G	186276431	3	3	110	1	0	0	0	0	1	0	0	0	12481	507	18	4	1602	4	PRG4	1	186276431	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	251656	186276431	62974190	16	40702										
ASPM	259266	broad.mit.edu	37	chr1	197072366	197072366	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tctcttccaatactgtaagcCctataatacttttgaatcag	4	10	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:197072366C>A	uc001gtu.2	-	18	6272	c.6015G>T	c.(6013-6015)AGG>AGT	p.R2005S	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2005					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TACTGTAAGCCCTATAATACT	0.328													27	80	---	---	---	---	PASS	A	197072366	A	A	197072366	3	1	110	1	0	0	0	0	1	0	0	0	1056	622	22	3	4462	3	ASPM	1	197072366	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	10795935	197072366	52178255	17	40703										
NFASC	23114	broad.mit.edu	37	chr1	204957875	204957875	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ccgctttaccctcagcgccaGgacgcaggtgggctctgggg	15	14	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:204957875G>A	uc001hbj.2	+	23	3036	c.2708G>A	c.(2707-2709)AGG>AAG	p.R903K	NFASC_uc010pra.1_Missense_Mutation_p.R1006K|NFASC_uc001hbi.2_Missense_Mutation_p.R1006K|NFASC_uc010prb.1_Missense_Mutation_p.R1021K|NFASC_uc010prc.1_Missense_Mutation_p.R577K|NFASC_uc001hbk.1_Missense_Mutation_p.R816K|NFASC_uc001hbl.1_Missense_Mutation_p.R153K|NFASC_uc001hbm.1_Missense_Mutation_p.R49K|NFASC_uc001hbn.1_Missense_Mutation_p.R49K	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			CTCAGCGCCAGGACGCAGGTG	0.587													50	39	---	---	---	---	PASS	A	204957875	A	A	204957875	3	1	110	1	0	0	0	0	1	0	0	0	10359	1000	35	3	3203	3	NFASC	1	204957875	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	7885509	204957875	44292746	18	40704										
EPRS	2058	broad.mit.edu	37	chr1	220213588	220213588	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aatgctgacatcgtctttcaCgtgttctactgccagcaaag	8	11	3	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:220213588C>A	uc001hly.1	-	2	340	c.70G>T	c.(70-72)GTG>TTG	p.V24L	EPRS_uc010puf.1_5'UTR|EPRS_uc001hlz.1_Missense_Mutation_p.V24L|EPRS_uc009xdt.1_5'UTR	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	24					glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	TCGTCTTTCACGTGTTCTACT	0.323													36	96	---	---	---	---	PASS	A	220213588	A	A	220213588	3	1	110	1	0	0	0	0	1	0	0	0	5191	536	19	1	4592	1	EPRS	1	220213588	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	15255713	220213588	29037033	19	40705										
KIAA1804	84451	broad.mit.edu	37	chr1	233507832	233507832	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctctcccaacttggacaaacGgcggagcctgaacagcagca	10	14	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:233507832G>A	uc001hvt.3	+	6	1862	c.1601G>A	c.(1600-1602)CGG>CAG	p.R534Q	KIAA1804_uc001hvs.1_Missense_Mutation_p.R534Q	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	534					activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				TTGGACAAACGGCGGAGCCTG	0.547													37	39	---	---	---	---	PASS	A	233507832	A	A	233507832	3	1	110	1	0	0	0	0	1	0	0	0	8259	1116	39	1	1623	1	KIAA1804	1	233507832	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	13294244	233507832	15742789	20	40706										
IRF2BP2	359948	broad.mit.edu	37	chr1	234743230	234743230	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tgctccctggccccccacctCtctggggcccagccttcttt	8	20	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:234743230C>T	uc001hwg.2	-	2	1448	c.1417G>A	c.(1417-1419)GAG>AAG	p.E473K	IRF2BP2_uc009xfw.2_Missense_Mutation_p.E83K|IRF2BP2_uc001hwf.2_Missense_Mutation_p.E457K	NM_182972	NP_892017	Q7Z5L9	I2BP2_HUMAN	interferon regulatory factor 2 binding protein 2	473					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Ovarian(103;0.0303)	all_cancers(173;0.0236)|Prostate(94;0.0115)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)|Epithelial(3;6.2e-05)			CCCCCCACCTCTCTGGGGCCC	0.622													34	87	---	---	---	---	PASS	T	234743230	T	T	234743230	3	4	110	1	0	0	0	0	1	0	0	0	7830	922	32	2	350	2	IRF2BP2	1	234743230	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	1235398	234743230	14507391	21	40707										
OR2G3	81469	broad.mit.edu	37	chr1	247769333	247769333	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	acagctggcatctatctcctGgctcagtggtttggctagtt	11	10	3	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:247769333G>T	uc010pyz.1	+	1	446	c.446G>T	c.(445-447)TGG>TTG	p.W149L		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	149	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TCTATCTCCTGGCTCAGTGGT	0.493													35	97	---	---	---	---	PASS	T	247769333	T	T	247769333	3	4	110	1	0	0	0	0	1	0	0	0	10999	1357	47	3	448	3	OR2G3	1	247769333	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	13026103	247769333	1481288	22	40708										
OR2T34	127068	broad.mit.edu	37	chr1	248737725	248737725	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gaaaacctcagctccagccaGggtcaggtggaagaacatct	11	11	3	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr1:248737725G>A	uc001iep.1	-	1	334	c.334C>T	c.(334-336)CTG>TTG	p.L112L		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GCTCCAGCCAGGGTCAGGTGG	0.557													21	58	---	---	---	---	PASS	A	248737725	A	A	248737725	2	1	110	1	0	0	0	0	0	0	0	1	11025	991	35	3		3	OR2T34	1	248737725	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	968392	248737725	512896	23	40709										
SLC8A1	6546	broad.mit.edu	37	chr2	40657410	40657410	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gtgaaagacttaatcgccgcAtgttgtacatgacacttcca	8	10	0	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:40657410A>G	uc002rrx.2	-	1	35	c.11T>C	c.(10-12)ATG>ACG	p.M4T	SLC8A1_uc002rry.2_Missense_Mutation_p.M4T|SLC8A1_uc002rrz.2_Missense_Mutation_p.M4T|SLC8A1_uc002rsa.2_Missense_Mutation_p.M4T|SLC8A1_uc002rsd.3_Missense_Mutation_p.M4T|SLC8A1_uc002rsb.1_Missense_Mutation_p.M4T|SLC8A1_uc010fan.1_Missense_Mutation_p.M4T|SLC8A1_uc002rsc.1_Missense_Mutation_p.M4T	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	4					cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	TAATCGCCGCATGTTGTACAT	0.423													8	41	---	---	---	---	PASS	G	40657410	G	G	40657410	3	3	110	1	0	0	0	0	1	0	0	0	14706	217	8	5	3058	5	SLC8A1	2	40657410	Missense_Mutation	SNP	A	TCGA-46-6026-01A-11D-1817-08		40657410	202541963	24	40710										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48848367	48848367	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cttcttcagaaatagcatccAatcacctctgtttactcttc	3	13	5	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:48848367A>G	uc010yol.1	+	4	2344	c.2297A>G	c.(2296-2298)CAA>CGA	p.Q766R	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.Q766R|GTF2A1L_uc002rws.1_Missense_Mutation_p.Q62R|GTF2A1L_uc010yom.1_Missense_Mutation_p.Q28R|GTF2A1L_uc002rwt.2_Missense_Mutation_p.Q62R	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	766					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AATAGCATCCAATCACCTCTG	0.383													38	23	---	---	---	---	PASS	G	48848367	G	G	48848367	3	3	110	1	0	0	0	0	1	0	0	0	15316	130	5	5	2311	5	STON1-GTF2A1L	2	48848367	Missense_Mutation	SNP	A	TCGA-46-6026-01A-11D-1817-08	8190957	48848367	194351006	25	40711										
ANKRD53	79998	broad.mit.edu	37	chr2	71209097	71209097	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	acggctccacgcccctgcacCtggcagcccgtgacggcttg	12	18	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:71209097C>A	uc002shl.3	+	4	850	c.649C>A	c.(649-651)CTG>ATG	p.L217M	ANKRD53_uc002shk.3_Missense_Mutation_p.L217M|ANKRD53_uc002shm.3_Intron	NM_001115116	NP_001108588	Q8N9V6	ANR53_HUMAN	ankyrin repeat domain 53 isoform a	217	ANK 3.										0						GCCCCTGCACCTGGCAGCCCG	0.577													10	74	---	---	---	---	PASS	A	71209097	A	A	71209097	3	1	110	1	0	0	0	0	1	0	0	0	679	680	24	3	663	3	ANKRD53	2	71209097	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	22360730	71209097	171990276	26	40712										
CYP26B1	56603	broad.mit.edu	37	chr2	72359496	72359496	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gcgggggaaggtccgtgtggCcagctcaaagcggctggtgc	19	10	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:72359496C>A	uc002sih.1	-	6	1399	c.1399G>T	c.(1399-1401)GCC>TCC	p.A467S	CYP26B1_uc010yra.1_Missense_Mutation_p.A450S|CYP26B1_uc010yrb.1_Missense_Mutation_p.A392S	NM_019885	NP_063938	Q9NR63	CP26B_HUMAN	cytochrome P450, family 26, subfamily b,	467					cell fate determination|embryonic limb morphogenesis|male meiosis|negative regulation of retinoic acid receptor signaling pathway|proximal/distal pattern formation|retinoic acid catabolic process|spermatogenesis|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			skin(2)	2						GTCCGTGTGGCCAGCTCAAAG	0.642													8	28	---	---	---	---	PASS	A	72359496	A	A	72359496	3	1	110	1	0	0	0	0	1	0	0	0	4156	739	26	3	143	3	CYP26B1	2	72359496	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	1150399	72359496	170839877	27	40713										
TACR1	6869	broad.mit.edu	37	chr2	75278458	75278459	+	Frame_Shift_Ins	INS	-	T	T													0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tgatggccaggtagacctgcINStggataaacttcttcaggta							TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:75278458_75278459insT	uc002sng.2	-	4	1436_1437	c.851_852insA	c.(850-852)CAGfs	p.Q284fs	TACR1_uc002snh.2_Frame_Shift_Ins_p.Q284fs	NM_001058	NP_001049	P25103	NK1R_HUMAN	tachykinin receptor 1 isoform long	284	Helical; Name=7; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|detection of abiotic stimulus|mechanosensory behavior	integral to plasma membrane	protein binding			ovary(1)	1					Aprepitant(DB00673)|Ketamine(DB01221)|Vapreotide(DB04894)	GGTAGACCTGCTGGATAAACTT	0.54													65	112	---	---	---	---		T	75278459	T	T	75278458	7	5	110	1	0	1	1	0	0	0	0	0	15502	796	28	0	383	0	TACR1	2	75278458	Frame_Shift_Ins	INS	-	TCGA-46-6026-01A-11D-1817-08	2918962	75278458	167920915	28	40714										
POU3F3	5455	broad.mit.edu	37	chr2	105473369	105473369	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gagaagcgcatgacgccgccCgggatccaacagcagacgcc	13	15	0	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:105473369C>A	uc010ywg.1	+	1	1401	c.1401C>A	c.(1399-1401)CCC>CCA	p.P467P		NM_006236	NP_006227	P20264	PO3F3_HUMAN	POU class 3 homeobox 3	467					metanephric ascending thin limb development|metanephric DCT cell differentiation|metanephric macula densa development|metanephric thick ascending limb development|negative regulation of apoptosis|positive regulation of cell proliferation	nucleus	sequence-specific DNA binding			ovary(1)	1						TGACGCCGCCCGGGATCCAAC	0.662													38	15	---	---	---	---	PASS	A	105473369	A	A	105473369	2	1	110	1	0	0	0	0	0	0	0	1	12276	639	23	1		1	POU3F3	2	105473369	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	30194911	105473369	137726004	29	40715										
CCDC93	54520	broad.mit.edu	37	chr2	118764334	118764334	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tagagttttcttgaaagagcAaatcaacatctacatcaaag	6	7	4	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:118764334A>G	uc002tlj.2	-	3	341	c.215T>C	c.(214-216)TTG>TCG	p.L72S	CCDC93_uc010fld.1_Missense_Mutation_p.L72S	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	72										large_intestine(1)|ovary(1)	2						TTGAAAGAGCAAATCAACATC	0.318													12	47	---	---	---	---	PASS	G	118764334	G	G	118764334	3	3	110	1	0	0	0	0	1	0	0	0	2872	131	5	5	1768	5	CCDC93	2	118764334	Missense_Mutation	SNP	A	TCGA-46-6026-01A-11D-1817-08	13290965	118764334	124435039	30	40716										
RIF1	55183	broad.mit.edu	37	chr2	152322531	152322531	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tgacagtcctagtggcatgcAgacacgctgtgtctggtctc	12	11	2	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:152322531A>G	uc002txm.2	+	30	6627	c.6497A>G	c.(6496-6498)CAG>CGG	p.Q2166R	RIF1_uc002txl.2_Missense_Mutation_p.Q2166R|RIF1_uc002txn.2_Missense_Mutation_p.Q2166R|RIF1_uc002txo.2_Missense_Mutation_p.Q2166R|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	2166	Interaction with condensed chromosomes in telophase.				cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		AGTGGCATGCAGACACGCTGT	0.413													21	56	---	---	---	---	PASS	G	152322531	G	G	152322531	3	3	110	1	0	0	0	0	1	0	0	0	13359	188	7	5	6611	5	RIF1	2	152322531	Missense_Mutation	SNP	A	TCGA-46-6026-01A-11D-1817-08	33558197	152322531	90876842	31	40717										
GALNT13	114805	broad.mit.edu	37	chr2	155099239	155099239	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aagttgacattagagaattaCgtgaaaaatttagaagtgcc	9	4	0	4			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:155099239C>T	uc002tyr.3	+	6	1074	c.507C>T	c.(505-507)TAC>TAT	p.Y169Y	GALNT13_uc002tyt.3_Silent_p.Y169Y|GALNT13_uc010foc.1_Translation_Start_Site	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	169	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						TAGAGAATTACGTGAAAAATT	0.353													13	39	---	---	---	---	PASS	T	155099239	T	T	155099239	2	4	110	1	0	0	0	0	0	0	0	1	6211	547	19	1		1	GALNT13	2	155099239	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	2776708	155099239	88100134	32	40718										
HOXD12	3238	broad.mit.edu	37	chr2	176964967	176964967	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gctggtgtgggtcgtgccacGccgggctccacgaccctgct	15	15	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:176964967G>T	uc010zev.1	+	1	438	c.438G>T	c.(436-438)ACG>ACT	p.T146T	HOXD12_uc010zew.1_Silent_p.T146T	NM_021193	NP_067016	P35452	HXD12_HUMAN	homeobox D12	146						nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0521)|READ - Rectum adenocarcinoma(9;0.0678)		GTCGTGCCACGCCGGGCTCCA	0.672													43	19	---	---	---	---	PASS	T	176964967	T	T	176964967	2	4	110	1	0	0	0	0	0	0	0	1	7321	1074	38	1		1	HOXD12	2	176964967	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	21865728	176964967	66234406	33	40719										
PLEKHA3	65977	broad.mit.edu	37	chr2	179365898	179365898	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tgatattcctcttgaagaccCagatagtaagtgacatagat	8	7	1	6			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:179365898C>G	uc002umn.2	+	7	1168	c.770C>G	c.(769-771)CCA>CGA	p.P257R		NM_019091	NP_061964	Q9HB20	PKHA3_HUMAN	pleckstrin homology domain containing, family A	257						cytoplasm|membrane				ovary(1)|kidney(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.0266)|all cancers(119;0.0865)			CTTGAAGACCCAGATAGTAAG	0.403													20	77	---	---	---	---	PASS	G	179365898	G	G	179365898	3	3	110	1	0	0	0	0	1	0	0	0	12057	594	21	4	796	4	PLEKHA3	2	179365898	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	2400931	179365898	63833475	34	40720										
TTN	7273	broad.mit.edu	37	chr2	179471836	179471836	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ataacacggaacttatattcTtgtccctcaagcagacctgt	6	11	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:179471836T>A	uc010zfg.1	-	227	46013	c.45789A>T	c.(45787-45789)CAA>CAT	p.Q15263H	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q8958H|TTN_uc010zfi.1_Missense_Mutation_p.Q8891H|TTN_uc010zfj.1_Missense_Mutation_p.Q8766H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16190							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)			ACTTATATTCTTGTCCCTCAA	0.413													53	191	---	---	---	---	PASS	A	179471836	A	A	179471836	3	1	110	1	0	0	0	0	1	0	0	0	16732	1606	56	5	54540	5	TTN	2	179471836	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	105938	179471836	63727537	35	40721										
CPS1	1373	broad.mit.edu	37	chr2	211471548	211471548	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	caatgttgttcgccacttggGcattgtgggtgaatgcaaca	12	8	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:211471548G>A	uc002vee.3	+	18	2207	c.2075G>A	c.(2074-2076)GGC>GAC	p.G692D	CPS1_uc010fur.2_Missense_Mutation_p.G698D|CPS1_uc010fus.2_Missense_Mutation_p.G241D	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	692	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)		CGCCACTTGGGCATTGTGGGT	0.473													62	40	---	---	---	---	PASS	A	211471548	A	A	211471548	3	1	110	1	0	0	0	0	1	0	0	0	3823	1203	42	3	2167	3	CPS1	2	211471548	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	31999712	211471548	31727825	36	40722										
MARCH4	57574	broad.mit.edu	37	chr2	217142400	217142400	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aacccccagacccacctatgCacaccacgtccatgaagcca	5	19	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:217142400C>A	uc002vgb.2	-	3	2627	c.860G>T	c.(859-861)TGC>TTC	p.C287F		NM_020814	NP_065865	Q9P2E8	MARH4_HUMAN	membrane-associated ring finger (C3HC4) 4	287	Helical; (Potential).					Golgi membrane|Golgi stack|integral to membrane|trans-Golgi network	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Renal(323;0.0854)		Epithelial(149;2.19e-05)|all cancers(144;0.00121)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(261;0.0125)		CCCACCTATGCACACCACGTC	0.577													25	55	---	---	---	---	PASS	A	217142400	A	A	217142400	3	1	110	1	0	0	0	0	1	0	0	0	9303	710	25	3	380	3	MARCH4	2	217142400	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	5670852	217142400	26056973	37	40723										
SPEG	10290	broad.mit.edu	37	chr2	220329246	220329246	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggctgcggatcctggctgcaGagcgtggcgatgctggtttc	17	10	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:220329246G>A	uc010fwg.2	+	9	2797	c.2797G>A	c.(2797-2799)GAG>AAG	p.E933K	SPEG_uc002vlm.2_RNA|SPEG_uc010fwh.1_Missense_Mutation_p.E141K|SPEG_uc002vln.1_Missense_Mutation_p.E141K|SPEG_uc002vlp.1_Missense_Mutation_p.E141K|SPEG_uc002vlq.2_Missense_Mutation_p.E84K	NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	933	Ig-like 3.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CCTGGCTGCAGAGCGTGGCGA	0.637													27	20	---	---	---	---	PASS	A	220329246	A	A	220329246	3	1	110	1	0	0	0	0	1	0	0	0	15035	943	33	2	2831	2	SPEG	2	220329246	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	3186846	220329246	22870127	38	40724										
PAX3	5077	broad.mit.edu	37	chr2	223085987	223085987	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gaggtctccgacagctggtaCgttggcaaggtcggcatggc	16	10	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:223085987C>G	uc010fwo.2	-	6	1278	c.912G>C	c.(910-912)ACG>ACC	p.T304T	PAX3_uc002vmt.1_Silent_p.T304T|PAX3_uc002vmy.1_Silent_p.T303T|PAX3_uc002vmv.1_Silent_p.T304T|PAX3_uc002vmw.1_Silent_p.T304T|PAX3_uc002vmx.1_Silent_p.T304T	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	304					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)		ACAGCTGGTACGTTGGCAAGG	0.537			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						232	87	---	---	---	---	PASS	G	223085987	G	G	223085987	2	3	110	1	0	0	0	0	0	0	0	1	11480	523	19	4		4	PAX3	2	223085987	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	2756741	223085987	20113386	39	40725										
DOCK10	55619	broad.mit.edu	37	chr2	225740851	225740851	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gagggtgtggatccattcatCcatatctgactctgtttcag	10	9	4	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:225740851C>T	uc010fwz.1	-	8	1074	c.835G>A	c.(835-837)GAT>AAT	p.D279N	DOCK10_uc002vob.2_Missense_Mutation_p.D273N|DOCK10_uc002vod.1_Missense_Mutation_p.D279N	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	279	PH.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		ATCCATTCATCCATATCTGAC	0.458													17	55	---	---	---	---	PASS	T	225740851	T	T	225740851	3	4	110	1	0	0	0	0	1	0	0	0	4685	855	30	2	5921	2	DOCK10	2	225740851	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	2654864	225740851	17458522	40	40726										
INPP5D	3635	broad.mit.edu	37	chr2	234104059	234104059	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttccagactttgtgaagacgGagcgtgatgaatccagtggg	14	7	0	5			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr2:234104059G>T	uc010zmo.1	+	23	2764	c.2611G>T	c.(2611-2613)GAG>TAG	p.E871*	INPP5D_uc010zmp.1_Nonsense_Mutation_p.E870*	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	871					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		TGTGAAGACGGAGCGTGATGA	0.493													54	27	---	---	---	---	PASS	T	234104059	T	T	234104059	4	4	110	1	0	0	0	0	0	1	0	0	7756	1175	41	2	2213	2	INPP5D	2	234104059	Nonsense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	8363208	234104059	9095314	41	40727										
SLC22A13	9390	broad.mit.edu	37	chr3	38307617	38307617	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctgcctcatgttccggccacCccccgccaatgccagcctgc	8	21	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr3:38307617C>T	uc003chz.3	+	1	320	c.266C>T	c.(265-267)CCC>CTC	p.P89L	SLC22A13_uc011aym.1_RNA|SLC22A13_uc011ayn.1_Missense_Mutation_p.P89L	NM_004256	NP_004247	Q9Y226	S22AD_HUMAN	solute carrier family 22 (organic anion	89	Extracellular (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0533)|Kidney(284;0.067)		TTCCGGCCACCCCCCGCCAAT	0.592													18	5	---	---	---	---	PASS	T	38307617	T	T	38307617	3	4	110	1	0	0	0	0	1	0	0	0	14444	623	22	3	268	3	SLC22A13	3	38307617	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08		38307617	159714813	42	40728										
SETD2	29072	broad.mit.edu	37	chr3	47144879	47144879	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cacagctgtgattcatgaaaCgagagcaatttcctttttga	8	8	1	4			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr3:47144879C>T	uc003cqs.2	-	7	4927	c.4874G>A	c.(4873-4875)CGT>CAT	p.R1625H	SETD2_uc003cqv.2_Missense_Mutation_p.R1692H	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1625	SET.			R->H: Loss of methyltransferase activity.	regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		ATTCATGAAACGAGAGCAATT	0.348			N|F|S|Mis		clear cell renal carcinoma								66	15	---	---	---	---	PASS	T	47144879	T	T	47144879	3	4	110	1	0	0	0	0	1	0	0	0	14131	536	19	1	2880	1	SETD2	3	47144879	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	8837262	47144879	150877551	43	40729										
DNAH1	25981	broad.mit.edu	37	chr3	52407054	52407054	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tggaccacggcggctggtacGaccgcaagatcattggtgag	15	10	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr3:52407054G>A	uc011bef.1	+	44	7231	c.6970G>A	c.(6970-6972)GAC>AAC	p.D2324N		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2324	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CGGCTGGTACGACCGCAAGAT	0.527													18	15	---	---	---	---	PASS	A	52407054	A	A	52407054	3	1	110	1	0	0	0	0	1	0	0	0	4597	1058	37	2	7140	2	DNAH1	3	52407054	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	5262175	52407054	145615376	44	40730										
CADM2	253559	broad.mit.edu	37	chr3	86028400	86028400	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctgtagccataacaaccagcCcaaccacatctgcaacaacc	4	17	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr3:86028400C>A	uc003dqj.2	+	8	1656	c.1030C>A	c.(1030-1032)CCA>ACA	p.P344T	CADM2_uc003dqk.2_Intron|CADM2_uc003dql.2_Missense_Mutation_p.P346T	NM_153184	NP_694854	Q8N3J6	CADM2_HUMAN	immunoglobulin superfamily, member 4D	344	Thr-rich.|Extracellular (Potential).				adherens junction organization|cell junction assembly	integral to membrane|plasma membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4		Lung NSC(201;0.0148)		LUSC - Lung squamous cell carcinoma(29;0.000815)|Lung(72;0.00304)|BRCA - Breast invasive adenocarcinoma(55;0.156)|Epithelial(33;0.157)		AACAACCAGCCCAACCACATC	0.453													167	25	---	---	---	---	PASS	A	86028400	A	A	86028400	3	1	110	1	0	0	0	0	1	0	0	0	2567	623	22	3	1131	3	CADM2	3	86028400	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	33621346	86028400	111994030	45	40731										
OR5H2	79310	broad.mit.edu	37	chr3	98002676	98002676	+	Nonstop_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	atggtaaaaagaaatgtttaGatttcatagtgatatctctc	7	4	2	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr3:98002676G>C	uc003dsj.1	+	1	945	c.945G>C	c.(943-945)TAG>TAC	p.*315Y		NM_001005482	NP_001005482	Q8NGV7	OR5H2_HUMAN	olfactory receptor, family 5, subfamily H,	315					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3						GAAATGTTTAGATTTCATAGT	0.254													9	16	---	---	---	---	PASS	C	98002676	C	C	98002676	4	2	110	1	0	0	0	0	0	0	0	0	11162	956	33	2	947	2	OR5H2	3	98002676	Nonstop_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	11974276	98002676	100019754	46	40732										
GPR15	2838	broad.mit.edu	37	chr3	98251616	98251616	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	taaagatcatctttattgtcGtggcagcctttcttgtctcc	7	10	4	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr3:98251616G>A	uc011bgy.1	+	1	739	c.739G>A	c.(739-741)GTG>ATG	p.V247M		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	247	Helical; Name=6; (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		CTTTATTGTCGTGGCAGCCTT	0.448													19	76	---	---	---	---	PASS	A	98251616	A	A	98251616	3	1	110	1	0	0	0	0	1	0	0	0	6655	1145	40	1	741	1	GPR15	3	98251616	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	248940	98251616	99770814	47	40733										
MORC1	27136	broad.mit.edu	37	chr3	108818237	108818237	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttcttcttcacagaatgtctGagaaaaaaacacacaggtca	6	9	5	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr3:108818237G>C	uc003dxl.2	-	6	478	c.391C>G	c.(391-393)CAG>GAG	p.Q131E	MORC1_uc011bhn.1_Missense_Mutation_p.Q131E	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	131					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						CAGAATGTCTGAGAAAAAAAC	0.358													22	83	---	---	---	---	PASS	C	108818237	C	C	108818237	3	2	110	1	0	0	0	0	1	0	0	0	9701	1299	45	2	2655	2	MORC1	3	108818237	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	10566621	108818237	89204193	48	40734										
TNIK	23043	broad.mit.edu	37	chr3	170802084	170802084	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cttcattgagtttggcctgtTcttgcctaagaagttcgcta	9	9	2	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr3:170802084T>C	uc003fhh.2	-	26	3374	c.3029A>G	c.(3028-3030)GAA>GGA	p.E1010G	TNIK_uc003fhi.2_Missense_Mutation_p.E955G|TNIK_uc003fhj.2_Missense_Mutation_p.E981G|TNIK_uc003fhk.2_Missense_Mutation_p.E1002G|TNIK_uc003fhl.2_Missense_Mutation_p.E926G|TNIK_uc003fhm.2_Missense_Mutation_p.E947G|TNIK_uc003fhn.2_Missense_Mutation_p.E973G|TNIK_uc003fho.2_Missense_Mutation_p.E918G|TNIK_uc003fhg.2_Missense_Mutation_p.E188G|TNIK_uc003fhp.2_5'Flank	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	1010	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			TTTGGCCTGTTCTTGCCTAAG	0.398													125	100	---	---	---	---	PASS	C	170802084	C	C	170802084	3	2	110	1	0	0	0	0	1	0	0	0	16310	1783	62	5	1085	5	TNIK	3	170802084	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	61983847	170802084	27220346	49	40735										
KLHL6	89857	broad.mit.edu	37	chr3	183209889	183209889	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tcgttcttctcgtcccgcccGccggtgatgtagagccggtt	12	14	2	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr3:183209889G>A	uc003flr.2	-	7	1750	c.1692C>T	c.(1690-1692)GGC>GGT	p.G564G	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_3'UTR|KLHL6_uc010hxk.1_RNA	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	564	Kelch 6.									haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			CGTCCCGCCCGCCGGTGATGT	0.677													24	166	---	---	---	---	PASS	A	183209889	A	A	183209889	2	1	110	1	0	0	0	0	0	0	0	1	8393	1074	38	1		1	KLHL6	3	183209889	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	12407805	183209889	14812541	50	40736										
CHRD	8646	broad.mit.edu	37	chr3	184100816	184100816	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gtccccaggaaccaggctttGctgaggtgctgcccaacctg	12	14	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr3:184100816G>T	uc003fov.2	+	10	1324	c.1078G>T	c.(1078-1080)GCT>TCT	p.A360S	CHRD_uc003fow.2_5'UTR|CHRD_uc003fox.2_Missense_Mutation_p.A360S|CHRD_uc003foy.2_5'UTR|CHRD_uc010hyc.2_5'UTR|CHRD_uc011brr.1_5'UTR	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	360	CHRD 2.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ACCAGGCTTTGCTGAGGTGCT	0.637													5	28	---	---	---	---	PASS	T	184100816	T	T	184100816	3	4	110	1	0	0	0	0	1	0	0	0	3372	1319	46	3	1116	3	CHRD	3	184100816	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	890927	184100816	13921614	51	40737										
OCIAD2	132299	broad.mit.edu	37	chr4	48887563	48887563	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	atgctttattttgcattcctCacaggtaaggaggcagtgcc	10	9	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr4:48887563C>A	uc003gyt.2	-	7	606	c.403G>T	c.(403-405)GAG>TAG	p.E135*	OCIAD2_uc003gyu.2_Silent_p.V95V	NM_001014446	NP_001014446	Q56VL3	OCAD2_HUMAN	OCIA domain containing 2 isoform 1	135						endosome					0						TTGCATTCCTCACAGGTAAGG	0.393													87	68	---	---	---	---	PASS	A	48887563	A	A	48887563	4	1	110	1	0	0	0	0	0	1	0	0	10818	835	29	2	65	2	OCIAD2	4	48887563	Nonsense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08		48887563	142266713	52	40738										
KDR	3791	broad.mit.edu	37	chr4	55972048	55972048	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cctctcccgactttgttgacCgcttcacatttgtacaaagc	6	14	2	1	rs138803814	byFrequency	TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr4:55972048C>A	uc003has.2	-	12	1898	c.1596G>T	c.(1594-1596)GCG>GCT	p.A532A	KDR_uc003hat.1_Silent_p.A532A|KDR_uc011bzx.1_Silent_p.A532A	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	532	Ig-like C2-type 5.|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)	CTTTGTTGACCGCTTCACATT	0.493			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			57	222	---	---	---	---	PASS	A	55972048	A	A	55972048	2	1	110	1	0	0	0	0	0	0	0	1	8139	639	23	1		1	KDR	4	55972048	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	7084485	55972048	135182228	53	40739										
NMU	10874	broad.mit.edu	37	chr4	56496629	56496629	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tgaggtaatattggagcaccTaaaaataaagttgtagccac	9	6	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr4:56496629T>A	uc003hbc.2	-	2	219	c.113_splice	c.e2-1	p.G38_splice	NMU_uc003hbd.1_Splice_Site|NMU_uc010igv.1_Splice_Site|NMU_uc010igw.1_Splice_Site|NMU_uc010igx.1_Splice_Site	NM_006681	NP_006672	P48645	NMU_HUMAN	neuromedin U precursor						neuropeptide signaling pathway	extracellular region					0	Lung NSC(11;0.00256)|all_epithelial(27;0.075)|Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.103)	LUSC - Lung squamous cell carcinoma(4;6.72e-08)|Lung(4;6.22e-07)|Epithelial(7;0.00559)	LUSC - Lung squamous cell carcinoma(721;0.0115)		TTGGAGCACCTAAAAATAAAG	0.323													23	41	---	---	---	---	PASS	A	56496629	A	A	56496629	5	1	110	1	0	0	0	0	0	0	1	0	10505	1536	53	5	445	5	NMU	4	56496629	Splice_Site	SNP	T	TCGA-46-6026-01A-11D-1817-08	524581	56496629	134657647	54	40740										
GRID2	2895	broad.mit.edu	37	chr4	94376864	94376864	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tcactccagatcgtgaaaatGtggtggactttacgacacgt	10	9	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr4:94376864G>A	uc011cdt.1	+	11	1855	c.1597G>A	c.(1597-1599)GTG>ATG	p.V533M	GRID2_uc011cdu.1_Missense_Mutation_p.V438M	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	533	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	TCGTGAAAATGTGGTGGACTT	0.418													55	42	---	---	---	---	PASS	A	94376864	A	A	94376864	3	1	110	1	0	0	0	0	1	0	0	0	6772	1377	48	3	1639	3	GRID2	4	94376864	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	37880235	94376864	96777412	55	40741										
KIAA1109	84162	broad.mit.edu	37	chr4	123274300	123274300	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tggactgaagctcagaaaatCtgggaagatggtaaactgac	12	6	2	4			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr4:123274300C>G	uc003ieh.2	+	79	14136	c.14091C>G	c.(14089-14091)ATC>ATG	p.I4697M	KIAA1109_uc003iem.2_Missense_Mutation_p.I1053M	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4697					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CTCAGAAAATCTGGGAAGATG	0.358													20	35	---	---	---	---	PASS	G	123274300	G	G	123274300	3	3	110	1	0	0	0	0	1	0	0	0	8208	903	32	2	14405	2	KIAA1109	4	123274300	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	28897436	123274300	67879976	56	40742										
UCP1	7350	broad.mit.edu	37	chr4	141489864	141489864	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ccagggtcgggtgtacgtccGaggctgtcaggccccccatc	14	15	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr4:141489864G>A	uc011chj.1	-	1	96	c.20C>T	c.(19-21)TCG>TTG	p.S7L	UCP1_uc011chk.1_Missense_Mutation_p.S7L	NM_021833	NP_068605	P25874	UCP1_HUMAN	uncoupling protein 1	7					brown fat cell differentiation|cellular lipid metabolic process|respiratory electron transport chain	integral to membrane|mitochondrial inner membrane	binding			ovary(1)	1	all_hematologic(180;0.162)					GTGTACGTCCGAGGCTGTCAG	0.617													4	11	---	---	---	---	PASS	A	141489864	A	A	141489864	3	1	110	1	0	0	0	0	1	0	0	0	16927	1059	37	2	925	2	UCP1	4	141489864	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	18215564	141489864	49664412	57	40743										
NR3C2	4306	broad.mit.edu	37	chr4	149075781	149075781	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	agcgtggagagcagattttcGgctgtatctggttttgagct	14	6	1	3	rs147478460		TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr4:149075781G>A	uc003ilj.3	-	5	2620	c.2286C>T	c.(2284-2286)GCC>GCT	p.A762A	NR3C2_uc003ilk.3_Intron|NR3C2_uc010iph.2_Intron	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	762	Steroid-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	GCAGATTTTCGGCTGTATCTG	0.483													8	189	---	---	---	---	PASS	A	149075781	A	A	149075781	2	1	110	1	0	0	0	0	0	0	0	1	10631	1103	39	1		1	NR3C2	4	149075781	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	7585917	149075781	42078495	58	40744										
FHDC1	85462	broad.mit.edu	37	chr4	153897750	153897750	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	agaagcgcccagagtctgcgGagggtcccagtgccaacacg	14	13	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr4:153897750G>T	uc003inf.2	+	11	3382	c.3307G>T	c.(3307-3309)GAG>TAG	p.E1103*		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	1103					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					AGAGTCTGCGGAGGGTCCCAG	0.687													11	7	---	---	---	---	PASS	T	153897750	T	T	153897750	4	4	110	1	0	0	0	0	0	1	0	0	5876	1175	41	2	3349	2	FHDC1	4	153897750	Nonsense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	4821969	153897750	37256526	59	40745										
FGA	2243	broad.mit.edu	37	chr4	155507479	155507479	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggtccagtgcccagcacttcCgcgttcagagctgccaggat	12	14	1	1	rs139005577		TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr4:155507479C>T	uc003iod.1	-	5	1160	c.1102G>A	c.(1102-1104)GGA>AGA	p.G368R	FGA_uc003ioe.1_Missense_Mutation_p.G368R|FGA_uc003iof.1_Intron	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	368	By similarity.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	CCAGCACTTCCGCGTTCAGAG	0.547													52	43	---	---	---	---	PASS	T	155507479	T	T	155507479	3	4	110	1	0	0	0	0	1	0	0	0	5830	661	23	1	1550	1	FGA	4	155507479	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	1609729	155507479	35646797	60	40746										
FAT1	2195	broad.mit.edu	37	chr4	187509794	187509794	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aggggcgggatcgtcacctcTtcgaagtggccgtcgtcccc	14	14	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr4:187509794T>C	uc003izf.2	-	27	13907	c.13719A>G	c.(13717-13719)GAA>GAG	p.E4573E	FAT1_uc010isn.2_Silent_p.E220E|FAT1_uc003ize.2_Silent_p.E464E	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4573	Cytoplasmic (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TCGTCACCTCTTCGAAGTGGC	0.587										HNSCC(5;0.00058)			23	2	---	---	---	---	PASS	C	187509794	C	C	187509794	2	2	110	1	0	0	0	0	0	0	0	1	5689	1606	56	5		5	FAT1	4	187509794	Silent	SNP	T	TCGA-46-6026-01A-11D-1817-08	32002315	187509794	3644482	61	40747										
TRIML1	339976	broad.mit.edu	37	chr4	189060895	189060895	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gagtgctggaggaccttggaGggcccgcatttccagtcaaa	14	10	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr4:189060895G>C	uc003izm.1	+	1	298	c.183G>C	c.(181-183)GAG>GAC	p.E61D		NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	61					multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		GGACCTTGGAGGGCCCGCATT	0.607													82	57	---	---	---	---	PASS	C	189060895	C	C	189060895	3	2	110	1	0	0	0	0	1	0	0	0	16547	991	35	4	185	4	TRIML1	4	189060895	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	1551101	189060895	2093381	62	40748										
PLEKHG4B	153478	broad.mit.edu	37	chr5	171161	171161	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cgcctctgcttttccaggaaGagcagtttgggatgtacgtg	13	9	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:171161G>C	uc003jak.2	+	13	2715	c.2665G>C	c.(2665-2667)GAG>CAG	p.E889Q		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	889	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		TTTCCAGGAAGAGCAGTTTGG	0.602													31	117	---	---	---	---	PASS	C	171161	C	C	171161	3	2	110	1	0	0	0	0	1	0	0	0	12072	943	33	2	2715	2	PLEKHG4B	5	171161	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08		171161	180744099	63	40749										
FAM105A	54491	broad.mit.edu	37	chr5	14610393	14610393	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	atctccctgctgaccgagaaCgaccgccactaccacattcc	6	18	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:14610393C>T	uc003jfj.2	+	8	1154	c.1041C>T	c.(1039-1041)AAC>AAT	p.N347N		NM_019018	NP_061891	Q9NUU6	F105A_HUMAN	hypothetical protein LOC54491	347										ovary(1)	1	Lung NSC(4;0.00592)					TGACCGAGAACGACCGCCACT	0.532													30	101	---	---	---	---	PASS	T	14610393	T	T	14610393	2	4	110	1	0	0	0	0	0	0	0	1	5387	535	19	1		1	FAM105A	5	14610393	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	14439232	14610393	166304867	64	40750										
CDH12	1010	broad.mit.edu	37	chr5	21842439	21842439	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aaagctgttctaataacaccTtaagggataaaagcaataat	6	6	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:21842439T>A	uc010iuc.2	-	5	1105	c.647_splice	c.e5-1	p.G216_splice	CDH12_uc011cno.1_Splice_Site_p.G176_splice|CDH12_uc003jgk.2_Splice_Site_p.G216_splice	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TAATAACACCTTAAGGGATAA	0.343										HNSCC(59;0.17)			34	90	---	---	---	---	PASS	A	21842439	A	A	21842439	5	1	110	1	0	0	0	0	0	0	1	0	3098	1623	56	5	1771	5	CDH12	5	21842439	Splice_Site	SNP	T	TCGA-46-6026-01A-11D-1817-08	7232046	21842439	159072821	65	40751										
FGF10	2255	broad.mit.edu	37	chr5	44388780	44388780	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aatgtgtcagtatccatttcCacattgtactgaaactctcg	6	10	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:44388780C>G	uc003jog.1	-	1	5	c.5G>C	c.(4-6)TGG>TCG	p.W2S		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	2					actin cytoskeleton reorganization|activation of MAPK activity|bud outgrowth involved in lung branching|ERK1 and ERK2 cascade|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|insulin receptor signaling pathway|lacrimal gland development|lung saccule development|mesonephros development|negative regulation of cell cycle arrest|positive regulation of ATPase activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of DNA repair|positive regulation of DNA replication|positive regulation of epithelial cell migration|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of ERK1 and ERK2 cascade|positive regulation of hair follicle cell proliferation|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of lymphocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of urothelial cell proliferation|protein localization at cell surface|radial glial cell differentiation|regulation of saliva secretion|response to protein stimulus|secretion by lung epithelial cell involved in lung growth|tear secretion|thymus development|urothelial cell proliferation	cell surface|extracellular space|nucleus|plasma membrane	chemoattractant activity|growth factor activity|heparin binding|type 2 fibroblast growth factor receptor binding			lung(3)	3	Lung NSC(6;1.12e-06)					TATCCATTTCCACATTGTACT	0.522													16	73	---	---	---	---	PASS	G	44388780	G	G	44388780	3	3	110	1	0	0	0	0	1	0	0	0	5839	595	21	4	633	4	FGF10	5	44388780	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	22546341	44388780	136526480	66	40752										
HCN1	348980	broad.mit.edu	37	chr5	45396653	45396653	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gattaaagcggtggcatggcCgacaaacatggcatagcagg	14	8	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:45396653C>A	uc003jok.2	-	4	1196	c.1171G>T	c.(1171-1173)GGC>TGC	p.G391C		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	391	Helical; Name=Segment S6; (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GTGGCATGGCCGACAAACATG	0.498													51	35	---	---	---	---	PASS	A	45396653	A	A	45396653	3	1	110	1	0	0	0	0	1	0	0	0	6996	652	23	1	1521	1	HCN1	5	45396653	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	1007873	45396653	135518607	67	40753										
PJA2	9867	broad.mit.edu	37	chr5	108714199	108714199	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	catgcctattaaaacctgttTcttggtccacctggcttgaa	7	11	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:108714199T>G	uc003kos.3	-	4	1209	c.989A>C	c.(988-990)GAA>GCA	p.E330A		NM_014819	NP_055634	O43164	PJA2_HUMAN	praja 2, RING-H2 motif containing	330					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)		AAAACCTGTTTCTTGGTCCAC	0.408													123	15	---	---	---	---	PASS	G	108714199	G	G	108714199	3	3	110	1	0	0	0	0	1	0	0	0	11962	1783	62	5	1165	5	PJA2	5	108714199	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	63317546	108714199	72201061	68	40754										
COMMD10	51397	broad.mit.edu	37	chr5	115628151	115628151	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tttgtctttgtaaatagctaGagactatacaagcacagctg	8	7	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:115628151G>A	uc003krt.1	+	7	597	c.574G>A	c.(574-576)GAG>AAG	p.E192K		NM_016144	NP_057228	Q9Y6G5	COMDA_HUMAN	COMM domain containing 10	192	COMM.						protein binding			ovary(1)	1		all_cancers(142;0.0834)|all_epithelial(76;0.00314)|Prostate(80;0.0102)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;4.3e-07)|Epithelial(69;8.06e-07)|all cancers(49;4.06e-05)		TAAATAGCTAGAGACTATACA	0.343													48	12	---	---	---	---	PASS	A	115628151	A	A	115628151	3	1	110	1	0	0	0	0	1	0	0	0	3715	943	33	2	600	2	COMMD10	5	115628151	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	6913952	115628151	65287109	69	40755										
FBN2	2201	broad.mit.edu	37	chr5	127727716	127727716	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gaatcacaaacttacctataCaatctccatttgcatcctgc	3	13	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:127727716C>A	uc003kuu.2	-	11	2037	c.1598G>T	c.(1597-1599)TGT>TTT	p.C533F	FBN2_uc003kuv.2_Missense_Mutation_p.C500F	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	533	EGF-like 6.				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)		CTTACCTATACAATCTCCATT	0.328													37	9	---	---	---	---	PASS	A	127727716	A	A	127727716	3	1	110	1	0	0	0	0	1	0	0	0	5703	478	17	3	7360	3	FBN2	5	127727716	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	12099565	127727716	53187544	70	40756										
FNIP1	96459	broad.mit.edu	37	chr5	131008549	131008549	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aagtagcctctggaccatgtCttgtcgtttgccaactacca	8	12	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:131008549C>A	uc003kvs.1	-	14	1730	c.1588G>T	c.(1588-1590)GAC>TAC	p.D530Y	RAPGEF6_uc003kvp.1_Intron|FNIP1_uc003kvt.1_Missense_Mutation_p.D502Y|FNIP1_uc010jdm.1_Missense_Mutation_p.D485Y	NM_133372	NP_588613	Q8TF40	FNIP1_HUMAN	folliculin interacting protein 1 isoform 1	530					regulation of protein phosphorylation	cytoplasm	protein binding			pancreas(1)|skin(1)	2		all_cancers(142;0.00347)|Lung NSC(810;0.106)|all_lung(232;0.123)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0665)		TGGACCATGTCTTGTCGTTTG	0.403													43	14	---	---	---	---	PASS	A	131008549	A	A	131008549	3	1	110	1	0	0	0	0	1	0	0	0	5975	913	32	2	1932	2	FNIP1	5	131008549	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	3280833	131008549	49906711	71	40757										
SH3RF2	153769	broad.mit.edu	37	chr5	145435759	145435759	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	agggtctcttcggaaagggcGgagcagcatgagaaagagta	16	6	1	2	rs141349885	byFrequency	TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:145435759G>A	uc003lnt.2	+	8	1776	c.1538G>A	c.(1537-1539)CGG>CAG	p.R513Q	SH3RF2_uc011dbl.1_Missense_Mutation_p.R513Q|SH3RF2_uc011dbm.1_5'UTR|SH3RF2_uc003lnu.2_5'UTR|SH3RF2_uc011dbn.1_5'UTR	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	513							ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CGGAAAGGGCGGAGCAGCATG	0.552													44	9	---	---	---	---	PASS	A	145435759	A	A	145435759	3	1	110	1	0	0	0	0	1	0	0	0	14259	1116	39	1	1564	1	SH3RF2	5	145435759	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	14427210	145435759	35479501	72	40758										
POU4F3	5459	broad.mit.edu	37	chr5	145718768	145718768	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cactctggctccgaggccatGcgccgagtctgtctcccagc	11	17	3	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:145718768G>T	uc003loa.2	+	1	182	c.93G>T	c.(91-93)ATG>ATT	p.M31I		NM_002700	NP_002691	Q15319	PO4F3_HUMAN	POU class 4 homeobox 3	31					sensory perception of sound|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCGAGGCCATGCGCCGAGTCT	0.537													39	10	---	---	---	---	PASS	T	145718768	T	T	145718768	3	4	110	1	0	0	0	0	1	0	0	0	12280	1319	46	3	95	3	POU4F3	5	145718768	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	283009	145718768	35196492	73	40759										
MRPL22	29093	broad.mit.edu	37	chr5	154330396	154330396	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cacagtgttttacctcaatcAtatatccacacaagtgcttc	4	12	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:154330396A>T	uc003lvy.3	+	3	131	c.93A>T	c.(91-93)TCA>TCT	p.S31S	MRPL22_uc003lvz.3_Intron	NM_014180	NP_054899	Q9NWU5	RM22_HUMAN	mitochondrial ribosomal protein L22 isoform a	31					translation	large ribosomal subunit|mitochondrion	structural constituent of ribosome				0	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TACCTCAATCATATATCCACA	0.393													46	11	---	---	---	---	PASS	T	154330396	T	T	154330396	2	4	110	1	0	0	0	0	0	0	0	1	9788	204	8	5		5	MRPL22	5	154330396	Silent	SNP	A	TCGA-46-6026-01A-11D-1817-08	8611628	154330396	26584864	74	40760										
DOCK2	1794	broad.mit.edu	37	chr5	169472827	169472827	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gaccttcctgtagatgtgggAagaggccataagtctgtgca	13	8	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:169472827A>C	uc003maf.2	+	39	3964	c.3884A>C	c.(3883-3885)GAA>GCA	p.E1295A	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.E787A	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1295	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TAGATGTGGGAAGAGGCCATA	0.562													42	11	---	---	---	---	PASS	C	169472827	C	C	169472827	3	2	110	1	0	0	0	0	1	0	0	0	4687	246	9	5	4038	5	DOCK2	5	169472827	Missense_Mutation	SNP	A	TCGA-46-6026-01A-11D-1817-08	15142431	169472827	11442433	75	40761										
MSX2	4488	broad.mit.edu	37	chr5	174156192	174156192	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ccctaccacctgcaccctgaGgaaacacaagaccaatcgga	7	16	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:174156192G>T	uc003mcy.2	+	2	498	c.410G>T	c.(409-411)AGG>ATG	p.R137M		NM_002449	NP_002440	P35548	MSX2_HUMAN	msh homeobox 2	137					cranial suture morphogenesis|negative regulation of transcription, DNA-dependent|osteoblast differentiation	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0196)|all_lung(126;0.0303)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TGCACCCTGAGGAAACACAAG	0.488													9	18	---	---	---	---	PASS	T	174156192	T	T	174156192	3	4	110	1	0	0	0	0	1	0	0	0	9896	1000	35	3	416	3	MSX2	5	174156192	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	4683365	174156192	6759068	76	40762										
NSD1	64324	broad.mit.edu	37	chr5	176684105	176684105	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ccggtgctccctccacatctGtataacctgtcatgctgcta	7	15	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr5:176684105G>C	uc003mfr.3	+	13	5057	c.4919G>C	c.(4918-4920)TGT>TCT	p.C1640S	NSD1_uc003mft.3_Missense_Mutation_p.C1371S|NSD1_uc003mfs.1_Missense_Mutation_p.C1537S|NSD1_uc011dfx.1_Missense_Mutation_p.C1288S	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1640	PHD-type 2.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		CTCCACATCTGTATAACCTGT	0.443			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			24	7	---	---	---	---	PASS	C	176684105	C	C	176684105	3	2	110	1	0	0	0	0	1	0	0	0	10669	1377	48	4	4965	4	NSD1	5	176684105	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	2527913	176684105	4231155	77	40763										
HIST1H3G	8355	broad.mit.edu	37	chr6	26271447	26271447	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cagcagctcagtcgacttctGatagcggcgaatctcgcgca	11	13	3	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr6:26271447G>A	uc003nhi.2	-	1	166	c.166C>T	c.(166-168)CAG>TAG	p.Q56*	uc003nhj.2_5'Flank|HIST1H2BI_uc003nhk.2_5'Flank	NM_003534	NP_003525	P68431	H31_HUMAN	H3 histone family, member H	56					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0						GTCGACTTCTGATAGCGGCGA	0.607													65	71	---	---	---	---	PASS	A	26271447	A	A	26271447	4	1	110	1	0	0	0	0	0	1	0	0	7161	1299	45	2	248	2	HIST1H3G	6	26271447	Nonsense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08		26271447	144843620	78	40764										
OR2J3	442186	broad.mit.edu	37	chr6	29080187	29080187	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tctgggtacctctgtgtggaCaccgccaagtagatcacttt	10	11	3	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr6:29080187C>A	uc011dll.1	+	1	520	c.520C>A	c.(520-522)CAC>AAC	p.H174N		NM_001005216	NP_001005216	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J,	174	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCTGTGTGGACACCGCCAAGT	0.498													114	96	---	---	---	---	PASS	A	29080187	A	A	29080187	3	1	110	1	0	0	0	0	1	0	0	0	11004	478	17	3	522	3	OR2J3	6	29080187	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	2808740	29080187	142034880	79	40765										
PGC	5225	broad.mit.edu	37	chr6	41708268	41708268	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	agtagagttcctgggtgacaGgcgcccagtagatctgcccc	13	12	1	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr6:41708268G>A	uc003ora.1	-	6	777	c.728C>T	c.(727-729)CCT>CTT	p.P243L		NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor	243					digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			CTGGGTGACAGGCGCCCAGTA	0.617													76	65	---	---	---	---	PASS	A	41708268	A	A	41708268	3	1	110	1	0	0	0	0	1	0	0	0	11785	1000	35	3	454	3	PGC	6	41708268	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	12628081	41708268	129406799	80	40766										
DEFB114	245928	broad.mit.edu	37	chr6	49928073	49928073	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tcttggtaaggaacatatgtCtatttgcttttcactctcaa	6	8	4	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr6:49928073C>G	uc011dwp.1	-	2	142	c.142G>C	c.(142-144)GAC>CAC	p.D48H		NM_001037499	NP_001032588	Q30KQ6	DB114_HUMAN	beta-defensin 114 precursor	48					defense response to bacterium	extracellular region				ovary(1)	1	Lung NSC(77;0.042)					GAACATATGTCTATTTGCTTT	0.373													34	36	---	---	---	---	PASS	G	49928073	G	G	49928073	3	3	110	1	0	0	0	0	1	0	0	0	4403	913	32	2	70	2	DEFB114	6	49928073	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	8219805	49928073	121186994	81	40767										
PAQR8	85315	broad.mit.edu	37	chr6	52268797	52268797	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctggttagcgcttatttcttCtcctgccccgtgcctgagaa	9	13	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr6:52268797C>T	uc003pao.3	+	2	960	c.786C>T	c.(784-786)TTC>TTT	p.F262F		NM_133367	NP_588608	Q8TEZ7	MPRB_HUMAN	progestin and adipoQ receptor family member	262	Helical; Name=5; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding				0	Lung NSC(77;0.0875)					CTTATTTCTTCTCCTGCCCCG	0.577													46	50	---	---	---	---	PASS	T	52268797	T	T	52268797	2	4	110	1	0	0	0	0	0	0	0	1	11441	912	32	2		2	PAQR8	6	52268797	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	2340724	52268797	118846270	82	40768										
DST	667	broad.mit.edu	37	chr6	56350253	56350253	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tccagaaaataacagggcttCctccaatttgttttgtctag	7	9	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr6:56350253C>T	uc003pdf.2	-	82	14735	c.14707G>A	c.(14707-14709)GAA>AAA	p.E4903K	DST_uc003pcz.3_Missense_Mutation_p.E4725K|DST_uc011dxj.1_Missense_Mutation_p.E4754K|DST_uc011dxk.1_Missense_Mutation_p.E4765K|DST_uc003pcy.3_Missense_Mutation_p.E4399K|DST_uc003pda.3_Missense_Mutation_p.E95K	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6811	Spectrin 18.				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)			AACAGGGCTTCCTCCAATTTG	0.388													17	30	---	---	---	---	PASS	T	56350253	T	T	56350253	3	4	110	1	0	0	0	0	1	0	0	0	4783	864	30	2	2384	2	DST	6	56350253	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	4081456	56350253	114764814	83	40769										
DST	667	broad.mit.edu	37	chr6	56497780	56497780	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cttccagaaaatcttcaaaaCgagattgtagattacttaga	6	7	2	4			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr6:56497780C>T	uc003pdf.2	-	27	3606	c.3578G>A	c.(3577-3579)CGT>CAT	p.R1193H	DST_uc003pcz.3_Missense_Mutation_p.R1015H|DST_uc011dxj.1_Missense_Mutation_p.R1044H|DST_uc011dxk.1_Missense_Mutation_p.R1055H|DST_uc003pcy.3_Missense_Mutation_p.R689H|DST_uc003pdb.2_Missense_Mutation_p.R689H|DST_uc003pdc.3_Missense_Mutation_p.R689H|DST_uc003pdd.3_Missense_Mutation_p.R689H	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	1015					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	p.R689H(1)|p.R1015H(1)		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)			ATCTTCAAAACGAGATTGTAG	0.358													15	108	---	---	---	---	PASS	T	56497780	T	T	56497780	3	4	110	1	0	0	0	0	1	0	0	0	4783	536	19	1	18373	1	DST	6	56497780	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	147527	56497780	114617287	84	40770										
SLC17A5	26503	broad.mit.edu	37	chr6	74331542	74331542	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cttacctcttgaacattgaaCcttaggatctccttcatata	4	11	3	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr6:74331542C>T	uc003phn.3	-	7	1091	c.963G>A	c.(961-963)AGG>AGA	p.R321R	SLC17A5_uc010kax.2_Intron|SLC17A5_uc010kay.2_RNA|SLC17A5_uc011dyo.1_Silent_p.R190R	NM_012434	NP_036566	Q9NRA2	S17A5_HUMAN	sialin	321					anion transport	integral to plasma membrane|lysosomal membrane|membrane fraction	sialic acid:hydrogen symporter activity			skin(5)|central_nervous_system(1)	6						GAACATTGAACCTTAGGATCT	0.323													15	29	---	---	---	---	PASS	T	74331542	T	T	74331542	2	4	110	1	0	0	0	0	0	0	0	1	14420	506	18	3		3	SLC17A5	6	74331542	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	17833762	74331542	96783525	85	40771										
PHIP	55023	broad.mit.edu	37	chr6	79752705	79752705	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	atttcccattcagcttccttGaaaacagagtatccgctacc	5	13	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr6:79752705G>A	uc003pir.2	-	7	681	c.455C>T	c.(454-456)TCA>TTA	p.S152L	PHIP_uc011dyp.1_Missense_Mutation_p.S152L	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	152					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)		CAGCTTCCTTGAAAACAGAGT	0.353													142	140	---	---	---	---	PASS	A	79752705	A	A	79752705	3	1	110	1	0	0	0	0	1	0	0	0	11842	1294	45	2	5146	2	PHIP	6	79752705	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	5421163	79752705	91362362	86	40772										
LAMA2	3908	broad.mit.edu	37	chr6	129775399	129775399	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	agtacccagatttgactattGatgactcatattggtaccgt	8	8	1	4			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr6:129775399G>A	uc003qbn.2	+	46	6778	c.6673G>A	c.(6673-6675)GAT>AAT	p.D2225N	LAMA2_uc003qbo.2_Missense_Mutation_p.D2225N	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2225	Laminin G-like 1.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TTTGACTATTGATGACTCATA	0.368													26	53	---	---	---	---	PASS	A	129775399	A	A	129775399	3	1	110	1	0	0	0	0	1	0	0	0	8606	1290	45	2	6859	2	LAMA2	6	129775399	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	50022694	129775399	41339668	87	40773										
FAM20C	56975	broad.mit.edu	37	chr7	195587	195587	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gctgaaggtgcagaattcctCtcccccggggaggcggccgt	15	13	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:195587C>G	uc003sip.2	+	2	870	c.639C>G	c.(637-639)CTC>CTG	p.L213L		NM_020223	NP_064608	Q8IXL6	DMP4_HUMAN	family with sequence similarity 20, member C	213						extracellular region					0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.57e-17)|Epithelial(4;1.26e-16)|all cancers(6;4.79e-14)		CAGAATTCCTCTCCCCCGGGG	0.612													10	16	---	---	---	---	PASS	G	195587	G	G	195587	2	3	110	1	0	0	0	0	0	0	0	1	5539	900	32	2		2	FAM20C	7	195587	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08		195587	158943076	88	40774										
DNAH11	8701	broad.mit.edu	37	chr7	21584665	21584665	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aaacttgtttttatttccaaGaagattactgaaagcattgg	7	5	0	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:21584665G>A	uc003svc.2	+	2	424	c.393G>A	c.(391-393)AAG>AAA	p.K131K		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	131	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TTATTTCCAAGAAGATTACTG	0.343									Kartagener_syndrome				10	5	---	---	---	---	PASS	A	21584665	A	A	21584665	2	1	110	1	0	0	0	0	0	0	0	1	4599	933	33	2		2	DNAH11	7	21584665	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	21389078	21584665	137553998	89	40775										
FAM126A	84668	broad.mit.edu	37	chr7	23018024	23018024	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gaagcaactgctcctctccaCtgcgatagaattcaaagagc	8	12	2	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:23018024C>A	uc003svm.3	-	4	452	c.197G>T	c.(196-198)AGT>ATT	p.S66I	FAM126A_uc003svn.3_5'UTR|FAM126A_uc011jyr.1_Missense_Mutation_p.S32I	NM_032581	NP_115970	Q9BYI3	HYCCI_HUMAN	family with sequence similarity 126, member A	66						cytoplasm|membrane	signal transducer activity			central_nervous_system(1)	1						CTCCTCTCCACTGCGATAGAA	0.423													26	12	---	---	---	---	PASS	A	23018024	A	A	23018024	3	1	110	1	0	0	0	0	1	0	0	0	5429	565	20	3	1400	3	FAM126A	7	23018024	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	1433359	23018024	136120639	90	40776										
ELMO1	9844	broad.mit.edu	37	chr7	37264527	37264527	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gccgatggtgatctcctgcgCcactttctggtagaggtcat	12	11	3	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:37264527C>A	uc003tfk.1	-	9	965	c.658G>T	c.(658-660)GCG>TCG	p.A220S	ELMO1_uc011kbc.1_Missense_Mutation_p.A124S|ELMO1_uc010kxg.1_Missense_Mutation_p.A220S	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	220					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						ATCTCCTGCGCCACTTTCTGG	0.527													61	22	---	---	---	---	PASS	A	37264527	A	A	37264527	3	1	110	1	0	0	0	0	1	0	0	0	5065	739	26	3	1581	3	ELMO1	7	37264527	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	14246503	37264527	121874136	91	40777										
RALA	5898	broad.mit.edu	37	chr7	39729980	39729980	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gtgtgtttttatcttttctaGtttgtggaggactatgagcc	11	5	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:39729980G>A	uc003thd.2	+	3	415	c.115_splice	c.e3-1	p.F39_splice		NM_005402	NP_005393	P11233	RALA_HUMAN	ras related v-ral simian leukemia viral oncogene						actin cytoskeleton reorganization|cell cycle|chemotaxis|cytokinesis|exocytosis|interspecies interaction between organisms|membrane raft localization|nerve growth factor receptor signaling pathway|positive regulation of filopodium assembly|Ras protein signal transduction|regulation of exocytosis	cell surface|cleavage furrow|cytosol|midbody|plasma membrane	Edg-2 lysophosphatidic acid receptor binding|GTP binding|GTPase activity			lung(1)|skin(1)	2						ATCTTTTCTAGTTTGTGGAGG	0.299													52	51	---	---	---	---	PASS	A	39729980	A	A	39729980	5	1	110	1	0	0	0	0	0	0	1	0	13010	1043	36	3	120	3	RALA	7	39729980	Splice_Site	SNP	G	TCGA-46-6026-01A-11D-1817-08	2465453	39729980	119408683	92	40778										
GCK	2645	broad.mit.edu	37	chr7	44228546	44228546	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctccatcctggctctgtcgtCcagcatctgcacagcagcca	8	17	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:44228546C>A	uc003tkl.2	-	1	477	c.7G>T	c.(7-9)GAC>TAC	p.D3Y		NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	3					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						GCTCTGTCGTCCAGCATCTGC	0.597													9	27	---	---	---	---	PASS	A	44228546	A	A	44228546	3	1	110	1	0	0	0	0	1	0	0	0	6293	855	30	2	1528	2	GCK	7	44228546	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	4498566	44228546	114910117	93	40779										
ZPBP	11055	broad.mit.edu	37	chr7	50121417	50121417	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	accattggaatgatgggtctAtcagttcagcatttcgcagt	10	8	3	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:50121417A>T	uc003tou.2	-	3	357	c.287T>A	c.(286-288)ATA>AAA	p.I96K	ZPBP_uc011kci.1_Missense_Mutation_p.I22K|ZPBP_uc010kyw.2_Missense_Mutation_p.I96K	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	96					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					TGATGGGTCTATCAGTTCAGC	0.348													28	17	---	---	---	---	PASS	T	50121417	T	T	50121417	3	4	110	1	0	0	0	0	1	0	0	0	18216	449	16	5	792	5	ZPBP	7	50121417	Missense_Mutation	SNP	A	TCGA-46-6026-01A-11D-1817-08	5892871	50121417	109017246	94	40780										
CLIP2	7461	broad.mit.edu	37	chr7	73774519	73774519	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gcccagtatgttgcagaagcCgaggagaagctgcagcgagc	15	10	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:73774519C>T	uc003uam.2	+	7	1557	c.1230C>T	c.(1228-1230)GCC>GCT	p.A410A	CLIP2_uc003uan.2_Silent_p.A410A	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	410	Potential.					microtubule associated complex				skin(3)	3						TTGCAGAAGCCGAGGAGAAGC	0.637													7	11	---	---	---	---	PASS	T	73774519	T	T	73774519	2	4	110	1	0	0	0	0	0	0	0	1	3533	639	23	1		1	CLIP2	7	73774519	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	23653102	73774519	85364144	95	40781										
GTF2I	2969	broad.mit.edu	37	chr7	74103545	74103545	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggtggtgacattcctcatgtCagctctcgagtccatggtga	12	10	3	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:74103545C>T	uc003uau.2	+	2	453	c.83C>T	c.(82-84)TCA>TTA	p.S28L	GTF2I_uc003uat.2_Missense_Mutation_p.S28L|GTF2I_uc003uav.2_Missense_Mutation_p.S28L|GTF2I_uc003uaw.2_Missense_Mutation_p.S28L|GTF2I_uc003uay.2_Missense_Mutation_p.S28L|GTF2I_uc003uax.2_Missense_Mutation_p.S28L	NM_032999	NP_127492	P78347	GTF2I_HUMAN	general transcription factor IIi isoform 1	28					negative regulation of angiogenesis|signal transduction|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0						TTCCTCATGTCAGCTCTCGAG	0.498													10	45	---	---	---	---	PASS	T	74103545	T	T	74103545	3	4	110	1	0	0	0	0	1	0	0	0	6867	838	29	2	85	2	GTF2I	7	74103545	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	329026	74103545	85035118	96	40782										
CACNA2D1	781	broad.mit.edu	37	chr7	81643795	81643795	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tgaaaacgtgaatacacgtaCctggatgaattgaaaaatag	9	5	0	4			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:81643795C>A	uc003uhr.1	-	13	1400	c.1144G>T	c.(1144-1146)GTA>TTA	p.V382L	uc003uhs.1_Intron	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	382	Extracellular (Potential).|VWFA.					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	AATACACGTACCTGGATGAAT	0.333													10	33	---	---	---	---	PASS	A	81643795	A	A	81643795	3	1	110	1	0	0	0	0	1	0	0	0	2548	521	18	3	2239	3	CACNA2D1	7	81643795	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	7540250	81643795	77494868	97	40783										
SLC12A9	56996	broad.mit.edu	37	chr7	100453423	100453423	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gctgtgccgtctccctcctgGggctggtggagtctgtgctt	15	12	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:100453423G>A	uc003uwp.2	+	4	554	c.412G>A	c.(412-414)GGG>AGG	p.G138R	SLC12A9_uc003uwo.1_Intron|SLC12A9_uc003uwq.2_Intron|SLC12A9_uc011kki.1_Intron|SLC12A9_uc003uwr.2_5'UTR|SLC12A9_uc003uws.2_5'UTR|SLC12A9_uc003uwt.2_5'Flank|SLC12A9_uc003uwv.2_5'Flank	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	138	Helical; (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					CTCCCTCCTGGGGCTGGTGGA	0.617													52	46	---	---	---	---	PASS	A	100453423	A	A	100453423	3	1	110	1	0	0	0	0	1	0	0	0	14390	1232	43	3	422	3	SLC12A9	7	100453423	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	18809628	100453423	58685240	98	40784										
VGF	7425	broad.mit.edu	37	chr7	100807347	100807347	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggacaggggtgccaatgcctCgcctaggtgtgttttggggg	18	8	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:100807347C>T	uc003uxx.3	-	2	996	c.778G>A	c.(778-780)GAG>AAG	p.E260K		NM_003378	NP_003369	O15240	VGF_HUMAN	VGF nerve growth factor inducible precursor	260					response to cAMP	extracellular space|transport vesicle	growth factor activity				0	Lung NSC(181;0.168)|all_lung(186;0.215)					GCCAATGCCTCGCCTAGGTGT	0.662													10	42	---	---	---	---	PASS	T	100807347	T	T	100807347	3	4	110	1	0	0	0	0	1	0	0	0	17154	893	31	2	1073	2	VGF	7	100807347	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	353924	100807347	58331316	99	40785										
ING3	54556	broad.mit.edu	37	chr7	120608024	120608024	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttccacagcctcttctaacaAtgcctacaatgtgaattcct	4	13	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:120608024A>G	uc003vjn.2	+	8	727	c.593A>G	c.(592-594)AAT>AGT	p.N198S	ING3_uc003vjo.2_5'UTR|ING3_uc003vjp.2_Missense_Mutation_p.N198S|ING3_uc011kns.1_Missense_Mutation_p.N183S	NM_019071	NP_061944	Q9NXR8	ING3_HUMAN	inhibitor of growth family, member 3 isoform 1	198					histone H2A acetylation|histone H4 acetylation|positive regulation of apoptosis|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|Piccolo NuA4 histone acetyltransferase complex	zinc ion binding			ovary(1)	1	all_neural(327;0.117)					TCTTCTAACAATGCCTACAAT	0.398													45	28	---	---	---	---	PASS	G	120608024	G	G	120608024	3	3	110	1	0	0	0	0	1	0	0	0	7737	101	4	5	639	5	ING3	7	120608024	Missense_Mutation	SNP	A	TCGA-46-6026-01A-11D-1817-08	19800677	120608024	38530639	100	40786										
PLXNA4	91584	broad.mit.edu	37	chr7	131883346	131883346	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ccaggcccaggttctcccctCggatagtgaccttggtgccc	11	16	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:131883346C>A	uc003vra.3	-	13	2865	c.2636G>T	c.(2635-2637)CGA>CTA	p.R879L		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	879	IPT/TIG 1.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GTTCTCCCCTCGGATAGTGAC	0.552													3	64	---	---	---	---	PASS	A	131883346	A	A	131883346	3	1	110	1	0	0	0	0	1	0	0	0	12122	884	31	2	3128	2	PLXNA4	7	131883346	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	11275322	131883346	27255317	101	40787										
CHRM2	1129	broad.mit.edu	37	chr7	136700855	136700855	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tcattaacaccttttgtgcaCcttgcatccccaacactgtg	5	14	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:136700855C>A	uc003vtf.1	+	4	1866	c.1243C>A	c.(1243-1245)CCT>ACT	p.P415T	CHRM2_uc003vtg.1_Missense_Mutation_p.P415T|CHRM2_uc003vtj.1_Missense_Mutation_p.P415T|CHRM2_uc003vtk.1_Missense_Mutation_p.P415T|CHRM2_uc003vtl.1_Missense_Mutation_p.P415T|CHRM2_uc003vtm.1_Missense_Mutation_p.P415T|CHRM2_uc003vti.1_Missense_Mutation_p.P415T|CHRM2_uc003vto.1_Missense_Mutation_p.P415T|CHRM2_uc003vtn.1_Missense_Mutation_p.P415T|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	415	Extracellular (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	CTTTTGTGCACCTTGCATCCC	0.458													86	56	---	---	---	---	PASS	A	136700855	A	A	136700855	3	1	110	1	0	0	0	0	1	0	0	0	3377	507	18	3	1245	3	CHRM2	7	136700855	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	4817509	136700855	22437808	102	40788										
EPHA1	2041	broad.mit.edu	37	chr7	143095862	143095862	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggcccccggcgagaagtgcaCgcccaccccacagggctggc	14	18	0	1	rs145891509		TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:143095862C>T	uc003wcz.2	-	6	1255	c.1168G>A	c.(1168-1170)GTG>ATG	p.V390M		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	390	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				GAGAAGTGCACGCCCACCCCA	0.612													19	22	---	---	---	---	PASS	T	143095862	T	T	143095862	3	4	110	1	0	0	0	0	1	0	0	0	5165	536	19	1	1814	1	EPHA1	7	143095862	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	6395007	143095862	16042801	103	40789										
OR2A25	392138	broad.mit.edu	37	chr7	143772025	143772025	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggggtgccagaaagccttctCcatctgctcctcccacctct	8	17	3	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:143772025C>G	uc011ktx.1	+	1	713	c.713C>G	c.(712-714)TCC>TGC	p.S238C		NM_001004488	NP_001004488	A4D2G3	O2A25_HUMAN	olfactory receptor, family 2, subfamily A,	238	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					AAAGCCTTCTCCATCTGCTCC	0.483													39	89	---	---	---	---	PASS	G	143772025	G	G	143772025	3	3	110	1	0	0	0	0	1	0	0	0	10978	855	30	2	715	2	OR2A25	7	143772025	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	676163	143772025	15366638	104	40790										
KRBA1	84626	broad.mit.edu	37	chr7	149418023	149418023	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gaagtcaagggcgctatggaCagccccgagagcgagagccg	16	11	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:149418023C>A	uc003wfz.2	+	4	651	c.252C>A	c.(250-252)GAC>GAA	p.D84E	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_5'Flank	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	84										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GCGCTATGGACAGCCCCGAGA	0.647													22	16	---	---	---	---	PASS	A	149418023	A	A	149418023	3	1	110	1	0	0	0	0	1	0	0	0	8439	477	17	3	262	3	KRBA1	7	149418023	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	5645998	149418023	9720640	105	40791										
DPP6	1804	broad.mit.edu	37	chr7	154587594	154587594	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aggcctggctccacagacagGtaactactgcatgtccgggt	12	12	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr7:154587594G>T	uc003wlk.2	+	12	1428	c.1299_splice	c.e12+1	p.Q433_splice	DPP6_uc003wli.2_Splice_Site_p.Q369_splice|DPP6_uc003wlm.2_Splice_Site_p.Q371_splice|DPP6_uc011kvq.1_Splice_Site_p.Q326_splice	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1						cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CCACAGACAGGTAACTACTGC	0.463													6	3	---	---	---	---	PASS	T	154587594	T	T	154587594	5	4	110	1	0	0	0	0	0	0	1	0	4730	1275	44	3	1462	3	DPP6	7	154587594	Splice_Site	SNP	G	TCGA-46-6026-01A-11D-1817-08	5169571	154587594	4551069	106	40792										
ERI1	90459	broad.mit.edu	37	chr8	8873831	8873831	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cttgctatccttcccttgcaGgaagacacgtttcagcagta	8	12	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:8873831G>T	uc011kwu.1	+	4	759	c.499_splice	c.e4-1	p.E167_splice	ERI1_uc003wsk.2_Splice_Site_p.E167_splice	NM_153332	NP_699163	Q8IV48	ERI1_HUMAN	three prime histone mRNA exonuclease 1						gene silencing by RNA|rRNA 3'-end processing	cytoplasm|histone pre-mRNA 3'end processing complex|nucleolus	3'-5' exonuclease activity|histone pre-mRNA stem-loop binding|metal ion binding|ribosome binding|rRNA binding				0					Adenosine monophosphate(DB00131)	TTCCCTTGCAGGAAGACACGT	0.373													78	96	---	---	---	---	PASS	T	8873831	T	T	8873831	5	4	110	1	0	0	0	0	0	0	1	0	5227	1014	35	3	512	3	ERI1	8	8873831	Splice_Site	SNP	G	TCGA-46-6026-01A-11D-1817-08		8873831	137490191	107	40793										
RP1L1	94137	broad.mit.edu	37	chr8	10480563	10480563	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cgcgctggtgaacggccaggCggaccccagcaaaccgtgga	15	14	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:10480563C>T	uc003wtc.2	-	2	378	c.149G>A	c.(148-150)CGC>CAC	p.R50H		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	50					intracellular signal transduction			p.R50H(1)		ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		AACGGCCAGGCGGACCCCAGC	0.637													31	42	---	---	---	---	PASS	T	10480563	T	T	10480563	3	4	110	1	0	0	0	0	1	0	0	0	13533	768	27	1	7065	1	RP1L1	8	10480563	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	1606732	10480563	135883459	108	40794										
BLK	640	broad.mit.edu	37	chr8	11414226	11414226	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tgaaggagggaaccatgtctCcagaagcctttctgggtgag	14	8	2	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:11414226C>G	uc003wty.2	+	9	1413	c.832C>G	c.(832-834)CCA>GCA	p.P278A	BLK_uc003wtz.2_Missense_Mutation_p.P207A	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	278	Protein kinase.				intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		AACCATGTCTCCAGAAGCCTT	0.537													40	50	---	---	---	---	PASS	G	11414226	G	G	11414226	3	3	110	1	0	0	0	0	1	0	0	0	1444	855	30	2	862	2	BLK	8	11414226	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	933663	11414226	134949796	109	40795										
POLR3D	661	broad.mit.edu	37	chr8	22107639	22107639	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tggctgacctgacagagggtCaggttggcaagctactcatc	13	10	2	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:22107639C>T	uc003xbl.2	+	8	1056	c.973C>T	c.(973-975)CAG>TAG	p.Q325*	POLR3D_uc003xbm.2_Nonsense_Mutation_p.Q325*|POLR3D_uc011kze.1_RNA	NM_001722	NP_001713	P05423	RPC4_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	325					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity				0				Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		GACAGAGGGTCAGGTTGGCAA	0.562													36	42	---	---	---	---	PASS	T	22107639	T	T	22107639	4	4	110	1	0	0	0	0	0	1	0	0	12231	827	29	2	999	2	POLR3D	8	22107639	Nonsense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	10693413	22107639	124256383	110	40796										
ZNF703	80139	broad.mit.edu	37	chr8	37553580	37553580	+	Frame_Shift_Del	DEL	C	-	-													0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cggcggcgggaagaggccggCggtgccggcagcggtgtccc							TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:37553580delC	uc003xjy.1	+	1	280	c.83delC	c.(82-84)GCGfs	p.A28fs		NM_025069	NP_079345	Q9H7S9	ZN703_HUMAN	zinc finger protein 703	28					adherens junction assembly|mammary gland epithelial cell differentiation|negative regulation of homotypic cell-cell adhesion|negative regulation of transcription, DNA-dependent|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of mammary gland epithelial cell proliferation|regulation of canonical Wnt receptor signaling pathway|regulation of cell cycle|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			breast(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(5;7.93e-25)|LUSC - Lung squamous cell carcinoma(8;1.05e-09)			AAGAGGCCGGCGGTGCCGGCA	0.582													4	2	---	---	---	---		-	37553580	-	-	37553580	7	5	110	1	0	1	0	1	0	0	0	0	18103	768	27	0	85	0	ZNF703	8	37553580	Frame_Shift_Del	DEL	C	TCGA-46-6026-01A-11D-1817-08	15445941	37553580	108810442	111	40797										
ST18	9705	broad.mit.edu	37	chr8	53092850	53092850	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttcagctgttctcttctttgCcatggagcaatcataggcaa	8	10	4	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:53092850C>A	uc003xqz.2	-	4	265	c.109G>T	c.(109-111)GCA>TCA	p.A37S	ST18_uc011ldq.1_5'UTR|ST18_uc011ldr.1_Missense_Mutation_p.A2S|ST18_uc011lds.1_5'UTR|ST18_uc003xra.2_Missense_Mutation_p.A37S|ST18_uc003xrb.2_Missense_Mutation_p.A37S|ST18_uc010lyb.2_RNA	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	37						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				CTCTTCTTTGCCATGGAGCAA	0.418													80	109	---	---	---	---	PASS	A	53092850	A	A	53092850	3	1	110	1	0	0	0	0	1	0	0	0	15211	739	26	3	3106	3	ST18	8	53092850	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	15539270	53092850	93271172	112	40798										
CHD7	55636	broad.mit.edu	37	chr8	61655236	61655236	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cctcctccacaagtcaggccGggaagtgctgggataccaat	11	13	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:61655236G>A	uc003xue.2	+	2	1722	c.1245G>A	c.(1243-1245)CCG>CCA	p.P415P		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	415	Pro-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)			AAGTCAGGCCGGGAAGTGCTG	0.547													19	105	---	---	---	---	PASS	A	61655236	A	A	61655236	2	1	110	1	0	0	0	0	0	0	0	1	3330	1103	39	1		1	CHD7	8	61655236	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	8562386	61655236	84708786	113	40799										
ARFGEF1	10565	broad.mit.edu	37	chr8	68178322	68178322	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tatcagtgccagacatctgtGtactgtagctgcctattcct	8	11	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:68178322G>A	uc003xxo.1	-	14	2432	c.2042C>T	c.(2041-2043)ACA>ATA	p.T681I	ARFGEF1_uc003xxl.1_Missense_Mutation_p.T135I	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	681					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			AGACATCTGTGTACTGTAGCT	0.378													32	50	---	---	---	---	PASS	A	68178322	A	A	68178322	3	1	110	1	0	0	0	0	1	0	0	0	852	1377	48	3	3611	3	ARFGEF1	8	68178322	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	6523086	68178322	78185700	114	40800										
CDH17	1015	broad.mit.edu	37	chr8	95189937	95189937	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttcaaaagtcacagcaggagGattggccttaaactggggaa	12	7	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:95189937G>C	uc003ygh.2	-	4	288	c.163C>G	c.(163-165)CCT>GCT	p.P55A	CDH17_uc011lgo.1_Missense_Mutation_p.P55A|CDH17_uc011lgp.1_Missense_Mutation_p.P55A	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	55	Extracellular (Potential).|Cadherin 1.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			ACAGCAGGAGGATTGGCCTTA	0.393													29	31	---	---	---	---	PASS	C	95189937	C	C	95189937	3	2	110	1	0	0	0	0	1	0	0	0	3102	1174	41	2	2395	2	CDH17	8	95189937	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	27011615	95189937	51174085	115	40801										
ENPP2	5168	broad.mit.edu	37	chr8	120633675	120633675	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tggtacagcagtctcccctgGccaagcagtcctctgagcag	11	14	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:120633675G>C	uc003yot.1	-	4	463	c.377C>G	c.(376-378)GCC>GGC	p.A126G	ENPP2_uc003yos.1_Missense_Mutation_p.A126G|ENPP2_uc010mdd.1_Missense_Mutation_p.A126G	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	126	SMB 2.				cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GTCTCCCCTGGCCAAGCAGTC	0.468													36	51	---	---	---	---	PASS	C	120633675	C	C	120633675	3	2	110	1	0	0	0	0	1	0	0	0	5130	1203	42	4	2541	4	ENPP2	8	120633675	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	25443738	120633675	25730347	116	40802										
NDUFB9	4715	broad.mit.edu	37	chr8	125562116	125562116	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggtatattgtgaccagacccCgggagcggcccatgtagaaa	13	10	0	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:125562116C>T	uc003yrg.3	+	4	608	c.523C>T	c.(523-525)CGG>TGG	p.R175W	NDUFB9_uc011lim.1_Intron	NM_005005	NP_004996	Q9Y6M9	NDUB9_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	175					mitochondrial electron transport, NADH to ubiquinone|sensory perception of sound|transport	mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			ovary(1)|skin(1)	2	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)		NADH(DB00157)	GACCAGACCCCGGGAGCGGCC	0.488													28	35	---	---	---	---	PASS	T	125562116	T	T	125562116	3	4	110	1	0	0	0	0	1	0	0	0	10288	643	23	1	537	1	NDUFB9	8	125562116	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	4928441	125562116	20801906	117	40803										
CPSF1	29894	broad.mit.edu	37	chr8	145619352	145619352	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gggcaggtacatgtacaccaTgaggttgcggtcgcggtcag	16	9	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:145619352T>C	uc003zcj.2	-	34	3910	c.3835A>G	c.(3835-3837)ATG>GTG	p.M1279V		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	1279					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	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;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			ATGTACACCATGAGGTTGCGG	0.677													18	23	---	---	---	---	PASS	C	145619352	C	C	145619352	3	2	110	1	0	0	0	0	1	0	0	0	3824	1464	51	5	516	5	CPSF1	8	145619352	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	20057236	145619352	744670	118	40804										
LRRC24	441381	broad.mit.edu	37	chr8	145748500	145748500	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctgggctcgcggccggccctCgcgaggctggggcacctttc	16	16	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr8:145748500C>G	uc003zdm.2	-	5	1033	c.901G>C	c.(901-903)GAG>CAG	p.E301Q	LRRC24_uc003zdn.2_Missense_Mutation_p.E298Q|LRRC14_uc003zdk.1_3'UTR|LRRC14_uc003zdl.1_3'UTR|LRRC14_uc003zdo.2_RNA	NM_001024678	NP_001019849	Q50LG9	LRC24_HUMAN	leucine rich repeat containing 24 precursor	301	Ig-like C2-type.					integral to membrane					0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			GGCCGGCCCTCGCGAGGCTGG	0.692													9	16	---	---	---	---	PASS	G	145748500	G	G	145748500	3	3	110	1	0	0	0	0	1	0	0	0	8979	893	31	2	644	2	LRRC24	8	145748500	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	129148	145748500	615522	119	40805										
KIAA1797	54914	broad.mit.edu	37	chr9	20912887	20912887	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aagactaggagagctggagtTgcagttaaaacatggaaaag	13	4	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr9:20912887T>C	uc003zog.1	+	25	3104	c.2741T>C	c.(2740-2742)TTG>TCG	p.L914S	KIAA1797_uc003zoh.1_Missense_Mutation_p.L350S	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	914						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		GAGCTGGAGTTGCAGTTAAAA	0.418													30	10	---	---	---	---	PASS	C	20912887	C	C	20912887	3	2	110	1	0	0	0	0	1	0	0	0	8258	1821	63	5	2827	5	KIAA1797	9	20912887	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08		20912887	120300544	120	40806										
HNRNPK	3190	broad.mit.edu	37	chr9	86591925	86591925	+	Missense_Mutation	SNP	C	G	G													0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cttacgtctgtacggagagcCttaatattcttgcctccttt							TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr9:86591925C>G	uc004ang.3	-	5	422	c.198G>C	c.(196-198)AAG>AAC	p.K66N	HNRNPK_uc011lsw.1_5'Flank|HNRNPK_uc004and.3_5'Flank|HNRNPK_uc004ank.3_Missense_Mutation_p.K66N|HNRNPK_uc004anf.3_Missense_Mutation_p.K66N|HNRNPK_uc004anh.3_Missense_Mutation_p.K66N|HNRNPK_uc011lsx.1_Missense_Mutation_p.K66N|HNRNPK_uc004ani.3_Missense_Mutation_p.K66N|HNRNPK_uc004anj.3_Missense_Mutation_p.K66N|HNRNPK_uc004ann.3_Missense_Mutation_p.K66N|HNRNPK_uc004anl.3_Missense_Mutation_p.K66N|HNRNPK_uc004anm.3_Missense_Mutation_p.K66N	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	66	1-1.|2 X 22 AA approximate repeats.|5 X 4 AA repeats of G-X-G-G.|KH 1.|Necessary for interaction with DDX1.|Interaction with ASFV p30.				interspecies interaction between organisms|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of low-density lipoprotein particle clearance|signal transduction	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nuclear chromatin|nucleoplasm	protein binding|RNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|single-stranded DNA binding			skin(1)	1						TACGGAGAGCCTTAATATTCT	0.343													21	5	---	---	---	---	PASS	G	86591925	G	G	86591925	3	3	110	1	0	0	0	0	1	0	0	0	7269	680	24	4	1283	4	HNRNPK	9	86591925	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	65679038	86591925	54621506	121	40807	762	2								
HNRNPK	3190	broad.mit.edu	37	chr9	86591934	86591934	+	Silent	SNP	C	T	T													0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gtacggagagccttaatattCttgcctccttttccaatcac							TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr9:86591934C>T	uc004ang.3	-	5	413	c.189G>A	c.(187-189)AAG>AAA	p.K63K	HNRNPK_uc011lsw.1_5'Flank|HNRNPK_uc004and.3_5'Flank|HNRNPK_uc004ank.3_Silent_p.K63K|HNRNPK_uc004anf.3_Silent_p.K63K|HNRNPK_uc004anh.3_Silent_p.K63K|HNRNPK_uc011lsx.1_Silent_p.K63K|HNRNPK_uc004ani.3_Silent_p.K63K|HNRNPK_uc004anj.3_Silent_p.K63K|HNRNPK_uc004ann.3_Silent_p.K63K|HNRNPK_uc004anl.3_Silent_p.K63K|HNRNPK_uc004anm.3_Silent_p.K63K	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	63	1-1.|2 X 22 AA approximate repeats.|5 X 4 AA repeats of G-X-G-G.|KH 1.|Necessary for interaction with DDX1.|Interaction with ASFV p30.				interspecies interaction between organisms|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of low-density lipoprotein particle clearance|signal transduction	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nuclear chromatin|nucleoplasm	protein binding|RNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|single-stranded DNA binding			skin(1)	1						CCTTAATATTCTTGCCTCCTT	0.353													20	6	---	---	---	---	PASS	T	86591934	T	T	86591934	2	4	110	1	0	0	0	0	0	0	0	1	7269	912	32	2		2	HNRNPK	9	86591934	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	9	86591934	54621497	122	40808	762	2								
CEP110	11064	broad.mit.edu	37	chr9	123908435	123908435	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gaagaaattgctgaacttcgAcgtgaagtttcttatcagaa	9	6	2	4			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr9:123908435A>T	uc004bkx.1	+	21	3391	c.3360A>T	c.(3358-3360)CGA>CGT	p.R1120R	CEP110_uc004bky.1_Silent_p.R724R|CEP110_uc004bla.1_Silent_p.R568R|CEP110_uc010mvo.1_5'UTR	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	1120					cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						CTGAACTTCGACGTGAAGTTT	0.358													36	2	---	---	---	---	PASS	T	123908435	T	T	123908435	2	4	110	1	0	0	0	0	0	0	0	1	3245	262	10	5		5	CEP110	9	123908435	Silent	SNP	A	TCGA-46-6026-01A-11D-1817-08	37316501	123908435	17304996	123	40809										
ZNF79	7633	broad.mit.edu	37	chr9	130206596	130206596	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	caaagccttcagttactgttCttccctttctcagcatcaga	5	13	4	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr9:130206596C>T	uc004bqw.3	+	5	1031	c.617C>T	c.(616-618)TCT>TTT	p.S206F	ZNF79_uc011maf.1_Missense_Mutation_p.S182F|ZNF79_uc011mag.1_Missense_Mutation_p.S182F	NM_007135	NP_009066	Q15937	ZNF79_HUMAN	zinc finger protein 79	206	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						AGTTACTGTTCTTCCCTTTCT	0.483													26	37	---	---	---	---	PASS	T	130206596	T	T	130206596	3	4	110	1	0	0	0	0	1	0	0	0	18158	913	32	2	635	2	ZNF79	9	130206596	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	6298161	130206596	11006835	124	40810										
MSMB	4477	broad.mit.edu	37	chr10	51562373	51562373	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aagaaggacccaaaaaagacCtgttctgtcagtgaatggat	10	7	2	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr10:51562373C>A	uc001jiq.2	+	4	350	c.318C>A	c.(316-318)ACC>ACA	p.T106T	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|MSMB_uc001jir.2_Missense_Mutation_p.P71H|NCOA4_uc009xon.2_5'Flank|NCOA4_uc010qhd.1_5'Flank|NCOA4_uc001jis.3_5'Flank|NCOA4_uc010qhe.1_5'Flank|NCOA4_uc010qhf.1_5'Flank	NM_002443	NP_002434	P08118	MSMB_HUMAN	beta-microseminoprotein isoform a precursor	106						extracellular space|nucleus				ovary(2)	2						CAAAAAAGACCTGTTCTGTCA	0.458									Hereditary_Prostate_Cancer				66	77	---	---	---	---	PASS	A	51562373	A	A	51562373	2	1	110	1	0	0	0	0	0	0	0	1	9883	681	24	3		3	MSMB	10	51562373	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08		51562373	83972374	125	40811										
LRRTM3	347731	broad.mit.edu	37	chr10	68686704	68686704	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aatgtaattaggctactgagCggatcagctgtagcactggt	12	7	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr10:68686704C>T	uc001jmz.1	+	2	580	c.30C>T	c.(28-30)AGC>AGT	p.S10S	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Silent_p.S10S	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	10						integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GGCTACTGAGCGGATCAGCTG	0.413													14	58	---	---	---	---	PASS	T	68686704	T	T	68686704	2	4	110	1	0	0	0	0	0	0	0	1	9041	767	27	1		1	LRRTM3	10	68686704	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	17124331	68686704	66848043	126	40812										
PRF1	5551	broad.mit.edu	37	chr10	72358173	72358173	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	agagcttcacataggcatccGtggcagtgaaccagtccccc	10	14	1	2	rs28933376		TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr10:72358173G>T	uc009xqg.2	-	3	1465	c.1304C>A	c.(1303-1305)ACG>AAG	p.T435K	PRF1_uc001jrf.3_Missense_Mutation_p.T435K	NM_001083116	NP_001076585	P14222	PERF_HUMAN	perforin 1 precursor	435	C2.				apoptosis|cellular defense response|cytolysis|defense response to tumor cell|defense response to virus|immune response to tumor cell|protein homooligomerization	cytolytic granule|endosome lumen|extracellular region|integral to membrane|plasma membrane	calcium ion binding|protein binding|wide pore channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						ATAGGCATCCGTGGCAGTGAA	0.617			M			various leukaemia|lymphoma	Type 2 familial hemophagocytic lymphohistiocytosis		Familial_Hemophagocytic_Lymphohistiocytosis				3	63	---	---	---	---	PASS	T	72358173	T	T	72358173	3	4	110	1	0	0	0	0	1	0	0	0	12478	1145	40	1	367	1	PRF1	10	72358173	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	3671469	72358173	63176574	127	40813										
LRIT2	340745	broad.mit.edu	37	chr10	85981876	85981876	+	Frame_Shift_Del	DEL	C	-	-													0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gctgcaggggccctgggctgCccaggcataggcgcccacag							TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr10:85981876delC	uc001kcy.2	-	3	1461	c.1453delG	c.(1453-1455)GCAfs	p.A485fs	LRIT2_uc010qmc.1_Frame_Shift_Del_p.A495fs	NM_001017924	NP_001017924	A6NDA9	LRIT2_HUMAN	leucine rich repeat containing 22 precursor	485	Helical; (Potential).					integral to membrane				ovary(2)	2						CCCTGGGCTGCCCAGGCATAG	0.657													44	28	---	---	---	---		-	85981876	-	-	85981876	7	5	110	1	0	1	0	1	0	0	0	0	8948	739	26	0	203	0	LRIT2	10	85981876	Frame_Shift_Del	DEL	C	TCGA-46-6026-01A-11D-1817-08	13623703	85981876	49552871	128	40814										
PPP1R3C	5507	broad.mit.edu	37	chr10	93390010	93390011	+	Frame_Shift_Ins	INS	-	A	A													0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aaggtatcactatctgtgccINSaccatacacatttttcatat							TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr10:93390010_93390011insA	uc001kho.2	-	2	759_760	c.627_628insT	c.(625-630)GGTGGCfs	p.G209fs		NM_005398	NP_005389	Q9UQK1	PPR3C_HUMAN	protein phosphatase 1, regulatory (inhibitor)	209_210	Interaction with EPM2A.|CBM21.						protein serine/threonine phosphatase activity			breast(1)	1		Colorectal(252;0.235)				CTATCTGTGCCACCATACACAT	0.391													62	62	---	---	---	---		A	93390011	A	A	93390010	7	5	110	1	0	1	1	0	0	0	0	0	12373	594	21	0	329	0	PPP1R3C	10	93390010	Frame_Shift_Ins	INS	-	TCGA-46-6026-01A-11D-1817-08	7408134	93390010	42144737	129	40815										
DNMBP	23268	broad.mit.edu	37	chr10	101716838	101716838	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gcgctctgggagtgccactgCcggctctgtgaggagaggca	17	11	2	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr10:101716838C>A	uc001kqj.2	-	4	485	c.393G>T	c.(391-393)CGG>CGT	p.R131R	NCRNA00093_uc001kqk.1_RNA	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	131					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		AGTGCCACTGCCGGCTCTGTG	0.622													17	20	---	---	---	---	PASS	A	101716838	A	A	101716838	2	1	110	1	0	0	0	0	0	0	0	1	4674	726	26	3		3	DNMBP	10	101716838	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	8326828	101716838	33817909	130	40816										
ELOVL3	83401	broad.mit.edu	37	chr10	103988611	103988611	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ccttcatcatcctgcgtaagCggccactcatctttattcac	5	15	5	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr10:103988611C>T	uc001kut.2	+	4	578	c.415C>T	c.(415-417)CGG>TGG	p.R139W		NM_152310	NP_689523	Q9HB03	ELOV3_HUMAN	elongation of very long chain fatty acids like	139					fatty acid elongation, monounsaturated fatty acid|fatty acid elongation, polyunsaturated fatty acid|fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding			ovary(2)	2		Colorectal(252;0.207)		Epithelial(162;4.47e-08)|all cancers(201;7.96e-07)		CCTGCGTAAGCGGCCACTCAT	0.537													66	115	---	---	---	---	PASS	T	103988611	T	T	103988611	3	4	110	1	0	0	0	0	1	0	0	0	5075	759	27	1	429	1	ELOVL3	10	103988611	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	2271773	103988611	31546136	131	40817										
PITX3	5309	broad.mit.edu	37	chr10	103990395	103990395	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gccgcaggctggccaggctcGagttacacgggtcccgatag	15	13	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr10:103990395G>T	uc001kuu.1	-	4	939	c.785C>A	c.(784-786)TCG>TAG	p.S262*		NM_005029	NP_005020	O75364	PITX3_HUMAN	paired-like homeodomain 3	262	OAR.				dopaminergic neuron differentiation|lens morphogenesis in camera-type eye|midbrain development|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Colorectal(252;0.00957)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		GGCCAGGCTCGAGTTACACGG	0.562													3	17	---	---	---	---	PASS	T	103990395	T	T	103990395	4	4	110	1	0	0	0	0	0	1	0	0	11956	1059	37	2	127	2	PITX3	10	103990395	Nonsense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	1784	103990395	31544352	132	40818										
PITX3	5309	broad.mit.edu	37	chr10	103990840	103990840	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gcgcttccgccatttggcgcGccggttcttgaaccacacct	10	16	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr10:103990840G>T	uc001kuu.1	-	4	494	c.340C>A	c.(340-342)CGC>AGC	p.R114S		NM_005029	NP_005020	O75364	PITX3_HUMAN	paired-like homeodomain 3	114	Homeobox.				dopaminergic neuron differentiation|lens morphogenesis in camera-type eye|midbrain development|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Colorectal(252;0.00957)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		CATTTGGCGCGCCGGTTCTTG	0.731													3	15	---	---	---	---	PASS	T	103990840	T	T	103990840	3	4	110	1	0	0	0	0	1	0	0	0	11956	1087	38	1	572	1	PITX3	10	103990840	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	445	103990840	31543907	133	40819										
C10orf119	79892	broad.mit.edu	37	chr10	121618678	121618678	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	caaataatgaaggggaacttCgttcagtgatggtaccttaa	10	6	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr10:121618678C>T	uc001ler.2	-	3	458	c.160G>A	c.(160-162)GAA>AAA	p.E54K	C10orf119_uc001les.1_5'UTR	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	54					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)		AGGGGAACTTCGTTCAGTGAT	0.328													20	23	---	---	---	---	PASS	T	121618678	T	T	121618678	3	4	110	1	0	0	0	0	1	0	0	0	1588	893	31	2	1824	2	C10orf119	10	121618678	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	17627838	121618678	13916069	134	40820										
OR51E2	81285	broad.mit.edu	37	chr11	4703724	4703724	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tcttaggcatggtggatgtgGataaggccaggtcaatggct	15	6	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:4703724G>A	uc001lzk.2	-	2	462	c.218C>T	c.(217-219)TCC>TTC	p.S73F		NM_030774	NP_110401	Q9H255	O51E2_HUMAN	olfactory receptor, family 51, subfamily E,	73	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(3)|ovary(2)	5		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;3e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00476)|LUSC - Lung squamous cell carcinoma(625;0.2)		GGTGGATGTGGATAAGGCCAG	0.507													54	39	---	---	---	---	PASS	A	4703724	A	A	4703724	3	1	110	1	0	0	0	0	1	0	0	0	11095	1174	41	2	748	2	OR51E2	11	4703724	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08		4703724	130302792	135	40821										
OR52A5	390054	broad.mit.edu	37	chr11	5153137	5153137	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	taggaagacacaaatgtgggCaatgcatgtattaaaggcct	11	6	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:5153137C>T	uc010qyx.1	-	1	736	c.736G>A	c.(736-738)GCC>ACC	p.A246T		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		CAAATGTGGGCAATGCATGTA	0.398													40	40	---	---	---	---	PASS	T	5153137	T	T	5153137	3	4	110	1	0	0	0	0	1	0	0	0	11110	710	25	3	217	3	OR52A5	11	5153137	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	449413	5153137	129853379	136	40822										
TRIM5	85363	broad.mit.edu	37	chr11	5701330	5701330	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctgtggccgcagtccaggctCaggggttgtgtcaggagttc	16	10	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:5701330C>T	uc001mbm.1	-	2	335	c.78G>A	c.(76-78)CTG>CTA	p.L26L	TRIM5_uc001mbq.1_Silent_p.L26L|TRIM5_uc001mbl.1_RNA|TRIM5_uc001mbn.2_Silent_p.L26L|TRIM5_uc001mbo.2_Silent_p.L26L|TRIM5_uc001mbp.2_Silent_p.L26L	NM_033034	NP_149023	Q9C035	TRIM5_HUMAN	tripartite motif protein TRIM5 isoform alpha	26	RING-type.				interspecies interaction between organisms|protein trimerization|response to virus	cytoplasm|cytoplasmic mRNA processing body	ligase activity|protein binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)|Lung NSC(207;0.138)|all_lung(207;0.221)		Epithelial(150;7.21e-09)|BRCA - Breast invasive adenocarcinoma(625;0.139)		AGTCCAGGCTCAGGGGTTGTG	0.552													57	79	---	---	---	---	PASS	T	5701330	T	T	5701330	2	4	110	1	0	0	0	0	0	0	0	1	16522	813	29	2		2	TRIM5	11	5701330	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	548193	5701330	129305186	137	40823										
ABCC8	6833	broad.mit.edu	37	chr11	17474672	17474672	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aatcatccaagtacctgtatTgctcctctcaagttaattcc	4	12	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:17474672T>C	uc001mnc.2	-	7	1296	c.1170A>G	c.(1168-1170)GCA>GCG	p.A390A	ABCC8_uc010rcy.1_Silent_p.A389A	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	390	Cytoplasmic (By similarity).|ABC transmembrane type-1 1.				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)	GTACCTGTATTGCTCCTCTCA	0.393													21	105	---	---	---	---	PASS	C	17474672	C	C	17474672	2	2	110	1	0	0	0	0	0	0	0	1	58	1799	63	5		5	ABCC8	11	17474672	Silent	SNP	T	TCGA-46-6026-01A-11D-1817-08	11773342	17474672	117531844	138	40824										
PDHX	8050	broad.mit.edu	37	chr11	34938280	34938280	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttccccggccgccgaagcgtAgggctggtgaagggggctct	17	12	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:34938280A>G	uc001mvt.2	+	1	604	c.78A>G	c.(76-78)GTA>GTG	p.V26V	PDHX_uc010rep.1_Intron|PDHX_uc010req.1_Silent_p.V26V|APIP_uc010reo.1_5'Flank|APIP_uc001mvs.2_5'Flank	NM_003477	NP_003468	O00330	ODPX_HUMAN	pyruvate dehydrogenase complex, component X	26					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	acyltransferase activity			kidney(1)	1	all_epithelial(35;0.115)|Lung NSC(22;0.218)|all_lung(20;0.242)	all_hematologic(20;0.124)	STAD - Stomach adenocarcinoma(6;0.00113)			GCCGAAGCGTAGGGCTGGTGA	0.652													14	26	---	---	---	---	PASS	G	34938280	G	G	34938280	2	3	110	1	0	0	0	0	0	0	0	1	11667	407	15	5		5	PDHX	11	34938280	Silent	SNP	A	TCGA-46-6026-01A-11D-1817-08	17463608	34938280	100068236	139	40825										
OR4C15	81309	broad.mit.edu	37	chr11	55322751	55322751	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gctttttcccttgacaaaatGgcggcaatattttatatcat	6	8	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:55322751G>A	uc010rig.1	+	1	969	c.969G>A	c.(967-969)ATG>ATA	p.M323I		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	269	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTGACAAAATGGCGGCAATAT	0.383										HNSCC(20;0.049)			42	108	---	---	---	---	PASS	A	55322751	A	A	55322751	3	1	110	1	0	0	0	0	1	0	0	0	11048	1348	47	3	971	3	OR4C15	11	55322751	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	20384471	55322751	79683765	140	40826										
OR4C16	219428	broad.mit.edu	37	chr11	55340262	55340262	+	Missense_Mutation	SNP	T	C	C													0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	attctcctatgtcatcttctTgcattctctgagaaaccaca							TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:55340262T>C	uc010rih.1	+	1	659	c.659T>C	c.(658-660)TTG>TCG	p.L220S		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				GTCATCTTCTTGCATTCTCTG	0.418													15	48	---	---	---	---	PASS	C	55340262	C	C	55340262	3	2	110	1	0	0	0	0	1	0	0	0	11049	1821	63	5	661	5	OR4C16	11	55340262	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	17511	55340262	79666254	141	40827	763	2								
OR4C16	219428	broad.mit.edu	37	chr11	55340263	55340263	+	Silent	SNP	G	A	A													0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttctcctatgtcatcttcttGcattctctgagaaaccacag							TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:55340263G>A	uc010rih.1	+	1	660	c.660G>A	c.(658-660)TTG>TTA	p.L220L		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				TCATCTTCTTGCATTCTCTGA	0.418													15	48	---	---	---	---	PASS	A	55340263	A	A	55340263	2	1	110	1	0	0	0	0	0	0	0	1	11049	1310	46	3		3	OR4C16	11	55340263	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	1	55340263	79666253	142	40828	763	2								
MRPL16	54948	broad.mit.edu	37	chr11	59574276	59574276	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aggcgcatcatttcaaagtgGccccaatgcaggtagccacc	10	13	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:59574276G>T	uc001noh.2	-	4	514	c.300C>A	c.(298-300)GGC>GGA	p.G100G		NM_017840	NP_060310	Q9NX20	RM16_HUMAN	mitochondrial ribosomal protein L16 precursor	100							rRNA binding			central_nervous_system(1)	1						TTTCAAAGTGGCCCCAATGCA	0.488													59	42	---	---	---	---	PASS	T	59574276	T	T	59574276	2	4	110	1	0	0	0	0	0	0	0	1	9781	1190	42	3		3	MRPL16	11	59574276	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	4234013	59574276	75432240	143	40829										
MS4A1	931	broad.mit.edu	37	chr11	60235940	60235940	+	Nonstop_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	agaaaatgacagctctccttAagtgatttcttctgttttct	6	8	4	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:60235940A>T	uc001npp.2	+	8	1309	c.893A>T	c.(892-894)TAA>TTA	p.*298L	MS4A1_uc001npq.2_Nonstop_Mutation_p.*298L|MS4A1_uc009yna.2_Nonstop_Mutation_p.*298L|MS4A1_uc009ymz.2_Nonstop_Mutation_p.*285L|MS4A1_uc010rlc.1_Nonstop_Mutation_p.*131L	NM_152866	NP_690605	P11836	CD20_HUMAN	membrane-spanning 4-domains, subfamily A, member	298					B cell activation|immune response	integral to plasma membrane				ovary(3)|lung(2)	5					Ibritumomab(DB00078)|Rituximab(DB00073)|Tositumomab(DB00081)	AGCTCTCCTTAAGTGATTTCT	0.393													6	20	---	---	---	---	PASS	T	60235940	T	T	60235940	4	4	110	1	0	0	0	0	0	0	0	0	9854	369	13	5	915	5	MS4A1	11	60235940	Nonstop_Mutation	SNP	A	TCGA-46-6026-01A-11D-1817-08	661664	60235940	74770576	144	40830										
SNX32	254122	broad.mit.edu	37	chr11	65617738	65617738	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ccaagatgaagcaggagctgGaagcgtgagtgccccctcct	13	12	0	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:65617738G>A	uc001ofr.2	+	4	497	c.370G>A	c.(370-372)GAA>AAA	p.E124K	SNX32_uc010rop.1_3'UTR	NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B	124	PX.				cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		GCAGGAGCTGGAAGCGTGAGT	0.562													14	35	---	---	---	---	PASS	A	65617738	A	A	65617738	3	1	110	1	0	0	0	0	1	0	0	0	14902	1175	41	2	384	2	SNX32	11	65617738	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	5381798	65617738	69388778	145	40831										
RCE1	9986	broad.mit.edu	37	chr11	66611788	66611788	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gggcccactgatgcagctctCtatggattgcccttgtgacc	11	13	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:66611788C>T	uc001ojk.1	+	4	448	c.404C>T	c.(403-405)TCT>TTT	p.S135F	RCE1_uc001ojl.1_Missense_Mutation_p.S31F	NM_005133	NP_005124	Q9Y256	FACE2_HUMAN	prenyl protein peptidase RCE1 isoform 1	135					proteolysis	endoplasmic reticulum membrane|integral to plasma membrane	metalloendopeptidase activity			ovary(1)|breast(1)	2						ATGCAGCTCTCTATGGATTGC	0.532													64	65	---	---	---	---	PASS	T	66611788	T	T	66611788	3	4	110	1	0	0	0	0	1	0	0	0	13176	913	32	2	418	2	RCE1	11	66611788	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	994050	66611788	68394728	146	40832										
GRM5	2915	broad.mit.edu	37	chr11	88300267	88300267	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tctcttccacaggttgactaGgctgctggatctgctggctg	12	11	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:88300267G>T	uc001pcq.2	-	7	2784	c.2584C>A	c.(2584-2586)CTA>ATA	p.L862I	GRM5_uc009yvm.2_Missense_Mutation_p.L862I	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	862	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	AGGTTGACTAGGCTGCTGGAT	0.572													19	55	---	---	---	---	PASS	T	88300267	T	T	88300267	3	4	110	1	0	0	0	0	1	0	0	0	6800	991	35	3	1066	3	GRM5	11	88300267	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	21688479	88300267	46706249	147	40833										
CEP57	9702	broad.mit.edu	37	chr11	95546720	95546720	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cgaaatatgataaagcatgcCgaaatggagaggacatctgt	11	6	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:95546720C>T	uc001pfp.1	+	4	692	c.471C>T	c.(469-471)GCC>GCT	p.A157A	CEP57_uc001pfo.1_Silent_p.A157A|CEP57_uc010ruh.1_Silent_p.A148A|CEP57_uc010rui.1_Silent_p.A157A|CEP57_uc009ywn.1_Silent_p.A5A|CEP57_uc001pfq.1_Silent_p.A157A|CEP57_uc001pfr.1_Silent_p.A5A	NM_014679	NP_055494	Q86XR8	CEP57_HUMAN	translokin	157	Potential.|centrosome localization domain (CLD) (By similarity).				fibroblast growth factor receptor signaling pathway|G2/M transition of mitotic cell cycle|protein import into nucleus, translocation|spermatid development	centrosome|cytosol|Golgi apparatus|microtubule|nucleus	fibroblast growth factor binding|protein homodimerization activity			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TAAAGCATGCCGAAATGGAGA	0.333									Mosaic_Variegated_Aneuploidy_Syndrome				11	24	---	---	---	---	PASS	T	95546720	T	T	95546720	2	4	110	1	0	0	0	0	0	0	0	1	3256	639	23	1		1	CEP57	11	95546720	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	7246453	95546720	39459796	148	40834										
CUL5	8065	broad.mit.edu	37	chr11	107920638	107920638	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gagtactgagccatcaagatGatacggctttgctaaaagca	10	8	1	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:107920638G>A	uc001pjv.2	+	4	923	c.256G>A	c.(256-258)GAT>AAT	p.D86N	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	86					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		CCATCAAGATGATACGGCTTT	0.308													13	37	---	---	---	---	PASS	A	107920638	A	A	107920638	3	1	110	1	0	0	0	0	1	0	0	0	4059	1290	45	2	270	2	CUL5	11	107920638	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	12373918	107920638	27085878	149	40835										
CUL5	8065	broad.mit.edu	37	chr11	107920721	107920721	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttaccaaaacctttttgtcaActagagattactttaatggg	6	7	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:107920721A>G	uc001pjv.2	+	4	1006	c.339A>G	c.(337-339)CAA>CAG	p.Q113Q	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	113					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		CTTTTTGTCAACTAGAGATTA	0.338													44	26	---	---	---	---	PASS	G	107920721	G	G	107920721	2	3	110	1	0	0	0	0	0	0	0	1	4059	40	2	5		5	CUL5	11	107920721	Silent	SNP	A	TCGA-46-6026-01A-11D-1817-08	83	107920721	27085795	150	40836										
EXPH5	23086	broad.mit.edu	37	chr11	108385055	108385055	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gcgggatcaatttccattggTgatggtgccctcaggaactc	12	10	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:108385055T>A	uc001pkk.2	-	6	1290	c.1179A>T	c.(1177-1179)TCA>TCT	p.S393S	EXPH5_uc010rvy.1_Silent_p.S205S|EXPH5_uc010rvz.1_Silent_p.S237S|EXPH5_uc010rwa.1_Silent_p.S317S	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	393					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		TTTCCATTGGTGATGGTGCCC	0.443													126	96	---	---	---	---	PASS	A	108385055	A	A	108385055	2	1	110	1	0	0	0	0	0	0	0	1	5322	1683	59	5		5	EXPH5	11	108385055	Silent	SNP	T	TCGA-46-6026-01A-11D-1817-08	464334	108385055	26621461	151	40837										
CBL	867	broad.mit.edu	37	chr11	119149399	119149399	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gctgatgatactctcttcatGatgaaggaattggctggtgc	12	7	2	4	rs138277394		TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:119149399G>A	uc001pwe.2	+	9	1545	c.1407G>A	c.(1405-1407)ATG>ATA	p.M469I		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral	469	Asp/Glu-rich (acidic).				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding	p.E366_K477del(1)		haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		CTCTCTTCATGATGAAGGAAT	0.463									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome				37	34	---	---	---	---	PASS	A	119149399	A	A	119149399	3	1	110	1	0	0	0	0	1	0	0	0	2700	1290	45	2	1441	2	CBL	11	119149399	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	10764344	119149399	15857117	152	40838										
CCDC15	80071	broad.mit.edu	37	chr11	124875041	124875041	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tgagacatagacgacttttcAtggatattgagagagaacaa	10	5	1	4			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr11:124875041A>G	uc001qbm.3	+	13	2603	c.2344A>G	c.(2344-2346)ATG>GTG	p.M782V		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	782	Potential.					centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		acgacttttcatggatattGA	0.164													8	2	---	---	---	---	PASS	G	124875041	G	G	124875041	3	3	110	1	0	0	0	0	1	0	0	0	2784	217	8	5	2390	5	CCDC15	11	124875041	Missense_Mutation	SNP	A	TCGA-46-6026-01A-11D-1817-08	5725642	124875041	10131475	153	40839										
CACNA1C	775	broad.mit.edu	37	chr12	2224635	2224635	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	agggcagcaccacggccacaCgcccgccccgagccctgctc	11	21	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:2224635C>T	uc009zdu.1	+	2	608	c.295C>T	c.(295-297)CGC>TGC	p.R99C	CACNA1C_uc009zdv.1_Missense_Mutation_p.R99C|CACNA1C_uc001qkb.2_Missense_Mutation_p.R99C|CACNA1C_uc001qkc.2_Missense_Mutation_p.R99C|CACNA1C_uc001qke.2_Missense_Mutation_p.R99C|CACNA1C_uc001qkf.2_Missense_Mutation_p.R99C|CACNA1C_uc001qjz.2_Missense_Mutation_p.R99C|CACNA1C_uc001qkd.2_Missense_Mutation_p.R99C|CACNA1C_uc001qkg.2_Missense_Mutation_p.R99C|CACNA1C_uc009zdw.1_Missense_Mutation_p.R99C|CACNA1C_uc001qkh.2_Missense_Mutation_p.R99C|CACNA1C_uc001qkl.2_Missense_Mutation_p.R99C|CACNA1C_uc001qkn.2_Missense_Mutation_p.R99C|CACNA1C_uc001qko.2_Missense_Mutation_p.R99C|CACNA1C_uc001qkp.2_Missense_Mutation_p.R99C|CACNA1C_uc001qkr.2_Missense_Mutation_p.R99C|CACNA1C_uc001qku.2_Missense_Mutation_p.R99C|CACNA1C_uc001qkq.2_Missense_Mutation_p.R99C|CACNA1C_uc001qks.2_Missense_Mutation_p.R99C|CACNA1C_uc001qkt.2_Missense_Mutation_p.R99C	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	99	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CACGGCCACACGCCCGCCCCG	0.627													46	55	---	---	---	---	PASS	T	2224635	T	T	2224635	3	4	110	1	0	0	0	0	1	0	0	0	2540	536	19	1	301	1	CACNA1C	12	2224635	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08		2224635	131627260	154	40840										
NDUFA9	4704	broad.mit.edu	37	chr12	4763618	4763618	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttcctggggcgatatgttgtCaaccaccttggtaagtaaag	11	8	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:4763618C>T	uc001qnc.2	+	2	220	c.210C>T	c.(208-210)GTC>GTT	p.V70V	NDUFA9_uc009zei.1_Silent_p.V70V	NM_005002	NP_004993	Q16795	NDUA9_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	70					mitochondrial electron transport, NADH to ubiquinone|sodium ion transport	mitochondrial matrix|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	GATATGTTGTCAACCACCTTG	0.458													43	94	---	---	---	---	PASS	T	4763618	T	T	4763618	2	4	110	1	0	0	0	0	0	0	0	1	10272	813	29	2		2	NDUFA9	12	4763618	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	2538983	4763618	129088277	155	40841										
PFKM	5213	broad.mit.edu	37	chr12	48531536	48531536	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggtgtggaagcagtgatggcActtttggaggggaccccaga	17	7	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:48531536A>G	uc001rrc.2	+	11	1139	c.969A>G	c.(967-969)GCA>GCG	p.A323A	PFKM_uc001rra.1_Silent_p.A8A|PFKM_uc001rrb.1_Silent_p.A394A|PFKM_uc001rrd.2_Silent_p.A8A|PFKM_uc001rre.1_Silent_p.A323A|PFKM_uc001rrg.1_Silent_p.A292A	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	323					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						CAGTGATGGCACTTTTGGAGG	0.587													35	91	---	---	---	---	PASS	G	48531536	G	G	48531536	2	3	110	1	0	0	0	0	0	0	0	1	11765	146	6	5		5	PFKM	12	48531536	Silent	SNP	A	TCGA-46-6026-01A-11D-1817-08	43767918	48531536	85320359	156	40842										
ACCN2	41	broad.mit.edu	37	chr12	50471078	50471078	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gaagaccatgaagggtgggaCgggcaatgggctggaaatca	17	6	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:50471078C>T	uc001rvw.2	+	4	870	c.641C>T	c.(640-642)ACG>ATG	p.T214M	ACCN2_uc001rvv.2_Missense_Mutation_p.T214M|ACCN2_uc009zln.2_Missense_Mutation_p.T5M|ACCN2_uc009zlo.2_Missense_Mutation_p.T214M	NM_001095	NP_001086	P78348	ACCN2_HUMAN	amiloride-sensitive cation channel 2, neuronal	214	Extracellular (By similarity).				calcium ion transport|response to pH|signal transduction	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(1)	1					Amiloride(DB00594)	AAGGGTGGGACGGGCAATGGG	0.617													34	48	---	---	---	---	PASS	T	50471078	T	T	50471078	3	4	110	1	0	0	0	0	1	0	0	0	129	536	19	1	651	1	ACCN2	12	50471078	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	1939542	50471078	83380817	157	40843										
TBK1	29110	broad.mit.edu	37	chr12	64891754	64891754	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gtttattttattagtatgaaGaaattaaaggaagagatgga	10	0	0	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:64891754G>C	uc001ssc.1	+	20	2135	c.2073G>C	c.(2071-2073)AAG>AAC	p.K691N		NM_013254	NP_037386	Q9UHD2	TBK1_HUMAN	TANK-binding kinase 1	691	Potential.				I-kappaB kinase/NF-kappaB cascade|innate immune response|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription from RNA polymerase II promoter|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|large_intestine(1)|breast(1)	5				GBM - Glioblastoma multiforme(28;0.0386)		TTAGTATGAAGAAATTAAAGG	0.289													40	52	---	---	---	---	PASS	C	64891754	C	C	64891754	3	2	110	1	0	0	0	0	1	0	0	0	15634	933	33	2	2147	2	TBK1	12	64891754	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	14420676	64891754	68960141	158	40844										
CAPS2	84698	broad.mit.edu	37	chr12	75687147	75687147	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	caaaaatgtcaaggttgcacCctaaacaaaagaacagatga	7	8	1	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:75687147C>T	uc001sxk.3	-	13	1299	c.1102G>A	c.(1102-1104)GGT>AGT	p.G368S	CAPS2_uc001sxm.3_Missense_Mutation_p.G136S|CAPS2_uc009zsa.2_5'UTR|CAPS2_uc001sxi.3_Missense_Mutation_p.G104S|CAPS2_uc001sxj.3_Missense_Mutation_p.G279S|CAPS2_uc001sxl.3_Missense_Mutation_p.G349S	NM_032606	NP_115995	Q9BXY5	CAYP2_HUMAN	calcyphosine 2	368							calcium ion binding			ovary(2)	2						AAGGTTGCACCCTAAACAAAA	0.303													27	11	---	---	---	---	PASS	T	75687147	T	T	75687147	3	4	110	1	0	0	0	0	1	0	0	0	2638	637	22	3	595	3	CAPS2	12	75687147	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	10795393	75687147	58164748	159	40845										
CCDC38	120935	broad.mit.edu	37	chr12	96266040	96266040	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttattgactgtacttttgccGccattctttctgtttcatcc	5	11	3	1	rs142050445		TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:96266040G>A	uc001tek.1	-	14	1711	c.1477C>T	c.(1477-1479)CGG>TGG	p.R493W		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	493										skin(1)	1						TACTTTTGCCGCCATTCTTTC	0.398													108	90	---	---	---	---	PASS	A	96266040	A	A	96266040	3	1	110	1	0	0	0	0	1	0	0	0	2810	1086	38	1	226	1	CCDC38	12	96266040	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	20578893	96266040	37585855	160	40846										
ANKS1B	56899	broad.mit.edu	37	chr12	99837544	99837544	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cctgttgagctgtttctatgGttactagttcctggagtagt	11	7	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:99837544G>T	uc001tge.1	-	11	1899	c.1482C>A	c.(1480-1482)AAC>AAA	p.N494K	ANKS1B_uc001tgf.1_Missense_Mutation_p.N74K|ANKS1B_uc009ztt.1_Missense_Mutation_p.N460K	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	494						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		TGTTTCTATGGTTACTAGTTC	0.418													58	77	---	---	---	---	PASS	T	99837544	T	T	99837544	3	4	110	1	0	0	0	0	1	0	0	0	689	1252	44	3	2616	3	ANKS1B	12	99837544	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	3571504	99837544	34014351	161	40847										
ANO4	121601	broad.mit.edu	37	chr12	101505455	101505455	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggtgtatgcttataagtatgGaccttgtgcaggccaaggag	14	6	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:101505455G>T	uc010svm.1	+	24	2989	c.2417G>T	c.(2416-2418)GGA>GTA	p.G806V	ANO4_uc001thw.2_Missense_Mutation_p.G771V|ANO4_uc001thx.2_Missense_Mutation_p.G806V|ANO4_uc001thy.2_Missense_Mutation_p.G326V	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	806	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						TATAAGTATGGACCTTGTGCA	0.398										HNSCC(74;0.22)			40	44	---	---	---	---	PASS	T	101505455	T	T	101505455	3	4	110	1	0	0	0	0	1	0	0	0	699	1174	41	2	2398	2	ANO4	12	101505455	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	1667911	101505455	32346440	162	40848										
STAB2	55576	broad.mit.edu	37	chr12	104144435	104144435	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cggagcagctgcccattgacCgctgcttacaggacaatggg	13	12	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:104144435C>A	uc001tjw.2	+	60	6703	c.6517C>A	c.(6517-6519)CGC>AGC	p.R2173S	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2173	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GCCCATTGACCGCTGCTTACA	0.567													40	29	---	---	---	---	PASS	A	104144435	A	A	104144435	3	1	110	1	0	0	0	0	1	0	0	0	15237	652	23	1	6755	1	STAB2	12	104144435	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	2638980	104144435	29707460	163	40849										
VPS29	51699	broad.mit.edu	37	chr12	110929836	110929836	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttttttgtattcgattcgttCtactttcacatcatctccaa	3	10	4	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:110929836C>T	uc001tqy.2	-	4	583	c.523G>A	c.(523-525)GAA>AAA	p.E175K	VPS29_uc001tqw.2_RNA|VPS29_uc001tqx.2_Missense_Mutation_p.E179K|VPS29_uc001tqz.2_RNA	NM_016226	NP_057310	Q9UBQ0	VPS29_HUMAN	vacuolar protein sorting 29 isoform 1	175					protein transport	endosome membrane	metal ion binding|phosphoserine phosphatase activity				0						TCGATTCGTTCTACTTTCACA	0.343													22	30	---	---	---	---	PASS	T	110929836	T	T	110929836	3	4	110	1	0	0	0	0	1	0	0	0	17197	922	32	2	29	2	VPS29	12	110929836	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	6785401	110929836	22922059	164	40850										
SPPL3	121665	broad.mit.edu	37	chr12	121229358	121229358	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tttcaaagtccatattaaggGacctgtggaaaaaaattttg	8	5	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:121229358G>T	uc001tzd.2	-	3	585	c.104C>A	c.(103-105)TCC>TAC	p.S35Y	SPPL3_uc009zwz.2_Missense_Mutation_p.S35Y	NM_139015	NP_620584	Q8TCT6	PSL4_HUMAN	signal peptide peptidase 3	35						integral to membrane	aspartic-type endopeptidase activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CATATTAAGGGACCTGTGGAA	0.308													36	63	---	---	---	---	PASS	T	121229358	T	T	121229358	3	4	110	1	0	0	0	0	1	0	0	0	15089	1174	41	2	1086	2	SPPL3	12	121229358	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	10299522	121229358	12622537	165	40851										
HNF1A	6927	broad.mit.edu	37	chr12	121416877	121416877	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gaggcggcccaccagaaagcCgtggtggagacccttctgca	14	13	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:121416877C>A	uc001tzg.2	+	1	329	c.306C>A	c.(304-306)GCC>GCA	p.A102A	HNF1A_uc001tze.1_Silent_p.A102A|HNF1A_uc001tzf.2_Silent_p.A102A|HNF1A_uc010szn.1_Silent_p.A102A	NM_000545	NP_000536	P20823	HNF1A_HUMAN	hepatic nuclear factor-1-alpha	102					glucose homeostasis|glucose import|insulin secretion|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|renal glucose absorption	cytoplasm|nucleus|protein complex	DNA binding|protein dimerization activity|protein heterodimerization activity|protein homodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			liver(92)|large_intestine(15)|endometrium(6)|breast(2)|lung(1)	116	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ACCAGAAAGCCGTGGTGGAGA	0.657									Hepatic_Adenoma_Familial_Clustering_of				3	0	---	---	---	---	PASS	A	121416877	A	A	121416877	2	1	110	1	0	0	0	0	0	0	0	1	7251	639	23	1		1	HNF1A	12	121416877	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	187519	121416877	12435018	166	40852										
MLXIP	22877	broad.mit.edu	37	chr12	122618406	122618406	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cacccggcctccccagccacGgttaacttttgtgcacccca	7	19	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:122618406G>T	uc001ubq.2	+	9	1604	c.1604G>T	c.(1603-1605)CGG>CTG	p.R535L	MLXIP_uc001ubr.2_Missense_Mutation_p.R286L|MLXIP_uc001ubs.1_Missense_Mutation_p.R142L|MLXIP_uc001ubt.2_Missense_Mutation_p.R142L	NM_014938	NP_055753	Q9HAP2	MLXIP_HUMAN	MLX interacting protein	535					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)		CCCCAGCCACGGTTAACTTTT	0.617													6	1	---	---	---	---	PASS	T	122618406	T	T	122618406	3	4	110	1	0	0	0	0	1	0	0	0	9636	1116	39	1	1638	1	MLXIP	12	122618406	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	1201529	122618406	11233489	167	40853										
ABCB9	23457	broad.mit.edu	37	chr12	123425541	123425541	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cactgtagacggagcccacgGactggggagaggagacacgc	16	11	0	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:123425541G>T	uc001udm.3	-	8	1692	c.1382C>A	c.(1381-1383)TCC>TAC	p.S461Y	ABCB9_uc010tai.1_Missense_Mutation_p.S68Y|ABCB9_uc009zxr.2_Intron|ABCB9_uc001udo.3_Missense_Mutation_p.S418Y|ABCB9_uc010taj.1_Intron|ABCB9_uc001udp.2_Missense_Mutation_p.S461Y|ABCB9_uc001udq.2_Intron|ABCB9_uc001udr.2_Missense_Mutation_p.S461Y	NM_019625	NP_062571	Q9NP78	ABCB9_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	461	ABC transmembrane type-1.				positive regulation of T cell mediated cytotoxicity|protein transport	lysosomal membrane|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.84e-05)|Epithelial(86;0.000152)|BRCA - Breast invasive adenocarcinoma(302;0.111)		GGAGCCCACGGACTGGGGAGA	0.622													5	2	---	---	---	---	PASS	T	123425541	T	T	123425541	3	4	110	1	0	0	0	0	1	0	0	0	48	1188	41	2	938	2	ABCB9	12	123425541	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	807135	123425541	10426354	168	40854										
EP400	57634	broad.mit.edu	37	chr12	132529905	132529905	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	agcgtcacggggaggcggtcGtccctcctcggtccctgttt	14	14	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr12:132529905G>T	uc001ujn.2	+	37	6861	c.6826G>T	c.(6826-6828)GTC>TTC	p.V2276F	EP400_uc001ujl.2_Missense_Mutation_p.V2275F|EP400_uc001ujm.2_Missense_Mutation_p.V2195F	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2312					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		GGAGGCGGTCGTCCCTCCTCG	0.562													17	46	---	---	---	---	PASS	T	132529905	T	T	132529905	3	4	110	1	0	0	0	0	1	0	0	0	5149	1145	40	1	6969	1	EP400	12	132529905	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	9104364	132529905	1321990	169	40855										
TPTE2	93492	broad.mit.edu	37	chr13	20067042	20067042	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tttaaattcacttgtgtgtgGgctagaggatgataaaagaa	11	3	1	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr13:20067042G>A	uc001umd.2	-	4	278	c.67C>T	c.(67-69)CCA>TCA	p.P23S	TPTE2_uc009zzk.2_RNA|TPTE2_uc009zzl.2_Missense_Mutation_p.P23S|TPTE2_uc001ume.2_Missense_Mutation_p.P23S|TPTE2_uc009zzm.2_5'UTR|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	23						endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		CTTGTGTGTGGGCTAGAGGAT	0.353													15	86	---	---	---	---	PASS	A	20067042	A	A	20067042	3	1	110	1	0	0	0	0	1	0	0	0	16428	1246	43	3	1573	3	TPTE2	13	20067042	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08		20067042	95102836	170	40856										
NBEA	26960	broad.mit.edu	37	chr13	36141107	36141107	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tgttaaccaactatgaatcaGaagagttggacctgactctt	8	8	2	4			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr13:36141107G>A	uc001uvb.2	+	45	7194	c.6988G>A	c.(6988-6990)GAA>AAA	p.E2330K	NBEA_uc010abi.2_Missense_Mutation_p.E986K|NBEA_uc010tee.1_Missense_Mutation_p.E123K|NBEA_uc010tef.1_Missense_Mutation_p.E123K|NBEA_uc010teg.1_Missense_Mutation_p.E123K	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2330	BEACH.					cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CTATGAATCAGAAGAGTTGGA	0.348													61	74	---	---	---	---	PASS	A	36141107	A	A	36141107	3	1	110	1	0	0	0	0	1	0	0	0	10187	943	33	2	7166	2	NBEA	13	36141107	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	16074065	36141107	79028771	171	40857										
DCLK1	9201	broad.mit.edu	37	chr13	36686298	36686298	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	accagttggggttcacattcTtggtgtactccagtttcttg	10	9	3	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr13:36686298T>C	uc001uvf.2	-	3	664	c.431A>G	c.(430-432)AAG>AGG	p.K144R		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	144					cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		GTTCACATTCTTGGTGTACTC	0.463													56	61	---	---	---	---	PASS	C	36686298	C	C	36686298	3	2	110	1	0	0	0	0	1	0	0	0	4291	1609	56	5	1822	5	DCLK1	13	36686298	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	545191	36686298	78483580	172	40858										
MYO16	23026	broad.mit.edu	37	chr13	109793152	109793152	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctcccccgcctccgacgagtCgcccctgacacccctggagg	10	21	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr13:109793152C>A	uc001vqt.1	+	32	4652	c.4526C>A	c.(4525-4527)TCG>TAG	p.S1509*	MYO16_uc010agk.1_Nonsense_Mutation_p.S1531*	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1509	Pro-rich.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			TCCGACGAGTCGCCCCTGACA	0.711													5	8	---	---	---	---	PASS	A	109793152	A	A	109793152	4	1	110	1	0	0	0	0	0	1	0	0	10064	893	31	2	4648	2	MYO16	13	109793152	Nonsense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	73106854	109793152	5376726	173	40859										
TEP1	7011	broad.mit.edu	37	chr14	20849731	20849731	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cctgcaatgaggatgtgtgcCgtgtcctctagccctggcct	12	13	1	1	rs140821977		TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr14:20849731C>A	uc001vxe.2	-	31	4579	c.4539G>T	c.(4537-4539)ACG>ACT	p.T1513T	TEP1_uc010ahk.2_Silent_p.T856T|TEP1_uc010tlf.1_Intron|TEP1_uc010tlg.1_Silent_p.T1405T|TEP1_uc010tlh.1_Intron	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1513					telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		GGATGTGTGCCGTGTCCTCTA	0.637													58	9	---	---	---	---	PASS	A	20849731	A	A	20849731	2	1	110	1	0	0	0	0	0	0	0	1	15756	639	23	1		1	TEP1	14	20849731	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08		20849731	86499809	174	40860										
LRFN5	145581	broad.mit.edu	37	chr14	42357019	42357019	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gatcctggttcttcagatatCtcaacttctaccaagtcagg	7	11	5	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr14:42357019C>T	uc001wvm.2	+	3	2389	c.1191C>T	c.(1189-1191)ATC>ATT	p.I397I	LRFN5_uc010ana.2_Silent_p.I397I	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	397	Extracellular (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		CTTCAGATATCTCAACTTCTA	0.383										HNSCC(30;0.082)			16	7	---	---	---	---	PASS	T	42357019	T	T	42357019	2	4	110	1	0	0	0	0	0	0	0	1	8941	903	32	2		2	LRFN5	14	42357019	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	21507288	42357019	64992521	175	40861										
LRFN5	145581	broad.mit.edu	37	chr14	42361132	42361132	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctcccgattctgtcacagagGggcccacgtctaaaagagca	10	13	3	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr14:42361132G>T	uc001wvm.2	+	4	3263	c.2065G>T	c.(2065-2067)GGG>TGG	p.G689W	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	689	Cytoplasmic (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TGTCACAGAGGGGCCCACGTC	0.468										HNSCC(30;0.082)			30	10	---	---	---	---	PASS	T	42361132	T	T	42361132	3	4	110	1	0	0	0	0	1	0	0	0	8941	1232	43	3	2071	3	LRFN5	14	42361132	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	4113	42361132	64988408	176	40862										
SOS2	6655	broad.mit.edu	37	chr14	50623738	50623738	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	taagttgtactggttggacaTattccttgcgaaatctttta	8	6	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr14:50623738T>A	uc001wxs.3	-	12	2134	c.2036A>T	c.(2035-2037)TAT>TTT	p.Y679F	SOS2_uc010tql.1_Missense_Mutation_p.Y646F|SOS2_uc010tqm.1_RNA|SOS2_uc001wxt.2_Missense_Mutation_p.Y367F	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	679	N-terminal Ras-GEF.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TGGTTGGACATATTCCTTGCG	0.338													13	1	---	---	---	---	PASS	A	50623738	A	A	50623738	3	1	110	1	0	0	0	0	1	0	0	0	14937	1406	49	5	2010	5	SOS2	14	50623738	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	8262606	50623738	56725802	177	40863										
MAPK1IP1L	93487	broad.mit.edu	37	chr14	55529998	55529998	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cccagtaatcctttccaagtGccttcaggaccttctggtgc	8	14	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr14:55529998G>A	uc001xbq.1	+	3	845	c.681G>A	c.(679-681)GTG>GTA	p.V227V		NM_144578	NP_653179	Q8NDC0	MISSL_HUMAN	MAPK-interacting and spindle-stabilizing	227	Pro-rich.										0						CTTTCCAAGTGCCTTCAGGAC	0.502													4	58	---	---	---	---	PASS	A	55529998	A	A	55529998	2	1	110	1	0	0	0	0	0	0	0	1	9278	1306	46	3		3	MAPK1IP1L	14	55529998	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	4906260	55529998	51819542	178	40864										
ESRRB	2103	broad.mit.edu	37	chr14	76906001	76906001	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	caacgccatccccaagcgccTgtgcctcgtgtgcggggaca	12	16	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr14:76906001T>C	uc001xsq.1	+	2	372	c.305T>C	c.(304-306)CTG>CCG	p.L102P	ESRRB_uc001xsr.2_Missense_Mutation_p.L102P|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	102						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		CCCAAGCGCCTGTGCCTCGTG	0.622													25	1	---	---	---	---	PASS	C	76906001	C	C	76906001	3	2	110	1	0	0	0	0	1	0	0	0	5261	1580	55	5	307	5	ESRRB	14	76906001	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	21376003	76906001	30443539	179	40865										
SEL1L	6400	broad.mit.edu	37	chr14	81950624	81950624	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ccagattaaacatagcttgtGcactgtgttgctgctcagaa	9	9	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr14:81950624G>A	uc010tvv.1	-	19	2108	c.1991C>T	c.(1990-1992)GCA>GTA	p.A664V		NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	664	Lumenal (Potential).|Interaction with ERLEC1, OS9 and SYVN1.|Sel1-like 11.				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		CATAGCTTGTGCACTGTGTTG	0.413													199	37	---	---	---	---	PASS	A	81950624	A	A	81950624	3	1	110	1	0	0	0	0	1	0	0	0	14010	1319	46	3	405	3	SEL1L	14	81950624	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	5044623	81950624	25398916	180	40866										
GPR68	8111	broad.mit.edu	37	chr14	91700917	91700917	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctcgtcctcgatgacctcctCgtgcatcaggaagtagatgc	10	13	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr14:91700917C>T	uc001xzg.2	-	2	819	c.478G>A	c.(478-480)GAG>AAG	p.E160K	GPR68_uc001xzh.2_Missense_Mutation_p.E170K	NM_003485	NP_003476	Q15743	OGR1_HUMAN	G protein-coupled receptor 68	160	Extracellular (Potential).				inflammatory response	integral to plasma membrane	G-protein coupled receptor activity			kidney(1)	1		all_cancers(154;0.0555)		COAD - Colon adenocarcinoma(157;0.21)		ATGACCTCCTCGTGCATCAGG	0.622													12	2	---	---	---	---	PASS	T	91700917	T	T	91700917	3	4	110	1	0	0	0	0	1	0	0	0	6707	893	31	2	623	2	GPR68	14	91700917	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	9750293	91700917	15648623	181	40867										
TRAF3	7187	broad.mit.edu	37	chr14	103371855	103371855	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tttttgtcatcatgcgtggaGaatatgatgccctgcttcct	9	9	2	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr14:103371855G>T	uc001ymc.1	+	12	1794	c.1441G>T	c.(1441-1443)GAA>TAA	p.E481*	TRAF3_uc001yme.1_Nonsense_Mutation_p.E456*|TRAF3_uc001ymd.1_Nonsense_Mutation_p.E481*|TRAF3_uc010txy.1_Nonsense_Mutation_p.E398*	NM_145725	NP_663777	Q13114	TRAF3_HUMAN	TNF receptor-associated factor 3 isoform 1	481	MATH.				apoptosis|induction of apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|regulation of defense response to virus|regulation of interferon-beta production|regulation of proteolysis|toll-like receptor signaling pathway|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|endosome|internal side of plasma membrane|mitochondrion	signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(154;7.87e-06)|all_epithelial(191;0.0024)		Epithelial(152;9.92e-24)|all cancers(159;2.23e-21)|OV - Ovarian serous cystadenocarcinoma(161;7.85e-12)|Colorectal(3;0.0971)		CATGCGTGGAGAATATGATGC	0.517													76	17	---	---	---	---	PASS	T	103371855	T	T	103371855	4	4	110	1	0	0	0	0	0	1	0	0	16436	943	33	2	1479	2	TRAF3	14	103371855	Nonsense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	11670938	103371855	3977685	182	40868										
OR4M2	390538	broad.mit.edu	37	chr15	22369024	22369024	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cctggtggctctctcctggaGggggggcttcattcattcta	13	11	4	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr15:22369024G>T	uc010tzu.1	+	1	449	c.449G>T	c.(448-450)AGG>ATG	p.R150M	LOC727924_uc001yua.2_RNA|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CTCTCCTGGAGGGGGGGCTTC	0.502													35	212	---	---	---	---	PASS	T	22369024	T	T	22369024	3	4	110	1	0	0	0	0	1	0	0	0	11076	1000	35	3	451	3	OR4M2	15	22369024	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08		22369024	80162368	183	40869										
ALDH1A2	8854	broad.mit.edu	37	chr15	58285190	58285190	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tgcactgagtggtgtttgctCtgctggcttaataactactg	11	8	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr15:58285190C>G	uc002aex.2	-	6	695	c.637G>C	c.(637-639)GAG>CAG	p.E213Q	ALDH1A2_uc002aey.2_Missense_Mutation_p.E213Q|ALDH1A2_uc010ugv.1_Missense_Mutation_p.E192Q|ALDH1A2_uc010ugw.1_Missense_Mutation_p.E184Q|ALDH1A2_uc002aew.2_Missense_Mutation_p.E117Q	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	213					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	GGTGTTTGCTCTGCTGGCTTA	0.493													42	64	---	---	---	---	PASS	G	58285190	G	G	58285190	3	3	110	1	0	0	0	0	1	0	0	0	491	922	32	2	951	2	ALDH1A2	15	58285190	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	35916166	58285190	44246202	184	40870										
FAM63B	54629	broad.mit.edu	37	chr15	59063709	59063709	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	agaccaggctcgccgctggtGatggtcctggggtatgggcg	18	10	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr15:59063709G>C	uc002afj.2	+	1	317	c.115G>C	c.(115-117)GAT>CAT	p.D39H	FAM63B_uc002afi.2_Missense_Mutation_p.D39H|FAM63B_uc002afk.2_RNA|FAM63B_uc002afl.2_RNA	NM_001040450	NP_001035540	Q8NBR6	FA63B_HUMAN	hypothetical protein LOC54629 isoform a	39										central_nervous_system(1)	1						CGCCGCTGGTGATGGTCCTGG	0.726													15	26	---	---	---	---	PASS	C	59063709	C	C	59063709	3	2	110	1	0	0	0	0	1	0	0	0	5597	1290	45	2	117	2	FAM63B	15	59063709	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	778519	59063709	43467683	185	40871										
IGDCC3	9543	broad.mit.edu	37	chr15	65623939	65623939	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tgatgagcccgcactgttctCggccacacactgataaatgg	10	12	1	3	rs145612224	byFrequency	TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr15:65623939C>A	uc002aos.2	-	8	1459	c.1207G>T	c.(1207-1209)GAG>TAG	p.E403*	IGDCC3_uc002aor.1_5'Flank	NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	403	Extracellular (Potential).|Ig-like C2-type 4.									ovary(3)	3						GCACTGTTCTCGGCCACACAC	0.617													9	12	---	---	---	---	PASS	A	65623939	A	A	65623939	4	1	110	1	0	0	0	0	0	1	0	0	7568	893	31	2	1265	2	IGDCC3	15	65623939	Nonsense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	6560230	65623939	36907453	186	40872										
AKAP13	11214	broad.mit.edu	37	chr15	86122698	86122698	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cctctggaggtgaactgggaGgcatttcaacaacaaatgtc	11	9	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr15:86122698G>A	uc002blv.1	+	7	1569	c.1399G>A	c.(1399-1401)GGC>AGC	p.G467S	AKAP13_uc002blt.1_Missense_Mutation_p.G467S|AKAP13_uc002blu.1_Missense_Mutation_p.G467S	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	467					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TGAACTGGGAGGCATTTCAAC	0.532													15	80	---	---	---	---	PASS	A	86122698	A	A	86122698	3	1	110	1	0	0	0	0	1	0	0	0	449	1000	35	3	1421	3	AKAP13	15	86122698	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	20498759	86122698	16408694	187	40873										
TPSG1	25823	broad.mit.edu	37	chr16	1272258	1272258	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctgaaggatgctgcccccggGgccgggatagtcccggcggc	17	14	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr16:1272258G>T	uc002ckw.2	-	5	597	c.595C>A	c.(595-597)CCC>ACC	p.P199T		NM_012467	NP_036599	Q9NRR2	TRYG1_HUMAN	transmembrane tryptase preproprotein	199	Peptidase S1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity				0		Hepatocellular(780;0.00369)				CTGCCCCCGGGGCCGGGATAG	0.706													41	42	---	---	---	---	PASS	T	1272258	T	T	1272258	3	4	110	1	0	0	0	0	1	0	0	0	16423	1232	43	3	378	3	TPSG1	16	1272258	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08		1272258	89082495	188	40874										
SRL	6345	broad.mit.edu	37	chr16	4242878	4242878	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	agagcatctccagctctagaCccacatccagctttgttggg	9	13	2	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr16:4242878C>T	uc002cvz.3	-	6	711	c.698G>A	c.(697-699)GGT>GAT	p.G233D	SRL_uc002cvy.3_RNA	NM_001098814	NP_001092284	Q86TD4	SRCA_HUMAN	sarcalumenin	692						sarcoplasmic reticulum lumen	GTP binding|GTPase activity			ovary(3)|skin(2)	5						CAGCTCTAGACCCACATCCAG	0.527													29	33	---	---	---	---	PASS	T	4242878	T	T	4242878	3	4	110	1	0	0	0	0	1	0	0	0	15149	507	18	3	727	3	SRL	16	4242878	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	2970620	4242878	86111875	189	40875										
GRIN2A	2903	broad.mit.edu	37	chr16	9858401	9858401	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttcgctttggattctgtgctCacggccacctccaccgtgtt	9	14	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr16:9858401C>T	uc002czo.3	-	13	3548	c.3000G>A	c.(2998-3000)GTG>GTA	p.V1000V	GRIN2A_uc010uym.1_Silent_p.V1000V|GRIN2A_uc010uyn.1_Silent_p.V843V|GRIN2A_uc002czr.3_Silent_p.V1000V	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1000	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ATTCTGTGCTCACGGCCACCT	0.512													53	57	---	---	---	---	PASS	T	9858401	T	T	9858401	2	4	110	1	0	0	0	0	0	0	0	1	6779	813	29	2		2	GRIN2A	16	9858401	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	5615523	9858401	80496352	190	40876										
MYH11	4629	broad.mit.edu	37	chr16	15813504	15813504	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cttctcattctctttggctgTggcaaagatctcatctctgg	8	11	4	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr16:15813504T>C	uc002ddy.2	-	35	5127	c.5020A>G	c.(5020-5022)ACA>GCA	p.T1674A	MYH11_uc002ddv.2_Missense_Mutation_p.T1681A|MYH11_uc002ddw.2_Missense_Mutation_p.T1674A|MYH11_uc002ddx.2_Missense_Mutation_p.T1681A|MYH11_uc010bvg.2_Missense_Mutation_p.T1506A|NDE1_uc010uzy.1_Intron|NDE1_uc002dds.2_Intron|MYH11_uc010bvh.2_Missense_Mutation_p.T380A|NDE1_uc002ddz.1_5'Flank	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1674	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						TCTTTGGCTGTGGCAAAGATC	0.522			T	CBFB	AML								78	103	---	---	---	---	PASS	C	15813504	C	C	15813504	3	2	110	1	0	0	0	0	1	0	0	0	10031	1696	59	5	961	5	MYH11	16	15813504	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	5955103	15813504	74541249	191	40877										
ABCC1	4363	broad.mit.edu	37	chr16	16208928	16208928	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttggcctcatctacttcttcGtccaggtaaggggtgaggtc	12	10	3	1	rs74985930		TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr16:16208928G>A	uc010bvi.2	+	23	3560	c.3385G>A	c.(3385-3387)GTC>ATC	p.V1129I	ABCC1_uc010bvj.2_Missense_Mutation_p.V1070I|ABCC1_uc010bvk.2_Missense_Mutation_p.V1073I|ABCC1_uc010bvl.2_Missense_Mutation_p.V1129I|ABCC1_uc010bvm.2_Missense_Mutation_p.V1014I|ABCC1_uc002del.3_Missense_Mutation_p.V1023I	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1129	Helical; Name=15.|ABC transmembrane type-1 2.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	CTACTTCTTCGTCCAGGTAAG	0.532													34	37	---	---	---	---	PASS	A	16208928	A	A	16208928	3	1	110	1	0	0	0	0	1	0	0	0	49	1145	40	1	3475	1	ABCC1	16	16208928	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	395424	16208928	74145825	192	40878										
EARS2	124454	broad.mit.edu	37	chr16	23535757	23535757	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tcccaaggccaacatcatctCagctacaggaggtccttgct	8	14	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr16:23535757C>G	uc002dlt.3	-	9	1539	c.1507G>C	c.(1507-1509)GAG>CAG	p.E503Q	EARS2_uc002dlr.3_RNA|EARS2_uc002dls.3_RNA	NM_001083614	NP_001077083	Q5JPH6	SYEM_HUMAN	glutamyl-tRNA synthetase 2 precursor	503					glutamyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|glutamate-tRNA ligase activity|RNA binding				0				GBM - Glioblastoma multiforme(48;0.0353)	L-Glutamic Acid(DB00142)	AACATCATCTCAGCTACAGGA	0.473													81	108	---	---	---	---	PASS	G	23535757	G	G	23535757	3	3	110	1	0	0	0	0	1	0	0	0	4878	835	29	2	68	2	EARS2	16	23535757	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	7326829	23535757	66818996	193	40879										
AQP8	343	broad.mit.edu	37	chr16	25235842	25235842	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ccatcaatgagaagacaaagGgccctctggccccgttctcc	9	15	3	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr16:25235842G>T	uc002doc.2	+	4	629	c.547G>T	c.(547-549)GGC>TGC	p.G183C		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	183	Cytoplasmic (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		GAAGACAAAGGGCCCTCTGGC	0.622													23	33	---	---	---	---	PASS	T	25235842	T	T	25235842	3	4	110	1	0	0	0	0	1	0	0	0	832	1232	43	3	561	3	AQP8	16	25235842	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	1700085	25235842	65118911	194	40880										
GOT2	2806	broad.mit.edu	37	chr16	58743377	58743377	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aatttggtcggtgatgtgttGccaattgtgggtggaaccct	14	6	0	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr16:58743377G>T	uc002eof.1	-	9	1228	c.1114C>A	c.(1114-1116)CAA>AAA	p.Q372K	GOT2_uc010vim.1_Missense_Mutation_p.Q329K	NM_002080	NP_002071	P00505	AATM_HUMAN	aspartate aminotransferase 2 precursor	372					aspartate catabolic process|fatty acid transport|gluconeogenesis|response to ethanol	mitochondrial matrix|plasma membrane	L-aspartate:2-oxoglutarate aminotransferase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GTGATGTGTTGCCAATTGTGG	0.498													52	76	---	---	---	---	PASS	T	58743377	T	T	58743377	3	4	110	1	0	0	0	0	1	0	0	0	6581	1328	46	3	186	3	GOT2	16	58743377	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	33507535	58743377	31611376	195	40881										
HYDIN	54768	broad.mit.edu	37	chr16	70867983	70867983	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctcagagaagggagggacacGcttcttcggggcaaagatga	15	8	2	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr16:70867983G>A	uc002ezr.2	-	79	13611	c.13483C>T	c.(13483-13485)CGT>TGT	p.R4495C	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4496										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GGAGGGACACGCTTCTTCGGG	0.552													21	5	---	---	---	---	PASS	A	70867983	A	A	70867983	3	1	110	1	0	0	0	0	1	0	0	0	7467	1087	38	1	1911	1	HYDIN	16	70867983	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	12124606	70867983	19486770	196	40882										
SPIRE2	84501	broad.mit.edu	37	chr16	89930203	89930203	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aaccagtctctcctgacagaTttgctgctgctgccgggcca	10	14	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr16:89930203T>C	uc002foz.1	+	12	1764	c.1712T>C	c.(1711-1713)ATT>ACT	p.I571T	SPIRE2_uc010ciw.1_Missense_Mutation_p.I571T|SPIRE2_uc002fpa.1_Missense_Mutation_p.I523T|SPIRE2_uc010cix.1_Missense_Mutation_p.I438T	NM_032451	NP_115827	Q8WWL2	SPIR2_HUMAN	spire homolog 2	571					transport	cytoplasm|cytoskeleton	actin binding			central_nervous_system(1)	1		Lung NSC(15;5.15e-06)|all_lung(18;8.38e-06)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0286)		TCCTGACAGATTTGCTGCTGC	0.607													43	9	---	---	---	---	PASS	C	89930203	C	C	89930203	3	2	110	1	0	0	0	0	1	0	0	0	15071	1507	52	5	1758	5	SPIRE2	16	89930203	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	19062220	89930203	424550	197	40883										
TP53	7157	broad.mit.edu	37	chr17	7577519	7577527	+	In_Frame_Del	DEL	GATGGTGAG	-	-													0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctggagtcttccagtgtgatGatggtgaggatgggcctccg					rs121912653		TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr17:7577519_7577527delGATGGTGAG	uc002gim.2	-	7	948_956	c.754_762delCTCACCATC	c.(754-762)CTCACCATCdel	p.LTI252del	TP53_uc002gig.1_In_Frame_Del_p.LTI252del|TP53_uc002gih.2_In_Frame_Del_p.LTI252del|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_In_Frame_Del_p.LTI120del|TP53_uc010cng.1_In_Frame_Del_p.LTI120del|TP53_uc002gii.1_In_Frame_Del_p.LTI120del|TP53_uc010cnh.1_In_Frame_Del_p.LTI252del|TP53_uc010cni.1_In_Frame_Del_p.LTI252del|TP53_uc002gij.2_In_Frame_Del_p.LTI252del|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_In_Frame_Del_p.LTI159del|TP53_uc002gio.2_In_Frame_Del_p.LTI120del	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	252_254	|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		I -> L (in a sporadic cancer; somatic mutation).|I -> D (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|I -> F (in a sporadic cancer; somatic mutation).|I -> N (in sporadic cancers; somatic mutation).|I -> S (in sporadic cancers; somatic mutation).|I -> T (in sporadic cancers; somatic mutation).|I -> V (in sporadic cancers; somatic mutation).|I -> M (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.L252F(9)|p.I254F(7)|p.L252P(7)|p.0?(7)|p.L252fs*93(6)|p.I254S(5)|p.T253S(5)|p.L252del(5)|p.I254fs*10(5)|p.I254V(4)|p.I251_T253delILT(4)|p.L252_I254delLTI(3)|p.T253I(3)|p.T253A(3)|p.I254T(3)|p.I254N(3)|p.I255fs*90(3)|p.I254D(3)|p.I255fs*9(3)|p.T253P(3)|p.P250_L252delPIL(2)|p.T253_I255del(2)|p.T253T(2)|p.T253fs*91(2)|p.I254del(2)|p.T253fs*11(2)|p.L252H(2)|p.L252_T253delLT(1)|p.T253N(1)|p.P250_T253delPILT(1)|p.I254I(1)|p.T253fs*92(1)|p.?(1)|p.I254fs*7(1)|p.I251_L252insX(1)|p.T253del(1)|p.L252fs*12(1)|p.L252fs*13(1)|p.R249_T256delRPILTIIT(1)|p.I254fs*91(1)|p.L252fs*92(1)|p.L252L(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)		CCAGTGTGATGATGGTGAGGATGGGCCTC	0.589		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	34	---	---	---	---		-	7577527	-	-	7577519	7	5	110	1	0	1	0	1	0	0	0	0	16378	1280	45	0	528	0	TP53	17	7577519	In_Frame_Del	DEL	GATGGTGAG	TCGA-46-6026-01A-11D-1817-08		7577519	73617691	198	40884										
ANKRD13B	124930	broad.mit.edu	37	chr17	27935921	27935921	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	acctacaaagtgtggaagagCggccagaacctgagggtaga	14	8	0	4			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr17:27935921C>T	uc002hei.2	+	5	587	c.474C>T	c.(472-474)AGC>AGT	p.S158S	ANKRD13B_uc002heh.2_Silent_p.S26S|ANKRD13B_uc002hej.2_RNA	NM_152345	NP_689558	Q86YJ7	AN13B_HUMAN	ankyrin repeat domain 13B	158											0						TGTGGAAGAGCGGCCAGAACC	0.592													21	20	---	---	---	---	PASS	T	27935921	T	T	27935921	2	4	110	1	0	0	0	0	0	0	0	1	642	767	27	1		1	ANKRD13B	17	27935921	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	20358402	27935921	53259289	199	40885										
SLC6A4	6532	broad.mit.edu	37	chr17	28543219	28543219	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gatgatataagggaaggtggCtgtcacccacaccacctgta	11	10	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr17:28543219C>T	uc002hey.3	-	7	1397	c.853G>A	c.(853-855)GCC>ACC	p.A285T		NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	285	Helical; Name=5; (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	GGGAAGGTGGCTGTCACCCAC	0.403													18	57	---	---	---	---	PASS	T	28543219	T	T	28543219	3	4	110	1	0	0	0	0	1	0	0	0	14686	797	28	3	1075	3	SLC6A4	17	28543219	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	607298	28543219	52651991	200	40886										
UNC45B	146862	broad.mit.edu	37	chr17	33491078	33491078	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ccatcctgcctgcccctgacTgacaacacccgcatgctggc	8	19	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr17:33491078T>A	uc002hja.2	+	9	1141	c.1044T>A	c.(1042-1044)ACT>ACA	p.T348T	UNC45B_uc002hjb.2_Silent_p.T348T|UNC45B_uc002hjc.2_Silent_p.T348T|UNC45B_uc010cto.2_Silent_p.T348T	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	348					cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				TGCCCCTGACTGACAACACCC	0.562													161	139	---	---	---	---	PASS	A	33491078	A	A	33491078	2	1	110	1	0	0	0	0	0	0	0	1	16986	1567	55	5		5	UNC45B	17	33491078	Silent	SNP	T	TCGA-46-6026-01A-11D-1817-08	4947859	33491078	47704132	201	40887										
AOC2	314	broad.mit.edu	37	chr17	40997994	40997994	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	atttctatggtggtttggccAgctcagcccttgtggtcagg	13	9	3	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr17:40997994A>G	uc002ibu.2	+	1	1386	c.1351A>G	c.(1351-1353)AGC>GGC	p.S451G	AOC2_uc002ibt.2_Missense_Mutation_p.S451G	NM_009590	NP_033720	O75106	AOC2_HUMAN	amine oxidase, copper containing 2 isoform b	451					catecholamine metabolic process|visual perception	cytoplasm|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|electron carrier activity|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			ovary(2)	2		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		TGGTTTGGCCAGCTCAGCCCT	0.522													42	87	---	---	---	---	PASS	G	40997994	G	G	40997994	3	3	110	1	0	0	0	0	1	0	0	0	727	188	7	5	1353	5	AOC2	17	40997994	Missense_Mutation	SNP	A	TCGA-46-6026-01A-11D-1817-08	7506916	40997994	40197216	202	40888										
SDK2	54549	broad.mit.edu	37	chr17	71346876	71346876	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gatgaagatgaggccgaccaGggcaatgaccaccaagaacc	12	11	0	5			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr17:71346876G>A	uc010dfm.2	-	42	5812	c.5812C>T	c.(5812-5814)CTG>TTG	p.L1938L	SDK2_uc002jjt.3_Silent_p.L1078L	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1938	Helical; (Potential).				cell adhesion	integral to membrane				ovary(2)	2						AGGCCGACCAGGGCAATGACC	0.567													52	51	---	---	---	---	PASS	A	71346876	A	A	71346876	2	1	110	1	0	0	0	0	0	0	0	1	13969	991	35	3		3	SDK2	17	71346876	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	30348882	71346876	9848334	203	40889										
KIF19	124602	broad.mit.edu	37	chr17	72350424	72350424	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gacagagcgcagcagcctgtCcctgcactcactgagcgagg	13	14	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr17:72350424C>G	uc002jkm.3	+	18	2570	c.2432C>G	c.(2431-2433)TCC>TGC	p.S811C		NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	811					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						AGCAGCCTGTCCCTGCACTCA	0.716													20	31	---	---	---	---	PASS	G	72350424	G	G	72350424	3	3	110	1	0	0	0	0	1	0	0	0	8282	855	30	2	2502	2	KIF19	17	72350424	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	1003548	72350424	8844786	204	40890										
TBC1D16	125058	broad.mit.edu	37	chr17	77914763	77914763	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gtgcccccgtagggacagctCtccgagccgggatggtggcc	16	14	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr17:77914763C>T	uc002jxj.2	-	12	2315	c.2199G>A	c.(2197-2199)GAG>GAA	p.E733E	uc002jxg.1_5'Flank|TBC1D16_uc002jxh.2_Silent_p.E371E|TBC1D16_uc002jxi.2_Silent_p.E358E	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	733						intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			AGGGACAGCTCTCCGAGCCGG	0.672													10	7	---	---	---	---	PASS	T	77914763	T	T	77914763	2	4	110	1	0	0	0	0	0	0	0	1	15602	912	32	2		2	TBC1D16	17	77914763	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	5564339	77914763	3280447	205	40891										
DTNA	1837	broad.mit.edu	37	chr18	32455309	32455309	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctccaccccgacgcacacgcCgcaggactccctcacaggag	9	20	1	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr18:32455309C>T	uc010dmn.1	+	17	1770	c.1769C>T	c.(1768-1770)CCG>CTG	p.P590L	DTNA_uc002kxw.2_Missense_Mutation_p.P533L|DTNA_uc010dmj.2_Missense_Mutation_p.P530L|DTNA_uc002kxz.2_Missense_Mutation_p.P537L|DTNA_uc002kxy.2_Missense_Mutation_p.P530L|DTNA_uc010xby.1_Missense_Mutation_p.P280L|DTNA_uc010xbz.1_Missense_Mutation_p.P299L|DTNA_uc010xca.1_Missense_Mutation_p.P242L|DTNA_uc002kye.2_Missense_Mutation_p.P238L	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	590					neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						ACGCACACGCCGCAGGACTCC	0.572													40	21	---	---	---	---	PASS	T	32455309	T	T	32455309	3	4	110	1	0	0	0	0	1	0	0	0	4788	652	23	1	1925	1	DTNA	18	32455309	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08		32455309	45621939	206	40892										
SETBP1	26040	broad.mit.edu	37	chr18	42531485	42531485	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	catctacattggcaagaagcGgggcaggaagccaagagcag	14	9	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr18:42531485G>T	uc010dni.2	+	4	2476	c.2180G>T	c.(2179-2181)CGG>CTG	p.R727L		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	727						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GGCAAGAAGCGGGGCAGGAAG	0.582									Schinzel-Giedion_syndrome				11	40	---	---	---	---	PASS	T	42531485	T	T	42531485	3	4	110	1	0	0	0	0	1	0	0	0	14129	1116	39	1	2383	1	SETBP1	18	42531485	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	10076176	42531485	35545763	207	40893										
RTTN	25914	broad.mit.edu	37	chr18	67795714	67795714	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tcaaggccaaacaatcagcaGataagggcaaaactatggag	10	8	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr18:67795714G>C	uc002lkp.2	-	24	3091	c.3023C>G	c.(3022-3024)TCT>TGT	p.S1008C	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.S96C	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1008							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				ACAATCAGCAGATAAGGGCAA	0.403													16	58	---	---	---	---	PASS	C	67795714	C	C	67795714	3	2	110	1	0	0	0	0	1	0	0	0	13737	942	33	2	3761	2	RTTN	18	67795714	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	25264229	67795714	10281534	208	40894										
MBP	4155	broad.mit.edu	37	chr18	74696745	74696745	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ccttaccagcttaaaaatttTggaaagcgtgccctgggcat	9	10	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr18:74696745T>C	uc010xfd.1	-	8	1120	c.856A>G	c.(856-858)AAA>GAA	p.K286E	MBP_uc002lml.2_Missense_Mutation_p.K179E|MBP_uc002lmn.2_Missense_Mutation_p.K168E|MBP_uc002lmp.2_Missense_Mutation_p.K142E|MBP_uc010xfe.1_3'UTR|MBP_uc010dqz.2_RNA	NM_001025101	NP_001020272	P02686	MBP_HUMAN	Golli-mbp isoform 1	286					central nervous system development|immune response|synaptic transmission	plasma membrane	structural constituent of myelin sheath			haematopoietic_and_lymphoid_tissue(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.79e-06)|BRCA - Breast invasive adenocarcinoma(31;0.113)|READ - Rectum adenocarcinoma(1;0.188)		TTAAAAATTTTGGAAAGCGTG	0.557													26	69	---	---	---	---	PASS	C	74696745	C	C	74696745	3	2	110	1	0	0	0	0	1	0	0	0	9359	1821	63	5	66	5	MBP	18	74696745	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	6901031	74696745	3380503	209	40895										
GRIN3B	116444	broad.mit.edu	37	chr19	1003150	1003150	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	acccattccacctgcagctgCactgggccagccccctggag	10	18	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:1003150C>T	uc002lqo.1	+	2	448	c.448C>T	c.(448-450)CAC>TAC	p.H150Y		NM_138690	NP_619635	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic,	150	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|protein insertion into membrane|regulation of calcium ion transport	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|ionotropic glutamate receptor activity|neurotransmitter receptor activity				0		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Glycine(DB00145)|L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	CCTGCAGCTGCACTGGGCCAG	0.677													18	8	---	---	---	---	PASS	T	1003150	T	T	1003150	3	4	110	1	0	0	0	0	1	0	0	0	6784	710	25	3	454	3	GRIN3B	19	1003150	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08		1003150	58125833	210	40896										
OR1M1	125963	broad.mit.edu	37	chr19	9204149	9204149	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	atttctgtctggccaccaacAccatccctaagatgctggtg	8	13	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:9204149A>G	uc010xkj.1	+	1	229	c.229A>G	c.(229-231)ACC>GCC	p.T77A		NM_001004456	NP_001004456	Q8NGA1	OR1M1_HUMAN	olfactory receptor, family 1, subfamily M,	77	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3						GGCCACCAACACCATCCCTAA	0.532													21	100	---	---	---	---	PASS	G	9204149	G	G	9204149	3	3	110	1	0	0	0	0	1	0	0	0	10968	159	6	5	231	5	OR1M1	19	9204149	Missense_Mutation	SNP	A	TCGA-46-6026-01A-11D-1817-08	8200999	9204149	49924834	211	40897										
ZNF700	90592	broad.mit.edu	37	chr19	12058351	12058351	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aaaaaatggagtgaccagaaCattgaatatgagtaccaaaa	8	5	0	4			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:12058351C>T	uc002msu.2	+	3	339	c.213C>T	c.(211-213)AAC>AAT	p.N71N	ZNF700_uc010xme.1_Silent_p.N89N|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	71	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTGACCAGAACATTGAATATG	0.343													87	43	---	---	---	---	PASS	T	12058351	T	T	12058351	2	4	110	1	0	0	0	0	0	0	0	1	18101	477	17	3		3	ZNF700	19	12058351	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	2854202	12058351	47070632	212	40898										
ZNF44	51710	broad.mit.edu	37	chr19	12383498	12383498	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggcttctctgccgtgtgagtCctttcatgagtttttaagta	10	8	2	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:12383498C>A	uc010xmj.1	-	5	1921	c.1716G>T	c.(1714-1716)AGG>AGT	p.R572S	ZNF44_uc002mtl.2_Intron|ZNF44_uc010dyr.1_Intron|ZNF44_uc010xmi.1_RNA|ZNF44_uc002mtn.3_RNA|ZNF44_uc010dys.2_Missense_Mutation_p.R524S	NM_001164276	NP_001157748	P15621	ZNF44_HUMAN	zinc finger protein 44 isoform 1	572	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		Renal(1328;0.157)		GBM - Glioblastoma multiforme(1328;0.0164)|Lung(535;0.179)		CCGTGTGAGTCCTTTCATGAG	0.408													8	63	---	---	---	---	PASS	A	12383498	A	A	12383498	3	1	110	1	0	0	0	0	1	0	0	0	17909	854	30	2	279	2	ZNF44	19	12383498	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	325147	12383498	46745485	213	40899										
GCDH	2639	broad.mit.edu	37	chr19	13002940	13002940	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ccctttgcagtttttcatcgGgagatcatttcggagatggg	12	8	2	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:13002940G>A	uc002mvq.2	+	5	359	c.282G>A	c.(280-282)CGG>CGA	p.R94R	GCDH_uc010xms.1_Intron|GCDH_uc002mvp.2_Silent_p.R94R|GCDH_uc010xmt.1_5'UTR|GCDH_uc010xmu.1_Intron	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a	94			R -> L (in GA1).		lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						TTTTTCATCGGGAGATCATTT	0.572													26	95	---	---	---	---	PASS	A	13002940	A	A	13002940	2	1	110	1	0	0	0	0	0	0	0	1	6287	1219	43	3		3	GCDH	19	13002940	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	619442	13002940	46126043	214	40900										
FARSA	2193	broad.mit.edu	37	chr19	13039467	13039467	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gggcttgaagggccggtcccGccaagagccactgggggagg	19	11	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:13039467G>A	uc002mvs.2	-	6	655	c.607C>T	c.(607-609)CGG>TGG	p.R203W	FARSA_uc002mvt.2_RNA|FARSA_uc010xmv.1_Missense_Mutation_p.R172W|FARSA_uc010dyy.1_Missense_Mutation_p.R124W	NM_004461	NP_004452	Q9Y285	SYFA_HUMAN	phenylalanyl-tRNA synthetase, alpha subunit	203					phenylalanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|phenylalanine-tRNA ligase activity|protein binding|tRNA binding			ovary(1)	1					L-Phenylalanine(DB00120)	GGCCGGTCCCGCCAAGAGCCA	0.687													24	13	---	---	---	---	PASS	A	13039467	A	A	13039467	3	1	110	1	0	0	0	0	1	0	0	0	5679	1086	38	1	951	1	FARSA	19	13039467	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	36527	13039467	46089516	215	40901										
RASAL3	64926	broad.mit.edu	37	chr19	15565328	15565328	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	atggctggtccatgttcctcCaggaagctattcatgaagcc	10	11	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:15565328C>T	uc002nbe.2	-	13	2090	c.2004G>A	c.(2002-2004)CTG>CTA	p.L668L	RASAL3_uc002nbd.2_Silent_p.L8L|RASAL3_uc010eaa.1_Silent_p.L156L	NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	668					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0						CATGTTCCTCCAGGAAGCTAT	0.607											OREG0025322	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	182	---	---	---	---	PASS	T	15565328	T	T	15565328	2	4	110	1	0	0	0	0	0	0	0	1	13065	581	21	3		3	RASAL3	19	15565328	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	2525861	15565328	43563655	216	40902										
ZNF208	7757	broad.mit.edu	37	chr19	22156530	22156530	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttccataaggtttgaggaccAgttgaaagctttgccacatt	9	8	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:22156530A>T	uc002nqp.2	-	4	1455	c.1306T>A	c.(1306-1308)TGG>AGG	p.W436R	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTTGAGGACCAGTTGAAAGCT	0.388													26	115	---	---	---	---	PASS	T	22156530	T	T	22156530	3	4	110	1	0	0	0	0	1	0	0	0	17763	188	7	5	2540	5	ZNF208	19	22156530	Missense_Mutation	SNP	A	TCGA-46-6026-01A-11D-1817-08	6591202	22156530	36972453	217	40903										
FAM187B	148109	broad.mit.edu	37	chr19	35719356	35719356	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttaatgagaaggctgccctcGggcattatttccatattgga	10	8	0	1	rs146665895		TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:35719356G>A	uc002nyk.1	-	1	273	c.228C>T	c.(226-228)CCC>CCT	p.P76P		NM_152481	NP_689694	Q17R55	F187B_HUMAN	family with sequence similarity 187, member B	76	Extracellular (Potential).					integral to membrane				ovary(2)	2						GGCTGCCCTCGGGCATTATTT	0.507													46	39	---	---	---	---	PASS	A	35719356	A	A	35719356	2	1	110	1	0	0	0	0	0	0	0	1	5513	1103	39	1		1	FAM187B	19	35719356	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	13562826	35719356	23409627	218	40904										
FAM187B	148109	broad.mit.edu	37	chr19	35719440	35719440	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aataaatagtaccagtgcgcCcccgaggagttgcaatacag	10	10	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:35719440C>A	uc002nyk.1	-	1	189	c.144G>T	c.(142-144)GGG>GGT	p.G48G		NM_152481	NP_689694	Q17R55	F187B_HUMAN	family with sequence similarity 187, member B	48	Extracellular (Potential).					integral to membrane				ovary(2)	2						ACCAGTGCGCCCCCGAGGAGT	0.512													35	40	---	---	---	---	PASS	A	35719440	A	A	35719440	2	1	110	1	0	0	0	0	0	0	0	1	5513	610	22	3		3	FAM187B	19	35719440	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	84	35719440	23409543	219	40905										
ZFP30	22835	broad.mit.edu	37	chr19	38127106	38127106	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctttcttgttcttcaagtccAcagcttttaattctttccat	3	11	4	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:38127106A>G	uc002ogv.1	-	6	852	c.336T>C	c.(334-336)TGT>TGC	p.C112C	ZFP30_uc002ogw.1_Silent_p.C112C|ZFP30_uc002ogx.1_Silent_p.C112C|ZFP30_uc010xtt.1_Silent_p.C111C	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog	112					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTTCAAGTCCACAGCTTTTAA	0.353													14	44	---	---	---	---	PASS	G	38127106	G	G	38127106	2	3	110	1	0	0	0	0	0	0	0	1	17641	157	6	5		5	ZFP30	19	38127106	Silent	SNP	A	TCGA-46-6026-01A-11D-1817-08	2407666	38127106	21001877	220	40906										
PSG2	5670	broad.mit.edu	37	chr19	43575978	43575978	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cagattttgtcctgattgctGaaacttcccattaattgtcc	6	10	0	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:43575978G>A	uc002ovr.2	-	4	931	c.838C>T	c.(838-840)CAG>TAG	p.Q280*	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Nonsense_Mutation_p.Q280*|PSG2_uc010eiq.1_Nonsense_Mutation_p.Q280*|PSG2_uc002ovs.3_Nonsense_Mutation_p.Q280*|PSG2_uc002ovt.3_Nonsense_Mutation_p.Q280*	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	280	Ig-like C2-type 2.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				CCTGATTGCTGAAACTTCCCA	0.448													106	70	---	---	---	---	PASS	A	43575978	A	A	43575978	4	1	110	1	0	0	0	0	0	1	0	0	12655	1299	45	2	177	2	PSG2	19	43575978	Nonsense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	5448872	43575978	15553005	221	40907										
PSG2	5670	broad.mit.edu	37	chr19	43576022	43576022	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aatactgtgccggtgggttaGagttcgcgaagcaagacaag	14	7	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:43576022G>C	uc002ovr.2	-	4	887	c.794C>G	c.(793-795)TCT>TGT	p.S265C	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.S265C|PSG2_uc010eiq.1_Missense_Mutation_p.S265C|PSG2_uc002ovs.3_Missense_Mutation_p.S265C|PSG2_uc002ovt.3_Missense_Mutation_p.S265C	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	265	Ig-like C2-type 2.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				CGGTGGGTTAGAGTTCGCGAA	0.453													98	79	---	---	---	---	PASS	C	43576022	C	C	43576022	3	2	110	1	0	0	0	0	1	0	0	0	12655	942	33	2	221	2	PSG2	19	43576022	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	44	43576022	15552961	222	40908										
PPP1R13L	10848	broad.mit.edu	37	chr19	45885788	45885788	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ttctcccctgggctcaccccGaagtagttccgcggcacgta	10	16	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:45885788G>A	uc002pbn.2	-	12	2522	c.2445C>T	c.(2443-2445)TTC>TTT	p.F815F	PPP1R13L_uc002pbm.2_Silent_p.F394F|PPP1R13L_uc002pbo.2_Silent_p.F815F	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	815	SH3.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		GGCTCACCCCGAAGTAGTTCC	0.657													42	24	---	---	---	---	PASS	A	45885788	A	A	45885788	2	1	110	1	0	0	0	0	0	0	0	1	12358	1049	37	2		2	PPP1R13L	19	45885788	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08	2309766	45885788	13243195	223	40909										
SPIB	6689	broad.mit.edu	37	chr19	50926910	50926910	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	accccagccctgtgctatcaGaggaggaagacttaccgttg	11	12	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:50926910G>C	uc002psd.2	+	5	413	c.388G>C	c.(388-390)GAG>CAG	p.E130Q	SPIB_uc002pse.2_Missense_Mutation_p.E130Q|SPIB_uc010ycc.1_Missense_Mutation_p.E39Q	NM_003121	NP_003112	Q01892	SPIB_HUMAN	Spi-B transcription factor (Spi-1/PU.1 related)	130					regulation of transcription from RNA polymerase II promoter	cytoplasm|microtubule cytoskeleton|nucleus	sequence-specific DNA binding			lung(1)|kidney(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		TGTGCTATCAGAGGAGGAAGA	0.657													7	17	---	---	---	---	PASS	C	50926910	C	C	50926910	3	2	110	1	0	0	0	0	1	0	0	0	15049	943	33	2	406	2	SPIB	19	50926910	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	5041122	50926910	8202073	224	40910										
LILRA5	353514	broad.mit.edu	37	chr19	54822833	54822833	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	actgcccactgggggtcagcTgtgagtccaaggtccaggag	15	11	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:54822833T>A	uc002qfe.2	-	5	683	c.563A>T	c.(562-564)CAG>CTG	p.Q188L	LILRA5_uc002qff.2_Missense_Mutation_p.Q176L|LILRA5_uc010yev.1_Missense_Mutation_p.Q188L|LILRA5_uc010yew.1_Missense_Mutation_p.Q176L|LILRA5_uc002qfh.1_Missense_Mutation_p.Q176L|LILRA5_uc002qfg.1_Missense_Mutation_p.Q188L	NM_021250	NP_067073	A6NI73	LIRA5_HUMAN	leukocyte immunoglobulin-like receptor subfamily	188	Extracellular (Potential).|Ig-like C2-type 2.				innate immune response	extracellular region|integral to membrane	receptor activity			upper_aerodigestive_tract(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GGGGGTCAGCTGTGAGTCCAA	0.597													34	22	---	---	---	---	PASS	A	54822833	A	A	54822833	3	1	110	1	0	0	0	0	1	0	0	0	8788	1580	55	5	434	5	LILRA5	19	54822833	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	3895923	54822833	4306150	225	40911										
LILRA4	23547	broad.mit.edu	37	chr19	54845234	54845234	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tggattgagggtctcagttgCtcctaagaatcaaagaataa	10	6	2	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:54845234C>T	uc002qfj.2	-	7	1315	c.1258G>A	c.(1258-1260)GCA>ACA	p.A420T	LILRA4_uc002qfi.2_Missense_Mutation_p.A354T	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	420	Extracellular (Potential).					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		GTCTCAGTTGCTCCTAAGAAT	0.488													43	25	---	---	---	---	PASS	T	54845234	T	T	54845234	3	4	110	1	0	0	0	0	1	0	0	0	8787	797	28	3	249	3	LILRA4	19	54845234	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	22401	54845234	4283749	226	40912										
LENG8	114823	broad.mit.edu	37	chr19	54963343	54963343	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cgccgatgcacgagaacccgGagtgggagaaggcccgtcag	16	12	1	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:54963343G>A	uc002qfv.1	+	3	256	c.112G>A	c.(112-114)GAG>AAG	p.E38K	LENG8_uc002qfw.2_Missense_Mutation_p.E38K			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	38							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		CGAGAACCCGGAGTGGGAGAA	0.627													20	57	---	---	---	---	PASS	A	54963343	A	A	54963343	3	1	110	1	0	0	0	0	1	0	0	0	8724	1175	41	2	118	2	LENG8	19	54963343	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	118109	54963343	4165640	227	40913										
RDH13	112724	broad.mit.edu	37	chr19	55558804	55558804	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tggatgcccgtgtgtctgccCagctctgtcctggccacgcc	12	16	2	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:55558804C>A	uc002qio.3	-	6	896	c.711G>T	c.(709-711)CTG>CTT	p.L237L	RDH13_uc002qip.2_Silent_p.L166L|RDH13_uc010esr.1_RNA	NM_001145971	NP_001139443	Q8NBN7	RDH13_HUMAN	retinol dehydrogenase 13 isoform 1	237							binding|oxidoreductase activity			large_intestine(1)|ovary(1)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(297;0.199)	GBM - Glioblastoma multiforme(193;0.0504)	Vitamin A(DB00162)	TGTGTCTGCCCAGCTCTGTCC	0.647													19	13	---	---	---	---	PASS	A	55558804	A	A	55558804	2	1	110	1	0	0	0	0	0	0	0	1	13192	581	21	3		3	RDH13	19	55558804	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	595461	55558804	3570179	228	40914										
ZNF776	284309	broad.mit.edu	37	chr19	58266005	58266005	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gttttcgtcaaaagggaaacCtcattaaacatcaacgagtt	7	8	3	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:58266005C>G	uc002qpx.2	+	3	1730	c.1507C>G	c.(1507-1509)CTC>GTC	p.L503V	ZNF587_uc002qqb.2_Intron|ZNF776_uc002qqa.2_Missense_Mutation_p.L503V	NM_173632	NP_775903	Q68DI1	ZN776_HUMAN	zinc finger protein 776	503	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0256)		AAAGGGAAACCTCATTAAACA	0.423													31	35	---	---	---	---	PASS	G	58266005	G	G	58266005	3	3	110	1	0	0	0	0	1	0	0	0	18146	681	24	4	1517	4	ZNF776	19	58266005	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	2707201	58266005	862978	229	40915										
ZSCAN18	65982	broad.mit.edu	37	chr19	58596227	58596227	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ggtgctcggctagggccaggCtgaagtggaaggtcttccag	17	9	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr19:58596227C>A	uc002qri.2	-	7	1667	c.1358G>T	c.(1357-1359)AGC>ATC	p.S453I	ZSCAN18_uc002qrj.3_Missense_Mutation_p.S452I|ZSCAN18_uc010yhs.1_Missense_Mutation_p.S317I|ZSCAN18_uc002qrh.2_Missense_Mutation_p.S453I|ZSCAN18_uc010yht.1_Missense_Mutation_p.S509I|ZSCAN18_uc002qrk.1_3'UTR|ZSCAN18_uc002qrl.2_3'UTR	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	453	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TAGGGCCAGGCTGAAGTGGAA	0.687													6	6	---	---	---	---	PASS	A	58596227	A	A	58596227	3	1	110	1	0	0	0	0	1	0	0	0	18227	797	28	3	178	3	ZSCAN18	19	58596227	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08	330222	58596227	532756	230	40916										
PROKR2	128674	broad.mit.edu	37	chr20	5294818	5294818	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	acaaagttaccgatgccgcaGaccagcatgatgcctgccag	10	13	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr20:5294818G>A	uc010zqw.1	-	1	198	c.198C>T	c.(196-198)GTC>GTT	p.V66V	PROKR2_uc010zqx.1_Silent_p.V66V|PROKR2_uc010zqy.1_Silent_p.V66V|uc002wly.1_5'Flank	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	66	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						CGATGCCGCAGACCAGCATGA	0.537										HNSCC(71;0.22)			69	54	---	---	---	---	PASS	A	5294818	A	A	5294818	2	1	110	1	0	0	0	0	0	0	0	1	12553	929	33	2		2	PROKR2	20	5294818	Silent	SNP	G	TCGA-46-6026-01A-11D-1817-08		5294818	57730702	231	40917										
SALL4	57167	broad.mit.edu	37	chr20	50400992	50400992	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gagggtaggaacccccccacTctggatcacagagatctcat	10	13	3	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr20:50400992T>G	uc002xwh.3	-	4	3075	c.2974A>C	c.(2974-2976)AGT>CGT	p.S992R	SALL4_uc010gii.2_Missense_Mutation_p.S555R|SALL4_uc002xwi.3_Missense_Mutation_p.S215R	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	992					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ACCCCCCCACTCTGGATCACA	0.577													61	51	---	---	---	---	PASS	G	50400992	G	G	50400992	3	3	110	1	0	0	0	0	1	0	0	0	13813	1551	54	5	191	5	SALL4	20	50400992	Missense_Mutation	SNP	T	TCGA-46-6026-01A-11D-1817-08	45106174	50400992	12624528	232	40918										
RTEL1	51750	broad.mit.edu	37	chr20	62322277	62322277	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tggagcacagcgaacagcggGcggggagccctggcgaggag	20	10	0	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr20:62322277G>T	uc002yfu.1	+	27	2876	c.2533G>T	c.(2533-2535)GCG>TCG	p.A845S	RTEL1_uc011abc.1_RNA|RTEL1_uc002yft.1_Missense_Mutation_p.A845S|RTEL1_uc011abd.1_Missense_Mutation_p.A869S|RTEL1_uc011abe.1_Missense_Mutation_p.A622S|RTEL1_uc002yfw.2_RNA|RTEL1_uc002yfx.1_Missense_Mutation_p.A90S	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1	845				A -> V (in Ref. 4; BAG63785).	DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)			CGAACAGCGGGCGGGGAGCCC	0.682													4	6	---	---	---	---	PASS	T	62322277	T	T	62322277	3	4	110	1	0	0	0	0	1	0	0	0	13720	1203	42	3	2635	3	RTEL1	20	62322277	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	11921285	62322277	703243	233	40919										
TPTE	7179	broad.mit.edu	37	chr21	10969127	10969127	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tttaaattcacttgtgtgtgGgctagaggatgataaaagaa	11	3	1	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr21:10969127G>A	uc002yip.1	-	7	489	c.121C>T	c.(121-123)CCA>TCA	p.P41S	TPTE_uc002yis.1_Intron|TPTE_uc002yiq.1_Intron|TPTE_uc002yir.1_Intron|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	41					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CTTGTGTGTGGGCTAGAGGAT	0.269													13	146	---	---	---	---	PASS	A	10969127	A	A	10969127	3	1	110	1	0	0	0	0	1	0	0	0	16427	1246	43	3	1606	3	TPTE	21	10969127	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08		10969127	37160768	234	40920										
CELSR1	9620	broad.mit.edu	37	chr22	46930324	46930324	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	ctgagtcccggtccgtggcaGagacctggaggatgctggtc	16	11	0	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr22:46930324G>C	uc003bhw.1	-	1	2744	c.2744C>G	c.(2743-2745)TCT>TGT	p.S915C		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	915	Extracellular (Potential).|Cadherin 7.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GTCCGTGGCAGAGACCTGGAG	0.597													15	12	---	---	---	---	PASS	C	46930324	C	C	46930324	3	2	110	1	0	0	0	0	1	0	0	0	3221	942	33	2	6440	2	CELSR1	22	46930324	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08		46930324	4374242	235	40921										
CELSR1	9620	broad.mit.edu	37	chr22	46930352	46930352	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	gaggatgctggtcgagggtgGagcatcctcaaagatggaac	16	7	1	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chr22:46930352G>A	uc003bhw.1	-	1	2716	c.2716C>T	c.(2716-2718)CCA>TCA	p.P906S		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	906	Extracellular (Potential).|Cadherin 7.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GTCGAGGGTGGAGCATCCTCA	0.587													8	14	---	---	---	---	PASS	A	46930352	A	A	46930352	3	1	110	1	0	0	0	0	1	0	0	0	3221	1174	41	2	6468	2	CELSR1	22	46930352	Missense_Mutation	SNP	G	TCGA-46-6026-01A-11D-1817-08	28	46930352	4374214	236	40922										
OFD1	8481	broad.mit.edu	37	chrX	13778539	13778539	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	aggctttcagaagttaccatCggagagtcattaaaaactct	8	8	3	2			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chrX:13778539C>T	uc004cvp.3	+	16	2319	c.1960C>T	c.(1960-1962)CGG>TGG	p.R654W	OFD1_uc004cvr.3_Missense_Mutation_p.R221W|OFD1_uc011mil.1_Missense_Mutation_p.R221W|OFD1_uc004cvq.3_Missense_Mutation_p.R514W|OFD1_uc010nen.2_Missense_Mutation_p.R653W|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Missense_Mutation_p.R613W|OFD1_uc004cvv.3_Missense_Mutation_p.R613W	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	654	Potential.|Mediates the interaction with SDCCAG8.|Mediates homooligomerization.				cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0						AAGTTACCATCGGAGAGTCAT	0.478													34	5	---	---	---	---	PASS	T	13778539	T	T	13778539	3	4	110	1	0	0	0	0	1	0	0	0	10838	875	31	2	2022	2	OFD1	23	13778539	Missense_Mutation	SNP	C	TCGA-46-6026-01A-11D-1817-08		13778539	141492021	237	40923										
MED14	9282	broad.mit.edu	37	chrX	40551537	40551537	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	tctcctgctcgttttgttttCttggattctactggacatgg	9	9	3	0			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chrX:40551537C>T	uc004dex.3	-	15	2018	c.1878G>A	c.(1876-1878)AAG>AAA	p.K626K		NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	626	Interaction with SREBF1.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						GTTTTGTTTTCTTGGATTCTA	0.353													24	1	---	---	---	---	PASS	T	40551537	T	T	40551537	2	4	110	1	0	0	0	0	0	0	0	1	9432	912	32	2		2	MED14	23	40551537	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	26772998	40551537	114719023	238	40924										
SHROOM4	57477	broad.mit.edu	37	chrX	50341344	50341344	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cgtccagagagtgacagcaaCaggttgaccactttgtccag	11	11	0	3			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chrX:50341344C>A	uc004dpe.2	-	8	4160	c.4134G>T	c.(4132-4134)CTG>CTT	p.L1378L	SHROOM4_uc004dpd.3_RNA	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	1378	ASD2.				actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					GTGACAGCAACAGGTTGACCA	0.522													33	1	---	---	---	---	PASS	A	50341344	A	A	50341344	2	1	110	1	0	0	0	0	0	0	0	1	14296	465	17	3		3	SHROOM4	23	50341344	Silent	SNP	C	TCGA-46-6026-01A-11D-1817-08	9789807	50341344	104929216	239	40925										
FLNA	2316	broad.mit.edu	37	chrX	153594531	153594531	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.168067226890756	40	2.57308967381137e-07	2.42724671993687	3.90157435723185	2.01686686213311	0.0212085990021263	0.157643740096309	24	cgggcctccagctgaggctcTaccgtgcccttctgtcccat	10	17	2	1			TCGA-46-6026-01A-11D-1817-08	TCGA-46-6026-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	42a4a60c-257e-4bf6-a9ba-6f162dbca94a	ca8e5a2b-459e-46c9-9818-cc8a71465b1f	g.chrX:153594531T>C	uc004fkk.2	-	9	1539	c.1290A>G	c.(1288-1290)GTA>GTG	p.V430V	FLNA_uc010nuu.1_Silent_p.V430V	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	430	Filamin 2.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GCTGAGGCTCTACCGTGCCCT	0.682													34	3	---	---	---	---	PASS	C	153594531	C	C	153594531	2	2	110	1	0	0	0	0	0	0	0	1	5933	1509	53	5		5	FLNA	23	153594531	Silent	SNP	T	TCGA-46-6026-01A-11D-1817-08	103253187	153594531	1676029	240	40926										
MIIP	60672	broad.mit.edu	37	chr1	12091849	12091849	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggtccctcggccccacgtccCacggcagaagccctgaggac	12	18	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:12091849C>T	uc001ato.1	+	10	1331	c.1151C>T	c.(1150-1152)CCA>CTA	p.P384L		NM_021933	NP_068752	Q5JXC2	MIIP_HUMAN	invasion inhibitory protein 45	384										ovary(1)	1						CCCCACGTCCCACGGCAGAAG	0.672													34	59	---	---	---	---	PASS	T	12091849	T	T	12091849	3	4	111	1	0	0	0	0	1	0	0	0	9585	594	21	3	1185	3	MIIP	1	12091849	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08		12091849	237158772	1	40927										
PLA2G5	5322	broad.mit.edu	37	chr1	20412684	20412684	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctacggctgttactgcggctGgggcggccgaggaaccccca	15	14	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:20412684G>A	uc001bcy.2	+	3	417	c.149G>A	c.(148-150)TGG>TAG	p.W50*	PLA2G5_uc001bcw.2_RNA|PLA2G5_uc001bcx.2_Nonsense_Mutation_p.W81*	NM_000929	NP_000920	P39877	PA2G5_HUMAN	phospholipase A2, group V precursor	50					lipid catabolic process	extracellular region	calcium ion binding|calcium-dependent phospholipase A2 activity			skin(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000249)|Lung NSC(340;0.000287)|Breast(348;0.000812)|Ovarian(437;0.00328)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.22e-05)|BRCA - Breast invasive adenocarcinoma(304;8.15e-05)|Kidney(64;0.000184)|GBM - Glioblastoma multiforme(114;0.00089)|KIRC - Kidney renal clear cell carcinoma(64;0.0027)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0652)		TACTGCGGCTGGGGCGGCCGA	0.488													19	33	---	---	---	---	PASS	A	20412684	A	A	20412684	4	1	111	1	0	0	0	0	0	1	0	0	12007	1357	47	3	155	3	PLA2G5	1	20412684	Nonsense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	8320835	20412684	228837937	2	40928										
C1orf91	56063	broad.mit.edu	37	chr1	32687602	32687602	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccacagagcggccaccagcaCcagagccaacacctgccctg	9	19	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:32687602C>T	uc009vub.1	-	2	37	c.34G>A	c.(34-36)GTG>ATG	p.V12M	C1orf91_uc001buo.3_RNA|C1orf91_uc001bup.3_RNA|C1orf91_uc010oha.1_RNA|C1orf91_uc001buq.3_Missense_Mutation_p.V12M|EIF3I_uc001bur.3_5'UTR|EIF3I_uc009vuc.2_5'Flank|EIF3I_uc001bus.2_5'Flank			Q8WY98	TM234_HUMAN	RecName: Full=UPF0546 membrane protein C1orf91;	12	Helical; (Potential).					integral to membrane					0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				GCCACCAGCACCAGAGCCAAC	0.697													19	37	---	---	---	---	PASS	T	32687602	T	T	32687602	3	4	111	1	0	0	0	0	1	0	0	0	2068	507	18	3	404	3	C1orf91	1	32687602	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	12274918	32687602	216563019	3	40929										
GRIK3	2899	broad.mit.edu	37	chr1	37291414	37291414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgatggtcaggggggccacgGccagatctgccttctgcaac	14	12	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:37291414G>T	uc001caz.2	-	11	1679	c.1544C>A	c.(1543-1545)GCC>GAC	p.A515D	GRIK3_uc001cba.1_Missense_Mutation_p.A515D	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	515	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GGGGGCCACGGCCAGATCTGC	0.522													24	95	---	---	---	---	PASS	T	37291414	T	T	37291414	3	4	111	1	0	0	0	0	1	0	0	0	6775	1203	42	3	1239	3	GRIK3	1	37291414	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	4603812	37291414	211959207	4	40930										
MANEAL	149175	broad.mit.edu	37	chr1	38265828	38265828	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgtacctggagctgacacgcCgctgggcggagcacttcatc	13	13	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:38265828C>T	uc001cby.2	+	4	1408	c.1327C>T	c.(1327-1329)CGC>TGC	p.R443C	MANEAL_uc001cbx.2_3'UTR|MANEAL_uc001cbz.2_Missense_Mutation_p.R221C	NM_001113482	NP_001106954	Q5VSG8	MANEL_HUMAN	mannosidase, endo-alpha-like isoform 3	443	Lumenal (Potential).					Golgi membrane|integral to membrane	hydrolase activity				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GCTGACACGCCGCTGGGCGGA	0.582													24	75	---	---	---	---	PASS	T	38265828	T	T	38265828	3	4	111	1	0	0	0	0	1	0	0	0	9222	652	23	1	1341	1	MANEAL	1	38265828	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	974414	38265828	210984793	5	40931										
SCMH1	22955	broad.mit.edu	37	chr1	41579063	41579063	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtcaaaggcccctcgccaccCatcaaaagtgacaagcacct	7	16	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:41579063C>G	uc001cgo.2	-	8	918	c.607G>C	c.(607-609)GGG>CGG	p.G203R	SCMH1_uc010ojr.1_Intron|SCMH1_uc001cgp.2_Missense_Mutation_p.G142R|SCMH1_uc001cgr.2_Missense_Mutation_p.G142R|SCMH1_uc001cgs.2_Missense_Mutation_p.G213R|SCMH1_uc001cgt.2_Missense_Mutation_p.G142R|SCMH1_uc001cgq.2_Missense_Mutation_p.G156R|SCMH1_uc010ojs.1_RNA	NM_001031694	NP_001026864	Q96GD3	SCMH1_HUMAN	sex comb on midleg 1 isoform 1	203	MBT 2.				anatomical structure morphogenesis|gene silencing|multicellular organismal development|negative regulation of transcription, DNA-dependent		DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)|Breast(333;0.162)	Myeloproliferative disorder(586;0.0393)				CCTCGCCACCCATCAAAAGTG	0.567													27	96	---	---	---	---	PASS	G	41579063	G	G	41579063	3	3	111	1	0	0	0	0	1	0	0	0	13908	594	21	4	1411	4	SCMH1	1	41579063	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	3313235	41579063	207671558	6	40932										
AGBL4	84871	broad.mit.edu	37	chr1	49100272	49100272	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagatcaaatcccatcagagAacacctaggcagtacccaaa	6	13	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:49100272A>T	uc001cru.2	-	9	1002	c.844T>A	c.(844-846)TCT>ACT	p.S282T	AGBL4_uc010omw.1_Missense_Mutation_p.S15T|AGBL4_uc010omx.1_Missense_Mutation_p.S294T|AGBL4_uc001crv.1_Missense_Mutation_p.S135T|AGBL4_uc010omy.1_Missense_Mutation_p.S105T	NM_032785	NP_116174	Q5VU57	CBPC6_HUMAN	ATP/GTP binding protein-like 4	282					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2				Colorectal(2;0.00349)|COAD - Colon adenocarcinoma(2;0.0037)		CCCATCAGAGAACACCTAGGC	0.448													4	11	---	---	---	---	PASS	T	49100272	T	T	49100272	3	4	111	1	0	0	0	0	1	0	0	0	377	246	9	5	691	5	AGBL4	1	49100272	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	7521209	49100272	200150349	7	40933										
C8A	731	broad.mit.edu	37	chr1	57383376	57383376	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tccagggcggaaagtacagaCgcaggcttgctgagggcctc	15	11	0	2	rs143726641	by1000genomes	TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:57383376C>A	uc001cyo.2	+	11	1874	c.1742C>A	c.(1741-1743)ACG>AAG	p.T581K		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	581	TSP type-1 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						AAAGTACAGACGCAGGCTTGC	0.537													24	49	---	---	---	---	PASS	A	57383376	A	A	57383376	3	1	111	1	0	0	0	0	1	0	0	0	2416	536	19	1	1784	1	C8A	1	57383376	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	8283104	57383376	191867245	8	40934										
DNAJC6	9829	broad.mit.edu	37	chr1	65855118	65855118	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcaccaggaacatcaagataCgctggccttaggaggtatga	11	9	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:65855118C>T	uc001dcd.1	+	10	1366	c.1202C>T	c.(1201-1203)ACG>ATG	p.T401M	DNAJC6_uc001dcc.1_Missense_Mutation_p.T432M|DNAJC6_uc010opc.1_Missense_Mutation_p.T388M|DNAJC6_uc001dce.1_Missense_Mutation_p.T458M	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	401					cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						CATCAAGATACGCTGGCCTTA	0.418													26	79	---	---	---	---	PASS	T	65855118	T	T	65855118	3	4	111	1	0	0	0	0	1	0	0	0	4653	536	19	1	1240	1	DNAJC6	1	65855118	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	8471742	65855118	183395503	9	40935										
LEPR	3953	broad.mit.edu	37	chr1	66067630	66067630	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttgcggaaagcactttgcaaTtgaggtatcataggtacgta	11	6	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:66067630T>A	uc001dci.2	+	10	1592	c.1390T>A	c.(1390-1392)TTG>ATG	p.L464M	LEPR_uc001dcg.2_Missense_Mutation_p.L464M|LEPR_uc001dch.2_Missense_Mutation_p.L464M|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Missense_Mutation_p.L464M|LEPR_uc001dck.2_Missense_Mutation_p.L464M	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	464	Extracellular (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)		CACTTTGCAATTGAGGTATCA	0.348													58	141	---	---	---	---	PASS	A	66067630	A	A	66067630	3	1	111	1	0	0	0	0	1	0	0	0	8728	1490	52	5	1420	5	LEPR	1	66067630	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	212512	66067630	183182991	10	40936										
IL12RB2	3595	broad.mit.edu	37	chr1	67804309	67804309	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttttctcctttgaaacagagCctactgggatgttagatgtc	9	8	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:67804309C>T	uc001ddu.2	+	8	1601	c.961C>T	c.(961-963)CCT>TCT	p.P321S	IL12RB2_uc010oqi.1_Missense_Mutation_p.P321S|IL12RB2_uc010oqj.1_Missense_Mutation_p.P321S|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Missense_Mutation_p.P321S|IL12RB2_uc010oqm.1_Missense_Mutation_p.P321S|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	321	Fibronectin type-III 3.|Extracellular (Potential).				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						TGAAACAGAGCCTACTGGGAT	0.348													31	83	---	---	---	---	PASS	T	67804309	T	T	67804309	3	4	111	1	0	0	0	0	1	0	0	0	7627	739	26	3	987	3	IL12RB2	1	67804309	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1736679	67804309	181446312	11	40937										
C1orf173	127254	broad.mit.edu	37	chr1	75037023	75037023	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccatcgccactcccagtggcTgcctcctggccctctgaccc	8	21	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:75037023T>A	uc001dgg.2	-	14	4590	c.4371A>T	c.(4369-4371)GCA>GCT	p.A1457A		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1457	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TCCCAGTGGCTGCCTCCTGGC	0.592													47	129	---	---	---	---	PASS	A	75037023	A	A	75037023	2	1	111	1	0	0	0	0	0	0	0	1	2014	1567	55	5		5	C1orf173	1	75037023	Silent	SNP	T	TCGA-51-4079-01A-01D-1458-08	7232714	75037023	174213598	12	40938										
C1orf173	127254	broad.mit.edu	37	chr1	75038490	75038490	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agaattgcctcttcagaaccGtcctctctctttgatgctgt	7	12	4	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:75038490G>A	uc001dgg.2	-	14	3123	c.2904C>T	c.(2902-2904)GAC>GAT	p.D968D		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	968	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTTCAGAACCGTCCTCTCTCT	0.522													50	117	---	---	---	---	PASS	A	75038490	A	A	75038490	2	1	111	1	0	0	0	0	0	0	0	1	2014	1136	40	1		1	C1orf173	1	75038490	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	1467	75038490	174212131	13	40939										
ZNHIT6	54680	broad.mit.edu	37	chr1	86142970	86142970	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcattaaaatctgaaccccaGtctgagagcgaatgtaggct	9	9	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:86142970G>A	uc001dlh.2	-	8	1330	c.1196C>T	c.(1195-1197)ACT>ATT	p.T399I	ZNHIT6_uc010osc.1_Missense_Mutation_p.T360I	NM_017953	NP_060423	Q9NWK9	BCD1_HUMAN	zinc finger, HIT type 6	399					box C/D snoRNP assembly|ribosome biogenesis	pre-snoRNP complex	identical protein binding|metal ion binding			large_intestine(1)	1						CTGAACCCCAGTCTGAGAGCG	0.313													31	89	---	---	---	---	PASS	A	86142970	A	A	86142970	3	1	111	1	0	0	0	0	1	0	0	0	18206	1029	36	3	228	3	ZNHIT6	1	86142970	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	11104480	86142970	163107651	14	40940										
BARHL2	343472	broad.mit.edu	37	chr1	91177965	91177965	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggatgagcacacggggcacCaggggccgctgcagctgggg	19	11	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:91177965C>A	uc001dns.2	-	3	1110	c.1068G>T	c.(1066-1068)CTG>CTT	p.L356L		NM_020063	NP_064447	Q9NY43	BARH2_HUMAN	BarH-like homeobox 2	356						nucleus	sequence-specific DNA binding			ovary(1)	1		all_lung(203;0.0263)|Lung SC(238;0.128)		all cancers(265;0.000897)|Epithelial(280;0.00516)|OV - Ovarian serous cystadenocarcinoma(397;0.211)		CACGGGGCACCAGGGGCCGCT	0.677													8	21	---	---	---	---	PASS	A	91177965	A	A	91177965	2	1	111	1	0	0	0	0	0	0	0	1	1314	581	21	3		3	BARHL2	1	91177965	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	5034995	91177965	158072656	15	40941										
TGFBR3	7049	broad.mit.edu	37	chr1	92182160	92182160	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcgggtgaacagggaagcatCtccttcatccatatctcccg	9	13	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:92182160C>T	uc001doh.2	-	11	2138	c.1672G>A	c.(1672-1674)GAT>AAT	p.D558N	TGFBR3_uc009wde.2_Missense_Mutation_p.D335N|TGFBR3_uc010osy.1_Missense_Mutation_p.D516N|TGFBR3_uc001doi.2_Missense_Mutation_p.D557N|TGFBR3_uc001doj.2_Missense_Mutation_p.D557N	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	558	ZP.|Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		AGGGAAGCATCTCCTTCATCC	0.468													102	281	---	---	---	---	PASS	T	92182160	T	T	92182160	3	4	111	1	0	0	0	0	1	0	0	0	15820	913	32	2	911	2	TGFBR3	1	92182160	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1004195	92182160	157068461	16	40942										
HSD3B2	3284	broad.mit.edu	37	chr1	119962145	119962145	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cggtcgtcatccacaccgccTgtatcattgatgtctttggt	9	12	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:119962145T>C	uc001ehs.2	+	2	1020	c.247T>C	c.(247-249)TGT>CGT	p.C83R	HSD3B2_uc001eht.2_Missense_Mutation_p.C83R|HSD3B2_uc001ehu.2_Missense_Mutation_p.C83R	NM_000198	NP_000189	P26439	3BHS2_HUMAN	3 beta-hydroxysteroid dehydrogenase 2	83					androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)	CCACACCGCCTGTATCATTGA	0.478													12	22	---	---	---	---	PASS	C	119962145	C	C	119962145	3	2	111	1	0	0	0	0	1	0	0	0	7391	1580	55	5	253	5	HSD3B2	1	119962145	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	27779985	119962145	129288476	17	40943										
ZBTB7B	51043	broad.mit.edu	37	chr1	154988739	154988739	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgcggaagcacacgggagagCgcccctactcatgcccgcac	12	16	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:154988739C>T	uc001fgk.3	+	4	1356	c.1198C>T	c.(1198-1200)CGC>TGC	p.R400C	ZBTB7B_uc009wpa.2_Missense_Mutation_p.R400C|ZBTB7B_uc001fgj.3_Missense_Mutation_p.R434C|ZBTB7B_uc010peq.1_Missense_Mutation_p.R434C|ZBTB7B_uc001fgl.3_Missense_Mutation_p.R400C	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	400					cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CACGGGAGAGCGCCCCTACTC	0.632													22	192	---	---	---	---	PASS	T	154988739	T	T	154988739	3	4	111	1	0	0	0	0	1	0	0	0	17551	768	27	1	1204	1	ZBTB7B	1	154988739	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	35026594	154988739	94261882	18	40944										
GBA	2629	broad.mit.edu	37	chr1	155205560	155205560	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gggactgtcgacaaagttacGcacccaattgggtcctcctt	10	12	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:155205560G>A	uc001fjh.2	-	9	1450	c.1300C>T	c.(1300-1302)CGT>TGT	p.R434C	RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Missense_Mutation_p.R321C|GBA_uc010pfx.1_Missense_Mutation_p.R385C|GBA_uc001fji.2_Missense_Mutation_p.R434C|GBA_uc001fjj.2_Missense_Mutation_p.R434C|GBA_uc001fjk.2_Missense_Mutation_p.R434C|GBA_uc001fjl.2_Missense_Mutation_p.R434C|GBA_uc010pfy.1_Missense_Mutation_p.R347C	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor	434					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)	ACAAAGTTACGCACCCAATTG	0.532									Gaucher_disease_type_I				10	66	---	---	---	---	PASS	A	155205560	A	A	155205560	3	1	111	1	0	0	0	0	1	0	0	0	6266	1087	38	1	322	1	GBA	1	155205560	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	216821	155205560	94045061	19	40945										
CD1D	912	broad.mit.edu	37	chr1	158151294	158151294	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctccagatctcgtccttcgcCaatagcagctggacgcgcac	9	16	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:158151294C>T	uc001frr.2	+	3	610	c.111C>T	c.(109-111)GCC>GCT	p.A37A	CD1D_uc009wsr.1_Silent_p.A37A|CD1D_uc009wss.2_Silent_p.A37A|CD1D_uc009wst.1_5'UTR	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	37	Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					CGTCCTTCGCCAATAGCAGCT	0.632													54	514	---	---	---	---	PASS	T	158151294	T	T	158151294	2	4	111	1	0	0	0	0	0	0	0	1	2977	581	21	3		3	CD1D	1	158151294	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	2945734	158151294	91099327	20	40946										
OR10T2	128360	broad.mit.edu	37	chr1	158368351	158368351	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acaggcattccaagaactctTttcaatgcagtttttacctc	5	11	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:158368351T>A	uc010pih.1	-	1	906	c.906A>T	c.(904-906)AAA>AAT	p.K302N		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	302	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					CAAGAACTCTTTTCAATGCAG	0.368													29	34	---	---	---	---	PASS	A	158368351	A	A	158368351	3	1	111	1	0	0	0	0	1	0	0	0	10919	1838	64	5	40	5	OR10T2	1	158368351	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	217057	158368351	90882270	21	40947										
OR10R2	343406	broad.mit.edu	37	chr1	158450191	158450191	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgcaattggtggcttcttggCctctcttacagtagtaaatt	9	8	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:158450191C>A	uc010pik.1	+	1	524	c.524C>A	c.(523-525)GCC>GAC	p.A175D	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	175	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					GGCTTCTTGGCCTCTCTTACA	0.473													20	252	---	---	---	---	PASS	A	158450191	A	A	158450191	3	1	111	1	0	0	0	0	1	0	0	0	10917	739	26	3	526	3	OR10R2	1	158450191	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	81840	158450191	90800430	22	40948										
COPA	1314	broad.mit.edu	37	chr1	160264286	160264286	+	Silent	SNP	G	A	A													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccacataccagctcaggaggGagctccagatcttcttctac							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:160264286G>A	uc009wti.2	-	25	3058	c.2664C>T	c.(2662-2664)CTC>CTT	p.L888L	COPA_uc001fvv.3_Silent_p.L897L	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	888					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GCTCAGGAGGGAGCTCCAGAT	0.527													92	77	---	---	---	---	PASS	A	160264286	A	A	160264286	2	1	111	1	0	0	0	0	0	0	0	1	3727	1161	41	2		2	COPA	1	160264286	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	1814095	160264286	88986335	23	40949	764	2								
COPA	1314	broad.mit.edu	37	chr1	160264287	160264287	+	Missense_Mutation	SNP	A	G	G													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cacataccagctcaggagggAgctccagatcttcttctaca							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:160264287A>G	uc009wti.2	-	25	3057	c.2663T>C	c.(2662-2664)CTC>CCC	p.L888P	COPA_uc001fvv.3_Missense_Mutation_p.L897P	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	888					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CTCAGGAGGGAGCTCCAGATC	0.522													94	77	---	---	---	---	PASS	G	160264287	G	G	160264287	3	3	111	1	0	0	0	0	1	0	0	0	3727	304	11	5	1047	5	COPA	1	160264287	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	1	160264287	88986334	24	40950	764	2								
F11R	50848	broad.mit.edu	37	chr1	160970099	160970099	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctgcccggttcccaatggtgGcagaggaggggatgttaact	15	9	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:160970099G>A	uc009wtt.2	-	5	698	c.428C>T	c.(427-429)GCC>GTC	p.A143V	F11R_uc010pjv.1_Missense_Mutation_p.A94V|F11R_uc001fxe.3_Missense_Mutation_p.A143V|F11R_uc009wtu.2_Missense_Mutation_p.A143V|F11R_uc010pjw.1_Missense_Mutation_p.A147V|F11R_uc001fxf.3_Missense_Mutation_p.A143V	NM_016946	NP_058642	Q9Y624	JAM1_HUMAN	F11 receptor precursor	143	Ig-like V-type 2.|Extracellular (Potential).				blood coagulation|inflammatory response|interspecies interaction between organisms|leukocyte migration|tight junction assembly	integral to membrane|tight junction				ovary(2)	2	all_cancers(52;6.73e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00207)			CCCAATGGTGGCAGAGGAGGG	0.512													10	153	---	---	---	---	PASS	A	160970099	A	A	160970099	3	1	111	1	0	0	0	0	1	0	0	0	5338	1203	42	3	495	3	F11R	1	160970099	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	705812	160970099	88280522	25	40951										
SELL	6402	broad.mit.edu	37	chr1	169670785	169670785	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgccactggaatgaagagggGgttataatcaccctccttaa	10	9	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:169670785G>T	uc001ggk.2	-	7	1195	c.997C>A	c.(997-999)CCC>ACC	p.P333T	C1orf112_uc001ggj.2_Intron|SELL_uc010pls.1_Missense_Mutation_p.P286T|SELL_uc001ggl.1_Missense_Mutation_p.P346T	NM_000655	NP_000646	P14151	LYAM1_HUMAN	selectin L precursor	333	Helical; (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	integral to plasma membrane	glycosphingolipid binding|heparin binding|protease binding|sugar binding				0	all_hematologic(923;0.208)					ATGAAGAGGGGGTTATAATCA	0.398													4	11	---	---	---	---	PASS	T	169670785	T	T	169670785	3	4	111	1	0	0	0	0	1	0	0	0	14016	1232	43	3	133	3	SELL	1	169670785	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	8700686	169670785	79579836	26	40952										
KIFAP3	22920	broad.mit.edu	37	chr1	169985706	169985706	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agtcggagggtgatattcagCaggtcttcatgctcacaagg	13	8	4	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:169985706C>T	uc001ggv.2	-	10	1351	c.1080G>A	c.(1078-1080)CTG>CTA	p.L360L	KIFAP3_uc010plx.1_Silent_p.L62L	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	360	ARM 1.				blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TGATATTCAGCAGGTCTTCAT	0.398													41	172	---	---	---	---	PASS	T	169985706	T	T	169985706	2	4	111	1	0	0	0	0	0	0	0	1	8311	697	25	3		3	KIFAP3	1	169985706	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	314921	169985706	79264915	27	40953										
FMO3	2328	broad.mit.edu	37	chr1	171073021	171073021	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccagacttcccatttcccgaTgacttccccaactttatgca	4	16	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:171073021T>C	uc001ghi.2	+	3	339	c.228T>C	c.(226-228)GAT>GAC	p.D76D	FMO3_uc001ghh.2_Silent_p.D76D|FMO3_uc010pmb.1_Silent_p.D56D|FMO3_uc010pmc.1_Intron|MIR1295_hsa-mir-1295|MI0006357_5'Flank	NM_001002294	NP_001002294	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	76					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CATTTCCCGATGACTTCCCCA	0.423													52	175	---	---	---	---	PASS	C	171073021	C	C	171073021	2	2	111	1	0	0	0	0	0	0	0	1	5956	1461	51	5		5	FMO3	1	171073021	Silent	SNP	T	TCGA-51-4079-01A-01D-1458-08	1087315	171073021	78177600	28	40954										
TNFSF18	8995	broad.mit.edu	37	chr1	173019911	173019911	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agaaaaataaagattagccaActgaaggagcaaagaaatag	9	4	0	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:173019911A>T	uc001giu.2	-	1	193	c.192T>A	c.(190-192)AGT>AGA	p.S64R		NM_005092	NP_005083	Q9UNG2	TNF18_HUMAN	tumor necrosis factor (ligand) superfamily,	64	Helical; Signal-anchor for type II membrane protein; (Potential).				anti-apoptosis|cell-cell signaling|immune response|signal transduction	extracellular space|integral to membrane	cytokine activity|tumor necrosis factor receptor binding			central_nervous_system(1)	1						AGATTAGCCAACTGAAGGAGC	0.363													22	8	---	---	---	---	PASS	T	173019911	T	T	173019911	3	4	111	1	0	0	0	0	1	0	0	0	16306	40	2	5	419	5	TNFSF18	1	173019911	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	1946890	173019911	76230710	29	40955										
GPR52	9293	broad.mit.edu	37	chr1	174417424	174417424	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttctgatcattgctgggaatCtaacagttatctttgtcttt	7	7	5	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:174417424C>T	uc001gka.1	+	1	213	c.175C>T	c.(175-177)CTA>TTA	p.L59L	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	59	Helical; Name=1; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						TGCTGGGAATCTAACAGTTAT	0.428													18	263	---	---	---	---	PASS	T	174417424	T	T	174417424	2	4	111	1	0	0	0	0	0	0	0	1	6698	912	32	2		2	GPR52	1	174417424	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	1397513	174417424	74833197	30	40956										
ASTN1	460	broad.mit.edu	37	chr1	176915087	176915087	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgttcctttcagcacctgtcCggcagccacttccttggaat	8	14	1	0	rs138686233	byFrequency	TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:176915087C>A	uc001glc.2	-	13	2436	c.2224G>T	c.(2224-2226)GGA>TGA	p.G742*	ASTN1_uc001glb.1_Nonsense_Mutation_p.G742*|ASTN1_uc001gld.1_Nonsense_Mutation_p.G742*|ASTN1_uc009wwx.1_Nonsense_Mutation_p.G742*	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	750					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						AGCACCTGTCCGGCAGCCACT	0.463													54	82	---	---	---	---	PASS	A	176915087	A	A	176915087	4	1	111	1	0	0	0	0	0	1	0	0	1064	661	23	1	1708	1	ASTN1	1	176915087	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	2497663	176915087	72335534	31	40957										
SEC16B	89866	broad.mit.edu	37	chr1	177913779	177913779	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cctctggattgcctcagttgTtgcaaatttcaaaaactctt	6	10	4	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:177913779T>C	uc001gli.1	-	15	1888	c.1798A>G	c.(1798-1800)ACA>GCA	p.T600A	SEC16B_uc001glk.1_Missense_Mutation_p.T277A|SEC16B_uc009wwy.1_Missense_Mutation_p.T155A|SEC16B_uc001glh.1_Missense_Mutation_p.T259A|SEC16B_uc009wwz.1_Missense_Mutation_p.T259A|SEC16B_uc001glj.1_Missense_Mutation_p.T601A	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	600					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4						GCCTCAGTTGTTGCAAATTTC	0.463													44	114	---	---	---	---	PASS	C	177913779	C	C	177913779	3	2	111	1	0	0	0	0	1	0	0	0	13987	1725	60	5	1432	5	SEC16B	1	177913779	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	998692	177913779	71336842	32	40958										
GLUL	2752	broad.mit.edu	37	chr1	182355396	182355396	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cccaaggagacttaccctggGgccctgggaagccgttggaa	14	12	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:182355396G>A	uc001gpa.1	-	4	682	c.470C>T	c.(469-471)CCC>CTC	p.P157L	GLUL_uc010pnt.1_5'Flank|GLUL_uc001gpb.1_Missense_Mutation_p.P157L|GLUL_uc001gpc.1_Missense_Mutation_p.P157L|GLUL_uc001gpd.1_Missense_Mutation_p.P157L	NM_001033056	NP_001028228	P15104	GLNA_HUMAN	glutamine synthetase	157					cell proliferation|glutamine biosynthetic process|neurotransmitter uptake	cytosol|Golgi apparatus|mitochondrion	ATP binding|glutamate decarboxylase activity|glutamate-ammonia ligase activity|identical protein binding				0					Asparaginase(DB00023)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)|L-Methionine(DB00134)	CTTACCCTGGGGCCCTGGGAA	0.552													64	122	---	---	---	---	PASS	A	182355396	A	A	182355396	3	1	111	1	0	0	0	0	1	0	0	0	6478	1232	43	3	667	3	GLUL	1	182355396	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	4441617	182355396	66895225	33	40959										
EDEM3	80267	broad.mit.edu	37	chr1	184663433	184663433	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agaaggggaaatgcttgcagCattgtccatatctgctagag	12	7	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:184663433C>T	uc010pok.1	-	20	2824	c.2563G>A	c.(2563-2565)GCT>ACT	p.A855T	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.A871T	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	855					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						ATGCTTGCAGCATTGTCCATA	0.383													18	61	---	---	---	---	PASS	T	184663433	T	T	184663433	3	4	111	1	0	0	0	0	1	0	0	0	4913	710	25	3	239	3	EDEM3	1	184663433	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	2308037	184663433	64587188	34	40960										
FAM5C	339479	broad.mit.edu	37	chr1	190068169	190068169	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccacctggtcattcggacacGtgcacgagtgcgtctcttct	10	14	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:190068169G>T	uc001gse.1	-	8	1512	c.1280C>A	c.(1279-1281)ACG>AAG	p.T427K	FAM5C_uc010pot.1_Missense_Mutation_p.T325K	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	427						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					ATTCGGACACGTGCACGAGTG	0.582													11	43	---	---	---	---	PASS	T	190068169	T	T	190068169	3	4	111	1	0	0	0	0	1	0	0	0	5594	1145	40	1	1024	1	FAM5C	1	190068169	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	5404736	190068169	59182452	35	40961										
SHISA4	149345	broad.mit.edu	37	chr1	201860556	201860556	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gattccaatgacaggcatccCagtgcagccagtatacccat	8	13	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:201860556C>T	uc001gxa.2	+	4	498	c.407C>T	c.(406-408)CCA>CTA	p.P136L		NM_198149	NP_937792	Q96DD7	SHSA4_HUMAN	shisa homolog 4 precursor	136	Cytoplasmic (Potential).|Pro-rich.					integral to membrane					0						ACAGGCATCCCAGTGCAGCCA	0.577													22	88	---	---	---	---	PASS	T	201860556	T	T	201860556	3	4	111	1	0	0	0	0	1	0	0	0	14282	594	21	3	421	3	SHISA4	1	201860556	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	11792387	201860556	47390065	36	40962										
USH2A	7399	broad.mit.edu	37	chr1	216138713	216138713	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgagtgtgttaagagtccatTagggcgaaaaggtgcttccc	13	7	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:216138713T>A	uc001hku.1	-	37	7453	c.7066A>T	c.(7066-7068)AAT>TAT	p.N2356Y		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2356	Extracellular (Potential).|Fibronectin type-III 10.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AAGAGTCCATTAGGGCGAAAA	0.403										HNSCC(13;0.011)			66	130	---	---	---	---	PASS	A	216138713	A	A	216138713	3	1	111	1	0	0	0	0	1	0	0	0	17033	1754	61	5	8686	5	USH2A	1	216138713	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	14278157	216138713	33111908	37	40963										
USH2A	7399	broad.mit.edu	37	chr1	216258076	216258076	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agctccctcatttaatgaagCgggacatccctcccagctgt	8	14	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:216258076C>T	uc001hku.1	-	25	5518	c.5131G>A	c.(5131-5133)GCT>ACT	p.A1711T		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1711	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTTAATGAAGCGGGACATCCC	0.388										HNSCC(13;0.011)			23	116	---	---	---	---	PASS	T	216258076	T	T	216258076	3	4	111	1	0	0	0	0	1	0	0	0	17033	768	27	1	10669	1	USH2A	1	216258076	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	119363	216258076	32992545	38	40964										
RAB3GAP2	25782	broad.mit.edu	37	chr1	220366599	220366599	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tacctttccacatgcgtattGcaattcctctagctacatcc	4	14	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:220366599G>A	uc010puk.1	-	13	1417	c.1253C>T	c.(1252-1254)GCA>GTA	p.A418V	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_5'UTR	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	418					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		CATGCGTATTGCAATTCCTCT	0.388													13	60	---	---	---	---	PASS	A	220366599	A	A	220366599	3	1	111	1	0	0	0	0	1	0	0	0	12936	1319	46	3	3020	3	RAB3GAP2	1	220366599	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	4108523	220366599	28884022	39	40965										
AIDA	64853	broad.mit.edu	37	chr1	222885580	222885580	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cgtctatcgcctccaccagcTggccccaagagtcgaagtcg	10	16	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:222885580T>C	uc001hnn.2	-	1	285	c.80A>G	c.(79-81)CAG>CGG	p.Q27R	AIDA_uc001hno.2_RNA|AIDA_uc010pus.1_Intron|C1orf58_uc001hnp.1_5'Flank|C1orf58_uc001hnq.1_5'Flank|C1orf58_uc010put.1_5'Flank|C1orf58_uc010puu.1_5'Flank|C1orf58_uc010puv.1_5'Flank	NM_022831	NP_073742	Q96BJ3	AIDA_HUMAN	axin interactor, dorsalization associated	27	Potential.				dorsal/ventral pattern formation|negative regulation of JNK cascade|negative regulation of JUN kinase activity|regulation of protein homodimerization activity						0						CTCCACCAGCTGGCCCCAAGA	0.652													3	9	---	---	---	---	PASS	C	222885580	C	C	222885580	3	2	111	1	0	0	0	0	1	0	0	0	423	1580	55	5	880	5	AIDA	1	222885580	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	2518981	222885580	26365041	40	40966										
LBR	3930	broad.mit.edu	37	chr1	225598073	225598073	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	caaggatggaacagcgcggtCctgtattttcatttcagcca	10	10	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:225598073C>A	uc001hoy.2	-	10	1377	c.1234G>T	c.(1234-1236)GAC>TAC	p.D412Y	LBR_uc001hoz.2_Missense_Mutation_p.D412Y|LBR_uc001hpa.1_Missense_Mutation_p.D412Y	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	412					cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		ACAGCGCGGTCCTGTATTTTC	0.338													20	136	---	---	---	---	PASS	A	225598073	A	A	225598073	3	1	111	1	0	0	0	0	1	0	0	0	8652	855	30	2	633	2	LBR	1	225598073	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	2712493	225598073	23652548	41	40967										
OBSCN	84033	broad.mit.edu	37	chr1	228494796	228494796	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agctgctggtacgcggagtgGagcaggaggatgcgggtgac	20	7	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:228494796G>C	uc009xez.1	+	45	12165	c.12121G>C	c.(12121-12123)GAG>CAG	p.E4041Q	OBSCN_uc001hsn.2_Missense_Mutation_p.E4041Q	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4041	Ig-like 41.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				ACGCGGAGTGGAGCAGGAGGA	0.642													20	35	---	---	---	---	PASS	C	228494796	C	C	228494796	3	2	111	1	0	0	0	0	1	0	0	0	10812	1175	41	2	12295	2	OBSCN	1	228494796	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	2896723	228494796	20755825	42	40968										
SIPA1L2	57568	broad.mit.edu	37	chr1	232564213	232564213	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aagcatcaatttcagaaaatCttctttagacagaacatgtt	5	7	4	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:232564213C>G	uc001hvg.2	-	15	4512	c.4354G>C	c.(4354-4356)GAT>CAT	p.D1452H	SIPA1L2_uc001hvf.2_Missense_Mutation_p.D526H	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1452					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				TTCAGAAAATCTTCTTTAGAC	0.448													27	70	---	---	---	---	PASS	G	232564213	G	G	232564213	3	3	111	1	0	0	0	0	1	0	0	0	14330	913	32	2	842	2	SIPA1L2	1	232564213	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	4069417	232564213	16686408	43	40969										
OR2G3	81469	broad.mit.edu	37	chr1	247769289	247769289	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aaacccctccactatgtagtCatcatgaacccacggctttg	6	14	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:247769289C>A	uc010pyz.1	+	1	402	c.402C>A	c.(400-402)GTC>GTA	p.V134V		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	134	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			ACTATGTAGTCATCATGAACC	0.493													35	163	---	---	---	---	PASS	A	247769289	A	A	247769289	2	1	111	1	0	0	0	0	0	0	0	1	10999	813	29	2		2	OR2G3	1	247769289	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	15205076	247769289	1481332	44	40970										
OR2G3	81469	broad.mit.edu	37	chr1	247769804	247769804	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggctctgaggaaacttctctCgggaaaattgtgattcctat	10	8	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:247769804C>A	uc010pyz.1	+	1	917	c.917C>A	c.(916-918)TCG>TAG	p.S306*		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	306	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			AAACTTCTCTCGGGAAAATTG	0.373													49	73	---	---	---	---	PASS	A	247769804	A	A	247769804	4	1	111	1	0	0	0	0	0	1	0	0	10999	893	31	2	919	2	OR2G3	1	247769804	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	515	247769804	1480817	45	40971										
OR2M3	127062	broad.mit.edu	37	chr1	248367217	248367217	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	attctacaccatcctcactcCcatgttgaatcccctcatct	2	17	4	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:248367217C>T	uc010pzg.1	+	1	848	c.848C>T	c.(847-849)CCC>CTC	p.P283L		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ATCCTCACTCCCATGTTGAAT	0.483													40	90	---	---	---	---	PASS	T	248367217	T	T	248367217	3	4	111	1	0	0	0	0	1	0	0	0	11011	623	22	3	850	3	OR2M3	1	248367217	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	597413	248367217	883404	46	40972										
OR2T1	26696	broad.mit.edu	37	chr1	248570379	248570379	+	Frame_Shift_Del	DEL	C	-	-													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggggaggttcaagggtcctCaaagggtgtcaggaggtgtc							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr1:248570379delC	uc010pzm.1	+	1	1084	c.1084delC	c.(1084-1086)CAAfs	p.Q362fs		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	362	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CAAGGGTCCTCAAAGGGTGTC	0.512													180	94	---	---	---	---		-	248570379	-	-	248570379	7	5	111	1	0	1	0	1	0	0	0	0	11016	827	29	0	1086	0	OR2T1	1	248570379	Frame_Shift_Del	DEL	C	TCGA-51-4079-01A-01D-1458-08	203162	248570379	680242	47	40973										
APOB	338	broad.mit.edu	37	chr2	21228378	21228378	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aacttcagggaattttacctCggggagtgttggtaggttga	14	5	1	1	rs13306191		TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:21228378C>T	uc002red.2	-	26	11490	c.11362G>A	c.(11362-11364)GAG>AAG	p.E3788K		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3788					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AATTTTACCTCGGGGAGTGTT	0.398													52	174	---	---	---	---	PASS	T	21228378	T	T	21228378	3	4	111	1	0	0	0	0	1	0	0	0	785	893	31	2	2345	2	APOB	2	21228378	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08		21228378	221970995	48	40974										
MFSD2B	388931	broad.mit.edu	37	chr2	24239810	24239810	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aggcctctggtacacgacttTctactgcctgttccaggccc	9	15	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:24239810T>A	uc002reo.1	+	4	457	c.443T>A	c.(442-444)TTC>TAC	p.F148Y	MFSD2B_uc010exz.1_RNA	NM_001080473	NP_001073942	A6NFX1	MFS2B_HUMAN	major facilitator superfamily domain containing	148					transport	integral to membrane				ovary(2)	2						TACACGACTTTCTACTGCCTG	0.647													27	85	---	---	---	---	PASS	A	24239810	A	A	24239810	3	1	111	1	0	0	0	0	1	0	0	0	9531	1783	62	5	457	5	MFSD2B	2	24239810	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	3011432	24239810	218959563	49	40975										
C2orf16	84226	broad.mit.edu	37	chr2	27804711	27804711	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acagtccctctgagagaagcCattgcagtccctctgagaga	10	12	2	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:27804711C>A	uc002rkz.3	+	1	5323	c.5272C>A	c.(5272-5274)CAT>AAT	p.H1758N	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1758	27 X 8 AA approximative tandem repeat of P-S-E-R-S-H-H-S.|16.|Arg-rich.									large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					TGAGAGAAGCCATTGCAGTCC	0.532													44	228	---	---	---	---	PASS	A	27804711	A	A	27804711	3	1	111	1	0	0	0	0	1	0	0	0	2157	594	21	3	5274	3	C2orf16	2	27804711	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	3564901	27804711	215394662	50	40976										
XDH	7498	broad.mit.edu	37	chr2	31565125	31565125	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgaagtagtggaaggggttcCctgagttagtctcaaagctg	14	6	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:31565125C>A	uc002rnv.1	-	32	3522	c.3443G>T	c.(3442-3444)GGG>GTG	p.G1148V		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	1148					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	GAAGGGGTTCCCTGAGTTAGT	0.463													57	143	---	---	---	---	PASS	A	31565125	A	A	31565125	3	1	111	1	0	0	0	0	1	0	0	0	17423	623	22	3	578	3	XDH	2	31565125	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	3760414	31565125	211634248	51	40977										
RASGRP3	25780	broad.mit.edu	37	chr2	33749082	33749082	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	caaaccaaccccccagcaaaGggcagaagtcatcacaaagt	7	14	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:33749082G>T	uc002rox.2	+	9	1280	c.653G>T	c.(652-654)AGG>ATG	p.R218M	RASGRP3_uc010ync.1_Missense_Mutation_p.R218M|RASGRP3_uc002roy.2_Missense_Mutation_p.R218M	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	218	Ras-GEF.				MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					CCCCAGCAAAGGGCAGAAGTC	0.413													96	240	---	---	---	---	PASS	T	33749082	T	T	33749082	3	4	111	1	0	0	0	0	1	0	0	0	13076	1000	35	3	675	3	RASGRP3	2	33749082	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	2183957	33749082	209450291	52	40978										
ATL2	64225	broad.mit.edu	37	chr2	38604324	38604324	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gacgtggttaaccgcggcgcTtgggtcgctggtccgtcgcc	16	13	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:38604324T>G	uc002rqq.2	-	1	109	c.79A>C	c.(79-81)AGC>CGC	p.S27R	ATL2_uc010ynm.1_5'Flank|ATL2_uc010ynn.1_5'Flank|ATL2_uc010yno.1_5'Flank|ATL2_uc002rqs.2_Missense_Mutation_p.S27R|ATL2_uc002rqr.2_5'UTR	NM_001135673	NP_001129145	Q8NHH9	ATLA2_HUMAN	atlastin GTPase 2 isoform 2	27	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			ovary(1)|kidney(1)|skin(1)	3						ACCGCGGCGCTTGGGTCGCTG	0.682													14	30	---	---	---	---	PASS	G	38604324	G	G	38604324	3	3	111	1	0	0	0	0	1	0	0	0	1107	1609	56	5	1836	5	ATL2	2	38604324	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	4855242	38604324	204595049	53	40979										
MTA3	57504	broad.mit.edu	37	chr2	42936085	42936085	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtccgaaacactgggagtccAaagtctgcagtgaagacccg	12	11	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:42936085A>G	uc002rso.1	+	15	1873	c.1203A>G	c.(1201-1203)CCA>CCG	p.P401P	MTA3_uc002rsp.1_Silent_p.P401P|MTA3_uc002rsq.2_Silent_p.P458P|MTA3_uc002rsr.2_Silent_p.P457P	NM_020744	NP_065795	Q9BTC8	MTA3_HUMAN	metastasis associated 1 family, member 3	458						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						CTGGGAGTCCAAAGTCTGCAG	0.502													65	143	---	---	---	---	PASS	G	42936085	G	G	42936085	2	3	111	1	0	0	0	0	0	0	0	1	9910	117	5	5		5	MTA3	2	42936085	Silent	SNP	A	TCGA-51-4079-01A-01D-1458-08	4331761	42936085	200263288	54	40980										
RHOQ	23433	broad.mit.edu	37	chr2	46803780	46803780	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atatgtgtggaacaaggacaGaaactagcaaaagaggtaat	11	4	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:46803780G>A	uc002rva.2	+	4	766	c.447G>A	c.(445-447)CAG>CAA	p.Q149Q	uc002rvb.2_Intron	NM_012249	NP_036381	P17081	RHOQ_HUMAN	ras-like protein TC10 precursor	149					cortical actin cytoskeleton organization|insulin receptor signaling pathway|negative regulation of establishment of protein localization in plasma membrane|positive regulation of filopodium assembly|positive regulation of glucose import|positive regulation of transcription from RNA polymerase II promoter|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	actin filament|cytosol|plasma membrane	GBD domain binding|GTP binding|GTPase activity|profilin binding			skin(2)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			AACAAGGACAGAAACTAGCAA	0.303													25	55	---	---	---	---	PASS	A	46803780	A	A	46803780	2	1	111	1	0	0	0	0	0	0	0	1	13342	933	33	2		2	RHOQ	2	46803780	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	3867695	46803780	196395593	55	40981										
LHCGR	3973	broad.mit.edu	37	chr2	48915006	48915006	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aagttcagcccgacgtttacAgcagccaaatttgctcagca	8	12	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:48915006A>C	uc002rwu.3	-	11	2000	c.1930T>G	c.(1930-1932)TGT>GGT	p.C644G	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	644	Cytoplasmic (Potential).			C->G: Loss of palmitoylation.	male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	CGACGTTTACAGCAGCCAAAT	0.378									Familial_Male-Limited_Precocious_Puberty				61	143	---	---	---	---	PASS	C	48915006	C	C	48915006	3	2	111	1	0	0	0	0	1	0	0	0	8762	188	7	5	173	5	LHCGR	2	48915006	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	2111226	48915006	194284367	56	40982										
LHCGR	3973	broad.mit.edu	37	chr2	48915786	48915786	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tttgtaacgacttgtcaggaGaacaaaaagaacagtcatgt	9	6	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:48915786G>T	uc002rwu.3	-	11	1220	c.1150C>A	c.(1150-1152)CTC>ATC	p.L384I	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	384	Helical; Name=1; (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	CTTGTCAGGAGAACAAAAAGA	0.428									Familial_Male-Limited_Precocious_Puberty				37	75	---	---	---	---	PASS	T	48915786	T	T	48915786	3	4	111	1	0	0	0	0	1	0	0	0	8762	942	33	2	953	2	LHCGR	2	48915786	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	780	48915786	194283587	57	40983										
PSME4	23198	broad.mit.edu	37	chr2	54112848	54112848	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttgaaaaacaaaggtagaagCtgaagttgttctgtaactgc	10	5	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:54112848C>G	uc002rxp.2	-	41	4850	c.4794G>C	c.(4792-4794)CAG>CAC	p.Q1598H	PSME4_uc010yop.1_Missense_Mutation_p.Q1484H|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Missense_Mutation_p.Q973H|PSME4_uc010fbv.1_Missense_Mutation_p.Q742H|PSME4_uc010fbt.1_Missense_Mutation_p.Q85H	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	1598					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|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|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			AAGGTAGAAGCTGAAGTTGTT	0.368													22	53	---	---	---	---	PASS	G	54112848	G	G	54112848	3	3	111	1	0	0	0	0	1	0	0	0	12709	796	28	4	761	4	PSME4	2	54112848	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	5197062	54112848	189086525	58	40984										
BCL11A	53335	broad.mit.edu	37	chr2	60687991	60687991	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cgaggagtgctccgacgaggAggcaaaaggcgattgtctgg	17	8	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:60687991A>C	uc002sae.1	-	4	2284	c.2056T>G	c.(2056-2058)TCC>GCC	p.S686A	BCL11A_uc002sab.2_Missense_Mutation_p.S686A|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.S355A|BCL11A_uc010ypj.1_Missense_Mutation_p.S652A|BCL11A_uc002sad.1_Missense_Mutation_p.S534A|BCL11A_uc002saf.1_Missense_Mutation_p.S652A	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	686					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			TCCGACGAGGAGGCAAAAGGC	0.647			T	IGH@	B-CLL								33	144	---	---	---	---	PASS	C	60687991	C	C	60687991	3	2	111	1	0	0	0	0	1	0	0	0	1363	304	11	5	561	5	BCL11A	2	60687991	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	6575143	60687991	182511382	59	40985										
USP34	9736	broad.mit.edu	37	chr2	61633028	61633028	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgtagagtttgattttttttCtattgatttttgtctttctg	7	3	3	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:61633028C>T	uc002sbe.2	-	3	389	c.367G>A	c.(367-369)GAA>AAA	p.E123K		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	123					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			GATTTTTTTTCTATTGATTTT	0.343													48	195	---	---	---	---	PASS	T	61633028	T	T	61633028	3	4	111	1	0	0	0	0	1	0	0	0	17062	922	32	2	10585	2	USP34	2	61633028	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	945037	61633028	181566345	60	40986										
B3GNT2	10678	broad.mit.edu	37	chr2	62450499	62450499	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tacatagtagaaaacctcaaGagatgattgatatttggtct	8	5	2	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:62450499G>C	uc002sbs.2	+	2	1382	c.1144G>C	c.(1144-1146)GAG>CAG	p.E382Q		NM_006577	NP_006568	Q9NY97	B3GN2_HUMAN	UDP-GlcNAc:betaGal	382	Lumenal (Potential).					Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1	Lung NSC(7;0.031)|all_lung(7;0.0634)		LUSC - Lung squamous cell carcinoma(7;3.55e-06)|Epithelial(17;0.0963)			AAAACCTCAAGAGATGATTGA	0.333													11	273	---	---	---	---	PASS	C	62450499	C	C	62450499	3	2	111	1	0	0	0	0	1	0	0	0	1257	943	33	2	1146	2	B3GNT2	2	62450499	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	817471	62450499	180748874	61	40987										
DYSF	8291	broad.mit.edu	37	chr2	71747932	71747932	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctcttagggcacgcctatctCaggaagtggctgctgctctc	11	13	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:71747932C>T	uc002sie.2	+	11	1327	c.951C>T	c.(949-951)CTC>CTT	p.L317L	DYSF_uc010feg.2_Silent_p.L348L|DYSF_uc010feh.2_Silent_p.L317L|DYSF_uc002sig.3_Silent_p.L317L|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.L317L|DYSF_uc010fef.2_Silent_p.L348L|DYSF_uc010fei.2_Silent_p.L348L|DYSF_uc010fek.2_Silent_p.L349L|DYSF_uc010fej.2_Silent_p.L318L|DYSF_uc010fel.2_Silent_p.L318L|DYSF_uc010feo.2_Silent_p.L349L|DYSF_uc010fem.2_Silent_p.L318L|DYSF_uc010fen.2_Silent_p.L349L|DYSF_uc002sif.2_Silent_p.L318L	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	317	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						ACGCCTATCTCAGGAAGTGGC	0.587													22	90	---	---	---	---	PASS	T	71747932	T	T	71747932	2	4	111	1	0	0	0	0	0	0	0	1	4859	813	29	2		2	DYSF	2	71747932	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	9297433	71747932	171451441	62	40988										
SPR	6697	broad.mit.edu	37	chr2	73118645	73118645	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gagttcaagtctggagcccaCgtggacttctatgacaaata	10	9	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:73118645C>T	uc002sik.2	+	3	815	c.765C>T	c.(763-765)CAC>CAT	p.H255H		NM_003124	NP_003115	P35270	SPRE_HUMAN	sepiapterin reductase	255					nitric oxide biosynthetic process|tetrahydrobiopterin biosynthetic process	cytoplasm	aldo-keto reductase (NADP) activity|NADP binding|sepiapterin reductase activity			ovary(2)	2						CTGGAGCCCACGTGGACTTCT	0.527													17	49	---	---	---	---	PASS	T	73118645	T	T	73118645	2	4	111	1	0	0	0	0	0	0	0	1	15090	535	19	1		1	SPR	2	73118645	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	1370713	73118645	170080728	63	40989										
REG3A	5068	broad.mit.edu	37	chr2	79385532	79385532	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagggaggacacgaaggatcCctcagccccactgagcacag	12	14	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:79385532C>A	uc002sod.1	-	3	508	c.253G>T	c.(253-255)GGA>TGA	p.G85*	REG3A_uc002soe.1_Nonsense_Mutation_p.G85*|REG3A_uc002sof.1_Nonsense_Mutation_p.G85*	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	85	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						ACGAAGGATCCCTCAGCCCCA	0.572													27	82	---	---	---	---	PASS	A	79385532	A	A	79385532	4	1	111	1	0	0	0	0	0	1	0	0	13212	632	22	3	286	3	REG3A	2	79385532	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	6266887	79385532	163813841	64	40990			1	49		3	3	340	N	T_G_C	1.071447e-05
REG3A	5068	broad.mit.edu	37	chr2	79385579	79385579	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggtttccagagggccgcttcTggcaggccagctttgagggc	16	11	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:79385579T>C	uc002sod.1	-	3	461	c.206A>G	c.(205-207)CAG>CGG	p.Q69R	REG3A_uc002soe.1_Missense_Mutation_p.Q69R|REG3A_uc002sof.1_Missense_Mutation_p.Q69R	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	69	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						GGGCCGCTTCTGGCAGGCCAG	0.577													24	74	---	---	---	---	PASS	C	79385579	C	C	79385579	3	2	111	1	0	0	0	0	1	0	0	0	13212	1580	55	5	333	5	REG3A	2	79385579	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	47	79385579	163813794	65	40991			1	49		3	3	340	N	T_G_C	1.071447e-05
REG3A	5068	broad.mit.edu	37	chr2	79385871	79385871	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gacagcggatccgtgcagagGgcagttccctctggggttct	15	11	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:79385871G>C	uc002sod.1	-	2	356	c.101C>G	c.(100-102)CCC>CGC	p.P34R	REG3A_uc002soe.1_Missense_Mutation_p.P34R|REG3A_uc002sof.1_Missense_Mutation_p.P34R	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	34					acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						CCGTGCAGAGGGCAGTTCCCT	0.547													8	37	---	---	---	---	PASS	C	79385871	C	C	79385871	3	2	111	1	0	0	0	0	1	0	0	0	13212	1232	43	4	442	4	REG3A	2	79385871	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	292	79385871	163813502	66	40992			1	49		3	3	340	N	T_G_C	1.071447e-05
THNSL2	55258	broad.mit.edu	37	chr2	88472876	88472876	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	attggctctgagctccttccAaaagatgaattaaatggtga	9	7	1	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:88472876A>G	uc002ssz.3	+	2	360	c.207A>G	c.(205-207)CCA>CCG	p.P69P	THNSL2_uc002ssv.2_Intron|THNSL2_uc002ssw.3_Silent_p.P69P|THNSL2_uc002ssx.3_Silent_p.P37P|THNSL2_uc002sta.3_Intron|THNSL2_uc002ssy.3_Silent_p.P69P	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	69					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						AGCTCCTTCCAAAAGATGAAT	0.517													23	43	---	---	---	---	PASS	G	88472876	G	G	88472876	2	3	111	1	0	0	0	0	0	0	0	1	15860	117	5	5		5	THNSL2	2	88472876	Silent	SNP	A	TCGA-51-4079-01A-01D-1458-08	9087005	88472876	154726497	67	40993										
TEKT4	150483	broad.mit.edu	37	chr2	95537339	95537339	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggcaccatggcgcagacagtGccgccctgcgagctgccctg	14	16	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:95537339G>T	uc002stw.1	+	1	108	c.15G>T	c.(13-15)GTG>GTT	p.V5V	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	5					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						CGCAGACAGTGCCGCCCTGCG	0.692													8	27	---	---	---	---	PASS	T	95537339	T	T	95537339	2	4	111	1	0	0	0	0	0	0	0	1	15752	1306	46	3		3	TEKT4	2	95537339	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	7064463	95537339	147662034	68	40994										
MRPS5	64969	broad.mit.edu	37	chr2	95770428	95770428	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acagccaccaagacacggatCgatttctttcttccctcttt	5	14	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:95770428C>A	uc002sub.2	-	7	938	c.720G>T	c.(718-720)TCG>TCT	p.S240S	MRPS5_uc002suc.2_Intron|MRPS5_uc010yud.1_Silent_p.S240S	NM_031902	NP_114108	P82675	RT05_HUMAN	mitochondrial ribosomal protein S5	240	S5 DRBM.				translation	mitochondrion|ribosome	protein binding|RNA binding|structural constituent of ribosome			ovary(2)|central_nervous_system(1)	3						AGACACGGATCGATTTCTTTC	0.478													17	66	---	---	---	---	PASS	A	95770428	A	A	95770428	2	1	111	1	0	0	0	0	0	0	0	1	9846	871	31	2		2	MRPS5	2	95770428	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	233089	95770428	147428945	69	40995										
FER1L5	90342	broad.mit.edu	37	chr2	97361286	97361286	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gaacatgaagaaggcgagctCcccccagctcctggtggaat	12	12	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:97361286C>A	uc010fia.2	+	34	3863	c.3863C>A	c.(3862-3864)TCC>TAC	p.S1288Y	FER1L5_uc002sws.3_Missense_Mutation_p.S6Y|FER1L5_uc010fib.1_RNA|FER1L5_uc002swt.3_Missense_Mutation_p.S6Y|FER1L5_uc010yus.1_Missense_Mutation_p.S6Y	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1288						integral to membrane				ovary(1)	1						AAGGCGAGCTCCCCCCAGCTC	0.592													7	12	---	---	---	---	PASS	A	97361286	A	A	97361286	3	1	111	1	0	0	0	0	1	0	0	0	5814	855	30	2	3997	2	FER1L5	2	97361286	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1590858	97361286	145838087	70	40996										
NPAS2	4862	broad.mit.edu	37	chr2	101581391	101581391	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agcttggaatggaaatttttAtttctggatcacaggtttga	10	4	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:101581391A>C	uc002tap.1	+	9	1072	c.786A>C	c.(784-786)TTA>TTC	p.L262F	NPAS2_uc010yvt.1_Missense_Mutation_p.L327F	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	262	PAS 2.				central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						GGAAATTTTTATTTCTGGATC	0.403													24	81	---	---	---	---	PASS	C	101581391	C	C	101581391	3	2	111	1	0	0	0	0	1	0	0	0	10563	446	16	5	816	5	NPAS2	2	101581391	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	4220105	101581391	141617982	71	40997										
IL1R1	3554	broad.mit.edu	37	chr2	102781466	102781466	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggacattactattgcgtggtAaggtaagagaggaattagta	13	3	0	1	rs144946641	byFrequency	TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:102781466A>G	uc002tbq.2	+	4	612	c.294A>G	c.(292-294)GTA>GTG	p.V98V	IL1R1_uc010fix.2_Silent_p.V98V|IL1R1_uc002tbp.2_Silent_p.V98V|IL1R1_uc002tbr.2_Silent_p.V98V	NM_000877	NP_000868	P14778	IL1R1_HUMAN	interleukin 1 receptor, type I precursor	98	Extracellular (Potential).|Ig-like C2-type 1.				innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity|platelet-derived growth factor receptor binding			skin(1)	1					Anakinra(DB00026)	ATTGCGTGGTAAGGTAAGAGA	0.358													27	70	---	---	---	---	PASS	G	102781466	G	G	102781466	2	3	111	1	0	0	0	0	0	0	0	1	7658	349	13	5		5	IL1R1	2	102781466	Silent	SNP	A	TCGA-51-4079-01A-01D-1458-08	1200075	102781466	140417907	72	40998										
ANAPC1	64682	broad.mit.edu	37	chr2	112541942	112541942	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggaagaagggtaggagccatCaattcttctttggtttgttc	12	6	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:112541942C>A	uc002thi.2	-	41	5200	c.4953G>T	c.(4951-4953)TTG>TTT	p.L1651F		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	1651					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						TAGGAGCCATCAATTCTTCTT	0.443													15	203	---	---	---	---	PASS	A	112541942	A	A	112541942	3	1	111	1	0	0	0	0	1	0	0	0	598	825	29	2	913	2	ANAPC1	2	112541942	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	9760476	112541942	130657431	73	40999										
WDR33	55339	broad.mit.edu	37	chr2	128471306	128471306	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tccctgtgatcagggggaaaCggaggcccagggccccctcg	15	14	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:128471306C>A	uc002tpg.1	-	18	3342	c.3159G>T	c.(3157-3159)CCG>CCT	p.P1053P		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	1053					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		CAGGGGGAAACGGAGGCCCAG	0.652													62	148	---	---	---	---	PASS	A	128471306	A	A	128471306	2	1	111	1	0	0	0	0	0	0	0	1	17284	523	19	1		1	WDR33	2	128471306	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	15929364	128471306	114728067	74	41000										
GPR148	344561	broad.mit.edu	37	chr2	131487666	131487666	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctcatgatgcttccccgtgcCatgctcacatacctgtacct	6	16	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:131487666C>T	uc002trv.1	+	1	944	c.942C>T	c.(940-942)GCC>GCT	p.A314A		NM_207364	NP_997247	Q8TDV2	GP148_HUMAN	G protein-coupled receptor 148	314	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1	Colorectal(110;0.1)					TTCCCCGTGCCATGCTCACAT	0.587													34	63	---	---	---	---	PASS	T	131487666	T	T	131487666	2	4	111	1	0	0	0	0	0	0	0	1	6653	581	21	3		3	GPR148	2	131487666	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	3016360	131487666	111711707	75	41001										
ARHGAP15	55843	broad.mit.edu	37	chr2	143913212	143913212	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atcctcaccgatgtcgggaaGgtcactgaacctgtaagtca	10	11	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:143913212G>A	uc002tvm.3	+	2	304	c.153G>A	c.(151-153)AAG>AAA	p.K51K	ARHGAP15_uc010zbl.1_Silent_p.K51K	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	51					regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		ATGTCGGGAAGGTCACTGAAC	0.408													24	84	---	---	---	---	PASS	A	143913212	A	A	143913212	2	1	111	1	0	0	0	0	0	0	0	1	866	991	35	3		3	ARHGAP15	2	143913212	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	12425546	143913212	99286161	76	41002										
NR4A2	4929	broad.mit.edu	37	chr2	157182456	157182456	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cacgtggtctttgagacaatTtacaatcttgttttgcagtt	8	7	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:157182456T>G	uc002tyz.3	-	8	2019	c.1597A>C	c.(1597-1599)AAT>CAT	p.N533H	NR4A2_uc002tyx.3_Missense_Mutation_p.N470H|NR4A2_uc010zcf.1_Missense_Mutation_p.N533H	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	533					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						TTGAGACAATTTACAATCTTG	0.438													26	63	---	---	---	---	PASS	G	157182456	G	G	157182456	3	3	111	1	0	0	0	0	1	0	0	0	10633	1841	64	5	203	5	NR4A2	2	157182456	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	13269244	157182456	86016917	77	41003										
BAZ2B	29994	broad.mit.edu	37	chr2	160335124	160335124	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agctaagtgaagcaactccaGtggaaaggccaccttttgaa	10	9	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:160335124G>C	uc002uao.2	-	3	459	c.107C>G	c.(106-108)ACT>AGT	p.T36S	BAZ2B_uc002uap.2_Missense_Mutation_p.T36S|BAZ2B_uc002uas.1_Missense_Mutation_p.T36S|BAZ2B_uc002uau.1_Missense_Mutation_p.T36S|BAZ2B_uc002uat.3_Missense_Mutation_p.T36S|BAZ2B_uc010fop.1_Missense_Mutation_p.T36S	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	36					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						AGCAACTCCAGTGGAAAGGCC	0.403													7	171	---	---	---	---	PASS	C	160335124	C	C	160335124	3	2	111	1	0	0	0	0	1	0	0	0	1332	1029	36	4	6539	4	BAZ2B	2	160335124	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	3152668	160335124	82864249	78	41004										
KCNH7	90134	broad.mit.edu	37	chr2	163369169	163369169	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gagtttgtacattacctttgAcattgcgaccattgtctgtt	8	8	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:163369169A>T	uc002uch.1	-	5	1120	c.908T>A	c.(907-909)GTC>GAC	p.V303D	KCNH7_uc002uci.2_Intron	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	303	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	ATTACCTTTGACATTGCGACC	0.348													20	89	---	---	---	---	PASS	T	163369169	T	T	163369169	3	4	111	1	0	0	0	0	1	0	0	0	8037	275	10	5	2796	5	KCNH7	2	163369169	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	3034045	163369169	79830204	79	41005										
KCNH7	90134	broad.mit.edu	37	chr2	163693138	163693138	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atatcatgcctcttggtctcGggtccatggagaaagtcgca	11	10	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:163693138G>A	uc002uch.1	-	2	428	c.216C>T	c.(214-216)CCC>CCT	p.P72P	KCNH7_uc002uci.2_Silent_p.P72P	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	72	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	TCTTGGTCTCGGGTCCATGGA	0.483													22	70	---	---	---	---	PASS	A	163693138	A	A	163693138	2	1	111	1	0	0	0	0	0	0	0	1	8037	1103	39	1		1	KCNH7	2	163693138	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	323969	163693138	79506235	80	41006										
XIRP2	129446	broad.mit.edu	37	chr2	168105878	168105878	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agataagatgaaaaaggaagTtttacaaagctcaagggaca	10	4	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:168105878T>G	uc002udx.2	+	8	7994	c.7976T>G	c.(7975-7977)GTT>GGT	p.V2659G	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.V2484G|XIRP2_uc010fpq.2_Missense_Mutation_p.V2437G|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.V5G	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2484					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAAAAGGAAGTTTTACAAAGC	0.403													6	110	---	---	---	---	PASS	G	168105878	G	G	168105878	3	3	111	1	0	0	0	0	1	0	0	0	17427	1725	60	5	8006	5	XIRP2	2	168105878	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	4412740	168105878	75093495	81	41007										
XIRP2	129446	broad.mit.edu	37	chr2	168107114	168107114	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	taaaaatagtgaacagaaagAaaataaaattgccaaagaga	7	3	0	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:168107114A>G	uc002udx.2	+	8	9230	c.9212A>G	c.(9211-9213)GAA>GGA	p.E3071G	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E2896G|XIRP2_uc010fpq.2_Missense_Mutation_p.E2849G|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2896					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GAACAGAAAGAAAATAAAATT	0.353													27	86	---	---	---	---	PASS	G	168107114	G	G	168107114	3	3	111	1	0	0	0	0	1	0	0	0	17427	246	9	5	9242	5	XIRP2	2	168107114	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	1236	168107114	75092259	82	41008										
SP5	389058	broad.mit.edu	37	chr2	171573769	171573769	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gcggcacctgcggactcacaCgggcgagaagcgctttgcct	14	14	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:171573769C>A	uc002uge.2	+	2	1218	c.1052C>A	c.(1051-1053)ACG>AAG	p.T351K		NM_001003845	NP_001003845	Q6BEB4	SP5_HUMAN	Sp5 transcription factor	351					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGGACTCACACGGGCGAGAAG	0.632													12	29	---	---	---	---	PASS	A	171573769	A	A	171573769	3	1	111	1	0	0	0	0	1	0	0	0	14967	536	19	1	1058	1	SP5	2	171573769	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	3466655	171573769	71625604	83	41009										
HOXD10	3236	broad.mit.edu	37	chr2	176983792	176983792	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggaattagaaaaagagttcTtgttcaatatgtacctcacc	7	7	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:176983792T>A	uc002ukj.2	+	2	926	c.856T>A	c.(856-858)TTG>ATG	p.L286M		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	286	Homeobox.					nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		AAAAGAGTTCTTGTTCAATAT	0.483													52	117	---	---	---	---	PASS	A	176983792	A	A	176983792	3	1	111	1	0	0	0	0	1	0	0	0	7319	1606	56	5	862	5	HOXD10	2	176983792	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	5410023	176983792	66215581	84	41010										
HOXD3	3232	broad.mit.edu	37	chr2	177036654	177036654	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggcctggccgcctacacggcGccactcagcagctgcctgcc	12	19	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:177036654G>T	uc002ukt.1	+	3	1127	c.951G>T	c.(949-951)GCG>GCT	p.A317A		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	317					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		CCTACACGGCGCCACTCAGCA	0.692													9	17	---	---	---	---	PASS	T	177036654	T	T	177036654	2	4	111	1	0	0	0	0	0	0	0	1	7323	1074	38	1		1	HOXD3	2	177036654	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	52862	177036654	66162719	85	41011										
NFE2L2	4780	broad.mit.edu	37	chr2	178098803	178098803	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gctgaattgggagaaattcaCctgtctcttcatctagttgt	9	8	4	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:178098803C>A	uc002ulh.3	-	2	797	c.242G>T	c.(241-243)GGT>GTT	p.G81V	NFE2L2_uc002ulg.3_Missense_Mutation_p.G65V|NFE2L2_uc010zfa.1_Missense_Mutation_p.G65V|NFE2L2_uc002uli.3_Missense_Mutation_p.G65V|NFE2L2_uc010fra.2_Missense_Mutation_p.G65V|NFE2L2_uc010frb.2_Missense_Mutation_p.G65V	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	81					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			GAGAAATTCACCTGTCTCTTC	0.433			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			45	80	---	---	---	---	PASS	A	178098803	A	A	178098803	3	1	111	1	0	0	0	0	1	0	0	0	10368	507	18	3	1591	3	NFE2L2	2	178098803	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1062149	178098803	65100570	86	41012										
OSBPL6	114880	broad.mit.edu	37	chr2	179253830	179253830	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aacattatggagaagtaaccAtcagaaataccaaaagcagt	7	7	1	2	rs150809294		TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:179253830A>T	uc002ulx.2	+	21	2629	c.2251A>T	c.(2251-2253)ATC>TTC	p.I751F	OSBPL6_uc002uly.2_Missense_Mutation_p.I776F|OSBPL6_uc010zfe.1_Missense_Mutation_p.I720F|OSBPL6_uc002ulz.2_Missense_Mutation_p.I715F|OSBPL6_uc002uma.2_Missense_Mutation_p.I755F	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	751					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			AGAAGTAACCATCAGAAATAC	0.358													31	71	---	---	---	---	PASS	T	179253830	T	T	179253830	3	4	111	1	0	0	0	0	1	0	0	0	11281	217	8	5	2447	5	OSBPL6	2	179253830	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	1155027	179253830	63945543	87	41013										
TTN	7273	broad.mit.edu	37	chr2	179589011	179589011	+	Frame_Shift_Del	DEL	A	-	-													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aacatcaaccacagctgtgcAgctgcttttcccaacattat							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:179589011delA	uc010zfg.1	-	69	17583	c.17359delT	c.(17359-17361)TGCfs	p.C5787fs	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Frame_Shift_Del_p.C2448fs	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6714							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)			ACAGCTGTGCAGCTGCTTTTC	0.388													39	22	---	---	---	---		-	179589011	-	-	179589011	7	5	111	1	0	1	0	1	0	0	0	0	16732	188	7	0	83602	0	TTN	2	179589011	Frame_Shift_Del	DEL	A	TCGA-51-4079-01A-01D-1458-08	335181	179589011	63610362	88	41014										
TTN	7273	broad.mit.edu	37	chr2	179615909	179615909	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctctctagagaacagaatatCtttatcactagcttcacttc	4	11	4	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:179615909C>G	uc002unb.2	-	46	11442	c.11218G>C	c.(11218-11220)GAT>CAT	p.D3740H	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	9588							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)			AACAGAATATCTTTATCACTA	0.343													38	89	---	---	---	---	PASS	G	179615909	G	G	179615909	3	3	111	1	0	0	0	0	1	0	0	0	16732	913	32	2	99079	2	TTN	2	179615909	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	26898	179615909	63583464	89	41015										
TTN	7273	broad.mit.edu	37	chr2	179616722	179616722	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agaatctgaaaaggcgtcacGtgtatccctttctgaatgtt	9	8	3	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:179616722G>T	uc002unb.2	-	46	10629	c.10405C>A	c.(10405-10407)CGT>AGT	p.R3469S	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			AAGGCGTCACGTGTATCCCTT	0.353													98	306	---	---	---	---	PASS	T	179616722	T	T	179616722	3	4	111	1	0	0	0	0	1	0	0	0	16732	1145	40	1	99892	1	TTN	2	179616722	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	813	179616722	63582651	90	41016										
TTN	7273	broad.mit.edu	37	chr2	179623731	179623731	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cttccagactcaggttggctGtgcttgatacttggcctaca	10	11	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:179623731G>A	uc010zfg.1	-	44	10507	c.10283C>T	c.(10282-10284)ACA>ATA	p.T3428I	TTN_uc010zfh.1_Missense_Mutation_p.T3382I|TTN_uc010zfi.1_Missense_Mutation_p.T3382I|TTN_uc010zfj.1_Missense_Mutation_p.T3382I|TTN_uc002umz.1_Missense_Mutation_p.T89I|TTN_uc002unb.2_Missense_Mutation_p.T3428I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CAGGTTGGCTGTGCTTGATAC	0.378													45	96	---	---	---	---	PASS	A	179623731	A	A	179623731	3	1	111	1	0	0	0	0	1	0	0	0	16732	1377	48	3	100981	3	TTN	2	179623731	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	7009	179623731	63575642	91	41017										
TTN	7273	broad.mit.edu	37	chr2	179636016	179636016	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aatgtcatctaatttggtggCagcaatgataagtctccttt	8	7	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:179636016C>A	uc010zfg.1	-	34	8262	c.8038G>T	c.(8038-8040)GCC>TCC	p.A2680S	TTN_uc010zfh.1_Missense_Mutation_p.A2634S|TTN_uc010zfi.1_Missense_Mutation_p.A2634S|TTN_uc010zfj.1_Missense_Mutation_p.A2634S|TTN_uc002unb.2_Missense_Mutation_p.A2680S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2680							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)			AATTTGGTGGCAGCAATGATA	0.438													23	76	---	---	---	---	PASS	A	179636016	A	A	179636016	3	1	111	1	0	0	0	0	1	0	0	0	16732	710	25	3	103266	3	TTN	2	179636016	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	12285	179636016	63563357	92	41018										
ZNF385B	151126	broad.mit.edu	37	chr2	180309691	180309691	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	caactcgatctttatgccttCggctagaaatgtgctgaaaa	8	9	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:180309691C>T	uc002unn.3	-	9	1713	c.1109G>A	c.(1108-1110)CGA>CAA	p.R370Q	ZNF385B_uc002unj.2_Missense_Mutation_p.R268Q|ZNF385B_uc002unk.2_RNA|ZNF385B_uc002unl.2_Missense_Mutation_p.R267Q|ZNF385B_uc002unm.2_Missense_Mutation_p.R294Q	NM_152520	NP_689733	Q569K4	Z385B_HUMAN	zinc finger protein 385B isoform 1	370	Matrin-type 4.					nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			TTTATGCCTTCGGCTAGAAAT	0.418													99	156	---	---	---	---	PASS	T	180309691	T	T	180309691	3	4	111	1	0	0	0	0	1	0	0	0	17874	884	31	2	314	2	ZNF385B	2	180309691	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	673675	180309691	62889682	93	41019										
COL3A1	1281	broad.mit.edu	37	chr2	189875023	189875023	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgaatgttccacggaaacacTggtggacagattctagtgct	11	8	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:189875023T>A	uc002uqj.1	+	49	4060	c.3943T>A	c.(3943-3945)TGG>AGG	p.W1315R		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	1315	Fibrillar collagen NC1.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	ACGGAAACACTGGTGGACAGA	0.398													48	99	---	---	---	---	PASS	A	189875023	A	A	189875023	3	1	111	1	0	0	0	0	1	0	0	0	3688	1580	55	5	4137	5	COL3A1	2	189875023	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	9565332	189875023	53324350	94	41020										
PLCL1	5334	broad.mit.edu	37	chr2	198948716	198948716	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acctcgagaaagccaagcttGatatttctgccataaaagag	8	9	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:198948716G>T	uc010fsp.2	+	2	766	c.475G>T	c.(475-477)GAT>TAT	p.D159Y	PLCL1_uc002uuv.3_Missense_Mutation_p.D80Y	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	159	PH.|Interaction with PPP1C.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	AGCCAAGCTTGATATTTCTGC	0.443													25	74	---	---	---	---	PASS	T	198948716	T	T	198948716	3	4	111	1	0	0	0	0	1	0	0	0	12039	1290	45	2	481	2	PLCL1	2	198948716	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	9073693	198948716	44250657	95	41021										
SATB2	23314	broad.mit.edu	37	chr2	200298113	200298113	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cccagggccaggagcgcagtCtccaccagctggctaaaaag	12	14	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:200298113C>A	uc002uuy.1	-	3	1111	c.294G>T	c.(292-294)GAG>GAT	p.E98D	SATB2_uc010fsq.1_Missense_Mutation_p.E98D|SATB2_uc002uuz.1_Missense_Mutation_p.E98D|SATB2_uc002uva.1_Missense_Mutation_p.E98D	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	98						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGAGCGCAGTCTCCACCAGCT	0.542													28	87	---	---	---	---	PASS	A	200298113	A	A	200298113	3	1	111	1	0	0	0	0	1	0	0	0	13854	912	32	2	1943	2	SATB2	2	200298113	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1349397	200298113	42901260	96	41022										
ADAM23	8745	broad.mit.edu	37	chr2	207412165	207412165	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgtttcagaaaagcacaggtCgaccacatataatccagaaa	7	9	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:207412165C>T	uc002vbq.2	+	7	956	c.733C>T	c.(733-735)CGA>TGA	p.R245*	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	245					cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		AAGCACAGGTCGACCACATAT	0.343													14	61	---	---	---	---	PASS	T	207412165	T	T	207412165	4	4	111	1	0	0	0	0	0	1	0	0	245	876	31	2	759	2	ADAM23	2	207412165	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	7114052	207412165	35787208	97	41023										
LANCL1	10314	broad.mit.edu	37	chr2	211299258	211299258	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttttgtggggactagcaggtCagccaggaaatatattgttc	12	6	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:211299258C>A	uc010zjh.1	-	10	1228	c.1153G>T	c.(1153-1155)GAC>TAC	p.D385Y	LANCL1_uc002ved.2_Missense_Mutation_p.D385Y|LANCL1_uc010fuq.2_Missense_Mutation_p.D385Y	NM_001136574	NP_001130046	O43813	LANC1_HUMAN	lanthionine synthetase C-like protein 1	385						cytoplasm|integral to plasma membrane|microtubule cytoskeleton|nucleus	catalytic activity|G-protein coupled receptor activity|glutathione binding|low-density lipoprotein particle receptor binding|SH3 domain binding|zinc ion binding				0				Epithelial(149;0.00562)|Lung(261;0.0468)|LUSC - Lung squamous cell carcinoma(261;0.0495)|all cancers(144;0.0569)		ACTAGCAGGTCAGCCAGGAAA	0.428													20	54	---	---	---	---	PASS	A	211299258	A	A	211299258	3	1	111	1	0	0	0	0	1	0	0	0	8620	826	29	2	50	2	LANCL1	2	211299258	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	3887093	211299258	31900115	98	41024										
CPS1	1373	broad.mit.edu	37	chr2	211464182	211464182	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttaaagcaagcggatactgtCtactttcttcccatcacccc	5	14	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:211464182C>G	uc002vee.3	+	14	1578	c.1446C>G	c.(1444-1446)GTC>GTG	p.V482V	CPS1_uc010fur.2_Silent_p.V488V|CPS1_uc010fus.2_Silent_p.V31V	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	482					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)		CGGATACTGTCTACTTTCTTC	0.463													37	114	---	---	---	---	PASS	G	211464182	G	G	211464182	2	3	111	1	0	0	0	0	0	0	0	1	3823	900	32	2		2	CPS1	2	211464182	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	164924	211464182	31735191	99	41025										
IRS1	3667	broad.mit.edu	37	chr2	227662963	227662963	+	Missense_Mutation	SNP	C	A	A													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttgggcttcaggatcacttgCcagacctctttgaatgcggg							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:227662963C>A	uc002voh.3	-	1	544	c.492G>T	c.(490-492)TGG>TGT	p.W164C		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	164	IRS-type PTB.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GGATCACTTGCCAGACCTCTT	0.602											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	45	106	---	---	---	---	PASS	A	227662963	A	A	227662963	3	1	111	1	0	0	0	0	1	0	0	0	7840	740	26	3	3240	3	IRS1	2	227662963	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	16198781	227662963	15536410	100	41026	765	2								
IRS1	3667	broad.mit.edu	37	chr2	227662964	227662964	+	Missense_Mutation	SNP	C	A	A													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgggcttcaggatcacttgcCagacctctttgaatgcgggt							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:227662964C>A	uc002voh.3	-	1	543	c.491G>T	c.(490-492)TGG>TTG	p.W164L		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	164	IRS-type PTB.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GATCACTTGCCAGACCTCTTT	0.607											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	46	110	---	---	---	---	PASS	A	227662964	A	A	227662964	3	1	111	1	0	0	0	0	1	0	0	0	7840	595	21	3	3241	3	IRS1	2	227662964	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1	227662964	15536409	101	41027	765	2								
GPR55	9290	broad.mit.edu	37	chr2	231775273	231775273	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagatcccaaagatcttcctGggggaccggaggtggctcac	13	12	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr2:231775273G>T	uc002vrg.2	-	2	598	c.405C>A	c.(403-405)CCC>CCA	p.P135P	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Silent_p.P135P	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	135	Cytoplasmic (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		AGATCTTCCTGGGGGACCGGA	0.542													28	62	---	---	---	---	PASS	T	231775273	T	T	231775273	2	4	111	1	0	0	0	0	0	0	0	1	6699	1335	47	3		3	GPR55	2	231775273	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	4112309	231775273	11424100	102	41028										
CNTN6	27255	broad.mit.edu	37	chr3	1269674	1269674	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggaaggcaaagctccaatttGcatgtgagtttggggtaaat	13	5	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:1269674G>T	uc003boz.2	+	4	622	c.355G>T	c.(355-357)GCA>TCA	p.A119S	CNTN6_uc010hbo.2_Missense_Mutation_p.A114S|CNTN6_uc011asj.1_Missense_Mutation_p.A47S|CNTN6_uc003bpa.2_Missense_Mutation_p.A119S	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	119					axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		GCTCCAATTTGCATGTGAGTT	0.378													10	91	---	---	---	---	PASS	T	1269674	T	T	1269674	3	4	111	1	0	0	0	0	1	0	0	0	3645	1319	46	3	365	3	CNTN6	3	1269674	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08		1269674	196752756	103	41029										
TGFBR2	7048	broad.mit.edu	37	chr3	30713591	30713591	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgaagcatgagaacatactcCagttcctgacggctgaggag	12	9	0	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:30713591C>T	uc003ceo.2	+	4	1298	c.916C>T	c.(916-918)CAG>TAG	p.Q306*	TGFBR2_uc003cen.2_Nonsense_Mutation_p.Q331*	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	306	Protein kinase.|Cytoplasmic (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						GAACATACTCCAGTTCCTGAC	0.522													33	46	---	---	---	---	PASS	T	30713591	T	T	30713591	4	4	111	1	0	0	0	0	0	1	0	0	15819	595	21	3	1009	3	TGFBR2	3	30713591	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	29443917	30713591	167308839	104	41030										
CSRNP1	64651	broad.mit.edu	37	chr3	39184967	39184967	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tctcatccaggacgcctgatGtgaagctacagccagaatag	10	11	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:39184967G>A	uc003cjg.2	-	5	1563	c.1349C>T	c.(1348-1350)ACA>ATA	p.T450I	CSRNP1_uc003cjh.2_Missense_Mutation_p.T450I	NM_033027	NP_149016	Q96S65	CSRN1_HUMAN	AXIN1 up-regulated 1	450					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(4)|skin(1)	5						GACGCCTGATGTGAAGCTACA	0.567													33	34	---	---	---	---	PASS	A	39184967	A	A	39184967	3	1	111	1	0	0	0	0	1	0	0	0	3963	1377	48	3	424	3	CSRNP1	3	39184967	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	8471376	39184967	158837463	105	41031										
OR5H14	403273	broad.mit.edu	37	chr3	97868527	97868527	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctctctctgaatgcaagataCagttgttttcgtttgcaatc	7	9	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:97868527C>A	uc003dsg.1	+	1	298	c.298C>A	c.(298-300)CAG>AAG	p.Q100K		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	100	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ATGCAAGATACAGTTGTTTTC	0.393													50	378	---	---	---	---	PASS	A	97868527	A	A	97868527	3	1	111	1	0	0	0	0	1	0	0	0	11160	479	17	3	300	3	OR5H14	3	97868527	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	58683560	97868527	100153903	106	41032										
OR5K1	26339	broad.mit.edu	37	chr3	98189243	98189243	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gggataaagatataccagctGcaattttatttacaatagta	7	5	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:98189243G>A	uc003dsm.2	+	1	823	c.823G>A	c.(823-825)GCA>ACA	p.A275T		NM_001004736	NP_001004736	Q8NHB7	OR5K1_HUMAN	olfactory receptor, family 5, subfamily K,	275	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)	1						TATACCAGCTGCAATTTTATT	0.323													55	87	---	---	---	---	PASS	A	98189243	A	A	98189243	3	1	111	1	0	0	0	0	1	0	0	0	11166	1319	46	3	825	3	OR5K1	3	98189243	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	320716	98189243	99833187	107	41033										
FILIP1L	11259	broad.mit.edu	37	chr3	99649846	99649846	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttgggctgagccctcggtatCactgcctctggaacgcattc	11	13	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:99649846C>T	uc003dtm.2	-	2	482	c.19G>A	c.(19-21)GAT>AAT	p.D7N	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.D7N|uc003dtq.2_5'Flank	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	7						cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						CCCTCGGTATCACTGCCTCTG	0.408													27	128	---	---	---	---	PASS	T	99649846	T	T	99649846	3	4	111	1	0	0	0	0	1	0	0	0	5895	826	29	2	3429	2	FILIP1L	3	99649846	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1460603	99649846	98372584	108	41034										
GPR128	84873	broad.mit.edu	37	chr3	100373875	100373875	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttaacatcccgaatcccatgTgcactgcgattgccgcctta	7	14	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:100373875T>A	uc003duc.2	+	12	1844	c.1576T>A	c.(1576-1578)TGC>AGC	p.C526S	GPR128_uc011bhc.1_Missense_Mutation_p.C227S|GPR128_uc003dud.2_Missense_Mutation_p.C49S	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	526	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						GAATCCCATGTGCACTGCGAT	0.428													224	245	---	---	---	---	PASS	A	100373875	A	A	100373875	3	1	111	1	0	0	0	0	1	0	0	0	6641	1696	59	5	1622	5	GPR128	3	100373875	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	724029	100373875	97648555	109	41035										
ABI3BP	25890	broad.mit.edu	37	chr3	100570766	100570766	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	catctgatgttgtagggcttGagaaaacatcataagttgct	10	6	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:100570766G>C	uc003dun.2	-	13	1263	c.1178C>G	c.(1177-1179)TCA>TGA	p.S393*	ABI3BP_uc003duo.2_Nonsense_Mutation_p.S435*	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	393						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						TGTAGGGCTTGAGAAAACATC	0.348													3	19	---	---	---	---	PASS	C	100570766	C	C	100570766	4	2	111	1	0	0	0	0	0	1	0	0	91	1294	45	2	2141	2	ABI3BP	3	100570766	Nonsense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	196891	100570766	97451664	110	41036										
RETNLB	84666	broad.mit.edu	37	chr3	108475936	108475936	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gagaacatccttgatcttctTatccataacggagtctaagg	8	9	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:108475936T>A	uc003dxh.2	-	1	195	c.97A>T	c.(97-99)AAG>TAG	p.K33*		NM_032579	NP_115968	Q9BQ08	RETNB_HUMAN	resistin like beta precursor	33					cell proliferation	extracellular region	hormone activity			skin(1)	1						TTGATCTTCTTATCCATAACG	0.512													7	35	---	---	---	---	PASS	A	108475936	A	A	108475936	4	1	111	1	0	0	0	0	0	1	0	0	13237	1763	61	5	250	5	RETNLB	3	108475936	Nonsense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	7905170	108475936	89546494	111	41037										
MORC1	27136	broad.mit.edu	37	chr3	108725881	108725881	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atattaattactcaccttatGtgctgaagttaggcaggtgg	10	6	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:108725881G>T	uc003dxl.2	-	18	1849	c.1762C>A	c.(1762-1764)CAT>AAT	p.H588N	MORC1_uc011bhn.1_Intron	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	588					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						CTCACCTTATGTGCTGAAGTT	0.373													6	58	---	---	---	---	PASS	T	108725881	T	T	108725881	3	4	111	1	0	0	0	0	1	0	0	0	9701	1377	48	3	1236	3	MORC1	3	108725881	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	249945	108725881	89296549	112	41038										
B4GALT4	8702	broad.mit.edu	37	chr3	118948774	118948774	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tagtcagagtttttcccttcCccaaaatgagggtcttatgg	9	9	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:118948774C>A	uc003ecg.2	-	3	814	c.173G>T	c.(172-174)GGG>GTG	p.G58V	B4GALT4_uc003ece.1_Missense_Mutation_p.G58V|B4GALT4_uc003ecf.2_RNA|B4GALT4_uc003ech.2_Missense_Mutation_p.G58V|B4GALT4_uc003eci.2_Missense_Mutation_p.G58V|B4GALT4_uc011biy.1_Intron	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	58	Lumenal (Potential).				membrane lipid metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding|N-acetyllactosamine synthase activity				0				GBM - Glioblastoma multiforme(114;0.222)	N-Acetyl-D-glucosamine(DB00141)	TTTTCCCTTCCCCAAAATGAG	0.453													16	73	---	---	---	---	PASS	A	118948774	A	A	118948774	3	1	111	1	0	0	0	0	1	0	0	0	1273	623	22	3	885	3	B4GALT4	3	118948774	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	10222893	118948774	79073656	113	41039										
POLQ	10721	broad.mit.edu	37	chr3	121206414	121206414	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tctttgaacccatttctactCcctggacttaaatcgtggtt	6	11	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:121206414C>A	uc003eee.3	-	16	5493	c.5364G>T	c.(5362-5364)GGG>GGT	p.G1788G	POLQ_uc003eed.2_Silent_p.G960G	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1788					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		CATTTCTACTCCCTGGACTTA	0.383								DNA_polymerases_(catalytic_subunits)					26	154	---	---	---	---	PASS	A	121206414	A	A	121206414	2	1	111	1	0	0	0	0	0	0	0	1	12208	842	30	2		2	POLQ	3	121206414	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	2257640	121206414	76816016	114	41040										
MCM2	4171	broad.mit.edu	37	chr3	127323596	127323596	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	accgggaggctggccggggcCtgggccgcatgcgccgtggg	21	13	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:127323596C>T	uc003ejp.2	+	3	439	c.382C>T	c.(382-384)CTG>TTG	p.L128L	MCM2_uc011bkm.1_5'UTR|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Silent_p.L12L	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	128	Interaction with MYST2 (By similarity).				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						TGGCCGGGGCCTGGGCCGCAT	0.667													3	19	---	---	---	---	PASS	T	127323596	T	T	127323596	2	4	111	1	0	0	0	0	0	0	0	1	9386	680	24	3		3	MCM2	3	127323596	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	6117182	127323596	70698834	115	41041										
ACAD11	84129	broad.mit.edu	37	chr3	132322143	132322143	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggatgctgcattcaatattCgtggcatcacttgaagctac	9	9	2	1	rs142478069		TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:132322143C>A	uc003eov.3	-	13	1931	c.1551G>T	c.(1549-1551)ACG>ACT	p.T517T	ACAD11_uc011blr.1_Silent_p.T128T	NM_032169	NP_115545	Q709F0	ACD11_HUMAN	putative acyl-CoA dehydrogenase	517						peroxisome	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|transferase activity, transferring phosphorus-containing groups			ovary(1)	1						ATTCAATATTCGTGGCATCAC	0.373													22	130	---	---	---	---	PASS	A	132322143	A	A	132322143	2	1	111	1	0	0	0	0	0	0	0	1	109	871	31	2		2	ACAD11	3	132322143	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	4998547	132322143	65700287	116	41042										
TOPBP1	11073	broad.mit.edu	37	chr3	133339143	133339143	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atgttgcagacattatctccTgtaactgcttctgaaagttc	7	9	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:133339143T>A	uc003eps.2	-	20	3359	c.3227A>T	c.(3226-3228)CAG>CTG	p.Q1076L	TOPBP1_uc003ept.1_Missense_Mutation_p.Q80L	NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	1076					DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						CATTATCTCCTGTAACTGCTT	0.423								Other_conserved_DNA_damage_response_genes					8	75	---	---	---	---	PASS	A	133339143	A	A	133339143	3	1	111	1	0	0	0	0	1	0	0	0	16366	1580	55	5	1377	5	TOPBP1	3	133339143	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	1017000	133339143	64683287	117	41043										
TRPC1	7220	broad.mit.edu	37	chr3	142499767	142499767	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctcgtgaattggaagttattCtaaaccatacgtctagtgac	8	8	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:142499767C>G	uc003evc.2	+	6	992	c.856C>G	c.(856-858)CTA>GTA	p.L286V	TRPC1_uc003evb.2_Missense_Mutation_p.L252V	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	286	Cytoplasmic (Potential).				axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						GGAAGTTATTCTAAACCATAC	0.363													24	84	---	---	---	---	PASS	G	142499767	G	G	142499767	3	3	111	1	0	0	0	0	1	0	0	0	16575	912	32	2	772	2	TRPC1	3	142499767	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	9160624	142499767	55522663	118	41044										
SIAH2	6478	broad.mit.edu	37	chr3	150460253	150460253	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atgactgcatcatcacccagTcgacagcccctggcaagtta	8	14	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:150460253T>C	uc003eyi.2	-	2	1277	c.650A>G	c.(649-651)GAC>GGC	p.D217G		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	217	SBD.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CATCACCCAGTCGACAGCCCC	0.507													8	165	---	---	---	---	PASS	C	150460253	C	C	150460253	3	2	111	1	0	0	0	0	1	0	0	0	14300	1667	58	5	328	5	SIAH2	3	150460253	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	7960486	150460253	47562177	119	41045										
MME	4311	broad.mit.edu	37	chr3	154884812	154884812	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	catggcttcgatgacaatggTaaagtgcagttgacattttc	10	7	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:154884812T>A	uc010hvr.1	+	18	1991	c.1780_splice	c.e18+2	p.G594_splice	MME_uc003fab.1_Splice_Site_p.G594_splice|MME_uc003fac.1_Splice_Site_p.G594_splice|MME_uc003fad.1_Splice_Site_p.G594_splice|MME_uc003fae.1_Splice_Site_p.G594_splice	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase						cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	ATGACAATGGTAAAGTGCAGT	0.398													32	164	---	---	---	---	PASS	A	154884812	A	A	154884812	5	1	111	1	0	0	0	0	0	0	1	0	9645	1652	57	5	1848	5	MME	3	154884812	Splice_Site	SNP	T	TCGA-51-4079-01A-01D-1458-08	4424559	154884812	43137618	120	41046										
GFM1	85476	broad.mit.edu	37	chr3	158409239	158409239	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtcaacttcctgttaaaaaaGgaaaagccaagaactaactt	6	8	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:158409239G>T	uc003fce.2	+	18	2346	c.2239G>T	c.(2239-2241)GGA>TGA	p.G747*	GFM1_uc003fcf.2_RNA|GFM1_uc003fcg.2_Nonsense_Mutation_p.G678*	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor	747					mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			TGTTAAAAAAGGAAAAGCCAA	0.383													14	221	---	---	---	---	PASS	T	158409239	T	T	158409239	4	4	111	1	0	0	0	0	0	1	0	0	6341	1001	35	3	2309	3	GFM1	3	158409239	Nonsense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	3524427	158409239	39613191	121	41047										
IQCJ	654502	broad.mit.edu	37	chr3	158983042	158983042	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gggaagattcatccttacatCtcttggaggttgcagtcacc	10	10	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:158983042C>A	uc003fcp.1	+	5	435	c.330C>A	c.(328-330)ATC>ATA	p.I110I	SCHIP1_uc003fcq.1_Intron|SCHIP1_uc003fcr.1_Intron|IQCJ_uc010hvy.1_Silent_p.I83I	NM_001042705	NP_001036170	Q1A5X6	IQCJ_HUMAN	IQ motif containing J isoform CaMBPv1	110											0			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			ATCCTTACATCTCTTGGAGGT	0.468													67	313	---	---	---	---	PASS	A	158983042	A	A	158983042	2	1	111	1	0	0	0	0	0	0	0	1	7812	903	32	2		2	IQCJ	3	158983042	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	573803	158983042	39039388	122	41048										
BCHE	590	broad.mit.edu	37	chr3	165547376	165547376	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcctcggcttttgtgtaattAtctcttctttccagaggtaa	7	9	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:165547376A>T	uc003fem.3	-	2	1606	c.1446T>A	c.(1444-1446)GAT>GAA	p.D482E	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	482					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	TTGTGTAATTATCTCTTCTTT	0.398													42	184	---	---	---	---	PASS	T	165547376	T	T	165547376	3	4	111	1	0	0	0	0	1	0	0	0	1358	446	16	5	374	5	BCHE	3	165547376	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	6564334	165547376	32475054	123	41049										
NLGN1	22871	broad.mit.edu	37	chr3	173322456	173322456	+	Missense_Mutation	SNP	G	T	T													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gatggcatgcttggtacaccGgggattgggtgccccattga							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:173322456G>T	uc003fio.1	+	3	491	c.68G>T	c.(67-69)CGG>CTG	p.R23L	NLGN1_uc010hww.1_Missense_Mutation_p.R23L|NLGN1_uc003fip.1_Missense_Mutation_p.R23L	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	23					calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TTGGTACACCGGGGATTGGGT	0.507													89	280	---	---	---	---	PASS	T	173322456	T	T	173322456	3	4	111	1	0	0	0	0	1	0	0	0	10461	1116	39	1	70	1	NLGN1	3	173322456	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	7775080	173322456	24699974	124	41050	766	2								
NLGN1	22871	broad.mit.edu	37	chr3	173322457	173322457	+	Silent	SNP	G	T	T													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atggcatgcttggtacaccgGggattgggtgccccattgac							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:173322457G>T	uc003fio.1	+	3	492	c.69G>T	c.(67-69)CGG>CGT	p.R23R	NLGN1_uc010hww.1_Silent_p.R23R|NLGN1_uc003fip.1_Silent_p.R23R	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	23					calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TGGTACACCGGGGATTGGGTG	0.502													89	279	---	---	---	---	PASS	T	173322457	T	T	173322457	2	4	111	1	0	0	0	0	0	0	0	1	10461	1219	43	3		3	NLGN1	3	173322457	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	1	173322457	24699973	125	41051	766	2								
NLGN1	22871	broad.mit.edu	37	chr3	173525487	173525487	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagatattcgggacagtgggGgtcccaaaccagtgatggtg	15	8	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:173525487G>C	uc003fio.1	+	4	934	c.511G>C	c.(511-513)GGT>CGT	p.G171R	NLGN1_uc010hww.1_Missense_Mutation_p.G211R|NLGN1_uc003fip.1_Missense_Mutation_p.G171R	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	188	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			GGACAGTGGGGGTCCCAAACC	0.398													22	223	---	---	---	---	PASS	C	173525487	C	C	173525487	3	2	111	1	0	0	0	0	1	0	0	0	10461	1232	43	4	517	4	NLGN1	3	173525487	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	203030	173525487	24496943	126	41052										
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atcctctctctgaaatcactGagcaggagaaagattttcta	7	9	4	4	rs104886003		TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			23	84	---	---	---	---	PASS	A	178936091	A	A	178936091	3	1	111	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	5410604	178936091	19086339	127	41053										
CCDC39	339829	broad.mit.edu	37	chr3	180381711	180381711	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtgagaagtcatagaattaaTtcgctcttcatactcacgta	7	8	4	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:180381711T>A	uc010hxe.2	-	2	269	c.154A>T	c.(154-156)ATT>TTT	p.I52F	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	52	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			ATAGAATTAATTCGCTCTTCA	0.338													65	124	---	---	---	---	PASS	A	180381711	A	A	180381711	3	1	111	1	0	0	0	0	1	0	0	0	2811	1493	52	5	2747	5	CCDC39	3	180381711	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	1445620	180381711	17640719	128	41054										
B3GNT5	84002	broad.mit.edu	37	chr3	182987916	182987916	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cgttccggaattagaaggacGtggggcaatgaaaattatgt	13	5	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:182987916G>A	uc003flk.2	+	2	860	c.330G>A	c.(328-330)ACG>ACA	p.T110T	MCF2L2_uc003fli.1_Intron|MCF2L2_uc003flj.1_Intron|MCF2L2_uc011bqr.1_Intron|B3GNT5_uc003fll.2_Silent_p.T110T|B3GNT5_uc003flm.2_Silent_p.T110T	NM_032047	NP_114436	Q9BYG0	B3GN5_HUMAN	UDP-GlcNAc:betaGal	110	Lumenal (Potential).				central nervous system development|glycolipid biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	beta-galactosyl-N-acetylglucosaminylgalactosylglucosyl-ceramide beta-1,3-acetylglucosaminyltransferase activity|galactosyltransferase activity			ovary(1)	1	all_cancers(143;8.52e-13)|Ovarian(172;0.0355)		all cancers(12;4.52e-44)|Epithelial(37;8.82e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TTAGAAGGACGTGGGGCAATG	0.423													9	160	---	---	---	---	PASS	A	182987916	A	A	182987916	2	1	111	1	0	0	0	0	0	0	0	1	1260	1132	40	1		1	B3GNT5	3	182987916	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	2606205	182987916	15034514	129	41055										
DGKG	1608	broad.mit.edu	37	chr3	185986661	185986661	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gatacttttgtggcaccggtCacacttgacggaggagttcc	12	10	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:185986661C>A	uc003fqa.2	-	12	1582	c.1045G>T	c.(1045-1047)GAC>TAC	p.D349Y	DGKG_uc003fqb.2_Intron|DGKG_uc003fqc.2_Missense_Mutation_p.D349Y|DGKG_uc011brx.1_Intron	NM_001346	NP_001337	P49619	DGKG_HUMAN	diacylglycerol kinase gamma isoform 1	349	Phorbol-ester/DAG-type 2.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	all_cancers(143;3.26e-12)|Ovarian(172;0.0315)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)	GBM - Glioblastoma multiforme(93;0.0657)	Phosphatidylserine(DB00144)	TGGCACCGGTCACACTTGACG	0.632													24	42	---	---	---	---	PASS	A	185986661	A	A	185986661	3	1	111	1	0	0	0	0	1	0	0	0	4469	826	29	2	1386	2	DGKG	3	185986661	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	2998745	185986661	12035769	130	41056										
HRASLS	57110	broad.mit.edu	37	chr3	192980981	192980981	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acttgtcaacaactgtgaacAttttgtgacattgcttcgct	7	9	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:192980981A>G	uc003fta.2	+	3	767	c.362A>G	c.(361-363)CAT>CGT	p.H121R		NM_020386	NP_065119	Q9HDD0	HRSL1_HUMAN	HRAS-like suppressor	121											0	all_cancers(143;9.1e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000159)		AACTGTGAACATTTTGTGACA	0.403													107	60	---	---	---	---	PASS	G	192980981	G	G	192980981	3	3	111	1	0	0	0	0	1	0	0	0	7349	217	8	5	368	5	HRASLS	3	192980981	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	6994320	192980981	5041449	131	41057										
FAM43A	131583	broad.mit.edu	37	chr3	194407853	194407853	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgggcaagatctggagcaagAgcgaggcgggccgtcagggc	19	9	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr3:194407853A>T	uc003fuj.2	+	1	1232	c.298A>T	c.(298-300)AGC>TGC	p.S100C		NM_153690	NP_710157	Q8N2R8	FA43A_HUMAN	hypothetical protein LOC131583	100										central_nervous_system(1)	1	all_cancers(143;2.04e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.147)	OV - Ovarian serous cystadenocarcinoma(49;8.37e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;1.78e-05)		CTGGAGCAAGAGCGAGGCGGG	0.682													17	114	---	---	---	---	PASS	T	194407853	T	T	194407853	3	4	111	1	0	0	0	0	1	0	0	0	5562	304	11	5	300	5	FAM43A	3	194407853	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	1426872	194407853	3614577	132	41058										
FGFR3	2261	broad.mit.edu	37	chr4	1808386	1808386	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggagggccaccgcatggacaAgcccgccaactgcacacacg	12	16	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr4:1808386A>T	uc003gdr.3	+	16	2400	c.2144A>T	c.(2143-2145)AAG>ATG	p.K715M	FGFR3_uc003gdu.2_Missense_Mutation_p.K717M|FGFR3_uc003gds.3_Missense_Mutation_p.K603M|FGFR3_uc003gdq.3_Missense_Mutation_p.Q692H	NM_000142	NP_000133	P22607	FGFR3_HUMAN	fibroblast growth factor receptor 3 isoform 1	715	Protein kinase.|Cytoplasmic (Potential).				bone maturation|cell growth|insulin receptor signaling pathway|JAK-STAT cascade|MAPKKK cascade|negative regulation of developmental growth|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|identical protein binding			urinary_tract(2177)|skin(314)|upper_aerodigestive_tract(57)|haematopoietic_and_lymphoid_tissue(24)|prostate(9)|cervix(6)|central_nervous_system(4)|large_intestine(3)|lung(3)|testis(2)|pancreas(1)	2600		Breast(71;0.212)|all_epithelial(65;0.241)	all cancers(2;0.000145)|OV - Ovarian serous cystadenocarcinoma(23;0.0019)|Epithelial(3;0.00221)|GBM - Glioblastoma multiforme(2;0.234)		Palifermin(DB00039)	CGCATGGACAAGCCCGCCAAC	0.687		1	Mis|T	IGH@|ETV6	bladder|MM|T-cell lymphoma		Hypochondroplasia|Thanatophoric dysplasia		Muenke_syndrome|Saethre-Chotzen_syndrome				13	39	---	---	---	---	PASS	T	1808386	T	T	1808386	3	4	111	1	0	0	0	0	1	0	0	0	5867	72	3	5	2357	5	FGFR3	4	1808386	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08		1808386	189345890	133	41059										
CRMP1	1400	broad.mit.edu	37	chr4	5827375	5827375	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atgcccctggaaaccccttgCaatccaaaaacctaaacaga	5	14	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr4:5827375C>G	uc003gip.2	-	14	1574	c.1473G>C	c.(1471-1473)TTG>TTC	p.L491F	EVC_uc003gim.1_Intron|CRMP1_uc003gin.1_Missense_Mutation_p.L403F|CRMP1_uc003giq.2_Missense_Mutation_p.L491F|CRMP1_uc003gir.2_Missense_Mutation_p.L486F|CRMP1_uc003gis.2_Missense_Mutation_p.L605F	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	491					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		AAACCCCTTGCAATCCAAAAA	0.527													19	52	---	---	---	---	PASS	G	5827375	G	G	5827375	3	3	111	1	0	0	0	0	1	0	0	0	3890	709	25	4	253	4	CRMP1	4	5827375	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	4018989	5827375	185326901	134	41060										
CC2D2A	57545	broad.mit.edu	37	chr4	15591297	15591297	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgggctgtttaataggtcctGacaatgtaagtattaacatt	9	5	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr4:15591297G>C	uc010idv.2	+	34	4554	c.4309G>C	c.(4309-4311)GAC>CAC	p.D1437H	CC2D2A_uc003gnx.2_Missense_Mutation_p.D1329H|CC2D2A_uc003gnz.1_RNA|CC2D2A_uc003goa.1_RNA	NM_001080522	NP_001073991	Q9P2K1	C2D2A_HUMAN	coiled-coil and C2 domain containing 2A isoform	1437					cell projection organization	cilium|microtubule basal body				pancreas(2)|ovary(1)	3						AATAGGTCCTGACAATGTAAG	0.303													15	46	---	---	---	---	PASS	C	15591297	C	C	15591297	3	2	111	1	0	0	0	0	1	0	0	0	2728	1290	45	2	4638	2	CC2D2A	4	15591297	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	9763922	15591297	175562979	135	41061										
BEND4	389206	broad.mit.edu	37	chr4	42122174	42122174	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccaaggccgcatgagtacttAagctcatcggttgtgaaaac	10	10	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr4:42122174A>T	uc003gwn.2	-	5	1864	c.1284T>A	c.(1282-1284)CTT>CTA	p.L428L	BEND4_uc003gwm.2_Silent_p.L428L|BEND4_uc011byy.1_Silent_p.L428L	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	428	BEN.										0						ATGAGTACTTAAGCTCATCGG	0.478													13	59	---	---	---	---	PASS	T	42122174	T	T	42122174	2	4	111	1	0	0	0	0	0	0	0	1	1400	349	13	5		5	BEND4	4	42122174	Silent	SNP	A	TCGA-51-4079-01A-01D-1458-08	26530877	42122174	149032102	136	41062										
FRYL	285527	broad.mit.edu	37	chr4	48622755	48622755	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acaaggtgcgaagtaaggaaGggagacagtgctctgctact	14	7	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr4:48622755G>A	uc003gyh.1	-	6	820	c.215C>T	c.(214-216)CCT>CTT	p.P72L	FRYL_uc003gyk.2_Missense_Mutation_p.P72L|FRYL_uc003gyl.1_Missense_Mutation_p.P123L|FRYL_uc003gym.1_Missense_Mutation_p.P72L	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	72					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						AAGTAAGGAAGGGAGACAGTG	0.413													50	106	---	---	---	---	PASS	A	48622755	A	A	48622755	3	1	111	1	0	0	0	0	1	0	0	0	6064	1000	35	3	9062	3	FRYL	4	48622755	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	6500581	48622755	142531521	137	41063										
CWH43	80157	broad.mit.edu	37	chr4	49005803	49005803	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gcacacatgggcagctgctgTgtctggctgtgtcttcgcca	13	12	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr4:49005803T>C	uc003gyv.2	+	7	1036	c.854T>C	c.(853-855)GTG>GCG	p.V285A	CWH43_uc011bzl.1_Missense_Mutation_p.V258A	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	285	Helical; (Potential).				GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						GCAGCTGCTGTGTCTGGCTGT	0.502													59	104	---	---	---	---	PASS	C	49005803	C	C	49005803	3	2	111	1	0	0	0	0	1	0	0	0	4073	1696	59	5	880	5	CWH43	4	49005803	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	383048	49005803	142148473	138	41064										
HERC5	51191	broad.mit.edu	37	chr4	89397178	89397178	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtgaccagtcttcactggttCtgggtaagtttgatcatttg	11	7	4	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr4:89397178C>A	uc003hrt.2	+	12	1732	c.1579C>A	c.(1579-1581)CTG>ATG	p.L527M	HERC5_uc011cdm.1_Missense_Mutation_p.L165M	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	527					innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		TTCACTGGTTCTGGGTAAGTT	0.383													35	38	---	---	---	---	PASS	A	89397178	A	A	89397178	3	1	111	1	0	0	0	0	1	0	0	0	7061	912	32	2	1625	2	HERC5	4	89397178	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	40391375	89397178	101757098	139	41065										
RAP1GDS1	5910	broad.mit.edu	37	chr4	99342483	99342483	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggtgtgaagccaaagatcatGctggtgtgatgggggagtca	17	5	2	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr4:99342483G>T	uc003htx.3	+	12	1568	c.1378G>T	c.(1378-1380)GCT>TCT	p.A460S	RAP1GDS1_uc003htw.3_Missense_Mutation_p.A461S|RAP1GDS1_uc003htv.3_Missense_Mutation_p.A460S|RAP1GDS1_uc003htz.3_Missense_Mutation_p.A411S|RAP1GDS1_uc003hty.3_Missense_Mutation_p.A412S|RAP1GDS1_uc003hua.3_Missense_Mutation_p.A369S	NM_001100427	NP_001093897	P52306	GDS1_HUMAN	RAP1, GTP-GDP dissociation stimulator 1 isoform	460							binding|GTPase activator activity			ovary(1)|lung(1)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;2.9e-07)|LUSC - Lung squamous cell carcinoma(1;0.0253)|Lung(1;0.0576)		CAAAGATCATGCTGGTGTGAT	0.433			T	NUP98	T-ALL								36	30	---	---	---	---	PASS	T	99342483	T	T	99342483	3	4	111	1	0	0	0	0	1	0	0	0	13039	1319	46	3	1427	3	RAP1GDS1	4	99342483	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	9945305	99342483	91811793	140	41066										
FAT4	79633	broad.mit.edu	37	chr4	126355562	126355562	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgcctcagatgctgatgcttCaaagaatgcagttataaggt	10	7	2	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr4:126355562C>T	uc003ifj.3	+	7	7181	c.7181C>T	c.(7180-7182)TCA>TTA	p.S2394L	FAT4_uc011cgp.1_Missense_Mutation_p.S692L	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2394	Cadherin 23.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GCTGATGCTTCAAAGAATGCA	0.343													33	56	---	---	---	---	PASS	T	126355562	T	T	126355562	3	4	111	1	0	0	0	0	1	0	0	0	5692	838	29	2	7207	2	FAT4	4	126355562	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	27013079	126355562	64798714	141	41067										
IRX1	79192	broad.mit.edu	37	chr5	3599417	3599417	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acacggcgccggcttattacCcctacggccagttccaatac	8	16	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:3599417C>T	uc003jde.2	+	2	407	c.355C>T	c.(355-357)CCC>TCC	p.P119S		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	119						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GGCTTATTACCCCTACGGCCA	0.652													35	49	---	---	---	---	PASS	T	3599417	T	T	3599417	3	4	111	1	0	0	0	0	1	0	0	0	7843	623	22	3	361	3	IRX1	5	3599417	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08		3599417	177315843	142	41068										
ADAMTS16	170690	broad.mit.edu	37	chr5	5146263	5146263	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aatatgacctggtctctgccTacgaggttgaccacaggggc	12	11	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:5146263T>A	uc003jdl.2	+	3	334	c.196T>A	c.(196-198)TAC>AAC	p.Y66N	ADAMTS16_uc003jdk.1_Missense_Mutation_p.Y66N|ADAMTS16_uc003jdj.1_Missense_Mutation_p.Y66N	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	66					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GGTCTCTGCCTACGAGGTTGA	0.478													20	81	---	---	---	---	PASS	A	5146263	A	A	5146263	3	1	111	1	0	0	0	0	1	0	0	0	261	1522	53	5	206	5	ADAMTS16	5	5146263	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	1546846	5146263	175768997	143	41069										
CDH18	1016	broad.mit.edu	37	chr5	19473489	19473489	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cttctgatctctgaccctcaTaggcataagtctgaagagag	9	10	4	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:19473489T>G	uc003jgc.2	-	12	2596	c.2219A>C	c.(2218-2220)TAT>TCT	p.Y740S	CDH18_uc003jgd.2_Missense_Mutation_p.Y740S|CDH18_uc011cnm.1_3'UTR	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	740	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CTGACCCTCATAGGCATAAGT	0.488													54	72	---	---	---	---	PASS	G	19473489	G	G	19473489	3	3	111	1	0	0	0	0	1	0	0	0	3103	1406	49	5	157	5	CDH18	5	19473489	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	14327226	19473489	161441771	144	41070										
CDH18	1016	broad.mit.edu	37	chr5	19483469	19483469	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctcctgtactcaaaccagccGaggacaggaaggcttctgca	10	13	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:19483469G>T	uc003jgc.2	-	11	2200	c.1823C>A	c.(1822-1824)TCG>TAG	p.S608*	CDH18_uc003jgd.2_Nonsense_Mutation_p.S608*|CDH18_uc011cnm.1_Silent_p.R572R	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	608	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CAAACCAGCCGAGGACAGGAA	0.517													36	29	---	---	---	---	PASS	T	19483469	T	T	19483469	4	4	111	1	0	0	0	0	0	1	0	0	3103	1059	37	2	557	2	CDH18	5	19483469	Nonsense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	9980	19483469	161431791	145	41071										
CDH12	1010	broad.mit.edu	37	chr5	21752201	21752201	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcacttttgggtttctcagaGccccgatgtcgaaagcctgg	11	11	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:21752201G>A	uc010iuc.2	-	12	2488	c.2030C>T	c.(2029-2031)GCT>GTT	p.A677V	CDH12_uc011cno.1_Missense_Mutation_p.A637V|CDH12_uc003jgk.2_Missense_Mutation_p.A677V|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	677	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						GTTTCTCAGAGCCCCGATGTC	0.473										HNSCC(59;0.17)			17	141	---	---	---	---	PASS	A	21752201	A	A	21752201	3	1	111	1	0	0	0	0	1	0	0	0	3098	971	34	3	358	3	CDH12	5	21752201	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	2268732	21752201	159163059	146	41072										
CDH10	1008	broad.mit.edu	37	chr5	24511481	24511481	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgtgtgtccttctcagtcacGatgtcaaacatatcagtacc	7	11	4	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:24511481G>T	uc003jgr.1	-	6	1289	c.957C>A	c.(955-957)ATC>ATA	p.I319I	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	319	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TCTCAGTCACGATGTCAAACA	0.428										HNSCC(23;0.051)			56	212	---	---	---	---	PASS	T	24511481	T	T	24511481	2	4	111	1	0	0	0	0	0	0	0	1	3096	1048	37	2		2	CDH10	5	24511481	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	2759280	24511481	156403779	147	41073										
CDH10	1008	broad.mit.edu	37	chr5	24511547	24511547	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acttcagcatttttcccagtGtcagcatcagttgctttgac	7	11	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:24511547G>T	uc003jgr.1	-	6	1223	c.891C>A	c.(889-891)GAC>GAA	p.D297E	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	297	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TTTTCCCAGTGTCAGCATCAG	0.413										HNSCC(23;0.051)			27	126	---	---	---	---	PASS	T	24511547	T	T	24511547	3	4	111	1	0	0	0	0	1	0	0	0	3096	1368	48	3	1503	3	CDH10	5	24511547	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	66	24511547	156403713	148	41074										
CDH9	1007	broad.mit.edu	37	chr5	26886102	26886102	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atctacaatggtgaaattcgGattgagagtaaattctggca	10	5	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:26886102G>T	uc003jgs.1	-	10	1772	c.1603C>A	c.(1603-1605)CCG>ACG	p.P535T	CDH9_uc011cnv.1_Missense_Mutation_p.P128T	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	535	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						GTGAAATTCGGATTGAGAGTA	0.318													37	124	---	---	---	---	PASS	T	26886102	T	T	26886102	3	4	111	1	0	0	0	0	1	0	0	0	3117	1174	41	2	778	2	CDH9	5	26886102	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	2374555	26886102	154029158	149	41075										
PDE8B	8622	broad.mit.edu	37	chr5	76714083	76714083	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gatcagttggatgaggtggcAgccctcattgctgccacagt	13	10	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:76714083A>T	uc003kfa.2	+	18	1986	c.1941A>T	c.(1939-1941)GCA>GCT	p.A647A	PDE8B_uc003kfb.2_Silent_p.A627A|PDE8B_uc003kfc.2_Silent_p.A592A|PDE8B_uc003kfd.2_Silent_p.A600A|PDE8B_uc003kfe.2_Silent_p.A550A	NM_003719	NP_003710	O95263	PDE8B_HUMAN	phosphodiesterase 8B isoform 1	647	Catalytic (By similarity).				cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity				0		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)		ATGAGGTGGCAGCCCTCATTG	0.547													20	57	---	---	---	---	PASS	T	76714083	T	T	76714083	2	4	111	1	0	0	0	0	0	0	0	1	11654	175	7	5		5	PDE8B	5	76714083	Silent	SNP	A	TCGA-51-4079-01A-01D-1458-08	49827981	76714083	104201177	150	41076										
CCNH	902	broad.mit.edu	37	chr5	86695249	86695249	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agctcagcagaatgacatcgCtccaacttctgtttcagaac	7	12	3	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:86695249C>T	uc003kjb.2	-	7	1066	c.834G>A	c.(832-834)GAG>GAA	p.E278E	CCNH_uc003kiy.1_RNA|CCNH_uc003kiz.1_Silent_p.E225E|CCNH_uc003kja.2_Silent_p.E225E	NM_001239	NP_001230	P51946	CCNH_HUMAN	cyclin H	278					G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	cyclin-dependent protein kinase activating kinase holoenzyme complex|holo TFIIH complex	protein kinase binding			ovary(2)|kidney(1)	3		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;9.01e-39)|Epithelial(54;5.08e-33)|all cancers(79;4.28e-28)		AATGACATCGCTCCAACTTCT	0.378								Direct_reversal_of_damage|NER					82	143	---	---	---	---	PASS	T	86695249	T	T	86695249	2	4	111	1	0	0	0	0	0	0	0	1	2925	796	28	3		3	CCNH	5	86695249	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	9981166	86695249	94220011	151	41077										
GPR98	84059	broad.mit.edu	37	chr5	89990346	89990346	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	attagtcccaatacttccgaAgatggcttatttgttgaagt	8	7	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:89990346A>T	uc003kju.2	+	33	7869	c.7773A>T	c.(7771-7773)GAA>GAT	p.E2591D	GPR98_uc003kjt.2_Missense_Mutation_p.E297D|GPR98_uc003kjv.2_Missense_Mutation_p.E191D	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2591	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		ATACTTCCGAAGATGGCTTAT	0.458													93	147	---	---	---	---	PASS	T	89990346	T	T	89990346	3	4	111	1	0	0	0	0	1	0	0	0	6721	69	3	5	7903	5	GPR98	5	89990346	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	3295097	89990346	90924914	152	41078										
GPR98	84059	broad.mit.edu	37	chr5	89992782	89992782	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aaaaagacagtcattttaacCatcttggatgactctgaacc	6	9	3	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:89992782C>A	uc003kju.2	+	34	8070	c.7974C>A	c.(7972-7974)ACC>ACA	p.T2658T	GPR98_uc003kjt.2_Silent_p.T364T|GPR98_uc003kjv.2_Silent_p.T258T	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2658	Calx-beta 18.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TCATTTTAACCATCTTGGATG	0.378													19	32	---	---	---	---	PASS	A	89992782	A	A	89992782	2	1	111	1	0	0	0	0	0	0	0	1	6721	581	21	3		3	GPR98	5	89992782	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	2436	89992782	90922478	153	41079										
ELL2	22936	broad.mit.edu	37	chr5	95236684	95236684	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agagcactgactccaatgacCgtctgtctatttcactgtat	7	11	3	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:95236684C>A	uc003klr.3	-	6	1192	c.842G>T	c.(841-843)CGG>CTG	p.R281L		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	281					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex		p.R281W(1)		central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		CTCCAATGACCGTCTGTCTAT	0.328													207	144	---	---	---	---	PASS	A	95236684	A	A	95236684	3	1	111	1	0	0	0	0	1	0	0	0	5063	652	23	1	1108	1	ELL2	5	95236684	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	5243902	95236684	85678576	154	41080										
SLCO6A1	133482	broad.mit.edu	37	chr5	101755709	101755709	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agctggccaagtgcacctccTggaattaaaacaagtcctaa	8	11	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:101755709T>A	uc003knn.2	-	8	1465	c.1293A>T	c.(1291-1293)CCA>CCT	p.P431P	SLCO6A1_uc003kno.2_Intron|SLCO6A1_uc003knp.2_Silent_p.P431P|SLCO6A1_uc003knq.2_Silent_p.P369P	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	431	Helical; Name=8; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		GTGCACCTCCTGGAATTAAAA	0.348													19	29	---	---	---	---	PASS	A	101755709	A	A	101755709	2	1	111	1	0	0	0	0	0	0	0	1	14732	1567	55	5		5	SLCO6A1	5	101755709	Silent	SNP	T	TCGA-51-4079-01A-01D-1458-08	6519025	101755709	79159551	155	41081										
IL9	3578	broad.mit.edu	37	chr5	135231428	135231428	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aggaagttgatgtccaggatCcccgccaaggttggacaccc	12	12	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:135231428C>T	uc003lbb.1	-	1	89	c.78G>A	c.(76-78)GGG>GGA	p.G26G		NM_000590	NP_000581	P15248	IL9_HUMAN	interleukin 9 precursor	26					immune response|inflammatory response|positive regulation of cell proliferation|positive regulation of interleukin-5 biosynthetic process	extracellular space	cytokine activity|cytokine receptor binding|growth factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TGTCCAGGATCCCCGCCAAGG	0.567													36	57	---	---	---	---	PASS	T	135231428	T	T	135231428	2	4	111	1	0	0	0	0	0	0	0	1	7707	842	30	2		2	IL9	5	135231428	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	33475719	135231428	45683832	156	41082										
PCDHB3	56132	broad.mit.edu	37	chr5	140481630	140481630	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cgtccgcgagaacaacagccCcgccctgcacatcggcagtg	11	17	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:140481630C>A	uc003lio.2	+	1	1397	c.1397C>A	c.(1396-1398)CCC>CAC	p.P466H	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	466	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AACAACAGCCCCGCCCTGCAC	0.622													33	75	---	---	---	---	PASS	A	140481630	A	A	140481630	3	1	111	1	0	0	0	0	1	0	0	0	11543	623	22	3	1399	3	PCDHB3	5	140481630	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	5250202	140481630	40433630	157	41083										
PCDHB13	56123	broad.mit.edu	37	chr5	140595824	140595824	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttcggtgctcctgttcgtggCggtgcggctgtgtaggagga	18	8	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:140595824C>A	uc003lja.1	+	1	2316	c.2129C>A	c.(2128-2130)GCG>GAG	p.A710E		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	710	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGTTCGTGGCGGTGCGGCTG	0.677													82	122	---	---	---	---	PASS	A	140595824	A	A	140595824	3	1	111	1	0	0	0	0	1	0	0	0	11538	768	27	1	2131	1	PCDHB13	5	140595824	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	114194	140595824	40319436	158	41084										
RBM27	54439	broad.mit.edu	37	chr5	145649043	145649043	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagaagaaagagcaaatataAtgaagactttgaaagagctt	9	4	0	7			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:145649043A>G	uc003lnz.3	+	17	2753	c.2587A>G	c.(2587-2589)ATG>GTG	p.M863V	RBM27_uc003lny.2_Missense_Mutation_p.M808V	NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	863	Potential.				mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGCAAATATAATGAAGACTTT	0.299													8	22	---	---	---	---	PASS	G	145649043	G	G	145649043	3	3	111	1	0	0	0	0	1	0	0	0	13127	101	4	5	2653	5	RBM27	5	145649043	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	5053219	145649043	35266217	159	41085										
JAKMIP2	9832	broad.mit.edu	37	chr5	147040947	147040947	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcaccagcaccgtgtgcttgCgctgctccagctcacgaatc	9	16	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:147040947C>G	uc003loq.1	-	3	573	c.191G>C	c.(190-192)CGC>CCC	p.R64P	JAKMIP2_uc011dbx.1_Missense_Mutation_p.R22P|JAKMIP2_uc003lor.1_Missense_Mutation_p.R64P|uc003lop.1_3'UTR|JAKMIP2_uc010jgo.1_Missense_Mutation_p.R64P	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	64	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGTGCTTGCGCTGCTCCAG	0.498													61	116	---	---	---	---	PASS	G	147040947	G	G	147040947	3	3	111	1	0	0	0	0	1	0	0	0	7941	768	27	4	2317	4	JAKMIP2	5	147040947	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1391904	147040947	33874313	160	41086										
FAT2	2196	broad.mit.edu	37	chr5	150925635	150925635	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggtaacttcagaggggctcaTagcagagacaaggaggattg	15	6	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr5:150925635T>C	uc003lue.3	-	9	5066	c.5053A>G	c.(5053-5055)ATG>GTG	p.M1685V	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1685	Cadherin 15.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAGGGGCTCATAGCAGAGACA	0.438													34	47	---	---	---	---	PASS	C	150925635	C	C	150925635	3	2	111	1	0	0	0	0	1	0	0	0	5690	1406	49	5	8056	5	FAT2	5	150925635	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	3884688	150925635	29989625	161	41087										
BMP6	654	broad.mit.edu	37	chr6	7862712	7862712	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acccagtcccaggacgtggcGcgggtctccagtgcttcagg	14	14	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:7862712G>C	uc003mxu.3	+	4	1363	c.1185G>C	c.(1183-1185)GCG>GCC	p.A395A		NM_001718	NP_001709	P22004	BMP6_HUMAN	bone morphogenetic protein 6 preproprotein	395					BMP signaling pathway|cartilage development|growth|immune response|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	BMP receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity			large_intestine(2)|ovary(1)	3	Ovarian(93;0.0721)					AGGACGTGGCGCGGGTCTCCA	0.577													14	68	---	---	---	---	PASS	C	7862712	C	C	7862712	2	2	111	1	0	0	0	0	0	0	0	1	1464	1074	38	4		4	BMP6	6	7862712	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08		7862712	163252355	162	41088										
PRL	5617	broad.mit.edu	37	chr6	22292835	22292835	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agtgtggcagctgttgatggCcttggtaatgaacccccggc	14	10	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:22292835C>A	uc003ndp.2	-	3	763	c.244G>T	c.(244-246)GCC>TCC	p.A82S	PRL_uc003ndo.2_Missense_Mutation_p.A83S|PRL_uc003ndq.2_Missense_Mutation_p.A82S	NM_000948	NP_000939	P01236	PRL_HUMAN	prolactin precursor	82					cell proliferation|cell surface receptor linked signaling pathway|female pregnancy|lactation|positive regulation of JAK-STAT cascade|regulation of multicellular organism growth	cytosol|extracellular region	hormone activity|prolactin receptor binding				0	Ovarian(93;0.163)					CTGTTGATGGCCTTGGTAATG	0.478													20	66	---	---	---	---	PASS	A	22292835	A	A	22292835	3	1	111	1	0	0	0	0	1	0	0	0	12528	739	26	3	451	3	PRL	6	22292835	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	14430123	22292835	148822232	163	41089										
NKAPL	222698	broad.mit.edu	37	chr6	28227784	28227784	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagtaactcagagtctgacaCaaattctgactctgatgatg	8	9	4	5			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:28227784C>A	uc003nkt.2	+	1	687	c.635C>A	c.(634-636)ACA>AAA	p.T212K	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	212	Lys-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						GAGTCTGACACAAATTCTGAC	0.249													6	61	---	---	---	---	PASS	A	28227784	A	A	28227784	3	1	111	1	0	0	0	0	1	0	0	0	10440	478	17	3	637	3	NKAPL	6	28227784	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	5934949	28227784	142887283	164	41090										
C6orf25	80739	broad.mit.edu	37	chr6	31692575	31692575	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aaccgagccccagaggccagTaaaggaggaagagcccaaga	13	11	0	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:31692575T>A	uc011doc.1	+	5	575	c.575T>A	c.(574-576)GTA>GAA	p.V192E	C6orf25_uc003nwk.2_Missense_Mutation_p.S198R|C6orf25_uc011dod.1_Missense_Mutation_p.V148E|C6orf25_uc011doe.1_Missense_Mutation_p.V168E|C6orf25_uc003nwo.2_Missense_Mutation_p.S154R|C6orf25_uc003nwn.2_Missense_Mutation_p.S198R	NM_138272	NP_612116	O95866	G6B_HUMAN	G6B protein isoform G6b-B precursor	192	Cytoplasmic (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	heparin binding|receptor activity				0						CAGAGGCCAGTAAAGGAGGAA	0.577													23	59	---	---	---	---	PASS	A	31692575	A	A	31692575	3	1	111	1	0	0	0	0	1	0	0	0	2360	1638	57	5	612	5	C6orf25	6	31692575	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	3464791	31692575	139422492	165	41091										
CFB	629	broad.mit.edu	37	chr6	31895807	31895807	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cttcaccctcagccatggctGggctcctgggagccttctca	10	16	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:31895807G>T	uc011dor.1	+	2	386	c.122G>T	c.(121-123)TGG>TTG	p.W41L	C2_uc003nyc.2_Intron|C2_uc011doo.1_Intron|C2_uc011dop.1_Intron|C2_uc003nye.3_Missense_Mutation_p.W41L|C2_uc003nyf.2_Missense_Mutation_p.W41L|C2_uc010jtk.2_Intron|C2_uc011doq.1_Missense_Mutation_p.G3W|C2_uc003nyg.2_Intron	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						AGCCATGGCTGGGCTCCTGGG	0.632													17	28	---	---	---	---	PASS	T	31895807	T	T	31895807	3	4	111	1	0	0	0	0	1	0	0	0	3278	1357	47	3		3	CFB	6	31895807	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	203232	31895807	139219260	166	41092										
MOCS1	4337	broad.mit.edu	37	chr6	39881519	39881519	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggcaggggcacggcctcaccTtcacagggttgtagcccagc	14	14	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:39881519T>A	uc003opb.2	-	4	782	c.644A>T	c.(643-645)AAG>ATG	p.K215M	MOCS1_uc003opa.2_Missense_Mutation_p.K215M|MOCS1_uc003opc.2_Missense_Mutation_p.K215M|MOCS1_uc003opd.2_Missense_Mutation_p.K215M|MOCS1_uc003ope.2_Missense_Mutation_p.K128M	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	215	Molybdenum cofactor biosynthesis protein A.	GTP (By similarity).			Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding			ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CGGCCTCACCTTCACAGGGTT	0.617													30	46	---	---	---	---	PASS	A	39881519	A	A	39881519	3	1	111	1	0	0	0	0	1	0	0	0	9690	1623	56	5	537	5	MOCS1	6	39881519	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	7985712	39881519	131233548	167	41093										
NFYA	4800	broad.mit.edu	37	chr6	41057378	41057378	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gacaggctgtgcaggtgcagGgccagcagggccagacccag	17	12	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:41057378G>A	uc003opo.2	+	5	548	c.370G>A	c.(370-372)GGC>AGC	p.G124S	NFYA_uc003opp.2_Missense_Mutation_p.G95S|NFYA_uc003opq.2_Missense_Mutation_p.G95S	NM_002505	NP_002496	P23511	NFYA_HUMAN	nuclear transcription factor Y, alpha isoform 1	124	Gln-rich.				transcription from RNA polymerase II promoter	CCAAT-binding factor complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(28;0.0418)|Colorectal(47;0.196)					GCAGGTGCAGGGCCAGCAGGG	0.542													31	89	---	---	---	---	PASS	A	41057378	A	A	41057378	3	1	111	1	0	0	0	0	1	0	0	0	10389	1232	43	3	384	3	NFYA	6	41057378	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	1175859	41057378	130057689	168	41094										
PTK7	5754	broad.mit.edu	37	chr6	43111279	43111279	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gccgtgctgggcctcatgttCtactgcaagaagcgctgcaa	12	12	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:43111279C>T	uc003oub.1	+	14	2370	c.2172C>T	c.(2170-2172)TTC>TTT	p.F724F	PTK7_uc003ouc.1_Silent_p.F668F|PTK7_uc003oud.1_Silent_p.F684F|PTK7_uc003oue.1_Silent_p.F594F|PTK7_uc003ouf.1_RNA|PTK7_uc003oug.1_RNA|PTK7_uc011dve.1_Silent_p.F732F|PTK7_uc010jyj.1_Intron	NM_002821	NP_002812	Q13308	PTK7_HUMAN	PTK7 protein tyrosine kinase 7 isoform a	724	Helical; (Potential).				actin cytoskeleton reorganization|canonical Wnt receptor signaling pathway|cell adhesion|cell migration	cell-cell junction|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			ovary(2)|large_intestine(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00784)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			GCCTCATGTTCTACTGCAAGA	0.632											OREG0017450	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	91	---	---	---	---	PASS	T	43111279	T	T	43111279	2	4	111	1	0	0	0	0	0	0	0	1	12765	912	32	2		2	PTK7	6	43111279	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	2053901	43111279	128003788	169	41095										
CENPQ	55166	broad.mit.edu	37	chr6	49439895	49439895	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctatgatggaatcagtaataAtgtgagtataaaattgttcc	8	4	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:49439895A>T	uc003ozh.1	+	4	366	c.277A>T	c.(277-279)ATG>TTG	p.M93L		NM_018132	NP_060602	Q7L2Z9	CENPQ_HUMAN	centromere protein Q	93					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	chromosome, centromeric region|cytosol|nucleoplasm				ovary(2)	2	Lung NSC(77;0.0128)					ATCAGTAATAATGTGAGTATA	0.343													16	78	---	---	---	---	PASS	T	49439895	T	T	49439895	3	4	111	1	0	0	0	0	1	0	0	0	3241	115	4	5	287	5	CENPQ	6	49439895	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	6328616	49439895	121675172	170	41096										
HMGCLL1	54511	broad.mit.edu	37	chr6	55441932	55441932	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgagaagccagagacatcggGctgaaagcagtgaaggtttg	15	6	0	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:55441932G>T	uc003pcn.2	-	2	301	c.142C>A	c.(142-144)CCC>ACC	p.P48T	HMGCLL1_uc003pco.2_Intron|HMGCLL1_uc010jzx.2_Intron|HMGCLL1_uc011dxc.1_Intron|HMGCLL1_uc011dxd.1_Intron|HMGCLL1_uc011dxe.1_Intron|HMGCLL1_uc003pcp.2_Intron	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	48							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			gagacatcgggctgaaagcag	0													8	14	---	---	---	---	PASS	T	55441932	T	T	55441932	3	4	111	1	0	0	0	0	1	0	0	0	7230	1203	42	3	1006	3	HMGCLL1	6	55441932	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	6002037	55441932	115673135	171	41097										
BAI3	577	broad.mit.edu	37	chr6	69703705	69703705	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agcgaatgctggcaggtgatGgaatgtcccaggtgaccaag	15	8	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:69703705G>T	uc003pev.3	+	11	2228	c.1780G>T	c.(1780-1782)GGA>TGA	p.G594*	BAI3_uc010kak.2_Nonsense_Mutation_p.G594*	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	594	Extracellular (Potential).				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)				GGCAGGTGATGGAATGTCCCA	0.433													79	252	---	---	---	---	PASS	T	69703705	T	T	69703705	4	4	111	1	0	0	0	0	0	1	0	0	1300	1349	47	3	1814	3	BAI3	6	69703705	Nonsense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	14261773	69703705	101411362	172	41098										
IMPG1	3617	broad.mit.edu	37	chr6	76751710	76751710	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aaaaatgcggatctttttgtTcgatgctttgccaaatcgaa	8	7	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:76751710T>A	uc003pik.1	-	2	331	c.201A>T	c.(199-201)CGA>CGT	p.R67R		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	67					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				ATCTTTTTGTTCGATGCTTTG	0.368													52	140	---	---	---	---	PASS	A	76751710	A	A	76751710	2	1	111	1	0	0	0	0	0	0	0	1	7728	1770	62	5		5	IMPG1	6	76751710	Silent	SNP	T	TCGA-51-4079-01A-01D-1458-08	7048005	76751710	94363357	173	41099										
MDN1	23195	broad.mit.edu	37	chr6	90425430	90425430	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atctatcattcctctctcacTaatagtgaggacacctccgg	6	13	4	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:90425430T>A	uc003pnn.1	-	45	6918	c.6802A>T	c.(6802-6804)AGT>TGT	p.S2268C		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2268					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)		CCTCTCTCACTAATAGTGAGG	0.458													57	141	---	---	---	---	PASS	A	90425430	A	A	90425430	3	1	111	1	0	0	0	0	1	0	0	0	9415	1522	53	5	10220	5	MDN1	6	90425430	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	13673720	90425430	80689637	174	41100										
SLC22A16	85413	broad.mit.edu	37	chr6	110777877	110777877	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agtgcttttccatgtgttctGgtcatatatgtagccatcca	8	9	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:110777877G>T	uc003puf.2	-	2	464	c.397C>A	c.(397-399)CAG>AAG	p.Q133K	SLC22A16_uc003pue.2_Missense_Mutation_p.Q114K|SLC22A16_uc003pug.2_Missense_Mutation_p.Q133K	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	133					acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		CATGTGTTCTGGTCATATATG	0.468													41	108	---	---	---	---	PASS	T	110777877	T	T	110777877	3	4	111	1	0	0	0	0	1	0	0	0	14447	1357	47	3	1364	3	SLC22A16	6	110777877	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	20352447	110777877	60337190	175	41101										
GPRC6A	222545	broad.mit.edu	37	chr6	117150012	117150012	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcctggatttgtggtcgtctGggagagtcttctgaggacaa	14	7	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:117150012G>T	uc003pxj.1	-	1	187	c.165C>A	c.(163-165)CCC>CCA	p.P55P	GPRC6A_uc003pxk.1_Silent_p.P55P|GPRC6A_uc003pxl.1_Silent_p.P55P	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	55	Extracellular (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		GTGGTCGTCTGGGAGAGTCTT	0.413													30	80	---	---	---	---	PASS	T	117150012	T	T	117150012	2	4	111	1	0	0	0	0	0	0	0	1	6728	1335	47	3		3	GPRC6A	6	117150012	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	6372135	117150012	53965055	176	41102										
ROS1	6098	broad.mit.edu	37	chr6	117631248	117631248	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtcccgttaaacttaccataCatcagattgagtagtgaaga	8	8	1	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:117631248C>T	uc003pxp.1	-	40	6629	c.6430G>A	c.(6430-6432)GTA>ATA	p.V2144I	ROS1_uc011ebi.1_RNA	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	2144	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		ACTTACCATACATCAGATTGA	0.289			T	GOPC|ROS1	glioblastoma|NSCLC								53	165	---	---	---	---	PASS	T	117631248	T	T	117631248	3	4	111	1	0	0	0	0	1	0	0	0	13531	478	17	3	629	3	ROS1	6	117631248	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	481236	117631248	53483819	177	41103										
BCLAF1	9774	broad.mit.edu	37	chr6	136599627	136599627	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acctagaagatctatatgacCggcgagatctgcttctggat	10	9	3	4	rs149799182		TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:136599627C>G	uc003qgx.1	-	4	645	c.392G>C	c.(391-393)CGG>CCG	p.R131P	BCLAF1_uc003qgw.1_Missense_Mutation_p.R131P|BCLAF1_uc003qgy.1_Missense_Mutation_p.R129P|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.R129P	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	131					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TCTATATGACCGGCGAGATCT	0.448													38	287	---	---	---	---	PASS	G	136599627	G	G	136599627	3	3	111	1	0	0	0	0	1	0	0	0	1383	652	23	4	2410	4	BCLAF1	6	136599627	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	18968379	136599627	34515440	178	41104										
ULBP1	80329	broad.mit.edu	37	chr6	150291168	150291168	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcagaaccaccctctctggcCccaggcacaacccaacccaa	5	20	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:150291168C>T	uc003qnp.2	+	4	685	c.642C>T	c.(640-642)GCC>GCT	p.A214A		NM_025218	NP_079494	Q9BZM6	N2DL1_HUMAN	UL16 binding protein 1 precursor	214					antigen processing and presentation|immune response|natural killer cell activation|regulation of immune response	anchored to membrane|endoplasmic reticulum|MHC class I protein complex	MHC class I receptor activity			pancreas(1)	1		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.14e-11)		CCTCTCTGGCCCCAGGCACAA	0.562													3	29	---	---	---	---	PASS	T	150291168	T	T	150291168	2	4	111	1	0	0	0	0	0	0	0	1	16969	610	22	3		3	ULBP1	6	150291168	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	13691541	150291168	20823899	179	41105										
SYNE1	23345	broad.mit.edu	37	chr6	152712636	152712636	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctgggaacacaggcggccctCctgcccagcaccgtggcctt	12	17	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:152712636C>A	uc010kiw.2	-	52	8382	c.7780G>T	c.(7780-7782)GAG>TAG	p.E2594*	SYNE1_uc003qot.3_Nonsense_Mutation_p.E2601*|SYNE1_uc003qou.3_Nonsense_Mutation_p.E2594*|SYNE1_uc010kjb.1_Nonsense_Mutation_p.E2577*	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2594	Cytoplasmic (Potential).|Spectrin 5.				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)		AGGCGGCCCTCCTGCCCAGCA	0.488										HNSCC(10;0.0054)			17	74	---	---	---	---	PASS	A	152712636	A	A	152712636	4	1	111	1	0	0	0	0	0	1	0	0	15442	864	30	2	19066	2	SYNE1	6	152712636	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	2421468	152712636	18402431	180	41106										
IGF2R	3482	broad.mit.edu	37	chr6	160526034	160526034	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggcgaggaaagggaagtccaGctctgcacagcagaagacag	15	9	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:160526034G>C	uc003qta.2	+	48	7542	c.7394G>C	c.(7393-7395)AGC>ACC	p.S2465T		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	2465	Cytoplasmic (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GGGAAGTCCAGCTCTGCACAG	0.592													24	24	---	---	---	---	PASS	C	160526034	C	C	160526034	3	2	111	1	0	0	0	0	1	0	0	0	7576	971	34	4	7584	4	IGF2R	6	160526034	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	7813398	160526034	10589033	181	41107										
UNC93A	54346	broad.mit.edu	37	chr6	167708167	167708167	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gctacgtggccttctccgtgGgcaacttcttcgccagctgg	12	14	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr6:167708167G>T	uc003qvq.2	+	2	425	c.250G>T	c.(250-252)GGC>TGC	p.G84C	UNC93A_uc003qvr.2_Missense_Mutation_p.G84C	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	84	Helical; (Potential).					integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CTTCTCCGTGGGCAACTTCTT	0.632													54	137	---	---	---	---	PASS	T	167708167	T	T	167708167	3	4	111	1	0	0	0	0	1	0	0	0	16993	1232	43	3	256	3	UNC93A	6	167708167	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	7182133	167708167	3406900	182	41108										
ABCB5	340273	broad.mit.edu	37	chr7	20739496	20739496	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	taaagcatgatgcagaaattTattccatgatattcgtcatt	6	6	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:20739496T>A	uc003suw.3	+	9	1414	c.868T>A	c.(868-870)TAT>AAT	p.Y290N	ABCB5_uc010kuh.2_Missense_Mutation_p.Y735N	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	290	Cytoplasmic (Potential).|ABC transmembrane type-1.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						TGCAGAAATTTATTCCATGAT	0.313													16	52	---	---	---	---	PASS	A	20739496	A	A	20739496	3	1	111	1	0	0	0	0	1	0	0	0	44	1754	61	5	2310	5	ABCB5	7	20739496	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08		20739496	138399167	183	41109										
DNAH11	8701	broad.mit.edu	37	chr7	21640295	21640295	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtgttttcctctcatttagaAtgatatggataacatgttag	8	5	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:21640295A>G	uc003svc.2	+	16	3033	c.3002A>G	c.(3001-3003)AAT>AGT	p.N1001S		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1001	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTCATTTAGAATGATATGGAT	0.388									Kartagener_syndrome				67	217	---	---	---	---	PASS	G	21640295	G	G	21640295	3	3	111	1	0	0	0	0	1	0	0	0	4599	115	4	5	3064	5	DNAH11	7	21640295	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	900799	21640295	137498368	184	41110										
DNAH11	8701	broad.mit.edu	37	chr7	21775274	21775274	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccagacagttctcgttcacaCaacagagacagctcgtctta	7	13	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:21775274C>A	uc003svc.2	+	47	7509	c.7478C>A	c.(7477-7479)ACA>AAA	p.T2493K		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2493	AAA 3 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTCGTTCACACAACAGAGACA	0.289									Kartagener_syndrome				6	13	---	---	---	---	PASS	A	21775274	A	A	21775274	3	1	111	1	0	0	0	0	1	0	0	0	4599	478	17	3	7661	3	DNAH11	7	21775274	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	134979	21775274	137363389	185	41111										
HOXA1	3198	broad.mit.edu	37	chr7	27135018	27135018	+	Missense_Mutation	SNP	C	A	A													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gttattatacgtagccagggCcaggctctggtgctcctgtc							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:27135018C>A	uc003sye.2	-	1	608	c.514G>T	c.(514-516)GCC>TCC	p.A172S	HOXA1_uc003syd.2_Intron|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	172						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3						GTAGCCAGGGCCAGGCTCTGG	0.592													47	135	---	---	---	---	PASS	A	27135018	A	A	27135018	3	1	111	1	0	0	0	0	1	0	0	0	7288	739	26	3	501	3	HOXA1	7	27135018	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	5359744	27135018	132003645	186	41112	767	2								
HOXA1	3198	broad.mit.edu	37	chr7	27135019	27135019	+	Silent	SNP	C	A	A													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttattatacgtagccagggcCaggctctggtgctcctgtcc							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:27135019C>A	uc003sye.2	-	1	607	c.513G>T	c.(511-513)CTG>CTT	p.L171L	HOXA1_uc003syd.2_Intron|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	171						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3						TAGCCAGGGCCAGGCTCTGGT	0.597													47	139	---	---	---	---	PASS	A	27135019	A	A	27135019	2	1	111	1	0	0	0	0	0	0	0	1	7288	581	21	3		3	HOXA1	7	27135019	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	1	27135019	132003644	187	41113	767	2								
CREB5	9586	broad.mit.edu	37	chr7	28844106	28844106	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gcacatcaccagacctcgccAcatccgcccctgcacaccgg	7	21	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:28844106A>T	uc003szq.2	+	8	1383	c.993A>T	c.(991-993)CCA>CCT	p.P331P	CREB5_uc003szo.2_Silent_p.P298P|CREB5_uc003szr.2_Silent_p.P324P|CREB5_uc003szs.2_Silent_p.P192P	NM_182898	NP_878901	Q02930	CREB5_HUMAN	cAMP responsive element binding protein 5	331					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						AGACCTCGCCACATCCGCCCC	0.318													53	185	---	---	---	---	PASS	T	28844106	T	T	28844106	2	4	111	1	0	0	0	0	0	0	0	1	3860	146	6	5		5	CREB5	7	28844106	Silent	SNP	A	TCGA-51-4079-01A-01D-1458-08	1709087	28844106	130294557	188	41114										
CREB5	9586	broad.mit.edu	37	chr7	28848876	28848876	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agcccacaggggggcgccggCgaagggtggtagacgaggat	20	9	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:28848876C>G	uc003szq.2	+	9	1489	c.1099C>G	c.(1099-1101)CGA>GGA	p.R367G	CREB5_uc003szo.2_Missense_Mutation_p.R334G|CREB5_uc003szr.2_Missense_Mutation_p.R360G|CREB5_uc003szs.2_Missense_Mutation_p.R228G	NM_182898	NP_878901	Q02930	CREB5_HUMAN	cAMP responsive element binding protein 5	367					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						GGGGCGCCGGCGAAGGGTGGT	0.627													24	56	---	---	---	---	PASS	G	28848876	G	G	28848876	3	3	111	1	0	0	0	0	1	0	0	0	3860	760	27	4	1184	4	CREB5	7	28848876	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	4770	28848876	130289787	189	41115										
GPR141	353345	broad.mit.edu	37	chr7	37780665	37780665	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cccaccaggagttctgggctCagctgaaaaacctatttttt	8	11	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:37780665C>T	uc003tfm.1	+	1	670	c.670C>T	c.(670-672)CAG>TAG	p.Q224*	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	224	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						GTTCTGGGCTCAGCTGAAAAA	0.438													62	156	---	---	---	---	PASS	T	37780665	T	T	37780665	4	4	111	1	0	0	0	0	0	1	0	0	6649	827	29	2	672	2	GPR141	7	37780665	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	8931789	37780665	121357998	190	41116										
RALA	5898	broad.mit.edu	37	chr7	39736308	39736308	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagattttaagagtaaaagaAgatgagaatgttccatttct	8	4	1	5			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:39736308A>T	uc003thd.2	+	4	648	c.348A>T	c.(346-348)GAA>GAT	p.E116D		NM_005402	NP_005393	P11233	RALA_HUMAN	ras related v-ral simian leukemia viral oncogene	116					actin cytoskeleton reorganization|cell cycle|chemotaxis|cytokinesis|exocytosis|interspecies interaction between organisms|membrane raft localization|nerve growth factor receptor signaling pathway|positive regulation of filopodium assembly|Ras protein signal transduction|regulation of exocytosis	cell surface|cleavage furrow|cytosol|midbody|plasma membrane	Edg-2 lysophosphatidic acid receptor binding|GTP binding|GTPase activity			lung(1)|skin(1)	2						GAGTAAAAGAAGATGAGAATG	0.264													19	50	---	---	---	---	PASS	T	39736308	T	T	39736308	3	4	111	1	0	0	0	0	1	0	0	0	13010	69	3	5	358	5	RALA	7	39736308	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	1955643	39736308	119402355	191	41117										
GLI3	2737	broad.mit.edu	37	chr7	42006047	42006047	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cctgtgacgcctcgctggagCggcggctggagaagcagggc	18	12	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:42006047C>A	uc011kbh.1	-	15	2715	c.2624G>T	c.(2623-2625)CGC>CTC	p.R875L	GLI3_uc011kbg.1_Missense_Mutation_p.R816L	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	875					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CTCGCTGGAGCGGCGGCTGGA	0.687									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				10	18	---	---	---	---	PASS	A	42006047	A	A	42006047	3	1	111	1	0	0	0	0	1	0	0	0	6439	768	27	1	2122	1	GLI3	7	42006047	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	2269739	42006047	117132616	192	41118										
BAZ1B	9031	broad.mit.edu	37	chr7	72907247	72907247	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cgtggcgatctacgtgctctGtcatctagtcaaatcataga	9	10	6	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:72907247G>A	uc003tyc.2	-	5	921	c.576C>T	c.(574-576)GAC>GAT	p.D192D		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	192	Mediates the tyrosine-protein kinase activity.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				TACGTGCTCTGTCATCTAGTC	0.269													12	50	---	---	---	---	PASS	A	72907247	A	A	72907247	2	1	111	1	0	0	0	0	0	0	0	1	1330	1368	48	3		3	BAZ1B	7	72907247	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	30901200	72907247	86231416	193	41119										
PCLO	27445	broad.mit.edu	37	chr7	82585984	82585984	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tttcttttctgacttttcatCagcaagtgtacttgcttgag	7	8	4	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:82585984C>T	uc003uhx.2	-	5	4574	c.4285G>A	c.(4285-4287)GAT>AAT	p.D1429N	PCLO_uc003uhv.2_Missense_Mutation_p.D1429N	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1360					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GACTTTTCATCAGCAAGTGTA	0.403													38	98	---	---	---	---	PASS	T	82585984	T	T	82585984	3	4	111	1	0	0	0	0	1	0	0	0	11583	826	29	2	11244	2	PCLO	7	82585984	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	9678737	82585984	76552679	194	41120										
KIAA1324L	222223	broad.mit.edu	37	chr7	86522259	86522259	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tttgattctttttccagaagTagcaggtcagagccaccagc	9	10	2	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:86522259T>A	uc011kha.1	-	20	3028	c.2843A>T	c.(2842-2844)TAC>TTC	p.Y948F	KIAA1324L_uc003uif.1_Missense_Mutation_p.Y708F|KIAA1324L_uc011kgz.1_Missense_Mutation_p.Y834F|KIAA1324L_uc003uie.2_Missense_Mutation_p.Y781F	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	948	Helical; (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					TTTCCAGAAGTAGCAGGTCAG	0.443													43	91	---	---	---	---	PASS	A	86522259	A	A	86522259	3	1	111	1	0	0	0	0	1	0	0	0	8224	1638	57	5	258	5	KIAA1324L	7	86522259	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	3936275	86522259	72616404	195	41121										
PDK4	5166	broad.mit.edu	37	chr7	95222082	95222082	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gctaacttactgtgctggttCatcagcatccgagtagaaat	9	9	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:95222082C>A	uc003uoa.2	-	4	839	c.519G>T	c.(517-519)ATG>ATT	p.M173I	PDK4_uc003unz.2_5'Flank	NM_002612	NP_002603	Q16654	PDK4_HUMAN	pyruvate dehydrogenase kinase 4 precursor	173	Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity				0	all_cancers(62;1.06e-10)|all_epithelial(64;1.04e-09)|Lung NSC(181;0.128)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0151)			TGTGCTGGTTCATCAGCATCC	0.383													28	92	---	---	---	---	PASS	A	95222082	A	A	95222082	3	1	111	1	0	0	0	0	1	0	0	0	11678	826	29	2	748	2	PDK4	7	95222082	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	8699823	95222082	63916581	196	41122										
ARPC1A	10552	broad.mit.edu	37	chr7	98957174	98957174	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gagtcttgtttcagggccatGactgctgcccaatgctcttt	10	11	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:98957174G>A	uc003upx.1	+	8	943	c.796G>A	c.(796-798)GAC>AAC	p.D266N	ARPC1A_uc010lfu.1_RNA|ARPC1A_uc003upy.1_Missense_Mutation_p.D252N|ARPC1A_uc011kit.1_RNA	NM_006409	NP_006400	Q92747	ARC1A_HUMAN	actin related protein 2/3 complex subunit 1A	266	WD 5.				actin cytoskeleton organization|regulation of actin filament polymerization	actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	all_cancers(62;4.46e-09)|all_epithelial(64;3.44e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0258)		STAD - Stomach adenocarcinoma(171;0.215)			TCAGGGCCATGACTGCTGCCC	0.532													12	32	---	---	---	---	PASS	A	98957174	A	A	98957174	3	1	111	1	0	0	0	0	1	0	0	0	969	1290	45	2	822	2	ARPC1A	7	98957174	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	3735092	98957174	60181489	197	41123										
LRRN3	54674	broad.mit.edu	37	chr7	110763987	110763987	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acatgaacaaaaccaacattCgattcatggagccagattca	6	10	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:110763987C>T	uc003vft.3	+	4	2205	c.1159C>T	c.(1159-1161)CGA>TGA	p.R387*	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Nonsense_Mutation_p.R387*|LRRN3_uc003vfs.3_Nonsense_Mutation_p.R387*	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	387	Extracellular (Potential).|LRRCT.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		AACCAACATTCGATTCATGGA	0.453													26	67	---	---	---	---	PASS	T	110763987	T	T	110763987	4	4	111	1	0	0	0	0	0	1	0	0	9036	876	31	2	1161	2	LRRN3	7	110763987	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	11806813	110763987	48374676	198	41124										
DOCK4	9732	broad.mit.edu	37	chr7	111509672	111509672	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcttgccgctctgcttctgtGatccggtccacgtaccattt	8	14	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:111509672G>T	uc003vfx.2	-	21	2336	c.2067C>A	c.(2065-2067)ATC>ATA	p.I689I	DOCK4_uc003vfw.2_Silent_p.I130I|DOCK4_uc003vfy.2_Silent_p.I689I|DOCK4_uc003vga.1_Silent_p.I294I	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	689					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				CTGCTTCTGTGATCCGGTCCA	0.423													19	50	---	---	---	---	PASS	T	111509672	T	T	111509672	2	4	111	1	0	0	0	0	0	0	0	1	4689	1280	45	2		2	DOCK4	7	111509672	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	745685	111509672	47628991	199	41125										
KCND2	3751	broad.mit.edu	37	chr7	119915291	119915291	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgccgtctctgtcatcgcgaAtgtggtggaaacagtgccgt	13	10	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:119915291A>T	uc003vjj.1	+	1	1570	c.605A>T	c.(604-606)AAT>ATT	p.N202I		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	202	Helical; Name=Segment S1; (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					GTCATCGCGAATGTGGTGGAA	0.572													26	85	---	---	---	---	PASS	T	119915291	T	T	119915291	3	4	111	1	0	0	0	0	1	0	0	0	8019	101	4	5	607	5	KCND2	7	119915291	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	8405619	119915291	39223372	200	41126										
ZNF800	168850	broad.mit.edu	37	chr7	127026190	127026190	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgctgtaacaaaggaggatcTccaggttccaggatataaac	10	8	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:127026190T>A	uc003vlx.1	-	3	344	c.81A>T	c.(79-81)GGA>GGT	p.G27G	ZNF800_uc003vlw.1_5'UTR|ZNF800_uc003vly.1_Silent_p.G27G|ZNF800_uc010lla.2_Silent_p.G27G	NM_176814	NP_789784	Q2TB10	ZN800_HUMAN	zinc finger protein 800	27					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAGGAGGATCTCCAGGTTCCA	0.353													40	104	---	---	---	---	PASS	A	127026190	A	A	127026190	2	1	111	1	0	0	0	0	0	0	0	1	18166	1538	54	5		5	ZNF800	7	127026190	Silent	SNP	T	TCGA-51-4079-01A-01D-1458-08	7110899	127026190	32112473	201	41127										
OR6B1	135946	broad.mit.edu	37	chr7	143701707	143701707	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tttatcctggcactggtcatCttcctattcccactctttat	4	13	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:143701707C>T	uc003wdt.1	+	1	618	c.618C>T	c.(616-618)ATC>ATT	p.I206I		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	206	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					CACTGGTCATCTTCCTATTCC	0.458													54	169	---	---	---	---	PASS	T	143701707	T	T	143701707	2	4	111	1	0	0	0	0	0	0	0	1	11187	903	32	2		2	OR6B1	7	143701707	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	16675517	143701707	15436956	202	41128										
OR2A5	393046	broad.mit.edu	37	chr7	143747840	143747840	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acactgagtgtctcatcttgGtaatgatgtcctacgatcgg	10	9	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:143747840G>C	uc011ktw.1	+	1	346	c.346G>C	c.(346-348)GTA>CTA	p.V116L		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					TCTCATCTTGGTAATGATGTC	0.453													100	233	---	---	---	---	PASS	C	143747840	C	C	143747840	3	2	111	1	0	0	0	0	1	0	0	0	10981	1261	44	4	348	4	OR2A5	7	143747840	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	46133	143747840	15390823	203	41129										
CNTNAP2	26047	broad.mit.edu	37	chr7	146997380	146997380	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggcgagaagtacttttttgGaggtaagaatgccattcctt	11	6	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr7:146997380G>C	uc003weu.1	+	9	2012	c.1496G>C	c.(1495-1497)GGA>GCA	p.G499A		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	499	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TACTTTTTTGGAGGTAAGAAT	0.348										HNSCC(39;0.1)			34	67	---	---	---	---	PASS	C	146997380	C	C	146997380	3	2	111	1	0	0	0	0	1	0	0	0	3647	1174	41	2	1530	2	CNTNAP2	7	146997380	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	3249540	146997380	12141283	204	41130										
MYOM2	9172	broad.mit.edu	37	chr8	2050546	2050546	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aagccctcagacacgtcggaGcctgtgctggtagaggcgag	15	11	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:2050546G>T	uc003wpx.3	+	21	2847	c.2709G>T	c.(2707-2709)GAG>GAT	p.E903D	MYOM2_uc011kwi.1_Missense_Mutation_p.E328D	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	903	Fibronectin type-III 5.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		ACACGTCGGAGCCTGTGCTGG	0.498													23	40	---	---	---	---	PASS	T	2050546	T	T	2050546	3	4	111	1	0	0	0	0	1	0	0	0	10092	962	34	3	2787	3	MYOM2	8	2050546	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08		2050546	144313476	205	41131										
MSR1	4481	broad.mit.edu	37	chr8	16026114	16026114	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccctggactgaggaaaacaaGgtacttagctgcagaagaat	11	8	0	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:16026114G>T	uc003wwz.2	-	4	681	c.483C>A	c.(481-483)ACC>ACA	p.T161T	MSR1_uc010lsu.2_Silent_p.T179T|MSR1_uc003wxa.2_Silent_p.T161T|MSR1_uc003wxb.2_Silent_p.T161T|MSR1_uc011kxz.1_Intron	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	161	Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		AGGAAAACAAGGTACTTAGCT	0.388													41	145	---	---	---	---	PASS	T	16026114	T	T	16026114	2	4	111	1	0	0	0	0	0	0	0	1	9886	987	35	3		3	MSR1	8	16026114	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	13975568	16026114	130337908	206	41132										
LZTS1	11178	broad.mit.edu	37	chr8	20112616	20112616	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcttgaggtgggaggacttgCgcagcttgtactgcgaagcc	15	9	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:20112616C>T	uc003wzr.2	-	1	188	c.77G>A	c.(76-78)CGC>CAC	p.R26H	LZTS1_uc010ltg.1_Missense_Mutation_p.R26H	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	26					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		GGAGGACTTGCGCAGCTTGTA	0.612													7	100	---	---	---	---	PASS	T	20112616	T	T	20112616	3	4	111	1	0	0	0	0	1	0	0	0	9138	768	27	1	1725	1	LZTS1	8	20112616	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	4086502	20112616	126251406	207	41133										
CDCA2	157313	broad.mit.edu	37	chr8	25323754	25323754	+	Missense_Mutation	SNP	G	T	T													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gaatatcagccttccagtcaGcttttcactccataaaggaa							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:25323754G>T	uc003xep.1	+	5	930	c.451G>T	c.(451-453)GCT>TCT	p.A151S	PPP2R2A_uc003xek.2_Intron|CDCA2_uc011lae.1_Missense_Mutation_p.A151S|CDCA2_uc003xeq.1_Missense_Mutation_p.A136S|CDCA2_uc003xer.1_5'Flank	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	151					cell division|mitosis	cytoplasm|nucleus					0		all_cancers(63;0.0378)|Ovarian(32;0.000878)|all_epithelial(46;0.0162)|Breast(100;0.0164)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.022)|Epithelial(17;1.37e-11)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0443)		CTTCCAGTCAGCTTTTCACTC	0.408													9	74	---	---	---	---	PASS	T	25323754	T	T	25323754	3	4	111	1	0	0	0	0	1	0	0	0	3086	971	34	3	465	3	CDCA2	8	25323754	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	5211138	25323754	121040268	208	41134	768	2								
CDCA2	157313	broad.mit.edu	37	chr8	25323755	25323755	+	Missense_Mutation	SNP	C	A	A													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aatatcagccttccagtcagCttttcactccataaaggaaa							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:25323755C>A	uc003xep.1	+	5	931	c.452C>A	c.(451-453)GCT>GAT	p.A151D	PPP2R2A_uc003xek.2_Intron|CDCA2_uc011lae.1_Missense_Mutation_p.A151D|CDCA2_uc003xeq.1_Missense_Mutation_p.A136D|CDCA2_uc003xer.1_5'Flank	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	151					cell division|mitosis	cytoplasm|nucleus					0		all_cancers(63;0.0378)|Ovarian(32;0.000878)|all_epithelial(46;0.0162)|Breast(100;0.0164)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.022)|Epithelial(17;1.37e-11)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0443)		TTCCAGTCAGCTTTTCACTCC	0.403													8	75	---	---	---	---	PASS	A	25323755	A	A	25323755	3	1	111	1	0	0	0	0	1	0	0	0	3086	797	28	3	466	3	CDCA2	8	25323755	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1	25323755	121040267	209	41135	768	2								
POTEA	340441	broad.mit.edu	37	chr8	43197382	43197382	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgatgacataacatggccatCagaaatagcgtcagaggatt	10	7	2	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:43197382C>G	uc003xpz.1	+	11	1314	c.1271C>G	c.(1270-1272)TCA>TGA	p.S424*	POTEA_uc003xqa.1_Nonsense_Mutation_p.S378*	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	424										ovary(1)	1						ACATGGCCATCAGAAATAGCG	0.338													28	85	---	---	---	---	PASS	G	43197382	G	G	43197382	4	3	111	1	0	0	0	0	0	1	0	0	12261	838	29	2	1313	2	POTEA	8	43197382	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	17873627	43197382	103166640	210	41136										
PXDNL	137902	broad.mit.edu	37	chr8	52321288	52321288	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggtgtgcatggcggccagagCcagatgctcgttggcccggt	17	11	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:52321288C>A	uc003xqu.3	-	17	2997	c.2896G>T	c.(2896-2898)GCT>TCT	p.A966S	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	966					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GCGGCCAGAGCCAGATGCTCG	0.642													4	17	---	---	---	---	PASS	A	52321288	A	A	52321288	3	1	111	1	0	0	0	0	1	0	0	0	12848	739	26	3	1523	3	PXDNL	8	52321288	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	9123906	52321288	94042734	211	41137										
NPBWR1	2831	broad.mit.edu	37	chr8	53852521	53852521	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gccaacgcatcgggcccggaCccggcgctgagctgctccaa	13	17	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:53852521C>A	uc011ldu.1	+	1	54	c.54C>A	c.(52-54)GAC>GAA	p.D18E		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	18	Extracellular (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				CGGGCCCGGACCCGGCGCTGA	0.716													16	25	---	---	---	---	PASS	A	53852521	A	A	53852521	3	1	111	1	0	0	0	0	1	0	0	0	10568	506	18	3	56	3	NPBWR1	8	53852521	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1531233	53852521	92511501	212	41138										
RUNX1T1	862	broad.mit.edu	37	chr8	93003903	93003903	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtccctgaggtccctgtggcTggggtgtcgataggagtccc	16	11	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:93003903T>A	uc003yfd.2	-	6	1039	c.955A>T	c.(955-957)AGC>TGC	p.S319C	RUNX1T1_uc003yfc.1_Missense_Mutation_p.S292C|RUNX1T1_uc003yfe.1_Missense_Mutation_p.S282C|RUNX1T1_uc010mao.2_Missense_Mutation_p.S292C|RUNX1T1_uc011lgi.1_Missense_Mutation_p.S330C|RUNX1T1_uc010man.1_5'UTR|RUNX1T1_uc003yfb.1_Missense_Mutation_p.S282C	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	319					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			TCCCTGTGGCTGGGGTGTCGA	0.537													48	121	---	---	---	---	PASS	A	93003903	A	A	93003903	3	1	111	1	0	0	0	0	1	0	0	0	13747	1580	55	5	883	5	RUNX1T1	8	93003903	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	39151382	93003903	53360119	213	41139										
POP1	10940	broad.mit.edu	37	chr8	99170282	99170282	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gctgtggtcaggccctctgcCgcgtgtgacgttgcactgct	14	13	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:99170282C>T	uc003yij.3	+	16	2958	c.2858C>T	c.(2857-2859)CCG>CTG	p.P953L	POP1_uc011lgv.1_Missense_Mutation_p.P953L|POP1_uc003yik.2_Missense_Mutation_p.P953L	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	953					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			GGCCCTCTGCCGCGTGTGACG	0.582													81	177	---	---	---	---	PASS	T	99170282	T	T	99170282	3	4	111	1	0	0	0	0	1	0	0	0	12251	652	23	1	2916	1	POP1	8	99170282	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	6166379	99170282	47193740	214	41140										
DPYS	1807	broad.mit.edu	37	chr8	105405140	105405140	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tttgcctcttgaaatagtcaCaaggggcaccccgtggcaaa	10	11	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:105405140C>T	uc003yly.3	-	8	1444	c.1315G>A	c.(1315-1317)GTG>ATG	p.V439M	DPYS_uc010mcf.1_Missense_Mutation_p.V9M	NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	439					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GAAATAGTCACAAGGGGCACC	0.428													58	126	---	---	---	---	PASS	T	105405140	T	T	105405140	3	4	111	1	0	0	0	0	1	0	0	0	4746	478	17	3	252	3	DPYS	8	105405140	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	6234858	105405140	40958882	215	41141										
EIF3E	3646	broad.mit.edu	37	chr8	109241376	109241376	+	Missense_Mutation	SNP	C	A	A													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctgcattaagatttcagaggCcagctttccccagagtgaac							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:109241376C>A	uc003ymu.2	-	6	548	c.520G>T	c.(520-522)GCC>TCC	p.A174S	EIF3E_uc003ymt.2_Missense_Mutation_p.A125S|EIF3E_uc003ymv.2_Missense_Mutation_p.A81S|EIF3E_uc010mci.1_Missense_Mutation_p.A174S	NM_001568	NP_001559	P60228	EIF3E_HUMAN	eukaryotic translation initiation factor 3,	174	Sufficient for interaction with TRIM27.				negative regulation of translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|eukaryotic translation initiation factor 3 complex|PML body	protein N-terminus binding			ovary(2)|kidney(1)	3			OV - Ovarian serous cystadenocarcinoma(57;6.84e-10)			ATTTCAGAGGCCAGCTTTCCC	0.358													27	104	---	---	---	---	PASS	A	109241376	A	A	109241376	3	1	111	1	0	0	0	0	1	0	0	0	5015	739	26	3	849	3	EIF3E	8	109241376	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	3836236	109241376	37122646	216	41142	769	2								
EIF3E	3646	broad.mit.edu	37	chr8	109241378	109241378	+	Missense_Mutation	SNP	A	G	G													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gcattaagatttcagaggccAgctttccccagagtgaactt							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:109241378A>G	uc003ymu.2	-	6	546	c.518T>C	c.(517-519)CTG>CCG	p.L173P	EIF3E_uc003ymt.2_Missense_Mutation_p.L124P|EIF3E_uc003ymv.2_Missense_Mutation_p.L80P|EIF3E_uc010mci.1_Missense_Mutation_p.L173P	NM_001568	NP_001559	P60228	EIF3E_HUMAN	eukaryotic translation initiation factor 3,	173	Sufficient for interaction with TRIM27.				negative regulation of translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|eukaryotic translation initiation factor 3 complex|PML body	protein N-terminus binding			ovary(2)|kidney(1)	3			OV - Ovarian serous cystadenocarcinoma(57;6.84e-10)			TTCAGAGGCCAGCTTTCCCCA	0.358													28	104	---	---	---	---	PASS	G	109241378	G	G	109241378	3	3	111	1	0	0	0	0	1	0	0	0	5015	188	7	5	851	5	EIF3E	8	109241378	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	2	109241378	37122644	217	41143	769	2								
CSMD3	114788	broad.mit.edu	37	chr8	113277673	113277673	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cattactccactccatgtgcCattaattgtacaagtcctga	5	12	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:113277673C>A	uc003ynu.2	-	60	9814	c.9655G>T	c.(9655-9657)GGC>TGC	p.G3219C	CSMD3_uc003yns.2_Missense_Mutation_p.G2421C|CSMD3_uc003ynt.2_Missense_Mutation_p.G3179C|CSMD3_uc011lhx.1_Missense_Mutation_p.G3050C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3219	Extracellular (Potential).|Sushi 24.					integral to membrane|plasma membrane		p.T3214_W3221del(1)		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						CTCCATGTGCCATTAATTGTA	0.348										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			47	116	---	---	---	---	PASS	A	113277673	A	A	113277673	3	1	111	1	0	0	0	0	1	0	0	0	3946	594	21	3	1516	3	CSMD3	8	113277673	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	4036295	113277673	33086349	218	41144										
SLC30A8	169026	broad.mit.edu	37	chr8	118173999	118173999	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	taactgtggttttgcaccagAgatgccttggccacaatcac	9	11	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:118173999A>T	uc003yoh.2	+	5	825	c.595A>T	c.(595-597)AGA>TGA	p.R199*	SLC30A8_uc010mcz.2_Nonsense_Mutation_p.R150*|SLC30A8_uc011lia.1_Nonsense_Mutation_p.R150*|SLC30A8_uc003yog.2_Nonsense_Mutation_p.R150*	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	199	HXXXXX[HY]NH-motif.|Cytoplasmic (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			TTTGCACCAGAGATGCCTTGG	0.458													24	78	---	---	---	---	PASS	T	118173999	T	T	118173999	4	4	111	1	0	0	0	0	0	1	0	0	14561	296	11	5	613	5	SLC30A8	8	118173999	Nonsense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	4896326	118173999	28190023	219	41145										
ATAD2	29028	broad.mit.edu	37	chr8	124382061	124382061	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agagtatgtatagcacttacTttccaatggagcctgatagt	9	7	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:124382061T>G	uc003yqh.3	-	7	1039	c.931A>C	c.(931-933)AAA>CAA	p.K311Q	ATAD2_uc011lii.1_Missense_Mutation_p.K102Q|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.K311Q	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	311					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TAGCACTTACTTTCCAATGGA	0.254													26	70	---	---	---	---	PASS	G	124382061	G	G	124382061	3	3	111	1	0	0	0	0	1	0	0	0	1071	1623	56	5	3329	5	ATAD2	8	124382061	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	6208062	124382061	21981961	220	41146										
FER1L6	654463	broad.mit.edu	37	chr8	125076747	125076747	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cctggttgacgtccctgactCatccccgatgctggagcctg	11	15	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:125076747C>T	uc003yqw.2	+	26	3694	c.3488C>T	c.(3487-3489)TCA>TTA	p.S1163L	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1163	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			GTCCCTGACTCATCCCCGATG	0.552													39	56	---	---	---	---	PASS	T	125076747	T	T	125076747	3	4	111	1	0	0	0	0	1	0	0	0	5815	838	29	2	3586	2	FER1L6	8	125076747	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	694686	125076747	21287275	221	41147										
TSNARE1	203062	broad.mit.edu	37	chr8	143381929	143381929	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccgggagcagcgcctgctccTggccctgccacatgttgtca	12	16	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:143381929T>A	uc003ywk.2	-	10	1326	c.1208A>T	c.(1207-1209)CAG>CTG	p.Q403L	TSNARE1_uc011lju.1_Missense_Mutation_p.Q402L|TSNARE1_uc003ywj.2_Missense_Mutation_p.Q404L|TSNARE1_uc003ywl.3_Missense_Mutation_p.Q184L	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	403					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CGCCTGCTCCTGGCCCTGCCA	0.617													28	78	---	---	---	---	PASS	A	143381929	A	A	143381929	3	1	111	1	0	0	0	0	1	0	0	0	16627	1580	55	5	349	5	TSNARE1	8	143381929	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	18305182	143381929	2982093	222	41148										
BAI1	575	broad.mit.edu	37	chr8	143558872	143558872	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	caacccctgtgagggccctgAgaagcaaaccaagttctgca	10	13	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:143558872A>T	uc003ywm.2	+	5	1532	c.1349A>T	c.(1348-1350)GAG>GTG	p.E450V		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	450	Extracellular (Potential).|TSP type-1 3.				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GAGGGCCCTGAGAAGCAAACC	0.652													27	67	---	---	---	---	PASS	T	143558872	T	T	143558872	3	4	111	1	0	0	0	0	1	0	0	0	1298	304	11	5	1367	5	BAI1	8	143558872	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	176943	143558872	2805150	223	41149										
CYP11B1	1584	broad.mit.edu	37	chr8	143960537	143960537	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggggatgcaggctgtccacCtgttgcagcttctccacgtc	12	13	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:143960537C>A	uc003yxi.2	-	2	313	c.306G>T	c.(304-306)CAG>CAT	p.Q102H	CYP11B1_uc003yxh.2_5'Flank|CYP11B1_uc003yxj.2_Missense_Mutation_p.Q102H|CYP11B1_uc010mey.2_Missense_Mutation_p.Q147H	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	102					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	GGCTGTCCACCTGTTGCAGCT	0.617									Familial_Hyperaldosteronism_type_I				35	57	---	---	---	---	PASS	A	143960537	A	A	143960537	3	1	111	1	0	0	0	0	1	0	0	0	4145	680	24	3	1237	3	CYP11B1	8	143960537	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	401665	143960537	2403485	224	41150										
OPLAH	26873	broad.mit.edu	37	chr8	145106851	145106851	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggccggaaggcgcggcgctcGgtcagcactgacagcagcgc	17	14	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr8:145106851G>A	uc003zar.3	-	26	3670	c.3588C>T	c.(3586-3588)ACC>ACT	p.T1196T		NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	1196							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	CGCGGCGCTCGGTCAGCACTG	0.642													3	5	---	---	---	---	PASS	A	145106851	A	A	145106851	2	1	111	1	0	0	0	0	0	0	0	1	10876	1116	39	1		1	OPLAH	8	145106851	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	1146314	145106851	1257171	225	41151										
FREM1	158326	broad.mit.edu	37	chr9	14841455	14841455	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agtctcttacctgtggcactGaaagatttggaggttcatgg	12	7	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:14841455G>A	uc003zlm.2	-	10	2461	c.1871C>T	c.(1870-1872)TCA>TTA	p.S624L	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	624	CSPG 4.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		CTGTGGCACTGAAAGATTTGG	0.249													23	26	---	---	---	---	PASS	A	14841455	A	A	14841455	3	1	111	1	0	0	0	0	1	0	0	0	6044	1294	45	2	4830	2	FREM1	9	14841455	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08		14841455	126371976	226	41152										
VCP	7415	broad.mit.edu	37	chr9	35066808	35066808	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tacttcacatcagggcatggCtggatgctgaggatgacaag	13	8	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:35066808C>T	uc003zvy.2	-	4	698	c.309G>A	c.(307-309)CAG>CAA	p.Q103Q	VCP_uc003zvz.2_RNA|VCP_uc010mkh.1_5'UTR|VCP_uc010mki.1_Silent_p.Q58Q	NM_007126	NP_009057	P55072	TERA_HUMAN	valosin-containing protein	103					activation of caspase activity|double-strand break repair|endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|retrograde protein transport, ER to cytosol	cytosol|endoplasmic reticulum|microsome|nucleus|proteasome complex	ATP binding|ATPase activity|lipid binding|polyubiquitin binding|protein domain specific binding|protein phosphatase binding			upper_aerodigestive_tract(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			CAGGGCATGGCTGGATGCTGA	0.502													12	122	---	---	---	---	PASS	T	35066808	T	T	35066808	2	4	111	1	0	0	0	0	0	0	0	1	17137	796	28	3		3	VCP	9	35066808	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	20225353	35066808	106146623	227	41153										
OR13J1	392309	broad.mit.edu	37	chr9	35870090	35870090	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtggagcccgtggacaggctCagacacatctggatggcaca	14	11	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:35870090C>T	uc011lph.1	-	1	309	c.309G>A	c.(307-309)CTG>CTA	p.L103L		NM_001004487	NP_001004487	Q8NGT2	O13J1_HUMAN	olfactory receptor, family 13, subfamily J,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_epithelial(49;0.169)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00494)|STAD - Stomach adenocarcinoma(86;0.194)			TGGACAGGCTCAGACACATCT	0.592													28	69	---	---	---	---	PASS	T	35870090	T	T	35870090	2	4	111	1	0	0	0	0	0	0	0	1	10944	813	29	2		2	OR13J1	9	35870090	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	803282	35870090	105343341	228	41154										
ZNF658	26149	broad.mit.edu	37	chr9	40774448	40774448	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggttttgtcacaggatgtcCcatattcattaagatcagag	9	7	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:40774448C>A	uc004abs.2	-	5	979	c.827G>T	c.(826-828)GGG>GTG	p.G276V	ZNF658_uc010mmm.1_Missense_Mutation_p.G276V|ZNF658_uc010mmn.1_Missense_Mutation_p.G276V	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	276					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		ACAGGATGTCCCATATTCATT	0.358													126	263	---	---	---	---	PASS	A	40774448	A	A	40774448	3	1	111	1	0	0	0	0	1	0	0	0	18066	623	22	3	2356	3	ZNF658	9	40774448	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	4904358	40774448	100438983	229	41155										
GDA	9615	broad.mit.edu	37	chr9	74828885	74828885	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aatacaaggagaccactgagGaatcgatcaaggaaactgag	11	7	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:74828885G>A	uc004aiq.2	+	5	739	c.556G>A	c.(556-558)GAA>AAA	p.E186K	GDA_uc011lse.1_Missense_Mutation_p.E112K|GDA_uc011lsf.1_Missense_Mutation_p.E112K|GDA_uc004air.2_Missense_Mutation_p.E186K|GDA_uc010mow.1_RNA|GDA_uc004ais.2_Missense_Mutation_p.E144K|GDA_uc004ait.1_Missense_Mutation_p.E112K	NM_004293	NP_004284	Q9Y2T3	GUAD_HUMAN	guanine deaminase	186					nervous system development|purine base metabolic process|purine nucleotide catabolic process	cytosol	guanine deaminase activity|zinc ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		GACCACTGAGGAATCGATCAA	0.413													12	81	---	---	---	---	PASS	A	74828885	A	A	74828885	3	1	111	1	0	0	0	0	1	0	0	0	6306	1175	41	2	574	2	GDA	9	74828885	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	34054437	74828885	66384546	230	41156										
GCNT1	2650	broad.mit.edu	37	chr9	79118046	79118046	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aacggagaggatgccatcccAtaaagaagaaaggtggaaga	13	6	0	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:79118046A>G	uc010mpf.2	+	3	1090	c.749A>G	c.(748-750)CAT>CGT	p.H250R	GCNT1_uc010mpg.2_Missense_Mutation_p.H250R|GCNT1_uc010mph.2_Missense_Mutation_p.H250R|GCNT1_uc004akf.3_Missense_Mutation_p.H250R|GCNT1_uc010mpi.2_Missense_Mutation_p.H250R|GCNT1_uc004akh.3_Missense_Mutation_p.H250R	NM_001490	NP_001481	Q02742	GCNT1_HUMAN	beta-1,3-galactosyl-O-glycosyl-glycoprotein	250	Lumenal (Potential).|Catalytic (By similarity).				protein O-linked glycosylation	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity				0						ATGCCATCCCATAAAGAAGAA	0.433													32	79	---	---	---	---	PASS	G	79118046	G	G	79118046	3	3	111	1	0	0	0	0	1	0	0	0	6300	217	8	5	751	5	GCNT1	9	79118046	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	4289161	79118046	62095385	231	41157										
PRUNE2	158471	broad.mit.edu	37	chr9	79319739	79319739	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tatctgtttctacttcccagTcaacgtttgatggagacaaa	7	9	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:79319739T>C	uc010mpk.2	-	8	7575	c.7451A>G	c.(7450-7452)GAC>GGC	p.D2484G	PRUNE2_uc004akj.3_5'Flank|PRUNE2_uc010mpl.1_5'Flank	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	2484					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TACTTCCCAGTCAACGTTTGA	0.468											OREG0019258	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	13	---	---	---	---	PASS	C	79319739	C	C	79319739	3	2	111	1	0	0	0	0	1	0	0	0	12641	1667	58	5	1863	5	PRUNE2	9	79319739	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	201693	79319739	61893692	232	41158										
AGTPBP1	23287	broad.mit.edu	37	chr9	88247953	88247953	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttctgcagtaaaacctggggCtgtttgagaaggaatattct	11	6	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:88247953C>A	uc011ltd.1	-	13	1672	c.1639G>T	c.(1639-1641)GCC>TCC	p.A547S	AGTPBP1_uc004aod.3_Missense_Mutation_p.A173S|AGTPBP1_uc011ltc.1_Missense_Mutation_p.A445S|AGTPBP1_uc010mqc.2_Missense_Mutation_p.A507S|AGTPBP1_uc011lte.1_Missense_Mutation_p.A559S	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	547					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						AAACCTGGGGCTGTTTGAGAA	0.403													42	124	---	---	---	---	PASS	A	88247953	A	A	88247953	3	1	111	1	0	0	0	0	1	0	0	0	400	797	28	3	2093	3	AGTPBP1	9	88247953	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	8928214	88247953	52965478	233	41159										
SHC3	53358	broad.mit.edu	37	chr9	91653064	91653064	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttcctgctcatctctccttgGtaccaagtctcggcttgcag	8	14	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:91653064G>C	uc004aqg.2	-	11	1807	c.1500C>G	c.(1498-1500)TAC>TAG	p.Y500*		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	500	SH2.				central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						TCTCTCCTTGGTACCAAGTCT	0.587													51	434	---	---	---	---	PASS	C	91653064	C	C	91653064	4	2	111	1	0	0	0	0	0	1	0	0	14272	1256	44	4	292	4	SHC3	9	91653064	Nonsense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	3405111	91653064	49560367	234	41160										
NR4A3	8013	broad.mit.edu	37	chr9	102607053	102607053	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gaaaagattccgggatttacTgatctccccaaagaagatca	8	9	2	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:102607053T>A	uc004baf.1	+	6	2106	c.1377T>A	c.(1375-1377)ACT>ACA	p.T459T	NR4A3_uc004bag.1_Silent_p.T459T|NR4A3_uc004bai.2_Silent_p.T470T	NM_006981	NP_008912	Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	459	Ligand-binding (Potential).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		EWSR1/NR4A3(140)|TAF15/NR4A3(33)	bone(173)	173		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				CGGGATTTACTGATCTCCCCA	0.428			T	EWSR1	extraskeletal myxoid chondrosarcoma								30	64	---	---	---	---	PASS	A	102607053	A	A	102607053	2	1	111	1	0	0	0	0	0	0	0	1	10634	1567	55	5		5	NR4A3	9	102607053	Silent	SNP	T	TCGA-51-4079-01A-01D-1458-08	10953989	102607053	38606378	235	41161										
OR13F1	138805	broad.mit.edu	37	chr9	107267167	107267167	+	Silent	SNP	C	A	A													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atcagtgtacttcttctcccCatgccaatgctactcatttg							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:107267167C>A	uc011lvm.1	+	1	624	c.624C>A	c.(622-624)CCC>CCA	p.P208P		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	208	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						TTCTTCTCCCCATGCCAATGC	0.438													131	317	---	---	---	---	PASS	A	107267167	A	A	107267167	2	1	111	1	0	0	0	0	0	0	0	1	10941	581	21	3		3	OR13F1	9	107267167	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	4660114	107267167	33946264	236	41162	770	2								
OR13F1	138805	broad.mit.edu	37	chr9	107267168	107267168	+	Missense_Mutation	SNP	A	T	T													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcagtgtacttcttctccccAtgccaatgctactcatttgt							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:107267168A>T	uc011lvm.1	+	1	625	c.625A>T	c.(625-627)ATG>TTG	p.M209L		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	209	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						TCTTCTCCCCATGCCAATGCT	0.443													131	317	---	---	---	---	PASS	T	107267168	T	T	107267168	3	4	111	1	0	0	0	0	1	0	0	0	10941	217	8	5	627	5	OR13F1	9	107267168	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	1	107267168	33946263	237	41163	770	2								
ACTL7B	10880	broad.mit.edu	37	chr9	111617356	111617356	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccaatagtgatgagtttgccGtccgggagctcgtagtccac	12	11	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:111617356G>T	uc004bdi.2	-	1	920	c.855C>A	c.(853-855)GAC>GAA	p.D285E		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	285						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						TGAGTTTGCCGTCCGGGAGCT	0.642													46	114	---	---	---	---	PASS	T	111617356	T	T	111617356	3	4	111	1	0	0	0	0	1	0	0	0	201	1136	40	1	396	1	ACTL7B	9	111617356	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	4350188	111617356	29596075	238	41164										
C9orf4	23732	broad.mit.edu	37	chr9	111903868	111903868	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aggccatgacatcatcaccaCcctaacatgagaaatgattg	7	11	2	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:111903868C>A	uc004bdw.1	-	4	617	c.617G>T	c.(616-618)GGT>GTT	p.G206V		NM_014334	NP_055149	Q9P0K9	CI004_HUMAN	hypothetical protein LOC23732	206	DOMON.					integral to membrane					0						ATCATCACCACCCTAACATGA	0.413													37	78	---	---	---	---	PASS	A	111903868	A	A	111903868	3	1	111	1	0	0	0	0	1	0	0	0	2480	521	18	3	425	3	C9orf4	9	111903868	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	286512	111903868	29309563	239	41165										
KIAA0368	23392	broad.mit.edu	37	chr9	114173302	114173302	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aatgagttcctcttgatcagGgagggtgtcagcatttctct	11	8	4	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:114173302G>A	uc004bfe.1	-	23	2869	c.2869C>T	c.(2869-2871)CCT>TCT	p.P957S		NM_001080398	NP_001073867			KIAA0368 protein												0						TCTTGATCAGGGAGGGTGTCA	0.388													161	267	---	---	---	---	PASS	A	114173302	A	A	114173302	3	1	111	1	0	0	0	0	1	0	0	0	8171	1232	43	3	3300	3	KIAA0368	9	114173302	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	2269434	114173302	27040129	240	41166										
COL27A1	85301	broad.mit.edu	37	chr9	116925043	116925043	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcgtttgcctgtcacctggcCtccacccaaggagctcctga	9	16	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:116925043C>G	uc011lxl.1	+	2	111	c.111C>G	c.(109-111)GCC>GCG	p.A37A		NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	37					cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GTCACCTGGCCTCCACCCAAG	0.562													89	166	---	---	---	---	PASS	G	116925043	G	G	116925043	2	3	111	1	0	0	0	0	0	0	0	1	3685	668	24	4		4	COL27A1	9	116925043	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	2751741	116925043	24288388	241	41167										
ASTN2	23245	broad.mit.edu	37	chr9	119568076	119568076	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agcaggattttccatcaggaGccagtttgtactcctccacg	9	12	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:119568076G>A	uc004bjs.1	-	13	2332	c.2231C>T	c.(2230-2232)GCT>GTT	p.A744V	ASTN2_uc004bjr.1_Missense_Mutation_p.A740V|ASTN2_uc004bjt.1_Missense_Mutation_p.A693V	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	744	Extracellular (Potential).|EGF-like 3.					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TCCATCAGGAGCCAGTTTGTA	0.483													97	180	---	---	---	---	PASS	A	119568076	A	A	119568076	3	1	111	1	0	0	0	0	1	0	0	0	1065	971	34	3	2064	3	ASTN2	9	119568076	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	2643033	119568076	21645355	242	41168										
ASTN2	23245	broad.mit.edu	37	chr9	119903693	119903693	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atctcgatgggcgtgttagcGcggaaactctccttgaactt	11	10	2	1	rs115011238	byFrequency	TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:119903693G>C	uc004bjs.1	-	4	1181	c.1080C>G	c.(1078-1080)CGC>CGG	p.R360R	ASTN2_uc004bjr.1_Silent_p.R360R|ASTN2_uc004bjt.1_Intron	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	360	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GCGTGTTAGCGCGGAAACTCT	0.587													36	115	---	---	---	---	PASS	C	119903693	C	C	119903693	2	2	111	1	0	0	0	0	0	0	0	1	1065	1102	38	4		4	ASTN2	9	119903693	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	335617	119903693	21309738	243	41169										
GAPVD1	26130	broad.mit.edu	37	chr9	128113072	128113072	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agaatctaatggctcaacttCaagaaacaatgcgctgtgtg	9	8	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:128113072C>G	uc010mwx.2	+	23	3870	c.3544C>G	c.(3544-3546)CAA>GAA	p.Q1182E	GAPVD1_uc004bpp.2_Missense_Mutation_p.Q1191E|GAPVD1_uc004bpq.2_Missense_Mutation_p.Q1164E|GAPVD1_uc004bpr.2_Missense_Mutation_p.Q1143E|GAPVD1_uc004bps.2_Missense_Mutation_p.Q1137E|GAPVD1_uc004bpt.2_Missense_Mutation_p.Q197E	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	1182					endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GGCTCAACTTCAAGAAACAAT	0.358													17	159	---	---	---	---	PASS	G	128113072	G	G	128113072	3	3	111	1	0	0	0	0	1	0	0	0	6239	827	29	2	3653	2	GAPVD1	9	128113072	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	8209379	128113072	13100359	244	41170										
TSC1	7248	broad.mit.edu	37	chr9	135778003	135778003	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agtttatacctgtaattcctGgctctggttgtagaattcct	8	8	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:135778003G>A	uc004cca.2	-	18	2614	c.2380C>T	c.(2380-2382)CAG>TAG	p.Q794*	TSC1_uc004ccb.3_Nonsense_Mutation_p.Q793*|TSC1_uc011mcq.1_Nonsense_Mutation_p.Q743*|TSC1_uc011mcr.1_Intron	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	794	Potential.				activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding	p.?(1)		lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		TGTAATTCCTGGCTCTGGTTG	0.537			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis		OREG0019577	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	244	---	---	---	---	PASS	A	135778003	A	A	135778003	4	1	111	1	0	0	0	0	0	1	0	0	16602	1357	47	3	1138	3	TSC1	9	135778003	Nonsense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	7664931	135778003	5435428	245	41171										
NOTCH1	4851	broad.mit.edu	37	chr9	139391110	139391110	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gccctggtagctcatcatctGggacagggcgctggcagcaa	14	12	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:139391110G>A	uc004chz.2	-	34	7081	c.7081C>T	c.(7081-7083)CAG>TAG	p.Q2361*		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2361	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CTCATCATCTGGGACAGGGCG	0.662			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			32	171	---	---	---	---	PASS	A	139391110	A	A	139391110	4	1	111	1	0	0	0	0	0	1	0	0	10547	1357	47	3	590	3	NOTCH1	9	139391110	Nonsense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	3613107	139391110	1822321	246	41172										
ABCA2	20	broad.mit.edu	37	chr9	139915885	139915885	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtccagctggttccggagctCagcagacagcccagagaagc	13	13	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:139915885C>T	uc011mem.1	-	7	1001	c.853G>A	c.(853-855)GAG>AAG	p.E285K	ABCA2_uc011mel.1_Missense_Mutation_p.E286K|ABCA2_uc004ckl.1_Missense_Mutation_p.E216K|ABCA2_uc004ckm.1_Missense_Mutation_p.E316K|ABCA2_uc004cko.1_Missense_Mutation_p.E62K|ABCA2_uc010nca.2_Missense_Mutation_p.E216K	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	285					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		TTCCGGAGCTCAGCAGACAGC	0.672													8	67	---	---	---	---	PASS	T	139915885	T	T	139915885	3	4	111	1	0	0	0	0	1	0	0	0	32	835	29	2	6622	2	ABCA2	9	139915885	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	524775	139915885	1297546	247	41173										
EXD3	54932	broad.mit.edu	37	chr9	140245774	140245774	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccagggcttcactcacccagCttggtgatagaggggtccga	13	12	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:140245774C>T	uc004cmp.2	-	13	1576	c.1380G>A	c.(1378-1380)AAG>AAA	p.K460K	C9orf167_uc011mew.1_Intron|EXD3_uc010ncf.1_Silent_p.K140K|EXD3_uc004cmq.1_RNA	NM_017820	NP_060290	Q8N9H8	MUT7_HUMAN	exonuclease 3'-5' domain containing 3	460					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						ACTCACCCAGCTTGGTGATAG	0.677													16	26	---	---	---	---	PASS	T	140245774	T	T	140245774	2	4	111	1	0	0	0	0	0	0	0	1	5299	796	28	3		3	EXD3	9	140245774	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	329889	140245774	967657	248	41174										
ENTPD8	377841	broad.mit.edu	37	chr9	140332424	140332424	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gaacagcccactaaccttccAcctggcaggccagggcctgg	11	16	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:140332424A>C	uc004cmw.2	-	3	423	c.239T>G	c.(238-240)GTG>GGG	p.V80G	C9orf167_uc011mew.1_Intron|ENTPD8_uc004cmx.2_Missense_Mutation_p.V80G|ENTPD8_uc004cmy.2_Missense_Mutation_p.V80G	NM_001033113	NP_001028285	Q5MY95	ENTP8_HUMAN	ectonucleoside triphosphate diphosphohydrolase 8	80	Extracellular (Potential).					integral to membrane|plasma membrane	ATP binding			skin(1)	1	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000224)|Epithelial(140;0.000898)		CTAACCTTCCACCTGGCAGGC	0.557													21	118	---	---	---	---	PASS	C	140332424	C	C	140332424	3	2	111	1	0	0	0	0	1	0	0	0	5145	159	6	5	1280	5	ENTPD8	9	140332424	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	86650	140332424	881007	249	41175										
EHMT1	79813	broad.mit.edu	37	chr9	140712552	140712552	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagactcagaagccgacgttCgagaggaagattcttacctc	10	11	2	4	rs121918301		TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr9:140712552C>T	uc011mfc.1	+	25	3539	c.3502C>T	c.(3502-3504)CGA>TGA	p.R1168*	EHMT1_uc004coe.2_Nonsense_Mutation_p.R73*	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	1168	Interaction with histone H3.|SET.				DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		AGCCGACGTTCGAGAGGAAGA	0.517													68	131	---	---	---	---	PASS	T	140712552	T	T	140712552	4	4	111	1	0	0	0	0	0	1	0	0	4983	876	31	2	3649	2	EHMT1	9	140712552	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	380128	140712552	500879	250	41176										
GPR158	57512	broad.mit.edu	37	chr10	25464821	25464821	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aggacgacctggattggtacCaggcgctggtgtggagcctt	16	9	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr10:25464821C>A	uc001isj.2	+	1	532	c.472C>A	c.(472-474)CAG>AAG	p.Q158K	LOC100128811_uc010qde.1_Missense_Mutation_p.W44L	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	158	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GGATTGGTACCAGGCGCTGGT	0.627													45	116	---	---	---	---	PASS	A	25464821	A	A	25464821	3	1	111	1	0	0	0	0	1	0	0	0	6663	595	21	3	474	3	GPR158	10	25464821	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08		25464821	110069926	251	41177										
KIAA1462	57608	broad.mit.edu	37	chr10	30316850	30316850	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gttacgggcacttggcctctGtttgtgatcaccggtaggga	14	9	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr10:30316850G>A	uc001iux.2	-	2	2286	c.2227C>T	c.(2227-2229)CAG>TAG	p.Q743*	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Nonsense_Mutation_p.Q605*|KIAA1462_uc009xle.1_Nonsense_Mutation_p.Q743*	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	743										ovary(4)	4						CTTGGCCTCTGTTTGTGATCA	0.582													34	75	---	---	---	---	PASS	A	30316850	A	A	30316850	4	1	111	1	0	0	0	0	0	1	0	0	8234	1386	48	3	1860	3	KIAA1462	10	30316850	Nonsense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	4852029	30316850	105217897	252	41178										
ZEB1	6935	broad.mit.edu	37	chr10	31809552	31809552	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgtaataaggcaagtgttggAgaataatcaagccaatcttg	10	5	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr10:31809552A>T	uc001ivs.3	+	7	1352	c.1289A>T	c.(1288-1290)GAG>GTG	p.E430V	ZEB1_uc001ivr.3_Missense_Mutation_p.E212V|ZEB1_uc010qee.1_Missense_Mutation_p.E212V|ZEB1_uc010qef.1_Missense_Mutation_p.E212V|ZEB1_uc009xlj.1_Missense_Mutation_p.E356V|ZEB1_uc010qeg.1_Missense_Mutation_p.E289V|ZEB1_uc009xlk.1_Missense_Mutation_p.E212V|ZEB1_uc001ivt.3_Missense_Mutation_p.E212V|ZEB1_uc001ivu.3_Missense_Mutation_p.E431V|ZEB1_uc001ivv.3_Missense_Mutation_p.E410V|ZEB1_uc010qeh.1_Missense_Mutation_p.E363V|ZEB1_uc009xlo.1_Missense_Mutation_p.E413V|ZEB1_uc009xlp.2_Missense_Mutation_p.E414V	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	430					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				CAAGTGTTGGAGAATAATCAA	0.388													27	38	---	---	---	---	PASS	T	31809552	T	T	31809552	3	4	111	1	0	0	0	0	1	0	0	0	17620	304	11	5	1329	5	ZEB1	10	31809552	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	1492702	31809552	103725195	253	41179										
ZNF33B	7582	broad.mit.edu	37	chr10	43127796	43127796	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcacatctctatacagagccCtctgactagggtccaggtgc	9	13	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr10:43127796C>A	uc001jaf.1	-	3	216	c.101G>T	c.(100-102)AGG>ATG	p.R34M	ZNF33B_uc009xmg.1_Missense_Mutation_p.R34M|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Translation_Start_Site	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	34	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ATACAGAGCCCTCTGACTAGG	0.458													22	57	---	---	---	---	PASS	A	43127796	A	A	43127796	3	1	111	1	0	0	0	0	1	0	0	0	17852	681	24	3	2247	3	ZNF33B	10	43127796	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	11318244	43127796	92406951	254	41180										
RHOBTB1	9886	broad.mit.edu	37	chr10	62648494	62648494	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgctctgcttctctttctcaCaggctccttcactcccattt	4	16	4	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr10:62648494C>A	uc001jli.2	-	7	1370	c.932G>T	c.(931-933)TGT>TTT	p.C311F	RHOBTB1_uc001jlh.2_Missense_Mutation_p.C311F|RHOBTB1_uc001jlj.2_Missense_Mutation_p.C311F|RHOBTB1_uc001jlk.2_Missense_Mutation_p.C311F|RHOBTB1_uc009xpe.1_Missense_Mutation_p.C249F|RHOBTB1_uc001jll.2_Missense_Mutation_p.C61F	NM_014836	NP_055651	O94844	RHBT1_HUMAN	Rho-related BTB domain containing 1	311	BTB 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)					CTCTTTCTCACAGGCTCCTTC	0.483													37	71	---	---	---	---	PASS	A	62648494	A	A	62648494	3	1	111	1	0	0	0	0	1	0	0	0	13333	478	17	3	1182	3	RHOBTB1	10	62648494	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	19520698	62648494	72886253	255	41181										
PLCE1	51196	broad.mit.edu	37	chr10	95892039	95892039	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cccatggaaggataagcgttGgtccatgcttaaagcaatgt	11	8	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr10:95892039G>T	uc001kjk.2	+	3	1949	c.1315G>T	c.(1315-1317)GGT>TGT	p.G439C	PLCE1_uc010qnx.1_Missense_Mutation_p.G439C|PLCE1_uc001kjm.2_Missense_Mutation_p.G131C	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	439					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GATAAGCGTTGGTCCATGCTT	0.488													36	66	---	---	---	---	PASS	T	95892039	T	T	95892039	3	4	111	1	0	0	0	0	1	0	0	0	12034	1348	47	3	1607	3	PLCE1	10	95892039	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	33243545	95892039	39642708	256	41182										
PNLIPRP2	5408	broad.mit.edu	37	chr10	118401632	118401632	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtctatattttcagaggatcCctcaaaccagatgcaagtca	7	10	4	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr10:118401632C>A	uc001lcq.2	+	15	1211	c.1188C>A	c.(1186-1188)TCC>TCA	p.S396S		NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2	395	PLAT.				galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		TCAGAGGATCCCTCAAACCAG	0.343													5	6	---	---	---	---	PASS	A	118401632	A	A	118401632	2	1	111	1	0	0	0	0	0	0	0	1	12151	610	22	3		3	PNLIPRP2	10	118401632	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	22509593	118401632	17133115	257	41183										
KCNQ1	3784	broad.mit.edu	37	chr11	2591910	2591910	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtacgtggtccgcctctggtCcgccggctgccgcagcaagt	14	15	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:2591910C>A	uc001lwn.2	+	3	638	c.530C>A	c.(529-531)TCC>TAC	p.S177Y	KCNQ1_uc009ydp.1_Intron|KCNQ1_uc001lwo.2_Missense_Mutation_p.S50Y	NM_000218	NP_000209	P51787	KCNQ1_HUMAN	potassium voltage-gated channel, KQT-like	177	Cytoplasmic (Potential).				blood circulation|membrane depolarization|muscle contraction|sensory perception of sound		delayed rectifier potassium channel activity|protein binding			ovary(1)	1		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)	CGCCTCTGGTCCGCCGGCTGC	0.657													11	33	---	---	---	---	PASS	A	2591910	A	A	2591910	3	1	111	1	0	0	0	0	1	0	0	0	8082	855	30	2	549	2	KCNQ1	11	2591910	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08		2591910	132414606	258	41184										
OR52B4	143496	broad.mit.edu	37	chr11	4389418	4389418	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccaagaagggcggtgacataGgaaatgaagaatgggataga	15	4	0	5			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:4389418G>C	uc010qye.1	-	1	108	c.108C>G	c.(106-108)TCC>TCG	p.S36S		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0249)|all_neural(188;0.0577)		Epithelial(150;1.57e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0826)|LUSC - Lung squamous cell carcinoma(625;0.19)		CGGTGACATAGGAAATGAAGA	0.522													25	43	---	---	---	---	PASS	C	4389418	C	C	4389418	2	2	111	1	0	0	0	0	0	0	0	1	11112	987	35	4		4	OR52B4	11	4389418	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	1797508	4389418	130617098	259	41185										
OR51F1	256892	broad.mit.edu	37	chr11	4790942	4790942	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcaagcccagatcagtggctGatagcctgaagaggaaataa	11	8	2	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:4790942G>T	uc010qyl.1	-	1	206	c.206C>A	c.(205-207)TCA>TAA	p.S69*		NM_001004752	NP_001004752	A6NLW9	A6NLW9_HUMAN	olfactory receptor, family 51, subfamily F,	69						integral to membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.87e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0045)|LUSC - Lung squamous cell carcinoma(625;0.192)		ATCAGTGGCTGATAGCCTGAA	0.448													7	33	---	---	---	---	PASS	T	4790942	T	T	4790942	4	4	111	1	0	0	0	0	0	1	0	0	11096	1294	45	2	735	2	OR51F1	11	4790942	Nonsense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	401524	4790942	130215574	260	41186										
HBD	3045	broad.mit.edu	37	chr11	5255610	5255610	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccaactgcatccacgttcacTttgccccacagggcattgac	7	16	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:5255610T>G	uc001maf.1	-	1	249	c.54A>C	c.(52-54)AAA>AAC	p.K18N		NM_000519	NP_000510	P02042	HBD_HUMAN	delta globin	18					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;5.69e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCACGTTCACTTTGCCCCACA	0.502													35	145	---	---	---	---	PASS	G	5255610	G	G	5255610	3	3	111	1	0	0	0	0	1	0	0	0	6979	1606	56	5	401	5	HBD	11	5255610	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	464668	5255610	129750906	261	41187										
OR52E6	390078	broad.mit.edu	37	chr11	5862608	5862608	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtaagtatgagggatgatacGatgtccacagaagggcaacc	13	7	0	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:5862608G>A	uc010qzq.1	-	1	520	c.520C>T	c.(520-522)CGT>TGT	p.R174C	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	174	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGGATGATACGATGTCCACAG	0.478													58	134	---	---	---	---	PASS	A	5862608	A	A	5862608	3	1	111	1	0	0	0	0	1	0	0	0	11117	1058	37	2	423	2	OR52E6	11	5862608	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	606998	5862608	129143908	262	41188										
RBMXL2	27288	broad.mit.edu	37	chr11	7111477	7111477	+	Frame_Shift_Del	DEL	G	-	-													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gctgcagggtgcccaggggcGgaggccgtctaggaggccgc							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:7111477delG	uc001mfc.2	+	1	1313	c.1126delG	c.(1126-1128)GGAfs	p.G376fs		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	376	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GCCCAGGGGCGGAGGCCGTCT	0.597													19	12	---	---	---	---		-	7111477	-	-	7111477	7	5	111	1	0	1	0	1	0	0	0	0	13154	1117	39	0	1128	0	RBMXL2	11	7111477	Frame_Shift_Del	DEL	G	TCGA-51-4079-01A-01D-1458-08	1248869	7111477	127895039	263	41189										
NLRP10	338322	broad.mit.edu	37	chr11	7982683	7982683	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gggccagtgagggcttttccCctgaatcaaatagagcctcc	11	12	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:7982683C>A	uc001mfv.1	-	2	493	c.476G>T	c.(475-477)GGG>GTG	p.G159V		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	159							ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGGCTTTTCCCCTGAATCAAA	0.587													29	74	---	---	---	---	PASS	A	7982683	A	A	7982683	3	1	111	1	0	0	0	0	1	0	0	0	10472	623	22	3	1495	3	NLRP10	11	7982683	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	871206	7982683	127023833	264	41190										
RIC3	79608	broad.mit.edu	37	chr11	8161675	8161675	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agacctctggaaacgagcccCaggagtctggccatctgagg	13	12	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:8161675C>T	uc001mgd.2	-	2	244	c.190G>A	c.(190-192)GGG>AGG	p.G64R	RIC3_uc001mgb.2_5'Flank|RIC3_uc001mgc.2_Missense_Mutation_p.G64R|RIC3_uc001mge.2_Intron|RIC3_uc010rbl.1_Missense_Mutation_p.G14R|RIC3_uc010rbm.1_Missense_Mutation_p.G64R|RIC3_uc009yfm.2_Missense_Mutation_p.G64R|RIC3_uc009yfn.2_Intron|RIC3_uc001mgf.3_Missense_Mutation_p.G64R	NM_024557	NP_078833	Q7Z5B4	RIC3_HUMAN	resistance to inhibitors of cholinesterase 3	64	Lumenal (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				large_intestine(1)|ovary(1)|pancreas(1)	3				Epithelial(150;2.89e-07)|BRCA - Breast invasive adenocarcinoma(625;0.204)		AAACGAGCCCCAGGAGTCTGG	0.507													32	91	---	---	---	---	PASS	T	8161675	T	T	8161675	3	4	111	1	0	0	0	0	1	0	0	0	13354	594	21	3	936	3	RIC3	11	8161675	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	178992	8161675	126844841	265	41191										
DENND5A	23258	broad.mit.edu	37	chr11	9228258	9228258	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtcaaagggattccattctaCgttctcaggatatcgtgcaa	9	9	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:9228258C>A	uc001mhl.2	-	3	508	c.253G>T	c.(253-255)GTA>TTA	p.V85L	DENND5A_uc010rbw.1_Missense_Mutation_p.V85L|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	85	UDENN.									liver(1)	1						TTCCATTCTACGTTCTCAGGA	0.348													60	179	---	---	---	---	PASS	A	9228258	A	A	9228258	3	1	111	1	0	0	0	0	1	0	0	0	4436	536	19	1	3694	1	DENND5A	11	9228258	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1066583	9228258	125778258	266	41192										
PDE3B	5140	broad.mit.edu	37	chr11	14793481	14793481	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccaagtgaatttttttttctAgatgattctttgggattggg	10	4	2	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:14793481A>G	uc001mln.2	+	2	1332	c.979_splice	c.e2-2	p.M327_splice	PDE3B_uc001mlm.2_Splice_Site_p.M327_splice|PDE3B_uc010rcr.1_Splice_Site_p.M327_splice	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B						cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						TTTTTTTTCTAGATGATTCTT	0.244													20	57	---	---	---	---	PASS	G	14793481	G	G	14793481	5	3	111	1	0	0	0	0	0	0	1	0	11638	434	15	5	983	5	PDE3B	11	14793481	Splice_Site	SNP	A	TCGA-51-4079-01A-01D-1458-08	5565223	14793481	120213035	267	41193										
MYOD1	4654	broad.mit.edu	37	chr11	17741695	17741695	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atgcgcgagcggcgccgcctGagcaaagtaaatgaggcctt	14	11	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:17741695G>A	uc001mni.2	+	1	586	c.366G>A	c.(364-366)CTG>CTA	p.L122L		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	122	Helix-loop-helix motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						GGCGCCGCCTGAGCAAAGTAA	0.652													6	25	---	---	---	---	PASS	A	17741695	A	A	17741695	2	1	111	1	0	0	0	0	0	0	0	1	10088	1277	45	2		2	MYOD1	11	17741695	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	2948214	17741695	117264821	268	41194										
IGSF22	283284	broad.mit.edu	37	chr11	18735591	18735591	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccatgtcactttgggcagtgGttttccccggaaggggacct	13	11	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:18735591G>T	uc009yht.2	-	14	2093	c.1903C>A	c.(1903-1905)CCA>ACA	p.P635T	IGSF22_uc001mpa.2_RNA	NM_173588	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	635	Ig-like 4.									ovary(4)|large_intestine(2)|kidney(1)	7						TTGGGCAGTGGTTTTCCCCGG	0.602													8	163	---	---	---	---	PASS	T	18735591	T	T	18735591	3	4	111	1	0	0	0	0	1	0	0	0	7600	1261	44	3	2117	3	IGSF22	11	18735591	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	993896	18735591	116270925	269	41195										
E2F8	79733	broad.mit.edu	37	chr11	19252207	19252207	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcttgatagggctactgggcGcagaatttatctttctccga	10	9	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:19252207G>A	uc001mpm.2	-	8	1763	c.1241C>T	c.(1240-1242)GCG>GTG	p.A414V	E2F8_uc009yhv.2_Intron|E2F8_uc001mpn.3_Missense_Mutation_p.A414V	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	414					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						GCTACTGGGCGCAGAATTTAT	0.398													31	138	---	---	---	---	PASS	A	19252207	A	A	19252207	3	1	111	1	0	0	0	0	1	0	0	0	4873	1087	38	1	1386	1	E2F8	11	19252207	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	516616	19252207	115754309	270	41196										
QSER1	79832	broad.mit.edu	37	chr11	32956442	32956442	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aggaaaagggcaagttaaagAggaagacaacagtaatcaga	12	4	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:32956442A>G	uc001mty.2	+	4	3518	c.3251A>G	c.(3250-3252)GAG>GGG	p.E1084G	QSER1_uc001mtz.1_Missense_Mutation_p.E845G|QSER1_uc001mua.2_Missense_Mutation_p.E589G	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	1084										ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					CAAGTTAAAGAGGAAGACAAC	0.408													38	104	---	---	---	---	PASS	G	32956442	G	G	32956442	3	3	111	1	0	0	0	0	1	0	0	0	12882	304	11	5	3257	5	QSER1	11	32956442	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	13704235	32956442	102050074	271	41197										
TRAF6	7189	broad.mit.edu	37	chr11	36512059	36512059	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aaggcgaccctctaactggtGaatagtttcctggaaattcc	9	10	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:36512059G>T	uc001mwr.1	-	8	1238	c.898C>A	c.(898-900)CAC>AAC	p.H300N	TRAF6_uc001mws.1_Missense_Mutation_p.H300N	NM_145803	NP_665802	Q9Y4K3	TRAF6_HUMAN	TNF receptor-associated factor 6	300	Potential.|Interaction with TAX1BP1.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|ossification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell cytokine production|protein autoubiquitination|protein K63-linked ubiquitination|response to interleukin-1|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cell cortex|cytosol|endosome membrane|internal side of plasma membrane|nuclear membrane	histone deacetylase binding|mitogen-activated protein kinase kinase kinase binding|protein kinase B binding|protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				TCTAACTGGTGAATAGTTTCC	0.463													174	247	---	---	---	---	PASS	T	36512059	T	T	36512059	3	4	111	1	0	0	0	0	1	0	0	0	16442	1290	45	2	674	2	TRAF6	11	36512059	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	3555617	36512059	98494457	272	41198										
RAG1	5896	broad.mit.edu	37	chr11	36596776	36596776	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgcccacagctctcagaatgTgaaagtatttgaagaagcca	9	9	1	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:36596776T>G	uc001mwu.3	+	2	2046	c.1922T>G	c.(1921-1923)GTG>GGG	p.V641G	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	641					histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				TCTCAGAATGTGAAAGTATTT	0.463									Familial_Hemophagocytic_Lymphohistiocytosis				17	108	---	---	---	---	PASS	G	36596776	G	G	36596776	3	3	111	1	0	0	0	0	1	0	0	0	13003	1696	59	5	1924	5	RAG1	11	36596776	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	84717	36596776	98409740	273	41199										
LRRC4C	57689	broad.mit.edu	37	chr11	40136341	40136341	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggatggtgaaggttttctctGtcgaccttgtgctctgtggt	14	7	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:40136341G>T	uc001mxa.1	-	2	3466	c.1502C>A	c.(1501-1503)ACA>AAA	p.T501K	LRRC4C_uc001mxc.1_Missense_Mutation_p.T497K|LRRC4C_uc001mxd.1_Missense_Mutation_p.T497K|LRRC4C_uc001mxb.1_Missense_Mutation_p.T497K	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	501					regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				GGTTTTCTCTGTCGACCTTGT	0.498													25	78	---	---	---	---	PASS	T	40136341	T	T	40136341	3	4	111	1	0	0	0	0	1	0	0	0	9008	1377	48	3	424	3	LRRC4C	11	40136341	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	3539565	40136341	94870175	274	41200										
LRRC4C	57689	broad.mit.edu	37	chr11	40137090	40137090	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atcacttgaatctgggactgTatcatccacagtttttgaag	8	8	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:40137090T>C	uc001mxa.1	-	2	2717	c.753A>G	c.(751-753)ATA>ATG	p.I251M	LRRC4C_uc001mxc.1_Missense_Mutation_p.I247M|LRRC4C_uc001mxd.1_Missense_Mutation_p.I247M|LRRC4C_uc001mxb.1_Missense_Mutation_p.I247M	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	251	LRR 8.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				TCTGGGACTGTATCATCCACA	0.433													42	123	---	---	---	---	PASS	C	40137090	C	C	40137090	3	2	111	1	0	0	0	0	1	0	0	0	9008	1628	57	5	1173	5	LRRC4C	11	40137090	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	749	40137090	94869426	275	41201										
OR4X1	390113	broad.mit.edu	37	chr11	48286057	48286057	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttcttcgtgctgatggcttcCtacctgatcatcctgcactt	7	13	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:48286057C>A	uc010rht.1	+	1	645	c.645C>A	c.(643-645)TCC>TCA	p.S215S		NM_001004726	NP_001004726	Q8NH49	OR4X1_HUMAN	olfactory receptor, family 4, subfamily X,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3						TGATGGCTTCCTACCTGATCA	0.552													16	33	---	---	---	---	PASS	A	48286057	A	A	48286057	2	1	111	1	0	0	0	0	0	0	0	1	11084	668	24	3		3	OR4X1	11	48286057	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	8148967	48286057	86720459	276	41202										
OR4A47	403253	broad.mit.edu	37	chr11	48510847	48510848	+	Frame_Shift_Ins	INS	-	C	C													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tatgggctcccattctgtggINSccccaatgtcattgatcatt							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:48510847_48510848insC	uc010rhx.1	+	1	503_504	c.503_504insC	c.(502-504)GGCfs	p.G168fs		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CCATTCTGTGGCCCCAATGTCA	0.46													143	82	---	---	---	---		C	48510848	C	C	48510847	7	5	111	1	0	1	1	0	0	0	0	0	11042	1203	42	0	505	0	OR4A47	11	48510847	Frame_Shift_Ins	INS	-	TCGA-51-4079-01A-01D-1458-08	224790	48510847	86495669	277	41203										
OR5W2	390148	broad.mit.edu	37	chr11	55681515	55681515	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agagagtaataagagaggagGgatatcacagaagaaatgat	13	2	1	5			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:55681515G>T	uc010rir.1	-	1	544	c.544C>A	c.(544-546)CCT>ACT	p.P182T		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AAGAGAGGAGGGATATCACAG	0.403													14	67	---	---	---	---	PASS	T	55681515	T	T	55681515	3	4	111	1	0	0	0	0	1	0	0	0	11185	1232	43	3	390	3	OR5W2	11	55681515	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	7170668	55681515	79325001	278	41204										
OR5W2	390148	broad.mit.edu	37	chr11	55681783	55681783	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agagcacagccatagaagggTattgacttgttcttggcaag	12	7	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:55681783T>A	uc010rir.1	-	1	276	c.276A>T	c.(274-276)ATA>ATT	p.I92I		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CATAGAAGGGTATTGACTTGT	0.453													8	45	---	---	---	---	PASS	A	55681783	A	A	55681783	2	1	111	1	0	0	0	0	0	0	0	1	11185	1628	57	5		5	OR5W2	11	55681783	Silent	SNP	T	TCGA-51-4079-01A-01D-1458-08	268	55681783	79324733	279	41205										
OR9G9	504191	broad.mit.edu	37	chr11	56468174	56468174	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtgtcagttcttcttctctgCagggctggcctatagtgagt	12	9	4	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:56468174C>T	uc010rjn.1	+	1	311	c.311C>T	c.(310-312)GCA>GTA	p.A104V		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	104	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTCTTCTCTGCAGGGCTGGCC	0.532													27	88	---	---	---	---	PASS	T	56468174	T	T	56468174	3	4	111	1	0	0	0	0	1	0	0	0	11252	710	25	3	313	3	OR9G9	11	56468174	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	786391	56468174	78538342	280	41206										
PRG2	5553	broad.mit.edu	37	chr11	57156084	57156084	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgcctccaatccagacttgaCcctggttgagcgcgctgaca	10	14	0	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:57156084C>A	uc001njz.2	-	3	491	c.464G>T	c.(463-465)GGT>GTT	p.G155V	PRG2_uc001njw.1_RNA|PRG2_uc001njx.1_RNA|PRG2_uc001njy.1_RNA|PRG2_uc001nka.2_Missense_Mutation_p.G155V|PRG2_uc001nkb.2_Missense_Mutation_p.G155V|PRG2_uc001nkd.2_Missense_Mutation_p.G144V|PRG2_uc001nkc.2_Missense_Mutation_p.G155V|PRG2_uc001nke.2_Missense_Mutation_p.G435V	NM_002728	NP_002719	P13727	PRG2_HUMAN	proteoglycan 2 preproprotein	155	C-type lectin.				defense response to bacterium|immune response	extracellular region|transport vesicle	heparin binding|sugar binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Sargramostim(DB00020)	CCAGACTTGACCCTGGTTGAG	0.502													33	161	---	---	---	---	PASS	A	57156084	A	A	57156084	3	1	111	1	0	0	0	0	1	0	0	0	12479	507	18	3	216	3	PRG2	11	57156084	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	687910	57156084	77850432	281	41207										
OR9Q1	219956	broad.mit.edu	37	chr11	57947182	57947182	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggcagtgctgctggagcatgGggcagctttatcttacacac	13	10	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:57947182G>T	uc001nmj.2	+	3	582	c.266G>T	c.(265-267)GGG>GTG	p.G89V		NM_001005212	NP_001005212	Q8NGQ5	OR9Q1_HUMAN	olfactory receptor, family 9, subfamily Q,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.222)				CTGGAGCATGGGGCAGCTTTA	0.527													49	110	---	---	---	---	PASS	T	57947182	T	T	57947182	3	4	111	1	0	0	0	0	1	0	0	0	11255	1232	43	3	268	3	OR9Q1	11	57947182	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	791098	57947182	77059334	282	41208										
GAL3ST3	89792	broad.mit.edu	37	chr11	65811127	65811127	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttccgcagaggagggcagctCaaggggaacagcttggggta	17	8	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:65811127C>G	uc001ogv.2	-	2	307	c.147G>C	c.(145-147)TTG>TTC	p.L49F	GAL3ST3_uc001ogw.2_Missense_Mutation_p.L49F	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	49	Lumenal (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						GAGGGCAGCTCAAGGGGAACA	0.652													13	18	---	---	---	---	PASS	G	65811127	G	G	65811127	3	3	111	1	0	0	0	0	1	0	0	0	6199	825	29	2	1152	2	GAL3ST3	11	65811127	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	7863945	65811127	69195389	283	41209										
TBX10	347853	broad.mit.edu	37	chr11	67402568	67402568	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	actctggacacacgtgggttCttggggccctgcccagtggg	15	12	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:67402568C>T	uc001omp.2	-	2	262	c.174G>A	c.(172-174)AAG>AAA	p.K58K		NM_005995	NP_005986	O75333	TBX10_HUMAN	T-box 10	58					anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						CACGTGGGTTCTTGGGGCCCT	0.627													33	84	---	---	---	---	PASS	T	67402568	T	T	67402568	2	4	111	1	0	0	0	0	0	0	0	1	15648	912	32	2		2	TBX10	11	67402568	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	1591441	67402568	67603948	284	41210										
SLCO2B1	11309	broad.mit.edu	37	chr11	74904316	74904316	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	accccatcttcctgctggtgGtcctgtcccaggtatgcttg	10	14	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:74904316G>T	uc001owb.2	+	9	1516	c.1129G>T	c.(1129-1131)GTC>TTC	p.V377F	SLCO2B1_uc010rrq.1_Missense_Mutation_p.V122F|SLCO2B1_uc010rrr.1_Missense_Mutation_p.V233F|SLCO2B1_uc010rrs.1_Missense_Mutation_p.V261F|SLCO2B1_uc001owc.2_Missense_Mutation_p.V150F|SLCO2B1_uc001owd.2_Missense_Mutation_p.V355F	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	377	Helical; Name=7; (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	CCTGCTGGTGGTCCTGTCCCA	0.627													11	125	---	---	---	---	PASS	T	74904316	T	T	74904316	3	4	111	1	0	0	0	0	1	0	0	0	14727	1261	44	3	1163	3	SLCO2B1	11	74904316	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	7501748	74904316	60102200	285	41211										
RAB38	23682	broad.mit.edu	37	chr11	87847211	87847211	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggttgatgtgagatggggcTtcacgacgtccggctcaata	14	8	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:87847211T>C	uc001pcj.1	-	3	628	c.581A>G	c.(580-582)AAG>AGG	p.K194R		NM_022337	NP_071732	P57729	RAB38_HUMAN	RAB38	194					protein transport|small GTPase mediated signal transduction	melanosome|plasma membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				GAGATGGGGCTTCACGACGTC	0.478													65	124	---	---	---	---	PASS	C	87847211	C	C	87847211	3	2	111	1	0	0	0	0	1	0	0	0	12928	1609	56	5	58	5	RAB38	11	87847211	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	12942895	87847211	47159305	286	41212										
TYR	7299	broad.mit.edu	37	chr11	89028313	89028313	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gatgtctttttatttcagacCcagactcttttcaagactac	5	10	4	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:89028313C>A	uc001pcs.2	+	5	1451	c.1369C>A	c.(1369-1371)CCA>ACA	p.P457T		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	457	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	TATTTCAGACCCAGACTCTTT	0.418									Oculocutaneous_Albinism				30	38	---	---	---	---	PASS	A	89028313	A	A	89028313	3	1	111	1	0	0	0	0	1	0	0	0	16810	623	22	3	1387	3	TYR	11	89028313	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1181102	89028313	45978203	287	41213										
NOX4	50507	broad.mit.edu	37	chr11	89177344	89177344	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	attcagttcaacaaagtcttCactgtaattcactgagaagt	6	8	5	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:89177344C>T	uc001pct.2	-	5	645	c.406G>A	c.(406-408)GAA>AAA	p.E136K	NOX4_uc009yvr.2_Missense_Mutation_p.E111K|NOX4_uc001pcu.2_Missense_Mutation_p.E62K|NOX4_uc001pcw.2_Intron|NOX4_uc001pcx.2_Intron|NOX4_uc001pcv.2_Missense_Mutation_p.E136K|NOX4_uc009yvo.2_RNA|NOX4_uc010rtu.1_Intron|NOX4_uc009yvp.2_Missense_Mutation_p.E136K|NOX4_uc010rtv.1_Missense_Mutation_p.E112K|NOX4_uc009yvq.2_Missense_Mutation_p.E112K|NOX4_uc009yvs.1_RNA	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	136	Extracellular (Potential).|Ferric oxidoreductase.				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				ACAAAGTCTTCACTGTAATTC	0.448													44	56	---	---	---	---	PASS	T	89177344	T	T	89177344	3	4	111	1	0	0	0	0	1	0	0	0	10558	835	29	2	1386	2	NOX4	11	89177344	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	149031	89177344	45829172	288	41214										
C11orf65	160140	broad.mit.edu	37	chr11	108277675	108277675	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aaaaatcttatagtatatatCaggtggaaatttaacctgta	6	4	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:108277675C>T	uc001pkh.2	-	5	314	c.244G>A	c.(244-246)GAT>AAT	p.D82N	C11orf65_uc010rvx.1_Missense_Mutation_p.D33N|C11orf65_uc009yxu.1_RNA	NM_152587	NP_689800	Q8NCR3	CK065_HUMAN	hypothetical protein LOC160140	82										ovary(1)	1		all_cancers(61;1.38e-11)|all_epithelial(67;3.16e-07)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;8.21e-06)|BRCA - Breast invasive adenocarcinoma(274;1.01e-05)|all cancers(92;0.000189)|Colorectal(284;0.114)|OV - Ovarian serous cystadenocarcinoma(223;0.144)		TAGTATATATCAGGTGGAAAT	0.303													32	51	---	---	---	---	PASS	T	108277675	T	T	108277675	3	4	111	1	0	0	0	0	1	0	0	0	1655	826	29	2	717	2	C11orf65	11	108277675	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	19100331	108277675	26728841	289	41215										
OR10S1	219873	broad.mit.edu	37	chr11	123847781	123847781	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atgactagctcattaatggtGgtgtctgtacaggcgagctt	12	7	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:123847781G>T	uc001pzm.1	-	1	618	c.618C>A	c.(616-618)ACC>ACA	p.T206T		NM_001004474	NP_001004474	Q8NGN2	O10S1_HUMAN	olfactory receptor, family 10, subfamily S,	206	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CATTAATGGTGGTGTCTGTAC	0.537													27	40	---	---	---	---	PASS	T	123847781	T	T	123847781	2	4	111	1	0	0	0	0	0	0	0	1	10918	1335	47	3		3	OR10S1	11	123847781	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	15570106	123847781	11158735	290	41216										
ROBO4	54538	broad.mit.edu	37	chr11	124761204	124761204	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cccctccttaccctgcttctTtttggccttccaagcctctg	5	18	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:124761204T>G	uc001qbg.2	-	12	2079	c.1939A>C	c.(1939-1941)AAG>CAG	p.K647Q	ROBO4_uc010sas.1_Missense_Mutation_p.K502Q|ROBO4_uc001qbh.2_Missense_Mutation_p.K537Q|ROBO4_uc001qbi.2_Missense_Mutation_p.K205Q|ROBO4_uc010sat.1_Missense_Mutation_p.K205Q	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	647					angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		CCCTGCTTCTTTTTGGCCTTC	0.597													22	32	---	---	---	---	PASS	G	124761204	G	G	124761204	3	3	111	1	0	0	0	0	1	0	0	0	13516	1850	64	5	1112	5	ROBO4	11	124761204	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	913423	124761204	10245312	291	41217										
GLB1L2	89944	broad.mit.edu	37	chr11	134229019	134229019	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aacaaggatgggctgagcaaGgggattgtccagggaggtaa	17	5	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr11:134229019G>A	uc001qhp.2	+	7	905	c.717G>A	c.(715-717)AAG>AAA	p.K239K	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	239					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		GGCTGAGCAAGGGGATTGTCC	0.632													66	131	---	---	---	---	PASS	A	134229019	A	A	134229019	2	1	111	1	0	0	0	0	0	0	0	1	6429	991	35	3		3	GLB1L2	11	134229019	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	9467815	134229019	777497	292	41218										
CD163	9332	broad.mit.edu	37	chr12	7640565	7640565	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgtaattccctgcatagaacGctggcagcttccagagagaa	10	10	0	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:7640565G>A	uc001qsz.3	-	7	1667	c.1539C>T	c.(1537-1539)AGC>AGT	p.S513S	CD163_uc001qta.3_Silent_p.S513S|CD163_uc009zfw.2_Silent_p.S513S	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	513	SRCR 5.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						TGCATAGAACGCTGGCAGCTT	0.527													17	72	---	---	---	---	PASS	A	7640565	A	A	7640565	2	1	111	1	0	0	0	0	0	0	0	1	2967	1078	38	1		1	CD163	12	7640565	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08		7640565	126211330	293	41219										
TAS2R7	50837	broad.mit.edu	37	chr12	10954981	10954981	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	accaatataaaacaatctaaTagtattacgcacaatagaca	3	8	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:10954981T>C	uc001qyv.2	-	1	246	c.189A>G	c.(187-189)CTA>CTG	p.L63L		NM_023919	NP_076408	Q9NYW3	TA2R7_HUMAN	taste receptor, type 2, member 7	63	Helical; Name=2; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			skin(1)	1						AACAATCTAATAGTATTACGC	0.363													66	129	---	---	---	---	PASS	C	10954981	C	C	10954981	2	2	111	1	0	0	0	0	0	0	0	1	15583	1393	49	5		5	TAS2R7	12	10954981	Silent	SNP	T	TCGA-51-4079-01A-01D-1458-08	3314416	10954981	122896914	294	41220										
LST-3TM12	338821	broad.mit.edu	37	chr12	21200045	21200045	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctgtatgttatatttgtaatTtttacattgttacacatgag	6	4	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:21200045T>A	uc010sin.1	+	7	888	c.888T>A	c.(886-888)ATT>ATA	p.I296I	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Silent_p.I343I	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	296						membrane	transporter activity				0						TATTTGTAATTTTTACATTGT	0.313													13	35	---	---	---	---	PASS	A	21200045	A	A	21200045	2	1	111	1	0	0	0	0	0	0	0	1	9066	1829	64	5		5	LST-3TM12	12	21200045	Silent	SNP	T	TCGA-51-4079-01A-01D-1458-08	10245064	21200045	112651850	295	41221										
ABCC9	10060	broad.mit.edu	37	chr12	21970196	21970196	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cactgcacccatctggacctCcaggtcagccaagttcctca	7	17	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:21970196C>T	uc001rfi.1	-	31	3837	c.3817G>A	c.(3817-3819)GAG>AAG	p.E1273K	ABCC9_uc001rfh.2_Missense_Mutation_p.E1273K|ABCC9_uc001rfj.1_Missense_Mutation_p.E1237K	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1273	Cytoplasmic (Potential).|ABC transmembrane type-1 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ATCTGGACCTCCAGGTCAGCC	0.373													63	189	---	---	---	---	PASS	T	21970196	T	T	21970196	3	4	111	1	0	0	0	0	1	0	0	0	59	864	30	2	1006	2	ABCC9	12	21970196	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	770151	21970196	111881699	296	41222										
KLHDC5	57542	broad.mit.edu	37	chr12	27933843	27933843	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aggcccggatgactgggactCctgtcctcgtggccctcggg	15	14	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:27933843C>T	uc001rij.2	+	1	657	c.580C>T	c.(580-582)CCT>TCT	p.P194S	KLHDC5_uc009zjj.2_RNA	NM_020782	NP_065833	Q9P2K6	KLDC5_HUMAN	kelch domain containing 5	194	Kelch 1.									ovary(1)|central_nervous_system(1)	2	Lung SC(9;0.0873)					GACTGGGACTCCTGTCCTCGT	0.672													21	40	---	---	---	---	PASS	T	27933843	T	T	27933843	3	4	111	1	0	0	0	0	1	0	0	0	8359	855	30	2	582	2	KLHDC5	12	27933843	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	5963647	27933843	105918052	297	41223										
COL2A1	1280	broad.mit.edu	37	chr12	48380931	48380931	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggccccgtggcccagggaagCcaggagcaccagcaatgcca	14	15	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:48380931C>A	uc001rqu.2	-	21	1476	c.1295G>T	c.(1294-1296)GGC>GTC	p.G432V	COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.G363V	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	432	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CCCAGGGAAGCCAGGAGCACC	0.637													41	114	---	---	---	---	PASS	A	48380931	A	A	48380931	3	1	111	1	0	0	0	0	1	0	0	0	3687	739	26	3	3304	3	COL2A1	12	48380931	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	20447088	48380931	85470964	298	41224										
SLC4A8	9498	broad.mit.edu	37	chr12	51865250	51865250	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctatgaagcaatagaaaaacTgattcacctggcagagacct	8	9	1	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:51865250T>A	uc001rys.1	+	14	2016	c.1838T>A	c.(1837-1839)CTG>CAG	p.L613Q	SLC4A8_uc010sni.1_Missense_Mutation_p.L560Q|SLC4A8_uc001rym.2_Missense_Mutation_p.L560Q|SLC4A8_uc001ryn.2_Missense_Mutation_p.L560Q|SLC4A8_uc001ryo.2_Missense_Mutation_p.L560Q|SLC4A8_uc010snj.1_Missense_Mutation_p.L640Q|SLC4A8_uc001ryq.3_Missense_Mutation_p.L613Q|SLC4A8_uc001ryr.2_Missense_Mutation_p.L613Q|SLC4A8_uc010snk.1_Missense_Mutation_p.L560Q	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	613	Helical; (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		ATAGAAAAACTGATTCACCTG	0.418													34	118	---	---	---	---	PASS	A	51865250	A	A	51865250	3	1	111	1	0	0	0	0	1	0	0	0	14659	1580	55	5	1892	5	SLC4A8	12	51865250	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	3484319	51865250	81986645	299	41225										
RARG	5916	broad.mit.edu	37	chr12	53606961	53606961	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gccggcgccgggcgtacagcCtcagggcttccagcagtggc	16	15	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:53606961C>T	uc001sce.2	-	9	1570	c.1085G>A	c.(1084-1086)AGG>AAG	p.R362K	RARG_uc001scd.2_Missense_Mutation_p.R351K|RARG_uc010sob.1_Missense_Mutation_p.R340K|RARG_uc001scf.2_Missense_Mutation_p.R362K|RARG_uc001scg.2_Missense_Mutation_p.R290K|RARG_uc010soc.1_Missense_Mutation_p.R241K	NM_000966	NP_000957	P13631	RARG_HUMAN	retinoic acid receptor, gamma isoform 1	362	Ligand-binding.				canonical Wnt receptor signaling pathway|embryonic eye morphogenesis|embryonic hindlimb morphogenesis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter|regulation of cell size|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid	integral to membrane|transcription factor complex	retinoic acid receptor activity|retinoid X receptor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			breast(2)|ovary(1)|lung(1)	4					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tazarotene(DB00799)|Tretinoin(DB00755)	GGCGTACAGCCTCAGGGCTTC	0.597											OREG0021862	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	53	---	---	---	---	PASS	T	53606961	T	T	53606961	3	4	111	1	0	0	0	0	1	0	0	0	13054	681	24	3	287	3	RARG	12	53606961	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1741711	53606961	80244934	300	41226										
BAZ2A	11176	broad.mit.edu	37	chr12	56994532	56994532	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cccattgaagcactgctaggTctgtctcgtatgtcttctct	8	12	4	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:56994532T>A	uc001slq.1	-	23	4735	c.4541A>T	c.(4540-4542)GAC>GTC	p.D1514V	BAZ2A_uc001slp.1_Missense_Mutation_p.D1512V|BAZ2A_uc001slo.1_Missense_Mutation_p.D320V|BAZ2A_uc009zov.1_Missense_Mutation_p.D480V|BAZ2A_uc009zow.1_Missense_Mutation_p.D1482V	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1514					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						CACTGCTAGGTCTGTCTCGTA	0.522													76	214	---	---	---	---	PASS	A	56994532	A	A	56994532	3	1	111	1	0	0	0	0	1	0	0	0	1331	1667	58	5	1204	5	BAZ2A	12	56994532	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	3387571	56994532	76857363	301	41227										
LRP1	4035	broad.mit.edu	37	chr12	57538835	57538835	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccttcatatgtggctgtgttGaaggatacctcctgcagccg	11	11	1	1	rs75873762		TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:57538835G>A	uc001snd.2	+	5	995	c.529G>A	c.(529-531)GAA>AAA	p.E177K	LRP1_uc010sre.1_Missense_Mutation_p.E177K|LRP1_uc001snb.2_Missense_Mutation_p.E177K|LRP1_uc001snc.1_Missense_Mutation_p.E177K	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	177	EGF-like 2; calcium-binding (Potential).|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TGGCTGTGTTGAAGGATACCT	0.562													21	60	---	---	---	---	PASS	A	57538835	A	A	57538835	3	1	111	1	0	0	0	0	1	0	0	0	8951	1291	45	2	547	2	LRP1	12	57538835	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	544303	57538835	76313060	302	41228										
LRP1	4035	broad.mit.edu	37	chr12	57599412	57599412	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccaagggcggccacctctgcAgctgcgctcggaacttcatg	12	15	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:57599412A>T	uc001snd.2	+	75	12008	c.11542A>T	c.(11542-11544)AGC>TGC	p.S3848C		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3848	Extracellular (Potential).|EGF-like 15.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CCACCTCTGCAGCTGCGCTCG	0.622													32	68	---	---	---	---	PASS	T	57599412	T	T	57599412	3	4	111	1	0	0	0	0	1	0	0	0	8951	188	7	5	11840	5	LRP1	12	57599412	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	60577	57599412	76252483	303	41229										
XRCC6BP1	91419	broad.mit.edu	37	chr12	58340811	58340811	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gatagacacttttcttgcgaAgactgtaatggaaatgtcag	10	6	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:58340811A>G	uc001sqp.2	+	3	307	c.267A>G	c.(265-267)GAA>GAG	p.E89E		NM_033276	NP_150592	Q9Y6H3	ATP23_HUMAN	XRCC6 binding protein 1	89					double-strand break repair via nonhomologous end joining	DNA-dependent protein kinase-DNA ligase 4 complex	DNA-dependent protein kinase activity|metal ion binding|metalloendopeptidase activity			ovary(1)	1						TTTCTTGCGAAGACTGTAATG	0.308													63	139	---	---	---	---	PASS	G	58340811	G	G	58340811	2	3	111	1	0	0	0	0	0	0	0	1	17455	69	3	5		5	XRCC6BP1	12	58340811	Silent	SNP	A	TCGA-51-4079-01A-01D-1458-08	741399	58340811	75511084	304	41230										
IRAK3	11213	broad.mit.edu	37	chr12	66597554	66597554	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aaagtatgtagaccaaggtaAaagtggaacaagagaattac	10	4	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:66597554A>G	uc001sth.2	+	2	299	c.197A>G	c.(196-198)AAA>AGA	p.K66R	IRAK3_uc010ssy.1_Intron	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	66	Death.				interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		GACCAAGGTAAAAGTGGAACA	0.418													23	88	---	---	---	---	PASS	G	66597554	G	G	66597554	3	3	111	1	0	0	0	0	1	0	0	0	7824	14	1	5	203	5	IRAK3	12	66597554	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	8256743	66597554	67254341	305	41231										
GRIP1	23426	broad.mit.edu	37	chr12	66932885	66932885	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggaagctcgtactctacttCaagaaccactctttctccca	5	14	4	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:66932885C>G	uc001stk.2	-	4	632	c.391G>C	c.(391-393)GAA>CAA	p.E131Q	GRIP1_uc010sta.1_Missense_Mutation_p.E75Q|GRIP1_uc001stl.1_Missense_Mutation_p.E75Q|GRIP1_uc001stm.2_Missense_Mutation_p.E131Q	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	131	PDZ 1.				androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		TACTCTACTTCAAGAACCACT	0.318													60	120	---	---	---	---	PASS	G	66932885	G	G	66932885	3	3	111	1	0	0	0	0	1	0	0	0	6787	835	29	2	2923	2	GRIP1	12	66932885	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	335331	66932885	66919010	306	41232										
UTP20	27340	broad.mit.edu	37	chr12	101738501	101738501	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cgttcactcctggagaaattGagaaaaggtctgaagagcca	11	8	2	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:101738501G>C	uc001tia.1	+	36	4734	c.4578G>C	c.(4576-4578)TTG>TTC	p.L1526F		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1526					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TGGAGAAATTGAGAAAAGGTC	0.423													43	105	---	---	---	---	PASS	C	101738501	C	C	101738501	3	2	111	1	0	0	0	0	1	0	0	0	17096	1281	45	2	4720	2	UTP20	12	101738501	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	34805616	101738501	32113394	307	41233										
NT5DC3	51559	broad.mit.edu	37	chr12	104171701	104171701	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gctgcagtggagtcctccggGggtagaaagtgtggctgacg	18	8	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:104171701G>A	uc010swe.1	-	14	1594	c.1553C>T	c.(1552-1554)CCC>CTC	p.P518L	NT5DC3_uc010swd.1_5'Flank	NM_001031701	NP_001026871	Q86UY8	NT5D3_HUMAN	5'-nucleotidase domain containing 3	518							hydrolase activity|metal ion binding			ovary(2)|skin(1)	3						AGTCCTCCGGGGGTAGAAAGT	0.612													41	87	---	---	---	---	PASS	A	104171701	A	A	104171701	3	1	111	1	0	0	0	0	1	0	0	0	10692	1232	43	3	97	3	NT5DC3	12	104171701	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	2433200	104171701	29680194	308	41234										
CUX2	23316	broad.mit.edu	37	chr12	111729337	111729337	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acttcgtggaagaggaacccCgagctcctcagccccaaagg	11	14	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:111729337C>T	uc001tsa.1	+	5	570	c.417C>T	c.(415-417)CCC>CCT	p.P139P	CUX2_uc001tsb.1_Silent_p.P194P	NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	139						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						AGAGGAACCCCGAGCTCCTCA	0.592													19	52	---	---	---	---	PASS	T	111729337	T	T	111729337	2	4	111	1	0	0	0	0	0	0	0	1	4065	639	23	1		1	CUX2	12	111729337	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	7557636	111729337	22122558	309	41235										
PTPN11	5781	broad.mit.edu	37	chr12	112888210	112888210	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agaaatttgccactttggctGagttggtccagtattacatg	10	7	0	2	rs121918464		TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:112888210G>A	uc001ttx.2	+	3	606	c.226G>A	c.(226-228)GAG>AAG	p.E76K	PTPN11_uc001ttw.1_Missense_Mutation_p.E76K	NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	76	SH2 1.		E -> D (in NS1).|E -> V (in JMML).|E -> A (in JMML; also in myelodysplastic syndrome).|E -> G (in JMML).		axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding	p.E76K(68)|p.E76G(31)|p.E76Q(11)|p.E76V(10)|p.E76A(7)|p.E76M(1)		haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						CACTTTGGCTGAGTTGGTCCA	0.423			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				47	145	---	---	---	---	PASS	A	112888210	A	A	112888210	3	1	111	1	0	0	0	0	1	0	0	0	12780	1291	45	2	236	2	PTPN11	12	112888210	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	1158873	112888210	20963685	310	41236										
LRRC43	254050	broad.mit.edu	37	chr12	122676112	122676112	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agtccgcgggcgtcctggccGaggtgtgccctggtctgtcc	16	14	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr12:122676112G>A	uc009zxm.2	+	6	1112	c.1087G>A	c.(1087-1089)GAG>AAG	p.E363K	LRRC43_uc001ubw.3_Missense_Mutation_p.E178K|LRRC43_uc009zxn.2_Missense_Mutation_p.E124K	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	363	Glu-rich.										0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		CGTCCTGGCCGAGGTGTGCCC	0.483											OREG0022219	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	91	---	---	---	---	PASS	A	122676112	A	A	122676112	3	1	111	1	0	0	0	0	1	0	0	0	9001	1059	37	2	1109	2	LRRC43	12	122676112	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	9787902	122676112	11175783	311	41237										
CDK8	1024	broad.mit.edu	37	chr13	26923311	26923311	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgtttgactatgctgaacatGacctctgggtaaggtgaatt	11	6	1	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr13:26923311G>A	uc001uqr.1	+	3	333	c.307G>A	c.(307-309)GAC>AAC	p.D103N	CDK8_uc001uqs.1_Missense_Mutation_p.D103N|CDK8_uc001uqt.1_5'UTR	NM_001260	NP_001251	P49336	CDK8_HUMAN	cyclin-dependent kinase 8	103	Protein kinase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mediator complex	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|large_intestine(1)|ovary(1)|skin(1)	5	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0384)|Epithelial(112;0.142)|OV - Ovarian serous cystadenocarcinoma(117;0.188)		TGCTGAACATGACCTCTGGGT	0.413													48	82	---	---	---	---	PASS	A	26923311	A	A	26923311	3	1	111	1	0	0	0	0	1	0	0	0	3150	1290	45	2	317	2	CDK8	13	26923311	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08		26923311	88246567	312	41238										
CDX2	1045	broad.mit.edu	37	chr13	28542963	28542963	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgccggccaggatggccccgGggactgcgcgctgtccaagt	16	14	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr13:28542963G>A	uc001urv.2	-	1	355	c.181C>T	c.(181-183)CCG>TCG	p.P61S		NM_001265	NP_001256	Q99626	CDX2_HUMAN	caudal type homeobox 2	61					organ morphogenesis|transcription from RNA polymerase II promoter		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(110;0.191)|all_hematologic(3;0.0447)|Acute lymphoblastic leukemia(6;0.155)	Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0407)|all cancers(112;0.0491)|OV - Ovarian serous cystadenocarcinoma(117;0.199)		GATGGCCCCGGGGACTGCGCG	0.602			T	ETV6	AML								4	5	---	---	---	---	PASS	A	28542963	A	A	28542963	3	1	111	1	0	0	0	0	1	0	0	0	3183	1232	43	3	772	3	CDX2	13	28542963	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	1619652	28542963	86626915	313	41239										
NEK5	341676	broad.mit.edu	37	chr13	52639728	52639728	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cctgtttcccacagcagctaCagtctgcgtggaaaaccctg	9	14	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr13:52639728C>A	uc001vge.2	-	22	2082	c.1942G>T	c.(1942-1944)GTA>TTA	p.V648L		NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	648							ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		ACAGCAGCTACAGTCTGCGTG	0.527													23	34	---	---	---	---	PASS	A	52639728	A	A	52639728	3	1	111	1	0	0	0	0	1	0	0	0	10327	478	17	3	188	3	NEK5	13	52639728	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	24096765	52639728	62530150	314	41240										
PCDH9	5101	broad.mit.edu	37	chr13	67205442	67205442	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	accagaggaagagggtgtgaGatcagggttccactacccac	13	10	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr13:67205442G>T	uc001vik.2	-	4	3932	c.3240C>A	c.(3238-3240)ATC>ATA	p.I1080I	PCDH9_uc010aei.2_RNA|PCDH9_uc001vil.2_Silent_p.I1046I|PCDH9_uc010thl.1_Intron	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	1080	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GAGGGTGTGAGATCAGGGTTC	0.562													42	51	---	---	---	---	PASS	T	67205442	T	T	67205442	2	4	111	1	0	0	0	0	0	0	0	1	11518	932	33	2		2	PCDH9	13	67205442	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	14565714	67205442	47964436	315	41241										
KLHL1	57626	broad.mit.edu	37	chr13	70293566	70293566	+	Nonsense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gcatcatgacctcctactgcAtaaagaaaaccgtcacatgt	6	12	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr13:70293566A>C	uc001vip.2	-	9	2744	c.1950T>G	c.(1948-1950)TAT>TAG	p.Y650*	KLHL1_uc010thm.1_Nonsense_Mutation_p.Y589*	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	650	Kelch 5.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		CTCCTACTGCATAAAGAAAAC	0.463													41	69	---	---	---	---	PASS	C	70293566	C	C	70293566	4	2	111	1	0	0	0	0	0	1	0	0	8365	224	8	5	308	5	KLHL1	13	70293566	Nonsense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	3088124	70293566	44876312	316	41242										
EDNRB	1910	broad.mit.edu	37	chr13	78492548	78492548	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggcgttggaacccttgggcCataaggtcttagtgggtggc	16	8	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr13:78492548C>T	uc001vko.2	-	1	419	c.161G>A	c.(160-162)TGG>TAG	p.W54*	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Nonsense_Mutation_p.W54*|EDNRB_uc010aez.1_Nonsense_Mutation_p.W54*|EDNRB_uc001vkp.1_Nonsense_Mutation_p.W137*|EDNRB_uc010afa.1_Nonsense_Mutation_p.W54*	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	54	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	ACCCTTGGGCCATAAGGTCTT	0.622													36	56	---	---	---	---	PASS	T	78492548	T	T	78492548	4	4	111	1	0	0	0	0	0	1	0	0	4920	595	21	3	1316	3	EDNRB	13	78492548	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	8198982	78492548	36677330	317	41243										
MBNL2	10150	broad.mit.edu	37	chr13	97995296	97995296	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttccctgtaggtcccgcgatAgggacaaatacggctattag	11	10	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr13:97995296A>G	uc010aft.2	+	4	1182	c.366A>G	c.(364-366)ATA>ATG	p.I122M	MBNL2_uc001vmz.2_Missense_Mutation_p.I122M|MBNL2_uc001vna.2_Missense_Mutation_p.I122M|MBNL2_uc001vnb.2_RNA|MBNL2_uc010tij.1_Intron	NM_144778	NP_659002	Q5VZF2	MBNL2_HUMAN	muscleblind-like 2 isoform 1	122					mRNA processing|regulation of RNA splicing|RNA splicing	cytoplasm|nucleus	RNA binding|zinc ion binding				0	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.218)			GTCCCGCGATAGGGACAAATA	0.443													19	51	---	---	---	---	PASS	G	97995296	G	G	97995296	3	3	111	1	0	0	0	0	1	0	0	0	9354	410	15	5	376	5	MBNL2	13	97995296	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	19502748	97995296	17174582	318	41244										
LAMP1	3916	broad.mit.edu	37	chr13	113975735	113975735	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	taagaatgcaagttctagccGgtttttcctacaaggaatcc	8	9	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr13:113975735G>T	uc001vtm.1	+	7	1174	c.893G>T	c.(892-894)CGG>CTG	p.R298L	LAMP1_uc010tka.1_Missense_Mutation_p.R245L	NM_005561	NP_005552	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	298	Lumenal (Potential).|Second lumenal domain.					endosome membrane|integral to plasma membrane|lysosomal membrane|membrane fraction				central_nervous_system(2)	2	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			AGTTCTAGCCGGTTTTTCCTA	0.348													45	74	---	---	---	---	PASS	T	113975735	T	T	113975735	3	4	111	1	0	0	0	0	1	0	0	0	8617	1116	39	1	919	1	LAMP1	13	113975735	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	15980439	113975735	1194143	319	41245										
OR4N2	390429	broad.mit.edu	37	chr14	20295656	20295656	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gagaattcatcctccttggtCtgacccagtctcaagatatt	7	11	3	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:20295656C>A	uc010tkv.1	+	1	49	c.49C>A	c.(49-51)CTG>ATG	p.L17M		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CCTCCTTGGTCTGACCCAGTC	0.378													44	183	---	---	---	---	PASS	A	20295656	A	A	20295656	3	1	111	1	0	0	0	0	1	0	0	0	11077	912	32	2	51	2	OR4N2	14	20295656	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08		20295656	87053884	320	41246										
OR4N2	390429	broad.mit.edu	37	chr14	20295971	20295971	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttgttgtgatggcctttgacCgctacatcgccatctgccgg	11	12	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:20295971C>A	uc010tkv.1	+	1	364	c.364C>A	c.(364-366)CGC>AGC	p.R122S		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GGCCTTTGACCGCTACATCGC	0.507													58	145	---	---	---	---	PASS	A	20295971	A	A	20295971	3	1	111	1	0	0	0	0	1	0	0	0	11077	652	23	1	366	1	OR4N2	14	20295971	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	315	20295971	87053569	321	41247										
OR4L1	122742	broad.mit.edu	37	chr14	20528917	20528917	+	Silent	SNP	C	A	A													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gggctctccaaggcgctgtcCacattgtctgcccacatcat							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:20528917C>A	uc001vwn.1	+	1	714	c.714C>A	c.(712-714)TCC>TCA	p.S238S		NM_001004717	NP_001004717	Q8NH43	OR4L1_HUMAN	olfactory receptor, family 4, subfamily L,	238	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		AGGCGCTGTCCACATTGTCTG	0.423													32	123	---	---	---	---	PASS	A	20528917	A	A	20528917	2	1	111	1	0	0	0	0	0	0	0	1	11074	581	21	3		3	OR4L1	14	20528917	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	232946	20528917	86820623	322	41248	771	2								
OR4L1	122742	broad.mit.edu	37	chr14	20528919	20528919	+	Missense_Mutation	SNP	C	A	A													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gctctccaaggcgctgtccaCattgtctgcccacatcattg							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:20528919C>A	uc001vwn.1	+	1	716	c.716C>A	c.(715-717)ACA>AAA	p.T239K		NM_001004717	NP_001004717	Q8NH43	OR4L1_HUMAN	olfactory receptor, family 4, subfamily L,	239	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		GCGCTGTCCACATTGTCTGCC	0.428													28	124	---	---	---	---	PASS	A	20528919	A	A	20528919	3	1	111	1	0	0	0	0	1	0	0	0	11074	478	17	3	718	3	OR4L1	14	20528919	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	2	20528919	86820621	323	41249	771	2								
CHD8	57680	broad.mit.edu	37	chr14	21860938	21860938	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgagagtacagcctggcagaCgaggtcaatacggtttatca	12	8	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:21860938C>A	uc001was.1	-	34	5756	c.5662G>T	c.(5662-5664)GTC>TTC	p.V1888F	CHD8_uc001war.1_Missense_Mutation_p.V1784F|SNORD9_uc001wat.1_5'Flank	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	2167					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		GCCTGGCAGACGAGGTCAATA	0.483													39	97	---	---	---	---	PASS	A	21860938	A	A	21860938	3	1	111	1	0	0	0	0	1	0	0	0	3331	536	19	1	1266	1	CHD8	14	21860938	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1332019	21860938	85488602	324	41250										
MYH7	4625	broad.mit.edu	37	chr14	23902340	23902340	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cttgaggttgtagagcaccgCgggctcatgcaggaaggtca	15	9	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:23902340C>A	uc001wjx.2	-	4	404	c.298G>T	c.(298-300)GCG>TCG	p.A100S		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	100	Myosin head-like.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TAGAGCACCGCGGGCTCATGC	0.567													35	78	---	---	---	---	PASS	A	23902340	A	A	23902340	3	1	111	1	0	0	0	0	1	0	0	0	10039	768	27	1	5657	1	MYH7	14	23902340	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	2041402	23902340	83447200	325	41251										
PRKD1	5587	broad.mit.edu	37	chr14	30135294	30135294	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ataacttaccttcacatttaAgaccttgacgtaccagcccc	4	14	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:30135294A>T	uc001wqh.2	-	3	705	c.524T>A	c.(523-525)CTT>CAT	p.L175H		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	175	Phorbol-ester/DAG-type 1.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TTCACATTTAAGACCTTGACG	0.323													27	134	---	---	---	---	PASS	T	30135294	T	T	30135294	3	4	111	1	0	0	0	0	1	0	0	0	12518	72	3	5	2278	5	PRKD1	14	30135294	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	6232954	30135294	77214246	326	41252										
MDGA2	161357	broad.mit.edu	37	chr14	47324238	47324238	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttttcttacctgaaatgaagTaattgggtatatattaacat	6	4	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:47324238T>C	uc001wwj.3	-	15	2861	c.2665A>G	c.(2665-2667)ACT>GCT	p.T889A	MDGA2_uc001wwh.3_Missense_Mutation_p.T91A|MDGA2_uc001wwi.3_Missense_Mutation_p.T660A	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	889	MAM.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						TGAAATGAAGTAATTGGGTAT	0.323													21	87	---	---	---	---	PASS	C	47324238	C	C	47324238	3	2	111	1	0	0	0	0	1	0	0	0	9407	1638	57	5	217	5	MDGA2	14	47324238	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	17188944	47324238	60025302	327	41253										
CDKL1	8814	broad.mit.edu	37	chr14	50856878	50856878	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagtagatgattccttctctTtgtctcacttgtttttcttg	6	9	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:50856878T>C	uc010anu.1	-	7	939	c.939A>G	c.(937-939)CAA>CAG	p.Q313Q	CDKL1_uc001wxz.2_Intron	NM_004196	NP_004187	Q00532	CDKL1_HUMAN	cyclin-dependent kinase-like 1	Error:Variant_position_missing_in_Q00532_after_alignment						cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(1)|stomach(1)	2	all_epithelial(31;0.000746)|Breast(41;0.0102)					TTCCTTCTCTTTGTCTCACTT	0.418													54	127	---	---	---	---	PASS	C	50856878	C	C	50856878	2	2	111	1	0	0	0	0	0	0	0	1	3153	1856	64	5		5	CDKL1	14	50856878	Silent	SNP	T	TCGA-51-4079-01A-01D-1458-08	3532640	50856878	56492662	328	41254										
DDHD1	80821	broad.mit.edu	37	chr14	53619407	53619407	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcctttccccgggggaccctCctgtcgcgccgccgcccccc	10	23	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:53619407C>G	uc001xai.2	-	1	640	c.410G>C	c.(409-411)GGA>GCA	p.G137A	DDHD1_uc001xaj.2_Missense_Mutation_p.G137A|DDHD1_uc001xah.2_Missense_Mutation_p.G137A	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	137					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					GGGGGACCCTCCTGTCGCGCC	0.746													4	24	---	---	---	---	PASS	G	53619407	G	G	53619407	3	3	111	1	0	0	0	0	1	0	0	0	4326	855	30	2	2369	2	DDHD1	14	53619407	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	2762529	53619407	53730133	329	41255										
DLGAP5	9787	broad.mit.edu	37	chr14	55655860	55655860	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	taatcatttcagtacttataTccttcctgtgtcgactggca	6	10	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:55655860T>A	uc001xbs.2	-	2	255	c.38A>T	c.(37-39)GAT>GTT	p.D13V	DLGAP5_uc001xbt.2_Missense_Mutation_p.D13V	NM_014750	NP_055565	Q15398	DLGP5_HUMAN	discs large homolog 7 isoform a	13					cell proliferation|cell-cell signaling|mitotic chromosome movement towards spindle pole|positive regulation of mitotic metaphase/anaphase transition	nucleus|spindle pole centrosome	phosphoprotein phosphatase activity|protein binding			ovary(1)|skin(1)	2						AGTACTTATATCCTTCCTGTG	0.323													13	63	---	---	---	---	PASS	A	55655860	A	A	55655860	3	1	111	1	0	0	0	0	1	0	0	0	4563	1435	50	5	2669	5	DLGAP5	14	55655860	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	2036453	55655860	51693680	330	41256										
SPTB	6710	broad.mit.edu	37	chr14	65262276	65262276	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagggctctcacccgctcctCgtaggcagccgtgtcggtct	12	16	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:65262276C>A	uc001xht.2	-	11	1477	c.1423G>T	c.(1423-1425)GAG>TAG	p.E475*	SPTB_uc001xhr.2_Nonsense_Mutation_p.E475*|SPTB_uc001xhs.2_Nonsense_Mutation_p.E475*|SPTB_uc001xhu.2_Nonsense_Mutation_p.E475*	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	475	Spectrin 2.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		ACCCGCTCCTCGTAGGCAGCC	0.592													16	71	---	---	---	---	PASS	A	65262276	A	A	65262276	4	1	111	1	0	0	0	0	0	1	0	0	15117	893	31	2	5732	2	SPTB	14	65262276	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	9606416	65262276	42087264	331	41257										
SLC24A4	123041	broad.mit.edu	37	chr14	92922883	92922883	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agaatcaggagcagcagccgCcgccacagccaccaccgcca	10	18	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:92922883C>G	uc001yak.2	+	12	1159	c.1135C>G	c.(1135-1137)CCG>GCG	p.P379A	SLC24A4_uc001yai.2_Missense_Mutation_p.P332A|SLC24A4_uc010twm.1_Missense_Mutation_p.P377A|SLC24A4_uc001yaj.2_Missense_Mutation_p.P360A|SLC24A4_uc010auj.2_Missense_Mutation_p.P268A|SLC24A4_uc010twn.1_Missense_Mutation_p.P152A|SLC24A4_uc001yan.2_Missense_Mutation_p.P90A	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	396	Extracellular (Potential).|Poly-Pro.					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		GCAGCAGCCGCCGCCACAGCC	0.617											OREG0022876	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	31	---	---	---	---	PASS	G	92922883	G	G	92922883	3	3	111	1	0	0	0	0	1	0	0	0	14468	739	26	4	1181	4	SLC24A4	14	92922883	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	27660607	92922883	14426657	332	41258										
IFI27	3429	broad.mit.edu	37	chr14	94582791	94582791	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cttcccaggagcaactggacTctccggattgaccaagttca	9	13	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:94582791T>G	uc010tws.1	+	5	475	c.354T>G	c.(352-354)ACT>ACG	p.T118T	IFI27_uc001yco.2_Missense_Mutation_p.L99R	NM_005532	NP_005523	P40305	IFI27_HUMAN	interferon, alpha-inducible protein 27 isoform	Error:Variant_position_missing_in_P40305_after_alignment					activation of caspase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|type I interferon-mediated signaling pathway	integral to membrane|mitochondrion					0				Epithelial(152;0.112)|all cancers(159;0.187)|COAD - Colon adenocarcinoma(157;0.206)		GCAACTGGACTCTCCGGATTG	0.597													9	24	---	---	---	---	PASS	G	94582791	G	G	94582791	2	3	111	1	0	0	0	0	0	0	0	1	7512	1551	54	5		5	IFI27	14	94582791	Silent	SNP	T	TCGA-51-4079-01A-01D-1458-08	1659908	94582791	12766749	333	41259										
GLRX5	51218	broad.mit.edu	37	chr14	96010432	96010432	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gggatccactccgcccttttAgatgaaaagaaagaccaaga	9	10	0	5			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr14:96010432A>T	uc001yem.1	+	2	548	c.444A>T	c.(442-444)TTA>TTT	p.L148F		NM_016417	NP_057501	Q86SX6	GLRX5_HUMAN	glutaredoxin 5	148					cell redox homeostasis|hemopoiesis	mitochondrion	2 iron, 2 sulfur cluster binding|electron carrier activity|metal ion binding|protein disulfide oxidoreductase activity				0		all_cancers(154;0.135)		Epithelial(152;0.133)|COAD - Colon adenocarcinoma(157;0.21)|all cancers(159;0.212)		CCGCCCTTTTAGATGAAAAGA	0.522													28	35	---	---	---	---	PASS	T	96010432	T	T	96010432	3	4	111	1	0	0	0	0	1	0	0	0	6462	417	15	5	450	5	GLRX5	14	96010432	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	1427641	96010432	11339108	334	41260										
OR4N4	283694	broad.mit.edu	37	chr15	22382682	22382682	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggcaacttggccttcctggaTgcatcctactccttcattgt	8	13	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr15:22382682T>A	uc001yuc.1	+	7	1191	c.210T>A	c.(208-210)GAT>GAA	p.D70E	LOC727924_uc001yub.1_RNA|OR4N4_uc010tzv.1_Missense_Mutation_p.D70E	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	70	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CCTTCCTGGATGCATCCTACT	0.478													73	280	---	---	---	---	PASS	A	22382682	A	A	22382682	3	1	111	1	0	0	0	0	1	0	0	0	11078	1461	51	5	212	5	OR4N4	15	22382682	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08		22382682	80148710	335	41261										
GABRG3	2567	broad.mit.edu	37	chr15	27572176	27572176	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gaaaatcctttacactttgaGgtaagatgctgcatcgatct	8	8	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr15:27572176G>T	uc001zbg.1	+	4	657	c.491G>T	c.(490-492)AGG>ATG	p.R164M	GABRG3_uc001zbf.2_Missense_Mutation_p.R164M	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	164	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		TACACTTTGAGGTAAGATGCT	0.423													6	13	---	---	---	---	PASS	T	27572176	T	T	27572176	3	4	111	1	0	0	0	0	1	0	0	0	6173	1014	35	3	505	3	GABRG3	15	27572176	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	5189494	27572176	74959216	336	41262										
RYR3	6263	broad.mit.edu	37	chr15	33822813	33822813	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gcagcacaaggaggtggccaCaggaccctgttatacggcca	13	12	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr15:33822813C>A	uc001zhi.2	+	4	370	c.300C>A	c.(298-300)CAC>CAA	p.H100Q	RYR3_uc010bar.2_Missense_Mutation_p.H100Q	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	100	Cytoplasmic (By similarity).|MIR 1.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GAGGTGGCCACAGGACCCTGT	0.522													15	23	---	---	---	---	PASS	A	33822813	A	A	33822813	3	1	111	1	0	0	0	0	1	0	0	0	13770	477	17	3	314	3	RYR3	15	33822813	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	6250637	33822813	68708579	337	41263										
RYR3	6263	broad.mit.edu	37	chr15	34049713	34049713	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgaccagtacttcaccagtcAttgcctctacttcttgtcat	5	13	5	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr15:34049713A>T	uc001zhi.2	+	60	8691	c.8621A>T	c.(8620-8622)CAT>CTT	p.H2874L	RYR3_uc010bar.2_Missense_Mutation_p.H2874L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2874	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTCACCAGTCATTGCCTCTAC	0.483													9	4	---	---	---	---	PASS	T	34049713	T	T	34049713	3	4	111	1	0	0	0	0	1	0	0	0	13770	217	8	5	8859	5	RYR3	15	34049713	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	226900	34049713	68481679	338	41264										
WDR72	256764	broad.mit.edu	37	chr15	54007484	54007484	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acaacagccaaagttttggcAtcaattataaggacatcttg	7	8	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr15:54007484A>G	uc002acj.2	-	5	462	c.420T>C	c.(418-420)GAT>GAC	p.D140D	WDR72_uc010bfi.1_Silent_p.D140D	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	140										lung(1)|skin(1)	2				all cancers(107;0.0511)		AAGTTTTGGCATCAATTATAA	0.403													24	66	---	---	---	---	PASS	G	54007484	G	G	54007484	2	3	111	1	0	0	0	0	0	0	0	1	17319	214	8	5		5	WDR72	15	54007484	Silent	SNP	A	TCGA-51-4079-01A-01D-1458-08	19957771	54007484	48523908	339	41265										
PRTG	283659	broad.mit.edu	37	chr15	55974607	55974607	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	catacttttacgtcggtgggCtacagtggcagcaatacaac	10	10	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr15:55974607C>T	uc002adg.2	-	4	679	c.631G>A	c.(631-633)GCC>ACC	p.A211T		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	211	Ig-like 2.				multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		CGTCGGTGGGCTACAGTGGCA	0.448													21	44	---	---	---	---	PASS	T	55974607	T	T	55974607	3	4	111	1	0	0	0	0	1	0	0	0	12638	797	28	3	2889	3	PRTG	15	55974607	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1967123	55974607	46556785	340	41266										
PPIB	5479	broad.mit.edu	37	chr15	64455064	64455064	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	accggaccttgacggtgactTtgggccccttcttcttctca	9	14	3	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr15:64455064T>A	uc002and.2	-	1	291	c.122A>T	c.(121-123)AAA>ATA	p.K41I	PPIB_uc010bgx.1_Missense_Mutation_p.K33I	NM_000942	NP_000933	P23284	PPIB_HUMAN	peptidylprolyl isomerase B precursor	41					protein folding	endoplasmic reticulum lumen|melanosome	peptide binding|peptidyl-prolyl cis-trans isomerase activity|unfolded protein binding				0					L-Proline(DB00172)	GACGGTGACTTTGGGCCCCTT	0.672													6	19	---	---	---	---	PASS	A	64455064	A	A	64455064	3	1	111	1	0	0	0	0	1	0	0	0	12319	1841	64	5	548	5	PPIB	15	64455064	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	8480457	64455064	38076328	341	41267										
RPL4	6124	broad.mit.edu	37	chr15	66792511	66792511	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aggactctgcgatggatcttCttgctataaaaaagcagata	9	7	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr15:66792511C>T	uc002apv.2	-	9	977	c.921G>A	c.(919-921)AAG>AAA	p.K307K	SNAPC5_uc002apu.1_5'Flank|RPL4_uc010bhr.2_Silent_p.K213K|RPL4_uc002apw.2_Silent_p.K213K|RPL4_uc002apx.2_Silent_p.K213K	NM_000968	NP_000959	P36578	RL4_HUMAN	ribosomal protein L4	307					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						GATGGATCTTCTTGCTATAAA	0.373													39	87	---	---	---	---	PASS	T	66792511	T	T	66792511	2	4	111	1	0	0	0	0	0	0	0	1	13595	912	32	2		2	RPL4	15	66792511	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	2337447	66792511	35738881	342	41268										
C15orf39	56905	broad.mit.edu	37	chr15	75500622	75500622	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cccgggatccagctccagctCcagctccagttgcaggccct	10	18	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr15:75500622C>A	uc002azp.3	+	2	2553	c.2233C>A	c.(2233-2235)CCA>ACA	p.P745T	C15orf39_uc002azq.3_Missense_Mutation_p.P745T|C15orf39_uc002azr.3_Missense_Mutation_p.P143T	NM_015492	NP_056307	Q6ZRI6	CO039_HUMAN	hypothetical protein LOC56905	745											0						agctccagctccagctccagt	0.209													6	10	---	---	---	---	PASS	A	75500622	A	A	75500622	3	1	111	1	0	0	0	0	1	0	0	0	1793	855	30	2	2235	2	C15orf39	15	75500622	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	8708111	75500622	27030770	343	41269										
IREB2	3658	broad.mit.edu	37	chr15	78764103	78764103	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggagttcaagagtttttaaGaatgtggcagtgatccctcc	11	7	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr15:78764103G>A	uc002bdr.2	+	7	882	c.720G>A	c.(718-720)AAG>AAA	p.K240K	IREB2_uc010unb.1_5'UTR|IREB2_uc002bdq.2_Silent_p.K240K	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	240							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		GAGTTTTTAAGAATGTGGCAG	0.318													19	40	---	---	---	---	PASS	A	78764103	A	A	78764103	2	1	111	1	0	0	0	0	0	0	0	1	7826	933	33	2		2	IREB2	15	78764103	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	3263481	78764103	23767289	344	41270										
EFTUD1	79631	broad.mit.edu	37	chr15	82431031	82431031	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gaatactagttgtgggctggCcaggccacttgtcctcttcc	11	12	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr15:82431031C>G	uc002bgt.1	-	19	3311	c.3142G>C	c.(3142-3144)GCC>CCC	p.A1048P	EFTUD1_uc002bgs.1_Missense_Mutation_p.A419P|EFTUD1_uc002bgu.1_Missense_Mutation_p.A997P	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	1048					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						TGTGGGCTGGCCAGGCCACTT	0.463													54	116	---	---	---	---	PASS	G	82431031	G	G	82431031	3	3	111	1	0	0	0	0	1	0	0	0	4960	739	26	4	228	4	EFTUD1	15	82431031	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	3666928	82431031	20100361	345	41271										
DET1	55070	broad.mit.edu	37	chr15	89074069	89074069	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tttgagggaattgatgaaagGatccctaaagggattggcca	13	5	0	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr15:89074069G>A	uc002bmr.2	-	2	1020	c.868C>T	c.(868-870)CCT>TCT	p.P290S	DET1_uc002bmp.3_RNA|DET1_uc010bnk.2_RNA|DET1_uc002bmq.2_Missense_Mutation_p.P301S	NM_001144074	NP_001137546	Q7L5Y6	DET1_HUMAN	de-etiolated 1 isoform 2	290						nucleus				lung(1)|pancreas(1)	2	Lung NSC(78;0.105)|all_lung(78;0.182)		BRCA - Breast invasive adenocarcinoma(143;0.188)			TTGATGAAAGGATCCCTAAAG	0.522													8	40	---	---	---	---	PASS	A	89074069	A	A	89074069	3	1	111	1	0	0	0	0	1	0	0	0	4450	1174	41	2	800	2	DET1	15	89074069	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	6643038	89074069	13457323	346	41272										
CHTF18	63922	broad.mit.edu	37	chr16	843154	843155	+	Frame_Shift_Ins	INS	-	C	C													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tatgtctagttcctgtacagINSccggggccagcgggagctga							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr16:843154_843155insC	uc002cke.3	+	14	1745_1746	c.1682_1683insC	c.(1681-1683)AGCfs	p.S561fs	CHTF18_uc010bre.1_RNA|CHTF18_uc002ckf.3_Frame_Shift_Ins_p.S589fs|CHTF18_uc010brf.2_Frame_Shift_Ins_p.S143fs|CHTF18_uc002ckg.3_Frame_Shift_Ins_p.S79fs	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	561					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity			kidney(1)	1		Hepatocellular(780;0.00335)				TTCCTGTACAGCCGGGGCCAGC	0.698													21	12	---	---	---	---		C	843155	C	C	843154	7	5	111	1	0	1	1	0	0	0	0	0	3414	971	34	0	1736	0	CHTF18	16	843154	Frame_Shift_Ins	INS	-	TCGA-51-4079-01A-01D-1458-08		843154	89511599	347	41273										
PKD1	5310	broad.mit.edu	37	chr16	2158623	2158623	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cctcccagcggtactcagtcTggtaggtgacgcagtcgcgc	13	14	2	1	rs147685291	byFrequency	TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr16:2158623T>C	uc002cos.1	-	15	6754	c.6545A>G	c.(6544-6546)CAG>CGG	p.Q2182R	PKD1_uc002cot.1_Missense_Mutation_p.Q2182R	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2182	Extracellular (Potential).|REJ.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GTACTCAGTCTGGTAGGTGAC	0.706													4	0	---	---	---	---	PASS	C	2158623	C	C	2158623	3	2	111	1	0	0	0	0	1	0	0	0	11963	1580	55	5	6494	5	PKD1	16	2158623	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	1315469	2158623	88196130	348	41274										
TMC7	79905	broad.mit.edu	37	chr16	19027774	19027774	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atcatgttttccatgcagggAcattcaagagacacaaatga	8	8	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr16:19027774A>G	uc002dfq.2	+	3	444	c.314A>G	c.(313-315)GAC>GGC	p.D105G	TMC7_uc010vao.1_Missense_Mutation_p.D105G|TMC7_uc002dfp.2_Missense_Mutation_p.D105G|TMC7_uc010vap.1_5'UTR	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	105	Extracellular (Potential).					integral to membrane				skin(2)|ovary(1)	3						CCATGCAGGGACATTCAAGAG	0.383													14	36	---	---	---	---	PASS	G	19027774	G	G	19027774	3	3	111	1	0	0	0	0	1	0	0	0	15987	275	10	5	324	5	TMC7	16	19027774	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	16869151	19027774	71326979	349	41275										
GP2	2813	broad.mit.edu	37	chr16	20335293	20335293	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggtgatgccatccccaaggGcagggtgggtcccattcagc	14	12	1	1	rs144565957		TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr16:20335293G>T	uc002dgv.2	-	3	463	c.380C>A	c.(379-381)GCC>GAC	p.A127D	GP2_uc002dgw.2_Missense_Mutation_p.A127D|GP2_uc002dgx.2_Intron|GP2_uc002dgy.2_Intron	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	127						anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						ATCCCCAAGGGCAGGGTGGGT	0.602													28	98	---	---	---	---	PASS	T	20335293	T	T	20335293	3	4	111	1	0	0	0	0	1	0	0	0	6582	1203	42	3	1273	3	GP2	16	20335293	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	1307519	20335293	70019460	350	41276										
ACSM5	54988	broad.mit.edu	37	chr16	20442370	20442370	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	caagtctggatccatggggaAggcgtccccaccctacgatg	12	13	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr16:20442370A>T	uc002dhe.2	+	9	1328	c.1181A>T	c.(1180-1182)AAG>ATG	p.K394M		NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	394					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2						TCCATGGGGAAGGCGTCCCCA	0.552													77	255	---	---	---	---	PASS	T	20442370	T	T	20442370	3	4	111	1	0	0	0	0	1	0	0	0	187	72	3	5	1211	5	ACSM5	16	20442370	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	107077	20442370	69912383	351	41277										
CDH8	1006	broad.mit.edu	37	chr16	61854938	61854938	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gatgactgtgcattttcaccAatatcctgatcattggcctt	7	10	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr16:61854938A>T	uc002eog.1	-	6	1167	c.915T>A	c.(913-915)ATT>ATA	p.I305I	CDH8_uc002eoh.2_Silent_p.I74I	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	305	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		CATTTTCACCAATATCCTGAT	0.438													29	69	---	---	---	---	PASS	T	61854938	T	T	61854938	2	4	111	1	0	0	0	0	0	0	0	1	3116	126	5	5		5	CDH8	16	61854938	Silent	SNP	A	TCGA-51-4079-01A-01D-1458-08	41412568	61854938	28499815	352	41278										
SMPD3	55512	broad.mit.edu	37	chr16	68398689	68398689	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	caaagttgaaatctccacagAcgacgtcaaatgccaccagc	7	13	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr16:68398689A>G	uc002ewa.2	-	5	1942	c.1520T>C	c.(1519-1521)GTC>GCC	p.V507A	SMPD3_uc010cfe.2_Missense_Mutation_p.V507A|SMPD3_uc010vlh.1_Missense_Mutation_p.V507A	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	507	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	ATCTCCACAGACGACGTCAAA	0.597													26	85	---	---	---	---	PASS	G	68398689	G	G	68398689	3	3	111	1	0	0	0	0	1	0	0	0	14806	275	10	5	467	5	SMPD3	16	68398689	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	6543751	68398689	21956064	353	41279										
HAS3	3038	broad.mit.edu	37	chr16	69143722	69143722	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcttccacgaggtgctgggcGgcaccgagcaggccggcttc	15	14	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr16:69143722G>T	uc010cfh.2	+	2	648	c.424G>T	c.(424-426)GGC>TGC	p.G142C	HAS3_uc002ewk.2_Missense_Mutation_p.G142C|HAS3_uc010vlk.1_Missense_Mutation_p.G142C|HAS3_uc002ewl.2_Missense_Mutation_p.G142C	NM_005329	NP_005320	O00219	HAS3_HUMAN	hyaluronan synthase 3 isoform a	142	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to plasma membrane	hyaluronan synthase activity				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.0694)		GGTGCTGGGCGGCACCGAGCA	0.647													24	69	---	---	---	---	PASS	T	69143722	T	T	69143722	3	4	111	1	0	0	0	0	1	0	0	0	6963	1116	39	1	426	1	HAS3	16	69143722	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	745033	69143722	21211031	354	41280										
ANKRD11	29123	broad.mit.edu	37	chr16	89351302	89351302	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggaagaaatggttttccaatTgtctgtccgccagtgcttgg	12	8	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr16:89351302T>C	uc002fmx.1	-	9	2109	c.1648A>G	c.(1648-1650)AAT>GAT	p.N550D	ANKRD11_uc002fmy.1_Missense_Mutation_p.N550D|ANKRD11_uc002fnc.1_Missense_Mutation_p.N550D|ANKRD11_uc002fnb.1_Missense_Mutation_p.N507D	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	550	Ser-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		GTTTTCCAATTGTCTGTCCGC	0.572													31	39	---	---	---	---	PASS	C	89351302	C	C	89351302	3	2	111	1	0	0	0	0	1	0	0	0	639	1812	63	5	6363	5	ANKRD11	16	89351302	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	20207580	89351302	1003451	355	41281										
SPIRE2	84501	broad.mit.edu	37	chr16	89920893	89920893	+	Splice_Site	SNP	A	T	T													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	attctcttcccctggggcccAggcccgactgtgggttcagc							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr16:89920893A>T	uc002foz.1	+	5	779	c.727_splice	c.e5-2	p.A243_splice	SPIRE2_uc010civ.1_Splice_Site_p.A158_splice|SPIRE2_uc010ciw.1_Splice_Site_p.A243_splice|SPIRE2_uc002fpa.1_Splice_Site_p.A195_splice|SPIRE2_uc010cix.1_Splice_Site_p.A112_splice	NM_032451	NP_115827	Q8WWL2	SPIR2_HUMAN	spire homolog 2						transport	cytoplasm|cytoskeleton	actin binding			central_nervous_system(1)	1		Lung NSC(15;5.15e-06)|all_lung(18;8.38e-06)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0286)		CCTGGGGCCCAGGCCCGACTG	0.672													18	35	---	---	---	---	PASS	T	89920893	T	T	89920893	5	4	111	1	0	0	0	0	0	0	1	0	15071	202	7	5	743	5	SPIRE2	16	89920893	Splice_Site	SNP	A	TCGA-51-4079-01A-01D-1458-08	569591	89920893	433860	356	41282	772	2								
SPIRE2	84501	broad.mit.edu	37	chr16	89920895	89920895	+	Missense_Mutation	SNP	G	T	T													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tctcttcccctggggcccagGcccgactgtgggttcagctc							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr16:89920895G>T	uc002foz.1	+	5	779	c.727G>T	c.(727-729)GCC>TCC	p.A243S	SPIRE2_uc010civ.1_Missense_Mutation_p.A158S|SPIRE2_uc010ciw.1_Missense_Mutation_p.A243S|SPIRE2_uc002fpa.1_Missense_Mutation_p.A195S|SPIRE2_uc010cix.1_Missense_Mutation_p.A112S	NM_032451	NP_115827	Q8WWL2	SPIR2_HUMAN	spire homolog 2	243					transport	cytoplasm|cytoskeleton	actin binding			central_nervous_system(1)	1		Lung NSC(15;5.15e-06)|all_lung(18;8.38e-06)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0286)		TGGGGCCCAGGCCCGACTGTG	0.672													17	36	---	---	---	---	PASS	T	89920895	T	T	89920895	3	4	111	1	0	0	0	0	1	0	0	0	15071	1217	42	3	745	3	SPIRE2	16	89920895	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	2	89920895	433858	357	41283	772	2								
TUBB3	10381	broad.mit.edu	37	chr16	89985821	89985821	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cctcagcctggggctggtgaGcttggtggagaacgcgctgg	18	10	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr16:89985821G>A	uc002fpf.2	+	1	563	c.155G>A	c.(154-156)AGC>AAC	p.S52N	MC1R_uc002fpe.3_Missense_Mutation_p.S52N|TUBB3_uc010ciz.1_5'Flank	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	Error:Variant_position_missing_in_Q13509_after_alignment					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GGGCTGGTGAGCTTGGTGGAG	0.642													34	55	---	---	---	---	PASS	A	89985821	A	A	89985821	3	1	111	1	0	0	0	0	1	0	0	0	16754	971	34	3		3	TUBB3	16	89985821	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	64926	89985821	368932	358	41284										
PITPNM3	83394	broad.mit.edu	37	chr17	6381393	6381393	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atcgaaggccaggaggccccCcacacagtccccgatgagac	11	16	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr17:6381393C>A	uc002gdd.3	-	8	953	c.802G>T	c.(802-804)GGG>TGG	p.G268W	PITPNM3_uc010cln.2_Missense_Mutation_p.G232W|PITPNM3_uc002gdc.3_5'UTR	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	268					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		AGGAGGCCCCCCACACAGTCC	0.672													69	41	---	---	---	---	PASS	A	6381393	A	A	6381393	3	1	111	1	0	0	0	0	1	0	0	0	11952	623	22	3	2174	3	PITPNM3	17	6381393	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08		6381393	74813817	359	41285										
TP53	7157	broad.mit.edu	37	chr17	7579545	7579545	+	Frame_Shift_Del	DEL	C	-	-													0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gaaccattgttcaatatcgtCcggggacagcatcaaatcat							TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr17:7579545delC	uc002gim.2	-	4	336	c.142delG	c.(142-144)GACfs	p.D48fs	TP53_uc002gig.1_Frame_Shift_Del_p.D48fs|TP53_uc002gih.2_Frame_Shift_Del_p.D48fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Frame_Shift_Del_p.D48fs|TP53_uc010cni.1_Frame_Shift_Del_p.D48fs|TP53_uc002gij.2_Frame_Shift_Del_p.D48fs|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Frame_Shift_Del_p.D9fs|TP53_uc010cnk.1_Frame_Shift_Del_p.D63fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	48	TADII.|Interaction with HRMT1L2.		D -> G (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.D48fs*55(1)|p.D48D(1)|p.P13fs*18(1)|p.S46_D49delSPDD(1)|p.S33fs*23(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)		TCAATATCGTCCGGGGACAGC	0.527		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)			168	204	---	---	---	---		-	7579545	-	-	7579545	7	5	111	1	0	1	0	1	0	0	0	0	16378	855	30	0	1160	0	TP53	17	7579545	Frame_Shift_Del	DEL	C	TCGA-51-4079-01A-01D-1458-08	1198152	7579545	73615665	360	41286										
RAI1	10743	broad.mit.edu	37	chr17	17699777	17699777	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gggccggctccccaactgccGtgccaccaagaagctcctcg	11	18	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr17:17699777G>T	uc002grm.2	+	3	3984	c.3515G>T	c.(3514-3516)CGT>CTT	p.R1172L	RAI1_uc002grn.1_Missense_Mutation_p.R1172L	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1172	Nuclear localization signal (Potential).					cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CCCAACTGCCGTGCCACCAAG	0.642													17	51	---	---	---	---	PASS	T	17699777	T	T	17699777	3	4	111	1	0	0	0	0	1	0	0	0	13007	1145	40	1	3517	1	RAI1	17	17699777	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	10120232	17699777	63495433	361	41287										
MYO15A	51168	broad.mit.edu	37	chr17	18046882	18046882	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	acatcttctcttctgaagctGagggcagagtggaggtgcca	13	9	3	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr17:18046882G>A	uc010vxh.1	+	25	6251	c.5913G>A	c.(5911-5913)CTG>CTA	p.L1971L		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1971	IQ 3.|Neck or regulatory domain.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					TTCTGAAGCTGAGGGCAGAGT	0.667													7	9	---	---	---	---	PASS	A	18046882	A	A	18046882	2	1	111	1	0	0	0	0	0	0	0	1	10063	1277	45	2		2	MYO15A	17	18046882	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	347105	18046882	63148328	362	41288										
SUPT6H	6830	broad.mit.edu	37	chr17	27009987	27009987	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cctactccagaagctgtgctAgaaggcgcccgctacatggt	11	13	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr17:27009987A>G	uc002hby.2	+	15	1845	c.1755A>G	c.(1753-1755)CTA>CTG	p.L585L	SUPT6H_uc010crt.2_Silent_p.L585L	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	585					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					AAGCTGTGCTAGAAGGCGCCC	0.577													10	37	---	---	---	---	PASS	G	27009987	G	G	27009987	2	3	111	1	0	0	0	0	0	0	0	1	15397	407	15	5		5	SUPT6H	17	27009987	Silent	SNP	A	TCGA-51-4079-01A-01D-1458-08	8963105	27009987	54185223	363	41289										
AP2B1	163	broad.mit.edu	37	chr17	34009759	34009759	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctggccatccatacaccactGatgccaaaccagagcattga	7	14	0	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr17:34009759G>A	uc002hjr.2	+	17	2517	c.2328G>A	c.(2326-2328)CTG>CTA	p.L776L	AP2B1_uc002hjq.2_Silent_p.L790L|AP2B1_uc010wci.1_Silent_p.L752L|AP2B1_uc002hjs.2_Silent_p.L719L|AP2B1_uc002hjt.2_Silent_p.L790L|AP2B1_uc010ctv.2_Silent_p.L790L|AP2B1_uc010wcj.1_Silent_p.L527L	NM_001282	NP_001273	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1	776					axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|coated pit|cytosol|endocytic vesicle membrane|plasma membrane	clathrin binding|protein transporter activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		ATACACCACTGATGCCAAACC	0.458													20	51	---	---	---	---	PASS	A	34009759	A	A	34009759	2	1	111	1	0	0	0	0	0	0	0	1	741	1277	45	2		2	AP2B1	17	34009759	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	6999772	34009759	47185451	364	41290										
CDK12	51755	broad.mit.edu	37	chr17	37672056	37672056	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gaactggctcagctagaactGatcaggtacagctgtacatg	11	9	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr17:37672056G>A	uc010cvv.2	+	9	3427	c.2841G>A	c.(2839-2841)CTG>CTA	p.L947L	CDK12_uc010wef.1_Silent_p.L946L|CDK12_uc002hrw.3_Silent_p.L947L	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	947	Protein kinase.				mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						AGCTAGAACTGATCAGGTACA	0.408										TCGA Ovarian(9;0.13)			24	84	---	---	---	---	PASS	A	37672056	A	A	37672056	2	1	111	1	0	0	0	0	0	0	0	1	3128	1277	45	2		2	CDK12	17	37672056	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	3662297	37672056	43523154	365	41291										
KIF2B	84643	broad.mit.edu	37	chr17	51901549	51901549	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gatggcaatcagcaaatccaAgtggtcgggctgcaggagaa	14	8	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr17:51901549A>T	uc002iua.2	+	1	1311	c.1155A>T	c.(1153-1155)CAA>CAT	p.Q385H	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	385	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						AGCAAATCCAAGTGGTCGGGC	0.478													25	61	---	---	---	---	PASS	T	51901549	T	T	51901549	3	4	111	1	0	0	0	0	1	0	0	0	8298	69	3	5	1157	5	KIF2B	17	51901549	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	14229493	51901549	29293661	366	41292										
TMEM100	55273	broad.mit.edu	37	chr17	53798145	53798145	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tggaggctagtaaaaaaagtCcagatgacagaacaaccagg	11	7	0	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr17:53798145C>A	uc002iuj.3	-	2	598	c.287G>T	c.(286-288)GGA>GTA	p.G96V	TMEM100_uc002iuk.3_Missense_Mutation_p.G96V	NM_018286	NP_060756	Q9NV29	TM100_HUMAN	transmembrane protein 100	96	Helical; (Potential).					integral to membrane					0						TAAAAAAAGTCCAGATGACAG	0.502													33	105	---	---	---	---	PASS	A	53798145	A	A	53798145	3	1	111	1	0	0	0	0	1	0	0	0	16012	855	30	2	121	2	TMEM100	17	53798145	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1896596	53798145	27397065	367	41293										
SCN4A	6329	broad.mit.edu	37	chr17	62028792	62028792	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gccccggctcaccttgctatCctcaggctctgagaaagtgt	10	14	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr17:62028792C>A	uc002jds.1	-	14	2922	c.2845G>T	c.(2845-2847)GAT>TAT	p.D949Y		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	949					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	ACCTTGCTATCCTCAGGCTCT	0.323													15	49	---	---	---	---	PASS	A	62028792	A	A	62028792	3	1	111	1	0	0	0	0	1	0	0	0	13920	855	30	2	2709	2	SCN4A	17	62028792	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	8230647	62028792	19166418	368	41294										
COLEC12	81035	broad.mit.edu	37	chr18	480715	480715	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gttaggactcaccaaaccgcTtgtaaccgaaggattgcacc	9	12	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr18:480715T>A	uc002kkm.2	-	2	265	c.50A>T	c.(49-51)AAG>ATG	p.K17M		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	17	Cytoplasmic (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				ACCAAACCGCTTGTAACCGAA	0.552													19	50	---	---	---	---	PASS	A	480715	A	A	480715	3	1	111	1	0	0	0	0	1	0	0	0	3712	1609	56	5	2214	5	COLEC12	18	480715	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08		480715	77596533	369	41295										
EPB41L3	23136	broad.mit.edu	37	chr18	5428365	5428365	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccgtttgtatgaaatctttaGaaccttgggccaggcaaatc	9	9	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr18:5428365G>C	uc002kmt.1	-	9	1098	c.1012C>G	c.(1012-1014)CTA>GTA	p.L338V	EPB41L3_uc010wzh.1_Missense_Mutation_p.L338V|EPB41L3_uc002kmu.1_Missense_Mutation_p.L338V|EPB41L3_uc010dkq.1_Missense_Mutation_p.L229V|EPB41L3_uc010dks.1_Missense_Mutation_p.L360V	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	338	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GAAATCTTTAGAACCTTGGGC	0.458													56	109	---	---	---	---	PASS	C	5428365	C	C	5428365	3	2	111	1	0	0	0	0	1	0	0	0	5154	933	33	2	2307	2	EPB41L3	18	5428365	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	4947650	5428365	72648883	370	41296										
CEP76	79959	broad.mit.edu	37	chr18	12691384	12691384	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aaaaatcttaaccagtcgtgAgttgtgtgagggtcgaattt	11	5	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr18:12691384A>G	uc002kri.2	-	7	1063	c.907T>C	c.(907-909)TCA>CCA	p.S303P	PSMG2_uc002krg.2_Intron|CEP76_uc002krh.3_Missense_Mutation_p.S125P|CEP76_uc010wzz.1_Missense_Mutation_p.S228P|CEP76_uc010xaa.1_Missense_Mutation_p.S125P	NM_024899	NP_079175	Q8TAP6	CEP76_HUMAN	centrosomal protein 76kDa	303					G2/M transition of mitotic cell cycle|regulation of centriole replication	centriole|cytosol	protein binding				0						ACCAGTCGTGAGTTGTGTGAG	0.333													16	67	---	---	---	---	PASS	G	12691384	G	G	12691384	3	3	111	1	0	0	0	0	1	0	0	0	3261	304	11	5	1096	5	CEP76	18	12691384	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	7263019	12691384	65385864	371	41297										
C18orf1	753	broad.mit.edu	37	chr18	13645499	13645499	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggaggggccaccccccacatAcagcgaggtgatgggccacc	14	15	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr18:13645499A>T	uc002ksa.2	+	7	1432	c.764A>T	c.(763-765)TAC>TTC	p.Y255F	C18orf1_uc002ksb.2_Missense_Mutation_p.Y237F|C18orf1_uc002kse.2_Missense_Mutation_p.Y218F|C18orf1_uc002ksf.2_Missense_Mutation_p.Y200F|C18orf1_uc002ksg.1_Missense_Mutation_p.Y178F|C18orf1_uc002ksh.1_Missense_Mutation_p.Y197F|C18orf1_uc002ksi.1_Missense_Mutation_p.Y179F	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	255	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		CCCCCCACATACAGCGAGGTG	0.617													37	76	---	---	---	---	PASS	T	13645499	T	T	13645499	3	4	111	1	0	0	0	0	1	0	0	0	1894	391	14	5	863	5	C18orf1	18	13645499	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	954115	13645499	64431749	372	41298										
ALPK2	115701	broad.mit.edu	37	chr18	56246930	56246930	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gaattccatctcttcgtcatCgctttctaataaaaaaacat	3	10	3	0	rs140973320	byFrequency	TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr18:56246930C>T	uc002lhj.3	-	4	1292	c.1078G>A	c.(1078-1080)GAT>AAT	p.D360N		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	360							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						TCTTCGTCATCGCTTTCTAAT	0.502											OREG0025011	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	43	43	---	---	---	---	PASS	T	56246930	T	T	56246930	3	4	111	1	0	0	0	0	1	0	0	0	545	884	31	2	5474	2	ALPK2	18	56246930	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	42601431	56246930	21830318	373	41299										
ABCA7	10347	broad.mit.edu	37	chr19	1058927	1058927	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggggatgtgttggtgctgagGaacttgaccaaggtaggtgt	18	4	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:1058927G>A	uc002lqw.3	+	39	5619	c.5388G>A	c.(5386-5388)AGG>AGA	p.R1796R	ABCA7_uc002lqy.2_Silent_p.R249R|ABCA7_uc010dsc.2_RNA	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	1796	ABC transporter 2.				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGTGCTGAGGAACTTGACCA	0.612													30	64	---	---	---	---	PASS	A	1058927	A	A	1058927	2	1	111	1	0	0	0	0	0	0	0	1	37	1165	41	2		2	ABCA7	19	1058927	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08		1058927	58070056	374	41300										
DAPK3	1613	broad.mit.edu	37	chr19	3959147	3959147	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agcttctcctgctccagggcGcgcacgaggtcctgcacgaa	12	15	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:3959147G>A	uc002lzc.1	-	8	1410	c.1317C>T	c.(1315-1317)CGC>CGT	p.R439R	DAPK3_uc002lzb.1_Silent_p.R176R|DAPK3_uc002lzd.1_Silent_p.R439R	NM_001348	NP_001339	O43293	DAPK3_HUMAN	death-associated protein kinase 3	439	Interaction with CDC5L (By similarity).				apoptosis|chromatin modification|induction of apoptosis|intracellular protein kinase cascade	cytoplasm|PML body	ATP binding|leucine zipper domain binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|ovary(1)|large_intestine(1)	7		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTCCAGGGCGCGCACGAGGT	0.716													6	10	---	---	---	---	PASS	A	3959147	A	A	3959147	2	1	111	1	0	0	0	0	0	0	0	1	4237	1074	38	1		1	DAPK3	19	3959147	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	2900220	3959147	55169836	375	41301										
KDM4B	23030	broad.mit.edu	37	chr19	5077469	5077469	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	atcctgaagaagtacgggatCcccttcagccgggtgcgtac	12	12	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:5077469C>T	uc002mbq.3	+	8	994	c.768C>T	c.(766-768)ATC>ATT	p.I256I	KDM4B_uc010xil.1_Silent_p.I256I|KDM4B_uc010xim.1_Silent_p.I256I|KDM4B_uc002mbr.3_Silent_p.I14I	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	256	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						AGTACGGGATCCCCTTCAGCC	0.647													85	135	---	---	---	---	PASS	T	5077469	T	T	5077469	2	4	111	1	0	0	0	0	0	0	0	1	8129	845	30	2		2	KDM4B	19	5077469	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	1118322	5077469	54051514	376	41302										
ZNF557	79230	broad.mit.edu	37	chr19	7076407	7076407	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tttagggcttggtgacctttGaggatgtggccgtggagttc	16	6	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:7076407G>C	uc002mgb.2	+	5	600	c.115G>C	c.(115-117)GAG>CAG	p.E39Q	ZNF557_uc002mga.2_Missense_Mutation_p.E46Q|ZNF557_uc002mgc.2_Missense_Mutation_p.E46Q	NM_001044388	NP_001037853	Q8N988	ZN557_HUMAN	zinc finger protein 557 isoform b	39	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2				Lung(535;0.179)		GGTGACCTTTGAGGATGTGGC	0.577													42	61	---	---	---	---	PASS	C	7076407	C	C	7076407	3	2	111	1	0	0	0	0	1	0	0	0	17985	1291	45	2	146	2	ZNF557	19	7076407	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	1998938	7076407	52052576	377	41303										
FBN3	84467	broad.mit.edu	37	chr19	8154510	8154510	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tccatcggtgttgacacagaCgccgttagtgcagacgccag	12	12	0	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:8154510C>A	uc002mjf.2	-	50	6316	c.6295G>T	c.(6295-6297)GTC>TTC	p.V2099F	FBN3_uc002mje.2_5'UTR	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2099	EGF-like 33; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						TTGACACAGACGCCGTTAGTG	0.582													50	134	---	---	---	---	PASS	A	8154510	A	A	8154510	3	1	111	1	0	0	0	0	1	0	0	0	5704	536	19	1	2190	1	FBN3	19	8154510	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1078103	8154510	50974473	378	41304										
MUC16	94025	broad.mit.edu	37	chr19	9024995	9024995	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtggctgccccatctttctcGggcctggggagggtcagtgg	17	11	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:9024995G>C	uc002mkp.2	-	16	37071	c.36867C>G	c.(36865-36867)CCC>CCG	p.P12289P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12291	SEA 2.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CATCTTTCTCGGGCCTGGGGA	0.542													13	42	---	---	---	---	PASS	C	9024995	C	C	9024995	2	2	111	1	0	0	0	0	0	0	0	1	9973	1103	39	4		4	MUC16	19	9024995	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	870485	9024995	50103988	379	41305										
ZNF441	126068	broad.mit.edu	37	chr19	11892417	11892417	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcataaatgtaagatatgtgGgaaaggctttgattatccca	9	5	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:11892417G>T	uc010dyj.2	+	4	1972	c.1778G>T	c.(1777-1779)GGG>GTG	p.G593V	ZNF441_uc002msn.3_Missense_Mutation_p.G549V	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	593	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAGATATGTGGGAAAGGCTTT	0.408													17	41	---	---	---	---	PASS	T	11892417	T	T	11892417	3	4	111	1	0	0	0	0	1	0	0	0	17911	1232	43	3	1792	3	ZNF441	19	11892417	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	2867422	11892417	47236566	380	41306										
PKN1	5585	broad.mit.edu	37	chr19	14561819	14561819	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccaaggggcggctgctgcgaGaagagctcgctgcggcctcc	16	14	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:14561819G>A	uc002myp.2	+	6	1036	c.868G>A	c.(868-870)GAA>AAA	p.E290K	PKN1_uc002myq.2_Missense_Mutation_p.E296K	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	290	REM 3.				activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						GCTGCTGCGAGAAGAGCTCGC	0.692													6	8	---	---	---	---	PASS	A	14561819	A	A	14561819	3	1	111	1	0	0	0	0	1	0	0	0	11979	943	33	2	933	2	PKN1	19	14561819	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	2669402	14561819	44567164	381	41307										
RASAL3	64926	broad.mit.edu	37	chr19	15572072	15572072	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gccacgtggatgctgccctcGgagctagcacttcccacccg	11	17	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:15572072G>T	uc002nbe.2	-	4	587	c.501C>A	c.(499-501)TCC>TCA	p.S167S		NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	167					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0						TGCTGCCCTCGGAGCTAGCAC	0.547													20	26	---	---	---	---	PASS	T	15572072	T	T	15572072	2	4	111	1	0	0	0	0	0	0	0	1	13065	1103	39	1		1	RASAL3	19	15572072	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	1010253	15572072	43556911	382	41308										
USHBP1	83878	broad.mit.edu	37	chr19	17370752	17370752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cctcagagctgctagaaccaCtgcctgagccacctgcttgg	10	15	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:17370752C>A	uc002nfs.1	-	5	835	c.722G>T	c.(721-723)AGT>ATT	p.S241I	USHBP1_uc002nfr.1_5'Flank|USHBP1_uc002nft.1_RNA|USHBP1_uc010xpk.1_Missense_Mutation_p.S177I|USHBP1_uc010eam.1_Missense_Mutation_p.S169I	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	241							PDZ domain binding			ovary(1)	1						GCTAGAACCACTGCCTGAGCC	0.567													28	75	---	---	---	---	PASS	A	17370752	A	A	17370752	3	1	111	1	0	0	0	0	1	0	0	0	17034	565	20	3	1425	3	USHBP1	19	17370752	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1798680	17370752	41758231	383	41309										
NCAN	1463	broad.mit.edu	37	chr19	19339269	19339269	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtctgcctcagtttcctcagGggagcctacggtaccgtggg	14	12	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:19339269G>C	uc002nlz.2	+	8	2939	c.2840G>C	c.(2839-2841)GGG>GCG	p.G947A	NCAN_uc010ecc.1_Missense_Mutation_p.G511A	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	947					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GTTTCCTCAGGGGAGCCTACG	0.642													77	204	---	---	---	---	PASS	C	19339269	C	C	19339269	3	2	111	1	0	0	0	0	1	0	0	0	10204	1232	43	4	2866	4	NCAN	19	19339269	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	1968517	19339269	39789714	384	41310										
ZNF208	7757	broad.mit.edu	37	chr19	22157058	22157058	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aaaagccttgccacattcttCacatttgtaggatttctctc	5	11	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:22157058C>T	uc002nqp.2	-	4	927	c.778G>A	c.(778-780)GAA>AAA	p.E260K	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				CCACATTCTTCACATTTGTAG	0.363													14	41	---	---	---	---	PASS	T	22157058	T	T	22157058	3	4	111	1	0	0	0	0	1	0	0	0	17763	835	29	2	3068	2	ZNF208	19	22157058	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	2817789	22157058	36971925	385	41311										
ZNF99	7652	broad.mit.edu	37	chr19	22941148	22941148	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttatgttttctaagggctgaGaaatgcttaaaagctttgcc	9	6	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:22941148G>A	uc010xrh.1	-	5	1290	c.1290C>T	c.(1288-1290)TTC>TTT	p.F430F		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)				TAAGGGCTGAGAAATGCTTAA	0.348													12	48	---	---	---	---	PASS	A	22941148	A	A	22941148	2	1	111	1	0	0	0	0	0	0	0	1	18201	933	33	2		2	ZNF99	19	22941148	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	784090	22941148	36187835	386	41312										
ZNF536	9745	broad.mit.edu	37	chr19	30934949	30934949	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggcgagaagcccttcaagtgCccgtactgcgaccacagggc	13	14	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:30934949C>A	uc002nsu.1	+	2	618	c.480C>A	c.(478-480)TGC>TGA	p.C160*	ZNF536_uc010edd.1_Nonsense_Mutation_p.C160*	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	160	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CCTTCAAGTGCCCGTACTGCG	0.657													23	60	---	---	---	---	PASS	A	30934949	A	A	30934949	4	1	111	1	0	0	0	0	0	1	0	0	17971	747	26	3	482	3	ZNF536	19	30934949	Nonsense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	7993801	30934949	28194034	387	41313										
GPI	2821	broad.mit.edu	37	chr19	34890129	34890129	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagatcctcctggccaacttCttggcccagacagaggccct	9	16	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:34890129C>T	uc002nvg.1	+	15	1390	c.1287C>T	c.(1285-1287)TTC>TTT	p.F429F	GPI_uc002nvf.2_Silent_p.F468F|GPI_uc010xrv.1_Silent_p.F440F|GPI_uc010xrw.1_Silent_p.F401F|GPI_uc010edl.1_Silent_p.F429F|GPI_uc002nvi.1_Silent_p.F92F	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	429					angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					TGGCCAACTTCTTGGCCCAGA	0.587													14	53	---	---	---	---	PASS	T	34890129	T	T	34890129	2	4	111	1	0	0	0	0	0	0	0	1	6611	912	32	2		2	GPI	19	34890129	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	3955180	34890129	24238854	388	41314										
ARHGAP33	115703	broad.mit.edu	37	chr19	36279138	36279138	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tacccctcatagggtgccggGtccctggggccctcctgagc	13	16	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:36279138G>A	uc002obs.1	+	21	3273	c.3188G>A	c.(3187-3189)GGT>GAT	p.G1063D	ARHGAP33_uc002obt.1_Missense_Mutation_p.G1060D|ARHGAP33_uc010eel.2_Intron|ARHGAP33_uc002obv.1_Missense_Mutation_p.G812D	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	1224					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						AGGGTGCCGGGTCCCTGGGGC	0.692													15	28	---	---	---	---	PASS	A	36279138	A	A	36279138	3	1	111	1	0	0	0	0	1	0	0	0	882	1261	44	3	3753	3	ARHGAP33	19	36279138	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	1389009	36279138	22849845	389	41315										
ZNF567	163081	broad.mit.edu	37	chr19	37211000	37211000	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agtgaatgtggaaagtccttCcgccagaagacaacccttgt	10	10	0	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:37211000C>T	uc010xtl.1	+	6	1596	c.1374C>T	c.(1372-1374)TTC>TTT	p.F458F	ZNF567_uc002oeo.1_Silent_p.F458F|ZNF567_uc010xtk.1_Silent_p.F458F|ZNF567_uc002oep.3_Silent_p.F427F|ZNF567_uc002oeq.1_Silent_p.F427F	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	458	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GAAAGTCCTTCCGCCAGAAGA	0.433													47	100	---	---	---	---	PASS	T	37211000	T	T	37211000	2	4	111	1	0	0	0	0	0	0	0	1	17995	854	30	2		2	ZNF567	19	37211000	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	931862	37211000	21917983	390	41316										
FBL	2091	broad.mit.edu	37	chr19	40331140	40331140	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cacgaccccggttgccaccaGaatggaagcctccacctata	8	16	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:40331140G>C	uc002omn.2	-	3	311	c.197C>G	c.(196-198)TCT>TGT	p.S66C	FBL_uc002omm.1_5'UTR|FBL_uc002omo.2_Missense_Mutation_p.S65C|FBL_uc010egr.2_Missense_Mutation_p.S66C	NM_001436	NP_001427	P22087	FBRL_HUMAN	fibrillarin	66	DMA/Gly-rich.				rRNA processing|tRNA processing	box C/D snoRNP complex|Cajal body	methyltransferase activity|protein binding|RNA binding			ovary(1)	1	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)	Renal(1328;0.000518)|Hepatocellular(1079;0.0893)	Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)	GBM - Glioblastoma multiforme(1328;0.000826)|STAD - Stomach adenocarcinoma(1328;0.138)		GTTGCCACCAGAATGGAAGCC	0.572													72	223	---	---	---	---	PASS	C	40331140	C	C	40331140	3	2	111	1	0	0	0	0	1	0	0	0	5696	942	33	2	796	2	FBL	19	40331140	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	3120140	40331140	18797843	391	41317										
ZNF780A	284323	broad.mit.edu	37	chr19	40581487	40581487	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctgaataaggtgtgcaccacGattaaagcctttcccacact	7	12	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:40581487G>A	uc002omy.2	-	6	1087	c.862C>T	c.(862-864)CGT>TGT	p.R288C	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.R288C|ZNF780A_uc010xvh.1_Missense_Mutation_p.R289C	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	288	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TGTGCACCACGATTAAAGCCT	0.388													76	261	---	---	---	---	PASS	A	40581487	A	A	40581487	3	1	111	1	0	0	0	0	1	0	0	0	18149	1058	37	2	1194	2	ZNF780A	19	40581487	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	250347	40581487	18547496	392	41318										
BLVRB	645	broad.mit.edu	37	chr19	40964289	40964289	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagagggggggctcagtactGaggtcattgcgggtgcccag	18	9	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:40964289G>A	uc002onw.2	-	2	373	c.243C>T	c.(241-243)CTC>CTT	p.L81L	BLVRB_uc010egw.1_RNA	NM_000713	NP_000704	P30043	BLVRB_HUMAN	biliverdin reductase B (flavin reductase	81					heme catabolic process	cytosol	biliverdin reductase activity|binding|flavin reductase activity				0			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)		NADH(DB00157)|Riboflavin(DB00140)	GCTCAGTACTGAGGTCATTGC	0.473													3	5	---	---	---	---	PASS	A	40964289	A	A	40964289	2	1	111	1	0	0	0	0	0	0	0	1	1452	1304	45	2		2	BLVRB	19	40964289	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	382802	40964289	18164694	393	41319										
CYP2F1	1572	broad.mit.edu	37	chr19	41627463	41627463	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gactatgatgatgagcgtctGctcaccattatccgccttat	8	11	2	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:41627463G>T	uc002opu.1	+	5	641	c.585G>T	c.(583-585)CTG>CTT	p.L195L	CYP2F1_uc010xvw.1_Intron|CYP2F1_uc010xvv.1_Silent_p.L195L|CYP2F1_uc002opv.1_RNA	NM_000774	NP_000765	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F,	195					naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0						ATGAGCGTCTGCTCACCATTA	0.567													48	117	---	---	---	---	PASS	T	41627463	T	T	41627463	2	4	111	1	0	0	0	0	0	0	0	1	4171	1306	46	3		3	CYP2F1	19	41627463	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	663174	41627463	17501520	394	41320										
SYMPK	8189	broad.mit.edu	37	chr19	46334680	46334680	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ataatgggctctggcctcctCttggcctgcggtgcctcttc	11	14	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:46334680C>A	uc002pdn.2	-	12	1805	c.1560G>T	c.(1558-1560)AAG>AAT	p.K520N	SYMPK_uc002pdo.1_Missense_Mutation_p.K520N|SYMPK_uc002pdp.1_Missense_Mutation_p.K520N|SYMPK_uc002pdq.1_Missense_Mutation_p.K520N	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	520					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		CTGGCCTCCTCTTGGCCTGCG	0.637													6	25	---	---	---	---	PASS	A	46334680	A	A	46334680	3	1	111	1	0	0	0	0	1	0	0	0	15436	912	32	2	2328	2	SYMPK	19	46334680	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	4707217	46334680	12794303	395	41321										
SEPW1	6415	broad.mit.edu	37	chr19	48283985	48283985	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttggactctcctaccagtggCgcttgaggctacaagtccaa	10	12	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:48283985C>T	uc010xyw.1	+	2	234	c.33C>T	c.(31-33)GGC>GGT	p.G11G	SEPW1_uc002pho.1_5'Flank	NM_003009	NP_003000	P63302	SELW_HUMAN	selenoprotein W, 1	11					cell redox homeostasis	cytoplasm	selenium binding				0		all_cancers(25;3.02e-09)|all_epithelial(76;7e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		all cancers(93;0.000291)|OV - Ovarian serous cystadenocarcinoma(262;0.000305)|Epithelial(262;0.0146)|GBM - Glioblastoma multiforme(486;0.0273)		CTACCAGTGGCGCTTGAGGCT	0.627													5	4	---	---	---	---	PASS	T	48283985	T	T	48283985	2	4	111	1	0	0	0	0	0	0	0	1	14072	755	27	1		1	SEPW1	19	48283985	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	1949305	48283985	10844998	396	41322										
NTN5	126147	broad.mit.edu	37	chr19	49173844	49173844	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cacacggaggtggctggccgCcacagtggccttaggacctg	15	13	0	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:49173844C>A	uc002pkb.2	-	2	496	c.400G>T	c.(400-402)GCG>TCG	p.A134S	SEC1_uc010xzv.1_Intron|SEC1_uc002pka.2_Intron|SEC1_uc010xzw.1_Intron|SEC1_uc010ema.2_Intron|NTN5_uc002pkc.2_Missense_Mutation_p.A134S	NM_145807	NP_665806	Q8WTR8	NET5_HUMAN	netrin 5 precursor	134						extracellular region				large_intestine(1)|pancreas(1)	2						TGGCTGGCCGCCACAGTGGCC	0.701													5	8	---	---	---	---	PASS	A	49173844	A	A	49173844	3	1	111	1	0	0	0	0	1	0	0	0	10703	739	26	3	1093	3	NTN5	19	49173844	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	889859	49173844	9955139	397	41323										
PPP2R1A	5518	broad.mit.edu	37	chr19	52723448	52723448	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggtttctcctgtagggagtgGagttctttgatgagaaactt	13	5	2	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:52723448G>A	uc002pyp.2	+	11	1468	c.1309G>A	c.(1309-1311)GAG>AAG	p.E437K	PPP2R1A_uc010ydk.1_Missense_Mutation_p.E382K|PPP2R1A_uc002pyq.2_Missense_Mutation_p.E258K	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	437	HEAT 11.|PP2A subunit C binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		GTAGGGAGTGGAGTTCTTTGA	0.527			Mis		clear cell ovarian carcinoma								51	145	---	---	---	---	PASS	A	52723448	A	A	52723448	3	1	111	1	0	0	0	0	1	0	0	0	12382	1175	41	2	1351	2	PPP2R1A	19	52723448	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	3549604	52723448	6405535	398	41324										
NLRP12	91662	broad.mit.edu	37	chr19	54312869	54312869	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	caacagcgtgtgcgctcctgCggagcacctcgcgcggtctt	13	15	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:54312869C>T	uc002qch.3	-	3	2264	c.2044G>A	c.(2044-2046)GCA>ACA	p.A682T	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Missense_Mutation_p.A682T|NLRP12_uc002qcj.3_Missense_Mutation_p.A682T|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.A682T	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	682					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		TGCGCTCCTGCGGAGCACCTC	0.557													20	53	---	---	---	---	PASS	T	54312869	T	T	54312869	3	4	111	1	0	0	0	0	1	0	0	0	10474	768	27	1	1269	1	NLRP12	19	54312869	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	1589421	54312869	4816114	399	41325										
TSEN34	79042	broad.mit.edu	37	chr19	54696028	54696028	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cccttgcccagatctgctctCcttgtccagctggccactgc	8	18	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:54696028C>A	uc002qdu.2	+	4	658	c.549C>A	c.(547-549)CTC>CTA	p.L183L	MBOAT7_uc002qdq.2_5'Flank|MBOAT7_uc002qdr.2_5'Flank|MBOAT7_uc002qds.2_5'Flank|MBOAT7_uc010yen.1_5'Flank|MBOAT7_uc002qdt.3_5'Flank|TSEN34_uc010yeo.1_Silent_p.L183L|TSEN34_uc002qdv.2_Silent_p.L183L|TSEN34_uc002qdw.2_Silent_p.L183L	NM_024075	NP_076980	Q9BSV6	SEN34_HUMAN	tRNA-intron endonuclease 34	183					mRNA processing|tRNA-type intron splice site recognition and cleavage	nucleolus|tRNA-intron endonuclease complex	nucleic acid binding|tRNA-intron endonuclease activity				0	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GATCTGCTCTCCTTGTCCAGC	0.637													54	156	---	---	---	---	PASS	A	54696028	A	A	54696028	2	1	111	1	0	0	0	0	0	0	0	1	16610	842	30	2		2	TSEN34	19	54696028	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	383159	54696028	4432955	400	41326										
LILRA6	79168	broad.mit.edu	37	chr19	54742961	54742961	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	actgtgtaatccttggcgtgTgaggctggggatggtgggca	18	6	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:54742961T>C	uc002qeu.1	-	8	1438	c.1314A>G	c.(1312-1314)TCA>TCG	p.S438S	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Intron|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Intron|LILRA6_uc002qem.1_Intron|LILRB3_uc002qen.1_Intron|LILRB3_uc002qeo.1_Intron|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Intron|LILRB3_uc002qer.1_Intron|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Intron|LILRA6_uc010yeq.1_Intron|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Silent_p.S282S	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	438	Extracellular (Potential).					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CCTTGGCGTGTGAGGCTGGGG	0.597													7	56	---	---	---	---	PASS	C	54742961	C	C	54742961	2	2	111	1	0	0	0	0	0	0	0	1	8789	1683	59	5		5	LILRA6	19	54742961	Silent	SNP	T	TCGA-51-4079-01A-01D-1458-08	46933	54742961	4386022	401	41327										
LENG9	94059	broad.mit.edu	37	chr19	54974005	54974005	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agtgcctcctcagtcactccGgcgaggcgtcctcttggggc	13	15	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:54974005G>A	uc010yez.1	-	1	890	c.771C>T	c.(769-771)GCC>GCT	p.A257A		NM_198988	NP_945339	Q96B70	LENG9_HUMAN	leukocyte receptor cluster (LRC) member 9	257					RNA metabolic process	intracellular	catalytic activity|nucleic acid binding|zinc ion binding				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.134)		CAGTCACTCCGGCGAGGCGTC	0.677													37	79	---	---	---	---	PASS	A	54974005	A	A	54974005	2	1	111	1	0	0	0	0	0	0	0	1	8725	1103	39	1		1	LENG9	19	54974005	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	231044	54974005	4154978	402	41328										
PTPRH	5794	broad.mit.edu	37	chr19	55711650	55711650	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gagccacgtgctccatttttTtctgcccatacagagaatgt	8	11	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:55711650T>G	uc002qjq.2	-	7	1447	c.1374A>C	c.(1372-1374)GAA>GAC	p.E458D	PTPRH_uc010esv.2_Missense_Mutation_p.E280D|PTPRH_uc002qjs.2_Missense_Mutation_p.E465D	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	458	Extracellular (Potential).|Fibronectin type-III 5.				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)		CTCCATTTTTTTCTGCCCATA	0.522													38	87	---	---	---	---	PASS	G	55711650	G	G	55711650	3	3	111	1	0	0	0	0	1	0	0	0	12803	1838	64	5	2029	5	PTPRH	19	55711650	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08	737645	55711650	3417333	403	41329										
FIZ1	84922	broad.mit.edu	37	chr19	56109044	56109044	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggtggttggctaggttgaagCtgtgcttgaaacccttgccg	15	8	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:56109044C>A	uc002qli.3	-	2	278	c.188G>T	c.(187-189)AGC>ATC	p.S63I	FIZ1_uc002qlj.3_Missense_Mutation_p.S63I|ZNF524_uc002qlk.1_5'Flank	NM_032836	NP_116225	Q96SL8	FIZ1_HUMAN	FLT3-interacting zinc finger 1	63	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein kinase binding|receptor binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		TAGGTTGAAGCTGTGCTTGAA	0.677													43	82	---	---	---	---	PASS	A	56109044	A	A	56109044	3	1	111	1	0	0	0	0	1	0	0	0	5900	797	28	3	1310	3	FIZ1	19	56109044	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	397394	56109044	3019939	404	41330										
USP29	57663	broad.mit.edu	37	chr19	57640425	57640425	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aaagcaggaatatgctgaagGaaattgacaaaacttcattt	8	5	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:57640425G>T	uc002qny.2	+	4	738	c.382G>T	c.(382-384)GAA>TAA	p.E128*		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	128					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TATGCTGAAGGAAATTGACAA	0.363													22	73	---	---	---	---	PASS	T	57640425	T	T	57640425	4	4	111	1	0	0	0	0	0	1	0	0	17056	1175	41	2	384	2	USP29	19	57640425	Nonsense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	1531381	57640425	1488558	405	41331										
ZNF17	7565	broad.mit.edu	37	chr19	57932017	57932017	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcatactggagaaaaaccttAtgaatgcaacgaatgtggga	10	6	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr19:57932017A>T	uc002qoo.1	+	3	1388	c.1157A>T	c.(1156-1158)TAT>TTT	p.Y386F	ZNF547_uc002qpm.3_Intron|ZNF17_uc002qop.1_Missense_Mutation_p.Y388F	NM_006959	NP_008890	P17021	ZNF17_HUMAN	zinc finger protein 17	386	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0234)|GBM - Glioblastoma multiforme(193;0.000426)|Lung(386;0.176)		GAAAAACCTTATGAATGCAAC	0.393													42	126	---	---	---	---	PASS	T	57932017	T	T	57932017	3	4	111	1	0	0	0	0	1	0	0	0	17740	449	16	5	1167	5	ZNF17	19	57932017	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	291592	57932017	1196966	406	41332										
SLC4A11	83959	broad.mit.edu	37	chr20	3215403	3215403	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cataccagtgttggtggcctGcatctcaaggttgacattga	11	9	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr20:3215403G>C	uc002wig.2	-	2	322	c.274C>G	c.(274-276)CAG>GAG	p.Q92E	SLC4A11_uc010zqe.1_Missense_Mutation_p.Q119E|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.Q76E	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	92	Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						TTGGTGGCCTGCATCTCAAGG	0.577													29	82	---	---	---	---	PASS	C	3215403	C	C	3215403	3	2	111	1	0	0	0	0	1	0	0	0	14652	1328	46	4	2473	4	SLC4A11	20	3215403	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08		3215403	59810117	407	41333										
CSRP2BP	57325	broad.mit.edu	37	chr20	18139799	18139799	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aagtcccatgtacttccgttCaggtgctcaggaatttggag	11	9	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr20:18139799C>T	uc002wqj.2	+	5	1194	c.572C>T	c.(571-573)TCA>TTA	p.S191L	CSRP2BP_uc002wqk.2_Missense_Mutation_p.S63L|CSRP2BP_uc010zru.1_Missense_Mutation_p.S63L	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	191					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						TACTTCCGTTCAGGTGCTCAG	0.478													27	84	---	---	---	---	PASS	T	18139799	T	T	18139799	3	4	111	1	0	0	0	0	1	0	0	0	3968	838	29	2	586	2	CSRP2BP	20	18139799	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	14924396	18139799	44885721	408	41334										
IFT52	51098	broad.mit.edu	37	chr20	42225085	42225085	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gtatttccagcttaaaagatGaaatcacatctgagaagtta	7	6	2	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr20:42225085G>A	uc002xkw.2	+	3	252	c.130G>A	c.(130-132)GAA>AAA	p.E44K	IFT52_uc010zwi.1_RNA|IFT52_uc002xky.2_Missense_Mutation_p.E44K|IFT52_uc002xkx.2_RNA|IFT52_uc010ggn.2_Missense_Mutation_p.E44K|IFT52_uc002xkz.2_Missense_Mutation_p.E44K	NM_016004	NP_057088	Q9Y366	IFT52_HUMAN	intraflagellar transport 52 homolog	44						intraflagellar transport particle B|microtubule-based flagellum	protein C-terminus binding			ovary(2)	2		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			CTTAAAAGATGAAATCACATC	0.313													31	71	---	---	---	---	PASS	A	42225085	A	A	42225085	3	1	111	1	0	0	0	0	1	0	0	0	7561	1291	45	2	136	2	IFT52	20	42225085	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	24085286	42225085	20800435	409	41335										
PABPC1L	80336	broad.mit.edu	37	chr20	43545460	43545460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	attttgagacccatgaggccGcacagcaggccatcaacacc	9	14	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr20:43545460G>T	uc010ggv.1	+	3	533	c.451G>T	c.(451-453)GCA>TCA	p.A151S	PABPC1L_uc010zwq.1_RNA	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	151	RRM 2.						nucleotide binding|RNA binding			ovary(1)	1						CCATGAGGCCGCACAGCAGGC	0.612													66	175	---	---	---	---	PASS	T	43545460	T	T	43545460	3	4	111	1	0	0	0	0	1	0	0	0	11364	1087	38	1	461	1	PABPC1L	20	43545460	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	1320375	43545460	19480060	410	41336										
KCNS1	3787	broad.mit.edu	37	chr20	43726500	43726500	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cacaatgtcgatgaggttgaGcgggtggcagaagaagttgc	16	6	0	4			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr20:43726500G>A	uc002xnc.2	-	4	1310	c.913C>T	c.(913-915)CTC>TTC	p.L305F	KCNS1_uc002xnd.2_Missense_Mutation_p.L305F	NM_002251	NP_002242	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel	305	Cytoplasmic (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity|protein binding				0		Myeloproliferative disorder(115;0.0122)				ATGAGGTTGAGCGGGTGGCAG	0.637													10	20	---	---	---	---	PASS	A	43726500	A	A	43726500	3	1	111	1	0	0	0	0	1	0	0	0	8088	971	34	3	675	3	KCNS1	20	43726500	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	181040	43726500	19299020	411	41337										
ACOT8	10005	broad.mit.edu	37	chr20	44483888	44483888	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cagggcctggcccacgatctGaccaccaaacagcctcttgg	10	16	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr20:44483888G>C	uc002xqa.1	-	2	253	c.172C>G	c.(172-174)CAG>GAG	p.Q58E	ACOT8_uc010zxe.1_Missense_Mutation_p.Q58E|ACOT8_uc002xqc.1_Intron|ACOT8_uc010zxf.1_Intron|ZSWIM3_uc002xqd.2_5'Flank|ZSWIM3_uc010zxg.1_5'Flank	NM_005469	NP_005460	O14734	ACOT8_HUMAN	peroxisomal acyl-CoA thioesterase 1 isoform a	58					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|interspecies interaction between organisms|peroxisome organization	peroxisomal matrix	acetyl-CoA hydrolase activity|acyl-CoA thioesterase activity|carboxylesterase activity|choloyl-CoA hydrolase activity|protein binding			skin(1)	1		Myeloproliferative disorder(115;0.0122)				CCCACGATCTGACCACCAAAC	0.577													34	117	---	---	---	---	PASS	C	44483888	C	C	44483888	3	2	111	1	0	0	0	0	1	0	0	0	156	1299	45	2	807	2	ACOT8	20	44483888	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	757388	44483888	18541632	412	41338										
ATP9A	10079	broad.mit.edu	37	chr20	50273590	50273590	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gggagtcacgttgtggcagaGcgcgatggccttcacggctt	16	10	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr20:50273590G>C	uc002xwg.1	-	14	1393	c.1393C>G	c.(1393-1395)CTC>GTC	p.L465V	ATP9A_uc010gih.1_Missense_Mutation_p.L329V|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	465	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						TTGTGGCAGAGCGCGATGGCC	0.622													13	55	---	---	---	---	PASS	C	50273590	C	C	50273590	3	2	111	1	0	0	0	0	1	0	0	0	1198	971	34	4	1810	4	ATP9A	20	50273590	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	5789702	50273590	12751930	413	41339										
ZNF831	128611	broad.mit.edu	37	chr20	57766527	57766527	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ctgtgtccgcactgtggtcgCgactgcctgaagcccagtgt	13	13	0	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr20:57766527C>A	uc002yan.2	+	1	453	c.453C>A	c.(451-453)CGC>CGA	p.R151R		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	151	C2H2-type 1.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					ACTGTGGTCGCGACTGCCTGA	0.657													53	156	---	---	---	---	PASS	A	57766527	A	A	57766527	2	1	111	1	0	0	0	0	0	0	0	1	18182	755	27	1		1	ZNF831	20	57766527	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	7492937	57766527	5258993	414	41340										
SAMSN1	64092	broad.mit.edu	37	chr21	15884785	15884785	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ttgatgagctctgtccactgTagagactatccatggagtca	10	9	2	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr21:15884785T>C	uc002yju.1	-	4	471	c.389A>G	c.(388-390)TAC>TGC	p.Y130C	SAMSN1_uc010gky.1_Intron|SAMSN1_uc002yjv.1_Missense_Mutation_p.Y198C	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	130					negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		CTGTCCACTGTAGAGACTATC	0.453													82	214	---	---	---	---	PASS	C	15884785	C	C	15884785	3	2	111	1	0	0	0	0	1	0	0	0	13830	1638	57	5	752	5	SAMSN1	21	15884785	Missense_Mutation	SNP	T	TCGA-51-4079-01A-01D-1458-08		15884785	32245110	415	41341										
KRTAP13-4	284827	broad.mit.edu	37	chr21	31802948	31802948	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tcagattcctgaaatatggaGgctgtggttttccttccctg	10	9	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr21:31802948G>C	uc011acw.1	+	1	355	c.355G>C	c.(355-357)GGC>CGC	p.G119R		NM_181600	NP_853631	Q3LI77	KR134_HUMAN	keratin associated protein 13-4	119						intermediate filament					0						GAAATATGGAGGCTGTGGTTT	0.522													13	34	---	---	---	---	PASS	C	31802948	C	C	31802948	3	2	111	1	0	0	0	0	1	0	0	0	8525	1000	35	4	357	4	KRTAP13-4	21	31802948	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	15918163	31802948	16326947	416	41342										
TMPRSS2	7113	broad.mit.edu	37	chr21	42866439	42866439	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggggaccacagtgggctgtgCgggataggggttttccggtt	19	7	0	0	rs61735791	byFrequency	TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr21:42866439C>A	uc002yzj.2	-	3	216	c.82G>T	c.(82-84)GCA>TCA	p.A28S	TMPRSS2_uc010gor.2_Missense_Mutation_p.A65S|TMPRSS2_uc010gos.1_Missense_Mutation_p.A28S	NM_005656	NP_005647	O15393	TMPS2_HUMAN	transmembrane protease, serine 2 isoform 2	28	Cytoplasmic (Potential).				proteolysis	cytoplasm|extracellular region|integral to plasma membrane	scavenger receptor activity|serine-type endopeptidase activity		TMPRSS2/ERG(2499)|TMPRSS2/ETV1(24)	prostate(2523)|central_nervous_system(1)	2524		Prostate(19;4.48e-07)|all_epithelial(19;0.031)				GTGGGCTGTGCGGGATAGGGG	0.537			T	ERG|ETV1|ETV4|ETV5	prostate 								32	80	---	---	---	---	PASS	A	42866439	A	A	42866439	3	1	111	1	0	0	0	0	1	0	0	0	16244	768	27	1	1444	1	TMPRSS2	21	42866439	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	11063491	42866439	5263456	417	41343										
KRTAP10-6	386674	broad.mit.edu	37	chr21	46011633	46011633	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gcagcatgaagaggaatcctCagagcaggtgggcacacagc	14	10	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr21:46011633C>G	uc002zfm.2	-	1	754	c.733G>C	c.(733-735)GAG>CAG	p.E245Q	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198688	NP_941961	P60371	KR106_HUMAN	keratin associated protein 10-6	245	29 X 5 AA repeats of C-C-X(3).					keratin filament					0						GAGGAATCCTCAGAGCAGGTG	0.662													52	157	---	---	---	---	PASS	G	46011633	G	G	46011633	3	3	111	1	0	0	0	0	1	0	0	0	8513	835	29	2	368	2	KRTAP10-6	21	46011633	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	3145194	46011633	2118262	418	41344										
YPEL1	29799	broad.mit.edu	37	chr22	22064998	22064998	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cggtgacagttcggcagataCgcttggaaagttttggactt	13	7	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr22:22064998C>T	uc002zvl.2	-	2	368	c.36G>A	c.(34-36)GCG>GCA	p.A12A	YPEL1_uc002zvm.2_RNA	NM_013313	NP_037445	O60688	YPEL1_HUMAN	yippee-like 1	12						nucleus					0	Colorectal(54;0.105)					TCGGCAGATACGCTTGGAAAG	0.532													55	221	---	---	---	---	PASS	T	22064998	T	T	22064998	2	4	111	1	0	0	0	0	0	0	0	1	17486	523	19	1		1	YPEL1	22	22064998	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08		22064998	29239568	419	41345										
BCR	613	broad.mit.edu	37	chr22	23524423	23524423	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	agggcgccttccatggagacGcaggtgagttcctcacgcca	13	13	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr22:23524423G>T	uc002zww.2	+	1	1872	c.1276G>T	c.(1276-1278)GCA>TCA	p.A426S	BCR_uc002zwx.2_Missense_Mutation_p.A426S	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	426	Kinase.	Breakpoint for translocation to form BCR- ABL oncogene.			regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity	p.A426E(1)	BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						CCATGGAGACGCAGGTGAGTT	0.637			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								11	14	---	---	---	---	PASS	T	23524423	T	T	23524423	3	4	111	1	0	0	0	0	1	0	0	0	1388	1087	38	1	1278	1	BCR	22	23524423	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	1459425	23524423	27780143	420	41346										
RASD2	23551	broad.mit.edu	37	chr22	35943073	35943073	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgtaccagctcgacatcctgGatacctctggcaaccacccc	7	17	1	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr22:35943073G>T	uc003anx.2	+	2	422	c.217G>T	c.(217-219)GAT>TAT	p.D73Y	RASD2_uc003any.2_Missense_Mutation_p.D73Y	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	73	GTP (By similarity).				locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3						CGACATCCTGGATACCTCTGG	0.627													23	87	---	---	---	---	PASS	T	35943073	T	T	35943073	3	4	111	1	0	0	0	0	1	0	0	0	13067	1174	41	2	219	2	RASD2	22	35943073	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	12418650	35943073	15361493	421	41347										
RBM9	23543	broad.mit.edu	37	chr22	36164352	36164352	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ccgtgtaatttctccctggcCctgtctgcatcagcactatt	7	14	3	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr22:36164352C>A	uc003aon.3	-	6	820	c.708G>T	c.(706-708)AGG>AGT	p.R236S	RBM9_uc003aog.3_Missense_Mutation_p.R146S|RBM9_uc003aol.3_Missense_Mutation_p.R165S|RBM9_uc003aoj.3_Missense_Mutation_p.R165S|RBM9_uc003aok.3_Missense_Mutation_p.R166S|RBM9_uc003aoh.3_Missense_Mutation_p.R165S|RBM9_uc003aom.3_Missense_Mutation_p.R147S|RBM9_uc010gwu.2_Missense_Mutation_p.R145S|RBM9_uc003aoo.3_Missense_Mutation_p.R235S	NM_001082578	NP_001076047	O43251	RFOX2_HUMAN	RNA binding motif protein 9 isoform 5	175	RRM.				estrogen receptor signaling pathway|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of cell proliferation|RNA splicing	cytoplasm|nucleus	nucleotide binding|RNA binding|transcription corepressor activity|transcription factor binding				0						TCTCCCTGGCCCTGTCTGCAT	0.428													78	198	---	---	---	---	PASS	A	36164352	A	A	36164352	3	1	111	1	0	0	0	0	1	0	0	0	13147	622	22	3	693	3	RBM9	22	36164352	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	221279	36164352	15140214	422	41348										
ZC3H7B	23264	broad.mit.edu	37	chr22	41753294	41753294	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gctgaagcagaagttggccaAggctcgcaaggacatgctgc	14	10	0	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chr22:41753294A>T	uc003azw.2	+	23	3011	c.2795A>T	c.(2794-2796)AAG>ATG	p.K932M	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	948	Potential.				interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						AAGTTGGCCAAGGCTCGCAAG	0.622													22	97	---	---	---	---	PASS	T	41753294	T	T	41753294	3	4	111	1	0	0	0	0	1	0	0	0	17570	72	3	5	2881	5	ZC3H7B	22	41753294	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	5588942	41753294	9551272	423	41349										
ARSF	416	broad.mit.edu	37	chrX	3002640	3002640	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tgcgggggcacgagatcacgGagcagcccatgaaggctgaa	16	10	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chrX:3002640G>T	uc004cre.1	+	6	984	c.763G>T	c.(763-765)GAG>TAG	p.E255*	ARSF_uc004crf.1_Nonsense_Mutation_p.E255*	NM_004042	NP_004033	P54793	ARSF_HUMAN	arylsulfatase F precursor	255						extracellular region	arylsulfatase activity|metal ion binding			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CGAGATCACGGAGCAGCCCAT	0.463													15	54	---	---	---	---	PASS	T	3002640	T	T	3002640	4	4	111	1	0	0	0	0	0	1	0	0	991	1175	41	2	781	2	ARSF	23	3002640	Nonsense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08		3002640	152267920	424	41350										
NHS	4810	broad.mit.edu	37	chrX	17750515	17750515	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aatacgcccatgcaggcaatCtccgagggagagacggaaaa	12	10	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chrX:17750515C>A	uc004cxx.2	+	8	5162	c.4824C>A	c.(4822-4824)ATC>ATA	p.I1608I	NHS_uc011mix.1_Silent_p.I1629I|NHS_uc004cxy.2_Silent_p.I1452I|NHS_uc004cxz.2_Silent_p.I1431I|NHS_uc004cya.2_Silent_p.I1331I	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1608						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					TGCAGGCAATCTCCGAGGGAG	0.607													29	108	---	---	---	---	PASS	A	17750515	A	A	17750515	2	1	111	1	0	0	0	0	0	0	0	1	10411	903	32	2		2	NHS	23	17750515	Silent	SNP	C	TCGA-51-4079-01A-01D-1458-08	14747875	17750515	137520045	425	41351										
MAGEB4	4115	broad.mit.edu	37	chrX	30261046	30261046	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gcaggtgcccaacagtgatcCcccacgctatcaattcctgt	8	15	1	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chrX:30261046C>A	uc004dcb.2	+	1	878	c.794C>A	c.(793-795)CCC>CAC	p.P265H	MAGEB1_uc004dcc.2_5'Flank|MAGEB1_uc004dcd.2_5'Flank	NM_002367	NP_002358	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	265	MAGE.									ovary(1)	1						AACAGTGATCCCCCACGCTAT	0.502													19	37	---	---	---	---	PASS	A	30261046	A	A	30261046	3	1	111	1	0	0	0	0	1	0	0	0	9178	623	22	3	796	3	MAGEB4	23	30261046	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	12510531	30261046	125009514	426	41352										
SYTL5	94122	broad.mit.edu	37	chrX	37953621	37953621	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggagctcacaaagagtcaccGcagaaacacttctggcacac	9	13	3	2	rs150600953	byFrequency	TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chrX:37953621G>C	uc004ddu.2	+	9	1439	c.905G>C	c.(904-906)CGC>CCC	p.R302P	SYTL5_uc004ddv.2_Missense_Mutation_p.R302P|SYTL5_uc004ddx.2_Missense_Mutation_p.R302P	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	302					intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						AAGAGTCACCGCAGAAACACT	0.418													8	46	---	---	---	---	PASS	C	37953621	C	C	37953621	3	2	111	1	0	0	0	0	1	0	0	0	15483	1087	38	4	931	4	SYTL5	23	37953621	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	7692575	37953621	117316939	427	41353										
MAGED2	10916	broad.mit.edu	37	chrX	54837356	54837356	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	aggccctaatggcctcaatgGcccgcagggcttcaaggggt	14	12	2	0			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chrX:54837356G>A	uc004dtk.1	+	4	734	c.640G>A	c.(640-642)GCC>ACC	p.A214T	MAGED2_uc004dtl.1_Missense_Mutation_p.A214T|MAGED2_uc004dtm.1_Intron|MAGED2_uc010nkc.1_Missense_Mutation_p.A214T|MAGED2_uc004dtn.1_Missense_Mutation_p.A214T|MAGED2_uc004dto.1_Missense_Mutation_p.A188T	NM_177433	NP_803182	Q9UNF1	MAGD2_HUMAN	melanoma antigen family D, 2	214										ovary(2)|breast(1)	3						GGCCTCAATGGCCCGCAGGGC	0.607													11	14	---	---	---	---	PASS	A	54837356	A	A	54837356	3	1	111	1	0	0	0	0	1	0	0	0	9184	1203	42	3	650	3	MAGED2	23	54837356	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	16883735	54837356	100433204	428	41354										
ZC4H2	55906	broad.mit.edu	37	chrX	64138932	64138932	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	gctcacttaccttcataggtGggggctgctgcctgaaggtg	14	10	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chrX:64138932G>T	uc004dvu.2	-	4	639	c.551C>A	c.(550-552)CCA>CAA	p.P184Q	ZC4H2_uc004dvv.2_Missense_Mutation_p.P161Q|ZC4H2_uc011mov.1_Missense_Mutation_p.P161Q|ZC4H2_uc011mow.1_Intron|ZC4H2_uc004dvw.1_3'UTR	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	184							metal ion binding|protein binding			ovary(1)	1						CTTCATAGGTGGGGGCTGCTG	0.582													20	47	---	---	---	---	PASS	T	64138932	T	T	64138932	3	4	111	1	0	0	0	0	1	0	0	0	17575	1348	47	3	150	3	ZC4H2	23	64138932	Missense_Mutation	SNP	G	TCGA-51-4079-01A-01D-1458-08	9301576	64138932	91131628	429	41355										
DACH2	117154	broad.mit.edu	37	chrX	85906111	85906111	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	tatggctatgaacactcttcAgggaaatggaagccaaaatg	10	7	2	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chrX:85906111A>T	uc004eew.2	+	4	883	c.713A>T	c.(712-714)CAG>CTG	p.Q238L	DACH2_uc004eex.2_Missense_Mutation_p.Q225L|DACH2_uc010nmq.2_Missense_Mutation_p.Q104L|DACH2_uc011mra.1_Missense_Mutation_p.Q71L|DACH2_uc010nmr.2_Missense_Mutation_p.Q19L	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	238					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						AACACTCTTCAGGGAAATGGA	0.428													11	18	---	---	---	---	PASS	T	85906111	T	T	85906111	3	4	111	1	0	0	0	0	1	0	0	0	4221	188	7	5	727	5	DACH2	23	85906111	Missense_Mutation	SNP	A	TCGA-51-4079-01A-01D-1458-08	21767179	85906111	69364449	430	41356										
NXF5	55998	broad.mit.edu	37	chrX	101096492	101096492	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	ggcttcaacttattcttcacAgagtagggcgcagtaaaatg	10	8	3	1			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chrX:101096492A>C	uc011mrk.1	-	6	639	c.279T>G	c.(277-279)TCT>TCG	p.S93S	NXF5_uc004eih.1_RNA|NXF5_uc004eii.1_RNA|NXF5_uc004eij.1_RNA|NXF5_uc004eik.1_RNA|NXF5_uc004eil.1_RNA	NM_032946	NP_116564	Q9H1B4	NXF5_HUMAN	nuclear RNA export factor 5	93					mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nucleus	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						TATTCTTCACAGAGTAGGGCG	0.473													46	52	---	---	---	---	PASS	C	101096492	C	C	101096492	2	2	111	1	0	0	0	0	0	0	0	1	10786	175	7	5		5	NXF5	23	101096492	Silent	SNP	A	TCGA-51-4079-01A-01D-1458-08	15190381	101096492	54174068	431	41357										
GPR112	139378	broad.mit.edu	37	chrX	135405370	135405370	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cactttctcaagaatgagagCagcgaggttaaaagcatgat	10	7	1	3			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chrX:135405370C>A	uc004ezu.1	+	5	795	c.504C>A	c.(502-504)AGC>AGA	p.S168R	GPR112_uc010nsb.1_Intron	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	168	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					AGAATGAGAGCAGCGAGGTTA	0.448													63	121	---	---	---	---	PASS	A	135405370	A	A	135405370	3	1	111	1	0	0	0	0	1	0	0	0	6629	709	25	3	510	3	GPR112	23	135405370	Missense_Mutation	SNP	C	TCGA-51-4079-01A-01D-1458-08	34308878	135405370	19865190	432	41358										
PLXNA3	55558	broad.mit.edu	37	chrX	153688715	153688715	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	53	2.87597459937214e-08	2.25167500468705	2.72479711116075	2.08104080235228	0.00158969451516888	0.0312639921316546	29	cccaacctgactgagctgcgGgcccatgtcacggggcccgt	13	16	1	2			TCGA-51-4079-01A-01D-1458-08	TCGA-51-4079-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	0a43aade-225c-4a29-b1d8-6b930eb8a1db	db0707e0-4ea3-48c1-ab86-c2d249f6cc01	g.chrX:153688715G>T	uc004flm.2	+	2	365	c.192G>T	c.(190-192)CGG>CGT	p.R64R		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	64	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTGAGCTGCGGGCCCATGTCA	0.672													18	29	---	---	---	---	PASS	T	153688715	T	T	153688715	2	4	111	1	0	0	0	0	0	0	0	1	12121	1219	43	3		3	PLXNA3	23	153688715	Silent	SNP	G	TCGA-51-4079-01A-01D-1458-08	18283345	153688715	1581845	433	41359										
KIF1B	23095	broad.mit.edu	37	chr1	10403337	10403337	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ccctccacccatgccactgtCcaagccaggtgagcactcgc	8	19	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:10403337C>A	uc001aqx.3	+	34	3882	c.3680C>A	c.(3679-3681)TCC>TAC	p.S1227Y	KIF1B_uc001aqw.3_Missense_Mutation_p.S1181Y|KIF1B_uc001aqy.2_Missense_Mutation_p.S1201Y|KIF1B_uc001aqz.2_Missense_Mutation_p.S1227Y|KIF1B_uc001ara.2_Missense_Mutation_p.S1187Y|KIF1B_uc001arb.2_Missense_Mutation_p.S1213Y	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1227					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		ATGCCACTGTCCAAGCCAGGT	0.423													27	6	---	---	---	---	PASS	A	10403337	A	A	10403337	3	1	112	1	0	0	0	0	1	0	0	0	8284	855	30	2	5153	2	KIF1B	1	10403337	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08		10403337	238847284	1	41360										
FBXO44	93611	broad.mit.edu	37	chr1	11721284	11721284	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctgggccggctggtacggccCgagggtcaccaacagcagca	15	14	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:11721284C>T	uc001asm.2	+	6	848	c.722C>T	c.(721-723)CCG>CTG	p.P241L	FBXO44_uc001ask.2_Silent_p.P199P|FBXO44_uc001asl.2_Missense_Mutation_p.P241L|FBXO44_uc001asn.2_Silent_p.P199P|FBXO44_uc010oar.1_Silent_p.P231P|FBXO44_uc010oas.1_Missense_Mutation_p.P101L|FBXO6_uc001aso.2_5'Flank	NM_033182	NP_149438	Q9H4M3	FBX44_HUMAN	F-box protein 44 isoform 1	241	FBA.				protein catabolic process	SCF ubiquitin ligase complex	protein binding			ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.41e-06)|COAD - Colon adenocarcinoma(227;0.000255)|BRCA - Breast invasive adenocarcinoma(304;0.0003)|Kidney(185;0.000758)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		TGGTACGGCCCGAGGGTCACC	0.632													51	13	---	---	---	---	PASS	T	11721284	T	T	11721284	3	4	112	1	0	0	0	0	1	0	0	0	5753	652	23	1	740	1	FBXO44	1	11721284	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1317947	11721284	237529337	2	41361										
ARID1A	8289	broad.mit.edu	37	chr1	27056326	27056326	+	Frame_Shift_Del	DEL	C	-	-													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gcagggccgggcgcagagtgCcatgggcggcctctcttata							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:27056326delC	uc001bmv.1	+	2	1695	c.1322delC	c.(1321-1323)GCCfs	p.A441fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.A441fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.A441fs|ARID1A_uc001bmw.1_Frame_Shift_Del_p.A58fs	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	441					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)		GCGCAGAGTGCCATGGGCGGC	0.572			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								10	51	---	---	---	---		-	27056326	-	-	27056326	7	5	112	1	0	1	0	1	0	0	0	0	913	739	26	0	1328	0	ARID1A	1	27056326	Frame_Shift_Del	DEL	C	TCGA-51-4080-01A-01D-1458-08	15335042	27056326	222194295	3	41362										
JAK1	3716	broad.mit.edu	37	chr1	65309869	65309869	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggagtcctcaacacactcagGagcaatccatgggattcgtt	10	11	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:65309869G>A	uc001dbu.1	-	17	2530	c.2281C>T	c.(2281-2283)CCT>TCT	p.P761S	JAK1_uc009wam.1_Missense_Mutation_p.P749S|JAK1_uc009wal.1_5'UTR	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	761	Protein kinase 1.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		ACACACTCAGGAGCAATCCAT	0.498			Mis		ALL								13	125	---	---	---	---	PASS	A	65309869	A	A	65309869	3	1	112	1	0	0	0	0	1	0	0	0	7937	1174	41	2	1219	2	JAK1	1	65309869	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	38253543	65309869	183940752	4	41363										
LRRC7	57554	broad.mit.edu	37	chr1	70504838	70504838	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcgccaaggatttgattagtCctagagcttacagaggatac	10	8	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:70504838C>A	uc001dep.2	+	19	3247	c.3217C>A	c.(3217-3219)CCT>ACT	p.P1073T	LRRC7_uc009wbg.2_Missense_Mutation_p.P357T|LRRC7_uc001deq.2_Missense_Mutation_p.P314T	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1073						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TTTGATTAGTCCTAGAGCTTA	0.478													45	3	---	---	---	---	PASS	A	70504838	A	A	70504838	3	1	112	1	0	0	0	0	1	0	0	0	9020	855	30	2	3291	2	LRRC7	1	70504838	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	5194969	70504838	178745783	5	41364										
SLC44A5	204962	broad.mit.edu	37	chr1	75805294	75805294	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	caacaggccccttgaaatctGggtcatatgtccttggatca	9	11	3	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:75805294G>T	uc001dgu.2	-	4	218	c.74C>A	c.(73-75)CCA>CAA	p.P25Q	SLC44A5_uc001dgt.2_Missense_Mutation_p.P25Q|SLC44A5_uc001dgs.2_5'UTR|SLC44A5_uc001dgr.2_5'UTR|SLC44A5_uc010oqz.1_Missense_Mutation_p.P64Q|SLC44A5_uc010ora.1_Missense_Mutation_p.P19Q|SLC44A5_uc010orb.1_5'UTR	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	25	Cytoplasmic (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						CTTGAAATCTGGGTCATATGT	0.348													244	52	---	---	---	---	PASS	T	75805294	T	T	75805294	3	4	112	1	0	0	0	0	1	0	0	0	14639	1348	47	3	2280	3	SLC44A5	1	75805294	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	5300456	75805294	173445327	6	41365										
C1orf103	55791	broad.mit.edu	37	chr1	111495194	111495194	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gttcttgtaagaaaatagttTgaagaactggctggctgaaa	11	4	1	4			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:111495194T>C	uc001eaa.2	-	2	568	c.312A>G	c.(310-312)TCA>TCG	p.S104S	C1orf103_uc001dzz.2_5'UTR|C1orf103_uc001eab.2_Intron|C1orf103_uc001eac.1_Intron	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	104					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		GAAAATAGTTTGAAGAACTGG	0.373													81	9	---	---	---	---	PASS	C	111495194	C	C	111495194	2	2	112	1	0	0	0	0	0	0	0	1	1977	1799	63	5		5	C1orf103	1	111495194	Silent	SNP	T	TCGA-51-4080-01A-01D-1458-08	35689900	111495194	137755427	7	41366										
SPAG17	200162	broad.mit.edu	37	chr1	118530769	118530769	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tctttaccaaatgtgtctggTgggcattttggaggcgtagc	13	7	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:118530769T>C	uc001ehk.2	-	39	5648	c.5580A>G	c.(5578-5580)CCA>CCG	p.P1860P		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1860						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		ATGTGTCTGGTGGGCATTTTG	0.358													26	10	---	---	---	---	PASS	C	118530769	C	C	118530769	2	2	112	1	0	0	0	0	0	0	0	1	14979	1683	59	5		5	SPAG17	1	118530769	Silent	SNP	T	TCGA-51-4080-01A-01D-1458-08	7035575	118530769	130719852	8	41367										
HDGF	3068	broad.mit.edu	37	chr1	156714059	156714059	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctcgtcgctgctgccctctgCattccccttcttatcaccgt	6	18	3	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:156714059C>A	uc001fpy.3	-	4	707	c.385G>T	c.(385-387)GCA>TCA	p.A129S	HDGF_uc009wsd.2_Missense_Mutation_p.A97S|HDGF_uc001fpz.3_Missense_Mutation_p.A122S|HDGF_uc009wse.2_Missense_Mutation_p.A145S|HDGF_uc010phr.1_Missense_Mutation_p.A152S|HDGF_uc009wsf.2_Missense_Mutation_p.A97S|HDGF_uc009wsg.2_Missense_Mutation_p.A129S	NM_004494	NP_004485	P51858	HDGF_HUMAN	hepatoma-derived growth factor isoform a	129	Glu-rich.				cell proliferation|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus	DNA binding|growth factor activity|heparin binding|nucleotide binding			lung(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)	Breast(1374;0.198)		Colorectal(1306;0.018)		CTGCCCTCTGCATTCCCCTTC	0.562													537	352	---	---	---	---	PASS	A	156714059	A	A	156714059	3	1	112	1	0	0	0	0	1	0	0	0	7018	710	25	3	349	3	HDGF	1	156714059	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	38183290	156714059	92536562	9	41368										
CD1C	911	broad.mit.edu	37	chr1	158259909	158259909	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttctcccaggtggtgacaatGcagacggtaagaacatcgct	11	10	1	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:158259909G>T	uc001fru.2	+	1	347	c.55G>T	c.(55-57)GCA>TCA	p.A19S	CD1C_uc001frv.2_5'Flank	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	19	Extracellular (Potential).				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					TGGTGACAATGCAGACGGTAA	0.468													48	149	---	---	---	---	PASS	T	158259909	T	T	158259909	3	4	112	1	0	0	0	0	1	0	0	0	2976	1319	46	3	57	3	CD1C	1	158259909	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1545850	158259909	90990712	10	41369										
CCDC19	25790	broad.mit.edu	37	chr1	159846478	159846478	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcttcttccgcgcattttccTtttcctttctgcgccactct	4	16	4	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:159846478T>C	uc001fui.2	-	10	1238	c.1220A>G	c.(1219-1221)AAG>AGG	p.K407R	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.K322R|CCDC19_uc001ful.2_Missense_Mutation_p.K322R|CCDC19_uc009wtc.1_Silent_p.K406K	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	407	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			CGCATTTTCCTTTTCCTTTCT	0.552													3	103	---	---	---	---	PASS	C	159846478	C	C	159846478	3	2	112	1	0	0	0	0	1	0	0	0	2795	1609	56	5	447	5	CCDC19	1	159846478	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	1586569	159846478	89404143	11	41370										
IGSF9	57549	broad.mit.edu	37	chr1	159904551	159904551	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gcctcagcatggcaggccaaTgaaacatcctgggaggcatt	12	11	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:159904551T>C	uc001fur.2	-	7	933	c.735A>G	c.(733-735)TCA>TCG	p.S245S	IGSF9_uc001fuq.2_Silent_p.S245S|IGSF9_uc001fup.2_5'Flank	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	245	Ig-like 3.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			GGCAGGCCAATGAAACATCCT	0.567													78	40	---	---	---	---	PASS	C	159904551	C	C	159904551	2	2	112	1	0	0	0	0	0	0	0	1	7605	1451	51	5		5	IGSF9	1	159904551	Silent	SNP	T	TCGA-51-4080-01A-01D-1458-08	58073	159904551	89346070	12	41371										
BLZF1	8548	broad.mit.edu	37	chr1	169349804	169349804	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gggctatacaagatctcctaAgtgaacgggaacagtttcgt	11	8	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:169349804A>T	uc001gfx.1	+	5	1191	c.754A>T	c.(754-756)AGT>TGT	p.S252C	BLZF1_uc001gfy.2_Missense_Mutation_p.S252C|BLZF1_uc009wvp.1_Missense_Mutation_p.S229C	NM_003666	NP_003657	Q9H2G9	GO45_HUMAN	basic leucine zipper nuclear factor 1	252					cell proliferation|Golgi organization|Golgi to plasma membrane protein transport|regulation of cell growth|regulation of transcription from RNA polymerase II promoter	Golgi lumen|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|ubiquitin protein ligase binding			skin(1)	1	all_hematologic(923;0.208)					AGATCTCCTAAGTGAACGGGA	0.408													48	134	---	---	---	---	PASS	T	169349804	T	T	169349804	3	4	112	1	0	0	0	0	1	0	0	0	1453	72	3	5	768	5	BLZF1	1	169349804	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	9445253	169349804	79900817	13	41372										
F5	2153	broad.mit.edu	37	chr1	169555505	169555505	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggtcggtagctccaactgatGccctgagcagccacgtagaa	12	12	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:169555505G>A	uc001ggg.1	-	1	265	c.120C>T	c.(118-120)GGC>GGT	p.G40G	F5_uc010plr.1_RNA	NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	40	F5/8 type A 1.|Plastocyanin-like 1.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TCCAACTGATGCCCTGAGCAG	0.567													92	58	---	---	---	---	PASS	A	169555505	A	A	169555505	2	1	112	1	0	0	0	0	0	0	0	1	5348	1306	46	3		3	F5	1	169555505	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	205701	169555505	79695116	14	41373										
METTL13	51603	broad.mit.edu	37	chr1	171753036	171753036	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agatgagcttcttgaagatgGacatgacgcagatggagttt	13	5	1	6			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:171753036G>C	uc001ghz.2	+	2	657	c.310G>C	c.(310-312)GAC>CAC	p.D104H	METTL13_uc001gia.2_Missense_Mutation_p.D18H|METTL13_uc001gib.2_Missense_Mutation_p.D104H|METTL13_uc010pml.1_Missense_Mutation_p.D103H	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	104							methyltransferase activity|protein binding			kidney(1)	1						CTTGAAGATGGACATGACGCA	0.502													52	139	---	---	---	---	PASS	C	171753036	C	C	171753036	3	2	112	1	0	0	0	0	1	0	0	0	9497	1174	41	2	316	2	METTL13	1	171753036	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	2197531	171753036	77497585	15	41374										
TNN	63923	broad.mit.edu	37	chr1	175046735	175046735	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ccttggttcaggttgacgctGaccctcagcccctcagtgac	10	15	3	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:175046735G>T	uc001gkl.1	+	2	294	c.181G>T	c.(181-183)GAC>TAC	p.D61Y	TNN_uc010pmx.1_Missense_Mutation_p.D61Y	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	61					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GGTTGACGCTGACCCTCAGCC	0.592													40	64	---	---	---	---	PASS	T	175046735	T	T	175046735	3	4	112	1	0	0	0	0	1	0	0	0	16320	1290	45	2	183	2	TNN	1	175046735	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	3293699	175046735	74203886	16	41375										
TNR	7143	broad.mit.edu	37	chr1	175299209	175299209	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctgctcaggagccataggtaCccgcagtgccgttgtagctt	12	12	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:175299209C>G	uc001gkp.1	-	19	3874	c.3793_splice	c.e19+1	p.G1265_splice	TNR_uc009wwu.1_Splice_Site_p.G1265_splice	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor						axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GCCATAGGTACCCGCAGTGCC	0.587													74	55	---	---	---	---	PASS	G	175299209	G	G	175299209	5	3	112	1	0	0	0	0	0	0	1	0	16335	521	18	4	294	4	TNR	1	175299209	Splice_Site	SNP	C	TCGA-51-4080-01A-01D-1458-08	252474	175299209	73951412	17	41376										
FAM5C	339479	broad.mit.edu	37	chr1	190067447	190067447	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtgcatgctgtagccaaacaCttgaatgttattgattttca	8	7	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:190067447C>A	uc001gse.1	-	8	2234	c.2002G>T	c.(2002-2004)GTG>TTG	p.V668L	FAM5C_uc010pot.1_Missense_Mutation_p.V566L	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	668						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TAGCCAAACACTTGAATGTTA	0.453													81	205	---	---	---	---	PASS	A	190067447	A	A	190067447	3	1	112	1	0	0	0	0	1	0	0	0	5594	565	20	3	302	3	FAM5C	1	190067447	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	14768238	190067447	59183174	18	41377										
CFHR5	81494	broad.mit.edu	37	chr1	196965178	196965178	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgaaaacatgtggatacataCctgaactcgagtacggttat	9	7	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:196965178C>A	uc001gts.3	+	6	945	c.817C>A	c.(817-819)CCT>ACT	p.P273T		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	273	Sushi 5.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						TGGATACATACCTGAACTCGA	0.338													85	221	---	---	---	---	PASS	A	196965178	A	A	196965178	3	1	112	1	0	0	0	0	1	0	0	0	3288	507	18	3	839	3	CFHR5	1	196965178	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	6897731	196965178	52285443	19	41378										
CYB5R1	51706	broad.mit.edu	37	chr1	202936319	202936319	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	atactgaatgagggtcttacCgtctggatccccatgacgga	11	10	2	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:202936319C>T	uc001gyt.2	-	1	86	c.15G>A	c.(13-15)ACG>ACA	p.T5T	CYB5R1_uc010pqe.1_RNA	NM_016243	NP_057327	Q9UHQ9	NB5R1_HUMAN	cytochrome b5 reductase 1	5					sterol biosynthetic process	integral to membrane	cytochrome-b5 reductase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(75;0.141)			AGGGTCTTACCGTCTGGATCC	0.547													11	26	---	---	---	---	PASS	T	202936319	T	T	202936319	2	4	112	1	0	0	0	0	0	0	0	1	4126	666	23	1		1	CYB5R1	1	202936319	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	5971141	202936319	46314302	20	41379										
DSTYK	25778	broad.mit.edu	37	chr1	205116781	205116781	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	catgggctggacaatgcccaAgagaggcctcttcaaggggt	14	10	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:205116781A>G	uc001hbw.2	-	13	2759	c.2695T>C	c.(2695-2697)TTG>CTG	p.L899L	DSTYK_uc001hbx.2_Silent_p.L854L	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	899	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						ACAATGCCCAAGAGAGGCCTC	0.532													201	138	---	---	---	---	PASS	G	205116781	G	G	205116781	2	3	112	1	0	0	0	0	0	0	0	1	4785	69	3	5		5	DSTYK	1	205116781	Silent	SNP	A	TCGA-51-4080-01A-01D-1458-08	2180462	205116781	44133840	21	41380										
USH2A	7399	broad.mit.edu	37	chr1	216144034	216144034	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aggaatgtaaactccaaggaGcaaatccgtaagcacgatag	10	8	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:216144034G>A	uc001hku.1	-	36	7277	c.6890C>T	c.(6889-6891)GCT>GTT	p.A2297V		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2297	Fibronectin type-III 9.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACTCCAAGGAGCAAATCCGTA	0.413										HNSCC(13;0.011)			90	185	---	---	---	---	PASS	A	216144034	A	A	216144034	3	1	112	1	0	0	0	0	1	0	0	0	17033	971	34	3	8866	3	USH2A	1	216144034	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	11027253	216144034	33106587	22	41381										
HIST3H2A	92815	broad.mit.edu	37	chr1	228645337	228645337	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cggcaagctccaggatctcgGcagtcaagtactcgagcacc	11	14	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:228645337G>A	uc001hsy.2	-	1	224	c.182C>T	c.(181-183)GCC>GTC	p.A61V	HIST3H2BB_uc001hsz.2_5'Flank	NM_033445	NP_254280	Q7L7L0	H2A3_HUMAN	histone cluster 3, H2a	61					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)	1		Prostate(94;0.183)				CAGGATCTCGGCAGTCAAGTA	0.687													4	103	---	---	---	---	PASS	A	228645337	A	A	228645337	3	1	112	1	0	0	0	0	1	0	0	0	7182	1203	42	3	214	3	HIST3H2A	1	228645337	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	12501303	228645337	20605284	23	41382										
RYR2	6262	broad.mit.edu	37	chr1	237798254	237798254	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cttcggtgatggataataatGaactagcattagctctgcgt	10	7	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:237798254G>A	uc001hyl.1	+	44	6874	c.6754G>A	c.(6754-6756)GAA>AAA	p.E2252K		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2252	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GGATAATAATGAACTAGCATT	0.428													6	17	---	---	---	---	PASS	A	237798254	A	A	237798254	3	1	112	1	0	0	0	0	1	0	0	0	13769	1291	45	2	6928	2	RYR2	1	237798254	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	9152917	237798254	11452367	24	41383										
RYR2	6262	broad.mit.edu	37	chr1	237921021	237921021	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aactggaccaatggtagcagCtactctgaaacttggaattg	10	8	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:237921021C>T	uc001hyl.1	+	82	11390	c.11270C>T	c.(11269-11271)GCT>GTT	p.A3757V	RYR2_uc010pya.1_Missense_Mutation_p.A172V	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3757					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)			ATGGTAGCAGCTACTCTGAAA	0.368													48	124	---	---	---	---	PASS	T	237921021	T	T	237921021	3	4	112	1	0	0	0	0	1	0	0	0	13769	797	28	3	11596	3	RYR2	1	237921021	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	122767	237921021	11329600	25	41384										
RYR2	6262	broad.mit.edu	37	chr1	237942003	237942003	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcaacagagtttggcacacaGcaggctgtgggatgctgtgg	15	8	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:237942003G>A	uc001hyl.1	+	88	11933	c.11813G>A	c.(11812-11814)AGC>AAC	p.S3938N	RYR2_uc010pya.1_Missense_Mutation_p.S353N	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3938					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)			TTGGCACACAGCAGGCTGTGG	0.448													46	130	---	---	---	---	PASS	A	237942003	A	A	237942003	3	1	112	1	0	0	0	0	1	0	0	0	13769	971	34	3	12163	3	RYR2	1	237942003	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	20982	237942003	11308618	26	41385										
OR2C3	81472	broad.mit.edu	37	chr1	247695265	247695265	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	caagccagttgcataatgagGggcatctcgcaaaagaagtg	12	8	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:247695265G>T	uc009xgy.2	-	2	911	c.549C>A	c.(547-549)CCC>CCA	p.P183P	C1orf150_uc009xgw.2_Intron|C1orf150_uc001ida.3_Intron|C1orf150_uc001idb.3_Intron|C1orf150_uc009xgx.2_Intron|LOC148824_uc001idd.2_5'Flank	NM_198074	NP_932340	Q8N628	OR2C3_HUMAN	olfactory receptor, family 2, subfamily C,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0242)	OV - Ovarian serous cystadenocarcinoma(106;0.0241)			GCATAATGAGGGGCATCTCGC	0.562													39	15	---	---	---	---	PASS	T	247695265	T	T	247695265	2	4	112	1	0	0	0	0	0	0	0	1	10993	1219	43	3		3	OR2C3	1	247695265	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	9753262	247695265	1555356	27	41386										
OR13G1	441933	broad.mit.edu	37	chr1	247835993	247835993	+	Nonsense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	caaatggccacatagcggtcAtaggccatggtggtgaagag	14	8	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:247835993A>C	uc001idi.1	-	1	351	c.351T>G	c.(349-351)TAT>TAG	p.Y117*		NM_001005487	NP_001005487	Q8NGZ3	O13G1_HUMAN	olfactory receptor, family 13, subfamily G,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			CATAGCGGTCATAGGCCATGG	0.463													35	82	---	---	---	---	PASS	C	247835993	C	C	247835993	4	2	112	1	0	0	0	0	0	1	0	0	10942	224	8	5	576	5	OR13G1	1	247835993	Nonsense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	140728	247835993	1414628	28	41387										
OR1C1	26188	broad.mit.edu	37	chr1	247920813	247920813	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gaagcattttctgaagtcccCtcttcatatccctgttcctt	5	13	3	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:247920813C>T	uc010pza.1	-	1	896	c.896G>A	c.(895-897)AGG>AAG	p.R299K		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			CTGAAGTCCCCTCTTCATATC	0.418													53	195	---	---	---	---	PASS	T	247920813	T	T	247920813	3	4	112	1	0	0	0	0	1	0	0	0	10952	681	24	3	50	3	OR1C1	1	247920813	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	84820	247920813	1329808	29	41388										
OR14A16	284532	broad.mit.edu	37	chr1	247978629	247978629	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttggacacaggtgctcctgtCcatgatgacatcatagtgca	10	10	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:247978629C>A	uc001idm.1	-	1	403	c.403G>T	c.(403-405)GAC>TAC	p.D135Y		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	135	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTGCTCCTGTCCATGATGACA	0.517													98	217	---	---	---	---	PASS	A	247978629	A	A	247978629	3	1	112	1	0	0	0	0	1	0	0	0	10945	855	30	2	530	2	OR14A16	1	247978629	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	57816	247978629	1271992	30	41389										
OR11L1	391189	broad.mit.edu	37	chr1	248004903	248004903	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	atacgaagaagtagagctgtGccatgcaggcagagaaggag	15	6	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:248004903G>A	uc001idn.1	-	1	296	c.296C>T	c.(295-297)GCA>GTA	p.A99V		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	99	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GTAGAGCTGTGCCATGCAGGC	0.592													18	43	---	---	---	---	PASS	A	248004903	A	A	248004903	3	1	112	1	0	0	0	0	1	0	0	0	10930	1319	46	3	676	3	OR11L1	1	248004903	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	26274	248004903	1245718	31	41390										
OR2L13	284521	broad.mit.edu	37	chr1	248263567	248263567	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cctgaggaataaggaagtccTgggggctatgaggagagtgt	17	5	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:248263567T>C	uc001ids.2	+	3	1227	c.890T>C	c.(889-891)CTG>CCG	p.L297P		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			AAGGAAGTCCTGGGGGCTATG	0.473													76	59	---	---	---	---	PASS	C	248263567	C	C	248263567	3	2	112	1	0	0	0	0	1	0	0	0	11006	1580	55	5	892	5	OR2L13	1	248263567	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	258664	248263567	987054	32	41391										
OR2M5	127059	broad.mit.edu	37	chr1	248309138	248309138	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggctgtcattcacatgggatCtggagagggtcgtcgcaaag	15	8	3	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:248309138C>A	uc010pze.1	+	1	689	c.689C>A	c.(688-690)TCT>TAT	p.S230Y		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	230	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			CACATGGGATCTGGAGAGGGT	0.448													422	298	---	---	---	---	PASS	A	248309138	A	A	248309138	3	1	112	1	0	0	0	0	1	0	0	0	11013	913	32	2	691	2	OR2M5	1	248309138	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	45571	248309138	941483	33	41392										
OR2T33	391195	broad.mit.edu	37	chr1	248437007	248437007	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcatgagggaattgccaaacAgggaggtcaaaacgatactc	11	8	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:248437007A>T	uc010pzi.1	-	1	110	c.110T>A	c.(109-111)CTG>CAG	p.L37Q		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	37	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ATTGCCAAACAGGGAGGTCAA	0.488													61	169	---	---	---	---	PASS	T	248437007	T	T	248437007	3	4	112	1	0	0	0	0	1	0	0	0	11024	188	7	5	855	5	OR2T33	1	248437007	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	127869	248437007	813614	34	41393										
OR2T4	127074	broad.mit.edu	37	chr1	248525905	248525905	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aaaatgttaacagtggaaccTgcctttcaaaaagctatgga	8	7	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr1:248525905T>A	uc001ieh.1	+	1	1023	c.1023T>A	c.(1021-1023)CCT>CCA	p.P341P		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	341	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CAGTGGAACCTGCCTTTCAAA	0.388													94	207	---	---	---	---	PASS	A	248525905	A	A	248525905	2	1	112	1	0	0	0	0	0	0	0	1	11027	1567	55	5		5	OR2T4	1	248525905	Silent	SNP	T	TCGA-51-4080-01A-01D-1458-08	88898	248525905	724716	35	41394										
KIDINS220	57498	broad.mit.edu	37	chr2	8952524	8952524	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gaaaagatgctgctgacctaCcttatcagagcagttgactt	9	9	1	4			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:8952524C>T	uc002qzc.2	-	6	686	c.504_splice	c.e6+1	p.K168_splice	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Splice_Site_p.K126_splice|KIDINS220_uc010yiw.1_Splice_Site_p.K169_splice	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa						activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TGCTGACCTACCTTATCAGAG	0.398													32	94	---	---	---	---	PASS	T	8952524	T	T	8952524	5	4	112	1	0	0	0	0	0	0	1	0	8271	521	18	3	4910	3	KIDINS220	2	8952524	Splice_Site	SNP	C	TCGA-51-4080-01A-01D-1458-08		8952524	234246849	36	41395										
APOB	338	broad.mit.edu	37	chr2	21230036	21230036	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gctcgtcgtgagatttttcaGctttgtacttatcaaactta	7	8	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:21230036G>T	uc002red.2	-	26	9832	c.9704C>A	c.(9703-9705)GCT>GAT	p.A3235D		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3235	Heparin-binding.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AGATTTTTCAGCTTTGTACTT	0.363													47	103	---	---	---	---	PASS	T	21230036	T	T	21230036	3	4	112	1	0	0	0	0	1	0	0	0	785	971	34	3	4003	3	APOB	2	21230036	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	12277512	21230036	221969337	37	41396										
OTOF	9381	broad.mit.edu	37	chr2	26696918	26696918	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gggcacgggcatgatgggacCtcggtccacgtccaccgggc	16	14	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:26696918C>A	uc002rhk.2	-	27	3476	c.3349G>T	c.(3349-3351)GGT>TGT	p.G1117C	OTOF_uc010yla.1_5'Flank|OTOF_uc002rhh.2_Missense_Mutation_p.G370C|OTOF_uc002rhi.2_Missense_Mutation_p.G427C|OTOF_uc002rhj.2_Missense_Mutation_p.G370C	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1117	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATGATGGGACCTCGGTCCACG	0.647													113	70	---	---	---	---	PASS	A	26696918	A	A	26696918	3	1	112	1	0	0	0	0	1	0	0	0	11303	681	24	3	2909	3	OTOF	2	26696918	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	5466882	26696918	216502455	38	41397										
ZNF512	84450	broad.mit.edu	37	chr2	27826121	27826121	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aatgtcaccactgtggaaaaCcatataggtcgaaggctgga	11	8	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:27826121C>T	uc002rla.2	+	9	970	c.883C>T	c.(883-885)CCA>TCA	p.P295S	ZNF512_uc010ylv.1_Missense_Mutation_p.P216S|ZNF512_uc010ylw.1_Missense_Mutation_p.P266S|ZNF512_uc002rlb.2_Missense_Mutation_p.P216S|ZNF512_uc010ylx.1_Missense_Mutation_p.P216S|ZNF512_uc002rlc.2_Missense_Mutation_p.P216S|ZNF512_uc010yly.1_RNA|ZNF512_uc010ylz.1_Missense_Mutation_p.P188S	NM_032434	NP_115810	Q96ME7	ZN512_HUMAN	zinc finger protein 512	295	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					CTGTGGAAAACCATATAGGTC	0.488													93	245	---	---	---	---	PASS	T	27826121	T	T	27826121	3	4	112	1	0	0	0	0	1	0	0	0	17953	507	18	3	917	3	ZNF512	2	27826121	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1129203	27826121	215373252	39	41398										
SRBD1	55133	broad.mit.edu	37	chr2	45704186	45704186	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	attttcactagctcagctaaTggatcttgtacacgccttgc	7	11	3	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:45704186T>A	uc002rus.2	-	16	2071	c.1995A>T	c.(1993-1995)CCA>CCT	p.P665P	SRBD1_uc010yoc.1_Silent_p.P184P	NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	665					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			GCTCAGCTAATGGATCTTGTA	0.338													65	53	---	---	---	---	PASS	A	45704186	A	A	45704186	2	1	112	1	0	0	0	0	0	0	0	1	15132	1451	51	5		5	SRBD1	2	45704186	Silent	SNP	T	TCGA-51-4080-01A-01D-1458-08	17878065	45704186	197495187	40	41399										
VRK2	7444	broad.mit.edu	37	chr2	58350361	58350361	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	accagcttggatgcccacaaGggagtaggtgggtttctttt	13	8	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:58350361G>T	uc002rzo.2	+	11	1414	c.669G>T	c.(667-669)AAG>AAT	p.K223N	VRK2_uc010fcb.2_Missense_Mutation_p.K223N|VRK2_uc002rzs.2_Missense_Mutation_p.K223N|VRK2_uc002rzr.2_Missense_Mutation_p.K223N|VRK2_uc010fcc.2_Missense_Mutation_p.K105N|VRK2_uc002rzv.2_Missense_Mutation_p.K223N|VRK2_uc010fcd.2_Missense_Mutation_p.K200N|VRK2_uc002rzp.2_Missense_Mutation_p.K223N|VRK2_uc010ypg.1_Missense_Mutation_p.K223N|VRK2_uc002rzq.2_Missense_Mutation_p.K223N|VRK2_uc002rzu.2_Missense_Mutation_p.K223N|VRK2_uc002rzt.2_Missense_Mutation_p.K105N|VRK2_uc010yph.1_Missense_Mutation_p.K105N	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	223	Protein kinase.					integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						ATGCCCACAAGGGAGTAGGTG	0.393													73	207	---	---	---	---	PASS	T	58350361	T	T	58350361	3	4	112	1	0	0	0	0	1	0	0	0	17217	991	35	3	695	3	VRK2	2	58350361	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	12646175	58350361	184849012	41	41400										
WDR92	116143	broad.mit.edu	37	chr2	68361898	68361898	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gagctccctgttctgcggcaGgtgtcggacctgccacacag	13	14	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:68361898G>T	uc002see.1	-	7	883	c.802C>A	c.(802-804)CTG>ATG	p.L268M	WDR92_uc002sed.1_RNA|WDR92_uc002sef.1_Missense_Mutation_p.L268M|WDR92_uc002seg.1_Missense_Mutation_p.L167M	NM_138458	NP_612467	Q96MX6	WDR92_HUMAN	monad	268	WD 5.				apoptosis|histone lysine methylation		methylated histone residue binding				0						TTCTGCGGCAGGTGTCGGACC	0.507													24	40	---	---	---	---	PASS	T	68361898	T	T	68361898	3	4	112	1	0	0	0	0	1	0	0	0	17336	991	35	3	279	3	WDR92	2	68361898	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	10011537	68361898	174837475	42	41401										
CD207	50489	broad.mit.edu	37	chr2	71058916	71058916	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctttagtcaggccaatccagTagatgagtccccccgctgtt	9	13	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:71058916T>C	uc002shg.2	-	5	799	c.752A>G	c.(751-753)TAC>TGC	p.Y251C		NM_015717	NP_056532	Q9UJ71	CLC4K_HUMAN	CD207 antigen, langerin	251	C-type lectin.|Extracellular (Potential).				defense response to virus	endocytic vesicle|integral to membrane	mannose binding			ovary(1)|lung(1)	2						GCCAATCCAGTAGATGAGTCC	0.537													59	154	---	---	---	---	PASS	C	71058916	C	C	71058916	3	2	112	1	0	0	0	0	1	0	0	0	2983	1638	57	5	242	5	CD207	2	71058916	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	2697018	71058916	172140457	43	41402										
AFF3	3899	broad.mit.edu	37	chr2	100194833	100194833	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctcttgcagtccctgtggccGttggagcctggagaccacgg	14	13	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:100194833G>A	uc002tag.2	-	17	3110	c.2874C>T	c.(2872-2874)AAC>AAT	p.N958N	AFF3_uc002taf.2_Silent_p.N983N	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	958					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						CCCTGTGGCCGTTGGAGCCTG	0.493													103	354	---	---	---	---	PASS	A	100194833	A	A	100194833	2	1	112	1	0	0	0	0	0	0	0	1	358	1136	40	1		1	AFF3	2	100194833	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	29135917	100194833	143004540	44	41403										
MRPS9	64965	broad.mit.edu	37	chr2	105654683	105654683	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgcaaacaaatgtcagatccCaggtaaggcctgggaagact	11	9	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:105654683C>A	uc002tcn.3	+	1	201	c.133C>A	c.(133-135)CAG>AAG	p.Q45K		NM_182640	NP_872578	P82933	RT09_HUMAN	mitochondrial ribosomal protein S9 precursor	45					DNA damage response, detection of DNA damage|translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0						TGTCAGATCCCAGGTAAGGCC	0.622													10	24	---	---	---	---	PASS	A	105654683	A	A	105654683	3	1	112	1	0	0	0	0	1	0	0	0	9849	595	21	3	135	3	MRPS9	2	105654683	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	5459850	105654683	137544690	45	41404										
GTDC1	79712	broad.mit.edu	37	chr2	144764848	144764848	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gattttgtttattttcaccaTgatgagagcttgaattatct	7	5	2	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:144764848T>G	uc002tvp.2	-	7	1055	c.776A>C	c.(775-777)CAT>CCT	p.H259P	GTDC1_uc002tvo.2_Missense_Mutation_p.H259P|GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Missense_Mutation_p.H259P|GTDC1_uc010fnn.2_Missense_Mutation_p.H259P|GTDC1_uc002tvs.2_Missense_Mutation_p.H227P|GTDC1_uc010fno.2_Missense_Mutation_p.H130P|GTDC1_uc002tvt.1_Missense_Mutation_p.H259P	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	259					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		ATTTTCACCATGATGAGAGCT	0.413													65	117	---	---	---	---	PASS	G	144764848	G	G	144764848	3	3	112	1	0	0	0	0	1	0	0	0	6851	1464	51	5	624	5	GTDC1	2	144764848	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	39110165	144764848	98434525	46	41405										
PRPF40A	55660	broad.mit.edu	37	chr2	153519149	153519149	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cataaaatctttaaatattcGttttctttcagattctagag	4	6	4	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:153519149G>A	uc002tyh.3	-	21	2312	c.2290C>T	c.(2290-2292)CGA>TGA	p.R764*	PRPF40A_uc002tyg.3_Nonsense_Mutation_p.R220*|PRPF40A_uc010zcd.1_Nonsense_Mutation_p.R715*	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	791	FF 5.				mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						TTAAATATTCGTTTTCTTTCA	0.264													9	20	---	---	---	---	PASS	A	153519149	A	A	153519149	4	1	112	1	0	0	0	0	0	1	0	0	12571	1153	40	1	526	1	PRPF40A	2	153519149	Nonsense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	8754301	153519149	89680224	47	41406										
SCN7A	6332	broad.mit.edu	37	chr2	167327160	167327160	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	taatttttaaaattctcaaaGttcttgcagtttgaagcgtt	6	5	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:167327160G>C	uc002udu.1	-	6	756	c.629C>G	c.(628-630)ACT>AGT	p.T210S	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	210	Helical; Voltage-sensor; Name=S4 of repeat I; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						AATTCTCAAAGTTCTTGCAGT	0.299													23	31	---	---	---	---	PASS	C	167327160	C	C	167327160	3	2	112	1	0	0	0	0	1	0	0	0	13923	1029	36	4	4499	4	SCN7A	2	167327160	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	13808011	167327160	75872213	48	41407										
XIRP2	129446	broad.mit.edu	37	chr2	168103567	168103567	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggaaagaatctaaacagcctGatgccatccctggtgatatt	9	9	1	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:168103567G>T	uc002udx.2	+	8	5683	c.5665G>T	c.(5665-5667)GAT>TAT	p.D1889Y	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.D1714Y|XIRP2_uc010fpq.2_Missense_Mutation_p.D1667Y|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1714					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TAAACAGCCTGATGCCATCCC	0.368													51	68	---	---	---	---	PASS	T	168103567	T	T	168103567	3	4	112	1	0	0	0	0	1	0	0	0	17427	1290	45	2	5695	2	XIRP2	2	168103567	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	776407	168103567	75095806	49	41408										
XIRP2	129446	broad.mit.edu	37	chr2	168103615	168103615	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctattgaatgccttgaaaaaGctacaaatacaaagacagaa	6	7	0	4			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:168103615G>C	uc002udx.2	+	8	5731	c.5713G>C	c.(5713-5715)GCT>CCT	p.A1905P	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.A1730P|XIRP2_uc010fpq.2_Missense_Mutation_p.A1683P|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1730					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CCTTGAAAAAGCTACAAATAC	0.368													35	56	---	---	---	---	PASS	C	168103615	C	C	168103615	3	2	112	1	0	0	0	0	1	0	0	0	17427	971	34	4	5743	4	XIRP2	2	168103615	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	48	168103615	75095758	50	41409										
TTN	7273	broad.mit.edu	37	chr2	179400408	179400408	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	atgtgaaggatcttgtgacaAtaacttggtagtggccatta	11	5	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:179400408A>G	uc010zfg.1	-	307	93454	c.93230T>C	c.(93229-93231)ATT>ACT	p.I31077T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I24772T|TTN_uc010zfi.1_Missense_Mutation_p.I24705T|TTN_uc010zfj.1_Missense_Mutation_p.I24580T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32004							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)			TCTTGTGACAATAACTTGGTA	0.423													122	156	---	---	---	---	PASS	G	179400408	G	G	179400408	3	3	112	1	0	0	0	0	1	0	0	0	16732	101	4	5	7065	5	TTN	2	179400408	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	11296793	179400408	63798965	51	41410										
TTN	7273	broad.mit.edu	37	chr2	179414471	179414471	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggcaagtctgctggtttcccGtttttcaatgatgtagtggg	13	7	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:179414471G>A	uc010zfg.1	-	287	84498	c.84274C>T	c.(84274-84276)CGG>TGG	p.R28092W	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R21787W|TTN_uc010zfi.1_Missense_Mutation_p.R21720W|TTN_uc010zfj.1_Missense_Mutation_p.R21595W	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29019							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)			CTGGTTTCCCGTTTTTCAATG	0.438													57	67	---	---	---	---	PASS	A	179414471	A	A	179414471	3	1	112	1	0	0	0	0	1	0	0	0	16732	1144	40	1	16101	1	TTN	2	179414471	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	14063	179414471	63784902	52	41411										
TTN	7273	broad.mit.edu	37	chr2	179500272	179500272	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tttgaggtacagatgatttcCatctctcagtatttcagtct	7	8	4	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:179500272C>T	uc010zfg.1	-	176	34299	c.34075G>A	c.(34075-34077)GGA>AGA	p.G11359R	TTN_uc010zfh.1_Missense_Mutation_p.G5054R|TTN_uc010zfi.1_Missense_Mutation_p.G4987R|TTN_uc010zfj.1_Missense_Mutation_p.G4862R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12286							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)			AGATGATTTCCATCTCTCAGT	0.378													5	10	---	---	---	---	PASS	T	179500272	T	T	179500272	3	4	112	1	0	0	0	0	1	0	0	0	16732	603	21	3	66458	3	TTN	2	179500272	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	85801	179500272	63699101	53	41412										
TTN	7273	broad.mit.edu	37	chr2	179581922	179581922	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttgcctactttgagaactgtCagagtggcagtattttctac	9	8	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:179581922C>A	uc010zfg.1	-	85	22031	c.21807G>T	c.(21805-21807)CTG>CTT	p.L7269L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.L3930L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8196							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)			TGAGAACTGTCAGAGTGGCAG	0.493													49	59	---	---	---	---	PASS	A	179581922	A	A	179581922	2	1	112	1	0	0	0	0	0	0	0	1	16732	813	29	2		2	TTN	2	179581922	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	81650	179581922	63617451	54	41413										
TTN	7273	broad.mit.edu	37	chr2	179599249	179599249	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agctaatttcaaatggtccaGtgcctgagacttcacactga	8	10	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:179599249G>C	uc010zfg.1	-	49	11794	c.11570C>G	c.(11569-11571)ACT>AGT	p.T3857S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T518S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4784							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)			AAATGGTCCAGTGCCTGAGAC	0.388													94	129	---	---	---	---	PASS	C	179599249	C	C	179599249	3	2	112	1	0	0	0	0	1	0	0	0	16732	1029	36	4	89471	4	TTN	2	179599249	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	17327	179599249	63600124	55	41414										
CCDC141	285025	broad.mit.edu	37	chr2	179733888	179733888	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gaccaccttgtacaggatatCctcgtaatcctggattctct	7	12	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:179733888C>G	uc002unf.1	-	5	682	c.625G>C	c.(625-627)GAT>CAT	p.D209H		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	209							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			TACAGGATATCCTCGTAATCC	0.403													88	137	---	---	---	---	PASS	G	179733888	G	G	179733888	3	3	112	1	0	0	0	0	1	0	0	0	2775	855	30	2	2038	2	CCDC141	2	179733888	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	134639	179733888	63465485	56	41415										
ZNF385B	151126	broad.mit.edu	37	chr2	180383331	180383331	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggggaatggatactccaaatGtatggttaataaccgctttt	10	6	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:180383331G>T	uc002unn.3	-	5	1035	c.431C>A	c.(430-432)ACA>AAA	p.T144K	ZNF385B_uc002unj.2_Missense_Mutation_p.T42K|ZNF385B_uc002unk.2_RNA|ZNF385B_uc002unl.2_Missense_Mutation_p.T41K|ZNF385B_uc002unm.2_Missense_Mutation_p.T68K	NM_152520	NP_689733	Q569K4	Z385B_HUMAN	zinc finger protein 385B isoform 1	144						nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			TACTCCAAATGTATGGTTAAT	0.343													71	143	---	---	---	---	PASS	T	180383331	T	T	180383331	3	4	112	1	0	0	0	0	1	0	0	0	17874	1377	48	3	1008	3	ZNF385B	2	180383331	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	649443	180383331	62816042	57	41416										
FAM171B	165215	broad.mit.edu	37	chr2	187627521	187627521	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctaacatctggaagaagcgaGaggaacgcccactgattccc	10	12	1	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:187627521G>T	uc002ups.2	+	8	2564	c.2452G>T	c.(2452-2454)GAG>TAG	p.E818*	FAM171B_uc002upr.1_Nonsense_Mutation_p.E785*|FAM171B_uc002upt.2_Nonsense_Mutation_p.E287*	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	818	Cytoplasmic (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						GAAGAAGCGAGAGGAACGCCC	0.438													33	40	---	---	---	---	PASS	T	187627521	T	T	187627521	4	4	112	1	0	0	0	0	0	1	0	0	5491	943	33	2	2482	2	FAM171B	2	187627521	Nonsense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	7244190	187627521	55571852	58	41417										
COL5A2	1290	broad.mit.edu	37	chr2	189899824	189899824	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggcttcttttgataaaaggcGcaaaaaagtcatctgagtaa	9	6	3	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:189899824G>A	uc002uqk.2	-	53	4446	c.4171C>T	c.(4171-4173)CGC>TGC	p.R1391C	COL5A2_uc010frx.2_Missense_Mutation_p.R967C	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	1391	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			GATAAAAGGCGCAAAAAAGTC	0.398													97	76	---	---	---	---	PASS	A	189899824	A	A	189899824	3	1	112	1	0	0	0	0	1	0	0	0	3697	1087	38	1	336	1	COL5A2	2	189899824	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	2272303	189899824	53299549	59	41418										
ICOS	29851	broad.mit.edu	37	chr2	204822598	204822598	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gaacacagccaaaaaatctaGactcacaggtatgactccat	6	11	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:204822598G>A	uc002vam.2	+	4	645	c.578G>A	c.(577-579)AGA>AAA	p.R193K	ICOS_uc010zip.1_Missense_Mutation_p.R193K|ICOS_uc010fua.2_Intron	NM_012092	NP_036224	Q9Y6W8	ICOS_HUMAN	inducible T-cell co-stimulator precursor	193	Cytoplasmic (Potential).				immune response|T cell costimulation	extracellular region					0						AAAAAATCTAGACTCACAGGT	0.388													59	71	---	---	---	---	PASS	A	204822598	A	A	204822598	3	1	112	1	0	0	0	0	1	0	0	0	7486	942	33	2	592	2	ICOS	2	204822598	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	14922774	204822598	38376775	60	41419										
CPS1	1373	broad.mit.edu	37	chr2	211465305	211465305	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aactattcaagagaggtgtgCtcaaggaatatggtgtgaaa	12	4	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:211465305C>T	uc002vee.3	+	15	1708	c.1576C>T	c.(1576-1578)CTC>TTC	p.L526F	CPS1_uc010fur.2_Missense_Mutation_p.L532F|CPS1_uc010fus.2_Missense_Mutation_p.L75F	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	526					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)		GAGAGGTGTGCTCAAGGAATA	0.363													81	125	---	---	---	---	PASS	T	211465305	T	T	211465305	3	4	112	1	0	0	0	0	1	0	0	0	3823	797	28	3	1656	3	CPS1	2	211465305	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	6642707	211465305	31734068	61	41420										
ABCA12	26154	broad.mit.edu	37	chr2	215862486	215862486	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cagctataaatacaacccagGcaaccataagcacaattgga	6	11	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:215862486G>C	uc002vew.2	-	23	3447	c.3227C>G	c.(3226-3228)GCC>GGC	p.A1076G	ABCA12_uc002vev.2_Missense_Mutation_p.A758G|ABCA12_uc010zjn.1_Missense_Mutation_p.A3G	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1076	Helical; (Potential).				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TACAACCCAGGCAACCATAAG	0.363													38	44	---	---	---	---	PASS	C	215862486	C	C	215862486	3	2	112	1	0	0	0	0	1	0	0	0	30	1203	42	4	4684	4	ABCA12	2	215862486	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	4397181	215862486	27336887	62	41421										
FN1	2335	broad.mit.edu	37	chr2	216241299	216241299	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	attggctggaacggcatcaaCttggaagccagtgatcgtct	12	9	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:216241299C>A	uc002vfa.2	-	36	6075	c.5809G>T	c.(5809-5811)GTT>TTT	p.V1937F	FN1_uc002vfb.2_Missense_Mutation_p.V1756F|FN1_uc002vfc.2_Missense_Mutation_p.V1756F|FN1_uc002vfd.2_Missense_Mutation_p.V1937F|FN1_uc002vfe.2_Missense_Mutation_p.V1846F|FN1_uc002vff.2_Missense_Mutation_p.V1846F|FN1_uc002vfg.2_Missense_Mutation_p.V1756F|FN1_uc002vfh.2_Missense_Mutation_p.V1756F|FN1_uc002vfi.2_Missense_Mutation_p.V1937F|FN1_uc002vfj.2_Missense_Mutation_p.V1847F|FN1_uc002vez.2_Missense_Mutation_p.V131F|FN1_uc010zjp.1_Missense_Mutation_p.V474F|FN1_uc002vfk.1_RNA|FN1_uc010fva.1_RNA|FN1_uc010fvb.1_RNA|FN1_uc010fvc.1_Missense_Mutation_p.V299F|FN1_uc010fvd.1_Intron	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACGGCATCAACTTGGAAGCCA	0.512													28	39	---	---	---	---	PASS	A	216241299	A	A	216241299	3	1	112	1	0	0	0	0	1	0	0	0	5962	565	20	3	1668	3	FN1	2	216241299	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	378813	216241299	26958074	63	41422										
SPHKAP	80309	broad.mit.edu	37	chr2	228882652	228882652	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcaaggatcggcagggtacgTtgggtgtcatcagaaactca	13	8	4	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:228882652T>A	uc002vpq.2	-	7	2965	c.2918A>T	c.(2917-2919)AAC>ATC	p.N973I	SPHKAP_uc002vpp.2_Missense_Mutation_p.N973I|SPHKAP_uc010zlx.1_Missense_Mutation_p.N973I	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	973						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GCAGGGTACGTTGGGTGTCAT	0.522													48	75	---	---	---	---	PASS	A	228882652	A	A	228882652	3	1	112	1	0	0	0	0	1	0	0	0	15047	1725	60	5	2208	5	SPHKAP	2	228882652	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	12641353	228882652	14316721	64	41423										
DNER	92737	broad.mit.edu	37	chr2	230253096	230253096	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctgtcacattcatttatgtcAatgtcgcactcttcacctag	5	12	5	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:230253096A>C	uc002vpv.2	-	11	1887	c.1740T>G	c.(1738-1740)ATT>ATG	p.I580M		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	580	Extracellular (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		CATTTATGTCAATGTCGCACT	0.502													109	170	---	---	---	---	PASS	C	230253096	C	C	230253096	3	2	112	1	0	0	0	0	1	0	0	0	4667	126	5	5	485	5	DNER	2	230253096	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	1370444	230253096	12946277	65	41424										
USP40	55230	broad.mit.edu	37	chr2	234468512	234468512	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctgctgtggatgcagcttccTggtctaagagcagaagctga	13	9	1	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:234468512T>C	uc010zmu.1	-	4	444	c.326A>G	c.(325-327)CAG>CGG	p.Q109R	USP40_uc010zmr.1_Missense_Mutation_p.Q121R			Q9NVE5	UBP40_HUMAN	SubName: Full=cDNA FLJ56772, highly similar to Ubiquitin carboxyl-terminal hydrolase 40 (EC 3.1.2.15);	109					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)|breast(1)	3		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0539)		Epithelial(121;1.71e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000407)|Lung(119;0.00277)|LUSC - Lung squamous cell carcinoma(224;0.00646)		TGCAGCTTCCTGGTCTAAGAG	0.438													14	18	---	---	---	---	PASS	C	234468512	C	C	234468512	3	2	112	1	0	0	0	0	1	0	0	0	17069	1580	55	5	3497	5	USP40	2	234468512	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	4215416	234468512	8730861	66	41425										
COL6A3	1293	broad.mit.edu	37	chr2	238283145	238283145	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctcagagatgacctgttggaCggtccccagctggcgaaagg	14	11	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:238283145C>T	uc002vwl.2	-	8	3874	c.3589G>A	c.(3589-3591)GTC>ATC	p.V1197I	COL6A3_uc002vwo.2_Missense_Mutation_p.V991I|COL6A3_uc010znj.1_Missense_Mutation_p.V590I|COL6A3_uc002vwq.2_Missense_Mutation_p.V991I|COL6A3_uc002vwr.2_Missense_Mutation_p.V790I	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1197	Nonhelical region.|VWFA 6.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		ACCTGTTGGACGGTCCCCAGC	0.622													49	69	---	---	---	---	PASS	T	238283145	T	T	238283145	3	4	112	1	0	0	0	0	1	0	0	0	3701	536	19	1	6139	1	COL6A3	2	238283145	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	3814633	238283145	4916228	67	41426										
KIF1A	547	broad.mit.edu	37	chr2	241658532	241658532	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgtacatgtaggcataggggCgccgcaccaccacgaagcgc	13	13	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr2:241658532C>G	uc002vzy.2	-	45	4948	c.4802G>C	c.(4801-4803)CGC>CCC	p.R1601P	KIF1A_uc010fzk.2_Missense_Mutation_p.R1702P|KIF1A_uc002vzw.2_Missense_Mutation_p.R262P|KIF1A_uc002vzx.2_Missense_Mutation_p.R328P	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	1601	PH.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		GGCATAGGGGCGCCGCACCAC	0.627													75	95	---	---	---	---	PASS	G	241658532	G	G	241658532	3	3	112	1	0	0	0	0	1	0	0	0	8283	768	27	4	282	4	KIF1A	2	241658532	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	3375387	241658532	1540841	68	41427										
ANKRD28	23243	broad.mit.edu	37	chr3	15762485	15762485	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cacaatgctccatgtgttgaTgcagcagcaaagtgcaaagg	11	9	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr3:15762485T>C	uc003caj.1	-	8	986	c.843A>G	c.(841-843)GCA>GCG	p.A281A	ANKRD28_uc003cai.1_Silent_p.A127A|ANKRD28_uc011avz.1_Silent_p.A127A|ANKRD28_uc003cak.1_RNA|ANKRD28_uc011awa.1_RNA|ANKRD28_uc003cal.1_Silent_p.A311A|ANKRD28_uc003cam.2_Silent_p.A314A	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28	281	ANK 8.					nucleoplasm	protein binding			breast(1)	1						CATGTGTTGATGCAGCAGCAA	0.363													96	14	---	---	---	---	PASS	C	15762485	C	C	15762485	2	2	112	1	0	0	0	0	0	0	0	1	656	1451	51	5		5	ANKRD28	3	15762485	Silent	SNP	T	TCGA-51-4080-01A-01D-1458-08		15762485	182259945	69	41428										
SCAP	22937	broad.mit.edu	37	chr3	47468674	47468674	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggtagtgctggaagaccaggGtgatggtgtaggagaccatc	17	6	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr3:47468674G>A	uc003crh.1	-	6	965	c.710C>T	c.(709-711)ACC>ATC	p.T237I	SCAP_uc011baz.1_Intron|SCAP_uc003crg.2_Intron	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	237	Lumenal (By similarity).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		GAAGACCAGGGTGATGGTGTA	0.527													105	15	---	---	---	---	PASS	A	47468674	A	A	47468674	3	1	112	1	0	0	0	0	1	0	0	0	13877	1261	44	3	3201	3	SCAP	3	47468674	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	31706189	47468674	150553756	70	41429										
RNF123	63891	broad.mit.edu	37	chr3	49742178	49742178	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aggatgaggagccagccccaGctatggcccaggtgccgcag	15	13	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr3:49742178G>T	uc003cxh.2	+	22	2034	c.1948G>T	c.(1948-1950)GCT>TCT	p.A650S	RNF123_uc010hky.1_Missense_Mutation_p.A312S|RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	650						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		GCCAGCCCCAGCTATGGCCCA	0.592													3	0	---	---	---	---	PASS	T	49742178	T	T	49742178	3	4	112	1	0	0	0	0	1	0	0	0	13433	971	34	3	2030	3	RNF123	3	49742178	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	2273504	49742178	148280252	71	41430										
MAGI1	9223	broad.mit.edu	37	chr3	65415803	65415821	+	Splice_Site	DEL	ACAATCACATCCCCTGTAG	-	-													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cacaggtgtcattcacacttAcaatcacatcccctgtagaa							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr3:65415803_65415821delACAATCACATCCCCTGTAG	uc003dmn.2	-	12	2073	c.1547_splice	c.e12-1	p.G516_splice	MAGI1_uc003dmm.2_Splice_Site_p.G516_splice|MAGI1_uc003dmo.2_Splice_Site_p.G516_splice|MAGI1_uc003dmp.2_Splice_Site_p.G516_splice|MAGI1_uc010hny.2_Splice_Site_p.G401_splice	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ						cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		ATTCACACTTACAATCACATCCCCTGTAGAAGGCAAGAG	0.452													17	15	---	---	---	---		-	65415821	-	-	65415803	8	5	112	1	0	1	0	1	0	0	1	0	9190	391	14	0	3111	0	MAGI1	3	65415803	Splice_Site	DEL	ACAATCACATCCCCTGTAG	TCGA-51-4080-01A-01D-1458-08	15673625	65415803	132606627	72	41431										
UBA3	9039	broad.mit.edu	37	chr3	69111294	69111294	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aatacagtgttctggtagccTgggcatagatgcaatggtgc	13	7	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr3:69111294T>A	uc003dno.2	-	10	750	c.730A>T	c.(730-732)AGG>TGG	p.R244W	UBA3_uc003dnq.2_Missense_Mutation_p.R230W|UBA3_uc011bfy.1_Missense_Mutation_p.R67W|UBA3_uc011bfz.1_Missense_Mutation_p.R67W	NM_003968	NP_003959	Q8TBC4	UBA3_HUMAN	ubiquitin-activating enzyme 3 isoform 1	244	Interaction with NAE1.				protein neddylation|proteolysis	nucleus	acid-amino acid ligase activity|ATP binding|protein heterodimerization activity			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.98e-05)|Epithelial(33;0.000363)|LUSC - Lung squamous cell carcinoma(21;0.012)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.206)|Kidney(39;0.241)		TCTGGTAGCCTGGGCATAGAT	0.363													72	24	---	---	---	---	PASS	A	69111294	A	A	69111294	3	1	112	1	0	0	0	0	1	0	0	0	16826	1579	55	5	697	5	UBA3	3	69111294	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	3695491	69111294	128911136	73	41432										
STX19	415117	broad.mit.edu	37	chr3	93734029	93734029	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tagaaacaccccttgttcctCtgtttctgtagttgatacat	6	10	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr3:93734029C>T	uc003drh.1	-	2	342	c.85G>A	c.(85-87)GAG>AAG	p.E29K	ARL13B_uc003drc.2_Intron|ARL13B_uc010hop.2_Intron|ARL13B_uc003drd.2_Intron|ARL13B_uc003dre.2_Intron|ARL13B_uc003drf.2_Intron|ARL13B_uc003drg.2_Intron	NM_001001850	NP_001001850	Q8N4C7	STX19_HUMAN	syntaxin 19	29					intracellular protein transport|vesicle-mediated transport	membrane	SNAP receptor activity				0						CCTTGTTCCTCTGTTTCTGTA	0.393													102	116	---	---	---	---	PASS	T	93734029	T	T	93734029	3	4	112	1	0	0	0	0	1	0	0	0	15341	922	32	2	803	2	STX19	3	93734029	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	24622735	93734029	104288401	74	41433										
ACPL2	92370	broad.mit.edu	37	chr3	141011380	141011380	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtatctggaaaaggagcagcGtcgtcagtacctcctacgtt	11	10	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr3:141011380G>A	uc003etu.2	+	8	1075	c.776G>A	c.(775-777)CGT>CAT	p.R259H	ACPL2_uc003etv.2_Missense_Mutation_p.R259H|ACPL2_uc011bna.1_Missense_Mutation_p.R221H|ACPL2_uc011bnb.1_Missense_Mutation_p.R242H	NM_152282	NP_689495	Q8TE99	ACPL2_HUMAN	acid phosphatase-like 2 precursor	259						extracellular region	acid phosphatase activity			skin(1)	1						AAGGAGCAGCGTCGTCAGTAC	0.527													7	218	---	---	---	---	PASS	A	141011380	A	A	141011380	3	1	112	1	0	0	0	0	1	0	0	0	166	1145	40	1	794	1	ACPL2	3	141011380	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	47277351	141011380	57011050	75	41434										
TM4SF4	7104	broad.mit.edu	37	chr3	149216547	149216547	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggccttatggaacaagtgccGagagcctctcaatgtggttc	12	10	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr3:149216547G>A	uc003exd.1	+	4	671	c.440G>A	c.(439-441)CGA>CAA	p.R147Q		NM_004617	NP_004608	P48230	T4S4_HUMAN	transmembrane 4 superfamily member 4	147	Extracellular (Potential).					integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			AACAAGTGCCGAGAGCCTCTC	0.483													14	229	---	---	---	---	PASS	A	149216547	A	A	149216547	3	1	112	1	0	0	0	0	1	0	0	0	15967	1058	37	2	454	2	TM4SF4	3	149216547	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	8205167	149216547	48805883	76	41435										
SELT	51714	broad.mit.edu	37	chr3	150321258	150321258	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gattaaagatgcagtacgccAcggggccgctgctcaagttc	12	11	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr3:150321258A>T	uc011bnx.1	+	1	193	c.109A>T	c.(109-111)ACG>TCG	p.T37S	SERP1_uc003exz.2_5'Flank|uc003eye.1_5'Flank	NM_016275	NP_057359	P62341	SELT_HUMAN	selenoprotein T precursor	37					cell redox homeostasis|selenocysteine incorporation		selenium binding				0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GCAGTACGCCACGGGGCCGCT	0.667													27	33	---	---	---	---	PASS	T	150321258	T	T	150321258	3	4	112	1	0	0	0	0	1	0	0	0	14022	159	6	5	111	5	SELT	3	150321258	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	1104711	150321258	47701172	77	41436										
PLCH1	23007	broad.mit.edu	37	chr3	155282833	155282833	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtagttgcagaggggctgatCcatgtcttggtacacttcat	12	8	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr3:155282833C>T	uc011bok.1	-	7	1181	c.904G>A	c.(904-906)GAT>AAT	p.D302N	PLCH1_uc011boj.1_Missense_Mutation_p.D302N|PLCH1_uc011bol.1_Missense_Mutation_p.D284N	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	302	PI-PLC X-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			AGGGGCTGATCCATGTCTTGG	0.463													35	214	---	---	---	---	PASS	T	155282833	T	T	155282833	3	4	112	1	0	0	0	0	1	0	0	0	12037	855	30	2	4260	2	PLCH1	3	155282833	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	4961575	155282833	42739597	78	41437										
ARPM1	84517	broad.mit.edu	37	chr3	169485535	169485535	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	catatcttatcaatgccaggGgcctcaaggttcatatgaca	8	10	4	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr3:169485535G>T	uc003ffs.1	-	2	1179	c.804C>A	c.(802-804)GCC>GCA	p.A268A	TERC_uc003ffr.1_5'Flank	NM_032487	NP_115876	Q9BYD9	ARPM1_HUMAN	actin related protein M1	268						cytoplasm|cytoskeleton					0	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;5.01e-59)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			CAATGCCAGGGGCCTCAAGGT	0.468													195	251	---	---	---	---	PASS	T	169485535	T	T	169485535	2	4	112	1	0	0	0	0	0	0	0	1	976	1219	43	3		3	ARPM1	3	169485535	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	14202702	169485535	28536895	79	41438										
CCDC39	339829	broad.mit.edu	37	chr3	180366077	180366077	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aaacagctttttctttcattGtctcagtctgtaactcctga	5	10	4	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr3:180366077G>T	uc010hxe.2	-	10	1353	c.1238C>A	c.(1237-1239)ACA>AAA	p.T413K	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	413	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TTCTTTCATTGTCTCAGTCTG	0.353													196	207	---	---	---	---	PASS	T	180366077	T	T	180366077	3	4	112	1	0	0	0	0	1	0	0	0	2811	1377	48	3	1631	3	CCDC39	3	180366077	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	10880542	180366077	17656353	80	41439										
ZNF518B	85460	broad.mit.edu	37	chr4	10446229	10446229	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ccttgtgttcctctgtctggTtatcttcctgcttcctatta	6	12	3	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:10446229T>C	uc003gmn.2	-	3	2211	c.1724A>G	c.(1723-1725)AAC>AGC	p.N575S		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	575					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						CTCTGTCTGGTTATCTTCCTG	0.373													101	142	---	---	---	---	PASS	C	10446229	C	C	10446229	3	2	112	1	0	0	0	0	1	0	0	0	17960	1725	60	5	1504	5	ZNF518B	4	10446229	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08		10446229	180708047	81	41440										
GBA3	57733	broad.mit.edu	37	chr4	22749453	22749453	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgtcaagtctcagattgcctCcatgagtcaaaagcaaggct	9	10	3	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:22749453C>A	uc003gqp.3	+	3	912	c.821C>A	c.(820-822)TCC>TAC	p.S274Y	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Missense_Mutation_p.S275Y	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	274					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						CAGATTGCCTCCATGAGTCAA	0.408													18	31	---	---	---	---	PASS	A	22749453	A	A	22749453	3	1	112	1	0	0	0	0	1	0	0	0	6268	855	30	2	831	2	GBA3	4	22749453	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	12303224	22749453	168404823	82	41441										
BEND4	389206	broad.mit.edu	37	chr4	42145884	42145884	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgtctttcgttgtaacttgaGccttcctgctttacgcaaga	8	10	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:42145884G>A	uc003gwn.2	-	3	1195	c.615C>T	c.(613-615)GGC>GGT	p.G205G	BEND4_uc003gwm.2_Silent_p.G205G|BEND4_uc011byy.1_Silent_p.G205G	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	205											0						TGTAACTTGAGCCTTCCTGCT	0.468													16	32	---	---	---	---	PASS	A	42145884	A	A	42145884	2	1	112	1	0	0	0	0	0	0	0	1	1400	958	34	3		3	BEND4	4	42145884	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	19396431	42145884	149008392	83	41442										
ATP8A1	10396	broad.mit.edu	37	chr4	42576678	42576678	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgcacttcttaaactgcattAcattgcatgtcagagtacca	6	10	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:42576678A>T	uc003gwr.2	-	14	1485	c.1253T>A	c.(1252-1254)GTA>GAA	p.V418E	ATP8A1_uc003gws.2_Missense_Mutation_p.V418E|ATP8A1_uc011byz.1_Missense_Mutation_p.V418E	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	418	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	AAACTGCATTACATTGCATGT	0.308													44	46	---	---	---	---	PASS	T	42576678	T	T	42576678	3	4	112	1	0	0	0	0	1	0	0	0	1192	391	14	5	2337	5	ATP8A1	4	42576678	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	430794	42576678	148577598	84	41443										
KCTD8	386617	broad.mit.edu	37	chr4	44177251	44177251	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgttcttgtttaggtgatacTattttctgaggtggtcctaa	10	5	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:44177251T>A	uc003gwu.2	-	2	1262	c.978A>T	c.(976-978)ATA>ATT	p.I326I		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	326						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						TAGGTGATACTATTTTCTGAG	0.348										HNSCC(17;0.042)			35	53	---	---	---	---	PASS	A	44177251	A	A	44177251	2	1	112	1	0	0	0	0	0	0	0	1	8115	1512	53	5		5	KCTD8	4	44177251	Silent	SNP	T	TCGA-51-4080-01A-01D-1458-08	1600573	44177251	146977025	85	41444										
EPHA5	2044	broad.mit.edu	37	chr4	66230755	66230755	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttttggtcaccacaccttctAaatggatgatgttaggatga	9	7	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:66230755A>G	uc003hcy.2	-	12	2409	c.2216T>C	c.(2215-2217)TTA>TCA	p.L739S	EPHA5_uc003hcx.2_Missense_Mutation_p.L671S|EPHA5_uc003hcz.2_Missense_Mutation_p.L717S|EPHA5_uc011cah.1_Missense_Mutation_p.L740S|EPHA5_uc011cai.1_Missense_Mutation_p.L718S|EPHA5_uc003hda.2_Missense_Mutation_p.L740S	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	739	Cytoplasmic (Potential).|Protein kinase.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CACACCTTCTAAATGGATGAT	0.358										TSP Lung(17;0.13)			100	131	---	---	---	---	PASS	G	66230755	G	G	66230755	3	3	112	1	0	0	0	0	1	0	0	0	5170	372	13	5	925	5	EPHA5	4	66230755	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	22053504	66230755	124923521	86	41445										
CSN3	1448	broad.mit.edu	37	chr4	71115032	71115032	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ataatcatccctaccatcaaTaccattgctactgttgaacc	3	13	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:71115032T>C	uc003hfe.3	+	4	463	c.405T>C	c.(403-405)AAT>AAC	p.N135N		NM_005212	NP_005203	P07498	CASK_HUMAN	casein kappa precursor	135						extracellular region	protein binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						CTACCATCAATACCATTGCTA	0.483													33	49	---	---	---	---	PASS	C	71115032	C	C	71115032	2	2	112	1	0	0	0	0	0	0	0	1	3949	1403	49	5		5	CSN3	4	71115032	Silent	SNP	T	TCGA-51-4080-01A-01D-1458-08	4884277	71115032	120039244	87	41446										
AMTN	401138	broad.mit.edu	37	chr4	71396799	71396799	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	catccattccttgttcccggGaggcatcctgcccaccagtc	8	17	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:71396799G>T	uc003hfk.1	+	8	490	c.401G>T	c.(400-402)GGA>GTA	p.G134V	AMTN_uc010ihy.1_Missense_Mutation_p.G133V	NM_212557	NP_997722	Q6UX39	AMTN_HUMAN	amelotin precursor	134					biomineral tissue development|cell adhesion|odontogenesis of dentine-containing tooth	basal lamina|cell-cell junction				large_intestine(1)|central_nervous_system(1)	2			Lung(101;0.235)			TTGTTCCCGGGAGGCATCCTG	0.512													25	31	---	---	---	---	PASS	T	71396799	T	T	71396799	3	4	112	1	0	0	0	0	1	0	0	0	590	1174	41	2	427	2	AMTN	4	71396799	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	281767	71396799	119757477	88	41447										
GC	2638	broad.mit.edu	37	chr4	72622592	72622592	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttcaaacttagaattctttgTggataaattgtcacagagtt	7	5	3	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:72622592T>C	uc003hge.2	-	8	1024	c.871A>G	c.(871-873)ACA>GCA	p.T291A	GC_uc003hgd.2_Missense_Mutation_p.T169A|GC_uc010iie.2_Missense_Mutation_p.T291A|GC_uc010iif.2_Missense_Mutation_p.T310A	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	291	Albumin 2.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	GAATTCTTTGTGGATAAATTG	0.393													46	61	---	---	---	---	PASS	C	72622592	C	C	72622592	3	2	112	1	0	0	0	0	1	0	0	0	6282	1696	59	5	573	5	GC	4	72622592	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	1225793	72622592	118531684	89	41448										
FRAS1	80144	broad.mit.edu	37	chr4	79394605	79394605	+	Missense_Mutation	SNP	G	C	C													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctcacagaggatgtgaacttGgggttgattcgttatgtgtt							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:79394605G>C	uc003hlb.2	+	53	7976	c.7536G>C	c.(7534-7536)TTG>TTC	p.L2512F		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2511	CSPG 12.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						ATGTGAACTTGGGGTTGATTC	0.418													123	236	---	---	---	---	PASS	C	79394605	C	C	79394605	3	2	112	1	0	0	0	0	1	0	0	0	6042	1339	47	4	7821	4	FRAS1	4	79394605	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	6772013	79394605	111759671	90	41449	773	2								
FRAS1	80144	broad.mit.edu	37	chr4	79394606	79394606	+	Missense_Mutation	SNP	G	T	T													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcacagaggatgtgaacttgGggttgattcgttatgtgttg							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:79394606G>T	uc003hlb.2	+	53	7977	c.7537G>T	c.(7537-7539)GGG>TGG	p.G2513W		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2512	CSPG 12.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TGTGAACTTGGGGTTGATTCG	0.418													126	234	---	---	---	---	PASS	T	79394606	T	T	79394606	3	4	112	1	0	0	0	0	1	0	0	0	6042	1232	43	3	7822	3	FRAS1	4	79394606	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1	79394606	111759670	91	41450	773	2								
GPRIN3	285513	broad.mit.edu	37	chr4	90170412	90170412	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	acgctgtgctggcagcggcaCcttctctggacctgggggac	15	13	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:90170412C>T	uc003hsm.1	-	2	1369	c.850G>A	c.(850-852)GTG>ATG	p.V284M		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	284										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		GGCAGCGGCACCTTCTCTGGA	0.567													108	152	---	---	---	---	PASS	T	90170412	T	T	90170412	3	4	112	1	0	0	0	0	1	0	0	0	6731	507	18	3	1484	3	GPRIN3	4	90170412	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	10775806	90170412	100983864	92	41451										
PDLIM5	10611	broad.mit.edu	37	chr4	95497089	95497089	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aactgcagttaatgtcccacGgcagcccacagtcaccagcg	9	15	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:95497089G>A	uc003hti.2	+	5	765	c.614G>A	c.(613-615)CGG>CAG	p.R205Q	PDLIM5_uc003htf.2_Intron|PDLIM5_uc003htg.2_Intron|PDLIM5_uc011cdx.1_Intron|PDLIM5_uc003hth.2_Intron|PDLIM5_uc003htj.2_Intron|PDLIM5_uc003htk.2_Intron|PDLIM5_uc011cdy.1_Missense_Mutation_p.R83Q	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	205					regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		AATGTCCCACGGCAGCCCACA	0.537													41	67	---	---	---	---	PASS	A	95497089	A	A	95497089	3	1	112	1	0	0	0	0	1	0	0	0	11683	1116	39	1	628	1	PDLIM5	4	95497089	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	5326677	95497089	95657187	93	41452										
PDHA2	5161	broad.mit.edu	37	chr4	96762238	96762238	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aggaagtaagaagtaagaggGatcctataataattctccaa	9	5	1	2	rs28935187		TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:96762238G>T	uc003htr.3	+	1	1000	c.937G>T	c.(937-939)GAT>TAT	p.D313Y		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	313					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	AAGTAAGAGGGATCCTATAAT	0.418													46	65	---	---	---	---	PASS	T	96762238	T	T	96762238	3	4	112	1	0	0	0	0	1	0	0	0	11665	1174	41	2	939	2	PDHA2	4	96762238	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1265149	96762238	94392038	94	41453										
NDST4	64579	broad.mit.edu	37	chr4	115997243	115997243	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctttgacattcatccttgttCcctctttcccaacaaatata	2	13	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:115997243C>A	uc003ibu.2	-	2	1629	c.950G>T	c.(949-951)GGA>GTA	p.G317V	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	317	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity	p.G317R(1)		skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		CATCCTTGTTCCCTCTTTCCC	0.363													85	89	---	---	---	---	PASS	A	115997243	A	A	115997243	3	1	112	1	0	0	0	0	1	0	0	0	10258	855	30	2	1720	2	NDST4	4	115997243	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	19235005	115997243	75157033	95	41454										
SPCS3	60559	broad.mit.edu	37	chr4	177248312	177248312	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttaattttcattttaatataGgctctgaaccaagttgtcct	5	7	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr4:177248312G>T	uc003iur.3	+	4	433	c.295_splice	c.e4-1	p.A99_splice		NM_021928	NP_068747	P61009	SPCS3_HUMAN	signal peptidase complex subunit 3						energy reserve metabolic process|regulation of insulin secretion|signal peptide processing	integral to membrane|microsome|signal peptidase complex	peptidase activity			ovary(1)	1		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.43e-19)|Epithelial(43;1.84e-16)|OV - Ovarian serous cystadenocarcinoma(60;4.51e-09)|GBM - Glioblastoma multiforme(59;0.000142)|STAD - Stomach adenocarcinoma(60;0.00279)|LUSC - Lung squamous cell carcinoma(193;0.0319)		TTTTAATATAGGCTCTGAACC	0.299													11	11	---	---	---	---	PASS	T	177248312	T	T	177248312	5	4	112	1	0	0	0	0	0	0	1	0	15024	1014	35	3	308	3	SPCS3	4	177248312	Splice_Site	SNP	G	TCGA-51-4080-01A-01D-1458-08	61251069	177248312	13905964	96	41455										
CDH18	1016	broad.mit.edu	37	chr5	19612679	19612679	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	taatgttctctggcttctctGtccatgttatgtaaggccgt	9	9	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:19612679G>C	uc003jgc.2	-	5	1052	c.675C>G	c.(673-675)GAC>GAG	p.D225E	CDH18_uc003jgd.2_Missense_Mutation_p.D225E|CDH18_uc011cnm.1_Missense_Mutation_p.D225E	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	225	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TGGCTTCTCTGTCCATGTTAT	0.373													43	55	---	---	---	---	PASS	C	19612679	C	C	19612679	3	2	112	1	0	0	0	0	1	0	0	0	3103	1368	48	4	1729	4	CDH18	5	19612679	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08		19612679	161302581	97	41456										
CDH9	1007	broad.mit.edu	37	chr5	26890021	26890021	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gagcatggtcatttatatctAgaattctgatgaagacaggg	11	5	3	4			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:26890021A>T	uc003jgs.1	-	9	1605	c.1436T>A	c.(1435-1437)CTA>CAA	p.L479Q	CDH9_uc011cnv.1_Missense_Mutation_p.L72Q	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	479	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						ATTTATATCTAGAATTCTGAT	0.358													64	112	---	---	---	---	PASS	T	26890021	T	T	26890021	3	4	112	1	0	0	0	0	1	0	0	0	3117	420	15	5	949	5	CDH9	5	26890021	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	7277342	26890021	154025239	98	41457										
CDH9	1007	broad.mit.edu	37	chr5	26916006	26916006	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agtatgtattttaaatttccAtctcctttatcttggtcagt	5	7	3	0	rs149377000		TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:26916006A>G	uc003jgs.1	-	3	424	c.255T>C	c.(253-255)GAT>GAC	p.D85D	CDH9_uc010iug.2_Silent_p.D85D	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	85	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TTAAATTTCCATCTCCTTTAT	0.338													81	103	---	---	---	---	PASS	G	26916006	G	G	26916006	2	3	112	1	0	0	0	0	0	0	0	1	3117	214	8	5		5	CDH9	5	26916006	Silent	SNP	A	TCGA-51-4080-01A-01D-1458-08	25985	26916006	153999254	99	41458										
CDH6	1004	broad.mit.edu	37	chr5	31294255	31294255	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	acagaaggacagggagacccGtggagcccgagtctgaattc	14	10	1	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:31294255G>C	uc003jhe.1	+	3	741	c.415G>C	c.(415-417)GTG>CTG	p.V139L	CDH6_uc003jhd.1_Missense_Mutation_p.V139L	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	139	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						AGGGAGACCCGTGGAGCCCGA	0.478													122	141	---	---	---	---	PASS	C	31294255	C	C	31294255	3	2	112	1	0	0	0	0	1	0	0	0	3114	1145	40	4	421	4	CDH6	5	31294255	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	4378249	31294255	149621005	100	41459										
RXFP3	51289	broad.mit.edu	37	chr5	33937805	33937805	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	accggagccagcgcccggagActgtcgaaggtcaccaaatc	12	14	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:33937805A>T	uc003jic.1	+	1	1317	c.960A>T	c.(958-960)AGA>AGT	p.R320S		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	320	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						GCGCCCGGAGACTGTCGAAGG	0.657													13	19	---	---	---	---	PASS	T	33937805	T	T	33937805	3	4	112	1	0	0	0	0	1	0	0	0	13761	272	10	5	962	5	RXFP3	5	33937805	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	2643550	33937805	146977455	101	41460										
SLC45A2	51151	broad.mit.edu	37	chr5	33984499	33984499	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtacaggctgctgggcagacCtacgctgagcaggactgggg	17	10	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:33984499C>A	uc003jid.2	-	1	282	c.190G>T	c.(190-192)GGT>TGT	p.G64C	SLC45A2_uc003jie.2_Missense_Mutation_p.G64C|SLC45A2_uc003jif.3_Missense_Mutation_p.G64C|SLC45A2_uc011coe.1_Missense_Mutation_p.G64C	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	64	Helical; Name=1; (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						CTGGGCAGACCTACGCTGAGC	0.617													23	22	---	---	---	---	PASS	A	33984499	A	A	33984499	3	1	112	1	0	0	0	0	1	0	0	0	14641	681	24	3	1445	3	SLC45A2	5	33984499	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	46694	33984499	146930761	102	41461										
SPEF2	79925	broad.mit.edu	37	chr5	35740020	35740020	+	Splice_Site	DEL	G	-	-													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctacactttaccatttaacaGgaaatgcctttgtttttagt							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:35740020delG	uc003jjo.2	+	22	3175	c.3064_splice	c.e22-1	p.E1022_splice	SPEF2_uc003jjp.1_Splice_Site_p.E508_splice	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CCATTTAACAGGAAATGCCTT	0.353													90	58	---	---	---	---		-	35740020	-	-	35740020	8	5	112	1	0	1	0	1	0	0	1	0	15034	1014	35	0	3170	0	SPEF2	5	35740020	Splice_Site	DEL	G	TCGA-51-4080-01A-01D-1458-08	1755521	35740020	145175240	103	41462										
UGT3A1	133688	broad.mit.edu	37	chr5	35954499	35954499	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ccagtctggaggatgtggtcGatccagcccaccagccgctg	13	14	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:35954499G>A	uc003jjv.1	-	7	1534	c.1377C>T	c.(1375-1377)ATC>ATT	p.I459I	UGT3A1_uc003jjw.1_RNA	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	459	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGATGTGGTCGATCCAGCCCA	0.602													21	31	---	---	---	---	PASS	A	35954499	A	A	35954499	2	1	112	1	0	0	0	0	0	0	0	1	16960	1048	37	2		2	UGT3A1	5	35954499	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	214479	35954499	144960761	104	41463										
LMBRD2	92255	broad.mit.edu	37	chr5	36136480	36136480	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agtttggctgccttaaaataCgttttcataagtagataacc	7	7	1	1	rs144023598	byFrequency	TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:36136480C>G	uc003jkb.1	-	6	1093	c.678G>C	c.(676-678)ACG>ACC	p.T226T		NM_001007527	NP_001007528	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	226	Cytoplasmic (Potential).					integral to membrane					0	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CCTTAAAATACGTTTTCATAA	0.413													177	254	---	---	---	---	PASS	G	36136480	G	G	36136480	2	3	112	1	0	0	0	0	0	0	0	1	8843	523	19	4		4	LMBRD2	5	36136480	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	181981	36136480	144778780	105	41464										
NUP155	9631	broad.mit.edu	37	chr5	37350275	37350275	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tacttaccatcttctgagaaCgtgaattgtagcaaggaagg	10	7	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:37350275C>A	uc003jku.1	-	7	934	c.816G>T	c.(814-816)ACG>ACT	p.T272T	NUP155_uc003jkt.1_Silent_p.T213T|NUP155_uc010iuz.1_Silent_p.T272T	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	272					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTTCTGAGAACGTGAATTGTA	0.358													75	92	---	---	---	---	PASS	A	37350275	A	A	37350275	2	1	112	1	0	0	0	0	0	0	0	1	10756	523	19	1		1	NUP155	5	37350275	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	1213795	37350275	143564985	106	41465										
RICTOR	253260	broad.mit.edu	37	chr5	38962427	38962427	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcttacatacctgtgtaactGttcatctttatagtttctta	4	8	4	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:38962427G>A	uc003jlp.2	-	19	1729	c.1705C>T	c.(1705-1707)CAG>TAG	p.Q569*	RICTOR_uc003jlo.2_Nonsense_Mutation_p.Q569*|RICTOR_uc010ivf.2_Nonsense_Mutation_p.Q284*	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	569					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					CTGTGTAACTGTTCATCTTTA	0.239													25	39	---	---	---	---	PASS	A	38962427	A	A	38962427	4	1	112	1	0	0	0	0	0	1	0	0	13358	1386	48	3	3501	3	RICTOR	5	38962427	Nonsense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1612152	38962427	141952833	107	41466										
CARD6	84674	broad.mit.edu	37	chr5	40854526	40854526	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	acaccactcaaaagcagggcAgaagaggggagggaagcatt	14	8	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:40854526A>T	uc003jmg.2	+	3	3167	c.3092A>T	c.(3091-3093)CAG>CTG	p.Q1031L		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	1031					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						AAAGCAGGGCAGAAGAGGGGA	0.488													136	193	---	---	---	---	PASS	T	40854526	T	T	40854526	3	4	112	1	0	0	0	0	1	0	0	0	2650	188	7	5	3102	5	CARD6	5	40854526	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	1892099	40854526	140060734	108	41467										
OXCT1	5019	broad.mit.edu	37	chr5	41853522	41853522	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gaaaagcaaattttctcaccTgtggtgtcagctccacttct	7	11	3	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:41853522T>A	uc003jmn.2	-	4	744	c.413A>T	c.(412-414)CAG>CTG	p.Q138L		NM_000436	NP_000427	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1 precursor	138					cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)	TTTTCTCACCTGTGGTGTCAG	0.363													59	71	---	---	---	---	PASS	A	41853522	A	A	41853522	3	1	112	1	0	0	0	0	1	0	0	0	11329	1594	55	5	1205	5	OXCT1	5	41853522	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	998996	41853522	139061738	109	41468										
HCN1	348980	broad.mit.edu	37	chr5	45303823	45303823	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cttctcgtatgatataatctCcaggttgaaacacctcaaat	5	10	3	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:45303823C>A	uc003jok.2	-	6	1521	c.1496G>T	c.(1495-1497)GGA>GTA	p.G499V		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	499	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GATATAATCTCCAGGTTGAAA	0.408													91	128	---	---	---	---	PASS	A	45303823	A	A	45303823	3	1	112	1	0	0	0	0	1	0	0	0	6996	855	30	2	1188	2	HCN1	5	45303823	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	3450301	45303823	135611437	110	41469										
CETN3	1070	broad.mit.edu	37	chr5	89703555	89703555	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	attgcttcatctttgtctgtAtcaaatagttcaaaagcatc	5	8	5	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:89703555A>G	uc003kjo.2	-	2	239	c.114T>C	c.(112-114)GAT>GAC	p.D38D		NM_004365	NP_004356	O15182	CETN3_HUMAN	centrin 3	38	1 (Potential).|EF-hand 1.				cell division|centrosome cycle|mitosis	centriole	calcium ion binding				0		all_cancers(142;7.93e-09)|all_epithelial(76;2.13e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;1.42e-32)|Epithelial(54;1.45e-26)|all cancers(79;2.87e-23)		CTTTGTCTGTATCAAATAGTT	0.294													45	10	---	---	---	---	PASS	G	89703555	G	G	89703555	2	3	112	1	0	0	0	0	0	0	0	1	3276	446	16	5		5	CETN3	5	89703555	Silent	SNP	A	TCGA-51-4080-01A-01D-1458-08	44399732	89703555	91211705	111	41470										
C5orf20	140947	broad.mit.edu	37	chr5	134782580	134782580	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	accccagctggcaaggttttGttcctccctggagggtagag	13	11	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:134782580G>C	uc003lav.2	-	1	459	c.219C>G	c.(217-219)AAC>AAG	p.N73K		NM_130848	NP_570900	Q8TF63	DCNP1_HUMAN	dendritic cell nuclear protein 1	73						nucleus					0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GCAAGGTTTTGTTCCTCCCTG	0.602													27	35	---	---	---	---	PASS	C	134782580	C	C	134782580	3	2	112	1	0	0	0	0	1	0	0	0	2284	1368	48	4	519	4	C5orf20	5	134782580	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	45079025	134782580	46132680	112	41471										
WDR55	54853	broad.mit.edu	37	chr5	140048089	140048089	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtgtttccaaggctcatgggTaaggagagcagccaattctg	13	8	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:140048089T>C	uc003lgr.3	+	3	494	c.380_splice	c.e3+2	p.G127_splice	WDR55_uc011czl.1_5'Flank	NM_017706	NP_060176	Q9H6Y2	WDR55_HUMAN	WD repeat domain 55						rRNA processing	cytoplasm|nucleolus				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCTCATGGGTAAGGAGAGCA	0.512													86	93	---	---	---	---	PASS	C	140048089	C	C	140048089	5	2	112	1	0	0	0	0	0	0	1	0	17304	1652	57	5	392	5	WDR55	5	140048089	Splice_Site	SNP	T	TCGA-51-4080-01A-01D-1458-08	5265509	140048089	40867171	113	41472										
PCDH12	51294	broad.mit.edu	37	chr5	141334818	141334818	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gcctgtggcaggctggggctCgggaaggttcaggttctccc	17	11	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:141334818C>T	uc003llx.2	-	1	3810	c.2599G>A	c.(2599-2601)GAG>AAG	p.E867K		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	867	Cytoplasmic (Potential).				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCTGGGGCTCGGGAAGGTTC	0.652													41	44	---	---	---	---	PASS	T	141334818	T	T	141334818	3	4	112	1	0	0	0	0	1	0	0	0	11510	893	31	2	971	2	PCDH12	5	141334818	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1286729	141334818	39580442	114	41473										
ANXA6	309	broad.mit.edu	37	chr5	150502573	150502573	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gattgtgtcttcgtcagtccCtgagtcaccaaagccacatg	9	12	3	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:150502573C>T	uc003ltl.1	-	16	1291	c.1139_splice	c.e16-1	p.G380_splice	ANXA6_uc011dcp.1_Splice_Site_p.G348_splice|ANXA6_uc003ltm.1_Splice_Site_p.G380_splice|ANXA6_uc003ltn.1_Splice_Site_p.G173_splice|ANXA6_uc003lto.1_Intron	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1							melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCGTCAGTCCCTGAGTCACCA	0.567													82	85	---	---	---	---	PASS	T	150502573	T	T	150502573	5	4	112	1	0	0	0	0	0	0	1	0	722	695	24	3	927	3	ANXA6	5	150502573	Splice_Site	SNP	C	TCGA-51-4080-01A-01D-1458-08	9167755	150502573	30412687	115	41474										
HAVCR2	84868	broad.mit.edu	37	chr5	156535959	156535959	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtaagtagtagcagcagcagCagcaggacacagtcaaaggg	14	8	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:156535959C>A	uc003lwk.1	-	1	180	c.36G>T	c.(34-36)CTG>CTT	p.L12L	HAVCR2_uc003lwl.2_Silent_p.L12L	NM_032782	NP_116171	Q8TDQ0	HAVR2_HUMAN	T cell immunoglobulin mucin 3 precursor	12						integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GCAGCAGCAGCAGCAGGACAC	0.313													32	33	---	---	---	---	PASS	A	156535959	A	A	156535959	2	1	112	1	0	0	0	0	0	0	0	1	6974	697	25	3		3	HAVCR2	5	156535959	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	6033386	156535959	24379301	116	41475										
HK3	3101	broad.mit.edu	37	chr5	176310852	176310852	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cgtgtcattgacaatggcaaCcacattcagctccactgcct	7	14	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr5:176310852C>T	uc003mfa.2	-	15	2064	c.1972G>A	c.(1972-1974)GTT>ATT	p.V658I	HK3_uc003mez.2_Missense_Mutation_p.V214I	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	658	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACAATGGCAACCACATTCAGC	0.587													63	119	---	---	---	---	PASS	T	176310852	T	T	176310852	3	4	112	1	0	0	0	0	1	0	0	0	7192	507	18	3	819	3	HK3	5	176310852	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	19774893	176310852	4604408	117	41476										
TMEM170B	100113407	broad.mit.edu	37	chr6	11565950	11565950	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cttctcttctctgtttgtccAtggtgctgcaggagtgttga	11	9	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:11565950A>G	uc010jpa.2	+	2	149	c.149A>G	c.(148-150)CAT>CGT	p.H50R		NM_001100829	NP_001094299	Q5T4T1	T170B_HUMAN	transmembrane protein 170B	50	Helical; (Potential).					integral to membrane					0						CTGTTTGTCCATGGTGCTGCA	0.443													204	281	---	---	---	---	PASS	G	11565950	G	G	11565950	3	3	112	1	0	0	0	0	1	0	0	0	16084	217	8	5	155	5	TMEM170B	6	11565950	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08		11565950	159549117	118	41477										
JARID2	3720	broad.mit.edu	37	chr6	15511634	15511634	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gctggaaagcaacgtcatggTgcgtccactcagccaccgcc	11	15	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:15511634T>A	uc003nbj.2	+	13	3196	c.2952_splice	c.e13+2	p.M984_splice	JARID2_uc011div.1_Splice_Site_p.M812_splice	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein						central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				AACGTCATGGTGCGTCCACTC	0.567													29	33	---	---	---	---	PASS	A	15511634	A	A	15511634	5	1	112	1	0	0	0	0	0	0	1	0	7945	1710	59	5	3004	5	JARID2	6	15511634	Splice_Site	SNP	T	TCGA-51-4080-01A-01D-1458-08	3945684	15511634	155603433	119	41478										
SLC17A3	10786	broad.mit.edu	37	chr6	25850844	25850844	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gaagaggctgcttagaagacCcgacctgaaaacaaatttac	9	9	0	4			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:25850844C>A	uc003nfi.3	-	7	712	c.602G>T	c.(601-603)GGG>GTG	p.G201V	SLC17A3_uc003nfk.3_Missense_Mutation_p.G279V|SLC17A3_uc011djz.1_3'UTR|SLC17A3_uc011dka.1_Missense_Mutation_p.G201V	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	201					glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						CTTAGAAGACCCGACCTGAAA	0.423													35	54	---	---	---	---	PASS	A	25850844	A	A	25850844	3	1	112	1	0	0	0	0	1	0	0	0	14418	623	22	3	680	3	SLC17A3	6	25850844	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	10339210	25850844	145264223	120	41479										
BTN2A2	10385	broad.mit.edu	37	chr6	26391044	26391044	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cttgcaggatggagaagaacAttcttacatgctggtgagtg	13	6	1	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:26391044A>T	uc003nhq.2	+	7	1052	c.966A>T	c.(964-966)ACA>ACT	p.T322T	BTN2A2_uc011dkf.1_3'UTR|BTN2A2_uc011dkg.1_Silent_p.T228T|BTN2A2_uc003nhr.2_Silent_p.T206T|BTN2A2_uc011dkh.1_Silent_p.T112T|BTN2A2_uc003nhs.2_Silent_p.T322T|BTN2A2_uc003nht.2_Silent_p.T322T|BTN2A2_uc011dki.1_Silent_p.T71T	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	322	B30.2/SPRY.|Cytoplasmic (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						GGAGAAGAACATTCTTACATG	0.493													120	207	---	---	---	---	PASS	T	26391044	T	T	26391044	2	4	112	1	0	0	0	0	0	0	0	1	1561	204	8	5		5	BTN2A2	6	26391044	Silent	SNP	A	TCGA-51-4080-01A-01D-1458-08	540200	26391044	144724023	121	41480										
SCAND3	114821	broad.mit.edu	37	chr6	28540574	28540574	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	atcttgaattcaatgaattaGattttatataattcacaatt	3	4	3	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:28540574G>C	uc003nlo.2	-	4	3710	c.3092C>G	c.(3091-3093)TCT>TGT	p.S1031C		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	1031					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						caatgaattagattttatata	0													39	37	---	---	---	---	PASS	C	28540574	C	C	28540574	3	2	112	1	0	0	0	0	1	0	0	0	13876	942	33	2	889	2	SCAND3	6	28540574	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	2149530	28540574	142574493	122	41481										
TRIM10	10107	broad.mit.edu	37	chr6	30122115	30122115	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtgtgtctcccccctgtgatGccagtgtgggccagaacaca	12	13	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:30122115G>A	uc003npo.3	-	7	1153	c.1077C>T	c.(1075-1077)GGC>GGT	p.G359G	TRIM10_uc003npn.2_Silent_p.G359G	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	359	B30.2/SPRY.					cytoplasm	zinc ion binding				0						CCCCTGTGATGCCAGTGTGGG	0.627													30	47	---	---	---	---	PASS	A	30122115	A	A	30122115	2	1	112	1	0	0	0	0	0	0	0	1	16483	1306	46	3		3	TRIM10	6	30122115	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	1581541	30122115	140992952	123	41482										
BAI3	577	broad.mit.edu	37	chr6	69666042	69666042	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctccgaatgcagagggccatGggcagaaagcagagagtgct	15	9	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:69666042G>A	uc003pev.3	+	7	1770	c.1322G>A	c.(1321-1323)TGG>TAG	p.W441*	BAI3_uc010kak.2_Nonsense_Mutation_p.W441*	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	441	TSP type-1 3.|Extracellular (Potential).				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)				AGAGGGCCATGGGCAGAAAGC	0.532													32	44	---	---	---	---	PASS	A	69666042	A	A	69666042	4	1	112	1	0	0	0	0	0	1	0	0	1300	1357	47	3	1340	3	BAI3	6	69666042	Nonsense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	39543927	69666042	101449025	124	41483										
RIMS1	22999	broad.mit.edu	37	chr6	72892798	72892798	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aggagggcgtgtcgacgcccGagtacaccagctgcgaggac	16	12	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:72892798G>T	uc003pga.2	+	6	1701	c.1624G>T	c.(1624-1626)GAG>TAG	p.E542*	RIMS1_uc011dyb.1_Nonsense_Mutation_p.E168*|RIMS1_uc003pgc.2_Nonsense_Mutation_p.E168*|RIMS1_uc003pgb.3_Nonsense_Mutation_p.E168*	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	542					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)				GTCGACGCCCGAGTACACCAG	0.682													7	4	---	---	---	---	PASS	T	72892798	T	T	72892798	4	4	112	1	0	0	0	0	0	1	0	0	13367	1059	37	2	1646	2	RIMS1	6	72892798	Nonsense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	3226756	72892798	98222269	125	41484										
KCNQ5	56479	broad.mit.edu	37	chr6	73713722	73713722	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	caagttgcctcttgatcctgGtaagtgaaacatgaacaaga	9	8	1	4			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:73713722G>C	uc003pgk.2	+	2	836	c.489_splice	c.e2+1	p.L163_splice	KCNQ5_uc003pgj.3_Splice_Site_p.L163_splice|KCNQ5_uc011dyh.1_Splice_Site_p.L163_splice|KCNQ5_uc011dyi.1_Splice_Site_p.L163_splice|KCNQ5_uc010kat.2_Splice_Site_p.L163_splice|KCNQ5_uc011dyj.1_Splice_Site_p.L163_splice|KCNQ5_uc011dyk.1_Splice_Site	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like						protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CTTGATCCTGGTAAGTGAAAC	0.353													67	74	---	---	---	---	PASS	C	73713722	C	C	73713722	5	2	112	1	0	0	0	0	0	0	1	0	8086	1275	44	4	496	4	KCNQ5	6	73713722	Splice_Site	SNP	G	TCGA-51-4080-01A-01D-1458-08	820924	73713722	97401345	126	41485										
GABRR1	2569	broad.mit.edu	37	chr6	89909131	89909131	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctccacctgcacatccacacCaacaggaatggcagggcctg	9	16	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:89909131C>A	uc003pna.2	-	4	753	c.298G>T	c.(298-300)GGT>TGT	p.G100C	GABRR1_uc011dzv.1_Missense_Mutation_p.G77C	NM_002042	NP_002033	P24046	GBRR1_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 1	100	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|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			pancreas(1)	1		all_cancers(76;9.49e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.46e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00917)	Picrotoxin(DB00466)	ACATCCACACCAACAGGAATG	0.502													34	56	---	---	---	---	PASS	A	89909131	A	A	89909131	3	1	112	1	0	0	0	0	1	0	0	0	6176	594	21	3	1169	3	GABRR1	6	89909131	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	16195409	89909131	81205936	127	41486										
UBE2J1	51465	broad.mit.edu	37	chr6	90053462	90053462	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aattctgccgcttctttcatTaaacgtttaacagctaaaat	4	9	3	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:90053462T>A	uc010kcb.2	-	3	218	c.45A>T	c.(43-45)TTA>TTT	p.L15F	UBE2J1_uc003pnc.2_Missense_Mutation_p.L15F	NM_016021	NP_057105	Q9Y385	UB2J1_HUMAN	ubiquitin-conjugating enzyme E2, J1	15	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	ATP binding|ubiquitin-protein ligase activity				0		all_cancers(76;1.65e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;2.5e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0139)		CTTCTTTCATTAAACGTTTAA	0.308													27	45	---	---	---	---	PASS	A	90053462	A	A	90053462	3	1	112	1	0	0	0	0	1	0	0	0	16857	1751	61	5	939	5	UBE2J1	6	90053462	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	144331	90053462	81061605	128	41487										
ASCC3	10973	broad.mit.edu	37	chr6	101076979	101076979	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctgctgactccatcccacttCtctggcgtagtgacgataag	9	13	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:101076979C>T	uc003pqk.2	-	27	4616	c.4287G>A	c.(4285-4287)GAG>GAA	p.E1429E		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1429	Helicase ATP-binding 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CATCCCACTTCTCTGGCGTAG	0.438													54	67	---	---	---	---	PASS	T	101076979	T	T	101076979	2	4	112	1	0	0	0	0	0	0	0	1	1033	912	32	2		2	ASCC3	6	101076979	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	11023517	101076979	70038088	129	41488										
CDC40	51362	broad.mit.edu	37	chr6	110540978	110540978	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aaattgtgcaggaatatgatCggcatttgggagctgtcaac	12	6	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:110540978C>A	uc003pua.2	+	12	1270	c.1246C>A	c.(1246-1248)CGG>AGG	p.R416R		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	416	WD 4.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		GGAATATGATCGGCATTTGGG	0.403													4	172	---	---	---	---	PASS	A	110540978	A	A	110540978	2	1	112	1	0	0	0	0	0	0	0	1	3070	875	31	2		2	CDC40	6	110540978	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	9463999	110540978	60574089	130	41489										
HSF2	3298	broad.mit.edu	37	chr6	122752641	122752641	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cagtttcggaagagggaagaAaatctaaatccaaaccaggt	10	7	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:122752641A>C	uc003pyu.2	+	12	1484	c.1297A>C	c.(1297-1299)AAA>CAA	p.K433Q	HSF2_uc003pyv.2_Missense_Mutation_p.K415Q	NM_004506	NP_004497	Q03933	HSF2_HUMAN	heat shock transcription factor 2 isoform a	433					response to stress|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0				OV - Ovarian serous cystadenocarcinoma(136;0.00371)|all cancers(137;0.0299)|GBM - Glioblastoma multiforme(226;0.0586)		AGAGGGAAGAAAATCTAAATC	0.328													25	31	---	---	---	---	PASS	C	122752641	C	C	122752641	3	2	112	1	0	0	0	0	1	0	0	0	7396	15	1	5	1343	5	HSF2	6	122752641	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	12211663	122752641	48362426	131	41490										
VNN1	8876	broad.mit.edu	37	chr6	133013653	133013653	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gaatccagttgcgagaggagGagttttccctcttctgtctt	11	9	3	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:133013653G>C	uc003qdo.2	-	5	917	c.897C>G	c.(895-897)CTC>CTG	p.L299L		NM_004666	NP_004657	O95497	VNN1_HUMAN	vanin 1 precursor	299	CN hydrolase.				acute inflammatory response|anti-apoptosis|cell-cell adhesion|cellular component movement|chronic inflammatory response|innate immune response|pantothenate metabolic process|positive regulation of T cell differentiation in thymus|response to oxidative stress	anchored to membrane|integral to membrane|plasma membrane	GPI anchor binding|pantetheine hydrolase activity			ovary(3)	3	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.0027)|GBM - Glioblastoma multiforme(226;0.0189)		GCGAGAGGAGGAGTTTTCCCT	0.438													36	55	---	---	---	---	PASS	C	133013653	C	C	133013653	2	2	112	1	0	0	0	0	0	0	0	1	17179	1161	41	2		2	VNN1	6	133013653	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	10261012	133013653	38101414	132	41491										
ARID1B	57492	broad.mit.edu	37	chr6	157527307	157527307	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctcctcctctccagttgtctGgatttctcgaacttttagtc	6	13	3	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:157527307G>T	uc003qqn.2	+	20	5130	c.4978G>T	c.(4978-4980)GGA>TGA	p.G1660*	ARID1B_uc003qqo.2_Nonsense_Mutation_p.G1620*|ARID1B_uc003qqp.2_Nonsense_Mutation_p.G1607*	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1665					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		CCAGTTGTCTGGATTTCTCGA	0.428													291	438	---	---	---	---	PASS	T	157527307	T	T	157527307	4	4	112	1	0	0	0	0	0	1	0	0	914	1349	47	3	5110	3	ARID1B	6	157527307	Nonsense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	24513654	157527307	13587760	133	41492										
ARID1B	57492	broad.mit.edu	37	chr6	157527593	157527593	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgccccggacgccgctgcagAcccaaaggagaagcccaagc	12	16	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:157527593A>C	uc003qqn.2	+	20	5416	c.5264A>C	c.(5263-5265)GAC>GCC	p.D1755A	ARID1B_uc003qqo.2_Missense_Mutation_p.D1715A|ARID1B_uc003qqp.2_Missense_Mutation_p.D1702A	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1760					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		GCCGCTGCAGACCCAAAGGAG	0.512													70	82	---	---	---	---	PASS	C	157527593	C	C	157527593	3	2	112	1	0	0	0	0	1	0	0	0	914	275	10	5	5396	5	ARID1B	6	157527593	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	286	157527593	13587474	134	41493										
T	6862	broad.mit.edu	37	chr6	166571969	166571969	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gggtgaggggtgtgtagtgcGcgggggagccccggaagaac	22	7	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr6:166571969G>T	uc003quu.1	-	9	1635	c.1142C>A	c.(1141-1143)GCG>GAG	p.A381E	T_uc003qut.1_Missense_Mutation_p.A382E|T_uc003quv.1_Missense_Mutation_p.A323E	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	381					anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		TGTGTAGTGCGCGGGGGAGCC	0.711									Chordoma_Familial_Clustering_of				44	39	---	---	---	---	PASS	T	166571969	T	T	166571969	3	4	112	1	0	0	0	0	1	0	0	0	15485	1087	38	1	169	1	T	6	166571969	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	9044376	166571969	4543098	135	41494										
PDGFA	5154	broad.mit.edu	37	chr7	550620	550620	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtcctggtcttgcagacagcGgggacagcttcctctgcaac	12	13	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:550620G>A	uc003sir.2	-	4	1122	c.279C>T	c.(277-279)CCC>CCT	p.P93P	PDGFA_uc003sis.2_Silent_p.P93P|PDGFA_uc003sit.1_Silent_p.P107P	NM_002607	NP_002598	P04085	PDGFA_HUMAN	platelet-derived growth factor alpha isoform 1	93					actin cytoskeleton organization|angiogenesis|cell projection assembly|embryo development|hair follicle development|lung alveolus development|negative chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|organ morphogenesis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of DNA replication|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of MAP kinase activity|positive regulation of mesenchymal cell proliferation|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein kinase B signaling cascade|regulation of actin cytoskeleton organization|regulation of branching involved in salivary gland morphogenesis by epithelial-mesenchymal signaling|regulation of peptidyl-tyrosine phosphorylation|regulation of smooth muscle cell migration|skin development	cell surface|endoplasmic reticulum lumen|extracellular space|Golgi membrane|microvillus|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity				0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|Epithelial(4;1.1e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.7e-17)|all cancers(6;4.89e-15)		TGCAGACAGCGGGGACAGCTT	0.682													13	19	---	---	---	---	PASS	A	550620	A	A	550620	2	1	112	1	0	0	0	0	0	0	0	1	11657	1103	39	1		1	PDGFA	7	550620	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08		550620	158588043	136	41495										
C7orf70	84792	broad.mit.edu	37	chr7	6370367	6370367	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tggggcactgtcctctgtggCcgtcagtggccctgggccct	15	14	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:6370367C>A	uc003spu.2	-	2	887	c.419G>T	c.(418-420)GGC>GTC	p.G140V		NM_001037163	NP_001032240	Q7Z4H9	SIPAR_HUMAN	hypothetical protein LOC84792	140						nucleus					0						TCCTCTGTGGCCGTCAGTGGC	0.602													34	38	---	---	---	---	PASS	A	6370367	A	A	6370367	3	1	112	1	0	0	0	0	1	0	0	0	2415	739	26	3	364	3	C7orf70	7	6370367	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	5819747	6370367	152768296	137	41496										
NXPH1	30010	broad.mit.edu	37	chr7	8790773	8790773	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gactcctgtcacagacttttCgtggcaaagagaatgataca	9	9	1	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:8790773C>A	uc003srv.2	+	3	1101	c.190C>A	c.(190-192)CGT>AGT	p.R64S	NXPH1_uc011jxh.1_5'UTR	NM_152745	NP_689958	P58417	NXPH1_HUMAN	neurexophilin 1 precursor	64	II.					extracellular region				ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0628)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)		ACAGACTTTTCGTGGCAAAGA	0.463													44	52	---	---	---	---	PASS	A	8790773	A	A	8790773	3	1	112	1	0	0	0	0	1	0	0	0	10790	884	31	2	196	2	NXPH1	7	8790773	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	2420406	8790773	150347890	138	41497										
GPNMB	10457	broad.mit.edu	37	chr7	23309656	23309656	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cccagaacacagtctgcagcCctgtggatgtggatgagatg	13	10	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:23309656C>T	uc003swc.2	+	9	1488	c.1327C>T	c.(1327-1329)CCT>TCT	p.P443S	GPNMB_uc003swb.2_Missense_Mutation_p.P431S|GPNMB_uc011jyy.1_Missense_Mutation_p.P385S|GPNMB_uc011jyz.1_Missense_Mutation_p.P332S	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	443	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			AGTCTGCAGCCCTGTGGATGT	0.582													100	118	---	---	---	---	PASS	T	23309656	T	T	23309656	3	4	112	1	0	0	0	0	1	0	0	0	6620	623	22	3	1361	3	GPNMB	7	23309656	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	14518883	23309656	135829007	139	41498										
ABCB4	5244	broad.mit.edu	37	chr7	87035607	87035607	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gctactctttaacttacgtgGggtaacgtctcgatgaaagg	11	8	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:87035607G>T	uc003uiv.1	-	26	3580	c.3504C>A	c.(3502-3504)CCC>CCA	p.P1168P	ABCB4_uc003uiw.1_Silent_p.P1161P|ABCB4_uc003uix.1_Silent_p.P1114P	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	1168	ABC transporter 2.|Cytoplasmic (By similarity).		P -> S (in GBD1).		cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					AACTTACGTGGGGTAACGTCT	0.398													84	132	---	---	---	---	PASS	T	87035607	T	T	87035607	2	4	112	1	0	0	0	0	0	0	0	1	43	1219	43	3		3	ABCB4	7	87035607	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	63725951	87035607	72103056	140	41499										
RUNDC3B	154661	broad.mit.edu	37	chr7	87370837	87370837	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tctgcctaaagggagaggggCtggatggcagttttcctgct	15	8	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:87370837C>T	uc003ujb.2	+	7	1033	c.622C>T	c.(622-624)CTG>TTG	p.L208L	RUNDC3B_uc011khd.1_Silent_p.L191L|RUNDC3B_uc011khe.1_Silent_p.L191L|RUNDC3B_uc003ujc.2_Silent_p.L191L|RUNDC3B_uc003ujd.2_Silent_p.L113L	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	208										skin(1)	1	Esophageal squamous(14;0.00164)					GGGAGAGGGGCTGGATGGCAG	0.264													26	34	---	---	---	---	PASS	T	87370837	T	T	87370837	2	4	112	1	0	0	0	0	0	0	0	1	13745	796	28	3		3	RUNDC3B	7	87370837	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	335230	87370837	71767826	141	41500										
SPDYE3	441272	broad.mit.edu	37	chr7	99917560	99917560	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	atttgtttttccagatccagGcttatgacccagagcactgg	9	10	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:99917560G>A	uc003uug.1	+	5	706	c.466G>A	c.(466-468)GCT>ACT	p.A156T	uc011kjm.1_5'Flank	NM_001004351	NP_001004351	A6NKU9	SPDE3_HUMAN	speedy homolog E3	533											0						CCAGATCCAGGCTTATGACCC	0.617													76	102	---	---	---	---	PASS	A	99917560	A	A	99917560	3	1	112	1	0	0	0	0	1	0	0	0	15029	1203	42	3	1635	3	SPDYE3	7	99917560	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	12546723	99917560	59221103	142	41501										
TRIP6	7205	broad.mit.edu	37	chr7	100466332	100466332	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggagcctctcaggcctctggGcccctcccgggcccccactt	11	20	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:100466332G>T	uc003uww.2	+	4	749	c.579G>T	c.(577-579)GGG>GGT	p.G193G	TRIP6_uc010lhk.1_RNA	NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6	193					focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)					AGGCCTCTGGGCCCCTCCCGG	0.706													8	11	---	---	---	---	PASS	T	100466332	T	T	100466332	2	4	112	1	0	0	0	0	0	0	0	1	16556	1190	42	3		3	TRIP6	7	100466332	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	548772	100466332	58672331	143	41502										
CADPS2	93664	broad.mit.edu	37	chr7	122130267	122130267	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	taatattctgtcctgttcatCatcactggcaaagattacag	6	9	4	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:122130267C>A	uc010lkp.2	-	11	1883	c.1720G>T	c.(1720-1722)GAT>TAT	p.D574Y	CADPS2_uc003vkg.3_Missense_Mutation_p.D274Y|CADPS2_uc010lkq.2_Missense_Mutation_p.D574Y	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	574	PH.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						TCCTGTTCATCATCACTGGCA	0.388													13	173	---	---	---	---	PASS	A	122130267	A	A	122130267	3	1	112	1	0	0	0	0	1	0	0	0	2571	826	29	2	2294	2	CADPS2	7	122130267	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	21663935	122130267	37008396	144	41503										
CPA5	93979	broad.mit.edu	37	chr7	129986318	129986318	+	Translation_Start_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gcccctgaagctcaccaggaGgaagaagcatgcagggcacc	13	13	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:129986318G>T	uc010lmd.1	+	4	612	c.-8G>T	c.(-10--6)GAGGA>GATGA		CPA5_uc003vps.2_Translation_Start_Site|CPA5_uc003vpt.2_Translation_Start_Site|CPA5_uc010lme.1_Translation_Start_Site|CPA5_uc003vpu.1_Translation_Start_Site	NM_001127441	NP_001120913	Q8WXQ8	CBPA5_HUMAN	carboxypeptidase A5 isoform 1						proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2	Melanoma(18;0.0435)					CTCACCAGGAGGAAGAAGCAT	0.632													63	71	---	---	---	---	PASS	T	129986318	T	T	129986318	1	4	112	1	0	0	0	0	0	0	0	0	3793	1015	35	3		3	CPA5	7	129986318	Translation_Start_Site	SNP	G	TCGA-51-4080-01A-01D-1458-08	7856051	129986318	29152345	145	41504										
PLXNA4	91584	broad.mit.edu	37	chr7	131908396	131908396	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tggactctccacgcaggacaGgcacctgggcacaggggaag	15	12	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:131908396G>T	uc003vra.3	-	9	2216	c.1987C>A	c.(1987-1989)CTG>ATG	p.L663M		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	663	PSI 2.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						ACGCAGGACAGGCACCTGGGC	0.537													9	13	---	---	---	---	PASS	T	131908396	T	T	131908396	3	4	112	1	0	0	0	0	1	0	0	0	12122	991	35	3	3793	3	PLXNA4	7	131908396	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1922078	131908396	27230267	146	41505										
KLRG2	346689	broad.mit.edu	37	chr7	139168179	139168179	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gacccggggcgaggcgaaggCggctttttcttgctcgaggg	18	10	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:139168179C>A	uc003vvb.2	-	1	279	c.210G>T	c.(208-210)CCG>CCT	p.P70P	KLRG2_uc010lnc.2_Silent_p.P70P	NM_198508	NP_940910	A4D1S0	KLRG2_HUMAN	killer cell lectin-like receptor subfamily G,	70	Pro-rich.					integral to membrane	sugar binding			central_nervous_system(1)	1	Melanoma(164;0.233)					GAGGCGAAGGCGGCTTTTTCT	0.731													16	10	---	---	---	---	PASS	A	139168179	A	A	139168179	2	1	112	1	0	0	0	0	0	0	0	1	8422	755	27	1		1	KLRG2	7	139168179	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	7259783	139168179	19970484	147	41506										
WEE2	494551	broad.mit.edu	37	chr7	141408806	141408806	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tccagatcagattttgaggaCtccagtgtcacaccctctca	7	13	3	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:141408806C>A	uc003vwn.2	+	1	654	c.248C>A	c.(247-249)ACT>AAT	p.T83N	FLJ40852_uc011krh.1_Intron|FLJ40852_uc010lnm.2_Intron|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028	P0C1S8	WEE2_HUMAN	WEE1 homolog 2	83					egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)					ATTTTGAGGACTCCAGTGTCA	0.522													146	177	---	---	---	---	PASS	A	141408806	A	A	141408806	3	1	112	1	0	0	0	0	1	0	0	0	17342	565	20	3	250	3	WEE2	7	141408806	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	2240627	141408806	17729857	148	41507										
OR2A2	442361	broad.mit.edu	37	chr7	143807527	143807527	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agtgtctttaatccaatgctGaaccccctgatctacagcct	6	13	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr7:143807527G>T	uc011ktz.1	+	1	852	c.852G>T	c.(850-852)CTG>CTT	p.L284L		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					ATCCAATGCTGAACCCCCTGA	0.517													127	192	---	---	---	---	PASS	T	143807527	T	T	143807527	2	4	112	1	0	0	0	0	0	0	0	1	10977	1277	45	2		2	OR2A2	7	143807527	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	2398721	143807527	15331136	149	41508										
DLC1	10395	broad.mit.edu	37	chr8	12957052	12957052	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtccagggctgagtccgaatCtccctcatcagaaaacttct	8	13	4	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr8:12957052C>T	uc003wwm.2	-	9	3238	c.2794G>A	c.(2794-2796)GAT>AAT	p.D932N	DLC1_uc003wwk.1_Missense_Mutation_p.D495N|DLC1_uc003wwl.1_Missense_Mutation_p.D529N|DLC1_uc011kxx.1_Missense_Mutation_p.D421N	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	932					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GAGTCCGAATCTCCCTCATCA	0.567													67	21	---	---	---	---	PASS	T	12957052	T	T	12957052	3	4	112	1	0	0	0	0	1	0	0	0	4550	913	32	2	1832	2	DLC1	8	12957052	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08		12957052	133406970	150	41509										
RP1	6101	broad.mit.edu	37	chr8	55537815	55537815	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	acctggactaagaagagtgaGacaaaagaaatctgtgattg	11	5	1	5			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr8:55537815G>C	uc003xsd.1	+	4	1521	c.1373G>C	c.(1372-1374)AGA>ACA	p.R458T	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	458					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			AGAAGAGTGAGACAAAAGAAA	0.418													55	76	---	---	---	---	PASS	C	55537815	C	C	55537815	3	2	112	1	0	0	0	0	1	0	0	0	13532	942	33	2	1383	2	RP1	8	55537815	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	42580763	55537815	90826207	151	41510										
IMPAD1	54928	broad.mit.edu	37	chr8	57905986	57905986	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtgcccccatcggccgcggcCgcgggccccgccgcgccgcc	15	23	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr8:57905986C>A	uc003xte.3	-	1	442	c.159G>T	c.(157-159)GCG>GCT	p.A53A		NM_017813	NP_060283	Q9NX62	IMPA3_HUMAN	inositol monophosphatase domain containing 1	53	Poly-Ala.					Golgi apparatus|integral to membrane	inositol-1(or 4)-monophosphatase activity|metal ion binding			ovary(1)	1		all_cancers(86;0.175)|all_lung(136;0.0321)|Lung NSC(129;0.0417)|all_epithelial(80;0.0448)				cggccgcggccgcgggccccg	0.587													3	0	---	---	---	---	PASS	A	57905986	A	A	57905986	2	1	112	1	0	0	0	0	0	0	0	1	7725	639	23	1		1	IMPAD1	8	57905986	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	2368171	57905986	88458036	152	41511										
CLVS1	157807	broad.mit.edu	37	chr8	62371029	62371029	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aaatgactatactcacacatCctataatgcaatgcacgtga	5	10	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr8:62371029C>A	uc003xuh.2	+	5	1229	c.905C>A	c.(904-906)TCC>TAC	p.S302Y	CLVS1_uc003xui.2_RNA|CLVS1_uc010lyp.2_Intron	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1	302					lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						ACTCACACATCCTATAATGCA	0.498													41	54	---	---	---	---	PASS	A	62371029	A	A	62371029	3	1	112	1	0	0	0	0	1	0	0	0	3571	855	30	2	919	2	CLVS1	8	62371029	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	4465043	62371029	83992993	153	41512										
XKR9	389668	broad.mit.edu	37	chr8	71646376	71646376	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tacattttttaatattaaggGacagaataccaagtgtccaa	6	6	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr8:71646376G>T	uc003xyq.2	+	5	1373	c.839G>T	c.(838-840)GGA>GTA	p.G280V	XKR9_uc010lze.2_Missense_Mutation_p.G280V|XKR9_uc010lzd.2_Missense_Mutation_p.G148V	NM_001011720	NP_001011720	Q5GH70	XKR9_HUMAN	XK, Kell blood group complex subunit-related	280						integral to membrane				ovary(1)|skin(1)	2	Breast(64;0.0716)		Epithelial(68;0.00301)|all cancers(69;0.0165)|OV - Ovarian serous cystadenocarcinoma(28;0.0524)|BRCA - Breast invasive adenocarcinoma(89;0.166)			AATATTAAGGGACAGAATACC	0.328													39	61	---	---	---	---	PASS	T	71646376	T	T	71646376	3	4	112	1	0	0	0	0	1	0	0	0	17435	1174	41	2	849	2	XKR9	8	71646376	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	9275347	71646376	74717646	154	41513										
CNGB3	54714	broad.mit.edu	37	chr8	87683207	87683207	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cttcgggtgaggagagatctCcctctaccaactttttcttg	9	11	3	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr8:87683207C>A	uc003ydx.2	-	4	504	c.458G>T	c.(457-459)GGA>GTA	p.G153V	CNGB3_uc010maj.2_Missense_Mutation_p.G15V	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	153	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						GGAGAGATCTCCCTCTACCAA	0.493													225	237	---	---	---	---	PASS	A	87683207	A	A	87683207	3	1	112	1	0	0	0	0	1	0	0	0	3601	855	30	2	2031	2	CNGB3	8	87683207	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	16036831	87683207	58680815	155	41514										
ZFPM2	23414	broad.mit.edu	37	chr8	106814722	106814722	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cacttggaaacttctctgacGatcaacaagtgtgttccagt	8	10	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr8:106814722G>T	uc003ymd.2	+	8	2435	c.2412G>T	c.(2410-2412)ACG>ACT	p.T804T	ZFPM2_uc011lhs.1_Silent_p.T535T	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	804					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			CTTCTCTGACGATCAACAAGT	0.443													33	22	---	---	---	---	PASS	T	106814722	T	T	106814722	2	4	112	1	0	0	0	0	0	0	0	1	17655	1045	37	2		2	ZFPM2	8	106814722	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	19131515	106814722	39549300	156	41515										
CSMD3	114788	broad.mit.edu	37	chr8	113563053	113563053	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttctggtggaccgtcccagaCtcggagtatatcatgtgatg	12	9	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr8:113563053C>A	uc003ynu.2	-	27	4570	c.4411G>T	c.(4411-4413)GTC>TTC	p.V1471F	CSMD3_uc003yns.2_Missense_Mutation_p.V743F|CSMD3_uc003ynt.2_Missense_Mutation_p.V1431F|CSMD3_uc011lhx.1_Missense_Mutation_p.V1367F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1471	Extracellular (Potential).|CUB 8.					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						CCGTCCCAGACTCGGAGTATA	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			34	114	---	---	---	---	PASS	A	113563053	A	A	113563053	3	1	112	1	0	0	0	0	1	0	0	0	3946	565	20	3	6892	3	CSMD3	8	113563053	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	6748331	113563053	32800969	157	41516										
TG	7038	broad.mit.edu	37	chr8	134108523	134108523	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cttcctccgtgagcctccagCcagagcactgaagaggtctt	10	14	1	4			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr8:134108523C>G	uc003ytw.2	+	43	7519	c.7478C>G	c.(7477-7479)GCC>GGC	p.A2493G	TG_uc010mdw.2_Missense_Mutation_p.A1252G|TG_uc011ljb.1_Missense_Mutation_p.A862G|TG_uc011ljc.1_Missense_Mutation_p.A626G|SLA_uc003ytz.2_Intron|SLA_uc011lje.1_Intron|SLA_uc011ljf.1_Intron|SLA_uc011ljg.1_Intron|SLA_uc010mea.2_Intron	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2493					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GAGCCTCCAGCCAGAGCACTG	0.542													182	337	---	---	---	---	PASS	G	134108523	G	G	134108523	3	3	112	1	0	0	0	0	1	0	0	0	15810	739	26	4	7648	4	TG	8	134108523	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	20545470	134108523	12255499	158	41517										
FAM135B	51059	broad.mit.edu	37	chr8	139144962	139144962	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttgggcagggcgtggaacacGttgtgtcggattaaagtgca	16	6	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr8:139144962G>T	uc003yuy.2	-	20	4266	c.4095C>A	c.(4093-4095)AAC>AAA	p.N1365K	FAM135B_uc003yux.2_Missense_Mutation_p.N1266K|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1365										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)			CGTGGAACACGTTGTGTCGGA	0.532										HNSCC(54;0.14)			176	415	---	---	---	---	PASS	T	139144962	T	T	139144962	3	4	112	1	0	0	0	0	1	0	0	0	5449	1136	40	1	129	1	FAM135B	8	139144962	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	5036439	139144962	7219060	159	41518										
FAM135B	51059	broad.mit.edu	37	chr8	139164371	139164371	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cttggtgtccgcatcttcagCagcctcctctgggctactga	10	14	3	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr8:139164371C>A	uc003yuy.2	-	13	2518	c.2347G>T	c.(2347-2349)GCT>TCT	p.A783S	FAM135B_uc003yux.2_Missense_Mutation_p.A684S|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.A345S|FAM135B_uc003yvb.2_Missense_Mutation_p.A345S	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	783										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)			GCATCTTCAGCAGCCTCCTCT	0.507										HNSCC(54;0.14)			81	56	---	---	---	---	PASS	A	139164371	A	A	139164371	3	1	112	1	0	0	0	0	1	0	0	0	5449	710	25	3	1905	3	FAM135B	8	139164371	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	19409	139164371	7199651	160	41519										
CYP11B1	1584	broad.mit.edu	37	chr8	143960491	143960491	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cccacgatgttgtctgtaggCcacccagggctccaggctca	11	15	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr8:143960491C>T	uc003yxi.2	-	2	359	c.352G>A	c.(352-354)GCC>ACC	p.A118T	CYP11B1_uc003yxh.2_5'Flank|CYP11B1_uc003yxj.2_Missense_Mutation_p.A118T|CYP11B1_uc010mey.2_Missense_Mutation_p.A163T	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	118					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	TGTCTGTAGGCCACCCAGGGC	0.627									Familial_Hyperaldosteronism_type_I				81	66	---	---	---	---	PASS	T	143960491	T	T	143960491	3	4	112	1	0	0	0	0	1	0	0	0	4145	739	26	3	1191	3	CYP11B1	8	143960491	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	4796120	143960491	2403531	161	41520										
RANBP6	26953	broad.mit.edu	37	chr9	6015055	6015055	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	atcttgaatacactggtccaAcaaccgtttgatgatatcca	6	10	1	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:6015055A>G	uc003zjr.2	-	1	564	c.553T>C	c.(553-555)TTG>CTG	p.L185L	RANBP6_uc011lmf.1_Intron|RANBP6_uc003zjs.2_Intron	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	185					protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		CACTGGTCCAACAACCGTTTG	0.428													64	85	---	---	---	---	PASS	G	6015055	G	G	6015055	2	3	112	1	0	0	0	0	0	0	0	1	13031	40	2	5		5	RANBP6	9	6015055	Silent	SNP	A	TCGA-51-4080-01A-01D-1458-08		6015055	135198376	162	41521										
FREM1	158326	broad.mit.edu	37	chr9	14857664	14857664	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aaggcccatcagcaggaactCctcacagctcactttgaggc	9	14	3	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:14857664C>A	uc003zlm.2	-	5	1305	c.715G>T	c.(715-717)GAG>TAG	p.E239*	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	239					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		AGCAGGAACTCCTCACAGCTC	0.478													77	90	---	---	---	---	PASS	A	14857664	A	A	14857664	4	1	112	1	0	0	0	0	0	1	0	0	6044	864	30	2	6006	2	FREM1	9	14857664	Nonsense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	8842609	14857664	126355767	163	41522										
CDKN2A	1029	broad.mit.edu	37	chr9	21971000	21971000	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gacatcgcgatggcccagctCctcagccaggtccacgggca	12	16	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:21971000C>A	uc003zpk.2	-	2	570	c.358G>T	c.(358-360)GAG>TAG	p.E120*	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_3'UTR	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	120	ANK 4.		E -> A (in non-small cell lung carcinoma).|E -> K (in non-small cell lung carcinoma).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(13)|p.E120*(8)|p.E120K(4)|p.E120A(1)|p.A118fs*10(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		TGGCCCAGCTCCTCAGCCAGG	0.726		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			31	34	---	---	---	---	PASS	A	21971000	A	A	21971000	4	1	112	1	0	0	0	0	0	1	0	0	3161	864	30	2	120	2	CDKN2A	9	21971000	Nonsense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	7113336	21971000	119242431	164	41523										
TAF1L	138474	broad.mit.edu	37	chr9	32632793	32632793	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctcattttcttcttctggggCaaaaaaggatttctcaccat	6	10	5	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:32632793C>A	uc003zrg.1	-	1	2875	c.2785G>T	c.(2785-2787)GCC>TCC	p.A929S	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	929					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TCTTCTGGGGCAAAAAAGGAT	0.458													85	154	---	---	---	---	PASS	A	32632793	A	A	32632793	3	1	112	1	0	0	0	0	1	0	0	0	15520	710	25	3	2699	3	TAF1L	9	32632793	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	10661793	32632793	108580638	165	41524										
FRMPD1	22844	broad.mit.edu	37	chr9	37740318	37740318	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctcagccaacactgagagccGcggctacaggaccagtggct	12	14	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:37740318G>A	uc004aag.1	+	15	1837	c.1793G>A	c.(1792-1794)CGC>CAC	p.R598H	FRMPD1_uc004aah.1_Missense_Mutation_p.R598H|FRMPD1_uc011lqm.1_Missense_Mutation_p.R420H|FRMPD1_uc011lqn.1_Missense_Mutation_p.R467H	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	598						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		ACTGAGAGCCGCGGCTACAGG	0.632													26	31	---	---	---	---	PASS	A	37740318	A	A	37740318	3	1	112	1	0	0	0	0	1	0	0	0	6057	1087	38	1	1847	1	FRMPD1	9	37740318	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	5107525	37740318	103473113	166	41525										
GRIN3A	116443	broad.mit.edu	37	chr9	104385621	104385621	+	Missense_Mutation	SNP	C	A	A													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttctatggcaaatggcttccCcacagtgagaagtttgcagt							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:104385621C>A	uc004bbp.1	-	5	3194	c.2593G>T	c.(2593-2595)GGG>TGG	p.G865W	GRIN3A_uc004bbq.1_Missense_Mutation_p.G865W	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	865	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	AATGGCTTCCCCACAGTGAGA	0.418													34	63	---	---	---	---	PASS	A	104385621	A	A	104385621	3	1	112	1	0	0	0	0	1	0	0	0	6783	623	22	3	774	3	GRIN3A	9	104385621	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	66645303	104385621	36827810	167	41526	774	2								
GRIN3A	116443	broad.mit.edu	37	chr9	104385622	104385622	+	Silent	SNP	C	A	A													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tctatggcaaatggcttcccCacagtgagaagtttgcagtc							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:104385622C>A	uc004bbp.1	-	5	3193	c.2592G>T	c.(2590-2592)GTG>GTT	p.V864V	GRIN3A_uc004bbq.1_Silent_p.V864V	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	864	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	ATGGCTTCCCCACAGTGAGAA	0.413													32	62	---	---	---	---	PASS	A	104385622	A	A	104385622	2	1	112	1	0	0	0	0	0	0	0	1	6783	581	21	3		3	GRIN3A	9	104385622	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	1	104385622	36827809	168	41527	774	2								
ASTN2	23245	broad.mit.edu	37	chr9	119738461	119738461	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctctcaagtgtcgtgtagggCcaaggtctatgggaagaagg	15	7	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:119738461C>A	uc004bjs.1	-	9	1784	c.1683G>T	c.(1681-1683)TGG>TGT	p.W561C	ASTN2_uc004bjr.1_Missense_Mutation_p.W561C|ASTN2_uc004bjt.1_Missense_Mutation_p.W510C	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	561	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TCGTGTAGGGCCAAGGTCTAT	0.483													26	27	---	---	---	---	PASS	A	119738461	A	A	119738461	3	1	112	1	0	0	0	0	1	0	0	0	1065	740	26	3	2628	3	ASTN2	9	119738461	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	15352839	119738461	21474970	169	41528										
SH2D3C	10044	broad.mit.edu	37	chr9	130536590	130536590	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cactggagcgggcataggctGggggactcttgggcaccgtc	17	11	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:130536590G>C	uc004bsc.2	-	2	336	c.194C>G	c.(193-195)CCA>CGA	p.P65R	SH2D3C_uc004bsa.2_5'Flank|SH2D3C_uc004bsb.2_5'Flank|SH2D3C_uc004bsd.1_Missense_Mutation_p.P9R	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a	65					JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						GGCATAGGCTGGGGGACTCTT	0.597													20	45	---	---	---	---	PASS	C	130536590	C	C	130536590	3	2	112	1	0	0	0	0	1	0	0	0	14234	1348	47	4	2565	4	SH2D3C	9	130536590	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	10798129	130536590	10676841	170	41529										
COQ4	51117	broad.mit.edu	37	chr9	131094462	131094462	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cagacacccgagcacccaccCgcttcgtggatgatgaggag	12	14	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:131094462C>G	uc004bur.3	+	5	780	c.433C>G	c.(433-435)CGC>GGC	p.R145G	COQ4_uc004bus.2_Missense_Mutation_p.R121G|COQ4_uc010mxy.2_Missense_Mutation_p.R121G	NM_016035	NP_057119	Q9Y3A0	COQ4_HUMAN	coenzyme Q4 homolog precursor	145					ubiquinone biosynthetic process	mitochondrial inner membrane					0						AGCACCCACCCGCTTCGTGGA	0.602													9	14	---	---	---	---	PASS	G	131094462	G	G	131094462	3	3	112	1	0	0	0	0	1	0	0	0	3747	652	23	4	451	4	COQ4	9	131094462	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	557872	131094462	10118969	171	41530										
LAMC3	10319	broad.mit.edu	37	chr9	133914549	133914549	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctccagtgcgatgacacaggCacctgcgcctgcaagcccac	10	17	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:133914549C>A	uc004caa.1	+	6	1295	c.1197C>A	c.(1195-1197)GGC>GGA	p.G399G		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	399	Laminin EGF-like 3.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		ATGACACAGGCACCTGCGCCT	0.657													22	44	---	---	---	---	PASS	A	133914549	A	A	133914549	2	1	112	1	0	0	0	0	0	0	0	1	8616	697	25	3		3	LAMC3	9	133914549	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	2820087	133914549	7298882	172	41531										
RALGDS	5900	broad.mit.edu	37	chr9	135983376	135983376	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gccaagctgagctgctcaccGcatccatcagtgtaaactgc	9	14	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:135983376G>A	uc004cco.2	-	6	1216	c.1196C>T	c.(1195-1197)GCG>GTG	p.A399V	RALGDS_uc004ccp.2_RNA|RALGDS_uc004ccq.2_Missense_Mutation_p.A387V|RALGDS_uc004ccr.2_Missense_Mutation_p.A398V|RALGDS_uc011mcv.1_Missense_Mutation_p.A370V|RALGDS_uc004ccs.2_Missense_Mutation_p.A344V|RALGDS_uc011mcw.1_Missense_Mutation_p.A470V|RALGDS_uc004ccv.1_Missense_Mutation_p.A168V|RALGDS_uc004ccu.1_Missense_Mutation_p.A168V	NM_006266	NP_006257	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	399	Ras-GEF.				nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		GCTGCTCACCGCATCCATCAG	0.562			T	CIITA	PMBL|Hodgkin Lymphona|								4	102	---	---	---	---	PASS	A	135983376	A	A	135983376	3	1	112	1	0	0	0	0	1	0	0	0	13016	1101	38	1	1600	1	RALGDS	9	135983376	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	2068827	135983376	5230055	173	41532										
COL5A1	1289	broad.mit.edu	37	chr9	137721880	137721880	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctggttcagtgaattcaagcGtgggaaactggtaaggtggc	15	6	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:137721880G>A	uc004cfe.2	+	64	5508	c.5126G>A	c.(5125-5127)CGT>CAT	p.R1709H	uc004cff.2_Intron	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1709	Fibrillar collagen NC1.				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)		GAATTCAAGCGTGGGAAACTG	0.537													3	50	---	---	---	---	PASS	A	137721880	A	A	137721880	3	1	112	1	0	0	0	0	1	0	0	0	3696	1145	40	1	5380	1	COL5A1	9	137721880	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1738504	137721880	3491551	174	41533										
PMPCA	23203	broad.mit.edu	37	chr9	139310803	139310803	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gctggaggacctgaacctgcGgcctgacccagagccacttc	12	15	0	3	rs138828077	by1000genomes	TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:139310803G>A	uc004chl.2	+	6	598	c.593G>A	c.(592-594)CGG>CAG	p.R198Q	PMPCA_uc011mdy.1_Missense_Mutation_p.R198Q|PMPCA_uc010nbk.2_RNA|PMPCA_uc010nbl.2_Missense_Mutation_p.R98Q|PMPCA_uc011mdz.1_Missense_Mutation_p.R67Q|PMPCA_uc004chm.1_5'UTR|PMPCA_uc004chn.1_5'Flank	NM_015160	NP_055975	Q10713	MPPA_HUMAN	peptidase (mitochondrial processing) alpha	198					proteolysis	mitochondrial inner membrane|mitochondrial matrix	metalloendopeptidase activity|zinc ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;9.3e-06)|Epithelial(140;1.15e-05)		CTGAACCTGCGGCCTGACCCA	0.562													60	89	---	---	---	---	PASS	A	139310803	A	A	139310803	3	1	112	1	0	0	0	0	1	0	0	0	12140	1116	39	1	615	1	PMPCA	9	139310803	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1588923	139310803	1902628	175	41534										
FAM69B	138311	broad.mit.edu	37	chr9	139616693	139616694	+	Frame_Shift_Ins	INS	-	A	A													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gggagctggtactgtttgacINSaagcccacccggggcacctc							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr9:139616693_139616694insA	uc004cik.2	+	4	517_518	c.423_424insA	c.(421-426)GACAAGfs	p.D141fs	FAM69B_uc004cil.2_Frame_Shift_Ins_p.D54fs|SNHG7_uc004cim.2_RNA	NM_152421	NP_689634	Q5VUD6	FA69B_HUMAN	hypothetical protein LOC138311	141_142	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.03e-05)|Epithelial(140;0.00013)		TACTGTTTGACAAGCCCACCCG	0.634													66	40	---	---	---	---		A	139616694	A	A	139616693	7	5	112	1	0	1	1	0	0	0	0	0	5603	477	17	0	437	0	FAM69B	9	139616693	Frame_Shift_Ins	INS	-	TCGA-51-4080-01A-01D-1458-08	305890	139616693	1596738	176	41535										
ABI1	10006	broad.mit.edu	37	chr10	27059274	27059274	+	Missense_Mutation	SNP	G	A	A													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgcaggctggttatttccatGctaaaatgtagaaagaaatg							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr10:27059274G>A	uc001isx.2	-	5	645	c.478C>T	c.(478-480)CAT>TAT	p.H160Y	ABI1_uc001ite.2_Missense_Mutation_p.H155Y|ABI1_uc010qdh.1_Missense_Mutation_p.H155Y|ABI1_uc010qdi.1_Missense_Mutation_p.H96Y|ABI1_uc001isy.2_Missense_Mutation_p.H160Y|ABI1_uc001ita.2_Missense_Mutation_p.H160Y|ABI1_uc001isz.2_Missense_Mutation_p.H155Y|ABI1_uc001itb.2_Missense_Mutation_p.H177Y|ABI1_uc001itc.2_Missense_Mutation_p.H160Y|ABI1_uc010qdj.1_Missense_Mutation_p.H160Y|ABI1_uc001itd.2_Missense_Mutation_p.H160Y|ABI1_uc010qdk.1_Missense_Mutation_p.H160Y|ABI1_uc010qdg.1_Missense_Mutation_p.H26Y	NM_005470	NP_005461	Q8IZP0	ABI1_HUMAN	abl-interactor 1 isoform a	160					actin polymerization or depolymerization|cellular component movement|negative regulation of cell proliferation|peptidyl-tyrosine phosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	cell junction|cytoskeleton|cytosol|endoplasmic reticulum|filopodium|growth cone|lamellipodium|nucleus|soluble fraction|synapse|synaptosome	cytoskeletal protein binding			central_nervous_system(1)	1						TTATTTCCATGCTAAAATGTA	0.383													50	13	---	---	---	---	PASS	A	27059274	A	A	27059274	3	1	112	1	0	0	0	0	1	0	0	0	88	1333	46	3	1080	3	ABI1	10	27059274	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08		27059274	108475473	177	41536	775	2								
ABI1	10006	broad.mit.edu	37	chr10	27059275	27059275	+	Splice_Site	SNP	C	A	A													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gcaggctggttatttccatgCtaaaatgtagaaagaaatgc							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr10:27059275C>A	uc001isx.2	-	5	645	c.478_splice	c.e5-1	p.H160_splice	ABI1_uc001ite.2_Splice_Site_p.H155_splice|ABI1_uc010qdh.1_Splice_Site_p.H155_splice|ABI1_uc010qdi.1_Splice_Site_p.H96_splice|ABI1_uc001isy.2_Splice_Site_p.H160_splice|ABI1_uc001ita.2_Splice_Site_p.H160_splice|ABI1_uc001isz.2_Splice_Site_p.H155_splice|ABI1_uc001itb.2_Splice_Site_p.H177_splice|ABI1_uc001itc.2_Splice_Site_p.H160_splice|ABI1_uc010qdj.1_Splice_Site_p.H160_splice|ABI1_uc001itd.2_Splice_Site_p.H160_splice|ABI1_uc010qdk.1_Splice_Site_p.H160_splice|ABI1_uc010qdg.1_Splice_Site_p.H26_splice	NM_005470	NP_005461	Q8IZP0	ABI1_HUMAN	abl-interactor 1 isoform a						actin polymerization or depolymerization|cellular component movement|negative regulation of cell proliferation|peptidyl-tyrosine phosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	cell junction|cytoskeleton|cytosol|endoplasmic reticulum|filopodium|growth cone|lamellipodium|nucleus|soluble fraction|synapse|synaptosome	cytoskeletal protein binding			central_nervous_system(1)	1						TATTTCCATGCTAAAATGTAG	0.383													49	14	---	---	---	---	PASS	A	27059275	A	A	27059275	5	1	112	1	0	0	0	0	0	0	1	0	88	811	28	3	1081	3	ABI1	10	27059275	Splice_Site	SNP	C	TCGA-51-4080-01A-01D-1458-08	1	27059275	108475472	178	41537	775	2								
MPP7	143098	broad.mit.edu	37	chr10	28348635	28348635	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gaaatgaaaatgtattcaacAccatcactctcctggcttct	5	11	4	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr10:28348635A>T	uc001iua.1	-	16	1646	c.1242T>A	c.(1240-1242)GGT>GGA	p.G414G	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Silent_p.G414G|MPP7_uc009xla.2_Silent_p.G414G|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	414	Guanylate kinase-like.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						TGTATTCAACACCATCACTCT	0.338													43	16	---	---	---	---	PASS	T	28348635	T	T	28348635	2	4	112	1	0	0	0	0	0	0	0	1	9739	146	6	5		5	MPP7	10	28348635	Silent	SNP	A	TCGA-51-4080-01A-01D-1458-08	1289360	28348635	107186112	179	41538										
LRRTM3	347731	broad.mit.edu	37	chr10	68686951	68686951	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agctcacctggctataccttGaccataaccatatcagcaat	5	13	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr10:68686951G>C	uc001jmz.1	+	2	827	c.277G>C	c.(277-279)GAC>CAC	p.D93H	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.D93H	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	93	Extracellular (Potential).|LRR 2.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GCTATACCTTGACCATAACCA	0.373													108	24	---	---	---	---	PASS	C	68686951	C	C	68686951	3	2	112	1	0	0	0	0	1	0	0	0	9041	1290	45	2	283	2	LRRTM3	10	68686951	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	40338316	68686951	66847796	180	41539										
SPOCK2	9806	broad.mit.edu	37	chr10	73848064	73848064	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gcagcagcggcagcaccagcCgcccgcagcccggggcgcgc	16	19	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr10:73848064C>A	uc001jso.1	-	1	468	c.23G>T	c.(22-24)CGG>CTG	p.R8L	SPOCK2_uc001jsp.2_Missense_Mutation_p.R8L|SPOCK2_uc010qjs.1_Missense_Mutation_p.R8L|SPOCK2_uc010qjt.1_Missense_Mutation_p.R8L	NM_014767	NP_055582	Q92563	TICN2_HUMAN	sparc/osteonectin, cwcv and kazal-like domains	8					extracellular matrix organization|regulation of cell differentiation|signal transduction|synapse assembly	proteinaceous extracellular matrix	calcium ion binding				0						CAGCACCAGCCGCCCGCAGCC	0.682													9	3	---	---	---	---	PASS	A	73848064	A	A	73848064	3	1	112	1	0	0	0	0	1	0	0	0	15079	652	23	1	1344	1	SPOCK2	10	73848064	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	5161113	73848064	61686683	181	41540										
ECD	11319	broad.mit.edu	37	chr10	74914078	74914078	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gacaagctcgcaggtcaataGggtctcgtaggtaaaatgcc	12	9	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr10:74914078G>C	uc001jtn.2	-	6	962	c.719C>G	c.(718-720)CCT>CGT	p.P240R	ECD_uc009xqx.2_Missense_Mutation_p.P240R|ECD_uc009xqy.2_Missense_Mutation_p.P240R|ECD_uc001jto.2_Intron	NM_007265	NP_009196	O95905	SGT1_HUMAN	suppressor of S. cerevisiae gcr2 isoform 1	240					regulation of glycolysis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	transcription coactivator activity			pancreas(1)	1	Prostate(51;0.0119)					CAGGTCAATAGGGTCTCGTAG	0.483													21	14	---	---	---	---	PASS	C	74914078	C	C	74914078	3	2	112	1	0	0	0	0	1	0	0	0	4888	1000	35	4	1354	4	ECD	10	74914078	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1066014	74914078	60620669	182	41541										
KIF20B	9585	broad.mit.edu	37	chr10	91533730	91533730	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgaaatttttaatttcagatTttaatggaccagaaaatgaa	6	3	1	4			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr10:91533730T>A	uc001kgs.1	+	33	5460	c.5388T>A	c.(5386-5388)ATT>ATA	p.I1796I	KIF20B_uc001kgr.1_Silent_p.I1756I|KIF20B_uc001kgt.1_Silent_p.I1007I|KIF20B_uc009xtw.1_RNA	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	1796	Interaction with PIN1.				cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						AATTTCAGATTTTAATGGACC	0.284													42	15	---	---	---	---	PASS	A	91533730	A	A	91533730	2	1	112	1	0	0	0	0	0	0	0	1	8287	1829	64	5		5	KIF20B	10	91533730	Silent	SNP	T	TCGA-51-4080-01A-01D-1458-08	16619652	91533730	44001017	183	41542										
ENTPD7	57089	broad.mit.edu	37	chr10	101464369	101464369	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttcaccaccgacaaacacgaGcctcagctccattggacttg	7	15	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr10:101464369G>A	uc001kqa.3	+	13	1922	c.1744G>A	c.(1744-1746)GCC>ACC	p.A582T	ENTPD7_uc009xwl.2_Missense_Mutation_p.A584T	NM_020354	NP_065087	Q9NQZ7	ENTP7_HUMAN	ectonucleoside triphosphate diphosphohydrolase	582	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	hydrolase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)		ACAAACACGAGCCTCAGCTCC	0.547													27	4	---	---	---	---	PASS	A	101464369	A	A	101464369	3	1	112	1	0	0	0	0	1	0	0	0	5144	971	34	3	1790	3	ENTPD7	10	101464369	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	9930639	101464369	34070378	184	41543										
C10orf118	55088	broad.mit.edu	37	chr10	115905426	115905426	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttttctcaagtgtctcttttTcctttcgaagatctaaagat	5	8	3	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr10:115905426T>C	uc001lbb.1	-	5	1635	c.983A>G	c.(982-984)GAA>GGA	p.E328G	C10orf118_uc009xyd.1_5'Flank|C10orf118_uc001lbc.1_Missense_Mutation_p.E328G|C10orf118_uc009xye.1_RNA	NM_018017	NP_060487	Q7Z3E2	CJ118_HUMAN	CTCL tumor antigen L14-2	328	Potential.									ovary(2)	2		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0161)|all cancers(201;0.0397)		TGTCTCTTTTTCCTTTCGAAG	0.373													4	93	---	---	---	---	PASS	C	115905426	C	C	115905426	3	2	112	1	0	0	0	0	1	0	0	0	1587	1783	62	5	1761	5	C10orf118	10	115905426	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	14441057	115905426	19629321	185	41544										
TRIM21	6737	broad.mit.edu	37	chr11	4411401	4411401	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgccctctctggcctcctggCtgatttctttaaggttgttc	9	12	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:4411401C>A	uc001lyy.1	-	2	352	c.239G>T	c.(238-240)AGC>ATC	p.S80I		NM_003141	NP_003132	P19474	RO52_HUMAN	tripartite motif protein 21	80					cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein deubiquitination|positive regulation of cell cycle|protein autoubiquitination|protein destabilization|protein monoubiquitination|protein polyubiquitination|protein trimerization	cytoplasmic mRNA processing body|nucleus	DNA binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;2.08e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0851)|LUSC - Lung squamous cell carcinoma(625;0.194)		GGCCTCCTGGCTGATTTCTTT	0.567													61	73	---	---	---	---	PASS	A	4411401	A	A	4411401	3	1	112	1	0	0	0	0	1	0	0	0	16492	797	28	3	1212	3	TRIM21	11	4411401	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08		4411401	130595115	186	41545										
OR51D1	390038	broad.mit.edu	37	chr11	4661500	4661500	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtggccaagattggactatcTgccctgaccagggggtttgt	14	9	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:4661500T>A	uc010qyk.1	+	1	480	c.480T>A	c.(478-480)TCT>TCA	p.S160S		NM_001004751	NP_001004751	Q8NGF3	O51D1_HUMAN	olfactory receptor, family 51, subfamily D,	160	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;2.74e-13)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|GBM - Glioblastoma multiforme(2;0.0841)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTGGACTATCTGCCCTGACCA	0.532													113	127	---	---	---	---	PASS	A	4661500	A	A	4661500	2	1	112	1	0	0	0	0	0	0	0	1	11093	1567	55	5		5	OR51D1	11	4661500	Silent	SNP	T	TCGA-51-4080-01A-01D-1458-08	250099	4661500	130345016	187	41546										
OR51T1	401665	broad.mit.edu	37	chr11	4903252	4903252	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgtctctacaccattgccctCttgggaaacagtatgatctt	7	11	3	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:4903252C>G	uc010qyp.1	+	1	204	c.204C>G	c.(202-204)CTC>CTG	p.L68L		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	41	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		CCATTGCCCTCTTGGGAAACA	0.473													92	142	---	---	---	---	PASS	G	4903252	G	G	4903252	2	3	112	1	0	0	0	0	0	0	0	1	11106	900	32	2		2	OR51T1	11	4903252	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	241752	4903252	130103264	188	41547										
OR52E4	390081	broad.mit.edu	37	chr11	5905792	5905792	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctaggaatcttctggttcaaCctccaagagatcagctttgg	9	10	4	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:5905792C>A	uc010qzs.1	+	1	270	c.270C>A	c.(268-270)AAC>AAA	p.N90K	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCTGGTTCAACCTCCAAGAGA	0.463													112	114	---	---	---	---	PASS	A	5905792	A	A	5905792	3	1	112	1	0	0	0	0	1	0	0	0	11116	506	18	3	272	3	OR52E4	11	5905792	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1002540	5905792	129100724	189	41548										
CNGA4	1262	broad.mit.edu	37	chr11	6265355	6265355	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgaacaagttggacgtgaatGctgaggcagctgagatcgcc	14	8	0	4			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:6265355G>T	uc001mco.2	+	6	1551	c.1444G>T	c.(1444-1446)GCT>TCT	p.A482S	CNGA4_uc010raa.1_3'UTR|CNGA4_uc001mcn.2_3'UTR	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	482	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGACGTGAATGCTGAGGCAGC	0.567													63	60	---	---	---	---	PASS	T	6265355	T	T	6265355	3	4	112	1	0	0	0	0	1	0	0	0	3599	1319	46	3	1466	3	CNGA4	11	6265355	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	359563	6265355	128741161	190	41549										
APBB1	322	broad.mit.edu	37	chr11	6423356	6423356	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cacacgcggatgctgatgatGggttgggcgtgcagcagtgc	17	9	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:6423356G>C	uc001mdb.1	-	8	1438	c.1338C>G	c.(1336-1338)CCC>CCG	p.P446P	APBB1_uc001mcz.1_Silent_p.P67P|APBB1_uc001mdd.3_Silent_p.P226P|APBB1_uc001mda.2_5'UTR|APBB1_uc001mdc.1_Silent_p.P446P|APBB1_uc010rab.1_5'Flank|APBB1_uc010rac.1_5'Flank|APBB1_uc010rad.1_Silent_p.P67P|APBB1_uc010rae.1_Silent_p.P211P|APBB1_uc010raf.1_3'UTR|APBB1_uc009yfa.2_Silent_p.P187P|APBB1_uc009yey.2_Silent_p.P187P|APBB1_uc010rag.1_Silent_p.P187P|APBB1_uc009yfb.2_Silent_p.P187P|APBB1_uc001mde.2_Silent_p.P187P|APBB1_uc010rah.1_Silent_p.P187P	NM_001164	NP_001155	O00213	APBB1_HUMAN	amyloid beta A4 precursor protein-binding,	446	PID 1.				apoptosis|axonogenesis|cell cycle arrest|histone H4 acetylation|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of thymidylate synthase biosynthetic process|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|signal transduction|transcription, DNA-dependent	cytoplasm|growth cone|lamellipodium|nucleus|plasma membrane|synapse	beta-amyloid binding|chromatin binding|histone binding|proline-rich region binding|transcription factor binding			breast(2)	2		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;6.49e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		TGCTGATGATGGGTTGGGCGT	0.597													21	29	---	---	---	---	PASS	C	6423356	C	C	6423356	2	2	112	1	0	0	0	0	0	0	0	1	759	1335	47	4		4	APBB1	11	6423356	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	158001	6423356	128583160	191	41550										
SLC17A6	57084	broad.mit.edu	37	chr11	22398990	22398990	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	atgtcttcctgatcgctgccCtagtccactatggtggagtt	10	11	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:22398990C>A	uc001mqk.2	+	12	1866	c.1453C>A	c.(1453-1455)CTA>ATA	p.L485I		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	485	Helical; (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						GATCGCTGCCCTAGTCCACTA	0.458													43	57	---	---	---	---	PASS	A	22398990	A	A	22398990	3	1	112	1	0	0	0	0	1	0	0	0	14421	680	24	3	1499	3	SLC17A6	11	22398990	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	15975634	22398990	112607526	192	41551										
LRRC4C	57689	broad.mit.edu	37	chr11	40136857	40136857	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gattgggaggagtgttacacCgggcacaacaagctgtgttc	14	8	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:40136857C>A	uc001mxa.1	-	2	2950	c.986G>T	c.(985-987)CGG>CTG	p.R329L	LRRC4C_uc001mxc.1_Missense_Mutation_p.R325L|LRRC4C_uc001mxd.1_Missense_Mutation_p.R325L|LRRC4C_uc001mxb.1_Missense_Mutation_p.R325L	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	329	LRRCT.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				AGTGTTACACCGGGCACAACA	0.502													30	50	---	---	---	---	PASS	A	40136857	A	A	40136857	3	1	112	1	0	0	0	0	1	0	0	0	9008	652	23	1	940	1	LRRC4C	11	40136857	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	17737867	40136857	94869659	193	41552										
OR5D14	219436	broad.mit.edu	37	chr11	55563899	55563899	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcaaccccatgctgaaccctCtgatctacagcctaaggaat	6	14	3	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:55563899C>A	uc010rim.1	+	1	868	c.868C>A	c.(868-870)CTG>ATG	p.L290M		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	290	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				GCTGAACCCTCTGATCTACAG	0.413													35	62	---	---	---	---	PASS	A	55563899	A	A	55563899	3	1	112	1	0	0	0	0	1	0	0	0	11155	912	32	2	870	2	OR5D14	11	55563899	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	15427042	55563899	79442617	194	41553										
OR5T2	219464	broad.mit.edu	37	chr11	55999874	55999874	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cagaatacatcttcagaatgGccaacagaatcaaaccatag	6	10	3	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:55999874G>A	uc010rjc.1	-	1	788	c.788C>T	c.(787-789)GCC>GTC	p.A263V		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	263	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CTTCAGAATGGCCAACAGAAT	0.443													108	156	---	---	---	---	PASS	A	55999874	A	A	55999874	3	1	112	1	0	0	0	0	1	0	0	0	11182	1203	42	3	290	3	OR5T2	11	55999874	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	435975	55999874	79006642	195	41554										
MS4A8B	83661	broad.mit.edu	37	chr11	60482867	60482867	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	caccaccaagttattccagtGagatccaagcaaataagtaa	6	10	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:60482867G>T	uc001npv.2	+	7	936	c.733G>T	c.(733-735)GAG>TAG	p.E245*		NM_031457	NP_113645	Q9BY19	M4A8B_HUMAN	membrane-spanning 4-domains, subfamily A, member	245	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						TTATTCCAGTGAGATCCAAGC	0.483													14	39	---	---	---	---	PASS	T	60482867	T	T	60482867	4	4	112	1	0	0	0	0	0	1	0	0	9867	1291	45	2	755	2	MS4A8B	11	60482867	Nonsense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	4482993	60482867	74523649	196	41555										
VWCE	220001	broad.mit.edu	37	chr11	61042035	61042035	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cagccccgtctgcgtaccacCggccgtggaaatagcatctc	10	16	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:61042035C>G	uc001nra.2	-	12	1796	c.1517G>C	c.(1516-1518)CGG>CCG	p.R506P	VWCE_uc001nrb.2_RNA	NM_152718	NP_689931	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains	506	VWFC 3.					extracellular region	calcium ion binding			ovary(1)	1						TGCGTACCACCGGCCGTGGAA	0.562													35	79	---	---	---	---	PASS	G	61042035	G	G	61042035	3	3	112	1	0	0	0	0	1	0	0	0	17242	652	23	4	1386	4	VWCE	11	61042035	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	559168	61042035	73964481	197	41556										
MAP4K2	5871	broad.mit.edu	37	chr11	64568595	64568595	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agcctcaccagtagggagtcCcaatgaaagacctcctcttg	9	13	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:64568595C>A	uc001obh.2	-	8	610	c.518G>T	c.(517-519)GGG>GTG	p.G173V	MAP4K2_uc001obi.2_Missense_Mutation_p.G173V	NM_004579	NP_004570	Q12851	M4K2_HUMAN	mitogen-activated protein kinase kinase kinase	173	Protein kinase.				activation of JUN kinase activity|immune response|positive regulation of JNK cascade|vesicle targeting	basolateral plasma membrane|Golgi membrane|soluble fraction	ATP binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(1)|pancreas(1)	2						GTAGGGAGTCCCAATGAAAGA	0.642													41	68	---	---	---	---	PASS	A	64568595	A	A	64568595	3	1	112	1	0	0	0	0	1	0	0	0	9260	623	22	3	2044	3	MAP4K2	11	64568595	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	3526560	64568595	70437921	198	41557										
PDE2A	5138	broad.mit.edu	37	chr11	72288475	72288475	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	attgatgggggccctagtgcCatccagatcaggcacctcgt	12	12	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:72288475C>T	uc010rrc.1	-	31	3022	c.2779G>A	c.(2779-2781)GGC>AGC	p.G927S	PDE2A_uc001oso.2_Missense_Mutation_p.G906S|PDE2A_uc010rra.1_Missense_Mutation_p.G920S|PDE2A_uc001osn.2_Missense_Mutation_p.G671S|PDE2A_uc010rrb.1_Missense_Mutation_p.G918S|PDE2A_uc010rrd.1_Missense_Mutation_p.G812S	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	927					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	GCCCTAGTGCCATCCAGATCA	0.612													50	56	---	---	---	---	PASS	T	72288475	T	T	72288475	3	4	112	1	0	0	0	0	1	0	0	0	11636	594	21	3	50	3	PDE2A	11	72288475	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	7719880	72288475	62718041	199	41558										
ARRB1	408	broad.mit.edu	37	chr11	74977313	74977313	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agtcctcaaatacaatgtcgTcatcactggtgggagagaca	10	9	3	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:74977313T>A	uc001owe.1	-	16	1373	c.1151A>T	c.(1150-1152)GAC>GTC	p.D384V	ARRB1_uc001owf.1_Missense_Mutation_p.D376V	NM_004041	NP_004032	P49407	ARRB1_HUMAN	arrestin beta 1 isoform A	384	Interaction with TRAF6.				G-protein coupled receptor internalization|histone H4 acetylation|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|platelet activation|positive regulation of ERK1 and ERK2 cascade|positive regulation of histone acetylation|positive regulation of Rho protein signal transduction|positive regulation of transcription from RNA polymerase II promoter|post-Golgi vesicle-mediated transport|proteasomal ubiquitin-dependent protein catabolic process|protein transport|protein ubiquitination|signal transduction|stress fiber assembly|transcription from RNA polymerase II promoter	chromatin|coated pit|cytoplasmic vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|membrane fraction|nucleus|plasma membrane|pseudopodium|soluble fraction	angiotensin receptor binding|enzyme inhibitor activity|GTPase activator activity|insulin-like growth factor receptor binding|transcription factor binding|transcription regulatory region DNA binding|ubiquitin protein ligase binding			breast(2)	2						TACAATGTCGTCATCACTGGT	0.527													45	44	---	---	---	---	PASS	A	74977313	A	A	74977313	3	1	112	1	0	0	0	0	1	0	0	0	980	1667	58	5	109	5	ARRB1	11	74977313	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	2688838	74977313	60029203	200	41559										
MYO7A	4647	broad.mit.edu	37	chr11	76924036	76924036	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tccctgagatcctcctaattGccatcaacaagtatggggtc	8	12	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:76924036G>A	uc001oyb.2	+	47	6666	c.6394G>A	c.(6394-6396)GCC>ACC	p.A2132T	MYO7A_uc001oyc.2_Missense_Mutation_p.A2092T|MYO7A_uc001oye.2_RNA	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	2132	FERM 2.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						CCTCCTAATTGCCATCAACAA	0.517													3	8	---	---	---	---	PASS	A	76924036	A	A	76924036	3	1	112	1	0	0	0	0	1	0	0	0	10082	1319	46	3	6610	3	MYO7A	11	76924036	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1946723	76924036	58082480	201	41560										
FAM76B	143684	broad.mit.edu	37	chr11	95522558	95522558	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctcccggagcccacggacctTgcagagctgctggccctggg	14	16	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:95522558T>G	uc001pfn.2	-	1	397	c.85A>C	c.(85-87)AAG>CAG	p.K29Q	CEP57_uc001pfo.1_5'Flank|CEP57_uc010ruh.1_5'Flank|CEP57_uc010rui.1_5'Flank|CEP57_uc009ywn.1_5'Flank|CEP57_uc001pfp.1_5'Flank|CEP57_uc001pfq.1_5'Flank|CEP57_uc001pfr.1_5'Flank|FAM76B_uc001pfm.2_RNA	NM_144664	NP_653265	Q5HYJ3	FA76B_HUMAN	hypothetical protein LOC143684	29											0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CCACGGACCTTGCAGAGCTGC	0.701													5	13	---	---	---	---	PASS	G	95522558	G	G	95522558	3	3	112	1	0	0	0	0	1	0	0	0	5625	1821	63	5	974	5	FAM76B	11	95522558	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	18598522	95522558	39483958	202	41561										
CNTN5	53942	broad.mit.edu	37	chr11	99715950	99715950	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcagtgtttagcaaccaacaCtgtggggagtattcttagta	10	7	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:99715950C>A	uc001pga.2	+	6	872	c.533C>A	c.(532-534)ACT>AAT	p.T178N	CNTN5_uc009ywv.1_Missense_Mutation_p.T178N|CNTN5_uc001pfz.2_Missense_Mutation_p.T178N|CNTN5_uc001pgb.2_Missense_Mutation_p.T104N	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	178	Ig-like C2-type 1.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		GCAACCAACACTGTGGGGAGT	0.348													88	102	---	---	---	---	PASS	A	99715950	A	A	99715950	3	1	112	1	0	0	0	0	1	0	0	0	3644	565	20	3	547	3	CNTN5	11	99715950	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	4193392	99715950	35290566	203	41562										
CNTN5	53942	broad.mit.edu	37	chr11	100169925	100169925	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agagtttcagaatggggaagGcttcggctatattgtggctt	14	5	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:100169925G>T	uc001pga.2	+	20	2756	c.2417G>T	c.(2416-2418)GGC>GTC	p.G806V	CNTN5_uc001pfz.2_Missense_Mutation_p.G806V|CNTN5_uc001pgb.2_Missense_Mutation_p.G732V|CNTN5_uc010ruk.1_Missense_Mutation_p.G77V	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	806	Fibronectin type-III 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		AATGGGGAAGGCTTCGGCTAT	0.363													24	28	---	---	---	---	PASS	T	100169925	T	T	100169925	3	4	112	1	0	0	0	0	1	0	0	0	3644	1203	42	3	2487	3	CNTN5	11	100169925	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	453975	100169925	34836591	204	41563										
KIAA1826	84437	broad.mit.edu	37	chr11	105880813	105880813	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tggtatgacggatgacaacaTttcttcctcctcctcaattt	6	11	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:105880813T>C	uc001piy.2	-	3	660	c.487A>G	c.(487-489)ATG>GTG	p.M163V	KIAA1826_uc001piz.2_Missense_Mutation_p.M163V	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	163						nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		GATGACAACATTTCTTCCTCC	0.368													68	81	---	---	---	---	PASS	C	105880813	C	C	105880813	3	2	112	1	0	0	0	0	1	0	0	0	8260	1493	52	5	554	5	KIAA1826	11	105880813	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	5710888	105880813	29125703	205	41564										
ELMOD1	55531	broad.mit.edu	37	chr11	107502374	107502375	+	Frame_Shift_Ins	INS	-	A	A													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tagaagatatcatggaactgINSaaaaaaattaatcctgacgt							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:107502374_107502375insA	uc010rvs.1	+	5	665_666	c.261_262insA	c.(259-264)CTGAAAfs	p.L87fs	ELMOD1_uc001pjm.2_Frame_Shift_Ins_p.L87fs|ELMOD1_uc010rvt.1_Frame_Shift_Ins_p.L81fs	NM_018712	NP_061182	Q8N336	ELMD1_HUMAN	ELMO/CED-12 domain containing 1 isoform 1	87_88					phagocytosis	cytoskeleton	GTPase activator activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00304)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Epithelial(105;0.00027)|all cancers(92;0.00481)		TCATGGAACTGAAAAAAATTAA	0.356													10	5	---	---	---	---		A	107502375	A	A	107502374	7	5	112	1	0	1	1	0	0	0	0	0	5068	1277	45	0	275	0	ELMOD1	11	107502374	Frame_Shift_Ins	INS	-	TCGA-51-4080-01A-01D-1458-08	1621561	107502374	27504142	206	41565										
NPAT	4863	broad.mit.edu	37	chr11	108044245	108044245	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcggtacatttgaagacaaaGagttcttttcaatccctata	6	8	2	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr11:108044245G>T	uc001pjz.3	-	13	1568	c.1466C>A	c.(1465-1467)TCT>TAT	p.S489Y	NPAT_uc001pka.2_Missense_Mutation_p.S284Y	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	489					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		TGAAGACAAAGAGTTCTTTTC	0.373													137	187	---	---	---	---	PASS	T	108044245	T	T	108044245	3	4	112	1	0	0	0	0	1	0	0	0	10566	942	33	2	2841	2	NPAT	11	108044245	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	541871	108044245	26962271	207	41566										
ERC1	23085	broad.mit.edu	37	chr12	1137525	1137525	+	Missense_Mutation	SNP	G	T	T													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gcgagagataacacaatcatGgatctgcagacacagctgaa							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:1137525G>T	uc001qjb.2	+	2	697	c.456G>T	c.(454-456)ATG>ATT	p.M152I	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.M152I|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.M152I	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	152	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			ACACAATCATGGATCTGCAGA	0.453													66	90	---	---	---	---	PASS	T	1137525	T	T	1137525	3	4	112	1	0	0	0	0	1	0	0	0	5210	1348	47	3	458	3	ERC1	12	1137525	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08		1137525	132714370	208	41567	776	2								
ERC1	23085	broad.mit.edu	37	chr12	1137526	1137526	+	Missense_Mutation	SNP	G	T	T													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cgagagataacacaatcatgGatctgcagacacagctgaag							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:1137526G>T	uc001qjb.2	+	2	698	c.457G>T	c.(457-459)GAT>TAT	p.D153Y	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.D153Y|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.D153Y	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	153	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			CACAATCATGGATCTGCAGAC	0.448													66	89	---	---	---	---	PASS	T	1137526	T	T	1137526	3	4	112	1	0	0	0	0	1	0	0	0	5210	1174	41	2	459	2	ERC1	12	1137526	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1	1137526	132714369	209	41568	776	2								
DPPA3	359787	broad.mit.edu	37	chr12	7868830	7868830	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	caaacaaggagcctaagggaGttaaggtaagtataattttt	10	4	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:7868830G>T	uc001qtf.2	+	3	442	c.364G>T	c.(364-366)GTT>TTT	p.V122F		NM_199286	NP_954980	Q6W0C5	DPPA3_HUMAN	stella	122						cytoplasm|nucleus					0				Kidney(36;0.0887)		GCCTAAGGGAGTTAAGGTAAG	0.289													7	18	---	---	---	---	PASS	T	7868830	T	T	7868830	3	4	112	1	0	0	0	0	1	0	0	0	4735	1029	36	3	374	3	DPPA3	12	7868830	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	6731304	7868830	125983065	210	41569										
KLRB1	3820	broad.mit.edu	37	chr12	9750731	9750731	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	atccaaaacagaattgctttGtcacgtatcaggttctgtgt	8	8	3	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:9750731G>T	uc010sgt.1	-	5	503	c.441C>A	c.(439-441)GAC>GAA	p.D147E		NM_002258	NP_002249	Q12918	KLRB1_HUMAN	killer cell lectin-like receptor subfamily B,	147	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	sugar binding|transmembrane receptor activity				0						GAATTGCTTTGTCACGTATCA	0.279													24	33	---	---	---	---	PASS	T	9750731	T	T	9750731	3	4	112	1	0	0	0	0	1	0	0	0	8414	1368	48	3	243	3	KLRB1	12	9750731	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1881901	9750731	124101164	211	41570										
MGST1	4257	broad.mit.edu	37	chr12	16507203	16507203	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aaaaatggttgacctcacccAggtaatggatgatgaagtat	10	6	1	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:16507203A>T	uc001rdf.2	+	2	82	c.17A>T	c.(16-18)CAG>CTG	p.Q6L	MGST1_uc001rdg.2_Missense_Mutation_p.Q6L|MGST1_uc009zih.1_Intron|MGST1_uc001rdh.2_Missense_Mutation_p.Q6L|MGST1_uc001rdi.2_Missense_Mutation_p.Q6L	NM_145792	NP_665735	P10620	MGST1_HUMAN	microsomal glutathione S-transferase 1	6	Lumenal (By similarity).				protein homotrimerization|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane	glutathione transferase activity				0		Hepatocellular(102;0.121)			Glutathione(DB00143)	GACCTCACCCAGGTAATGGAT	0.323													35	54	---	---	---	---	PASS	T	16507203	T	T	16507203	3	4	112	1	0	0	0	0	1	0	0	0	9560	188	7	5	19	5	MGST1	12	16507203	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	6756472	16507203	117344692	212	41571										
CNTN1	1272	broad.mit.edu	37	chr12	41316152	41316152	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	acaaccctgacaaacagaaaGatgctggaatatactactgt	7	9	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:41316152G>A	uc001rmm.1	+	5	435	c.322G>A	c.(322-324)GAT>AAT	p.D108N	CNTN1_uc009zjy.1_Missense_Mutation_p.D108N|CNTN1_uc001rmn.1_Missense_Mutation_p.D97N|CNTN1_uc001rmo.2_Missense_Mutation_p.D108N	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	108	Ig-like C2-type 1.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				CAAACAGAAAGATGCTGGAAT	0.393													66	87	---	---	---	---	PASS	A	41316152	A	A	41316152	3	1	112	1	0	0	0	0	1	0	0	0	3640	942	33	2	336	2	CNTN1	12	41316152	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	24808949	41316152	92535743	213	41572										
COL2A1	1280	broad.mit.edu	37	chr12	48368603	48368603	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgttgcagaaaaccttcatgGcgtccaaggtgcagccttgg	12	10	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:48368603G>C	uc001rqu.2	-	52	4110	c.3929C>G	c.(3928-3930)GCC>GGC	p.A1310G	COL2A1_uc001rqt.2_Missense_Mutation_p.A91G|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.A1241G	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1310	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	AACCTTCATGGCGTCCAAGGT	0.557													86	99	---	---	---	---	PASS	C	48368603	C	C	48368603	3	2	112	1	0	0	0	0	1	0	0	0	3687	1203	42	4	546	4	COL2A1	12	48368603	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	7052451	48368603	85483292	214	41573										
TENC1	23371	broad.mit.edu	37	chr12	53454219	53454219	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gccggtgtcctggagggaggGccccagtgggcacagcacac	17	13	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:53454219G>A	uc001sbp.2	+	19	2783	c.2648G>A	c.(2647-2649)GGC>GAC	p.G883D	TENC1_uc001sbl.2_Missense_Mutation_p.G759D|TENC1_uc001sbn.2_Missense_Mutation_p.G893D|TENC1_uc001sbq.2_Missense_Mutation_p.G281D|TENC1_uc001sbr.2_RNA|TENC1_uc009zmr.2_Missense_Mutation_p.G378D|TENC1_uc001sbs.2_5'Flank	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	883	Pro-rich.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						TGGAGGGAGGGCCCCAGTGGG	0.637													42	44	---	---	---	---	PASS	A	53454219	A	A	53454219	3	1	112	1	0	0	0	0	1	0	0	0	15755	1203	42	3	2831	3	TENC1	12	53454219	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	5085616	53454219	80397676	215	41574										
PDE1B	5153	broad.mit.edu	37	chr12	54964082	54964082	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	accaggcagcagatgaccatGccctgaggaccattgttttt	10	11	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:54964082G>A	uc001sgd.1	+	6	701	c.535G>A	c.(535-537)GCC>ACC	p.A179T	PDE1B_uc010soz.1_Missense_Mutation_p.A42T|PDE1B_uc010spa.1_Missense_Mutation_p.A138T|PDE1B_uc001sgf.2_Missense_Mutation_p.A42T|PDE1B_uc001sge.2_Missense_Mutation_p.A159T|PDE1B_uc009znq.2_5'UTR	NM_000924	NP_000915	Q01064	PDE1B_HUMAN	phosphodiesterase 1B isoform 1	179					activation of phospholipase C activity|apoptosis|nerve growth factor receptor signaling pathway|platelet activation	cytosol|nucleus	3',5'-cyclic-AMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						AGATGACCATGCCCTGAGGAC	0.498													90	102	---	---	---	---	PASS	A	54964082	A	A	54964082	3	1	112	1	0	0	0	0	1	0	0	0	11634	1319	46	3	610	3	PDE1B	12	54964082	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1509863	54964082	78887813	216	41575										
PPFIA2	8499	broad.mit.edu	37	chr12	82147808	82147808	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtctcggtcatagatgacatCctgaagtctttgctgggcaa	11	9	3	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:82147808C>A	uc001szo.1	-	3	354	c.193G>T	c.(193-195)GAT>TAT	p.D65Y	PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(3)|lung(2)|pancreas(1)	6						TAGATGACATCCTGAAGTCTT	0.488													26	21	---	---	---	---	PASS	A	82147808	A	A	82147808	3	1	112	1	0	0	0	0	1	0	0	0	12310	855	30	2	3700	2	PPFIA2	12	82147808	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	27183726	82147808	51704087	217	41576										
SLC17A8	246213	broad.mit.edu	37	chr12	100796198	100796200	+	In_Frame_Del	DEL	GAG	-	-													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctcatccaacaatatccaatGaggagaagacctatatagag							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:100796198_100796200delGAG	uc010svi.1	+	7	1157_1159	c.844_846delGAG	c.(844-846)GAGdel	p.E283del	SLC17A8_uc009ztx.2_In_Frame_Del_p.E283del	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	283	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						AATATCCAATGAGGAGAAGACCT	0.409													52	35	---	---	---	---		-	100796200	-	-	100796198	7	5	112	1	0	1	0	1	0	0	0	0	14423	1291	45	0	870	0	SLC17A8	12	100796198	In_Frame_Del	DEL	GAG	TCGA-51-4080-01A-01D-1458-08	18648390	100796198	33055697	218	41577										
UBE3B	89910	broad.mit.edu	37	chr12	109971309	109971309	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agacccccgctcctgggattCgcctacctcaagcctccatt	7	18	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:109971309C>T	uc001top.2	+	27	3564	c.2961C>T	c.(2959-2961)TTC>TTT	p.F987F	UBE3B_uc001toq.2_Silent_p.F987F|UBE3B_uc001tos.2_Silent_p.F414F|UBE3B_uc001tot.2_Silent_p.F105F|UBE3B_uc010sxp.1_Silent_p.F105F	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	987	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						TCCTGGGATTCGCCTACCTCA	0.642													16	140	---	---	---	---	PASS	T	109971309	T	T	109971309	2	4	112	1	0	0	0	0	0	0	0	1	16877	883	31	2		2	UBE3B	12	109971309	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	9175111	109971309	23880586	219	41578										
TCTN1	79600	broad.mit.edu	37	chr12	111052162	111052162	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggccccccgggactcccaggGctccagggccctcctccggc	13	21	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:111052162G>A	uc009zvs.2	+	1	283	c.175G>A	c.(175-177)GCT>ACT	p.A59T	TCTN1_uc010syb.1_Missense_Mutation_p.A59T|TCTN1_uc009zvr.1_RNA|TCTN1_uc001trl.2_RNA|TCTN1_uc001trm.2_5'UTR|TCTN1_uc010syc.1_RNA|TCTN1_uc001tro.2_RNA|TCTN1_uc001trp.3_Missense_Mutation_p.A59T|TCTN1_uc001trn.3_Missense_Mutation_p.A59T|TCTN1_uc001tri.2_5'UTR|TCTN1_uc001trj.1_5'UTR|TCTN1_uc001trk.3_RNA	NM_001082537	NP_001076006	Q2MV58	TECT1_HUMAN	tectonic family member 1 isoform 2	59					multicellular organismal development	extracellular region					0						GACTCCCAGGGCTCCAGGGCC	0.687													12	13	---	---	---	---	PASS	A	111052162	A	A	111052162	3	1	112	1	0	0	0	0	1	0	0	0	15719	1203	42	3	177	3	TCTN1	12	111052162	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1080853	111052162	22799733	220	41579										
DNAH10	196385	broad.mit.edu	37	chr12	124330637	124330637	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tggctacggctacgagtacaTgggcctgaacggcaggctgg	16	10	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:124330637T>C	uc001uft.3	+	31	5421	c.5396T>C	c.(5395-5397)ATG>ACG	p.M1799T		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1799	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)		TACGAGTACATGGGCCTGAAC	0.577													32	51	---	---	---	---	PASS	C	124330637	C	C	124330637	3	2	112	1	0	0	0	0	1	0	0	0	4598	1464	51	5	5518	5	DNAH10	12	124330637	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	13278475	124330637	9521258	221	41580										
TMEM132D	121256	broad.mit.edu	37	chr12	129566527	129566527	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gctggtactgcagggtgcagCcgcggcccctccgctcatca	13	16	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr12:129566527C>A	uc009zyl.1	-	7	2028	c.1700G>T	c.(1699-1701)GGC>GTC	p.G567V	TMEM132D_uc001uia.2_Missense_Mutation_p.G105V	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	567	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		CAGGGTGCAGCCGCGGCCCCT	0.642													42	65	---	---	---	---	PASS	A	129566527	A	A	129566527	3	1	112	1	0	0	0	0	1	0	0	0	16044	739	26	3	1611	3	TMEM132D	12	129566527	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	5235890	129566527	4285368	222	41581										
ATP8A2	51761	broad.mit.edu	37	chr13	26411317	26411317	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gcagattttcaccgctttgcCgcccttcactctgggaatct	8	14	4	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr13:26411317C>G	uc001uqk.2	+	29	2913	c.2771C>G	c.(2770-2772)CCG>CGG	p.P924R	ATP8A2_uc010tdi.1_Missense_Mutation_p.P859R|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.P474R	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	884	Helical; (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		ACCGCTTTGCCGCCCTTCACT	0.498													61	96	---	---	---	---	PASS	G	26411317	G	G	26411317	3	3	112	1	0	0	0	0	1	0	0	0	1193	652	23	4	2885	4	ATP8A2	13	26411317	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08		26411317	88758561	223	41582										
BRCA2	675	broad.mit.edu	37	chr13	32914165	32914165	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgccaaacgaaaattatggcAggttgttacgaggcattgga	12	6	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr13:32914165A>T	uc001uub.1	+	11	5900	c.5673A>T	c.(5671-5673)GCA>GCT	p.A1891A		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1891					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AAATTATGGCAGGTTGTTACG	0.323			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			14	48	---	---	---	---	PASS	T	32914165	T	T	32914165	2	4	112	1	0	0	0	0	0	0	0	1	1499	175	7	5		5	BRCA2	13	32914165	Silent	SNP	A	TCGA-51-4080-01A-01D-1458-08	6502848	32914165	82255713	224	41583										
LCP1	3936	broad.mit.edu	37	chr13	46725120	46725120	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgttgcagcctgcattttccAggtggtaattagcccacctc	9	12	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr13:46725120A>T	uc001vaz.3	-	8	959	c.833T>A	c.(832-834)CTG>CAG	p.L278Q	LCP1_uc001vba.3_Missense_Mutation_p.L278Q	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	278	CH 2.|Actin-binding 1.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		TGCATTTTCCAGGTGGTAATT	0.473			T	BCL6	NHL 								79	111	---	---	---	---	PASS	T	46725120	T	T	46725120	3	4	112	1	0	0	0	0	1	0	0	0	8691	188	7	5	1086	5	LCP1	13	46725120	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	13810955	46725120	68444758	225	41584										
INTS6	26512	broad.mit.edu	37	chr13	51948489	51948489	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	atacaccgacgtcttttaggGatcccttgcatatttggttc	8	10	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr13:51948489G>C	uc001vfk.2	-	15	2573	c.1959C>G	c.(1957-1959)ATC>ATG	p.I653M	INTS6_uc001vfi.2_Missense_Mutation_p.I337M|INTS6_uc001vfj.2_Missense_Mutation_p.I640M|INTS6_uc001vfl.2_Missense_Mutation_p.I475M	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	653					snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)		GTCTTTTAGGGATCCCTTGCA	0.428													164	190	---	---	---	---	PASS	C	51948489	C	C	51948489	3	2	112	1	0	0	0	0	1	0	0	0	7782	1164	41	2	720	2	INTS6	13	51948489	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	5223369	51948489	63221389	226	41585										
HNRNPA1L2	144983	broad.mit.edu	37	chr13	53217355	53217355	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	atatggtggcagtggggatgGctataatggatttggtaatg	16	2	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr13:53217355G>T	uc001vgx.1	+	7	1801	c.728G>T	c.(727-729)GGC>GTC	p.G243V	HNRNPA1L2_uc001vgy.1_Missense_Mutation_p.G243V|HNRNPA1L2_uc001vgz.1_Missense_Mutation_p.G243V	NM_001011724	NP_001011724	Q32P51	RA1L2_HUMAN	heterogeneous nuclear ribonucleoprotein A1-like	243	Gly-rich.				mRNA processing|mRNA transport|RNA splicing	cytoplasm|spliceosomal complex	nucleotide binding|RNA binding				0						agtggggatggctataatgga	0.095													14	15	---	---	---	---	PASS	T	53217355	T	T	53217355	3	4	112	1	0	0	0	0	1	0	0	0	7258	1203	42	3	730	3	HNRNPA1L2	13	53217355	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1268866	53217355	61952523	227	41586										
KLHL1	57626	broad.mit.edu	37	chr13	70514254	70514254	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gaattcctaaacagttagatGgatgcaaaagcttcatgagg	10	6	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr13:70514254G>T	uc001vip.2	-	4	1726	c.932C>A	c.(931-933)CCA>CAA	p.P311Q	KLHL1_uc010thm.1_Missense_Mutation_p.P250Q	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	311					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		ACAGTTAGATGGATGCAAAAG	0.468													35	28	---	---	---	---	PASS	T	70514254	T	T	70514254	3	4	112	1	0	0	0	0	1	0	0	0	8365	1348	47	3	1346	3	KLHL1	13	70514254	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	17296899	70514254	44655624	228	41587										
MYCBP2	23077	broad.mit.edu	37	chr13	77760039	77760039	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aatttcacaggtatagacacGcaataacctcagacaacagg	7	10	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr13:77760039G>A	uc001vkf.2	-	32	4388	c.4297C>T	c.(4297-4299)CGT>TGT	p.R1433C	MYCBP2_uc010aev.2_Missense_Mutation_p.R837C	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1433					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GTATAGACACGCAATAACCTC	0.373													49	59	---	---	---	---	PASS	A	77760039	A	A	77760039	3	1	112	1	0	0	0	0	1	0	0	0	10018	1087	38	1	9837	1	MYCBP2	13	77760039	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	7245785	77760039	37409839	229	41588										
SLITRK6	84189	broad.mit.edu	37	chr13	86368471	86368471	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgtgagtggtgaatgattttCctgttccaaaagacttcttt	9	6	1	4			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr13:86368471C>A	uc001vll.1	-	2	2632	c.2173G>T	c.(2173-2175)GAA>TAA	p.E725*	SLITRK6_uc010afe.1_Nonsense_Mutation_p.E178*	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	725	Cytoplasmic (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		GAATGATTTTCCTGTTCCAAA	0.393													232	353	---	---	---	---	PASS	A	86368471	A	A	86368471	4	1	112	1	0	0	0	0	0	1	0	0	14747	864	30	2	356	2	SLITRK6	13	86368471	Nonsense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	8608432	86368471	28801407	230	41589										
TMTC4	84899	broad.mit.edu	37	chr13	101287430	101287430	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aaatgggataacgagaaatcCcaggcccagagtaaggatcc	11	9	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr13:101287430C>A	uc001vou.2	-	10	1325	c.1165G>T	c.(1165-1167)GGA>TGA	p.G389*	TMTC4_uc001vot.2_Nonsense_Mutation_p.G408*|TMTC4_uc010tja.1_Nonsense_Mutation_p.G278*|TMTC4_uc001vov.1_Nonsense_Mutation_p.G134*|TMTC4_uc001vow.1_Nonsense_Mutation_p.G172*	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	389	Helical; (Potential).					integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					ACGAGAAATCCCAGGCCCAGA	0.468													12	19	---	---	---	---	PASS	A	101287430	A	A	101287430	4	1	112	1	0	0	0	0	0	1	0	0	16260	632	22	3	1096	3	TMTC4	13	101287430	Nonsense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	14918959	101287430	13882448	231	41590										
NALCN	259232	broad.mit.edu	37	chr13	101759882	101759882	+	Missense_Mutation	SNP	C	A	A													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	acccggcaaaagtttctgaaCctgtgttctcgcccgacaat							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr13:101759882C>A	uc001vox.1	-	22	2724	c.2535G>T	c.(2533-2535)AGG>AGT	p.R845S		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	845	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGTTTCTGAACCTGTGTTCTC	0.507													55	100	---	---	---	---	PASS	A	101759882	A	A	101759882	3	1	112	1	0	0	0	0	1	0	0	0	10148	506	18	3	2773	3	NALCN	13	101759882	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	472452	101759882	13409996	232	41591	777	2								
NALCN	259232	broad.mit.edu	37	chr13	101759883	101759883	+	Missense_Mutation	SNP	C	A	A													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cccggcaaaagtttctgaacCtgtgttctcgcccgacaatg							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr13:101759883C>A	uc001vox.1	-	22	2723	c.2534G>T	c.(2533-2535)AGG>ATG	p.R845M		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	845	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GTTTCTGAACCTGTGTTCTCG	0.507													54	101	---	---	---	---	PASS	A	101759883	A	A	101759883	3	1	112	1	0	0	0	0	1	0	0	0	10148	681	24	3	2774	3	NALCN	13	101759883	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1	101759883	13409995	233	41592	777	2								
COL4A2	1284	broad.mit.edu	37	chr13	111117753	111117753	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aaactgaattttcacacaggGtgatggcatcaagggccctc	10	10	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr13:111117753G>A	uc001vqx.2	+	25	2067	c.1778G>A	c.(1777-1779)GGT>GAT	p.G593D		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	593	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			TTCACACAGGGTGATGGCATC	0.493													60	99	---	---	---	---	PASS	A	111117753	A	A	111117753	3	1	112	1	0	0	0	0	1	0	0	0	3690	1275	44	3	1872	3	COL4A2	13	111117753	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	9357870	111117753	4052125	234	41593										
OR4M1	441670	broad.mit.edu	37	chr14	20249064	20249064	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cctgtgccaacaccttcccaGaggagttagtgatgatctgt	10	11	1	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr14:20249064G>T	uc010tku.1	+	1	583	c.583G>T	c.(583-585)GAG>TAG	p.E195*		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	195	Extracellular (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)		CACCTTCCCAGAGGAGTTAGT	0.468													167	213	---	---	---	---	PASS	T	20249064	T	T	20249064	4	4	112	1	0	0	0	0	0	1	0	0	11075	943	33	2	585	2	OR4M1	14	20249064	Nonsense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08		20249064	87100476	235	41594										
NYNRIN	57523	broad.mit.edu	37	chr14	24877620	24877620	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggaccctttgtggacatgggGaccctccagaacaggggccc	14	13	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr14:24877620G>T	uc001wpf.3	+	3	1062	c.744G>T	c.(742-744)GGG>GGT	p.G248G		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	248					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						TGGACATGGGGACCCTCCAGA	0.592													53	74	---	---	---	---	PASS	T	24877620	T	T	24877620	2	4	112	1	0	0	0	0	0	0	0	1	10796	1161	41	2		2	NYNRIN	14	24877620	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	4628556	24877620	82471920	236	41595										
LRFN5	145581	broad.mit.edu	37	chr14	42356843	42356843	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	caagatctctggtgtatgatAacggaacacttgacattctt	8	8	2	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr14:42356843A>T	uc001wvm.2	+	3	2213	c.1015A>T	c.(1015-1017)AAC>TAC	p.N339Y	LRFN5_uc010ana.2_Missense_Mutation_p.N339Y	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	339	Extracellular (Potential).|Ig-like.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		GGTGTATGATAACGGAACACT	0.448										HNSCC(30;0.082)			86	128	---	---	---	---	PASS	T	42356843	T	T	42356843	3	4	112	1	0	0	0	0	1	0	0	0	8941	362	13	5	1017	5	LRFN5	14	42356843	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	17479223	42356843	64992697	237	41596										
FSCB	84075	broad.mit.edu	37	chr14	44974473	44974473	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	atggaggctgaagctcaagaGgggcctcttctatagaaact	12	8	3	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr14:44974473G>T	uc001wvn.2	-	1	2027	c.1718C>A	c.(1717-1719)CCT>CAT	p.P573H		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	573	Ala-rich.					cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		AAGCTCAAGAGGGGCCTCTTC	0.522													24	47	---	---	---	---	PASS	T	44974473	T	T	44974473	3	4	112	1	0	0	0	0	1	0	0	0	6066	1000	35	3	763	3	FSCB	14	44974473	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	2617630	44974473	62375067	238	41597										
ZFP36L1	677	broad.mit.edu	37	chr14	69256600	69256613	+	Frame_Shift_Del	DEL	GGCTGTCCAGCAGC	-	-													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gggtggggtgatggacgtggGgctgtccagcagcccggtgg							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr14:69256600_69256613delGGCTGTCCAGCAGC	uc001xkh.1	-	2	784_797	c.654_667delGCTGCTGGACAGCC	c.(652-669)GGGCTGCTGGACAGCCCCfs	p.G218fs	ZFP36L1_uc001xki.1_Frame_Shift_Del_p.G218fs	NM_004926	NP_004917	Q07352	TISB_HUMAN	butyrate response factor 1	218_223					regulation of mRNA stability	cytosol|nucleus	DNA binding|mRNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				all cancers(60;0.00203)|BRCA - Breast invasive adenocarcinoma(234;0.00205)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		ATGGACGTGGGGCTGTCCAGCAGCCcggtggcag	0.565											OREG0022753	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	122	58	---	---	---	---		-	69256613	-	-	69256600	7	5	112	1	0	1	0	1	0	0	0	0	17643	1232	43	0	353	0	ZFP36L1	14	69256600	Frame_Shift_Del	DEL	GGCTGTCCAGCAGC	TCGA-51-4080-01A-01D-1458-08	24282127	69256600	38092940	239	41598										
PAPLN	89932	broad.mit.edu	37	chr14	73719481	73719481	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cacccttgcccggagaccaaGcggtgagaccttgccagccc	11	17	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr14:73719481G>A	uc010ttx.1	+	10	1255	c.1092G>A	c.(1090-1092)AAG>AAA	p.K364K	PAPLN_uc001xnw.3_Silent_p.K337K|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Silent_p.K364K	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	364	TSP type-1 3.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		CGGAGACCAAGCGGTGAGACC	0.607													19	167	---	---	---	---	PASS	A	73719481	A	A	73719481	2	1	112	1	0	0	0	0	0	0	0	1	11428	962	34	3		3	PAPLN	14	73719481	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	4462881	73719481	33630059	240	41599										
TECPR2	9895	broad.mit.edu	37	chr14	102916037	102916037	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ataatccatgccactcactcGgtggccacagcagcccaagc	8	16	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr14:102916037G>C	uc001ylw.1	+	14	3295	c.3147G>C	c.(3145-3147)TCG>TCC	p.S1049S	TECPR2_uc010awl.2_Silent_p.S1049S|TECPR2_uc010txx.1_Silent_p.S212S	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1049							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						CCACTCACTCGGTGGCCACAG	0.562													61	71	---	---	---	---	PASS	C	102916037	C	C	102916037	2	2	112	1	0	0	0	0	0	0	0	1	15741	1103	39	4		4	TECPR2	14	102916037	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	29196556	102916037	4433503	241	41600										
ATP10A	57194	broad.mit.edu	37	chr15	25924794	25924794	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctcctcaggacagcctccccTggcgcagaggacatgggggc	14	15	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr15:25924794T>A	uc010ayu.2	-	21	4300	c.4194A>T	c.(4192-4194)CCA>CCT	p.P1398P		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1398	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CAGCCTCCCCTGGCGCAGAGG	0.677													36	58	---	---	---	---	PASS	A	25924794	A	A	25924794	2	1	112	1	0	0	0	0	0	0	0	1	1116	1567	55	5		5	ATP10A	15	25924794	Silent	SNP	T	TCGA-51-4080-01A-01D-1458-08		25924794	76606598	242	41601										
CAPN3	825	broad.mit.edu	37	chr15	42693953	42693953	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cctgatgcagaagaaccggcGgaaggaccggaagctagggg	17	9	0	3	rs121434548		TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr15:42693953G>T	uc001zpn.1	+	11	1775	c.1469G>T	c.(1468-1470)CGG>CTG	p.R490L	CAPN3_uc001zpk.1_Missense_Mutation_p.R263L|CAPN3_uc001zpl.1_Missense_Mutation_p.R403L|CAPN3_uc010udf.1_Missense_Mutation_p.R403L|CAPN3_uc010udg.1_Missense_Mutation_p.R355L|CAPN3_uc001zpo.1_Missense_Mutation_p.R490L|CAPN3_uc001zpp.1_Missense_Mutation_p.R442L|CAPN3_uc001zpq.1_5'Flank	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	490	Domain III.		R -> W (in LGMD2A).|R -> Q (in LGMD2A).		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)		AAGAACCGGCGGAAGGACCGG	0.572													20	23	---	---	---	---	PASS	T	42693953	T	T	42693953	3	4	112	1	0	0	0	0	1	0	0	0	2628	1116	39	1	1563	1	CAPN3	15	42693953	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	16769159	42693953	59837439	243	41602										
SLC12A1	6557	broad.mit.edu	37	chr15	48539555	48539555	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctctgtgcaaggacaacatcTacaaagccctgcagtttttt	7	11	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr15:48539555T>A	uc001zwn.3	+	13	1798	c.1582T>A	c.(1582-1584)TAC>AAC	p.Y528N	SLC12A1_uc010uew.1_Missense_Mutation_p.Y334N|SLC12A1_uc010bem.2_Missense_Mutation_p.Y528N|SLC12A1_uc001zwq.3_Missense_Mutation_p.Y299N|SLC12A1_uc001zwr.3_Missense_Mutation_p.Y255N	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	528	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	GGACAACATCTACAAAGCCCT	0.363													61	56	---	---	---	---	PASS	A	48539555	A	A	48539555	3	1	112	1	0	0	0	0	1	0	0	0	14382	1522	53	5	1728	5	SLC12A1	15	48539555	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	5845602	48539555	53991837	244	41603										
FBN1	2200	broad.mit.edu	37	chr15	48713001	48713001	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gttaccctcacactcgtccaCgtctgaaaaagaagcagagc	8	13	2	3	rs138558987		TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr15:48713001C>A	uc001zwx.1	-	63	8030	c.7702G>T	c.(7702-7704)GTG>TTG	p.V2568L	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2568	EGF-like 45; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CACTCGTCCACGTCTGAAAAA	0.537													30	36	---	---	---	---	PASS	A	48713001	A	A	48713001	3	1	112	1	0	0	0	0	1	0	0	0	5702	536	19	1	929	1	FBN1	15	48713001	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	173446	48713001	53818391	245	41604										
SECISBP2L	9728	broad.mit.edu	37	chr15	49329817	49329817	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tggttttcctgcacaaatggGtaacaagtaatcaggtagct	10	7	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr15:49329817G>A	uc001zxe.1	-	2	308	c.174C>T	c.(172-174)TAC>TAT	p.Y58Y	SECISBP2L_uc001zxd.1_Silent_p.Y58Y|SECISBP2L_uc010bep.1_5'UTR|SECISBP2L_uc010beq.1_Silent_p.Y58Y	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	58										breast(1)|skin(1)	2						GCACAAATGGGTAACAAGTAA	0.383													42	49	---	---	---	---	PASS	A	49329817	A	A	49329817	2	1	112	1	0	0	0	0	0	0	0	1	14007	1256	44	3		3	SECISBP2L	15	49329817	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	616816	49329817	53201575	246	41605										
SGK269	79834	broad.mit.edu	37	chr15	77407452	77407452	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggctttgggtttttcccatcCgtttctcctttggcgtcttc	9	12	2	0	rs55736391		TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr15:77407452C>T	uc002bcm.2	-	6	4595	c.4287G>A	c.(4285-4287)ACG>ACA	p.T1429T		NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	1429	Protein kinase.				cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		TTTTCCCATCCGTTTCTCCTT	0.507													8	247	---	---	---	---	PASS	T	77407452	T	T	77407452	2	4	112	1	0	0	0	0	0	0	0	1	14211	639	23	1		1	SGK269	15	77407452	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	28077635	77407452	25123940	247	41606										
ADAMTS7	11173	broad.mit.edu	37	chr15	79058441	79058441	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gccccaggccaccctccagaGctggctcccaggccactgtg	11	19	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr15:79058441G>A	uc002bej.3	-	19	4023	c.3812C>T	c.(3811-3813)GCT>GTT	p.A1271V	ADAMTS7_uc010und.1_3'UTR	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1271					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						ACCCTCCAGAGCTGGCTCCCA	0.642													28	41	---	---	---	---	PASS	A	79058441	A	A	79058441	3	1	112	1	0	0	0	0	1	0	0	0	271	971	34	3	1272	3	ADAMTS7	15	79058441	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	1650989	79058441	23472951	248	41607										
CHTF18	63922	broad.mit.edu	37	chr16	846977	846977	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	acaggtggatgggagcccccCagggctcgagggtctgctgg	18	11	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr16:846977C>A	uc002cke.3	+	20	2681	c.2618C>A	c.(2617-2619)CCA>CAA	p.P873Q	CHTF18_uc002ckf.3_Missense_Mutation_p.P901Q|CHTF18_uc010brf.2_Missense_Mutation_p.P455Q|CHTF18_uc002ckg.3_Missense_Mutation_p.P391Q	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	873					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity			kidney(1)	1		Hepatocellular(780;0.00335)				GGGAGCCCCCCAGGGCTCGAG	0.647													87	16	---	---	---	---	PASS	A	846977	A	A	846977	3	1	112	1	0	0	0	0	1	0	0	0	3414	594	21	3	2696	3	CHTF18	16	846977	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08		846977	89507776	249	41608										
NTHL1	4913	broad.mit.edu	37	chr16	2094632	2094632	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgccacaggcagggctcaccCtccagaaaccgacggggtag	13	14	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr16:2094632C>T	uc002col.1	-	3	567	c.548G>A	c.(547-549)AGG>AAG	p.R183K	NTHL1_uc002com.1_Missense_Mutation_p.R184K	NM_002528	NP_002519	P78549	NTHL1_HUMAN	nth endonuclease III-like 1	183					depyrimidination|nucleotide-excision repair, DNA incision, 5'-to lesion	nucleoplasm	4 iron, 4 sulfur cluster binding|double-stranded DNA binding|endonuclease activity|metal ion binding|oxidized pyrimidine base lesion DNA N-glycosylase activity|protein binding			lung(1)	1						AGGGCTCACCCTCCAGAAACC	0.667								BER_DNA_glycosylases					46	8	---	---	---	---	PASS	T	2094632	T	T	2094632	3	4	112	1	0	0	0	0	1	0	0	0	10698	695	24	3	406	3	NTHL1	16	2094632	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1247655	2094632	88260121	250	41609										
E4F1	1877	broad.mit.edu	37	chr16	2279622	2279622	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ccatcactgtggcccacatcGtggtggaggcggcctctctg	13	14	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr16:2279622G>C	uc002cpm.2	+	3	409	c.361G>C	c.(361-363)GTG>CTG	p.V121L	E4F1_uc010bsi.2_Missense_Mutation_p.V121L|E4F1_uc010bsj.2_Missense_Mutation_p.V121L	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	121					cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						GGCCCACATCGTGGTGGAGGC	0.592													152	21	---	---	---	---	PASS	C	2279622	C	C	2279622	3	2	112	1	0	0	0	0	1	0	0	0	4874	1145	40	4	371	4	E4F1	16	2279622	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	184990	2279622	88075131	251	41610										
GLYR1	84656	broad.mit.edu	37	chr16	4895079	4895079	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggtgagtactactcactgatCttctgttccaaaaaatttca	6	9	4	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr16:4895079C>A	uc002cxx.3	-	3	188	c.151G>T	c.(151-153)GAT>TAT	p.D51Y	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_5'UTR|GLYR1_uc002cya.2_Missense_Mutation_p.D51Y|GLYR1_uc010uxv.1_Missense_Mutation_p.D51Y|UBN1_uc010uxw.1_5'Flank|UBN1_uc002cyb.2_5'Flank	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	51	PWWP.				pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						ACTCACTGATCTTCTGTTCCA	0.418													115	22	---	---	---	---	PASS	A	4895079	A	A	4895079	3	1	112	1	0	0	0	0	1	0	0	0	6483	913	32	2	1566	2	GLYR1	16	4895079	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	2615457	4895079	85459674	252	41611										
COG7	91949	broad.mit.edu	37	chr16	23464258	23464258	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cttggagccggccctgaaggCcgcattgatccactccttca	10	15	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr16:23464258C>T	uc002dlo.2	-	1	246	c.58G>A	c.(58-60)GCC>ACC	p.A20T		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	20					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		GCCCTGAAGGCCGCATTGATC	0.607													49	54	---	---	---	---	PASS	T	23464258	T	T	23464258	3	4	112	1	0	0	0	0	1	0	0	0	3663	739	26	3	2322	3	COG7	16	23464258	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	18569179	23464258	66890495	253	41612										
FUS	2521	broad.mit.edu	37	chr16	31196347	31196347	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agaccagagtggtggaggtgGcagcggtggctatggacagc	19	7	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr16:31196347G>T	uc002ebf.2	+	6	694	c.611G>T	c.(610-612)GGC>GTC	p.G204V	FUS_uc002ebe.1_Missense_Mutation_p.G200V|FUS_uc002ebh.2_Missense_Mutation_p.G203V|FUS_uc002ebg.2_Missense_Mutation_p.A11S|FUS_uc002ebi.2_Missense_Mutation_p.G204V|FUS_uc002ebj.2_Missense_Mutation_p.A11S|FUS_uc002ebk.1_5'Flank	NM_004960	NP_004951	P35637	FUS_HUMAN	fusion (involved in t(12;16) in malignant	204	Gly-rich.				cell death|nuclear mRNA splicing, via spliceosome	nucleoplasm	DNA binding|nucleotide binding|protein binding|RNA binding|zinc ion binding		FUS/DDIT3(623)|FUS/ERG(163)|FUS/CREB3L2(158)|FUS/CREB3L1(6)|FUS/ATF1(4)|FUS/FEV(2)	soft_tissue(791)|haematopoietic_and_lymphoid_tissue(153)|bone(12)|breast(2)	958		Renal(780;0.000219)|Breast(268;0.00957)|Hepatocellular(780;0.121)		GBM - Glioblastoma multiforme(240;2.31e-05)|Kidney(780;0.000209)		ggtggaggtggcagcggtggC	0.204			T	DDIT3|ERG|FEV|ATF1|CREB3L2|CREB3L1	liposarcoma|AML|Ewing sarcoma|angiomatoid fibrous histiocytoma|fibromyxoid sarcoma								23	23	---	---	---	---	PASS	T	31196347	T	T	31196347	3	4	112	1	0	0	0	0	1	0	0	0	6100	1203	42	3	633	3	FUS	16	31196347	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	7732089	31196347	59158406	254	41613										
NUDT21	11051	broad.mit.edu	37	chr16	56481718	56481718	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tacagtttgaagaaagttgtTcccagctgcagcagtaacac	9	9	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr16:56481718T>A	uc002eja.2	-	2	447	c.300A>T	c.(298-300)GGA>GGT	p.G100G	NUDT21_uc002eiz.2_Silent_p.G25G	NM_007006	NP_008937	O43809	CPSF5_HUMAN	cleavage and polyadenylation specific factor 5	100	Nudix hydrolase.|Necessary for interactions with PAPOLA and PABPN1.|Necessary for RNA-binding.				mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|protein tetramerization|termination of RNA polymerase II transcription	centrosome|mRNA cleavage factor complex|paraspeckles	AU-rich element binding|histone deacetylase binding|hydrolase activity|mRNA binding|protein homodimerization activity				0						AGAAAGTTGTTCCCAGCTGCA	0.418													60	70	---	---	---	---	PASS	A	56481718	A	A	56481718	2	1	112	1	0	0	0	0	0	0	0	1	10738	1770	62	5		5	NUDT21	16	56481718	Silent	SNP	T	TCGA-51-4080-01A-01D-1458-08	25285371	56481718	33873035	255	41614										
CDH5	1003	broad.mit.edu	37	chr16	66432377	66432377	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agctggtcctgcagatctccGcaatagacaaggacataaca	9	11	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr16:66432377G>A	uc002eom.3	+	10	1660	c.1504G>A	c.(1504-1506)GCA>ACA	p.A502T		NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	502	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		GCAGATCTCCGCAATAGACAA	0.498													52	69	---	---	---	---	PASS	A	66432377	A	A	66432377	3	1	112	1	0	0	0	0	1	0	0	0	3113	1087	38	1	1538	1	CDH5	16	66432377	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	9950659	66432377	23922376	256	41615										
RLTPR	146206	broad.mit.edu	37	chr16	67691204	67691204	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggccaaaactcgaggcacctCcatccccaagcctaggtaag	9	15	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr16:67691204C>G	uc002etn.2	+	37	4300	c.4180C>G	c.(4180-4182)CCA>GCA	p.P1394A	RLTPR_uc010vjr.1_Missense_Mutation_p.P1331A	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	1394	Pro-rich.									breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		CGAGGCACCTCCATCCCCAAG	0.642													21	26	---	---	---	---	PASS	G	67691204	G	G	67691204	3	3	112	1	0	0	0	0	1	0	0	0	13394	855	30	2	4326	2	RLTPR	16	67691204	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1258827	67691204	22663549	257	41616										
CDH3	1001	broad.mit.edu	37	chr16	68732173	68732173	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cgactatgagggcagcggctCcgacgccgcgtccctgagct	14	15	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr16:68732173C>G	uc002ewf.2	+	16	3492	c.2360C>G	c.(2359-2361)TCC>TGC	p.S787C	CDH3_uc010vli.1_Missense_Mutation_p.S732C	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	787	Cytoplasmic (Potential).|Ser-rich.				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		GGCAGCGGCTCCGACGCCGCG	0.612													83	105	---	---	---	---	PASS	G	68732173	G	G	68732173	3	3	112	1	0	0	0	0	1	0	0	0	3111	855	30	2	2422	2	CDH3	16	68732173	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1040969	68732173	21622580	258	41617										
ADAMTS18	170692	broad.mit.edu	37	chr16	77353866	77353866	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tccccaggccagtcgatgctCcagcccccggtgaggtaata	11	15	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr16:77353866C>A	uc002ffc.3	-	16	2831	c.2412G>T	c.(2410-2412)TGG>TGT	p.W804C	ADAMTS18_uc010chc.1_Missense_Mutation_p.W392C|ADAMTS18_uc002ffe.1_Missense_Mutation_p.W500C	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	804	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						AGTCGATGCTCCAGCCCCCGG	0.597													39	53	---	---	---	---	PASS	A	77353866	A	A	77353866	3	1	112	1	0	0	0	0	1	0	0	0	263	856	30	2	1285	2	ADAMTS18	16	77353866	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	8621693	77353866	13000887	259	41618										
OR3A1	4994	broad.mit.edu	37	chr17	3195189	3195189	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gccctctacagagcgaattcGcaggactgcagctgccacgt	11	14	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:3195189G>T	uc002fvh.1	-	1	688	c.688C>A	c.(688-690)CGA>AGA	p.R230R		NM_002550	NP_002541	P47881	OR3A1_HUMAN	olfactory receptor, family 3, subfamily A,	230	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.R230*(1)		kidney(2)|central_nervous_system(1)	3						GAGCGAATTCGCAGGACTGCA	0.483													11	41	---	---	---	---	PASS	T	3195189	T	T	3195189	2	4	112	1	0	0	0	0	0	0	0	1	11037	1095	38	1		1	OR3A1	17	3195189	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08		3195189	78000021	260	41619										
SPATA22	84690	broad.mit.edu	37	chr17	3346530	3346530	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cataagaaaagtcttcgaatAatatgggccaggtgtaacag	10	6	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:3346530A>C	uc002fvm.2	-	8	1075	c.838T>G	c.(838-840)TAT>GAT	p.Y280D	SPATA22_uc010vrg.1_Missense_Mutation_p.Y264D|SPATA22_uc010vrf.1_Intron|SPATA22_uc002fvn.2_Missense_Mutation_p.Y280D|SPATA22_uc002fvo.2_Missense_Mutation_p.Y280D|SPATA22_uc002fvp.2_Missense_Mutation_p.Y280D|SPATA22_uc010ckf.2_Missense_Mutation_p.Y237D	NM_032598	NP_115987	Q8NHS9	SPT22_HUMAN	spermatogenesis associated 22	280											0						GTCTTCGAATAATATGGGCCA	0.348													32	6	---	---	---	---	PASS	C	3346530	C	C	3346530	3	2	112	1	0	0	0	0	1	0	0	0	15007	362	13	5	261	5	SPATA22	17	3346530	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	151341	3346530	77848680	261	41620										
TP53	7157	broad.mit.edu	37	chr17	7574017	7574017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gctctcggaacatctcgaagCgctcacgcccacggatctgc	10	16	4	0	rs121912664		TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:7574017C>A	uc002gim.2	-	10	1204	c.1010G>T	c.(1009-1011)CGC>CTC	p.R337L	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_Missense_Mutation_p.R205L|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_Missense_Mutation_p.R337L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	337	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Interaction with HIPK2.		R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R337C(12)|p.0?(7)|p.R337L(5)|p.R337H(2)|p.?(1)|p.I332fs*5(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)		CATCTCGAAGCGCTCACGCCC	0.453		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)			21	3	---	---	---	---	PASS	A	7574017	A	A	7574017	3	1	112	1	0	0	0	0	1	0	0	0	16378	768	27	1	179	1	TP53	17	7574017	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	4227487	7574017	73621193	262	41621										
TMEM107	84314	broad.mit.edu	37	chr17	8079165	8079165	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gcccagggtgacagagagcgCggccaccagcctgcagagag	16	13	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:8079165C>A	uc002gkg.3	-	3	276	c.166G>T	c.(166-168)GCG>TCG	p.A56S	TMEM107_uc002gkh.3_Missense_Mutation_p.A62S|TMEM107_uc002gki.3_Missense_Mutation_p.A62S|TMEM107_uc002gkj.3_Intron|TMEM107_uc002gkk.2_Missense_Mutation_p.A56S	NM_183065	NP_898888	Q6UX40	TM107_HUMAN	transmembrane protein 107 isoform 2	56	Helical; (Potential).					integral to membrane					0						ACAGAGAGCGCGGCCACCAGC	0.597													60	9	---	---	---	---	PASS	A	8079165	A	A	8079165	3	1	112	1	0	0	0	0	1	0	0	0	16020	768	27	1	268	1	TMEM107	17	8079165	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	505148	8079165	73116045	263	41622										
MYO15A	51168	broad.mit.edu	37	chr17	18054736	18054736	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctccccagagctggtccggtActctacgctcaactctgagc	9	16	3	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:18054736A>G	uc010vxh.1	+	39	8020	c.7682A>G	c.(7681-7683)TAC>TGC	p.Y2561C	MYO15A_uc010vxi.1_5'Flank|MYO15A_uc010vxj.1_5'Flank|MYO15A_uc010vxk.1_5'Flank	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	2561	Tail.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CTGGTCCGGTACTCTACGCTC	0.637													61	11	---	---	---	---	PASS	G	18054736	G	G	18054736	3	3	112	1	0	0	0	0	1	0	0	0	10063	391	14	5	7832	5	MYO15A	17	18054736	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	9975571	18054736	63140474	264	41623										
SRCIN1	80725	broad.mit.edu	37	chr17	36714598	36714598	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gcatgctcagctctgcctccGtgcgcttcagcagcgcgcgc	12	17	3	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:36714598G>T	uc002hqd.2	-	11	2291	c.2066C>A	c.(2065-2067)ACG>AAG	p.T689K	SRCIN1_uc002hqf.1_Missense_Mutation_p.T561K|SRCIN1_uc002hqe.2_Missense_Mutation_p.T543K|SRCIN1_uc002hqg.2_5'UTR	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	561	Interaction with SNAP25 (By similarity).				exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						CTCTGCCTCCGTGCGCTTCAG	0.721											OREG0024362	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	42	---	---	---	---	PASS	T	36714598	T	T	36714598	3	4	112	1	0	0	0	0	1	0	0	0	15135	1145	40	1	1521	1	SRCIN1	17	36714598	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	18659862	36714598	44480612	265	41624										
NPEPPS	9520	broad.mit.edu	37	chr17	45668111	45668111	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gactcatctttggttaaatgAaggttttgcatcctggattg	10	6	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:45668111A>T	uc002ilr.3	+	10	1347	c.1124A>T	c.(1123-1125)GAA>GTA	p.E375V	NPEPPS_uc010wkt.1_Missense_Mutation_p.E371V|NPEPPS_uc010wku.1_Missense_Mutation_p.E339V|NPEPPS_uc010wkv.1_5'UTR	NM_006310	NP_006301	P55786	PSA_HUMAN	aminopeptidase puromycin sensitive	375		Zinc; catalytic (By similarity).			proteolysis	cytosol|nucleus	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0						TGGTTAAATGAAGGTTTTGCA	0.363													9	189	---	---	---	---	PASS	T	45668111	T	T	45668111	3	4	112	1	0	0	0	0	1	0	0	0	10575	246	9	5	1162	5	NPEPPS	17	45668111	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	8953513	45668111	35527099	266	41625										
LUC7L3	51747	broad.mit.edu	37	chr17	48818594	48818594	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tttggcattatctcaaaaccAgcagtcttctggggtaagtg	10	8	3	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:48818594A>C	uc002isr.2	+	4	455	c.338A>C	c.(337-339)CAG>CCG	p.Q113P	LUC7L3_uc002isp.1_Missense_Mutation_p.Q37P|LUC7L3_uc010wmw.1_Missense_Mutation_p.Q37P|LUC7L3_uc002isq.2_Missense_Mutation_p.Q113P|LUC7L3_uc002iss.2_Missense_Mutation_p.Q113P	NM_006107	NP_006098	O95232	LC7L3_HUMAN	LUC7-like 3	113					apoptosis|mRNA processing|response to stress|RNA splicing	focal adhesion|nuclear speck	DNA binding|mRNA binding|protein binding				0						TCTCAAAACCAGCAGTCTTCT	0.418													45	112	---	---	---	---	PASS	C	48818594	C	C	48818594	3	2	112	1	0	0	0	0	1	0	0	0	9084	188	7	5	352	5	LUC7L3	17	48818594	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	3150483	48818594	32376616	267	41626										
WFIKKN2	124857	broad.mit.edu	37	chr17	48916920	48916920	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggaccaagagctgcgtggcgGcccgctacatggacgtgaaa	15	11	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:48916920G>T	uc002isv.3	+	2	965	c.271G>T	c.(271-273)GCC>TCC	p.A91S	WFIKKN2_uc010dbu.2_5'UTR	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	91	WAP.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			CTGCGTGGCGGCCCGCTACAT	0.582													55	31	---	---	---	---	PASS	T	48916920	T	T	48916920	3	4	112	1	0	0	0	0	1	0	0	0	17356	1203	42	3	277	3	WFIKKN2	17	48916920	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	98326	48916920	32278290	268	41627										
ANKFN1	162282	broad.mit.edu	37	chr17	54558135	54558135	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcttctacgagctccagatgGcagtgaaagctctccttcag	9	12	4	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:54558135G>T	uc002iun.1	+	16	2091	c.2056G>T	c.(2056-2058)GCA>TCA	p.A686S		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	686										large_intestine(1)|ovary(1)	2						GCTCCAGATGGCAGTGAAAGC	0.418													321	232	---	---	---	---	PASS	T	54558135	T	T	54558135	3	4	112	1	0	0	0	0	1	0	0	0	625	1203	42	3	2118	3	ANKFN1	17	54558135	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	5641215	54558135	26637075	269	41628										
OR4D2	124538	broad.mit.edu	37	chr17	56247272	56247272	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ccaaaatgctagtggacctcCtctctgagaagaaaaccatc	7	12	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:56247272C>G	uc010wnp.1	+	1	256	c.256C>G	c.(256-258)CTC>GTC	p.L86V		NM_001004707	NP_001004707	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D,	86	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						AGTGGACCTCCTCTCTGAGAA	0.507													221	122	---	---	---	---	PASS	G	56247272	G	G	56247272	3	3	112	1	0	0	0	0	1	0	0	0	11056	681	24	4	258	4	OR4D2	17	56247272	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1689137	56247272	24947938	270	41629										
AXIN2	8313	broad.mit.edu	37	chr17	63554499	63554499	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cccaataaggagtgtaaggaCttggtccaccgggtcagagg	14	9	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:63554499C>T	uc002jfi.2	-	2	529	c.240G>A	c.(238-240)AAG>AAA	p.K80K	AXIN2_uc010den.1_Silent_p.K80K|AXIN2_uc002jfh.2_Silent_p.K80K|AXIN2_uc002jfj.1_Silent_p.K80K	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	80					cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						AGTGTAAGGACTTGGTCCACC	0.567									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				70	183	---	---	---	---	PASS	T	63554499	T	T	63554499	2	4	112	1	0	0	0	0	0	0	0	1	1237	564	20	3		3	AXIN2	17	63554499	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	7307227	63554499	17640711	271	41630										
AXIN2	8313	broad.mit.edu	37	chr17	63554581	63554581	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cttcgttccgcctggtgttgGaagagacaggcatgggtttg	15	8	0	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:63554581G>C	uc002jfi.2	-	2	447	c.158C>G	c.(157-159)TCC>TGC	p.S53C	AXIN2_uc010den.1_Missense_Mutation_p.S53C|AXIN2_uc002jfh.2_Missense_Mutation_p.S53C|AXIN2_uc002jfj.1_Missense_Mutation_p.S53C	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	53				QPGVGKGQVTKPMSVSSNTRRNEDGL -> HHGGQGPGHQT HVCLFQHQAERRWV (in Ref. 2; AAF22799).	cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						CCTGGTGTTGGAAGAGACAGG	0.652									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				47	159	---	---	---	---	PASS	C	63554581	C	C	63554581	3	2	112	1	0	0	0	0	1	0	0	0	1237	1174	41	2	2413	2	AXIN2	17	63554581	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	82	63554581	17640629	272	41631										
CCDC46	201134	broad.mit.edu	37	chr17	63898350	63898350	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aagctgtttttccaggttttCaatttcccgttcatggtctc	7	10	3	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:63898350C>T	uc002jfl.2	-	20	2302	c.2083G>A	c.(2083-2085)GAA>AAA	p.E695K	CCDC46_uc010deo.2_Missense_Mutation_p.E437K|CCDC46_uc002jfm.2_Missense_Mutation_p.E695K|CCDC46_uc010dep.2_Missense_Mutation_p.E653K	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	695	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			TCCAGGTTTTCAATTTCCCGT	0.438													139	92	---	---	---	---	PASS	T	63898350	T	T	63898350	3	4	112	1	0	0	0	0	1	0	0	0	2817	835	29	2	982	2	CCDC46	17	63898350	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	343769	63898350	17296860	273	41632										
BPTF	2186	broad.mit.edu	37	chr17	65914834	65914834	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttggttttcctttcaggtatAgacttcagacagtaaagtcc	8	8	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:65914834A>G	uc002jgf.2	+	12	5369	c.5308A>G	c.(5308-5310)AGA>GGA	p.R1770G	BPTF_uc002jge.2_Missense_Mutation_p.R1896G	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1896					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TTTCAGGTATAGACTTCAGAC	0.373													62	171	---	---	---	---	PASS	G	65914834	G	G	65914834	3	3	112	1	0	0	0	0	1	0	0	0	1495	412	15	5	5740	5	BPTF	17	65914834	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	2016484	65914834	15280376	274	41633										
BAIAP2	10458	broad.mit.edu	37	chr17	79080670	79080670	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gacggccagcggcttcaagcAgaggccctacagtgtggccg	15	13	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:79080670A>T	uc002jzg.2	+	12	1571	c.1463A>T	c.(1462-1464)CAG>CTG	p.Q488L	BAIAP2_uc002jyz.3_Missense_Mutation_p.Q488L|BAIAP2_uc002jza.2_Missense_Mutation_p.Q488L|BAIAP2_uc002jzc.2_Missense_Mutation_p.Q489L|BAIAP2_uc002jzb.2_Missense_Mutation_p.Q245L|BAIAP2_uc002jzd.2_Missense_Mutation_p.Q488L|BAIAP2_uc002jzf.2_Missense_Mutation_p.Q488L|BAIAP2_uc002jze.2_Missense_Mutation_p.Q521L|BAIAP2_uc010wuh.1_Missense_Mutation_p.Q410L|BAIAP2_uc002jzh.2_Missense_Mutation_p.Q489L|BAIAP2_uc010wui.1_Missense_Mutation_p.Q351L	NM_017451	NP_059345	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2 isoform 2	488					axonogenesis|filopodium assembly|insulin receptor signaling pathway|regulation of actin cytoskeleton organization|response to bacterium	cell junction|cytoskeleton|cytosol|filopodium|nucleus|ruffle	cytoskeletal adaptor activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding				0	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			GGCTTCAAGCAGAGGCCCTAC	0.721													27	7	---	---	---	---	PASS	T	79080670	T	T	79080670	3	4	112	1	0	0	0	0	1	0	0	0	1301	188	7	5	1509	5	BAIAP2	17	79080670	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	13165836	79080670	2114540	275	41634										
C17orf56	146705	broad.mit.edu	37	chr17	79207258	79207258	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggccgtgttccttgctgtagCcgaaaccctggagggtgctg	15	11	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr17:79207258C>A	uc002jzu.1	-	7	522	c.500G>T	c.(499-501)GGC>GTC	p.G167V	C17orf56_uc002jzr.1_5'Flank|C17orf56_uc002jzs.1_Missense_Mutation_p.G15V|C17orf56_uc002jzt.1_Missense_Mutation_p.G15V|C17orf56_uc002jzv.1_Missense_Mutation_p.G15V|uc002jzw.1_RNA	NM_144679	NP_653280	Q96N21	CQ056_HUMAN	hypothetical protein LOC146705	167						integral to membrane					0	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CTTGCTGTAGCCGAAACCCTG	0.697													19	44	---	---	---	---	PASS	A	79207258	A	A	79207258	3	1	112	1	0	0	0	0	1	0	0	0	1864	739	26	3	1101	3	C17orf56	17	79207258	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	126588	79207258	1987952	276	41635										
EPB41L3	23136	broad.mit.edu	37	chr18	5424262	5424262	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	caaaataatctcttcctaccTgaaaaatgtatgatgctcaa	4	9	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr18:5424262T>A	uc002kmt.1	-	10	1248	c.1162A>T	c.(1162-1164)AGA>TGA	p.R388*	EPB41L3_uc010wzh.1_Nonsense_Mutation_p.R388*|EPB41L3_uc002kmu.1_Nonsense_Mutation_p.R388*|EPB41L3_uc010dkq.1_Nonsense_Mutation_p.R279*|EPB41L3_uc010dkr.2_5'Flank	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	388	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TCTTCCTACCTGAAAAATGTA	0.308													95	148	---	---	---	---	PASS	A	5424262	A	A	5424262	4	1	112	1	0	0	0	0	0	1	0	0	5154	1594	55	5	2153	5	EPB41L3	18	5424262	Nonsense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08		5424262	72652986	277	41636										
SLC14A2	8170	broad.mit.edu	37	chr18	43243838	43243838	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aagcacaggagtgtatttcaCatcgagtggtcatccattcg	10	9	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr18:43243838C>T	uc010dnj.2	+	12	1761	c.1440C>T	c.(1438-1440)CAC>CAT	p.H480H	SLC14A2_uc002lbe.2_Silent_p.H480H	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	480						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						GTGTATTTCACATCGAGTGGT	0.532													23	31	---	---	---	---	PASS	T	43243838	T	T	43243838	2	4	112	1	0	0	0	0	0	0	0	1	14397	477	17	3		3	SLC14A2	18	43243838	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	37819576	43243838	34833410	278	41637										
KIAA1632	57724	broad.mit.edu	37	chr18	43502326	43502326	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cctgtggcccacagctgtcaTagataaggctagataacagc	10	11	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr18:43502326T>C	uc002lbm.2	-	16	3179	c.3079A>G	c.(3079-3081)ATG>GTG	p.M1027V	KIAA1632_uc002lbo.1_Missense_Mutation_p.M1027V	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1027					autophagy						0						ACAGCTGTCATAGATAAGGCT	0.483													38	33	---	---	---	---	PASS	C	43502326	C	C	43502326	3	2	112	1	0	0	0	0	1	0	0	0	8249	1406	49	5	4776	5	KIAA1632	18	43502326	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	258488	43502326	34574922	279	41638										
ZNF236	7776	broad.mit.edu	37	chr18	74622624	74622624	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aatttattttaggttttacaGtgactgatacgtaccatcag	7	6	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr18:74622624G>T	uc002lmi.2	+	16	2854	c.2656G>T	c.(2656-2658)GTG>TTG	p.V886L	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	886					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		AGGTTTTACAGTGACTGATAC	0.363													47	74	---	---	---	---	PASS	T	74622624	T	T	74622624	3	4	112	1	0	0	0	0	1	0	0	0	17786	1029	36	3	2718	3	ZNF236	18	74622624	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	31120298	74622624	3454624	280	41639										
SALL3	27164	broad.mit.edu	37	chr18	76752207	76752207	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttcctggagcaccagcggagCtgcaccaagctcccgcccgt	11	17	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr18:76752207C>A	uc002lmt.2	+	2	216	c.216C>A	c.(214-216)AGC>AGA	p.S72R	SALL3_uc010dra.2_5'Flank	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	72					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		ACCAGCGGAGCTGCACCAAGC	0.726													11	25	---	---	---	---	PASS	A	76752207	A	A	76752207	3	1	112	1	0	0	0	0	1	0	0	0	13812	796	28	3	222	3	SALL3	18	76752207	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	2129583	76752207	1325041	281	41640										
MUC16	94025	broad.mit.edu	37	chr19	9089943	9089943	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtggctctggtgagtaggtgGgttgtgccctggcttcccct	16	10	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:9089943G>T	uc002mkp.2	-	1	2076	c.1872C>A	c.(1870-1872)ACC>ACA	p.T624T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	624	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGAGTAGGTGGGTTGTGCCCT	0.572													55	73	---	---	---	---	PASS	T	9089943	T	T	9089943	2	4	112	1	0	0	0	0	0	0	0	1	9973	1219	43	3		3	MUC16	19	9089943	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08		9089943	50039040	282	41641										
CYP4F2	8529	broad.mit.edu	37	chr19	15989695	15989695	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cggaagcgcagcagcgtgagCgccaggaccaccttcatctc	12	15	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:15989695C>T	uc002nbs.1	-	13	1499	c.1449G>A	c.(1447-1449)GCG>GCA	p.A483A	CYP4F2_uc010xot.1_Silent_p.A334A	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	483					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						GCAGCGTGAGCGCCAGGACCA	0.682													33	42	---	---	---	---	PASS	T	15989695	T	T	15989695	2	4	112	1	0	0	0	0	0	0	0	1	4188	755	27	1		1	CYP4F2	19	15989695	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	6899752	15989695	43139288	283	41642										
CYP4F2	8529	broad.mit.edu	37	chr19	15989720	15989720	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ggaccaccttcatctccgccAtcgcgaacgtctgcccgatg	9	17	3	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:15989720A>T	uc002nbs.1	-	13	1474	c.1424T>A	c.(1423-1425)ATG>AAG	p.M475K	CYP4F2_uc010xot.1_Missense_Mutation_p.M326K	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	475					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						CATCTCCGCCATCGCGAACGT	0.677													33	59	---	---	---	---	PASS	T	15989720	T	T	15989720	3	4	112	1	0	0	0	0	1	0	0	0	4188	217	8	5	142	5	CYP4F2	19	15989720	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	25	15989720	43139263	284	41643										
JAK3	3718	broad.mit.edu	37	chr19	17937686	17937686	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgatggccggtcctgtgggcTaggggcccagcacagcttca	15	12	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:17937686T>A	uc002nhn.3	-	24	3341	c.3241A>T	c.(3241-3243)AGC>TGC	p.S1081C	JAK3_uc010ebh.2_Intron	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	1081	Protein kinase 2.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						TCCTGTGGGCTAGGGGCCCAG	0.632		2	Mis		acute megakaryocytic leukemia|								48	82	---	---	---	---	PASS	A	17937686	A	A	17937686	3	1	112	1	0	0	0	0	1	0	0	0	7939	1522	53	5	137	5	JAK3	19	17937686	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	1947966	17937686	41191297	285	41644										
ZNF682	91120	broad.mit.edu	37	chr19	20117559	20117559	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgtagggtttctcaccagtaTggattctcttatgtttagta	9	6	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:20117559T>A	uc002noq.2	-	4	875	c.752A>T	c.(751-753)CAT>CTT	p.H251L	ZNF682_uc002noo.2_Missense_Mutation_p.H219L|ZNF682_uc002nop.2_Missense_Mutation_p.H219L|ZNF682_uc010eck.2_Missense_Mutation_p.H175L	NM_033196	NP_149973	O95780	ZN682_HUMAN	zinc finger protein 682 isoform 1	251	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						CTCACCAGTATGGATTCTCTT	0.378													62	86	---	---	---	---	PASS	A	20117559	A	A	20117559	3	1	112	1	0	0	0	0	1	0	0	0	18086	1464	51	5	748	5	ZNF682	19	20117559	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	2179873	20117559	39011424	286	41645										
ZNF99	7652	broad.mit.edu	37	chr19	22941562	22941562	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	attatctcatgttttctaagGgctgacaaattgctaaaagc	7	7	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:22941562G>T	uc010xrh.1	-	5	876	c.876C>A	c.(874-876)GCC>GCA	p.A292A		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)				GTTTTCTAAGGGCTGACAAAT	0.368													44	65	---	---	---	---	PASS	T	22941562	T	T	22941562	2	4	112	1	0	0	0	0	0	0	0	1	18201	1219	43	3		3	ZNF99	19	22941562	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	2824003	22941562	36187421	287	41646										
LGI4	163175	broad.mit.edu	37	chr19	35617547	35617547	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gcagcagccgccgcggggccAgggtctgcgttggggccagg	20	13	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:35617547A>G	uc002nxx.2	-	8	1520	c.926T>C	c.(925-927)CTG>CCG	p.L309P	LGI4_uc002nxy.1_Missense_Mutation_p.L137P|LGI4_uc002nxz.1_Missense_Mutation_p.L137P	NM_139284	NP_644813	Q8N135	LGI4_HUMAN	leucine-rich repeat LGI family, member 4	309						extracellular region				pancreas(1)	1	all_lung(56;7.56e-09)|Lung NSC(56;1.1e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.54e-20)|OV - Ovarian serous cystadenocarcinoma(14;1.33e-18)|all cancers(14;4.27e-17)|LUSC - Lung squamous cell carcinoma(66;0.0849)			CCGCGGGGCCAGGGTCTGCGT	0.746													2	2	---	---	---	---	PASS	G	35617547	G	G	35617547	3	3	112	1	0	0	0	0	1	0	0	0	8754	188	7	5	695	5	LGI4	19	35617547	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	12675985	35617547	23511436	288	41647										
FCGBP	8857	broad.mit.edu	37	chr19	40433441	40433441	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	atacccccatggttgtaggtCagctttgtggcctggctggc	13	11	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:40433441C>A	uc002omp.3	-	2	836	c.828G>T	c.(826-828)CTG>CTT	p.L276L		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	276	IgGFc-binding.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GGTTGTAGGTCAGCTTTGTGG	0.592													40	47	---	---	---	---	PASS	A	40433441	A	A	40433441	2	1	112	1	0	0	0	0	0	0	0	1	5778	813	29	2		2	FCGBP	19	40433441	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	4815894	40433441	18695542	289	41648										
MEGF8	1954	broad.mit.edu	37	chr19	42856450	42856450	+	Frame_Shift_Del	DEL	T	-	-													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gggcttcccgtggccctcccTgcccgctgggcatacgcccg							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:42856450delT	uc002otl.3	+	18	3626	c.2991delT	c.(2989-2991)CCTfs	p.P997fs	MEGF8_uc002otm.3_Frame_Shift_Del_p.P605fs	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	1064	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				TGGCCCTCCCTGCCCGCTGGG	0.721													9	8	---	---	---	---		-	42856450	-	-	42856450	7	5	112	1	0	1	0	1	0	0	0	0	9463	1567	55	0	3061	0	MEGF8	19	42856450	Frame_Shift_Del	DEL	T	TCGA-51-4080-01A-01D-1458-08	2423009	42856450	16272533	290	41649										
SHANK1	50944	broad.mit.edu	37	chr19	51219713	51219713	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tggccgtccagatggtggcaTcggggttgaagcgaaggcat	17	8	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:51219713T>C	uc002psx.1	-	2	297	c.278A>G	c.(277-279)GAT>GGT	p.D93G		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	93					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GATGGTGGCATCGGGGTTGAA	0.632													42	55	---	---	---	---	PASS	C	51219713	C	C	51219713	3	2	112	1	0	0	0	0	1	0	0	0	14264	1435	50	5	6295	5	SHANK1	19	51219713	Missense_Mutation	SNP	T	TCGA-51-4080-01A-01D-1458-08	8363263	51219713	7909270	291	41650										
CD33	945	broad.mit.edu	37	chr19	51738444	51738444	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ccagagcaggagtggttcatGgggccattggaggagctggt	18	7	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:51738444G>A	uc002pwa.2	+	5	818	c.778G>A	c.(778-780)GGG>AGG	p.G260R	CD33_uc010eos.1_Missense_Mutation_p.G260R|CD33_uc010eot.1_Missense_Mutation_p.G133R|CD33_uc010eou.1_RNA	NM_001772	NP_001763	P20138	CD33_HUMAN	CD33 antigen isoform 1 precursor	260	Helical; (Potential).				cell adhesion|cell-cell signaling|negative regulation of cell proliferation	external side of plasma membrane|integral to plasma membrane	receptor activity|sugar binding				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	AGTGGTTCATGGGGCCATTGG	0.498													61	56	---	---	---	---	PASS	A	51738444	A	A	51738444	3	1	112	1	0	0	0	0	1	0	0	0	3005	1348	47	3	796	3	CD33	19	51738444	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	518731	51738444	7390539	292	41651										
ZNF615	284370	broad.mit.edu	37	chr19	52497080	52497080	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agtatgagttcgttgatgtaCcatgagacagtgcttcattg	11	6	1	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:52497080C>A	uc002pye.1	-	6	1541	c.1249G>T	c.(1249-1251)GTA>TTA	p.V417L	ZNF615_uc002pyf.1_Missense_Mutation_p.V428L|ZNF615_uc002pyg.1_Missense_Mutation_p.V309L|ZNF615_uc002pyh.1_Missense_Mutation_p.V428L|ZNF615_uc010epi.1_Missense_Mutation_p.V424L|ZNF615_uc010ydg.1_Missense_Mutation_p.V422L	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	417	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		CGTTGATGTACCATGAGACAG	0.408													62	77	---	---	---	---	PASS	A	52497080	A	A	52497080	3	1	112	1	0	0	0	0	1	0	0	0	18037	507	18	3	950	3	ZNF615	19	52497080	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	758636	52497080	6631903	293	41652										
VN1R4	317703	broad.mit.edu	37	chr19	53770896	53770896	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tctgtgataagatcattcccActgccacataccgggaggcc	9	13	2	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:53770896A>G	uc010ydu.1	-	1	23	c.23T>C	c.(22-24)GTG>GCG	p.V8A		NM_173857	NP_776256	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	8	Helical; Name=1; (Potential).				response to pheromone	actin cytoskeleton|cytoplasm|integral to membrane|plasma membrane	pheromone receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.00294)		GATCATTCCCACTGCCACATA	0.527										HNSCC(26;0.072)			25	46	---	---	---	---	PASS	G	53770896	G	G	53770896	3	3	112	1	0	0	0	0	1	0	0	0	17177	159	6	5	885	5	VN1R4	19	53770896	Missense_Mutation	SNP	A	TCGA-51-4080-01A-01D-1458-08	1273816	53770896	5358087	294	41653										
ZNF765	91661	broad.mit.edu	37	chr19	53905317	53905317	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	taaaatgtgttttcatttcaGggtctattgacattcaggga	9	5	4	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:53905317G>C	uc010ydx.1	+	5	343	c.16_splice	c.e5-1	p.G6_splice	ZNF765_uc002qbm.2_Splice_Site_p.G6_splice|ZNF765_uc002qbn.2_Splice_Site	NM_001040185	NP_001035275	Q7L2R6	ZN765_HUMAN	zinc finger protein 765						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00379)		TTTCATTTCAGGGTCTATTGA	0.438													15	225	---	---	---	---	PASS	C	53905317	C	C	53905317	5	2	112	1	0	0	0	0	0	0	1	0	18136	1014	35	4	21	4	ZNF765	19	53905317	Splice_Site	SNP	G	TCGA-51-4080-01A-01D-1458-08	134421	53905317	5223666	295	41654										
ZNF761	388561	broad.mit.edu	37	chr19	53952764	53952764	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	taaaatgtgttttcatttcaGggtctattgacattcaggga	9	5	4	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:53952764G>C	uc010eqp.2	+	5	474	c.16_splice	c.e5-1	p.G6_splice	ZNF761_uc002qbr.2_Splice_Site|ZNF761_uc010ydy.1_Splice_Site|ZNF761_uc002qbs.2_Splice_Site|ZNF761_uc002qbt.1_5'Flank	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		TTTCATTTCAGGGTCTATTGA	0.433													35	43	---	---	---	---	PASS	C	53952764	C	C	53952764	5	2	112	1	0	0	0	0	0	0	1	0	18133	1014	35	4	21	4	ZNF761	19	53952764	Splice_Site	SNP	G	TCGA-51-4080-01A-01D-1458-08	47447	53952764	5176219	296	41655										
ZNF813	126017	broad.mit.edu	37	chr19	53989885	53989885	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	taaaatgtgttttcatttcaGggtctattgacattcaggga	9	5	4	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:53989885G>C	uc002qbu.2	+	3	144	c.16_splice	c.e3-1	p.G6_splice	ZNF813_uc010eqq.1_Splice_Site	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		TTTCATTTCAGGGTCTATTGA	0.443													12	199	---	---	---	---	PASS	C	53989885	C	C	53989885	5	2	112	1	0	0	0	0	0	0	1	0	18172	1014	35	4	21	4	ZNF813	19	53989885	Splice_Site	SNP	G	TCGA-51-4080-01A-01D-1458-08	37121	53989885	5139098	297	41656										
LILRA2	11027	broad.mit.edu	37	chr19	55086941	55086941	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgagcccctcccacgggggcCagtacagatgctacagtgca	12	14	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:55086941C>A	uc002qgg.3	+	5	963	c.874C>A	c.(874-876)CAG>AAG	p.Q292K	LILRA2_uc010ern.2_Missense_Mutation_p.Q292K|LILRA2_uc002qgf.2_Missense_Mutation_p.Q292K|LILRA2_uc010yfe.1_Missense_Mutation_p.Q292K|LILRA2_uc010yff.1_Missense_Mutation_p.Q280K|LILRA2_uc010ero.2_Missense_Mutation_p.Q280K|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	292	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)		CCACGGGGGCCAGTACAGATG	0.662													73	73	---	---	---	---	PASS	A	55086941	A	A	55086941	3	1	112	1	0	0	0	0	1	0	0	0	8785	595	21	3	892	3	LILRA2	19	55086941	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1097056	55086941	4042042	298	41657										
TNNI3	7137	broad.mit.edu	37	chr19	55665559	55665559	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcgaaggtcaaagatcttctGagtcagatctgcaatctggg	11	8	6	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:55665559G>A	uc002qjg.3	-	7	388	c.388C>T	c.(388-390)CAG>TAG	p.Q130*	TNNI3_uc010yft.1_Nonsense_Mutation_p.Q122*	NM_000363	NP_000354	P19429	TNNI3_HUMAN	troponin I, cardiac	130	Involved in binding TNC and actin.				cardiac muscle contraction|cellular calcium ion homeostasis|muscle filament sliding|negative regulation of ATPase activity|regulation of systemic arterial blood pressure by ischemic conditions|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin binding|calcium channel inhibitor activity|calcium-dependent protein binding|protein domain specific binding|protein kinase binding|troponin C binding|troponin T binding			lung(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		AAGATCTTCTGAGTCAGATCT	0.567													20	47	---	---	---	---	PASS	A	55665559	A	A	55665559	4	1	112	1	0	0	0	0	0	1	0	0	16325	1299	45	2	252	2	TNNI3	19	55665559	Nonsense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	578618	55665559	3463424	299	41658										
ZSCAN1	284312	broad.mit.edu	37	chr19	58564960	58564960	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aggagaaacaggaacactgaCcagagcggccgccaccagcc	12	14	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:58564960C>A	uc002qrc.1	+	6	1015	c.768C>A	c.(766-768)GAC>GAA	p.D256E		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	256					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		GGAACACTGACCAGAGCGGCC	0.632													26	38	---	---	---	---	PASS	A	58564960	A	A	58564960	3	1	112	1	0	0	0	0	1	0	0	0	18223	506	18	3	782	3	ZSCAN1	19	58564960	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	2899401	58564960	564023	300	41659										
ZSCAN18	65982	broad.mit.edu	37	chr19	58596178	58596178	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ccccgggcgccccccagcgcGtagcttttctccttctcgtg	10	19	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr19:58596178G>A	uc002qri.2	-	7	1716	c.1407C>T	c.(1405-1407)TAC>TAT	p.Y469Y	ZSCAN18_uc002qrj.3_Silent_p.Y468Y|ZSCAN18_uc010yhs.1_Silent_p.Y333Y|ZSCAN18_uc002qrh.2_Silent_p.Y469Y|ZSCAN18_uc010yht.1_Silent_p.Y525Y|ZSCAN18_uc002qrk.1_3'UTR|ZSCAN18_uc002qrl.2_3'UTR	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	469					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		CCCCCAGCGCGTAGCTTTTCT	0.721													4	7	---	---	---	---	PASS	A	58596178	A	A	58596178	2	1	112	1	0	0	0	0	0	0	0	1	18227	1140	40	1		1	ZSCAN18	19	58596178	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	31218	58596178	532805	301	41660										
KIF16B	55614	broad.mit.edu	37	chr20	16359631	16359631	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cagcctggccagggcccgctCcagcgcctctctctgctgct	11	19	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr20:16359631C>A	uc002wpg.1	-	19	3174	c.3016G>T	c.(3016-3018)GAG>TAG	p.E1006*	KIF16B_uc002wpe.1_Nonsense_Mutation_p.E388*|KIF16B_uc002wpf.1_Nonsense_Mutation_p.E388*|KIF16B_uc010gch.1_Nonsense_Mutation_p.E1006*|KIF16B_uc010gci.1_Nonsense_Mutation_p.E1006*|KIF16B_uc010gcj.1_Nonsense_Mutation_p.E1017*	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	1006	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			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						AGGGCCCGCTCCAGCGCCTCT	0.542													84	110	---	---	---	---	PASS	A	16359631	A	A	16359631	4	1	112	1	0	0	0	0	0	1	0	0	8278	864	30	2	969	2	KIF16B	20	16359631	Nonsense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08		16359631	46665889	302	41661										
EMILIN3	90187	broad.mit.edu	37	chr20	39990279	39990279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctgcctgtggccagcctgaaGcctggagccttggctgctga	14	13	0	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr20:39990279G>T	uc002xjy.1	-	4	2154	c.1930C>A	c.(1930-1932)CTT>ATT	p.L644I		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	644	Potential.					proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				CCAGCCTGAAGCCTGGAGCCT	0.647													13	22	---	---	---	---	PASS	T	39990279	T	T	39990279	3	4	112	1	0	0	0	0	1	0	0	0	5095	971	34	3	374	3	EMILIN3	20	39990279	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	23630648	39990279	23035241	303	41662										
TP53RK	112858	broad.mit.edu	37	chr20	45315471	45315471	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ctggcctggcctttttggagGaggtggagtagctcttcaga	15	8	2	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr20:45315471G>A	uc002xsk.2	-	2	906	c.683C>T	c.(682-684)TCC>TTC	p.S228F	SLC13A3_uc002xsg.1_5'Flank|SLC13A3_uc010gho.1_5'Flank|TP53RK_uc002xsj.2_3'UTR	NM_033550	NP_291028	Q96S44	PRPK_HUMAN	p53-related protein kinase	228	Protein kinase.				lipopolysaccharide biosynthetic process	membrane|nucleus	ATP binding|p53 binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0		Myeloproliferative disorder(115;0.0122)				CTTTTTGGAGGAGGTGGAGTA	0.478													114	140	---	---	---	---	PASS	A	45315471	A	A	45315471	3	1	112	1	0	0	0	0	1	0	0	0	16387	1174	41	2	82	2	TP53RK	20	45315471	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	5325192	45315471	17710049	304	41663										
COL20A1	57642	broad.mit.edu	37	chr20	61943356	61943356	+	Silent	SNP	G	T	T													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gagggtgccccgaggcctgtGcgcctggtcagggtcaccta							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr20:61943356G>T	uc011aau.1	+	14	1852	c.1752G>T	c.(1750-1752)GTG>GTT	p.V584V	COL20A1_uc011aav.1_Silent_p.V405V	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	584	Fibronectin type-III 4.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CGAGGCCTGTGCGCCTGGTCA	0.682													17	9	---	---	---	---	PASS	T	61943356	T	T	61943356	2	4	112	1	0	0	0	0	0	0	0	1	3679	1306	46	3		3	COL20A1	20	61943356	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	16627885	61943356	1082164	305	41664	778	2								
COL20A1	57642	broad.mit.edu	37	chr20	61943357	61943357	+	Missense_Mutation	SNP	C	A	A													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agggtgccccgaggcctgtgCgcctggtcagggtcacctat							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr20:61943357C>A	uc011aau.1	+	14	1853	c.1753C>A	c.(1753-1755)CGC>AGC	p.R585S	COL20A1_uc011aav.1_Missense_Mutation_p.R406S	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	585	Fibronectin type-III 4.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					GAGGCCTGTGCGCCTGGTCAG	0.687													17	9	---	---	---	---	PASS	A	61943357	A	A	61943357	3	1	112	1	0	0	0	0	1	0	0	0	3679	768	27	1	1803	1	COL20A1	20	61943357	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1	61943357	1082163	306	41665	778	2								
TPTE	7179	broad.mit.edu	37	chr21	10906938	10906938	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gctacaacatcactggaagtCattttctcgccaaaaagtat	6	10	3	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr21:10906938C>T	uc002yip.1	-	24	1991	c.1623G>A	c.(1621-1623)ATG>ATA	p.M541I	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.M523I|TPTE_uc002yir.1_Missense_Mutation_p.M503I|TPTE_uc010gkv.1_Missense_Mutation_p.M403I	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	541					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CACTGGAAGTCATTTTCTCGC	0.383													14	93	---	---	---	---	PASS	T	10906938	T	T	10906938	3	4	112	1	0	0	0	0	1	0	0	0	16427	826	29	2	36	2	TPTE	21	10906938	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08		10906938	37222957	307	41666										
ITSN1	6453	broad.mit.edu	37	chr21	35144463	35144463	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	aacagcagcgcaaggagcagGagcgcctggcccagctggag	16	12	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr21:35144463G>T	uc002yta.1	+	12	1409	c.1141G>T	c.(1141-1143)GAG>TAG	p.E381*	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_RNA|ITSN1_uc002ysz.2_Nonsense_Mutation_p.E381*|ITSN1_uc010gmg.2_Nonsense_Mutation_p.E344*|ITSN1_uc010gmh.2_RNA|ITSN1_uc002ysw.2_Nonsense_Mutation_p.E381*|ITSN1_uc010gmi.2_Nonsense_Mutation_p.E344*|ITSN1_uc010gmj.2_Nonsense_Mutation_p.E265*|ITSN1_uc002ysy.2_Nonsense_Mutation_p.E381*|ITSN1_uc002ysx.2_Nonsense_Mutation_p.E344*|ITSN1_uc002ytb.1_Nonsense_Mutation_p.E381*|ITSN1_uc002ytc.1_Nonsense_Mutation_p.E381*|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Nonsense_Mutation_p.E344*|ITSN1_uc010gml.2_RNA|ITSN1_uc002ytj.2_Nonsense_Mutation_p.E381*|ITSN1_uc010gmm.1_RNA|ITSN1_uc002yte.2_Nonsense_Mutation_p.E315*	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	381	Potential.|KLERQ.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						CAAGGAGCAGGAGCGCCTGGC	0.532													21	23	---	---	---	---	PASS	T	35144463	T	T	35144463	4	4	112	1	0	0	0	0	0	1	0	0	7926	1175	41	2	1183	2	ITSN1	21	35144463	Nonsense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	24237525	35144463	12985432	308	41667										
PDE9A	5152	broad.mit.edu	37	chr21	44185586	44185586	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gagaattttgactacagcaaCgaggagcacatgaccctggt	11	9	0	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr21:44185586C>A	uc002zbm.2	+	15	1401	c.1338C>A	c.(1336-1338)AAC>AAA	p.N446K	PDE9A_uc002zbn.2_Missense_Mutation_p.N319K|PDE9A_uc002zbo.2_Missense_Mutation_p.N393K|PDE9A_uc002zbp.2_Missense_Mutation_p.N239K|PDE9A_uc002zbq.2_Missense_Mutation_p.N344K|PDE9A_uc002zbs.2_Missense_Mutation_p.N239K|PDE9A_uc002zbr.2_Missense_Mutation_p.N239K|PDE9A_uc002zbt.2_Missense_Mutation_p.N318K|PDE9A_uc002zbu.2_Missense_Mutation_p.N312K|PDE9A_uc002zbv.2_Missense_Mutation_p.N286K|PDE9A_uc002zbw.2_Missense_Mutation_p.N229K|PDE9A_uc002zbx.2_Missense_Mutation_p.N386K|PDE9A_uc002zby.2_Missense_Mutation_p.N229K|PDE9A_uc002zbz.2_Missense_Mutation_p.N338K|PDE9A_uc002zca.2_Missense_Mutation_p.N405K|PDE9A_uc002zcb.2_Missense_Mutation_p.N420K|PDE9A_uc002zcc.2_Missense_Mutation_p.N345K|PDE9A_uc002zcd.2_Missense_Mutation_p.N360K|PDE9A_uc002zce.2_Missense_Mutation_p.N379K|PDE9A_uc002zcf.2_Missense_Mutation_p.N239K|PDE9A_uc002zcg.2_Missense_Mutation_p.N239K|PDE9A_uc002zch.2_Missense_Mutation_p.N229K|PDE9A_uc010gpf.1_Missense_Mutation_p.N239K	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a	446	Catalytic (By similarity).				platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						ACTACAGCAACGAGGAGCACA	0.498													10	21	---	---	---	---	PASS	A	44185586	A	A	44185586	3	1	112	1	0	0	0	0	1	0	0	0	11655	535	19	1	1476	1	PDE9A	21	44185586	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	9041123	44185586	3944309	309	41668										
PKNOX1	5316	broad.mit.edu	37	chr21	44430176	44430176	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcctcaggcatccactatttCcattattagctttgttgttt	5	10	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr21:44430176C>A	uc002zcq.1	+	4	381	c.193C>A	c.(193-195)CCA>ACA	p.P65T	PKNOX1_uc002zcp.1_Missense_Mutation_p.P65T|PKNOX1_uc011aex.1_Intron|PKNOX1_uc002zcr.2_Missense_Mutation_p.P65T	NM_004571	NP_004562	P55347	PKNX1_HUMAN	PBX/knotted 1 homeobox 1	65							sequence-specific DNA binding			large_intestine(2)	2						TCCACTATTTCCATTATTAGC	0.378													30	69	---	---	---	---	PASS	A	44430176	A	A	44430176	3	1	112	1	0	0	0	0	1	0	0	0	11982	855	30	2	203	2	PKNOX1	21	44430176	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	244590	44430176	3699719	310	41669										
TXNRD2	10587	broad.mit.edu	37	chr22	19864684	19864684	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tgagcgcttggagatgcgcaGcttgactacctcctcagagc	12	12	1	4			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr22:19864684G>A	uc011ahc.1	-	17	1552	c.1519C>T	c.(1519-1521)CTG>TTG	p.L507L	TXNRD2_uc002zql.1_Silent_p.L261L|TXNRD2_uc002zqm.1_RNA|TXNRD2_uc002zqn.1_RNA|TXNRD2_uc002zqo.1_RNA|TXNRD2_uc002zqp.1_RNA|TXNRD2_uc002zqr.1_Silent_p.L506L|TXNRD2_uc002zqj.1_RNA|TXNRD2_uc002zqq.1_Silent_p.L157L	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor	507					cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					GAGATGCGCAGCTTGACTACC	0.667													32	25	---	---	---	---	PASS	A	19864684	A	A	19864684	2	1	112	1	0	0	0	0	0	0	0	1	16805	962	34	3		3	TXNRD2	22	19864684	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08		19864684	31439882	311	41670										
HIC2	23119	broad.mit.edu	37	chr22	21799774	21799774	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gctcccccaagccaaaggctCagacgatgaactctttcttg	8	14	3	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr22:21799774C>T	uc002zur.3	+	3	820	c.590C>T	c.(589-591)TCA>TTA	p.S197L	HIC2_uc002zus.3_Missense_Mutation_p.S197L	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	197					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				GCCAAAGGCTCAGACGATGAA	0.672													13	23	---	---	---	---	PASS	T	21799774	T	T	21799774	3	4	112	1	0	0	0	0	1	0	0	0	7102	838	29	2	596	2	HIC2	22	21799774	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1935090	21799774	29504792	312	41671										
GALR3	8484	broad.mit.edu	37	chr22	38219752	38219752	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tacgccagcagctttacgctGgctgctgtctccgtggacag	12	13	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr22:38219752G>A	uc003aub.1	+	1	364	c.339G>A	c.(337-339)CTG>CTA	p.L113L		NM_003614	NP_003605	O60755	GALR3_HUMAN	galanin receptor 3	113	Helical; Name=3; (Potential).				feeding behavior|learning or memory|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity				0	Melanoma(58;0.045)					GCTTTACGCTGGCTGCTGTCT	0.652													26	30	---	---	---	---	PASS	A	38219752	A	A	38219752	2	1	112	1	0	0	0	0	0	0	0	1	6229	1335	47	3		3	GALR3	22	38219752	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	16419978	38219752	13084814	313	41672										
POLR3H	171568	broad.mit.edu	37	chr22	41928669	41928669	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agggccactgttaccgtgcaCtccttctgggctgcagcctt	11	14	1	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chr22:41928669C>G	uc003baf.2	-	4	349	c.289G>C	c.(289-291)GTG>CTG	p.V97L	POLR3H_uc003bae.2_RNA|POLR3H_uc003bag.2_Missense_Mutation_p.V97L|POLR3H_uc003bai.2_Intron	NM_138338	NP_612211	Q9Y535	RPC8_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	97					innate immune response|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity			skin(1)	1						TTACCGTGCACTCCTTCTGGG	0.552											OREG0026590	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	72	112	---	---	---	---	PASS	G	41928669	G	G	41928669	3	3	112	1	0	0	0	0	1	0	0	0	12236	565	20	4	341	4	POLR3H	22	41928669	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	3708917	41928669	9375897	314	41673										
NR0B1	190	broad.mit.edu	37	chrX	30326572	30326572	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tccacagtctcgaactgcaaGcggtcctgggccagctcaag	11	14	2	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chrX:30326572G>A	uc004dcf.3	-	1	924	c.909C>T	c.(907-909)CGC>CGT	p.R303R		NM_000475	NP_000466	P51843	NR0B1_HUMAN	nuclear receptor subfamily 0, group B, member 1	303	Ligand-binding (By similarity).				adrenal gland development|hypothalamus development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of steroid hormone receptor signaling pathway|pituitary gland development|protein localization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid biosynthetic process	cytoplasm|membrane fraction|nucleoplasm|nucleus|polysomal ribosome	AF-2 domain binding|DNA hairpin binding|ligand-regulated transcription factor activity|protein domain specific binding|protein homodimerization activity|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|steroid hormone receptor binding|transcription corepressor activity|transcription factor binding			ovary(1)|lung(1)	2					Dexamethasone(DB01234)|Tretinoin(DB00755)	CGAACTGCAAGCGGTCCTGGG	0.657											OREG0019719	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	2	---	---	---	---	PASS	A	30326572	A	A	30326572	2	1	112	1	0	0	0	0	0	0	0	1	10613	958	34	3		3	NR0B1	23	30326572	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08		30326572	124943988	315	41674										
FAM47C	442444	broad.mit.edu	37	chrX	37028554	37028554	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	agactcgcgtatctcatctcCgcccagagcctcctgagact	8	16	2	3			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chrX:37028554C>T	uc004ddl.1	+	1	2085	c.2071C>T	c.(2071-2073)CGC>TGC	p.R691C		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	691										ovary(3)	3						ATCTCATCTCCGCCCAGAGCC	0.657													49	9	---	---	---	---	PASS	T	37028554	T	T	37028554	3	4	112	1	0	0	0	0	1	0	0	0	5571	652	23	1	2073	1	FAM47C	23	37028554	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	6701982	37028554	118242006	316	41675										
FAM47C	442444	broad.mit.edu	37	chrX	37029564	37029564	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gtttacaagtacaaagaagaCgtcacagatgcatcggaaga	10	7	1	4			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chrX:37029564C>A	uc004ddl.1	+	1	3095	c.3081C>A	c.(3079-3081)GAC>GAA	p.D1027E		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	1027										ovary(3)	3						ACAAAGAAGACGTCACAGATG	0.383													96	14	---	---	---	---	PASS	A	37029564	A	A	37029564	3	1	112	1	0	0	0	0	1	0	0	0	5571	535	19	1	3083	1	FAM47C	23	37029564	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	1010	37029564	118240996	317	41676										
ZNF630	57232	broad.mit.edu	37	chrX	47920198	47920198	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	cacagggaatctgcccttacCcacggagaccaggtgattat	10	12	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chrX:47920198C>T	uc004div.3	-	3	394	c.142G>A	c.(142-144)GGG>AGG	p.G48R	ZNF630_uc010nhz.1_RNA|ZNF630_uc004diw.2_5'UTR	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	48	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2						CTGCCCTTACCCACGGAGACC	0.468													23	2	---	---	---	---	PASS	T	47920198	T	T	47920198	3	4	112	1	0	0	0	0	1	0	0	0	18051	637	22	3	1843	3	ZNF630	23	47920198	Missense_Mutation	SNP	C	TCGA-51-4080-01A-01D-1458-08	10890634	47920198	107350362	318	41677										
GSPT2	23708	broad.mit.edu	37	chrX	51488591	51488591	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	attggaaaagttctgaaattGgtcccagagaaggactaagc	11	6	1	2			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chrX:51488591G>A	uc004dpl.2	+	1	2095	c.1869G>A	c.(1867-1869)TTG>TTA	p.L623L		NM_018094	NP_060564	Q8IYD1	ERF3B_HUMAN	peptide chain release factor 3	623					cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|translational termination	cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1	Ovarian(276;0.236)					TTCTGAAATTGGTCCCAGAGA	0.418													35	6	---	---	---	---	PASS	A	51488591	A	A	51488591	2	1	112	1	0	0	0	0	0	0	0	1	6827	1339	47	3		3	GSPT2	23	51488591	Silent	SNP	G	TCGA-51-4080-01A-01D-1458-08	3568393	51488591	103781969	319	41678										
SMC1A	8243	broad.mit.edu	37	chrX	53440302	53440302	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tttcgcttgtcatactcctgCgccagctccccagaacgact	7	16	1	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chrX:53440302C>T	uc004dsg.2	-	4	564	c.495G>A	c.(493-495)GCG>GCA	p.A165A	SMC1A_uc011moe.1_Silent_p.A143A|SMC1A_uc011mof.1_Intron|SMC1A_uc004dsi.1_Silent_p.A31A	NM_006306	NP_006297	Q14683	SMC1A_HUMAN	structural maintenance of chromosomes 1A	165	Potential.				cell cycle checkpoint|cell division|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic sister chromatid cohesion|mitotic spindle organization|negative regulation of DNA endoreduplication|nuclear mRNA splicing, via spliceosome|response to radiation|signal transduction in response to DNA damage	cohesin core heterodimer|condensed chromosome kinetochore|condensed nuclear chromosome|cytoplasm|meiotic cohesin complex|nucleoplasm	ATP binding|chromatin binding|microtubule motor activity|protein heterodimerization activity			ovary(5)|central_nervous_system(1)	6						CATACTCCTGCGCCAGCTCCC	0.463													4	106	---	---	---	---	PASS	T	53440302	T	T	53440302	2	4	112	1	0	0	0	0	0	0	0	1	14781	755	27	1		1	SMC1A	23	53440302	Silent	SNP	C	TCGA-51-4080-01A-01D-1458-08	1951711	53440302	101830258	320	41679										
KLHL4	56062	broad.mit.edu	37	chrX	86869560	86869560	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	gcactaaattccttggtgcaGtatgcttacacaggtaagtg	10	8	0	0			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chrX:86869560G>T	uc004efb.2	+	3	896	c.714G>T	c.(712-714)CAG>CAT	p.Q238H	KLHL4_uc004efa.2_Missense_Mutation_p.Q238H	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	238	BTB.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CCTTGGTGCAGTATGCTTACA	0.348													39	6	---	---	---	---	PASS	T	86869560	T	T	86869560	3	4	112	1	0	0	0	0	1	0	0	0	8391	1020	36	3	724	3	KLHL4	23	86869560	Missense_Mutation	SNP	G	TCGA-51-4080-01A-01D-1458-08	33429258	86869560	68401000	321	41680										
ALG13	79868	broad.mit.edu	37	chrX	110970594	110970594	+	Frame_Shift_Del	DEL	C	-	-													0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	ttataaacaggcacaacatgCcgggccctaaagttgatttt							TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chrX:110970594delC	uc011msy.1	+	17	2045	c.2011delC	c.(2011-2013)CCGfs	p.P671fs	ALG13_uc011msx.1_Frame_Shift_Del_p.P567fs|ALG13_uc011msz.1_Frame_Shift_Del_p.P593fs|ALG13_uc011mta.1_Frame_Shift_Del_p.P567fs|ALG13_uc011mtb.1_Frame_Shift_Del_p.P567fs			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	671					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						GCACAACATGCCGGGCCCTAA	0.398													2	31	---	---	---	---		-	110970594	-	-	110970594	7	5	112	1	0	1	0	1	0	0	0	0	515	739	26	0	2219	0	ALG13	23	110970594	Frame_Shift_Del	DEL	C	TCGA-51-4080-01A-01D-1458-08	24101034	110970594	44299966	322	41681										
MAGEA12	4111	broad.mit.edu	37	chrX	151900150	151900150	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441640378548896	14	0.81462704676232	0.857741717376606	0.788195091643368	0.889122511914774	0.118849833020996	0.420728408894326	0	tcctcccagattttctcctcAggggcacagtcgccctcttt	7	16	3	1			TCGA-51-4080-01A-01D-1458-08	TCGA-51-4080-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	2498ada2-b8d3-4220-8283-45af67a8119a	899abba0-6baf-487d-b913-ac6ffc6ac078	g.chrX:151900150A>G	uc010ntp.2	-	3	1005	c.651T>C	c.(649-651)CCT>CCC	p.P217P	MAGEA12_uc004fgb.2_Intron|MAGEA12_uc004fgc.2_Silent_p.P217P	NM_005367	NP_005358	P43365	MAGAC_HUMAN	melanoma antigen family A, 12	217	MAGE.									skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TTTTCTCCTCAGGGGCACAGT	0.562													118	15	---	---	---	---	PASS	G	151900150	G	G	151900150	2	3	112	1	0	0	0	0	0	0	0	1	9166	175	7	5		5	MAGEA12	23	151900150	Silent	SNP	A	TCGA-51-4080-01A-01D-1458-08	40929556	151900150	3370410	323	41682										
EXTL1	2134	broad.mit.edu	37	chr1	26360343	26360343	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tcaccacagccgccttctacCataggtacagacccctaccc	5	19	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:26360343C>G	uc001blf.2	+	9	2542	c.1675C>G	c.(1675-1677)CAT>GAT	p.H559D		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	559	Lumenal (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		CGCCTTCTACCATAGGTACAG	0.493													38	21	---	---	---	---	PASS	G	26360343	G	G	26360343	3	3	113	1	0	0	0	0	1	0	0	0	5325	594	21	4	1709	4	EXTL1	1	26360343	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08		26360343	222890278	1	41683										
ARID1A	8289	broad.mit.edu	37	chr1	27094433	27094440	+	Frame_Shift_Del	DEL	ACCTCTGG	-	-													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctgcctgctgtgggtaggaaAcctctggacctctatcgcct							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:27094433_27094440delACCTCTGG	uc001bmv.1	+	11	3514_3521	c.3141_3148delACCTCTGG	c.(3139-3150)AAACCTCTGGACfs	p.K1047fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.K1047fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.K1047fs|ARID1A_uc001bmw.1_Frame_Shift_Del_p.K664fs	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1047_1050	ARID.				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)		TGGGTAGGAAACCTCTGGACCTCTATCG	0.553			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								77	39	---	---	---	---		-	27094440	-	-	27094433	7	5	113	1	0	1	0	1	0	0	0	0	913	40	2	0	3183	0	ARID1A	1	27094433	Frame_Shift_Del	DEL	ACCTCTGG	TCGA-51-4081-01A-01D-1458-08	734090	27094433	222156188	2	41684										
THRAP3	9967	broad.mit.edu	37	chr1	36755344	36755344	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggtcaatgtccggatggactCttttgatgaggacctcgcac	12	10	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:36755344C>G	uc001cae.3	+	5	1948	c.1724C>G	c.(1723-1725)TCT>TGT	p.S575C	THRAP3_uc001caf.3_Missense_Mutation_p.S575C|THRAP3_uc001cag.1_Missense_Mutation_p.S575C	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	575					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CGGATGGACTCTTTTGATGAG	0.517			T	USP6	aneurysmal bone cysts								59	46	---	---	---	---	PASS	G	36755344	G	G	36755344	3	3	113	1	0	0	0	0	1	0	0	0	15871	913	32	2	1734	2	THRAP3	1	36755344	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	9660911	36755344	212495277	3	41685										
DMBX1	127343	broad.mit.edu	37	chr1	46976739	46976739	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aggcccccactccagataccCagctggacactgagcagccc	9	18	0	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:46976739C>A	uc001cpx.2	+	3	496	c.481C>A	c.(481-483)CAG>AAG	p.Q161K	DMBX1_uc001cpw.2_Missense_Mutation_p.Q156K	NM_147192	NP_671725	Q8NFW5	DMBX1_HUMAN	diencephalon/mesencephalon homeobox 1 isoform b	161					brain development|developmental growth|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TCCAGATACCCAGCTGGACAC	0.637													55	52	---	---	---	---	PASS	A	46976739	A	A	46976739	3	1	113	1	0	0	0	0	1	0	0	0	4578	595	21	3	491	3	DMBX1	1	46976739	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	10221395	46976739	202273882	4	41686										
AMY2B	280	broad.mit.edu	37	chr1	104120396	104120396	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cagccttttacaaactggtaTgataatgggagcaaccaagt	9	8	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:104120396T>A	uc001duq.2	+	11	1891	c.1275T>A	c.(1273-1275)TAT>TAA	p.Y425*	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Nonsense_Mutation_p.Y425*|AMY2B_uc001dus.1_RNA	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	425					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		CAAACTGGTATGATAATGGGA	0.338													35	217	---	---	---	---	PASS	A	104120396	A	A	104120396	4	1	113	1	0	0	0	0	0	1	0	0	595	1471	51	5	1309	5	AMY2B	1	104120396	Nonsense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	57143657	104120396	145130225	5	41687										
ACP6	51205	broad.mit.edu	37	chr1	147131642	147131642	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tgcccagcaaacatgcccccCtaaagtagggaagaaagaga	10	11	0	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:147131642C>T	uc001epr.2	-	3	813	c.349_splice	c.e3-1	p.G117_splice	ACP6_uc009wjj.1_Splice_Site_p.G74_splice	NM_016361	NP_057445	Q9NPH0	PPA6_HUMAN	acid phosphatase 6, lysophosphatidic precursor						lipid metabolic process	extracellular region|mitochondrion	acid phosphatase activity|protein binding			ovary(4)	4	all_hematologic(923;0.0276)					ACATGCCCCCCTAAAGTAGGG	0.507													38	49	---	---	---	---	PASS	T	147131642	T	T	147131642	5	4	113	1	0	0	0	0	0	0	1	0	165	695	24	3	970	3	ACP6	1	147131642	Splice_Site	SNP	C	TCGA-51-4081-01A-01D-1458-08	43011246	147131642	102118979	6	41688										
TCHH	7062	broad.mit.edu	37	chr1	152080826	152080826	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctggagcagctgttcgtcttCgcggaattttctgtcgcgct	12	11	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:152080826C>T	uc001ezp.2	-	2	4867	c.4867G>A	c.(4867-4869)GAA>AAA	p.E1623K	TCHH_uc009wne.1_Missense_Mutation_p.E1623K	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1623	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTTCGTCTTCGCGGAATTTT	0.597													10	189	---	---	---	---	PASS	T	152080826	T	T	152080826	3	4	113	1	0	0	0	0	1	0	0	0	15697	893	31	2	968	2	TCHH	1	152080826	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	4949184	152080826	97169795	7	41689										
FLG2	388698	broad.mit.edu	37	chr1	152325922	152325922	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gttgagatccggcttggccaTgagtttgttcttgtgattgt	13	6	1	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:152325922T>C	uc001ezw.3	-	3	4413	c.4340A>G	c.(4339-4341)CAT>CGT	p.H1447R	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1447							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGCTTGGCCATGAGTTTGTTC	0.522													262	434	---	---	---	---	PASS	C	152325922	C	C	152325922	3	2	113	1	0	0	0	0	1	0	0	0	5923	1464	51	5	2839	5	FLG2	1	152325922	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	245096	152325922	96924699	8	41690										
PYGO2	90780	broad.mit.edu	37	chr1	154931905	154931905	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggtgggtgagatcatgggacCaaatccccccactgggcccg	14	13	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:154931905C>A	uc001fft.2	-	3	777	c.571G>T	c.(571-573)GGT>TGT	p.G191C		NM_138300	NP_612157	Q9BRQ0	PYGO2_HUMAN	pygopus homolog 2	191	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding|zinc ion binding			skin(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			ATCATGGGACCAAATCCCCCC	0.592													20	119	---	---	---	---	PASS	A	154931905	A	A	154931905	3	1	113	1	0	0	0	0	1	0	0	0	12864	594	21	3	653	3	PYGO2	1	154931905	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	2605983	154931905	94318716	9	41691										
SPTA1	6708	broad.mit.edu	37	chr1	158590100	158590100	+	Missense_Mutation	SNP	C	A	A													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aaagtctgcttgagccctagCcagggaggccaagaagtcct							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:158590100C>A	uc001fst.1	-	44	6476	c.6277G>T	c.(6277-6279)GCT>TCT	p.A2093S		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2093	Spectrin 20.				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)					TGAGCCCTAGCCAGGGAGGCC	0.493													59	77	---	---	---	---	PASS	A	158590100	A	A	158590100	3	1	113	1	0	0	0	0	1	0	0	0	15115	739	26	3	1018	3	SPTA1	1	158590100	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	3658195	158590100	90660521	10	41692	779	2								
SPTA1	6708	broad.mit.edu	37	chr1	158590101	158590101	+	Silent	SNP	C	A	A													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aagtctgcttgagccctagcCagggaggccaagaagtcctc							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:158590101C>A	uc001fst.1	-	44	6475	c.6276G>T	c.(6274-6276)CTG>CTT	p.L2092L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2092	Spectrin 20.				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)					GAGCCCTAGCCAGGGAGGCCA	0.498													59	75	---	---	---	---	PASS	A	158590101	A	A	158590101	2	1	113	1	0	0	0	0	0	0	0	1	15115	581	21	3		3	SPTA1	1	158590101	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	1	158590101	90660520	11	41693	779	2								
NPHS2	7827	broad.mit.edu	37	chr1	179528818	179528818	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccatcatttggcttacctcaTgaaaaggtatctccagagtt	7	10	3	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:179528818T>G	uc001gmq.3	-	4	615	c.530A>C	c.(529-531)CAT>CCT	p.H177P	NPHS2_uc009wxi.2_Missense_Mutation_p.H177P	NM_014625	NP_055440	Q9NP85	PODO_HUMAN	podocin	177	Cytoplasmic (Potential).				excretion	integral to plasma membrane	protein binding				0						GCTTACCTCATGAAAAGGTAT	0.373													5	18	---	---	---	---	PASS	G	179528818	G	G	179528818	3	3	113	1	0	0	0	0	1	0	0	0	10583	1464	51	5	641	5	NPHS2	1	179528818	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	20938717	179528818	69721803	12	41694										
LAMC1	3915	broad.mit.edu	37	chr1	183086559	183086559	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tctcagacagctactttcctCggtacttcattgctcctggt	7	13	2	1	rs150392886	by1000genomes	TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:183086559C>A	uc001gpy.3	+	9	1926	c.1669C>A	c.(1669-1671)CGG>AGG	p.R557R		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	557	Laminin IV type A.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTACTTTCCTCGGTACTTCAT	0.517													3	76	---	---	---	---	PASS	A	183086559	A	A	183086559	2	1	113	1	0	0	0	0	0	0	0	1	8614	875	31	2		2	LAMC1	1	183086559	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	3557741	183086559	66164062	13	41695										
NR5A2	2494	broad.mit.edu	37	chr1	200017366	200017366	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aatgtacaagagagacagggCcctgaagcaacagaaaaaag	11	7	0	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:200017366C>A	uc001gvb.2	+	5	736	c.530C>A	c.(529-531)GCC>GAC	p.A177D	NR5A2_uc001gvc.2_Missense_Mutation_p.A131D|NR5A2_uc009wzh.2_Missense_Mutation_p.A137D|NR5A2_uc010pph.1_Missense_Mutation_p.A105D	NM_205860	NP_995582	O00482	NR5A2_HUMAN	nuclear receptor subfamily 5, group A, member 2	177	FTZ-F1 box.				embryo development|positive regulation of viral genome replication|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	lipid binding|protein binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Prostate(682;0.19)					AGAGACAGGGCCCTGAAGCAA	0.537													87	126	---	---	---	---	PASS	A	200017366	A	A	200017366	3	1	113	1	0	0	0	0	1	0	0	0	10636	739	26	3	548	3	NR5A2	1	200017366	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	16930807	200017366	49233255	14	41696										
PLEKHA6	22874	broad.mit.edu	37	chr1	204199696	204199696	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cttcccctcgccaggaaacaCagcactcttggggcgttcct	9	16	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:204199696C>T	uc001hau.2	-	18	2745	c.2428G>A	c.(2428-2430)GTG>ATG	p.V810M		NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	810										ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			CCAGGAAACACAGCACTCTTG	0.572													11	11	---	---	---	---	PASS	T	204199696	T	T	204199696	3	4	113	1	0	0	0	0	1	0	0	0	12060	478	17	3	738	3	PLEKHA6	1	204199696	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	4182330	204199696	45050925	15	41697										
CEP170	9859	broad.mit.edu	37	chr1	243328002	243328002	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttggaagggtggttgatttaCtagatgaaccagataccacc	11	7	0	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:243328002C>A	uc001hzs.2	-	13	3668	c.3260G>T	c.(3259-3261)AGT>ATT	p.S1087I	CEP170_uc001hzt.2_Missense_Mutation_p.S989I|CEP170_uc001hzu.2_Missense_Mutation_p.S989I|CEP170_uc001hzv.1_Missense_Mutation_p.S465I	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	1087	Targeting to microtubules.					centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			GGTTGATTTACTAGATGAACC	0.488													40	82	---	---	---	---	PASS	A	243328002	A	A	243328002	3	1	113	1	0	0	0	0	1	0	0	0	3250	565	20	3	1556	3	CEP170	1	243328002	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	39128306	243328002	5922619	16	41698										
OR2G2	81470	broad.mit.edu	37	chr1	247751962	247751962	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctatcgcctatggtggctgtTtggttcacctttacaactcc	8	12	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr1:247751962T>A	uc010pyy.1	+	1	301	c.301T>A	c.(301-303)TTG>ATG	p.L101M		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	101	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TGGTGGCTGTTTGGTTCACCT	0.552													89	191	---	---	---	---	PASS	A	247751962	A	A	247751962	3	1	113	1	0	0	0	0	1	0	0	0	10998	1838	64	5	303	5	OR2G2	1	247751962	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	4423960	247751962	1498659	17	41699										
PXDN	7837	broad.mit.edu	37	chr2	1652640	1652640	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cgcggtggtccccggccaggAagcaggggatggggctctcg	19	12	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:1652640A>G	uc002qxa.2	-	17	2976	c.2912T>C	c.(2911-2913)TTC>TCC	p.F971S		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	971					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CCCGGCCAGGAAGCAGGGGAT	0.697													3	18	---	---	---	---	PASS	G	1652640	G	G	1652640	3	3	113	1	0	0	0	0	1	0	0	0	12847	246	9	5	1555	5	PXDN	2	1652640	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08		1652640	241546733	18	41700										
ROCK2	9475	broad.mit.edu	37	chr2	11337440	11337440	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tactgtccaatgtcatctgcAgttcaattcgaatctggctc	7	11	4	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:11337440A>G	uc002rbd.1	-	27	3763	c.3314T>C	c.(3313-3315)CTG>CCG	p.L1105P		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	1105	Potential.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		TGTCATCTGCAGTTCAATTCG	0.393													6	183	---	---	---	---	PASS	G	11337440	G	G	11337440	3	3	113	1	0	0	0	0	1	0	0	0	13518	188	7	5	880	5	ROCK2	2	11337440	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	9684800	11337440	231861933	19	41701										
PKDCC	91461	broad.mit.edu	37	chr2	42281206	42281206	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gcctgggccgcctcctccacCacctggcccactccccactg	8	23	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:42281206C>A	uc002rsg.2	+	3	972	c.793C>A	c.(793-795)CAC>AAC	p.H265N		NM_138370	NP_612379	Q504Y2	PKDCC_HUMAN	protein kinase-like protein SgK493	265	Protein kinase.				cell differentiation|embryonic digestive tract development|lung alveolus development|negative regulation of Golgi to plasma membrane protein transport|ossification|palate development|positive regulation of bone mineralization|positive regulation of chondrocyte differentiation|protein transport	Golgi apparatus	ATP binding|protein kinase activity			breast(1)	1						CCTCCTCCACCACCTGGCCCA	0.627													9	130	---	---	---	---	PASS	A	42281206	A	A	42281206	3	1	113	1	0	0	0	0	1	0	0	0	11969	594	21	3	803	3	PKDCC	2	42281206	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	30943766	42281206	200918167	20	41702										
ANXA4	307	broad.mit.edu	37	chr2	70015273	70015273	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggaaggccatgaaagggctcGgtatgtgtcctgctggaagt	16	7	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:70015273G>T	uc002sfr.3	+	3	324	c.97G>T	c.(97-99)GGC>TGC	p.G33C	ANXA4_uc010yqn.1_RNA|ANXA4_uc002sfs.3_Missense_Mutation_p.G33C|ANXA4_uc010yqo.1_Intron	NM_001153	NP_001144	P09525	ANXA4_HUMAN	annexin IV	31	Annexin 1.				anti-apoptosis|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity				0						GAAAGGGCTCGGTATGTGTCC	0.547													35	76	---	---	---	---	PASS	T	70015273	T	T	70015273	3	4	113	1	0	0	0	0	1	0	0	0	720	1130	39	1	103	1	ANXA4	2	70015273	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	27734067	70015273	173184100	21	41703										
RAB11FIP5	26056	broad.mit.edu	37	chr2	73303202	73303202	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctcccagatgtgactgttttGagcttctccagcccactgct	8	14	1	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:73303202G>C	uc002siu.3	-	4	1918	c.1677C>G	c.(1675-1677)CTC>CTG	p.L559L	RAB11FIP5_uc002sis.3_5'UTR|RAB11FIP5_uc002sit.3_Silent_p.L481L	NM_015470	NP_056285	Q9BXF6	RFIP5_HUMAN	RAB11 family interacting protein 5 (class I)	559					protein transport	mitochondrial outer membrane|recycling endosome membrane	gamma-tubulin binding				0						TGACTGTTTTGAGCTTCTCCA	0.632													204	315	---	---	---	---	PASS	C	73303202	C	C	73303202	2	2	113	1	0	0	0	0	0	0	0	1	12897	1277	45	2		2	RAB11FIP5	2	73303202	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	3287929	73303202	169896171	22	41704										
ALMS1	7840	broad.mit.edu	37	chr2	73718019	73718019	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	caaagcgccaggtgtagatgAccaaatgaataaacaccatt	8	9	0	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:73718019A>G	uc002sje.1	+	12	9047	c.8936A>G	c.(8935-8937)GAC>GGC	p.D2979G	ALMS1_uc002sjf.1_Missense_Mutation_p.D2935G|ALMS1_uc002sjg.2_Missense_Mutation_p.D2365G|ALMS1_uc002sjh.1_Missense_Mutation_p.D2365G	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2977					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GGTGTAGATGACCAAATGAAT	0.403													111	213	---	---	---	---	PASS	G	73718019	G	G	73718019	3	3	113	1	0	0	0	0	1	0	0	0	535	275	10	5	8968	5	ALMS1	2	73718019	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	414817	73718019	169481354	23	41705										
TXNDC9	10190	broad.mit.edu	37	chr2	99938551	99938551	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttttagcagtgctagtgtggGaatgactttgatatgcagtc	12	5	0	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:99938551G>T	uc002szz.2	-	4	621	c.430C>A	c.(430-432)CCC>ACC	p.P144T	MRPL30_uc002szl.1_Intron|TXNDC9_uc010yvp.1_Missense_Mutation_p.P161T|TXNDC9_uc002taa.1_Missense_Mutation_p.P144T	NM_005783	NP_005774	O14530	TXND9_HUMAN	thioredoxin domain containing 9	144	Thioredoxin.				cell redox homeostasis		protein binding				0						GCTAGTGTGGGAATGACTTTG	0.393													96	228	---	---	---	---	PASS	T	99938551	T	T	99938551	3	4	113	1	0	0	0	0	1	0	0	0	16799	1174	41	2	258	2	TXNDC9	2	99938551	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	26220532	99938551	143260822	24	41706										
LONRF2	164832	broad.mit.edu	37	chr2	100915388	100915388	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	caaaatgtgtgtccacagggCgtagtgacaggttcaaagag	13	7	1	2	rs114518866	by1000genomes	TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:100915388C>G	uc002tal.3	-	7	2026	c.1386G>C	c.(1384-1386)ACG>ACC	p.T462T	LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	462	RING-type.|TPR 6.				proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						GTCCACAGGGCGTAGTGACAG	0.448													44	127	---	---	---	---	PASS	G	100915388	G	G	100915388	2	3	113	1	0	0	0	0	0	0	0	1	8895	755	27	4		4	LONRF2	2	100915388	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	976837	100915388	142283985	25	41707										
POTEF	728378	broad.mit.edu	37	chr2	130832979	130832979	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	attgtagagcctttaaaagaTtatcattcctttttttcaca	4	7	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:130832979T>C	uc010fmh.2	-	17	2466	c.2066A>G	c.(2065-2067)AAT>AGT	p.N689S		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	689	Potential.					cell cortex	ATP binding			skin(3)|ovary(2)	5						CTTTAAAAGATTATCATTCCT	0.433													46	42	---	---	---	---	PASS	C	130832979	C	C	130832979	3	2	113	1	0	0	0	0	1	0	0	0	12265	1493	52	5	1165	5	POTEF	2	130832979	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	29917591	130832979	112366394	26	41708										
GALNT13	114805	broad.mit.edu	37	chr2	155098615	155098615	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gtgtttcataatgaagcttgGagcactctccttagaactgt	9	8	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:155098615G>A	uc002tyr.3	+	5	951	c.384G>A	c.(382-384)TGG>TGA	p.W128*	GALNT13_uc002tyt.3_Nonsense_Mutation_p.W128*|GALNT13_uc010foc.1_5'UTR	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	128	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						ATGAAGCTTGGAGCACTCTCC	0.398													55	55	---	---	---	---	PASS	A	155098615	A	A	155098615	4	1	113	1	0	0	0	0	0	1	0	0	6211	1183	41	2	394	2	GALNT13	2	155098615	Nonsense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	24265636	155098615	88100758	27	41709										
FAP	2191	broad.mit.edu	37	chr2	163059394	163059394	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	atacttacagtgaatcctgtGttactctgaatatatttatg	6	6	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:163059394G>A	uc002ucd.2	-	14	1419	c.1211C>T	c.(1210-1212)ACA>ATA	p.T404I	FAP_uc010zct.1_Missense_Mutation_p.T379I|FAP_uc010fpd.2_Intron	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	404	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						TGAATCCTGTGTTACTCTGAA	0.368													43	167	---	---	---	---	PASS	A	163059394	A	A	163059394	3	1	113	1	0	0	0	0	1	0	0	0	5673	1377	48	3	1123	3	FAP	2	163059394	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	7960779	163059394	80139979	28	41710										
WIPF1	7456	broad.mit.edu	37	chr2	175436644	175436644	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggaggccgaaggccgcggagTggaaggcactggaggcttgt	20	8	0	0	rs146135868		TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:175436644T>C	uc002uiy.2	-	6	1221	c.889A>G	c.(889-891)ACT>GCT	p.T297A	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Missense_Mutation_p.T297A|WIPF1_uc010fqt.1_Missense_Mutation_p.T297A|WIPF1_uc002ujc.1_Missense_Mutation_p.T297A|WIPF1_uc002uiz.2_Missense_Mutation_p.T297A|WIPF1_uc002ujb.1_Missense_Mutation_p.T297A|WIPF1_uc010zep.1_Missense_Mutation_p.T297A	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	297	Pro-rich.				actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						GGCCGCGGAGTGGAAGGCACT	0.682													21	11	---	---	---	---	PASS	C	175436644	C	C	175436644	3	2	113	1	0	0	0	0	1	0	0	0	17364	1696	59	5	638	5	WIPF1	2	175436644	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	12377250	175436644	67762729	29	41711										
NFE2L2	4780	broad.mit.edu	37	chr2	178098957	178098957	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tacttctcgacttactccaaGatctatatcttgcctccaaa	3	13	3	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:178098957G>A	uc002ulh.3	-	2	643	c.88C>T	c.(88-90)CTT>TTT	p.L30F	NFE2L2_uc002ulg.3_Missense_Mutation_p.L14F|NFE2L2_uc010zfa.1_Missense_Mutation_p.L14F|NFE2L2_uc002uli.3_Missense_Mutation_p.L14F|NFE2L2_uc010fra.2_Missense_Mutation_p.L14F|NFE2L2_uc010frb.2_Missense_Mutation_p.L14F	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	30					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			CTTACTCCAAGATCTATATCT	0.368			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			40	30	---	---	---	---	PASS	A	178098957	A	A	178098957	3	1	113	1	0	0	0	0	1	0	0	0	10368	942	33	2	1745	2	NFE2L2	2	178098957	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	2662313	178098957	65100416	30	41712										
TTN	7273	broad.mit.edu	37	chr2	179489294	179489294	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tataacaagttttctgacccTgccatcagcaacaatttcat	4	11	3	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:179489294T>C	uc010zfg.1	-	191	37233	c.37009A>G	c.(37009-37011)AGG>GGG	p.R12337G	TTN_uc010zfh.1_Missense_Mutation_p.R6032G|TTN_uc010zfi.1_Missense_Mutation_p.R5965G|TTN_uc010zfj.1_Missense_Mutation_p.R5840G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13264							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)			TTTCTGACCCTGCCATCAGCA	0.393													63	43	---	---	---	---	PASS	C	179489294	C	C	179489294	3	2	113	1	0	0	0	0	1	0	0	0	16732	1579	55	5	63464	5	TTN	2	179489294	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	1390337	179489294	63710079	31	41713										
TTN	7273	broad.mit.edu	37	chr2	179579804	179579804	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	atgtctgcagcatcgacattCaggatgtggatactggttag	12	7	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:179579804C>A	uc010zfg.1	-	87	22601	c.22377G>T	c.(22375-22377)CTG>CTT	p.L7459L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.L4120L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8386							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)			CATCGACATTCAGGATGTGGA	0.448													207	99	---	---	---	---	PASS	A	179579804	A	A	179579804	2	1	113	1	0	0	0	0	0	0	0	1	16732	813	29	2		2	TTN	2	179579804	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	90510	179579804	63619569	32	41714										
SATB2	23314	broad.mit.edu	37	chr2	200298128	200298128	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gcagtctccaccagctggctAaaaagcacatctttccgcac	7	15	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:200298128A>G	uc002uuy.1	-	3	1096	c.279T>C	c.(277-279)TTT>TTC	p.F93F	SATB2_uc010fsq.1_Silent_p.F93F|SATB2_uc002uuz.1_Silent_p.F93F|SATB2_uc002uva.1_Silent_p.F93F	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	93						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCAGCTGGCTAAAAAGCACAT	0.547													3	119	---	---	---	---	PASS	G	200298128	G	G	200298128	2	3	113	1	0	0	0	0	0	0	0	1	13854	359	13	5		5	SATB2	2	200298128	Silent	SNP	A	TCGA-51-4081-01A-01D-1458-08	20718324	200298128	42901245	33	41715										
CHPF	79586	broad.mit.edu	37	chr2	220405116	220405116	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tgcttctggagccgcaaggcCgggtggtagcggcggttcag	18	10	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr2:220405116C>T	uc002vmc.3	-	4	1544	c.1317G>A	c.(1315-1317)CCG>CCA	p.P439P	CHPF_uc010zlh.1_Silent_p.P277P	NM_024536	NP_078812	Q8IZ52	CHSS2_HUMAN	chondroitin polymerizing factor	439	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity|protein binding				0		Renal(207;0.0183)		Epithelial(149;3.02e-08)|all cancers(144;3.41e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		GCCGCAAGGCCGGGTGGTAGC	0.647													15	9	---	---	---	---	PASS	T	220405116	T	T	220405116	2	4	113	1	0	0	0	0	0	0	0	1	3368	639	23	1		1	CHPF	2	220405116	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	20106988	220405116	22794257	34	41716										
TTC21A	199223	broad.mit.edu	37	chr3	39176662	39176662	+	Missense_Mutation	SNP	C	A	A													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	accaagtcttggagaaagcgCcaggtaattctgcccatgga							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:39176662C>A	uc003cjc.2	+	22	3139	c.2962C>A	c.(2962-2964)CCA>ACA	p.P988T	TTC21A_uc003cje.2_Missense_Mutation_p.P989T|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Missense_Mutation_p.P940T|TTC21A_uc003cjf.2_Missense_Mutation_p.P109T	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	988	TPR 15.						binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		GGAGAAAGCGCCAGGTAATTC	0.517													61	27	---	---	---	---	PASS	A	39176662	A	A	39176662	3	1	113	1	0	0	0	0	1	0	0	0	16684	739	26	3	3051	3	TTC21A	3	39176662	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08		39176662	158845768	35	41717	780	2								
TTC21A	199223	broad.mit.edu	37	chr3	39176663	39176663	+	Missense_Mutation	SNP	C	A	A													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccaagtcttggagaaagcgcCaggtaattctgcccatggag							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:39176663C>A	uc003cjc.2	+	22	3140	c.2963C>A	c.(2962-2964)CCA>CAA	p.P988Q	TTC21A_uc003cje.2_Missense_Mutation_p.P989Q|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Missense_Mutation_p.P940Q|TTC21A_uc003cjf.2_Missense_Mutation_p.P109Q	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	988	TPR 15.						binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		GAGAAAGCGCCAGGTAATTCT	0.517													58	27	---	---	---	---	PASS	A	39176663	A	A	39176663	3	1	113	1	0	0	0	0	1	0	0	0	16684	594	21	3	3052	3	TTC21A	3	39176663	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	1	39176663	158845767	36	41718	780	2								
XIRP1	165904	broad.mit.edu	37	chr3	39229489	39229489	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tgctgtcctgcatggcatacActggggaccctatgccctgg	12	13	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:39229489A>G	uc003cjk.1	-	2	1669	c.1448T>C	c.(1447-1449)GTG>GCG	p.V483A	XIRP1_uc003cji.2_Missense_Mutation_p.V483A|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	483							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CATGGCATACACTGGGGACCC	0.577													17	193	---	---	---	---	PASS	G	39229489	G	G	39229489	3	3	113	1	0	0	0	0	1	0	0	0	17426	159	6	5	4087	5	XIRP1	3	39229489	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	52826	39229489	158792941	37	41719										
C3orf23	285343	broad.mit.edu	37	chr3	44438258	44438258	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gtacaatcatatttacagacCgttctggcatgagtgcagtg	10	8	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:44438258C>G	uc010him.2	+	8	1062	c.817C>G	c.(817-819)CGT>GGT	p.R273G	C3orf23_uc003cnd.3_Missense_Mutation_p.R273G|C3orf23_uc003cne.3_Missense_Mutation_p.R129G	NM_173826	NP_776187	Q8N3R3	CC023_HUMAN	hypothetical protein LOC285343 isoform 1	273						mitochondrion				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(197;0.0468)|Kidney(197;0.0585)		ATTTACAGACCGTTCTGGCAT	0.408													7	104	---	---	---	---	PASS	G	44438258	G	G	44438258	3	3	113	1	0	0	0	0	1	0	0	0	2216	652	23	4	895	4	C3orf23	3	44438258	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	5208769	44438258	153584172	38	41720										
COL7A1	1294	broad.mit.edu	37	chr3	48607725	48607725	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tacccggatgcctggctcccCacgctcgcctcggggcccag	12	19	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:48607725C>T	uc003ctz.2	-	97	7424	c.7423G>A	c.(7423-7425)GGG>AGG	p.G2475R		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2475	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CCTGGCTCCCCACGCTCGCCT	0.607													65	39	---	---	---	---	PASS	T	48607725	T	T	48607725	3	4	113	1	0	0	0	0	1	0	0	0	3704	594	21	3	1499	3	COL7A1	3	48607725	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	4169467	48607725	149414705	39	41721										
FEZF2	55079	broad.mit.edu	37	chr3	62357315	62357315	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggtgtggaccggcatgtggcGggtgagattatagtgagcgt	19	5	0	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:62357315G>C	uc003dlh.2	-	2	1087	c.880C>G	c.(880-882)CGC>GGC	p.R294G	FEZF2_uc003dli.2_Missense_Mutation_p.R294G	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	294	C2H2-type 1.				transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		GGCATGTGGCGGGTGAGATTA	0.597													54	29	---	---	---	---	PASS	C	62357315	C	C	62357315	3	2	113	1	0	0	0	0	1	0	0	0	5826	1116	39	4	511	4	FEZF2	3	62357315	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	13749590	62357315	135665115	40	41722										
KIAA2018	205717	broad.mit.edu	37	chr3	113379185	113379185	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gtcacagcagaagatggtgtCtggcttaagggctgaatagt	14	6	2	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:113379185C>G	uc003eam.2	-	7	1755	c.1344G>C	c.(1342-1344)CAG>CAC	p.Q448H	KIAA2018_uc003eal.2_Missense_Mutation_p.Q392H	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	448					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						AAGATGGTGTCTGGCTTAAGG	0.438													65	195	---	---	---	---	PASS	G	113379185	G	G	113379185	3	3	113	1	0	0	0	0	1	0	0	0	8268	912	32	2	5397	2	KIAA2018	3	113379185	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	51021870	113379185	84643245	41	41723										
GTF2E1	2960	broad.mit.edu	37	chr3	120469462	120469462	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aagcggttagccaagtatgtGatccggggattttatggcat	13	6	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:120469462G>A	uc003edz.3	+	2	177	c.63G>A	c.(61-63)GTG>GTA	p.V21V	GTF2E1_uc003edy.2_Silent_p.V21V	NM_005513	NP_005504	P29083	T2EA_HUMAN	general transcription factor IIE, polypeptide 1,	21	HTH TFE/IIEalpha-type.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.159)		CCAAGTATGTGATCCGGGGAT	0.463													208	144	---	---	---	---	PASS	A	120469462	A	A	120469462	2	1	113	1	0	0	0	0	0	0	0	1	6856	1277	45	2		2	GTF2E1	3	120469462	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	7090277	120469462	77552968	42	41724										
OSBPL11	114885	broad.mit.edu	37	chr3	125271293	125271293	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gctacctcgctttttggcatCttccaggaacagtgaaatgt	9	10	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:125271293C>A	uc003eic.2	-	9	2123	c.1386G>T	c.(1384-1386)AAG>AAT	p.K462N		NM_022776	NP_073613	Q9BXB4	OSB11_HUMAN	oxysterol binding protein-like 11	462					lipid transport		lipid binding			ovary(3)|breast(1)|kidney(1)	5						TTTTTGGCATCTTCCAGGAAC	0.453													69	187	---	---	---	---	PASS	A	125271293	A	A	125271293	3	1	113	1	0	0	0	0	1	0	0	0	11276	912	32	2	877	2	OSBPL11	3	125271293	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	4801831	125271293	72751137	43	41725										
PODXL2	50512	broad.mit.edu	37	chr3	127379841	127379841	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gggccgagcacccagatgaaGatccccttggctctagaacc	11	14	1	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:127379841G>T	uc003ejq.2	+	3	994	c.970G>T	c.(970-972)GAT>TAT	p.D324Y		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	324	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						CCCAGATGAAGATCCCCTTGG	0.587													16	224	---	---	---	---	PASS	T	127379841	T	T	127379841	3	4	113	1	0	0	0	0	1	0	0	0	12181	942	33	2	980	2	PODXL2	3	127379841	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	2108548	127379841	70642589	44	41726										
ATP2C1	27032	broad.mit.edu	37	chr3	130685990	130685990	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cccactttgtgatctttaggTtactggagttggctataatc	9	8	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:130685990T>G	uc003enl.2	+	15	1346	c.1124T>G	c.(1123-1125)GTT>GGT	p.V375G	ATP2C1_uc011blg.1_Missense_Mutation_p.V409G|ATP2C1_uc011blh.1_Missense_Mutation_p.V370G|ATP2C1_uc011bli.1_Missense_Mutation_p.V409G|ATP2C1_uc003enk.2_Missense_Mutation_p.V359G|ATP2C1_uc003enm.2_Missense_Mutation_p.V375G|ATP2C1_uc003enn.2_Missense_Mutation_p.V359G|ATP2C1_uc003eno.2_Missense_Mutation_p.V375G|ATP2C1_uc003enp.2_Missense_Mutation_p.V375G|ATP2C1_uc003enq.2_Missense_Mutation_p.V375G|ATP2C1_uc003enr.2_Missense_Mutation_p.V375G|ATP2C1_uc003ens.2_Missense_Mutation_p.V375G|ATP2C1_uc003ent.2_Missense_Mutation_p.V375G|ATP2C1_uc003enu.2_Missense_Mutation_p.V53G	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	375	Cytoplasmic (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	GATCTTTAGGTTACTGGAGTT	0.358									Hailey-Hailey_disease				185	488	---	---	---	---	PASS	G	130685990	G	G	130685990	3	3	113	1	0	0	0	0	1	0	0	0	1143	1739	60	5	1178	5	ATP2C1	3	130685990	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	3306149	130685990	67336440	45	41727										
SLC33A1	9197	broad.mit.edu	37	chr3	155571667	155571667	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccttcccggcccgctgagtcCaaatgactgtcatcccaacc	7	18	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:155571667C>T	uc003fan.3	-	1	501	c.120G>A	c.(118-120)TTG>TTA	p.L40L	SLC33A1_uc003fao.1_Silent_p.L40L	NM_004733	NP_004724	O00400	ACATN_HUMAN	acetyl-coenzyme A transporter	40	Cytoplasmic (Potential).				cell death|transmembrane transport	endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane|membrane fraction	acetyl-CoA transporter activity			ovary(2)|large_intestine(1)|pancreas(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CCGCTGAGTCCAAATGACTGT	0.602													22	154	---	---	---	---	PASS	T	155571667	T	T	155571667	2	4	113	1	0	0	0	0	0	0	0	1	14566	593	21	3		3	SLC33A1	3	155571667	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	24885677	155571667	42450763	46	41728										
GMPS	8833	broad.mit.edu	37	chr3	155654155	155654155	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gggaaaatcagccagatgccGgtgattttgacaccattaca	10	9	1	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:155654155G>T	uc003faq.2	+	15	2171	c.1836G>T	c.(1834-1836)CCG>CCT	p.P612P	GMPS_uc011bom.1_Silent_p.P513P	NM_003875	NP_003866	P49915	GUAA_HUMAN	guanine monophosphate synthetase	612					glutamine metabolic process|purine base biosynthetic process	cytosol	ATP binding|GMP synthase (glutamine-hydrolyzing) activity|GMP synthase activity			ovary(2)|lung(1)	3			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GCCAGATGCCGGTGATTTTGA	0.413			T	MLL	AML								87	225	---	---	---	---	PASS	T	155654155	T	T	155654155	2	4	113	1	0	0	0	0	0	0	0	1	6498	1103	39	1		1	GMPS	3	155654155	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	82488	155654155	42368275	47	41729										
VEPH1	79674	broad.mit.edu	37	chr3	156979090	156979090	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggggagagagcggtccctgcGtttcttggccacagccttca	14	12	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:156979090G>A	uc003fbj.1	-	14	2652	c.2335C>T	c.(2335-2337)CGC>TGC	p.R779C	VEPH1_uc003fbk.1_Missense_Mutation_p.R779C|VEPH1_uc010hvu.1_Missense_Mutation_p.R734C	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	779	PH.					plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			CGGTCCCTGCGTTTCTTGGCC	0.488													8	271	---	---	---	---	PASS	A	156979090	A	A	156979090	3	1	113	1	0	0	0	0	1	0	0	0	17151	1145	40	1	170	1	VEPH1	3	156979090	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	1324935	156979090	41043340	48	41730										
MLF1	4291	broad.mit.edu	37	chr3	158317959	158317959	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aggagttcatcaatatgaatGaaagtaagttatcacaaaaa	7	4	3	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:158317959G>T	uc003fcb.2	+	5	702	c.565G>T	c.(565-567)GAA>TAA	p.E189*	MLF1_uc003fbz.2_Nonsense_Mutation_p.E164*|MLF1_uc003fca.2_Nonsense_Mutation_p.E164*|MLF1_uc003fbx.2_Nonsense_Mutation_p.E179*|MLF1_uc003fcc.2_Nonsense_Mutation_p.E220*|MLF1_uc003fby.2_Nonsense_Mutation_p.E115*|MLF1_uc010hvx.2_Nonsense_Mutation_p.E121*	NM_022443	NP_071888	P58340	MLF1_HUMAN	myeloid leukemia factor 1 isoform 1	189					cell cycle arrest|myeloid progenitor cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein domain specific binding				0		Melanoma(1037;0.000458)|Prostate(884;0.0235)|all_neural(597;0.0299)	Lung(72;0.00199)|LUSC - Lung squamous cell carcinoma(72;0.00256)			CAATATGAATGAAAGTAAGTT	0.289			T	NPM1	AML								86	66	---	---	---	---	PASS	T	158317959	T	T	158317959	4	4	113	1	0	0	0	0	0	1	0	0	9614	1291	45	2	583	2	MLF1	3	158317959	Nonsense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	1338869	158317959	39704471	49	41731										
TNFSF10	8743	broad.mit.edu	37	chr3	172227050	172227050	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cttcctctggtcccagttatGtgagctgctactctctgagg	10	12	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:172227050G>A	uc003fid.2	-	4	470	c.375C>T	c.(373-375)CAC>CAT	p.H125H	TNFSF10_uc003fie.2_Intron	NM_003810	NP_003801	P50591	TNF10_HUMAN	tumor necrosis factor (ligand) superfamily,	125	Extracellular (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of apoptosis by extracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane|soluble fraction	cytokine activity|metal ion binding|tumor necrosis factor receptor binding			skin(4)|lung(1)	5	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.67e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			TCCCAGTTATGTGAGCTGCTA	0.398													15	233	---	---	---	---	PASS	A	172227050	A	A	172227050	2	1	113	1	0	0	0	0	0	0	0	1	16298	1368	48	3		3	TNFSF10	3	172227050	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	13909091	172227050	25795380	50	41732										
PARL	55486	broad.mit.edu	37	chr3	183585724	183585724	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aggataaaagactgtttcttCcacaggaggaatcaaagcac	9	8	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr3:183585724C>A	uc003fmd.2	-	2	309	c.250G>T	c.(250-252)GAA>TAA	p.E84*	PARL_uc003fme.2_Nonsense_Mutation_p.E84*	NM_018622	NP_061092	Q9H300	PARL_HUMAN	presenilin associated, rhomboid-like isoform 1	84	Mitochondrial matrix (Potential).				proteolysis	integral to membrane|mitochondrial inner membrane|nucleus	serine-type endopeptidase activity				0	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.21e-41)|Epithelial(37;1.34e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			ACTGTTTCTTCCACAGGAGGA	0.433													98	247	---	---	---	---	PASS	A	183585724	A	A	183585724	4	1	113	1	0	0	0	0	0	1	0	0	11451	864	30	2	925	2	PARL	3	183585724	Nonsense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	11358674	183585724	14436706	51	41733										
SLC34A2	10568	broad.mit.edu	37	chr4	25665869	25665869	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctgtttcttccaagggattgGgagattgattttacttctcg	10	7	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:25665869G>T	uc003grr.2	+	4	377	c.296G>T	c.(295-297)GGG>GTG	p.G99V	SLC34A2_uc003grs.2_Missense_Mutation_p.G98V|SLC34A2_uc010iev.2_Missense_Mutation_p.G98V	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	99	Cytoplasmic (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				CAAGGGATTGGGAGATTGATT	0.473													19	175	---	---	---	---	PASS	T	25665869	T	T	25665869	3	4	113	1	0	0	0	0	1	0	0	0	14568	1232	43	3	306	3	SLC34A2	4	25665869	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08		25665869	165488407	52	41734										
CCKAR	886	broad.mit.edu	37	chr4	26483565	26483565	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggcgttggcgctgaagatggGcatccagcacaggaagaaga	16	8	0	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:26483565G>C	uc003gse.1	-	5	1135	c.982C>G	c.(982-984)CCC>GCC	p.P328A		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	328	Helical; Name=6; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	CTGAAGATGGGCATCCAGCAC	0.612													11	126	---	---	---	---	PASS	C	26483565	C	C	26483565	3	2	113	1	0	0	0	0	1	0	0	0	2880	1203	42	4	308	4	CCKAR	4	26483565	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	817696	26483565	164670711	53	41735										
KCTD8	386617	broad.mit.edu	37	chr4	44450422	44450422	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccactacttcagggaagggcGagggtgcgcagggccccggg	18	12	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:44450422G>A	uc003gwu.2	-	1	403	c.119C>T	c.(118-120)TCG>TTG	p.S40L		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	40						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						AGGGAAGGGCGAGGGTGCGCA	0.507										HNSCC(17;0.042)			14	8	---	---	---	---	PASS	A	44450422	A	A	44450422	3	1	113	1	0	0	0	0	1	0	0	0	8115	1059	37	2	1310	2	KCTD8	4	44450422	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	17966857	44450422	146703854	54	41736										
SPATA18	132671	broad.mit.edu	37	chr4	52942956	52942956	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	caccaacaggtcctccaggaGccggtctcccagccctgccc	9	20	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:52942956G>A	uc003gzl.2	+	7	1048	c.770G>A	c.(769-771)AGC>AAC	p.S257N	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.S225N|SPATA18_uc003gzk.1_Missense_Mutation_p.S257N	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	257	Ser-rich.				mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			TCCTCCAGGAGCCGGTCTCCC	0.498													16	61	---	---	---	---	PASS	A	52942956	A	A	52942956	3	1	113	1	0	0	0	0	1	0	0	0	15002	971	34	3	796	3	SPATA18	4	52942956	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	8492534	52942956	138211320	55	41737										
CEP135	9662	broad.mit.edu	37	chr4	56890686	56890686	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gagaacgagcaatccaagagAtgcgtcgacatggtcttgct	12	9	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:56890686A>T	uc003hbi.2	+	25	3574	c.3340A>T	c.(3340-3342)ATG>TTG	p.M1114L	CEP135_uc003hbj.2_Missense_Mutation_p.M820L	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	1114	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					AATCCAAGAGATGCGTCGACA	0.388													80	360	---	---	---	---	PASS	T	56890686	T	T	56890686	3	4	113	1	0	0	0	0	1	0	0	0	3247	333	12	5	3434	5	CEP135	4	56890686	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	3947730	56890686	134263590	56	41738										
UGT2B28	54490	broad.mit.edu	37	chr4	70146679	70146679	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	catttttgcagatgctttttTtccttgtggtgagctgctgg	11	7	0	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:70146679T>G	uc003hej.2	+	1	463	c.461T>G	c.(460-462)TTT>TGT	p.F154C	UGT2B28_uc010ihr.2_Missense_Mutation_p.F154C	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	154					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	GATGCTTTTTTTCCTTGTGGT	0.388													5	190	---	---	---	---	PASS	G	70146679	G	G	70146679	3	3	113	1	0	0	0	0	1	0	0	0	16957	1841	64	5	463	5	UGT2B28	4	70146679	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	13255993	70146679	121007597	57	41739										
C4orf21	55345	broad.mit.edu	37	chr4	113524783	113524783	+	Missense_Mutation	SNP	G	A	A													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	actgactgcatcctagctgtGagctgtgtcctctgaccatt							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:113524783G>A	uc003iau.2	-	10	3084	c.2873C>T	c.(2872-2874)TCA>TTA	p.S958L	C4orf21_uc003iaw.2_Missense_Mutation_p.S958L	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		TCCTAGCTGTGAGCTGTGTCC	0.408													48	76	---	---	---	---	PASS	A	113524783	A	A	113524783	3	1	113	1	0	0	0	0	1	0	0	0	2254	1294	45	2	3517	2	C4orf21	4	113524783	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	43378104	113524783	77629493	58	41740	781	2								
C4orf21	55345	broad.mit.edu	37	chr4	113524786	113524786	+	Missense_Mutation	SNP	C	T	T													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gactgcatcctagctgtgagCtgtgtcctctgaccattaca							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:113524786C>T	uc003iau.2	-	10	3081	c.2870G>A	c.(2869-2871)AGC>AAC	p.S957N	C4orf21_uc003iaw.2_Missense_Mutation_p.S957N	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		TAGCTGTGAGCTGTGTCCTCT	0.408													48	77	---	---	---	---	PASS	T	113524786	T	T	113524786	3	4	113	1	0	0	0	0	1	0	0	0	2254	797	28	3	3520	3	C4orf21	4	113524786	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	3	113524786	77629490	59	41741	781	2								
PCDH10	57575	broad.mit.edu	37	chr4	134071539	134071539	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tgaacgagaaaatagaccgcGaacaaatctgcaaacagagc	9	9	1	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:134071539G>A	uc003iha.2	+	1	1070	c.244G>A	c.(244-246)GAA>AAA	p.E82K	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.E82K	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	82	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AATAGACCGCGAACAAATCTG	0.562													29	91	---	---	---	---	PASS	A	134071539	A	A	134071539	3	1	113	1	0	0	0	0	1	0	0	0	11507	1059	37	2	246	2	PCDH10	4	134071539	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	20546753	134071539	57082737	60	41742										
CCRN4L	25819	broad.mit.edu	37	chr4	139966421	139966421	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tcagaacccccatacactacCtggaagatccggacctcagg	8	15	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:139966421C>T	uc003ihl.2	+	3	1282	c.1089C>T	c.(1087-1089)ACC>ACT	p.T363T		NM_012118	NP_036250	Q9UK39	NOCT_HUMAN	CCR4 carbon catabolite repression 4-like	363					rhythmic process|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_hematologic(180;0.162)					CATACACTACCTGGAAGATCC	0.517													37	80	---	---	---	---	PASS	T	139966421	T	T	139966421	2	4	113	1	0	0	0	0	0	0	0	1	2951	668	24	3		3	CCRN4L	4	139966421	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	5894882	139966421	51187855	61	41743										
TBC1D9	23158	broad.mit.edu	37	chr4	141543385	141543385	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gagatttcatagtcactggcCgaggtgaggggcttgcccat	14	9	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:141543385C>A	uc010ioj.2	-	21	4037	c.3765G>T	c.(3763-3765)TCG>TCT	p.S1255S		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	1255						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				AGTCACTGGCCGAGGTGAGGG	0.572													4	109	---	---	---	---	PASS	A	141543385	A	A	141543385	2	1	113	1	0	0	0	0	0	0	0	1	15624	639	23	1		1	TBC1D9	4	141543385	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	1576964	141543385	49610891	62	41744										
FBXW7	55294	broad.mit.edu	37	chr4	153247367	153247367	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aaccctaagagtggcatctcGagaaccgctaacaactctgc	8	13	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:153247367G>A	uc003ims.2	-	10	1584	c.1435C>T	c.(1435-1437)CGA>TGA	p.R479*	FBXW7_uc011cii.1_Nonsense_Mutation_p.R479*|FBXW7_uc003imt.2_Nonsense_Mutation_p.R479*|FBXW7_uc011cih.1_Nonsense_Mutation_p.R303*|FBXW7_uc003imq.2_Nonsense_Mutation_p.R399*|FBXW7_uc003imr.2_Nonsense_Mutation_p.R361*	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	479	WD 3.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R479Q(31)|p.R479L(6)|p.R479G(3)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				GTGGCATCTCGAGAACCGCTA	0.398			Mis|N|D|F		colorectal|endometrial|T-ALL								32	58	---	---	---	---	PASS	A	153247367	A	A	153247367	4	1	113	1	0	0	0	0	0	1	0	0	5769	1066	37	2	700	2	FBXW7	4	153247367	Nonsense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	11703982	153247367	37906909	63	41745										
NPY5R	4889	broad.mit.edu	37	chr4	164272519	164272519	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aataaaaaagagatctcgaaGtgttttctacagactgacca	7	7	2	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:164272519G>T	uc003iqn.2	+	4	1276	c.1094G>T	c.(1093-1095)AGT>ATT	p.S365I		NM_006174	NP_006165	Q15761	NPY5R_HUMAN	neuropeptide Y receptor Y5	365	Cytoplasmic (Potential).				cardiac left ventricle morphogenesis|outflow tract morphogenesis	integral to plasma membrane				lung(6)|skin(1)	7	all_hematologic(180;0.166)	Prostate(90;0.109)				AGATCTCGAAGTGTTTTCTAC	0.353													45	100	---	---	---	---	PASS	T	164272519	T	T	164272519	3	4	113	1	0	0	0	0	1	0	0	0	10610	1029	36	3	1096	3	NPY5R	4	164272519	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	11025152	164272519	26881757	64	41746										
WDR17	116966	broad.mit.edu	37	chr4	177032751	177032751	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	catgtcccaggtaaggcaagTgggattgctggctgctggat	15	8	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:177032751T>A	uc003iuj.2	+	3	248	c.92T>A	c.(91-93)GTG>GAG	p.V31E	WDR17_uc003iuk.2_Missense_Mutation_p.V7E|WDR17_uc003ium.3_Missense_Mutation_p.V7E|WDR17_uc003iul.1_Missense_Mutation_p.V7E	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	31										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		GTAAGGCAAGTGGGATTGCTG	0.408													33	66	---	---	---	---	PASS	A	177032751	A	A	177032751	3	1	113	1	0	0	0	0	1	0	0	0	17274	1696	59	5	98	5	WDR17	4	177032751	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	12760232	177032751	14121525	65	41747										
WDR17	116966	broad.mit.edu	37	chr4	177098633	177098633	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aaaatatagatcattagaagActctccgtatacaccccctt	4	11	2	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:177098633A>T	uc003iuj.2	+	30	3833	c.3677A>T	c.(3676-3678)GAC>GTC	p.D1226V	WDR17_uc003iuk.2_Missense_Mutation_p.D1202V|WDR17_uc003ium.3_Missense_Mutation_p.D1187V|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.D437V	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	1226										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TCATTAGAAGACTCTCCGTAT	0.299													29	138	---	---	---	---	PASS	T	177098633	T	T	177098633	3	4	113	1	0	0	0	0	1	0	0	0	17274	275	10	5	3791	5	WDR17	4	177098633	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	65882	177098633	14055643	66	41748										
SPATA4	132851	broad.mit.edu	37	chr4	177113789	177113789	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aaaacttacctggattcaatTttctgcctaattttctttgc	4	9	3	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr4:177113789T>C	uc003iuo.1	-	4	786	c.677A>G	c.(676-678)AAA>AGA	p.K226R		NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4	226					apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)		TGGATTCAATTTTCTGCCTAA	0.398													28	57	---	---	---	---	PASS	C	177113789	C	C	177113789	3	2	113	1	0	0	0	0	1	0	0	0	15009	1841	64	5	252	5	SPATA4	4	177113789	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	15156	177113789	14040487	67	41749										
NKD2	85409	broad.mit.edu	37	chr5	1038076	1038076	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	agcctcggagcctgctgcccGggccctggacacgcagcccc	13	19	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr5:1038076G>C	uc003jbt.1	+	10	949	c.944G>C	c.(943-945)CGG>CCG	p.R315P	NKD2_uc010itf.1_3'UTR	NM_033120	NP_149111	Q969F2	NKD2_HUMAN	naked cuticle homolog 2	315	Interaction with TGFA.				exocytosis|Wnt receptor signaling pathway	cytoplasmic membrane-bounded vesicle|plasma membrane	calcium ion binding|ubiquitin protein ligase binding				0	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;3.28e-09)		Epithelial(17;0.00093)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00417)|Lung(60;0.165)			CCTGCTGCCCGGGCCCTGGAC	0.701													12	21	---	---	---	---	PASS	C	1038076	C	C	1038076	3	2	113	1	0	0	0	0	1	0	0	0	10442	1116	39	4	982	4	NKD2	5	1038076	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08		1038076	179877184	68	41750										
IRX1	79192	broad.mit.edu	37	chr5	3601130	3601130	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	caggagggaacgccgcggatCctagcagccctcccgtccgc	13	17	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr5:3601130C>G	uc003jde.2	+	4	1471	c.1419C>G	c.(1417-1419)ATC>ATG	p.I473M		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	473						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CGCCGCGGATCCTAGCAGCCC	0.627													42	111	---	---	---	---	PASS	G	3601130	G	G	3601130	3	3	113	1	0	0	0	0	1	0	0	0	7843	845	30	2	1433	2	IRX1	5	3601130	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	2563054	3601130	177314130	69	41751										
ADCY2	108	broad.mit.edu	37	chr5	7706904	7706904	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tatcaacatgcgcgtgggcgTgcattctgggaatgtcctgt	13	9	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr5:7706904T>C	uc003jdz.1	+	8	1224	c.1157T>C	c.(1156-1158)GTG>GCG	p.V386A	ADCY2_uc011cmo.1_Missense_Mutation_p.V206A	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	386	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CGCGTGGGCGTGCATTCTGGG	0.473													81	300	---	---	---	---	PASS	C	7706904	C	C	7706904	3	2	113	1	0	0	0	0	1	0	0	0	294	1696	59	5	1187	5	ADCY2	5	7706904	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	4105774	7706904	173208356	70	41752										
C6	729	broad.mit.edu	37	chr5	41181646	41181646	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gaaatctgttttcaagtcatCttctgcagtttgtacctgga	8	8	5	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr5:41181646C>A	uc003jmk.2	-	7	952	c.742G>T	c.(742-744)GAT>TAT	p.D248Y	C6_uc003jml.1_Missense_Mutation_p.D248Y	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	248	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TTCAAGTCATCTTCTGCAGTT	0.348													34	109	---	---	---	---	PASS	A	41181646	A	A	41181646	3	1	113	1	0	0	0	0	1	0	0	0	2315	913	32	2	2110	2	C6	5	41181646	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	33474742	41181646	139733614	71	41753										
GHR	2690	broad.mit.edu	37	chr5	42719278	42719278	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tcaaggttgaatcacacataCagccaagcttaaaccaagag	7	10	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr5:42719278C>G	uc003jmt.2	+	10	1712	c.1669C>G	c.(1669-1671)CAG>GAG	p.Q557E	GHR_uc011cpq.1_Missense_Mutation_p.Q370E	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	557	Cytoplasmic (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	ATCACACATACAGCCAAGCTT	0.483													59	42	---	---	---	---	PASS	G	42719278	G	G	42719278	3	3	113	1	0	0	0	0	1	0	0	0	6371	479	17	4	1703	4	GHR	5	42719278	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	1537632	42719278	138195982	72	41754										
HCN1	348980	broad.mit.edu	37	chr5	45262556	45262556	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggcatagtggaaagttcgagCggccagagggctctgtacag	16	8	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr5:45262556C>A	uc003jok.2	-	8	2165	c.2140G>T	c.(2140-2142)GCT>TCT	p.A714S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	714	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						AAAGTTCGAGCGGCCAGAGGG	0.483													38	38	---	---	---	---	PASS	A	45262556	A	A	45262556	3	1	113	1	0	0	0	0	1	0	0	0	6996	768	27	1	536	1	HCN1	5	45262556	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	2543278	45262556	135652704	73	41755										
DIMT1L	27292	broad.mit.edu	37	chr5	61690317	61690317	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	caaaattcacttactttcatTagatggtccacacgtgccaa	5	11	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr5:61690317T>A	uc003jta.2	-	7	693	c.564A>T	c.(562-564)CTA>CTT	p.L188L	DIMT1L_uc011cqq.1_Silent_p.L188L	NM_014473	NP_055288	Q9UNQ2	DIMT1_HUMAN	dimethyladenosine transferase	188						nucleolus	RNA binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			central_nervous_system(1)	1		Lung NSC(810;8.94e-06)|Prostate(74;0.0235)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.122)		TTACTTTCATTAGATGGTCCA	0.239													63	34	---	---	---	---	PASS	A	61690317	A	A	61690317	2	1	113	1	0	0	0	0	0	0	0	1	4523	1741	61	5		5	DIMT1L	5	61690317	Silent	SNP	T	TCGA-51-4081-01A-01D-1458-08	16427761	61690317	119224943	74	41756										
PCDHB2	56133	broad.mit.edu	37	chr5	140475948	140475948	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccagtcgctggactacgaggCcctgcaggcgttcgagttcc	13	14	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr5:140475948C>T	uc003lil.2	+	1	1712	c.1574C>T	c.(1573-1575)GCC>GTC	p.A525V	PCDHB2_uc003lim.1_Missense_Mutation_p.A186V	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	525	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GACTACGAGGCCCTGCAGGCG	0.716													79	37	---	---	---	---	PASS	T	140475948	T	T	140475948	3	4	113	1	0	0	0	0	1	0	0	0	11542	739	26	3	1576	3	PCDHB2	5	140475948	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	78785631	140475948	40439312	75	41757										
PCDHB13	56123	broad.mit.edu	37	chr5	140594268	140594268	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aaacgcagtgatggcaggaaAtacccagagctggtgctgga	14	8	0	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr5:140594268A>G	uc003lja.1	+	1	760	c.573A>G	c.(571-573)AAA>AAG	p.K191K		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	191	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATGGCAGGAAATACCCAGAGC	0.517													45	34	---	---	---	---	PASS	G	140594268	G	G	140594268	2	3	113	1	0	0	0	0	0	0	0	1	11538	98	4	5		5	PCDHB13	5	140594268	Silent	SNP	A	TCGA-51-4081-01A-01D-1458-08	118320	140594268	40320992	76	41758										
PCDHGA6	56109	broad.mit.edu	37	chr5	140755620	140755620	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccagccccctctctccgccaCtgtcacgctcaccgtggccg	8	22	3	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr5:140755620C>A	uc003ljy.1	+	1	1970	c.1970C>A	c.(1969-1971)ACT>AAT	p.T657N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.T657N	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	657	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCTCCGCCACTGTCACGCTC	0.701													21	8	---	---	---	---	PASS	A	140755620	A	A	140755620	3	1	113	1	0	0	0	0	1	0	0	0	11558	565	20	3	1972	3	PCDHGA6	5	140755620	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	161352	140755620	40159640	77	41759										
KCTD16	57528	broad.mit.edu	37	chr5	143586805	143586806	+	Frame_Shift_Ins	INS	-	T	T													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	acagaggatcctgcaccttgINSggcagagagggacaggcaga							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr5:143586805_143586806insT	uc003lnm.1	+	3	1157_1158	c.528_529insT	c.(526-531)TTGGGCfs	p.L176fs	KCTD16_uc003lnn.1_Frame_Shift_Ins_p.L176fs	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	176_177						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			CCTGCACCTTGGGCAGAGAGGG	0.53													39	60	---	---	---	---		T	143586806	T	T	143586805	7	5	113	1	0	1	1	0	0	0	0	0	8103	1339	47	0	530	0	KCTD16	5	143586805	Frame_Shift_Ins	INS	-	TCGA-51-4081-01A-01D-1458-08	2831185	143586805	37328455	78	41760										
DOCK2	1794	broad.mit.edu	37	chr5	169502994	169502994	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	taagatccatgagaaaagggTgtcagataacttgcgaccct	10	8	1	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr5:169502994T>A	uc003maf.2	+	47	4852	c.4772T>A	c.(4771-4773)GTG>GAG	p.V1591E	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.V1083E|DOCK2_uc003mah.2_Missense_Mutation_p.V147E	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1591	DHR-2.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAGAAAAGGGTGTCAGATAAC	0.517													144	71	---	---	---	---	PASS	A	169502994	A	A	169502994	3	1	113	1	0	0	0	0	1	0	0	0	4687	1696	59	5	4958	5	DOCK2	5	169502994	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	25916189	169502994	11412266	79	41761										
PKHD1	5314	broad.mit.edu	37	chr6	51524724	51524724	+	Missense_Mutation	SNP	C	A	A													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tgtttgcagatgaatccttgCatcagaaattggtatgtaca							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:51524724C>A	uc003pah.1	-	61	10476	c.10200G>T	c.(10198-10200)ATG>ATT	p.M3400I		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3400	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TGAATCCTTGCATCAGAAATT	0.343													38	29	---	---	---	---	PASS	A	51524724	A	A	51524724	3	1	113	1	0	0	0	0	1	0	0	0	11971	710	25	3	2052	3	PKHD1	6	51524724	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08		51524724	119590343	80	41762	782	2								
PKHD1	5314	broad.mit.edu	37	chr6	51524725	51524725	+	Missense_Mutation	SNP	A	G	G													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gtttgcagatgaatccttgcAtcagaaattggtatgtacat							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:51524725A>G	uc003pah.1	-	61	10475	c.10199T>C	c.(10198-10200)ATG>ACG	p.M3400T		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3400	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GAATCCTTGCATCAGAAATTG	0.343													38	29	---	---	---	---	PASS	G	51524725	G	G	51524725	3	3	113	1	0	0	0	0	1	0	0	0	11971	217	8	5	2053	5	PKHD1	6	51524725	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	1	51524725	119590342	81	41763	782	2								
MYO6	4646	broad.mit.edu	37	chr6	76580384	76580384	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	acacagttaaatttgcttctGgataaacttcgaagtactgt	7	7	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:76580384G>C	uc003pih.1	+	19	2244	c.1965G>C	c.(1963-1965)CTG>CTC	p.L655L	MYO6_uc003pig.1_Silent_p.L655L|MYO6_uc003pii.1_Silent_p.L655L	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	655	Myosin head-like.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		ATTTGCTTCTGGATAAACTTC	0.318													28	29	---	---	---	---	PASS	C	76580384	C	C	76580384	2	2	113	1	0	0	0	0	0	0	0	1	10081	1335	47	4		4	MYO6	6	76580384	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	25055659	76580384	94534683	82	41764										
LAMA4	3910	broad.mit.edu	37	chr6	112537599	112537599	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cctgagccgtccaaacactcGttggaattgccattacagtc	8	13	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:112537599G>C	uc003pvu.2	-	3	576	c.267C>G	c.(265-267)AAC>AAG	p.N89K	LAMA4_uc003pvv.2_Missense_Mutation_p.N89K|LAMA4_uc003pvt.2_Missense_Mutation_p.N89K|LAMA4_uc003pvw.2_Missense_Mutation_p.N89K	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	89	Laminin EGF-like 1.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CCAAACACTCGTTGGAATTGC	0.458													53	78	---	---	---	---	PASS	C	112537599	C	C	112537599	3	2	113	1	0	0	0	0	1	0	0	0	8608	1136	40	4	5352	4	LAMA4	6	112537599	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	35957215	112537599	58577468	83	41765										
C6orf170	221322	broad.mit.edu	37	chr6	121481233	121481233	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	atgatgaaaacattggccaaGgatatggattatcactctaa	8	6	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:121481233G>C	uc003pyo.1	-	24	2764	c.2696C>G	c.(2695-2697)CCT>CGT	p.P899R	C6orf170_uc003pyq.1_RNA|C6orf170_uc010kej.1_5'UTR|C6orf170_uc003pyp.1_Missense_Mutation_p.P459R	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	899					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		CATTGGCCAAGGATATGGATT	0.308													38	142	---	---	---	---	PASS	C	121481233	C	C	121481233	3	2	113	1	0	0	0	0	1	0	0	0	2344	1000	35	4	1113	4	C6orf170	6	121481233	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	8943634	121481233	49633834	84	41766										
GPR126	57211	broad.mit.edu	37	chr6	142691627	142691627	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gctttgaacagctctgccttGtttggaataattctttgggc	10	8	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:142691627G>T	uc010khc.2	+	4	1177	c.766G>T	c.(766-768)GTT>TTT	p.V256F	GPR126_uc010khd.2_Missense_Mutation_p.V256F|GPR126_uc010khe.2_Missense_Mutation_p.V256F|GPR126_uc010khf.2_Missense_Mutation_p.V256F|GPR126_uc003qix.2_Missense_Mutation_p.V256F	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	256	Pentaxin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		GCTCTGCCTTGTTTGGAATAA	0.333													4	137	---	---	---	---	PASS	T	142691627	T	T	142691627	3	4	113	1	0	0	0	0	1	0	0	0	6640	1377	48	3	780	3	GPR126	6	142691627	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	21210394	142691627	28423440	85	41767										
RAET1G	353091	broad.mit.edu	37	chr6	150239492	150239492	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gtggccgtggccctgggttgGgctgtgcctgaggacatggt	19	9	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:150239492G>T	uc010kii.1	-	4	728	c.660C>A	c.(658-660)GCC>GCA	p.A220A	uc003qni.1_Intron|RAET1G_uc003qnm.2_Intron	NM_001001788	NP_001001788	Q6H3X3	RET1G_HUMAN	retinoic acid early transcript 1G precursor	220	Extracellular (Potential).				antigen processing and presentation|immune response	integral to membrane|MHC class I protein complex	protein binding				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.73e-12)		CCCTGGGTTGGGCTGTGCCTG	0.587													25	69	---	---	---	---	PASS	T	150239492	T	T	150239492	2	4	113	1	0	0	0	0	0	0	0	1	13000	1219	43	3		3	RAET1G	6	150239492	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	7547865	150239492	20875575	86	41768										
MTHFD1L	25902	broad.mit.edu	37	chr6	151331065	151331065	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tgttagtggcaacggtgcgaGctctgaagatgcatggaggc	16	7	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:151331065G>A	uc003qob.2	+	21	2504	c.2236G>A	c.(2236-2238)GCT>ACT	p.A746T	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Missense_Mutation_p.A747T|MTHFD1L_uc003qoc.2_Missense_Mutation_p.A694T	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	746	Formyltetrahydrofolate synthetase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		AACGGTGCGAGCTCTGAAGAT	0.478													8	114	---	---	---	---	PASS	A	151331065	A	A	151331065	3	1	113	1	0	0	0	0	1	0	0	0	9928	971	34	3	2318	3	MTHFD1L	6	151331065	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	1091573	151331065	19784002	87	41769										
ESR1	2099	broad.mit.edu	37	chr6	152163791	152163791	+	Missense_Mutation	SNP	A	T	T													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	attggccagtaccaatgacaAgggaagtatggctatggaat							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:152163791A>T	uc003qom.3	+	4	882	c.512A>T	c.(511-513)AAG>ATG	p.K171M	ESR1_uc010kin.2_Missense_Mutation_p.K171M|ESR1_uc010kio.2_Missense_Mutation_p.K171M|ESR1_uc010kip.2_Missense_Mutation_p.K171M|ESR1_uc003qon.3_Missense_Mutation_p.K171M|ESR1_uc003qoo.3_Missense_Mutation_p.K171M|ESR1_uc010kiq.2_Intron|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_RNA|ESR1_uc011eeu.1_RNA|ESR1_uc011eev.1_Translation_Start_Site|ESR1_uc011eew.1_Missense_Mutation_p.R3W	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	171	Modulating; mediates interaction with MACROD1.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	ACCAATGACAAGGGAAGTATG	0.473													36	37	---	---	---	---	PASS	T	152163791	T	T	152163791	3	4	113	1	0	0	0	0	1	0	0	0	5256	72	3	5	518	5	ESR1	6	152163791	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	832726	152163791	18951276	88	41770	783	2								
ESR1	2099	broad.mit.edu	37	chr6	152163792	152163792	+	Silent	SNP	G	A	A													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttggccagtaccaatgacaaGggaagtatggctatggaatc							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:152163792G>A	uc003qom.3	+	4	883	c.513G>A	c.(511-513)AAG>AAA	p.K171K	ESR1_uc010kin.2_Silent_p.K171K|ESR1_uc010kio.2_Silent_p.K171K|ESR1_uc010kip.2_Silent_p.K171K|ESR1_uc003qon.3_Silent_p.K171K|ESR1_uc003qoo.3_Silent_p.K171K|ESR1_uc010kiq.2_Intron|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_RNA|ESR1_uc011eeu.1_RNA|ESR1_uc011eev.1_5'UTR|ESR1_uc011eew.1_Missense_Mutation_p.R3K	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	171	Modulating; mediates interaction with MACROD1.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	CCAATGACAAGGGAAGTATGG	0.468													34	37	---	---	---	---	PASS	A	152163792	A	A	152163792	2	1	113	1	0	0	0	0	0	0	0	1	5256	991	35	3		3	ESR1	6	152163792	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	1	152163792	18951275	89	41771	783	2								
SYNE1	23345	broad.mit.edu	37	chr6	152674504	152674504	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	agccataccaatcagaatagGaactgagggatgattctgat	10	7	2	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:152674504G>A	uc010kiw.2	-	69	11749	c.11147C>T	c.(11146-11148)TCC>TTC	p.S3716F	SYNE1_uc003qot.3_Missense_Mutation_p.S3701F|SYNE1_uc003qou.3_Missense_Mutation_p.S3716F|SYNE1_uc010kja.1_Missense_Mutation_p.S421F	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3716	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)		ATCAGAATAGGAACTGAGGGA	0.368										HNSCC(10;0.0054)			50	178	---	---	---	---	PASS	A	152674504	A	A	152674504	3	1	113	1	0	0	0	0	1	0	0	0	15442	1174	41	2	15631	2	SYNE1	6	152674504	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	510712	152674504	18440563	90	41772										
RBM16	22828	broad.mit.edu	37	chr6	155153569	155153569	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	attccaccccaacggggaatCccacccccatcggtacttga	7	17	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:155153569C>T	uc003qqa.2	+	21	3088	c.2856C>T	c.(2854-2856)ATC>ATT	p.I952I	TIAM2_uc003qqb.2_5'Flank|RBM16_uc011efj.1_Silent_p.I1018I|RBM16_uc011efk.1_Silent_p.I997I|RBM16_uc003qpz.2_Silent_p.I952I|RBM16_uc010kji.2_Intron	NM_014892	NP_055707	Q9UPN6	SCAF8_HUMAN	RNA-binding motif protein 16	952	Pro-rich.				mRNA processing|RNA splicing	nuclear matrix|spliceosomal complex	nucleotide binding|RNA binding|RNA polymerase core enzyme binding				0		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;2.33e-15)|BRCA - Breast invasive adenocarcinoma(81;0.00524)		AACGGGGAATCCCACCCCCAT	0.498													164	234	---	---	---	---	PASS	T	155153569	T	T	155153569	2	4	113	1	0	0	0	0	0	0	0	1	13118	845	30	2		2	RBM16	6	155153569	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	2479065	155153569	15961498	91	41773										
WDR27	253769	broad.mit.edu	37	chr6	170058390	170058390	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	accacgtcgctgttcactagCagccttggtactcttctcct	7	15	3	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr6:170058390C>G	uc003qwx.2	-	13	1904	c.1384G>C	c.(1384-1386)GCT>CCT	p.A462P	WDR27_uc003qwv.1_RNA|WDR27_uc010kkw.1_Missense_Mutation_p.A462P|WDR27_uc003qwy.2_Missense_Mutation_p.A335P|WDR27_uc003qwz.1_Missense_Mutation_p.A195P			A2RRH5	WDR27_HUMAN	RecName: Full=WD repeat-containing protein 27;	432										pancreas(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.216)		OV - Ovarian serous cystadenocarcinoma(33;6.48e-20)|BRCA - Breast invasive adenocarcinoma(81;3.56e-07)|GBM - Glioblastoma multiforme(31;0.00168)		TGTTCACTAGCAGCCTTGGTA	0.512													2	10	---	---	---	---	PASS	G	170058390	G	G	170058390	3	3	113	1	0	0	0	0	1	0	0	0	17281	710	25	4	1241	4	WDR27	6	170058390	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	14904821	170058390	1056677	92	41774										
HEATR2	54919	broad.mit.edu	37	chr7	796505	796505	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tcgacgctgaagaagacgccCtctgcctccggcctcctggt	11	16	1	3	rs141887568		TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:796505C>A	uc010krz.1	+	6	1364	c.1344C>A	c.(1342-1344)CCC>CCA	p.P448P	HEATR2_uc003siz.2_Silent_p.P316P	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	448							protein binding	p.P448P(1)		skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		AGAAGACGCCCTCTGCCTCCG	0.627													67	107	---	---	---	---	PASS	A	796505	A	A	796505	2	1	113	1	0	0	0	0	0	0	0	1	7028	668	24	3		3	HEATR2	7	796505	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08		796505	158342158	93	41775										
MMD2	221938	broad.mit.edu	37	chr7	4947205	4947205	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	agaagacccctccggtcaccAgctcccagatgccctcggtg	10	17	1	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:4947205A>G	uc003sno.3	-	7	831	c.635T>C	c.(634-636)CTG>CCG	p.L212P	MMD2_uc003snl.1_RNA|MMD2_uc003snn.3_Missense_Mutation_p.L188P|MMD2_uc010ksq.2_3'UTR	NM_001100600	NP_001094070	Q8IY49	PAQRA_HUMAN	monocyte to macrophage	212	Helical; (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.097)|OV - Ovarian serous cystadenocarcinoma(56;3.4e-14)		TCCGGTCACCAGCTCCCAGAT	0.602													43	99	---	---	---	---	PASS	G	4947205	G	G	4947205	3	3	113	1	0	0	0	0	1	0	0	0	9644	188	7	5	181	5	MMD2	7	4947205	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	4150700	4947205	154191458	94	41776										
AUTS2	26053	broad.mit.edu	37	chr7	70255532	70255532	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctctcgactccccggctgtaCgaagccgaccgctccttcag	9	18	2	0	rs141714268		TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:70255532C>T	uc003tvw.3	+	19	4073	c.3330C>T	c.(3328-3330)TAC>TAT	p.Y1110Y	AUTS2_uc003tvx.3_Silent_p.Y1086Y|AUTS2_uc011keg.1_Silent_p.Y562Y	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	1110										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CCCGGCTGTACGAAGCCGACC	0.562													6	9	---	---	---	---	PASS	T	70255532	T	T	70255532	2	4	113	1	0	0	0	0	0	0	0	1	1225	547	19	1		1	AUTS2	7	70255532	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	65308327	70255532	88883131	95	41777										
WBSCR17	64409	broad.mit.edu	37	chr7	70597840	70597840	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tggtgttgaacttgatcgcgGtagccggcttcgtgctcttc	13	10	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:70597840G>T	uc003tvy.2	+	1	52	c.52G>T	c.(52-54)GTA>TTA	p.V18L		NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	18	Helical; Signal-anchor for type II membrane protein; (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				CTTGATCGCGGTAGCCGGCTT	0.677													29	32	---	---	---	---	PASS	T	70597840	T	T	70597840	3	4	113	1	0	0	0	0	1	0	0	0	17261	1261	44	3	54	3	WBSCR17	7	70597840	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	342308	70597840	88540823	96	41778										
WBSCR17	64409	broad.mit.edu	37	chr7	70885948	70885948	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cggaagcgtgtgatcctcccCtccattgacaacatcaaaca	7	14	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:70885948C>G	uc003tvy.2	+	5	819	c.819C>G	c.(817-819)CCC>CCG	p.P273P	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	273	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TGATCCTCCCCTCCATTGACA	0.542													118	265	---	---	---	---	PASS	G	70885948	G	G	70885948	2	3	113	1	0	0	0	0	0	0	0	1	17261	668	24	4		4	WBSCR17	7	70885948	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	288108	70885948	88252715	97	41779										
CROT	54677	broad.mit.edu	37	chr7	87005147	87005147	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	atctccttgccctttaggcaCgagaatatctgattggtctt	8	10	3	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:87005147C>T	uc003uit.2	+	9	999	c.754C>T	c.(754-756)CGA>TGA	p.R252*	CROT_uc003uiu.2_Nonsense_Mutation_p.R280*	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	252					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	CCTTTAGGCACGAGAATATCT	0.353													7	173	---	---	---	---	PASS	T	87005147	T	T	87005147	4	4	113	1	0	0	0	0	0	1	0	0	3894	528	19	1	868	1	CROT	7	87005147	Nonsense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	16119199	87005147	72133516	98	41780										
C7orf63	79846	broad.mit.edu	37	chr7	89937162	89937162	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	agaacatcaaacgctaaaacGttaaaggtaggatttttaat	7	5	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:89937162G>T	uc010lep.2	+	21	2795	c.2544G>T	c.(2542-2544)ACG>ACT	p.T848T	C7orf63_uc011khj.1_Silent_p.T830T|C7orf63_uc011khk.1_Silent_p.T364T	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	848							binding			ovary(1)	1						ACGCTAAAACGTTAAAGGTAG	0.343													12	28	---	---	---	---	PASS	T	89937162	T	T	89937162	2	4	113	1	0	0	0	0	0	0	0	1	2409	1132	40	1		1	C7orf63	7	89937162	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	2932015	89937162	69201501	99	41781										
DLX5	1749	broad.mit.edu	37	chr7	96650141	96650141	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gagctggctgcacttgtgtaCcaggatgcagagttctccag	13	10	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:96650141C>G	uc003uon.2	-	3	985	c.777G>C	c.(775-777)TGG>TGC	p.W259C		NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	259					cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					CACTTGTGTACCAGGATGCAG	0.647													39	80	---	---	---	---	PASS	G	96650141	G	G	96650141	3	3	113	1	0	0	0	0	1	0	0	0	4574	508	18	4	96	4	DLX5	7	96650141	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	6712979	96650141	62488522	100	41782										
MCM7	4176	broad.mit.edu	37	chr7	99695279	99695279	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	agactggtccacacccccgaCtagcaggagcagcagtgcct	11	15	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:99695279C>A	uc003usw.1	-	9	1585	c.1075G>T	c.(1075-1077)GTC>TTC	p.V359F	MCM7_uc003usv.1_Missense_Mutation_p.V183F|MCM7_uc003usx.1_Missense_Mutation_p.V183F	NM_005916	NP_005907	P33993	MCM7_HUMAN	minichromosome maintenance complex component 7	359	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of phosphorylation|response to DNA damage stimulus|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)				Atorvastatin(DB01076)	ACACCCCCGACTAGCAGGAGC	0.507													230	357	---	---	---	---	PASS	A	99695279	A	A	99695279	3	1	113	1	0	0	0	0	1	0	0	0	9392	565	20	3	1112	3	MCM7	7	99695279	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	3045138	99695279	59443384	101	41783										
EPHB4	2050	broad.mit.edu	37	chr7	100403230	100403230	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cgggcattccggtctttctgCcaacagtccagcatgagctg	11	13	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:100403230C>T	uc003uwn.1	-	15	3062	c.2571G>A	c.(2569-2571)TGG>TGA	p.W857*	EPHB4_uc003uwm.1_Nonsense_Mutation_p.W764*|EPHB4_uc010lhj.1_Nonsense_Mutation_p.W857*	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	857	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					GGTCTTTCTGCCAACAGTCCA	0.637													10	266	---	---	---	---	PASS	T	100403230	T	T	100403230	4	4	113	1	0	0	0	0	0	1	0	0	5177	740	26	3	404	3	EPHB4	7	100403230	Nonsense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	707951	100403230	58735433	102	41784										
C7orf60	154743	broad.mit.edu	37	chr7	112579794	112579794	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gcagtatttcggccgccggcCcctggctccatatcgcagcc	11	17	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:112579794C>A	uc003vgo.1	-	1	139	c.12G>T	c.(10-12)GGG>GGT	p.G4G	C7orf60_uc011kms.1_Silent_p.G4G	NM_152556	NP_689769	Q1RMZ1	CG060_HUMAN	hypothetical protein LOC154743	4										ovary(2)|skin(1)	3						GGCCGCCGGCCCCTGGCTCCA	0.612													4	10	---	---	---	---	PASS	A	112579794	A	A	112579794	2	1	113	1	0	0	0	0	0	0	0	1	2407	610	22	3		3	C7orf60	7	112579794	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	12176564	112579794	46558869	103	41785										
AKR1B15	441282	broad.mit.edu	37	chr7	134253073	134253073	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggaggacctgttcatcgtcaGcaaggtgcacatggcgcatt	13	10	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:134253073G>T	uc011kpr.1	+	4	613	c.314G>T	c.(313-315)AGC>ATC	p.S105I	AKR1B15_uc003vrt.2_Missense_Mutation_p.S77I|AKR1B15_uc011kps.1_Missense_Mutation_p.S77I	NM_001080538	NP_001074007	C9JRZ8	AK1BF_HUMAN	aldo-keto reductase family 1, member B15	105							oxidoreductase activity			ovary(1)	1						TTCATCGTCAGCAAGGTGCAC	0.527													8	244	---	---	---	---	PASS	T	134253073	T	T	134253073	3	4	113	1	0	0	0	0	1	0	0	0	468	971	34	3	320	3	AKR1B15	7	134253073	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	21673279	134253073	24885590	104	41786										
NUP205	23165	broad.mit.edu	37	chr7	135309982	135309982	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gcagtggcttttgtatctttCtaacagtggctacttgaagg	11	7	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:135309982C>G	uc003vsw.2	+	32	4581	c.4550C>G	c.(4549-4551)TCT>TGT	p.S1517C	NUP205_uc003vsx.2_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1517					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						TTGTATCTTTCTAACAGTGGC	0.448													10	246	---	---	---	---	PASS	G	135309982	G	G	135309982	3	3	113	1	0	0	0	0	1	0	0	0	10759	913	32	2	4676	2	NUP205	7	135309982	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	1056909	135309982	23828681	105	41787										
TAS2R60	338398	broad.mit.edu	37	chr7	143141036	143141036	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tctatttttcataggcaaccAcagaatgtatcagaactatt	5	8	3	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:143141036A>T	uc011ktg.1	+	1	491	c.491A>T	c.(490-492)CAC>CTC	p.H164L	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	164	Extracellular (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					ATAGGCAACCACAGAATGTAT	0.448													108	215	---	---	---	---	PASS	T	143141036	T	T	143141036	3	4	113	1	0	0	0	0	1	0	0	0	15582	159	6	5	493	5	TAS2R60	7	143141036	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	7831054	143141036	15997627	106	41788										
ARHGEF5	7984	broad.mit.edu	37	chr7	144062298	144062298	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tacccccactacccatcataGaccctcccaccgaaccaccc	2	23	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:144062298G>A	uc003wel.2	+	2	2654	c.2536G>A	c.(2536-2538)GAC>AAC	p.D846N	ARHGEF5_uc003wek.2_Missense_Mutation_p.D846N|ARHGEF5_uc003wem.2_5'Flank	NM_005435	NP_005426	Q12774	ARHG5_HUMAN	rho guanine nucleotide exchange factor 5	846					intracellular signal transduction|regulation of Rho protein signal transduction	intracellular	GTP binding|protein binding|Rho guanyl-nucleotide exchange factor activity			skin(2)	2	Melanoma(164;0.14)					ACCCATCATAGACCCTCCCAC	0.597													17	36	---	---	---	---	PASS	A	144062298	A	A	144062298	3	1	113	1	0	0	0	0	1	0	0	0	909	942	33	2	2538	2	ARHGEF5	7	144062298	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	921262	144062298	15076365	107	41789										
INSIG1	3638	broad.mit.edu	37	chr7	155090172	155090172	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gccccggacgctgaccccgcGcccaggggccgcagtgctgc	15	19	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr7:155090172G>T	uc003wly.2	+	2	388	c.177G>T	c.(175-177)GCG>GCT	p.A59A	INSIG1_uc011kvu.1_Intron|INSIG1_uc003wlz.2_Silent_p.A59A	NM_005542	NP_005533	O15503	INSI1_HUMAN	insulin induced gene 1 isoform 1	59	Cytoplasmic.				cell proliferation|ER-nuclear sterol response pathway	endoplasmic reticulum membrane|integral to membrane	protein binding				0	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTGACCCCGCGCCCAGGGGCC	0.721													8	8	---	---	---	---	PASS	T	155090172	T	T	155090172	2	4	113	1	0	0	0	0	0	0	0	1	7765	1074	38	1		1	INSIG1	7	155090172	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	11027874	155090172	4048491	108	41790										
ARHGEF10	9639	broad.mit.edu	37	chr8	1808301	1808301	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aacctgcccctcctgctgccCgcctactccagcccggtcat	7	21	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr8:1808301C>T	uc003wpr.2	+	4	610	c.432C>T	c.(430-432)CCC>CCT	p.P144P	ARHGEF10_uc003wpq.1_Silent_p.P168P|ARHGEF10_uc003wps.2_Silent_p.P144P|ARHGEF10_uc003wpt.2_Silent_p.P58P|ARHGEF10_uc010lrd.1_Silent_p.P58P|ARHGEF10_uc003wpu.2_Silent_p.P58P	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	168					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TCCTGCTGCCCGCCTACTCCA	0.652													27	81	---	---	---	---	PASS	T	1808301	T	T	1808301	2	4	113	1	0	0	0	0	0	0	0	1	894	639	23	1		1	ARHGEF10	8	1808301	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08		1808301	144555721	109	41791										
RHOBTB2	23221	broad.mit.edu	37	chr8	22861981	22861981	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tggattatgaaaggccaaacGtagagaccatcaagtgcgtt	11	7	1	2	rs144645186		TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr8:22861981G>A	uc003xcq.2	+	2	571	c.34G>A	c.(34-36)GTA>ATA	p.V12I	RHOBTB2_uc003xcp.2_Missense_Mutation_p.V34I|RHOBTB2_uc011kzp.1_Missense_Mutation_p.V19I	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	12	Rho-like.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		AAGGCCAAACGTAGAGACCAT	0.597											OREG0018628	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	83	---	---	---	---	PASS	A	22861981	A	A	22861981	3	1	113	1	0	0	0	0	1	0	0	0	13334	1145	40	1	121	1	RHOBTB2	8	22861981	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	21053680	22861981	123502041	110	41792										
RAB11FIP1	80223	broad.mit.edu	37	chr8	37756795	37756795	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cccaggctgcgctccgacacGgaggtggcgtacttctcctt	12	15	1	0	rs78017237	byFrequency	TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr8:37756795G>T	uc003xkm.1	-	1	209	c.165C>A	c.(163-165)TCC>TCA	p.S55S	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Silent_p.S55S	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	55	C2.				protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			GCTCCGACACGGAGGTGGCGT	0.751													9	23	---	---	---	---	PASS	T	37756795	T	T	37756795	2	4	113	1	0	0	0	0	0	0	0	1	12893	1103	39	1		1	RAB11FIP1	8	37756795	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	14894814	37756795	108607227	111	41793										
ST18	9705	broad.mit.edu	37	chr8	53074075	53074075	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttgacactgtggctctgggaGaggtgatggcttgtgacggg	18	6	1	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr8:53074075G>T	uc003xqz.2	-	9	1610	c.1454C>A	c.(1453-1455)TCT>TAT	p.S485Y	ST18_uc011ldq.1_Missense_Mutation_p.S132Y|ST18_uc011ldr.1_Missense_Mutation_p.S450Y|ST18_uc011lds.1_Missense_Mutation_p.S390Y|ST18_uc003xra.2_Missense_Mutation_p.S485Y|ST18_uc003xrb.2_Missense_Mutation_p.S485Y	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	485						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				GGCTCTGGGAGAGGTGATGGC	0.423													60	124	---	---	---	---	PASS	T	53074075	T	T	53074075	3	4	113	1	0	0	0	0	1	0	0	0	15211	942	33	2	1741	2	ST18	8	53074075	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	15317280	53074075	93289947	112	41794										
RP1	6101	broad.mit.edu	37	chr8	55537321	55537321	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gattgctacttagactattcTtttgttcctgaaaagtactt	6	7	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr8:55537321T>G	uc003xsd.1	+	4	1027	c.879T>G	c.(877-879)TCT>TCG	p.S293S	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	293					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TAGACTATTCTTTTGTTCCTG	0.303													9	165	---	---	---	---	PASS	G	55537321	G	G	55537321	2	3	113	1	0	0	0	0	0	0	0	1	13532	1596	56	5		5	RP1	8	55537321	Silent	SNP	T	TCGA-51-4081-01A-01D-1458-08	2463246	55537321	90826701	113	41795										
TRPA1	8989	broad.mit.edu	37	chr8	72968009	72968009	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	taggttatttacagaaccagGgcccccctgtctacatgcat	8	12	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr8:72968009G>T	uc003xza.2	-	11	1451	c.1276C>A	c.(1276-1278)CCT>ACT	p.P426T		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	426	ANK 10.|Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	ACAGAACCAGGGCCCCCCTGT	0.408													46	70	---	---	---	---	PASS	T	72968009	T	T	72968009	3	4	113	1	0	0	0	0	1	0	0	0	16574	1232	43	3	2151	3	TRPA1	8	72968009	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	17430688	72968009	73396013	114	41796										
HNF4G	3174	broad.mit.edu	37	chr8	76463627	76463627	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tgttttttccccctagctgtAcaaaatgaacgtgacagaat	7	9	0	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr8:76463627A>T	uc003yaq.2	+	5	516	c.246A>T	c.(244-246)GTA>GTT	p.V82V	HNF4G_uc003yar.2_Silent_p.V119V	NM_004133	NP_004124	Q14541	HNF4G_HUMAN	hepatocyte nuclear factor 4, gamma	82	Nuclear receptor.				endocrine pancreas development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1	Breast(64;0.0448)		BRCA - Breast invasive adenocarcinoma(89;0.161)			CCCTAGCTGTACAAAATGAAC	0.378													35	49	---	---	---	---	PASS	T	76463627	T	T	76463627	2	4	113	1	0	0	0	0	0	0	0	1	7254	378	14	5		5	HNF4G	8	76463627	Silent	SNP	A	TCGA-51-4081-01A-01D-1458-08	3495618	76463627	69900395	115	41797										
RGS22	26166	broad.mit.edu	37	chr8	101117606	101117606	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttgaaatgatacttacaaatTcttcttctgtaatagttggt	6	5	3	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr8:101117606T>A	uc003yjb.1	-	2	245	c.50A>T	c.(49-51)GAA>GTA	p.E17V	RGS22_uc003yja.1_5'UTR|RGS22_uc003yjc.1_Missense_Mutation_p.E17V|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	17					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			ACTTACAAATTCTTCTTCTGT	0.328													5	193	---	---	---	---	PASS	A	101117606	A	A	101117606	3	1	113	1	0	0	0	0	1	0	0	0	13305	1783	62	5	3848	5	RGS22	8	101117606	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	24653979	101117606	45246416	116	41798										
EIF3H	8667	broad.mit.edu	37	chr8	117671117	117671117	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	actgagagtccaggagtgccCgggtaacgaatgagccatag	14	9	0	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr8:117671117C>A	uc003yoa.2	-	3	418	c.392G>T	c.(391-393)CGG>CTG	p.R131L	EIF3H_uc003yob.2_Missense_Mutation_p.R145L|EIF3H_uc011lhz.1_Missense_Mutation_p.R131L	NM_003756	NP_003747	O15372	EIF3H_HUMAN	eukaryotic translation initiation factor 3,	131	MPN.				regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(3)	3	all_cancers(13;3.98e-22)|Lung NSC(37;0.000183)|Ovarian(258;0.0172)					CAGGAGTGCCCGGGTAACGAA	0.428													75	99	---	---	---	---	PASS	A	117671117	A	A	117671117	3	1	113	1	0	0	0	0	1	0	0	0	5018	652	23	1	690	1	EIF3H	8	117671117	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	16553511	117671117	28692905	117	41799										
KCNQ3	3786	broad.mit.edu	37	chr8	133144497	133144497	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctgatgtggatggtctggctAcatatggttcattcctaaga	11	7	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr8:133144497A>T	uc003ytj.2	-	14	2039	c.1814T>A	c.(1813-1815)GTA>GAA	p.V605E	KCNQ3_uc010mdt.2_Missense_Mutation_p.V593E	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	605					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			TGGTCTGGCTACATATGGTTC	0.398													39	81	---	---	---	---	PASS	T	133144497	T	T	133144497	3	4	113	1	0	0	0	0	1	0	0	0	8084	391	14	5	812	5	KCNQ3	8	133144497	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	15473380	133144497	13219525	118	41800										
TRAPPC9	83696	broad.mit.edu	37	chr8	140744269	140744269	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cacgaaggagacggtgtcgtGcaggtcgtagttgtgcacgc	16	9	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr8:140744269G>A	uc003yvj.2	-	22	3366	c.3232C>T	c.(3232-3234)CAC>TAC	p.H1078Y	TRAPPC9_uc003yvh.2_Missense_Mutation_p.H1176Y	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	1078					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						ACGGTGTCGTGCAGGTCGTAG	0.657													12	10	---	---	---	---	PASS	A	140744269	A	A	140744269	3	1	113	1	0	0	0	0	1	0	0	0	16462	1319	46	3	222	3	TRAPPC9	8	140744269	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	7599772	140744269	5619753	119	41801										
PLEC	5339	broad.mit.edu	37	chr8	144995111	144995111	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctgctcctccaccaccgtgaTgatgatcttgatgatcttct	7	13	3	5			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr8:144995111T>G	uc003zaf.1	-	32	9459	c.9289A>C	c.(9289-9291)ATC>CTC	p.I3097L	PLEC_uc003zab.1_Missense_Mutation_p.I2960L|PLEC_uc003zac.1_Missense_Mutation_p.I2964L|PLEC_uc003zad.2_Missense_Mutation_p.I2960L|PLEC_uc003zae.1_Missense_Mutation_p.I2928L|PLEC_uc003zag.1_Missense_Mutation_p.I2938L|PLEC_uc003zah.2_Missense_Mutation_p.I2946L|PLEC_uc003zaj.2_Missense_Mutation_p.I2987L	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3097	Globular 2.				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						ACCACCGTGATGATGATCTTG	0.622													9	81	---	---	---	---	PASS	G	144995111	G	G	144995111	3	3	113	1	0	0	0	0	1	0	0	0	12052	1464	51	5	4769	5	PLEC	8	144995111	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	4250842	144995111	1368911	120	41802										
MURC	347273	broad.mit.edu	37	chr9	103348698	103348698	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aggtgaaagtagaggatgatGaatctcttttgttagattta	11	2	1	5			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr9:103348698G>T	uc004bba.2	+	2	1150	c.1060G>T	c.(1060-1062)GAA>TAA	p.E354*		NM_001018116	NP_001018126	Q5BKX8	MURC_HUMAN	muscle-related coiled-coil protein	354					cell differentiation|muscle organ development|transcription, DNA-dependent					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0461)				AGAGGATGATGAATCTCTTTT	0.398													23	91	---	---	---	---	PASS	T	103348698	T	T	103348698	4	4	113	1	0	0	0	0	0	1	0	0	9987	1291	45	2	1066	2	MURC	9	103348698	Nonsense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08		103348698	37864733	121	41803										
ZNF618	114991	broad.mit.edu	37	chr9	116769663	116769663	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cacatgtgatatctgcgggaAgaagtacaaatactacagct	9	8	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr9:116769663A>G	uc004bid.2	+	7	683	c.584A>G	c.(583-585)AAG>AGG	p.K195R	ZNF618_uc004bib.1_Missense_Mutation_p.K163R|ZNF618_uc004bic.2_Missense_Mutation_p.K163R|ZNF618_uc011lxi.1_Missense_Mutation_p.K163R|ZNF618_uc011lxj.1_Missense_Mutation_p.K163R	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	195	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATCTGCGGGAAGAAGTACAAA	0.532													28	28	---	---	---	---	PASS	G	116769663	G	G	116769663	3	3	113	1	0	0	0	0	1	0	0	0	18039	72	3	5	510	5	ZNF618	9	116769663	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	13420965	116769663	24443768	122	41804										
AKNA	80709	broad.mit.edu	37	chr9	117139707	117139707	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cctccagacttccgagggtcCcatctggctcctcttcagtc	8	17	3	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr9:117139707C>T	uc004biq.3	-	2	515	c.380G>A	c.(379-381)GGG>GAG	p.G127E	AKNA_uc004bio.3_5'Flank|AKNA_uc004bip.3_Missense_Mutation_p.G46E|AKNA_uc004bir.3_Missense_Mutation_p.G127E|AKNA_uc004bis.3_Missense_Mutation_p.G127E|AKNA_uc010mve.2_Missense_Mutation_p.G8E|AKNA_uc004biu.1_Intron|AKNA_uc004biv.1_Missense_Mutation_p.G127E|AKNA_uc004biw.1_Missense_Mutation_p.G127E	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	127					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(2)	6						TCCGAGGGTCCCATCTGGCTC	0.607													59	49	---	---	---	---	PASS	T	117139707	T	T	117139707	3	4	113	1	0	0	0	0	1	0	0	0	463	623	22	3	4019	3	AKNA	9	117139707	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	370044	117139707	24073724	123	41805										
DFNB31	25861	broad.mit.edu	37	chr9	117188587	117188587	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggggcagcctcccgacgtccTtcactgtcaggatgaggtgc	14	13	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr9:117188587T>C	uc004biz.3	-	4	1719	c.1070A>G	c.(1069-1071)AAG>AGG	p.K357R	DFNB31_uc004bix.2_5'Flank|DFNB31_uc004biy.3_5'UTR|DFNB31_uc004bja.3_Missense_Mutation_p.K357R	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	357	PDZ 2.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CCCGACGTCCTTCACTGTCAG	0.592													17	68	---	---	---	---	PASS	C	117188587	C	C	117188587	3	2	113	1	0	0	0	0	1	0	0	0	4455	1609	56	5	1689	5	DFNB31	9	117188587	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	48880	117188587	24024844	124	41806										
NEK6	10783	broad.mit.edu	37	chr9	127088623	127088623	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctgcagtactttaagaagcaGaagcggctcatcccggagag	12	10	1	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr9:127088623G>C	uc004bog.2	+	6	569	c.420G>C	c.(418-420)CAG>CAC	p.Q140H	NEK6_uc004bof.2_Missense_Mutation_p.Q158H|NEK6_uc004boh.2_Missense_Mutation_p.Q174H|NEK6_uc010mwj.2_Missense_Mutation_p.Q93H|NEK6_uc010mwk.2_Missense_Mutation_p.Q140H|NEK6_uc004boi.2_Missense_Mutation_p.Q140H	NM_014397	NP_055212	Q9HC98	NEK6_HUMAN	NIMA-related kinase 6 isoform 2	140	Protein kinase.				apoptosis|cell division|chromosome segregation|mitosis|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of mitotic metaphase/anaphase transition	cytoplasm|nucleus	ATP binding|kinesin binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|kidney(1)	3						TTAAGAAGCAGAAGCGGCTCA	0.602													46	41	---	---	---	---	PASS	C	127088623	C	C	127088623	3	2	113	1	0	0	0	0	1	0	0	0	10328	933	33	2	623	2	NEK6	9	127088623	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	9900036	127088623	14124808	125	41807										
FCN2	2220	broad.mit.edu	37	chr9	137774436	137774436	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctccgaggctgtccggggctGcctggggcccctgggcccaa	16	16	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr9:137774436G>T	uc004cfg.1	+	2	175	c.165G>T	c.(163-165)CTG>CTT	p.L55L	FCN2_uc004cfh.1_Intron	NM_004108	NP_004099	Q15485	FCN2_HUMAN	ficolin 2 isoform a precursor	55	Collagen-like.				complement activation, lectin pathway|opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|calcium-dependent protein binding|receptor binding|sugar binding			large_intestine(1)	1		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.58e-08)|Epithelial(140;6.41e-08)|all cancers(34;3.96e-07)		GTCCGGGGCTGCCTGGGGCCC	0.607													35	149	---	---	---	---	PASS	T	137774436	T	T	137774436	2	4	113	1	0	0	0	0	0	0	0	1	5792	1306	46	3		3	FCN2	9	137774436	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	10685813	137774436	3438995	126	41808										
ABCA2	20	broad.mit.edu	37	chr9	139909524	139909524	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctgctcagcggggcccgaccTggggggctggatgccagccc	17	15	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr9:139909524T>A	uc011mem.1	-	24	3868	c.3720A>T	c.(3718-3720)CCA>CCT	p.P1240P	ABCA2_uc011mel.1_Silent_p.P1241P|ABCA2_uc004ckl.1_Silent_p.P1171P|ABCA2_uc004ckm.1_Silent_p.P1271P|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1240					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GGGCCCGACCTGGGGGGCTGG	0.662													33	68	---	---	---	---	PASS	A	139909524	A	A	139909524	2	1	113	1	0	0	0	0	0	0	0	1	32	1567	55	5		5	ABCA2	9	139909524	Silent	SNP	T	TCGA-51-4081-01A-01D-1458-08	2135088	139909524	1303907	127	41809										
USP6NL	9712	broad.mit.edu	37	chr10	11504618	11504618	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggccatggtcctgaaagggtGcgagttgaaaggctgagtat	16	6	0	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr10:11504618G>A	uc001ikt.3	-	15	2630	c.2309C>T	c.(2308-2310)GCA>GTA	p.A770V	USP6NL_uc001iks.1_Missense_Mutation_p.A787V	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	770						intracellular	Rab GTPase activator activity				0						CTGAAAGGGTGCGAGTTGAAA	0.493													141	84	---	---	---	---	PASS	A	11504618	A	A	11504618	3	1	113	1	0	0	0	0	1	0	0	0	17084	1319	46	3	181	3	USP6NL	10	11504618	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08		11504618	124030129	128	41810										
NMT2	9397	broad.mit.edu	37	chr10	15154953	15154953	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	caggaaatcagtcagtttacCgttggggctctaggagcaaa	12	8	3	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr10:15154953C>T	uc001inz.1	-	10	1264	c.1180G>A	c.(1180-1182)GGT>AGT	p.G394S	NMT2_uc001ioa.1_Missense_Mutation_p.G381S|NMT2_uc009xjo.1_Missense_Mutation_p.G394S|NMT2_uc010qbz.1_Missense_Mutation_p.G206S	NM_004808	NP_004799	O60551	NMT2_HUMAN	N-myristoyltransferase 2	394					N-terminal protein myristoylation|protein lipoylation	Golgi apparatus|plasma membrane	glycylpeptide N-tetradecanoyltransferase activity			ovary(1)	1						GTCAGTTTACCGTTGGGGCTC	0.512													27	126	---	---	---	---	PASS	T	15154953	T	T	15154953	3	4	113	1	0	0	0	0	1	0	0	0	10504	652	23	1	328	1	NMT2	10	15154953	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	3650335	15154953	120379794	129	41811										
MASTL	84930	broad.mit.edu	37	chr10	27459555	27459555	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aagttctagttttctatgttCtgatgatgatagagcttcta	8	5	4	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr10:27459555C>G	uc001itm.2	+	8	2306	c.1667C>G	c.(1666-1668)TCT>TGT	p.S556C	MASTL_uc001itl.2_Missense_Mutation_p.S556C|MASTL_uc009xkw.1_Missense_Mutation_p.S556C|MASTL_uc009xkx.1_RNA	NM_032844	NP_116233	Q96GX5	GWL_HUMAN	microtubule associated serine/threonine	556	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|mitosis|negative regulation of protein phosphatase type 2A activity|regulation of cell cycle|response to DNA damage stimulus	centrosome|cleavage furrow|nucleus	ATP binding|protein phosphatase 2A binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						TTTCTATGTTCTGATGATGAT	0.328													4	138	---	---	---	---	PASS	G	27459555	G	G	27459555	3	3	113	1	0	0	0	0	1	0	0	0	9328	913	32	2	1697	2	MASTL	10	27459555	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	12304602	27459555	108075192	130	41812										
FZD8	8325	broad.mit.edu	37	chr10	35929155	35929155	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	atgccgaagaagtagaccagCaagaagaccacggtgcacag	12	10	0	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr10:35929155C>A	uc001iyz.1	-	1	1208	c.1203G>T	c.(1201-1203)TTG>TTT	p.L401F		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	401	Helical; Name=3; (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						AGTAGACCAGCAAGAAGACCA	0.567													23	25	---	---	---	---	PASS	A	35929155	A	A	35929155	3	1	113	1	0	0	0	0	1	0	0	0	6136	709	25	3	885	3	FZD8	10	35929155	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	8469600	35929155	99605592	131	41813										
ANKRD30A	91074	broad.mit.edu	37	chr10	37508589	37508589	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	acaaacacactgaacagcagGagtctctagatcagaaatta	7	9	2	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr10:37508589G>C	uc001iza.1	+	34	3880	c.3781G>C	c.(3781-3783)GAG>CAG	p.E1261Q		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1317	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						TGAACAGCAGGAGTCTCTAGA	0.368													4	45	---	---	---	---	PASS	C	37508589	C	C	37508589	3	2	113	1	0	0	0	0	1	0	0	0	658	1175	41	2	3915	2	ANKRD30A	10	37508589	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	1579434	37508589	98026158	132	41814										
OGDHL	55753	broad.mit.edu	37	chr10	50960229	50960229	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gagggtgttttcagagccccCaatgaaggtggttgtcggca	15	8	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr10:50960229C>T	uc001jie.2	-	5	686	c.544G>A	c.(544-546)GGG>AGG	p.G182R	OGDHL_uc009xog.2_Missense_Mutation_p.G209R|OGDHL_uc010qgt.1_Missense_Mutation_p.G125R|OGDHL_uc010qgu.1_5'UTR|OGDHL_uc009xoh.2_5'UTR	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	182					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						TCAGAGCCCCCAATGAAGGTG	0.607													20	13	---	---	---	---	PASS	T	50960229	T	T	50960229	3	4	113	1	0	0	0	0	1	0	0	0	10840	594	21	3	2564	3	OGDHL	10	50960229	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	13451640	50960229	84574518	133	41815										
MYOZ1	58529	broad.mit.edu	37	chr10	75393825	75393825	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tctccgcctgcctggtctccTggtagccatgggagagaaaa	12	12	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr10:75393825T>A	uc001jur.2	-	5	868	c.503_splice	c.e5-1	p.G168_splice		NM_021245	NP_067068	Q9NP98	MYOZ1_HUMAN	myozenin 1						myofibril assembly	nucleus|pseudopodium	FATZ binding			ovary(2)	2	Prostate(51;0.0112)					CCTGGTCTCCTGGTAGCCATG	0.488													3	31	---	---	---	---	PASS	A	75393825	A	A	75393825	5	1	113	1	0	0	0	0	0	0	1	0	10095	1594	55	5	406	5	MYOZ1	10	75393825	Splice_Site	SNP	T	TCGA-51-4081-01A-01D-1458-08	24433596	75393825	60140922	134	41816										
ZNF518A	9849	broad.mit.edu	37	chr10	97919827	97919827	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggaacttcaatagaaaaaagActtccaaaaaaattttttca	4	6	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr10:97919827A>G	uc001klp.2	+	6	4605	c.3748A>G	c.(3748-3750)ACT>GCT	p.T1250A	ZNF518A_uc001klo.1_Missense_Mutation_p.T720A|ZNF518A_uc001klq.2_Missense_Mutation_p.T1250A|ZNF518A_uc001klr.2_Missense_Mutation_p.T1250A	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	1250					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		TAGAAAAAAGACTTCCAAAAA	0.338													5	69	---	---	---	---	PASS	G	97919827	G	G	97919827	3	3	113	1	0	0	0	0	1	0	0	0	17959	275	10	5	3750	5	ZNF518A	10	97919827	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	22526002	97919827	37614920	135	41817										
KCNK18	338567	broad.mit.edu	37	chr10	118969568	118969568	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctgccatcctccccttctggGagacacagttggatttcgag	10	13	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr10:118969568G>T	uc010qsr.1	+	3	913	c.913G>T	c.(913-915)GAG>TAG	p.E305*		NM_181840	NP_862823	Q7Z418	KCNKI_HUMAN	potassium channel, subfamily K, member 18	305						integral to membrane|plasma membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;0.19)		all cancers(201;0.0211)		CCCCTTCTGGGAGACACAGTT	0.488													7	244	---	---	---	---	PASS	T	118969568	T	T	118969568	4	4	113	1	0	0	0	0	0	1	0	0	8065	1175	41	2	923	2	KCNK18	10	118969568	Nonsense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	21049741	118969568	16565179	136	41818										
DMBT1	1755	broad.mit.edu	37	chr10	124390004	124390004	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttggtataactccttcccaaGcggtaagtgcacactagacc	8	12	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr10:124390004G>A	uc001lgk.1	+	45	5742	c.5636G>A	c.(5635-5637)AGC>AAC	p.S1879N	DMBT1_uc001lgl.1_Missense_Mutation_p.S1869N|DMBT1_uc001lgm.1_Missense_Mutation_p.S1251N|DMBT1_uc009xzz.1_Missense_Mutation_p.S1879N|DMBT1_uc010qtx.1_Missense_Mutation_p.S599N|DMBT1_uc009yab.1_Missense_Mutation_p.S582N|DMBT1_uc009yac.1_Missense_Mutation_p.S173N	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1879					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)				TCCTTCCCAAGCGGTAAGTGC	0.463													10	47	---	---	---	---	PASS	A	124390004	A	A	124390004	3	1	113	1	0	0	0	0	1	0	0	0	4577	971	34	3	5814	3	DMBT1	10	124390004	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	5420436	124390004	11144743	137	41819										
DEAF1	10522	broad.mit.edu	37	chr11	674723	674723	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccagcccattgaccaacgcgGgaggtgccgctttggtggga	15	12	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:674723G>A	uc001lqq.1	-	10	2009	c.1316C>T	c.(1315-1317)CCC>CTC	p.P439L	DEAF1_uc009ycf.1_RNA	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	439	Pro-rich.				embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		GACCAACGCGGGAGGTGCCGC	0.562													88	133	---	---	---	---	PASS	A	674723	A	A	674723	3	1	113	1	0	0	0	0	1	0	0	0	4380	1232	43	3	393	3	DEAF1	11	674723	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08		674723	134331793	138	41820										
MUC5B	727897	broad.mit.edu	37	chr11	1264922	1264922	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	acccccttctccagggacgaCcaccccgggccacaccacgg	9	21	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:1264922C>A	uc009ycr.1	+	48	8852	c.8726C>A	c.(8725-8727)ACC>AAC	p.T2909N	MUC5B_uc001ltb.2_Missense_Mutation_p.T2274N	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2271	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCAGGGACGACCACCCCGGGC	0.682													34	196	---	---	---	---	PASS	A	1264922	A	A	1264922	3	1	113	1	0	0	0	0	1	0	0	0	9979	507	18	3	6943	3	MUC5B	11	1264922	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	590199	1264922	133741594	139	41821										
MUC5B	727897	broad.mit.edu	37	chr11	1267380	1267380	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	accaccacacccatggccacCatgtccacaatccacccctc	3	22	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:1267380C>A	uc009ycr.1	+	49	11145	c.11019C>A	c.(11017-11019)ACC>ACA	p.T3673T	MUC5B_uc001ltb.2_Silent_p.T3093T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3090	7 X Cys-rich subdomain repeats.|Thr-rich.|17 X approximate tandem repeats, Ser/Thr- rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCATGGCCACCATGTCCACAA	0.612													37	56	---	---	---	---	PASS	A	1267380	A	A	1267380	2	1	113	1	0	0	0	0	0	0	0	1	9979	581	21	3		3	MUC5B	11	1267380	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	2458	1267380	133739136	140	41822										
STIM1	6786	broad.mit.edu	37	chr11	3877612	3877612	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cgacaggaaccagctcggggGccaactctgaggagtccact	13	13	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:3877612G>A	uc001lyv.2	+	1	680	c.112G>A	c.(112-114)GCC>ACC	p.A38T	STIM1_uc009yef.2_Missense_Mutation_p.A38T	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	38	Extracellular (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		CAGCTCGGGGGCCAACTCTGA	0.637													6	144	---	---	---	---	PASS	A	3877612	A	A	3877612	3	1	113	1	0	0	0	0	1	0	0	0	15282	1203	42	3	114	3	STIM1	11	3877612	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	2610232	3877612	131128904	141	41823										
DCHS1	8642	broad.mit.edu	37	chr11	6646574	6646574	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gctcaaagtccaggggccccGtgagggagacacggcctcca	14	14	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:6646574G>A	uc001mem.1	-	19	7411	c.7001C>T	c.(7000-7002)ACG>ATG	p.T2334M		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	2334	Cadherin 22.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAGGGGCCCCGTGAGGGAGAC	0.612													23	39	---	---	---	---	PASS	A	6646574	A	A	6646574	3	1	113	1	0	0	0	0	1	0	0	0	4287	1145	40	1	2907	1	DCHS1	11	6646574	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	2768962	6646574	128359942	142	41824										
OR10A5	144124	broad.mit.edu	37	chr11	6867073	6867073	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttctggttaccctagctgacCccatgctacacagccccatg	7	16	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:6867073C>A	uc001met.1	+	1	160	c.160C>A	c.(160-162)CCC>ACC	p.P54T		NM_178168	NP_835462	Q9H207	O10A5_HUMAN	olfactory receptor, family 10, subfamily A,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CCTAGCTGACCCCATGCTACA	0.453													157	335	---	---	---	---	PASS	A	6867073	A	A	6867073	3	1	113	1	0	0	0	0	1	0	0	0	10893	623	22	3	162	3	OR10A5	11	6867073	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	220499	6867073	128139443	143	41825										
OR4A47	403253	broad.mit.edu	37	chr11	48510836	48510836	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cttagcattatttatgggctCccattctgtggccccaatgt	8	11	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:48510836C>A	uc010rhx.1	+	1	492	c.492C>A	c.(490-492)CTC>CTA	p.L164L		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	164	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTTATGGGCTCCCATTCTGTG	0.448													153	226	---	---	---	---	PASS	A	48510836	A	A	48510836	2	1	113	1	0	0	0	0	0	0	0	1	11042	842	30	2		2	OR4A47	11	48510836	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	41643763	48510836	86495680	144	41826										
CTTN	2017	broad.mit.edu	37	chr11	70260667	70260667	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gtcagctgtcggccacgaatAtcagtcgaaactttccaagc	9	12	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:70260667A>G	uc001opv.3	+	6	517	c.311A>G	c.(310-312)TAT>TGT	p.Y104C	CTTN_uc001opu.2_Missense_Mutation_p.Y104C|CTTN_uc001opw.3_Missense_Mutation_p.Y104C	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	104	Cortactin 1.					cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		GGCCACGAATATCAGTCGAAA	0.547													34	92	---	---	---	---	PASS	G	70260667	G	G	70260667	3	3	113	1	0	0	0	0	1	0	0	0	4044	449	16	5	325	5	CTTN	11	70260667	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	21749831	70260667	64745849	145	41827										
C2CD3	26005	broad.mit.edu	37	chr11	73753101	73753101	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttctcagtagagcctcacctGagagaagtcagaatggaggt	12	8	3	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:73753101G>C	uc001ouu.2	-	29	5885	c.5658C>G	c.(5656-5658)CTC>CTG	p.L1886L	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1886						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					AGCCTCACCTGAGAGAAGTCA	0.488													3	108	---	---	---	---	PASS	C	73753101	C	C	73753101	2	2	113	1	0	0	0	0	0	0	0	1	2154	1277	45	2		2	C2CD3	11	73753101	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	3492434	73753101	61253415	146	41828										
MOGAT2	80168	broad.mit.edu	37	chr11	75438533	75438533	+	Frame_Shift_Del	DEL	C	-	-													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aactacattgcgggcttccaCccccatggagtcctggcagt							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:75438533delC	uc010rru.1	+	3	324	c.324delC	c.(322-324)CACfs	p.H108fs	MOGAT2_uc001oww.1_Frame_Shift_Del_p.H108fs|MOGAT2_uc010rrv.1_Frame_Shift_Del_p.H26fs	NM_025098	NP_079374	Q3SYC2	MOGT2_HUMAN	monoacylglycerol O-acyltransferase 2	108	Helical; (Potential).				glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			ovary(2)	2	Ovarian(111;0.103)					CGGGCTTCCACCCCCATGGAG	0.527													117	60	---	---	---	---		-	75438533	-	-	75438533	7	5	113	1	0	1	0	1	0	0	0	0	9695	506	18	0	334	0	MOGAT2	11	75438533	Frame_Shift_Del	DEL	C	TCGA-51-4081-01A-01D-1458-08	1685432	75438533	59567983	147	41829										
MYO7A	4647	broad.mit.edu	37	chr11	76922973	76922973	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	acctttggctcagccttcttCgaggtgaaggtacaccatgg	11	11	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:76922973C>T	uc001oyb.2	+	46	6617	c.6345C>T	c.(6343-6345)TTC>TTT	p.F2115F	MYO7A_uc001oyc.2_Silent_p.F2077F|MYO7A_uc001oye.2_RNA	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	2115	FERM 2.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						CAGCCTTCTTCGAGGTGAAGG	0.557													3	58	---	---	---	---	PASS	T	76922973	T	T	76922973	2	4	113	1	0	0	0	0	0	0	0	1	10082	883	31	2		2	MYO7A	11	76922973	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	1484440	76922973	58083543	148	41830										
CWF19L2	143884	broad.mit.edu	37	chr11	107299903	107299903	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	actcttgattttgccttgggTtagattctcttctacacgtt	7	9	3	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:107299903T>A	uc010rvp.1	-	8	1085	c.1055A>T	c.(1054-1056)AAC>ATC	p.N352I	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	352							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		TTGCCTTGGGTTAGATTCTCT	0.358													59	117	---	---	---	---	PASS	A	107299903	A	A	107299903	3	1	113	1	0	0	0	0	1	0	0	0	4072	1725	60	5	1673	5	CWF19L2	11	107299903	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	30376930	107299903	27706613	149	41831										
TECTA	7007	broad.mit.edu	37	chr11	120998686	120998686	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	catgggggagttcttctgggCcacggccaactgcactgtgc	14	12	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:120998686C>A	uc010rzo.1	+	8	2000	c.2000C>A	c.(1999-2001)GCC>GAC	p.A667D		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	667					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TTCTTCTGGGCCACGGCCAAC	0.642													5	98	---	---	---	---	PASS	A	120998686	A	A	120998686	3	1	113	1	0	0	0	0	1	0	0	0	15744	739	26	3	2030	3	TECTA	11	120998686	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	13698783	120998686	14007830	150	41832										
OR6M1	390261	broad.mit.edu	37	chr11	123676802	123676802	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aaaagatatggttttctcttCtcctaggaggcaggccaaca	9	9	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr11:123676802C>T	uc010rzz.1	-	1	256	c.256G>A	c.(256-258)GAA>AAA	p.E86K		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	86	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		GTTTTCTCTTCTCCTAGGAGG	0.433													13	139	---	---	---	---	PASS	T	123676802	T	T	123676802	3	4	113	1	0	0	0	0	1	0	0	0	11205	922	32	2	688	2	OR6M1	11	123676802	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	2678116	123676802	11329714	151	41833										
KDM5A	5927	broad.mit.edu	37	chr12	416829	416829	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctgcagggcctctccttcagGcaaccgtacgggcaacttct	10	15	3	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr12:416829G>A	uc001qif.1	-	23	4084	c.3721C>T	c.(3721-3723)CCT>TCT	p.P1241S	KDM5A_uc001qie.1_Missense_Mutation_p.P1241S	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	1241					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						TCTCCTTCAGGCAACCGTACG	0.532			T 	NUP98	AML								91	105	---	---	---	---	PASS	A	416829	A	A	416829	3	1	113	1	0	0	0	0	1	0	0	0	8133	1203	42	3	1375	3	KDM5A	12	416829	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08		416829	133435066	152	41834										
PRH2	5555	broad.mit.edu	37	chr12	11082904	11082904	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cgttcccttggtaatatcagGtaaatcccaataaattctca	5	10	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr12:11082904G>A	uc009zhr.2	+	2	138	c.100_splice	c.e2+1	p.D34_splice	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH2_uc001qzh.2_Splice_Site_p.D34_splice|PRH2_uc001qzi.3_Splice_Site_p.D34_splice	NM_001110213	NP_001103683	P02810	PRPC_HUMAN	proline-rich protein HaeIII subfamily 2							extracellular space	protein binding				0						GTAATATCAGGTAAATCCCAA	0.383													69	132	---	---	---	---	PASS	A	11082904	A	A	11082904	5	1	113	1	0	0	0	0	0	0	1	0	12483	1275	44	3	107	3	PRH2	12	11082904	Splice_Site	SNP	G	TCGA-51-4081-01A-01D-1458-08	10666075	11082904	122768991	153	41835										
SPRYD3	84926	broad.mit.edu	37	chr12	53473103	53473103	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	atccccgcctaccggggccgCcgcgtcctcctcatccatag	9	20	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr12:53473103C>G	uc001sbt.1	-	1	36	c.15G>C	c.(13-15)CGG>CGC	p.R5R	SPRYD3_uc010snw.1_5'UTR	NM_032840	NP_116229	Q8NCJ5	SPRY3_HUMAN	SPRY domain containing 3	5										central_nervous_system(1)	1						ACCGGGGCCGCCGCGTCCTCC	0.716													10	4	---	---	---	---	PASS	G	53473103	G	G	53473103	2	3	113	1	0	0	0	0	0	0	0	1	15108	726	26	4		4	SPRYD3	12	53473103	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	42390199	53473103	80378792	154	41836										
NCKAP1L	3071	broad.mit.edu	37	chr12	54912482	54912482	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tccatcatcatgtcctcattCgtcagtatcctctcctctct	3	16	6	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr12:54912482C>A	uc001sgc.3	+	14	1465	c.1386C>A	c.(1384-1386)TTC>TTA	p.F462L	NCKAP1L_uc010sox.1_Missense_Mutation_p.F4L|NCKAP1L_uc010soy.1_Missense_Mutation_p.F412L	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	462					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						TGTCCTCATTCGTCAGTATCC	0.473													89	75	---	---	---	---	PASS	A	54912482	A	A	54912482	3	1	113	1	0	0	0	0	1	0	0	0	10222	883	31	2	1440	2	NCKAP1L	12	54912482	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	1439379	54912482	78939413	155	41837										
ZDHHC17	23390	broad.mit.edu	37	chr12	77220766	77220766	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttatagcagacctaaatattGattcttggctcattaaaggg	8	6	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr12:77220766G>C	uc001syk.1	+	9	1139	c.976G>C	c.(976-978)GAT>CAT	p.D326H	ZDHHC17_uc001syj.2_RNA	NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	326	Helical; (Potential).				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						CCTAAATATTGATTCTTGGCT	0.338													10	170	---	---	---	---	PASS	C	77220766	C	C	77220766	3	2	113	1	0	0	0	0	1	0	0	0	17604	1290	45	2	1010	2	ZDHHC17	12	77220766	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	22308284	77220766	56631129	156	41838										
SLC6A15	55117	broad.mit.edu	37	chr12	85257356	85257356	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctgctgggagcaaagcccagCatatcttttaggtcttccat	9	11	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr12:85257356C>A	uc001szv.2	-	11	2173	c.1680G>T	c.(1678-1680)ATG>ATT	p.M560I	SLC6A15_uc010sul.1_Missense_Mutation_p.M453I|SLC6A15_uc001szw.1_Missense_Mutation_p.M268I	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	560					cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						CAAAGCCCAGCATATCTTTTA	0.289													91	74	---	---	---	---	PASS	A	85257356	A	A	85257356	3	1	113	1	0	0	0	0	1	0	0	0	14678	710	25	3	520	3	SLC6A15	12	85257356	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	8036590	85257356	48594539	157	41839										
FAM71C	196472	broad.mit.edu	37	chr12	100042517	100042517	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ataccagggctatcctagctGggaacacattggactcatct	9	11	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr12:100042517G>A	uc001tgn.2	+	1	987	c.565G>A	c.(565-567)GGG>AGG	p.G189R	ANKS1B_uc001tge.1_Intron|ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Intron	NM_153364	NP_699195	Q8NEG0	FA71C_HUMAN	hypothetical protein LOC196472	189											0				OV - Ovarian serous cystadenocarcinoma(2;0.00733)|Epithelial(2;0.0385)|all cancers(2;0.19)		TATCCTAGCTGGGAACACATT	0.512													15	40	---	---	---	---	PASS	A	100042517	A	A	100042517	3	1	113	1	0	0	0	0	1	0	0	0	5609	1348	47	3	567	3	FAM71C	12	100042517	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	14785161	100042517	33809378	158	41840										
TCHP	84260	broad.mit.edu	37	chr12	110340868	110340868	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tgccgtcctactggtgcagcCagcagcgcctgaatcagcag	12	14	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr12:110340868C>T	uc001tpn.2	+	2	190	c.37C>T	c.(37-39)CAG>TAG	p.Q13*	TCHP_uc001tpo.1_RNA|TCHP_uc001tpp.2_Nonsense_Mutation_p.Q13*	NM_001143852	NP_001137324	Q9BT92	TCHP_HUMAN	trichoplein	13	Potential.				apoptosis|negative regulation of cell growth	apical cortex|centrosome|keratin filament|mitochondrion|plasma membrane	protein binding			skin(1)	1						CTGGTGCAGCCAGCAGCGCCT	0.607													20	89	---	---	---	---	PASS	T	110340868	T	T	110340868	4	4	113	1	0	0	0	0	0	1	0	0	15699	595	21	3	39	3	TCHP	12	110340868	Nonsense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	10298351	110340868	23511027	159	41841										
ABCB9	23457	broad.mit.edu	37	chr12	123444664	123444664	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccgagtcaaagatgttgaagTggcggatgtcctccaggagg	15	8	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr12:123444664T>A	uc001udm.3	-	2	429	c.119A>T	c.(118-120)CAC>CTC	p.H40L	ABCB9_uc009zxr.2_Missense_Mutation_p.H40L|ABCB9_uc001udo.3_Missense_Mutation_p.H40L|ABCB9_uc010taj.1_Missense_Mutation_p.H40L|ABCB9_uc001udp.2_Missense_Mutation_p.H40L|ABCB9_uc001udq.2_5'UTR|ABCB9_uc001udr.2_Missense_Mutation_p.H40L	NM_019625	NP_062571	Q9NP78	ABCB9_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	40					positive regulation of T cell mediated cytotoxicity|protein transport	lysosomal membrane|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.84e-05)|Epithelial(86;0.000152)|BRCA - Breast invasive adenocarcinoma(302;0.111)		GATGTTGAAGTGGCGGATGTC	0.597													24	106	---	---	---	---	PASS	A	123444664	A	A	123444664	3	1	113	1	0	0	0	0	1	0	0	0	48	1696	59	5	2225	5	ABCB9	12	123444664	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	13103796	123444664	10407231	160	41842										
ATP8A2	51761	broad.mit.edu	37	chr13	26343289	26343289	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aacgatgtcgggatgatccaGacagcccacgtgggtgtggg	16	9	0	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr13:26343289G>T	uc001uqk.2	+	26	2632	c.2490G>T	c.(2488-2490)CAG>CAT	p.Q830H	ATP8A2_uc010tdi.1_Missense_Mutation_p.Q790H|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.Q380H	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	790	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		GGATGATCCAGACAGCCCACG	0.592													5	185	---	---	---	---	PASS	T	26343289	T	T	26343289	3	4	113	1	0	0	0	0	1	0	0	0	1193	933	33	2	2592	2	ATP8A2	13	26343289	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08		26343289	88826589	161	41843										
STARD13	90627	broad.mit.edu	37	chr13	33704002	33704002	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	accccttatgcctcccgtggGctcccttccctcggagtgtt	9	17	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr13:33704002G>T	uc001uuw.2	-	5	938	c.812C>A	c.(811-813)GCC>GAC	p.A271D	STARD13_uc001uuu.2_Missense_Mutation_p.A263D|STARD13_uc001uuv.2_Missense_Mutation_p.A153D|STARD13_uc001uux.2_Missense_Mutation_p.A236D|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Missense_Mutation_p.A256D	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	271					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		CCTCCCGTGGGCTCCCTTCCC	0.577													73	134	---	---	---	---	PASS	T	33704002	T	T	33704002	3	4	113	1	0	0	0	0	1	0	0	0	15255	1203	42	3	2569	3	STARD13	13	33704002	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	7360713	33704002	81465876	162	41844										
DIAPH3	81624	broad.mit.edu	37	chr13	60566683	60566683	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aatccaaatcatcaggagatGtaaccagggcattgatgagc	10	8	2	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr13:60566683G>A	uc001vht.2	-	10	1268	c.1049C>T	c.(1048-1050)ACA>ATA	p.T350I	DIAPH3_uc001vhu.2_Missense_Mutation_p.T87I|DIAPH3_uc001vhv.2_5'Flank|DIAPH3_uc001vhw.1_Missense_Mutation_p.T339I|DIAPH3_uc010aed.1_Missense_Mutation_p.T304I|DIAPH3_uc010aee.1_Missense_Mutation_p.T280I	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	350	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		ATCAGGAGATGTAACCAGGGC	0.403													9	67	---	---	---	---	PASS	A	60566683	A	A	60566683	3	1	113	1	0	0	0	0	1	0	0	0	4520	1377	48	3	2628	3	DIAPH3	13	60566683	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	26862681	60566683	54603195	163	41845										
OR4N5	390437	broad.mit.edu	37	chr14	20612368	20612368	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggctttatccattccattgtAcaagtagcccttatcctgca	6	12	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr14:20612368A>T	uc010tla.1	+	1	474	c.474A>T	c.(472-474)GTA>GTT	p.V158V		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)		ATTCCATTGTACAAGTAGCCC	0.488													115	262	---	---	---	---	PASS	T	20612368	T	T	20612368	2	4	113	1	0	0	0	0	0	0	0	1	11079	378	14	5		5	OR4N5	14	20612368	Silent	SNP	A	TCGA-51-4081-01A-01D-1458-08		20612368	86737172	164	41846										
OR11G2	390439	broad.mit.edu	37	chr14	20665821	20665821	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aacttctccttcttggagatAtgttatgtcacctccacagt	6	11	3	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr14:20665821A>G	uc010tlb.1	+	1	327	c.327A>G	c.(325-327)ATA>ATG	p.I109M		NM_001005503	NP_001005503	Q8NGC1	O11G2_HUMAN	olfactory receptor, family 11, subfamily G,	109	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.76e-07)|all cancers(55;5.61e-06)	GBM - Glioblastoma multiforme(265;0.0144)		TCTTGGAGATATGTTATGTCA	0.522													44	94	---	---	---	---	PASS	G	20665821	G	G	20665821	3	3	113	1	0	0	0	0	1	0	0	0	10925	439	16	5	329	5	OR11G2	14	20665821	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	53453	20665821	86683719	165	41847										
RNASE3	6037	broad.mit.edu	37	chr14	21360032	21360032	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	caattaacaattatcgatggCgttgcaaaaaccaaaatact	5	8	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr14:21360032C>A	uc001vyj.2	+	2	241	c.187C>A	c.(187-189)CGT>AGT	p.R63S		NM_002935	NP_002926	P12724	ECP_HUMAN	ribonuclease, RNase A family, 3 (eosinophil	63					defense response to bacterium|RNA catabolic process	extracellular region|soluble fraction	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00453)		OV - Ovarian serous cystadenocarcinoma(11;6.3e-09)|Epithelial(56;1.42e-07)|all cancers(55;5.48e-07)	GBM - Glioblastoma multiforme(265;0.0187)	Pranlukast(DB01411)	TTATCGATGGCGTTGCAAAAA	0.438													126	145	---	---	---	---	PASS	A	21360032	A	A	21360032	3	1	113	1	0	0	0	0	1	0	0	0	13405	768	27	1	189	1	RNASE3	14	21360032	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	694211	21360032	85989508	166	41848										
TOX4	9878	broad.mit.edu	37	chr14	21960829	21960829	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccaccctttcatcctatgtgGcaaaccaggcatcttctgga	7	14	3	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr14:21960829G>A	uc001waz.2	+	7	1157	c.1054G>A	c.(1054-1056)GCA>ACA	p.A352T	TOX4_uc001way.2_Missense_Mutation_p.A222T|TOX4_uc001wba.2_RNA|TOX4_uc010tlu.1_Missense_Mutation_p.A329T|TOX4_uc010tlv.1_Missense_Mutation_p.A222T	NM_014828	NP_055643	O94842	TOX4_HUMAN	epidermal Langerhans cell protein LCP1	352						chromatin|nucleus|PTW/PP1 phosphatase complex	DNA binding|protein binding			ovary(1)	1	all_cancers(95;0.000465)		Epithelial(56;6.61e-06)|all cancers(55;5.15e-05)	GBM - Glioblastoma multiforme(265;0.0149)		ATCCTATGTGGCAAACCAGGC	0.488													5	326	---	---	---	---	PASS	A	21960829	A	A	21960829	3	1	113	1	0	0	0	0	1	0	0	0	16377	1203	42	3	1080	3	TOX4	14	21960829	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	600797	21960829	85388711	167	41849										
LRP10	26020	broad.mit.edu	37	chr14	23342656	23342656	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gaacagactgtcaccatcagGtgagaagcagaacaagagca	11	9	2	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr14:23342656G>T	uc001whd.2	+	3	768	c.215_splice	c.e3+1	p.R72_splice	LRP10_uc001whe.2_5'Flank	NM_014045	NP_054764	Q7Z4F1	LRP10_HUMAN	low density lipoprotein receptor-related protein						endocytosis	coated pit|integral to membrane				central_nervous_system(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.00549)		TCACCATCAGGTGAGAAGCAG	0.522													36	75	---	---	---	---	PASS	T	23342656	T	T	23342656	5	4	113	1	0	0	0	0	0	0	1	0	8952	1275	44	3	226	3	LRP10	14	23342656	Splice_Site	SNP	G	TCGA-51-4081-01A-01D-1458-08	1381827	23342656	84006884	168	41850										
LRRC16B	90668	broad.mit.edu	37	chr14	24524479	24524479	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tctaccatgctgaagataacCgggagttcaatcttttggat	9	8	3	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr14:24524479C>A	uc001wlj.2	+	8	722	c.565C>A	c.(565-567)CGG>AGG	p.R189R		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	189										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		TGAAGATAACCGGGAGTTCAA	0.552													42	315	---	---	---	---	PASS	A	24524479	A	A	24524479	2	1	113	1	0	0	0	0	0	0	0	1	8972	643	23	1		1	LRRC16B	14	24524479	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	1181823	24524479	82825061	169	41851										
JKAMP	51528	broad.mit.edu	37	chr14	59970688	59970688	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gataaacttgagcaagatttGccccttttggctttggtacc	9	9	0	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr14:59970688G>T	uc001xei.3	+	7	1378	c.876G>T	c.(874-876)TTG>TTT	p.L292F	JKAMP_uc001xef.3_Missense_Mutation_p.L278F|JKAMP_uc001xeh.3_Missense_Mutation_p.L272F|JKAMP_uc001xeg.3_Missense_Mutation_p.L286F|JKAMP_uc010try.1_Missense_Mutation_p.L215F|JKAMP_uc001xej.3_Missense_Mutation_p.L215F	NM_001098625	NP_001092095	Q9P055	JKAMP_HUMAN	JNK1-associated membrane protein isoform 2	293	Helical; (Potential).				ER-associated protein catabolic process|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ubiquitin protein ligase binding			breast(1)	1						AGCAAGATTTGCCCCTTTTGG	0.418													75	132	---	---	---	---	PASS	T	59970688	T	T	59970688	3	4	113	1	0	0	0	0	1	0	0	0	7949	1310	46	3	860	3	JKAMP	14	59970688	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	35446209	59970688	47378852	170	41852										
PSEN1	5663	broad.mit.edu	37	chr14	73659524	73659524	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccctggtgtttatcaagtacCtccctgaatggactgcgtgg	11	11	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr14:73659524C>T	uc001xnr.2	+	7	1005	c.721C>T	c.(721-723)CTC>TTC	p.L241F	PSEN1_uc001xnv.2_Missense_Mutation_p.L237F|PSEN1_uc010ark.2_Missense_Mutation_p.L237F|PSEN1_uc001xnt.1_RNA|PSEN1_uc001xnu.2_RNA	NM_000021	NP_000012	P49768	PSN1_HUMAN	presenilin 1 isoform I-467	241	Helical; (Potential).				amyloid precursor protein catabolic process|anti-apoptosis|beta-amyloid metabolic process|cell-cell adhesion|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|smooth endoplasmic reticulum calcium ion homeostasis	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|gamma-secretase complex|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum|smooth endoplasmic reticulum|Z disc	aspartic-type endopeptidase activity|beta-catenin binding|cadherin binding|calcium channel activity|PDZ domain binding			breast(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.075)		TATCAAGTACCTCCCTGAATG	0.468													155	182	---	---	---	---	PASS	T	73659524	T	T	73659524	3	4	113	1	0	0	0	0	1	0	0	0	12650	681	24	3	739	3	PSEN1	14	73659524	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	13688836	73659524	33690016	171	41853										
TMEM90A	646658	broad.mit.edu	37	chr14	74874667	74874667	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tgaggaagttgtcttcacttTcactctccgttgaagtggca	10	9	4	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr14:74874667T>C	uc001xpx.2	-	3	691	c.443A>G	c.(442-444)GAA>GGA	p.E148G		NM_001105579	NP_001099049	A6NDD5	SYN1L_HUMAN	transmembrane protein 90A	148					response to biotic stimulus	Golgi apparatus|integral to membrane					0				BRCA - Breast invasive adenocarcinoma(234;0.00159)		GTCTTCACTTTCACTCTCCGT	0.488													7	76	---	---	---	---	PASS	C	74874667	C	C	74874667	3	2	113	1	0	0	0	0	1	0	0	0	16215	1783	62	5	281	5	TMEM90A	14	74874667	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	1215143	74874667	32474873	172	41854										
NRXN3	9369	broad.mit.edu	37	chr14	78710064	78710064	+	RNA	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gtgagcgtccctgtgaaaatGgtgggatctgctttctcctg	13	9	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr14:78710064G>T	uc001xum.1	+	2		c.1421G>T						Q9Y4C0	NRX3A_HUMAN	Homo sapiens mRNA for KIAA0743 protein, partial cds.						axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CTGTGAAAATGGTGGGATCTG	0.587													45	124	---	---	---	---	PASS	T	78710064	T	T	78710064	1	4	113	0	1	0	0	0	0	0	0	0	10667	1363	47	3		3	NRXN3	14	78710064	RNA	SNP	G	TCGA-51-4081-01A-01D-1458-08	3835397	78710064	28639476	173	41855										
SLC24A4	123041	broad.mit.edu	37	chr14	92922946	92922946	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	acttcctgtcccccttctccGtgccgggtgagttctggggg	13	14	2	1	rs138624260		TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr14:92922946G>A	uc001yak.2	+	12	1222	c.1198G>A	c.(1198-1200)GTG>ATG	p.V400M	SLC24A4_uc001yai.2_Missense_Mutation_p.V353M|SLC24A4_uc010twm.1_Missense_Mutation_p.V398M|SLC24A4_uc001yaj.2_Missense_Mutation_p.V381M|SLC24A4_uc010auj.2_Missense_Mutation_p.V289M|SLC24A4_uc010twn.1_Missense_Mutation_p.V173M|SLC24A4_uc001yan.2_Missense_Mutation_p.V111M	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	417	Extracellular (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		CCCCTTCTCCGTGCCGGGTGA	0.622											OREG0022876	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	47	---	---	---	---	PASS	A	92922946	A	A	92922946	3	1	113	1	0	0	0	0	1	0	0	0	14468	1145	40	1	1244	1	SLC24A4	14	92922946	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	14212882	92922946	14426594	174	41856										
AHNAK2	113146	broad.mit.edu	37	chr14	105406002	105406002	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	agaatatctgtggatgatttGctctcagaagctgtcacttc	9	8	3	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr14:105406002G>T	uc010axc.1	-	7	15906	c.15786C>A	c.(15784-15786)AGC>AGA	p.S5262R	AHNAK2_uc001ypx.2_Missense_Mutation_p.S5162R	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5262						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)			TGGATGATTTGCTCTCAGAAG	0.502													153	291	---	---	---	---	PASS	T	105406002	T	T	105406002	3	4	113	1	0	0	0	0	1	0	0	0	415	1310	46	3	1605	3	AHNAK2	14	105406002	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	12483056	105406002	1943538	175	41857										
ATP10A	57194	broad.mit.edu	37	chr15	25940142	25940142	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttctcccatcgatcacgaggCtgggtctgcggccagaggca	13	13	3	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr15:25940142C>T	uc010ayu.2	-	14	3018	c.2912G>A	c.(2911-2913)AGC>AAC	p.S971N		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	971	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GATCACGAGGCTGGGTCTGCG	0.602													44	87	---	---	---	---	PASS	T	25940142	T	T	25940142	3	4	113	1	0	0	0	0	1	0	0	0	1116	797	28	3	1619	3	ATP10A	15	25940142	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08		25940142	76591250	176	41858										
HERC2	8924	broad.mit.edu	37	chr15	28377918	28377918	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gctgtgggctccgccagcagCaacatcgaccacttcaattc	9	15	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr15:28377918C>T	uc001zbj.2	-	80	12395	c.12289G>A	c.(12289-12291)GCT>ACT	p.A4097T		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4097	RCC1 15.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CCGCCAGCAGCAACATCGACC	0.557													7	192	---	---	---	---	PASS	T	28377918	T	T	28377918	3	4	113	1	0	0	0	0	1	0	0	0	7058	710	25	3	2271	3	HERC2	15	28377918	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	2437776	28377918	74153474	177	41859										
SEMA6D	80031	broad.mit.edu	37	chr15	48058151	48058151	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctttatatgtggcgttctctAgctgcattatccgcatcccc	7	13	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr15:48058151A>G	uc010bek.2	+	14	1873	c.1513A>G	c.(1513-1515)AGC>GGC	p.S505G	SEMA6D_uc001zvw.2_Missense_Mutation_p.S505G|SEMA6D_uc001zvy.2_Missense_Mutation_p.S505G|SEMA6D_uc001zvz.2_Missense_Mutation_p.S505G|SEMA6D_uc001zwa.2_Missense_Mutation_p.S505G|SEMA6D_uc001zwb.2_Missense_Mutation_p.S505G|SEMA6D_uc001zwc.2_Missense_Mutation_p.S505G	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	505	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		GGCGTTCTCTAGCTGCATTAT	0.438													73	141	---	---	---	---	PASS	G	48058151	G	G	48058151	3	3	113	1	0	0	0	0	1	0	0	0	14042	420	15	5	1567	5	SEMA6D	15	48058151	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	19680233	48058151	54473241	178	41860										
TRPM7	54822	broad.mit.edu	37	chr15	50904852	50904852	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggcaactaatgctttagccaTtgattcttcaccatgttgcc	7	11	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr15:50904852T>C	uc001zyt.3	-	16	2209	c.1945A>G	c.(1945-1947)ATG>GTG	p.M649V	TRPM7_uc010bew.1_Missense_Mutation_p.M649V|TRPM7_uc001zyu.2_Missense_Mutation_p.M207V	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	649	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		GCTTTAGCCATTGATTCTTCA	0.403													74	112	---	---	---	---	PASS	C	50904852	C	C	50904852	3	2	113	1	0	0	0	0	1	0	0	0	16588	1493	52	5	3748	5	TRPM7	15	50904852	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	2846701	50904852	51626540	179	41861										
UNC13C	440279	broad.mit.edu	37	chr15	54307273	54307273	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	acaattcttctccatgccctGgcttggataatgaaccacaa	6	12	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr15:54307273G>A	uc002ack.2	+	1	2173	c.2173G>A	c.(2173-2175)GGC>AGC	p.G725S		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	725					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TCCATGCCCTGGCTTGGATAA	0.418													22	30	---	---	---	---	PASS	A	54307273	A	A	54307273	3	1	113	1	0	0	0	0	1	0	0	0	16983	1348	47	3	2175	3	UNC13C	15	54307273	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	3402421	54307273	48224119	180	41862										
RPL4	6124	broad.mit.edu	37	chr15	66793358	66793358	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tctaacttccggaaagcactTtcagtccaaatgcagaaacg	7	11	2	1	rs143921047	byFrequency	TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr15:66793358T>C	uc002apv.2	-	7	818	c.762A>G	c.(760-762)GAA>GAG	p.E254E	RPL4_uc010bhr.2_Silent_p.E160E|RPL4_uc002apw.2_Silent_p.E160E|RPL4_uc002apx.2_Silent_p.E160E|RPL4_uc010ujq.1_3'UTR	NM_000968	NP_000959	P36578	RL4_HUMAN	ribosomal protein L4	254					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						GGAAAGCACTTTCAGTCCAAA	0.423													59	129	---	---	---	---	PASS	C	66793358	C	C	66793358	2	2	113	1	0	0	0	0	0	0	0	1	13595	1838	64	5		5	RPL4	15	66793358	Silent	SNP	T	TCGA-51-4081-01A-01D-1458-08	12486085	66793358	35738034	181	41863										
ADAMTS7	11173	broad.mit.edu	37	chr15	79058102	79058102	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tctcagggactctgtggctgTtggcggggctgtcccaagct	15	11	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr15:79058102T>C	uc002bej.3	-	19	4362	c.4151A>G	c.(4150-4152)AAC>AGC	p.N1384S	ADAMTS7_uc010und.1_3'UTR	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1384					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						TCTGTGGCTGTTGGCGGGGCT	0.692													3	61	---	---	---	---	PASS	C	79058102	C	C	79058102	3	2	113	1	0	0	0	0	1	0	0	0	271	1725	60	5	933	5	ADAMTS7	15	79058102	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	12264744	79058102	23473290	182	41864										
ACAN	176	broad.mit.edu	37	chr15	89401084	89401084	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tctggagtgactgagcttagCgggctgtcctctggacaacc	13	11	2	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr15:89401084C>T	uc010upo.1	+	12	5642	c.5268C>T	c.(5266-5268)AGC>AGT	p.S1756S	ACAN_uc010upp.1_Silent_p.S1756S|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	1756					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CTGAGCTTAGCGGGCTGTCCT	0.493													8	213	---	---	---	---	PASS	T	89401084	T	T	89401084	2	4	113	1	0	0	0	0	0	0	0	1	117	767	27	1		1	ACAN	15	89401084	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	10342982	89401084	13130308	183	41865										
ANPEP	290	broad.mit.edu	37	chr15	90347586	90347586	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gagttctcccggtaggtcacCagtccccagttctccatggc	10	15	3	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr15:90347586C>T	uc002bop.3	-	6	1369	c.1077G>A	c.(1075-1077)CTG>CTA	p.L359L		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	359	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	GGTAGGTCACCAGTCCCCAGT	0.627													65	89	---	---	---	---	PASS	T	90347586	T	T	90347586	2	4	113	1	0	0	0	0	0	0	0	1	710	581	21	3		3	ANPEP	15	90347586	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	946502	90347586	12183806	184	41866										
BAIAP3	8938	broad.mit.edu	37	chr16	1391391	1391391	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gcagcgcttcggcttccgcaAgggcagcaagcgcggtggac	16	13	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr16:1391391A>C	uc002clk.1	+	8	737	c.737A>C	c.(736-738)AAG>ACG	p.K246T	BAIAP3_uc002clj.2_Missense_Mutation_p.K228T|BAIAP3_uc010uuz.1_Missense_Mutation_p.K211T|BAIAP3_uc010uva.1_Missense_Mutation_p.K183T|BAIAP3_uc010uvb.1_Missense_Mutation_p.K263T|BAIAP3_uc010uvc.1_Missense_Mutation_p.K211T	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	246	C2 1.				G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				GGCTTCCGCAAGGGCAGCAAG	0.657													50	78	---	---	---	---	PASS	C	1391391	C	C	1391391	3	2	113	1	0	0	0	0	1	0	0	0	1304	72	3	5	767	5	BAIAP3	16	1391391	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08		1391391	88963362	185	41867										
ZNF423	23090	broad.mit.edu	37	chr16	49557637	49557637	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	atgtgctgctgcaacttgttGgcctggacgaagactagaca	12	9	0	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr16:49557637G>T	uc002efs.2	-	8	4021	c.3723C>A	c.(3721-3723)GCC>GCA	p.A1241A	ZNF423_uc010vgn.1_Silent_p.A1124A	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	1241	C2H2-type 29.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GCAACTTGTTGGCCTGGACGA	0.602													8	54	---	---	---	---	PASS	T	49557637	T	T	49557637	2	4	113	1	0	0	0	0	0	0	0	1	17895	1335	47	3		3	ZNF423	16	49557637	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	48166246	49557637	40797116	186	41868										
TRPV3	162514	broad.mit.edu	37	chr17	3417227	3417227	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gcttctacaccgaggtttccGggaattcctcgacttcttca	8	13	3	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:3417227G>A	uc002fvt.1	-	18	2679	c.2357C>T	c.(2356-2358)CCG>CTG	p.P786L	SPATA22_uc010vrg.1_5'Flank|TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Missense_Mutation_p.P770L|TRPV3_uc010vri.1_Missense_Mutation_p.P741L|TRPV3_uc010vrj.1_Missense_Mutation_p.P770L|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Missense_Mutation_p.P771L|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Missense_Mutation_p.P787L	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	786	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	CGAGGTTTCCGGGAATTCCTC	0.488													69	96	---	---	---	---	PASS	A	3417227	A	A	3417227	3	1	113	1	0	0	0	0	1	0	0	0	16594	1116	39	1	19	1	TRPV3	17	3417227	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08		3417227	77777983	187	41869										
TP53	7157	broad.mit.edu	37	chr17	7577120	7577120	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tcccaggacaggcacaaacaCgcacctcaaagctgttccgt	8	15	1	0	rs28934576	by1000genomes	TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:7577120C>A	uc002gim.2	-	8	1012	c.818G>T	c.(817-819)CGT>CTT	p.R273L	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141L|TP53_uc010cng.1_Missense_Mutation_p.R141L|TP53_uc002gii.1_Missense_Mutation_p.R141L|TP53_uc010cnh.1_Missense_Mutation_p.R273L|TP53_uc010cni.1_Missense_Mutation_p.R273L|TP53_uc002gij.2_Missense_Mutation_p.R273L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(469)|p.R273C(394)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(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)		GGCACAAACACGCACCTCAAA	0.542	R273H(NCIH1793_LUNG)|R273H(MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PANC1_PANCREAS)|R273H(NCIH508_LARGE_INTESTINE)|R273H(NCIH1975_LUNG)|R273H(U251MG_CENTRAL_NERVOUS_SYSTEM)|R273H(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273H(NCIH2405_LUNG)|R273H(HEC59_ENDOMETRIUM)|R273H(NCIH1155_LUNG)|R273H(HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(EN_ENDOMETRIUM)|R273H(SNB19_CENTRAL_NERVOUS_SYSTEM)|R273H(MDAMB468_BREAST)|R273H(SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW620_LARGE_INTESTINE)|R273H(SUIT2_PANCREAS)|R273H(SW480_LARGE_INTESTINE)|R273H(SKMEL30_SKIN)|R273H(OC314_OVARY)|R273H(HEC6_ENDOMETRIUM)|R273H(HT29_LARGE_INTESTINE)	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)			23	37	---	---	---	---	PASS	A	7577120	A	A	7577120	3	1	113	1	0	0	0	0	1	0	0	0	16378	536	19	1	468	1	TP53	17	7577120	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	4159893	7577120	73618090	188	41870										
TP53	7157	broad.mit.edu	37	chr17	7578469	7578469	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccatggcgcggacgcgggtgCcgggcgggggtgtggaatca	21	10	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:7578469C>A	uc002gim.2	-	5	655	c.461G>T	c.(460-462)GGC>GTC	p.G154V	TP53_uc002gig.1_Missense_Mutation_p.G154V|TP53_uc002gih.2_Missense_Mutation_p.G154V|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G22V|TP53_uc010cng.1_Missense_Mutation_p.G22V|TP53_uc002gii.1_Missense_Mutation_p.G22V|TP53_uc010cnh.1_Missense_Mutation_p.G154V|TP53_uc010cni.1_Missense_Mutation_p.G154V|TP53_uc002gij.2_Missense_Mutation_p.G154V|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.G61V|TP53_uc002gio.2_Missense_Mutation_p.G22V|TP53_uc010vug.1_Missense_Mutation_p.G115V	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	154	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		G -> D (in sporadic cancers; somatic mutation).|G -> S (in sporadic cancers; somatic mutation).|G -> A (in sporadic cancers; somatic mutation).|G -> V (in a brain tumor with no family history; germline mutation and in sporadic cancers; somatic mutation).|G -> I (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> C (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G154V(36)|p.G154G(12)|p.G154S(9)|p.0?(7)|p.G154D(6)|p.P152fs*14(4)|p.G154I(3)|p.G154fs*27(3)|p.G154fs*16(2)|p.G154fs*14(2)|p.P153fs*26(2)|p.P153fs*22(2)|p.P151_V173del23(1)|p.G154_R156delGTR(1)|p.G154C(1)|p.Q144_G154del11(1)|p.D148_T155delDSTPPPGT(1)|p.G154A(1)|p.S149fs*72(1)|p.G154fs*22(1)|p.D148fs*23(1)|p.P153_G154insX(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)		GACGCGGGTGCCGGGCGGGGG	0.607		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)			55	76	---	---	---	---	PASS	A	7578469	A	A	7578469	3	1	113	1	0	0	0	0	1	0	0	0	16378	739	26	3	837	3	TP53	17	7578469	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	1349	7578469	73616741	189	41871										
GAS7	8522	broad.mit.edu	37	chr17	9823009	9823009	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttgtagagatccacacagcgCatgaggtcgtctcctggaaa	11	10	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:9823009C>T	uc002gmg.1	-	12	1313	c.1152G>A	c.(1150-1152)ATG>ATA	p.M384I	GAS7_uc010vvc.1_Missense_Mutation_p.M198I|GAS7_uc002gmh.1_Missense_Mutation_p.M244I|GAS7_uc010vvd.1_Missense_Mutation_p.M336I|GAS7_uc002gmi.2_Missense_Mutation_p.M320I|GAS7_uc002gmj.1_Missense_Mutation_p.M324I|GAS7_uc010coh.1_Missense_Mutation_p.M324I	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	384	Potential.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						CCACACAGCGCATGAGGTCGT	0.547			T	MLL	AML*								20	141	---	---	---	---	PASS	T	9823009	T	T	9823009	3	4	113	1	0	0	0	0	1	0	0	0	6250	710	25	3	290	3	GAS7	17	9823009	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	2244540	9823009	71372201	190	41872										
MYH2	4620	broad.mit.edu	37	chr17	10433387	10433387	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctgcatcagccaagccttcgGcttccttaagttggaaacaa	8	12	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:10433387G>T	uc010coi.2	-	23	2830	c.2702C>A	c.(2701-2703)GCC>GAC	p.A901D	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.A901D|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	901	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CAAGCCTTCGGCTTCCTTAAG	0.398													121	155	---	---	---	---	PASS	T	10433387	T	T	10433387	3	4	113	1	0	0	0	0	1	0	0	0	10035	1203	42	3	3195	3	MYH2	17	10433387	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	610378	10433387	70761823	191	41873										
DNAH9	1770	broad.mit.edu	37	chr17	11583141	11583141	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tcaagaaagttgaaaaaggaGatttccaaggcttggttgag	12	4	1	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:11583141G>A	uc002gne.2	+	18	3489	c.3421G>A	c.(3421-3423)GAT>AAT	p.D1141N	DNAH9_uc010coo.2_Missense_Mutation_p.D435N	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1141	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TGAAAAAGGAGATTTCCAAGG	0.423													8	168	---	---	---	---	PASS	A	11583141	A	A	11583141	3	1	113	1	0	0	0	0	1	0	0	0	4608	942	33	2	3491	2	DNAH9	17	11583141	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	1149754	11583141	69612069	192	41874										
NF1	4763	broad.mit.edu	37	chr17	29556400	29556400	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	atgttaaggatctggtgggtCtagaattgagtcctgctctg	13	6	3	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:29556400C>G	uc002hgg.2	+	21	3100	c.2767C>G	c.(2767-2769)CTA>GTA	p.L923V	NF1_uc002hgh.2_Missense_Mutation_p.L923V|NF1_uc010csn.1_Missense_Mutation_p.L783V|NF1_uc002hgi.1_5'UTR	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	923					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TCTGGTGGGTCTAGAATTGAG	0.403			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			118	172	---	---	---	---	PASS	G	29556400	G	G	29556400	3	3	113	1	0	0	0	0	1	0	0	0	10356	912	32	2	2910	2	NF1	17	29556400	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	17973259	29556400	51638810	193	41875										
AARSD1	80755	broad.mit.edu	37	chr17	41113248	41113248	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gtcaaacctccgctcccaatCtacccggaccagaacctggc	7	18	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:41113248C>G	uc002icc.2	-	3	295	c.292G>C	c.(292-294)GAT>CAT	p.D98H	AARSD1_uc002icd.2_Missense_Mutation_p.D211H|AARSD1_uc002ice.2_Missense_Mutation_p.D181H|AARSD1_uc002icf.2_Missense_Mutation_p.D272H|AARSD1_uc010whg.1_Missense_Mutation_p.D272H|AARSD1_uc010cyu.1_Missense_Mutation_p.D98H	NM_025267	NP_079543	Q9BTE6	AASD1_HUMAN	alanyl-tRNA synthetase domain containing 1	98					alanyl-tRNA aminoacylation	cytoplasm	alanine-tRNA ligase activity|ATP binding|metal ion binding|nucleic acid binding				0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		CGCTCCCAATCTACCCGGACC	0.498													175	301	---	---	---	---	PASS	G	41113248	G	G	41113248	3	3	113	1	0	0	0	0	1	0	0	0	21	913	32	2	986	2	AARSD1	17	41113248	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	11556848	41113248	40081962	194	41876										
KIF2B	84643	broad.mit.edu	37	chr17	51901248	51901248	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggtgtaccagttcaccgcccAgccactggtggagtccatct	11	14	2	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:51901248A>T	uc002iua.2	+	1	1010	c.854A>T	c.(853-855)CAG>CTG	p.Q285L	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	285	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TTCACCGCCCAGCCACTGGTG	0.567													38	66	---	---	---	---	PASS	T	51901248	T	T	51901248	3	4	113	1	0	0	0	0	1	0	0	0	8298	188	7	5	856	5	KIF2B	17	51901248	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	10788000	51901248	29293962	195	41877										
TLK2	11011	broad.mit.edu	37	chr17	60642414	60642414	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gagcatgcaagaccgcttgaGactgggccactttactactg	11	11	0	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:60642414G>A	uc010ddp.2	+	11	1152	c.884G>A	c.(883-885)AGA>AAA	p.R295K	TLK2_uc002izx.3_Missense_Mutation_p.R143K|TLK2_uc002izz.3_Missense_Mutation_p.R295K|TLK2_uc002jaa.3_Missense_Mutation_p.R263K|TLK2_uc010wpd.1_Missense_Mutation_p.R263K	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	295					cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						GACCGCTTGAGACTGGGCCAC	0.408													74	122	---	---	---	---	PASS	A	60642414	A	A	60642414	3	1	113	1	0	0	0	0	1	0	0	0	15941	942	33	2	922	2	TLK2	17	60642414	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	8741166	60642414	20552796	196	41878										
CD79B	974	broad.mit.edu	37	chr17	62007148	62007148	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	accttgtccagcagcaggaaGataggcacgatgatgaagag	13	8	0	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:62007148G>T	uc002jdq.1	-	4	614	c.531C>A	c.(529-531)ATC>ATA	p.I177I	CD79B_uc002jdo.1_Silent_p.I151I|CD79B_uc002jdp.1_Silent_p.I178I|CD79B_uc002jdr.1_Silent_p.I73I	NM_000626	NP_000617	P40259	CD79B_HUMAN	CD79B antigen isoform 1 precursor	177	Helical; (Potential).				cell surface receptor linked signaling pathway|immune response	Golgi apparatus|integral to plasma membrane|nucleus	transmembrane receptor activity				0						GCAGCAGGAAGATAGGCACGA	0.572			Mis|O		DLBCL								31	43	---	---	---	---	PASS	T	62007148	T	T	62007148	2	4	113	1	0	0	0	0	0	0	0	1	3037	932	33	2		2	CD79B	17	62007148	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	1364734	62007148	19188062	197	41879										
CDC42EP4	23580	broad.mit.edu	37	chr17	71281750	71281750	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tggtgtggctgcccatgctgCgggctgagccggggctgggg	21	10	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:71281750C>A	uc002jjn.2	-	2	1037	c.890G>T	c.(889-891)CGC>CTC	p.R297L	CDC42EP4_uc002jjo.2_Missense_Mutation_p.R297L|CDC42EP4_uc002jjp.1_Missense_Mutation_p.R227L	NM_012121	NP_036253	Q9H3Q1	BORG4_HUMAN	Cdc42 effector protein 4	297					positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|cytoplasm|endomembrane system|membrane|microtubule cytoskeleton	GTP-Rho binding				0			LUSC - Lung squamous cell carcinoma(166;0.0352)|Lung(188;0.0711)			GCCCATGCTGCGGGCTGAGCC	0.711													12	36	---	---	---	---	PASS	A	71281750	A	A	71281750	3	1	113	1	0	0	0	0	1	0	0	0	3078	768	27	1	184	1	CDC42EP4	17	71281750	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	9274602	71281750	9913460	198	41880										
CANT1	124583	broad.mit.edu	37	chr17	76989728	76989728	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aaggccatgatgtaggaggcGactctgccgctgtcctcctc	12	13	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr17:76989728G>T	uc002jwn.2	-	6	1549	c.1110C>A	c.(1108-1110)GTC>GTA	p.V370V	CANT1_uc002jwk.2_Silent_p.V370V|CANT1_uc002jwj.2_Silent_p.V370V|CANT1_uc002jwl.2_Intron|CANT1_uc002jwm.1_RNA	NM_001159772	NP_001153244	Q8WVQ1	CANT1_HUMAN	calcium activated nucleotidase 1	370	Lumenal (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to membrane	calcium ion binding|nucleoside-diphosphatase activity|signal transducer activity				0			BRCA - Breast invasive adenocarcinoma(99;0.0362)|OV - Ovarian serous cystadenocarcinoma(97;0.139)			TGTAGGAGGCGACTCTGCCGC	0.567			T	ETV4	prostate						OREG0024788	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	47	75	---	---	---	---	PASS	T	76989728	T	T	76989728	2	4	113	1	0	0	0	0	0	0	0	1	2617	1045	37	2		2	CANT1	17	76989728	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	5707978	76989728	4205482	199	41881										
MC5R	4161	broad.mit.edu	37	chr18	13826522	13826522	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gtttaccgtgtgctgggcccCgttcttccttcatctcactt	8	14	3	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr18:13826522C>T	uc010xaf.1	+	1	758	c.758C>T	c.(757-759)CCG>CTG	p.P253L		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	253	Helical; Name=6; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6						TGCTGGGCCCCGTTCTTCCTT	0.572													13	233	---	---	---	---	PASS	T	13826522	T	T	13826522	3	4	113	1	0	0	0	0	1	0	0	0	9367	652	23	1	760	1	MC5R	18	13826522	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08		13826522	64250726	200	41882										
DSC2	1824	broad.mit.edu	37	chr18	28659823	28659823	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aaattcttaccttggtctgaTgcaaggactgtaatattata	7	6	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr18:28659823T>C	uc002kwl.3	-	11	2107	c.1653A>G	c.(1651-1653)GCA>GCG	p.A551A	DSC2_uc002kwk.3_Silent_p.A551A	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	551	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			CTTGGTCTGATGCAAGGACTG	0.368													113	215	---	---	---	---	PASS	C	28659823	C	C	28659823	2	2	113	1	0	0	0	0	0	0	0	1	4766	1451	51	5		5	DSC2	18	28659823	Silent	SNP	T	TCGA-51-4081-01A-01D-1458-08	14833301	28659823	49417425	201	41883										
LIPG	9388	broad.mit.edu	37	chr18	47107935	47107935	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tctgagctgccgcaagaaccGttgtaatagcattggctaca	10	10	1	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr18:47107935G>A	uc002ldv.2	+	6	1196	c.944G>A	c.(943-945)CGT>CAT	p.R315H	LIPG_uc002ldu.1_Missense_Mutation_p.R315H|LIPG_uc010xdh.1_Missense_Mutation_p.R241H	NM_006033	NP_006024	Q9Y5X9	LIPE_HUMAN	endothelial lipase precursor	315					cholesterol homeostasis|high-density lipoprotein particle remodeling|phospholipid catabolic process|phospholipid homeostasis|positive regulation of cholesterol transport|positive regulation of high-density lipoprotein particle clearance|reverse cholesterol transport	extracellular space	heparin binding|lipoprotein lipase activity|phospholipase A1 activity|protein binding|triglyceride lipase activity			ovary(1)|skin(1)	2						CGCAAGAACCGTTGTAATAGC	0.478													85	118	---	---	---	---	PASS	A	47107935	A	A	47107935	3	1	113	1	0	0	0	0	1	0	0	0	8823	1145	40	1	966	1	LIPG	18	47107935	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	18448112	47107935	30969313	202	41884										
DCC	1630	broad.mit.edu	37	chr18	50278668	50278668	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	agacaccacaagccagatgaGggactttaccaatgtgaggc	11	10	0	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr18:50278668G>A	uc002lfe.1	+	2	923	c.336G>A	c.(334-336)GAG>GAA	p.E112E	DCC_uc010xdr.1_5'UTR	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	112	Extracellular (Potential).|Ig-like C2-type 1.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AGCCAGATGAGGGACTTTACC	0.413													47	109	---	---	---	---	PASS	A	50278668	A	A	50278668	2	1	113	1	0	0	0	0	0	0	0	1	4282	991	35	3		3	DCC	18	50278668	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	3170733	50278668	27798580	203	41885										
SERPINB8	5271	broad.mit.edu	37	chr18	61654442	61654442	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aagattctgtgcagaccaccCttttcttttcttcatcaggc	6	12	5	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr18:61654442C>A	uc002ljv.2	+	7	1224	c.1055C>A	c.(1054-1056)CCT>CAT	p.P352H	SERPINB8_uc002lju.2_Missense_Mutation_p.P352H|SERPINB8_uc010xex.1_Missense_Mutation_p.P170H	NM_198833	NP_942130	P50452	SPB8_HUMAN	serine (or cysteine) proteinase inhibitor, clade	352					regulation of proteolysis	cytosol	protein binding|serine-type endopeptidase inhibitor activity			skin(1)	1		Esophageal squamous(42;0.129)				GCAGACCACCCTTTTCTTTTC	0.517													19	229	---	---	---	---	PASS	A	61654442	A	A	61654442	3	1	113	1	0	0	0	0	1	0	0	0	14107	681	24	3	1090	3	SERPINB8	18	61654442	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	11375774	61654442	16422806	204	41886										
KEAP1	9817	broad.mit.edu	37	chr19	10602326	10602326	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gtggccatcgatgacccccaCcccgatgcggttacggggca	13	15	0	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr19:10602326C>A	uc002moq.1	-	3	1408	c.1252G>T	c.(1252-1254)GTG>TTG	p.V418L	KEAP1_uc002mop.1_Missense_Mutation_p.V136L|KEAP1_uc002mor.1_Missense_Mutation_p.V418L	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	418	Kelch 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding	p.V418M(1)		lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			ATGACCCCCACCCCGATGCGG	0.662													12	28	---	---	---	---	PASS	A	10602326	A	A	10602326	3	1	113	1	0	0	0	0	1	0	0	0	8141	507	18	3	638	3	KEAP1	19	10602326	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08		10602326	48526657	205	41887										
LPHN1	22859	broad.mit.edu	37	chr19	14273821	14273821	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccgttctcgtccaccgccagGtcaatgtcggtctttccgcc	9	17	3	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr19:14273821G>A	uc010xnn.1	-	6	1103	c.807C>T	c.(805-807)GAC>GAT	p.D269D	LPHN1_uc010xno.1_Silent_p.D264D|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	269	Olfactomedin-like.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						CCACCGCCAGGTCAATGTCGG	0.617													30	42	---	---	---	---	PASS	A	14273821	A	A	14273821	2	1	113	1	0	0	0	0	0	0	0	1	8915	1252	44	3		3	LPHN1	19	14273821	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	3671495	14273821	44855162	206	41888										
ZNF486	90649	broad.mit.edu	37	chr19	20278150	20278150	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cacagccaagatgccgggacCccttagaagcctagaaatgg	11	12	0	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr19:20278150C>A	uc002nou.2	+	1	68	c.11C>A	c.(10-12)CCC>CAC	p.P4H		NM_052852	NP_443084	Q96H40	ZN486_HUMAN	zinc finger protein 486	4					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATGCCGGGACCCCTTAGAAGC	0.592													17	45	---	---	---	---	PASS	A	20278150	A	A	20278150	3	1	113	1	0	0	0	0	1	0	0	0	17936	623	22	3	13	3	ZNF486	19	20278150	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	6004329	20278150	38850833	207	41889										
ZNF536	9745	broad.mit.edu	37	chr19	30936608	30936608	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	accgggagtgcccaggaggaCagcccgcacccctcctcgcc	12	19	0	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr19:30936608C>G	uc002nsu.1	+	2	2277	c.2139C>G	c.(2137-2139)GAC>GAG	p.D713E	ZNF536_uc010edd.1_Missense_Mutation_p.D713E	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	713					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CCCAGGAGGACAGCCCGCACC	0.677													17	47	---	---	---	---	PASS	G	30936608	G	G	30936608	3	3	113	1	0	0	0	0	1	0	0	0	17971	477	17	4	2141	4	ZNF536	19	30936608	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	10658458	30936608	28192375	208	41890										
GPI	2821	broad.mit.edu	37	chr19	34884949	34884949	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ctatgaccagtacctgcaccGctttgctgcgtacttccagc	8	15	0	1	rs137853583		TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr19:34884949G>A	uc002nvg.1	+	12	1143	c.1040G>A	c.(1039-1041)CGC>CAC	p.R347H	GPI_uc002nvf.2_Missense_Mutation_p.R386H|GPI_uc010xrv.1_Missense_Mutation_p.R358H|GPI_uc010xrw.1_Missense_Mutation_p.R319H|GPI_uc010edl.1_Missense_Mutation_p.R347H|GPI_uc002nvi.1_Missense_Mutation_p.R10H	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	347			R -> H (in HA-GPID).|R -> C (in HA-GPID; GPI Mount Scopus).		angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					TACCTGCACCGCTTTGCTGCG	0.582													9	47	---	---	---	---	PASS	A	34884949	A	A	34884949	3	1	113	1	0	0	0	0	1	0	0	0	6611	1087	38	1	1207	1	GPI	19	34884949	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	3948341	34884949	24244034	209	41891										
KIRREL2	84063	broad.mit.edu	37	chr19	36357069	36357069	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gtcccctcaggacccaaccaAcggttactacaaggtccgag	9	15	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr19:36357069A>G	uc002ocb.3	+	15	2014	c.1802A>G	c.(1801-1803)AAC>AGC	p.N601S	KIRREL2_uc002obz.3_Missense_Mutation_p.N601S|KIRREL2_uc002oca.3_Missense_Mutation_p.N551S|KIRREL2_uc002occ.3_Missense_Mutation_p.N548S|KIRREL2_uc002ocd.3_Missense_Mutation_p.N563S|APLP1_uc010xsz.1_5'Flank|APLP1_uc002oce.2_5'Flank|APLP1_uc002ocf.2_5'Flank|APLP1_uc002ocg.2_5'Flank	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	601	Cytoplasmic (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GACCCAACCAACGGTTACTAC	0.592													82	183	---	---	---	---	PASS	G	36357069	G	G	36357069	3	3	113	1	0	0	0	0	1	0	0	0	8325	43	2	5	1860	5	KIRREL2	19	36357069	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	1472120	36357069	22771914	210	41892										
CYP2F1	1572	broad.mit.edu	37	chr19	41627406	41627406	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gtgctgagtcgctcagtgtcCaacattatctgttccgtgct	10	11	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr19:41627406C>A	uc002opu.1	+	5	584	c.528C>A	c.(526-528)TCC>TCA	p.S176S	CYP2F1_uc010xvw.1_Intron|CYP2F1_uc010xvv.1_Silent_p.S176S|CYP2F1_uc002opv.1_RNA	NM_000774	NP_000765	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F,	176					naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0						GCTCAGTGTCCAACATTATCT	0.522													70	151	---	---	---	---	PASS	A	41627406	A	A	41627406	2	1	113	1	0	0	0	0	0	0	0	1	4171	581	21	3		3	CYP2F1	19	41627406	Silent	SNP	C	TCGA-51-4081-01A-01D-1458-08	5270337	41627406	17501577	211	41893										
VRK3	51231	broad.mit.edu	37	chr19	50512642	50512642	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	agttcagccctctctttgagCctaaagaaaggcagacaaaa	8	10	2	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr19:50512642C>G	uc002prg.2	-	4	238	c.140G>C	c.(139-141)GGC>GCC	p.G47A	VRK3_uc002prh.1_Missense_Mutation_p.G47A|VRK3_uc002pri.1_Intron|VRK3_uc010ens.2_Missense_Mutation_p.G47A|VRK3_uc010ybl.1_Intron|VRK3_uc010ybm.1_Intron|VRK3_uc002prj.1_Intron|VRK3_uc002prk.1_Missense_Mutation_p.G47A|VRK3_uc010ent.1_5'UTR|VRK3_uc002prl.2_Missense_Mutation_p.G47A|VRK3_uc010ybn.1_Missense_Mutation_p.G47A	NM_016440	NP_057524	Q8IV63	VRK3_HUMAN	vaccinia related kinase 3 isoform 1	47						nucleus	ATP binding|protein kinase activity			stomach(1)|skin(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00166)|OV - Ovarian serous cystadenocarcinoma(262;0.00652)		TCTCTTTGAGCCTAAAGAAAG	0.498													66	115	---	---	---	---	PASS	G	50512642	G	G	50512642	3	3	113	1	0	0	0	0	1	0	0	0	17218	753	26	4	1328	4	VRK3	19	50512642	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	8885236	50512642	8616341	212	41894										
FCAR	2204	broad.mit.edu	37	chr19	55399650	55399650	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccccagtaatgccttggagcTtgtggtcacaggtaggtacc	12	11	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr19:55399650T>A	uc002qhr.1	+	4	835	c.638T>A	c.(637-639)CTT>CAT	p.L213H	FCAR_uc002qhq.2_Missense_Mutation_p.L213H|FCAR_uc002qhs.1_Intron|FCAR_uc002qht.1_Intron|FCAR_uc010esi.1_Intron|FCAR_uc002qhu.1_Intron|FCAR_uc002qhv.1_Intron|FCAR_uc002qhw.1_Missense_Mutation_p.L201H|FCAR_uc002qhx.1_Intron|FCAR_uc002qhy.1_Intron|FCAR_uc002qhz.1_Intron|FCAR_uc002qia.1_Missense_Mutation_p.L104H	NM_002000	NP_001991	P24071	FCAR_HUMAN	Fc alpha receptor isoform a precursor	213	Extracellular (Potential).				immune response	extracellular region|integral to plasma membrane	IgA binding|receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0443)		GCCTTGGAGCTTGTGGTCACA	0.582													18	37	---	---	---	---	PASS	A	55399650	A	A	55399650	3	1	113	1	0	0	0	0	1	0	0	0	5773	1609	56	5	652	5	FCAR	19	55399650	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	4887008	55399650	3729333	213	41895										
ZIM2	23619	broad.mit.edu	37	chr19	57286632	57286632	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	agggctacttgcgtactaaaGgttcgtttgcaaaattcaca	9	8	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr19:57286632G>A	uc002qnr.2	-	11	1390	c.1008C>T	c.(1006-1008)ACC>ACT	p.T336T	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Silent_p.T132T|ZIM2_uc010ygr.1_Silent_p.T132T|ZIM2_uc002qnq.2_Silent_p.T336T|ZIM2_uc010etp.2_Silent_p.T336T|ZIM2_uc010ygs.1_Silent_p.T336T	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	336	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		GCGTACTAAAGGTTCGTTTGC	0.473													64	83	---	---	---	---	PASS	A	57286632	A	A	57286632	2	1	113	1	0	0	0	0	0	0	0	1	17681	987	35	3		3	ZIM2	19	57286632	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	1886982	57286632	1842351	214	41896										
USP29	57663	broad.mit.edu	37	chr19	57640572	57640572	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aaaacacactatcatctgatGtacagacaaatgaggacatt	6	8	2	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr19:57640572G>T	uc002qny.2	+	4	885	c.529G>T	c.(529-531)GTA>TTA	p.V177L		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	177					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ATCATCTGATGTACAGACAAA	0.368													81	117	---	---	---	---	PASS	T	57640572	T	T	57640572	3	4	113	1	0	0	0	0	1	0	0	0	17056	1377	48	3	531	3	USP29	19	57640572	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	353940	57640572	1488411	215	41897										
NOP56	10528	broad.mit.edu	37	chr20	2638918	2638918	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	caagaagaagaaaaagttccAtaaagcatcccaggaagatt	8	7	0	4			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr20:2638918A>G	uc002wgh.2	+	12	1816	c.1763A>G	c.(1762-1764)CAT>CGT	p.H588R	NOP56_uc010zpy.1_RNA|NOP56_uc002wgi.2_Missense_Mutation_p.H422R|NOP56_uc002wgm.1_3'UTR	NM_006392	NP_006383	O00567	NOP56_HUMAN	nucleolar protein 5A	588	Lys-rich.				rRNA processing	box C/D snoRNP complex|pre-snoRNP complex	protein binding|snoRNA binding			ovary(1)|pancreas(1)	2						AAAAAGTTCCATAAAGCATCC	0.517													5	10	---	---	---	---	PASS	G	2638918	G	G	2638918	3	3	113	1	0	0	0	0	1	0	0	0	10539	217	8	5	1809	5	NOP56	20	2638918	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08		2638918	60386602	216	41898										
LRRN4	164312	broad.mit.edu	37	chr20	6022379	6022379	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttgggggcttggggtgtggcGtgtgtcctctggccgggctg	21	8	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr20:6022379G>T	uc002wmo.2	-	5	1736	c.1512C>A	c.(1510-1512)CAC>CAA	p.H504Q		NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	504	Extracellular (Potential).					integral to membrane				skin(3)	3						GGGGTGTGGCGTGTGTCCTCT	0.647													85	244	---	---	---	---	PASS	T	6022379	T	T	6022379	3	4	113	1	0	0	0	0	1	0	0	0	9037	1136	40	1	714	1	LRRN4	20	6022379	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	3383461	6022379	57003141	217	41899										
NXT1	29107	broad.mit.edu	37	chr20	23334882	23334882	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tttgaaatgttgccttccagCgagttccaaatcagcgtggt	10	9	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr20:23334882C>A	uc002wsx.1	+	2	591	c.204C>A	c.(202-204)AGC>AGA	p.S68R		NM_013248	NP_037380	Q9UKK6	NXT1_HUMAN	NTF2-like export factor 1	68	NTF2.					cytoplasm|nuclear pore				ovary(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					TGCCTTCCAGCGAGTTCCAAA	0.507													19	189	---	---	---	---	PASS	A	23334882	A	A	23334882	3	1	113	1	0	0	0	0	1	0	0	0	10794	767	27	1	206	1	NXT1	20	23334882	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	17312503	23334882	39690638	218	41900										
TMEM90B	79953	broad.mit.edu	37	chr20	24523765	24523765	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cattgaacagaagagcatgcTggtgcacagtaaaatcagtg	11	7	1	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr20:24523765T>A	uc002wtw.1	+	2	665	c.32T>A	c.(31-33)CTG>CAG	p.L11Q		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	11	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						AAGAGCATGCTGGTGCACAGT	0.507													18	205	---	---	---	---	PASS	A	24523765	A	A	24523765	3	1	113	1	0	0	0	0	1	0	0	0	16216	1580	55	5	34	5	TMEM90B	20	24523765	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	1188883	24523765	38501755	219	41901										
ACSS1	84532	broad.mit.edu	37	chr20	25028754	25028754	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	tcacttccgttccaggctcaTcgcgctcccagatcaaagca	7	16	3	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr20:25028754T>G	uc002wub.2	-	2	1276	c.398A>C	c.(397-399)GAT>GCT	p.D133A	ACSS1_uc002wuc.2_Missense_Mutation_p.D133A|ACSS1_uc010gdc.2_Missense_Mutation_p.D133A	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	133					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TCCAGGCTCATCGCGCTCCCA	0.562													25	43	---	---	---	---	PASS	G	25028754	G	G	25028754	3	3	113	1	0	0	0	0	1	0	0	0	188	1435	50	5	1723	5	ACSS1	20	25028754	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	504989	25028754	37996766	220	41902										
SPATA2	9825	broad.mit.edu	37	chr20	48523097	48523097	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccgccgccgcagggcgtccgAgcagccgcgcacatcctctg	13	19	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr20:48523097A>C	uc010gie.2	-	3	972	c.622T>G	c.(622-624)TCG>GCG	p.S208A	SPATA2_uc002xuw.2_Missense_Mutation_p.S208A|SPATA2_uc010zyn.1_Missense_Mutation_p.S71A	NM_001135773	NP_001129245	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	208					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			AGGGCGTCCGAGCAGCCGCGC	0.652													25	37	---	---	---	---	PASS	C	48523097	C	C	48523097	3	2	113	1	0	0	0	0	1	0	0	0	15004	304	11	5	944	5	SPATA2	20	48523097	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	23494343	48523097	14502423	221	41903										
ZNF831	128611	broad.mit.edu	37	chr20	57769016	57769016	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	agaacgggcatcatttgttgGgtcaggactggggacccctc	14	10	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr20:57769016G>T	uc002yan.2	+	1	2942	c.2942G>T	c.(2941-2943)GGG>GTG	p.G981V		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	981						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					TCATTTGTTGGGTCAGGACTG	0.642													61	82	---	---	---	---	PASS	T	57769016	T	T	57769016	3	4	113	1	0	0	0	0	1	0	0	0	18182	1232	43	3	2944	3	ZNF831	20	57769016	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08	9245919	57769016	5256504	222	41904										
KCNQ2	3785	broad.mit.edu	37	chr20	62065210	62065210	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cgtagtactgccacgtggagTgcaggtctgtgcgcgagagg	17	9	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr20:62065210T>C	uc002yey.1	-	8	1247	c.1070A>G	c.(1069-1071)CAC>CGC	p.H357R	KCNQ2_uc002yez.1_Missense_Mutation_p.H357R|KCNQ2_uc002yfa.1_Missense_Mutation_p.H357R|KCNQ2_uc002yfb.1_Missense_Mutation_p.H357R|KCNQ2_uc011aax.1_Missense_Mutation_p.H357R|KCNQ2_uc002yfc.1_Missense_Mutation_p.H357R	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	357	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	CCACGTGGAGTGCAGGTCTGT	0.622													57	88	---	---	---	---	PASS	C	62065210	C	C	62065210	3	2	113	1	0	0	0	0	1	0	0	0	8083	1696	59	5	1652	5	KCNQ2	20	62065210	Missense_Mutation	SNP	T	TCGA-51-4081-01A-01D-1458-08	4296194	62065210	960310	223	41905										
SLC25A18	83733	broad.mit.edu	37	chr22	18065400	18065400	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	cggccaacgactttttccggCggctgctcatggaagatggg	14	11	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr22:18065400C>T	uc002zmp.1	+	6	765	c.271C>T	c.(271-273)CGG>TGG	p.R91W	SLC25A18_uc010gqx.2_Missense_Mutation_p.R91W|SLC25A18_uc002zmq.1_Missense_Mutation_p.R91W	NM_031481	NP_113669	Q9H1K4	GHC2_HUMAN	solute carrier	91	Solcar 1.					integral to membrane|mitochondrial inner membrane	binding|symporter activity				0				Lung(27;0.124)	L-Glutamic Acid(DB00142)	CTTTTTCCGGCGGCTGCTCAT	0.547													5	24	---	---	---	---	PASS	T	18065400	T	T	18065400	3	4	113	1	0	0	0	0	1	0	0	0	14480	759	27	1	285	1	SLC25A18	22	18065400	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08		18065400	33239166	224	41906										
CCDC116	164592	broad.mit.edu	37	chr22	21989177	21989177	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	aagcgagagttcaataaggaGatcaagtcattactgagcca	10	7	3	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr22:21989177G>A	uc002zve.2	+	4	918	c.825G>A	c.(823-825)GAG>GAA	p.E275E	CCDC116_uc011aih.1_Silent_p.E275E	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	275										ovary(1)|skin(1)	2	Colorectal(54;0.105)					TCAATAAGGAGATCAAGTCAT	0.602													40	232	---	---	---	---	PASS	A	21989177	A	A	21989177	2	1	113	1	0	0	0	0	0	0	0	1	2753	933	33	2		2	CCDC116	22	21989177	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	3923777	21989177	29315389	225	41907										
C22orf30	253143	broad.mit.edu	37	chr22	32108241	32108241	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ggaggctggagaccgtaaccCtttcaggccctgtgtaaact	12	11	1	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr22:32108241C>T	uc003alp.3	-	4	5777	c.5584G>A	c.(5584-5586)GGG>AGG	p.G1862R	C22orf30_uc003alo.1_Missense_Mutation_p.G1661R|C22orf30_uc010gwj.1_Missense_Mutation_p.G1661R	NM_173566	NP_775837	Q5THK1	PR14L_HUMAN	hypothetical protein LOC253143	1862											0						GACCGTAACCCTTTCAGGCCC	0.532													176	103	---	---	---	---	PASS	T	32108241	T	T	32108241	3	4	113	1	0	0	0	0	1	0	0	0	2142	681	24	3	895	3	C22orf30	22	32108241	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	10119064	32108241	19196325	226	41908										
XRCC6	2547	broad.mit.edu	37	chr22	42018068	42018068	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gaagaagcagaggaagaacaAgaagagaaccttgaagcaag	13	5	0	6			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chr22:42018068A>G	uc003bao.1	+	2	130	c.60A>G	c.(58-60)CAA>CAG	p.Q20Q	PPPDE2_uc003ban.1_5'Flank|PPPDE2_uc011apb.1_5'Flank|XRCC6_uc003bap.1_Silent_p.Q20Q|XRCC6_uc011apc.1_Missense_Mutation_p.K8R|XRCC6_uc003baq.1_Silent_p.Q20Q|XRCC6_uc003bar.1_Silent_p.Q20Q|XRCC6_uc003bas.1_Missense_Mutation_p.K8R	NM_001469	NP_001460	P12956	XRCC6_HUMAN	ATP-dependent DNA helicase II, 70 kDa subunit	20	Asp/Glu-rich (acidic).|Ser-rich (potentially targets for phosphorylation).			Q -> D (in Ref. 8; AA sequence).	DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5						AGGAAGAACAAGAAGAGAACC	0.478								Direct_reversal_of_damage|NHEJ					30	70	---	---	---	---	PASS	G	42018068	G	G	42018068	2	3	113	1	0	0	0	0	0	0	0	1	17454	69	3	5		5	XRCC6	22	42018068	Silent	SNP	A	TCGA-51-4081-01A-01D-1458-08	9909827	42018068	9286498	227	41909										
MXRA5	25878	broad.mit.edu	37	chrX	3242456	3242456	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttctggttctgcaagaatctGggctctcacacctgtgtagt	10	10	4	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chrX:3242456G>T	uc004crg.3	-	5	1427	c.1270C>A	c.(1270-1272)CAG>AAG	p.Q424K		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	424						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GCAAGAATCTGGGCTCTCACA	0.512													68	35	---	---	---	---	PASS	T	3242456	T	T	3242456	3	4	113	1	0	0	0	0	1	0	0	0	10003	1357	47	3	7228	3	MXRA5	23	3242456	Missense_Mutation	SNP	G	TCGA-51-4081-01A-01D-1458-08		3242456	152028104	228	41910										
CTPS2	56474	broad.mit.edu	37	chrX	16711326	16711354	+	Splice_Site	DEL	TTTGTTCTCCGGTAGCACTGAGCTGAAAA	-	-													0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	gttttgggtgggtttggtttTttgttctccggtagcactga							TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chrX:16711326_16711354delTTTGTTCTCCGGTAGCACTGAGCTGAAAA	uc004cxk.2	-	6	1300	c.556_splice	c.e6-1	p.L186_splice	CTPS2_uc004cxl.2_Splice_Site_p.L186_splice|CTPS2_uc004cxm.2_Splice_Site_p.L186_splice	NM_001144002	NP_001137474	Q9NRF8	PYRG2_HUMAN	cytidine triphosphate synthase II						glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine nucleotide biosynthetic process	cytosol	ATP binding|CTP synthase activity			ovary(1)	1	Hepatocellular(33;0.0997)					GGTTTGGTTTTTTGTTCTCCGGTAGCACTGAGCTGAAAAAAAATGGGGT	0.485													18	23	---	---	---	---		-	16711354	-	-	16711326	8	5	113	1	0	1	0	1	0	0	1	0	4023	1850	64	0	1235	0	CTPS2	23	16711326	Splice_Site	DEL	TTTGTTCTCCGGTAGCACTGAGCTGAAAA	TCGA-51-4081-01A-01D-1458-08	13468870	16711326	138559234	229	41911										
FTHL17	53940	broad.mit.edu	37	chrX	31089811	31089811	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	agccttggcactctggcttcCtgatatcgtgaaggcagatg	12	10	1	3			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chrX:31089811C>A	uc004dcl.1	-	1	363	c.260G>T	c.(259-261)AGG>ATG	p.R87M		NM_031894	NP_114100	Q9BXU8	FHL17_HUMAN	ferritin, heavy polypeptide-like 17	87	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport		ferric iron binding|oxidoreductase activity				0						CTCTGGCTTCCTGATATCGTG	0.602													56	25	---	---	---	---	PASS	A	31089811	A	A	31089811	3	1	113	1	0	0	0	0	1	0	0	0	6083	681	24	3	295	3	FTHL17	23	31089811	Missense_Mutation	SNP	C	TCGA-51-4081-01A-01D-1458-08	14378485	31089811	124180749	230	41912										
MCF2	4168	broad.mit.edu	37	chrX	138680615	138680615	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttgcactggtttgagtaaatAggaatccagtctaagtctgt	10	6	2	1			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chrX:138680615A>G	uc004fau.2	-	17	2173	c.1879T>C	c.(1879-1881)TAT>CAT	p.Y627H	MCF2_uc004fav.2_Missense_Mutation_p.Y643H|MCF2_uc011mwl.1_Missense_Mutation_p.Y604H|MCF2_uc010nsh.1_Missense_Mutation_p.Y627H|MCF2_uc011mwm.1_Missense_Mutation_p.Y588H|MCF2_uc011mwn.1_Missense_Mutation_p.Y772H|MCF2_uc004faw.2_Missense_Mutation_p.Y687H|MCF2_uc011mwo.1_Missense_Mutation_p.Y703H	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	627	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					TTGAGTAAATAGGAATCCAGT	0.284													32	11	---	---	---	---	PASS	G	138680615	G	G	138680615	3	3	113	1	0	0	0	0	1	0	0	0	9378	420	15	5	962	5	MCF2	23	138680615	Missense_Mutation	SNP	A	TCGA-51-4081-01A-01D-1458-08	107590804	138680615	16589945	231	41913										
SLITRK4	139065	broad.mit.edu	37	chrX	142716936	142716936	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ttccttagctgcagctgcatGgagccacagtcaggattccc	10	13	1	0			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chrX:142716936G>T	uc004fbx.2	-	2	2365	c.1989C>A	c.(1987-1989)TCC>TCA	p.S663S	SLITRK4_uc004fby.2_Silent_p.S663S	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	663	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GCAGCTGCATGGAGCCACAGT	0.458													194	55	---	---	---	---	PASS	T	142716936	T	T	142716936	2	4	113	1	0	0	0	0	0	0	0	1	14745	1335	47	3		3	SLITRK4	23	142716936	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	4036321	142716936	12553624	232	41914										
UBE2NL	389898	broad.mit.edu	37	chrX	142967583	142967583	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0745614035087719	17	0.13217575897572	1.4028230184582	2.74080967892043	0.826459533951391	0.555135522297396	0.859641140065564	0	ccattagcaaatgatgtagtGgagcagtggaagaccaacga	12	7	0	2			TCGA-51-4081-01A-01D-1458-08	TCGA-51-4081-11A-01D-1458-08									Somatic	Phase_I	Capture				Illumina GAIIx	1492c429-1041-4d86-9358-c9b9babd1401	fd992c39-3a26-4982-8a8c-13fef6166372	g.chrX:142967583G>A	uc004fca.2	+	1	411	c.381G>A	c.(379-381)GTG>GTA	p.V127V		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	127							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					ATGATGTAGTGGAGCAGTGGA	0.448													118	16	---	---	---	---	PASS	A	142967583	A	A	142967583	2	1	113	1	0	0	0	0	0	0	0	1	16864	1335	47	3		3	UBE2NL	23	142967583	Silent	SNP	G	TCGA-51-4081-01A-01D-1458-08	250647	142967583	12302977	233	41915										
PRAMEF2	65122	broad.mit.edu	37	chr1	12921337	12921337	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctgcctggcctgagctgctgCtcccagctcaccaccttcta	8	18	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:12921337C>T	uc001aum.1	+	4	1215	c.1128C>T	c.(1126-1128)TGC>TGT	p.C376C		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	376											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TGAGCTGCTGCTCCCAGCTCA	0.562													47	179	---	---	---	---	PASS	T	12921337	T	T	12921337	2	4	114	1	0	0	0	0	0	0	0	1	12435	805	28	3		3	PRAMEF2	1	12921337	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08		12921337	236329284	1	41916										
ARHGEF10L	55160	broad.mit.edu	37	chr1	17991036	17991036	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agcctggaggatgccgtgtgGgccagctgtgggccctgggt	19	10	0	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:17991036G>A	uc001ban.2	+	26	3114	c.2955G>A	c.(2953-2955)TGG>TGA	p.W985*	ARHGEF10L_uc009vpe.1_Nonsense_Mutation_p.W946*|ARHGEF10L_uc001bao.2_Nonsense_Mutation_p.W946*|ARHGEF10L_uc001bap.2_Nonsense_Mutation_p.W941*|ARHGEF10L_uc001baq.2_Nonsense_Mutation_p.W746*|ARHGEF10L_uc010ocs.1_Nonsense_Mutation_p.W758*|ARHGEF10L_uc001bar.2_Nonsense_Mutation_p.W688*|ARHGEF10L_uc009vpf.2_RNA	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	985					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		ATGCCGTGTGGGCCAGCTGTG	0.667													15	9	---	---	---	---	PASS	A	17991036	A	A	17991036	4	1	114	1	0	0	0	0	0	1	0	0	895	1241	43	3	3053	3	ARHGEF10L	1	17991036	Nonsense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	5069699	17991036	231259585	2	41917										
TAS1R2	80834	broad.mit.edu	37	chr1	19180803	19180803	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gcatagaccgcagagtacacGctgtagacgacacgctcccc	10	15	0	3	rs139739080		TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:19180803G>A	uc001bba.1	-	3	1162	c.1161C>T	c.(1159-1161)AGC>AGT	p.S387S		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	387	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	CAGAGTACACGCTGTAGACGA	0.592													10	27	---	---	---	---	PASS	A	19180803	A	A	19180803	2	1	114	1	0	0	0	0	0	0	0	1	15560	1078	38	1		1	TAS1R2	1	19180803	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	1189767	19180803	230069818	3	41918										
HMGN2	3151	broad.mit.edu	37	chr1	26801131	26801131	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aaggaggggaataaccctgcAgaaaatggagatgccaaaac	12	7	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:26801131A>T	uc001bmp.3	+	5	412	c.210A>T	c.(208-210)GCA>GCT	p.A70A	HMGN2_uc009vsk.2_Silent_p.A55A|HMGN2_uc001bmq.3_Missense_Mutation_p.Q104L	NM_005517	NP_005508	P05204	HMGN2_HUMAN	high-mobility group nucleosomal binding domain	70					chromatin organization|regulation of transcription, DNA-dependent	chromatin|cytoplasm|nucleus	DNA binding|protein binding				0		all_cancers(24;1.9e-24)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.38e-49)|OV - Ovarian serous cystadenocarcinoma(117;5.38e-28)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000946)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.026)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.153)|LUSC - Lung squamous cell carcinoma(448;0.227)		ATAACCCTGCAGAAAATGGAG	0.408													4	17	---	---	---	---	PASS	T	26801131	T	T	26801131	2	4	114	1	0	0	0	0	0	0	0	1	7235	175	7	5		5	HMGN2	1	26801131	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	7620328	26801131	222449490	4	41919										
UTP11L	51118	broad.mit.edu	37	chr1	38483404	38483404	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aggctcttgaaaaaaatccaGatgaattctactacaaaatg	6	7	2	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:38483404G>T	uc001ccn.3	+	3	281	c.190G>T	c.(190-192)GAT>TAT	p.D64Y	UTP11L_uc009vvm.2_5'UTR|UTP11L_uc010oil.1_RNA|UTP11L_uc001cco.3_5'UTR	NM_016037	NP_057121	Q9Y3A2	UTP11_HUMAN	UTP11-like, U3 small nucleolar	64					induction of apoptosis|nerve growth factor receptor signaling pathway|nervous system development|rRNA processing	cytoplasm|extracellular space|nucleolus|small-subunit processome	protein binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				AAAAAATCCAGATGAATTCTA	0.403													17	26	---	---	---	---	PASS	T	38483404	T	T	38483404	3	4	114	1	0	0	0	0	1	0	0	0	17091	942	33	2	200	2	UTP11L	1	38483404	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	11682273	38483404	210767217	5	41920										
DPH2	1802	broad.mit.edu	37	chr1	44435860	44435860	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgtgcctcatggagtcgatgTttagcagccctgccgaggcg	14	11	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:44435860T>C	uc001ckz.2	+	1	208	c.13T>C	c.(13-15)TTT>CTT	p.F5L	DPH2_uc001cla.2_Missense_Mutation_p.F5L|DPH2_uc010okk.1_5'UTR|DPH2_uc001clb.2_5'UTR	NM_001384	NP_001375	Q9BQC3	DPH2_HUMAN	diphthamide biosynthesis protein 2 isoform a	5					peptidyl-diphthamide biosynthetic process from peptidyl-histidine	cytoplasm				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				GGAGTCGATGTTTAGCAGCCC	0.657													19	32	---	---	---	---	PASS	C	44435860	C	C	44435860	3	2	114	1	0	0	0	0	1	0	0	0	4720	1725	60	5	15	5	DPH2	1	44435860	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	5952456	44435860	204814761	6	41921										
USP24	23358	broad.mit.edu	37	chr1	55607343	55607344	+	Frame_Shift_Ins	INS	-	T	T													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	catggcagttgctgtaagcaINStttttgttgctctggtcaca							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:55607343_55607344insT	uc001cyg.3	-	21	2215_2216	c.2215_2216insA	c.(2215-2217)ATGfs	p.M739fs		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	899					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						TGCTGTAAGCATTTTTGTTGCT	0.401													15	9	---	---	---	---		T	55607344	T	T	55607343	7	5	114	1	0	1	1	0	0	0	0	0	17052	217	8	0	5346	0	USP24	1	55607343	Frame_Shift_Ins	INS	-	TCGA-56-1622-01A-01D-1521-08	11171483	55607343	193643278	7	41922										
GBP6	163351	broad.mit.edu	37	chr1	89845989	89845989	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ccaattttcccagggagtgcAtcaggcgtttctttccaaaa	8	11	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:89845989A>T	uc001dnf.2	+	6	944	c.670A>T	c.(670-672)ATC>TTC	p.I224F	GBP6_uc010ost.1_Missense_Mutation_p.I94F	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	224							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		CAGGGAGTGCATCAGGCGTTT	0.413													35	52	---	---	---	---	PASS	T	89845989	T	T	89845989	3	4	114	1	0	0	0	0	1	0	0	0	6278	217	8	5	688	5	GBP6	1	89845989	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	34238646	89845989	159404632	8	41923										
DPYD	1806	broad.mit.edu	37	chr1	98293701	98293701	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcggagagctcctcgctcacCaagagtcgtgtgcttgatgt	12	11	1	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:98293701C>A	uc001drv.2	-	3	339	c.202G>T	c.(202-204)GGT>TGT	p.G68C	DPYD_uc010oub.1_RNA|DPYD_uc001drw.2_Missense_Mutation_p.G68C	NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	68					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	CCTCGCTCACCAAGAGTCGTG	0.393													22	34	---	---	---	---	PASS	A	98293701	A	A	98293701	3	1	114	1	0	0	0	0	1	0	0	0	4745	594	21	3	3002	3	DPYD	1	98293701	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	8447712	98293701	150956920	9	41924										
EXTL2	2135	broad.mit.edu	37	chr1	101339863	101339863	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgaggctccaatcagcaccaTagagtactggtcaccatttc	8	12	2	2	rs141823466	by1000genomes	TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:101339863T>C	uc001dtk.1	-	5	965	c.628A>G	c.(628-630)ATG>GTG	p.M210V	EXTL2_uc001dtl.1_Missense_Mutation_p.M210V|EXTL2_uc010ouk.1_Missense_Mutation_p.M197V|EXTL2_uc001dtm.1_Missense_Mutation_p.M209V	NM_001439	NP_001430	Q9UBQ6	EXTL2_HUMAN	exostoses-like 2	210	Lumenal (Potential).				N-acetylglucosamine metabolic process|UDP-N-acetylgalactosamine metabolic process	extracellular region|integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,4-N-acetylgalactosaminyltransferase activity|glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding			skin(1)	1		all_epithelial(167;2.48e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0425)|all cancers(265;0.0628)|COAD - Colon adenocarcinoma(174;0.148)|Colorectal(144;0.167)|Lung(183;0.195)		ATCAGCACCATAGAGTACTGG	0.408													22	45	---	---	---	---	PASS	C	101339863	C	C	101339863	3	2	114	1	0	0	0	0	1	0	0	0	5326	1406	49	5	368	5	EXTL2	1	101339863	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	3046162	101339863	147910758	10	41925										
CHIA	27159	broad.mit.edu	37	chr1	111857928	111857928	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tctactcctgagaaccgccaGactttcatcacctcagtcat	5	15	5	2	rs150698600	byFrequency	TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:111857928G>A	uc001eas.2	+	6	454	c.351G>A	c.(349-351)CAG>CAA	p.Q117Q	CHIA_uc001ear.2_Silent_p.Q9Q|CHIA_uc001eaq.2_Silent_p.Q9Q|CHIA_uc009wgc.2_Silent_p.Q9Q|CHIA_uc001eat.2_Intron|CHIA_uc001eav.2_5'UTR|CHIA_uc001eau.2_Intron|CHIA_uc009wgd.2_Intron	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	117					apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		AGAACCGCCAGACTTTCATCA	0.537													61	129	---	---	---	---	PASS	A	111857928	A	A	111857928	2	1	114	1	0	0	0	0	0	0	0	1	3342	933	33	2		2	CHIA	1	111857928	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	10518065	111857928	137392693	11	41926										
MRPL9	65005	broad.mit.edu	37	chr1	151732535	151732535	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ggagagtagatttagatctgGgggctggtgggggccatagc	19	5	1	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:151732535G>C	uc001eyv.2	-	7	880	c.795C>G	c.(793-795)CCC>CCG	p.P265P	MRPL9_uc009wmz.2_RNA	NM_031420	NP_113608	Q9BYD2	RM09_HUMAN	mitochondrial ribosomal protein L9 precursor	265					translation	mitochondrial ribosome	structural constituent of ribosome			ovary(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			TTTAGATCTGGGGGCTGGTGG	0.527													33	32	---	---	---	---	PASS	C	151732535	C	C	151732535	2	2	114	1	0	0	0	0	0	0	0	1	9820	1219	43	4		4	MRPL9	1	151732535	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	39874607	151732535	97518086	12	41927										
RPTN	126638	broad.mit.edu	37	chr1	152129212	152129212	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcttcctcgtgcctctgtctGtgttgtctgcctgtgtttcc	9	13	4	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:152129212G>T	uc001ezs.1	-	3	428	c.363C>A	c.(361-363)CAC>CAA	p.H121Q		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	121	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						GCCTCTGTCTGTGTTGTCTGC	0.532													103	228	---	---	---	---	PASS	T	152129212	T	T	152129212	3	4	114	1	0	0	0	0	1	0	0	0	13664	1368	48	3	1995	3	RPTN	1	152129212	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	396677	152129212	97121409	13	41928										
FLG	2312	broad.mit.edu	37	chr1	152283417	152283417	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gagtgcccgtgactggctctGtcttcttgatggaacccagg	13	11	3	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:152283417G>C	uc001ezu.1	-	3	3981	c.3945C>G	c.(3943-3945)GAC>GAG	p.D1315E	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1315	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GACTGGCTCTGTCTTCTTGAT	0.373									Ichthyosis				93	222	---	---	---	---	PASS	C	152283417	C	C	152283417	3	2	114	1	0	0	0	0	1	0	0	0	5922	1368	48	4	8244	4	FLG	1	152283417	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	154205	152283417	96967204	14	41929										
FLG	2312	broad.mit.edu	37	chr1	152287908	152287908	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gaaaagattaattatggcaaAgatgttttccaggagagtag	11	3	0	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:152287908A>C	uc001ezu.1	-	2	61	c.25T>G	c.(25-27)TTT>GTT	p.F9V	uc001ezv.2_Intron	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	9	EF-hand 1.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATTATGGCAAAGATGTTTTCC	0.299									Ichthyosis				13	79	---	---	---	---	PASS	C	152287908	C	C	152287908	3	2	114	1	0	0	0	0	1	0	0	0	5922	72	3	5	12168	5	FLG	1	152287908	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	4491	152287908	96962713	15	41930										
ARHGEF2	9181	broad.mit.edu	37	chr1	155921325	155921325	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	accaatcgctgtaacgcctcCtgaggacagacagggtggga	13	11	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:155921325C>T	uc001fmt.2	-	19	2327	c.2209_splice	c.e19-1	p.E737_splice	ARHGEF2_uc001fmq.2_5'Flank|ARHGEF2_uc001fmr.2_Splice_Site_p.E709_splice|ARHGEF2_uc001fms.2_Splice_Site_p.E736_splice|ARHGEF2_uc001fmu.2_Splice_Site_p.E781_splice	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2						actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					GTAACGCCTCCTGAGGACAGA	0.557													102	98	---	---	---	---	PASS	T	155921325	T	T	155921325	5	4	114	1	0	0	0	0	0	0	1	0	903	695	24	3	768	3	ARHGEF2	1	155921325	Splice_Site	SNP	C	TCGA-56-1622-01A-01D-1521-08	3633417	155921325	93329296	16	41931										
SLAMF6	114836	broad.mit.edu	37	chr1	160465906	160465906	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gaggtctttgtggatatctgGgctctgtaagagcctgtgtc	14	7	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:160465906G>T	uc001fwe.1	-	2	387	c.327C>A	c.(325-327)GCC>GCA	p.A109A	SLAMF6_uc001fwd.1_Silent_p.A109A|SLAMF6_uc010pjh.1_Silent_p.A60A|SLAMF6_uc010pji.1_Intron|SLAMF6_uc010pjj.1_Intron|SLAMF6_uc009wtm.1_Silent_p.A60A	NM_052931	NP_443163	Q96DU3	SLAF6_HUMAN	activating NK receptor precursor	109	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	all_cancers(52;1.05e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0923)			TGGATATCTGGGCTCTGTAAG	0.438													125	105	---	---	---	---	PASS	T	160465906	T	T	160465906	2	4	114	1	0	0	0	0	0	0	0	1	14368	1219	43	3		3	SLAMF6	1	160465906	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	4544581	160465906	88784715	17	41932										
BAT2L2	23215	broad.mit.edu	37	chr1	171548569	171548569	+	Missense_Mutation	SNP	G	T	T													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cgattggctccgccatccttGgctcaacaacagggtttcca							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:171548569G>T	uc010pmg.1	+	27	7496	c.7230G>T	c.(7228-7230)TTG>TTT	p.L2410F	BAT2L2_uc010pmh.1_Missense_Mutation_p.L1322F|BAT2L2_uc010pmi.1_Missense_Mutation_p.L247F|BAT2L2_uc010pmj.1_5'Flank	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	2410	Gln-rich.						protein C-terminus binding				0						CGCCATCCTTGGCTCAACAAC	0.423													11	48	---	---	---	---	PASS	T	171548569	T	T	171548569	3	4	114	1	0	0	0	0	1	0	0	0	1321	1339	47	3	7332	3	BAT2L2	1	171548569	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	11082663	171548569	77702052	18	41933	784	2								
BAT2L2	23215	broad.mit.edu	37	chr1	171548570	171548570	+	Missense_Mutation	SNP	G	T	T													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gattggctccgccatccttgGctcaacaacagggtttccaa							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:171548570G>T	uc010pmg.1	+	27	7497	c.7231G>T	c.(7231-7233)GCT>TCT	p.A2411S	BAT2L2_uc010pmh.1_Missense_Mutation_p.A1323S|BAT2L2_uc010pmi.1_Missense_Mutation_p.A248S|BAT2L2_uc010pmj.1_5'Flank	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	2411	Gln-rich.						protein C-terminus binding				0						GCCATCCTTGGCTCAACAACA	0.418													11	46	---	---	---	---	PASS	T	171548570	T	T	171548570	3	4	114	1	0	0	0	0	1	0	0	0	1321	1203	42	3	7333	3	BAT2L2	1	171548570	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	1	171548570	77702051	19	41934	784	2								
PAPPA2	60676	broad.mit.edu	37	chr1	176740254	176740254	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aaccacgacgtgggcaccatCtgcaaatatgaatgcaaacc	8	12	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:176740254C>G	uc001gkz.2	+	17	5817	c.4653C>G	c.(4651-4653)ATC>ATG	p.I1551M	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1551	Sushi 3.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TGGGCACCATCTGCAAATATG	0.483													28	74	---	---	---	---	PASS	G	176740254	G	G	176740254	3	3	114	1	0	0	0	0	1	0	0	0	11433	903	32	2	4768	2	PAPPA2	1	176740254	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	5191684	176740254	72510367	20	41935										
RASAL2	9462	broad.mit.edu	37	chr1	178442279	178442279	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cgctgacccaagtgaaggagCggtacagcatgcaggtccgc	14	12	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:178442279C>T	uc001glr.2	+	16	3450	c.3325C>T	c.(3325-3327)CGG>TGG	p.R1109W	RASAL2_uc001glq.2_Missense_Mutation_p.R1250W|RASAL2_uc009wxc.2_Missense_Mutation_p.A633V	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	1109					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						AGTGAAGGAGCGGTACAGCAT	0.537													27	83	---	---	---	---	PASS	T	178442279	T	T	178442279	3	4	114	1	0	0	0	0	1	0	0	0	13064	759	27	1	3856	1	RASAL2	1	178442279	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	1702025	178442279	70808342	21	41936										
SRGAP2	23380	broad.mit.edu	37	chr1	206634572	206634572	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	caaggaccccgagcccgcctTccagcgcagcgccagtactg	11	18	0	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:206634572T>C	uc001hdy.2	+	20	3095	c.2762T>C	c.(2761-2763)TTC>TCC	p.F921S	SRGAP2_uc010pru.1_Missense_Mutation_p.F844S	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	1008					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					GAGCCCGCCTTCCAGCGCAGC	0.672													21	15	---	---	---	---	PASS	C	206634572	C	C	206634572	3	2	114	1	0	0	0	0	1	0	0	0	15145	1783	62	5	2845	5	SRGAP2	1	206634572	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	28192293	206634572	42616049	22	41937										
SMYD2	56950	broad.mit.edu	37	chr1	214501018	214501018	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgtcattgtgacctacaaagGgaccctggcagaagtcagag	12	9	2	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:214501018G>T	uc010ptx.1	+	7	689	c.656G>T	c.(655-657)GGG>GTG	p.G219V	SMYD2_uc009xdj.2_Missense_Mutation_p.G127V|SMYD2_uc010ptw.1_RNA|SMYD2_uc009xdl.1_RNA	NM_020197	NP_064582	Q9NRG4	SMYD2_HUMAN	SET and MYND domain containing 2	219	SET.				negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|regulation of DNA damage response, signal transduction by p53 class mediator|transcription, DNA-dependent	cytosol|nucleus	histone methyltransferase activity (H3-K36 specific)|p53 binding|RNA polymerase II core binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0122)|all cancers(67;0.0209)|GBM - Glioblastoma multiforme(131;0.106)|Epithelial(68;0.144)		ACCTACAAAGGGACCCTGGCA	0.488											OREG0004276	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	32	113	---	---	---	---	PASS	T	214501018	T	T	214501018	3	4	114	1	0	0	0	0	1	0	0	0	14822	1232	43	3	682	3	SMYD2	1	214501018	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	7866446	214501018	34749603	23	41938										
HLX	3142	broad.mit.edu	37	chr1	221053501	221053501	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	acccaccccagtggtggcgcCctccgaagtcccggctggct	12	18	0	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:221053501C>T	uc001hmv.3	+	1	759	c.302C>T	c.(301-303)CCC>CTC	p.P101L		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	101	Pro-rich.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)		GTGGTGGCGCCCTCCGAAGTC	0.607													3	12	---	---	---	---	PASS	T	221053501	T	T	221053501	3	4	114	1	0	0	0	0	1	0	0	0	7216	623	22	3	304	3	HLX	1	221053501	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	6552483	221053501	28197120	24	41939										
PARP1	142	broad.mit.edu	37	chr1	226567672	226567672	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ttggagagcgcagcccctgaCttccctcttggggccacaac	11	15	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:226567672C>T	uc001hqd.3	-	10	1665	c.1494G>A	c.(1492-1494)AAG>AAA	p.K498K		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	498	Automodification domain.				cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		CAGCCCCTGACTTCCCTCTTG	0.597								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					52	113	---	---	---	---	PASS	T	226567672	T	T	226567672	2	4	114	1	0	0	0	0	0	0	0	1	11454	564	20	3		3	PARP1	1	226567672	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	5514171	226567672	22682949	25	41940										
URB2	9816	broad.mit.edu	37	chr1	229770893	229770893	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ggtcattcacctggcccttgGccattatctcttgatcctgc	8	14	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:229770893G>A	uc001hts.1	+	4	669	c.533G>A	c.(532-534)GGC>GAC	p.G178D	URB2_uc009xfd.1_Missense_Mutation_p.G178D	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	178						nucleolus				central_nervous_system(2)|ovary(1)	3						CTGGCCCTTGGCCATTATCTC	0.592													27	79	---	---	---	---	PASS	A	229770893	A	A	229770893	3	1	114	1	0	0	0	0	1	0	0	0	17022	1203	42	3	543	3	URB2	1	229770893	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	3203221	229770893	19479728	26	41941										
NID1	4811	broad.mit.edu	37	chr1	236154191	236154191	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcagccagcactcaccgggaCatgaaggaacgcctttgctt	10	13	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:236154191C>A	uc001hxo.2	-	14	3025	c.2923G>T	c.(2923-2925)GTC>TTC	p.V975F	NID1_uc009xgd.2_Missense_Mutation_p.V842F|NID1_uc009xgc.2_Missense_Mutation_p.V61F	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	975					cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	CTCACCGGGACATGAAGGAAC	0.537													24	104	---	---	---	---	PASS	A	236154191	A	A	236154191	3	1	114	1	0	0	0	0	1	0	0	0	10414	478	17	3	848	3	NID1	1	236154191	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	6383298	236154191	13096430	27	41942										
RYR2	6262	broad.mit.edu	37	chr1	237777617	237777617	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cgagtacattgtccccatgaCggaggagacgaagagcatca	12	10	1	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:237777617C>T	uc001hyl.1	+	37	5309	c.5189C>T	c.(5188-5190)ACG>ATG	p.T1730M		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1730	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GTCCCCATGACGGAGGAGACG	0.547													13	50	---	---	---	---	PASS	T	237777617	T	T	237777617	3	4	114	1	0	0	0	0	1	0	0	0	13769	536	19	1	5335	1	RYR2	1	237777617	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	1623426	237777617	11473004	28	41943										
FMN2	56776	broad.mit.edu	37	chr1	240497231	240497231	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tatattgtttcgtattatctCcgaaattttgatgaggtaag	8	4	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:240497231C>T	uc010pyd.1	+	12	4854	c.4629C>T	c.(4627-4629)CTC>CTT	p.L1543L	FMN2_uc010pye.1_Silent_p.L1547L|FMN2_uc010pyf.1_Silent_p.L189L|FMN2_uc010pyg.1_Silent_p.L139L	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1543	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CGTATTATCTCCGAAATTTTG	0.279													15	17	---	---	---	---	PASS	T	240497231	T	T	240497231	2	4	114	1	0	0	0	0	0	0	0	1	5950	842	30	2		2	FMN2	1	240497231	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	2719614	240497231	8753390	29	41944										
OR2C3	81472	broad.mit.edu	37	chr1	247695527	247695527	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agaactggaccacacaccctCcatagcttatggttttctgt	7	12	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:247695527C>A	uc009xgy.2	-	2	649	c.287G>T	c.(286-288)GGA>GTA	p.G96V	C1orf150_uc009xgw.2_Intron|C1orf150_uc001ida.3_Intron|C1orf150_uc001idb.3_Intron|C1orf150_uc009xgx.2_Intron|LOC148824_uc001idd.2_5'Flank	NM_198074	NP_932340	Q8N628	OR2C3_HUMAN	olfactory receptor, family 2, subfamily C,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0242)	OV - Ovarian serous cystadenocarcinoma(106;0.0241)			CACACACCCTCCATAGCTTAT	0.562													30	19	---	---	---	---	PASS	A	247695527	A	A	247695527	3	1	114	1	0	0	0	0	1	0	0	0	10993	855	30	2	679	2	OR2C3	1	247695527	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	7198296	247695527	1555094	30	41945										
OR6F1	343169	broad.mit.edu	37	chr1	247875412	247875412	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gatgatgtacacataggagaCaaaggtgatgaggcatgaac	13	5	0	5			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:247875412C>A	uc001idj.1	-	1	646	c.646G>T	c.(646-648)GTC>TTC	p.V216F		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	216	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			ACATAGGAGACAAAGGTGATG	0.552													84	65	---	---	---	---	PASS	A	247875412	A	A	247875412	3	1	114	1	0	0	0	0	1	0	0	0	11201	478	17	3	284	3	OR6F1	1	247875412	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	179885	247875412	1375209	31	41946										
OR1C1	26188	broad.mit.edu	37	chr1	247921568	247921568	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgagagtcaaagccaatcgtCgcaatgatgagcatgttccc	10	10	1	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:247921568C>T	uc010pza.1	-	1	141	c.141G>A	c.(139-141)GCG>GCA	p.A47A		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	47	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			AGCCAATCGTCGCAATGATGA	0.488													15	29	---	---	---	---	PASS	T	247921568	T	T	247921568	2	4	114	1	0	0	0	0	0	0	0	1	10952	871	31	2		2	OR1C1	1	247921568	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	46156	247921568	1329053	32	41947										
OR2L2	26246	broad.mit.edu	37	chr1	248201674	248201674	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctcatttttctcattttcctAatggctctaattggaaatct	4	9	4	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:248201674A>T	uc001idw.2	+	1	201	c.105A>T	c.(103-105)CTA>CTT	p.L35L	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TCATTTTCCTAATGGCTCTAA	0.373													172	108	---	---	---	---	PASS	T	248201674	T	T	248201674	2	4	114	1	0	0	0	0	0	0	0	1	11007	349	13	5		5	OR2L2	1	248201674	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	280106	248201674	1048947	33	41948										
OR2L3	391192	broad.mit.edu	37	chr1	248224524	248224524	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	atcatttcttctgtgatgtcCcagcaatggtgactctggcc	9	11	4	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr1:248224524C>A	uc001idx.1	+	1	541	c.541C>A	c.(541-543)CCA>ACA	p.P181T	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			CTGTGATGTCCCAGCAATGGT	0.463													102	114	---	---	---	---	PASS	A	248224524	A	A	248224524	3	1	114	1	0	0	0	0	1	0	0	0	11008	623	22	3	543	3	OR2L3	1	248224524	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	22850	248224524	1026097	34	41949										
CAPN13	92291	broad.mit.edu	37	chr2	30998886	30998886	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gggttctgagtcaaggatccCagtgctgccaggaaccagca	13	11	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:30998886C>A	uc002rnn.2	-	4	473	c.297G>T	c.(295-297)CTG>CTT	p.L99L	CAPN13_uc002rnp.1_Silent_p.L99L	NM_144575	NP_653176	Q6MZZ7	CAN13_HUMAN	calpain 13	99	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			large_intestine(1)|ovary(1)	2	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					TCAAGGATCCCAGTGCTGCCA	0.517													38	11	---	---	---	---	PASS	A	30998886	A	A	30998886	2	1	114	1	0	0	0	0	0	0	0	1	2626	581	21	3		3	CAPN13	2	30998886	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08		30998886	212200487	35	41950										
CD207	50489	broad.mit.edu	37	chr2	71060081	71060081	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gtgtgaattcctggacacacAgaactgctcggcactatacc	9	12	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:71060081A>G	uc002shg.2	-	4	714	c.667T>C	c.(667-669)TGT>CGT	p.C223R		NM_015717	NP_056532	Q9UJ71	CLC4K_HUMAN	CD207 antigen, langerin	223	C-type lectin.|Extracellular (Potential).				defense response to virus	endocytic vesicle|integral to membrane	mannose binding			ovary(1)|lung(1)	2						CTGGACACACAGAACTGCTCG	0.507													52	48	---	---	---	---	PASS	G	71060081	G	G	71060081	3	3	114	1	0	0	0	0	1	0	0	0	2983	188	7	5	331	5	CD207	2	71060081	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	40061195	71060081	172139292	36	41951										
DCTN1	1639	broad.mit.edu	37	chr2	74597355	74597355	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gtgctctctgcctggcttagCtcctcctgcagacgctcccg	10	17	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:74597355C>A	uc002skx.2	-	12	1556	c.1245G>T	c.(1243-1245)GAG>GAT	p.E415D	DCTN1_uc002skv.2_Missense_Mutation_p.E281D|DCTN1_uc002sku.2_Missense_Mutation_p.E281D|DCTN1_uc002skw.1_Missense_Mutation_p.E391D|DCTN1_uc010ffd.2_Missense_Mutation_p.E395D|DCTN1_uc002sky.2_Missense_Mutation_p.E378D	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	415	Potential.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						CCTGGCTTAGCTCCTCCTGCA	0.562													52	83	---	---	---	---	PASS	A	74597355	A	A	74597355	3	1	114	1	0	0	0	0	1	0	0	0	4306	796	28	3	2675	3	DCTN1	2	74597355	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	3537274	74597355	168602018	37	41952										
REG3A	5068	broad.mit.edu	37	chr2	79385837	79385837	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tagcagtgggagccataggcCttggagcctttgggacagcg	16	9	0	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:79385837C>A	uc002sod.1	-	2	390	c.135G>T	c.(133-135)AAG>AAT	p.K45N	REG3A_uc002soe.1_Missense_Mutation_p.K45N|REG3A_uc002sof.1_Missense_Mutation_p.K45N	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	45	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						AGCCATAGGCCTTGGAGCCTT	0.547													21	47	---	---	---	---	PASS	A	79385837	A	A	79385837	3	1	114	1	0	0	0	0	1	0	0	0	13212	680	24	3	408	3	REG3A	2	79385837	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	4788482	79385837	163813536	38	41953										
MAP4K4	9448	broad.mit.edu	37	chr2	102460599	102460599	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cctggtgagtctactcttcgCcgagatttcctgagactgca	10	12	2	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:102460599C>T	uc002tbg.2	+	12	1114	c.1059C>T	c.(1057-1059)CGC>CGT	p.R353R	MAP4K4_uc002tbc.2_Silent_p.R353R|MAP4K4_uc002tbd.2_Silent_p.R353R|MAP4K4_uc002tbe.2_Silent_p.R353R|MAP4K4_uc002tbf.2_Silent_p.R353R|MAP4K4_uc010yvy.1_Silent_p.R353R|MAP4K4_uc002tbh.2_Silent_p.R353R|MAP4K4_uc002tbi.2_Silent_p.R206R|MAP4K4_uc010yvz.1_Silent_p.R333R|MAP4K4_uc002tbk.2_5'UTR|MAP4K4_uc002tbj.1_Silent_p.R249R	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	353					intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CTACTCTTCGCCGAGATTTCC	0.512													17	23	---	---	---	---	PASS	T	102460599	T	T	102460599	2	4	114	1	0	0	0	0	0	0	0	1	9262	726	26	3		3	MAP4K4	2	102460599	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	23074762	102460599	140738774	39	41954										
RANBP2	5903	broad.mit.edu	37	chr2	109398838	109398838	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcaaataatgctttagtttgGactgcctcagattatgctgg	9	7	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:109398838G>T	uc002tem.3	+	27	9141	c.9015G>T	c.(9013-9015)TGG>TGT	p.W3005C		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	3005	RanBD1 4.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						CTTTAGTTTGGACTGCCTCAG	0.303													65	112	---	---	---	---	PASS	T	109398838	T	T	109398838	3	4	114	1	0	0	0	0	1	0	0	0	13028	1183	41	2	9121	2	RANBP2	2	109398838	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	6938239	109398838	133800535	40	41955										
SCTR	6344	broad.mit.edu	37	chr2	120221813	120221813	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aggtgcatgtggatgtagttGcgagtgcagtggagcctcct	16	7	0	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:120221813G>A	uc002tma.2	-	6	748	c.522C>T	c.(520-522)CGC>CGT	p.R174R	SCTR_uc002tlz.2_5'UTR	NM_002980	NP_002971	P47872	SCTR_HUMAN	secretin receptor precursor	174	Cytoplasmic (Potential).				digestion|excretion	integral to plasma membrane	secretin receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3					Secretin(DB00021)	GGATGTAGTTGCGAGTGCAGT	0.577													42	45	---	---	---	---	PASS	A	120221813	A	A	120221813	2	1	114	1	0	0	0	0	0	0	0	1	13943	1306	46	3		3	SCTR	2	120221813	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	10822975	120221813	122977560	41	41956										
PTPN4	5775	broad.mit.edu	37	chr2	120723183	120723183	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gtttgtcatgtacgaaacaaGagggctggcaaggaagaacc	13	7	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:120723183G>T	uc002tmf.1	+	25	3291	c.2520G>T	c.(2518-2520)AAG>AAT	p.K840N	PTPN4_uc010flj.1_Missense_Mutation_p.K553N|PTPN4_uc010yyr.1_Missense_Mutation_p.K473N	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	840	Tyrosine-protein phosphatase.					cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	TACGAAACAAGAGGGCTGGCA	0.443													54	111	---	---	---	---	PASS	T	120723183	T	T	120723183	3	4	114	1	0	0	0	0	1	0	0	0	12790	933	33	2	2614	2	PTPN4	2	120723183	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	501370	120723183	122476190	42	41957										
SLC4A10	57282	broad.mit.edu	37	chr2	162762167	162762167	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cccagagaatatgggctgtcAtacctatctttaagagctag	9	9	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:162762167A>C	uc002ubx.3	+	15	1951	c.1767A>C	c.(1765-1767)TCA>TCC	p.S589S	SLC4A10_uc002uby.3_Silent_p.S559S|SLC4A10_uc010zcs.1_Silent_p.S570S	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	589	Extracellular (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						ATGGGCTGTCATACCTATCTT	0.403													92	116	---	---	---	---	PASS	C	162762167	C	C	162762167	2	2	114	1	0	0	0	0	0	0	0	1	14651	204	8	5		5	SLC4A10	2	162762167	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	42038984	162762167	80437206	43	41958										
SCN1A	6323	broad.mit.edu	37	chr2	166870302	166870302	+	Missense_Mutation	SNP	C	A	A													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aaaacaatgaaggtctcaaaCcagttatgttcaactattcg							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:166870302C>A	uc010zcz.1	-	18	3642	c.3624G>T	c.(3622-3624)TGG>TGT	p.W1208C	SCN1A_uc002udo.3_Missense_Mutation_p.W1088C|SCN1A_uc010fpk.2_Missense_Mutation_p.W1060C	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1219	III.|Helical; Name=S1 of repeat III; (By similarity).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AGGTCTCAAACCAGTTATGTT	0.383													50	60	---	---	---	---	PASS	A	166870302	A	A	166870302	3	1	114	1	0	0	0	0	1	0	0	0	13914	508	18	3	2408	3	SCN1A	2	166870302	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	4108135	166870302	76329071	44	41959	785	2								
SCN1A	6323	broad.mit.edu	37	chr2	166870303	166870303	+	Missense_Mutation	SNP	C	A	A													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aaacaatgaaggtctcaaacCagttatgttcaactattcgg							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:166870303C>A	uc010zcz.1	-	18	3641	c.3623G>T	c.(3622-3624)TGG>TTG	p.W1208L	SCN1A_uc002udo.3_Missense_Mutation_p.W1088L|SCN1A_uc010fpk.2_Missense_Mutation_p.W1060L	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1219	III.|Helical; Name=S1 of repeat III; (By similarity).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GGTCTCAAACCAGTTATGTTC	0.388													50	61	---	---	---	---	PASS	A	166870303	A	A	166870303	3	1	114	1	0	0	0	0	1	0	0	0	13914	595	21	3	2409	3	SCN1A	2	166870303	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	1	166870303	76329070	45	41960	785	2								
KIAA1715	80856	broad.mit.edu	37	chr2	176829140	176829140	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	acagctgctccagcagatggCggctcacactcctgtcaatt	9	14	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:176829140C>T	uc002ukc.1	-	8	646	c.453G>A	c.(451-453)CCG>CCA	p.P151P	KIAA1715_uc010zer.1_Silent_p.P151P|KIAA1715_uc010fqw.1_Silent_p.P217P|KIAA1715_uc010zes.1_Silent_p.P153P|KIAA1715_uc002ukd.1_Silent_p.P28P|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	151	Cytoplasmic (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			CAGCAGATGGCGGCTCACACT	0.378													46	86	---	---	---	---	PASS	T	176829140	T	T	176829140	2	4	114	1	0	0	0	0	0	0	0	1	8254	755	27	1		1	KIAA1715	2	176829140	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	9958837	176829140	66370233	46	41961										
TTN	7273	broad.mit.edu	37	chr2	179456980	179456980	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcctaatttcactgacttccAgatctctaggtggcccaggt	8	12	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:179456980A>T	uc010zfg.1	-	251	52171	c.51947T>A	c.(51946-51948)CTG>CAG	p.L17316Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.L11011Q|TTN_uc010zfi.1_Missense_Mutation_p.L10944Q|TTN_uc010zfj.1_Missense_Mutation_p.L10819Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	18243							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)			ACTGACTTCCAGATCTCTAGG	0.323													16	24	---	---	---	---	PASS	T	179456980	T	T	179456980	3	4	114	1	0	0	0	0	1	0	0	0	16732	188	7	5	48572	5	TTN	2	179456980	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	2627840	179456980	63742393	47	41962										
TTN	7273	broad.mit.edu	37	chr2	179612491	179612491	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tttgagaaaaactagtttctAtcatttctccttctaaagtg	5	7	4	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:179612491A>G	uc002unb.2	-	46	14860	c.14636T>C	c.(14635-14637)ATA>ACA	p.I4879T	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	1002							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)			ACTAGTTTCTATCATTTCTCC	0.358													48	44	---	---	---	---	PASS	G	179612491	G	G	179612491	3	3	114	1	0	0	0	0	1	0	0	0	16732	449	16	5	95661	5	TTN	2	179612491	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	155511	179612491	63586882	48	41963										
SSFA2	6744	broad.mit.edu	37	chr2	182780263	182780263	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gaggatttgtttccagcagaGacagtagagctactgaggga	14	6	0	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:182780263G>A	uc002uoi.2	+	11	2218	c.1896G>A	c.(1894-1896)GAG>GAA	p.E632E	SSFA2_uc002uoh.2_Silent_p.E632E|SSFA2_uc002uoj.2_Silent_p.E632E|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Silent_p.E479E|SSFA2_uc002uol.2_Silent_p.E479E|SSFA2_uc002uom.2_Silent_p.E100E	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	632						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			TTCCAGCAGAGACAGTAGAGC	0.413													40	69	---	---	---	---	PASS	A	182780263	A	A	182780263	2	1	114	1	0	0	0	0	0	0	0	1	15182	933	33	2		2	SSFA2	2	182780263	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	3167772	182780263	60419110	49	41964										
COL3A1	1281	broad.mit.edu	37	chr2	189859285	189859285	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agggtgagcctggtaagaatGgtgccaaaggagagcccgga	17	7	0	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:189859285G>T	uc002uqj.1	+	19	1429	c.1312G>T	c.(1312-1314)GGT>TGT	p.G438C		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	438	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	TGGTAAGAATGGTGCCAAAGG	0.393													30	57	---	---	---	---	PASS	T	189859285	T	T	189859285	3	4	114	1	0	0	0	0	1	0	0	0	3688	1348	47	3	1386	3	COL3A1	2	189859285	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	7079022	189859285	53340088	50	41965										
GLS	2744	broad.mit.edu	37	chr2	191792047	191792047	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gttagctgtgctccattgaaGtgacttgtgaatcagccagt	11	8	1	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:191792047G>A	uc002usf.2	+	12	1528	c.1264G>A	c.(1264-1266)GTG>ATG	p.V422M	GLS_uc002use.2_Missense_Mutation_p.V422M|GLS_uc002usg.1_Missense_Mutation_p.V83M|GLS_uc002ush.2_Missense_Mutation_p.V83M|GLS_uc010zgi.1_Translation_Start_Site|GLS_uc010zgj.1_5'Flank	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	422					cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CTCCATTGAAGTGACTTGTGA	0.383													27	39	---	---	---	---	PASS	A	191792047	A	A	191792047	3	1	114	1	0	0	0	0	1	0	0	0	6463	1029	36	3	1310	3	GLS	2	191792047	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	1932762	191792047	51407326	51	41966										
MPP4	58538	broad.mit.edu	37	chr2	202547600	202547600	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ccagtccctcaactgaaactCcattcacttctaccagtttg	4	15	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:202547600C>A	uc002uyk.3	-	8	822	c.614G>T	c.(613-615)GGA>GTA	p.G205V	MPP4_uc010ftj.2_Missense_Mutation_p.G205V|MPP4_uc010zhq.1_Missense_Mutation_p.G205V|MPP4_uc010zhr.1_Missense_Mutation_p.G205V|MPP4_uc010zhs.1_Missense_Mutation_p.G161V|MPP4_uc002uyj.3_Missense_Mutation_p.G161V|MPP4_uc010zht.1_Missense_Mutation_p.G178V|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.G205V|MPP4_uc002uym.1_Missense_Mutation_p.G174V|MPP4_uc002uyn.2_Missense_Mutation_p.G161V	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	205	PDZ.					cytoplasm	protein binding				0						AACTGAAACTCCATTCACTTC	0.383													70	91	---	---	---	---	PASS	A	202547600	A	A	202547600	3	1	114	1	0	0	0	0	1	0	0	0	9736	855	30	2	1359	2	MPP4	2	202547600	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	10755553	202547600	40651773	52	41967										
PARD3B	117583	broad.mit.edu	37	chr2	206165256	206165256	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ttgccctttcttttccagaaTctccaagcaaagattttggt	6	10	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:206165256T>A	uc002var.1	+	17	2395	c.2188T>A	c.(2188-2190)TCT>ACT	p.S730T	PARD3B_uc010fub.1_Missense_Mutation_p.S730T|PARD3B_uc002vao.1_Missense_Mutation_p.S730T|PARD3B_uc002vap.1_Missense_Mutation_p.S668T|PARD3B_uc002vaq.1_Intron	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	730					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		TTTTCCAGAATCTCCAAGCAA	0.458													83	146	---	---	---	---	PASS	A	206165256	A	A	206165256	3	1	114	1	0	0	0	0	1	0	0	0	11444	1435	50	5	2254	5	PARD3B	2	206165256	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	3617656	206165256	37034117	53	41968										
ZNF142	7701	broad.mit.edu	37	chr2	219507362	219507362	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgtctctgagctgaactgggCttcacactgggagcaggcaa	13	10	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:219507362C>T	uc002vin.2	-	8	4313	c.3877G>A	c.(3877-3879)GCC>ACC	p.A1293T	ZNF142_uc002vil.2_Missense_Mutation_p.A1254T|ZNF142_uc010fvt.2_Missense_Mutation_p.A1130T|ZNF142_uc002vim.2_Missense_Mutation_p.A1130T	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	1293	C2H2-type 20.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		CTGAACTGGGCTTCACACTGG	0.592													49	72	---	---	---	---	PASS	T	219507362	T	T	219507362	3	4	114	1	0	0	0	0	1	0	0	0	17728	797	28	3	1198	3	ZNF142	2	219507362	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	13342106	219507362	23692011	54	41969										
ANKMY1	51281	broad.mit.edu	37	chr2	241468618	241468618	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ggcaggtggtcactgttggtCgagtagacatacatttctgg	14	7	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr2:241468618C>A	uc002vyz.1	-	4	751	c.522G>T	c.(520-522)TCG>TCT	p.S174S	ANKMY1_uc002vza.1_Intron|ANKMY1_uc010fzd.1_Silent_p.S263S|ANKMY1_uc002vzb.1_Intron|ANKMY1_uc002vzc.1_Intron|ANKMY1_uc002vzd.1_Intron|ANKMY1_uc010fze.1_Intron|ANKMY1_uc002vze.2_Intron	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	174							zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		CACTGTTGGTCGAGTAGACAT	0.502													45	53	---	---	---	---	PASS	A	241468618	A	A	241468618	2	1	114	1	0	0	0	0	0	0	0	1	634	871	31	2		2	ANKMY1	2	241468618	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	21961256	241468618	1730755	55	41970										
KCNH8	131096	broad.mit.edu	37	chr3	19492675	19492675	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agactttccagatgaactgcGttctgacatcactatgcact	7	11	2	4			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr3:19492675G>C	uc003cbk.1	+	10	1799	c.1604G>C	c.(1603-1605)CGT>CCT	p.R535P	KCNH8_uc011awe.1_3'UTR|KCNH8_uc010hex.1_5'UTR|KCNH8_uc011awf.1_3'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	535	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						GATGAACTGCGTTCTGACATC	0.438													135	29	---	---	---	---	PASS	C	19492675	C	C	19492675	3	2	114	1	0	0	0	0	1	0	0	0	8038	1145	40	4	1642	4	KCNH8	3	19492675	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08		19492675	178529755	56	41971										
CLASP2	23122	broad.mit.edu	37	chr3	33626408	33626418	+	Splice_Site	DEL	ACCAGCTGAAC	-	-													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cctggagacccagaccggctAccagctgaacaccaaacaca							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr3:33626408_33626418delACCAGCTGAAC	uc003cfu.2	-	22	2423	c.2069_splice	c.e22-1	p.P690_splice	CLASP2_uc003cft.2_Splice_Site|CLASP2_uc010hgb.2_Splice_Site|CLASP2_uc011axt.1_Splice_Site_p.A283_splice	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2											ovary(3)|central_nervous_system(1)	4						CAGACCGGCTACCAGCTGAACACCAAACACA	0.422													23	25	---	---	---	---		-	33626418	-	-	33626408	8	5	114	1	0	1	0	1	0	0	1	0	3455	378	14	0	2515	0	CLASP2	3	33626408	Splice_Site	DEL	ACCAGCTGAAC	TCGA-56-1622-01A-01D-1521-08	14133733	33626408	164396022	57	41972										
SCN10A	6336	broad.mit.edu	37	chr3	38805051	38805051	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	actctgaatgtccgcaggccTgagatcccacggagatctat	10	12	2	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr3:38805051T>G	uc003ciq.2	-	5	636	c.636A>C	c.(634-636)TCA>TCC	p.S212S		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	212	I.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	TCCGCAGGCCTGAGATCCCAC	0.428													70	12	---	---	---	---	PASS	G	38805051	G	G	38805051	2	3	114	1	0	0	0	0	0	0	0	1	13912	1567	55	5		5	SCN10A	3	38805051	Silent	SNP	T	TCGA-56-1622-01A-01D-1521-08	5178643	38805051	159217379	58	41973										
DHFRL1	200895	broad.mit.edu	37	chr3	93779797	93779797	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gaaaacaccttcatattaatCatccttctcacatacttcaa	1	12	4	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr3:93779797C>T	uc003dri.2	-	2	725	c.559G>A	c.(559-561)GAT>AAT	p.D187N	DHFRL1_uc003drj.2_Missense_Mutation_p.D187N|NSUN3_uc003drk.2_5'Flank|NSUN3_uc003drl.1_5'Flank	NM_176815	NP_789785	Q86XF0	DYRL1_HUMAN	dihydrofolate reductase-like 1	187					glycine biosynthetic process|nucleotide biosynthetic process|one-carbon metabolic process		dihydrofolate reductase activity|NADP binding				0						TCATATTAATCATCCTTCTCA	0.383													52	12	---	---	---	---	PASS	T	93779797	T	T	93779797	3	4	114	1	0	0	0	0	1	0	0	0	4482	826	29	2	8	2	DHFRL1	3	93779797	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	54974746	93779797	104242633	59	41974										
ZNF80	7634	broad.mit.edu	37	chr3	113955305	113955305	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cagtgtgggtcatactatgtCggaagaaaacagagcggtag	14	6	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr3:113955305C>T	uc010hqo.2	-	1	1121	c.617G>A	c.(616-618)CGA>CAA	p.R206Q	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	206	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)				CATACTATGTCGGAAGAAAAC	0.493													59	14	---	---	---	---	PASS	T	113955305	T	T	113955305	3	4	114	1	0	0	0	0	1	0	0	0	18165	884	31	2	208	2	ZNF80	3	113955305	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	20175508	113955305	84067125	60	41975										
CCDC48	79825	broad.mit.edu	37	chr3	128757707	128757707	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gagccctggggaagattttgCtgagcacgctggacgctttc	14	10	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr3:128757707C>T	uc011bkt.1	+	7	1624	c.1624C>T	c.(1624-1626)CTG>TTG	p.L542L		NM_024768	NP_079044	Q9HA90	CCD48_HUMAN	coiled-coil domain containing 48	542											0						GAAGATTTTGCTGAGCACGCT	0.547													94	13	---	---	---	---	PASS	T	128757707	T	T	128757707	2	4	114	1	0	0	0	0	0	0	0	1	2819	796	28	3		3	CCDC48	3	128757707	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	14802402	128757707	69264723	61	41976										
FOXL2	668	broad.mit.edu	37	chr3	138665365	138665378	+	Frame_Shift_Del	DEL	ATCGCCATGGCGAT	-	-													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcttctccgcgctctcgcggAtcgccatggcgatgagcgcc							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr3:138665365_138665378delATCGCCATGGCGAT	uc003esw.2	-	1	605_618	c.187_200delATCGCCATGGCGAT	c.(187-201)ATCGCCATGGCGATCfs	p.I63fs	uc003esv.1_5'Flank|C3orf72_uc003esx.1_5'Flank|C3orf72_uc011bmr.1_5'Flank	NM_023067	NP_075555	P58012	FOXL2_HUMAN	forkhead box L2	63_67	Fork-head.				convergent extension|DNA fragmentation involved in apoptotic nuclear change|embryonic eye morphogenesis|extraocular skeletal muscle development|female somatic sex determination|induction of apoptosis|menstruation|negative regulation of transcription, DNA-dependent|ovarian follicle development|pattern specification process|positive regulation of caspase activity|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	caspase regulator activity|DNA bending activity|double-stranded DNA binding|estrogen receptor binding|promoter binding|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|ubiquitin conjugating enzyme binding			ovary(266)|large_intestine(1)|skin(1)	268						GCTCTCGCGGATCGCCATGGCGATGAGCGCCACG	0.659			Mis		granulosa-cell tumour of the ovary		Blepharophimosis|ptosis and epicanthus inversus Types I|II; Premature ovarian failure type III						18	43	---	---	---	---		-	138665378	-	-	138665365	7	5	114	1	0	1	0	1	0	0	0	0	6017	333	12	0	934	0	FOXL2	3	138665365	Frame_Shift_Del	DEL	ATCGCCATGGCGAT	TCGA-56-1622-01A-01D-1521-08	9907658	138665365	59357065	62	41977										
SLC9A9	285195	broad.mit.edu	37	chr3	143551032	143551032	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcaatatcagttggtgctgtAgcatatcgtaaaattagtcc	8	7	2	0	rs112237207		TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr3:143551032A>G	uc003evn.2	-	2	389	c.207T>C	c.(205-207)GCT>GCC	p.A69A	SLC9A9_uc011bnk.1_Intron	NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	69					regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						TTGGTGCTGTAGCATATCGTA	0.348													20	41	---	---	---	---	PASS	G	143551032	G	G	143551032	2	3	114	1	0	0	0	0	0	0	0	1	14721	407	15	5		5	SLC9A9	3	143551032	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	4885667	143551032	54471398	63	41978										
MME	4311	broad.mit.edu	37	chr3	154802012	154802012	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tatcaacactccaaagccaaAgaagaaacagcgatggactc	7	11	1	2	rs148334392		TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr3:154802012A>T	uc010hvr.1	+	2	267	c.56A>T	c.(55-57)AAG>ATG	p.K19M	MME_uc003fab.1_Missense_Mutation_p.K19M|MME_uc003fac.1_Missense_Mutation_p.K19M|MME_uc003fad.1_Missense_Mutation_p.K19M|MME_uc003fae.1_Missense_Mutation_p.K19M	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	19	Cytoplasmic (Potential).|Stop-transfer sequence (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	CCAAAGCCAAAGAAGAAACAG	0.418													140	27	---	---	---	---	PASS	T	154802012	T	T	154802012	3	4	114	1	0	0	0	0	1	0	0	0	9645	72	3	5	58	5	MME	3	154802012	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	11250980	154802012	43220418	64	41979										
MAP3K13	9175	broad.mit.edu	37	chr3	185155322	185155322	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ggtcttcttgggcaagttccGggcggaagaggtggccatca	16	9	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr3:185155322G>A	uc010hyf.2	+	4	829	c.563G>A	c.(562-564)CGG>CAG	p.R188Q	MAP3K13_uc011brt.1_Intron|MAP3K13_uc003fph.3_5'UTR|MAP3K13_uc011bru.1_Missense_Mutation_p.R44Q|MAP3K13_uc003fpi.2_Missense_Mutation_p.R188Q|MAP3K13_uc010hyg.2_Intron	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	188	Protein kinase.				activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			GGCAAGTTCCGGGCGGAAGAG	0.507													40	527	---	---	---	---	PASS	A	185155322	A	A	185155322	3	1	114	1	0	0	0	0	1	0	0	0	9247	1116	39	1	569	1	MAP3K13	3	185155322	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	30353310	185155322	12867108	65	41980										
MAP3K13	9175	broad.mit.edu	37	chr3	185184616	185184616	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tttgcctttattctgcaggcGtgagcaagcagtggaaaaga	12	7	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr3:185184616G>A	uc010hyf.2	+	11	1774	c.1508G>A	c.(1507-1509)CGT>CAT	p.R503H	MAP3K13_uc011brt.1_Missense_Mutation_p.R296H|MAP3K13_uc011bru.1_Missense_Mutation_p.R359H|MAP3K13_uc003fpi.2_Missense_Mutation_p.R503H|MAP3K13_uc010hyg.2_Missense_Mutation_p.R193H	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	503	Leucine-zipper 2.				activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			TTCTGCAGGCGTGAGCAAGCA	0.458													30	395	---	---	---	---	PASS	A	185184616	A	A	185184616	3	1	114	1	0	0	0	0	1	0	0	0	9247	1145	40	1	1542	1	MAP3K13	3	185184616	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	29294	185184616	12837814	66	41981										
ZNF721	170960	broad.mit.edu	37	chr4	435561	435561	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agactgtctaaaggttttgcCacagtctccacacgtgtagg	10	10	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr4:435561C>T	uc003gag.2	-	3	3386	c.2695G>A	c.(2695-2697)GGC>AGC	p.G899S	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.G931S|ZNF721_uc010ibe.2_Missense_Mutation_p.G887S	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	899						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						AAGGTTTTGCCACAGTCTCCA	0.383													6	25	---	---	---	---	PASS	T	435561	T	T	435561	3	4	114	1	0	0	0	0	1	0	0	0	18119	594	21	3	80	3	ZNF721	4	435561	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08		435561	190718715	67	41982										
LDB2	9079	broad.mit.edu	37	chr4	16504484	16504484	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	catcagagttggctctcctaCcaccatcacatcctgtgaac	6	15	3	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr4:16504484C>A	uc003goz.2	-	8	1220	c.904G>T	c.(904-906)GTA>TTA	p.V302L	LDB2_uc003gpa.2_3'UTR|LDB2_uc003gpb.2_Missense_Mutation_p.V300L|LDB2_uc011bxh.1_Missense_Mutation_p.V274L|LDB2_uc010iee.2_3'UTR|LDB2_uc003goy.2_Missense_Mutation_p.V177L|LDB2_uc011bxi.1_3'UTR	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	302	LIM-binding domain (LID) (By similarity).						LIM domain binding|transcription cofactor activity				0						GGCTCTCCTACCACCATCACA	0.488													13	116	---	---	---	---	PASS	A	16504484	A	A	16504484	3	1	114	1	0	0	0	0	1	0	0	0	8696	507	18	3	221	3	LDB2	4	16504484	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	16068923	16504484	174649792	68	41983										
KCNIP4	80333	broad.mit.edu	37	chr4	20852181	20852181	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cttacattcttaaatcctctGtaaaggatctgaagctcttt	5	9	4	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr4:20852181G>C	uc003gqe.2	-	2	306	c.222C>G	c.(220-222)TAC>TAG	p.Y74*	KCNIP4_uc003gqf.1_Nonsense_Mutation_p.Y70*|KCNIP4_uc003gqg.1_Nonsense_Mutation_p.Y29*|KCNIP4_uc003gqh.1_Nonsense_Mutation_p.Y66*|KCNIP4_uc003gqi.1_Nonsense_Mutation_p.Y29*|KCNIP4_uc010iel.2_Nonsense_Mutation_p.Y71*|KCNIP4_uc003gqd.3_Nonsense_Mutation_p.Y54*	NM_147182	NP_671711	Q6PIL6	KCIP4_HUMAN	Kv channel interacting protein 4 isoform 3	91	EF-hand 1; degenerate.					plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)				TAAATCCTCTGTAAAGGATCT	0.438													121	62	---	---	---	---	PASS	C	20852181	C	C	20852181	4	2	114	1	0	0	0	0	0	1	0	0	8042	1372	48	4	507	4	KCNIP4	4	20852181	Nonsense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	4347697	20852181	170302095	69	41984										
GPR125	166647	broad.mit.edu	37	chr4	22389781	22389781	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cctttacttctgtttttatgGtggcggcttgagtgcacatt	10	8	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr4:22389781G>A	uc003gqm.1	-	19	3778	c.3513C>T	c.(3511-3513)CAC>CAT	p.H1171H	GPR125_uc010ieo.1_Silent_p.H1027H|GPR125_uc003gql.1_Silent_p.H298H	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	1171	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				TGTTTTTATGGTGGCGGCTTG	0.463													15	65	---	---	---	---	PASS	A	22389781	A	A	22389781	2	1	114	1	0	0	0	0	0	0	0	1	6639	1252	44	3		3	GPR125	4	22389781	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	1537600	22389781	168764495	70	41985										
CORIN	10699	broad.mit.edu	37	chr4	47605631	47605631	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gtctgcatgaacactgatggAtggtctagattgttgatgcc	12	7	2	4			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr4:47605631A>G	uc003gxm.2	-	20	2688	c.2595T>C	c.(2593-2595)CAT>CAC	p.H865H	CORIN_uc011bzf.1_Silent_p.H726H|CORIN_uc011bzg.1_Silent_p.H798H	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	865	Extracellular (Potential).|Peptidase S1.				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						ACACTGATGGATGGTCTAGAT	0.443													43	43	---	---	---	---	PASS	G	47605631	G	G	47605631	2	3	114	1	0	0	0	0	0	0	0	1	3752	330	12	5		5	CORIN	4	47605631	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	25215850	47605631	143548645	71	41986										
CNOT6L	246175	broad.mit.edu	37	chr4	78695839	78695839	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gctgtcaagtgtgtcaatgaCcaaagtgatgtacttaggct	11	7	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr4:78695839C>A	uc011ccd.1	-	3	290	c.159G>T	c.(157-159)TGG>TGT	p.W53C	CNOT6L_uc003hks.2_Missense_Mutation_p.W53C|CNOT6L_uc011cce.1_Missense_Mutation_p.W53C	NM_144571	NP_653172	Q96LI5	CNO6L_HUMAN	CCR4-NOT transcription complex, subunit 6-like	53					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	exonuclease activity|protein binding			large_intestine(1)	1						GTGTCAATGACCAAAGTGATG	0.428													25	22	---	---	---	---	PASS	A	78695839	A	A	78695839	3	1	114	1	0	0	0	0	1	0	0	0	3623	508	18	3	1548	3	CNOT6L	4	78695839	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	31090208	78695839	112458437	72	41987										
PPA2	27068	broad.mit.edu	37	chr4	106359127	106359127	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctttgagcctatttcgcaaaCatcaataggatcattatctc	5	10	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr4:106359127C>T	uc003hxl.2	-	6	528	c.508G>A	c.(508-510)GTT>ATT	p.V170I	PPA2_uc003hxm.2_Missense_Mutation_p.V152I|PPA2_uc003hxn.2_Intron|PPA2_uc003hxo.2_Intron|PPA2_uc003hxp.2_Intron|PPA2_uc003hxq.2_Missense_Mutation_p.V77I|PPA2_uc003hxr.2_Missense_Mutation_p.V77I|PPA2_uc011cfa.1_Missense_Mutation_p.V77I	NM_176869	NP_789845	Q9H2U2	IPYR2_HUMAN	inorganic pyrophosphatase 2 isoform 1 precursor	170					diphosphate metabolic process|tRNA aminoacylation for protein translation	mitochondrial matrix	inorganic diphosphatase activity|magnesium ion binding			pancreas(1)	1		Myeloproliferative disorder(5;0.0255)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.03e-07)		ATTTCGCAAACATCAATAGGA	0.313													29	9	---	---	---	---	PASS	T	106359127	T	T	106359127	3	4	114	1	0	0	0	0	1	0	0	0	12287	478	17	3	524	3	PPA2	4	106359127	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	27663288	106359127	84795149	73	41988										
PDE5A	8654	broad.mit.edu	37	chr4	120474846	120474846	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgggatattaagtggttccaTagtatttttgacatactgag	10	4	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr4:120474846T>C	uc003idh.2	-	8	1410	c.1255A>G	c.(1255-1257)ATG>GTG	p.M419V	PDE5A_uc003idf.2_Missense_Mutation_p.M377V|PDE5A_uc003idg.2_Missense_Mutation_p.M367V	NM_001083	NP_001074	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 1	419	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)	AGTGGTTCCATAGTATTTTTG	0.353													63	94	---	---	---	---	PASS	C	120474846	C	C	120474846	3	2	114	1	0	0	0	0	1	0	0	0	11644	1406	49	5	1428	5	PDE5A	4	120474846	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	14115719	120474846	70679430	74	41989										
LRBA	987	broad.mit.edu	37	chr4	151509200	151509200	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aaaccccttcatcttctcacCttggggtcgatttttttgaa	6	11	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr4:151509200C>A	uc010ipj.2	-	41	6837	c.6363G>T	c.(6361-6363)AAG>AAT	p.K2121N	LRBA_uc003ilt.3_Missense_Mutation_p.K769N|LRBA_uc003ilu.3_Missense_Mutation_p.K2110N	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2121						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					ATCTTCTCACCTTGGGGTCGA	0.438													154	261	---	---	---	---	PASS	A	151509200	A	A	151509200	3	1	114	1	0	0	0	0	1	0	0	0	8931	695	24	3	2300	3	LRBA	4	151509200	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	31034354	151509200	39645076	75	41990										
DCHS2	54798	broad.mit.edu	37	chr4	155253927	155253927	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ttcatagtcaaactgtcgccGcaaataaatccagcccgtgt	7	12	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr4:155253927G>A	uc003inw.2	-	9	1936	c.1936C>T	c.(1936-1938)CGG>TGG	p.R646W	DCHS2_uc003inx.2_Missense_Mutation_p.R1145W	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	646	Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AACTGTCGCCGCAAATAAATC	0.502													4	93	---	---	---	---	PASS	A	155253927	A	A	155253927	3	1	114	1	0	0	0	0	1	0	0	0	4288	1086	38	1	6978	1	DCHS2	4	155253927	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	3744727	155253927	35900349	76	41991										
ANP32C	23520	broad.mit.edu	37	chr4	165118456	165118456	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctgtcgagatatgtgagttgCaggagaagcttgaacacgtt	13	6	0	4			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr4:165118456C>A	uc011cjk.1	-	1	408	c.408G>T	c.(406-408)CTG>CTT	p.L136L	MARCH1_uc003iqs.1_Intron	NM_012403	NP_036535	O43423	AN32C_HUMAN	acidic nuclear phosphoprotein 32C	136											0	all_hematologic(180;0.203)	Prostate(90;0.0138)|Melanoma(52;0.18)|all_neural(102;0.223)		KIRC - Kidney renal clear cell carcinoma(143;0.242)		ATGTGAGTTGCAGGAGAAGCT	0.502													57	21	---	---	---	---	PASS	A	165118456	A	A	165118456	2	1	114	1	0	0	0	0	0	0	0	1	707	697	25	3		3	ANP32C	4	165118456	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	9864529	165118456	26035820	77	41992										
CMBL	134147	broad.mit.edu	37	chr5	10290792	10290792	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgacataagccttgatgtgcTcgacttgaacttcacggcct	9	11	1	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:10290792T>C	uc003jes.2	-	2	534	c.83A>G	c.(82-84)GAG>GGG	p.E28G		NM_138809	NP_620164	Q96DG6	CMBL_HUMAN	carboxymethylenebutenolidase	28						cytosol	hydrolase activity|protein binding			skin(1)	1						CTTGATGTGCTCGACTTGAAC	0.473													156	368	---	---	---	---	PASS	C	10290792	C	C	10290792	3	2	114	1	0	0	0	0	1	0	0	0	3576	1551	54	5	674	5	CMBL	5	10290792	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08		10290792	170624468	78	41993										
ROPN1L	83853	broad.mit.edu	37	chr5	10450186	10450186	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgtgaaaacaaaatcaagtgGataaactttttagcgcttgg	9	5	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:10450186G>C	uc003jex.3	+	3	649	c.378G>C	c.(376-378)TGG>TGC	p.W126C		NM_031916	NP_114122	Q96C74	ROP1L_HUMAN	ropporin 1-like	126					ciliary or flagellar motility|signal transduction	cytoplasm|motile cilium	cAMP-dependent protein kinase regulator activity|protein binding			ovary(1)	1						AAATCAAGTGGATAAACTTTT	0.388													80	191	---	---	---	---	PASS	C	10450186	C	C	10450186	3	2	114	1	0	0	0	0	1	0	0	0	13525	1183	41	2	388	2	ROPN1L	5	10450186	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	159394	10450186	170465074	79	41994										
CDH18	1016	broad.mit.edu	37	chr5	19483655	19483655	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gccttgtcagaatgctggctGtgttatctatgatagacata	10	7	2	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:19483655G>C	uc003jgc.2	-	11	2014	c.1637C>G	c.(1636-1638)ACA>AGA	p.T546R	CDH18_uc003jgd.2_Missense_Mutation_p.T546R|CDH18_uc011cnm.1_Intron	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	546	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					AATGCTGGCTGTGTTATCTAT	0.408													38	79	---	---	---	---	PASS	C	19483655	C	C	19483655	3	2	114	1	0	0	0	0	1	0	0	0	3103	1377	48	4	743	4	CDH18	5	19483655	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	9033469	19483655	161431605	80	41995										
CDH10	1008	broad.mit.edu	37	chr5	24535924	24535924	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gtagctgtgacttgcaccacAgaagtacctgaagtatccaa	9	10	0	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:24535924A>G	uc003jgr.1	-	4	866	c.534T>C	c.(532-534)TCT>TCC	p.S178S	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	178	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CTTGCACCACAGAAGTACCTG	0.458										HNSCC(23;0.051)			37	55	---	---	---	---	PASS	G	24535924	G	G	24535924	2	3	114	1	0	0	0	0	0	0	0	1	3096	175	7	5		5	CDH10	5	24535924	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	5052269	24535924	156379336	81	41996										
CAPSL	133690	broad.mit.edu	37	chr5	35921087	35921087	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	acttgtagctgggtcctaccTgccaagtcctttgatcccag	9	13	0	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:35921087T>C	uc003jjt.1	-	2	231	c.136A>G	c.(136-138)AGA>GGA	p.R46G	CAPSL_uc003jju.1_Missense_Mutation_p.R46G	NM_001042625	NP_001036090	Q8WWF8	CAPSL_HUMAN	calcyphosine-like	46	EF-hand 1.					cytoplasm	calcium ion binding			skin(1)	1	all_lung(31;0.000268)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.167)|Colorectal(62;0.202)			GGGTCCTACCTGCCAAGTCCT	0.433													48	84	---	---	---	---	PASS	C	35921087	C	C	35921087	3	2	114	1	0	0	0	0	1	0	0	0	2639	1594	55	5	506	5	CAPSL	5	35921087	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	11385163	35921087	144994173	82	41997										
LMBRD2	92255	broad.mit.edu	37	chr5	36114583	36114583	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	taggataatatatatagaatCcatctgcaataaaggataaa	6	4	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:36114583C>G	uc003jkb.1	-	13	1998	c.1583G>C	c.(1582-1584)GGA>GCA	p.G528A		NM_001007527	NP_001007528	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	528	Helical; (Potential).					integral to membrane					0	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TATATAGAATCCATCTGCAAT	0.303													66	95	---	---	---	---	PASS	G	36114583	G	G	36114583	3	3	114	1	0	0	0	0	1	0	0	0	8843	855	30	2	528	2	LMBRD2	5	36114583	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	193496	36114583	144800677	83	41998										
HEATR7B2	133558	broad.mit.edu	37	chr5	41052595	41052595	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgttcaacgttgcaaactggGagaagacataatcaatcaat	8	7	3	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:41052595G>T	uc003jmj.3	-	12	1692	c.1202C>A	c.(1201-1203)TCC>TAC	p.S401Y	HEATR7B2_uc003jmi.3_Intron	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	401							binding			ovary(6)|central_nervous_system(2)	8						TGCAAACTGGGAGAAGACATA	0.398													52	70	---	---	---	---	PASS	T	41052595	T	T	41052595	3	4	114	1	0	0	0	0	1	0	0	0	7035	1174	41	2	3679	2	HEATR7B2	5	41052595	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	4938012	41052595	139862665	84	41999										
IQGAP2	10788	broad.mit.edu	37	chr5	75950761	75950761	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgtcttaatcttttgcagaaTaatgaaattgtgaaaataca	6	4	2	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:75950761T>C	uc003kek.2	+	20	2475	c.2253T>C	c.(2251-2253)AAT>AAC	p.N751N	IQGAP2_uc010izv.2_Silent_p.N304N|IQGAP2_uc011csv.1_Silent_p.N247N|IQGAP2_uc003kel.2_Silent_p.N247N	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	751	IQ 3.				small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		TTTTGCAGAATAATGAAATTG	0.358													3	66	---	---	---	---	PASS	C	75950761	C	C	75950761	2	2	114	1	0	0	0	0	0	0	0	1	7815	1403	49	5		5	IQGAP2	5	75950761	Silent	SNP	T	TCGA-56-1622-01A-01D-1521-08	34898166	75950761	104964499	85	42000										
KLHL3	26249	broad.mit.edu	37	chr5	136961565	136961565	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ccctccaaccacatacaggaGcccatttactgcacagaccc	5	18	0	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:136961565G>A	uc010jek.2	-	14	2056	c.1612C>T	c.(1612-1614)CTC>TTC	p.L538F	KLHL3_uc011cyc.1_Missense_Mutation_p.L273F|KLHL3_uc003lbr.3_Missense_Mutation_p.L456F|KLHL3_uc011cyd.1_RNA	NM_017415	NP_059111	Q9UH77	KLHL3_HUMAN	kelch-like 3	538						cytoplasm|cytoskeleton	actin binding|structural molecule activity				0		all_hematologic(541;3.67e-07)|Breast(839;7.61e-05)|Prostate(281;0.000825)|Ovarian(839;0.0481)|all_lung(232;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	GBM - Glioblastoma multiforme(465;0.0223)		ACATACAGGAGCCCATTTACT	0.483													46	17	---	---	---	---	PASS	A	136961565	A	A	136961565	3	1	114	1	0	0	0	0	1	0	0	0	8383	971	34	3	159	3	KLHL3	5	136961565	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	61010804	136961565	43953695	86	42001										
KDM3B	51780	broad.mit.edu	37	chr5	137708464	137708464	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctggaagggtctcttgtatgGgcgccccgtgaggacccagt	15	11	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:137708464G>T	uc003lcy.1	+	2	494	c.294G>T	c.(292-294)TGG>TGT	p.W98C	KDM3B_uc010jew.1_5'UTR	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	98					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						CTCTTGTATGGGCGCCCCGTG	0.517													5	75	---	---	---	---	PASS	T	137708464	T	T	137708464	3	4	114	1	0	0	0	0	1	0	0	0	8127	1241	43	3	300	3	KDM3B	5	137708464	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	746899	137708464	43206796	87	42002										
PCDHB2	56133	broad.mit.edu	37	chr5	140475752	140475752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcacccaaacctcctacaccCtgttcgtccgcgagaacaac	5	18	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:140475752C>A	uc003lil.2	+	1	1516	c.1378C>A	c.(1378-1380)CTG>ATG	p.L460M	PCDHB2_uc003lim.1_Missense_Mutation_p.L121M	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	460	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTCCTACACCCTGTTCGTCCG	0.622													38	129	---	---	---	---	PASS	A	140475752	A	A	140475752	3	1	114	1	0	0	0	0	1	0	0	0	11542	680	24	3	1380	3	PCDHB2	5	140475752	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	2767288	140475752	40439508	88	42003										
PCDHB10	56126	broad.mit.edu	37	chr5	140573497	140573497	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcacccaaacctcctacaccCtgttcgtccgcgagaacaac	5	18	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:140573497C>A	uc003lix.2	+	1	1546	c.1372C>A	c.(1372-1374)CTG>ATG	p.L458M		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	458	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTCCTACACCCTGTTCGTCCG	0.617													47	11	---	---	---	---	PASS	A	140573497	A	A	140573497	3	1	114	1	0	0	0	0	1	0	0	0	11535	680	24	3	1374	3	PCDHB10	5	140573497	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	97745	140573497	40341763	89	42004										
TIMD4	91937	broad.mit.edu	37	chr5	156378594	156378594	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tggcttcctccggaagggtgCttggggttagtgaaaggcac	16	8	0	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr5:156378594C>T	uc003lwh.2	-	3	665	c.608G>A	c.(607-609)AGC>AAC	p.S203N	TIMD4_uc010jii.2_Missense_Mutation_p.S203N	NM_138379	NP_612388	Q96H15	TIMD4_HUMAN	T-cell immunoglobulin and mucin domain	203	Extracellular (Potential).|Thr-rich.					integral to membrane				ovary(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CGGAAGGGTGCTTGGGGTTAG	0.537													72	15	---	---	---	---	PASS	T	156378594	T	T	156378594	3	4	114	1	0	0	0	0	1	0	0	0	15900	797	28	3	556	3	TIMD4	5	156378594	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	15805097	156378594	24536666	90	42005										
HIST1H1C	3006	broad.mit.edu	37	chr6	26056542	26056542	+	Missense_Mutation	SNP	G	A	A													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ggtgatgagctctgacaccgGgggaccagacgccttacgag							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:26056542G>A	uc003nfw.2	-	1	158	c.115C>T	c.(115-117)CCG>TCG	p.P39S		NM_005319	NP_005310	P16403	H12_HUMAN	histone cluster 1, H1c	39	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)|skin(2)	5						TCTGACACCGGGGGACCAGAC	0.627													22	86	---	---	---	---	PASS	A	26056542	A	A	26056542	3	1	114	1	0	0	0	0	1	0	0	0	7124	1232	43	3	530	3	HIST1H1C	6	26056542	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08		26056542	145058525	91	42006	786	2								
HIST1H1C	3006	broad.mit.edu	37	chr6	26056543	26056543	+	Silent	SNP	G	A	A													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gtgatgagctctgacaccggGggaccagacgccttacgagg							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:26056543G>A	uc003nfw.2	-	1	157	c.114C>T	c.(112-114)CCC>CCT	p.P38P		NM_005319	NP_005310	P16403	H12_HUMAN	histone cluster 1, H1c	38	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)|skin(2)	5						CTGACACCGGGGGACCAGACG	0.632													22	85	---	---	---	---	PASS	A	26056543	A	A	26056543	2	1	114	1	0	0	0	0	0	0	0	1	7124	1219	43	3		3	HIST1H1C	6	26056543	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	1	26056543	145058524	92	42007	786	2								
BTN3A3	10384	broad.mit.edu	37	chr6	26446185	26446185	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agaaattccctcctcggcctGgaaaagacagccagcatatc	8	13	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:26446185G>T	uc003nhz.2	+	5	867	c.687G>T	c.(685-687)CTG>CTT	p.L229L	BTN3A3_uc003nia.2_Silent_p.L187L|BTN3A3_uc011dkn.1_Silent_p.L187L	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	229	Extracellular (Potential).|Ig-like V-type 2.					integral to membrane					0						TCCTCGGCCTGGAAAAGACAG	0.547													95	85	---	---	---	---	PASS	T	26446185	T	T	26446185	2	4	114	1	0	0	0	0	0	0	0	1	1564	1335	47	3		3	BTN3A3	6	26446185	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	389642	26446185	144668882	93	42008										
HIST1H1B	3009	broad.mit.edu	37	chr6	27835194	27835194	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tctgagactgggggccccgtCgctttgcgcttagcagcgcc	14	14	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:27835194C>A	uc003njx.2	-	1	166	c.114G>T	c.(112-114)GCG>GCT	p.A38A		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	38					nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						GGGGCCCCGTCGCTTTGCGCT	0.627													85	63	---	---	---	---	PASS	A	27835194	A	A	27835194	2	1	114	1	0	0	0	0	0	0	0	1	7123	871	31	2		2	HIST1H1B	6	27835194	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	1389009	27835194	143279873	94	42009										
ZFP57	346171	broad.mit.edu	37	chr6	29640508	29640508	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aggtccttgcctttatagccCctccagtgatccataaggcc	8	14	0	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:29640508C>A	uc011dlw.1	-	4	1531	c.1380G>T	c.(1378-1380)AGG>AGT	p.R460S	ZFP57_uc003nnl.3_Missense_Mutation_p.R440S	NM_001109809	NP_001103279	Q9NU63	ZFP57_HUMAN	zinc finger protein 57 homolog	376	C2H2-type 7; degenerate.				DNA methylation involved in embryo development|regulation of gene expression by genetic imprinting|transcription, DNA-dependent		DNA binding|zinc ion binding			ovary(3)|skin(2)	5						CTTTATAGCCCCTCCAGTGAT	0.557													42	82	---	---	---	---	PASS	A	29640508	A	A	29640508	3	1	114	1	0	0	0	0	1	0	0	0	17648	622	22	3	234	3	ZFP57	6	29640508	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	1805314	29640508	141474559	95	42010										
C6orf136	221545	broad.mit.edu	37	chr6	30619233	30619233	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tctacaagcgtgacaaagacGagcattaccggtaagagaga	11	8	1	4			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:30619233G>A	uc003nqw.3	+	4	947	c.754G>A	c.(754-756)GAG>AAG	p.E252K	C6orf136_uc003nqx.3_Missense_Mutation_p.E433K|C6orf136_uc011dmn.1_Missense_Mutation_p.E118K	NM_001109938	NP_001103408	Q5SQH8	CF136_HUMAN	hypothetical protein LOC221545 isoform 1	252											0						TGACAAAGACGAGCATTACCG	0.408													188	172	---	---	---	---	PASS	A	30619233	A	A	30619233	3	1	114	1	0	0	0	0	1	0	0	0	2331	1059	37	2	1311	2	C6orf136	6	30619233	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	978725	30619233	140495834	96	42011										
BTNL2	56244	broad.mit.edu	37	chr6	32372966	32372966	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	taccacctcacctccacgtgCattgtggtcctcttggggag	10	14	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:32372966C>T	uc003obg.1	-	2	177	c.177G>A	c.(175-177)ATG>ATA	p.M59I	BTNL2_uc010jty.1_5'UTR|BTNL2_uc010jtz.1_RNA|BTNL2_uc010jua.1_Intron	NM_019602	NP_062548	Q9UIR0	BTNL2_HUMAN	butyrophilin-like 2	59	Ig-like V-type 1.|Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						CCTCCACGTGCATTGTGGTCC	0.562													77	109	---	---	---	---	PASS	T	32372966	T	T	32372966	3	4	114	1	0	0	0	0	1	0	0	0	1565	710	25	3	1210	3	BTNL2	6	32372966	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	1753733	32372966	138742101	97	42012										
MOCS1	4337	broad.mit.edu	37	chr6	39881098	39881098	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tctatgaagcgcacatccagGgggaggccctcagtcaaggc	13	12	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:39881098G>T	uc003opb.2	-	5	858	c.720C>A	c.(718-720)CCC>CCA	p.P240P	MOCS1_uc003opa.2_Silent_p.P240P|MOCS1_uc003opc.2_Silent_p.P240P|MOCS1_uc003opd.2_Silent_p.P240P|MOCS1_uc003ope.2_Silent_p.P153P	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	240	Molybdenum cofactor biosynthesis protein A.				Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding			ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GCACATCCAGGGGGAGGCCCT	0.572													19	72	---	---	---	---	PASS	T	39881098	T	T	39881098	2	4	114	1	0	0	0	0	0	0	0	1	9690	1219	43	3		3	MOCS1	6	39881098	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	7508132	39881098	131233969	98	42013										
RUNX2	860	broad.mit.edu	37	chr6	45405763	45405763	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cacagagcaattaaagttacAgtagatggacctcgggaacc	10	9	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:45405763A>C	uc011dvx.1	+	5	870	c.660A>C	c.(658-660)ACA>ACC	p.T220T	RUNX2_uc011dvy.1_Silent_p.T220T|RUNX2_uc003oxt.2_Silent_p.T206T	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	220	Runt.		T -> I (in CLCD; has severely impaired DNA binding and transactivation).		negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						TTAAAGTTACAGTAGATGGAC	0.408													89	144	---	---	---	---	PASS	C	45405763	C	C	45405763	2	2	114	1	0	0	0	0	0	0	0	1	13748	175	7	5		5	RUNX2	6	45405763	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	5524665	45405763	125709304	99	42014										
ENPP5	59084	broad.mit.edu	37	chr6	46135373	46135373	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cctaacttcttgtcaatatcTgaaatgacaggccccatgag	7	11	3	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:46135373T>A	uc003oxz.1	-	2	835	c.627A>T	c.(625-627)TCA>TCT	p.S209S	ENPP5_uc003oya.1_Silent_p.S209S|ENPP5_uc011dvz.1_Silent_p.S115S|ENPP5_uc010jzc.1_Silent_p.S209S	NM_021572	NP_067547	Q9UJA9	ENPP5_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	209						extracellular region|integral to membrane	hydrolase activity				0						TGTCAATATCTGAAATGACAG	0.443													75	71	---	---	---	---	PASS	A	46135373	A	A	46135373	2	1	114	1	0	0	0	0	0	0	0	1	5133	1567	55	5		5	ENPP5	6	46135373	Silent	SNP	T	TCGA-56-1622-01A-01D-1521-08	729610	46135373	124979694	100	42015										
SIM1	6492	broad.mit.edu	37	chr6	100895281	100895281	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tacttggtggtcacctgtccCttcaccagcactgacggaga	10	13	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:100895281C>G	uc003pqj.3	-	8	1068	c.861G>C	c.(859-861)AAG>AAC	p.K287N	SIM1_uc010kcu.2_Missense_Mutation_p.K287N	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	287	PAS 2.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		TCACCTGTCCCTTCACCAGCA	0.592													30	36	---	---	---	---	PASS	G	100895281	G	G	100895281	3	3	114	1	0	0	0	0	1	0	0	0	14323	680	24	4	1455	4	SIM1	6	100895281	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	54759908	100895281	70219786	101	42016										
AHI1	54806	broad.mit.edu	37	chr6	135811852	135811852	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcttaagcaattcttcaaagCgaactttggtttttactttt	5	7	3	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:135811852C>G	uc003qgi.2	-	5	428	c.44G>C	c.(43-45)CGC>CCC	p.R15P	AHI1_uc003qgh.2_Missense_Mutation_p.R15P|AHI1_uc003qgj.2_Missense_Mutation_p.R15P|AHI1_uc003qgk.3_RNA|AHI1_uc003qgl.3_Missense_Mutation_p.R15P	NM_001134831	NP_001128303	Q8N157	AHI1_HUMAN	Abelson helper integration site 1 isoform a	15	Potential.					adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		TTCTTCAAAGCGAACTTTGGT	0.353													112	124	---	---	---	---	PASS	G	135811852	G	G	135811852	3	3	114	1	0	0	0	0	1	0	0	0	413	768	27	4	3703	4	AHI1	6	135811852	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	34916571	135811852	35303215	102	42017										
SYNE1	23345	broad.mit.edu	37	chr6	152718077	152718077	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ccttcttgagtcactgcatcAagtttgctctgcccatcact	6	14	5	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr6:152718077A>G	uc010kiw.2	-	50	7991	c.7389T>C	c.(7387-7389)CTT>CTC	p.L2463L	SYNE1_uc003qot.3_Silent_p.L2470L|SYNE1_uc003qou.3_Silent_p.L2463L|SYNE1_uc010kjb.1_Silent_p.L2446L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2463	Spectrin 4.|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)		TCACTGCATCAAGTTTGCTCT	0.388										HNSCC(10;0.0054)			76	65	---	---	---	---	PASS	G	152718077	G	G	152718077	2	3	114	1	0	0	0	0	0	0	0	1	15442	117	5	5		5	SYNE1	6	152718077	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	16906225	152718077	18396990	103	42018										
SP4	6671	broad.mit.edu	37	chr7	21469180	21469180	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gttcttccagcagtaataacGggagtgcatctcctacaaaa	8	10	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:21469180G>C	uc003sva.2	+	3	578	c.397G>C	c.(397-399)GGG>CGG	p.G133R	SP4_uc003svb.2_5'UTR	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	133					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						CAGTAATAACGGGAGTGCATC	0.428													45	11	---	---	---	---	PASS	C	21469180	C	C	21469180	3	2	114	1	0	0	0	0	1	0	0	0	14966	1116	39	4	407	4	SP4	7	21469180	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08		21469180	137669483	104	42019										
SCRN1	9805	broad.mit.edu	37	chr7	29966073	29966073	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctcatgcaagctcacctggtCactttcgatgatggcacgtg	10	12	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:29966073C>A	uc010kvp.2	-	6	1285	c.1081G>T	c.(1081-1083)GAC>TAC	p.D361Y	SCRN1_uc011jzy.1_Missense_Mutation_p.D293Y|SCRN1_uc003tak.2_Missense_Mutation_p.D361Y|SCRN1_uc011jzz.1_Missense_Mutation_p.D361Y|SCRN1_uc011kaa.1_Missense_Mutation_p.D381Y|SCRN1_uc011jzw.1_Missense_Mutation_p.D228Y|SCRN1_uc011jzx.1_Missense_Mutation_p.D184Y	NM_001145515	NP_001138987	Q12765	SCRN1_HUMAN	secernin 1 isoform c	361					exocytosis|proteolysis	cytoplasm|nuclear membrane	dipeptidase activity			ovary(2)	2						CTCACCTGGTCACTTTCGATG	0.622													95	21	---	---	---	---	PASS	A	29966073	A	A	29966073	3	1	114	1	0	0	0	0	1	0	0	0	13938	826	29	2	171	2	SCRN1	7	29966073	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	8496893	29966073	129172590	105	42020										
ABCA13	154664	broad.mit.edu	37	chr7	48285534	48285534	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tttttgccgcctggaaactcCagcatatggggtggtctcca	11	11	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:48285534C>A	uc003toq.2	+	13	1591	c.1566C>A	c.(1564-1566)TCC>TCA	p.S522S	ABCA13_uc010kyr.2_Silent_p.S25S	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	522					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CTGGAAACTCCAGCATATGGG	0.463													41	5	---	---	---	---	PASS	A	48285534	A	A	48285534	2	1	114	1	0	0	0	0	0	0	0	1	31	581	21	3		3	ABCA13	7	48285534	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	18319461	48285534	110853129	106	42021										
ZNF479	90827	broad.mit.edu	37	chr7	57188389	57188389	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gctaaaggctttgccacattCctcacatctatatggtttct	6	11	3	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:57188389C>A	uc010kzo.2	-	5	1004	c.733G>T	c.(733-735)GAA>TAA	p.E245*		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	245	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TTGCCACATTCCTCACATCTA	0.408													28	15	---	---	---	---	PASS	A	57188389	A	A	57188389	4	1	114	1	0	0	0	0	0	1	0	0	17930	864	30	2	845	2	ZNF479	7	57188389	Nonsense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	8902855	57188389	101950274	107	42022										
WBSCR17	64409	broad.mit.edu	37	chr7	71130455	71130455	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcacgggtggcccacattgaGcggaagaagaagccatataa	12	9	1	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:71130455G>C	uc003tvy.2	+	7	1140	c.1140G>C	c.(1138-1140)GAG>GAC	p.E380D	WBSCR17_uc003tvz.2_Missense_Mutation_p.E79D	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	380	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				CCCACATTGAGCGGAAGAAGA	0.493													76	118	---	---	---	---	PASS	C	71130455	C	C	71130455	3	2	114	1	0	0	0	0	1	0	0	0	17261	962	34	4	1166	4	WBSCR17	7	71130455	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	13942066	71130455	88008208	108	42023										
PCLO	27445	broad.mit.edu	37	chr7	82455955	82455955	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	atcataatcccaaactgtcaCctccagtgttttcttcttga	4	12	4	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:82455955C>T	uc003uhx.2	-	18	14654	c.14365G>A	c.(14365-14367)GTG>ATG	p.V4789M	PCLO_uc003uhv.2_Missense_Mutation_p.V4789M|PCLO_uc003uht.1_Missense_Mutation_p.V231M|PCLO_uc003uhu.1_Missense_Mutation_p.V210M	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4651	C2 1.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CAAACTGTCACCTCCAGTGTT	0.363													41	94	---	---	---	---	PASS	T	82455955	T	T	82455955	3	4	114	1	0	0	0	0	1	0	0	0	11583	507	18	3	1112	3	PCLO	7	82455955	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	11325500	82455955	76682708	109	42024										
ZNF804B	219578	broad.mit.edu	37	chr7	88965803	88965803	+	Missense_Mutation	SNP	G	T	T													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctacaagcccagcagcatatGcagaagcaactcctatcaaa							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:88965803G>T	uc011khi.1	+	4	4045	c.3507G>T	c.(3505-3507)ATG>ATT	p.M1169I		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1169						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AGCAGCATATGCAGAAGCAAC	0.458										HNSCC(36;0.09)			39	68	---	---	---	---	PASS	T	88965803	T	T	88965803	3	4	114	1	0	0	0	0	1	0	0	0	18168	1319	46	3	3521	3	ZNF804B	7	88965803	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	6509848	88965803	70172860	110	42025	787	2								
ZNF804B	219578	broad.mit.edu	37	chr7	88965804	88965804	+	Nonsense_Mutation	SNP	C	T	T													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tacaagcccagcagcatatgCagaagcaactcctatcaaag							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:88965804C>T	uc011khi.1	+	4	4046	c.3508C>T	c.(3508-3510)CAG>TAG	p.Q1170*		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1170						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GCAGCATATGCAGAAGCAACT	0.458										HNSCC(36;0.09)			39	66	---	---	---	---	PASS	T	88965804	T	T	88965804	4	4	114	1	0	0	0	0	0	1	0	0	18168	711	25	3	3522	3	ZNF804B	7	88965804	Nonsense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	1	88965804	70172859	111	42026	787	2								
CYP3A43	64816	broad.mit.edu	37	chr7	99457596	99457596	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aactgcaggaggagattgacGcagttttacccaataaggta	11	7	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:99457596G>A	uc003urx.1	+	10	1112	c.1009G>A	c.(1009-1011)GCA>ACA	p.A337T	CYP3A43_uc003ury.1_Missense_Mutation_p.A337T|CYP3A43_uc003urz.1_Missense_Mutation_p.A337T|CYP3A43_uc003usa.1_RNA|CYP3A43_uc010lgi.1_Missense_Mutation_p.A227T|CYP3A43_uc003usb.1_Missense_Mutation_p.A197T	NM_057095	NP_476436	Q9HB55	CP343_HUMAN	cytochrome P450, family 3, subfamily A,	337			Missing (in allele CYP3A43*2).		xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)				Cetirizine(DB00341)|Doxycycline(DB00254)	GGAGATTGACGCAGTTTTACC	0.498													60	69	---	---	---	---	PASS	A	99457596	A	A	99457596	3	1	114	1	0	0	0	0	1	0	0	0	4179	1087	38	1	1047	1	CYP3A43	7	99457596	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	10491792	99457596	59681067	112	42027										
ZNF425	155054	broad.mit.edu	37	chr7	148801240	148801240	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gggcttctcgtccctgtgcaTccgctggtggaacttcatgg	13	12	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:148801240T>C	uc003wfj.2	-	4	1796	c.1723A>G	c.(1723-1725)ATG>GTG	p.M575V		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	575	C2H2-type 13.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TCCCTGTGCATCCGCTGGTGG	0.597													29	50	---	---	---	---	PASS	C	148801240	C	C	148801240	3	2	114	1	0	0	0	0	1	0	0	0	17896	1435	50	5	539	5	ZNF425	7	148801240	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	49343644	148801240	10337423	113	42028										
KRBA1	84626	broad.mit.edu	37	chr7	149421860	149421860	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aggacctgcatcctgtcagcCtggcaggcagcccctcagtc	11	16	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:149421860C>T	uc003wfz.2	+	9	1445	c.1046C>T	c.(1045-1047)CCT>CTT	p.P349L	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_Missense_Mutation_p.P17L	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	349										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TCCTGTCAGCCTGGCAGGCAG	0.567													4	0	---	---	---	---	PASS	T	149421860	T	T	149421860	3	4	114	1	0	0	0	0	1	0	0	0	8439	681	24	3	1076	3	KRBA1	7	149421860	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	620620	149421860	9716803	114	42029										
MLL3	58508	broad.mit.edu	37	chr7	151962204	151962204	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ccgctatatccaggcacattCcatgatagtgctgaccacaa	7	13	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:151962204C>A	uc003wla.2	-	8	1322	c.1103G>T	c.(1102-1104)GGA>GTA	p.G368V		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	368	PHD-type 1.|RING-type.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CAGGCACATTCCATGATAGTG	0.438			N		medulloblastoma								37	497	---	---	---	---	PASS	A	151962204	A	A	151962204	3	1	114	1	0	0	0	0	1	0	0	0	9622	855	30	2	13840	2	MLL3	7	151962204	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	2540344	151962204	7176459	115	42030										
CNPY1	285888	broad.mit.edu	37	chr7	155301605	155301605	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ttaccgcaaatttcaaaggtCtgtaagcatcagaataaaaa	6	7	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr7:155301605C>A	uc003wmc.1	-	2	273	c.128G>T	c.(127-129)AGA>ATA	p.R43I		NM_001103176	NP_001096646	Q3B7I2	CNPY1_HUMAN	canopy 1 homolog	43											0	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		TTTCAAAGGTCTGTAAGCATC	0.358													36	6	---	---	---	---	PASS	A	155301605	A	A	155301605	3	1	114	1	0	0	0	0	1	0	0	0	3627	913	32	2	162	2	CNPY1	7	155301605	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	3339401	155301605	3837058	116	42031										
CSGALNACT1	55790	broad.mit.edu	37	chr8	19362938	19362938	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tactctgtggccagcttgacGccagcattcacctctgcctt	8	15	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr8:19362938G>C	uc011kyn.1	-	4	1472	c.408C>G	c.(406-408)GGC>GGG	p.G136G	CSGALNACT1_uc011kyo.1_Silent_p.G136G|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Silent_p.G135G|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	136	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		CCAGCTTGACGCCAGCATTCA	0.607													59	11	---	---	---	---	PASS	C	19362938	C	C	19362938	2	2	114	1	0	0	0	0	0	0	0	1	3938	1074	38	4		4	CSGALNACT1	8	19362938	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08		19362938	127001084	117	42032										
ADAM2	2515	broad.mit.edu	37	chr8	39627070	39627070	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcttcgaagctgcagttactAaagatcttcacaccactgaa	6	11	3	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr8:39627070A>G	uc003xnj.2	-	12	1128	c.1053T>C	c.(1051-1053)TTT>TTC	p.F351F	ADAM2_uc003xnk.2_Silent_p.F332F|ADAM2_uc011lck.1_Silent_p.F351F|ADAM2_uc003xnl.2_Silent_p.F225F	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	351	Extracellular (Potential).|Peptidase M12B.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		TGCAGTTACTAAAGATCTTCA	0.368													27	54	---	---	---	---	PASS	G	39627070	G	G	39627070	2	3	114	1	0	0	0	0	0	0	0	1	241	359	13	5		5	ADAM2	8	39627070	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	20264132	39627070	106736952	118	42033										
C8orf38	137682	broad.mit.edu	37	chr8	96070046	96070046	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cttttttccaggtttctctaGaggactttctaaagaaaatt	6	7	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr8:96070046G>C	uc003yhj.2	+	9	899	c.883G>C	c.(883-885)GAG>CAG	p.E295Q	C8orf38_uc003yhf.2_Missense_Mutation_p.E203Q|C8orf38_uc011lgs.1_Intron|C8orf38_uc003yhi.2_Missense_Mutation_p.E243Q|C8orf38_uc003yhk.2_RNA|C8orf38_uc003yhl.2_Missense_Mutation_p.E203Q	NM_152416	NP_689629	Q330K2	CH038_HUMAN	hypothetical protein LOC137682 precursor	295					biosynthetic process	mitochondrion	transferase activity				0	Breast(36;3.32e-06)					GGTTTCTCTAGAGGACTTTCT	0.284													40	98	---	---	---	---	PASS	C	96070046	C	C	96070046	3	2	114	1	0	0	0	0	1	0	0	0	2424	943	33	2	917	2	C8orf38	8	96070046	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	56442976	96070046	50293976	119	42034										
DPYS	1807	broad.mit.edu	37	chr8	105393524	105393524	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cttatagggtgcacgctccaCaggggtaggtgtgcaagtct	14	9	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr8:105393524C>A	uc003yly.3	-	9	1591	c.1462G>T	c.(1462-1464)GTG>TTG	p.V488L	DPYS_uc010mcf.1_Missense_Mutation_p.V58L	NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	488					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GCACGCTCCACAGGGGTAGGT	0.468													163	15	---	---	---	---	PASS	A	105393524	A	A	105393524	3	1	114	1	0	0	0	0	1	0	0	0	4746	478	17	3	101	3	DPYS	8	105393524	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	9323478	105393524	40970498	120	42035										
TRPS1	7227	broad.mit.edu	37	chr8	116631873	116631873	+	Missense_Mutation	SNP	T	A	A													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctgagggggtgcaggccataTcttgagggtcatctgcctct							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr8:116631873T>A	uc003ynz.2	-	2	872	c.413A>T	c.(412-414)GAT>GTT	p.D138V	TRPS1_uc011lhy.1_Missense_Mutation_p.D142V|TRPS1_uc003yny.2_Missense_Mutation_p.D151V|TRPS1_uc010mcy.2_Missense_Mutation_p.D138V	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	138					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GCAGGCCATATCTTGAGGGTC	0.527									Langer-Giedion_syndrome				77	142	---	---	---	---	PASS	A	116631873	A	A	116631873	3	1	114	1	0	0	0	0	1	0	0	0	16590	1435	50	5	3452	5	TRPS1	8	116631873	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	11238349	116631873	29732149	121	42036	788	2								
TRPS1	7227	broad.mit.edu	37	chr8	116631874	116631874	+	Missense_Mutation	SNP	C	A	A													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgagggggtgcaggccatatCttgagggtcatctgcctctg							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr8:116631874C>A	uc003ynz.2	-	2	871	c.412G>T	c.(412-414)GAT>TAT	p.D138Y	TRPS1_uc011lhy.1_Missense_Mutation_p.D142Y|TRPS1_uc003yny.2_Missense_Mutation_p.D151Y|TRPS1_uc010mcy.2_Missense_Mutation_p.D138Y	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	138					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			CAGGCCATATCTTGAGGGTCA	0.532									Langer-Giedion_syndrome				76	143	---	---	---	---	PASS	A	116631874	A	A	116631874	3	1	114	1	0	0	0	0	1	0	0	0	16590	913	32	2	3453	2	TRPS1	8	116631874	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	1	116631874	29732148	122	42037	788	2								
FAM135B	51059	broad.mit.edu	37	chr8	139164914	139164914	+	Missense_Mutation	SNP	G	T	T													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gtctgaagagatggcattttGgtggcttccacctactacca							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr8:139164914G>T	uc003yuy.2	-	13	1975	c.1804C>A	c.(1804-1806)CAA>AAA	p.Q602K	FAM135B_uc003yux.2_Missense_Mutation_p.Q503K|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.Q164K|FAM135B_uc003yvb.2_Missense_Mutation_p.Q164K	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	602										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)			ATGGCATTTTGGTGGCTTCCA	0.453										HNSCC(54;0.14)			477	37	---	---	---	---	PASS	T	139164914	T	T	139164914	3	4	114	1	0	0	0	0	1	0	0	0	5449	1357	47	3	2448	3	FAM135B	8	139164914	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	22533040	139164914	7199108	123	42038	789	2								
FAM135B	51059	broad.mit.edu	37	chr8	139164915	139164915	+	Missense_Mutation	SNP	G	T	T													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tctgaagagatggcattttgGtggcttccacctactaccac							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr8:139164915G>T	uc003yuy.2	-	13	1974	c.1803C>A	c.(1801-1803)CAC>CAA	p.H601Q	FAM135B_uc003yux.2_Missense_Mutation_p.H502Q|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.H163Q|FAM135B_uc003yvb.2_Missense_Mutation_p.H163Q	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	601										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)			TGGCATTTTGGTGGCTTCCAC	0.458										HNSCC(54;0.14)			480	36	---	---	---	---	PASS	T	139164915	T	T	139164915	3	4	114	1	0	0	0	0	1	0	0	0	5449	1252	44	3	2449	3	FAM135B	8	139164915	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	1	139164915	7199107	124	42039	789	2								
FAM135B	51059	broad.mit.edu	37	chr8	139165094	139165094	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ggcctgtccatcctctggacCtggactccttctagaagtat	9	13	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr8:139165094C>A	uc003yuy.2	-	13	1795	c.1624G>T	c.(1624-1626)GGT>TGT	p.G542C	FAM135B_uc003yux.2_Missense_Mutation_p.G443C|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.G104C|FAM135B_uc003yvb.2_Missense_Mutation_p.G104C	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	542										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)			TCCTCTGGACCTGGACTCCTT	0.502										HNSCC(54;0.14)			238	10	---	---	---	---	PASS	A	139165094	A	A	139165094	3	1	114	1	0	0	0	0	1	0	0	0	5449	681	24	3	2628	3	FAM135B	8	139165094	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	179	139165094	7198928	125	42040										
UNC13B	10497	broad.mit.edu	37	chr9	35295836	35295836	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctgtgccggtgcgatcgccaCagcagctgctacttcaaggc	12	14	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr9:35295836C>A	uc003zwq.2	+	8	962	c.670C>A	c.(670-672)CAG>AAG	p.Q224K	UNC13B_uc010mkl.1_Missense_Mutation_p.Q224K|UNC13B_uc003zwr.2_Missense_Mutation_p.Q224K	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	224					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			GCGATCGCCACAGCAGCTGCT	0.542													22	6	---	---	---	---	PASS	A	35295836	A	A	35295836	3	1	114	1	0	0	0	0	1	0	0	0	16982	479	17	3	700	3	UNC13B	9	35295836	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08		35295836	105917595	126	42041										
C9orf128	392307	broad.mit.edu	37	chr9	35825345	35825345	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	accagctctgtctgcctagcAgggaacactgggcgggctgt	14	12	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr9:35825345A>T	uc010mlc.2	-	3	909	c.624T>A	c.(622-624)CCT>CCA	p.P208P	C9orf128_uc003zyj.2_RNA|C9orf128_uc011lpg.1_Silent_p.P208P	NM_001012446	NP_001012448	A6H8Z2	CI128_HUMAN	hypothetical protein LOC392307	208											0	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			TCTGCCTAGCAGGGAACACTG	0.532													62	26	---	---	---	---	PASS	T	35825345	T	T	35825345	2	4	114	1	0	0	0	0	0	0	0	1	2455	175	7	5		5	C9orf128	9	35825345	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	529509	35825345	105388086	127	42042										
NIPSNAP3B	55335	broad.mit.edu	37	chr9	107535353	107535353	+	Nonstop_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	atcattttcaccattgaaatAgttttctactgaaatacaaa	3	7	3	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr9:107535353A>T	uc004bci.2	+	6	814	c.743A>T	c.(742-744)TAG>TTG	p.*248L	NIPSNAP3B_uc004bcj.1_RNA|LOC286367_uc004bck.3_5'Flank	NM_018376	NP_060846	Q9BS92	NPS3B_HUMAN	nipsnap homolog 3B	248										pancreas(1)|skin(1)	2						CCATTGAAATAGTTTTCTACT	0.363													57	14	---	---	---	---	PASS	T	107535353	T	T	107535353	4	4	114	1	0	0	0	0	0	0	0	0	10431	433	15	5	765	5	NIPSNAP3B	9	107535353	Nonstop_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	71710008	107535353	33678078	128	42043										
ABCA1	19	broad.mit.edu	37	chr9	107560766	107560766	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctccactgatgaactgcaggTgttttgctttgctgacccgc	10	12	0	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr9:107560766T>A	uc004bcl.2	-	37	5370	c.5057A>T	c.(5056-5058)CAC>CTC	p.H1686L		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1686					Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	GAACTGCAGGTGTTTTGCTTT	0.488													84	13	---	---	---	---	PASS	A	107560766	A	A	107560766	3	1	114	1	0	0	0	0	1	0	0	0	28	1696	59	5	1784	5	ABCA1	9	107560766	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	25413	107560766	33652665	129	42044										
WDR31	114987	broad.mit.edu	37	chr9	116082637	116082637	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gacctcacacagtctcctacCgtggcttcacagccttctcc	6	18	4	0	rs148709910		TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr9:116082637C>G	uc004bhe.2	-	9	1032	c.780G>C	c.(778-780)ACG>ACC	p.T260T	WDR31_uc004bhc.2_Silent_p.T259T|WDR31_uc004bhd.2_Silent_p.T135T|WDR31_uc004bhf.2_RNA	NM_001012361	NP_001012361	Q8NA23	WDR31_HUMAN	WD repeat domain 31 isoform 1	260											0						AGTCTCCTACCGTGGCTTCAC	0.517													75	19	---	---	---	---	PASS	G	116082637	G	G	116082637	2	3	114	1	0	0	0	0	0	0	0	1	17283	666	23	4		4	WDR31	9	116082637	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	8521871	116082637	25130794	130	42045										
CEP110	11064	broad.mit.edu	37	chr9	123903707	123903707	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aaaagtcttgctgatttacaGaaacaattcagtgaaattct	6	6	3	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr9:123903707G>A	uc004bkx.1	+	16	2563	c.2532G>A	c.(2530-2532)CAG>CAA	p.Q844Q	CEP110_uc004bky.1_Silent_p.Q448Q|CEP110_uc004bkz.1_Silent_p.Q292Q|CEP110_uc004bla.1_Silent_p.Q292Q|CEP110_uc010mvo.1_5'Flank	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	844					cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						CTGATTTACAGAAACAATTCA	0.393													76	10	---	---	---	---	PASS	A	123903707	A	A	123903707	2	1	114	1	0	0	0	0	0	0	0	1	3245	933	33	2		2	CEP110	9	123903707	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	7821070	123903707	17309724	131	42046										
OR1J1	347168	broad.mit.edu	37	chr9	125240093	125240093	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgagcaggttccccagcaccGtggtcaggtacatgcccagg	13	13	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr9:125240093G>A	uc011lyu.1	-	1	113	c.113C>T	c.(112-114)ACG>ATG	p.T38M	OR1J2_uc004bmj.1_Intron	NM_001004451	NP_001004451	Q8NGS3	OR1J1_HUMAN	olfactory receptor, family 1, subfamily J,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CCCCAGCACCGTGGTCAGGTA	0.597													11	186	---	---	---	---	PASS	A	125240093	A	A	125240093	3	1	114	1	0	0	0	0	1	0	0	0	10959	1145	40	1	858	1	OR1J1	9	125240093	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	1336386	125240093	15973338	132	42047										
GARNL3	84253	broad.mit.edu	37	chr9	130106616	130106616	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cggagtttgttagaatagggCaggtgggttttcttctgaaa	14	4	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr9:130106616C>A	uc011mae.1	+	15	1755	c.1354C>A	c.(1354-1356)CAG>AAG	p.Q452K	GARNL3_uc011mad.1_Missense_Mutation_p.Q430K|GARNL3_uc004bqt.1_Missense_Mutation_p.Q233K	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	452					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						TAGAATAGGGCAGGTGGGTTT	0.483													141	26	---	---	---	---	PASS	A	130106616	A	A	130106616	3	1	114	1	0	0	0	0	1	0	0	0	6241	711	25	3	1412	3	GARNL3	9	130106616	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	4866523	130106616	11106815	133	42048										
SPTAN1	6709	broad.mit.edu	37	chr9	131337068	131337068	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agtacttacgagaatgtgagGacgtgatggactggatcaat	13	5	1	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr9:131337068G>T	uc004bvl.3	+	4	591	c.478G>T	c.(478-480)GAC>TAC	p.D160Y	SPTAN1_uc011mbg.1_Missense_Mutation_p.D160Y|SPTAN1_uc011mbh.1_Missense_Mutation_p.D172Y|SPTAN1_uc004bvm.3_Missense_Mutation_p.D160Y|SPTAN1_uc004bvn.3_Missense_Mutation_p.D160Y	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	160	Spectrin 3.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						AGAATGTGAGGACGTGATGGA	0.473													56	7	---	---	---	---	PASS	T	131337068	T	T	131337068	3	4	114	1	0	0	0	0	1	0	0	0	15116	1174	41	2	488	2	SPTAN1	9	131337068	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	1230452	131337068	9876363	134	42049										
ADARB2	105	broad.mit.edu	37	chr10	1230902	1230902	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ggtggcgttgataatctccaGgtccgcgctgcccacgaccc	12	15	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr10:1230902G>T	uc009xhq.2	-	9	2316	c.1942C>A	c.(1942-1944)CTG>ATG	p.L648M	ADARB2_uc009xhp.2_Missense_Mutation_p.L32M|ADARB2_uc001igl.3_Missense_Mutation_p.L10M|ADARB2_uc001igm.3_Missense_Mutation_p.L157M	NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	648	A to I editase.				mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		ATAATCTCCAGGTCCGCGCTG	0.687													25	8	---	---	---	---	PASS	T	1230902	T	T	1230902	3	4	114	1	0	0	0	0	1	0	0	0	283	991	35	3	285	3	ADARB2	10	1230902	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08		1230902	134303845	135	42050										
PTCHD3	374308	broad.mit.edu	37	chr10	27703066	27703066	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gggggtggctgcttgccttcCgactccgattcctgagattc	13	12	0	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr10:27703066C>G	uc001itu.2	-	1	232	c.114G>C	c.(112-114)TCG>TCC	p.S38S		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	38					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GCTTGCCTTCCGACTCCGATT	0.692													98	129	---	---	---	---	PASS	G	27703066	G	G	27703066	2	3	114	1	0	0	0	0	0	0	0	1	12734	639	23	4		4	PTCHD3	10	27703066	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	26472164	27703066	107831681	136	42051										
RASSF4	83937	broad.mit.edu	37	chr10	45486409	45486409	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ttttcagagcggacaaaattAaaagactgcgagtacccgct	9	9	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr10:45486409A>G	uc001jbo.2	+	9	833	c.699A>G	c.(697-699)TTA>TTG	p.L233L	RASSF4_uc001jbp.2_Silent_p.L264L|RASSF4_uc009xmn.2_Silent_p.L163L|RASSF4_uc001jbq.2_Silent_p.L130L|RASSF4_uc001jbt.2_Silent_p.L190L	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	233	Ras-associating.				cell cycle|signal transduction		protein binding			large_intestine(1)	1						GGACAAAATTAAAAGACTGCG	0.468													54	21	---	---	---	---	PASS	G	45486409	G	G	45486409	2	3	114	1	0	0	0	0	0	0	0	1	13088	359	13	5		5	RASSF4	10	45486409	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	17783343	45486409	90048338	137	42052										
FRMPD2	143162	broad.mit.edu	37	chr10	49381129	49381129	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctcttctctctaagaccagtCttgcaacctagaaggaaagg	8	11	4	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr10:49381129C>G	uc001jgi.2	-	25	3190	c.3083G>C	c.(3082-3084)AGA>ACA	p.R1028T	FRMPD2_uc001jgh.2_Missense_Mutation_p.R996T|FRMPD2_uc001jgj.2_Missense_Mutation_p.R1006T|FRMPD2L1_uc001jgf.2_Missense_Mutation_p.R39T|FRMPD2_uc001jgg.2_5'UTR|FRMPD2_uc001jgk.2_5'UTR	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	1028	PDZ 2.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		TAAGACCAGTCTTGCAACCTA	0.473													8	6	---	---	---	---	PASS	G	49381129	G	G	49381129	3	3	114	1	0	0	0	0	1	0	0	0	6058	913	32	2	866	2	FRMPD2	10	49381129	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	3894720	49381129	86153618	138	42053										
GLUD1	2746	broad.mit.edu	37	chr10	88835729	88835729	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcactttcatacttacagtaTagttcttgggattgatctta	6	7	4	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr10:88835729T>C	uc001keh.2	-	3	675	c.578A>G	c.(577-579)TAT>TGT	p.Y193C	GLUD1_uc001keg.2_Missense_Mutation_p.Y26C|GLUD1_uc010qmp.1_Missense_Mutation_p.Y60C	NM_005271	NP_005262	P00367	DHE3_HUMAN	glutamate dehydrogenase 1 precursor	193					glutamate biosynthetic process|glutamate catabolic process|positive regulation of insulin secretion	mitochondrial matrix	ADP binding|ATP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|identical protein binding|leucine binding|NAD+ binding				0					L-Glutamic Acid(DB00142)|NADH(DB00157)	ACTTACAGTATAGTTCTTGGG	0.234													73	13	---	---	---	---	PASS	C	88835729	C	C	88835729	3	2	114	1	0	0	0	0	1	0	0	0	6476	1406	49	5	1142	5	GLUD1	10	88835729	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	39454600	88835729	46699018	139	42054										
MUC5B	727897	broad.mit.edu	37	chr11	1253773	1253773	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	caaccccaagcccttccactCggtgagaggctgaggccaga	11	15	0	3	rs147470207	by1000genomes	TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:1253773C>A	uc009ycr.1	+	32	4040	c.3914C>A	c.(3913-3915)TCG>TAG	p.S1305*	MUC5B_uc009yct.1_Nonsense_Mutation_p.S646*|MUC5B_uc001ltb.2_Nonsense_Mutation_p.S649*|MUC5B_uc001lta.2_Nonsense_Mutation_p.S314*	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	646					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCCTTCCACTCGGTGAGAGGC	0.687													8	3	---	---	---	---	PASS	A	1253773	A	A	1253773	4	1	114	1	0	0	0	0	0	1	0	0	9979	898	31	2	2008	2	MUC5B	11	1253773	Nonsense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08		1253773	133752743	140	42055										
OR51A4	401666	broad.mit.edu	37	chr11	4967983	4967983	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcaaatgacatgatcaggagGactgaggactccagtactga	11	8	2	4			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:4967983G>T	uc010qys.1	-	1	348	c.348C>A	c.(346-348)GTC>GTA	p.V116V		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		TGATCAGGAGGACTGAGGACT	0.438													144	118	---	---	---	---	PASS	T	4967983	T	T	4967983	2	4	114	1	0	0	0	0	0	0	0	1	11087	1161	41	2		2	OR51A4	11	4967983	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	3714210	4967983	130038533	141	42056										
LDHAL6A	160287	broad.mit.edu	37	chr11	18497181	18497181	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ccttggagagcatggcgactCaagtggtaagcctgaggcac	14	10	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:18497181C>T	uc001mop.1	+	5	848	c.587C>T	c.(586-588)TCA>TTA	p.S196L	LDHAL6A_uc001moq.2_Missense_Mutation_p.S196L	NM_001144071	NP_001137543	Q6ZMR3	LDH6A_HUMAN	lactate dehydrogenase A-like 6A	196					glycolysis	cytoplasm	binding|L-lactate dehydrogenase activity				0					NADH(DB00157)	CATGGCGACTCAAGTGGTAAG	0.453													273	77	---	---	---	---	PASS	T	18497181	T	T	18497181	3	4	114	1	0	0	0	0	1	0	0	0	8699	838	29	2	601	2	LDHAL6A	11	18497181	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	13529198	18497181	116509335	142	42057										
FOLH1	2346	broad.mit.edu	37	chr11	49179538	49179538	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gaactctggggaaggactttTtttagtccaactttcataaa	8	7	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:49179538T>C	uc001ngy.2	-	14	1759	c.1498A>G	c.(1498-1500)AAA>GAA	p.K500E	FOLH1_uc001ngz.2_Missense_Mutation_p.K500E|FOLH1_uc009yly.2_Missense_Mutation_p.K485E|FOLH1_uc009ylz.2_Missense_Mutation_p.K485E|FOLH1_uc009yma.2_Missense_Mutation_p.K192E	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	500	NAALADase.|Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	GAAGGACTTTTTTTAGTCCAA	0.353													73	80	---	---	---	---	PASS	C	49179538	C	C	49179538	3	2	114	1	0	0	0	0	1	0	0	0	5979	1850	64	5	778	5	FOLH1	11	49179538	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	30682357	49179538	85826978	143	42058										
OR5D14	219436	broad.mit.edu	37	chr11	55563598	55563598	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tatactgctctcatctctgtGtctggctctgatatactcat	6	11	5	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:55563598G>T	uc010rim.1	+	1	567	c.567G>T	c.(565-567)GTG>GTT	p.V189V		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				TCATCTCTGTGTCTGGCTCTG	0.448													159	209	---	---	---	---	PASS	T	55563598	T	T	55563598	2	4	114	1	0	0	0	0	0	0	0	1	11155	1364	48	3		3	OR5D14	11	55563598	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	6384060	55563598	79442918	144	42059										
SPRYD5	84767	broad.mit.edu	37	chr11	55655539	55655539	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tttaaggatagaagcaatcaGagctgaatatcagaagatgc	10	5	2	5			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:55655539G>T	uc010rip.1	+	4	631	c.539G>T	c.(538-540)AGA>ATA	p.R180I	SPRYD5_uc010riq.1_Missense_Mutation_p.R37I	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	180						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				GAAGCAATCAGAGCTGAATAT	0.393													27	41	---	---	---	---	PASS	T	55655539	T	T	55655539	3	4	114	1	0	0	0	0	1	0	0	0	15110	942	33	2	549	2	SPRYD5	11	55655539	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	91941	55655539	79350977	145	42060										
OR8K5	219453	broad.mit.edu	37	chr11	55926908	55926908	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	atagaaggcatttttcacctCttcgtttcttaagctgtaaa	6	8	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:55926908C>T	uc010rja.1	-	1	886	c.886G>A	c.(886-888)GAG>AAG	p.E296K		NM_001004058	NP_001004058	Q8NH50	OR8K5_HUMAN	olfactory receptor, family 8, subfamily K,	296	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(21;0.00693)	Lung NSC(402;0.197)|all_epithelial(135;0.236)				TTTTTCACCTCTTCGTTTCTT	0.274													31	53	---	---	---	---	PASS	T	55926908	T	T	55926908	3	4	114	1	0	0	0	0	1	0	0	0	11245	922	32	2	40	2	OR8K5	11	55926908	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	271369	55926908	79079608	146	42061										
OR5T3	390154	broad.mit.edu	37	chr11	56019795	56019795	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aagaacaagactgaagtcacCatgtttatattgacaggctt	8	7	1	4			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:56019795C>A	uc010rjd.1	+	1	120	c.120C>A	c.(118-120)ACC>ACA	p.T40T		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	40	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					CTGAAGTCACCATGTTTATAT	0.348													59	90	---	---	---	---	PASS	A	56019795	A	A	56019795	2	1	114	1	0	0	0	0	0	0	0	1	11183	581	21	3		3	OR5T3	11	56019795	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	92887	56019795	78986721	147	42062										
OR9Q2	219957	broad.mit.edu	37	chr11	57958903	57958903	+	Missense_Mutation	SNP	C	A	A													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	atcaaagcctgctagaagacCctaaatggacccttgtgaaa							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:57958903C>A	uc010rka.1	+	1	941	c.941C>A	c.(940-942)CCC>CAC	p.P314H		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	314	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				GCTAGAAGACCCTAAATGGAC	0.299													13	51	---	---	---	---	PASS	A	57958903	A	A	57958903	3	1	114	1	0	0	0	0	1	0	0	0	11256	623	22	3	943	3	OR9Q2	11	57958903	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	1939108	57958903	77047613	148	42063	790	2								
OR9Q2	219957	broad.mit.edu	37	chr11	57958904	57958904	+	Silent	SNP	C	A	A													0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcaaagcctgctagaagaccCtaaatggacccttgtgaaat							TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:57958904C>A	uc010rka.1	+	1	942	c.942C>A	c.(940-942)CCC>CCA	p.P314P		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	314	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				CTAGAAGACCCTAAATGGACC	0.294													13	49	---	---	---	---	PASS	A	57958904	A	A	57958904	2	1	114	1	0	0	0	0	0	0	0	1	11256	668	24	3		3	OR9Q2	11	57958904	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	1	57958904	77047612	149	42064	790	2								
BEST1	7439	broad.mit.edu	37	chr11	61730083	61730083	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ccccctagaaccatcagcgcCgtcaaagcttcacagtgtca	7	16	4	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:61730083C>A	uc001nss.2	+	10	2037	c.1457C>A	c.(1456-1458)CCG>CAG	p.P486Q	BEST1_uc010rlq.1_3'UTR|BEST1_uc010rlr.1_3'UTR|BEST1_uc010rls.1_Missense_Mutation_p.P114Q|BEST1_uc001nsr.2_Missense_Mutation_p.P426Q|BEST1_uc009ynt.2_RNA|BEST1_uc010rlt.1_Missense_Mutation_p.P426Q|BEST1_uc001nst.2_Missense_Mutation_p.P399Q|BEST1_uc010rlu.1_3'UTR|BEST1_uc010rlv.1_Missense_Mutation_p.P380Q	NM_004183	NP_004174	O76090	BEST1_HUMAN	bestrophin 1 isoform 1	486	Cytoplasmic (Potential).				response to stimulus|transepithelial chloride transport|visual perception	basolateral plasma membrane|chloride channel complex|cytosol|membrane fraction	chloride channel activity			central_nervous_system(1)	1						CCATCAGCGCCGTCAAAGCTT	0.522													54	38	---	---	---	---	PASS	A	61730083	A	A	61730083	3	1	114	1	0	0	0	0	1	0	0	0	1404	652	23	1	1491	1	BEST1	11	61730083	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	3771179	61730083	73276433	150	42065										
DGAT2	84649	broad.mit.edu	37	chr11	75509352	75509352	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cgaggagggctcctggggccGatgggtccagaagaagttcc	17	10	0	2	rs140793537	byFrequency	TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:75509352G>T	uc001oxa.2	+	7	1149	c.890G>T	c.(889-891)CGA>CTA	p.R297L	DGAT2_uc001oxb.2_Missense_Mutation_p.R254L	NM_032564	NP_115953	Q96PD7	DGAT2_HUMAN	diacylglycerol O-acyltransferase 2	297	Cytoplasmic (Potential).				glycerol metabolic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	diacylglycerol O-acyltransferase activity				0	Ovarian(111;0.103)					TCCTGGGGCCGATGGGTCCAG	0.572													61	171	---	---	---	---	PASS	T	75509352	T	T	75509352	3	4	114	1	0	0	0	0	1	0	0	0	4458	1058	37	2	916	2	DGAT2	11	75509352	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	13779269	75509352	59497164	151	42066										
TRIM49	57093	broad.mit.edu	37	chr11	89531515	89531515	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gaatgtcattcttaacacacCcaagaagaaagagtcccgcc	7	12	2	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:89531515C>A	uc001pdb.2	-	8	1471	c.1142G>T	c.(1141-1143)GGG>GTG	p.G381V		NM_020358	NP_065091	P0CI25	TRI49_HUMAN	ring finger protein 18	381	B30.2/SPRY.					intracellular	zinc ion binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				CTTAACACACCCAAGAAGAAA	0.438													30	102	---	---	---	---	PASS	A	89531515	A	A	89531515	3	1	114	1	0	0	0	0	1	0	0	0	16521	623	22	3	220	3	TRIM49	11	89531515	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	14022163	89531515	45475001	152	42067										
ARCN1	372	broad.mit.edu	37	chr11	118451966	118451966	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	atatgttcctggcaggtgctGttggcagcagcggtctgcac	14	10	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:118451966G>T	uc001ptq.2	+	2	170	c.9G>T	c.(7-9)CTG>CTT	p.L3L	ARCN1_uc009zah.2_Silent_p.L3L|ARCN1_uc010ryg.1_Intron|ARCN1_uc009zag.2_Silent_p.L44L	NM_001655	NP_001646	P48444	COPD_HUMAN	archain isoform 1	3					COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	clathrin adaptor complex|COPI vesicle coat|cytosol					0	all_hematologic(175;0.0349)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		GGCAGGTGCTGTTGGCAGCAG	0.413													40	68	---	---	---	---	PASS	T	118451966	T	T	118451966	2	4	114	1	0	0	0	0	0	0	0	1	842	1364	48	3		3	ARCN1	11	118451966	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	28920451	118451966	16554550	153	42068										
FOXRED1	55572	broad.mit.edu	37	chr11	126145236	126145236	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcacagggatggaggacgaaGgttggtttgacccctggtgt	16	7	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr11:126145236G>T	uc001qdi.2	+	6	693	c.646G>T	c.(646-648)GGT>TGT	p.G216C	FOXRED1_uc010sbn.1_Missense_Mutation_p.G46C|FOXRED1_uc010sbo.1_RNA|FOXRED1_uc010sbp.1_Missense_Mutation_p.G29C|FOXRED1_uc010sbq.1_Missense_Mutation_p.G83C|FOXRED1_uc001qdj.2_Missense_Mutation_p.G5C|FOXRED1_uc010sbr.1_Missense_Mutation_p.G202C|FOXRED1_uc001qdk.2_Missense_Mutation_p.G5C	NM_017547	NP_060017	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing	216						integral to membrane|mitochondrion	oxidoreductase activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)		GGAGGACGAAGGTTGGTTTGA	0.537													39	143	---	---	---	---	PASS	T	126145236	T	T	126145236	3	4	114	1	0	0	0	0	1	0	0	0	6033	1000	35	3	668	3	FOXRED1	11	126145236	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	7693270	126145236	8861280	154	42069										
SCNN1A	6337	broad.mit.edu	37	chr12	6458148	6458148	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	acggtgtaattgttctgtcgCgatagcatctggaagaccca	11	9	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr12:6458148C>T	uc001qnx.2	-	11	1810	c.1521G>A	c.(1519-1521)TCG>TCA	p.S507S	SCNN1A_uc001qnv.2_Silent_p.S207S|SCNN1A_uc001qnw.2_Silent_p.S566S|SCNN1A_uc010sfb.1_Silent_p.S530S	NM_001038	NP_001029	P37088	SCNNA_HUMAN	sodium channel, nonvoltage-gated 1 alpha isoform	507	Extracellular (By similarity).				excretion|response to stimulus|sensory perception of taste	apical plasma membrane	WW domain binding				0					Amiloride(DB00594)|Triamterene(DB00384)	TGTTCTGTCGCGATAGCATCT	0.493													403	392	---	---	---	---	PASS	T	6458148	T	T	6458148	2	4	114	1	0	0	0	0	0	0	0	1	13927	755	27	1		1	SCNN1A	12	6458148	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08		6458148	127393747	155	42070										
EPS8	2059	broad.mit.edu	37	chr12	15822599	15822599	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ataaattttacacacttgccTttgattctaaatcaatcagg	4	8	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr12:15822599T>A	uc009zif.2	-	5	459	c.365A>T	c.(364-366)AAG>ATG	p.K122M	EPS8_uc001rdb.2_Missense_Mutation_p.K122M|EPS8_uc009zig.2_Translation_Start_Site	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	122	PH; first part.				cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		CACACTTGCCTTTGATTCTAA	0.328													46	73	---	---	---	---	PASS	A	15822599	A	A	15822599	3	1	114	1	0	0	0	0	1	0	0	0	5194	1623	56	5	2171	5	EPS8	12	15822599	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	9364451	15822599	118029296	156	42071										
OVCH1	341350	broad.mit.edu	37	chr12	29649181	29649181	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ttgaatcaagcttcctccacAgaagtggtgctcatctgatt	8	10	3	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr12:29649181A>G	uc001rix.1	-	3	214	c.214T>C	c.(214-216)TGT>CGT	p.C72R		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	72	Peptidase S1 1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					CTTCCTCCACAGAAGTGGTGC	0.458													8	17	---	---	---	---	PASS	G	29649181	G	G	29649181	3	3	114	1	0	0	0	0	1	0	0	0	11323	188	7	5	3294	5	OVCH1	12	29649181	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	13826582	29649181	104202714	157	42072										
LRRK2	120892	broad.mit.edu	37	chr12	40757299	40757299	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aaatagccctgttgtggaagTgtgggataagaaaactgaaa	12	4	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr12:40757299T>C	uc001rmg.3	+	48	7245	c.7124T>C	c.(7123-7125)GTG>GCG	p.V2375A	LRRK2_uc009zjw.2_Missense_Mutation_p.V1213A|LRRK2_uc001rmi.2_Missense_Mutation_p.V1208A	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2375					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)				GTTGTGGAAGTGTGGGATAAG	0.363													86	12	---	---	---	---	PASS	C	40757299	C	C	40757299	3	2	114	1	0	0	0	0	1	0	0	0	9033	1696	59	5	7314	5	LRRK2	12	40757299	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	11108118	40757299	93094596	158	42073										
WIF1	11197	broad.mit.edu	37	chr12	65461474	65461474	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gaaatcggctccatgtcttaCctttctcacagtgaggtccg	9	12	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr12:65461474C>T	uc001ssk.2	-	5	779	c.634_splice	c.e5+1	p.A212_splice		NM_007191	NP_009122	Q9Y5W5	WIF1_HUMAN	WNT inhibitory factor 1 precursor						multicellular organismal development|Wnt receptor signaling pathway	extracellular region	protein tyrosine kinase activity			ovary(2)|lung(1)|skin(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0231)		CCATGTCTTACCTTTCTCACA	0.488			T	HMGA2	pleomorphic salivary gland adenoma								60	53	---	---	---	---	PASS	T	65461474	T	T	65461474	5	4	114	1	0	0	0	0	0	0	1	0	17363	521	18	3	528	3	WIF1	12	65461474	Splice_Site	SNP	C	TCGA-56-1622-01A-01D-1521-08	24704175	65461474	68390421	159	42074										
PTPRB	5787	broad.mit.edu	37	chr12	70986093	70986093	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	actgccatcttctgagcagaCagttcaccagagacacagct	8	13	3	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr12:70986093C>G	uc001swb.3	-	5	1125	c.1095G>C	c.(1093-1095)CTG>CTC	p.L365L	PTPRB_uc010sto.1_Silent_p.L365L|PTPRB_uc010stp.1_Silent_p.L365L|PTPRB_uc001swc.3_Silent_p.L583L|PTPRB_uc001swa.3_Silent_p.L583L|PTPRB_uc001swd.3_Silent_p.L582L|PTPRB_uc009zrr.1_Silent_p.L462L|PTPRB_uc001swe.2_Silent_p.L583L	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	365	Fibronectin type-III 4.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			TCTGAGCAGACAGTTCACCAG	0.448													81	102	---	---	---	---	PASS	G	70986093	G	G	70986093	2	3	114	1	0	0	0	0	0	0	0	1	12796	465	17	4		4	PTPRB	12	70986093	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	5524619	70986093	62865802	160	42075										
CCDC38	120935	broad.mit.edu	37	chr12	96292356	96292356	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgaaacaaacattttcagagCgtctacagatctctggtcat	7	9	4	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr12:96292356C>T	uc001tek.1	-	6	757	c.523G>A	c.(523-525)GCT>ACT	p.A175T		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	175	Potential.									skin(1)	1						ATTTTCAGAGCGTCTACAGAT	0.363													76	9	---	---	---	---	PASS	T	96292356	T	T	96292356	3	4	114	1	0	0	0	0	1	0	0	0	2810	768	27	1	1212	1	CCDC38	12	96292356	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	25306263	96292356	37559539	161	42076										
APPL2	55198	broad.mit.edu	37	chr12	105582189	105582189	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ttttaactgccattgatcccAaaaaccgaactataaacatc	3	11	0	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr12:105582189A>C	uc001tlf.1	-	17	1714	c.1496T>G	c.(1495-1497)TTG>TGG	p.L499W	APPL2_uc010swt.1_Missense_Mutation_p.L456W|APPL2_uc001tlg.1_Missense_Mutation_p.L253W|APPL2_uc010swu.1_Missense_Mutation_p.L505W|APPL2_uc009zuq.2_Missense_Mutation_p.L456W	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH	499	PID.				cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1						CATTGATCCCAAAAACCGAAC	0.423													63	7	---	---	---	---	PASS	C	105582189	C	C	105582189	3	2	114	1	0	0	0	0	1	0	0	0	818	131	5	5	518	5	APPL2	12	105582189	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	9289833	105582189	28269706	162	42077										
RBM19	9904	broad.mit.edu	37	chr12	114397945	114397945	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gcatgtttgctccaggctctGggtttggccgggtccccgaa	14	12	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr12:114397945G>T	uc009zwi.2	-	3	402	c.258C>A	c.(256-258)CCC>CCA	p.P86P	RBM19_uc001tvn.3_Silent_p.P86P|RBM19_uc001tvm.2_Silent_p.P86P	NM_001146699	NP_001140171	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	86					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)					TCCAGGCTCTGGGTTTGGCCG	0.532													48	10	---	---	---	---	PASS	T	114397945	T	T	114397945	2	4	114	1	0	0	0	0	0	0	0	1	13121	1335	47	3		3	RBM19	12	114397945	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	8815756	114397945	19453950	163	42078										
TBX3	6926	broad.mit.edu	37	chr12	115112350	115112350	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cgcctcttccaccttggccgGcgctgtgccctcgcgaaccg	11	19	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr12:115112350G>T	uc001tvt.1	-	7	2354	c.1390C>A	c.(1390-1392)CCG>ACG	p.P464T	TBX3_uc001tvu.1_Missense_Mutation_p.P444T	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	464					anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		ACCTTGGCCGGCGCTGTGCCC	0.766													5	1	---	---	---	---	PASS	T	115112350	T	T	115112350	3	4	114	1	0	0	0	0	1	0	0	0	15656	1203	42	3	849	3	TBX3	12	115112350	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	714405	115112350	18739545	164	42079										
IL31	386653	broad.mit.edu	37	chr12	122658483	122658483	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	taaacggacgggcaacgtgtGggaggccagccagcctccca	14	13	0	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr12:122658483G>T	uc001ubv.2	-	2	100	c.73C>A	c.(73-75)CAC>AAC	p.H25N	LRRC43_uc001ubw.3_Intron|LRRC43_uc009zxl.1_Intron	NM_001014336	NP_001014358	Q6EBC2	IL31_HUMAN	interleukin 31 precursor	25						extracellular space	cytokine activity			central_nervous_system(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;6.93e-05)|Breast(359;0.0544)		OV - Ovarian serous cystadenocarcinoma(86;3.27e-29)|Epithelial(86;4.86e-27)|BRCA - Breast invasive adenocarcinoma(302;0.223)		GGCAACGTGTGGGAGGCCAGC	0.532													77	12	---	---	---	---	PASS	T	122658483	T	T	122658483	3	4	114	1	0	0	0	0	1	0	0	0	7690	1348	47	3	429	3	IL31	12	122658483	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	7546133	122658483	11193412	165	42080										
FRY	10129	broad.mit.edu	37	chr13	32783211	32783211	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gctctccagaagccacgtcaCtggtcctgaacaacctcatg	8	15	3	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr13:32783211C>G	uc001utx.2	+	32	4736	c.4240C>G	c.(4240-4242)CTG>GTG	p.L1414V	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1414					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		AGCCACGTCACTGGTCCTGAA	0.537													54	10	---	---	---	---	PASS	G	32783211	G	G	32783211	3	3	114	1	0	0	0	0	1	0	0	0	6063	564	20	4	4366	4	FRY	13	32783211	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08		32783211	82386667	166	42081										
NBEA	26960	broad.mit.edu	37	chr13	35692566	35692566	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ggtggctttaatgtcggaacAcccagcctcaatgataccag	10	11	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr13:35692566A>C	uc001uvb.2	+	17	2404	c.2198A>C	c.(2197-2199)CAC>CCC	p.H733P		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	733						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		ATGTCGGAACACCCAGCCTCA	0.333													10	3	---	---	---	---	PASS	C	35692566	C	C	35692566	3	2	114	1	0	0	0	0	1	0	0	0	10187	159	6	5	2260	5	NBEA	13	35692566	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	2909355	35692566	79477312	167	42082										
LCP1	3936	broad.mit.edu	37	chr13	46725138	46725138	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ccaggtggtaattagcccacCtcagcaagagctcttcaggg	11	12	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr13:46725138C>G	uc001vaz.3	-	8	941	c.815G>C	c.(814-816)AGG>ACG	p.R272T	LCP1_uc001vba.3_Missense_Mutation_p.R272T	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	272	CH 2.|Actin-binding 1.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		ATTAGCCCACCTCAGCAAGAG	0.463			T	BCL6	NHL 								95	17	---	---	---	---	PASS	G	46725138	G	G	46725138	3	3	114	1	0	0	0	0	1	0	0	0	8691	681	24	4	1104	4	LCP1	13	46725138	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	11032572	46725138	68444740	168	42083										
RB1	5925	broad.mit.edu	37	chr13	48953748	48953748	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agcgatacaaacttggagttCgcttgtattaccgagtaatg	10	7	0	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr13:48953748C>T	uc001vcb.2	+	14	1517	c.1351C>T	c.(1351-1353)CGC>TGC	p.R451C		NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	451	Domain A.|Pocket; binds T and E1A.				androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(7)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ACTTGGAGTTCGCTTGTATTA	0.204		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			4	24	---	---	---	---	PASS	T	48953748	T	T	48953748	3	4	114	1	0	0	0	0	1	0	0	0	13098	884	31	2	1405	2	RB1	13	48953748	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	2228610	48953748	66216130	169	42084										
DIAPH3	81624	broad.mit.edu	37	chr13	60566228	60566228	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcagctctaatatcttcaagGcgatgggataactcaaacaa	7	9	5	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr13:60566228G>A	uc001vht.2	-	11	1437	c.1218C>T	c.(1216-1218)CGC>CGT	p.R406R	DIAPH3_uc001vhu.2_Silent_p.R143R|DIAPH3_uc001vhv.2_5'Flank|DIAPH3_uc001vhw.1_Silent_p.R395R|DIAPH3_uc010aed.1_Silent_p.R360R|DIAPH3_uc010aee.1_Silent_p.R336R	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	406	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		TATCTTCAAGGCGATGGGATA	0.313													51	10	---	---	---	---	PASS	A	60566228	A	A	60566228	2	1	114	1	0	0	0	0	0	0	0	1	4520	1190	42	3		3	DIAPH3	13	60566228	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	11612480	60566228	54603650	170	42085										
KLHL1	57626	broad.mit.edu	37	chr13	70514310	70514310	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tccaccacctgtggaagctgAagaaggcacgctgcagcaag	12	12	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr13:70514310A>C	uc001vip.2	-	4	1670	c.876T>G	c.(874-876)CTT>CTG	p.L292L	KLHL1_uc010thm.1_Silent_p.L231L	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	292					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		GTGGAAGCTGAAGAAGGCACG	0.428													13	27	---	---	---	---	PASS	C	70514310	C	C	70514310	2	2	114	1	0	0	0	0	0	0	0	1	8365	233	9	5		5	KLHL1	13	70514310	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	9948082	70514310	44655568	171	42086										
COL4A1	1282	broad.mit.edu	37	chr13	110818651	110818651	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gccaggaagaccttttggacCtaaaagcagagggaaagcac	12	9	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr13:110818651C>G	uc001vqw.3	-	45	4072	c.3950_splice	c.e45-1	p.G1317_splice	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein						angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CCTTTTGGACCTAAAAGCAGA	0.423													71	12	---	---	---	---	PASS	G	110818651	G	G	110818651	5	3	114	1	0	0	0	0	0	0	1	0	3689	695	24	4	1092	4	COL4A1	13	110818651	Splice_Site	SNP	C	TCGA-56-1622-01A-01D-1521-08	40304341	110818651	4351227	172	42087										
NID2	22795	broad.mit.edu	37	chr14	52520919	52520919	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gcatggctgaaggaacgtccCaggggaacagaagagtgggc	17	8	0	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr14:52520919C>A	uc001wzo.2	-	4	1122	c.888G>T	c.(886-888)CTG>CTT	p.L296L	NID2_uc010tqs.1_Silent_p.L296L|NID2_uc010tqt.1_Silent_p.L296L|NID2_uc001wzp.2_Silent_p.L296L	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	296						basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					AGGAACGTCCCAGGGGAACAG	0.522													24	37	---	---	---	---	PASS	A	52520919	A	A	52520919	2	1	114	1	0	0	0	0	0	0	0	1	10415	581	21	3		3	NID2	14	52520919	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08		52520919	54828621	173	42088										
SERPINA5	5104	broad.mit.edu	37	chr14	95054021	95054021	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aaagctcagagaaggagctgCacagaggctttcagcagctc	12	10	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr14:95054021C>G	uc001ydm.2	+	3	532	c.322C>G	c.(322-324)CAC>GAC	p.H108D	SERPINA5_uc010ave.2_Missense_Mutation_p.H108D|SERPINA5_uc001ydn.1_Missense_Mutation_p.H108D	NM_000624	NP_000615	P05154	IPSP_HUMAN	serine (or cysteine) proteinase inhibitor, clade	108					fusion of sperm to egg plasma membrane|regulation of proteolysis|spermatogenesis	extracellular region|membrane|protein complex	acrosin binding|heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(2)	2				COAD - Colon adenocarcinoma(157;0.21)	Drotrecogin alfa(DB00055)|Urokinase(DB00013)	GAAGGAGCTGCACAGAGGCTT	0.597													33	40	---	---	---	---	PASS	G	95054021	G	G	95054021	3	3	114	1	0	0	0	0	1	0	0	0	14092	710	25	4	324	4	SERPINA5	14	95054021	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	42533102	95054021	12295519	174	42089										
EML1	2009	broad.mit.edu	37	chr14	100375748	100375748	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ccaacatcatagttacttgtGgaaaatcacatctctacttt	4	10	3	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr14:100375748G>T	uc001ygs.2	+	11	1240	c.1171G>T	c.(1171-1173)GGA>TGA	p.G391*	EML1_uc010avt.1_Nonsense_Mutation_p.G378*|EML1_uc010tww.1_Nonsense_Mutation_p.G379*|EML1_uc001ygq.2_Nonsense_Mutation_p.G410*|EML1_uc001ygr.2_Nonsense_Mutation_p.G410*	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	391	WD 3.					cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				AGTTACTTGTGGAAAATCACA	0.393													99	134	---	---	---	---	PASS	T	100375748	T	T	100375748	4	4	114	1	0	0	0	0	0	1	0	0	5096	1349	47	3	1274	3	EML1	14	100375748	Nonsense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	5321727	100375748	6973792	175	42090										
PPP1R13B	23368	broad.mit.edu	37	chr14	104202520	104202520	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gccacacctttgttcatcacAcccagcttttcctgcacccc	4	19	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr14:104202520A>G	uc001yof.1	-	16	3334	c.3051T>C	c.(3049-3051)GGT>GGC	p.G1017G	PPP1R13B_uc010awv.1_RNA	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	1017					apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				TGTTCATCACACCCAGCTTTT	0.607													61	125	---	---	---	---	PASS	G	104202520	G	G	104202520	2	3	114	1	0	0	0	0	0	0	0	1	12357	146	6	5		5	PPP1R13B	14	104202520	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	3826772	104202520	3147020	176	42091										
AHNAK2	113146	broad.mit.edu	37	chr14	105415305	105415305	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ggggcagacaccccaaacgaCggcatcttgaacttgggcat	12	12	1	2	rs74090124	by1000genomes	TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr14:105415305C>G	uc010axc.1	-	7	6603	c.6483G>C	c.(6481-6483)CCG>CCC	p.P2161P	AHNAK2_uc001ypx.2_Silent_p.P2061P	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2161						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)			CCCCAAACGACGGCATCTTGA	0.592													2	1	---	---	---	---	PASS	G	105415305	G	G	105415305	2	3	114	1	0	0	0	0	0	0	0	1	415	523	19	4		4	AHNAK2	14	105415305	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	1212785	105415305	1934235	177	42092										
HERC2	8924	broad.mit.edu	37	chr15	28459024	28459024	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	taacttgaccgcccaggcgcAggcgaccatcgatgcctcca	10	16	0	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr15:28459024A>T	uc001zbj.2	-	42	6756	c.6650T>A	c.(6649-6651)CTG>CAG	p.L2217Q		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2217					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GCCCAGGCGCAGGCGACCATC	0.582													30	10	---	---	---	---	PASS	T	28459024	T	T	28459024	3	4	114	1	0	0	0	0	1	0	0	0	7058	188	7	5	8062	5	HERC2	15	28459024	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08		28459024	74072368	178	42093										
TJP1	7082	broad.mit.edu	37	chr15	30000933	30000933	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gtttttgaagacaagtcaggTttatgtgcagtttcacttgg	11	5	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr15:30000933T>A	uc001zcr.2	-	25	5155	c.4680A>T	c.(4678-4680)AAA>AAT	p.K1560N	TJP1_uc010azl.2_Missense_Mutation_p.K1548N|TJP1_uc001zcq.2_Missense_Mutation_p.K1484N|TJP1_uc001zcs.2_Missense_Mutation_p.K1480N	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	1560					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		ACAAGTCAGGTTTATGTGCAG	0.413													178	39	---	---	---	---	PASS	A	30000933	A	A	30000933	3	1	114	1	0	0	0	0	1	0	0	0	15926	1722	60	5	582	5	TJP1	15	30000933	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	1541909	30000933	72530459	179	42094										
GJD2	57369	broad.mit.edu	37	chr15	35044963	35044963	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gtagcggttacactcatacaAccctgggacactaaagccat	8	12	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr15:35044963A>G	uc001zis.1	-	2	682	c.682T>C	c.(682-684)TTG>CTG	p.L228L	uc001zit.1_5'Flank	NM_020660	NP_065711	Q9UKL4	CXD2_HUMAN	gap junction protein, delta 2, 36kDa	228	Extracellular (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_lung(180;9.67e-07)		all cancers(64;2.75e-18)|GBM - Glioblastoma multiforme(113;1.9e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		CACTCATACAACCCTGGGACA	0.473													34	5	---	---	---	---	PASS	G	35044963	G	G	35044963	2	3	114	1	0	0	0	0	0	0	0	1	6417	40	2	5		5	GJD2	15	35044963	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	5044030	35044963	67486429	180	42095										
MYEF2	50804	broad.mit.edu	37	chr15	48460929	48460929	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gacccttcttttctccagcgCccgaattcttgtcttttgaa	6	13	4	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr15:48460929C>A	uc001zwi.3	-	2	393	c.269G>T	c.(268-270)GGC>GTC	p.G90V	MYEF2_uc001zwj.3_Missense_Mutation_p.G90V|MYEF2_uc001zwl.2_5'UTR	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	90					transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		TTCTCCAGCGCCCGAATTCTT	0.363													48	129	---	---	---	---	PASS	A	48460929	A	A	48460929	3	1	114	1	0	0	0	0	1	0	0	0	10024	739	26	3	1597	3	MYEF2	15	48460929	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	13415966	48460929	54070463	181	42096										
DMXL2	23312	broad.mit.edu	37	chr15	51828999	51828999	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ggcatacatcatgatattttTactaagagagcttgcatcac	7	8	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr15:51828999T>C	uc002abf.2	-	12	1903	c.1678A>G	c.(1678-1680)AAA>GAA	p.K560E	DMXL2_uc010ufy.1_Missense_Mutation_p.K560E|DMXL2_uc010bfa.2_Missense_Mutation_p.K560E	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	560						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		ATGATATTTTTACTAAGAGAG	0.403													23	58	---	---	---	---	PASS	C	51828999	C	C	51828999	3	2	114	1	0	0	0	0	1	0	0	0	4595	1763	61	5	7563	5	DMXL2	15	51828999	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	3368070	51828999	50702393	182	42097										
UNC13C	440279	broad.mit.edu	37	chr15	54916021	54916021	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	attaatgacctaaactggcaGaccacagcaatgttccgccc	7	13	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr15:54916021G>T	uc002ack.2	+	30	6228	c.6228G>T	c.(6226-6228)CAG>CAT	p.Q2076H	UNC13C_uc002acm.2_5'UTR	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	2076	C2 2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TAAACTGGCAGACCACAGCAA	0.363													29	22	---	---	---	---	PASS	T	54916021	T	T	54916021	3	4	114	1	0	0	0	0	1	0	0	0	16983	933	33	2	6346	2	UNC13C	15	54916021	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	3087022	54916021	47615371	183	42098										
USP3	9960	broad.mit.edu	37	chr15	63883009	63883009	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ggaacaccaggccaaagctgGatcggataaactttaatacc	9	10	0	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr15:63883009G>A	uc002amf.2	+	15	1676	c.1547G>A	c.(1546-1548)GGA>GAA	p.G516E	USP3_uc002amg.2_Missense_Mutation_p.G431E|USP3_uc002amh.2_Missense_Mutation_p.G494E|USP3_uc010uij.1_Missense_Mutation_p.G472E|USP3_uc010uik.1_Missense_Mutation_p.G267E|USP3_uc010bgs.2_Missense_Mutation_p.G499E|USP3_uc002ami.2_Missense_Mutation_p.G347E|uc002amj.2_Intron|uc002amk.2_Intron|uc002aml.2_Intron	NM_006537	NP_006528	Q9Y6I4	UBP3_HUMAN	ubiquitin thiolesterase 3	516					DNA repair|histone deubiquitination|mitotic cell cycle|regulation of protein stability|ubiquitin-dependent protein catabolic process	nuclear chromatin	histone binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(80;0.0187)		GCCAAAGCTGGATCGGATAAA	0.418													44	145	---	---	---	---	PASS	A	63883009	A	A	63883009	3	1	114	1	0	0	0	0	1	0	0	0	17057	1174	41	2	1605	2	USP3	15	63883009	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	8966988	63883009	38648383	184	42099										
ITGA11	22801	broad.mit.edu	37	chr15	68605181	68605181	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agctgttgggcttgacctcgTagtggctcaggctgctgctc	14	11	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr15:68605181T>C	uc002ari.2	-	24	2990	c.2903A>G	c.(2902-2904)TAC>TGC	p.Y968C	ITGA11_uc010bib.2_Missense_Mutation_p.Y968C	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	968	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	CTTGACCTCGTAGTGGCTCAG	0.617													11	33	---	---	---	---	PASS	C	68605181	C	C	68605181	3	2	114	1	0	0	0	0	1	0	0	0	7874	1638	57	5	691	5	ITGA11	15	68605181	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	4722172	68605181	33926211	185	42100										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84373179	84373179	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cctggagcctatttccttccCgagtttgcactttctcctca	6	15	2	0	rs140402380		TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr15:84373179C>T	uc002bjz.3	+	3	332	c.108C>T	c.(106-108)CCC>CCT	p.P36P	ADAMTSL3_uc002bjy.1_Silent_p.P36P|ADAMTSL3_uc010bmt.1_Silent_p.P36P|ADAMTSL3_uc010bmu.1_Silent_p.P36P	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	36						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)			ATTTCCTTCCCGAGTTTGCAC	0.468													15	267	---	---	---	---	PASS	T	84373179	T	T	84373179	2	4	114	1	0	0	0	0	0	0	0	1	276	639	23	1		1	ADAMTSL3	15	84373179	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	15767998	84373179	18158213	186	42101										
OR4F6	390648	broad.mit.edu	37	chr15	102346017	102346017	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cctcctcttcctctttttctCagtgttctatgtgtcaagcc	5	14	5	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr15:102346017C>T	uc010utr.1	+	1	95	c.95C>T	c.(94-96)TCA>TTA	p.S32L		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			CTCTTTTTCTCAGTGTTCTAT	0.507													93	251	---	---	---	---	PASS	T	102346017	T	T	102346017	3	4	114	1	0	0	0	0	1	0	0	0	11066	838	29	2	97	2	OR4F6	15	102346017	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	17972838	102346017	185375	187	42102										
PKD1	5310	broad.mit.edu	37	chr16	2150202	2150202	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ccttctccaccaggcccccgTtggcctccgtctccaccgaa	7	21	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr16:2150202T>G	uc002cos.1	-	28	9886	c.9677A>C	c.(9676-9678)AAC>ACC	p.N3226T	PKD1_uc002cot.1_Missense_Mutation_p.N3226T|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	3226	PLAT.|Cytoplasmic (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CAGGCCCCCGTTGGCCTCCGT	0.657													30	7	---	---	---	---	PASS	G	2150202	G	G	2150202	3	3	114	1	0	0	0	0	1	0	0	0	11963	1725	60	5	3310	5	PKD1	16	2150202	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08		2150202	88204551	188	42103										
CORO7	79585	broad.mit.edu	37	chr16	4407255	4407255	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aggggcctctcggggggcttGgctcactgggacagagcaag	18	10	2	1	rs142694458		TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr16:4407255G>A	uc002cwh.3	-	26	2719	c.2599C>T	c.(2599-2601)CAA>TAA	p.Q867*	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Nonsense_Mutation_p.Q867*|CORO7_uc002cwg.3_Nonsense_Mutation_p.Q647*|CORO7_uc010uxh.1_Nonsense_Mutation_p.Q849*|CORO7_uc010uxi.1_Nonsense_Mutation_p.Q782*	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	867						cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						CGGGGGGCTTGGCTCACTGGG	0.552													42	6	---	---	---	---	PASS	A	4407255	A	A	4407255	4	1	114	1	0	0	0	0	0	1	0	0	3759	1357	47	3	190	3	CORO7	16	4407255	Nonsense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	2257053	4407255	85947498	189	42104										
PDILT	204474	broad.mit.edu	37	chr16	20373796	20373796	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	acatcagctgaatgtcatttGctgtgacatcgatcttggca	9	9	3	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr16:20373796G>T	uc002dhc.1	-	10	1569	c.1346C>A	c.(1345-1347)GCA>GAA	p.A449E		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	449	Thioredoxin.				cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						AATGTCATTTGCTGTGACATC	0.488													57	72	---	---	---	---	PASS	T	20373796	T	T	20373796	3	4	114	1	0	0	0	0	1	0	0	0	11674	1319	46	3	420	3	PDILT	16	20373796	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	15966541	20373796	69980957	190	42105										
HS3ST4	9951	broad.mit.edu	37	chr16	26147026	26147026	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gctcccaagcgcattcactcCatggccaaggacatcaaact	7	15	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr16:26147026C>T	uc002dof.2	+	2	1220	c.828C>T	c.(826-828)TCC>TCT	p.S276S		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	276	Lumenal (Potential).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		GCATTCACTCCATGGCCAAGG	0.498													78	97	---	---	---	---	PASS	T	26147026	T	T	26147026	2	4	114	1	0	0	0	0	0	0	0	1	7367	581	21	3		3	HS3ST4	16	26147026	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	5773230	26147026	64207727	191	42106										
ABCC12	94160	broad.mit.edu	37	chr16	48121987	48121987	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gaaacaaagccattcctaacGatgactttcctgggaaccat	7	11	0	1	rs144720520	byFrequency	TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr16:48121987G>T	uc002efc.1	-	25	3831	c.3485C>A	c.(3484-3486)TCG>TAG	p.S1162*	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1162	ABC transporter 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CATTCCTAACGATGACTTTCC	0.413													23	23	---	---	---	---	PASS	T	48121987	T	T	48121987	4	4	114	1	0	0	0	0	0	1	0	0	52	1059	37	2	614	2	ABCC12	16	48121987	Nonsense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	21974961	48121987	42232766	192	42107										
CDH8	1006	broad.mit.edu	37	chr16	61689506	61689506	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gccacagaccctgattgtcaAggtgctagtgctgctcagtg	12	11	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr16:61689506A>T	uc002eog.1	-	11	2026	c.1774T>A	c.(1774-1776)TTG>ATG	p.L592M		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	592	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		CTGATTGTCAAGGTGCTAGTG	0.468													56	92	---	---	---	---	PASS	T	61689506	T	T	61689506	3	4	114	1	0	0	0	0	1	0	0	0	3116	69	3	5	633	5	CDH8	16	61689506	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	13567519	61689506	28665247	193	42108										
CDH11	1009	broad.mit.edu	37	chr16	65038624	65038624	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agacccagccacgcttggagCgctgtagcacctgcccctcc	10	18	0	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr16:65038624C>A	uc002eoi.2	-	3	583	c.149G>T	c.(148-150)CGC>CTC	p.R50L	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Missense_Mutation_p.R50L|CDH11_uc010vin.1_Intron|CDH11_uc010vio.1_Missense_Mutation_p.R50L	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	50					adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		ACGCTTGGAGCGCTGTAGCAC	0.642			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			34	28	---	---	---	---	PASS	A	65038624	A	A	65038624	3	1	114	1	0	0	0	0	1	0	0	0	3097	768	27	1	2285	1	CDH11	16	65038624	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	3349118	65038624	25316129	194	42109										
AARS	16	broad.mit.edu	37	chr16	70293019	70293019	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctttctggtcagcttccccaAgcactgagcgcagggcgaag	12	13	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr16:70293019A>G	uc002eyn.1	-	14	1966	c.1856T>C	c.(1855-1857)CTT>CCT	p.L619P	AARS_uc010vlu.1_Missense_Mutation_p.L449P	NM_001605	NP_001596	P49588	SYAC_HUMAN	alanyl-tRNA synthetase	619					alanyl-tRNA aminoacylation|tRNA processing	cytosol|soluble fraction	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			pancreas(1)	1		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)	L-Alanine(DB00160)	AGCTTCCCCAAGCACTGAGCG	0.562													105	169	---	---	---	---	PASS	G	70293019	G	G	70293019	3	3	114	1	0	0	0	0	1	0	0	0	19	72	3	5	1082	5	AARS	16	70293019	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	5254395	70293019	20061734	195	42110										
PKD1L2	114780	broad.mit.edu	37	chr16	81161404	81161404	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcagtccccaaggggaccacGtagcctcctccccggtacac	9	18	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr16:81161404G>A	uc002fgh.1	-	38	6312	c.6312C>T	c.(6310-6312)TAC>TAT	p.Y2104Y	PKD1L2_uc002fgf.1_Translation_Start_Site|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	2104	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AGGGGACCACGTAGCCTCCTC	0.522													25	39	---	---	---	---	PASS	A	81161404	A	A	81161404	2	1	114	1	0	0	0	0	0	0	0	1	11965	1145	40	1		1	PKD1L2	16	81161404	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	10868385	81161404	9193349	196	42111										
TP53	7157	broad.mit.edu	37	chr17	7574017	7574017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gctctcggaacatctcgaagCgctcacgcccacggatctgc	10	16	4	0	rs121912664		TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr17:7574017C>A	uc002gim.2	-	10	1204	c.1010G>T	c.(1009-1011)CGC>CTC	p.R337L	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_Missense_Mutation_p.R205L|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_Missense_Mutation_p.R337L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	337	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Interaction with HIPK2.		R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R337C(12)|p.0?(7)|p.R337L(5)|p.R337H(2)|p.?(1)|p.I332fs*5(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)		CATCTCGAAGCGCTCACGCCC	0.453		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)			25	8	---	---	---	---	PASS	A	7574017	A	A	7574017	3	1	114	1	0	0	0	0	1	0	0	0	16378	768	27	1	179	1	TP53	17	7574017	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08		7574017	73621193	197	42112										
MYH13	8735	broad.mit.edu	37	chr17	10214458	10214458	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gacctgcagatctgacttttCctgctccactagcttcttgg	8	13	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr17:10214458C>T	uc002gmk.1	-	33	4708	c.4618G>A	c.(4618-4620)GAA>AAA	p.E1540K		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1540	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TCTGACTTTTCCTGCTCCACT	0.473													62	10	---	---	---	---	PASS	T	10214458	T	T	10214458	3	4	114	1	0	0	0	0	1	0	0	0	10032	864	30	2	1234	2	MYH13	17	10214458	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	2640441	10214458	70980752	198	42113										
MYH2	4620	broad.mit.edu	37	chr17	10447295	10447295	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ttgcaaagtactggatgacaCgcttggtgttcacagtcttc	10	9	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr17:10447295C>A	uc010coi.2	-	7	700	c.572G>T	c.(571-573)CGT>CTT	p.R191L	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.R191L|MYH2_uc010coj.2_Missense_Mutation_p.R191L	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	191	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTGGATGACACGCTTGGTGTT	0.428													61	19	---	---	---	---	PASS	A	10447295	A	A	10447295	3	1	114	1	0	0	0	0	1	0	0	0	10035	536	19	1	5389	1	MYH2	17	10447295	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	232837	10447295	70747915	199	42114										
SYNRG	11276	broad.mit.edu	37	chr17	35921348	35921348	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ttctctgaaagcactatattTatcaccaggatctatgatag	6	8	3	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr17:35921348T>G	uc002hoa.2	-	13	1695	c.1612A>C	c.(1612-1614)AAA>CAA	p.K538Q	SYNRG_uc010wde.1_Missense_Mutation_p.K460Q|SYNRG_uc010wdf.1_Missense_Mutation_p.K460Q|SYNRG_uc002hoc.2_Missense_Mutation_p.K459Q|SYNRG_uc002hoe.2_Missense_Mutation_p.K460Q|SYNRG_uc002hod.2_Missense_Mutation_p.K460Q|SYNRG_uc010wdg.1_Missense_Mutation_p.K377Q|SYNRG_uc002hob.2_Missense_Mutation_p.K538Q|SYNRG_uc002hof.2_Missense_Mutation_p.K250Q|SYNRG_uc010cvd.1_Missense_Mutation_p.K338Q	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	538	Interaction with A1P1G1 and A1P1G2.				endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						GCACTATATTTATCACCAGGA	0.353													52	94	---	---	---	---	PASS	G	35921348	G	G	35921348	3	3	114	1	0	0	0	0	1	0	0	0	15457	1763	61	5	2445	5	SYNRG	17	35921348	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	25474053	35921348	45273862	200	42115										
KIAA1267	284058	broad.mit.edu	37	chr17	44110445	44110445	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gacccaagcctgccccatcaCctgctgccccgccgctgggg	11	20	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr17:44110445C>G	uc002ikb.2	-	12	2922	c.2837_splice	c.e12+1	p.R946_splice	KIAA1267_uc002ikc.2_Splice_Site_p.R946_splice|KIAA1267_uc002ikd.2_Splice_Site_p.R946_splice|KIAA1267_uc010dav.2_Splice_Site_p.R945_splice|KIAA1267_uc010wkb.1_Splice_Site_p.R277_splice|KIAA1267_uc010wkc.1_Splice_Site_p.R214_splice	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058							MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				TGCCCCATCACCTGCTGCCCC	0.647													6	6	---	---	---	---	PASS	G	44110445	G	G	44110445	5	3	114	1	0	0	0	0	0	0	1	0	8219	521	18	4	491	4	KIAA1267	17	44110445	Splice_Site	SNP	C	TCGA-56-1622-01A-01D-1521-08	8189097	44110445	37084765	201	42116										
PPP1R9B	84687	broad.mit.edu	37	chr17	48226576	48226576	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctcctcctccgacagccccgGgatctccacgcaccccgact	7	22	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr17:48226576G>A	uc002iqh.3	-	3	1306	c.1303C>T	c.(1303-1305)CCG>TCG	p.P435S		NM_032595	NP_115984	Q96SB3	NEB2_HUMAN	protein phosphatase 1, regulatory subunit 9B	433	Interacts with protein phosphatase 1 (By similarity).				cell cycle arrest|cell differentiation|cell migration|filopodium assembly|negative regulation of cell growth|nervous system development|regulation of cell growth by extracellular stimulus|regulation of cell proliferation|regulation of exit from mitosis|RNA splicing	adherens junction|cytoskeleton|dendritic spine|filopodium|lamellipodium|nucleoplasm|protein phosphatase type 1 complex|ruffle membrane|synapse	actin binding|protein phosphatase 1 binding|protein phosphatase inhibitor activity				0						GACAGCCCCGGGATCTCCACG	0.597													6	17	---	---	---	---	PASS	A	48226576	A	A	48226576	3	1	114	1	0	0	0	0	1	0	0	0	12379	1219	43	3	1190	3	PPP1R9B	17	48226576	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	4116131	48226576	32968634	202	42117										
GPRC5C	55890	broad.mit.edu	37	chr17	72443115	72443115	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ccaccaggcggccacaccgcCgaaagacggcaagaactctc	10	17	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr17:72443115C>T	uc002jks.2	+	3	1313	c.1274C>T	c.(1273-1275)CCG>CTG	p.P425L	GPRC5C_uc002jkp.2_Missense_Mutation_p.P470L|GPRC5C_uc002jkq.2_3'UTR|GPRC5C_uc002jkr.2_Missense_Mutation_p.P437L|GPRC5C_uc002jkt.2_Missense_Mutation_p.P425L|GPRC5C_uc002jku.2_Missense_Mutation_p.P180L	NM_018653	NP_061123	Q9NQ84	GPC5C_HUMAN	G protein-coupled receptor family C, group 5,	425	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to plasma membrane	G-protein coupled receptor activity|protein binding			ovary(2)|prostate(1)|central_nervous_system(1)|pancreas(1)	5						GCCACACCGCCGAAAGACGGC	0.652													69	100	---	---	---	---	PASS	T	72443115	T	T	72443115	3	4	114	1	0	0	0	0	1	0	0	0	6726	652	23	1	1431	1	GPRC5C	17	72443115	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	24216539	72443115	8752095	203	42118										
SAP30BP	29115	broad.mit.edu	37	chr17	73702489	73702489	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gatagcccagcccaccatccTcaccaccacagccaccctgc	5	22	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr17:73702489T>G	uc002jpe.2	+	11	869	c.815T>G	c.(814-816)CTC>CGC	p.L272R	SAP30BP_uc002jpc.1_RNA|SAP30BP_uc010wsf.1_RNA|SAP30BP_uc010wsg.1_RNA|SAP30BP_uc002jpf.2_Missense_Mutation_p.L256R	NM_013260	NP_037392	Q9UHR5	S30BP_HUMAN	transcriptional regulator protein	272	Thr-rich.				apoptosis|induction of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1	all_cancers(13;6.42e-08)		all cancers(21;4.25e-07)|Epithelial(20;9.57e-07)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			CCCACCATCCTCACCACCACA	0.557													106	199	---	---	---	---	PASS	G	73702489	G	G	73702489	3	3	114	1	0	0	0	0	1	0	0	0	13834	1551	54	5	857	5	SAP30BP	17	73702489	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	1259374	73702489	7492721	204	42119										
DNAH17	8632	broad.mit.edu	37	chr17	76435203	76435203	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cccagtgtcctttctctgcaGccacgtccagggcgttctca	9	16	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr17:76435203G>T	uc010dhp.1	-	18	2996	c.2774C>A	c.(2773-2775)GCT>GAT	p.A925D	DNAH17_uc002jvq.2_Missense_Mutation_p.A210D|DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			TTTCTCTGCAGCCACGTCCAG	0.562													40	31	---	---	---	---	PASS	T	76435203	T	T	76435203	3	4	114	1	0	0	0	0	1	0	0	0	4601	971	34	3	1650	3	DNAH17	17	76435203	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	2732714	76435203	4760007	205	42120										
KIAA0802	23255	broad.mit.edu	37	chr18	8825138	8825138	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agcatcacggcggcaggtggTgagggtccctttcccacaag	14	12	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr18:8825138T>C	uc002knr.2	+	15	3772	c.3630T>C	c.(3628-3630)GGT>GGC	p.G1210G	KIAA0802_uc002knq.2_Silent_p.G1169G|KIAA0802_uc002kns.2_Silent_p.G550G	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1520											0						CGGCAGGTGGTGAGGGTCCCT	0.677													33	12	---	---	---	---	PASS	C	8825138	C	C	8825138	2	2	114	1	0	0	0	0	0	0	0	1	8194	1683	59	5		5	KIAA0802	18	8825138	Silent	SNP	T	TCGA-56-1622-01A-01D-1521-08		8825138	69252110	206	42121										
C18orf34	374864	broad.mit.edu	37	chr18	30672775	30672775	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgatagctgtttatcatataTattgaaataattgtcctttt	5	4	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr18:30672775T>C	uc002kxn.2	-	20	2480	c.2338A>G	c.(2338-2340)ATA>GTA	p.I780V	C18orf34_uc010xbq.1_Intron|C18orf34_uc010dme.1_Intron|C18orf34_uc010xbr.1_Missense_Mutation_p.I780V|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.I742V|C18orf34_uc002kxp.2_Missense_Mutation_p.I780V	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	780										ovary(1)	1						TTATCATATATATTGAAATAA	0.284													68	12	---	---	---	---	PASS	C	30672775	C	C	30672775	3	2	114	1	0	0	0	0	1	0	0	0	1902	1406	49	5	277	5	C18orf34	18	30672775	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	21847637	30672775	47404473	207	42122										
CELF4	56853	broad.mit.edu	37	chr18	34850747	34850747	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ttacctgggtaggggtggatGccattggcgaacacagcttc	14	9	0	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr18:34850747G>A	uc002lae.2	-	8	1479	c.1083C>T	c.(1081-1083)GGC>GGT	p.G361G	CELF4_uc010dnd.1_Silent_p.G359G|CELF4_uc002lag.2_Silent_p.G351G|CELF4_uc002laf.2_Silent_p.G356G|CELF4_uc002lai.2_Silent_p.G346G|CELF4_uc002lah.1_Silent_p.G86G	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	361					embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						AGGGGTGGATGCCATTGGCGA	0.557													59	15	---	---	---	---	PASS	A	34850747	A	A	34850747	2	1	114	1	0	0	0	0	0	0	0	1	3218	1306	46	3		3	CELF4	18	34850747	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	4177972	34850747	43226501	208	42123										
CDH20	28316	broad.mit.edu	37	chr18	59195329	59195329	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tgcacatcagtgtggaagacGtggacgagccccctgtgttt	13	10	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr18:59195329G>T	uc010dps.1	+	6	1159	c.1147G>T	c.(1147-1149)GTG>TTG	p.V383L	CDH20_uc002lif.2_Missense_Mutation_p.V377L	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	383	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				TGTGGAAGACGTGGACGAGCC	0.512													86	24	---	---	---	---	PASS	T	59195329	T	T	59195329	3	4	114	1	0	0	0	0	1	0	0	0	3106	1145	40	1	1169	1	CDH20	18	59195329	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	24344582	59195329	18881919	209	42124										
CD226	10666	broad.mit.edu	37	chr18	67563044	67563044	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctgtgacatcggggatgacgAtgacgctccaccttccgtgg	13	12	0	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr18:67563044A>G	uc010dqo.2	-	3	1067	c.620T>C	c.(619-621)ATC>ACC	p.I207T	CD226_uc002lkm.3_Missense_Mutation_p.I207T	NM_006566	NP_006557	Q15762	CD226_HUMAN	CD226 molecule precursor	207	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|cell recognition|positive regulation of Fc receptor mediated stimulatory signaling pathway|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	cell surface|integral to plasma membrane|membrane raft	cell adhesion molecule binding|integrin binding|protein kinase binding|receptor activity				0		Esophageal squamous(42;0.129)				GGGGATGACGATGACGCTCCA	0.512													74	19	---	---	---	---	PASS	G	67563044	G	G	67563044	3	3	114	1	0	0	0	0	1	0	0	0	2986	333	12	5	406	5	CD226	18	67563044	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	8367715	67563044	10514204	210	42125										
ABCA7	10347	broad.mit.edu	37	chr19	1056426	1056426	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cctgcccccaggcccggcccGccacgcccacagcatcacca	8	24	1	0	rs113269196	byFrequency	TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr19:1056426G>T	uc002lqw.3	+	33	4745	c.4514G>T	c.(4513-4515)CGC>CTC	p.R1505L	ABCA7_uc002lqy.2_5'Flank|ABCA7_uc010dsc.2_5'Flank	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	1505	Extracellular (By similarity).				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGCCCGGCCCGCCACGCCCAC	0.612													12	19	---	---	---	---	PASS	T	1056426	T	T	1056426	3	4	114	1	0	0	0	0	1	0	0	0	37	1087	38	1	4640	1	ABCA7	19	1056426	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08		1056426	58072557	211	42126										
VAV1	7409	broad.mit.edu	37	chr19	6854071	6854071	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcaagatccttaacaagaagGgacagcaaggctggtggcga	13	8	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr19:6854071G>C	uc002mfu.1	+	26	2543	c.2446G>C	c.(2446-2448)GGA>CGA	p.G816R	VAV1_uc010xjh.1_Missense_Mutation_p.G784R|VAV1_uc010dva.1_Missense_Mutation_p.G794R|VAV1_uc002mfv.1_Missense_Mutation_p.G761R	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	816	SH3 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						TAACAAGAAGGGACAGCAAGG	0.602													60	46	---	---	---	---	PASS	C	6854071	C	C	6854071	3	2	114	1	0	0	0	0	1	0	0	0	17128	1233	43	4	2548	4	VAV1	19	6854071	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	5797645	6854071	52274912	212	42127										
MUC16	94025	broad.mit.edu	37	chr19	9061509	9061509	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cagtccctacattgactacaGgtgtgtttgaggagggatga	13	7	0	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr19:9061509G>T	uc002mkp.2	-	3	26141	c.25937C>A	c.(25936-25938)CCT>CAT	p.P8646H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8648	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATTGACTACAGGTGTGTTTGA	0.438													15	81	---	---	---	---	PASS	T	9061509	T	T	9061509	3	4	114	1	0	0	0	0	1	0	0	0	9973	1000	35	3	17914	3	MUC16	19	9061509	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	2207438	9061509	50067474	213	42128										
PDE4A	5141	broad.mit.edu	37	chr19	10572296	10572296	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctgcaggaggacaactgcgaCatcttccagaacctcagcaa	9	13	2	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr19:10572296C>T	uc002moj.2	+	12	1668	c.1560C>T	c.(1558-1560)GAC>GAT	p.D520D	PDE4A_uc002mok.2_Silent_p.D494D|PDE4A_uc002mol.2_Silent_p.D459D|PDE4A_uc002mom.2_Silent_p.D281D|PDE4A_uc002mon.2_5'UTR|PDE4A_uc002moo.2_Silent_p.D186D	NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1	520	Catalytic.				signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)	ACAACTGCGACATCTTCCAGA	0.622													26	60	---	---	---	---	PASS	T	10572296	T	T	10572296	2	4	114	1	0	0	0	0	0	0	0	1	11639	477	17	3		3	PDE4A	19	10572296	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	1510787	10572296	48556687	214	42129										
ZNF625	90589	broad.mit.edu	37	chr19	12256966	12256966	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tttcttcttcagcatgtcatCtggaacctgggtcaaaattt	7	9	6	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr19:12256966C>A	uc002mth.2	-	4	417	c.67G>T	c.(67-69)GAT>TAT	p.D23Y	ZNF20_uc002mtg.1_Intron|ZNF625_uc010dyn.1_RNA|ZNF625_uc010dyo.1_Missense_Mutation_p.D57Y	NM_145233	NP_660276	Q96I27	ZN625_HUMAN	zinc finger protein 625	23					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGCATGTCATCTGGAACCTGG	0.433													45	45	---	---	---	---	PASS	A	12256966	A	A	12256966	3	1	114	1	0	0	0	0	1	0	0	0	18046	913	32	2	857	2	ZNF625	19	12256966	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	1684670	12256966	46872017	215	42130										
TNPO2	30000	broad.mit.edu	37	chr19	12816128	12816128	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cacgtgaccacccaggccctCggccaggccgctgagcagat	12	17	0	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr19:12816128C>A	uc002muo.2	-	17	2133	c.1948G>T	c.(1948-1950)GAG>TAG	p.E650*	TNPO2_uc002mup.2_Nonsense_Mutation_p.E742*|TNPO2_uc002muq.2_Nonsense_Mutation_p.E650*|TNPO2_uc002mur.2_Nonsense_Mutation_p.E650*	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	650					intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						CCCAGGCCCTCGGCCAGGCCG	0.602													6	7	---	---	---	---	PASS	A	12816128	A	A	12816128	4	1	114	1	0	0	0	0	0	1	0	0	16333	893	31	2	777	2	TNPO2	19	12816128	Nonsense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	559162	12816128	46312855	216	42131										
NANOS3	342977	broad.mit.edu	37	chr19	13988533	13988533	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctggtccggcctgacaaggcGaagacacaggacacaggcca	13	13	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr19:13988533G>A	uc002mxj.3	+	1	584	c.471G>A	c.(469-471)GCG>GCA	p.A157A		NM_001098622	NP_001092092	P60323	NANO3_HUMAN	nanos homolog 3	138					anti-apoptosis|germ cell development|multicellular organismal development|oogenesis|regulation of cell cycle|regulation of translation|spermatogenesis	cytoplasmic mRNA processing body|nucleus|stress granule	RNA binding|zinc ion binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			CTGACAAGGCGAAGACACAGG	0.667													3	9	---	---	---	---	PASS	A	13988533	A	A	13988533	2	1	114	1	0	0	0	0	0	0	0	1	10153	1045	37	2		2	NANOS3	19	13988533	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	1172405	13988533	45140450	217	42132										
RYR1	6261	broad.mit.edu	37	chr19	38942422	38942422	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aggccatgctgcaccaggagGgccacatggacgacgcactg	14	13	0	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr19:38942422G>T	uc002oit.2	+	12	1271	c.1141G>T	c.(1141-1143)GGC>TGC	p.G381C	RYR1_uc002oiu.2_Missense_Mutation_p.G381C	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	381	Cytoplasmic.|MIR 5.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GCACCAGGAGGGCCACATGGA	0.627													49	108	---	---	---	---	PASS	T	38942422	T	T	38942422	3	4	114	1	0	0	0	0	1	0	0	0	13768	1232	43	3	1187	3	RYR1	19	38942422	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	24953889	38942422	20186561	218	42133										
LRFN1	57622	broad.mit.edu	37	chr19	39805146	39805146	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cggtcggtgaggtgttcgggCgtggcgcaggtctctaagtc	18	9	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr19:39805146C>T	uc002okw.2	-	1	831	c.831G>A	c.(829-831)ACG>ACA	p.T277T		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	277	LRRCT.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane				ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			GGTGTTCGGGCGTGGCGCAGG	0.697													3	7	---	---	---	---	PASS	T	39805146	T	T	39805146	2	4	114	1	0	0	0	0	0	0	0	1	8937	755	27	1		1	LRFN1	19	39805146	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	862724	39805146	19323837	219	42134										
ZNF234	10780	broad.mit.edu	37	chr19	44661166	44661166	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cttgtagctcaaaccttcgtAtccatcaaagggtccacaca	6	13	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr19:44661166A>G	uc002oym.2	+	6	1304	c.997A>G	c.(997-999)ATC>GTC	p.I333V	ZNF234_uc002oyl.3_Missense_Mutation_p.I333V	NM_006630	NP_006621	Q14588	ZN234_HUMAN	zinc finger protein 234	333	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				AAACCTTCGTATCCATCAAAG	0.428													39	60	---	---	---	---	PASS	G	44661166	G	G	44661166	3	3	114	1	0	0	0	0	1	0	0	0	17784	449	16	5	1011	5	ZNF234	19	44661166	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	4856020	44661166	14467817	220	42135										
SYNGR4	23546	broad.mit.edu	37	chr19	48878904	48878904	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gtctggttcatgggtttctgCttcctggccaaccaatggca	11	11	3	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr19:48878904C>A	uc002piz.2	+	4	611	c.366C>A	c.(364-366)TGC>TGA	p.C122*		NM_012451	NP_036583	O95473	SNG4_HUMAN	synaptogyrin 4	122	MARVEL.|Helical; (Potential).					integral to membrane					0		all_epithelial(76;5.08e-07)|all_lung(116;5.76e-06)|Lung NSC(112;1.18e-05)|Prostate(7;0.0143)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000138)|all cancers(93;0.00017)|Epithelial(262;0.0138)|GBM - Glioblastoma multiforme(486;0.0146)		TGGGTTTCTGCTTCCTGGCCA	0.592													95	81	---	---	---	---	PASS	A	48878904	A	A	48878904	4	1	114	1	0	0	0	0	0	1	0	0	15448	805	28	3	376	3	SYNGR4	19	48878904	Nonsense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	4217738	48878904	10250079	221	42136										
VPS16	64601	broad.mit.edu	37	chr20	2843947	2843947	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gtctaccaggctcgtgttgcGgagactttaccccctggcca	11	14	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr20:2843947G>C	uc002whe.2	+	15	1427	c.1379G>C	c.(1378-1380)CGG>CCG	p.R460P	VPS16_uc002whh.2_RNA|PTPRA_uc002whj.2_5'Flank|VPS16_uc002whf.2_Missense_Mutation_p.R316P|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_Missense_Mutation_p.R146P|VPS16_uc002whi.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	460					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						CTCGTGTTGCGGAGACTTTAC	0.597													90	100	---	---	---	---	PASS	C	2843947	C	C	2843947	3	2	114	1	0	0	0	0	1	0	0	0	17190	1116	39	4	1437	4	VPS16	20	2843947	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08		2843947	60181573	222	42137										
TMX4	56255	broad.mit.edu	37	chr20	7980436	7980436	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cgactgattgccatttcttcTctaagatataattctgcagg	7	9	3	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr20:7980436T>A	uc002wmx.1	-	4	543	c.410A>T	c.(409-411)GAG>GTG	p.E137V		NM_021156	NP_066979	Q9H1E5	TMX4_HUMAN	thioredoxin-related transmembrane protein 4	137	Thioredoxin.				cell redox homeostasis|electron transport chain|transport	integral to membrane					0						CCATTTCTTCTCTAAGATATA	0.408													63	35	---	---	---	---	PASS	A	7980436	A	A	7980436	3	1	114	1	0	0	0	0	1	0	0	0	16266	1551	54	5	659	5	TMX4	20	7980436	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	5136489	7980436	55045084	223	42138										
TOX2	84969	broad.mit.edu	37	chr20	42683148	42683148	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gcctccatgtgggacagcctGggagaggaacagaagcaggt	16	9	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr20:42683148G>T	uc002xlf.3	+	5	905	c.888G>T	c.(886-888)CTG>CTT	p.L296L	TOX2_uc010ggo.2_Silent_p.L287L|TOX2_uc002xle.3_Silent_p.L245L|TOX2_uc010ggp.2_Silent_p.L245L|TOX2_uc002xlg.2_Silent_p.L245L|TOX2_uc010zwk.1_Silent_p.L165L	NM_001098798	NP_001092268	Q96NM4	TOX2_HUMAN	TOX high mobility group box family member 2	296	HMG box.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)			GGGACAGCCTGGGAGAGGAAC	0.562													27	22	---	---	---	---	PASS	T	42683148	T	T	42683148	2	4	114	1	0	0	0	0	0	0	0	1	16375	1335	47	3		3	TOX2	20	42683148	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	34702712	42683148	20342372	224	42139										
MMP9	4318	broad.mit.edu	37	chr20	44640921	44640921	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	accacctcgaactttgacagCgacaagaagtggggcttctg	11	11	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr20:44640921C>A	uc002xqz.2	+	7	1162	c.1143C>A	c.(1141-1143)AGC>AGA	p.S381R		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	381	Fibronectin type-II 3.				collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	ACTTTGACAGCGACAAGAAGT	0.662													88	101	---	---	---	---	PASS	A	44640921	A	A	44640921	3	1	114	1	0	0	0	0	1	0	0	0	9669	767	27	1	1169	1	MMP9	20	44640921	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	1957773	44640921	18384599	225	42140										
NTSR1	4923	broad.mit.edu	37	chr20	61386239	61386239	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gcacggcgtgcgcgtcctacGtacgtaacctctgggccctc	12	16	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr20:61386239G>C	uc002ydf.2	+	2	1287	c.916_splice	c.e2+1	p.R306_splice		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1							endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			CGCGTCCTACGTACGTAACCT	0.662													9	24	---	---	---	---	PASS	C	61386239	C	C	61386239	5	2	114	1	0	0	0	0	0	0	1	0	10710	1159	40	4	923	4	NTSR1	20	61386239	Splice_Site	SNP	G	TCGA-56-1622-01A-01D-1521-08	16745318	61386239	1639281	226	42141										
BIRC7	79444	broad.mit.edu	37	chr20	61869312	61869312	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gggcctgcagagctggaagcGcggggacgacccctggacgg	19	12	0	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr20:61869312G>A	uc002yej.2	+	2	580	c.407G>A	c.(406-408)CGC>CAC	p.R136H	BIRC7_uc010gkc.1_Missense_Mutation_p.R136H|BIRC7_uc002yei.2_Missense_Mutation_p.R136H|hsa-mir-3196|MI0014241_5'Flank	NM_139317	NP_647478	Q96CA5	BIRC7_HUMAN	livin inhibitor of apoptosis isoform alpha	136	BIR.				activation of JUN kinase activity|anti-apoptosis|DNA fragmentation involved in apoptotic nuclear change	cytoplasm|nucleus	enzyme binding|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3	all_cancers(38;2.72e-09)					AGCTGGAAGCGCGGGGACGAC	0.682													33	25	---	---	---	---	PASS	A	61869312	A	A	61869312	3	1	114	1	0	0	0	0	1	0	0	0	1439	1087	38	1	413	1	BIRC7	20	61869312	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	483073	61869312	1156208	227	42142										
CHRNA4	1137	broad.mit.edu	37	chr20	61981226	61981226	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ctcagccgagtgggtgttgcGagaggccagggcgccggcag	19	11	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr20:61981226G>T	uc002yes.2	-	5	1715	c.1537C>A	c.(1537-1539)CGC>AGC	p.R513S	CHRNA4_uc002yet.1_Missense_Mutation_p.R337S|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.R442S|CHRNA4_uc002yev.1_Missense_Mutation_p.R337S|CHRNA4_uc010gkf.1_Missense_Mutation_p.R337S	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	513	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	TGGGTGTTGCGAGAGGCCAGG	0.687													6	19	---	---	---	---	PASS	T	61981226	T	T	61981226	3	4	114	1	0	0	0	0	1	0	0	0	3385	1058	37	2	354	2	CHRNA4	20	61981226	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	111914	61981226	1044294	228	42143										
ARFRP1	10139	broad.mit.edu	37	chr20	62337709	62337709	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tcctggccagggagtcttacCttgtcccacaaagactgcag	10	13	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr20:62337709C>A	uc002yga.2	-	3	831	c.264G>T	c.(262-264)AAG>AAT	p.K88N	ARFRP1_uc002ygc.2_Missense_Mutation_p.K88N|ARFRP1_uc002ygh.3_Missense_Mutation_p.K88N|ARFRP1_uc011abf.1_Missense_Mutation_p.K88N|ARFRP1_uc011abg.1_Missense_Mutation_p.K88N|ARFRP1_uc002yge.2_RNA|ARFRP1_uc002ygd.2_RNA|ARFRP1_uc002ygf.2_Missense_Mutation_p.K88N|ARFRP1_uc002ygg.2_RNA|ARFRP1_uc011abh.1_RNA|ZGPAT_uc002ygi.2_5'Flank|ZGPAT_uc002ygj.2_5'Flank|ZGPAT_uc002ygk.2_5'Flank|ZGPAT_uc010gkk.1_5'Flank|ZGPAT_uc010gkl.1_5'Flank|ZGPAT_uc002ygm.2_5'Flank|ZGPAT_uc002ygn.3_5'Flank	NM_003224	NP_003215	Q13795	ARFRP_HUMAN	ADP-ribosylation factor related protein 1	88					small GTPase mediated signal transduction	Golgi apparatus|membrane fraction	GTP binding|GTPase activity			breast(1)|skin(1)	2	all_cancers(38;9.53e-13)|all_epithelial(29;2.64e-14)|Lung NSC(23;7e-10)|all_lung(23;2.53e-09)		Epithelial(9;4.09e-08)|all cancers(9;1.7e-07)|OV - Ovarian serous cystadenocarcinoma(5;0.0102)			GGAGTCTTACCTTGTCCCACA	0.592													114	204	---	---	---	---	PASS	A	62337709	A	A	62337709	3	1	114	1	0	0	0	0	1	0	0	0	856	695	24	3	365	3	ARFRP1	20	62337709	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	356483	62337709	687811	229	42144										
TPTE	7179	broad.mit.edu	37	chr21	10908860	10908860	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	aaagatgtgtgcaaccagaaGtaaaatgagcaattgtcata	9	5	1	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr21:10908860G>A	uc002yip.1	-	23	1853	c.1485C>T	c.(1483-1485)TAC>TAT	p.Y495Y	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Silent_p.Y477Y|TPTE_uc002yir.1_Silent_p.Y457Y|TPTE_uc010gkv.1_Silent_p.Y357Y	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	495	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		GCAACCAGAAGTAAAATGAGC	0.284													9	38	---	---	---	---	PASS	A	10908860	A	A	10908860	2	1	114	1	0	0	0	0	0	0	0	1	16427	1024	36	3		3	TPTE	21	10908860	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08		10908860	37221035	230	42145										
LIPI	149998	broad.mit.edu	37	chr21	15554171	15554171	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tggagaaccttggcccagcaGggtcaagacctggaaagcaa	13	10	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr21:15554171G>T	uc002yjm.2	-	4	624	c.614C>A	c.(613-615)CCT>CAT	p.P205H	LIPI_uc010gkw.1_Missense_Mutation_p.P138H	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	184					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		TGGCCCAGCAGGGTCAAGACC	0.398													36	78	---	---	---	---	PASS	T	15554171	T	T	15554171	3	4	114	1	0	0	0	0	1	0	0	0	8825	1000	35	3	859	3	LIPI	21	15554171	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	4645311	15554171	32575724	231	42146										
TMPRSS15	5651	broad.mit.edu	37	chr21	19737474	19737474	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	taccgtatgatccactggcaGacaacacttgtttcagaagg	9	10	1	3			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr21:19737474G>T	uc002ykw.2	-	7	787	c.756C>A	c.(754-756)GTC>GTA	p.V252V		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	252	Extracellular (Potential).|CUB 1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TCCACTGGCAGACAACACTTG	0.368													135	186	---	---	---	---	PASS	T	19737474	T	T	19737474	2	4	114	1	0	0	0	0	0	0	0	1	16243	929	33	2		2	TMPRSS15	21	19737474	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	4183303	19737474	28392421	232	42147										
MRAP	56246	broad.mit.edu	37	chr21	33678949	33678949	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gatgcatctcctcctcccgcAgattccatcgtgatcgcatt	7	15	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr21:33678949A>G	uc002ypj.2	+	4	294	c.107_splice	c.e4-2	p.H36_splice	MRAP_uc002ypk.2_Splice_Site_p.H36_splice|MRAP_uc011ado.1_Splice_Site|MRAP_uc002ypl.2_Splice_Site_p.H36_splice|uc002ypm.2_RNA	NM_178817	NP_848932	Q8TCY5	MRAP_HUMAN	melanocortin 2 receptor accessory protein						positive regulation of cAMP biosynthetic process|protein localization at cell surface	endoplasmic reticulum|integral to membrane|perinuclear region of cytoplasm|plasma membrane	corticotropin hormone receptor binding|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding|type 5 melanocortin receptor binding				0						CTCCTCCCGCAGATTCCATCG	0.567													83	60	---	---	---	---	PASS	G	33678949	G	G	33678949	5	3	114	1	0	0	0	0	0	0	1	0	9753	202	7	5	111	5	MRAP	21	33678949	Splice_Site	SNP	A	TCGA-56-1622-01A-01D-1521-08	13941475	33678949	14450946	233	42148										
SIM2	6493	broad.mit.edu	37	chr21	38115753	38115753	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cactgccaagtcccaggactCctggaggaccgccttgtcta	10	15	1	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr21:38115753C>T	uc002yvr.2	+	9	1120	c.1064C>T	c.(1063-1065)TCC>TTC	p.S355F	SIM2_uc002yvq.2_Missense_Mutation_p.S355F	NM_005069	NP_005060	Q14190	SIM2_HUMAN	single-minded homolog 2 long isoform	355	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(1)	1						TCCCAGGACTCCTGGAGGACC	0.512													128	23	---	---	---	---	PASS	T	38115753	T	T	38115753	3	4	114	1	0	0	0	0	1	0	0	0	14324	855	30	2	1098	2	SIM2	21	38115753	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	4436804	38115753	10014142	234	42149										
KCNJ15	3772	broad.mit.edu	37	chr21	39671448	39671448	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gagtcatctactatgccatcGcgtttattcatggggactta	9	9	3	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr21:39671448G>A	uc002ywv.2	+	4	567	c.265G>A	c.(265-267)GCG>ACG	p.A89T	KCNJ15_uc002yww.2_Missense_Mutation_p.A89T|KCNJ15_uc002ywx.2_Missense_Mutation_p.A89T	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	89	Extracellular (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						CTATGCCATCGCGTTTATTCA	0.478													11	138	---	---	---	---	PASS	A	39671448	A	A	39671448	3	1	114	1	0	0	0	0	1	0	0	0	8049	1087	38	1	267	1	KCNJ15	21	39671448	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	1555695	39671448	8458447	235	42150										
PCNT	5116	broad.mit.edu	37	chr21	47754463	47754463	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	acagtcggtgaccacccaccAgaacagcgtgggatgttcac	11	13	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr21:47754463A>G	uc002zji.3	+	3	527	c.420A>G	c.(418-420)CCA>CCG	p.P140P	PCNT_uc002zjj.2_Silent_p.P22P|PCNT_uc010gqk.1_RNA	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	140					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					ACCACCCACCAGAACAGCGTG	0.542													4	65	---	---	---	---	PASS	G	47754463	G	G	47754463	2	3	114	1	0	0	0	0	0	0	0	1	11590	175	7	5		5	PCNT	21	47754463	Silent	SNP	A	TCGA-56-1622-01A-01D-1521-08	8083015	47754463	375432	236	42151										
KREMEN1	83999	broad.mit.edu	37	chr22	29538035	29538035	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agccttccacttcaatttccAtctttaagaagaaactcaag	4	11	3	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr22:29538035A>G	uc011akm.1	+	9	1376	c.1363A>G	c.(1363-1365)ATC>GTC	p.I455V	KREMEN1_uc003ael.2_Missense_Mutation_p.I438V|KREMEN1_uc011akn.1_Missense_Mutation_p.I338V	NM_032045	NP_114434	Q96MU8	KREM1_HUMAN	kringle-containing transmembrane protein 1	453	Cytoplasmic (Potential).				cell communication|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane|membrane fraction	protein binding			ovary(3)|lung(2)	5						TTCAATTTCCATCTTTAAGAA	0.478													76	145	---	---	---	---	PASS	G	29538035	G	G	29538035	3	3	114	1	0	0	0	0	1	0	0	0	8442	217	8	5	1397	5	KREMEN1	22	29538035	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08		29538035	21766531	237	42152										
MKL1	57591	broad.mit.edu	37	chr22	40825653	40825653	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gactcaacaggaaggatgttCttctccaccagctccatggg	10	12	3	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr22:40825653C>T	uc003ayv.1	-	4	465	c.258G>A	c.(256-258)AAG>AAA	p.K86K	MKL1_uc003ayw.1_Silent_p.K86K|MKL1_uc010gye.1_Silent_p.K86K|MKL1_uc010gyf.1_Silent_p.K86K	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	86	RPEL 2.|Mediates interaction with SCAI and ACTB (By similarity).				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GAAGGATGTTCTTCTCCACCA	0.582			T	RBM15	acute megakaryocytic leukemia								45	120	---	---	---	---	PASS	T	40825653	T	T	40825653	2	4	114	1	0	0	0	0	0	0	0	1	9601	912	32	2		2	MKL1	22	40825653	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	11287618	40825653	10478913	238	42153										
EP300	2033	broad.mit.edu	37	chr22	41565527	41565527	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gagagtatacatatcttaccTcgatagtgttcatttcttcc	6	9	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr22:41565527T>C	uc003azl.3	+	26	4588	c.4193T>C	c.(4192-4194)CTC>CCC	p.L1398P		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1398					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						ATATCTTACCTCGATAGTGTT	0.343			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				138	202	---	---	---	---	PASS	C	41565527	C	C	41565527	3	2	114	1	0	0	0	0	1	0	0	0	5148	1551	54	5	4295	5	EP300	22	41565527	Missense_Mutation	SNP	T	TCGA-56-1622-01A-01D-1521-08	739874	41565527	9739039	239	42154										
SHANK3	85358	broad.mit.edu	37	chr22	51160645	51160645	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cctctgccgccgggcctgccCgccctcgctacctcttccag	9	22	2	0			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chr22:51160645C>A	uc003bne.1	+	22	4432	c.4432C>A	c.(4432-4434)CGC>AGC	p.R1478S	SHANK3_uc003bnf.1_Missense_Mutation_p.R925S|SHANK3_uc010hbg.1_Missense_Mutation_p.R660S	NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	1478										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		CGGGCCTGCCCGCCCTCGCTA	0.682													17	27	---	---	---	---	PASS	A	51160645	A	A	51160645	3	1	114	1	0	0	0	0	1	0	0	0	14266	652	23	1	4518	1	SHANK3	22	51160645	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	9595118	51160645	143921	240	42155										
CRLF2	64109	broad.mit.edu	37	chrX	1325342	1325342	+	RNA	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	ttacggtaataaaccatccaGcgacttgcggtgaaaacggg	11	9	0	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chrX:1325342G>T	uc004cpm.1	-	3		c.333C>A						Q9HC73	CRLF2_HUMAN	Homo sapiens mRNA for IL-XR, complete cds.							extracellular region|integral to membrane|plasma membrane	receptor activity			haematopoietic_and_lymphoid_tissue(7)	7		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				AAACCATCCAGCGACTTGCGG	0.488			Mis|T	P2RY8|IGH@	B-ALL|Downs associated ALL								78	133	---	---	---	---	PASS	T	1325342	T	T	1325342	1	4	114	0	1	0	0	0	0	0	0	0	3887	958	34	3		3	CRLF2	23	1325342	RNA	SNP	G	TCGA-56-1622-01A-01D-1521-08		1325342	153945218	241	42156										
NHS	4810	broad.mit.edu	37	chrX	17745612	17745612	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	actgaggtcgaatcctccacCgtcccttgcaattacaccaa	6	15	0	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chrX:17745612C>T	uc004cxx.2	+	6	3661	c.3323C>T	c.(3322-3324)CCG>CTG	p.P1108L	NHS_uc011mix.1_Missense_Mutation_p.P1129L|NHS_uc004cxy.2_Missense_Mutation_p.P952L|NHS_uc004cxz.2_Missense_Mutation_p.P931L|NHS_uc004cya.2_Missense_Mutation_p.P831L	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1108						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					AATCCTCCACCGTCCCTTGCA	0.408													123	18	---	---	---	---	PASS	T	17745612	T	T	17745612	3	4	114	1	0	0	0	0	1	0	0	0	10411	652	23	1	3450	1	NHS	23	17745612	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	16420270	17745612	137524948	242	42157										
CYBB	1536	broad.mit.edu	37	chrX	37642781	37642781	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agggcccctgcagcctgcctGaatttcaactgcatgctgat	10	13	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chrX:37642781G>C	uc004ddr.2	+	3	241	c.180G>C	c.(178-180)CTG>CTC	p.L60L	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Silent_p.L28L|CYBB_uc011mkg.1_5'UTR	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	60	Helical; (Potential).|Ferric oxidoreductase.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						CAGCCTGCCTGAATTTCAACT	0.517													57	12	---	---	---	---	PASS	C	37642781	C	C	37642781	2	2	114	1	0	0	0	0	0	0	0	1	4133	1277	45	2		2	CYBB	23	37642781	Silent	SNP	G	TCGA-56-1622-01A-01D-1521-08	19897169	37642781	117627779	243	42158										
DUSP21	63904	broad.mit.edu	37	chrX	44703624	44703624	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gctcgtgactcgcgtctctaCgacttttttgaccccattgc	8	14	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chrX:44703624C>T	uc004dgd.2	+	1	376	c.246C>T	c.(244-246)TAC>TAT	p.Y82Y		NM_022076	NP_071359	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	82	Tyrosine-protein phosphatase.|Sufficient for mitochondrial localization (By similarity).					cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			large_intestine(1)|lung(1)	2						CGCGTCTCTACGACTTTTTTG	0.542													72	11	---	---	---	---	PASS	T	44703624	T	T	44703624	2	4	114	1	0	0	0	0	0	0	0	1	4820	547	19	1		1	DUSP21	23	44703624	Silent	SNP	C	TCGA-56-1622-01A-01D-1521-08	7060843	44703624	110566936	244	42159										
ITIH5L	347365	broad.mit.edu	37	chrX	54784798	54784798	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	agtgtgcatccagcagttctCcaatggtgacataggcccag	11	11	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chrX:54784798C>T	uc004dtj.2	-	8	1739	c.1709G>A	c.(1708-1710)GGA>GAA	p.G570E		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	570					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						CAGCAGTTCTCCAATGGTGAC	0.587													35	3	---	---	---	---	PASS	T	54784798	T	T	54784798	3	4	114	1	0	0	0	0	1	0	0	0	7908	855	30	2	2256	2	ITIH5L	23	54784798	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	10081174	54784798	100485762	245	42160										
STARD8	9754	broad.mit.edu	37	chrX	67938352	67938352	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	gcctcctccagcgaacttgaCagtagtgggaactccatgaa	10	12	0	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chrX:67938352C>A	uc004dxa.2	+	5	1728	c.1356C>A	c.(1354-1356)GAC>GAA	p.D452E	STARD8_uc004dxb.2_Missense_Mutation_p.D532E|STARD8_uc004dxc.3_Missense_Mutation_p.D452E	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	452					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						GCGAACTTGACAGTAGTGGGA	0.597													43	0	---	---	---	---	PASS	A	67938352	A	A	67938352	3	1	114	1	0	0	0	0	1	0	0	0	15262	477	17	3	1618	3	STARD8	23	67938352	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	13153554	67938352	87332208	246	42161										
PCDH11X	27328	broad.mit.edu	37	chrX	91873458	91873458	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	tactcagcaccacagcccacGagtgacacagaccattgctc	7	16	1	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chrX:91873458G>T	uc004efk.1	+	7	4408	c.3563G>T	c.(3562-3564)CGA>CTA	p.R1188L	PCDH11X_uc004efl.1_Missense_Mutation_p.R1178L|PCDH11X_uc004efo.1_Missense_Mutation_p.R1151L|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Missense_Mutation_p.R1180L|PCDH11X_uc004efn.1_Missense_Mutation_p.R1170L	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1188	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CACAGCCCACGAGTGACACAG	0.592													116	21	---	---	---	---	PASS	T	91873458	T	T	91873458	3	4	114	1	0	0	0	0	1	0	0	0	11508	1058	37	2	3711	2	PCDH11X	23	91873458	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	23935106	91873458	63397102	247	42162										
TEX13B	56156	broad.mit.edu	37	chrX	107225170	107225170	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cccaggtgcaggcctctttgAcctcgctgggcacctcgctg	12	16	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chrX:107225170A>G	uc004enn.1	-	2	281	c.188T>C	c.(187-189)GTC>GCC	p.V63A		NM_031273	NP_112563	Q9BXU2	TX13B_HUMAN	testis expressed 13B	63										ovary(1)	1						GGCCTCTTTGACCTCGCTGGG	0.597													120	11	---	---	---	---	PASS	G	107225170	G	G	107225170	3	3	114	1	0	0	0	0	1	0	0	0	15774	275	10	5	758	5	TEX13B	23	107225170	Missense_Mutation	SNP	A	TCGA-56-1622-01A-01D-1521-08	15351712	107225170	48045390	248	42163										
C1GALT1C1	29071	broad.mit.edu	37	chrX	119760819	119760819	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	caaggataatacagtatactCgaaagctcttactgagctcc	7	10	1	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chrX:119760819C>T	uc004esy.2	-	3	550	c.203G>A	c.(202-204)CGA>CAA	p.R68Q	C1GALT1C1_uc004esz.2_Missense_Mutation_p.R68Q	NM_152692	NP_689905	Q96EU7	C1GLC_HUMAN	C1GALT1-specific chaperone 1	68	Lumenal (Potential).					integral to membrane					0						ACAGTATACTCGAAAGCTCTT	0.423													91	11	---	---	---	---	PASS	T	119760819	T	T	119760819	3	4	114	1	0	0	0	0	1	0	0	0	1953	884	31	2	757	2	C1GALT1C1	23	119760819	Missense_Mutation	SNP	C	TCGA-56-1622-01A-01D-1521-08	12535649	119760819	35509741	249	42164										
SLITRK2	84631	broad.mit.edu	37	chrX	144905786	144905786	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	cctatcctgaactacacactGaagttccactgtctgtctta	5	13	2	2			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chrX:144905786G>C	uc004fcd.2	+	5	2833	c.1843G>C	c.(1843-1845)GAA>CAA	p.E615Q	SLITRK2_uc010nsp.2_Missense_Mutation_p.E615Q|SLITRK2_uc010nso.2_Missense_Mutation_p.E615Q|SLITRK2_uc011mwq.1_Missense_Mutation_p.E615Q|SLITRK2_uc011mwr.1_Missense_Mutation_p.E615Q|SLITRK2_uc011mws.1_Missense_Mutation_p.E615Q|SLITRK2_uc004fcg.2_Missense_Mutation_p.E615Q|SLITRK2_uc011mwt.1_Missense_Mutation_p.E615Q	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	615	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					ACTACACACTGAAGTTCCACT	0.433													99	6	---	---	---	---	PASS	C	144905786	C	C	144905786	3	2	114	1	0	0	0	0	1	0	0	0	14743	1291	45	2	1845	2	SLITRK2	23	144905786	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	25144967	144905786	10364774	250	42165										
SPRY3	10251	broad.mit.edu	37	chrX	155003826	155003826	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0532786885245902	13	0.669894239350224	0.956787533712916	1.19281204468188	0.85148429035753	0.505475577859527	0.81842946137857	0	caccactgcctctgatcaaaGgctcttggccagcattacac	7	15	3	1			TCGA-56-1622-01A-01D-1521-08	TCGA-56-1622-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	0bbc7ede-5022-4084-925c-d65baaf7abc2	afd79911-90ac-42a9-bfba-578d52679cb0	g.chrX:155003826G>T	uc004fnq.1	+	2	747	c.293G>T	c.(292-294)AGG>ATG	p.R98M	SPRY3_uc010nvl.1_Intron	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	98					multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TCTGATCAAAGGCTCTTGGCC	0.557													76	119	---	---	---	---	PASS	T	155003826	T	T	155003826	3	4	114	1	0	0	0	0	1	0	0	0	15106	1000	35	3	295	3	SPRY3	23	155003826	Missense_Mutation	SNP	G	TCGA-56-1622-01A-01D-1521-08	10098040	155003826	266734	251	42166										
PRDM2	7799	broad.mit.edu	37	chr1	14109273	14109273	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ctggcagctgctgctgacttGagtgagaacaagagagagga	15	7	0	5			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr1:14109273G>C	uc001avi.2	+	8	5839	c.4983G>C	c.(4981-4983)TTG>TTC	p.L1661F	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.L1661F|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.L1460F|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1661						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		CTGCTGACTTGAGTGAGAACA	0.562													4	24	---	---	---	---	PASS	C	14109273	C	C	14109273	3	2	115	1	0	0	0	0	1	0	0	0	12458	1281	45	2	5009	2	PRDM2	1	14109273	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08		14109273	235141348	1	42167										
DDI2	84301	broad.mit.edu	37	chr1	15956921	15956921	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	agtcccactcatctcctggaGaaataacttcatctcctcag	5	14	5	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr1:15956921G>C	uc001awx.1	+	3	466	c.370G>C	c.(370-372)GAA>CAA	p.E124Q	DDI2_uc001aww.2_Missense_Mutation_p.E124Q|DDI2_uc009voj.1_5'UTR	NM_032341	NP_115717	Q5TDH0	DDI2_HUMAN	DNA-damage inducible protein 2	124					proteolysis		aspartic-type endopeptidase activity				0		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00327)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.03e-07)|COAD - Colon adenocarcinoma(227;4.48e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		ATCTCCTGGAGAAATAACTTC	0.542													10	55	---	---	---	---	PASS	C	15956921	C	C	15956921	3	2	115	1	0	0	0	0	1	0	0	0	4329	943	33	2	380	2	DDI2	1	15956921	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	1847648	15956921	233293700	2	42168										
CSMD2	114784	broad.mit.edu	37	chr1	34190220	34190220	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tcacagctgaaggtcaccagCgcgcccacgtagaagtcatt	10	13	3	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr1:34190220C>T	uc001bxn.1	-	18	2690	c.2661G>A	c.(2659-2661)GCG>GCA	p.A887A	CSMD2_uc001bxm.1_Silent_p.A927A	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	887	Sushi 5.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AGGTCACCAGCGCGCCCACGT	0.567													6	40	---	---	---	---	PASS	T	34190220	T	T	34190220	2	4	115	1	0	0	0	0	0	0	0	1	3945	755	27	1		1	CSMD2	1	34190220	Silent	SNP	C	TCGA-56-5897-01A-11D-1632-08	18233299	34190220	215060401	3	42169										
SYT6	148281	broad.mit.edu	37	chr1	114680442	114680442	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ggtcaaaagccttcaggataCgcacaatcagggtctcggtc	11	11	4	0	rs139165674	byFrequency	TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr1:114680442C>T	uc001eev.2	-	3	741	c.491G>A	c.(490-492)CGT>CAT	p.R164H		NM_205848	NP_995320	Q5T7P8	SYT6_HUMAN	synaptotagmin VI	249	Cytoplasmic (Potential).|C2 1.				acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTTCAGGATACGCACAATCAG	0.542													5	53	---	---	---	---	PASS	T	114680442	T	T	114680442	3	4	115	1	0	0	0	0	1	0	0	0	15475	536	19	1	806	1	SYT6	1	114680442	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	80490222	114680442	134570179	4	42170										
OR10X1	128367	broad.mit.edu	37	chr1	158549354	158549354	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	aagcacatctgtaagctacaAcctgtgactgaaatgcttct	7	10	2	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr1:158549354A>T	uc010pin.1	-	1	336	c.336T>A	c.(334-336)GGT>GGA	p.G112G		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	112	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GTAAGCTACAACCTGTGACTG	0.488													9	36	---	---	---	---	PASS	T	158549354	T	T	158549354	2	4	115	1	0	0	0	0	0	0	0	1	10922	30	2	5		5	OR10X1	1	158549354	Silent	SNP	A	TCGA-56-5897-01A-11D-1632-08	43868912	158549354	90701267	5	42171										
F5	2153	broad.mit.edu	37	chr1	169511232	169511232	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tgtgtgtgcttctcttttttCttttttcgtgtcttaatgag	8	6	3	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr1:169511232C>G	uc001ggg.1	-	13	3241	c.3096G>C	c.(3094-3096)AAG>AAC	p.K1032N		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1032	B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TCTCTTTTTTCTTTTTTCGTG	0.393													8	217	---	---	---	---	PASS	G	169511232	G	G	169511232	3	3	115	1	0	0	0	0	1	0	0	0	5348	912	32	2	3630	2	F5	1	169511232	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	10961878	169511232	79739389	6	42172										
RASAL2	9462	broad.mit.edu	37	chr1	178426894	178426894	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ggaaaacattattgctggttCagcaagcctcctctcagagc	9	11	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr1:178426894C>G	uc001glr.2	+	12	2169	c.2044C>G	c.(2044-2046)CAG>GAG	p.Q682E	RASAL2_uc001glq.2_Missense_Mutation_p.Q823E|RASAL2_uc009wxc.2_Missense_Mutation_p.Q196E	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	682					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						ATTGCTGGTTCAGCAAGCCTC	0.458													8	64	---	---	---	---	PASS	G	178426894	G	G	178426894	3	3	115	1	0	0	0	0	1	0	0	0	13064	827	29	2	2559	2	RASAL2	1	178426894	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	8915662	178426894	70823727	7	42173										
FCAMR	83953	broad.mit.edu	37	chr1	207139122	207139122	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gcctgagtgttcccatggccCggagatgggtcctggagggg	18	10	0	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr1:207139122C>A	uc001hfa.3	-	4	751	c.251G>T	c.(250-252)CGG>CTG	p.R84L	FCAMR_uc001hfb.2_Missense_Mutation_p.R84L|FCAMR_uc009xca.1_Missense_Mutation_p.R84L|FCAMR_uc001hfc.2_Missense_Mutation_p.R59L	NM_001122980	NP_001116452	Q8WWV6	FCAMR_HUMAN	Fc receptor, IgA, IgM, high affinity isoform 2	39	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)	1						TCCCATGGCCCGGAGATGGGT	0.592													6	19	---	---	---	---	PASS	A	207139122	A	A	207139122	3	1	115	1	0	0	0	0	1	0	0	0	5772	652	23	1	1502	1	FCAMR	1	207139122	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	28712228	207139122	42111499	8	42174										
CABC1	56997	broad.mit.edu	37	chr1	227152766	227152766	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ccagaaggggagttccacttCtcagtcccgcatgcagccgg	12	14	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr1:227152766C>G	uc001hqm.1	+	8	3662	c.243C>G	c.(241-243)TTC>TTG	p.F81L	CABC1_uc010pvp.1_Missense_Mutation_p.F44L|CABC1_uc001hqn.1_Missense_Mutation_p.F81L|CABC1_uc009xeq.1_Missense_Mutation_p.F29L|CABC1_uc010pvq.1_Intron|CABC1_uc010pvr.1_5'Flank	NM_020247	NP_064632	Q8NI60	ADCK3_HUMAN	chaperone, ABC1 activity of bc1 complex like	81					cell death	mitochondrion	ATP binding|protein serine/threonine kinase activity				0		Prostate(94;0.0771)				AGTTCCACTTCTCAGTCCCGC	0.597													8	38	---	---	---	---	PASS	G	227152766	G	G	227152766	3	3	115	1	0	0	0	0	1	0	0	0	2527	912	32	2	249	2	CABC1	1	227152766	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	20013644	227152766	22097855	9	42175										
AGBL5	60509	broad.mit.edu	37	chr2	27276797	27276797	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	agtttgtgttatcctttgttCatcgtttcgtggagggccgt	12	7	1	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr2:27276797C>T	uc002rie.2	+	4	638	c.421C>T	c.(421-423)CAT>TAT	p.H141Y	AGBL5_uc002ric.2_Missense_Mutation_p.H141Y|AGBL5_uc002rid.2_Missense_Mutation_p.H141Y|AGBL5_uc002rif.2_RNA	NM_021831	NP_068603	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5 isoform 1	141					protein branching point deglutamylation|proteolysis	cytosol|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATCCTTTGTTCATCGTTTCGT	0.552													4	95	---	---	---	---	PASS	T	27276797	T	T	27276797	3	4	115	1	0	0	0	0	1	0	0	0	378	826	29	2	431	2	AGBL5	2	27276797	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08		27276797	215922576	10	42176										
MTA3	57504	broad.mit.edu	37	chr2	42935192	42935192	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tatctcctagcccaactacaGaggtacagtagtctttttag	7	10	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr2:42935192G>C	uc002rso.1	+	14	1799	c.1129G>C	c.(1129-1131)GAG>CAG	p.E377Q	MTA3_uc002rsp.1_Missense_Mutation_p.E377Q|MTA3_uc002rsq.2_Missense_Mutation_p.E434Q|MTA3_uc002rsr.2_Missense_Mutation_p.E433Q	NM_020744	NP_065795	Q9BTC8	MTA3_HUMAN	metastasis associated 1 family, member 3	434						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						CCCAACTACAGAGGTACAGTA	0.343													4	39	---	---	---	---	PASS	C	42935192	C	C	42935192	3	2	115	1	0	0	0	0	1	0	0	0	9910	943	33	2	1350	2	MTA3	2	42935192	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	15658395	42935192	200264181	11	42177										
NEB	4703	broad.mit.edu	37	chr2	152529046	152529046	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ccccaggggtatggtagctgGttttggtgttctcatagttc	13	8	1	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr2:152529046G>T	uc010fnx.2	-	37	4327	c.4136C>A	c.(4135-4137)ACC>AAC	p.T1379N		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1379					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		ATGGTAGCTGGTTTTGGTGTT	0.473													4	77	---	---	---	---	PASS	T	152529046	T	T	152529046	3	4	115	1	0	0	0	0	1	0	0	0	10302	1261	44	3	22134	3	NEB	2	152529046	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	109593854	152529046	90670327	12	42178										
PKP4	8502	broad.mit.edu	37	chr2	159477760	159477760	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	caggatcattgggtaactcaAgaagttcaacacaaatgaat	8	7	3	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr2:159477760A>G	uc002tzv.2	+	6	690	c.430A>G	c.(430-432)AGA>GGA	p.R144G	PKP4_uc002tzt.1_5'UTR|PKP4_uc002tzu.2_Missense_Mutation_p.R144G|PKP4_uc002tzw.2_Missense_Mutation_p.R144G|PKP4_uc002tzx.2_5'UTR|PKP4_uc002tzy.1_5'UTR|PKP4_uc002tzz.1_Missense_Mutation_p.R142G|PKP4_uc002uaa.2_5'UTR	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	144					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						GGGTAACTCAAGAAGTTCAAC	0.393										HNSCC(62;0.18)			6	62	---	---	---	---	PASS	G	159477760	G	G	159477760	3	3	115	1	0	0	0	0	1	0	0	0	11987	64	3	5	448	5	PKP4	2	159477760	Missense_Mutation	SNP	A	TCGA-56-5897-01A-11D-1632-08	6948714	159477760	83721613	13	42179										
RAPGEF4	11069	broad.mit.edu	37	chr2	173883491	173883491	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ttgccgacaagctgggctccGgggagggcctgatcatagtc	15	11	1	1	rs61741755		TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr2:173883491G>A	uc002uhv.3	+	22	2303	c.2116G>A	c.(2116-2118)GGG>AGG	p.G706R	RAPGEF4_uc002uhw.3_Missense_Mutation_p.G562R	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	706					blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			GCTGGGCTCCGGGGAGGGCCT	0.502													8	56	---	---	---	---	PASS	A	173883491	A	A	173883491	3	1	115	1	0	0	0	0	1	0	0	0	13046	1116	39	1	2218	1	RAPGEF4	2	173883491	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	14405731	173883491	69315882	14	42180										
NFE2L2	4780	broad.mit.edu	37	chr2	178098810	178098810	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tgggagaaattcacctgtctCttcatctagttgtaactgag	9	8	4	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr2:178098810C>G	uc002ulh.3	-	2	790	c.235G>C	c.(235-237)GAG>CAG	p.E79Q	NFE2L2_uc002ulg.3_Missense_Mutation_p.E63Q|NFE2L2_uc010zfa.1_Missense_Mutation_p.E63Q|NFE2L2_uc002uli.3_Missense_Mutation_p.E63Q|NFE2L2_uc010fra.2_Missense_Mutation_p.E63Q|NFE2L2_uc010frb.2_Missense_Mutation_p.E63Q	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	79					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			TCACCTGTCTCTTCATCTAGT	0.443			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			11	52	---	---	---	---	PASS	G	178098810	G	G	178098810	3	3	115	1	0	0	0	0	1	0	0	0	10368	922	32	2	1598	2	NFE2L2	2	178098810	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	4215319	178098810	65100563	15	42181										
TTN	7273	broad.mit.edu	37	chr2	179515558	179515558	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	caggtttctttggcacttctGgcactttaaagatattaatt	7	7	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr2:179515558G>T	uc010zfg.1	-	163	32551	c.32327C>A	c.(32326-32328)CCA>CAA	p.P10776Q	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc010fre.1_Intron|TTN_uc002umw.1_RNA|TTN_uc002umx.1_5'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11703							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)			TGGCACTTCTGGCACTTTAAA	0.413													3	6	---	---	---	---	PASS	T	179515558	T	T	179515558	3	4	115	1	0	0	0	0	1	0	0	0	16732	1348	47	3	68258	3	TTN	2	179515558	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	1416748	179515558	63683815	16	42182										
PMS1	5378	broad.mit.edu	37	chr2	190728905	190728905	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ttaaaagacttcttgagaatCataaacttcctgcagagcca	6	9	2	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr2:190728905C>T	uc002urh.3	+	10	2822	c.2293C>T	c.(2293-2295)CAT>TAT	p.H765Y	PMS1_uc010zgb.1_Missense_Mutation_p.H704Y|PMS1_uc002urk.3_Missense_Mutation_p.H726Y|PMS1_uc002uri.3_Intron|PMS1_uc010zgc.1_Missense_Mutation_p.H589Y|PMS1_uc010zgd.1_Missense_Mutation_p.H589Y|PMS1_uc002urj.2_Intron|PMS1_uc010fry.1_Intron|PMS1_uc010frz.2_Intron|PMS1_uc002url.2_Intron|PMS1_uc002urm.2_Intron	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	765					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			TCTTGAGAATCATAAACTTCC	0.323			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					9	165	---	---	---	---	PASS	T	190728905	T	T	190728905	3	4	115	1	0	0	0	0	1	0	0	0	12142	826	29	2	2327	2	PMS1	2	190728905	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	11213347	190728905	52470468	17	42183										
OBFC2A	64859	broad.mit.edu	37	chr2	192550416	192550416	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ggacttataaatccacaactAcaaggaacagctagtaatca	6	9	1	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr2:192550416A>G	uc002usx.2	+	6	1017	c.537A>G	c.(535-537)CTA>CTG	p.L179L	OBFC2A_uc002usw.2_Silent_p.L99L|OBFC2A_uc002usy.2_RNA|OBFC2A_uc002usz.2_RNA|OBFC2A_uc002uta.2_Silent_p.L93L	NM_001031716	NP_001026886	Q96AH0	SOSB2_HUMAN	oligonucleotide/oligosaccharide-binding fold	179					double-strand break repair via homologous recombination|G2/M transition checkpoint|response to ionizing radiation	SOSS complex	single-stranded DNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.061)|Epithelial(96;0.244)			ATCCACAACTACAAGGAACAG	0.438													4	28	---	---	---	---	PASS	G	192550416	G	G	192550416	2	3	115	1	0	0	0	0	0	0	0	1	10808	378	14	5		5	OBFC2A	2	192550416	Silent	SNP	A	TCGA-56-5897-01A-11D-1632-08	1821511	192550416	50648957	18	42184										
SCN10A	6336	broad.mit.edu	37	chr3	38739099	38739099	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	atggggtgttagagagtgccAtggagcggtgcagcacatag	17	6	0	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr3:38739099A>G	uc003ciq.2	-	27	5612	c.5612T>C	c.(5611-5613)ATG>ACG	p.M1871T		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1871	IQ.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	AGAGAGTGCCATGGAGCGGTG	0.488													15	56	---	---	---	---	PASS	G	38739099	G	G	38739099	3	3	115	1	0	0	0	0	1	0	0	0	13912	217	8	5	262	5	SCN10A	3	38739099	Missense_Mutation	SNP	A	TCGA-56-5897-01A-11D-1632-08		38739099	159283331	19	42185										
BSN	8927	broad.mit.edu	37	chr3	49688345	49688345	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	agaccccaagcagtgtccagGaaaagaagacccgagtcccc	10	14	0	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr3:49688345G>A	uc003cxe.3	+	4	1933	c.1819G>A	c.(1819-1821)GAA>AAA	p.E607K		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	607					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CAGTGTCCAGGAAAAGAAGAC	0.612													10	89	---	---	---	---	PASS	A	49688345	A	A	49688345	3	1	115	1	0	0	0	0	1	0	0	0	1530	1175	41	2	1833	2	BSN	3	49688345	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	10949246	49688345	148334085	20	42186										
BSN	8927	broad.mit.edu	37	chr3	49689252	49689252	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cactctccagcggtactggcGaggagcagaagcagcggccc	14	14	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr3:49689252G>A	uc003cxe.3	+	5	2377	c.2263G>A	c.(2263-2265)GAG>AAG	p.E755K		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	755					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CGGTACTGGCGAGGAGCAGAA	0.627													3	13	---	---	---	---	PASS	A	49689252	A	A	49689252	3	1	115	1	0	0	0	0	1	0	0	0	1530	1059	37	2	2281	2	BSN	3	49689252	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	907	49689252	148333178	21	42187										
FILIP1L	11259	broad.mit.edu	37	chr3	99569313	99569313	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ctgtaacgtctccctttcaaGcctcttattgagatctctgc	6	13	4	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr3:99569313G>T	uc003dtm.2	-	5	1670	c.1207C>A	c.(1207-1209)CTT>ATT	p.L403I	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.L403I|FILIP1L_uc010hpf.2_Intron|FILIP1L_uc010hpg.2_Missense_Mutation_p.L163I|FILIP1L_uc003dtn.2_Missense_Mutation_p.L163I|FILIP1L_uc003dtp.1_Missense_Mutation_p.L163I	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	403	Potential.					cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						TCCCTTTCAAGCCTCTTATTG	0.408													5	224	---	---	---	---	PASS	T	99569313	T	T	99569313	3	4	115	1	0	0	0	0	1	0	0	0	5895	971	34	3	2229	3	FILIP1L	3	99569313	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	49880061	99569313	98453117	22	42188										
MBD4	8930	broad.mit.edu	37	chr3	129152022	129152022	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tgacacatctctccagtctgCggttcttgctacctcagctg	8	14	4	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr3:129152022C>T	uc003emh.1	-	6	1656	c.1480G>A	c.(1480-1482)GCA>ACA	p.A494T	MBD4_uc003emi.1_Missense_Mutation_p.A494T|MBD4_uc003emj.1_Missense_Mutation_p.A488T|MBD4_uc003emk.1_Missense_Mutation_p.A176T|MBD4_uc011bkw.1_Missense_Mutation_p.A494T	NM_003925	NP_003916	O95243	MBD4_HUMAN	methyl-CpG binding domain protein 4	494					depyrimidination	nucleoplasm	DNA N-glycosylase activity|endodeoxyribonuclease activity|protein binding|satellite DNA binding			ovary(1)|lung(1)	2						CTCCAGTCTGCGGTTCTTGCT	0.428								BER_DNA_glycosylases					5	110	---	---	---	---	PASS	T	129152022	T	T	129152022	3	4	115	1	0	0	0	0	1	0	0	0	9346	768	27	1	274	1	MBD4	3	129152022	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	29582709	129152022	68870408	23	42189										
ACPP	55	broad.mit.edu	37	chr3	132056300	132056300	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gatttttctcttatcctcagTtgctatacctgcctttcagg	6	11	3	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr3:132056300T>C	uc010htp.2	+	5	547	c.457T>C	c.(457-459)TTG>CTG	p.L153L	ACPP_uc003eon.3_Intron|ACPP_uc003eop.3_Silent_p.L153L	NM_001099	NP_001090	P15309	PPAP_HUMAN	acid phosphatase, prostate short isoform	153						extracellular region|lysosomal membrane	5'-nucleotidase activity|acid phosphatase activity			ovary(1)	1						TTATCCTCAGTTGCTATACCT	0.388													29	66	---	---	---	---	PASS	C	132056300	C	C	132056300	2	2	115	1	0	0	0	0	0	0	0	1	167	1739	60	5		5	ACPP	3	132056300	Silent	SNP	T	TCGA-56-5897-01A-11D-1632-08	2904278	132056300	65966130	24	42190										
VEPH1	79674	broad.mit.edu	37	chr3	157099020	157099020	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cggtgaagctgttgctcatgCggaagatgtctctgctctga	13	9	3	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr3:157099020C>T	uc003fbj.1	-	7	1369	c.1052G>A	c.(1051-1053)CGC>CAC	p.R351H	VEPH1_uc003fbk.1_Missense_Mutation_p.R351H|VEPH1_uc010hvu.1_Missense_Mutation_p.R351H	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	351						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			GTTGCTCATGCGGAAGATGTC	0.498													12	132	---	---	---	---	PASS	T	157099020	T	T	157099020	3	4	115	1	0	0	0	0	1	0	0	0	17151	768	27	1	1481	1	VEPH1	3	157099020	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	25042720	157099020	40923410	25	42191										
PEX5L	51555	broad.mit.edu	37	chr3	179593213	179593213	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	attggatgtcccttggtattTcgatctccatgaaacttaac	7	9	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr3:179593213T>C	uc003fki.1	-	6	688	c.558A>G	c.(556-558)CGA>CGG	p.R186R	PEX5L_uc011bqd.1_Silent_p.R143R|PEX5L_uc011bqe.1_5'UTR|PEX5L_uc011bqf.1_Silent_p.R78R|PEX5L_uc003fkj.1_Silent_p.R151R|PEX5L_uc010hxd.1_Silent_p.R184R|PEX5L_uc011bqg.1_Silent_p.R162R|PEX5L_uc011bqh.1_Silent_p.R127R	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	186					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			CCTTGGTATTTCGATCTCCAT	0.453													31	72	---	---	---	---	PASS	C	179593213	C	C	179593213	2	2	115	1	0	0	0	0	0	0	0	1	11749	1770	62	5		5	PEX5L	3	179593213	Silent	SNP	T	TCGA-56-5897-01A-11D-1632-08	22494193	179593213	18429217	26	42192										
BOD1L	259282	broad.mit.edu	37	chr4	13605554	13605554	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gctaatggtaacttggctctAtgactagaatccttctgtgt	9	8	2	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr4:13605554A>G	uc003gmz.1	-	10	3087	c.2970T>C	c.(2968-2970)CAT>CAC	p.H990H	BOD1L_uc010idr.1_Silent_p.H327H	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	990	Lys-rich.						DNA binding			ovary(5)|breast(1)	6						ACTTGGCTCTATGACTAGAAT	0.398													4	230	---	---	---	---	PASS	G	13605554	G	G	13605554	2	3	115	1	0	0	0	0	0	0	0	1	1483	446	16	5		5	BOD1L	4	13605554	Silent	SNP	A	TCGA-56-5897-01A-11D-1632-08		13605554	177548722	27	42193										
GABRG1	2565	broad.mit.edu	37	chr4	46067426	46067426	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cattccaaattcgaagcagaCgattaggagttgttatccag	9	8	0	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr4:46067426C>T	uc003gxb.2	-	4	649	c.497G>A	c.(496-498)CGT>CAT	p.R166H		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	166	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		TCGAAGCAGACGATTAGGAGT	0.333													8	58	---	---	---	---	PASS	T	46067426	T	T	46067426	3	4	115	1	0	0	0	0	1	0	0	0	6171	536	19	1	924	1	GABRG1	4	46067426	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	32461872	46067426	145086850	28	42194										
ENPEP	2028	broad.mit.edu	37	chr4	111397798	111397798	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cctcctgcccaggaccaggaCatctgcccggccagtgagga	12	16	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr4:111397798C>T	uc003iab.3	+	1	570	c.228C>T	c.(226-228)GAC>GAT	p.D76D		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	76	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	AGGACCAGGACATCTGCCCGG	0.652													8	55	---	---	---	---	PASS	T	111397798	T	T	111397798	2	4	115	1	0	0	0	0	0	0	0	1	5128	477	17	3		3	ENPEP	4	111397798	Silent	SNP	C	TCGA-56-5897-01A-11D-1632-08	65330372	111397798	79756478	29	42195										
ANK2	287	broad.mit.edu	37	chr4	114209638	114209638	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	agcaaatgttaacgcaaaaaCcaaggtaaagtacttgtggt	9	6	0	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr4:114209638C>A	uc003ibe.3	+	20	2373	c.2273C>A	c.(2272-2274)ACC>AAC	p.T758N	ANK2_uc003ibd.3_Missense_Mutation_p.T737N|ANK2_uc003ibf.3_Missense_Mutation_p.T758N|ANK2_uc003ibc.2_Missense_Mutation_p.T734N|ANK2_uc011cgb.1_Missense_Mutation_p.T773N	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	758					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AACGCAAAAACCAAGGTAAAG	0.373													6	29	---	---	---	---	PASS	A	114209638	A	A	114209638	3	1	115	1	0	0	0	0	1	0	0	0	621	507	18	3	2376	3	ANK2	4	114209638	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	2811840	114209638	76944638	30	42196										
FAT4	79633	broad.mit.edu	37	chr4	126329937	126329937	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ttcttgtgtttaatgttactGatgcagatgatggtatgtat	10	3	1	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr4:126329937G>A	uc003ifj.3	+	4	5908	c.5908G>A	c.(5908-5910)GAT>AAT	p.D1970N	FAT4_uc011cgp.1_Missense_Mutation_p.D268N	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1970	Cadherin 19.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TAATGTTACTGATGCAGATGA	0.289													4	111	---	---	---	---	PASS	A	126329937	A	A	126329937	3	1	115	1	0	0	0	0	1	0	0	0	5692	1290	45	2	5922	2	FAT4	4	126329937	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	12120299	126329937	64824339	31	42197										
TRIML1	339976	broad.mit.edu	37	chr4	189067976	189067976	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cttctttcctcctcttgcagCggagataacgctggacccag	9	14	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr4:189067976C>A	uc003izm.1	+	6	972	c.857C>A	c.(856-858)ACG>AAG	p.T286K	TRIML1_uc003izn.1_Missense_Mutation_p.T10K	NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	286	B30.2/SPRY.				multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		CCTCTTGCAGCGGAGATAACG	0.468													23	144	---	---	---	---	PASS	A	189067976	A	A	189067976	3	1	115	1	0	0	0	0	1	0	0	0	16547	782	27	1	879	1	TRIML1	4	189067976	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	62738039	189067976	2086300	32	42198										
UGT3A1	133688	broad.mit.edu	37	chr5	35988612	35988612	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	attatgaccatgctcttgaaGaatctgagacacccggtcca	8	11	2	4			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr5:35988612G>C	uc003jjv.1	-	2	293	c.136C>G	c.(136-138)CTT>GTT	p.L46V	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.L46V|UGT3A1_uc011cor.1_Intron|UGT3A1_uc003jjy.1_5'UTR	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	46	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGCTCTTGAAGAATCTGAGAC	0.343													3	39	---	---	---	---	PASS	C	35988612	C	C	35988612	3	2	115	1	0	0	0	0	1	0	0	0	16960	942	33	2	1541	2	UGT3A1	5	35988612	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08		35988612	144926648	33	42199										
UGT3A2	167127	broad.mit.edu	37	chr5	36049476	36049476	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	atttaaaaaatgactgcactGcaacgccaagtattctagaa	6	8	1	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr5:36049476G>C	uc003jjz.1	-	4	451	c.358C>G	c.(358-360)CAG>GAG	p.Q120E	UGT3A2_uc011cos.1_Missense_Mutation_p.Q86E|UGT3A2_uc011cot.1_Intron	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	120	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGACTGCACTGCAACGCCAAG	0.303													6	51	---	---	---	---	PASS	C	36049476	C	C	36049476	3	2	115	1	0	0	0	0	1	0	0	0	16961	1328	46	4	1229	4	UGT3A2	5	36049476	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	60864	36049476	144865784	34	42200										
MAST4	375449	broad.mit.edu	37	chr5	66391439	66391439	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	caataggactgatggacgccGctggtcgttggcttctctcc	12	12	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr5:66391439G>A	uc003jut.1	+	6	349	c.281G>A	c.(280-282)CGC>CAC	p.R94H	MAST4_uc003jus.2_Missense_Mutation_p.R94H|MAST4_uc003juu.1_Missense_Mutation_p.R104H|MAST4_uc011cra.1_Missense_Mutation_p.R77H|MAST4_uc010ixa.2_RNA|MAST4_uc003juv.2_Missense_Mutation_p.R89H|MAST4_uc003juw.2_Missense_Mutation_p.R89H	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	286						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)		GATGGACGCCGCTGGTCGTTG	0.468													4	10	---	---	---	---	PASS	A	66391439	A	A	66391439	3	1	115	1	0	0	0	0	1	0	0	0	9327	1087	38	1	1004	1	MAST4	5	66391439	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	30341963	66391439	114523821	35	42201										
RASGRF2	5924	broad.mit.edu	37	chr5	80369249	80369249	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cccccatcagccacgacgacGtcagcagtatttttcttaac	6	15	3	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr5:80369249G>T	uc003kha.1	+	5	865	c.865G>T	c.(865-867)GTC>TTC	p.V289F	RASGRF2_uc011ctn.1_RNA|RASGRF2_uc003khb.1_Missense_Mutation_p.V117F	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	289	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		CCACGACGACGTCAGCAGTAT	0.448													6	31	---	---	---	---	PASS	T	80369249	T	T	80369249	3	4	115	1	0	0	0	0	1	0	0	0	13073	1145	40	1	883	1	RASGRF2	5	80369249	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	13977810	80369249	100546011	36	42202										
ATG12	9140	broad.mit.edu	37	chr5	115177356	115177356	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gccggagtagggggacgcaaTtacacagtgaaacttggtgt	15	7	0	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr5:115177356T>C	uc003krh.2	-	1	144	c.35A>G	c.(34-36)AAT>AGT	p.N12S	AP3S1_uc003krl.2_5'Flank|AP3S1_uc003krk.2_5'Flank|AP3S1_uc003krm.2_5'Flank|ATG12_uc003kri.2_Missense_Mutation_p.N12S|ATG12_uc003krj.2_RNA	NM_004707	NP_004698	O94817	ATG12_HUMAN	APG12 autophagy 12-like	Error:Variant_position_missing_in_O94817_after_alignment					autophagic vacuole assembly|negative regulation of type I interferon production	pre-autophagosomal structure membrane	protein binding				0		all_cancers(142;0.00377)|all_epithelial(76;0.000129)|Prostate(80;0.0132)|Ovarian(225;0.0776)|Lung NSC(810;0.245)		OV - Ovarian serous cystadenocarcinoma(64;7.59e-08)|Epithelial(69;7.05e-07)|all cancers(49;3.11e-05)		GGGGACGCAATTACACAGTGA	0.557													7	86	---	---	---	---	PASS	C	115177356	C	C	115177356	3	2	115	1	0	0	0	0	1	0	0	0	1090	1508	52	5		5	ATG12	5	115177356	Missense_Mutation	SNP	T	TCGA-56-5897-01A-11D-1632-08	34808107	115177356	65737904	37	42203										
HSPA4	3308	broad.mit.edu	37	chr5	132426993	132426993	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tttcagtgtgtccagtgcatCtttagtggaggttcacaagt	11	7	3	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr5:132426993C>G	uc003kyj.2	+	12	1768	c.1487C>G	c.(1486-1488)TCT>TGT	p.S496C		NM_002154	NP_002145	P34932	HSP74_HUMAN	heat shock 70kDa protein 4	496					cellular chaperone-mediated protein complex assembly|protein import into mitochondrial outer membrane|response to unfolded protein	cytoplasm|nucleus	ATP binding			lung(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCCAGTGCATCTTTAGTGGAG	0.423													5	72	---	---	---	---	PASS	G	132426993	G	G	132426993	3	3	115	1	0	0	0	0	1	0	0	0	7412	913	32	2	1533	2	HSPA4	5	132426993	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	17249637	132426993	48488267	38	42204										
PCDHGA1	56114	broad.mit.edu	37	chr5	140710510	140710510	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gaagtggcagcttgatcaccGcgcgcaggatagaccgggag	16	10	1	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr5:140710510G>T	uc003lji.1	+	1	259	c.259G>T	c.(259-261)GCG>TCG	p.A87S	PCDHGA1_uc011dan.1_Missense_Mutation_p.A87S	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	87	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTGATCACCGCGCGCAGGAT	0.542													4	108	---	---	---	---	PASS	T	140710510	T	T	140710510	3	4	115	1	0	0	0	0	1	0	0	0	11550	1087	38	1	261	1	PCDHGA1	5	140710510	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	8283517	140710510	40204750	39	42205										
CYP21A2	1589	broad.mit.edu	37	chr6	32007980	32007980	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tttttttgcttcaccaccctGaggtgcgtcctggggacaag	11	11	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr6:32007980G>C	uc003nze.1	+	7	1055	c.937G>C	c.(937-939)GAG>CAG	p.E313Q	CYP21A2_uc003nzf.1_Missense_Mutation_p.E283Q	NM_000500	NP_000491	P08686	CP21A_HUMAN	cytochrome P450, family 21, subfamily A,	312					glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|steroid 21-monooxygenase activity|steroid binding				0						TCACCACCCTGAGGTGCGTCC	0.627													3	115	---	---	---	---	PASS	C	32007980	C	C	32007980	3	2	115	1	0	0	0	0	1	0	0	0	4153	1291	45	2	2484	2	CYP21A2	6	32007980	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08		32007980	139107087	40	42206										
AGPAT1	10554	broad.mit.edu	37	chr6	32137188	32137188	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tcatctggtgtcagcccttcCgtgggcactgggggcagcac	14	13	3	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr6:32137188C>A	uc003oae.2	-	7	1035	c.717G>T	c.(715-717)ACG>ACT	p.T239T	PPT2_uc003nzy.1_RNA|AGPAT1_uc011dpj.1_RNA|AGPAT1_uc011dpk.1_Silent_p.T203T|AGPAT1_uc003oaf.2_Silent_p.T239T|AGPAT1_uc003oag.2_Silent_p.T129T|AGPAT1_uc003oah.2_Silent_p.T239T|AGPAT1_uc003oai.1_Silent_p.T239T|AGPAT1_uc011dpl.1_Silent_p.T127T	NM_006411	NP_006402	Q99943	PLCA_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 1	239					energy reserve metabolic process|phosphatidic acid biosynthetic process|positive regulation of cellular metabolic process|positive regulation of cytokine production|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			central_nervous_system(1)	1						TCAGCCCTTCCGTGGGCACTG	0.637													14	75	---	---	---	---	PASS	A	32137188	A	A	32137188	2	1	115	1	0	0	0	0	0	0	0	1	386	639	23	1		1	AGPAT1	6	32137188	Silent	SNP	C	TCGA-56-5897-01A-11D-1632-08	129208	32137188	138977879	41	42207										
DST	667	broad.mit.edu	37	chr6	56494056	56494056	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	aaggatactaacctgttgtcAatctgcacatgaacattttg	7	8	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr6:56494056A>T	uc003pdf.2	-	31	4396	c.4368T>A	c.(4366-4368)ATT>ATA	p.I1456I	DST_uc003pcz.3_Silent_p.I1278I|DST_uc011dxj.1_Silent_p.I1307I|DST_uc011dxk.1_Silent_p.I1318I|DST_uc003pcy.3_Silent_p.I952I|DST_uc003pdb.2_Silent_p.I952I|DST_uc003pdc.3_Silent_p.I952I|DST_uc003pdd.3_Silent_p.I952I	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	1278					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)			ACCTGTTGTCAATCTGCACAT	0.323													8	98	---	---	---	---	PASS	T	56494056	T	T	56494056	2	4	115	1	0	0	0	0	0	0	0	1	4783	126	5	5		5	DST	6	56494056	Silent	SNP	A	TCGA-56-5897-01A-11D-1632-08	24356868	56494056	114621011	42	42208										
RIMS1	22999	broad.mit.edu	37	chr6	72806810	72806810	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cggtcatctctgctcctattGtcgcactaagttctgtgcgc	9	13	3	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr6:72806810G>T	uc003pga.2	+	3	481	c.404G>T	c.(403-405)TGT>TTT	p.C135F		NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	135	RabBD.|FYVE-type.				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)				TGCTCCTATTGTCGCACTAAG	0.517													9	42	---	---	---	---	PASS	T	72806810	T	T	72806810	3	4	115	1	0	0	0	0	1	0	0	0	13367	1377	48	3	414	3	RIMS1	6	72806810	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	16312754	72806810	98308257	43	42209										
SLC17A5	26503	broad.mit.edu	37	chr6	74304842	74304842	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tcattgagagcccagttttgTacttcacctttggcgaatag	9	9	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr6:74304842T>C	uc003phn.3	-	11	1574	c.1446A>G	c.(1444-1446)GTA>GTG	p.V482V	SLC17A5_uc010kax.2_Silent_p.V141V|SLC17A5_uc010kay.2_RNA	NM_012434	NP_036566	Q9NRA2	S17A5_HUMAN	sialin	482					anion transport	integral to plasma membrane|lysosomal membrane|membrane fraction	sialic acid:hydrogen symporter activity			skin(5)|central_nervous_system(1)	6						CCCAGTTTTGTACTTCACCTT	0.368													19	97	---	---	---	---	PASS	C	74304842	C	C	74304842	2	2	115	1	0	0	0	0	0	0	0	1	14420	1625	57	5		5	SLC17A5	6	74304842	Silent	SNP	T	TCGA-56-5897-01A-11D-1632-08	1498032	74304842	96810225	44	42210										
FIG4	9896	broad.mit.edu	37	chr6	110107533	110107533	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gctgtgaacttaaagaagttGatagtgaagaaattccacaa	9	5	0	5			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr6:110107533G>C	uc003ptt.2	+	18	2192	c.1977G>C	c.(1975-1977)TTG>TTC	p.L659F	FIG4_uc011eau.1_Missense_Mutation_p.L382F	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	659					cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		TAAAGAAGTTGATAGTGAAGA	0.313													4	72	---	---	---	---	PASS	C	110107533	C	C	110107533	3	2	115	1	0	0	0	0	1	0	0	0	5888	1281	45	2	2047	2	FIG4	6	110107533	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	35802691	110107533	61007534	45	42211										
ROS1	6098	broad.mit.edu	37	chr6	117715339	117715339	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	actaaccagttcatccatgaTgaaatacattctttgataaa	4	8	2	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr6:117715339T>A	uc003pxp.1	-	10	1349	c.1150A>T	c.(1150-1152)ATC>TTC	p.I384F	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	384	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TCATCCATGATGAAATACATT	0.338			T	GOPC|ROS1	glioblastoma|NSCLC								4	44	---	---	---	---	PASS	A	117715339	A	A	117715339	3	1	115	1	0	0	0	0	1	0	0	0	13531	1464	51	5	6029	5	ROS1	6	117715339	Missense_Mutation	SNP	T	TCGA-56-5897-01A-11D-1632-08	7607806	117715339	53399728	46	42212										
NKAIN2	154215	broad.mit.edu	37	chr6	124604183	124604183	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gagaggcaaatatttgacttCcttggatatcagtgggcacc	11	8	1	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr6:124604183C>A	uc003pzo.2	+	2	364	c.87C>A	c.(85-87)TTC>TTA	p.F29L	NKAIN2_uc003pzn.1_Missense_Mutation_p.F29L|NKAIN2_uc003pzp.2_Missense_Mutation_p.F28L|NKAIN2_uc010keq.2_Missense_Mutation_p.F29L|NKAIN2_uc010ker.2_5'UTR|NKAIN2_uc010kep.1_RNA	NM_001040214	NP_001035304	Q5VXU1	NKAI2_HUMAN	T-cell lymphoma breakpoint-associated target 1	29						integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)		TATTTGACTTCCTTGGATATC	0.393													19	108	---	---	---	---	PASS	A	124604183	A	A	124604183	3	1	115	1	0	0	0	0	1	0	0	0	10436	854	30	2	93	2	NKAIN2	6	124604183	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	6888844	124604183	46510884	47	42213										
TAAR8	83551	broad.mit.edu	37	chr6	132874559	132874559	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	agtagaatcatcctcagagaGttataaaatcagagtggcca	9	7	3	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr6:132874559G>T	uc011ecj.1	+	1	728	c.728G>T	c.(727-729)AGT>ATT	p.S243I		NM_053278	NP_444508	Q969N4	TAAR8_HUMAN	trace amine associated receptor 8	243	Cytoplasmic (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00412)|GBM - Glioblastoma multiforme(226;0.00792)		TCCTCAGAGAGTTATAAAATC	0.353													9	48	---	---	---	---	PASS	T	132874559	T	T	132874559	3	4	115	1	0	0	0	0	1	0	0	0	15490	1029	36	3	730	3	TAAR8	6	132874559	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	8270376	132874559	38240508	48	42214										
TAAR6	319100	broad.mit.edu	37	chr6	132892023	132892023	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tgatgccctaaactgtatagGaggttgtcagaccgttgtaa	11	7	1	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr6:132892023G>C	uc011eck.1	+	1	563	c.563G>C	c.(562-564)GGA>GCA	p.G188A		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	188	Extracellular (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		AACTGTATAGGAGGTTGTCAG	0.418													20	96	---	---	---	---	PASS	C	132892023	C	C	132892023	3	2	115	1	0	0	0	0	1	0	0	0	15489	1174	41	2	565	2	TAAR6	6	132892023	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	17464	132892023	38223044	49	42215										
SLC22A1	6580	broad.mit.edu	37	chr6	160560878	160560878	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tggcgggggcagcctgcctcGtcatgatttttatctcacct	11	12	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr6:160560878G>T	uc003qtc.2	+	7	1360	c.1255G>T	c.(1255-1257)GTC>TTC	p.V419F	SLC22A1_uc003qtd.2_Missense_Mutation_p.V419F	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	419	Helical; (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		AGCCTGCCTCGTCATGATTTT	0.517													3	23	---	---	---	---	PASS	T	160560878	T	T	160560878	3	4	115	1	0	0	0	0	1	0	0	0	14440	1145	40	1	1281	1	SLC22A1	6	160560878	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	27668855	160560878	10554189	50	42216										
RSPH10B2	728194	broad.mit.edu	37	chr7	5967999	5967999	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cgtgttgaactcttcctctcGatcatccttgggtctctcat	7	13	5	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr7:5967999G>T	uc003sph.1	-	20	2531	c.2260C>A	c.(2260-2262)CGA>AGA	p.R754R	RSPH10B2_uc003spg.1_Silent_p.R601R|RSPH10B2_uc010ktd.1_Silent_p.R754R|RSPH10B2_uc011jwk.1_Silent_p.I375I	NM_173565	NP_775836	B2RC85	R10B2_HUMAN	radial spoke head 10 homolog B	754										ovary(1)|pancreas(1)|skin(1)	3						TCTTCCTCTCGATCATCCTTG	0.418													23	104	---	---	---	---	PASS	T	5967999	T	T	5967999	2	4	115	1	0	0	0	0	0	0	0	1	13704	1066	37	2		2	RSPH10B2	7	5967999	Silent	SNP	G	TCGA-56-5897-01A-11D-1632-08		5967999	153170664	51	42217										
HOXA4	3201	broad.mit.edu	37	chr7	27169030	27169030	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cggttctgaaaccagatcttGacctggcgctcagacaaaca	9	12	3	4			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr7:27169030G>C	uc003sym.3	-	2	824	c.777C>G	c.(775-777)GTC>GTG	p.V259V	HOXA3_uc003syk.2_5'Flank	NM_002141	NP_002132	Q00056	HXA4_HUMAN	homeobox A4	259	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						ACCAGATCTTGACCTGGCGCT	0.577													4	81	---	---	---	---	PASS	C	27169030	C	C	27169030	2	2	115	1	0	0	0	0	0	0	0	1	7294	1277	45	2		2	HOXA4	7	27169030	Silent	SNP	G	TCGA-56-5897-01A-11D-1632-08	21201031	27169030	131969633	52	42218										
HOXA4	3201	broad.mit.edu	37	chr7	27169744	27169744	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cggcgccacgtaccggcgctGacatggatcttcttcatcca	10	15	3	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr7:27169744G>A	uc003sym.3	-	1	656	c.609C>T	c.(607-609)GTC>GTT	p.V203V		NM_002141	NP_002132	Q00056	HXA4_HUMAN	homeobox A4	203						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						TACCGGCGCTGACATGGATCT	0.652													3	15	---	---	---	---	PASS	A	27169744	A	A	27169744	2	1	115	1	0	0	0	0	0	0	0	1	7294	1277	45	2		2	HOXA4	7	27169744	Silent	SNP	G	TCGA-56-5897-01A-11D-1632-08	714	27169744	131968919	53	42219										
HGF	3082	broad.mit.edu	37	chr7	81386571	81386571	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cactcttagtgatagatactGttcccttgtagctgcgtcct	8	11	1	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr7:81386571G>T	uc003uhl.2	-	4	581	c.416C>A	c.(415-417)ACA>AAA	p.T139K	HGF_uc003uhm.2_Missense_Mutation_p.T139K|HGF_uc003uhn.1_Missense_Mutation_p.T139K|HGF_uc003uho.1_Missense_Mutation_p.T139K|HGF_uc003uhp.2_Missense_Mutation_p.T139K	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	139	Kringle 1.				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						GATAGATACTGTTCCCTTGTA	0.388													4	56	---	---	---	---	PASS	T	81386571	T	T	81386571	3	4	115	1	0	0	0	0	1	0	0	0	7085	1377	48	3	1850	3	HGF	7	81386571	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	54216827	81386571	77752092	54	42220										
PCLO	27445	broad.mit.edu	37	chr7	82474630	82474630	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tgctcactgagggggaccctGgttgcccagggctgggaacg	17	11	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr7:82474630G>A	uc003uhx.2	-	13	14292	c.14003C>T	c.(14002-14004)CCA>CTA	p.P4668L	PCLO_uc003uhv.2_Missense_Mutation_p.P4668L|PCLO_uc003uht.1_Missense_Mutation_p.P119L|PCLO_uc003uhu.1_Missense_Mutation_p.P98L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4556					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GGGGGACCCTGGTTGCCCAGG	0.502													3	30	---	---	---	---	PASS	A	82474630	A	A	82474630	3	1	115	1	0	0	0	0	1	0	0	0	11583	1348	47	3	1494	3	PCLO	7	82474630	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	1088059	82474630	76664033	55	42221										
ZNF804B	219578	broad.mit.edu	37	chr7	88963284	88963284	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cattctctaaatctaacattCatctttcagatgtagatttt	3	8	5	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr7:88963284C>T	uc011khi.1	+	4	1526	c.988C>T	c.(988-990)CAT>TAT	p.H330Y		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	330						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			ATCTAACATTCATCTTTCAGA	0.338										HNSCC(36;0.09)			5	28	---	---	---	---	PASS	T	88963284	T	T	88963284	3	4	115	1	0	0	0	0	1	0	0	0	18168	826	29	2	1002	2	ZNF804B	7	88963284	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	6488654	88963284	70175379	56	42222										
ZNF3	7551	broad.mit.edu	37	chr7	99669079	99669079	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tgaaggctttcccacattcaTtacattcatagggtttttct	6	9	3	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr7:99669079T>C	uc003usq.2	-	6	1335	c.1028A>G	c.(1027-1029)AAT>AGT	p.N343S	ZNF3_uc003usp.2_Intron|ZNF3_uc003usr.2_Missense_Mutation_p.N343S|ZNF3_uc010lgj.2_Missense_Mutation_p.N307S|ZNF3_uc003uss.2_Missense_Mutation_p.N350S|ZNF3_uc003ust.3_Missense_Mutation_p.N343S	NM_032924	NP_116313	P17036	ZNF3_HUMAN	zinc finger protein 3 isoform 2	343	C2H2-type 6.			GEKPYECNECGKAFSQSSHLYQHQRIHTGEKPYECMECGGK FTYSSGLIQHQ -> EALPTFVTLIRLLPSVDPIVTNEAAF PAESLATIFALIWRLFCVHSLMFKKV (in Ref. 2; BAA91019).	cell differentiation|leukocyte activation|multicellular organismal development	nucleus	DNA binding|identical protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)	Ovarian(593;2.06e-05)|Myeloproliferative disorder(862;0.0122)|Breast(660;0.029)	STAD - Stomach adenocarcinoma(171;0.129)			CCCACATTCATTACATTCATA	0.483													8	44	---	---	---	---	PASS	C	99669079	C	C	99669079	3	2	115	1	0	0	0	0	1	0	0	0	17826	1493	52	5	445	5	ZNF3	7	99669079	Missense_Mutation	SNP	T	TCGA-56-5897-01A-11D-1632-08	10705795	99669079	59469584	57	42223										
TRIP6	7205	broad.mit.edu	37	chr7	100469219	100469219	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ccatcctggaccggatcctgCgggctatggggaaggcctac	14	13	0	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr7:100469219C>T	uc003uww.2	+	7	1224	c.1054C>T	c.(1054-1056)CGG>TGG	p.R352W		NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6	352	LIM zinc-binding 2.				focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)					CCGGATCCTGCGGGCTATGGG	0.642													3	58	---	---	---	---	PASS	T	100469219	T	T	100469219	3	4	115	1	0	0	0	0	1	0	0	0	16556	759	27	1	1080	1	TRIP6	7	100469219	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	800140	100469219	58669444	58	42224										
COG5	10466	broad.mit.edu	37	chr7	107198509	107198509	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cagcttgatgaatagattgaGaagtataagtctttacatca	8	5	2	4			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr7:107198509G>C	uc003ved.2	-	2	764	c.239C>G	c.(238-240)TCT>TGT	p.S80C	COG5_uc003vec.2_Missense_Mutation_p.S80C|COG5_uc003vee.2_Missense_Mutation_p.S80C	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	80					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						AATAGATTGAGAAGTATAAGT	0.358													7	32	---	---	---	---	PASS	C	107198509	C	C	107198509	3	2	115	1	0	0	0	0	1	0	0	0	3661	942	33	2	2431	2	COG5	7	107198509	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	6729290	107198509	51940154	59	42225										
ZNF398	57541	broad.mit.edu	37	chr7	148863259	148863259	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tgtaattttaggtgcctgtgGcatttgatgatgtctccatc	10	7	1	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr7:148863259G>T	uc003wfl.2	+	3	705	c.430G>T	c.(430-432)GCA>TCA	p.A144S	ZNF398_uc011kul.1_5'UTR|ZNF398_uc011kum.1_Missense_Mutation_p.A149S	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	144	KRAB.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			GGTGCCTGTGGCATTTGATGA	0.348													16	63	---	---	---	---	PASS	T	148863259	T	T	148863259	3	4	115	1	0	0	0	0	1	0	0	0	17882	1203	42	3	440	3	ZNF398	7	148863259	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	41664750	148863259	10275404	60	42226										
NOM1	64434	broad.mit.edu	37	chr7	156743221	156743221	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	acgaaagtgaggaggaggagGagggagacgtagaaaaggaa	19	2	0	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr7:156743221G>T	uc003wmy.2	+	1	805	c.790G>T	c.(790-792)GAG>TAG	p.E264*		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	264	Glu-rich.|Necessary for nucleolar localization and for targeting PPP1CA to the nucleolus.				RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		ggaggaggaggagggagacgt	0.214													4	20	---	---	---	---	PASS	T	156743221	T	T	156743221	4	4	115	1	0	0	0	0	0	1	0	0	10530	1175	41	2	792	2	NOM1	7	156743221	Nonsense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	7879962	156743221	2395442	61	42227										
UNC5D	137970	broad.mit.edu	37	chr8	35544208	35544208	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	caggaatctgaaaactgcacAgatggtctttgcatcctagg	10	9	2	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr8:35544208A>G	uc003xjr.1	+	7	1393	c.1065A>G	c.(1063-1065)ACA>ACG	p.T355T	UNC5D_uc003xjs.1_Silent_p.T350T|UNC5D_uc003xjt.1_Silent_p.T124T	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	355	Extracellular (Potential).|TSP type-1 2.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		aaaactgcacagatggtcttt	0.323													4	20	---	---	---	---	PASS	G	35544208	G	G	35544208	2	3	115	1	0	0	0	0	0	0	0	1	16992	175	7	5		5	UNC5D	8	35544208	Silent	SNP	A	TCGA-56-5897-01A-11D-1632-08		35544208	110819814	62	42228										
OPRK1	4986	broad.mit.edu	37	chr8	54147415	54147415	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gatgatctttgccttcaaggGtgtgcggaagtccaaagcct	12	9	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr8:54147415G>T	uc003xrh.1	-	2	889	c.514C>A	c.(514-516)CCC>ACC	p.P172T	OPRK1_uc003xri.1_Missense_Mutation_p.P172T|OPRK1_uc010lyc.1_Missense_Mutation_p.P83T	NM_000912	NP_000903	P41145	OPRK_HUMAN	opioid receptor, kappa 1	172	Cytoplasmic (Potential).				behavior|immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception|synaptic transmission|viral genome replication	integral to plasma membrane	kappa-opioid receptor activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Buprenorphine(DB00921)|Butorphanol(DB00611)|Cocaine(DB00907)|Codeine(DB00318)|Dezocine(DB01209)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Meperidine(DB00454)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Tramadol(DB00193)	GCCTTCAAGGGTGTGCGGAAG	0.507													18	61	---	---	---	---	PASS	T	54147415	T	T	54147415	3	4	115	1	0	0	0	0	1	0	0	0	10885	1261	44	3	636	3	OPRK1	8	54147415	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	18603207	54147415	92216607	63	42229										
ZFHX4	79776	broad.mit.edu	37	chr8	77767225	77767225	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tgtttaaagcaaagtcggccTtagaaagccacattcgctct	8	10	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr8:77767225T>C	uc003yav.2	+	10	8320	c.7933T>C	c.(7933-7935)TTA>CTA	p.L2645L	ZFHX4_uc003yau.1_Silent_p.L2690L|ZFHX4_uc003yaw.1_Silent_p.L2645L	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2645	C2H2-type 17.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAAGTCGGCCTTAGAAAGCCA	0.552										HNSCC(33;0.089)			14	49	---	---	---	---	PASS	C	77767225	C	C	77767225	2	2	115	1	0	0	0	0	0	0	0	1	17632	1606	56	5		5	ZFHX4	8	77767225	Silent	SNP	T	TCGA-56-5897-01A-11D-1632-08	23619810	77767225	68596797	64	42230										
PTPRD	5789	broad.mit.edu	37	chr9	8504320	8504320	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cacccaggccttgaggggagCgtgcagccagacggaaatag	15	11	0	2	rs150553394		TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr9:8504320C>A	uc003zkk.2	-	22	2474	c.1763G>T	c.(1762-1764)CGC>CTC	p.R588L	PTPRD_uc003zkp.2_Missense_Mutation_p.R588L|PTPRD_uc003zkq.2_Missense_Mutation_p.R588L|PTPRD_uc003zkr.2_Missense_Mutation_p.R582L|PTPRD_uc003zks.2_Missense_Mutation_p.R578L|PTPRD_uc003zkl.2_Missense_Mutation_p.R588L|PTPRD_uc003zkm.2_Missense_Mutation_p.R575L|PTPRD_uc003zkn.2_Missense_Mutation_p.R588L|PTPRD_uc003zko.2_Missense_Mutation_p.R585L	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	588	Fibronectin type-III 3.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TTGAGGGGAGCGTGCAGCCAG	0.458										TSP Lung(15;0.13)			9	72	---	---	---	---	PASS	A	8504320	A	A	8504320	3	1	115	1	0	0	0	0	1	0	0	0	12799	768	27	1	4139	1	PTPRD	9	8504320	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08		8504320	132709111	65	42231										
TAF1L	138474	broad.mit.edu	37	chr9	32635551	32635551	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gtgacggtagctgctgccctCagcagcaaatcgcagccggg	14	13	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr9:32635551C>T	uc003zrg.1	-	1	117	c.27G>A	c.(25-27)CTG>CTA	p.L9L	uc003zrh.1_Intron	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	9					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CTGCTGCCCTCAGCAGCAAAT	0.542													5	41	---	---	---	---	PASS	T	32635551	T	T	32635551	2	4	115	1	0	0	0	0	0	0	0	1	15520	813	29	2		2	TAF1L	9	32635551	Silent	SNP	C	TCGA-56-5897-01A-11D-1632-08	24131231	32635551	108577880	66	42232										
ASTN2	23245	broad.mit.edu	37	chr9	119976953	119976953	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gggatgcggcgacgcttctgCcaacgtcgctgggcgtacag	16	12	1	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr9:119976953C>A	uc004bjs.1	-	3	800	c.699G>T	c.(697-699)TGG>TGT	p.W233C	ASTN2_uc004bjr.1_Missense_Mutation_p.W233C|ASTN2_uc004bjt.1_Missense_Mutation_p.W233C	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	233	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GACGCTTCTGCCAACGTCGCT	0.632													15	26	---	---	---	---	PASS	A	119976953	A	A	119976953	3	1	115	1	0	0	0	0	1	0	0	0	1065	740	26	3	3479	3	ASTN2	9	119976953	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	87341402	119976953	21236478	67	42233										
C9orf78	51759	broad.mit.edu	37	chr9	132597006	132597006	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ctcaccccgttgggcctcttCctcaagttctgtacctctct	6	17	5	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr9:132597006C>A	uc004byp.2	-	2	195	c.123G>T	c.(121-123)AGG>AGT	p.R41S	C9orf78_uc004byo.2_5'Flank|C9orf78_uc004byq.1_5'Flank|USP20_uc004bys.2_5'Flank|USP20_uc004byr.2_5'Flank|USP20_uc004byt.1_5'Flank	NM_016520	NP_057604	Q9NZ63	CI078_HUMAN	chromosome 9 open reading frame 78	41											0		Ovarian(14;0.00556)				TGGGCCTCTTCCTCAAGTTCT	0.547													5	86	---	---	---	---	PASS	A	132597006	A	A	132597006	3	1	115	1	0	0	0	0	1	0	0	0	2496	854	30	2	778	2	C9orf78	9	132597006	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	12620053	132597006	8616425	68	42234										
HNRNPF	3185	broad.mit.edu	37	chr10	43882166	43882166	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gactggctctccaggccactGtaagtggcctgggcagcaga	14	12	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr10:43882166G>A	uc009xmh.1	-	3	1654	c.1167C>T	c.(1165-1167)TAC>TAT	p.Y389Y	HNRNPF_uc001jar.2_Silent_p.Y389Y|HNRNPF_uc001jas.2_Silent_p.Y389Y|HNRNPF_uc001jat.2_Silent_p.Y389Y|HNRNPF_uc001jav.2_Silent_p.Y389Y|HNRNPF_uc001jau.2_Silent_p.Y389Y|uc010qfa.1_5'UTR	NM_001098208	NP_001091678	P52597	HNRPF_HUMAN	heterogeneous nuclear ribonucleoprotein F	389					regulation of RNA splicing	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding				0						CCAGGCCACTGTAAGTGGCCT	0.537													4	111	---	---	---	---	PASS	A	43882166	A	A	43882166	2	1	115	1	0	0	0	0	0	0	0	1	7265	1372	48	3		3	HNRNPF	10	43882166	Silent	SNP	G	TCGA-56-5897-01A-11D-1632-08		43882166	91652581	69	42235										
PTEN	5728	broad.mit.edu	37	chr10	89685281	89685281	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tgttttaaggtttttggattCaaagcataaaaaccattaca	6	5	1	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr10:89685281C>G	uc001kfb.2	+	4	1207	c.176C>G	c.(175-177)TCA>TGA	p.S59*		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	59	Phosphatase tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(4)|p.R55fs*1(4)|p.S59*(4)|p.Y27fs*1(2)|p.Y27_N212>Y(2)|p.S59P(1)|p.R55fs*2(1)|p.S59L(1)|p.V54fs*29(1)|p.R55_L70>S(1)|p.F56fs*2(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TTTTTGGATTCAAAGCATAAA	0.254		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			4	16	---	---	---	---	PASS	G	89685281	G	G	89685281	4	3	115	1	0	0	0	0	0	1	0	0	12738	838	29	2	186	2	PTEN	10	89685281	Nonsense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	45803115	89685281	45849466	70	42236										
CYP2C9	1559	broad.mit.edu	37	chr10	96745806	96745806	+	Missense_Mutation	SNP	T	C	C													0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ctagggcacaaccatattaaTttccctgacttctgtgctac							TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr10:96745806T>C	uc001kka.3	+	8	1191	c.1166T>C	c.(1165-1167)ATT>ACT	p.I389T	CYP2C9_uc009xut.2_Missense_Mutation_p.I387T	NM_000771	NP_000762	P11712	CP2C9_HUMAN	cytochrome P450, family 2, subfamily C,	389					exogenous drug catabolic process|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative demethylation|steroid metabolic process|urea metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|caffeine oxidase activity|drug binding|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(4)|ovary(2)	6		Colorectal(252;0.0902)		all cancers(201;6.93e-05)	Acenocoumarol(DB01418)|Alosetron(DB00969)|Amiodarone(DB01118)|Antihemophilic Factor(DB00025)|Aprepitant(DB00673)|Bosentan(DB00559)|Carprofen(DB00821)|Carvedilol(DB01136)|Celecoxib(DB00482)|Clomipramine(DB01242)|Dapsone(DB00250)|Delavirdine(DB00705)|Desloratadine(DB00967)|Desogestrel(DB00304)|Diclofenac(DB00586)|Esomeprazole(DB00736)|Etodolac(DB00749)|Fluconazole(DB00196)|Fluoxetine(DB00472)|Flurbiprofen(DB00712)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Gemfibrozil(DB01241)|Ginkgo biloba(DB01381)|Glibenclamide(DB01016)|Glimepiride(DB00222)|Glipizide(DB01067)|Guanfacine(DB01018)|Hydromorphone(DB00327)|Ibuprofen(DB01050)|Imipramine(DB00458)|Irbesartan(DB01029)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Losartan(DB00678)|Lumiracoxib(DB01283)|Marinol(DB00470)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mephenytoin(DB00532)|Metronidazole(DB00916)|Miconazole(DB01110)|Midazolam(DB00683)|Montelukast(DB00471)|Nateglinide(DB00731)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Oxymorphone(DB01192)|Pantoprazole(DB00213)|Paramethadione(DB00617)|Phenprocoumon(DB00946)|Phenytoin(DB00252)|Pravastatin(DB00175)|Quinidine(DB00908)|Ritonavir(DB00503)|Rosiglitazone(DB00412)|Sertraline(DB01104)|Sildenafil(DB00203)|Sulfamethoxazole(DB01015)|Suprofen(DB00870)|Tamoxifen(DB00675)|Tenoxicam(DB00469)|Terfenadine(DB00342)|Tolbutamide(DB01124)|Torasemide(DB00214)|Troleandomycin(DB01361)|Valdecoxib(DB00580)|Valsartan(DB00177)|Voriconazole(DB00582)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zileuton(DB00744)	ACCATATTAATTTCCCTGACT	0.323													13	64	---	---	---	---	PASS	C	96745806	C	C	96745806	3	2	115	1	0	0	0	0	1	0	0	0	4168	1493	52	5	1196	5	CYP2C9	10	96745806	Missense_Mutation	SNP	T	TCGA-56-5897-01A-11D-1632-08	7060525	96745806	38788941	71	42237	791	2								
CYP2C9	1559	broad.mit.edu	37	chr10	96745813	96745813	+	Silent	SNP	G	C	C													0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	acaaccatattaatttccctGacttctgtgctacatgacaa							TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr10:96745813G>C	uc001kka.3	+	8	1198	c.1173G>C	c.(1171-1173)CTG>CTC	p.L391L	CYP2C9_uc009xut.2_Silent_p.L389L	NM_000771	NP_000762	P11712	CP2C9_HUMAN	cytochrome P450, family 2, subfamily C,	391					exogenous drug catabolic process|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative demethylation|steroid metabolic process|urea metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|caffeine oxidase activity|drug binding|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(4)|ovary(2)	6		Colorectal(252;0.0902)		all cancers(201;6.93e-05)	Acenocoumarol(DB01418)|Alosetron(DB00969)|Amiodarone(DB01118)|Antihemophilic Factor(DB00025)|Aprepitant(DB00673)|Bosentan(DB00559)|Carprofen(DB00821)|Carvedilol(DB01136)|Celecoxib(DB00482)|Clomipramine(DB01242)|Dapsone(DB00250)|Delavirdine(DB00705)|Desloratadine(DB00967)|Desogestrel(DB00304)|Diclofenac(DB00586)|Esomeprazole(DB00736)|Etodolac(DB00749)|Fluconazole(DB00196)|Fluoxetine(DB00472)|Flurbiprofen(DB00712)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Gemfibrozil(DB01241)|Ginkgo biloba(DB01381)|Glibenclamide(DB01016)|Glimepiride(DB00222)|Glipizide(DB01067)|Guanfacine(DB01018)|Hydromorphone(DB00327)|Ibuprofen(DB01050)|Imipramine(DB00458)|Irbesartan(DB01029)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Losartan(DB00678)|Lumiracoxib(DB01283)|Marinol(DB00470)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mephenytoin(DB00532)|Metronidazole(DB00916)|Miconazole(DB01110)|Midazolam(DB00683)|Montelukast(DB00471)|Nateglinide(DB00731)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Oxymorphone(DB01192)|Pantoprazole(DB00213)|Paramethadione(DB00617)|Phenprocoumon(DB00946)|Phenytoin(DB00252)|Pravastatin(DB00175)|Quinidine(DB00908)|Ritonavir(DB00503)|Rosiglitazone(DB00412)|Sertraline(DB01104)|Sildenafil(DB00203)|Sulfamethoxazole(DB01015)|Suprofen(DB00870)|Tamoxifen(DB00675)|Tenoxicam(DB00469)|Terfenadine(DB00342)|Tolbutamide(DB01124)|Torasemide(DB00214)|Troleandomycin(DB01361)|Valdecoxib(DB00580)|Valsartan(DB00177)|Voriconazole(DB00582)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zileuton(DB00744)	TAATTTCCCTGACTTCTGTGC	0.328													14	66	---	---	---	---	PASS	C	96745813	C	C	96745813	2	2	115	1	0	0	0	0	0	0	0	1	4168	1277	45	2		2	CYP2C9	10	96745813	Silent	SNP	G	TCGA-56-5897-01A-11D-1632-08	7	96745813	38788934	72	42238	791	2								
TRPM5	29850	broad.mit.edu	37	chr11	2435351	2435351	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tcggtggccaggtgcaggcaGgtggtcttgctccagcagcg	17	11	1	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr11:2435351G>T	uc001lwm.3	-	12	1839	c.1830C>A	c.(1828-1830)ACC>ACA	p.T610T	TRPM5_uc010qxl.1_Silent_p.T610T|TRPM5_uc009ydn.2_Silent_p.T612T	NM_014555	NP_055370	Q9NZQ8	TRPM5_HUMAN	transient receptor potential cation channel,	610	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity|voltage-gated ion channel activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Medulloblastoma(188;0.0049)|Breast(177;0.00586)|all_epithelial(84;0.0075)|Ovarian(85;0.0256)|all_neural(188;0.0311)		BRCA - Breast invasive adenocarcinoma(625;0.00147)|LUSC - Lung squamous cell carcinoma(625;0.191)		GGTGCAGGCAGGTGGTCTTGC	0.682													4	1	---	---	---	---	PASS	T	2435351	T	T	2435351	2	4	115	1	0	0	0	0	0	0	0	1	16586	987	35	3		3	TRPM5	11	2435351	Silent	SNP	G	TCGA-56-5897-01A-11D-1632-08		2435351	132571165	73	42239										
LDLRAD3	143458	broad.mit.edu	37	chr11	36248918	36248918	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cagtatgtggccagccaggcGgagcagaatgcgtcggaagt	16	9	0	1	rs146712517		TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr11:36248918G>A	uc001mwk.1	+	5	775	c.738G>A	c.(736-738)GCG>GCA	p.A246A	LDLRAD3_uc010rey.1_Silent_p.A197A|LDLRAD3_uc010rez.1_Silent_p.A125A|LDLRAD3_uc010rfa.1_Intron	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	246	Cytoplasmic (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)				CCAGCCAGGCGGAGCAGAATG	0.612													4	70	---	---	---	---	PASS	A	36248918	A	A	36248918	2	1	115	1	0	0	0	0	0	0	0	1	8707	1103	39	1		1	LDLRAD3	11	36248918	Silent	SNP	G	TCGA-56-5897-01A-11D-1632-08	33813567	36248918	98757598	74	42240										
OR5D18	219438	broad.mit.edu	37	chr11	55587196	55587196	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tgcaagtcccactcttcctgGtttttctggccatctacaat	6	13	3	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr11:55587196G>T	uc010rin.1	+	1	91	c.91G>T	c.(91-93)GTT>TTT	p.V31F		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	31	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				ACTCTTCCTGGTTTTTCTGGC	0.458													13	83	---	---	---	---	PASS	T	55587196	T	T	55587196	3	4	115	1	0	0	0	0	1	0	0	0	11157	1261	44	3	93	3	OR5D18	11	55587196	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	19338278	55587196	79419320	75	42241										
OR5I1	10798	broad.mit.edu	37	chr11	55703274	55703274	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	actgagctgccgtatgtggaGaggagccactcattaattgt	12	8	1	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr11:55703274G>T	uc010ris.1	-	1	603	c.603C>A	c.(601-603)CTC>CTA	p.L201L		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	201	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CGTATGTGGAGAGGAGCCACT	0.383													3	12	---	---	---	---	PASS	T	55703274	T	T	55703274	2	4	115	1	0	0	0	0	0	0	0	1	11164	929	33	2		2	OR5I1	11	55703274	Silent	SNP	G	TCGA-56-5897-01A-11D-1632-08	116078	55703274	79303242	76	42242										
THRSP	7069	broad.mit.edu	37	chr11	77775039	77775039	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tgatgatccccagccttctgCgggacgtgcagctgagtggg	15	11	1	3	rs147579530		TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr11:77775039C>T	uc001oyx.2	+	1	133	c.112C>T	c.(112-114)CGG>TGG	p.R38W		NM_003251	NP_003242	Q92748	THRSP_HUMAN	thyroid hormone-responsive protein	38					lipid biosynthetic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus				breast(1)	1	all_cancers(14;2.23e-19)|all_epithelial(13;7.49e-22)|Breast(9;6.38e-17)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;2.15e-25)			CAGCCTTCTGCGGGACGTGCA	0.607													4	119	---	---	---	---	PASS	T	77775039	T	T	77775039	3	4	115	1	0	0	0	0	1	0	0	0	15873	759	27	1	114	1	THRSP	11	77775039	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	22071765	77775039	57231477	77	42243										
IQSEC3	440073	broad.mit.edu	37	chr12	274629	274629	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ctttgcccgaagaagaagagCtcctccacgtacaccttttg	8	13	0	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr12:274629C>G	uc001qhw.1	+	7	1836	c.1830C>G	c.(1828-1830)AGC>AGG	p.S610R	IQSEC3_uc001qhu.1_Missense_Mutation_p.S610R	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	913	PH.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		AGAAGAAGAGCTCCTCCACGT	0.498													9	91	---	---	---	---	PASS	G	274629	G	G	274629	3	3	115	1	0	0	0	0	1	0	0	0	7819	796	28	4	2777	4	IQSEC3	12	274629	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08		274629	133577266	78	42244										
TULP3	7289	broad.mit.edu	37	chr12	3043692	3043692	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gccggggtttggtaggagcgGcccacacccggcaggagctg	18	12	0	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr12:3043692G>A	uc010seh.1	+	8	970	c.889G>A	c.(889-891)GCC>ACC	p.A297T	TULP3_uc010sef.1_RNA|TULP3_uc009zec.1_Missense_Mutation_p.A24T|TULP3_uc010seg.1_RNA|TULP3_uc001qlj.2_Missense_Mutation_p.A297T|TULP3_uc010sei.1_Missense_Mutation_p.A154T	NM_003324	NP_003315	O75386	TULP3_HUMAN	tubby like protein 3 isoform 1	297					G-protein coupled receptor protein signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|extracellular region|nucleus|plasma membrane	phosphatidylinositol-4,5-bisphosphate binding				0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GGTAGGAGCGGCCCACACCCG	0.592													15	100	---	---	---	---	PASS	A	3043692	A	A	3043692	3	1	115	1	0	0	0	0	1	0	0	0	16772	1203	42	3	919	3	TULP3	12	3043692	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	2769063	3043692	130808203	79	42245										
NOP2	4839	broad.mit.edu	37	chr12	6669272	6669272	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	aagattacttacctgtctggGactgagggatagaattggaa	12	5	1	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr12:6669272G>C	uc001qph.1	-	15	1949	c.1769C>G	c.(1768-1770)TCC>TGC	p.S590C	NOP2_uc009zeq.1_Missense_Mutation_p.S306C|NOP2_uc001qpi.1_Missense_Mutation_p.S590C|NOP2_uc001qpj.1_Missense_Mutation_p.S19C	NM_001033714	NP_001028886	P46087	NOP2_HUMAN	nucleolar protein 1, 120kDa	594					positive regulation of cell proliferation|rRNA processing	nucleolus	protein binding|RNA binding|S-adenosylmethionine-dependent methyltransferase activity			ovary(2)	2						ACCTGTCTGGGACTGAGGGAT	0.463													5	30	---	---	---	---	PASS	C	6669272	C	C	6669272	3	2	115	1	0	0	0	0	1	0	0	0	10538	1174	41	2	665	2	NOP2	12	6669272	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	3625580	6669272	127182623	80	42246										
C1S	716	broad.mit.edu	37	chr12	7177174	7177174	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cctagtctgtggagtccccaGagaaccctttgaagaaaaac	9	11	1	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr12:7177174G>A	uc001qsj.2	+	15	2005	c.1286G>A	c.(1285-1287)AGA>AAA	p.R429K	C1S_uc001qsk.2_Missense_Mutation_p.R429K|C1S_uc001qsl.2_Missense_Mutation_p.R429K|C1S_uc009zfr.2_Missense_Mutation_p.R262K|C1S_uc009zfs.2_RNA	NM_201442	NP_958850	P09871	C1S_HUMAN	complement component 1, s subcomponent	429					complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity			skin(1)	1					Abciximab(DB00054)|Adalimumab(DB00051)|Basiliximab(DB00074)|Cetuximab(DB00002)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Rituximab(DB00073)|Trastuzumab(DB00072)	GGAGTCCCCAGAGAACCCTTT	0.453													16	91	---	---	---	---	PASS	A	7177174	A	A	7177174	3	1	115	1	0	0	0	0	1	0	0	0	1974	942	33	2	1328	2	C1S	12	7177174	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	507902	7177174	126674721	81	42247										
LRP6	4040	broad.mit.edu	37	chr12	12311774	12311774	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gcagcttaccactacaagtcCtgttgtcagcattaagagag	9	10	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr12:12311774C>A	uc001rah.3	-	12	2922	c.2780G>T	c.(2779-2781)AGG>ATG	p.R927M	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.R927M	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	927	Extracellular (Potential).|EGF-like 3.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				ACTACAAGTCCTGTTGTCAGC	0.458													14	51	---	---	---	---	PASS	A	12311774	A	A	12311774	3	1	115	1	0	0	0	0	1	0	0	0	8962	681	24	3	2109	3	LRP6	12	12311774	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	5134600	12311774	121540121	82	42248										
ATF7IP	55729	broad.mit.edu	37	chr12	14613896	14613896	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cacttgctgtgcaggctgttCcaacagcacactctattgta	8	12	1	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr12:14613896C>T	uc001rbw.2	+	9	2784	c.2626C>T	c.(2626-2628)CCA>TCA	p.P876S	ATF7IP_uc010shs.1_3'UTR|ATF7IP_uc001rbu.2_Missense_Mutation_p.P876S|ATF7IP_uc001rbv.1_Missense_Mutation_p.P875S|ATF7IP_uc001rbx.2_Missense_Mutation_p.P875S|ATF7IP_uc010sht.1_3'UTR|ATF7IP_uc001rby.3_Missense_Mutation_p.P876S|ATF7IP_uc001rca.2_Missense_Mutation_p.P876S	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	876					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						GCAGGCTGTTCCAACAGCACA	0.478													6	45	---	---	---	---	PASS	T	14613896	T	T	14613896	3	4	115	1	0	0	0	0	1	0	0	0	1087	855	30	2	2656	2	ATF7IP	12	14613896	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	2302122	14613896	119237999	83	42249										
ABCD2	225	broad.mit.edu	37	chr12	39947745	39947745	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	catcttcatttttaattgttTtcagcactgagtcttctccc	4	11	5	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr12:39947745T>G	uc001rmb.2	-	10	2618	c.2192A>C	c.(2191-2193)AAA>ACA	p.K731T		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	731					fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						TTTAATTGTTTTCAGCACTGA	0.313													5	28	---	---	---	---	PASS	G	39947745	G	G	39947745	3	3	115	1	0	0	0	0	1	0	0	0	61	1841	64	5	34	5	ABCD2	12	39947745	Missense_Mutation	SNP	T	TCGA-56-5897-01A-11D-1632-08	25333849	39947745	93904150	84	42250										
MLL2	8085	broad.mit.edu	37	chr12	49437450	49437450	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tggggagttccttcctttctGagcctccatctcccttggct	9	14	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr12:49437450G>C	uc001rta.3	-	23	5435	c.5435C>G	c.(5434-5436)TCA>TGA	p.S1812*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1812					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTTCCTTTCTGAGCCTCCATC	0.537			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)	OREG0021780	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	40	---	---	---	---	PASS	C	49437450	C	C	49437450	4	2	115	1	0	0	0	0	0	1	0	0	9621	1294	45	2	11306	2	MLL2	12	49437450	Nonsense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	9489705	49437450	84414445	85	42251										
CALCOCO1	57658	broad.mit.edu	37	chr12	54109071	54109071	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	actgccttctccaatcgaagTatctctgcactcagcttcag	6	14	4	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr12:54109071T>C	uc001sef.2	-	10	1443	c.1299A>G	c.(1297-1299)ATA>ATG	p.I433M	CALCOCO1_uc001see.2_5'Flank|CALCOCO1_uc010som.1_Missense_Mutation_p.I348M|CALCOCO1_uc010son.1_Missense_Mutation_p.I310M|CALCOCO1_uc001seh.2_Missense_Mutation_p.I433M|CALCOCO1_uc009znd.2_Missense_Mutation_p.I433M|CALCOCO1_uc001seg.2_Missense_Mutation_p.I258M|CALCOCO1_uc010soo.1_Missense_Mutation_p.I426M	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	433	Potential.				steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						CCAATCGAAGTATCTCTGCAC	0.527													7	46	---	---	---	---	PASS	C	54109071	C	C	54109071	3	2	115	1	0	0	0	0	1	0	0	0	2577	1628	57	5	800	5	CALCOCO1	12	54109071	Missense_Mutation	SNP	T	TCGA-56-5897-01A-11D-1632-08	4671621	54109071	79742824	86	42252										
LRRIQ1	84125	broad.mit.edu	37	chr12	85547826	85547826	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tctactgctcagcaaatgttGaagagggcacagaaaatgaa	10	7	2	4			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr12:85547826G>A	uc001tac.2	+	23	4785	c.4674G>A	c.(4672-4674)TTG>TTA	p.L1558L		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1558										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		AGCAAATGTTGAAGAGGGCAC	0.294													3	13	---	---	---	---	PASS	A	85547826	A	A	85547826	2	1	115	1	0	0	0	0	0	0	0	1	9029	1281	45	2		2	LRRIQ1	12	85547826	Silent	SNP	G	TCGA-56-5897-01A-11D-1632-08	31438755	85547826	48304069	87	42253										
ACACB	32	broad.mit.edu	37	chr12	109654654	109654654	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	agcagttcaagccagacatgTcccaggtgctggactgcatc	11	12	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr12:109654654T>A	uc001tob.2	+	24	3612	c.3493T>A	c.(3493-3495)TCC>ACC	p.S1165T	ACACB_uc001toc.2_Missense_Mutation_p.S1165T	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1165					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GCCAGACATGTCCCAGGTGCT	0.537													4	32	---	---	---	---	PASS	A	109654654	A	A	109654654	3	1	115	1	0	0	0	0	1	0	0	0	107	1667	58	5	3583	5	ACACB	12	109654654	Missense_Mutation	SNP	T	TCGA-56-5897-01A-11D-1632-08	24106828	109654654	24197241	88	42254										
HSPB8	26353	broad.mit.edu	37	chr12	119617441	119617441	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gtgcacagcttcaagccagaGgagttgatggtgaagaccaa	13	8	1	4			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr12:119617441G>A	uc001txb.2	+	1	847	c.324G>A	c.(322-324)GAG>GAA	p.E108E	HSPB8_uc001txc.2_Silent_p.E108E	NM_014365	NP_055180	Q9UJY1	HSPB8_HUMAN	heat shock 22kDa protein 8	108					cell death|response to heat	cytoplasm|nucleus	identical protein binding|protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCAAGCCAGAGGAGTTGATGG	0.617													5	24	---	---	---	---	PASS	A	119617441	A	A	119617441	2	1	115	1	0	0	0	0	0	0	0	1	7423	991	35	3		3	HSPB8	12	119617441	Silent	SNP	G	TCGA-56-5897-01A-11D-1632-08	9962787	119617441	14234454	89	42255										
USPL1	10208	broad.mit.edu	37	chr13	31231868	31231868	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cctcagtaactcaccctaaaGatatatcagttgcccctcgt	5	14	3	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr13:31231868G>C	uc001utc.2	+	9	2086	c.1654G>C	c.(1654-1656)GAT>CAT	p.D552H	USPL1_uc001utd.2_Missense_Mutation_p.D223H|USPL1_uc001ute.1_Missense_Mutation_p.D223H	NM_005800	NP_005791	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	552					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			pancreas(2)|skin(1)	3		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0306)|Epithelial(112;0.131)|OV - Ovarian serous cystadenocarcinoma(117;0.134)		TCACCCTAAAGATATATCAGT	0.433													7	121	---	---	---	---	PASS	C	31231868	C	C	31231868	3	2	115	1	0	0	0	0	1	0	0	0	17089	942	33	2	1684	2	USPL1	13	31231868	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08		31231868	83938010	90	42256										
TPP2	7174	broad.mit.edu	37	chr13	103275340	103275340	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	agctgagatgttgaattactCcgttaatatatacgatgatg	9	5	0	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr13:103275340C>T	uc001vpi.3	+	6	837	c.734C>T	c.(733-735)TCC>TTC	p.S245F		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	245					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TTGAATTACTCCGTTAATATA	0.393													5	167	---	---	---	---	PASS	T	103275340	T	T	103275340	3	4	115	1	0	0	0	0	1	0	0	0	16409	855	30	2	756	2	TPP2	13	103275340	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	72043472	103275340	11894538	91	42257										
ACIN1	22985	broad.mit.edu	37	chr14	23549781	23549781	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	catctcctctggttttactcTaggtatctcttccccttctt	4	14	5	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr14:23549781T>G	uc001wit.3	-	6	1265	c.937A>C	c.(937-939)AGA>CGA	p.R313R	ACIN1_uc001wis.3_5'UTR|ACIN1_uc010akg.2_Silent_p.R313R|ACIN1_uc010tnj.1_Silent_p.R273R	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	313	Glu-rich.				apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		GGTTTTACTCTAGGTATCTCT	0.403													7	80	---	---	---	---	PASS	G	23549781	G	G	23549781	2	3	115	1	0	0	0	0	0	0	0	1	142	1530	53	5		5	ACIN1	14	23549781	Silent	SNP	T	TCGA-56-5897-01A-11D-1632-08		23549781	83799759	92	42258										
STRN3	29966	broad.mit.edu	37	chr14	31382827	31382827	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	catcagaacccataataaatGacttgcctcctccagatgga	6	12	1	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr14:31382827G>A	uc001wqu.2	-	10	1493	c.1277C>T	c.(1276-1278)TCA>TTA	p.S426L	STRN3_uc001wqv.2_Missense_Mutation_p.S342L|STRN3_uc010tpj.1_Intron	NM_001083893	NP_001077362	Q13033	STRN3_HUMAN	nuclear autoantigen isoform 1	426					negative regulation of estrogen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|response to estradiol stimulus	cytoplasm|dendrite|Golgi apparatus|neuronal cell body|nucleoplasm|nucleus|plasma membrane|protein complex	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.0124)		CATAATAAATGACTTGCCTCC	0.383													5	94	---	---	---	---	PASS	A	31382827	A	A	31382827	3	1	115	1	0	0	0	0	1	0	0	0	15329	1294	45	2	1152	2	STRN3	14	31382827	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	7833046	31382827	75966713	93	42259										
FUT8	2530	broad.mit.edu	37	chr14	66136158	66136158	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tttaggcctgtaagtgagacAtgcacagacagatctggcat	11	8	1	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr14:66136158A>T	uc001xin.2	+	7	1992	c.795A>T	c.(793-795)ACA>ACT	p.T265T	FUT8_uc001xio.2_Silent_p.T265T|FUT8_uc010tsp.1_Silent_p.T102T|FUT8_uc001xir.3_RNA|FUT8_uc001xip.2_Silent_p.T265T|FUT8_uc001xiq.2_Silent_p.T136T|FUT8_uc001xis.2_Missense_Mutation_p.M1L	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a	265	Lumenal (Potential).				in utero embryonic development|L-fucose catabolic process|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in Golgi|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	glycoprotein 6-alpha-L-fucosyltransferase activity|SH3 domain binding			ovary(1)	1				all cancers(60;0.00109)|OV - Ovarian serous cystadenocarcinoma(108;0.00242)|BRCA - Breast invasive adenocarcinoma(234;0.0114)		TAAGTGAGACATGCACAGACA	0.473													4	51	---	---	---	---	PASS	T	66136158	T	T	66136158	2	4	115	1	0	0	0	0	0	0	0	1	6110	217	8	5		5	FUT8	14	66136158	Silent	SNP	A	TCGA-56-5897-01A-11D-1632-08	34753331	66136158	41213382	94	42260										
GABRB3	2562	broad.mit.edu	37	chr15	26825481	26825481	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ctcacctgtggcgaagacaaCattcctcgagaccagacggt	10	13	1	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr15:26825481C>A	uc001zaz.2	-	6	809	c.667G>T	c.(667-669)GTT>TTT	p.V223F	GABRB3_uc010uae.1_Missense_Mutation_p.V138F|GABRB3_uc001zba.2_Missense_Mutation_p.V223F|GABRB3_uc001zbb.2_Missense_Mutation_p.V279F	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	223	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	GCGAAGACAACATTCCTCGAG	0.557													6	35	---	---	---	---	PASS	A	26825481	A	A	26825481	3	1	115	1	0	0	0	0	1	0	0	0	6168	478	17	3	770	3	GABRB3	15	26825481	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08		26825481	75705911	95	42261										
ARHGAP11A	9824	broad.mit.edu	37	chr15	32929036	32929036	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	catttaatagagaaacaactAtaaaatgttattcaactcag	4	6	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr15:32929036A>G	uc001zgy.1	+	12	2784	c.2062A>G	c.(2062-2064)ATA>GTA	p.I688V	ARHGAP11A_uc010ubw.1_Missense_Mutation_p.I499V|ARHGAP11A_uc010ubx.1_Missense_Mutation_p.I499V	NM_014783	NP_055598	Q6P4F7	RHGBA_HUMAN	Rho GTPase activating protein 11A isoform 1	688					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			skin(3)|breast(2)|urinary_tract(1)	6		all_lung(180;1.3e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)		AGAAACAACTATAAAATGTTA	0.323													9	41	---	---	---	---	PASS	G	32929036	G	G	32929036	3	3	115	1	0	0	0	0	1	0	0	0	863	449	16	5	2131	5	ARHGAP11A	15	32929036	Missense_Mutation	SNP	A	TCGA-56-5897-01A-11D-1632-08	6103555	32929036	69602356	96	42262										
AKAP13	11214	broad.mit.edu	37	chr15	86122914	86122914	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gtgttccaaactgtgcccctGctgccagttccctggatggt	11	13	0	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr15:86122914G>A	uc002blv.1	+	7	1785	c.1615G>A	c.(1615-1617)GCT>ACT	p.A539T	AKAP13_uc002blt.1_Missense_Mutation_p.A539T|AKAP13_uc002blu.1_Missense_Mutation_p.A539T	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	539					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CTGTGCCCCTGCTGCCAGTTC	0.458													19	58	---	---	---	---	PASS	A	86122914	A	A	86122914	3	1	115	1	0	0	0	0	1	0	0	0	449	1319	46	3	1637	3	AKAP13	15	86122914	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	53193878	86122914	16408478	97	42263										
RHCG	51458	broad.mit.edu	37	chr15	90030051	90030051	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tctccacgcccacgacgatgTagcggtcttgtaagaagtgg	12	11	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr15:90030051T>C	uc002bnz.2	-	2	374	c.350A>G	c.(349-351)TAC>TGC	p.Y117C	RHCG_uc002boa.2_RNA|RHCG_uc010bnq.1_5'UTR	NM_016321	NP_057405	Q9UBD6	RHCG_HUMAN	Rh family, C glycoprotein	117	Extracellular (Potential).				amine transport|cellular ion homeostasis|epithelial cell differentiation|transepithelial ammonium transport	apical plasma membrane|basolateral plasma membrane|cytoplasmic vesicle|integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			kidney(1)	1	Lung NSC(78;0.0237)|all_lung(78;0.0478)					CACGACGATGTAGCGGTCTTG	0.672													10	15	---	---	---	---	PASS	C	90030051	C	C	90030051	3	2	115	1	0	0	0	0	1	0	0	0	13326	1638	57	5	1125	5	RHCG	15	90030051	Missense_Mutation	SNP	T	TCGA-56-5897-01A-11D-1632-08	3907137	90030051	12501341	98	42264										
RUNDC2A	84127	broad.mit.edu	37	chr16	12136788	12136788	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tactacgtgaaggaggtcctCaacaagcacgagctgcagcg	12	11	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr16:12136788C>G	uc002dbw.1	+	5	344	c.282C>G	c.(280-282)CTC>CTG	p.L94L		NM_032167	NP_115543	Q9HA26	RUN2A_HUMAN	RUN domain containing 2A	94	RUN.									ovary(1)	1						AGGAGGTCCTCAACAAGCACG	0.652			T	CIITA	PMBL|Hodgkin Lymphona|								5	28	---	---	---	---	PASS	G	12136788	G	G	12136788	2	3	115	1	0	0	0	0	0	0	0	1	13743	813	29	2		2	RUNDC2A	16	12136788	Silent	SNP	C	TCGA-56-5897-01A-11D-1632-08		12136788	78217965	99	42265										
PLA2G15	23659	broad.mit.edu	37	chr16	68293349	68293349	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ccccacaccagactccttctActatgagagcttccctgacc	5	18	1	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr16:68293349A>G	uc002evr.2	+	6	1111	c.1028A>G	c.(1027-1029)TAC>TGC	p.Y343C	PLA2G15_uc010vld.1_3'UTR|PLA2G15_uc010vle.1_Missense_Mutation_p.Y249C|PLA2G15_uc010vlf.1_Missense_Mutation_p.Y143C|PLA2G15_uc002evs.2_Missense_Mutation_p.Y164C	NM_012320	NP_036452	Q8NCC3	PAG15_HUMAN	lysophospholipase 3 (lysosomal phospholipase A2)	343					fatty acid catabolic process	extracellular region|lysosome	lysophospholipase activity|phosphatidylcholine-sterol O-acyltransferase activity|phospholipid binding			ovary(1)	1						GACTCCTTCTACTATGAGAGC	0.587													18	67	---	---	---	---	PASS	G	68293349	G	G	68293349	3	3	115	1	0	0	0	0	1	0	0	0	11992	391	14	5	1050	5	PLA2G15	16	68293349	Missense_Mutation	SNP	A	TCGA-56-5897-01A-11D-1632-08	56156561	68293349	22061404	100	42266										
PMFBP1	83449	broad.mit.edu	37	chr16	72166725	72166725	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	agcctgcagggccttgcactCcgcctccttggacttgtcct	10	16	0	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr16:72166725C>G	uc002fcc.3	-	10	1541	c.1369G>C	c.(1369-1371)GAG>CAG	p.E457Q	PMFBP1_uc002fcd.2_Missense_Mutation_p.E457Q|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.E312Q	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	457	Potential.									ovary(2)	2		Ovarian(137;0.179)				GCCTTGCACTCCGCCTCCTTG	0.577													31	133	---	---	---	---	PASS	G	72166725	G	G	72166725	3	3	115	1	0	0	0	0	1	0	0	0	12134	864	30	2	1762	2	PMFBP1	16	72166725	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	3873376	72166725	18188028	101	42267										
DPH1	1801	broad.mit.edu	37	chr17	1939277	1939277	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cccgcaggttcacggaggccGaagtgatggtgatgggtgac	17	9	1	3			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr17:1939277G>A	uc002fts.2	+	4	325	c.307G>A	c.(307-309)GAA>AAA	p.E103K	DPH1_uc002ftr.1_RNA|DPH1_uc002ftt.2_Missense_Mutation_p.E98K|DPH1_uc010cjx.2_Intron|DPH1_uc010vqs.1_Missense_Mutation_p.E113K|DPH1_uc002ftu.2_5'Flank|DPH1_uc002ftv.2_5'Flank	NM_001383	NP_001374	Q9BZG8	DPH1_HUMAN	diptheria toxin resistance protein required for	103					peptidyl-diphthamide biosynthetic process from peptidyl-histidine|translation	cytoplasm|nucleus				pancreas(1)	1						CACGGAGGCCGAAGTGATGGT	0.642													5	41	---	---	---	---	PASS	A	1939277	A	A	1939277	3	1	115	1	0	0	0	0	1	0	0	0	4719	1059	37	2	321	2	DPH1	17	1939277	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08		1939277	79255933	102	42268										
TP53	7157	broad.mit.edu	37	chr17	7578212	7578212	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gggcaccaccacactatgtcGaaaagtgtttctgtcatcca	8	12	2	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr17:7578212G>A	uc002gim.2	-	6	831	c.637C>T	c.(637-639)CGA>TGA	p.R213*	TP53_uc002gig.1_Nonsense_Mutation_p.R213*|TP53_uc002gih.2_Nonsense_Mutation_p.R213*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R81*|TP53_uc010cng.1_Nonsense_Mutation_p.R81*|TP53_uc002gii.1_Nonsense_Mutation_p.R81*|TP53_uc010cnh.1_Nonsense_Mutation_p.R213*|TP53_uc010cni.1_Nonsense_Mutation_p.R213*|TP53_uc002gij.2_Nonsense_Mutation_p.R213*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.R120*|TP53_uc002gio.2_Nonsense_Mutation_p.R81*|TP53_uc010vug.1_Nonsense_Mutation_p.R174*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	213	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(186)|p.R213L(25)|p.R213Q(22)|p.R213fs*34(10)|p.0?(7)|p.R213P(5)|p.R81*(2)|p.R120*(2)|p.R213G(2)|p.K164_P219del(1)|p.D208_V216delDRNTFRHSV(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R213*33(1)|p.D208fs*1(1)|p.R213>L(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(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)		ACACTATGTCGAAAAGTGTTT	0.532		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)			7	27	---	---	---	---	PASS	A	7578212	A	A	7578212	4	1	115	1	0	0	0	0	0	1	0	0	16378	1066	37	2	657	2	TP53	17	7578212	Nonsense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	5638935	7578212	73616998	103	42269										
MYH8	4626	broad.mit.edu	37	chr17	10307790	10307790	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	catggtggccatctctttctCggtctctgcactcttgagga	10	12	4	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr17:10307790C>A	uc002gmm.2	-	22	2640	c.2545G>T	c.(2545-2547)GAG>TAG	p.E849*	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	849	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						ATCTCTTTCTCGGTCTCTGCA	0.473									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				10	73	---	---	---	---	PASS	A	10307790	A	A	10307790	4	1	115	1	0	0	0	0	0	1	0	0	10041	893	31	2	3344	2	MYH8	17	10307790	Nonsense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	2729578	10307790	70887420	104	42270										
SUPT6H	6830	broad.mit.edu	37	chr17	27028597	27028597	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gatcgaaagcacccccatgtCcattgctggcgatgccaccc	9	16	0	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr17:27028597C>G	uc002hby.2	+	37	5225	c.5135C>G	c.(5134-5136)TCC>TGC	p.S1712C	SUPT6H_uc010crt.2_Missense_Mutation_p.S1712C	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	1712					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					ACCCCCATGTCCATTGCTGGC	0.637													4	55	---	---	---	---	PASS	G	27028597	G	G	27028597	3	3	115	1	0	0	0	0	1	0	0	0	15397	855	30	2	5277	2	SUPT6H	17	27028597	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	16720807	27028597	54166613	105	42271										
CSH2	1443	broad.mit.edu	37	chr17	61950624	61950624	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	aaagcctggataacggaacgGtttggacggcaccagcctct	12	11	1	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr17:61950624G>T	uc002jch.2	-	2	201	c.86C>A	c.(85-87)ACC>AAC	p.T29N	CSH2_uc002jcg.2_Missense_Mutation_p.T29N|CSH2_uc002jci.2_Missense_Mutation_p.T29N|GH2_uc002jcj.2_Intron|CSH2_uc002jck.2_Missense_Mutation_p.T29N	NM_020991	NP_066271	P01243	CSH_HUMAN	chorionic somatomammotropin hormone 2 isoform 1	29					female pregnancy|signal transduction	extracellular region	hormone activity|metal ion binding				0						TAACGGAACGGTTTGGACGGC	0.602													8	103	---	---	---	---	PASS	T	61950624	T	T	61950624	3	4	115	1	0	0	0	0	1	0	0	0	3941	1261	44	3	631	3	CSH2	17	61950624	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	34922027	61950624	19244586	106	42272										
SNRPD1	6632	broad.mit.edu	37	chr18	19203843	19203843	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ttctaccagacagtttacctCtggatacactacttgtggat	7	10	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr18:19203843C>G	uc002ktj.1	+	3	357	c.226C>G	c.(226-228)CTG>GTG	p.L76V		NM_006938	NP_008869	P62314	SMD1_HUMAN	small nuclear ribonucleoprotein D1 polypeptide	76					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding|RNA binding				0						CAGTTTACCTCTGGATACACT	0.378													11	31	---	---	---	---	PASS	G	19203843	G	G	19203843	3	3	115	1	0	0	0	0	1	0	0	0	14864	912	32	2	236	2	SNRPD1	18	19203843	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08		19203843	58873405	107	42273										
HRH4	59340	broad.mit.edu	37	chr18	22057388	22057388	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tggtatagaattgcattttgGcttcagtggttcaattcctt	9	6	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr18:22057388G>T	uc002kvi.2	+	3	1135	c.1035G>T	c.(1033-1035)TGG>TGT	p.W345C	HRH4_uc010xbd.1_3'UTR|HRH4_uc010dlx.2_Missense_Mutation_p.W257C	NM_021624	NP_067637	Q9H3N8	HRH4_HUMAN	histamine H4 receptor isoform 1	345	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	histamine receptor activity			ovary(2)	2	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Clozapine(DB00363)	TTGCATTTTGGCTTCAGTGGT	0.363													26	158	---	---	---	---	PASS	T	22057388	T	T	22057388	3	4	115	1	0	0	0	0	1	0	0	0	7358	1212	42	3	1045	3	HRH4	18	22057388	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	2853545	22057388	56019860	108	42274										
NOL4	8715	broad.mit.edu	37	chr18	31463290	31463290	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ctataggtcccatttccattGatgtacagcacgtcctgtga	8	11	0	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr18:31463290G>T	uc010dmi.2	-	10	1870	c.1641C>A	c.(1639-1641)ATC>ATA	p.I547I	NOL4_uc010xbs.1_Silent_p.I262I|NOL4_uc002kxr.3_Silent_p.I319I|NOL4_uc010xbt.1_Silent_p.I473I|NOL4_uc010dmh.2_Silent_p.I409I|NOL4_uc010xbu.1_Silent_p.I483I|NOL4_uc002kxt.3_Silent_p.I445I	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	547						nucleolus	RNA binding			ovary(3)	3						CATTTCCATTGATGTACAGCA	0.483													9	101	---	---	---	---	PASS	T	31463290	T	T	31463290	2	4	115	1	0	0	0	0	0	0	0	1	10524	1280	45	2		2	NOL4	18	31463290	Silent	SNP	G	TCGA-56-5897-01A-11D-1632-08	9405902	31463290	46613958	109	42275										
C3	718	broad.mit.edu	37	chr19	6684439	6684439	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	catagtgttcttggcatcctGaggcctcttttctagaaaca	8	10	3	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr19:6684439G>A	uc002mfm.2	-	33	4194	c.4132C>T	c.(4132-4134)CAG>TAG	p.Q1378*	C3_uc002mfl.2_Nonsense_Mutation_p.Q114*	NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	1378					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TTGGCATCCTGAGGCCTCTTT	0.478													10	77	---	---	---	---	PASS	A	6684439	A	A	6684439	4	1	115	1	0	0	0	0	0	1	0	0	2204	1299	45	2	895	2	C3	19	6684439	Nonsense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08		6684439	52444544	110	42276										
ZNF20	7568	broad.mit.edu	37	chr19	12244329	12244329	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tgtttacacttatatggtttCacaccagtgtgaattcgttc	7	8	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr19:12244329C>T	uc002mtf.1	-	4	815	c.672G>A	c.(670-672)GTG>GTA	p.V224V	ZNF20_uc002mte.1_Silent_p.V189V|ZNF20_uc002mtg.1_Silent_p.V224V	NM_021143	NP_066966	P17024	ZNF20_HUMAN	zinc finger protein 20	224					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TATATGGTTTCACACCAGTGT	0.388													25	82	---	---	---	---	PASS	T	12244329	T	T	12244329	2	4	115	1	0	0	0	0	0	0	0	1	17758	813	29	2		2	ZNF20	19	12244329	Silent	SNP	C	TCGA-56-5897-01A-11D-1632-08	5559890	12244329	46884654	111	42277										
C19orf62	29086	broad.mit.edu	37	chr19	17384808	17384808	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	aagccacgagtttgcactggTggtggtgaacgatgacacgg	15	8	0	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr19:17384808T>G	uc002nfu.2	+	4	558	c.440T>G	c.(439-441)GTG>GGG	p.V147G	C19orf62_uc010xpl.1_Intron|C19orf62_uc002nfv.2_Missense_Mutation_p.V147G|C19orf62_uc010ean.2_RNA|C19orf62_uc002nfw.2_Missense_Mutation_p.V147G	NM_014173	NP_054892	Q9NWV8	BABA1_HUMAN	mediator of Rap80 interactions and targeting 40	147	VWFA-like.				chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of DNA repair|protein K63-linked deubiquitination|response to ionizing radiation	BRCA1-A complex|BRISC complex|cytoplasm	protein binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2						TTTGCACTGGTGGTGGTGAAC	0.607													3	34	---	---	---	---	PASS	G	17384808	G	G	17384808	3	3	115	1	0	0	0	0	1	0	0	0	1944	1696	59	5	450	5	C19orf62	19	17384808	Missense_Mutation	SNP	T	TCGA-56-5897-01A-11D-1632-08	5140479	17384808	41744175	112	42278										
ZNF780B	163131	broad.mit.edu	37	chr19	40540887	40540887	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gttcttatggtgattaagctGggtgtgaagactgaaggcct	14	5	1	4			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr19:40540887G>A	uc002omu.2	-	5	1944	c.1879C>T	c.(1879-1881)CAG>TAG	p.Q627*	ZNF780B_uc002omv.2_Nonsense_Mutation_p.Q479*	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	627	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TGATTAAGCTGGGTGTGAAGA	0.403													13	92	---	---	---	---	PASS	A	40540887	A	A	40540887	4	1	115	1	0	0	0	0	0	1	0	0	18150	1357	47	3	626	3	ZNF780B	19	40540887	Nonsense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	23156079	40540887	18588096	113	42279										
C19orf47	126526	broad.mit.edu	37	chr19	40827975	40827975	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ctgtcctgggcctcgggcacAagggcagctgcgcccagtct	14	15	1	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr19:40827975A>C	uc002oni.3	-	9	1084	c.1083T>G	c.(1081-1083)CTT>CTG	p.L361L	C19orf47_uc002ong.2_Silent_p.L220L|C19orf47_uc002onh.2_Silent_p.L294L	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526	361										ovary(1)|skin(1)	2			Lung(22;0.000636)			CCTCGGGCACAAGGGCAGCTG	0.622													9	23	---	---	---	---	PASS	C	40827975	C	C	40827975	2	2	115	1	0	0	0	0	0	0	0	1	1930	117	5	5		5	C19orf47	19	40827975	Silent	SNP	A	TCGA-56-5897-01A-11D-1632-08	287088	40827975	18301008	114	42280										
CLPTM1	1209	broad.mit.edu	37	chr19	45490529	45490529	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	aggactactaccccatcaacGagagcctggccagcctgccg	10	16	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr19:45490529G>T	uc002pai.2	+	8	901	c.886G>T	c.(886-888)GAG>TAG	p.E296*	CLPTM1_uc010ejv.1_Nonsense_Mutation_p.E194*|CLPTM1_uc010xxf.1_Nonsense_Mutation_p.E194*|CLPTM1_uc010xxg.1_Nonsense_Mutation_p.E282*	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane	296	Extracellular (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)		CCCCATCAACGAGAGCCTGGC	0.577													12	97	---	---	---	---	PASS	T	45490529	T	T	45490529	4	4	115	1	0	0	0	0	0	1	0	0	3554	1059	37	2	916	2	CLPTM1	19	45490529	Nonsense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	4662554	45490529	13638454	115	42281										
NUP62	23636	broad.mit.edu	37	chr19	50412425	50412425	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gctgggcccagtgctggtgaTggtggctgtgggtgtgggag	22	6	0	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr19:50412425T>C	uc002pqx.2	-	2	744	c.640A>G	c.(640-642)ATC>GTC	p.I214V	IL4I1_uc002pqv.1_Intron|IL4I1_uc010eno.1_Intron|IL4I1_uc002pqw.1_Intron|IL4I1_uc002pqu.1_Intron|NUP62_uc002pqy.2_Missense_Mutation_p.I214V|NUP62_uc002pqz.2_Missense_Mutation_p.I214V|NUP62_uc002pra.2_Missense_Mutation_p.I214V|NUP62_uc002prb.2_Missense_Mutation_p.I214V|NUP62_uc002prc.2_Missense_Mutation_p.I214V	NM_153719	NP_714941	P37198	NUP62_HUMAN	nucleoporin 62kDa	214	15 X 9 AA approximate repeats.|Ala-rich.|Thr-rich.				carbohydrate metabolic process|cell death|cell surface receptor linked signaling pathway|glucose transport|hormone-mediated signaling pathway|mRNA transport|negative regulation of apoptosis|negative regulation of cell proliferation|nucleocytoplasmic transport|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|protein transport|regulation of glucose transport|transcription, DNA-dependent|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleocytoplasmic shuttling complex|ribonucleoprotein complex|spindle pole	chromatin binding|protein serine/threonine kinase activity|receptor signaling complex scaffold activity|SH2 domain binding|structural constituent of nuclear pore|thyroid hormone receptor binding|ubiquitin binding				0		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00242)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		GTGCTGGTGATGGTGGCTGTG	0.647													6	79	---	---	---	---	PASS	C	50412425	C	C	50412425	3	2	115	1	0	0	0	0	1	0	0	0	10768	1464	51	5	932	5	NUP62	19	50412425	Missense_Mutation	SNP	T	TCGA-56-5897-01A-11D-1632-08	4921896	50412425	8716558	116	42282										
LILRB1	10859	broad.mit.edu	37	chr19	55143939	55143939	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ttctaagaagccatcactctCagtgcagccaggtcctatcg	8	13	3	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr19:55143939C>G	uc002qgj.2	+	7	1026	c.686C>G	c.(685-687)TCA>TGA	p.S229*	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Nonsense_Mutation_p.S229*|LILRB1_uc002qgk.2_Nonsense_Mutation_p.S229*|LILRB1_uc002qgm.2_Nonsense_Mutation_p.S229*|LILRB1_uc010erq.2_Nonsense_Mutation_p.S229*|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	229	Ig-like C2-type 3.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		CCATCACTCTCAGTGCAGCCA	0.557										HNSCC(37;0.09)			3	62	---	---	---	---	PASS	G	55143939	G	G	55143939	4	3	115	1	0	0	0	0	0	1	0	0	8790	838	29	2	704	2	LILRB1	19	55143939	Nonsense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	4731514	55143939	3985044	117	42283										
PTPRH	5794	broad.mit.edu	37	chr19	55708712	55708712	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	actgagagtgggggtctccaGgggccttccaccacagcatg	14	12	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr19:55708712G>A	uc002qjq.2	-	9	1836	c.1763C>T	c.(1762-1764)CCT>CTT	p.P588L	PTPRH_uc010esv.2_Missense_Mutation_p.P410L|PTPRH_uc002qjs.2_Missense_Mutation_p.P595L	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	588	Extracellular (Potential).|Fibronectin type-III 7.				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)		GGGGTCTCCAGGGGCCTTCCA	0.557													9	33	---	---	---	---	PASS	A	55708712	A	A	55708712	3	1	115	1	0	0	0	0	1	0	0	0	12803	1000	35	3	1632	3	PTPRH	19	55708712	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	564773	55708712	3420271	118	42284										
CTSA	5476	broad.mit.edu	37	chr20	44523469	44523469	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cctcacattgcaggtatgagAaggacactgttgtggtccag	12	9	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr20:44523469A>G	uc002xqj.3	+	10	1351	c.877A>G	c.(877-879)AAG>GAG	p.K293E	CTSA_uc002xqh.2_Missense_Mutation_p.K311E|CTSA_uc002xqi.2_RNA|CTSA_uc010zxi.1_Missense_Mutation_p.K294E|CTSA_uc002xqk.3_Missense_Mutation_p.K293E	NM_001127695	NP_001121167	P10619	PPGB_HUMAN	cathepsin A isoform b precursor	293					intracellular protein transport|proteolysis	endoplasmic reticulum|lysosome|nucleus	enzyme activator activity|protein binding|serine-type carboxypeptidase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CAGGTATGAGAAGGACACTGT	0.597													12	115	---	---	---	---	PASS	G	44523469	G	G	44523469	3	3	115	1	0	0	0	0	1	0	0	0	4029	247	9	5	969	5	CTSA	20	44523469	Missense_Mutation	SNP	A	TCGA-56-5897-01A-11D-1632-08		44523469	18502051	119	42285										
TMPRSS15	5651	broad.mit.edu	37	chr21	19715877	19715877	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	ccataattccaattgtctccAtaatttccttccttttggaa	3	11	1	0			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr21:19715877A>G	uc002ykw.2	-	12	1405	c.1374T>C	c.(1372-1374)TAT>TAC	p.Y458Y		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	458	Extracellular (Potential).|MAM.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						AATTGTCTCCATAATTTCCTT	0.294													6	70	---	---	---	---	PASS	G	19715877	G	G	19715877	2	3	115	1	0	0	0	0	0	0	0	1	16243	224	8	5		5	TMPRSS15	21	19715877	Silent	SNP	A	TCGA-56-5897-01A-11D-1632-08		19715877	28414018	120	42286										
PLXNB2	23654	broad.mit.edu	37	chr22	50717382	50717382	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	cctgggagatggtgtcacagTtgaggaccttcaccgggatg	15	9	2	2			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr22:50717382T>A	uc003bkv.3	-	28	4554	c.4448A>T	c.(4447-4449)AAC>ATC	p.N1483I	PLXNB2_uc003bkt.1_Missense_Mutation_p.N275I|PLXNB2_uc003bku.1_Missense_Mutation_p.N468I	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1483	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GGTGTCACAGTTGAGGACCTT	0.632													10	23	---	---	---	---	PASS	A	50717382	A	A	50717382	3	1	115	1	0	0	0	0	1	0	0	0	12124	1725	60	5	1108	5	PLXNB2	22	50717382	Missense_Mutation	SNP	T	TCGA-56-5897-01A-11D-1632-08		50717382	587184	121	42287										
CHKB	1120	broad.mit.edu	37	chr22	51019077	51019077	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gttgggggcaggtcctggatCtgttttaggtacctgaagcc	15	8	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chr22:51019077C>T	uc003bms.2	-	5	812	c.594G>A	c.(592-594)CAG>CAA	p.Q198Q	CPT1B_uc003bmk.3_5'Flank|CPT1B_uc003bml.2_5'Flank|CPT1B_uc003bmm.2_5'Flank|CPT1B_uc003bmo.2_5'Flank|CPT1B_uc011asa.1_5'Flank|CPT1B_uc003bmn.2_5'Flank|CPT1B_uc011asb.1_5'Flank|CHKB-CPT1B_uc003bmp.2_5'Flank|CHKB-CPT1B_uc003bmt.1_5'UTR|CHKB-CPT1B_uc003bmu.2_Silent_p.Q77Q|CHKB_uc003bmv.2_Silent_p.Q198Q|LOC100144603_uc003bmw.3_5'Flank	NM_005198	NP_005189	Q9Y259	CHKB_HUMAN	choline kinase beta	198					phosphatidylethanolamine biosynthetic process		ATP binding|choline kinase activity|ethanolamine kinase activity				0		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		all cancers(3;4.04e-77)|OV - Ovarian serous cystadenocarcinoma(4;5.79e-74)|Epithelial(4;6.17e-70)|GBM - Glioblastoma multiforme(4;5.68e-08)|LUAD - Lung adenocarcinoma(64;0.0016)|Lung(4;0.00942)|BRCA - Breast invasive adenocarcinoma(115;0.205)	Choline(DB00122)	GGTCCTGGATCTGTTTTAGGT	0.562													5	48	---	---	---	---	PASS	T	51019077	T	T	51019077	2	4	115	1	0	0	0	0	0	0	0	1	3348	912	32	2		2	CHKB	22	51019077	Silent	SNP	C	TCGA-56-5897-01A-11D-1632-08	301695	51019077	285489	122	42288										
FAM47C	442444	broad.mit.edu	37	chrX	37028784	37028784	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	catctccgcccggagcctccTgagactggagtgtcccatct	10	16	2	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chrX:37028784T>A	uc004ddl.1	+	1	2315	c.2301T>A	c.(2299-2301)CCT>CCA	p.P767P		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	767										ovary(3)	3						CGGAGCCTCCTGAGACTGGAG	0.632													10	22	---	---	---	---	PASS	A	37028784	A	A	37028784	2	1	115	1	0	0	0	0	0	0	0	1	5571	1567	55	5		5	FAM47C	23	37028784	Silent	SNP	T	TCGA-56-5897-01A-11D-1632-08		37028784	118241776	123	42289										
MAGEE1	57692	broad.mit.edu	37	chrX	75649243	75649243	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	caccgagggcctgagcacctCcgtgcagcccactgctggtg	13	16	0	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chrX:75649243C>T	uc004ecm.1	+	1	1127	c.920C>T	c.(919-921)TCC>TTC	p.S307F		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	307	Pro-rich.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						CTGAGCACCTCCGTGCAGCCC	0.701													8	4	---	---	---	---	PASS	T	75649243	T	T	75649243	3	4	115	1	0	0	0	0	1	0	0	0	9185	855	30	2	922	2	MAGEE1	23	75649243	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	38620459	75649243	79621317	124	42290										
P2RY10	27334	broad.mit.edu	37	chrX	78216453	78216453	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tcagggccagagactggaagCgtaggtacgatgtgggcatc	16	8	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chrX:78216453C>G	uc004ede.2	+	4	805	c.436C>G	c.(436-438)CGT>GGT	p.R146G	P2RY10_uc004edf.2_Missense_Mutation_p.R146G	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	146	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						AGACTGGAAGCGTAGGTACGA	0.488													18	34	---	---	---	---	PASS	G	78216453	G	G	78216453	3	3	115	1	0	0	0	0	1	0	0	0	11347	768	27	4	438	4	P2RY10	23	78216453	Missense_Mutation	SNP	C	TCGA-56-5897-01A-11D-1632-08	2567210	78216453	77054107	125	42291										
DOCK11	139818	broad.mit.edu	37	chrX	117788715	117788715	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	agtcctatgcaagcaccccaGagctcaggaaaacctggctt	9	13	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chrX:117788715G>C	uc004eqp.2	+	43	4909	c.4846G>C	c.(4846-4848)GAG>CAG	p.E1616Q	DOCK11_uc004eqq.2_Missense_Mutation_p.E1395Q	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1616	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						AAGCACCCCAGAGCTCAGGAA	0.428													16	30	---	---	---	---	PASS	C	117788715	C	C	117788715	3	2	115	1	0	0	0	0	1	0	0	0	4686	943	33	2	5016	2	DOCK11	23	117788715	Missense_Mutation	SNP	G	TCGA-56-5897-01A-11D-1632-08	39572262	117788715	37481845	126	42292										
GRIA3	2892	broad.mit.edu	37	chrX	122528848	122528848	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	gatattttactggaaagagtCatgcatgggggagccaacat	12	6	1	1			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chrX:122528848C>A	uc004etq.3	+	7	1073	c.780C>A	c.(778-780)GTC>GTA	p.V260V	GRIA3_uc004etr.3_Silent_p.V260V|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Silent_p.V244V	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	260	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	TGGAAAGAGTCATGCATGGGG	0.433													8	27	---	---	---	---	PASS	A	122528848	A	A	122528848	2	1	115	1	0	0	0	0	0	0	0	1	6769	813	29	2		2	GRIA3	23	122528848	Silent	SNP	C	TCGA-56-5897-01A-11D-1632-08	4740133	122528848	32741712	127	42293										
BCORL1	63035	broad.mit.edu	37	chrX	129159314	129159314	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.259842519685039	33	1.35615976110893e-10	3.408228980322	4.97272466264714	2.29661362709098	0.155401359597851	0.491849742725048	23	tatcagactggggagtacctGacagagcaagaagacgagca	13	8	1	5			TCGA-56-5897-01A-11D-1632-08	TCGA-56-5897-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	056acb55-f3ba-4ce0-9735-3cfe6516df55	61551313-41c7-4703-897a-8f1e2ecc2ece	g.chrX:129159314G>A	uc004evb.1	+	7	4152	c.4038G>A	c.(4036-4038)CTG>CTA	p.L1346L	BCORL1_uc010nrd.1_Intron|BCORL1_uc004evc.1_Silent_p.L108L	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1346					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GGGAGTACCTGACAGAGCAAG	0.512													16	14	---	---	---	---	PASS	A	129159314	A	A	129159314	2	1	115	1	0	0	0	0	0	0	0	1	1387	1277	45	2		2	BCORL1	23	129159314	Silent	SNP	G	TCGA-56-5897-01A-11D-1632-08	6630466	129159314	26111246	128	42294										
ATAD3A	55210	broad.mit.edu	37	chr1	1454326	1454326	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tctcaatgaggagaatttacGgaagcaggaggagtccgtgc	14	7	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:1454326G>A	uc001afz.1	+	5	708	c.614G>A	c.(613-615)CGG>CAG	p.R205Q	ATAD3A_uc001aga.1_Missense_Mutation_p.R157Q|ATAD3A_uc001agb.1_Missense_Mutation_p.R78Q	NM_018188	NP_060658	Q9NVI7	ATD3A_HUMAN	ATPase family, AAA domain containing 3A	205	Potential.						ATP binding|nucleoside-triphosphatase activity|protein binding			skin(1)	1	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.12e-36)|OV - Ovarian serous cystadenocarcinoma(86;2.18e-22)|Colorectal(212;0.000164)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00233)|BRCA - Breast invasive adenocarcinoma(365;0.00469)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0347)|Lung(427;0.147)		GAGAATTTACGGAAGCAGGAG	0.572													10	69	---	---	---	---	PASS	A	1454326	A	A	1454326	3	1	116	1	0	0	0	0	1	0	0	0	1073	1116	39	1	632	1	ATAD3A	1	1454326	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08		1454326	247796295	1	42295										
TRIM63	84676	broad.mit.edu	37	chr1	26386826	26386826	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cggtcattccccgccaccagCatggagatacagttattcag	9	13	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:26386826C>T	uc001bli.1	-	4	664	c.528G>A	c.(526-528)ATG>ATA	p.M176I		NM_032588	NP_115977	Q969Q1	TRI63_HUMAN	muscle specific ring finger protein 1	176	Interaction with TTN.					cytoplasm|microtubule|nucleus	ligase activity|signal transducer activity|titin binding|zinc ion binding			kidney(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000154)|all_lung(284;0.00021)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;9.15e-26)|Colorectal(126;3.16e-08)|COAD - Colon adenocarcinoma(152;1.72e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000767)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		CCGCCACCAGCATGGAGATAC	0.572													7	35	---	---	---	---	PASS	T	26386826	T	T	26386826	3	4	116	1	0	0	0	0	1	0	0	0	16535	710	25	3	557	3	TRIM63	1	26386826	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	24932500	26386826	222863795	2	42296										
PHACTR4	65979	broad.mit.edu	37	chr1	28800600	28800600	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tgaaaacagtgacagcttttCtgaggacagcagtacgctgg	12	8	1	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:28800600C>A	uc001bpw.2	+	7	1640	c.1358C>A	c.(1357-1359)TCT>TAT	p.S453Y	PHACTR4_uc001bpv.1_RNA|PHACTR4_uc001bpx.2_Missense_Mutation_p.S437Y|PHACTR4_uc001bpy.2_Missense_Mutation_p.S463Y	NM_001048183	NP_001041648	Q8IZ21	PHAR4_HUMAN	phosphatase and actin regulator 4 isoform 1	453							actin binding|protein phosphatase inhibitor activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;7.01e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;1.35e-21)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0144)|READ - Rectum adenocarcinoma(331;0.0649)		GACAGCTTTTCTGAGGACAGC	0.478													16	94	---	---	---	---	PASS	A	28800600	A	A	28800600	3	1	116	1	0	0	0	0	1	0	0	0	11812	913	32	2	1430	2	PHACTR4	1	28800600	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	2413774	28800600	220450021	3	42297										
PHC2	1912	broad.mit.edu	37	chr1	33836642	33836642	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gatgactgggccggggcctgCgcagacacattgctgcctga	15	12	0	3	rs150111238		TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:33836642C>A	uc001bxg.1	-	3	441	c.387G>T	c.(385-387)GCG>GCT	p.A129A	PHC2_uc001bxh.1_Silent_p.A129A|PHC2_uc009vuh.1_Silent_p.A129A|PHC2_uc001bxi.1_Silent_p.A129A	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	129					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)				CCGGGGCCTGCGCAGACACAT	0.567													4	76	---	---	---	---	PASS	A	33836642	A	A	33836642	2	1	116	1	0	0	0	0	0	0	0	1	11817	755	27	1		1	PHC2	1	33836642	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	5036042	33836642	215413979	4	42298										
CSMD2	114784	broad.mit.edu	37	chr1	34066583	34066583	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ctccgggtgaagacgccgagCcgtggtgctgtttgctgtgg	17	10	0	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:34066583C>T	uc001bxn.1	-	45	6773	c.6744G>A	c.(6742-6744)CGG>CGA	p.R2248R	CSMD2_uc001bxm.1_Silent_p.R2246R|CSMD2_uc001bxo.1_Silent_p.R1119R	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2248	Extracellular (Potential).|CUB 13.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AGACGCCGAGCCGTGGTGCTG	0.577													15	58	---	---	---	---	PASS	T	34066583	T	T	34066583	2	4	116	1	0	0	0	0	0	0	0	1	3945	726	26	3		3	CSMD2	1	34066583	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	229941	34066583	215184038	5	42299										
MFSD2A	84879	broad.mit.edu	37	chr1	40434012	40434012	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	actactctgcgcaggtccatGctgcctgatgtcattgacga	10	12	2	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:40434012G>T	uc001cev.2	+	12	1435	c.1254G>T	c.(1252-1254)ATG>ATT	p.M418I	MFSD2A_uc010ojb.1_Missense_Mutation_p.M366I|MFSD2A_uc001ceu.2_Missense_Mutation_p.M405I|MFSD2A_uc010ojc.1_Missense_Mutation_p.M249I|MFSD2A_uc009vvy.2_RNA|MFSD2A_uc001cex.2_Missense_Mutation_p.M69I	NM_001136493	NP_001129965	Q8NA29	MFS2A_HUMAN	major facilitator superfamily domain containing	418					transmembrane transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)|pancreas(1)	2						GCAGGTCCATGCTGCCTGATG	0.527													11	21	---	---	---	---	PASS	T	40434012	T	T	40434012	3	4	116	1	0	0	0	0	1	0	0	0	9530	1319	46	3	1300	3	MFSD2A	1	40434012	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	6367429	40434012	208816609	6	42300										
LRRC7	57554	broad.mit.edu	37	chr1	70446129	70446129	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	taataatgcattacaagtgtTacctggggtatgtaagtttt	9	4	0	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:70446129T>C	uc001dep.2	+	7	695	c.665T>C	c.(664-666)TTA>TCA	p.L222S	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	222	LRR 9.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TTACAAGTGTTACCTGGGGTA	0.343													12	69	---	---	---	---	PASS	C	70446129	C	C	70446129	3	2	116	1	0	0	0	0	1	0	0	0	9020	1764	61	5	691	5	LRRC7	1	70446129	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	30012117	70446129	178804492	7	42301										
C1orf173	127254	broad.mit.edu	37	chr1	75038518	75038518	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tctttgatgctgtgtcctccAtgggtcctgtgtcctctagg	11	11	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:75038518A>G	uc001dgg.2	-	14	3095	c.2876T>C	c.(2875-2877)ATG>ACG	p.M959T		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	959	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TGTGTCCTCCATGGGTCCTGT	0.527													9	40	---	---	---	---	PASS	G	75038518	G	G	75038518	3	3	116	1	0	0	0	0	1	0	0	0	2014	217	8	5	1720	5	C1orf173	1	75038518	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	4592389	75038518	174212103	8	42302										
SLC44A5	204962	broad.mit.edu	37	chr1	75693501	75693501	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	agttaatacagaacttgggcGttcctgaagattggtgtact	11	6	0	3	rs149696907	byFrequency	TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:75693501G>T	uc001dgu.2	-	13	1039	c.895C>A	c.(895-897)CGC>AGC	p.R299S	SLC44A5_uc001dgt.2_Missense_Mutation_p.R299S|SLC44A5_uc001dgs.2_Missense_Mutation_p.R257S|SLC44A5_uc001dgr.2_Missense_Mutation_p.R257S|SLC44A5_uc010oqz.1_Missense_Mutation_p.R338S|SLC44A5_uc010ora.1_Missense_Mutation_p.R293S|SLC44A5_uc010orb.1_Missense_Mutation_p.R169S	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	299	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						GAACTTGGGCGTTCCTGAAGA	0.338													5	29	---	---	---	---	PASS	T	75693501	T	T	75693501	3	4	116	1	0	0	0	0	1	0	0	0	14639	1145	40	1	1423	1	SLC44A5	1	75693501	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	654983	75693501	173557120	9	42303										
EPHX4	253152	broad.mit.edu	37	chr1	92528792	92528792	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	caagaccaacctgacatagtGaacaaattgatatggacatt	7	8	0	4			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:92528792G>C	uc001don.2	+	7	1142	c.1038G>C	c.(1036-1038)GTG>GTC	p.V346V		NM_173567	NP_775838	Q8IUS5	EPHX4_HUMAN	abhydrolase domain containing 7	346						integral to membrane	hydrolase activity			central_nervous_system(1)	1						CTGACATAGTGAACAAATTGA	0.318													6	45	---	---	---	---	PASS	C	92528792	C	C	92528792	2	2	116	1	0	0	0	0	0	0	0	1	5182	1277	45	2		2	EPHX4	1	92528792	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08	16835291	92528792	156721829	10	42304										
CHIA	27159	broad.mit.edu	37	chr1	111862916	111862916	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cgggagcgggagtagcagctCtggaggcagctcgggaggca	20	9	1	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:111862916C>A	uc001eas.2	+	12	1362	c.1259C>A	c.(1258-1260)TCT>TAT	p.S420Y	CHIA_uc001ear.2_Missense_Mutation_p.S312Y|CHIA_uc001eaq.2_Missense_Mutation_p.S312Y|CHIA_uc009wgc.2_Missense_Mutation_p.S312Y|CHIA_uc001eat.2_Missense_Mutation_p.S259Y|CHIA_uc001eav.2_Missense_Mutation_p.S259Y|CHIA_uc001eau.2_Missense_Mutation_p.S259Y|CHIA_uc009wgd.2_Missense_Mutation_p.S259Y	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	420	Poly-Ser.				apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		AGTAGCAGCTCTGGAGGCAGC	0.577													7	34	---	---	---	---	PASS	A	111862916	A	A	111862916	3	1	116	1	0	0	0	0	1	0	0	0	3342	913	32	2	1301	2	CHIA	1	111862916	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	19334124	111862916	137387705	11	42305										
CASQ1	844	broad.mit.edu	37	chr1	160165289	160165289	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atgcagctgaggagtttcatCcctacatccccttcttcgcc	7	15	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:160165289C>A	uc010pja.1	+	5	873	c.616C>A	c.(616-618)CCC>ACC	p.P206T		NM_001231	NP_001222	P31415	CASQ1_HUMAN	calsequestrin 1	206						mitochondrial matrix|sarcoplasmic reticulum lumen|smooth endoplasmic reticulum	calcium ion binding			central_nervous_system(1)	1	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GGAGTTTCATCCCTACATCCC	0.562													21	22	---	---	---	---	PASS	A	160165289	A	A	160165289	3	1	116	1	0	0	0	0	1	0	0	0	2680	855	30	2	634	2	CASQ1	1	160165289	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	48302373	160165289	89085332	12	42306										
TOMM40L	84134	broad.mit.edu	37	chr1	161197498	161197498	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aggtcttgctcctcttggcaGagcggctccgagctaaggct	13	12	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:161197498G>A	uc001fzd.2	+	5	578	c.349G>A	c.(349-351)GAG>AAG	p.E117K	TOMM40L_uc010pkk.1_RNA|TOMM40L_uc010pkl.1_Intron|TOMM40L_uc009wue.2_Intron|TOMM40L_uc009wuf.1_RNA|TOMM40L_uc001fze.2_Missense_Mutation_p.E117K	NM_032174	NP_115550	Q969M1	TM40L_HUMAN	translocase of outer mitochondrial membrane 40	117					protein transport	mitochondrial outer membrane|pore complex	porin activity|voltage-gated anion channel activity			large_intestine(1)	1	all_cancers(52;1.86e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			CCTCTTGGCAGAGCGGCTCCG	0.587											OREG0013943	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	21	---	---	---	---	PASS	A	161197498	A	A	161197498	3	1	116	1	0	0	0	0	1	0	0	0	16356	943	33	2	363	2	TOMM40L	1	161197498	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	1032209	161197498	88053123	13	42307										
C1orf192	257177	broad.mit.edu	37	chr1	161336064	161336064	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tgtagccttcatgagaagagAtgctctggggtacaagtggg	15	6	2	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:161336064A>T	uc001gal.2	-	3	101	c.95T>A	c.(94-96)ATC>AAC	p.I32N		NM_001013625	NP_001013647	Q5VTH2	CA192_HUMAN	hypothetical protein LOC257177	32											0	all_cancers(52;4.64e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			ATGAGAAGAGATGCTCTGGGG	0.463													17	20	---	---	---	---	PASS	T	161336064	T	T	161336064	3	4	116	1	0	0	0	0	1	0	0	0	2024	333	12	5	450	5	C1orf192	1	161336064	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	138566	161336064	87914557	14	42308										
TNR	7143	broad.mit.edu	37	chr1	175325554	175325554	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aggaagcaggtcaacaagccGaaattcctcactgactccgt	9	12	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:175325554G>A	uc001gkp.1	-	14	3100	c.3019C>T	c.(3019-3021)CGG>TGG	p.R1007W	TNR_uc009wwu.1_Missense_Mutation_p.R1007W	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1007	Fibronectin type-III 8.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TCAACAAGCCGAAATTCCTCA	0.473													24	40	---	---	---	---	PASS	A	175325554	A	A	175325554	3	1	116	1	0	0	0	0	1	0	0	0	16335	1057	37	2	1089	2	TNR	1	175325554	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	13989490	175325554	73925067	15	42309										
USH2A	7399	broad.mit.edu	37	chr1	215933143	215933143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gactccaatataattccactGttgtagaattgatgataatg	7	6	0	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:215933143G>T	uc001hku.1	-	57	11477	c.11090C>A	c.(11089-11091)ACA>AAA	p.T3697K		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3697	Fibronectin type-III 22.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TAATTCCACTGTTGTAGAATT	0.403										HNSCC(13;0.011)			26	62	---	---	---	---	PASS	T	215933143	T	T	215933143	3	4	116	1	0	0	0	0	1	0	0	0	17033	1377	48	3	4582	3	USH2A	1	215933143	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	40607589	215933143	33317478	16	42310										
TAF1A	9015	broad.mit.edu	37	chr1	222732082	222732082	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cttccctaagatttggtgatCttgctttaaaatataccgga	7	8	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:222732082C>A	uc009xdz.1	-	11	1462	c.1273G>T	c.(1273-1275)GAT>TAT	p.D425Y	TAF1A_uc009xdy.1_Missense_Mutation_p.D116Y|TAF1A_uc001hni.1_Missense_Mutation_p.D311Y|TAF1A_uc001hnj.2_Missense_Mutation_p.D425Y|TAF1A_uc001hnk.2_Missense_Mutation_p.D311Y	NM_139352	NP_647603	Q15573	TAF1A_HUMAN	TBP-associated factor 1A isoform 2	425					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	RNA polymerase I transcription factor complex	DNA binding				0				GBM - Glioblastoma multiforme(131;0.0186)		ATTTGGTGATCTTGCTTTAAA	0.269													15	52	---	---	---	---	PASS	A	222732082	A	A	222732082	3	1	116	1	0	0	0	0	1	0	0	0	15516	913	32	2	83	2	TAF1A	1	222732082	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	6798939	222732082	26518539	17	42311										
RYR2	6262	broad.mit.edu	37	chr1	237801776	237801776	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tatcttgactttcttagattTgctgtcttctgtaatggtag	8	6	4	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:237801776T>A	uc001hyl.1	+	45	7032	c.6912T>A	c.(6910-6912)TTT>TTA	p.F2304L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2304	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTCTTAGATTTGCTGTCTTCT	0.403													30	184	---	---	---	---	PASS	A	237801776	A	A	237801776	3	1	116	1	0	0	0	0	1	0	0	0	13769	1809	63	5	7090	5	RYR2	1	237801776	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	15069694	237801776	11448845	18	42312										
OR2T34	127068	broad.mit.edu	37	chr1	248737347	248737347	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ggccaaggccttcctgcggcCggcggcagaattcatcctgt	13	14	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr1:248737347C>T	uc001iep.1	-	1	712	c.712G>A	c.(712-714)GGC>AGC	p.G238S		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	238	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTCCTGCGGCCGGCGGCAGAA	0.562													53	85	---	---	---	---	PASS	T	248737347	T	T	248737347	3	4	116	1	0	0	0	0	1	0	0	0	11025	652	23	1	248	1	OR2T34	1	248737347	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	10935571	248737347	513274	19	42313										
MYT1L	23040	broad.mit.edu	37	chr2	1926881	1926881	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ctgttcatttctgactcagtCctggcccggtaggctgcatc	10	13	3	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:1926881C>A	uc002qxe.2	-	10	1487	c.660G>T	c.(658-660)AGG>AGT	p.R220S	MYT1L_uc002qxd.2_Missense_Mutation_p.R220S|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	220					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CTGACTCAGTCCTGGCCCGGT	0.433													15	41	---	---	---	---	PASS	A	1926881	A	A	1926881	3	1	116	1	0	0	0	0	1	0	0	0	10107	854	30	2	2958	2	MYT1L	2	1926881	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08		1926881	241272492	20	42314										
ROCK2	9475	broad.mit.edu	37	chr2	11341532	11341532	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gctccctaacttgtgttttaTaaagggtctaaatagcaaaa	7	7	1	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:11341532T>C	uc002rbd.1	-	22	3076	c.2627A>G	c.(2626-2628)TAT>TGT	p.Y876C		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	876	Potential.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		TTGTGTTTTATAAAGGGTCTA	0.333													10	23	---	---	---	---	PASS	C	11341532	C	C	11341532	3	2	116	1	0	0	0	0	1	0	0	0	13518	1406	49	5	1587	5	ROCK2	2	11341532	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	9414651	11341532	231857841	21	42315										
APOB	338	broad.mit.edu	37	chr2	21236225	21236225	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	agttgatacaacttgggaatGgtaaaagtagggacttggaa	13	3	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:21236225G>T	uc002red.2	-	25	4151	c.4023C>A	c.(4021-4023)ACC>ACA	p.T1341T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1341					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ACTTGGGAATGGTAAAAGTAG	0.488													27	68	---	---	---	---	PASS	T	21236225	T	T	21236225	2	4	116	1	0	0	0	0	0	0	0	1	785	1335	47	3		3	APOB	2	21236225	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08	9894693	21236225	221963148	22	42316										
SOS1	6654	broad.mit.edu	37	chr2	39285891	39285891	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cttttcaatagctgattgggCatcagctattgcccatttat	7	9	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:39285891C>T	uc002rrk.3	-	3	309	c.268G>A	c.(268-270)GCC>ACC	p.A90T	SOS1_uc010ynr.1_RNA	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	90					apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				GCTGATTGGGCATCAGCTATT	0.338									Noonan_syndrome				24	61	---	---	---	---	PASS	T	39285891	T	T	39285891	3	4	116	1	0	0	0	0	1	0	0	0	14936	710	25	3	3817	3	SOS1	2	39285891	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	18049666	39285891	203913482	23	42317										
C2orf63	130162	broad.mit.edu	37	chr2	55436584	55436584	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tttgctccacaaagtcttgaAatgggctgctcatatcagat	8	9	3	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:55436584A>C	uc002ryi.2	-	7	1116	c.770T>G	c.(769-771)TTT>TGT	p.F257C	C2orf63_uc002ryh.2_Intron|C2orf63_uc002ryj.2_Missense_Mutation_p.F135C	NM_152385	NP_689598	Q8NHS4	CB063_HUMAN	hypothetical protein LOC130162 isoform 1	257							binding			ovary(2)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(58;0.179)|Lung(47;0.189)			AAAGTCTTGAAATGGGCTGCT	0.313													28	76	---	---	---	---	PASS	C	55436584	C	C	55436584	3	2	116	1	0	0	0	0	1	0	0	0	2182	14	1	5	1018	5	C2orf63	2	55436584	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	16150693	55436584	187762789	24	42318										
UGP2	7360	broad.mit.edu	37	chr2	64112824	64112824	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ccctccaggtcatggtgataTttacgccagtttctacaact	7	12	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:64112824T>C	uc002scm.2	+	6	983	c.677T>C	c.(676-678)ATT>ACT	p.I226T	UGP2_uc002scl.2_Missense_Mutation_p.I215T|UGP2_uc010ypx.1_Missense_Mutation_p.I235T	NM_006759	NP_006750	Q16851	UGPA_HUMAN	UDP-glucose pyrophosphorylase 2 isoform a	226					glycogen biosynthetic process|phosphorylation|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	metal ion binding|protein binding|UTP:glucose-1-phosphate uridylyltransferase activity				0						CATGGTGATATTTACGCCAGT	0.408													23	166	---	---	---	---	PASS	C	64112824	C	C	64112824	3	2	116	1	0	0	0	0	1	0	0	0	16940	1493	52	5	699	5	UGP2	2	64112824	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	8676240	64112824	179086549	25	42319										
DYSF	8291	broad.mit.edu	37	chr2	71891467	71891467	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	actctctatgactatgacctCctctccaaggacgaaaagat	6	12	2	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:71891467C>T	uc002sie.2	+	45	5332	c.4956C>T	c.(4954-4956)CTC>CTT	p.L1652L	DYSF_uc010feg.2_Silent_p.L1683L|DYSF_uc010feh.2_Silent_p.L1659L|DYSF_uc002sig.3_Silent_p.L1638L|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.L1673L|DYSF_uc010fef.2_Silent_p.L1690L|DYSF_uc010fei.2_Silent_p.L1669L|DYSF_uc010fek.2_Silent_p.L1670L|DYSF_uc010fej.2_Silent_p.L1660L|DYSF_uc010fel.2_Silent_p.L1639L|DYSF_uc010feo.2_Silent_p.L1684L|DYSF_uc010fem.2_Silent_p.L1674L|DYSF_uc010fen.2_Silent_p.L1691L|DYSF_uc002sif.2_Silent_p.L1653L|DYSF_uc010yqy.1_Silent_p.L533L|DYSF_uc010yqz.1_Silent_p.L413L	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1652	Cytoplasmic (Potential).|C2 5.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						ACTATGACCTCCTCTCCAAGG	0.562													12	48	---	---	---	---	PASS	T	71891467	T	T	71891467	2	4	116	1	0	0	0	0	0	0	0	1	4859	842	30	2		2	DYSF	2	71891467	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	7778643	71891467	171307906	26	42320										
SMYD1	150572	broad.mit.edu	37	chr2	88367391	88367391	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gacagtctctgagatgacaaTagggagaatggagaacgtgg	15	5	1	4			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:88367391T>G	uc002ssr.2	+	1	10	c.8T>G	c.(7-9)ATA>AGA	p.I3R	SMYD1_uc002ssq.1_5'UTR	NM_198274	NP_938015	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	3					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						GAGATGACAATAGGGAGAATG	0.512													29	105	---	---	---	---	PASS	G	88367391	G	G	88367391	3	3	116	1	0	0	0	0	1	0	0	0	14821	1406	49	5	10	5	SMYD1	2	88367391	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	16475924	88367391	154831982	27	42321										
CNTNAP5	129684	broad.mit.edu	37	chr2	125530522	125530522	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cctccctgcaggtggacaacCttccaaggagcaccagggag	12	14	0	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:125530522C>T	uc002tno.2	+	17	3041	c.2677C>T	c.(2677-2679)CTT>TTT	p.L893F	CNTNAP5_uc010flu.2_Missense_Mutation_p.L894F	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	893	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GGTGGACAACCTTCCAAGGAG	0.537													33	88	---	---	---	---	PASS	T	125530522	T	T	125530522	3	4	116	1	0	0	0	0	1	0	0	0	3650	681	24	3	2743	3	CNTNAP5	2	125530522	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	37163131	125530522	117668851	28	42322										
UGGT1	56886	broad.mit.edu	37	chr2	128922352	128922352	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gctcttctgtcagcgcaaccAaaaggagatccaagaatcga	9	11	3	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:128922352A>G	uc002tps.2	+	26	3052	c.2874A>G	c.(2872-2874)CCA>CCG	p.P958P	UGGT1_uc010fme.1_Silent_p.P833P|UGGT1_uc002tpr.2_Silent_p.P934P	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	958					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						CAGCGCAACCAAAAGGAGATC	0.368													14	35	---	---	---	---	PASS	G	128922352	G	G	128922352	2	3	116	1	0	0	0	0	0	0	0	1	16938	117	5	5		5	UGGT1	2	128922352	Silent	SNP	A	TCGA-56-5898-01A-11D-1632-08	3391830	128922352	114277021	29	42323										
RAB3GAP1	22930	broad.mit.edu	37	chr2	135911411	135911411	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	caattcctgctagaaggcaaAggagactctttgatgataca	9	8	1	4			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:135911411A>G	uc002tuj.2	+	19	2279	c.2254A>G	c.(2254-2256)AGG>GGG	p.R752G	RAB3GAP1_uc010fnf.2_Missense_Mutation_p.R752G|RAB3GAP1_uc010fng.2_Missense_Mutation_p.R577G|RAB3GAP1_uc010fnh.1_RNA	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein	752						centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		TAGAAGGCAAAGGAGACTCTT	0.428													19	41	---	---	---	---	PASS	G	135911411	G	G	135911411	3	3	116	1	0	0	0	0	1	0	0	0	12935	63	3	5	2328	5	RAB3GAP1	2	135911411	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	6989059	135911411	107287962	30	42324										
RBM45	129831	broad.mit.edu	37	chr2	178988582	178988582	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	agaaaaatggcaacacagatGgtagctgcacagcttgcatc	10	9	0	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:178988582G>C	uc002ulv.2	+	7	1103	c.1011G>C	c.(1009-1011)ATG>ATC	p.M337I		NM_152945	NP_694453	Q8IUH3	RBM45_HUMAN	RNA binding motif protein 45	339					cell differentiation|nervous system development	cytoplasm|nucleus	nucleotide binding|RNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.00957)|all cancers(119;0.037)			CAACACAGATGGTAGCTGCAC	0.323													19	39	---	---	---	---	PASS	C	178988582	C	C	178988582	3	2	116	1	0	0	0	0	1	0	0	0	13139	1348	47	4	1037	4	RBM45	2	178988582	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	43077171	178988582	64210791	31	42325										
TTN	7273	broad.mit.edu	37	chr2	179446770	179446770	+	Missense_Mutation	SNP	G	T	T													0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ttaatgttctttctataataGgttttctgttgaccttagtc							TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:179446770G>T	uc010zfg.1	-	264	58846	c.58622C>A	c.(58621-58623)CCT>CAT	p.P19541H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P13236H|TTN_uc010zfi.1_Missense_Mutation_p.P13169H|TTN_uc010zfj.1_Missense_Mutation_p.P13044H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20468							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)			TTCTATAATAGGTTTTCTGTT	0.448													33	151	---	---	---	---	PASS	T	179446770	T	T	179446770	3	4	116	1	0	0	0	0	1	0	0	0	16732	1000	35	3	41845	3	TTN	2	179446770	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	458188	179446770	63752603	32	42326	792	2								
TTN	7273	broad.mit.edu	37	chr2	179446771	179446771	+	Missense_Mutation	SNP	G	T	T													0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	taatgttctttctataatagGttttctgttgaccttagtcc							TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:179446771G>T	uc010zfg.1	-	264	58845	c.58621C>A	c.(58621-58623)CCT>ACT	p.P19541T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P13236T|TTN_uc010zfi.1_Missense_Mutation_p.P13169T|TTN_uc010zfj.1_Missense_Mutation_p.P13044T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20468							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)			TCTATAATAGGTTTTCTGTTG	0.453													34	157	---	---	---	---	PASS	T	179446771	T	T	179446771	3	4	116	1	0	0	0	0	1	0	0	0	16732	1261	44	3	41846	3	TTN	2	179446771	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	1	179446771	63752602	33	42327	792	2								
TTN	7273	broad.mit.edu	37	chr2	179596203	179596203	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gatttcatcgctgtcttttaGccaagtcaccgtaattggca	8	10	3	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:179596203G>A	uc010zfg.1	-	56	13782	c.13558C>T	c.(13558-13560)CTA>TTA	p.L4520L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.L1181L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5447							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)			CTGTCTTTTAGCCAAGTCACC	0.478													8	42	---	---	---	---	PASS	A	179596203	A	A	179596203	2	1	116	1	0	0	0	0	0	0	0	1	16732	962	34	3		3	TTN	2	179596203	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08	149432	179596203	63603170	34	42328										
MAP2	4133	broad.mit.edu	37	chr2	210561312	210561312	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cagttagaaactattcctaaAgaggagaaagctgaaaagga	10	5	0	4			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr2:210561312A>G	uc002vde.1	+	8	4475	c.4227A>G	c.(4225-4227)AAA>AAG	p.K1409K	MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.K1405K	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1409					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)	CTATTCCTAAAGAGGAGAAAG	0.383													16	56	---	---	---	---	PASS	G	210561312	G	G	210561312	2	3	116	1	0	0	0	0	0	0	0	1	9235	69	3	5		5	MAP2	2	210561312	Silent	SNP	A	TCGA-56-5898-01A-11D-1632-08	30965109	210561312	32638061	35	42329										
KAT2B	8850	broad.mit.edu	37	chr3	20142869	20142869	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tggcaaaaatgttcctaaacCgcatcaactattggcatctg	7	10	2	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:20142869C>T	uc003cbq.2	+	5	1206	c.760C>T	c.(760-762)CGC>TGC	p.R254C		NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	254					cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GTTCCTAAACCGCATCAACTA	0.398													8	45	---	---	---	---	PASS	T	20142869	T	T	20142869	3	4	116	1	0	0	0	0	1	0	0	0	7982	652	23	1	778	1	KAT2B	3	20142869	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08		20142869	177879561	36	42330										
CRYBG3	131544	broad.mit.edu	37	chr3	97596183	97596183	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ctgagagtagaactgaccttGtccatcactttgaaaaaggt	9	8	1	4			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:97596183G>T	uc003drx.2	+	1	365	c.301G>T	c.(301-303)GTC>TTC	p.V101F		NM_153605	NP_705833			beta-gamma crystallin domain containing 3												0						AACTGACCTTGTCCATCACTT	0.413													18	57	---	---	---	---	PASS	T	97596183	T	T	97596183	3	4	116	1	0	0	0	0	1	0	0	0	3913	1377	48	3	303	3	CRYBG3	3	97596183	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	77453314	97596183	100426247	37	42331										
CD47	961	broad.mit.edu	37	chr3	107776416	107776416	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ggccatgcattggtatacacGctgtaaaaacaaataaaatt	7	7	0	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:107776416G>A	uc003dwt.1	-	7	965	c.785C>T	c.(784-786)GCG>GTG	p.A262V	CD47_uc003dwu.1_Missense_Mutation_p.A262V|CD47_uc003dwv.1_Missense_Mutation_p.A262V|CD47_uc003dww.1_Missense_Mutation_p.A262V	NM_001777	NP_001768	Q08722	CD47_HUMAN	CD47 antigen isoform 1 precursor	262	Extracellular (Potential).				blood coagulation|cell adhesion|cell junction assembly|integrin-mediated signaling pathway|leukocyte migration|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to plasma membrane	protein binding|thrombospondin receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(3;0.0191)|Epithelial(53;0.118)			TGGTATACACGCTGTAAAAAC	0.313													16	24	---	---	---	---	PASS	A	107776416	A	A	107776416	3	1	116	1	0	0	0	0	1	0	0	0	3019	1101	38	1	210	1	CD47	3	107776416	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	10180233	107776416	90246014	38	42332										
TRH	7200	broad.mit.edu	37	chr3	129695813	129695813	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ggcagaaggctggcagatccCaaggctcaaaggagctggga	16	9	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:129695813C>A	uc003enc.2	+	3	1044	c.483C>A	c.(481-483)CCC>CCA	p.P161P		NM_007117	NP_009048	P20396	TRH_HUMAN	thyrotropin-releasing hormone	161					cell-cell signaling|hormone-mediated signaling pathway	extracellular region|soluble fraction	neuropeptide hormone activity|thyrotropin-releasing hormone activity			ovary(1)	1						TGGCAGATCCCAAGGCTCAAA	0.522													12	38	---	---	---	---	PASS	A	129695813	A	A	129695813	2	1	116	1	0	0	0	0	0	0	0	1	16475	581	21	3		3	TRH	3	129695813	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	21919397	129695813	68326617	39	42333										
ACAD11	84129	broad.mit.edu	37	chr3	132363689	132363689	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ggtggttttttcctgagcacAtatgtttgaaagcccttctg	10	8	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:132363689A>G	uc003eov.3	-	2	581	c.201T>C	c.(199-201)TAT>TAC	p.Y67Y	NPHP3_uc003eoz.1_Silent_p.Y226Y|ACAD11_uc003eoy.2_Silent_p.Y67Y	NM_032169	NP_115545	Q709F0	ACD11_HUMAN	putative acyl-CoA dehydrogenase	67						peroxisome	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|transferase activity, transferring phosphorus-containing groups			ovary(1)	1						TCCTGAGCACATATGTTTGAA	0.328													25	59	---	---	---	---	PASS	G	132363689	G	G	132363689	2	3	116	1	0	0	0	0	0	0	0	1	109	224	8	5		5	ACAD11	3	132363689	Silent	SNP	A	TCGA-56-5898-01A-11D-1632-08	2667876	132363689	65658741	40	42334										
TMEM108	66000	broad.mit.edu	37	chr3	133109124	133109124	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	accatcaccatggactacttCaacaggcatgctgtggagct	9	12	2	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:133109124C>T	uc003eph.2	+	5	1825	c.1551C>T	c.(1549-1551)TTC>TTT	p.F517F	TMEM108_uc003epi.2_Silent_p.F517F|TMEM108_uc003epk.2_Silent_p.F47F|TMEM108_uc003epm.2_Silent_p.F468F	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	517	Cytoplasmic (Potential).					integral to membrane				ovary(2)|skin(2)	4						TGGACTACTTCAACAGGCATG	0.552													33	220	---	---	---	---	PASS	T	133109124	T	T	133109124	2	4	116	1	0	0	0	0	0	0	0	1	16021	825	29	2		2	TMEM108	3	133109124	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	745435	133109124	64913306	41	42335										
EPHB1	2047	broad.mit.edu	37	chr3	134851865	134851865	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cttccccccacagcacgtctCtgtcaacatcaccacaaacc	3	20	3	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:134851865C>T	uc003eqt.2	+	5	1491	c.1271C>T	c.(1270-1272)TCT>TTT	p.S424F	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_3'UTR|EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	424	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						CAGCACGTCTCTGTCAACATC	0.572													6	9	---	---	---	---	PASS	T	134851865	T	T	134851865	3	4	116	1	0	0	0	0	1	0	0	0	5174	913	32	2	1289	2	EPHB1	3	134851865	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	1742741	134851865	63170565	42	42336										
MRAS	22808	broad.mit.edu	37	chr3	138091773	138091773	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aacctccccacatacaagctGgtggtggtgggggatggggg	17	9	0	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:138091773G>T	uc003esh.3	+	2	609	c.48G>T	c.(46-48)CTG>CTT	p.L16L	MRAS_uc011bmi.1_Intron|MRAS_uc003esi.3_Silent_p.L16L|MRAS_uc011bmj.1_Intron	NM_012219	NP_036351	O14807	RASM_HUMAN	muscle RAS oncogene homolog precursor	16					actin cytoskeleton organization|muscle organ development|Ras protein signal transduction	intracellular|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity			lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CATACAAGCTGGTGGTGGTGG	0.557													26	76	---	---	---	---	PASS	T	138091773	T	T	138091773	2	4	116	1	0	0	0	0	0	0	0	1	9755	1335	47	3		3	MRAS	3	138091773	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08	3239908	138091773	59930657	43	42337										
ARL14	80117	broad.mit.edu	37	chr3	160395290	160395290	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ggtttcaatgtggaaatgatCgagttggaaaggaatctttc	12	4	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:160395290C>T	uc003fdq.2	+	1	343	c.156C>T	c.(154-156)ATC>ATT	p.I52I		NM_025047	NP_079323	Q8N4G2	ARL14_HUMAN	ADP-ribosylation factor-like 14	52					small GTPase mediated signal transduction	intracellular	GTP binding				0			Lung(72;7.02e-05)|LUSC - Lung squamous cell carcinoma(72;7.23e-05)			TGGAAATGATCGAGTTGGAAA	0.438													22	102	---	---	---	---	PASS	T	160395290	T	T	160395290	2	4	116	1	0	0	0	0	0	0	0	1	930	874	31	2		2	ARL14	3	160395290	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	22303517	160395290	37627140	44	42338										
MCF2L2	23101	broad.mit.edu	37	chr3	182897372	182897372	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cgctcacactcacgtttcctCctcatcgcgttcttcttttt	4	16	5	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:182897372C>T	uc003fli.1	-	29	3304	c.3214G>A	c.(3214-3216)GAG>AAG	p.E1072K		NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	1072					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			CACGTTTCCTCCTCATCGCGT	0.557													32	889	---	---	---	---	PASS	T	182897372	T	T	182897372	3	4	116	1	0	0	0	0	1	0	0	0	9380	864	30	2	138	2	MCF2L2	3	182897372	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	22502082	182897372	15125058	45	42339										
MCF2L2	23101	broad.mit.edu	37	chr3	182897440	182897440	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ggaaagcagatttggaggaaCaggtttcgtgactgtcgtcc	14	7	0	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:182897440C>T	uc003fli.1	-	29	3236	c.3146G>A	c.(3145-3147)TGT>TAT	p.C1049Y		NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	1049					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TTTGGAGGAACAGGTTTCGTG	0.567													29	870	---	---	---	---	PASS	T	182897440	T	T	182897440	3	4	116	1	0	0	0	0	1	0	0	0	9380	478	17	3	206	3	MCF2L2	3	182897440	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	68	182897440	15124990	46	42340										
ECE2	9718	broad.mit.edu	37	chr3	184005696	184005696	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ggctttgctttggggtccctCttcgtgaaggccacgtttga	13	10	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:184005696C>T	uc003fni.3	+	11	1727	c.1689C>T	c.(1687-1689)CTC>CTT	p.L563L	ECE2_uc011brh.1_Silent_p.L416L|ECE2_uc003fnl.3_Silent_p.L491L|ECE2_uc003fnm.3_Silent_p.L445L|ECE2_uc003fnk.3_Silent_p.L416L|ECE2_uc011bri.1_Silent_p.L478L|ECE2_uc010hxv.2_Silent_p.L207L	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	563	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TGGGGTCCCTCTTCGTGAAGG	0.498													458	52	---	---	---	---	PASS	T	184005696	T	T	184005696	2	4	116	1	0	0	0	0	0	0	0	1	4890	900	32	2		2	ECE2	3	184005696	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	1108256	184005696	14016734	47	42341										
ADIPOQ	9370	broad.mit.edu	37	chr3	186572371	186572371	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ccggctctgtgctcctgcatCtggaggtgggcgaccaagtc	14	13	2	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:186572371C>A	uc003fra.2	+	3	697	c.613C>A	c.(613-615)CTG>ATG	p.L205M	ADIPOQ_uc010hyy.2_Missense_Mutation_p.L205M	NM_004797	NP_004788	Q15848	ADIPO_HUMAN	adiponectin precursor	205	C1q.				brown fat cell differentiation|cellular response to drug|cellular response to insulin stimulus|detection of oxidative stress|fatty acid beta-oxidation|generation of precursor metabolites and energy|glucose homeostasis|glucose metabolic process|low-density lipoprotein particle clearance|negative regulation of blood pressure|negative regulation of DNA biosynthetic process|negative regulation of ERK1 and ERK2 cascade|negative regulation of eukaryotic cell surface binding|negative regulation of fat cell differentiation|negative regulation of gluconeogenesis|negative regulation of granulocyte differentiation|negative regulation of heterotypic cell-cell adhesion|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of intracellular protein transport|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|negative regulation of macrophage differentiation|negative regulation of MAP kinase activity|negative regulation of phagocytosis|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein autophosphorylation|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of synaptic transmission|negative regulation of transcription, DNA-dependent|negative regulation of tumor necrosis factor production|negative regulation of tumor necrosis factor-mediated signaling pathway|positive regulation of cAMP-dependent protein kinase activity|positive regulation of cholesterol efflux|positive regulation of fatty acid metabolic process|positive regulation of glucose import|positive regulation of glycogen (starch) synthase activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of metanephric glomerular visceral epithelial cell development|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myeloid cell apoptosis|positive regulation of protein kinase A signaling cascade|positive regulation of renal albumin absorption|protein homooligomerization|protein localization in plasma membrane|response to glucose stimulus|response to tumor necrosis factor	collagen|endoplasmic reticulum|extracellular space	cytokine activity|eukaryotic cell surface binding|hormone activity|protein homodimerization activity			ovary(1)	1	all_cancers(143;1.2e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.47e-19)	GBM - Glioblastoma multiforme(93;0.0776)		GCTCCTGCATCTGGAGGTGGG	0.517													22	85	---	---	---	---	PASS	A	186572371	A	A	186572371	3	1	116	1	0	0	0	0	1	0	0	0	317	912	32	2	619	2	ADIPOQ	3	186572371	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	2566675	186572371	11450059	48	42342										
LRRC33	375387	broad.mit.edu	37	chr3	196387871	196387871	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cctcggaccgggtgggccccCctagctgtgtggatttcagg	15	13	1	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr3:196387871C>T	uc003fwv.2	+	3	1461	c.1357C>T	c.(1357-1359)CCT>TCT	p.P453S		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	453	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		GGTGGGCCCCCCTAGCTGTGT	0.572													35	122	---	---	---	---	PASS	T	196387871	T	T	196387871	3	4	116	1	0	0	0	0	1	0	0	0	8988	623	22	3	1363	3	LRRC33	3	196387871	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	9815500	196387871	1634559	49	42343										
OTUD4	54726	broad.mit.edu	37	chr4	146064527	146064527	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atatacttacttgttccgcaGgagaagggcactctaacttc	8	10	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr4:146064527G>A	uc003ika.3	-	17	1616	c.1478C>T	c.(1477-1479)CCT>CTT	p.P493L	OTUD4_uc003ijz.3_Missense_Mutation_p.P492L	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	557							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					TTGTTCCGCAGGAGAAGGGCA	0.358													4	29	---	---	---	---	PASS	A	146064527	A	A	146064527	3	1	116	1	0	0	0	0	1	0	0	0	11314	1000	35	3	1691	3	OTUD4	4	146064527	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08		146064527	45089749	50	42344										
LRP2BP	55805	broad.mit.edu	37	chr4	186294028	186294028	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	accttttggaaaatgcaacaCactttgtaaaaaatttcatc	4	8	1	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr4:186294028C>A	uc003ixj.1	-	6	1597	c.785G>T	c.(784-786)TGT>TTT	p.C262F	LRP2BP_uc003ixk.1_Missense_Mutation_p.C236F|LRP2BP_uc011ckr.1_Missense_Mutation_p.C262F	NM_018409	NP_060879	Q9P2M1	LR2BP_HUMAN	LRP2 binding protein	262	Sel1-like 5.					cytoplasm	protein binding				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;2.14e-25)|Epithelial(43;1.55e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-11)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000766)|Colorectal(24;0.00116)|LUSC - Lung squamous cell carcinoma(40;0.00904)|COAD - Colon adenocarcinoma(29;0.0101)|READ - Rectum adenocarcinoma(43;0.161)		AAATGCAACACACTTTGTAAA	0.259													29	42	---	---	---	---	PASS	A	186294028	A	A	186294028	3	1	116	1	0	0	0	0	1	0	0	0	8957	478	17	3	270	3	LRP2BP	4	186294028	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	40229501	186294028	4860248	51	42345										
SLC6A3	6531	broad.mit.edu	37	chr5	1416275	1416275	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atcagcaccccgaaccccacGcccagggagaagcacacctg	9	18	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:1416275G>T	uc003jck.2	-	7	1090	c.969C>A	c.(967-969)GGC>GGA	p.G323G		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	323	Helical; Name=6; (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	CGAACCCCACGCCCAGGGAGA	0.622													7	33	---	---	---	---	PASS	T	1416275	T	T	1416275	2	4	116	1	0	0	0	0	0	0	0	1	14685	1074	38	1		1	SLC6A3	5	1416275	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08		1416275	179498985	52	42346										
CMBL	134147	broad.mit.edu	37	chr5	10290841	10290841	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atactcaagtctgtggccaaTgtcacacggacaaggataag	10	9	3	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:10290841T>C	uc003jes.2	-	2	485	c.34A>G	c.(34-36)ATT>GTT	p.I12V		NM_138809	NP_620164	Q96DG6	CMBL_HUMAN	carboxymethylenebutenolidase	12						cytosol	hydrolase activity|protein binding			skin(1)	1						CTGTGGCCAATGTCACACGGA	0.468													25	77	---	---	---	---	PASS	C	10290841	C	C	10290841	3	2	116	1	0	0	0	0	1	0	0	0	3576	1464	51	5	723	5	CMBL	5	10290841	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	8874566	10290841	170624419	53	42347										
PDZD2	23037	broad.mit.edu	37	chr5	32090630	32090630	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	agccaagtccggggcttcccCatttttgtcggtgagctcca	11	13	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:32090630C>T	uc003jhl.2	+	20	7464	c.7076C>T	c.(7075-7077)CCA>CTA	p.P2359L	PDZD2_uc003jhm.2_Missense_Mutation_p.P2359L	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2359					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GGGGCTTCCCCATTTTTGTCG	0.577													6	44	---	---	---	---	PASS	T	32090630	T	T	32090630	3	4	116	1	0	0	0	0	1	0	0	0	11701	594	21	3	7150	3	PDZD2	5	32090630	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	21799789	32090630	148824630	54	42348										
GDNF	2668	broad.mit.edu	37	chr5	37816091	37816091	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ttttcctctggaattctctgGgttggcagctgcagcctgcc	11	12	2	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:37816091G>T	uc011cpi.1	-	3	498	c.298C>A	c.(298-300)CCA>ACA	p.P100T	GDNF_uc011cpc.1_Missense_Mutation_p.P22T|GDNF_uc011cpd.1_Missense_Mutation_p.P48T|GDNF_uc011cpe.1_Missense_Mutation_p.P74T|GDNF_uc011cpf.1_Missense_Mutation_p.P74T|GDNF_uc011cpg.1_Missense_Mutation_p.P117T|GDNF_uc011cph.1_Missense_Mutation_p.P91T	NM_000514	NP_000505	P39905	GDNF_HUMAN	glial cell derived neurotrophic factor isoform 1	100					adult locomotory behavior|anti-apoptosis|axon guidance|branching involved in ureteric bud morphogenesis|enteric nervous system development|mRNA stabilization|negative regulation of neuron apoptosis|neural crest cell migration|peristalsis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of dopamine secretion|positive regulation of monooxygenase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|postganglionic parasympathetic nervous system development|regulation of dopamine uptake|signal transduction|sympathetic nervous system development	extracellular region	growth factor activity|protein homodimerization activity				0	all_lung(31;0.00118)					GAATTCTCTGGGTTGGCAGCT	0.478													21	74	---	---	---	---	PASS	T	37816091	T	T	37816091	3	4	116	1	0	0	0	0	1	0	0	0	6322	1232	43	3	340	3	GDNF	5	37816091	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	5725461	37816091	143099169	55	42349										
EGFLAM	133584	broad.mit.edu	37	chr5	38352408	38352408	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gtgaaggaagcgcccctattCagtactattctgtggaattc	10	9	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:38352408C>T	uc003jlc.1	+	5	844	c.520C>T	c.(520-522)CAG>TAG	p.Q174*	EGFLAM_uc003jlb.1_Nonsense_Mutation_p.Q174*	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	174	Fibronectin type-III 2.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					CGCCCCTATTCAGTACTATTC	0.403													13	90	---	---	---	---	PASS	T	38352408	T	T	38352408	4	4	116	1	0	0	0	0	0	1	0	0	4966	827	29	2	538	2	EGFLAM	5	38352408	Nonsense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	536317	38352408	142562852	56	42350										
C7	730	broad.mit.edu	37	chr5	40981635	40981635	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atgcagagggcagagcatctCtgtcaccagcataaggcctt	11	11	2	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:40981635C>A	uc003jmh.2	+	18	2606	c.2492C>A	c.(2491-2493)TCT>TAT	p.S831Y		NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	831	Complement control factor I module 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				CAGAGCATCTCTGTCACCAGC	0.572													3	9	---	---	---	---	PASS	A	40981635	A	A	40981635	3	1	116	1	0	0	0	0	1	0	0	0	2375	913	32	2	2562	2	C7	5	40981635	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	2629227	40981635	139933625	57	42351										
VCAN	1462	broad.mit.edu	37	chr5	82868261	82868261	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gagaattggagacccaaccaGccagacagcttcttttctgc	9	12	2	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:82868261G>T	uc003kii.3	+	13	10118	c.9762G>T	c.(9760-9762)CAG>CAT	p.Q3254H	VCAN_uc003kij.3_Missense_Mutation_p.Q2267H|VCAN_uc010jau.2_Missense_Mutation_p.Q1500H|VCAN_uc003kik.3_Missense_Mutation_p.Q513H|VCAN_uc003kil.3_Missense_Mutation_p.Q1918H	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3254	C-type lectin.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GACCCAACCAGCCAGACAGCT	0.423													29	60	---	---	---	---	PASS	T	82868261	T	T	82868261	3	4	116	1	0	0	0	0	1	0	0	0	17135	962	34	3	9808	3	VCAN	5	82868261	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	41886626	82868261	98046999	58	42352										
CDC23	8697	broad.mit.edu	37	chr5	137524751	137524751	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	agtgaagcaggtaggaaaaaGggagcaggcacctcggtggt	17	6	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:137524751G>C	uc003lcl.2	-	16	1741	c.1710C>G	c.(1708-1710)CCC>CCG	p.P570P		NM_004661	NP_004652	Q9UJX2	CDC23_HUMAN	cell division cycle protein 23	570					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1 phase of mitotic cell cycle|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase plate congression|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of exit from mitosis	anaphase-promoting complex|cytosol|nucleoplasm	binding|ubiquitin-protein ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GTAGGAAAAAGGGAGCAGGCA	0.527													6	22	---	---	---	---	PASS	C	137524751	C	C	137524751	2	2	116	1	0	0	0	0	0	0	0	1	3061	987	35	4		4	CDC23	5	137524751	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08	54656490	137524751	43390509	59	42353										
GRPEL2	134266	broad.mit.edu	37	chr5	148730726	148730726	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tcatctgtcatgtgccagctGgtgttggggtgcagcctggc	15	10	3	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:148730726G>T	uc003lqj.2	+	4	685	c.559G>T	c.(559-561)GGT>TGT	p.G187C	GRPEL2_uc011dca.1_3'UTR	NM_152407	NP_689620	Q8TAA5	GRPE2_HUMAN	GrpE-like 2, mitochondrial precursor	187					protein folding	mitochondrial matrix	adenyl-nucleotide exchange factor activity|chaperone binding|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTGCCAGCTGGTGTTGGGGT	0.527													23	62	---	---	---	---	PASS	T	148730726	T	T	148730726	3	4	116	1	0	0	0	0	1	0	0	0	6807	1348	47	3	573	3	GRPEL2	5	148730726	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	11205975	148730726	32184534	60	42354										
MYOZ3	91977	broad.mit.edu	37	chr5	150042512	150042512	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ctcctccacaggatgatcccCaaggagcagaaggggccagt	12	13	0	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:150042512C>A	uc003lss.2	+	2	596	c.9C>A	c.(7-9)CCC>CCA	p.P3P	MYOZ3_uc003lsr.2_Silent_p.P3P	NM_001122853	NP_001116325	Q8TDC0	MYOZ3_HUMAN	myozenin 3	3						sarcomere	protein binding			skin(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGATGATCCCCAAGGAGCAGA	0.572													14	19	---	---	---	---	PASS	A	150042512	A	A	150042512	2	1	116	1	0	0	0	0	0	0	0	1	10097	581	21	3		3	MYOZ3	5	150042512	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	1311786	150042512	30872748	61	42355										
FAT2	2196	broad.mit.edu	37	chr5	150885463	150885463	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tgctgtaacggggtgggagaGgtgcccgcttgttttccatc	15	9	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:150885463G>C	uc003lue.3	-	23	12726	c.12713C>G	c.(12712-12714)CCT>CGT	p.P4238R	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.P845R	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	4238	Cytoplasmic (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGGTGGGAGAGGTGCCCGCTT	0.627													30	97	---	---	---	---	PASS	C	150885463	C	C	150885463	3	2	116	1	0	0	0	0	1	0	0	0	5690	1000	35	4	340	4	FAT2	5	150885463	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	842951	150885463	30029797	62	42356										
PROP1	5626	broad.mit.edu	37	chr5	177422884	177422884	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tcaggcaacaggttgctgccGactcgccccttctttggctt	10	14	2	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:177422884G>T	uc003mif.1	-	1	360	c.51C>A	c.(49-51)GTC>GTA	p.V17V		NM_006261	NP_006252	O75360	PROP1_HUMAN	PROP paired-like homeobox 1	17					central nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(89;0.00176)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGTTGCTGCCGACTCGCCCCT	0.632													9	24	---	---	---	---	PASS	T	177422884	T	T	177422884	2	4	116	1	0	0	0	0	0	0	0	1	12557	1045	37	2		2	PROP1	5	177422884	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08	26537421	177422884	3492376	63	42357										
MAML1	9794	broad.mit.edu	37	chr5	179193310	179193310	+	Silent	SNP	G	T	T													0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atgtccacatggcagcagacGgggccctcccacagttcctt							TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:179193310G>T	uc003mkm.2	+	2	1562	c.1299G>T	c.(1297-1299)ACG>ACT	p.T433T	MAML1_uc003mkn.1_Silent_p.T433T	NM_014757	NP_055572	Q92585	MAML1_HUMAN	mastermind-like 1	433					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	peptide antigen binding|protein kinase binding|transcription coactivator activity			lung(4)|ovary(2)	6	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGCAGCAGACGGGGCCCTCCC	0.602													21	61	---	---	---	---	PASS	T	179193310	T	T	179193310	2	4	116	1	0	0	0	0	0	0	0	1	9205	1103	39	1		1	MAML1	5	179193310	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08	1770426	179193310	1721950	64	42358	793	2								
MAML1	9794	broad.mit.edu	37	chr5	179193311	179193311	+	Missense_Mutation	SNP	G	T	T													0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tgtccacatggcagcagacgGggccctcccacagttcctta							TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:179193311G>T	uc003mkm.2	+	2	1563	c.1300G>T	c.(1300-1302)GGG>TGG	p.G434W	MAML1_uc003mkn.1_Missense_Mutation_p.G434W	NM_014757	NP_055572	Q92585	MAML1_HUMAN	mastermind-like 1	434					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	peptide antigen binding|protein kinase binding|transcription coactivator activity			lung(4)|ovary(2)	6	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCAGCAGACGGGGCCCTCCCA	0.602													21	62	---	---	---	---	PASS	T	179193311	T	T	179193311	3	4	116	1	0	0	0	0	1	0	0	0	9205	1232	43	3	1306	3	MAML1	5	179193311	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	1	179193311	1721949	65	42359	793	2								
BTNL3	10917	broad.mit.edu	37	chr5	180432609	180432609	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ccaacaatgggtattgggtcCtcagactgacaacagaacat	9	10	1	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr5:180432609C>A	uc003mmr.2	+	8	1266	c.1138C>A	c.(1138-1140)CTC>ATC	p.L380I	BTNL3_uc010jlp.2_Missense_Mutation_p.L165I	NM_197975	NP_932079	Q6UXE8	BTNL3_HUMAN	butyrophilin-like 3 precursor	380	B30.2/SPRY.|Cytoplasmic (Potential).				lipid metabolic process	integral to membrane					0	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.00336)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)|all_lung(500;0.248)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000272)			GTATTGGGTCCTCAGACTGAC	0.502													8	33	---	---	---	---	PASS	A	180432609	A	A	180432609	3	1	116	1	0	0	0	0	1	0	0	0	1566	681	24	3	1168	3	BTNL3	5	180432609	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	1239298	180432609	482651	66	42360										
C6orf138	442213	broad.mit.edu	37	chr6	47846462	47846462	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atgcaatccatgtcgacgttCcataatgtcattaagcccag	7	11	1	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr6:47846462C>A	uc011dwm.1	-	3	2152	c.2067G>T	c.(2065-2067)TGG>TGT	p.W689C	C6orf138_uc011dwn.1_Missense_Mutation_p.W453C	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	706	Helical; (Potential).					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						TGTCGACGTTCCATAATGTCA	0.438													8	25	---	---	---	---	PASS	A	47846462	A	A	47846462	3	1	116	1	0	0	0	0	1	0	0	0	2332	856	30	2	426	2	C6orf138	6	47846462	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08		47846462	123268605	67	42361										
TRAM2	9697	broad.mit.edu	37	chr6	52370454	52370454	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	caaatgcctggttttccatgCgagccagtccaaagccaatg	9	12	0	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr6:52370454C>T	uc003paq.2	-	9	967	c.818G>A	c.(817-819)CGC>CAC	p.R273H	EFHC1_uc011dwv.1_Intron|TRAM2_uc003par.1_RNA	NM_012288	NP_036420	Q15035	TRAM2_HUMAN	translocation-associated membrane protein 2	273	TLC.				collagen biosynthetic process|protein transport|transmembrane transport	integral to membrane	protein binding				0	Lung NSC(77;0.109)					GTTTTCCATGCGAGCCAGTCC	0.552													17	63	---	---	---	---	PASS	T	52370454	T	T	52370454	3	4	116	1	0	0	0	0	1	0	0	0	16450	768	27	1	306	1	TRAM2	6	52370454	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	4523992	52370454	118744613	68	42362										
PRIM2	5558	broad.mit.edu	37	chr6	57512544	57512544	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gccaacgtattctaaatggtGgtaaagacataaagaaggaa	10	5	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr6:57512544G>C	uc003pdx.2	+	15	1459	c.1372G>C	c.(1372-1374)GGT>CGT	p.G458R		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	458					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		TCTAAATGGTGGTAAAGACAT	0.388													13	147	---	---	---	---	PASS	C	57512544	C	C	57512544	3	2	116	1	0	0	0	0	1	0	0	0	12491	1348	47	4	1422	4	PRIM2	6	57512544	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	5142090	57512544	113602523	69	42363										
EYS	346007	broad.mit.edu	37	chr6	66044997	66044997	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	acatagataccgatattcctGactgtcttcttcactcaaac	4	12	4	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr6:66044997G>A	uc011dxu.1	-	11	2180	c.1642C>T	c.(1642-1644)CAG>TAG	p.Q548*	EYS_uc003peq.2_Nonsense_Mutation_p.Q548*|EYS_uc003per.1_Nonsense_Mutation_p.Q548*	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	548					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						CGATATTCCTGACTGTCTTCT	0.358													10	43	---	---	---	---	PASS	A	66044997	A	A	66044997	4	1	116	1	0	0	0	0	0	1	0	0	5332	1299	45	2	7886	2	EYS	6	66044997	Nonsense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	8532453	66044997	105070070	70	42364										
EYS	346007	broad.mit.edu	37	chr6	66115197	66115197	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aagcagaactgctatttgggCaaattcctcttttccaaaaa	6	9	1	1	rs139115734	by1000genomes	TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr6:66115197C>A	uc011dxu.1	-	6	1464	c.926G>T	c.(925-927)TGC>TTC	p.C309F	EYS_uc003peq.2_Missense_Mutation_p.C309F|EYS_uc003per.1_Missense_Mutation_p.C309F	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	309					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						GCTATTTGGGCAAATTCCTCT	0.373													13	132	---	---	---	---	PASS	A	66115197	A	A	66115197	3	1	116	1	0	0	0	0	1	0	0	0	5332	710	25	3	8622	3	EYS	6	66115197	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	70200	66115197	104999870	71	42365										
TTK	7272	broad.mit.edu	37	chr6	80745093	80745093	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atgggaacgcaagagttactGgaaaaatatgttagaggcag	13	4	0	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr6:80745093G>T	uc003pjc.2	+	16	1957	c.1883G>T	c.(1882-1884)TGG>TTG	p.W628L	TTK_uc003pjb.3_Missense_Mutation_p.W627L	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	628	Protein kinase.				mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		AAGAGTTACTGGAAAAATATG	0.318													15	49	---	---	---	---	PASS	T	80745093	T	T	80745093	3	4	116	1	0	0	0	0	1	0	0	0	16717	1357	47	3	1941	3	TTK	6	80745093	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	14629896	80745093	90369974	72	42366										
BCLAF1	9774	broad.mit.edu	37	chr6	136596829	136596829	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aagcagcctgtctttagtcaAggaagcaggtctggaacata	11	8	3	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr6:136596829A>C	uc003qgx.1	-	6	1946	c.1693T>G	c.(1693-1695)TTG>GTG	p.L565V	BCLAF1_uc003qgw.1_Missense_Mutation_p.L392V|BCLAF1_uc003qgy.1_Missense_Mutation_p.L563V|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.L563V	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	565					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TCTTTAGTCAAGGAAGCAGGT	0.378													5	115	---	---	---	---	PASS	C	136596829	C	C	136596829	3	2	116	1	0	0	0	0	1	0	0	0	1383	69	3	5	1101	5	BCLAF1	6	136596829	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	55851736	136596829	34518238	73	42367										
TCP1	6950	broad.mit.edu	37	chr6	160200659	160200659	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gagcgggaaaccatgcttacCattttagatttttacgttct	8	8	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr6:160200659C>T	uc003qsr.2	-	11	1689	c.1454G>A	c.(1453-1455)TGG>TAG	p.W485*	TCP1_uc003qss.2_Nonsense_Mutation_p.W330*|TCP1_uc010kjz.2_Intron|TCP1_uc003qst.2_Nonsense_Mutation_p.W261*	NM_030752	NP_110379	P17987	TCPA_HUMAN	T-complex protein 1 isoform a	485					'de novo' posttranslational protein folding|tubulin complex assembly	cell junction|Golgi apparatus	ATP binding|unfolded protein binding			breast(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(65;4.05e-20)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		CCATGCTTACCATTTTAGATT	0.403													14	113	---	---	---	---	PASS	T	160200659	T	T	160200659	4	4	116	1	0	0	0	0	0	1	0	0	15706	608	21	3	224	3	TCP1	6	160200659	Nonsense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	23603830	160200659	10914408	74	42368										
RPS6KA2	6196	broad.mit.edu	37	chr6	166918101	166918101	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tcctcctccgtgaacatgacCtagtaagaaaaaaacaaaaa	5	10	0	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr6:166918101C>A	uc003qvb.1	-	6	679	c.460_splice	c.e6-1	p.V154_splice	RPS6KA2_uc011ego.1_Splice_Site_p.V65_splice|RPS6KA2_uc010kkl.1_Splice_Site_p.V65_splice|RPS6KA2_uc003qvc.1_Splice_Site_p.V162_splice|RPS6KA2_uc003qvd.1_Splice_Site_p.V179_splice	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide						axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		TGAACATGACCTAGTAAGAAa	0.423													6	45	---	---	---	---	PASS	A	166918101	A	A	166918101	5	1	116	1	0	0	0	0	0	0	1	0	13651	695	24	3	1806	3	RPS6KA2	6	166918101	Splice_Site	SNP	C	TCGA-56-5898-01A-11D-1632-08	6717442	166918101	4196966	75	42369										
DDC	1644	broad.mit.edu	37	chr7	50605613	50605613	+	Missense_Mutation	SNP	T	G	G													0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tcaaaaatgcctttggtagtTccagcatcttcccgagccag							TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr7:50605613T>G	uc003tpf.3	-	4	466	c.380A>C	c.(379-381)GAA>GCA	p.E127A	DDC_uc010kza.2_Intron|DDC_uc003tpg.3_Missense_Mutation_p.E127A	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	127	2.|2 X approximate tandem repeats.				cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	CTTTGGTAGTTCCAGCATCTT	0.567													13	18	---	---	---	---	PASS	G	50605613	G	G	50605613	3	3	116	1	0	0	0	0	1	0	0	0	4325	1783	62	5	1106	5	DDC	7	50605613	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08		50605613	108533050	76	42370	794	2								
DDC	1644	broad.mit.edu	37	chr7	50605614	50605614	+	Nonsense_Mutation	SNP	C	A	A													0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	caaaaatgcctttggtagttCcagcatcttcccgagccagt							TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr7:50605614C>A	uc003tpf.3	-	4	465	c.379G>T	c.(379-381)GAA>TAA	p.E127*	DDC_uc010kza.2_Intron|DDC_uc003tpg.3_Nonsense_Mutation_p.E127*	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	127	2.|2 X approximate tandem repeats.				cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	TTTGGTAGTTCCAGCATCTTC	0.567													12	20	---	---	---	---	PASS	A	50605614	A	A	50605614	4	1	116	1	0	0	0	0	0	1	0	0	4325	864	30	2	1107	2	DDC	7	50605614	Nonsense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	1	50605614	108533049	77	42371	794	2								
TBL2	26608	broad.mit.edu	37	chr7	72985559	72985559	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	agcaaacgagtgcacagccgCggagtggccctttagttcga	13	11	0	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr7:72985559C>T	uc003tyh.2	-	6	972	c.838G>A	c.(838-840)GCG>ACG	p.A280T	TBL2_uc011kex.1_Missense_Mutation_p.A244T|TBL2_uc010lbg.2_Missense_Mutation_p.A185T|TBL2_uc003tyi.2_Missense_Mutation_p.A115T|TBL2_uc011key.1_Missense_Mutation_p.A151T|TBL2_uc010lbh.2_Missense_Mutation_p.A185T	NM_012453	NP_036585	Q9Y4P3	TBL2_HUMAN	transducin (beta)-like 2	280	WD 5.										0		Lung NSC(55;0.0659)|all_lung(88;0.152)				TGCACAGCCGCGGAGTGGCCC	0.567													11	22	---	---	---	---	PASS	T	72985559	T	T	72985559	3	4	116	1	0	0	0	0	1	0	0	0	15639	768	27	1	513	1	TBL2	7	72985559	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	22379945	72985559	86153104	78	42372										
ZNF804B	219578	broad.mit.edu	37	chr7	88965880	88965880	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cttctctccggcctcaaccgTacagacagttccagttcacc	6	17	3	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr7:88965880T>C	uc011khi.1	+	4	4122	c.3584T>C	c.(3583-3585)GTA>GCA	p.V1195A		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1195						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GCCTCAACCGTACAGACAGTT	0.507										HNSCC(36;0.09)			19	48	---	---	---	---	PASS	C	88965880	C	C	88965880	3	2	116	1	0	0	0	0	1	0	0	0	18168	1638	57	5	3598	5	ZNF804B	7	88965880	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	15980321	88965880	70172783	79	42373										
AKAP9	10142	broad.mit.edu	37	chr7	91714871	91714871	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tctctcactgagtctccctaTagtgatggagaggaccattc	9	11	3	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr7:91714871T>C	uc003ulg.2	+	36	9120	c.8895T>C	c.(8893-8895)TAT>TAC	p.Y2965Y	AKAP9_uc003ulf.2_Silent_p.Y2957Y|AKAP9_uc003uli.2_Silent_p.Y2588Y|AKAP9_uc003ulj.2_Silent_p.Y735Y|AKAP9_uc003ulk.2_Silent_p.Y240Y	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2969					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AGTCTCCCTATAGTGATGGAG	0.413			T	BRAF	papillary thyroid								7	51	---	---	---	---	PASS	C	91714871	C	C	91714871	2	2	116	1	0	0	0	0	0	0	0	1	459	1413	49	5		5	AKAP9	7	91714871	Silent	SNP	T	TCGA-56-5898-01A-11D-1632-08	2748991	91714871	67423792	80	42374										
CALCR	799	broad.mit.edu	37	chr7	93055820	93055820	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	agcggctgcagcgcgagcagAgcggttggaggggcgcctcc	19	12	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr7:93055820A>T	uc003umv.1	-	15	1636	c.1375T>A	c.(1375-1377)TCT>ACT	p.S459T	CALCR_uc011kia.1_Missense_Mutation_p.S239T|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.S425T|CALCR_uc003umw.2_Missense_Mutation_p.S425T	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	441	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	GCGCGAGCAGAGCGGTTGGAG	0.587													21	80	---	---	---	---	PASS	T	93055820	T	T	93055820	3	4	116	1	0	0	0	0	1	0	0	0	2579	304	11	5	155	5	CALCR	7	93055820	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	1340949	93055820	66082843	81	42375										
IQUB	154865	broad.mit.edu	37	chr7	123092884	123092884	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tcatcaatttcaccatcatcAagtataaatgaagccagcac	4	11	5	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr7:123092884A>T	uc003vkn.2	-	13	2866	c.2289T>A	c.(2287-2289)CTT>CTA	p.L763L	IQUB_uc011kny.1_Silent_p.L96L|IQUB_uc003vko.2_Silent_p.L763L|IQUB_uc010lkt.2_RNA	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	763										ovary(3)|large_intestine(1)	4						CACCATCATCAAGTATAAATG	0.403													11	31	---	---	---	---	PASS	T	123092884	T	T	123092884	2	4	116	1	0	0	0	0	0	0	0	1	7820	117	5	5		5	IQUB	7	123092884	Silent	SNP	A	TCGA-56-5898-01A-11D-1632-08	30037064	123092884	36045779	82	42376										
ATP6V0A4	50617	broad.mit.edu	37	chr7	138429946	138429946	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aggacttggagaagcagtcaTtgtagatcaaacccgtgtag	12	7	2	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr7:138429946T>C	uc003vuf.2	-	13	1638	c.1400A>G	c.(1399-1401)AAT>AGT	p.N467S	ATP6V0A4_uc003vug.2_Missense_Mutation_p.N467S|ATP6V0A4_uc003vuh.2_Missense_Mutation_p.N467S	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	467	Helical; (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						GAAGCAGTCATTGTAGATCAA	0.483													24	60	---	---	---	---	PASS	C	138429946	C	C	138429946	3	2	116	1	0	0	0	0	1	0	0	0	1170	1493	52	5	1158	5	ATP6V0A4	7	138429946	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	15337062	138429946	20708717	83	42377										
TAS2R60	338398	broad.mit.edu	37	chr7	143140680	143140680	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	actgctgctctgggcgtggaGtgggtgctacggagaatgtt	17	7	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr7:143140680G>T	uc011ktg.1	+	1	135	c.135G>T	c.(133-135)GAG>GAT	p.E45D	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	45	Helical; Name=2; (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					TGGGCGTGGAGTGGGTGCTAC	0.488													16	109	---	---	---	---	PASS	T	143140680	T	T	143140680	3	4	116	1	0	0	0	0	1	0	0	0	15582	1020	36	3	137	3	TAS2R60	7	143140680	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	4710734	143140680	15997983	84	42378										
CNTNAP2	26047	broad.mit.edu	37	chr7	146818104	146818104	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tggccccatatatggccacaCatcagtgatgacaggaagtt	10	10	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr7:146818104C>A	uc003weu.1	+	6	1304	c.788C>A	c.(787-789)ACA>AAA	p.T263K		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	263	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TATGGCCACACATCAGTGATG	0.507										HNSCC(39;0.1)			12	32	---	---	---	---	PASS	A	146818104	A	A	146818104	3	1	116	1	0	0	0	0	1	0	0	0	3647	478	17	3	810	3	CNTNAP2	7	146818104	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	3677424	146818104	12320559	85	42379										
DPP6	1804	broad.mit.edu	37	chr7	154519510	154519510	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aaaacaatatctactactgtGcacatgtcgggaaacaggcc	8	10	1	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr7:154519510G>T	uc003wlk.2	+	8	925	c.796G>T	c.(796-798)GCA>TCA	p.A266S	DPP6_uc003wli.2_Missense_Mutation_p.A202S|DPP6_uc003wlm.2_Missense_Mutation_p.A204S|DPP6_uc011kvq.1_Missense_Mutation_p.A159S	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	266	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CTACTACTGTGCACATGTCGG	0.388													3	26	---	---	---	---	PASS	T	154519510	T	T	154519510	3	4	116	1	0	0	0	0	1	0	0	0	4730	1319	46	3	942	3	DPP6	7	154519510	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	7701406	154519510	4619153	86	42380										
ADAM2	2515	broad.mit.edu	37	chr8	39644560	39644560	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aggttgcaccaacataatttGacttttctctgtaacttaag	6	8	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr8:39644560G>C	uc003xnj.2	-	10	899	c.824C>G	c.(823-825)TCA>TGA	p.S275*	ADAM2_uc003xnk.2_Nonsense_Mutation_p.S256*|ADAM2_uc011lck.1_Nonsense_Mutation_p.S275*|ADAM2_uc003xnl.2_Intron	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	275	Extracellular (Potential).|Peptidase M12B.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		AACATAATTTGACTTTTCTCT	0.254													7	55	---	---	---	---	PASS	C	39644560	C	C	39644560	4	2	116	1	0	0	0	0	0	1	0	0	241	1294	45	2	1427	2	ADAM2	8	39644560	Nonsense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08		39644560	106719462	87	42381										
PRKDC	5591	broad.mit.edu	37	chr8	48794537	48794537	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cgagaggggaatctttggccCaccatgaatcacacttcttc	9	12	3	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr8:48794537C>A	uc003xqi.2	-	38	4955	c.4898G>T	c.(4897-4899)TGG>TTG	p.W1633L	PRKDC_uc003xqj.2_Missense_Mutation_p.W1633L|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1633					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				ATCTTTGGCCCACCATGAATC	0.428								NHEJ					12	52	---	---	---	---	PASS	A	48794537	A	A	48794537	3	1	116	1	0	0	0	0	1	0	0	0	12521	595	21	3	7688	3	PRKDC	8	48794537	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	9149977	48794537	97569485	88	42382										
PREX2	80243	broad.mit.edu	37	chr8	69050754	69050754	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gaggaacctctggttgcaagTaagtaattaggtatttacaa	10	5	1	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr8:69050754T>A	uc003xxv.1	+	33	4114	c.4087_splice	c.e33+2	p.N1363_splice		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a						G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TGGTTGCAAGTAAGTAATTAG	0.279													21	35	---	---	---	---	PASS	A	69050754	A	A	69050754	5	1	116	1	0	0	0	0	0	0	1	0	12477	1652	57	5	4448	5	PREX2	8	69050754	Splice_Site	SNP	T	TCGA-56-5898-01A-11D-1632-08	20256217	69050754	77313268	89	42383										
LRRCC1	85444	broad.mit.edu	37	chr8	86044041	86044041	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ttactgatgctgacttccagGatgccttagctaaagaaata	8	8	0	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr8:86044041G>T	uc003ycw.2	+	12	1967	c.1813G>T	c.(1813-1815)GAT>TAT	p.D605Y	LRRCC1_uc010lzz.1_RNA|LRRCC1_uc010maa.1_Missense_Mutation_p.D306Y|LRRCC1_uc003ycx.2_Missense_Mutation_p.D512Y|LRRCC1_uc003ycy.2_Missense_Mutation_p.D585Y	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	605	Potential.				cell division|mitosis	centriole|nucleus					0						TGACTTCCAGGATGCCTTAGC	0.358													10	36	---	---	---	---	PASS	T	86044041	T	T	86044041	3	4	116	1	0	0	0	0	1	0	0	0	9026	1174	41	2	1859	2	LRRCC1	8	86044041	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	16993287	86044041	60319981	90	42384										
CA3	761	broad.mit.edu	37	chr8	86354361	86354361	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gccagtttcatcttcactggGgctcttcggatgatcatggc	11	11	5	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr8:86354361G>T	uc003ydj.2	+	3	375	c.292G>T	c.(292-294)GGC>TGC	p.G98C	CA3_uc011lfv.1_Intron	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	98					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0						TCTTCACTGGGGCTCTTCGGA	0.512													8	56	---	---	---	---	PASS	T	86354361	T	T	86354361	3	4	116	1	0	0	0	0	1	0	0	0	2517	1232	43	3	302	3	CA3	8	86354361	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	310320	86354361	60009661	91	42385										
ADCY8	114	broad.mit.edu	37	chr8	131833626	131833626	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cacagccaggaggaacatggCcatcagtagcagtgatacct	11	11	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr8:131833626C>A	uc003ytd.3	-	13	2972	c.2716G>T	c.(2716-2718)GCC>TCC	p.A906S	ADCY8_uc010mds.2_Missense_Mutation_p.A775S	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	906	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			AGGAACATGGCCATCAGTAGC	0.463										HNSCC(32;0.087)			11	22	---	---	---	---	PASS	A	131833626	A	A	131833626	3	1	116	1	0	0	0	0	1	0	0	0	300	739	26	3	1063	3	ADCY8	8	131833626	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	45479265	131833626	14530396	92	42386										
ODF2	4957	broad.mit.edu	37	chr9	131261374	131261374	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gctgagcagaaccaaaacggAattgagccagctgcggcgga	14	10	0	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr9:131261374A>G	uc011mbd.1	+	20	2581	c.2270A>G	c.(2269-2271)GAA>GGA	p.E757G	ODF2_uc004bvb.2_Missense_Mutation_p.E733G|ODF2_uc011mbe.1_Missense_Mutation_p.E752G|ODF2_uc004bvc.2_Missense_Mutation_p.E733G|ODF2_uc004bvd.3_Missense_Mutation_p.E757G|ODF2_uc004bvh.2_Missense_Mutation_p.E163G	NM_002540	NP_002531	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2 isoform 1	757	Potential.				cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centriole|cilium|cytosol|microtubule|spindle pole	protein binding|structural molecule activity			ovary(1)	1						ACCAAAACGGAATTGAGCCAG	0.607													7	41	---	---	---	---	PASS	G	131261374	G	G	131261374	3	3	116	1	0	0	0	0	1	0	0	0	10827	246	9	5	2462	5	ODF2	9	131261374	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08		131261374	9952057	93	42387										
SORCS1	114815	broad.mit.edu	37	chr10	108923977	108923977	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gtctcctccggccggagcgtGcagcaaccgccatggatgcc	13	16	1	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr10:108923977G>T	uc001kym.2	-	1	316	c.308C>A	c.(307-309)GCA>GAA	p.A103E	SORCS1_uc001kyl.2_Missense_Mutation_p.A103E|SORCS1_uc009xxs.2_Missense_Mutation_p.A103E|SORCS1_uc001kyn.1_Missense_Mutation_p.A103E|SORCS1_uc001kyo.2_Missense_Mutation_p.A103E	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	103	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		GCCGGAGCGTGCAGCAACCGC	0.706													4	10	---	---	---	---	PASS	T	108923977	T	T	108923977	3	4	116	1	0	0	0	0	1	0	0	0	14930	1319	46	3	3536	3	SORCS1	10	108923977	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08		108923977	26610770	94	42388										
MUC5B	727897	broad.mit.edu	37	chr11	1267306	1267306	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ccaaatccacagctaccagcTttacacccatcccctccttc	2	20	0	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:1267306T>G	uc009ycr.1	+	49	11071	c.10945T>G	c.(10945-10947)TTT>GTT	p.F3649V	MUC5B_uc001ltb.2_Missense_Mutation_p.F3069V	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3066	7 X Cys-rich subdomain repeats.|Thr-rich.|17 X approximate tandem repeats, Ser/Thr- rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		AGCTACCAGCTTTACACCCAT	0.592													5	92	---	---	---	---	PASS	G	1267306	G	G	1267306	3	3	116	1	0	0	0	0	1	0	0	0	9979	1609	56	5	9327	5	MUC5B	11	1267306	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08		1267306	133739210	95	42389										
SLC22A18	5002	broad.mit.edu	37	chr11	2946385	2946385	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	acccttgtcctcctggtcctCtggaggaaacctatgcccca	8	16	1	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:2946385C>G	uc001lwx.2	+	11	1451	c.1233C>G	c.(1231-1233)CTC>CTG	p.L411L	SLC22A18_uc001lwy.2_Silent_p.L411L|SLC22A18_uc001lwz.2_Silent_p.L313L	NM_183233	NP_899056	Q96BI1	S22AI_HUMAN	tumor suppressing subtransferable candidate 5	411	Helical; (Potential).				excretion|organic cation transport	apical plasma membrane|cytoplasmic part|integral to membrane|nuclear envelope	drug:hydrogen antiporter activity|symporter activity|ubiquitin protein ligase binding			central_nervous_system(2)|ovary(1)	3		all_epithelial(84;0.000124)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)|all_lung(207;0.198)		BRCA - Breast invasive adenocarcinoma(625;0.00256)|LUSC - Lung squamous cell carcinoma(625;0.192)		TCCTGGTCCTCTGGAGGAAAC	0.597													12	51	---	---	---	---	PASS	G	2946385	G	G	2946385	2	3	116	1	0	0	0	0	0	0	0	1	14449	900	32	2		2	SLC22A18	11	2946385	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	1679079	2946385	132060131	96	42390										
OR51I2	390064	broad.mit.edu	37	chr11	5475341	5475341	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tgttcttgtatccacctttgGcatggacctgttttttatct	7	9	2	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:5475341G>T	uc010qzf.1	+	1	623	c.623G>T	c.(622-624)GGC>GTC	p.G208V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004754	NP_001004754	Q9H344	O51I2_HUMAN	olfactory receptor, family 51, subfamily I,	208	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.09e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCCACCTTTGGCATGGACCTG	0.483													54	83	---	---	---	---	PASS	T	5475341	T	T	5475341	3	4	116	1	0	0	0	0	1	0	0	0	11101	1203	42	3	625	3	OR51I2	11	5475341	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	2528956	5475341	129531175	97	42391										
NLRP14	338323	broad.mit.edu	37	chr11	7063864	7063864	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	caatgttagattgggcagagGgcagtctctaccagcagagg	14	8	1	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:7063864G>C	uc001mfb.1	+	4	930	c.607G>C	c.(607-609)GGC>CGC	p.G203R		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	203	NACHT.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		TTGGGCAGAGGGCAGTCTCTA	0.453													3	64	---	---	---	---	PASS	C	7063864	C	C	7063864	3	2	116	1	0	0	0	0	1	0	0	0	10476	1232	43	4	617	4	NLRP14	11	7063864	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	1588523	7063864	127942652	98	42392										
OR4C46	119749	broad.mit.edu	37	chr11	51515730	51515730	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gggagtggtgtggatgggagGctttcttcatgcaaccatac	15	7	2	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:51515730G>T	uc010ric.1	+	1	449	c.449G>T	c.(448-450)GGC>GTC	p.G150V		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TGGATGGGAGGCTTTCTTCAT	0.463													45	109	---	---	---	---	PASS	T	51515730	T	T	51515730	3	4	116	1	0	0	0	0	1	0	0	0	11051	1203	42	3	451	3	OR4C46	11	51515730	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	44451866	51515730	83490786	99	42393										
TNKS1BP1	85456	broad.mit.edu	37	chr11	57080481	57080481	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aacagctgggaattgaggttGactctccccatcgcccttct	9	13	2	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:57080481G>C	uc001njr.2	-	4	1993	c.1681C>G	c.(1681-1683)CAA>GAA	p.Q561E	TNKS1BP1_uc001njs.2_Missense_Mutation_p.Q561E|TNKS1BP1_uc009ymd.1_Missense_Mutation_p.Q12E	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	561	Pro-rich.|Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				AATTGAGGTTGACTCTCCCCA	0.597													12	54	---	---	---	---	PASS	C	57080481	C	C	57080481	3	2	116	1	0	0	0	0	1	0	0	0	16317	1299	45	2	3536	2	TNKS1BP1	11	57080481	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	5564751	57080481	77926035	100	42394										
CLP1	10978	broad.mit.edu	37	chr11	57428849	57428849	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ctgttctgtctccagcccctCgcccactgcctaagaacttc	6	18	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:57428849C>T	uc001nkw.2	+	3	1358	c.1219C>T	c.(1219-1221)CGC>TGC	p.R407C	CLP1_uc010rjw.1_Missense_Mutation_p.R343C|CLP1_uc009yml.2_Missense_Mutation_p.R407C	NM_006831	NP_006822	Q92989	CLP1_HUMAN	ATP/GTP-binding protein isoform 1	407					mRNA 3'-end processing|nuclear mRNA splicing, via spliceosome|siRNA loading onto RISC involved in RNA interference|targeting of mRNA for destruction involved in RNA interference|termination of RNA polymerase II transcription|tRNA splicing, via endonucleolytic cleavage and ligation	nucleoplasm|tRNA-intron endonuclease complex	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity			ovary(1)	1						TCCAGCCCCTCGCCCACTGCC	0.512													44	70	---	---	---	---	PASS	T	57428849	T	T	57428849	3	4	116	1	0	0	0	0	1	0	0	0	3550	884	31	2	1225	2	CLP1	11	57428849	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	348368	57428849	77577667	101	42395										
OR9Q2	219957	broad.mit.edu	37	chr11	57958307	57958307	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tccatcgactgctaccttctGgccatcatggcctatgaccg	8	15	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:57958307G>T	uc010rka.1	+	1	345	c.345G>T	c.(343-345)CTG>CTT	p.L115L		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				GCTACCTTCTGGCCATCATGG	0.592													34	97	---	---	---	---	PASS	T	57958307	T	T	57958307	2	4	116	1	0	0	0	0	0	0	0	1	11256	1335	47	3		3	OR9Q2	11	57958307	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08	529458	57958307	77048209	102	42396										
PRPF19	27339	broad.mit.edu	37	chr11	60665722	60665722	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ggggcccgagtggccagggaAgttggccacattagtacgtt	16	9	0	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:60665722A>G	uc001nqf.2	-	14	1369	c.1162T>C	c.(1162-1164)TTC>CTC	p.F388L		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	388					DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						TGGCCAGGGAAGTTGGCCACA	0.527													9	44	---	---	---	---	PASS	G	60665722	G	G	60665722	3	3	116	1	0	0	0	0	1	0	0	0	12564	72	3	5	364	5	PRPF19	11	60665722	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	2707415	60665722	74340794	103	42397										
INPPL1	3636	broad.mit.edu	37	chr11	71939479	71939479	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ccaaccagggccttgtgtgcGccctgcttcttcctgtagag	11	14	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:71939479G>C	uc001osf.2	+	3	481	c.334G>C	c.(334-336)GCC>CCC	p.A112P	INPPL1_uc001osg.2_5'UTR	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	112	SH2.				actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						CCTTGTGTGCGCCCTGCTTCT	0.667													16	52	---	---	---	---	PASS	C	71939479	C	C	71939479	3	2	116	1	0	0	0	0	1	0	0	0	7761	1087	38	4	344	4	INPPL1	11	71939479	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	11273757	71939479	63067037	104	42398										
C11orf70	85016	broad.mit.edu	37	chr11	101946766	101946766	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	caacaaagcttatctataagGatctggtgaggtaatgttgc	10	6	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:101946766G>T	uc001pgp.2	+	5	626	c.598G>T	c.(598-600)GAT>TAT	p.D200Y	C11orf70_uc001pgo.2_3'UTR|C11orf70_uc001pgq.2_Missense_Mutation_p.D162Y	NM_032930	NP_116319	Q9BRQ4	CK070_HUMAN	hypothetical protein LOC85016	200										skin(1)	1	all_epithelial(12;0.0137)	Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.0137)	Lung(13;0.245)	BRCA - Breast invasive adenocarcinoma(274;0.0335)		TATCTATAAGGATCTGGTGAG	0.348													18	58	---	---	---	---	PASS	T	101946766	T	T	101946766	3	4	116	1	0	0	0	0	1	0	0	0	1659	1174	41	2	498	2	C11orf70	11	101946766	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	30007287	101946766	33059750	105	42399										
TTC12	54970	broad.mit.edu	37	chr11	113235651	113235651	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aactgcatggaggtgcccaaCgttgcgtcttccctgctaaa	10	12	1	0	rs145338802	byFrequency	TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:113235651C>T	uc001pnu.2	+	21	2016	c.1911C>T	c.(1909-1911)AAC>AAT	p.N637N	TTC12_uc001pnv.2_Silent_p.N643N|TTC12_uc001pnw.2_RNA|TTC12_uc001pnx.2_Silent_p.N487N	NM_017868	NP_060338	Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12	637							binding			pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4		all_cancers(61;2.73e-16)|all_epithelial(67;8.64e-10)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.183)|Renal(330;0.187)		BRCA - Breast invasive adenocarcinoma(274;5.3e-06)|Epithelial(105;8.37e-05)|all cancers(92;0.000694)		AGGTGCCCAACGTTGCGTCTT	0.557													15	30	---	---	---	---	PASS	T	113235651	T	T	113235651	2	4	116	1	0	0	0	0	0	0	0	1	16676	535	19	1		1	TTC12	11	113235651	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	11288885	113235651	21770865	106	42400										
OR8B4	283162	broad.mit.edu	37	chr11	124294718	124294718	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ggagctctggctgttctgatAatcccacaaggataaactca	9	10	3	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:124294718A>G	uc010sak.1	-	1	50	c.50T>C	c.(49-51)TTA>TCA	p.L17S		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		CTGTTCTGATAATCCCACAAG	0.483													11	35	---	---	---	---	PASS	G	124294718	G	G	124294718	3	3	116	1	0	0	0	0	1	0	0	0	11229	372	13	5	881	5	OR8B4	11	124294718	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	11059067	124294718	10711798	107	42401										
PKNOX2	63876	broad.mit.edu	37	chr11	125267790	125267790	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atggtgaaggcaatccaggtCctgagaatccacctgctgga	12	10	0	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:125267790C>A	uc001qbu.2	+	7	734	c.420C>A	c.(418-420)GTC>GTA	p.V140V	PKNOX2_uc010saz.1_Silent_p.V111V|PKNOX2_uc010sba.1_Silent_p.V111V|PKNOX2_uc010sbb.1_Silent_p.V76V	NM_022062	NP_071345	Q96KN3	PKNX2_HUMAN	PBX/knotted 1 homeobox 2	140						nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(109;0.00234)|all_lung(97;0.0191)|Lung NSC(97;0.0196)|Medulloblastoma(222;0.0447)|all_neural(223;0.116)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.117)		CAATCCAGGTCCTGAGAATCC	0.552													10	35	---	---	---	---	PASS	A	125267790	A	A	125267790	2	1	116	1	0	0	0	0	0	0	0	1	11983	842	30	2		2	PKNOX2	11	125267790	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	973072	125267790	9738726	108	42402										
ARHGAP32	9743	broad.mit.edu	37	chr11	128844845	128844845	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tctccattaaaagaggcagaCagtgcatcactggaagatct	9	9	3	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr11:128844845C>G	uc009zcp.2	-	20	2205	c.2205G>C	c.(2203-2205)CTG>CTC	p.L735L	ARHGAP32_uc009zcq.1_Silent_p.L695L|ARHGAP32_uc009zco.2_5'UTR|ARHGAP32_uc001qez.2_Silent_p.L386L	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	735					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						AAGAGGCAGACAGTGCATCAC	0.448													4	44	---	---	---	---	PASS	G	128844845	G	G	128844845	2	3	116	1	0	0	0	0	0	0	0	1	881	465	17	4		4	ARHGAP32	11	128844845	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	3577055	128844845	6161671	109	42403										
STYK1	55359	broad.mit.edu	37	chr12	10782146	10782146	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ccctgggccacatcctccaaCaccatatagagtggcagctt	8	15	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr12:10782146C>A	uc001qys.2	-	6	1100	c.579G>T	c.(577-579)GTG>GTT	p.V193V		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	193	Protein kinase.					integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						CATCCTCCAACACCATATAGA	0.527										HNSCC(73;0.22)			8	35	---	---	---	---	PASS	A	10782146	A	A	10782146	2	1	116	1	0	0	0	0	0	0	0	1	15358	465	17	3		3	STYK1	12	10782146	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08		10782146	123069749	110	42404										
PTPRO	5800	broad.mit.edu	37	chr12	15654584	15654584	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	acctcaaaatatttccgttcGtatcgtaaacttgaacaaaa	4	9	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr12:15654584G>A	uc001rcv.1	+	5	866	c.692G>A	c.(691-693)CGT>CAT	p.R231H	PTPRO_uc001rcw.1_Missense_Mutation_p.R231H|PTPRO_uc001rcu.1_Missense_Mutation_p.R231H	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	231	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)				ATTTCCGTTCGTATCGTAAAC	0.328													14	33	---	---	---	---	PASS	A	15654584	A	A	15654584	3	1	116	1	0	0	0	0	1	0	0	0	12809	1145	40	1	710	1	PTPRO	12	15654584	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	4872438	15654584	118197311	111	42405										
YARS2	51067	broad.mit.edu	37	chr12	32906940	32906940	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gtttagccaaacagcgttgcCagcagactttcccagctttg	9	12	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr12:32906940C>A	uc001rli.2	-	2	925	c.859G>T	c.(859-861)GGC>TGC	p.G287C		NM_001040436	NP_001035526	Q9Y2Z4	SYYM_HUMAN	tyrosyl-tRNA synthetase 2, mitochondrial	287					tyrosyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|RNA binding|tyrosine-tRNA ligase activity				0	Lung NSC(5;2.43e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)				L-Tyrosine(DB00135)	ACAGCGTTGCCAGCAGACTTT	0.418													36	115	---	---	---	---	PASS	A	32906940	A	A	32906940	3	1	116	1	0	0	0	0	1	0	0	0	17465	594	21	3	590	3	YARS2	12	32906940	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	17252356	32906940	100944955	112	42406										
PA2G4	5036	broad.mit.edu	37	chr12	56500497	56500497	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	agaaagaaaaggaaatgaagAaaggtaaaaaaaaaaaatcc	8	2	0	4			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr12:56500497A>T	uc001sjm.2	+	2	633	c.214A>T	c.(214-216)AAA>TAA	p.K72*	PA2G4_uc009zol.2_Nonsense_Mutation_p.K72*|PA2G4_uc009zom.2_Nonsense_Mutation_p.K72*	NM_006191	NP_006182	Q9UQ80	PA2G4_HUMAN	ErbB3-binding protein 1	72					cell cycle arrest|cell proliferation|negative regulation of transcription, DNA-dependent|regulation of translation|rRNA processing	cytoplasm|nucleolus|ribonucleoprotein complex	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|ubiquitin protein ligase binding				0			OV - Ovarian serous cystadenocarcinoma(18;0.0739)			GGAAATGAAGAAAGGTAAAAA	0.249													7	43	---	---	---	---	PASS	T	56500497	T	T	56500497	4	4	116	1	0	0	0	0	0	1	0	0	11361	247	9	5	220	5	PA2G4	12	56500497	Nonsense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	23593557	56500497	77351398	113	42407										
PTPRB	5787	broad.mit.edu	37	chr12	70963467	70963467	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atgcttacctgtccgcccaaCcacatttatctgattcttca	4	14	3	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr12:70963467C>G	uc001swb.3	-	12	2998	c.2968G>C	c.(2968-2970)GTT>CTT	p.V990L	PTPRB_uc010sto.1_Missense_Mutation_p.V990L|PTPRB_uc010stp.1_Missense_Mutation_p.V900L|PTPRB_uc001swc.3_Missense_Mutation_p.V1208L|PTPRB_uc001swa.3_Missense_Mutation_p.V1120L|PTPRB_uc001swd.3_Missense_Mutation_p.V1207L|PTPRB_uc009zrr.1_Missense_Mutation_p.V1087L	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	990	Fibronectin type-III 11.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			GTCCGCCCAACCACATTTATC	0.522													45	34	---	---	---	---	PASS	G	70963467	G	G	70963467	3	3	116	1	0	0	0	0	1	0	0	0	12796	507	18	4	3109	4	PTPRB	12	70963467	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	14462970	70963467	62888428	114	42408										
SART3	9733	broad.mit.edu	37	chr12	108936867	108936867	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gctttgttatagttctgaatTactgactctggtattgggtc	10	6	2	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr12:108936867T>A	uc001tmz.1	-	6	1078	c.843A>T	c.(841-843)GTA>GTT	p.V281V	SART3_uc001tmy.1_5'Flank|SART3_uc009zux.1_5'UTR|SART3_uc010swx.1_Silent_p.V281V|SART3_uc010swy.1_Silent_p.V167V|SART3_uc010swz.1_Silent_p.V281V|SART3_uc001tna.1_RNA	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	281					RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						AGTTCTGAATTACTGACTCTG	0.413									Porokeratosis				31	33	---	---	---	---	PASS	A	108936867	A	A	108936867	2	1	116	1	0	0	0	0	0	0	0	1	13847	1741	61	5		5	SART3	12	108936867	Silent	SNP	T	TCGA-56-5898-01A-11D-1632-08	37973400	108936867	24915028	115	42409										
DNAH10	196385	broad.mit.edu	37	chr12	124362328	124362328	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tgagtggcaagctgacattcTgcacgctagcactttacaaa	9	10	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr12:124362328T>C	uc001uft.3	+	47	7916	c.7891T>C	c.(7891-7893)TGC>CGC	p.C2631R		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2631	AAA 3 (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)		GCTGACATTCTGCACGCTAGC	0.398													19	31	---	---	---	---	PASS	C	124362328	C	C	124362328	3	2	116	1	0	0	0	0	1	0	0	0	4598	1580	55	5	8077	5	DNAH10	12	124362328	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	15425461	124362328	9489567	116	42410										
GPR133	283383	broad.mit.edu	37	chr12	131561415	131561415	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tgtactgcgccttcctggacTtcaggtaccctctgcacagg	10	14	2	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr12:131561415T>A	uc001uit.3	+	14	2102	c.1543T>A	c.(1543-1545)TTC>ATC	p.F515I	GPR133_uc010tbm.1_Missense_Mutation_p.F547I|GPR133_uc009zyo.2_5'UTR|GPR133_uc001uiv.1_Missense_Mutation_p.F34I	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	515	GPS.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		CTTCCTGGACTTCAGGTACCC	0.582													19	23	---	---	---	---	PASS	A	131561415	A	A	131561415	3	1	116	1	0	0	0	0	1	0	0	0	6643	1609	56	5	1597	5	GPR133	12	131561415	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	7199087	131561415	2290480	117	42411										
ULK1	8408	broad.mit.edu	37	chr12	132396531	132396535	+	Frame_Shift_Del	DEL	GGCTG	-	-													0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cagaagaccctggcctccccGgctgacaccgctggcttcct					rs56390341		TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr12:132396531_132396535delGGCTG	uc001uje.2	+	13	1261_1265	c.993_997delGGCTG	c.(991-999)CCGGCTGACfs	p.P331fs		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	331_333	Interaction with GABARAP and GABARAPL2.				autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		TGGCCTCCCCGGCTGACACCGCTGG	0.639													14	10	---	---	---	---		-	132396535	-	-	132396531	7	5	116	1	0	1	0	1	0	0	0	0	16972	1103	39	0	1043	0	ULK1	12	132396531	Frame_Shift_Del	DEL	GGCTG	TCGA-56-5898-01A-11D-1632-08	835116	132396531	1455364	118	42412										
MTUS2	23281	broad.mit.edu	37	chr13	29600146	29600146	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tcaccaggtgacagtcatgtGgcttttattcctaataatct	7	9	3	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr13:29600146G>T	uc001usl.3	+	1	1399	c.1341G>T	c.(1339-1341)GTG>GTT	p.V447V		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	437						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						ACAGTCATGTGGCTTTTATTC	0.483													5	20	---	---	---	---	PASS	T	29600146	T	T	29600146	2	4	116	1	0	0	0	0	0	0	0	1	9966	1335	47	3		3	MTUS2	13	29600146	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08		29600146	85569732	119	42413										
ATP7B	540	broad.mit.edu	37	chr13	52548103	52548103	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aagcctcaaatcccatgtctTctatagcagctctgagttct	6	12	5	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr13:52548103T>G	uc001vfw.2	-	2	1410	c.1253A>C	c.(1252-1254)GAA>GCA	p.E418A	ATP7B_uc010adv.2_Missense_Mutation_p.E418A|ATP7B_uc001vfx.2_Missense_Mutation_p.E418A|ATP7B_uc001vfy.2_Missense_Mutation_p.E307A|ATP7B_uc010tgt.1_Missense_Mutation_p.E418A|ATP7B_uc010tgu.1_Missense_Mutation_p.E418A|ATP7B_uc010tgv.1_Missense_Mutation_p.E418A|ATP7B_uc010tgw.1_Missense_Mutation_p.E386A	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	418	HMA 4.|Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		TCCCATGTCTTCTATAGCAGC	0.463									Wilson_disease				8	44	---	---	---	---	PASS	G	52548103	G	G	52548103	3	3	116	1	0	0	0	0	1	0	0	0	1191	1783	62	5	3224	5	ATP7B	13	52548103	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	22947957	52548103	62621775	120	42414										
PCDH17	27253	broad.mit.edu	37	chr13	58299291	58299291	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gccgggattccagtgagatgGgtgctgttcttgagcagctt	15	8	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr13:58299291G>T	uc001vhq.1	+	4	4235	c.3343G>T	c.(3343-3345)GGT>TGT	p.G1115C	PCDH17_uc010aec.1_Missense_Mutation_p.G1114C|PCDH17_uc001vhr.1_Missense_Mutation_p.G204C	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	1115	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CAGTGAGATGGGTGCTGTTCT	0.512													36	99	---	---	---	---	PASS	T	58299291	T	T	58299291	3	4	116	1	0	0	0	0	1	0	0	0	11512	1232	43	3	3357	3	PCDH17	13	58299291	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	5751188	58299291	56870587	121	42415										
KLHL1	57626	broad.mit.edu	37	chr13	70535466	70535466	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atgcaaattggacaaggtccCagagagcattggggtctatg	13	7	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr13:70535466C>T	uc001vip.2	-	3	1585	c.791G>A	c.(790-792)TGG>TAG	p.W264*	KLHL1_uc010thm.1_Nonsense_Mutation_p.W203*	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	264	BTB.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		GACAAGGTCCCAGAGAGCATT	0.378													19	70	---	---	---	---	PASS	T	70535466	T	T	70535466	4	4	116	1	0	0	0	0	0	1	0	0	8365	595	21	3	1491	3	KLHL1	13	70535466	Nonsense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	12236175	70535466	44634412	122	42416										
MYO16	23026	broad.mit.edu	37	chr13	109817407	109817407	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atggaaattccatctcaaatGgtaagcactttttaaactca	5	8	2	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr13:109817407G>C	uc001vqt.1	+	33	5383	c.5257G>C	c.(5257-5259)GGT>CGT	p.G1753R	MYO16_uc010agk.1_Missense_Mutation_p.G1775R	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1753					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			CATCTCAAATGGTAAGCACTT	0.328													10	43	---	---	---	---	PASS	C	109817407	C	C	109817407	3	2	116	1	0	0	0	0	1	0	0	0	10064	1362	47	4	5383	4	MYO16	13	109817407	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	39281941	109817407	5352471	123	42417										
ARHGEF7	8874	broad.mit.edu	37	chr13	111944527	111944527	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atgatgaccaaccaagcctaGactccctggggcgtcgcagt	11	13	0	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr13:111944527G>T	uc001vrs.2	+	20	2510	c.2260G>T	c.(2260-2262)GAC>TAC	p.D754Y	ARHGEF7_uc001vrr.2_Missense_Mutation_p.D733Y|ARHGEF7_uc001vrt.2_Missense_Mutation_p.D704Y|ARHGEF7_uc001vrv.3_Intron|ARHGEF7_uc001vrw.3_Intron|ARHGEF7_uc001vrx.3_Intron|ARHGEF7_uc010tjo.1_Intron|ARHGEF7_uc010tjp.1_Missense_Mutation_p.D498Y|ARHGEF7_uc001vry.1_Missense_Mutation_p.D170Y	NM_001113511	NP_001106983	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform c	754					apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			ACCAAGCCTAGACTCCCTGGG	0.552													18	55	---	---	---	---	PASS	T	111944527	T	T	111944527	3	4	116	1	0	0	0	0	1	0	0	0	911	942	33	2	2338	2	ARHGEF7	13	111944527	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	2127120	111944527	3225351	124	42418										
OR11H4	390442	broad.mit.edu	37	chr14	20711630	20711630	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tagtatgtacattcttcgatCctatatcctgttactaacag	5	9	1	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr14:20711630C>A	uc010tld.1	+	1	680	c.680C>A	c.(679-681)TCC>TAC	p.S227Y		NM_001004479	NP_001004479	Q8NGC9	O11H4_HUMAN	olfactory receptor, family 11, subfamily H,	227	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.000888)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0146)		ATTCTTCGATCCTATATCCTG	0.438													93	201	---	---	---	---	PASS	A	20711630	A	A	20711630	3	1	116	1	0	0	0	0	1	0	0	0	10928	855	30	2	682	2	OR11H4	14	20711630	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08		20711630	86637910	125	42419										
RNASE12	493901	broad.mit.edu	37	chr14	21058696	21058696	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gatgaagacatgctccttttTacaagtgtggtcaggttccc	10	9	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr14:21058696T>C	uc001vxt.2	-	1	287	c.187A>G	c.(187-189)AAA>GAA	p.K63E	RNASE11_uc010ahv.2_5'Flank|RNASE11_uc010ahx.2_5'Flank|RNASE11_uc010ahw.2_5'Flank|RNASE11_uc001vxs.2_5'Flank|uc001vxu.1_RNA	NM_001024822	NP_001019993	Q5GAN4	RNS12_HUMAN	ribonuclease, RNase A family, 12 (non-active)	63						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(95;0.00238)		Epithelial(56;1.85e-06)|all cancers(55;1.46e-05)	GBM - Glioblastoma multiforme(265;0.013)		TGCTCCTTTTTACAAGTGTGG	0.453													39	61	---	---	---	---	PASS	C	21058696	C	C	21058696	3	2	116	1	0	0	0	0	1	0	0	0	13402	1763	61	5	260	5	RNASE12	14	21058696	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	347066	21058696	86290844	126	42420										
LRRC16B	90668	broad.mit.edu	37	chr14	24529408	24529408	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	acaaccactcccagacgtgcCcccaggagcaggccttcagg	10	17	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr14:24529408C>T	uc001wlj.2	+	24	2162	c.2005C>T	c.(2005-2007)CCC>TCC	p.P669S	LRRC16B_uc001wlk.2_5'Flank	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	669										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		CCAGACGTGCCCCCAGGAGCA	0.642													8	58	---	---	---	---	PASS	T	24529408	T	T	24529408	3	4	116	1	0	0	0	0	1	0	0	0	8972	623	22	3	2099	3	LRRC16B	14	24529408	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	3470712	24529408	82820132	127	42421										
CMA1	1215	broad.mit.edu	37	chr14	24975443	24975443	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aaagttgaattgggatgggaAggggagtgtccccacagcca	15	7	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr14:24975443A>G	uc001wpp.1	-	4	421	c.391T>C	c.(391-393)TTC>CTC	p.F131L	CMA1_uc010alx.1_Missense_Mutation_p.F20L	NM_001836	NP_001827	P23946	CMA1_HUMAN	chymase 1, mast cell preproprotein	131	Peptidase S1.			FP -> AV (in Ref. 3; AA sequence).	interleukin-1 beta biosynthetic process|proteolysis	extracellular region	serine-type endopeptidase activity				0				GBM - Glioblastoma multiforme(265;0.0271)		TGGGATGGGAAGGGGAGTGTC	0.567													7	27	---	---	---	---	PASS	G	24975443	G	G	24975443	3	3	116	1	0	0	0	0	1	0	0	0	3574	72	3	5	360	5	CMA1	14	24975443	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	446035	24975443	82374097	128	42422										
FOXG1	2290	broad.mit.edu	37	chr14	29237474	29237474	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cactttgagttacaacggcaCcacgtcggcctaccccagcc	8	17	0	1	rs150277632		TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr14:29237474C>A	uc001wqe.2	+	1	1188	c.989C>A	c.(988-990)ACC>AAC	p.T330N		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	330					axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		TACAACGGCACCACGTCGGCC	0.647													35	83	---	---	---	---	PASS	A	29237474	A	A	29237474	3	1	116	1	0	0	0	0	1	0	0	0	6007	507	18	3	991	3	FOXG1	14	29237474	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	4262031	29237474	78112066	129	42423										
CLEC14A	161198	broad.mit.edu	37	chr14	38724715	38724715	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aagacctcaaactggtacttGcacaggtagccgttggcgcg	12	11	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr14:38724715G>A	uc001wum.1	-	1	860	c.513C>T	c.(511-513)TGC>TGT	p.C171C		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	171	Extracellular (Potential).|C-type lectin.					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)		ACTGGTACTTGCACAGGTAGC	0.577													24	59	---	---	---	---	PASS	A	38724715	A	A	38724715	2	1	116	1	0	0	0	0	0	0	0	1	3499	1311	46	3		3	CLEC14A	14	38724715	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08	9487241	38724715	68624825	130	42424										
SOS2	6655	broad.mit.edu	37	chr14	50585243	50585243	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tagaactgagcacatagcatCgacgcggtacccttggagag	12	10	0	3	rs58365465		TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr14:50585243C>A	uc001wxs.3	-	23	3916	c.3818G>T	c.(3817-3819)CGA>CTA	p.R1273L	SOS2_uc010ans.2_Missense_Mutation_p.R108L|SOS2_uc010tql.1_Missense_Mutation_p.R1240L|C14orf138_uc001wxn.1_5'Flank|C14orf138_uc001wxo.1_5'Flank|C14orf138_uc001wxp.1_5'Flank|C14orf138_uc001wxq.1_5'Flank	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	1273					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					CACATAGCATCGACGCGGTAC	0.517													12	37	---	---	---	---	PASS	A	50585243	A	A	50585243	3	1	116	1	0	0	0	0	1	0	0	0	14937	884	31	2	184	2	SOS2	14	50585243	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	11860528	50585243	56764297	131	42425										
GPHN	10243	broad.mit.edu	37	chr14	67567581	67567581	+	Frame_Shift_Del	DEL	G	-	-													0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tccatctcacagctgctgatGgcccaggagatcgtttcatc							TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr14:67567581delG	uc001xiy.2	+	12	2268	c.1147delG	c.(1147-1149)GGCfs	p.G383fs	GPHN_uc001xix.2_Frame_Shift_Del_p.G416fs|GPHN_uc010tss.1_Frame_Shift_Del_p.G429fs|GPHN_uc010tst.1_Frame_Shift_Del_p.G352fs|GPHN_uc010tsu.1_Frame_Shift_Del_p.G306fs	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	383	MPT adenylyltransferase.				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		AGCTGCTGATGGCCCAGGAGA	0.443			T	MLL	AL								37	16	---	---	---	---		-	67567581	-	-	67567581	7	5	116	1	0	1	0	1	0	0	0	0	6610	1348	47	0	1296	0	GPHN	14	67567581	Frame_Shift_Del	DEL	G	TCGA-56-5898-01A-11D-1632-08	16982338	67567581	39781959	132	42426										
MPP5	64398	broad.mit.edu	37	chr14	67768148	67768148	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ttcatcataaggaaggacaaGaactaactgctttgctgaat	8	7	2	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr14:67768148G>C	uc001xjc.2	+	5	1085	c.619G>C	c.(619-621)GAA>CAA	p.E207Q	MPP5_uc001xjd.2_Missense_Mutation_p.E173Q|ATP6V1D_uc001xje.2_Intron	NM_022474	NP_071919	Q8N3R9	MPP5_HUMAN	membrane protein, palmitoylated 5	207	Interaction with LIN7C (By similarity).|L27 2.				tight junction assembly	cytoplasm|endomembrane system|tight junction	protein domain specific binding			ovary(1)	1				all cancers(60;0.000388)|OV - Ovarian serous cystadenocarcinoma(108;0.00762)|BRCA - Breast invasive adenocarcinoma(234;0.0106)		GGAAGGACAAGAACTAACTGC	0.318													7	38	---	---	---	---	PASS	C	67768148	C	C	67768148	3	2	116	1	0	0	0	0	1	0	0	0	9737	943	33	2	629	2	MPP5	14	67768148	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	200567	67768148	39581392	133	42427										
YLPM1	56252	broad.mit.edu	37	chr14	75265315	75265315	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gggagccaggacaggggtgcAgctggcagccgagaaagggg	21	8	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr14:75265315A>G	uc001xqj.3	+	5	3439	c.3315A>G	c.(3313-3315)GCA>GCG	p.A1105A	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	910	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		ACAGGGGTGCAGCTGGCAGCC	0.617													9	17	---	---	---	---	PASS	G	75265315	G	G	75265315	2	3	116	1	0	0	0	0	0	0	0	1	17483	175	7	5		5	YLPM1	14	75265315	Silent	SNP	A	TCGA-56-5898-01A-11D-1632-08	7497167	75265315	32084225	134	42428										
TUBGCP5	114791	broad.mit.edu	37	chr15	22848885	22848885	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tgtgttgtagagctgtttacGatctgtgctggaacaaatag	12	5	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr15:22848885G>T	uc001yur.3	+	10	1062	c.932G>T	c.(931-933)CGA>CTA	p.R311L	TUBGCP5_uc001yuq.2_Missense_Mutation_p.R311L|TUBGCP5_uc010axz.1_5'UTR	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	311					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		AGCTGTTTACGATCTGTGCTG	0.423													11	48	---	---	---	---	PASS	T	22848885	T	T	22848885	3	4	116	1	0	0	0	0	1	0	0	0	16766	1058	37	2	970	2	TUBGCP5	15	22848885	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08		22848885	79682507	135	42429										
SLC12A6	9990	broad.mit.edu	37	chr15	34549958	34549958	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tattttgtagacatgggaggTagacacccatgaaggtaccc	11	8	0	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr15:34549958T>C	uc001zhw.2	-	5	739	c.575A>G	c.(574-576)TAC>TGC	p.Y192C	SLC12A6_uc001zhv.2_Missense_Mutation_p.Y141C|SLC12A6_uc001zhx.2_Missense_Mutation_p.Y177C|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.Y133C|SLC12A6_uc001zib.2_Missense_Mutation_p.Y183C|SLC12A6_uc001zic.2_Missense_Mutation_p.Y192C|SLC12A6_uc010bau.2_Missense_Mutation_p.Y192C|SLC12A6_uc001zid.2_Missense_Mutation_p.Y133C|SLC12A6_uc001zhu.2_Intron	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	192	Helical; (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	ACATGGGAGGTAGACACCCAT	0.393													6	16	---	---	---	---	PASS	C	34549958	C	C	34549958	3	2	116	1	0	0	0	0	1	0	0	0	14387	1638	57	5	2961	5	SLC12A6	15	34549958	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08	11701073	34549958	67981434	136	42430										
HERC1	8925	broad.mit.edu	37	chr15	64046826	64046826	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ttactaatgttggaatgttaCgactattgctgtcaccatga	8	7	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr15:64046826C>G	uc002amp.2	-	7	1800	c.1652G>C	c.(1651-1653)CGT>CCT	p.R551P	HERC1_uc010uil.1_Intron|HERC1_uc010bgt.1_Missense_Mutation_p.R551P	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	551	RCC1 4.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TGGAATGTTACGACTATTGCT	0.373													12	50	---	---	---	---	PASS	G	64046826	G	G	64046826	3	3	116	1	0	0	0	0	1	0	0	0	7057	536	19	4	13221	4	HERC1	15	64046826	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	29496868	64046826	38484566	137	42431										
THSD4	79875	broad.mit.edu	37	chr15	72040852	72040852	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gacgatgaggaatgcaacatGaagctccggccgaatgacat	12	9	0	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr15:72040852G>A	uc002atb.1	+	13	2413	c.2334G>A	c.(2332-2334)ATG>ATA	p.M778I	THSD4_uc002ate.2_Missense_Mutation_p.M418I	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	778	TSP type-1 3.					proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						AATGCAACATGAAGCTCCGGC	0.572													13	25	---	---	---	---	PASS	A	72040852	A	A	72040852	3	1	116	1	0	0	0	0	1	0	0	0	15875	1290	45	2	2384	2	THSD4	15	72040852	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	7994026	72040852	30490540	138	42432										
ACSM5	54988	broad.mit.edu	37	chr16	20441101	20441101	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gactggtgtggagctgtacgAaggctatggccagtctgaaa	15	7	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr16:20441101A>G	uc002dhe.2	+	8	1250	c.1103A>G	c.(1102-1104)GAA>GGA	p.E368G		NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	368	ATP (By similarity).				fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2						GAGCTGTACGAAGGCTATGGC	0.617													5	33	---	---	---	---	PASS	G	20441101	G	G	20441101	3	3	116	1	0	0	0	0	1	0	0	0	187	246	9	5	1129	5	ACSM5	16	20441101	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08		20441101	69913652	139	42433										
KARS	3735	broad.mit.edu	37	chr16	75663434	75663434	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cagtcagaccctctttagagCggtgcctagggacaggagac	13	11	2	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr16:75663434C>T	uc002feq.2	-	12	1478	c.1430G>A	c.(1429-1431)CGC>CAC	p.R477H	KARS_uc002fer.2_Missense_Mutation_p.R505H|KARS_uc002fes.2_Missense_Mutation_p.R321H	NM_005548	NP_005539	Q15046	SYK_HUMAN	lysyl-tRNA synthetase isoform 2	477					interspecies interaction between organisms|lysyl-tRNA aminoacylation|tRNA processing	cytosol|extracellular region|mitochondrial matrix|nucleus|plasma membrane|soluble fraction	ATP binding|lysine-tRNA ligase activity|metal ion binding|tRNA binding			ovary(2)	2					L-Lysine(DB00123)	CTCTTTAGAGCGGTGCCTAGG	0.403													18	131	---	---	---	---	PASS	T	75663434	T	T	75663434	3	4	116	1	0	0	0	0	1	0	0	0	7980	768	27	1	375	1	KARS	16	75663434	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	55222333	75663434	14691319	140	42434										
PKD1L2	114780	broad.mit.edu	37	chr16	81151074	81151074	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cagctggccaggatgatggcCagctccagaaggttccactt	12	12	0	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr16:81151074C>T	uc002fgh.1	-	41	6675	c.6675G>A	c.(6673-6675)CTG>CTA	p.L2225L	PKD1L2_uc002fgf.1_Silent_p.L25L|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	2225	Helical; (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GGATGATGGCCAGCTCCAGAA	0.617													28	59	---	---	---	---	PASS	T	81151074	T	T	81151074	2	4	116	1	0	0	0	0	0	0	0	1	11965	581	21	3		3	PKD1L2	16	81151074	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	5487640	81151074	9203679	141	42435										
TP53	7157	broad.mit.edu	37	chr17	7578442	7578442	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tcatgtgctgtgactgcttgTagatggccatggcgcggacg	15	9	1	2	rs148924904		TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr17:7578442T>C	uc002gim.2	-	5	682	c.488A>G	c.(487-489)TAC>TGC	p.Y163C	TP53_uc002gig.1_Missense_Mutation_p.Y163C|TP53_uc002gih.2_Missense_Mutation_p.Y163C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y31C|TP53_uc010cng.1_Missense_Mutation_p.Y31C|TP53_uc002gii.1_Missense_Mutation_p.Y31C|TP53_uc010cnh.1_Missense_Mutation_p.Y163C|TP53_uc010cni.1_Missense_Mutation_p.Y163C|TP53_uc002gij.2_Missense_Mutation_p.Y163C|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.Y70C|TP53_uc002gio.2_Missense_Mutation_p.Y31C|TP53_uc010vug.1_Missense_Mutation_p.Y124C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	163	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> F (in a sporadic cancer; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Y -> S (in sporadic cancers; somatic mutation).|Y -> N (in sporadic cancers; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Y163C(95)|p.Y163N(17)|p.Y163H(17)|p.Y163*(7)|p.0?(7)|p.Y163S(4)|p.Y163Y(3)|p.Y163fs*1(2)|p.Y163D(2)|p.Y163fs*7(2)|p.V157_C176del20(1)|p.Y163_Q165delYKQ(1)|p.P151_V173del23(1)|p.Y163fs*14(1)|p.S149fs*72(1)|p.A159_Q167delAMAIYKQSQ(1)|p.Y163fs*18(1)|p.I162_Y163delIY(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)		TGACTGCTTGTAGATGGCCAT	0.622		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)			14	27	---	---	---	---	PASS	C	7578442	C	C	7578442	3	2	116	1	0	0	0	0	1	0	0	0	16378	1638	57	5	810	5	TP53	17	7578442	Missense_Mutation	SNP	T	TCGA-56-5898-01A-11D-1632-08		7578442	73616768	142	42436										
MYOCD	93649	broad.mit.edu	37	chr17	12626177	12626177	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cctttagcttccactgcagaGaggtccattccaactgctca	7	14	1	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr17:12626177G>C	uc002gnn.2	+	5	566	c.267G>C	c.(265-267)GAG>GAC	p.E89D	MYOCD_uc002gno.2_Missense_Mutation_p.E89D|MYOCD_uc002gnp.1_5'UTR	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	89					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CCACTGCAGAGAGGTCCATTC	0.453													27	65	---	---	---	---	PASS	C	12626177	C	C	12626177	3	2	116	1	0	0	0	0	1	0	0	0	10087	933	33	2	285	2	MYOCD	17	12626177	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	5047735	12626177	68569033	143	42437										
SLC5A10	125206	broad.mit.edu	37	chr17	18862955	18862955	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gcactggcatgggtgttcgtGcccatctacatctcctcaga	10	13	3	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr17:18862955G>C	uc002guu.1	+	4	368	c.327G>C	c.(325-327)GTG>GTC	p.V109V	SLC5A10_uc002gur.1_Silent_p.V53V|SLC5A10_uc002gut.1_Silent_p.V109V|SLC5A10_uc002guv.1_Silent_p.V109V|SLC5A10_uc010vyl.1_Silent_p.V109V	NM_001042450	NP_001035915	A0PJK1	SC5AA_HUMAN	solute carrier family 5 (sodium/glucose	109	Helical; (Potential).				sodium ion transport|transmembrane transport	integral to membrane	transporter activity			ovary(1)	1						GGGTGTTCGTGCCCATCTACA	0.592													11	30	---	---	---	---	PASS	C	18862955	C	C	18862955	2	2	116	1	0	0	0	0	0	0	0	1	14662	1306	46	4		4	SLC5A10	17	18862955	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08	6236778	18862955	62332255	144	42438										
AMAC1	146861	broad.mit.edu	37	chr17	33520469	33520469	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gccacaaccacctcggaatgTaggacagcgcacaccagggc	11	15	0	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr17:33520469T>C	uc002hjd.2	-	1	944	c.858A>G	c.(856-858)CTA>CTG	p.L286L		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	286	DUF6 2.|Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		CCTCGGAATGTAGGACAGCGC	0.592													3	111	---	---	---	---	PASS	C	33520469	C	C	33520469	2	2	116	1	0	0	0	0	0	0	0	1	559	1625	57	5		5	AMAC1	17	33520469	Silent	SNP	T	TCGA-56-5898-01A-11D-1632-08	14657514	33520469	47674741	145	42439										
MYO19	80179	broad.mit.edu	37	chr17	34856770	34856770	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cgggcacactgctccagcacCcgggcacgcccacattccag	10	19	0	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr17:34856770C>G	uc010wcy.1	-	24	3269	c.2277G>C	c.(2275-2277)CGG>CGC	p.R759R	MYO19_uc002hmw.2_Silent_p.R559R|MYO19_uc010cuu.2_RNA	NM_001163735	NP_001157207	Q96H55	MYO19_HUMAN	myosin XIX isoform 2	759	IQ 1.					mitochondrial outer membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)	1		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GCTCCAGCACCCGGGCACGCC	0.667													4	8	---	---	---	---	PASS	G	34856770	G	G	34856770	2	3	116	1	0	0	0	0	0	0	0	1	10067	610	22	4		4	MYO19	17	34856770	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	1336301	34856770	46338440	146	42440										
TRIM37	4591	broad.mit.edu	37	chr17	57126641	57126641	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tcgagaagcatgtcagagcaTgcagacttcttagctcgtgt	11	9	2	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr17:57126641T>C	uc002iwy.3	-	15	1872	c.1428A>G	c.(1426-1428)GCA>GCG	p.A476A	TRIM37_uc002iwz.3_Silent_p.A476A|TRIM37_uc002ixa.3_Silent_p.A354A|TRIM37_uc010woc.1_Silent_p.A442A	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	476						perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TGTCAGAGCATGCAGACTTCT	0.453									Mulibrey_Nanism				63	36	---	---	---	---	PASS	C	57126641	C	C	57126641	2	2	116	1	0	0	0	0	0	0	0	1	16508	1451	51	5		5	TRIM37	17	57126641	Silent	SNP	T	TCGA-56-5898-01A-11D-1632-08	22269871	57126641	24068569	147	42441										
ABCA6	23460	broad.mit.edu	37	chr17	67079035	67079035	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tttcctgccctgcagcctgtGggaaaagcttcagaatctca	9	12	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr17:67079035G>A	uc002jhw.1	-	36	4770	c.4595C>T	c.(4594-4596)CCA>CTA	p.P1532L		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	1532					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					TGCAGCCTGTGGGAAAAGCTT	0.443													90	139	---	---	---	---	PASS	A	67079035	A	A	67079035	3	1	116	1	0	0	0	0	1	0	0	0	36	1348	47	3	274	3	ABCA6	17	67079035	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	9952394	67079035	14116175	148	42442										
EPB41L3	23136	broad.mit.edu	37	chr18	5398051	5398051	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tttgagaagtagaagtaaccCctcctatgaattctgttggt	9	7	1	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr18:5398051C>G	uc002kmt.1	-	17	2527	c.2441G>C	c.(2440-2442)GGG>GCG	p.G814A	EPB41L3_uc010wzh.1_Missense_Mutation_p.G645A|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Missense_Mutation_p.G119A|EPB41L3_uc010wzf.1_Missense_Mutation_p.G111A|EPB41L3_uc010wzg.1_Missense_Mutation_p.G86A|EPB41L3_uc010dkr.2_Missense_Mutation_p.G206A	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	814	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						AGAAGTAACCCCTCCTATGAA	0.448													49	95	---	---	---	---	PASS	G	5398051	G	G	5398051	3	3	116	1	0	0	0	0	1	0	0	0	5154	623	22	4	846	4	EPB41L3	18	5398051	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08		5398051	72679197	149	42443										
CEP192	55125	broad.mit.edu	37	chr18	13089487	13089487	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	taaaccagagatgataaaacAgatacttccagaacatagtg	7	7	0	4			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr18:13089487A>C	uc010xac.1	+	33	6106	c.6026A>C	c.(6025-6027)CAG>CCG	p.Q2009P	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.Q1534P|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Missense_Mutation_p.Q431P|CEP192_uc002krw.2_Missense_Mutation_p.Q158P|CEP192_uc002krx.2_Missense_Mutation_p.Q13P|CEP192_uc002kry.2_RNA	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	2009										ovary(4)|pancreas(1)	5						ATGATAAAACAGATACTTCCA	0.313													16	41	---	---	---	---	PASS	C	13089487	C	C	13089487	3	2	116	1	0	0	0	0	1	0	0	0	3251	188	7	5	6152	5	CEP192	18	13089487	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	7691436	13089487	64987761	150	42444										
PSMA8	143471	broad.mit.edu	37	chr18	23772372	23772372	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aaaaaatcaaagaaatctgtCtaattcttaggatgaccact	5	7	4	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr18:23772372C>G	uc002kvq.2	+	7	882	c.768C>G	c.(766-768)GTC>GTG	p.V256V	PSMA8_uc002kvo.2_Silent_p.V212V|PSMA8_uc002kvp.2_Silent_p.V250V|PSMA8_uc002kvr.2_Silent_p.V224V	NM_144662	NP_653263	Q8TAA3	PSA7L_HUMAN	proteasome alpha 8 subunit isoform 1	256					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|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	threonine-type endopeptidase activity			skin(1)	1	all_cancers(21;0.000585)|Lung NSC(5;0.00148)|all_lung(6;0.0038)|Ovarian(20;0.124)		OV - Ovarian serous cystadenocarcinoma(3;0.000324)|all cancers(3;0.000954)|LUSC - Lung squamous cell carcinoma(2;0.181)			AGAAATCTGTCTAATTCTTAG	0.323													6	19	---	---	---	---	PASS	G	23772372	G	G	23772372	2	3	116	1	0	0	0	0	0	0	0	1	12673	900	32	2		2	PSMA8	18	23772372	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	10682885	23772372	54304876	151	42445										
DSG1	1828	broad.mit.edu	37	chr18	28923950	28923950	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	aaatataattgaatgcattgAcaactcaggtaagaaaaaag	7	4	1	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr18:28923950A>G	uc002kwp.2	+	13	2095	c.1883A>G	c.(1882-1884)GAC>GGC	p.D628G	DSG1_uc010xbp.1_5'UTR	NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	628	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			GAATGCATTGACAACTCAGGT	0.294													20	53	---	---	---	---	PASS	G	28923950	G	G	28923950	3	3	116	1	0	0	0	0	1	0	0	0	4776	275	10	5	1933	5	DSG1	18	28923950	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	5151578	28923950	49153298	152	42446										
KLHL14	57565	broad.mit.edu	37	chr18	30321943	30321943	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tcgtaatactgaaccaaattGctggggagccggtccggtcc	12	11	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr18:30321943G>T	uc002kxm.1	-	3	1405	c.1017C>A	c.(1015-1017)AGC>AGA	p.S339R	KLHL14_uc010dmd.1_5'UTR	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	339	Kelch 1.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						GAACCAAATTGCTGGGGAGCC	0.373													5	17	---	---	---	---	PASS	T	30321943	T	T	30321943	3	4	116	1	0	0	0	0	1	0	0	0	8370	1310	46	3	897	3	KLHL14	18	30321943	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	1397993	30321943	47755305	153	42447										
CREB3L3	84699	broad.mit.edu	37	chr19	4157049	4157049	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gctccatcctgggctctggaGactcactgcccagctcccca	9	18	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr19:4157049G>C	uc002lzl.2	+	3	330	c.214G>C	c.(214-216)GAC>CAC	p.D72H	CREB3L3_uc002lzm.2_Missense_Mutation_p.D62H|CREB3L3_uc010xib.1_Missense_Mutation_p.D63H|CREB3L3_uc010xic.1_Missense_Mutation_p.D63H	NM_032607	NP_115996	Q68CJ9	CR3L3_HUMAN	cAMP responsive element binding protein 3-like	72	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0232)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGCTCTGGAGACTCACTGCC	0.632													11	34	---	---	---	---	PASS	C	4157049	C	C	4157049	3	2	116	1	0	0	0	0	1	0	0	0	3858	942	33	2	224	2	CREB3L3	19	4157049	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08		4157049	54971934	154	42448										
TMEM146	257062	broad.mit.edu	37	chr19	5724856	5724856	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	caggaaaagtgtttaatctgAtacaggacgttcaaggggta	12	5	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr19:5724856A>G	uc002mda.2	+	2	170	c.109A>G	c.(109-111)ATA>GTA	p.I37V	TMEM146_uc010duj.1_Intron	NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	37	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						GTTTAATCTGATACAGGACGT	0.338													46	76	---	---	---	---	PASS	G	5724856	G	G	5724856	3	3	116	1	0	0	0	0	1	0	0	0	16057	333	12	5	115	5	TMEM146	19	5724856	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	1567807	5724856	53404127	155	42449										
STXBP2	6813	broad.mit.edu	37	chr19	7707385	7707385	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	acgaggacgatgacttgtggGtggagcttcgccacatgcat	14	9	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr19:7707385G>T	uc002mha.3	+	10	910	c.865G>T	c.(865-867)GTG>TTG	p.V289L	STXBP2_uc002mhb.3_Missense_Mutation_p.V286L|STXBP2_uc010dvj.2_RNA|STXBP2_uc010xjr.1_Missense_Mutation_p.V300L|STXBP2_uc010dvk.2_Missense_Mutation_p.V257L|STXBP2_uc002mhc.3_Missense_Mutation_p.V57L|STXBP2_uc002mhe.1_5'Flank	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a	289					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						TGACTTGTGGGTGGAGCTTCG	0.662													20	58	---	---	---	---	PASS	T	7707385	T	T	7707385	3	4	116	1	0	0	0	0	1	0	0	0	15352	1261	44	3	903	3	STXBP2	19	7707385	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	1982529	7707385	51421598	156	42450										
CYP2B6	1555	broad.mit.edu	37	chr19	41522660	41522660	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cccgtggccccagaagacatCgatctgacaccccaggagtg	11	15	1	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr19:41522660C>G	uc002opr.1	+	9	1411	c.1404C>G	c.(1402-1404)ATC>ATG	p.I468M	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Missense_Mutation_p.I268M	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	468					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	CAGAAGACATCGATCTGACAC	0.577													6	14	---	---	---	---	PASS	G	41522660	G	G	41522660	3	3	116	1	0	0	0	0	1	0	0	0	4164	874	31	2	1438	2	CYP2B6	19	41522660	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	33815275	41522660	17606323	157	42451										
ZNF230	7773	broad.mit.edu	37	chr19	44512957	44512957	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tataggaggcagtgaccttcAaggatgtggctgtgttcttc	13	7	2	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr19:44512957A>G	uc002oyb.1	+	3	282	c.31A>G	c.(31-33)AAG>GAG	p.K11E		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	11	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				AGTGACCTTCAAGGATGTGGC	0.522													39	128	---	---	---	---	PASS	G	44512957	G	G	44512957	3	3	116	1	0	0	0	0	1	0	0	0	17781	131	5	5	37	5	ZNF230	19	44512957	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	2990297	44512957	14616026	158	42452										
ZNF473	25888	broad.mit.edu	37	chr19	50550200	50550200	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cccatctcaaccagcacctgAgagttcacacccaggagaca	7	16	2	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr19:50550200A>G	uc002prn.2	+	5	2737	c.2500A>G	c.(2500-2502)AGA>GGA	p.R834G	ZNF473_uc002prm.2_Missense_Mutation_p.R834G|ZNF473_uc010ybo.1_Missense_Mutation_p.R822G	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	834	C2H2-type 19.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		CCAGCACCTGAGAGTTCACAC	0.517											OREG0025632	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	43	---	---	---	---	PASS	G	50550200	G	G	50550200	3	3	116	1	0	0	0	0	1	0	0	0	17928	296	11	5	2514	5	ZNF473	19	50550200	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08	6037243	50550200	8578783	159	42453										
SIGLEC7	27036	broad.mit.edu	37	chr19	51650535	51650535	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gcggacgtgggagacataggCatgaaggatgcaaacaccat	14	8	0	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr19:51650535C>A	uc002pvv.1	+	6	1251	c.1182C>A	c.(1180-1182)GGC>GGA	p.G394G	SIGLEC7_uc002pvw.1_Silent_p.G301G|SIGLEC7_uc010eoq.1_RNA|SIGLEC7_uc010eor.1_Intron	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	394	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		GAGACATAGGCATGAAGGATG	0.577													6	21	---	---	---	---	PASS	A	51650535	A	A	51650535	2	1	116	1	0	0	0	0	0	0	0	1	14313	697	25	3		3	SIGLEC7	19	51650535	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	1100335	51650535	7478448	160	42454										
NLRP2	55655	broad.mit.edu	37	chr19	55512225	55512225	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ttgatactgagaaacatcatCcctgggcagaaaggccttct	9	10	2	3			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr19:55512225C>T	uc002qij.2	+	13	3234	c.3148C>T	c.(3148-3150)CCC>TCC	p.P1050S	NLRP2_uc010yfp.1_Missense_Mutation_p.P1027S|NLRP2_uc010esn.2_Missense_Mutation_p.P1026S|NLRP2_uc010eso.2_Missense_Mutation_p.P1047S|NLRP2_uc010esp.2_Missense_Mutation_p.P1028S	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	1050					apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding	p.P1050H(1)		ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		GAAACATCATCCCTGGGCAGA	0.408													18	49	---	---	---	---	PASS	T	55512225	T	T	55512225	3	4	116	1	0	0	0	0	1	0	0	0	10477	855	30	2	3194	2	NLRP2	19	55512225	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	3861690	55512225	3616758	161	42455										
NLRP5	126206	broad.mit.edu	37	chr19	56538983	56538983	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tgcgtgcgatcatgaacaacCgtgagctgctcgaccagtgc	12	12	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr19:56538983C>T	uc002qmj.2	+	7	1384	c.1384C>T	c.(1384-1386)CGT>TGT	p.R462C	NLRP5_uc002qmi.2_Missense_Mutation_p.R443C	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	462	NACHT.					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)		CATGAACAACCGTGAGCTGCT	0.602													6	25	---	---	---	---	PASS	T	56538983	T	T	56538983	3	4	116	1	0	0	0	0	1	0	0	0	10480	652	23	1	1410	1	NLRP5	19	56538983	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	1026758	56538983	2590000	162	42456										
SLC9A8	23315	broad.mit.edu	37	chr20	48491342	48491342	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	atgcagcagaccctccgcacCgtggccttcttatgtggtga	11	13	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr20:48491342C>A	uc002xuv.1	+	11	1269	c.1059C>A	c.(1057-1059)ACC>ACA	p.T353T	SLC9A8_uc010zym.1_Silent_p.T53T|SLC9A8_uc010gic.2_Silent_p.T53T|SLC9A8_uc010gid.2_Intron	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	353						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			CCCTCCGCACCGTGGCCTTCT	0.547													25	77	---	---	---	---	PASS	A	48491342	A	A	48491342	2	1	116	1	0	0	0	0	0	0	0	1	14720	639	23	1		1	SLC9A8	20	48491342	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08		48491342	14534178	163	42457										
DYRK1A	1859	broad.mit.edu	37	chr21	38844986	38844986	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	cctcacttatcttcttgtagGaggagagacttcagcatgca	9	10	4	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr21:38844986G>A	uc002ywk.2	+	2	86	c.11G>A	c.(10-12)GGA>GAA	p.G4E	DYRK1A_uc002ywg.1_RNA|DYRK1A_uc010gno.1_RNA|DYRK1A_uc002ywh.1_5'UTR|DYRK1A_uc002ywi.2_Missense_Mutation_p.G4E|DYRK1A_uc002ywj.2_Missense_Mutation_p.G4E|DYRK1A_uc002ywl.2_Missense_Mutation_p.G4E|DYRK1A_uc002ywm.2_Missense_Mutation_p.G4E	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	4					nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						CTTCTTGTAGGAGGAGAGACT	0.393													8	40	---	---	---	---	PASS	A	38844986	A	A	38844986	3	1	116	1	0	0	0	0	1	0	0	0	4854	1188	41	2	17	2	DYRK1A	21	38844986	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08		38844986	9284909	164	42458										
PRODH	5625	broad.mit.edu	37	chr22	18912699	18912699	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gtgggcctggtattgcttgtCccgcttattcgtgcctggaa	13	10	0	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr22:18912699C>T	uc010grl.2	-	4	546	c.532G>A	c.(532-534)GAC>AAC	p.D178N	PRODH_uc002zoj.3_Missense_Mutation_p.D68N|PRODH_uc002zol.3_Missense_Mutation_p.D68N|PRODH_uc002zok.3_Missense_Mutation_p.D178N	NM_016335	NP_057419	O43272	PROD_HUMAN	proline dehydrogenase 1	178					glutamate biosynthetic process|induction of apoptosis by oxidative stress|proline catabolic process	mitochondrial inner membrane|mitochondrial matrix	proline dehydrogenase activity			breast(1)	1					L-Proline(DB00172)	TATTGCTTGTCCCGCTTATTC	0.617													12	41	---	---	---	---	PASS	T	18912699	T	T	18912699	3	4	116	1	0	0	0	0	1	0	0	0	12548	855	30	2	1314	2	PRODH	22	18912699	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08		18912699	32391867	165	42459										
RANGAP1	5905	broad.mit.edu	37	chr22	41670655	41670655	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	gcgatgaccctggctgcttcCacgcccactgtgttgccttc	10	16	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chr22:41670655C>T	uc003azs.2	-	2	1659	c.189G>A	c.(187-189)GTG>GTA	p.V63V	RANGAP1_uc003azt.2_Silent_p.V63V|RANGAP1_uc003azu.2_Silent_p.V63V|RANGAP1_uc011aoz.1_Silent_p.V53V	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	63	LRR 1.				mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						TGGCTGCTTCCACGCCCACTG	0.537													16	46	---	---	---	---	PASS	T	41670655	T	T	41670655	2	4	116	1	0	0	0	0	0	0	0	1	13033	581	21	3		3	RANGAP1	22	41670655	Silent	SNP	C	TCGA-56-5898-01A-11D-1632-08	22757956	41670655	9633911	166	42460										
BEND2	139105	broad.mit.edu	37	chrX	18198764	18198764	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	ttaccaaaatattcagaggtAacagtgctgaaagaaaagaa	8	5	1	4			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chrX:18198764A>G	uc004cyj.3	-	9	1449	c.1295T>C	c.(1294-1296)TTA>TCA	p.L432S	BEND2_uc010nfb.2_Missense_Mutation_p.L341S	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	432										ovary(3)|kidney(1)|central_nervous_system(1)	5						ATTCAGAGGTAACagtgctga	0.214													12	9	---	---	---	---	PASS	G	18198764	G	G	18198764	3	3	116	1	0	0	0	0	1	0	0	0	1398	372	13	5	1154	5	BEND2	23	18198764	Missense_Mutation	SNP	A	TCGA-56-5898-01A-11D-1632-08		18198764	137071796	167	42461										
ATP7A	538	broad.mit.edu	37	chrX	77289124	77289124	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	agctggacactgaaaccttgGgtacctgcatagatttccag	10	10	0	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chrX:77289124G>T	uc004ecx.3	+	17	3476	c.3316G>T	c.(3316-3318)GGT>TGT	p.G1106C		NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	1106	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						TGAAACCTTGGGTACCTGCAT	0.403													17	13	---	---	---	---	PASS	T	77289124	T	T	77289124	3	4	116	1	0	0	0	0	1	0	0	0	1190	1232	43	3	3378	3	ATP7A	23	77289124	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	59090360	77289124	77981436	168	42462										
IL1RAPL2	26280	broad.mit.edu	37	chrX	104984630	104984630	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	acctggcgaattatacctgcCatgttgaaaaccgaaatgga	9	9	0	1			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chrX:104984630C>T	uc004elz.1	+	8	1750	c.994C>T	c.(994-996)CAT>TAT	p.H332Y		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	332	Ig-like C2-type 3.|Extracellular (Potential).				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						TTATACCTGCCATGTTGAAAA	0.383													34	29	---	---	---	---	PASS	T	104984630	T	T	104984630	3	4	116	1	0	0	0	0	1	0	0	0	7662	594	21	3	1020	3	IL1RAPL2	23	104984630	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	27695506	104984630	50285930	169	42463										
TRPC5	7224	broad.mit.edu	37	chrX	111020095	111020095	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	actcttggatttggcccgagCcccaccactgccatcattat	7	15	2	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chrX:111020095C>G	uc004epl.1	-	11	3287	c.2368G>C	c.(2368-2370)GCT>CCT	p.A790P		NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	790	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						TTGGCCCGAGCCCCACCACTG	0.483													8	175	---	---	---	---	PASS	G	111020095	G	G	111020095	3	3	116	1	0	0	0	0	1	0	0	0	16579	739	26	4	557	4	TRPC5	23	111020095	Missense_Mutation	SNP	C	TCGA-56-5898-01A-11D-1632-08	6035465	111020095	44250465	170	42464										
DCAF12L1	139170	broad.mit.edu	37	chrX	125686548	125686548	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	tctcggcgtccgcctcgaccGcgggcgctttccgtttcctg	12	17	1	0			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chrX:125686548G>A	uc004eul.2	-	1	295	c.44C>T	c.(43-45)GCG>GTG	p.A15V		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	15										skin(3)|ovary(1)	4						CGCCTCGACCGCGGGCGCTTT	0.512													4	18	---	---	---	---	PASS	A	125686548	A	A	125686548	3	1	116	1	0	0	0	0	1	0	0	0	4264	1087	38	1	1351	1	DCAF12L1	23	125686548	Missense_Mutation	SNP	G	TCGA-56-5898-01A-11D-1632-08	14666453	125686548	29584012	171	42465										
SASH3	54440	broad.mit.edu	37	chrX	128925032	128925032	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0887573964497041	15	0.04918359852069	1.68236001202043	2.6137535259216	1.19549522066301	1	1	6	caagaggagcatgaacttccGgtgctcagccgccaggcatc	12	13	1	2			TCGA-56-5898-01A-11D-1632-08	TCGA-56-5898-10A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	aaf47efe-4a0a-40d1-b70f-9c9168cbdae0	00644bfb-0824-40c2-aeeb-ad1103559466	g.chrX:128925032G>A	uc011mun.1	+	4	599	c.417G>A	c.(415-417)CCG>CCA	p.P139P	SASH3_uc004euu.2_Silent_p.P139P|SASH3_uc011muo.1_Silent_p.P56P	NM_018990	NP_061863	O75995	SASH3_HUMAN	SAM and SH3 domain containing 3	139										ovary(2)|pancreas(1)	3						ATGAACTTCCGGTGCTCAGCC	0.612													7	20	---	---	---	---	PASS	A	128925032	A	A	128925032	2	1	116	1	0	0	0	0	0	0	0	1	13849	1103	39	1		1	SASH3	23	128925032	Silent	SNP	G	TCGA-56-5898-01A-11D-1632-08	3238484	128925032	26345528	172	42466										
HSPG2	3339	broad.mit.edu	37	chr1	22216521	22216521	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cctggggagaggtgacgtagGaggccacagagccgctggag	19	9	0	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:22216521G>C	uc001bfj.2	-	6	567	c.527C>G	c.(526-528)TCC>TGC	p.S176C	HSPG2_uc009vqd.2_Missense_Mutation_p.S176C|HSPG2_uc009vqe.1_Missense_Mutation_p.P75A	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	176	SEA.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GGTGACGTAGGAGGCCACAGA	0.577													32	49	---	---	---	---	PASS	C	22216521	C	C	22216521	3	2	117	1	0	0	0	0	1	0	0	0	7430	1174	41	2	13016	2	HSPG2	1	22216521	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08		22216521	227034100	1	42467										
IPO13	9670	broad.mit.edu	37	chr1	44415579	44415579	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ccgcaaaggcctggtgcggaCcagcctggcggtggaatgtg	17	11	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:44415579C>A	uc001ckx.2	+	2	1370	c.575C>A	c.(574-576)ACC>AAC	p.T192N		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	192	HEAT 1.				protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				CTGGTGCGGACCAGCCTGGCG	0.642													3	23	---	---	---	---	PASS	A	44415579	A	A	44415579	3	1	117	1	0	0	0	0	1	0	0	0	7794	507	18	3	581	3	IPO13	1	44415579	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	22199058	44415579	204835042	2	42468										
RPE65	6121	broad.mit.edu	37	chr1	68910338	68910338	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgtcagtaacctctactcctCgaaagtaagaaaaaaacctg	6	10	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:68910338C>A	uc001dei.1	-	5	425	c.371G>T	c.(370-372)CGA>CTA	p.R124L		NM_000329	NP_000320	Q16518	RPE65_HUMAN	retinal pigment epithelium-specific protein	124					visual perception	cytoplasm|plasma membrane	all-trans-retinyl-palmitate hydrolase activity|metal ion binding|retinol isomerase activity			ovary(1)	1						CTCTACTCCTCGAAAGTAAGA	0.363													26	41	---	---	---	---	PASS	A	68910338	A	A	68910338	3	1	117	1	0	0	0	0	1	0	0	0	13545	884	31	2	1270	2	RPE65	1	68910338	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	24494759	68910338	180340283	3	42469										
BRDT	676	broad.mit.edu	37	chr1	92441989	92441989	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aactccagttcacaaactgcGgcccaagtaagtttgttgta	8	10	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:92441989G>T	uc001dok.3	+	5	961	c.612G>T	c.(610-612)GCG>GCT	p.A204A	BRDT_uc001dol.3_Silent_p.A204A|BRDT_uc010osz.1_Silent_p.A208A|BRDT_uc009wdf.2_Silent_p.A131A|BRDT_uc010ota.1_Silent_p.A158A|BRDT_uc010otb.1_Silent_p.A158A|BRDT_uc001dom.3_Silent_p.A204A	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	204					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		CACAAACTGCGGCCCAAGTAA	0.353													21	39	---	---	---	---	PASS	T	92441989	T	T	92441989	2	4	117	1	0	0	0	0	0	0	0	1	1508	1103	39	1		1	BRDT	1	92441989	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	23531651	92441989	156808632	4	42470										
NOTCH2NL	388677	broad.mit.edu	37	chr1	145281588	145281588	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ccagtgccagtgccttcaggGcttcacaggccagtactgtg	12	13	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:145281588G>T	uc001emn.3	+	4	888	c.518G>T	c.(517-519)GGC>GTC	p.G173V	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_5'UTR|NOTCH2NL_uc001emm.3_Missense_Mutation_p.G173V|NOTCH2NL_uc001emo.2_Missense_Mutation_p.G173V|NOTCH2NL_uc010oyh.1_RNA	NM_203458	NP_982283	Q7Z3S9	NT2NL_HUMAN	Notch homolog 2 N-terminal like protein	173	EGF-like 5; calcium-binding (Potential).				cell differentiation|multicellular organismal development|Notch signaling pathway	cytoplasm|extracellular region	calcium ion binding			ovary(1)	1						TGCCTTCAGGGCTTCACAGGC	0.562													18	203	---	---	---	---	PASS	T	145281588	T	T	145281588	3	4	117	1	0	0	0	0	1	0	0	0	10549	1203	42	3	528	3	NOTCH2NL	1	145281588	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	52839599	145281588	103969033	5	42471										
HFE2	148738	broad.mit.edu	37	chr1	145415545	145415545	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tccagcacaactgctcccgcCagggccctacagcccctccc	7	22	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:145415545C>A	uc001eni.2	+	3	689	c.364C>A	c.(364-366)CAG>AAG	p.Q122K	NBPF10_uc001emp.3_Intron|HFE2_uc001enj.2_Intron|HFE2_uc001enk.2_Missense_Mutation_p.Q9K|HFE2_uc001enl.2_Intron	NM_213653	NP_998818	Q6ZVN8	RGMC_HUMAN	hemojuvelin isoform a precursor	122					axon guidance	anchored to membrane				ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CTGCTCCCGCCAGGGCCCTAC	0.602													10	42	---	---	---	---	PASS	A	145415545	A	A	145415545	3	1	117	1	0	0	0	0	1	0	0	0	7082	595	21	3	370	3	HFE2	1	145415545	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	133957	145415545	103835076	6	42472										
TRIM46	80128	broad.mit.edu	37	chr1	155148600	155148600	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aggccaccaagggctgcacaGagtgccgcgccaccttctgc	12	16	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:155148600G>A	uc001fhs.1	+	3	645	c.562G>A	c.(562-564)GAG>AAG	p.E188K	RAG1AP1_uc010pey.1_Intron|KRTCAP2_uc001fho.2_5'Flank|KRTCAP2_uc001fhp.1_5'Flank|TRIM46_uc009wpe.1_RNA|TRIM46_uc010pez.1_Missense_Mutation_p.E175K|TRIM46_uc001fhq.2_RNA|TRIM46_uc001fhr.2_Missense_Mutation_p.E188K|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_Missense_Mutation_p.E62K|TRIM46_uc001fhu.1_Missense_Mutation_p.E165K|TRIM46_uc009wpg.1_Missense_Mutation_p.E175K|TRIM46_uc009wpf.2_3'UTR|TRIM46_uc001fhv.3_Missense_Mutation_p.E175K|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	188	RING-type 2; degenerate.					intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GGGCTGCACAGAGTGCCGCGC	0.642													31	89	---	---	---	---	PASS	A	155148600	A	A	155148600	3	1	117	1	0	0	0	0	1	0	0	0	16518	943	33	2	572	2	TRIM46	1	155148600	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	9733055	155148600	94102021	7	42473										
HCN3	57657	broad.mit.edu	37	chr1	155252472	155252472	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctcatctcttctatccctgtGgattacatcttcctagtggt	6	12	4	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:155252472G>T	uc001fjz.1	+	2	557	c.549G>T	c.(547-549)GTG>GTT	p.V183V	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_5'UTR	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	183	Helical; Name=Segment S3; (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(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)			CTATCCCTGTGGATTACATCT	0.592													18	48	---	---	---	---	PASS	T	155252472	T	T	155252472	2	4	117	1	0	0	0	0	0	0	0	1	6998	1335	47	3		3	HCN3	1	155252472	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	103872	155252472	93998149	8	42474										
ETV3	2117	broad.mit.edu	37	chr1	157105292	157105292	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cggctcagcttgtcataattCatctgtggtttgcatttcct	8	10	4	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:157105292C>T	uc001fqr.2	-	3	544	c.255G>A	c.(253-255)ATG>ATA	p.M85I	ETV3_uc001fqt.2_Missense_Mutation_p.M85I	NM_001145312	NP_001138784	P41162	ETV3_HUMAN	ets variant gene 3 isoform 1	85	ETS.						sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(266;0.158)	Prostate(1639;0.174)				TGTCATAATTCATCTGTGGTT	0.507													16	68	---	---	---	---	PASS	T	157105292	T	T	157105292	3	4	117	1	0	0	0	0	1	0	0	0	5279	826	29	2	1327	2	ETV3	1	157105292	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1852820	157105292	92145329	9	42475										
PYHIN1	149628	broad.mit.edu	37	chr1	158943500	158943500	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttagaatcacctcaccaactGtggcccctcctctttcttct	4	16	5	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:158943500G>T	uc001ftb.2	+	8	1668	c.1423G>T	c.(1423-1425)GTG>TTG	p.V475L	PYHIN1_uc001ftc.2_Missense_Mutation_p.V466L|PYHIN1_uc001ftd.2_Intron|PYHIN1_uc001fte.2_Intron	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	475					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					CTCACCAACTGTGGCCCCTCC	0.443													23	75	---	---	---	---	PASS	T	158943500	T	T	158943500	3	4	117	1	0	0	0	0	1	0	0	0	12865	1377	48	3	1449	3	PYHIN1	1	158943500	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1838208	158943500	90307121	10	42476										
C1orf111	284680	broad.mit.edu	37	chr1	162343862	162343862	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agacataagtaggcttcaccGccaatttgcctaaggtgttc	9	10	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:162343862G>T	uc001gbx.2	-	3	826	c.762C>A	c.(760-762)GGC>GGA	p.G254G		NM_182581	NP_872387	Q5T0L3	CA111_HUMAN	hypothetical protein LOC284680	254										ovary(1)	1	all_hematologic(112;0.15)		BRCA - Breast invasive adenocarcinoma(70;0.0938)			AGGCTTCACCGCCAATTTGCC	0.567													67	261	---	---	---	---	PASS	T	162343862	T	T	162343862	2	4	117	1	0	0	0	0	0	0	0	1	1984	1074	38	1		1	C1orf111	1	162343862	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	3400362	162343862	86906759	11	42477										
KIFAP3	22920	broad.mit.edu	37	chr1	169951129	169951129	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttaccatttagcaattcaatGagtgcagggattatgccaga	9	7	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:169951129G>A	uc001ggv.2	-	15	2053	c.1782C>T	c.(1780-1782)CTC>CTT	p.L594L	KIFAP3_uc010plx.1_Silent_p.L296L	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	594	ARM 4.				blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GCAATTCAATGAGTGCAGGGA	0.303													11	32	---	---	---	---	PASS	A	169951129	A	A	169951129	2	1	117	1	0	0	0	0	0	0	0	1	8311	1277	45	2		2	KIFAP3	1	169951129	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	7607267	169951129	79299492	12	42478										
C1orf129	80133	broad.mit.edu	37	chr1	170940928	170940928	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtttgggtctcctggcagcaGagctgtctcttttgtgttcc	12	10	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:170940928G>A	uc001ghg.2	+	8	650	c.520G>A	c.(520-522)GAG>AAG	p.E174K	C1orf129_uc009wvy.2_5'UTR|C1orf129_uc010plz.1_Missense_Mutation_p.E174K	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	174							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CCTGGCAGCAGAGCTGTCTCT	0.438													58	241	---	---	---	---	PASS	A	170940928	A	A	170940928	3	1	117	1	0	0	0	0	1	0	0	0	1996	943	33	2	546	2	C1orf129	1	170940928	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	989799	170940928	78309693	13	42479										
FMO1	2326	broad.mit.edu	37	chr1	171244533	171244533	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cagattctgctgtctctggcCaatgggaggtggtcactatg	13	9	3	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:171244533C>G	uc009wvz.2	+	4	506	c.370C>G	c.(370-372)CAA>GAA	p.Q124E	FMO1_uc010pme.1_Missense_Mutation_p.Q61E|FMO1_uc001ghl.2_Missense_Mutation_p.Q124E|FMO1_uc001ghm.2_Missense_Mutation_p.Q124E|FMO1_uc001ghn.2_Missense_Mutation_p.Q124E	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	124					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TGTCTCTGGCCAATGGGAGGT	0.423													21	66	---	---	---	---	PASS	G	171244533	G	G	171244533	3	3	117	1	0	0	0	0	1	0	0	0	5954	595	21	4	380	4	FMO1	1	171244533	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	303605	171244533	78006088	14	42480										
BAT2L2	23215	broad.mit.edu	37	chr1	171504714	171504714	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	acagtttcagaagtctttacCtccacgattccagcggcagc	8	13	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:171504714C>G	uc010pmg.1	+	13	2281	c.2015C>G	c.(2014-2016)CCT>CGT	p.P672R		NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	672	Gln-rich.						protein C-terminus binding				0						AAGTCTTTACCTCCACGATTC	0.413													49	176	---	---	---	---	PASS	G	171504714	G	G	171504714	3	3	117	1	0	0	0	0	1	0	0	0	1321	681	24	4	2061	4	BAT2L2	1	171504714	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	260181	171504714	77745907	15	42481										
PAPPA2	60676	broad.mit.edu	37	chr1	176564197	176564197	+	Missense_Mutation	SNP	C	A	A													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggttctccagggctttgagcCagagcctgagattctgtcgc							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:176564197C>A	uc001gkz.2	+	3	2621	c.1457C>A	c.(1456-1458)CCA>CAA	p.P486Q	PAPPA2_uc001gky.1_Missense_Mutation_p.P486Q|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	486	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GGCTTTGAGCCAGAGCCTGAG	0.527													21	68	---	---	---	---	PASS	A	176564197	A	A	176564197	3	1	117	1	0	0	0	0	1	0	0	0	11433	594	21	3	1463	3	PAPPA2	1	176564197	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	5059483	176564197	72686424	16	42482	795	2								
PAPPA2	60676	broad.mit.edu	37	chr1	176564198	176564198	+	Silent	SNP	A	C	C													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gttctccagggctttgagccAgagcctgagattctgtcgcc							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:176564198A>C	uc001gkz.2	+	3	2622	c.1458A>C	c.(1456-1458)CCA>CCC	p.P486P	PAPPA2_uc001gky.1_Silent_p.P486P|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	486	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GCTTTGAGCCAGAGCCTGAGA	0.527													21	67	---	---	---	---	PASS	C	176564198	C	C	176564198	2	2	117	1	0	0	0	0	0	0	0	1	11433	175	7	5		5	PAPPA2	1	176564198	Silent	SNP	A	TCGA-56-6545-01A-11D-1817-08	1	176564198	72686423	17	42483	795	2								
PAPPA2	60676	broad.mit.edu	37	chr1	176709227	176709227	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gctgaatttctcatccccacGggtcggcatctcagctgtgg	11	13	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:176709227G>C	uc001gkz.2	+	14	5210	c.4046G>C	c.(4045-4047)CGG>CCG	p.R1349P	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1349					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TCATCCCCACGGGTCGGCATC	0.522													32	118	---	---	---	---	PASS	C	176709227	C	C	176709227	3	2	117	1	0	0	0	0	1	0	0	0	11433	1116	39	4	4149	4	PAPPA2	1	176709227	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	145029	176709227	72541394	18	42484										
FAM5B	57795	broad.mit.edu	37	chr1	177249550	177249550	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttatctctgctccccaaggtCcttgtcctactggtggaacc	8	14	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:177249550C>T	uc001glf.2	+	8	1550	c.1238C>T	c.(1237-1239)TCC>TTC	p.S413F	FAM5B_uc001glg.2_Missense_Mutation_p.S308F	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	413						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TCCCCAAGGTCCTTGTCCTAC	0.527													16	102	---	---	---	---	PASS	T	177249550	T	T	177249550	3	4	117	1	0	0	0	0	1	0	0	0	5593	855	30	2	1264	2	FAM5B	1	177249550	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	540323	177249550	72001071	19	42485										
SEC16B	89866	broad.mit.edu	37	chr1	177902668	177902668	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgcctctctgggcagtatttCggggagagtttttatcagcc	12	9	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:177902668C>A	uc001gli.1	-	21	2765	c.2675G>T	c.(2674-2676)CGA>CTA	p.R892L	SEC16B_uc001glk.1_Missense_Mutation_p.R569L|SEC16B_uc009wwy.1_Missense_Mutation_p.R447L|SEC16B_uc001glh.1_Missense_Mutation_p.R551L|SEC16B_uc009wwz.1_Missense_Mutation_p.R551L|SEC16B_uc001glj.1_Missense_Mutation_p.R893L	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	892					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4						GGCAGTATTTCGGGGAGAGTT	0.532													10	37	---	---	---	---	PASS	A	177902668	A	A	177902668	3	1	117	1	0	0	0	0	1	0	0	0	13987	884	31	2	531	2	SEC16B	1	177902668	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	653118	177902668	71347953	20	42486										
CEP350	9857	broad.mit.edu	37	chr1	180017694	180017694	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tagcagtggtagcagccgccAagaaagtccttcagttccat	10	11	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:180017694A>G	uc001gnt.2	+	22	5029	c.4646A>G	c.(4645-4647)CAA>CGA	p.Q1549R	CEP350_uc009wxl.2_Missense_Mutation_p.Q1548R	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1549	Ser-rich.					centrosome|nucleus|spindle				ovary(4)	4						AGCAGCCGCCAAGAAAGTCCT	0.358													23	85	---	---	---	---	PASS	G	180017694	G	G	180017694	3	3	117	1	0	0	0	0	1	0	0	0	3254	130	5	5	4728	5	CEP350	1	180017694	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	2115026	180017694	69232927	21	42487										
HMCN1	83872	broad.mit.edu	37	chr1	186056380	186056380	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctacagattattcgggccaaGgtatcagatggtggtgaata	12	6	1	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:186056380G>T	uc001grq.1	+	59	9307	c.9078G>T	c.(9076-9078)AAG>AAT	p.K3026N		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3026	Ig-like C2-type 28.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TTCGGGCCAAGGTATCAGATG	0.383													4	75	---	---	---	---	PASS	T	186056380	T	T	186056380	3	4	117	1	0	0	0	0	1	0	0	0	7220	991	35	3	9312	3	HMCN1	1	186056380	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	6038686	186056380	63194241	22	42488										
HMCN1	83872	broad.mit.edu	37	chr1	186064593	186064593	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctgaagattcgggaaagtacAcctgcattgcctcaaatgaa	9	9	1	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:186064593A>G	uc001grq.1	+	68	10742	c.10513A>G	c.(10513-10515)ACC>GCC	p.T3505A		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3505	Ig-like C2-type 33.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GGGAAAGTACACCTGCATTGC	0.473													15	63	---	---	---	---	PASS	G	186064593	G	G	186064593	3	3	117	1	0	0	0	0	1	0	0	0	7220	159	6	5	10783	5	HMCN1	1	186064593	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	8213	186064593	63186028	23	42489										
TPR	7175	broad.mit.edu	37	chr1	186300668	186300668	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agaatcctggttgtatacctGagtctctacctctccatcag	7	12	3	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:186300668G>C	uc001grv.2	-	39	5947	c.5650C>G	c.(5650-5652)CAG>GAG	p.Q1884E		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1884					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)		TTGTATACCTGAGTCTCTACC	0.363			T	NTRK1	papillary thyroid								21	85	---	---	---	---	PASS	C	186300668	C	C	186300668	3	2	117	1	0	0	0	0	1	0	0	0	16413	1299	45	2	1493	2	TPR	1	186300668	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	236075	186300668	62949953	24	42490										
CFHR2	3080	broad.mit.edu	37	chr1	196918772	196918772	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggatggtcaccaacaccaaaGtgtctcagtgagtaaatgcc	10	10	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:196918772G>T	uc001gtq.1	+	2	323	c.246G>T	c.(244-246)AAG>AAT	p.K82N	CFHR2_uc001gtr.1_Intron	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	82	Sushi 1.					extracellular region				skin(2)|ovary(1)	3						CAACACCAAAGTGTCTCAGTG	0.388													16	48	---	---	---	---	PASS	T	196918772	T	T	196918772	3	4	117	1	0	0	0	0	1	0	0	0	3285	1020	36	3	252	3	CFHR2	1	196918772	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	10618104	196918772	52331849	25	42491										
ZBTB41	360023	broad.mit.edu	37	chr1	197168544	197168544	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tatttttttgttgctgttctGaatgaccactggagttaacc	8	7	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:197168544G>C	uc001gtx.1	-	1	1129	c.1060C>G	c.(1060-1062)CAG>GAG	p.Q354E	ZBTB41_uc009wyz.1_RNA|CRB1_uc010poz.1_5'Flank	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	354					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TTGCTGTTCTGAATGACCACT	0.363													13	76	---	---	---	---	PASS	C	197168544	C	C	197168544	3	2	117	1	0	0	0	0	1	0	0	0	17540	1299	45	2	1709	2	ZBTB41	1	197168544	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	249772	197168544	52082077	26	42492										
LMOD1	25802	broad.mit.edu	37	chr1	201868376	201868376	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	actacttaacttcttgagctGcttgaggttgctggagcgga	12	8	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:201868376G>A	uc001gxb.2	-	2	2013	c.1765C>T	c.(1765-1767)CAG>TAG	p.Q589*	LMOD1_uc010ppu.1_Nonsense_Mutation_p.Q538*	NM_012134	NP_036266	P29536	LMOD1_HUMAN	leiomodin 1 (smooth muscle)	589	WH2.				muscle contraction	cytoskeleton|cytosol|membrane fraction	tropomyosin binding			ovary(1)|pancreas(1)|skin(1)	3						TTCTTGAGCTGCTTGAGGTTG	0.582													5	19	---	---	---	---	PASS	A	201868376	A	A	201868376	4	1	117	1	0	0	0	0	0	1	0	0	8856	1328	46	3	45	3	LMOD1	1	201868376	Nonsense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	4699832	201868376	47382245	27	42493										
MYBPH	4608	broad.mit.edu	37	chr1	203143593	203143593	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgtggatgggctggtccagcAtggccggcgggccagcccct	17	13	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:203143593A>G	uc001gzh.1	-	3	532	c.473T>C	c.(472-474)ATG>ACG	p.M158T	FMOD_uc010pqi.1_Intron	NM_004997	NP_004988	Q13203	MYBPH_HUMAN	myosin binding protein H	158	Fibronectin type-III 1.				cell adhesion|regulation of striated muscle contraction	myosin filament	structural constituent of muscle				0			BRCA - Breast invasive adenocarcinoma(75;0.153)	Colorectal(1306;0.0306)		CTGGTCCAGCATGGCCGGCGG	0.582													11	53	---	---	---	---	PASS	G	203143593	G	G	203143593	3	3	117	1	0	0	0	0	1	0	0	0	10014	217	8	5	992	5	MYBPH	1	203143593	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	1275217	203143593	46107028	28	42494										
KCNH1	3756	broad.mit.edu	37	chr1	211093085	211093085	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctggtcattgtgaaatacaaCgaggagatgtagacagaatt	11	5	1	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:211093085C>A	uc001hib.2	-	7	1529	c.1359G>T	c.(1357-1359)TCG>TCT	p.S453S	KCNH1_uc001hic.2_Silent_p.S426S	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	453					myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		TGAAATACAACGAGGAGATGT	0.502													24	96	---	---	---	---	PASS	A	211093085	A	A	211093085	2	1	117	1	0	0	0	0	0	0	0	1	8031	523	19	1		1	KCNH1	1	211093085	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	7949492	211093085	38157536	29	42495										
RPS6KC1	26750	broad.mit.edu	37	chr1	213415138	213415138	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cactatgcacaggaggatccCaggatgttatttgtagcagc	11	9	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:213415138C>A	uc010ptr.1	+	11	2478	c.2319C>A	c.(2317-2319)CCC>CCA	p.P773P	RPS6KC1_uc001hkd.2_Silent_p.P761P|RPS6KC1_uc010pts.1_Silent_p.P561P|RPS6KC1_uc010ptt.1_Silent_p.P561P|RPS6KC1_uc010ptu.1_Silent_p.P592P|RPS6KC1_uc010ptv.1_Silent_p.P308P|RPS6KC1_uc001hke.2_Silent_p.P592P	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	773					cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		AGGAGGATCCCAGGATGTTAT	0.443													25	106	---	---	---	---	PASS	A	213415138	A	A	213415138	2	1	117	1	0	0	0	0	0	0	0	1	13658	581	21	3		3	RPS6KC1	1	213415138	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	2322053	213415138	35835483	30	42496										
TMEM63A	9725	broad.mit.edu	37	chr1	226054858	226054858	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cctcccaaaactatacgggtCtttgtctgcagagaagcaca	8	12	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:226054858C>T	uc001hpm.1	-	8	770	c.520G>A	c.(520-522)GAC>AAC	p.D174N	TMEM63A_uc010pvi.1_Missense_Mutation_p.D174N	NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	174						integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					CTATACGGGTCTTTGTCTGCA	0.527													34	213	---	---	---	---	PASS	T	226054858	T	T	226054858	3	4	117	1	0	0	0	0	1	0	0	0	16187	913	32	2	1971	2	TMEM63A	1	226054858	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	12639720	226054858	23195763	31	42497										
OBSCN	84033	broad.mit.edu	37	chr1	228529140	228529140	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	accctcccccacccacagctGagcagcatcgacctgaacga	7	19	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:228529140G>A	uc009xez.1	+	74	17903	c.17859G>A	c.(17857-17859)CTG>CTA	p.L5953L	OBSCN_uc001hsn.2_Silent_p.L5953L|OBSCN_uc001hsr.1_Silent_p.L582L	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5953	PH.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				ACCCACAGCTGAGCAGCATCG	0.652													4	17	---	---	---	---	PASS	A	228529140	A	A	228529140	2	1	117	1	0	0	0	0	0	0	0	1	10812	1277	45	2		2	OBSCN	1	228529140	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	2474282	228529140	20721481	32	42498										
ACTA1	58	broad.mit.edu	37	chr1	229568328	229568328	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtcctgccggaggcgtagagGgacagcacggcctggatggc	18	11	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:229568328G>C	uc001htm.2	-	3	534	c.429C>G	c.(427-429)TCC>TCG	p.S143S		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	143					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	AGGCGTAGAGGGACAGCACGG	0.493													16	57	---	---	---	---	PASS	C	229568328	C	C	229568328	2	2	117	1	0	0	0	0	0	0	0	1	191	1219	43	4		4	ACTA1	1	229568328	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	1039188	229568328	19682293	33	42499										
ABCB10	23456	broad.mit.edu	37	chr1	229675264	229675264	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gaagagagttcacccacggtCatgtgggcactgcccatcag	12	12	3	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:229675264C>A	uc001htp.3	-	6	1321	c.1278G>T	c.(1276-1278)ATG>ATT	p.M426I		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	426	Mitochondrial intermembrane (Potential).|Helical; (Potential).|ABC transmembrane type-1.					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)				CACCCACGGTCATGTGGGCAC	0.453													33	100	---	---	---	---	PASS	A	229675264	A	A	229675264	3	1	117	1	0	0	0	0	1	0	0	0	41	826	29	2	970	2	ABCB10	1	229675264	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	106936	229675264	19575357	34	42500										
ZP4	57829	broad.mit.edu	37	chr1	238053419	238053419	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cggagctgcctggaccttttCttatccaggtgccacagtcg	11	13	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:238053419C>G	uc001hym.2	-	2	233	c.233G>C	c.(232-234)AGA>ACA	p.R78T	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	78	Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			TGGACCTTTTCTTATCCAGGT	0.557													34	95	---	---	---	---	PASS	G	238053419	G	G	238053419	3	3	117	1	0	0	0	0	1	0	0	0	18215	913	32	2	1433	2	ZP4	1	238053419	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	8378155	238053419	11197202	35	42501										
FMN2	56776	broad.mit.edu	37	chr1	240341368	240341368	+	Nonsense_Mutation	SNP	G	T	T													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggctcgaggatgctgaaacaGgtaaccctttcctttgtctt							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:240341368G>T	uc010pyd.1	+	3	2155	c.1930G>T	c.(1930-1932)GAA>TAA	p.E644*	FMN2_uc010pye.1_Nonsense_Mutation_p.E644*	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	644				E -> EDDGE (in Ref. 2; BAD92390).	actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TGCTGAAACAGGTAACCCTTT	0.413													10	49	---	---	---	---	PASS	T	240341368	T	T	240341368	4	4	117	1	0	0	0	0	0	1	0	0	5950	1014	35	3	1940	3	FMN2	1	240341368	Nonsense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	2287949	240341368	8909253	36	42502	796	2								
FMN2	56776	broad.mit.edu	37	chr1	240341369	240341369	+	Splice_Site	SNP	G	T	T													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gctcgaggatgctgaaacagGtaaccctttcctttgtcttc							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:240341369G>T	uc010pyd.1	+	3	2155	c.1930_splice	c.e3+1	p.E644_splice	FMN2_uc010pye.1_Splice_Site_p.E644_splice	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2						actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GCTGAAACAGGTAACCCTTTC	0.418													10	48	---	---	---	---	PASS	T	240341369	T	T	240341369	5	4	117	1	0	0	0	0	0	0	1	0	5950	1275	44	3	1941	3	FMN2	1	240341369	Splice_Site	SNP	G	TCGA-56-6545-01A-11D-1817-08	1	240341369	8909252	37	42503	796	2								
OR2AK2	391191	broad.mit.edu	37	chr1	248129375	248129375	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tccagatgagctcaggaaaaGgacaggcaaaagctgtttcc	11	9	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:248129375G>T	uc010pzd.1	+	1	742	c.742G>T	c.(742-744)GGA>TGA	p.G248*	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	248	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			CTCAGGAAAAGGACAGGCAAA	0.483													12	61	---	---	---	---	PASS	T	248129375	T	T	248129375	4	4	117	1	0	0	0	0	0	1	0	0	10986	1001	35	3	744	3	OR2AK2	1	248129375	Nonsense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	7788006	248129375	1121246	38	42504										
OR2T1	26696	broad.mit.edu	37	chr1	248569835	248569835	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtggccatttgcaaccctctGagataccctgtcctcatgag	9	13	2	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr1:248569835G>T	uc010pzm.1	+	1	540	c.540G>T	c.(538-540)CTG>CTT	p.L180L		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	180	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.L180R(1)		pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GCAACCCTCTGAGATACCCTG	0.547													35	118	---	---	---	---	PASS	T	248569835	T	T	248569835	2	4	117	1	0	0	0	0	0	0	0	1	11016	1277	45	2		2	OR2T1	1	248569835	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	440460	248569835	680786	39	42505										
PXDN	7837	broad.mit.edu	37	chr2	1684049	1684049	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	acagatggccgctgcctgcgCgttccccgactccgcgtagg	13	16	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:1684049C>A	uc002qxa.2	-	7	710	c.646G>T	c.(646-648)GCG>TCG	p.A216S	PXDN_uc002qxb.1_Missense_Mutation_p.A216S|PXDN_uc002qxc.1_Missense_Mutation_p.A33S	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	216	LRRCT.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GCTGCCTGCGCGTTCCCCGAC	0.582													6	37	---	---	---	---	PASS	A	1684049	A	A	1684049	3	1	117	1	0	0	0	0	1	0	0	0	12847	768	27	1	3861	1	PXDN	2	1684049	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08		1684049	241515324	40	42506										
DNAJC27	51277	broad.mit.edu	37	chr2	25180784	25180784	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agggcgtcaaaggagtctttCtgcccaacatcatagaccag	10	11	4	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:25180784C>G	uc002rft.1	-	4	351	c.300G>C	c.(298-300)CAG>CAC	p.Q100H	DNAJC27_uc010ykn.1_Missense_Mutation_p.Q29H|DNAJC27_uc002rfu.1_RNA|DNAJC27_uc010eyg.1_Missense_Mutation_p.Q100H	NM_016544	NP_057628	Q9NZQ0	DJC27_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 27	100					protein folding|small GTPase mediated signal transduction		GTP binding|heat shock protein binding|unfolded protein binding			skin(1)	1						AGGAGTCTTTCTGCCCAACAT	0.413													13	67	---	---	---	---	PASS	G	25180784	G	G	25180784	3	3	117	1	0	0	0	0	1	0	0	0	4645	912	32	2	537	2	DNAJC27	2	25180784	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	23496735	25180784	218018589	41	42507										
CAD	790	broad.mit.edu	37	chr2	27445786	27445786	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggtgaccctgcctcctatccCagtgtcgtatccacactgag	9	15	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:27445786C>T	uc002rji.2	+	6	852	c.690C>T	c.(688-690)CCC>CCT	p.P230P	CAD_uc010eyw.2_Silent_p.P230P	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	230	Glutamine amidotransferase type-1.|GATase (Glutamine amidotransferase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	CCTCCTATCCCAGTGTCGTAT	0.498													58	82	---	---	---	---	PASS	T	27445786	T	T	27445786	2	4	117	1	0	0	0	0	0	0	0	1	2565	581	21	3		3	CAD	2	27445786	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	2265002	27445786	215753587	42	42508										
NRBP1	29959	broad.mit.edu	37	chr2	27660216	27660216	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ccatccagcttctagaagacCcattacagagggtaaggatc	9	11	1	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:27660216C>G	uc002rko.2	+	11	1724	c.892C>G	c.(892-894)CCA>GCA	p.P298A	NRBP1_uc002rkq.2_Missense_Mutation_p.P298A|NRBP1_uc002rkp.2_Missense_Mutation_p.P298A|NRBP1_uc002rkr.2_Missense_Mutation_p.P89A	NM_013392	NP_037524	Q9UHY1	NRBP_HUMAN	nuclear receptor binding protein	298	Protein kinase.				ER to Golgi vesicle-mediated transport|gene expression|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cell cortex|endomembrane system|lamellipodium|membrane|nucleoplasm	ATP binding|protein homodimerization activity|protein kinase activity			ovary(2)|lung(1)	3	Acute lymphoblastic leukemia(172;0.155)					TCTAGAAGACCCATTACAGAG	0.488													14	30	---	---	---	---	PASS	G	27660216	G	G	27660216	3	3	117	1	0	0	0	0	1	0	0	0	10642	623	22	4	926	4	NRBP1	2	27660216	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	214430	27660216	215539157	43	42509										
ZFP36L2	678	broad.mit.edu	37	chr2	43452474	43452474	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctcgaagggccggcacagctCggtcttgtagcgcgtggagt	16	11	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:43452474C>G	uc002rsv.3	-	2	760	c.469G>C	c.(469-471)GAG>CAG	p.E157Q	LOC100129726_uc010ynx.1_5'Flank	NM_006887	NP_008818	P47974	TISD_HUMAN	zinc finger protein 36, C3H type-like 2	157	C3H1-type 1.|RNA-binding.				cell proliferation	nucleus	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(82;0.00323)|all_hematologic(82;0.00824)				CGGCACAGCTCGGTCTTGTAG	0.652													15	18	---	---	---	---	PASS	G	43452474	G	G	43452474	3	3	117	1	0	0	0	0	1	0	0	0	17644	893	31	2	1019	2	ZFP36L2	2	43452474	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	15792258	43452474	199746899	44	42510										
TSPYL6	388951	broad.mit.edu	37	chr2	54482223	54482223	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggactctggaaggctgtggtCtgaaaaccaggtgaagaagc	15	7	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:54482223C>T	uc002rxr.2	-	1	1187	c.1066G>A	c.(1066-1068)GAC>AAC	p.D356N	ACYP2_uc002rxq.3_Intron	NM_001003937	NP_001003937	Q8N831	TSYL6_HUMAN	TSPY-like 6	356					nucleosome assembly	nucleus					0						AGGCTGTGGTCTGAAAACCAG	0.507													14	79	---	---	---	---	PASS	T	54482223	T	T	54482223	3	4	117	1	0	0	0	0	1	0	0	0	16660	913	32	2	170	2	TSPYL6	2	54482223	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	11029749	54482223	188717150	45	42511										
USP34	9736	broad.mit.edu	37	chr2	61417456	61417456	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttcaactcggttggagaaatCagactgtaggttctgatact	10	7	3	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:61417456C>G	uc002sbe.2	-	78	9845	c.9823G>C	c.(9823-9825)GAT>CAT	p.D3275H	USP34_uc002sbd.2_Missense_Mutation_p.D77H	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	3275					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TTGGAGAAATCAGACTGTAGG	0.403													9	124	---	---	---	---	PASS	G	61417456	G	G	61417456	3	3	117	1	0	0	0	0	1	0	0	0	17062	826	29	2	829	2	USP34	2	61417456	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	6935233	61417456	181781917	46	42512										
USP34	9736	broad.mit.edu	37	chr2	61524017	61524017	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtagctcccagacccgcctaGacagattttctgcatgaaga	9	12	1	5			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:61524017G>C	uc002sbe.2	-	30	4194	c.4172C>G	c.(4171-4173)TCT>TGT	p.S1391C		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	1391					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			GACCCGCCTAGACAGATTTTC	0.378													27	308	---	---	---	---	PASS	C	61524017	C	C	61524017	3	2	117	1	0	0	0	0	1	0	0	0	17062	942	33	2	6672	2	USP34	2	61524017	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	106561	61524017	181675356	47	42513										
SLC1A4	6509	broad.mit.edu	37	chr2	65243695	65243695	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctatattgggccatgttattCatggaggaattgttctgcca	10	7	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:65243695C>A	uc010yqa.1	+	5	1244	c.922C>A	c.(922-924)CAT>AAT	p.H308N	SLC1A4_uc010ypy.1_Missense_Mutation_p.H88N|SLC1A4_uc010ypz.1_Intron|SLC1A4_uc010fcv.2_Missense_Mutation_p.H308N|SLC1A4_uc002sdh.2_Missense_Mutation_p.H88N	NM_003038	NP_003029	P43007	SATT_HUMAN	solute carrier family 1, member 4 isoform 1	308	Helical; (Potential).				cellular nitrogen compound metabolic process|cognition|synaptic transmission, glutamatergic	intermediate filament|melanosome	chloride channel activity|L-alanine transmembrane transporter activity|L-cystine transmembrane transporter activity|L-hydroxyproline transmembrane transporter activity|L-proline transmembrane transporter activity|L-serine transmembrane transporter activity|L-threonine transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(1)	1					L-Alanine(DB00160)	CCATGTTATTCATGGAGGAAT	0.453													24	362	---	---	---	---	PASS	A	65243695	A	A	65243695	3	1	117	1	0	0	0	0	1	0	0	0	14434	826	29	2	940	2	SLC1A4	2	65243695	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	3719678	65243695	177955678	48	42514										
TIA1	7072	broad.mit.edu	37	chr2	70456422	70456422	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tatctttcttttgactgctaGgggttgttgcccaattcact	8	9	3	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:70456422G>C	uc002sgj.3	-	4	468	c.251C>G	c.(250-252)CCT>CGT	p.P84R	TIA1_uc002sgk.3_Missense_Mutation_p.P84R|TIA1_uc002sgl.3_RNA|TIA1_uc002sgm.3_Missense_Mutation_p.P84R|TIA1_uc010yqt.1_Missense_Mutation_p.P84R	NM_022173	NP_071505	P31483	TIA1_HUMAN	TIA1 cytotoxic granule-associated RNA binding	84					apoptosis|induction of apoptosis|regulation of nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|poly(A) RNA binding|protein binding				0						TTGACTGCTAGGGGTTGTTGC	0.284													7	124	---	---	---	---	PASS	C	70456422	C	C	70456422	3	2	117	1	0	0	0	0	1	0	0	0	15884	1000	35	4	949	4	TIA1	2	70456422	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	5212727	70456422	172742951	49	42515										
CTNNA2	1496	broad.mit.edu	37	chr2	80646714	80646714	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gttttccgtgagcatgccaaCaaactggtagaggtaagtgt	12	7	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:80646714C>G	uc010ysh.1	+	8	1283	c.1278C>G	c.(1276-1278)AAC>AAG	p.N426K	CTNNA2_uc010yse.1_Missense_Mutation_p.N426K|CTNNA2_uc010ysf.1_Missense_Mutation_p.N426K|CTNNA2_uc010ysg.1_Missense_Mutation_p.N426K|CTNNA2_uc010ysi.1_Missense_Mutation_p.N58K	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	426					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						AGCATGCCAACAAACTGGTAG	0.433													25	45	---	---	---	---	PASS	G	80646714	G	G	80646714	3	3	117	1	0	0	0	0	1	0	0	0	4013	477	17	4	1100	4	CTNNA2	2	80646714	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	10190292	80646714	162552659	50	42516										
SEPT10	151011	broad.mit.edu	37	chr2	110310749	110310749	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tttcttcttccttcctctgaCgttcaccatggaactcatgt	5	13	5	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:110310749C>T	uc002tew.2	-	9	1455	c.1076G>A	c.(1075-1077)CGT>CAT	p.R359H	SEPT10_uc010ywu.1_Missense_Mutation_p.R192H|SEPT10_uc002tex.2_Missense_Mutation_p.R336H|SEPT10_uc002tey.2_Missense_Mutation_p.R359H|SEPT10_uc010ywv.1_Missense_Mutation_p.R225H|SEPT10_uc002tev.1_Missense_Mutation_p.R166H|SEPT10_uc010fjo.2_Intron	NM_144710	NP_653311	Q9P0V9	SEP10_HUMAN	septin 10 isoform 1	359					cell cycle|cell division	septin complex	GTP binding				0						CTTCCTCTGACGTTCACCATG	0.373													23	93	---	---	---	---	PASS	T	110310749	T	T	110310749	3	4	117	1	0	0	0	0	1	0	0	0	14060	536	19	1	300	1	SEPT10	2	110310749	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	29664035	110310749	132888624	51	42517										
PAX8	7849	broad.mit.edu	37	chr2	113993011	113993011	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtgaactgcccgtacacggaGgcagcatggggaaaggcatt	15	9	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:113993011G>C	uc010yxt.1	-	9	1213	c.1047C>G	c.(1045-1047)GCC>GCG	p.A349A	PAX8_uc010yxu.1_Missense_Mutation_p.P323R|PAX8_uc010yxv.1_Intron|PAX8_uc002tjm.2_Intron|PAX8_uc002tjn.2_Intron|uc002tjp.2_5'Flank|LOC654433_uc002tjq.3_5'Flank|LOC654433_uc010fks.2_5'Flank|LOC654433_uc010fkt.2_5'Flank|LOC654433_uc002tjr.3_5'Flank	NM_003466	NP_003457	Q06710	PAX8_HUMAN	paired box 8 isoform PAX8A	349					branching involved in ureteric bud morphogenesis|cellular response to gonadotropin stimulus|central nervous system development|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|metanephric collecting duct development|metanephric comma-shaped body morphogenesis|metanephric distal convoluted tubule development|metanephric nephron tubule formation|metanephric S-shaped body morphogenesis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|otic vesicle development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric field specification|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of thyroid-stimulating hormone secretion|thyroid gland development|transcription, DNA-dependent	nucleoplasm	protein binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid-stimulating hormone receptor activity			ovary(1)|lung(1)	2						CGTACACGGAGGCAGCATGGG	0.642			T	PPARG	follicular thyroid		Thyroid dysgenesis 						4	8	---	---	---	---	PASS	C	113993011	C	C	113993011	2	2	117	1	0	0	0	0	0	0	0	1	11485	1000	35	4		4	PAX8	2	113993011	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	3682262	113993011	129206362	52	42518										
SMPD4	55627	broad.mit.edu	37	chr2	130912698	130912698	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tcatctcagccaggttgggcTgggcaaagactttggccact	12	11	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:130912698T>A	uc002tqq.1	-	15	2061	c.1541A>T	c.(1540-1542)CAG>CTG	p.Q514L	SMPD4_uc002tqo.1_5'UTR|SMPD4_uc002tqp.1_Missense_Mutation_p.Q253L|SMPD4_uc010yzy.1_Missense_Mutation_p.Q263L|SMPD4_uc010yzz.1_Missense_Mutation_p.Q178L|SMPD4_uc002tqr.1_Missense_Mutation_p.Q485L|SMPD4_uc002tqs.1_Missense_Mutation_p.Q382L|SMPD4_uc002tqt.1_Missense_Mutation_p.Q363L|SMPD4_uc010zaa.1_Missense_Mutation_p.Q372L|SMPD4_uc010zab.1_Missense_Mutation_p.Q412L|SMPD4_uc010zac.1_Missense_Mutation_p.Q255L|SMPD4_uc010zad.1_Missense_Mutation_p.Q150L	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	475					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	CAGGTTGGGCTGGGCAAAGAC	0.607													12	43	---	---	---	---	PASS	A	130912698	A	A	130912698	3	1	117	1	0	0	0	0	1	0	0	0	14807	1580	55	5	1083	5	SMPD4	2	130912698	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	16919687	130912698	112286675	53	42519										
YSK4	80122	broad.mit.edu	37	chr2	135757526	135757526	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cttcttttcttttaagtcttCttggctcatttcttggggag	8	8	6	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:135757526C>T	uc002tue.1	-	4	326	c.295G>A	c.(295-297)GAA>AAA	p.E99K	YSK4_uc010fne.1_Missense_Mutation_p.E71K|YSK4_uc002tuf.1_Missense_Mutation_p.E99K|YSK4_uc010fnc.1_Missense_Mutation_p.E99K|YSK4_uc010fnd.1_Intron|YSK4_uc010zbg.1_Missense_Mutation_p.E99K|YSK4_uc002tui.3_Missense_Mutation_p.E116K	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	99							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TTTAAGTCTTCTTGGCTCATT	0.348													22	67	---	---	---	---	PASS	T	135757526	T	T	135757526	3	4	117	1	0	0	0	0	1	0	0	0	17492	922	32	2	3719	2	YSK4	2	135757526	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	4844828	135757526	107441847	54	42520										
LRP1B	53353	broad.mit.edu	37	chr2	141274476	141274476	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	accacagtggaattcatcacGtccatcctcacaatctttct	4	14	5	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:141274476G>T	uc002tvj.1	-	50	9103	c.8131C>A	c.(8131-8133)CGT>AGT	p.R2711S		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2711	Extracellular (Potential).|LDL-receptor class A 15.				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)		AATTCATCACGTCCATCCTCA	0.328										TSP Lung(27;0.18)			12	56	---	---	---	---	PASS	T	141274476	T	T	141274476	3	4	117	1	0	0	0	0	1	0	0	0	8955	1145	40	1	5836	1	LRP1B	2	141274476	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	5516950	141274476	101924897	55	42521										
NEB	4703	broad.mit.edu	37	chr2	152497110	152497110	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gcatggaccacatcatcttgGggtcatcacgtatagctcgg	11	11	4	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:152497110G>C	uc010fnx.2	-	61	8635	c.8444C>G	c.(8443-8445)CCC>CGC	p.P2815R	NEB_uc002txu.2_5'Flank	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2815	Nebulin 76.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CATCATCTTGGGGTCATCACG	0.488													54	247	---	---	---	---	PASS	C	152497110	C	C	152497110	3	2	117	1	0	0	0	0	1	0	0	0	10302	1232	43	4	17730	4	NEB	2	152497110	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	11222634	152497110	90702263	56	42522										
CCDC148	130940	broad.mit.edu	37	chr2	159033122	159033122	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gcccattctagcttttgatgCcattgtatctgacatcattc	6	11	3	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:159033122C>A	uc002tzq.2	-	13	1803	c.1540G>T	c.(1540-1542)GCA>TCA	p.A514S	CCDC148_uc002tzr.2_Missense_Mutation_p.A362S|CCDC148_uc010foh.2_Missense_Mutation_p.A227S	NM_138803	NP_620158	Q8NFR7	CC148_HUMAN	coiled-coil domain containing 148	514										ovary(2)	2						GCTTTTGATGCCATTGTATCT	0.343													11	31	---	---	---	---	PASS	A	159033122	A	A	159033122	3	1	117	1	0	0	0	0	1	0	0	0	2782	739	26	3	243	3	CCDC148	2	159033122	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	6536012	159033122	84166251	57	42523										
TTN	7273	broad.mit.edu	37	chr2	179593309	179593309	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tactgaccgctgtcctgcttCattactgactgaattctaaa	6	11	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:179593309C>A	uc010zfg.1	-	63	15836	c.15612G>T	c.(15610-15612)ATG>ATT	p.M5204I	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.M1865I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6131							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)			TGTCCTGCTTCATTACTGACT	0.408													18	19	---	---	---	---	PASS	A	179593309	A	A	179593309	3	1	117	1	0	0	0	0	1	0	0	0	16732	826	29	2	85373	2	TTN	2	179593309	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	20560187	179593309	63606064	58	42524										
SLC39A10	57181	broad.mit.edu	37	chr2	196548515	196548515	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	acatacctttgccctgcattGttatatcaaatcgacagcag	6	11	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:196548515G>T	uc002utg.3	+	3	1315	c.1101G>T	c.(1099-1101)TTG>TTT	p.L367F	SLC39A10_uc002uth.3_Missense_Mutation_p.L367F|SLC39A10_uc010zgp.1_5'UTR	NM_001127257	NP_001120729	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter),	367					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.221)			GCCCTGCATTGTTATATCAAA	0.363													47	72	---	---	---	---	PASS	T	196548515	T	T	196548515	3	4	117	1	0	0	0	0	1	0	0	0	14613	1368	48	3	1107	3	SLC39A10	2	196548515	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	16955206	196548515	46650858	59	42525										
DNAH7	56171	broad.mit.edu	37	chr2	196722277	196722277	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgaagtgactgcagaaacctCatgtcaccaagaagtctctt	8	10	3	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:196722277C>T	uc002utj.3	-	44	8339	c.8238G>A	c.(8236-8238)ATG>ATA	p.M2746I		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2746	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GCAGAAACCTCATGTCACCAA	0.378													35	60	---	---	---	---	PASS	T	196722277	T	T	196722277	3	4	117	1	0	0	0	0	1	0	0	0	4606	826	29	2	3924	2	DNAH7	2	196722277	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	173762	196722277	46477096	60	42526										
NRP2	8828	broad.mit.edu	37	chr2	206587416	206587416	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tacgattggctggacatctgGgatggcattccacatggtga	13	8	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:206587416G>T	uc002vaw.2	+	4	1439	c.648G>T	c.(646-648)TGG>TGT	p.W216C	NRP2_uc002vat.2_Missense_Mutation_p.W216C|NRP2_uc002vau.2_Missense_Mutation_p.W216C|NRP2_uc002vav.2_Missense_Mutation_p.W216C|NRP2_uc002vax.2_Missense_Mutation_p.W216C|NRP2_uc002vay.2_Missense_Mutation_p.W216C|NRP2_uc010fud.2_Missense_Mutation_p.W216C	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	216	Extracellular (Potential).|CUB 2.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						TGGACATCTGGGATGGCATTC	0.478													14	23	---	---	---	---	PASS	T	206587416	T	T	206587416	3	4	117	1	0	0	0	0	1	0	0	0	10661	1241	43	3	662	3	NRP2	2	206587416	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	9865139	206587416	36611957	61	42527										
INPP5D	3635	broad.mit.edu	37	chr2	234091109	234091109	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gccctgtctttgccacatttGaggcaggagtcacttcccag	10	13	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr2:234091109G>C	uc010zmo.1	+	18	2278	c.2125G>C	c.(2125-2127)GAG>CAG	p.E709Q	INPP5D_uc010zmp.1_Missense_Mutation_p.E708Q	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	709					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		TGCCACATTTGAGGCAGGAGT	0.512													45	73	---	---	---	---	PASS	C	234091109	C	C	234091109	3	2	117	1	0	0	0	0	1	0	0	0	7756	1291	45	2	1707	2	INPP5D	2	234091109	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	27503693	234091109	9108264	62	42528										
GRM7	2917	broad.mit.edu	37	chr3	7348196	7348196	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tttccacaggcagatccttgCagcagccaaaagagctgacc	9	13	0	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:7348196C>G	uc003bqm.2	+	4	1164	c.890C>G	c.(889-891)GCA>GGA	p.A297G	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.A297G|GRM7_uc003bql.2_Missense_Mutation_p.A297G|GRM7_uc003bqn.1_5'UTR	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	297	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	CAGATCCTTGCAGCAGCCAAA	0.438													39	80	---	---	---	---	PASS	G	7348196	G	G	7348196	3	3	117	1	0	0	0	0	1	0	0	0	6802	710	25	4	904	4	GRM7	3	7348196	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08		7348196	190674234	63	42529										
TTLL3	26140	broad.mit.edu	37	chr3	9854643	9854643	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gcagcagaagaagatctttaCaatccaaggctgctacccgg	10	11	1	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:9854643C>T	uc003btg.2	+	3	281	c.65C>T	c.(64-66)ACA>ATA	p.T22I	ARPC4_uc003btc.1_Intron|TTLL3_uc003btd.3_Missense_Mutation_p.T22I|TTLL3_uc003btf.3_5'UTR|TTLL3_uc010hco.1_5'Flank|TTLL3_uc003bth.3_5'Flank	NM_001025930	NP_001021100	Q9Y4R7	TTLL3_HUMAN	tubulin tyrosine ligase-like family, member 3	22					axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)					AAGATCTTTACAATCCAAGGC	0.428													31	48	---	---	---	---	PASS	T	9854643	T	T	9854643	3	4	117	1	0	0	0	0	1	0	0	0	16725	478	17	3	71	3	TTLL3	3	9854643	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	2506447	9854643	188167787	64	42530										
KCNH8	131096	broad.mit.edu	37	chr3	19574939	19574939	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gggtaaagacatgagaaatgTgatccagcttctggaaaacg	12	6	1	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:19574939T>A	uc003cbk.1	+	16	2867	c.2672T>A	c.(2671-2673)GTG>GAG	p.V891E	KCNH8_uc010hex.1_Missense_Mutation_p.V352E	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	891	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						ATGAGAAATGTGATCCAGCTT	0.458													40	78	---	---	---	---	PASS	A	19574939	A	A	19574939	3	1	117	1	0	0	0	0	1	0	0	0	8038	1696	59	5	2734	5	KCNH8	3	19574939	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	9720296	19574939	178447491	65	42531										
KCNH8	131096	broad.mit.edu	37	chr3	19574965	19574965	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agcttctggaaaacgttctgTcacctcagcagccatcacgg	9	13	5	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:19574965T>A	uc003cbk.1	+	16	2893	c.2698T>A	c.(2698-2700)TCA>ACA	p.S900T	KCNH8_uc010hex.1_Missense_Mutation_p.S361T	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	900	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						AAACGTTCTGTCACCTCAGCA	0.493													40	73	---	---	---	---	PASS	A	19574965	A	A	19574965	3	1	117	1	0	0	0	0	1	0	0	0	8038	1667	58	5	2760	5	KCNH8	3	19574965	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	26	19574965	178447465	66	42532										
SCN11A	11280	broad.mit.edu	37	chr3	38888748	38888748	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agtggctgtattgaagttctCtaaaatcacagcaatgtaca	8	7	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:38888748C>G	uc011ays.1	-	26	5012	c.4813G>C	c.(4813-4815)GAG>CAG	p.E1605Q		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1605	IV.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	TTGAAGTTCTCTAAAATCACA	0.408													26	58	---	---	---	---	PASS	G	38888748	G	G	38888748	3	3	117	1	0	0	0	0	1	0	0	0	13913	922	32	2	566	2	SCN11A	3	38888748	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	19313783	38888748	159133682	67	42533										
SCN11A	11280	broad.mit.edu	37	chr3	38904708	38904708	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gaggccgtggaatgggttttTgaggttttttggatcctaat	14	4	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:38904708T>G	uc011ays.1	-	24	4233	c.4034A>C	c.(4033-4035)CAA>CCA	p.Q1345P	SCN11A_uc003cis.1_Missense_Mutation_p.Q10P	NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1345					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	AATGGGTTTTTGAGGTTTTTT	0.368													13	30	---	---	---	---	PASS	G	38904708	G	G	38904708	3	3	117	1	0	0	0	0	1	0	0	0	13913	1812	63	5	1353	5	SCN11A	3	38904708	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	15960	38904708	159117722	68	42534										
MYRIP	25924	broad.mit.edu	37	chr3	40192641	40192641	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aagaacctgtacaggaagcaCcggctggagagtggcgcgtg	16	9	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:40192641C>A	uc003cka.2	+	4	570	c.435C>A	c.(433-435)CAC>CAA	p.H145Q	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Missense_Mutation_p.H145Q|MYRIP_uc010hhw.2_Intron|MYRIP_uc010hhx.1_Missense_Mutation_p.H145Q|MYRIP_uc011ayz.1_5'UTR	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	145	Myosin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		ACAGGAAGCACCGGCTGGAGA	0.557													8	24	---	---	---	---	PASS	A	40192641	A	A	40192641	3	1	117	1	0	0	0	0	1	0	0	0	10100	506	18	3	445	3	MYRIP	3	40192641	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1287933	40192641	157829789	69	42535										
CCDC72	51372	broad.mit.edu	37	chr3	48481715	48481715	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gcggcaggcgccatgtccggCcgcgaaggtaagtgttccgg	17	12	0	0	rs1058384		TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:48481715C>T	uc003cte.1	+	1	30	c.9C>T	c.(7-9)GGC>GGT	p.G3G	CCDC51_uc003csz.2_5'Flank|CCDC51_uc003cta.2_5'Flank|CCDC51_uc003ctb.2_5'Flank|CCDC51_uc003ctc.2_5'Flank|CCDC51_uc003ctd.2_5'Flank	NM_015933	NP_057017	Q9Y2S6	CCD72_HUMAN	coiled-coil domain containing 72	3											0				BRCA - Breast invasive adenocarcinoma(193;0.000286)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		CCATGTCCGGCCGCGAAGGTA	0.716													20	55	---	---	---	---	PASS	T	48481715	T	T	48481715	2	4	117	1	0	0	0	0	0	0	0	1	2845	726	26	3		3	CCDC72	3	48481715	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	8289074	48481715	149540715	70	42536										
CACNA1D	776	broad.mit.edu	37	chr3	53844043	53844043	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctagattcaagtaaagcccaGaagtactcaccgagtcactc	7	12	3	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:53844043G>A	uc003dgv.3	+	47	6073	c.5910G>A	c.(5908-5910)CAG>CAA	p.Q1970Q	CACNA1D_uc003dgu.3_Silent_p.Q1990Q|CACNA1D_uc003dgy.3_Silent_p.Q1946Q|CACNA1D_uc003dgw.3_Silent_p.Q1637Q|CACNA1D_uc011bes.1_RNA	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1970	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	GTAAAGCCCAGAAGTACTCAC	0.602													31	59	---	---	---	---	PASS	A	53844043	A	A	53844043	2	1	117	1	0	0	0	0	0	0	0	1	2541	933	33	2		2	CACNA1D	3	53844043	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	5362328	53844043	144178387	71	42537										
ACOX2	8309	broad.mit.edu	37	chr3	58502934	58502934	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgaagtctctgccactcaccGgatcaggcggagcaggtcca	12	13	3	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:58502934G>A	uc003dkl.2	-	13	2024	c.1849C>T	c.(1849-1851)CGG>TGG	p.R617W		NM_003500	NP_003491	Q99424	ACOX2_HUMAN	acyl-Coenzyme A oxidase 2	617					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3alpha,7alpha,12alpha-trihydroxy-5beta-cholestanoyl-CoA 24-hydroxylase activity|acyl-CoA dehydrogenase activity|pristanoyl-CoA oxidase activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000194)|Kidney(10;0.00255)|KIRC - Kidney renal clear cell carcinoma(10;0.00268)|OV - Ovarian serous cystadenocarcinoma(275;0.156)		GCCACTCACCGGATCAGGCGG	0.512													21	47	---	---	---	---	PASS	A	58502934	A	A	58502934	3	1	117	1	0	0	0	0	1	0	0	0	159	1130	39	1	208	1	ACOX2	3	58502934	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	4658891	58502934	139519496	72	42538										
FRMD4B	23150	broad.mit.edu	37	chr3	69230202	69230202	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aggcccgctggtaccagccaCgcaagtgctcggcaactaag	12	14	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:69230202C>A	uc003dnv.2	-	21	2989	c.2699G>T	c.(2698-2700)CGT>CTT	p.R900L	FRMD4B_uc003dnw.2_RNA|FRMD4B_uc003dnu.2_Missense_Mutation_p.R552L|FRMD4B_uc011bga.1_Missense_Mutation_p.R744L	NM_015123	NP_055938	Q9Y2L6	FRM4B_HUMAN	FERM domain containing 4B	900						cytoplasm|cytoskeleton	binding			ovary(3)|central_nervous_system(1)	4		Lung NSC(201;0.0138)|Prostate(884;0.11)		BRCA - Breast invasive adenocarcinoma(55;0.000201)|Epithelial(33;0.00141)|LUSC - Lung squamous cell carcinoma(21;0.00999)|Lung(16;0.0182)		GTACCAGCCACGCAAGTGCTC	0.572													9	33	---	---	---	---	PASS	A	69230202	A	A	69230202	3	1	117	1	0	0	0	0	1	0	0	0	6052	536	19	1	417	1	FRMD4B	3	69230202	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	10727268	69230202	128792228	73	42539										
WDR5B	54554	broad.mit.edu	37	chr3	122134320	122134320	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gcacttccttgctctgattgGccgatgaggagagggccaac	13	11	1	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:122134320G>A	uc003efa.1	-	1	563	c.56C>T	c.(55-57)GCC>GTC	p.A19V		NM_019069	NP_061942	Q86VZ2	WDR5B_HUMAN	WD repeat domain 5B	19										ovary(3)	3				GBM - Glioblastoma multiforme(114;0.0704)		GCTCTGATTGGCCGATGAGGA	0.498													35	95	---	---	---	---	PASS	A	122134320	A	A	122134320	3	1	117	1	0	0	0	0	1	0	0	0	17306	1203	42	3	940	3	WDR5B	3	122134320	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	52904118	122134320	75888110	74	42540										
ZBTB38	253461	broad.mit.edu	37	chr3	141161660	141161660	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtattactgaaaagggagtgGttaaagaagaaaaaaatgaa	11	1	0	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:141161660G>A	uc003etw.2	+	8	1412	c.430G>A	c.(430-432)GTT>ATT	p.V144I	ZBTB38_uc010hun.2_Missense_Mutation_p.V141I|ZBTB38_uc010huo.2_Missense_Mutation_p.V144I|ZBTB38_uc003ety.2_Missense_Mutation_p.V144I|ZBTB38_uc010hup.2_Missense_Mutation_p.V145I	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	144					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						AAAGGGAGTGGTTAAAGAAGA	0.388													12	54	---	---	---	---	PASS	A	141161660	A	A	141161660	3	1	117	1	0	0	0	0	1	0	0	0	17536	1261	44	3	432	3	ZBTB38	3	141161660	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	19027340	141161660	56860770	75	42541										
GRK7	131890	broad.mit.edu	37	chr3	141526658	141526658	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aggatctgaagcaaagaactCtgcaagacgaggtcaaattc	10	8	3	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:141526658C>G	uc011bnd.1	+	3	1306	c.1222C>G	c.(1222-1224)CTG>GTG	p.L408V		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	408	Protein kinase.				visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						GCAAAGAACTCTGCAAGACGA	0.428													3	49	---	---	---	---	PASS	G	141526658	G	G	141526658	3	3	117	1	0	0	0	0	1	0	0	0	6794	912	32	2	1232	2	GRK7	3	141526658	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	364998	141526658	56495772	76	42542										
P2RY14	9934	broad.mit.edu	37	chr3	150931162	150931162	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtctaggtcattctgagcttTtaatggaatgtgcaatttct	9	6	4	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:150931162T>C	uc003eyr.1	-	3	1421	c.943A>G	c.(943-945)AAA>GAA	p.K315E	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY14_uc003eys.1_Missense_Mutation_p.K315E	NM_001081455	NP_001074924	Q15391	P2Y14_HUMAN	P2Y14 receptor	315	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled|UDP-activated nucleotide receptor activity			large_intestine(2)|ovary(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TTCTGAGCTTTTAATGGAATG	0.373													17	125	---	---	---	---	PASS	C	150931162	C	C	150931162	3	2	117	1	0	0	0	0	1	0	0	0	11351	1850	64	5	77	5	P2RY14	3	150931162	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	9404504	150931162	47091268	77	42543										
KNG1	3827	broad.mit.edu	37	chr3	186440248	186440248	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cactggagaatgcacggcaaCcgtggggaagaggagcagta	16	8	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:186440248C>T	uc011bsa.1	+	3	541	c.329C>T	c.(328-330)ACC>ATC	p.T110I	KNG1_uc003fqr.2_Missense_Mutation_p.T110I	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	110	Cystatin 1.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	TGCACGGCAACCGTGGGGAAG	0.478													12	32	---	---	---	---	PASS	T	186440248	T	T	186440248	3	4	117	1	0	0	0	0	1	0	0	0	8427	507	18	3	339	3	KNG1	3	186440248	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	35509086	186440248	11582182	78	42544										
RTP4	64108	broad.mit.edu	37	chr3	187086299	187086299	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aagaggcaaaaccccgggccAcatggacgctgaagttggat	13	10	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:187086299A>T	uc003frm.2	+	1	132	c.70A>T	c.(70-72)ACA>TCA	p.T24S		NM_022147	NP_071430	Q96DX8	RTP4_HUMAN	28kD interferon responsive protein	24	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste|protein targeting to membrane	cytoplasm|integral to membrane	protein binding				0	all_cancers(143;4.66e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		ACCCCGGGCCACATGGACGCT	0.493													21	112	---	---	---	---	PASS	T	187086299	T	T	187086299	3	4	117	1	0	0	0	0	1	0	0	0	13736	159	6	5	72	5	RTP4	3	187086299	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	646051	187086299	10936131	79	42545										
LRRC33	375387	broad.mit.edu	37	chr3	196381479	196381479	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtgggctggaggaacagaagCggaacagccacagcagcctc	15	11	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:196381479C>T	uc003fwv.2	+	2	173	c.69C>T	c.(67-69)AGC>AGT	p.S23S		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	23	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		GGAACAGAAGCGGAACAGCCA	0.577													10	105	---	---	---	---	PASS	T	196381479	T	T	196381479	2	4	117	1	0	0	0	0	0	0	0	1	8988	767	27	1		1	LRRC33	3	196381479	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	9295180	196381479	1640951	80	42546										
KIAA0226	9711	broad.mit.edu	37	chr3	197410238	197410238	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tccgaggcggctggaagctgCatcccctcaaactgcttcag	11	14	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr3:197410238C>A	uc003fyc.2	-	13	2103	c.1920G>T	c.(1918-1920)ATG>ATT	p.M640I	KIAA0226_uc003fyd.3_Missense_Mutation_p.M595I|KIAA0226_uc003fye.1_Missense_Mutation_p.M372I	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	640					autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		CTGGAAGCTGCATCCCCTCAA	0.617													17	55	---	---	---	---	PASS	A	197410238	A	A	197410238	3	1	117	1	0	0	0	0	1	0	0	0	8162	710	25	3	1030	3	KIAA0226	3	197410238	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1028759	197410238	612192	81	42547										
GC	2638	broad.mit.edu	37	chr4	72634119	72634119	+	Missense_Mutation	SNP	T	G	G													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gacctgttcaaacgtgccacTgggaaattttctactgtaca							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr4:72634119T>G	uc003hge.2	-	3	313	c.160A>C	c.(160-162)AGT>CGT	p.S54R	GC_uc003hgd.2_5'UTR|GC_uc010iie.2_Missense_Mutation_p.S54R|GC_uc010iif.2_Missense_Mutation_p.S73R	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	54	Albumin 1.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	AACGTGCCACTGGGAAATTTT	0.413													4	34	---	---	---	---	PASS	G	72634119	G	G	72634119	3	3	117	1	0	0	0	0	1	0	0	0	6282	1580	55	5	1304	5	GC	4	72634119	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08		72634119	118520157	82	42548	797	2								
GC	2638	broad.mit.edu	37	chr4	72634120	72634120	+	Silent	SNP	G	T	T													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	acctgttcaaacgtgccactGggaaattttctactgtacag							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr4:72634120G>T	uc003hge.2	-	3	312	c.159C>A	c.(157-159)CCC>CCA	p.P53P	GC_uc003hgd.2_5'UTR|GC_uc010iie.2_Silent_p.P53P|GC_uc010iif.2_Silent_p.P72P	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	53	Albumin 1.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	ACGTGCCACTGGGAAATTTTC	0.408													4	35	---	---	---	---	PASS	T	72634120	T	T	72634120	2	4	117	1	0	0	0	0	0	0	0	1	6282	1335	47	3		3	GC	4	72634120	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	1	72634120	118520156	83	42549	797	2								
NPFFR2	10886	broad.mit.edu	37	chr4	73013088	73013088	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aagaagcagaagatcattaaGatgctcctgattgtggccct	10	8	1	5			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr4:73013088G>C	uc003hgg.2	+	4	1226	c.1128G>C	c.(1126-1128)AAG>AAC	p.K376N	NPFFR2_uc010iig.1_Missense_Mutation_p.K158N|NPFFR2_uc003hgi.2_Missense_Mutation_p.K277N|NPFFR2_uc003hgh.2_Missense_Mutation_p.K274N|NPFFR2_uc003hgj.2_RNA	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	376	Cytoplasmic (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			AGATCATTAAGATGCTCCTGA	0.502													23	64	---	---	---	---	PASS	C	73013088	C	C	73013088	3	2	117	1	0	0	0	0	1	0	0	0	10578	933	33	2	1148	2	NPFFR2	4	73013088	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	378968	73013088	118141188	84	42550										
FAM13A	10144	broad.mit.edu	37	chr4	89859339	89859339	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aattttctagaattttagccAttatcttgttgcacaggtcc	6	8	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr4:89859339A>G	uc003hse.1	-	5	867	c.659T>C	c.(658-660)ATG>ACG	p.M220T	FAM13A_uc003hsf.1_Missense_Mutation_p.M11T|FAM13A_uc003hsh.1_Missense_Mutation_p.M34T	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	220	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						AATTTTAGCCATTATCTTGTT	0.378													23	57	---	---	---	---	PASS	G	89859339	G	G	89859339	3	3	117	1	0	0	0	0	1	0	0	0	5452	217	8	5	2525	5	FAM13A	4	89859339	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	16846251	89859339	101294937	85	42551										
ANK2	287	broad.mit.edu	37	chr4	114278337	114278337	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cctctttgcctcattgtttgGtatctgaaggaaaagaatta	8	7	3	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr4:114278337G>C	uc003ibe.3	+	38	8663	c.8563G>C	c.(8563-8565)GTA>CTA	p.V2855L	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.V157L|ANK2_uc011cgb.1_Missense_Mutation_p.V2870L	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2822					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TCATTGTTTGGTATCTGAAGG	0.388													27	63	---	---	---	---	PASS	C	114278337	C	C	114278337	3	2	117	1	0	0	0	0	1	0	0	0	621	1261	44	4	8778	4	ANK2	4	114278337	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	24418998	114278337	76875939	86	42552										
GRIA2	2891	broad.mit.edu	37	chr4	158224787	158224787	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ataccatcacatcattttgcGgaacactccacgtctccttc	4	15	3	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr4:158224787G>T	uc003ipm.3	+	3	772	c.313G>T	c.(313-315)GGA>TGA	p.G105*	GRIA2_uc011cit.1_Nonsense_Mutation_p.G58*|GRIA2_uc003ipl.3_Nonsense_Mutation_p.G105*|GRIA2_uc003ipk.3_Nonsense_Mutation_p.G58*|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	105	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	ATCATTTTGCGGAACACTCCA	0.438													72	154	---	---	---	---	PASS	T	158224787	T	T	158224787	4	4	117	1	0	0	0	0	0	1	0	0	6768	1117	39	1	323	1	GRIA2	4	158224787	Nonsense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	43946450	158224787	32929489	87	42553										
DDX60L	91351	broad.mit.edu	37	chr4	169348231	169348231	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agtcccataccttcacctcgGcaatgttttttccatgcttt	5	13	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr4:169348231G>C	uc003irq.3	-	14	2141	c.1920C>G	c.(1918-1920)TGC>TGG	p.C640W	DDX60L_uc003irr.1_Missense_Mutation_p.C640W|DDX60L_uc003irs.1_Missense_Mutation_p.C367W	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	640							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		CTTCACCTCGGCAATGTTTTT	0.284													10	13	---	---	---	---	PASS	C	169348231	C	C	169348231	3	2	117	1	0	0	0	0	1	0	0	0	4379	1195	42	4	3300	4	DDX60L	4	169348231	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	11123444	169348231	21806045	88	42554										
NEIL3	55247	broad.mit.edu	37	chr4	178272639	178272639	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gagcactggacctgtgtggtGtgtactttaatcaataagcc	11	8	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr4:178272639G>T	uc003iut.2	+	7	1092	c.975G>T	c.(973-975)GTG>GTT	p.V325V	NEIL3_uc010irs.2_Intron	NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	325	RanBP2-type.				base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		CCTGTGTGGTGTGTACTTTAA	0.428								BER_DNA_glycosylases					52	102	---	---	---	---	PASS	T	178272639	T	T	178272639	2	4	117	1	0	0	0	0	0	0	0	1	10320	1364	48	3		3	NEIL3	4	178272639	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	8924408	178272639	12881637	89	42555										
IL7R	3575	broad.mit.edu	37	chr5	35861032	35861032	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agtgaatggatcgcagcactCactgacctgtgcttttgagg	12	9	1	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:35861032C>T	uc003jjs.2	+	2	250	c.161C>T	c.(160-162)TCA>TTA	p.S54L	IL7R_uc011coo.1_Missense_Mutation_p.S54L|IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	54	Extracellular (Potential).				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			TCGCAGCACTCACTGACCTGT	0.458													35	178	---	---	---	---	PASS	T	35861032	T	T	35861032	3	4	117	1	0	0	0	0	1	0	0	0	7705	838	29	2	167	2	IL7R	5	35861032	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08		35861032	145054228	90	42556										
SLC30A5	64924	broad.mit.edu	37	chr5	68423946	68423946	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	atctgatgtgctagaacaaaGaatagtacagcaggtaatct	9	6	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:68423946G>C	uc003jvh.2	+	15	2315	c.2114G>C	c.(2113-2115)AGA>ACA	p.R705T	SLC30A5_uc003jvj.2_RNA|SLC30A5_uc003jvk.2_Intron	NM_022902	NP_075053	Q8TAD4	ZNT5_HUMAN	solute carrier family 30 (zinc transporter),	705	Cytoplasmic (Potential).				cellular zinc ion homeostasis|cobalt ion transport|regulation of proton transport|response to zinc ion	apical plasma membrane|Golgi apparatus|integral to plasma membrane|membrane fraction|secretory granule membrane	zinc ion binding|zinc ion transmembrane transporter activity			central_nervous_system(1)	1		Lung NSC(167;0.000986)|Prostate(74;0.00809)|Colorectal(97;0.0508)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		CTAGAACAAAGAATAGTACAG	0.353													29	74	---	---	---	---	PASS	C	68423946	C	C	68423946	3	2	117	1	0	0	0	0	1	0	0	0	14558	942	33	2	2260	2	SLC30A5	5	68423946	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	32562914	68423946	112491314	91	42557										
RGMB	285704	broad.mit.edu	37	chr5	98129295	98129295	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	accactggtgatgccaacttTactgccgcagcccacagtgc	9	15	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:98129295T>A	uc003knc.2	+	5	1677	c.1275T>A	c.(1273-1275)TTT>TTA	p.F425L		NM_001012761	NP_001012779	Q6NW40	RGMB_HUMAN	RGM domain family, member B	384					axon guidance|BMP signaling pathway|cell adhesion|positive regulation of transcription, DNA-dependent	anchored to plasma membrane|ER-Golgi intermediate compartment|membrane raft	identical protein binding				0		all_cancers(142;2.76e-08)|all_epithelial(76;2.98e-11)|all_lung(232;0.000485)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0587)		ATGCCAACTTTACTGCCGCAG	0.562													24	27	---	---	---	---	PASS	A	98129295	A	A	98129295	3	1	117	1	0	0	0	0	1	0	0	0	13281	1751	61	5	1289	5	RGMB	5	98129295	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	29705349	98129295	82785965	92	42558										
YTHDC2	64848	broad.mit.edu	37	chr5	112878128	112878128	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aaatggatgcttgcctttctGatatatggctacataaagat	8	6	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:112878128G>T	uc003kqn.2	+	10	1606	c.1423G>T	c.(1423-1425)GAT>TAT	p.D475Y	YTHDC2_uc010jce.1_Missense_Mutation_p.D475Y|YTHDC2_uc010jcf.1_Missense_Mutation_p.D175Y	NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	475							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)		TTGCCTTTCTGATATATGGCT	0.274													74	89	---	---	---	---	PASS	T	112878128	T	T	112878128	3	4	117	1	0	0	0	0	1	0	0	0	17494	1290	45	2	1461	2	YTHDC2	5	112878128	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	14748833	112878128	68037132	93	42559										
SEMA6A	57556	broad.mit.edu	37	chr5	115782854	115782854	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cttgatggtcttatactccaGtgtggcggcctggtcctcca	11	12	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:115782854G>A	uc010jck.2	-	19	3257	c.2548C>T	c.(2548-2550)CTG>TTG	p.L850L	SEMA6A_uc003krx.3_Silent_p.L867L|SEMA6A_uc011cwe.1_Silent_p.L229L|SEMA6A_uc003krv.3_Silent_p.L277L|SEMA6A_uc003krw.3_Silent_p.L327L|SEMA6A_uc010jcj.2_Silent_p.L394L	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	850	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		TTATACTCCAGTGTGGCGGCC	0.592													16	324	---	---	---	---	PASS	A	115782854	A	A	115782854	2	1	117	1	0	0	0	0	0	0	0	1	14039	1020	36	3		3	SEMA6A	5	115782854	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	2904726	115782854	65132406	94	42560										
PRR16	51334	broad.mit.edu	37	chr5	120021833	120021833	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	acacccgtctgctatcctcaCggtcctgagaaagccaaacc	7	16	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:120021833C>T	uc003ksq.2	+	2	507	c.344C>T	c.(343-345)ACG>ATG	p.T115M	PRR16_uc003ksp.2_Missense_Mutation_p.T92M|PRR16_uc003ksr.2_Missense_Mutation_p.T45M	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16	115	Pro-rich.									pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		GCTATCCTCACGGTCCTGAGA	0.522													36	65	---	---	---	---	PASS	T	120021833	T	T	120021833	3	4	117	1	0	0	0	0	1	0	0	0	12589	536	19	1	281	1	PRR16	5	120021833	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	4238979	120021833	60893427	95	42561										
PCDHA7	56141	broad.mit.edu	37	chr5	140216019	140216019	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggcgtcgtcgcgggcatcgtTgggcattgcaggcccagaga	17	11	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:140216019T>C	uc003lhq.2	+	1	2051	c.2051T>C	c.(2050-2052)TTG>TCG	p.L684S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.L684S	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	684	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGGCATCGTTGGGCATTGCA	0.637													42	50	---	---	---	---	PASS	C	140216019	C	C	140216019	3	2	117	1	0	0	0	0	1	0	0	0	11529	1821	63	5	2053	5	PCDHA7	5	140216019	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	20194186	140216019	40699241	96	42562										
PCDHA9	9752	broad.mit.edu	37	chr5	140228176	140228176	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtggggagcggccagctccaCtactccgtcccggaggaagc	15	14	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:140228176C>A	uc003lhu.2	+	1	820	c.96C>A	c.(94-96)CAC>CAA	p.H32Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.H32Q	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	32	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCAGCTCCACTACTCCGTCC	0.627													45	70	---	---	---	---	PASS	A	140228176	A	A	140228176	3	1	117	1	0	0	0	0	1	0	0	0	11531	564	20	3	98	3	PCDHA9	5	140228176	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	12157	140228176	40687084	97	42563										
PCDHB12	56124	broad.mit.edu	37	chr5	140590115	140590115	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cggctttgagcagcgaggcgCtggtgcgcgtgctggtgctg	19	10	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:140590115C>A	uc003liz.2	+	1	1825	c.1636C>A	c.(1636-1638)CTG>ATG	p.L546M	PCDHB12_uc011dak.1_Missense_Mutation_p.L209M	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	546	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGCGAGGCGCTGGTGCGCGT	0.697													25	40	---	---	---	---	PASS	A	140590115	A	A	140590115	3	1	117	1	0	0	0	0	1	0	0	0	11537	796	28	3	1638	3	PCDHB12	5	140590115	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	361939	140590115	40325145	98	42564										
PCDHB13	56123	broad.mit.edu	37	chr5	140595204	140595204	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cacctgcccctcacatccctGgtctccatcaacgcggacaa	6	19	3	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:140595204G>T	uc003lja.1	+	1	1696	c.1509G>T	c.(1507-1509)CTG>CTT	p.L503L		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	503	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCACATCCCTGGTCTCCATCA	0.662													60	93	---	---	---	---	PASS	T	140595204	T	T	140595204	2	4	117	1	0	0	0	0	0	0	0	1	11538	1335	47	3		3	PCDHB13	5	140595204	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	5089	140595204	40320056	99	42565										
HAND1	9421	broad.mit.edu	37	chr5	153857226	153857226	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gatgcactcgcgcaactccgCgaatgcgctgttaatgctct	10	13	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:153857226C>A	uc003lvn.2	-	1	599	c.343G>T	c.(343-345)GCG>TCG	p.A115S		NM_004821	NP_004812	O96004	HAND1_HUMAN	basic helix-loop-helix transcription factor	115	Helix-loop-helix motif.				angiogenesis|cardiac left ventricle formation|cardiac right ventricle formation|cardiac septum morphogenesis|heart looping|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|trophectodermal cell differentiation|ventricular cardiac muscle tissue morphogenesis	cytoplasm|nucleolus|nucleoplasm	bHLH transcription factor binding|DNA binding|protein homodimerization activity|transcription coactivator activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			CGCAACTCCGCGAATGCGCTG	0.642													7	48	---	---	---	---	PASS	A	153857226	A	A	153857226	3	1	117	1	0	0	0	0	1	0	0	0	6949	768	27	1	312	1	HAND1	5	153857226	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	13262022	153857226	27058034	100	42566										
RMND5B	64777	broad.mit.edu	37	chr5	177570966	177570966	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggccgtctcccacaggcagcGcctgctggaactcaacagct	11	16	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:177570966G>A	uc003mim.2	+	7	731	c.551G>A	c.(550-552)CGC>CAC	p.R184H	RMND5B_uc003min.2_Missense_Mutation_p.R184H|RMND5B_uc003mio.2_Missense_Mutation_p.R171H|RMND5B_uc003mip.2_Missense_Mutation_p.R184H|RMND5B_uc011dgf.1_Missense_Mutation_p.R225H|RMND5B_uc003miq.2_Missense_Mutation_p.R124H	NM_022762	NP_073599	Q96G75	RMD5B_HUMAN	required for meiotic nuclear division 5 homolog	184	CTLH.									ovary(1)|skin(1)	2	all_cancers(89;0.00294)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	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)			CACAGGCAGCGCCTGCTGGAA	0.642													5	80	---	---	---	---	PASS	A	177570966	A	A	177570966	3	1	117	1	0	0	0	0	1	0	0	0	13398	1087	38	1	569	1	RMND5B	5	177570966	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	23713740	177570966	3344294	101	42567										
ZNF454	285676	broad.mit.edu	37	chr5	178392396	178392396	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gagagaaaccctataaatgcAatgaatgtggaaaagccttt	9	6	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:178392396A>C	uc003mjo.1	+	5	1262	c.991A>C	c.(991-993)AAT>CAT	p.N331H	ZNF454_uc010jkz.1_Missense_Mutation_p.N331H	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	331	C2H2-type 6.				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)		CTATAAATGCAATGAATGTGG	0.398													17	27	---	---	---	---	PASS	C	178392396	C	C	178392396	3	2	117	1	0	0	0	0	1	0	0	0	17920	130	5	5	1005	5	ZNF454	5	178392396	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	821430	178392396	2522864	102	42568										
BTNL3	10917	broad.mit.edu	37	chr5	180420135	180420135	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tcccagatttacgatgaggaGgccacctgggagctgcgggt	15	10	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr5:180420135G>A	uc003mmr.2	+	2	500	c.372G>A	c.(370-372)GAG>GAA	p.E124E		NM_197975	NP_932079	Q6UXE8	BTNL3_HUMAN	butyrophilin-like 3 precursor	124	Extracellular (Potential).				lipid metabolic process	integral to membrane					0	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.00336)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)|all_lung(500;0.248)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000272)			ACGATGAGGAGGCCACCTGGG	0.483													4	2	---	---	---	---	PASS	A	180420135	A	A	180420135	2	1	117	1	0	0	0	0	0	0	0	1	1566	991	35	3		3	BTNL3	5	180420135	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	2027739	180420135	495125	103	42569										
SERPINB9	5272	broad.mit.edu	37	chr6	2896288	2896288	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttctattgattcaacttactGagaggaactgacaagttttc	7	7	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:2896288G>A	uc003mug.2	-	3	426	c.305C>T	c.(304-306)TCA>TTA	p.S102L	uc003mue.2_Intron	NM_004155	NP_004146	P50453	SPB9_HUMAN	serpin peptidase inhibitor, clade B, member 9	102					anti-apoptosis|cellular response to estrogen stimulus|immune response|mast cell mediated immunity|regulation of proteolysis	cytosol|extracellular space|nucleus	caspase inhibitor activity|protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.108)				TCAACTTACTGAGAGGAACTG	0.418													6	59	---	---	---	---	PASS	A	2896288	A	A	2896288	3	1	117	1	0	0	0	0	1	0	0	0	14108	1304	45	2	845	2	SERPINB9	6	2896288	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08		2896288	168218779	104	42570										
HIST1H4B	8366	broad.mit.edu	37	chr6	26027273	26027273	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtgctccgtgtaggtcacggCgtcccggatcacgttctcca	12	14	3	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:26027273C>A	uc003nfr.2	-	1	208	c.208G>T	c.(208-210)GCC>TCC	p.A70S		NM_003544	NP_003535	P62805	H4_HUMAN	histone cluster 1, H4b	70					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						TAGGTCACGGCGTCCCGGATC	0.577											OREG0017238	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	63	---	---	---	---	PASS	A	26027273	A	A	26027273	3	1	117	1	0	0	0	0	1	0	0	0	7166	768	27	1	107	1	HIST1H4B	6	26027273	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	23130985	26027273	145087794	105	42571										
HIST1H2BF	8343	broad.mit.edu	37	chr6	26200113	26200113	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctgcccggggagctggctaaGcacgccgtgtcagagggcac	16	13	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:26200113G>C	uc003ngx.2	+	1	327	c.327G>C	c.(325-327)AAG>AAC	p.K109N	HIST1H3D_uc003ngv.2_5'Flank|HIST1H2AD_uc003ngw.2_5'Flank	NM_003522	NP_003513	P62807	H2B1C_HUMAN	histone cluster 1, H2bf	109					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0		all_hematologic(11;0.196)				AGCTGGCTAAGCACGCCGTGT	0.587													13	74	---	---	---	---	PASS	C	26200113	C	C	26200113	3	2	117	1	0	0	0	0	1	0	0	0	7145	962	34	4	329	4	HIST1H2BF	6	26200113	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	172840	26200113	144914954	106	42572										
MDC1	9656	broad.mit.edu	37	chr6	30668371	30668371	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cgtagtggaatggagcaatgAgggaagtcctgagggcatgt	17	5	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:30668371A>C	uc003nrg.3	-	15	6581	c.6141T>G	c.(6139-6141)CCT>CCG	p.P2047P	MDC1_uc003nrf.3_Silent_p.P678P	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	2047	Required for nuclear localization (NLS2).|BRCT 2.				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TGGAGCAATGAGGGAAGTCCT	0.542								Other_conserved_DNA_damage_response_genes					7	101	---	---	---	---	PASS	C	30668371	C	C	30668371	2	2	117	1	0	0	0	0	0	0	0	1	9403	291	11	5		5	MDC1	6	30668371	Silent	SNP	A	TCGA-56-6545-01A-11D-1817-08	4468258	30668371	140446696	107	42573										
TNXB	7148	broad.mit.edu	37	chr6	32014025	32014025	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tagagcagaaacttgtatttCttgccaggctccaggtcctc	9	11	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:32014025C>G	uc003nzl.2	-	31	10729	c.10527G>C	c.(10525-10527)AAG>AAC	p.K3509N	TNXB_uc003nzg.1_5'Flank|TNXB_uc003nzh.1_5'UTR	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3556	Fibronectin type-III 27.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						ACTTGTATTTCTTGCCAGGCT	0.632													21	58	---	---	---	---	PASS	G	32014025	G	G	32014025	3	3	117	1	0	0	0	0	1	0	0	0	16343	912	32	2	4242	2	TNXB	6	32014025	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1345654	32014025	139101042	108	42574										
NOTCH4	4855	broad.mit.edu	37	chr6	32188918	32188918	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tggaaggagcccagggtgttAtggcaggaggtgcctttggg	19	6	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:32188918A>T	uc003obb.2	-	4	775	c.636T>A	c.(634-636)CAT>CAA	p.H212Q	NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc003obc.2_Missense_Mutation_p.H212Q	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	212	EGF-like 5; calcium-binding (Potential).|Extracellular (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						CCAGGGTGTTATGGCAGGAGG	0.647													8	50	---	---	---	---	PASS	T	32188918	T	T	32188918	3	4	117	1	0	0	0	0	1	0	0	0	10551	446	16	5	5483	5	NOTCH4	6	32188918	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	174893	32188918	138926149	109	42575										
COL11A2	1302	broad.mit.edu	37	chr6	33147224	33147224	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tcaccaagggtccagggcgcCctgtgtatcccatggggcca	13	14	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:33147224C>A	uc003ocx.1	-	14	1715	c.1487G>T	c.(1486-1488)GGG>GTG	p.G496V	COL11A2_uc010jul.1_5'Flank|COL11A2_uc003ocy.1_Missense_Mutation_p.G410V|COL11A2_uc003ocz.1_Missense_Mutation_p.G389V	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	496	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						TCCAGGGCGCCCTGTGTATCC	0.637													4	8	---	---	---	---	PASS	A	33147224	A	A	33147224	3	1	117	1	0	0	0	0	1	0	0	0	3668	623	22	3	3935	3	COL11A2	6	33147224	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	958306	33147224	137967843	110	42576										
TBCC	6903	broad.mit.edu	37	chr6	42713446	42713446	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cggcgccgctcggccaaggcCgcctgcagccgcgccagcgc	15	20	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:42713446C>A	uc003osl.2	-	1	439	c.366G>T	c.(364-366)GCG>GCT	p.A122A		NM_003192	NP_003183	Q15814	TBCC_HUMAN	beta-tubulin cofactor C	122					'de novo' posttranslational protein folding|post-chaperonin tubulin folding pathway	cytoplasm|microtubule|photoreceptor connecting cilium	chaperone binding|GTPase activity				0	Colorectal(47;0.196)		all cancers(41;0.00122)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.125)			CGGCCAAGGCCGCCTGCAGCC	0.627													6	56	---	---	---	---	PASS	A	42713446	A	A	42713446	2	1	117	1	0	0	0	0	0	0	0	1	15628	639	23	1		1	TBCC	6	42713446	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	9566222	42713446	128401621	111	42577										
ENPP4	22875	broad.mit.edu	37	chr6	46107655	46107655	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	taatgacaaggatcctttttGgtggaatgaggcagtaccta	11	6	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:46107655G>C	uc003oxy.2	+	2	594	c.335G>C	c.(334-336)TGG>TCG	p.W112S		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	112	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						GATCCTTTTTGGTGGAATGAG	0.438													16	109	---	---	---	---	PASS	C	46107655	C	C	46107655	3	2	117	1	0	0	0	0	1	0	0	0	5132	1357	47	4	337	4	ENPP4	6	46107655	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	3394209	46107655	125007412	112	42578										
TFAP2D	83741	broad.mit.edu	37	chr6	50697018	50697018	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtcaccctccttacttccttGgttgaaggtatgacttttca	7	11	2	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:50697018G>T	uc003paf.2	+	5	1388	c.876G>T	c.(874-876)TTG>TTT	p.L292F	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	292	H-S-H (helix-span-helix), dimerization.						DNA binding|sequence-specific DNA binding transcription factor activity	p.L292F(1)		ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					TTACTTCCTTGGTTGAAGGTA	0.423													23	168	---	---	---	---	PASS	T	50697018	T	T	50697018	3	4	117	1	0	0	0	0	1	0	0	0	15787	1339	47	3	894	3	TFAP2D	6	50697018	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	4589363	50697018	120418049	113	42579										
FAM83B	222584	broad.mit.edu	37	chr6	54804947	54804947	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gcatagttatgctggggaacAgccagaaacagtgccatacc	11	10	0	1	rs28592584		TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:54804947A>G	uc003pck.2	+	5	1294	c.1178A>G	c.(1177-1179)CAG>CGG	p.Q393R		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	393										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					GCTGGGGAACAGCCAGAAACA	0.418													11	117	---	---	---	---	PASS	G	54804947	G	G	54804947	3	3	117	1	0	0	0	0	1	0	0	0	5634	188	7	5	1192	5	FAM83B	6	54804947	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	4107929	54804947	116310120	114	42580										
POPDC3	64208	broad.mit.edu	37	chr6	105609428	105609428	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aagacaggcaaagagatcccCaggggctggaaaagggagct	15	8	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:105609428C>T	uc003prb.2	-	2	759	c.357G>A	c.(355-357)CTG>CTA	p.L119L	uc003pqz.2_Intron|POPDC3_uc003pra.2_Intron	NM_022361	NP_071756	Q9HBV1	POPD3_HUMAN	popeye protein 3	119						integral to membrane				skin(3)|ovary(2)	5		all_cancers(87;4.87e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0157)|Colorectal(196;0.202)|Lung NSC(302;0.238)				AAGAGATCCCCAGGGGCTGGA	0.448													20	137	---	---	---	---	PASS	T	105609428	T	T	105609428	2	4	117	1	0	0	0	0	0	0	0	1	12256	581	21	3		3	POPDC3	6	105609428	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	50804481	105609428	65505639	115	42581										
RWDD1	51389	broad.mit.edu	37	chr6	116906012	116906012	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cagacattttaaaattactaGcattacaggtaaggaaataa	6	5	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:116906012G>C	uc003pxd.2	+	3	425	c.262G>C	c.(262-264)GCA>CCA	p.A88P	RWDD1_uc003pxb.2_5'UTR|RWDD1_uc003pxc.2_5'UTR	NM_015952	NP_057036	Q9H446	RWDD1_HUMAN	RWD domain containing 1 isoform a	88	RWD.						protein binding			ovary(2)|central_nervous_system(1)	3		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.0312)|OV - Ovarian serous cystadenocarcinoma(136;0.0689)|Epithelial(106;0.161)		AAAATTACTAGCATTACAGGT	0.284													4	38	---	---	---	---	PASS	C	116906012	C	C	116906012	3	2	117	1	0	0	0	0	1	0	0	0	13754	971	34	4	272	4	RWDD1	6	116906012	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	11296584	116906012	54209055	116	42582										
PNLDC1	154197	broad.mit.edu	37	chr6	160240058	160240058	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aggtggcctggggtcagcgaGcagcaagtctaccataagtt	14	9	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr6:160240058G>C	uc003qsx.1	+	17	1476	c.1305G>C	c.(1303-1305)GAG>GAC	p.E435D	PNLDC1_uc003qsy.1_Missense_Mutation_p.E446D	NM_173516	NP_775787	Q8NA58	PNDC1_HUMAN	poly(A)-specific ribonuclease (PARN)-like domain	435	Cytoplasmic (Potential).					integral to membrane|nucleus	nucleic acid binding				0		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;1.55e-18)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		GGGTCAGCGAGCAGCAAGTCT	0.468													17	94	---	---	---	---	PASS	C	160240058	C	C	160240058	3	2	117	1	0	0	0	0	1	0	0	0	12148	962	34	4	1367	4	PNLDC1	6	160240058	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	43334046	160240058	10875009	117	42583										
THSD7A	221981	broad.mit.edu	37	chr7	11441494	11441494	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tagttcttgtataatcaccgGtctggatctgacctgtattc	8	9	4	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:11441494G>T	uc003ssf.3	-	22	4591	c.4339C>A	c.(4339-4341)CCG>ACG	p.P1447T		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1447	Extracellular (Potential).|TSP type-1 15.					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		ATAATCACCGGTCTGGATCTG	0.448										HNSCC(18;0.044)			22	72	---	---	---	---	PASS	T	11441494	T	T	11441494	3	4	117	1	0	0	0	0	1	0	0	0	15876	1261	44	3	658	3	THSD7A	7	11441494	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08		11441494	147697169	118	42584										
ETV1	2115	broad.mit.edu	37	chr7	13946086	13946086	+	Missense_Mutation	SNP	C	A	A													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	caatcagtttaaattccatgCctcgaccagtccaggcaata							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:13946086C>A	uc011jxq.1	-	12	1818	c.1079G>T	c.(1078-1080)GGC>GTC	p.G360V	ETV1_uc011jxn.1_Missense_Mutation_p.G320V|ETV1_uc011jxo.1_Missense_Mutation_p.G257V|ETV1_uc011jxp.1_Missense_Mutation_p.G302V|ETV1_uc003ssw.3_Missense_Mutation_p.G337V|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Missense_Mutation_p.G342V|ETV1_uc011jxs.1_Missense_Mutation_p.G342V|ETV1_uc010ktv.2_3'UTR	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	360	ETS.				transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						AAATTCCATGCCTCGACCAGT	0.398			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								10	25	---	---	---	---	PASS	A	13946086	A	A	13946086	3	1	117	1	0	0	0	0	1	0	0	0	5277	739	26	3	366	3	ETV1	7	13946086	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	2504592	13946086	145192577	119	42585	798	2								
ETV1	2115	broad.mit.edu	37	chr7	13946087	13946087	+	Missense_Mutation	SNP	C	A	A													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aatcagtttaaattccatgcCtcgaccagtccaggcaataa							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:13946087C>A	uc011jxq.1	-	12	1817	c.1078G>T	c.(1078-1080)GGC>TGC	p.G360C	ETV1_uc011jxn.1_Missense_Mutation_p.G320C|ETV1_uc011jxo.1_Missense_Mutation_p.G257C|ETV1_uc011jxp.1_Missense_Mutation_p.G302C|ETV1_uc003ssw.3_Missense_Mutation_p.G337C|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Missense_Mutation_p.G342C|ETV1_uc011jxs.1_Missense_Mutation_p.G342C|ETV1_uc010ktv.2_3'UTR	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	360	ETS.				transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						AATTCCATGCCTCGACCAGTC	0.398			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								9	25	---	---	---	---	PASS	A	13946087	A	A	13946087	3	1	117	1	0	0	0	0	1	0	0	0	5277	681	24	3	367	3	ETV1	7	13946087	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1	13946087	145192576	120	42586	798	2								
MACC1	346389	broad.mit.edu	37	chr7	20199737	20199737	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cttcctgttatttcttagttGagttatgtcatccaaaaatg	6	7	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:20199737G>T	uc003sus.3	-	5	556	c.247C>A	c.(247-249)CAA>AAA	p.Q83K	MACC1_uc010kug.2_Missense_Mutation_p.Q83K	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	83					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						TTTCTTAGTTGAGTTATGTCA	0.353													7	59	---	---	---	---	PASS	T	20199737	T	T	20199737	3	4	117	1	0	0	0	0	1	0	0	0	9143	1299	45	2	2323	2	MACC1	7	20199737	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	6253650	20199737	138938926	121	42587										
SP4	6671	broad.mit.edu	37	chr7	21469531	21469531	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tacagactcttcctggtactCaggctcaagttgtaacaacc	7	12	3	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:21469531C>T	uc003sva.2	+	3	929	c.748C>T	c.(748-750)CAG>TAG	p.Q250*	SP4_uc003svb.2_5'UTR	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	250					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						TCCTGGTACTCAGGCTCAAGT	0.478													13	63	---	---	---	---	PASS	T	21469531	T	T	21469531	4	4	117	1	0	0	0	0	0	1	0	0	14966	827	29	2	758	2	SP4	7	21469531	Nonsense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1269794	21469531	137669132	122	42588										
CRHR2	1395	broad.mit.edu	37	chr7	30695252	30695252	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	catgatctgtgacaggtcgtCctccccgggattgacgaaga	12	11	1	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:30695252C>T	uc003tbn.2	-	10	1241	c.997G>A	c.(997-999)GAC>AAC	p.D333N	CRHR2_uc010kvw.1_Missense_Mutation_p.D333N|CRHR2_uc010kvx.1_Missense_Mutation_p.D332N|CRHR2_uc010kvy.1_Missense_Mutation_p.D169N|CRHR2_uc003tbo.2_Missense_Mutation_p.D319N|CRHR2_uc003tbp.2_Missense_Mutation_p.D360N	NM_001883	NP_001874	Q13324	CRFR2_HUMAN	corticotropin releasing hormone receptor 2	333	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(2)|ovary(1)|skin(1)	4						GACAGGTCGTCCTCCCCGGGA	0.597													26	164	---	---	---	---	PASS	T	30695252	T	T	30695252	3	4	117	1	0	0	0	0	1	0	0	0	3872	855	30	2	250	2	CRHR2	7	30695252	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	9225721	30695252	128443411	123	42589										
CCDC129	223075	broad.mit.edu	37	chr7	31683478	31683478	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aaccctcagtctgtaggcacTgcctgtgttcactaactggt	9	12	3	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:31683478T>C	uc003tcj.1	+	11	3487	c.2494T>C	c.(2494-2496)TGC>CGC	p.C832R	CCDC129_uc011kad.1_Missense_Mutation_p.C842R|CCDC129_uc003tci.1_Missense_Mutation_p.C683R|CCDC129_uc011kae.1_Missense_Mutation_p.C858R|CCDC129_uc003tck.1_Missense_Mutation_p.C740R	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	832	Cys-rich.										0						CTGTAGGCACTGCCTGTGTTC	0.552													33	60	---	---	---	---	PASS	C	31683478	C	C	31683478	3	2	117	1	0	0	0	0	1	0	0	0	2764	1580	55	5	2532	5	CCDC129	7	31683478	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	988226	31683478	127455185	124	42590										
HECW1	23072	broad.mit.edu	37	chr7	43594272	43594272	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgagcagaggctgagattacTgcagtttgtcacgggaacat	13	7	1	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:43594272T>A	uc003tid.1	+	29	5197	c.4592T>A	c.(4591-4593)CTG>CAG	p.L1531Q	HECW1_uc011kbi.1_Missense_Mutation_p.L1497Q	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1531	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CTGAGATTACTGCAGTTTGTC	0.552													6	31	---	---	---	---	PASS	A	43594272	A	A	43594272	3	1	117	1	0	0	0	0	1	0	0	0	7042	1580	55	5	4698	5	HECW1	7	43594272	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	11910794	43594272	115544391	125	42591										
SEPT14	346288	broad.mit.edu	37	chr7	55912272	55912272	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtctccacaacagtcaatttCaactgaacattgctttcctg	5	12	3	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:55912272C>G	uc003tqz.2	-	4	432	c.315G>C	c.(313-315)TTG>TTC	p.L105F		NM_207366	NP_997249	Q6ZU15	SEP14_HUMAN	septin 14	105					cell cycle|cell division	septin complex	GTP binding|protein binding				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CAGTCAATTTCAACTGAACAT	0.313													531	241	---	---	---	---	PASS	G	55912272	G	G	55912272	3	3	117	1	0	0	0	0	1	0	0	0	14063	825	29	2	1011	2	SEPT14	7	55912272	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	12318000	55912272	103226391	126	42592										
TYW1	55253	broad.mit.edu	37	chr7	66489962	66489962	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agagcctaaattccattgttGatgttgaagatttgggcaaa	10	5	0	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:66489962G>A	uc003tvn.2	+	7	1086	c.937G>A	c.(937-939)GAT>AAT	p.D313N	TYW1_uc010lai.2_RNA	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	313					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				TTCCATTGTTGATGTTGAAGA	0.418													32	657	---	---	---	---	PASS	A	66489962	A	A	66489962	3	1	117	1	0	0	0	0	1	0	0	0	16815	1290	45	2	963	2	TYW1	7	66489962	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	10577690	66489962	92648701	127	42593										
ZNF804B	219578	broad.mit.edu	37	chr7	88966163	88966163	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cttcagcctctgccccctacAgcatttattcctacattgtt	4	15	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:88966163A>T	uc011khi.1	+	4	4405	c.3867A>T	c.(3865-3867)ACA>ACT	p.T1289T		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1289						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TGCCCCCTACAGCATTTATTC	0.463										HNSCC(36;0.09)			40	171	---	---	---	---	PASS	T	88966163	T	T	88966163	2	4	117	1	0	0	0	0	0	0	0	1	18168	175	7	5		5	ZNF804B	7	88966163	Silent	SNP	A	TCGA-56-6545-01A-11D-1817-08	22476201	88966163	70172500	128	42594										
TAC1	6863	broad.mit.edu	37	chr7	97362024	97362024	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	atctgaattactggtccgacTggtacgacagcgaccagatc	10	11	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:97362024T>A	uc003uop.3	+	2	346	c.100T>A	c.(100-102)TGG>AGG	p.W34R	TAC1_uc003uoq.3_Missense_Mutation_p.W34R|TAC1_uc003uor.3_Missense_Mutation_p.W34R|TAC1_uc003uos.3_Missense_Mutation_p.W34R	NM_003182	NP_003173	P20366	TKN1_HUMAN	tachykinin 1 isoform beta precursor	34					detection of abiotic stimulus|elevation of cytosolic calcium ion concentration|insemination|neuropeptide signaling pathway|synaptic transmission|tachykinin receptor signaling pathway	extracellular space					0	all_cancers(62;3.95e-09)|all_epithelial(64;1.1e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0358)|all_lung(186;0.0384)				Bacitracin(DB00626)	CTGGTCCGACTGGTACGACAG	0.552													21	104	---	---	---	---	PASS	A	97362024	A	A	97362024	3	1	117	1	0	0	0	0	1	0	0	0	15495	1580	55	5	102	5	TAC1	7	97362024	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	8395861	97362024	61776639	129	42595										
ZNF789	285989	broad.mit.edu	37	chr7	99084537	99084537	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttttgagtgtaaggtctgtgGgcaagccttcagacagcggt	14	7	2	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:99084537G>C	uc003uqq.1	+	5	923	c.704G>C	c.(703-705)GGG>GCG	p.G235A	ZNF789_uc010lfw.1_Missense_Mutation_p.G140A|ZNF789_uc003uqr.1_Missense_Mutation_p.G177A	NM_213603	NP_998768	Q5FWF6	ZN789_HUMAN	zinc finger protein 789 isoform 1	235	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					AAGGTCTGTGGGCAAGCCTTC	0.438													26	197	---	---	---	---	PASS	C	99084537	C	C	99084537	3	2	117	1	0	0	0	0	1	0	0	0	18157	1232	43	4	760	4	ZNF789	7	99084537	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1722513	99084537	60054126	130	42596										
ZAN	7455	broad.mit.edu	37	chr7	100389710	100389710	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ccaggcctgtagggtgctggCagacccccagggcccctttg	14	15	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:100389710C>A	uc003uwj.2	+	42	7817	c.7652C>A	c.(7651-7653)GCA>GAA	p.A2551E	ZAN_uc003uwk.2_Missense_Mutation_p.A2551E|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.Q544K	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2551	Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AGGGTGCTGGCAGACCCCCAG	0.672													6	18	---	---	---	---	PASS	A	100389710	A	A	100389710	3	1	117	1	0	0	0	0	1	0	0	0	17510	710	25	3	7809	3	ZAN	7	100389710	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1305173	100389710	58748953	131	42597										
PLOD3	8985	broad.mit.edu	37	chr7	100854987	100854987	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtggcgggacagcatgggggCgatcaccttcctgcggacag	17	11	1	0	rs144508814		TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:100854987C>A	uc003uyd.2	-	12	1699	c.1243G>T	c.(1243-1245)GCC>TCC	p.A415S	PLOD3_uc010lhs.2_5'UTR	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	415					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	AGCATGGGGGCGATCACCTTC	0.701													5	7	---	---	---	---	PASS	A	100854987	A	A	100854987	3	1	117	1	0	0	0	0	1	0	0	0	12103	768	27	1	1005	1	PLOD3	7	100854987	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	465277	100854987	58283676	132	42598										
TRPV6	55503	broad.mit.edu	37	chr7	142572280	142572280	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtgaaggggcctagcatctgGaatcctcgggcgaagtacat	14	9	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:142572280G>C	uc003wbx.1	-	11	1632	c.1416C>G	c.(1414-1416)TTC>TTG	p.F472L	TRPV6_uc003wbw.1_Missense_Mutation_p.F258L|TRPV6_uc010lou.1_Missense_Mutation_p.F343L	NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	472	Cytoplasmic (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					CTAGCATCTGGAATCCTCGGG	0.537													37	78	---	---	---	---	PASS	C	142572280	C	C	142572280	3	2	117	1	0	0	0	0	1	0	0	0	16597	1165	41	2	781	2	TRPV6	7	142572280	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	41717293	142572280	16566383	133	42599										
OR6V1	346517	broad.mit.edu	37	chr7	142749511	142749511	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tggtgagctgcaggcccttcTgtatggccccttcctcatgc	11	14	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:142749511T>A	uc011ksv.1	+	1	74	c.74T>A	c.(73-75)CTG>CAG	p.L25Q		NM_001001667	NP_001001667	Q8N148	OR6V1_HUMAN	olfactory receptor, family 6, subfamily V,	25	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.059)					CAGGCCCTTCTGTATGGCCCC	0.517													59	134	---	---	---	---	PASS	A	142749511	A	A	142749511	3	1	117	1	0	0	0	0	1	0	0	0	11211	1580	55	5	76	5	OR6V1	7	142749511	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	177231	142749511	16389152	134	42600										
CNTNAP2	26047	broad.mit.edu	37	chr7	147336310	147336310	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtttacagcgcctccatggaCcagataagtgccatcactga	9	12	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr7:147336310C>A	uc003weu.1	+	13	2526	c.2010C>A	c.(2008-2010)GAC>GAA	p.D670E		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	670	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CCTCCATGGACCAGATAAGTG	0.502										HNSCC(39;0.1)			11	48	---	---	---	---	PASS	A	147336310	A	A	147336310	3	1	117	1	0	0	0	0	1	0	0	0	3647	506	18	3	2060	3	CNTNAP2	7	147336310	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	4586799	147336310	11802353	135	42601										
DEFA4	1669	broad.mit.edu	37	chr8	6794261	6794261	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctctctcacctgaaacctgaAgagcagagcttttatcccat	6	13	2	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr8:6794261A>G	uc003wqu.1	-	2	212	c.161T>C	c.(160-162)CTT>CCT	p.L54P		NM_001925	NP_001916	P12838	DEF4_HUMAN	defensin, alpha 4 preproprotein	54					defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular space				large_intestine(1)	1				COAD - Colon adenocarcinoma(149;0.0572)|READ - Rectum adenocarcinoma(644;0.121)		TGAAACCTGAAGAGCAGAGCT	0.348													21	78	---	---	---	---	PASS	G	6794261	G	G	6794261	3	3	117	1	0	0	0	0	1	0	0	0	4391	72	3	5	140	5	DEFA4	8	6794261	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08		6794261	139569761	136	42602										
AMAC1L2	83650	broad.mit.edu	37	chr8	11189510	11189510	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tggcccttatactgcagtatTatatgctccatgagactgtg	9	9	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr8:11189510T>C	uc003wtp.1	+	1	1016	c.895T>C	c.(895-897)TAT>CAT	p.Y299H		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	299	DUF6 2.|Helical; (Potential).					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		ACTGCAGTATTATATGCTCCA	0.567													7	148	---	---	---	---	PASS	C	11189510	C	C	11189510	3	2	117	1	0	0	0	0	1	0	0	0	560	1754	61	5	897	5	AMAC1L2	8	11189510	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	4395249	11189510	135174512	137	42603										
KIF13B	23303	broad.mit.edu	37	chr8	29003964	29003964	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tattctgttcttttatccagCtcctcagcaatgtaattagc	5	10	3	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr8:29003964C>T	uc003xhh.3	-	18	2177	c.2118G>A	c.(2116-2118)GAG>GAA	p.E706E	KIF13B_uc003xhj.2_Silent_p.E603E	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	706	Potential.				microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		TTTTATCCAGCTCCTCAGCAA	0.428													13	44	---	---	---	---	PASS	T	29003964	T	T	29003964	2	4	117	1	0	0	0	0	0	0	0	1	8275	796	28	3		3	KIF13B	8	29003964	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	17814454	29003964	117360058	138	42604										
MYST3	7994	broad.mit.edu	37	chr8	41791206	41791206	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	atccttgttctgggctgatcTgggtgtagccactctcaagg	12	10	3	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr8:41791206T>A	uc010lxb.2	-	18	5076	c.4532A>T	c.(4531-4533)CAG>CTG	p.Q1511L	MYST3_uc010lxc.2_Missense_Mutation_p.Q1511L|MYST3_uc003xon.3_Missense_Mutation_p.Q1511L	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1511					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			TGGGCTGATCTGGGTGTAGCC	0.567													13	110	---	---	---	---	PASS	A	41791206	A	A	41791206	3	1	117	1	0	0	0	0	1	0	0	0	10104	1580	55	5	1486	5	MYST3	8	41791206	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	12787242	41791206	104572816	139	42605										
PXDNL	137902	broad.mit.edu	37	chr8	52321593	52321593	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tggcacacgcggggctggagCgcgcgaagagcatgcagggc	19	11	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr8:52321593C>A	uc003xqu.3	-	17	2692	c.2591G>T	c.(2590-2592)CGC>CTC	p.R864L	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	864					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GGGGCTGGAGCGCGCGAAGAG	0.662													6	35	---	---	---	---	PASS	A	52321593	A	A	52321593	3	1	117	1	0	0	0	0	1	0	0	0	12848	768	27	1	1828	1	PXDNL	8	52321593	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	10530387	52321593	94042429	140	42606										
CNGB3	54714	broad.mit.edu	37	chr8	87755727	87755727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	taggaatgtagaggacatacCtgtgctgtggtttgctgaga	14	5	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr8:87755727C>A	uc003ydx.2	-	1	175	c.129G>T	c.(127-129)CAG>CAT	p.Q43H		NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	43	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						GAGGACATACCTGTGCTGTGG	0.388													41	62	---	---	---	---	PASS	A	87755727	A	A	87755727	3	1	117	1	0	0	0	0	1	0	0	0	3601	695	24	3	2372	3	CNGB3	8	87755727	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	35434134	87755727	58608295	141	42607										
CSMD3	114788	broad.mit.edu	37	chr8	113275901	113275901	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tacttcaccactccaggtacCattccctacacaggtcaaaa	4	15	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr8:113275901C>T	uc003ynu.2	-	61	9988	c.9829G>A	c.(9829-9831)GGT>AGT	p.G3277S	CSMD3_uc003yns.2_Missense_Mutation_p.G2479S|CSMD3_uc003ynt.2_Missense_Mutation_p.G3237S|CSMD3_uc011lhx.1_Missense_Mutation_p.G3108S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3277	Sushi 25.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CTCCAGGTACCATTCCCTACA	0.403										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			17	25	---	---	---	---	PASS	T	113275901	T	T	113275901	3	4	117	1	0	0	0	0	1	0	0	0	3946	594	21	3	1338	3	CSMD3	8	113275901	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	25520174	113275901	33088121	142	42608										
TAF2	6873	broad.mit.edu	37	chr8	120774748	120774748	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgagtcgcacatcaggatttAagttatccaaagttctaact	7	8	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr8:120774748A>T	uc003you.2	-	19	2735	c.2465T>A	c.(2464-2466)TTA>TAA	p.L822*		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	822					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			ATCAGGATTTAAGTTATCCAA	0.378													7	53	---	---	---	---	PASS	T	120774748	T	T	120774748	4	4	117	1	0	0	0	0	0	1	0	0	15521	372	13	5	1166	5	TAF2	8	120774748	Nonsense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	7498847	120774748	25589274	143	42609										
FAM135B	51059	broad.mit.edu	37	chr8	139164354	139164354	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aaacctccatcttgctgcttGgtgtccgcatcttcagcagc	8	14	3	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr8:139164354G>C	uc003yuy.2	-	13	2535	c.2364C>G	c.(2362-2364)ACC>ACG	p.T788T	FAM135B_uc003yux.2_Silent_p.T689T|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Silent_p.T350T|FAM135B_uc003yvb.2_Silent_p.T350T	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	788										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)			CTTGCTGCTTGGTGTCCGCAT	0.522										HNSCC(54;0.14)			10	92	---	---	---	---	PASS	C	139164354	C	C	139164354	2	2	117	1	0	0	0	0	0	0	0	1	5449	1335	47	4		4	FAM135B	8	139164354	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	18389606	139164354	7199668	144	42610										
GPR20	2843	broad.mit.edu	37	chr8	142367828	142367828	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cccgttgagcaccagccctgCcaggaagatggctccgtgca	12	15	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr8:142367828C>A	uc003ywf.2	-	2	285	c.196G>T	c.(196-198)GCA>TCA	p.A66S		NM_005293	NP_005284	Q99678	GPR20_HUMAN	G protein-coupled receptor 20	66	Helical; Name=1; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(97;4.32e-16)|all_epithelial(106;6.61e-14)|Lung NSC(106;9.4e-06)|all_lung(105;1.35e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0415)			ACCAGCCCTGCCAGGAAGATG	0.652													8	34	---	---	---	---	PASS	A	142367828	A	A	142367828	3	1	117	1	0	0	0	0	1	0	0	0	6680	739	26	3	884	3	GPR20	8	142367828	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	3203474	142367828	3996194	145	42611										
LRRC14	9684	broad.mit.edu	37	chr8	145745721	145745721	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgggactgtactgctgccgtAgctcgcacatgcattgccca	11	13	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr8:145745721A>G	uc003zdk.1	+	3	575	c.429A>G	c.(427-429)GTA>GTG	p.V143V	RECQL4_uc003zdj.2_5'Flank|LRRC14_uc003zdl.1_Silent_p.V143V|LRRC14_uc003zdo.2_5'Flank	NM_014665	NP_055480	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	143											0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CTGCTGCCGTAGCTCGCACAT	0.662													9	88	---	---	---	---	PASS	G	145745721	G	G	145745721	2	3	117	1	0	0	0	0	0	0	0	1	8968	407	15	5		5	LRRC14	8	145745721	Silent	SNP	A	TCGA-56-6545-01A-11D-1817-08	3377893	145745721	618301	146	42612										
ADAMTS13	11093	broad.mit.edu	37	chr9	136307599	136307599	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctacttccagcctaagccacGgcaggcctgggtgtgggccg	14	14	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr9:136307599G>C	uc004cdv.3	+	17	2492	c.2048G>C	c.(2047-2049)CGG>CCG	p.R683P	ADAMTS13_uc004cdp.3_Intron|ADAMTS13_uc004cdt.1_Missense_Mutation_p.R683P|ADAMTS13_uc004cdu.1_Missense_Mutation_p.R652P|ADAMTS13_uc004cdw.3_Missense_Mutation_p.R683P|ADAMTS13_uc004cdx.3_Missense_Mutation_p.R652P|ADAMTS13_uc004cdy.1_Intron|ADAMTS13_uc004cdz.3_Missense_Mutation_p.R353P|ADAMTS13_uc004cds.1_Missense_Mutation_p.R208P|ADAMTS13_uc004cdr.1_Intron	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	683	Spacer.|TSP type-1 2.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		CCTAAGCCACGGCAGGCCTGG	0.637													22	60	---	---	---	---	PASS	C	136307599	C	C	136307599	3	2	117	1	0	0	0	0	1	0	0	0	258	1116	39	4	2114	4	ADAMTS13	9	136307599	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08		136307599	4905832	147	42613										
USP6NL	9712	broad.mit.edu	37	chr10	11505690	11505690	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctgggggtgcggggagtgctCgtgcctcctgtggggcgccc	20	12	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr10:11505690C>A	uc001ikt.3	-	15	1558	c.1237G>T	c.(1237-1239)GAG>TAG	p.E413*	USP6NL_uc001iks.1_Nonsense_Mutation_p.E430*	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	413						intracellular	Rab GTPase activator activity				0						GGGGAGTGCTCGTGCCTCCTG	0.672													11	27	---	---	---	---	PASS	A	11505690	A	A	11505690	4	1	117	1	0	0	0	0	0	1	0	0	17084	893	31	2	1253	2	USP6NL	10	11505690	Nonsense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08		11505690	124029057	148	42614										
FAM188A	80013	broad.mit.edu	37	chr10	15880243	15880243	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttactgaattaatgcatgaaAtcgctcaaagccaagctctt	6	9	2	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr10:15880243A>G	uc001iod.1	-	5	666	c.445T>C	c.(445-447)TTT>CTT	p.F149L	FAM188A_uc001ioe.1_Intron|FAM188A_uc001iof.1_Missense_Mutation_p.F149L	NM_024948	NP_079224	Q9H8M7	F188A_HUMAN	chromosome 10 open reading frame 97	149					apoptosis	nucleus	calcium ion binding			ovary(1)	1						AATGCATGAAATCGCTCAAAG	0.378													6	56	---	---	---	---	PASS	G	15880243	G	G	15880243	3	3	117	1	0	0	0	0	1	0	0	0	5514	101	4	5	936	5	FAM188A	10	15880243	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	4374553	15880243	119654504	149	42615										
CUBN	8029	broad.mit.edu	37	chr10	17156040	17156040	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	atgtacctgttggacaggccCcacagtagaaagagccttga	11	10	0	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr10:17156040C>T	uc001ioo.2	-	8	921	c.869G>A	c.(868-870)GGG>GAG	p.G290E		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	290	EGF-like 3; calcium-binding (Potential).				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)	TGGACAGGCCCCACAGTAGAA	0.552													3	12	---	---	---	---	PASS	T	17156040	T	T	17156040	3	4	117	1	0	0	0	0	1	0	0	0	4051	623	22	3	10242	3	CUBN	10	17156040	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1275797	17156040	118378707	150	42616										
ANKRD30A	91074	broad.mit.edu	37	chr10	37419161	37419161	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	atgccatcaggaggcttgtgCaaatattctgatagattctg	10	7	3	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr10:37419161C>A	uc001iza.1	+	3	296	c.197C>A	c.(196-198)GCA>GAA	p.A66E		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	122	ANK 2.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GAGGCTTGTGCAAATATTCTG	0.323													5	35	---	---	---	---	PASS	A	37419161	A	A	37419161	3	1	117	1	0	0	0	0	1	0	0	0	658	710	25	3	207	3	ANKRD30A	10	37419161	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	20263121	37419161	98115586	151	42617										
FAM178A	55719	broad.mit.edu	37	chr10	102689090	102689090	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tcaggctagatgaactgcagAagcaactacaagaagacata	9	8	1	5			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr10:102689090A>T	uc001krt.3	+	7	2601	c.2059A>T	c.(2059-2061)AAG>TAG	p.K687*	FAM178A_uc001krs.2_Nonsense_Mutation_p.K687*	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	687											0						TGAACTGCAGAAGCAACTACA	0.358													7	22	---	---	---	---	PASS	T	102689090	T	T	102689090	4	4	117	1	0	0	0	0	0	1	0	0	5503	247	9	5	2085	5	FAM178A	10	102689090	Nonsense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	65269929	102689090	32845657	152	42618										
MGEA5	10724	broad.mit.edu	37	chr10	103569992	103569992	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tccttggggttagaaaaagtGatatccaatccaggtgagat	11	6	0	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr10:103569992G>C	uc001ktv.2	-	4	872	c.429C>G	c.(427-429)ATC>ATG	p.I143M	MGEA5_uc010qqe.1_Missense_Mutation_p.I143M|MGEA5_uc009xws.2_Missense_Mutation_p.I143M|MGEA5_uc001ktw.2_Missense_Mutation_p.I143M|MGEA5_uc009xwt.2_Intron|MGEA5_uc010qqf.1_Intron	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	143					glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		TAGAAAAAGTGATATCCAATC	0.373													42	97	---	---	---	---	PASS	C	103569992	C	C	103569992	3	2	117	1	0	0	0	0	1	0	0	0	9555	1280	45	2	2373	2	MGEA5	10	103569992	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	880902	103569992	31964755	153	42619										
DCLRE1A	9937	broad.mit.edu	37	chr10	115601242	115601242	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agtgatgagtgaattaatttCtggtatattgaggcactgta	11	3	1	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr10:115601242C>G	uc001law.2	-	7	3661	c.2743G>C	c.(2743-2745)GAA>CAA	p.E915Q		NM_014881	NP_055696	Q6PJP8	DCR1A_HUMAN	DNA cross-link repair 1A	915					cell division|mitosis	nucleus	hydrolase activity			skin(2)	2				Epithelial(162;0.0157)|all cancers(201;0.0171)		GAATTAATTTCTGGTATATTG	0.363								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					19	112	---	---	---	---	PASS	G	115601242	G	G	115601242	3	3	117	1	0	0	0	0	1	0	0	0	4294	922	32	2	391	2	DCLRE1A	10	115601242	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	12031250	115601242	19933505	154	42620										
PNLIPRP3	119548	broad.mit.edu	37	chr10	118196342	118196342	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agaagataaacactcgtttcCtgctctacactatacacaat	4	11	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr10:118196342C>T	uc001lcl.3	+	2	270	c.169C>T	c.(169-171)CTG>TTG	p.L57L		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	57					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		CACTCGTTTCCTGCTCTACAC	0.408													23	104	---	---	---	---	PASS	T	118196342	T	T	118196342	2	4	117	1	0	0	0	0	0	0	0	1	12152	680	24	3		3	PNLIPRP3	10	118196342	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	2595100	118196342	17338405	155	42621										
EIF3A	8661	broad.mit.edu	37	chr10	120801982	120801982	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	catccagtcctcgtctaggtGgtctgtcatcatccgcatga	9	13	4	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr10:120801982G>T	uc001ldu.2	-	19	3196	c.3050C>A	c.(3049-3051)CCA>CAA	p.P1017Q	EIF3A_uc010qsu.1_Missense_Mutation_p.P983Q|EIF3A_uc009xzg.1_Missense_Mutation_p.P56Q	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	1017	Asp-rich.|10.|25 X 10 AA approximate tandem repeats of [DE]-[DE]-[DE]-R-[SEVGFPILV]-[HPSN]- [RSW]-[RL]-[DRGTIHN]-[EPMANLGDT].				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		TCGTCTAGGTGGTCTGTCATC	0.582													30	182	---	---	---	---	PASS	T	120801982	T	T	120801982	3	4	117	1	0	0	0	0	1	0	0	0	5012	1348	47	3	1114	3	EIF3A	10	120801982	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	2605640	120801982	14732765	156	42622										
MUC6	4588	broad.mit.edu	37	chr11	1016874	1016874	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gacctgtggaagagaagggaCtgctccctgtaggtggggag	18	7	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:1016874C>A	uc001lsw.2	-	31	5978	c.5927G>T	c.(5926-5928)AGT>ATT	p.S1976I		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1976	Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGAGAAGGGACTGCTCCCTGT	0.587													24	562	---	---	---	---	PASS	A	1016874	A	A	1016874	3	1	117	1	0	0	0	0	1	0	0	0	9980	565	20	3	1404	3	MUC6	11	1016874	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08		1016874	133989642	157	42623										
MUC6	4588	broad.mit.edu	37	chr11	1018760	1018760	+	Silent	SNP	G	T	T													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gttcctggcagttcctgattGgtcgattttgctgtgggaat							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:1018760G>T	uc001lsw.2	-	31	4092	c.4041C>A	c.(4039-4041)ACC>ACA	p.T1347T		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1347	Pro-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GTTCCTGATTGGTCGATTTTG	0.542													26	69	---	---	---	---	PASS	T	1018760	T	T	1018760	2	4	117	1	0	0	0	0	0	0	0	1	9980	1335	47	3		3	MUC6	11	1018760	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	1886	1018760	133987756	158	42624	799	2								
MUC6	4588	broad.mit.edu	37	chr11	1018761	1018761	+	Missense_Mutation	SNP	G	A	A													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttcctggcagttcctgattgGtcgattttgctgtgggaatt							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:1018761G>A	uc001lsw.2	-	31	4091	c.4040C>T	c.(4039-4041)ACC>ATC	p.T1347I		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1347	Pro-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TTCCTGATTGGTCGATTTTGC	0.542													26	72	---	---	---	---	PASS	A	1018761	A	A	1018761	3	1	117	1	0	0	0	0	1	0	0	0	9980	1261	44	3	3291	3	MUC6	11	1018761	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1	1018761	133987755	159	42625	799	2								
CARS	833	broad.mit.edu	37	chr11	3026612	3026612	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tcacccgtctcttttcttctCtctcttttaataaggtgttt	4	11	5	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:3026612C>G	uc001lxh.2	-	19	2026	c.1952G>C	c.(1951-1953)AGA>ACA	p.R651T	CARS_uc009ydu.2_RNA|CARS_uc001lxe.2_Missense_Mutation_p.R641T|CARS_uc001lxf.2_Missense_Mutation_p.R734T|CARS_uc001lxg.2_Missense_Mutation_p.R651T|CARS_uc010qxo.1_Missense_Mutation_p.R734T|CARS_uc010qxp.1_Missense_Mutation_p.R664T	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	651					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	CTTTTCTTCTCTCTCTTTTAA	0.398			T	ALK	ALCL								23	58	---	---	---	---	PASS	G	3026612	G	G	3026612	3	3	117	1	0	0	0	0	1	0	0	0	2657	913	32	2	318	2	CARS	11	3026612	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	2007851	3026612	131979904	160	42626										
OR51I1	390063	broad.mit.edu	37	chr11	5461847	5461847	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gagaatccctttgcggatctCcttggttttcacactgtaga	9	10	2	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:5461847C>A	uc010qze.1	-	1	898	c.898G>T	c.(898-900)GAG>TAG	p.E300*	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,	300	Cytoplasmic (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)		TTGCGGATCTCCTTGGTTTTC	0.473													37	78	---	---	---	---	PASS	A	5461847	A	A	5461847	4	1	117	1	0	0	0	0	0	1	0	0	11100	864	30	2	50	2	OR51I1	11	5461847	Nonsense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	2435235	5461847	129544669	161	42627										
TTC17	55761	broad.mit.edu	37	chr11	43418950	43418950	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aaacgttctacacagagcacActtctctgctgatgctgctg	8	12	2	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:43418950A>T	uc001mxi.2	+	7	841	c.827A>T	c.(826-828)CAC>CTC	p.H276L	TTC17_uc001mxh.2_Missense_Mutation_p.H276L|TTC17_uc010rfj.1_Missense_Mutation_p.H219L|TTC17_uc001mxj.2_Missense_Mutation_p.H46L	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	276							binding			ovary(5)	5						CACAGAGCACACTTCTCTGCT	0.448													39	134	---	---	---	---	PASS	T	43418950	T	T	43418950	3	4	117	1	0	0	0	0	1	0	0	0	16681	159	6	5	853	5	TTC17	11	43418950	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	37957103	43418950	91587566	162	42628										
TTC17	55761	broad.mit.edu	37	chr11	43427351	43427351	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gccaggatccacgaactcagCagtgatgattattctacaga	9	10	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:43427351C>A	uc001mxi.2	+	13	1625	c.1611C>A	c.(1609-1611)AGC>AGA	p.S537R	TTC17_uc001mxh.2_Missense_Mutation_p.S537R|TTC17_uc010rfj.1_Missense_Mutation_p.S480R|TTC17_uc001mxj.2_Missense_Mutation_p.S307R	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	537							binding			ovary(5)	5						ACGAACTCAGCAGTGATGATT	0.398													28	105	---	---	---	---	PASS	A	43427351	A	A	43427351	3	1	117	1	0	0	0	0	1	0	0	0	16681	709	25	3	1661	3	TTC17	11	43427351	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	8401	43427351	91579165	163	42629										
OR4C13	283092	broad.mit.edu	37	chr11	49974362	49974362	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ccatctgcaagcccttgcacTataccaccgtcatgaagcag	7	15	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:49974362T>A	uc010rhz.1	+	1	388	c.388T>A	c.(388-390)TAT>AAT	p.Y130N		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						GCCCTTGCACTATACCACCGT	0.468													24	75	---	---	---	---	PASS	A	49974362	A	A	49974362	3	1	117	1	0	0	0	0	1	0	0	0	11047	1522	53	5	390	5	OR4C13	11	49974362	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	6547011	49974362	85032154	164	42630										
OR4A15	81328	broad.mit.edu	37	chr11	55135383	55135383	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gagcttctgacaaataatctCaaatttatcactgacccttt	4	10	3	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:55135383C>T	uc010rif.1	+	1	24	c.24C>T	c.(22-24)CTC>CTT	p.L8L		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CAAATAATCTCAAATTTATCA	0.413													9	26	---	---	---	---	PASS	T	55135383	T	T	55135383	2	4	117	1	0	0	0	0	0	0	0	1	11040	813	29	2		2	OR4A15	11	55135383	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	5161021	55135383	79871133	165	42631										
OR9G9	504191	broad.mit.edu	37	chr11	56468238	56468238	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tatgaccgctacgtggccatCtccaagcccctgctttatgc	8	15	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:56468238C>A	uc010rjn.1	+	1	375	c.375C>A	c.(373-375)ATC>ATA	p.I125I		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACGTGGCCATCTCCAAGCCCC	0.522													11	153	---	---	---	---	PASS	A	56468238	A	A	56468238	2	1	117	1	0	0	0	0	0	0	0	1	11252	903	32	2		2	OR9G9	11	56468238	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	1332855	56468238	78538278	166	42632										
OR9G9	504191	broad.mit.edu	37	chr11	56468590	56468590	+	Missense_Mutation	SNP	C	A	A													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ccttctccacatgctcctccCacctgacctctgtcacttta							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:56468590C>A	uc010rjn.1	+	1	727	c.727C>A	c.(727-729)CAC>AAC	p.H243N		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGCTCCTCCCACCTGACCTC	0.473													47	245	---	---	---	---	PASS	A	56468590	A	A	56468590	3	1	117	1	0	0	0	0	1	0	0	0	11252	594	21	3	729	3	OR9G9	11	56468590	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	352	56468590	78537926	167	42633	800	2								
OR9G9	504191	broad.mit.edu	37	chr11	56468598	56468598	+	Silent	SNP	C	A	A													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	acatgctcctcccacctgacCtctgtcactttatactatgg							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:56468598C>A	uc010rjn.1	+	1	735	c.735C>A	c.(733-735)ACC>ACA	p.T245T		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCCACCTGACCTCTGTCACTT	0.458													26	287	---	---	---	---	PASS	A	56468598	A	A	56468598	2	1	117	1	0	0	0	0	0	0	0	1	11252	668	24	3		3	OR9G9	11	56468598	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	8	56468598	78537918	168	42634	800	2								
OR5B2	390190	broad.mit.edu	37	chr11	58190455	58190455	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gaacatctgaacagcacatgCattgtaggagatgaccttgt	10	8	1	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:58190455C>A	uc010rkg.1	-	1	280	c.280G>T	c.(280-282)GCA>TCA	p.A94S		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				ACAGCACATGCATTGTAGGAG	0.502													29	84	---	---	---	---	PASS	A	58190455	A	A	58190455	3	1	117	1	0	0	0	0	1	0	0	0	11150	710	25	3	653	3	OR5B2	11	58190455	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1721857	58190455	76816061	169	42635										
NAA40	79829	broad.mit.edu	37	chr11	63713361	63713361	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gcagaagcggttggaggagcGagcagccatggatgccgttt	17	8	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:63713361G>C	uc009yoz.2	+	2	183	c.56G>C	c.(55-57)CGA>CCA	p.R19P	NAA40_uc010rmw.1_5'UTR|NAA40_uc010rmx.1_5'UTR	NM_024771	NP_079047	Q86UY6	NAA40_HUMAN	N-acetyltransferase 11	19							N-acetyltransferase activity				0						TTGGAGGAGCGAGCAGCCATG	0.532											OREG0021041	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	79	---	---	---	---	PASS	C	63713361	C	C	63713361	3	2	117	1	0	0	0	0	1	0	0	0	10125	1058	37	2	62	2	NAA40	11	63713361	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	5522906	63713361	71293155	170	42636										
KCNK7	10089	broad.mit.edu	37	chr11	65360632	65360632	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cggacctgcggcagctcagaGaaggtctccactgccagcag	13	14	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:65360632G>A	uc001oes.2	-	3	992	c.768C>T	c.(766-768)TTC>TTT	p.F256F	KCNK7_uc001oeq.2_3'UTR|KCNK7_uc001oer.2_3'UTR|KCNK7_uc001oeu.2_3'UTR	NM_033347	NP_203133	Q9Y2U2	KCNK7_HUMAN	potassium channel, subfamily K, member 7 isoform	256	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity				0						GCAGCTCAGAGAAGGTCTCCA	0.607													5	17	---	---	---	---	PASS	A	65360632	A	A	65360632	2	1	117	1	0	0	0	0	0	0	0	1	8071	933	33	2		2	KCNK7	11	65360632	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	1647271	65360632	69645884	171	42637										
KCTD21	283219	broad.mit.edu	37	chr11	77885471	77885471	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtcaatgaagcagttgccctGgctgtccctcttggtgggca	13	11	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:77885471G>A	uc001ozb.2	-	2	205	c.130C>T	c.(130-132)CAG>TAG	p.Q44*		NM_001029859	NP_001025030	Q4G0X4	KCD21_HUMAN	potassium channel tetramerisation domain	44	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.46e-24)			CAGTTGCCCTGGCTGTCCCTC	0.577													9	36	---	---	---	---	PASS	A	77885471	A	A	77885471	4	1	117	1	0	0	0	0	0	1	0	0	8109	1357	47	3	656	3	KCTD21	11	77885471	Nonsense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	12524839	77885471	57121045	172	42638										
NAALAD2	10003	broad.mit.edu	37	chr11	89891312	89891312	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttatgcatttgatttttttaGaatacactttcagacttgat	5	5	1	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:89891312G>A	uc001pdf.3	+	7	906	c.797_splice	c.e7-1	p.E266_splice	NAALAD2_uc009yvx.2_Splice_Site_p.E266_splice|NAALAD2_uc009yvy.2_Intron|NAALAD2_uc001pdd.2_Splice_Site_p.E266_splice|NAALAD2_uc001pde.2_Intron	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2						proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				GATTTTTTTAGAATACACTTT	0.219													31	104	---	---	---	---	PASS	A	89891312	A	A	89891312	5	1	117	1	0	0	0	0	0	0	1	0	10128	956	33	2	822	2	NAALAD2	11	89891312	Splice_Site	SNP	G	TCGA-56-6545-01A-11D-1817-08	12005841	89891312	45115204	173	42639										
FAT3	120114	broad.mit.edu	37	chr11	92085823	92085823	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tagtgttgcccaggtgactgCaacagacgcagatattggtt	12	8	0	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:92085823C>A	uc001pdj.3	+	1	562	c.545C>A	c.(544-546)GCA>GAA	p.A182E		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	182	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CAGGTGACTGCAACAGACGCA	0.408										TCGA Ovarian(4;0.039)			21	80	---	---	---	---	PASS	A	92085823	A	A	92085823	3	1	117	1	0	0	0	0	1	0	0	0	5691	710	25	3	547	3	FAT3	11	92085823	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	2194511	92085823	42920693	174	42640										
ALKBH8	91801	broad.mit.edu	37	chr11	107424703	107424703	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggcctcaactccttccactgCactatgggaaaccaaattaa	6	13	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:107424703C>G	uc010rvr.1	-	4	444	c.369G>C	c.(367-369)GTG>GTC	p.V123V	ALKBH8_uc001pjk.2_5'Flank|ALKBH8_uc010rvq.1_Intron|ALKBH8_uc009yxp.2_Silent_p.V123V|ALKBH8_uc001pjl.2_RNA	NM_138775	NP_620130	Q96BT7	ALKB8_HUMAN	alkB, alkylation repair homolog 8	123					response to DNA damage stimulus	cytosol|nucleus	metal ion binding|nucleotide binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|protein binding|RNA binding|tRNA (uracil) methyltransferase activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00512)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.53e-05)|Epithelial(105;0.00029)|all cancers(92;0.00518)		CCTTCCACTGCACTATGGGAA	0.368													11	41	---	---	---	---	PASS	G	107424703	G	G	107424703	2	3	117	1	0	0	0	0	0	0	0	1	533	724	25	4		4	ALKBH8	11	107424703	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	15338880	107424703	27581813	175	42641										
RDX	5962	broad.mit.edu	37	chr11	110134937	110134937	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgaactgtaaaggattctctTttttaacatcctgctgtgtt	7	7	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:110134937T>A	uc001pku.2	-	5	525	c.215A>T	c.(214-216)AAA>ATA	p.K72I	RDX_uc009yxx.1_RNA|RDX_uc009yxy.2_Missense_Mutation_p.K72I|RDX_uc009yxz.2_Intron|RDX_uc009yya.2_Missense_Mutation_p.K40I|RDX_uc010rwe.1_Intron	NM_002906	NP_002897	P35241	RADI_HUMAN	radixin	72	FERM.				actin filament capping	cleavage furrow|cytoskeleton|extrinsic to membrane|Golgi apparatus|nucleolus|plasma membrane	actin binding				0		all_cancers(61;7.18e-13)|all_epithelial(67;2.61e-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;1.13e-06)|BRCA - Breast invasive adenocarcinoma(274;9.75e-06)|all cancers(92;5.9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0248)		AGGATTCTCTTTTTTAACATC	0.299													9	28	---	---	---	---	PASS	A	110134937	A	A	110134937	3	1	117	1	0	0	0	0	1	0	0	0	13198	1841	64	5	1576	5	RDX	11	110134937	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	2710234	110134937	24871579	176	42642										
SCN3B	55800	broad.mit.edu	37	chr11	123516385	123516385	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttcatgcaggagatgcagcgCagcttcatggggttgccctg	14	10	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:123516385C>G	uc001pza.1	-	3	536	c.129G>C	c.(127-129)CTG>CTC	p.L43L	SCN3B_uc001pzb.1_Silent_p.L43L	NM_001040151	NP_001035241	Q9NY72	SCN3B_HUMAN	voltage-gated sodium channel beta-3 subunit	43	Ig-like C2-type.|Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	voltage-gated sodium channel activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0227)		AGATGCAGCGCAGCTTCATGG	0.577													24	94	---	---	---	---	PASS	G	123516385	G	G	123516385	2	3	117	1	0	0	0	0	0	0	0	1	13919	697	25	4		4	SCN3B	11	123516385	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	13381448	123516385	11490131	177	42643										
NTM	50863	broad.mit.edu	37	chr11	131781460	131781460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgttccttgtacccacaggaGtgcccgtgcgcagcggagat	13	12	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr11:131781460G>T	uc001qgp.2	+	1	749	c.85G>T	c.(85-87)GTG>TTG	p.V29L	NTM_uc001qgm.2_Missense_Mutation_p.V29L|NTM_uc010sch.1_Missense_Mutation_p.V20L|NTM_uc010sci.1_Missense_Mutation_p.V29L|NTM_uc010scj.1_5'UTR|NTM_uc001qgo.2_Missense_Mutation_p.V29L|NTM_uc001qgq.2_Missense_Mutation_p.V29L	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	29					cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						ACCCACAGGAGTGCCCGTGCG	0.617											OREG0021537	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	79	---	---	---	---	PASS	T	131781460	T	T	131781460	3	4	117	1	0	0	0	0	1	0	0	0	10699	1029	36	3	173	3	NTM	11	131781460	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	8265075	131781460	3225056	178	42644										
KCNA6	3742	broad.mit.edu	37	chr12	4919972	4919972	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tcctcactcagtactcttggGggctccttctttacagaccc	7	15	4	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:4919972G>T	uc001qng.2	+	1	1631	c.765G>T	c.(763-765)GGG>GGT	p.G255G		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	255						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						GTACTCTTGGGGGCTCCTTCT	0.557										HNSCC(72;0.22)			28	92	---	---	---	---	PASS	T	4919972	T	T	4919972	2	4	117	1	0	0	0	0	0	0	0	1	8007	1219	43	3		3	KCNA6	12	4919972	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08		4919972	128931923	179	42645										
VWF	7450	broad.mit.edu	37	chr12	6131150	6131150	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggccagccacctcacacactGgacagtcttcagggtcaacg	10	15	4	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:6131150G>T	uc001qnn.1	-	27	3840	c.3590C>A	c.(3589-3591)CCA>CAA	p.P1197Q	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1197					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)	CTCACACACTGGACAGTCTTC	0.512													47	167	---	---	---	---	PASS	T	6131150	T	T	6131150	3	4	117	1	0	0	0	0	1	0	0	0	17243	1348	47	3	4955	3	VWF	12	6131150	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1211178	6131150	127720745	180	42646										
EPS8	2059	broad.mit.edu	37	chr12	15813567	15813567	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cctcctggtcctttccttttAcctttcttgtttttcttcct	3	14	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:15813567A>G	uc009zif.2	-	10	1012	c.918T>C	c.(916-918)GGT>GGC	p.G306G	EPS8_uc001rdb.2_Silent_p.G306G|EPS8_uc009zig.2_Silent_p.G46G|EPS8_uc010shv.1_Silent_p.G46G	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	306					cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		CTTTCCTTTTACCTTTCTTGT	0.294													22	81	---	---	---	---	PASS	G	15813567	G	G	15813567	2	3	117	1	0	0	0	0	0	0	0	1	5194	378	14	5		5	EPS8	12	15813567	Silent	SNP	A	TCGA-56-6545-01A-11D-1817-08	9682417	15813567	118038328	181	42647										
PDE3A	5139	broad.mit.edu	37	chr12	20801620	20801620	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cttaactgtcttatttgcctAggcggtgctatataacgatc	8	9	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:20801620A>T	uc001reh.1	+	13	2588	c.2566_splice	c.e13-2	p.A856_splice		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A						lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	TTATTTGCCTAGGCGGTGCTA	0.348													19	82	---	---	---	---	PASS	T	20801620	T	T	20801620	5	4	117	1	0	0	0	0	0	0	1	0	11637	434	15	5	2614	5	PDE3A	12	20801620	Splice_Site	SNP	A	TCGA-56-6545-01A-11D-1817-08	4988053	20801620	113050275	182	42648										
CAPRIN2	65981	broad.mit.edu	37	chr12	30873820	30873820	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtagtaaccaagcaagcattTgagctacaagtaactggaga	10	7	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:30873820T>C	uc001rji.1	-	12	2824	c.2073A>G	c.(2071-2073)TCA>TCG	p.S691S	CAPRIN2_uc001rjf.1_Silent_p.S488S|CAPRIN2_uc001rjg.1_Silent_p.S358S|CAPRIN2_uc001rjh.1_Silent_p.S691S|CAPRIN2_uc001rjj.1_Silent_p.S358S|CAPRIN2_uc001rjk.3_Silent_p.S691S|CAPRIN2_uc001rjl.3_Intron|CAPRIN2_uc001rjm.1_Intron	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	691					negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					AGCAAGCATTTGAGCTACAAG	0.398													33	100	---	---	---	---	PASS	C	30873820	C	C	30873820	2	2	117	1	0	0	0	0	0	0	0	1	2636	1799	63	5		5	CAPRIN2	12	30873820	Silent	SNP	T	TCGA-56-6545-01A-11D-1817-08	10072200	30873820	102978075	183	42649										
ADAMTS20	80070	broad.mit.edu	37	chr12	43826519	43826519	+	Missense_Mutation	SNP	C	A	A													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	catcaacttgaacagtctgtCcttcatgaatggaatacttc							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:43826519C>A	uc010skx.1	-	20	2816	c.2816G>T	c.(2815-2817)GGA>GTA	p.G939V	ADAMTS20_uc001rno.1_Missense_Mutation_p.G93V|ADAMTS20_uc001rnp.1_Missense_Mutation_p.G93V	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	939	TSP type-1 3.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		AACAGTCTGTCCTTCATGAAT	0.423													30	130	---	---	---	---	PASS	A	43826519	A	A	43826519	3	1	117	1	0	0	0	0	1	0	0	0	266	855	30	2	2995	2	ADAMTS20	12	43826519	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	12952699	43826519	90025376	184	42650	801	2								
ADAMTS20	80070	broad.mit.edu	37	chr12	43826520	43826520	+	Nonsense_Mutation	SNP	C	A	A													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	atcaacttgaacagtctgtcCttcatgaatggaatacttca							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:43826520C>A	uc010skx.1	-	20	2815	c.2815G>T	c.(2815-2817)GGA>TGA	p.G939*	ADAMTS20_uc001rno.1_Nonsense_Mutation_p.G93*|ADAMTS20_uc001rnp.1_Nonsense_Mutation_p.G93*	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	939	TSP type-1 3.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		ACAGTCTGTCCTTCATGAATG	0.423													28	137	---	---	---	---	PASS	A	43826520	A	A	43826520	4	1	117	1	0	0	0	0	0	1	0	0	266	690	24	3	2996	3	ADAMTS20	12	43826520	Nonsense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1	43826520	90025375	185	42651	801	2								
TWF1	5756	broad.mit.edu	37	chr12	44196114	44196114	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aatgatctggagaccatgcaAtgaatatccattcatatccc	6	10	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:44196114A>G	uc001rob.2	-	3	387	c.359T>C	c.(358-360)ATT>ACT	p.I120T	TWF1_uc001rnz.2_5'UTR|TWF1_uc001roa.2_Missense_Mutation_p.I120T|TWF1_uc001roc.2_5'UTR	NM_002822	NP_002813	Q12792	TWF1_HUMAN	twinfilin 1	86	ADF-H 1.					actin cytoskeleton|cytoplasm	actin binding|protein tyrosine kinase activity			stomach(1)	1	all_cancers(12;0.00125)	Lung NSC(34;0.0804)|all_lung(34;0.181)		GBM - Glioblastoma multiforme(48;0.0474)		AGACCATGCAATGAATATCCA	0.318													26	76	---	---	---	---	PASS	G	44196114	G	G	44196114	3	3	117	1	0	0	0	0	1	0	0	0	16778	101	4	5	823	5	TWF1	12	44196114	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	369594	44196114	89655781	186	42652										
MLL2	8085	broad.mit.edu	37	chr12	49445464	49445464	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cggtggggacaagggagattCctcaggcggtggagacaggc	19	8	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:49445464C>A	uc001rta.3	-	10	2002	c.2002G>T	c.(2002-2004)GAA>TAA	p.E668*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	668	15 X 5 AA repeats of S/P-P-P-E/P-E/A.|Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AAGGGAGATTCCTCAGGCGGT	0.642			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			11	77	---	---	---	---	PASS	A	49445464	A	A	49445464	4	1	117	1	0	0	0	0	0	1	0	0	9621	864	30	2	14791	2	MLL2	12	49445464	Nonsense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	5249350	49445464	84406431	187	42653										
ARHGAP9	64333	broad.mit.edu	37	chr12	57866396	57866396	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tcagatgtctcctgctctggCcgaaacagggttggtccaaa	11	11	3	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:57866396C>A	uc001sod.2	-	21	2563	c.2370G>T	c.(2368-2370)CGG>CGT	p.R790R	ARHGAP9_uc001sny.2_RNA|ARHGAP9_uc001snz.2_Silent_p.R516R|ARHGAP9_uc001soa.2_Silent_p.R389R|ARHGAP9_uc001sob.2_3'UTR|ARHGAP9_uc001soc.2_Silent_p.R700R	NM_032496	NP_115885	Q9BRR9	RHG09_HUMAN	Rho GTPase activating protein 9 isoform 1	719	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			lung(1)	1			GBM - Glioblastoma multiforme(3;3.37e-34)			CCTGCTCTGGCCGAAACAGGG	0.557													16	57	---	---	---	---	PASS	A	57866396	A	A	57866396	2	1	117	1	0	0	0	0	0	0	0	1	889	726	26	3		3	ARHGAP9	12	57866396	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	8420932	57866396	75985499	188	42654										
AGAP2	116986	broad.mit.edu	37	chr12	58125404	58125404	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	actatccaagcttcgtttctCggagtcactaccccgacgat	7	14	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:58125404C>T	uc001spq.2	-	9	1975	c.1975G>A	c.(1975-1977)GAG>AAG	p.E659K	AGAP2_uc001spp.2_Missense_Mutation_p.E659K|AGAP2_uc001spr.2_Missense_Mutation_p.E323K	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	659					axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						CTTCGTTTCTCGGAGTCACTA	0.522													13	68	---	---	---	---	PASS	T	58125404	T	T	58125404	3	4	117	1	0	0	0	0	1	0	0	0	368	893	31	2	1647	2	AGAP2	12	58125404	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	259008	58125404	75726491	189	42655										
ZDHHC17	23390	broad.mit.edu	37	chr12	77202834	77202834	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtcttatagatactatatttCgaaaggtgctattgtggatc	9	5	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:77202834C>T	uc001syk.1	+	4	495	c.332C>T	c.(331-333)TCG>TTG	p.S111L	ZDHHC17_uc001syi.1_RNA|ZDHHC17_uc001syj.2_RNA	NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	111	ANK 1.|Cytoplasmic (Potential).				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						TACTATATTTCGAAAGGTGCT	0.289													6	24	---	---	---	---	PASS	T	77202834	T	T	77202834	3	4	117	1	0	0	0	0	1	0	0	0	17604	893	31	2	346	2	ZDHHC17	12	77202834	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	19077430	77202834	56649061	190	42656										
NAV3	89795	broad.mit.edu	37	chr12	78362453	78362453	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cctccatcggaagccagccaGgccaaaacccagcaagatat	8	15	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:78362453G>T	uc001syp.2	+	5	815	c.642G>T	c.(640-642)CAG>CAT	p.Q214H	NAV3_uc001syo.2_Missense_Mutation_p.Q214H	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	214						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AAGCCAGCCAGGCCAAAACCC	0.443										HNSCC(70;0.22)			9	32	---	---	---	---	PASS	T	78362453	T	T	78362453	3	4	117	1	0	0	0	0	1	0	0	0	10185	991	35	3	660	3	NAV3	12	78362453	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1159619	78362453	55489442	191	42657										
PPFIA2	8499	broad.mit.edu	37	chr12	81747098	81747098	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgttgagttctattccactcGtgatccccaagagatttcac	7	11	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:81747098G>T	uc001szo.1	-	17	1955	c.1794C>A	c.(1792-1794)CAC>CAA	p.H598Q	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	524										ovary(3)|lung(2)|pancreas(1)	6						TATTCCACTCGTGATCCCCAA	0.358													7	42	---	---	---	---	PASS	T	81747098	T	T	81747098	3	4	117	1	0	0	0	0	1	0	0	0	12310	1136	40	1	2043	1	PPFIA2	12	81747098	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	3384645	81747098	52104797	192	42658										
CEP290	80184	broad.mit.edu	37	chr12	88471624	88471624	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aaattatcagttagtgagttTtctctgtttttacttgtttt	6	4	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:88471624T>G	uc001tar.2	-	40	5780	c.5436A>C	c.(5434-5436)GAA>GAC	p.E1812D	CEP290_uc001taq.2_Missense_Mutation_p.E872D	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1812	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						TTAGTGAGTTTTCTCTGTTTT	0.254													4	15	---	---	---	---	PASS	G	88471624	G	G	88471624	3	3	117	1	0	0	0	0	1	0	0	0	3253	1838	64	5	2063	5	CEP290	12	88471624	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	6724526	88471624	45380271	193	42659										
SOCS2	8835	broad.mit.edu	37	chr12	93968918	93968918	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	actgcctttaccaacaagacTaaaagattacttggaagaat	6	8	0	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:93968918T>A	uc001tcw.1	+	3	1150	c.560T>A	c.(559-561)CTA>CAA	p.L187Q	SOCS2_uc001tcx.1_Missense_Mutation_p.L187Q|SOCS2_uc009zsu.2_3'UTR|SOCS2_uc001tcy.1_Missense_Mutation_p.L187Q|SOCS2_uc001tcz.2_3'UTR	NM_003877	NP_003868	O14508	SOCS2_HUMAN	suppressor of cytokine signaling-2	187	SOCS box.				anti-apoptosis|growth hormone receptor signaling pathway|JAK-STAT cascade|negative regulation of signal transduction|regulation of cell growth|response to estradiol stimulus	cytoplasm	growth hormone receptor binding|insulin-like growth factor receptor binding|JAK pathway signal transduction adaptor activity|prolactin receptor binding|SH3/SH2 adaptor activity			lung(1)	1						CCAACAAGACTAAAAGATTAC	0.403													8	44	---	---	---	---	PASS	A	93968918	A	A	93968918	3	1	117	1	0	0	0	0	1	0	0	0	14914	1522	53	5	566	5	SOCS2	12	93968918	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	5497294	93968918	39882977	194	42660										
NUP37	79023	broad.mit.edu	37	chr12	102471172	102471172	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctttgaaggtgttttttaagCaccagtgtgctgacattaat	9	6	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:102471172C>A	uc001tjc.2	-	6	715	c.650G>T	c.(649-651)TGC>TTC	p.C217F	NUP37_uc009zub.1_Missense_Mutation_p.C217F	NM_024057	NP_076962	Q8NFH4	NUP37_HUMAN	nucleoporin 37kDa	217					carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			ovary(1)	1						GTTTTTTAAGCACCAGTGTGC	0.393													14	112	---	---	---	---	PASS	A	102471172	A	A	102471172	3	1	117	1	0	0	0	0	1	0	0	0	10764	710	25	3	346	3	NUP37	12	102471172	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	8502254	102471172	31380723	195	42661										
STAB2	55576	broad.mit.edu	37	chr12	103984805	103984805	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctctgtaggggttcgagattGcaggtactcatgagaaaata	12	6	2	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:103984805G>A	uc001tjw.2	+	2	398	c.212G>A	c.(211-213)TGC>TAC	p.C71Y		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	71	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GTTCGAGATTGCAGGTACTCA	0.468													30	81	---	---	---	---	PASS	A	103984805	A	A	103984805	3	1	117	1	0	0	0	0	1	0	0	0	15237	1319	46	3	218	3	STAB2	12	103984805	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1513633	103984805	29867090	196	42662										
TBX5	6910	broad.mit.edu	37	chr12	114804147	114804147	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gctgaaaggactgtggttggAggccactttttgcctcacgg	14	9	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:114804147A>T	uc001tvo.2	-	8	1300	c.805T>A	c.(805-807)TCC>ACC	p.S269T	TBX5_uc001tvp.2_Missense_Mutation_p.S269T|TBX5_uc001tvq.2_Missense_Mutation_p.S219T|TBX5_uc010syv.1_Missense_Mutation_p.S269T	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	269					cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		CTGTGGTTGGAGGCCACTTTT	0.522													29	85	---	---	---	---	PASS	T	114804147	T	T	114804147	3	4	117	1	0	0	0	0	1	0	0	0	15658	304	11	5	826	5	TBX5	12	114804147	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	10819342	114804147	19047748	197	42663										
RPLP0	6175	broad.mit.edu	37	chr12	120637201	120637201	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cagcaccacagccttcccgcGaagggacatgcggatctgct	11	15	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:120637201G>A	uc001txp.2	-	3	379	c.142C>T	c.(142-144)CGC>TGC	p.R48C	RPLP0_uc001txq.2_Missense_Mutation_p.R48C|RPLP0_uc001txr.2_Missense_Mutation_p.R48C|uc001txs.1_5'Flank	NM_053275	NP_444505	P05388	RLA0_HUMAN	ribosomal protein P0	48					endocrine pancreas development|interspecies interaction between organisms|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleus	protein binding|RNA binding|structural constituent of ribosome			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GCCTTCCCGCGAAGGGACATG	0.517													11	68	---	---	---	---	PASS	A	120637201	A	A	120637201	3	1	117	1	0	0	0	0	1	0	0	0	13604	1058	37	2	835	2	RPLP0	12	120637201	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	5833054	120637201	13214694	198	42664										
CLIP1	6249	broad.mit.edu	37	chr12	122803851	122803851	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtctcagtcttctctttggtCatctgttccattatctgcat	6	11	6	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:122803851C>T	uc001ucg.1	-	17	3400	c.3294G>A	c.(3292-3294)ATG>ATA	p.M1098I	CLIP1_uc001uch.1_Missense_Mutation_p.M1087I|CLIP1_uc001uci.1_Missense_Mutation_p.M1052I|CLIP1_uc001ucj.1_Missense_Mutation_p.M673I	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	1098	Potential.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		TCTCTTTGGTCATCTGTTCCA	0.433													6	45	---	---	---	---	PASS	T	122803851	T	T	122803851	3	4	117	1	0	0	0	0	1	0	0	0	3532	826	29	2	1058	2	CLIP1	12	122803851	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	2166650	122803851	11048044	199	42665										
SCARB1	949	broad.mit.edu	37	chr12	125302175	125302175	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggggttcatgacgtcaaagaAgtagacggagagatagaagg	16	4	2	5			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:125302175A>T	uc001ugo.3	-	2	458	c.205T>A	c.(205-207)TTC>ATC	p.F69I	SCARB1_uc001ugn.3_Missense_Mutation_p.F69I|SCARB1_uc001ugm.3_Missense_Mutation_p.F69I|SCARB1_uc010tbd.1_Missense_Mutation_p.F69I|SCARB1_uc010tbe.1_Missense_Mutation_p.F28I|SCARB1_uc001ugp.3_Missense_Mutation_p.F69I	NM_005505	NP_005496	Q8WTV0	SCRB1_HUMAN	scavenger receptor class B, member 1 isoform 1	69	Extracellular (Potential).				adhesion to symbiont|cell adhesion|cholesterol efflux|cholesterol homeostasis|cholesterol import|detection of lipopolysaccharide|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|lipopolysaccharide transport|lipoprotein metabolic process|positive regulation of cholesterol storage|positive regulation of endothelial cell migration|positive regulation of nitric-oxide synthase activity|recognition of apoptotic cell|reverse cholesterol transport|triglyceride homeostasis|wound healing	caveola	1-phosphatidylinositol binding|apolipoprotein A-I binding|high-density lipoprotein particle receptor activity|lipopolysaccharide receptor activity|low-density lipoprotein particle binding|phosphatidylserine binding|transporter activity			kidney(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000116)|Epithelial(86;0.000415)|all cancers(50;0.00395)	Phosphatidylserine(DB00144)	ACGTCAAAGAAGTAGACGGAG	0.587													32	69	---	---	---	---	PASS	T	125302175	T	T	125302175	3	4	117	1	0	0	0	0	1	0	0	0	13881	72	3	5	1492	5	SCARB1	12	125302175	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	2498324	125302175	8549720	200	42666										
RIMBP2	23504	broad.mit.edu	37	chr12	130921587	130921587	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ccaggcctcatccatcctggCgtggggacccaggtgctcgt	13	15	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:130921587C>A	uc001uil.2	-	10	2019	c.1855G>T	c.(1855-1857)GCC>TCC	p.A619S	RIMBP2_uc001uim.2_Missense_Mutation_p.A527S|RIMBP2_uc001uin.1_Missense_Mutation_p.A278S	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	619	Pro-rich.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		TCCATCCTGGCGTGGGGACCC	0.667													3	36	---	---	---	---	PASS	A	130921587	A	A	130921587	3	1	117	1	0	0	0	0	1	0	0	0	13363	768	27	1	1343	1	RIMBP2	12	130921587	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	5619412	130921587	2930308	201	42667										
PXMP2	5827	broad.mit.edu	37	chr12	133272599	133272599	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtctttgcaccggccttcctCatgttgttcttcctcatcat	6	14	5	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr12:133272599C>T	uc001ukt.2	+	3	431	c.366C>T	c.(364-366)CTC>CTT	p.L122L	PGAM5_uc010tbr.1_Intron	NM_018663	NP_061133	Q9NR77	PXMP2_HUMAN	peroxisomal membrane protein 2, 22kDa	122	Helical; (Potential).					integral to membrane|peroxisomal membrane	protein binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.86e-08)|Epithelial(86;2.47e-07)|all cancers(50;6.85e-06)		CGGCCTTCCTCATGTTGTTCT	0.478													31	84	---	---	---	---	PASS	T	133272599	T	T	133272599	2	4	117	1	0	0	0	0	0	0	0	1	12850	813	29	2		2	PXMP2	12	133272599	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	2351012	133272599	579296	202	42668										
MTUS2	23281	broad.mit.edu	37	chr13	29608239	29608239	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	acccataacaacagccaccaGtctctacagttccgatcctt	4	16	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr13:29608239G>T	uc001usl.3	+	2	2511	c.2453G>T	c.(2452-2454)AGT>ATT	p.S818I		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	808	Sufficient for interaction with KIF2C.|Localization to the growing distal tip of microtubules.|Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						ACAGCCACCAGTCTCTACAGT	0.473													20	35	---	---	---	---	PASS	T	29608239	T	T	29608239	3	4	117	1	0	0	0	0	1	0	0	0	9966	1029	36	3	2459	3	MTUS2	13	29608239	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08		29608239	85561639	203	42669										
PCDH20	64881	broad.mit.edu	37	chr13	61986120	61986120	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cacaaagtataggagctttgCtgctctctgtccaaagagac	9	10	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr13:61986120C>A	uc001vid.3	-	2	2476	c.2112G>T	c.(2110-2112)CAG>CAT	p.Q704H	PCDH20_uc010thj.1_Missense_Mutation_p.Q704H	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	677	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		AGGAGCTTTGCTGCTCTCTGT	0.463													13	126	---	---	---	---	PASS	A	61986120	A	A	61986120	3	1	117	1	0	0	0	0	1	0	0	0	11515	796	28	3	747	3	PCDH20	13	61986120	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	32377881	61986120	53183758	204	42670										
MYCBP2	23077	broad.mit.edu	37	chr13	77740591	77740591	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cctgaattctgaacagttctGacaggaatcaacaaacgaag	8	9	3	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr13:77740591G>C	uc001vkf.2	-	42	6190	c.6099C>G	c.(6097-6099)GTC>GTG	p.V2033V	MYCBP2_uc010aev.2_Silent_p.V1437V	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2033					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GAACAGTTCTGACAGGAATCA	0.398													23	89	---	---	---	---	PASS	C	77740591	C	C	77740591	2	2	117	1	0	0	0	0	0	0	0	1	10018	1277	45	2		2	MYCBP2	13	77740591	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	15754471	77740591	37429287	205	42671										
ZNF219	51222	broad.mit.edu	37	chr14	21558846	21558846	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggggtggccggcggcccctaGcccggcggctgtggtgcact	19	14	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr14:21558846G>C	uc001vzr.2	-	5	2439	c.2018C>G	c.(2017-2019)GCT>GGT	p.A673G	ZNF219_uc001vzs.2_Missense_Mutation_p.A673G|ZNF219_uc010aik.1_Missense_Mutation_p.A673G	NM_016423	NP_057507	Q9P2Y4	ZN219_HUMAN	zinc finger protein 219	673					negative regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|histamine receptor activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)	1	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;9.86e-11)|Epithelial(56;1.27e-08)|all cancers(55;6.06e-08)	GBM - Glioblastoma multiforme(265;0.0191)		GCGGCCCCTAGCCCGGCGGCT	0.706													10	13	---	---	---	---	PASS	C	21558846	C	C	21558846	3	2	117	1	0	0	0	0	1	0	0	0	17770	971	34	4	154	4	ZNF219	14	21558846	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08		21558846	85790694	206	42672										
OR10G3	26533	broad.mit.edu	37	chr14	22038724	22038724	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gggcatggagccttgggtctGcccagacagtgattaaaata	13	8	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr14:22038724G>T	uc010tmb.1	-	1	152	c.152C>A	c.(151-153)GCA>GAA	p.A51E		NM_001005465	NP_001005465	Q8NGC4	O10G3_HUMAN	olfactory receptor, family 10, subfamily G,	51	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|central_nervous_system(1)	2	all_cancers(95;0.000987)			GBM - Glioblastoma multiforme(265;0.0139)		CCTTGGGTCTGCCCAGACAGT	0.468													16	26	---	---	---	---	PASS	T	22038724	T	T	22038724	3	4	117	1	0	0	0	0	1	0	0	0	10900	1319	46	3	792	3	OR10G3	14	22038724	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	479878	22038724	85310816	207	42673										
SLC7A8	23428	broad.mit.edu	37	chr14	23596484	23596484	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtcctcattagcctcctctgTccctgagccccgctccacct	6	20	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr14:23596484T>C	uc001wiz.2	-	11	2236	c.1510A>G	c.(1510-1512)ACA>GCA	p.T504A	SLC7A8_uc001wiw.2_Missense_Mutation_p.T121A|SLC7A8_uc001wix.2_Missense_Mutation_p.T301A|SLC7A8_uc010tnk.1_Missense_Mutation_p.T280A|SLC7A8_uc010tnl.1_Missense_Mutation_p.T399A|SLC7A8_uc001wiy.2_RNA|SLC7A8_uc010akj.2_Missense_Mutation_p.D286G	NM_012244	NP_036376	Q9UHI5	LAT2_HUMAN	solute carrier family 7 (cationic amino acid	504					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)	GCCTCCTCTGTCCCTGAGCCC	0.612													26	48	---	---	---	---	PASS	C	23596484	C	C	23596484	3	2	117	1	0	0	0	0	1	0	0	0	14704	1667	58	5	101	5	SLC7A8	14	23596484	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	1557760	23596484	83753056	208	42674										
MDGA2	161357	broad.mit.edu	37	chr14	47504448	47504448	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttgacattgcagttctattgTgtctccttctctggtgacca	8	10	3	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr14:47504448T>C	uc001wwj.3	-	8	1574	c.1378A>G	c.(1378-1380)ACA>GCA	p.T460A	MDGA2_uc001wwi.3_Missense_Mutation_p.T231A|MDGA2_uc010ani.2_Missense_Mutation_p.T20A	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	460	Ig-like 5.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						AGTTCTATTGTGTCTCCTTCT	0.388													50	54	---	---	---	---	PASS	C	47504448	C	C	47504448	3	2	117	1	0	0	0	0	1	0	0	0	9407	1696	59	5	1532	5	MDGA2	14	47504448	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	23907964	47504448	59845092	209	42675										
KIAA0831	22863	broad.mit.edu	37	chr14	55878324	55878324	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtggcggccgccgtacctctCccggtcgcggccgtcgaagt	15	16	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr14:55878324C>A	uc001xbx.1	-	1	253	c.217G>T	c.(217-219)GAG>TAG	p.E73*	FBXO34_uc001xbv.2_Intron	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	73	Potential.				autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0						CCGTACCTCTCCCGGTCGCGG	0.672													19	10	---	---	---	---	PASS	A	55878324	A	A	55878324	4	1	117	1	0	0	0	0	0	1	0	0	8195	864	30	2	1301	2	KIAA0831	14	55878324	Nonsense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	8373876	55878324	51471216	210	42676										
SPTB	6710	broad.mit.edu	37	chr14	65246624	65246624	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gctcccccagctcctcttttCgcacattcacttggtcctcc	5	19	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr14:65246624C>T	uc001xht.2	-	20	4346	c.4292G>A	c.(4291-4293)CGA>CAA	p.R1431Q	SPTB_uc001xhr.2_Missense_Mutation_p.R1431Q|SPTB_uc001xhs.2_Missense_Mutation_p.R1431Q|SPTB_uc001xhu.2_Missense_Mutation_p.R1431Q|SPTB_uc010aqi.2_Missense_Mutation_p.R92Q	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1431	Spectrin 11.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		CTCCTCTTTTCGCACATTCAC	0.483													52	63	---	---	---	---	PASS	T	65246624	T	T	65246624	3	4	117	1	0	0	0	0	1	0	0	0	15117	884	31	2	2827	2	SPTB	14	65246624	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	9368300	65246624	42102916	211	42677										
FLVCR2	55640	broad.mit.edu	37	chr14	76101273	76101273	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggggaagaagtgaatgctggAagaattggcctgacgatcgt	16	5	0	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr14:76101273A>G	uc001xrs.2	+	5	1417	c.1041A>G	c.(1039-1041)GGA>GGG	p.G347G	FLVCR2_uc010tvd.1_Silent_p.G142G	NM_017791	NP_060261	Q9UPI3	FLVC2_HUMAN	feline leukemia virus subgroup C cellular	347					transmembrane transport	integral to membrane|plasma membrane	heme binding|heme transporter activity				0				BRCA - Breast invasive adenocarcinoma(234;0.029)		TGAATGCTGGAAGAATTGGCC	0.527													38	49	---	---	---	---	PASS	G	76101273	G	G	76101273	2	3	117	1	0	0	0	0	0	0	0	1	5946	233	9	5		5	FLVCR2	14	76101273	Silent	SNP	A	TCGA-56-6545-01A-11D-1817-08	10854649	76101273	31248267	212	42678										
KIF26A	26153	broad.mit.edu	37	chr14	104643061	104643061	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctgcggaggggtgccaccacGctgggtgtgacaacgccagc	16	13	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr14:104643061G>T	uc001yos.3	+	12	3936	c.3936G>T	c.(3934-3936)ACG>ACT	p.T1312T		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	1312					blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		GTGCCACCACGCTGGGTGTGA	0.701													3	8	---	---	---	---	PASS	T	104643061	T	T	104643061	2	4	117	1	0	0	0	0	0	0	0	1	8294	1074	38	1		1	KIF26A	14	104643061	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	28541788	104643061	2706479	213	42679										
ATP10A	57194	broad.mit.edu	37	chr15	25971181	25971181	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tctgcctctccagcttgctgCgcttgtagcggggcccactg	12	15	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr15:25971181C>A	uc010ayu.2	-	5	1002	c.896G>T	c.(895-897)CGC>CTC	p.R299L		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	299	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CAGCTTGCTGCGCTTGTAGCG	0.547													14	38	---	---	---	---	PASS	A	25971181	A	A	25971181	3	1	117	1	0	0	0	0	1	0	0	0	1116	768	27	1	3671	1	ATP10A	15	25971181	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08		25971181	76560211	214	42680										
HERC2	8924	broad.mit.edu	37	chr15	28419575	28419575	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cctaaagggtctcttgcagtCtggaagaggacgggctcgtg	15	9	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr15:28419575C>G	uc001zbj.2	-	65	10129	c.10023G>C	c.(10021-10023)CAG>CAC	p.Q3341H		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3341					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CTCTTGCAGTCTGGAAGAGGA	0.493													13	21	---	---	---	---	PASS	G	28419575	G	G	28419575	3	3	117	1	0	0	0	0	1	0	0	0	7058	912	32	2	4597	2	HERC2	15	28419575	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	2448394	28419575	74111817	215	42681										
PIAS1	8554	broad.mit.edu	37	chr15	68468058	68468058	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cacttgggcaccgatgagatCaaaaaaggaagtacaggaag	12	7	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr15:68468058C>T	uc002aqz.2	+	10	1349	c.1253C>T	c.(1252-1254)TCA>TTA	p.S418L	PIAS1_uc002ara.2_Missense_Mutation_p.S26L	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	418					androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						CCGATGAGATCAAAAAAGGAA	0.413													3	21	---	---	---	---	PASS	T	68468058	T	T	68468058	3	4	117	1	0	0	0	0	1	0	0	0	11875	838	29	2	1291	2	PIAS1	15	68468058	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	40048483	68468058	34063334	216	42682										
ADAMTS7	11173	broad.mit.edu	37	chr15	79066580	79066580	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gggggtgccatcgaccacggCgtcccgcagcttctcggcaa	14	15	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr15:79066580C>G	uc002bej.3	-	13	2150	c.1939G>C	c.(1939-1941)GCC>CCC	p.A647P	ADAMTS7_uc010und.1_Intron|ADAMTS7_uc002bek.1_Missense_Mutation_p.A647P	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	647	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						TCGACCACGGCGTCCCGCAGC	0.622													10	8	---	---	---	---	PASS	G	79066580	G	G	79066580	3	3	117	1	0	0	0	0	1	0	0	0	271	768	27	4	3169	4	ADAMTS7	15	79066580	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	10598522	79066580	23464812	217	42683										
ZFAND6	54469	broad.mit.edu	37	chr15	80423536	80423536	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgttagcttcagtatcagacAcagcacagcagccatctgaa	8	11	3	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr15:80423536A>G	uc002bfe.1	+	6	690	c.379A>G	c.(379-381)ACA>GCA	p.T127A	ZFAND6_uc002bff.1_Missense_Mutation_p.T127A|ZFAND6_uc002bfg.1_Missense_Mutation_p.T115A|ZFAND6_uc002bfh.1_Missense_Mutation_p.T127A|ZFAND6_uc002bfi.1_Missense_Mutation_p.T127A	NM_019006	NP_061879	Q6FIF0	ZFAN6_HUMAN	zinc finger, AN1-type domain 6	127							DNA binding|zinc ion binding				0						AGTATCAGACACAGCACAGCA	0.398													10	94	---	---	---	---	PASS	G	80423536	G	G	80423536	3	3	117	1	0	0	0	0	1	0	0	0	17628	159	6	5	393	5	ZFAND6	15	80423536	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	1356956	80423536	22107856	218	42684										
DCI	1632	broad.mit.edu	37	chr16	2296982	2296982	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gttcttgaatttcatcacagCgacccctaatttaaagaatg	6	9	3	2	rs72766670	by1000genomes	TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:2296982C>T	uc002cpr.2	-	3	208	c.172G>A	c.(172-174)GCT>ACT	p.A58T	DCI_uc002cps.2_Missense_Mutation_p.A58T	NM_001919	NP_001910	P42126	ECI1_HUMAN	dodecenoyl-Coenzyme A delta isomerase precursor	58					fatty acid beta-oxidation	mitochondrial matrix	dodecenoyl-CoA delta-isomerase activity				0						TTCATCACAGCGACCCCTAAT	0.507													9	18	---	---	---	---	PASS	T	2296982	T	T	2296982	3	4	117	1	0	0	0	0	1	0	0	0	4289	768	27	1	756	1	DCI	16	2296982	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08		2296982	88057771	219	42685										
XYLT1	64131	broad.mit.edu	37	chr16	17352949	17352949	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggcagtgcttggacttagcaCgggacagggcagagatggcc	17	9	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:17352949C>A	uc002dfa.2	-	3	894	c.809G>T	c.(808-810)CGT>CTT	p.R270L		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	270	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						GGACTTAGCACGGGACAGGGC	0.602													15	64	---	---	---	---	PASS	A	17352949	A	A	17352949	3	1	117	1	0	0	0	0	1	0	0	0	17460	536	19	1	2110	1	XYLT1	16	17352949	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	15055967	17352949	73001804	220	42686										
SPNS1	83985	broad.mit.edu	37	chr16	28993679	28993679	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cccttccctcacccctagtcTcatctttggactcatcacct	3	19	5	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:28993679T>C	uc010vdi.1	+	9	1108	c.968T>C	c.(967-969)CTC>CCC	p.L323P	uc010vct.1_Intron|SPNS1_uc002drx.2_Missense_Mutation_p.L250P|SPNS1_uc002dsa.2_Missense_Mutation_p.L323P|SPNS1_uc002drz.2_Missense_Mutation_p.L271P|SPNS1_uc010byp.2_Missense_Mutation_p.L249P|SPNS1_uc010byq.1_Missense_Mutation_p.L255P|LAT_uc010vdj.1_5'Flank|LAT_uc002dsb.2_5'Flank|LAT_uc002dsd.2_5'Flank|LAT_uc002dsc.2_5'Flank	NM_001142448	NP_001135920	Q9H2V7	SPNS1_HUMAN	spinster homolog 1 isoform 1	323	Helical; (Potential).				lipid transport|transmembrane transport	integral to membrane|mitochondrial inner membrane	protein binding				0						ACCCCTAGTCTCATCTTTGGA	0.637													18	33	---	---	---	---	PASS	C	28993679	C	C	28993679	3	2	117	1	0	0	0	0	1	0	0	0	15073	1551	54	5	998	5	SPNS1	16	28993679	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	11640730	28993679	61361074	221	42687										
C16orf92	146378	broad.mit.edu	37	chr16	30035111	30035111	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtctccgcgcttcttagacaGacctgacttcttcgattatc	7	13	3	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:30035111G>T	uc002dvs.2	+	2	215	c.194G>T	c.(193-195)AGA>ATA	p.R65I	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|C16orf92_uc002dvr.2_Missense_Mutation_p.R43I	NM_001109660	NP_001103130	Q96LL3	CP092_HUMAN	hypothetical protein LOC146378 isoform 2	65						integral to membrane					0						TTCTTAGACAGACCTGACTTC	0.552													6	23	---	---	---	---	PASS	T	30035111	T	T	30035111	3	4	117	1	0	0	0	0	1	0	0	0	1845	942	33	2	214	2	C16orf92	16	30035111	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1041432	30035111	60319642	222	42688										
SEPHS2	22928	broad.mit.edu	37	chr16	30456053	30456053	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aaggacacttcatttctttgTtgttttgcaaggttctggga	10	6	3	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:30456053T>C	uc010ves.1	-	2	1172	c.996A>G	c.(994-996)CAA>CAG	p.Q332Q	SEPHS2_uc002dyh.1_Silent_p.Q275Q|SEPHS2_uc010vet.1_Silent_p.Q214Q	NM_012248	NP_036380	Q99611	SPS2_HUMAN	selenophosphate synthetase 2	332					selenocysteine biosynthetic process		ATP binding|selenide, water dikinase activity			breast(2)	2						CATTTCTTTGTTGTTTTGCAA	0.458													31	48	---	---	---	---	PASS	C	30456053	C	C	30456053	2	2	117	1	0	0	0	0	0	0	0	1	14055	1722	60	5		5	SEPHS2	16	30456053	Silent	SNP	T	TCGA-56-6545-01A-11D-1817-08	420942	30456053	59898700	223	42689										
NLRC5	84166	broad.mit.edu	37	chr16	57060632	57060632	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	actgtgtgggtgccaagcagGctgctgtagtgcaggtgttg	17	7	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:57060632G>T	uc002ekk.1	+	6	2002	c.1777G>T	c.(1777-1779)GCT>TCT	p.A593S	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.A398S|NLRC5_uc002ekl.2_Missense_Mutation_p.A398S|NLRC5_uc002ekm.2_Missense_Mutation_p.A398S|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	593					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)				TGCCAAGCAGGCTGCTGTAGT	0.617													15	76	---	---	---	---	PASS	T	57060632	T	T	57060632	3	4	117	1	0	0	0	0	1	0	0	0	10470	1203	42	3	1791	3	NLRC5	16	57060632	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	26604579	57060632	33294121	224	42690										
CDH11	1009	broad.mit.edu	37	chr16	65026887	65026887	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cactaacttggcgctatttcCataagtggggtcatctgcat	9	10	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:65026887C>T	uc002eoi.2	-	5	1008	c.574G>A	c.(574-576)GGA>AGA	p.G192R	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Missense_Mutation_p.G192R|CDH11_uc010vin.1_Missense_Mutation_p.G66R	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	192	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		GCGCTATTTCCATAAGTGGGG	0.408			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			21	115	---	---	---	---	PASS	T	65026887	T	T	65026887	3	4	117	1	0	0	0	0	1	0	0	0	3097	603	21	3	1852	3	CDH11	16	65026887	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	7966255	65026887	25327866	225	42691										
GFOD2	81577	broad.mit.edu	37	chr16	67709423	67709423	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cttctgcccatagaggtcggCtccccgggcgacgaggcgtc	14	15	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:67709423C>A	uc002eub.2	-	3	1088	c.793G>T	c.(793-795)GCC>TCC	p.A265S	GFOD2_uc002eua.1_RNA|GFOD2_uc002euc.2_Missense_Mutation_p.A160S	NM_030819	NP_110446	Q3B7J2	GFOD2_HUMAN	glucose-fructose oxidoreductase domain	265						proteinaceous extracellular matrix	binding|oxidoreductase activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0151)|Epithelial(162;0.0505)|all cancers(182;0.242)		TAGAGGTCGGCTCCCCGGGCG	0.622													12	71	---	---	---	---	PASS	A	67709423	A	A	67709423	3	1	117	1	0	0	0	0	1	0	0	0	6344	797	28	3	368	3	GFOD2	16	67709423	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	2682536	67709423	22645330	226	42692										
TMCO7	79613	broad.mit.edu	37	chr16	68936358	68936358	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tccattctctgtgtcagtttAgagttgccactcaaggtggc	10	10	3	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:68936358A>C	uc002ewi.3	+	9	1630	c.1618A>C	c.(1618-1620)AGA>CGA	p.R540R		NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	540						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		GTGTCAGTTTAGAGTTGCCAC	0.478													35	215	---	---	---	---	PASS	C	68936358	C	C	68936358	2	2	117	1	0	0	0	0	0	0	0	1	15998	412	15	5		5	TMCO7	16	68936358	Silent	SNP	A	TCGA-56-6545-01A-11D-1817-08	1226935	68936358	21418395	227	42693										
CALB2	794	broad.mit.edu	37	chr16	71392738	71392738	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ccccttacctgcacctggccGagctgacggcgtcccagttc	10	18	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:71392738G>A	uc002faa.3	+	1	113	c.43G>A	c.(43-45)GAG>AAG	p.E15K	CALB2_uc010vme.1_RNA|CALB2_uc002fac.3_Missense_Mutation_p.E15K	NM_001740	NP_001731	P22676	CALB2_HUMAN	calbindin 2 isoform 1	15							calcium ion binding				0		Ovarian(137;0.125)				GCACCTGGCCGAGCTGACGGC	0.662													8	26	---	---	---	---	PASS	A	71392738	A	A	71392738	3	1	117	1	0	0	0	0	1	0	0	0	2574	1059	37	2	45	2	CALB2	16	71392738	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	2456380	71392738	18962015	228	42694										
RFWD3	55159	broad.mit.edu	37	chr16	74670477	74670477	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	acgtaagtttttgcaagtccTaaaatgaaaaagattttata	6	4	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:74670477T>G	uc002fda.2	-	8	1293	c.1195_splice	c.e8-1	p.D399_splice	RFWD3_uc010cgq.2_Splice_Site_p.D399_splice	NM_018124	NP_060594	Q6PCD5	RFWD3_HUMAN	ring finger and WD repeat domain 3						DNA repair|mitotic cell cycle G1/S transition DNA damage checkpoint|response to ionizing radiation	nucleus	MDM2 binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|breast(1)	3						TTGCAAGTCCTAAAATGAAAA	0.383													13	45	---	---	---	---	PASS	G	74670477	G	G	74670477	5	3	117	1	0	0	0	0	0	0	1	0	13261	1536	53	5	1155	5	RFWD3	16	74670477	Splice_Site	SNP	T	TCGA-56-6545-01A-11D-1817-08	3277739	74670477	15684276	229	42695										
CNTNAP4	85445	broad.mit.edu	37	chr16	76572187	76572187	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aacaccaagcttgctgctttTtgtgagctccttttacaaag	7	10	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:76572187T>C	uc002feu.1	+	21	3555	c.3170T>C	c.(3169-3171)TTT>TCT	p.F1057S	CNTNAP4_uc002fev.1_Missense_Mutation_p.F921S|CNTNAP4_uc010chb.1_Missense_Mutation_p.F984S|CNTNAP4_uc002fex.1_Missense_Mutation_p.F1060S	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	1057	Extracellular (Potential).|Laminin G-like 4.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TTGCTGCTTTTTGTGAGCTCC	0.388													40	187	---	---	---	---	PASS	C	76572187	C	C	76572187	3	2	117	1	0	0	0	0	1	0	0	0	3649	1841	64	5	3257	5	CNTNAP4	16	76572187	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	1901710	76572187	13782566	230	42696										
IRF8	3394	broad.mit.edu	37	chr16	85948115	85948115	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggggtacaccacctacgacgCgcaccattcaggtacggggt	13	13	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:85948115C>A	uc002fjh.2	+	6	647	c.590C>A	c.(589-591)GCG>GAG	p.A197E	IRF8_uc010chp.2_Intron	NM_002163	NP_002154	Q02556	IRF8_HUMAN	interferon regulatory factor 8	197			A -> T (in a breast cancer sample; somatic mutation).		interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity	p.A197T(1)		breast(2)|ovary(1)	3		Prostate(104;0.0771)				ACCTACGACGCGCACCATTCA	0.602													35	39	---	---	---	---	PASS	A	85948115	A	A	85948115	3	1	117	1	0	0	0	0	1	0	0	0	7836	768	27	1	608	1	IRF8	16	85948115	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	9375928	85948115	4406638	231	42697										
ANKRD11	29123	broad.mit.edu	37	chr16	89352526	89352526	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtgggggagttggccactttCagcggcgtctcgcctttcct	14	12	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr16:89352526C>T	uc002fmx.1	-	8	1274	c.813G>A	c.(811-813)CTG>CTA	p.L271L	ANKRD11_uc002fmy.1_Silent_p.L271L|ANKRD11_uc002fnc.1_Silent_p.L271L|ANKRD11_uc002fnb.1_Silent_p.L228L	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	271	ANK 4.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TGGCCACTTTCAGCGGCGTCT	0.602													34	216	---	---	---	---	PASS	T	89352526	T	T	89352526	2	4	117	1	0	0	0	0	0	0	0	1	639	813	29	2		2	ANKRD11	16	89352526	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	3404411	89352526	1002227	232	42698										
SCARF1	8578	broad.mit.edu	37	chr17	1542992	1542992	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctgggcattcacaaggaactGagcagttgtttccatggaaa	11	8	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr17:1542992G>C	uc002fsz.1	-	7	1234	c.1184C>G	c.(1183-1185)TCA>TGA	p.S395*	SCARF1_uc002fsy.1_Nonsense_Mutation_p.S395*|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Intron	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	395	Extracellular (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		ACAAGGAACTGAGCAGTTGTT	0.612													2	9	---	---	---	---	PASS	C	1542992	C	C	1542992	4	2	117	1	0	0	0	0	0	1	0	0	13883	1294	45	2	1328	2	SCARF1	17	1542992	Nonsense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08		1542992	79652218	233	42699										
TP53	7157	broad.mit.edu	37	chr17	7578461	7578461	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtagatggccatggcgcggaCgcgggtgccgggcgggggtg	23	9	0	1	rs121912654		TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr17:7578461C>A	uc002gim.2	-	5	663	c.469G>T	c.(469-471)GTC>TTC	p.V157F	TP53_uc002gig.1_Missense_Mutation_p.V157F|TP53_uc002gih.2_Missense_Mutation_p.V157F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.V25F|TP53_uc010cng.1_Missense_Mutation_p.V25F|TP53_uc002gii.1_Missense_Mutation_p.V25F|TP53_uc010cnh.1_Missense_Mutation_p.V157F|TP53_uc010cni.1_Missense_Mutation_p.V157F|TP53_uc002gij.2_Missense_Mutation_p.V157F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.V64F|TP53_uc002gio.2_Missense_Mutation_p.V25F|TP53_uc010vug.1_Missense_Mutation_p.V118F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	157	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> I (in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).|V -> A (in sporadic cancers; somatic mutation).|V -> L (in sporadic cancers; somatic mutation).|V -> F (in sporadic cancers; somatic mutation).|V -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.V157F(139)|p.V157I(10)|p.V157D(8)|p.V157G(7)|p.0?(7)|p.V157L(6)|p.V157V(5)|p.V157fs*13(3)|p.R156_I162delRVRAMAI(2)|p.T155fs*23(2)|p.V157del(2)|p.V157fs*9(2)|p.P153fs*22(2)|p.V157fs*22(2)|p.V157fs*24(2)|p.V157_C176del20(1)|p.R156_A161delRVRAMA(1)|p.P151_V173del23(1)|p.V157A(1)|p.R156_R158delRVR(1)|p.R156fs*12(1)|p.R156fs*18(1)|p.R156_A161del(1)|p.V157_M160delVRAM(1)|p.D148fs*23(1)|p.V157_R158delVR(1)|p.S149fs*72(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.R156fs*20(1)|p.V157_I162delVRAMAI(1)|p.V157fs*23(1)|p.V157fs*21(1)|p.V157fs*25(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)		ATGGCGCGGACGCGGGTGCCG	0.617		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)			23	39	---	---	---	---	PASS	A	7578461	A	A	7578461	3	1	117	1	0	0	0	0	1	0	0	0	16378	536	19	1	829	1	TP53	17	7578461	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	6035469	7578461	73616749	234	42700										
MYH13	8735	broad.mit.edu	37	chr17	10235464	10235464	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cggtccacatcgatggagttGaggagcttctctgaggcatt	13	9	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr17:10235464G>T	uc002gmk.1	-	20	2340	c.2250C>A	c.(2248-2250)CTC>CTA	p.L750L		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	750	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						CGATGGAGTTGAGGAGCTTCT	0.552													50	52	---	---	---	---	PASS	T	10235464	T	T	10235464	2	4	117	1	0	0	0	0	0	0	0	1	10032	1277	45	2		2	MYH13	17	10235464	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	2657003	10235464	70959746	235	42701										
MYH4	4622	broad.mit.edu	37	chr17	10352316	10352316	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gaagcacatttggaattcacAgcttctacatgttcttctgc	7	10	4	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr17:10352316A>G	uc002gmn.2	-	31	4341	c.4230T>C	c.(4228-4230)GCT>GCC	p.A1410A	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1410	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TGGAATTCACAGCTTCTACAT	0.463													12	61	---	---	---	---	PASS	G	10352316	G	G	10352316	2	3	117	1	0	0	0	0	0	0	0	1	10037	175	7	5		5	MYH4	17	10352316	Silent	SNP	A	TCGA-56-6545-01A-11D-1817-08	116852	10352316	70842894	236	42702										
DNAH9	1770	broad.mit.edu	37	chr17	11535923	11535923	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggactttgaaaatgacgtctCtgaatttaaccagaaagtag	9	6	1	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr17:11535923C>A	uc002gne.2	+	8	1606	c.1538C>A	c.(1537-1539)TCT>TAT	p.S513Y		NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	513	Potential.|Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AATGACGTCTCTGAATTTAAC	0.393													22	83	---	---	---	---	PASS	A	11535923	A	A	11535923	3	1	117	1	0	0	0	0	1	0	0	0	4608	913	32	2	1568	2	DNAH9	17	11535923	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1183607	11535923	69659287	237	42703										
GSDMB	55876	broad.mit.edu	37	chr17	38068665	38068665	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tggaagccctggaaactgccTgaaattgttatttctttggg	11	7	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr17:38068665T>C	uc010cwj.2	-	2	326	c.321A>G	c.(319-321)TCA>TCG	p.S107S	GSDMB_uc010cwk.2_RNA|GSDMB_uc010cwl.2_RNA|GSDMB_uc010cwm.2_RNA|GSDMB_uc002htg.2_Silent_p.S107S|GSDMB_uc002hth.2_Silent_p.S107S|GSDMB_uc010wem.1_Silent_p.S107S	NM_001042471	NP_001035936	Q8TAX9	GSDMB_HUMAN	gasdermin B isoform 1	107						cytoplasm				breast(1)|pancreas(1)	2						GGAAACTGCCTGAAATTGTTA	0.428													28	69	---	---	---	---	PASS	C	38068665	C	C	38068665	2	2	117	1	0	0	0	0	0	0	0	1	6817	1567	55	5		5	GSDMB	17	38068665	Silent	SNP	T	TCGA-56-6545-01A-11D-1817-08	26532742	38068665	43126545	238	42704										
STAT3	6774	broad.mit.edu	37	chr17	40474455	40474455	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ccatgatgatttcagcaaatGacatgttgttcagctgctgc	9	9	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr17:40474455G>C	uc002hzl.1	-	21	2186	c.1946C>G	c.(1945-1947)TCA>TGA	p.S649*	STAT3_uc002hzk.1_Nonsense_Mutation_p.S649*|STAT3_uc002hzm.1_Nonsense_Mutation_p.S649*|STAT3_uc010wgh.1_Nonsense_Mutation_p.S551*|STAT3_uc002hzn.1_Nonsense_Mutation_p.S649*	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	649	SH2.				cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		TTCAGCAAATGACATGTTGTT	0.473									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				37	224	---	---	---	---	PASS	C	40474455	C	C	40474455	4	2	117	1	0	0	0	0	0	1	0	0	15265	1294	45	2	382	2	STAT3	17	40474455	Nonsense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	2405790	40474455	40720755	239	42705										
FAM134C	162427	broad.mit.edu	37	chr17	40761340	40761340	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggaaccccttcggcctcagcCatctccccgcggcagccaca	9	20	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr17:40761340C>T	uc002ial.2	-	1	106	c.3G>A	c.(1-3)ATG>ATA	p.M1I	TUBG1_uc002ian.2_5'Flank|FAM134C_uc010wgq.1_5'UTR|FAM134C_uc002iam.1_5'UTR|FAM134C_uc010cyk.1_Intron	NM_178126	NP_835227	Q86VR2	F134C_HUMAN	hypothetical protein LOC162427	1						integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.134)		CGGCCTCAGCCATCTCCCCGC	0.682													14	52	---	---	---	---	PASS	T	40761340	T	T	40761340	3	4	117	1	0	0	0	0	1	0	0	0	5447	594	21	3	1433	3	FAM134C	17	40761340	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	286885	40761340	40433870	240	42706										
RNF43	54894	broad.mit.edu	37	chr17	56435697	56435697	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aggctgatgtccgtgcagttGaccacagagtcactggaaga	13	9	1	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr17:56435697G>A	uc002iwf.2	-	8	3396	c.1440C>T	c.(1438-1440)GTC>GTT	p.V480V	RNF43_uc010wnv.1_Silent_p.V439V|RNF43_uc002iwh.3_Silent_p.V480V|RNF43_uc002iwg.3_Silent_p.V480V|RNF43_uc010dcw.2_Silent_p.V353V	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	480	Cytoplasmic (Potential).|Ser-rich.					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CCGTGCAGTTGACCACAGAGT	0.567													24	67	---	---	---	---	PASS	A	56435697	A	A	56435697	2	1	117	1	0	0	0	0	0	0	0	1	13495	1277	45	2		2	RNF43	17	56435697	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	15674357	56435697	24759513	241	42707										
KLHL14	57565	broad.mit.edu	37	chr18	30349716	30349716	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cggttcgcatgaaatccactGactggacccgctccaccagc	9	16	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr18:30349716G>T	uc002kxm.1	-	2	1227	c.839C>A	c.(838-840)TCA>TAA	p.S280*		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	280						cytosol|endoplasmic reticulum membrane				ovary(1)	1						GAAATCCACTGACTGGACCCG	0.647													9	63	---	---	---	---	PASS	T	30349716	T	T	30349716	4	4	117	1	0	0	0	0	0	1	0	0	8370	1294	45	2	1079	2	KLHL14	18	30349716	Nonsense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08		30349716	47727532	242	42708										
HAUS1	115106	broad.mit.edu	37	chr18	43703282	43703282	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	taggagcaactttcagccagAggcatggatgcttctctgtc	11	10	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr18:43703282A>T	uc002lbu.2	+	6	698	c.618A>T	c.(616-618)AGA>AGT	p.R206S	HAUS1_uc002lbv.2_Missense_Mutation_p.R130S	NM_138443	NP_612452	Q96CS2	HAUS1_HUMAN	coiled-coil domain containing 5	206					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle pole				ovary(1)	1						TTTCAGCCAGAGGCATGGATG	0.313													42	106	---	---	---	---	PASS	T	43703282	T	T	43703282	3	4	117	1	0	0	0	0	1	0	0	0	6965	301	11	5	640	5	HAUS1	18	43703282	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	13353566	43703282	34373966	243	42709										
DSEL	92126	broad.mit.edu	37	chr18	65179671	65179671	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cccagataattgaatcttgtCttcaggttatggtaatcagt	8	7	4	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr18:65179671C>A	uc002lke.1	-	2	3429	c.2205G>T	c.(2203-2205)AAG>AAT	p.K735N		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	725						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				TGAATCTTGTCTTCAGGTTAT	0.398													11	32	---	---	---	---	PASS	A	65179671	A	A	65179671	3	1	117	1	0	0	0	0	1	0	0	0	4775	912	32	2	1467	2	DSEL	18	65179671	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	21476389	65179671	12897577	244	42710										
TSHZ1	10194	broad.mit.edu	37	chr18	72998506	72998506	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ccctgagtgagtcagccaagGatcagaaagcagcgaacccg	12	12	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr18:72998506G>C	uc002lly.2	+	2	1572	c.1009G>C	c.(1009-1011)GAT>CAT	p.D337H		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	382						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GTCAGCCAAGGATCAGAAAGC	0.632													16	35	---	---	---	---	PASS	C	72998506	C	C	72998506	3	2	117	1	0	0	0	0	1	0	0	0	16620	1174	41	2	1011	2	TSHZ1	18	72998506	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	7818835	72998506	5078742	245	42711										
SALL3	27164	broad.mit.edu	37	chr18	76755006	76755006	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	catactaaggagcggccattCgtctgcgcgctctgcaggcg	13	13	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr18:76755006C>T	uc002lmt.2	+	2	3015	c.3015C>T	c.(3013-3015)TTC>TTT	p.F1005F	SALL3_uc010dra.2_Intron	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1005	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		AGCGGCCATTCGTCTGCGCGC	0.517													12	54	---	---	---	---	PASS	T	76755006	T	T	76755006	2	4	117	1	0	0	0	0	0	0	0	1	13812	883	31	2		2	SALL3	18	76755006	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	3756500	76755006	1322242	246	42712										
HCN2	610	broad.mit.edu	37	chr19	603849	603849	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tatcgtggagaagggcattgActccgaggtctacaagacgg	14	8	1	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:603849A>T	uc002lpe.2	+	2	991	c.938A>T	c.(937-939)GAC>GTC	p.D313V		NM_001194	NP_001185	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic	313	Extracellular (Potential).				cell-cell signaling|muscle contraction	voltage-gated potassium channel complex	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGGGCATTGACTCCGAGGTC	0.587													15	40	---	---	---	---	PASS	T	603849	T	T	603849	3	4	117	1	0	0	0	0	1	0	0	0	6997	275	10	5	944	5	HCN2	19	603849	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08		603849	58525134	247	42713										
POLRMT	5442	broad.mit.edu	37	chr19	619277	619277	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cctggcgtacgagatagtgaGaggcctcccacacgaactcc	11	14	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:619277G>A	uc002lpf.1	-	14	3142	c.3086C>T	c.(3085-3087)TCT>TTT	p.S1029F		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	1029	Mediates interaction with TEFM.				transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAGATAGTGAGAGGCCTCCCA	0.637													5	100	---	---	---	---	PASS	A	619277	A	A	619277	3	1	117	1	0	0	0	0	1	0	0	0	12238	942	33	2	638	2	POLRMT	19	619277	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	15428	619277	58509706	248	42714										
DOT1L	84444	broad.mit.edu	37	chr19	2185903	2185903	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agctcgctatggagaattacGttttaattgactatgacacc	8	8	0	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:2185903G>A	uc002lvb.3	+	3	211	c.175G>A	c.(175-177)GTT>ATT	p.V59I		NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	59						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGAGAATTACGTTTTAATTGA	0.488													18	424	---	---	---	---	PASS	A	2185903	A	A	2185903	3	1	117	1	0	0	0	0	1	0	0	0	4709	1145	40	1	185	1	DOT1L	19	2185903	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1566626	2185903	56943080	249	42715										
STAP2	55620	broad.mit.edu	37	chr19	4329999	4329999	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cgcgcctcctctttggccaaGacttcagacatcatgtatag	8	13	3	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:4329999G>A	uc002mab.2	-	5	511	c.414C>T	c.(412-414)GTC>GTT	p.V138V	STAP2_uc002mac.2_Silent_p.V138V|STAP2_uc002mad.2_Silent_p.V31V	NM_001013841	NP_001013863	Q9UGK3	STAP2_HUMAN	signal transducing adaptor family member 2	138	SH2.					cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTTGGCCAAGACTTCAGACA	0.647													6	32	---	---	---	---	PASS	A	4329999	A	A	4329999	2	1	117	1	0	0	0	0	0	0	0	1	15252	929	33	2		2	STAP2	19	4329999	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	2144096	4329999	54798984	250	42716										
EMR1	2015	broad.mit.edu	37	chr19	6921840	6921840	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tctgagacatataccatctgCagctgtaatcagatggcaaa	8	9	3	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:6921840C>A	uc002mfw.2	+	14	1775	c.1737C>A	c.(1735-1737)TGC>TGA	p.C579*	EMR1_uc010dvc.2_Nonsense_Mutation_p.C579*|EMR1_uc010dvb.2_Nonsense_Mutation_p.C527*|EMR1_uc010xji.1_Nonsense_Mutation_p.C438*|EMR1_uc010xjj.1_Nonsense_Mutation_p.C402*	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	579	GPS.|Extracellular (Potential).|Ser/Thr-rich.				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					ATACCATCTGCAGCTGTAATC	0.502													25	117	---	---	---	---	PASS	A	6921840	A	A	6921840	4	1	117	1	0	0	0	0	0	1	0	0	5104	718	25	3	1791	3	EMR1	19	6921840	Nonsense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	2591841	6921840	52207143	251	42717										
MUC16	94025	broad.mit.edu	37	chr19	9017356	9017356	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agctgctcaccattgacataGagactgttcctgtccagggt	10	11	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:9017356G>C	uc002mkp.2	-	26	38172	c.37968C>G	c.(37966-37968)CTC>CTG	p.L12656L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12658	SEA 4.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CATTGACATAGAGACTGTTCC	0.567													24	259	---	---	---	---	PASS	C	9017356	C	C	9017356	2	2	117	1	0	0	0	0	0	0	0	1	9973	929	33	2		2	MUC16	19	9017356	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	2095516	9017356	50111627	252	42718										
OR7D4	125958	broad.mit.edu	37	chr19	9324709	9324709	+	Missense_Mutation	SNP	G	T	T													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgaggcggtggagctgctctGggaagaatgggtcacagcag							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:9324709G>T	uc002mla.1	-	1	805	c.805C>A	c.(805-807)CAG>AAG	p.Q269K		NM_001005191	NP_001005191	Q8NG98	OR7D4_HUMAN	olfactory receptor, family 7, subfamily D,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GAGCTGCTCTGGGAAGAATGG	0.547													7	46	---	---	---	---	PASS	T	9324709	T	T	9324709	3	4	117	1	0	0	0	0	1	0	0	0	11220	1357	47	3	137	3	OR7D4	19	9324709	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	307353	9324709	49804274	253	42719	802	2								
OR7D4	125958	broad.mit.edu	37	chr19	9324710	9324710	+	Silent	SNP	G	T	T													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gaggcggtggagctgctctgGgaagaatgggtcacagcaga							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:9324710G>T	uc002mla.1	-	1	804	c.804C>A	c.(802-804)TCC>TCA	p.S268S		NM_001005191	NP_001005191	Q8NG98	OR7D4_HUMAN	olfactory receptor, family 7, subfamily D,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.S268F(1)		ovary(2)|central_nervous_system(1)|skin(1)	4						AGCTGCTCTGGGAAGAATGGG	0.547													7	44	---	---	---	---	PASS	T	9324710	T	T	9324710	2	4	117	1	0	0	0	0	0	0	0	1	11220	1219	43	3		3	OR7D4	19	9324710	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	1	9324710	49804273	254	42720	802	2								
PRKCSH	5589	broad.mit.edu	37	chr19	11547298	11547298	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	caggtcaacgatgactattgCgactgcaaagatggctctga	11	9	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:11547298C>T	uc002mrt.2	+	3	504	c.168C>T	c.(166-168)TGC>TGT	p.C56C	CCDC151_uc002mrs.2_5'Flank|CCDC151_uc010dxz.2_5'Flank|PRKCSH_uc002mru.2_Silent_p.C56C|PRKCSH_uc010xlz.1_Silent_p.C56C|PRKCSH_uc010dya.2_Missense_Mutation_p.A25V|PRKCSH_uc002mrv.1_Silent_p.C56C|PRKCSH_uc010dyb.2_Silent_p.C56C	NM_002743	NP_002734	P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H isoform 1	56					innate immune response|intracellular protein kinase cascade|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen	calcium ion binding|protein kinase C binding				0						ATGACTATTGCGACTGCAAAG	0.383													3	37	---	---	---	---	PASS	T	11547298	T	T	11547298	2	4	117	1	0	0	0	0	0	0	0	1	12516	776	27	1		1	PRKCSH	19	11547298	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	2222588	11547298	47581685	255	42721										
ZNF443	10224	broad.mit.edu	37	chr19	12541337	12541337	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctccagagtgaattctttcaTgtacctttaagttatcataa	5	8	3	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:12541337T>C	uc002mtu.2	-	4	1847	c.1649A>G	c.(1648-1650)CAT>CGT	p.H550R		NM_005815	NP_005806	Q9Y2A4	ZN443_HUMAN	zinc finger protein 443	550	C2H2-type 15.				induction of apoptosis|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						AATTCTTTCATGTACCTTTAA	0.393													23	77	---	---	---	---	PASS	C	12541337	C	C	12541337	3	2	117	1	0	0	0	0	1	0	0	0	17913	1464	51	5	370	5	ZNF443	19	12541337	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	994039	12541337	46587646	256	42722										
CALR	811	broad.mit.edu	37	chr19	13054428	13054428	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gaggagtttggcaacgagacGtggggcgtaacaaaggtgag	18	5	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:13054428G>A	uc002mvu.2	+	8	1118	c.1038G>A	c.(1036-1038)ACG>ACA	p.T346T	CALR_uc002mvv.2_5'Flank|RAD23A_uc002mvw.1_5'Flank|RAD23A_uc002mvx.1_5'Flank|RAD23A_uc002mvz.1_5'Flank|RAD23A_uc002mwa.1_5'Flank|RAD23A_uc002mvy.1_5'Flank|RAD23A_uc010xmw.1_5'Flank	NM_004343	NP_004334	P27797	CALR_HUMAN	calreticulin precursor	346	C-domain.				cell cycle arrest|cellular senescence|glucocorticoid receptor signaling pathway|negative regulation of neuron differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of steroid hormone receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of translation|peptide antigen assembly with MHC class I protein complex|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of phagocytosis|post-translational protein modification|protein export from nucleus|protein maturation by protein folding|protein N-linked glycosylation via asparagine|protein stabilization|regulation of apoptosis|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|extracellular space|MHC class I peptide loading complex|nucleus|perinuclear region of cytoplasm|polysome|proteinaceous extracellular matrix	androgen receptor binding|calcium ion binding|chaperone binding|complement component C1q binding|DNA binding|integrin binding|mRNA binding|protein binding involved in protein folding|sugar binding|ubiquitin protein ligase binding|unfolded protein binding|zinc ion binding			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCAACGAGACGTGGGGCGTAA	0.602													10	41	---	---	---	---	PASS	A	13054428	A	A	13054428	2	1	117	1	0	0	0	0	0	0	0	1	2592	1132	40	1		1	CALR	19	13054428	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	513091	13054428	46074555	257	42723										
EMR2	30817	broad.mit.edu	37	chr19	14883226	14883226	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctcatatcctgggctgcacaCgcagtcgtagctcccctctg	9	16	2	0	rs115448457		TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:14883226C>A	uc002mzp.1	-	5	739	c.283G>T	c.(283-285)GTG>TTG	p.V95L	EMR2_uc010xnw.1_Missense_Mutation_p.V95L|EMR2_uc002mzo.1_Missense_Mutation_p.V95L|EMR2_uc002mzq.1_Missense_Mutation_p.V95L|EMR2_uc002mzr.1_Missense_Mutation_p.V95L|EMR2_uc002mzs.1_Missense_Mutation_p.V95L|EMR2_uc002mzt.1_Missense_Mutation_p.V95L|EMR2_uc002mzu.1_Missense_Mutation_p.V95L|EMR2_uc010xnx.1_RNA|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	95	Extracellular (Potential).|EGF-like 2; calcium-binding.				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						GGGCTGCACACGCAGTCGTAG	0.512													29	77	---	---	---	---	PASS	A	14883226	A	A	14883226	3	1	117	1	0	0	0	0	1	0	0	0	5105	536	19	1	2256	1	EMR2	19	14883226	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1828798	14883226	44245757	258	42724										
ZNF14	7561	broad.mit.edu	37	chr19	19822987	19822987	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	accaactgaatgatttgccaCatcgtttacattcatatggt	6	9	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:19822987C>A	uc002nnk.1	-	4	1257	c.1103G>T	c.(1102-1104)TGT>TTT	p.C368F		NM_021030	NP_066358	P17017	ZNF14_HUMAN	zinc finger protein 14	368	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Renal(1328;0.0474)				TGATTTGCCACATCGTTTACA	0.363													5	75	---	---	---	---	PASS	A	19822987	A	A	19822987	3	1	117	1	0	0	0	0	1	0	0	0	17725	478	17	3	829	3	ZNF14	19	19822987	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	4939761	19822987	39305996	259	42725										
LGI4	163175	broad.mit.edu	37	chr19	35617286	35617286	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgtctgtgcgtctctcgaagCggccaccggtccagtggaag	14	12	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:35617286C>A	uc002nxx.2	-	8	1781	c.1187G>T	c.(1186-1188)CGC>CTC	p.R396L	LGI4_uc002nxy.1_Missense_Mutation_p.R224L|LGI4_uc002nxz.1_Missense_Mutation_p.R224L	NM_139284	NP_644813	Q8N135	LGI4_HUMAN	leucine-rich repeat LGI family, member 4	396	EAR 3.					extracellular region				pancreas(1)	1	all_lung(56;7.56e-09)|Lung NSC(56;1.1e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.54e-20)|OV - Ovarian serous cystadenocarcinoma(14;1.33e-18)|all cancers(14;4.27e-17)|LUSC - Lung squamous cell carcinoma(66;0.0849)			TCTCTCGAAGCGGCCACCGGT	0.677													5	23	---	---	---	---	PASS	A	35617286	A	A	35617286	3	1	117	1	0	0	0	0	1	0	0	0	8754	768	27	1	434	1	LGI4	19	35617286	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	15794299	35617286	23511697	260	42726										
ZNF565	147929	broad.mit.edu	37	chr19	36673999	36673999	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gcacagtgagttgggagccaCgaatgaaagccttgccacag	13	10	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:36673999C>G	uc002odn.2	-	5	977	c.869G>C	c.(868-870)CGT>CCT	p.R290P	ZNF565_uc010ees.2_Missense_Mutation_p.R225P|ZNF565_uc002odo.2_Missense_Mutation_p.R290P	NM_152477	NP_689690	Q8N9K5	ZN565_HUMAN	zinc finger protein 565	290	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.206)			TTGGGAGCCACGAATGAAAGC	0.502													8	93	---	---	---	---	PASS	G	36673999	G	G	36673999	3	3	117	1	0	0	0	0	1	0	0	0	17993	536	19	4	634	4	ZNF565	19	36673999	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1056713	36673999	22454984	261	42727										
ZNF829	374899	broad.mit.edu	37	chr19	37382620	37382620	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agctctgaataaaggcctttCtacattcttcacattcatag	5	10	5	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:37382620C>G	uc002ofa.1	-	6	1435	c.1073G>C	c.(1072-1074)AGA>ACA	p.R358T	ZNF345_uc002oez.2_Intron	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	358	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AAAGGCCTTTCTACATTCTTC	0.378													9	29	---	---	---	---	PASS	G	37382620	G	G	37382620	3	3	117	1	0	0	0	0	1	0	0	0	18179	913	32	2	229	2	ZNF829	19	37382620	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	708621	37382620	21746363	262	42728										
ZNF540	163255	broad.mit.edu	37	chr19	38090575	38090575	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tagacttctctcagaaggaaTgggagtgcctggacactacc	11	10	2	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:38090575T>C	uc002ogq.2	+	3	390	c.58T>C	c.(58-60)TGG>CGG	p.W20R	ZNF540_uc002ogu.2_Missense_Mutation_p.W20R|ZNF540_uc010efq.2_Missense_Mutation_p.W20R	NM_152606	NP_689819	Q8NDQ6	ZN540_HUMAN	zinc finger protein 540	20	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCAGAAGGAATGGGAGTGCCT	0.403													27	93	---	---	---	---	PASS	C	38090575	C	C	38090575	3	2	117	1	0	0	0	0	1	0	0	0	17972	1464	51	5	64	5	ZNF540	19	38090575	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	707955	38090575	21038408	263	42729										
PRX	57716	broad.mit.edu	37	chr19	40901692	40901692	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctggcaggtctagctccactGaaggcagagtgagagagggg	17	8	1	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:40901692G>A	uc002onr.2	-	7	2836	c.2567C>T	c.(2566-2568)TCA>TTA	p.S856L	PRX_uc002onq.2_Missense_Mutation_p.S717L|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	856					axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TAGCTCCACTGAAGGCAGAGT	0.632													15	57	---	---	---	---	PASS	A	40901692	A	A	40901692	3	1	117	1	0	0	0	0	1	0	0	0	12642	1294	45	2	1822	2	PRX	19	40901692	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	2811117	40901692	18227291	264	42730										
CYP2A13	1553	broad.mit.edu	37	chr19	41594427	41594427	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttgctggcctgcctgactgtGatggtcttgatgtcagtctg	13	9	3	3	rs71579360		TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:41594427G>A	uc002opt.2	+	1	60	c.51G>A	c.(49-51)GTG>GTA	p.V17V		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	17					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	GCCTGACTGTGATGGTCTTGA	0.577													18	41	---	---	---	---	PASS	A	41594427	A	A	41594427	2	1	117	1	0	0	0	0	0	0	0	1	4161	1277	45	2		2	CYP2A13	19	41594427	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	692735	41594427	17534556	265	42731										
ATP1A3	478	broad.mit.edu	37	chr19	42482868	42482868	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtagcaggatggtggagcagCggtccaggatgcgctcgggg	20	8	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:42482868C>G	uc002osg.2	-	12	1674	c.1520G>C	c.(1519-1521)CGC>CCC	p.R507P	ATP1A3_uc010xwf.1_Missense_Mutation_p.R518P|ATP1A3_uc010xwg.1_Missense_Mutation_p.R477P|ATP1A3_uc010xwh.1_Missense_Mutation_p.R520P|ATP1A3_uc002osh.2_Missense_Mutation_p.R507P	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	507	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						GGTGGAGCAGCGGTCCAGGAT	0.622													24	102	---	---	---	---	PASS	G	42482868	G	G	42482868	3	3	117	1	0	0	0	0	1	0	0	0	1130	768	27	4	1569	4	ATP1A3	19	42482868	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	888441	42482868	16646115	266	42732										
PSG3	5671	broad.mit.edu	37	chr19	43233400	43233400	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agagcttttgtcctgatagcTgaaacttcccattaattgtc	7	9	0	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:43233400T>A	uc002oue.2	-	5	1250	c.1118A>T	c.(1117-1119)CAG>CTG	p.Q373L	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Missense_Mutation_p.Q373L|PSG3_uc010eil.2_Missense_Mutation_p.Q395L	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	373	Ig-like C2-type 3.			Missing (in Ref. 9).	defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				TCCTGATAGCTGAAACTTCCC	0.458													72	262	---	---	---	---	PASS	A	43233400	A	A	43233400	3	1	117	1	0	0	0	0	1	0	0	0	12656	1580	55	5	176	5	PSG3	19	43233400	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	750532	43233400	15895583	267	42733										
ZNF229	7772	broad.mit.edu	37	chr19	44934665	44934665	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gagagctctttgtgtgaaaaGaaccttaattcttcatcttg	8	7	4	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:44934665G>C	uc002oze.1	-	6	725	c.291C>G	c.(289-291)TTC>TTG	p.F97L	ZNF229_uc010ejk.1_5'UTR|ZNF229_uc010ejl.1_Missense_Mutation_p.F91L	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	97	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				TGTGTGAAAAGAACCTTAATT	0.408													15	67	---	---	---	---	PASS	C	44934665	C	C	44934665	3	2	117	1	0	0	0	0	1	0	0	0	17779	933	33	2	2190	2	ZNF229	19	44934665	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1701265	44934665	14194318	268	42734										
SYMPK	8189	broad.mit.edu	37	chr19	46351134	46351134	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	atgaggccctccacaaacttGatggcgtgggtgcggatgcc	14	11	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:46351134G>C	uc002pdn.2	-	7	797	c.552C>G	c.(550-552)ATC>ATG	p.I184M	SYMPK_uc002pdo.1_Missense_Mutation_p.I184M|SYMPK_uc002pdp.1_Missense_Mutation_p.I184M|SYMPK_uc002pdq.1_Missense_Mutation_p.I184M	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	184					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		CCACAAACTTGATGGCGTGGG	0.597													12	37	---	---	---	---	PASS	C	46351134	C	C	46351134	3	2	117	1	0	0	0	0	1	0	0	0	15436	1280	45	2	3356	2	SYMPK	19	46351134	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1416469	46351134	12777849	269	42735										
VRK3	51231	broad.mit.edu	37	chr19	50482395	50482395	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggggtcatatggagacacacGcagatcctgcagcaaagctt	12	10	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:50482395G>A	uc002prg.2	-	14	1479	c.1381C>T	c.(1381-1383)CGT>TGT	p.R461C	VRK3_uc002prh.1_Missense_Mutation_p.R461C|VRK3_uc002pri.1_Missense_Mutation_p.R411C|VRK3_uc010ens.2_Missense_Mutation_p.R461C|VRK3_uc010ybl.1_Missense_Mutation_p.R411C|VRK3_uc010ybm.1_Missense_Mutation_p.R230C	NM_016440	NP_057524	Q8IV63	VRK3_HUMAN	vaccinia related kinase 3 isoform 1	461						nucleus	ATP binding|protein kinase activity			stomach(1)|skin(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00166)|OV - Ovarian serous cystadenocarcinoma(262;0.00652)		GGAGACACACGCAGATCCTGC	0.572													15	63	---	---	---	---	PASS	A	50482395	A	A	50482395	3	1	117	1	0	0	0	0	1	0	0	0	17218	1087	38	1	47	1	VRK3	19	50482395	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	4131261	50482395	8646588	270	42736										
SYT3	84258	broad.mit.edu	37	chr19	51132551	51132551	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	caggggagagggccactgacCgagccgccctccacgatgtc	14	15	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:51132551C>T	uc002pst.2	-	4	1915	c.1281G>A	c.(1279-1281)TCG>TCA	p.S427S	SYT3_uc002psv.2_Silent_p.S427S|SYT3_uc010ycd.1_Silent_p.S427S	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	427	Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		GGCCACTGACCGAGCCGCCCT	0.672													7	14	---	---	---	---	PASS	T	51132551	T	T	51132551	2	4	117	1	0	0	0	0	0	0	0	1	15472	666	23	1		1	SYT3	19	51132551	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	650156	51132551	7996432	271	42737										
PPP2R1A	5518	broad.mit.edu	37	chr19	52716078	52716078	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgttctccaacctggcctctGacgagcaggtgagttttgct	11	11	2	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:52716078G>C	uc002pyp.2	+	5	802	c.643G>C	c.(643-645)GAC>CAC	p.D215H	PPP2R1A_uc010ydk.1_Missense_Mutation_p.D160H|PPP2R1A_uc010epm.1_Missense_Mutation_p.D255H|PPP2R1A_uc002pyq.2_Missense_Mutation_p.D36H	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	215	PP2A subunit B binding.|SV40 small T antigen binding.|HEAT 6.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		CCTGGCCTCTGACGAGCAGGT	0.602			Mis		clear cell ovarian carcinoma								62	171	---	---	---	---	PASS	C	52716078	C	C	52716078	3	2	117	1	0	0	0	0	1	0	0	0	12382	1290	45	2	661	2	PPP2R1A	19	52716078	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1583527	52716078	6412905	272	42738										
NLRP13	126204	broad.mit.edu	37	chr19	56436388	56436388	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gttggatcttgcagctcttgGgtctgcacattctctgaaac	10	10	4	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr19:56436388G>C	uc010ygg.1	-	2	358	c.333C>G	c.(331-333)ACC>ACG	p.T111T		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	111							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)		GCAGCTCTTGGGTCTGCACAT	0.443													13	70	---	---	---	---	PASS	C	56436388	C	C	56436388	2	2	117	1	0	0	0	0	0	0	0	1	10475	1219	43	4		4	NLRP13	19	56436388	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	3720310	56436388	2692595	273	42739										
C20orf46	55321	broad.mit.edu	37	chr20	1161765	1161765	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aggtgggagcctaggcgggcGtagtacatctccagtcgttc	15	10	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr20:1161765G>T	uc010gaa.1	-	3	717	c.498C>A	c.(496-498)TAC>TAA	p.Y166*	C20orf46_uc002weq.1_Nonsense_Mutation_p.Y166*	NM_018354	NP_060824	Q9NUR3	CT046_HUMAN	hypothetical protein LOC55321	166						integral to membrane	protein binding			ovary(1)	1						CTAGGCGGGCGTAGTACATCT	0.622													9	28	---	---	---	---	PASS	T	1161765	T	T	1161765	4	4	117	1	0	0	0	0	0	1	0	0	2113	1140	40	1	276	1	C20orf46	20	1161765	Nonsense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08		1161765	61863755	274	42740										
TGM3	7053	broad.mit.edu	37	chr20	2308908	2308908	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aacaccactggcaaacagtgGaagaattccgtgaacagtca	9	10	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr20:2308908G>A	uc002wfx.3	+	9	1327	c.1230G>A	c.(1228-1230)TGG>TGA	p.W410*		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	410					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	GCAAACAGTGGAAGAATTCCG	0.542													24	50	---	---	---	---	PASS	A	2308908	A	A	2308908	4	1	117	1	0	0	0	0	0	1	0	0	15828	1183	41	2	1264	2	TGM3	20	2308908	Nonsense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1147143	2308908	60716612	275	42741										
SIGLEC1	6614	broad.mit.edu	37	chr20	3677795	3677795	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctcagtcaggatgcggcaggCgtaaagggcagcatcagttc	14	10	3	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr20:3677795C>T	uc002wja.2	-	9	2317	c.2317G>A	c.(2317-2319)GCC>ACC	p.A773T	SIGLEC1_uc002wiz.3_Missense_Mutation_p.A773T	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	773	Ig-like C2-type 7.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						ATGCGGCAGGCGTAAAGGGCA	0.632													25	41	---	---	---	---	PASS	T	3677795	T	T	3677795	3	4	117	1	0	0	0	0	1	0	0	0	14305	768	27	1	2864	1	SIGLEC1	20	3677795	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1368887	3677795	59347725	276	42742										
ZNF133	7692	broad.mit.edu	37	chr20	18296277	18296277	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gaagagcctcgccagacaccAgaaggcacactcgggggaga	14	12	0	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr20:18296277A>G	uc010gcq.2	+	5	1087	c.782A>G	c.(781-783)CAG>CGG	p.Q261R	ZNF133_uc010zrv.1_Missense_Mutation_p.Q264R|ZNF133_uc010zrw.1_Missense_Mutation_p.Q198R|ZNF133_uc010gcr.2_Missense_Mutation_p.Q261R|ZNF133_uc010zrx.1_Missense_Mutation_p.Q166R|ZNF133_uc002wql.3_Missense_Mutation_p.Q260R|ZNF133_uc010gcs.2_Missense_Mutation_p.Q260R|ZNF133_uc010zry.1_Missense_Mutation_p.Q166R|ZNF133_uc002wqm.2_Missense_Mutation_p.Q261R	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	261	C2H2-type 2.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2						GCCAGACACCAGAAGGCACAC	0.557													21	52	---	---	---	---	PASS	G	18296277	G	G	18296277	3	3	117	1	0	0	0	0	1	0	0	0	17720	188	7	5	789	5	ZNF133	20	18296277	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	14618482	18296277	44729243	277	42743										
TGIF2	60436	broad.mit.edu	37	chr20	35219627	35219627	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	acacttactctgctgaccagGgctgaggctggaagccccac	11	14	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr20:35219627G>A	uc002xfn.2	+	3	680	c.507G>A	c.(505-507)AGG>AGA	p.R169R	C20orf24_uc002xfo.2_Intron	NM_021809	NP_068581	Q9GZN2	TGIF2_HUMAN	TGFB-induced factor homeobox 2	169	Repressive function.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)|skin(1)	2	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				TGCTGACCAGGGCTGAGGCTG	0.632													35	48	---	---	---	---	PASS	A	35219627	A	A	35219627	2	1	117	1	0	0	0	0	0	0	0	1	15823	1223	43	3		3	TGIF2	20	35219627	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	16923350	35219627	27805893	278	42744										
C20orf118	140711	broad.mit.edu	37	chr20	35509121	35509121	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gcttctatggtactggcgagAcattcctcttctccttctcc	7	14	4	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr20:35509121A>T	uc002xgg.1	+	4	414	c.406A>T	c.(406-408)ACA>TCA	p.T136S		NM_080628	NP_542195	A0PJX2	CT118_HUMAN	hypothetical protein LOC140711	136	TLD.										0		Myeloproliferative disorder(115;0.00874)				TACTGGCGAGACATTCCTCTT	0.527													14	151	---	---	---	---	PASS	T	35509121	T	T	35509121	3	4	117	1	0	0	0	0	1	0	0	0	2084	275	10	5	420	5	C20orf118	20	35509121	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	289494	35509121	27516399	279	42745										
NCOA3	8202	broad.mit.edu	37	chr20	46281693	46281693	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agctccttttcccagcagcaGtttgcccaccaggggaatcc	9	15	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr20:46281693G>T	uc002xtk.2	+	22	4345	c.4140G>T	c.(4138-4140)CAG>CAT	p.Q1380H	NCOA3_uc002xtl.2_Missense_Mutation_p.Q1376H|NCOA3_uc002xtm.2_Missense_Mutation_p.Q1375H|NCOA3_uc002xtn.2_Missense_Mutation_p.Q1379H|NCOA3_uc010zyc.1_Missense_Mutation_p.Q1175H	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	1380					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						CCCAGCAGCAGTTTGCCCACC	0.468													15	180	---	---	---	---	PASS	T	46281693	T	T	46281693	3	4	117	1	0	0	0	0	1	0	0	0	10230	1020	36	3	4248	3	NCOA3	20	46281693	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	10772572	46281693	16743827	280	42746										
ZGPAT	84619	broad.mit.edu	37	chr20	62340457	62340457	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tacctgtaccccactcacaaGtctctgaagccgtgcccgtt	7	16	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr20:62340457G>A	uc002ygk.2	+	2	703	c.525G>A	c.(523-525)AAG>AAA	p.K175K	ARFRP1_uc002yga.2_5'Flank|ARFRP1_uc002ygc.2_5'Flank|ARFRP1_uc002ygh.3_5'Flank|ARFRP1_uc011abf.1_5'Flank|ARFRP1_uc011abg.1_5'Flank|ARFRP1_uc002yge.2_5'Flank|ARFRP1_uc002ygd.2_5'Flank|ARFRP1_uc002ygf.2_5'Flank|ARFRP1_uc002ygg.2_5'Flank|ARFRP1_uc011abh.1_5'Flank|ZGPAT_uc002ygi.2_Silent_p.K175K|ZGPAT_uc002ygj.2_Silent_p.K175K|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Silent_p.K175K|ZGPAT_uc002ygm.2_Silent_p.K175K|ZGPAT_uc002ygn.3_RNA	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	175	C3H1-type.				negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					CCACTCACAAGTCTCTGAAGC	0.572													9	157	---	---	---	---	PASS	A	62340457	A	A	62340457	2	1	117	1	0	0	0	0	0	0	0	1	17671	1020	36	3		3	ZGPAT	20	62340457	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	16058764	62340457	685063	281	42747										
TPTE	7179	broad.mit.edu	37	chr21	10944750	10944750	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aatcacaataatggcagtatCtaaaatgttaaataagtcag	6	5	3	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr21:10944750C>A	uc002yip.1	-	11	852	c.484G>T	c.(484-486)GAT>TAT	p.D162Y	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.D144Y|TPTE_uc002yir.1_Missense_Mutation_p.D124Y|TPTE_uc010gkv.1_Missense_Mutation_p.D24Y	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	162					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ATGGCAGTATCTAAAATGTTA	0.308													29	230	---	---	---	---	PASS	A	10944750	A	A	10944750	3	1	117	1	0	0	0	0	1	0	0	0	16427	913	32	2	1227	2	TPTE	21	10944750	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08		10944750	37185145	282	42748										
POTED	317754	broad.mit.edu	37	chr21	14982885	14982885	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttcccctgctgcagggggagCggcaagagcaacgtgggcgc	17	12	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr21:14982885C>A	uc002yjb.1	+	1	388	c.336C>A	c.(334-336)AGC>AGA	p.S112R		NM_174981	NP_778146	Q86YR6	POTED_HUMAN	pote protein	112						plasma membrane				ovary(3)|skin(3)	6						GCAGGGGGAGCGGCAAGAGCA	0.577													21	32	---	---	---	---	PASS	A	14982885	A	A	14982885	3	1	117	1	0	0	0	0	1	0	0	0	12263	767	27	1	338	1	POTED	21	14982885	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	4038135	14982885	33147010	283	42749										
TMPRSS15	5651	broad.mit.edu	37	chr21	19737458	19737458	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	atataagatcttgtattaccGtatgatccactggcagacaa	7	8	1	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr21:19737458G>T	uc002ykw.2	-	7	803	c.772C>A	c.(772-774)CGT>AGT	p.R258S		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	258	Extracellular (Potential).|CUB 1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TTGTATTACCGTATGATCCAC	0.343													19	53	---	---	---	---	PASS	T	19737458	T	T	19737458	3	4	117	1	0	0	0	0	1	0	0	0	16243	1159	40	1	2363	1	TMPRSS15	21	19737458	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	4754573	19737458	28392437	284	42750										
KRTAP10-5	386680	broad.mit.edu	37	chr21	45999820	45999820	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gaggagggtctgcagcaggaGgtggtgcagcaagccggctg	20	8	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr21:45999820G>A	uc002zfl.1	-	1	662	c.636C>T	c.(634-636)ACC>ACT	p.T212T	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198694	NP_941967	P60370	KR105_HUMAN	keratin associated protein 10-5	212	22 X 5 AA repeats of C-C-X(3).|18.					keratin filament					0						TGCAGCAGGAGGTGGTGCAGC	0.647													49	98	---	---	---	---	PASS	A	45999820	A	A	45999820	2	1	117	1	0	0	0	0	0	0	0	1	8512	987	35	3		3	KRTAP10-5	21	45999820	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	26262362	45999820	2130075	285	42751										
HPS4	89781	broad.mit.edu	37	chr22	26853846	26853846	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgacagtcatttcataaagcGcgggcagctgggcaaattcg	12	9	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr22:26853846G>A	uc003acl.2	-	13	2593	c.1934C>T	c.(1933-1935)GCG>GTG	p.A645V	HPS4_uc003aci.2_Missense_Mutation_p.A640V|HPS4_uc003acj.2_Missense_Mutation_p.A509V|HPS4_uc003ack.2_Missense_Mutation_p.A436V|HPS4_uc003acn.2_Missense_Mutation_p.A491V|HPS4_uc003ach.2_Missense_Mutation_p.A380V	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	645					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						TTCATAAAGCGCGGGCAGCTG	0.632									Hermansky-Pudlak_syndrome				4	54	---	---	---	---	PASS	A	26853846	A	A	26853846	3	1	117	1	0	0	0	0	1	0	0	0	7341	1087	38	1	200	1	HPS4	22	26853846	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08		26853846	24450720	286	42752										
SEC14L4	284904	broad.mit.edu	37	chr22	30890178	30890178	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tcagggtctcaggataatttGcttccaggatgctaaaaaac	9	8	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr22:30890178G>T	uc003aid.2	-	7	639	c.539C>A	c.(538-540)GCA>GAA	p.A180E	SEC14L4_uc011akz.1_Missense_Mutation_p.A180E|SEC14L4_uc003aie.2_Missense_Mutation_p.A165E|SEC14L4_uc003aif.2_Missense_Mutation_p.A126E	NM_174977	NP_777637	Q9UDX3	S14L4_HUMAN	SEC14p-like protein TAP3 isoform a	180	CRAL-TRIO.					integral to membrane|intracellular	lipid binding|transporter activity			skin(1)	1					Vitamin E(DB00163)	AGGATAATTTGCTTCCAGGAT	0.512													29	80	---	---	---	---	PASS	T	30890178	T	T	30890178	3	4	117	1	0	0	0	0	1	0	0	0	13984	1319	46	3	711	3	SEC14L4	22	30890178	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	4036332	30890178	20414388	287	42753										
EIF3L	51386	broad.mit.edu	37	chr22	38273833	38273833	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggtgacccacaagtctatgaAgaacttttcagttactcctg	8	10	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr22:38273833A>C	uc003auf.2	+	11	1317	c.1230A>C	c.(1228-1230)GAA>GAC	p.E410D	EIF3L_uc003aue.1_Missense_Mutation_p.E410D|EIF3L_uc011ann.1_Missense_Mutation_p.E362D|EIF3L_uc003aug.2_Missense_Mutation_p.E302D|EIF3L_uc003auh.2_Missense_Mutation_p.E143D	NM_016091	NP_057175	Q9Y262	EIF3L_HUMAN	eukaryotic translation initiation factor 3	410						eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1						AAGTCTATGAAGAACTTTTCA	0.507													25	58	---	---	---	---	PASS	C	38273833	C	C	38273833	3	2	117	1	0	0	0	0	1	0	0	0	5022	69	3	5	1272	5	EIF3L	22	38273833	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	7383655	38273833	13030733	288	42754										
ATF4	468	broad.mit.edu	37	chr22	39917932	39917932	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gatctctttgcccccctagtCcaggagactaataagcagcc	8	14	1	1	rs147705048		TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr22:39917932C>G	uc003axz.2	+	3	661	c.381C>G	c.(379-381)GTC>GTG	p.V127V	ATF4_uc011aol.1_Silent_p.V39V|ATF4_uc003aya.2_Silent_p.V127V	NM_182810	NP_877962	P18848	ATF4_HUMAN	activating transcription factor 4	127					cellular amino acid metabolic process|gluconeogenesis|positive regulation of transcription from RNA polymerase II promoter|response to endoplasmic reticulum stress|transcription from RNA polymerase II promoter	cytoplasm|plasma membrane	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Melanoma(58;0.04)					CCCCCCTAGTCCAGGAGACTA	0.522													53	201	---	---	---	---	PASS	G	39917932	G	G	39917932	2	3	117	1	0	0	0	0	0	0	0	1	1082	842	30	2		2	ATF4	22	39917932	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	1644099	39917932	11386634	289	42755										
PLXNB2	23654	broad.mit.edu	37	chr22	50719566	50719566	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cacgctctcctccaggccctCcagctgggacttgatcttct	8	17	3	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr22:50719566C>A	uc003bkv.3	-	23	3821	c.3715G>T	c.(3715-3717)GAG>TAG	p.E1239*	PLXNB2_uc003bkt.1_Nonsense_Mutation_p.E31*|PLXNB2_uc003bku.1_Nonsense_Mutation_p.E224*	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1239	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TCCAGGCCCTCCAGCTGGGAC	0.662													7	17	---	---	---	---	PASS	A	50719566	A	A	50719566	4	1	117	1	0	0	0	0	0	1	0	0	12124	864	30	2	1861	2	PLXNB2	22	50719566	Nonsense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	10801634	50719566	585000	290	42756										
ODF3B	440836	broad.mit.edu	37	chr22	50969224	50969224	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cgccagaatcgtgaactgggGggcccgggacttgtagaccc	15	12	0	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr22:50969224G>A	uc003bmh.2	-	6	735	c.598C>T	c.(598-600)CCC>TCC	p.P200S	TYMP_uc003bmb.3_5'Flank|TYMP_uc003bmc.3_5'Flank|TYMP_uc003bmd.3_5'Flank|TYMP_uc010hbd.2_5'Flank|TYMP_uc003bme.3_5'Flank|TYMP_uc003bmf.3_5'Flank|TYMP_uc011arz.1_5'Flank|ODF3B_uc003bmg.2_Missense_Mutation_p.P176L	NM_001014440	NP_001014440	A8MYP8	ODF3B_HUMAN	outer dense fiber of sperm tails 3B	200	DUF1309.										0						GTGAACTGGGGGGCCCGGGAC	0.692													3	19	---	---	---	---	PASS	A	50969224	A	A	50969224	3	1	117	1	0	0	0	0	1	0	0	0	10830	1232	43	3	171	3	ODF3B	22	50969224	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	249658	50969224	335342	291	42757										
ACR	49	broad.mit.edu	37	chr22	51178279	51178279	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gaaatgacattgccctcgtgGagatcacccctcccatttcg	8	14	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chr22:51178279G>A	uc003bnh.3	+	3	451	c.439G>A	c.(439-441)GAG>AAG	p.E147K	uc003bng.2_5'Flank|ACR_uc010hbh.1_Missense_Mutation_p.E147K	NM_001097	NP_001088	P10323	ACRO_HUMAN	acrosin precursor	147	Peptidase S1.				acrosome matrix dispersal|activation of adenylate cyclase activity	acrosomal matrix|protein complex	amidase activity|copper ion binding|DNA binding|drug binding|fucose binding|mannose binding|protein binding|serine-type endopeptidase activity|zinc ion binding				0		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;1.1e-06)|LUAD - Lung adenocarcinoma(64;0.247)		TGCCCTCGTGGAGATCACCCC	0.547													44	122	---	---	---	---	PASS	A	51178279	A	A	51178279	3	1	117	1	0	0	0	0	1	0	0	0	169	1175	41	2	449	2	ACR	22	51178279	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	209055	51178279	126287	292	42758										
P2RY8	286530	broad.mit.edu	37	chrX	1585301	1585301	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cggggatctgggccccatgcGccggcacagcacccacagag	14	16	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:1585301G>T	uc004cpz.2	-	2	399	c.151C>A	c.(151-153)CGC>AGC	p.R51S		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	51	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GGCCCCATGCGCCGGCACAGC	0.637			T	CRLF2	B-ALL|Downs associated ALL								12	48	---	---	---	---	PASS	T	1585301	T	T	1585301	3	4	117	1	0	0	0	0	1	0	0	0	11355	1087	38	1	932	1	P2RY8	23	1585301	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08		1585301	153685259	293	42759										
ASB9	140462	broad.mit.edu	37	chrX	15287980	15287980	+	Missense_Mutation	SNP	C	A	A													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gcttgctcccatccatgcccCcttgtttgccatccatgatg							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:15287980C>A	uc004cwl.2	-	1	264	c.17G>T	c.(16-18)GGG>GTG	p.G6V	ASB9_uc004cwk.2_Missense_Mutation_p.G6V|ASB9_uc004cwm.2_Missense_Mutation_p.G6V|ASB9_uc010ner.2_Missense_Mutation_p.G6V|ASB9_uc004cwn.2_Missense_Mutation_p.G6V	NM_001031739	NP_001026909	Q96DX5	ASB9_HUMAN	ankyrin repeat and SOCS box-containing 9 isoform	6					intracellular signal transduction						0	Hepatocellular(33;0.183)					ATCCATGCCCCCTTGTTTGCC	0.567													12	105	---	---	---	---	PASS	A	15287980	A	A	15287980	3	1	117	1	0	0	0	0	1	0	0	0	1030	623	22	3	924	3	ASB9	23	15287980	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	13702679	15287980	139982580	294	42760	803	2								
ASB9	140462	broad.mit.edu	37	chrX	15287981	15287981	+	Missense_Mutation	SNP	C	G	G													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cttgctcccatccatgccccCttgtttgccatccatgatgc							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:15287981C>G	uc004cwl.2	-	1	263	c.16G>C	c.(16-18)GGG>CGG	p.G6R	ASB9_uc004cwk.2_Missense_Mutation_p.G6R|ASB9_uc004cwm.2_Missense_Mutation_p.G6R|ASB9_uc010ner.2_Missense_Mutation_p.G6R|ASB9_uc004cwn.2_Missense_Mutation_p.G6R	NM_001031739	NP_001026909	Q96DX5	ASB9_HUMAN	ankyrin repeat and SOCS box-containing 9 isoform	6					intracellular signal transduction						0	Hepatocellular(33;0.183)					TCCATGCCCCCTTGTTTGCCA	0.567													11	104	---	---	---	---	PASS	G	15287981	G	G	15287981	3	3	117	1	0	0	0	0	1	0	0	0	1030	681	24	4	925	4	ASB9	23	15287981	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1	15287981	139982579	295	42761	803	2								
MAGEB2	4113	broad.mit.edu	37	chrX	30237316	30237316	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggagaaagcttctgatgcctCtcctgggtgtgatcttctta	11	9	4	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:30237316C>A	uc004dbz.2	+	2	722	c.619C>A	c.(619-621)CTC>ATC	p.L207I		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	207	MAGE.						protein binding			ovary(1)	1						TCTGATGCCTCTCCTGGGTGT	0.493													11	33	---	---	---	---	PASS	A	30237316	A	A	30237316	3	1	117	1	0	0	0	0	1	0	0	0	9176	913	32	2	621	2	MAGEB2	23	30237316	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	14949335	30237316	125033244	296	42762										
XK	7504	broad.mit.edu	37	chrX	37553744	37553744	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ctttcttgggctcagcccccCagctgaccctacagctgtac	8	17	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:37553744C>A	uc004ddq.2	+	2	533	c.451C>A	c.(451-453)CAG>AAG	p.Q151K		NM_021083	NP_066569	P51811	XK_HUMAN	membrane transport protein XK	151	Helical; (Potential).				amino acid transport	integral to membrane	protein binding|transporter activity				0		all_lung(315;0.175)				CTCAGCCCCCCAGCTGACCCT	0.522													2	5	---	---	---	---	PASS	A	37553744	A	A	37553744	3	1	117	1	0	0	0	0	1	0	0	0	17428	595	21	3	457	3	XK	23	37553744	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	7316428	37553744	117716816	297	42763										
CACNA1F	778	broad.mit.edu	37	chrX	49068374	49068374	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tcacctgaacagaagcagcaCagcctgtggaaaggtctgga	12	10	2	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:49068374C>A	uc004dnb.2	-	35	4179	c.4117G>T	c.(4117-4119)GTG>TTG	p.V1373L	CACNA1F_uc010nip.2_Missense_Mutation_p.V1362L	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	1373	Extracellular (Potential).|IV.				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	AGAAGCAGCACAGCCTGTGGA	0.552													18	77	---	---	---	---	PASS	A	49068374	A	A	49068374	3	1	117	1	0	0	0	0	1	0	0	0	2543	478	17	3	1872	3	CACNA1F	23	49068374	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	11514630	49068374	106202186	298	42764										
SHROOM4	57477	broad.mit.edu	37	chrX	50350935	50350935	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgctgcccccaggcccgggtGctttggggcgccaagctgat	15	14	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:50350935G>T	uc004dpe.2	-	6	3233	c.3207C>A	c.(3205-3207)AGC>AGA	p.S1069R	SHROOM4_uc004dpd.3_RNA	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	1069					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					AGGCCCGGGTGCTTTGGGGCG	0.597													24	63	---	---	---	---	PASS	T	50350935	T	T	50350935	3	4	117	1	0	0	0	0	1	0	0	0	14296	1310	46	3	1290	3	SHROOM4	23	50350935	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1282561	50350935	104919625	299	42765										
SHROOM4	57477	broad.mit.edu	37	chrX	50351168	50351168	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgcccatgaaaagctagtctTggaatgagccatttccctgc	9	11	1	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:50351168T>C	uc004dpe.2	-	6	3000	c.2974A>G	c.(2974-2976)AAG>GAG	p.K992E	SHROOM4_uc004dpd.3_RNA	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	992					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					AAGCTAGTCTTGGAATGAGCC	0.303													7	60	---	---	---	---	PASS	C	50351168	C	C	50351168	3	2	117	1	0	0	0	0	1	0	0	0	14296	1821	63	5	1523	5	SHROOM4	23	50351168	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	233	50351168	104919392	300	42766										
SPIN4	139886	broad.mit.edu	37	chrX	62570029	62570029	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtaaacagatggcttcgccaCcacttgatgtataaaaatgc	8	9	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:62570029C>T	uc004dvf.2	-	1	1190	c.670G>A	c.(670-672)GTG>ATG	p.V224M		NM_001012968	NP_001012986	Q56A73	SPIN4_HUMAN	spindlin family, member 4	224					gamete generation					ovary(1)|lung(1)	2						GGCTTCGCCACCACTTGATGT	0.438													35	115	---	---	---	---	PASS	T	62570029	T	T	62570029	3	4	117	1	0	0	0	0	1	0	0	0	15055	507	18	3	83	3	SPIN4	23	62570029	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	12218861	62570029	92700531	301	42767										
STARD8	9754	broad.mit.edu	37	chrX	67937293	67937293	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cccttgccaggccgtgccccCagctcgagtgaccggcccct	11	20	0	1	rs138134354	byFrequency	TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:67937293C>A	uc004dxa.2	+	5	669	c.297C>A	c.(295-297)CCC>CCA	p.P99P	STARD8_uc004dxb.2_Silent_p.P179P|STARD8_uc004dxc.3_Silent_p.P99P	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	99					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						GCCGTGCCCCCAGCTCGAGTG	0.652													12	41	---	---	---	---	PASS	A	67937293	A	A	67937293	2	1	117	1	0	0	0	0	0	0	0	1	15262	581	21	3		3	STARD8	23	67937293	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	5367264	67937293	87333267	302	42768										
PJA1	64219	broad.mit.edu	37	chrX	68383037	68383037	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cctgtattggactgatacccTcctgttggattgggccatac	10	11	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:68383037T>A	uc004dxh.2	-	2	331	c.45A>T	c.(43-45)GGA>GGT	p.G15G	PJA1_uc011mpi.1_Intron|PJA1_uc004dxg.2_Silent_p.G15G|PJA1_uc004dxi.2_Intron	NM_145119	NP_660095	Q8NG27	PJA1_HUMAN	praja 1 isoform a	15							zinc ion binding				0						ACTGATACCCTCCTGTTGGAT	0.542													37	112	---	---	---	---	PASS	A	68383037	A	A	68383037	2	1	117	1	0	0	0	0	0	0	0	1	11961	1538	54	5		5	PJA1	23	68383037	Silent	SNP	T	TCGA-56-6545-01A-11D-1817-08	445744	68383037	86887523	303	42769										
DLG3	1741	broad.mit.edu	37	chrX	69712107	69712107	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ccacacggagaaagtgagcaGatcggtgtgatccccagtaa	12	10	0	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:69712107G>A	uc004dyi.1	+	11	1999	c.1671G>A	c.(1669-1671)CAG>CAA	p.Q557Q	DLG3_uc004dyj.1_Silent_p.Q220Q|DLG3_uc011mpn.1_Silent_p.Q73Q	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	557	SH3.				axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					AAAGTGAGCAGATCGGTGTGA	0.488													16	53	---	---	---	---	PASS	A	69712107	A	A	69712107	2	1	117	1	0	0	0	0	0	0	0	1	4556	933	33	2		2	DLG3	23	69712107	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	1329070	69712107	85558453	304	42770										
MED12	9968	broad.mit.edu	37	chrX	70351454	70351454	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tggagctgcagctcatgatcAagcagacccctaacaatgtg	10	11	2	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:70351454A>C	uc004dyy.2	+	29	4301	c.4102A>C	c.(4102-4104)AAG>CAG	p.K1368Q	MED12_uc011mpq.1_Missense_Mutation_p.K1368Q|MED12_uc004dyz.2_Missense_Mutation_p.K1368Q|MED12_uc004dza.2_Missense_Mutation_p.K1215Q|MED12_uc010nla.2_5'UTR	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1368					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					GCTCATGATCAAGCAGACCCC	0.557													19	68	---	---	---	---	PASS	C	70351454	C	C	70351454	3	2	117	1	0	0	0	0	1	0	0	0	9428	131	5	5	4216	5	MED12	23	70351454	Missense_Mutation	SNP	A	TCGA-56-6545-01A-11D-1817-08	639347	70351454	84919106	305	42771										
PHKA1	5255	broad.mit.edu	37	chrX	71802349	71802349	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	atctgccagcatggtgaggaCaaggatggcttcaaccagca	12	10	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:71802349C>G	uc004eax.3	-	31	3698	c.3397G>C	c.(3397-3399)GTC>CTC	p.V1133L	PHKA1_uc004eay.3_Missense_Mutation_p.V1120L|PHKA1_uc011mqi.1_Missense_Mutation_p.V1061L|PHKA1_uc010nll.2_Missense_Mutation_p.V165L	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	1133					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					ATGGTGAGGACAAGGATGGCT	0.448													10	83	---	---	---	---	PASS	G	71802349	G	G	71802349	3	3	117	1	0	0	0	0	1	0	0	0	11843	478	17	4	282	4	PHKA1	23	71802349	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1450895	71802349	83468211	306	42772										
RLIM	51132	broad.mit.edu	37	chrX	73811707	73811707	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtttctgaactttcaccaccGgaactggaactaggactgga	10	10	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:73811707G>A	uc004ebu.2	-	5	1733	c.1443C>T	c.(1441-1443)TCC>TCT	p.S481S	RLIM_uc004ebw.2_Silent_p.S481S	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	481	Ser-rich.|Poly-Ser.				random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TTTCACCAccggaactggaac	0.284													20	51	---	---	---	---	PASS	A	73811707	A	A	73811707	2	1	117	1	0	0	0	0	0	0	0	1	13390	1103	39	1		1	RLIM	23	73811707	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	2009358	73811707	81458853	307	42773										
ZDHHC15	158866	broad.mit.edu	37	chrX	74644568	74644568	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gacaaaaaacatgcaggccaCaaagagaagaaaaaggacat	9	7	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:74644568C>A	uc004ecg.2	-	8	1133	c.655G>T	c.(655-657)GTG>TTG	p.V219L	ZDHHC15_uc004ech.2_Missense_Mutation_p.V210L|ZDHHC15_uc011mqo.1_RNA	NM_144969	NP_659406	Q96MV8	ZDH15_HUMAN	zinc finger, DHHC-type containing 15 isoform 1	219	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(2)	2						ATGCAGGCCACAAAGAGAAGA	0.388													7	22	---	---	---	---	PASS	A	74644568	A	A	74644568	3	1	117	1	0	0	0	0	1	0	0	0	17602	478	17	3	374	3	ZDHHC15	23	74644568	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	832861	74644568	80625992	308	42774										
P2RY10	27334	broad.mit.edu	37	chrX	78216935	78216935	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttggatccaattctttattaCtttatggcttcagagtttcg	7	7	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:78216935C>T	uc004ede.2	+	4	1287	c.918C>T	c.(916-918)TAC>TAT	p.Y306Y	P2RY10_uc004edf.2_Silent_p.Y306Y	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	306	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						TTCTTTATTACTTTATGGCTT	0.488													64	207	---	---	---	---	PASS	T	78216935	T	T	78216935	2	4	117	1	0	0	0	0	0	0	0	1	11347	576	20	3		3	P2RY10	23	78216935	Silent	SNP	C	TCGA-56-6545-01A-11D-1817-08	3572367	78216935	77053625	309	42775										
ITM2A	9452	broad.mit.edu	37	chrX	78618572	78618572	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gcaggaagttaggctctcctCcacgaagggaatttgcagga	13	9	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:78618572C>A	uc004edh.2	-	3	643	c.308G>T	c.(307-309)GGA>GTA	p.G103V	ITM2A_uc011mqr.1_Missense_Mutation_p.G59V	NM_004867	NP_004858	O43736	ITM2A_HUMAN	integral membrane protein 2A	103						integral to membrane	protein binding			lung(2)	2						AGGCTCTCCTCCACGAAGGGA	0.443													12	40	---	---	---	---	PASS	A	78618572	A	A	78618572	3	1	117	1	0	0	0	0	1	0	0	0	7912	855	30	2	499	2	ITM2A	23	78618572	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	401637	78618572	76651988	310	42776										
DACH2	117154	broad.mit.edu	37	chrX	86067949	86067949	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	attgcccgctggattccctgGaccattcatttttgctgata	8	11	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:86067949G>T	uc004eew.2	+	8	1501	c.1331G>T	c.(1330-1332)GGA>GTA	p.G444V	DACH2_uc004eex.2_Missense_Mutation_p.G431V|DACH2_uc010nmq.2_Missense_Mutation_p.G310V|DACH2_uc011mra.1_Missense_Mutation_p.G277V|DACH2_uc010nmr.2_Missense_Mutation_p.G225V|DACH2_uc004eey.2_Missense_Mutation_p.G127V|DACH2_uc004eez.2_Missense_Mutation_p.G127V	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	444					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						GGATTCCCTGGACCATTCATT	0.423													9	26	---	---	---	---	PASS	T	86067949	T	T	86067949	3	4	117	1	0	0	0	0	1	0	0	0	4221	1174	41	2	1361	2	DACH2	23	86067949	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	7449377	86067949	69202611	311	42777										
PCDH11X	27328	broad.mit.edu	37	chrX	91133468	91133468	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gagaaatgtgatgttacagaCcttggtttacacagagtgtt	11	5	0	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:91133468C>G	uc004efk.1	+	2	3074	c.2229C>G	c.(2227-2229)GAC>GAG	p.D743E	PCDH11X_uc004efl.1_Missense_Mutation_p.D743E|PCDH11X_uc004efo.1_Missense_Mutation_p.D743E|PCDH11X_uc010nmv.1_Missense_Mutation_p.D743E|PCDH11X_uc004efm.1_Missense_Mutation_p.D743E|PCDH11X_uc004efn.1_Missense_Mutation_p.D743E|PCDH11X_uc004efh.1_Missense_Mutation_p.D743E|PCDH11X_uc004efj.1_Missense_Mutation_p.D743E	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	743	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ATGTTACAGACCTTGGTTTAC	0.413													13	96	---	---	---	---	PASS	G	91133468	G	G	91133468	3	3	117	1	0	0	0	0	1	0	0	0	11508	506	18	4	2235	4	PCDH11X	23	91133468	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	5065519	91133468	64137092	312	42778										
SRPX2	27286	broad.mit.edu	37	chrX	99924320	99924320	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agccacctcaggaggtggggCgcatccgggagcaacagctg	16	12	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:99924320C>A	uc004egb.2	+	10	1651	c.1171C>A	c.(1171-1173)CGC>AGC	p.R391S		NM_014467	NP_055282	O60687	SRPX2_HUMAN	sushi-repeat-containing protein, X-linked 2	391					angiogenesis|cell motility|cell-cell adhesion|positive regulation of cell migration involved in sprouting angiogenesis|regulation of phosphorylation	cytoplasm|extracellular region	receptor binding			ovary(2)	2						GGAGGTGGGGCGCATCCGGGA	0.612													10	37	---	---	---	---	PASS	A	99924320	A	A	99924320	3	1	117	1	0	0	0	0	1	0	0	0	15164	768	27	1	1205	1	SRPX2	23	99924320	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	8790852	99924320	55346240	313	42779										
TCEAL6	158931	broad.mit.edu	37	chrX	101396002	101396002	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ggggcacataatctccagccGggcgcttttcggcggcccgc	14	15	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:101396002G>A	uc004eiq.2	-	3	463	c.302C>T	c.(301-303)CCG>CTG	p.P101L		NM_001006938	NP_001006939	Q6IPX3	TCAL6_HUMAN	transcription elongation factor A (SII)-like 6	101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						ATCTCCAGCCGGGCGCTTTTC	0.612													40	151	---	---	---	---	PASS	A	101396002	A	A	101396002	3	1	117	1	0	0	0	0	1	0	0	0	15672	1116	39	1	253	1	TCEAL6	23	101396002	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1471682	101396002	53874558	314	42780										
PLP1	5354	broad.mit.edu	37	chrX	103042767	103042767	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cctgaccgttgtgtggctccTggtgtttgcctgctctgctg	13	12	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:103042767T>C	uc010nov.2	+	5	774	c.494T>C	c.(493-495)CTG>CCG	p.L165P	RAB9B_uc004eli.1_Intron|PLP1_uc004elk.2_Missense_Mutation_p.L165P|PLP1_uc004elj.2_Missense_Mutation_p.L130P|PLP1_uc011msf.1_Missense_Mutation_p.L110P|PLP1_uc010nox.2_Missense_Mutation_p.L119P	NM_001128834	NP_001122306	P60201	MYPR_HUMAN	proteolipid protein 1 isoform 1	165	Helical; Name=3; (Probable).		Missing (in HLD1).		cell death|synaptic transmission	integral to membrane				ovary(1)	1						GTGTGGCTCCTGGTGTTTGCC	0.507													7	191	---	---	---	---	PASS	C	103042767	C	C	103042767	3	2	117	1	0	0	0	0	1	0	0	0	12104	1580	55	5	508	5	PLP1	23	103042767	Missense_Mutation	SNP	T	TCGA-56-6545-01A-11D-1817-08	1646765	103042767	52227793	315	42781										
NRK	203447	broad.mit.edu	37	chrX	105139491	105139491	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aaaggtcagaatgtgctgctGactcataatgctgaagtaaa	10	6	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:105139491G>T	uc004emd.2	+	7	858	c.555G>T	c.(553-555)CTG>CTT	p.L185L	NRK_uc010npc.1_5'UTR	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	185	Protein kinase.						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						ATGTGCTGCTGACTCATAATG	0.363										HNSCC(51;0.14)			28	90	---	---	---	---	PASS	T	105139491	T	T	105139491	2	4	117	1	0	0	0	0	0	0	0	1	10655	1277	45	2		2	NRK	23	105139491	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	2096724	105139491	50131069	316	42782										
NRK	203447	broad.mit.edu	37	chrX	105169003	105169003	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgaagagacctgcgtctcagGactttgaatatctacaggag	11	8	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:105169003G>T	uc004emd.2	+	19	3595	c.3292G>T	c.(3292-3294)GAC>TAC	p.D1098Y	NRK_uc010npc.1_Missense_Mutation_p.D766Y	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1098							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						TGCGTCTCAGGACTTTGAATA	0.453										HNSCC(51;0.14)			26	85	---	---	---	---	PASS	T	105169003	T	T	105169003	3	4	117	1	0	0	0	0	1	0	0	0	10655	1174	41	2	3366	2	NRK	23	105169003	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	29512	105169003	50101557	317	42783										
CXorf57	55086	broad.mit.edu	37	chrX	105868450	105868450	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agactattctgttaaaaagaGttatccattcagaatacagc	6	7	2	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:105868450G>T	uc004emi.3	+	3	1068	c.917G>T	c.(916-918)AGT>ATT	p.S306I	CXorf57_uc004emj.3_Missense_Mutation_p.S306I|CXorf57_uc004emh.2_Missense_Mutation_p.S306I	NM_018015	NP_060485	Q6NSI4	CX057_HUMAN	hypothetical protein LOC55086	306										ovary(1)|lung(1)|breast(1)	3						GTTAAAAAGAGTTATCCATTC	0.393													33	112	---	---	---	---	PASS	T	105868450	T	T	105868450	3	4	117	1	0	0	0	0	1	0	0	0	4113	1029	36	3	927	3	CXorf57	23	105868450	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	699447	105868450	49402110	318	42784										
TBC1D8B	54885	broad.mit.edu	37	chrX	106046203	106046203	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tacggggaggaaggcggaggGgggctcacaggtaagctgtg	21	6	1	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:106046203G>A	uc004emo.2	+	1	285	c.120G>A	c.(118-120)GGG>GGA	p.G40G	TBC1D8B_uc004emm.2_Silent_p.G40G|TBC1D8B_uc004emn.2_Silent_p.G40G	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	40						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						AAGGCGGAGGGGGGCTCACAG	0.567													17	42	---	---	---	---	PASS	A	106046203	A	A	106046203	2	1	117	1	0	0	0	0	0	0	0	1	15623	1219	43	3		3	TBC1D8B	23	106046203	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	177753	106046203	49224357	319	42785										
TBC1D8B	54885	broad.mit.edu	37	chrX	106097468	106097468	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tgaagatatacatagtatgcGctgtcgaaataggttgtatg	11	4	0	2			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:106097468G>A	uc004emo.2	+	14	2459	c.2294G>A	c.(2293-2295)CGC>CAC	p.R765H	MORC4_uc004emp.3_Intron	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	765						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						CATAGTATGCGCTGTCGAAAT	0.348													17	62	---	---	---	---	PASS	A	106097468	A	A	106097468	3	1	117	1	0	0	0	0	1	0	0	0	15623	1087	38	1	2414	1	TBC1D8B	23	106097468	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	51265	106097468	49173092	320	42786										
PGRMC1	10857	broad.mit.edu	37	chrX	118370482	118370482	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gtgcgcggggaccagccggcGgccagcggcgacagcgacga	19	14	0	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:118370482G>T	uc004erb.2	+	1	272	c.156G>T	c.(154-156)GCG>GCT	p.A52A	PGRMC1_uc011mts.1_Silent_p.A52A	NM_006667	NP_006658	O00264	PGRC1_HUMAN	progesterone receptor membrane component 1	52	Cytoplasmic (Potential).					cell surface|endoplasmic reticulum membrane|integral to membrane|microsome|nucleolus	heme binding|protein binding|receptor activity|steroid binding				0						ACCAGCCGGCGGCCAGCGGCG	0.701													7	30	---	---	---	---	PASS	T	118370482	T	T	118370482	2	4	117	1	0	0	0	0	0	0	0	1	11806	1103	39	1		1	PGRMC1	23	118370482	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	12273014	118370482	36900078	321	42787										
UBE2A	7319	broad.mit.edu	37	chrX	118708716	118708716	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cgcctcatgcgggacttcaaGaggtaaaccgaggggacggc	15	11	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:118708716G>T	uc004erl.2	+	1	218	c.42G>T	c.(40-42)AAG>AAT	p.K14N	UBE2A_uc004erm.2_Missense_Mutation_p.K14N|UBE2A_uc004ern.2_RNA|UBE2A_uc004ero.2_5'Flank	NM_003336	NP_003327	P49459	UBE2A_HUMAN	ubiquitin-conjugating enzyme E2A isoform 1	14					histone H2A ubiquitination|positive regulation of cell proliferation|postreplication repair|protein autoubiquitination|protein K11-linked ubiquitination|protein K48-linked ubiquitination|response to UV|ubiquitin-dependent protein catabolic process		ATP binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity				0						GGGACTTCAAGAGGTAAACCG	0.766								Direct_reversal_of_damage|Rad6_pathway					3	16	---	---	---	---	PASS	T	118708716	T	T	118708716	3	4	117	1	0	0	0	0	1	0	0	0	16841	933	33	2	44	2	UBE2A	23	118708716	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	338234	118708716	36561844	322	42788										
ZBTB33	10009	broad.mit.edu	37	chrX	119387961	119387961	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ttgctatttcagatgttgcaCctagtgctagcaataactcg	8	9	1	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:119387961C>A	uc004esn.1	+	2	919	c.691C>A	c.(691-693)CCT>ACT	p.P231T	ZBTB33_uc010nqm.1_Missense_Mutation_p.P231T	NM_006777	NP_006768	Q86T24	KAISO_HUMAN	kaiso	231					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleolus|plasma membrane	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						AGATGTTGCACCTAGTGCTAG	0.468													8	83	---	---	---	---	PASS	A	119387961	A	A	119387961	3	1	117	1	0	0	0	0	1	0	0	0	17533	507	18	3	693	3	ZBTB33	23	119387961	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	679245	119387961	35882599	323	42789										
CUL4B	8450	broad.mit.edu	37	chrX	119660631	119660631	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	acattctatgcaatatagttGtactggtttggattttcttt	7	5	2	0			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:119660631G>T	uc004esw.2	-	22	3164	c.2727C>A	c.(2725-2727)TAC>TAA	p.Y909*	CUL4B_uc010nqq.2_Nonsense_Mutation_p.Y610*|CUL4B_uc004esv.2_Nonsense_Mutation_p.Y891*	NM_003588	NP_003579	Q13620	CUL4B_HUMAN	cullin 4B isoform 1	909					cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3						CAATATAGTTGTACTGGTTTG	0.363													15	95	---	---	---	---	PASS	T	119660631	T	T	119660631	4	4	117	1	0	0	0	0	0	1	0	0	4058	1372	48	3	18	3	CUL4B	23	119660631	Nonsense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	272670	119660631	35609929	324	42790										
THOC2	57187	broad.mit.edu	37	chrX	122772854	122772854	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	tacaggtgttattaagttatCatacttctgtatttgtgaca	7	5	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:122772854C>G	uc004etu.2	-	17	1803	c.1771G>C	c.(1771-1773)GAT>CAT	p.D591H	THOC2_uc011muh.1_Missense_Mutation_p.D516H	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	591					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						ATTAAGTTATCATACTTCTGT	0.343													71	207	---	---	---	---	PASS	G	122772854	G	G	122772854	3	3	117	1	0	0	0	0	1	0	0	0	15862	826	29	2	3098	2	THOC2	23	122772854	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	3112223	122772854	32497706	325	42791										
STAG2	10735	broad.mit.edu	37	chrX	123164847	123164847	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	aaaagggcccagcagaaaagGgcaaaggtggaaatggagga	16	5	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:123164847G>T	uc004etz.3	+	4	499	c.160G>T	c.(160-162)GGC>TGC	p.G54C	STAG2_uc004eua.2_Missense_Mutation_p.G54C|STAG2_uc004eub.2_Missense_Mutation_p.G54C|STAG2_uc004euc.2_Missense_Mutation_p.G54C|STAG2_uc004eud.2_Missense_Mutation_p.G54C|STAG2_uc004eue.2_Missense_Mutation_p.G54C	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	54					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						AGCAGAAAAGGGCAAAGGTGG	0.413													10	63	---	---	---	---	PASS	T	123164847	T	T	123164847	3	4	117	1	0	0	0	0	1	0	0	0	15242	1232	43	3	170	3	STAG2	23	123164847	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	391993	123164847	32105713	326	42792										
STAG2	10735	broad.mit.edu	37	chrX	123227995	123227995	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	acaccatggatatagatttgGtaagaaacttaatgatttct	7	5	1	3			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:123227995G>C	uc004etz.3	+	31	3933	c.3594_splice	c.e31+1	p.L1198_splice	STAG2_uc004eua.2_Splice_Site_p.L1235_splice|STAG2_uc004eub.2_Splice_Site_p.L1198_splice|STAG2_uc004euc.2_Splice_Site_p.L1235_splice|STAG2_uc004eud.2_Splice_Site_p.L1198_splice|STAG2_uc004eue.2_Splice_Site_p.L1198_splice	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b						cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						TATAGATTTGGTAAGAAACTT	0.328													43	141	---	---	---	---	PASS	C	123227995	C	C	123227995	5	2	117	1	0	0	0	0	0	0	1	0	15242	1275	44	4	3828	4	STAG2	23	123227995	Splice_Site	SNP	G	TCGA-56-6545-01A-11D-1817-08	63148	123227995	32042565	327	42793										
ODZ1	10178	broad.mit.edu	37	chrX	123518143	123518143	+	Missense_Mutation	SNP	C	A	A													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	ccattttatactgaatttctCctaatctggtgatgcggtct							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:123518143C>A	uc004euj.2	-	29	6681	c.6617G>T	c.(6616-6618)GGA>GTA	p.G2206V	ODZ1_uc011muj.1_Missense_Mutation_p.G2212V|ODZ1_uc010nqy.2_Missense_Mutation_p.G2213V	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2206	Extracellular (Potential).|YD 19.				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CTGAATTTCTCCTAATCTGGT	0.423													27	93	---	---	---	---	PASS	A	123518143	A	A	123518143	3	1	117	1	0	0	0	0	1	0	0	0	10834	855	30	2	1572	2	ODZ1	23	123518143	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	290148	123518143	31752417	328	42794	804	2								
ODZ1	10178	broad.mit.edu	37	chrX	123518144	123518144	+	Missense_Mutation	SNP	C	T	T													0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	cattttatactgaatttctcCtaatctggtgatgcggtctc							TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:123518144C>T	uc004euj.2	-	29	6680	c.6616G>A	c.(6616-6618)GGA>AGA	p.G2206R	ODZ1_uc011muj.1_Missense_Mutation_p.G2212R|ODZ1_uc010nqy.2_Missense_Mutation_p.G2213R	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2206	Extracellular (Potential).|YD 19.				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TGAATTTCTCCTAATCTGGTG	0.423													25	93	---	---	---	---	PASS	T	123518144	T	T	123518144	3	4	117	1	0	0	0	0	1	0	0	0	10834	690	24	3	1573	3	ODZ1	23	123518144	Missense_Mutation	SNP	C	TCGA-56-6545-01A-11D-1817-08	1	123518144	31752416	329	42795	804	2								
MAGEA12	4111	broad.mit.edu	37	chrX	151900625	151900625	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	gaggactgtggggaggacttGgtgactcggcagcaggcacc	18	9	0	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:151900625G>A	uc010ntp.2	-	3	530	c.176C>T	c.(175-177)CCA>CTA	p.P59L	MAGEA12_uc004fgb.2_Intron|MAGEA12_uc004fgc.2_Missense_Mutation_p.P59L|CSAG1_uc004fge.2_5'Flank|CSAG1_uc004fgf.2_5'Flank|CSAG1_uc004fgd.2_5'Flank	NM_005367	NP_005358	P43365	MAGAC_HUMAN	melanoma antigen family A, 12	59										skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					GGGAGGACTTGGTGACTCGGC	0.602													31	123	---	---	---	---	PASS	A	151900625	A	A	151900625	3	1	117	1	0	0	0	0	1	0	0	0	9166	1348	47	3	772	3	MAGEA12	23	151900625	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	28382481	151900625	3369935	330	42796										
ZNF275	10838	broad.mit.edu	37	chrX	152612647	152612647	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	agggccctggagaatgccgcGgagaagagggagcagatgga	19	7	0	4			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:152612647G>A	uc004fhg.1	+	4	681	c.504G>A	c.(502-504)GCG>GCA	p.A168A	ZNF275_uc011mym.1_Silent_p.A168A|ZNF275_uc011myn.1_Silent_p.A105A			A6NFS0	A6NFS0_HUMAN	SubName: Full=cDNA FLJ16723 fis, clone UTERU3004418, highly similar to Zinc finger protein 275; SubName: Full=Putative uncharacterized protein ZNF275;	168						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGAATGCCGCGGAGAAGAGGG	0.602													5	48	---	---	---	---	PASS	A	152612647	A	A	152612647	2	1	117	1	0	0	0	0	0	0	0	1	17807	1103	39	1		1	ZNF275	23	152612647	Silent	SNP	G	TCGA-56-6545-01A-11D-1817-08	712022	152612647	2657913	331	42797										
VBP1	7411	broad.mit.edu	37	chrX	154448556	154448556	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.164596273291925	53	2.77969056483341e-11	2.70393964665184	3.08782714984182	2.41483918128655	1	1	33	accagaagtataagtttatgGaactcaaccttgctcaaaag	7	8	2	1			TCGA-56-6545-01A-11D-1817-08	TCGA-56-6545-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	16756a08-8308-4ad3-9e21-2cea0cd7028e	1f9d3958-efe9-4761-978a-8fd0655dc3ec	g.chrX:154448556G>A	uc004fnc.2	+	2	249	c.190G>A	c.(190-192)GAA>AAA	p.E64K	VBP1_uc004fnd.2_Missense_Mutation_p.E27K	NM_003372	NP_003363	P61758	PFD3_HUMAN	von Hippel-Lindau binding protein 1	64					'de novo' posttranslational protein folding	nucleus|prefoldin complex	unfolded protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TAAGTTTATGGAACTCAACCT	0.299													10	57	---	---	---	---	PASS	A	154448556	A	A	154448556	3	1	117	1	0	0	0	0	1	0	0	0	17133	1175	41	2	196	2	VBP1	23	154448556	Missense_Mutation	SNP	G	TCGA-56-6545-01A-11D-1817-08	1835909	154448556	822004	332	42798										
CHD5	26038	broad.mit.edu	37	chr1	6194301	6194301	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gcttccatcgtaggagccatTgggcaagacaggggcctcct	13	12	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:6194301T>C	uc001amb.1	-	20	3131	c.3031A>G	c.(3031-3033)AAT>GAT	p.N1011D	CHD5_uc001alz.1_5'Flank|CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA|CHD5_uc009vlx.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1011					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		TAGGAGCCATTGGGCAAGACA	0.597													34	111	---	---	---	---	PASS	C	6194301	C	C	6194301	3	2	118	1	0	0	0	0	1	0	0	0	3328	1812	63	5	2921	5	CHD5	1	6194301	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08		6194301	243056320	1	42799										
TAS1R1	80835	broad.mit.edu	37	chr1	6635260	6635260	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aggccttgccacaagggctcCtggtgcagcagcaatcagct	12	13	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:6635260C>T	uc001ant.2	+	3	1068	c.1068C>T	c.(1066-1068)TCC>TCT	p.S356S	TAS1R1_uc001anu.2_Intron|TAS1R1_uc001anv.2_Intron|TAS1R1_uc001anw.2_Silent_p.S356S	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	356	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)		ACAAGGGCTCCTGGTGCAGCA	0.577													9	37	---	---	---	---	PASS	T	6635260	T	T	6635260	2	4	118	1	0	0	0	0	0	0	0	1	15559	668	24	3		3	TAS1R1	1	6635260	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	440959	6635260	242615361	2	42800										
H6PD	9563	broad.mit.edu	37	chr1	9324427	9324427	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gttgacgagcgctgcgtcccActctcagacccggagtccaa	11	15	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:9324427A>T	uc001apt.2	+	5	2148	c.1875A>T	c.(1873-1875)CCA>CCT	p.P625P		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	625	6-phosphogluconolactonase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	GCTGCGTCCCACTCTCAGACC	0.672													10	23	---	---	---	---	PASS	T	9324427	T	T	9324427	2	4	118	1	0	0	0	0	0	0	0	1	6936	146	6	5		5	H6PD	1	9324427	Silent	SNP	A	TCGA-56-6546-01A-11D-1817-08	2689167	9324427	239926194	3	42801										
MASP2	10747	broad.mit.edu	37	chr1	11087244	11087244	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aacaatcggtatgtcgacatAcattagatttctagcaagaa	7	7	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:11087244A>T	uc001aru.2	-	11	1780	c.1759T>A	c.(1759-1761)TAT>AAT	p.Y587N		NM_006610	NP_006601	O00187	MASP2_HUMAN	mannan-binding lectin serine protease 2 isoform	587	Peptidase S1.				complement activation, classical pathway|complement activation, lectin pathway|proteolysis	extracellular region	calcium ion binding|calcium-dependent protein binding|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.071)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.12e-07)|COAD - Colon adenocarcinoma(227;7.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)|STAD - Stomach adenocarcinoma(313;0.192)		ATGTCGACATACATTAGATTT	0.428													22	142	---	---	---	---	PASS	T	11087244	T	T	11087244	3	4	118	1	0	0	0	0	1	0	0	0	9323	391	14	5	305	5	MASP2	1	11087244	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	1762817	11087244	238163377	4	42802										
ARHGEF10L	55160	broad.mit.edu	37	chr1	17953966	17953966	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctgagatccagcagctgaccAagagcgtcagtgaccgcagc	12	13	1	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:17953966A>T	uc001ban.2	+	15	1711	c.1552A>T	c.(1552-1554)AAG>TAG	p.K518*	ARHGEF10L_uc009vpe.1_Nonsense_Mutation_p.K479*|ARHGEF10L_uc001bao.2_Nonsense_Mutation_p.K479*|ARHGEF10L_uc001bap.2_Nonsense_Mutation_p.K479*|ARHGEF10L_uc010ocr.1_Nonsense_Mutation_p.K276*|ARHGEF10L_uc001baq.2_Nonsense_Mutation_p.K284*|ARHGEF10L_uc010ocs.1_Nonsense_Mutation_p.K296*|ARHGEF10L_uc001bar.2_Nonsense_Mutation_p.K226*|ARHGEF10L_uc009vpf.2_RNA	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	518					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		GCAGCTGACCAAGAGCGTCAG	0.657													5	26	---	---	---	---	PASS	T	17953966	T	T	17953966	4	4	118	1	0	0	0	0	0	1	0	0	895	131	5	5	1606	5	ARHGEF10L	1	17953966	Nonsense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	6866722	17953966	231296655	5	42803										
KLHDC7A	127707	broad.mit.edu	37	chr1	18809311	18809311	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gacccccgcctggaccgctgGgactttgccccgccgctccc	11	21	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:18809311G>A	uc001bax.2	+	1	1888	c.1836G>A	c.(1834-1836)TGG>TGA	p.W612*	KLHDC7A_uc009vpg.2_Nonsense_Mutation_p.W394*	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	612	Kelch 4.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		TGGACCGCTGGGACTTTGCCC	0.697													3	19	---	---	---	---	PASS	A	18809311	A	A	18809311	4	1	118	1	0	0	0	0	0	1	0	0	8360	1241	43	3	1838	3	KLHDC7A	1	18809311	Nonsense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	855345	18809311	230441310	6	42804										
HSPG2	3339	broad.mit.edu	37	chr1	22158245	22158245	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggaaatggcccagggccagtGgtgtgggatggcggatggtg	21	6	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:22158245G>T	uc001bfj.2	-	82	11292	c.11252C>A	c.(11251-11253)CCA>CAA	p.P3751Q	HSPG2_uc001bfi.2_5'Flank|HSPG2_uc009vqd.2_Missense_Mutation_p.P3752Q	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3751	Laminin G-like 1.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CAGGGCCAGTGGTGTGGGATG	0.657													16	59	---	---	---	---	PASS	T	22158245	T	T	22158245	3	4	118	1	0	0	0	0	1	0	0	0	7430	1348	47	3	1987	3	HSPG2	1	22158245	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	3348934	22158245	227092376	7	42805										
SLC30A2	7780	broad.mit.edu	37	chr1	26371674	26371674	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tcggggcagaggaatccagcCagccccttcctgccacagag	12	15	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:26371674C>A	uc001blh.1	-	2	302	c.85G>T	c.(85-87)GGC>TGC	p.G29C	SLC30A2_uc001blg.1_Missense_Mutation_p.G29C	NM_032513	NP_115902	Q9BRI3	ZNT2_HUMAN	solute carrier family 30, member 2 isoform 2	29	Cytoplasmic (Potential).				positive regulation of sequestering of zinc ion|zinc ion transport	integral to membrane|late endosome|lysosomal membrane	cation transmembrane transporter activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;7.09e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000728)|BRCA - Breast invasive adenocarcinoma(304;0.000969)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00614)|READ - Rectum adenocarcinoma(331;0.0649)		GGAATCCAGCCAGCCCCTTCC	0.607													11	40	---	---	---	---	PASS	A	26371674	A	A	26371674	3	1	118	1	0	0	0	0	1	0	0	0	14555	594	21	3	1061	3	SLC30A2	1	26371674	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	4213429	26371674	222878947	8	42806										
CSMD2	114784	broad.mit.edu	37	chr1	34174707	34174707	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	accttgaggacatctccttcGgagagttcgaatgccctggc	11	12	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:34174707G>A	uc001bxn.1	-	22	3467	c.3438C>T	c.(3436-3438)TCC>TCT	p.S1146S	CSMD2_uc001bxm.1_Silent_p.S1186S|CSMD2_uc001bxo.1_Silent_p.S59S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1146	Extracellular (Potential).|CUB 7.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CATCTCCTTCGGAGAGTTCGA	0.423													29	113	---	---	---	---	PASS	A	34174707	A	A	34174707	2	1	118	1	0	0	0	0	0	0	0	1	3945	1103	39	1		1	CSMD2	1	34174707	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	7803033	34174707	215075914	9	42807										
DLGAP3	58512	broad.mit.edu	37	chr1	35334343	35334343	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gggatgcgcggcctgagtcgGggaggctacgtgaaccgcgc	19	11	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:35334343G>A	uc001byc.2	-	7	2348	c.2348C>T	c.(2347-2349)CCC>CTC	p.P783L		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	783					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				GCCTGAGTCGGGGAGGCTACG	0.577													15	27	---	---	---	---	PASS	A	35334343	A	A	35334343	3	1	118	1	0	0	0	0	1	0	0	0	4561	1232	43	3	607	3	DLGAP3	1	35334343	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	1159636	35334343	213916278	10	42808										
EPHA10	284656	broad.mit.edu	37	chr1	38227289	38227289	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tggccaggccccgcacggtgGcgcggcactgcttgtagtag	16	13	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:38227289G>T	uc009vvi.2	-	3	724	c.638C>A	c.(637-639)GCC>GAC	p.A213D	EPHA10_uc001cbw.3_Missense_Mutation_p.A213D	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	213	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CCGCACGGTGGCGCGGCACTG	0.692													7	15	---	---	---	---	PASS	T	38227289	T	T	38227289	3	4	118	1	0	0	0	0	1	0	0	0	5166	1203	42	3	2486	3	EPHA10	1	38227289	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	2892946	38227289	211023332	11	42809										
CAP1	10487	broad.mit.edu	37	chr1	40535455	40535455	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cagtggccccaaaccattctCtgcacctaaaccccaaacca	4	18	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:40535455C>A	uc001cfa.3	+	9	1131	c.902C>A	c.(901-903)TCT>TAT	p.S301Y	CAP1_uc001cey.3_Missense_Mutation_p.S301Y|CAP1_uc001cez.3_Missense_Mutation_p.S301Y|CAP1_uc009vvz.2_Missense_Mutation_p.S301Y|CAP1_uc010oje.1_Missense_Mutation_p.S218Y	NM_006367	NP_006358	Q01518	CAP1_HUMAN	adenylyl cyclase-associated protein	301					activation of adenylate cyclase activity|axon guidance|establishment or maintenance of cell polarity|platelet activation|platelet degranulation|signal transduction	plasma membrane	actin binding			ovary(1)	1	Lung NSC(20;5.03e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;4.63e-18)|Epithelial(16;1.27e-16)|all cancers(16;2.3e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AAACCATTCTCTGCACCTAAA	0.522													4	116	---	---	---	---	PASS	A	40535455	A	A	40535455	3	1	118	1	0	0	0	0	1	0	0	0	2619	913	32	2	932	2	CAP1	1	40535455	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	2308166	40535455	208715166	12	42810										
RAD54L	8438	broad.mit.edu	37	chr1	46738151	46738151	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tctctagatgcctgatacggAggacttctgatatcctttct	8	10	3	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:46738151A>G	uc009vye.2	+	12	1297	c.1183A>G	c.(1183-1185)AGG>GGG	p.R395G	RAD54L_uc001cpl.2_Missense_Mutation_p.R395G|RAD54L_uc001cpm.1_Missense_Mutation_p.R215G	NM_001142548	NP_001136020	Q92698	RAD54_HUMAN	RAD54-like protein	395					meiosis	nucleus	ATP binding|DNA binding|helicase activity			ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(166;0.155)	Breast(1374;0.0634)		KIRC - Kidney renal clear cell carcinoma(1967;0.000896)		CCTGATACGGAGGACTTCTGA	0.428								Direct_reversal_of_damage|Homologous_recombination					15	62	---	---	---	---	PASS	G	46738151	G	G	46738151	3	3	118	1	0	0	0	0	1	0	0	0	12993	295	11	5	1225	5	RAD54L	1	46738151	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	6202696	46738151	202512470	13	42811										
USP24	23358	broad.mit.edu	37	chr1	55620440	55620440	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	atgttctcaatcacagtagaTgattgtcctgactggaaaag	9	7	2	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:55620440T>A	uc001cyg.3	-	12	1122	c.1122A>T	c.(1120-1122)TCA>TCT	p.S374S		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	486					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						TCACAGTAGATGATTGTCCTG	0.383													8	43	---	---	---	---	PASS	A	55620440	A	A	55620440	2	1	118	1	0	0	0	0	0	0	0	1	17052	1451	51	5		5	USP24	1	55620440	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	8882289	55620440	193630181	14	42812										
C8B	732	broad.mit.edu	37	chr1	57395200	57395200	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gagcatgaagaccaatttgaCcagcaattccacttcccatc	6	13	0	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:57395200C>A	uc001cyp.2	-	12	1720	c.1653G>T	c.(1651-1653)TGG>TGT	p.W551C	C8B_uc010oon.1_Missense_Mutation_p.W489C|C8B_uc010ooo.1_Missense_Mutation_p.W499C	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	551	TSP type-1 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						ACCAATTTGACCAGCAATTCC	0.463													12	53	---	---	---	---	PASS	A	57395200	A	A	57395200	3	1	118	1	0	0	0	0	1	0	0	0	2417	508	18	3	126	3	C8B	1	57395200	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1774760	57395200	191855421	15	42813										
IL23R	149233	broad.mit.edu	37	chr1	67724262	67724262	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttcatcccagaacacaagccTacagactacaagaaggagaa	7	11	1	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:67724262T>C	uc001ddo.2	+	11	1426	c.1341T>C	c.(1339-1341)CCT>CCC	p.P447P	IL23R_uc009waz.2_Silent_p.P244P|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_Silent_p.P45P|IL23R_uc010opk.1_3'UTR|IL23R_uc010opl.1_Silent_p.P29P|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_Silent_p.P193P|IL23R_uc010opn.1_Silent_p.P292P|IL23R_uc001ddr.2_RNA|IL23R_uc010ops.1_Silent_p.P244P|IL23R_uc010opt.1_Silent_p.P88P|IL23R_uc010opu.1_Silent_p.P143P|IL23R_uc010opv.1_Silent_p.P205P|IL23R_uc010opw.1_Silent_p.P82P|IL23R_uc010opx.1_Silent_p.P88P|IL23R_uc010opy.1_Silent_p.P214P|IL23R_uc010opz.1_Silent_p.P88P|IL23R_uc010oqa.1_Silent_p.P88P|IL23R_uc010oqb.1_Silent_p.P276P|IL23R_uc010oqc.1_Silent_p.P163P|IL23R_uc010oqd.1_Silent_p.P82P|IL23R_uc010oqe.1_Silent_p.P45P|IL23R_uc010oqf.1_Silent_p.P45P|IL23R_uc010oqg.1_Silent_p.P45P|IL23R_uc010oqh.1_Silent_p.P88P|IL23R_uc001dds.2_Silent_p.P192P|IL23R_uc001ddt.2_Silent_p.P45P	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	447	Cytoplasmic (Potential).				inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						AACACAAGCCTACAGACTACA	0.388													19	155	---	---	---	---	PASS	C	67724262	C	C	67724262	2	2	118	1	0	0	0	0	0	0	0	1	7676	1509	53	5		5	IL23R	1	67724262	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	10329062	67724262	181526359	16	42814										
LRRC7	57554	broad.mit.edu	37	chr1	70502167	70502167	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gttgacaaaactcactgtctGaataacagtgtttcctcagg	8	9	3	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:70502167G>T	uc001dep.2	+	18	2064	c.2034G>T	c.(2032-2034)CTG>CTT	p.L678L	LRRC7_uc009wbg.2_Intron|LRRC7_uc001deq.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	678						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CTCACTGTCTGAATAACAGTG	0.428													25	75	---	---	---	---	PASS	T	70502167	T	T	70502167	2	4	118	1	0	0	0	0	0	0	0	1	9020	1277	45	2		2	LRRC7	1	70502167	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	2777905	70502167	178748454	17	42815										
ELTD1	64123	broad.mit.edu	37	chr1	79404920	79404920	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agctatacagacattatctaAatggcagtttgcattcacat	6	8	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:79404920A>T	uc001diq.3	-	4	505	c.349T>A	c.(349-351)TTA>ATA	p.L117I		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	117	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)		ACATTATCTAAATGGCAGTTT	0.244													9	29	---	---	---	---	PASS	T	79404920	T	T	79404920	3	4	118	1	0	0	0	0	1	0	0	0	5084	11	1	5	1771	5	ELTD1	1	79404920	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	8902753	79404920	169845701	18	42816										
ABCA4	24	broad.mit.edu	37	chr1	94543316	94543316	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgtccctccagtcgaagttgGccatgtcgtcagcctggctt	11	13	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:94543316G>T	uc001dqh.2	-	11	1588	c.1484C>A	c.(1483-1485)GCC>GAC	p.A495D	ABCA4_uc010otn.1_Missense_Mutation_p.A495D	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	495	Extracellular.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		GTCGAAGTTGGCCATGTCGTC	0.532													22	149	---	---	---	---	PASS	T	94543316	T	T	94543316	3	4	118	1	0	0	0	0	1	0	0	0	34	1203	42	3	5497	3	ABCA4	1	94543316	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	15138396	94543316	154707305	19	42817										
PTBP2	58155	broad.mit.edu	37	chr1	97272495	97272495	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gctctaatacagatggctgaTggaaaccaatcacaacttgg	9	9	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:97272495T>C	uc001drq.2	+	11	1398	c.1152T>C	c.(1150-1152)GAT>GAC	p.D384D	PTBP2_uc001drn.2_Silent_p.D389D|PTBP2_uc001dro.2_Silent_p.D384D|PTBP2_uc010otz.1_Silent_p.D400D|PTBP2_uc001drp.2_RNA|PTBP2_uc009wdw.2_Silent_p.D332D|PTBP2_uc001drr.2_Silent_p.D389D|PTBP2_uc010oua.1_Silent_p.D392D|PTBP2_uc001dru.2_RNA|PTBP2_uc001drs.1_Silent_p.D3D|PTBP2_uc001drt.2_Silent_p.D3D	NM_021190	NP_067013	Q9UKA9	PTBP2_HUMAN	polypyrimidine tract binding protein 2	384	RRM 3.						nucleotide binding				0		all_epithelial(167;2.95e-05)|all_lung(203;0.000396)|Lung NSC(277;0.00171)		all cancers(265;0.0582)|Epithelial(280;0.0716)|Colorectal(170;0.0879)|KIRC - Kidney renal clear cell carcinoma(1967;0.202)		AGATGGCTGATGGAAACCAAT	0.353													16	80	---	---	---	---	PASS	C	97272495	C	C	97272495	2	2	118	1	0	0	0	0	0	0	0	1	12726	1461	51	5		5	PTBP2	1	97272495	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	2729179	97272495	151978126	20	42818										
SLC6A17	388662	broad.mit.edu	37	chr1	110714798	110714798	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gcatcggtgtgtggcactatAtatgtccccgcctggggggc	15	11	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:110714798A>G	uc009wfq.2	+	3	864	c.403A>G	c.(403-405)ATA>GTA	p.I135V		NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	135	Cytoplasmic (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		GTGGCACTATATATGTCCCCG	0.632													5	10	---	---	---	---	PASS	G	110714798	G	G	110714798	3	3	118	1	0	0	0	0	1	0	0	0	14680	449	16	5	409	5	SLC6A17	1	110714798	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	13442303	110714798	138535823	21	42819										
HIPK1	204851	broad.mit.edu	37	chr1	114483113	114483113	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggctgggatgtttcaggacaGagtagcaacgacaaatatta	12	6	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:114483113G>T	uc001eem.2	+	2	269	c.108G>T	c.(106-108)CAG>CAT	p.Q36H	HIPK1_uc001eel.2_Missense_Mutation_p.Q36H|HIPK1_uc001een.2_Missense_Mutation_p.Q36H	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	36					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTTCAGGACAGAGTAGCAACG	0.507													53	316	---	---	---	---	PASS	T	114483113	T	T	114483113	3	4	118	1	0	0	0	0	1	0	0	0	7116	933	33	2	110	2	HIPK1	1	114483113	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	3768315	114483113	134767508	22	42820										
IGSF3	3321	broad.mit.edu	37	chr1	117158964	117158964	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	taaatggaccactggaaattCtgctcagaaggtccctggta	10	9	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:117158964C>G	uc001egr.1	-	3	864	c.159G>C	c.(157-159)CAG>CAC	p.Q53H	IGSF3_uc001egq.1_Missense_Mutation_p.Q53H	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	53	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		ACTGGAAATTCTGCTCAGAAG	0.572													15	45	---	---	---	---	PASS	G	117158964	G	G	117158964	3	3	118	1	0	0	0	0	1	0	0	0	7601	912	32	2	3525	2	IGSF3	1	117158964	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	2675851	117158964	132091657	23	42821										
SEC22B	9554	broad.mit.edu	37	chr1	145112437	145112437	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gctcgaagaaacctaggctcCatcaacactgaattgcaaga	8	11	1	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:145112437C>A	uc001eml.1	+	6	551	c.411C>A	c.(409-411)TCC>TCA	p.S137S	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron	NM_004892	NP_004883	O75396	SC22B_HUMAN	SEC22 vesicle trafficking protein homolog B	137	v-SNARE coiled-coil homology.|Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|melanosome	protein binding				0						ACCTAGGCTCCATCAACACTG	0.408													5	115	---	---	---	---	PASS	A	145112437	A	A	145112437	2	1	118	1	0	0	0	0	0	0	0	1	13989	581	21	3		3	SEC22B	1	145112437	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	27953473	145112437	104138184	24	42822										
ITGA10	8515	broad.mit.edu	37	chr1	145532483	145532483	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggtcactacctccggcggcaGcgagatcccagctctttcct	10	16	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:145532483G>T	uc001eoa.2	+	9	1012	c.936G>T	c.(934-936)CAG>CAT	p.Q312H	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.Q181H|ITGA10_uc009wiw.2_Missense_Mutation_p.Q169H|ITGA10_uc010oyw.1_Missense_Mutation_p.Q257H	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	312	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TCCGGCGGCAGCGAGATCCCA	0.478													20	134	---	---	---	---	PASS	T	145532483	T	T	145532483	3	4	118	1	0	0	0	0	1	0	0	0	7873	962	34	3	970	3	ITGA10	1	145532483	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	420046	145532483	103718138	25	42823										
NUP210L	91181	broad.mit.edu	37	chr1	154033493	154033493	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tctaccaggagcagttccacAtctacagatctgggcaagtt	9	11	3	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:154033493A>T	uc001fdw.2	-	19	2745	c.2673T>A	c.(2671-2673)GAT>GAA	p.D891E	NUP210L_uc009woq.2_Intron|NUP210L_uc010peh.1_Missense_Mutation_p.D891E	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	891						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			GCAGTTCCACATCTACAGATC	0.333													19	146	---	---	---	---	PASS	T	154033493	T	T	154033493	3	4	118	1	0	0	0	0	1	0	0	0	10761	214	8	5	3081	5	NUP210L	1	154033493	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	8501010	154033493	95217128	26	42824										
HCN3	57657	broad.mit.edu	37	chr1	155255711	155255711	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gctgctcagtgtgctggcccGcggcgcccgggacacacgcc	15	17	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:155255711G>T	uc001fjz.1	+	6	1441	c.1433G>T	c.(1432-1434)CGC>CTC	p.R478L	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_Missense_Mutation_p.R173L	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	478	Cytoplasmic (Potential).|cAMP.					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(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)			GTGCTGGCCCGCGGCGCCCGG	0.652													29	124	---	---	---	---	PASS	T	155255711	T	T	155255711	3	4	118	1	0	0	0	0	1	0	0	0	6998	1087	38	1	1455	1	HCN3	1	155255711	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	1222218	155255711	93994910	27	42825										
GPATCH4	54865	broad.mit.edu	37	chr1	156568034	156568034	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	catacctgcccagtttccacTaccaagttggccgcagtctt	7	15	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:156568034T>A	uc001fpm.2	-	4	285	c.246A>T	c.(244-246)GTA>GTT	p.V82V	GPATCH4_uc001fpl.2_Silent_p.V77V	NM_015590	NP_056405	Q5T3I0	GPTC4_HUMAN	G patch domain containing 4 isoform 1	77						intracellular	nucleic acid binding			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CAGTTTCCACTACCAAGTTGG	0.517													40	253	---	---	---	---	PASS	A	156568034	A	A	156568034	2	1	118	1	0	0	0	0	0	0	0	1	6593	1509	53	5		5	GPATCH4	1	156568034	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	1312323	156568034	92682587	28	42826										
CD5L	922	broad.mit.edu	37	chr1	157804395	157804395	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tcccagctgccggcacaccaCctttgcggcccggaggctcc	11	19	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:157804395C>A	uc001frk.3	-	4	663	c.520G>T	c.(520-522)GTG>TTG	p.V174L		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	174	SRCR 2.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CGGCACACCACCTTTGCGGCC	0.607													5	107	---	---	---	---	PASS	A	157804395	A	A	157804395	3	1	118	1	0	0	0	0	1	0	0	0	3027	507	18	3	535	3	CD5L	1	157804395	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1236361	157804395	91446226	29	42827										
OR6K2	81448	broad.mit.edu	37	chr1	158669890	158669890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgtgtctgtgcaggccagacGcagcactgggaggaagtcac	15	10	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:158669890G>T	uc001fsu.1	-	1	553	c.553C>A	c.(553-555)CGT>AGT	p.R185S		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					CAGGCCAGACGCAGCACTGGG	0.478													6	99	---	---	---	---	PASS	T	158669890	T	T	158669890	3	4	118	1	0	0	0	0	1	0	0	0	11202	1087	38	1	425	1	OR6K2	1	158669890	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	865495	158669890	90580731	30	42828										
MAEL	84944	broad.mit.edu	37	chr1	166991004	166991004	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	catttccaattcttccagcaAtatccacaaattctccaact	1	14	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:166991004A>G	uc001gdy.1	+	12	1288	c.1217A>G	c.(1216-1218)AAT>AGT	p.N406S	MAEL_uc001gdz.1_Missense_Mutation_p.N375S|MAEL_uc009wvf.1_RNA	NM_032858	NP_116247	Q96JY0	MAEL_HUMAN	maelstrom homolog	406					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|multicellular organismal development|piRNA metabolic process|spermatogenesis	piP-body	DNA binding			skin(1)	1						TCTTCCAGCAATATCCACAAA	0.423													20	81	---	---	---	---	PASS	G	166991004	G	G	166991004	3	3	118	1	0	0	0	0	1	0	0	0	9154	101	4	5	1263	5	MAEL	1	166991004	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	8321114	166991004	82259617	31	42829										
DCAF6	55827	broad.mit.edu	37	chr1	168037687	168037687	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gaggatgttggcttcacttaAtcatatccgagctggtagga	12	7	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:168037687A>G	uc001gew.2	+	18	2746	c.2504A>G	c.(2503-2505)AAT>AGT	p.N835S	DCAF6_uc001gev.2_Missense_Mutation_p.N855S|DCAF6_uc001gex.2_Missense_Mutation_p.N926S|DCAF6_uc010plk.1_Missense_Mutation_p.N895S|DCAF6_uc001gey.2_Missense_Mutation_p.N708S|DCAF6_uc001gez.2_Missense_Mutation_p.N138S	NM_001017977	NP_001017977	Q58WW2	DCAF6_HUMAN	IQ motif and WD repeats 1 isoform b	835					positive regulation of transcription from RNA polymerase II promoter	CUL4 RING ubiquitin ligase complex|nucleus	ligand-dependent nuclear receptor transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GCTTCACTTAATCATATCCGA	0.328													3	45	---	---	---	---	PASS	G	168037687	G	G	168037687	3	3	118	1	0	0	0	0	1	0	0	0	4274	101	4	5	2638	5	DCAF6	1	168037687	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	1046683	168037687	81212934	32	42830										
METTL13	51603	broad.mit.edu	37	chr1	171765854	171765854	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gggaggggttgggatgacacGtatgtcttgtcagatatgct	16	5	2	2	rs61733151	byFrequency	TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:171765854G>T	uc001ghz.2	+	8	2405	c.2058G>T	c.(2056-2058)ACG>ACT	p.T686T	METTL13_uc001gia.2_Silent_p.T600T|METTL13_uc001gib.2_Silent_p.T530T|METTL13_uc010pml.1_Silent_p.T685T|METTL13_uc001gic.1_RNA	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	686							methyltransferase activity|protein binding			kidney(1)	1						GGGATGACACGTATGTCTTGT	0.557													32	102	---	---	---	---	PASS	T	171765854	T	T	171765854	2	4	118	1	0	0	0	0	0	0	0	1	9497	1132	40	1		1	METTL13	1	171765854	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	3728167	171765854	77484767	33	42831										
PAPPA2	60676	broad.mit.edu	37	chr1	176563806	176563806	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aagccaccatcttgattagcCacagtcgctaccaaccaggc	7	15	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:176563806C>A	uc001gkz.2	+	3	2230	c.1066C>A	c.(1066-1068)CAC>AAC	p.H356N	PAPPA2_uc001gky.1_Missense_Mutation_p.H356N|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	356					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CTTGATTAGCCACAGTCGCTA	0.582													14	47	---	---	---	---	PASS	A	176563806	A	A	176563806	3	1	118	1	0	0	0	0	1	0	0	0	11433	594	21	3	1072	3	PAPPA2	1	176563806	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	4797952	176563806	72686815	34	42832										
CEP350	9857	broad.mit.edu	37	chr1	179983508	179983508	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cggaagcagaaggaagccttTactaaagtaaaaaatgtccc	9	8	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:179983508T>C	uc001gnt.2	+	10	2303	c.1920T>C	c.(1918-1920)TTT>TTC	p.F640F	CEP350_uc009wxl.2_Silent_p.F639F|CEP350_uc001gnu.2_Silent_p.F474F	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	640	Potential.					centrosome|nucleus|spindle				ovary(4)	4						AGGAAGCCTTTACTAAAGTAA	0.423													3	8	---	---	---	---	PASS	C	179983508	C	C	179983508	2	2	118	1	0	0	0	0	0	0	0	1	3254	1751	61	5		5	CEP350	1	179983508	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	3419702	179983508	69267113	35	42833										
ZNF648	127665	broad.mit.edu	37	chr1	182026487	182026487	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cttttgccaggaccgcggcaGccaggctggctggggtggcc	17	13	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:182026487G>C	uc001goz.2	-	2	867	c.659C>G	c.(658-660)GCT>GGT	p.A220G		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	220					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GACCGCGGCAGCCAGGCTGGC	0.667													3	26	---	---	---	---	PASS	C	182026487	C	C	182026487	3	2	118	1	0	0	0	0	1	0	0	0	18060	971	34	4	1051	4	ZNF648	1	182026487	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	2042979	182026487	67224134	36	42834										
C1orf25	81627	broad.mit.edu	37	chr1	185094122	185094122	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgaattgaaaactgactttgAggcgtacactctgattcaaa	8	7	2	5			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:185094122A>C	uc001grf.3	-	12	1985	c.1713T>G	c.(1711-1713)CCT>CCG	p.P571P	C1orf25_uc010pon.1_Silent_p.P415P	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	571						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						ACTGACTTTGAGGCGTACACT	0.368													10	80	---	---	---	---	PASS	C	185094122	C	C	185094122	2	2	118	1	0	0	0	0	0	0	0	1	2034	291	11	5		5	C1orf25	1	185094122	Silent	SNP	A	TCGA-56-6546-01A-11D-1817-08	3067635	185094122	64156499	37	42835										
HMCN1	83872	broad.mit.edu	37	chr1	185964039	185964039	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	atgctcaagggactcctcttCctgtaatcacctggtccaaa	7	13	3	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:185964039C>A	uc001grq.1	+	24	3827	c.3598C>A	c.(3598-3600)CCT>ACT	p.P1200T		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1200	Ig-like C2-type 9.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GACTCCTCTTCCTGTAATCAC	0.468													19	102	---	---	---	---	PASS	A	185964039	A	A	185964039	3	1	118	1	0	0	0	0	1	0	0	0	7220	855	30	2	3692	2	HMCN1	1	185964039	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	869917	185964039	63286582	38	42836										
TPR	7175	broad.mit.edu	37	chr1	186287912	186287912	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgggaacacttcggccacctGactcttcttcatgagctagg	10	12	3	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:186287912G>A	uc001grv.2	-	47	6914	c.6617C>T	c.(6616-6618)TCA>TTA	p.S2206L		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	2206					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)		TCGGCCACCTGACTCTTCTTC	0.388			T	NTRK1	papillary thyroid								24	149	---	---	---	---	PASS	A	186287912	A	A	186287912	3	1	118	1	0	0	0	0	1	0	0	0	16413	1294	45	2	494	2	TPR	1	186287912	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	323873	186287912	62962709	39	42837										
RGS13	6003	broad.mit.edu	37	chr1	192617069	192617069	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttcaaagccttactttggagGaagtattacagtgggcccag	11	8	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:192617069G>A	uc001gsj.2	+	5	360	c.79G>A	c.(79-81)GAA>AAA	p.E27K	RGS13_uc001gsk.2_Missense_Mutation_p.E27K	NM_002927	NP_002918	O14921	RGS13_HUMAN	regulator of G-protein signalling 13	27						plasma membrane	GTPase activator activity|signal transducer activity				0						TACTTTGGAGGAAGTATTACA	0.328													10	127	---	---	---	---	PASS	A	192617069	A	A	192617069	3	1	118	1	0	0	0	0	1	0	0	0	13296	1175	41	2	85	2	RGS13	1	192617069	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	6329157	192617069	56633552	40	42838										
CD34	947	broad.mit.edu	37	chr1	208061216	208061216	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cctcaggggaggtcccaggtCctgagctatagccctggcct	13	14	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:208061216C>A	uc001hgw.1	-	8	1283	c.1025G>T	c.(1024-1026)GGA>GTA	p.G342V	CD34_uc001hgv.1_Missense_Mutation_p.G184V|CD34_uc001hgx.1_3'UTR|CD34_uc010psj.1_Missense_Mutation_p.G207V	NM_001025109	NP_001020280	P28906	CD34_HUMAN	CD34 antigen isoform a	342	Cytoplasmic (Potential).				cell-cell adhesion|leukocyte migration|regulation of immune response	integral to membrane	carbohydrate binding			ovary(1)	1						GGTCCCAGGTCCTGAGCTATA	0.562													5	48	---	---	---	---	PASS	A	208061216	A	A	208061216	3	1	118	1	0	0	0	0	1	0	0	0	3006	855	30	2	136	2	CD34	1	208061216	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	15444147	208061216	41189405	41	42839										
OBSCN	84033	broad.mit.edu	37	chr1	228468290	228468290	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccgcagaggagcgcggcaccCtggccctgcagtgtgaagtc	15	14	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:228468290C>T	uc009xez.1	+	30	8034	c.7990C>T	c.(7990-7992)CTG>TTG	p.L2664L	OBSCN_uc001hsn.2_Silent_p.L2664L|OBSCN_uc001hsp.1_Silent_p.L363L|OBSCN_uc001hsq.1_5'UTR	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2664	Ig-like 26.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCGCGGCACCCTGGCCCTGCA	0.642													8	58	---	---	---	---	PASS	T	228468290	T	T	228468290	2	4	118	1	0	0	0	0	0	0	0	1	10812	680	24	3		3	OBSCN	1	228468290	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	20407074	228468290	20782331	42	42840										
RYR2	6262	broad.mit.edu	37	chr1	237730049	237730049	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aggagcttggctcagatgaaCgtgcctttgcctttgatggc	13	9	1	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:237730049C>A	uc001hyl.1	+	28	3517	c.3397C>A	c.(3397-3399)CGT>AGT	p.R1133S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1133	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)			CTCAGATGAACGTGCCTTTGC	0.522													50	194	---	---	---	---	PASS	A	237730049	A	A	237730049	3	1	118	1	0	0	0	0	1	0	0	0	13769	536	19	1	3507	1	RYR2	1	237730049	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	9261759	237730049	11520572	43	42841										
OR2B11	127623	broad.mit.edu	37	chr1	247614672	247614672	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cacgaagaaggccaccagcaCagccagtatggtgtcattca	10	12	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:247614672C>G	uc010pyx.1	-	1	613	c.613G>C	c.(613-615)GTG>CTG	p.V205L		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	205	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			GCCACCAGCACAGCCAGTATG	0.577													7	26	---	---	---	---	PASS	G	247614672	G	G	247614672	3	3	118	1	0	0	0	0	1	0	0	0	10988	478	17	4	343	4	OR2B11	1	247614672	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	9884623	247614672	1635949	44	42842										
OR2C3	81472	broad.mit.edu	37	chr1	247695546	247695546	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tccatagcttatggttttctGtggtccccagaggttagcca	10	10	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:247695546G>T	uc009xgy.2	-	2	630	c.268C>A	c.(268-270)CAG>AAG	p.Q90K	C1orf150_uc009xgw.2_Intron|C1orf150_uc001ida.3_Intron|C1orf150_uc001idb.3_Intron|C1orf150_uc009xgx.2_Intron|LOC148824_uc001idd.2_5'Flank	NM_198074	NP_932340	Q8N628	OR2C3_HUMAN	olfactory receptor, family 2, subfamily C,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0242)	OV - Ovarian serous cystadenocarcinoma(106;0.0241)			ATGGTTTTCTGTGGTCCCCAG	0.547													18	54	---	---	---	---	PASS	T	247695546	T	T	247695546	3	4	118	1	0	0	0	0	1	0	0	0	10993	1386	48	3	698	3	OR2C3	1	247695546	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	80874	247695546	1555075	45	42843										
OR2W3	343171	broad.mit.edu	37	chr1	248059679	248059679	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	catgtacatgcagccaggagCcagttcttcccaggaccagg	11	13	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr1:248059679C>A	uc001idp.1	+	3	1060	c.791C>A	c.(790-792)GCC>GAC	p.A264D	OR2W3_uc010pzb.1_Missense_Mutation_p.A264D	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CAGCCAGGAGCCAGTTCTTCC	0.532													11	103	---	---	---	---	PASS	A	248059679	A	A	248059679	3	1	118	1	0	0	0	0	1	0	0	0	11033	739	26	3	793	3	OR2W3	1	248059679	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	364133	248059679	1190942	46	42844										
FAM110C	642273	broad.mit.edu	37	chr2	46014	46014	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cccggcccctggaagagcttCttcaccaggcttgccctggg	12	16	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:46014C>G	uc010yim.1	-	1	372	c.372G>C	c.(370-372)AAG>AAC	p.K124N		NM_001077710	NP_001071178	Q1W6H9	F110C_HUMAN	hypothetical protein LOC642273	124						microtubule|microtubule organizing center|spindle pole					0	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.00221)		all cancers(51;0.000815)|Epithelial(75;0.00379)|OV - Ovarian serous cystadenocarcinoma(76;0.0127)|GBM - Glioblastoma multiforme(21;0.232)		GGAAGAGCTTCTTCACCAGGC	0.682													9	17	---	---	---	---	PASS	G	46014	G	G	46014	3	3	118	1	0	0	0	0	1	0	0	0	5398	912	32	2	601	2	FAM110C	2	46014	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08		46014	243153359	47	42845										
NBAS	51594	broad.mit.edu	37	chr2	15307178	15307178	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gccacaggtggccctcacacCcagtgctgtgctgcgcggag	14	15	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:15307178C>A	uc002rcc.1	-	52	7136	c.7110G>T	c.(7108-7110)TGG>TGT	p.W2370C	NBAS_uc002rcb.1_Missense_Mutation_p.W210C|NBAS_uc010exl.1_Missense_Mutation_p.W1442C|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	2370										ovary(2)|liver(1)|skin(1)	4						GCCCTCACACCCAGTGCTGTG	0.582													23	60	---	---	---	---	PASS	A	15307178	A	A	15307178	3	1	118	1	0	0	0	0	1	0	0	0	10186	624	22	3	9	3	NBAS	2	15307178	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	15261164	15307178	227892195	48	42846										
ATAD2B	54454	broad.mit.edu	37	chr2	24098700	24098700	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tttcaaaaacaaaccttaccTaatatggcttcttcttgctg	4	10	3	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:24098700T>A	uc002rek.3	-	8	1270	c.976A>T	c.(976-978)AGG>TGG	p.R326W	ATAD2B_uc010yki.1_RNA|ATAD2B_uc010exx.1_Missense_Mutation_p.R340W	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	326							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAACCTTACCTAATATGGCTT	0.333													3	30	---	---	---	---	PASS	A	24098700	A	A	24098700	3	1	118	1	0	0	0	0	1	0	0	0	1072	1536	53	5	3484	5	ATAD2B	2	24098700	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	8791522	24098700	219100673	49	42847										
C2orf16	84226	broad.mit.edu	37	chr2	27802601	27802601	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gaaagtgaggactcacagagTgattcccagacaaggatttc	11	8	1	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:27802601T>A	uc002rkz.3	+	1	3213	c.3162T>A	c.(3160-3162)AGT>AGA	p.S1054R		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1054										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					ACTCACAGAGTGATTCCCAGA	0.468													49	150	---	---	---	---	PASS	A	27802601	A	A	27802601	3	1	118	1	0	0	0	0	1	0	0	0	2157	1693	59	5	3164	5	C2orf16	2	27802601	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	3703901	27802601	215396772	50	42848										
NLRC4	58484	broad.mit.edu	37	chr2	32476479	32476479	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	caggaggccattcagggtcaGctgctccacgcggtgatggt	15	11	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:32476479G>T	uc002roi.2	-	4	700	c.454C>A	c.(454-456)CTG>ATG	p.L152M	NLRC4_uc002roj.1_Missense_Mutation_p.L152M|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	152					activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TTCAGGGTCAGCTGCTCCACG	0.517													13	53	---	---	---	---	PASS	T	32476479	T	T	32476479	3	4	118	1	0	0	0	0	1	0	0	0	10469	962	34	3	2644	3	NLRC4	2	32476479	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	4673878	32476479	210722894	51	42849										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48809163	48809163	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cttgaatgaccttgagttgcCgaagcgagatgaatcctatt	10	8	0	5			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:48809163C>G	uc010yol.1	+	1	1438	c.1391C>G	c.(1390-1392)CCG>CGG	p.P464R	STON1_uc002rwo.3_Missense_Mutation_p.P464R|STON1_uc010fbm.2_Missense_Mutation_p.P464R|STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.P464R|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Missense_Mutation_p.P464R	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	464					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CTTGAGTTGCCGAAGCGAGAT	0.368													40	129	---	---	---	---	PASS	G	48809163	G	G	48809163	3	3	118	1	0	0	0	0	1	0	0	0	15316	652	23	4	1393	4	STON1-GTF2A1L	2	48809163	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	16332684	48809163	194390210	52	42850										
MRPL19	9801	broad.mit.edu	37	chr2	75874342	75874342	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccgccccgtggaaccggaacGcaggtgaggcactgccctgg	15	15	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:75874342G>A	uc002snl.2	+	2	243	c.218G>A	c.(217-219)CGC>CAC	p.R73H	MRPL19_uc002snm.1_Missense_Mutation_p.R73H	NM_014763	NP_055578	P49406	RM19_HUMAN	mitochondrial ribosomal protein L19 precursor	73					translation	mitochondrion|nuclear membrane|ribosome	structural constituent of ribosome				0						GAACCGGAACGCAGGTGAGGC	0.706													4	6	---	---	---	---	PASS	A	75874342	A	A	75874342	3	1	118	1	0	0	0	0	1	0	0	0	9784	1087	38	1	224	1	MRPL19	2	75874342	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	27065179	75874342	167325031	53	42851										
THNSL2	55258	broad.mit.edu	37	chr2	88474167	88474167	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	taccctcacagatctgatcgAccgagccttcagcagattcc	7	15	3	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:88474167A>T	uc002ssz.3	+	3	386	c.233A>T	c.(232-234)GAC>GTC	p.D78V	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_Missense_Mutation_p.D78V|THNSL2_uc002ssx.3_Missense_Mutation_p.D46V|THNSL2_uc002sta.3_Intron|THNSL2_uc002ssy.3_Missense_Mutation_p.D78V|THNSL2_uc010fhe.2_5'UTR	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	78					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						GATCTGATCGACCGAGCCTTC	0.517													22	90	---	---	---	---	PASS	T	88474167	T	T	88474167	3	4	118	1	0	0	0	0	1	0	0	0	15860	275	10	5	239	5	THNSL2	2	88474167	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	12599825	88474167	154725206	54	42852										
KCNIP3	30818	broad.mit.edu	37	chr2	96040090	96040090	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tccacggtgcgccaccagccAgaggggctggaccagctgca	14	15	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:96040090A>G	uc002sup.2	+	3	343	c.228A>G	c.(226-228)CCA>CCG	p.P76P	KCNIP3_uc002suq.2_Silent_p.P50P	NM_013434	NP_038462	Q9Y2W7	CSEN_HUMAN	Kv channel interacting protein 3 isoform 1	76	EF-hand 1; degenerate.				apoptosis|signal transduction|transcription, DNA-dependent	endoplasmic reticulum|Golgi apparatus|nucleus|plasma membrane	calcium ion binding|DNA binding|potassium channel activity|transcription corepressor activity|voltage-gated ion channel activity			breast(2)|ovary(1)	3				READ - Rectum adenocarcinoma(193;0.13)		GCCACCAGCCAGAGGGGCTGG	0.597													11	55	---	---	---	---	PASS	G	96040090	G	G	96040090	2	3	118	1	0	0	0	0	0	0	0	1	8041	175	7	5		5	KCNIP3	2	96040090	Silent	SNP	A	TCGA-56-6546-01A-11D-1817-08	7565923	96040090	147159283	55	42853										
ADRA2B	151	broad.mit.edu	37	chr2	96781416	96781416	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgcactgggggcgcccgcgcGgctgggggccctggtcgccc	19	16	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:96781416G>A	uc002svi.2	-	1	473	c.473C>T	c.(472-474)CCG>CTG	p.P158L		NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor	158	Extracellular (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	GCGCCCGCGCGGCTGGGGGCC	0.637													8	35	---	---	---	---	PASS	A	96781416	A	A	96781416	3	1	118	1	0	0	0	0	1	0	0	0	338	1116	39	1	874	1	ADRA2B	2	96781416	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	741326	96781416	146417957	56	42854										
ANKRD36B	57730	broad.mit.edu	37	chr2	98177127	98177127	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agatgtgttttgcaaaattaCctgtcccagatataggtccc	8	9	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:98177127C>T	uc010yvc.1	-	8	1145	c.865_splice	c.e8+1	p.V289_splice	ANKRD36B_uc010yve.1_Splice_Site|ANKRD36B_uc010fif.2_Splice_Site	NM_025190	NP_079466	Q8N2N9	AN36B_HUMAN	ankyrin repeat domain 36B												0						TGCAAAATTACCTGTCCCAGA	0.294													14	105	---	---	---	---	PASS	T	98177127	T	T	98177127	5	4	118	1	0	0	0	0	0	0	1	0	666	521	18	3	3339	3	ANKRD36B	2	98177127	Splice_Site	SNP	C	TCGA-56-6546-01A-11D-1817-08	1395711	98177127	145022246	57	42855										
INPP4A	3631	broad.mit.edu	37	chr2	99180045	99180045	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	catgcaggacagcgcgcccaCcatagccacctacctgagcc	9	18	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:99180045C>A	uc002syy.2	+	19	2381	c.1988C>A	c.(1987-1989)ACC>AAC	p.T663N	INPP4A_uc010yvj.1_Missense_Mutation_p.T624N|INPP4A_uc010yvk.1_Missense_Mutation_p.T624N|INPP4A_uc002syx.2_Missense_Mutation_p.T658N|INPP4A_uc010fik.2_Intron	NM_001134224	NP_001127696	Q96PE3	INP4A_HUMAN	inositol polyphosphate-4-phosphatase, type 1	663					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			kidney(1)	1						AGCGCGCCCACCATAGCCACC	0.632													11	48	---	---	---	---	PASS	A	99180045	A	A	99180045	3	1	118	1	0	0	0	0	1	0	0	0	7752	507	18	3	2054	3	INPP4A	2	99180045	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1002918	99180045	144019328	58	42856										
IL18RAP	8807	broad.mit.edu	37	chr2	103040368	103040368	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gagccacagaaatcacatttCtgccacagaaatcgactctc	6	13	3	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:103040368C>A	uc002tbx.2	+	4	652	c.168C>A	c.(166-168)TTC>TTA	p.F56L	IL18RAP_uc010fiz.2_Intron	NM_003853	NP_003844	O95256	I18RA_HUMAN	interleukin 18 receptor accessory protein	56	Extracellular (Potential).				cell surface receptor linked signaling pathway|inflammatory response|innate immune response	integral to membrane	transmembrane receptor activity			skin(3)|ovary(2)	5						AATCACATTTCTGCCACAGAA	0.428													11	50	---	---	---	---	PASS	A	103040368	A	A	103040368	3	1	118	1	0	0	0	0	1	0	0	0	7648	912	32	2	174	2	IL18RAP	2	103040368	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	3860323	103040368	140159005	59	42857										
SLC5A7	60482	broad.mit.edu	37	chr2	108609583	108609583	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cagcaattttctctgctttgGgtaaggaccagctaagttgt	10	8	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:108609583G>T	uc002tdv.2	+	4	724	c.448G>T	c.(448-450)GGA>TGA	p.G150*	SLC5A7_uc010ywm.1_5'UTR|SLC5A7_uc010fjj.2_Nonsense_Mutation_p.G150*|SLC5A7_uc010ywn.1_Nonsense_Mutation_p.G37*	NM_021815	NP_068587	Q9GZV3	SC5A7_HUMAN	solute carrier family 5 (choline transporter),	150	Cytoplasmic (Potential).				acetylcholine biosynthetic process|neurotransmitter secretion	integral to membrane|plasma membrane	choline:sodium symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4					Choline(DB00122)	CTCTGCTTTGGGTAAGGACCA	0.443													13	45	---	---	---	---	PASS	T	108609583	T	T	108609583	4	4	118	1	0	0	0	0	0	1	0	0	14670	1246	43	3	458	3	SLC5A7	2	108609583	Nonsense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	5569215	108609583	134589790	60	42858										
FAM123C	205147	broad.mit.edu	37	chr2	131521817	131521817	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gagcagaaacagtccagcagCtcccccagcatgaccaccat	8	16	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:131521817C>A	uc002trw.2	+	2	2362	c.2172C>A	c.(2170-2172)AGC>AGA	p.S724R	FAM123C_uc010fmv.2_Missense_Mutation_p.S724R|FAM123C_uc010fms.1_Missense_Mutation_p.S724R|FAM123C_uc010fmt.1_Missense_Mutation_p.S724R|FAM123C_uc010fmu.1_Missense_Mutation_p.S724R	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	724										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		AGTCCAGCAGCTCCCCCAGCA	0.647													3	29	---	---	---	---	PASS	A	131521817	A	A	131521817	3	1	118	1	0	0	0	0	1	0	0	0	5424	796	28	3	2174	3	FAM123C	2	131521817	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	22912234	131521817	111677556	61	42859										
LRP1B	53353	broad.mit.edu	37	chr2	141283417	141283417	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	taaattctagtattacctggGcactttaattcatctgaata	5	7	3	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:141283417G>C	uc002tvj.1	-	49	8994	c.8022C>G	c.(8020-8022)TGC>TGG	p.C2674W		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2674	Extracellular (Potential).|LDL-receptor class A 14.				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)		TATTACCTGGGCACTTTAATT	0.368										TSP Lung(27;0.18)			9	43	---	---	---	---	PASS	C	141283417	C	C	141283417	3	2	118	1	0	0	0	0	1	0	0	0	8955	1195	42	4	5949	4	LRP1B	2	141283417	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	9761600	141283417	101915956	62	42860										
LRP1B	53353	broad.mit.edu	37	chr2	141747209	141747209	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctggcatttaaactgatcatCaggacagctatgattgactg	9	8	2	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:141747209C>G	uc002tvj.1	-	17	3634	c.2662G>C	c.(2662-2664)GAT>CAT	p.D888H	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	888	Extracellular (Potential).|LDL-receptor class A 4.				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)		AACTGATCATCAGGACAGCTA	0.378										TSP Lung(27;0.18)			14	85	---	---	---	---	PASS	G	141747209	G	G	141747209	3	3	118	1	0	0	0	0	1	0	0	0	8955	826	29	2	11437	2	LRP1B	2	141747209	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	463792	141747209	101452164	63	42861										
LRP1B	53353	broad.mit.edu	37	chr2	141806619	141806619	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cggccaattaggaaactggtGgtgtcagcaaagtagatgta	13	6	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:141806619G>A	uc002tvj.1	-	11	2697	c.1725C>T	c.(1723-1725)ACC>ACT	p.T575T	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	575	Extracellular (Potential).|LDL-receptor class B 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)		GGAAACTGGTGGTGTCAGCAA	0.428										TSP Lung(27;0.18)			34	136	---	---	---	---	PASS	A	141806619	A	A	141806619	2	1	118	1	0	0	0	0	0	0	0	1	8955	1335	47	3		3	LRP1B	2	141806619	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	59410	141806619	101392754	64	42862										
SCN1A	6323	broad.mit.edu	37	chr2	166848466	166848466	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	atgttcaccacaaccaggaaGgatatgatgatgtaactgac	9	8	1	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:166848466G>A	uc010zcz.1	-	26	5304	c.5286C>T	c.(5284-5286)TCC>TCT	p.S1762S		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1773	IV.|Helical; Name=S6 of repeat IV; (By similarity).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CAACCAGGAAGGATATGATGA	0.443													38	160	---	---	---	---	PASS	A	166848466	A	A	166848466	2	1	118	1	0	0	0	0	0	0	0	1	13914	987	35	3		3	SCN1A	2	166848466	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	25041847	166848466	76350907	65	42863										
XIRP2	129446	broad.mit.edu	37	chr2	168102055	168102055	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	acattcagaagggagatgttAgttctgtcagatacagattt	10	5	3	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:168102055A>T	uc002udx.2	+	8	4171	c.4153A>T	c.(4153-4155)AGT>TGT	p.S1385C	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.S1210C|XIRP2_uc010fpq.2_Missense_Mutation_p.S1163C|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1210	Xin 24.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GGGAGATGTTAGTTCTGTCAG	0.353													17	73	---	---	---	---	PASS	T	168102055	T	T	168102055	3	4	118	1	0	0	0	0	1	0	0	0	17427	420	15	5	4183	5	XIRP2	2	168102055	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	1253589	168102055	75097318	66	42864										
LRP2	4036	broad.mit.edu	37	chr2	170127585	170127585	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cgggatcccacgaatagcaaCttgggatgaaaaaatgagga	12	7	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:170127585C>G	uc002ues.2	-	16	2362	c.2149G>C	c.(2149-2151)GTT>CTT	p.V717L	LRP2_uc010zdf.1_Intron	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	717	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CGAATAGCAACTTGGGATGAA	0.448													5	41	---	---	---	---	PASS	G	170127585	G	G	170127585	3	3	118	1	0	0	0	0	1	0	0	0	8956	565	20	4	12074	4	LRP2	2	170127585	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	2025530	170127585	73071788	67	42865										
TTN	7273	broad.mit.edu	37	chr2	179398873	179398873	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	atcataattttcaattttgcAtacatatttgacatgtcctc	3	8	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:179398873A>T	uc010zfg.1	-	307	94989	c.94765T>A	c.(94765-94767)TGC>AGC	p.C31589S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.C25284S|TTN_uc010zfi.1_Missense_Mutation_p.C25217S|TTN_uc010zfj.1_Missense_Mutation_p.C25092S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32516							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)			TCAATTTTGCATACATATTTG	0.423													25	142	---	---	---	---	PASS	T	179398873	T	T	179398873	3	4	118	1	0	0	0	0	1	0	0	0	16732	217	8	5	5530	5	TTN	2	179398873	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	9271288	179398873	63800500	68	42866										
TTN	7273	broad.mit.edu	37	chr2	179577633	179577633	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gaggtgttccttttacgataCttgtgaaagttacattggtc	10	6	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:179577633C>G	uc010zfg.1	-	91	23611	c.23387G>C	c.(23386-23388)AGT>ACT	p.S7796T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S4457T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8723							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)			TTTTACGATACTTGTGAAAGT	0.408													11	28	---	---	---	---	PASS	G	179577633	G	G	179577633	3	3	118	1	0	0	0	0	1	0	0	0	16732	565	20	4	77486	4	TTN	2	179577633	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	178760	179577633	63621740	69	42867										
TTN	7273	broad.mit.edu	37	chr2	179592014	179592014	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	caactctgatttctggggatCcagctatcttgcattcaagt	8	10	4	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:179592014C>A	uc010zfg.1	-	66	16570	c.16346G>T	c.(16345-16347)GGA>GTA	p.G5449V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.G2110V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6376							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)			TTCTGGGGATCCAGCTATCTT	0.418													13	72	---	---	---	---	PASS	A	179592014	A	A	179592014	3	1	118	1	0	0	0	0	1	0	0	0	16732	855	30	2	84627	2	TTN	2	179592014	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	14381	179592014	63607359	70	42868										
CERKL	375298	broad.mit.edu	37	chr2	182423343	182423343	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctctgacaggagtcaggattCggtctgtttccatcccagca	10	12	3	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:182423343C>T	uc002unx.2	-	6	949	c.848G>A	c.(847-849)CGA>CAA	p.R283Q	CERKL_uc002uny.2_Missense_Mutation_p.R257Q|CERKL_uc010zfm.1_Missense_Mutation_p.R239Q|CERKL_uc002unz.2_Missense_Mutation_p.R5Q|CERKL_uc002uoa.2_Intron|CERKL_uc002uob.2_Missense_Mutation_p.R5Q|CERKL_uc002uoc.2_Intron|CERKL_uc010frk.2_RNA|CERKL_uc002uod.1_Missense_Mutation_p.R52Q|CERKL_uc002uoe.2_Missense_Mutation_p.R257Q	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	283	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			AGTCAGGATTCGGTCTGTTTC	0.488													24	86	---	---	---	---	PASS	T	182423343	T	T	182423343	3	4	118	1	0	0	0	0	1	0	0	0	3268	884	31	2	864	2	CERKL	2	182423343	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	2831329	182423343	60776030	71	42869										
SSFA2	6744	broad.mit.edu	37	chr2	182780211	182780211	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	acagtccacctgtagtccagGggatcatatcattgaaatta	8	9	2	1	rs141978094		TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:182780211G>A	uc002uoi.2	+	11	2166	c.1844G>A	c.(1843-1845)GGG>GAG	p.G615E	SSFA2_uc002uoh.2_Missense_Mutation_p.G615E|SSFA2_uc002uoj.2_Missense_Mutation_p.G615E|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Missense_Mutation_p.G462E|SSFA2_uc002uol.2_Missense_Mutation_p.G462E|SSFA2_uc002uom.2_Missense_Mutation_p.G83E	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	615						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			TGTAGTCCAGGGGATCATATC	0.448													9	39	---	---	---	---	PASS	A	182780211	A	A	182780211	3	1	118	1	0	0	0	0	1	0	0	0	15182	1232	43	3	1886	3	SSFA2	2	182780211	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	356868	182780211	60419162	72	42870										
SSFA2	6744	broad.mit.edu	37	chr2	182780729	182780729	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aggaattggaaaagcgggtgAtggaacatgatggtcagtct	15	4	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:182780729A>C	uc002uoi.2	+	11	2684	c.2362A>C	c.(2362-2364)ATG>CTG	p.M788L	SSFA2_uc002uoh.2_Missense_Mutation_p.M788L|SSFA2_uc002uoj.2_Missense_Mutation_p.M788L|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Missense_Mutation_p.M635L|SSFA2_uc002uol.2_Missense_Mutation_p.M635L|SSFA2_uc002uom.2_Missense_Mutation_p.M256L	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	788						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			AAAGCGGGTGATGGAACATGA	0.483													9	63	---	---	---	---	PASS	C	182780729	C	C	182780729	3	2	118	1	0	0	0	0	1	0	0	0	15182	333	12	5	2404	5	SSFA2	2	182780729	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	518	182780729	60418644	73	42871										
COL3A1	1281	broad.mit.edu	37	chr2	189868835	189868835	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aggtgatgctggccaaccagGagagaagggatcgcctggtg	17	8	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:189868835G>A	uc002uqj.1	+	39	2906	c.2789G>A	c.(2788-2790)GGA>GAA	p.G930E		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	930	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	GGCCAACCAGGAGAGAAGGGA	0.502													16	51	---	---	---	---	PASS	A	189868835	A	A	189868835	3	1	118	1	0	0	0	0	1	0	0	0	3688	1174	41	2	2943	2	COL3A1	2	189868835	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	7088106	189868835	53330538	74	42872										
PMS1	5378	broad.mit.edu	37	chr2	190728639	190728639	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aacctcattatctaatcaacCaaaacttgatgaactccttc	2	12	3	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:190728639C>T	uc002urh.3	+	10	2556	c.2027C>T	c.(2026-2028)CCA>CTA	p.P676L	PMS1_uc010zga.1_3'UTR|PMS1_uc010zgb.1_Missense_Mutation_p.P615L|PMS1_uc002urk.3_Missense_Mutation_p.P637L|PMS1_uc002uri.3_Intron|PMS1_uc010zgc.1_Missense_Mutation_p.P500L|PMS1_uc010zgd.1_Missense_Mutation_p.P500L|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Missense_Mutation_p.P637L|PMS1_uc010frz.2_Intron|PMS1_uc002url.2_Intron|PMS1_uc002urm.2_RNA|PMS1_uc002urn.1_Missense_Mutation_p.P344L	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	676					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding	p.P676R(1)		ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			TCTAATCAACCAAAACTTGAT	0.333			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					19	89	---	---	---	---	PASS	T	190728639	T	T	190728639	3	4	118	1	0	0	0	0	1	0	0	0	12142	594	21	3	2061	3	PMS1	2	190728639	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	859804	190728639	52470734	75	42873										
BARD1	580	broad.mit.edu	37	chr2	215645566	215645566	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gtttgcttaacaaaatctccActggtgctcagaatgctggt	9	9	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:215645566A>C	uc002veu.2	-	4	1167	c.1032T>G	c.(1030-1032)AGT>AGG	p.S344R	BARD1_uc010zjm.1_Missense_Mutation_p.S200R	NM_000465	NP_000456	Q99728	BARD1_HUMAN	BRCA1 associated RING domain 1	344					cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		CAAAATCTCCACTGGTGCTCA	0.413									Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				22	77	---	---	---	---	PASS	C	215645566	C	C	215645566	3	2	118	1	0	0	0	0	1	0	0	0	1312	156	6	5	1333	5	BARD1	2	215645566	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	24916927	215645566	27553807	76	42874										
STK36	27148	broad.mit.edu	37	chr2	219558038	219558038	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccctcatctctggcctgcagCatcccatcctgtgcctgcac	7	19	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:219558038C>T	uc002viu.2	+	17	2385	c.2119C>T	c.(2119-2121)CAT>TAT	p.H707Y	STK36_uc002viv.2_Missense_Mutation_p.H707Y|STK36_uc002viw.2_5'Flank	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	707					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		TGGCCTGCAGCATCCCATCCT	0.448													18	52	---	---	---	---	PASS	T	219558038	T	T	219558038	3	4	118	1	0	0	0	0	1	0	0	0	15301	710	25	3	2181	3	STK36	2	219558038	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	3912472	219558038	23641335	77	42875										
CHPF	79586	broad.mit.edu	37	chr2	220404186	220404186	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aggccctcaagcacgctctgGaggcagcggtggtacaggtc	15	12	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:220404186G>A	uc002vmc.3	-	4	2474	c.2247C>T	c.(2245-2247)CTC>CTT	p.L749L	CHPF_uc010zlh.1_Silent_p.L587L	NM_024536	NP_078812	Q8IZ52	CHSS2_HUMAN	chondroitin polymerizing factor	749	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity|protein binding				0		Renal(207;0.0183)		Epithelial(149;3.02e-08)|all cancers(144;3.41e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		GCACGCTCTGGAGGCAGCGGT	0.682													7	36	---	---	---	---	PASS	A	220404186	A	A	220404186	2	1	118	1	0	0	0	0	0	0	0	1	3368	1161	41	2		2	CHPF	2	220404186	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	846148	220404186	22795187	78	42876										
ALPPL2	251	broad.mit.edu	37	chr2	233272586	233272586	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggagtggtaaccaccacacgGgtgcagcatgcctcgccagc	13	14	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:233272586G>A	uc002vss.3	+	5	560	c.507G>A	c.(505-507)CGG>CGA	p.R169R		NM_031313	NP_112603	P10696	PPBN_HUMAN	placental-like alkaline phosphatase	169					phosphorylation	anchored to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			skin(1)	1		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;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)|Levamisole(DB00848)	CCACCACACGGGTGCAGCATG	0.662													20	68	---	---	---	---	PASS	A	233272586	A	A	233272586	2	1	118	1	0	0	0	0	0	0	0	1	549	1219	43	3		3	ALPPL2	2	233272586	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	12868400	233272586	9926787	79	42877										
ATG16L1	55054	broad.mit.edu	37	chr2	234198998	234198998	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aaattcgtttctgggacattCggtatgatacccaagctcct	8	10	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:234198998C>A	uc002vty.2	+	14	1686	c.1429C>A	c.(1429-1431)CGA>AGA	p.R477R	ATG16L1_uc002vtx.1_Silent_p.R314R|ATG16L1_uc002vua.2_Silent_p.R458R|ATG16L1_uc002vub.2_Silent_p.R335R|ATG16L1_uc002vtz.2_Silent_p.R298R|ATG16L1_uc002vud.3_Silent_p.R393R	NM_030803	NP_110430	Q676U5	A16L1_HUMAN	APG16 autophagy 16-like isoform 1	477	WD 4.				autophagic vacuole assembly|protein homooligomerization|protein transport	autophagic vacuole|pre-autophagosomal structure membrane	protein binding				0		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0539)		Epithelial(121;1.53e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000379)|LUSC - Lung squamous cell carcinoma(224;0.00619)|Lung(119;0.00732)|GBM - Glioblastoma multiforme(43;0.11)		CTGGGACATTCGGTATGATAC	0.428													4	87	---	---	---	---	PASS	A	234198998	A	A	234198998	2	1	118	1	0	0	0	0	0	0	0	1	1091	898	31	2		2	ATG16L1	2	234198998	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	926412	234198998	9000375	80	42878										
UGT1A8	54576	broad.mit.edu	37	chr2	234526456	234526456	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgctggtagtgcccatggatGggagtcactggttcaccatg	14	9	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:234526456G>A	uc002vup.2	+	1	166	c.103G>A	c.(103-105)GGG>AGG	p.G35R	UGT1A8_uc010zmv.1_Missense_Mutation_p.G35R	NM_019076	NP_061949	Q9HAW9	UD18_HUMAN	UDP glycosyltransferase 1 family, polypeptide A8	35					drug metabolic process|fatty acid metabolic process|flavone metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme inhibitor activity|fatty acid binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|steroid binding			ovary(2)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;2.56e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000482)|Lung(119;0.00404)|LUSC - Lung squamous cell carcinoma(224;0.008)		GCCCATGGATGGGAGTCACTG	0.572													16	100	---	---	---	---	PASS	A	234526456	A	A	234526456	3	1	118	1	0	0	0	0	1	0	0	0	16948	1348	47	3	105	3	UGT1A8	2	234526456	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	327458	234526456	8672917	81	42879										
UGT1A5	54579	broad.mit.edu	37	chr2	234675779	234675779	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cagagaagaaagctatggcaAttgctgatgctttgggcaaa	12	6	0	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr2:234675779A>G	uc002vuw.2	+	2	967	c.967A>G	c.(967-969)ATT>GTT	p.I323V	UGT1A8_uc010zmv.1_Missense_Mutation_p.I319V|UGT1A8_uc002vup.2_Missense_Mutation_p.I319V|UGT1A10_uc002vuq.3_Missense_Mutation_p.I319V|UGT1A10_uc002vur.2_Missense_Mutation_p.I319V|UGT1A9_uc010zmw.1_Missense_Mutation_p.I319V|UGT1A9_uc002vus.2_Missense_Mutation_p.I319V|UGT1A7_uc010zmx.1_Missense_Mutation_p.I319V|UGT1A7_uc002vut.2_Missense_Mutation_p.I319V|UGT1A6_uc002vuu.2_Missense_Mutation_p.I54V|UGT1A6_uc010zmy.1_Missense_Mutation_p.I321V|UGT1A6_uc002vuv.3_Missense_Mutation_p.I321V|UGT1A5_uc010zmz.1_Missense_Mutation_p.I323V|UGT1A4_uc010zna.1_Missense_Mutation_p.I323V|UGT1A4_uc002vux.2_Missense_Mutation_p.I323V|UGT1A3_uc010znb.1_Missense_Mutation_p.I323V|UGT1A3_uc002vuy.2_Missense_Mutation_p.I323V|UGT1A9_uc002vva.2_RNA|UGT1A1_uc010znc.1_Missense_Mutation_p.I322V|UGT1A1_uc002vvb.2_Missense_Mutation_p.I322V	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	323					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		AGCTATGGCAATTGCTGATGC	0.418													30	119	---	---	---	---	PASS	G	234675779	G	G	234675779	3	3	118	1	0	0	0	0	1	0	0	0	16945	101	4	5	973	5	UGT1A5	2	234675779	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	149323	234675779	8523594	82	42880										
NUP210	23225	broad.mit.edu	37	chr3	13381467	13381467	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cccagcagcgctcaccagcgCaacgctctcattgctgatgg	10	16	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:13381467C>A	uc003bxv.1	-	25	3441	c.3358G>T	c.(3358-3360)GCG>TCG	p.A1120S		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1120	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)					CTCACCAGCGCAACGCTCTCA	0.612													72	116	---	---	---	---	PASS	A	13381467	A	A	13381467	3	1	118	1	0	0	0	0	1	0	0	0	10760	710	25	3	2369	3	NUP210	3	13381467	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08		13381467	184640963	83	42881										
KLHL18	23276	broad.mit.edu	37	chr3	47371567	47371567	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gtgtccatgtcagaagagttCctggccctgcccttggaaga	12	11	1	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:47371567C>T	uc003crd.2	+	4	654	c.528C>T	c.(526-528)TTC>TTT	p.F176F	KLHL18_uc003crc.2_Silent_p.F176F|KLHL18_uc011bav.1_Silent_p.F64F|KLHL18_uc010hjq.1_Silent_p.F27F	NM_025010	NP_079286	O94889	KLH18_HUMAN	kelch-like 18	176	BACK.										0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)		CAGAAGAGTTCCTGGCCCTGC	0.542													19	53	---	---	---	---	PASS	T	47371567	T	T	47371567	2	4	118	1	0	0	0	0	0	0	0	1	8373	854	30	2		2	KLHL18	3	47371567	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	33990100	47371567	150650863	84	42882										
FEZF2	55079	broad.mit.edu	37	chr3	62357265	62357265	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gcctggcgaaagcctttgccGcagactttgcacacgaacgg	12	13	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:62357265G>A	uc003dlh.2	-	2	1137	c.930C>T	c.(928-930)TGC>TGT	p.C310C	FEZF2_uc003dli.2_Silent_p.C310C	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	310	C2H2-type 2.				transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		AGCCTTTGCCGCAGACTTTGC	0.617													3	58	---	---	---	---	PASS	A	62357265	A	A	62357265	2	1	118	1	0	0	0	0	0	0	0	1	5826	1079	38	1		1	FEZF2	3	62357265	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	14985698	62357265	135665165	85	42883										
GCET2	257144	broad.mit.edu	37	chr3	111844071	111844071	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agcttagagatgttcttattAcctggatgggagtagatgac	12	5	1	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:111844071A>T	uc003dys.1	-	5	369	c.219_splice	c.e5+1	p.Q73_splice	C3orf52_uc011bht.1_Intron|C3orf52_uc003dyr.1_Intron|GCET2_uc003dyt.1_Splice_Site_p.Q7_splice	NM_152785	NP_689998	Q8N6F7	GCET2_HUMAN	germinal center expressed transcript 2 isoform							mitochondrion					0						TGTTCTTATTACCTGGATGGG	0.423													20	75	---	---	---	---	PASS	T	111844071	T	T	111844071	5	4	118	1	0	0	0	0	0	0	1	0	6288	405	14	5	323	5	GCET2	3	111844071	Splice_Site	SNP	A	TCGA-56-6546-01A-11D-1817-08	49486806	111844071	86178359	86	42884										
KIAA2018	205717	broad.mit.edu	37	chr3	113378936	113378936	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggctgagccatctgaatcacTtgcattgctgaattcagtgg	11	9	3	3	rs34032790		TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:113378936T>C	uc003eam.2	-	7	2004	c.1593A>G	c.(1591-1593)CAA>CAG	p.Q531Q	KIAA2018_uc003eal.2_Silent_p.Q475Q	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	531					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						TCTGAATCACTTGCATTGCTG	0.448													28	108	---	---	---	---	PASS	C	113378936	C	C	113378936	2	2	118	1	0	0	0	0	0	0	0	1	8268	1606	56	5		5	KIAA2018	3	113378936	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	1534865	113378936	84643494	87	42885										
KIAA1407	57577	broad.mit.edu	37	chr3	113721326	113721326	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tttttcttcttcttgtttttTcttcttctctgccaagatcc	3	11	6	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:113721326T>A	uc003eax.2	-	12	2185	c.2038A>T	c.(2038-2040)AAA>TAA	p.K680*	KIAA1407_uc011bin.1_RNA	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	680	Potential.									ovary(2)	2						TCTTGTTTTTTCTTCTTCTCT	0.323													9	60	---	---	---	---	PASS	A	113721326	A	A	113721326	4	1	118	1	0	0	0	0	0	1	0	0	8229	1792	62	5	796	5	KIAA1407	3	113721326	Nonsense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	342390	113721326	84301104	88	42886										
GOLGB1	2804	broad.mit.edu	37	chr3	121414584	121414584	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cttagaagatttcaaagattCaatttccttcactaactttt	3	8	3	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:121414584C>T	uc003eei.3	-	13	4897	c.4771G>A	c.(4771-4773)GAA>AAA	p.E1591K	GOLGB1_uc010hrc.2_Missense_Mutation_p.E1596K|GOLGB1_uc003eej.3_Missense_Mutation_p.E1557K|GOLGB1_uc011bjm.1_Missense_Mutation_p.E1477K|GOLGB1_uc010hrd.1_Missense_Mutation_p.E1555K	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1591	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TTCAAAGATTCAATTTCCTTC	0.378													37	156	---	---	---	---	PASS	T	121414584	T	T	121414584	3	4	118	1	0	0	0	0	1	0	0	0	6565	835	29	2	5048	2	GOLGB1	3	121414584	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	7693258	121414584	76607846	89	42887										
ABTB1	80325	broad.mit.edu	37	chr3	127396373	127396373	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agctgccctgacatctgcttCcgagtggctggctgcagctt	12	13	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:127396373C>T	uc003ejt.2	+	9	916	c.828C>T	c.(826-828)TTC>TTT	p.F276F	ABTB1_uc003ejr.2_Silent_p.F134F|ABTB1_uc003ejs.2_Silent_p.F251F|ABTB1_uc003eju.2_Silent_p.F134F|ABTB1_uc010hsm.2_Intron	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	276	BTB 2.					cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						ACATCTGCTTCCGAGTGGCTG	0.632													32	111	---	---	---	---	PASS	T	127396373	T	T	127396373	2	4	118	1	0	0	0	0	0	0	0	1	102	854	30	2		2	ABTB1	3	127396373	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	5981789	127396373	70626057	90	42888										
PIK3R4	30849	broad.mit.edu	37	chr3	130452596	130452596	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aagatatggagtaatacgatCcaaaaggatttcaacactta	7	6	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:130452596C>T	uc003enj.2	-	4	1827	c.1246G>A	c.(1246-1248)GAT>AAT	p.D416N		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	416	HEAT 1.				fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						GTAATACGATCCAAAAGGATT	0.423													14	72	---	---	---	---	PASS	T	130452596	T	T	130452596	3	4	118	1	0	0	0	0	1	0	0	0	11921	855	30	2	2898	2	PIK3R4	3	130452596	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	3056223	130452596	67569834	91	42889										
SLC9A9	285195	broad.mit.edu	37	chr3	143412060	143412060	+	Missense_Mutation	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctgtagcagacatcagtgaaCcaaaaaataaacagtcagtg							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:143412060C>A	uc003evn.2	-	5	805	c.623G>T	c.(622-624)GGT>GTT	p.G208V	SLC9A9_uc011bnk.1_Missense_Mutation_p.G82V	NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	208	Helical; (Potential).				regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						CATCAGTGAACCAAAAAATAA	0.338													8	45	---	---	---	---	PASS	A	143412060	A	A	143412060	3	1	118	1	0	0	0	0	1	0	0	0	14721	507	18	3	1362	3	SLC9A9	3	143412060	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	12959464	143412060	54610370	92	42890	805	2								
SLC9A9	285195	broad.mit.edu	37	chr3	143412061	143412061	+	Missense_Mutation	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgtagcagacatcagtgaacCaaaaaataaacagtcagtga							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:143412061C>A	uc003evn.2	-	5	804	c.622G>T	c.(622-624)GGT>TGT	p.G208C	SLC9A9_uc011bnk.1_Missense_Mutation_p.G82C	NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	208	Helical; (Potential).				regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						ATCAGTGAACCAAAAAATAAA	0.338													8	45	---	---	---	---	PASS	A	143412061	A	A	143412061	3	1	118	1	0	0	0	0	1	0	0	0	14721	594	21	3	1363	3	SLC9A9	3	143412061	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1	143412061	54610369	93	42891	805	2								
ZIC1	7545	broad.mit.edu	37	chr3	147128279	147128279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctttgctgcatcggccggggGcttcgggggcccacacggcc	16	15	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:147128279G>T	uc003ewe.2	+	1	1099	c.380G>T	c.(379-381)GGC>GTC	p.G127V		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	127					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TCGGCCGGGGGCTTCGGGGGC	0.701													5	24	---	---	---	---	PASS	T	147128279	T	T	147128279	3	4	118	1	0	0	0	0	1	0	0	0	17675	1203	42	3	382	3	ZIC1	3	147128279	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	3716218	147128279	50894151	94	42892										
ECE2	9718	broad.mit.edu	37	chr3	184001719	184001719	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccccaggaccagcggcgcgaCgaggagaagatctaccacaa	12	14	1	2	rs151261667		TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr3:184001719C>A	uc003fni.3	+	8	1355	c.1317C>A	c.(1315-1317)GAC>GAA	p.D439E	ECE2_uc011brh.1_Missense_Mutation_p.D292E|ECE2_uc003fnl.3_Missense_Mutation_p.D367E|ECE2_uc003fnm.3_Missense_Mutation_p.D321E|ECE2_uc003fnk.3_Missense_Mutation_p.D292E|ECE2_uc011bri.1_Missense_Mutation_p.D354E|ECE2_uc010hxv.2_Missense_Mutation_p.D83E	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	439	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGCGGCGCGACGAGGAGAAGA	0.637													6	46	---	---	---	---	PASS	A	184001719	A	A	184001719	3	1	118	1	0	0	0	0	1	0	0	0	4890	535	19	1	1911	1	ECE2	3	184001719	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	36873440	184001719	14020711	95	42893										
GAK	2580	broad.mit.edu	37	chr4	853458	853458	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gggttctgagacttggtccaGctggcctgagagccacaagg	15	10	1	2	rs138681664	by1000genomes	TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:853458G>A	uc003gbm.3	-	24	3418	c.3219C>T	c.(3217-3219)AGC>AGT	p.S1073S	GAK_uc003gbn.3_Silent_p.S994S|GAK_uc010ibi.2_Silent_p.S254S|GAK_uc010ibj.2_RNA|GAK_uc003gbl.3_Silent_p.S926S	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	1073					cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		ACTTGGTCCAGCTGGCCTGAG	0.607													16	84	---	---	---	---	PASS	A	853458	A	A	853458	2	1	118	1	0	0	0	0	0	0	0	1	6195	962	34	3		3	GAK	4	853458	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08		853458	190300818	96	42894										
PTTG2	10744	broad.mit.edu	37	chr4	37962456	37962456	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttttgacctgcctgaagagcGccagattgcacacctcccct	8	15	0	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:37962456G>A	uc011bye.1	+	1	401	c.401G>A	c.(400-402)CGC>CAC	p.R134H	TBC1D1_uc003gtb.2_Intron|TBC1D1_uc011byd.1_Intron|TBC1D1_uc010ifd.2_Intron	NM_006607	NP_006598	Q9NZH5	PTTG2_HUMAN	pituitary tumor-transforming 2	134					chromosome organization|DNA metabolic process	cytoplasm|nucleus	SH3 domain binding				0						CCTGAAGAGCGCCAGATTGCA	0.488													23	131	---	---	---	---	PASS	A	37962456	A	A	37962456	3	1	118	1	0	0	0	0	1	0	0	0	12821	1087	38	1	403	1	PTTG2	4	37962456	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	37108998	37962456	153191820	97	42895										
CORIN	10699	broad.mit.edu	37	chr4	47602230	47602230	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggtaaccagaaagcaacttaCcatgcatgaatcaactgtgc	8	10	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:47602230C>G	uc003gxm.2	-	21	3039	c.2946_splice	c.e21+1	p.M982_splice	CORIN_uc011bzf.1_Splice_Site_p.M843_splice|CORIN_uc011bzg.1_Splice_Site_p.M915_splice	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin						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						AAGCAACTTACCATGCATGAA	0.398													11	81	---	---	---	---	PASS	G	47602230	G	G	47602230	5	3	118	1	0	0	0	0	0	0	1	0	3752	521	18	4	189	4	CORIN	4	47602230	Splice_Site	SNP	C	TCGA-56-6546-01A-11D-1817-08	9639774	47602230	143552046	98	42896										
AASDH	132949	broad.mit.edu	37	chr4	57204949	57204949	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	attggtccactggtagagaaCtgccaaacctataacaagta	8	9	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:57204949C>G	uc003hbn.2	-	15	3069	c.2916G>C	c.(2914-2916)CAG>CAC	p.Q972H	AASDH_uc010ihb.2_Missense_Mutation_p.Q487H|AASDH_uc011caa.1_Missense_Mutation_p.V765L|AASDH_uc003hbo.2_Missense_Mutation_p.Q872H|AASDH_uc011cab.1_Missense_Mutation_p.Q487H|AASDH_uc010ihc.2_Missense_Mutation_p.V833L	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	972					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				TGGTAGAGAACTGCCAAACCT	0.343													10	40	---	---	---	---	PASS	G	57204949	G	G	57204949	3	3	118	1	0	0	0	0	1	0	0	0	22	564	20	4	384	4	AASDH	4	57204949	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	9602719	57204949	133949327	99	42897										
ENAM	10117	broad.mit.edu	37	chr4	71510196	71510196	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgttgaccttactcctgagcAgcttgttattggtacacctg	9	10	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:71510196A>T	uc011caw.1	+	9	3334	c.3053A>T	c.(3052-3054)CAG>CTG	p.Q1018L		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	1018					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			ACTCCTGAGCAGCTTGTTATT	0.428													14	73	---	---	---	---	PASS	T	71510196	T	T	71510196	3	4	118	1	0	0	0	0	1	0	0	0	5112	188	7	5	3083	5	ENAM	4	71510196	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	14305247	71510196	119644080	100	42898										
PPEF2	5470	broad.mit.edu	37	chr4	76793293	76793293	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gttgctgccaacttcatagtAgttggaggcagaaaagattg	12	6	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:76793293A>T	uc003hix.2	-	13	1891	c.1534T>A	c.(1534-1536)TAC>AAC	p.Y512N	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Missense_Mutation_p.Y512N	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	512	Catalytic.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			ACTTCATAGTAGTTGGAGGCA	0.473													16	38	---	---	---	---	PASS	T	76793293	T	T	76793293	3	4	118	1	0	0	0	0	1	0	0	0	12308	420	15	5	747	5	PPEF2	4	76793293	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	5283097	76793293	114360983	101	42899										
LIN54	132660	broad.mit.edu	37	chr4	83857199	83857199	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	attacaccctttgctatgacGtcgatcagattctccctcct	5	14	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:83857199G>A	uc003hnx.3	-	11	2158	c.1780C>T	c.(1780-1782)CGT>TGT	p.R594C	LIN54_uc003hnz.3_Missense_Mutation_p.R373C|LIN54_uc003hny.3_Missense_Mutation_p.R193C|LIN54_uc010ijt.2_Missense_Mutation_p.R505C|LIN54_uc010iju.2_Missense_Mutation_p.R193C|LIN54_uc010ijv.2_Missense_Mutation_p.R373C	NM_194282	NP_919258	Q6MZP7	LIN54_HUMAN	lin-54 homolog isoform a	594	CXC 2.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Hepatocellular(203;0.114)				TTGCTATGACGTCGATCAGAT	0.403													30	123	---	---	---	---	PASS	A	83857199	A	A	83857199	3	1	118	1	0	0	0	0	1	0	0	0	8809	1145	40	1	481	1	LIN54	4	83857199	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	7063906	83857199	107297077	102	42900										
UNC5C	8633	broad.mit.edu	37	chr4	96140439	96140439	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tacatggctgcagctgacgtGaggtctgggggtacagccag	16	9	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:96140439G>T	uc003htp.1	-	9	1480	c.1326C>A	c.(1324-1326)CTC>CTA	p.L442L	UNC5C_uc010ilc.1_Silent_p.L461L|UNC5C_uc003htq.2_Silent_p.L461L	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	442	Cytoplasmic (Potential).				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		CAGCTGACGTGAGGTCTGGGG	0.507													47	189	---	---	---	---	PASS	T	96140439	T	T	96140439	2	4	118	1	0	0	0	0	0	0	0	1	16990	1277	45	2		2	UNC5C	4	96140439	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	12283240	96140439	95013837	103	42901										
NDST4	64579	broad.mit.edu	37	chr4	115749016	115749016	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tctcagccacgatggcagagGctgtcccagtctgtgtagca	12	12	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:115749016G>T	uc003ibu.2	-	14	3254	c.2575C>A	c.(2575-2577)CCT>ACT	p.P859T	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	859	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		GATGGCAGAGGCTGTCCCAGT	0.403													16	59	---	---	---	---	PASS	T	115749016	T	T	115749016	3	4	118	1	0	0	0	0	1	0	0	0	10258	1203	42	3	47	3	NDST4	4	115749016	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	19608577	115749016	75405260	104	42902										
NDST4	64579	broad.mit.edu	37	chr4	115997560	115997560	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tccccaggaagagggcctttCtcaaccttgggggctttggt	13	11	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:115997560C>G	uc003ibu.2	-	2	1312	c.633G>C	c.(631-633)GAG>GAC	p.E211D	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	211	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		GAGGGCCTTTCTCAACCTTGG	0.408													7	72	---	---	---	---	PASS	G	115997560	G	G	115997560	3	3	118	1	0	0	0	0	1	0	0	0	10258	912	32	2	2037	2	NDST4	4	115997560	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	248544	115997560	75156716	105	42903										
PRSS12	8492	broad.mit.edu	37	chr4	119203396	119203396	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tagtgttcttgaataggctcGtcctactcagaccaaacatc	7	11	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:119203396G>A	uc003ica.1	-	13	2370	c.2323C>T	c.(2323-2325)CGA>TGA	p.R775*		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	775	Peptidase S1.					membrane	scavenger receptor activity			skin(1)	1						GAATAGGCTCGTCCTACTCAG	0.393													17	75	---	---	---	---	PASS	A	119203396	A	A	119203396	4	1	118	1	0	0	0	0	0	1	0	0	12615	1153	40	1	308	1	PRSS12	4	119203396	Nonsense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	3205836	119203396	71950880	106	42904										
FAT4	79633	broad.mit.edu	37	chr4	126239746	126239746	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	caatggtactgtcaaatataGcatatctgctggggacaggt	11	7	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:126239746G>A	uc003ifj.3	+	1	2180	c.2180G>A	c.(2179-2181)AGC>AAC	p.S727N		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	727	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GTCAAATATAGCATATCTGCT	0.463													10	49	---	---	---	---	PASS	A	126239746	A	A	126239746	3	1	118	1	0	0	0	0	1	0	0	0	5692	971	34	3	2182	3	FAT4	4	126239746	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	7036350	126239746	64914530	107	42905										
GLRB	2743	broad.mit.edu	37	chr4	158057978	158057978	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tatctattactctttcatgcCctttggacttgacattgttt	5	9	3	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:158057978C>A	uc003ipj.2	+	6	752	c.550C>A	c.(550-552)CCT>ACT	p.P184T		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	184	Extracellular (Probable).				nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	TCTTTCATGCCCTTTGGACTT	0.333													16	53	---	---	---	---	PASS	A	158057978	A	A	158057978	3	1	118	1	0	0	0	0	1	0	0	0	6458	623	22	3	568	3	GLRB	4	158057978	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	31818232	158057978	33096298	108	42906										
TKTL2	84076	broad.mit.edu	37	chr4	164393795	164393795	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgttcagcaataatacactcTatgaaacgctcagggtgttc	8	9	3	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:164393795T>C	uc003iqp.3	-	1	1253	c.1092A>G	c.(1090-1092)ATA>ATG	p.I364M		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	364						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TAATACACTCTATGAAACGCT	0.373													20	86	---	---	---	---	PASS	C	164393795	C	C	164393795	3	2	118	1	0	0	0	0	1	0	0	0	15933	1512	53	5	792	5	TKTL2	4	164393795	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	6335817	164393795	26760481	109	42907										
TRIM60	166655	broad.mit.edu	37	chr4	165962132	165962132	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgtgattctagatctcaacaCagcacatcctcaacttcttg	5	12	4	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:165962132C>A	uc003iqy.1	+	3	1078	c.908C>A	c.(907-909)ACA>AAA	p.T303K	TRIM60_uc010iqx.1_Missense_Mutation_p.T303K	NM_152620	NP_689833	Q495X7	TRI60_HUMAN	ring finger protein 129	303	B30.2/SPRY.					intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0844)		GATCTCAACACAGCACATCCT	0.363													15	143	---	---	---	---	PASS	A	165962132	A	A	165962132	3	1	118	1	0	0	0	0	1	0	0	0	16532	478	17	3	910	3	TRIM60	4	165962132	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1568337	165962132	25192144	110	42908										
WDR17	116966	broad.mit.edu	37	chr4	177032734	177032734	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttgtttttcaaggcaaacatGtcccaggtaaggcaagtggg	12	7	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:177032734G>A	uc003iuj.2	+	3	231	c.75G>A	c.(73-75)ATG>ATA	p.M25I	WDR17_uc003iuk.2_Missense_Mutation_p.M1I|WDR17_uc003ium.3_Missense_Mutation_p.M1I|WDR17_uc003iul.1_Missense_Mutation_p.M1I	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	25										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		AGGCAAACATGTCCCAGGTAA	0.438													9	81	---	---	---	---	PASS	A	177032734	A	A	177032734	3	1	118	1	0	0	0	0	1	0	0	0	17274	1377	48	3	81	3	WDR17	4	177032734	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	11070602	177032734	14121542	111	42909										
TUBB4Q	56604	broad.mit.edu	37	chr4	190905411	190905411	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gtcctcgcccgcagctcacgGgaaatgaagttgtctggcct	12	13	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr4:190905411G>T	uc011clg.1	-	3	276	c.273C>A	c.(271-273)TCC>TCA	p.S91S		NM_020040	NP_064424	Q99867	TBB4Q_HUMAN	tubulin, beta polypeptide 4, member Q	92					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;4.1e-31)|Epithelial(3;1.44e-30)|OV - Ovarian serous cystadenocarcinoma(60;2.03e-15)|BRCA - Breast invasive adenocarcinoma(30;8.54e-06)|Lung(3;3.23e-05)|STAD - Stomach adenocarcinoma(60;8.24e-05)|LUSC - Lung squamous cell carcinoma(40;0.000184)|GBM - Glioblastoma multiforme(59;0.00839)|READ - Rectum adenocarcinoma(43;0.155)		GCAGCTCACGGGAAATGAAGT	0.652													10	76	---	---	---	---	PASS	T	190905411	T	T	190905411	2	4	118	1	0	0	0	0	0	0	0	1	16756	1246	43	3		3	TUBB4Q	4	190905411	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	13872677	190905411	248865	112	42910										
MARCH11	441061	broad.mit.edu	37	chr5	16090997	16090997	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cgttgaaggtcatggtcttaCctatgcacactagatccata	8	10	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:16090997C>A	uc003jfo.2	-	3	1099	c.886_splice	c.e3+1	p.G296_splice	MARCH11_uc010itw.1_Intron	NM_001102562	NP_001096032	A6NNE9	MARHB_HUMAN	membrane-associated ring finger (C3HC4) 11							cytoplasmic vesicle membrane|integral to membrane	ligase activity|zinc ion binding				0						CATGGTCTTACCTATGCACAC	0.428													18	55	---	---	---	---	PASS	A	16090997	A	A	16090997	5	1	118	1	0	0	0	0	0	0	1	0	9300	521	18	3	329	3	MARCH11	5	16090997	Splice_Site	SNP	C	TCGA-56-6546-01A-11D-1817-08		16090997	164824263	113	42911										
AGXT2	64902	broad.mit.edu	37	chr5	35047982	35047982	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	caagggtctcagcaaatgtcTccagattagagtcatttctc	8	10	4	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:35047982T>A	uc003jjf.2	-	1	95	c.16A>T	c.(16-18)AGA>TGA	p.R6*	AGXT2_uc011com.1_Nonsense_Mutation_p.R6*|AGXT2_uc011con.1_5'UTR	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	6					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	AGCAAATGTCTCCAGATTAGA	0.537													8	48	---	---	---	---	PASS	A	35047982	A	A	35047982	4	1	118	1	0	0	0	0	0	1	0	0	405	1559	54	5	1584	5	AGXT2	5	35047982	Nonsense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	18956985	35047982	145867278	114	42912										
FYB	2533	broad.mit.edu	37	chr5	39202365	39202365	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gttttaaagggccgcttttgGacctgactcccaggggagct	13	10	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:39202365G>T	uc003jls.2	-	1	765	c.698C>A	c.(697-699)TCC>TAC	p.S233Y	FYB_uc003jlt.2_Missense_Mutation_p.S233Y|FYB_uc003jlu.2_Missense_Mutation_p.S233Y|FYB_uc011cpl.1_Missense_Mutation_p.S243Y	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	233					cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			GCCGCTTTTGGACCTGACTCC	0.502													40	198	---	---	---	---	PASS	T	39202365	T	T	39202365	3	4	118	1	0	0	0	0	1	0	0	0	6124	1174	41	2	1863	2	FYB	5	39202365	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	4154383	39202365	141712895	115	42913										
C7	730	broad.mit.edu	37	chr5	40950040	40950040	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gaagaaaagaaatgtaaatcCtcaggttggcattttgtcgt	10	5	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:40950040C>G	uc003jmh.2	+	9	1131	c.1017C>G	c.(1015-1017)TCC>TCG	p.S339S	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	339	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				AATGTAAATCCTCAGGTTGGC	0.353													11	31	---	---	---	---	PASS	G	40950040	G	G	40950040	2	3	118	1	0	0	0	0	0	0	0	1	2375	668	24	4		4	C7	5	40950040	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	1747675	40950040	139965220	116	42914										
HEATR7B2	133558	broad.mit.edu	37	chr5	41032884	41032884	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	taaggctttccaccgaatagGgctagctaaggaatccaggg	12	9	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:41032884G>T	uc003jmj.3	-	24	2891	c.2401C>A	c.(2401-2403)CCT>ACT	p.P801T	HEATR7B2_uc003jmi.3_Missense_Mutation_p.P356T	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	801	HEAT 9.						binding			ovary(6)|central_nervous_system(2)	8						CACCGAATAGGGCTAGCTAAG	0.398													13	39	---	---	---	---	PASS	T	41032884	T	T	41032884	3	4	118	1	0	0	0	0	1	0	0	0	7035	1232	43	3	2432	3	HEATR7B2	5	41032884	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	82844	41032884	139882376	117	42915										
HCN1	348980	broad.mit.edu	37	chr5	45262787	45262787	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttgaggataattgatgggagCgattgcctgcaccatctccc	11	10	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:45262787C>A	uc003jok.2	-	8	1934	c.1909G>T	c.(1909-1911)GCT>TCT	p.A637S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	637	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TTGATGGGAGCGATTGCCTGC	0.483													8	122	---	---	---	---	PASS	A	45262787	A	A	45262787	3	1	118	1	0	0	0	0	1	0	0	0	6996	768	27	1	767	1	HCN1	5	45262787	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	4229903	45262787	135652473	118	42916										
RAD17	5884	broad.mit.edu	37	chr5	68692239	68692239	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gttagacacgctctttactcAgggaatatagcacatctata	7	9	3	1	rs148563193		TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:68692239A>T	uc003jwo.2	+	13	1533	c.1471A>T	c.(1471-1473)AGG>TGG	p.R491W	RAD17_uc003jwg.2_Missense_Mutation_p.R480W|RAD17_uc003jwh.2_Missense_Mutation_p.R480W|RAD17_uc003jwi.2_Missense_Mutation_p.R480W|RAD17_uc003jwj.2_Missense_Mutation_p.R480W|RAD17_uc003jwk.2_Missense_Mutation_p.R480W|RAD17_uc003jwl.2_Missense_Mutation_p.R480W|RAD17_uc003jwm.2_Missense_Mutation_p.R315W|RAD17_uc003jwn.2_Missense_Mutation_p.R394W|RAD17_uc003jwp.2_Missense_Mutation_p.R51W	NM_133339	NP_579917	O75943	RAD17_HUMAN	RAD17 homolog isoform 2	491	Interaction with MCM7.				cell cycle|DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint|mitotic cell cycle checkpoint|negative regulation of DNA replication|regulation of phosphorylation	nucleoplasm	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Lung NSC(167;5.19e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;9.36e-57)|Epithelial(20;1.21e-52)|all cancers(19;3.34e-48)|Lung(70;0.0183)		CTCTTTACTCAGGGAATATAG	0.388								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					5	26	---	---	---	---	PASS	T	68692239	T	T	68692239	3	4	118	1	0	0	0	0	1	0	0	0	12979	179	7	5	1534	5	RAD17	5	68692239	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	23429452	68692239	112223021	119	42917										
RASA1	5921	broad.mit.edu	37	chr5	86672713	86672713	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tttagcttatactgcaaaagGaacttcatgtagtctatgct	7	7	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:86672713G>T	uc003kiw.2	+	17	2318	c.2200G>T	c.(2200-2202)GAA>TAA	p.E734*	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Nonsense_Mutation_p.E557*|RASA1_uc011ctv.1_Nonsense_Mutation_p.E567*|RASA1_uc011ctw.1_Nonsense_Mutation_p.E568*|RASA1_uc010jaw.2_Nonsense_Mutation_p.E556*	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	734					cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		ACTGCAAAAGGAACTTCATGT	0.358													18	48	---	---	---	---	PASS	T	86672713	T	T	86672713	4	4	118	1	0	0	0	0	0	1	0	0	13060	1175	41	2	2278	2	RASA1	5	86672713	Nonsense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	17980474	86672713	94242547	120	42918										
P4HA2	8974	broad.mit.edu	37	chr5	131530683	131530683	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cggtagtcaccttccccgctCcgcaagaggttgtaccagaa	10	14	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:131530683C>G	uc003kwh.2	-	14	2037	c.1473G>C	c.(1471-1473)CGG>CGC	p.R491R	P4HA2_uc003kwg.2_Silent_p.R489R|P4HA2_uc003kwi.2_Silent_p.R489R|P4HA2_uc003kwk.2_Silent_p.R489R|P4HA2_uc003kwl.2_Silent_p.R491R|P4HA2_uc003kwj.2_Silent_p.R489R	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	491	Fe2OG dioxygenase.					endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	CTTCCCCGCTCCGCAAGAGGT	0.542													19	54	---	---	---	---	PASS	G	131530683	G	G	131530683	2	3	118	1	0	0	0	0	0	0	0	1	11357	842	30	2		2	P4HA2	5	131530683	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	44857970	131530683	49384577	121	42919										
PCDHB4	56131	broad.mit.edu	37	chr5	140502062	140502062	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aatagctgaggatttggatgTgggcagcaatggtcttcaaa	13	5	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:140502062T>A	uc003lip.1	+	1	482	c.482T>A	c.(481-483)GTG>GAG	p.V161E		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	161	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GATTTGGATGTGGGCAGCAAT	0.423													18	34	---	---	---	---	PASS	A	140502062	A	A	140502062	3	1	118	1	0	0	0	0	1	0	0	0	11544	1696	59	5	484	5	PCDHB4	5	140502062	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	8971379	140502062	40413198	122	42920										
PCDHB12	56124	broad.mit.edu	37	chr5	140588483	140588483	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gttttggaaaagaagctatgGaaaacggaggggcaggcact	15	5	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:140588483G>T	uc003liz.2	+	1	193	c.4G>T	c.(4-6)GAA>TAA	p.E2*	PCDHB12_uc011dak.1_5'UTR	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	2					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGAAGCTATGGAAAACGGAGG	0.488													23	71	---	---	---	---	PASS	T	140588483	T	T	140588483	4	4	118	1	0	0	0	0	0	1	0	0	11537	1175	41	2	6	2	PCDHB12	5	140588483	Nonsense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	86421	140588483	40326777	123	42921										
PCDHGB3	56102	broad.mit.edu	37	chr5	140752099	140752099	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggtgattctggcaatctcccTgcgcctgcgatgctcctcca	10	15	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:140752099T>C	uc003ljw.1	+	1	2138	c.2138T>C	c.(2137-2139)CTG>CCG	p.L713P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.L713P|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	713	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAATCTCCCTGCGCCTGCGA	0.582													11	43	---	---	---	---	PASS	C	140752099	C	C	140752099	3	2	118	1	0	0	0	0	1	0	0	0	11564	1580	55	5	2140	5	PCDHGB3	5	140752099	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	163616	140752099	40163161	124	42922										
PCDHGA11	56105	broad.mit.edu	37	chr5	140802039	140802039	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agagtgctggacagggagttGgtccagagctacaatataac	13	7	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:140802039G>T	uc003lkq.1	+	1	1503	c.1245G>T	c.(1243-1245)TTG>TTT	p.L415F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.L415F|PCDHGA11_uc003lkp.1_Missense_Mutation_p.L415F	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	415	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAGGGAGTTGGTCCAGAGCT	0.428													36	79	---	---	---	---	PASS	T	140802039	T	T	140802039	3	4	118	1	0	0	0	0	1	0	0	0	11552	1339	47	3	1247	3	PCDHGA11	5	140802039	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	49940	140802039	40113221	125	42923										
SGCD	6444	broad.mit.edu	37	chr5	155771565	155771565	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctgtggggccacaggtatacAaggtggggatttatggctgg	17	6	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:155771565A>C	uc003lwd.3	+	2	543	c.67A>C	c.(67-69)AAG>CAG	p.K23Q	SGCD_uc003lwa.1_Missense_Mutation_p.K24Q|SGCD_uc003lwb.2_Missense_Mutation_p.K24Q|SGCD_uc003lwc.3_Missense_Mutation_p.K24Q	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	23	Cytoplasmic (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ACAGGTATACAAGGTGGGGAT	0.502													19	59	---	---	---	---	PASS	C	155771565	C	C	155771565	3	2	118	1	0	0	0	0	1	0	0	0	14201	131	5	5	76	5	SGCD	5	155771565	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	14969526	155771565	25143695	126	42924										
B4GALT7	11285	broad.mit.edu	37	chr5	177036618	177036618	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tcccgcactgccctgtctgtGggcggggccccctgcactgt	13	17	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr5:177036618G>T	uc003mhy.2	+	6	946	c.906G>T	c.(904-906)GTG>GTT	p.V302V	B4GALT7_uc003mhz.2_Silent_p.V188V	NM_007255	NP_009186	Q9UBV7	B4GT7_HUMAN	xylosylprotein beta 1,4-galactosyltransferase 7	302	Lumenal (Potential).				fibril organization|glycosaminoglycan biosynthetic process|negative regulation of fibroblast proliferation|protein modification process|proteoglycan metabolic process	Golgi cisterna membrane|integral to membrane	metal ion binding|xylosylprotein 4-beta-galactosyltransferase activity			pancreas(1)	1	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCCTGTCTGTGGGCGGGGCCC	0.592													13	36	---	---	---	---	PASS	T	177036618	T	T	177036618	2	4	118	1	0	0	0	0	0	0	0	1	1276	1335	47	3		3	B4GALT7	5	177036618	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	21265053	177036618	3878642	127	42925										
RREB1	6239	broad.mit.edu	37	chr6	7229882	7229882	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gcccctggtcacaccacggaCggtggtggccacctccacgc	12	18	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:7229882C>T	uc003mxc.2	+	10	1940	c.1550C>T	c.(1549-1551)ACG>ATG	p.T517M	RREB1_uc003mxb.2_Missense_Mutation_p.T517M|RREB1_uc010jnx.2_Missense_Mutation_p.T517M	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	517	Pro-rich.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				ACACCACGGACGGTGGTGGCC	0.677													36	121	---	---	---	---	PASS	T	7229882	T	T	7229882	3	4	118	1	0	0	0	0	1	0	0	0	13679	536	19	1	1576	1	RREB1	6	7229882	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08		7229882	163885185	128	42926										
DSP	1832	broad.mit.edu	37	chr6	7583007	7583007	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggctggaggatgagctgaatCgtgcaaaatcaactctagag	13	7	2	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:7583007C>T	uc003mxp.1	+	24	5791	c.5512C>T	c.(5512-5514)CGT>TGT	p.R1838C	DSP_uc003mxq.1_Missense_Mutation_p.R1239C	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1838	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TGAGCTGAATCGTGCAAAATC	0.483													29	134	---	---	---	---	PASS	T	7583007	T	T	7583007	3	4	118	1	0	0	0	0	1	0	0	0	4781	884	31	2	5606	2	DSP	6	7583007	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	353125	7583007	163532060	129	42927										
DHX16	8449	broad.mit.edu	37	chr6	30638192	30638192	+	Missense_Mutation	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggccctgggactcaccatggCcttccggtcttcctcggcca							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:30638192C>A	uc003nqz.2	-	4	873	c.661G>T	c.(661-663)GCC>TCC	p.A221S	DHX16_uc011dmo.1_Missense_Mutation_p.A161S	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	221					mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4						CTCACCATGGCCTTCCGGTCT	0.517													5	21	---	---	---	---	PASS	A	30638192	A	A	30638192	3	1	118	1	0	0	0	0	1	0	0	0	4502	739	26	3	2532	3	DHX16	6	30638192	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	23055185	30638192	140476875	130	42928	806	2								
DHX16	8449	broad.mit.edu	37	chr6	30638193	30638193	+	Missense_Mutation	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gccctgggactcaccatggcCttccggtcttcctcggccat							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:30638193C>A	uc003nqz.2	-	4	872	c.660G>T	c.(658-660)AAG>AAT	p.K220N	DHX16_uc011dmo.1_Missense_Mutation_p.K160N	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	220					mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4						TCACCATGGCCTTCCGGTCTT	0.517													5	21	---	---	---	---	PASS	A	30638193	A	A	30638193	3	1	118	1	0	0	0	0	1	0	0	0	4502	680	24	3	2533	3	DHX16	6	30638193	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1	30638193	140476874	131	42929	806	2								
TNXB	7148	broad.mit.edu	37	chr6	32037618	32037618	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gggacgctttgttccagtatCatccatagcactccgggctt	10	12	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:32037618C>T	uc003nzl.2	-	15	5501	c.5299G>A	c.(5299-5301)GAT>AAT	p.D1767N		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1849					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GTTCCAGTATCATCCATAGCA	0.597													4	26	---	---	---	---	PASS	T	32037618	T	T	32037618	3	4	118	1	0	0	0	0	1	0	0	0	16343	826	29	2	9534	2	TNXB	6	32037618	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1399425	32037618	139077449	132	42930										
C6orf222	389384	broad.mit.edu	37	chr6	36294340	36294340	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgacacacaggggcagaaagCtggacttcttgggtggccag	15	9	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:36294340C>G	uc003oly.2	-	5	1161	c.983G>C	c.(982-984)AGC>ACC	p.S328T		NM_001010903	NP_001010903	P0C671	CF222_HUMAN	hypothetical protein LOC389384	328										skin(2)|ovary(1)|breast(1)	4						GGGCAGAAAGCTGGACTTCTT	0.597													5	130	---	---	---	---	PASS	G	36294340	G	G	36294340	3	3	118	1	0	0	0	0	1	0	0	0	2356	797	28	4	1007	4	C6orf222	6	36294340	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	4256722	36294340	134820727	133	42931										
RUNX2	860	broad.mit.edu	37	chr6	45514572	45514572	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tataatttttaggtgcttcaGaactgggccctttttcagac	8	8	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:45514572G>T	uc011dvx.1	+	9	1306	c.1096G>T	c.(1096-1098)GAA>TAA	p.E366*	RUNX2_uc011dvy.1_Nonsense_Mutation_p.E344*|RUNX2_uc003oxt.2_Nonsense_Mutation_p.E352*	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	366	Interaction with MYST3 (By similarity).|Pro/Ser/Thr-rich.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						AGGTGCTTCAGAACTGGGCCC	0.393													23	97	---	---	---	---	PASS	T	45514572	T	T	45514572	4	4	118	1	0	0	0	0	0	1	0	0	13748	943	33	2	1142	2	RUNX2	6	45514572	Nonsense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	9220232	45514572	125600495	134	42932										
PRIM2	5558	broad.mit.edu	37	chr6	57372301	57372301	+	Missense_Mutation	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cttttagttaacagccaggtCcttgcctgctgtgcagtctg							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:57372301C>A	uc003pdx.2	+	8	794	c.707C>A	c.(706-708)TCC>TAC	p.S236Y		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	236					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		ACAGCCAGGTCCTTGCCTGCT	0.428													4	89	---	---	---	---	PASS	A	57372301	A	A	57372301	3	1	118	1	0	0	0	0	1	0	0	0	12491	855	30	2	733	2	PRIM2	6	57372301	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	11857729	57372301	113742766	135	42933	807	2								
PRIM2	5558	broad.mit.edu	37	chr6	57372302	57372302	+	Silent	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttttagttaacagccaggtcCttgcctgctgtgcagtctga							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:57372302C>A	uc003pdx.2	+	8	795	c.708C>A	c.(706-708)TCC>TCA	p.S236S		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	236					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		CAGCCAGGTCCTTGCCTGCTG	0.423													4	90	---	---	---	---	PASS	A	57372302	A	A	57372302	2	1	118	1	0	0	0	0	0	0	0	1	12491	668	24	3		3	PRIM2	6	57372302	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	1	57372302	113742765	136	42934	807	2								
KHDRBS2	202559	broad.mit.edu	37	chr6	62604622	62604622	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccccccgggctcgaggggtaGggacacctcttgctacaggt	14	14	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:62604622G>A	uc003peg.2	-	6	975	c.728C>T	c.(727-729)CCT>CTT	p.P243L		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	243	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		TCGAGGGGTAGGGACACCTCT	0.577													15	56	---	---	---	---	PASS	A	62604622	A	A	62604622	3	1	118	1	0	0	0	0	1	0	0	0	8147	1000	35	3	337	3	KHDRBS2	6	62604622	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	5232320	62604622	108510445	137	42935										
B3GAT2	135152	broad.mit.edu	37	chr6	71603972	71603972	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggagaccttgcgggtggttcGcatctataaaaagggaaaag	14	6	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:71603972G>C	uc003pfv.2	-	2	1251	c.595C>G	c.(595-597)CGA>GGA	p.R199G	B3GAT2_uc011dxz.1_RNA|B3GAT2_uc003pfw.2_Missense_Mutation_p.R199G	NM_080742	NP_542780	Q9NPZ5	B3GA2_HUMAN	beta-1,3-glucuronyltransferase 2	199	Lumenal (Potential).				carbohydrate biosynthetic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						CGGGTGGTTCGCATCTATAAA	0.502													8	48	---	---	---	---	PASS	C	71603972	C	C	71603972	3	2	118	1	0	0	0	0	1	0	0	0	1254	1095	38	4	388	4	B3GAT2	6	71603972	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	8999350	71603972	99511095	138	42936										
MDN1	23195	broad.mit.edu	37	chr6	90460227	90460227	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gttttaccaactgatgtctcTccctgaatcagcactggata	7	11	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:90460227T>A	uc003pnn.1	-	24	3368	c.3252A>T	c.(3250-3252)GGA>GGT	p.G1084G		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1084	ATP (Potential).				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)		CTGATGTCTCTCCCTGAATCA	0.418													55	278	---	---	---	---	PASS	A	90460227	A	A	90460227	2	1	118	1	0	0	0	0	0	0	0	1	9415	1538	54	5		5	MDN1	6	90460227	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	18856255	90460227	80654840	139	42937										
GJA10	84694	broad.mit.edu	37	chr6	90604280	90604280	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tggctgaccatcctcttcatCttccgaatgctggtacttcg	8	13	3	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:90604280C>T	uc011eaa.1	+	1	93	c.93C>T	c.(91-93)ATC>ATT	p.I31I		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	31	Helical; (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		TCCTCTTCATCTTCCGAATGC	0.507													28	106	---	---	---	---	PASS	T	90604280	T	T	90604280	2	4	118	1	0	0	0	0	0	0	0	1	6401	903	32	2		2	GJA10	6	90604280	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	144053	90604280	80510787	140	42938										
KIAA0776	23376	broad.mit.edu	37	chr6	97001374	97001374	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggaaatcatctgtgacggaaGagtaatgatcttaatttaca	9	5	3	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:97001374G>T	uc003por.2	+	19	2428	c.2380G>T	c.(2380-2382)GAG>TAG	p.E794*	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	794					negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		TGTGACGGAAGAGTAATGATC	0.378													7	34	---	---	---	---	PASS	T	97001374	T	T	97001374	4	4	118	1	0	0	0	0	0	1	0	0	8193	943	33	2	2454	2	KIAA0776	6	97001374	Nonsense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	6397094	97001374	74113693	141	42939										
POU3F2	5454	broad.mit.edu	37	chr6	99283761	99283761	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggttggaggaggcggactcgTcctcgggcagccccacgagc	17	13	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:99283761T>A	uc003ppe.2	+	1	1182	c.1012T>A	c.(1012-1014)TCC>ACC	p.S338T		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	338					positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)		GGCGGACTCGTCCTCGGGCAG	0.592													18	96	---	---	---	---	PASS	A	99283761	A	A	99283761	3	1	118	1	0	0	0	0	1	0	0	0	12275	1667	58	5	1014	5	POU3F2	6	99283761	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	2282387	99283761	71831306	142	42940										
POPDC3	64208	broad.mit.edu	37	chr6	105609717	105609717	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aaatggctccttcggcctctTgcttccaggttgtgcagact	10	12	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:105609717T>C	uc003prb.2	-	2	470	c.68A>G	c.(67-69)CAA>CGA	p.Q23R	uc003pqz.2_Intron|POPDC3_uc003pra.2_RNA	NM_022361	NP_071756	Q9HBV1	POPD3_HUMAN	popeye protein 3	23						integral to membrane				skin(3)|ovary(2)	5		all_cancers(87;4.87e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0157)|Colorectal(196;0.202)|Lung NSC(302;0.238)				TTCGGCCTCTTGCTTCCAGGT	0.428													25	71	---	---	---	---	PASS	C	105609717	C	C	105609717	3	2	118	1	0	0	0	0	1	0	0	0	12256	1812	63	5	819	5	POPDC3	6	105609717	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	6325956	105609717	65505350	143	42941										
AIM1	202	broad.mit.edu	37	chr6	106968998	106968998	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gaacagtcaaatcttctgccCgacaactccttaaaggtctt	6	12	4	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:106968998C>G	uc003prh.2	+	2	3178	c.2691C>G	c.(2689-2691)CCC>CCG	p.P897P		NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	897							sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		ATCTTCTGCCCGACAACTCCT	0.463													31	121	---	---	---	---	PASS	G	106968998	G	G	106968998	2	3	118	1	0	0	0	0	0	0	0	1	430	639	23	4		4	AIM1	6	106968998	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	1359281	106968998	64146069	144	42942										
HS3ST5	222537	broad.mit.edu	37	chr6	114383955	114383955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	caggagactcccaacggcaaGgcttcccagcaccaggagct	11	15	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:114383955G>T	uc003pwg.3	-	1	87	c.55C>A	c.(55-57)CTT>ATT	p.L19I	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.L19I	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	19	Helical; Signal-anchor for type II membrane protein; (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		CCAACGGCAAGGCTTCCCAGC	0.532													36	100	---	---	---	---	PASS	T	114383955	T	T	114383955	3	4	118	1	0	0	0	0	1	0	0	0	7368	1000	35	3	993	3	HS3ST5	6	114383955	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	7414957	114383955	56731112	145	42943										
KIAA1244	57221	broad.mit.edu	37	chr6	138657493	138657493	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gattctcccagaccagacctTcacggccctccagcccgcag	8	19	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:138657493T>G	uc003qhu.2	+	34	6404	c.6404T>G	c.(6403-6405)TTC>TGC	p.F2135C		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	2135					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		GACCAGACCTTCACGGCCCTC	0.542													40	147	---	---	---	---	PASS	G	138657493	G	G	138657493	3	3	118	1	0	0	0	0	1	0	0	0	8217	1783	62	5	6538	5	KIAA1244	6	138657493	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	24273538	138657493	32457574	146	42944										
AKAP12	9590	broad.mit.edu	37	chr6	151672155	151672155	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agcagcccgagcagaaggcaGccactgaggtgtccaaggag	15	11	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:151672155G>A	uc011eep.1	+	4	2869	c.2629G>A	c.(2629-2631)GCC>ACC	p.A877T	AKAP12_uc003qoe.2_Missense_Mutation_p.A877T|AKAP12_uc003qof.2_Missense_Mutation_p.A779T|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.A772T	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	877					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GCAGAAGGCAGCCACTGAGGT	0.562													17	99	---	---	---	---	PASS	A	151672155	A	A	151672155	3	1	118	1	0	0	0	0	1	0	0	0	448	971	34	3	2668	3	AKAP12	6	151672155	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	13014662	151672155	19442912	147	42945										
SYNJ2	8871	broad.mit.edu	37	chr6	158495649	158495649	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tcatgattatgtattttggtGtggcgatttcaactaccgca	9	7	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:158495649G>T	uc003qqx.1	+	16	2246	c.2171G>T	c.(2170-2172)TGT>TTT	p.C724F	SYNJ2_uc003qqw.1_Missense_Mutation_p.C724F|SYNJ2_uc003qqy.1_Missense_Mutation_p.C437F|SYNJ2_uc003qqz.1_Missense_Mutation_p.C341F|SYNJ2_uc003qra.1_Missense_Mutation_p.C67F	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	724	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		GTATTTTGGTGTGGCGATTTC	0.373													20	104	---	---	---	---	PASS	T	158495649	T	T	158495649	3	4	118	1	0	0	0	0	1	0	0	0	15450	1377	48	3	2233	3	SYNJ2	6	158495649	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	6823494	158495649	12619418	148	42946										
LPA	4018	broad.mit.edu	37	chr6	161027644	161027644	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	atccctcgtataacaataagGggctgccacaggatctggat	10	10	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:161027644G>C	uc003qtl.2	-	18	2770	c.2650C>G	c.(2650-2652)CCT>GCT	p.P884A		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3392	Kringle 30.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	TAACAATAAGGGGCTGCCACA	0.517													43	206	---	---	---	---	PASS	C	161027644	C	C	161027644	3	2	118	1	0	0	0	0	1	0	0	0	8903	1232	43	4	3564	4	LPA	6	161027644	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	2531995	161027644	10087423	149	42947										
THBS2	7058	broad.mit.edu	37	chr6	169650859	169650859	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggccacacccacagagccagCaggaccagcctccagaccat	9	18	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr6:169650859C>T	uc003qwt.2	-	3	269	c.21G>A	c.(19-21)CTG>CTA	p.L7L		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	7					cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		ACAGAGCCAGCAGGACCAGCC	0.577													5	29	---	---	---	---	PASS	T	169650859	T	T	169650859	2	4	118	1	0	0	0	0	0	0	0	1	15851	697	25	3		3	THBS2	6	169650859	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	8623215	169650859	1464208	150	42948										
KIAA0415	9907	broad.mit.edu	37	chr7	4815354	4815354	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tggcggcggcgtgatgttctCggcaggagcggagagtttgc	19	8	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:4815354C>A	uc003sne.2	+	1	91	c.8C>A	c.(7-9)TCG>TAG	p.S3*	KIAA0415_uc010ksp.2_RNA	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	3					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		GTGATGTTCTCGGCAGGAGCG	0.697													8	25	---	---	---	---	PASS	A	4815354	A	A	4815354	4	1	118	1	0	0	0	0	0	1	0	0	8175	893	31	2	10	2	KIAA0415	7	4815354	Nonsense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08		4815354	154323309	151	42949										
RNF216	54476	broad.mit.edu	37	chr7	5780740	5780740	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cttcatcatcacttgctaacTgctggtcttcaaactctcct	4	14	6	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:5780740T>A	uc003soy.1	-	4	927	c.737A>T	c.(736-738)CAG>CTG	p.Q246L	RNF216_uc010ksz.1_5'UTR|RNF216_uc010kta.1_Intron|RNF216_uc011jwj.1_Intron|RNF216_uc003sox.1_Missense_Mutation_p.Q303L	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	246					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		ACTTGCTAACTGCTGGTCTTC	0.537													36	78	---	---	---	---	PASS	A	5780740	A	A	5780740	3	1	118	1	0	0	0	0	1	0	0	0	13480	1580	55	5	1919	5	RNF216	7	5780740	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	965386	5780740	153357923	152	42950										
MIOS	54468	broad.mit.edu	37	chr7	7612493	7612493	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccactggatagtaactggctAgctgctggtttagataagca	11	8	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:7612493A>T	uc003srf.2	+	4	695	c.387A>T	c.(385-387)CTA>CTT	p.L129L	MIOS_uc010ktp.1_Silent_p.L129L	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	129	WD 2.										0						GTAACTGGCTAGCTGCTGGTT	0.388													32	92	---	---	---	---	PASS	T	7612493	T	T	7612493	2	4	118	1	0	0	0	0	0	0	0	1	9589	407	15	5		5	MIOS	7	7612493	Silent	SNP	A	TCGA-56-6546-01A-11D-1817-08	1831753	7612493	151526170	153	42951										
EVX1	2128	broad.mit.edu	37	chr7	27283072	27283072	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aacgccgagtaccagcacagCaaaggtagccaccgtgcccc	10	16	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:27283072C>A	uc003szd.1	+	1	909	c.423C>A	c.(421-423)AGC>AGA	p.S141R	EVX1_uc011jzn.1_Intron|EVX1_uc010kuy.1_Intron	NM_001989	NP_001980	P49640	EVX1_HUMAN	even-skipped homeobox 1	141						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						ACCAGCACAGCAAAGGTAGCC	0.652													5	27	---	---	---	---	PASS	A	27283072	A	A	27283072	3	1	118	1	0	0	0	0	1	0	0	0	5294	709	25	3	425	3	EVX1	7	27283072	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	19670579	27283072	131855591	154	42952										
CRHR2	1395	broad.mit.edu	37	chr7	30695196	30695196	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	catctggtcacaggccccacCtggaacgactgcaggaagga	12	13	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:30695196C>G	uc003tbn.2	-	10	1297	c.1053G>C	c.(1051-1053)CAG>CAC	p.Q351H	CRHR2_uc010kvw.1_Missense_Mutation_p.Q351H|CRHR2_uc010kvx.1_Missense_Mutation_p.Q350H|CRHR2_uc010kvy.1_Missense_Mutation_p.Q187H|CRHR2_uc003tbo.2_Missense_Mutation_p.Q337H|CRHR2_uc003tbp.2_Missense_Mutation_p.Q378H	NM_001883	NP_001874	Q13324	CRFR2_HUMAN	corticotropin releasing hormone receptor 2	351	Helical; Name=7; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(2)|ovary(1)|skin(1)	4						CAGGCCCCACCTGGAACGACT	0.592													17	73	---	---	---	---	PASS	G	30695196	G	G	30695196	3	3	118	1	0	0	0	0	1	0	0	0	3872	695	24	4	194	4	CRHR2	7	30695196	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	3412124	30695196	128443467	155	42953										
DPY19L1	23333	broad.mit.edu	37	chr7	34971194	34971194	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tcatgtagcagtcattctttTacaacttctaggactttgta	6	8	4	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:34971194T>A	uc003tem.3	-	22	2164	c.2019A>T	c.(2017-2019)GTA>GTT	p.V673V	DPY19L1_uc003tel.1_RNA	NM_015283	NP_056098	Q2PZI1	D19L1_HUMAN	dpy-19-like 1	673						integral to membrane					0						GTCATTCTTTTACAACTTCTA	0.393													13	67	---	---	---	---	PASS	A	34971194	A	A	34971194	2	1	118	1	0	0	0	0	0	0	0	1	4740	1741	61	5		5	DPY19L1	7	34971194	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	4275998	34971194	124167469	156	42954										
C7orf63	79846	broad.mit.edu	37	chr7	89915616	89915616	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aatctttaaaaatataataaGcaagcctaatgaaaaggaag	6	4	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:89915616G>T	uc010lep.2	+	14	1810	c.1559G>T	c.(1558-1560)AGC>ATC	p.S520I	C7orf63_uc003ukf.2_RNA|C7orf63_uc003ukg.2_Missense_Mutation_p.S195I|C7orf63_uc011khj.1_Missense_Mutation_p.S502I|C7orf63_uc011khk.1_Missense_Mutation_p.S82I	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	520							binding			ovary(1)	1						AATATAATAAGCAAGCCTAAT	0.308													13	66	---	---	---	---	PASS	T	89915616	T	T	89915616	3	4	118	1	0	0	0	0	1	0	0	0	2409	971	34	3	1613	3	C7orf63	7	89915616	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	54944422	89915616	69223047	157	42955										
DYNC1I1	1780	broad.mit.edu	37	chr7	95614265	95614265	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	catcttttttgactacagcgGccgagagttagaggaaaaag	11	7	1	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:95614265G>T	uc003uoc.3	+	8	1047	c.770G>T	c.(769-771)GGC>GTC	p.G257V	DYNC1I1_uc003uod.3_Missense_Mutation_p.G240V|DYNC1I1_uc003uob.2_Missense_Mutation_p.G220V|DYNC1I1_uc003uoe.3_Missense_Mutation_p.G237V|DYNC1I1_uc010lfl.2_Missense_Mutation_p.G246V	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	257					vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			GACTACAGCGGCCGAGAGTTA	0.373													23	112	---	---	---	---	PASS	T	95614265	T	T	95614265	3	4	118	1	0	0	0	0	1	0	0	0	4842	1203	42	3	796	3	DYNC1I1	7	95614265	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	5698649	95614265	63524398	158	42956										
LMTK2	22853	broad.mit.edu	37	chr7	97823030	97823030	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccggcgatggtcacagaggcAcagaagtgacccctgagacg	14	12	1	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:97823030A>C	uc003upd.1	+	11	3546	c.3253A>C	c.(3253-3255)ACA>CCA	p.T1085P		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	1085					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)					TCACAGAGGCACAGAAGTGAC	0.592													8	20	---	---	---	---	PASS	C	97823030	C	C	97823030	3	2	118	1	0	0	0	0	1	0	0	0	8859	159	6	5	3295	5	LMTK2	7	97823030	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	2208765	97823030	61315633	159	42957										
PMPCB	9512	broad.mit.edu	37	chr7	102940667	102940667	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tagatctggaacttgagattGaaaatatgggtgctcatctc	10	6	3	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:102940667G>A	uc003vbl.2	+	4	404	c.370G>A	c.(370-372)GAA>AAA	p.E124K	PMPCB_uc010liu.1_Missense_Mutation_p.E124K|PMPCB_uc003vbk.1_Missense_Mutation_p.E124K|PMPCB_uc003vbm.2_Missense_Mutation_p.E33K|PMPCB_uc010liv.2_Missense_Mutation_p.E30K|PMPCB_uc010liw.2_Missense_Mutation_p.E33K|PMPCB_uc011kll.1_Missense_Mutation_p.E19K|PMPCB_uc011klm.1_5'UTR	NM_004279	NP_004270	O75439	MPPB_HUMAN	mitochondrial processing peptidase beta subunit	124					proteolysis	mitochondrial matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)	4						ACTTGAGATTGAAAATATGGG	0.378													9	115	---	---	---	---	PASS	A	102940667	A	A	102940667	3	1	118	1	0	0	0	0	1	0	0	0	12141	1291	45	2	384	2	PMPCB	7	102940667	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	5117637	102940667	56197996	160	42958										
ARF5	381	broad.mit.edu	37	chr7	127231325	127231325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tctgtacgatggtctggactGgctgtcccacgagctgtcaa	12	11	3	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:127231325G>T	uc003vmb.1	+	6	551	c.515G>T	c.(514-516)TGG>TTG	p.W172L	FSCN3_uc003vmc.1_5'Flank|FSCN3_uc011kog.1_5'Flank|FSCN3_uc011koh.1_5'Flank|FSCN3_uc003vmd.1_5'Flank|FSCN3_uc010llc.1_5'Flank	NM_001662	NP_001653	P84085	ARF5_HUMAN	ADP-ribosylation factor 5	172					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	Golgi apparatus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1						GGTCTGGACTGGCTGTCCCAC	0.607													7	29	---	---	---	---	PASS	T	127231325	T	T	127231325	3	4	118	1	0	0	0	0	1	0	0	0	847	1357	47	3	537	3	ARF5	7	127231325	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	24290658	127231325	31907338	161	42959										
ZC3HC1	51530	broad.mit.edu	37	chr7	129666074	129666074	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgagcctaatttgattgtagTttttctctcatcagttcggt	8	7	3	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:129666074T>A	uc003vpi.2	-	6	727	c.700A>T	c.(700-702)ACT>TCT	p.T234S	ZC3HC1_uc003vph.2_Missense_Mutation_p.T121S|ZC3HC1_uc010lma.2_Missense_Mutation_p.T121S	NM_016478	NP_057562	Q86WB0	NIPA_HUMAN	zinc finger, C3HC type 1	234					cell division|mitosis	nucleus	protein kinase binding|zinc ion binding				0	Melanoma(18;0.0435)					TTGATTGTAGTTTTTCTCTCA	0.453													16	85	---	---	---	---	PASS	A	129666074	A	A	129666074	3	1	118	1	0	0	0	0	1	0	0	0	17574	1725	60	5	828	5	ZC3HC1	7	129666074	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	2434749	129666074	29472589	162	42960										
AKR1D1	6718	broad.mit.edu	37	chr7	137792252	137792252	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cagcagctcaaattgttttgCgtttcaacatccagcgaggg	10	10	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:137792252C>T	uc003vtz.2	+	7	850	c.781C>T	c.(781-783)CGT>TGT	p.R261C	AKR1D1_uc011kqe.1_Missense_Mutation_p.R261C|AKR1D1_uc011kqf.1_Missense_Mutation_p.R220C|AKR1D1_uc010lmy.1_RNA	NM_005989	NP_005980	P51857	AK1D1_HUMAN	aldo-keto reductase family 1, member D1	261			R -> C (in CBAS2).		androgen metabolic process|bile acid biosynthetic process|bile acid catabolic process|C21-steroid hormone metabolic process|cholesterol catabolic process|digestion	cytosol	aldo-keto reductase (NADP) activity|delta4-3-oxosteroid 5beta-reductase activity|steroid binding			skin(1)	1						AATTGTTTTGCGTTTCAACAT	0.373													24	99	---	---	---	---	PASS	T	137792252	T	T	137792252	3	4	118	1	0	0	0	0	1	0	0	0	473	768	27	1	807	1	AKR1D1	7	137792252	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	8126178	137792252	21346411	163	42961										
CNTNAP2	26047	broad.mit.edu	37	chr7	146829568	146829568	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gtgttcacatcaacatcacaCagaccaagatgagccaaatc	6	12	3	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:146829568C>A	uc003weu.1	+	8	1831	c.1315C>A	c.(1315-1317)CAG>AAG	p.Q439K		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	439	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CAACATCACACAGACCAAGAT	0.423										HNSCC(39;0.1)			12	57	---	---	---	---	PASS	A	146829568	A	A	146829568	3	1	118	1	0	0	0	0	1	0	0	0	3647	479	17	3	1345	3	CNTNAP2	7	146829568	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	9037316	146829568	12309095	164	42962										
ZNF467	168544	broad.mit.edu	37	chr7	149462587	149462587	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cagtggaatgaggagaagcgGacgagtcgggagagggcctg	20	6	0	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:149462587G>T	uc003wgd.2	-	5	1145	c.1004C>A	c.(1003-1005)TCC>TAC	p.S335Y	ZNF467_uc003wgc.2_Intron	NM_207336	NP_997219	Q7Z7K2	ZN467_HUMAN	zinc finger protein 467	335					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AGGAGAAGCGGACGAGTCGGG	0.662													6	10	---	---	---	---	PASS	T	149462587	T	T	149462587	3	4	118	1	0	0	0	0	1	0	0	0	17924	1174	41	2	787	2	ZNF467	7	149462587	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	2633019	149462587	9676076	165	42963										
SSPO	23145	broad.mit.edu	37	chr7	149486292	149486292	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tggggaggggcagatgacttGcagctccggccactgcctgc	16	12	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:149486292G>T	uc010lpk.2	+	30	4268	c.4268G>T	c.(4267-4269)TGC>TTC	p.C1423F		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	1423	LDL-receptor class A 2.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CAGATGACTTGCAGCTCCGGC	0.662													7	34	---	---	---	---	PASS	T	149486292	T	T	149486292	3	4	118	1	0	0	0	0	1	0	0	0	15188	1319	46	3	4382	3	SSPO	7	149486292	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	23705	149486292	9652371	166	42964										
SSPO	23145	broad.mit.edu	37	chr7	149488961	149488961	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgtgctctgagccgtgcaggGgcaccatgacgcggcaacgg	16	12	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:149488961G>A	uc010lpk.2	+	36	5302	c.5302G>A	c.(5302-5304)GGC>AGC	p.G1768S		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	1768	TSP type-1 2.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GCCGTGCAGGGGCACCATGAC	0.677													3	14	---	---	---	---	PASS	A	149488961	A	A	149488961	3	1	118	1	0	0	0	0	1	0	0	0	15188	1232	43	3	5436	3	SSPO	7	149488961	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	2669	149488961	9649702	167	42965										
GALNTL5	168391	broad.mit.edu	37	chr7	151704947	151704947	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tggaggaatttttgctatacGtcggcattattttaatgaaa	9	4	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:151704947G>C	uc003wkp.2	+	7	1167	c.944G>C	c.(943-945)CGT>CCT	p.R315P	GALNTL5_uc003wkq.2_Missense_Mutation_p.R66P|GALNTL5_uc003wkr.2_RNA|GALNTL5_uc003wks.2_RNA|GALNTL5_uc010lqf.2_Missense_Mutation_p.R204P	NM_145292	NP_660335	Q7Z4T8	GLTL5_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	315	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2	all_neural(206;0.187)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00427)	UCEC - Uterine corpus endometrioid carcinoma (81;0.18)|BRCA - Breast invasive adenocarcinoma(188;0.166)		TTTGCTATACGTCGGCATTAT	0.338													24	116	---	---	---	---	PASS	C	151704947	C	C	151704947	3	2	118	1	0	0	0	0	1	0	0	0	6224	1145	40	4	966	4	GALNTL5	7	151704947	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	2215986	151704947	7433716	168	42966										
DPP6	1804	broad.mit.edu	37	chr7	154172066	154172066	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aaagaagaaggtcactgtagAagatctcttcagtgaagact	10	6	3	6			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:154172066A>G	uc003wlk.2	+	3	530	c.401A>G	c.(400-402)GAA>GGA	p.E134G	DPP6_uc003wli.2_Missense_Mutation_p.E70G|DPP6_uc003wlj.2_Missense_Mutation_p.E134G|DPP6_uc010lqh.1_Missense_Mutation_p.E72G|DPP6_uc003wlm.2_Missense_Mutation_p.E72G|DPP6_uc011kvq.1_Missense_Mutation_p.E72G	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	134	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			GTCACTGTAGAAGATCTCTTC	0.408													19	76	---	---	---	---	PASS	G	154172066	G	G	154172066	3	3	118	1	0	0	0	0	1	0	0	0	4730	246	9	5	527	5	DPP6	7	154172066	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	2467119	154172066	4966597	169	42967										
NCAPG2	54892	broad.mit.edu	37	chr7	158464239	158464239	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	acagctttgatcttcaacagCatgtccacaaaagctaccct	5	13	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr7:158464239C>A	uc003wnv.1	-	13	1591	c.1446G>T	c.(1444-1446)ATG>ATT	p.M482I	NCAPG2_uc010lqu.1_Missense_Mutation_p.M274I|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.M482I|NCAPG2_uc011kwe.1_Missense_Mutation_p.M482I	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	482	HEAT.				cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		TCTTCAACAGCATGTCCACAA	0.438													50	206	---	---	---	---	PASS	A	158464239	A	A	158464239	3	1	118	1	0	0	0	0	1	0	0	0	10208	710	25	3	2049	3	NCAPG2	7	158464239	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	4292173	158464239	674424	170	42968										
MYOM2	9172	broad.mit.edu	37	chr8	2040265	2040265	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cgacctaagcatgaggaggaCctgctgggctactacgtgga	14	10	0	1	rs149434055		TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:2040265C>A	uc003wpx.3	+	16	2058	c.1920C>A	c.(1918-1920)GAC>GAA	p.D640E	MYOM2_uc011kwi.1_Missense_Mutation_p.D65E	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	640	Fibronectin type-III 3.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		ATGAGGAGGACCTGCTGGGCT	0.602													9	123	---	---	---	---	PASS	A	2040265	A	A	2040265	3	1	118	1	0	0	0	0	1	0	0	0	10092	506	18	3	1978	3	MYOM2	8	2040265	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08		2040265	144323757	171	42969										
KIF13B	23303	broad.mit.edu	37	chr8	28998134	28998134	+	Missense_Mutation	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tttgaagtatgatcgtattaCctgtaaagagattgagaaca							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:28998134C>A	uc003xhh.3	-	20	2394	c.2335G>T	c.(2335-2337)GTA>TTA	p.V779L	uc003xhi.1_RNA	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	779					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		GATCGTATTACCTGTAAAGAG	0.373													16	39	---	---	---	---	PASS	A	28998134	A	A	28998134	3	1	118	1	0	0	0	0	1	0	0	0	8275	521	18	3	3229	3	KIF13B	8	28998134	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	26957869	28998134	117365888	172	42970	808	2								
KIF13B	23303	broad.mit.edu	37	chr8	28998135	28998135	+	Splice_Site	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttgaagtatgatcgtattacCtgtaaagagattgagaacac							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:28998135C>A	uc003xhh.3	-	20	2394	c.2335_splice	c.e20-1	p.V779_splice	uc003xhi.1_RNA	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B						microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		ATCGTATTACCTGTAAAGAGA	0.373													16	39	---	---	---	---	PASS	A	28998135	A	A	28998135	5	1	118	1	0	0	0	0	0	0	1	0	8275	695	24	3	3230	3	KIF13B	8	28998135	Splice_Site	SNP	C	TCGA-56-6546-01A-11D-1817-08	1	28998135	117365887	173	42971	808	2								
GPR124	25960	broad.mit.edu	37	chr8	37697084	37697084	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gcttccacatagccatgaccTctgctgtctttgcggggggc	12	13	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:37697084T>C	uc003xkj.2	+	16	2818	c.2455T>C	c.(2455-2457)TCT>CCT	p.S819P	GPR124_uc010lvy.2_Missense_Mutation_p.S602P	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	819	Helical; Name=2; (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			AGCCATGACCTCTGCTGTCTT	0.582													19	119	---	---	---	---	PASS	C	37697084	C	C	37697084	3	2	118	1	0	0	0	0	1	0	0	0	6638	1551	54	5	2496	5	GPR124	8	37697084	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	8698949	37697084	108666938	174	42972										
ZFHX4	79776	broad.mit.edu	37	chr8	77690543	77690543	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tcaagttgaatctggtacaaCatgtccgttcggtgaagcat	10	8	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:77690543C>A	uc003yav.2	+	4	3502	c.3115C>A	c.(3115-3117)CAT>AAT	p.H1039N	ZFHX4_uc003yau.1_Missense_Mutation_p.H1065N|ZFHX4_uc003yaw.1_Missense_Mutation_p.H1039N	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1039	C2H2-type 7.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCTGGTACAACATGTCCGTTC	0.532										HNSCC(33;0.089)			39	178	---	---	---	---	PASS	A	77690543	A	A	77690543	3	1	118	1	0	0	0	0	1	0	0	0	17632	478	17	3	3203	3	ZFHX4	8	77690543	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	39993459	77690543	68673479	175	42973										
LRRCC1	85444	broad.mit.edu	37	chr8	86044135	86044135	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgacgtgttaagccagcagtAtatggatttagaaaatgaat	10	4	0	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:86044135A>G	uc003ycw.2	+	12	2061	c.1907A>G	c.(1906-1908)TAT>TGT	p.Y636C	LRRCC1_uc010lzz.1_RNA|LRRCC1_uc010maa.1_Missense_Mutation_p.Y337C|LRRCC1_uc003ycx.2_Missense_Mutation_p.Y543C|LRRCC1_uc003ycy.2_Missense_Mutation_p.Y616C	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	636	Potential.				cell division|mitosis	centriole|nucleus					0						AGCCAGCAGTATATGGATTTA	0.348													14	63	---	---	---	---	PASS	G	86044135	G	G	86044135	3	3	118	1	0	0	0	0	1	0	0	0	9026	449	16	5	1953	5	LRRCC1	8	86044135	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	8353592	86044135	60319887	176	42974										
MMP16	4325	broad.mit.edu	37	chr8	89128749	89128749	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctcctaccttgaaaacaaacAtctcacgacgaagaatagct	5	12	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:89128749A>G	uc003yeb.3	-	6	1352	c.1070T>C	c.(1069-1071)ATG>ACG	p.M357T	MMP16_uc003yec.2_Missense_Mutation_p.M357T	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	357	Extracellular (Potential).|Hemopexin-like 1.				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						GAAAACAAACATCTCACGACG	0.418													10	39	---	---	---	---	PASS	G	89128749	G	G	89128749	3	3	118	1	0	0	0	0	1	0	0	0	9655	217	8	5	929	5	MMP16	8	89128749	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	3084614	89128749	57235273	177	42975										
SLC26A7	115111	broad.mit.edu	37	chr8	92378879	92378879	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctgaatgcaaaaaaattttaTactgatttaatgaacatgat	5	4	0	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:92378879T>A	uc003yex.2	+	15	1838	c.1560T>A	c.(1558-1560)TAT>TAA	p.Y520*	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Nonsense_Mutation_p.Y520*|SLC26A7_uc003yfa.2_Nonsense_Mutation_p.Y520*	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	520	STAS.|Cytoplasmic (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)			AAAAATTTTATACTGATTTAA	0.353													34	119	---	---	---	---	PASS	A	92378879	A	A	92378879	4	1	118	1	0	0	0	0	0	1	0	0	14522	1413	49	5	1610	5	SLC26A7	8	92378879	Nonsense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	3250130	92378879	53985143	178	42976										
FBXO43	286151	broad.mit.edu	37	chr8	101149792	101149792	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gagaagtattacatacattaCctcagaatctgttttcagtt	6	7	3	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:101149792C>A	uc003yjd.2	-	3	2387	c.1674_splice	c.e3+1	p.E558_splice	FBXO43_uc003yje.2_Splice_Site_p.E524_splice|FBXO43_uc010mbp.1_Missense_Mutation_p.V559L	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b						meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			ACATACATTACCTCAGAATCT	0.308													10	61	---	---	---	---	PASS	A	101149792	A	A	101149792	5	1	118	1	0	0	0	0	0	0	1	0	5752	521	18	3	463	3	FBXO43	8	101149792	Splice_Site	SNP	C	TCGA-56-6546-01A-11D-1817-08	8770913	101149792	45214230	179	42977										
LRP12	29967	broad.mit.edu	37	chr8	105509436	105509436	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tttcctggttggcaaaaaaaGcagtttttttcatctgagcc	8	8	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:105509436G>A	uc003yma.2	-	5	1439	c.1344C>T	c.(1342-1344)TGC>TGT	p.C448C	LRP12_uc003ymb.2_Silent_p.C429C|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	448	Extracellular (Potential).|LDL-receptor class A 4.				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)			GGCAAAAAAAGCAGTTTTTTT	0.418													25	97	---	---	---	---	PASS	A	105509436	A	A	105509436	2	1	118	1	0	0	0	0	0	0	0	1	8954	963	34	3		3	LRP12	8	105509436	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	4359644	105509436	40854586	180	42978										
PKHD1L1	93035	broad.mit.edu	37	chr8	110463361	110463361	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gggggcaccagactgacagtCgtgggatcaggattcaggta	16	8	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:110463361C>T	uc003yne.2	+	41	6437	c.6333C>T	c.(6331-6333)GTC>GTT	p.V2111V		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2111	IPT/TIG 14.|Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GACTGACAGTCGTGGGATCAG	0.517										HNSCC(38;0.096)	OREG0018931	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	22	---	---	---	---	PASS	T	110463361	T	T	110463361	2	4	118	1	0	0	0	0	0	0	0	1	11972	871	31	2		2	PKHD1L1	8	110463361	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	4953925	110463361	35900661	181	42979										
CSMD3	114788	broad.mit.edu	37	chr8	113649184	113649184	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cccaaagttgaacccgattcGactaccatattgaggaatgc	8	11	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:113649184G>T	uc003ynu.2	-	22	3736	c.3577C>A	c.(3577-3579)CGA>AGA	p.R1193R	CSMD3_uc003yns.2_Silent_p.R465R|CSMD3_uc003ynt.2_Silent_p.R1153R|CSMD3_uc011lhx.1_Silent_p.R1089R	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1193	Sushi 6.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AACCCGATTCGACTACCATAT	0.453										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			20	80	---	---	---	---	PASS	T	113649184	T	T	113649184	2	4	118	1	0	0	0	0	0	0	0	1	3946	1066	37	2		2	CSMD3	8	113649184	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	3185823	113649184	32714838	182	42980										
FER1L6	654463	broad.mit.edu	37	chr8	125072499	125072499	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tctacccggttcctgccaacAttcggccggtgctgagcaaa	10	14	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:125072499A>G	uc003yqw.2	+	23	3159	c.2953A>G	c.(2953-2955)ATT>GTT	p.I985V	uc003yqy.1_RNA	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	985	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TCCTGCCAACATTCGGCCGGT	0.582													51	96	---	---	---	---	PASS	G	125072499	G	G	125072499	3	3	118	1	0	0	0	0	1	0	0	0	5815	217	8	5	3039	5	FER1L6	8	125072499	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	11423315	125072499	21291523	183	42981										
FAM84B	157638	broad.mit.edu	37	chr8	127569404	127569404	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gagcattccacctcgtgcagCcgcggatcgtagggctgcgg	15	13	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:127569404C>G	uc003yrz.1	-	2	515	c.231G>C	c.(229-231)CGG>CGC	p.R77R		NM_174911	NP_777571	Q96KN1	FA84B_HUMAN	family with sequence similarity 84, member B	77						cytoplasm|plasma membrane	protein binding				0	Ovarian(5;9.43e-05)|Esophageal squamous(12;0.0012)|Hepatocellular(40;0.128)|Myeloproliferative disorder(2;0.135)		STAD - Stomach adenocarcinoma(47;0.000556)|Colorectal(2;0.0102)|Lung(2;0.0136)|READ - Rectum adenocarcinoma(2;0.0723)			CCTCGTGCAGCCGCGGATCGT	0.716													3	22	---	---	---	---	PASS	G	127569404	G	G	127569404	2	3	118	1	0	0	0	0	0	0	0	1	5642	726	26	4		4	FAM84B	8	127569404	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	2496905	127569404	18794618	184	42982										
ST3GAL1	6482	broad.mit.edu	37	chr8	134478271	134478271	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gggtccacattcccaggcacCactctgaacagctccttgat	8	15	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:134478271C>A	uc003yuk.2	-	6	1198	c.369G>T	c.(367-369)GTG>GTT	p.V123V	ST3GAL1_uc003yum.2_Silent_p.V123V	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	123	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			TCCCAGGCACCACTCTGAACA	0.587													31	94	---	---	---	---	PASS	A	134478271	A	A	134478271	2	1	118	1	0	0	0	0	0	0	0	1	15213	581	21	3		3	ST3GAL1	8	134478271	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	6908867	134478271	11885751	185	42983										
FLJ43860	389690	broad.mit.edu	37	chr8	142476592	142476592	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agcagggtgatggcgtgcagGgtcttttccttggcttgcgg	17	8	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:142476592G>A	uc003ywi.2	-	19	2475	c.2394C>T	c.(2392-2394)ACC>ACT	p.T798T	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	798							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			TGGCGTGCAGGGTCTTTTCCT	0.642													13	37	---	---	---	---	PASS	A	142476592	A	A	142476592	2	1	118	1	0	0	0	0	0	0	0	1	5930	1219	43	3		3	FLJ43860	8	142476592	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	7998321	142476592	3887430	186	42984										
GML	2765	broad.mit.edu	37	chr8	143927970	143927970	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	catggtttgcaatgcaggagGacctactaatcttgaaaggg	12	7	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr8:143927970G>T	uc003yxg.2	+	4	431	c.341G>T	c.(340-342)GGA>GTA	p.G114V		NM_002066	NP_002057	Q99445	GML_HUMAN	glycosylphosphatidylinositol anchored molecule	114	UPAR/Ly6.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|negative regulation of cell proliferation	anchored to membrane|extrinsic to membrane|plasma membrane				central_nervous_system(2)	2	all_cancers(97;4.26e-11)|all_epithelial(106;1.85e-08)|Lung NSC(106;0.000274)|all_lung(105;0.000755)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					AATGCAGGAGGACCTACTAAT	0.453													26	97	---	---	---	---	PASS	T	143927970	T	T	143927970	3	4	118	1	0	0	0	0	1	0	0	0	6492	1174	41	2	351	2	GML	8	143927970	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	1451378	143927970	2436052	187	42985										
SMARCA2	6595	broad.mit.edu	37	chr9	2029188	2029188	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gacctccaagtgtctcccatCctatgccgacgatggggtcc	10	15	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr9:2029188C>T	uc003zhc.2	+	2	265	c.166C>T	c.(166-168)CCT>TCT	p.P56S	SMARCA2_uc003zhd.2_Missense_Mutation_p.P56S|SMARCA2_uc010mha.2_Missense_Mutation_p.P47S	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	56					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		TGTCTCCCATCCTATGCCGAC	0.537													4	28	---	---	---	---	PASS	T	2029188	T	T	2029188	3	4	118	1	0	0	0	0	1	0	0	0	14769	855	30	2	168	2	SMARCA2	9	2029188	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08		2029188	139184243	188	42986										
PTPRD	5789	broad.mit.edu	37	chr9	8319963	8319963	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	actccagttcttccaacgccCgcgctgccacaataacaaag	6	16	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr9:8319963C>T	uc003zkk.2	-	44	6249	c.5538G>A	c.(5536-5538)GCG>GCA	p.A1846A	PTPRD_uc003zkp.2_Silent_p.A1440A|PTPRD_uc003zkq.2_Silent_p.A1439A|PTPRD_uc003zkr.2_Silent_p.A1430A|PTPRD_uc003zks.2_Silent_p.A1439A|PTPRD_uc003zkl.2_Silent_p.A1837A|PTPRD_uc003zkm.2_Silent_p.A1833A|PTPRD_uc003zkn.2_Silent_p.A1435A|PTPRD_uc003zko.2_Silent_p.A1436A	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1846	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TTCCAACGCCCGCGCTGCCAC	0.443										TSP Lung(15;0.13)			14	36	---	---	---	---	PASS	T	8319963	T	T	8319963	2	4	118	1	0	0	0	0	0	0	0	1	12799	639	23	1		1	PTPRD	9	8319963	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	6290775	8319963	132893468	189	42987										
ADAMTSL1	92949	broad.mit.edu	37	chr9	18906818	18906818	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gcgtgtggagtgtgtgcatgCccgcaccaacaaggcagtgc	15	11	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr9:18906818C>T	uc003zne.3	+	28	5217	c.5090C>T	c.(5089-5091)GCC>GTC	p.A1697V	ADAMTSL1_uc003znf.3_Missense_Mutation_p.A398V|ADAMTSL1_uc003zng.1_Missense_Mutation_p.A88V	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	1697	TSP type-1 9.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		TGTGTGCATGCCCGCACCAAC	0.617													18	61	---	---	---	---	PASS	T	18906818	T	T	18906818	3	4	118	1	0	0	0	0	1	0	0	0	274	739	26	3	5204	3	ADAMTSL1	9	18906818	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	10586855	18906818	122306613	190	42988										
GDA	9615	broad.mit.edu	37	chr9	74838034	74838034	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aattgtttttaattatctccAgtattctagagtgaagccca	6	7	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr9:74838034A>T	uc004aiq.2	+	7	790	c.607_splice	c.e7-2	p.Y203_splice	GDA_uc011lse.1_Splice_Site_p.Y129_splice|GDA_uc011lsf.1_Splice_Site_p.Y129_splice|GDA_uc004air.2_Splice_Site_p.Y203_splice|GDA_uc010mow.1_Splice_Site|GDA_uc004ais.2_Intron|GDA_uc004ait.1_Splice_Site_p.Y129_splice	NM_004293	NP_004284	Q9Y2T3	GUAD_HUMAN	guanine deaminase						nervous system development|purine base metabolic process|purine nucleotide catabolic process	cytosol	guanine deaminase activity|zinc ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		AATTATCTCCAGTATTCTAGA	0.259													39	101	---	---	---	---	PASS	T	74838034	T	T	74838034	5	4	118	1	0	0	0	0	0	0	1	0	6306	202	7	5	631	5	GDA	9	74838034	Splice_Site	SNP	A	TCGA-56-6546-01A-11D-1817-08	55931216	74838034	66375397	191	42989										
CTSL1	1514	broad.mit.edu	37	chr9	90344506	90344506	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aggaagaatcctgtaagtacAatcccaagtattctgttgct	8	8	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr9:90344506A>T	uc004aph.2	+	6	990	c.640A>T	c.(640-642)AAT>TAT	p.N214Y	CTSL1_uc004api.2_Missense_Mutation_p.N214Y|CTSL1_uc004apj.2_Missense_Mutation_p.N159Y|CTSL1_uc010mqh.2_Missense_Mutation_p.N32Y|CTSL1_uc004apk.2_Missense_Mutation_p.N214Y|CTSL1_uc004apl.2_Missense_Mutation_p.N214Y	NM_001912	NP_001903	P07711	CATL1_HUMAN	cathepsin L1 preproprotein	214					macrophage apoptosis|proteolysis	extracellular region|lysosome|nucleus	cysteine-type endopeptidase activity|histone binding			ovary(3)	3					Glucagon recombinant(DB00040)	CTGTAAGTACAATCCCAAGTA	0.458													33	67	---	---	---	---	PASS	T	90344506	T	T	90344506	3	4	118	1	0	0	0	0	1	0	0	0	4038	130	5	5	658	5	CTSL1	9	90344506	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	15506472	90344506	50868925	192	42990										
HEMGN	55363	broad.mit.edu	37	chr9	100692661	100692661	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tttcttggattgttttatgaGagggggctttaggcacaata	12	4	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr9:100692661G>T	uc004axy.2	-	3	1124	c.1016C>A	c.(1015-1017)TCT>TAT	p.S339Y	HEMGN_uc004axz.2_Missense_Mutation_p.S339Y	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	339					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TGTTTTATGAGAGGGGGCTTT	0.363													60	162	---	---	---	---	PASS	T	100692661	T	T	100692661	3	4	118	1	0	0	0	0	1	0	0	0	7050	942	33	2	446	2	HEMGN	9	100692661	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	10348155	100692661	40520770	193	42991										
GABBR2	9568	broad.mit.edu	37	chr9	101125063	101125063	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgccagcagatcaggatacaCaggtcgatcagcagcatgcc	11	12	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr9:101125063C>G	uc004ays.2	-	13	1983	c.1827G>C	c.(1825-1827)CTG>CTC	p.L609L		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	609	Helical; Name=4; (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	TCAGGATACACAGGTCGATCA	0.592													10	32	---	---	---	---	PASS	G	101125063	G	G	101125063	2	3	118	1	0	0	0	0	0	0	0	1	6156	465	17	4		4	GABBR2	9	101125063	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	432402	101125063	40088368	194	42992										
TLR4	7099	broad.mit.edu	37	chr9	120470891	120470891	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gagctgaatttctacaaaatCcccgacaacctccccttctc	4	16	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr9:120470891C>A	uc004bjz.2	+	2	435	c.144C>A	c.(142-144)ATC>ATA	p.I48I	TLR4_uc004bka.2_Silent_p.I8I|TLR4_uc004bkb.2_Intron	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	48	Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TCTACAAAATCCCCGACAACC	0.443													33	101	---	---	---	---	PASS	A	120470891	A	A	120470891	2	1	118	1	0	0	0	0	0	0	0	1	15950	845	30	2		2	TLR4	9	120470891	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	19345828	120470891	20742540	195	42993										
LCN6	158062	broad.mit.edu	37	chr9	139642928	139642928	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gaaaagcagccagcagcaggCcgcccatcctcccaggtcta	10	16	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr9:139642928C>T	uc004ciy.2	-	1	53	c.8G>A	c.(7-9)GGC>GAC	p.G3D	LCN10_uc004ciw.2_RNA|uc004ciz.1_RNA	NM_198946	NP_945184	P62502	LCN6_HUMAN	lipocalin 6 precursor	3					single fertilization	extracellular region	binding				0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.32e-06)|Epithelial(140;7.83e-05)		CAGCAGCAGGCCGCCCATCCT	0.637													9	15	---	---	---	---	PASS	T	139642928	T	T	139642928	3	4	118	1	0	0	0	0	1	0	0	0	8685	739	26	3	503	3	LCN6	9	139642928	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	19172037	139642928	1570503	196	42994										
KIAA1984	84960	broad.mit.edu	37	chr9	139693672	139693672	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	caggactgggctttggccaaGaaggtacacaaacgccgccc	12	13	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr9:139693672G>C	uc004cjf.2	+	2	237	c.189G>C	c.(187-189)AAG>AAC	p.K63N		NM_001039374	NP_001034463	Q5T5S1	K1984_HUMAN	hypothetical protein LOC84960	63										ovary(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.33e-06)|Epithelial(140;0.000124)		CTTTGGCCAAGAAGGTACACA	0.652													21	30	---	---	---	---	PASS	C	139693672	C	C	139693672	3	2	118	1	0	0	0	0	1	0	0	0	8266	933	33	2	195	2	KIAA1984	9	139693672	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	50744	139693672	1519759	197	42995										
GTPBP4	23560	broad.mit.edu	37	chr10	1041879	1041879	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tttgttacaggatattcatcCgttctatgctgatttgatga	8	6	2	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr10:1041879C>T	uc001ift.2	+	3	301	c.230C>T	c.(229-231)CCG>CTG	p.P77L	GTPBP4_uc010qac.1_Intron|GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Intron|GTPBP4_uc010qae.1_Missense_Mutation_p.P30L	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	77					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		GATATTCATCCGTTCTATGCT	0.313													12	35	---	---	---	---	PASS	T	1041879	T	T	1041879	3	4	118	1	0	0	0	0	1	0	0	0	6882	652	23	1	240	1	GTPBP4	10	1041879	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08		1041879	134492868	198	42996										
ANKRD30A	91074	broad.mit.edu	37	chr10	37430821	37430821	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gatgaggctgcatccttggtGgagggaacatctgacaaaat	13	7	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr10:37430821G>A	uc001iza.1	+	7	927	c.828G>A	c.(826-828)GTG>GTA	p.V276V		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	332						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						CATCCTTGGTGGAGGGAACAT	0.468													23	52	---	---	---	---	PASS	A	37430821	A	A	37430821	2	1	118	1	0	0	0	0	0	0	0	1	658	1335	47	3		3	ANKRD30A	10	37430821	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	36388942	37430821	98103926	199	42997										
CHAT	1103	broad.mit.edu	37	chr10	50870818	50870818	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gagcaaccggtttgtcctctCcactagccaggtacggcccc	10	16	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr10:50870818C>A	uc001jhz.2	+	14	2120	c.1967C>A	c.(1966-1968)TCC>TAC	p.S656Y	CHAT_uc001jhv.1_Missense_Mutation_p.S538Y|CHAT_uc001jhx.1_Missense_Mutation_p.S538Y|CHAT_uc001jhy.1_Missense_Mutation_p.S538Y|CHAT_uc001jia.2_Missense_Mutation_p.S538Y|CHAT_uc010qgs.1_Missense_Mutation_p.S538Y	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	656					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	TTTGTCCTCTCCACTAGCCAG	0.478													41	79	---	---	---	---	PASS	A	50870818	A	A	50870818	3	1	118	1	0	0	0	0	1	0	0	0	3313	855	30	2	2065	2	CHAT	10	50870818	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	13439997	50870818	84663929	200	42998										
GRID1	2894	broad.mit.edu	37	chr10	87373316	87373316	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gccgtcggcctgggcgctggCatggctggtgaggtcacagc	18	12	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr10:87373316C>A	uc001kdl.1	-	15	2550	c.2449G>T	c.(2449-2451)GCC>TCC	p.A817S	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.A388S	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	817	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	TGGGCGCTGGCATGGCTGGTG	0.642										Multiple Myeloma(13;0.14)			29	72	---	---	---	---	PASS	A	87373316	A	A	87373316	3	1	118	1	0	0	0	0	1	0	0	0	6771	710	25	3	588	3	GRID1	10	87373316	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	36502498	87373316	48161431	201	42999										
PTEN	5728	broad.mit.edu	37	chr10	89717716	89717716	+	Missense_Mutation	SNP	A	C	C													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tttgagttccctcagccgttAcctgtgtgtggtgatatcaa							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr10:89717716A>C	uc001kfb.2	+	8	1772	c.741A>C	c.(739-741)TTA>TTC	p.L247F		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	247	C2 tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.P248fs*5(11)|p.R55fs*1(4)|p.L247*(3)|p.L247fs*10(2)|p.N212fs*1(2)|p.Y27fs*1(2)|p.L247fs*11(1)|p.L247fs*12(1)|p.G165_*404del(1)|p.L247fs*6(1)|p.L247fs*4(1)|p.?(1)|p.L247fs*5(1)|p.G165_K342del(1)|p.L247fs*8(1)|p.P246_L247insGP(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		CTCAGCCGTTACCTGTGTGTG	0.403		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			5	49	---	---	---	---	PASS	C	89717716	C	C	89717716	3	2	118	1	0	0	0	0	1	0	0	0	12738	388	14	5	767	5	PTEN	10	89717716	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	2344400	89717716	45817031	202	43000	809	2								
PTEN	5728	broad.mit.edu	37	chr10	89717718	89717718	+	Missense_Mutation	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgagttccctcagccgttacCtgtgtgtggtgatatcaaag							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr10:89717718C>A	uc001kfb.2	+	8	1774	c.743C>A	c.(742-744)CCT>CAT	p.P248H		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	248	C2 tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.P248fs*5(13)|p.P248?(4)|p.R55fs*1(4)|p.N212fs*1(2)|p.Y27fs*1(2)|p.G165_*404del(1)|p.?(1)|p.L247fs*4(1)|p.G165_K342del(1)|p.P248fs*4(1)|p.V249fs*4(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		CAGCCGTTACCTGTGTGTGGT	0.408		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			6	51	---	---	---	---	PASS	A	89717718	A	A	89717718	3	1	118	1	0	0	0	0	1	0	0	0	12738	681	24	3	769	3	PTEN	10	89717718	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	2	89717718	45817029	203	43001	809	2								
CNNM1	26507	broad.mit.edu	37	chr10	101089820	101089820	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgccccctgcgtggctgcggGcgctcggggcgctcctgctg	17	16	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr10:101089820G>T	uc001kpp.3	+	1	965	c.676G>T	c.(676-678)GCG>TCG	p.A226S	CNNM1_uc009xwe.2_Missense_Mutation_p.A226S|CNNM1_uc010qpi.1_Missense_Mutation_p.A226S|CNNM1_uc009xwf.2_Missense_Mutation_p.A226S	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	226	DUF21.|Helical; (Potential).				ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		GTGGCTGCGGGCGCTCGGGGC	0.746													4	0	---	---	---	---	PASS	T	101089820	T	T	101089820	3	4	118	1	0	0	0	0	1	0	0	0	3612	1203	42	3	678	3	CNNM1	10	101089820	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	11372102	101089820	34444927	204	43002										
SEC23IP	11196	broad.mit.edu	37	chr10	121691695	121691695	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctgatttgaagcagggttttAttagctctctcaaaagtgct	9	7	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr10:121691695A>C	uc001leu.1	+	16	2695	c.2623A>C	c.(2623-2625)ATT>CTT	p.I875L	SEC23IP_uc010qtc.1_Missense_Mutation_p.I664L|SEC23IP_uc009xzk.1_RNA	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	875	DDHD.				Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		GCAGGGTTTTATTAGCTCTCT	0.403													39	55	---	---	---	---	PASS	C	121691695	C	C	121691695	3	2	118	1	0	0	0	0	1	0	0	0	13993	449	16	5	2685	5	SEC23IP	10	121691695	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	20601875	121691695	13843052	205	43003										
MUC5B	727897	broad.mit.edu	37	chr11	1261412	1261412	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccggctccatccccagcctgCacctgcacctatgaggacag	9	18	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:1261412C>A	uc009ycr.1	+	46	5982	c.5856C>A	c.(5854-5856)TGC>TGA	p.C1952*	MUC5B_uc001ltb.2_Nonsense_Mutation_p.C1262*|MUC5B_uc001lta.2_Nonsense_Mutation_p.C927*	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1259	Cys-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCCCAGCCTGCACCTGCACCT	0.647													3	21	---	---	---	---	PASS	A	1261412	A	A	1261412	4	1	118	1	0	0	0	0	0	1	0	0	9979	718	25	3	3904	3	MUC5B	11	1261412	Nonsense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08		1261412	133745104	206	43004										
OSBPL5	114879	broad.mit.edu	37	chr11	3125526	3125526	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cacgcgggacaggtccatgcCtggccgtagctgcttcagca	13	14	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:3125526C>A	uc001lxk.2	-	10	1299	c.1141G>T	c.(1141-1143)GGC>TGC	p.G381C	OSBPL5_uc010qxq.1_Missense_Mutation_p.G292C|OSBPL5_uc009ydw.2_Missense_Mutation_p.G313C|OSBPL5_uc001lxl.2_Missense_Mutation_p.G313C|OSBPL5_uc009ydx.2_Missense_Mutation_p.G405C	NM_020896	NP_065947	Q9H0X9	OSBL5_HUMAN	oxysterol-binding protein-like protein 5 isoform	381					cholesterol metabolic process|cholesterol transport|Golgi to plasma membrane transport	cytosol	oxysterol binding|protein binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		AGGTCCATGCCTGGCCGTAGC	0.612													8	47	---	---	---	---	PASS	A	3125526	A	A	3125526	3	1	118	1	0	0	0	0	1	0	0	0	11280	681	24	3	1550	3	OSBPL5	11	3125526	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1864114	3125526	131880990	207	43005										
OR51L1	119682	broad.mit.edu	37	chr11	5020628	5020628	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gcactaccccaccatcctcaCcaacagtgtaattggcaaaa	5	15	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:5020628C>G	uc010qyu.1	+	1	416	c.416C>G	c.(415-417)ACC>AGC	p.T139S		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACCATCCTCACCAACAGTGTA	0.488													39	166	---	---	---	---	PASS	G	5020628	G	G	5020628	3	3	118	1	0	0	0	0	1	0	0	0	11102	507	18	4	418	4	OR51L1	11	5020628	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1895102	5020628	129985888	208	43006										
TRIM6-TRIM34	445372	broad.mit.edu	37	chr11	5663637	5663637	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aaatttttttcatccctaggAgtgagatctggaggctgaaa	10	6	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:5663637A>G	uc001mbf.2	+	12	2081	c.1837A>G	c.(1837-1839)AGT>GGT	p.S613G	HBG2_uc001mak.1_Intron|TRIM34_uc001mbh.2_Missense_Mutation_p.S259G|TRIM34_uc009yeq.2_Missense_Mutation_p.S14G|TRIM34_uc001mbi.2_Missense_Mutation_p.S259G|TRIM78P_uc009yer.2_5'Flank	NM_001003819	NP_001003819	B2RNG4	B2RNG4_HUMAN	tripartite motif-containing 6 and tripartite	613						intracellular	zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;1.01e-08)|BRCA - Breast invasive adenocarcinoma(625;0.145)		CATCCCTAGGAGTGAGATCTG	0.443													10	71	---	---	---	---	PASS	G	5663637	G	G	5663637	3	3	118	1	0	0	0	0	1	0	0	0	16531	318	11	5	1856	5	TRIM6-TRIM34	11	5663637	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	643009	5663637	129342879	209	43007										
OR52E8	390079	broad.mit.edu	37	chr11	5878630	5878630	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aacatgtgagaaaggcagccTccaaaagatatttctttggt	9	7	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:5878630T>A	uc010qzr.1	-	1	303	c.303A>T	c.(301-303)GGA>GGT	p.G101G	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	101	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAAGGCAGCCTCCAAAAGATA	0.468													37	187	---	---	---	---	PASS	A	5878630	A	A	5878630	2	1	118	1	0	0	0	0	0	0	0	1	11118	1538	54	5		5	OR52E8	11	5878630	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	214993	5878630	129127886	210	43008										
OR52B2	255725	broad.mit.edu	37	chr11	6191058	6191058	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggttaggcagaagggcagccGcttcagcaagaatatgactg	14	8	1	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:6191058G>T	uc010qzy.1	-	1	499	c.499C>A	c.(499-501)CGG>AGG	p.R167R		NM_001004052	NP_001004052	Q96RD2	O52B2_HUMAN	olfactory receptor, family 52, subfamily B,	167	Extracellular (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;3.69e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAGGGCAGCCGCTTCAGCAAG	0.488													8	43	---	---	---	---	PASS	T	6191058	T	T	6191058	2	4	118	1	0	0	0	0	0	0	0	1	11111	1086	38	1		1	OR52B2	11	6191058	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	312428	6191058	128815458	211	43009										
SYT9	143425	broad.mit.edu	37	chr11	7334699	7334699	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agcagcttcaaaaacaggaaCagttgactggaattggtaga	11	6	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:7334699C>A	uc001mfe.2	+	3	808	c.571C>A	c.(571-573)CAG>AAG	p.Q191K	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_Intron	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	191	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		AAAACAGGAACAGTTGACTGG	0.413													10	50	---	---	---	---	PASS	A	7334699	A	A	7334699	3	1	118	1	0	0	0	0	1	0	0	0	15478	479	17	3	581	3	SYT9	11	7334699	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1143641	7334699	127671817	212	43010										
USP47	55031	broad.mit.edu	37	chr11	11964541	11964541	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	acatgggatacagcagaagaAgactctggaactgatagtga	12	6	1	5			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:11964541A>C	uc001mjq.1	+	21	3796	c.3033A>C	c.(3031-3033)GAA>GAC	p.E1011D	USP47_uc001mjr.2_Missense_Mutation_p.E923D|USP47_uc001mjs.2_Missense_Mutation_p.E991D|USP47_uc001mjt.1_Missense_Mutation_p.E297D	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	1011					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		CAGCAGAAGAAGACTCTGGAA	0.408													22	67	---	---	---	---	PASS	C	11964541	C	C	11964541	3	2	118	1	0	0	0	0	1	0	0	0	17075	69	3	5	2843	5	USP47	11	11964541	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	4629842	11964541	123041975	213	43011										
SOX6	55553	broad.mit.edu	37	chr11	16007843	16007843	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttttgccatcaacaatgcagGtgcgtttcggtcggggtttg	13	8	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:16007843G>A	uc001mme.2	-	15	2162	c.2129C>T	c.(2128-2130)ACC>ATC	p.T710I	SOX6_uc001mmd.2_Missense_Mutation_p.T673I|SOX6_uc001mmf.2_Missense_Mutation_p.T670I|SOX6_uc001mmg.2_Missense_Mutation_p.T677I	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	697					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						AACAATGCAGGTGCGTTTCGG	0.468													23	229	---	---	---	---	PASS	A	16007843	A	A	16007843	3	1	118	1	0	0	0	0	1	0	0	0	14955	1261	44	3	404	3	SOX6	11	16007843	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	4043302	16007843	118998673	214	43012										
MRGPRX4	117196	broad.mit.edu	37	chr11	18195179	18195179	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agcgctgcctgtctgttctgTggcccatctggtaccgctgc	12	14	3	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:18195179T>A	uc001mnv.1	+	1	796	c.376T>A	c.(376-378)TGG>AGG	p.W126R		NM_054032	NP_473373	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	126	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						GTCTGTTCTGTGGCCCATCTG	0.587													24	161	---	---	---	---	PASS	A	18195179	A	A	18195179	3	1	118	1	0	0	0	0	1	0	0	0	9769	1696	59	5	378	5	MRGPRX4	11	18195179	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	2187336	18195179	116811337	215	43013										
SLC1A2	6506	broad.mit.edu	37	chr11	35287091	35287091	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	taccttgcattcatctactaTgacagagttgtgtgcagcat	8	9	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:35287091T>A	uc001mwd.2	-	10	2228	c.1636A>T	c.(1636-1638)ATA>TTA	p.I546L	SLC1A2_uc001mwe.2_Missense_Mutation_p.I537L|SLC1A2_uc010rev.1_Missense_Mutation_p.I546L	NM_004171	NP_004162	P43004	EAA2_HUMAN	excitatory amino acid transporter 2	546					D-aspartate import|L-glutamate import|synaptic transmission	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|central_nervous_system(1)	3	all_lung(20;0.211)|all_epithelial(35;0.234)	all_hematologic(20;0.109)	STAD - Stomach adenocarcinoma(6;0.00731)		L-Glutamic Acid(DB00142)	TCATCTACTATGACAGAGTTG	0.358													27	128	---	---	---	---	PASS	A	35287091	A	A	35287091	3	1	118	1	0	0	0	0	1	0	0	0	14432	1464	51	5	96	5	SLC1A2	11	35287091	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	17091912	35287091	99719425	216	43014										
SYT13	57586	broad.mit.edu	37	chr11	45265746	45265746	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctgccctgaatcgtcctggcCcagcacttccagctccacac	7	19	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:45265746C>A	uc001myq.2	-	6	1264	c.1138G>T	c.(1138-1140)GGC>TGC	p.G380C	SYT13_uc009yku.1_Missense_Mutation_p.G236C	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	380	C2 2.|Cytoplasmic (Potential).					transport vesicle				ovary(1)	1						TCGTCCTGGCCCAGCACTTCC	0.602													11	35	---	---	---	---	PASS	A	45265746	A	A	45265746	3	1	118	1	0	0	0	0	1	0	0	0	15466	623	22	3	146	3	SYT13	11	45265746	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	9978655	45265746	89740770	217	43015										
ZNF408	79797	broad.mit.edu	37	chr11	46726892	46726892	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gccatctcatctcacacaccGgggaggcccacttgtgcccg	10	17	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:46726892G>C	uc001nde.1	+	5	1872	c.1642G>C	c.(1642-1644)GGG>CGG	p.G548R	ZNF408_uc010rgw.1_Missense_Mutation_p.G540R	NM_024741	NP_079017	Q9H9D4	ZN408_HUMAN	zinc finger protein 408	548					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding				0						CTCACACACCGGGGAGGCCCA	0.672													5	30	---	---	---	---	PASS	C	46726892	C	C	46726892	3	2	118	1	0	0	0	0	1	0	0	0	17885	1116	39	4	1692	4	ZNF408	11	46726892	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	1461146	46726892	88279624	218	43016										
MYBPC3	4607	broad.mit.edu	37	chr11	47365127	47365127	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gttccacggtcagccggatcTtgtggcctttgctcacctgg	12	13	3	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:47365127T>A	uc001nfa.3	-	13	1194	c.1139A>T	c.(1138-1140)AAG>ATG	p.K380M	MYBPC3_uc010rhl.1_5'Flank	NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	380	Ig-like C2-type 2.				cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		CAGCCGGATCTTGTGGCCTTT	0.647													6	17	---	---	---	---	PASS	A	47365127	A	A	47365127	3	1	118	1	0	0	0	0	1	0	0	0	10013	1609	56	5	2769	5	MYBPC3	11	47365127	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	638235	47365127	87641389	219	43017										
OR4X2	119764	broad.mit.edu	37	chr11	48267133	48267133	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttctcatcttccacctgctcTtctgtggccccaatgtgatc	6	15	4	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:48267133T>C	uc001ngs.1	+	1	478	c.478T>C	c.(478-480)TTC>CTC	p.F160L		NM_001004727	NP_001004727	Q8NGF9	OR4X2_HUMAN	olfactory receptor, family 4, subfamily X,	160	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCACCTGCTCTTCTGTGGCCC	0.483													32	262	---	---	---	---	PASS	C	48267133	C	C	48267133	3	2	118	1	0	0	0	0	1	0	0	0	11085	1609	56	5	480	5	OR4X2	11	48267133	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	902006	48267133	86739383	220	43018										
OR4C12	283093	broad.mit.edu	37	chr11	50003572	50003572	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tactgtaaagagaatctgaaTagttgcatgaagaaatcctc	8	6	1	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:50003572T>C	uc010ria.1	-	1	466	c.466A>G	c.(466-468)ATT>GTT	p.I156V		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						AGAATCTGAATAGTTGCATGA	0.478													37	165	---	---	---	---	PASS	C	50003572	C	C	50003572	3	2	118	1	0	0	0	0	1	0	0	0	11046	1406	49	5	467	5	OR4C12	11	50003572	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	1736439	50003572	85002944	221	43019										
OR8H3	390152	broad.mit.edu	37	chr11	55890376	55890376	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gactcaaacataattcatcaCtttttctgtgacacttcccc	3	13	4	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:55890376C>T	uc001nii.1	+	1	528	c.528C>T	c.(526-528)CAC>CAT	p.H176H		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	176	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					TAATTCATCACTTTTTCTGTG	0.428													5	142	---	---	---	---	PASS	T	55890376	T	T	55890376	2	4	118	1	0	0	0	0	0	0	0	1	11239	564	20	3		3	OR8H3	11	55890376	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	5886804	55890376	79116140	222	43020										
OR5M10	390167	broad.mit.edu	37	chr11	56344762	56344762	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gccatacatgtaaggcacagTgaccagagagatgcaaatgt	11	8	0	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:56344762T>C	uc001niz.1	-	1	436	c.436A>G	c.(436-438)ACT>GCT	p.T146A		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TAAGGCACAGTGACCAGAGAG	0.443													26	87	---	---	---	---	PASS	C	56344762	C	C	56344762	3	2	118	1	0	0	0	0	1	0	0	0	11173	1696	59	5	515	5	OR5M10	11	56344762	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	454386	56344762	78661754	223	43021										
OR5AP2	338675	broad.mit.edu	37	chr11	56409758	56409758	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agagatcaatcttaatcaatAcaatcatccccaaattgccc	3	12	4	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:56409758A>T	uc001njb.1	-	1	158	c.158T>A	c.(157-159)GTA>GAA	p.V53E		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	53	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						CTTAATCAATACAATCATCCC	0.428													15	51	---	---	---	---	PASS	T	56409758	T	T	56409758	3	4	118	1	0	0	0	0	1	0	0	0	11144	391	14	5	796	5	OR5AP2	11	56409758	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	64996	56409758	78596758	224	43022										
OR5AR1	219493	broad.mit.edu	37	chr11	56431618	56431618	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgggctcttacctggctggtCtagtgagtttagtagcccac	12	10	2	1	rs77272836	byFrequency	TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:56431618C>A	uc010rjm.1	+	1	457	c.457C>A	c.(457-459)CTA>ATA	p.L153I		NM_001004730	NP_001004730	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR,	153	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCTGGCTGGTCTAGTGAGTTT	0.502													33	153	---	---	---	---	PASS	A	56431618	A	A	56431618	3	1	118	1	0	0	0	0	1	0	0	0	11145	912	32	2	459	2	OR5AR1	11	56431618	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	21860	56431618	78574898	225	43023										
AHNAK	79026	broad.mit.edu	37	chr11	62298001	62298001	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tccgggccctcaaggctcacAtctgggacttcaacatccac	8	16	4	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:62298001A>T	uc001ntl.2	-	5	4188	c.3888T>A	c.(3886-3888)GAT>GAA	p.D1296E	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1296					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CAAGGCTCACATCTGGGACTT	0.557													51	252	---	---	---	---	PASS	T	62298001	T	T	62298001	3	4	118	1	0	0	0	0	1	0	0	0	414	214	8	5	13904	5	AHNAK	11	62298001	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	5866383	62298001	72708515	226	43024										
RBM14	10432	broad.mit.edu	37	chr11	66391822	66391822	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agaaggggcctggcctggctGtccagtctggggacaagacc	16	11	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:66391822G>C	uc001oit.2	+	2	614	c.475G>C	c.(475-477)GTC>CTC	p.V159L	RBM14_uc009yrh.2_Intron|RBM14_uc009yri.2_Intron|RBM4_uc009yrj.2_Intron|RBM4_uc009yrk.2_Intron	NM_006328	NP_006319	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	159					DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|histone deacetylation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus	mediator complex|ribonucleoprotein complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|protein binding, bridging|RNA binding|RNA polymerase II transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						TGGCCTGGCTGTCCAGTCTGG	0.592													7	58	---	---	---	---	PASS	C	66391822	C	C	66391822	3	2	118	1	0	0	0	0	1	0	0	0	13115	1377	48	4	481	4	RBM14	11	66391822	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	4093821	66391822	68614694	227	43025										
NADSYN1	55191	broad.mit.edu	37	chr11	71208566	71208566	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	atatgcggagctctcggtctAtgggaaactcaggaaggtgg	15	7	3	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:71208566A>G	uc001oqn.2	+	19	1928	c.1802A>G	c.(1801-1803)TAT>TGT	p.Y601C	NADSYN1_uc001oqo.2_Missense_Mutation_p.Y341C|NADSYN1_uc001oqp.2_Missense_Mutation_p.Y230C	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	601	Ligase (By similarity).				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CTCTCGGTCTATGGGAAACTC	0.532													15	50	---	---	---	---	PASS	G	71208566	G	G	71208566	3	3	118	1	0	0	0	0	1	0	0	0	10138	449	16	5	1876	5	NADSYN1	11	71208566	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	4816744	71208566	63797950	228	43026										
FOLH1B	219595	broad.mit.edu	37	chr11	89431764	89431764	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gagactttgagtgaagtagcCtaagaggattctttagagac	12	5	1	5			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:89431764C>A	uc001pda.2	+	14	1852	c.1326C>A	c.(1324-1326)GCC>GCA	p.A442A		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	442					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						GTGAAGTAGCCTAAGAGGATT	0.398													10	76	---	---	---	---	PASS	A	89431764	A	A	89431764	2	1	118	1	0	0	0	0	0	0	0	1	5980	668	24	3		3	FOLH1B	11	89431764	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	18223198	89431764	45574752	229	43027										
GRIK4	2900	broad.mit.edu	37	chr11	120673443	120673443	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tggagtgcagcagaggggagCggctctccatcaccctggcc	15	13	2	1	rs139978243		TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:120673443C>A	uc001pxn.2	+	4	411	c.124C>A	c.(124-126)CGG>AGG	p.R42R	GRIK4_uc009zav.1_Silent_p.R42R|GRIK4_uc009zaw.1_Silent_p.R42R|GRIK4_uc009zax.1_Silent_p.R42R	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	42	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	CAGAGGGGAGCGGCTCTCCAT	0.587											OREG0021427	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	70	---	---	---	---	PASS	A	120673443	A	A	120673443	2	1	118	1	0	0	0	0	0	0	0	1	6776	759	27	1		1	GRIK4	11	120673443	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	31241679	120673443	14333073	230	43028										
GRIK4	2900	broad.mit.edu	37	chr11	120827614	120827614	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggggttcatgcagcaaggctCcaccatcgcccctcgcgcct	11	17	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:120827614C>G	uc001pxn.2	+	16	2113	c.1826C>G	c.(1825-1827)TCC>TGC	p.S609C	GRIK4_uc009zav.1_Missense_Mutation_p.S609C|GRIK4_uc009zaw.1_Missense_Mutation_p.S609C|GRIK4_uc009zax.1_Missense_Mutation_p.S609C	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	609	Cytoplasmic (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	CAGCAAGGCTCCACCATCGCC	0.647													12	35	---	---	---	---	PASS	G	120827614	G	G	120827614	3	3	118	1	0	0	0	0	1	0	0	0	6776	855	30	2	1880	2	GRIK4	11	120827614	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	154171	120827614	14178902	231	43029										
ROBO3	64221	broad.mit.edu	37	chr11	124740079	124740079	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agagcgtccctcattcctgcGcagaccagtgaatcaggtgg	12	12	2	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:124740079G>T	uc001qbc.2	+	5	977	c.785G>T	c.(784-786)CGC>CTC	p.R262L		NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	262	Ig-like C2-type 3.|Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		TCATTCCTGCGCAGACCAGTG	0.552													15	107	---	---	---	---	PASS	T	124740079	T	T	124740079	3	4	118	1	0	0	0	0	1	0	0	0	13515	1087	38	1	803	1	ROBO3	11	124740079	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	3912465	124740079	10266437	232	43030										
CCDC15	80071	broad.mit.edu	37	chr11	124857197	124857197	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gaatccagagtgttaagccaGatacccaggctgttgaaatg	11	8	0	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:124857197G>T	uc001qbm.3	+	8	1334	c.1075G>T	c.(1075-1077)GAT>TAT	p.D359Y		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	359						centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		TGTTAAGCCAGATACCCAGGC	0.473													22	130	---	---	---	---	PASS	T	124857197	T	T	124857197	3	4	118	1	0	0	0	0	1	0	0	0	2784	942	33	2	1101	2	CCDC15	11	124857197	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	117118	124857197	10149319	233	43031										
ACAD8	27034	broad.mit.edu	37	chr11	134127012	134127012	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cagtggatgtgatgcggaagGcagcccagctaggcttcgga	16	9	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr11:134127012G>A	uc001qhk.2	+	3	302	c.241G>A	c.(241-243)GCA>ACA	p.A81T	ACAD8_uc009zdc.2_Intron|ACAD8_uc010sco.1_Intron|ACAD8_uc010scp.1_Intron|ACAD8_uc010scq.1_Missense_Mutation_p.A4T|ACAD8_uc001qhl.2_Intron|ACAD8_uc010scr.1_Missense_Mutation_p.A43T|ACAD8_uc009zde.1_5'Flank	NM_014384	NP_055199	Q9UKU7	ACAD8_HUMAN	acyl-Coenzyme A dehydrogenase family, member 8	81					branched chain family amino acid catabolic process|lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding				0	all_hematologic(175;0.127)	all_cancers(12;8e-23)|all_epithelial(12;2.59e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|all_neural(223;0.0189)|Medulloblastoma(222;0.0245)|Esophageal squamous(93;0.0559)		Epithelial(10;1.92e-10)|all cancers(11;2.26e-09)|BRCA - Breast invasive adenocarcinoma(10;8.73e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00154)|Lung(977;0.21)		GATGCGGAAGGCAGCCCAGCT	0.532													14	83	---	---	---	---	PASS	A	134127012	A	A	134127012	3	1	118	1	0	0	0	0	1	0	0	0	110	1203	42	3	251	3	ACAD8	11	134127012	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	9269815	134127012	879504	234	43032										
CACNA1C	775	broad.mit.edu	37	chr12	2676868	2676868	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gtcgtgtgtggcggcatcctGgagaccatcctggtggagac	16	10	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:2676868G>T	uc009zdu.1	+	13	2116	c.1803G>T	c.(1801-1803)CTG>CTT	p.L601L	CACNA1C_uc009zdv.1_Silent_p.L598L|CACNA1C_uc001qkb.2_Silent_p.L601L|CACNA1C_uc001qkc.2_Silent_p.L601L|CACNA1C_uc001qke.2_Silent_p.L601L|CACNA1C_uc001qkf.2_Silent_p.L601L|CACNA1C_uc001qjz.2_Silent_p.L601L|CACNA1C_uc001qkd.2_Silent_p.L601L|CACNA1C_uc001qkg.2_Silent_p.L601L|CACNA1C_uc009zdw.1_Silent_p.L601L|CACNA1C_uc001qkh.2_Silent_p.L601L|CACNA1C_uc001qkl.2_Silent_p.L601L|CACNA1C_uc001qkn.2_Silent_p.L601L|CACNA1C_uc001qko.2_Silent_p.L601L|CACNA1C_uc001qkp.2_Silent_p.L601L|CACNA1C_uc001qkr.2_Silent_p.L601L|CACNA1C_uc001qku.2_Silent_p.L601L|CACNA1C_uc001qkq.2_Silent_p.L601L|CACNA1C_uc001qks.2_Silent_p.L601L|CACNA1C_uc001qkt.2_Silent_p.L601L|CACNA1C_uc001qka.1_Silent_p.L136L|CACNA1C_uc001qki.1_Silent_p.L337L|CACNA1C_uc001qkj.1_Silent_p.L337L|CACNA1C_uc001qkk.1_Silent_p.L337L|CACNA1C_uc001qkm.1_Silent_p.L337L	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	601	Helical; Name=S3 of repeat II; (Potential).|II.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GCGGCATCCTGGAGACCATCC	0.582													5	27	---	---	---	---	PASS	T	2676868	T	T	2676868	2	4	118	1	0	0	0	0	0	0	0	1	2540	1335	47	3		3	CACNA1C	12	2676868	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08		2676868	131175027	235	43033										
CACNA1C	775	broad.mit.edu	37	chr12	2800348	2800348	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agctccaggacagcagggtcTacgtcagcagcctgtagtgg	14	11	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:2800348T>G	uc009zdu.1	+	50	6962	c.6649T>G	c.(6649-6651)TAC>GAC	p.Y2217D	CACNA1C_uc009zdv.1_Missense_Mutation_p.Y2131D|CACNA1C_uc001qkb.2_Missense_Mutation_p.Y2134D|CACNA1C_uc001qkc.2_Missense_Mutation_p.Y2153D|CACNA1C_uc001qke.2_Missense_Mutation_p.Y2123D|CACNA1C_uc001qkf.2_Missense_Mutation_p.Y2142D|CACNA1C_uc001qjz.2_Missense_Mutation_p.Y2134D|CACNA1C_uc001qkd.2_Missense_Mutation_p.Y2153D|CACNA1C_uc001qkg.2_Missense_Mutation_p.Y2140D|CACNA1C_uc009zdw.1_Missense_Mutation_p.Y2175D|CACNA1C_uc001qkh.2_Missense_Mutation_p.Y2142D|CACNA1C_uc001qkl.2_Missense_Mutation_p.Y2182D|CACNA1C_uc001qkn.2_Missense_Mutation_p.Y2134D|CACNA1C_uc001qko.2_Missense_Mutation_p.Y2154D|CACNA1C_uc001qkp.2_Missense_Mutation_p.Y2134D|CACNA1C_uc001qkr.2_Missense_Mutation_p.Y2151D|CACNA1C_uc001qku.2_Missense_Mutation_p.Y2169D|CACNA1C_uc001qkq.2_Missense_Mutation_p.Y2162D|CACNA1C_uc001qks.2_Missense_Mutation_p.Y2134D|CACNA1C_uc001qkt.2_Missense_Mutation_p.Y2153D|CACNA1C_uc001qki.1_Missense_Mutation_p.Y1941D|CACNA1C_uc001qkj.1_Missense_Mutation_p.Y1905D|CACNA1C_uc001qkk.1_Missense_Mutation_p.Y1870D|CACNA1C_uc001qkm.1_Missense_Mutation_p.Y1930D|CACNA1C_uc010sea.1_Missense_Mutation_p.Y825D|uc001qkx.1_5'Flank|CACNA1C_uc001qky.1_Missense_Mutation_p.Y452D	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	2217	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CAGCAGGGTCTACGTCAGCAG	0.612													9	35	---	---	---	---	PASS	G	2800348	G	G	2800348	3	3	118	1	0	0	0	0	1	0	0	0	2540	1522	53	5	7295	5	CACNA1C	12	2800348	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	123480	2800348	131051547	236	43034										
CD163L1	283316	broad.mit.edu	37	chr12	7528442	7528442	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tcccttttccaaagtgatctCccacagaaagagatatggca	7	11	1	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:7528442C>A	uc001qsy.2	-	10	2566	c.2540G>T	c.(2539-2541)GGA>GTA	p.G847V	CD163L1_uc010sge.1_Missense_Mutation_p.G857V	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	847	SRCR 8.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						AAAGTGATCTCCCACAGAAAG	0.463													30	104	---	---	---	---	PASS	A	7528442	A	A	7528442	3	1	118	1	0	0	0	0	1	0	0	0	2968	855	30	2	1861	2	CD163L1	12	7528442	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	4728094	7528442	126323453	237	43035										
CD163	9332	broad.mit.edu	37	chr12	7633838	7633838	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aatttggtggactaagttctCtcctcttgaggaaactgaaa	9	7	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:7633838C>A	uc001qsz.3	-	15	3390	c.3262G>T	c.(3262-3264)GAG>TAG	p.E1088*	CD163_uc001qta.3_Nonsense_Mutation_p.E1088*|CD163_uc009zfw.2_Nonsense_Mutation_p.E1121*	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	1088	Cytoplasmic (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						ACTAAGTTCTCTCCTCTTGAG	0.428													26	115	---	---	---	---	PASS	A	7633838	A	A	7633838	4	1	118	1	0	0	0	0	0	1	0	0	2967	922	32	2	216	2	CD163	12	7633838	Nonsense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	105396	7633838	126218057	238	43036										
KLRF1	51348	broad.mit.edu	37	chr12	9985926	9985926	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gggagtattgctaaaatgccAaaaaggaagttgttcaaatg	11	4	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:9985926A>G	uc010sgw.1	+	3	276	c.212A>G	c.(211-213)CAA>CGA	p.Q71R	KLRF1_uc009zgw.2_Intron|KLRF1_uc009zgx.2_RNA|KLRF1_uc001qwm.2_RNA|KLRF1_uc009zgy.2_Intron|KLRF1_uc009zgz.2_Missense_Mutation_p.Q71R|KLRF1_uc009zha.2_Intron	NM_016523	NP_057607	Q9NZS2	KLRF1_HUMAN	killer cell lectin-like receptor subfamily F,	71	Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to plasma membrane	MHC class I receptor activity|sugar binding			large_intestine(1)	1						CTAAAATGCCAAAAAGGAAGT	0.358													10	36	---	---	---	---	PASS	G	9985926	G	G	9985926	3	3	118	1	0	0	0	0	1	0	0	0	8420	130	5	5	222	5	KLRF1	12	9985926	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	2352088	9985926	123865969	239	43037										
PRH1	5554	broad.mit.edu	37	chr12	11034868	11034868	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gcccctgtggaggtccttgtGggcggcccccttggggaggt	18	12	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:11034868G>A	uc001qzc.2	-	8	1055	c.467C>T	c.(466-468)CCA>CTA	p.P156L	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_RNA|PRB4_uc001qzf.1_Intron	NM_006250	NP_006241	P02810	PRPC_HUMAN	proline-rich protein HaeIII subfamily 1	156						extracellular space	protein binding				0				BRCA - Breast invasive adenocarcinoma(232;0.245)		AGGTCCTTGTGGGCGGCCCCC	0.577													23	143	---	---	---	---	PASS	A	11034868	A	A	11034868	3	1	118	1	0	0	0	0	1	0	0	0	12482	1348	47	3	37	3	PRH1	12	11034868	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	1048942	11034868	122817027	240	43038										
GRIN2B	2904	broad.mit.edu	37	chr12	13716470	13716470	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cggatgcacgcctgcctgccCgagttctgacccgtcaccgt	11	17	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:13716470C>T	uc001rbt.2	-	13	3881	c.3702G>A	c.(3700-3702)TCG>TCA	p.S1234S		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1234	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CCTGCCTGCCCGAGTTCTGAC	0.617													14	63	---	---	---	---	PASS	T	13716470	T	T	13716470	2	4	118	1	0	0	0	0	0	0	0	1	6780	639	23	1		1	GRIN2B	12	13716470	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	2681602	13716470	120135425	241	43039										
PDE3A	5139	broad.mit.edu	37	chr12	20806910	20806910	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gaggccagccttggattaccCataagccccttcatggatcg	10	13	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:20806910C>T	uc001reh.1	+	15	2977	c.2955C>T	c.(2953-2955)CCC>CCT	p.P985P		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	985	Catalytic (By similarity).				lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	TTGGATTACCCATAAGCCCCT	0.458													21	95	---	---	---	---	PASS	T	20806910	T	T	20806910	2	4	118	1	0	0	0	0	0	0	0	1	11637	581	21	3		3	PDE3A	12	20806910	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	7090440	20806910	113044985	242	43040										
SLCO1B1	10599	broad.mit.edu	37	chr12	21392004	21392004	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccatgaagaaaaaatatcaaGagaaagatatcaatgcatca	6	6	3	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:21392004G>T	uc001req.3	+	15	2061	c.1957G>T	c.(1957-1959)GAG>TAG	p.E653*		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	653	Cytoplasmic (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	AAAATATCAAGAGAAAGATAT	0.323													5	43	---	---	---	---	PASS	T	21392004	T	T	21392004	4	4	118	1	0	0	0	0	0	1	0	0	14723	943	33	2	2011	2	SLCO1B1	12	21392004	Nonsense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	585094	21392004	112459891	243	43041										
PKP2	5318	broad.mit.edu	37	chr12	33021918	33021918	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgtatgaaagtagctgcagcAgaaatcctggatggcagcat	12	7	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:33021918A>G	uc001rlj.3	-	4	1228	c.1113T>C	c.(1111-1113)TCT>TCC	p.S371S	PKP2_uc001rlk.3_Silent_p.S371S|PKP2_uc010skj.1_Silent_p.S371S	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	371	ARM 1.				cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					TAGCTGCAGCAGAAATCCTGG	0.502													28	106	---	---	---	---	PASS	G	33021918	G	G	33021918	2	3	118	1	0	0	0	0	0	0	0	1	11985	175	7	5		5	PKP2	12	33021918	Silent	SNP	A	TCGA-56-6546-01A-11D-1817-08	11629914	33021918	100829977	244	43042										
LRRK2	120892	broad.mit.edu	37	chr12	40681156	40681156	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gtatctcttattttcagataTagcatctacactagcaagaa	5	8	3	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:40681156T>C	uc001rmg.3	+	20	2625	c.2504T>C	c.(2503-2505)ATA>ACA	p.I835T	LRRK2_uc001rmh.1_Missense_Mutation_p.I457T	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	835					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)				TTTTCAGATATAGCATCTACA	0.373													6	29	---	---	---	---	PASS	C	40681156	C	C	40681156	3	2	118	1	0	0	0	0	1	0	0	0	9033	1406	49	5	2582	5	LRRK2	12	40681156	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	7659238	40681156	93170739	245	43043										
PDZRN4	29951	broad.mit.edu	37	chr12	41967358	41967358	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggaagagcggagtggcatgaCcacagacgatgacaccatga	14	9	0	5			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:41967358C>G	uc010skn.1	+	10	2248	c.2180C>G	c.(2179-2181)ACC>AGC	p.T727S	PDZRN4_uc001rmq.3_Missense_Mutation_p.T668S|PDZRN4_uc009zjz.2_Missense_Mutation_p.T666S|PDZRN4_uc001rmr.2_Missense_Mutation_p.T553S	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	926							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				AGTGGCATGACCACAGACGAT	0.552													17	43	---	---	---	---	PASS	G	41967358	G	G	41967358	3	3	118	1	0	0	0	0	1	0	0	0	11710	507	18	4	2888	4	PDZRN4	12	41967358	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1286202	41967358	91884537	246	43044										
ARID2	196528	broad.mit.edu	37	chr12	46244007	46244007	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agcaacaaaatgctccagtgActgtcattcaaagtaaagct	7	9	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:46244007A>T	uc001ros.1	+	15	2101	c.2101A>T	c.(2101-2103)ACT>TCT	p.T701S	ARID2_uc001ror.2_Missense_Mutation_p.T701S|ARID2_uc009zkg.1_Missense_Mutation_p.T157S|ARID2_uc009zkh.1_Missense_Mutation_p.T328S|ARID2_uc001rou.1_Missense_Mutation_p.T35S	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	701					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TGCTCCAGTGACTGTCATTCA	0.418													32	124	---	---	---	---	PASS	T	46244007	T	T	46244007	3	4	118	1	0	0	0	0	1	0	0	0	915	275	10	5	2159	5	ARID2	12	46244007	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	4276649	46244007	87607888	247	43045										
TROAP	10024	broad.mit.edu	37	chr12	49723709	49723709	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tggagggttctgggaaaccaCcggtggccactccttctgga	14	11	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:49723709C>A	uc001rtx.3	+	12	1401	c.1234C>A	c.(1234-1236)CCG>ACG	p.P412T	TROAP_uc009zlh.2_Missense_Mutation_p.P412T|TROAP_uc001rty.2_Missense_Mutation_p.P120T	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	412					cell adhesion	cytoplasm				ovary(1)	1						TGGGAAACCACCGGTGGCCAC	0.537													28	119	---	---	---	---	PASS	A	49723709	A	A	49723709	3	1	118	1	0	0	0	0	1	0	0	0	16572	507	18	3	1378	3	TROAP	12	49723709	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	3479702	49723709	84128186	248	43046										
HOXC10	3226	broad.mit.edu	37	chr12	54379715	54379715	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cagagcctggcgggccctaaAgggagcccctcggagagcga	16	13	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:54379715A>G	uc001sen.2	+	1	770	c.672A>G	c.(670-672)AAA>AAG	p.K224K		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	224					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						CGGGCCCTAAAGGGAGCCCCT	0.637													8	28	---	---	---	---	PASS	G	54379715	G	G	54379715	2	3	118	1	0	0	0	0	0	0	0	1	7309	69	3	5		5	HOXC10	12	54379715	Silent	SNP	A	TCGA-56-6546-01A-11D-1817-08	4656006	54379715	79472180	249	43047										
ERBB3	2065	broad.mit.edu	37	chr12	56489049	56489049	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tttcttccctaggtgtaaagGaccagagcttcaagactgtt	9	9	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:56489049G>A	uc001sjh.2	+	16	2061	c.1868G>A	c.(1867-1869)GGA>GAA	p.G623E	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_5'UTR|ERBB3_uc010sqc.1_Missense_Mutation_p.G564E|ERBB3_uc009zok.2_Missense_Mutation_p.G65E|ERBB3_uc001sjk.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	623	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			AGGTGTAAAGGACCAGAGCTT	0.448													18	81	---	---	---	---	PASS	A	56489049	A	A	56489049	3	1	118	1	0	0	0	0	1	0	0	0	5208	1174	41	2	2061	2	ERBB3	12	56489049	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	2109334	56489049	77362846	250	43048										
MARS	4141	broad.mit.edu	37	chr12	57884426	57884426	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgcggccccagcagaatccaGtgtgagtagacatggcacat	12	11	0	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:57884426G>A	uc001sog.2	+	7	792	c.769G>A	c.(769-771)GTG>ATG	p.V257M	ARHGAP9_uc001sod.2_5'Flank|ARHGAP9_uc001soe.1_5'Flank|MARS_uc001sof.1_RNA|MARS_uc010srp.1_Missense_Mutation_p.V130M|MARS_uc010srq.1_Missense_Mutation_p.V23M	NM_004990	NP_004981	P56192	SYMC_HUMAN	methionyl-tRNA synthetase	257					methionyl-tRNA aminoacylation	cytosol	ATP binding|methionine-tRNA ligase activity|protein binding|tRNA binding			ovary(3)|central_nervous_system(1)|pancreas(1)	5			GBM - Glioblastoma multiforme(3;4.27e-41)		L-Methionine(DB00134)	GCAGAATCCAGTGTGAGTAGA	0.532													17	71	---	---	---	---	PASS	A	57884426	A	A	57884426	3	1	118	1	0	0	0	0	1	0	0	0	9316	1043	36	3	795	3	MARS	12	57884426	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	1395377	57884426	75967469	251	43049										
SLC16A7	9194	broad.mit.edu	37	chr12	60168512	60168512	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tctataggaagcgacccatgGcaaatggattggccatggca	12	9	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:60168512G>T	uc001sqs.2	+	5	735	c.436G>T	c.(436-438)GCA>TCA	p.A146S	SLC16A7_uc001sqt.2_Missense_Mutation_p.A146S|SLC16A7_uc001squ.2_Missense_Mutation_p.A146S|SLC16A7_uc009zqi.2_Missense_Mutation_p.A47S|SLC16A7_uc010ssi.1_Missense_Mutation_p.A47S	NM_004731	NP_004722	O60669	MOT2_HUMAN	solute carrier family 16, member 7	146	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	pyruvate secondary active transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(3;0.0303)	Pyruvic acid(DB00119)	GCGACCCATGGCAAATGGATT	0.418													18	77	---	---	---	---	PASS	T	60168512	T	T	60168512	3	4	118	1	0	0	0	0	1	0	0	0	14413	1203	42	3	446	3	SLC16A7	12	60168512	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	2284086	60168512	73683383	252	43050										
RAB3IP	117177	broad.mit.edu	37	chr12	70194074	70194074	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tcctttcttagacaaaatctAccaggaagatatctttccat	4	10	3	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:70194074A>T	uc001svp.2	+	7	1469	c.1022A>T	c.(1021-1023)TAC>TTC	p.Y341F	RAB3IP_uc001svm.2_Missense_Mutation_p.Y325F|RAB3IP_uc001svn.2_Missense_Mutation_p.Y325F|RAB3IP_uc001svo.2_Intron|RAB3IP_uc001svq.2_Missense_Mutation_p.Y341F|RAB3IP_uc001svr.2_RNA|RAB3IP_uc001svs.2_Intron|RAB3IP_uc001svt.2_Missense_Mutation_p.Y119F	NM_175623	NP_783322	Q96QF0	RAB3I_HUMAN	RAB3A interacting protein isoform alpha 2	341					cilium assembly|Golgi to plasma membrane transport|protein localization to organelle|protein transport	actin cortical patch|centrosome|cytosol|lamellipodium|microtubule basal body|nucleus	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Esophageal squamous(21;0.187)		Lung(24;0.000381)|OV - Ovarian serous cystadenocarcinoma(12;0.00168)|STAD - Stomach adenocarcinoma(21;0.00694)			GACAAAATCTACCAGGAAGAT	0.343													8	44	---	---	---	---	PASS	T	70194074	T	T	70194074	3	4	118	1	0	0	0	0	1	0	0	0	12938	391	14	5	1048	5	RAB3IP	12	70194074	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	10025562	70194074	63657821	253	43051										
NAV3	89795	broad.mit.edu	37	chr12	78444913	78444913	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gggaaaagtctcaggactgaTgacatcaacagtgggtaagt	13	6	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:78444913T>A	uc001syp.2	+	11	2675	c.2502T>A	c.(2500-2502)GAT>GAA	p.D834E	NAV3_uc001syo.2_Missense_Mutation_p.D834E|NAV3_uc010sub.1_Missense_Mutation_p.D334E	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	834						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TCAGGACTGATGACATCAACA	0.443										HNSCC(70;0.22)			27	111	---	---	---	---	PASS	A	78444913	A	A	78444913	3	1	118	1	0	0	0	0	1	0	0	0	10185	1461	51	5	2544	5	NAV3	12	78444913	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	8250839	78444913	55406982	254	43052										
NAV3	89795	broad.mit.edu	37	chr12	78582517	78582517	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gaattgctgccttgtggataCcttgttggagataataacat	10	6	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:78582517C>A	uc001syp.2	+	33	6188	c.6015C>A	c.(6013-6015)TAC>TAA	p.Y2005*	NAV3_uc001syo.2_Nonsense_Mutation_p.Y1983*|NAV3_uc010sub.1_Nonsense_Mutation_p.Y1462*|NAV3_uc009zsf.2_Nonsense_Mutation_p.Y814*	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2005						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CTTGTGGATACCTTGTTGGAG	0.388										HNSCC(70;0.22)			19	103	---	---	---	---	PASS	A	78582517	A	A	78582517	4	1	118	1	0	0	0	0	0	1	0	0	10185	518	18	3	6075	3	NAV3	12	78582517	Nonsense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	137604	78582517	55269378	255	43053										
VEZT	55591	broad.mit.edu	37	chr12	95668562	95668562	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	caatgtaaccaactacatctGtgtggtgccttttaaagagc	8	9	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:95668562G>A	uc001tdz.2	+	7	998	c.893G>A	c.(892-894)TGT>TAT	p.C298Y	VEZT_uc009ztb.1_RNA|VEZT_uc009ztc.1_Translation_Start_Site|VEZT_uc001tdy.2_RNA	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	298						acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						AACTACATCTGTGTGGTGCCT	0.423													38	146	---	---	---	---	PASS	A	95668562	A	A	95668562	3	1	118	1	0	0	0	0	1	0	0	0	17153	1377	48	3	919	3	VEZT	12	95668562	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	17086045	95668562	38183333	256	43054										
CDK17	5128	broad.mit.edu	37	chr12	96728577	96728577	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	catcaatagtctgacttcctCggagtgtgagggatagcctt	11	9	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:96728577C>A	uc001tep.1	-	2	527	c.38G>T	c.(37-39)CGA>CTA	p.R13L	CDK17_uc009ztk.2_Missense_Mutation_p.R13L|CDK17_uc010svb.1_Intron	NM_002595	NP_002586	Q00537	CDK17_HUMAN	PCTAIRE protein kinase 2	13							ATP binding|cyclin-dependent protein kinase activity			ovary(3)|lung(2)|kidney(1)|central_nervous_system(1)	7						CTGACTTCCTCGGAGTGTGAG	0.353													7	35	---	---	---	---	PASS	A	96728577	A	A	96728577	3	1	118	1	0	0	0	0	1	0	0	0	3133	884	31	2	1635	2	CDK17	12	96728577	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1060015	96728577	37123318	257	43055										
NT5DC3	51559	broad.mit.edu	37	chr12	104171830	104171830	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgcggaacaggcttccaaacTgggcattgaagaaactcttg	11	9	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr12:104171830T>C	uc010swe.1	-	14	1465	c.1424A>G	c.(1423-1425)CAG>CGG	p.Q475R	NT5DC3_uc010swd.1_5'Flank	NM_001031701	NP_001026871	Q86UY8	NT5D3_HUMAN	5'-nucleotidase domain containing 3	475							hydrolase activity|metal ion binding			ovary(2)|skin(1)	3						GCTTCCAAACTGGGCATTGAA	0.458													14	68	---	---	---	---	PASS	C	104171830	C	C	104171830	3	2	118	1	0	0	0	0	1	0	0	0	10692	1580	55	5	226	5	NT5DC3	12	104171830	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	7443253	104171830	29680065	258	43056										
FLT1	2321	broad.mit.edu	37	chr13	29005411	29005411	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gttggcatgggaattgctttGgtcaattcgtcgccttacgg	13	8	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr13:29005411G>T	uc001usb.3	-	7	1135	c.850C>A	c.(850-852)CAA>AAA	p.Q284K	FLT1_uc010aar.1_Missense_Mutation_p.Q284K|FLT1_uc001usc.3_Missense_Mutation_p.Q284K|FLT1_uc010tdp.1_Missense_Mutation_p.Q284K	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	284	Extracellular (Potential).|Ig-like C2-type 3.				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)	GAATTGCTTTGGTCAATTCGT	0.363													23	51	---	---	---	---	PASS	T	29005411	T	T	29005411	3	4	118	1	0	0	0	0	1	0	0	0	5941	1357	47	3	3525	3	FLT1	13	29005411	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08		29005411	86164467	259	43057										
FARP1	10160	broad.mit.edu	37	chr13	99092415	99092415	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gaagtgggttgaggacatccAgatggccattgacctggcgg	16	8	0	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr13:99092415A>G	uc001vnj.2	+	23	2891	c.2555A>G	c.(2554-2556)CAG>CGG	p.Q852R	FARP1_uc001vnh.2_Missense_Mutation_p.Q883R	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	852	PH 1.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			GAGGACATCCAGATGGCCATT	0.612													38	120	---	---	---	---	PASS	G	99092415	G	G	99092415	3	3	118	1	0	0	0	0	1	0	0	0	5676	188	7	5	2864	5	FARP1	13	99092415	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	70087004	99092415	16077463	260	43058										
OR11H12	440153	broad.mit.edu	37	chr14	19377657	19377657	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctgagccaaattccagctttGcttttgtaaatgaatttata	6	7	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr14:19377657G>T	uc010tkp.1	+	1	64	c.64G>T	c.(64-66)GCT>TCT	p.A22S		NM_001013354	NP_001013372	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TTCCAGCTTTGCTTTTGTAAA	0.383													22	100	---	---	---	---	PASS	T	19377657	T	T	19377657	3	4	118	1	0	0	0	0	1	0	0	0	10927	1319	46	3	66	3	OR11H12	14	19377657	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08		19377657	87971883	261	43059										
OR4K5	79317	broad.mit.edu	37	chr14	20389730	20389730	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	actagtagtgagaacttcctTtcattaagacaaaactcctt	5	9	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr14:20389730T>A	uc010tkw.1	+	1	965	c.965T>A	c.(964-966)TTT>TAT	p.F322Y		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	322	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AGAACTTCCTTTCATTAAGAC	0.368													18	107	---	---	---	---	PASS	A	20389730	A	A	20389730	3	1	118	1	0	0	0	0	1	0	0	0	11073	1841	64	5	967	5	OR4K5	14	20389730	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	1012073	20389730	86959810	262	43060										
MYH7	4625	broad.mit.edu	37	chr14	23887604	23887604	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gactgcagtgcgtgggccagGgcgttcttcgcctggggagg	19	10	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr14:23887604G>C	uc001wjx.2	-	30	4090	c.3984C>G	c.(3982-3984)GCC>GCG	p.A1328A	MIR208B_hsa-mir-208b|MI0005570_5'Flank	NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1328	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CGTGGGCCAGGGCGTTCTTCG	0.642													7	45	---	---	---	---	PASS	C	23887604	C	C	23887604	2	2	118	1	0	0	0	0	0	0	0	1	10039	1219	43	4		4	MYH7	14	23887604	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	3497874	23887604	83461936	263	43061										
CLEC14A	161198	broad.mit.edu	37	chr14	38724724	38724724	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aactggtacttgcacaggtaGccgttggcgcgcaggtggca	15	10	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr14:38724724G>A	uc001wum.1	-	1	851	c.504C>T	c.(502-504)GGC>GGT	p.G168G		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	168	Extracellular (Potential).|C-type lectin.					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)		TGCACAGGTAGCCGTTGGCGC	0.577													10	67	---	---	---	---	PASS	A	38724724	A	A	38724724	2	1	118	1	0	0	0	0	0	0	0	1	3499	958	34	3		3	CLEC14A	14	38724724	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	14837120	38724724	68624816	264	43062										
PELI2	57161	broad.mit.edu	37	chr14	56757046	56757046	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	atgggctcactactaatggcGtcctggtgatgcatccacga	11	11	1	1	rs137897340	byFrequency	TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr14:56757046G>A	uc001xch.2	+	5	854	c.568G>A	c.(568-570)GTC>ATC	p.V190I		NM_021255	NP_067078	Q9HAT8	PELI2_HUMAN	pellino 2	190					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1						TACTAATGGCGTCCTGGTGAT	0.547													25	131	---	---	---	---	PASS	A	56757046	A	A	56757046	3	1	118	1	0	0	0	0	1	0	0	0	11722	1145	40	1	586	1	PELI2	14	56757046	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	18032322	56757046	50592494	265	43063										
MUDENG	55745	broad.mit.edu	37	chr14	57746974	57746974	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gagtctccccaccaatggatCtccacttcaggatattctag	7	13	4	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr14:57746974C>G	uc001xcv.2	+	3	1209	c.782C>G	c.(781-783)TCT>TGT	p.S261C	MUDENG_uc010tri.1_Missense_Mutation_p.S15C|MUDENG_uc010trj.1_Missense_Mutation_p.S158C	NM_018229	NP_060699	Q9H0R1	MUDEN_HUMAN	Mu-2 related death-inducing protein	261	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex				ovary(1)	1						ACCAATGGATCTCCACTTCAG	0.398													38	244	---	---	---	---	PASS	G	57746974	G	G	57746974	3	3	118	1	0	0	0	0	1	0	0	0	9983	913	32	2	792	2	MUDENG	14	57746974	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	989928	57746974	49602566	266	43064										
C14orf37	145407	broad.mit.edu	37	chr14	58606016	58606016	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggccagacattgtgtggcaaCgctgaaaagcagaaggctac	13	9	0	3	rs147297953	byFrequency	TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr14:58606016C>A	uc001xdc.2	-	2	172	c.61G>T	c.(61-63)GTT>TTT	p.V21F	C14orf37_uc010tro.1_Missense_Mutation_p.V59F|C14orf37_uc001xdd.2_Missense_Mutation_p.V21F|C14orf37_uc001xde.2_Missense_Mutation_p.V21F	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	21						integral to membrane	binding				0						TGTGTGGCAACGCTGAAAAGC	0.473													28	127	---	---	---	---	PASS	A	58606016	A	A	58606016	3	1	118	1	0	0	0	0	1	0	0	0	1771	536	19	1	2291	1	C14orf37	14	58606016	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	859042	58606016	48743524	267	43065										
EIF2S1	1965	broad.mit.edu	37	chr14	67831577	67831577	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agatccattgctgaaatgggGgcttatgtcagcttgctgga	13	7	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr14:67831577G>A	uc001xjg.2	+	2	234	c.93G>A	c.(91-93)GGG>GGA	p.G31G		NM_004094	NP_004085	P05198	IF2A_HUMAN	eukaryotic translation initiation factor 2,	31	S1 motif.					cytosol|eukaryotic translation initiation factor 2 complex|polysome|stress granule	protein binding|ribosome binding|translation initiation factor activity			ovary(1)	1				all cancers(60;0.000683)|OV - Ovarian serous cystadenocarcinoma(108;0.00579)|BRCA - Breast invasive adenocarcinoma(234;0.00937)		CTGAAATGGGGGCTTATGTCA	0.284													31	132	---	---	---	---	PASS	A	67831577	A	A	67831577	2	1	118	1	0	0	0	0	0	0	0	1	5009	1219	43	3		3	EIF2S1	14	67831577	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	9225561	67831577	39517963	268	43066										
COX16	51241	broad.mit.edu	37	chr14	70826258	70826258	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	acatggggactccatagccgAgagtcttgttcttgcgaaaa	11	9	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr14:70826258A>T	uc001xmb.2	-	1	187	c.47T>A	c.(46-48)CTC>CAC	p.L16H		NM_016468	NP_057552	Q9P0S2	COX16_HUMAN	COX16 cytochrome c oxidase assembly homolog	16	Helical; (Potential).					integral to membrane|mitochondrial membrane					0						TCCATAGCCGAGAGTCTTGTT	0.577													10	43	---	---	---	---	PASS	T	70826258	T	T	70826258	3	4	118	1	0	0	0	0	1	0	0	0	3765	304	11	5	289	5	COX16	14	70826258	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	2994681	70826258	36523282	269	43067										
DCAF4	26094	broad.mit.edu	37	chr14	73406560	73406560	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cgattccggccacggtgatgAcgagtctccgtcaacctcgt	11	14	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr14:73406560A>G	uc001xng.2	+	3	363	c.143A>G	c.(142-144)GAC>GGC	p.D48G	DCAF4_uc001xnj.2_Missense_Mutation_p.D48G|DCAF4_uc010ttr.1_Missense_Mutation_p.T37A|DCAF4_uc001xnh.2_5'UTR|DCAF4_uc010tts.1_Missense_Mutation_p.D48G|DCAF4_uc010ttt.1_5'UTR|DCAF4_uc001xni.2_Missense_Mutation_p.D48G|DCAF4_uc001xnk.2_Missense_Mutation_p.D48G	NM_015604	NP_056419	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4 isoform 1	48						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)|skin(1)	3						CACGGTGATGACGAGTCTCCG	0.617													6	16	---	---	---	---	PASS	G	73406560	G	G	73406560	3	3	118	1	0	0	0	0	1	0	0	0	4270	275	10	5	149	5	DCAF4	14	73406560	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	2580302	73406560	33942980	270	43068										
UBR7	55148	broad.mit.edu	37	chr14	93685054	93685054	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cagaacagtgaaccatgtgcCggctctagttctgaatctga	10	10	3	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr14:93685054C>T	uc001ybm.3	+	7	1019	c.783C>T	c.(781-783)GCC>GCT	p.A261A	UBR7_uc001ybn.3_Silent_p.A185A|UBR7_uc010auq.2_Silent_p.A110A	NM_175748	NP_786924	Q8N806	UBR7_HUMAN	ubiquitin protein ligase E3 component n-recognin	261							ubiquitin-protein ligase activity|zinc ion binding				0						AACCATGTGCCGGCTCTAGTT	0.378													18	66	---	---	---	---	PASS	T	93685054	T	T	93685054	2	4	118	1	0	0	0	0	0	0	0	1	16903	639	23	1		1	UBR7	14	93685054	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	20278494	93685054	13664486	271	43069										
C14orf177	283598	broad.mit.edu	37	chr14	99182725	99182725	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gctcaccaaggccaggtgctGtggtaagtatttcccataca	10	11	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr14:99182725G>C	uc001yfz.1	+	3	616	c.197G>C	c.(196-198)TGT>TCT	p.C66S		NM_182560	NP_872366	Q52M58	CN177_HUMAN	hypothetical protein LOC283598	66											0		Melanoma(154;0.128)				GCCAGGTGCTGTGGTAAGTAT	0.473													7	30	---	---	---	---	PASS	C	99182725	C	C	99182725	3	2	118	1	0	0	0	0	1	0	0	0	1760	1377	48	4	199	4	C14orf177	14	99182725	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	5497671	99182725	8166815	272	43070										
ATP10A	57194	broad.mit.edu	37	chr15	25940176	25940176	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agaggcagtggacgtggaggGtgggcagagagaggagaacc	21	5	0	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr15:25940176G>T	uc010ayu.2	-	14	2984	c.2878C>A	c.(2878-2880)CCC>ACC	p.P960T		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	960	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GACGTGGAGGGTGGGCAGAGA	0.587													16	95	---	---	---	---	PASS	T	25940176	T	T	25940176	3	4	118	1	0	0	0	0	1	0	0	0	1116	1261	44	3	1653	3	ATP10A	15	25940176	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08		25940176	76591216	273	43071										
GABRG3	2567	broad.mit.edu	37	chr15	27572065	27572065	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	caacatggtggggttaatctGgatcccagacaccatcttcc	9	12	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr15:27572065G>C	uc001zbg.1	+	4	546	c.380G>C	c.(379-381)TGG>TCG	p.W127S	GABRG3_uc001zbf.2_Missense_Mutation_p.W127S	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	127	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		GGGTTAATCTGGATCCCAGAC	0.458													16	128	---	---	---	---	PASS	C	27572065	C	C	27572065	3	2	118	1	0	0	0	0	1	0	0	0	6173	1357	47	4	394	4	GABRG3	15	27572065	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	1631889	27572065	74959327	274	43072										
RYR3	6263	broad.mit.edu	37	chr15	33990158	33990158	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggcatgcacgagacggtgatGgaggtgatggtgaacgtgtt	18	5	0	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr15:33990158G>T	uc001zhi.2	+	40	6280	c.6210G>T	c.(6208-6210)ATG>ATT	p.M2070I	RYR3_uc010bar.2_Missense_Mutation_p.M2070I	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2070	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AGACGGTGATGGAGGTGATGG	0.488													17	140	---	---	---	---	PASS	T	33990158	T	T	33990158	3	4	118	1	0	0	0	0	1	0	0	0	13770	1348	47	3	6368	3	RYR3	15	33990158	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	6418093	33990158	68541234	275	43073										
RYR3	6263	broad.mit.edu	37	chr15	34015032	34015032	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggctcttggcagccatgcagGgtgccattaagatctctgag	13	10	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr15:34015032G>T	uc001zhi.2	+	44	6806	c.6736G>T	c.(6736-6738)GGT>TGT	p.G2246C	RYR3_uc010bar.2_Missense_Mutation_p.G2246C	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2246	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AGCCATGCAGGGTGCCATTAA	0.582													28	104	---	---	---	---	PASS	T	34015032	T	T	34015032	3	4	118	1	0	0	0	0	1	0	0	0	13770	1232	43	3	6910	3	RYR3	15	34015032	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	24874	34015032	68516360	276	43074										
MGA	23269	broad.mit.edu	37	chr15	42057152	42057152	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgactccgcaagggcaattgCtcaccctaaaaggtccccta	8	14	1	1	rs143075460	by1000genomes	TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr15:42057152C>T	uc010ucy.1	+	23	7994	c.7813C>T	c.(7813-7815)CTC>TTC	p.L2605F	MGA_uc010ucz.1_Missense_Mutation_p.L2396F	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	2566						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		AGGGCAATTGCTCACCCTAAA	0.458													30	108	---	---	---	---	PASS	T	42057152	T	T	42057152	3	4	118	1	0	0	0	0	1	0	0	0	9540	797	28	3	7899	3	MGA	15	42057152	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	8042120	42057152	60474240	277	43075										
UBR1	197131	broad.mit.edu	37	chr15	43281054	43281054	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aaagcgcaggtgctccaggtCagcatggggactcgaggatc	15	10	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr15:43281054C>A	uc001zqq.2	-	35	4026	c.3960G>T	c.(3958-3960)CTG>CTT	p.L1320L		NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	1320					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)		TGCTCCAGGTCAGCATGGGGA	0.413													41	112	---	---	---	---	PASS	A	43281054	A	A	43281054	2	1	118	1	0	0	0	0	0	0	0	1	16898	813	29	2		2	UBR1	15	43281054	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	1223902	43281054	59250338	278	43076										
PRTG	283659	broad.mit.edu	37	chr15	55972345	55972345	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tccagcatgttgtagcctgaCatcagatatcatgagattac	8	9	2	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr15:55972345C>T	uc002adg.2	-	6	928	c.880G>A	c.(880-882)GTC>ATC	p.V294I		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	294	Ig-like 3.				multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		TGTAGCCTGACATCAGATATC	0.383													14	35	---	---	---	---	PASS	T	55972345	T	T	55972345	3	4	118	1	0	0	0	0	1	0	0	0	12638	478	17	3	2632	3	PRTG	15	55972345	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	12691291	55972345	46559047	279	43077										
PLEKHO2	80301	broad.mit.edu	37	chr15	65153739	65153739	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	accgggtgcgagggggccagCgacgccggccaccaacgaga	17	14	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr15:65153739C>T	uc002anv.2	+	5	582	c.448C>T	c.(448-450)CGA>TGA	p.R150*	PLEKHO2_uc010bgz.2_Intron|PLEKHO2_uc002anw.2_Nonsense_Mutation_p.R100*	NM_025201	NP_079477	Q8TD55	PKHO2_HUMAN	pleckstrin homology domain containing, family O	150										ovary(1)|lung(1)	2						AGGGGGCCAGCGACGCCGGCC	0.647													5	38	---	---	---	---	PASS	T	65153739	T	T	65153739	4	4	118	1	0	0	0	0	0	1	0	0	12085	760	27	1	466	1	PLEKHO2	15	65153739	Nonsense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	9181394	65153739	37377653	280	43078										
LINGO1	84894	broad.mit.edu	37	chr15	77908027	77908027	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttcttgcctaggtccagcagGcgcgtctcggtggggatgcc	15	12	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr15:77908027G>C	uc002bct.1	-	2	274	c.222C>G	c.(220-222)CGC>CGG	p.R74R	LINGO1_uc002bcu.1_Silent_p.R68R	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	74	Extracellular (Potential).|LRR 1.				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						GGTCCAGCAGGCGCGTCTCGG	0.662													4	12	---	---	---	---	PASS	C	77908027	C	C	77908027	2	2	118	1	0	0	0	0	0	0	0	1	8814	1190	42	4		4	LINGO1	15	77908027	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	12754288	77908027	24623365	281	43079										
MEFV	4210	broad.mit.edu	37	chr16	3293469	3293469	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgttccctttcctgcttatgGatgtcttgcaggctcccagg	10	12	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:3293469G>T	uc002cun.1	-	10	2058	c.2018C>A	c.(2017-2019)TCC>TAC	p.S673Y		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	673	B30.2/SPRY.				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)	CCTGCTTATGGATGTCTTGCA	0.542													28	105	---	---	---	---	PASS	T	3293469	T	T	3293469	3	4	118	1	0	0	0	0	1	0	0	0	9459	1174	41	2	331	2	MEFV	16	3293469	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08		3293469	87061284	282	43080										
TMC5	79838	broad.mit.edu	37	chr16	19451423	19451423	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gattaccctgactattcaggGtctcagaaccgtacgcaggg	11	11	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:19451423G>C	uc002dgc.3	+	3	812	c.63G>C	c.(61-63)GGG>GGC	p.G21G	TMC5_uc010vaq.1_Silent_p.G21G|TMC5_uc002dgb.3_Silent_p.G21G|TMC5_uc010var.1_Silent_p.G21G	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	21	Extracellular (Potential).					integral to membrane				skin(1)	1						ACTATTCAGGGTCTCAGAACC	0.493													17	112	---	---	---	---	PASS	C	19451423	C	C	19451423	2	2	118	1	0	0	0	0	0	0	0	1	15985	1248	44	4		4	TMC5	16	19451423	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	16157954	19451423	70903330	283	43081										
ZP2	7783	broad.mit.edu	37	chr16	21215489	21215489	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttaagcttcccaggaaactcTggtatggtgagagtcatgtg	12	7	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:21215489T>C	uc002dii.2	-	9	834	c.834A>G	c.(832-834)CCA>CCG	p.P278P	ZP2_uc010bwn.1_Silent_p.P317P|ZP2_uc010bwo.2_Silent_p.P317P	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	278	Extracellular (Potential).				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		CAGGAAACTCTGGTATGGTGA	0.443													22	70	---	---	---	---	PASS	C	21215489	C	C	21215489	2	2	118	1	0	0	0	0	0	0	0	1	18213	1567	55	5		5	ZP2	16	21215489	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	1764066	21215489	69139264	284	43082										
SEZ6L2	26470	broad.mit.edu	37	chr16	29888632	29888632	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccctggcccaggcctggattTgggggcccgggcggtgcctg	18	14	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:29888632T>A	uc002duq.3	-	11	2109	c.1869A>T	c.(1867-1869)CCA>CCT	p.P623P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Silent_p.P553P|SEZ6L2_uc002dur.3_Silent_p.P553P|SEZ6L2_uc002dus.3_Silent_p.P509P|SEZ6L2_uc010vec.1_Silent_p.P623P|SEZ6L2_uc010ved.1_Silent_p.P579P	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	623	CUB 3.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						GGCCTGGATTTGGGGGCCCGG	0.682													4	37	---	---	---	---	PASS	A	29888632	A	A	29888632	2	1	118	1	0	0	0	0	0	0	0	1	14144	1799	63	5		5	SEZ6L2	16	29888632	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	8673143	29888632	60466121	285	43083										
TAOK2	9344	broad.mit.edu	37	chr16	29997089	29997089	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gaggaagcagggctgctgcgGcggcagcgccagtactttga	17	10	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:29997089G>T	uc002dva.1	+	15	2682	c.1899G>T	c.(1897-1899)CGG>CGT	p.R633R	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Silent_p.R633R|TAOK2_uc002dvc.1_Silent_p.R633R|TAOK2_uc010bzm.1_Silent_p.R640R|TAOK2_uc002dvd.1_Silent_p.R460R	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	633					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						GGCTGCTGCGGCGGCAGCGCC	0.657													3	14	---	---	---	---	PASS	T	29997089	T	T	29997089	2	4	118	1	0	0	0	0	0	0	0	1	15545	1190	42	3		3	TAOK2	16	29997089	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	108457	29997089	60357664	286	43084										
BCL7C	9274	broad.mit.edu	37	chr16	30899246	30899246	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggggcaccctccgagtcctcTgtgtcaccctgggctgcctc	12	17	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:30899246T>A	uc002dzv.2	-	6	728	c.594A>T	c.(592-594)ACA>ACT	p.T198T	BCL7C_uc002dzt.1_Intron|uc002dzu.2_Intron	NM_004765	NP_004756	Q8WUZ0	BCL7C_HUMAN	B-cell CLL/lymphoma 7C	198	Pro-rich.				apoptosis						0			Colorectal(24;0.198)			CCGAGTCCTCTGTGTCACCCT	0.657													30	178	---	---	---	---	PASS	A	30899246	A	A	30899246	2	1	118	1	0	0	0	0	0	0	0	1	1380	1567	55	5		5	BCL7C	16	30899246	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	902157	30899246	59455507	287	43085										
TRIM72	493829	broad.mit.edu	37	chr16	31230814	31230814	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aggtcctggaggaggtggcgGacaagccgcagactgagttc	17	9	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:31230814G>C	uc002ebn.1	+	4	920	c.691G>C	c.(691-693)GAC>CAC	p.D231H	PYDC1_uc002ebo.2_5'Flank	NM_001008274	NP_001008275	Q6ZMU5	TRI72_HUMAN	tripartite motif-containing 72	231					exocytosis|muscle organ development|muscle system process|plasma membrane repair|protein homooligomerization	cytoplasmic vesicle membrane|sarcolemma	phosphatidylserine binding|zinc ion binding				0						GGAGGTGGCGGACAAGCCGCA	0.652													8	27	---	---	---	---	PASS	C	31230814	C	C	31230814	3	2	118	1	0	0	0	0	1	0	0	0	16542	1174	41	2	701	2	TRIM72	16	31230814	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	331568	31230814	59123939	288	43086										
SLC6A2	6530	broad.mit.edu	37	chr16	55734196	55734196	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cgtcatctataagttcctcaGcacgcagggctctctttggg	10	12	4	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:55734196G>T	uc002eif.2	+	13	1847	c.1736G>T	c.(1735-1737)AGC>ATC	p.S579I	SLC6A2_uc010ccd.2_Intron|SLC6A2_uc002eig.2_Missense_Mutation_p.S579I|SLC6A2_uc002eih.2_Missense_Mutation_p.S579I|SLC6A2_uc002eii.2_Missense_Mutation_p.S474I|SLC6A2_uc002eij.2_Missense_Mutation_p.S293I	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	579	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	AAGTTCCTCAGCACGCAGGGC	0.627													15	61	---	---	---	---	PASS	T	55734196	T	T	55734196	3	4	118	1	0	0	0	0	1	0	0	0	14683	971	34	3	1873	3	SLC6A2	16	55734196	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	24503382	55734196	34620557	289	43087										
CDH16	1014	broad.mit.edu	37	chr16	66944196	66944196	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gaggcgccaatcccgttgcaCcgtggggttgggaccaaggg	17	11	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:66944196C>A	uc002eql.2	-	15	2207	c.2134G>T	c.(2134-2136)GTG>TTG	p.V712L	CDH16_uc010cdy.2_Missense_Mutation_p.V690L|CDH16_uc002eqm.2_Missense_Mutation_p.V615L	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	712	Extracellular (Potential).|Ectodomain G.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		TCCCGTTGCACCGTGGGGTTG	0.627													24	54	---	---	---	---	PASS	A	66944196	A	A	66944196	3	1	118	1	0	0	0	0	1	0	0	0	3101	507	18	3	371	3	CDH16	16	66944196	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	11210000	66944196	23410557	290	43088										
DUS2L	54920	broad.mit.edu	37	chr16	68087518	68087518	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgatgatcgagttgtcttccGcacctgtgaaagagagcaga	12	8	1	5			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:68087518G>A	uc002evi.2	+	5	373	c.224G>A	c.(223-225)CGC>CAC	p.R75H	DUS2L_uc002evj.2_Missense_Mutation_p.R75H|DUS2L_uc010vkk.1_Missense_Mutation_p.R75H|DUS2L_uc010cez.2_5'UTR	NM_017803	NP_060273	Q9NX74	DUS2L_HUMAN	dihydrouridine synthase 2-like, SMM1 homolog	75					tRNA processing	endoplasmic reticulum	double-stranded RNA binding|flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0131)|Epithelial(162;0.0564)		GTTGTCTTCCGCACCTGTGAA	0.527													13	71	---	---	---	---	PASS	A	68087518	A	A	68087518	3	1	118	1	0	0	0	0	1	0	0	0	4806	1087	38	1	234	1	DUS2L	16	68087518	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	1143322	68087518	22267235	291	43089										
COG4	25839	broad.mit.edu	37	chr16	70531872	70531872	+	Nonsense_Mutation	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctccctcatgaagtactcctCcatggtaacatataagccaa							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:70531872C>A	uc002ezc.2	-	10	1293	c.1282G>T	c.(1282-1284)GAG>TAG	p.E428*	COG4_uc002ezb.2_5'UTR|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Nonsense_Mutation_p.E428*|COG4_uc002eze.2_Nonsense_Mutation_p.E122*	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	424					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)				AAGTACTCCTCCATGGTAACA	0.498													25	177	---	---	---	---	PASS	A	70531872	A	A	70531872	4	1	118	1	0	0	0	0	0	1	0	0	3660	864	30	2	1127	2	COG4	16	70531872	Nonsense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	2444354	70531872	19822881	292	43090	810	2								
COG4	25839	broad.mit.edu	37	chr16	70531873	70531873	+	Missense_Mutation	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tccctcatgaagtactcctcCatggtaacatataagccaat							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:70531873C>A	uc002ezc.2	-	10	1292	c.1281G>T	c.(1279-1281)ATG>ATT	p.M427I	COG4_uc002ezb.2_5'UTR|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Missense_Mutation_p.M427I|COG4_uc002eze.2_Missense_Mutation_p.M121I	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	423					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)				AGTACTCCTCCATGGTAACAT	0.493													24	176	---	---	---	---	PASS	A	70531873	A	A	70531873	3	1	118	1	0	0	0	0	1	0	0	0	3660	594	21	3	1128	3	COG4	16	70531873	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1	70531873	19822880	293	43091	810	2								
SLC38A8	146167	broad.mit.edu	37	chr16	84050258	84050258	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gcggcatccggacccacagcCctgaggggtcggccagggcg	17	15	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr16:84050258C>A	uc002fhg.1	-	8	1028	c.1028G>T	c.(1027-1029)GGG>GTG	p.G343V		NM_001080442	NP_001073911	A6NNN8	S38A8_HUMAN	solute carrier family 38, member 8	343					amino acid transport|sodium ion transport	integral to membrane					0						GACCCACAGCCCTGAGGGGTC	0.647													13	58	---	---	---	---	PASS	A	84050258	A	A	84050258	3	1	118	1	0	0	0	0	1	0	0	0	14610	623	22	3	291	3	SLC38A8	16	84050258	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	13518385	84050258	6304495	294	43092										
TP53	7157	broad.mit.edu	37	chr17	7578395	7578395	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gctatctgagcagcgctcatGgtgggggcagcgcctcacaa	14	12	3	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:7578395G>A	uc002gim.2	-	5	729	c.535C>T	c.(535-537)CAT>TAT	p.H179Y	TP53_uc002gig.1_Missense_Mutation_p.H179Y|TP53_uc002gih.2_Missense_Mutation_p.H179Y|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H47Y|TP53_uc010cng.1_Missense_Mutation_p.H47Y|TP53_uc002gii.1_Missense_Mutation_p.H47Y|TP53_uc010cnh.1_Missense_Mutation_p.H179Y|TP53_uc010cni.1_Missense_Mutation_p.H179Y|TP53_uc002gij.2_Missense_Mutation_p.H179Y|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.H86Y|TP53_uc002gio.2_Missense_Mutation_p.H47Y|TP53_uc010vug.1_Missense_Mutation_p.H140Y	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	179	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	H -> Q (in sporadic cancers; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|HH -> QS (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> D (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> Y (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H179R(99)|p.H179Y(74)|p.H179L(31)|p.H179Q(17)|p.H179N(13)|p.H179D(10)|p.P177_C182delPHHERC(8)|p.0?(7)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.H179P(3)|p.R175_E180delRCPHHE(3)|p.H179fs*68(2)|p.H179H(2)|p.P177fs*3(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.K164_P219del(1)|p.C176fs*65(1)|p.C176fs*68(1)|p.P177_H179delPHH(1)|p.V173fs*23(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.H179del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.H178fs*6(1)|p.P177_E180delPHHE(1)|p.R42fs*24(1)|p.R174fs*3(1)|p.H178_H179>QY(1)|p.E171fs*61(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CAGCGCTCATGGTGGGGGCAG	0.642		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			24	39	---	---	---	---	PASS	A	7578395	A	A	7578395	3	1	118	1	0	0	0	0	1	0	0	0	16378	1348	47	3	763	3	TP53	17	7578395	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08		7578395	73616815	295	43093										
MYH2	4620	broad.mit.edu	37	chr17	10428931	10428931	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttctgtttccattctgccagGatctgaaaaaccaagacctg	7	11	3	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:10428931G>T	uc010coi.2	-	32	4502	c.4374C>A	c.(4372-4374)ATC>ATA	p.I1458I	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.I1458I|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1458	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						ATTCTGCCAGGATCTGAAAAA	0.463													21	38	---	---	---	---	PASS	T	10428931	T	T	10428931	2	4	118	1	0	0	0	0	0	0	0	1	10035	1164	41	2		2	MYH2	17	10428931	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	2850536	10428931	70766279	296	43094										
MYH2	4620	broad.mit.edu	37	chr17	10438500	10438500	+	Missense_Mutation	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tggaggacaagctcatgctcCatggcacctaaaaatgcata							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:10438500C>A	uc010coi.2	-	19	2198	c.2070G>T	c.(2068-2070)ATG>ATT	p.M690I	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.M690I|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	690	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GCTCATGCTCCATGGCACCTA	0.458													19	42	---	---	---	---	PASS	A	10438500	A	A	10438500	3	1	118	1	0	0	0	0	1	0	0	0	10035	594	21	3	3843	3	MYH2	17	10438500	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	9569	10438500	70756710	297	43095	811	2								
MYH2	4620	broad.mit.edu	37	chr17	10438501	10438501	+	Missense_Mutation	SNP	A	T	T													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggaggacaagctcatgctccAtggcacctaaaaatgcatat							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:10438501A>T	uc010coi.2	-	19	2197	c.2069T>A	c.(2068-2070)ATG>AAG	p.M690K	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.M690K|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	690	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTCATGCTCCATGGCACCTAA	0.458													18	41	---	---	---	---	PASS	T	10438501	T	T	10438501	3	4	118	1	0	0	0	0	1	0	0	0	10035	217	8	5	3844	5	MYH2	17	10438501	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	1	10438501	70756709	298	43096	811	2								
KCNJ12	3768	broad.mit.edu	37	chr17	21318931	21318931	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tcttctcgctggccttccttGcctcctggctgctgttcggc	10	16	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:21318931G>T	uc002gyv.1	+	3	982	c.277G>T	c.(277-279)GCC>TCC	p.A93S		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	93	Helical; Name=M1; (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GGCCTTCCTTGCCTCCTGGCT	0.622										Prostate(3;0.18)			4	62	---	---	---	---	PASS	T	21318931	T	T	21318931	3	4	118	1	0	0	0	0	1	0	0	0	8046	1319	46	3	279	3	KCNJ12	17	21318931	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	10880430	21318931	59876279	299	43097										
UTP6	55813	broad.mit.edu	37	chr17	30214305	30214305	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cttctccttcctcagtttttCagcatgcatcagctccatcc	4	16	4	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:30214305C>A	uc002hgr.2	-	8	654	c.571G>T	c.(571-573)GAA>TAA	p.E191*	UTP6_uc002hgq.2_Nonsense_Mutation_p.E7*|UTP6_uc010cst.2_Nonsense_Mutation_p.E40*|UTP6_uc010wbw.1_Nonsense_Mutation_p.E191*	NM_018428	NP_060898	Q9NYH9	UTP6_HUMAN	hepatocellular carcinoma-associated antigen 66	191					rRNA processing	nucleolus	binding			ovary(1)	1		all_hematologic(16;0.0149)|Ovarian(249;0.021)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|Breast(31;0.231)				CTCAGTTTTTCAGCATGCATC	0.289													3	47	---	---	---	---	PASS	A	30214305	A	A	30214305	4	1	118	1	0	0	0	0	0	1	0	0	17099	835	29	2	1270	2	UTP6	17	30214305	Nonsense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	8895374	30214305	50980905	300	43098										
AMAC1	146861	broad.mit.edu	37	chr17	33520925	33520925	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cagacggtggaagaacctttGcgaacagtggcagcgttgcc	14	10	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:33520925G>A	uc002hjd.2	-	1	488	c.402C>T	c.(400-402)CGC>CGT	p.R134R		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	134	DUF6 1.					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		AAGAACCTTTGCGAACAGTGG	0.602													64	131	---	---	---	---	PASS	A	33520925	A	A	33520925	2	1	118	1	0	0	0	0	0	0	0	1	559	1306	46	3		3	AMAC1	17	33520925	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	3306620	33520925	47674285	301	43099										
SYNRG	11276	broad.mit.edu	37	chr17	35921351	35921351	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tctgaaagcactatatttatCaccaggatctatgatagaaa	6	7	3	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:35921351C>A	uc002hoa.2	-	13	1692	c.1609G>T	c.(1609-1611)GAT>TAT	p.D537Y	SYNRG_uc010wde.1_Missense_Mutation_p.D459Y|SYNRG_uc010wdf.1_Missense_Mutation_p.D459Y|SYNRG_uc002hoc.2_Missense_Mutation_p.D458Y|SYNRG_uc002hoe.2_Missense_Mutation_p.D459Y|SYNRG_uc002hod.2_Missense_Mutation_p.D459Y|SYNRG_uc010wdg.1_Missense_Mutation_p.D376Y|SYNRG_uc002hob.2_Missense_Mutation_p.D537Y|SYNRG_uc002hof.2_Missense_Mutation_p.D249Y|SYNRG_uc010cvd.1_Missense_Mutation_p.D337Y	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	537	Interaction with A1P1G1 and A1P1G2.				endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						CTATATTTATCACCAGGATCT	0.353													21	53	---	---	---	---	PASS	A	35921351	A	A	35921351	3	1	118	1	0	0	0	0	1	0	0	0	15457	826	29	2	2448	2	SYNRG	17	35921351	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	2400426	35921351	45273859	302	43100										
KRT17	3872	broad.mit.edu	37	chr17	39775851	39775851	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggggtagctgagtcctcagcGggtggtctggtggacctgct	18	9	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:39775851G>A	uc002hxh.2	-	8	1415	c.1294C>T	c.(1294-1296)CGC>TGC	p.R432C	JUP_uc010wfs.1_Intron	NM_000422	NP_000413	Q04695	K1C17_HUMAN	keratin 17	432	Tail.				epidermis development	cytoplasm|intermediate filament	protein binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2		Breast(137;0.000307)				AGTCCTCAGCGGGTGGTCTGG	0.677									Steatocystoma_Multiplex				16	139	---	---	---	---	PASS	A	39775851	A	A	39775851	3	1	118	1	0	0	0	0	1	0	0	0	8454	1116	39	1	8	1	KRT17	17	39775851	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	3854500	39775851	41419359	303	43101										
MRC2	9902	broad.mit.edu	37	chr17	60743550	60743550	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	acggctgcaccagcacgggcCgcgaggatggtcacctgtgg	16	13	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:60743550C>T	uc002jad.2	+	3	1018	c.616C>T	c.(616-618)CGC>TGC	p.R206C	MRC2_uc002jac.2_Missense_Mutation_p.R206C	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	206	Extracellular (Potential).|Fibronectin type-II.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CAGCACGGGCCGCGAGGATGG	0.607													7	9	---	---	---	---	PASS	T	60743550	T	T	60743550	3	4	118	1	0	0	0	0	1	0	0	0	9758	652	23	1	626	1	MRC2	17	60743550	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	20967699	60743550	20451660	304	43102										
KIF19	124602	broad.mit.edu	37	chr17	72346634	72346634	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttccaggagcagatggatgtGcggaggcgcctgctggagct	17	9	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:72346634G>T	uc002jkm.3	+	11	1446	c.1308G>T	c.(1306-1308)GTG>GTT	p.V436V	KIF19_uc002jkj.2_Silent_p.V436V|KIF19_uc002jkk.2_Silent_p.V394V|KIF19_uc002jkl.2_Silent_p.V394V	NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	436	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						AGATGGATGTGCGGAGGCGCC	0.672													13	15	---	---	---	---	PASS	T	72346634	T	T	72346634	2	4	118	1	0	0	0	0	0	0	0	1	8282	1306	46	3		3	KIF19	17	72346634	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	11603084	72346634	8848576	305	43103										
BTBD17	388419	broad.mit.edu	37	chr17	72356212	72356212	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agctcactgtgcagtcccagCagcaggcggtgggcgtggaa	16	11	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:72356212C>T	uc002jkn.2	-	2	258	c.258G>A	c.(256-258)CTG>CTA	p.L86L		NM_001080466	NP_001073935	A6NE02	BTBDH_HUMAN	BTB (POZ) domain containing 17 precursor	86	BTB.					extracellular region					0						GCAGTCCCAGCAGCAGGCGGT	0.647													11	51	---	---	---	---	PASS	T	72356212	T	T	72356212	2	4	118	1	0	0	0	0	0	0	0	1	1542	697	25	3		3	BTBD17	17	72356212	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	9578	72356212	8838998	306	43104										
UBE2O	63893	broad.mit.edu	37	chr17	74448907	74448907	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggccctcctcgtggcccgcgCccccggcctcggagcacccc	12	23	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:74448907C>A	uc002jrm.3	-	1	382	c.317G>T	c.(316-318)GGC>GTC	p.G106V	UBE2O_uc002jrn.3_Missense_Mutation_p.G106V	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	106							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						GTGGCCCGCGCCCCCGGCCTC	0.741													3	4	---	---	---	---	PASS	A	74448907	A	A	74448907	3	1	118	1	0	0	0	0	1	0	0	0	16865	739	26	3	3633	3	UBE2O	17	74448907	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	2092695	74448907	6746303	307	43105										
CYTH1	9267	broad.mit.edu	37	chr17	76694409	76694409	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aaagtgtgagtgaggtcattCccgtcgtcttctgggatttt	12	7	3	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:76694409C>A	uc002jvw.2	-	9	824	c.753G>T	c.(751-753)GGG>GGT	p.G251G	CYTH1_uc010wtw.1_Silent_p.G192G|CYTH1_uc010wtx.1_Silent_p.G192G	NM_017456	NP_059430	Q15438	CYH1_HUMAN	cytohesin 1 isoform 2	251					regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						TGAGGTCATTCCCGTCGTCTT	0.413													56	116	---	---	---	---	PASS	A	76694409	A	A	76694409	2	1	118	1	0	0	0	0	0	0	0	1	4203	842	30	2		2	CYTH1	17	76694409	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	2245502	76694409	4500801	308	43106										
FASN	2194	broad.mit.edu	37	chr17	80037473	80037473	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aggcccttcagcggcagcagCgcctccagcacctgtggggt	14	15	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr17:80037473C>T	uc002kdu.2	-	42	7275	c.7158G>A	c.(7156-7158)GCG>GCA	p.A2386A	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2386	Thioesterase (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)	GCGGCAGCAGCGCCTCCAGCA	0.647													13	25	---	---	---	---	PASS	T	80037473	T	T	80037473	2	4	118	1	0	0	0	0	0	0	0	1	5683	755	27	1		1	FASN	17	80037473	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	3343064	80037473	1157737	309	43107										
DSG1	1828	broad.mit.edu	37	chr18	28934436	28934436	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cctaaatttaagaagttggcAgacatcagcctaggaaaaga	9	7	1	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr18:28934436A>T	uc002kwp.2	+	15	2489	c.2277A>T	c.(2275-2277)GCA>GCT	p.A759A	DSG1_uc010xbp.1_Silent_p.A118A	NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	759	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			AGAAGTTGGCAGACATCAGCC	0.488													29	165	---	---	---	---	PASS	T	28934436	T	T	28934436	2	4	118	1	0	0	0	0	0	0	0	1	4776	175	7	5		5	DSG1	18	28934436	Silent	SNP	A	TCGA-56-6546-01A-11D-1817-08		28934436	49142812	310	43108										
DSG4	147409	broad.mit.edu	37	chr18	28980857	28980857	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aaaacagatatatcatagggCatgatgcaggcagctggtta	11	6	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr18:28980857C>T	uc002kwq.2	+	10	1426	c.1291C>T	c.(1291-1293)CAT>TAT	p.H431Y	DSG4_uc002kwr.2_Missense_Mutation_p.H431Y	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	431	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TATCATAGGGCATGATGCAGG	0.289													13	84	---	---	---	---	PASS	T	28980857	T	T	28980857	3	4	118	1	0	0	0	0	1	0	0	0	4779	710	25	3	1329	3	DSG4	18	28980857	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	46421	28980857	49096391	311	43109										
ASXL3	80816	broad.mit.edu	37	chr18	31226214	31226214	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttcaaaataatacagaaagaGgagtcgtcatgcccagcaga	9	8	2	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr18:31226214G>A	uc010dmg.1	+	4	307	c.252G>A	c.(250-252)GAG>GAA	p.E84E	ASXL3_uc002kxq.2_5'UTR	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	84					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TACAGAAAGAGGAGTCGTCAT	0.383													24	76	---	---	---	---	PASS	A	31226214	A	A	31226214	2	1	118	1	0	0	0	0	0	0	0	1	1068	991	35	3		3	ASXL3	18	31226214	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	2245357	31226214	46851034	312	43110										
KATNAL2	83473	broad.mit.edu	37	chr18	44580782	44580782	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cacagcagaaaataatttacCgcaaagaagtagagggaaga	10	6	0	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr18:44580782C>T	uc002lco.2	+	3	283	c.89C>T	c.(88-90)CCG>CTG	p.P30L	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lcp.3_Intron	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2	102						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						AATAATTTACCGCAAAGAAGT	0.388													56	213	---	---	---	---	PASS	T	44580782	T	T	44580782	3	4	118	1	0	0	0	0	1	0	0	0	7986	652	23	1	95	1	KATNAL2	18	44580782	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	13354568	44580782	33496466	313	43111										
HMSD	284293	broad.mit.edu	37	chr18	61627505	61627505	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tcctgggttgctgataaaacTaaaggtgaaaatatattgtt	9	4	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr18:61627505T>C	uc010dqj.2	+	4	485	c.336T>C	c.(334-336)ACT>ACC	p.T112T	SERPINB8_uc002ljs.1_5'UTR	NM_001123366	NP_001116838	A8MTL9	HMSD_HUMAN	histocompatibility (minor) serpin domain	112						extracellular region	serine-type endopeptidase inhibitor activity				0						CTGATAAAACTAAAGGTGAAA	0.318													8	31	---	---	---	---	PASS	C	61627505	C	C	61627505	2	2	118	1	0	0	0	0	0	0	0	1	7246	1509	53	5		5	HMSD	18	61627505	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	17046723	61627505	16449743	314	43112										
CBLN2	147381	broad.mit.edu	37	chr18	70205524	70205524	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cctttccatgagcagcagcaCgccattgctagcagcttctc	8	15	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr18:70205524C>A	uc002lku.2	-	4	797	c.562G>T	c.(562-564)GTG>TTG	p.V188L	CBLN2_uc002lkv.2_Missense_Mutation_p.V188L	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	188	C1q.					integral to membrane					0		Esophageal squamous(42;0.131)				AGCAGCAGCACGCCATTGCTA	0.507													37	119	---	---	---	---	PASS	A	70205524	A	A	70205524	3	1	118	1	0	0	0	0	1	0	0	0	2705	536	19	1	116	1	CBLN2	18	70205524	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	8578019	70205524	7871724	315	43113										
SALL3	27164	broad.mit.edu	37	chr18	76754091	76754091	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctgaagatgcactaccggacGcacacgggggagcggccgtt	15	12	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr18:76754091G>T	uc002lmt.2	+	2	2100	c.2100G>T	c.(2098-2100)ACG>ACT	p.T700T	SALL3_uc010dra.2_Silent_p.T307T	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	700	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		ACTACCGGACGCACACGGGGG	0.632													5	38	---	---	---	---	PASS	T	76754091	T	T	76754091	2	4	118	1	0	0	0	0	0	0	0	1	13812	1074	38	1		1	SALL3	18	76754091	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	6548567	76754091	1323157	316	43114										
REXO1	57455	broad.mit.edu	37	chr19	1820350	1820350	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cgctggcggatgacggtgggGactttgcccccaaactcttt	13	12	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:1820350G>A	uc002lua.3	-	6	2534	c.2439C>T	c.(2437-2439)GTC>GTT	p.V813V	REXO1_uc010dsq.2_Silent_p.V122V|REXO1_uc010xgs.1_5'UTR|REXO1_uc010dsp.1_5'Flank|uc002lub.1_5'Flank	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3	813						nucleus	exonuclease activity|nucleic acid binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGACGGTGGGGACTTTGCCCC	0.552													34	82	---	---	---	---	PASS	A	1820350	A	A	1820350	2	1	118	1	0	0	0	0	0	0	0	1	13241	1161	41	2		2	REXO1	19	1820350	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08		1820350	57308633	317	43115										
MATK	4145	broad.mit.edu	37	chr19	3778348	3778348	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gctgctcatgaggacgtgcaCggggcctggacagccctcgg	16	13	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:3778348C>G	uc002lyt.2	-	14	1757	c.1357G>C	c.(1357-1359)GTG>CTG	p.V453L	MATK_uc002lyv.2_Missense_Mutation_p.V454L|MATK_uc002lyu.2_Missense_Mutation_p.V412L|MATK_uc010dtq.2_Missense_Mutation_p.V452L	NM_139355	NP_647612	P42679	MATK_HUMAN	megakaryocyte-associated tyrosine kinase isoform	453	Protein kinase.				cell proliferation|mesoderm development|positive regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(2)|ovary(1)|lung(1)|large_intestine(1)	5		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGACGTGCACGGGGCCTGGA	0.697													9	47	---	---	---	---	PASS	G	3778348	G	G	3778348	3	3	118	1	0	0	0	0	1	0	0	0	9332	536	19	4	170	4	MATK	19	3778348	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	1957998	3778348	55350635	318	43116										
MUC16	94025	broad.mit.edu	37	chr19	9065628	9065628	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tggagatctcagtagtagcaCcaatggacacttcagaaagg	11	8	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:9065628C>G	uc002mkp.2	-	3	22022	c.21818G>C	c.(21817-21819)GGT>GCT	p.G7273A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7275	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGTAGTAGCACCAATGGACAC	0.488													36	102	---	---	---	---	PASS	G	9065628	G	G	9065628	3	3	118	1	0	0	0	0	1	0	0	0	9973	507	18	4	22033	4	MUC16	19	9065628	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	5287280	9065628	50063355	319	43117										
ZNF563	147837	broad.mit.edu	37	chr19	12433494	12433494	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cccattcctcctgggtgaagTtcacagccacatcctcaaag	7	15	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:12433494T>C	uc002mtp.2	-	2	273	c.35A>G	c.(34-36)AAC>AGC	p.N12S	ZNF563_uc002mtq.2_Missense_Mutation_p.N12S	NM_145276	NP_660319	Q8TA94	ZN563_HUMAN	zinc finger protein 563	12	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTGGGTGAAGTTCACAGCCAC	0.438													4	103	---	---	---	---	PASS	C	12433494	C	C	12433494	3	2	118	1	0	0	0	0	1	0	0	0	17991	1725	60	5	1407	5	ZNF563	19	12433494	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	3367866	12433494	46695489	320	43118										
SYCE2	256126	broad.mit.edu	37	chr19	13029085	13029085	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gcagttctcttcccaccgcgGatgctccttgctctccccca	7	19	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:13029085G>T	uc002mvr.2	-	2	97	c.82C>A	c.(82-84)CCG>ACG	p.P28T		NM_001105578	NP_001099048	Q6PIF2	SYCE2_HUMAN	synaptonemal complex central element protein 2	28					cell division	central element					0						TCCCACCGCGGATGCTCCTTG	0.627													25	58	---	---	---	---	PASS	T	13029085	T	T	13029085	3	4	118	1	0	0	0	0	1	0	0	0	15426	1174	41	2	594	2	SYCE2	19	13029085	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	595591	13029085	46099898	321	43119										
ARMC6	93436	broad.mit.edu	37	chr19	19162527	19162527	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	accagtgcaaacaggacaagGcctgccgcttcctcgcggcc	11	16	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:19162527G>T	uc002nld.2	+	5	724	c.376G>T	c.(376-378)GCC>TCC	p.A126S	ARMC6_uc002nlc.2_Missense_Mutation_p.A101S|ARMC6_uc010xql.1_Missense_Mutation_p.A33S|ARMC6_uc002nle.2_Missense_Mutation_p.A101S|ARMC6_uc010xqm.1_Missense_Mutation_p.A126S	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	126							protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)			ACAGGACAAGGCCTGCCGCTT	0.637													26	69	---	---	---	---	PASS	T	19162527	T	T	19162527	3	4	118	1	0	0	0	0	1	0	0	0	955	1203	42	3	311	3	ARMC6	19	19162527	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	6133442	19162527	39966456	322	43120										
ZNF208	7757	broad.mit.edu	37	chr19	22155968	22155968	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttgccttatgtgtagtaaggGttgagaccttactaaaggtt	11	5	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:22155968G>T	uc002nqp.2	-	5	1717	c.1568C>A	c.(1567-1569)ACC>AAC	p.T523N	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TGTAGTAAGGGTTGAGACCTT	0.363													15	87	---	---	---	---	PASS	T	22155968	T	T	22155968	3	4	118	1	0	0	0	0	1	0	0	0	17763	1261	44	3	1978	3	ZNF208	19	22155968	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	2993441	22155968	36973015	323	43121										
ZNF676	163223	broad.mit.edu	37	chr19	22364110	22364110	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	acatttcaaacctttctctcCagtatgccttatcttatgtc	3	12	3	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:22364110C>G	uc002nqs.1	-	3	727	c.409G>C	c.(409-411)GGA>CGA	p.G137R		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	137					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CCTTTCTCTCCAGTATGCCTT	0.323													21	134	---	---	---	---	PASS	G	22364110	G	G	22364110	3	3	118	1	0	0	0	0	1	0	0	0	18080	603	21	4	1361	4	ZNF676	19	22364110	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	208142	22364110	36764873	324	43122										
ZNF99	7652	broad.mit.edu	37	chr19	22939855	22939855	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	acatttgtacgatttctcccTagtatgaattagcttatgtt	6	7	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:22939855T>C	uc010xrh.1	-	6	2476	c.2476A>G	c.(2476-2478)AGG>GGG	p.R826G		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)				GATTTCTCCCTAGTATGAATT	0.373													33	144	---	---	---	---	PASS	C	22939855	C	C	22939855	3	2	118	1	0	0	0	0	1	0	0	0	18201	1521	53	5	644	5	ZNF99	19	22939855	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	575745	22939855	36189128	325	43123										
ZNF536	9745	broad.mit.edu	37	chr19	31039105	31039105	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccctgcatctcagcagtggaCatcaggggttctctcctctg	10	14	4	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:31039105C>T	uc002nsu.1	+	4	2717	c.2579C>T	c.(2578-2580)ACA>ATA	p.T860I	ZNF536_uc010edd.1_Missense_Mutation_p.T860I	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	860					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CAGCAGTGGACATCAGGGGTT	0.577													25	104	---	---	---	---	PASS	T	31039105	T	T	31039105	3	4	118	1	0	0	0	0	1	0	0	0	17971	478	17	3	2589	3	ZNF536	19	31039105	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	8099250	31039105	28089878	326	43124										
USF2	7392	broad.mit.edu	37	chr19	35761435	35761435	+	Missense_Mutation	SNP	C	A	A													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	acgatttgcctatttcccagCgtccagtgtgggagatacta							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:35761435C>A	uc002nyq.1	+	5	624	c.515C>A	c.(514-516)GCG>GAG	p.A172E	USF2_uc010xss.1_Missense_Mutation_p.A172E|USF2_uc002nyr.1_Missense_Mutation_p.A105E|USF2_uc002nys.1_5'UTR|USF2_uc002nyt.1_Intron|USF2_uc002nyu.1_5'UTR|USF2_uc002nyv.1_5'UTR	NM_003367	NP_003358	Q15853	USF2_HUMAN	upstream stimulatory factor 2 isoform 1	172					lipid homeostasis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter by glucose	nucleus	bHLH transcription factor binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity				0	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)		Epithelial(14;7.4e-20)|OV - Ovarian serous cystadenocarcinoma(14;6.47e-19)|all cancers(14;4.17e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			TATTTCCCAGCGTCCAGTGTG	0.597													28	63	---	---	---	---	PASS	A	35761435	A	A	35761435	3	1	118	1	0	0	0	0	1	0	0	0	17030	768	27	1	533	1	USF2	19	35761435	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	4722330	35761435	23367548	327	43125	812	2								
USF2	7392	broad.mit.edu	37	chr19	35761436	35761436	+	Silent	SNP	G	T	T													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cgatttgcctatttcccagcGtccagtgtgggagatactac							TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:35761436G>T	uc002nyq.1	+	5	625	c.516G>T	c.(514-516)GCG>GCT	p.A172A	USF2_uc010xss.1_Silent_p.A172A|USF2_uc002nyr.1_Silent_p.A105A|USF2_uc002nys.1_5'UTR|USF2_uc002nyt.1_Intron|USF2_uc002nyu.1_5'UTR|USF2_uc002nyv.1_5'UTR	NM_003367	NP_003358	Q15853	USF2_HUMAN	upstream stimulatory factor 2 isoform 1	172					lipid homeostasis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter by glucose	nucleus	bHLH transcription factor binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity				0	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)		Epithelial(14;7.4e-20)|OV - Ovarian serous cystadenocarcinoma(14;6.47e-19)|all cancers(14;4.17e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			ATTTCCCAGCGTCCAGTGTGG	0.597													27	62	---	---	---	---	PASS	T	35761436	T	T	35761436	2	4	118	1	0	0	0	0	0	0	0	1	17030	1132	40	1		1	USF2	19	35761436	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	1	35761436	23367547	328	43126	812	2								
APLP1	333	broad.mit.edu	37	chr19	36367439	36367439	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gtgcatacccaccttcaagtGattgaggagagggtgaatca	12	8	2	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:36367439G>T	uc002oce.2	+	11	1503	c.1365G>T	c.(1363-1365)GTG>GTT	p.V455V	APLP1_uc010xsz.1_Silent_p.V416V|APLP1_uc002ocf.2_Silent_p.V455V|APLP1_uc002ocg.2_Silent_p.V358V|APLP1_uc010xta.1_Silent_p.V449V	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	455	Extracellular (Potential).|Collagen-binding (By similarity).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			ACCTTCAAGTGATTGAGGAGA	0.552													18	62	---	---	---	---	PASS	T	36367439	T	T	36367439	2	4	118	1	0	0	0	0	0	0	0	1	778	1277	45	2		2	APLP1	19	36367439	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	606003	36367439	22761544	329	43127										
SIPA1L3	23094	broad.mit.edu	37	chr19	38610204	38610204	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttcaacctcatctccctgacCtccaagaagaaggaaaagac	6	13	3	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:38610204C>G	uc002ohk.2	+	9	3059	c.2550C>G	c.(2548-2550)ACC>ACG	p.T850T		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	850					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TCTCCCTGACCTCCAAGAAGA	0.612													11	39	---	---	---	---	PASS	G	38610204	G	G	38610204	2	3	118	1	0	0	0	0	0	0	0	1	14331	668	24	4		4	SIPA1L3	19	38610204	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	2242765	38610204	20518779	330	43128										
ITPKC	80271	broad.mit.edu	37	chr19	41235273	41235273	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aaccagatggaagacctcctGgctgactttgagggcccctc	11	13	0	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:41235273G>T	uc002oot.2	+	3	1455	c.1422G>T	c.(1420-1422)CTG>CTT	p.L474L		NM_025194	NP_079470	Q96DU7	IP3KC_HUMAN	inositol 1,4,5-trisphosphate 3-kinase C	474						cytoplasm|nucleus	ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity				0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			AAGACCTCCTGGCTGACTTTG	0.612													8	33	---	---	---	---	PASS	T	41235273	T	T	41235273	2	4	118	1	0	0	0	0	0	0	0	1	7919	1335	47	3		3	ITPKC	19	41235273	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	2625069	41235273	17893710	331	43129										
B3GNT8	374907	broad.mit.edu	37	chr19	41932672	41932672	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gacaggcagagaaggcacttGgggcagcgcatgacccggcc	16	12	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:41932672G>A	uc002oqs.2	-	3	466	c.12C>T	c.(10-12)CCC>CCT	p.P4P	CYP2F1_uc010xvw.1_Intron|B3GNT8_uc002oqt.1_Intron	NM_198540	NP_940942	Q7Z7M8	B3GN8_HUMAN	UDP-GlcNAc:betaGal	4	Cytoplasmic (Potential).				poly-N-acetyllactosamine biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity|protein N-acetylglucosaminyltransferase activity				0						GAAGGCACTTGGGGCAGCGCA	0.672													8	59	---	---	---	---	PASS	A	41932672	A	A	41932672	2	1	118	1	0	0	0	0	0	0	0	1	1263	1335	47	3		3	B3GNT8	19	41932672	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	697399	41932672	17196311	332	43130										
CEACAM4	1089	broad.mit.edu	37	chr19	42132287	42132287	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	actggacggcagggcttcaaTagtgaactggacagtggtgg	16	7	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:42132287T>C	uc002orh.1	-	2	223	c.112A>G	c.(112-114)ATT>GTT	p.I38V	CEACAM4_uc010xwd.1_Missense_Mutation_p.I38V	NM_001817	NP_001808	O75871	CEAM4_HUMAN	carcinoembryonic antigen-related cell adhesion	38	Extracellular (Potential).|Ig-like V-type.					integral to plasma membrane|membrane fraction					0						AGGGCTTCAATAGTGAACTGG	0.498													39	105	---	---	---	---	PASS	C	42132287	C	C	42132287	3	2	118	1	0	0	0	0	1	0	0	0	3194	1406	49	5	646	5	CEACAM4	19	42132287	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08	199615	42132287	16996696	333	43131										
ZNF574	64763	broad.mit.edu	37	chr19	42583419	42583419	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	acaagtgctctgagtgctccCagctcttccagctgccggcg	11	15	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:42583419C>T	uc002osm.3	+	2	830	c.661C>T	c.(661-663)CAG>TAG	p.Q221*	ZNF574_uc002osk.3_Nonsense_Mutation_p.Q311*	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	221	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				TGAGTGCTCCCAGCTCTTCCA	0.622													34	100	---	---	---	---	PASS	T	42583419	T	T	42583419	4	4	118	1	0	0	0	0	0	1	0	0	18003	595	21	3	663	3	ZNF574	19	42583419	Nonsense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	451132	42583419	16545564	334	43132										
LIPE	3991	broad.mit.edu	37	chr19	42910529	42910529	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccccgcaaggcagattcgttCccctgttgagcctggtttgg	12	13	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:42910529C>G	uc002otr.2	-	7	2426	c.2149G>C	c.(2149-2151)GAA>CAA	p.E717Q	uc010eif.1_Intron	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	717					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				CAGATTCGTTCCCCTGTTGAG	0.642													13	36	---	---	---	---	PASS	G	42910529	G	G	42910529	3	3	118	1	0	0	0	0	1	0	0	0	8821	864	30	2	1097	2	LIPE	19	42910529	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	327110	42910529	16218454	335	43133										
EML2	24139	broad.mit.edu	37	chr19	46136217	46136217	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgagtcccagatgcgcacgtGgggcggcagcggctgcaggg	19	11	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:46136217G>A	uc002pcn.2	-	6	447	c.412C>T	c.(412-414)CAC>TAC	p.H138Y	EML2_uc002pco.2_RNA|EML2_uc002pcp.2_Missense_Mutation_p.H22Y|EML2_uc010xxl.1_Missense_Mutation_p.H285Y|EML2_uc010xxm.1_Missense_Mutation_p.H339Y|EML2_uc010xxn.1_RNA|EML2_uc010xxo.1_Missense_Mutation_p.H138Y|EML2_uc010ekj.2_Missense_Mutation_p.H138Y|EML2_uc010ekk.1_5'Flank	NM_012155	NP_036287	O95834	EMAL2_HUMAN	echinoderm microtubule associated protein like	138	WD 1.				sensory perception of sound|visual perception	cytoplasm|intracellular membrane-bounded organelle|microtubule|microtubule associated complex	catalytic activity|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00553)|GBM - Glioblastoma multiforme(486;0.131)|Epithelial(262;0.197)		ATGCGCACGTGGGGCGGCAGC	0.567													14	50	---	---	---	---	PASS	A	46136217	A	A	46136217	3	1	118	1	0	0	0	0	1	0	0	0	5097	1348	47	3	1593	3	EML2	19	46136217	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	3225688	46136217	12992766	336	43134										
PRR12	57479	broad.mit.edu	37	chr19	50099655	50099655	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gggaccaccgggtacaccctAcgagttggccaaggaagacc	13	13	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:50099655A>G	uc002poo.3	+	4	2063	c.2063A>G	c.(2062-2064)TAC>TGC	p.Y688C		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		GGTACACCCTACGAGTTGGCC	0.682													6	19	---	---	---	---	PASS	G	50099655	G	G	50099655	3	3	118	1	0	0	0	0	1	0	0	0	12584	391	14	5	2077	5	PRR12	19	50099655	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	3963438	50099655	9029328	337	43135										
SIGLEC7	27036	broad.mit.edu	37	chr19	51647760	51647760	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccctgggcctgtgagcagggGacgccccctatgatctcctg	13	15	1	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:51647760G>T	uc002pvv.1	+	2	600	c.531G>T	c.(529-531)GGG>GGT	p.G177G	SIGLEC7_uc002pvw.1_Intron|SIGLEC7_uc010eoq.1_Intron|SIGLEC7_uc010eor.1_Intron	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	177	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		GTGAGCAGGGGACGCCCCCTA	0.647													33	142	---	---	---	---	PASS	T	51647760	T	T	51647760	2	4	118	1	0	0	0	0	0	0	0	1	14313	1161	41	2		2	SIGLEC7	19	51647760	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	1548105	51647760	7481223	338	43136										
CD33	945	broad.mit.edu	37	chr19	51728798	51728798	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttcatacttctttcggatggAgagaggaagtaccaaataca	9	7	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:51728798A>G	uc002pwa.2	+	2	402	c.362A>G	c.(361-363)GAG>GGG	p.E121G	CD33_uc010eos.1_Missense_Mutation_p.E121G|CD33_uc010eot.1_Intron|CD33_uc010eou.1_5'Flank	NM_001772	NP_001763	P20138	CD33_HUMAN	CD33 antigen isoform 1 precursor	121	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell-cell signaling|negative regulation of cell proliferation	external side of plasma membrane|integral to plasma membrane	receptor activity|sugar binding				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	TTTCGGATGGAGAGAGGAAGT	0.532													23	89	---	---	---	---	PASS	G	51728798	G	G	51728798	3	3	118	1	0	0	0	0	1	0	0	0	3005	304	11	5	368	5	CD33	19	51728798	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	81038	51728798	7400185	339	43137										
ZNF766	90321	broad.mit.edu	37	chr19	52793634	52793634	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgagcagggcaaagtcttcaGagtgtcttcaagccttccta	10	10	4	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:52793634G>T	uc002pyr.1	+	4	633	c.590G>T	c.(589-591)AGA>ATA	p.R197I	ZNF766_uc002pys.1_3'UTR|ZNF766_uc002pyt.1_Missense_Mutation_p.R212I	NM_001010851	NP_001010851	Q5HY98	ZN766_HUMAN	zinc finger protein 766	197	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00236)|OV - Ovarian serous cystadenocarcinoma(262;0.00871)		AAAGTCTTCAGAGTGTCTTCA	0.413													20	152	---	---	---	---	PASS	T	52793634	T	T	52793634	3	4	118	1	0	0	0	0	1	0	0	0	18137	942	33	2	604	2	ZNF766	19	52793634	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	1064836	52793634	6335349	340	43138										
NLRP12	91662	broad.mit.edu	37	chr19	54313082	54313082	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	caagcagctgaagaactccaAggagccctgctgcagggtgg	14	11	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:54313082A>T	uc002qch.3	-	3	2051	c.1831T>A	c.(1831-1833)TTG>ATG	p.L611M	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Missense_Mutation_p.L611M|NLRP12_uc002qcj.3_Missense_Mutation_p.L611M|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.L611M	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	611					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		AAGAACTCCAAGGAGCCCTGC	0.567													35	82	---	---	---	---	PASS	T	54313082	T	T	54313082	3	4	118	1	0	0	0	0	1	0	0	0	10474	69	3	5	1482	5	NLRP12	19	54313082	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	1519448	54313082	4815901	341	43139										
NLRP12	91662	broad.mit.edu	37	chr19	54313593	54313593	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggcttgggttgcatcagactCagcaggtagagcatgtacac	13	9	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:54313593C>A	uc002qch.3	-	3	1540	c.1320G>T	c.(1318-1320)CTG>CTT	p.L440L	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Silent_p.L440L|NLRP12_uc002qcj.3_Silent_p.L440L|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Silent_p.L440L	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	440	NACHT.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		GCATCAGACTCAGCAGGTAGA	0.632													26	145	---	---	---	---	PASS	A	54313593	A	A	54313593	2	1	118	1	0	0	0	0	0	0	0	1	10474	813	29	2		2	NLRP12	19	54313593	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	511	54313593	4815390	342	43140										
LILRB3	11025	broad.mit.edu	37	chr19	54722671	54722671	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccttgggctctgtctccgcaGcccctgcaggacgctggaaa	12	15	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:54722671G>T	uc002qef.1	-	9	1574	c.1463C>A	c.(1462-1464)GCT>GAT	p.A488D	LILRB3_uc002qee.1_Missense_Mutation_p.A488D|LILRB3_uc002qeh.1_Missense_Mutation_p.A488D|LILRB3_uc002qeg.1_RNA|LILRB3_uc002qei.1_Missense_Mutation_p.A488D|LILRA6_uc002qek.1_Missense_Mutation_p.A488D|LILRB3_uc010erh.1_Missense_Mutation_p.A505D|LILRB3_uc002qej.1_RNA|LILRA6_uc002qel.1_Missense_Mutation_p.A488D|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Missense_Mutation_p.A488D|LILRB3_uc002qep.1_Missense_Mutation_p.A488D|LILRB3_uc002qeq.1_Missense_Mutation_p.A488D|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Missense_Mutation_p.A488D	NM_006864	NP_006855	O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor,	488	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	transmembrane receptor activity			skin(2)|ovary(1)	3	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TGTCTCCGCAGCCCCTGCAGG	0.567													29	83	---	---	---	---	PASS	T	54722671	T	T	54722671	3	4	118	1	0	0	0	0	1	0	0	0	8792	971	34	3	455	3	LILRB3	19	54722671	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	409078	54722671	4406312	343	43141										
LILRB5	10990	broad.mit.edu	37	chr19	54758731	54758731	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gagaattcagcctggtgtctAtaagactggtactttgactt	10	7	2	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:54758731A>G	uc002qex.2	-	6	1233	c.1122T>C	c.(1120-1122)TAT>TAC	p.Y374Y	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Silent_p.Y365Y|LILRB5_uc002qey.2_Silent_p.Y374Y|LILRB5_uc002qez.2_Silent_p.Y274Y|LILRB5_uc002qfa.1_Silent_p.Y264Y|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	374	Ig-like C2-type 4.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CCTGGTGTCTATAAGACTGGT	0.537													22	72	---	---	---	---	PASS	G	54758731	G	G	54758731	2	3	118	1	0	0	0	0	0	0	0	1	8794	456	16	5		5	LILRB5	19	54758731	Silent	SNP	A	TCGA-56-6546-01A-11D-1817-08	36060	54758731	4370252	344	43142										
GP6	51206	broad.mit.edu	37	chr19	55530042	55530042	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gttgtgaagacttcgtttgtGaatgagacggtcagttcagc	13	6	2	4			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:55530042G>C	uc002qik.2	-	6	730	c.702C>G	c.(700-702)TTC>TTG	p.F234L	GP6_uc002qil.2_Missense_Mutation_p.F234L|GP6_uc010esq.2_Missense_Mutation_p.F216L	NM_016363	NP_057447	Q9HCN6	GPVI_HUMAN	glycoprotein VI (platelet) isoform 2	234	Extracellular (Potential).				enzyme linked receptor protein signaling pathway|leukocyte migration|platelet activation	integral to plasma membrane	collagen binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.156)	GBM - Glioblastoma multiforme(193;0.0515)		CTTCGTTTGTGAATGAGACGG	0.458													58	128	---	---	---	---	PASS	C	55530042	C	C	55530042	3	2	118	1	0	0	0	0	1	0	0	0	6584	1281	45	2	1172	2	GP6	19	55530042	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	771311	55530042	3598941	345	43143										
NLRP13	126204	broad.mit.edu	37	chr19	56419214	56419214	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gctttaagaatcagggggacAgtcattcccagcttgttaga	11	8	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:56419214A>T	uc010ygg.1	-	7	2416	c.2391T>A	c.(2389-2391)ACT>ACA	p.T797T		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	797	LRR 2.						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)		TCAGGGGGACAGTCATTCCCA	0.498													58	133	---	---	---	---	PASS	T	56419214	T	T	56419214	2	4	118	1	0	0	0	0	0	0	0	1	10475	175	7	5		5	NLRP13	19	56419214	Silent	SNP	A	TCGA-56-6546-01A-11D-1817-08	889172	56419214	2709769	346	43144										
NLRP13	126204	broad.mit.edu	37	chr19	56424444	56424444	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgcccagtgcagcatagcctGcattgccaaggtggtcttcc	11	13	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:56424444G>A	uc010ygg.1	-	5	764	c.739C>T	c.(739-741)CAG>TAG	p.Q247*		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	247	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)		AGCATAGCCTGCATTGCCAAG	0.507													45	141	---	---	---	---	PASS	A	56424444	A	A	56424444	4	1	118	1	0	0	0	0	0	1	0	0	10475	1328	46	3	2418	3	NLRP13	19	56424444	Nonsense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	5230	56424444	2704539	347	43145										
ZNF71	58491	broad.mit.edu	37	chr19	57133934	57133934	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gccagagcgcctacctcatcGagcaccagcggatccacacc	9	18	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr19:57133934G>A	uc002qnm.3	+	3	1517	c.1279G>A	c.(1279-1281)GAG>AAG	p.E427K		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	427	C2H2-type 11.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		CTACCTCATCGAGCACCAGCG	0.642													26	43	---	---	---	---	PASS	A	57133934	A	A	57133934	3	1	118	1	0	0	0	0	1	0	0	0	18111	1059	37	2	1281	2	ZNF71	19	57133934	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	709490	57133934	1995049	348	43146										
PDYN	5173	broad.mit.edu	37	chr20	1961208	1961208	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gtatttgcgcaaaaagccccCatagcgtttgacctgctcct	8	13	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr20:1961208C>A	uc010gaj.2	-	3	768	c.526G>T	c.(526-528)GGG>TGG	p.G176W	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.G176W|PDYN_uc010zpt.1_Missense_Mutation_p.G21W	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	176					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						AAAAAGCCCCCATAGCGTTTG	0.592													28	86	---	---	---	---	PASS	A	1961208	A	A	1961208	3	1	118	1	0	0	0	0	1	0	0	0	11699	594	21	3	242	3	PDYN	20	1961208	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08		1961208	61064312	349	43147										
NKX2-2	4821	broad.mit.edu	37	chr20	21492742	21492742	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gggctttgagcgcgtgacatGgtttgccgtccctgaccaag	14	11	0	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr20:21492742G>T	uc002wsi.2	-	2	998	c.641C>A	c.(640-642)CCA>CAA	p.P214Q		NM_002509	NP_002500	O95096	NKX22_HUMAN	NK2 transcription factor related, locus 2	214					brain development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	chromatin binding|core promoter proximal region DNA binding|transcription coactivator activity			pancreas(1)|skin(1)	2						CGCGTGACATGGTTTGCCGTC	0.662													10	57	---	---	---	---	PASS	T	21492742	T	T	21492742	3	4	118	1	0	0	0	0	1	0	0	0	10450	1348	47	3	184	3	NKX2-2	20	21492742	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	19531534	21492742	41532778	350	43148										
CST1	1469	broad.mit.edu	37	chr20	23728519	23728519	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cagggaacttcgtagatctcGaaagagcacaactgtttctg	10	9	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr20:23728519G>C	uc002wtp.2	-	3	431	c.360C>G	c.(358-360)TTC>TTG	p.F120L		NM_001898	NP_001889	P01037	CYTN_HUMAN	cystatin SN precursor	120						extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1	Lung NSC(19;0.0676)|all_lung(19;0.148)					CGTAGATCTCGAAAGAGCACA	0.527													14	47	---	---	---	---	PASS	C	23728519	C	C	23728519	3	2	118	1	0	0	0	0	1	0	0	0	3970	1049	37	2	69	2	CST1	20	23728519	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	2235777	23728519	39297001	351	43149										
CST1	1469	broad.mit.edu	37	chr20	23731327	23731327	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cgtctgtagtagtcatctttGgtggccttgttatactcgct	10	9	3	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr20:23731327G>T	uc002wtp.2	-	1	248	c.177C>A	c.(175-177)ACC>ACA	p.T59T		NM_001898	NP_001889	P01037	CYTN_HUMAN	cystatin SN precursor	59						extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1	Lung NSC(19;0.0676)|all_lung(19;0.148)					AGTCATCTTTGGTGGCCTTGT	0.557													26	119	---	---	---	---	PASS	T	23731327	T	T	23731327	2	4	118	1	0	0	0	0	0	0	0	1	3970	1335	47	3		3	CST1	20	23731327	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	2808	23731327	39294193	352	43150										
C20orf186	149954	broad.mit.edu	37	chr20	31671440	31671440	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cagggcagcacctgtgggcaGgcttcaccggcgagagctgc	16	13	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr20:31671440G>T	uc010zue.1	+	3	452	c.437G>T	c.(436-438)AGG>ATG	p.R146M		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	146	Gly-rich.					cytoplasm|extracellular region	lipid binding				0						CCTGTGGGCAGGCTTCACCGG	0.642													45	79	---	---	---	---	PASS	T	31671440	T	T	31671440	3	4	118	1	0	0	0	0	1	0	0	0	2098	1000	35	3	447	3	C20orf186	20	31671440	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	7940113	31671440	31354080	353	43151										
SEMG1	6406	broad.mit.edu	37	chr20	43836508	43836508	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggtagaaaacaaggcggatcCcaaagcagttatgttctcca	10	9	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr20:43836508C>A	uc002xni.2	+	2	627	c.570C>A	c.(568-570)TCC>TCA	p.S190S	SEMG1_uc002xnj.2_Silent_p.S190S|SEMG2_uc010ggz.2_Intron|SEMG1_uc002xnh.2_Silent_p.S190S	NM_003007	NP_002998	P04279	SEMG1_HUMAN	semenogelin I preproprotein	190	42 AA repeat 1.				insemination|sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(2)	2		Myeloproliferative disorder(115;0.0122)				AAGGCGGATCCCAAAGCAGTT	0.393													35	52	---	---	---	---	PASS	A	43836508	A	A	43836508	2	1	118	1	0	0	0	0	0	0	0	1	14044	610	22	3		3	SEMG1	20	43836508	Silent	SNP	C	TCGA-56-6546-01A-11D-1817-08	12165068	43836508	19189012	354	43152										
SLC12A5	57468	broad.mit.edu	37	chr20	44664042	44664042	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	actgacaccctccctccataGgaggagatggacaccagccc	9	16	0	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr20:44664042G>A	uc010zxl.1	+	3	293	c.217_splice	c.e3-1	p.E73_splice	SLC12A5_uc002xra.2_Splice_Site_p.E50_splice|SLC12A5_uc010zxm.1_Splice_Site|SLC12A5_uc002xrb.2_Splice_Site_p.E50_splice	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride						potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	TCCCTCCATAGGAGGAGATGG	0.592													93	191	---	---	---	---	PASS	A	44664042	A	A	44664042	5	1	118	1	0	0	0	0	0	0	1	0	14386	1014	35	3	282	3	SLC12A5	20	44664042	Splice_Site	SNP	G	TCGA-56-6546-01A-11D-1817-08	827534	44664042	18361478	355	43153										
NFATC2	4773	broad.mit.edu	37	chr20	50140386	50140386	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ctccaccaggaggcccgcgtCtctcatgcggaggggcccca	13	17	2	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr20:50140386C>T	uc002xwd.2	-	2	614	c.394G>A	c.(394-396)GAC>AAC	p.D132N	NFATC2_uc002xwc.2_Missense_Mutation_p.D132N|NFATC2_uc010zyv.1_Intron|NFATC2_uc010zyw.1_Intron|NFATC2_uc010zyx.1_Missense_Mutation_p.D112N|NFATC2_uc010zyy.1_Intron|NFATC2_uc010zyz.1_Intron|NFATC2_uc002xwe.2_Missense_Mutation_p.D112N	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	132	Trans-activation domain A (TAD-A).				B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					AGGCCCGCGTCTCTCATGCGG	0.736													15	50	---	---	---	---	PASS	T	50140386	T	T	50140386	3	4	118	1	0	0	0	0	1	0	0	0	10362	913	32	2	2467	2	NFATC2	20	50140386	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	5476344	50140386	12885134	356	43154										
VAPB	9217	broad.mit.edu	37	chr20	57019265	57019265	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttttgttctttatcgttggtGtaattattgggaagattgcc	10	4	1	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr20:57019265G>T	uc002xza.2	+	6	977	c.706G>T	c.(706-708)GTA>TTA	p.V236L	VAPB_uc002xzb.2_RNA|VAPB_uc010zzo.1_Missense_Mutation_p.V113L|VAPB_uc002xzc.2_3'UTR	NM_004738	NP_004729	O95292	VAPB_HUMAN	VAMP-associated protein B/C	236	Helical; Anchor for type IV membrane protein; (Potential).				cell death|endoplasmic reticulum unfolded protein response|positive regulation of viral genome replication|sphingolipid metabolic process|virus-host interaction	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	beta-tubulin binding|enzyme binding|protein heterodimerization activity|protein homodimerization activity|structural molecule activity			kidney(1)	1	Lung NSC(12;0.000615)|all_lung(29;0.00186)		BRCA - Breast invasive adenocarcinoma(13;6.2e-12)|Epithelial(14;3.7e-08)|all cancers(14;3.88e-07)			TATCGTTGGTGTAATTATTGG	0.453													70	277	---	---	---	---	PASS	T	57019265	T	T	57019265	3	4	118	1	0	0	0	0	1	0	0	0	17119	1377	48	3	728	3	VAPB	20	57019265	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	6878879	57019265	6006255	357	43155										
PHACTR3	116154	broad.mit.edu	37	chr20	58415482	58415482	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	atcaagcaaagattgacaagAaaggtagtataagcatttta	8	4	1	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr20:58415482A>C	uc002yau.2	+	10	1910	c.1443A>C	c.(1441-1443)AGA>AGC	p.R481S	PHACTR3_uc002yat.2_Missense_Mutation_p.R478S|PHACTR3_uc010zzw.1_Missense_Mutation_p.R440S|PHACTR3_uc002yav.2_Missense_Mutation_p.R440S|PHACTR3_uc002yaw.2_Missense_Mutation_p.R440S|PHACTR3_uc002yax.2_Missense_Mutation_p.R370S|PHACTR3_uc002yay.2_Missense_Mutation_p.R50S	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	481	Required for PP1CA binding and inhibition of PP1 activity.|Potential.|RPEL 4.					nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			GATTGACAAGAAAGGTAGTAT	0.363													5	77	---	---	---	---	PASS	C	58415482	C	C	58415482	3	2	118	1	0	0	0	0	1	0	0	0	11811	243	9	5	1481	5	PHACTR3	20	58415482	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	1396217	58415482	4610038	358	43156										
HRH3	11255	broad.mit.edu	37	chr20	60791306	60791306	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cccagcagagcccaaagatgCtcacgatgacggccagcgac	11	15	1	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr20:60791306C>T	uc002ycf.2	-	3	1391	c.1094G>A	c.(1093-1095)AGC>AAC	p.S365N	HRH3_uc002ycg.2_Missense_Mutation_p.S285N|HRH3_uc002ych.2_Intron|HRH3_uc002yci.2_Missense_Mutation_p.S365N	NM_007232	NP_009163	Q9Y5N1	HRH3_HUMAN	histamine receptor H3	365	Helical; Name=6; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|neurotransmitter secretion	integral to plasma membrane	histamine receptor activity				0	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;7.08e-07)		Histamine Phosphate(DB00667)	CCCAAAGATGCTCACGATGAC	0.607													26	46	---	---	---	---	PASS	T	60791306	T	T	60791306	3	4	118	1	0	0	0	0	1	0	0	0	7357	797	28	3	247	3	HRH3	20	60791306	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	2375824	60791306	2234214	359	43157										
STMN3	50861	broad.mit.edu	37	chr20	62275622	62275622	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	gtgtagaagcaggagcagatGagcgacagcaccgacagctc	14	10	0	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr20:62275622G>T	uc002yfr.1	-	2	142	c.60C>A	c.(58-60)CTC>CTA	p.L20L	STMN3_uc011abb.1_Silent_p.L20L	NM_015894	NP_056978	Q9NZ72	STMN3_HUMAN	SCG10-like-protein	20					cytoplasmic microtubule organization|intracellular signal transduction|negative regulation of Rac protein signal transduction|neuron projection development|regulation of cytoskeleton organization|regulation of Rac GTPase activity	cytoplasm	protein domain specific binding				0	all_cancers(38;2.31e-11)|all_epithelial(29;7.76e-13)		Epithelial(9;1.9e-09)|all cancers(9;1.22e-08)|BRCA - Breast invasive adenocarcinoma(10;8.86e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.00559)			AGGAGCAGATGAGCGACAGCA	0.652													13	35	---	---	---	---	PASS	T	62275622	T	T	62275622	2	4	118	1	0	0	0	0	0	0	0	1	15309	1277	45	2		2	STMN3	20	62275622	Silent	SNP	G	TCGA-56-6546-01A-11D-1817-08	1484316	62275622	749898	360	43158										
CCT8L2	150160	broad.mit.edu	37	chr22	17072690	17072690	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgctggtgcatttggatgggCaggaccaaaggggcaagcaa	16	7	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr22:17072690C>A	uc002zlp.1	-	1	1011	c.751G>T	c.(751-753)GCC>TCC	p.A251S		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	251					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				TTTGGATGGGCAGGACCAAAG	0.517													19	101	---	---	---	---	PASS	A	17072690	A	A	17072690	3	1	118	1	0	0	0	0	1	0	0	0	2961	710	25	3	926	3	CCT8L2	22	17072690	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08		17072690	34231876	361	43159										
RTDR1	27156	broad.mit.edu	37	chr22	23482493	23482493	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tttctgcctcgtctggaggtCctctgactgcagctcctcct	9	15	3	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr22:23482493C>A	uc002zwt.2	-	2	273	c.115G>T	c.(115-117)GAC>TAC	p.D39Y	RTDR1_uc010gtv.1_Missense_Mutation_p.D39Y	NM_014433	NP_055248	Q9UHP6	RTDR1_HUMAN	rhabdoid tumor deletion region protein 1	39							binding			ovary(1)	1	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.175)		GTCTGGAGGTCCTCTGACTGC	0.557													4	55	---	---	---	---	PASS	A	23482493	A	A	23482493	3	1	118	1	0	0	0	0	1	0	0	0	13719	855	30	2	955	2	RTDR1	22	23482493	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	6409803	23482493	27822073	362	43160										
ADRBK2	157	broad.mit.edu	37	chr22	26118334	26118334	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	agcggctattgcgtcgtgccCcgaagttcctcaacaaacct	9	14	1	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr22:26118334C>G	uc003abx.3	+	21	2131	c.1984C>G	c.(1984-1986)CCG>GCG	p.P662A	ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	662							ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	GCGTCGTGCCCCGAAGTTCCT	0.542													26	71	---	---	---	---	PASS	G	26118334	G	G	26118334	3	3	118	1	0	0	0	0	1	0	0	0	344	623	22	4	2066	4	ADRBK2	22	26118334	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	2635841	26118334	25186232	363	43161										
SLC25A17	10478	broad.mit.edu	37	chr22	41195076	41195076	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ggaaaaaacactgtcattgcTgtcacgcttccctgaaaagt	8	10	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chr22:41195076T>A	uc003azc.2	-	2	206	c.66A>T	c.(64-66)ACA>ACT	p.T22T	SLC25A17_uc010gyg.2_RNA|SLC25A17_uc011aou.1_5'UTR|SLC25A17_uc003azd.2_RNA|SLC25A17_uc011aov.1_Silent_p.T22T	NM_006358	NP_006349	O43808	PM34_HUMAN	solute carrier family 25 (mitochondrial carrier;	22	Solcar 1.|Helical; Name=1; (Potential).				fatty acid alpha-oxidation	integral to plasma membrane|mitochondrial inner membrane|peroxisomal membrane	adenine nucleotide transmembrane transporter activity|protein binding				0						CTGTCATTGCTGTCACGCTTC	0.328													16	27	---	---	---	---	PASS	A	41195076	A	A	41195076	2	1	118	1	0	0	0	0	0	0	0	1	14479	1567	55	5		5	SLC25A17	22	41195076	Silent	SNP	T	TCGA-56-6546-01A-11D-1817-08	15076742	41195076	10109490	364	43162										
PPEF1	5475	broad.mit.edu	37	chrX	18797254	18797254	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tctaccccaatgacctgcacTtgaacagagggaaccacgaa	8	13	1	3			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chrX:18797254T>A	uc004cyq.2	+	10	1166	c.685T>A	c.(685-687)TTG>ATG	p.L229M	PPEF1_uc004cyp.2_Missense_Mutation_p.L229M|PPEF1_uc004cyr.2_Missense_Mutation_p.L229M|PPEF1_uc004cys.2_Missense_Mutation_p.L229M|PPEF1_uc011mja.1_Missense_Mutation_p.L164M|PPEF1_uc011mjb.1_Missense_Mutation_p.L173M	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding	229	Catalytic.				detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)					TGACCTGCACTTGAACAGAGG	0.398													46	50	---	---	---	---	PASS	A	18797254	A	A	18797254	3	1	118	1	0	0	0	0	1	0	0	0	12307	1606	56	5	711	5	PPEF1	23	18797254	Missense_Mutation	SNP	T	TCGA-56-6546-01A-11D-1817-08		18797254	136473306	365	43163										
RPS6KA3	6197	broad.mit.edu	37	chrX	20195156	20195156	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	cttgaaaagcattcgtaaaaGactctgcgcttcaggactca	8	10	3	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chrX:20195156G>A	uc004czu.2	-	11	892	c.892C>T	c.(892-894)CTT>TTT	p.L298F	RPS6KA3_uc011mjk.1_Missense_Mutation_p.L269F|RPS6KA3_uc004czv.2_Missense_Mutation_p.L286F|RPS6KA3_uc011mjl.1_Missense_Mutation_p.L270F|RPS6KA3_uc011mjm.1_Missense_Mutation_p.L270F	NM_004586	NP_004577	P51812	KS6A3_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	298	Protein kinase 1.				axon guidance|central nervous system development|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|skeletal system development|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(4)|stomach(1)|ovary(1)|lung(1)|breast(1)	8						ATTCGTAAAAGACTCTGCGCT	0.318													32	49	---	---	---	---	PASS	A	20195156	A	A	20195156	3	1	118	1	0	0	0	0	1	0	0	0	13652	942	33	2	1378	2	RPS6KA3	23	20195156	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	1397902	20195156	135075404	366	43164										
PTCHD1	139411	broad.mit.edu	37	chrX	23411778	23411778	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgttcctgctcttcttctcgGcattcctggtggcagattca	9	12	4	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chrX:23411778G>A	uc004dal.3	+	3	2151	c.2143G>A	c.(2143-2145)GCA>ACA	p.A715T		NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	715	Helical; (Potential).				cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						CTTCTTCTCGGCATTCCTGGT	0.483													4	72	---	---	---	---	PASS	A	23411778	A	A	23411778	3	1	118	1	0	0	0	0	1	0	0	0	12732	1203	42	3	2153	3	PTCHD1	23	23411778	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	3216622	23411778	131858782	367	43165										
SLC35A2	7355	broad.mit.edu	37	chrX	48762630	48762630	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tgggcctcccccaccggcttGctgtgcctggacaatggcga	13	15	0	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chrX:48762630G>C	uc004dlo.1	-	4	560	c.556C>G	c.(556-558)CAA>GAA	p.Q186E	SLC35A2_uc011mml.1_Missense_Mutation_p.Q199E|SLC35A2_uc004dlp.1_Missense_Mutation_p.Q186E|SLC35A2_uc011mmm.1_Missense_Mutation_p.Q214E|SLC35A2_uc011mmn.1_Missense_Mutation_p.Q125E|SLC35A2_uc004dlr.1_Intron|SLC35A2_uc004dlq.2_Intron	NM_005660	NP_005651	P78381	S35A2_HUMAN	solute carrier family 35, member A2 isoform a	186	Helical; (Potential).				galactose metabolic process	Golgi membrane|integral to membrane|nucleus	sugar:hydrogen symporter activity|UDP-galactose transmembrane transporter activity			breast(1)	1						CCACCGGCTTGCTGTGCCTGG	0.662													6	4	---	---	---	---	PASS	C	48762630	C	C	48762630	3	2	118	1	0	0	0	0	1	0	0	0	14571	1328	46	4	798	4	SLC35A2	23	48762630	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	25350852	48762630	106507930	368	43166										
ITIH5L	347365	broad.mit.edu	37	chrX	54783662	54783662	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttgcctggtcctctggggacCcgggaggaggtcatactgat	15	10	2	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chrX:54783662C>A	uc004dtj.2	-	8	2875	c.2845G>T	c.(2845-2847)GGT>TGT	p.G949C		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	949	Pro-rich.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						CTCTGGGGACCCGGGAGGAGG	0.592													9	18	---	---	---	---	PASS	A	54783662	A	A	54783662	3	1	118	1	0	0	0	0	1	0	0	0	7908	623	22	3	1120	3	ITIH5L	23	54783662	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	6021032	54783662	100486898	369	43167										
ACRC	93953	broad.mit.edu	37	chrX	70823780	70823780	+	Missense_Mutation	SNP	A	G	G													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ttcggatgttcccgacgacaAgagtgatgattcggatgttc					rs138572604	byFrequency	TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chrX:70823780A>G	uc004eae.2	+	8	1154	c.653A>G	c.(652-654)AAG>AGG	p.K218R	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	218	Asp/Ser-rich.					nucleus				ovary(3)	3	Renal(35;0.156)					CCCGACGACAAGAGTGATGAT	0.507													34	170	---	---	---	---	PASS	G	70823780	G	G	70823780	3	3	118	1	0	0	0	0	1	0	0	0	171	72	3	5	679	5	ACRC	23	70823780	Missense_Mutation	SNP	A	TCGA-56-6546-01A-11D-1817-08	16040118	70823780	84446780	370	43168	813	2								
ACRC	93953	broad.mit.edu	37	chrX	70823781	70823781	+	Missense_Mutation	SNP	G	C	C													0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tcggatgttcccgacgacaaGagtgatgattcggatgttcc					rs141229655	byFrequency	TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chrX:70823781G>C	uc004eae.2	+	8	1155	c.654G>C	c.(652-654)AAG>AAC	p.K218N	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	218	Asp/Ser-rich.					nucleus				ovary(3)	3	Renal(35;0.156)					CCGACGACAAGAGTGATGATT	0.502													42	160	---	---	---	---	PASS	C	70823781	C	C	70823781	3	2	118	1	0	0	0	0	1	0	0	0	171	933	33	2	680	2	ACRC	23	70823781	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	1	70823781	84446779	371	43169	813	2								
P2RY10	27334	broad.mit.edu	37	chrX	78216168	78216168	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	tattcattcctggtcttctgGctaacagtgcagccttgtgg	10	10	3	0			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chrX:78216168G>T	uc004ede.2	+	4	520	c.151G>T	c.(151-153)GCT>TCT	p.A51S	P2RY10_uc004edf.2_Missense_Mutation_p.A51S	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	51	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						TGGTCTTCTGGCTAACAGTGC	0.428													30	57	---	---	---	---	PASS	T	78216168	T	T	78216168	3	4	118	1	0	0	0	0	1	0	0	0	11347	1203	42	3	153	3	P2RY10	23	78216168	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	7392387	78216168	77054392	372	43170										
DACH2	117154	broad.mit.edu	37	chrX	85631865	85631865	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	aagaaaacaagctgttaacaGgtatttatgtatttattttt	6	3	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chrX:85631865G>A	uc004eew.2	+	2	697	c.527G>A	c.(526-528)AGT>AAT	p.S176N	DACH2_uc004eex.2_Intron|DACH2_uc010nmq.2_Intron|DACH2_uc011mra.1_Missense_Mutation_p.S9N|DACH2_uc010nmr.2_Intron	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	176					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						gctgttaacaggtatttatgt	0.109													4	4	---	---	---	---	PASS	A	85631865	A	A	85631865	3	1	118	1	0	0	0	0	1	0	0	0	4221	1014	35	3	533	3	DACH2	23	85631865	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	7415697	85631865	69638695	373	43171										
MAGEC3	139081	broad.mit.edu	37	chrX	140926178	140926178	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	ccagtgggtgaaaaacacatGtgccacatatgccttatccc	8	12	0	1			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chrX:140926178G>A	uc011mwp.1	+	1	77	c.77G>A	c.(76-78)TGT>TAT	p.C26Y		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	26										skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AAAAACACATGTGCCACATAT	0.557													29	36	---	---	---	---	PASS	A	140926178	A	A	140926178	3	1	118	1	0	0	0	0	1	0	0	0	9182	1377	48	3	79	3	MAGEC3	23	140926178	Missense_Mutation	SNP	G	TCGA-56-6546-01A-11D-1817-08	55294313	140926178	14344382	374	43172										
SLITRK2	84631	broad.mit.edu	37	chrX	144904178	144904178	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0382513661202186	14	0.88771942023888	0.803360818286191	1.22329942784488	0.598057498057498	1	1	0	acctcttgacaagactgtatCcaaacgaatttgtcaattac	5	10	2	2			TCGA-56-6546-01A-11D-1817-08	TCGA-56-6546-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e71949-5bd9-458c-95f7-4b19882c2b4f	7fef8d17-057d-4bd4-821c-099460f6484b	g.chrX:144904178C>A	uc004fcd.2	+	5	1225	c.235C>A	c.(235-237)CCA>ACA	p.P79T	SLITRK2_uc010nsp.2_Missense_Mutation_p.P79T|SLITRK2_uc010nso.2_Missense_Mutation_p.P79T|SLITRK2_uc011mwq.1_Missense_Mutation_p.P79T|SLITRK2_uc011mwr.1_Missense_Mutation_p.P79T|SLITRK2_uc011mws.1_Missense_Mutation_p.P79T|SLITRK2_uc004fcg.2_Missense_Mutation_p.P79T|SLITRK2_uc011mwt.1_Missense_Mutation_p.P79T	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	79	Extracellular (Potential).|LRR 1.					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					AAGACTGTATCCAAACGAATT	0.468													18	51	---	---	---	---	PASS	A	144904178	A	A	144904178	3	1	118	1	0	0	0	0	1	0	0	0	14743	855	30	2	237	2	SLITRK2	23	144904178	Missense_Mutation	SNP	C	TCGA-56-6546-01A-11D-1817-08	3978000	144904178	10366382	375	43173										
GABRD	2563	broad.mit.edu	37	chr1	1961513	1961513	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccgccggcagcgccgcgtccCggggaacctgatgggctcct	15	17	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:1961513C>T	uc001aip.2	+	9	1246	c.1151C>T	c.(1150-1152)CCG>CTG	p.P384L		NM_000815	NP_000806	O14764	GBRD_HUMAN	gamma-aminobutyric acid (GABA) A receptor, delta	384	Cytoplasmic (Probable).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;2.7e-19)|all_lung(118;1.22e-08)|Lung NSC(185;1.24e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;2.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.17e-24)|GBM - Glioblastoma multiforme(42;9.56e-08)|Colorectal(212;4.12e-05)|COAD - Colon adenocarcinoma(227;0.000194)|Kidney(185;0.00231)|BRCA - Breast invasive adenocarcinoma(365;0.00441)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		CGCCGCGTCCCGGGGAACCTG	0.687													13	28	---	---	---	---	PASS	T	1961513	T	T	1961513	3	4	119	1	0	0	0	0	1	0	0	0	6169	652	23	1	1185	1	GABRD	1	1961513	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08		1961513	247289108	1	43174										
PLCH2	9651	broad.mit.edu	37	chr1	2411368	2411368	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctgcgctacctcatggccgGcatcagcgacgaggacagcc	12	16	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:2411368G>A	uc001aji.1	+	3	741	c.467G>A	c.(466-468)GGC>GAC	p.G156D	PLCH2_uc010nyz.1_5'Flank|PLCH2_uc009vle.1_5'Flank|PLCH2_uc001ajj.1_5'Flank|PLCH2_uc001ajk.1_5'Flank	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	156					intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		CTCATGGCCGGCATCAGCGAC	0.682													3	46	---	---	---	---	PASS	A	2411368	A	A	2411368	3	1	119	1	0	0	0	0	1	0	0	0	12038	1203	42	3	477	3	PLCH2	1	2411368	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	449855	2411368	246839253	2	43175										
RNF207	388591	broad.mit.edu	37	chr1	6273210	6273210	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatcacgccctacgtccgctCcattgccaaggtgaaggagc	11	14	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:6273210C>T	uc001amg.2	+	16	1793	c.1619C>T	c.(1618-1620)TCC>TTC	p.S540F	RNF207_uc010nzp.1_RNA	NM_207396	NP_997279	Q6ZRF8	RN207_HUMAN	ring finger protein 207	540						intracellular	zinc ion binding				0	Ovarian(185;0.0634)	all_cancers(23;1.22e-38)|all_epithelial(116;4.25e-22)|all_lung(118;7.95e-08)|Lung NSC(185;1.6e-06)|all_neural(13;3.18e-06)|all_hematologic(16;8.99e-06)|Acute lymphoblastic leukemia(12;0.000365)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00104)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)|Medulloblastoma(700;0.211)		Epithelial(90;4.84e-38)|GBM - Glioblastoma multiforme(13;5.77e-32)|OV - Ovarian serous cystadenocarcinoma(86;2.88e-19)|Colorectal(212;6.9e-08)|COAD - Colon adenocarcinoma(227;8.13e-06)|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;0.00311)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.182)		TACGTCCGCTCCATTGCCAAG	0.582													14	70	---	---	---	---	PASS	T	6273210	T	T	6273210	3	4	119	1	0	0	0	0	1	0	0	0	13474	855	30	2	1677	2	RNF207	1	6273210	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3861842	6273210	242977411	3	43176										
TAS1R1	80835	broad.mit.edu	37	chr1	6634877	6634877	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctaggggtgcaggcactgGagaaccaggccactggtcag	16	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:6634877G>A	uc001ant.2	+	3	685	c.685G>A	c.(685-687)GAG>AAG	p.E229K	TAS1R1_uc001anu.2_Intron|TAS1R1_uc001anv.2_Intron|TAS1R1_uc001anw.2_Missense_Mutation_p.E229K	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	229	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)		GCAGGCACTGGAGAACCAGGC	0.597													17	97	---	---	---	---	PASS	A	6634877	A	A	6634877	3	1	119	1	0	0	0	0	1	0	0	0	15559	1175	41	2	695	2	TAS1R1	1	6634877	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	361667	6634877	242615744	4	43177										
SLC2A5	6518	broad.mit.edu	37	chr1	9097668	9097668	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgttccgaagtgacaggtgGaagctctttcagttcctcct	10	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:9097668G>T	uc001apo.2	-	12	1775	c.1483C>A	c.(1483-1485)CCA>ACA	p.P495T	SLC2A5_uc010nzy.1_Missense_Mutation_p.P436T|SLC2A5_uc010nzz.1_Missense_Mutation_p.P380T|SLC2A5_uc010oaa.1_Missense_Mutation_p.P451T|SLC2A5_uc010oab.1_Missense_Mutation_p.P495T	NM_003039	NP_003030	P22732	GTR5_HUMAN	solute carrier family 2 (facilitated	495	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	fructose transmembrane transporter activity|glucose transmembrane transporter activity			pancreas(2)|ovary(1)	3	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.78e-07)|COAD - Colon adenocarcinoma(227;8.83e-05)|Kidney(185;0.000286)|KIRC - Kidney renal clear cell carcinoma(229;0.00103)|STAD - Stomach adenocarcinoma(132;0.0019)|BRCA - Breast invasive adenocarcinoma(304;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		GTGACAGGTGGAAGCTCTTTC	0.493													19	281	---	---	---	---	PASS	T	9097668	T	T	9097668	3	4	119	1	0	0	0	0	1	0	0	0	14548	1174	41	2	26	2	SLC2A5	1	9097668	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2462791	9097668	240152953	5	43178										
SLC2A5	6518	broad.mit.edu	37	chr1	9118277	9118277	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatgacccaaaggcagctatCagggttgccagggcaagcac	13	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:9118277C>G	uc001apo.2	-	2	358	c.66G>C	c.(64-66)CTG>CTC	p.L22L	SLC2A5_uc010nzz.1_Intron|SLC2A5_uc010oaa.1_5'UTR|SLC2A5_uc010oab.1_Silent_p.L22L|SLC2A5_uc010oac.1_Silent_p.L22L|SLC2A5_uc001app.3_Silent_p.L22L	NM_003039	NP_003030	P22732	GTR5_HUMAN	solute carrier family 2 (facilitated	22	Helical; Name=1; (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	fructose transmembrane transporter activity|glucose transmembrane transporter activity			pancreas(2)|ovary(1)	3	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.78e-07)|COAD - Colon adenocarcinoma(227;8.83e-05)|Kidney(185;0.000286)|KIRC - Kidney renal clear cell carcinoma(229;0.00103)|STAD - Stomach adenocarcinoma(132;0.0019)|BRCA - Breast invasive adenocarcinoma(304;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		AGGCAGCTATCAGGGTTGCCA	0.582													7	56	---	---	---	---	PASS	G	9118277	G	G	9118277	2	3	119	1	0	0	0	0	0	0	0	1	14548	813	29	2		2	SLC2A5	1	9118277	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	20609	9118277	240132344	6	43179										
LOC649330	649330	broad.mit.edu	37	chr1	12907714	12907714	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctgatagacgttgacgtttCgagggcactacagccagagc	12	11	0	4	rs138482466		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:12907714C>T	uc009vno.2	-	1	524	c.429G>A	c.(427-429)TCG>TCA	p.S143S	HNRNPCL1_uc010obf.1_Silent_p.S143S	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	143							nucleic acid binding|nucleotide binding				0						GTTGACGTTTCGAGGGCACTA	0.483													48	199	---	---	---	---	PASS	T	12907714	T	T	12907714	2	4	119	1	0	0	0	0	0	0	0	1	8885	871	31	2		2	LOC649330	1	12907714	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	3789437	12907714	236342907	7	43180										
PRAMEF10	343071	broad.mit.edu	37	chr1	12954931	12954931	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcaggagaggaccctggctcCagaccatatggtccagaaat	12	11	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:12954931C>G	uc001auo.2	-	3	425	c.352G>C	c.(352-354)GGA>CGA	p.G118R		NM_001039361	NP_001034450	O60809	PRA10_HUMAN	PRAME family member 10	118											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		ACCCTGGCTCCAGACCATATG	0.522													33	173	---	---	---	---	PASS	G	12954931	G	G	12954931	3	3	119	1	0	0	0	0	1	0	0	0	12426	603	21	4	1080	4	PRAMEF10	1	12954931	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	47217	12954931	236295690	8	43181										
PRDM2	7799	broad.mit.edu	37	chr1	14107885	14107885	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtgttctgtttgtaaaaaaGaatttgcttttttgtgcaat	8	3	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:14107885G>C	uc001avi.2	+	8	4451	c.3595G>C	c.(3595-3597)GAA>CAA	p.E1199Q	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.E1199Q|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.E998Q|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1199	C2H2-type 6.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		TTGTAAAAAAGAATTTGCTTT	0.428													13	184	---	---	---	---	PASS	C	14107885	C	C	14107885	3	2	119	1	0	0	0	0	1	0	0	0	12458	943	33	2	3621	2	PRDM2	1	14107885	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1152954	14107885	235142736	9	43182										
PLEKHM2	23207	broad.mit.edu	37	chr1	16060319	16060319	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcccccacacggcgatccagGaagcctccaacaagaagaaa	8	15	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:16060319G>A	uc010obo.1	+	20	3177	c.2950G>A	c.(2950-2952)GAA>AAA	p.E984K	SLC25A34_uc001axb.1_5'Flank	NM_015164	NP_055979	Q8IWE5	PKHM2_HUMAN	pleckstrin homology domain containing, family M	984					Golgi organization	cytoplasm	kinesin binding			ovary(1)	1		Colorectal(325;0.000259)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00057)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		GGCGATCCAGGAAGCCTCCAA	0.637													16	82	---	---	---	---	PASS	A	16060319	A	A	16060319	3	1	119	1	0	0	0	0	1	0	0	0	12081	1175	41	2	3028	2	PLEKHM2	1	16060319	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1952434	16060319	233190302	10	43183										
ACTL8	81569	broad.mit.edu	37	chr1	18152793	18152793	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgcgccccctgctggtctccCacgtgatggcctgcgggggc	15	16	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:18152793C>G	uc001bat.2	+	3	1096	c.880C>G	c.(880-882)CAC>GAC	p.H294D		NM_030812	NP_110439	Q9H568	ACTL8_HUMAN	actin-like 8	294						cytoplasm|cytoskeleton				ovary(4)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00186)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;6.43e-06)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.00652)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)		GCTGGTCTCCCACGTGATGGC	0.652											OREG0013157	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	96	---	---	---	---	PASS	G	18152793	G	G	18152793	3	3	119	1	0	0	0	0	1	0	0	0	202	594	21	4	886	4	ACTL8	1	18152793	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2092474	18152793	231097828	11	43184										
ALDH4A1	8659	broad.mit.edu	37	chr1	19204081	19204081	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acgtcggccgagcggtgcacGaagtggaagttctttccgcc	14	12	1	0	rs150927009		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:19204081G>A	uc001bbb.2	-	10	1242	c.966C>T	c.(964-966)TTC>TTT	p.F322F	ALDH4A1_uc010ocu.1_Silent_p.F262F|ALDH4A1_uc001bbc.2_Silent_p.F322F	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	322					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	AGCGGTGCACGAAGTGGAAGT	0.657													3	21	---	---	---	---	PASS	A	19204081	A	A	19204081	2	1	119	1	0	0	0	0	0	0	0	1	501	1049	37	2		2	ALDH4A1	1	19204081	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1051288	19204081	230046540	12	43185										
HTR6	3362	broad.mit.edu	37	chr1	19992591	19992591	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgctgcagcgcctccatcctCaacctctgcctcatcagcct	6	19	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:19992591C>G	uc001bcl.2	+	1	812	c.345C>G	c.(343-345)CTC>CTG	p.L115L		NM_000871	NP_000862	P50406	5HT6R_HUMAN	5-hydroxytryptamine (serotonin) receptor 6	115	Helical; Name=3; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	histamine receptor activity|protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;5.81e-05)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00117)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)	Granisetron(DB00889)|Ondansetron(DB00904)|Sertindole(DB06144)	CCTCCATCCTCAACCTCTGCC	0.682													15	62	---	---	---	---	PASS	G	19992591	G	G	19992591	2	3	119	1	0	0	0	0	0	0	0	1	7451	813	29	2		2	HTR6	1	19992591	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	788510	19992591	229258030	13	43186										
KIF17	57576	broad.mit.edu	37	chr1	21042067	21042067	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccggcaggccctgcatggtGaaggacttcccgctgcctgt	13	14	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:21042067G>A	uc001bdr.3	-	2	415	c.297C>T	c.(295-297)TTC>TTT	p.F99F	KIF17_uc001bds.3_Silent_p.F99F	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	99	Kinesin-motor.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		CCTGCATGGTGAAGGACTTCC	0.652													23	54	---	---	---	---	PASS	A	21042067	A	A	21042067	2	1	119	1	0	0	0	0	0	0	0	1	8279	1281	45	2		2	KIF17	1	21042067	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1049476	21042067	228208554	14	43187										
EIF4G3	8672	broad.mit.edu	37	chr1	21268017	21268017	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccttcttgaatttaagttttGagaatccaaaatctcttctg	5	8	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:21268017G>C	uc001bec.2	-	9	1718	c.1462C>G	c.(1462-1464)CAA>GAA	p.Q488E	EIF4G3_uc010odi.1_Missense_Mutation_p.Q92E|EIF4G3_uc010odj.1_Missense_Mutation_p.Q487E|EIF4G3_uc009vpz.2_Intron|EIF4G3_uc001bed.2_Missense_Mutation_p.Q488E|EIF4G3_uc001bef.2_Missense_Mutation_p.Q487E|EIF4G3_uc001bee.2_Missense_Mutation_p.Q494E|EIF4G3_uc001beg.2_Missense_Mutation_p.Q487E|EIF4G3_uc010odk.1_Missense_Mutation_p.Q488E|EIF4G3_uc001beh.2_Missense_Mutation_p.Q499E	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	488					interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		TTTAAGTTTTGAGAATCCAAA	0.408													54	349	---	---	---	---	PASS	C	21268017	C	C	21268017	3	2	119	1	0	0	0	0	1	0	0	0	5038	1299	45	2	3391	2	EIF4G3	1	21268017	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	225950	21268017	227982604	15	43188										
RAP1GAP	5909	broad.mit.edu	37	chr1	21935429	21935429	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaattcctggaactcaggccCctggaaactcccagtgtgga	10	12	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:21935429C>A	uc001bex.2	-	16	1330	c.1072G>T	c.(1072-1074)GGG>TGG	p.G358W	RAP1GAP_uc001bev.2_Missense_Mutation_p.G358W|RAP1GAP_uc001bew.2_Missense_Mutation_p.G422W|RAP1GAP_uc001bey.2_Missense_Mutation_p.G358W	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	358	Rap-GAP.				regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		AACTCAGGCCCCTGGAAACTC	0.517													62	224	---	---	---	---	PASS	A	21935429	A	A	21935429	3	1	119	1	0	0	0	0	1	0	0	0	13037	637	22	3	1037	3	RAP1GAP	1	21935429	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	667412	21935429	227315192	16	43189										
SFN	2810	broad.mit.edu	37	chr1	27189850	27189850	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgctctcagtagcctataaGaacgtggtgggcggccagag	14	10	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:27189850G>C	uc001bnc.1	+	1	218	c.147G>C	c.(145-147)AAG>AAC	p.K49N	uc010ofi.1_RNA	NM_006142	NP_006133	P31947	1433S_HUMAN	stratifin	49					DNA damage response, signal transduction resulting in induction of apoptosis|negative regulation of caspase activity|release of cytochrome c from mitochondria	cytoplasm|extracellular space|nucleus	protein domain specific binding|protein kinase C inhibitor activity				0		all_cancers(24;1.23e-26)|all_epithelial(13;1.19e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;0.00017)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.1e-52)|Epithelial(14;2.31e-52)|OV - Ovarian serous cystadenocarcinoma(117;8.22e-30)|Colorectal(126;1.31e-09)|COAD - Colon adenocarcinoma(152;3.45e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000501)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)|GBM - Glioblastoma multiforme(114;0.0767)|Lung(427;0.215)		TAGCCTATAAGAACGTGGTGG	0.612													5	81	---	---	---	---	PASS	C	27189850	C	C	27189850	3	2	119	1	0	0	0	0	1	0	0	0	14159	933	33	2	149	2	SFN	1	27189850	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5254421	27189850	222060771	17	43190										
PHACTR4	65979	broad.mit.edu	37	chr1	28818243	28818243	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgtagaggtaacagatgctCaagattatgaccggcgagcc	12	8	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:28818243C>G	uc001bpw.2	+	12	2242	c.1960C>G	c.(1960-1962)CAA>GAA	p.Q654E	PHACTR4_uc001bpv.1_RNA|PHACTR4_uc001bpx.2_Missense_Mutation_p.Q638E|PHACTR4_uc001bpy.2_Missense_Mutation_p.Q664E|PHACTR4_uc001bpz.2_RNA	NM_001048183	NP_001041648	Q8IZ21	PHAR4_HUMAN	phosphatase and actin regulator 4 isoform 1	654							actin binding|protein phosphatase inhibitor activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;7.01e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;1.35e-21)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0144)|READ - Rectum adenocarcinoma(331;0.0649)		AACAGATGCTCAAGATTATGA	0.423													27	75	---	---	---	---	PASS	G	28818243	G	G	28818243	3	3	119	1	0	0	0	0	1	0	0	0	11812	827	29	2	2052	2	PHACTR4	1	28818243	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1628393	28818243	220432378	18	43191										
CSMD2	114784	broad.mit.edu	37	chr1	33987111	33987111	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccttggcccttgacagagcCttggtagatgaaggtggctc	14	10	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:33987111C>T	uc001bxn.1	-	67	10146	c.10117G>A	c.(10117-10119)GGC>AGC	p.G3373S	CSMD2_uc001bxm.1_Missense_Mutation_p.G3517S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3373	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TTGACAGAGCCTTGGTAGATG	0.587													19	69	---	---	---	---	PASS	T	33987111	T	T	33987111	3	4	119	1	0	0	0	0	1	0	0	0	3945	681	24	3	358	3	CSMD2	1	33987111	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5168868	33987111	215263510	19	43192										
ZMYM4	9202	broad.mit.edu	37	chr1	35836084	35836084	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcctgttctggttgtaaaaAaatcctccagaaggggcaaa	9	8	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:35836084A>G	uc001byt.2	+	7	1117	c.1037A>G	c.(1036-1038)AAA>AGA	p.K346R	ZMYM4_uc009vuu.2_Missense_Mutation_p.K314R|ZMYM4_uc001byu.2_Missense_Mutation_p.K22R|ZMYM4_uc009vuv.2_Missense_Mutation_p.K85R|uc001byv.2_5'Flank	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	346					multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GGTTGTAAAAAAATCCTCCAG	0.493													34	89	---	---	---	---	PASS	G	35836084	G	G	35836084	3	3	119	1	0	0	0	0	1	0	0	0	17699	14	1	5	1063	5	ZMYM4	1	35836084	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	1848973	35836084	213414537	20	43193										
THRAP3	9967	broad.mit.edu	37	chr1	36754981	36754981	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgatgaacccaaatttatgtCtaaagtcataggtgcaaaca	7	7	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:36754981C>T	uc001cae.3	+	5	1585	c.1361C>T	c.(1360-1362)TCT>TTT	p.S454F	THRAP3_uc001caf.3_Missense_Mutation_p.S454F|THRAP3_uc001cag.1_Missense_Mutation_p.S454F	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	454					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				AAATTTATGTCTAAAGTCATA	0.438			T	USP6	aneurysmal bone cysts								16	75	---	---	---	---	PASS	T	36754981	T	T	36754981	3	4	119	1	0	0	0	0	1	0	0	0	15871	913	32	2	1371	2	THRAP3	1	36754981	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	918897	36754981	212495640	21	43194										
GJA9	81025	broad.mit.edu	37	chr1	39341602	39341602	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atttctgcagcctggttgttCtgtattgcagatgaagccag	11	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:39341602C>G	uc001cct.1	-	2	450	c.169G>C	c.(169-171)GAA>CAA	p.E57Q	RRAGC_uc001ccr.2_5'Flank|MYCBP_uc001ccs.2_5'Flank	NM_030772	NP_110399	P57773	CXA9_HUMAN	gap junction protein, alpha 9, 59kDa	57	Extracellular (Potential).				cell communication	connexon complex|integral to membrane					0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			CCTGGTTGTTCTGTATTGCAG	0.468													9	401	---	---	---	---	PASS	G	39341602	G	G	39341602	3	3	119	1	0	0	0	0	1	0	0	0	6406	922	32	2	1382	2	GJA9	1	39341602	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2586621	39341602	209909019	22	43195										
HIVEP3	59269	broad.mit.edu	37	chr1	42047743	42047743	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attgggccatctctgccaggCgcaacctcttctttttgggt	10	12	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:42047743C>T	uc001cgz.3	-	4	3939	c.2726G>A	c.(2725-2727)CGC>CAC	p.R909H	HIVEP3_uc001cha.3_Missense_Mutation_p.R909H|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	909	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).|Nuclear localization signal (Potential).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CTCTGCCAGGCGCAACCTCTT	0.582													42	159	---	---	---	---	PASS	T	42047743	T	T	42047743	3	4	119	1	0	0	0	0	1	0	0	0	7188	768	27	1	4518	1	HIVEP3	1	42047743	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2706141	42047743	207202878	23	43196										
RIMKLA	284716	broad.mit.edu	37	chr1	42880512	42880512	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catcaacagtgggtctacctCtagtgaaagtgagcctgaac	10	10	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:42880512C>G	uc001chi.2	+	5	1181	c.1043C>G	c.(1042-1044)TCT>TGT	p.S348C		NM_173642	NP_775913	Q8IXN7	RIMKA_HUMAN	ribosomal modification protein rimK-like family	348					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						GGGTCTACCTCTAGTGAAAGT	0.562													38	99	---	---	---	---	PASS	G	42880512	G	G	42880512	3	3	119	1	0	0	0	0	1	0	0	0	13365	913	32	2	1061	2	RIMKLA	1	42880512	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	832769	42880512	206370109	24	43197										
SLC2A1	6513	broad.mit.edu	37	chr1	43395312	43395312	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctgcagcaccacagcgatGaggatgggctggcggtaggc	17	10	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:43395312G>C	uc001cik.2	-	6	1344	c.819C>G	c.(817-819)CTC>CTG	p.L273L		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	273	Helical; Name=7; (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	CCACAGCGATGAGGATGGGCT	0.627													15	63	---	---	---	---	PASS	C	43395312	C	C	43395312	2	2	119	1	0	0	0	0	0	0	0	1	14538	1277	45	2		2	SLC2A1	1	43395312	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	514800	43395312	205855309	25	43198										
KIAA0467	23334	broad.mit.edu	37	chr1	43909283	43909283	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catagcggcgccatcgccctGagtcagggtctgggagccga	15	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:43909283G>A	uc001cjk.1	+	47	6406	c.5944G>A	c.(5944-5946)GAG>AAG	p.E1982K	KIAA0467_uc001cjl.1_5'Flank	NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	2881						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCATCGCCCTGAGTCAGGGTC	0.617													28	95	---	---	---	---	PASS	A	43909283	A	A	43909283	3	1	119	1	0	0	0	0	1	0	0	0	8178	1291	45	2	6122	2	KIAA0467	1	43909283	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	513971	43909283	205341338	26	43199										
PTPRF	5792	broad.mit.edu	37	chr1	44084309	44084309	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcctcctgcaggtaaaatgTgatcagtactggccagcccg	10	12	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:44084309T>G	uc001cjr.2	+	26	4720	c.4380T>G	c.(4378-4380)TGT>TGG	p.C1460W	PTPRF_uc001cjs.2_Missense_Mutation_p.C1451W|PTPRF_uc001cju.2_Missense_Mutation_p.C849W|PTPRF_uc009vwt.2_Missense_Mutation_p.C1020W|PTPRF_uc001cjv.2_Missense_Mutation_p.C931W|PTPRF_uc001cjw.2_Missense_Mutation_p.C686W	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1460	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				AGGTAAAATGTGATCAGTACT	0.602													40	155	---	---	---	---	PASS	G	44084309	G	G	44084309	3	3	119	1	0	0	0	0	1	0	0	0	12801	1702	59	5	4474	5	PTPRF	1	44084309	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	175026	44084309	205166312	27	43200										
DPH2	1802	broad.mit.edu	37	chr1	44437296	44437296	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagtcggctgctcttggggtGggcaccaggtcaacccttct	14	12	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:44437296G>T	uc001ckz.2	+	4	917	c.722G>T	c.(721-723)TGG>TTG	p.W241L	DPH2_uc001cla.2_Intron|DPH2_uc010okk.1_Missense_Mutation_p.W106L|DPH2_uc001clb.2_Missense_Mutation_p.W165L	NM_001384	NP_001375	Q9BQC3	DPH2_HUMAN	diphthamide biosynthesis protein 2 isoform a	241					peptidyl-diphthamide biosynthetic process from peptidyl-histidine	cytoplasm				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				CTCTTGGGGTGGGCACCAGGT	0.602													22	109	---	---	---	---	PASS	T	44437296	T	T	44437296	3	4	119	1	0	0	0	0	1	0	0	0	4720	1357	47	3	736	3	DPH2	1	44437296	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	352987	44437296	204813325	28	43201										
CCDC24	149473	broad.mit.edu	37	chr1	44457911	44457911	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgttacgggcactgctccaaGaggctcgatcctctcaagcc	10	14	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:44457911G>C	uc001clj.2	+	3	325	c.154G>C	c.(154-156)GAG>CAG	p.E52Q	SLC6A9_uc009vxe.2_Intron|SLC6A9_uc010okm.1_Intron|CCDC24_uc001clk.2_Missense_Mutation_p.E8Q|CCDC24_uc009vxc.2_Intron	NM_152499	NP_689712	Q8N4L8	CCD24_HUMAN	coiled-coil domain containing 24	52											0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				ACTGCTCCAAGAGGCTCGATC	0.637													29	108	---	---	---	---	PASS	C	44457911	C	C	44457911	3	2	119	1	0	0	0	0	1	0	0	0	2799	943	33	2	160	2	CCDC24	1	44457911	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	20615	44457911	204792710	29	43202										
TMEM53	79639	broad.mit.edu	37	chr1	45120367	45120367	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cccggcgtgccaggcgtgccTccaccatgcgttctatgtct	11	16	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:45120367T>A	uc001cmc.2	-	3	734	c.698A>T	c.(697-699)GAG>GTG	p.E233V	TMEM53_uc001cmb.1_Intron|TMEM53_uc001cmd.2_Missense_Mutation_p.E160V|TMEM53_uc009vxh.1_Missense_Mutation_p.E116V|TMEM53_uc010ola.1_Missense_Mutation_p.E116V	NM_024587	NP_078863	Q6P2H8	TMM53_HUMAN	transmembrane protein 53	233						integral to membrane				ovary(2)	2	Acute lymphoblastic leukemia(166;0.155)					CAGGCGTGCCTCCACCATGCG	0.602													35	142	---	---	---	---	PASS	A	45120367	A	A	45120367	3	1	119	1	0	0	0	0	1	0	0	0	16176	1551	54	5	139	5	TMEM53	1	45120367	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	662456	45120367	204130254	30	43203										
PLK3	1263	broad.mit.edu	37	chr1	45268466	45268466	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cccccaactatgtggctccaGaagtgctgctgagacagggc	12	13	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:45268466G>A	uc001cmn.2	+	6	788	c.688G>A	c.(688-690)GAA>AAA	p.E230K	PLK3_uc001cmo.2_RNA	NM_004073	NP_004064	Q9H4B4	PLK3_HUMAN	polo-like kinase 3	230	Protein kinase.					membrane	ATP binding|protein binding|protein serine/threonine kinase activity				0	Acute lymphoblastic leukemia(166;0.155)					TGTGGCTCCAGAAGTGCTGCT	0.622													23	124	---	---	---	---	PASS	A	45268466	A	A	45268466	3	1	119	1	0	0	0	0	1	0	0	0	12097	943	33	2	710	2	PLK3	1	45268466	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	148099	45268466	203982155	31	43204										
KIAA0494	9813	broad.mit.edu	37	chr1	47173646	47173646	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctctccagattcaatcttctCaagttgtttttgcttgctga	6	10	4	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:47173646C>G	uc001cqk.3	-	3	1389	c.412G>C	c.(412-414)GAG>CAG	p.E138Q	KIAA0494_uc010omh.1_Missense_Mutation_p.E138Q|KIAA0494_uc010omj.1_5'UTR|KIAA0494_uc001cql.1_Missense_Mutation_p.E138Q	NM_014774	NP_055589	O75071	K0494_HUMAN	hypothetical protein LOC9813	138							calcium ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TCAATCTTCTCAAGTTGTTTT	0.338													11	170	---	---	---	---	PASS	G	47173646	G	G	47173646	3	3	119	1	0	0	0	0	1	0	0	0	8179	835	29	2	1111	2	KIAA0494	1	47173646	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1905180	47173646	202076975	32	43205										
SLC5A9	200010	broad.mit.edu	37	chr1	48694589	48694589	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cggcctggctgggacaggggCtgccggaggccttgccgtag	19	12	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:48694589C>A	uc001cro.2	+	3	354	c.302C>A	c.(301-303)GCT>GAT	p.A101D	SLC5A9_uc010oms.1_RNA|SLC5A9_uc001crn.2_Missense_Mutation_p.A101D|SLC5A9_uc010omt.1_Missense_Mutation_p.A94D|SLC5A9_uc001crp.2_Translation_Start_Site|SLC5A9_uc010omu.1_Translation_Start_Site	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	101	Extracellular (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						GGGACAGGGGCTGCCGGAGGC	0.577													18	95	---	---	---	---	PASS	A	48694589	A	A	48694589	3	1	119	1	0	0	0	0	1	0	0	0	14672	797	28	3	312	3	SLC5A9	1	48694589	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1520943	48694589	200556032	33	43206										
ORC1L	4998	broad.mit.edu	37	chr1	52854178	52854178	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggaagatcgcaggttcctgGacacagttctgggtgctctc	13	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:52854178G>A	uc001ctt.2	-	8	1538	c.1319C>T	c.(1318-1320)TCC>TTC	p.S440F	ORC1L_uc010oni.1_Missense_Mutation_p.S440F|ORC1L_uc001ctu.2_Missense_Mutation_p.S440F|ORC1L_uc009vzd.2_Missense_Mutation_p.S194F	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	440					cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						CAGGTTCCTGGACACAGTTCT	0.493													81	222	---	---	---	---	PASS	A	52854178	A	A	52854178	3	1	119	1	0	0	0	0	1	0	0	0	11261	1174	41	2	1306	2	ORC1L	1	52854178	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4159589	52854178	196396443	34	43207										
SCP2	6342	broad.mit.edu	37	chr1	53446098	53446098	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atatgagtaaagaagctgcaAgaaaatgctatgagaaatct	9	4	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:53446098A>T	uc001cur.1	+	10	977	c.856A>T	c.(856-858)AGA>TGA	p.R286*	SCP2_uc001cus.1_RNA|SCP2_uc010ono.1_Nonsense_Mutation_p.R205*|SCP2_uc010onp.1_Nonsense_Mutation_p.R262*|SCP2_uc009vzi.1_Nonsense_Mutation_p.R242*|SCP2_uc001cuq.1_Nonsense_Mutation_p.R242*	NM_002979	NP_002970	P22307	NLTP_HUMAN	sterol carrier protein 2 isoform 1 proprotein	286					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|lipid transport	mitochondrion|nucleus|peroxisomal matrix	propanoyl-CoA C-acyltransferase activity|propionyl-CoA C2-trimethyltridecanoyltransferase activity|protein binding|sterol binding			breast(1)	1						AGAAGCTGCAAGAAAATGCTA	0.353													35	178	---	---	---	---	PASS	T	53446098	T	T	53446098	4	4	119	1	0	0	0	0	0	1	0	0	13934	64	3	5	894	5	SCP2	1	53446098	Nonsense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	591920	53446098	195804523	35	43208										
MRPL37	51253	broad.mit.edu	37	chr1	54681865	54681865	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggtgcagagcgtgggcacgGatggacgtgtcttccatttc	15	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:54681865G>T	uc001cxa.3	+	6	1119	c.1042G>T	c.(1042-1044)GAT>TAT	p.D348Y	MRPL37_uc009vzp.2_Missense_Mutation_p.D217Y|MRPL37_uc001cxb.1_Missense_Mutation_p.D348Y|MRPL37_uc001cxc.3_Missense_Mutation_p.D36Y|MRPL37_uc010oob.1_RNA	NM_016491	NP_057575	Q9BZE1	RM37_HUMAN	mitochondrial ribosomal protein L37 precursor	348					translation	mitochondrial ribosome	structural constituent of ribosome				0						CGTGGGCACGGATGGACGTGT	0.517													37	195	---	---	---	---	PASS	T	54681865	T	T	54681865	3	4	119	1	0	0	0	0	1	0	0	0	9800	1174	41	2	1064	2	MRPL37	1	54681865	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1235767	54681865	194568756	36	43209										
C1orf175	374977	broad.mit.edu	37	chr1	55134563	55134563	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cccttcagaagagccaggatCtgctggaggcagaaggagaa	14	9	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:55134563C>T	uc010ooe.1	+	5	1666	c.1342C>T	c.(1342-1344)CTG>TTG	p.L448L	C1orf175_uc001cxq.2_RNA|C1orf175_uc010ooc.1_Silent_p.L16L|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_5'UTR|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc010oog.1_Silent_p.L448L|C1orf175_uc010ooh.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	448						integral to membrane	binding				0						GAGCCAGGATCTGCTGGAGGC	0.557													10	135	---	---	---	---	PASS	T	55134563	T	T	55134563	2	4	119	1	0	0	0	0	0	0	0	1	2016	912	32	2		2	C1orf175	1	55134563	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	452698	55134563	194116058	37	43210										
PARS2	25973	broad.mit.edu	37	chr1	55224180	55224180	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caggctgtaggtctgctgggCagcctctggggaggagtcaa	17	9	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:55224180C>A	uc001cxy.2	-	2	738	c.655G>T	c.(655-657)GCC>TCC	p.A219S		NM_152268	NP_689481	Q7L3T8	SYPM_HUMAN	prolyl-tRNA synthetase (mitochondrial)(putative)	219					prolyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|proline-tRNA ligase activity			ovary(2)	2					L-Proline(DB00172)	GTCTGCTGGGCAGCCTCTGGG	0.567													12	71	---	---	---	---	PASS	A	55224180	A	A	55224180	3	1	119	1	0	0	0	0	1	0	0	0	11467	710	25	3	776	3	PARS2	1	55224180	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	89617	55224180	194026441	38	43211										
HOOK1	51361	broad.mit.edu	37	chr1	60330868	60330868	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaggtccatgaagaattacaGaagaaacaagaactcattga	9	6	1	6			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:60330868G>C	uc009wad.2	+	19	1797	c.1695G>C	c.(1693-1695)CAG>CAC	p.Q565H	HOOK1_uc001czo.2_Missense_Mutation_p.Q565H|HOOK1_uc001czp.2_Intron|HOOK1_uc010oor.1_Missense_Mutation_p.Q523H	NM_015888	NP_056972	Q9UJC3	HOOK1_HUMAN	hook homolog 1	565	Potential.				early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|multicellular organismal development|protein transport	FHF complex|microtubule	identical protein binding			ovary(1)|breast(1)	2	all_cancers(7;0.000129)					AAGAATTACAGAAGAAACAAG	0.289													25	91	---	---	---	---	PASS	C	60330868	C	C	60330868	3	2	119	1	0	0	0	0	1	0	0	0	7282	933	33	2	1765	2	HOOK1	1	60330868	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5106688	60330868	188919753	39	43212										
CACHD1	57685	broad.mit.edu	37	chr1	65147010	65147010	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgacgacagccacgaagacaGaggcatcagtgagtattcag	12	10	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:65147010G>C	uc001dbo.1	+	25	3428	c.3323G>C	c.(3322-3324)AGA>ACA	p.R1108T	CACHD1_uc001dbp.1_Missense_Mutation_p.R863T|CACHD1_uc001dbq.1_Missense_Mutation_p.R863T|CACHD1_uc010opa.1_Missense_Mutation_p.R352T	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	1159	Cytoplasmic (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						CACGAAGACAGAGGCATCAGT	0.423													19	88	---	---	---	---	PASS	C	65147010	C	C	65147010	3	2	119	1	0	0	0	0	1	0	0	0	2537	942	33	2	3421	2	CACHD1	1	65147010	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4816142	65147010	184103611	40	43213										
DNAJC6	9829	broad.mit.edu	37	chr1	65852522	65852522	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgtgtccaagatggaaaaatCttcattcccttgaacatcac	6	11	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:65852522C>G	uc001dcd.1	+	8	1016	c.852C>G	c.(850-852)ATC>ATG	p.I284M	DNAJC6_uc001dcc.1_Missense_Mutation_p.I315M|DNAJC6_uc010opc.1_Missense_Mutation_p.I271M|DNAJC6_uc001dce.1_Missense_Mutation_p.I341M	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	284	C2 tensin-type.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						ATGGAAAAATCTTCATTCCCT	0.418													6	165	---	---	---	---	PASS	G	65852522	G	G	65852522	3	3	119	1	0	0	0	0	1	0	0	0	4653	903	32	2	882	2	DNAJC6	1	65852522	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	705512	65852522	183398099	41	43214										
C1orf141	400757	broad.mit.edu	37	chr1	67591441	67591441	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttatgatagttacatttttGattttgtaatgctgcatgac	8	4	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:67591441G>C	uc001ddl.1	-	3	338	c.227C>G	c.(226-228)TCA>TGA	p.S76*	C1orf141_uc001ddm.1_Nonsense_Mutation_p.S76*|C1orf141_uc001ddn.1_RNA	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	76										ovary(1)	1						TTACATTTTTGATTTTGTAAT	0.239													46	246	---	---	---	---	PASS	C	67591441	C	C	67591441	4	2	119	1	0	0	0	0	0	1	0	0	2001	1294	45	2	995	2	C1orf141	1	67591441	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1738919	67591441	181659180	42	43215										
LRRC7	57554	broad.mit.edu	37	chr1	70573482	70573482	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatgggccagcatcaaacctActgcagcctggtgataagat	11	10	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:70573482A>G	uc001dep.2	+	24	4509	c.4479A>G	c.(4477-4479)CTA>CTG	p.L1493L	LRRC7_uc009wbg.2_Silent_p.L777L|LRRC7_uc001deq.2_Silent_p.L687L	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1493	PDZ.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CATCAAACCTACTGCAGCCTG	0.408													27	200	---	---	---	---	PASS	G	70573482	G	G	70573482	2	3	119	1	0	0	0	0	0	0	0	1	9020	378	14	5		5	LRRC7	1	70573482	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	2982041	70573482	178677139	43	43216										
C1orf173	127254	broad.mit.edu	37	chr1	75037256	75037256	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtttcttcctcagcaacatCtgaaaaggaggaggctttat	10	8	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:75037256C>T	uc001dgg.2	-	14	4357	c.4138G>A	c.(4138-4140)GAT>AAT	p.D1380N		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1380	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TCAGCAACATCTGAAAAGGAG	0.517													43	217	---	---	---	---	PASS	T	75037256	T	T	75037256	3	4	119	1	0	0	0	0	1	0	0	0	2014	913	32	2	458	2	C1orf173	1	75037256	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4463774	75037256	174213365	44	43217										
ZZZ3	26009	broad.mit.edu	37	chr1	78098555	78098555	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtataagacatcgacaagctCgtttagtcccttgaaaatct	7	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:78098555C>T	uc001dhq.2	-	5	961	c.485G>A	c.(484-486)CGA>CAA	p.R162Q	ZZZ3_uc001dhr.2_Intron|ZZZ3_uc009wbz.1_Missense_Mutation_p.R162Q|ZZZ3_uc001dhp.2_Missense_Mutation_p.R162Q	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	162					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						TCGACAAGCTCGTTTAGTCCC	0.393													73	365	---	---	---	---	PASS	T	78098555	T	T	78098555	3	4	119	1	0	0	0	0	1	0	0	0	18253	884	31	2	2270	2	ZZZ3	1	78098555	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3061299	78098555	171152066	45	43218										
ELTD1	64123	broad.mit.edu	37	chr1	79386062	79386062	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccttgtaagaatattataatCtttaataccctaagggaaaa	5	6	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:79386062C>G	uc001diq.3	-	10	1423	c.1267G>C	c.(1267-1269)GAT>CAT	p.D423H		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	423	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)		ATATTATAATCTTTAATACCC	0.294													21	72	---	---	---	---	PASS	G	79386062	G	G	79386062	3	3	119	1	0	0	0	0	1	0	0	0	5084	913	32	2	829	2	ELTD1	1	79386062	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1287507	79386062	169864559	46	43219										
MCOLN3	55283	broad.mit.edu	37	chr1	85499857	85499857	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgcttgtagaagtgctgacaGattgccatagcagattgctt	11	8	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:85499857G>C	uc001dkp.2	-	4	567	c.474C>G	c.(472-474)ATC>ATG	p.I158M	MCOLN3_uc001dkq.2_Missense_Mutation_p.I102M|MCOLN3_uc001dkr.2_Missense_Mutation_p.I158M|MCOLN3_uc001dks.3_Missense_Mutation_p.I3M	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	158						integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		AGTGCTGACAGATTGCCATAG	0.403													34	135	---	---	---	---	PASS	C	85499857	C	C	85499857	3	2	119	1	0	0	0	0	1	0	0	0	9397	932	33	2	1227	2	MCOLN3	1	85499857	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6113795	85499857	163750764	47	43220										
SYDE2	84144	broad.mit.edu	37	chr1	85634814	85634814	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caaccatttgatgacattttCaaaggactttttgccattgc	6	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:85634814C>T	uc009wcm.2	-	5	2815	c.2766G>A	c.(2764-2766)TTG>TTA	p.L922L		NM_032184	NP_115560	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2	922	Rho-GAP.				activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|central_nervous_system(1)	2				all cancers(265;0.0126)|Epithelial(280;0.0336)		ATGACATTTTCAAAGGACTTT	0.398													41	201	---	---	---	---	PASS	T	85634814	T	T	85634814	2	4	119	1	0	0	0	0	0	0	0	1	15433	825	29	2		2	SYDE2	1	85634814	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	134957	85634814	163615807	48	43221										
COL24A1	255631	broad.mit.edu	37	chr1	86591095	86591095	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gataactgagatcttgatatCtggtgttcttgtcttttata	8	5	4	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:86591095C>G	uc001dlj.2	-	3	966	c.924G>C	c.(922-924)CAG>CAC	p.Q308H	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.Q308H	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	308					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)		ATCTTGATATCTGGTGTTCTT	0.378													38	171	---	---	---	---	PASS	G	86591095	G	G	86591095	3	3	119	1	0	0	0	0	1	0	0	0	3683	912	32	2	4452	2	COL24A1	1	86591095	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	956281	86591095	162659526	49	43222										
COL24A1	255631	broad.mit.edu	37	chr1	86591140	86591140	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtttcagaatcattttttatGatatttggaatgcttttgcc	7	5	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:86591140G>A	uc001dlj.2	-	3	921	c.879C>T	c.(877-879)ATC>ATT	p.I293I	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Silent_p.I293I	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	293					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)		CATTTTTTATGATATTTGGAA	0.388													35	186	---	---	---	---	PASS	A	86591140	A	A	86591140	2	1	119	1	0	0	0	0	0	0	0	1	3683	1280	45	2		2	COL24A1	1	86591140	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	45	86591140	162659481	50	43223										
COL24A1	255631	broad.mit.edu	37	chr1	86591631	86591631	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgtactcctaattgcagtcTatttttatttctaatgctga	5	7	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:86591631T>C	uc001dlj.2	-	3	430	c.388A>G	c.(388-390)AGA>GGA	p.R130G	COL24A1_uc010osd.1_Translation_Start_Site|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.R130G	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	130	TSP N-terminal.				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)		AATTGCAGTCTATTTTTATTT	0.368													23	100	---	---	---	---	PASS	C	86591631	C	C	86591631	3	2	119	1	0	0	0	0	1	0	0	0	3683	1530	53	5	4988	5	COL24A1	1	86591631	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	491	86591631	162658990	51	43224										
ABCD3	5825	broad.mit.edu	37	chr1	94930375	94930375	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtggtggacaaggtgtttttCtcaaggctcatacagattct	11	7	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:94930375C>T	uc001dqn.3	+	3	294	c.192C>T	c.(190-192)TTC>TTT	p.F64F	ABCD3_uc001dqm.3_Silent_p.F64F|ABCD3_uc010oto.1_Silent_p.F88F|ABCD3_uc010otp.1_5'UTR|ABCD3_uc009wdr.2_Silent_p.F64F	NM_002858	NP_002849	P28288	ABCD3_HUMAN	ATP-binding cassette, sub-family D, member 3	64	Targeting to peroxisomes.|Interaction with PEX19.				peroxisomal long-chain fatty acid import|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(1)	1		all_lung(203;0.000434)|Lung NSC(277;0.0019)		all cancers(265;0.0261)|Epithelial(280;0.165)		AGGTGTTTTTCTCAAGGCTCA	0.308													29	154	---	---	---	---	PASS	T	94930375	T	T	94930375	2	4	119	1	0	0	0	0	0	0	0	1	62	912	32	2		2	ABCD3	1	94930375	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	8338744	94930375	154320246	52	43225										
PTBP2	58155	broad.mit.edu	37	chr1	97270493	97270493	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggttagcaatttaaatgaaGaggttagtaaaataatctct	8	3	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:97270493G>C	uc001drq.2	+	9	1288	c.1042G>C	c.(1042-1044)GAG>CAG	p.E348Q	PTBP2_uc001drn.2_Missense_Mutation_p.E353Q|PTBP2_uc001dro.2_Missense_Mutation_p.E348Q|PTBP2_uc010otz.1_Missense_Mutation_p.E364Q|PTBP2_uc001drp.2_RNA|PTBP2_uc009wdw.2_Missense_Mutation_p.E296Q|PTBP2_uc001drr.2_Missense_Mutation_p.E353Q|PTBP2_uc010oua.1_Missense_Mutation_p.E356Q|PTBP2_uc001dru.2_RNA|PTBP2_uc001drs.1_5'UTR|PTBP2_uc001drt.2_5'UTR	NM_021190	NP_067013	Q9UKA9	PTBP2_HUMAN	polypyrimidine tract binding protein 2	348	RRM 3.						nucleotide binding				0		all_epithelial(167;2.95e-05)|all_lung(203;0.000396)|Lung NSC(277;0.00171)		all cancers(265;0.0582)|Epithelial(280;0.0716)|Colorectal(170;0.0879)|KIRC - Kidney renal clear cell carcinoma(1967;0.202)		TTTAAATGAAGAGGTTAGTAA	0.294													18	64	---	---	---	---	PASS	C	97270493	C	C	97270493	3	2	119	1	0	0	0	0	1	0	0	0	12726	943	33	2	1076	2	PTBP2	1	97270493	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2340118	97270493	151980128	53	43226										
AGL	178	broad.mit.edu	37	chr1	100379264	100379264	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccttggtgtgactatcagctCaggcctaattttaccatagc	8	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:100379264C>T	uc001dsi.1	+	30	4531	c.4131C>T	c.(4129-4131)CTC>CTT	p.L1377L	AGL_uc001dsj.1_Silent_p.L1377L|AGL_uc001dsk.1_Silent_p.L1377L|AGL_uc001dsl.1_Silent_p.L1377L|AGL_uc001dsm.1_Silent_p.L1361L|AGL_uc001dsn.1_Silent_p.L1360L	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	1377	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		ACTATCAGCTCAGGCCTAATT	0.373													57	224	---	---	---	---	PASS	T	100379264	T	T	100379264	2	4	119	1	0	0	0	0	0	0	0	1	384	813	29	2		2	AGL	1	100379264	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	3108771	100379264	148871357	54	43227										
DPH5	51611	broad.mit.edu	37	chr1	101487267	101487267	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctttaaaatattatctgcttCttgttccacttcttctctat	2	10	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:101487267C>G	uc001dts.2	-	3	337	c.190G>C	c.(190-192)GAA>CAA	p.E64Q	DPH5_uc001dtr.2_Missense_Mutation_p.E64Q|DPH5_uc001dtq.2_RNA|DPH5_uc001dtt.2_Missense_Mutation_p.E64Q|DPH5_uc001dtu.2_RNA|DPH5_uc001dtv.2_RNA|DPH5_uc001dtw.2_RNA|DPH5_uc001dtx.2_Missense_Mutation_p.E64Q|DPH5_uc001dty.2_5'UTR|DPH5_uc001dtz.2_RNA	NM_015958	NP_057042	Q9H2P9	DPH5_HUMAN	diphthine synthase isoform a	64					peptidyl-diphthamide biosynthetic process from peptidyl-histidine		diphthine synthase activity				0		all_epithelial(167;3.1e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0385)|all cancers(265;0.043)|COAD - Colon adenocarcinoma(174;0.151)|Colorectal(144;0.173)|Lung(183;0.198)		TTATCTGCTTCTTGTTCCACT	0.363													27	113	---	---	---	---	PASS	G	101487267	G	G	101487267	3	3	119	1	0	0	0	0	1	0	0	0	4723	922	32	2	691	2	DPH5	1	101487267	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1108003	101487267	147763354	55	43228										
S1PR1	1901	broad.mit.edu	37	chr1	101704702	101704702	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acctcggtggtgttcattctCatctgctgctttatcatcct	7	12	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:101704702C>T	uc001dud.2	+	2	676	c.162C>T	c.(160-162)CTC>CTT	p.L54L	S1PR1_uc009weg.2_Silent_p.L54L	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	54	Helical; Name=1; (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						TGTTCATTCTCATCTGCTGCT	0.438											OREG0013620	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	147	---	---	---	---	PASS	T	101704702	T	T	101704702	2	4	119	1	0	0	0	0	0	0	0	1	13793	813	29	2		2	S1PR1	1	101704702	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	217435	101704702	147545919	56	43229										
OLFM3	118427	broad.mit.edu	37	chr1	102290775	102290775	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcacggggatcaaaggcagGagctcgtccattttctcttt	11	10	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:102290775G>T	uc001duf.2	-	4	530	c.459C>A	c.(457-459)CTC>CTA	p.L153L	OLFM3_uc001dug.2_Silent_p.L133L|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_Silent_p.L58L|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	153	Potential.					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)		TCAAAGGCAGGAGCTCGTCCA	0.418													11	58	---	---	---	---	PASS	T	102290775	T	T	102290775	2	4	119	1	0	0	0	0	0	0	0	1	10854	1161	41	2		2	OLFM3	1	102290775	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	586073	102290775	146959846	57	43230										
COL11A1	1301	broad.mit.edu	37	chr1	103427758	103427758	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccaggaagacctctttcccCtgggaaaccacgtaatcctg	8	14	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:103427758C>T	uc001dul.2	-	40	3406	c.3088G>A	c.(3088-3090)GGG>AGG	p.G1030R	COL11A1_uc001duk.2_Missense_Mutation_p.G226R|COL11A1_uc001dum.2_Missense_Mutation_p.G1042R|COL11A1_uc001dun.2_Missense_Mutation_p.G991R|COL11A1_uc009weh.2_Missense_Mutation_p.G914R	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1030	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCTCTTTCCCCTGGGAAACCA	0.378													27	119	---	---	---	---	PASS	T	103427758	T	T	103427758	3	4	119	1	0	0	0	0	1	0	0	0	3667	681	24	3	2444	3	COL11A1	1	103427758	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1136983	103427758	145822863	58	43231										
COL11A1	1301	broad.mit.edu	37	chr1	103477982	103477982	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacctaccacaggacctggtCttccagttagacccattggg	9	13	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:103477982C>G	uc001dul.2	-	14	1934	c.1616G>C	c.(1615-1617)AGA>ACA	p.R539T	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Missense_Mutation_p.R551T|COL11A1_uc001dun.2_Missense_Mutation_p.R500T|COL11A1_uc009weh.2_Missense_Mutation_p.R423T	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	539	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		AGGACCTGGTCTTCCAGTTAG	0.398													3	91	---	---	---	---	PASS	G	103477982	G	G	103477982	3	3	119	1	0	0	0	0	1	0	0	0	3667	913	32	2	4020	2	COL11A1	1	103477982	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	50224	103477982	145772639	59	43232										
COL11A1	1301	broad.mit.edu	37	chr1	103483430	103483430	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccttgtagacctggaggaccCataataccctatagagaaac	8	11	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:103483430C>A	uc001dul.2	-	11	1677	c.1359G>T	c.(1357-1359)ATG>ATT	p.M453I	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Missense_Mutation_p.M465I|COL11A1_uc001dun.2_Missense_Mutation_p.M414I|COL11A1_uc009weh.2_Missense_Mutation_p.M337I	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	453	Triple-helical region (interrupted).				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CTGGAGGACCCATAATACCCT	0.413													46	221	---	---	---	---	PASS	A	103483430	A	A	103483430	3	1	119	1	0	0	0	0	1	0	0	0	3667	594	21	3	4289	3	COL11A1	1	103483430	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5448	103483430	145767191	60	43233										
GPR61	83873	broad.mit.edu	37	chr1	110085670	110085670	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtcctcacccatcccccagtCatcagggaactcttccactt	5	18	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:110085670C>T	uc001dxy.2	+	2	709	c.26C>T	c.(25-27)TCA>TTA	p.S9L		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	9	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		ATCCCCCAGTCATCAGGGAAC	0.632													11	41	---	---	---	---	PASS	T	110085670	T	T	110085670	3	4	119	1	0	0	0	0	1	0	0	0	6702	838	29	2	28	2	GPR61	1	110085670	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	6602240	110085670	139164951	61	43234										
CHIA	27159	broad.mit.edu	37	chr1	111861204	111861204	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatggacacaacttcatcctGagcaacccctccaacactgg	6	15	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:111861204G>C	uc001eas.2	+	9	922	c.819G>C	c.(817-819)CTG>CTC	p.L273L	CHIA_uc001ear.2_Silent_p.L165L|CHIA_uc001eaq.2_Silent_p.L165L|CHIA_uc009wgc.2_Silent_p.L165L|CHIA_uc001eat.2_Silent_p.L112L|CHIA_uc001eav.2_Silent_p.L112L|CHIA_uc001eau.2_Silent_p.L112L|CHIA_uc009wgd.2_Silent_p.L112L	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	273					apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		ACTTCATCCTGAGCAACCCCT	0.527													45	210	---	---	---	---	PASS	C	111861204	C	C	111861204	2	2	119	1	0	0	0	0	0	0	0	1	3342	1277	45	2		2	CHIA	1	111861204	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1775534	111861204	137389417	62	43235										
RSBN1	54665	broad.mit.edu	37	chr1	114308953	114308953	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cacaccgccgaaactgttttGaactgatgaatgacatttct	7	10	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:114308953G>C	uc001edq.2	-	7	2094	c.2058C>G	c.(2056-2058)TTC>TTG	p.F686L	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	686						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AAACTGTTTTGAACTGATGAA	0.423													48	213	---	---	---	---	PASS	C	114308953	C	C	114308953	3	2	119	1	0	0	0	0	1	0	0	0	13696	1281	45	2	354	2	RSBN1	1	114308953	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2447749	114308953	134941668	63	43236										
SPAG17	200162	broad.mit.edu	37	chr1	118609430	118609430	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caatgcaaacgttgtctattCattggattgtgaaagactaa	8	6	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:118609430C>T	uc001ehk.2	-	18	2546	c.2478G>A	c.(2476-2478)ATG>ATA	p.M826I		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	826						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GTTGTCTATTCATTGGATTGT	0.333													28	134	---	---	---	---	PASS	T	118609430	T	T	118609430	3	4	119	1	0	0	0	0	1	0	0	0	14979	826	29	2	4317	2	SPAG17	1	118609430	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4300477	118609430	130641191	64	43237										
PDE4DIP	9659	broad.mit.edu	37	chr1	144915496	144915496	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaagcaggccttgaatctcCatttcatgttccagcacttg	8	11	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:144915496C>G	uc001elw.3	-	14	2220	c.1929G>C	c.(1927-1929)ATG>ATC	p.M643I	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.M709I|PDE4DIP_uc001emc.1_Missense_Mutation_p.M643I|PDE4DIP_uc001emd.1_Missense_Mutation_p.M643I|PDE4DIP_uc001emb.1_Missense_Mutation_p.M806I|PDE4DIP_uc001eme.1_Missense_Mutation_p.M172I|PDE4DIP_uc001emf.1_Missense_Mutation_p.M428I	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	643	Potential.			M -> V (in Ref. 4; CAD91152).	cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CTTGAATCTCCATTTCATGTT	0.468			T	PDGFRB	MPD								56	624	---	---	---	---	PASS	G	144915496	G	G	144915496	3	3	119	1	0	0	0	0	1	0	0	0	11643	594	21	4	5245	4	PDE4DIP	1	144915496	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	26306066	144915496	104335125	65	43238										
SEC22B	9554	broad.mit.edu	37	chr1	145104002	145104002	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagatgtaccttggaagcagGagccatgacttttcagtgag	12	8	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:145104002G>A	uc001eml.1	+	4	310	c.170G>A	c.(169-171)GGA>GAA	p.G57E	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron	NM_004892	NP_004883	O75396	SC22B_HUMAN	SEC22 vesicle trafficking protein homolog B	57	Longin.|Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|melanosome	protein binding				0						TTGGAAGCAGGAGCCATGACT	0.368													7	39	---	---	---	---	PASS	A	145104002	A	A	145104002	3	1	119	1	0	0	0	0	1	0	0	0	13989	1174	41	2	176	2	SEC22B	1	145104002	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	188506	145104002	104146619	66	43239										
ITGA10	8515	broad.mit.edu	37	chr1	145536083	145536083	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggccagaggttgtcccctcgGaggctccggctcagtgtggg	17	12	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:145536083G>C	uc001eoa.2	+	17	2251	c.2175G>C	c.(2173-2175)CGG>CGC	p.R725R	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Silent_p.R594R|ITGA10_uc009wiw.2_Silent_p.R582R|ITGA10_uc010oyw.1_Silent_p.R670R	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	725	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TGTCCCCTCGGAGGCTCCGGC	0.557													43	165	---	---	---	---	PASS	C	145536083	C	C	145536083	2	2	119	1	0	0	0	0	0	0	0	1	7873	1161	41	2		2	ITGA10	1	145536083	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	432081	145536083	103714538	67	43240										
RNF115	27246	broad.mit.edu	37	chr1	145650499	145650499	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttagttttttaggtggtggcGgcagtcggatagacaatacc	13	6	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:145650499G>A	uc001eoj.2	+	3	382	c.178G>A	c.(178-180)GGC>AGC	p.G60S	NBPF10_uc001emp.3_Intron|RNF115_uc001eok.2_Missense_Mutation_p.G27S|RNF115_uc009wiy.2_5'UTR	NM_014455	NP_055270	Q9Y4L5	RN115_HUMAN	Rabring 7	60					protein autoubiquitination	cytosol	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1						AGGTGGTGGCGGCAGTCGGAT	0.403													20	99	---	---	---	---	PASS	A	145650499	A	A	145650499	3	1	119	1	0	0	0	0	1	0	0	0	13430	1116	39	1	188	1	RNF115	1	145650499	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	114416	145650499	103600122	68	43241										
HIST2H2AC	8338	broad.mit.edu	37	chr1	149858795	149858795	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccagctggccatccgcaacGacgaggaactgaacaagctg	11	13	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:149858795G>C	uc001etd.2	+	1	271	c.271G>C	c.(271-273)GAC>CAC	p.D91H	HIST2H2BE_uc001etc.2_5'Flank	NM_003517	NP_003508	Q16777	H2A2C_HUMAN	histone cluster 2, H2ac	91					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			CATCCGCAACGACGAGGAACT	0.597													18	112	---	---	---	---	PASS	C	149858795	C	C	149858795	3	2	119	1	0	0	0	0	1	0	0	0	7178	1058	37	2	273	2	HIST2H2AC	1	149858795	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4208296	149858795	99391826	69	43242										
ADAMTSL4	54507	broad.mit.edu	37	chr1	150529462	150529462	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttttttatcagtatgtcatCtcttcacctcctccaatcct	3	13	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:150529462C>T	uc001eux.2	+	11	2033	c.1797C>T	c.(1795-1797)ATC>ATT	p.I599I	ADAMTSL4_uc001euw.2_Silent_p.I599I|ADAMTSL4_uc009wlw.2_Silent_p.I622I|ADAMTSL4_uc010pcg.1_Intron|ADAMTSL4_uc009wlx.2_5'Flank	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	599					apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			AGTATGTCATCTCTTCACCTC	0.537													26	644	---	---	---	---	PASS	T	150529462	T	T	150529462	2	4	119	1	0	0	0	0	0	0	0	1	277	903	32	2		2	ADAMTSL4	1	150529462	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	670667	150529462	98721159	70	43243										
CTSS	1520	broad.mit.edu	37	chr1	150727603	150727603	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggaactctcagggaactcatCaaagacatcacttcttcact	6	12	6	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:150727603C>G	uc001evn.2	-	4	406	c.273G>C	c.(271-273)TTG>TTC	p.L91F	CTSS_uc010pcj.1_Intron|CTSS_uc001evo.1_Missense_Mutation_p.L91F	NM_004079	NP_004070	P25774	CATS_HUMAN	cathepsin S preproprotein	91					immune response|proteolysis	extracellular region|lysosome	cysteine-type endopeptidase activity				0	all_cancers(9;6.17e-52)|all_epithelial(9;9.7e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.00146)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0485)|Epithelial(6;5.02e-21)|all cancers(9;1.28e-20)|OV - Ovarian serous cystadenocarcinoma(6;1.09e-14)|BRCA - Breast invasive adenocarcinoma(12;0.00501)|LUSC - Lung squamous cell carcinoma(543;0.171)			GGGAACTCATCAAAGACATCA	0.294													15	335	---	---	---	---	PASS	G	150727603	G	G	150727603	3	3	119	1	0	0	0	0	1	0	0	0	4041	825	29	2	742	2	CTSS	1	150727603	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	198141	150727603	98523018	71	43244										
CGN	57530	broad.mit.edu	37	chr1	151501993	151501993	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagaacctccagctacaaaaGaccctccagcaactgcgaca	6	16	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:151501993G>C	uc009wmw.2	+	11	2208	c.2064G>C	c.(2062-2064)AAG>AAC	p.K688N		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	682	Glu-rich.|Potential.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			AGCTACAAAAGACCCTCCAGC	0.622													5	39	---	---	---	---	PASS	C	151501993	C	C	151501993	3	2	119	1	0	0	0	0	1	0	0	0	3303	933	33	2	2102	2	CGN	1	151501993	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	774390	151501993	97748628	72	43245										
FLG	2312	broad.mit.edu	37	chr1	152285429	152285429	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcctgagcagatccatgatGgtttctggaagcagacccag	11	11	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:152285429G>C	uc001ezu.1	-	3	1969	c.1933C>G	c.(1933-1935)CAT>GAT	p.H645D	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	645	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GATCCATGATGGTTTCTGGAA	0.557									Ichthyosis				270	480	---	---	---	---	PASS	C	152285429	C	C	152285429	3	2	119	1	0	0	0	0	1	0	0	0	5922	1348	47	4	10256	4	FLG	1	152285429	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	783436	152285429	96965192	73	43246										
CRNN	49860	broad.mit.edu	37	chr1	152383036	152383036	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggcttattctttcctggctCtgggactcagcttgcctgtc	11	12	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:152383036C>G	uc001ezx.2	-	3	596	c.522G>C	c.(520-522)CAG>CAC	p.Q174H		NM_016190	NP_057274	Q9UBG3	CRNN_HUMAN	cornulin	174	Gln-rich.				cell-cell adhesion|response to heat	cytoplasm|membrane	calcium ion binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTTCCTGGCTCTGGGACTCAG	0.577													128	522	---	---	---	---	PASS	G	152383036	G	G	152383036	3	3	119	1	0	0	0	0	1	0	0	0	3892	912	32	2	969	2	CRNN	1	152383036	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	97607	152383036	96867585	74	43247										
NPR1	4881	broad.mit.edu	37	chr1	153652175	153652175	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtgacgaagagcactgcttCttcctcgtggaggggctgtt	15	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:153652175C>T	uc001fcs.3	+	1	1012	c.591C>T	c.(589-591)TTC>TTT	p.F197F	NPR1_uc010pdz.1_5'Flank	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	197	Extracellular (Potential).				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	AGCACTGCTTCTTCCTCGTGG	0.662													11	21	---	---	---	---	PASS	T	153652175	T	T	153652175	2	4	119	1	0	0	0	0	0	0	0	1	10594	912	32	2		2	NPR1	1	153652175	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1269139	153652175	95598446	75	43248										
INTS3	65123	broad.mit.edu	37	chr1	153736693	153736693	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcctgcctgaggagattactGaggagtaaggctgattttcc	12	8	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:153736693G>A	uc009wom.2	+	19	2142	c.1921G>A	c.(1921-1923)GAG>AAG	p.E641K	INTS3_uc001fct.2_Missense_Mutation_p.E641K|INTS3_uc001fcu.2_Missense_Mutation_p.E333K|INTS3_uc001fcv.2_Missense_Mutation_p.E435K|INTS3_uc010peb.1_Missense_Mutation_p.E435K|INTS3_uc001fcw.2_Missense_Mutation_p.E154K|INTS3_uc010pec.1_Missense_Mutation_p.E154K|INTS3_uc001fcy.2_5'Flank|INTS3_uc001fcx.2_5'Flank	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	642					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GGAGATTACTGAGGAGTAAGG	0.537													50	86	---	---	---	---	PASS	A	153736693	A	A	153736693	3	1	119	1	0	0	0	0	1	0	0	0	7779	1291	45	2	1991	2	INTS3	1	153736693	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	84518	153736693	95513928	76	43249										
UBAP2L	9898	broad.mit.edu	37	chr1	154227363	154227363	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tacagaccacacaatctgttGaaggtgagtgttcttcaggc	10	9	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:154227363G>C	uc001fep.3	+	16	2073	c.1906G>C	c.(1906-1908)GAA>CAA	p.E636Q	UBAP2L_uc009wot.2_Missense_Mutation_p.E636Q|UBAP2L_uc010pek.1_Missense_Mutation_p.E628Q|UBAP2L_uc010pel.1_Missense_Mutation_p.E646Q|UBAP2L_uc010pen.1_Missense_Mutation_p.E550Q|UBAP2L_uc001feq.2_5'Flank|UBAP2L_uc001fer.2_5'Flank	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	636					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)			ACAATCTGTTGAAGGTGAGTG	0.408													18	169	---	---	---	---	PASS	C	154227363	C	C	154227363	3	2	119	1	0	0	0	0	1	0	0	0	16835	1291	45	2	1964	2	UBAP2L	1	154227363	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	490670	154227363	95023258	77	43250										
RUSC1	23623	broad.mit.edu	37	chr1	155292628	155292628	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgacaccgagctccccccctCggggtcgccgggcggctcct	13	20	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:155292628C>A	uc001fkj.2	+	2	1293	c.1064C>A	c.(1063-1065)TCG>TAG	p.S355*	RAG1AP1_uc010pey.1_Intron|C1orf104_uc001fkh.1_5'Flank|C1orf104_uc001fki.2_Intron|RUSC1_uc001fkk.2_Nonsense_Mutation_p.S355*|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_5'Flank|RUSC1_uc001fkl.2_5'Flank|RUSC1_uc001fkp.2_5'Flank|RUSC1_uc001fkq.2_5'Flank|RUSC1_uc010pgb.1_5'Flank|RUSC1_uc009wqp.1_5'Flank|RUSC1_uc001fkn.2_5'Flank|RUSC1_uc001fko.2_5'Flank|RUSC1_uc001fkr.2_5'Flank|RUSC1_uc001fks.2_5'Flank	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	355						cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			CTCCCCCCCTCGGGGTCGCCG	0.701													14	39	---	---	---	---	PASS	A	155292628	A	A	155292628	4	1	119	1	0	0	0	0	0	1	0	0	13750	893	31	2	1066	2	RUSC1	1	155292628	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1065265	155292628	93957993	78	43251										
ASH1L	55870	broad.mit.edu	37	chr1	155449335	155449335	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cactagtcccagaagactgaGagcaaataggtgatggaaga	12	7	0	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:155449335G>T	uc009wqq.2	-	3	3806	c.3326C>A	c.(3325-3327)TCT>TAT	p.S1109Y	ASH1L_uc001fkt.2_Missense_Mutation_p.S1109Y|ASH1L_uc009wqr.1_Missense_Mutation_p.S1109Y	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1109					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			AGAAGACTGAGAGCAAATAGG	0.473													23	159	---	---	---	---	PASS	T	155449335	T	T	155449335	3	4	119	1	0	0	0	0	1	0	0	0	1041	942	33	2	5672	2	ASH1L	1	155449335	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	156707	155449335	93801286	79	43252										
BCAN	63827	broad.mit.edu	37	chr1	156626090	156626090	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcaggtgactgtgtccccagCccctgccacaatggtgggac	12	14	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:156626090C>T	uc001fpp.2	+	9	2295	c.1959C>T	c.(1957-1959)AGC>AGT	p.S653S		NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	653	EGF-like.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTGTCCCCAGCCCCTGCCACA	0.642													23	179	---	---	---	---	PASS	T	156626090	T	T	156626090	2	4	119	1	0	0	0	0	0	0	0	1	1345	738	26	3		3	BCAN	1	156626090	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1176755	156626090	92624531	80	43253										
NES	10763	broad.mit.edu	37	chr1	156641855	156641855	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttctagagatctaaaggcctCtttgttctcatcttcaagag	7	9	6	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:156641855C>G	uc001fpq.2	-	4	2258	c.2125G>C	c.(2125-2127)GAG>CAG	p.E709Q		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	709	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CTAAAGGCCTCTTTGTTCTCA	0.468													10	271	---	---	---	---	PASS	G	156641855	G	G	156641855	3	3	119	1	0	0	0	0	1	0	0	0	10337	922	32	2	2744	2	NES	1	156641855	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	15765	156641855	92608766	81	43254										
NES	10763	broad.mit.edu	37	chr1	156642404	156642404	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttcctgtttagatcctcttCttcccatatttcctgctgca	4	14	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:156642404C>G	uc001fpq.2	-	4	1709	c.1576G>C	c.(1576-1578)GAA>CAA	p.E526Q		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	526	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGATCCTCTTCTTCCCATATT	0.488													15	384	---	---	---	---	PASS	G	156642404	G	G	156642404	3	3	119	1	0	0	0	0	1	0	0	0	10337	922	32	2	3293	2	NES	1	156642404	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	549	156642404	92608217	82	43255										
ISG20L2	81875	broad.mit.edu	37	chr1	156694046	156694046	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggggatatgggaggtgtcaCgggtgagggacttggggtga	23	3	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:156694046C>T	uc001fps.1	-	2	1103	c.842G>A	c.(841-843)CGT>CAT	p.R281H	ISG20L2_uc001fpt.1_Missense_Mutation_p.R281H	NM_030980	NP_112242	Q9H9L3	I20L2_HUMAN	interferon stimulated exonuclease gene	281	Exonuclease.				ribosome biogenesis	nucleolus	exonuclease activity|nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GGAGGTGTCACGGGTGAGGGA	0.542													9	205	---	---	---	---	PASS	T	156694046	T	T	156694046	3	4	119	1	0	0	0	0	1	0	0	0	7855	536	19	1	227	1	ISG20L2	1	156694046	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	51642	156694046	92556575	83	43256										
SH2D2A	9047	broad.mit.edu	37	chr1	156779563	156779563	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttgcttccaaagtttgattCttcggtcctcagggaaagtc	9	9	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:156779563C>G	uc001fqd.2	-	6	744	c.604G>C	c.(604-606)GAA>CAA	p.E202Q	SH2D2A_uc001fqc.1_Missense_Mutation_p.E174Q|SH2D2A_uc009wsh.2_Missense_Mutation_p.E212Q|SH2D2A_uc001fqe.2_Missense_Mutation_p.E184Q|SH2D2A_uc010phs.1_Missense_Mutation_p.E202Q	NM_003975	NP_003966	Q9NP31	SH22A_HUMAN	SH2 domain protein 2A isoform 2	202	Pro-rich.				angiogenesis|cell differentiation|signal transduction	cytoplasm|soluble fraction	SH3 domain binding|SH3/SH2 adaptor activity				0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					AAGTTTGATTCTTCGGTCCTC	0.587													120	312	---	---	---	---	PASS	G	156779563	G	G	156779563	3	3	119	1	0	0	0	0	1	0	0	0	14232	922	32	2	577	2	SH2D2A	1	156779563	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	85517	156779563	92471058	84	43257										
FCRL3	115352	broad.mit.edu	37	chr1	157648534	157648534	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccagtaatacacgtggtacaTtctcatagttttcttcatca	5	10	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:157648534T>A	uc001frb.2	-	15	2463	c.2171A>T	c.(2170-2172)AAT>ATT	p.N724I	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.N724I|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Missense_Mutation_p.N450I|FCRL3_uc001frc.1_Missense_Mutation_p.N724I	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	724	ITIM motif 4.|Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					ACGTGGTACATTCTCATAGTT	0.502													30	240	---	---	---	---	PASS	A	157648534	A	A	157648534	3	1	119	1	0	0	0	0	1	0	0	0	5796	1493	52	5	37	5	FCRL3	1	157648534	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	868971	157648534	91602087	85	43258										
KIRREL	55243	broad.mit.edu	37	chr1	158064513	158064513	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtgctctatgctgactaccGtgcccctggccctgcccgct	10	17	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:158064513G>A	uc001frn.3	+	15	2281	c.1877G>A	c.(1876-1878)CGT>CAT	p.R626H	KIRREL_uc010pib.1_Missense_Mutation_p.R526H|KIRREL_uc009wsq.2_Missense_Mutation_p.R462H|KIRREL_uc001fro.3_Missense_Mutation_p.R440H|uc001frp.2_5'Flank	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	626	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					GCTGACTACCGTGCCCCTGGC	0.647													8	108	---	---	---	---	PASS	A	158064513	A	A	158064513	3	1	119	1	0	0	0	0	1	0	0	0	8324	1145	40	1	1935	1	KIRREL	1	158064513	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	415979	158064513	91186108	86	43259										
OR10X1	128367	broad.mit.edu	37	chr1	158549092	158549092	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatacaagacagcctaataaCtgccagcatatggcagaaga	8	9	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:158549092C>G	uc010pin.1	-	1	598	c.598G>C	c.(598-600)GTT>CTT	p.V200L		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	200	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AGCCTAATAACTGCCAGCATA	0.443													9	162	---	---	---	---	PASS	G	158549092	G	G	158549092	3	3	119	1	0	0	0	0	1	0	0	0	10922	565	20	4	377	4	OR10X1	1	158549092	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	484579	158549092	90701529	87	43260										
SPTA1	6708	broad.mit.edu	37	chr1	158655095	158655095	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgacgcctctcctggatctCttctgctgtttccaaaacct	6	15	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:158655095C>G	uc001fst.1	-	2	266	c.67G>C	c.(67-69)GAG>CAG	p.E23Q		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	23	Spectrin 1.				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)					TCCTGGATCTCTTCTGCTGTT	0.383													44	243	---	---	---	---	PASS	G	158655095	G	G	158655095	3	3	119	1	0	0	0	0	1	0	0	0	15115	922	32	2	7396	2	SPTA1	1	158655095	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	106003	158655095	90595526	88	43261										
OR6K2	81448	broad.mit.edu	37	chr1	158669950	158669950	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attcgaaccacaaaatggcaGtgtagagatccaggcaatct	9	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:158669950G>T	uc001fsu.1	-	1	493	c.493C>A	c.(493-495)CTG>ATG	p.L165M		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					CAAAATGGCAGTGTAGAGATC	0.488													76	143	---	---	---	---	PASS	T	158669950	T	T	158669950	3	4	119	1	0	0	0	0	1	0	0	0	11202	1020	36	3	485	3	OR6K2	1	158669950	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	14855	158669950	90580671	89	43262										
OR6N1	128372	broad.mit.edu	37	chr1	158735813	158735813	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgagcactgtgcagatgatCtgcacataggagcagaggat	13	8	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:158735813C>A	uc010piq.1	-	1	660	c.660G>T	c.(658-660)CAG>CAT	p.Q220H		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TGCAGATGATCTGCACATAGG	0.488													14	318	---	---	---	---	PASS	A	158735813	A	A	158735813	3	1	119	1	0	0	0	0	1	0	0	0	11206	912	32	2	281	2	OR6N1	1	158735813	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	65863	158735813	90514808	90	43263										
IGSF8	93185	broad.mit.edu	37	chr1	160064893	160064893	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagtgcagtatctggggcctCgggcctatacaggaaccact	12	12	1	0	rs144014563	byFrequency	TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:160064893C>T	uc001fva.2	-	2	253	c.208G>A	c.(208-210)GAG>AAG	p.E70K	IGSF8_uc001fuz.2_Missense_Mutation_p.E70K|IGSF8_uc009wtf.2_Missense_Mutation_p.E70K	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	70	Ig-like C2-type 1.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			TCTGGGGCCTCGGGCCTATAC	0.587													14	124	---	---	---	---	PASS	T	160064893	T	T	160064893	3	4	119	1	0	0	0	0	1	0	0	0	7604	893	31	2	1653	2	IGSF8	1	160064893	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1329080	160064893	89185728	91	43264										
COPA	1314	broad.mit.edu	37	chr1	160262323	160262323	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggtaggcagggcagagcctGataggttgtgcggcctcggg	20	8	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:160262323G>C	uc009wti.2	-	28	3305	c.2911C>G	c.(2911-2913)CAG>GAG	p.Q971E	COPA_uc001fvv.3_Missense_Mutation_p.Q980E	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	971					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GGCAGAGCCTGATAGGTTGTG	0.507													31	245	---	---	---	---	PASS	C	160262323	C	C	160262323	3	2	119	1	0	0	0	0	1	0	0	0	3727	1299	45	2	787	2	COPA	1	160262323	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	197430	160262323	88988298	92	43265										
COPA	1314	broad.mit.edu	37	chr1	160281683	160281683	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caactgcatcacagctacatCtttggagctgttgaaatcca	7	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:160281683C>A	uc009wti.2	-	11	1445	c.1051G>T	c.(1051-1053)GAT>TAT	p.D351Y	COPA_uc001fvv.3_Missense_Mutation_p.D351Y|COPA_uc009wtj.1_Missense_Mutation_p.D297Y	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	351					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			ACAGCTACATCTTTGGAGCTG	0.473													7	89	---	---	---	---	PASS	A	160281683	A	A	160281683	3	1	119	1	0	0	0	0	1	0	0	0	3727	913	32	2	2742	2	COPA	1	160281683	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	19360	160281683	88968938	93	43266										
SLAMF6	114836	broad.mit.edu	37	chr1	160460006	160460006	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	accggggccctgtgttcgctGagtagacaaagatagggaat	14	8	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:160460006G>C	uc001fwe.1	-	5	838	c.778C>G	c.(778-780)CAG>GAG	p.Q260E	SLAMF6_uc001fwd.1_Missense_Mutation_p.Q260E|SLAMF6_uc010pjh.1_Missense_Mutation_p.Q211E|SLAMF6_uc010pji.1_Missense_Mutation_p.Q149E|SLAMF6_uc010pjj.1_Missense_Mutation_p.Q149E	NM_052931	NP_443163	Q96DU3	SLAF6_HUMAN	activating NK receptor precursor	260	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	all_cancers(52;1.05e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0923)			TGTGTTCGCTGAGTAGACAAA	0.488													7	359	---	---	---	---	PASS	C	160460006	C	C	160460006	3	2	119	1	0	0	0	0	1	0	0	0	14368	1299	45	2	236	2	SLAMF6	1	160460006	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	178323	160460006	88790615	94	43267										
USP21	27005	broad.mit.edu	37	chr1	161134932	161134932	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcatgtctacaatgactctCggtgagaatagcctcctatt	9	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:161134932C>T	uc010pke.1	+	13	1983	c.1606C>T	c.(1606-1608)CGT>TGT	p.R536C	USP21_uc010pkf.1_Missense_Mutation_p.R536C|PPOX_uc001fyj.2_5'Flank|PPOX_uc001fyn.2_5'Flank|PPOX_uc001fyg.2_5'Flank|PPOX_uc001fyl.2_5'Flank|PPOX_uc001fym.2_5'Flank|PPOX_uc001fyk.2_5'Flank|PPOX_uc001fyh.2_5'Flank|PPOX_uc010pkg.1_5'Flank|PPOX_uc009wuc.1_5'Flank|PPOX_uc010pkh.1_5'Flank|PPOX_uc001fyi.2_5'Flank	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	536					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CAATGACTCTCGGTGAGAATA	0.562													8	190	---	---	---	---	PASS	T	161134932	T	T	161134932	3	4	119	1	0	0	0	0	1	0	0	0	17050	898	31	2	1648	2	USP21	1	161134932	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	674926	161134932	88115689	95	43268										
FCGR3A	2214	broad.mit.edu	37	chr1	161518346	161518346	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgagatgaggctctcattgtGaaaccactgtgtggaattgt	12	6	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:161518346G>A	uc001gat.3	-	4	321	c.184C>T	c.(184-186)CAC>TAC	p.H62Y	FCGR3A_uc001gar.2_Missense_Mutation_p.H98Y|FCGR3A_uc001gas.2_Missense_Mutation_p.H97Y|FCGR3A_uc009wuh.2_Missense_Mutation_p.H61Y|FCGR3A_uc009wui.2_Missense_Mutation_p.H62Y	NM_001127595	NP_001121067	P08637	FCG3A_HUMAN	Fc fragment of IgG, low affinity IIIa, receptor	62	Ig-like C2-type 1.|Extracellular (Potential).				immune response|regulation of immune response	extracellular region|integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CTCTCATTGTGAAACCACTGT	0.552													11	739	---	---	---	---	PASS	A	161518346	A	A	161518346	3	1	119	1	0	0	0	0	1	0	0	0	5784	1290	45	2	592	2	FCGR3A	1	161518346	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	383414	161518346	87732275	96	43269										
ATF6	22926	broad.mit.edu	37	chr1	161833057	161833057	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatcaagacttttttgaagcCatccgcagaaggggagacac	10	9	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:161833057C>T	uc001gbr.2	+	14	1741	c.1674C>T	c.(1672-1674)GCC>GCT	p.A558A	ATF6_uc001gbq.1_Silent_p.A558A	NM_007348	NP_031374	P18850	ATF6A_HUMAN	activating transcription factor 6	558	Lumenal (Potential).				positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response|protein folding	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|skin(1)	3	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.00953)			TTTTTGAAGCCATCCGCAGAA	0.303													45	322	---	---	---	---	PASS	T	161833057	T	T	161833057	2	4	119	1	0	0	0	0	0	0	0	1	1084	581	21	3		3	ATF6	1	161833057	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	314711	161833057	87417564	97	43270										
OLFML2B	25903	broad.mit.edu	37	chr1	161967758	161967758	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggactgtgtgcatagcttccAtcaatgcctccctgggagac	11	12	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:161967758A>G	uc001gbu.2	-	6	1755	c.1331T>C	c.(1330-1332)ATG>ACG	p.M444T	OLFML2B_uc010pkq.1_Missense_Mutation_p.M445T	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	444										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			CATAGCTTCCATCAATGCCTC	0.632													22	202	---	---	---	---	PASS	G	161967758	G	G	161967758	3	3	119	1	0	0	0	0	1	0	0	0	10858	217	8	5	933	5	OLFML2B	1	161967758	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	134701	161967758	87282863	98	43271										
DUSP27	92235	broad.mit.edu	37	chr1	167086653	167086653	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctggtggaggacctgtacaaCcgcgtcagggagaagatgga	16	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:167086653C>T	uc001geb.1	+	3	294	c.294C>T	c.(292-294)AAC>AAT	p.N98N		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	98					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						ACCTGTACAACCGCGTCAGGG	0.597													15	8	---	---	---	---	PASS	T	167086653	T	T	167086653	2	4	119	1	0	0	0	0	0	0	0	1	4824	506	18	3		3	DUSP27	1	167086653	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	5118895	167086653	82163968	99	43272										
DUSP27	92235	broad.mit.edu	37	chr1	167086707	167086707	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tataatacgccctgtgtcctGgacctacagcgggccctggt	11	13	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:167086707G>C	uc001geb.1	+	3	348	c.348G>C	c.(346-348)CTG>CTC	p.L116L		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	116					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						CCTGTGTCCTGGACCTACAGC	0.572													15	18	---	---	---	---	PASS	C	167086707	C	C	167086707	2	2	119	1	0	0	0	0	0	0	0	1	4824	1335	47	4		4	DUSP27	1	167086707	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	54	167086707	82163914	100	43273										
NME7	29922	broad.mit.edu	37	chr1	169204413	169204413	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ataaacttcatagaattcctCaacattaacccgatccatat	2	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:169204413C>G	uc001gfu.2	-	9	1082	c.844G>C	c.(844-846)GAG>CAG	p.E282Q	NME7_uc010plq.1_RNA|NME7_uc001gft.2_Missense_Mutation_p.E246Q	NM_013330	NP_037462	Q9Y5B8	NDK7_HUMAN	nucleoside diphosphate kinase 7 isoform a	282					CTP biosynthetic process|GTP biosynthetic process|UTP biosynthetic process	centrosome	ATP binding|metal ion binding|nucleoside diphosphate kinase activity			central_nervous_system(1)	1	all_hematologic(923;0.208)					TAGAATTCCTCAACATTAACC	0.254													6	71	---	---	---	---	PASS	G	169204413	G	G	169204413	3	3	119	1	0	0	0	0	1	0	0	0	10496	835	29	2	302	2	NME7	1	169204413	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2117706	169204413	80046208	101	43274										
NME7	29922	broad.mit.edu	37	chr1	169267888	169267888	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgctttcagaagcatctgtgCgtgccactccagagtttgca	10	11	2	2	rs139755731		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:169267888C>T	uc001gfu.2	-	6	792	c.554G>A	c.(553-555)CGC>CAC	p.R185H	NME7_uc010plq.1_RNA|NME7_uc001gft.2_Missense_Mutation_p.R149H|NME7_uc001gfv.1_Missense_Mutation_p.R185H	NM_013330	NP_037462	Q9Y5B8	NDK7_HUMAN	nucleoside diphosphate kinase 7 isoform a	185					CTP biosynthetic process|GTP biosynthetic process|UTP biosynthetic process	centrosome	ATP binding|metal ion binding|nucleoside diphosphate kinase activity			central_nervous_system(1)	1	all_hematologic(923;0.208)					AGCATCTGTGCGTGCCACTCC	0.453													155	117	---	---	---	---	PASS	T	169267888	T	T	169267888	3	4	119	1	0	0	0	0	1	0	0	0	10496	768	27	1	604	1	NME7	1	169267888	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	63475	169267888	79982733	102	43275										
F5	2153	broad.mit.edu	37	chr1	169551757	169551757	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaggaagttacagaaagattCaaactggaaataaaatacaa	7	4	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:169551757C>G	uc001ggg.1	-	2	307	c.162G>C	c.(160-162)TTG>TTC	p.L54F	F5_uc010plr.1_Intron	NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	54	F5/8 type A 1.|Plastocyanin-like 1.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	CAGAAAGATTCAAACTGGAAA	0.289													4	97	---	---	---	---	PASS	G	169551757	G	G	169551757	3	3	119	1	0	0	0	0	1	0	0	0	5348	825	29	2	6608	2	F5	1	169551757	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	283869	169551757	79698864	103	43276										
SELP	6403	broad.mit.edu	37	chr1	169576241	169576241	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtagccaagcactgtagcaCacttgctcccaccaggagca	9	14	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:169576241C>T	uc001ggi.3	-	9	1530	c.1465G>A	c.(1465-1467)GTG>ATG	p.V489M	SELP_uc001ggh.2_Missense_Mutation_p.V324M|SELP_uc009wvr.2_Missense_Mutation_p.V489M	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	489	Extracellular (Potential).|Sushi 5.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	CACTGTAGCACACTTGCTCCC	0.502													85	93	---	---	---	---	PASS	T	169576241	T	T	169576241	3	4	119	1	0	0	0	0	1	0	0	0	14019	478	17	3	1059	3	SELP	1	169576241	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	24484	169576241	79674380	104	43277										
SELL	6402	broad.mit.edu	37	chr1	169672451	169672451	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatgattcacaaatggttttCttcttcccaattaactcagt	5	9	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:169672451C>G	uc001ggk.2	-	6	1095	c.897G>C	c.(895-897)AAG>AAC	p.K299N	C1orf112_uc001ggj.2_Intron|SELL_uc010pls.1_Missense_Mutation_p.K252N|SELL_uc001ggl.1_Missense_Mutation_p.K312N	NM_000655	NP_000646	P14151	LYAM1_HUMAN	selectin L precursor	299	Extracellular (Potential).|Sushi 2.				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	integral to plasma membrane	glycosphingolipid binding|heparin binding|protease binding|sugar binding				0	all_hematologic(923;0.208)					AAATGGTTTTCTTCTTCCCAA	0.423													59	45	---	---	---	---	PASS	G	169672451	G	G	169672451	3	3	119	1	0	0	0	0	1	0	0	0	14016	912	32	2	237	2	SELL	1	169672451	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	96210	169672451	79578170	105	43278										
BAT2L2	23215	broad.mit.edu	37	chr1	171504701	171504701	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctggctatttcaaacagtttCagaagtctttacctccacga	6	11	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:171504701C>T	uc010pmg.1	+	13	2268	c.2002C>T	c.(2002-2004)CAG>TAG	p.Q668*		NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	668	Gln-rich.						protein C-terminus binding				0						CAAACAGTTTCAGAAGTCTTT	0.433													16	427	---	---	---	---	PASS	T	171504701	T	T	171504701	4	4	119	1	0	0	0	0	0	1	0	0	1321	827	29	2	2048	2	BAT2L2	1	171504701	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1832250	171504701	77745920	106	43279										
DARS2	55157	broad.mit.edu	37	chr1	173814391	173814391	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acttaaaaaggaaagacattGaatccattagaaactttgca	6	6	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:173814391G>A	uc001gjh.1	+	12	1563	c.1153G>A	c.(1153-1155)GAA>AAA	p.E385K		NM_018122	NP_060592	Q6PI48	SYDM_HUMAN	aspartyl-tRNA synthetase 2, mitochondrial	385					tRNA aminoacylation for protein translation	mitochondrial matrix|nucleus	aspartate-tRNA ligase activity|ATP binding|nucleic acid binding			central_nervous_system(2)	2					L-Aspartic Acid(DB00128)	GAAAGACATTGAATCCATTAG	0.289													75	117	---	---	---	---	PASS	A	173814391	A	A	173814391	3	1	119	1	0	0	0	0	1	0	0	0	4242	1291	45	2	1199	2	DARS2	1	173814391	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2309690	173814391	75436230	107	43280										
PAPPA2	60676	broad.mit.edu	37	chr1	176659276	176659276	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caaaactttcattgcaggtgGcattgtcctcagcccagcat	8	12	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:176659276G>T	uc001gkz.2	+	5	3305	c.2141G>T	c.(2140-2142)GGC>GTC	p.G714V	PAPPA2_uc001gky.1_Missense_Mutation_p.G714V|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	714	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						ATTGCAGGTGGCATTGTCCTC	0.418													27	255	---	---	---	---	PASS	T	176659276	T	T	176659276	3	4	119	1	0	0	0	0	1	0	0	0	11433	1203	42	3	2155	3	PAPPA2	1	176659276	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2844885	176659276	72591345	108	43281										
PAPPA2	60676	broad.mit.edu	37	chr1	176762710	176762710	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttcaggtgcagtgtgttccCcattgtgtgtaatccccccc	9	13	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:176762710C>G	uc001gkz.2	+	20	6199	c.5035C>G	c.(5035-5037)CCA>GCA	p.P1679A	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1679	Sushi 5.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						AGTGTGTTCCCCATTGTGTGT	0.458													9	159	---	---	---	---	PASS	G	176762710	G	G	176762710	3	3	119	1	0	0	0	0	1	0	0	0	11433	623	22	4	5162	4	PAPPA2	1	176762710	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	103434	176762710	72487911	109	43282										
ASTN1	460	broad.mit.edu	37	chr1	176915110	176915110	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagccacttccttggaatggTtgttgtaaccaaagaacatc	8	10	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:176915110T>C	uc001glc.2	-	13	2413	c.2201A>G	c.(2200-2202)AAC>AGC	p.N734S	ASTN1_uc001glb.1_Missense_Mutation_p.N734S|ASTN1_uc001gld.1_Missense_Mutation_p.N734S|ASTN1_uc009wwx.1_Missense_Mutation_p.N734S	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	742					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						CTTGGAATGGTTGTTGTAACC	0.488													11	300	---	---	---	---	PASS	C	176915110	C	C	176915110	3	2	119	1	0	0	0	0	1	0	0	0	1064	1725	60	5	1731	5	ASTN1	1	176915110	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	152400	176915110	72335511	110	43283										
C1orf125	126859	broad.mit.edu	37	chr1	179380370	179380370	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtggcagaaagagatatctGgagctcagccacatatgaat	11	7	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:179380370G>C	uc001gmo.2	+	12	1326	c.1199G>C	c.(1198-1200)TGG>TCG	p.W400S	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmn.1_Missense_Mutation_p.W188S|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.W400S	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	400	Potential.										0						AGAGATATCTGGAGCTCAGCC	0.328													32	104	---	---	---	---	PASS	C	179380370	C	C	179380370	3	2	119	1	0	0	0	0	1	0	0	0	1993	1357	47	4	1241	4	C1orf125	1	179380370	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2465260	179380370	69870251	111	43284										
LAMC1	3915	broad.mit.edu	37	chr1	183105618	183105618	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcactgaagccaatgaaaaGaccagagaagcccagcaggc	10	11	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:183105618G>C	uc001gpy.3	+	25	4469	c.4212G>C	c.(4210-4212)AAG>AAC	p.K1404N		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	1404	Potential.|Domain II and I.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCAATGAAAAGACCAGAGAAG	0.567													20	48	---	---	---	---	PASS	C	183105618	C	C	183105618	3	2	119	1	0	0	0	0	1	0	0	0	8614	933	33	2	4310	2	LAMC1	1	183105618	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3725248	183105618	66145003	112	43285										
EDEM3	80267	broad.mit.edu	37	chr1	184690474	184690474	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccaagcaagacataggctttCaacagatattcataatatga	6	8	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:184690474C>A	uc010pok.1	-	9	1161	c.900G>T	c.(898-900)TTG>TTT	p.L300F	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.L300F|EDEM3_uc001gqy.2_Missense_Mutation_p.L223F	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	300					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						CATAGGCTTTCAACAGATATT	0.279													33	95	---	---	---	---	PASS	A	184690474	A	A	184690474	3	1	119	1	0	0	0	0	1	0	0	0	4913	825	29	2	1946	2	EDEM3	1	184690474	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1584856	184690474	64560147	113	43286										
HMCN1	83872	broad.mit.edu	37	chr1	186143736	186143736	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctatcgttgtgtatgcccaaGaggttatcggtctcaaggag	12	8	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:186143736G>C	uc001grq.1	+	103	16134	c.15905G>C	c.(15904-15906)AGA>ACA	p.R5302T	HMCN1_uc001grs.1_Missense_Mutation_p.R871T	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5302	EGF-like 5; calcium-binding (Potential).				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GTATGCCCAAGAGGTTATCGG	0.418													47	100	---	---	---	---	PASS	C	186143736	C	C	186143736	3	2	119	1	0	0	0	0	1	0	0	0	7220	942	33	2	16315	2	HMCN1	1	186143736	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1453262	186143736	63106885	114	43287										
TPR	7175	broad.mit.edu	37	chr1	186305729	186305729	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctgctcctcctgtgtggttCtatcttgaagatcctgacga	10	11	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:186305729C>G	uc001grv.2	-	33	4901	c.4604G>C	c.(4603-4605)AGA>ACA	p.R1535T		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1535	Potential.				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)		CTGTGTGGTTCTATCTTGAAG	0.413			T	NTRK1	papillary thyroid								6	210	---	---	---	---	PASS	G	186305729	G	G	186305729	3	3	119	1	0	0	0	0	1	0	0	0	16413	913	32	2	2563	2	TPR	1	186305729	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	161993	186305729	62944892	115	43288										
B3GALT2	8707	broad.mit.edu	37	chr1	193150056	193150056	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcctgttgaattatatcatGatattgtctgctttcttcca	5	8	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:193150056G>C	uc001gtc.3	-	2	1352	c.637C>G	c.(637-639)CAT>GAT	p.H213D	CDC73_uc001gtb.2_Intron	NM_003783	NP_003774	O43825	B3GT2_HUMAN	UDP-Gal:betaGlcNAc beta	213	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1						ATTATATCATGATATTGTCTG	0.353													58	162	---	---	---	---	PASS	C	193150056	C	C	193150056	3	2	119	1	0	0	0	0	1	0	0	0	1248	1290	45	2	635	2	B3GALT2	1	193150056	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6844327	193150056	56100565	116	43289										
CFHR5	81494	broad.mit.edu	37	chr1	196963300	196963300	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggagacgtgttgaaattctCctgcagaaaaaatcttataa	8	6	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:196963300C>A	uc001gts.3	+	4	649	c.521C>A	c.(520-522)TCC>TAC	p.S174Y		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	174	Sushi 3.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						TTGAAATTCTCCTGCAGAAAA	0.353													75	213	---	---	---	---	PASS	A	196963300	A	A	196963300	3	1	119	1	0	0	0	0	1	0	0	0	3288	855	30	2	535	2	CFHR5	1	196963300	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3813244	196963300	52287321	117	43290										
ZBTB41	360023	broad.mit.edu	37	chr1	197150130	197150130	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcttcacctttctcgtactGattttccacagataaagcaa	4	11	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:197150130G>A	uc001gtx.1	-	5	1733	c.1664C>T	c.(1663-1665)TCA>TTA	p.S555L	ZBTB41_uc009wyz.1_RNA	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	555	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TTCTCGTACTGATTTTCCACA	0.343													40	159	---	---	---	---	PASS	A	197150130	A	A	197150130	3	1	119	1	0	0	0	0	1	0	0	0	17540	1294	45	2	1089	2	ZBTB41	1	197150130	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	186830	197150130	52100491	118	43291										
ZBTB41	360023	broad.mit.edu	37	chr1	197169465	197169465	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcctggtaacagtgaagagCttcaggagttggtcttcctg	12	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:197169465C>T	uc001gtx.1	-	1	208	c.139G>A	c.(139-141)GCT>ACT	p.A47T	ZBTB41_uc009wyz.1_RNA|CRB1_uc010poz.1_5'Flank	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	47					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						CAGTGAAGAGCTTCAGGAGTT	0.388													5	208	---	---	---	---	PASS	T	197169465	T	T	197169465	3	4	119	1	0	0	0	0	1	0	0	0	17540	797	28	3	2630	3	ZBTB41	1	197169465	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	19335	197169465	52081156	119	43292										
CRB1	23418	broad.mit.edu	37	chr1	197396927	197396927	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgcttctacgtggaaaatCgaaaagggagatgtcatcta	10	7	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:197396927C>G	uc001gtz.2	+	7	2607	c.2472C>G	c.(2470-2472)ATC>ATG	p.I824M	CRB1_uc010poz.1_Missense_Mutation_p.I755M|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.I712M|CRB1_uc010ppb.1_Intron|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_Missense_Mutation_p.I305M|CRB1_uc001gub.1_Missense_Mutation_p.I473M	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	824	Extracellular (Potential).|Laminin G-like 2.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						CGTGGAAAATCGAAAAGGGAG	0.373													21	86	---	---	---	---	PASS	G	197396927	G	G	197396927	3	3	119	1	0	0	0	0	1	0	0	0	3848	874	31	2	2498	2	CRB1	1	197396927	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	227462	197396927	51853694	120	43293										
KDM5B	10765	broad.mit.edu	37	chr1	202701006	202701006	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agaagggggagtgcaaatatGaggttctgttgtcccagtca	14	6	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:202701006G>A	uc001gyf.2	-	24	4087	c.3971C>T	c.(3970-3972)TCA>TTA	p.S1324L	KDM5B_uc009xag.2_Missense_Mutation_p.S1360L|KDM5B_uc001gyg.1_Missense_Mutation_p.S1166L	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1324					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						GTGCAAATATGAGGTTCTGTT	0.418													49	125	---	---	---	---	PASS	A	202701006	A	A	202701006	3	1	119	1	0	0	0	0	1	0	0	0	8134	1294	45	2	679	2	KDM5B	1	202701006	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5304079	202701006	46549615	121	43294										
KDM5B	10765	broad.mit.edu	37	chr1	202702639	202702639	+	Nonsense_Mutation	SNP	G	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccctgacgaaagcagttgctGggctctgtgctgccagttca							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:202702639G>A	uc001gyf.2	-	23	3915	c.3799C>T	c.(3799-3801)CAG>TAG	p.Q1267*	KDM5B_uc009xag.2_Nonsense_Mutation_p.Q1303*|KDM5B_uc001gyg.1_Nonsense_Mutation_p.Q1109*	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1267					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						AGCAGTTGCTGGGCTCTGTGC	0.522													70	144	---	---	---	---	PASS	A	202702639	A	A	202702639	4	1	119	1	0	0	0	0	0	1	0	0	8134	1357	47	3	855	3	KDM5B	1	202702639	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1633	202702639	46547982	122	43295	814	2								
KDM5B	10765	broad.mit.edu	37	chr1	202702640	202702640	+	Silent	SNP	G	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctgacgaaagcagttgctgGgctctgtgctgccagttcac							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:202702640G>A	uc001gyf.2	-	23	3914	c.3798C>T	c.(3796-3798)GCC>GCT	p.A1266A	KDM5B_uc009xag.2_Silent_p.A1302A|KDM5B_uc001gyg.1_Silent_p.A1108A	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1266					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						GCAGTTGCTGGGCTCTGTGCT	0.522													71	140	---	---	---	---	PASS	A	202702640	A	A	202702640	2	1	119	1	0	0	0	0	0	0	0	1	8134	1219	43	3		3	KDM5B	1	202702640	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1	202702640	46547981	123	43296	814	2								
KDM5B	10765	broad.mit.edu	37	chr1	202704571	202704571	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acatacagctgaagcagtctCcttgctttcagttaaagctc	7	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:202704571C>G	uc001gyf.2	-	22	3525	c.3409G>C	c.(3409-3411)GAG>CAG	p.E1137Q	KDM5B_uc009xag.2_Missense_Mutation_p.E1173Q|KDM5B_uc001gyg.1_Missense_Mutation_p.E979Q	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1137					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						GAAGCAGTCTCCTTGCTTTCA	0.388													73	186	---	---	---	---	PASS	G	202704571	G	G	202704571	3	3	119	1	0	0	0	0	1	0	0	0	8134	864	30	2	1249	2	KDM5B	1	202704571	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1931	202704571	46546050	124	43297										
KDM5B	10765	broad.mit.edu	37	chr1	202709841	202709841	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaagccagtctctggctctCtgcactgagtctttcagagc	10	12	4	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:202709841C>G	uc001gyf.2	-	20	3161	c.3045G>C	c.(3043-3045)CAG>CAC	p.Q1015H	KDM5B_uc009xag.2_Missense_Mutation_p.Q1051H|KDM5B_uc001gyg.1_Missense_Mutation_p.Q857H	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1015					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						CTCTGGCTCTCTGCACTGAGT	0.458													48	101	---	---	---	---	PASS	G	202709841	G	G	202709841	3	3	119	1	0	0	0	0	1	0	0	0	8134	912	32	2	1621	2	KDM5B	1	202709841	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5270	202709841	46540780	125	43298										
KDM5B	10765	broad.mit.edu	37	chr1	202715077	202715077	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgaagcttcaatgcattcatCatagggtagagatcatccag	9	9	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:202715077C>T	uc001gyf.2	-	16	2348	c.2232G>A	c.(2230-2232)ATG>ATA	p.M744I	KDM5B_uc009xag.2_Missense_Mutation_p.M780I|KDM5B_uc001gyg.1_Missense_Mutation_p.M586I	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	744					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						ATGCATTCATCATAGGGTAGA	0.398													125	302	---	---	---	---	PASS	T	202715077	T	T	202715077	3	4	119	1	0	0	0	0	1	0	0	0	8134	826	29	2	2450	2	KDM5B	1	202715077	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5236	202715077	46535544	126	43299										
KDM5B	10765	broad.mit.edu	37	chr1	202729662	202729662	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caacagtagccggtcttcatCattgccactgccacataaaa	6	13	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:202729662C>T	uc001gyf.2	-	8	1074	c.958G>A	c.(958-960)GAT>AAT	p.D320N	KDM5B_uc009xag.2_Missense_Mutation_p.D356N|KDM5B_uc001gyg.1_Missense_Mutation_p.D162N	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	320	PHD-type 1.				negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						CGGTCTTCATCATTGCCACTG	0.438													30	64	---	---	---	---	PASS	T	202729662	T	T	202729662	3	4	119	1	0	0	0	0	1	0	0	0	8134	826	29	2	3756	2	KDM5B	1	202729662	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	14585	202729662	46520959	127	43300										
AVPR1B	553	broad.mit.edu	37	chr1	206224942	206224942	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccgccatcttcagcctccctCaagtcttcattttttccctg	4	17	5	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:206224942C>T	uc001hds.2	+	1	660	c.502C>T	c.(502-504)CAA>TAA	p.Q168*		NM_000707	NP_000698	P47901	V1BR_HUMAN	arginine vasopressin receptor 1B	168	Helical; Name=4; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity			ovary(2)|large_intestine(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.0312)		Desmopressin(DB00035)|Terlipressin(DB02638)|Vasopressin(DB00067)	CAGCCTCCCTCAAGTCTTCAT	0.652													37	76	---	---	---	---	PASS	T	206224942	T	T	206224942	4	4	119	1	0	0	0	0	0	1	0	0	1232	827	29	2	504	2	AVPR1B	1	206224942	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3495280	206224942	43025679	128	43301										
KCNH1	3756	broad.mit.edu	37	chr1	211256146	211256146	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccaggcgggagtgcttgtgGacattctcgcctttttgcac	13	11	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:211256146G>T	uc001hib.2	-	5	704	c.534C>A	c.(532-534)GTC>GTA	p.V178V	KCNH1_uc001hic.2_Silent_p.V178V	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	178	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		AGTGCTTGTGGACATTCTCGC	0.562													64	118	---	---	---	---	PASS	T	211256146	T	T	211256146	2	4	119	1	0	0	0	0	0	0	0	1	8031	1161	41	2		2	KCNH1	1	211256146	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	5031204	211256146	37994475	129	43302										
CENPF	1063	broad.mit.edu	37	chr1	214787149	214787149	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggctgcctacaagagctcttCagaaaattcaagagcttgaa	9	9	3	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:214787149C>T	uc001hkm.2	+	2	226	c.52C>T	c.(52-54)CAG>TAG	p.Q18*		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	18	Interaction with SNAP25 and required for localization to the cytoplasm (By similarity).|Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		AAGAGCTCTTCAGAAAATTCA	0.433													46	122	---	---	---	---	PASS	T	214787149	T	T	214787149	4	4	119	1	0	0	0	0	0	1	0	0	3231	827	29	2	54	2	CENPF	1	214787149	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3531003	214787149	34463472	130	43303										
USH2A	7399	broad.mit.edu	37	chr1	216420010	216420010	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgggtcacaaatggtcccaGgtaatgtccccaaggaatca	10	10	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:216420010G>T	uc001hku.1	-	13	3113	c.2726C>A	c.(2725-2727)CCT>CAT	p.P909H	USH2A_uc001hkv.2_Missense_Mutation_p.P909H	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	909	Laminin EGF-like 8.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AATGGTCCCAGGTAATGTCCC	0.458										HNSCC(13;0.011)			92	230	---	---	---	---	PASS	T	216420010	T	T	216420010	3	4	119	1	0	0	0	0	1	0	0	0	17033	1000	35	3	13136	3	USH2A	1	216420010	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1632861	216420010	32830611	131	43304										
TGFB2	7042	broad.mit.edu	37	chr1	218614660	218614660	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttggcaaaacacccaagattGaacagctttctaatatgatt	6	8	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:218614660G>C	uc001hlm.2	+	7	1854	c.1201G>C	c.(1201-1203)GAA>CAA	p.E401Q	TGFB2_uc001hln.2_Missense_Mutation_p.E429Q|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	401					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		ACCCAAGATTGAACAGCTTTC	0.328													43	140	---	---	---	---	PASS	C	218614660	C	C	218614660	3	2	119	1	0	0	0	0	1	0	0	0	15815	1291	45	2	1315	2	TGFB2	1	218614660	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2194650	218614660	30635961	132	43305										
TAF1A	9015	broad.mit.edu	37	chr1	222761894	222761894	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcccttttaattcttcactGaaatcactcatacctattac	3	12	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:222761894G>C	uc009xdz.1	-	2	201	c.12C>G	c.(10-12)TTC>TTG	p.F4L	TAF1A_uc001hni.1_5'UTR|TAF1A_uc001hnj.2_Missense_Mutation_p.F4L|TAF1A_uc001hnk.2_5'UTR|TAF1A_uc010pur.1_Missense_Mutation_p.F4L	NM_139352	NP_647603	Q15573	TAF1A_HUMAN	TBP-associated factor 1A isoform 2	4					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	RNA polymerase I transcription factor complex	DNA binding				0				GBM - Glioblastoma multiforme(131;0.0186)		ATTCTTCACTGAAATCACTCA	0.383													4	292	---	---	---	---	PASS	C	222761894	C	C	222761894	3	2	119	1	0	0	0	0	1	0	0	0	15516	1281	45	2	1380	2	TAF1A	1	222761894	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4147234	222761894	26488727	133	43306										
MIA3	375056	broad.mit.edu	37	chr1	222801268	222801268	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttttgaagaaatgctgcaaGataaactaaaagtgccagaa	8	6	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:222801268G>A	uc001hnl.2	+	4	715	c.706G>A	c.(706-708)GAT>AAT	p.D236N	MIA3_uc009xea.1_Missense_Mutation_p.D72N	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	236	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		AATGCTGCAAGATAAACTAAA	0.383													31	80	---	---	---	---	PASS	A	222801268	A	A	222801268	3	1	119	1	0	0	0	0	1	0	0	0	9565	942	33	2	720	2	MIA3	1	222801268	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	39374	222801268	26449353	134	43307										
OBSCN	84033	broad.mit.edu	37	chr1	228401979	228401979	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgggccccgtccactggctgCggaaccaggaggaagtggtg	17	11	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:228401979C>A	uc009xez.1	+	4	1407	c.1363C>A	c.(1363-1365)CGG>AGG	p.R455R	OBSCN_uc001hsn.2_Silent_p.R455R|uc001hsm.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	455	Ig-like 5.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCACTGGCTGCGGAACCAGGA	0.697													16	47	---	---	---	---	PASS	A	228401979	A	A	228401979	2	1	119	1	0	0	0	0	0	0	0	1	10812	759	27	1		1	OBSCN	1	228401979	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	5600711	228401979	20848642	135	43308										
TRIM17	51127	broad.mit.edu	37	chr1	228596932	228596932	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgcacacagtcctgggtctgGttgggggggcaacctctggg	17	10	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:228596932G>T	uc001hsu.2	-	6	1209	c.824C>A	c.(823-825)ACC>AAC	p.T275N	TRIM11_uc001hss.2_5'Flank|TRIM11_uc010pvx.1_5'Flank|TRIM11_uc001hst.1_5'Flank|TRIM17_uc001hsv.2_Missense_Mutation_p.T275N|TRIM17_uc001hsw.2_Missense_Mutation_p.T248N|TRIM17_uc009xfb.2_Missense_Mutation_p.T275N	NM_016102	NP_057186	Q9Y577	TRI17_HUMAN	tripartite motif-containing 17 isoform 1	275					protein autoubiquitination	intracellular	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Prostate(94;0.0724)				CCTGGGTCTGGTTGGGGGGGC	0.582													67	218	---	---	---	---	PASS	T	228596932	T	T	228596932	3	4	119	1	0	0	0	0	1	0	0	0	16490	1261	44	3	766	3	TRIM17	1	228596932	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	194953	228596932	20653689	136	43309										
DISC1	27185	broad.mit.edu	37	chr1	232172460	232172460	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctctcaggagggagctccaGatggtgaaggaaactctgca	13	9	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:232172460G>C	uc001huz.2	+	13	2501	c.2448G>C	c.(2446-2448)CAG>CAC	p.Q816H	DISC1_uc001hva.2_Missense_Mutation_p.Q794H	NM_018662	NP_061132	Q9NRI5	DISC1_HUMAN	disrupted in schizophrenia 1 isoform L	816	Necessary and sufficient for interaction with PCNT and localization at the centrosome.|Interaction with NDEL1.|Interaction with ATF4 and ATF5.|Interaction with PAFAH1B1.|Potential.				microtubule cytoskeleton organization|neuron migration|positive regulation of neuroblast proliferation|positive regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	centrosome|microtubule	protein binding			skin(1)	1		all_cancers(173;0.0208)|Prostate(94;0.0975)				GGGAGCTCCAGATGGTGAAGG	0.582													15	32	---	---	---	---	PASS	C	232172460	C	C	232172460	3	2	119	1	0	0	0	0	1	0	0	0	4538	933	33	2	3339	2	DISC1	1	232172460	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3575528	232172460	17078161	137	43310										
LYST	1130	broad.mit.edu	37	chr1	235944340	235944340	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acagataaaaggcctcttgtGaaccaaccttagctcctgaa	7	11	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:235944340G>C	uc001hxj.2	-	16	5214	c.5039C>G	c.(5038-5040)TCA>TGA	p.S1680*	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	1680					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GGCCTCTTGTGAACCAACCTT	0.343									Chediak-Higashi_syndrome				23	66	---	---	---	---	PASS	C	235944340	C	C	235944340	4	2	119	1	0	0	0	0	0	1	0	0	9128	1294	45	2	6518	2	LYST	1	235944340	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3771880	235944340	13306281	138	43311										
RYR2	6262	broad.mit.edu	37	chr1	237780608	237780608	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgcctactgcttcagtaccTctgtgactgccaggtccggc	11	14	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:237780608T>A	uc001hyl.1	+	38	5858	c.5738T>A	c.(5737-5739)CTC>CAC	p.L1913H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1913	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CTTCAGTACCTCTGTGACTGC	0.378													7	27	---	---	---	---	PASS	A	237780608	A	A	237780608	3	1	119	1	0	0	0	0	1	0	0	0	13769	1551	54	5	5888	5	RYR2	1	237780608	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	1836268	237780608	11470013	139	43312										
GREM2	64388	broad.mit.edu	37	chr1	240656472	240656472	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccgcgggatgtagaaggagtTgcactggccgtagcagaagc	16	9	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:240656472T>G	uc001hys.2	-	2	584	c.304A>C	c.(304-306)AAC>CAC	p.N102H		NM_022469	NP_071914	Q9H772	GREM2_HUMAN	gremlin 2 precursor	102	CTCK.				BMP signaling pathway	extracellular space	cytokine activity				0		all_cancers(173;0.0196)	OV - Ovarian serous cystadenocarcinoma(106;0.0123)			TAGAAGGAGTTGCACTGGCCG	0.647													12	73	---	---	---	---	PASS	G	240656472	G	G	240656472	3	3	119	1	0	0	0	0	1	0	0	0	6762	1812	63	5	206	5	GREM2	1	240656472	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	2875864	240656472	8594149	140	43313										
OPN3	23596	broad.mit.edu	37	chr1	241767865	241767865	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taggccagcacggttagggtGgcaatggaaacaatccctgc	13	10	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:241767865G>C	uc001hza.2	-	2	535	c.390C>G	c.(388-390)GCC>GCG	p.A130A	OPN3_uc001hzb.2_RNA|OPN3_uc001hzc.2_Intron	NM_014322	NP_055137	Q9H1Y3	OPN3_HUMAN	opsin 3	130	Helical; Name=3; (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|visual perception	integral to plasma membrane	G-protein coupled photoreceptor activity				0	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			CGGTTAGGGTGGCAATGGAAA	0.498													9	38	---	---	---	---	PASS	C	241767865	C	C	241767865	2	2	119	1	0	0	0	0	0	0	0	1	10881	1335	47	4		4	OPN3	1	241767865	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1111393	241767865	7482756	141	43314										
C1orf100	200159	broad.mit.edu	37	chr1	244538705	244538705	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcaccaaggaagagacgttCaaggctattaccctgggcag	11	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:244538705C>G	uc001iah.2	+	3	201	c.88C>G	c.(88-90)CAA>GAA	p.Q30E	C1orf100_uc001iai.2_Missense_Mutation_p.Q30E	NM_001012970	NP_001012988	Q5SVJ3	CA100_HUMAN	hypothetical protein LOC200159	30											0	all_cancers(71;3.94e-05)|all_epithelial(71;0.000138)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|all_lung(81;0.0736)|Ovarian(71;0.0761)|Lung NSC(105;0.103)		all cancers(7;8.19e-08)|GBM - Glioblastoma multiforme(7;2.05e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.000984)			AAGAGACGTTCAAGGCTATTA	0.458													32	117	---	---	---	---	PASS	G	244538705	G	G	244538705	3	3	119	1	0	0	0	0	1	0	0	0	1975	827	29	2	94	2	C1orf100	1	244538705	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2770840	244538705	4711916	142	43315										
NLRP3	114548	broad.mit.edu	37	chr1	247592978	247592978	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taactgaattggacctcagtGacaattctctgggggaccca	10	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:247592978G>T	uc001icr.2	+	6	2386	c.2248G>T	c.(2248-2250)GAC>TAC	p.D750Y	NLRP3_uc001ics.2_Missense_Mutation_p.D750Y|NLRP3_uc001icu.2_Missense_Mutation_p.D750Y|NLRP3_uc001icw.2_Intron|NLRP3_uc001icv.2_Intron|NLRP3_uc010pyw.1_Missense_Mutation_p.D748Y	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	750	LRR 1.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			GGACCTCAGTGACAATTCTCT	0.512													12	171	---	---	---	---	PASS	T	247592978	T	T	247592978	3	4	119	1	0	0	0	0	1	0	0	0	10478	1290	45	2	2262	2	NLRP3	1	247592978	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3054273	247592978	1657643	143	43316										
OR2G2	81470	broad.mit.edu	37	chr1	247752339	247752339	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcctctggctacattgcccaCgcagtgttgaggattaagtc	10	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:247752339C>T	uc010pyy.1	+	1	678	c.678C>T	c.(676-678)CAC>CAT	p.H226H		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	226	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			ACATTGCCCACGCAGTGTTGA	0.423													52	132	---	---	---	---	PASS	T	247752339	T	T	247752339	2	4	119	1	0	0	0	0	0	0	0	1	10998	535	19	1		1	OR2G2	1	247752339	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	159361	247752339	1498282	144	43317										
OR6F1	343169	broad.mit.edu	37	chr1	247875190	247875190	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttccttattacgaagcgtatAgatgaaggggtttaaaactg	10	5	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:247875190A>T	uc001idj.1	-	1	868	c.868T>A	c.(868-870)TAT>AAT	p.Y290N		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	290	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			CGAAGCGTATAGATGAAGGGG	0.443													68	172	---	---	---	---	PASS	T	247875190	T	T	247875190	3	4	119	1	0	0	0	0	1	0	0	0	11201	420	15	5	62	5	OR6F1	1	247875190	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	122851	247875190	1375431	145	43318										
OR2G6	391211	broad.mit.edu	37	chr1	248685476	248685476	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtcatcgcacactggatcatAttttctgtgaggtgccagtg	11	9	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:248685476A>T	uc001ien.1	+	1	529	c.529A>T	c.(529-531)ATT>TTT	p.I177F		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	177	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ACTGGATCATATTTTCTGTGA	0.537													35	90	---	---	---	---	PASS	T	248685476	T	T	248685476	3	4	119	1	0	0	0	0	1	0	0	0	11000	449	16	5	531	5	OR2G6	1	248685476	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	810286	248685476	565145	146	43319										
OR2T29	343563	broad.mit.edu	37	chr1	248722743	248722743	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtctgaagagtcccatgaggAtgaaatccaaccttccagtg	10	10	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:248722743A>C	uc001ieo.1	-	1	32	c.32T>G	c.(31-33)ATC>AGC	p.I11S		NM_001004694	NP_001004694	Q8NH02	O2T29_HUMAN	olfactory receptor, family 2, subfamily T,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCCCATGAGGATGAAATCCAA	0.493													12	77	---	---	---	---	PASS	C	248722743	C	C	248722743	3	2	119	1	0	0	0	0	1	0	0	0	11022	333	12	5	901	5	OR2T29	1	248722743	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	37267	248722743	527878	147	43320										
OR2T34	127068	broad.mit.edu	37	chr1	248737468	248737468	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgagcatcttatagagggaGacgtcagagcaggagagctt	15	6	2	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:248737468G>C	uc001iep.1	-	1	591	c.591C>G	c.(589-591)GTC>GTG	p.V197V		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	197	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TATAGAGGGAGACGTCAGAGC	0.517													57	235	---	---	---	---	PASS	C	248737468	C	C	248737468	2	2	119	1	0	0	0	0	0	0	0	1	11025	929	33	2		2	OR2T34	1	248737468	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	14725	248737468	513153	148	43321										
OR2T27	403239	broad.mit.edu	37	chr1	248813379	248813379	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcagatacagctttgtcctgCtcaggggtgtggtaagaatg	14	7	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:248813379C>A	uc010pzo.1	-	1	807	c.807G>T	c.(805-807)GAG>GAT	p.E269D		NM_001001824	NP_001001824	Q8NH04	O2T27_HUMAN	olfactory receptor, family 2, subfamily T,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;1.15e-05)|all_epithelial(71;5.29e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.089)|Lung NSC(105;0.0969)|Melanoma(84;0.199)	all_cancers(173;0.237)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTTTGTCCTGCTCAGGGGTGT	0.527													20	78	---	---	---	---	PASS	A	248813379	A	A	248813379	3	1	119	1	0	0	0	0	1	0	0	0	11021	796	28	3	149	3	OR2T27	1	248813379	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	75911	248813379	437242	149	43322										
OR2T27	403239	broad.mit.edu	37	chr1	248814024	248814024	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagtacatgggggtgtggagGcgggagtctatgtggatgag	20	3	1	1	rs141254125		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr1:248814024G>A	uc010pzo.1	-	1	162	c.162C>T	c.(160-162)CGC>CGT	p.R54R		NM_001001824	NP_001001824	Q8NH04	O2T27_HUMAN	olfactory receptor, family 2, subfamily T,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;1.15e-05)|all_epithelial(71;5.29e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.089)|Lung NSC(105;0.0969)|Melanoma(84;0.199)	all_cancers(173;0.237)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGGTGTGGAGGCGGGAGTCTA	0.532													5	38	---	---	---	---	PASS	A	248814024	A	A	248814024	2	1	119	1	0	0	0	0	0	0	0	1	11021	1190	42	3		3	OR2T27	1	248814024	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	645	248814024	436597	150	43323										
TPO	7173	broad.mit.edu	37	chr2	1488566	1488566	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccagcttccaggagcaccccGacctgcccgggctgtggctg	13	17	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:1488566G>A	uc002qww.2	+	9	1628	c.1537G>A	c.(1537-1539)GAC>AAC	p.D513N	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.D513N|TPO_uc002qwr.2_Missense_Mutation_p.D513N|TPO_uc002qwx.2_Missense_Mutation_p.D513N|TPO_uc010yio.1_Missense_Mutation_p.D340N|TPO_uc010yip.1_Missense_Mutation_p.D513N|TPO_uc002qwy.1_5'UTR|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	513	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	GGAGCACCCCGACCTGCCCGG	0.642													6	113	---	---	---	---	PASS	A	1488566	A	A	1488566	3	1	119	1	0	0	0	0	1	0	0	0	16407	1058	37	2	1567	2	TPO	2	1488566	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08		1488566	241710807	151	43324										
TSSC1	7260	broad.mit.edu	37	chr2	3217970	3217970	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccacagcaggatatggttatCagccaaggaaatgattttct	9	8	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:3217970C>T	uc002qxj.2	-	5	659	c.466G>A	c.(466-468)GAT>AAT	p.D156N	TSSC1_uc002qxi.2_RNA	NM_003310	NP_003301	Q53HC9	TSSC1_HUMAN	tumor suppressing subtransferable candidate 1	156	WD 1.						protein binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.212)		OV - Ovarian serous cystadenocarcinoma(76;0.00877)|Epithelial(75;0.0283)|all cancers(51;0.0464)		ATATGGTTATCAGCCAAGGAA	0.398													80	244	---	---	---	---	PASS	T	3217970	T	T	3217970	3	4	119	1	0	0	0	0	1	0	0	0	16663	826	29	2	717	2	TSSC1	2	3217970	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1729404	3217970	239981403	152	43325										
ID2	3398	broad.mit.edu	37	chr2	8822394	8822394	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acccctgtggacgacccgatGagcctgctatacaacatgaa	9	13	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:8822394G>C	uc010yiu.1	+	3	594	c.99G>C	c.(97-99)ATG>ATC	p.M33I	ID2_uc002qza.2_Missense_Mutation_p.M33I	NM_002166	NP_002157	Q02363	ID2_HUMAN	inhibitor of DNA binding 2	33					cellular senescence|embryonic digestive tract morphogenesis|endodermal digestive tract morphogenesis|epithelial cell differentiation involved in mammary gland alveolus development|mammary gland epithelial cell proliferation|negative regulation of neural precursor cell proliferation|negative regulation of neuron differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|neuron fate commitment|positive regulation of blood pressure|positive regulation of cell cycle arrest|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent	protein complex	protein binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					ACGACCCGATGAGCCTGCTAT	0.562													4	134	---	---	---	---	PASS	C	8822394	C	C	8822394	3	2	119	1	0	0	0	0	1	0	0	0	7490	1290	45	2	101	2	ID2	2	8822394	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5604424	8822394	234376979	153	43326										
CPSF3	51692	broad.mit.edu	37	chr2	9607846	9607846	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttttcccaggtgcagtacaGaaggtttctaaaaaattaga	8	6	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:9607846G>A	uc002qzo.1	+	16	1832	c.1797G>A	c.(1795-1797)CAG>CAA	p.Q599Q	CPSF3_uc002qzp.1_Silent_p.Q562Q|CPSF3_uc002qzq.1_Silent_p.Q176Q	NM_016207	NP_057291	Q9UKF6	CPSF3_HUMAN	cleavage and polyadenylation specific factor 3,	599					histone mRNA 3'-end processing|mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex|ribonucleoprotein complex	5'-3' exonuclease activity|endoribonuclease activity|metal ion binding|protein binding|RNA binding			breast(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;2.39e-25)|all_epithelial(98;8.75e-19)|Lung NSC(108;2.38e-06)|Ovarian(717;0.0308)		all cancers(51;2.2e-40)|Epithelial(75;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(76;4.35e-21)|STAD - Stomach adenocarcinoma(1183;0.00644)		GTGCAGTACAGAAGGTTTCTA	0.353													4	142	---	---	---	---	PASS	A	9607846	A	A	9607846	2	1	119	1	0	0	0	0	0	0	0	1	3826	933	33	2		2	CPSF3	2	9607846	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	785452	9607846	233591527	154	43327										
GREB1	9687	broad.mit.edu	37	chr2	11741049	11741049	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttcacgtgacctccttcccGtatgcactgcagacacagca	7	16	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:11741049G>A	uc002rbk.1	+	16	2757	c.2457G>A	c.(2455-2457)CCG>CCA	p.P819P	GREB1_uc002rbo.1_Silent_p.P453P	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	819						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)		CCTCCTTCCCGTATGCACTGC	0.592													7	302	---	---	---	---	PASS	A	11741049	A	A	11741049	2	1	119	1	0	0	0	0	0	0	0	1	6760	1132	40	1		1	GREB1	2	11741049	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	2133203	11741049	231458324	155	43328										
MYCN	4613	broad.mit.edu	37	chr2	16086030	16086030	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaccttcggtccagctttctCacgctcagggaccacgtgcc	10	16	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:16086030C>T	uc002rci.2	+	3	1506	c.1206C>T	c.(1204-1206)CTC>CTT	p.L402L	MYCN_uc010yjr.1_Silent_p.L394L	NM_005378	NP_005369	P04198	MYCN_HUMAN	v-myc myelocytomatosis viral related oncogene,	402	Helix-loop-helix motif.				regulation of transcription from RNA polymerase II promoter	chromatin|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity	p.L402F(1)		central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5	all_cancers(1;1.35e-08)|all_neural(1;2.92e-24)|Lung SC(1;3.26e-07)|Medulloblastoma(1;6.9e-06)|all_lung(1;1.26e-05)|Glioma(3;0.135)|Acute lymphoblastic leukemia(172;0.155)|all_epithelial(1;0.169)|all_hematologic(175;0.197)		GBM - Glioblastoma multiforme(3;0.000332)			CCAGCTTTCTCACGCTCAGGG	0.587			A		neuroblastoma								16	244	---	---	---	---	PASS	T	16086030	T	T	16086030	2	4	119	1	0	0	0	0	0	0	0	1	10021	813	29	2		2	MYCN	2	16086030	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	4344981	16086030	227113343	156	43329										
RAD51AP2	729475	broad.mit.edu	37	chr2	17698620	17698620	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcttacattacactggatacTactgcagttacagtagtttg	7	8	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:17698620T>C	uc002rcl.1	-	1	1087	c.1063A>G	c.(1063-1065)AGT>GGT	p.S355G	RAD51AP2_uc010exn.1_Missense_Mutation_p.S346G	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	355										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CACTGGATACTACTGCAGTTA	0.363													46	135	---	---	---	---	PASS	C	17698620	C	C	17698620	3	2	119	1	0	0	0	0	1	0	0	0	12987	1522	53	5	2428	5	RAD51AP2	2	17698620	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	1612590	17698620	225500753	157	43330										
C2orf43	60526	broad.mit.edu	37	chr2	20901344	20901344	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gattaccttacataaatgctCctttatggtttcgtcatctc	5	10	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:20901344C>T	uc002rec.2	-	6	805	c.772G>A	c.(772-774)GAG>AAG	p.E258K	C2orf43_uc002rea.1_Missense_Mutation_p.E258K|C2orf43_uc002reb.1_RNA|C2orf43_uc010yka.1_3'UTR|C2orf43_uc010ykb.1_Missense_Mutation_p.E128K|C2orf43_uc010ykc.1_Missense_Mutation_p.E210K|C2orf43_uc010ykd.1_3'UTR|C2orf43_uc010yke.1_Missense_Mutation_p.E216K|C2orf43_uc010ykf.1_Missense_Mutation_p.E128K	NM_021925	NP_068744	Q9H6V9	CB043_HUMAN	hypothetical protein LOC60526	258											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CATAAATGCTCCTTTATGGTT	0.393													29	617	---	---	---	---	PASS	T	20901344	T	T	20901344	3	4	119	1	0	0	0	0	1	0	0	0	2167	864	30	2	213	2	C2orf43	2	20901344	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3202724	20901344	222298029	158	43331										
ITSN2	50618	broad.mit.edu	37	chr2	24427169	24427169	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agacacagcacgtcttggtaGagatccttaataaagaactg	9	8	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:24427169G>C	uc002rfe.2	-	39	5139	c.4881C>G	c.(4879-4881)CTC>CTG	p.L1627L	ITSN2_uc002rff.2_Silent_p.L1600L	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	1627	C2.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGTCTTGGTAGAGATCCTTAA	0.493													8	210	---	---	---	---	PASS	C	24427169	C	C	24427169	2	2	119	1	0	0	0	0	0	0	0	1	7927	929	33	2		2	ITSN2	2	24427169	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	3525825	24427169	218772204	159	43332										
C2orf16	84226	broad.mit.edu	37	chr2	27801450	27801450	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caccgcaaacatctccatttGaggaacatacaatattgact	5	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:27801450G>C	uc002rkz.3	+	1	2062	c.2011G>C	c.(2011-2013)GAG>CAG	p.E671Q		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	671										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					ATCTCCATTTGAGGAACATAC	0.398													85	151	---	---	---	---	PASS	C	27801450	C	C	27801450	3	2	119	1	0	0	0	0	1	0	0	0	2157	1291	45	2	2013	2	C2orf16	2	27801450	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3374281	27801450	215397923	160	43333										
SLC4A1AP	22950	broad.mit.edu	37	chr2	27887280	27887280	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcacagggcgtccggccctGacggagaatgcgacagcaac	14	13	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:27887280G>C	uc002rlk.3	+	1	943	c.661G>C	c.(661-663)GAC>CAC	p.D221H	SUPT7L_uc002rlh.1_5'Flank|SUPT7L_uc002rli.1_5'Flank|SUPT7L_uc010ymf.1_5'Flank|SUPT7L_uc002rlj.1_5'Flank|SUPT7L_uc010ezh.1_5'Flank	NM_018158	NP_060628	Q9BWU0	NADAP_HUMAN	solute carrier family 4 (anion exchanger),	221	FHA.					cytoplasm|nucleus	double-stranded RNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)					GTCCGGCCCTGACGGAGAATG	0.607													7	132	---	---	---	---	PASS	C	27887280	C	C	27887280	3	2	119	1	0	0	0	0	1	0	0	0	14653	1290	45	2	663	2	SLC4A1AP	2	27887280	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	85830	27887280	215312093	161	43334										
PLB1	151056	broad.mit.edu	37	chr2	28762018	28762018	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctctgaggttgcagaggtctCtcgtcagtatcacggcactt	11	11	4	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:28762018C>T	uc002rmb.1	+	11	671	c.671C>T	c.(670-672)TCT>TTT	p.S224F	PLB1_uc010ezj.1_Missense_Mutation_p.S235F	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	224	4 X 308-326 AA approximate repeats.|Extracellular (Potential).|1.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					GCAGAGGTCTCTCGTCAGTAT	0.562													26	101	---	---	---	---	PASS	T	28762018	T	T	28762018	3	4	119	1	0	0	0	0	1	0	0	0	12024	913	32	2	746	2	PLB1	2	28762018	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	874738	28762018	214437355	162	43335										
BIRC6	57448	broad.mit.edu	37	chr2	32673984	32673984	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagatgaaattgatttatcaGatgtcctttcaggtagtgat	9	5	2	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:32673984G>T	uc010ezu.2	+	22	4740	c.4606G>T	c.(4606-4608)GAT>TAT	p.D1536Y		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1536					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)					TGATTTATCAGATGTCCTTTC	0.328													51	99	---	---	---	---	PASS	T	32673984	T	T	32673984	3	4	119	1	0	0	0	0	1	0	0	0	1438	942	33	2	4692	2	BIRC6	2	32673984	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3911966	32673984	210525389	163	43336										
SLC3A1	6519	broad.mit.edu	37	chr2	44547706	44547706	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttcatcgccaaacagctttCagagatagatgctttgtttc	7	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:44547706C>T	uc002ruc.3	+	10	2064	c.1986C>T	c.(1984-1986)TTC>TTT	p.F662F	PREPL_uc002ruf.2_3'UTR|PREPL_uc002rug.2_3'UTR|PREPL_uc002ruh.2_3'UTR|PREPL_uc010fax.2_3'UTR|PREPL_uc002rui.3_3'UTR|PREPL_uc002ruj.1_3'UTR|PREPL_uc002ruk.1_3'UTR|SLC3A1_uc002rud.3_Silent_p.F384F|SLC3A1_uc002rue.3_Silent_p.F282F	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	662	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	AAACAGCTTTCAGAGATAGAT	0.423													13	234	---	---	---	---	PASS	T	44547706	T	T	44547706	2	4	119	1	0	0	0	0	0	0	0	1	14626	825	29	2		2	SLC3A1	2	44547706	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	11873722	44547706	198651667	164	43337										
MSH6	2956	broad.mit.edu	37	chr2	48018263	48018263	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcttttaaagccatatacagGtaagagtcactactgccatg	8	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:48018263G>T	uc002rwd.3	+	2	609	c.457_splice	c.e2+1	p.G153_splice	MSH6_uc002rwc.2_Splice_Site_p.G153_splice|MSH6_uc010fbj.2_Splice_Site|MSH6_uc010yoi.1_Intron|MSH6_uc010yoj.1_Splice_Site	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6						determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CCATATACAGGTAAGAGTCAC	0.348			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				7	128	---	---	---	---	PASS	T	48018263	T	T	48018263	5	4	119	1	0	0	0	0	0	0	1	0	9874	1275	44	3	464	3	MSH6	2	48018263	Splice_Site	SNP	G	TCGA-60-2698-01A-01D-1522-08	3470557	48018263	195181110	165	43338										
FBXO11	80204	broad.mit.edu	37	chr2	48059968	48059968	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctacaatttactgtaatctCtaagcagtggtgtgcattgt	9	7	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:48059968C>T	uc010fbl.2	-	9	955	c.841G>A	c.(841-843)GAG>AAG	p.E281K	FBXO11_uc002rwe.2_Missense_Mutation_p.E281K|FBXO11_uc002rwf.2_Missense_Mutation_p.E281K|FBXO11_uc002rwg.1_Missense_Mutation_p.E281K|FBXO11_uc010fbk.2_5'Flank	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	365					ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ACTGTAATCTCTAAGCAGTGG	0.313													99	228	---	---	---	---	PASS	T	48059968	T	T	48059968	3	4	119	1	0	0	0	0	1	0	0	0	5727	922	32	2	1840	2	FBXO11	2	48059968	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	41705	48059968	195139405	166	43339										
KLRAQ1	129285	broad.mit.edu	37	chr2	48687003	48687003	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctgtggttgacggtctcacCcggaagtacatggaaaccat	12	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:48687003C>T	uc002rwm.2	+	5	671	c.486C>T	c.(484-486)ACC>ACT	p.T162T	KLRAQ1_uc002rwi.1_Silent_p.T162T|KLRAQ1_uc002rwj.2_Silent_p.T162T|KLRAQ1_uc002rwl.2_Silent_p.T116T|KLRAQ1_uc002rwk.2_Silent_p.T162T|KLRAQ1_uc010yok.1_Silent_p.T162T	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	162	Potential.									ovary(1)	1						ACGGTCTCACCCGGAAGTACA	0.502													14	69	---	---	---	---	PASS	T	48687003	T	T	48687003	2	4	119	1	0	0	0	0	0	0	0	1	8413	610	22	3		3	KLRAQ1	2	48687003	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	627035	48687003	194512370	167	43340										
BCL11A	53335	broad.mit.edu	37	chr2	60679701	60679701	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caccccacccctgggggcttCaaattttctcagaacttaag	7	14	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:60679701C>T	uc010ypj.1	-	4	2609	c.2381G>A	c.(2380-2382)TGA>TAA	p.*794*	BCL11A_uc002sab.2_3'UTR|BCL11A_uc002sac.2_Silent_p.*244*|BCL11A_uc010ypi.1_3'UTR	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	794					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			CTGGGGGCTTCAAATTTTCTC	0.542			T	IGH@	B-CLL								8	153	---	---	---	---	PASS	T	60679701	T	T	60679701	2	4	119	1	0	0	0	0	0	0	0	1	1363	837	29	2		2	BCL11A	2	60679701	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	11992698	60679701	182519672	168	43341										
USP34	9736	broad.mit.edu	37	chr2	61561087	61561087	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaatagttttggaagaagacGaagtgaaattactactgatc	9	4	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:61561087G>A	uc002sbe.2	-	19	2786	c.2764C>T	c.(2764-2766)CGT>TGT	p.R922C		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	922					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			GGAAGAAGACGAAGTGAAATT	0.274													7	70	---	---	---	---	PASS	A	61561087	A	A	61561087	3	1	119	1	0	0	0	0	1	0	0	0	17062	1058	37	2	8124	2	USP34	2	61561087	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	881386	61561087	181638286	169	43342										
EHBP1	23301	broad.mit.edu	37	chr2	63091897	63091897	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaaacagcttcacctagaaaAacagaagactctttttataa	5	8	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:63091897A>T	uc002sby.2	+	10	1376	c.894A>T	c.(892-894)AAA>AAT	p.K298N	EHBP1_uc010fcp.2_Missense_Mutation_p.K263N|EHBP1_uc002sbx.2_Missense_Mutation_p.K263N|EHBP1_uc002sbz.2_Missense_Mutation_p.K263N|EHBP1_uc002scb.2_Missense_Mutation_p.K263N	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	298						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			CACCTAGAAAAACAGAAGACT	0.328									Hereditary_Prostate_Cancer				7	255	---	---	---	---	PASS	T	63091897	T	T	63091897	3	4	119	1	0	0	0	0	1	0	0	0	4975	11	1	5	928	5	EHBP1	2	63091897	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	1530810	63091897	180107476	170	43343										
VPS54	51542	broad.mit.edu	37	chr2	64126700	64126700	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaaacaggcagaaggaacagGagccttcacttcatactggt	11	9	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:64126700G>A	uc002scq.2	-	21	2804	c.2641C>T	c.(2641-2643)CCT>TCT	p.P881S	VPS54_uc002scp.2_Missense_Mutation_p.P869S|VPS54_uc002scn.2_Missense_Mutation_p.P43S|VPS54_uc002sco.2_Missense_Mutation_p.P366S|VPS54_uc010fct.2_Missense_Mutation_p.P728S	NM_016516	NP_057600	Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 isoform 1	881					protein transport|retrograde transport, endosome to Golgi						0						GAAGGAACAGGAGCCTTCACT	0.378													51	144	---	---	---	---	PASS	A	64126700	A	A	64126700	3	1	119	1	0	0	0	0	1	0	0	0	17213	1174	41	2	304	2	VPS54	2	64126700	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1034803	64126700	179072673	171	43344										
DYSF	8291	broad.mit.edu	37	chr2	71753403	71753403	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gacattgaaagcaacctgctCcggcccacaggcgtagccct	10	15	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:71753403C>G	uc002sie.2	+	12	1483	c.1107C>G	c.(1105-1107)CTC>CTG	p.L369L	DYSF_uc010feg.2_Silent_p.L400L|DYSF_uc010feh.2_Silent_p.L369L|DYSF_uc002sig.3_Silent_p.L369L|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.L369L|DYSF_uc010fef.2_Silent_p.L400L|DYSF_uc010fei.2_Silent_p.L400L|DYSF_uc010fek.2_Silent_p.L401L|DYSF_uc010fej.2_Silent_p.L370L|DYSF_uc010fel.2_Silent_p.L370L|DYSF_uc010feo.2_Silent_p.L401L|DYSF_uc010fem.2_Silent_p.L370L|DYSF_uc010fen.2_Silent_p.L401L|DYSF_uc002sif.2_Silent_p.L370L	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	369	Cytoplasmic (Potential).|C2 3.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GCAACCTGCTCCGGCCCACAG	0.592													90	342	---	---	---	---	PASS	G	71753403	G	G	71753403	2	3	119	1	0	0	0	0	0	0	0	1	4859	842	30	2		2	DYSF	2	71753403	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	7626703	71753403	171445970	172	43345										
EXOC6B	23233	broad.mit.edu	37	chr2	72968457	72968457	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtttctgggcttctcctctCactttcagcagttcagttat	7	11	5	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:72968457C>A	uc010fep.2	-	2	393	c.255G>T	c.(253-255)GTG>GTT	p.V85V	EXOC6B_uc002sij.2_Silent_p.V85V	NM_015189	NP_056004	Q9Y2D4	EXC6B_HUMAN	SEC15-like 2	85	Potential.				protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2						CTTCTCCTCTCACTTTCAGCA	0.408													17	396	---	---	---	---	PASS	A	72968457	A	A	72968457	2	1	119	1	0	0	0	0	0	0	0	1	5309	813	29	2		2	EXOC6B	2	72968457	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1215054	72968457	170230916	173	43346										
SMYD5	10322	broad.mit.edu	37	chr2	73453006	73453006	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgacctcagaagaggaagagGaagaggaggaggaggaggaa	19	3	1	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:73453006G>T	uc002siw.2	+	13	1218	c.1189G>T	c.(1189-1191)GAA>TAA	p.E397*	SMYD5_uc010yre.1_Nonsense_Mutation_p.E281*|SMYD5_uc002six.1_RNA	NM_006062	NP_006053	Q6GMV2	SMYD5_HUMAN	SMYD family member 5	397	Glu-rich.						metal ion binding				0						agaggaagaggaagaggagga	0.463													56	204	---	---	---	---	PASS	T	73453006	T	T	73453006	4	4	119	1	0	0	0	0	0	1	0	0	14825	1175	41	2	1239	2	SMYD5	2	73453006	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	484549	73453006	169746367	174	43347										
C2orf7	84279	broad.mit.edu	37	chr2	73456653	73456653	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctgagttccccgcaggcctCtggaggttcagcggggacaa	15	12	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:73456653C>G	uc002siy.2	-	3	282	c.214G>C	c.(214-216)GAG>CAG	p.E72Q		NM_032319	NP_115695	Q9BSG0	PADC1_HUMAN	chromosome 2 open reading frame 7 precursor	72						extracellular region					0						CCGCAGGCCTCTGGAGGTTCA	0.532													6	225	---	---	---	---	PASS	G	73456653	G	G	73456653	3	3	119	1	0	0	0	0	1	0	0	0	2189	922	32	2	364	2	C2orf7	2	73456653	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3647	73456653	169742720	175	43348										
C2orf78	388960	broad.mit.edu	37	chr2	74043401	74043401	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccaacatgagggtaaaggccCggagaaaattcaagtcaagg	12	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:74043401C>A	uc002sjr.1	+	3	2172	c.2051C>A	c.(2050-2052)CCG>CAG	p.P684Q		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	684										ovary(2)	2						GGTAAAGGCCCGGAGAAAATT	0.517													31	89	---	---	---	---	PASS	A	74043401	A	A	74043401	3	1	119	1	0	0	0	0	1	0	0	0	2195	652	23	1	2061	1	C2orf78	2	74043401	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	586748	74043401	169155972	176	43349										
MOGS	7841	broad.mit.edu	37	chr2	74690051	74690051	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcagggggggcccctggggGccgatgctgaaaccagctat	16	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:74690051G>A	uc010ffj.2	-	4	1028	c.865C>T	c.(865-867)CCC>TCC	p.P289S	MOGS_uc010ffh.2_Missense_Mutation_p.P14S|MOGS_uc010yrt.1_Missense_Mutation_p.P170S|MOGS_uc010ffi.2_Missense_Mutation_p.P183S|MOGS_uc010yru.1_3'UTR	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	289	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						GCCCCTGGGGGCCGATGCTGA	0.587													18	442	---	---	---	---	PASS	A	74690051	A	A	74690051	3	1	119	1	0	0	0	0	1	0	0	0	9697	1203	42	3	1652	3	MOGS	2	74690051	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	646650	74690051	168509322	177	43350										
SEMA4F	10505	broad.mit.edu	37	chr2	74902690	74902690	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagcagtgcggatcggagctCagctcagcgttcttgaagat	14	9	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:74902690C>G	uc002sna.1	+	11	1522	c.1411C>G	c.(1411-1413)CAG>GAG	p.Q471E	SEMA4F_uc010ffq.1_Missense_Mutation_p.Q438E|SEMA4F_uc010ffr.1_Missense_Mutation_p.Q83E|SEMA4F_uc002snb.1_Missense_Mutation_p.Q83E|SEMA4F_uc002snc.1_Missense_Mutation_p.Q316E	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	471	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GATCGGAGCTCAGCTCAGCGT	0.498													57	184	---	---	---	---	PASS	G	74902690	G	G	74902690	3	3	119	1	0	0	0	0	1	0	0	0	14035	827	29	2	1453	2	SEMA4F	2	74902690	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	212639	74902690	168296683	178	43351										
CTNNA2	1496	broad.mit.edu	37	chr2	80136780	80136780	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggttccggccgtccctggagGagaggctggagagcatcatc	16	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:80136780G>A	uc010ysh.1	+	6	918	c.913G>A	c.(913-915)GAG>AAG	p.E305K	CTNNA2_uc010yse.1_Missense_Mutation_p.E305K|CTNNA2_uc010ysf.1_Missense_Mutation_p.E305K|CTNNA2_uc010ysg.1_Missense_Mutation_p.E305K	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	305					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GTCCCTGGAGGAGAGGCTGGA	0.597													40	128	---	---	---	---	PASS	A	80136780	A	A	80136780	3	1	119	1	0	0	0	0	1	0	0	0	4013	1175	41	2		2	CTNNA2	2	80136780	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5234090	80136780	163062593	179	43352										
TEKT4	150483	broad.mit.edu	37	chr2	95539782	95539782	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaggcctacaacatcgacgaGacctgcgggcgccaccacag	12	15	0	1	rs143585686		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:95539782G>C	uc002stw.1	+	3	735	c.642G>C	c.(640-642)GAG>GAC	p.E214D	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	214					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						ACATCGACGAGACCTGCGGGC	0.642													31	104	---	---	---	---	PASS	C	95539782	C	C	95539782	3	2	119	1	0	0	0	0	1	0	0	0	15752	933	33	2	652	2	TEKT4	2	95539782	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	15403002	95539782	147659591	180	43353										
VWA3B	200403	broad.mit.edu	37	chr2	98866858	98866858	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caaggagccaaactcaatatCtacaagcgaaaagtggaaca	8	9	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:98866858C>G	uc002syo.2	+	20	3015	c.2751C>G	c.(2749-2751)ATC>ATG	p.I917M	VWA3B_uc002sym.2_Missense_Mutation_p.I917M|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.I574M|VWA3B_uc002syp.1_Missense_Mutation_p.I309M|VWA3B_uc002syq.1_Missense_Mutation_p.I193M|VWA3B_uc002syr.1_Missense_Mutation_p.I234M|VWA3B_uc010fii.1_RNA|VWA3B_uc002sys.2_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	917										ovary(3)|large_intestine(2)|skin(1)	6						AACTCAATATCTACAAGCGAA	0.403													57	135	---	---	---	---	PASS	G	98866858	G	G	98866858	3	3	119	1	0	0	0	0	1	0	0	0	17238	903	32	2	2825	2	VWA3B	2	98866858	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3327076	98866858	144332515	181	43354										
CREG2	200407	broad.mit.edu	37	chr2	101967465	101967465	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ataccatttctgaagccagaTatgttctatcctcatcttca	4	11	5	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:101967465T>C	uc002tba.2	-	4	839	c.793A>G	c.(793-795)ATC>GTC	p.I265V		NM_153836	NP_722578	Q8IUH2	CREG2_HUMAN	cellular repressor of E1A-stimulated genes 2	265						extracellular region	FMN binding			ovary(1)	1						TGAAGCCAGATATGTTCTATC	0.453													56	169	---	---	---	---	PASS	C	101967465	C	C	101967465	3	2	119	1	0	0	0	0	1	0	0	0	3865	1406	49	5	83	5	CREG2	2	101967465	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	3100607	101967465	141231908	182	43355										
GPR45	11250	broad.mit.edu	37	chr2	105859124	105859124	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caaggccttcaccaccatccTgatcctcttcgtgggcttct	7	16	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:105859124T>A	uc002tco.1	+	1	925	c.809T>A	c.(808-810)CTG>CAG	p.L270Q		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	270	Helical; Name=6; (Potential).			L -> P (in Ref. 3; AAH67455).		integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						ACCACCATCCTGATCCTCTTC	0.622													123	262	---	---	---	---	PASS	A	105859124	A	A	105859124	3	1	119	1	0	0	0	0	1	0	0	0	6696	1580	55	5	811	5	GPR45	2	105859124	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	3891659	105859124	137340249	183	43356										
SULT1C2	6819	broad.mit.edu	37	chr2	108921915	108921915	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgatgcagttcatgggaaaGaaggtggatgaaacagtgct	15	4	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:108921915G>C	uc002tdy.2	+	7	1095	c.642G>C	c.(640-642)AAG>AAC	p.K214N	SULT1C2_uc010ywp.1_Missense_Mutation_p.K129N|SULT1C2_uc002tdx.2_Missense_Mutation_p.K225N|SULT1C2_uc010ywq.1_Missense_Mutation_p.K228N	NM_001056	NP_001047	O00338	ST1C2_HUMAN	sulfotransferase family, cytosolic, 1C, member 1	214	PAPS (By similarity).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine metabolic process|sulfation|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	sulfotransferase activity			ovary(1)	1						TCATGGGAAAGAAGGTGGATG	0.393													21	76	---	---	---	---	PASS	C	108921915	C	C	108921915	3	2	119	1	0	0	0	0	1	0	0	0	15374	933	33	2	763	2	SULT1C2	2	108921915	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3062791	108921915	134277458	184	43357										
RANBP2	5903	broad.mit.edu	37	chr2	109397776	109397776	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctgtgtttggaacacagtCagtcggaacccagtcagccg	12	11	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:109397776C>T	uc002tem.3	+	26	8777	c.8651C>T	c.(8650-8652)TCA>TTA	p.S2884L		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2884					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GGAACACAGTCAGTCGGAACC	0.358													24	80	---	---	---	---	PASS	T	109397776	T	T	109397776	3	4	119	1	0	0	0	0	1	0	0	0	13028	838	29	2	8753	2	RANBP2	2	109397776	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	475861	109397776	133801597	185	43358										
IL1B	3553	broad.mit.edu	37	chr2	113588118	113588118	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagacaaatcgcttttccatCttcttctttgggtaattttt	5	8	3	1	rs138009692		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:113588118C>T	uc002tii.1	-	7	717	c.630G>A	c.(628-630)AAG>AAA	p.K210K	IL1B_uc002tih.1_Silent_p.K179K	NM_000576	NP_000567	P01584	IL1B_HUMAN	interleukin 1, beta proprotein	210					activation of MAPK activity|anti-apoptosis|apoptosis|cell-cell signaling|cellular response to drug|cellular response to mechanical stimulus|cytokine-mediated signaling pathway|embryo implantation|fever generation|negative regulation of adiponectin secretion|negative regulation of cell proliferation|negative regulation of glucose transport|negative regulation of insulin receptor signaling pathway|negative regulation of lipid catabolic process|negative regulation of MAP kinase activity|positive regulation of angiogenesis|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of cell adhesion molecule production|positive regulation of cell division|positive regulation of fever generation|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of heterotypic cell-cell adhesion|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of interferon-gamma production|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of lipid catabolic process|positive regulation of membrane protein ectodomain proteolysis|positive regulation of mitosis|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myosin light chain kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|positive regulation of protein export from nucleus|positive regulation of T cell proliferation|positive regulation vascular endothelial growth factor production|regulation of insulin secretion|sequestering of triglyceride|smooth muscle adaptation	cytosol|extracellular space	cytokine activity|growth factor activity|interleukin-1 receptor binding|protein domain specific binding			lung(3)|breast(1)	4					Anakinra(DB00026)|Minocycline(DB01017)|Procaterol(DB01366)	GCTTTTCCATCTTCTTCTTTG	0.418													86	177	---	---	---	---	PASS	T	113588118	T	T	113588118	2	4	119	1	0	0	0	0	0	0	0	1	7651	912	32	2		2	IL1B	2	113588118	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	4190342	113588118	129611255	186	43359										
DBI	1622	broad.mit.edu	37	chr2	120125782	120125782	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggctgagtttgagaaagctGcagaggaggttaggcacctt	15	6	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:120125782G>T	uc002tlv.2	+	2	152	c.28G>T	c.(28-30)GCA>TCA	p.A10S	C2orf76_uc002tls.2_5'Flank|C2orf76_uc010flf.1_5'Flank|C2orf76_uc010yyg.1_5'Flank|C2orf76_uc002tlt.2_5'Flank|C2orf76_uc002tlu.2_5'Flank|DBI_uc010yyh.1_Missense_Mutation_p.A27S|DBI_uc010yyi.1_Missense_Mutation_p.A27S|DBI_uc010yyj.1_RNA|DBI_uc010yyk.1_Missense_Mutation_p.A52S|DBI_uc010yyl.1_Missense_Mutation_p.A27S|DBI_uc010yym.1_Missense_Mutation_p.A20S|DBI_uc010yyn.1_Missense_Mutation_p.A27S|DBI_uc002tlw.2_Missense_Mutation_p.A27S|DBI_uc010yyo.1_RNA|DBI_uc002tlx.2_Missense_Mutation_p.A11S|DBI_uc010yyp.1_5'Flank	NM_001079862	NP_001073331	P07108	ACBP_HUMAN	diazepam binding inhibitor isoform 3	10	ACB.				transport		benzodiazepine receptor binding|fatty-acyl-CoA binding				0						TGAGAAAGCTGCAGAGGAGGT	0.517													56	152	---	---	---	---	PASS	T	120125782	T	T	120125782	3	4	119	1	0	0	0	0	1	0	0	0	4251	1319	46	3	340	3	DBI	2	120125782	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6537664	120125782	123073591	187	43360										
TFCP2L1	29842	broad.mit.edu	37	chr2	121981961	121981961	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtggtagccatcattgctctCagctgcaagagagaaacact	10	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:121981961C>G	uc002tmx.2	-	15	1489	c.1396G>C	c.(1396-1398)GAG>CAG	p.E466Q	TFCP2L1_uc010flr.2_Missense_Mutation_p.E401Q|TFCP2L1_uc010flq.2_RNA	NM_014553	NP_055368	Q9NZI6	TF2L1_HUMAN	LBP-9	466					female pregnancy|steroid biosynthetic process	mitochondrion|nucleolus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			pancreas(2)|ovary(1)	3	Renal(3;0.01)					TCATTGCTCTCAGCTGCAAGA	0.517													4	34	---	---	---	---	PASS	G	121981961	G	G	121981961	3	3	119	1	0	0	0	0	1	0	0	0	15793	835	29	2	47	2	TFCP2L1	2	121981961	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1856179	121981961	121217412	188	43361										
FAM123C	205147	broad.mit.edu	37	chr2	131520801	131520801	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccgtgtccacaagtgacgagGgctactatgattccttctcg	10	12	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:131520801G>T	uc002trw.2	+	2	1346	c.1156G>T	c.(1156-1158)GGC>TGC	p.G386C	FAM123C_uc010fmv.2_Missense_Mutation_p.G386C|FAM123C_uc010fms.1_Missense_Mutation_p.G386C|FAM123C_uc010fmt.1_Missense_Mutation_p.G386C|FAM123C_uc010fmu.1_Missense_Mutation_p.G386C	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	386										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		AAGTGACGAGGGCTACTATGA	0.627													21	81	---	---	---	---	PASS	T	131520801	T	T	131520801	3	4	119	1	0	0	0	0	1	0	0	0	5424	1232	43	3	1158	3	FAM123C	2	131520801	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	9538840	131520801	111678572	189	43362										
POTEE	445582	broad.mit.edu	37	chr2	132021592	132021592	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tactggcatcgtgatggactCtggtgacggggtcacccaca	13	11	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:132021592C>G	uc002tsn.2	+	15	2616	c.2564C>G	c.(2563-2565)TCT>TGT	p.S855C	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.S455C|POTEE_uc002tsl.2_Missense_Mutation_p.S437C|POTEE_uc010fmy.1_Missense_Mutation_p.S319C	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	855	Actin-like.						ATP binding				0						GTGATGGACTCTGGTGACGGG	0.612													6	206	---	---	---	---	PASS	G	132021592	G	G	132021592	3	3	119	1	0	0	0	0	1	0	0	0	12264	913	32	2	2622	2	POTEE	2	132021592	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	500791	132021592	111177781	190	43363										
R3HDM1	23518	broad.mit.edu	37	chr2	136393534	136393534	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaaacgttatatcctcaagaGagataactctagctttgaca	7	8	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:136393534G>C	uc002tuo.2	+	10	1143	c.773G>C	c.(772-774)AGA>ACA	p.R258T	R3HDM1_uc010fni.2_Missense_Mutation_p.R256T|R3HDM1_uc002tup.2_Missense_Mutation_p.R202T|R3HDM1_uc010zbh.1_Missense_Mutation_p.R90T	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	258							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		ATCCTCAAGAGAGATAACTCT	0.303													9	260	---	---	---	---	PASS	C	136393534	C	C	136393534	3	2	119	1	0	0	0	0	1	0	0	0	12887	942	33	2	803	2	R3HDM1	2	136393534	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4371942	136393534	106805839	191	43364										
UBXN4	23190	broad.mit.edu	37	chr2	136528164	136528164	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaaattaagaaggaaattgaGaggagaaaaactggaaaaga	12	1	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:136528164G>C	uc002tur.2	+	8	992	c.681G>C	c.(679-681)GAG>GAC	p.E227D	UBXN4_uc002tus.2_5'UTR	NM_014607	NP_055422	Q92575	UBXN4_HUMAN	UBX domain containing 2	227	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|nuclear envelope	protein binding			skin(2)	2						AGGAAATTGAGAGGAGAAAAA	0.303													4	21	---	---	---	---	PASS	C	136528164	C	C	136528164	3	2	119	1	0	0	0	0	1	0	0	0	16913	933	33	2	711	2	UBXN4	2	136528164	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	134630	136528164	106671209	192	43365										
THSD7B	80731	broad.mit.edu	37	chr2	137748464	137748464	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atattcagaggcgaaacgatGcataacacagcagatgaggt	11	7	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:137748464G>T	uc002tva.1	+	1	3	c.3G>T	c.(1-3)ATG>ATT	p.M1I	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GCGAAACGATGCATAACACAG	0.403													4	10	---	---	---	---	PASS	T	137748464	T	T	137748464	3	4	119	1	0	0	0	0	1	0	0	0	15877	1319	46	3	5	3	THSD7B	2	137748464	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1220300	137748464	105450909	193	43366										
LRP1B	53353	broad.mit.edu	37	chr2	141232707	141232707	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atttatgttactggaccaacCtttgtgtctatgagatccat	7	8	1	1	rs77794732		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:141232707C>A	uc002tvj.1	-	60	10597	c.9625G>T	c.(9625-9627)GTC>TTC	p.V3209F		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3209	Extracellular (Potential).|LDL-receptor class B 31.				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)		CTGGACCAACCTTTGTGTCTA	0.289										TSP Lung(27;0.18)			24	176	---	---	---	---	PASS	A	141232707	A	A	141232707	3	1	119	1	0	0	0	0	1	0	0	0	8955	695	24	3	4302	3	LRP1B	2	141232707	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3484243	141232707	101966666	194	43367										
ARHGAP15	55843	broad.mit.edu	37	chr2	144381815	144381815	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcttcccttacagtttctttGagcagtttgtggaagcgatc	9	9	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:144381815G>C	uc002tvm.3	+	12	1268	c.1117G>C	c.(1117-1119)GAG>CAG	p.E373Q	ARHGAP15_uc002tvn.2_Missense_Mutation_p.E139Q	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	373	Rho-GAP.				regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		CAGTTTCTTTGAGCAGTTTGT	0.458													4	88	---	---	---	---	PASS	C	144381815	C	C	144381815	3	2	119	1	0	0	0	0	1	0	0	0	866	1291	45	2	1159	2	ARHGAP15	2	144381815	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3149108	144381815	98817558	195	43368										
KIF5C	3800	broad.mit.edu	37	chr2	149799217	149799217	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcggtttgtgtcgagccctGaggaagtcatggatgtaata	14	6	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:149799217G>A	uc010zbu.1	+	7	900	c.532G>A	c.(532-534)GAG>AAG	p.E178K		NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	178	Kinesin-motor.|Microtubule-binding.				microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		GTCGAGCCCTGAGGAAGTCAT	0.493													6	16	---	---	---	---	PASS	A	149799217	A	A	149799217	3	1	119	1	0	0	0	0	1	0	0	0	8307	1291	45	2	480	2	KIF5C	2	149799217	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5417402	149799217	93400156	196	43369										
KIF5C	3800	broad.mit.edu	37	chr2	149806962	149806962	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctgagaccaagtccacactGatgttcggacagaggtacgt	12	10	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:149806962G>C	uc010zbu.1	+	10	1322	c.954G>C	c.(952-954)CTG>CTC	p.L318L	KIF5C_uc002tws.1_RNA	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	318	Kinesin-motor.				microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		AGTCCACACTGATGTTCGGAC	0.453													15	35	---	---	---	---	PASS	C	149806962	C	C	149806962	2	2	119	1	0	0	0	0	0	0	0	1	8307	1277	45	2		2	KIF5C	2	149806962	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	7745	149806962	93392411	197	43370										
NMI	9111	broad.mit.edu	37	chr2	152132274	152132274	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttttaatcatcctgttacctGgaatctgactcctgaattta	5	9	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:152132274G>A	uc002txi.2	-	5	775	c.445C>T	c.(445-447)CAG>TAG	p.Q149*	NMI_uc010zbx.1_Nonsense_Mutation_p.Q149*	NM_004688	NP_004679	Q13287	NMI_HUMAN	N-myc and STAT interactor	149					inflammatory response|JAK-STAT cascade|transcription from RNA polymerase II promoter	cytoplasm|nucleus	nucleotide binding|protein binding|transcription cofactor activity				0				BRCA - Breast invasive adenocarcinoma(221;0.0571)		CCTGTTACCTGGAATCTGACT	0.353													10	121	---	---	---	---	PASS	A	152132274	A	A	152132274	4	1	119	1	0	0	0	0	0	1	0	0	10497	1357	47	3	494	3	NMI	2	152132274	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2325312	152132274	91067099	198	43371										
NEB	4703	broad.mit.edu	37	chr2	152427061	152427061	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcctggatggggatggcatCcagccggacatcacagcccg	14	13	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:152427061C>T	uc010fnx.2	-	80	12156	c.11965G>A	c.(11965-11967)GAT>AAT	p.D3989N	NEB_uc002txr.2_Missense_Mutation_p.D412N	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3989	Nebulin 109.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GGGATGGCATCCAGCCGGACA	0.483													4	16	---	---	---	---	PASS	T	152427061	T	T	152427061	3	4	119	1	0	0	0	0	1	0	0	0	10302	855	30	2	8918	2	NEB	2	152427061	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	294787	152427061	90772312	199	43372										
PKP4	8502	broad.mit.edu	37	chr2	159536982	159536982	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caagatgactccaacagaaaGaactttgatgcatacagatt	7	8	0	6			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:159536982G>A	uc002tzv.2	+	22	3632	c.3372G>A	c.(3370-3372)AAG>AAA	p.K1124K	PKP4_uc002tzw.2_Silent_p.K1081K|PKP4_uc002tzx.2_Silent_p.K781K|PKP4_uc002uaa.2_Silent_p.K933K|uc002uab.1_Intron|PKP4_uc002uac.2_Silent_p.K305K|PKP4_uc002uad.2_RNA	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	1124					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						CCAACAGAAAGAACTTTGATG	0.328										HNSCC(62;0.18)			26	214	---	---	---	---	PASS	A	159536982	A	A	159536982	2	1	119	1	0	0	0	0	0	0	0	1	11987	933	33	2		2	PKP4	2	159536982	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	7109921	159536982	83662391	200	43373										
SCN1A	6323	broad.mit.edu	37	chr2	166848121	166848121	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccatgaatcgctcttccatCtgtattcgtagagcatccat	7	12	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:166848121C>G	uc010zcz.1	-	26	5649	c.5631G>C	c.(5629-5631)CAG>CAC	p.Q1877H		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1888						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GCTCTTCCATCTGTATTCGTA	0.438													17	162	---	---	---	---	PASS	G	166848121	G	G	166848121	3	3	119	1	0	0	0	0	1	0	0	0	13914	912	32	2	369	2	SCN1A	2	166848121	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	7311139	166848121	76351252	201	43374										
B3GALT1	8708	broad.mit.edu	37	chr2	168726011	168726011	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcctaccataaccttaccctCaaaacattaatggggatgag	6	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:168726011C>G	uc002udz.1	+	2	813	c.462C>G	c.(460-462)CTC>CTG	p.L154L		NM_020981	NP_066191	Q9Y5Z6	B3GT1_HUMAN	UDP-Gal:betaGlcNAc beta	154	Lumenal (Potential).				lipid glycosylation|protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4						ACCTTACCCTCAAAACATTAA	0.408													33	91	---	---	---	---	PASS	G	168726011	G	G	168726011	2	3	119	1	0	0	0	0	0	0	0	1	1247	813	29	2		2	B3GALT1	2	168726011	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1877890	168726011	74473362	202	43375										
RAPGEF4	11069	broad.mit.edu	37	chr2	173659797	173659797	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtggatataatcttcactcGactgaaagaagttaaagctt	8	6	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:173659797G>T	uc002uhv.3	+	2	297	c.110G>T	c.(109-111)CGA>CTA	p.R37L	RAPGEF4_uc002uhu.2_Missense_Mutation_p.R37L|RAPGEF4_uc010fqn.2_Missense_Mutation_p.R20L	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	37					blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			ATCTTCACTCGACTGAAAGAA	0.378													71	333	---	---	---	---	PASS	T	173659797	T	T	173659797	3	4	119	1	0	0	0	0	1	0	0	0	13046	1058	37	2	116	2	RAPGEF4	2	173659797	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4933786	173659797	69539576	203	43376										
RAPGEF4	11069	broad.mit.edu	37	chr2	173891404	173891404	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgacaatttatgattgggaActcttcaactgcgtgcatga	9	7	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:173891404A>G	uc002uhv.3	+	24	2545	c.2358A>G	c.(2356-2358)GAA>GAG	p.E786E	RAPGEF4_uc002uhw.3_Silent_p.E642E	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	786	Ras-GEF.				blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			ATGATTGGGAACTCTTCAACT	0.438													41	131	---	---	---	---	PASS	G	173891404	G	G	173891404	2	3	119	1	0	0	0	0	0	0	0	1	13046	40	2	5		5	RAPGEF4	2	173891404	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	231607	173891404	69307969	204	43377										
EVX2	344191	broad.mit.edu	37	chr2	176948324	176948324	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcggggagttctcccagagCgctgtgcaggggggcagacg	20	10	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:176948324C>T	uc010zeu.1	-	1	367	c.181G>A	c.(181-183)GCT>ACT	p.A61T		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	61						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		TCTCCCAGAGCGCTGTGCAGG	0.607													11	92	---	---	---	---	PASS	T	176948324	T	T	176948324	3	4	119	1	0	0	0	0	1	0	0	0	5295	768	27	1	1259	1	EVX2	2	176948324	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3056920	176948324	66251049	205	43378										
DFNB59	494513	broad.mit.edu	37	chr2	179319253	179319253	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tactcaaagaaattactacaCggtcagtataataatcctaa	4	8	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:179319253C>T	uc002umi.3	+	3	762	c.406C>T	c.(406-408)CGA>TGA	p.R136*	DFNB59_uc002umj.3_Nonsense_Mutation_p.R136*	NM_001042702	NP_001036167	Q0ZLH3	PJVK_HUMAN	deafness, autosomal recessive 59	136					sensory perception of sound						0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			AATTACTACACGGTCAGTATA	0.299													25	64	---	---	---	---	PASS	T	179319253	T	T	179319253	4	4	119	1	0	0	0	0	0	1	0	0	4456	550	19	1	412	1	DFNB59	2	179319253	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2370929	179319253	63880120	206	43379										
TTN	7273	broad.mit.edu	37	chr2	179424611	179424611	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aatatcaaataaaggttcttCttctctttcctttgctatct	3	9	5	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:179424611C>T	uc010zfg.1	-	275	78768	c.78544G>A	c.(78544-78546)GAA>AAA	p.E26182K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E19877K|TTN_uc010zfi.1_Missense_Mutation_p.E19810K|TTN_uc010zfj.1_Missense_Mutation_p.E19685K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27109							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)			AAAGGTTCTTCTTCTCTTTCC	0.428													7	215	---	---	---	---	PASS	T	179424611	T	T	179424611	3	4	119	1	0	0	0	0	1	0	0	0	16732	922	32	2	21879	2	TTN	2	179424611	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	105358	179424611	63774762	207	43380										
TTN	7273	broad.mit.edu	37	chr2	179431097	179431097	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaggtcaagttcaggtgcttCaagtttatcttctggtttca	9	7	6	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:179431097C>G	uc010zfg.1	-	275	72282	c.72058G>C	c.(72058-72060)GAA>CAA	p.E24020Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E17715Q|TTN_uc010zfi.1_Missense_Mutation_p.E17648Q|TTN_uc010zfj.1_Missense_Mutation_p.E17523Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24947							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)			TCAGGTGCTTCAAGTTTATCT	0.423													22	424	---	---	---	---	PASS	G	179431097	G	G	179431097	3	3	119	1	0	0	0	0	1	0	0	0	16732	835	29	2	28365	2	TTN	2	179431097	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	6486	179431097	63768276	208	43381										
TTN	7273	broad.mit.edu	37	chr2	179546413	179546413	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccggtggggcctttggtttTgtgggaactggttcttctgg	17	7	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:179546413T>G	uc010zfg.1	-	133	29639	c.29415A>C	c.(29413-29415)ACA>ACC	p.T9805T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.T6466T|TTN_uc010fre.1_Silent_p.T652T|TTN_uc002una.1_5'Flank|TTN_uc010frf.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10732							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)			CCTTTGGTTTTGTGGGAACTG	0.378													63	119	---	---	---	---	PASS	G	179546413	G	G	179546413	2	3	119	1	0	0	0	0	0	0	0	1	16732	1799	63	5		5	TTN	2	179546413	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	115316	179546413	63652960	209	43382										
TTN	7273	broad.mit.edu	37	chr2	179613783	179613783	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttttccccgggtagtgtatCtcttcaccaagggattcttc	8	11	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:179613783C>G	uc002unb.2	-	46	13568	c.13344G>C	c.(13342-13344)GAG>GAC	p.E4448D	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			GGTAGTGTATCTCTTCACCAA	0.338													22	135	---	---	---	---	PASS	G	179613783	G	G	179613783	3	3	119	1	0	0	0	0	1	0	0	0	16732	912	32	2	96953	2	TTN	2	179613783	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	67370	179613783	63585590	210	43383										
COL5A2	1290	broad.mit.edu	37	chr2	189964841	189964841	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acatatacttacaacaggcaCtaatcctggttctccctttt	4	12	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:189964841C>G	uc002uqk.2	-	4	636	c.361G>C	c.(361-363)GTG>CTG	p.V121L		NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	121					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			ACAACAGGCACTAATCCTGGT	0.313													23	112	---	---	---	---	PASS	G	189964841	G	G	189964841	3	3	119	1	0	0	0	0	1	0	0	0	3697	565	20	4	4342	4	COL5A2	2	189964841	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	10351058	189964841	53234532	211	43384										
DNAH7	56171	broad.mit.edu	37	chr2	196620855	196620855	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acgatcatttagacgaacttAcctgcaagaattttagtctt	6	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:196620855A>C	uc002utj.3	-	62	11687	c.11586_splice	c.e62+1	p.Q3862_splice	DNAH7_uc002uti.3_Splice_Site_p.Q345_splice	NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AGACGAACTTACCTGCAAGAA	0.368													15	94	---	---	---	---	PASS	C	196620855	C	C	196620855	5	2	119	1	0	0	0	0	0	0	1	0	4606	405	14	5	502	5	DNAH7	2	196620855	Splice_Site	SNP	A	TCGA-60-2698-01A-01D-1522-08	6656014	196620855	46578518	212	43385										
HECW2	57520	broad.mit.edu	37	chr2	197171251	197171251	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgaagaactctgggctgatGaggaacttcacggggggaga	17	6	2	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:197171251G>A	uc002utm.1	-	13	2958	c.2775C>T	c.(2773-2775)CTC>CTT	p.L925L	HECW2_uc002utl.1_Silent_p.L569L	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	925	Interaction with TP73.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						CTGGGCTGATGAGGAACTTCA	0.512													23	132	---	---	---	---	PASS	A	197171251	A	A	197171251	2	1	119	1	0	0	0	0	0	0	0	1	7043	1277	45	2		2	HECW2	2	197171251	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	550396	197171251	46028122	213	43386										
CASP10	843	broad.mit.edu	37	chr2	202050702	202050702	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttttgaacatctcttggcaGaggatctgctgagtgaggaa	12	6	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:202050702G>A	uc002uxl.1	+	2	620	c.202G>A	c.(202-204)GAG>AAG	p.E68K	CASP10_uc002uxi.1_Missense_Mutation_p.E68K|CASP10_uc010zhn.1_RNA|CASP10_uc002uxj.1_Missense_Mutation_p.E68K|CASP10_uc002uxk.1_Missense_Mutation_p.E68K|CASP10_uc010fta.1_Missense_Mutation_p.E68K|CASP10_uc002uxm.1_Missense_Mutation_p.E68K|CASP10_uc010ftb.1_RNA	NM_032974	NP_116756	Q92851	CASPA_HUMAN	caspase 10 isoform b preproprotein	68	DED 1.			E -> G (in Ref. 2; AAB46730).	apoptosis|induction of apoptosis by extracellular signals|proteolysis	cytosol|plasma membrane	cysteine-type endopeptidase activity|identical protein binding|protein binding			skin(3)|ovary(1)|pancreas(1)|breast(1)	6						TCTCTTGGCAGAGGATCTGCT	0.488													16	77	---	---	---	---	PASS	A	202050702	A	A	202050702	3	1	119	1	0	0	0	0	1	0	0	0	2669	943	33	2	204	2	CASP10	2	202050702	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4879451	202050702	41148671	214	43387										
MPP4	58538	broad.mit.edu	37	chr2	202521026	202521026	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcagctgccggtgcagcacaCactggcatgcagcgggctga	15	13	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:202521026C>A	uc002uyk.3	-	17	1403	c.1195G>T	c.(1195-1197)GTG>TTG	p.V399L	MPP4_uc002uyi.3_Missense_Mutation_p.V17L|MPP4_uc010ftj.2_Missense_Mutation_p.V392L|MPP4_uc010zhq.1_Missense_Mutation_p.V368L|MPP4_uc010zhr.1_Missense_Mutation_p.V375L|MPP4_uc010zhs.1_Missense_Mutation_p.V324L|MPP4_uc002uyj.3_Missense_Mutation_p.V364L|MPP4_uc010zht.1_Missense_Mutation_p.V341L|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.V355L	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	399						cytoplasm	protein binding				0						GTGCAGCACACACTGGCATGC	0.612													3	0	---	---	---	---	PASS	A	202521026	A	A	202521026	3	1	119	1	0	0	0	0	1	0	0	0	9736	478	17	3	742	3	MPP4	2	202521026	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	470324	202521026	40678347	215	43388										
WDR12	55759	broad.mit.edu	37	chr2	203760895	203760895	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tacattccactcccataagaGaatagtctgatccatagaag	6	10	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:203760895G>C	uc002uzl.2	-	6	1252	c.502C>G	c.(502-504)CTC>GTC	p.L168V	WDR12_uc010ftt.2_Missense_Mutation_p.L168V	NM_018256	NP_060726	Q9GZL7	WDR12_HUMAN	WD repeat domain 12 protein	168	WD 2.|Sufficient for nucleolar localization.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						TCCCATAAGAGAATAGTCTGA	0.393													17	124	---	---	---	---	PASS	C	203760895	C	C	203760895	3	2	119	1	0	0	0	0	1	0	0	0	17271	942	33	2	801	2	WDR12	2	203760895	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1239869	203760895	39438478	216	43389										
CTLA4	1493	broad.mit.edu	37	chr2	204737534	204737534	+	Nonstop_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttattttattcccatcaattGagaaaccattatgaagaaga	5	6	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:204737534G>T	uc002vak.1	+	4	828	c.671G>T	c.(670-672)TGA>TTA	p.*224L	CTLA4_uc002val.1_3'UTR|CTLA4_uc010fty.1_3'UTR|CTLA4_uc010ftz.1_RNA	NM_005214	NP_005205	P16410	CTLA4_HUMAN	cytotoxic T-lymphocyte-associated protein 4	224					B cell receptor signaling pathway|immune response|negative regulation of B cell proliferation|negative regulation of regulatory T cell differentiation|positive regulation of apoptosis|response to DNA damage stimulus|T cell costimulation	clathrin-coated endocytic vesicle|external side of plasma membrane|Golgi apparatus|integral to plasma membrane|perinuclear region of cytoplasm					0					Abatacept(DB01281)	CCCATCAATTGAGAAACCATT	0.363													24	72	---	---	---	---	PASS	T	204737534	T	T	204737534	4	4	119	1	0	0	0	0	0	0	0	0	4011	1285	45	2	685	2	CTLA4	2	204737534	Nonstop_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	976639	204737534	38461839	217	43390										
GPR1	2825	broad.mit.edu	37	chr2	207041686	207041686	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtggaaattcatggccacatAggagatgtacaggggcagaa	14	6	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:207041686A>C	uc002vbl.3	-	3	672	c.286T>G	c.(286-288)TAT>GAT	p.Y96D	GPR1_uc010fue.2_Missense_Mutation_p.Y96D|GPR1_uc010fuf.2_Missense_Mutation_p.Y96D	NM_005279	NP_005270	P46091	GPR1_HUMAN	G protein-coupled receptor 1	96	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0		Lung NSC(271;7.93e-06)|Renal(323;0.000147)|Hepatocellular(293;0.000888)		UCEC - Uterine corpus endometrioid carcinoma (47;0.000241)|Epithelial(149;1.91e-37)|STAD - Stomach adenocarcinoma(1183;0.00178)|Lung(261;0.111)|LUSC - Lung squamous cell carcinoma(261;0.184)		ATGGCCACATAGGAGATGTAC	0.478													85	191	---	---	---	---	PASS	C	207041686	C	C	207041686	3	2	119	1	0	0	0	0	1	0	0	0	6621	420	15	5	785	5	GPR1	2	207041686	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	2304152	207041686	36157687	218	43391										
ZDBF2	57683	broad.mit.edu	37	chr2	207174260	207174260	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctaaaggaaaatttaatttgGaagacacttctcatcgaacg	7	7	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:207174260G>C	uc002vbp.2	+	5	5258	c.5008G>C	c.(5008-5010)GAA>CAA	p.E1670Q		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1670							nucleic acid binding|zinc ion binding			ovary(3)	3						ATTTAATTTGGAAGACACTTC	0.408													3	113	---	---	---	---	PASS	C	207174260	C	C	207174260	3	2	119	1	0	0	0	0	1	0	0	0	17596	1175	41	2	5018	2	ZDBF2	2	207174260	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	132574	207174260	36025113	219	43392										
ADAM23	8745	broad.mit.edu	37	chr2	207459510	207459510	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cggatgtgggctatgtagaaGatggaacgccatgtggcccg	16	8	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:207459510G>A	uc002vbq.2	+	23	2351	c.2128G>A	c.(2128-2130)GAT>AAT	p.D710N	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	710	Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		CTATGTAGAAGATGGAACGCC	0.428													28	160	---	---	---	---	PASS	A	207459510	A	A	207459510	3	1	119	1	0	0	0	0	1	0	0	0	245	942	33	2	2218	2	ADAM23	2	207459510	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	285250	207459510	35739863	220	43393										
CPS1	1373	broad.mit.edu	37	chr2	211476995	211476995	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttgtctgaaccaagcagcaCgcgtatctatgccattgcca	9	12	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:211476995C>A	uc002vee.3	+	20	2678	c.2546C>A	c.(2545-2547)ACG>AAG	p.T849K	CPS1_uc010fur.2_Missense_Mutation_p.T855K|CPS1_uc010fus.2_Missense_Mutation_p.T398K	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	849					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)		CCAAGCAGCACGCGTATCTAT	0.428													53	142	---	---	---	---	PASS	A	211476995	A	A	211476995	3	1	119	1	0	0	0	0	1	0	0	0	3823	536	19	1	2646	1	CPS1	2	211476995	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4017485	211476995	31722378	221	43394										
CPS1	1373	broad.mit.edu	37	chr2	211502462	211502462	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaaaccctgaaaagggcaaaGgagattgggttctcagataa	12	6	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:211502462G>T	uc002vee.3	+	22	2856	c.2724G>T	c.(2722-2724)AAG>AAT	p.K908N	CPS1_uc010fur.2_Missense_Mutation_p.K914N|CPS1_uc010fus.2_Missense_Mutation_p.K457N	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	908					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)		AAAGGGCAAAGGAGATTGGGT	0.418													32	154	---	---	---	---	PASS	T	211502462	T	T	211502462	3	4	119	1	0	0	0	0	1	0	0	0	3823	991	35	3	2832	3	CPS1	2	211502462	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	25467	211502462	31696911	222	43395										
CPS1	1373	broad.mit.edu	37	chr2	211512728	211512728	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcgctccatcttctcagctGtcttggatgagctgaaggtg	11	10	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:211512728G>A	uc002vee.3	+	26	3415	c.3283G>A	c.(3283-3285)GTC>ATC	p.V1095I	CPS1_uc010fur.2_Missense_Mutation_p.V1101I|CPS1_uc010fus.2_Missense_Mutation_p.V644I	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1095	ATP-grasp 2.				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)		CTTCTCAGCTGTCTTGGATGA	0.463													60	144	---	---	---	---	PASS	A	211512728	A	A	211512728	3	1	119	1	0	0	0	0	1	0	0	0	3823	1377	48	3	3407	3	CPS1	2	211512728	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	10266	211512728	31686645	223	43396										
ERBB4	2066	broad.mit.edu	37	chr2	212483998	212483998	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctccttcaggtacccaaatAccctttggggaaaaaaattt	6	10	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:212483998A>C	uc002veg.1	-	19	2303	c.2205T>G	c.(2203-2205)GGT>GGG	p.G735G	ERBB4_uc002veh.1_Silent_p.G735G|ERBB4_uc010zji.1_Silent_p.G725G|ERBB4_uc010zjj.1_Silent_p.G725G|ERBB4_uc010fut.1_Silent_p.G735G	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	735	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		GTACCCAAATACCCTTTGGGG	0.313										TSP Lung(8;0.080)			16	116	---	---	---	---	PASS	C	212483998	C	C	212483998	2	2	119	1	0	0	0	0	0	0	0	1	5209	378	14	5		5	ERBB4	2	212483998	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	971270	212483998	30715375	224	43397										
BARD1	580	broad.mit.edu	37	chr2	215595156	215595156	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctgttctctgttgagcctGcttctgcgtggaccttcagg	12	11	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:215595156G>C	uc002veu.2	-	10	2115	c.1980C>G	c.(1978-1980)AGC>AGG	p.S660R	BARD1_uc010zjm.1_Missense_Mutation_p.S516R	NM_000465	NP_000456	Q99728	BARD1_HUMAN	BRCA1 associated RING domain 1	660					cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TGTTGAGCCTGCTTCTGCGTG	0.363									Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				46	122	---	---	---	---	PASS	C	215595156	C	C	215595156	3	2	119	1	0	0	0	0	1	0	0	0	1312	1310	46	4	361	4	BARD1	2	215595156	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3111158	215595156	27604217	225	43398										
TNS1	7145	broad.mit.edu	37	chr2	218682809	218682809	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtccaagcaggggctgccggGaaccacagatccagaccctc	12	15	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:218682809G>A	uc002vgt.2	-	24	4332	c.3934C>T	c.(3934-3936)CCC>TCC	p.P1312S	TNS1_uc002vgr.2_Missense_Mutation_p.P1299S|TNS1_uc002vgs.2_Missense_Mutation_p.P1291S|TNS1_uc010zjv.1_Missense_Mutation_p.P1291S	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1312						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GGGCTGCCGGGAACCACAGAT	0.632													4	28	---	---	---	---	PASS	A	218682809	A	A	218682809	3	1	119	1	0	0	0	0	1	0	0	0	16340	1174	41	2	1313	2	TNS1	2	218682809	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3087653	218682809	24516564	226	43399										
CXCR2	3579	broad.mit.edu	37	chr2	219000499	219000499	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagaagtttcgccatggactCctcaagattctagctataca	7	11	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:219000499C>T	uc002vgz.1	+	4	1200	c.975C>T	c.(973-975)CTC>CTT	p.L325L	CXCR2_uc002vha.1_Silent_p.L325L|CXCR2_uc002vhb.1_Silent_p.L325L	NM_001557	NP_001548	P25025	CXCR2_HUMAN	interleukin 8 receptor beta	325	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						GCCATGGACTCCTCAAGATTC	0.542													32	151	---	---	---	---	PASS	T	219000499	T	T	219000499	2	4	119	1	0	0	0	0	0	0	0	1	4091	842	30	2		2	CXCR2	2	219000499	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	317690	219000499	24198874	227	43400										
ATG9A	79065	broad.mit.edu	37	chr2	220091598	220091598	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcttatacttacatgagctCaaagatctccccgatgagca	6	11	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:220091598C>G	uc002vke.1	-	5	391	c.205G>C	c.(205-207)GAG>CAG	p.E69Q	ATG9A_uc002vkd.1_RNA|ATG9A_uc002vkf.1_Missense_Mutation_p.E69Q|ANKZF1_uc010zkv.1_5'Flank|ANKZF1_uc010zkw.1_5'Flank|ANKZF1_uc002vkg.2_5'Flank|ANKZF1_uc002vkh.2_5'Flank	NM_001077198	NP_001070666	Q7Z3C6	ATG9A_HUMAN	APG9 autophagy 9-like 1	69	Helical; (Potential).				autophagic vacuole assembly|protein transport	autophagic vacuole membrane|cytoplasmic vesicle|Golgi apparatus|integral to membrane|late endosome membrane				skin(1)	1		Renal(207;0.0474)		Epithelial(149;1.37e-06)|all cancers(144;0.000222)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TACATGAGCTCAAAGATCTCC	0.373													5	159	---	---	---	---	PASS	G	220091598	G	G	220091598	3	3	119	1	0	0	0	0	1	0	0	0	1102	835	29	2	2362	2	ATG9A	2	220091598	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1091099	220091598	23107775	228	43401										
GLB1L	79411	broad.mit.edu	37	chr2	220103023	220103023	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actccattatttggcacccaGaatggtgttggctcaaaaat	8	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:220103023G>C	uc002vkm.2	-	14	1529	c.1290C>G	c.(1288-1290)TTC>TTG	p.F430L	GLB1L_uc002vkk.2_Missense_Mutation_p.F187L|GLB1L_uc010zkx.1_Missense_Mutation_p.F340L|GLB1L_uc002vkn.2_Missense_Mutation_p.F430L	NM_024506	NP_078782	Q6UWU2	GLB1L_HUMAN	galactosidase, beta 1-like precursor	430					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds				0		all_lung(227;1.19e-05)|Lung NSC(271;2.76e-05)|Medulloblastoma(418;0.0208)|Esophageal squamous(248;0.0559)		Epithelial(149;1.3e-11)|all cancers(144;2.07e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TTGGCACCCAGAATGGTGTTG	0.488													70	141	---	---	---	---	PASS	C	220103023	C	C	220103023	3	2	119	1	0	0	0	0	1	0	0	0	6428	933	33	2	690	2	GLB1L	2	220103023	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	11425	220103023	23096350	229	43402										
PTPRN	5798	broad.mit.edu	37	chr2	220161194	220161194	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcgatggtatgggacagcggGccctgcgtggctatgtaggc	18	9	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:220161194G>A	uc002vkz.2	-	17	2444	c.2355C>T	c.(2353-2355)GGC>GGT	p.G785G	PTPRN_uc010zlc.1_Silent_p.G695G|PTPRN_uc002vla.2_Silent_p.G756G|uc010zld.1_5'Flank|MIR153-1_hsa-mir-153-1|MI0000463_5'Flank	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	785	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		GGGACAGCGGGCCCTGCGTGG	0.597													44	104	---	---	---	---	PASS	A	220161194	A	A	220161194	2	1	119	1	0	0	0	0	0	0	0	1	12807	1190	42	3		3	PTPRN	2	220161194	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	58171	220161194	23038179	230	43403										
CUL3	8452	broad.mit.edu	37	chr2	225371641	225371641	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agagctttaccttgctccctCaaataggaactcatacactc	5	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:225371641C>G	uc002vny.2	-	7	1347	c.963G>C	c.(961-963)TTG>TTC	p.L321F	CUL3_uc010zls.1_Missense_Mutation_p.L255F|CUL3_uc010fwy.1_Missense_Mutation_p.L327F	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	321					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CTTGCTCCCTCAAATAGGAAC	0.378													50	106	---	---	---	---	PASS	G	225371641	G	G	225371641	3	3	119	1	0	0	0	0	1	0	0	0	4056	825	29	2	1383	2	CUL3	2	225371641	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5210447	225371641	17827732	231	43404										
TRIP12	9320	broad.mit.edu	37	chr2	230638826	230638826	+	Missense_Mutation	SNP	T	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tacatactcttagatactccTctaaattgtggatagtgact							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:230638826T>A	uc002vpw.1	-	37	5565	c.5456A>T	c.(5455-5457)GAG>GTG	p.E1819V	TRIP12_uc002vpx.1_Missense_Mutation_p.E1867V|TRIP12_uc002vpy.1_Missense_Mutation_p.E1549V	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1819					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)		TAGATACTCCTCTAAATTGTG	0.463													44	132	---	---	---	---	PASS	A	230638826	A	A	230638826	3	1	119	1	0	0	0	0	1	0	0	0	16553	1551	54	5	542	5	TRIP12	2	230638826	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	5267185	230638826	12560547	232	43405	815	2								
TRIP12	9320	broad.mit.edu	37	chr2	230638827	230638827	+	Nonsense_Mutation	SNP	C	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acatactcttagatactcctCtaaattgtggatagtgactg							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:230638827C>A	uc002vpw.1	-	37	5564	c.5455G>T	c.(5455-5457)GAG>TAG	p.E1819*	TRIP12_uc002vpx.1_Nonsense_Mutation_p.E1867*|TRIP12_uc002vpy.1_Nonsense_Mutation_p.E1549*	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1819					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)		AGATACTCCTCTAAATTGTGG	0.468													44	134	---	---	---	---	PASS	A	230638827	A	A	230638827	4	1	119	1	0	0	0	0	0	1	0	0	16553	922	32	2	543	2	TRIP12	2	230638827	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1	230638827	12560546	233	43406	815	2								
HTR2B	3357	broad.mit.edu	37	chr2	231973603	231973603	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aatatctccaggagcatttgGagagtagtttggttacagga	12	5	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:231973603G>C	uc002vro.2	-	4	1579	c.1074C>G	c.(1072-1074)CTC>CTG	p.L358L	PSMD1_uc002vrm.1_Intron|PSMD1_uc010fxu.1_Intron|PSMD1_uc002vrn.1_Intron|HTR2B_uc010fxv.2_Silent_p.L291L	NM_000867	NP_000858	P41595	5HT2B_HUMAN	5-hydroxytryptamine (serotonin) receptor 2B	358	Extracellular (By similarity).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cardiac muscle hypertrophy|cellular response to calcium ion|cellular response to temperature stimulus|cGMP biosynthetic process|embryonic morphogenesis|ERK1 and ERK2 cascade|G-protein coupled receptor internalization|heart morphogenesis|intestine smooth muscle contraction|negative regulation of apoptosis|negative regulation of autophagy|neural crest cell migration|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|phosphorylation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of cytokine secretion|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAP kinase activity|positive regulation of nitric-oxide synthase activity|protein kinase C signaling cascade|regulation of behavior|release of sequestered calcium ion into cytosol|response to drug|vasoconstriction	cytoplasm|integral to membrane|plasma membrane	calcium channel activity|drug binding|G-protein alpha-subunit binding|phosphatidylinositol phospholipase C activity|Ras GTPase activator activity|serotonin binding|serotonin receptor activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;4.48e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0141)	Chlorprothixene(DB01239)|Eletriptan(DB00216)|Fenfluramine(DB00574)|Methotrimeprazine(DB01403)|Minaprine(DB00805)|Quetiapine(DB01224)|Sumatriptan(DB00669)|Tegaserod(DB01079)|Triflupromazine(DB00508)	GGAGCATTTGGAGAGTAGTTT	0.383													3	198	---	---	---	---	PASS	C	231973603	C	C	231973603	2	2	119	1	0	0	0	0	0	0	0	1	7442	1161	41	2		2	HTR2B	2	231973603	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1334776	231973603	11225770	234	43407										
LRRFIP1	9208	broad.mit.edu	37	chr2	238672274	238672274	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaattgcagcagaaagcagtGaaaatgttgattgtccggag	12	5	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:238672274G>A	uc002vxe.2	+	11	2210	c.1918G>A	c.(1918-1920)GAA>AAA	p.E640K	LRRFIP1_uc002vxc.2_Intron|LRRFIP1_uc010znm.1_Intron|LRRFIP1_uc002vxd.2_Missense_Mutation_p.E616K|LRRFIP1_uc002vxf.2_Missense_Mutation_p.E584K	NM_001137552	NP_001131024	Q32MZ4	LRRF1_HUMAN	leucine rich repeat (in FLII) interacting	640					negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|cytoskeleton|nucleus	DNA binding|double-stranded RNA binding|protein binding			breast(3)	3		Breast(86;0.00257)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;9.75e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.01e-10)|Kidney(56;4.85e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.31e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000151)|Lung(119;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0325)|COAD - Colon adenocarcinoma(134;0.228)		AGAAAGCAGTGAAAATGTTGA	0.423													11	38	---	---	---	---	PASS	A	238672274	A	A	238672274	3	1	119	1	0	0	0	0	1	0	0	0	9027	1291	45	2	2636	2	LRRFIP1	2	238672274	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6698671	238672274	4527099	235	43408										
PASK	23178	broad.mit.edu	37	chr2	242066101	242066101	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcactgaaaaagagttccttGaggttccaggaaaacgaatt	9	7	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:242066101G>A	uc002wao.1	-	10	2321	c.2229C>T	c.(2227-2229)CTC>CTT	p.L743L	PASK_uc010zol.1_Silent_p.L557L|PASK_uc010zom.1_Silent_p.L708L|PASK_uc010fzl.1_Silent_p.L743L|PASK_uc010zon.1_Silent_p.L524L|PASK_uc002wap.2_Silent_p.L286L|PASK_uc002waq.2_Silent_p.L743L	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	743					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		AGAGTTCCTTGAGGTTCCAGG	0.547													47	98	---	---	---	---	PASS	A	242066101	A	A	242066101	2	1	119	1	0	0	0	0	0	0	0	1	11472	1277	45	2		2	PASK	2	242066101	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	3393827	242066101	1133272	236	43409										
FARP2	9855	broad.mit.edu	37	chr2	242312635	242312635	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgggcagactctcttgcccaGaatgcaagagaagcacctgc	11	12	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr2:242312635G>C	uc002wbi.1	+	2	230	c.113G>C	c.(112-114)AGA>ACA	p.R38T	FARP2_uc010zoq.1_Missense_Mutation_p.R38T|FARP2_uc010zor.1_Missense_Mutation_p.R38T	NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	38					axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		CTCTTGCCCAGAATGCAAGAG	0.507													12	92	---	---	---	---	PASS	C	242312635	C	C	242312635	3	2	119	1	0	0	0	0	1	0	0	0	5677	942	33	2	115	2	FARP2	2	242312635	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	246534	242312635	886738	237	43410										
CNTN4	152330	broad.mit.edu	37	chr3	3081838	3081838	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagctgatgcctctagatacGtgttcaggaatgagagcgtg	13	8	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:3081838G>T	uc003bpc.2	+	19	2502	c.2281G>T	c.(2281-2283)GTG>TTG	p.V761L	CNTN4_uc003bpb.1_Missense_Mutation_p.V432L|CNTN4_uc003bpe.2_Missense_Mutation_p.V433L|CNTN4_uc003bpf.2_Missense_Mutation_p.V432L|CNTN4_uc003bpg.2_Missense_Mutation_p.V17L	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	761	Fibronectin type-III 2.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		CTCTAGATACGTGTTCAGGAA	0.522													62	112	---	---	---	---	PASS	T	3081838	T	T	3081838	3	4	119	1	0	0	0	0	1	0	0	0	3643	1145	40	1	2347	1	CNTN4	3	3081838	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08		3081838	194940592	238	43411										
CAV3	859	broad.mit.edu	37	chr3	8787497	8787497	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccttctgcaacccactcttcGcggccctgggccaggtctgc	10	18	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:8787497G>A	uc003bra.2	+	2	467	c.400G>A	c.(400-402)GCG>ACG	p.A134T	C3orf32_uc003bqz.2_5'Flank|CAV3_uc003brb.2_Missense_Mutation_p.A134T	NM_001234	NP_001225	P56539	CAV3_HUMAN	caveolin 3	134	Cytoplasmic (Potential).				cell growth|elevation of cytosolic calcium ion concentration|muscle organ development|negative regulation of cardiac muscle hypertrophy|negative regulation of cell size|negative regulation of MAP kinase activity|negative regulation of sarcomere organization|positive regulation of microtubule polymerization|regulation of skeletal muscle contraction|regulation of ventricular cardiomyocyte membrane repolarization|T-tubule organization	caveola|dystrophin-associated glycoprotein complex|Golgi membrane|neuromuscular junction|T-tubule	protein C-terminus binding|protein complex binding|protein complex scaffold|sodium channel regulator activity			lung(1)|breast(1)	2						CCCACTCTTCGCGGCCCTGGG	0.622													34	63	---	---	---	---	PASS	A	8787497	A	A	8787497	3	1	119	1	0	0	0	0	1	0	0	0	2695	1087	38	1	406	1	CAV3	3	8787497	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5705659	8787497	189234933	239	43412										
IL17RE	132014	broad.mit.edu	37	chr3	9945092	9945092	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgcctcaggatgacagtttCactggtgagtcgcatttcct	11	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:9945092C>G	uc003btu.2	+	3	261	c.144C>G	c.(142-144)TTC>TTG	p.F48L	CIDEC_uc003bto.2_Intron|IL17RE_uc003btv.2_Missense_Mutation_p.F48L|IL17RE_uc011atn.1_Intron|IL17RE_uc003btw.2_Missense_Mutation_p.F48L|IL17RE_uc003btx.2_Intron|IL17RE_uc010hcq.2_Missense_Mutation_p.F48L|IL17RE_uc003bty.2_Intron	NM_153483	NP_705616	Q8NFR9	I17RE_HUMAN	interleukin 17 receptor E isoform 1	48	Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane	receptor activity			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(96;5.34e-64)		ATGACAGTTTCACTGGTGAGT	0.507													46	88	---	---	---	---	PASS	G	9945092	G	G	9945092	3	3	119	1	0	0	0	0	1	0	0	0	7643	825	29	2	150	2	IL17RE	3	9945092	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1157595	9945092	188077338	240	43413										
CCR4	1233	broad.mit.edu	37	chr3	32995269	32995269	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgatttcctggatgtacttgGtgggcttttacagtggcata	12	6	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:32995269G>A	uc003cfg.1	+	2	523	c.355G>A	c.(355-357)GTG>ATG	p.V119M		NM_005508	NP_005499	P51679	CCR4_HUMAN	chemokine (C-C motif) receptor 4	119	Helical; Name=3; (Potential).				chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response	integral to plasma membrane				lung(1)	1						GATGTACTTGGTGGGCTTTTA	0.483													25	354	---	---	---	---	PASS	A	32995269	A	A	32995269	3	1	119	1	0	0	0	0	1	0	0	0	2943	1261	44	3	357	3	CCR4	3	32995269	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	23050177	32995269	165027161	241	43414										
TRANK1	9881	broad.mit.edu	37	chr3	36875113	36875113	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cccagcagacatgaggcctgGaagtccttgtcggcagtgag	14	11	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:36875113G>T	uc003cgj.2	-	12	4481	c.4179C>A	c.(4177-4179)TTC>TTA	p.F1393L		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1943					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						ATGAGGCCTGGAAGTCCTTGT	0.577													9	40	---	---	---	---	PASS	T	36875113	T	T	36875113	3	4	119	1	0	0	0	0	1	0	0	0	16451	1165	41	2	2960	2	TRANK1	3	36875113	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3879844	36875113	161147317	242	43415										
DLEC1	9940	broad.mit.edu	37	chr3	38158078	38158078	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgtgtgccctgatacccctGagggtggctgcctcctctgg	13	13	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:38158078G>A	uc003cho.1	+	28	4012	c.3991G>A	c.(3991-3993)GAG>AAG	p.E1331K	DLEC1_uc003chp.1_Missense_Mutation_p.E1331K|DLEC1_uc010hgv.1_Missense_Mutation_p.E1334K|DLEC1_uc003chr.1_Missense_Mutation_p.E402K|DLEC1_uc010hgx.1_RNA|DLEC1_uc003chs.1_5'Flank	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	1331					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		TGATACCCCTGAGGGTGGCTG	0.622													4	164	---	---	---	---	PASS	A	38158078	A	A	38158078	3	1	119	1	0	0	0	0	1	0	0	0	4552	1291	45	2	4101	2	DLEC1	3	38158078	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1282965	38158078	159864352	243	43416										
MYRIP	25924	broad.mit.edu	37	chr3	40231546	40231546	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggtcccgggccctgcccagGaacccccagcctcagcccac	10	21	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:40231546G>A	uc003cka.2	+	10	1392	c.1257G>A	c.(1255-1257)AGG>AGA	p.R419R	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Silent_p.R419R|MYRIP_uc010hhw.2_Silent_p.R330R|MYRIP_uc011ayz.1_Silent_p.R232R|uc003ckb.2_Intron	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	419	Myosin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		CCCTGCCCAGGAACCCCCAGC	0.632													50	95	---	---	---	---	PASS	A	40231546	A	A	40231546	2	1	119	1	0	0	0	0	0	0	0	1	10100	1165	41	2		2	MYRIP	3	40231546	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	2073468	40231546	157790884	244	43417										
ZNF621	285268	broad.mit.edu	37	chr3	40571743	40571743	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctctgatctcccacctggaGagaggggaagcaccatgggg	15	11	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:40571743G>A	uc003ckm.2	+	4	411	c.195G>A	c.(193-195)GAG>GAA	p.E65E	ZNF621_uc003ckn.2_Silent_p.E65E|ZNF621_uc003cko.2_Silent_p.E30E|ZNF621_uc011aze.1_Silent_p.E57E	NM_001098414	NP_001091884	Q6ZSS3	ZN621_HUMAN	zinc finger protein 621	65	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0515)|Kidney(284;0.0648)		CCCACCTGGAGAGAGGGGAAG	0.507													18	145	---	---	---	---	PASS	A	40571743	A	A	40571743	2	1	119	1	0	0	0	0	0	0	0	1	18042	933	33	2		2	ZNF621	3	40571743	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	340197	40571743	157450687	245	43418										
ZNF502	91392	broad.mit.edu	37	chr3	44763395	44763395	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtggcaaagccttttgtcaGagcccatctcttattaaaca	7	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:44763395G>C	uc011baa.1	+	4	1341	c.1086G>C	c.(1084-1086)CAG>CAC	p.Q362H	ZNF502_uc003cns.2_Missense_Mutation_p.Q362H|ZNF502_uc011bab.1_Missense_Mutation_p.Q362H|ZNF502_uc003cnt.2_Missense_Mutation_p.Q362H	NM_001134440	NP_001127912	Q8TBZ5	ZN502_HUMAN	zinc finger protein 502	362	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00855)|KIRC - Kidney renal clear cell carcinoma(197;0.0471)|Kidney(197;0.0589)		CCTTTTGTCAGAGCCCATCTC	0.403													47	69	---	---	---	---	PASS	C	44763395	C	C	44763395	3	2	119	1	0	0	0	0	1	0	0	0	17947	933	33	2	1092	2	ZNF502	3	44763395	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4191652	44763395	153259035	246	43419										
SCAP	22937	broad.mit.edu	37	chr3	47462159	47462159	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acgtgatggtgtggggtgtgGacggcctcacagccagctgc	17	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:47462159G>A	uc003crh.1	-	12	1703	c.1448C>T	c.(1447-1449)TCC>TTC	p.S483F	SCAP_uc011baz.1_Missense_Mutation_p.S228F|SCAP_uc003crg.2_Missense_Mutation_p.S91F	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	483	Cytoplasmic (By similarity).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		GTGGGGTGTGGACGGCCTCAC	0.662											OREG0015548	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	33	---	---	---	---	PASS	A	47462159	A	A	47462159	3	1	119	1	0	0	0	0	1	0	0	0	13877	1174	41	2	2439	2	SCAP	3	47462159	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2698764	47462159	150560271	247	43420										
CCDC51	79714	broad.mit.edu	37	chr3	48474121	48474121	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctagacatgaatggacttgCctggaatgactaagctgctc	10	9	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:48474121C>G	uc003csz.2	-	4	1054	c.933G>C	c.(931-933)AGG>AGC	p.R311S	PLXNB1_uc003csx.2_5'Flank|CCDC51_uc003cta.2_Missense_Mutation_p.R202S|CCDC51_uc003ctb.2_Missense_Mutation_p.R202S|CCDC51_uc003ctc.2_Missense_Mutation_p.R311S|CCDC51_uc003ctd.2_Missense_Mutation_p.R202S	NM_024661	NP_078937	Q96ER9	CCD51_HUMAN	coiled-coil domain containing 51	311						integral to membrane					0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		AATGGACTTGCCTGGAATGAC	0.517													41	73	---	---	---	---	PASS	G	48474121	G	G	48474121	3	3	119	1	0	0	0	0	1	0	0	0	2821	738	26	4	306	4	CCDC51	3	48474121	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1011962	48474121	149548309	248	43421										
DNAH1	25981	broad.mit.edu	37	chr3	52360904	52360904	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttccccatctacctcccactGaaggtgagccgggcttccac	8	17	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:52360904G>T	uc011bef.1	+	5	996	c.735G>T	c.(733-735)CTG>CTT	p.L245L	DNAH1_uc003ddt.1_Silent_p.L245L	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	245	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		ACCTCCCACTGAAGGTGAGCC	0.597													5	25	---	---	---	---	PASS	T	52360904	T	T	52360904	2	4	119	1	0	0	0	0	0	0	0	1	4597	1277	45	2		2	DNAH1	3	52360904	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	3886783	52360904	145661526	249	43422										
DNAH1	25981	broad.mit.edu	37	chr3	52420190	52420190	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccccaggtggatacggccatCgccgaggagacccggaattc	13	14	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:52420190C>T	uc011bef.1	+	55	8901	c.8640C>T	c.(8638-8640)ATC>ATT	p.I2880I	DNAH1_uc003ddv.2_5'UTR	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2880	Potential.|Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		ATACGGCCATCGCCGAGGAGA	0.428													5	31	---	---	---	---	PASS	T	52420190	T	T	52420190	2	4	119	1	0	0	0	0	0	0	0	1	4597	874	31	2		2	DNAH1	3	52420190	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	59286	52420190	145602240	250	43423										
PBRM1	55193	broad.mit.edu	37	chr3	52643429	52643429	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacattcttcctaattatgtCaaatgtaaggggtggtttgt	9	5	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:52643429C>G	uc003des.2	-	16	2479	c.2467G>C	c.(2467-2469)GAC>CAC	p.D823H	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.D823H|PBRM1_uc003der.2_Missense_Mutation_p.D791H|PBRM1_uc003det.2_Missense_Mutation_p.D838H|PBRM1_uc003deu.2_Missense_Mutation_p.D838H|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.D823H|PBRM1_uc010hmk.1_Missense_Mutation_p.D823H|PBRM1_uc003dey.2_Missense_Mutation_p.D823H|PBRM1_uc003dez.1_Missense_Mutation_p.D823H|PBRM1_uc003dfb.1_Missense_Mutation_p.D736H|PBRM1_uc003dfa.1_Missense_Mutation_p.D169H|PBRM1_uc003dfc.2_Missense_Mutation_p.D190H	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	823	Bromo 6.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		CTAATTATGTCAAATGTAAGG	0.403			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								57	114	---	---	---	---	PASS	G	52643429	G	G	52643429	3	3	119	1	0	0	0	0	1	0	0	0	11491	826	29	2	2493	2	PBRM1	3	52643429	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	223239	52643429	145379001	251	43424										
APPL1	26060	broad.mit.edu	37	chr3	57291330	57291330	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggatccttaggatctgagtCtacaaatttggctgccctct	9	10	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:57291330C>G	uc003dio.2	+	15	1451	c.1304C>G	c.(1303-1305)TCT>TGT	p.S435C	APPL1_uc010hnb.2_Missense_Mutation_p.S435C|APPL1_uc011bey.1_Missense_Mutation_p.S418C	NM_012096	NP_036228	Q9UKG1	DP13A_HUMAN	adaptor protein, phosphotyrosine interaction, PH	435					apoptosis|cell cycle|cell proliferation|insulin receptor signaling pathway|regulation of apoptosis|regulation of establishment of protein localization in plasma membrane|regulation of glucose import	cytosol|early endosome membrane|microsome|nucleus|vesicle membrane	protein kinase B binding			breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0124)|Kidney(284;0.0144)		GGATCTGAGTCTACAAATTTG	0.458													54	115	---	---	---	---	PASS	G	57291330	G	G	57291330	3	3	119	1	0	0	0	0	1	0	0	0	817	913	32	2	1362	2	APPL1	3	57291330	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4647901	57291330	140731100	252	43425										
FLNB	2317	broad.mit.edu	37	chr3	58134386	58134386	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctggtccaggcatctccttCatcccccgggaagtgggcga	12	14	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:58134386C>T	uc003djj.2	+	36	6063	c.5898C>T	c.(5896-5898)TTC>TTT	p.F1966F	FLNB_uc010hne.2_Silent_p.F1997F|FLNB_uc003djk.2_Silent_p.F1955F|FLNB_uc010hnf.2_Silent_p.F1942F|FLNB_uc003djl.2_Silent_p.F1786F|FLNB_uc003djm.2_Silent_p.F1773F|FLNB_uc010hng.1_5'Flank	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1966	Filamin 18.|Interaction with the cytoplasmic tail of GP1BA.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		GCATCTCCTTCATCCCCCGGG	0.527													25	44	---	---	---	---	PASS	T	58134386	T	T	58134386	2	4	119	1	0	0	0	0	0	0	0	1	5934	825	29	2		2	FLNB	3	58134386	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	843056	58134386	139888044	253	43426										
ATXN7	6314	broad.mit.edu	37	chr3	63965681	63965681	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttctctgtccaaaagcaaagGaggcagtgcaagtggaagca	12	8	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:63965681G>C	uc003dlw.3	+	6	1143	c.590G>C	c.(589-591)GGA>GCA	p.G197A	ATXN7_uc003dlv.2_Missense_Mutation_p.G197A|ATXN7_uc010hnv.2_Missense_Mutation_p.G197A|ATXN7_uc010hnw.2_Missense_Mutation_p.G52A|ATXN7_uc011bfn.1_Missense_Mutation_p.G52A	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	197	Ser-rich.				cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		AAAAGCAAAGGAGGCAGTGCA	0.478													11	128	---	---	---	---	PASS	C	63965681	C	C	63965681	3	2	119	1	0	0	0	0	1	0	0	0	1215	1174	41	2	672	2	ATXN7	3	63965681	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5831295	63965681	134056749	254	43427										
PSMD6	9861	broad.mit.edu	37	chr3	64004611	64004611	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttgaaacagtgtcaaggaaGagttcagctgcctgtttgaa	12	6	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:64004611G>C	uc003dma.1	-	4	625	c.600C>G	c.(598-600)CTC>CTG	p.L200L	PSMD6_uc003dlz.1_Silent_p.L151L|PSMD6_uc003dmb.1_Silent_p.L253L|PSMD6_uc003dmc.1_Silent_p.L161L|PSMD6_uc003dmd.1_Silent_p.L162L	NM_014814	NP_055629	Q15008	PSMD6_HUMAN	proteasome (prosome, macropain) 26S subunit,	200	PCI.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	ATPase activity|protein binding			central_nervous_system(1)|skin(1)	2		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000805)|Kidney(15;0.00188)|KIRC - Kidney renal clear cell carcinoma(15;0.00212)		TGTCAAGGAAGAGTTCAGCTG	0.388													50	289	---	---	---	---	PASS	C	64004611	C	C	64004611	2	2	119	1	0	0	0	0	0	0	0	1	12702	929	33	2		2	PSMD6	3	64004611	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	38930	64004611	134017819	255	43428										
EPHA6	285220	broad.mit.edu	37	chr3	96706180	96706180	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttccctttttgcagtgggatGccatcactgaaatggatgaa	10	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:96706180G>A	uc010how.1	+	3	500	c.457G>A	c.(457-459)GCC>ACC	p.A153T	EPHA6_uc003drp.1_Missense_Mutation_p.A153T	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	58	Ephrin-binding.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						GCAGTGGGATGCCATCACTGA	0.328													25	183	---	---	---	---	PASS	A	96706180	A	A	96706180	3	1	119	1	0	0	0	0	1	0	0	0	5171	1319	46	3	467	3	EPHA6	3	96706180	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	32701569	96706180	101316250	256	43429										
ARL6	84100	broad.mit.edu	37	chr3	97510649	97510649	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taaaaggagaaggcttgcaaGaaggtgtagactggcttcaa	13	5	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:97510649G>T	uc003drv.2	+	8	827	c.514G>T	c.(514-516)GAA>TAA	p.E172*	ARL6_uc003drw.2_RNA|ARL6_uc003dru.2_Nonsense_Mutation_p.E172*|ARL6_uc010hoy.2_Nonsense_Mutation_p.E172*	NM_177976	NP_816931	Q9H0F7	ARL6_HUMAN	ADP-ribosylation factor-like 6	172					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)		AGGCTTGCAAGAAGGTGTAGA	0.299									Bardet-Biedl_syndrome				25	127	---	---	---	---	PASS	T	97510649	T	T	97510649	4	4	119	1	0	0	0	0	0	1	0	0	941	943	33	2	536	2	ARL6	3	97510649	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	804469	97510649	100511781	257	43430										
GABRR3	200959	broad.mit.edu	37	chr3	97731304	97731304	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagatatcaggcacccagatCtttctggtcaatctatgatc	7	10	5	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:97731304C>T	uc011bgr.1	-	4	414	c.414G>A	c.(412-414)AAG>AAA	p.K138K		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	138	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0						GCACCCAGATCTTTCTGGTCA	0.418													30	149	---	---	---	---	PASS	T	97731304	T	T	97731304	2	4	119	1	0	0	0	0	0	0	0	1	6178	912	32	2		2	GABRR3	3	97731304	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	220655	97731304	100291126	258	43431										
OR5H15	403274	broad.mit.edu	37	chr3	97888090	97888090	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acatttactgtgacactatcCcattgtctaagatttcttgt	5	9	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:97888090C>A	uc011bgu.1	+	1	547	c.547C>A	c.(547-549)CCA>ACA	p.P183T		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.P183L(1)		ovary(1)|skin(1)	2						TGACACTATCCCATTGTCTAA	0.313													12	76	---	---	---	---	PASS	A	97888090	A	A	97888090	3	1	119	1	0	0	0	0	1	0	0	0	11161	623	22	3	549	3	OR5H15	3	97888090	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	156786	97888090	100134340	259	43432										
OR5K4	403278	broad.mit.edu	37	chr3	98072901	98072901	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttctgggcaacctggctctGatggattcctgctgttcctg	11	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:98072901G>C	uc011bgv.1	+	1	204	c.204G>C	c.(202-204)CTG>CTC	p.L68L		NM_001005517	NP_001005517	A6NMS3	OR5K4_HUMAN	olfactory receptor, family 5, subfamily K,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						ACCTGGCTCTGATGGATTCCT	0.433													256	539	---	---	---	---	PASS	C	98072901	C	C	98072901	2	2	119	1	0	0	0	0	0	0	0	1	11169	1277	45	2		2	OR5K4	3	98072901	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	184811	98072901	99949529	260	43433										
OR5K2	402135	broad.mit.edu	37	chr3	98216823	98216823	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctctatgaatgtgcagtacAgttttattttctttgcactg	7	8	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:98216823A>G	uc011bgx.1	+	1	299	c.299A>G	c.(298-300)CAG>CGG	p.Q100R		NM_001004737	NP_001004737	Q8NHB8	OR5K2_HUMAN	olfactory receptor, family 5, subfamily K,	100	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						TGTGCAGTACAGTTTTATTTT	0.468													51	353	---	---	---	---	PASS	G	98216823	G	G	98216823	3	3	119	1	0	0	0	0	1	0	0	0	11167	188	7	5	301	5	OR5K2	3	98216823	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	143922	98216823	99805607	261	43434										
DCBLD2	131566	broad.mit.edu	37	chr3	98538068	98538068	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttattttcttttccttattCaaatctatttgtaaccactg	3	8	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:98538068C>G	uc003dtd.2	-	8	1428	c.1065G>C	c.(1063-1065)TTG>TTC	p.L355F	DCBLD2_uc003dte.2_Missense_Mutation_p.L355F	NM_080927	NP_563615	Q96PD2	DCBD2_HUMAN	discoidin, CUB and LCCL domain containing 2	355	Extracellular (Potential).|F5/8 type C.				cell adhesion|intracellular receptor mediated signaling pathway|negative regulation of cell growth|wound healing	cell surface|integral to plasma membrane				ovary(2)|central_nervous_system(1)	3						TTTCCTTATTCAAATCTATTT	0.338													8	21	---	---	---	---	PASS	G	98538068	G	G	98538068	3	3	119	1	0	0	0	0	1	0	0	0	4281	825	29	2	1298	2	DCBLD2	3	98538068	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	321245	98538068	99484362	262	43435										
GPR128	84873	broad.mit.edu	37	chr3	100413697	100413697	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagaaggaagtcattgccttCagtgacgcggccgaggctgc	15	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:100413697C>T	uc003duc.2	+	16	2514	c.2246C>T	c.(2245-2247)TCA>TTA	p.S749L	GPR128_uc011bhc.1_Missense_Mutation_p.S450L|GPR128_uc003dud.2_Missense_Mutation_p.S272L	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	749	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						TCATTGCCTTCAGTGACGCGG	0.443													42	98	---	---	---	---	PASS	T	100413697	T	T	100413697	3	4	119	1	0	0	0	0	1	0	0	0	6641	838	29	2	2308	2	GPR128	3	100413697	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1875629	100413697	97608733	263	43436										
ZPLD1	131368	broad.mit.edu	37	chr3	102175084	102175084	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatggaaatgcaacttcagtGcaagtaggaaatatttcagg	10	5	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:102175084G>T	uc003dvs.1	+	11	1257	c.375G>T	c.(373-375)GTG>GTT	p.V125V	ZPLD1_uc003dvt.1_Silent_p.V141V|ZPLD1_uc011bhg.1_Silent_p.V125V	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	125	ZP.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						CAACTTCAGTGCAAGTAGGAA	0.358													53	240	---	---	---	---	PASS	T	102175084	T	T	102175084	2	4	119	1	0	0	0	0	0	0	0	1	18218	1306	46	3		3	ZPLD1	3	102175084	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1761387	102175084	95847346	264	43437										
ALCAM	214	broad.mit.edu	37	chr3	105238952	105238952	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attcagcatatggagataccAttatcataccttgccgactt	6	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:105238952A>G	uc003dvx.2	+	2	655	c.115A>G	c.(115-117)ATT>GTT	p.I39V	ALCAM_uc003dvv.2_Missense_Mutation_p.I39V|ALCAM_uc003dvw.1_Missense_Mutation_p.I39V|ALCAM_uc003dvy.2_Missense_Mutation_p.I39V|ALCAM_uc011bhh.1_5'UTR	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	39	Extracellular (Potential).|Ig-like V-type 1.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						TGGAGATACCATTATCATACC	0.318													70	152	---	---	---	---	PASS	G	105238952	G	G	105238952	3	3	119	1	0	0	0	0	1	0	0	0	487	217	8	5	121	5	ALCAM	3	105238952	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	3063868	105238952	92783478	265	43438										
MYH15	22989	broad.mit.edu	37	chr3	108174595	108174595	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctggttaccttagtgattccAaatcggtactgggtatggtc	11	8	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:108174595A>T	uc003dxa.1	-	21	2367	c.2310T>A	c.(2308-2310)TTT>TTA	p.F770L		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	770	Myosin head-like.|Actin-binding (By similarity).					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TAGTGATTCCAAATCGGTACT	0.418													39	218	---	---	---	---	PASS	T	108174595	T	T	108174595	3	4	119	1	0	0	0	0	1	0	0	0	10034	127	5	5	3618	5	MYH15	3	108174595	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	2935643	108174595	89847835	266	43439										
KIAA1524	57650	broad.mit.edu	37	chr3	108279531	108279531	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagtttctctattaattcttCaatattcaatccaggaacac	3	9	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:108279531C>T	uc003dxb.3	-	14	2061	c.1792G>A	c.(1792-1794)GAA>AAA	p.E598K	KIAA1524_uc010hpv.1_3'UTR	NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	598						cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						ATTAATTCTTCAATATTCAAT	0.348													13	399	---	---	---	---	PASS	T	108279531	T	T	108279531	3	4	119	1	0	0	0	0	1	0	0	0	8239	835	29	2	957	2	KIAA1524	3	108279531	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	104936	108279531	89742899	267	43440										
DPPA4	55211	broad.mit.edu	37	chr3	109049596	109049596	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagggacgtttcccccttttCcacctttaattttttttgca	5	12	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:109049596C>G	uc003dxq.3	-	5	509	c.454G>C	c.(454-456)GAA>CAA	p.E152Q	DPPA4_uc011bho.1_Intron|DPPA4_uc011bhp.1_Missense_Mutation_p.E152Q	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	152						nucleus	protein binding			upper_aerodigestive_tract(1)	1						TCCCCCTTTTCCACCTTTAAT	0.438													8	194	---	---	---	---	PASS	G	109049596	G	G	109049596	3	3	119	1	0	0	0	0	1	0	0	0	4736	864	30	2	472	2	DPPA4	3	109049596	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	770065	109049596	88972834	268	43441										
PHLDB2	90102	broad.mit.edu	37	chr3	111603055	111603055	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctcagcccaaagaaatactCttccagtctgagatttaaag	6	11	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:111603055C>T	uc010hqa.2	+	2	542	c.131C>T	c.(130-132)TCT>TTT	p.S44F	PHLDB2_uc003dyc.2_Missense_Mutation_p.S71F|PHLDB2_uc003dyd.2_Missense_Mutation_p.S44F|PHLDB2_uc003dyg.2_Missense_Mutation_p.S44F|PHLDB2_uc003dyh.2_Missense_Mutation_p.S44F|PHLDB2_uc003dye.3_Missense_Mutation_p.S44F|PHLDB2_uc003dyf.3_Missense_Mutation_p.S44F	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	44						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						AAGAAATACTCTTCCAGTCTG	0.448													47	328	---	---	---	---	PASS	T	111603055	T	T	111603055	3	4	119	1	0	0	0	0	1	0	0	0	11852	913	32	2	218	2	PHLDB2	3	111603055	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2553459	111603055	86419375	269	43442										
PHLDB2	90102	broad.mit.edu	37	chr3	111603312	111603312	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttggaagagcagactttgatCattatactggccgggacagt	12	7	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:111603312C>G	uc010hqa.2	+	2	799	c.388C>G	c.(388-390)CAT>GAT	p.H130D	PHLDB2_uc003dyc.2_Missense_Mutation_p.H157D|PHLDB2_uc003dyd.2_Missense_Mutation_p.H130D|PHLDB2_uc003dyg.2_Missense_Mutation_p.H130D|PHLDB2_uc003dyh.2_Missense_Mutation_p.H130D|PHLDB2_uc003dye.3_Missense_Mutation_p.H130D|PHLDB2_uc003dyf.3_Missense_Mutation_p.H130D	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	130						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						AGACTTTGATCATTATACTGG	0.443													61	498	---	---	---	---	PASS	G	111603312	G	G	111603312	3	3	119	1	0	0	0	0	1	0	0	0	11852	826	29	2	475	2	PHLDB2	3	111603312	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	257	111603312	86419118	270	43443										
GCET2	257144	broad.mit.edu	37	chr3	111842400	111842400	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggcatgagaagttcatattCatcttctggggatcgggcat	12	7	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:111842400C>T	uc003dys.1	-	6	589	c.439G>A	c.(439-441)GAA>AAA	p.E147K	C3orf52_uc011bht.1_Intron|C3orf52_uc003dyr.1_Intron|GCET2_uc003dyt.1_Missense_Mutation_p.E81K	NM_152785	NP_689998	Q8N6F7	GCET2_HUMAN	germinal center expressed transcript 2 isoform	147						mitochondrion					0						AGTTCATATTCATCTTCTGGG	0.418													12	265	---	---	---	---	PASS	T	111842400	T	T	111842400	3	4	119	1	0	0	0	0	1	0	0	0	6288	835	29	2	101	2	GCET2	3	111842400	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	239088	111842400	86180030	271	43444										
WDR52	55779	broad.mit.edu	37	chr3	113138899	113138899	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccttcaccactgctacttcGcaggtagatctgttccttgg	8	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:113138899G>A	uc003eae.1	-	5	581	c.535C>T	c.(535-537)CGA>TGA	p.R179*		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	179										central_nervous_system(1)	1						CTGCTACTTCGCAGGTAGATC	0.433													56	94	---	---	---	---	PASS	A	113138899	A	A	113138899	4	1	119	1	0	0	0	0	0	1	0	0	17301	1095	38	1	5168	1	WDR52	3	113138899	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1296499	113138899	84883531	272	43445										
GRAMD1C	54762	broad.mit.edu	37	chr3	113563411	113563411	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggaagatgtagaggaaaatcCtagtccaactgtggaagaga	13	5	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:113563411C>G	uc003eaq.3	+	2	165	c.89C>G	c.(88-90)CCT>CGT	p.P30R	GRAMD1C_uc011bil.1_RNA|GRAMD1C_uc011bim.1_RNA	NM_017577	NP_060047	Q8IYS0	GRM1C_HUMAN	GRAM domain containing 1C	30						integral to membrane				ovary(2)|skin(1)	3						GAGGAAAATCCTAGTCCAACT	0.373													26	241	---	---	---	---	PASS	G	113563411	G	G	113563411	3	3	119	1	0	0	0	0	1	0	0	0	6749	681	24	4	95	4	GRAMD1C	3	113563411	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	424512	113563411	84459019	273	43446										
GRAMD1C	54762	broad.mit.edu	37	chr3	113664295	113664295	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acgtttgatctactaaataaGaataagactggcatggctgt	9	6	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:113664295G>A	uc003eaq.3	+	18	2035	c.1959G>A	c.(1957-1959)AAG>AAA	p.K653K	GRAMD1C_uc011bil.1_RNA|GRAMD1C_uc003ear.2_Silent_p.K486K|GRAMD1C_uc003eas.2_Silent_p.K448K|GRAMD1C_uc003eat.2_Silent_p.K312K|ZDHHC23_uc003eau.2_5'Flank|ZDHHC23_uc003eav.2_5'Flank	NM_017577	NP_060047	Q8IYS0	GRM1C_HUMAN	GRAM domain containing 1C	653						integral to membrane				ovary(2)|skin(1)	3						TACTAAATAAGAATAAGACTG	0.338													17	121	---	---	---	---	PASS	A	113664295	A	A	113664295	2	1	119	1	0	0	0	0	0	0	0	1	6749	933	33	2		2	GRAMD1C	3	113664295	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	100884	113664295	84358135	274	43447										
KIAA1407	57577	broad.mit.edu	37	chr3	113720457	113720457	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctaaccattttcttcagtctCttctcttctcgttttctttc	2	13	6	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:113720457C>G	uc003eax.2	-	13	2295	c.2148G>C	c.(2146-2148)AAG>AAC	p.K716N	KIAA1407_uc011bin.1_RNA	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	716	Potential.									ovary(2)	2						TCTTCAGTCTCTTCTCTTCTC	0.453													48	224	---	---	---	---	PASS	G	113720457	G	G	113720457	3	3	119	1	0	0	0	0	1	0	0	0	8229	912	32	2	682	2	KIAA1407	3	113720457	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	56162	113720457	84301973	275	43448										
GPR156	165829	broad.mit.edu	37	chr3	119886737	119886737	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgggggctcctctgagttCtccagatgcctctgtctctg	11	13	5	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:119886737C>G	uc011bjf.1	-	9	1587	c.1587G>C	c.(1585-1587)GAG>GAC	p.E529D	GPR156_uc011bjg.1_Missense_Mutation_p.E525D	NM_153002	NP_694547	Q8NFN8	GP156_HUMAN	G protein-coupled receptor 156	529	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.19)		CCTCTGAGTTCTCCAGATGCC	0.582													80	264	---	---	---	---	PASS	G	119886737	G	G	119886737	3	3	119	1	0	0	0	0	1	0	0	0	6661	912	32	2	861	2	GPR156	3	119886737	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	6166280	119886737	78135693	276	43449										
HGD	3081	broad.mit.edu	37	chr3	120347245	120347245	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctcaattaggttctgctggGttcctggagttgggagtgaa	14	6	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:120347245G>T	uc003edw.2	-	14	1690	c.1320C>A	c.(1318-1320)AAC>AAA	p.N440K	HGD_uc003edv.2_Missense_Mutation_p.N299K	NM_000187	NP_000178	Q93099	HGD_HUMAN	homogentisate 1,2-dioxygenase	440					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	homogentisate 1,2-dioxygenase activity|metal ion binding				0				GBM - Glioblastoma multiforme(114;0.158)		GTTCTGCTGGGTTCCTGGAGT	0.468													51	296	---	---	---	---	PASS	T	120347245	T	T	120347245	3	4	119	1	0	0	0	0	1	0	0	0	7084	1252	44	3	21	3	HGD	3	120347245	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	460508	120347245	77675185	277	43450										
CASR	846	broad.mit.edu	37	chr3	122003739	122003739	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcaccttctcactgagctttGatgagcctcagaagaacgcc	8	13	3	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:122003739G>C	uc003eev.3	+	7	3310	c.2938G>C	c.(2938-2940)GAT>CAT	p.D980H	CASR_uc003eew.3_Missense_Mutation_p.D990H	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	980	Cytoplasmic (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	ACTGAGCTTTGATGAGCCTCA	0.582													3	82	---	---	---	---	PASS	C	122003739	C	C	122003739	3	2	119	1	0	0	0	0	1	0	0	0	2682	1290	45	2	2990	2	CASR	3	122003739	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1656494	122003739	76018691	278	43451										
FAM162A	26355	broad.mit.edu	37	chr3	122126180	122126180	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgcgagtgaagatcagctatCtaatgattgccctgacggtg	12	8	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:122126180C>G	uc003eez.2	+	4	406	c.316C>G	c.(316-318)CTA>GTA	p.L106V	FAM162A_uc011bjq.1_Missense_Mutation_p.L106V	NM_014367	NP_055182	Q96A26	F162A_HUMAN	growth and transformation-dependent protein	106	Helical; (Potential).					integral to membrane				ovary(1)	1						GATCAGCTATCTAATGATTGC	0.418													29	159	---	---	---	---	PASS	G	122126180	G	G	122126180	3	3	119	1	0	0	0	0	1	0	0	0	5474	912	32	2	330	2	FAM162A	3	122126180	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	122441	122126180	75896250	279	43452										
DIRC2	84925	broad.mit.edu	37	chr3	122545861	122545861	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catcacctcttcttgctgcaGagagcagcagggcgcatatt	10	12	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:122545861G>C	uc003efw.3	+	3	791	c.652G>C	c.(652-654)GAG>CAG	p.E218Q	DIRC2_uc010hrl.2_RNA|DIRC2_uc010hrm.2_Missense_Mutation_p.E56Q	NM_032839	NP_116228	Q96SL1	DIRC2_HUMAN	disrupted in renal carcinoma 2	218					transport	integral to membrane					0				GBM - Glioblastoma multiforme(114;0.0614)		TCTTGCTGCAGAGAGCAGCAG	0.408													97	165	---	---	---	---	PASS	C	122545861	C	C	122545861	3	2	119	1	0	0	0	0	1	0	0	0	4534	943	33	2	662	2	DIRC2	3	122545861	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	419681	122545861	75476569	280	43453										
MYLK	4638	broad.mit.edu	37	chr3	123420317	123420317	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctggcagagctgttctgtagCatcagtgacacctggcaact	11	11	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:123420317C>A	uc003ego.2	-	17	2712	c.2430G>T	c.(2428-2430)ATG>ATT	p.M810I	MYLK_uc011bjw.1_Missense_Mutation_p.M810I|MYLK_uc003egp.2_Missense_Mutation_p.M741I|MYLK_uc003egq.2_Missense_Mutation_p.M810I|MYLK_uc003egr.2_Missense_Mutation_p.M741I|MYLK_uc003egs.2_Missense_Mutation_p.M634I|MYLK_uc003egt.2_Missense_Mutation_p.M1I	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	810	Ig-like C2-type 6.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		TGTTCTGTAGCATCAGTGACA	0.597													21	121	---	---	---	---	PASS	A	123420317	A	A	123420317	3	1	119	1	0	0	0	0	1	0	0	0	10056	710	25	3	3386	3	MYLK	3	123420317	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	874456	123420317	74602113	281	43454										
KALRN	8997	broad.mit.edu	37	chr3	124281801	124281801	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctgctggagcggcccagcGagcggcctggttggtgtctg	18	11	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:124281801G>T	uc003ehg.2	+	34	5168	c.5041G>T	c.(5041-5043)GAG>TAG	p.E1681*	KALRN_uc003ehi.2_Nonsense_Mutation_p.E54*	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1681	SH3 1.				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						GCGGCCCAGCGAGCGGCCTGG	0.657													8	57	---	---	---	---	PASS	T	124281801	T	T	124281801	4	4	119	1	0	0	0	0	0	1	0	0	7975	1059	37	2	5242	2	KALRN	3	124281801	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	861484	124281801	73740629	282	43455										
C3orf27	23434	broad.mit.edu	37	chr3	128292467	128292467	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcccagggtgcctaggggctGagagtctgggggtccctgga	19	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:128292467G>A	uc003ekq.2	-	3	1073	c.106C>T	c.(106-108)CAG>TAG	p.Q36*		NM_007354	NP_031380	O15544	GR6_HUMAN	putative GR6 protein	36											0				GBM - Glioblastoma multiforme(114;0.176)		CCTAGGGGCTGAGAGTCTGGG	0.642													5	95	---	---	---	---	PASS	A	128292467	A	A	128292467	4	1	119	1	0	0	0	0	0	1	0	0	2219	1299	45	2	347	2	C3orf27	3	128292467	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4010666	128292467	69729963	283	43456										
ACAD9	28976	broad.mit.edu	37	chr3	128631375	128631375	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccagaaaacctagatgagcaGattaagaaagtgtcccagca	9	9	0	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:128631375G>C	uc003ela.3	+	18	1993	c.1791G>C	c.(1789-1791)CAG>CAC	p.Q597H	KIAA1257_uc003elg.1_Intron|ACAD9_uc011bks.1_Missense_Mutation_p.Q474H|ACAD9_uc003elb.2_Missense_Mutation_p.Q474H|ACAD9_uc003eld.1_RNA|ACAD9_uc003ele.2_Missense_Mutation_p.Q249H|uc003elf.1_Intron	NM_014049	NP_054768	Q9H845	ACAD9_HUMAN	acyl-Coenzyme A dehydrogenase family, member 9	597						mitochondrion	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding			ovary(2)|central_nervous_system(1)	3						TAGATGAGCAGATTAAGAAAG	0.522													28	93	---	---	---	---	PASS	C	128631375	C	C	128631375	3	2	119	1	0	0	0	0	1	0	0	0	111	933	33	2	1861	2	ACAD9	3	128631375	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	338908	128631375	69391055	284	43457										
KIAA1257	57501	broad.mit.edu	37	chr3	128706490	128706490	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaagctcccacgtcgtctgtGaagccggcagtctttaatcg	10	12	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:128706490G>T	uc003elj.3	-	4	832	c.636C>A	c.(634-636)TTC>TTA	p.F212L	KIAA1257_uc003elg.1_Missense_Mutation_p.F212L|KIAA1257_uc003eli.3_Missense_Mutation_p.F100L	NM_020741	NP_065792	Q9ULG3	K1257_HUMAN	hypothetical protein LOC57501	212											0						CGTCGTCTGTGAAGCCGGCAG	0.408													9	176	---	---	---	---	PASS	T	128706490	T	T	128706490	3	4	119	1	0	0	0	0	1	0	0	0	8218	1281	45	2	613	2	KIAA1257	3	128706490	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	75115	128706490	69315940	285	43458										
MBD4	8930	broad.mit.edu	37	chr3	129152001	129152001	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	accaagaggtttaagaagttCtgacacatctctccagtctg	8	10	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:129152001C>G	uc003emh.1	-	6	1677	c.1501G>C	c.(1501-1503)GAA>CAA	p.E501Q	MBD4_uc003emi.1_Missense_Mutation_p.E501Q|MBD4_uc003emj.1_Missense_Mutation_p.E495Q|MBD4_uc003emk.1_Missense_Mutation_p.E183Q|MBD4_uc011bkw.1_Missense_Mutation_p.E501Q	NM_003925	NP_003916	O95243	MBD4_HUMAN	methyl-CpG binding domain protein 4	501					depyrimidination	nucleoplasm	DNA N-glycosylase activity|endodeoxyribonuclease activity|protein binding|satellite DNA binding			ovary(1)|lung(1)	2						TTAAGAAGTTCTGACACATCT	0.423								BER_DNA_glycosylases					13	236	---	---	---	---	PASS	G	129152001	G	G	129152001	3	3	119	1	0	0	0	0	1	0	0	0	9346	922	32	2	253	2	MBD4	3	129152001	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	445511	129152001	68870429	286	43459										
COL6A6	131873	broad.mit.edu	37	chr3	130305487	130305487	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcatgagagaacttggaagcCggctgtcaaagcagctggta	14	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:130305487C>T	uc010htl.2	+	10	4139	c.4108C>T	c.(4108-4110)CGG>TGG	p.R1370W	COL6A6_uc003eni.3_5'UTR	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1370	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						ACTTGGAAGCCGGCTGTCAAA	0.368													39	96	---	---	---	---	PASS	T	130305487	T	T	130305487	3	4	119	1	0	0	0	0	1	0	0	0	3703	643	23	1	4146	1	COL6A6	3	130305487	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1153486	130305487	67716943	287	43460										
COL6A6	131873	broad.mit.edu	37	chr3	130340679	130340679	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttcaggggcctccaggaccCggaggagaggcagggaatca	16	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:130340679C>T	uc010htl.2	+	23	4861	c.4830C>T	c.(4828-4830)CCC>CCT	p.P1610P	COL6A6_uc003eni.3_5'UTR	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1610	Triple-helical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CTCCAGGACCCGGAGGAGAGG	0.433													23	95	---	---	---	---	PASS	T	130340679	T	T	130340679	2	4	119	1	0	0	0	0	0	0	0	1	3703	639	23	1		1	COL6A6	3	130340679	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	35192	130340679	67681751	288	43461										
PIK3R4	30849	broad.mit.edu	37	chr3	130435332	130435332	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atttcgtttcttctgacgcaTgtgaagatgtctgaacaagc	9	8	3	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:130435332T>A	uc003enj.2	-	9	2820	c.2239A>T	c.(2239-2241)ATG>TTG	p.M747L		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	747					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						TTCTGACGCATGTGAAGATGT	0.433													31	157	---	---	---	---	PASS	A	130435332	A	A	130435332	3	1	119	1	0	0	0	0	1	0	0	0	11921	1464	51	5	1885	5	PIK3R4	3	130435332	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	94653	130435332	67587098	289	43462										
DNAJC13	23317	broad.mit.edu	37	chr3	132175390	132175390	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caggttcaatgctaatatttCatacagtggagtcctacatg	8	8	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:132175390C>T	uc003eor.2	+	11	1210	c.1145C>T	c.(1144-1146)TCA>TTA	p.S382L	DNAJC13_uc010htq.1_Missense_Mutation_p.S382L|DNAJC13_uc003eos.1_Missense_Mutation_p.S49L	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	382							heat shock protein binding			ovary(1)|breast(1)	2						GCTAATATTTCATACAGTGGA	0.308													17	142	---	---	---	---	PASS	T	132175390	T	T	132175390	3	4	119	1	0	0	0	0	1	0	0	0	4632	838	29	2	1183	2	DNAJC13	3	132175390	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1740058	132175390	65847040	290	43463										
DNAJC13	23317	broad.mit.edu	37	chr3	132257044	132257044	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggagttgctggctaccttaCcgcaggtacatctacatcag	10	11	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:132257044C>T	uc003eor.2	+	56	6715	c.6650C>T	c.(6649-6651)ACC>ATC	p.T2217I		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	2217							heat shock protein binding			ovary(1)|breast(1)	2						GGCTACCTTACCGCAGGTACA	0.453													6	77	---	---	---	---	PASS	T	132257044	T	T	132257044	3	4	119	1	0	0	0	0	1	0	0	0	4632	507	18	3	6868	3	DNAJC13	3	132257044	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	81654	132257044	65765386	291	43464										
NPHP3	27031	broad.mit.edu	37	chr3	132423047	132423047	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actccaagcacttactttctCaaatcccaactcatgggctg	5	14	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:132423047C>G	uc003epe.1	-	9	1596	c.1519G>C	c.(1519-1521)GAG>CAG	p.E507Q	NPHP3_uc003epf.1_Missense_Mutation_p.E262Q	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	507					maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						CTTACTTTCTCAAATCCCAAC	0.353													54	273	---	---	---	---	PASS	G	132423047	G	G	132423047	3	3	119	1	0	0	0	0	1	0	0	0	10580	835	29	2	2549	2	NPHP3	3	132423047	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	166003	132423047	65599383	292	43465										
KY	339855	broad.mit.edu	37	chr3	134362194	134362194	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtgatgacctggggctgctGagggtgctgcttctccacca	14	11	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:134362194G>A	uc010hty.2	-	3	288	c.226C>T	c.(226-228)CAG>TAG	p.Q76*	KY_uc011blw.1_Nonsense_Mutation_p.Q76*|KY_uc011blx.1_Intron|KY_uc003eqs.1_Intron	NM_178554	NP_848649	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase	76						cytoskeleton|Z disc	peptidase activity			ovary(2)	2						TGGGGCTGCTGAGGGTGCTGC	0.552													20	53	---	---	---	---	PASS	A	134362194	A	A	134362194	4	1	119	1	0	0	0	0	0	1	0	0	8586	1299	45	2	1795	2	KY	3	134362194	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1939147	134362194	63660236	293	43466										
ACPL2	92370	broad.mit.edu	37	chr3	140997235	140997235	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggaatgagtagcaagagtcGaaagagaatcatgcccgacc	12	8	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:140997235G>A	uc003etu.2	+	5	430	c.131G>A	c.(130-132)CGA>CAA	p.R44Q	ACPL2_uc003etv.2_Missense_Mutation_p.R44Q|ACPL2_uc011bna.1_Missense_Mutation_p.R6Q|ACPL2_uc011bnb.1_Missense_Mutation_p.R27Q	NM_152282	NP_689495	Q8TE99	ACPL2_HUMAN	acid phosphatase-like 2 precursor	44						extracellular region	acid phosphatase activity			skin(1)	1						AGCAAGAGTCGAAAGAGAATC	0.567													27	101	---	---	---	---	PASS	A	140997235	A	A	140997235	3	1	119	1	0	0	0	0	1	0	0	0	166	1058	37	2	137	2	ACPL2	3	140997235	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6635041	140997235	57025195	294	43467										
RASA2	5922	broad.mit.edu	37	chr3	141290324	141290324	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgctgttttgccccttgtacGactgctgctgcaccatgata	9	12	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:141290324G>T	uc003etz.1	+	11	1097	c.1097G>T	c.(1096-1098)CGA>CTA	p.R366L	RASA2_uc010huq.1_Missense_Mutation_p.R366L|RASA2_uc003eua.1_Missense_Mutation_p.R366L|RASA2_uc011bnc.1_5'UTR	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	366	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6						CCCCTTGTACGACTGCTGCTG	0.368													149	302	---	---	---	---	PASS	T	141290324	T	T	141290324	3	4	119	1	0	0	0	0	1	0	0	0	13061	1058	37	2	1139	2	RASA2	3	141290324	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	293089	141290324	56732106	295	43468										
SR140	23350	broad.mit.edu	37	chr3	142741338	142741338	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcttttaccctttttaataGatgaatgaagaaatgctgtg	7	5	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:142741338G>C	uc003evh.1	+	11	952	c.853_splice	c.e11-1	p.M285_splice	SR140_uc003evi.1_Splice_Site|SR140_uc011bnj.1_Splice_Site_p.M285_splice|SR140_uc003evj.1_Splice_Site|SR140_uc003evk.1_Splice_Site_p.M284_splice	NM_001080415	NP_001073884	O15042	SR140_HUMAN	U2-associated SR140 protein						RNA processing	nucleus	nucleotide binding|RNA binding				0						CTTTTTAATAGATGAATGAAG	0.318													25	154	---	---	---	---	PASS	C	142741338	C	C	142741338	5	2	119	1	0	0	0	0	0	0	1	0	15130	956	33	2	894	2	SR140	3	142741338	Splice_Site	SNP	G	TCGA-60-2698-01A-01D-1522-08	1451014	142741338	55281092	296	43469										
HLTF	6596	broad.mit.edu	37	chr3	148786065	148786065	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttaactctttcaataggaaGaggtctgccatcatggaagt	9	7	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:148786065G>C	uc003ewq.1	-	8	1170	c.952C>G	c.(952-954)CTT>GTT	p.L318V	HLTF_uc003ewr.1_Missense_Mutation_p.L318V|HLTF_uc003ews.1_Missense_Mutation_p.L318V|HLTF_uc010hve.1_Missense_Mutation_p.L318V	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	318					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			TCAATAGGAAGAGGTCTGCCA	0.338													27	396	---	---	---	---	PASS	C	148786065	C	C	148786065	3	2	119	1	0	0	0	0	1	0	0	0	7215	942	33	2	2149	2	HLTF	3	148786065	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6044727	148786065	49236365	297	43470										
TMEM14E	645843	broad.mit.edu	37	chr3	152058442	152058442	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccacaagcgtaaatgttccaGagtgttagaatcttattcgc	8	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:152058442G>C	uc010hvo.2	-	1	338	c.252C>G	c.(250-252)CTC>CTG	p.L84L	MBNL1_uc003ezh.2_Intron|MBNL1_uc003ezi.2_Intron|MBNL1_uc003ezj.2_Intron|MBNL1_uc003ezm.2_Intron|MBNL1_uc003ezl.2_Intron|MBNL1_uc003ezp.2_Intron|MBNL1_uc003ezn.2_Intron|MBNL1_uc003ezo.2_Intron	NM_001123228	NP_001116700	Q6UXP3	TM14E_HUMAN	transmembrane protein 14E	84	Helical; (Potential).					integral to membrane					0						AAATGTTCCAGAGTGTTAGAA	0.428													22	111	---	---	---	---	PASS	C	152058442	C	C	152058442	2	2	119	1	0	0	0	0	0	0	0	1	16063	929	33	2		2	TMEM14E	3	152058442	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	3272377	152058442	45963988	298	43471										
MME	4311	broad.mit.edu	37	chr3	154858076	154858076	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acttttcactagagatcaatGggaaggtaagtggtaagttt	11	4	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:154858076G>T	uc010hvr.1	+	10	1163	c.952G>T	c.(952-954)GGG>TGG	p.G318W	MME_uc003fab.1_Missense_Mutation_p.G318W|MME_uc003fac.1_Missense_Mutation_p.G318W|MME_uc003fad.1_Missense_Mutation_p.G318W|MME_uc003fae.1_Missense_Mutation_p.G318W	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	318	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	AGAGATCAATGGGAAGGTAAG	0.333													4	109	---	---	---	---	PASS	T	154858076	T	T	154858076	3	4	119	1	0	0	0	0	1	0	0	0	9645	1348	47	3	986	3	MME	3	154858076	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2799634	154858076	43164354	299	43472										
SMC4	10051	broad.mit.edu	37	chr3	160150074	160150074	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcataatcttttcacaggaaGaattgtatttgcaacgggta	8	6	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:160150074G>T	uc003fdh.2	+	22	3414	c.3301G>T	c.(3301-3303)GAA>TAA	p.E1101*	IFT80_uc003fda.2_Intron|SMC4_uc003fdi.2_Nonsense_Mutation_p.E1076*|SMC4_uc003fdj.2_Nonsense_Mutation_p.E1101*|SMC4_uc010hwd.2_Nonsense_Mutation_p.E1043*|SMC4_uc003fdl.2_Nonsense_Mutation_p.E804*	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	1101					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TTCACAGGAAGAATTGTATTT	0.269													7	198	---	---	---	---	PASS	T	160150074	T	T	160150074	4	4	119	1	0	0	0	0	0	1	0	0	14785	943	33	2	3383	2	SMC4	3	160150074	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5291998	160150074	37872356	300	43473										
PPM1L	151742	broad.mit.edu	37	chr3	160783332	160783332	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccttaccagttgaaggaaaGaaagaggataaagagagcag	13	5	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:160783332G>C	uc003fdr.2	+	3	817	c.716G>C	c.(715-717)AGA>ACA	p.R239T	PPM1L_uc003fds.2_Missense_Mutation_p.R60T|PPM1L_uc003fdt.2_Missense_Mutation_p.R112T|PPM1L_uc010hwf.2_RNA	NM_139245	NP_640338	Q5SGD2	PPM1L_HUMAN	protein phosphatase 1 (formerly 2C)-like	239	Cytoplasmic (Potential).|PP2C-like.				protein dephosphorylation|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(1)	1			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			TTGAAGGAAAGAAAGAGGATA	0.507													14	205	---	---	---	---	PASS	C	160783332	C	C	160783332	3	2	119	1	0	0	0	0	1	0	0	0	12344	942	33	2	726	2	PPM1L	3	160783332	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	633258	160783332	37239098	301	43474										
SI	6476	broad.mit.edu	37	chr3	164754253	164754253	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aatgcgactataagtcctagAggattcttacggctgttaag	10	7	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:164754253A>T	uc003fei.2	-	22	2501	c.2439T>A	c.(2437-2439)CCT>CCA	p.P813P		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	813	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)	TAAGTCCTAGAGGATTCTTAC	0.348										HNSCC(35;0.089)			61	261	---	---	---	---	PASS	T	164754253	T	T	164754253	2	4	119	1	0	0	0	0	0	0	0	1	14297	291	11	5		5	SI	3	164754253	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	3970921	164754253	33268177	302	43475										
SI	6476	broad.mit.edu	37	chr3	164755796	164755796	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatcaacccgttgtttcctcCatggcctttttgcaccctaa	5	14	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:164755796C>T	uc003fei.2	-	21	2380	c.2318G>A	c.(2317-2319)TGG>TAG	p.W773*		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	773	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)	TTGTTTCCTCCATGGCCTTTT	0.323										HNSCC(35;0.089)			94	162	---	---	---	---	PASS	T	164755796	T	T	164755796	4	4	119	1	0	0	0	0	0	1	0	0	14297	595	21	3	3277	3	SI	3	164755796	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1543	164755796	33266634	303	43476										
SLITRK3	22865	broad.mit.edu	37	chr3	164907126	164907126	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgggcatgaggctgaaggctGcaggctggatttcccggatg	17	8	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:164907126G>C	uc003fej.3	-	2	1937	c.1493C>G	c.(1492-1494)GCA>GGA	p.A498G	SLITRK3_uc003fek.2_Missense_Mutation_p.A498G	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	498	LRR 10.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GCTGAAGGCTGCAGGCTGGAT	0.512										HNSCC(40;0.11)			4	189	---	---	---	---	PASS	C	164907126	C	C	164907126	3	2	119	1	0	0	0	0	1	0	0	0	14744	1319	46	4	1444	4	SLITRK3	3	164907126	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	151330	164907126	33115304	304	43477										
SLITRK3	22865	broad.mit.edu	37	chr3	164907647	164907647	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttatttgaggacttgtattcGacagaagaagcagtaaaatg	10	4	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:164907647G>A	uc003fej.3	-	2	1416	c.972C>T	c.(970-972)GTC>GTT	p.V324V	SLITRK3_uc003fek.2_Silent_p.V324V	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	324	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						ACTTGTATTCGACAGAAGAAG	0.468										HNSCC(40;0.11)			18	674	---	---	---	---	PASS	A	164907647	A	A	164907647	2	1	119	1	0	0	0	0	0	0	0	1	14744	1045	37	2		2	SLITRK3	3	164907647	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	521	164907647	33114783	305	43478										
BCHE	590	broad.mit.edu	37	chr3	165548367	165548367	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgccatcataaacatgtaaaGatgatgttccagtttgaaaa	7	6	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:165548367G>A	uc003fem.3	-	2	615	c.455C>T	c.(454-456)TCT>TTT	p.S152F	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	152					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	AACATGTAAAGATGATGTTCC	0.388													18	276	---	---	---	---	PASS	A	165548367	A	A	165548367	3	1	119	1	0	0	0	0	1	0	0	0	1358	942	33	2	1365	2	BCHE	3	165548367	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	640720	165548367	32474063	306	43479										
ZBBX	79740	broad.mit.edu	37	chr3	166960328	166960328	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccacagggacccctcacatgTgaggtcttaaggaaatctgt	10	11	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:166960328T>C	uc003fep.2	-	20	2564	c.2241A>G	c.(2239-2241)TCA>TCG	p.S747S	ZBBX_uc011bpc.1_Silent_p.S786S|ZBBX_uc003feq.2_Silent_p.S718S	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	747						intracellular	zinc ion binding			ovary(2)	2						CCCTCACATGTGAGGTCTTAA	0.383													110	138	---	---	---	---	PASS	C	166960328	C	C	166960328	2	2	119	1	0	0	0	0	0	0	0	1	17513	1683	59	5		5	ZBBX	3	166960328	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	1411961	166960328	31062102	307	43480										
MECOM	2122	broad.mit.edu	37	chr3	168845735	168845735	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttttgctgaaagtcctcttCaaccattgaaaatgctgagt	7	8	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:168845735C>T	uc003ffi.3	-	4	432	c.163G>A	c.(163-165)GAA>AAA	p.E55K	MECOM_uc010hwk.1_Missense_Mutation_p.E78K|MECOM_uc003ffj.3_Missense_Mutation_p.E119K|MECOM_uc011bpi.1_Missense_Mutation_p.E55K|MECOM_uc003ffn.3_Missense_Mutation_p.E55K|MECOM_uc003ffk.2_Missense_Mutation_p.E55K|MECOM_uc003ffl.2_Missense_Mutation_p.E215K|MECOM_uc011bpj.1_Missense_Mutation_p.E243K|MECOM_uc011bpk.1_Missense_Mutation_p.E45K|MECOM_uc010hwn.2_Missense_Mutation_p.E243K|MECOM_uc003ffm.1_Missense_Mutation_p.E119K	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	55	Interaction with MAPK9, SMAD3 and probably SUV39H1.				apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						AAGTCCTCTTCAACCATTGAA	0.438													135	573	---	---	---	---	PASS	T	168845735	T	T	168845735	3	4	119	1	0	0	0	0	1	0	0	0	9422	835	29	2	3047	2	MECOM	3	168845735	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1885407	168845735	29176695	308	43481										
SAMD7	344658	broad.mit.edu	37	chr3	169644372	169644372	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaatgtatgctatttaccagCaaaggagaatggaaaaaatt	8	4	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:169644372C>G	uc003fgd.2	+	6	589	c.322C>G	c.(322-324)CAA>GAA	p.Q108E	SAMD7_uc003fge.2_Missense_Mutation_p.Q108E|SAMD7_uc011bpo.1_Missense_Mutation_p.Q9E	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	108										skin(1)	1	all_cancers(22;1.55e-22)|all_epithelial(15;2.41e-27)|all_lung(20;3.52e-17)|Lung NSC(18;1.44e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0106)			TATTTACCAGCAAAGGAGAAT	0.418													82	141	---	---	---	---	PASS	G	169644372	G	G	169644372	3	3	119	1	0	0	0	0	1	0	0	0	13824	711	25	4	336	4	SAMD7	3	169644372	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	798637	169644372	28378058	309	43482										
PRKCI	5584	broad.mit.edu	37	chr3	169998155	169998155	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acagatcgtatttatgcaatGaaagttgtgaaaaaagagct	9	4	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:169998155G>C	uc003fgs.2	+	9	1084	c.846G>C	c.(844-846)ATG>ATC	p.M282I		NM_002740	NP_002731	P41743	KPCI_HUMAN	protein kinase C, iota	282	Protein kinase.				anti-apoptosis|cellular membrane organization|cellular response to insulin stimulus|establishment or maintenance of epithelial cell apical/basal polarity|intracellular signal transduction|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|protein targeting to membrane|secretion|tight junction assembly|vesicle-mediated transport	cytosol|endosome|nucleus|polarisome	ATP binding|phospholipid binding|protein binding|protein kinase C activity|zinc ion binding			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			TTTATGCAATGAAAGTTGTGA	0.313													9	246	---	---	---	---	PASS	C	169998155	C	C	169998155	3	2	119	1	0	0	0	0	1	0	0	0	12514	1290	45	2	880	2	PRKCI	3	169998155	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	353783	169998155	28024275	310	43483										
SLC7A14	57709	broad.mit.edu	37	chr3	170201274	170201274	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtggggattccgtgtcaatgGtataatatggcaccatcaga	12	7	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:170201274G>T	uc003fgz.2	-	6	1260	c.944C>A	c.(943-945)ACC>AAC	p.T315N	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	315						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			CGTGTCAATGGTATAATATGG	0.502											OREG0015917	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	442	---	---	---	---	PASS	T	170201274	T	T	170201274	3	4	119	1	0	0	0	0	1	0	0	0	14696	1261	44	3	1383	3	SLC7A14	3	170201274	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	203119	170201274	27821156	311	43484										
PLD1	5337	broad.mit.edu	37	chr3	171321035	171321035	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctaatacgggcttgtttaTaaagtctctcagctgaatta	8	7	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:171321035T>C	uc003fhs.2	-	27	3174	c.3058A>G	c.(3058-3060)ATA>GTA	p.I1020V	PLD1_uc003fht.2_Missense_Mutation_p.I982V	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	1020					cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	GGCTTGTTTATAAAGTCTCTC	0.383													4	246	---	---	---	---	PASS	C	171321035	C	C	171321035	3	2	119	1	0	0	0	0	1	0	0	0	12045	1406	49	5	170	5	PLD1	3	171321035	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	1119761	171321035	26701395	312	43485										
PLD1	5337	broad.mit.edu	37	chr3	171394572	171394572	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccgccttcccgtggactgcaGaggcaatgtcatgccagggc	13	14	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:171394572G>A	uc003fhs.2	-	18	2164	c.2048C>T	c.(2047-2049)TCT>TTT	p.S683F	PLD1_uc003fht.2_Missense_Mutation_p.S645F|PLD1_uc003fhu.3_5'Flank|PLD1_uc003fhv.1_Missense_Mutation_p.S8F	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	683	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	GTGGACTGCAGAGGCAATGTC	0.532													18	142	---	---	---	---	PASS	A	171394572	A	A	171394572	3	1	119	1	0	0	0	0	1	0	0	0	12045	942	33	2	1216	2	PLD1	3	171394572	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	73537	171394572	26627858	313	43486										
PLD1	5337	broad.mit.edu	37	chr3	171442514	171442514	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccatctgtagcaggctcttcCctgaccacagcaattcaagc	7	15	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:171442514C>T	uc003fhs.2	-	8	846	c.730G>A	c.(730-732)GGA>AGA	p.G244R	PLD1_uc003fht.2_Missense_Mutation_p.G244R	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	244	PH.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	CAGGCTCTTCCCTGACCACAG	0.388													23	454	---	---	---	---	PASS	T	171442514	T	T	171442514	3	4	119	1	0	0	0	0	1	0	0	0	12045	632	22	3	2574	3	PLD1	3	171442514	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	47942	171442514	26579916	314	43487										
NCEH1	57552	broad.mit.edu	37	chr3	172353864	172353864	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcaggaaaataaacctttgGaactagcctgtatctgtaaa	7	8	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:172353864G>T	uc011bpx.1	-	4	709	c.571C>A	c.(571-573)CCA>ACA	p.P191T	NCEH1_uc003fig.2_Missense_Mutation_p.P183T|NCEH1_uc011bpw.1_Missense_Mutation_p.P18T|NCEH1_uc011bpy.1_Missense_Mutation_p.P18T	NM_001146276	NP_001139748	Q6PIU2	NCEH1_HUMAN	arylacetamide deacetylase-like 1 isoform a	151	Lumenal (Potential).				lipid catabolic process	endoplasmic reticulum|integral to membrane|microsome	carboxylesterase activity				0						TAAACCTTTGGAACTAGCCTG	0.368													10	327	---	---	---	---	PASS	T	172353864	T	T	172353864	3	4	119	1	0	0	0	0	1	0	0	0	10215	1174	41	2	783	2	NCEH1	3	172353864	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	911350	172353864	25668566	315	43488										
NLGN1	22871	broad.mit.edu	37	chr3	173996659	173996659	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attttcccataggactttttCaacgagcaatagctcaaagt	6	9	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:173996659C>G	uc003fio.1	+	6	1291	c.868C>G	c.(868-870)CAA>GAA	p.Q290E	NLGN1_uc010hww.1_Missense_Mutation_p.Q330E|NLGN1_uc003fip.1_Missense_Mutation_p.Q290E	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	307	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			AGGACTTTTTCAACGAGCAAT	0.353													6	221	---	---	---	---	PASS	G	173996659	G	G	173996659	3	3	119	1	0	0	0	0	1	0	0	0	10461	827	29	2	882	2	NLGN1	3	173996659	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1642795	173996659	24025771	316	43489										
ZNF639	51193	broad.mit.edu	37	chr3	179047452	179047452	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatggattcaatggaattttCtctgatcattgttacagtgt	9	5	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:179047452C>G	uc003fjq.1	+	4	448	c.105C>G	c.(103-105)TTC>TTG	p.F35L	ZNF639_uc003fjr.1_Missense_Mutation_p.F35L	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	35					initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			ATGGAATTTTCTCTGATCATT	0.279													7	636	---	---	---	---	PASS	G	179047452	G	G	179047452	3	3	119	1	0	0	0	0	1	0	0	0	18053	912	32	2	111	2	ZNF639	3	179047452	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5050793	179047452	18974978	317	43490										
PEX5L	51555	broad.mit.edu	37	chr3	179537697	179537697	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgggcttcttggttctcaGatatccagttcctccgagcc	9	13	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:179537697G>C	uc003fki.1	-	9	1020	c.890C>G	c.(889-891)TCT>TGT	p.S297C	PEX5L_uc011bqd.1_Missense_Mutation_p.S254C|PEX5L_uc011bqe.1_Missense_Mutation_p.S105C|PEX5L_uc011bqf.1_Missense_Mutation_p.S189C|PEX5L_uc003fkj.1_Missense_Mutation_p.S262C|PEX5L_uc010hxd.1_Missense_Mutation_p.S295C|PEX5L_uc011bqg.1_Missense_Mutation_p.S273C|PEX5L_uc011bqh.1_Missense_Mutation_p.S238C	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	297					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			TTGGTTCTCAGATATCCAGTT	0.438													39	337	---	---	---	---	PASS	C	179537697	C	C	179537697	3	2	119	1	0	0	0	0	1	0	0	0	11749	942	33	2	1018	2	PEX5L	3	179537697	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	490245	179537697	18484733	318	43491										
TTC14	151613	broad.mit.edu	37	chr3	180327971	180327971	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggagatttgaaaaggatataGagggaagaaaagagcactat	13	2	0	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:180327971G>C	uc003fkk.2	+	12	2086	c.1954G>C	c.(1954-1956)GAG>CAG	p.E652Q	TTC14_uc003fkl.2_3'UTR|TTC14_uc003fkm.2_Intron	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	652							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AAAGGATATAGAGGGAAGAAA	0.393													5	298	---	---	---	---	PASS	C	180327971	C	C	180327971	3	2	119	1	0	0	0	0	1	0	0	0	16678	943	33	2	2030	2	TTC14	3	180327971	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	790274	180327971	17694459	319	43492										
MCF2L2	23101	broad.mit.edu	37	chr3	183013168	183013168	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggccacaggttgcactggaCgagtctgtttggctgccagt	15	10	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:183013168C>G	uc003fli.1	-	13	1685	c.1595G>C	c.(1594-1596)CGT>CCT	p.R532P	MCF2L2_uc003flj.1_Missense_Mutation_p.R532P|MCF2L2_uc011bqr.1_RNA|uc003fln.1_Intron|uc003flo.2_5'Flank	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	532					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TTGCACTGGACGAGTCTGTTT	0.498													19	225	---	---	---	---	PASS	G	183013168	G	G	183013168	3	3	119	1	0	0	0	0	1	0	0	0	9380	536	19	4	1821	4	MCF2L2	3	183013168	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2685197	183013168	15009262	320	43493										
YEATS2	55689	broad.mit.edu	37	chr3	183446552	183446552	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtatatgtccgagggtcccGtagagaacccagcattaatc	11	10	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:183446552G>A	uc003fly.2	+	7	920	c.725G>A	c.(724-726)CGT>CAT	p.R242H		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	242	YEATS.				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)			CGAGGGTCCCGTAGAGAACCC	0.418													6	315	---	---	---	---	PASS	A	183446552	A	A	183446552	3	1	119	1	0	0	0	0	1	0	0	0	17469	1145	40	1	747	1	YEATS2	3	183446552	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	433384	183446552	14575878	321	43494										
HTR3D	200909	broad.mit.edu	37	chr3	183756706	183756706	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gacgccctgctcttccgcctCtacctgctcttcatggcctc	7	19	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:183756706C>G	uc011bqv.1	+	8	1308	c.1308C>G	c.(1306-1308)CTC>CTG	p.L436L	HTR3D_uc003fmj.2_Silent_p.L261L|HTR3D_uc011bqu.1_Silent_p.L386L|HTR3D_uc010hxp.2_Silent_p.L215L	NM_001163646	NP_001157118	Q70Z44	5HT3D_HUMAN	5-hydroxytryptamine receptor 3 subunit D isoform	436	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	extracellular ligand-gated ion channel activity|receptor activity				0	all_cancers(143;2.33e-10)|Ovarian(172;0.0303)		Epithelial(37;6.23e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TCTTCCGCCTCTACCTGCTCT	0.587													27	373	---	---	---	---	PASS	G	183756706	G	G	183756706	2	3	119	1	0	0	0	0	0	0	0	1	7447	900	32	2		2	HTR3D	3	183756706	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	310154	183756706	14265724	322	43495										
ECE2	9718	broad.mit.edu	37	chr3	184008857	184008857	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgacaaagaagggaacctgCggccctggtggcagaatgag	15	8	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:184008857C>T	uc003fni.3	+	17	2256	c.2218C>T	c.(2218-2220)CGG>TGG	p.R740W	ECE2_uc011brh.1_Missense_Mutation_p.R593W|ECE2_uc003fnl.3_Missense_Mutation_p.R668W|ECE2_uc003fnm.3_Missense_Mutation_p.R622W|ECE2_uc003fnk.3_Missense_Mutation_p.R593W|ECE2_uc011bri.1_Missense_Mutation_p.R655W|ECE2_uc010hxv.2_3'UTR	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	740	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGGGAACCTGCGGCCCTGGTG	0.587													114	204	---	---	---	---	PASS	T	184008857	T	T	184008857	3	4	119	1	0	0	0	0	1	0	0	0	4890	759	27	1	2848	1	ECE2	3	184008857	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	252151	184008857	14013573	323	43496										
ECE2	9718	broad.mit.edu	37	chr3	184009925	184009925	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cccacagccctgcccgcttcCgcgtgctgggcactctctcc	9	21	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:184009925C>T	uc003fni.3	+	19	2589	c.2551C>T	c.(2551-2553)CGC>TGC	p.R851C	ECE2_uc003fnl.3_Missense_Mutation_p.R779C|ECE2_uc003fnm.3_Missense_Mutation_p.R733C|ECE2_uc003fnk.3_Missense_Mutation_p.R704C	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	851	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TGCCCGCTTCCGCGTGCTGGG	0.677													13	267	---	---	---	---	PASS	T	184009925	T	T	184009925	3	4	119	1	0	0	0	0	1	0	0	0	4890	652	23	1	3189	1	ECE2	3	184009925	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1068	184009925	14012505	324	43497										
EIF4G1	1981	broad.mit.edu	37	chr3	184042076	184042076	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtcagaaggagtttgagaaaGacaaagatgatgatgaggtt	14	2	1	7			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:184042076G>C	uc003fnp.2	+	17	2758	c.2560G>C	c.(2560-2562)GAC>CAC	p.D854H	EIF4G1_uc003fno.1_Missense_Mutation_p.D795H|EIF4G1_uc010hxw.1_Missense_Mutation_p.D690H|EIF4G1_uc003fnt.2_Missense_Mutation_p.D565H|EIF4G1_uc003fnq.2_Missense_Mutation_p.D767H|EIF4G1_uc003fnr.2_Missense_Mutation_p.D690H|EIF4G1_uc010hxx.2_Missense_Mutation_p.D861H|EIF4G1_uc003fns.2_Missense_Mutation_p.D814H|EIF4G1_uc010hxy.2_Missense_Mutation_p.D861H|EIF4G1_uc003fnv.3_Missense_Mutation_p.D855H|EIF4G1_uc003fnu.3_Missense_Mutation_p.D854H|EIF4G1_uc003fnw.2_Missense_Mutation_p.D861H|EIF4G1_uc003fnx.2_Missense_Mutation_p.D659H|EIF4G1_uc003fny.3_Missense_Mutation_p.D658H|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	854	eIF3/EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GTTTGAGAAAGACAAAGATGA	0.443													14	299	---	---	---	---	PASS	C	184042076	C	C	184042076	3	2	119	1	0	0	0	0	1	0	0	0	5036	942	33	2	2618	2	EIF4G1	3	184042076	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	32151	184042076	13980354	325	43498										
EIF4G1	1981	broad.mit.edu	37	chr3	184045480	184045480	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attgaggaatatctccatctCaatgacatgaaagtaggcag	9	7	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:184045480C>A	uc003fnp.2	+	25	3966	c.3768C>A	c.(3766-3768)CTC>CTA	p.L1256L	EIF4G1_uc003fnt.2_Silent_p.L967L|EIF4G1_uc003fnq.2_Silent_p.L1169L|EIF4G1_uc003fnr.2_Silent_p.L1092L|EIF4G1_uc010hxx.2_Silent_p.L1263L|EIF4G1_uc003fns.2_Silent_p.L1216L|EIF4G1_uc010hxy.2_Silent_p.L1263L|EIF4G1_uc003fnv.3_Silent_p.L1257L|EIF4G1_uc003fnu.3_Silent_p.L1256L|EIF4G1_uc003fnw.2_Silent_p.L1263L|EIF4G1_uc003fnx.2_Silent_p.L1061L|EIF4G1_uc003fny.3_Silent_p.L1060L|EIF4G1_uc003foa.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1256	MI.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ATCTCCATCTCAATGACATGA	0.567													20	244	---	---	---	---	PASS	A	184045480	A	A	184045480	2	1	119	1	0	0	0	0	0	0	0	1	5036	813	29	2		2	EIF4G1	3	184045480	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	3404	184045480	13976950	326	43499										
VPS8	23355	broad.mit.edu	37	chr3	184587302	184587302	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgccagtaagcgaaaggctAttgttgcagaccgggtgagt	14	7	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:184587302A>G	uc003fpb.1	+	19	1795	c.1624A>G	c.(1624-1626)ATT>GTT	p.I542V	VPS8_uc010hyd.1_Missense_Mutation_p.I542V	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	544							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			GCGAAAGGCTATTGTTGCAGA	0.393													78	134	---	---	---	---	PASS	G	184587302	G	G	184587302	3	3	119	1	0	0	0	0	1	0	0	0	17215	449	16	5	1700	5	VPS8	3	184587302	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	541822	184587302	13435128	327	43500										
VPS8	23355	broad.mit.edu	37	chr3	184648317	184648317	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cccggacacagtgcagaggaGaagcagtctgtatggcagaa	14	9	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:184648317G>A	uc003fpb.1	+	33	3024	c.2853G>A	c.(2851-2853)GAG>GAA	p.E951E	VPS8_uc010hyd.1_Silent_p.E861E|VPS8_uc010hye.1_Silent_p.E380E	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	953							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			GTGCAGAGGAGAAGCAGTCTG	0.388													5	360	---	---	---	---	PASS	A	184648317	A	A	184648317	2	1	119	1	0	0	0	0	0	0	0	1	17215	933	33	2		2	VPS8	3	184648317	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	61015	184648317	13374113	328	43501										
VPS8	23355	broad.mit.edu	37	chr3	184714182	184714182	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cattggtcattgtgtaacctGagagcttcggtcaccagagg	12	9	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:184714182G>C	uc003fpb.1	+	43	3894	c.3723G>C	c.(3721-3723)CTG>CTC	p.L1241L	VPS8_uc010hyd.1_Silent_p.L1151L|VPS8_uc010hye.1_Silent_p.L670L	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	1243							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TGTGTAACCTGAGAGCTTCGG	0.413													16	165	---	---	---	---	PASS	C	184714182	C	C	184714182	2	2	119	1	0	0	0	0	0	0	0	1	17215	1277	45	2		2	VPS8	3	184714182	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	65865	184714182	13308248	329	43502										
ETV5	2119	broad.mit.edu	37	chr3	185766536	185766536	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcagggtgtcctcctcgctGaggtggcactcggactctgc	15	13	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:185766536G>A	uc003fpz.2	-	13	1672	c.1425C>T	c.(1423-1425)CTC>CTT	p.L475L	ETV5_uc003fpy.2_Silent_p.L517L	NM_004454	NP_004445	P41161	ETV5_HUMAN	ets variant gene 5 (ets-related molecule)	475					cellular response to oxidative stress	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|skin(2)|breast(1)	5	all_cancers(143;4.06e-12)|Ovarian(172;0.0386)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.62e-24)			CCTCCTCGCTGAGGTGGCACT	0.587			T	TMPRSS2|SCL45A3	Prostate 								10	139	---	---	---	---	PASS	A	185766536	A	A	185766536	2	1	119	1	0	0	0	0	0	0	0	1	5282	1277	45	2		2	ETV5	3	185766536	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1052354	185766536	12255894	330	43503										
HRG	3273	broad.mit.edu	37	chr3	186395356	186395356	+	Missense_Mutation	SNP	C	G	G													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggaccttgtgacccaccacCccataaccaaggtcactgtt							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:186395356C>G	uc003fqq.2	+	7	1285	c.1262C>G	c.(1261-1263)CCC>CGC	p.P421R		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	421	His/Pro-rich (HRR).				fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		GACCCACCACCCCATAACCAA	0.383													7	84	---	---	---	---	PASS	G	186395356	G	G	186395356	3	3	119	1	0	0	0	0	1	0	0	0	7354	623	22	4	1288	4	HRG	3	186395356	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	628820	186395356	11627074	331	43504	816	2								
HRG	3273	broad.mit.edu	37	chr3	186395357	186395357	+	Silent	SNP	C	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggaccttgtgacccaccaccCcataaccaaggtcactgttg							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:186395357C>A	uc003fqq.2	+	7	1286	c.1263C>A	c.(1261-1263)CCC>CCA	p.P421P		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	421	His/Pro-rich (HRR).				fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		ACCCACCACCCCATAACCAAG	0.383													6	84	---	---	---	---	PASS	A	186395357	A	A	186395357	2	1	119	1	0	0	0	0	0	0	0	1	7354	610	22	3		3	HRG	3	186395357	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1	186395357	11627073	332	43505	816	2								
KNG1	3827	broad.mit.edu	37	chr3	186435490	186435490	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caaaaccaaagtaacaaccaGtttgtattgtaccgcataac	5	10	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:186435490G>C	uc011bsa.1	+	1	371	c.159G>C	c.(157-159)CAG>CAC	p.Q53H	KNG1_uc003fqr.2_Missense_Mutation_p.Q53H	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	53	Cystatin 1.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	GTAACAACCAGTTTGTATTGT	0.403													21	203	---	---	---	---	PASS	C	186435490	C	C	186435490	3	2	119	1	0	0	0	0	1	0	0	0	8427	1020	36	4	161	4	KNG1	3	186435490	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	40133	186435490	11586940	333	43506										
KNG1	3827	broad.mit.edu	37	chr3	186442879	186442879	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtctgctctttgttaagccGagggccctgtggtgacagcc	13	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:186442879G>A	uc011bsa.1	+	4	606	c.394G>A	c.(394-396)GAG>AAG	p.E132K	KNG1_uc003fqr.2_Missense_Mutation_p.E132K	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	132	Cystatin 1.|O-glycosylated at one site only.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	TTGTTAAGCCGAGGGCCCTGT	0.458													16	129	---	---	---	---	PASS	A	186442879	A	A	186442879	3	1	119	1	0	0	0	0	1	0	0	0	8427	1059	37	2	408	2	KNG1	3	186442879	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	7389	186442879	11579551	334	43507										
RTP2	344892	broad.mit.edu	37	chr3	187419846	187419846	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgatgagctcccagctgtccGctggctttgccacctccatc	9	16	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:187419846G>T	uc003fro.1	-	1	500	c.71C>A	c.(70-72)GCG>GAG	p.A24E		NM_001004312	NP_001004312	Q5QGT7	RTP2_HUMAN	receptor transporting protein 2	24	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding				0	all_cancers(143;4.06e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0515)		CCAGCTGTCCGCTGGCTTTGC	0.582													59	558	---	---	---	---	PASS	T	187419846	T	T	187419846	3	4	119	1	0	0	0	0	1	0	0	0	13734	1087	38	1	614	1	RTP2	3	187419846	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	976967	187419846	10602584	335	43508										
BCL6	604	broad.mit.edu	37	chr3	187447462	187447462	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggacacctccaaagtcggcCggctgtactcaccagggact	12	14	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:187447462C>A	uc003frp.3	-	5	1188	c.731G>T	c.(730-732)CGG>CTG	p.R244L	BCL6_uc011bsf.1_Missense_Mutation_p.R244L|BCL6_uc010hza.2_Missense_Mutation_p.R142L|BCL6_uc003frq.1_Missense_Mutation_p.R244L	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	244					negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		CAAAGTCGGCCGGCTGTACTC	0.567			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								22	90	---	---	---	---	PASS	A	187447462	A	A	187447462	3	1	119	1	0	0	0	0	1	0	0	0	1376	652	23	1	1413	1	BCL6	3	187447462	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	27616	187447462	10574968	336	43509										
TPRG1	285386	broad.mit.edu	37	chr3	189038526	189038526	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taactgaacccattttgattGagacctacacagggctgatg	9	9	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:189038526G>C	uc003frv.1	+	11	1972	c.745G>C	c.(745-747)GAG>CAG	p.E249Q	TPRG1_uc003frw.1_Missense_Mutation_p.E249Q	NM_198485	NP_940887	Q6ZUI0	TPRG1_HUMAN	tumor protein p63 regulated 1	249											0	all_cancers(143;6.12e-12)|all_hematologic(3;0.0359)|Ovarian(172;0.0925)	all_lung(153;8.23e-09)|Lung NSC(153;3.55e-06)|all_neural(597;0.0019)|Myeloproliferative disorder(1037;0.0255)	Lung(62;6.93e-06)	GBM - Glioblastoma multiforme(93;4.77e-14)		CATTTTGATTGAGACCTACAC	0.438													7	227	---	---	---	---	PASS	C	189038526	C	C	189038526	3	2	119	1	0	0	0	0	1	0	0	0	16415	1291	45	2	763	2	TPRG1	3	189038526	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1591064	189038526	8983904	337	43510										
GP5	2814	broad.mit.edu	37	chr3	194118280	194118280	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcgaaagcgtcaaagaactGaggtttgggagccggtcgaa	14	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:194118280G>A	uc003ftv.1	-	2	763	c.732C>T	c.(730-732)CTC>CTT	p.L244L		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	244	Extracellular (Potential).|LRR 8.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		TCAAAGAACTGAGGTTTGGGA	0.577													62	419	---	---	---	---	PASS	A	194118280	A	A	194118280	2	1	119	1	0	0	0	0	0	0	0	1	6583	1277	45	2		2	GP5	3	194118280	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	5079754	194118280	3904150	338	43511										
C3orf21	152002	broad.mit.edu	37	chr3	194991428	194991428	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgcagcagtgagcgcagcgcGacgcgggccttggcctgcag	17	14	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:194991428G>A	uc003fum.3	-	1	468	c.360C>T	c.(358-360)GTC>GTT	p.V120V		NM_152531	NP_689744	Q8NBI6	CC021_HUMAN	hypothetical protein LOC152002	120						integral to membrane	transferase activity, transferring glycosyl groups				0	all_cancers(143;9.33e-09)|Ovarian(172;0.0634)		Epithelial(36;1.73e-20)|all cancers(36;1.42e-18)|OV - Ovarian serous cystadenocarcinoma(49;1.56e-17)|Lung(62;0.000117)|LUSC - Lung squamous cell carcinoma(58;0.000146)	GBM - Glioblastoma multiforme(46;1.36e-05)		AGCGCAGCGCGACGCGGGCCT	0.682													7	49	---	---	---	---	PASS	A	194991428	A	A	194991428	2	1	119	1	0	0	0	0	0	0	0	1	2214	1045	37	2		2	C3orf21	3	194991428	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	873148	194991428	3031002	339	43512										
MUC4	4585	broad.mit.edu	37	chr3	195489005	195489005	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actcgggcgggaggctggcgGaggcgtggaggatgttggag	23	6	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:195489005G>T	uc011bto.1	-	15	14541	c.14081C>A	c.(14080-14082)TCC>TAC	p.S4694Y	MUC4_uc003fuz.2_Missense_Mutation_p.S420Y|MUC4_uc003fva.2_Missense_Mutation_p.S302Y|MUC4_uc003fvb.2_Missense_Mutation_p.S338Y|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.S338Y|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.S302Y|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.S386Y|MUC4_uc011bti.1_Missense_Mutation_p.S386Y|MUC4_uc011btj.1_Missense_Mutation_p.S563Y|MUC4_uc011btk.1_Missense_Mutation_p.S302Y|MUC4_uc011btl.1_Missense_Mutation_p.S331Y|MUC4_uc011btm.1_Missense_Mutation_p.S511Y|MUC4_uc011btn.1_Missense_Mutation_p.S302Y|MUC4_uc003fvo.2_Missense_Mutation_p.S586Y|MUC4_uc003fvp.2_Missense_Mutation_p.S535Y	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1579	VWFD.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GAGGCTGGCGGAGGCGTGGAG	0.711													4	22	---	---	---	---	PASS	T	195489005	T	T	195489005	3	4	119	1	0	0	0	0	1	0	0	0	9978	1174	41	2	1821	2	MUC4	3	195489005	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	497577	195489005	2533425	340	43513										
MUC4	4585	broad.mit.edu	37	chr3	195516771	195516771	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cattgtgtctgggcgcctgcCcctgttgtttttgggagagt	14	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:195516771C>A	uc011bto.1	-	2	2140	c.1680G>T	c.(1678-1680)GGG>GGT	p.G560G	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Silent_p.G442G	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	565					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGGCGCCTGCCCCTGTTGTTT	0.547													101	616	---	---	---	---	PASS	A	195516771	A	A	195516771	2	1	119	1	0	0	0	0	0	0	0	1	9978	610	22	3		3	MUC4	3	195516771	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	27766	195516771	2505659	341	43514										
DLG1	1739	broad.mit.edu	37	chr3	196778475	196778475	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgttcagtaaactcctgttCcagtttcatggctctctcaa	6	11	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr3:196778475C>G	uc003fxo.3	-	25	2771	c.2581G>C	c.(2581-2583)GAA>CAA	p.E861Q	DLG1_uc011bub.1_Missense_Mutation_p.E757Q|DLG1_uc011buc.1_Missense_Mutation_p.E745Q|DLG1_uc011bud.1_Missense_Mutation_p.E544Q|DLG1_uc003fxn.3_Missense_Mutation_p.E883Q|DLG1_uc011bue.1_Missense_Mutation_p.E849Q|DLG1_uc010ial.2_Missense_Mutation_p.E861Q	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	861	Guanylate kinase-like.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		AACTCCTGTTCCAGTTTCATG	0.378													5	271	---	---	---	---	PASS	G	196778475	G	G	196778475	3	3	119	1	0	0	0	0	1	0	0	0	4554	864	30	2	141	2	DLG1	3	196778475	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1261704	196778475	1243955	342	43515										
ACOX3	8310	broad.mit.edu	37	chr4	8394128	8394128	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttgctgggtggtccacgagGccaggggcttgctggccgat	17	11	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:8394128G>C	uc010idk.2	-	11	1377	c.1232C>G	c.(1231-1233)GCC>GGC	p.A411G	ACOX3_uc003glc.3_Missense_Mutation_p.A411G|ACOX3_uc003gld.3_Missense_Mutation_p.A411G|ACOX3_uc003gle.1_Missense_Mutation_p.A316G	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	411					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						GGTCCACGAGGCCAGGGGCTT	0.572													17	381	---	---	---	---	PASS	C	8394128	C	C	8394128	3	2	119	1	0	0	0	0	1	0	0	0	160	1203	42	4	902	4	ACOX3	4	8394128	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08		8394128	182760148	343	43516										
ARAP2	116984	broad.mit.edu	37	chr4	36093524	36093524	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcacatccttgtaaagaaaGagaaacccatctcgtaaaac	5	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:36093524G>A	uc003gsq.1	-	28	4742	c.4404C>T	c.(4402-4404)CTC>CTT	p.L1468L		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1468	PH 5.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TGTAAAGAAAGAGAAACCCAT	0.333													7	123	---	---	---	---	PASS	A	36093524	A	A	36093524	2	1	119	1	0	0	0	0	0	0	0	1	839	929	33	2		2	ARAP2	4	36093524	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	27699396	36093524	155060752	344	43517										
TBC1D1	23216	broad.mit.edu	37	chr4	38138813	38138813	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgagaagctcctgagcagtGagagcaagctgaagcaggcc	14	9	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:38138813G>T	uc003gtb.2	+	20	3707	c.3364G>T	c.(3364-3366)GAG>TAG	p.E1122*	TBC1D1_uc011byd.1_Nonsense_Mutation_p.E1113*|TBC1D1_uc010ifd.2_Nonsense_Mutation_p.E909*|TBC1D1_uc003gtd.2_Nonsense_Mutation_p.E134*	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	1122						nucleus	Rab GTPase activator activity			ovary(1)	1						CCTGAGCAGTGAGAGCAAGCT	0.557													35	76	---	---	---	---	PASS	T	38138813	T	T	38138813	4	4	119	1	0	0	0	0	0	1	0	0	15594	1291	45	2	3438	2	TBC1D1	4	38138813	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2045289	38138813	153015463	345	43518										
FAM114A1	92689	broad.mit.edu	37	chr4	38907184	38907184	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggaaaaagcaggagccactCtacggattcatggtgtaaat	11	7	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:38907184C>G	uc003gtn.2	+	5	654	c.478C>G	c.(478-480)CTA>GTA	p.L160V	FAM114A1_uc011byh.1_5'UTR	NM_138389	NP_612398	Q8IWE2	NXP20_HUMAN	hypothetical protein LOC92689	160						cytoplasm				ovary(1)	1						AGGAGCCACTCTACGGATTCA	0.443													68	72	---	---	---	---	PASS	G	38907184	G	G	38907184	3	3	119	1	0	0	0	0	1	0	0	0	5403	912	32	2	488	2	FAM114A1	4	38907184	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	768371	38907184	152247092	346	43519										
GABRA2	2555	broad.mit.edu	37	chr4	46388187	46388187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atttttagcctcatcttcttGgatgttagccagcaccaacc	6	12	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:46388187G>T	uc003gxc.3	-	2	764	c.91C>A	c.(91-93)CAA>AAA	p.Q31K	GABRA2_uc010igc.2_Missense_Mutation_p.Q31K|GABRA2_uc011bzc.1_5'UTR|GABRA2_uc003gxe.2_Missense_Mutation_p.Q31K|GABRA2_uc010igd.1_Missense_Mutation_p.Q31K	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	31	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TCATCTTCTTGGATGTTAGCC	0.358													15	74	---	---	---	---	PASS	T	46388187	T	T	46388187	3	4	119	1	0	0	0	0	1	0	0	0	6161	1357	47	3	1296	3	GABRA2	4	46388187	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	7481003	46388187	144766089	347	43520										
FRYL	285527	broad.mit.edu	37	chr4	48559526	48559526	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgcagtggcttgtggagatcCccatccttctccccgtaacc	9	15	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:48559526C>G	uc003gyh.1	-	34	4674	c.4069G>C	c.(4069-4071)GGA>CGA	p.G1357R	FRYL_uc003gyk.2_Missense_Mutation_p.G1357R|FRYL_uc003gyg.1_Missense_Mutation_p.G53R|FRYL_uc003gyi.1_Missense_Mutation_p.G246R	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	1357					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TGTGGAGATCCCCATCCTTCT	0.418													23	120	---	---	---	---	PASS	G	48559526	G	G	48559526	3	3	119	1	0	0	0	0	1	0	0	0	6064	632	22	4	5096	4	FRYL	4	48559526	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2171339	48559526	142594750	348	43521										
LRRC66	339977	broad.mit.edu	37	chr4	52861814	52861814	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggtgtggctgtgtcacccaGaaaggggtctggttctcgta	16	8	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:52861814G>C	uc003gzi.2	-	4	1387	c.1374C>G	c.(1372-1374)TTC>TTG	p.F458L		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	458						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						GTGTCACCCAGAAAGGGGTCT	0.562													22	97	---	---	---	---	PASS	C	52861814	C	C	52861814	3	2	119	1	0	0	0	0	1	0	0	0	9018	933	33	2	1272	2	LRRC66	4	52861814	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4302288	52861814	138292462	349	43522										
USP46	64854	broad.mit.edu	37	chr4	53497298	53497298	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caatgtctttttccagagcaGaggcattggtgccctaaaag	10	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:53497298G>C	uc003gzn.2	-	2	235	c.50C>G	c.(49-51)TCT>TGT	p.S17C	USP46_uc003gzm.3_Missense_Mutation_p.S10C|USP46_uc011bzr.1_Missense_Mutation_p.S6C|USP46_uc011bzs.1_5'UTR	NM_022832	NP_073743	P62068	UBP46_HUMAN	ubiquitin specific peptidase 46 isoform 1	17					behavior|protein deubiquitination|regulation of synaptic transmission, GABAergic|ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0295)			TTCCAGAGCAGAGGCATTGGT	0.328													3	9	---	---	---	---	PASS	C	53497298	C	C	53497298	3	2	119	1	0	0	0	0	1	0	0	0	17074	942	33	2	1082	2	USP46	4	53497298	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	635484	53497298	137656978	350	43523										
SCFD2	152579	broad.mit.edu	37	chr4	53751992	53751992	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgaccccacctaccacaaaGaggatcaggagggggtagtc	13	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:53751992G>C	uc003gzu.2	-	8	2018	c.1884C>G	c.(1882-1884)CTC>CTG	p.L628L	SCFD2_uc010igm.2_Silent_p.L583L	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2	628					protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			CTACCACAAAGAGGATCAGGA	0.512													13	75	---	---	---	---	PASS	C	53751992	C	C	53751992	2	2	119	1	0	0	0	0	0	0	0	1	13890	929	33	2		2	SCFD2	4	53751992	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	254694	53751992	137402284	351	43524										
EXOC1	55763	broad.mit.edu	37	chr4	56744156	56744156	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caatcatcatccatttcataGagatttgctccgatatgcca	5	11	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:56744156G>C	uc003hbe.1	+	9	1306	c.1148G>C	c.(1147-1149)AGA>ACA	p.R383T	EXOC1_uc003hbf.1_Missense_Mutation_p.R383T|EXOC1_uc003hbg.1_Missense_Mutation_p.R383T	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	383					exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					CCATTTCATAGAGATTTGCTC	0.378													29	132	---	---	---	---	PASS	C	56744156	C	C	56744156	3	2	119	1	0	0	0	0	1	0	0	0	5301	942	33	2	1178	2	EXOC1	4	56744156	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2992164	56744156	134410120	352	43525										
CEP135	9662	broad.mit.edu	37	chr4	56886933	56886933	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaaaaggcagatctcaactGaaagatacgaacggtaagac	10	7	1	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:56886933G>A	uc003hbi.2	+	24	3541	c.3307G>A	c.(3307-3309)GAA>AAA	p.E1103K	CEP135_uc003hbj.2_Missense_Mutation_p.E809K	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	1103	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					GATCTCAACTGAAAGATACGA	0.333													50	185	---	---	---	---	PASS	A	56886933	A	A	56886933	3	1	119	1	0	0	0	0	1	0	0	0	3247	1291	45	2	3397	2	CEP135	4	56886933	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	142777	56886933	134267343	353	43526										
AASDH	132949	broad.mit.edu	37	chr4	57244467	57244467	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttcttcattgacatgctcaGaacttatgctttttattttt	4	7	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:57244467G>C	uc003hbn.2	-	4	668	c.515C>G	c.(514-516)TCT>TGT	p.S172C	AASDH_uc010ihb.2_5'UTR|AASDH_uc011caa.1_Missense_Mutation_p.S19C|AASDH_uc003hbo.2_Missense_Mutation_p.S72C|AASDH_uc011cab.1_Intron|AASDH_uc010ihc.2_Missense_Mutation_p.S172C|AASDH_uc003hbp.2_Missense_Mutation_p.S172C	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	172					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				GACATGCTCAGAACTTATGCT	0.373													22	111	---	---	---	---	PASS	C	57244467	C	C	57244467	3	2	119	1	0	0	0	0	1	0	0	0	22	942	33	2	2829	2	AASDH	4	57244467	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	357534	57244467	133909809	354	43527										
LPHN3	23284	broad.mit.edu	37	chr4	62812641	62812641	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atttactttaggagagatcaGagtggcctttgtcctgtata	10	6	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:62812641G>A	uc010ihh.2	+	13	2398	c.2225G>A	c.(2224-2226)AGA>AAA	p.R742K	LPHN3_uc003hcq.3_Missense_Mutation_p.R742K|LPHN3_uc003hct.2_Missense_Mutation_p.R135K	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	729	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GGAGAGATCAGAGTGGCCTTT	0.363													7	331	---	---	---	---	PASS	A	62812641	A	A	62812641	3	1	119	1	0	0	0	0	1	0	0	0	8917	942	33	2	2275	2	LPHN3	4	62812641	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5568174	62812641	128341635	355	43528										
EPHA5	2044	broad.mit.edu	37	chr4	66213904	66213904	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcttctggggcagtccatctGattggaatttttcctcccta	9	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:66213904G>C	uc003hcy.2	-	15	2719	c.2526C>G	c.(2524-2526)ATC>ATG	p.I842M	EPHA5_uc003hcx.2_Missense_Mutation_p.I774M|EPHA5_uc003hcz.2_Missense_Mutation_p.I820M|EPHA5_uc011cah.1_Missense_Mutation_p.I843M|EPHA5_uc011cai.1_Missense_Mutation_p.I821M|EPHA5_uc003hda.2_Missense_Mutation_p.I843M	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	842	Cytoplasmic (Potential).|Protein kinase.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CAGTCCATCTGATTGGAATTT	0.393										TSP Lung(17;0.13)			32	131	---	---	---	---	PASS	C	66213904	C	C	66213904	3	2	119	1	0	0	0	0	1	0	0	0	5170	1280	45	2	603	2	EPHA5	4	66213904	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3401263	66213904	124940372	356	43529										
UBA6	55236	broad.mit.edu	37	chr4	68527924	68527924	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caccttctcttccaaggtttCacttatagatgttgctagtt	6	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:68527924C>A	uc003hdg.3	-	13	1139	c.1087G>T	c.(1087-1089)GAA>TAA	p.E363*	UBA6_uc003hdi.2_Nonsense_Mutation_p.E363*	NM_018227	NP_060697	A0AVT1	UBA6_HUMAN	ubiquitin-activating enzyme E1-like 2	363					protein ubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm	ATP binding|FAT10 activating enzyme activity|ligase activity|protein binding				0						TCCAAGGTTTCACTTATAGAT	0.323													25	117	---	---	---	---	PASS	A	68527924	A	A	68527924	4	1	119	1	0	0	0	0	0	1	0	0	16829	835	29	2	2155	2	UBA6	4	68527924	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2314020	68527924	122626352	357	43530										
UBA6	55236	broad.mit.edu	37	chr4	68544165	68544165	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaatatctttacctgtttctCttattaacaacatcatcttc	1	10	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:68544165C>G	uc003hdg.3	-	5	397	c.345G>C	c.(343-345)AAG>AAC	p.K115N	UBA6_uc003hdi.2_Missense_Mutation_p.K115N|UBA6_uc003hdj.2_Missense_Mutation_p.K115N	NM_018227	NP_060697	A0AVT1	UBA6_HUMAN	ubiquitin-activating enzyme E1-like 2	115					protein ubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm	ATP binding|FAT10 activating enzyme activity|ligase activity|protein binding				0						ACCTGTTTCTCTTATTAACAA	0.284													15	111	---	---	---	---	PASS	G	68544165	G	G	68544165	3	3	119	1	0	0	0	0	1	0	0	0	16829	912	32	2	2929	2	UBA6	4	68544165	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	16241	68544165	122610111	358	43531										
UGT2B4	7363	broad.mit.edu	37	chr4	70350951	70350951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcattaattactgtcttcaGtgcattgagtaagtctgtac	7	7	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:70350951G>T	uc003hek.3	-	5	1332	c.1285C>A	c.(1285-1287)CTG>ATG	p.L429M	UGT2B4_uc011cap.1_Missense_Mutation_p.L293M|UGT2B4_uc003hel.3_Intron	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	429					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						ACTGTCTTCAGTGCATTGAGT	0.388													18	251	---	---	---	---	PASS	T	70350951	T	T	70350951	3	4	119	1	0	0	0	0	1	0	0	0	16958	1020	36	3	309	3	UGT2B4	4	70350951	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1806786	70350951	120803325	359	43532										
SULT1B1	27284	broad.mit.edu	37	chr4	70620842	70620842	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggtctgctatggaactgttCaattttttcccagttgcttg	9	8	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:70620842C>T	uc003hen.2	-	2	392	c.94G>A	c.(94-96)GAA>AAA	p.E32K		NM_014465	NP_055280	O43704	ST1B1_HUMAN	sulfotransferase family, cytosolic, 1B, member	32					3'-phosphoadenosine 5'-phosphosulfate metabolic process|cellular biogenic amine metabolic process|flavonoid metabolic process|steroid metabolic process|sulfation|thyroid hormone metabolic process|xenobiotic metabolic process	cytosol					0						TGGAACTGTTCAATTTTTTCC	0.403													7	306	---	---	---	---	PASS	T	70620842	T	T	70620842	3	4	119	1	0	0	0	0	1	0	0	0	15373	835	29	2	824	2	SULT1B1	4	70620842	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	269891	70620842	120533434	360	43533										
ADAMTS3	9508	broad.mit.edu	37	chr4	73178122	73178122	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaagtgtttttggcattcttCtgtgttacaaagctggtact	9	6	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:73178122C>T	uc003hgk.1	-	13	1844	c.1807G>A	c.(1807-1809)GAA>AAA	p.E603K	ADAMTS3_uc003hgl.2_5'Flank	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	603	TSP type-1 1.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TGGCATTCTTCTGTGTTACAA	0.428													24	127	---	---	---	---	PASS	T	73178122	T	T	73178122	3	4	119	1	0	0	0	0	1	0	0	0	267	922	32	2	1850	2	ADAMTS3	4	73178122	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2557280	73178122	117976154	361	43534										
NAAA	27163	broad.mit.edu	37	chr4	76857356	76857356	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaccatggtaaatgtggcctCtggagtcttgagccacaata	11	9	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:76857356C>G	uc003hjb.2	-	3	468	c.404G>C	c.(403-405)AGA>ACA	p.R135T	NAAA_uc003hja.2_Missense_Mutation_p.R135T|NAAA_uc003hjc.3_Missense_Mutation_p.R135T|NAAA_uc003hjd.3_RNA|NAAA_uc011cbq.1_Missense_Mutation_p.R34T|NAAA_uc010iiz.1_Missense_Mutation_p.R135T	NM_014435	NP_055250	Q02083	NAAA_HUMAN	N-acylethanolamine acid amidase isoform 1	135					lipid metabolic process	lysosome	hydrolase activity			skin(1)	1						AATGTGGCCTCTGGAGTCTTG	0.393													8	242	---	---	---	---	PASS	G	76857356	G	G	76857356	3	3	119	1	0	0	0	0	1	0	0	0	10127	913	32	2	714	2	NAAA	4	76857356	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3679234	76857356	114296920	362	43535										
FRAS1	80144	broad.mit.edu	37	chr4	79188522	79188522	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggctcggcctgtgagttctGcatgtgtgatcatggccaag	15	9	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:79188522G>A	uc003hlb.2	+	9	1357	c.917G>A	c.(916-918)TGC>TAC	p.C306Y	FRAS1_uc003hkw.2_Missense_Mutation_p.C306Y|FRAS1_uc003hky.1_Missense_Mutation_p.C10Y|FRAS1_uc003hkz.2_Missense_Mutation_p.C10Y	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	306	VWFC 5.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TGTGAGTTCTGCATGTGTGAT	0.552													8	32	---	---	---	---	PASS	A	79188522	A	A	79188522	3	1	119	1	0	0	0	0	1	0	0	0	6042	1319	46	3	951	3	FRAS1	4	79188522	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2331166	79188522	111965754	363	43536										
FRAS1	80144	broad.mit.edu	37	chr4	79366783	79366783	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agagtgttcatgaaagcattGagccaacccatgatattttt	8	7	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:79366783G>C	uc003hlb.2	+	42	6213	c.5773G>C	c.(5773-5775)GAG>CAG	p.E1925Q	FRAS1_uc003hkw.2_Missense_Mutation_p.E1925Q|FRAS1_uc010ijj.1_Missense_Mutation_p.E345Q	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	1924	CSPG 7.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TGAAAGCATTGAGCCAACCCA	0.393													10	376	---	---	---	---	PASS	C	79366783	C	C	79366783	3	2	119	1	0	0	0	0	1	0	0	0	6042	1291	45	2	5939	2	FRAS1	4	79366783	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	178261	79366783	111787493	364	43537										
NAA11	84779	broad.mit.edu	37	chr4	80246623	80246623	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcttccccatctgcatagtAtttaggttccacctcactaa	4	13	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:80246623A>G	uc003hlt.3	-	1	549	c.409T>C	c.(409-411)TAC>CAC	p.Y137H		NM_032693	NP_116082	Q9BSU3	NAA11_HUMAN	alpha-N-acetyltransferase 1B	137	N-acetyltransferase.					cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2						TCTGCATAGTATTTAGGTTCC	0.493													23	81	---	---	---	---	PASS	G	80246623	G	G	80246623	3	3	119	1	0	0	0	0	1	0	0	0	10117	449	16	5	284	5	NAA11	4	80246623	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	879840	80246623	110907653	365	43538										
SEC31A	22872	broad.mit.edu	37	chr4	83802003	83802003	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcatatccaaggatggatcaGagaggtctaattcaaatatc	8	7	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:83802003G>C	uc003hnf.2	-	3	316	c.152C>G	c.(151-153)TCT>TGT	p.S51C	SEC31A_uc011ccl.1_Missense_Mutation_p.S51C|SEC31A_uc003hnl.2_Missense_Mutation_p.S51C|SEC31A_uc003hng.2_Missense_Mutation_p.S51C|SEC31A_uc003hnh.2_Missense_Mutation_p.S51C|SEC31A_uc003hni.2_Missense_Mutation_p.S51C|SEC31A_uc003hnj.2_Missense_Mutation_p.S51C|SEC31A_uc011ccm.1_Missense_Mutation_p.S46C|SEC31A_uc011ccn.1_Missense_Mutation_p.S51C|SEC31A_uc003hnk.2_Missense_Mutation_p.S51C|SEC31A_uc003hnm.2_Missense_Mutation_p.S51C|SEC31A_uc003hnn.1_Missense_Mutation_p.S51C|SEC31A_uc003hno.2_Missense_Mutation_p.S51C	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	51					COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				GGATGGATCAGAGAGGTCTAA	0.333													39	215	---	---	---	---	PASS	C	83802003	C	C	83802003	3	2	119	1	0	0	0	0	1	0	0	0	13998	942	33	2	3610	2	SEC31A	4	83802003	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3555380	83802003	107352273	366	43539										
HELQ	113510	broad.mit.edu	37	chr4	84374925	84374925	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgcctatggtagtaatgctGagtttgtttttgatactttc	9	5	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:84374925G>C	uc003hom.2	-	2	650	c.471C>G	c.(469-471)CTC>CTG	p.L157L	HELQ_uc010ikb.2_Silent_p.L157L|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA|HELQ_uc003hon.1_Silent_p.L51L|HELQ_uc003hoo.1_Silent_p.L120L|HELQ_uc003hop.1_Silent_p.L51L|HELQ_uc003hoq.1_Silent_p.L157L|MRPS18C_uc003hor.3_5'Flank|MRPS18C_uc011ccu.1_5'Flank	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	157							ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						TAGTAATGCTGAGTTTGTTTT	0.398								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					96	407	---	---	---	---	PASS	C	84374925	C	C	84374925	2	2	119	1	0	0	0	0	0	0	0	1	7047	1277	45	2		2	HELQ	4	84374925	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	572922	84374925	106779351	367	43540										
PTPN13	5783	broad.mit.edu	37	chr4	87695598	87695598	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttacagtaaccaaaggcaatCagagaattggttgttatgtt	9	5	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:87695598C>T	uc003hpz.2	+	33	5902	c.5422C>T	c.(5422-5424)CAG>TAG	p.Q1808*	PTPN13_uc003hpy.2_Nonsense_Mutation_p.Q1813*|PTPN13_uc003hqa.2_Nonsense_Mutation_p.Q1789*|PTPN13_uc003hqb.2_Nonsense_Mutation_p.Q1617*|PTPN13_uc003hqc.1_Nonsense_Mutation_p.Q174*	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1808	PDZ 4.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		CAAAGGCAATCAGAGAATTGG	0.393													7	22	---	---	---	---	PASS	T	87695598	T	T	87695598	4	4	119	1	0	0	0	0	0	1	0	0	12782	827	29	2	5563	2	PTPN13	4	87695598	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3320673	87695598	103458678	368	43541										
KLHL8	57563	broad.mit.edu	37	chr4	88116479	88116479	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaaaaaggcaatctcaccttGagtgtgacatcacagagttc	8	9	2	3	rs149338950	byFrequency	TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:88116479G>C	uc011cdb.1	-	2	598	c.213C>G	c.(211-213)CTC>CTG	p.L71L	KLHL8_uc003hql.1_Silent_p.L71L|KLHL8_uc003hqm.1_Silent_p.L71L|KLHL8_uc003hqn.1_Silent_p.L71L|KLHL8_uc010ikj.1_5'UTR	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8	71	BTB.										0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		ATCTCACCTTGAGTGTGACAT	0.363													15	73	---	---	---	---	PASS	C	88116479	C	C	88116479	2	2	119	1	0	0	0	0	0	0	0	1	8395	1277	45	2		2	KLHL8	4	88116479	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	420881	88116479	103037797	369	43542										
FAM13A	10144	broad.mit.edu	37	chr4	89668800	89668800	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	accttaatgtcctcagggcgGctgctttccgctcgcttctc	9	15	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:89668800G>A	uc003hse.1	-	18	2572	c.2364C>T	c.(2362-2364)AGC>AGT	p.S788S	FAM13A_uc003hsa.1_Silent_p.S259S|FAM13A_uc003hsb.1_Silent_p.S462S|FAM13A_uc003hsd.1_Silent_p.S462S|FAM13A_uc003hsc.1_Silent_p.S448S|FAM13A_uc011cdq.1_Silent_p.S434S|FAM13A_uc003hsf.1_Silent_p.S374S|FAM13A_uc003hsg.1_Silent_p.S259S	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	788					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						CCTCAGGGCGGCTGCTTTCCG	0.502													5	278	---	---	---	---	PASS	A	89668800	A	A	89668800	2	1	119	1	0	0	0	0	0	0	0	1	5452	1194	42	3		3	FAM13A	4	89668800	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1552321	89668800	101485476	370	43543										
GPRIN3	285513	broad.mit.edu	37	chr4	90169059	90169059	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaagaagtatctgaggaaaTggatctccgggtctggctat	13	6	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:90169059T>C	uc003hsm.1	-	2	2722	c.2203A>G	c.(2203-2205)ATT>GTT	p.I735V		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	735										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		TCTGAGGAAATGGATCTCCGG	0.483													50	205	---	---	---	---	PASS	C	90169059	C	C	90169059	3	2	119	1	0	0	0	0	1	0	0	0	6731	1464	51	5	131	5	GPRIN3	4	90169059	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	500259	90169059	100985217	371	43544										
FAM190A	401145	broad.mit.edu	37	chr4	91549249	91549249	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acatcagccgaatgcccaacAgtccatctgcggattggcct	9	14	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:91549249A>T	uc003hsv.3	+	6	2138	c.1798A>T	c.(1798-1800)AGT>TGT	p.S600C	FAM190A_uc010ikv.2_RNA|FAM190A_uc003hsw.2_Missense_Mutation_p.S600C	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1	600										large_intestine(1)|ovary(1)	2						AATGCCCAACAGTCCATCTGC	0.448													24	104	---	---	---	---	PASS	T	91549249	T	T	91549249	3	4	119	1	0	0	0	0	1	0	0	0	5521	188	7	5	1816	5	FAM190A	4	91549249	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	1380190	91549249	99605027	372	43545										
FAM190A	401145	broad.mit.edu	37	chr4	91549337	91549337	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actgatgttacaggactgcaCggcagtcaagacgttattat	10	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:91549337C>T	uc003hsv.3	+	6	2226	c.1886C>T	c.(1885-1887)ACG>ATG	p.T629M	FAM190A_uc010ikv.2_RNA|FAM190A_uc003hsw.2_Missense_Mutation_p.T629M	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1	629										large_intestine(1)|ovary(1)	2						CAGGACTGCACGGCAGTCAAG	0.428													6	113	---	---	---	---	PASS	T	91549337	T	T	91549337	3	4	119	1	0	0	0	0	1	0	0	0	5521	536	19	1	1904	1	FAM190A	4	91549337	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	88	91549337	99604939	373	43546										
GRID2	2895	broad.mit.edu	37	chr4	94006149	94006149	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actgtgctttcttgcagcctGtgaacttatgaatcaaggca	9	9	2	2	rs78241610		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:94006149G>T	uc011cdt.1	+	3	506	c.248G>T	c.(247-249)TGT>TTT	p.C83F	GRID2_uc010ikx.2_Missense_Mutation_p.C83F|GRID2_uc011cdu.1_Intron|GRID2_uc011cdv.1_RNA	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	83	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CTTGCAGCCTGTGAACTTATG	0.458													36	63	---	---	---	---	PASS	T	94006149	T	T	94006149	3	4	119	1	0	0	0	0	1	0	0	0	6772	1377	48	3	258	3	GRID2	4	94006149	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2456812	94006149	97148127	374	43547										
ANK2	287	broad.mit.edu	37	chr4	114276263	114276263	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaggagacagaaaaggcacaGcttcacttagaccaagtact	10	9	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:114276263G>A	uc003ibe.3	+	38	6589	c.6489G>A	c.(6487-6489)CAG>CAA	p.Q2163Q	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_5'Flank|ANK2_uc011cgb.1_Silent_p.Q2178Q	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2130					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AAAAGGCACAGCTTCACTTAG	0.443													53	65	---	---	---	---	PASS	A	114276263	A	A	114276263	2	1	119	1	0	0	0	0	0	0	0	1	621	962	34	3		3	ANK2	4	114276263	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	20270114	114276263	76878013	375	43548										
NDST3	9348	broad.mit.edu	37	chr4	119035982	119035982	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aactgaagaggaagatgaagGagatgactgtctgttggggt	16	3	1	6			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:119035982G>C	uc003ibx.2	+	4	1494	c.1091G>C	c.(1090-1092)GGA>GCA	p.G364A	NDST3_uc011cgf.1_Intron	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	364	Lumenal (Potential).|Heparan sulfate N-deacetylase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						GAAGATGAAGGAGATGACTGT	0.423													8	119	---	---	---	---	PASS	C	119035982	C	C	119035982	3	2	119	1	0	0	0	0	1	0	0	0	10257	1174	41	2	1101	2	NDST3	4	119035982	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4759719	119035982	72118294	376	43549										
PRSS12	8492	broad.mit.edu	37	chr4	119203131	119203131	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttatccaaggtacaaaggctGagactttggtataaacacca	8	8	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:119203131G>C	uc003ica.1	-	13	2635	c.2588C>G	c.(2587-2589)TCA>TGA	p.S863*		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	863	Peptidase S1.					membrane	scavenger receptor activity			skin(1)	1						TACAAAGGCTGAGACTTTGGT	0.458													58	89	---	---	---	---	PASS	C	119203131	C	C	119203131	4	2	119	1	0	0	0	0	0	1	0	0	12615	1294	45	2	43	2	PRSS12	4	119203131	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	167149	119203131	71951145	377	43550										
C4orf31	79625	broad.mit.edu	37	chr4	121958117	121958117	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gactgtcttctgtttggcttCttccttggtcctggcaaagg	11	10	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:121958117C>T	uc003idq.1	-	4	1536	c.1009G>A	c.(1009-1011)GAA>AAA	p.E337K		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	337											0						TGTTTGGCTTCTTCCTTGGTC	0.438													91	129	---	---	---	---	PASS	T	121958117	T	T	121958117	3	4	119	1	0	0	0	0	1	0	0	0	2261	922	32	2	701	2	C4orf31	4	121958117	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2754986	121958117	69196159	378	43551										
FAT4	79633	broad.mit.edu	37	chr4	126371212	126371212	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aatagatgacaaagattttgGactgaattcagaagtggagt	11	3	1	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:126371212G>T	uc003ifj.3	+	9	9041	c.9041G>T	c.(9040-9042)GGA>GTA	p.G3014V	FAT4_uc011cgp.1_Missense_Mutation_p.G1312V|FAT4_uc003ifi.1_Missense_Mutation_p.G492V	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3014	Extracellular (Potential).|Cadherin 29.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AAAGATTTTGGACTGAATTCA	0.348													51	109	---	---	---	---	PASS	T	126371212	T	T	126371212	3	4	119	1	0	0	0	0	1	0	0	0	5692	1174	41	2	9075	2	FAT4	4	126371212	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4413095	126371212	64783064	379	43552										
NAA15	80155	broad.mit.edu	37	chr4	140291423	140291423	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaacaaagaagagctcaaaaGaaagcccagatagaagaaga	9	6	1	7			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:140291423G>A	uc003ihu.1	+	15	2068	c.1812G>A	c.(1810-1812)AAG>AAA	p.K604K		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	604					angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2						GAGCTCAAAAGAAAGCCCAGA	0.184													3	26	---	---	---	---	PASS	A	140291423	A	A	140291423	2	1	119	1	0	0	0	0	0	0	0	1	10118	933	33	2		2	NAA15	4	140291423	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	13920211	140291423	50862853	380	43553										
INPP4B	8821	broad.mit.edu	37	chr4	143003189	143003189	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaacatgtgagataccttctCatgcaatccagcgctcggat	8	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:143003189C>T	uc003iix.3	-	26	3232	c.2637G>A	c.(2635-2637)ATG>ATA	p.M879I	INPP4B_uc003iiw.3_Missense_Mutation_p.M879I|INPP4B_uc011chm.1_RNA|INPP4B_uc011chn.1_Missense_Mutation_p.M694I|INPP4B_uc011cho.1_RNA	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	879					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					GATACCTTCTCATGCAATCCA	0.343													40	61	---	---	---	---	PASS	T	143003189	T	T	143003189	3	4	119	1	0	0	0	0	1	0	0	0	7753	826	29	2	145	2	INPP4B	4	143003189	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2711766	143003189	48151087	381	43554										
INPP4B	8821	broad.mit.edu	37	chr4	143029291	143029291	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatcttgtaatattcttgtaGaagttcgaagttttcctgat	7	5	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:143029291G>C	uc003iix.3	-	24	2924	c.2329C>G	c.(2329-2331)CTA>GTA	p.L777V	INPP4B_uc003iiw.3_Missense_Mutation_p.L777V|INPP4B_uc011chm.1_RNA|INPP4B_uc011chn.1_Missense_Mutation_p.L592V|INPP4B_uc011cho.1_RNA	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	777					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					TATTCTTGTAGAAGTTCGAAG	0.323													8	84	---	---	---	---	PASS	C	143029291	C	C	143029291	3	2	119	1	0	0	0	0	1	0	0	0	7753	933	33	2	461	2	INPP4B	4	143029291	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	26102	143029291	48124985	382	43555										
C4orf51	646603	broad.mit.edu	37	chr4	146617716	146617716	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acttgctttccttaggatgtCattgacaaacagttctgcct	7	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:146617716C>G	uc003ikk.2	+	2	239	c.239C>G	c.(238-240)TCA>TGA	p.S80*		NM_001080531	NP_001074000	C9J302	CD051_HUMAN	chromosome 4 open reading frame 51	80											0						CTTAGGATGTCATTGACAAAC	0.403													40	75	---	---	---	---	PASS	G	146617716	G	G	146617716	4	3	119	1	0	0	0	0	0	1	0	0	2277	838	29	2	245	2	C4orf51	4	146617716	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3588425	146617716	44536560	383	43556										
PRMT10	90826	broad.mit.edu	37	chr4	148575157	148575157	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagccaaaactcaagtgtttCtttaggaaagtgattggctt	9	7	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:148575157C>G	uc003ilc.2	-	9	2033	c.1891G>C	c.(1891-1893)GAA>CAA	p.E631Q	PRMT10_uc003ilb.2_Missense_Mutation_p.E275Q|PRMT10_uc003ild.2_Missense_Mutation_p.E518Q	NM_138364	NP_612373	Q6P2P2	ANM10_HUMAN	protein arginine methyltransferase 10	631						cytoplasm	binding|protein methyltransferase activity			ovary(1)|central_nervous_system(1)	2						TCAAGTGTTTCTTTAGGAAAG	0.418													21	198	---	---	---	---	PASS	G	148575157	G	G	148575157	3	3	119	1	0	0	0	0	1	0	0	0	12536	922	32	2	662	2	PRMT10	4	148575157	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1957441	148575157	42579119	384	43557										
FBXW7	55294	broad.mit.edu	37	chr4	153244124	153244124	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cacacaccagctttgtgtttGaggctctgatccgccacaca	8	14	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:153244124G>C	uc003ims.2	-	12	2182	c.2033C>G	c.(2032-2034)TCA>TGA	p.S678*	FBXW7_uc011cii.1_Nonsense_Mutation_p.S678*|FBXW7_uc003imt.2_Nonsense_Mutation_p.S678*|FBXW7_uc011cih.1_Nonsense_Mutation_p.S502*|FBXW7_uc003imq.2_Nonsense_Mutation_p.S598*|FBXW7_uc003imr.2_Nonsense_Mutation_p.S560*	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	678					interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				CTTTGTGTTTGAGGCTCTGAT	0.493			Mis|N|D|F		colorectal|endometrial|T-ALL								44	233	---	---	---	---	PASS	C	153244124	C	C	153244124	4	2	119	1	0	0	0	0	0	1	0	0	5769	1294	45	2	94	2	FBXW7	4	153244124	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4668967	153244124	37910152	385	43558										
DCHS2	54798	broad.mit.edu	37	chr4	155157121	155157121	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgccaatcaactgtctgtCtttattcttttctgggaggg	9	9	6	0	rs145835627		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:155157121C>G	uc003inw.2	-	25	7318	c.7318G>C	c.(7318-7320)GAC>CAC	p.D2440H		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2440	Cadherin 22.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AACTGTCTGTCTTTATTCTTT	0.428													9	112	---	---	---	---	PASS	G	155157121	G	G	155157121	3	3	119	1	0	0	0	0	1	0	0	0	4288	913	32	2	1436	2	DCHS2	4	155157121	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1912997	155157121	35997155	386	43559										
GLRB	2743	broad.mit.edu	37	chr4	158059978	158059978	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tagttggttacacaactgatGatttacgatttatctggcag	9	6	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:158059978G>A	uc003ipj.2	+	7	830	c.628G>A	c.(628-630)GAT>AAT	p.D210N		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	210	Extracellular (Probable).				nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	CACAACTGATGATTTACGATT	0.249													44	78	---	---	---	---	PASS	A	158059978	A	A	158059978	3	1	119	1	0	0	0	0	1	0	0	0	6458	1290	45	2	650	2	GLRB	4	158059978	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2902857	158059978	33094298	387	43560										
TRIM60	166655	broad.mit.edu	37	chr4	165962382	165962382	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcagttctgggcggattctgGgcaattgggcgatacatgaa	14	7	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:165962382G>A	uc003iqy.1	+	3	1328	c.1158G>A	c.(1156-1158)TGG>TGA	p.W386*	TRIM60_uc010iqx.1_Nonsense_Mutation_p.W386*	NM_152620	NP_689833	Q495X7	TRI60_HUMAN	ring finger protein 129	386	B30.2/SPRY.					intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0844)		GCGGATTCTGGGCAATTGGGC	0.453													77	128	---	---	---	---	PASS	A	165962382	A	A	165962382	4	1	119	1	0	0	0	0	0	1	0	0	16532	1241	43	3	1160	3	TRIM60	4	165962382	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	7902404	165962382	25191894	388	43561										
TMEM192	201931	broad.mit.edu	37	chr4	166006831	166006831	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtttagctttattaaatctcCggattttcactaaaataata	4	6	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:166006831C>A	uc003iqz.3	-	5	683	c.584G>T	c.(583-585)CGG>CTG	p.R195L		NM_001100389	NP_001093859	Q8IY95	TM192_HUMAN	transmembrane protein 192	195	Cytoplasmic (Potential).					Golgi apparatus|integral to membrane|late endosome|lysosomal membrane|nucleus				skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0926)		ATTAAATCTCCGGATTTTCAC	0.318													14	105	---	---	---	---	PASS	A	166006831	A	A	166006831	3	1	119	1	0	0	0	0	1	0	0	0	16112	652	23	1	239	1	TMEM192	4	166006831	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	44449	166006831	25147445	389	43562										
VEGFC	7424	broad.mit.edu	37	chr4	177608573	177608573	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtctagttctttgtggggtcCacagctggcaggccgaagcc	14	11	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:177608573C>G	uc003ius.1	-	6	1343	c.913G>C	c.(913-915)GGA>CGA	p.G305R		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	305	4 X 16 AA repeats of C-X(10)-C-X-C- X(1,3)-C.|2.				angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		TTGTGGGGTCCACAGCTGGCA	0.507													90	120	---	---	---	---	PASS	G	177608573	G	G	177608573	3	3	119	1	0	0	0	0	1	0	0	0	17149	603	21	4	357	4	VEGFC	4	177608573	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	11601742	177608573	13545703	390	43563										
ACSL1	2180	broad.mit.edu	37	chr4	185687114	185687114	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggggcggctcctgtcaccatCagccggactcttccgcccag	12	17	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:185687114C>G	uc003iww.2	-	14	1584	c.1290G>C	c.(1288-1290)CTG>CTC	p.L430L	ACSL1_uc011ckm.1_Silent_p.L259L|ACSL1_uc003iwt.1_Silent_p.L430L|ACSL1_uc003iwu.1_Silent_p.L430L|ACSL1_uc011ckn.1_Silent_p.L396L|ACSL1_uc003iws.1_5'UTR	NM_001995	NP_001986	P33121	ACSL1_HUMAN	acyl-CoA synthetase long-chain family member 1	430	Cytoplasmic (Potential).				digestion|fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|regulation of fatty acid oxidation|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			ovary(2)	2		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Colorectal(36;0.00172)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0315)|all_neural(102;0.107)|Medulloblastoma(177;0.146)		all cancers(43;1.33e-28)|Epithelial(43;5.3e-25)|OV - Ovarian serous cystadenocarcinoma(60;4.88e-11)|Colorectal(24;3.59e-06)|STAD - Stomach adenocarcinoma(60;2.72e-05)|GBM - Glioblastoma multiforme(59;2.83e-05)|BRCA - Breast invasive adenocarcinoma(30;7.66e-05)|COAD - Colon adenocarcinoma(29;0.000538)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.0419)	Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CTGTCACCATCAGCCGGACTC	0.652													36	68	---	---	---	---	PASS	G	185687114	G	G	185687114	2	3	119	1	0	0	0	0	0	0	0	1	177	813	29	2		2	ACSL1	4	185687114	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	8078541	185687114	5467162	391	43564										
SORBS2	8470	broad.mit.edu	37	chr4	186533109	186533109	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cataccagttttgatcaactCttttaagaagaataactcta	4	8	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:186533109C>T	uc003iyl.2	-	18	3767	c.2909G>A	c.(2908-2910)AGA>AAA	p.R970K	SORBS2_uc003iyh.2_Missense_Mutation_p.R694K|SORBS2_uc011ckw.1_Missense_Mutation_p.R531K|SORBS2_uc003iyi.2_Missense_Mutation_p.R601K|SORBS2_uc011ckx.1_Missense_Mutation_p.R536K|SORBS2_uc003iyk.2_Missense_Mutation_p.R514K|SORBS2_uc003iym.2_Missense_Mutation_p.R1070K|SORBS2_uc003iyn.1_Missense_Mutation_p.R561K|SORBS2_uc011cku.1_Missense_Mutation_p.R362K|SORBS2_uc011ckv.1_Missense_Mutation_p.R874K|SORBS2_uc003iyd.2_Missense_Mutation_p.R669K|SORBS2_uc003iye.2_Missense_Mutation_p.R543K|SORBS2_uc003iya.2_Missense_Mutation_p.R490K|SORBS2_uc003iyb.2_Missense_Mutation_p.R443K|SORBS2_uc003iyc.2_Missense_Mutation_p.R423K|SORBS2_uc003iyg.2_Missense_Mutation_p.R1084K|SORBS2_uc003iyf.2_Missense_Mutation_p.R506K|SORBS2_uc003iyo.1_Missense_Mutation_p.R419K	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	970	SH3 2.					actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		TTGATCAACTCTTTTAAGAAG	0.343													5	57	---	---	---	---	PASS	T	186533109	T	T	186533109	3	4	119	1	0	0	0	0	1	0	0	0	14928	913	32	2	409	2	SORBS2	4	186533109	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	845995	186533109	4621167	392	43565										
KLKB1	3818	broad.mit.edu	37	chr4	187178478	187178478	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ataaaataacccaacggatgGtctgtgctggctataaagaa	9	7	1	1	rs61750344		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:187178478G>A	uc003iyy.2	+	14	1755	c.1684G>A	c.(1684-1686)GTC>ATC	p.V562I	KLKB1_uc011clc.1_Missense_Mutation_p.V360I|KLKB1_uc011cld.1_Intron	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	562	Peptidase S1.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		CCAACGGATGGTCTGTGCTGG	0.328													9	214	---	---	---	---	PASS	A	187178478	A	A	187178478	3	1	119	1	0	0	0	0	1	0	0	0	8412	1261	44	3	1734	3	KLKB1	4	187178478	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	645369	187178478	3975798	393	43566										
F11	2160	broad.mit.edu	37	chr4	187207596	187207596	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acgacccatatgcctgccttCcaaaggagatagaaatgtaa	8	10	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:187207596C>G	uc003iza.1	+	13	1841	c.1508C>G	c.(1507-1509)TCC>TGC	p.S503C	uc003izb.1_Intron	NM_000128	NP_000119	P03951	FA11_HUMAN	coagulation factor XI precursor	503	Peptidase S1.				blood coagulation, intrinsic pathway|plasminogen activation|positive regulation of fibrinolysis	extracellular space|plasma membrane	heparin binding|serine-type endopeptidase activity				0		all_cancers(14;6.2e-52)|all_epithelial(14;1.62e-38)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;2.13e-11)|BRCA - Breast invasive adenocarcinoma(30;4.59e-06)|GBM - Glioblastoma multiforme(59;0.000149)|STAD - Stomach adenocarcinoma(60;0.000314)|LUSC - Lung squamous cell carcinoma(40;0.00112)|READ - Rectum adenocarcinoma(43;0.176)	Coagulation Factor IX(DB00100)	TGCCTGCCTTCCAAAGGAGAT	0.378													118	190	---	---	---	---	PASS	G	187207596	G	G	187207596	3	3	119	1	0	0	0	0	1	0	0	0	5337	855	30	2	1554	2	F11	4	187207596	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	29118	187207596	3946680	394	43567										
FAT1	2195	broad.mit.edu	37	chr4	187584725	187584725	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agactgttagccaataatggGaggtcgattcacggtccagt	12	8	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:187584725G>A	uc003izf.2	-	3	3496	c.3308C>T	c.(3307-3309)TCC>TTC	p.S1103F		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1103	Extracellular (Potential).|Cadherin 9.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CCAATAATGGGAGGTCGATTC	0.458										HNSCC(5;0.00058)			4	119	---	---	---	---	PASS	A	187584725	A	A	187584725	3	1	119	1	0	0	0	0	1	0	0	0	5689	1174	41	2	10558	2	FAT1	4	187584725	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	377129	187584725	3569551	395	43568										
FRG1	2483	broad.mit.edu	37	chr4	190883087	190883087	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcatgagacgcttctggacaGgtagctatttatttacttat	9	7	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr4:190883087G>T	uc003izs.2	+	8	931	c.740G>T	c.(739-741)AGG>ATG	p.R247M		NM_004477	NP_004468	Q14331	FRG1_HUMAN	FSHD region gene 1	247	Bipartite nuclear localization signal (Potential).				rRNA processing	Cajal body|catalytic step 2 spliceosome|nuclear speck|nucleolus					0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;1.73e-30)|Epithelial(3;5.85e-30)|OV - Ovarian serous cystadenocarcinoma(60;5.56e-15)|BRCA - Breast invasive adenocarcinoma(30;9.14e-06)|Lung(3;3.54e-05)|STAD - Stomach adenocarcinoma(60;8.83e-05)|LUSC - Lung squamous cell carcinoma(40;0.000198)|GBM - Glioblastoma multiforme(59;0.00892)|READ - Rectum adenocarcinoma(43;0.161)		CTTCTGGACAGGTAGCTATTT	0.328													4	119	---	---	---	---	PASS	T	190883087	T	T	190883087	3	4	119	1	0	0	0	0	1	0	0	0	6046	1014	35	3	770	3	FRG1	4	190883087	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3298362	190883087	271189	396	43569										
PLEKHG4B	153478	broad.mit.edu	37	chr5	182199	182199	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaccacactccaccatctcaGacagcagcacctcctcttct	4	19	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:182199G>C	uc003jak.2	+	18	3627	c.3577G>C	c.(3577-3579)GAC>CAC	p.D1193H		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	1193	Ser-rich.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		CACCATCTCAGACAGCAGCAC	0.627													7	125	---	---	---	---	PASS	C	182199	C	C	182199	3	2	119	1	0	0	0	0	1	0	0	0	12072	942	33	2	3647	2	PLEKHG4B	5	182199	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08		182199	180733061	397	43570										
ADAMTS16	170690	broad.mit.edu	37	chr5	5232531	5232531	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtgatgaaggccccaagccCacccatggccactggtcgga	13	14	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:5232531C>T	uc003jdl.2	+	12	1890	c.1752C>T	c.(1750-1752)CCC>CCT	p.P584P	ADAMTS16_uc003jdk.1_Silent_p.P584P|ADAMTS16_uc010itk.1_5'Flank	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	584	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GCCCCAAGCCCACCCATGGCC	0.527													9	207	---	---	---	---	PASS	T	5232531	T	T	5232531	2	4	119	1	0	0	0	0	0	0	0	1	261	581	21	3		3	ADAMTS16	5	5232531	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	5050332	5232531	175682729	398	43571										
ADAMTS16	170690	broad.mit.edu	37	chr5	5235206	5235206	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtcagaaatgtccccgggacAgtgttgacttccgtgctgct	12	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:5235206A>C	uc003jdl.2	+	13	2068	c.1930A>C	c.(1930-1932)AGT>CGT	p.S644R	ADAMTS16_uc003jdk.1_Missense_Mutation_p.S644R|ADAMTS16_uc010itk.1_RNA	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	644	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TCCCCGGGACAGTGTTGACTT	0.522													43	99	---	---	---	---	PASS	C	5235206	C	C	5235206	3	2	119	1	0	0	0	0	1	0	0	0	261	188	7	5	1980	5	ADAMTS16	5	5235206	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	2675	5235206	175680054	399	43572										
PAPD7	11044	broad.mit.edu	37	chr5	6750603	6750603	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcttctgtgtcttcactttCtgggagtgacgttgtaagtg	11	8	5	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:6750603C>T	uc003jdx.1	+	10	1226	c.1097C>T	c.(1096-1098)TCT>TTT	p.S366F	PAPD7_uc011cmn.1_Missense_Mutation_p.S357F|PAPD7_uc010itl.1_Missense_Mutation_p.S186F	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	366	Ser-rich.				cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						TCTTCACTTTCTGGGAGTGAC	0.567													4	103	---	---	---	---	PASS	T	6750603	T	T	6750603	3	4	119	1	0	0	0	0	1	0	0	0	11426	913	32	2	1131	2	PAPD7	5	6750603	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1515397	6750603	174164657	400	43573										
MYO10	4651	broad.mit.edu	37	chr5	16754996	16754996	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attagaggagcttagcgttgCcattaaggaatgcagtgagt	13	5	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:16754996C>A	uc003jft.3	-	19	2338	c.1870G>T	c.(1870-1872)GCA>TCA	p.A624S	MYO10_uc010itx.2_Missense_Mutation_p.A247S	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	624	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CTTAGCGTTGCCATTAAGGAA	0.388													7	19	---	---	---	---	PASS	A	16754996	A	A	16754996	3	1	119	1	0	0	0	0	1	0	0	0	10062	739	26	3	4398	3	MYO10	5	16754996	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	10004393	16754996	164160264	401	43574										
CDH18	1016	broad.mit.edu	37	chr5	19838895	19838895	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acatactgaggatctggtccCatatgttcttctaaaacaaa	6	9	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:19838895C>A	uc003jgc.2	-	2	578	c.201G>T	c.(199-201)ATG>ATT	p.M67I	CDH18_uc003jgd.2_Missense_Mutation_p.M67I|CDH18_uc011cnm.1_Missense_Mutation_p.M67I	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	67	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					GATCTGGTCCCATATGTTCTT	0.393													24	109	---	---	---	---	PASS	A	19838895	A	A	19838895	3	1	119	1	0	0	0	0	1	0	0	0	3103	594	21	3	2215	3	CDH18	5	19838895	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3083899	19838895	161076365	402	43575										
CDH12	1010	broad.mit.edu	37	chr5	21975445	21975445	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cggtgccagcgccatctcctGagagggtgtatttcacagtg	13	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:21975445G>C	uc010iuc.2	-	3	739	c.281C>G	c.(280-282)TCA>TGA	p.S94*	CDH12_uc011cno.1_Nonsense_Mutation_p.S94*|CDH12_uc003jgk.2_Nonsense_Mutation_p.S94*	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	94	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						GCCATCTCCTGAGAGGGTGTA	0.373										HNSCC(59;0.17)			29	259	---	---	---	---	PASS	C	21975445	C	C	21975445	4	2	119	1	0	0	0	0	0	1	0	0	3098	1294	45	2	2143	2	CDH12	5	21975445	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2136550	21975445	158939815	403	43576										
PRDM9	56979	broad.mit.edu	37	chr5	23526672	23526672	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagctgtagagtgggaaaaaGaataatggaagaagagtcca	14	3	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:23526672G>A	uc003jgo.2	+	11	1657	c.1475G>A	c.(1474-1476)AGA>AAA	p.R492K		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	492					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						GTGGGAAAAAGAATAATGGAA	0.448										HNSCC(3;0.000094)			12	44	---	---	---	---	PASS	A	23526672	A	A	23526672	3	1	119	1	0	0	0	0	1	0	0	0	12463	942	33	2	1513	2	PRDM9	5	23526672	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1551227	23526672	157388588	404	43577										
PRDM9	56979	broad.mit.edu	37	chr5	23527570	23527570	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttagagataagtcaaacctCctcagtcaccagaggacaca	7	11	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:23527570C>A	uc003jgo.2	+	11	2555	c.2373C>A	c.(2371-2373)CTC>CTA	p.L791L		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	791	C2H2-type 11.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AGTCAAACCTCCTCAGTCACC	0.562										HNSCC(3;0.000094)			45	197	---	---	---	---	PASS	A	23527570	A	A	23527570	2	1	119	1	0	0	0	0	0	0	0	1	12463	842	30	2		2	PRDM9	5	23527570	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	898	23527570	157387690	405	43578										
CDH10	1008	broad.mit.edu	37	chr5	24498608	24498608	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctcacaaaaacagccacgcGtgttgtctctttgggattgt	9	10	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:24498608G>T	uc003jgr.1	-	9	1746	c.1414C>A	c.(1414-1416)CGC>AGC	p.R472S	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	472	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ACAGCCACGCGTGTTGTCTCT	0.383										HNSCC(23;0.051)			45	120	---	---	---	---	PASS	T	24498608	T	T	24498608	3	4	119	1	0	0	0	0	1	0	0	0	3096	1145	40	1	968	1	CDH10	5	24498608	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	971038	24498608	156416652	406	43579										
ADAMTS12	81792	broad.mit.edu	37	chr5	33561194	33561194	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtggcatctttttgcagggtCaggtctctggatggccgcac	14	10	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:33561194C>A	uc003jia.1	-	20	4226	c.4063G>T	c.(4063-4065)GAC>TAC	p.D1355Y	ADAMTS12_uc010iuq.1_Missense_Mutation_p.D1270Y	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1355	TSP type-1 5.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TTTGCAGGGTCAGGTCTCTGG	0.572										HNSCC(64;0.19)			67	198	---	---	---	---	PASS	A	33561194	A	A	33561194	3	1	119	1	0	0	0	0	1	0	0	0	257	826	29	2	741	2	ADAMTS12	5	33561194	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	9062586	33561194	147354066	407	43580										
ADAMTS12	81792	broad.mit.edu	37	chr5	33576160	33576160	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggggtaggaaatgtcttaccTcgctccagtttccgacgatc	11	11	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:33576160T>A	uc003jia.1	-	19	4134	c.3971A>T	c.(3970-3972)GAG>GTG	p.E1324V	ADAMTS12_uc010iuq.1_Missense_Mutation_p.E1239V	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1324	TSP type-1 5.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						ATGTCTTACCTCGCTCCAGTT	0.418										HNSCC(64;0.19)			44	124	---	---	---	---	PASS	A	33576160	A	A	33576160	3	1	119	1	0	0	0	0	1	0	0	0	257	1565	54	5	837	5	ADAMTS12	5	33576160	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	14966	33576160	147339100	408	43581										
RAD1	5810	broad.mit.edu	37	chr5	34908871	34908871	+	Nonstop_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatcagtgaattgtcatactCaagactcagattcaggaact	7	8	5	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:34908871C>G	uc003jix.2	-	6	1177	c.848G>C	c.(847-849)TGA>TCA	p.*283S	RAD1_uc003jiw.2_Nonstop_Mutation_p.*174S|RAD1_uc003jiy.2_Nonstop_Mutation_p.*283S	NM_002853	NP_002844	O60671	RAD1_HUMAN	RAD1 homolog	283					DNA damage checkpoint|DNA repair|DNA replication|meiotic prophase I	nucleoplasm	3'-5' exonuclease activity|damaged DNA binding|exodeoxyribonuclease III activity|protein binding				0	all_lung(31;0.000107)	Lung NSC(810;5.19e-05)|Ovarian(839;0.0448)|Breast(839;0.198)	COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)			TTGTCATACTCAAGACTCAGA	0.313								Other_conserved_DNA_damage_response_genes					12	151	---	---	---	---	PASS	G	34908871	G	G	34908871	4	3	119	1	0	0	0	0	0	0	0	0	12978	837	29	2	4	2	RAD1	5	34908871	Nonstop_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1332711	34908871	146006389	409	43582										
LMBRD2	92255	broad.mit.edu	37	chr5	36115160	36115160	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tattcttgtgagagatagatGaatccatatgggtcaaaccc	9	7	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:36115160G>A	uc003jkb.1	-	12	1914	c.1499C>T	c.(1498-1500)TCA>TTA	p.S500L		NM_001007527	NP_001007528	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	500	Extracellular (Potential).					integral to membrane					0	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AGAGATAGATGAATCCATATG	0.338													11	74	---	---	---	---	PASS	A	36115160	A	A	36115160	3	1	119	1	0	0	0	0	1	0	0	0	8843	1294	45	2	616	2	LMBRD2	5	36115160	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1206289	36115160	144800100	410	43583										
NUP155	9631	broad.mit.edu	37	chr5	37293071	37293071	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtgcagtggcttcttcattCtgttccagaatggatcctat	10	9	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:37293071C>G	uc003jku.1	-	34	4065	c.3947G>C	c.(3946-3948)AGA>ACA	p.R1316T	NUP155_uc003jkt.1_Missense_Mutation_p.R1257T|NUP155_uc010iuz.1_Missense_Mutation_p.R1252T	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	1316					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTTCTTCATTCTGTTCCAGAA	0.313													66	157	---	---	---	---	PASS	G	37293071	G	G	37293071	3	3	119	1	0	0	0	0	1	0	0	0	10756	913	32	2	236	2	NUP155	5	37293071	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1177911	37293071	143622189	411	43584										
WDR70	55100	broad.mit.edu	37	chr5	37723010	37723010	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaaggcaaaacaagctgagaCtctaactcaggactacatca	8	10	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:37723010C>T	uc003jkv.2	+	15	1629	c.1571C>T	c.(1570-1572)ACT>ATT	p.T524I		NM_018034	NP_060504	Q9NW82	WDR70_HUMAN	WD repeat domain 70	524										ovary(1)|central_nervous_system(1)	2	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CAAGCTGAGACTCTAACTCAG	0.403													12	144	---	---	---	---	PASS	T	37723010	T	T	37723010	3	4	119	1	0	0	0	0	1	0	0	0	17318	565	20	3	1629	3	WDR70	5	37723010	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	429939	37723010	143192250	412	43585										
PLCXD3	345557	broad.mit.edu	37	chr5	41510613	41510613	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taatttcagctcgtttttccCctgagacgaggccatcgtgc	9	12	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:41510613C>T	uc003jmm.1	-	1	118	c.16G>A	c.(16-18)GGG>AGG	p.G6R		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	6					intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						TCGTTTTTCCCCTGAGACGAG	0.607													5	40	---	---	---	---	PASS	T	41510613	T	T	41510613	3	4	119	1	0	0	0	0	1	0	0	0	12043	623	22	3	961	3	PLCXD3	5	41510613	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3787603	41510613	139404647	413	43586										
ADAMTS6	11174	broad.mit.edu	37	chr5	64520828	64520828	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cccctccacagactcgacatCtatcttccctagcatcagat	4	17	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:64520828C>T	uc003jtp.2	-	17	2928	c.2114G>A	c.(2113-2115)AGA>AAA	p.R705K	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA|ADAMTS6_uc003jtr.1_Missense_Mutation_p.R326K	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	705					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		GACTCGACATCTATCTTCCCT	0.443													43	44	---	---	---	---	PASS	T	64520828	T	T	64520828	3	4	119	1	0	0	0	0	1	0	0	0	270	913	32	2	1275	2	ADAMTS6	5	64520828	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	23010215	64520828	116394432	414	43587										
ADAMTS6	11174	broad.mit.edu	37	chr5	64766952	64766952	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agttagctggtagtgttcaaGataagtcaggaattcctctt	10	6	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:64766952G>C	uc003jtp.2	-	3	929	c.115C>G	c.(115-117)CTT>GTT	p.L39V	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA|ADAMTS6_uc003jtr.1_Translation_Start_Site	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	39					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		TAGTGTTCAAGATAAGTCAGG	0.358													5	92	---	---	---	---	PASS	C	64766952	C	C	64766952	3	2	119	1	0	0	0	0	1	0	0	0	270	942	33	2	3330	2	ADAMTS6	5	64766952	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	246124	64766952	116148308	415	43588										
MAST4	375449	broad.mit.edu	37	chr5	66055606	66055606	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acccagatgtggcttctggcCctggaaaatcactgaagtat	10	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:66055606C>A	uc003jur.3	+	2	741	c.433C>A	c.(433-435)CCT>ACT	p.P145T	MAST4_uc010iwz.2_Missense_Mutation_p.P145T	NM_198828	NP_942123	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	145						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)		GGCTTCTGGCCCTGGAAAATC	0.542													4	84	---	---	---	---	PASS	A	66055606	A	A	66055606	3	1	119	1	0	0	0	0	1	0	0	0	9327	623	22	3	439	3	MAST4	5	66055606	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1288654	66055606	114859654	416	43589										
RGNEF	64283	broad.mit.edu	37	chr5	73163738	73163738	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcccacagcctggtctctcCttgcacccttcttcctccgt	5	19	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:73163738C>T	uc011csq.1	+	18	2201	c.2190C>T	c.(2188-2190)TCC>TCT	p.S730S	RGNEF_uc003kcx.2_Silent_p.S730S|RGNEF_uc010izf.2_Silent_p.S730S|RGNEF_uc011csr.1_Silent_p.S417S	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	730					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		CTGGTCTCTCCTTGCACCCTT	0.493													39	67	---	---	---	---	PASS	T	73163738	T	T	73163738	2	4	119	1	0	0	0	0	0	0	0	1	13283	668	24	3		3	RGNEF	5	73163738	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	7108132	73163738	107751522	417	43590										
POC5	134359	broad.mit.edu	37	chr5	74986241	74986241	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcttcataatcattggaaatCtggatacaaacttcttcagc	6	9	5	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:74986241C>G	uc003keh.3	-	8	1139	c.942G>C	c.(940-942)CAG>CAC	p.Q314H	POC5_uc010izu.2_Missense_Mutation_p.Q197H|POC5_uc003keg.3_Missense_Mutation_p.Q289H	NM_001099271	NP_001092741	Q8NA72	POC5_HUMAN	proteome of centriole 5 isoform 1	314					cell cycle	centriole				lung(1)	1						CATTGGAAATCTGGATACAAA	0.368													14	24	---	---	---	---	PASS	G	74986241	G	G	74986241	3	3	119	1	0	0	0	0	1	0	0	0	12177	912	32	2	805	2	POC5	5	74986241	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1822503	74986241	105929019	418	43591										
CMYA5	202333	broad.mit.edu	37	chr5	79029970	79029970	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gataagctaagtgaagaaacAggccacccaaattcatccca	7	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:79029970A>T	uc003kgc.2	+	2	5454	c.5382A>T	c.(5380-5382)ACA>ACT	p.T1794T		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1794						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GTGAAGAAACAGGCCACCCAA	0.398													36	69	---	---	---	---	PASS	T	79029970	T	T	79029970	2	4	119	1	0	0	0	0	0	0	0	1	3590	175	7	5		5	CMYA5	5	79029970	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	4043729	79029970	101885290	419	43592										
EDIL3	10085	broad.mit.edu	37	chr5	83433136	83433136	+	Frame_Shift_Del	DEL	C	-	-													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caagatctgtacatattccaCcatttttgcaaggctcaact							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:83433136delC	uc003kio.1	-	5	811	c.392delG	c.(391-393)GGTfs	p.G131fs	EDIL3_uc003kip.1_Frame_Shift_Del_p.G121fs	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like	131	EGF-like 3.				cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)		ACATATTCCACCATTTTTGCA	0.333													195	87	---	---	---	---		-	83433136	-	-	83433136	7	5	119	1	0	1	0	1	0	0	0	0	4915	507	18	0	1078	0	EDIL3	5	83433136	Frame_Shift_Del	DEL	C	TCGA-60-2698-01A-01D-1522-08	4403166	83433136	97482124	420	43593										
RASA1	5921	broad.mit.edu	37	chr5	86679528	86679528	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaaaaatttccctcccattcAgtggttttgtttttcttcga	5	9	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:86679528A>G	uc003kiw.2	+	21	2809	c.2691_splice	c.e21-2	p.S897_splice	RASA1_uc010jav.2_Splice_Site|RASA1_uc003kix.2_Splice_Site_p.S720_splice|RASA1_uc011ctv.1_Splice_Site_p.S730_splice|RASA1_uc011ctw.1_Splice_Site_p.S731_splice|RASA1_uc010jaw.2_Splice_Site_p.S719_splice	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1						cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		CCTCCCATTCAGTGGTTTTGT	0.294													31	37	---	---	---	---	PASS	G	86679528	G	G	86679528	5	3	119	1	0	0	0	0	0	0	1	0	13060	202	7	5	2783	5	RASA1	5	86679528	Splice_Site	SNP	A	TCGA-60-2698-01A-01D-1522-08	3246392	86679528	94235732	421	43594										
GPR98	84059	broad.mit.edu	37	chr5	89930986	89930986	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aatcccacccataagccctaGatttggggaaatctgcaata	7	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:89930986G>T	uc003kju.2	+	10	1991	c.1895G>T	c.(1894-1896)AGA>ATA	p.R632I	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	632	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		ATAAGCCCTAGATTTGGGGAA	0.343													5	134	---	---	---	---	PASS	T	89930986	T	T	89930986	3	4	119	1	0	0	0	0	1	0	0	0	6721	942	33	2	1933	2	GPR98	5	89930986	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3251458	89930986	90984274	422	43595										
GPR98	84059	broad.mit.edu	37	chr5	90149175	90149175	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtatcctcagcaaatcaatgGacacaagtttgaaggaaagg	10	7	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:90149175G>A	uc003kju.2	+	80	17375	c.17279G>A	c.(17278-17280)GGA>GAA	p.G5760E	GPR98_uc003kjt.2_Missense_Mutation_p.G3466E|GPR98_uc003kjw.2_Missense_Mutation_p.G1421E	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	5760	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CAAATCAATGGACACAAGTTT	0.408													116	102	---	---	---	---	PASS	A	90149175	A	A	90149175	3	1	119	1	0	0	0	0	1	0	0	0	6721	1174	41	2	17597	2	GPR98	5	90149175	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	218189	90149175	90766085	423	43596										
ELL2	22936	broad.mit.edu	37	chr5	95226858	95226858	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttctttgtgcatctagtttGataaatcttctagctacagt	6	7	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:95226858G>C	uc003klr.3	-	10	2060	c.1710C>G	c.(1708-1710)ATC>ATG	p.I570M		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	570					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		CATCTAGTTTGATAAATCTTC	0.403													28	438	---	---	---	---	PASS	C	95226858	C	C	95226858	3	2	119	1	0	0	0	0	1	0	0	0	5063	1280	45	2	224	2	ELL2	5	95226858	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5077683	95226858	85688402	424	43597										
ST8SIA4	7903	broad.mit.edu	37	chr5	100147594	100147594	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgtcagttttagagctcctCtattatgtagcacatttaat	6	7	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:100147594C>G	uc003knk.2	-	5	1365	c.1037G>C	c.(1036-1038)AGA>ACA	p.R346T		NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	346	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		TAGAGCTCCTCTATTATGTAG	0.318													10	99	---	---	---	---	PASS	G	100147594	G	G	100147594	3	3	119	1	0	0	0	0	1	0	0	0	15233	913	32	2	46	2	ST8SIA4	5	100147594	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4920736	100147594	80767666	425	43598										
PPIP5K2	23262	broad.mit.edu	37	chr5	102465360	102465360	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taaatcctggaaattatcgaCatttcttccaccatgcagat	5	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:102465360C>T	uc003kod.3	+	2	586	c.67C>T	c.(67-69)CAT>TAT	p.H23Y	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.H23Y|PPIP5K2_uc010jbo.1_Intron	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	23					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						AAATTATCGACATTTCTTCCA	0.363													9	72	---	---	---	---	PASS	T	102465360	T	T	102465360	3	4	119	1	0	0	0	0	1	0	0	0	12333	478	17	3	69	3	PPIP5K2	5	102465360	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2317766	102465360	78449900	426	43599										
PPIP5K2	23262	broad.mit.edu	37	chr5	102522026	102522026	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctaactcccatcagggtctCactgtgcgggcctgtttagc	10	13	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:102522026C>T	uc003kod.3	+	27	3694	c.3175C>T	c.(3175-3177)CAC>TAC	p.H1059Y	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.H1059Y|PPIP5K2_uc003kof.2_Intron	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	1059					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						ATCAGGGTCTCACTGTGCGGG	0.478													5	70	---	---	---	---	PASS	T	102522026	T	T	102522026	3	4	119	1	0	0	0	0	1	0	0	0	12333	826	29	2	3277	2	PPIP5K2	5	102522026	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	56666	102522026	78393234	427	43600										
APC	324	broad.mit.edu	37	chr5	112178500	112178500	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcctccaaaggactaaatcaGatgaataatggtaatggagc	10	7	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:112178500G>C	uc010jby.2	+	16	7589	c.7209G>C	c.(7207-7209)CAG>CAC	p.Q2403H	APC_uc011cvt.1_Missense_Mutation_p.Q2385H|APC_uc003kpz.3_Missense_Mutation_p.Q2403H|APC_uc003kpy.3_Missense_Mutation_p.Q2403H|APC_uc010jbz.2_Missense_Mutation_p.Q2120H|APC_uc010jca.2_Missense_Mutation_p.Q1703H	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	2403	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		GACTAAATCAGATGAATAATG	0.378		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			14	116	---	---	---	---	PASS	C	112178500	C	C	112178500	3	2	119	1	0	0	0	0	1	0	0	0	763	933	33	2	7267	2	APC	5	112178500	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	9656474	112178500	68736760	428	43601										
MCC	4163	broad.mit.edu	37	chr5	112720775	112720775	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttcctccttcctaatttctCgaacaagctgcatgcggcat	6	14	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:112720775C>G	uc003kql.3	-	2	721	c.305G>C	c.(304-306)CGA>CCA	p.R102P	MCC_uc003kqk.3_RNA	NM_001085377	NP_001078846	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 1	Error:Variant_position_missing_in_P23508_after_alignment					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		CCTAATTTCTCGAACAAGCTG	0.463													46	232	---	---	---	---	PASS	G	112720775	G	G	112720775	3	3	119	1	0	0	0	0	1	0	0	0	9373	884	31	2	2887	2	MCC	5	112720775	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	542275	112720775	68194485	429	43602										
CCDC112	153733	broad.mit.edu	37	chr5	114611184	114611184	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtctacaggaactttgcttGagattgctctgaaagctttc	9	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:114611184G>A	uc003kqy.2	-	6	911	c.398C>T	c.(397-399)TCA>TTA	p.S133L	CCDC112_uc003kqz.2_Missense_Mutation_p.S216L|CCDC112_uc003kra.2_Missense_Mutation_p.S216L	NM_152549	NP_689762	Q8NEF3	CC112_HUMAN	coiled-coil domain containing 112 isoform 2	133											0		all_cancers(142;0.000523)|all_epithelial(76;6.44e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;4.09e-08)|Epithelial(69;5.28e-08)|all cancers(49;7.06e-06)		AACTTTGCTTGAGATTGCTCT	0.403													50	255	---	---	---	---	PASS	A	114611184	A	A	114611184	3	1	119	1	0	0	0	0	1	0	0	0	2749	1294	45	2	962	2	CCDC112	5	114611184	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1890409	114611184	66304076	430	43603										
DMXL1	1657	broad.mit.edu	37	chr5	118485784	118485784	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agatgatgatagctgttactCatctttggagaaatctagta	9	5	3	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:118485784C>G	uc003ksd.2	+	18	4443	c.4262C>G	c.(4261-4263)TCA>TGA	p.S1421*	DMXL1_uc010jcl.1_Nonsense_Mutation_p.S1421*	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1421										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		AGCTGTTACTCATCTTTGGAG	0.343													44	186	---	---	---	---	PASS	G	118485784	G	G	118485784	4	3	119	1	0	0	0	0	0	1	0	0	4594	838	29	2	4332	2	DMXL1	5	118485784	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3874600	118485784	62429476	431	43604										
DMXL1	1657	broad.mit.edu	37	chr5	118503367	118503367	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gactctatgagtctgaatttGatacatctgcagcatataaa	7	7	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:118503367G>C	uc003ksd.2	+	23	5387	c.5206G>C	c.(5206-5208)GAT>CAT	p.D1736H	DMXL1_uc010jcl.1_Missense_Mutation_p.D1736H	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1736										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		GTCTGAATTTGATACATCTGC	0.299													24	76	---	---	---	---	PASS	C	118503367	C	C	118503367	3	2	119	1	0	0	0	0	1	0	0	0	4594	1290	45	2	5296	2	DMXL1	5	118503367	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	17583	118503367	62411893	432	43605										
PHAX	51808	broad.mit.edu	37	chr5	125952978	125952978	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaacaccaggtggagtttttCtgaatctcttgaaaaacact	8	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:125952978C>G	uc003kua.1	+	4	890	c.868C>G	c.(868-870)CTG>GTG	p.L290V		NM_032177	NP_115553	Q9H814	PHAX_HUMAN	RNA U, small nuclear RNA export adaptor	290	Necessary for interaction with CBP80 (By similarity).|Sufficient for poly U RNA-binding.				ncRNA metabolic process|protein transport|snRNA export from nucleus|spliceosomal snRNP assembly	Cajal body|cytosol	RNA binding				0						TGGAGTTTTTCTGAATCTCTT	0.378													34	87	---	---	---	---	PASS	G	125952978	G	G	125952978	3	3	119	1	0	0	0	0	1	0	0	0	11813	912	32	2	882	2	PHAX	5	125952978	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	7449611	125952978	54962282	433	43606										
SLC12A2	6558	broad.mit.edu	37	chr5	127469886	127469886	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atacttatgatagatgaaatCaatgatatccgaattattgg	7	4	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:127469886C>G	uc003kus.2	+	6	1382	c.1218C>G	c.(1216-1218)ATC>ATG	p.I406M	SLC12A2_uc010jdf.2_RNA|SLC12A2_uc010jdg.2_Missense_Mutation_p.I406M	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12	406	Extracellular (Potential).				potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	TAGATGAAATCAATGATATCC	0.318													57	187	---	---	---	---	PASS	G	127469886	G	G	127469886	3	3	119	1	0	0	0	0	1	0	0	0	14383	816	29	2	1240	2	SLC12A2	5	127469886	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1516908	127469886	53445374	434	43607										
CATSPER3	347732	broad.mit.edu	37	chr5	134345085	134345085	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccatcagaaagtttgagcgaGagctgatgttggagcagcag	14	7	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:134345085G>A	uc003lag.2	+	6	909	c.841G>A	c.(841-843)GAG>AAG	p.E281K		NM_178019	NP_821138	Q86XQ3	CTSR3_HUMAN	cation channel, sperm associated 3	281					cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GTTTGAGCGAGAGCTGATGTT	0.547													45	109	---	---	---	---	PASS	A	134345085	A	A	134345085	3	1	119	1	0	0	0	0	1	0	0	0	2689	943	33	2	863	2	CATSPER3	5	134345085	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6875199	134345085	46570175	435	43608										
HSPA9	3313	broad.mit.edu	37	chr5	137906704	137906704	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccaatgagacgcttggtagCataaaatgtattgtttgggt	12	5	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:137906704C>T	uc003ldf.2	-	4	463	c.355G>A	c.(355-357)GCT>ACT	p.A119T	HSPA9_uc011cyw.1_Missense_Mutation_p.A50T	NM_004134	NP_004125	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 precursor	119					anti-apoptosis|protein folding	cell surface|mitochondrial nucleoid	ATP binding|unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CGCTTGGTAGCATAAAATGTA	0.458													19	228	---	---	---	---	PASS	T	137906704	T	T	137906704	3	4	119	1	0	0	0	0	1	0	0	0	7417	710	25	3	1740	3	HSPA9	5	137906704	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3561619	137906704	43008556	436	43609										
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139909089	139909089	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcttcagctgtgaacattatGaatggttctcagatgcacat	8	8	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:139909089G>C	uc003lfs.1	+	29	6682	c.6558G>C	c.(6556-6558)ATG>ATC	p.M2186I	ANKHD1_uc003lfr.2_Missense_Mutation_p.M2186I|ANKHD1-EIF4EBP3_uc011czh.1_Missense_Mutation_p.M925I|ANKHD1_uc003lfw.2_Missense_Mutation_p.M824I|ANKHD1_uc010jfl.2_Missense_Mutation_p.M621I|ANKHD1-EIF4EBP3_uc003lfx.1_Missense_Mutation_p.M323I	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	2186						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAACATTATGAATGGTTCTC	0.438													7	263	---	---	---	---	PASS	C	139909089	C	C	139909089	3	2	119	1	0	0	0	0	1	0	0	0	629	1290	45	2	6672	2	ANKHD1-EIF4EBP3	5	139909089	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2002385	139909089	41006171	437	43610										
PCDHA12	56137	broad.mit.edu	37	chr5	140256033	140256033	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggttaacgccattgataaaGggattccttccatggcaggt	11	8	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:140256033G>C	uc003lic.2	+	1	1103	c.976G>C	c.(976-978)GGG>CGG	p.G326R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.G326R	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	326	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CATTGATAAAGGGATTCCTTC	0.418													107	94	---	---	---	---	PASS	C	140256033	C	C	140256033	3	2	119	1	0	0	0	0	1	0	0	0	11522	1000	35	4	978	4	PCDHA12	5	140256033	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	346944	140256033	40659227	438	43611										
PCDHB3	56132	broad.mit.edu	37	chr5	140482129	140482129	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	accgccaggctgctgagcgaGcgcgacgcggccaagcacag	15	15	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:140482129G>A	uc003lio.2	+	1	1896	c.1896G>A	c.(1894-1896)GAG>GAA	p.E632E	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	632	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGCTGAGCGAGCGCGACGCGG	0.697													55	60	---	---	---	---	PASS	A	140482129	A	A	140482129	2	1	119	1	0	0	0	0	0	0	0	1	11543	962	34	3		3	PCDHB3	5	140482129	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	226096	140482129	40433131	439	43612										
PCDHB12	56124	broad.mit.edu	37	chr5	140589877	140589877	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtccgcgagaacaacagcccCgccctgcacatcggcagcat	10	17	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:140589877C>A	uc003liz.2	+	1	1587	c.1398C>A	c.(1396-1398)CCC>CCA	p.P466P	PCDHB12_uc011dak.1_Silent_p.P129P	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	466	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACAACAGCCCCGCCCTGCACA	0.642													66	63	---	---	---	---	PASS	A	140589877	A	A	140589877	2	1	119	1	0	0	0	0	0	0	0	1	11537	639	23	1		1	PCDHB12	5	140589877	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	107748	140589877	40325383	440	43613										
PCDHGA4	56111	broad.mit.edu	37	chr5	140735937	140735937	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgttctattccagataatctGccattcacacttgaaaagac	5	10	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:140735937G>T	uc003ljq.1	+	1	1170	c.1170G>T	c.(1168-1170)CTG>CTT	p.L390L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Silent_p.L390L	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	390	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			cagataatctgccattcacac	0.313													5	5	---	---	---	---	PASS	T	140735937	T	T	140735937	2	4	119	1	0	0	0	0	0	0	0	1	11556	1306	46	3		3	PCDHGA4	5	140735937	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	146060	140735937	40179323	441	43614										
PCDHGA8	9708	broad.mit.edu	37	chr5	140774445	140774445	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcgacccgaacgattcgagcCttacactctatctcgtggtg	9	13	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:140774445C>T	uc003lkd.1	+	1	2963	c.2065C>T	c.(2065-2067)CTT>TTT	p.L689F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.L689F	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	689	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGATTCGAGCCTTACACTCTA	0.612													12	28	---	---	---	---	PASS	T	140774445	T	T	140774445	3	4	119	1	0	0	0	0	1	0	0	0	11560	681	24	3	2067	3	PCDHGA8	5	140774445	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	38508	140774445	40140815	442	43615										
PCDHGB7	56099	broad.mit.edu	37	chr5	140798363	140798363	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctttggattttgaagaagtaGaaagatatacgataaacata	8	3	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:140798363G>C	uc003lkn.1	+	1	1082	c.937G>C	c.(937-939)GAA>CAA	p.E313Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.E313Q|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	313	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAAGAAGTAGAAAGATATAC	0.413													13	40	---	---	---	---	PASS	C	140798363	C	C	140798363	3	2	119	1	0	0	0	0	1	0	0	0	11568	943	33	2	939	2	PCDHGB7	5	140798363	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	23918	140798363	40116897	443	43616										
PCDHGB7	56099	broad.mit.edu	37	chr5	140799720	140799720	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggatcaaatgaatccagaatTtaattttttcacatctgttg	6	6	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:140799720T>G	uc003lkn.1	+	1	2439	c.2294T>G	c.(2293-2295)TTT>TGT	p.F765C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.F765C|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	765	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATCCAGAATTTAATTTTTTC	0.453													65	56	---	---	---	---	PASS	G	140799720	G	G	140799720	3	3	119	1	0	0	0	0	1	0	0	0	11568	1841	64	5	2296	5	PCDHGB7	5	140799720	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	1357	140799720	40115540	444	43617										
PCDHGA11	56105	broad.mit.edu	37	chr5	140801496	140801496	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cccattcgtgtggtggtcctCgatgtaaatgatcacatccc	9	12	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:140801496C>T	uc003lkq.1	+	1	960	c.702C>T	c.(700-702)CTC>CTT	p.L234L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Silent_p.L234L|PCDHGA11_uc003lkp.1_Silent_p.L234L	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	234	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTGGTCCTCGATGTAAATG	0.517													64	140	---	---	---	---	PASS	T	140801496	T	T	140801496	2	4	119	1	0	0	0	0	0	0	0	1	11552	871	31	2		2	PCDHGA11	5	140801496	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1776	140801496	40113764	445	43618										
DPYSL3	1809	broad.mit.edu	37	chr5	146773613	146773613	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttgcttaactcagagatgtGatattagaacggccgcctgg	11	9	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:146773613G>C	uc003lon.1	-	14	1808	c.1698C>G	c.(1696-1698)ATC>ATG	p.I566M	DPYSL3_uc003loo.2_Missense_Mutation_p.I680M	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	566					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAGAGATGTGATATTAGAAC	0.507													20	138	---	---	---	---	PASS	C	146773613	C	C	146773613	3	2	119	1	0	0	0	0	1	0	0	0	4748	1280	45	2	18	2	DPYSL3	5	146773613	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5972117	146773613	34141647	446	43619										
TNIP1	10318	broad.mit.edu	37	chr5	150416412	150416412	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccttaggagggcccctgctCcttctgggctcccaaatgct	10	15	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:150416412C>A	uc003ltf.2	-	13	1923	c.1334G>T	c.(1333-1335)GGA>GTA	p.G445V	TNIP1_uc011dcn.1_5'Flank|TNIP1_uc010jhl.2_RNA|TNIP1_uc010jhm.2_Missense_Mutation_p.G445V|TNIP1_uc010jhn.2_Missense_Mutation_p.G445V|TNIP1_uc011dco.1_Missense_Mutation_p.G445V|TNIP1_uc003lth.2_RNA|TNIP1_uc003lti.2_Missense_Mutation_p.G445V|TNIP1_uc003ltg.2_Missense_Mutation_p.G392V|TNIP1_uc003ltj.2_Missense_Mutation_p.G445V|TNIP1_uc010jho.1_RNA|TNIP1_uc010jhq.1_Missense_Mutation_p.G392V|TNIP1_uc010jhp.1_Missense_Mutation_p.G392V|TNIP1_uc010jhr.1_Missense_Mutation_p.G445V|TNIP1_uc003ltk.2_Missense_Mutation_p.G445V	NM_006058	NP_006049	Q15025	TNIP1_HUMAN	TNFAIP3 interacting protein 1	445	Potential.				defense response|glycoprotein biosynthetic process|negative regulation of viral genome replication|translation	cytoplasm|nucleus	protein binding			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.0911)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGCCCCTGCTCCTTCTGGGCT	0.572													30	112	---	---	---	---	PASS	A	150416412	A	A	150416412	3	1	119	1	0	0	0	0	1	0	0	0	16311	855	30	2	600	2	TNIP1	5	150416412	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3642799	150416412	30498848	447	43620										
FAT2	2196	broad.mit.edu	37	chr5	150925111	150925111	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcacatctctgacatgaatGatgacttgggcaggtctggg	12	8	3	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:150925111G>A	uc003lue.3	-	9	5590	c.5577C>T	c.(5575-5577)ATC>ATT	p.I1859I	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1859	Extracellular (Potential).|Cadherin 16.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGACATGAATGATGACTTGGG	0.468													55	137	---	---	---	---	PASS	A	150925111	A	A	150925111	2	1	119	1	0	0	0	0	0	0	0	1	5690	1280	45	2		2	FAT2	5	150925111	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	508699	150925111	29990149	448	43621										
FAM114A2	10827	broad.mit.edu	37	chr5	153372613	153372613	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttctcaatgagagagatctCtagcacaggtaagagtagct	11	7	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:153372613C>G	uc003lvb.2	-	14	2029	c.1441G>C	c.(1441-1443)GAG>CAG	p.E481Q	FAM114A2_uc003lvc.2_Missense_Mutation_p.E481Q|FAM114A2_uc003lvd.2_Missense_Mutation_p.E481Q|FAM114A2_uc003lve.2_Missense_Mutation_p.E297Q|FAM114A2_uc011dda.1_Missense_Mutation_p.E411Q	NM_018691	NP_061161	Q9NRY5	F1142_HUMAN	hypothetical protein LOC10827	481							purine nucleotide binding				0						AGAGAGATCTCTAGCACAGGT	0.418													47	152	---	---	---	---	PASS	G	153372613	G	G	153372613	3	3	119	1	0	0	0	0	1	0	0	0	5404	922	32	2	80	2	FAM114A2	5	153372613	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2447502	153372613	27542647	449	43622										
C5orf4	10826	broad.mit.edu	37	chr5	154199911	154199911	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggggagtctgggatgctctCagagagcggggtgaagccca	18	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:154199911C>A	uc003lvs.3	-	9	1138	c.967G>T	c.(967-969)GAG>TAG	p.E323*	C5orf4_uc003lvq.2_5'Flank|C5orf4_uc003lvr.2_Silent_p.L62L|C5orf4_uc011dde.1_Nonsense_Mutation_p.E300*	NM_032385	NP_115761	Q96IV6	CE004_HUMAN	hypothetical protein LOC10826	323					fatty acid biosynthetic process	integral to membrane	iron ion binding|oxidoreductase activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			GGGATGCTCTCAGAGAGCGGG	0.582													6	47	---	---	---	---	PASS	A	154199911	A	A	154199911	4	1	119	1	0	0	0	0	0	1	0	0	2298	835	29	2	38	2	C5orf4	5	154199911	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	827298	154199911	26715349	450	43623										
KIF4B	285643	broad.mit.edu	37	chr5	154393886	154393886	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggatcttctatgcccatctcGtgagaaagctcaaataaata	7	9	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:154393886G>T	uc010jih.1	+	1	627	c.467G>T	c.(466-468)CGT>CTT	p.R156L		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	156	Kinesin-motor.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TGCCCATCTCGTGAGAAAGCT	0.358													200	183	---	---	---	---	PASS	T	154393886	T	T	154393886	3	4	119	1	0	0	0	0	1	0	0	0	8304	1145	40	1	469	1	KIF4B	5	154393886	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	193975	154393886	26521374	451	43624										
CYFIP2	26999	broad.mit.edu	37	chr5	156747723	156747723	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggagggcgagagccccctaaTgacccatgcttgagagggga	16	10	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:156747723T>A	uc003lwq.2	+	17	1722	c.1584T>A	c.(1582-1584)AAT>AAA	p.N528K	CYFIP2_uc011ddn.1_Missense_Mutation_p.N502K|CYFIP2_uc011ddo.1_Missense_Mutation_p.N332K|CYFIP2_uc003lwr.2_Missense_Mutation_p.N528K|CYFIP2_uc003lws.2_Missense_Mutation_p.N528K|CYFIP2_uc003lwt.2_Missense_Mutation_p.N406K|CYFIP2_uc011ddp.1_Missense_Mutation_p.N262K	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	528					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)			AGCCCCCTAATGACCCATGCT	0.567													31	46	---	---	---	---	PASS	A	156747723	A	A	156747723	3	1	119	1	0	0	0	0	1	0	0	0	4138	1461	51	5	1638	5	CYFIP2	5	156747723	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	2353837	156747723	24167537	452	43625										
THG1L	54974	broad.mit.edu	37	chr5	157159883	157159883	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcccctgtgaaggtttgctGagaagcacaactttgcaaaa	9	9	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:157159883G>A	uc003lxd.2	+	2	325	c.199G>A	c.(199-201)GAG>AAG	p.E67K	THG1L_uc011ddu.1_5'UTR	NM_017872	NP_060342	Q9NWX6	THG1_HUMAN	interphase cytoplasmic foci protein 45	67					protein homotetramerization|tRNA modification	mitochondrion	GTP binding|metal ion binding|tRNA guanylyltransferase activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AAGGTTTGCTGAGAAGCACAA	0.473													26	109	---	---	---	---	PASS	A	157159883	A	A	157159883	3	1	119	1	0	0	0	0	1	0	0	0	15858	1291	45	2	205	2	THG1L	5	157159883	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	412160	157159883	23755377	453	43626										
GABRA1	2554	broad.mit.edu	37	chr5	161300180	161300180	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggatgaaaggttaaaatttAaaggacctatgacagtcctc	9	6	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:161300180A>T	uc010jiw.2	+	6	781	c.313A>T	c.(313-315)AAA>TAA	p.K105*	GABRA1_uc010jix.2_Nonsense_Mutation_p.K105*|GABRA1_uc010jiy.2_Nonsense_Mutation_p.K105*|GABRA1_uc003lyx.3_Nonsense_Mutation_p.K105*|GABRA1_uc010jiz.2_Nonsense_Mutation_p.K105*|GABRA1_uc010jja.2_Nonsense_Mutation_p.K105*|GABRA1_uc010jjb.2_Nonsense_Mutation_p.K105*	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	105	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|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			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	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;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	GTTAAAATTTAAAGGACCTAT	0.383													52	220	---	---	---	---	PASS	T	161300180	T	T	161300180	4	4	119	1	0	0	0	0	0	1	0	0	6160	363	13	5	327	5	GABRA1	5	161300180	Nonsense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	4140297	161300180	19615080	454	43627										
COL23A1	91522	broad.mit.edu	37	chr5	177733903	177733903	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcctcttctcccaggcttgcCgcgccgtccagggggcccta	12	18	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:177733903C>T	uc003mje.2	-	3	737	c.379G>A	c.(379-381)GGC>AGC	p.G127S		NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	127	Extracellular (Potential).|Collagen-like 1.|Gly-rich.					collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	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)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		CCAGGCTTGCCGCGCCGTCCA	0.617													3	25	---	---	---	---	PASS	T	177733903	T	T	177733903	3	4	119	1	0	0	0	0	1	0	0	0	3682	652	23	1	1351	1	COL23A1	5	177733903	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	16433723	177733903	3181357	455	43628										
GRM6	2916	broad.mit.edu	37	chr5	178416114	178416114	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccctcctgctcgtaggtggaGtcccggccgatgcgttcctc	12	16	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:178416114G>A	uc003mjr.2	-	6	1355	c.1176C>T	c.(1174-1176)GAC>GAT	p.D392D	GRM6_uc010jla.1_Intron|GRM6_uc003mjs.1_Silent_p.D12D	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	392	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		CGTAGGTGGAGTCCCGGCCGA	0.617													15	19	---	---	---	---	PASS	A	178416114	A	A	178416114	2	1	119	1	0	0	0	0	0	0	0	1	6801	1020	36	3		3	GRM6	5	178416114	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	682211	178416114	2499146	456	43629										
ZNF354C	30832	broad.mit.edu	37	chr5	178505850	178505850	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagatagaagaagagcaagaGaagaaacctcttagacaaat	10	5	1	7			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:178505850G>C	uc003mju.2	+	5	532	c.417G>C	c.(415-417)GAG>GAC	p.E139D		NM_014594	NP_055409	Q86Y25	Z354C_HUMAN	zinc finger protein 354C	139					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(89;0.00065)|all_epithelial(37;0.000153)|Renal(175;0.000159)|Lung NSC(126;0.00175)|all_lung(126;0.00309)	all_cancers(40;0.19)|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;0.247)		AAGAGCAAGAGAAGAAACCTC	0.378													7	213	---	---	---	---	PASS	C	178505850	C	C	178505850	3	2	119	1	0	0	0	0	1	0	0	0	17863	933	33	2	431	2	ZNF354C	5	178505850	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	89736	178505850	2409410	457	43630										
ADAMTS2	9509	broad.mit.edu	37	chr5	178562931	178562931	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgcagtccccgcgcacacaGaggctgaaggcgtccttgta	12	14	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr5:178562931G>C	uc003mjw.2	-	13	2064	c.2064C>G	c.(2062-2064)CTC>CTG	p.L688L		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	688	Cys-rich.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CGCGCACACAGAGGCTGAAGG	0.527													32	93	---	---	---	---	PASS	C	178562931	C	C	178562931	2	2	119	1	0	0	0	0	0	0	0	1	265	929	33	2		2	ADAMTS2	5	178562931	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	57081	178562931	2352329	458	43631										
RREB1	6239	broad.mit.edu	37	chr6	7247378	7247378	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccagcaaggcagacaagagGaagaaggtctgcagcgtgtg	16	8	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:7247378G>T	uc003mxc.2	+	11	4920	c.4530G>T	c.(4528-4530)AGG>AGT	p.R1510S	RREB1_uc003mxb.2_Missense_Mutation_p.R1565S|RREB1_uc010jnx.2_Intron	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1510					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				CAGACAAGAGGAAGAAGGTCT	0.607													19	25	---	---	---	---	PASS	T	7247378	T	T	7247378	3	4	119	1	0	0	0	0	1	0	0	0	13679	1165	41	2	4729	2	RREB1	6	7247378	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08		7247378	163867689	459	43632										
RANBP9	10048	broad.mit.edu	37	chr6	13625971	13625971	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgggctgttccagggatctGaatatgctagtagactgaat	12	7	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:13625971G>A	uc003nbb.2	-	13	2032	c.1973C>T	c.(1972-1974)TCA>TTA	p.S658L	RANBP9_uc003nba.2_Missense_Mutation_p.S317L	NM_005493	NP_005484	Q96S59	RANB9_HUMAN	RAN binding protein 9	658	Interaction with FMR1.				axon guidance|microtubule nucleation|protein complex assembly	cytosol|microtubule associated complex|nucleus	Ran GTPase binding			lung(1)|skin(1)	2	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)			CCAGGGATCTGAATATGCTAG	0.393													18	287	---	---	---	---	PASS	A	13625971	A	A	13625971	3	1	119	1	0	0	0	0	1	0	0	0	13032	1294	45	2	224	2	RANBP9	6	13625971	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6378593	13625971	157489096	460	43633										
DTNBP1	84062	broad.mit.edu	37	chr6	15627678	15627678	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttttcttctcccagtgcgcaGaaagcatgaccacctcgcta	7	14	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:15627678G>C	uc003nbm.2	-	5	422	c.251C>G	c.(250-252)TCT>TGT	p.S84C	DTNBP1_uc003nbl.2_Missense_Mutation_p.S3C|DTNBP1_uc003nbn.2_RNA|DTNBP1_uc003nbo.2_RNA|DTNBP1_uc003nbp.2_Missense_Mutation_p.S84C|DTNBP1_uc010jph.2_Missense_Mutation_p.S71C	NM_032122	NP_115498	Q96EV8	DTBP1_HUMAN	dystrobrevin binding protein 1 isoform a	84					actin cytoskeleton reorganization|cellular membrane organization|neuron projection morphogenesis|post-Golgi vesicle-mediated transport|regulation of dopamine receptor signaling pathway	axon part|BLOC-1 complex|cell junction|dendritic spine|endoplasmic reticulum membrane|endosome membrane|growth cone|melanosome membrane|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|synaptic vesicle membrane|synaptosome	identical protein binding				0	Breast(50;0.0289)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.211)			CCAGTGCGCAGAAAGCATGAC	0.488									Hermansky-Pudlak_syndrome				31	38	---	---	---	---	PASS	C	15627678	C	C	15627678	3	2	119	1	0	0	0	0	1	0	0	0	4790	942	33	2	929	2	DTNBP1	6	15627678	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2001707	15627678	155487389	461	43634										
SLC17A1	6568	broad.mit.edu	37	chr6	25811766	25811766	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acaccaaagattgcaggaagGagaaatcctggggagtgatt	13	6	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:25811766G>C	uc003nfh.3	-	10	1154	c.1038C>G	c.(1036-1038)CTC>CTG	p.L346L	SLC17A1_uc011djy.1_RNA|SLC17A1_uc010jqb.1_Silent_p.L344L|SLC17A1_uc010jqc.1_Silent_p.L290L	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),	346	Helical; (Potential).				sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						TTGCAGGAAGGAGAAATCCTG	0.463													22	108	---	---	---	---	PASS	C	25811766	C	C	25811766	2	2	119	1	0	0	0	0	0	0	0	1	14416	1161	41	2		2	SLC17A1	6	25811766	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	10184088	25811766	145303301	462	43635										
HIST1H4B	8366	broad.mit.edu	37	chr6	26027306	26027306	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttctccagaaacaccttgaGaacgccacgagtctcctcat	7	14	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:26027306G>A	uc003nfr.2	-	1	175	c.175C>T	c.(175-177)CTC>TTC	p.L59F		NM_003544	NP_003535	P62805	H4_HUMAN	histone cluster 1, H4b	59					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						AACACCTTGAGAACGCCACGA	0.552											OREG0017238	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	89	---	---	---	---	PASS	A	26027306	A	A	26027306	3	1	119	1	0	0	0	0	1	0	0	0	7166	942	33	2	140	2	HIST1H4B	6	26027306	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	215540	26027306	145087761	463	43636										
HIST1H2AE	3012	broad.mit.edu	37	chr6	26217427	26217427	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacgcggctcgcgacaataaGaagacccgcatcatcccgcg	10	15	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:26217427G>C	uc003nha.1	+	1	280	c.225G>C	c.(223-225)AAG>AAC	p.K75N	HIST1H2BG_uc003ngz.2_5'Flank	NM_021052	NP_066390	P04908	H2A1B_HUMAN	histone cluster 1, H2ae	75					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2		all_hematologic(11;0.196)				GCGACAATAAGAAGACCCGCA	0.617													5	67	---	---	---	---	PASS	C	26217427	C	C	26217427	3	2	119	1	0	0	0	0	1	0	0	0	7132	933	33	2	227	2	HIST1H2AE	6	26217427	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	190121	26217427	144897640	464	43637										
HIST1H3F	8968	broad.mit.edu	37	chr6	26250597	26250597	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggaagcgcaggtcggtcttGaagtcctgcgcgatctcacg	14	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:26250597G>C	uc003nhg.1	-	1	239	c.237C>G	c.(235-237)TTC>TTG	p.F79L	HIST1H2BH_uc003nhh.2_5'Flank	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	79					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0						GGTCGGTCTTGAAGTCCTGCG	0.587											OREG0017241	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	70	99	---	---	---	---	PASS	C	26250597	C	C	26250597	3	2	119	1	0	0	0	0	1	0	0	0	7160	1281	45	2	177	2	HIST1H3F	6	26250597	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	33170	26250597	144864470	465	43638										
BTN3A2	11118	broad.mit.edu	37	chr6	26370746	26370746	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtagcagcatctgtgatcatGagaggcggctccggggaggg	18	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:26370746G>A	uc010jqh.1	+	5	889	c.630G>A	c.(628-630)ATG>ATA	p.M210I	BTN3A2_uc003nho.1_Missense_Mutation_p.M208I|BTN3A2_uc003nhp.2_Missense_Mutation_p.M210I|BTN3A2_uc011dkd.1_Missense_Mutation_p.M168I|BTN3A2_uc011dke.1_Missense_Mutation_p.M187I|BTN3A2_uc010jqi.1_Missense_Mutation_p.M208I	NM_007047	NP_008978	P78410	BT3A2_HUMAN	butyrophilin, subfamily 3, member A2 precursor	210	Extracellular (Potential).					integral to membrane					0						CTGTGATCATGAGAGGCGGCT	0.547													10	219	---	---	---	---	PASS	A	26370746	A	A	26370746	3	1	119	1	0	0	0	0	1	0	0	0	1563	1290	45	2	640	2	BTN3A2	6	26370746	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	120149	26370746	144744321	466	43639										
PGBD1	84547	broad.mit.edu	37	chr6	28254933	28254933	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtagtgcctgtgtttaacccAgtcaggtcccaggtaagtag	12	9	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:28254933A>T	uc003nky.2	+	4	1000	c.630A>T	c.(628-630)CCA>CCT	p.P210P	PGBD1_uc003nkz.2_Silent_p.P210P	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	210					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						TGTTTAACCCAGTCAGGTCCC	0.522													27	71	---	---	---	---	PASS	T	28254933	T	T	28254933	2	4	119	1	0	0	0	0	0	0	0	1	11780	175	7	5		5	PGBD1	6	28254933	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	1884187	28254933	142860134	467	43640										
HLA-A	3105	broad.mit.edu	37	chr6	29912276	29912276	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caccttcccctcttttcccaGagctgtcttcccagcccacc	4	21	2	1	rs45540334		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:29912276G>C	uc003nol.2	+	5	896	c.896_splice	c.e5-1	p.E299_splice	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_5'Flank|HLA-A_uc010jrq.2_Splice_Site_p.E178_splice|HLA-A_uc003nok.2_Splice_Site_p.E178_splice|HLA-A_uc003non.2_Splice_Site_p.E299_splice|HLA-A_uc003noo.2_Splice_Site_p.E299_splice|HLA-A_uc010jrr.2_Intron|HLA-A_uc003nom.2_Splice_Site_p.E178_splice|HLA-A_uc010klp.2_Intron|HLA-A_uc011dmc.1_Splice_Site_p.E178_splice|HLA-A_uc011dmd.1_Splice_Site_p.E178_splice	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A						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						TCTTTTCCCAGAGCTGTCTTC	0.587									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)			18	53	---	---	---	---	PASS	C	29912276	C	C	29912276	5	2	119	1	0	0	0	0	0	0	1	0	7195	956	33	2	913	2	HLA-A	6	29912276	Splice_Site	SNP	G	TCGA-60-2698-01A-01D-1522-08	1657343	29912276	141202791	468	43641										
NFKBIL1	4795	broad.mit.edu	37	chr6	31525984	31525984	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggagcagcggctcttcaggGagcgagcccgggccaaggag	18	11	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:31525984G>A	uc003nub.2	+	4	861	c.742G>A	c.(742-744)GAG>AAG	p.E248K	NFKBIL1_uc011dnr.1_Missense_Mutation_p.E210K|NFKBIL1_uc011dns.1_Missense_Mutation_p.E225K|NFKBIL1_uc011dnt.1_RNA|NFKBIL1_uc003nuc.2_Missense_Mutation_p.E233K	NM_005007	NP_004998	Q9UBC1	IKBL1_HUMAN	nuclear factor of kappa light polypeptide gene	248					cytoplasmic sequestering of transcription factor		protein binding				0						GCTCTTCAGGGAGCGAGCCCG	0.697													5	7	---	---	---	---	PASS	A	31525984	A	A	31525984	3	1	119	1	0	0	0	0	1	0	0	0	10381	1175	41	2	756	2	NFKBIL1	6	31525984	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1613708	31525984	139589083	469	43642										
BAT4	7918	broad.mit.edu	37	chr6	31631710	31631710	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagccagcttcttcagcgagCtgagccgcatccctgccact	9	16	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:31631710C>A	uc003nvn.2	-	2	1191	c.546G>T	c.(544-546)CAG>CAT	p.Q182H	BAT4_uc003nvo.3_Missense_Mutation_p.Q182H|BAT4_uc003nvp.3_Missense_Mutation_p.Q182H|BAT4_uc003nvq.2_Missense_Mutation_p.Q182H|CSNK2B_uc010jsz.1_5'Flank|CSNK2B_uc010jta.1_5'Flank|CSNK2B_uc003nvr.1_5'Flank|CSNK2B_uc003nvs.1_5'Flank	NM_033177	NP_149417	O95872	GPAN1_HUMAN	HLA-B associated transcript 4	182						intracellular	nucleic acid binding				0						CTTCAGCGAGCTGAGCCGCAT	0.642													25	32	---	---	---	---	PASS	A	31631710	A	A	31631710	3	1	119	1	0	0	0	0	1	0	0	0	1323	796	28	3	532	3	BAT4	6	31631710	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	105726	31631710	139483357	470	43643										
DDAH2	23564	broad.mit.edu	37	chr6	31695431	31695431	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctgcgtcatctgggagggtCagggaggcatatgggtgatc	18	7	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:31695431C>G	uc003nwp.2	-	5	1261	c.630G>C	c.(628-630)CTG>CTC	p.L210L	DDAH2_uc003nwq.2_Silent_p.L210L	NM_013974	NP_039268	O95865	DDAH2_HUMAN	dimethylarginine dimethylaminohydrolase 2	210					anti-apoptosis|arginine catabolic process|citrulline metabolic process|nitric oxide biosynthetic process|nitric oxide mediated signal transduction	cytoplasm	dimethylargininase activity|protein binding				0					L-Citrulline(DB00155)	CTGGGAGGGTCAGGGAGGCAT	0.577													6	164	---	---	---	---	PASS	G	31695431	G	G	31695431	2	3	119	1	0	0	0	0	0	0	0	1	4322	813	29	2		2	DDAH2	6	31695431	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	63721	31695431	139419636	471	43644										
DDAH2	23564	broad.mit.edu	37	chr6	31696795	31696795	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgttgcctcagtttacctccCagcaccccgtgctccctttg	7	18	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:31696795C>A	uc003nwp.2	-	1	775	c.144G>T	c.(142-144)CTG>CTT	p.L48L	DDAH2_uc003nwq.2_Silent_p.L48L	NM_013974	NP_039268	O95865	DDAH2_HUMAN	dimethylarginine dimethylaminohydrolase 2	48					anti-apoptosis|arginine catabolic process|citrulline metabolic process|nitric oxide biosynthetic process|nitric oxide mediated signal transduction	cytoplasm	dimethylargininase activity|protein binding				0					L-Citrulline(DB00155)	GTTTACCTCCCAGCACCCCGT	0.652													7	91	---	---	---	---	PASS	A	31696795	A	A	31696795	2	1	119	1	0	0	0	0	0	0	0	1	4322	581	21	3		3	DDAH2	6	31696795	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1364	31696795	139418272	472	43645										
MSH5	4439	broad.mit.edu	37	chr6	31709041	31709041	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccagatgccccagaccacgaGagcctcaagcttctccagag	9	16	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:31709041G>C	uc003nwv.1	+	3	328	c.249G>C	c.(247-249)GAG>GAC	p.E83D	MSH5_uc003nwt.1_Missense_Mutation_p.E83D|MSH5_uc003nwu.1_Missense_Mutation_p.E83D|MSH5_uc003nww.1_Missense_Mutation_p.E83D|MSH5_uc003nwx.1_Missense_Mutation_p.E83D	NM_172166	NP_751898	O43196	MSH5_HUMAN	mutS homolog 5 isoform c	83					chiasma assembly|homologous chromosome segregation|meiotic prophase II|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			ovary(2)|breast(1)	3						CAGACCACGAGAGCCTCAAGC	0.433								Direct_reversal_of_damage|MMR					73	152	---	---	---	---	PASS	C	31709041	C	C	31709041	3	2	119	1	0	0	0	0	1	0	0	0	9873	933	33	2	255	2	MSH5	6	31709041	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	12246	31709041	139406026	473	43646										
NOTCH4	4855	broad.mit.edu	37	chr6	32163487	32163487	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgcctgcagaaaacctacgGccgcgaggggtcgggcctcc	14	14	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:32163487G>A	uc003obb.2	-	30	5878	c.5739C>T	c.(5737-5739)GGC>GGT	p.G1913G	GPSM3_uc003oax.3_5'Flank|GPSM3_uc003oay.3_5'Flank|GPSM3_uc003oaz.2_5'Flank|NOTCH4_uc011dpt.1_3'UTR|NOTCH4_uc003oba.2_Silent_p.G573G|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1913	Cytoplasmic (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						AAAACCTACGGCCGCGAGGGG	0.682													42	45	---	---	---	---	PASS	A	32163487	A	A	32163487	2	1	119	1	0	0	0	0	0	0	0	1	10551	1190	42	3		3	NOTCH4	6	32163487	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	454446	32163487	138951580	474	43647										
RPS18	6222	broad.mit.edu	37	chr6	33244195	33244195	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtccgaggccagcacaccaaGaccactggccgccgtggccg	13	17	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:33244195G>C	uc003odp.1	+	6	456	c.411G>C	c.(409-411)AAG>AAC	p.K137N	RPS18_uc010jum.1_RNA|RPS18_uc003odq.1_RNA|B3GALT4_uc003odr.2_5'Flank	NM_022551	NP_072045	P62269	RS18_HUMAN	ribosomal protein S18	137					endocrine pancreas development|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	rRNA binding|structural constituent of ribosome				0						AGCACACCAAGACCACTGGCC	0.493													13	12	---	---	---	---	PASS	C	33244195	C	C	33244195	3	2	119	1	0	0	0	0	1	0	0	0	13628	933	33	2	433	2	RPS18	6	33244195	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1080708	33244195	137870872	475	43648										
RGL2	5863	broad.mit.edu	37	chr6	33261388	33261388	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgaatctctcactctgtccActgcgagatgaccaatgttg	9	11	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:33261388A>G	uc003odv.2	-	14	1730	c.1597T>C	c.(1597-1599)TGG>CGG	p.W533R	RGL2_uc003odu.2_Missense_Mutation_p.W93R|RGL2_uc010jur.2_Missense_Mutation_p.W93R|RGL2_uc003odw.2_Missense_Mutation_p.W451R|RGL2_uc011drb.1_3'UTR	NM_004761	NP_004752	O15211	RGL2_HUMAN	ral guanine nucleotide dissociation	533					Ras protein signal transduction|regulation of small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity			skin(3)|lung(1)|breast(1)|pancreas(1)	6						CACTCTGTCCACTGCGAGATG	0.582													15	81	---	---	---	---	PASS	G	33261388	G	G	33261388	3	3	119	1	0	0	0	0	1	0	0	0	13277	159	6	5	756	5	RGL2	6	33261388	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	17193	33261388	137853679	476	43649										
TAPBP	6892	broad.mit.edu	37	chr6	33281611	33281611	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgaaccaacactcgatcaccGcgggtcctgctgagacggcg	12	15	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:33281611G>C	uc003odx.1	-	2	239	c.68C>G	c.(67-69)GCG>GGG	p.A23G	TAPBP_uc010jus.1_Missense_Mutation_p.A23G|TAPBP_uc003ody.2_Missense_Mutation_p.A23G|TAPBP_uc003odz.2_Missense_Mutation_p.A23G|TAPBP_uc010jut.1_Missense_Mutation_p.A23G|TAPBP_uc011drc.1_Missense_Mutation_p.A23G	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	23	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1						CTCGATCACCGCGGGTCCTGC	0.672													25	37	---	---	---	---	PASS	C	33281611	C	C	33281611	3	2	119	1	0	0	0	0	1	0	0	0	15549	1087	38	4	1486	4	TAPBP	6	33281611	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	20223	33281611	137833456	477	43650										
C6orf106	64771	broad.mit.edu	37	chr6	34574439	34574439	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcagtttggtcaggagcagGagcccatgtgtcaggagcag	15	9	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:34574439G>A	uc003ojr.2	-	4	999	c.754C>T	c.(754-756)CCT>TCT	p.P252S	C6orf106_uc003ojs.2_Missense_Mutation_p.P186S	NM_024294	NP_077270	Q9H6K1	CF106_HUMAN	chromosome 6 open reading frame 106 isoform a	252										skin(2)|ovary(1)	3						TCAGGAGCAGGAGCCCATGTG	0.483													18	137	---	---	---	---	PASS	A	34574439	A	A	34574439	3	1	119	1	0	0	0	0	1	0	0	0	2319	1174	41	2	150	2	C6orf106	6	34574439	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1292828	34574439	136540628	478	43651										
SLC26A8	116369	broad.mit.edu	37	chr6	35919038	35919038	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccttgacaaggcaaacagcaCggcgtcgtgaacgctgagga	13	11	0	3	rs115071158	by1000genomes	TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:35919038C>T	uc003olm.2	-	19	2485	c.2374G>A	c.(2374-2376)GTG>ATG	p.V792M	SLC26A8_uc010jwa.2_RNA|SLC26A8_uc003olk.2_Missense_Mutation_p.V374M|SLC26A8_uc003oln.2_Missense_Mutation_p.V792M|SLC26A8_uc003oll.2_Missense_Mutation_p.V687M	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	792	Interaction with RACGAP1.|STAS.|Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						GCAAACAGCACGGCGTCGTGA	0.488													55	65	---	---	---	---	PASS	T	35919038	T	T	35919038	3	4	119	1	0	0	0	0	1	0	0	0	14523	536	19	1	546	1	SLC26A8	6	35919038	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1344599	35919038	135196029	479	43652										
BRPF3	27154	broad.mit.edu	37	chr6	36168502	36168502	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagaagcacccccgctgcctGctgcctactaccgctacatt	7	18	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:36168502G>C	uc003olv.3	+	2	627	c.403G>C	c.(403-405)GCT>CCT	p.A135P	BRPF3_uc010jwb.2_Missense_Mutation_p.A135P|BRPF3_uc011dtj.1_RNA|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Missense_Mutation_p.A135P	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	135					histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						CCCGCTGCCTGCTGCCTACTA	0.567													63	80	---	---	---	---	PASS	C	36168502	C	C	36168502	3	2	119	1	0	0	0	0	1	0	0	0	1521	1319	46	4	405	4	BRPF3	6	36168502	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	249464	36168502	134946565	480	43653										
DNAH8	1769	broad.mit.edu	37	chr6	38840393	38840393	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agacaaccgttatcacgattCtaatgaaggcgcaaacagaa	8	9	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:38840393C>G	uc003ooe.1	+	48	7021	c.6421C>G	c.(6421-6423)CTA>GTA	p.L2141V		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TATCACGATTCTAATGAAGGC	0.458													78	120	---	---	---	---	PASS	G	38840393	G	G	38840393	3	3	119	1	0	0	0	0	1	0	0	0	4607	912	32	2	6603	2	DNAH8	6	38840393	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2671891	38840393	132274674	481	43654										
TREM2	54209	broad.mit.edu	37	chr6	41129307	41129307	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agacacctgcagggactggcCcgccacgccctggaacactg	12	16	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:41129307C>T	uc003opy.2	-	2	187	c.85G>A	c.(85-87)GGC>AGC	p.G29S	TREM2_uc003opz.2_Missense_Mutation_p.G59S|TREM2_uc010jxl.1_Missense_Mutation_p.G59S	NM_018965	NP_061838	Q9NZC2	TREM2_HUMAN	triggering receptor expressed on myeloid cells 2	29	Ig-like V-type.|Extracellular (Potential).				axon guidance|humoral immune response	extracellular region|integral to membrane|plasma membrane	receptor activity			ovary(1)	1	Ovarian(28;0.0418)|Colorectal(47;0.196)					AGGGACTGGCCCGCCACGCCC	0.517													3	33	---	---	---	---	PASS	T	41129307	T	T	41129307	3	4	119	1	0	0	0	0	1	0	0	0	16468	623	22	3	623	3	TREM2	6	41129307	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2288914	41129307	129985760	482	43655										
BYSL	705	broad.mit.edu	37	chr6	41897925	41897925	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgagaagcagacagaggttGagacagtcatgtcagaggtg	15	6	2	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:41897925G>C	uc003orl.2	+	3	823	c.487G>C	c.(487-489)GAG>CAG	p.E163Q		NM_004053	NP_004044	Q13895	BYST_HUMAN	bystin	163					cell adhesion|female pregnancy|ribosome biogenesis	cytoplasm|nucleolus					0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000473)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GACAGAGGTTGAGACAGTCAT	0.607													23	83	---	---	---	---	PASS	C	41897925	C	C	41897925	3	2	119	1	0	0	0	0	1	0	0	0	1576	1291	45	2	497	2	BYSL	6	41897925	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	768618	41897925	129217142	483	43656										
C6orf226	441150	broad.mit.edu	37	chr6	42858370	42858370	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttgggcctccgcggcagccGggacgctgtgggttcgccgt	17	14	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:42858370G>C	uc003osw.2	-	1	185	c.157C>G	c.(157-159)CGG>GGG	p.R53G		NM_001008739	NP_001008739	Q5I0X4	CF226_HUMAN	hypothetical protein LOC441150	53											0						CGCGGCAGCCGGGACGCTGTG	0.711													9	65	---	---	---	---	PASS	C	42858370	C	C	42858370	3	2	119	1	0	0	0	0	1	0	0	0	2359	1115	39	4	152	4	C6orf226	6	42858370	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	960445	42858370	128256697	484	43657										
CUL9	23113	broad.mit.edu	37	chr6	43156308	43156308	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtcctcgcagctccctggatCagcatgtggcagcggtcgtg	14	13	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:43156308C>G	uc003ouk.2	+	8	2110	c.2035C>G	c.(2035-2037)CAG>GAG	p.Q679E	CUL9_uc003ouj.1_3'UTR|CUL9_uc003oul.2_Missense_Mutation_p.Q679E|CUL9_uc010jyk.2_Translation_Start_Site|CUL9_uc003oum.1_3'UTR	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	679					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						CTCCCTGGATCAGCATGTGGC	0.567													9	74	---	---	---	---	PASS	G	43156308	G	G	43156308	3	3	119	1	0	0	0	0	1	0	0	0	4061	827	29	2	2061	2	CUL9	6	43156308	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	297938	43156308	127958759	485	43658										
TJAP1	93643	broad.mit.edu	37	chr6	43472568	43472568	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagaggccgccagcccaggtCctgctcccagcctagcccca	10	19	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:43472568C>G	uc003ovd.2	+	11	1025	c.649C>G	c.(649-651)CCT>GCT	p.P217A	TJAP1_uc003ovf.2_Missense_Mutation_p.P207A|TJAP1_uc003ove.2_Missense_Mutation_p.P207A|TJAP1_uc003ovc.2_Missense_Mutation_p.P207A|TJAP1_uc010jyp.2_Missense_Mutation_p.P176A|TJAP1_uc011dvh.1_Missense_Mutation_p.P207A|TJAP1_uc003ovg.2_Missense_Mutation_p.P83A|TJAP1_uc011dvi.1_Missense_Mutation_p.P217A|TJAP1_uc011dvj.1_Missense_Mutation_p.P17A|TJAP1_uc003ovi.2_Missense_Mutation_p.P83A	NM_001146016	NP_001139488	Q5JTD0	TJAP1_HUMAN	tight junction associated protein 1 isoform a	217						Golgi apparatus|tight junction	protein binding				0	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0122)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CAGCCCAGGTCCTGCTCCCAG	0.572													4	258	---	---	---	---	PASS	G	43472568	G	G	43472568	3	3	119	1	0	0	0	0	1	0	0	0	15925	855	30	2	679	2	TJAP1	6	43472568	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	316260	43472568	127642499	486	43659										
CDC5L	988	broad.mit.edu	37	chr6	44360434	44360434	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctggatccaagcattaagaaGacagaatggtccagagaaga	11	7	0	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:44360434G>T	uc003oxl.2	+	3	439	c.180G>T	c.(178-180)AAG>AAT	p.K60N		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	60	HTH myb-type 2.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GCATTAAGAAGACAGAATGGT	0.393													11	53	---	---	---	---	PASS	T	44360434	T	T	44360434	3	4	119	1	0	0	0	0	1	0	0	0	3082	933	33	2	190	2	CDC5L	6	44360434	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	887866	44360434	126754633	487	43660										
PLA2G7	7941	broad.mit.edu	37	chr6	46678382	46678382	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagcttgggaacattcttttGctctttgccgtacctaatat	8	9	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:46678382G>T	uc010jzf.2	-	8	946	c.677C>A	c.(676-678)GCA>GAA	p.A226E	PLA2G7_uc010jzg.1_Missense_Mutation_p.A226E|PLA2G7_uc011dwd.1_Missense_Mutation_p.A181E|PLA2G7_uc011dwe.1_Missense_Mutation_p.A99E	NM_005084	NP_005075	Q13093	PAFA_HUMAN	phospholipase A2, group VII	226					inflammatory response|lipid catabolic process	extracellular space	1-alkyl-2-acetylglycerophosphocholine esterase activity|phospholipid binding				0			Lung(136;0.192)			ACATTCTTTTGCTCTTTGCCG	0.323													61	160	---	---	---	---	PASS	T	46678382	T	T	46678382	3	4	119	1	0	0	0	0	1	0	0	0	12009	1319	46	3	668	3	PLA2G7	6	46678382	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2317948	46678382	124436685	488	43661										
MEP1A	4224	broad.mit.edu	37	chr6	46777263	46777263	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctcatatatcatatttcaAcagtttgatgggttggtatg	9	5	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:46777263A>G	uc010jzh.1	+	6	411	c.369A>G	c.(367-369)CAA>CAG	p.Q123Q	MEP1A_uc011dwg.1_5'UTR|MEP1A_uc011dwh.1_Silent_p.Q151Q|MEP1A_uc011dwi.1_Silent_p.Q23Q	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	123	Extracellular (Potential).|Metalloprotease.				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			TCATATTTCAACAGTTTGATG	0.333													108	224	---	---	---	---	PASS	G	46777263	G	G	46777263	2	3	119	1	0	0	0	0	0	0	0	1	9475	40	2	5		5	MEP1A	6	46777263	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	98881	46777263	124337804	489	43662										
MEP1A	4224	broad.mit.edu	37	chr6	46800903	46800903	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agggcacaaaaggcgaccctCagaactcaactgggggaatt	12	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:46800903C>T	uc010jzh.1	+	11	1279	c.1237C>T	c.(1237-1239)CAG>TAG	p.Q413*	MEP1A_uc011dwg.1_Nonsense_Mutation_p.Q135*|MEP1A_uc011dwh.1_Nonsense_Mutation_p.Q441*|MEP1A_uc011dwi.1_Nonsense_Mutation_p.Q313*	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	413	Extracellular (Potential).|MAM.				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			AGGCGACCCTCAGAACTCAAC	0.507													76	137	---	---	---	---	PASS	T	46800903	T	T	46800903	4	4	119	1	0	0	0	0	0	1	0	0	9475	827	29	2	1279	2	MEP1A	6	46800903	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	23640	46800903	124314164	490	43663										
OPN5	221391	broad.mit.edu	37	chr6	47779408	47779408	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atttttcttctcctatatctAggctgcacaccgtaaccaca	4	13	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:47779408A>G	uc003ozc.2	+	6	1004	c.999_splice	c.e6-2	p.R333_splice	OPN5_uc003ozd.2_Splice_Site_p.R168_splice	NM_181744	NP_859528	Q6U736	OPN5_HUMAN	opsin 5 isoform 1						phototransduction|protein-chromophore linkage|visual perception	integral to membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1						TCCTATATCTAGGCTGCACAC	0.308													43	84	---	---	---	---	PASS	G	47779408	G	G	47779408	5	3	119	1	0	0	0	0	0	0	1	0	10883	434	15	5	1019	5	OPN5	6	47779408	Splice_Site	SNP	A	TCGA-60-2698-01A-01D-1522-08	978505	47779408	123335659	491	43664										
C6orf138	442213	broad.mit.edu	37	chr6	47847149	47847149	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtaagcaccccatgaaggaGaaggaggcataaatgagata	12	6	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:47847149G>C	uc011dwm.1	-	3	1465	c.1380C>G	c.(1378-1380)TTC>TTG	p.F460L	C6orf138_uc011dwn.1_Missense_Mutation_p.F224L	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	477	Helical; (Potential).					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						CCATGAAGGAGAAGGAGGCAT	0.418													3	74	---	---	---	---	PASS	C	47847149	C	C	47847149	3	2	119	1	0	0	0	0	1	0	0	0	2332	933	33	2	1113	2	C6orf138	6	47847149	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	67741	47847149	123267918	492	43665										
PGK2	5232	broad.mit.edu	37	chr6	49754844	49754844	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgaagtctactctcatgatGactcgcttccctctaacatc	5	13	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:49754844G>A	uc003ozu.2	-	1	164	c.57C>T	c.(55-57)GTC>GTT	p.V19V		NM_138733	NP_620061	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	19					glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			ovary(1)	1	Lung NSC(77;0.0402)					CTCTCATGATGACTCGCTTCC	0.418													8	228	---	---	---	---	PASS	A	49754844	A	A	49754844	2	1	119	1	0	0	0	0	0	0	0	1	11791	1277	45	2		2	PGK2	6	49754844	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1907695	49754844	121360223	493	43666										
DEFB110	245913	broad.mit.edu	37	chr6	49986831	49986831	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctaccatactcaggatatttCtttttggctgtaagaaggga	9	7	2	1	rs140171603		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:49986831C>G	uc003pac.2	-	2	109	c.63G>C	c.(61-63)AAG>AAC	p.K21N	DEFB110_uc011dwr.1_Intron	NM_001037497	NP_001032586	Q30KQ9	DB110_HUMAN	beta-defensin 110 isoform a	21					defense response to bacterium	extracellular region				ovary(1)	1	Lung NSC(77;0.042)					CAGGATATTTCTTTTTGGCTG	0.353													24	237	---	---	---	---	PASS	G	49986831	G	G	49986831	3	3	119	1	0	0	0	0	1	0	0	0	4400	912	32	2	280	2	DEFB110	6	49986831	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	231987	49986831	121128236	494	43667										
TFAP2B	7021	broad.mit.edu	37	chr6	50791467	50791467	+	Silent	SNP	G	C	C													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccccggagggactaccactcGgtccgccggccggacgtgct							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:50791467G>C	uc003pag.2	+	2	595	c.429G>C	c.(427-429)TCG>TCC	p.S143S		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	143					nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					ACTACCACTCGGTCCGCCGGC	0.716													3	8	---	---	---	---	PASS	C	50791467	C	C	50791467	2	2	119	1	0	0	0	0	0	0	0	1	15785	1103	39	4		4	TFAP2B	6	50791467	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	804636	50791467	120323600	495	43668	817	2								
TFAP2B	7021	broad.mit.edu	37	chr6	50791468	50791468	+	Missense_Mutation	SNP	G	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cccggagggactaccactcgGtccgccggccggacgtgctg							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:50791468G>A	uc003pag.2	+	2	596	c.430G>A	c.(430-432)GTC>ATC	p.V144I		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	144					nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					CTACCACTCGGTCCGCCGGCC	0.716													3	6	---	---	---	---	PASS	A	50791468	A	A	50791468	3	1	119	1	0	0	0	0	1	0	0	0	15785	1261	44	3	436	3	TFAP2B	6	50791468	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1	50791468	120323599	496	43669	817	2								
PKHD1	5314	broad.mit.edu	37	chr6	51917955	51917955	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagagggagaaggttgatctGatgaaccagcactggggagt	16	6	1	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:51917955G>C	uc003pah.1	-	21	2335	c.2059C>G	c.(2059-2061)CAG>GAG	p.Q687E	PKHD1_uc003pai.2_Missense_Mutation_p.Q687E	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	687	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AGGTTGATCTGATGAACCAGC	0.512													39	79	---	---	---	---	PASS	C	51917955	C	C	51917955	3	2	119	1	0	0	0	0	1	0	0	0	11971	1299	45	2	10392	2	PKHD1	6	51917955	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1126487	51917955	119197112	497	43670										
GSTA1	2938	broad.mit.edu	37	chr6	52659012	52659012	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcaggtggacatacgggcaGaaggaggatcatttcaccca	12	10	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:52659012G>A	uc003paz.2	-	5	437	c.325C>T	c.(325-327)CTG>TTG	p.L109L		NM_145740	NP_665683	P08263	GSTA1_HUMAN	glutathione S-transferase alpha 1	109	GST C-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.118)				Amsacrine(DB00276)|Busulfan(DB01008)|Glutathione(DB00143)	CATACGGGCAGAAGGAGGATC	0.388													73	338	---	---	---	---	PASS	A	52659012	A	A	52659012	2	1	119	1	0	0	0	0	0	0	0	1	6830	933	33	2		2	GSTA1	6	52659012	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	741057	52659012	118456055	498	43671										
COL21A1	81578	broad.mit.edu	37	chr6	56044530	56044530	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccaatagcaaataatgttatCttactatctcttgctgcttg	5	9	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:56044530C>G	uc003pcs.2	-	3	718	c.486G>C	c.(484-486)AAG>AAC	p.K162N	COL21A1_uc003pct.1_RNA|COL21A1_uc011dxi.1_Missense_Mutation_p.K162N|COL21A1_uc003pcu.1_Missense_Mutation_p.K162N	NM_030820	NP_110447	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1 precursor	162	VWFA.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(2)	2	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			ATAATGTTATCTTACTATCTC	0.423													39	64	---	---	---	---	PASS	G	56044530	G	G	56044530	3	3	119	1	0	0	0	0	1	0	0	0	3680	912	32	2	2499	2	COL21A1	6	56044530	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3385518	56044530	115070537	499	43672										
DST	667	broad.mit.edu	37	chr6	56346973	56346973	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taccaccgagtggaattcctCtgcctaagagttcacacaca	7	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:56346973C>G	uc003pdf.2	-	84	15077	c.15049G>C	c.(15049-15051)GAG>CAG	p.E5017Q	DST_uc003pcz.3_Missense_Mutation_p.E4839Q|DST_uc011dxj.1_Missense_Mutation_p.E4868Q|DST_uc011dxk.1_Missense_Mutation_p.E4879Q|DST_uc003pcy.3_Missense_Mutation_p.E4513Q	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6925	Spectrin 20.				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)			TGGAATTCCTCTGCCTAAGAG	0.483													13	53	---	---	---	---	PASS	G	56346973	G	G	56346973	3	3	119	1	0	0	0	0	1	0	0	0	4783	922	32	2	2034	2	DST	6	56346973	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	302443	56346973	114768094	500	43673										
DST	667	broad.mit.edu	37	chr6	56497772	56497772	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctggctatcttccagaaaatCttcaaaacgagattgtagat	7	8	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:56497772C>T	uc003pdf.2	-	27	3614	c.3586G>A	c.(3586-3588)GAT>AAT	p.D1196N	DST_uc003pcz.3_Missense_Mutation_p.D1018N|DST_uc011dxj.1_Missense_Mutation_p.D1047N|DST_uc011dxk.1_Missense_Mutation_p.D1058N|DST_uc003pcy.3_Missense_Mutation_p.D692N|DST_uc003pdb.2_Missense_Mutation_p.D692N|DST_uc003pdc.3_Missense_Mutation_p.D692N|DST_uc003pdd.3_Missense_Mutation_p.D692N	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	1018					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)			TCCAGAAAATCTTCAAAACGA	0.358													25	151	---	---	---	---	PASS	T	56497772	T	T	56497772	3	4	119	1	0	0	0	0	1	0	0	0	4783	913	32	2	18365	2	DST	6	56497772	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	150799	56497772	114617295	501	43674										
PHF3	23469	broad.mit.edu	37	chr6	64401664	64401664	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggagatgtgatgactggtttCatggtgattgtgttgggtta	16	2	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:64401664C>T	uc003pep.1	+	4	2253	c.2227C>T	c.(2227-2229)CAT>TAT	p.H743Y	PHF3_uc010kaf.1_Missense_Mutation_p.H743Y|PHF3_uc003pem.2_Missense_Mutation_p.H696Y|PHF3_uc010kag.1_Missense_Mutation_p.H655Y|PHF3_uc010kah.1_Missense_Mutation_p.H557Y|PHF3_uc003pen.2_Missense_Mutation_p.H655Y|PHF3_uc011dxs.1_Missense_Mutation_p.H12Y	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	743	PHD-type.				multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			TGACTGGTTTCATGGTGATTG	0.373													48	495	---	---	---	---	PASS	T	64401664	T	T	64401664	3	4	119	1	0	0	0	0	1	0	0	0	11836	826	29	2	2241	2	PHF3	6	64401664	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	7903892	64401664	106713403	502	43675										
PHF3	23469	broad.mit.edu	37	chr6	64401686	64401686	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggtgattgtgttgggttaaGtctttctcaagcacagcaga	12	6	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:64401686G>T	uc003pep.1	+	4	2275	c.2249G>T	c.(2248-2250)AGT>ATT	p.S750I	PHF3_uc010kaf.1_Missense_Mutation_p.S750I|PHF3_uc003pem.2_Missense_Mutation_p.S703I|PHF3_uc010kag.1_Missense_Mutation_p.S662I|PHF3_uc010kah.1_Missense_Mutation_p.S564I|PHF3_uc003pen.2_Missense_Mutation_p.S662I|PHF3_uc011dxs.1_Missense_Mutation_p.S19I	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	750	PHD-type.				multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			GTTGGGTTAAGTCTTTCTCAA	0.388													62	449	---	---	---	---	PASS	T	64401686	T	T	64401686	3	4	119	1	0	0	0	0	1	0	0	0	11836	1029	36	3	2263	3	PHF3	6	64401686	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	22	64401686	106713381	503	43676										
PHF3	23469	broad.mit.edu	37	chr6	64408361	64408361	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttacagactcaaatttgaagGtaccagaggaaaaggcagca	10	7	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:64408361G>T	uc003pep.1	+	7	2874	c.2848G>T	c.(2848-2850)GTA>TTA	p.V950L	PHF3_uc010kah.1_Missense_Mutation_p.V764L|PHF3_uc003pen.2_Missense_Mutation_p.V862L|PHF3_uc011dxs.1_Missense_Mutation_p.V219L	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	950	TFIIS central.				multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			AAATTTGAAGGTACCAGAGGA	0.274													14	172	---	---	---	---	PASS	T	64408361	T	T	64408361	3	4	119	1	0	0	0	0	1	0	0	0	11836	1261	44	3	2874	3	PHF3	6	64408361	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6675	64408361	106706706	504	43677										
BAI3	577	broad.mit.edu	37	chr6	70071177	70071177	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcatggaaaccttgccgcatGaaaggctattgcactacaaa	9	10	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:70071177G>T	uc003pev.3	+	29	4460	c.4012G>T	c.(4012-4014)GAA>TAA	p.E1338*	BAI3_uc010kak.2_Nonsense_Mutation_p.E1338*|BAI3_uc011dxx.1_Nonsense_Mutation_p.E544*	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1338	Cytoplasmic (Potential).				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)				CTTGCCGCATGAAAGGCTATT	0.408													21	119	---	---	---	---	PASS	T	70071177	T	T	70071177	4	4	119	1	0	0	0	0	0	1	0	0	1300	1291	45	2	4118	2	BAI3	6	70071177	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5662816	70071177	101043890	505	43678										
KHDC1	80759	broad.mit.edu	37	chr6	73951780	73951780	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcagccaaggatacctacctCgagcatgatgataggagtcc	10	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:73951780C>G	uc003pgo.2	-	4	1013	c.512G>C	c.(511-513)CGA>CCA	p.R171P	KHDC1_uc011dyl.1_RNA|KHDC1_uc003pgn.3_Missense_Mutation_p.R98P	NM_030568	NP_085045	Q4VXA5	KHDC1_HUMAN	KH homology domain containing 1	171						integral to membrane	RNA binding			skin(1)	1						ATACCTACCTCGAGCATGATG	0.517													4	62	---	---	---	---	PASS	G	73951780	G	G	73951780	3	3	119	1	0	0	0	0	1	0	0	0	8144	884	31	2	209	2	KHDC1	6	73951780	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3880603	73951780	97163287	506	43679										
COL12A1	1303	broad.mit.edu	37	chr6	75814930	75814930	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caatttccttactgcagggcCtggaggtcctggaggtccaa	12	11	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:75814930C>A	uc003phs.2	-	54	8423	c.8257G>T	c.(8257-8259)GGC>TGC	p.G2753C	COL12A1_uc003pht.2_Missense_Mutation_p.G1589C	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2753	Triple-helical region (COL2) with 1 imperfection.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						ACTGCAGGGCCTGGAGGTCCT	0.388													15	87	---	---	---	---	PASS	A	75814930	A	A	75814930	3	1	119	1	0	0	0	0	1	0	0	0	3669	681	24	3	986	3	COL12A1	6	75814930	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1863150	75814930	95300137	507	43680										
IMPG1	3617	broad.mit.edu	37	chr6	76715065	76715065	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcctctagtgctttgctgatCagccttttgaggtctgtagc	10	10	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:76715065C>T	uc003pik.1	-	10	1204	c.1074G>A	c.(1072-1074)CTG>CTA	p.L358L		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	358					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				CTTTGCTGATCAGCCTTTTGA	0.403													42	269	---	---	---	---	PASS	T	76715065	T	T	76715065	2	4	119	1	0	0	0	0	0	0	0	1	7728	813	29	2		2	IMPG1	6	76715065	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	900135	76715065	94400002	508	43681										
IMPG1	3617	broad.mit.edu	37	chr6	76715170	76715170	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attttgttggaatcaaaagaCaggaggtcacttgcagggct	12	6	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:76715170C>T	uc003pik.1	-	10	1099	c.969G>A	c.(967-969)CTG>CTA	p.L323L		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	323	SEA 1.				visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				AATCAAAAGACAGGAGGTCAC	0.448													11	212	---	---	---	---	PASS	T	76715170	T	T	76715170	2	4	119	1	0	0	0	0	0	0	0	1	7728	465	17	3		3	IMPG1	6	76715170	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	105	76715170	94399897	509	43682										
DOPEY1	23033	broad.mit.edu	37	chr6	83847593	83847593	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcttcaaagaaaaattatcaGaaaaagtttcggagaaggaa	9	4	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:83847593G>C	uc003pjs.1	+	21	4092	c.3832G>C	c.(3832-3834)GAA>CAA	p.E1278Q	DOPEY1_uc011dyy.1_Missense_Mutation_p.E1269Q|DOPEY1_uc010kbl.1_Missense_Mutation_p.E1269Q|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1278					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)		AAAATTATCAGAAAAAGTTTC	0.363													14	94	---	---	---	---	PASS	C	83847593	C	C	83847593	3	2	119	1	0	0	0	0	1	0	0	0	4707	943	33	2	3906	2	DOPEY1	6	83847593	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	7132423	83847593	87267474	510	43683										
PRSS35	167681	broad.mit.edu	37	chr6	84233922	84233922	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcctttcagtggacccgggtCaagaatacccacattccgaa	8	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:84233922C>G	uc003pjz.2	+	2	925	c.762C>G	c.(760-762)GTC>GTG	p.V254V	PRSS35_uc010kbm.2_Silent_p.V254V	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	254	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		GGACCCGGGTCAAGAATACCC	0.562													12	94	---	---	---	---	PASS	G	84233922	G	G	84233922	2	3	119	1	0	0	0	0	0	0	0	1	12624	813	29	2		2	PRSS35	6	84233922	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	386329	84233922	86881145	511	43684										
RARS2	57038	broad.mit.edu	37	chr6	88240595	88240595	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cccagttccaatcgttggaaGaactcctgtgctgcttttgc	9	12	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:88240595G>C	uc003pme.2	-	9	738	c.678C>G	c.(676-678)TTC>TTG	p.F226L	RARS2_uc003pmb.2_Missense_Mutation_p.F51L|RARS2_uc003pmc.2_Missense_Mutation_p.F51L|RARS2_uc003pmd.2_5'UTR|RARS2_uc003pmf.2_RNA	NM_020320	NP_064716	Q5T160	SYRM_HUMAN	arginyl-tRNA synthetase 2, mitochondrial	226					arginyl-tRNA aminoacylation	mitochondrial matrix	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|central_nervous_system(1)	3		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0456)		ATCGTTGGAAGAACTCCTGTG	0.383													14	208	---	---	---	---	PASS	C	88240595	C	C	88240595	3	2	119	1	0	0	0	0	1	0	0	0	13059	933	33	2	1106	2	RARS2	6	88240595	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4006673	88240595	82874472	512	43685										
UBE2J1	51465	broad.mit.edu	37	chr6	90039657	90039657	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttgatgaaaggatgctgctGaggaattctggagtccgtac	14	6	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:90039657G>A	uc010kcb.2	-	9	871	c.698C>T	c.(697-699)TCA>TTA	p.S233L	UBE2J1_uc003pnc.2_Missense_Mutation_p.S233L	NM_016021	NP_057105	Q9Y385	UB2J1_HUMAN	ubiquitin-conjugating enzyme E2, J1	233	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	ATP binding|ubiquitin-protein ligase activity				0		all_cancers(76;1.65e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;2.5e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0139)		GGATGCTGCTGAGGAATTCTG	0.433													8	157	---	---	---	---	PASS	A	90039657	A	A	90039657	3	1	119	1	0	0	0	0	1	0	0	0	16857	1294	45	2	262	2	UBE2J1	6	90039657	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1799062	90039657	81075410	513	43686										
MDN1	23195	broad.mit.edu	37	chr6	90380769	90380769	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggagaggaccggcaccaggcGcaccagcaaggaacaggatt	15	11	0	1	rs139168257		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:90380769G>A	uc003pnn.1	-	83	13941	c.13825C>T	c.(13825-13827)CGC>TGC	p.R4609C		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4609					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)		GGCACCAGGCGCACCAGCAAG	0.428													4	76	---	---	---	---	PASS	A	90380769	A	A	90380769	3	1	119	1	0	0	0	0	1	0	0	0	9415	1087	38	1	3045	1	MDN1	6	90380769	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	341112	90380769	80734298	514	43687										
GPR63	81491	broad.mit.edu	37	chr6	97246936	97246936	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacacacactggggagctcgGgaaggtatctgcaggtcggg	16	9	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:97246936G>A	uc010kcl.2	-	3	1150	c.672C>T	c.(670-672)TCC>TCT	p.S224S	GPR63_uc003pou.2_Silent_p.S224S	NM_001143957	NP_001137429	Q9BZJ6	GPR63_HUMAN	G protein-coupled receptor 63	224	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;6.89e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0618)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0912)		GGGGAGCTCGGGAAGGTATCT	0.458													29	183	---	---	---	---	PASS	A	97246936	A	A	97246936	2	1	119	1	0	0	0	0	0	0	0	1	6704	1219	43	3		3	GPR63	6	97246936	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	6866167	97246936	73868131	515	43688										
PRDM13	59336	broad.mit.edu	37	chr6	100062341	100062341	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaagtctgtctgcggcccttCggcgaccccagcaatctcaa	9	15	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:100062341C>G	uc003pqg.1	+	4	2091	c.1830C>G	c.(1828-1830)TTC>TTG	p.F610L		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	610	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		TGCGGCCCTTCGGCGACCCCA	0.617													12	49	---	---	---	---	PASS	G	100062341	G	G	100062341	3	3	119	1	0	0	0	0	1	0	0	0	12454	883	31	2	1844	2	PRDM13	6	100062341	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2815405	100062341	71052726	516	43689										
ASCC3	10973	broad.mit.edu	37	chr6	101296127	101296127	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagtcatttccttcaaagttGaatttaggtacttttcaact	5	8	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:101296127G>A	uc003pqk.2	-	4	1027	c.698C>T	c.(697-699)TCA>TTA	p.S233L	ASCC3_uc011eai.1_Missense_Mutation_p.S135L|ASCC3_uc003pql.2_Missense_Mutation_p.S233L|ASCC3_uc010kcv.2_Missense_Mutation_p.S233L	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	233					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CTTCAAAGTTGAATTTAGGTA	0.393													11	142	---	---	---	---	PASS	A	101296127	A	A	101296127	3	1	119	1	0	0	0	0	1	0	0	0	1033	1294	45	2	6066	2	ASCC3	6	101296127	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1233786	101296127	69818940	517	43690										
SEC63	11231	broad.mit.edu	37	chr6	108225923	108225923	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttttttagcatgaattgctGatctgcaaaacaataaaaaa	5	6	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:108225923G>A	uc003psc.3	-	11	1233	c.964C>T	c.(964-966)CAG>TAG	p.Q322*	SEC63_uc003psb.3_Nonsense_Mutation_p.Q182*	NM_007214	NP_009145	Q9UGP8	SEC63_HUMAN	SEC63-like protein	322	SEC63 1.|Cytoplasmic (Potential).				protein folding|protein targeting to membrane	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|receptor activity|unfolded protein binding			ovary(1)|skin(1)	2		all_cancers(87;5.35e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0294)		BRCA - Breast invasive adenocarcinoma(108;0.0079)|Epithelial(106;0.0356)|all cancers(137;0.0525)|OV - Ovarian serous cystadenocarcinoma(136;0.054)		ATGAATTGCTGATCTGCAAAA	0.363													102	182	---	---	---	---	PASS	A	108225923	A	A	108225923	4	1	119	1	0	0	0	0	0	1	0	0	14005	1299	45	2	1362	2	SEC63	6	108225923	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6929796	108225923	62889144	518	43691										
CDK19	23097	broad.mit.edu	37	chr6	110953259	110953259	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctttgtataatgccttgcaCcaagcaaaagttctggagcc	8	11	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:110953259C>A	uc003puh.1	-	6	693	c.620G>T	c.(619-621)GGT>GTT	p.G207V	CDK19_uc003pui.1_Missense_Mutation_p.G147V|CDK19_uc011eax.1_Missense_Mutation_p.G83V	NM_015076	NP_055891	Q9BWU1	CDK19_HUMAN	cell division cycle 2-like 6 (CDK8-like)	207	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						ATGCCTTGCACCAAGCAAAAG	0.358													35	144	---	---	---	---	PASS	A	110953259	A	A	110953259	3	1	119	1	0	0	0	0	1	0	0	0	3135	507	18	3	920	3	CDK19	6	110953259	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2727336	110953259	60161808	519	43692										
RFPL4B	442247	broad.mit.edu	37	chr6	112671663	112671663	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttctgtcttgagctcttgggAgaaggggagagtggcaacgt	16	6	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:112671663A>G	uc003pvx.1	+	3	1065	c.753A>G	c.(751-753)GGA>GGG	p.G251G		NM_001013734	NP_001013756	Q6ZWI9	RFPLB_HUMAN	ret finger protein-like 4B	251	B30.2/SPRY.						zinc ion binding				0		all_cancers(87;9.44e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00265)|Colorectal(196;0.0209)		all cancers(137;0.0202)|OV - Ovarian serous cystadenocarcinoma(136;0.0477)|Epithelial(106;0.0646)|GBM - Glioblastoma multiforme(226;0.0866)|BRCA - Breast invasive adenocarcinoma(108;0.244)		AGCTCTTGGGAGAAGGGGAGA	0.448													45	131	---	---	---	---	PASS	G	112671663	G	G	112671663	2	3	119	1	0	0	0	0	0	0	0	1	13256	291	11	5		5	RFPL4B	6	112671663	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	1718404	112671663	58443404	520	43693										
NT5DC1	221294	broad.mit.edu	37	chr6	116565164	116565164	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctccactggtcttatcaagtGatgagacactgatatccaaa	7	10	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:116565164G>C	uc003pwj.2	+	12	1440	c.1345G>C	c.(1345-1347)GAT>CAT	p.D449H	NT5DC1_uc003pwk.2_Missense_Mutation_p.D441H|NT5DC1_uc003pwl.2_Missense_Mutation_p.D399H	NM_152729	NP_689942	Q5TFE4	NT5D1_HUMAN	5'-nucleotidase, cytosolic II-like 1 protein	449							hydrolase activity|metal ion binding				0		all_cancers(87;0.00367)|all_epithelial(87;0.00449)|Colorectal(196;0.0469)		all cancers(137;0.0327)|OV - Ovarian serous cystadenocarcinoma(136;0.0445)|GBM - Glioblastoma multiforme(226;0.0719)|Epithelial(106;0.112)		CTTATCAAGTGATGAGACACT	0.333													17	88	---	---	---	---	PASS	C	116565164	C	C	116565164	3	2	119	1	0	0	0	0	1	0	0	0	10690	1290	45	2	1391	2	NT5DC1	6	116565164	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3893501	116565164	54549903	521	43694										
DSE	29940	broad.mit.edu	37	chr6	116758235	116758235	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttgcagatgtaacatacgaGaaacataaaaatgggggctt	10	5	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:116758235G>A	uc003pws.2	+	6	2798	c.2604G>A	c.(2602-2604)GAG>GAA	p.E868E	DSE_uc011ebg.1_Silent_p.E887E|DSE_uc003pwt.2_Silent_p.E868E|DSE_uc003pwu.2_Silent_p.E535E	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	868					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		TAACATACGAGAAACATAAAA	0.428													9	158	---	---	---	---	PASS	A	116758235	A	A	116758235	2	1	119	1	0	0	0	0	0	0	0	1	4774	933	33	2		2	DSE	6	116758235	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	193071	116758235	54356832	522	43695										
ROS1	6098	broad.mit.edu	37	chr6	117609813	117609813	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagaccacaagattcagattCctgggagcctagaggaccct	10	12	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:117609813C>T	uc003pxp.1	-	43	7085	c.6886G>A	c.(6886-6888)GAA>AAA	p.E2296K	ROS1_uc011ebi.1_RNA	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	2296	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		GATTCAGATTCCTGGGAGCCT	0.453			T	GOPC|ROS1	glioblastoma|NSCLC								49	108	---	---	---	---	PASS	T	117609813	T	T	117609813	3	4	119	1	0	0	0	0	1	0	0	0	13531	864	30	2	161	2	ROS1	6	117609813	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	851578	117609813	53505254	523	43696										
ROS1	6098	broad.mit.edu	37	chr6	117706937	117706937	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgctgggtaggtgataattcTctgagatatccgtcccattc	10	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:117706937T>C	uc003pxp.1	-	15	2412	c.2213A>G	c.(2212-2214)GAG>GGG	p.E738G	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	738	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		GTGATAATTCTCTGAGATATC	0.458			T	GOPC|ROS1	glioblastoma|NSCLC								26	162	---	---	---	---	PASS	C	117706937	C	C	117706937	3	2	119	1	0	0	0	0	1	0	0	0	13531	1551	54	5	4946	5	ROS1	6	117706937	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	97124	117706937	53408130	524	43697										
TRDN	10345	broad.mit.edu	37	chr6	123600204	123600204	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcatgcatataacatacgtgGaggtttaggcttgacttctt	10	7	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:123600204G>A	uc003pzj.1	-	25	1556	c.1534C>T	c.(1534-1536)CCA>TCA	p.P512S	TRDN_uc010kem.1_Missense_Mutation_p.P13S	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	512	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		AACATACGTGGAGGTTTAGGC	0.249													13	76	---	---	---	---	PASS	A	123600204	A	A	123600204	3	1	119	1	0	0	0	0	1	0	0	0	16465	1174	41	2	723	2	TRDN	6	123600204	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5893267	123600204	47514863	525	43698										
ECHDC1	55862	broad.mit.edu	37	chr6	127637624	127637624	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttgttaaggtgttttgcatGaacatgcatacggccattcc	9	9	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:127637624G>A	uc003qax.2	-	4	441	c.405C>T	c.(403-405)TTC>TTT	p.F135F	ECHDC1_uc003qaz.3_Silent_p.F129F|ECHDC1_uc010key.2_Silent_p.F54F|ECHDC1_uc003qay.3_Intron|ECHDC1_uc010kez.2_Intron|ECHDC1_uc010kex.2_Intron	NM_001139510	NP_001132982	Q9NTX5	ECHD1_HUMAN	enoyl Coenzyme A hydratase domain containing 1	135							catalytic activity				0				GBM - Glioblastoma multiforme(226;0.0423)|all cancers(137;0.156)		TGTTTTGCATGAACATGCATA	0.264													7	204	---	---	---	---	PASS	A	127637624	A	A	127637624	2	1	119	1	0	0	0	0	0	0	0	1	4893	1281	45	2		2	ECHDC1	6	127637624	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	4037420	127637624	43477443	526	43699										
THEMIS	387357	broad.mit.edu	37	chr6	128150625	128150625	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcagtggatactcacatttCatcacaccttgaatttcata	4	11	5	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:128150625C>A	uc003qbi.2	-	4	1024	c.705G>T	c.(703-705)ATG>ATT	p.M235I	THEMIS_uc010kfa.2_Missense_Mutation_p.M138I|THEMIS_uc011ebt.1_Missense_Mutation_p.M235I|THEMIS_uc010kfb.2_Missense_Mutation_p.M200I	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	235	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						ACTCACATTTCATCACACCTT	0.373													25	126	---	---	---	---	PASS	A	128150625	A	A	128150625	3	1	119	1	0	0	0	0	1	0	0	0	15857	826	29	2	1357	2	THEMIS	6	128150625	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	513001	128150625	42964442	527	43700										
L3MBTL3	84456	broad.mit.edu	37	chr6	130392204	130392204	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcattcatctgtgttgctacGgtaacagatatggtggacaa	10	7	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:130392204G>T	uc003qbt.2	+	13	1346	c.1176G>T	c.(1174-1176)ACG>ACT	p.T392T	L3MBTL3_uc003qbu.2_Silent_p.T367T	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	392	MBT 2.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		GTGTTGCTACGGTAACAGATA	0.418													84	431	---	---	---	---	PASS	T	130392204	T	T	130392204	2	4	119	1	0	0	0	0	0	0	0	1	8593	1103	39	1		1	L3MBTL3	6	130392204	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	2241579	130392204	40722863	528	43701										
SAMD3	154075	broad.mit.edu	37	chr6	130466548	130466548	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acatctgggaggagtaaacaTgtggctgtcatcttcatgtc	11	8	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:130466548T>C	uc003qbv.2	-	12	1541	c.1215A>G	c.(1213-1215)ACA>ACG	p.T405T	SAMD3_uc003qbx.2_Silent_p.T405T|SAMD3_uc003qbw.2_Silent_p.T405T	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	405										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		GGAGTAAACATGTGGCTGTCA	0.368													16	38	---	---	---	---	PASS	C	130466548	C	C	130466548	2	2	119	1	0	0	0	0	0	0	0	1	13820	1451	51	5		5	SAMD3	6	130466548	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	74344	130466548	40648519	529	43702										
EPB41L2	2037	broad.mit.edu	37	chr6	131186730	131186730	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gactcagatgtgatggtttgTgcggtcagtaacgtgcccga	14	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:131186730T>C	uc003qch.2	-	17	2957	c.2775A>G	c.(2773-2775)GCA>GCG	p.A925A	EPB41L2_uc003qce.1_Silent_p.A303A|EPB41L2_uc003qcf.1_Intron|EPB41L2_uc003qcg.1_Silent_p.A667A|EPB41L2_uc011eby.1_Intron|EPB41L2_uc003qci.2_Silent_p.A772A|EPB41L2_uc010kfk.2_Intron|EPB41L2_uc003qcd.1_Silent_p.A86A	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	925	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		TGATGGTTTGTGCGGTCAGTA	0.458													55	102	---	---	---	---	PASS	C	131186730	C	C	131186730	2	2	119	1	0	0	0	0	0	0	0	1	5153	1683	59	5		5	EPB41L2	6	131186730	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	720182	131186730	39928337	530	43703										
EPB41L2	2037	broad.mit.edu	37	chr6	131225642	131225642	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caattgagaaggatcaggagGataaaacttcacattaaaag	9	5	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:131225642G>A	uc003qch.2	-	6	1074	c.892C>T	c.(892-894)CCT>TCT	p.P298S	EPB41L2_uc003qcg.1_Missense_Mutation_p.P298S|EPB41L2_uc011eby.1_Missense_Mutation_p.P298S|EPB41L2_uc003qci.2_Missense_Mutation_p.P298S|EPB41L2_uc010kfk.2_Missense_Mutation_p.P298S|EPB41L2_uc010kfl.1_Missense_Mutation_p.P298S	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	298	FERM.				cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		GGATCAGGAGGATAAAACTTC	0.328													26	128	---	---	---	---	PASS	A	131225642	A	A	131225642	3	1	119	1	0	0	0	0	1	0	0	0	5153	1174	41	2	2181	2	EPB41L2	6	131225642	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	38912	131225642	39889425	531	43704										
TAAR9	134860	broad.mit.edu	37	chr6	132859711	132859711	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcagcacagtgaggtctgtgGagagctgttggtactttggg	16	6	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:132859711G>T	uc011eci.1	+	2	285	c.283G>T	c.(283-285)GAG>TAG	p.E95*		NM_175057	NP_778227	Q96RI9	TAAR9_HUMAN	trace amine associated receptor 9	95	Extracellular (Potential).					plasma membrane	G-protein coupled receptor activity				0	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.0042)|GBM - Glioblastoma multiforme(226;0.00816)		GAGGTCTGTGGAGAGCTGTTG	0.448													40	162	---	---	---	---	PASS	T	132859711	T	T	132859711	4	4	119	1	0	0	0	0	0	1	0	0	15491	1175	41	2	285	2	TAAR9	6	132859711	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1634069	132859711	38255356	532	43705										
TAAR8	83551	broad.mit.edu	37	chr6	132874080	132874080	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gacttcttggtaggtgtgacTgtgatgcttttcagcatggt	13	6	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:132874080T>A	uc011ecj.1	+	1	249	c.249T>A	c.(247-249)ACT>ACA	p.T83T		NM_053278	NP_444508	Q969N4	TAAR8_HUMAN	trace amine associated receptor 8	83	Helical; Name=2; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00412)|GBM - Glioblastoma multiforme(226;0.00792)		TAGGTGTGACTGTGATGCTTT	0.443													47	256	---	---	---	---	PASS	A	132874080	A	A	132874080	2	1	119	1	0	0	0	0	0	0	0	1	15490	1567	55	5		5	TAAR8	6	132874080	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	14369	132874080	38240987	533	43706										
TAAR2	9287	broad.mit.edu	37	chr6	132939116	132939116	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaggatgaggaagttggttgGtgtgtgaagctgcttgaagt	18	2	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:132939116G>C	uc003qdl.1	-	2	229	c.229C>G	c.(229-231)CCA>GCA	p.P77A	TAAR2_uc010kfr.1_Missense_Mutation_p.P32A	NM_001033080	NP_001028252	Q9P1P5	TAAR2_HUMAN	trace amine associated receptor 2 isoform 1	77	Cytoplasmic (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00608)|GBM - Glioblastoma multiforme(226;0.0151)		AAGTTGGTTGGTGTGTGAAGC	0.428													30	137	---	---	---	---	PASS	C	132939116	C	C	132939116	3	2	119	1	0	0	0	0	1	0	0	0	15487	1261	44	4	830	4	TAAR2	6	132939116	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	65036	132939116	38175951	534	43707										
C6orf192	116843	broad.mit.edu	37	chr6	133100505	133100505	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaggccaactttgggtaaagCgatcagtttccagaatgagt	11	7	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:133100505C>G	uc003qdw.1	-	7	849	c.697G>C	c.(697-699)GCT>CCT	p.A233P	C6orf192_uc010kgd.1_RNA|C6orf192_uc011eco.1_Missense_Mutation_p.A107P	NM_052831	NP_439896	Q6NT16	CF192_HUMAN	hypothetical protein LOC116843	233	Helical; (Potential).				transmembrane transport	integral to membrane				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;0.00303)|GBM - Glioblastoma multiforme(226;0.0265)		TTGGGTAAAGCGATCAGTTTC	0.373													57	153	---	---	---	---	PASS	G	133100505	G	G	133100505	3	3	119	1	0	0	0	0	1	0	0	0	2349	768	27	4	705	4	C6orf192	6	133100505	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	161389	133100505	38014562	535	43708										
AHI1	54806	broad.mit.edu	37	chr6	135769471	135769471	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttacagttacgtacagtgttGatgggtaatgatttcttgga	11	4	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:135769471G>A	uc003qgi.2	-	12	1967	c.1583C>T	c.(1582-1584)TCA>TTA	p.S528L	AHI1_uc003qgg.2_5'UTR|AHI1_uc003qgh.2_Missense_Mutation_p.S528L|AHI1_uc003qgj.2_Missense_Mutation_p.S528L|AHI1_uc003qgk.3_RNA|AHI1_uc003qgl.3_Missense_Mutation_p.S528L	NM_001134831	NP_001128303	Q8N157	AHI1_HUMAN	Abelson helper integration site 1 isoform a	528						adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		GTACAGTGTTGATGGGTAATG	0.383													10	76	---	---	---	---	PASS	A	135769471	A	A	135769471	3	1	119	1	0	0	0	0	1	0	0	0	413	1294	45	2	2136	2	AHI1	6	135769471	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2668966	135769471	35345596	536	43709										
HECA	51696	broad.mit.edu	37	chr6	139487561	139487561	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgcagtgcttctacgagtggGagagcagcatcctcgtccag	13	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:139487561G>C	uc003qin.2	+	2	697	c.412G>C	c.(412-414)GAG>CAG	p.E138Q		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	138					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		CTACGAGTGGGAGAGCAGCAT	0.602													16	131	---	---	---	---	PASS	C	139487561	C	C	139487561	3	2	119	1	0	0	0	0	1	0	0	0	7038	1175	41	2	418	2	HECA	6	139487561	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3718090	139487561	31627506	537	43710										
HIVEP2	3097	broad.mit.edu	37	chr6	143092476	143092476	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgccacctgcttccctgggtCctcttgctgaagaggaggca	12	14	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:143092476C>A	uc003qjd.2	-	5	4143	c.3400G>T	c.(3400-3402)GAC>TAC	p.D1134Y		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1134					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		TTCCCTGGGTCCTCTTGCTGA	0.642													40	83	---	---	---	---	PASS	A	143092476	A	A	143092476	3	1	119	1	0	0	0	0	1	0	0	0	7187	855	30	2	3964	2	HIVEP2	6	143092476	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3604915	143092476	28022591	538	43711										
LTV1	84946	broad.mit.edu	37	chr6	144183253	144183253	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctaaaagttgtgtaaaattGaatacccttgaacccttgga	7	7	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:144183253G>A	uc003qjs.2	+	8	1043	c.936G>A	c.(934-936)TTG>TTA	p.L312L	LTV1_uc003qju.1_Silent_p.L97L|C6orf94_uc010khj.2_Intron|C6orf94_uc010khk.2_5'Flank|C6orf94_uc011edy.1_5'Flank	NM_032860	NP_116249	Q96GA3	LTV1_HUMAN	LTV1 homolog	312										ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;2.72e-06)|GBM - Glioblastoma multiforme(68;0.0372)		GTGTAAAATTGAATACCCTTG	0.373													42	88	---	---	---	---	PASS	A	144183253	A	A	144183253	2	1	119	1	0	0	0	0	0	0	0	1	9081	1281	45	2		2	LTV1	6	144183253	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1090777	144183253	26931814	539	43712										
UTRN	7402	broad.mit.edu	37	chr6	144835108	144835108	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acataagtacctggctttatCaagctgaagctctattggat	8	8	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:144835108C>G	uc003qkt.2	+	35	5100	c.5008C>G	c.(5008-5010)CAA>GAA	p.Q1670E		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1670	Interaction with SYNM.|Spectrin 12.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		CTGGCTTTATCAAGCTGAAGC	0.368													20	136	---	---	---	---	PASS	G	144835108	G	G	144835108	3	3	119	1	0	0	0	0	1	0	0	0	17100	827	29	2	5146	2	UTRN	6	144835108	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	651855	144835108	26279959	540	43713										
UTRN	7402	broad.mit.edu	37	chr6	144843120	144843120	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttgctgtttttgtaggcaaTccctattcaacagaggaaaa	8	7	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:144843120T>G	uc003qkt.2	+	39	5638	c.5546T>G	c.(5545-5547)ATC>AGC	p.I1849S		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1849					muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TTGTAGGCAATCCCTATTCAA	0.299													8	191	---	---	---	---	PASS	G	144843120	G	G	144843120	3	3	119	1	0	0	0	0	1	0	0	0	17100	1435	50	5	5700	5	UTRN	6	144843120	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	8012	144843120	26271947	541	43714										
PLEKHG1	57480	broad.mit.edu	37	chr6	151121996	151121996	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cggattctcaagtatcatctCcttctgcatgtaagtttctg	7	10	5	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:151121996C>G	uc003qny.1	+	7	1083	c.771C>G	c.(769-771)CTC>CTG	p.L257L	PLEKHG1_uc011eel.1_Silent_p.L297L|PLEKHG1_uc011eem.1_Silent_p.L316L|PLEKHG1_uc003qnz.2_Silent_p.L257L	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	257	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		AGTATCATCTCCTTCTGCATG	0.453													18	177	---	---	---	---	PASS	G	151121996	G	G	151121996	2	3	119	1	0	0	0	0	0	0	0	1	12068	842	30	2		2	PLEKHG1	6	151121996	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	6278876	151121996	19993071	542	43715										
PLEKHG1	57480	broad.mit.edu	37	chr6	151161515	151161515	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctgtctttacacagaagttCaaggtgtgagagtcaccagg	12	8	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:151161515C>G	uc003qny.1	+	17	3953	c.3641C>G	c.(3640-3642)TCA>TGA	p.S1214*	PLEKHG1_uc011eem.1_Nonsense_Mutation_p.S1273*	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	1214					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		CACAGAAGTTCAAGGTGTGAG	0.468													14	251	---	---	---	---	PASS	G	151161515	G	G	151161515	4	3	119	1	0	0	0	0	0	1	0	0	12068	838	29	2	3699	2	PLEKHG1	6	151161515	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	39519	151161515	19953552	543	43716										
ZBTB2	57621	broad.mit.edu	37	chr6	151686676	151686676	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcagtctagtaagacggtttCttgttcctttttgatggaag	10	6	3	2	rs143773461		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:151686676C>T	uc003qoh.2	-	3	1660	c.1525G>A	c.(1525-1527)GAA>AAA	p.E509K		NM_020861	NP_065912	Q8N680	ZBTB2_HUMAN	zinc finger and BTB domain containing 2	509					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	p.E509K(1)		skin(1)	1			BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.63e-11)		AAGACGGTTTCTTGTTCCTTT	0.443													49	249	---	---	---	---	PASS	T	151686676	T	T	151686676	3	4	119	1	0	0	0	0	1	0	0	0	17525	922	32	2	23	2	ZBTB2	6	151686676	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	525161	151686676	19428391	544	43717										
C6orf97	80129	broad.mit.edu	37	chr6	151936728	151936728	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggctaaggagaataaagaaAgggccagaaacatgatagaa	12	4	0	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:151936728A>G	uc003qol.2	+	10	1950	c.1861A>G	c.(1861-1863)AGG>GGG	p.R621G		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	621	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		GAATAAAGAAAGGGCCAGAAA	0.408													40	178	---	---	---	---	PASS	G	151936728	G	G	151936728	3	3	119	1	0	0	0	0	1	0	0	0	2374	63	3	5	1899	5	C6orf97	6	151936728	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	250052	151936728	19178339	545	43718										
SYNE1	23345	broad.mit.edu	37	chr6	152614876	152614876	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcatagagtgtgcgctgcttCtcactgatctacaccagaaa	8	11	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:152614876C>T	uc010kiw.2	-	95	18461	c.17859G>A	c.(17857-17859)GAG>GAA	p.E5953E	SYNE1_uc010kiv.2_Silent_p.E477E|SYNE1_uc003qos.3_Silent_p.E477E|SYNE1_uc003qot.3_Silent_p.E5882E|SYNE1_uc003qou.3_Silent_p.E5953E|SYNE1_uc010kiy.1_Silent_p.E128E	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5953	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)		TGCGCTGCTTCTCACTGATCT	0.473										HNSCC(10;0.0054)			82	152	---	---	---	---	PASS	T	152614876	T	T	152614876	2	4	119	1	0	0	0	0	0	0	0	1	15442	912	32	2		2	SYNE1	6	152614876	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	678148	152614876	18500191	546	43719										
SYNE1	23345	broad.mit.edu	37	chr6	152697651	152697651	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgaaatctttgctgtaaaatCtgttctttattctggcagcc	7	9	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:152697651C>A	uc010kiw.2	-	58	9791	c.9189G>T	c.(9187-9189)CAG>CAT	p.Q3063H	SYNE1_uc003qot.3_Missense_Mutation_p.Q3070H|SYNE1_uc003qou.3_Missense_Mutation_p.Q3063H|SYNE1_uc010kja.1_5'UTR|SYNE1_uc003qov.2_Missense_Mutation_p.Q141H|SYNE1_uc010kjb.1_3'UTR	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3063	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)		GCTGTAAAATCTGTTCTTTAT	0.383										HNSCC(10;0.0054)			51	78	---	---	---	---	PASS	A	152697651	A	A	152697651	3	1	119	1	0	0	0	0	1	0	0	0	15442	912	32	2	17633	2	SYNE1	6	152697651	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	82775	152697651	18417416	547	43720										
SYNE1	23345	broad.mit.edu	37	chr6	152831423	152831423	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttacttggtgggctgggagtCtcagagctaactatgctgtc	13	8	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:152831423C>T	uc010kiw.2	-	8	1088	c.486G>A	c.(484-486)GAG>GAA	p.E162E	SYNE1_uc003qot.3_Silent_p.E169E|SYNE1_uc003qou.3_Silent_p.E162E|SYNE1_uc010kjb.1_Silent_p.E162E|SYNE1_uc003qpa.1_Silent_p.E162E	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	162	Actin-binding.|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)		GGCTGGGAGTCTCAGAGCTAA	0.493										HNSCC(10;0.0054)			50	229	---	---	---	---	PASS	T	152831423	T	T	152831423	2	4	119	1	0	0	0	0	0	0	0	1	15442	912	32	2		2	SYNE1	6	152831423	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	133772	152831423	18283644	548	43721										
CLDN20	49861	broad.mit.edu	37	chr6	155597295	155597295	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggagatcatagcaaactttCtggatctgacagttccagaa	9	8	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:155597295C>T	uc003qql.1	+	2	822	c.442C>T	c.(442-444)CTG>TTG	p.L148L	TFB1M_uc003qqj.3_Intron|TFB1M_uc003qqk.2_Intron	NM_001001346	NP_001001346	P56880	CLD20_HUMAN	claudin 20	148	Extracellular (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0				OV - Ovarian serous cystadenocarcinoma(155;7.82e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0114)		AGCAAACTTTCTGGATCTGAC	0.423													8	164	---	---	---	---	PASS	T	155597295	T	T	155597295	2	4	119	1	0	0	0	0	0	0	0	1	3482	912	32	2		2	CLDN20	6	155597295	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2765872	155597295	15517772	549	43722										
ARID1B	57492	broad.mit.edu	37	chr6	157511333	157511333	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caacaaggacccctttggggGaatgagaaaaggtacgtgta	13	7	0	1	rs149389876		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:157511333G>T	uc003qqn.2	+	15	3949	c.3797G>T	c.(3796-3798)GGA>GTA	p.G1266V	ARID1B_uc003qqo.2_Missense_Mutation_p.G1226V|ARID1B_uc003qqp.2_Missense_Mutation_p.G1213V	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1271					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		CCCTTTGGGGGAATGAGAAAA	0.562													4	137	---	---	---	---	PASS	T	157511333	T	T	157511333	3	4	119	1	0	0	0	0	1	0	0	0	914	1174	41	2	3909	2	ARID1B	6	157511333	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1914038	157511333	13603734	550	43723										
ARID1B	57492	broad.mit.edu	37	chr6	157527676	157527676	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agaacaacctgtttgttgttGaccgatctgacaagttgggg	12	7	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:157527676G>C	uc003qqn.2	+	20	5499	c.5347G>C	c.(5347-5349)GAC>CAC	p.D1783H	ARID1B_uc003qqo.2_Missense_Mutation_p.D1743H|ARID1B_uc003qqp.2_Missense_Mutation_p.D1730H	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1788					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		GTTTGTTGTTGACCGATCTGA	0.537													134	349	---	---	---	---	PASS	C	157527676	C	C	157527676	3	2	119	1	0	0	0	0	1	0	0	0	914	1290	45	2	5479	2	ARID1B	6	157527676	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	16343	157527676	13587391	551	43724										
IGF2R	3482	broad.mit.edu	37	chr6	160469408	160469408	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttttgctttgaaattttagtCtggcaaaatctgaaggtggc	10	5	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:160469408C>G	uc003qta.2	+	18	2495	c.2347C>G	c.(2347-2349)CTG>GTG	p.L783V		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	783	5.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		AAATTTTAGTCTGGCAAAATC	0.393													7	126	---	---	---	---	PASS	G	160469408	G	G	160469408	3	3	119	1	0	0	0	0	1	0	0	0	7576	927	32	2	2417	2	IGF2R	6	160469408	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2941732	160469408	10645659	552	43725										
C6orf118	168090	broad.mit.edu	37	chr6	165715321	165715321	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccaggagggccccgtccagGagggcctcctttcttttctt	11	14	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr6:165715321G>C	uc003qum.3	-	2	526	c.490C>G	c.(490-492)CCT>GCT	p.P164A	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	164											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		CCCCGTCCAGGAGGGCCTCCT	0.617													46	108	---	---	---	---	PASS	C	165715321	C	C	165715321	3	2	119	1	0	0	0	0	1	0	0	0	2323	1174	41	2	951	2	C6orf118	6	165715321	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5245913	165715321	5399746	553	43726										
PRKAR1B	5575	broad.mit.edu	37	chr7	590102	590102	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatgaagctgttgtaacgctGaatgttcctcttgaggatct	11	7	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:590102G>T	uc003siu.1	-	12	1217	c.1111C>A	c.(1111-1113)CAG>AAG	p.Q371K	PRKAR1B_uc003siv.2_Missense_Mutation_p.Q371K|PRKAR1B_uc003siw.1_Missense_Mutation_p.Q371K	NM_002735	NP_002726	P31321	KAP1_HUMAN	protein kinase, cAMP-dependent, regulatory, type	371	cAMP 2.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)		TTGTAACGCTGAATGTTCCTC	0.652													10	17	---	---	---	---	PASS	T	590102	T	T	590102	3	4	119	1	0	0	0	0	1	0	0	0	12504	1299	45	2	38	2	PRKAR1B	7	590102	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08		590102	158548561	554	43727										
C7orf50	84310	broad.mit.edu	37	chr7	1040111	1040111	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccgccgtgcacacaccttgtCactgtcatacatgtgcagca	8	15	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:1040111C>A	uc003sju.2	-	4	470	c.400G>T	c.(400-402)GAC>TAC	p.D134Y	C7orf50_uc003sjs.2_RNA|C7orf50_uc011jvt.1_Missense_Mutation_p.D134Y|C7orf50_uc011jvu.1_Missense_Mutation_p.D134Y	NM_032350	NP_115726	Q9BRJ6	CG050_HUMAN	hypothetical protein LOC84310	134							protein binding				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0216)|OV - Ovarian serous cystadenocarcinoma(56;1.3e-15)		CACACCTTGTCACTGTCATAC	0.612													12	23	---	---	---	---	PASS	A	1040111	A	A	1040111	3	1	119	1	0	0	0	0	1	0	0	0	2399	826	29	2	192	2	C7orf50	7	1040111	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	450009	1040111	158098552	555	43728										
CHST12	55501	broad.mit.edu	37	chr7	2472883	2472883	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgcgacccgctgcgcatcccGcgcgagcacgtgcacaacgc	12	19	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:2472883G>A	uc003smc.2	+	2	744	c.609G>A	c.(607-609)CCG>CCA	p.P203P	CHST12_uc003smd.2_Silent_p.P203P	NM_018641	NP_061111	Q9NRB3	CHSTC_HUMAN	carbohydrate sulfotransferase 12	203	Lumenal (Potential).				dermatan sulfate biosynthetic process	integral to Golgi membrane	3'-phosphoadenosine 5'-phosphosulfate binding|chondroitin 4-sulfotransferase activity|protein binding			kidney(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0847)|OV - Ovarian serous cystadenocarcinoma(56;2.25e-13)		TGCGCATCCCGCGCGAGCACG	0.657													35	68	---	---	---	---	PASS	A	2472883	A	A	2472883	2	1	119	1	0	0	0	0	0	0	0	1	3400	1074	38	1		1	CHST12	7	2472883	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1432772	2472883	156665780	556	43729										
GNA12	2768	broad.mit.edu	37	chr7	2771177	2771177	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttggtgcgcctgtcctccaTgaggacctggtcgtactcgc	13	13	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:2771177T>G	uc003smu.2	-	4	948	c.784A>C	c.(784-786)ATG>CTG	p.M262L	GNA12_uc011jwb.1_Missense_Mutation_p.M245L|GNA12_uc003smt.2_Missense_Mutation_p.M203L	NM_007353	NP_031379	Q03113	GNA12_HUMAN	guanine nucleotide binding protein (G protein)	262					G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|Rho protein signal transduction	brush border membrane|heterotrimeric G-protein complex	D5 dopamine receptor binding|G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.02e-13)		CTGTCCTCCATGAGGACCTGG	0.577													82	243	---	---	---	---	PASS	G	2771177	G	G	2771177	3	3	119	1	0	0	0	0	1	0	0	0	6500	1464	51	5	365	5	GNA12	7	2771177	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	298294	2771177	156367486	557	43730										
THSD7A	221981	broad.mit.edu	37	chr7	11485806	11485806	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccttgtactttcattcccagCaacacttccacttttccctc	2	17	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:11485806C>A	uc003ssf.3	-	13	3198	c.2946G>T	c.(2944-2946)TTG>TTT	p.L982F		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	982	TSP type-1 10.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TCATTCCCAGCAACACTTCCA	0.443										HNSCC(18;0.044)			16	310	---	---	---	---	PASS	A	11485806	A	A	11485806	3	1	119	1	0	0	0	0	1	0	0	0	15876	709	25	3	2087	3	THSD7A	7	11485806	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	8714629	11485806	147652857	558	43731										
KLHL7	55975	broad.mit.edu	37	chr7	23163419	23163419	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acgttgtgtgacgtgatcctCatggtccaggaaagaaagat	12	7	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:23163419C>T	uc003svs.3	+	2	437	c.144C>T	c.(142-144)CTC>CTT	p.L48L	KLHL7_uc003svr.3_Silent_p.L26L|KLHL7_uc011jys.1_Intron|KLHL7_uc011jyt.1_Intron|KLHL7_uc003svt.2_5'UTR|KLHL7_uc003svp.2_Silent_p.L26L|KLHL7_uc003svq.2_Silent_p.L48L|KLHL7_uc011jyu.1_Silent_p.L26L	NM_001031710	NP_001026880	Q8IXQ5	KLHL7_HUMAN	kelch-like 7 isoform 1	48	BTB.					Golgi apparatus|nucleolus|plasma membrane					0						ACGTGATCCTCATGGTCCAGG	0.368													8	123	---	---	---	---	PASS	T	23163419	T	T	23163419	2	4	119	1	0	0	0	0	0	0	0	1	8394	813	29	2		2	KLHL7	7	23163419	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	11677613	23163419	135975244	559	43732										
STK31	56164	broad.mit.edu	37	chr7	23854829	23854829	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccaaagtggatcagtttcatCtggtatgtgacctttttgac	9	8	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:23854829C>G	uc003sws.3	+	23	2894	c.2827C>G	c.(2827-2829)CTG>GTG	p.L943V	STK31_uc003swt.3_Missense_Mutation_p.L920V|STK31_uc011jze.1_Intron|STK31_uc010kuq.2_Missense_Mutation_p.L920V|STK31_uc003swv.1_Missense_Mutation_p.L109V	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	943	Protein kinase.						ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						TCAGTTTCATCTGGTATGTGA	0.338													4	97	---	---	---	---	PASS	G	23854829	G	G	23854829	3	3	119	1	0	0	0	0	1	0	0	0	15295	912	32	2	2917	2	STK31	7	23854829	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	691410	23854829	135283834	560	43733										
SNX10	29887	broad.mit.edu	37	chr7	26411513	26411513	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagagccatctgaattcagaAgacattgaggcgtgtgtttc	11	8	2	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:26411513A>T	uc003sxx.2	+	6	599	c.384A>T	c.(382-384)GAA>GAT	p.E128D	SNX10_uc011jzg.1_Missense_Mutation_p.E151D|SNX10_uc010kuu.2_Missense_Mutation_p.E128D|SNX10_uc010kuv.2_Missense_Mutation_p.E124D|SNX10_uc010kuw.2_Missense_Mutation_p.E44D	NM_013322	NP_037454	Q9Y5X0	SNX10_HUMAN	sorting nexin 10	128					cell communication|endosome organization|protein transport	extrinsic to endosome membrane	1-phosphatidylinositol binding				0						TGAATTCAGAAGACATTGAGG	0.383													155	139	---	---	---	---	PASS	T	26411513	T	T	26411513	3	4	119	1	0	0	0	0	1	0	0	0	14881	69	3	5	402	5	SNX10	7	26411513	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	2556684	26411513	132727150	561	43734										
HOXA3	3200	broad.mit.edu	37	chr7	27148056	27148056	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agatagccaccggctccgggGggcacggggctgcgacttgg	18	12	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:27148056G>A	uc011jzl.1	-	3	1010	c.810C>T	c.(808-810)CCC>CCT	p.P270P	HOXA3_uc011jzk.1_Silent_p.P112P|HOXA3_uc003syk.2_Silent_p.P270P	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	270					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						CGGCTCCGGGGGGCACGGGGC	0.617													70	74	---	---	---	---	PASS	A	27148056	A	A	27148056	2	1	119	1	0	0	0	0	0	0	0	1	7293	1219	43	3		3	HOXA3	7	27148056	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	736543	27148056	131990607	562	43735										
CHN2	1124	broad.mit.edu	37	chr7	29407588	29407588	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcacctcgtcccaagagaatCatttgtcctcgggaggtcag	11	12	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:29407588C>G	uc003szz.2	+	3	566	c.129C>G	c.(127-129)ATC>ATG	p.I43M	CHN2_uc011jzs.1_Missense_Mutation_p.I118M|CHN2_uc010kva.2_Intron|CHN2_uc010kvb.2_RNA|CHN2_uc010kvc.2_Intron|CHN2_uc011jzt.1_Missense_Mutation_p.I56M|CHN2_uc010kvd.2_Missense_Mutation_p.I43M|CHN2_uc011jzu.1_Missense_Mutation_p.I28M	NM_004067	NP_004058	P52757	CHIO_HUMAN	beta chimerin isoform 2	43					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|membrane	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)	2						CCAAGAGAATCATTTGTCCTC	0.403													7	104	---	---	---	---	PASS	G	29407588	G	G	29407588	3	3	119	1	0	0	0	0	1	0	0	0	3363	816	29	2	139	2	CHN2	7	29407588	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2259532	29407588	129731075	563	43736										
FAM188B	84182	broad.mit.edu	37	chr7	30890105	30890105	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agatgcccaccggacccgctGcctcgtcctggccctcgcag	11	19	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:30890105G>A	uc003tbt.2	+	10	1558	c.1481G>A	c.(1480-1482)TGC>TAC	p.C494Y	FAM188B_uc010kwe.2_Missense_Mutation_p.C465Y|AQP1_uc011kac.1_5'Flank	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	494											0						CGGACCCGCTGCCTCGTCCTG	0.602													4	30	---	---	---	---	PASS	A	30890105	A	A	30890105	3	1	119	1	0	0	0	0	1	0	0	0	5515	1319	46	3	1519	3	FAM188B	7	30890105	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1482517	30890105	128248558	564	43737										
BMPER	168667	broad.mit.edu	37	chr7	34125511	34125511	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagatggaaacttcaagtttGatgtggatgactttgctgaa	12	4	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:34125511G>C	uc011kap.1	+	13	1666	c.1552G>C	c.(1552-1554)GAT>CAT	p.D518H		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	518	VWFD.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						CTTCAAGTTTGATGTGGATGA	0.483													12	107	---	---	---	---	PASS	C	34125511	C	C	34125511	3	2	119	1	0	0	0	0	1	0	0	0	1468	1290	45	2	1602	2	BMPER	7	34125511	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3235406	34125511	125013152	565	43738										
CDK13	8621	broad.mit.edu	37	chr7	40102671	40102671	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacctatatttcaagcaaatCaggaacttgcacaactagaa	5	9	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:40102671C>G	uc003thh.3	+	9	3034	c.2752C>G	c.(2752-2754)CAG>GAG	p.Q918E	CDK13_uc003thi.3_Missense_Mutation_p.Q918E|CDK13_uc011kbf.1_Missense_Mutation_p.Q304E|CDK13_uc003thj.2_Translation_Start_Site	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	918	Protein kinase.				alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						TCAAGCAAATCAGGAACTTGC	0.353													61	82	---	---	---	---	PASS	G	40102671	G	G	40102671	3	3	119	1	0	0	0	0	1	0	0	0	3129	827	29	2	2786	2	CDK13	7	40102671	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5977160	40102671	119035992	566	43739										
CDK13	8621	broad.mit.edu	37	chr7	40134200	40134200	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagtactgcttcatctcattCtggtggtccacctcagcctt	7	14	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:40134200C>T	uc003thh.3	+	14	4442	c.4160C>T	c.(4159-4161)TCT>TTT	p.S1387F	CDK13_uc003thi.3_Missense_Mutation_p.S1327F|CDK13_uc003thj.2_Missense_Mutation_p.S438F|CDK13_uc003thk.2_Missense_Mutation_p.S320F	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	1387					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						TCATCTCATTCTGGTGGTCCA	0.443													191	260	---	---	---	---	PASS	T	40134200	T	T	40134200	3	4	119	1	0	0	0	0	1	0	0	0	3129	913	32	2	4214	2	CDK13	7	40134200	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	31529	40134200	119004463	567	43740										
ADCY1	107	broad.mit.edu	37	chr7	45688386	45688386	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agatgggactcgacatgattGataccatcacgtaagtaccc	9	10	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:45688386G>A	uc003tne.3	+	5	1156	c.1138G>A	c.(1138-1140)GAT>AAT	p.D380N	ADCY1_uc003tnd.2_Missense_Mutation_p.D155N	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	380	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CGACATGATTGATACCATCAC	0.567													4	70	---	---	---	---	PASS	A	45688386	A	A	45688386	3	1	119	1	0	0	0	0	1	0	0	0	292	1290	45	2	1156	2	ADCY1	7	45688386	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5554186	45688386	113450277	568	43741										
PKD1L1	168507	broad.mit.edu	37	chr7	47840425	47840425	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtggtagaacccacatagagAgcagaaatcggtgcaggtgg	15	7	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:47840425A>C	uc003tny.1	-	54	8015	c.8015T>G	c.(8014-8016)CTC>CGC	p.L2672R	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2672	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CCACATAGAGAGCAGAAATCG	0.552													23	137	---	---	---	---	PASS	C	47840425	C	C	47840425	3	2	119	1	0	0	0	0	1	0	0	0	11964	304	11	5	550	5	PKD1L1	7	47840425	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	2152039	47840425	111298238	569	43742										
EGFR	1956	broad.mit.edu	37	chr7	55220237	55220237	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggaacctttgctctttttcAgtgaccaaaatcatctgtgc	8	10	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:55220237A>G	uc003tqk.2	+	6	875	c.629_splice	c.e6-2	p.L210_splice	EGFR_uc003tqh.2_Splice_Site_p.L210_splice|EGFR_uc003tqi.2_Splice_Site_p.L210_splice|EGFR_uc003tqj.2_Splice_Site_p.L210_splice|EGFR_uc010kzg.1_Splice_Site_p.L165_splice|EGFR_uc011kco.1_Splice_Site_p.L157_splice|EGFR_uc003tql.1_RNA	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a						activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	GCTCTTTTTCAGTGACCAAAA	0.547		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			32	754	---	---	---	---	PASS	G	55220237	G	G	55220237	5	3	119	1	0	0	0	0	0	0	1	0	4967	202	7	5	649	5	EGFR	7	55220237	Splice_Site	SNP	A	TCGA-60-2698-01A-01D-1522-08	7379812	55220237	103918426	570	43743										
SUMF2	25870	broad.mit.edu	37	chr7	56142379	56142379	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgtgcttggcggggaaaacGactgcccacggaggaagagt	16	9	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:56142379G>C	uc003trv.2	+	5	573	c.542G>C	c.(541-543)CGA>CCA	p.R181P	PSPH_uc003trj.2_Intron|SUMF2_uc011kcv.1_Intron|SUMF2_uc011kcw.1_Missense_Mutation_p.R181P|SUMF2_uc011kcx.1_Intron|SUMF2_uc003trt.2_Missense_Mutation_p.R74P|SUMF2_uc011kcy.1_Missense_Mutation_p.R166P|SUMF2_uc011kcz.1_Intron|SUMF2_uc003tru.2_Intron|SUMF2_uc011kda.1_Intron|SUMF2_uc003trx.2_Intron	NM_001130069	NP_001123541	Q8NBJ7	SUMF2_HUMAN	sulfatase modifying factor 2 isoform e	162						endoplasmic reticulum lumen	metal ion binding			ovary(1)|skin(1)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CGGGGAAAACGACTGCCCACG	0.587											OREG0018081	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	371	---	---	---	---	PASS	C	56142379	C	C	56142379	3	2	119	1	0	0	0	0	1	0	0	0	15383	1058	37	2	560	2	SUMF2	7	56142379	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	922142	56142379	102996284	571	43744										
ZNF479	90827	broad.mit.edu	37	chr7	57188291	57188291	+	Silent	SNP	G	T	T													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtgctgaggagcgcctaaaGgcttggccacattcttcaca							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:57188291G>T	uc010kzo.2	-	5	1102	c.831C>A	c.(829-831)GCC>GCA	p.A277A		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	277	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			AGCGCCTAAAGGCTTGGCCAC	0.453													34	132	---	---	---	---	PASS	T	57188291	T	T	57188291	2	4	119	1	0	0	0	0	0	0	0	1	17930	987	35	3		3	ZNF479	7	57188291	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1045912	57188291	101950372	572	43745	818	2								
ZNF479	90827	broad.mit.edu	37	chr7	57188292	57188292	+	Missense_Mutation	SNP	G	T	T													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgctgaggagcgcctaaagGcttggccacattcttcacac							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:57188292G>T	uc010kzo.2	-	5	1101	c.830C>A	c.(829-831)GCC>GAC	p.A277D		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	277	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			GCGCCTAAAGGCTTGGCCACA	0.458													34	129	---	---	---	---	PASS	T	57188292	T	T	57188292	3	4	119	1	0	0	0	0	1	0	0	0	17930	1203	42	3	748	3	ZNF479	7	57188292	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1	57188292	101950371	573	43746	818	2								
ZNF107	51427	broad.mit.edu	37	chr7	64167219	64167219	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcacaacttactaggcataaGataattcatactgaagagaa	6	7	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:64167219G>A	uc003ttd.2	+	7	1323	c.537G>A	c.(535-537)AAG>AAA	p.K179K	ZNF107_uc003tte.2_Silent_p.K179K	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	179	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				CTAGGCATAAGATAATTCATA	0.373													7	128	---	---	---	---	PASS	A	64167219	A	A	64167219	2	1	119	1	0	0	0	0	0	0	0	1	17712	933	33	2		2	ZNF107	7	64167219	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	6978927	64167219	94971444	574	43747										
KCTD7	154881	broad.mit.edu	37	chr7	66104107	66104107	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgcctggtcacggacctctCggcccagggtctcaccgtgg	13	16	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:66104107C>T	uc003tve.2	+	4	920	c.758C>T	c.(757-759)TCG>TTG	p.S253L	RABGEF1_uc003tvf.2_Intron|KCTD7_uc003tvd.3_Missense_Mutation_p.S253L	NM_153033	NP_694578	Q96MP8	KCTD7_HUMAN	potassium channel tetramerisation domain	253						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)	3						ACGGACCTCTCGGCCCAGGGT	0.567													20	214	---	---	---	---	PASS	T	66104107	T	T	66104107	3	4	119	1	0	0	0	0	1	0	0	0	8114	893	31	2	772	2	KCTD7	7	66104107	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1936888	66104107	93034556	575	43748										
POM121	9883	broad.mit.edu	37	chr7	72416716	72416716	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccattggtgcgggatccaaGaccccaggggctcgacagcg	14	13	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:72416716G>C	uc003twj.2	+	15	3875	c.2898G>C	c.(2896-2898)AAG>AAC	p.K966N	POM121_uc010lam.1_Intron	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	1231	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				CGGGATCCAAGACCCCAGGGG	0.582													13	87	---	---	---	---	PASS	C	72416716	C	C	72416716	3	2	119	1	0	0	0	0	1	0	0	0	12239	933	33	2	2944	2	POM121	7	72416716	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6312609	72416716	86721947	576	43749										
POM121C	100101267	broad.mit.edu	37	chr7	75066877	75066877	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccacttgtgtaagcgcctgtCaaggagctcatggaagagct	12	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:75066877C>G	uc010lde.1	-	5	1122	c.1122G>C	c.(1120-1122)TTG>TTC	p.L374F	POM121C_uc003udk.3_Missense_Mutation_p.L132F			A8CG34	P121C_HUMAN	Homo sapiens POM121-2 mRNA for nuclear pore membrane protein 121-2, partial cds.	374	Required for targeting to the nucleus and nuclear pore complex.|Pore side (Potential).|Ser-rich.				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						AAGCGCCTGTCAAGGAGCTCA	0.507													67	471	---	---	---	---	PASS	G	75066877	G	G	75066877	3	3	119	1	0	0	0	0	1	0	0	0	12240	825	29	2	2603	2	POM121C	7	75066877	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2650161	75066877	84071786	577	43750										
POR	5447	broad.mit.edu	37	chr7	75608797	75608797	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catcatcgtgttctacggctCccagacggggactgcagagg	13	12	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:75608797C>G	uc003udy.2	+	4	348	c.266C>G	c.(265-267)TCC>TGC	p.S89C	POR_uc011kgb.1_RNA|POR_uc011kgc.1_5'Flank|POR_uc011kgd.1_5'Flank|POR_uc011kge.1_5'Flank	NM_000941	NP_000932	P16435	NCPR_HUMAN	cytochrome P450 reductase	86	Flavodoxin-like.				cellular organofluorine metabolic process|positive regulation of monooxygenase activity	endoplasmic reticulum membrane	iron ion binding|NADPH-hemoprotein reductase activity			central_nervous_system(1)	1					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Lipoic Acid(DB00166)|Menadione(DB00170)|Methoxyflurane(DB01028)|Mitomycin(DB00305)|Nilutamide(DB00665)	TTCTACGGCTCCCAGACGGGG	0.627													11	24	---	---	---	---	PASS	G	75608797	G	G	75608797	3	3	119	1	0	0	0	0	1	0	0	0	12257	855	30	2	276	2	POR	7	75608797	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	541920	75608797	83529866	578	43751										
CCDC146	57639	broad.mit.edu	37	chr7	76871150	76871150	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccaaaatgagagaacaacttCtcaagtatcaaaatgaatat	5	7	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:76871150C>G	uc003uga.2	+	4	509	c.382C>G	c.(382-384)CTC>GTC	p.L128V		NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	128	Potential.									ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				AGAACAACTTCTCAAGTATCA	0.398													20	235	---	---	---	---	PASS	G	76871150	G	G	76871150	3	3	119	1	0	0	0	0	1	0	0	0	2780	913	32	2	392	2	CCDC146	7	76871150	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1262353	76871150	82267513	579	43752										
RSBN1L	222194	broad.mit.edu	37	chr7	77408043	77408043	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcactcagaggaggacacttCtcagaatacagctactcatg	8	11	4	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:77408043C>T	uc010ldt.1	+	8	2143	c.2099C>T	c.(2098-2100)TCT>TTT	p.S700F	RSBN1L_uc003ugm.2_Missense_Mutation_p.S482F	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	700						nucleus				ovary(1)	1						GAGGACACTTCTCAGAATACA	0.418													13	427	---	---	---	---	PASS	T	77408043	T	T	77408043	3	4	119	1	0	0	0	0	1	0	0	0	13697	913	32	2	2129	2	RSBN1L	7	77408043	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	536893	77408043	81730620	580	43753										
CD36	948	broad.mit.edu	37	chr7	80300319	80300319	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctatgctgtatttgaatccgAcgttaatctgaaaggaatcc	8	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:80300319A>C	uc003uhc.2	+	13	1529	c.845A>C	c.(844-846)GAC>GCC	p.D282A	CD36_uc003uhd.3_Missense_Mutation_p.D282A|CD36_uc011kgv.1_Missense_Mutation_p.D206A|CD36_uc003uhe.3_Missense_Mutation_p.D282A|CD36_uc003uhf.3_Missense_Mutation_p.D282A|CD36_uc003uhg.3_Missense_Mutation_p.D282A|CD36_uc003uhh.3_Missense_Mutation_p.D282A	NM_001127444	NP_001120916	P16671	CD36_HUMAN	CD36 antigen	282	Extracellular (Potential).				cell adhesion|cGMP-mediated signaling|cholesterol transport|lipid metabolic process|lipid storage|lipoprotein transport|low-density lipoprotein particle clearance|nitric oxide mediated signal transduction|plasma membrane long-chain fatty acid transport|platelet activation|platelet degranulation|positive regulation of cell-matrix adhesion|positive regulation of macrophage derived foam cell differentiation	integral to plasma membrane|membrane fraction|platelet alpha granule membrane	lipid binding|low-density lipoprotein receptor activity|thrombospondin receptor activity|transforming growth factor beta binding			ovary(1)	1						TTTGAATCCGACGTTAATCTG	0.383													227	344	---	---	---	---	PASS	C	80300319	C	C	80300319	3	2	119	1	0	0	0	0	1	0	0	0	3007	275	10	5	875	5	CD36	7	80300319	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	2892276	80300319	78838344	581	43754										
SEMA3C	10512	broad.mit.edu	37	chr7	80387646	80387646	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agccgagtgtttagtgctcaCcgtttcccagttgggtagaa	12	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:80387646C>T	uc003uhj.2	-	15	2205	c.1643_splice	c.e15+1	p.R548_splice	SEMA3C_uc011kgw.1_Splice_Site_p.R566_splice	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor						immune response|response to drug	membrane	receptor activity			ovary(1)	1						TTAGTGCTCACCGTTTCCCAG	0.473													15	221	---	---	---	---	PASS	T	80387646	T	T	80387646	5	4	119	1	0	0	0	0	0	0	1	0	14026	521	18	3	627	3	SEMA3C	7	80387646	Splice_Site	SNP	C	TCGA-60-2698-01A-01D-1522-08	87327	80387646	78751017	582	43755										
PCLO	27445	broad.mit.edu	37	chr7	82453631	82453631	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gactgctggctgctctgactGgaatgagacttgccatgatc	12	10	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:82453631G>A	uc003uhx.2	-	19	14806	c.14517C>T	c.(14515-14517)TCC>TCT	p.S4839S	PCLO_uc003uhv.2_Silent_p.S4839S|PCLO_uc003uht.1_Silent_p.S281S|PCLO_uc003uhu.1_Silent_p.S260S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4701	Ser-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TGCTCTGACTGGAATGAGACT	0.423													12	65	---	---	---	---	PASS	A	82453631	A	A	82453631	2	1	119	1	0	0	0	0	0	0	0	1	11583	1335	47	3		3	PCLO	7	82453631	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	2065985	82453631	76685032	583	43756										
PCLO	27445	broad.mit.edu	37	chr7	82580618	82580618	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcaaatgtagagggtgttgGagttgctactgaagaataga	14	3	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:82580618G>C	uc003uhx.2	-	6	9575	c.9286C>G	c.(9286-9288)CCA>GCA	p.P3096A	PCLO_uc003uhv.2_Missense_Mutation_p.P3096A|PCLO_uc010lec.2_Missense_Mutation_p.P61A	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3027					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GAGGGTGTTGGAGTTGCTACT	0.473													3	47	---	---	---	---	PASS	C	82580618	C	C	82580618	3	2	119	1	0	0	0	0	1	0	0	0	11583	1174	41	2	6239	2	PCLO	7	82580618	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	126987	82580618	76558045	584	43757										
PCLO	27445	broad.mit.edu	37	chr7	82785233	82785233	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttaattttttctggttgttGagaagatattgatttgggag	11	1	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:82785233G>C	uc003uhx.2	-	2	1013	c.724C>G	c.(724-726)CAA>GAA	p.Q242E	PCLO_uc003uhv.2_Missense_Mutation_p.Q242E	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	242	Gln-rich.|Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TCTGGTTGTTGAGAAGATATT	0.478													3	115	---	---	---	---	PASS	C	82785233	C	C	82785233	3	2	119	1	0	0	0	0	1	0	0	0	11583	1299	45	2	14817	2	PCLO	7	82785233	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	204615	82785233	76353430	585	43758										
KIAA1324L	222223	broad.mit.edu	37	chr7	86539300	86539300	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgttatattgttggtacaGagagccatcttcttccccta	7	10	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:86539300G>A	uc011kha.1	-	16	2372	c.2187C>T	c.(2185-2187)CTC>CTT	p.L729L	KIAA1324L_uc003uif.1_Silent_p.L489L|KIAA1324L_uc011kgz.1_Silent_p.L615L|KIAA1324L_uc003uie.2_Silent_p.L562L	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	729	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					TGTTGGTACAGAGAGCCATCT	0.363													9	140	---	---	---	---	PASS	A	86539300	A	A	86539300	2	1	119	1	0	0	0	0	0	0	0	1	8224	929	33	2		2	KIAA1324L	7	86539300	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	3754067	86539300	72599363	586	43759										
CROT	54677	broad.mit.edu	37	chr7	86990850	86990850	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tagaaagaggaagtataactCtttggcataacttgaactac	8	6	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:86990850C>T	uc003uit.2	+	5	630	c.385C>T	c.(385-387)CTT>TTT	p.L129F	CROT_uc003uiu.2_Missense_Mutation_p.L157F	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	129					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	AAGTATAACTCTTTGGCATAA	0.413													11	203	---	---	---	---	PASS	T	86990850	T	T	86990850	3	4	119	1	0	0	0	0	1	0	0	0	3894	913	32	2	483	2	CROT	7	86990850	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	451550	86990850	72147813	587	43760										
ABCB1	5243	broad.mit.edu	37	chr7	87174204	87174204	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acggacactcctacgagttgAtctttttcttattagactgg	8	9	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:87174204A>T	uc003uiz.1	-	17	2417	c.1999T>A	c.(1999-2001)TCA>ACA	p.S667T	ABCB1_uc011khc.1_Missense_Mutation_p.S603T	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	667	Cytoplasmic (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	CTACGAGTTGATCTTTTTCTT	0.393													7	290	---	---	---	---	PASS	T	87174204	T	T	87174204	3	4	119	1	0	0	0	0	1	0	0	0	40	333	12	5	1895	5	ABCB1	7	87174204	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	183354	87174204	71964459	588	43761										
ABCB1	5243	broad.mit.edu	37	chr7	87190643	87190643	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aattgctgccaagacctcttCagctactgctccagcttttg	7	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:87190643C>G	uc003uiz.1	-	9	1181	c.763G>C	c.(763-765)GAA>CAA	p.E255Q	ABCB1_uc011khc.1_Missense_Mutation_p.E191Q	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	255	ABC transmembrane type-1 1.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	AAGACCTCTTCAGCTACTGCT	0.328													19	88	---	---	---	---	PASS	G	87190643	G	G	87190643	3	3	119	1	0	0	0	0	1	0	0	0	40	835	29	2	3163	2	ABCB1	7	87190643	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	16439	87190643	71948020	589	43762										
ABCB1	5243	broad.mit.edu	37	chr7	87195509	87195509	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aatgttgccattgactgaaaGaacattccaattttgtcacc	6	9	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:87195509G>C	uc003uiz.1	-	8	997	c.579C>G	c.(577-579)TTC>TTG	p.F193L	ABCB1_uc011khc.1_Missense_Mutation_p.F129L	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	193	Helical; (Potential).|ABC transmembrane type-1 1.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	TTGACTGAAAGAACATTCCAA	0.368													41	162	---	---	---	---	PASS	C	87195509	C	C	87195509	3	2	119	1	0	0	0	0	1	0	0	0	40	933	33	2	3351	2	ABCB1	7	87195509	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4866	87195509	71943154	590	43763										
SLC25A40	55972	broad.mit.edu	37	chr7	87470972	87470972	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgactttcatatgtccaaaGttgtgtctgcttttgtgttt	8	6	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:87470972G>C	uc003uje.2	-	10	1150	c.799C>G	c.(799-801)CTT>GTT	p.L267V		NM_018843	NP_061331	Q8TBP6	S2540_HUMAN	mitochondrial carrier family protein	267	Solcar 3.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			haematopoietic_and_lymphoid_tissue(1)	1	Esophageal squamous(14;0.00202)					TATGTCCAAAGTTGTGTCTGC	0.264													6	29	---	---	---	---	PASS	C	87470972	C	C	87470972	3	2	119	1	0	0	0	0	1	0	0	0	14505	1029	36	4	229	4	SLC25A40	7	87470972	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	275463	87470972	71667691	591	43764										
ZNF804B	219578	broad.mit.edu	37	chr7	88963232	88963232	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaacacgactctattgatgaGacactagaagattcaattgg	8	7	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:88963232G>C	uc011khi.1	+	4	1474	c.936G>C	c.(934-936)GAG>GAC	p.E312D		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	312						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CTATTGATGAGACACTAGAAG	0.343										HNSCC(36;0.09)			10	116	---	---	---	---	PASS	C	88963232	C	C	88963232	3	2	119	1	0	0	0	0	1	0	0	0	18168	933	33	2	950	2	ZNF804B	7	88963232	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1492260	88963232	70175431	592	43765										
CLDN12	9069	broad.mit.edu	37	chr7	90042442	90042442	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tactgtgagcctctccccatCtatctgggtcatcttttata	6	12	5	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:90042442C>G	uc003ukp.2	+	5	1088	c.452C>G	c.(451-453)TCT>TGT	p.S151C	CLDN12_uc003ukq.2_Missense_Mutation_p.S151C|CLDN12_uc010leq.2_Missense_Mutation_p.S151C|CLDN12_uc003ukr.2_Missense_Mutation_p.S151C|CLDN12_uc003uks.2_Missense_Mutation_p.S151C	NM_012129	NP_036261	P56749	CLD12_HUMAN	claudin 12	151	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CTCTCCCCATCTATCTGGGTC	0.483													21	383	---	---	---	---	PASS	G	90042442	G	G	90042442	3	3	119	1	0	0	0	0	1	0	0	0	3474	913	32	2	454	2	CLDN12	7	90042442	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1079210	90042442	69096221	593	43766										
AKAP9	10142	broad.mit.edu	37	chr7	91736685	91736685	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	accaagacatactacgtatcGctcaagatcagatctggact	7	11	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:91736685G>T	uc003ulg.2	+	48	11720	c.11495G>T	c.(11494-11496)CGC>CTC	p.R3832L	AKAP9_uc003ulf.2_Missense_Mutation_p.R3824L|AKAP9_uc003uli.2_Missense_Mutation_p.R3455L|AKAP9_uc003ulj.2_Missense_Mutation_p.R1602L|AKAP9_uc003ull.2_Missense_Mutation_p.R728L	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3836					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			ACTACGTATCGCTCAAGATCA	0.363			T	BRAF	papillary thyroid								5	249	---	---	---	---	PASS	T	91736685	T	T	91736685	3	4	119	1	0	0	0	0	1	0	0	0	459	1087	38	1	11685	1	AKAP9	7	91736685	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1694243	91736685	67401978	594	43767										
CYP51A1	1595	broad.mit.edu	37	chr7	91755662	91755662	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctgtgctaccttttcattGagttgacttctgatttcctt	7	9	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:91755662G>C	uc003ulm.3	-	5	837	c.675C>G	c.(673-675)CTC>CTG	p.L225L	CYP51A1_uc011khn.1_Silent_p.L120L|CYP51A1_uc003uln.3_Silent_p.L162L	NM_000786	NP_000777	Q16850	CP51A_HUMAN	cytochrome P450, family 51, subfamily A,	219					cholesterol biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|sterol 14-demethylase activity				0	all_cancers(62;2.16e-09)|all_epithelial(64;3.86e-08)|Breast(17;0.00206)|all_lung(186;0.169)|all_hematologic(106;0.215)|Lung NSC(181;0.227)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)		Fluconazole(DB00196)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Miconazole(DB01110)|Terconazole(DB00251)	CCTTTTCATTGAGTTGACTTC	0.423													27	62	---	---	---	---	PASS	C	91755662	C	C	91755662	2	2	119	1	0	0	0	0	0	0	0	1	4195	1277	45	2		2	CYP51A1	7	91755662	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	18977	91755662	67383001	595	43768										
SAMD9L	219285	broad.mit.edu	37	chr7	92764686	92764686	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttctgtgtttgtgagagctTtgaactcatgtattggatca	10	5	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:92764686T>A	uc003umh.1	-	5	1815	c.599A>T	c.(598-600)AAA>ATA	p.K200I	SAMD9L_uc003umj.1_Missense_Mutation_p.K200I|SAMD9L_uc003umi.1_Missense_Mutation_p.K200I|SAMD9L_uc010lfb.1_Missense_Mutation_p.K200I|SAMD9L_uc003umk.1_Missense_Mutation_p.K200I|SAMD9L_uc010lfc.1_Missense_Mutation_p.K200I|SAMD9L_uc010lfd.1_Missense_Mutation_p.K200I|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	200										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			TGTGAGAGCTTTGAACTCATG	0.413													112	261	---	---	---	---	PASS	A	92764686	A	A	92764686	3	1	119	1	0	0	0	0	1	0	0	0	13827	1841	64	5	4159	5	SAMD9L	7	92764686	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	1009024	92764686	66373977	596	43769										
NPTX2	4885	broad.mit.edu	37	chr7	98254457	98254457	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagtggggcaacaaccccatCgagctgctcatcaacgacaa	10	13	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:98254457C>T	uc003upl.2	+	3	1044	c.867C>T	c.(865-867)ATC>ATT	p.I289I		NM_002523	NP_002514	P47972	NPTX2_HUMAN	neuronal pentraxin II precursor	289	Pentaxin.				synaptic transmission	extracellular region	metal ion binding|sugar binding			central_nervous_system(2)|skin(1)	3	all_cancers(62;2.28e-09)|all_epithelial(64;4.86e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0128)|all_lung(186;0.0142)		STAD - Stomach adenocarcinoma(171;0.215)			ACAACCCCATCGAGCTGCTCA	0.662													12	103	---	---	---	---	PASS	T	98254457	T	T	98254457	2	4	119	1	0	0	0	0	0	0	0	1	10603	874	31	2		2	NPTX2	7	98254457	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	5489771	98254457	60884206	597	43770										
TRRAP	8295	broad.mit.edu	37	chr7	98554094	98554094	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catcctccattaagagaggcCtgtccgtggattctgcccag	10	13	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:98554094C>A	uc003upp.2	+	42	6357	c.6148C>A	c.(6148-6150)CTG>ATG	p.L2050M	TRRAP_uc011kis.1_Missense_Mutation_p.L2032M|TRRAP_uc003upr.2_Missense_Mutation_p.L1749M	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2050	Interaction with TP53.|Bipartite nuclear localization signal (Potential).				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TAAGAGAGGCCTGTCCGTGGA	0.502													4	231	---	---	---	---	PASS	A	98554094	A	A	98554094	3	1	119	1	0	0	0	0	1	0	0	0	16598	680	24	3	6252	3	TRRAP	7	98554094	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	299637	98554094	60584569	598	43771										
CYP3A5	1577	broad.mit.edu	37	chr7	99250244	99250244	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaagagcataagttggaatCaccaccattgaccctttggg	10	9	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:99250244C>T	uc003urq.2	-	11	1272	c.1185G>A	c.(1183-1185)GTG>GTA	p.V395V	ZNF498_uc003urn.2_Intron|CYP3A5_uc003urp.2_Silent_p.V215V|CYP3A5_uc003urr.2_Silent_p.V282V|CYP3A5_uc011kiy.1_Silent_p.V385V|CYP3A5_uc003urs.2_Silent_p.V43V|CYP3A5_uc010lgg.2_Intron	NM_000777	NP_000768	P20815	CP3A5_HUMAN	cytochrome P450, family 3, subfamily A,	395					alkaloid catabolic process|drug catabolic process|oxidative demethylation|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0	all_epithelial(64;2.77e-08)|Lung NSC(181;0.00396)|all_lung(186;0.00659)|Esophageal squamous(72;0.0166)				Alfentanil(DB00802)|Clopidogrel(DB00758)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Indinavir(DB00224)|Irinotecan(DB00762)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Mephenytoin(DB00532)|Midazolam(DB00683)|Mifepristone(DB00834)|Phenytoin(DB00252)|Quinine(DB00468)|Saquinavir(DB01232)|Tacrolimus(DB00864)|Troleandomycin(DB01361)|Verapamil(DB00661)|Vincristine(DB00541)	AAGTTGGAATCACCACCATTG	0.458													50	162	---	---	---	---	PASS	T	99250244	T	T	99250244	2	4	119	1	0	0	0	0	0	0	0	1	4180	813	29	2		2	CYP3A5	7	99250244	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	696150	99250244	59888419	599	43772										
MBLAC1	255374	broad.mit.edu	37	chr7	99725743	99725743	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcgagtgttaagggaagcctCgcagcccgagacggagggtg	17	9	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:99725743C>T	uc003utp.2	+	2	1124	c.725C>T	c.(724-726)TCG>TTG	p.S242L		NM_203397	NP_981942	A4D2B0	MBLC1_HUMAN	metallo-beta-lactamase domain containing 1	242							hydrolase activity|metal ion binding			breast(1)	1						AGGGAAGCCTCGCAGCCCGAG	0.677													7	16	---	---	---	---	PASS	T	99725743	T	T	99725743	3	4	119	1	0	0	0	0	1	0	0	0	9351	893	31	2	727	2	MBLAC1	7	99725743	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	475499	99725743	59412920	600	43773										
STAG3	10734	broad.mit.edu	37	chr7	99780374	99780374	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acatccaaagaaagggtcccGagtggtacatcgtcatagcc	10	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:99780374G>A	uc003utx.1	+	4	403	c.248G>A	c.(247-249)CGA>CAA	p.R83Q	STAG3_uc010lgs.1_5'UTR|STAG3_uc011kjk.1_Missense_Mutation_p.R83Q	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	83					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AAAGGGTCCCGAGTGGTACAT	0.403													23	455	---	---	---	---	PASS	A	99780374	A	A	99780374	3	1	119	1	0	0	0	0	1	0	0	0	15243	1058	37	2	258	2	STAG3	7	99780374	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	54631	99780374	59358289	601	43774										
GATS	352954	broad.mit.edu	37	chr7	99869507	99869507	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttgatcaggcccgtaggtgAacagcgggatactctccttg	12	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:99869507A>T	uc003uua.3	-	1	349	c.100T>A	c.(100-102)TCA>ACA	p.S34T	GATS_uc003uty.3_RNA|GATS_uc003utz.3_RNA|GATS_uc010lgt.2_RNA|GATS_uc010lgu.2_RNA	NM_178831	NP_849153	Q8NAP1	GATS_HUMAN	GATS, stromal antigen 3 opposite strand	34											0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CCCGTAGGTGAACAGCGGGAT	0.667													24	55	---	---	---	---	PASS	T	99869507	T	T	99869507	3	4	119	1	0	0	0	0	1	0	0	0	6264	246	9	5	407	5	GATS	7	99869507	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	89133	99869507	59269156	602	43775										
MLL5	55904	broad.mit.edu	37	chr7	104752711	104752711	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagaaacttttatccagcagCacagaaccttccagccaata	5	12	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:104752711C>T	uc003vcm.2	+	27	5042	c.4508C>T	c.(4507-4509)GCA>GTA	p.A1503V	MLL5_uc010ljc.2_Missense_Mutation_p.A1503V|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Missense_Mutation_p.A237V	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1503	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						TATCCAGCAGCACAGAACCTT	0.463													11	71	---	---	---	---	PASS	T	104752711	T	T	104752711	3	4	119	1	0	0	0	0	1	0	0	0	9624	710	25	3	4606	3	MLL5	7	104752711	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4883204	104752711	54385952	603	43776										
PIK3CG	5294	broad.mit.edu	37	chr7	106513217	106513217	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtgagatagcccagtccagAcactatcagcagaggttcgc	11	11	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:106513217A>T	uc003vdv.3	+	4	2206	c.2121A>T	c.(2119-2121)AGA>AGT	p.R707S	PIK3CG_uc003vdu.2_Missense_Mutation_p.R707S|PIK3CG_uc003vdw.2_Missense_Mutation_p.R707S	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	707					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						CCCAGTCCAGACACTATCAGC	0.443													50	106	---	---	---	---	PASS	T	106513217	T	T	106513217	3	4	119	1	0	0	0	0	1	0	0	0	11916	272	10	5	2131	5	PIK3CG	7	106513217	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	1760506	106513217	52625446	604	43777										
ASZ1	136991	broad.mit.edu	37	chr7	117003719	117003719	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccgcatatggtaatagctgtCctcttcaaaattctactatt	5	10	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:117003719C>T	uc003vjb.2	-	13	1422	c.1359G>A	c.(1357-1359)AGG>AGA	p.R453R	ASZ1_uc011kno.1_Silent_p.R444R|ASZ1_uc011knp.1_Silent_p.R245R	NM_130768	NP_570124	Q8WWH4	ASZ1_HUMAN	ankyrin repeat, SAM and basic leucine zipper	453					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	signal transducer activity			central_nervous_system(2)|ovary(1)	3	Lung NSC(10;0.00156)|all_lung(10;0.00175)		STAD - Stomach adenocarcinoma(10;0.000512)			TAATAGCTGTCCTCTTCAAAA	0.313													49	103	---	---	---	---	PASS	T	117003719	T	T	117003719	2	4	119	1	0	0	0	0	0	0	0	1	1069	854	30	2		2	ASZ1	7	117003719	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	10490502	117003719	42134944	605	43778										
CFTR	1080	broad.mit.edu	37	chr7	117175451	117175451	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caggctgggctagggagaatGatgatgaagtacaggtagca	16	5	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:117175451G>A	uc003vjd.2	+	6	861	c.729G>A	c.(727-729)ATG>ATA	p.M243I	CFTR_uc011knq.1_5'UTR	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	243	Cytoplasmic (Potential).|ABC transmembrane type-1 1.				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	TAGGGAGAATGATGATGAAGT	0.423									Cystic_Fibrosis				9	210	---	---	---	---	PASS	A	117175451	A	A	117175451	3	1	119	1	0	0	0	0	1	0	0	0	3294	1290	45	2	751	2	CFTR	7	117175451	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	171732	117175451	41963212	606	43779										
PTPRZ1	5803	broad.mit.edu	37	chr7	121652898	121652898	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgaccatttcctatgcaagTgagaaatatgaaccagtttt	7	7	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:121652898T>C	uc003vjy.2	+	12	4193	c.3798T>C	c.(3796-3798)AGT>AGC	p.S1266S	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1266	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						CCTATGCAAGTGAGAAATATG	0.398													55	223	---	---	---	---	PASS	C	121652898	C	C	121652898	2	2	119	1	0	0	0	0	0	0	0	1	12814	1693	59	5		5	PTPRZ1	7	121652898	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	4477447	121652898	37485765	607	43780										
AASS	10157	broad.mit.edu	37	chr7	121756770	121756770	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcatctgttttcctgacaaGatgatgatgacgacttaaca	8	8	1	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:121756770G>C	uc003vka.2	-	7	907	c.811C>G	c.(811-813)CTT>GTT	p.L271V	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.L271V|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	271	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	TTCCTGACAAGATGATGATGA	0.373													20	109	---	---	---	---	PASS	C	121756770	C	C	121756770	3	2	119	1	0	0	0	0	1	0	0	0	24	942	33	2	2037	2	AASS	7	121756770	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	103872	121756770	37381893	608	43781										
SLC13A1	6561	broad.mit.edu	37	chr7	122765725	122765725	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaatctgtagcaaaaccagGgtacctgtaaaagggacaaa	10	7	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:122765725G>A	uc003vkm.2	-	11	1163	c.1138C>T	c.(1138-1140)CCT>TCT	p.P380S	SLC13A1_uc010lks.2_Missense_Mutation_p.P256S	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	380						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	GCAAAACCAGGGTACCTGTAA	0.338													44	219	---	---	---	---	PASS	A	122765725	A	A	122765725	3	1	119	1	0	0	0	0	1	0	0	0	14391	1232	43	3	669	3	SLC13A1	7	122765725	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1008955	122765725	36372938	609	43782										
HYAL4	23553	broad.mit.edu	37	chr7	123509056	123509056	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgcccagaagacgaagtcttGaggaacaatgagctctcttg	11	9	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:123509056G>A	uc003vlc.2	+	3	1367	c.729G>A	c.(727-729)TTG>TTA	p.L243L	HYAL4_uc011knz.1_Silent_p.L243L	NM_012269	NP_036401	Q2M3T9	HYAL4_HUMAN	hyaluronoglucosaminidase 4	243	Extracellular (Potential).				fusion of sperm to egg plasma membrane|glycosaminoglycan catabolic process	integral to membrane	hyalurononglucosaminidase activity			skin(1)	1						ACGAAGTCTTGAGGAACAATG	0.448													4	160	---	---	---	---	PASS	A	123509056	A	A	123509056	2	1	119	1	0	0	0	0	0	0	0	1	7466	1281	45	2		2	HYAL4	7	123509056	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	743331	123509056	35629607	610	43783										
PAX4	5078	broad.mit.edu	37	chr7	127254951	127254951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tacactgggagtcttgtcctGggtgcaaagcccttcagcac	11	12	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:127254951G>T	uc010lld.1	-	2	525	c.319C>A	c.(319-321)CAG>AAG	p.Q107K	PAX4_uc003vmf.2_Missense_Mutation_p.Q105K|PAX4_uc003vmg.1_Missense_Mutation_p.Q107K|PAX4_uc003vmh.2_Missense_Mutation_p.Q105K	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	115	Paired.				cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GTCTTGTCCTGGGTGCAAAGC	0.552													23	80	---	---	---	---	PASS	T	127254951	T	T	127254951	3	4	119	1	0	0	0	0	1	0	0	0	11481	1357	47	3	744	3	PAX4	7	127254951	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3745895	127254951	31883712	611	43784										
EXOC4	60412	broad.mit.edu	37	chr7	133622811	133622811	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtcagctttctccaatctttCtacatcccagagtaagtatc	5	12	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:133622811C>T	uc003vrk.2	+	14	2230	c.2195C>T	c.(2194-2196)TCT>TTT	p.S732F	EXOC4_uc011kpo.1_Missense_Mutation_p.S631F|EXOC4_uc003vrl.2_Missense_Mutation_p.S342F|EXOC4_uc011kpp.1_Missense_Mutation_p.S264F|EXOC4_uc011kpq.1_Missense_Mutation_p.S20F	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	732					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				TCCAATCTTTCTACATCCCAG	0.463													20	116	---	---	---	---	PASS	T	133622811	T	T	133622811	3	4	119	1	0	0	0	0	1	0	0	0	5306	913	32	2	2258	2	EXOC4	7	133622811	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	6367860	133622811	25515852	612	43785										
LRGUK	136332	broad.mit.edu	37	chr7	133812168	133812168	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggaccagagctgcctctctCctgagaggcttgggcagatc	13	12	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:133812168C>A	uc003vrm.1	+	1	64	c.48C>A	c.(46-48)CTC>CTA	p.L16L		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	16							ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						CTGCCTCTCTCCTGAGAGGCT	0.597													32	118	---	---	---	---	PASS	A	133812168	A	A	133812168	2	1	119	1	0	0	0	0	0	0	0	1	8943	842	30	2		2	LRGUK	7	133812168	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	189357	133812168	25326495	613	43786										
AKR1B10	57016	broad.mit.edu	37	chr7	134221806	134221806	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attgtttgctgttgcaggttGagtgtcacccatacctcaca	9	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:134221806G>C	uc003vrr.2	+	6	876	c.556G>C	c.(556-558)GAG>CAG	p.E186Q		NM_020299	NP_064695	O60218	AK1BA_HUMAN	aldo-keto reductase family 1, member B10	186					cellular aldehyde metabolic process|digestion|steroid metabolic process	cytoplasm	aldo-keto reductase (NADP) activity|protein binding			skin(5)	5						GTTGCAGGTTGAGTGTCACCC	0.527													31	60	---	---	---	---	PASS	C	134221806	C	C	134221806	3	2	119	1	0	0	0	0	1	0	0	0	467	1291	45	2	578	2	AKR1B10	7	134221806	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	409638	134221806	24916857	614	43787										
ATP6V0A4	50617	broad.mit.edu	37	chr7	138447711	138447711	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agttctaggaagctttgtttCaaggcctgctggttctggtt	12	7	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:138447711C>G	uc003vuf.2	-	5	589	c.351G>C	c.(349-351)TTG>TTC	p.L117F	ATP6V0A4_uc003vug.2_Missense_Mutation_p.L117F|ATP6V0A4_uc003vuh.2_Missense_Mutation_p.L117F	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	117	Cytoplasmic (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						AGCTTTGTTTCAAGGCCTGCT	0.463													49	200	---	---	---	---	PASS	G	138447711	G	G	138447711	3	3	119	1	0	0	0	0	1	0	0	0	1170	825	29	2	2239	2	ATP6V0A4	7	138447711	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4225905	138447711	20690952	615	43788										
MGAM	8972	broad.mit.edu	37	chr7	141740571	141740571	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtcgagatggaacttcctgGagacaaaattggacttcacc	10	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:141740571G>T	uc003vwy.2	+	21	2477	c.2423G>T	c.(2422-2424)GGA>GTA	p.G808V		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	808	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GAACTTCCTGGAGACAAAATT	0.483													27	45	---	---	---	---	PASS	T	141740571	T	T	141740571	3	4	119	1	0	0	0	0	1	0	0	0	9541	1174	41	2	2501	2	MGAM	7	141740571	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3292860	141740571	17398092	616	43789										
CASP2	835	broad.mit.edu	37	chr7	143000960	143000960	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggagagtgatgccggtaaaGaaaagttgccgaagatgaga	15	4	0	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:143000960G>T	uc003wco.2	+	9	1198	c.1051G>T	c.(1051-1053)GAA>TAA	p.E351*	CASP2_uc003wcp.2_3'UTR|CASP2_uc011kta.1_Nonsense_Mutation_p.E235*|CASP2_uc003wcq.2_RNA|CASP2_uc011ktb.1_Nonsense_Mutation_p.E101*	NM_032982	NP_116764	P42575	CASP2_HUMAN	caspase 2 isoform 1 preproprotein	351					apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|protein maturation by peptide bond cleavage	cytosol	cysteine-type endopeptidase activity|enzyme binding|protein binding|protein domain specific binding			lung(2)|ovary(1)	3	Melanoma(164;0.059)					TGCCGGTAAAGAAAAGTTGCC	0.488													16	30	---	---	---	---	PASS	T	143000960	T	T	143000960	4	4	119	1	0	0	0	0	0	1	0	0	2671	943	33	2	1085	2	CASP2	7	143000960	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1260389	143000960	16137703	617	43790										
CNTNAP2	26047	broad.mit.edu	37	chr7	146805423	146805423	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaactgaaaaaagccaagctGgtcctcagtttaaacttagg	9	8	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:146805423G>A	uc003weu.1	+	5	1251	c.735G>A	c.(733-735)CTG>CTA	p.L245L		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	245	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			AAGCCAAGCTGGTCCTCAGTT	0.398										HNSCC(39;0.1)			11	72	---	---	---	---	PASS	A	146805423	A	A	146805423	2	1	119	1	0	0	0	0	0	0	0	1	3647	1335	47	3		3	CNTNAP2	7	146805423	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	3804463	146805423	12333240	618	43791										
KRBA1	84626	broad.mit.edu	37	chr7	149418625	149418625	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagggaagtcctctccccatCagtgagtctgacacagcagg	11	13	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:149418625C>T	uc003wfz.2	+	5	864	c.465C>T	c.(463-465)ATC>ATT	p.I155I	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_5'Flank	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	155										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CTCTCCCCATCAGTGAGTCTG	0.602													7	22	---	---	---	---	PASS	T	149418625	T	T	149418625	2	4	119	1	0	0	0	0	0	0	0	1	8439	840	29	2		2	KRBA1	7	149418625	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2613202	149418625	9720038	619	43792										
ZNF467	168544	broad.mit.edu	37	chr7	149467534	149467534	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttcctgttacctacctgagCacacccccagtgctctctct	6	17	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:149467534C>G	uc003wgd.2	-	3	287	c.146G>C	c.(145-147)TGC>TCC	p.C49S	ZNF467_uc003wgc.2_Missense_Mutation_p.C49S	NM_207336	NP_997219	Q7Z7K2	ZN467_HUMAN	zinc finger protein 467	49					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCTACCTGAGCACACCCCCAG	0.428													6	122	---	---	---	---	PASS	G	149467534	G	G	149467534	3	3	119	1	0	0	0	0	1	0	0	0	17924	710	25	4	1653	4	ZNF467	7	149467534	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	48909	149467534	9671129	620	43793										
RARRES2	5919	broad.mit.edu	37	chr7	150037244	150037244	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtccctcttccggcagcttGtctgctgcagcttaaattcc	8	14	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:150037244G>C	uc003wha.2	-	3	341	c.224C>G	c.(223-225)ACA>AGA	p.T75R	RARRES2_uc010lpp.1_Missense_Mutation_p.T75R	NM_002889	NP_002880	Q99969	RARR2_HUMAN	chemerin preproprotein	75					embryonic digestive tract development|in utero embryonic development|positive regulation of macrophage chemotaxis|retinoid metabolic process	extracellular matrix	receptor binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.011)			CCGGCAGCTTGTCTGCTGCAG	0.587													13	708	---	---	---	---	PASS	C	150037244	C	C	150037244	3	2	119	1	0	0	0	0	1	0	0	0	13056	1377	48	4	279	4	RARRES2	7	150037244	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	569710	150037244	9101419	621	43794										
GIMAP7	168537	broad.mit.edu	37	chr7	150217087	150217087	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgagagtgaggaccgctccCtgaggatcgttctggtaggg	16	9	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:150217087C>T	uc003whk.2	+	2	155	c.25C>T	c.(25-27)CTG>TTG	p.L9L		NM_153236	NP_694968	Q8NHV1	GIMA7_HUMAN	GTPase, IMAP family member 7	9							GTP binding			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGACCGCTCCCTGAGGATCGT	0.502													44	84	---	---	---	---	PASS	T	150217087	T	T	150217087	2	4	119	1	0	0	0	0	0	0	0	1	6384	680	24	3		3	GIMAP7	7	150217087	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	179843	150217087	8921576	622	43795										
MLL3	58508	broad.mit.edu	37	chr7	151921142	151921142	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaataagatcttcttctctaTagtttcgatagcagactgga	8	7	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:151921142T>C	uc003wla.2	-	20	3500	c.3281A>G	c.(3280-3282)TAT>TGT	p.Y1094C	MLL3_uc003wkz.2_Missense_Mutation_p.Y155C	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1094	PHD-type 6.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTCTTCTCTATAGTTTCGATA	0.373			N		medulloblastoma								35	93	---	---	---	---	PASS	C	151921142	C	C	151921142	3	2	119	1	0	0	0	0	1	0	0	0	9622	1406	49	5	11614	5	MLL3	7	151921142	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	1704055	151921142	7217521	623	43796										
PTPRN2	5799	broad.mit.edu	37	chr7	157396756	157396756	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctccgccttcagcaggacccGggagtggtcatctgcaagga	13	13	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:157396756G>A	uc003wno.2	-	16	2477	c.2356C>T	c.(2356-2358)CGG>TGG	p.R786W	PTPRN2_uc003wnp.2_Missense_Mutation_p.R769W|PTPRN2_uc003wnq.2_Missense_Mutation_p.R757W|PTPRN2_uc003wnr.2_Missense_Mutation_p.R748W|PTPRN2_uc011kwa.1_Missense_Mutation_p.R809W	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	786	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		AGCAGGACCCGGGAGTGGTCA	0.642													29	52	---	---	---	---	PASS	A	157396756	A	A	157396756	3	1	119	1	0	0	0	0	1	0	0	0	12808	1115	39	1	723	1	PTPRN2	7	157396756	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5475614	157396756	1741907	624	43797										
PTPRN2	5799	broad.mit.edu	37	chr7	157985113	157985113	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccaggaagggcaggtggcgtCggagggcgttggccagggca	21	9	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr7:157985113C>T	uc003wno.2	-	5	576	c.455G>A	c.(454-456)CGA>CAA	p.R152Q	PTPRN2_uc003wnp.2_Missense_Mutation_p.R135Q|PTPRN2_uc003wnq.2_Missense_Mutation_p.R152Q|PTPRN2_uc003wnr.2_Missense_Mutation_p.R114Q|PTPRN2_uc011kwa.1_Missense_Mutation_p.R175Q	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	152	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CAGGTGGCGTCGGAGGGCGTT	0.652													31	50	---	---	---	---	PASS	T	157985113	T	T	157985113	3	4	119	1	0	0	0	0	1	0	0	0	12808	884	31	2	2668	2	PTPRN2	7	157985113	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	588357	157985113	1153550	625	43798										
FBXO25	26260	broad.mit.edu	37	chr8	401300	401300	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caccacaatcctcgcttaatCaaagatcttctgcaagacct	4	14	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:401300C>G	uc003wox.2	+	7	773	c.507C>G	c.(505-507)ATC>ATG	p.I169M	FBXO25_uc003woy.2_Missense_Mutation_p.I169M|FBXO25_uc003woz.2_Missense_Mutation_p.I102M|FBXO25_uc003wpa.2_Translation_Start_Site	NM_183421	NP_904357	Q8TCJ0	FBX25_HUMAN	F-box only protein 25 isoform 1	169						nucleus|SCF ubiquitin ligase complex	actin binding|ubiquitin-protein ligase activity			lung(1)	1		Ovarian(12;0.00965)|Colorectal(14;0.0815)|Myeloproliferative disorder(644;0.116)|all_neural(12;0.122)		Epithelial(5;3.14e-14)|OV - Ovarian serous cystadenocarcinoma(5;1.56e-07)|BRCA - Breast invasive adenocarcinoma(11;1.88e-06)		CTCGCTTAATCAAAGATCTTC	0.353													38	130	---	---	---	---	PASS	G	401300	G	G	401300	3	3	119	1	0	0	0	0	1	0	0	0	5736	816	29	2	529	2	FBXO25	8	401300	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08		401300	145962722	626	43799										
CSMD1	64478	broad.mit.edu	37	chr8	2966125	2966125	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cggagtgaaaatcaactgacCgtggaaattgaggacaaaga	12	6	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:2966125C>G	uc011kwk.1	-	44	7147	c.6757G>C	c.(6757-6759)GCA>CCA	p.A2253P	CSMD1_uc011kwj.1_Missense_Mutation_p.A1645P|CSMD1_uc010lrg.2_Missense_Mutation_p.A321P	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2253	Extracellular (Potential).|CUB 13.					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)		ATCAACTGACCGTGGAAATTG	0.473													4	24	---	---	---	---	PASS	G	2966125	G	G	2966125	3	3	119	1	0	0	0	0	1	0	0	0	3944	666	23	4	4048	4	CSMD1	8	2966125	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2564825	2966125	143397897	627	43800										
CSMD1	64478	broad.mit.edu	37	chr8	4495078	4495078	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gactaagcctccacagttctGacctggaagagaaaacacac	8	12	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:4495078G>A	uc011kwk.1	-	2	478	c.88C>T	c.(88-90)CAG>TAG	p.Q30*		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	30	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)		CCACAGTTCTGACCTGGAAGA	0.403													7	66	---	---	---	---	PASS	A	4495078	A	A	4495078	4	1	119	1	0	0	0	0	0	1	0	0	3944	1299	45	2	10695	2	CSMD1	8	4495078	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1528953	4495078	141868944	628	43801										
ANGPT2	285	broad.mit.edu	37	chr8	6378765	6378765	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagatcatgttgctgcttctGaagaactgaattattcaccg	9	8	3	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:6378765G>A	uc003wqj.3	-	4	1062	c.733C>T	c.(733-735)CAG>TAG	p.Q245*	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Nonsense_Mutation_p.Q245*|ANGPT2_uc010lri.2_Nonsense_Mutation_p.Q193*|ANGPT2_uc003wql.3_Nonsense_Mutation_p.Q245*	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	245	Potential.				angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		TGCTGCTTCTGAAGAACTGAA	0.358													16	158	---	---	---	---	PASS	A	6378765	A	A	6378765	4	1	119	1	0	0	0	0	0	1	0	0	611	1299	45	2	781	2	ANGPT2	8	6378765	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1883687	6378765	139985257	629	43802										
RHOBTB2	23221	broad.mit.edu	37	chr8	22874894	22874894	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctcaagcggcagcccaaacGgcgttggctcttctggaaca	11	14	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:22874894G>A	uc003xcq.2	+	10	2633	c.2096G>A	c.(2095-2097)CGG>CAG	p.R699Q	RHOBTB2_uc003xcp.2_Missense_Mutation_p.R721Q|RHOBTB2_uc011kzp.1_Missense_Mutation_p.R706Q|uc003xcr.2_Intron	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	699					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		CAGCCCAAACGGCGTTGGCTC	0.448													11	43	---	---	---	---	PASS	A	22874894	A	A	22874894	3	1	119	1	0	0	0	0	1	0	0	0	13334	1116	39	1	2215	1	RHOBTB2	8	22874894	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	16496129	22874894	123489128	630	43803										
LOXL2	4017	broad.mit.edu	37	chr8	23225700	23225700	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccagccaggcgcagctgaatCttggccacgttggcgggggc	16	13	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:23225700C>A	uc003xdh.1	-	2	504	c.165G>T	c.(163-165)AAG>AAT	p.K55N		NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	55					aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		GCAGCTGAATCTTGGCCACGT	0.627													4	77	---	---	---	---	PASS	A	23225700	A	A	23225700	3	1	119	1	0	0	0	0	1	0	0	0	8900	912	32	2	2211	2	LOXL2	8	23225700	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	350806	23225700	123138322	631	43804										
ADAM7	8756	broad.mit.edu	37	chr8	24304766	24304766	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaccttagtccttcatcttcTaagatccaggtaagttctat	5	10	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:24304766T>G	uc003xeb.2	+	3	337	c.224T>G	c.(223-225)CTA>CGA	p.L75R	ADAM7_uc003xea.1_Missense_Mutation_p.L75R	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	75	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		CTTCATCTTCTAAGATCCAGG	0.328													66	91	---	---	---	---	PASS	G	24304766	G	G	24304766	3	3	119	1	0	0	0	0	1	0	0	0	251	1522	53	5	234	5	ADAM7	8	24304766	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	1079066	24304766	122059256	632	43805										
DOCK5	80005	broad.mit.edu	37	chr8	25224446	25224446	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cccatgagtcccttcagcttGaaaccttctcacaagccaag	6	15	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:25224446G>C	uc003xeg.2	+	31	3321	c.3184G>C	c.(3184-3186)GAA>CAA	p.E1062Q	DOCK5_uc010luf.1_RNA|DOCK5_uc003xeh.1_Missense_Mutation_p.E776Q|DOCK5_uc003xei.2_Missense_Mutation_p.E632Q|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1062						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		CCTTCAGCTTGAAACCTTCTC	0.383													26	50	---	---	---	---	PASS	C	25224446	C	C	25224446	3	2	119	1	0	0	0	0	1	0	0	0	4690	1291	45	2	3306	2	DOCK5	8	25224446	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	919680	25224446	121139576	633	43806										
PXDNL	137902	broad.mit.edu	37	chr8	52258506	52258506	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aactgtcctctactcctacaGtctgtggggaaagaagtaac	9	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:52258506G>T	uc003xqu.3	-	20	4004	c.3903C>A	c.(3901-3903)GAC>GAA	p.D1301E	PXDNL_uc003xqt.3_Intron	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1301					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TACTCCTACAGTCTGTGGGGA	0.433													42	90	---	---	---	---	PASS	T	52258506	T	T	52258506	3	4	119	1	0	0	0	0	1	0	0	0	12848	1043	36	3	504	3	PXDNL	8	52258506	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	27034060	52258506	94105516	634	43807										
RP1	6101	broad.mit.edu	37	chr8	55541405	55541405	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgggtctacccgcaaatctCaggtttgtccttataattct	7	11	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:55541405C>T	uc003xsd.1	+	4	5111	c.4963C>T	c.(4963-4965)CAG>TAG	p.Q1655*	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1655					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CCGCAAATCTCAGGTTTGTCC	0.373													72	383	---	---	---	---	PASS	T	55541405	T	T	55541405	4	4	119	1	0	0	0	0	0	1	0	0	13532	827	29	2	4973	2	RP1	8	55541405	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3282899	55541405	90822617	635	43808										
ASPH	444	broad.mit.edu	37	chr8	62556543	62556543	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catcatctcttccatatcctGattacagtcttgtgaaacta	4	11	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:62556543G>A	uc003xuj.2	-	8	939	c.670C>T	c.(670-672)CAG>TAG	p.Q224*	ASPH_uc011leg.1_Nonsense_Mutation_p.Q195*|ASPH_uc003xuo.2_Intron|ASPH_uc011leh.1_Intron|ASPH_uc003xul.2_Nonsense_Mutation_p.Q210*|ASPH_uc011lei.1_Nonsense_Mutation_p.Q210*|ASPH_uc011lej.1_Nonsense_Mutation_p.Q167*|ASPH_uc003xun.2_Nonsense_Mutation_p.Q181*|ASPH_uc011lek.1_Intron|ASPH_uc003xum.2_Nonsense_Mutation_p.Q224*	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	224	Glu-rich.|Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	TCCATATCCTGATTACAGTCT	0.333													23	56	---	---	---	---	PASS	A	62556543	A	A	62556543	4	1	119	1	0	0	0	0	0	1	0	0	1053	1299	45	2	1690	2	ASPH	8	62556543	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	7015138	62556543	83807479	636	43809										
VCPIP1	80124	broad.mit.edu	37	chr8	67547206	67547206	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtgaatacagaaggctctgTtttagtggaactattactaa	9	5	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:67547206T>C	uc003xwn.2	-	3	3458	c.3199A>G	c.(3199-3201)ACA>GCA	p.T1067A		NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	1067					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			GAAGGCTCTGTTTTAGTGGAA	0.423													86	238	---	---	---	---	PASS	C	67547206	C	C	67547206	3	2	119	1	0	0	0	0	1	0	0	0	17138	1725	60	5	473	5	VCPIP1	8	67547206	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	4990663	67547206	78816816	637	43810										
C8orf44	56260	broad.mit.edu	37	chr8	67590034	67590034	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaggctgtcgggagcacttcGaaaaccactggaaaggccgg	15	10	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:67590034G>A	uc003xwo.1	+	2	244	c.91G>A	c.(91-93)GAA>AAA	p.E31K	SGK3_uc003xwp.2_Intron|C8orf44_uc003xwq.1_Missense_Mutation_p.E31K	NM_019607	NP_062553	Q96CB5	CH044_HUMAN	hypothetical protein LOC56260	31											0	Breast(64;0.186)		Epithelial(68;0.000959)|OV - Ovarian serous cystadenocarcinoma(28;0.00318)|all cancers(69;0.00363)|BRCA - Breast invasive adenocarcinoma(89;0.149)			GGAGCACTTCGAAAACCACTG	0.294													32	56	---	---	---	---	PASS	A	67590034	A	A	67590034	3	1	119	1	0	0	0	0	1	0	0	0	2429	1059	37	2	93	2	C8orf44	8	67590034	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	42828	67590034	78773988	638	43811										
ZFHX4	79776	broad.mit.edu	37	chr8	77767033	77767033	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tactctatgaaaaatacttgCtggattccaatcctaccaga	5	10	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:77767033C>T	uc003yav.2	+	10	8128	c.7741C>T	c.(7741-7743)CTG>TTG	p.L2581L	ZFHX4_uc003yau.1_Silent_p.L2626L|ZFHX4_uc003yaw.1_Silent_p.L2581L	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2581	Homeobox 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAAATACTTGCTGGATTCCAA	0.473										HNSCC(33;0.089)			12	63	---	---	---	---	PASS	T	77767033	T	T	77767033	2	4	119	1	0	0	0	0	0	0	0	1	17632	796	28	3		3	ZFHX4	8	77767033	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	10176999	77767033	68596989	639	43812										
IMPA1	3612	broad.mit.edu	37	chr8	82592931	82592931	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggaagagataagcattttttCaactttttggtccgtagcag	10	6	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:82592931C>G	uc003ych.2	-	3	278	c.151G>C	c.(151-153)GAA>CAA	p.E51Q	IMPA1_uc011lfq.1_Missense_Mutation_p.E110Q|IMPA1_uc011lfr.1_Missense_Mutation_p.E51Q	NM_005536	NP_005527	P29218	IMPA1_HUMAN	inositol(myo)-1(or 4)-monophosphatase 1 isoform	51					inositol phosphate dephosphorylation|phosphatidylinositol biosynthetic process|signal transduction	cytoplasm	inositol-1(or 4)-monophosphatase activity|metal ion binding|protein homodimerization activity			skin(1)	1					Lithium(DB01356)	AGCATTTTTTCAACTTTTTGG	0.264													6	148	---	---	---	---	PASS	G	82592931	G	G	82592931	3	3	119	1	0	0	0	0	1	0	0	0	7722	835	29	2	710	2	IMPA1	8	82592931	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4825898	82592931	63771091	640	43813										
LRRCC1	85444	broad.mit.edu	37	chr8	86047240	86047240	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctggcagaagtttctaaattGaaacaagaaacagcagcaaa	8	7	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:86047240G>A	uc003ycw.2	+	13	2281	c.2127G>A	c.(2125-2127)TTG>TTA	p.L709L	LRRCC1_uc010maa.1_Silent_p.L410L|LRRCC1_uc003ycx.2_Silent_p.L616L|LRRCC1_uc003ycy.2_Silent_p.L689L	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	709					cell division|mitosis	centriole|nucleus					0						TTTCTAAATTGAAACAAGAAA	0.289													12	206	---	---	---	---	PASS	A	86047240	A	A	86047240	2	1	119	1	0	0	0	0	0	0	0	1	9026	1281	45	2		2	LRRCC1	8	86047240	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	3454309	86047240	60316782	641	43814										
TMEM67	91147	broad.mit.edu	37	chr8	94777642	94777642	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatattgaacaggtgcgtccGatgtgagccaacatttgtta	10	7	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:94777642G>A	uc011lgk.1	+	5	586	c.515G>A	c.(514-516)CGA>CAA	p.R172Q	TMEM67_uc010mat.1_Missense_Mutation_p.R87Q|TMEM67_uc010maw.2_Intron|TMEM67_uc003yga.3_Missense_Mutation_p.R91Q	NM_153704	NP_714915	Q5HYA8	MKS3_HUMAN	meckelin isoform 1	172			R -> Q (in COACHS).		cilium assembly|ER-associated protein catabolic process|negative regulation of centrosome duplication	centrosome|cilium membrane|cytoplasmic vesicle membrane|endoplasmic reticulum membrane|integral to membrane|microtubule basal body	unfolded protein binding			ovary(2)	2	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.00896)			AGGTGCGTCCGATGTGAGCCA	0.279													5	111	---	---	---	---	PASS	A	94777642	A	A	94777642	3	1	119	1	0	0	0	0	1	0	0	0	16193	1058	37	2	671	2	TMEM67	8	94777642	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	8730402	94777642	51586380	642	43815										
GEM	2669	broad.mit.edu	37	chr8	95272461	95272461	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acctgcaaagatgttggccaGagtggacttgcccaccccct	10	14	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:95272461G>A	uc003ygj.2	-	2	520	c.271C>T	c.(271-273)CTG>TTG	p.L91L	GEM_uc003ygi.2_Silent_p.L91L	NM_005261	NP_005252	P55040	GEM_HUMAN	GTP-binding mitogen-induced T-cell protein	91					cell surface receptor linked signaling pathway|immune response|small GTPase mediated signal transduction	internal side of plasma membrane	calmodulin binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding			lung(1)	1	Breast(36;4.65e-06)	Myeloproliferative disorder(644;0.204)	BRCA - Breast invasive adenocarcinoma(8;0.00691)			ATGTTGGCCAGAGTGGACTTG	0.597													33	112	---	---	---	---	PASS	A	95272461	A	A	95272461	2	1	119	1	0	0	0	0	0	0	0	1	6329	933	33	2		2	GEM	8	95272461	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	494819	95272461	51091561	643	43816										
PKHD1L1	93035	broad.mit.edu	37	chr8	110420406	110420406	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggatgggatcgcttctaagCcactcactctatggtcatca	10	11	5	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:110420406C>A	uc003yne.2	+	18	2046	c.1942C>A	c.(1942-1944)CCA>ACA	p.P648T		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	648	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CGCTTCTAAGCCACTCACTCT	0.443										HNSCC(38;0.096)			33	98	---	---	---	---	PASS	A	110420406	A	A	110420406	3	1	119	1	0	0	0	0	1	0	0	0	11972	739	26	3	2012	3	PKHD1L1	8	110420406	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	15147945	110420406	35943616	644	43817										
CSMD3	114788	broad.mit.edu	37	chr8	113275877	113275877	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcatacttacgtaagcactGcggtacttcaccactccagg	7	13	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:113275877G>T	uc003ynu.2	-	61	10012	c.9853C>A	c.(9853-9855)CAG>AAG	p.Q3285K	CSMD3_uc003yns.2_Missense_Mutation_p.Q2487K|CSMD3_uc003ynt.2_Missense_Mutation_p.Q3245K|CSMD3_uc011lhx.1_Missense_Mutation_p.Q3116K	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3285	Sushi 25.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CGTAAGCACTGCGGTACTTCA	0.393										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			26	41	---	---	---	---	PASS	T	113275877	T	T	113275877	3	4	119	1	0	0	0	0	1	0	0	0	3946	1328	46	3	1314	3	CSMD3	8	113275877	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2855471	113275877	33088145	645	43818										
CSMD3	114788	broad.mit.edu	37	chr8	113569139	113569139	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttggtcactgatcttgtatcCaaattgtggaatgccaggat	10	7	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:113569139C>A	uc003ynu.2	-	25	4246	c.4087G>T	c.(4087-4089)GGA>TGA	p.G1363*	CSMD3_uc003yns.2_Nonsense_Mutation_p.G635*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.G1323*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.G1259*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1363	Extracellular (Potential).|Sushi 7.					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						ATCTTGTATCCAAATTGTGGA	0.413										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			36	106	---	---	---	---	PASS	A	113569139	A	A	113569139	4	1	119	1	0	0	0	0	0	1	0	0	3946	603	21	3	7224	3	CSMD3	8	113569139	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	293262	113569139	32794883	646	43819										
CSMD3	114788	broad.mit.edu	37	chr8	113651071	113651071	+	Frame_Shift_Del	DEL	C	-	-													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccagtggttgggtaaaactgCcattctctgtgatcagtaag							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:113651071delC	uc003ynu.2	-	21	3539	c.3380delG	c.(3379-3381)GGCfs	p.G1127fs	CSMD3_uc003yns.2_Frame_Shift_Del_p.G399fs|CSMD3_uc003ynt.2_Frame_Shift_Del_p.G1087fs|CSMD3_uc011lhx.1_Frame_Shift_Del_p.G1023fs	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1127	Extracellular (Potential).|CUB 6.					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						GGTAAAACTGCCATTCTCTGT	0.408										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			92	59	---	---	---	---		-	113651071	-	-	113651071	7	5	119	1	0	1	0	1	0	0	0	0	3946	739	26	0	7947	0	CSMD3	8	113651071	Frame_Shift_Del	DEL	C	TCGA-60-2698-01A-01D-1522-08	81932	113651071	32712951	647	43820										
COL14A1	7373	broad.mit.edu	37	chr8	121322262	121322262	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgccagggtggtccaggactCcgaggaccaaagggccagca	15	12	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:121322262C>T	uc003yox.2	+	37	4681	c.4416C>T	c.(4414-4416)CTC>CTT	p.L1472L	COL14A1_uc003yoz.2_Silent_p.L437L	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	1472	Triple-helical region 1 (COL2).				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			GTCCAGGACTCCGAGGACCAA	0.338													45	116	---	---	---	---	PASS	T	121322262	T	T	121322262	2	4	119	1	0	0	0	0	0	0	0	1	3671	842	30	2		2	COL14A1	8	121322262	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	7671191	121322262	25041760	648	43821										
ZHX2	22882	broad.mit.edu	37	chr8	123964707	123964707	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagcgcttaaagcatggcatCagctggtccccagaagaggt	12	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:123964707C>T	uc003ypk.1	+	3	1524	c.957C>T	c.(955-957)ATC>ATT	p.I319I		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	319	Required for interaction with NFYA.|Required for homodimerization.|Required for repressor activity.|Required for nuclear localization.|Homeobox 1.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			AGCATGGCATCAGCTGGTCCC	0.597													12	198	---	---	---	---	PASS	T	123964707	T	T	123964707	2	4	119	1	0	0	0	0	0	0	0	1	17673	816	29	2		2	ZHX2	8	123964707	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2642445	123964707	22399315	649	43822										
ATAD2	29028	broad.mit.edu	37	chr8	124359338	124359338	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcaagttttatacctgagtCtaatgttttatttgttctga	6	5	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:124359338C>G	uc003yqh.3	-	16	2314	c.2206G>C	c.(2206-2208)GAC>CAC	p.D736H	ATAD2_uc011lii.1_Missense_Mutation_p.D527H|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.D736H	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	736					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			ATACCTGAGTCTAATGTTTTA	0.318													34	161	---	---	---	---	PASS	G	124359338	G	G	124359338	3	3	119	1	0	0	0	0	1	0	0	0	1071	913	32	2	2018	2	ATAD2	8	124359338	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	394631	124359338	22004684	650	43823										
WDYHV1	55093	broad.mit.edu	37	chr8	124453564	124453564	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agattccaaaatgaacctgaAcgatttcatcagtatggatc	7	8	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:124453564A>G	uc003yqn.1	+	6	652	c.527A>G	c.(526-528)AAC>AGC	p.N176S	WDYHV1_uc011lij.1_Missense_Mutation_p.N116S|WDYHV1_uc003yqo.1_RNA	NM_018024	NP_060494	Q96HA8	NTAQ1_HUMAN	WDYHV motif containing 1	176					protein modification process	cytosol|nucleus	protein binding|protein N-terminal glutamine amidohydrolase activity			ovary(1)|skin(1)	2						ATGAACCTGAACGATTTCATC	0.368													12	27	---	---	---	---	PASS	G	124453564	G	G	124453564	3	3	119	1	0	0	0	0	1	0	0	0	17340	43	2	5	549	5	WDYHV1	8	124453564	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	94226	124453564	21910458	651	43824										
FAM91A1	157769	broad.mit.edu	37	chr8	124818395	124818395	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtggacttacagcatctctGtggatatgtcaccatgttga	10	8	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:124818395G>A	uc003yqv.2	+	20	2019	c.1958G>A	c.(1957-1959)TGT>TAT	p.C653Y	FAM91A1_uc011lik.1_Missense_Mutation_p.C653Y|FAM91A1_uc011lil.1_Missense_Mutation_p.C411Y	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769	653										ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			CAGCATCTCTGTGGATATGTC	0.418													18	389	---	---	---	---	PASS	A	124818395	A	A	124818395	3	1	119	1	0	0	0	0	1	0	0	0	5651	1377	48	3	2036	3	FAM91A1	8	124818395	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	364831	124818395	21545627	652	43825										
FER1L6	654463	broad.mit.edu	37	chr8	124992974	124992974	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acaaggctgacaaaactgaaGatggaaaatcccaacaggct	9	9	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:124992974G>A	uc003yqw.2	+	11	1539	c.1333G>A	c.(1333-1335)GAT>AAT	p.D445N		NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	445	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			CAAAACTGAAGATGGAAAATC	0.468											OREG0018964	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	101	---	---	---	---	PASS	A	124992974	A	A	124992974	3	1	119	1	0	0	0	0	1	0	0	0	5815	942	33	2	1371	2	FER1L6	8	124992974	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	174579	124992974	21371048	653	43826										
MYC	4609	broad.mit.edu	37	chr8	128750739	128750739	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcgccctcctacgttgcggtCacacccttctcccttcgggg	9	18	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:128750739C>G	uc003ysh.1	+	3	744	c.231C>G	c.(229-231)GTC>GTG	p.V77V	MYC_uc003ysi.2_Silent_p.V92V	NM_002467	NP_002458	P01106	MYC_HUMAN	myc proto-oncogene protein	77					branching involved in ureteric bud morphogenesis|cell cycle arrest|cell proliferation|cellular iron ion homeostasis|positive regulation of metanephric cap mesenchymal cell proliferation|positive regulation of transcription, DNA-dependent|regulation of telomere maintenance|regulation of transcription from RNA polymerase II promoter|response to drug	nucleolus|nucleoplasm	E-box binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(3)|ovary(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(1;6.19e-134)|all_epithelial(1;1.75e-119)|all_lung(1;5.66e-51)|Breast(1;1.08e-22)|all_neural(1;4.45e-21)|Medulloblastoma(1;1.88e-20)|Colorectal(1;1.92e-09)|Lung SC(1;4.52e-07)|Ovarian(5;0.000122)|Esophageal squamous(12;0.000995)|Renal(1;0.0921)|Hepatocellular(40;0.108)|Myeloproliferative disorder(2;0.135)|Melanoma(291;0.185)	Myeloproliferative disorder(644;0.0255)|Ovarian(118;0.0654)|Breast(495;0.212)|Acute lymphoblastic leukemia(644;0.22)	Epithelial(1;1.63e-94)|all cancers(1;5.82e-87)|OV - Ovarian serous cystadenocarcinoma(1;2.12e-71)|BRCA - Breast invasive adenocarcinoma(1;4.3e-14)|Lung(2;0.000381)|Colorectal(2;0.0102)|LUAD - Lung adenocarcinoma(14;0.0172)|READ - Rectum adenocarcinoma(2;0.0723)|LUSC - Lung squamous cell carcinoma(258;0.151)	KIRC - Kidney renal clear cell carcinoma(542;0.248)		ACGTTGCGGTCACACCCTTCT	0.672		3	A|T	IGK@|BCL5|BCL7A |BTG1|TRA@|IGH@	Burkitt lymphoma| amplified in other cancers|B-CLL						OREG0018982	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	43	---	---	---	---	PASS	G	128750739	G	G	128750739	2	3	119	1	0	0	0	0	0	0	0	1	10016	813	29	2		2	MYC	8	128750739	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	3757765	128750739	17613283	654	43827										
ADCY8	114	broad.mit.edu	37	chr8	131826458	131826458	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcgccaaaggaagtccaggcGggctgtgtactccagctgca	13	12	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:131826458G>A	uc003ytd.3	-	14	3026	c.2770C>T	c.(2770-2772)CGC>TGC	p.R924C	ADCY8_uc010mds.2_Missense_Mutation_p.R793C	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	924	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			AAGTCCAGGCGGGCTGTGTAC	0.507										HNSCC(32;0.087)			36	159	---	---	---	---	PASS	A	131826458	A	A	131826458	3	1	119	1	0	0	0	0	1	0	0	0	300	1116	39	1	1005	1	ADCY8	8	131826458	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3075719	131826458	14537564	655	43828										
FAM135B	51059	broad.mit.edu	37	chr8	139164351	139164351	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcaaaacctccatcttgctgCttggtgtccgcatcttcagc	8	14	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:139164351C>A	uc003yuy.2	-	13	2538	c.2367G>T	c.(2365-2367)AAG>AAT	p.K789N	FAM135B_uc003yux.2_Missense_Mutation_p.K690N|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.K351N|FAM135B_uc003yvb.2_Missense_Mutation_p.K351N	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	789										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)			CATCTTGCTGCTTGGTGTCCG	0.522										HNSCC(54;0.14)			37	76	---	---	---	---	PASS	A	139164351	A	A	139164351	3	1	119	1	0	0	0	0	1	0	0	0	5449	796	28	3	1885	3	FAM135B	8	139164351	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	7337893	139164351	7199671	656	43829										
FAM135B	51059	broad.mit.edu	37	chr8	139165196	139165196	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggcacacctgctttgttttGaaattcaccaattgatatat	6	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:139165196G>A	uc003yuy.2	-	13	1693	c.1522C>T	c.(1522-1524)CAA>TAA	p.Q508*	FAM135B_uc003yux.2_Nonsense_Mutation_p.Q409*|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Nonsense_Mutation_p.Q70*|FAM135B_uc003yvb.2_Nonsense_Mutation_p.Q70*	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	508										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)			GCTTTGTTTTGAAATTCACCA	0.438										HNSCC(54;0.14)			14	253	---	---	---	---	PASS	A	139165196	A	A	139165196	4	1	119	1	0	0	0	0	0	1	0	0	5449	1299	45	2	2730	2	FAM135B	8	139165196	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	845	139165196	7198826	657	43830										
COL22A1	169044	broad.mit.edu	37	chr8	139675958	139675958	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catactgtaccggggatcctTtgtctcctggtggtccggaa	12	11	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:139675958T>C	uc003yvd.2	-	42	3623	c.3176A>G	c.(3175-3177)AAA>AGA	p.K1059R	COL22A1_uc011ljo.1_Missense_Mutation_p.K339R	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1059	Pro-rich.|Gly-rich.|Collagen-like 9.				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)			CGGGGATCCTTTGTCTCCTGG	0.423										HNSCC(7;0.00092)			8	168	---	---	---	---	PASS	C	139675958	C	C	139675958	3	2	119	1	0	0	0	0	1	0	0	0	3681	1841	64	5	1800	5	COL22A1	8	139675958	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	510762	139675958	6688064	658	43831										
COL22A1	169044	broad.mit.edu	37	chr8	139890135	139890135	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcgcccacgcccacggcaaaGatgcggatgccagcgcggtg	14	15	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:139890135G>C	uc003yvd.2	-	3	963	c.516C>G	c.(514-516)ATC>ATG	p.I172M		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	172	VWFA.				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)			CCACGGCAAAGATGCGGATGC	0.682										HNSCC(7;0.00092)			4	9	---	---	---	---	PASS	C	139890135	C	C	139890135	3	2	119	1	0	0	0	0	1	0	0	0	3681	932	33	2	4616	2	COL22A1	8	139890135	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	214177	139890135	6473887	659	43832										
ZC3H3	23144	broad.mit.edu	37	chr8	144620616	144620616	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acccatttgtagttgtttttCcggaacttgttagttcgaca	8	8	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:144620616C>T	uc003yyd.2	-	2	950	c.921G>A	c.(919-921)CGG>CGA	p.R307R		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	307					mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			AGTTGTTTTTCCGGAACTTGT	0.632													13	274	---	---	---	---	PASS	T	144620616	T	T	144620616	2	4	119	1	0	0	0	0	0	0	0	1	17566	842	30	2		2	ZC3H3	8	144620616	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	4730481	144620616	1743406	660	43833										
HEATR7A	727957	broad.mit.edu	37	chr8	145246714	145246714	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccaagctcctccctgggattCtcgccctctacaagaagcac	7	17	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:145246714C>T	uc003zbk.3	+	9	1048	c.811C>T	c.(811-813)CTC>TTC	p.L271F	HEATR7A_uc003zbg.2_Missense_Mutation_p.L271F|HEATR7A_uc003zbh.3_Missense_Mutation_p.L271F|HEATR7A_uc003zbi.3_Missense_Mutation_p.L271F|HEATR7A_uc011lla.1_Missense_Mutation_p.L271F|HEATR7A_uc010mft.2_Missense_Mutation_p.L271F	NM_032450	NP_115826	Q8NDA8	HTR7A_HUMAN	HEAT repeat containing 7A isoform 1	271							binding				0						CCCTGGGATTCTCGCCCTCTA	0.607													10	24	---	---	---	---	PASS	T	145246714	T	T	145246714	3	4	119	1	0	0	0	0	1	0	0	0	7034	913	32	2	837	2	HEATR7A	8	145246714	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	626098	145246714	1117308	661	43834										
ZNF250	58500	broad.mit.edu	37	chr8	146108105	146108105	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acagaagctttgctttgtttCattattttcttgatcaatcc	5	8	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr8:146108105C>T	uc003zeq.3	-	6	595	c.478G>A	c.(478-480)GAA>AAA	p.E160K	COMMD5_uc010mgf.2_Intron|ZNF250_uc003zer.3_Missense_Mutation_p.E155K|ZNF250_uc010mgg.2_Missense_Mutation_p.E155K	NM_021061	NP_066405	P15622	ZN250_HUMAN	zinc finger protein 250 isoform a	160					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;2.53e-38)|OV - Ovarian serous cystadenocarcinoma(54;4.07e-38)|all cancers(56;2.27e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.0654)		TGCTTTGTTTCATTATTTTCT	0.458													42	327	---	---	---	---	PASS	T	146108105	T	T	146108105	3	4	119	1	0	0	0	0	1	0	0	0	17792	835	29	2	1208	2	ZNF250	8	146108105	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	861391	146108105	255917	662	43835										
JAK2	3717	broad.mit.edu	37	chr9	5126787	5126787	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aataagggataacatggctgGatgaaagaaatgaccttcat	10	5	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:5126787G>C	uc010mhm.2	+	24	3508	c.3395G>C	c.(3394-3396)GGA>GCA	p.G1132A	JAK2_uc003ziw.2_Missense_Mutation_p.G1132A	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	1132					actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		AACATGGCTGGATGAAAGAAA	0.343		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				4	112	---	---	---	---	PASS	C	5126787	C	C	5126787	3	2	119	1	0	0	0	0	1	0	0	0	7938	1174	41	2	3485	2	JAK2	9	5126787	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08		5126787	136086644	663	43836										
KIAA1432	57589	broad.mit.edu	37	chr9	5756368	5756368	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acagtattgaaagaaaatctGatgggtaagtatctggcata	10	4	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:5756368G>A	uc003zji.2	+	15	1705	c.1612G>A	c.(1612-1614)GAT>AAT	p.D538N	KIAA1432_uc003zjh.2_Missense_Mutation_p.D538N|KIAA1432_uc003zjl.3_Missense_Mutation_p.D501N|KIAA1432_uc003zjj.1_Missense_Mutation_p.D80N	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	617						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		AAGAAAATCTGATGGGTAAGT	0.348													58	96	---	---	---	---	PASS	A	5756368	A	A	5756368	3	1	119	1	0	0	0	0	1	0	0	0	8233	1290	45	2	1670	2	KIAA1432	9	5756368	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	629581	5756368	135457063	664	43837										
PSIP1	11168	broad.mit.edu	37	chr9	15468837	15468837	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctgactaactttgaatcgcCgtatctgagaaaacaatata	6	9	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:15468837C>G	uc003zlv.3	-	14	1541	c.1211G>C	c.(1210-1212)CGG>CCG	p.R404P	PSIP1_uc003zlw.3_Missense_Mutation_p.R404P	NM_033222	NP_150091	O75475	PSIP1_HUMAN	PC4 and SFRS1 interacting protein 1 isoform 2	404					initiation of viral infection|interspecies interaction between organisms|nuclear mRNA 5'-splice site recognition|provirus integration|regulation of transcription, DNA-dependent|response to heat|response to oxidative stress|transcription, DNA-dependent	cytosol|nuclear heterochromatin|nuclear periphery|nucleoplasm|nucleoplasm|transcriptionally active chromatin	activating transcription factor binding|chromatin binding|DNA secondary structure binding|RNA polymerase II transcription coactivator activity			breast(1)	1				GBM - Glioblastoma multiforme(50;2.38e-06)		TTTGAATCGCCGTATCTGAGA	0.303													38	58	---	---	---	---	PASS	G	15468837	G	G	15468837	3	3	119	1	0	0	0	0	1	0	0	0	12663	652	23	4	393	4	PSIP1	9	15468837	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	9712469	15468837	125744594	665	43838										
IFNB1	3456	broad.mit.edu	37	chr9	21077455	21077455	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttttcaggtgcagactgctCatgagttttcccctggtgaa	10	10	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:21077455C>G	uc003zok.2	-	1	489	c.414G>C	c.(412-414)ATG>ATC	p.M138I		NM_002176	NP_002167	P01574	IFNB_HUMAN	interferon, beta 1, fibroblast precursor	138					activation of caspase activity|B cell proliferation|blood coagulation|cellular response to exogenous dsRNA|defense response to virus|induction of apoptosis|natural killer cell activation|negative regulation of cell proliferation|negative regulation of T cell differentiation|negative regulation of T-helper 2 cell cytokine production|negative regulation of viral genome replication|negative regulation of viral transcription|negative regulation of virion penetration into host cell|positive regulation of innate immune response|positive regulation of transcription from RNA polymerase II promoter|regulation of MHC class I biosynthetic process|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding|transcription corepressor activity			ovary(1)|breast(1)|kidney(1)	3				GBM - Glioblastoma multiforme(5;7.45e-142)|Lung(24;2.42e-17)|LUSC - Lung squamous cell carcinoma(38;7.17e-11)	Interferon beta-1a(DB00060)|Interferon beta-1b(DB00068)	GCAGACTGCTCATGAGTTTTC	0.448													50	327	---	---	---	---	PASS	G	21077455	G	G	21077455	3	3	119	1	0	0	0	0	1	0	0	0	7546	826	29	2	153	2	IFNB1	9	21077455	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5608618	21077455	120135976	666	43839										
IFNA14	3448	broad.mit.edu	37	chr9	21239788	21239788	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgtccttcaggcaggagaaAggagagattctcctcatttg	11	9	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:21239788A>T	uc010mis.2	-	1	191	c.147T>A	c.(145-147)CCT>CCA	p.P49P	IFNA14_uc003zoo.1_RNA	NM_002172	NP_002163	P01570	IFN14_HUMAN	interferon, alpha 14 precursor	49					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;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		GGCAGGAGAAAGGAGAGATTC	0.483													79	121	---	---	---	---	PASS	T	21239788	T	T	21239788	2	4	119	1	0	0	0	0	0	0	0	1	7534	59	3	5		5	IFNA14	9	21239788	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	162333	21239788	119973643	667	43840										
CDKN2A	1029	broad.mit.edu	37	chr9	21970910	21970910	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcagtcctcacctgagggacCttccgcggcatctatgcggg	12	14	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:21970910C>T	uc003zpk.2	-	2	660	c.448G>A	c.(448-450)GGT>AGT	p.G150S	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_3'UTR	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	150			G -> V (in non-small cell lung carcinoma).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(13)|p.R128fs*12(3)|p.G150V(1)|p.G150G(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCTGAGGGACCTTCCGCGGCA	0.597		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			25	44	---	---	---	---	PASS	T	21970910	T	T	21970910	3	4	119	1	0	0	0	0	1	0	0	0	3161	681	24	3	30	3	CDKN2A	9	21970910	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	731122	21970910	119242521	668	43841										
SMC5	23137	broad.mit.edu	37	chr9	72961531	72961531	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	accaattcagcaagtacccaCcattccaaatggacacaact	4	14	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:72961531C>T	uc004ahr.2	+	19	2651	c.2534C>T	c.(2533-2535)ACC>ATC	p.T845I	SMC5_uc011lry.1_5'UTR	NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein	845					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						CAAGTACCCACCATTCCAAAT	0.438													30	267	---	---	---	---	PASS	T	72961531	T	T	72961531	3	4	119	1	0	0	0	0	1	0	0	0	14786	507	18	3	2608	3	SMC5	9	72961531	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	50990621	72961531	68251900	669	43842										
VPS13A	23230	broad.mit.edu	37	chr9	79875048	79875048	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttatttctttacgaatctcaGataaaaaactacaagggatt	5	6	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:79875048G>C	uc004akr.2	+	23	2595	c.2335G>C	c.(2335-2337)GAT>CAT	p.D779H	VPS13A_uc004akp.3_Missense_Mutation_p.D779H|VPS13A_uc004akq.3_Missense_Mutation_p.D779H|VPS13A_uc004aks.2_Missense_Mutation_p.D779H	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	779					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ACGAATCTCAGATAAAAAACT	0.299													18	94	---	---	---	---	PASS	C	79875048	C	C	79875048	3	2	119	1	0	0	0	0	1	0	0	0	17186	942	33	2	2425	2	VPS13A	9	79875048	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6913517	79875048	61338383	670	43843										
VPS13A	23230	broad.mit.edu	37	chr9	79933188	79933188	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaatactatgattaccataaCttcagcactgtatacaacta	3	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:79933188C>A	uc004akr.2	+	41	5254	c.4994C>A	c.(4993-4995)ACT>AAT	p.T1665N	VPS13A_uc004akp.3_Missense_Mutation_p.T1665N|VPS13A_uc004akq.3_Missense_Mutation_p.T1665N|VPS13A_uc004aks.2_Missense_Mutation_p.T1626N|VPS13A_uc004akt.2_Missense_Mutation_p.T5N|VPS13A_uc010mpo.1_Missense_Mutation_p.T261N	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1665					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ATTACCATAACTTCAGCACTG	0.313													35	110	---	---	---	---	PASS	A	79933188	A	A	79933188	3	1	119	1	0	0	0	0	1	0	0	0	17186	565	20	3	5156	3	VPS13A	9	79933188	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	58140	79933188	61280243	671	43844										
FRMD3	257019	broad.mit.edu	37	chr9	85862922	85862922	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtattcatagtgaaactgctCaaactctggtgtctggcgga	11	8	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:85862922C>G	uc004ams.1	-	14	1907	c.1705G>C	c.(1705-1707)GAG>CAG	p.E569Q	FRMD3_uc004amr.1_Intron|FRMD3_uc004amq.1_Intron	NM_174938	NP_777598	A2A2Y4	FRMD3_HUMAN	FERM domain containing 3	569						cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2						TGAAACTGCTCAAACTCTGGT	0.493													6	188	---	---	---	---	PASS	G	85862922	G	G	85862922	3	3	119	1	0	0	0	0	1	0	0	0	6050	835	29	2	92	2	FRMD3	9	85862922	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5929734	85862922	55350509	672	43845										
C9orf64	84267	broad.mit.edu	37	chr9	86559728	86559728	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctttgagaagcttcttcagTaggtcatcagagtatttcag	9	8	5	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:86559728T>A	uc004anb.2	-	3	1022	c.774A>T	c.(772-774)CTA>CTT	p.L258L	C9orf64_uc004anc.2_Silent_p.L117L	NM_032307	NP_115683	Q5T6V5	CI064_HUMAN	hypothetical protein LOC84267	258											0						GCTTCTTCAGTAGGTCATCAG	0.388													31	121	---	---	---	---	PASS	A	86559728	A	A	86559728	2	1	119	1	0	0	0	0	0	0	0	1	2489	1625	57	5		5	C9orf64	9	86559728	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	696806	86559728	54653703	673	43846										
CTSL1	1514	broad.mit.edu	37	chr9	90345939	90345939	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcagctggggtgaagaatggGgcatgggtggctacgtaaag	18	5	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:90345939G>A	uc004aph.2	+	8	1269	c.919G>A	c.(919-921)GGC>AGC	p.G307S	CTSL1_uc004api.2_Missense_Mutation_p.G307S|CTSL1_uc004apj.2_Missense_Mutation_p.G252S|CTSL1_uc010mqh.2_Missense_Mutation_p.G125S|CTSL1_uc004apk.2_Missense_Mutation_p.G307S|CTSL1_uc004apl.2_Missense_Mutation_p.G307S	NM_001912	NP_001903	P07711	CATL1_HUMAN	cathepsin L1 preproprotein	307					macrophage apoptosis|proteolysis	extracellular region|lysosome|nucleus	cysteine-type endopeptidase activity|histone binding			ovary(3)	3					Glucagon recombinant(DB00040)	TGAAGAATGGGGCATGGGTGG	0.488													6	55	---	---	---	---	PASS	A	90345939	A	A	90345939	3	1	119	1	0	0	0	0	1	0	0	0	4038	1232	43	3	945	3	CTSL1	9	90345939	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3786211	90345939	50867492	674	43847										
GADD45G	10912	broad.mit.edu	37	chr9	92220039	92220039	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgctggttgatcgcactatGactctggaagaagtccgcgg	13	10	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:92220039G>A	uc004aqq.2	+	1	113	c.3G>A	c.(1-3)ATG>ATA	p.M1I	GADD45G_uc004aqr.2_5'Flank	NM_006705	NP_006696	O95257	GA45G_HUMAN	growth arrest and DNA-damage-inducible, gamma	1					activation of MAPKKK activity|apoptosis|cell differentiation|DNA repair|multicellular organismal development		protein binding				0						ATCGCACTATGACTCTGGAAG	0.642													4	27	---	---	---	---	PASS	A	92220039	A	A	92220039	3	1	119	1	0	0	0	0	1	0	0	0	6183	1290	45	2	5	2	GADD45G	9	92220039	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1874100	92220039	48993392	675	43848										
CENPP	401541	broad.mit.edu	37	chr9	95107999	95107999	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agaataaggagagattatctTctgctgttactgacctcaac	8	8	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:95107999T>A	uc004arz.2	+	4	937	c.397T>A	c.(397-399)TCT>ACT	p.S133T	CENPP_uc010mqx.2_Missense_Mutation_p.S21T|CENPP_uc004ary.1_Missense_Mutation_p.S133T	NM_001012267	NP_001012267	Q6IPU0	CENPP_HUMAN	centromere protein P	133					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	chromosome, centromeric region|cytosol|nucleoplasm				ovary(2)	2						GAGATTATCTTCTGCTGTTAC	0.289													14	73	---	---	---	---	PASS	A	95107999	A	A	95107999	3	1	119	1	0	0	0	0	1	0	0	0	3240	1783	62	5	411	5	CENPP	9	95107999	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	2887960	95107999	46105432	676	43849										
ZNF169	169841	broad.mit.edu	37	chr9	97062288	97062288	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtggagagacagaaggccccGacagctcattaagaaagagg	14	8	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:97062288G>A	uc004aum.1	+	5	553	c.448G>A	c.(448-450)GAC>AAC	p.D150N		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	150						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				AGAAGGCCCCGACAGCTCATT	0.488													20	56	---	---	---	---	PASS	A	97062288	A	A	97062288	3	1	119	1	0	0	0	0	1	0	0	0	17739	1058	37	2	462	2	ZNF169	9	97062288	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1954289	97062288	44151143	677	43850										
NCBP1	4686	broad.mit.edu	37	chr9	100416152	100416152	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtacacaacactcctcattGaactgtgcaaacttcaacct	4	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:100416152G>A	uc004axq.2	+	11	1591	c.1132G>A	c.(1132-1134)GAA>AAA	p.E378K		NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa	378					gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)				ACTCCTCATTGAACTGTGCAA	0.378													12	150	---	---	---	---	PASS	A	100416152	A	A	100416152	3	1	119	1	0	0	0	0	1	0	0	0	10211	1291	45	2	1174	2	NCBP1	9	100416152	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3353864	100416152	40797279	678	43851										
GALNT12	79695	broad.mit.edu	37	chr9	101611249	101611249	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtaggatggatctttatttCacgaacagtccaagaaatgt	9	6	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:101611249C>T	uc004ayz.2	+	10	1621	c.1621C>T	c.(1621-1623)CAC>TAC	p.H541Y		NM_024642	NP_078918	Q8IXK2	GLT12_HUMAN	N-acetylgalactosaminyltransferase 12	541	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(62;0.0559)				ATCTTTATTTCACGAACAGTC	0.423											OREG0019361	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	75	---	---	---	---	PASS	T	101611249	T	T	101611249	3	4	119	1	0	0	0	0	1	0	0	0	6210	826	29	2	1659	2	GALNT12	9	101611249	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1195097	101611249	39602182	679	43852										
COL15A1	1306	broad.mit.edu	37	chr9	101751484	101751484	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctggagagaccagtgggctgCaggaggcagacggagtagct	18	8	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:101751484C>T	uc004azb.1	+	5	954	c.748C>T	c.(748-750)CAG>TAG	p.Q250*		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	250	Nonhelical region 1 (NC1).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				CAGTGGGCTGCAGGAGGCAGA	0.552													14	93	---	---	---	---	PASS	T	101751484	T	T	101751484	4	4	119	1	0	0	0	0	0	1	0	0	3672	711	25	3	766	3	COL15A1	9	101751484	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	140235	101751484	39461947	680	43853										
COL15A1	1306	broad.mit.edu	37	chr9	101832050	101832050	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaccgcggacacagcggtcaCgggacttgcctccccgctga	12	16	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:101832050C>T	uc004azb.1	+	42	4255	c.4049C>T	c.(4048-4050)ACG>ATG	p.T1350M		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1350	Nonhelical region 10 (NC10).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				ACAGCGGTCACGGGACTTGCC	0.542													46	154	---	---	---	---	PASS	T	101832050	T	T	101832050	3	4	119	1	0	0	0	0	1	0	0	0	3672	536	19	1	4215	1	COL15A1	9	101832050	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	80566	101832050	39381381	681	43854										
OR13D1	286365	broad.mit.edu	37	chr9	107456754	107456754	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acatttcaatttacctgaatCatgtccttttctatactacc	2	11	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:107456754C>A	uc011lvs.1	+	1	52	c.52C>A	c.(52-54)CAT>AAT	p.H18N		NM_001004484	NP_001004484	Q8NGV5	O13D1_HUMAN	olfactory receptor, family 13, subfamily D,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTACCTGAATCATGTCCTTTT	0.363													18	76	---	---	---	---	PASS	A	107456754	A	A	107456754	3	1	119	1	0	0	0	0	1	0	0	0	10940	826	29	2	54	2	OR13D1	9	107456754	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5624704	107456754	33756677	682	43855										
ZNF462	58499	broad.mit.edu	37	chr9	109687003	109687003	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagaaacaccgcagtatggtCaagatcctttccagtctcag	8	11	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:109687003C>G	uc004bcz.2	+	3	1099	c.810C>G	c.(808-810)GTC>GTG	p.V270V	ZNF462_uc010mto.2_Silent_p.V118V|ZNF462_uc004bda.2_Silent_p.V118V	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	270					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						GCAGTATGGTCAAGATCCTTT	0.522													30	91	---	---	---	---	PASS	G	109687003	G	G	109687003	2	3	119	1	0	0	0	0	0	0	0	1	17923	813	29	2		2	ZNF462	9	109687003	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2230249	109687003	31526428	683	43856										
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112899041	112899041	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cactctcaccacactgaaaaAggaggccaagtttgagctgc	9	12	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:112899041A>T	uc004bei.2	+	9	2105	c.1913A>T	c.(1912-1914)AAG>ATG	p.K638M	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.K406M|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.K406M|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.K216M|AKAP2_uc011lwi.1_Missense_Mutation_p.K264M|AKAP2_uc004bem.2_Missense_Mutation_p.K264M|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.K224M|AKAP2_uc011lwj.1_Missense_Mutation_p.K175M|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.K175M	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	175							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						ACACTGAAAAAGGAGGCCAAG	0.537													15	55	---	---	---	---	PASS	T	112899041	T	T	112899041	3	4	119	1	0	0	0	0	1	0	0	0	11410	72	3	5	1247	5	PALM2-AKAP2	9	112899041	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	3212038	112899041	28314390	684	43857										
MUSK	4593	broad.mit.edu	37	chr9	113550000	113550000	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttacttccctatgaacctttCactatggtggcagtaaagat	7	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:113550000C>T	uc004bey.2	+	13	1907	c.1809C>T	c.(1807-1809)TTC>TTT	p.F603F	MUSK_uc004bez.1_Silent_p.F183F	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	603	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						ATGAACCTTTCACTATGGTGG	0.438													4	87	---	---	---	---	PASS	T	113550000	T	T	113550000	2	4	119	1	0	0	0	0	0	0	0	1	9989	825	29	2		2	MUSK	9	113550000	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	650959	113550000	27663431	685	43858										
KIAA1958	158405	broad.mit.edu	37	chr9	115336509	115336509	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctgacagcaatgtggggctGtagtgctggccatgcttatc	13	10	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:115336509G>A	uc004bgf.1	+	2	324	c.149G>A	c.(148-150)TGT>TAT	p.C50Y	KIAA1958_uc011lwx.1_Missense_Mutation_p.C50Y	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	50										skin(1)	1						ATGTGGGGCTGTAGTGCTGGC	0.502													14	48	---	---	---	---	PASS	A	115336509	A	A	115336509	3	1	119	1	0	0	0	0	1	0	0	0	8264	1377	48	3	151	3	KIAA1958	9	115336509	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1786509	115336509	25876922	686	43859										
KIAA1958	158405	broad.mit.edu	37	chr9	115336775	115336775	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgaaactgttgaagaatatGaagatgagaacaccctgttt	9	5	0	6			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:115336775G>A	uc004bgf.1	+	2	590	c.415G>A	c.(415-417)GAA>AAA	p.E139K	KIAA1958_uc011lwx.1_Missense_Mutation_p.E139K	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	139										skin(1)	1						TGAAGAATATGAAGATGAGAA	0.453													56	157	---	---	---	---	PASS	A	115336775	A	A	115336775	3	1	119	1	0	0	0	0	1	0	0	0	8264	1291	45	2	417	2	KIAA1958	9	115336775	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	266	115336775	25876656	687	43860										
SLC46A2	57864	broad.mit.edu	37	chr9	115649615	115649615	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgttcactactcaccataaGaggagccctttatgagtttg	8	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:115649615G>C	uc004bgk.2	-	2	1440	c.1208C>G	c.(1207-1209)TCT>TGT	p.S403C		NM_033051	NP_149040	Q9BY10	TSCOT_HUMAN	solute carrier family 46, member 2	403	Cytoplasmic (Potential).					integral to membrane|plasma membrane	symporter activity			central_nervous_system(1)	1						CTCACCATAAGAGGAGCCCTT	0.502													7	18	---	---	---	---	PASS	C	115649615	C	C	115649615	3	2	119	1	0	0	0	0	1	0	0	0	14645	942	33	2	231	2	SLC46A2	9	115649615	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	312840	115649615	25563816	688	43861										
TRAF1	7185	broad.mit.edu	37	chr9	123675837	123675837	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tagcaatcgacctccaggtcCcccgccacttccacggctgc	8	19	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:123675837C>A	uc004bku.1	-	5	1046	c.474G>T	c.(472-474)GGG>GGT	p.G158G	TRAF1_uc011lyg.1_Silent_p.G36G|TRAF1_uc010mvl.1_Silent_p.G158G	NM_005658	NP_005649	Q13077	TRAF1_HUMAN	TNF receptor-associated factor 1	158					apoptosis|positive regulation of NF-kappaB transcription factor activity|protein complex assembly|regulation of apoptosis|signal transduction	cytoplasm	protein binding|zinc ion binding			skin(2)|ovary(1)	3						CCTCCAGGTCCCCCGCCACTT	0.662													11	85	---	---	---	---	PASS	A	123675837	A	A	123675837	2	1	119	1	0	0	0	0	0	0	0	1	16434	610	22	3		3	TRAF1	9	123675837	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	8026222	123675837	17537594	689	43862										
GSN	2934	broad.mit.edu	37	chr9	124074660	124074660	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caacagcaatcggtatgaaaGactgaaggccacacaggtgt	11	9	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:124074660G>C	uc004blf.1	+	5	771	c.710G>C	c.(709-711)AGA>ACA	p.R237T	GSN_uc004bld.1_Missense_Mutation_p.R186T|GSN_uc010mvq.1_Missense_Mutation_p.R197T|GSN_uc010mvr.1_Missense_Mutation_p.R197T|GSN_uc010mvu.1_Missense_Mutation_p.R186T|GSN_uc010mvt.1_Missense_Mutation_p.R186T|GSN_uc010mvs.1_Missense_Mutation_p.R186T|GSN_uc004ble.1_Missense_Mutation_p.R186T|GSN_uc010mvv.1_Missense_Mutation_p.R186T|GSN_uc011lyh.1_Missense_Mutation_p.R203T|GSN_uc011lyi.1_Missense_Mutation_p.R186T|GSN_uc011lyj.1_Missense_Mutation_p.R210T|GSN_uc004blg.1_5'UTR	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	237	Gelsolin-like 2.				actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						CGGTATGAAAGACTGAAGGCC	0.617													29	225	---	---	---	---	PASS	C	124074660	C	C	124074660	3	2	119	1	0	0	0	0	1	0	0	0	6825	942	33	2	756	2	GSN	9	124074660	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	398823	124074660	17138771	690	43863										
OR1B1	347169	broad.mit.edu	37	chr9	125391335	125391335	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcaggacgagtcccacacgCaacatggtgtgcagtatgga	14	10	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:125391335C>A	uc011lyz.1	-	1	480	c.480G>T	c.(478-480)TTG>TTT	p.L160F		NM_001004450	NP_001004450	Q8NGR6	OR1B1_HUMAN	olfactory receptor, family 1, subfamily B,	160	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTCCCACACGCAACATGGTGT	0.557													13	40	---	---	---	---	PASS	A	125391335	A	A	125391335	3	1	119	1	0	0	0	0	1	0	0	0	10951	709	25	3	479	3	OR1B1	9	125391335	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1316675	125391335	15822096	691	43864										
OR1L4	254973	broad.mit.edu	37	chr9	125486533	125486533	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgctggtgaattttctatcaGagacaaagattatctcttat	7	6	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:125486533G>C	uc004bmu.1	+	1	265	c.265G>C	c.(265-267)GAG>CAG	p.E89Q		NM_001005235	NP_001005235	Q8NGR5	OR1L4_HUMAN	olfactory receptor, family 1, subfamily L,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTTTCTATCAGAGACAAAGAT	0.448													6	180	---	---	---	---	PASS	C	125486533	C	C	125486533	3	2	119	1	0	0	0	0	1	0	0	0	10965	943	33	2	267	2	OR1L4	9	125486533	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	95198	125486533	15726898	692	43865										
LMX1B	4010	broad.mit.edu	37	chr9	129455528	129455528	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgcggaggcccaagcgacccCggaccatcctcaccacgcag	11	19	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:129455528C>G	uc004bqj.2	+	4	648	c.598C>G	c.(598-600)CGG>GGG	p.R200G	LMX1B_uc004bqi.2_Missense_Mutation_p.R200G|LMX1B_uc011maa.1_Missense_Mutation_p.R200G	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	200	Homeobox.				dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CAAGCGACCCCGGACCATCCT	0.577									Nail-Patella_Syndrome				5	16	---	---	---	---	PASS	G	129455528	G	G	129455528	3	3	119	1	0	0	0	0	1	0	0	0	8862	643	23	4	681	4	LMX1B	9	129455528	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3968995	129455528	11757903	693	43866										
GARNL3	84253	broad.mit.edu	37	chr9	130100413	130100413	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agatatttttgccttagtgaGatacaatcaacaaaatgaca	6	6	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:130100413G>A	uc011mae.1	+	12	1402	c.1001G>A	c.(1000-1002)AGA>AAA	p.R334K	GARNL3_uc011mad.1_Missense_Mutation_p.R312K|GARNL3_uc004bqt.1_Missense_Mutation_p.R115K	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	334	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						GCCTTAGTGAGATACAATCAA	0.383													53	203	---	---	---	---	PASS	A	130100413	A	A	130100413	3	1	119	1	0	0	0	0	1	0	0	0	6241	942	33	2	1047	2	GARNL3	9	130100413	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	644885	130100413	11113018	694	43867										
SPTAN1	6709	broad.mit.edu	37	chr9	131383448	131383448	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctactccagggcttactgaaGaaacatgaagcttttgagac	9	9	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:131383448G>A	uc004bvl.3	+	44	5843	c.5730G>A	c.(5728-5730)AAG>AAA	p.K1910K	SPTAN1_uc004bvm.3_Silent_p.K1915K|SPTAN1_uc004bvn.3_Silent_p.K1890K	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1910	Spectrin 20.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						GCTTACTGAAGAAACATGAAG	0.343													19	87	---	---	---	---	PASS	A	131383448	A	A	131383448	2	1	119	1	0	0	0	0	0	0	0	1	15116	933	33	2		2	SPTAN1	9	131383448	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1283035	131383448	9829983	695	43868										
CRAT	1384	broad.mit.edu	37	chr9	131860614	131860614	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagtcttttccaaaatggtgGaacaccatcacggtgatatc	8	9	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:131860614G>A	uc004bxh.2	-	10	1524	c.1242C>T	c.(1240-1242)TTC>TTT	p.F414F	CRAT_uc004bxg.2_Silent_p.F393F|CRAT_uc004bxk.3_Silent_p.F393F	NM_000755	NP_000746	P43155	CACP_HUMAN	carnitine acetyltransferase precursor	414					energy derivation by oxidation of organic compounds|fatty acid beta-oxidation using acyl-CoA oxidase|transport	endoplasmic reticulum|mitochondrial inner membrane|peroxisomal matrix	carnitine O-acetyltransferase activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)	L-Carnitine(DB00583)	CAAAATGGTGGAACACCATCA	0.597													33	119	---	---	---	---	PASS	A	131860614	A	A	131860614	2	1	119	1	0	0	0	0	0	0	0	1	3847	1165	41	2		2	CRAT	9	131860614	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	477166	131860614	9352817	696	43869										
ABL1	25	broad.mit.edu	37	chr9	133760253	133760253	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccccaccagcaaagcaggctCaggtgcaccagggggcacca	12	16	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:133760253C>G	uc004bzw.2	+	11	2579	c.2576C>G	c.(2575-2577)TCA>TGA	p.S859*	ABL1_uc004bzv.2_Nonsense_Mutation_p.S878*	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	859	Pro-rich.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	AAAGCAGGCTCAGGTGCACCA	0.652			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								18	23	---	---	---	---	PASS	G	133760253	G	G	133760253	4	3	119	1	0	0	0	0	0	1	0	0	92	838	29	2	2758	2	ABL1	9	133760253	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1899639	133760253	7453178	697	43870										
BAT2L1	84726	broad.mit.edu	37	chr9	134321843	134321843	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ataatttctgccacgtctctGagcacctccccaactgagct	6	15	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:134321843G>C	uc004can.3	+	6	724	c.669G>C	c.(667-669)CTG>CTC	p.L223L	BAT2L1_uc010mzj.1_5'Flank|BAT2L1_uc004cam.1_Silent_p.L223L	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	223							protein binding				0						CCACGTCTCTGAGCACCTCCC	0.602													10	76	---	---	---	---	PASS	C	134321843	C	C	134321843	2	2	119	1	0	0	0	0	0	0	0	1	1320	1277	45	2		2	BAT2L1	9	134321843	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	561590	134321843	6891588	698	43871										
RAPGEF1	2889	broad.mit.edu	37	chr9	134501478	134501478	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatgggatcggggctgtgctCtgcaggtcctccccagagat	15	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:134501478C>G	uc004cbc.2	-	10	1612	c.1482G>C	c.(1480-1482)CAG>CAC	p.Q494H	RAPGEF1_uc004cbb.2_Missense_Mutation_p.Q512H|RAPGEF1_uc010mzm.2_RNA|RAPGEF1_uc010mzn.2_Missense_Mutation_p.Q499H|RAPGEF1_uc004cbd.2_Missense_Mutation_p.Q499H	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	494					activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		GGGCTGTGCTCTGCAGGTCCT	0.622													8	76	---	---	---	---	PASS	G	134501478	G	G	134501478	3	3	119	1	0	0	0	0	1	0	0	0	13043	912	32	2	1811	2	RAPGEF1	9	134501478	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	179635	134501478	6711953	699	43872										
MED27	9442	broad.mit.edu	37	chr9	134814846	134814846	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcctgtcaatgcggctgatCacatcatcaacatatctaca	5	12	5	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:134814846C>T	uc004cbe.1	-	4	517	c.495G>A	c.(493-495)GTG>GTA	p.V165V	MED27_uc004cbf.1_Silent_p.V165V|MED27_uc011mco.1_Silent_p.V165V|MED27_uc004cbg.3_Silent_p.V165V	NM_004269	NP_004260	Q6P2C8	MED27_HUMAN	mediator complex subunit 27	165					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleolus|transcription factor complex	protein binding|transcription coactivator activity			skin(1)	1		Myeloproliferative disorder(178;0.206)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000193)		TGCGGCTGATCACATCATCAA	0.373													7	138	---	---	---	---	PASS	T	134814846	T	T	134814846	2	4	119	1	0	0	0	0	0	0	0	1	9445	813	29	2		2	MED27	9	134814846	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	313368	134814846	6398585	700	43873										
OLFM1	10439	broad.mit.edu	37	chr9	137967606	137967606	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cacccggcccggaagctcctCagcctcctcttcctcatcct	6	21	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:137967606C>T	uc004cfl.3	+	1	518	c.54C>T	c.(52-54)CTC>CTT	p.L18L	OLFM1_uc010naq.1_Silent_p.L8L|OLFM1_uc004cfk.3_Silent_p.L18L	NM_014279	NP_055094	Q99784	NOE1_HUMAN	olfactomedin related ER localized protein	Error:Variant_position_missing_in_Q99784_after_alignment					nervous system development	endoplasmic reticulum lumen	protein binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(178;0.0333)		Epithelial(140;5.49e-08)|OV - Ovarian serous cystadenocarcinoma(145;9.68e-08)|all cancers(34;1.88e-07)		GGAAGCTCCTCAGCCTCCTCT	0.687													6	35	---	---	---	---	PASS	T	137967606	T	T	137967606	2	4	119	1	0	0	0	0	0	0	0	1	10852	813	29	2		2	OLFM1	9	137967606	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	3152760	137967606	3245825	701	43874										
SNAPC4	6621	broad.mit.edu	37	chr9	139289860	139289860	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcctttggacccagccagatCcctcatgagttcctcctgtg	9	15	1	2	rs145005705		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:139289860C>T	uc004chh.2	-	4	370	c.361G>A	c.(361-363)GAT>AAT	p.D121N		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	121	SNAPC5-binding.				snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		CCAGCCAGATCCCTCATGAGT	0.572													4	119	---	---	---	---	PASS	T	139289860	T	T	139289860	3	4	119	1	0	0	0	0	1	0	0	0	14837	855	30	2	4124	2	SNAPC4	9	139289860	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1322254	139289860	1923571	702	43875										
NOTCH1	4851	broad.mit.edu	37	chr9	139397647	139397647	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cacttactctgcacggcctcGatcttgtaggggatgttgag	12	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:139397647G>A	uc004chz.2	-	27	5154	c.5154C>T	c.(5152-5154)ATC>ATT	p.I1718I	NOTCH1_uc004cia.1_Silent_p.I948I	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1718	Extracellular (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.1719_1720>QKGPLAAFLGALASLGSLTIPYLI(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GCACGGCCTCGATCTTGTAGG	0.667			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			11	78	---	---	---	---	PASS	A	139397647	A	A	139397647	2	1	119	1	0	0	0	0	0	0	0	1	10547	1048	37	2		2	NOTCH1	9	139397647	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	107787	139397647	1815784	703	43876										
EHMT1	79813	broad.mit.edu	37	chr9	140685343	140685343	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcagaagaccagaggacccCgttgatggaagcagccgaaa	12	11	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:140685343C>T	uc011mfc.1	+	16	2463	c.2426C>T	c.(2425-2427)CCG>CTG	p.P809L	EHMT1_uc004cob.1_Missense_Mutation_p.P778L	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	809	ANK 3.				DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		CAGAGGACCCCGTTGATGGAA	0.557													54	237	---	---	---	---	PASS	T	140685343	T	T	140685343	3	4	119	1	0	0	0	0	1	0	0	0	4983	652	23	1	2537	1	EHMT1	9	140685343	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1287696	140685343	528088	704	43877										
CACNA1B	774	broad.mit.edu	37	chr9	140809200	140809200	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccatcctcatgtttgccatCattggcctggagttctacat	8	12	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:140809200C>T	uc004cog.2	+	5	862	c.717C>T	c.(715-717)ATC>ATT	p.I239I		NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	239	Helical; Name=S5 of repeat I; (Potential).|I.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TGTTTGCCATCATTGGCCTGG	0.567													14	89	---	---	---	---	PASS	T	140809200	T	T	140809200	2	4	119	1	0	0	0	0	0	0	0	1	2539	816	29	2		2	CACNA1B	9	140809200	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	123857	140809200	404231	705	43878										
CACNA1B	774	broad.mit.edu	37	chr9	140948447	140948447	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatgaatccaaggagctggaGagggactgcaggtaaactga	15	6	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr9:140948447G>C	uc004cog.2	+	26	4102	c.3957G>C	c.(3955-3957)GAG>GAC	p.E1319D	CACNA1B_uc011mfd.1_Missense_Mutation_p.E849D|CACNA1B_uc004coi.2_Missense_Mutation_p.E533D	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	1319	III.|Extracellular (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	AGGAGCTGGAGAGGGACTGCA	0.517													6	179	---	---	---	---	PASS	C	140948447	C	C	140948447	3	2	119	1	0	0	0	0	1	0	0	0	2539	933	33	2	4059	2	CACNA1B	9	140948447	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	139247	140948447	264984	706	43879										
IDI2	91734	broad.mit.edu	37	chr10	1065729	1065729	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccaaattctgtctgattttgCcttgtggtgatagattgtca	9	7	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:1065729C>T	uc001ifv.1	-	5	477	c.412G>A	c.(412-414)GCA>ACA	p.A138T	C10orf110_uc010qaf.1_5'Flank|C10orf110_uc001ifx.3_5'Flank|C10orf110_uc001ifw.3_5'Flank|C10orf110_uc001ify.3_5'Flank	NM_033261	NP_150286	Q9BXS1	IDI2_HUMAN	isopentenyl-diphosphate delta isomerase 2	138	Nudix hydrolase.				carotenoid biosynthetic process|cholesterol biosynthetic process	cytosol|peroxisome	hydrolase activity|isopentenyl-diphosphate delta-isomerase activity|metal ion binding				0		Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.143)	Epithelial(11;0.067)|OV - Ovarian serous cystadenocarcinoma(14;0.169)|all cancers(11;0.192)		TCTGATTTTGCCTTGTGGTGA	0.398													4	205	---	---	---	---	PASS	T	1065729	T	T	1065729	3	4	119	1	0	0	0	0	1	0	0	0	7500	739	26	3	275	3	IDI2	10	1065729	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08		1065729	134469018	707	43880										
CELF2	10659	broad.mit.edu	37	chr10	11259437	11259437	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaagctgcacttgaggcccaGaatgcactgcacaatattaa	8	10	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:11259437G>A	uc001iki.3	+	3	392	c.300G>A	c.(298-300)CAG>CAA	p.Q100Q	CELF2_uc010qbi.1_Intron|CELF2_uc010qbj.1_Silent_p.Q100Q|CELF2_uc001ikk.2_Silent_p.Q107Q|CELF2_uc001ikl.3_Silent_p.Q107Q|CELF2_uc010qbk.1_RNA|CELF2_uc010qbl.1_Silent_p.Q76Q|CELF2_uc010qbm.1_Intron|CELF2_uc001iko.3_Silent_p.Q76Q|CELF2_uc001ikp.3_Silent_p.Q76Q|CELF2_uc010qbn.1_Silent_p.Q84Q|CELF2_uc009xiw.1_Intron|CELF2_uc010qbo.1_Intron|CELF2_uc010qbp.1_Intron	NM_001025077	NP_001020248	O95319	CELF2_HUMAN	CUG triplet repeat, RNA binding protein 2	100	Necessary for RNA-binding, TNNT2 exon 5 and NMDA R1 exon 21 inclusion.|RRM 1.				mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0						TTGAGGCCCAGAATGCACTGC	0.363													7	128	---	---	---	---	PASS	A	11259437	A	A	11259437	2	1	119	1	0	0	0	0	0	0	0	1	3216	933	33	2		2	CELF2	10	11259437	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	10193708	11259437	124275310	708	43881										
CUBN	8029	broad.mit.edu	37	chr10	17026276	17026276	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggaaatcggggcctccataGatctaacatgggatgtagga	13	7	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:17026276G>A	uc001ioo.2	-	30	4405	c.4353C>T	c.(4351-4353)ATC>ATT	p.I1451I		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1451	CUB 9.				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)	GGCCTCCATAGATCTAACATG	0.473													5	135	---	---	---	---	PASS	A	17026276	A	A	17026276	2	1	119	1	0	0	0	0	0	0	0	1	4051	932	33	2		2	CUBN	10	17026276	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	5766839	17026276	118508471	709	43882										
CUBN	8029	broad.mit.edu	37	chr10	17087132	17087132	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagctgtggtaatagggcatCgggtagttgggagatatgaa	17	3	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:17087132C>G	uc001ioo.2	-	25	3598	c.3546G>C	c.(3544-3546)CCG>CCC	p.P1182P		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1182	CUB 7.				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)	AATAGGGCATCGGGTAGTTGG	0.493													53	64	---	---	---	---	PASS	G	17087132	G	G	17087132	2	3	119	1	0	0	0	0	0	0	0	1	4051	871	31	2		2	CUBN	10	17087132	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	60856	17087132	118447615	710	43883										
NSUN6	221078	broad.mit.edu	37	chr10	18834947	18834947	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcaacatgtcttctcttctgGcctctctaagagagtccatg	8	12	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:18834947G>T	uc010qcp.1	-	11	1743	c.1325C>A	c.(1324-1326)GCC>GAC	p.A442D	NSUN6_uc001iqb.2_5'Flank	NM_182543	NP_872349	Q8TEA1	NSUN6_HUMAN	NOL1/NOP2/Sun domain family, member 6	442							methyltransferase activity|RNA binding			ovary(2)	2						TTCTCTTCTGGCCTCTCTAAG	0.458													53	393	---	---	---	---	PASS	T	18834947	T	T	18834947	3	4	119	1	0	0	0	0	1	0	0	0	10682	1203	42	3	88	3	NSUN6	10	18834947	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1747815	18834947	116699800	711	43884										
ARMC3	219681	broad.mit.edu	37	chr10	23248443	23248443	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagccactcatcagactactGagtagccctgacccggatgt	10	13	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:23248443G>A	uc001irm.3	+	6	560	c.477G>A	c.(475-477)CTG>CTA	p.L159L	ARMC3_uc010qcv.1_Silent_p.L159L|ARMC3_uc010qcw.1_Intron|ARMC3_uc001irn.1_Silent_p.L71L	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	159	ARM 4.						binding				0						TCAGACTACTGAGTAGCCCTG	0.403													17	122	---	---	---	---	PASS	A	23248443	A	A	23248443	2	1	119	1	0	0	0	0	0	0	0	1	952	1277	45	2		2	ARMC3	10	23248443	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	4413496	23248443	112286304	712	43885										
ARHGAP21	57584	broad.mit.edu	37	chr10	24886905	24886905	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttgtattcttttattcttcGactaattagatccctgttag	6	7	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:24886905G>A	uc001isb.2	-	15	3653	c.3166C>T	c.(3166-3168)CGA>TGA	p.R1056*	ARHGAP21_uc010qdb.1_RNA|ARHGAP21_uc009xkl.1_Nonsense_Mutation_p.R1056*|ARHGAP21_uc010qdc.1_Nonsense_Mutation_p.R891*	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	1055	Interaction with ARF1 and ARF6.				signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						TTTATTCTTCGACTAATTAGA	0.279													27	210	---	---	---	---	PASS	A	24886905	A	A	24886905	4	1	119	1	0	0	0	0	0	1	0	0	871	1066	37	2	2758	2	ARHGAP21	10	24886905	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1638462	24886905	110647842	713	43886										
BAMBI	25805	broad.mit.edu	37	chr10	28970465	28970465	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttctctctcctcccaggggtGaggcctcaggtaggtggaag	14	11	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:28970465G>A	uc001iuj.1	+	2	758	c.355G>A	c.(355-357)GAG>AAG	p.E119K	BAMBI_uc001iui.2_Missense_Mutation_p.E119K	NM_012342	NP_036474	Q13145	BAMBI_HUMAN	BMP and activin membrane-bound inhibitor	119	Extracellular (Potential).				cell migration|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of cell proliferation|positive regulation of epithelial to mesenchymal transition|positive regulation of protein binding|positive regulation of transcription, DNA-dependent|regulation of cell shape	cytoplasm|integral to membrane|plasma membrane	frizzled binding|type II transforming growth factor beta receptor binding			central_nervous_system(4)	4						TCCCAGGGGTGAGGCCTCAGG	0.498													6	143	---	---	---	---	PASS	A	28970465	A	A	28970465	3	1	119	1	0	0	0	0	1	0	0	0	1306	1291	45	2	361	2	BAMBI	10	28970465	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4083560	28970465	106564282	714	43887										
C10orf68	79741	broad.mit.edu	37	chr10	33015711	33015711	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caagattcagtgtcaaaactCcaaatgcaagaaaagaaaaa	6	7	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:33015711C>G	uc001iwn.3	+	8	1013	c.540C>G	c.(538-540)CTC>CTG	p.L180L	C10orf68_uc001iwl.1_Silent_p.L188L|C10orf68_uc001iwm.1_Silent_p.L156L|C10orf68_uc010qei.1_Silent_p.L107L|C10orf68_uc001iwo.3_5'Flank	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	180										skin(2)|ovary(1)	3						TGTCAAAACTCCAAATGCAAG	0.274													6	76	---	---	---	---	PASS	G	33015711	G	G	33015711	2	3	119	1	0	0	0	0	0	0	0	1	1613	842	30	2		2	C10orf68	10	33015711	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	4045246	33015711	102519036	715	43888										
ANKRD30A	91074	broad.mit.edu	37	chr10	37508127	37508127	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cattaactaaaagggcatctCaatatagtgggcagcttaaa	8	7	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:37508127C>T	uc001iza.1	+	34	3418	c.3319C>T	c.(3319-3321)CAA>TAA	p.Q1107*		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1163	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AAGGGCATCTCAATATAGTGG	0.328													148	224	---	---	---	---	PASS	T	37508127	T	T	37508127	4	4	119	1	0	0	0	0	0	1	0	0	658	827	29	2	3453	2	ANKRD30A	10	37508127	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4492416	37508127	98026620	716	43889										
ZNF485	220992	broad.mit.edu	37	chr10	44104188	44104188	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgggaatctggtgtctgtgGgtgaggatggctttctcctt	15	6	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:44104188G>T	uc010qfc.1	+	3	345	c.151G>T	c.(151-153)GGG>TGG	p.G51W	ZNF485_uc010qfd.1_Intron	NM_145312	NP_660355	Q8NCK3	ZN485_HUMAN	zinc finger protein 485	51	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGTGTCTGTGGGTGAGGATGG	0.498													9	92	---	---	---	---	PASS	T	44104188	T	T	44104188	3	4	119	1	0	0	0	0	1	0	0	0	17935	1246	43	3	157	3	ZNF485	10	44104188	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6596061	44104188	91430559	717	43890										
OR13A1	79290	broad.mit.edu	37	chr10	45799724	45799724	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccccagagtagaggaagagGaaacagctgaataagaacac	12	8	0	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:45799724G>A	uc001jcc.1	-	4	456	c.147C>T	c.(145-147)TTC>TTT	p.F49F	OR13A1_uc001jcd.1_Silent_p.F45F	NM_001004297	NP_001004297	Q8NGR1	O13A1_HUMAN	olfactory receptor, family 13, subfamily A,	49	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGAGGAAGAGGAAACAGCTGA	0.517													11	94	---	---	---	---	PASS	A	45799724	A	A	45799724	2	1	119	1	0	0	0	0	0	0	0	1	10933	1165	41	2		2	OR13A1	10	45799724	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1695536	45799724	89735023	718	43891										
ANUBL1	93550	broad.mit.edu	37	chr10	46121658	46121658	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caactttggaaataacatcaGatcttttcccaagtgaatca	5	9	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:46121658G>A	uc001jcp.3	-	7	1855	c.1613C>T	c.(1612-1614)TCT>TTT	p.S538F	ANUBL1_uc001jcl.3_Missense_Mutation_p.S58F|ANUBL1_uc001jcm.3_Missense_Mutation_p.S538F|ANUBL1_uc009xmu.2_Missense_Mutation_p.S464F|ANUBL1_uc001jcn.3_Missense_Mutation_p.S464F|ANUBL1_uc001jco.3_Intron	NM_001128324	NP_001121796	Q86XD8	ANUB1_HUMAN	AN1, ubiquitin-like, homolog	538							zinc ion binding				0						AATAACATCAGATCTTTTCCC	0.378													22	230	---	---	---	---	PASS	A	46121658	A	A	46121658	3	1	119	1	0	0	0	0	1	0	0	0	713	942	33	2	586	2	ANUBL1	10	46121658	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	321934	46121658	89413089	719	43892										
SYT15	83849	broad.mit.edu	37	chr10	46968611	46968611	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctggaggtgtgaggcagcaGctctgatgccgggcaggggt	20	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:46968611G>A	uc001jea.2	-	3	478	c.325C>T	c.(325-327)CTG>TTG	p.L109L	SYT15_uc001jdz.2_Silent_p.L109L|SYT15_uc001jeb.2_5'UTR|SYT15_uc010qfp.1_5'Flank	NM_031912	NP_114118	Q9BQS2	SYT15_HUMAN	synaptotagmin XV isoform a	109	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0						TGAGGCAGCAGCTCTGATGCC	0.667													5	52	---	---	---	---	PASS	A	46968611	A	A	46968611	2	1	119	1	0	0	0	0	0	0	0	1	15468	962	34	3		3	SYT15	10	46968611	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	846953	46968611	88566136	720	43893										
FRMPD2	143162	broad.mit.edu	37	chr10	49393641	49393641	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagtgtcacacgtacaatttCtcggcccggttcagctataa	8	12	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:49393641C>T	uc001jgi.2	-	18	2421	c.2314G>A	c.(2314-2316)GAA>AAA	p.E772K	FRMPD2_uc001jgh.2_Missense_Mutation_p.E740K|FRMPD2_uc001jgj.2_Missense_Mutation_p.E750K	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	772					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		CGTACAATTTCTCGGCCCGGT	0.493													9	121	---	---	---	---	PASS	T	49393641	T	T	49393641	3	4	119	1	0	0	0	0	1	0	0	0	6058	922	32	2	1663	2	FRMPD2	10	49393641	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2425030	49393641	86141106	721	43894										
FRMPD2	143162	broad.mit.edu	37	chr10	49400861	49400861	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttttctgagcatgacaatctCtgaatccaaatgagaggctt	8	8	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:49400861C>G	uc001jgi.2	-	16	2138	c.2031G>C	c.(2029-2031)CAG>CAC	p.Q677H	FRMPD2_uc001jgh.2_Missense_Mutation_p.Q645H|FRMPD2_uc001jgj.2_Missense_Mutation_p.Q655H	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	677					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		ATGACAATCTCTGAATCCAAA	0.473													30	121	---	---	---	---	PASS	G	49400861	G	G	49400861	3	3	119	1	0	0	0	0	1	0	0	0	6058	912	32	2	1954	2	FRMPD2	10	49400861	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	7220	49400861	86133886	722	43895										
PCDH15	65217	broad.mit.edu	37	chr10	55568917	55568917	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaactctcctcctcctcagaGggtgtctctgactcagattc	8	14	4	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:55568917G>A	uc010qhs.1	-	37	5303	c.4908C>T	c.(4906-4908)CCC>CCT	p.P1636P	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qht.1_Silent_p.P1629P|PCDH15_uc010qhu.1_3'UTR	NM_001142769	NP_001136241	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CCTCCTCAGAGGGTGTCTCTG	0.463										HNSCC(58;0.16)			12	103	---	---	---	---	PASS	A	55568917	A	A	55568917	2	1	119	1	0	0	0	0	0	0	0	1	11511	987	35	3		3	PCDH15	10	55568917	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	6168056	55568917	79965830	723	43896										
PCDH15	65217	broad.mit.edu	37	chr10	55663038	55663038	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agaagtaaacattcttgcatCttcagatacacctccgatgt	6	10	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:55663038C>T	uc001jju.1	-	26	3861	c.3466G>A	c.(3466-3468)GAT>AAT	p.D1156N	PCDH15_uc010qhq.1_Missense_Mutation_p.D1161N|PCDH15_uc010qhr.1_Missense_Mutation_p.D1156N|PCDH15_uc010qhs.1_Missense_Mutation_p.D1168N|PCDH15_uc010qht.1_Missense_Mutation_p.D1163N|PCDH15_uc010qhu.1_Missense_Mutation_p.D1156N|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.D1156N|PCDH15_uc010qhw.1_Missense_Mutation_p.D1119N|PCDH15_uc010qhx.1_Missense_Mutation_p.D1085N|PCDH15_uc010qhy.1_Missense_Mutation_p.D1161N|PCDH15_uc010qhz.1_Missense_Mutation_p.D1156N|PCDH15_uc010qia.1_Missense_Mutation_p.D1134N|PCDH15_uc010qib.1_Missense_Mutation_p.D1134N	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1156	Cadherin 11.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ATTCTTGCATCTTCAGATACA	0.363										HNSCC(58;0.16)			32	88	---	---	---	---	PASS	T	55663038	T	T	55663038	3	4	119	1	0	0	0	0	1	0	0	0	11511	913	32	2	4052	2	PCDH15	10	55663038	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	94121	55663038	79871709	724	43897										
PCDH15	65217	broad.mit.edu	37	chr10	55944935	55944935	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcttccctgtccactggttGaagtaaggtgaggtagcgag	13	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:55944935G>A	uc001jju.1	-	12	1794	c.1399C>T	c.(1399-1401)CAA>TAA	p.Q467*	PCDH15_uc010qhq.1_Nonsense_Mutation_p.Q472*|PCDH15_uc010qhr.1_Nonsense_Mutation_p.Q467*|PCDH15_uc010qhs.1_Nonsense_Mutation_p.Q479*|PCDH15_uc010qht.1_Nonsense_Mutation_p.Q474*|PCDH15_uc010qhu.1_Nonsense_Mutation_p.Q467*|PCDH15_uc001jjv.1_Nonsense_Mutation_p.Q445*|PCDH15_uc010qhv.1_Nonsense_Mutation_p.Q467*|PCDH15_uc010qhw.1_Nonsense_Mutation_p.Q430*|PCDH15_uc010qhx.1_Nonsense_Mutation_p.Q467*|PCDH15_uc010qhy.1_Nonsense_Mutation_p.Q472*|PCDH15_uc010qhz.1_Nonsense_Mutation_p.Q467*|PCDH15_uc010qia.1_Nonsense_Mutation_p.Q445*|PCDH15_uc010qib.1_Nonsense_Mutation_p.Q445*|PCDH15_uc001jjw.2_Nonsense_Mutation_p.Q467*	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	467	Cadherin 4.|Extracellular (Potential).			Q -> L (in Ref. 1; AAK31581).	equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TCCACTGGTTGAAGTAAGGTG	0.353										HNSCC(58;0.16)			24	144	---	---	---	---	PASS	A	55944935	A	A	55944935	4	1	119	1	0	0	0	0	0	1	0	0	11511	1299	45	2	6175	2	PCDH15	10	55944935	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	281897	55944935	79589812	725	43898										
ANK3	288	broad.mit.edu	37	chr10	61833437	61833437	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccagataagaaggcaatgacTcttcagcagtaagttcttct	8	9	4	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:61833437T>A	uc001jky.2	-	37	7394	c.7202A>T	c.(7201-7203)GAG>GTG	p.E2401V	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2401					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						AGGCAATGACTCTTCAGCAGT	0.428													36	110	---	---	---	---	PASS	A	61833437	A	A	61833437	3	1	119	1	0	0	0	0	1	0	0	0	622	1551	54	5	6272	5	ANK3	10	61833437	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	5888502	61833437	73701310	726	43899										
TMEM26	219623	broad.mit.edu	37	chr10	63170105	63170105	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggtgtggtgggagtcgtcgGaggtgactggggagccccgc	22	8	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:63170105G>A	uc001jlo.2	-	6	1451	c.1082C>T	c.(1081-1083)TCC>TTC	p.S361F	TMEM26_uc010qij.1_RNA|TMEM26_uc001jlp.1_RNA	NM_178505	NP_848600	Q6ZUK4	TMM26_HUMAN	transmembrane protein 26	361						integral to membrane					0	Prostate(12;0.0112)					GGAGTCGTCGGAGGTGACTGG	0.582													4	91	---	---	---	---	PASS	A	63170105	A	A	63170105	3	1	119	1	0	0	0	0	1	0	0	0	16148	1174	41	2	28	2	TMEM26	10	63170105	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1336668	63170105	72364642	727	43900										
JMJD1C	221037	broad.mit.edu	37	chr10	64967434	64967434	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatgtgccccagctgaagatCtttcactaacacgatcttta	6	11	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:64967434C>G	uc001jmn.2	-	10	4295	c.3995G>C	c.(3994-3996)AGA>ACA	p.R1332T	JMJD1C_uc001jml.2_Missense_Mutation_p.R1113T|JMJD1C_uc001jmm.2_Missense_Mutation_p.R1044T|JMJD1C_uc010qiq.1_Missense_Mutation_p.R1150T|JMJD1C_uc009xpi.2_Missense_Mutation_p.R1150T|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Missense_Mutation_p.R369T	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1332					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					AGCTGAAGATCTTTCACTAAC	0.428													88	263	---	---	---	---	PASS	G	64967434	G	G	64967434	3	3	119	1	0	0	0	0	1	0	0	0	7950	913	32	2	3695	2	JMJD1C	10	64967434	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1797329	64967434	70567313	728	43901										
MYPN	84665	broad.mit.edu	37	chr10	69934214	69934214	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgagccactcccaccaggcCcaacagaaccaacaccacca	5	19	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:69934214C>A	uc001jnm.3	+	12	2550	c.2365C>A	c.(2365-2367)CCA>ACA	p.P789T	MYPN_uc001jnn.3_Missense_Mutation_p.P514T|MYPN_uc001jno.3_Missense_Mutation_p.P789T|MYPN_uc009xpt.2_Missense_Mutation_p.P789T|MYPN_uc010qit.1_Missense_Mutation_p.P495T|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	789	Pro-rich.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						CCCACCAGGCCCAACAGAACC	0.542													31	76	---	---	---	---	PASS	A	69934214	A	A	69934214	3	1	119	1	0	0	0	0	1	0	0	0	10098	623	22	3	2403	3	MYPN	10	69934214	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4966780	69934214	65600533	729	43902										
TET1	80312	broad.mit.edu	37	chr10	70332691	70332691	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtcccaaagagttgaggattCcaagatcaatatccctaccc	7	12	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:70332691C>A	uc001jok.3	+	2	1101	c.596C>A	c.(595-597)TCC>TAC	p.S199Y		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	199					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						GTTGAGGATTCCAAGATCAAT	0.468													28	121	---	---	---	---	PASS	A	70332691	A	A	70332691	3	1	119	1	0	0	0	0	1	0	0	0	15766	855	30	2	598	2	TET1	10	70332691	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	398477	70332691	65202056	730	43903										
CCAR1	55749	broad.mit.edu	37	chr10	70502187	70502187	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctactcctcagccaacagcaCaaataactgtatcatatcca	3	14	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:70502187C>T	uc001joo.2	+	6	498	c.379C>T	c.(379-381)CAA>TAA	p.Q127*	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_5'UTR|CCAR1_uc009xpx.1_Nonsense_Mutation_p.Q101*|CCAR1_uc001jon.1_Nonsense_Mutation_p.Q73*|CCAR1_uc010qiz.1_Nonsense_Mutation_p.Q112*|CCAR1_uc010qja.1_Nonsense_Mutation_p.Q112*|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	127					apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						GCCAACAGCACAAATAACTGT	0.423													59	127	---	---	---	---	PASS	T	70502187	T	T	70502187	4	4	119	1	0	0	0	0	0	1	0	0	2730	479	17	3	397	3	CCAR1	10	70502187	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	169496	70502187	65032560	731	43904										
CCAR1	55749	broad.mit.edu	37	chr10	70509417	70509417	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgttccacgttacacagttCagttttcaaagttttcttta	5	8	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:70509417C>T	uc001joo.2	+	10	1212	c.1093C>T	c.(1093-1095)CAG>TAG	p.Q365*	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Nonsense_Mutation_p.Q170*|CCAR1_uc009xpx.1_Nonsense_Mutation_p.Q339*|CCAR1_uc001jon.1_Nonsense_Mutation_p.Q311*|CCAR1_uc010qiz.1_Nonsense_Mutation_p.Q350*|CCAR1_uc010qja.1_Nonsense_Mutation_p.Q350*|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	365					apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						TTACACAGTTCAGTTTTCAAA	0.413													8	301	---	---	---	---	PASS	T	70509417	T	T	70509417	4	4	119	1	0	0	0	0	0	1	0	0	2730	827	29	2	1127	2	CCAR1	10	70509417	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	7230	70509417	65025330	732	43905										
NEUROG3	50674	broad.mit.edu	37	chr10	71332178	71332178	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagaaaatctgagaaagccaGactgcctgggctcaagcagg	12	10	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:71332178G>C	uc001jpp.2	-	2	780	c.622C>G	c.(622-624)CTG>GTG	p.L208V		NM_020999	NP_066279	Q9Y4Z2	NGN3_HUMAN	neurogenin 3	208					central nervous system development|endocrine pancreas development|peripheral nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	transcription coactivator activity				0						GAGAAAGCCAGACTGCCTGGG	0.662													2	10	---	---	---	---	PASS	C	71332178	C	C	71332178	3	2	119	1	0	0	0	0	1	0	0	0	10354	933	33	2	26	2	NEUROG3	10	71332178	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	822761	71332178	64202569	733	43906										
SAR1A	56681	broad.mit.edu	37	chr10	71920822	71920822	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagcaattgttagctcttctGatgctgaaaaattgtttaaa	7	6	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:71920822G>A	uc010qjh.1	-	5	385	c.182C>T	c.(181-183)TCA>TTA	p.S61L	SAR1A_uc010qji.1_Missense_Mutation_p.S61L|SAR1A_uc010qjj.1_Missense_Mutation_p.S18L	NM_001142648	NP_001136120	Q9NR31	SAR1A_HUMAN	SAR1a gene homolog 1	61					ER to Golgi vesicle-mediated transport|intracellular protein transport	Golgi apparatus	GTP binding|GTPase activity				0						TAGCTCTTCTGATGCTGAAAA	0.363													5	293	---	---	---	---	PASS	A	71920822	A	A	71920822	3	1	119	1	0	0	0	0	1	0	0	0	13839	1294	45	2	430	2	SAR1A	10	71920822	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	588644	71920822	63613925	734	43907										
NODAL	4838	broad.mit.edu	37	chr10	72195636	72195636	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcagtggggaggtccacaggGctggacagctgcagccggag	18	10	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:72195636G>C	uc001jrc.2	-	2	339	c.297C>G	c.(295-297)AGC>AGG	p.S99R		NM_018055	NP_060525	Q96S42	NODAL_HUMAN	nodal precursor	99					growth	extracellular space	cytokine activity|growth factor activity			large_intestine(1)|kidney(1)	2						GGTCCACAGGGCTGGACAGCT	0.572													21	79	---	---	---	---	PASS	C	72195636	C	C	72195636	3	2	119	1	0	0	0	0	1	0	0	0	10518	1194	42	4	754	4	NODAL	10	72195636	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	274814	72195636	63339111	735	43908										
SFTPA1	653509	broad.mit.edu	37	chr10	81373495	81373495	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggactcctctgctctcagccCtcagtctgcagggctccata	9	16	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:81373495C>G	uc001kap.2	+	6	494	c.373C>G	c.(373-375)CTC>GTC	p.L125V	SFTPA1_uc001kaq.2_Missense_Mutation_p.L125V|SFTPA1_uc009xry.2_Missense_Mutation_p.L140V|SFTPA1_uc001kar.2_Missense_Mutation_p.L125V|SFTPA1_uc010qlt.1_Missense_Mutation_p.L66V|SFTPA1_uc009xrz.2_Missense_Mutation_p.L55V|SFTPA1_uc009xsa.2_Missense_Mutation_p.L125V|SFTPA1_uc009xsf.2_5'Flank	NM_005411	NP_005402	Q8IWL2	SFTA1_HUMAN	surfactant protein A1 isoform 1	125					cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	lipid transporter activity|sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			GCTCTCAGCCCTCAGTCTGCA	0.562													50	244	---	---	---	---	PASS	G	81373495	G	G	81373495	3	3	119	1	0	0	0	0	1	0	0	0	14189	681	24	4	436	4	SFTPA1	10	81373495	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	9177859	81373495	54161252	736	43909										
LDB3	11155	broad.mit.edu	37	chr10	88441531	88441531	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taccagatgagcctccgaggGaaggcctcgggtgtcggact	15	11	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:88441531G>T	uc001kdv.2	+	4	683	c.660G>T	c.(658-660)GGG>GGT	p.G220G	LDB3_uc010qml.1_Silent_p.G220G|LDB3_uc010qmm.1_Silent_p.G220G|LDB3_uc001kdu.2_Intron|LDB3_uc009xsz.2_Intron|LDB3_uc001kdr.2_Intron|LDB3_uc009xsy.2_Silent_p.G220G|LDB3_uc001kds.2_Silent_p.G220G|LDB3_uc001kdt.2_RNA	NM_007078	NP_009009	O75112	LDB3_HUMAN	LIM domain binding 3 isoform 1	220						cytoskeleton|perinuclear region of cytoplasm|pseudopodium	zinc ion binding			ovary(1)	1						GCCTCCGAGGGAAGGCCTCGG	0.627													6	187	---	---	---	---	PASS	T	88441531	T	T	88441531	2	4	119	1	0	0	0	0	0	0	0	1	8697	1161	41	2		2	LDB3	10	88441531	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	7068036	88441531	47093216	737	43910										
LDB3	11155	broad.mit.edu	37	chr10	88485898	88485898	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgcttttcatttcagactaCatcaatctgttcagcaccaa	4	12	5	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:88485898C>A	uc001kdv.2	+	12	2006	c.1983C>A	c.(1981-1983)TAC>TAA	p.Y661*	LDB3_uc010qmm.1_Nonsense_Mutation_p.Y666*|LDB3_uc001kdu.2_Nonsense_Mutation_p.Y551*|LDB3_uc009xsz.2_Nonsense_Mutation_p.Y290*|LDB3_uc009xta.1_Nonsense_Mutation_p.Y40*	NM_007078	NP_009009	O75112	LDB3_HUMAN	LIM domain binding 3 isoform 1	661	LIM zinc-binding 2.					cytoskeleton|perinuclear region of cytoplasm|pseudopodium	zinc ion binding			ovary(1)	1						TTTCAGACTACATCAATCTGT	0.577													10	34	---	---	---	---	PASS	A	88485898	A	A	88485898	4	1	119	1	0	0	0	0	0	1	0	0	8697	489	17	3	2365	3	LDB3	10	88485898	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	44367	88485898	47048849	738	43911										
TLL2	7093	broad.mit.edu	37	chr10	98180750	98180750	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcgtagtgcatgatgctgtCaaagtcgtatgtctctccca	11	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:98180750C>G	uc001kml.1	-	7	1112	c.886G>C	c.(886-888)GAC>CAC	p.D296H	TLL2_uc009xvf.1_Missense_Mutation_p.D244H	NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	296	Metalloprotease (By similarity).				cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		ATGATGCTGTCAAAGTCGTAT	0.483													11	531	---	---	---	---	PASS	G	98180750	G	G	98180750	3	3	119	1	0	0	0	0	1	0	0	0	15943	826	29	2	2221	2	TLL2	10	98180750	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	9694852	98180750	37353997	739	43912										
SLIT1	6585	broad.mit.edu	37	chr10	98825822	98825822	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctttcctggggatggcctgGatggcgttctcactcaagtc	13	11	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:98825822G>C	uc001kmw.2	-	5	687	c.435C>G	c.(433-435)ATC>ATG	p.I145M	SLIT1_uc009xvh.1_Missense_Mutation_p.I145M	NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	145	LRR 4.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		GGATGGCCTGGATGGCGTTCT	0.552													11	12	---	---	---	---	PASS	C	98825822	C	C	98825822	3	2	119	1	0	0	0	0	1	0	0	0	14739	1164	41	2	4301	2	SLIT1	10	98825822	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	645072	98825822	36708925	740	43913										
MMS19	64210	broad.mit.edu	37	chr10	99229407	99229407	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgagtgacactcacctctCtgcggatagaagcccaaagg	10	12	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:99229407C>G	uc001kns.3	-	11	1145	c.920G>C	c.(919-921)AGA>ACA	p.R307T	MMS19_uc009xvs.2_5'Flank|MMS19_uc009xvt.2_Missense_Mutation_p.R149T|MMS19_uc001knr.2_Missense_Mutation_p.R149T|MMS19_uc010qox.1_Missense_Mutation_p.R285T|MMS19_uc001knt.2_Missense_Mutation_p.R307T|MMS19_uc001knu.1_RNA	NM_022362	NP_071757	Q96T76	MMS19_HUMAN	MMS19 nucleotide excision repair homolog	307					chromosome segregation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|response to hormone stimulus|transcription, DNA-dependent|two-component signal transduction system (phosphorelay)	cytoplasm|holo TFIIH complex|MMXD complex	estrogen receptor binding|protein binding, bridging|receptor signaling complex scaffold activity|transcription coactivator activity				0		Colorectal(252;0.0846)		Epithelial(162;3.33e-10)|all cancers(201;2.74e-08)		ACTCACCTCTCTGCGGATAGA	0.368								Direct_reversal_of_damage|NER					7	93	---	---	---	---	PASS	G	99229407	G	G	99229407	3	3	119	1	0	0	0	0	1	0	0	0	9672	913	32	2	2256	2	MMS19	10	99229407	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	403585	99229407	36305340	741	43914										
UBTD1	80019	broad.mit.edu	37	chr10	99330049	99330049	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgcgccgtgagttcccgctGaaggtgcgcctgtccacggg	16	13	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:99330049G>A	uc001knv.1	+	3	646	c.453G>A	c.(451-453)CTG>CTA	p.L151L	ANKRD2_uc001knw.2_5'Flank|ANKRD2_uc009xvu.2_5'Flank	NM_024954	NP_079230	Q9HAC8	UBTD1_HUMAN	ubiquitin domain containing 1	151	Ubiquitin-like.										0		Colorectal(252;0.162)		Epithelial(162;3.04e-10)|all cancers(201;2.86e-08)		AGTTCCCGCTGAAGGTGCGCC	0.697													5	63	---	---	---	---	PASS	A	99330049	A	A	99330049	2	1	119	1	0	0	0	0	0	0	0	1	16904	1277	45	2		2	UBTD1	10	99330049	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	100642	99330049	36204698	742	43915										
SFRP5	6425	broad.mit.edu	37	chr10	99531265	99531265	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agacgggcgcaaagagcgagCacaggaagacctgcgtatcc	14	11	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:99531265C>A	uc001kor.3	-	1	492	c.326G>T	c.(325-327)TGC>TTC	p.C109F		NM_003015	NP_003006	Q5T4F7	SFRP5_HUMAN	secreted frizzled-related protein 5 precursor	109	FZ.				apoptosis|brain development|cell differentiation|embryo development|establishment or maintenance of cell polarity|gonad development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of protein kinase B signaling cascade|negative regulation of sequence-specific DNA binding transcription factor activity|vasculature development|visual perception	cytoplasm|extracellular space|plasma membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1		Colorectal(252;0.234)		Epithelial(162;4.98e-10)|all cancers(201;3.58e-08)		AAAGAGCGAGCACAGGAAGAC	0.697													3	49	---	---	---	---	PASS	A	99531265	A	A	99531265	3	1	119	1	0	0	0	0	1	0	0	0	14164	710	25	3	639	3	SFRP5	10	99531265	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	201216	99531265	36003482	743	43916										
DNMBP	23268	broad.mit.edu	37	chr10	101656145	101656145	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatcttcatcacccttacggTacttgaggactagggagtaa	9	9	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:101656145T>C	uc001kqj.2	-	10	3022	c.2930A>G	c.(2929-2931)TAC>TGC	p.Y977C	DNMBP_uc010qpl.1_Intron|DNMBP_uc001kqg.2_Missense_Mutation_p.Y265C|DNMBP_uc001kqh.2_Missense_Mutation_p.Y609C	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	977					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		ACCCTTACGGTACTTGAGGAC	0.433													57	97	---	---	---	---	PASS	C	101656145	C	C	101656145	3	2	119	1	0	0	0	0	1	0	0	0	4674	1638	57	5	1835	5	DNMBP	10	101656145	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	2124880	101656145	33878602	744	43917										
BTRC	8945	broad.mit.edu	37	chr10	103281516	103281516	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcagtggtcagagtcagatCaagtggaatttgtggaacat	13	5	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:103281516C>T	uc001kta.2	+	5	558	c.445C>T	c.(445-447)CAA>TAA	p.Q149*	BTRC_uc001ktb.2_Nonsense_Mutation_p.Q113*|BTRC_uc001ktc.2_Nonsense_Mutation_p.Q123*	NM_033637	NP_378663	Q9Y297	FBW1A_HUMAN	beta-transducin repeat containing protein	149	Homodimerization domain D.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|positive regulation of proteolysis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|viral reproduction|Wnt receptor signaling pathway	cytosol|nucleus|SCF ubiquitin ligase complex				ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;1.05e-08)|all cancers(201;6.59e-07)		AGAGTCAGATCAAGTGGAATT	0.398													7	133	---	---	---	---	PASS	T	103281516	T	T	103281516	4	4	119	1	0	0	0	0	0	1	0	0	1569	827	29	2	463	2	BTRC	10	103281516	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1625371	103281516	32253231	745	43918										
PPRC1	23082	broad.mit.edu	37	chr10	103906839	103906839	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggactagcagtgagcaggcaGatccctcagcaccctgcctt	11	14	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:103906839G>C	uc001kum.2	+	9	4129	c.4090G>C	c.(4090-4092)GAT>CAT	p.D1364H	PPRC1_uc001kun.2_Missense_Mutation_p.D1244H|PPRC1_uc010qqj.1_Intron|PPRC1_uc009xxa.2_Intron	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	1364					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		TGAGCAGGCAGATCCCTCAGC	0.627													3	51	---	---	---	---	PASS	C	103906839	C	C	103906839	3	2	119	1	0	0	0	0	1	0	0	0	12410	942	33	2	4124	2	PPRC1	10	103906839	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	625323	103906839	31627908	746	43919										
PSD	5662	broad.mit.edu	37	chr10	104164663	104164663	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagggcactcacggggcctgGaagaggaagacccgccagtc	16	12	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:104164663G>A	uc001kvg.1	-	14	3074	c.2547C>T	c.(2545-2547)TTC>TTT	p.F849F	PSD_uc001kve.1_Silent_p.F57F|PSD_uc001kvf.1_Silent_p.F218F|PSD_uc001kvh.1_Silent_p.F470F|PSD_uc009xxd.1_Silent_p.F849F	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	849	PH.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		ACGGGGCCTGGAAGAGGAAGA	0.627													12	13	---	---	---	---	PASS	A	104164663	A	A	104164663	2	1	119	1	0	0	0	0	0	0	0	1	12646	1165	41	2		2	PSD	10	104164663	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	257824	104164663	31370084	747	43920										
PCGF6	84108	broad.mit.edu	37	chr10	105086378	105086378	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctgaaactcgaacaaacttCttttccaatggctacaaaaa	4	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:105086378C>G	uc001kwt.2	-	8	890	c.822G>C	c.(820-822)AAG>AAC	p.K274N	PCGF6_uc001kwu.2_Missense_Mutation_p.K199N|PCGF6_uc009xxk.2_RNA|PCGF6_uc009xxl.2_RNA|PCGF6_uc009xxm.2_RNA	NM_001011663	NP_001011663	Q9BYE7	PCGF6_HUMAN	polycomb group ring finger 6 isoform a	274					negative regulation of transcription, DNA-dependent	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			kidney(1)	1		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;2.57e-09)|all cancers(201;7.21e-08)|BRCA - Breast invasive adenocarcinoma(275;0.205)		GAACAAACTTCTTTTCCAATG	0.333													7	81	---	---	---	---	PASS	G	105086378	G	G	105086378	3	3	119	1	0	0	0	0	1	0	0	0	11578	912	32	2	242	2	PCGF6	10	105086378	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	921715	105086378	30448369	748	43921										
OBFC1	79991	broad.mit.edu	37	chr10	105657381	105657381	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccaccatttccagctcctgCtggtaaaagctctgcactct	6	15	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:105657381C>A	uc001kxl.2	-	6	753	c.678G>T	c.(676-678)CAG>CAT	p.Q226H	OBFC1_uc001kxm.2_Missense_Mutation_p.Q226H|OBFC1_uc001kxn.2_RNA	NM_024928	NP_079204	Q9H668	STN1_HUMAN	oligonucleotide/oligosaccharide-binding fold	226					positive regulation of DNA replication|telomere maintenance via telomere lengthening		protein binding|single-stranded telomeric DNA binding			ovary(1)	1		Colorectal(252;0.178)		Epithelial(162;3.39e-10)|all cancers(201;1.32e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0151)		CCAGCTCCTGCTGGTAAAAGC	0.537													4	136	---	---	---	---	PASS	A	105657381	A	A	105657381	3	1	119	1	0	0	0	0	1	0	0	0	10807	796	28	3	444	3	OBFC1	10	105657381	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	571003	105657381	29877366	749	43922										
COL17A1	1308	broad.mit.edu	37	chr10	105796278	105796278	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tagctgagaatgcgactactCagctctgcatagtccaaaga	9	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:105796278C>G	uc001kxr.2	-	48	3559	c.3390G>C	c.(3388-3390)CTG>CTC	p.L1130L		NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	1130	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TGCGACTACTCAGCTCTGCAT	0.587													34	49	---	---	---	---	PASS	G	105796278	G	G	105796278	2	3	119	1	0	0	0	0	0	0	0	1	3674	813	29	2		2	COL17A1	10	105796278	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	138897	105796278	29738469	750	43923										
COL17A1	1308	broad.mit.edu	37	chr10	105824224	105824224	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcagagtaggcattggtgttGaggagggatgagctctgggt	19	4	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:105824224G>A	uc001kxr.2	-	10	907	c.738C>T	c.(736-738)CTC>CTT	p.L246L	COL17A1_uc010qqv.1_Silent_p.L230L|COL17A1_uc009xxp.1_Silent_p.L246L	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	246	Cytoplasmic (Potential).|Nonhelical region (NC16).				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		CATTGGTGTTGAGGAGGGATG	0.607													4	54	---	---	---	---	PASS	A	105824224	A	A	105824224	2	1	119	1	0	0	0	0	0	0	0	1	3674	1277	45	2		2	COL17A1	10	105824224	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	27946	105824224	29710523	751	43924										
SORCS1	114815	broad.mit.edu	37	chr10	108589406	108589406	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aactttatcattcagcttctCataggttgttccataatcgg	6	9	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:108589406C>G	uc001kym.2	-	3	660	c.652G>C	c.(652-654)GAG>CAG	p.E218Q	SORCS1_uc001kyl.2_Missense_Mutation_p.E218Q|SORCS1_uc009xxs.2_Missense_Mutation_p.E218Q|SORCS1_uc001kyn.1_Missense_Mutation_p.E218Q|SORCS1_uc001kyo.2_Missense_Mutation_p.E218Q	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	218	Lumenal (Potential).|BNR 1.					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TTCAGCTTCTCATAGGTTGTT	0.363													7	189	---	---	---	---	PASS	G	108589406	G	G	108589406	3	3	119	1	0	0	0	0	1	0	0	0	14930	835	29	2	3184	2	SORCS1	10	108589406	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2765182	108589406	26945341	752	43925										
ADD3	120	broad.mit.edu	37	chr10	111892125	111892125	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cacaaattcagtctcaaactCagtcaccgcaaaatgtccct	4	14	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:111892125C>T	uc001kyt.3	+	15	2109	c.1795C>T	c.(1795-1797)CAG>TAG	p.Q599*	ADD3_uc001kys.3_Intron|ADD3_uc001kyu.2_Nonsense_Mutation_p.Q599*|ADD3_uc001kyv.2_Nonsense_Mutation_p.Q599*|ADD3_uc001kyw.2_Intron|ADD3_uc001kyx.2_Nonsense_Mutation_p.Q172*	NM_016824	NP_058432	Q9UEY8	ADDG_HUMAN	adducin 3 (gamma) isoform a	599						cytoskeleton	actin binding|calmodulin binding|metal ion binding|structural constituent of cytoskeleton			ovary(2)|skin(2)|large_intestine(1)	5		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;4.15e-05)|all cancers(201;0.000587)|BRCA - Breast invasive adenocarcinoma(275;0.0742)		GTCTCAAACTCAGTCACCGCA	0.393													4	97	---	---	---	---	PASS	T	111892125	T	T	111892125	4	4	119	1	0	0	0	0	0	1	0	0	306	827	29	2	1845	2	ADD3	10	111892125	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3302719	111892125	23642622	753	43926										
HABP2	3026	broad.mit.edu	37	chr10	115343952	115343952	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggtcactgtgctctagaatCcaaatacgtgaagactgtgt	10	8	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:115343952C>T	uc001lai.3	+	11	1386	c.1283C>T	c.(1282-1284)TCC>TTC	p.S428F	HABP2_uc010qrz.1_RNA	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	428	Peptidase S1.				cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		GCTCTAGAATCCAAATACGTG	0.507													4	89	---	---	---	---	PASS	T	115343952	T	T	115343952	3	4	119	1	0	0	0	0	1	0	0	0	6938	855	30	2	1325	2	HABP2	10	115343952	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3451827	115343952	20190795	754	43927										
ATRNL1	26033	broad.mit.edu	37	chr10	117075230	117075230	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaaaagaactatgagtggtcCtttatccagtgtccaggtaa	10	7	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:117075230C>A	uc001lcg.2	+	18	3407	c.3021C>A	c.(3019-3021)TCC>TCA	p.S1007S	ATRNL1_uc010qsm.1_Silent_p.S182S|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	1007	PSI 5.|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)		ATGAGTGGTCCTTTATCCAGT	0.373													55	108	---	---	---	---	PASS	A	117075230	A	A	117075230	2	1	119	1	0	0	0	0	0	0	0	1	1207	668	24	3		3	ATRNL1	10	117075230	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1731278	117075230	18459517	755	43928										
PNLIP	5406	broad.mit.edu	37	chr10	118306940	118306940	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcttcctcctatatactaatGagaacccaaacaactttcaa	3	12	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:118306940G>C	uc001lcm.2	+	3	224	c.181G>C	c.(181-183)GAG>CAG	p.E61Q		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	61					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	ATATACTAATGAGAACCCAAA	0.318													4	111	---	---	---	---	PASS	C	118306940	C	C	118306940	3	2	119	1	0	0	0	0	1	0	0	0	12149	1291	45	2	187	2	PNLIP	10	118306940	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1231710	118306940	17227807	756	43929										
HSPA12A	259217	broad.mit.edu	37	chr10	118460505	118460505	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccaggtacagccactgcttGgcctcattgggatccaggtc	11	13	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:118460505G>T	uc001lct.2	-	4	495	c.390C>A	c.(388-390)GCC>GCA	p.A130A	HSPA12A_uc001lcu.2_Silent_p.A47A	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	130							ATP binding			ovary(1)	1				all cancers(201;0.0158)		GCCACTGCTTGGCCTCATTGG	0.577													13	182	---	---	---	---	PASS	T	118460505	T	T	118460505	2	4	119	1	0	0	0	0	0	0	0	1	7404	1335	47	3		3	HSPA12A	10	118460505	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	153565	118460505	17074242	757	43930										
SLC18A2	6571	broad.mit.edu	37	chr10	119003708	119003708	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcgtccgctgttccttccgaCtgtcccagtgaagacaaaga	10	13	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:119003708C>T	uc001ldd.1	+	3	379	c.348C>T	c.(346-348)GAC>GAT	p.D116D	SLC18A2_uc009xyy.1_5'UTR	NM_003054	NP_003045	Q05940	VMAT2_HUMAN	solute carrier family 18 (vesicular monoamine),	116	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted monoamine transport vesicle membrane|integral to plasma membrane|membrane fraction	monoamine transmembrane transporter activity				0		Colorectal(252;0.19)		all cancers(201;0.029)	Alseroxylon(DB00386)|Reserpine(DB00206)|Tetrabenazine(DB04844)	TTCCTTCCGACTGTCCCAGTG	0.522													39	79	---	---	---	---	PASS	T	119003708	T	T	119003708	2	4	119	1	0	0	0	0	0	0	0	1	14426	564	20	3		3	SLC18A2	10	119003708	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	543203	119003708	16531039	758	43931										
DMBT1	1755	broad.mit.edu	37	chr10	124399867	124399867	+	Silent	SNP	C	T	T													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tacgttcaggctgaaatcctCcattctgatgctgtactgac							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:124399867C>T	uc001lgk.1	+	52	6973	c.6867C>T	c.(6865-6867)CTC>CTT	p.L2289L	DMBT1_uc001lgl.1_Silent_p.L2279L|DMBT1_uc001lgm.1_Silent_p.L1661L|DMBT1_uc009xzz.1_Silent_p.L2288L|DMBT1_uc010qtx.1_Silent_p.L1009L|DMBT1_uc009yab.1_Silent_p.L992L|DMBT1_uc009yac.1_Silent_p.L583L	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	2289	ZP.				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)				CTGAAATCCTCCATTCTGATG	0.468													39	147	---	---	---	---	PASS	T	124399867	T	T	124399867	2	4	119	1	0	0	0	0	0	0	0	1	4577	842	30	2		2	DMBT1	10	124399867	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	5396159	124399867	11134880	759	43932	819	2								
DMBT1	1755	broad.mit.edu	37	chr10	124399868	124399868	+	Missense_Mutation	SNP	C	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acgttcaggctgaaatcctcCattctgatgctgtactgacc							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:124399868C>A	uc001lgk.1	+	52	6974	c.6868C>A	c.(6868-6870)CAT>AAT	p.H2290N	DMBT1_uc001lgl.1_Missense_Mutation_p.H2280N|DMBT1_uc001lgm.1_Missense_Mutation_p.H1662N|DMBT1_uc009xzz.1_Missense_Mutation_p.H2289N|DMBT1_uc010qtx.1_Missense_Mutation_p.H1010N|DMBT1_uc009yab.1_Missense_Mutation_p.H993N|DMBT1_uc009yac.1_Missense_Mutation_p.H584N	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	2290	ZP.				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)				TGAAATCCTCCATTCTGATGC	0.468													39	147	---	---	---	---	PASS	A	124399868	A	A	124399868	3	1	119	1	0	0	0	0	1	0	0	0	4577	594	21	3	7074	3	DMBT1	10	124399868	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1	124399868	11134879	760	43933	819	2								
C10orf88	80007	broad.mit.edu	37	chr10	124692056	124692056	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taacaaagcaatcttatcatCaatgtgctcctggagttcat	6	9	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:124692056C>T	uc001lgw.2	-	6	1450	c.1225G>A	c.(1225-1227)GAT>AAT	p.D409N	C10orf88_uc001lgx.2_Missense_Mutation_p.D311N	NM_024942	NP_079218	Q9H8K7	CJ088_HUMAN	hypothetical protein LOC80007	409											0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)		ATCTTATCATCAATGTGCTCC	0.383													4	187	---	---	---	---	PASS	T	124692056	T	T	124692056	3	4	119	1	0	0	0	0	1	0	0	0	1622	826	29	2	116	2	C10orf88	10	124692056	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	292188	124692056	10842691	761	43934										
C10orf137	26098	broad.mit.edu	37	chr10	127413989	127413989	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actggtatcaaaaggcaattCtttccaagtttttatattac	5	7	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:127413989C>G	uc001liq.1	+	5	906	c.613C>G	c.(613-615)CTT>GTT	p.L205V	C10orf137_uc001lin.2_Missense_Mutation_p.L205V|C10orf137_uc001lio.1_Missense_Mutation_p.L205V|C10orf137_uc001lip.1_5'UTR	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	205					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				AAAGGCAATTCTTTCCAAGTT	0.343													4	136	---	---	---	---	PASS	G	127413989	G	G	127413989	3	3	119	1	0	0	0	0	1	0	0	0	1594	913	32	2	631	2	C10orf137	10	127413989	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2721933	127413989	8120758	762	43935										
MMP21	118856	broad.mit.edu	37	chr10	127464271	127464271	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgggcttggcctggcgcagTggggacggctccaggtccga	18	11	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:127464271T>C	uc001liu.2	-	1	120	c.120A>G	c.(118-120)CCA>CCG	p.P40P		NM_147191	NP_671724	Q8N119	MMP21_HUMAN	matrix metalloproteinase 21 preproprotein	40					proteolysis	extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				CCTGGCGCAGTGGGGACGGCT	0.672													21	55	---	---	---	---	PASS	C	127464271	C	C	127464271	2	2	119	1	0	0	0	0	0	0	0	1	9660	1683	59	5		5	MMP21	10	127464271	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	50282	127464271	8070476	763	43936										
MKI67	4288	broad.mit.edu	37	chr10	129901286	129901286	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggagcgcttgtaaagctatCagcagcaccatttgccagtt	10	10	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr10:129901286C>T	uc001lke.2	-	13	9013	c.8818G>A	c.(8818-8820)GAT>AAT	p.D2940N	MKI67_uc001lkf.2_Missense_Mutation_p.D2580N|MKI67_uc009yav.1_Missense_Mutation_p.D2515N|MKI67_uc009yaw.1_Missense_Mutation_p.D2090N	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2940					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GTAAAGCTATCAGCAGCACCA	0.507													8	471	---	---	---	---	PASS	T	129901286	T	T	129901286	3	4	119	1	0	0	0	0	1	0	0	0	9598	826	29	2	964	2	MKI67	10	129901286	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2437015	129901286	5633461	764	43937										
DEAF1	10522	broad.mit.edu	37	chr11	688371	688371	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggcctttcagcccggtggtCtccacgatgctcccatctgt	11	15	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:688371C>G	uc001lqq.1	-	3	1170	c.477G>C	c.(475-477)GAG>GAC	p.E159D	DEAF1_uc009ycf.1_5'Flank	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	159					embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		GCCCGGTGGTCTCCACGATGC	0.577													7	44	---	---	---	---	PASS	G	688371	G	G	688371	3	3	119	1	0	0	0	0	1	0	0	0	4380	912	32	2	1260	2	DEAF1	11	688371	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08		688371	134318145	765	43938										
CARS	833	broad.mit.edu	37	chr11	3038392	3038392	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagcagagcctggttgggccTcttcctcacggctttccggg	13	14	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:3038392T>C	uc001lxh.2	-	15	1686	c.1612A>G	c.(1612-1614)AGG>GGG	p.R538G	CARS_uc001lxe.2_Missense_Mutation_p.R528G|CARS_uc001lxf.2_Missense_Mutation_p.R621G|CARS_uc001lxg.2_Missense_Mutation_p.R538G|CARS_uc010qxo.1_Missense_Mutation_p.R621G|CARS_uc010qxp.1_Missense_Mutation_p.R551G	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	538					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	TGGTTGGGCCTCTTCCTCACG	0.592			T	ALK	ALCL								11	85	---	---	---	---	PASS	C	3038392	C	C	3038392	3	2	119	1	0	0	0	0	1	0	0	0	2657	1550	54	5	674	5	CARS	11	3038392	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	2350021	3038392	131968124	766	43939										
OR51M1	390059	broad.mit.edu	37	chr11	5410897	5410897	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggggctgtgtgtgtccacgtTgcccaccactatggggatct	14	11	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:5410897T>A	uc010qzc.1	+	1	269	c.269T>A	c.(268-270)TTG>TAG	p.L90*	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,	90						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)		GTGTCCACGTTGCCCACCACT	0.478													109	170	---	---	---	---	PASS	A	5410897	A	A	5410897	4	1	119	1	0	0	0	0	0	1	0	0	11103	1821	63	5	271	5	OR51M1	11	5410897	Nonsense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	2372505	5410897	129595619	767	43940										
UBQLN3	50613	broad.mit.edu	37	chr11	5530093	5530093	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cggtcctggctacgtatcatCtcctgcatcatggcagggtt	11	12	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:5530093C>A	uc001may.1	-	2	782	c.696G>T	c.(694-696)GAG>GAT	p.E232D	HBG2_uc001mak.1_Intron	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	232										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TACGTATCATCTCCTGCATCA	0.483													52	88	---	---	---	---	PASS	A	5530093	A	A	5530093	3	1	119	1	0	0	0	0	1	0	0	0	16895	912	32	2	1275	2	UBQLN3	11	5530093	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	119196	5530093	129476423	768	43941										
TRIM5	85363	broad.mit.edu	37	chr11	5686453	5686453	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acctcccagtaatgtttcccTgatgtgatactttgagagcc	8	11	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:5686453T>C	uc001mbm.1	-	8	1325	c.1068A>G	c.(1066-1068)TCA>TCG	p.S356S	TRIM78P_uc009yer.2_RNA|TRIM5_uc001mbl.1_RNA|TRIM5_uc001mbn.2_Intron|TRIM5_uc001mbo.2_Intron|TRIM5_uc001mbp.2_3'UTR	NM_033034	NP_149023	Q9C035	TRIM5_HUMAN	tripartite motif protein TRIM5 isoform alpha	356	B30.2/SPRY.				interspecies interaction between organisms|protein trimerization|response to virus	cytoplasm|cytoplasmic mRNA processing body	ligase activity|protein binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)|Lung NSC(207;0.138)|all_lung(207;0.221)		Epithelial(150;7.21e-09)|BRCA - Breast invasive adenocarcinoma(625;0.139)		AATGTTTCCCTGATGTGATAC	0.433													135	174	---	---	---	---	PASS	C	5686453	C	C	5686453	2	2	119	1	0	0	0	0	0	0	0	1	16522	1567	55	5		5	TRIM5	11	5686453	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	156360	5686453	129320063	769	43942										
OR52E4	390081	broad.mit.edu	37	chr11	5905763	5905763	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtctgtccacatccactatcCccaaaatgctaggaatcttc	5	14	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:5905763C>T	uc010qzs.1	+	1	241	c.241C>T	c.(241-243)CCC>TCC	p.P81S	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	81	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATCCACTATCCCCAAAATGCT	0.443													107	169	---	---	---	---	PASS	T	5905763	T	T	5905763	3	4	119	1	0	0	0	0	1	0	0	0	11116	623	22	3	243	3	OR52E4	11	5905763	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	219310	5905763	129100753	770	43943										
TPP1	1200	broad.mit.edu	37	chr11	6638000	6638000	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccggccctgttgtccaaccaCacgggctactgatgcctgat	10	15	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:6638000C>A	uc001mel.1	-	7	839	c.778G>T	c.(778-780)GTG>TTG	p.V260L	TPP1_uc001mek.1_Missense_Mutation_p.V17L	NM_000391	NP_000382	O14773	TPP1_HUMAN	tripeptidyl-peptidase I preproprotein	260					bone resorption|cell death|lipid metabolic process|lysosome organization|nervous system development|neuromuscular process controlling balance|peptide catabolic process|protein catabolic process|proteolysis	lysosome|melanosome|soluble fraction	metal ion binding|peptide binding|protein binding|serine-type endopeptidase activity|tripeptidyl-peptidase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;3.45e-09)|BRCA - Breast invasive adenocarcinoma(625;0.131)		TGTCCAACCACACGGGCTACT	0.577													84	141	---	---	---	---	PASS	A	6638000	A	A	6638000	3	1	119	1	0	0	0	0	1	0	0	0	16408	478	17	3	941	3	TPP1	11	6638000	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	732237	6638000	128368516	771	43944										
NLRP14	338323	broad.mit.edu	37	chr11	7092450	7092450	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagcccagaagctgctggaaGctgtgggagttagcaatcca	13	9	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:7092450G>A	uc001mfb.1	+	12	3516	c.3193G>A	c.(3193-3195)GCT>ACT	p.A1065T		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	1065					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		GCTGCTGGAAGCTGTGGGAGT	0.428													15	97	---	---	---	---	PASS	A	7092450	A	A	7092450	3	1	119	1	0	0	0	0	1	0	0	0	10476	971	34	3	3235	3	NLRP14	11	7092450	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	454450	7092450	127914066	772	43945										
SCUBE2	57758	broad.mit.edu	37	chr11	9101052	9101052	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctcatttccacattcatcGatgtctgaggaataaaacag	7	9	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:9101052G>A	uc001mhh.1	-	3	341	c.261C>T	c.(259-261)ATC>ATT	p.I87I	SCUBE2_uc001mhi.1_Silent_p.I87I|SCUBE2_uc001mhj.1_Silent_p.I87I	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	87	EGF-like 2; calcium-binding (Potential).					extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		CACATTCATCGATGTCTGAGG	0.318													7	195	---	---	---	---	PASS	A	9101052	A	A	9101052	2	1	119	1	0	0	0	0	0	0	0	1	13945	1048	37	2		2	SCUBE2	11	9101052	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	2008602	9101052	125905464	773	43946										
GALNTL4	374378	broad.mit.edu	37	chr11	11400750	11400750	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgtgacgcacgactttgatGaagcctggcttctggctgtt	12	10	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:11400750G>T	uc001mjo.2	-	4	1078	c.657C>A	c.(655-657)TTC>TTA	p.F219L		NM_198516	NP_940918	Q6P9A2	GLTL4_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	219	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)		CGACTTTGATGAAGCCTGGCT	0.582													48	54	---	---	---	---	PASS	T	11400750	T	T	11400750	3	4	119	1	0	0	0	0	1	0	0	0	6223	1281	45	2	1198	2	GALNTL4	11	11400750	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2299698	11400750	123605766	774	43947										
COPB1	1315	broad.mit.edu	37	chr11	14491055	14491055	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggcttcttaggaagagaggAttttcccaaatgcaggatag	12	6	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:14491055A>G	uc001mli.2	-	15	2099	c.1792T>C	c.(1792-1794)TCC>CCC	p.S598P	COPB1_uc001mlg.2_Missense_Mutation_p.S598P|COPB1_uc001mlh.2_Missense_Mutation_p.S598P	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	598					COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						GGAAGAGAGGATTTTCCCAAA	0.388													39	53	---	---	---	---	PASS	G	14491055	G	G	14491055	3	3	119	1	0	0	0	0	1	0	0	0	3728	333	12	5	1101	5	COPB1	11	14491055	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	3090305	14491055	120515461	775	43948										
PLEKHA7	144100	broad.mit.edu	37	chr11	16863215	16863215	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catgcctgactgctcggcctGagagcccgctgtggagctgt	14	13	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:16863215G>A	uc001mmo.2	-	9	766	c.751C>T	c.(751-753)CAG>TAG	p.Q251*	PLEKHA7_uc010rcu.1_Nonsense_Mutation_p.Q251*	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	251	PH.				epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3						TGCTCGGCCTGAGAGCCCGCT	0.582													4	74	---	---	---	---	PASS	A	16863215	A	A	16863215	4	1	119	1	0	0	0	0	0	1	0	0	12061	1299	45	2	2674	2	PLEKHA7	11	16863215	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2372160	16863215	118143301	776	43949										
LDHC	3948	broad.mit.edu	37	chr11	18456319	18456319	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catatatagtctggaagataAgtggcttacctgtaactcgt	9	7	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:18456319A>G	uc001mon.3	+	5	563	c.451A>G	c.(451-453)AGT>GGT	p.S151G	LDHC_uc001mom.3_Missense_Mutation_p.S151G|LDHC_uc009yhp.2_Missense_Mutation_p.S151G|LDHC_uc001moo.3_Missense_Mutation_p.S35G|LDHC_uc009yhq.2_RNA|LDHC_uc009yhr.2_Missense_Mutation_p.S35G	NM_017448	NP_059144	P07864	LDHC_HUMAN	L-lactate dehydrogenase C	151					glycolysis	cytoplasm	binding|L-lactate dehydrogenase activity				0					NADH(DB00157)	CTGGAAGATAAGTGGCTTACC	0.343													95	134	---	---	---	---	PASS	G	18456319	G	G	18456319	3	3	119	1	0	0	0	0	1	0	0	0	8702	72	3	5	465	5	LDHC	11	18456319	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	1593104	18456319	116550197	777	43950										
SLC6A5	9152	broad.mit.edu	37	chr11	20636265	20636265	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catcccaaaatacagatcaaGaactcgactttctgcatgac	5	12	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:20636265G>A	uc001mqd.2	+	6	1299	c.1026G>A	c.(1024-1026)AAG>AAA	p.K342K	SLC6A5_uc009yic.2_Silent_p.K107K	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	342	Extracellular (Potential).				synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	TACAGATCAAGAACTCGACTT	0.403													91	136	---	---	---	---	PASS	A	20636265	A	A	20636265	2	1	119	1	0	0	0	0	0	0	0	1	14687	933	33	2		2	SLC6A5	11	20636265	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	2179946	20636265	114370251	778	43951										
BBOX1	8424	broad.mit.edu	37	chr11	27077152	27077152	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacttctagtggaagctcttGatgtgaacattggaattaaa	9	5	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:27077152G>C	uc001mre.1	+	3	543	c.175G>C	c.(175-177)GAT>CAT	p.D59H	BBOX1_uc009yih.1_Missense_Mutation_p.D59H|BBOX1_uc001mrg.1_Missense_Mutation_p.D59H	NM_003986	NP_003977	O75936	BODG_HUMAN	gamma-butyrobetaine dioxygenase	59					carnitine biosynthetic process	actin cytoskeleton|cytosol|intracellular membrane-bounded organelle	gamma-butyrobetaine dioxygenase activity|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1					Succinic acid(DB00139)|Vitamin C(DB00126)	GGAAGCTCTTGATGTGAACAT	0.408													7	83	---	---	---	---	PASS	C	27077152	C	C	27077152	3	2	119	1	0	0	0	0	1	0	0	0	1334	1290	45	2	177	2	BBOX1	11	27077152	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6440887	27077152	107929364	779	43952										
C11orf74	119710	broad.mit.edu	37	chr11	36654838	36654838	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taacttcttatttcagaggaTcatgtgtccaaaaggggagt	10	6	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:36654838T>C	uc001mwy.1	+	3	214	c.141T>C	c.(139-141)GAT>GAC	p.D47D	C11orf74_uc010rfd.1_RNA|C11orf74_uc001mww.1_Intron|C11orf74_uc001mwx.1_Intron|C11orf74_uc001mwz.1_Intron|C11orf74_uc010rfe.1_RNA	NM_138787	NP_620142	Q86VG3	CK074_HUMAN	hypothetical protein LOC119710	47											0	all_lung(20;0.226)	all_hematologic(20;0.0118)				TTTCAGAGGATCATGTGTCCA	0.328													55	81	---	---	---	---	PASS	C	36654838	C	C	36654838	2	2	119	1	0	0	0	0	0	0	0	1	1662	1432	50	5		5	C11orf74	11	36654838	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	9577686	36654838	98351678	780	43953										
LRRC4C	57689	broad.mit.edu	37	chr11	40136116	40136116	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttccatgggtgtgtctcccGtaatctcatcatccacatta	6	12	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:40136116G>T	uc001mxa.1	-	2	3691	c.1727C>A	c.(1726-1728)ACG>AAG	p.T576K	LRRC4C_uc001mxc.1_Missense_Mutation_p.T572K|LRRC4C_uc001mxd.1_Missense_Mutation_p.T572K|LRRC4C_uc001mxb.1_Missense_Mutation_p.T572K	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	576					regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				TGTGTCTCCCGTAATCTCATC	0.458													10	221	---	---	---	---	PASS	T	40136116	T	T	40136116	3	4	119	1	0	0	0	0	1	0	0	0	9008	1145	40	1	199	1	LRRC4C	11	40136116	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3481278	40136116	94870400	781	43954										
ZNF408	79797	broad.mit.edu	37	chr11	46726895	46726895	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atctcatctcacacaccgggGaggcccacttgtgcccggtg	11	15	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:46726895G>A	uc001nde.1	+	5	1875	c.1645G>A	c.(1645-1647)GAG>AAG	p.E549K	ZNF408_uc010rgw.1_Missense_Mutation_p.E541K	NM_024741	NP_079017	Q9H9D4	ZN408_HUMAN	zinc finger protein 408	549					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding				0						ACACACCGGGGAGGCCCACTT	0.682													4	59	---	---	---	---	PASS	A	46726895	A	A	46726895	3	1	119	1	0	0	0	0	1	0	0	0	17885	1175	41	2	1695	2	ZNF408	11	46726895	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6590779	46726895	88279621	782	43955										
LRP4	4038	broad.mit.edu	37	chr11	46916147	46916147	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccttgttccctacctgggctCtccagcccagtagacacaac	7	17	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:46916147C>G	uc001ndn.3	-	12	1679	c.1533G>C	c.(1531-1533)GAG>GAC	p.E511D		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	511	Extracellular (Potential).|LDL-receptor class B 1.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		TACCTGGGCTCTCCAGCCCAG	0.552													9	13	---	---	---	---	PASS	G	46916147	G	G	46916147	3	3	119	1	0	0	0	0	1	0	0	0	8959	912	32	2	4292	2	LRP4	11	46916147	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	189252	46916147	88090369	783	43956										
OR4C3	256144	broad.mit.edu	37	chr11	48346796	48346796	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acaccttttattcttcttctAtggctcctaaactcattgct	3	12	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:48346796A>T	uc010rhv.1	+	1	304	c.304A>T	c.(304-306)ATG>TTG	p.M102L		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TTCTTCTTCTATGGCTCCTAA	0.468													21	275	---	---	---	---	PASS	T	48346796	T	T	48346796	3	4	119	1	0	0	0	0	1	0	0	0	11050	449	16	5	306	5	OR4C3	11	48346796	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	1430649	48346796	86659720	784	43957										
OR4C46	119749	broad.mit.edu	37	chr11	51515761	51515761	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcaaccatacagatcctcttCatcttccaattacctttctg	3	14	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:51515761C>T	uc010ric.1	+	1	480	c.480C>T	c.(478-480)TTC>TTT	p.F160F		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	160	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AGATCCTCTTCATCTTCCAAT	0.468													12	286	---	---	---	---	PASS	T	51515761	T	T	51515761	2	4	119	1	0	0	0	0	0	0	0	1	11051	825	29	2		2	OR4C46	11	51515761	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	3168965	51515761	83490755	785	43958										
OR4A15	81328	broad.mit.edu	37	chr11	55135666	55135666	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcatagataccgtctattctActgcatttgctcccaaaatg	5	11	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:55135666A>G	uc010rif.1	+	1	307	c.307A>G	c.(307-309)ACT>GCT	p.T103A		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	103	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CGTCTATTCTACTGCATTTGC	0.413													75	292	---	---	---	---	PASS	G	55135666	G	G	55135666	3	3	119	1	0	0	0	0	1	0	0	0	11040	391	14	5	309	5	OR4A15	11	55135666	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	3619905	55135666	79870850	786	43959										
OR5D14	219436	broad.mit.edu	37	chr11	55563673	55563673	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aatgagatgtgtacactactGatcatcctcacttcctatgt	6	10	2	2	rs148455368	byFrequency	TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:55563673G>C	uc010rim.1	+	1	642	c.642G>C	c.(640-642)CTG>CTC	p.L214L		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				GTACACTACTGATCATCCTCA	0.478													20	385	---	---	---	---	PASS	C	55563673	C	C	55563673	2	2	119	1	0	0	0	0	0	0	0	1	11155	1277	45	2		2	OR5D14	11	55563673	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	428007	55563673	79442843	787	43960										
SPRYD5	84767	broad.mit.edu	37	chr11	55655595	55655595	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagaagagcaacatcacttgGaaaggctgcgaaaggagggc	14	7	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:55655595G>C	uc010rip.1	+	4	687	c.595G>C	c.(595-597)GAA>CAA	p.E199Q	SPRYD5_uc010riq.1_Missense_Mutation_p.E56Q	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	199						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				ACATCACTTGGAAAGGCTGCG	0.428													4	116	---	---	---	---	PASS	C	55655595	C	C	55655595	3	2	119	1	0	0	0	0	1	0	0	0	15110	1175	41	2	605	2	SPRYD5	11	55655595	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	91922	55655595	79350921	788	43961										
OR5W2	390148	broad.mit.edu	37	chr11	55681880	55681880	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acagatgactgaggaagaaaTacattggtgtgtgaagttgg	14	3	0	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:55681880T>C	uc010rir.1	-	1	179	c.179A>G	c.(178-180)TAT>TGT	p.Y60C		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	60	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GAGGAAGAAATACATTGGTGT	0.383													15	118	---	---	---	---	PASS	C	55681880	C	C	55681880	3	2	119	1	0	0	0	0	1	0	0	0	11185	1406	49	5	755	5	OR5W2	11	55681880	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	26285	55681880	79324636	789	43962										
OR5I1	10798	broad.mit.edu	37	chr11	55703584	55703584	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aataaaactgcagggcacacCcataataggaaatagatttg	8	7	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:55703584C>A	uc010ris.1	-	1	293	c.293G>T	c.(292-294)GGG>GTG	p.G98V		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CAGGGCACACCCATAATAGGA	0.423													24	70	---	---	---	---	PASS	A	55703584	A	A	55703584	3	1	119	1	0	0	0	0	1	0	0	0	11164	623	22	3	654	3	OR5I1	11	55703584	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	21704	55703584	79302932	790	43963										
OR5J2	282775	broad.mit.edu	37	chr11	55944688	55944688	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctccatgaatgagttgttgCtgttaaccttctccggagtc	9	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:55944688C>A	uc010rjb.1	+	1	595	c.595C>A	c.(595-597)CTG>ATG	p.L199M		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	199	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					TGAGTTGTTGCTGTTAACCTT	0.453													38	185	---	---	---	---	PASS	A	55944688	A	A	55944688	3	1	119	1	0	0	0	0	1	0	0	0	11165	796	28	3	597	3	OR5J2	11	55944688	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	241104	55944688	79061828	791	43964										
OR5T3	390154	broad.mit.edu	37	chr11	56020334	56020334	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctccttgctatttcttgttCtgacactcacacaaaccagc	4	14	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:56020334C>G	uc010rjd.1	+	1	659	c.659C>G	c.(658-660)TCT>TGT	p.S220C		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	220	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					ATTTCTTGTTCTGACACTCAC	0.398													144	458	---	---	---	---	PASS	G	56020334	G	G	56020334	3	3	119	1	0	0	0	0	1	0	0	0	11183	913	32	2	661	2	OR5T3	11	56020334	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	75646	56020334	78986182	792	43965										
OR5M3	219482	broad.mit.edu	37	chr11	56237923	56237923	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agaacttgccattctcgacgGctcgttagccccaaaagaat	8	12	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:56237923G>A	uc010rjk.1	-	1	51	c.51C>T	c.(49-51)AGC>AGT	p.S17S		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					ATTCTCGACGGCTCGTTAGCC	0.393													10	143	---	---	---	---	PASS	A	56237923	A	A	56237923	2	1	119	1	0	0	0	0	0	0	0	1	11175	1194	42	3		3	OR5M3	11	56237923	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	217589	56237923	78768593	793	43966										
OR5M11	219487	broad.mit.edu	37	chr11	56310301	56310301	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccatagacatagggaaatgTggccaagcagatgcaaactc	11	9	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:56310301T>A	uc010rjl.1	-	1	433	c.433A>T	c.(433-435)ACA>TCA	p.T145S		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TAGGGAAATGTGGCCAAGCAG	0.507													18	49	---	---	---	---	PASS	A	56310301	A	A	56310301	3	1	119	1	0	0	0	0	1	0	0	0	11174	1696	59	5	487	5	OR5M11	11	56310301	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	72378	56310301	78696215	794	43967										
OR5M11	219487	broad.mit.edu	37	chr11	56310358	56310358	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actgtagcgcagagggtcatAtatggccacatagcggtcat	12	9	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:56310358A>T	uc010rjl.1	-	1	376	c.376T>A	c.(376-378)TAT>AAT	p.Y126N		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGAGGGTCATATATGGCCACA	0.483													25	49	---	---	---	---	PASS	T	56310358	T	T	56310358	3	4	119	1	0	0	0	0	1	0	0	0	11174	449	16	5	544	5	OR5M11	11	56310358	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	57	56310358	78696158	795	43968										
TNKS1BP1	85456	broad.mit.edu	37	chr11	57077578	57077578	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taggtacccagtgaatctctCtttccgaattcctggtcctg	8	12	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:57077578C>G	uc001njr.2	-	5	2919	c.2607G>C	c.(2605-2607)AAG>AAC	p.K869N	TNKS1BP1_uc001njs.2_Missense_Mutation_p.K869N|TNKS1BP1_uc009ymd.1_Missense_Mutation_p.K320N	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	869	Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GTGAATCTCTCTTTCCGAATT	0.532													4	361	---	---	---	---	PASS	G	57077578	G	G	57077578	3	3	119	1	0	0	0	0	1	0	0	0	16317	912	32	2	2606	2	TNKS1BP1	11	57077578	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	767220	57077578	77928938	796	43969										
GLYATL1	92292	broad.mit.edu	37	chr11	58722807	58722807	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctgggctgagacaggccacCcagatgatgaatttgaaagg	14	8	0	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:58722807C>A	uc001nnf.2	+	7	848	c.472C>A	c.(472-474)CCA>ACA	p.P158T	uc001nng.1_Intron|GLYATL1_uc001nnh.1_Missense_Mutation_p.P189T|GLYATL1_uc001nni.1_Missense_Mutation_p.P158T|GLYATL1_uc001nnj.1_Missense_Mutation_p.P158T			Q969I3	GLYL1_HUMAN	SubName: Full=Glycine acyltransferase family-C; SubName: Full=Glycine-N-acyltransferase-like 1, isoform CRA_a;	158						mitochondrion	glycine N-acyltransferase activity			ovary(1)	1					Glycine(DB00145)	GACAGGCCACCCAGATGATGA	0.398													50	100	---	---	---	---	PASS	A	58722807	A	A	58722807	3	1	119	1	0	0	0	0	1	0	0	0	6480	623	22	3	587	3	GLYATL1	11	58722807	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1645229	58722807	76283709	797	43970										
FAM111A	63901	broad.mit.edu	37	chr11	58920584	58920584	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccatatggagaaaaaaagcaGattgatgcttgtgctgtgat	11	5	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:58920584G>A	uc010rkp.1	+	5	1670	c.1443G>A	c.(1441-1443)CAG>CAA	p.Q481Q	FAM111A_uc010rkq.1_Silent_p.Q481Q|FAM111A_uc010rkr.1_Silent_p.Q481Q|FAM111A_uc001nno.2_Silent_p.Q481Q|FAM111A_uc001nnp.2_Silent_p.Q481Q|FAM111A_uc001nnq.2_Silent_p.Q481Q	NM_001142521	NP_001135993	Q96PZ2	F111A_HUMAN	hypothetical protein LOC63901	481					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_epithelial(135;0.139)				AAAAAAAGCAGATTGATGCTT	0.408													32	244	---	---	---	---	PASS	A	58920584	A	A	58920584	2	1	119	1	0	0	0	0	0	0	0	1	5399	933	33	2		2	FAM111A	11	58920584	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	197777	58920584	76085932	798	43971										
DTX4	23220	broad.mit.edu	37	chr11	58972187	58972187	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtggcctgggatcgccgcctCatttttgccattggcacctc	11	14	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:58972187C>G	uc001nns.2	+	9	1922	c.1665C>G	c.(1663-1665)CTC>CTG	p.L555L	DTX4_uc001nnr.2_Silent_p.L449L	NM_015177	NP_055992	Q9Y2E6	DTX4_HUMAN	deltex 4 homolog	555					Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)				ATCGCCGCCTCATTTTTGCCA	0.522													4	32	---	---	---	---	PASS	G	58972187	G	G	58972187	2	3	119	1	0	0	0	0	0	0	0	1	4797	813	29	2		2	DTX4	11	58972187	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	51603	58972187	76034329	799	43972										
TMEM132A	54972	broad.mit.edu	37	chr11	60704150	60704150	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgggggcaccaccagctcctCaagcaccctggcccgaaagg	12	16	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:60704150C>G	uc001nqj.2	+	11	3036	c.2843C>G	c.(2842-2844)TCA>TGA	p.S948*	TMEM132A_uc001nqi.2_Nonsense_Mutation_p.S949*|TMEM132A_uc001nqm.2_Nonsense_Mutation_p.S158*	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	948	Cytoplasmic (Potential).|Confers cellular localization similar to full-length form (By similarity).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						ACCAGCTCCTCAAGCACCCTG	0.701													13	21	---	---	---	---	PASS	G	60704150	G	G	60704150	4	3	119	1	0	0	0	0	0	1	0	0	16042	838	29	2	2888	2	TMEM132A	11	60704150	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1731963	60704150	74302366	800	43973										
SLC15A3	51296	broad.mit.edu	37	chr11	60714262	60714262	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtaaaaccagttgaagaagCggcgggtggcgtcgcggccg	17	9	0	2	rs142952480	byFrequency	TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:60714262C>A	uc001nqn.2	-	2	824	c.590G>T	c.(589-591)CGC>CTC	p.R197L	SLC15A3_uc001nqo.2_Missense_Mutation_p.R197L	NM_016582	NP_057666	Q8IY34	S15A3_HUMAN	solute carrier family 15, member 3	197					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0						GTTGAAGAAGCGGCGGGTGGC	0.597													61	157	---	---	---	---	PASS	A	60714262	A	A	60714262	3	1	119	1	0	0	0	0	1	0	0	0	14400	768	27	1	1183	1	SLC15A3	11	60714262	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	10112	60714262	74292254	801	43974										
VWCE	220001	broad.mit.edu	37	chr11	61026260	61026260	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtggtgggagaaagcacgcGaggcccgaggagggtgatgg	22	6	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:61026260G>A	uc001nra.2	-	20	3034	c.2755C>T	c.(2755-2757)CGC>TGC	p.R919C	VWCE_uc001nrb.2_RNA	NM_152718	NP_689931	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains	919						extracellular region	calcium ion binding			ovary(1)	1						GAAAGCACGCGAGGCCCGAGG	0.667													34	142	---	---	---	---	PASS	A	61026260	A	A	61026260	3	1	119	1	0	0	0	0	1	0	0	0	17242	1058	37	2	116	2	VWCE	11	61026260	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	311998	61026260	73980256	802	43975										
BEST1	7439	broad.mit.edu	37	chr11	61729985	61729985	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttaaggctgtggacgccttCaagtctgccccactgtatca	9	13	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:61729985C>T	uc001nss.2	+	10	1939	c.1359C>T	c.(1357-1359)TTC>TTT	p.F453F	BEST1_uc010rlq.1_3'UTR|BEST1_uc010rlr.1_3'UTR|BEST1_uc010rls.1_Silent_p.F81F|BEST1_uc001nsr.2_Silent_p.F393F|BEST1_uc009ynt.2_RNA|BEST1_uc010rlt.1_Silent_p.F393F|BEST1_uc001nst.2_Silent_p.F366F|BEST1_uc010rlu.1_3'UTR|BEST1_uc010rlv.1_Silent_p.F347F	NM_004183	NP_004174	O76090	BEST1_HUMAN	bestrophin 1 isoform 1	453	Cytoplasmic (Potential).				response to stimulus|transepithelial chloride transport|visual perception	basolateral plasma membrane|chloride channel complex|cytosol|membrane fraction	chloride channel activity			central_nervous_system(1)	1						TGGACGCCTTCAAGTCTGCCC	0.587													12	131	---	---	---	---	PASS	T	61729985	T	T	61729985	2	4	119	1	0	0	0	0	0	0	0	1	1404	825	29	2		2	BEST1	11	61729985	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	703725	61729985	73276531	803	43976										
EML3	256364	broad.mit.edu	37	chr11	62378413	62378413	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attgccttcctggagagcttCtgccgaggccgctctgaggg	14	12	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:62378413C>T	uc001ntu.1	-	4	812	c.504G>A	c.(502-504)CAG>CAA	p.Q168Q	EML3_uc001ntr.1_Silent_p.Q140Q|EML3_uc001nts.1_Silent_p.Q140Q|EML3_uc001ntt.1_Silent_p.Q52Q|EML3_uc010rly.1_Silent_p.Q168Q|EML3_uc009yny.1_5'UTR|ROM1_uc001ntv.2_5'Flank	NM_153265	NP_694997	Q32P44	EMAL3_HUMAN	echinoderm microtubule associated protein like	168						cytoplasm|microtubule	protein binding			ovary(1)	1						TGGAGAGCTTCTGCCGAGGCC	0.617													9	82	---	---	---	---	PASS	T	62378413	T	T	62378413	2	4	119	1	0	0	0	0	0	0	0	1	5098	912	32	2		2	EML3	11	62378413	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	648428	62378413	72628103	804	43977										
SLC3A2	6520	broad.mit.edu	37	chr11	62623803	62623803	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gattccgcgccagttgcctgGctcacattcggaggctggtg	14	12	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:62623803G>T	uc001nwd.2	+	1	286	c.62G>T	c.(61-63)GGC>GTC	p.G21V	SLC3A2_uc001nwb.2_Missense_Mutation_p.G21V|SLC3A2_uc001nwc.2_Missense_Mutation_p.G21V|SLC3A2_uc001nwe.2_Missense_Mutation_p.G21V|SLC3A2_uc001nwf.2_Missense_Mutation_p.G21V|SNHG1_uc001nvp.2_5'Flank|SNHG1_uc001nvo.2_5'Flank|SNHG1_uc001nvq.2_5'Flank|SNHG1_uc001nvs.2_5'Flank|SNHG1_uc001nvr.2_5'Flank|SNHG1_uc001nvt.2_5'Flank|SNHG1_uc001nvu.2_5'Flank|SNORD31_uc009yoj.1_5'Flank|SNORD30_uc001nvw.1_5'Flank|SNORD29_uc001nvx.2_5'Flank|SNORD28_uc001nvy.1_5'Flank|SNORD27_uc001nvz.2_5'Flank|SNORD26_uc009yok.1_5'Flank|SNORD25_uc001nwa.3_5'Flank	NM_002394	NP_002385	P08195	4F2_HUMAN	solute carrier family 3, member 2 isoform c	21					blood coagulation|carbohydrate metabolic process|cell growth|cellular nitrogen compound metabolic process|leucine import|leukocyte migration|tryptophan transport	apical plasma membrane|cell surface|integral to membrane|melanosome	calcium:sodium antiporter activity|catalytic activity|cation binding|neutral amino acid transmembrane transporter activity|protein binding				0						CAGTTGCCTGGCTCACATTCG	0.647													9	172	---	---	---	---	PASS	T	62623803	T	T	62623803	3	4	119	1	0	0	0	0	1	0	0	0	14627	1203	42	3	64	3	SLC3A2	11	62623803	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	245390	62623803	72382713	805	43978										
HRASLS2	54979	broad.mit.edu	37	chr11	63320533	63320533	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctactgtcgtgactgcaccaGtgacctgcagcagaagagaa	11	11	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:63320533G>A	uc001nxg.1	-	4	451	c.392C>T	c.(391-393)ACT>ATT	p.T131I		NM_017878	NP_060348	Q9NWW9	HRSL2_HUMAN	HRAS-like suppressor 2	131					lipid catabolic process	cytoplasm	acyltransferase activity|hydrolase activity				0						GACTGCACCAGTGACCTGCAG	0.577													18	67	---	---	---	---	PASS	A	63320533	A	A	63320533	3	1	119	1	0	0	0	0	1	0	0	0	7350	1029	36	3	100	3	HRASLS2	11	63320533	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	696730	63320533	71685983	806	43979										
MACROD1	28992	broad.mit.edu	37	chr11	63918818	63918818	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acctgggctcctccaccttcAcagccacccctggaacaagt	7	18	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:63918818A>T	uc001nyh.2	-	3	529	c.410T>A	c.(409-411)GTG>GAG	p.V137E		NM_014067	NP_054786	Q9BQ69	MACD1_HUMAN	MACRO domain containing 1	137											0						CTCCACCTTCACAGCCACCCC	0.627													8	86	---	---	---	---	PASS	T	63918818	T	T	63918818	3	4	119	1	0	0	0	0	1	0	0	0	9145	159	6	5	599	5	MACROD1	11	63918818	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	598285	63918818	71087698	807	43980										
CDC42BPG	55561	broad.mit.edu	37	chr11	64606236	64606236	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagccgctcccagtccacgcCttcgaagaaaggatggttcc	10	15	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:64606236C>A	uc001obs.3	-	8	1015	c.1015G>T	c.(1015-1017)GGC>TGC	p.G339C		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	339	AGC-kinase C-terminal.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						CAGTCCACGCCTTCGAAGAAA	0.632													19	56	---	---	---	---	PASS	A	64606236	A	A	64606236	3	1	119	1	0	0	0	0	1	0	0	0	3074	681	24	3	3760	3	CDC42BPG	11	64606236	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	687418	64606236	70400280	808	43981										
SLC22A20	440044	broad.mit.edu	37	chr11	65003911	65003911	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgtgcacagcccaggcagcGctgggcaaaggctgcctggc	15	14	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:65003911G>A	uc010roc.1	+	9	1293	c.1290G>A	c.(1288-1290)GCG>GCA	p.A430A	SLC22A20_uc001odi.3_RNA	NM_001004326	NP_001004326	A6NK97	S22AK_HUMAN	solute carrier family 22, member 20	430	Helical; (Potential).				ion transport	integral to membrane	transmembrane transporter activity			central_nervous_system(1)	1						CCCAGGCAGCGCTGGGCAAAG	0.632													9	9	---	---	---	---	PASS	A	65003911	A	A	65003911	2	1	119	1	0	0	0	0	0	0	0	1	14451	1102	38	1		1	SLC22A20	11	65003911	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	397675	65003911	70002605	809	43982										
RAD9A	5883	broad.mit.edu	37	chr11	67159653	67159653	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctcggcaaggccgtccactCcctgtcccgcatcggggacg	13	17	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:67159653C>T	uc001okr.2	+	2	149	c.56C>T	c.(55-57)TCC>TTC	p.S19F		NM_004584	NP_004575	Q99638	RAD9A_HUMAN	RAD9 homolog	19					DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint	nucleoplasm	3'-5' exonuclease activity|exodeoxyribonuclease III activity|histone deacetylase binding|protein kinase binding|SH3 domain binding				0			BRCA - Breast invasive adenocarcinoma(15;8.53e-07)			GCCGTCCACTCCCTGTCCCGC	0.716								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					9	25	---	---	---	---	PASS	T	67159653	T	T	67159653	3	4	119	1	0	0	0	0	1	0	0	0	12995	855	30	2	62	2	RAD9A	11	67159653	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2155742	67159653	67846863	810	43983										
RAD9A	5883	broad.mit.edu	37	chr11	67159668	67159668	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccactccctgtcccgcatcgGggacgagctctacctggaac	10	17	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:67159668G>T	uc001okr.2	+	2	164	c.71G>T	c.(70-72)GGG>GTG	p.G24V		NM_004584	NP_004575	Q99638	RAD9A_HUMAN	RAD9 homolog	24					DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint	nucleoplasm	3'-5' exonuclease activity|exodeoxyribonuclease III activity|histone deacetylase binding|protein kinase binding|SH3 domain binding				0			BRCA - Breast invasive adenocarcinoma(15;8.53e-07)			TCCCGCATCGGGGACGAGCTC	0.711								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					10	25	---	---	---	---	PASS	T	67159668	T	T	67159668	3	4	119	1	0	0	0	0	1	0	0	0	12995	1232	43	3	77	3	RAD9A	11	67159668	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	15	67159668	67846848	811	43984										
IGHMBP2	3508	broad.mit.edu	37	chr11	68700813	68700813	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcctgatggaacgcctggctGaggagtacggcgcgagggtg	19	9	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:68700813G>A	uc001ook.1	+	9	1384	c.1282G>A	c.(1282-1284)GAG>AAG	p.E428K	IGHMBP2_uc001ool.1_Missense_Mutation_p.E52K|IGHMBP2_uc001oom.1_Missense_Mutation_p.E6K	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	428					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			ACGCCTGGCTGAGGAGTACGG	0.652													50	37	---	---	---	---	PASS	A	68700813	A	A	68700813	3	1	119	1	0	0	0	0	1	0	0	0	7591	1291	45	2	1316	2	IGHMBP2	11	68700813	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1541145	68700813	66305703	812	43985										
TPCN2	219931	broad.mit.edu	37	chr11	68851471	68851471	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcagaacatgcgtgcgtttgGcgggatcctggtggtgagtc	17	8	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:68851471G>A	uc001oos.2	+	19	1864	c.1748G>A	c.(1747-1749)GGC>GAC	p.G583D	TPCN2_uc010rqg.1_Intron|TPCN2_uc001oot.2_RNA	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	583	Helical; Name=S5 of repeat II; (Potential).				cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CGTGCGTTTGGCGGGATCCTG	0.667													11	205	---	---	---	---	PASS	A	68851471	A	A	68851471	3	1	119	1	0	0	0	0	1	0	0	0	16393	1203	42	3	1822	3	TPCN2	11	68851471	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	150658	68851471	66155045	813	43986										
SHANK2	22941	broad.mit.edu	37	chr11	70319315	70319315	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaggctaaagacatctgagaGagcgggagaaggagaggcgg	18	5	1	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:70319315G>C	uc001oqc.2	-	22	5287	c.5209C>G	c.(5209-5211)CTC>GTC	p.L1737V	SHANK2_uc010rqn.1_Missense_Mutation_p.L1149V|SHANK2_uc001opz.2_Missense_Mutation_p.L1142V|uc009ysn.1_Missense_Mutation_p.R72T|SHANK2_uc001opy.2_Missense_Mutation_p.L73V	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	1358					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)			ACATCTGAGAGAGCGGGAGAA	0.602													11	608	---	---	---	---	PASS	C	70319315	C	C	70319315	3	2	119	1	0	0	0	0	1	0	0	0	14265	942	33	2	344	2	SHANK2	11	70319315	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1467844	70319315	64687201	814	43987										
SHANK2	22941	broad.mit.edu	37	chr11	70332825	70332825	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggccggctgtgccgctgctCgcggagggcactgctgggct	19	13	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:70332825C>A	uc001oqc.2	-	21	3651	c.3573G>T	c.(3571-3573)GCG>GCT	p.A1191A	SHANK2_uc010rqn.1_Silent_p.A603A|SHANK2_uc001opz.2_Silent_p.A596A|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	812					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)			TGCCGCTGCTCGCGGAGGGCA	0.706													12	344	---	---	---	---	PASS	A	70332825	A	A	70332825	2	1	119	1	0	0	0	0	0	0	0	1	14265	871	31	2		2	SHANK2	11	70332825	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	13510	70332825	64673691	815	43988			1	50		5	5	727	C		4.392926e-08
SHANK2	22941	broad.mit.edu	37	chr11	70332944	70332944	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cacgaaatggttttcgggctCcctgggcgtggcactcggca	14	12	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:70332944C>T	uc001oqc.2	-	21	3532	c.3454G>A	c.(3454-3456)GAG>AAG	p.E1152K	SHANK2_uc010rqn.1_Missense_Mutation_p.E564K|SHANK2_uc001opz.2_Missense_Mutation_p.E557K|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	773					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)			TTTTCGGGCTCCCTGGGCGTG	0.677													26	581	---	---	---	---	PASS	T	70332944	T	T	70332944	3	4	119	1	0	0	0	0	1	0	0	0	14265	864	30	2	2103	2	SHANK2	11	70332944	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	119	70332944	64673572	816	43989			1	50		5	5	727	C		4.392926e-08
SHANK2	22941	broad.mit.edu	37	chr11	70333107	70333107	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagaggaaggccggggagttCctcctggcttccagccgctt	15	12	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:70333107C>T	uc001oqc.2	-	21	3369	c.3291G>A	c.(3289-3291)AGG>AGA	p.R1097R	SHANK2_uc010rqn.1_Silent_p.R509R|SHANK2_uc001opz.2_Silent_p.R502R|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	718					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)			CCGGGGAGTTCCTCCTGGCTT	0.716													18	261	---	---	---	---	PASS	T	70333107	T	T	70333107	2	4	119	1	0	0	0	0	0	0	0	1	14265	854	30	2		2	SHANK2	11	70333107	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	163	70333107	64673409	817	43990			1	50		5	5	727	C		4.392926e-08
SHANK2	22941	broad.mit.edu	37	chr11	70333132	70333132	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggcttccagccgcttctcaCggtcgcggacggctccggcg	14	16	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:70333132C>T	uc001oqc.2	-	21	3344	c.3266G>A	c.(3265-3267)CGT>CAT	p.R1089H	SHANK2_uc010rqn.1_Missense_Mutation_p.R501H|SHANK2_uc001opz.2_Missense_Mutation_p.R494H|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	710					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)			CCGCTTCTCACGGTCGCGGAC	0.726													7	224	---	---	---	---	PASS	T	70333132	T	T	70333132	3	4	119	1	0	0	0	0	1	0	0	0	14265	536	19	1	2291	1	SHANK2	11	70333132	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	25	70333132	64673384	818	43991			1	50		5	5	727	C		4.392926e-08
SHANK2	22941	broad.mit.edu	37	chr11	70333551	70333551	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctctctcctgaagtacatCcccttctccctcatcatggt	5	16	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:70333551C>G	uc001oqc.2	-	21	2925	c.2847G>C	c.(2845-2847)GGG>GGC	p.G949G	SHANK2_uc010rqn.1_Silent_p.G361G|SHANK2_uc001opz.2_Silent_p.G354G|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	570					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)			TGAAGTACATCCCCTTCTCCC	0.587													26	498	---	---	---	---	PASS	G	70333551	G	G	70333551	2	3	119	1	0	0	0	0	0	0	0	1	14265	842	30	2		2	SHANK2	11	70333551	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	419	70333551	64672965	819	43992			1	50		5	5	727	C		4.392926e-08
CLPB	81570	broad.mit.edu	37	chr11	72040820	72040820	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taatccaagggtgtgtgtccCatttcattcctctgcagggg	11	10	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:72040820C>G	uc001osj.2	-	7	944	c.894G>C	c.(892-894)ATG>ATC	p.M298I	CLPB_uc010rqx.1_Missense_Mutation_p.M253I|CLPB_uc010rqy.1_Missense_Mutation_p.M239I|CLPB_uc001osk.2_Missense_Mutation_p.M268I|CLPB_uc009ytg.2_RNA|CLPB_uc010rqz.1_Missense_Mutation_p.M97I	NM_030813	NP_110440	Q9H078	CLPB_HUMAN	caseinolytic peptidase B	298	ANK 4.				cellular response to heat		ATP binding|nucleoside-triphosphatase activity|protein binding			pancreas(1)	1						GTGTGTGTCCCATTTCATTCC	0.542													16	168	---	---	---	---	PASS	G	72040820	G	G	72040820	3	3	119	1	0	0	0	0	1	0	0	0	3551	594	21	4	1273	4	CLPB	11	72040820	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1707269	72040820	62965696	820	43993										
PDE2A	5138	broad.mit.edu	37	chr11	72290356	72290356	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcttctggaggtccttgaaGatgcggagatggtgggccag	16	7	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:72290356G>C	uc010rrc.1	-	27	2571	c.2328C>G	c.(2326-2328)ATC>ATG	p.I776M	PDE2A_uc001oso.2_Missense_Mutation_p.I755M|PDE2A_uc010rra.1_Missense_Mutation_p.I769M|PDE2A_uc001osn.2_Missense_Mutation_p.I520M|PDE2A_uc010rrb.1_Missense_Mutation_p.I767M|PDE2A_uc010rrd.1_Missense_Mutation_p.I661M	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	776	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	GGTCCTTGAAGATGCGGAGAT	0.597													23	224	---	---	---	---	PASS	C	72290356	C	C	72290356	3	2	119	1	0	0	0	0	1	0	0	0	11636	932	33	2	517	2	PDE2A	11	72290356	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	249536	72290356	62716160	821	43994										
C2CD3	26005	broad.mit.edu	37	chr11	73748584	73748584	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttctccaggatacactggctCccagggtctaggctgctggc	12	13	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:73748584C>A	uc001ouu.2	-	30	6047	c.5820G>T	c.(5818-5820)GGG>GGT	p.G1940G	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1940						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					TACACTGGCTCCCAGGGTCTA	0.527													65	392	---	---	---	---	PASS	A	73748584	A	A	73748584	2	1	119	1	0	0	0	0	0	0	0	1	2154	842	30	2		2	C2CD3	11	73748584	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1458228	73748584	61257932	822	43995										
XRRA1	143570	broad.mit.edu	37	chr11	74555245	74555245	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgaacatagggtttctgaaGagtgtccagcttgggcttgg	15	6	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:74555245G>C	uc009yub.2	-	17	2319	c.1987C>G	c.(1987-1989)CTT>GTT	p.L663V	XRRA1_uc001ovm.2_RNA|XRRA1_uc001ovn.2_Missense_Mutation_p.L286V|XRRA1_uc001ovo.2_Missense_Mutation_p.L271V|XRRA1_uc001ovq.3_Missense_Mutation_p.L576V|XRRA1_uc001ovp.3_Missense_Mutation_p.L388V|XRRA1_uc001ovr.2_Missense_Mutation_p.L286V|XRRA1_uc001ovs.1_Missense_Mutation_p.L265V	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	663					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						GGTTTCTGAAGAGTGTCCAGC	0.502													89	640	---	---	---	---	PASS	C	74555245	C	C	74555245	3	2	119	1	0	0	0	0	1	0	0	0	17458	942	33	2	403	2	XRRA1	11	74555245	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	806661	74555245	60451271	823	43996										
KLHL35	283212	broad.mit.edu	37	chr11	75139655	75139655	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccgatgaccacgatcacttCagctaggtccatgaatctgg	10	12	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:75139655C>T	uc001owm.1	-	2	457	c.238G>A	c.(238-240)GAA>AAA	p.E80K		NM_001039548	NP_001034637	Q6PF15	KLH35_HUMAN	kelch-like 35	80											0						ACGATCACTTCAGCTAGGTCC	0.627													4	88	---	---	---	---	PASS	T	75139655	T	T	75139655	3	4	119	1	0	0	0	0	1	0	0	0	8388	835	29	2	873	2	KLHL35	11	75139655	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	584410	75139655	59866861	824	43997										
LRRC32	2615	broad.mit.edu	37	chr11	76371468	76371468	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cattgccctgtaggagcagcGtccgcagagaccccagggct	13	14	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:76371468G>A	uc001oxq.3	-	3	1412	c.1169C>T	c.(1168-1170)ACG>ATG	p.T390M	LRRC32_uc001oxr.3_Missense_Mutation_p.T390M|LRRC32_uc010rsf.1_Missense_Mutation_p.T390M	NM_005512	NP_005503	Q14392	LRC32_HUMAN	leucine rich repeat containing 32 precursor	390	LRR 14.|Extracellular (Potential).					integral to plasma membrane					0						TAGGAGCAGCGTCCGCAGAGA	0.647													8	42	---	---	---	---	PASS	A	76371468	A	A	76371468	3	1	119	1	0	0	0	0	1	0	0	0	8987	1145	40	1	823	1	LRRC32	11	76371468	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1231813	76371468	58635048	825	43998										
MYO7A	4647	broad.mit.edu	37	chr11	76885810	76885810	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtgcctggcagctgttcgaCcggcacctgtgcgtgcgcca	14	14	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:76885810C>A	uc001oyb.2	+	17	2216	c.1944C>A	c.(1942-1944)GAC>GAA	p.D648E	MYO7A_uc010rsl.1_Missense_Mutation_p.D648E|MYO7A_uc010rsm.1_Missense_Mutation_p.D637E|MYO7A_uc001oyc.2_Missense_Mutation_p.D648E|MYO7A_uc001oyd.2_5'UTR	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	648	Myosin head-like.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						AGCTGTTCGACCGGCACCTGT	0.617													7	23	---	---	---	---	PASS	A	76885810	A	A	76885810	3	1	119	1	0	0	0	0	1	0	0	0	10082	506	18	3	2006	3	MYO7A	11	76885810	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	514342	76885810	58120706	826	43999										
ALG8	79053	broad.mit.edu	37	chr11	77835150	77835150	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtccttgagctggagtaattCaaattatggacattcagcat	9	7	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:77835150C>G	uc001oza.1	-	3	350	c.285G>C	c.(283-285)TTG>TTC	p.L95F	ALG8_uc001oyz.1_Missense_Mutation_p.L95F|ALG8_uc009yux.1_5'UTR|ALG8_uc009yuy.1_RNA	NM_024079	NP_076984	Q9BVK2	ALG8_HUMAN	dolichyl pyrophosphate Glc1Man9GlcNAc2	95					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	alpha-1,3-mannosyltransferase activity|dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			ovary(2)|pancreas(1)	3	all_cancers(14;3.62e-19)|all_epithelial(13;1.27e-21)|Breast(9;8.51e-17)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;9.66e-25)			TGGAGTAATTCAAATTATGGA	0.403													15	345	---	---	---	---	PASS	G	77835150	G	G	77835150	3	3	119	1	0	0	0	0	1	0	0	0	523	825	29	2	1398	2	ALG8	11	77835150	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	949340	77835150	57171366	827	44000										
USP35	57558	broad.mit.edu	37	chr11	77907956	77907956	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agagctgttcgcagtcatctCctgcgcaggtgcgtgtgcgg	15	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:77907956C>T	uc009yva.1	+	2	911	c.665C>T	c.(664-666)TCC>TTC	p.S222F	USP35_uc001oze.2_Intron|USP35_uc001ozc.2_Intron|USP35_uc010rsp.1_Intron|USP35_uc001ozd.2_5'UTR|USP35_uc001ozf.2_5'Flank	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	222					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			GCAGTCATCTCCTGCGCAGGT	0.692													4	20	---	---	---	---	PASS	T	77907956	T	T	77907956	3	4	119	1	0	0	0	0	1	0	0	0	17063	855	30	2	667	2	USP35	11	77907956	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	72806	77907956	57098560	828	44001										
NARS2	79731	broad.mit.edu	37	chr11	78176982	78176982	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcttgagtgttaatggataAttaataacgaagacaggtat	11	3	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:78176982A>C	uc001ozi.2	-	11	1480	c.1104T>G	c.(1102-1104)AAT>AAG	p.N368K	NARS2_uc010rsq.1_Missense_Mutation_p.N141K	NM_024678	NP_078954	Q96I59	SYNM_HUMAN	asparaginyl-tRNA synthetase 2, mitochondrial	368					asparaginyl-tRNA aminoacylation	mitochondrial matrix	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding			ovary(2)	2	all_cancers(14;2.63e-17)|all_epithelial(13;1.85e-19)				L-Asparagine(DB00174)	TTAATGGATAATTAATAACGA	0.413													12	226	---	---	---	---	PASS	C	78176982	C	C	78176982	3	2	119	1	0	0	0	0	1	0	0	0	10171	98	4	5	345	5	NARS2	11	78176982	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	269026	78176982	56829534	829	44002										
ODZ4	26011	broad.mit.edu	37	chr11	78369130	78369130	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cggcccatctcgctctgtctCatgaagtggatgttgttggc	12	11	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:78369130C>G	uc001ozl.3	-	34	8746	c.8283G>C	c.(8281-8283)ATG>ATC	p.M2761I	ODZ4_uc001ozk.3_Missense_Mutation_p.M986I|ODZ4_uc009yvb.1_Intron	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2761	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CGCTCTGTCTCATGAAGTGGA	0.537													81	732	---	---	---	---	PASS	G	78369130	G	G	78369130	3	3	119	1	0	0	0	0	1	0	0	0	10837	826	29	2	30	2	ODZ4	11	78369130	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	192148	78369130	56637386	830	44003										
CCDC89	220388	broad.mit.edu	37	chr11	85397140	85397140	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggcggggtgtccatcctggGagcctgctgtttctggagca	17	10	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:85397140G>C	uc001pau.1	-	1	181	c.34C>G	c.(34-36)CCC>GCC	p.P12A		NM_152723	NP_689936	Q8N998	CCD89_HUMAN	coiled-coil domain containing 89	12						cytoplasm|nucleus					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				TCCATCCTGGGAGCCTGCTGT	0.522													5	399	---	---	---	---	PASS	C	85397140	C	C	85397140	3	2	119	1	0	0	0	0	1	0	0	0	2866	1174	41	2	1094	2	CCDC89	11	85397140	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	7028010	85397140	49609376	831	44004										
ME3	10873	broad.mit.edu	37	chr11	86158109	86158109	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaaggactccccgctgacctCggtgacccggtagcacttct	11	15	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:86158109C>T	uc001pbz.2	-	11	1632	c.1378G>A	c.(1378-1380)GAG>AAG	p.E460K	ME3_uc001pca.2_Missense_Mutation_p.E460K|ME3_uc009yvk.2_Missense_Mutation_p.E460K	NM_001014811	NP_001014811	Q16798	MAON_HUMAN	mitochondrial malic enzyme 3 precursor	460					aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)	CCGCTGACCTCGGTGACCCGG	0.478													7	158	---	---	---	---	PASS	T	86158109	T	T	86158109	3	4	119	1	0	0	0	0	1	0	0	0	9419	893	31	2	452	2	ME3	11	86158109	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	760969	86158109	48848407	832	44005										
TMEM135	65084	broad.mit.edu	37	chr11	87024486	87024486	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggtactagttgcttcctgcGctggatcagaaacttagatg	12	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:87024486G>T	uc001pch.2	+	11	979	c.956G>T	c.(955-957)CGC>CTC	p.R319L	TMEM135_uc010rtt.1_Missense_Mutation_p.R180L|TMEM135_uc001pci.2_Missense_Mutation_p.R297L	NM_022918	NP_075069	Q86UB9	TM135_HUMAN	transmembrane protein 135	319						integral to membrane					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				TGCTTCCTGCGCTGGATCAGA	0.294													69	325	---	---	---	---	PASS	T	87024486	T	T	87024486	3	4	119	1	0	0	0	0	1	0	0	0	16048	1087	38	1	998	1	TMEM135	11	87024486	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	866377	87024486	47982030	833	44006										
GRM5	2915	broad.mit.edu	37	chr11	88780474	88780474	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcatctgaaggcacaaccctCatgaaatatttgaacagagt	8	9	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:88780474C>T	uc001pcq.2	-	1	767	c.567G>A	c.(565-567)ATG>ATA	p.M189I	GRM5_uc009yvm.2_Missense_Mutation_p.M189I|GRM5_uc009yvn.1_Missense_Mutation_p.M189I	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	189	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	GCACAACCCTCATGAAATATT	0.468													14	326	---	---	---	---	PASS	T	88780474	T	T	88780474	3	4	119	1	0	0	0	0	1	0	0	0	6800	826	29	2	3107	2	GRM5	11	88780474	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1755988	88780474	46226042	834	44007										
MTNR1B	4544	broad.mit.edu	37	chr11	92714695	92714695	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctaatcctcgtggccatcttCtatgacggctgggccctggg	12	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:92714695C>A	uc001pdk.1	+	2	409	c.306C>A	c.(304-306)TTC>TTA	p.F102L		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	102	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	TGGCCATCTTCTATGACGGCT	0.572													106	311	---	---	---	---	PASS	A	92714695	A	A	92714695	3	1	119	1	0	0	0	0	1	0	0	0	9952	912	32	2	312	2	MTNR1B	11	92714695	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3934221	92714695	42291821	835	44008										
ENDOD1	23052	broad.mit.edu	37	chr11	94862660	94862660	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgacactgcttttggtaccCtgggtggcctatttcaggtg	12	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:94862660C>G	uc001pfh.2	+	2	1495	c.1420C>G	c.(1420-1422)CTG>GTG	p.L474V		NM_015036	NP_055851	O94919	ENDD1_HUMAN	endonuclease domain containing 1 precursor	474						extracellular region	endonuclease activity|metal ion binding|nucleic acid binding				0		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.00824)				TTTTGGTACCCTGGGTGGCCT	0.463													31	204	---	---	---	---	PASS	G	94862660	G	G	94862660	3	3	119	1	0	0	0	0	1	0	0	0	5114	680	24	4	1426	4	ENDOD1	11	94862660	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2147965	94862660	40143856	836	44009										
PPP2R1B	5519	broad.mit.edu	37	chr11	111597721	111597721	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgggagaaatgcactagctCtgcaattcccagctgggcaa	11	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:111597721C>T	uc001plw.1	-	16	2056	c.1972G>A	c.(1972-1974)GAG>AAG	p.E658K	uc001plu.1_5'Flank|PPP2R1B_uc009yye.1_RNA|PPP2R1B_uc010rwi.1_Missense_Mutation_p.E594K	NM_181699	NP_859050	P30154	2AAB_HUMAN	beta isoform of regulatory subunit A, protein	Error:Variant_position_missing_in_P30154_after_alignment							protein binding				0		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|Epithelial(105;2.36e-06)|all cancers(92;3.78e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0761)		TGCACTAGCTCTGCAATTCCC	0.443													45	55	---	---	---	---	PASS	T	111597721	T	T	111597721	3	4	119	1	0	0	0	0	1	0	0	0	12383	922	32	2	35	2	PPP2R1B	11	111597721	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	16735061	111597721	23408795	837	44010										
FDXACB1	91893	broad.mit.edu	37	chr11	111746170	111746170	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaaattatgagtcttcacacGaatcatataatcctttccat	3	9	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:111746170G>T	uc001pmc.3	-	5	1648	c.1351C>A	c.(1351-1353)CGT>AGT	p.R451S	ALG9_uc010rwo.1_Intron|FDXACB1_uc009yyi.2_Missense_Mutation_p.R302S	NM_138378	NP_612387	Q9BRP7	FDXA1_HUMAN	ferredoxin-fold anticodon binding domain	451					phenylalanyl-tRNA aminoacylation|tRNA processing		ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0						GTCTTCACACGAATCATATAA	0.398													61	108	---	---	---	---	PASS	T	111746170	T	T	111746170	3	4	119	1	0	0	0	0	1	0	0	0	5806	1058	37	2	527	2	FDXACB1	11	111746170	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	148449	111746170	23260346	838	44011										
PIH1D2	120379	broad.mit.edu	37	chr11	111942410	111942410	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacagttagaggtactggatGagtggttgattggggagctg	17	3	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:111942410G>C	uc001pmq.3	-	3	332	c.250C>G	c.(250-252)CAT>GAT	p.H84D	PIH1D2_uc009yyl.2_Missense_Mutation_p.H84D|PIH1D2_uc001pmp.3_Missense_Mutation_p.H84D|PIH1D2_uc010rws.1_Missense_Mutation_p.H84D|C11orf57_uc001pmu.2_5'Flank|C11orf57_uc001pmw.3_5'Flank|C11orf57_uc001pmt.3_5'Flank|C11orf57_uc001pmr.3_5'Flank|C11orf57_uc001pmv.3_5'Flank|C11orf57_uc001pms.3_5'Flank	NM_138789	NP_620144	Q8WWB5	PIHD2_HUMAN	PIH1 domain containing 2 isoform 1	84										ovary(1)	1		all_cancers(61;1.09e-14)|all_epithelial(67;7.64e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.19e-07)|BRCA - Breast invasive adenocarcinoma(274;6.17e-07)|all cancers(92;6.18e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0508)		GGTACTGGATGAGTGGTTGAT	0.368													8	186	---	---	---	---	PASS	C	111942410	C	C	111942410	3	2	119	1	0	0	0	0	1	0	0	0	11907	1290	45	2	771	2	PIH1D2	11	111942410	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	196240	111942410	23064106	839	44012										
UBE4A	9354	broad.mit.edu	37	chr11	118267127	118267127	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccaacggtggcttgcagagaGgaaacaacaaaaggagcaac	12	9	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:118267127G>A	uc001psw.2	+	20	3302	c.3173G>A	c.(3172-3174)AGG>AAG	p.R1058K	UBE4A_uc001psv.2_Missense_Mutation_p.R1065K	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	1058					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		CTTGCAGAGAGGAAACAACAA	0.433													17	123	---	---	---	---	PASS	A	118267127	A	A	118267127	3	1	119	1	0	0	0	0	1	0	0	0	16879	1000	35	3	3268	3	UBE4A	11	118267127	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6324717	118267127	16739389	840	44013										
H2AFX	3014	broad.mit.edu	37	chr11	118965713	118965713	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggtggccttcttgccgcccGagggcgccttcggccccacg	15	17	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:118965713G>A	uc001pvg.2	-	1	465	c.392C>T	c.(391-393)TCG>TTG	p.S131L	H2AFX_uc001pvh.1_RNA	NM_002105	NP_002096	P16104	H2AX_HUMAN	H2A histone family, member X	131					DNA damage checkpoint|double-strand break repair via homologous recombination|meiosis|nucleosome assembly|positive regulation of DNA repair|response to ionizing radiation	nucleoplasm|nucleosome	DNA binding|enzyme binding|histone binding				0	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.47e-05)		CTTGCCGCCCGAGGGCGCCTT	0.592								Chromatin_Structure|Direct_reversal_of_damage			OREG0021395	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	54	---	---	---	---	PASS	A	118965713	A	A	118965713	3	1	119	1	0	0	0	0	1	0	0	0	6928	1059	37	2	43	2	H2AFX	11	118965713	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	698586	118965713	16040803	841	44014										
OR8D2	283160	broad.mit.edu	37	chr11	124189674	124189674	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acagccatcattatggaacaGaccctgtgggacatgacaat	9	10	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:124189674G>T	uc010sah.1	-	1	420	c.420C>A	c.(418-420)GTC>GTA	p.V140V		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0525)		TTATGGAACAGACCCTGTGGG	0.468													30	70	---	---	---	---	PASS	T	124189674	T	T	124189674	2	4	119	1	0	0	0	0	0	0	0	1	11232	929	33	2		2	OR8D2	11	124189674	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	5223961	124189674	10816842	842	44015										
OR8B12	219858	broad.mit.edu	37	chr11	124412888	124412888	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgttgtgtagaatgctggaGaggatgagggcataagaaat	15	3	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:124412888G>T	uc010sam.1	-	1	663	c.663C>A	c.(661-663)CTC>CTA	p.L221L		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	221	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		GAATGCTGGAGAGGATGAGGG	0.438													18	39	---	---	---	---	PASS	T	124412888	T	T	124412888	2	4	119	1	0	0	0	0	0	0	0	1	11226	929	33	2		2	OR8B12	11	124412888	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	223214	124412888	10593628	843	44016										
ESAM	90952	broad.mit.edu	37	chr11	124623562	124623562	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcataccagagagccagcttGactctgggcaggcaccatca	10	13	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:124623562G>C	uc001qav.3	-	7	1326	c.1153C>G	c.(1153-1155)CAA>GAA	p.Q385E	VSIG2_uc001qas.2_5'Flank|VSIG2_uc001qat.2_5'Flank|ESAM_uc010sao.1_Intron|ESAM_uc001qau.3_Missense_Mutation_p.Q312E|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_3'UTR	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	385	Cytoplasmic (Potential).				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		GAGCCAGCTTGACTCTGGGCA	0.572													28	52	---	---	---	---	PASS	C	124623562	C	C	124623562	3	2	119	1	0	0	0	0	1	0	0	0	5247	1299	45	2	23	2	ESAM	11	124623562	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	210674	124623562	10382954	844	44017										
CDON	50937	broad.mit.edu	37	chr11	125867216	125867216	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gactttgaaggcagtgattgGagaacccccgtttgcccgag	13	10	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:125867216G>C	uc009zbw.2	-	12	2376	c.2248C>G	c.(2248-2250)CCA>GCA	p.P750A	CDON_uc001qdb.3_Missense_Mutation_p.P127A|CDON_uc001qdc.3_Missense_Mutation_p.P750A	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	750	Fibronectin type-III 2.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		GCAGTGATTGGAGAACCCCCG	0.507													51	49	---	---	---	---	PASS	C	125867216	C	C	125867216	3	2	119	1	0	0	0	0	1	0	0	0	3170	1174	41	2	1582	2	CDON	11	125867216	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1243654	125867216	9139300	845	44018										
PRDM10	56980	broad.mit.edu	37	chr11	129787090	129787090	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tagagttaactctggcacctCttctatcttcatgtctgggt	8	10	6	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr11:129787090C>T	uc001qfm.2	-	16	2501	c.2269G>A	c.(2269-2271)GAG>AAG	p.E757K	PRDM10_uc001qfj.2_Missense_Mutation_p.E671K|PRDM10_uc001qfk.2_Missense_Mutation_p.E667K|PRDM10_uc001qfl.2_Missense_Mutation_p.E671K|PRDM10_uc010sbx.1_Missense_Mutation_p.E667K|PRDM10_uc001qfn.2_Missense_Mutation_p.E753K|PRDM10_uc009zcs.1_5'Flank	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	757					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		TCTGGCACCTCTTCTATCTTC	0.383													79	100	---	---	---	---	PASS	T	129787090	T	T	129787090	3	4	119	1	0	0	0	0	1	0	0	0	12451	922	32	2	1241	2	PRDM10	11	129787090	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3919874	129787090	5219426	846	44019										
WNK1	65125	broad.mit.edu	37	chr12	968625	968625	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcccagaagatgttgcacaaGaaatggtaaattgacattag	9	6	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:968625G>A	uc001qio.3	+	6	2122	c.1615G>A	c.(1615-1617)GAA>AAA	p.E539K	WNK1_uc001qip.3_Missense_Mutation_p.E539K|WNK1_uc001qir.3_5'Flank	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	539					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			TGTTGCACAAGAAATGGTAAA	0.294													95	218	---	---	---	---	PASS	A	968625	A	A	968625	3	1	119	1	0	0	0	0	1	0	0	0	17374	943	33	2	1637	2	WNK1	12	968625	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08		968625	132883270	847	44020										
WNK1	65125	broad.mit.edu	37	chr12	993358	993358	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttatagtgagtcctgtgccaGaaagccgattacgagaatca	10	8	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:993358G>A	uc001qio.3	+	18	4300	c.3793G>A	c.(3793-3795)GAA>AAA	p.E1265K	WNK1_uc001qip.3_Missense_Mutation_p.E1018K|WNK1_uc001qir.3_Missense_Mutation_p.E438K	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1265					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			TCCTGTGCCAGAAAGCCGATT	0.408													31	396	---	---	---	---	PASS	A	993358	A	A	993358	3	1	119	1	0	0	0	0	1	0	0	0	17374	943	33	2	5365	2	WNK1	12	993358	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	24733	993358	132858537	848	44021										
WNK1	65125	broad.mit.edu	37	chr12	994443	994443	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgggagccacattaacatcAgtttctaccaccacttcatt	6	12	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:994443A>G	uc001qio.3	+	19	4980	c.4473A>G	c.(4471-4473)TCA>TCG	p.S1491S	WNK1_uc001qip.3_Silent_p.S1244S|WNK1_uc001qir.3_Silent_p.S664S	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1491					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CATTAACATCAGTTTCTACCA	0.517													16	438	---	---	---	---	PASS	G	994443	G	G	994443	2	3	119	1	0	0	0	0	0	0	0	1	17374	175	7	5		5	WNK1	12	994443	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	1085	994443	132857452	849	44022										
CACNA2D4	93589	broad.mit.edu	37	chr12	1987508	1987508	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cggaggtcgggatgggagagGatgtagccattgttggtgtt	19	4	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:1987508G>T	uc001qjp.2	-	16	1923	c.1692C>A	c.(1690-1692)ATC>ATA	p.I564I	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Silent_p.I452I	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	564	Cache.|Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		GATGGGAGAGGATGTAGCCAT	0.527													14	9	---	---	---	---	PASS	T	1987508	T	T	1987508	2	4	119	1	0	0	0	0	0	0	0	1	2551	1164	41	2		2	CACNA2D4	12	1987508	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	993065	1987508	131864387	850	44023										
CACNA1C	775	broad.mit.edu	37	chr12	2786995	2786995	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctggacaaggccatgaagGaggctgtgtccgctgcttct	14	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:2786995G>C	uc009zdu.1	+	43	5510	c.5197G>C	c.(5197-5199)GAG>CAG	p.E1733Q	CACNA1C_uc009zdv.1_Missense_Mutation_p.E1682Q|CACNA1C_uc001qkb.2_Missense_Mutation_p.E1685Q|CACNA1C_uc001qkc.2_Missense_Mutation_p.E1704Q|CACNA1C_uc001qke.2_Missense_Mutation_p.E1674Q|CACNA1C_uc001qkf.2_Missense_Mutation_p.E1693Q|CACNA1C_uc001qjz.2_Missense_Mutation_p.E1685Q|CACNA1C_uc001qkd.2_Missense_Mutation_p.E1704Q|CACNA1C_uc001qkg.2_Missense_Mutation_p.E1691Q|CACNA1C_uc009zdw.1_Missense_Mutation_p.E1726Q|CACNA1C_uc001qkh.2_Missense_Mutation_p.E1693Q|CACNA1C_uc001qkl.2_Missense_Mutation_p.E1733Q|CACNA1C_uc001qkn.2_Missense_Mutation_p.E1685Q|CACNA1C_uc001qko.2_Missense_Mutation_p.E1705Q|CACNA1C_uc001qkp.2_Missense_Mutation_p.E1685Q|CACNA1C_uc001qkr.2_Missense_Mutation_p.E1702Q|CACNA1C_uc001qku.2_Missense_Mutation_p.E1685Q|CACNA1C_uc001qkq.2_Missense_Mutation_p.E1713Q|CACNA1C_uc001qks.2_Missense_Mutation_p.E1685Q|CACNA1C_uc001qkt.2_Missense_Mutation_p.E1704Q|CACNA1C_uc001qki.1_Missense_Mutation_p.E1421Q|CACNA1C_uc001qkj.1_Missense_Mutation_p.E1421Q|CACNA1C_uc001qkk.1_Missense_Mutation_p.E1421Q|CACNA1C_uc001qkm.1_Missense_Mutation_p.E1410Q|CACNA1C_uc010sea.1_Missense_Mutation_p.E376Q|uc001qkx.1_RNA|CACNA1C_uc001qky.1_Missense_Mutation_p.E3Q	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1733	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GGCCATGAAGGAGGCTGTGTC	0.587													9	133	---	---	---	---	PASS	C	2786995	C	C	2786995	3	2	119	1	0	0	0	0	1	0	0	0	2540	1175	41	2	5598	2	CACNA1C	12	2786995	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	799487	2786995	131064900	851	44024										
TULP3	7289	broad.mit.edu	37	chr12	3040350	3040350	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccgggataaaaggggaatgGatcggggtctcttccccacc	13	11	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:3040350G>C	uc010seh.1	+	6	721	c.640G>C	c.(640-642)GAT>CAT	p.D214H	TULP3_uc010sef.1_RNA|TULP3_uc009zec.1_5'UTR|TULP3_uc010seg.1_RNA|TULP3_uc001qlj.2_Missense_Mutation_p.D214H|TULP3_uc010sei.1_Missense_Mutation_p.D71H	NM_003324	NP_003315	O75386	TULP3_HUMAN	tubby like protein 3 isoform 1	214					G-protein coupled receptor protein signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|extracellular region|nucleus|plasma membrane	phosphatidylinositol-4,5-bisphosphate binding				0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			AAGGGGAATGGATCGGGGTCT	0.443													73	177	---	---	---	---	PASS	C	3040350	C	C	3040350	3	2	119	1	0	0	0	0	1	0	0	0	16772	1174	41	2	662	2	TULP3	12	3040350	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	253355	3040350	130811545	852	44025										
CCND2	894	broad.mit.edu	37	chr12	4385331	4385331	+	Frame_Shift_Del	DEL	C	-	-													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caaagagaccagcccgctgaCcgcggagaagctgtgcattt							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:4385331delC	uc001qmo.2	+	2	661	c.356delC	c.(355-357)ACCfs	p.T119fs		NM_001759	NP_001750	P30279	CCND2_HUMAN	cyclin D2	119	Cyclin N-terminal.				cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding			haematopoietic_and_lymphoid_tissue(1)|breast(1)|kidney(1)	3			all cancers(3;4.15e-10)|GBM - Glioblastoma multiforme(3;6.34e-05)|Colorectal(7;0.00245)|OV - Ovarian serous cystadenocarcinoma(31;0.00301)|COAD - Colon adenocarcinoma(12;0.0264)|STAD - Stomach adenocarcinoma(119;0.206)			AGCCCGCTGACCGCGGAGAAG	0.582			T	IGL@	NHL,CLL								70	77	---	---	---	---		-	4385331	-	-	4385331	7	5	119	1	0	1	0	1	0	0	0	0	2917	507	18	0	362	0	CCND2	12	4385331	Frame_Shift_Del	DEL	C	TCGA-60-2698-01A-01D-1522-08	1344981	4385331	129466564	853	44026										
AKAP3	10566	broad.mit.edu	37	chr12	4725047	4725047	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctttgtccacagcagcagctGagagctgaagtagctgtgaa	12	9	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:4725047G>A	uc001qnb.3	-	5	2649	c.2420C>T	c.(2419-2421)TCA>TTA	p.S807L		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	807					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						AGCAGCAGCTGAGAGCTGAAG	0.582													66	143	---	---	---	---	PASS	A	4725047	A	A	4725047	3	1	119	1	0	0	0	0	1	0	0	0	452	1294	45	2	145	2	AKAP3	12	4725047	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	339716	4725047	129126848	854	44027										
ACSM4	341392	broad.mit.edu	37	chr12	7469741	7469741	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catattttgcagattcgcctCtgaagagcacagctgtgtgg	11	9	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:7469741C>G	uc001qsx.1	+	4	629	c.629C>G	c.(628-630)TCT>TGT	p.S210C		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	210					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						AGATTCGCCTCTGAAGAGCAC	0.483													3	76	---	---	---	---	PASS	G	7469741	G	G	7469741	3	3	119	1	0	0	0	0	1	0	0	0	186	913	32	2	643	2	ACSM4	12	7469741	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2744694	7469741	126382154	855	44028										
CD163L1	283316	broad.mit.edu	37	chr12	7525937	7525937	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcacatgtgatccaggtctCttctgctgggctggagattc	11	10	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:7525937C>G	uc001qsy.2	-	14	3735	c.3709G>C	c.(3709-3711)GAG>CAG	p.E1237Q	CD163L1_uc010sge.1_Missense_Mutation_p.E1247Q	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	1237	SRCR 11.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						ATCCAGGTCTCTTCTGCTGGG	0.458													29	131	---	---	---	---	PASS	G	7525937	G	G	7525937	3	3	119	1	0	0	0	0	1	0	0	0	2968	922	32	2	676	2	CD163L1	12	7525937	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	56196	7525937	126325958	856	44029										
CD163L1	283316	broad.mit.edu	37	chr12	7586033	7586033	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcttccccattcccggtgttGacattcccagagagctgact	9	14	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:7586033G>C	uc001qsy.2	-	3	408	c.382C>G	c.(382-384)CAA>GAA	p.Q128E	CD163L1_uc010sge.1_Missense_Mutation_p.Q128E	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	128	SRCR 1.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						TCCCGGTGTTGACATTCCCAG	0.433													8	209	---	---	---	---	PASS	C	7586033	C	C	7586033	3	2	119	1	0	0	0	0	1	0	0	0	2968	1299	45	2	4047	2	CD163L1	12	7586033	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	60096	7586033	126265862	857	44030										
CD163	9332	broad.mit.edu	37	chr12	7635290	7635290	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtcaagaagaataatgcgaCgaaaatggccaacagaacaa	9	7	1	3	rs139478533	byFrequency	TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:7635290C>T	uc001qsz.3	-	14	3324	c.3196G>A	c.(3196-3198)GTC>ATC	p.V1066I	CD163_uc001qta.3_Missense_Mutation_p.V1066I|CD163_uc009zfw.2_Missense_Mutation_p.V1099I	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	1066	Helical; (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						AATAATGCGACGAAAATGGCC	0.423													63	286	---	---	---	---	PASS	T	7635290	T	T	7635290	3	4	119	1	0	0	0	0	1	0	0	0	2967	536	19	1	286	1	CD163	12	7635290	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	49257	7635290	126216605	858	44031										
ARHGDIB	397	broad.mit.edu	37	chr12	15095465	15095465	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtggatgcattcattctgtCcactccttcttaatcgacag	8	11	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:15095465C>T	uc001rcq.1	-	6	701	c.597G>A	c.(595-597)TGG>TGA	p.W199*	ARHGDIB_uc001rcp.1_RNA	NM_001175	NP_001166	P52566	GDIR2_HUMAN	Rho GDP dissociation inhibitor (GDI) beta	199					actin cytoskeleton organization|cellular component movement|immune response|multicellular organismal development|negative regulation of cell adhesion|regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytoplasmic membrane-bounded vesicle|cytoskeleton|cytosol	GTPase activator activity|Rho GDP-dissociation inhibitor activity				0						TTCATTCTGTCCACTCCTTCT	0.567													13	255	---	---	---	---	PASS	T	15095465	T	T	15095465	4	4	119	1	0	0	0	0	0	1	0	0	891	856	30	2	12	2	ARHGDIB	12	15095465	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	7460175	15095465	118756430	859	44032										
PTPRO	5800	broad.mit.edu	37	chr12	15732973	15732973	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttctccttattctctacagAtgacttcagccgtgtgagat	7	10	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:15732973A>G	uc001rcv.1	+	21	3095	c.2921A>G	c.(2920-2922)TAT>TGT	p.Y974C	PTPRO_uc001rcw.1_Missense_Mutation_p.Y946C|PTPRO_uc001rcx.1_Missense_Mutation_p.Y163C|PTPRO_uc001rcy.1_Missense_Mutation_p.Y163C|PTPRO_uc001rcz.1_Missense_Mutation_p.Y135C|PTPRO_uc001rda.1_Missense_Mutation_p.Y135C	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	974	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					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)				TTCTCTACAGATGACTTCAGC	0.343													53	110	---	---	---	---	PASS	G	15732973	G	G	15732973	3	3	119	1	0	0	0	0	1	0	0	0	12809	347	12	5	3003	5	PTPRO	12	15732973	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	637508	15732973	118118922	860	44033										
EPS8	2059	broad.mit.edu	37	chr12	15784501	15784501	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caggaacaggtgctggagtgGaagggggaaggggaacagga	21	4	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:15784501G>C	uc009zif.2	-	18	2013	c.1919C>G	c.(1918-1920)TCC>TGC	p.S640C	EPS8_uc001rdb.2_Missense_Mutation_p.S640C|EPS8_uc009zig.2_Missense_Mutation_p.S380C|EPS8_uc010shv.1_Missense_Mutation_p.S380C	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	640	Pro-rich.				cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		TGCTGGAGTGGAAGGGGGAAG	0.542													125	180	---	---	---	---	PASS	C	15784501	C	C	15784501	3	2	119	1	0	0	0	0	1	0	0	0	5194	1174	41	2	565	2	EPS8	12	15784501	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	51528	15784501	118067394	861	44034										
PLCZ1	89869	broad.mit.edu	37	chr12	18854647	18854647	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acgcttatcagaaccttttcTttcatgggtttcctttaagg	7	9	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:18854647T>A	uc010sid.1	-	8	1119	c.928A>T	c.(928-930)AGA>TGA	p.R310*	PLCZ1_uc001rdv.3_Nonsense_Mutation_p.R206*|PLCZ1_uc001rdw.3_Nonsense_Mutation_p.R51*|PLCZ1_uc001rdu.1_Nonsense_Mutation_p.R51*|PLCZ1_uc009zil.1_RNA	NM_033123	NP_149114	Q86YW0	PLCZ1_HUMAN	phospholipase C, zeta 1	310					intracellular signal transduction|lipid catabolic process|multicellular organismal development	nucleus|perinuclear region of cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)					GAACCTTTTCTTTCATGGGTT	0.269													48	33	---	---	---	---	PASS	A	18854647	A	A	18854647	4	1	119	1	0	0	0	0	0	1	0	0	12044	1617	56	5	930	5	PLCZ1	12	18854647	Nonsense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	3070146	18854647	114997248	862	44035										
SLCO1B3	28234	broad.mit.edu	37	chr12	21008097	21008097	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtttaattgatggaagctttGaaattggtaacttttatttt	8	2	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:21008097G>A	uc001rek.2	+	3	346	c.220G>A	c.(220-222)GAA>AAA	p.E74K	SLCO1B3_uc001rel.2_Missense_Mutation_p.E74K|SLCO1B3_uc010sil.1_Missense_Mutation_p.E74K|LST-3TM12_uc010sim.1_Missense_Mutation_p.E74K	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	74	Helical; Name=2; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TGGAAGCTTTGAAATTGGTAA	0.274													11	103	---	---	---	---	PASS	A	21008097	A	A	21008097	3	1	119	1	0	0	0	0	1	0	0	0	14724	1291	45	2	226	2	SLCO1B3	12	21008097	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2153450	21008097	112843798	863	44036										
KCNJ8	3764	broad.mit.edu	37	chr12	21919017	21919017	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaggttcgtgcttgtgtggtGatgccagtagtttcaaccac	13	8	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:21919017G>A	uc001rff.2	-	3	1253	c.915C>T	c.(913-915)ATC>ATT	p.I305I		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	305	Cytoplasmic (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	CTTGTGTGGTGATGCCAGTAG	0.498													12	233	---	---	---	---	PASS	A	21919017	A	A	21919017	2	1	119	1	0	0	0	0	0	0	0	1	8056	1280	45	2		2	KCNJ8	12	21919017	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	910920	21919017	111932878	864	44037										
KCNJ8	3764	broad.mit.edu	37	chr12	21919230	21919230	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	accacctccccttcaggtgtAgttgttttcttgaccacctg	7	14	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:21919230A>G	uc001rff.2	-	3	1040	c.702T>C	c.(700-702)ACT>ACC	p.T234T		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	234	Cytoplasmic (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	CTTCAGGTGTAGTTGTTTTCT	0.478													5	323	---	---	---	---	PASS	G	21919230	G	G	21919230	2	3	119	1	0	0	0	0	0	0	0	1	8056	407	15	5		5	KCNJ8	12	21919230	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	213	21919230	111932665	865	44038										
YARS2	51067	broad.mit.edu	37	chr12	32900274	32900274	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttggtgatttatgctgactCcgccttctgttatcattcga	9	9	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:32900274C>G	uc001rli.2	-	5	1364	c.1298G>C	c.(1297-1299)GGA>GCA	p.G433A		NM_001040436	NP_001035526	Q9Y2Z4	SYYM_HUMAN	tyrosyl-tRNA synthetase 2, mitochondrial	433					tyrosyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|RNA binding|tyrosine-tRNA ligase activity				0	Lung NSC(5;2.43e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)				L-Tyrosine(DB00135)	TATGCTGACTCCGCCTTCTGT	0.348													5	397	---	---	---	---	PASS	G	32900274	G	G	32900274	3	3	119	1	0	0	0	0	1	0	0	0	17465	855	30	2	139	2	YARS2	12	32900274	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	10981044	32900274	100951621	866	44039										
PKP2	5318	broad.mit.edu	37	chr12	32975454	32975454	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccaatacttttgttgttgtCagtctggatattccggtttt	8	7	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:32975454C>T	uc001rlj.3	-	9	2033	c.1918G>A	c.(1918-1920)GAC>AAC	p.D640N	PKP2_uc001rlk.3_Missense_Mutation_p.D596N|PKP2_uc010skj.1_Missense_Mutation_p.D596N	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	640					cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					TTGTTGTTGTCAGTCTGGATA	0.403													12	306	---	---	---	---	PASS	T	32975454	T	T	32975454	3	4	119	1	0	0	0	0	1	0	0	0	11985	826	29	2	751	2	PKP2	12	32975454	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	75180	32975454	100876441	867	44040										
KIF21A	55605	broad.mit.edu	37	chr12	39726900	39726900	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggtcttacttgccgacgaaGagccgtaacctgaaattgca	11	10	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:39726900G>C	uc001rly.2	-	19	2643	c.2497C>G	c.(2497-2499)CTT>GTT	p.L833V	KIF21A_uc001rlv.2_5'Flank|KIF21A_uc001rlw.2_Missense_Mutation_p.L150V|KIF21A_uc001rlx.2_Missense_Mutation_p.L820V|KIF21A_uc001rlz.2_Missense_Mutation_p.L797V|KIF21A_uc010skl.1_Missense_Mutation_p.L820V	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	833					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TGCCGACGAAGAGCCGTAACC	0.448													38	240	---	---	---	---	PASS	C	39726900	C	C	39726900	3	2	119	1	0	0	0	0	1	0	0	0	8288	942	33	2	2607	2	KIF21A	12	39726900	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6751446	39726900	94124995	868	44041										
ABCD2	225	broad.mit.edu	37	chr12	39980068	39980068	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaatcagggtaaatgacttGatcccgaagacttccaagag	10	8	1	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:39980068G>C	uc001rmb.2	-	7	2104	c.1678C>G	c.(1678-1680)CAA>GAA	p.Q560E		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	560	ABC transporter.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						TAAATGACTTGATCCCGAAGA	0.398													89	146	---	---	---	---	PASS	C	39980068	C	C	39980068	3	2	119	1	0	0	0	0	1	0	0	0	61	1299	45	2	560	2	ABCD2	12	39980068	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	253168	39980068	93871827	869	44042										
LRRK2	120892	broad.mit.edu	37	chr12	40619421	40619421	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcgtcttggactcctatatGagagtcgcgagtgtgcagca	12	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:40619421G>A	uc001rmg.3	+	2	337	c.216G>A	c.(214-216)ATG>ATA	p.M72I		NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	72					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)				ACTCCTATATGAGAGTCGCGA	0.438													5	105	---	---	---	---	PASS	A	40619421	A	A	40619421	3	1	119	1	0	0	0	0	1	0	0	0	9033	1290	45	2	222	2	LRRK2	12	40619421	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	639353	40619421	93232474	870	44043										
LRRK2	120892	broad.mit.edu	37	chr12	40689242	40689242	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acaaaagggtcatcaaaactTcaatcccatatgaggcattc	6	10	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:40689242T>G	uc001rmg.3	+	23	3013	c.2892T>G	c.(2890-2892)CTT>CTG	p.L964L	LRRK2_uc001rmh.1_Silent_p.L586L|LRRK2_uc009zjw.2_5'UTR	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	964					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)				CATCAAAACTTCAATCCCATA	0.264													8	149	---	---	---	---	PASS	G	40689242	G	G	40689242	2	3	119	1	0	0	0	0	0	0	0	1	9033	1770	62	5		5	LRRK2	12	40689242	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	69821	40689242	93162653	871	44044										
CNTN1	1272	broad.mit.edu	37	chr12	41410677	41410677	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttcaacaacaaaggagatgGaccttacagcctagtagcag	9	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:41410677G>C	uc001rmm.1	+	19	2491	c.2378G>C	c.(2377-2379)GGA>GCA	p.G793A	CNTN1_uc001rmn.1_Missense_Mutation_p.G782A	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	793	Fibronectin type-III 2.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				AAAGGAGATGGACCTTACAGC	0.433													17	127	---	---	---	---	PASS	C	41410677	C	C	41410677	3	2	119	1	0	0	0	0	1	0	0	0	3640	1174	41	2	2448	2	CNTN1	12	41410677	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	721435	41410677	92441218	872	44045										
PRICKLE1	144165	broad.mit.edu	37	chr12	42862463	42862463	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcaccgtggtttgagcagttCtgcatggtgcctgccacagt	13	11	1	1	rs61924369		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:42862463C>G	uc010skv.1	-	5	840	c.553G>C	c.(553-555)GAA>CAA	p.E185Q	PRICKLE1_uc001rnl.2_Missense_Mutation_p.E185Q|PRICKLE1_uc010skw.1_Missense_Mutation_p.E185Q|PRICKLE1_uc001rnm.2_Missense_Mutation_p.E185Q	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	185	LIM zinc-binding 1.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		TTGAGCAGTTCTGCATGGTGC	0.433													6	142	---	---	---	---	PASS	G	42862463	G	G	42862463	3	3	119	1	0	0	0	0	1	0	0	0	12486	922	32	2	1958	2	PRICKLE1	12	42862463	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1451786	42862463	90989432	873	44046										
PLEKHA9	51054	broad.mit.edu	37	chr12	45568035	45568035	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtattacaggttgatttcagCaaagttcccacatcaattcc	6	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:45568035C>A	uc001rom.1	-	3	651	c.114G>T	c.(112-114)TTG>TTT	p.L38F	PLEKHA9_uc009zke.2_Missense_Mutation_p.L38F	NM_015899	NP_056983			pleckstrin homology domain containing, family A												0	Lung SC(27;0.192)|Renal(347;0.236)			GBM - Glioblastoma multiforme(48;0.173)		TTGATTTCAGCAAAGTTCCCA	0.453													228	319	---	---	---	---	PASS	A	45568035	A	A	45568035	3	1	119	1	0	0	0	0	1	0	0	0	12063	709	25	3	1065	3	PLEKHA9	12	45568035	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2705572	45568035	88283860	874	44047										
ARID2	196528	broad.mit.edu	37	chr12	46123889	46123889	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggatcttcacggtctctacaCcagagtcactactttaggcg	9	12	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:46123889C>T	uc001ros.1	+	2	155	c.155C>T	c.(154-156)ACC>ATC	p.T52I	ARID2_uc001ror.2_Missense_Mutation_p.T52I|LOC400027_uc001roq.2_5'Flank	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	52	ARID.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		GGTCTCTACACCAGAGTCACT	0.527													55	78	---	---	---	---	PASS	T	46123889	T	T	46123889	3	4	119	1	0	0	0	0	1	0	0	0	915	507	18	3	161	3	ARID2	12	46123889	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	555854	46123889	87728006	875	44048										
ARID2	196528	broad.mit.edu	37	chr12	46245204	46245204	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctagccctcaggtggtctatCaggtggccagtaaccaagcc	11	13	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:46245204C>G	uc001ros.1	+	15	3298	c.3298C>G	c.(3298-3300)CAG>GAG	p.Q1100E	ARID2_uc001ror.2_Missense_Mutation_p.Q1100E|ARID2_uc009zkg.1_Missense_Mutation_p.Q556E|ARID2_uc009zkh.1_Missense_Mutation_p.Q727E|ARID2_uc001rou.1_Missense_Mutation_p.Q434E	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1100	Gln-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		GGTGGTCTATCAGGTGGCCAG	0.532													12	147	---	---	---	---	PASS	G	46245204	G	G	46245204	3	3	119	1	0	0	0	0	1	0	0	0	915	827	29	2	3356	2	ARID2	12	46245204	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	121315	46245204	87606691	876	44049										
RPAP3	79657	broad.mit.edu	37	chr12	48084348	48084348	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagcaaatcgagcagcacctCgtctggaataagcctttgta	9	10	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:48084348C>T	uc001rpr.2	-	6	736	c.620G>A	c.(619-621)CGA>CAA	p.R207Q	RPAP3_uc010slk.1_Missense_Mutation_p.R48Q|RPAP3_uc001rps.2_Missense_Mutation_p.R207Q	NM_024604	NP_078880	Q9H6T3	RPAP3_HUMAN	RNA polymerase II associated protein 3 isoform	207	TPR 4.						binding			ovary(1)	1	Lung SC(27;0.192)					AGCAGCACCTCGTCTGGAATA	0.333													108	442	---	---	---	---	PASS	T	48084348	T	T	48084348	3	4	119	1	0	0	0	0	1	0	0	0	13543	884	31	2	1425	2	RPAP3	12	48084348	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1839144	48084348	85767547	877	44050										
RAPGEF3	10411	broad.mit.edu	37	chr12	48131351	48131351	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctccagtcccagcccctcctCatggctccagctctcgggag	9	19	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:48131351C>T	uc009zkp.2	-	27	3085	c.2645G>A	c.(2644-2646)TGA>TAA	p.*882*	uc001rpv.2_Intron|RAPGEF3_uc001rpw.2_Silent_p.*217*|RAPGEF3_uc001rpx.2_Silent_p.*339*|RAPGEF3_uc010sln.1_Silent_p.*379*|RAPGEF3_uc001rpy.2_RNA|RAPGEF3_uc009zkq.2_Silent_p.*882*|RAPGEF3_uc001rpz.3_Silent_p.*924*	NM_001098532	NP_001092002	A8K2G5	A8K2G5_HUMAN	Rap guanine nucleotide exchange factor 3 isoform	882					regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex	cAMP-dependent protein kinase regulator activity|guanyl-nucleotide exchange factor activity			lung(2)|skin(1)|pancreas(1)	4	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.0375)		AGCCCCTCCTCATGGCTCCAG	0.647													9	15	---	---	---	---	PASS	T	48131351	T	T	48131351	2	4	119	1	0	0	0	0	0	0	0	1	13045	837	29	2		2	RAPGEF3	12	48131351	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	47003	48131351	85720544	878	44051										
SENP1	29843	broad.mit.edu	37	chr12	48457586	48457586	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgagaacttcatcctgattCccattacgaaatacattctt	4	11	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:48457586C>T	uc001rqx.2	-	13	1760	c.1314G>A	c.(1312-1314)GGG>GGA	p.G438G	SENP1_uc001rqw.2_Silent_p.G438G|SENP1_uc001rqy.2_Silent_p.G239G|SENP1_uc001rqz.2_Silent_p.G239G|SENP1_uc009zkx.2_Silent_p.G438G	NM_014554	NP_055369	Q9P0U3	SENP1_HUMAN	sentrin/SUMO-specific protease 1	438					activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)				CATCCTGATTCCCATTACGAA	0.378													17	76	---	---	---	---	PASS	T	48457586	T	T	48457586	2	4	119	1	0	0	0	0	0	0	0	1	14046	842	30	2		2	SENP1	12	48457586	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	326235	48457586	85394309	879	44052										
MLL2	8085	broad.mit.edu	37	chr12	49442443	49442443	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggtctcactgtatggtaccTgcattaggacaaatttgtct	9	8	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:49442443T>C	uc001rta.3	-	13	4130	c.4130A>G	c.(4129-4131)CAG>CGG	p.Q1377R		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1377	PHD-type 3.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GTATGGTACCTGCATTAGGAC	0.463			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			182	300	---	---	---	---	PASS	C	49442443	C	C	49442443	3	2	119	1	0	0	0	0	1	0	0	0	9621	1594	55	5	12651	5	MLL2	12	49442443	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	984857	49442443	84409452	880	44053										
DHH	50846	broad.mit.edu	37	chr12	49488131	49488131	+	Silent	SNP	C	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcccactggcgcccagggtCcgctctggcacgccgggcac							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:49488131C>A	uc001rtf.2	-	1	472	c.165G>T	c.(163-165)CGG>CGT	p.R55R		NM_021044	NP_066382	O43323	DHH_HUMAN	desert hedgehog preproprotein	55					cell-cell signaling|proteolysis	extracellular space|plasma membrane	calcium ion binding|peptidase activity|zinc ion binding			lung(1)|breast(1)	2						CGCCCAGGGTCCGCTCTGGCA	0.602													18	88	---	---	---	---	PASS	A	49488131	A	A	49488131	2	1	119	1	0	0	0	0	0	0	0	1	4483	842	30	2		2	DHH	12	49488131	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	45688	49488131	84363764	881	44054	820	2								
DHH	50846	broad.mit.edu	37	chr12	49488136	49488136	+	Missense_Mutation	SNP	C	G	G													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actggcgcccagggtccgctCtggcacgccgggcacaaatt							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:49488136C>G	uc001rtf.2	-	1	467	c.160G>C	c.(160-162)GAG>CAG	p.E54Q		NM_021044	NP_066382	O43323	DHH_HUMAN	desert hedgehog preproprotein	54					cell-cell signaling|proteolysis	extracellular space|plasma membrane	calcium ion binding|peptidase activity|zinc ion binding			lung(1)|breast(1)	2						AGGGTCCGCTCTGGCACGCCG	0.602													17	90	---	---	---	---	PASS	G	49488136	G	G	49488136	3	3	119	1	0	0	0	0	1	0	0	0	4483	922	32	2	1042	2	DHH	12	49488136	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5	49488136	84363759	882	44055	820	2								
AQP5	362	broad.mit.edu	37	chr12	50356011	50356011	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcggcggccacatcaaccccGccatcaccctggccctcttg	9	20	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:50356011G>T	uc001rvo.2	+	1	733	c.211G>T	c.(211-213)GCC>TCC	p.A71S		NM_001651	NP_001642	P55064	AQP5_HUMAN	aquaporin 5	71	Cytoplasmic (Potential).|NPA 1.				carbon dioxide transport|excretion|odontogenesis|pancreatic juice secretion	apical plasma membrane|integral to plasma membrane	protein binding|water channel activity				0						CATCAACCCCGCCATCACCCT	0.692													16	31	---	---	---	---	PASS	T	50356011	T	T	50356011	3	4	119	1	0	0	0	0	1	0	0	0	829	1087	38	1	213	1	AQP5	12	50356011	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	867875	50356011	83495884	883	44056										
SMARCD1	6602	broad.mit.edu	37	chr12	50482376	50482376	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttttaagtccttggtgattGaactggacaaagacctgtat	9	6	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:50482376G>A	uc001rvx.3	+	6	897	c.727G>A	c.(727-729)GAA>AAA	p.E243K	SMARCD1_uc010smo.1_Missense_Mutation_p.E243K|SMARCD1_uc001rvy.3_Missense_Mutation_p.E243K|SMARCD1_uc009zlp.2_Missense_Mutation_p.E202K	NM_003076	NP_003067	Q96GM5	SMRD1_HUMAN	SWI/SNF-related matrix-associated	243	Necessary for GR/NR3C1-mediated remodeling and transcription from chromatin; required for GR/NR3C1 interaction with the BRG1/SMARCA4 complex in vivo.|Interaction with SMARCC1 and SMARCC2.				chromatin-mediated maintenance of transcription|nervous system development|regulation of transcription from RNA polymerase II promoter	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	protein complex scaffold|transcription coactivator activity			ovary(1)	1						CTTGGTGATTGAACTGGACAA	0.423													17	151	---	---	---	---	PASS	A	50482376	A	A	50482376	3	1	119	1	0	0	0	0	1	0	0	0	14777	1291	45	2	749	2	SMARCD1	12	50482376	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	126365	50482376	83369519	884	44057										
SCN8A	6334	broad.mit.edu	37	chr12	52099357	52099357	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggcagaacaaaaagaggctGaatttaaagcaatgttggag	12	4	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:52099357G>A	uc001ryw.2	+	10	1469	c.1291G>A	c.(1291-1293)GAA>AAA	p.E431K	SCN8A_uc010snl.1_Missense_Mutation_p.E296K|SCN8A_uc001ryx.1_Missense_Mutation_p.E296K|SCN8A_uc001ryz.1_Missense_Mutation_p.E296K|SCN8A_uc001ryy.2_Missense_Mutation_p.E296K	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	431	I.				axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	AAAAGAGGCTGAATTTAAAGC	0.453													5	58	---	---	---	---	PASS	A	52099357	A	A	52099357	3	1	119	1	0	0	0	0	1	0	0	0	13924	1291	45	2	1325	2	SCN8A	12	52099357	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1616981	52099357	81752538	885	44058										
KRT85	3891	broad.mit.edu	37	chr12	52760965	52760965	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tagccgaagctgcgtccgcaGgagccggctcggaagccacc	14	15	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:52760965G>T	uc001sag.2	-	1	345	c.225C>A	c.(223-225)TCC>TCA	p.S75S		NM_002283	NP_002274	P78386	KRT85_HUMAN	keratin 85	75	Head.				epidermis development	keratin filament	protein binding|structural molecule activity			ovary(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		TGCGTCCGCAGGAGCCGGCTC	0.697													15	26	---	---	---	---	PASS	T	52760965	T	T	52760965	2	4	119	1	0	0	0	0	0	0	0	1	8499	987	35	3		3	KRT85	12	52760965	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	661608	52760965	81090930	886	44059										
ITGB7	3695	broad.mit.edu	37	chr12	53590369	53590369	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccccacctcctcacctggcaGagtgcagcctgcagaatggc	10	17	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:53590369G>T	uc009zmv.2	-	5	881	c.810C>A	c.(808-810)CTC>CTA	p.L270L	ITGB7_uc001scc.2_Silent_p.L270L|ITGB7_uc010snz.1_RNA|ITGB7_uc010soa.1_3'UTR	NM_000889	NP_000880	P26010	ITB7_HUMAN	integrin, beta 7 precursor	270	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|regulation of immune response	integrin complex	identical protein binding|metal ion binding|receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|breast(1)	8						TCACCTGGCAGAGTGCAGCCT	0.532													18	39	---	---	---	---	PASS	T	53590369	T	T	53590369	2	4	119	1	0	0	0	0	0	0	0	1	7900	929	33	2		2	ITGB7	12	53590369	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	829404	53590369	80261526	887	44060										
PFDN5	5204	broad.mit.edu	37	chr12	53689355	53689355	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagtcggccttcccaacatgGcgcagtctattaacatcacg	8	13	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:53689355G>T	uc001scl.2	+	1	121	c.4G>T	c.(4-6)GCG>TCG	p.A2S	PFDN5_uc001scm.2_Missense_Mutation_p.A2S|PFDN5_uc001scn.2_RNA|PFDN5_uc001sco.2_RNA	NM_002624	NP_002615	Q99471	PFD5_HUMAN	prefoldin subunit 5 isoform alpha	2					'de novo' posttranslational protein folding|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent	nucleus|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)	1						TCCCAACATGGCGCAGTCTAT	0.617													56	149	---	---	---	---	PASS	T	53689355	T	T	53689355	3	4	119	1	0	0	0	0	1	0	0	0	11758	1203	42	3	6	3	PFDN5	12	53689355	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	98986	53689355	80162540	888	44061										
AMHR2	269	broad.mit.edu	37	chr12	53818148	53818148	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acaaagacactgggagagctGctagatacaggcacagagct	12	9	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:53818148G>A	uc001scx.1	+	2	204	c.126G>A	c.(124-126)CTG>CTA	p.L42L	AMHR2_uc009zmy.1_Silent_p.L42L	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	42	Extracellular (Potential).				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	TGGGAGAGCTGCTAGATACAG	0.602									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				34	52	---	---	---	---	PASS	A	53818148	A	A	53818148	2	1	119	1	0	0	0	0	0	0	0	1	573	1306	46	3		3	AMHR2	12	53818148	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	128793	53818148	80033747	889	44062										
HOXC9	3225	broad.mit.edu	37	chr12	54396299	54396299	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taccagacgctggaactggaGaaggagtttctcttcaatat	10	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:54396299G>A	uc001sep.2	+	3	722	c.624G>A	c.(622-624)GAG>GAA	p.E208E	HOXC9_uc001seq.2_Silent_p.E208E	NM_006897	NP_008828	P31274	HXC9_HUMAN	homeobox C9	208	Homeobox.				multicellular organismal development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)|skin(1)	3						TGGAACTGGAGAAGGAGTTTC	0.557													6	202	---	---	---	---	PASS	A	54396299	A	A	54396299	2	1	119	1	0	0	0	0	0	0	0	1	7317	933	33	2		2	HOXC9	12	54396299	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	578151	54396299	79455596	890	44063										
HOXC6	3223	broad.mit.edu	37	chr12	54423608	54423608	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagatcaaaatctggttccaGaaccgccggatgaagtggaa	11	9	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:54423608G>T	uc001sev.2	+	2	682	c.570G>T	c.(568-570)CAG>CAT	p.Q190H	HOXC6_uc001ses.2_Missense_Mutation_p.Q108H|HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron	NM_004503	NP_004494	P09630	HXC6_HUMAN	homeobox C6 isoform 1	190	Homeobox.				regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|upper_aerodigestive_tract(1)	3						TCTGGTTCCAGAACCGCCGGA	0.572													38	134	---	---	---	---	PASS	T	54423608	T	T	54423608	3	4	119	1	0	0	0	0	1	0	0	0	7315	933	33	2	576	2	HOXC6	12	54423608	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	27309	54423608	79428287	891	44064										
NCKAP1L	3071	broad.mit.edu	37	chr12	54902176	54902176	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgtattttccttgtagaatCtcaactttgatttcactcgg	6	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:54902176C>G	uc001sgc.3	+	5	446	c.367C>G	c.(367-369)CTC>GTC	p.L123V	NCKAP1L_uc010sox.1_Translation_Start_Site|NCKAP1L_uc010soy.1_Missense_Mutation_p.L73V	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	123					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						CTTGTAGAATCTCAACTTTGA	0.433													54	578	---	---	---	---	PASS	G	54902176	G	G	54902176	3	3	119	1	0	0	0	0	1	0	0	0	10222	913	32	2	385	2	NCKAP1L	12	54902176	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	478568	54902176	78949719	892	44065										
MMP19	4327	broad.mit.edu	37	chr12	56233310	56233310	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctggatccctgccacatcatCtgggtgcagcttaaagtggg	12	11	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:56233310C>G	uc001sib.2	-	5	857	c.736G>C	c.(736-738)GAT>CAT	p.D246H	MMP19_uc001sia.2_5'UTR|MMP19_uc001sid.2_RNA|MMP19_uc010spw.1_Intron	NM_002429	NP_002420	Q99542	MMP19_HUMAN	matrix metalloproteinase 19 isoform rasi-1	246					angiogenesis|cell differentiation|collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)	1						GCCACATCATCTGGGTGCAGC	0.607													12	87	---	---	---	---	PASS	G	56233310	G	G	56233310	3	3	119	1	0	0	0	0	1	0	0	0	9657	913	32	2	810	2	MMP19	12	56233310	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1331134	56233310	77618585	893	44066										
RAB5B	5869	broad.mit.edu	37	chr12	56384536	56384536	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagtcctagcatcgttattgCcctggcagggaacaaagctg	11	11	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:56384536C>T	uc001siv.2	+	4	503	c.386C>T	c.(385-387)GCC>GTC	p.A129V	RAB5B_uc001siw.2_Missense_Mutation_p.A129V|RAB5B_uc009zog.2_Missense_Mutation_p.A69V|RAB5B_uc010spz.1_Intron	NM_002868	NP_002859	P61020	RAB5B_HUMAN	RAB5B, member RAS oncogene family	129					protein transport|small GTPase mediated signal transduction	early endosome membrane|melanosome|membrane fraction|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.235)			ATCGTTATTGCCCTGGCAGGG	0.512													5	295	---	---	---	---	PASS	T	56384536	T	T	56384536	3	4	119	1	0	0	0	0	1	0	0	0	12949	739	26	3	396	3	RAB5B	12	56384536	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	151226	56384536	77467359	894	44067										
ESYT1	23344	broad.mit.edu	37	chr12	56527954	56527954	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtcaattcaggatgtgactCaggagagcaaggtgagggcc	15	7	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:56527954C>G	uc001sjq.2	+	14	1584	c.1534C>G	c.(1534-1536)CAG>GAG	p.Q512E	ESYT1_uc001sjr.2_Missense_Mutation_p.Q522E	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	512	C2 2.					integral to membrane				ovary(4)|skin(1)	5						GGATGTGACTCAGGAGAGCAA	0.517													19	91	---	---	---	---	PASS	G	56527954	G	G	56527954	3	3	119	1	0	0	0	0	1	0	0	0	5264	827	29	2	1618	2	ESYT1	12	56527954	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	143418	56527954	77323941	895	44068										
RNF41	10193	broad.mit.edu	37	chr12	56600432	56600432	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccctggggccagctacgctcGtgggcattttcaatcagctc	11	14	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:56600432G>T	uc001skf.1	-	7	1122	c.753C>A	c.(751-753)CAC>CAA	p.H251Q	RNF41_uc001ske.1_Missense_Mutation_p.H180Q|RNF41_uc001skg.1_Missense_Mutation_p.H251Q|RNF41_uc010sqg.1_Missense_Mutation_p.H186Q|RNF41_uc010sqh.1_Missense_Mutation_p.H180Q	NM_005785	NP_005776	Q9H4P4	RNF41_HUMAN	ring finger protein 41 isoform 1	251					apoptosis|induction of apoptosis|protein polyubiquitination|regulation of reactive oxygen species metabolic process		protein binding|protein tag|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1						AGCTACGCTCGTGGGCATTTT	0.562											OREG0021921	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	105	---	---	---	---	PASS	T	56600432	T	T	56600432	3	4	119	1	0	0	0	0	1	0	0	0	13494	1136	40	1	204	1	RNF41	12	56600432	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	72478	56600432	77251463	896	44069										
GLS2	27165	broad.mit.edu	37	chr12	56869734	56869734	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcaagggaacttacaaaatCaaacttctctgctttgttac	6	9	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:56869734C>G	uc001slj.2	-	8	1144	c.865G>C	c.(865-867)GAT>CAT	p.D289H	GLS2_uc009zos.2_RNA|GLS2_uc001slk.2_Missense_Mutation_p.D24H|GLS2_uc009zot.2_Intron	NM_013267	NP_037399	Q9UI32	GLSL_HUMAN	glutaminase 2 precursor	289					cellular amino acid biosynthetic process|glutamate secretion|glutamine metabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity|protein binding			ovary(1)|central_nervous_system(1)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CTTACAAAATCAAACTTCTCT	0.502													4	91	---	---	---	---	PASS	G	56869734	G	G	56869734	3	3	119	1	0	0	0	0	1	0	0	0	6464	826	29	2	987	2	GLS2	12	56869734	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	269302	56869734	76982161	897	44070										
MARS	4141	broad.mit.edu	37	chr12	57884123	57884123	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctccaaaagcagccccagccCagccccgctgagggaagggc	12	17	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:57884123C>G	uc001sog.2	+	6	647	c.624C>G	c.(622-624)CCC>CCG	p.P208P	ARHGAP9_uc001sod.2_5'Flank|ARHGAP9_uc001soe.1_5'Flank|MARS_uc001sof.1_RNA|MARS_uc010srp.1_Silent_p.P81P|MARS_uc010srq.1_5'UTR	NM_004990	NP_004981	P56192	SYMC_HUMAN	methionyl-tRNA synthetase	208					methionyl-tRNA aminoacylation	cytosol	ATP binding|methionine-tRNA ligase activity|protein binding|tRNA binding			ovary(3)|central_nervous_system(1)|pancreas(1)	5			GBM - Glioblastoma multiforme(3;4.27e-41)		L-Methionine(DB00134)	AGCCCCAGCCCAGCCCCGCTG	0.592													21	376	---	---	---	---	PASS	G	57884123	G	G	57884123	2	3	119	1	0	0	0	0	0	0	0	1	9316	581	21	4		4	MARS	12	57884123	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1014389	57884123	75967772	898	44071										
MON2	23041	broad.mit.edu	37	chr12	62954271	62954271	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttttctcttcctaatatagGagatttttcaagagcttggg	8	6	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:62954271G>A	uc001sre.2	+	26	3801	c.3410G>A	c.(3409-3411)GGA>GAA	p.G1137E	MON2_uc009zqj.2_Missense_Mutation_p.G1137E|MON2_uc010ssl.1_Missense_Mutation_p.G1065E|MON2_uc010ssm.1_Missense_Mutation_p.G1114E|MON2_uc010ssn.1_Missense_Mutation_p.G1137E|MON2_uc001srf.2_Missense_Mutation_p.G900E|MON2_uc001srg.2_Missense_Mutation_p.G12E	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	1138					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		CCTAATATAGGAGATTTTTCA	0.338													28	193	---	---	---	---	PASS	A	62954271	A	A	62954271	3	1	119	1	0	0	0	0	1	0	0	0	9700	1188	41	2	3512	2	MON2	12	62954271	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5070148	62954271	70897624	899	44072										
MON2	23041	broad.mit.edu	37	chr12	62972245	62972245	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catacctccagataatctctCtattcaagagtttcaaagaa	4	10	4	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:62972245C>T	uc001sre.2	+	31	4926	c.4535C>T	c.(4534-4536)TCT>TTT	p.S1512F	MON2_uc009zqj.2_Missense_Mutation_p.S1512F|MON2_uc010ssl.1_Missense_Mutation_p.S1440F|MON2_uc010ssm.1_Missense_Mutation_p.S1483F|MON2_uc010ssn.1_Missense_Mutation_p.S1506F|MON2_uc001srf.2_Missense_Mutation_p.S1275F|MON2_uc001srg.2_Missense_Mutation_p.S381F	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	1513					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		GATAATCTCTCTATTCAAGAG	0.269													5	53	---	---	---	---	PASS	T	62972245	T	T	62972245	3	4	119	1	0	0	0	0	1	0	0	0	9700	913	32	2	4657	2	MON2	12	62972245	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	17974	62972245	70879650	900	44073										
MYF5	4617	broad.mit.edu	37	chr12	81111108	81111108	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggatcggcggaaggcagccaCtatgcgcgagcggaggcgcc	18	12	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:81111108C>G	uc001szg.2	+	1	401	c.266C>G	c.(265-267)ACT>AGT	p.T89S		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	89	Basic motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						AAGGCAGCCACTATGCGCGAG	0.627													3	36	---	---	---	---	PASS	G	81111108	G	G	81111108	3	3	119	1	0	0	0	0	1	0	0	0	10027	565	20	4	268	4	MYF5	12	81111108	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	18138863	81111108	52740787	901	44074										
SLC6A15	55117	broad.mit.edu	37	chr12	85255544	85255544	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatttttaccaaaatttggaGatggcatctcgctcggtatt	8	7	1	1	rs141349631		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:85255544G>C	uc001szv.2	-	12	2553	c.2060C>G	c.(2059-2061)TCT>TGT	p.S687C	SLC6A15_uc010sul.1_Missense_Mutation_p.S580C|SLC6A15_uc001szw.1_3'UTR	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	687	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						AAAATTTGGAGATGGCATCTC	0.448													47	244	---	---	---	---	PASS	C	85255544	C	C	85255544	3	2	119	1	0	0	0	0	1	0	0	0	14678	942	33	2	136	2	SLC6A15	12	85255544	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4144436	85255544	48596351	902	44075										
C12orf50	160419	broad.mit.edu	37	chr12	88390363	88390363	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taccagatttataacacatcTcctttattgctcttttttct	2	10	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:88390363T>C	uc001tam.1	-	5	518	c.350A>G	c.(349-351)GAG>GGG	p.E117G	C12orf50_uc001tan.2_Missense_Mutation_p.E171G	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	117										skin(2)|ovary(1)	3						ATAACACATCTCCTTTATTGC	0.284													29	98	---	---	---	---	PASS	C	88390363	C	C	88390363	3	2	119	1	0	0	0	0	1	0	0	0	1695	1551	54	5	930	5	C12orf50	12	88390363	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	3134819	88390363	45461532	903	44076										
C12orf50	160419	broad.mit.edu	37	chr12	88420369	88420369	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctgagtttcccagaagcatGaaatgctgcagttttgctag	11	8	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:88420369G>A	uc001tam.1	-	3	197	c.29C>T	c.(28-30)TCA>TTA	p.S10L	C12orf50_uc001tan.2_Missense_Mutation_p.S64L	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	10										skin(2)|ovary(1)	3						CCAGAAGCATGAAATGCTGCA	0.378													29	72	---	---	---	---	PASS	A	88420369	A	A	88420369	3	1	119	1	0	0	0	0	1	0	0	0	1695	1294	45	2	1259	2	C12orf50	12	88420369	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	30006	88420369	45431526	904	44077										
PLXNC1	10154	broad.mit.edu	37	chr12	94543548	94543548	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggcccagcatggcgcgcatCgcgcagagcaccgaggtgct	15	14	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:94543548C>G	uc001tdc.2	+	1	1050	c.801C>G	c.(799-801)ATC>ATG	p.I267M		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	267	Extracellular (Potential).|Sema.				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						TGGCGCGCATCGCGCAGAGCA	0.682													5	36	---	---	---	---	PASS	G	94543548	G	G	94543548	3	3	119	1	0	0	0	0	1	0	0	0	12126	874	31	2	803	2	PLXNC1	12	94543548	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	6123179	94543548	39308347	905	44078										
PLXNC1	10154	broad.mit.edu	37	chr12	94575247	94575247	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcttggtgagaatttgacttCaaattgtccagaggttatct	9	6	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:94575247C>G	uc001tdc.2	+	3	1478	c.1229C>G	c.(1228-1230)TCA>TGA	p.S410*		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	410	Extracellular (Potential).|Sema.				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						AATTTGACTTCAAATTGTCCA	0.254													23	188	---	---	---	---	PASS	G	94575247	G	G	94575247	4	3	119	1	0	0	0	0	0	1	0	0	12126	838	29	2	1239	2	PLXNC1	12	94575247	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	31699	94575247	39276648	906	44079										
NR1H4	9971	broad.mit.edu	37	chr12	100904848	100904848	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcagggaggatcaaaggggaTgagctgtgtgttgtttgtgg	19	3	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:100904848T>A	uc001tht.1	+	2	430	c.402T>A	c.(400-402)GAT>GAA	p.D134E	NR1H4_uc001thp.1_Missense_Mutation_p.D124E|NR1H4_uc001thq.1_Missense_Mutation_p.D124E|NR1H4_uc010svj.1_RNA|NR1H4_uc001thr.1_Missense_Mutation_p.D124E|NR1H4_uc010svk.1_Missense_Mutation_p.D124E|NR1H4_uc001ths.1_Missense_Mutation_p.D134E	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	134	Nuclear receptor.				bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						TCAAAGGGGATGAGCTGTGTG	0.512													76	179	---	---	---	---	PASS	A	100904848	A	A	100904848	3	1	119	1	0	0	0	0	1	0	0	0	10619	1461	51	5	378	5	NR1H4	12	100904848	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	6329601	100904848	32947047	907	44080										
UTP20	27340	broad.mit.edu	37	chr12	101763603	101763603	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaacacctcttccttctgctGaaggactatgcaaagctcgg	8	12	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:101763603G>A	uc001tia.1	+	49	6645	c.6489G>A	c.(6487-6489)CTG>CTA	p.L2163L		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	2163					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TCCTTCTGCTGAAGGACTATG	0.507													50	275	---	---	---	---	PASS	A	101763603	A	A	101763603	2	1	119	1	0	0	0	0	0	0	0	1	17096	1277	45	2		2	UTP20	12	101763603	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	858755	101763603	32088292	908	44081										
CHPT1	56994	broad.mit.edu	37	chr12	102116979	102116979	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtcacctggactccacataGgactaattattatactggca	7	10	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:102116979G>A	uc001tin.2	+	6	1037	c.814G>A	c.(814-816)GGA>AGA	p.G272R	CHPT1_uc001tio.2_RNA|CHPT1_uc001tip.1_Missense_Mutation_p.G272R	NM_020244	NP_064629	Q8WUD6	CHPT1_HUMAN	choline phosphotransferase 1	272	Helical; (Potential).				platelet activating factor biosynthetic process|regulation of cell growth	Golgi membrane|integral to membrane|microsome	diacylglycerol binding|diacylglycerol cholinephosphotransferase activity|metal ion binding				0						ACTCCACATAGGACTAATTAT	0.318													11	178	---	---	---	---	PASS	A	102116979	A	A	102116979	3	1	119	1	0	0	0	0	1	0	0	0	3370	1001	35	3	836	3	CHPT1	12	102116979	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	353376	102116979	31734916	909	44082										
GNPTAB	79158	broad.mit.edu	37	chr12	102158651	102158651	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctccttgttgagttaacatCatgtctcttaaacttcggga	7	9	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:102158651C>A	uc001tit.2	-	13	2223	c.2044G>T	c.(2044-2046)GAT>TAT	p.D682Y		NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	682					cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						GAGTTAACATCATGTCTCTTA	0.413													24	122	---	---	---	---	PASS	A	102158651	A	A	102158651	3	1	119	1	0	0	0	0	1	0	0	0	6545	826	29	2	1762	2	GNPTAB	12	102158651	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	41672	102158651	31693244	910	44083										
MAPKAPK5	8550	broad.mit.edu	37	chr12	112318306	112318306	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atctggcatcatacctacctCaccgacgccctacacttaca	4	17	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:112318306C>A	uc001tta.2	+	8	894	c.635C>A	c.(634-636)TCA>TAA	p.S212*	MAPKAPK5_uc001tsz.2_Nonsense_Mutation_p.S212*|MAPKAPK5_uc001ttb.2_Nonsense_Mutation_p.S145*	NM_139078	NP_620777	Q8IW41	MAPK5_HUMAN	MAP kinase-activated protein kinase 5 isoform 2	212	Protein kinase.				signal transduction	cytoplasm|nucleus	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)	3						ATACCTACCTCACCGACGCCC	0.478													34	71	---	---	---	---	PASS	A	112318306	A	A	112318306	4	1	119	1	0	0	0	0	0	1	0	0	9291	838	29	2	665	2	MAPKAPK5	12	112318306	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	10159655	112318306	21533589	911	44084										
RPH3A	22895	broad.mit.edu	37	chr12	113307575	113307575	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttctccaggtgacagtgaaGataggaggggcccgggtcag	16	8	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:113307575G>C	uc010syl.1	+	9	984	c.622G>C	c.(622-624)GAT>CAT	p.D208H	RPH3A_uc001ttz.2_Missense_Mutation_p.D208H|RPH3A_uc001tty.2_Missense_Mutation_p.D204H|RPH3A_uc009zwe.1_Missense_Mutation_p.D204H|RPH3A_uc010sym.1_Missense_Mutation_p.D159H|RPH3A_uc001tua.2_5'UTR	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	208	Pro-rich.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		TGACAGTGAAGATAGGAGGGG	0.463													50	135	---	---	---	---	PASS	C	113307575	C	C	113307575	3	2	119	1	0	0	0	0	1	0	0	0	13551	942	33	2	648	2	RPH3A	12	113307575	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	989269	113307575	20544320	912	44085										
RASAL1	8437	broad.mit.edu	37	chr12	113553030	113553030	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taaactgttccatcgacttgGatgccagggagttagaacgg	12	8	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:113553030G>C	uc001tum.1	-	12	1336	c.1043C>G	c.(1042-1044)TCC>TGC	p.S348C	RASAL1_uc010syp.1_Missense_Mutation_p.S348C|RASAL1_uc001tul.2_Missense_Mutation_p.S348C|RASAL1_uc001tun.1_Missense_Mutation_p.S348C|RASAL1_uc010syq.1_Missense_Mutation_p.S348C|RASAL1_uc001tuo.3_Missense_Mutation_p.S348C|RASAL1_uc010syr.1_Missense_Mutation_p.S348C	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	348	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						CATCGACTTGGATGCCAGGGA	0.582													25	251	---	---	---	---	PASS	C	113553030	C	C	113553030	3	2	119	1	0	0	0	0	1	0	0	0	13063	1174	41	2	1415	2	RASAL1	12	113553030	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	245455	113553030	20298865	913	44086										
MED13L	23389	broad.mit.edu	37	chr12	116408434	116408434	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acccatcttcattggggtagTtggctggagccacctggatg	13	10	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:116408434T>A	uc001tvw.2	-	27	6087	c.6032A>T	c.(6031-6033)AAC>ATC	p.N2011I		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	2011					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		ATTGGGGTAGTTGGCTGGAGC	0.498													23	202	---	---	---	---	PASS	A	116408434	A	A	116408434	3	1	119	1	0	0	0	0	1	0	0	0	9431	1725	60	5	620	5	MED13L	12	116408434	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	2855404	116408434	17443461	914	44087										
NOS1	4842	broad.mit.edu	37	chr12	117680494	117680494	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcagctgagactcgctttttGtggacattggatagacctgt	12	8	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:117680494G>T	uc001twm.1	-	20	3665	c.2979C>A	c.(2977-2979)CAC>CAA	p.H993Q		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	993					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CTCGCTTTTTGTGGACATTGG	0.453													15	74	---	---	---	---	PASS	T	117680494	T	T	117680494	3	4	119	1	0	0	0	0	1	0	0	0	10541	1368	48	3	1365	3	NOS1	12	117680494	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1272060	117680494	16171401	915	44088										
GCN1L1	10985	broad.mit.edu	37	chr12	120576213	120576213	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcaaactctgacacctcctCgtcatcctgcagagggtgtt	10	13	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:120576213C>T	uc001txo.2	-	47	6176	c.6163G>A	c.(6163-6165)GAG>AAG	p.E2055K		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	2055	HEAT 18.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GACACCTCCTCGTCATCCTGC	0.532													29	76	---	---	---	---	PASS	T	120576213	T	T	120576213	3	4	119	1	0	0	0	0	1	0	0	0	6299	893	31	2	1900	2	GCN1L1	12	120576213	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2895719	120576213	13275682	916	44089										
MORN3	283385	broad.mit.edu	37	chr12	122107252	122107252	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagtcccactcaccgtgtttCacgttgtccttccactcgcc	7	17	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:122107252C>T	uc001uax.2	-	1	309	c.138G>A	c.(136-138)GTG>GTA	p.V46V	MORN3_uc001uay.2_RNA	NM_173855	NP_776254	Q6PF18	MORN3_HUMAN	MORN repeat containing 3	46	MORN 1.										0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000409)|Epithelial(86;0.00145)		CACCGTGTTTCACGTTGTCCT	0.642											OREG0022205	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	121	---	---	---	---	PASS	T	122107252	T	T	122107252	2	4	119	1	0	0	0	0	0	0	0	1	9709	813	29	2		2	MORN3	12	122107252	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1531039	122107252	11744643	917	44090										
KNTC1	9735	broad.mit.edu	37	chr12	123042002	123042002	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgtggatgccagtgaacaGaccgaatggcaacaacttgt	11	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:123042002G>C	uc001ucv.2	+	17	1507	c.1344G>C	c.(1342-1344)CAG>CAC	p.Q448H	KNTC1_uc010taf.1_Missense_Mutation_p.Q411H	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	448					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding	p.Q448H(1)		ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		CCAGTGAACAGACCGAATGGC	0.388													20	57	---	---	---	---	PASS	C	123042002	C	C	123042002	3	2	119	1	0	0	0	0	1	0	0	0	8428	933	33	2	1406	2	KNTC1	12	123042002	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	934750	123042002	10809893	918	44091										
GPR109B	8843	broad.mit.edu	37	chr12	123201053	123201053	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catcacgaacggcaggcagaTgatcagtagaaagtcagcta	11	9	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:123201053T>A	uc001ucy.3	-	1	387	c.232A>T	c.(232-234)ATC>TTC	p.I78F	GPR81_uc001ucw.1_Intron	NM_006018	NP_006009	P49019	HCAR3_HUMAN	G protein-coupled receptor 109B	78	Helical; Name=2; (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	GGCAGGCAGATGATCAGTAGA	0.522													3	41	---	---	---	---	PASS	A	123201053	A	A	123201053	3	1	119	1	0	0	0	0	1	0	0	0	6626	1464	51	5	935	5	GPR109B	12	123201053	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	159051	123201053	10650842	919	44092										
MPHOSPH9	10198	broad.mit.edu	37	chr12	123645802	123645802	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaaaccggcttacactgttCgtagctaactgatttattct	7	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:123645802C>T	uc001uel.2	-	18	2913	c.2806G>A	c.(2806-2808)GAA>AAA	p.E936K	MPHOSPH9_uc010tal.1_Missense_Mutation_p.E390K|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Missense_Mutation_p.E390K	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	936					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		TTACACTGTTCGTAGCTAACT	0.418													7	245	---	---	---	---	PASS	T	123645802	T	T	123645802	3	4	119	1	0	0	0	0	1	0	0	0	9728	893	31	2	301	2	MPHOSPH9	12	123645802	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	444749	123645802	10206093	920	44093										
MPHOSPH9	10198	broad.mit.edu	37	chr12	123645826	123645826	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctaactgatttattcttctCccaggctgttctcacagata	6	11	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:123645826C>G	uc001uel.2	-	18	2889	c.2782G>C	c.(2782-2784)GAG>CAG	p.E928Q	MPHOSPH9_uc010tal.1_Missense_Mutation_p.E382Q|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Missense_Mutation_p.E382Q	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	928					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		TTATTCTTCTCCCAGGCTGTT	0.433													5	261	---	---	---	---	PASS	G	123645826	G	G	123645826	3	3	119	1	0	0	0	0	1	0	0	0	9728	864	30	2	325	2	MPHOSPH9	12	123645826	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	24	123645826	10206069	921	44094										
DHX37	57647	broad.mit.edu	37	chr12	125465293	125465293	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcctcctcctcctcctcctCctcagctgagggccagcggc	8	21	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:125465293C>G	uc001ugy.2	-	4	580	c.481G>C	c.(481-483)GAG>CAG	p.E161Q		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	161							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		tcctcctcctcctcAGCTGAG	0.577													4	7	---	---	---	---	PASS	G	125465293	G	G	125465293	3	3	119	1	0	0	0	0	1	0	0	0	4510	864	30	2	3088	2	DHX37	12	125465293	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1819467	125465293	8386602	922	44095										
GLT1D1	144423	broad.mit.edu	37	chr12	129467578	129467578	+	Silent	SNP	G	T	T													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgtatcattcatggcaggtGgaaagagacacctaccaaca							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:129467578G>T	uc010tbh.1	+	13	1008	c.999G>T	c.(997-999)GTG>GTT	p.V333V	GLT1D1_uc001uhx.1_Silent_p.V248V|GLT1D1_uc001uhy.1_RNA	NM_144669	NP_653270	Q96MS3	GL1D1_HUMAN	glycosyltransferase 1 domain containing 1	328					biosynthetic process	extracellular region	transferase activity, transferring glycosyl groups				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.97e-06)|Epithelial(86;3.97e-05)|all cancers(50;0.00019)		CATGGCAGGTGGAAAGAGACA	0.483													37	127	---	---	---	---	PASS	T	129467578	T	T	129467578	2	4	119	1	0	0	0	0	0	0	0	1	6465	1335	47	3		3	GLT1D1	12	129467578	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	4002285	129467578	4384317	923	44096	821	2								
GLT1D1	144423	broad.mit.edu	37	chr12	129467579	129467579	+	Nonsense_Mutation	SNP	G	T	T													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtatcattcatggcaggtgGaaagagacacctaccaacag							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:129467579G>T	uc010tbh.1	+	13	1009	c.1000G>T	c.(1000-1002)GAA>TAA	p.E334*	GLT1D1_uc001uhx.1_Nonsense_Mutation_p.E249*|GLT1D1_uc001uhy.1_RNA	NM_144669	NP_653270	Q96MS3	GL1D1_HUMAN	glycosyltransferase 1 domain containing 1	329					biosynthetic process	extracellular region	transferase activity, transferring glycosyl groups				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.97e-06)|Epithelial(86;3.97e-05)|all cancers(50;0.00019)		ATGGCAGGTGGAAAGAGACAC	0.488													37	121	---	---	---	---	PASS	T	129467579	T	T	129467579	4	4	119	1	0	0	0	0	0	1	0	0	6465	1175	41	2	775	2	GLT1D1	12	129467579	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1	129467579	4384316	924	44097	821	2								
TMEM132D	121256	broad.mit.edu	37	chr12	129558466	129558466	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtagttgtgcagctctttgCagtccccagggtccagatcc	11	12	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:129558466C>T	uc009zyl.1	-	9	3582	c.3254G>A	c.(3253-3255)TGC>TAC	p.C1085Y	TMEM132D_uc001uia.2_Missense_Mutation_p.C623Y	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	1085	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		CAGCTCTTTGCAGTCCCCAGG	0.512													37	217	---	---	---	---	PASS	T	129558466	T	T	129558466	3	4	119	1	0	0	0	0	1	0	0	0	16044	710	25	3	49	3	TMEM132D	12	129558466	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	90887	129558466	4293429	925	44098										
GPR133	283383	broad.mit.edu	37	chr12	131602941	131602941	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttctgcaggttttcctcttCtgatctgcatcatttcactg	6	12	6	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:131602941C>G	uc001uit.3	+	19	2612	c.2053C>G	c.(2053-2055)CTG>GTG	p.L685V	GPR133_uc010tbm.1_Missense_Mutation_p.L717V|GPR133_uc009zyo.2_Intron|GPR133_uc001uiv.1_Missense_Mutation_p.L204V|GPR133_uc009zyp.2_RNA	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	685	Helical; Name=4; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		TTTTCCTCTTCTGATCTGCAT	0.343													38	200	---	---	---	---	PASS	G	131602941	G	G	131602941	3	3	119	1	0	0	0	0	1	0	0	0	6643	912	32	2	2127	2	GPR133	12	131602941	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2044475	131602941	2248954	926	44099										
NOC4L	79050	broad.mit.edu	37	chr12	132636740	132636740	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgctggagctcacggcctacGaggtgcggaactgggccagg	17	11	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr12:132636740G>A	uc001ujz.1	+	14	1470	c.1429G>A	c.(1429-1431)GAG>AAG	p.E477K		NM_024078	NP_076983	Q9BVI4	NOC4L_HUMAN	nucleolar complex associated 4 homolog	477					rRNA processing	integral to membrane|nuclear membrane|nucleolus	protein binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.2e-08)|Epithelial(86;3.34e-07)|all cancers(50;1.97e-05)		CACGGCCTACGAGGTGCGGAA	0.652													11	26	---	---	---	---	PASS	A	132636740	A	A	132636740	3	1	119	1	0	0	0	0	1	0	0	0	10515	1059	37	2	1483	2	NOC4L	12	132636740	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1033799	132636740	1215155	927	44100										
PARP4	143	broad.mit.edu	37	chr13	25067872	25067872	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgacttcctccaaaagcaaCtacaataataaaatagaaat	3	8	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:25067872C>T	uc001upl.2	-	8	848	c.742_splice	c.e8-1	p.L248_splice	PARP4_uc010tdc.1_Splice_Site_p.L248_splice	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4						cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		CCAAAAGCAACTACAATAATA	0.428													7	165	---	---	---	---	PASS	T	25067872	T	T	25067872	5	4	119	1	0	0	0	0	0	0	1	0	11463	579	20	3	4541	3	PARP4	13	25067872	Splice_Site	SNP	C	TCGA-60-2698-01A-01D-1522-08		25067872	90102006	928	44101										
MTMR6	9107	broad.mit.edu	37	chr13	25831403	25831403	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agggaacaaacctgggaagtCctatcccaaccatcggaaca	9	12	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:25831403C>T	uc001uqf.3	-	9	1345	c.1026G>A	c.(1024-1026)AGG>AGA	p.R342R	MTMR6_uc001uqe.1_Silent_p.R342R	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	342	Myotubularin phosphatase.|Substrate binding (By similarity).					cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		CCTGGGAAGTCCTATCCCAAC	0.373													50	42	---	---	---	---	PASS	T	25831403	T	T	25831403	2	4	119	1	0	0	0	0	0	0	0	1	9947	854	30	2		2	MTMR6	13	25831403	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	763531	25831403	89338475	929	44102										
RNF6	6049	broad.mit.edu	37	chr13	26788682	26788682	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tacctgaccgctctaaacgaGaaatggttcggcgaaagccc	10	12	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:26788682G>C	uc001uqo.2	-	5	1628	c.1337C>G	c.(1336-1338)TCT>TGT	p.S446C	RNF6_uc001uqn.1_Intron|RNF6_uc010aak.2_Missense_Mutation_p.S446C|RNF6_uc001uqp.2_Missense_Mutation_p.S446C|RNF6_uc001uqq.2_Missense_Mutation_p.S446C|RNF6_uc010tdk.1_Missense_Mutation_p.S90C	NM_183044	NP_898865	Q9Y252	RNF6_HUMAN	ring finger protein 6	446					negative regulation of axon extension|positive regulation of transcription, DNA-dependent|protein K27-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|regulation of androgen receptor signaling pathway|ubiquitin-dependent protein catabolic process	axon|cytoplasm|PML body	androgen receptor binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.00893)|Epithelial(112;0.0481)|OV - Ovarian serous cystadenocarcinoma(117;0.148)|GBM - Glioblastoma multiforme(144;0.23)|Lung(94;0.245)		CTCTAAACGAGAAATGGTTCG	0.443													18	297	---	---	---	---	PASS	C	26788682	C	C	26788682	3	2	119	1	0	0	0	0	1	0	0	0	13498	942	33	2	724	2	RNF6	13	26788682	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	957279	26788682	88381196	930	44103										
CDK8	1024	broad.mit.edu	37	chr13	26971323	26971323	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agccttatcaagtatatggaAaaacataaagttaaaccaga	6	6	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:26971323A>G	uc001uqr.1	+	9	920	c.894A>G	c.(892-894)GAA>GAG	p.E298E	CDK8_uc001uqs.1_Silent_p.E298E|CDK8_uc001uqt.1_Silent_p.E125E	NM_001260	NP_001251	P49336	CDK8_HUMAN	cyclin-dependent kinase 8	298	Protein kinase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mediator complex	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|large_intestine(1)|ovary(1)|skin(1)	5	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0384)|Epithelial(112;0.142)|OV - Ovarian serous cystadenocarcinoma(117;0.188)		AGTATATGGAAAAACATAAAG	0.328													8	144	---	---	---	---	PASS	G	26971323	G	G	26971323	2	3	119	1	0	0	0	0	0	0	0	1	3150	11	1	5		5	CDK8	13	26971323	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	182641	26971323	88198555	931	44104										
PAN3	255967	broad.mit.edu	37	chr13	28841288	28841288	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcgacatgtggaagaaaattCaacactcaaatatcgtaact	6	8	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:28841288C>G	uc001urz.2	+	10	1200	c.1192C>G	c.(1192-1194)CAA>GAA	p.Q398E	PAN3_uc010tdo.1_Missense_Mutation_p.Q544E|PAN3_uc001ury.2_Missense_Mutation_p.Q232E|PAN3_uc001urx.2_Missense_Mutation_p.Q344E	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	544	Protein kinase.|Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		GAAGAAAATTCAACACTCAAA	0.388													12	280	---	---	---	---	PASS	G	28841288	G	G	28841288	3	3	119	1	0	0	0	0	1	0	0	0	11415	827	29	2	1672	2	PAN3	13	28841288	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1869965	28841288	86328590	932	44105										
FLT1	2321	broad.mit.edu	37	chr13	29001395	29001395	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcaggatttgtctgctgcccAgtgggtagagagccgggtct	15	9	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:29001395A>T	uc001usb.3	-	10	1622	c.1337T>A	c.(1336-1338)CTG>CAG	p.L446Q	FLT1_uc010aar.1_Missense_Mutation_p.L446Q|FLT1_uc001usc.3_Missense_Mutation_p.L446Q|FLT1_uc010tdp.1_Missense_Mutation_p.L446Q	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	446	Ig-like C2-type 5.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	TCTGCTGCCCAGTGGGTAGAG	0.502													93	86	---	---	---	---	PASS	T	29001395	T	T	29001395	3	4	119	1	0	0	0	0	1	0	0	0	5941	188	7	5	3026	5	FLT1	13	29001395	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	160107	29001395	86168483	933	44106										
FRY	10129	broad.mit.edu	37	chr13	32786485	32786485	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggaaaatttcccagatgctGaggagaacaagatattgaaa	10	5	0	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:32786485G>A	uc001utx.2	+	35	5144	c.4648G>A	c.(4648-4650)GAG>AAG	p.E1550K	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1550					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CCCAGATGCTGAGGAGAACAA	0.373													20	21	---	---	---	---	PASS	A	32786485	A	A	32786485	3	1	119	1	0	0	0	0	1	0	0	0	6063	1291	45	2	4786	2	FRY	13	32786485	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3785090	32786485	82383393	934	44107										
LHFP	10186	broad.mit.edu	37	chr13	40175055	40175055	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacccatgagggcagtgagcGccaccaggaggaggaggcca	16	11	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:40175055G>A	uc001uxf.2	-	2	810	c.299C>T	c.(298-300)GCG>GTG	p.A100V		NM_005780	NP_005771	Q9Y693	LHFP_HUMAN	lipoma HMGIC fusion partner precursor	100	Helical; (Potential).					integral to membrane	DNA binding		HMGA2/LHFP(2)	soft_tissue(2)|lung(1)|breast(1)	4		Lung NSC(96;3.55e-06)|Breast(139;0.00408)|Ovarian(182;0.0107)|Prostate(109;0.0118)|Lung SC(185;0.0719)|Hepatocellular(188;0.114)		OV - Ovarian serous cystadenocarcinoma(117;6.48e-46)|Epithelial(112;8.43e-42)|all cancers(112;1.42e-36)|GBM - Glioblastoma multiforme(144;0.00187)|BRCA - Breast invasive adenocarcinoma(63;0.00886)|KIRC - Kidney renal clear cell carcinoma(186;0.048)|Kidney(163;0.0601)|LUSC - Lung squamous cell carcinoma(192;0.105)		GGCAGTGAGCGCCACCAGGAG	0.587			T	HMGA2	lipoma								10	253	---	---	---	---	PASS	A	40175055	A	A	40175055	3	1	119	1	0	0	0	0	1	0	0	0	8763	1087	38	1	315	1	LHFP	13	40175055	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	7388570	40175055	74994823	935	44108										
KBTBD6	89890	broad.mit.edu	37	chr13	41706348	41706348	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctctcgtacatgccacctgtGaacatgctcttgaagtaggg	10	11	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:41706348G>C	uc001uxu.1	-	1	589	c.300C>G	c.(298-300)TTC>TTG	p.F100L	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Intron|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	100	BTB.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		TGCCACCTGTGAACATGCTCT	0.632													7	84	---	---	---	---	PASS	C	41706348	C	C	41706348	3	2	119	1	0	0	0	0	1	0	0	0	7997	1281	45	2	1728	2	KBTBD6	13	41706348	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1531293	41706348	73463530	936	44109										
MTRF1	9617	broad.mit.edu	37	chr13	41826881	41826881	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctcgggtaaattgttggcaGatgtcacctaaaacaaaata	8	7	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:41826881G>A	uc001uxx.2	-	7	1067	c.597C>T	c.(595-597)ATC>ATT	p.I199I	MTRF1_uc001uxy.2_Silent_p.I199I|MTRF1_uc001uxz.2_Silent_p.I35I|MTRF1_uc010tff.1_Silent_p.I212I|MTRF1_uc001uyc.1_Silent_p.I199I	NM_004294	NP_004285	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	199					regulation of translational termination	mitochondrion	translation release factor activity, codon specific				0		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)		ATTGTTGGCAGATGTCACCTA	0.333													9	105	---	---	---	---	PASS	A	41826881	A	A	41826881	2	1	119	1	0	0	0	0	0	0	0	1	9959	932	33	2		2	MTRF1	13	41826881	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	120533	41826881	73342997	937	44110										
C13orf30	144809	broad.mit.edu	37	chr13	43362793	43362793	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agattcaaccaagagagcctCagccaaggtagctcctcaaa	8	12	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:43362793C>T	uc010tfk.1	+	4	410	c.287C>T	c.(286-288)TCA>TTA	p.S96L	C13orf30_uc010tfl.1_Missense_Mutation_p.S96L	NM_182508	NP_872314	Q8N7L0	CM030_HUMAN	hypothetical protein LOC144809	96											0		Lung NSC(96;0.000369)|Prostate(109;0.0305)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.000512)|OV - Ovarian serous cystadenocarcinoma(117;0.000563)|BRCA - Breast invasive adenocarcinoma(63;0.0677)		AAGAGAGCCTCAGCCAAGGTA	0.448													33	211	---	---	---	---	PASS	T	43362793	T	T	43362793	3	4	119	1	0	0	0	0	1	0	0	0	1725	838	29	2	297	2	C13orf30	13	43362793	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1535912	43362793	71807085	938	44111										
PIBF1	10464	broad.mit.edu	37	chr13	73396017	73396017	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagatcgaaaaaactactctGaagttcaaattagatgtcaa	6	6	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:73396017G>A	uc001vjc.2	+	6	1008	c.703G>A	c.(703-705)GAA>AAA	p.E235K	PIBF1_uc001vja.1_Missense_Mutation_p.E235K|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Missense_Mutation_p.E235K|PIBF1_uc010aep.2_Intron	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	235						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		AAACTACTCTGAAGTTCAAAT	0.338													34	92	---	---	---	---	PASS	A	73396017	A	A	73396017	3	1	119	1	0	0	0	0	1	0	0	0	11879	1291	45	2	721	2	PIBF1	13	73396017	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	30033224	73396017	41773861	939	44112										
MYCBP2	23077	broad.mit.edu	37	chr13	77759384	77759384	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggttgactgagatatccttGaggatcattatccaatttca	9	7	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:77759384G>A	uc001vkf.2	-	33	4550	c.4459C>T	c.(4459-4461)CAA>TAA	p.Q1487*	MYCBP2_uc010aev.2_Nonsense_Mutation_p.Q891*	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1487					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AGATATCCTTGAGGATCATTA	0.383													20	312	---	---	---	---	PASS	A	77759384	A	A	77759384	4	1	119	1	0	0	0	0	0	1	0	0	10018	1299	45	2	9671	2	MYCBP2	13	77759384	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4363367	77759384	37410494	940	44113										
RNF219	79596	broad.mit.edu	37	chr13	79216305	79216305	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctagttttccgaagatgcttCctgaccgtatggcttagcat	9	10	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:79216305C>T	uc001vkw.1	-	3	311	c.252G>A	c.(250-252)AGG>AGA	p.R84R	RNF219_uc010afb.1_5'UTR|RNF219_uc010afc.2_Silent_p.R84R	NM_024546	NP_078822	Q5W0B1	RN219_HUMAN	ring finger protein 219	84							zinc ion binding			large_intestine(2)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.0414)		GAAGATGCTTCCTGACCGTAT	0.328													12	278	---	---	---	---	PASS	T	79216305	T	T	79216305	2	4	119	1	0	0	0	0	0	0	0	1	13482	854	30	2		2	RNF219	13	79216305	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1456921	79216305	35953573	941	44114										
SLITRK5	26050	broad.mit.edu	37	chr13	88329558	88329558	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgaggaccagcgccgtgactCctgcggtccggttgaatagc	14	13	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:88329558C>A	uc001vln.2	+	2	2134	c.1915C>A	c.(1915-1917)CCT>ACT	p.P639T	SLITRK5_uc010tic.1_Missense_Mutation_p.P398T	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	639	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CGCCGTGACTCCTGCGGTCCG	0.622													7	139	---	---	---	---	PASS	A	88329558	A	A	88329558	3	1	119	1	0	0	0	0	1	0	0	0	14746	855	30	2	1917	2	SLITRK5	13	88329558	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	9113253	88329558	26840320	942	44115										
GPC5	2262	broad.mit.edu	37	chr13	92345877	92345877	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgcagcagagccctcctgaaGatgcaatactgcccgcactg	10	14	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:92345877G>T	uc010tif.1	+	3	1128	c.762G>T	c.(760-762)AAG>AAT	p.K254N		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	254						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				CCCTCCTGAAGATGCAATACT	0.562													53	57	---	---	---	---	PASS	T	92345877	T	T	92345877	3	4	119	1	0	0	0	0	1	0	0	0	6601	933	33	2	772	2	GPC5	13	92345877	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4016319	92345877	22824001	943	44116										
HS6ST3	266722	broad.mit.edu	37	chr13	97485146	97485146	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttgagagaacattcaacctCaagttcatctcccccttcac	4	14	5	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:97485146C>T	uc001vmw.2	+	2	1134	c.1110C>T	c.(1108-1110)CTC>CTT	p.L370L		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	370	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					CATTCAACCTCAAGTTCATCT	0.493													30	174	---	---	---	---	PASS	T	97485146	T	T	97485146	2	4	119	1	0	0	0	0	0	0	0	1	7372	813	29	2		2	HS6ST3	13	97485146	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	5139269	97485146	17684732	944	44117										
FARP1	10160	broad.mit.edu	37	chr13	99042240	99042240	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caggataccttggaattcctGatggccagtcgggatttctg	12	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:99042240G>C	uc001vnj.2	+	10	1221	c.885G>C	c.(883-885)CTG>CTC	p.L295L	FARP1_uc001vnh.2_Silent_p.L295L	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	295	FERM.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			TGGAATTCCTGATGGCCAGTC	0.443													7	315	---	---	---	---	PASS	C	99042240	C	C	99042240	2	2	119	1	0	0	0	0	0	0	0	1	5676	1277	45	2		2	FARP1	13	99042240	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1557094	99042240	16127638	945	44118										
GPR18	2841	broad.mit.edu	37	chr13	99907182	99907182	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaccgtagactaccagatcgGaaactttttctgcgcatgct	9	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:99907182G>C	uc001voe.3	-	3	1446	c.945C>G	c.(943-945)TTC>TTG	p.F315L	UBAC2_uc001voa.3_Intron|UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron|GPR18_uc010afv.2_Missense_Mutation_p.F315L	NM_005292	NP_005283	Q14330	GPR18_HUMAN	G protein-coupled receptor 18	315	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Glycine(DB00145)	TACCAGATCGGAAACTTTTTC	0.358													70	153	---	---	---	---	PASS	C	99907182	C	C	99907182	3	2	119	1	0	0	0	0	1	0	0	0	6675	1165	41	2	54	2	GPR18	13	99907182	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	864942	99907182	15262696	946	44119										
IRS2	8660	broad.mit.edu	37	chr13	110434648	110434648	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acgtcgatggcgatgtagttGagaccattctggaagccggc	14	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:110434648G>C	uc001vqv.2	-	1	4267	c.3753C>G	c.(3751-3753)CTC>CTG	p.L1251L		NM_003749	NP_003740	Q9Y4H2	IRS2_HUMAN	insulin receptor substrate 2	1251					fibroblast growth factor receptor signaling pathway|glucose metabolic process|insulin receptor signaling pathway|lipid homeostasis|negative regulation of B cell apoptosis|negative regulation of kinase activity|negative regulation of plasma membrane long-chain fatty acid transport|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of B cell proliferation|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|response to glucose stimulus	cytosol|plasma membrane	insulin receptor binding|signal transducer activity			large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)|skin(1)|ovary(1)|kidney(1)	8	all_cancers(4;7.57e-15)|all_epithelial(4;5.91e-09)|all_lung(23;7.64e-07)|Lung NSC(43;0.000183)|Colorectal(4;0.00159)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0155)	Breast(118;0.159)	all cancers(43;0.00815)|BRCA - Breast invasive adenocarcinoma(86;0.11)|Epithelial(84;0.127)|GBM - Glioblastoma multiforme(44;0.147)			CGATGTAGTTGAGACCATTCT	0.517													22	20	---	---	---	---	PASS	C	110434648	C	C	110434648	2	2	119	1	0	0	0	0	0	0	0	1	7841	1277	45	2		2	IRS2	13	110434648	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	10527466	110434648	4735230	947	44120										
COL4A1	1282	broad.mit.edu	37	chr13	110829259	110829259	+	Missense_Mutation	SNP	C	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccttggtctcctttctggcCcttcatgctgcccatgtcca							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:110829259C>A	uc001vqw.3	-	34	2964	c.2842G>T	c.(2842-2844)GGC>TGC	p.G948C	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	948	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CCTTTCTGGCCCTTCATGCTG	0.572													60	80	---	---	---	---	PASS	A	110829259	A	A	110829259	3	1	119	1	0	0	0	0	1	0	0	0	3689	623	22	3	2243	3	COL4A1	13	110829259	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	394611	110829259	4340619	948	44121	822	2								
COL4A1	1282	broad.mit.edu	37	chr13	110829260	110829260	+	Missense_Mutation	SNP	C	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccttggtctcctttctggccCttcatgctgcccatgtccac							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:110829260C>A	uc001vqw.3	-	34	2963	c.2841G>T	c.(2839-2841)AAG>AAT	p.K947N	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	947	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CTTTCTGGCCCTTCATGCTGC	0.577													63	80	---	---	---	---	PASS	A	110829260	A	A	110829260	3	1	119	1	0	0	0	0	1	0	0	0	3689	680	24	3	2244	3	COL4A1	13	110829260	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1	110829260	4340618	949	44122	822	2								
ANKRD10	55608	broad.mit.edu	37	chr13	111532094	111532094	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttcagttctgggatgctttCagcagtgtccccaaacccgt	10	12	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:111532094C>T	uc001vrn.2	-	6	1288	c.1153G>A	c.(1153-1155)GAA>AAA	p.E385K	ANKRD10_uc001vrm.2_Missense_Mutation_p.E122K|ANKRD10_uc001vrl.2_RNA	NM_017664	NP_060134	Q9NXR5	ANR10_HUMAN	ankyrin repeat domain 10	385										central_nervous_system(1)	1	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		all cancers(43;0.0882)|BRCA - Breast invasive adenocarcinoma(86;0.188)|Lung(89;0.208)			GGGATGCTTTCAGCAGTGTCC	0.567													9	117	---	---	---	---	PASS	T	111532094	T	T	111532094	3	4	119	1	0	0	0	0	1	0	0	0	638	835	29	2	113	2	ANKRD10	13	111532094	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	702834	111532094	3637784	950	44123										
ATP11A	23250	broad.mit.edu	37	chr13	113479828	113479828	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgctgaaatacatgtggcaGagtgagccctttcgggatga	14	7	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:113479828G>A	uc001vsi.3	+	11	1045	c.957G>A	c.(955-957)CAG>CAA	p.Q319Q	ATP11A_uc001vsj.3_Silent_p.Q319Q|ATP11A_uc001vsm.1_Silent_p.Q195Q	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	319	Extracellular (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				ACATGTGGCAGAGTGAGCCCT	0.463													8	125	---	---	---	---	PASS	A	113479828	A	A	113479828	2	1	119	1	0	0	0	0	0	0	0	1	1119	933	33	2		2	ATP11A	13	113479828	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1947734	113479828	1690050	951	44124										
ATP11A	23250	broad.mit.edu	37	chr13	113527915	113527915	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggacacacactactggacttGgatcaaccattttgtcatct	7	11	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:113527915G>C	uc001vsi.3	+	27	3174	c.3086G>C	c.(3085-3087)TGG>TCG	p.W1029S	ATP11A_uc001vsj.3_Missense_Mutation_p.W1029S|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	1029	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				TACTGGACTTGGATCAACCAT	0.453											OREG0003854	type=REGULATORY REGION|Gene=ATP11A|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	20	120	---	---	---	---	PASS	C	113527915	C	C	113527915	3	2	119	1	0	0	0	0	1	0	0	0	1119	1357	47	4	3192	4	ATP11A	13	113527915	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	48087	113527915	1641963	952	44125										
ZNF828	283489	broad.mit.edu	37	chr13	115090626	115090626	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccgtagtccagcaggatctCcagagctcagaaaaccctca	8	14	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr13:115090626C>G	uc010ahb.2	+	3	1638	c.1309C>G	c.(1309-1311)CCA>GCA	p.P437A	ZNF828_uc001vuv.2_Missense_Mutation_p.P437A|ZNF828_uc010tko.1_Missense_Mutation_p.P437A	NM_001164144	NP_001157616	Q96JM3	ZN828_HUMAN	zinc finger protein 828	437	Mediates interaction with MAD2L2.|Pro-rich.				attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|protein localization to kinetochore|protein localization to microtubule|sister chromatid biorientation	condensed chromosome kinetochore|cytoplasm|nucleus|spindle	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_epithelial(44;0.122)|all_lung(25;0.123)	BRCA - Breast invasive adenocarcinoma(86;0.104)	OV - Ovarian serous cystadenocarcinoma(48;0.193)|Epithelial(10;0.197)		AGCAGGATCTCCAGAGCTCAG	0.532													183	144	---	---	---	---	PASS	G	115090626	G	G	115090626	3	3	119	1	0	0	0	0	1	0	0	0	18178	855	30	2	1311	2	ZNF828	13	115090626	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1562711	115090626	79252	953	44126										
TEP1	7011	broad.mit.edu	37	chr14	20852761	20852761	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctacctccctcagctcacctGcggcaggtgatccctttctg	8	17	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:20852761G>T	uc001vxe.2	-	22	3259	c.3219C>A	c.(3217-3219)CGC>CGA	p.R1073R	TEP1_uc010ahk.2_Silent_p.R423R|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Silent_p.R965R|TEP1_uc010tlh.1_5'Flank	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1073					telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		CAGCTCACCTGCGGCAGGTGA	0.552													83	317	---	---	---	---	PASS	T	20852761	T	T	20852761	2	4	119	1	0	0	0	0	0	0	0	1	15756	1306	46	3		3	TEP1	14	20852761	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08		20852761	86496779	954	44127										
RNASE4	6038	broad.mit.edu	37	chr14	21167599	21167599	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgctggggctggggctggtCcagccctcctatggccagga	16	13	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:21167599C>G	uc001vxy.3	+	2	632	c.69C>G	c.(67-69)GTC>GTG	p.V23V	RNASE4_uc001vxx.3_RNA|RNASE4_uc001vya.2_Silent_p.V23V	NM_002937	NP_002928	P34096	RNAS4_HUMAN	ribonuclease, RNase A family, 4 precursor	23					mRNA cleavage	extracellular region	nucleic acid binding|pancreatic ribonuclease activity			central_nervous_system(1)	1	all_cancers(95;0.00304)		Epithelial(56;5.13e-07)|all cancers(55;4.73e-06)	GBM - Glioblastoma multiforme(265;0.0133)		TGGGGCTGGTCCAGCCCTCCT	0.557													35	201	---	---	---	---	PASS	G	21167599	G	G	21167599	2	3	119	1	0	0	0	0	0	0	0	1	13406	842	30	2		2	RNASE4	14	21167599	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	314838	21167599	86181941	955	44128										
SALL2	6297	broad.mit.edu	37	chr14	21993371	21993371	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgggggcggagggggtggtGgaggaggagggggtgcaggg	29	3	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:21993371G>C	uc001wbe.2	-	2	773	c.491C>G	c.(490-492)CCA>CGA	p.P164R	SALL2_uc010tly.1_Missense_Mutation_p.P162R|SALL2_uc010tlz.1_Intron|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Intron|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	164	Poly-Pro.						DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		AGGGGGTGGTGGAGGAGGAGG	0.647													6	89	---	---	---	---	PASS	C	21993371	C	C	21993371	3	2	119	1	0	0	0	0	1	0	0	0	13811	1348	47	4	2536	4	SALL2	14	21993371	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	825772	21993371	85356169	956	44129										
MYH7	4625	broad.mit.edu	37	chr14	23894185	23894185	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcatccagggccaattcttGacccccatgaaggcccgaat	8	14	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:23894185G>C	uc001wjx.2	-	22	2578	c.2472C>G	c.(2470-2472)GTC>GTG	p.V824V		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	824			V -> I (in CMH1).		adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		GCCAATTCTTGACCCCCATGA	0.547													7	204	---	---	---	---	PASS	C	23894185	C	C	23894185	2	2	119	1	0	0	0	0	0	0	0	1	10039	1277	45	2		2	MYH7	14	23894185	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1900814	23894185	83455355	957	44130										
LRRC16B	90668	broad.mit.edu	37	chr14	24522926	24522926	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	accccccctcagacagcatcCggaggtgcctgagccaaggg	12	16	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:24522926C>A	uc001wlj.2	+	2	206	c.49C>A	c.(49-51)CGG>AGG	p.R17R		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	17										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		AGACAGCATCCGGAGGTGCCT	0.612													4	79	---	---	---	---	PASS	A	24522926	A	A	24522926	2	1	119	1	0	0	0	0	0	0	0	1	8972	643	23	1		1	LRRC16B	14	24522926	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	628741	24522926	82826614	958	44131										
FITM1	161247	broad.mit.edu	37	chr14	24601642	24601642	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccccagggtctgctgctccaCgagctgcctgaccgccgcag	12	18	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:24601642C>G	uc001wmf.2	+	2	587	c.489C>G	c.(487-489)CAC>CAG	p.H163Q		NM_203402	NP_981947	A5D6W6	FITM1_HUMAN	fat-inducing transcript 1	163	Extracellular (Potential).				lipid particle organization|positive regulation of sequestering of triglyceride	endoplasmic reticulum membrane|integral to membrane					0						TGCTGCTCCACGAGCTGCCTG	0.687													8	69	---	---	---	---	PASS	G	24601642	G	G	24601642	3	3	119	1	0	0	0	0	1	0	0	0	5898	535	19	4	495	4	FITM1	14	24601642	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	78716	24601642	82747898	959	44132										
MDP1	145553	broad.mit.edu	37	chr14	24684816	24684816	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcgttttaggacctcaggcaCctctgggtacagtcggacgt	12	11	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:24684816C>A	uc001wnl.1	-	3	231	c.151G>T	c.(151-153)GTG>TTG	p.V51L	TM9SF1_uc010tob.1_5'Flank|CHMP4A_uc001wni.2_5'Flank|CHMP4A_uc010toc.1_5'Flank|CHMP4A_uc001wnj.2_5'UTR|MDP1_uc001wnk.1_Missense_Mutation_p.V51L|CHMP4A_uc001wnm.1_Missense_Mutation_p.V51L	NM_138476	NP_612485	Q86V88	MGDP1_HUMAN	magnesium-dependent phosphatase 1	51							metal ion binding|protein tyrosine phosphatase activity				0						ACCTCAGGCACCTCTGGGTAC	0.587											OREG0022620	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	711	---	---	---	---	PASS	A	24684816	A	A	24684816	3	1	119	1	0	0	0	0	1	0	0	0	9416	507	18	3	395	3	MDP1	14	24684816	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	83174	24684816	82664724	960	44133										
G2E3	55632	broad.mit.edu	37	chr14	31071217	31071217	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atctgtaggagagttccaaaAagccaaaaaacatgtattac	7	7	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:31071217A>T	uc001wqk.2	+	10	1044	c.890A>T	c.(889-891)AAA>ATA	p.K297I	G2E3_uc010tpe.1_Missense_Mutation_p.K212I|G2E3_uc010tpf.1_Missense_Mutation_p.K251I	NM_017769	NP_060239	Q7L622	G2E3_HUMAN	G2/M-phase specific E3 ubiquitin ligase	297					apoptosis|multicellular organismal development|protein modification process	Golgi apparatus|nucleolus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						GAGTTCCAAAAAGCCAAAAAA	0.308													16	115	---	---	---	---	PASS	T	31071217	T	T	31071217	3	4	119	1	0	0	0	0	1	0	0	0	6140	14	1	5	924	5	G2E3	14	31071217	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	6386401	31071217	76278323	961	44134										
EAPP	55837	broad.mit.edu	37	chr14	35002695	35002695	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agaatcaaaatatatatcatCgtagtaccttgtcggagctg	8	7	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:35002695C>T	uc001wsd.1	-	3	416	c.307G>A	c.(307-309)GAT>AAT	p.D103N		NM_018453	NP_060923	Q56P03	EAPP_HUMAN	E2F-associated phosphoprotein	103					negative regulation of transcription elongation from RNA polymerase II promoter|positive regulation of cell proliferation|positive regulation of transcription elongation from RNA polymerase II promoter	Golgi apparatus|nucleus|plasma membrane				ovary(1)	1	Breast(36;0.0473)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00342)|Epithelial(34;0.18)	GBM - Glioblastoma multiforme(112;0.0196)		TATATATCATCGTAGTACCTT	0.343													80	139	---	---	---	---	PASS	T	35002695	T	T	35002695	3	4	119	1	0	0	0	0	1	0	0	0	4877	884	31	2	566	2	EAPP	14	35002695	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3931478	35002695	72346845	962	44135										
LRFN5	145581	broad.mit.edu	37	chr14	42356460	42356460	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaataaattgcagaagctacCacctgaccctctctttcagc	5	13	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:42356460C>G	uc001wvm.2	+	3	1830	c.632C>G	c.(631-633)CCA>CGA	p.P211R	LRFN5_uc010ana.2_Missense_Mutation_p.P211R	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	211	Extracellular (Potential).|LRR 7.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		CAGAAGCTACCACCTGACCCT	0.433										HNSCC(30;0.082)			22	152	---	---	---	---	PASS	G	42356460	G	G	42356460	3	3	119	1	0	0	0	0	1	0	0	0	8941	594	21	4	634	4	LRFN5	14	42356460	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	7353765	42356460	64993080	963	44136										
FSCB	84075	broad.mit.edu	37	chr14	44975323	44975323	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgatggctgtacttggacatGggtctcttcagcaggtctgg	14	8	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:44975323G>A	uc001wvn.2	-	1	1177	c.868C>T	c.(868-870)CAT>TAT	p.H290Y		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	290						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		ACTTGGACATGGGTCTCTTCA	0.493													7	141	---	---	---	---	PASS	A	44975323	A	A	44975323	3	1	119	1	0	0	0	0	1	0	0	0	6066	1348	47	3	1613	3	FSCB	14	44975323	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2618863	44975323	62374217	964	44137										
SOS2	6655	broad.mit.edu	37	chr14	50585451	50585451	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atctcttggtggtggcggagGtggactatgcagaggcccat	16	8	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:50585451G>A	uc001wxs.3	-	23	3708	c.3610C>T	c.(3610-3612)CCT>TCT	p.P1204S	SOS2_uc010ans.2_Missense_Mutation_p.P39S|SOS2_uc010tql.1_Missense_Mutation_p.P1171S|C14orf138_uc001wxn.1_5'Flank|C14orf138_uc001wxo.1_5'Flank|C14orf138_uc001wxp.1_5'Flank|C14orf138_uc001wxq.1_5'Flank	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	1204	Poly-Pro.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					GGTGGCGGAGGTGGACTATGC	0.522													11	346	---	---	---	---	PASS	A	50585451	A	A	50585451	3	1	119	1	0	0	0	0	1	0	0	0	14937	1261	44	3	392	3	SOS2	14	50585451	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5610128	50585451	56764089	965	44138										
FRMD6	122786	broad.mit.edu	37	chr14	52164869	52164869	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcccctacaggttaagattCtgtgtcaccagttgctggtc	9	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:52164869C>T	uc001wzd.2	+	3	394	c.109C>T	c.(109-111)CTG>TTG	p.L37L	FRMD6_uc001wzb.2_Silent_p.L37L|FRMD6_uc001wzc.2_Silent_p.L37L|FRMD6_uc001wze.2_5'UTR	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	37	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					GGTTAAGATTCTGTGTCACCA	0.443													29	109	---	---	---	---	PASS	T	52164869	T	T	52164869	2	4	119	1	0	0	0	0	0	0	0	1	6054	912	32	2		2	FRMD6	14	52164869	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1579418	52164869	55184671	966	44139										
PTGDR	5729	broad.mit.edu	37	chr14	52741475	52741475	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcttactatggagcatttaaGgatgtcaaggagaaaaacag	11	5	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:52741475G>T	uc001wzq.2	+	2	975	c.873G>T	c.(871-873)AAG>AAT	p.K291N		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	291	Extracellular (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	GAGCATTTAAGGATGTCAAGG	0.398													4	110	---	---	---	---	PASS	T	52741475	T	T	52741475	3	4	119	1	0	0	0	0	1	0	0	0	12741	991	35	3	879	3	PTGDR	14	52741475	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	576606	52741475	54608065	967	44140										
WDHD1	11169	broad.mit.edu	37	chr14	55475407	55475407	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttttctgttggctgctatcCatcacatccacaattttgac	6	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:55475407C>G	uc001xbm.1	-	5	450	c.372G>C	c.(370-372)ATG>ATC	p.M124I	WDHD1_uc001xbn.1_Missense_Mutation_p.M1I	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	124	WD 3.					cytoplasm|nucleoplasm	DNA binding			skin(1)	1						GGCTGCTATCCATCACATCCA	0.363													60	124	---	---	---	---	PASS	G	55475407	G	G	55475407	3	3	119	1	0	0	0	0	1	0	0	0	17268	594	21	4	3105	4	WDHD1	14	55475407	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2733932	55475407	51874133	968	44141										
KTN1	3895	broad.mit.edu	37	chr14	56079043	56079043	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatcagatgctttggcagtaGaagatgatcaagttgcacct	10	7	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:56079043G>C	uc001xcb.2	+	3	579	c.277G>C	c.(277-279)GAA>CAA	p.E93Q	KTN1_uc001xce.2_Missense_Mutation_p.E93Q|KTN1_uc001xcc.2_Missense_Mutation_p.E93Q|KTN1_uc001xcd.2_Missense_Mutation_p.E93Q|KTN1_uc010trb.1_Missense_Mutation_p.E93Q|KTN1_uc001xcf.1_Missense_Mutation_p.E93Q	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	93	Lumenal (Potential).				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						TTTGGCAGTAGAAGATGATCA	0.353			T	RET	papillary thryoid								8	212	---	---	---	---	PASS	C	56079043	C	C	56079043	3	2	119	1	0	0	0	0	1	0	0	0	8585	943	33	2	279	2	KTN1	14	56079043	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	603636	56079043	51270497	969	44142										
C14orf37	145407	broad.mit.edu	37	chr14	58604887	58604887	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcagacttgtgggggtaaagGaactttgatcagtgaaagca	13	5	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:58604887G>A	uc001xdc.2	-	2	1301	c.1190C>T	c.(1189-1191)TCC>TTC	p.S397F	C14orf37_uc010tro.1_Missense_Mutation_p.S435F|C14orf37_uc001xdd.2_Missense_Mutation_p.S397F|C14orf37_uc001xde.2_Missense_Mutation_p.S397F	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	397	Extracellular (Potential).					integral to membrane	binding				0						GGGGGTAAAGGAACTTTGATC	0.512													99	176	---	---	---	---	PASS	A	58604887	A	A	58604887	3	1	119	1	0	0	0	0	1	0	0	0	1771	1174	41	2	1162	2	C14orf37	14	58604887	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2525844	58604887	48744653	970	44143										
KIAA0586	9786	broad.mit.edu	37	chr14	58895097	58895097	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atttggttttgctgaaagatGagttgccctgtgttcctccg	11	8	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:58895097G>A	uc001xdv.3	+	1	388	c.115G>A	c.(115-117)GAG>AAG	p.E39K	KIAA0586_uc010trr.1_Missense_Mutation_p.E39K|KIAA0586_uc001xdt.3_Intron|KIAA0586_uc001xdu.3_Missense_Mutation_p.E24K|KIAA0586_uc010trs.1_Intron|TIMM9_uc010aph.2_5'Flank|TIMM9_uc001xds.2_5'Flank|TIMM9_uc010api.2_5'Flank	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	39										ovary(1)	1						GCTGAAAGATGAGTTGCCCTG	0.428													8	122	---	---	---	---	PASS	A	58895097	A	A	58895097	3	1	119	1	0	0	0	0	1	0	0	0	8186	1291	45	2	117	2	KIAA0586	14	58895097	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	290210	58895097	48454443	971	44144										
RTN1	6252	broad.mit.edu	37	chr14	60193809	60193809	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggggcagctcggggccaggCtggggctcagttgaggggta	22	8	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:60193809C>A	uc001xen.1	-	3	1802	c.1593G>T	c.(1591-1593)CAG>CAT	p.Q531H	RTN1_uc001xem.1_Missense_Mutation_p.Q111H	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	531					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		CGGGGCCAGGCTGGGGCTCAG	0.687													8	16	---	---	---	---	PASS	A	60193809	A	A	60193809	3	1	119	1	0	0	0	0	1	0	0	0	13725	796	28	3	830	3	RTN1	14	60193809	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1298712	60193809	47155731	972	44145										
SYNE2	23224	broad.mit.edu	37	chr14	64519092	64519092	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aataccaaatgctggttttaAaatcaactcaaagatcacag	5	8	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:64519092A>T	uc001xgm.2	+	48	8691	c.8461A>T	c.(8461-8463)AAA>TAA	p.K2821*	SYNE2_uc001xgl.2_Nonsense_Mutation_p.K2821*	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2821	Potential.|Cytoplasmic (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)		GCTGGTTTTAAAATCAACTCA	0.338													11	109	---	---	---	---	PASS	T	64519092	T	T	64519092	4	4	119	1	0	0	0	0	0	1	0	0	15443	15	1	5	8647	5	SYNE2	14	64519092	Nonsense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	4325283	64519092	42830448	973	44146										
SYNE2	23224	broad.mit.edu	37	chr14	64595260	64595260	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcagtgggcagagtgttgctGaacagcttcaggtaatcaag	13	7	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:64595260G>A	uc001xgm.2	+	74	14238	c.14008G>A	c.(14008-14010)GAA>AAA	p.E4670K	SYNE2_uc001xgl.2_Missense_Mutation_p.E4670K|SYNE2_uc010apy.2_Missense_Mutation_p.E1055K|SYNE2_uc010apz.1_Missense_Mutation_p.E562K	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	4670	Potential.|Cytoplasmic (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)		GAGTGTTGCTGAACAGCTTCA	0.358													44	205	---	---	---	---	PASS	A	64595260	A	A	64595260	3	1	119	1	0	0	0	0	1	0	0	0	15443	1291	45	2	14298	2	SYNE2	14	64595260	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	76168	64595260	42754280	974	44147										
MTHFD1	4522	broad.mit.edu	37	chr14	64908778	64908778	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctggtttccacagggcactCcagtgtttgtccatgctggc	11	13	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:64908778C>G	uc001xhb.2	+	20	2278	c.1891C>G	c.(1891-1893)CCA>GCA	p.P631A	MTHFD1_uc010aqf.2_Missense_Mutation_p.P687A	NM_005956	NP_005947	P11586	C1TC_HUMAN	methylenetetrahydrofolate dehydrogenase 1	631	Formyltetrahydrofolate synthetase.				folic acid metabolic process|folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process	cytosol|mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|methylenetetrahydrofolate dehydrogenase|protein binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(108;8.7e-12)|all cancers(60;3.29e-11)|BRCA - Breast invasive adenocarcinoma(234;0.0488)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	ACAGGGCACTCCAGTGTTTGT	0.522													14	59	---	---	---	---	PASS	G	64908778	G	G	64908778	3	3	119	1	0	0	0	0	1	0	0	0	9927	855	30	2	1969	2	MTHFD1	14	64908778	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	313518	64908778	42440762	975	44148										
RDH12	145226	broad.mit.edu	37	chr14	68189388	68189388	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caccttgggactgctcacctCcttcttctcgttcctgtata	6	15	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:68189388C>T	uc001xjz.3	+	3	353	c.29C>T	c.(28-30)TCC>TTC	p.S10F		NM_152443	NP_689656	Q96NR8	RDH12_HUMAN	retinol dehydrogenase 12	10					photoreceptor cell maintenance|response to stimulus|retinol metabolic process	intracellular	binding|retinol dehydrogenase activity			ovary(1)	1				all cancers(60;0.000704)|OV - Ovarian serous cystadenocarcinoma(108;0.00161)|BRCA - Breast invasive adenocarcinoma(234;0.00953)	Vitamin A(DB00162)	CTGCTCACCTCCTTCTTCTCG	0.502													10	298	---	---	---	---	PASS	T	68189388	T	T	68189388	3	4	119	1	0	0	0	0	1	0	0	0	13191	855	30	2	31	2	RDH12	14	68189388	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3280610	68189388	39160152	976	44149										
ZFYVE26	23503	broad.mit.edu	37	chr14	68234552	68234552	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctttcattcttggagctgtCtagagctgagaagagaaatg	12	6	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:68234552C>G	uc001xka.2	-	31	5798	c.5659G>C	c.(5659-5661)GAC>CAC	p.D1887H	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.D1887H	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1887					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		TTGGAGCTGTCTAGAGCTGAG	0.478													10	165	---	---	---	---	PASS	G	68234552	G	G	68234552	3	3	119	1	0	0	0	0	1	0	0	0	17665	913	32	2	2008	2	ZFYVE26	14	68234552	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	45164	68234552	39114988	977	44150										
PCNX	22990	broad.mit.edu	37	chr14	71500230	71500230	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtcttaccatctcagccgaCaaagcagtgatccatctgta	7	12	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:71500230C>T	uc001xmo.2	+	17	4089	c.3643C>T	c.(3643-3645)CAA>TAA	p.Q1215*	PCNX_uc010are.1_Nonsense_Mutation_p.Q1104*|PCNX_uc010arf.1_Nonsense_Mutation_p.Q75*	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1215						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)		TCTCAGCCGACAAAGCAGTGA	0.348													46	124	---	---	---	---	PASS	T	71500230	T	T	71500230	4	4	119	1	0	0	0	0	0	1	0	0	11591	479	17	3	3709	3	PCNX	14	71500230	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3265678	71500230	35849310	978	44151										
C14orf115	55237	broad.mit.edu	37	chr14	74823770	74823770	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcggccagcatgctgctgtGgggtgacgcaggcctcagcc	17	13	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:74823770G>T	uc001xpw.3	+	2	475	c.284G>T	c.(283-285)TGG>TTG	p.W95L		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	95					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		ATGCTGCTGTGGGGTGACGCA	0.637													8	65	---	---	---	---	PASS	T	74823770	T	T	74823770	3	4	119	1	0	0	0	0	1	0	0	0	1740	1357	47	3	286	3	C14orf115	14	74823770	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3323540	74823770	32525770	979	44152										
FOS	2353	broad.mit.edu	37	chr14	75747808	75747808	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctttgatgacttcctgttccCagcatcatccaggcccagtg	8	14	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:75747808C>A	uc001xrn.2	+	4	1029	c.824C>A	c.(823-825)CCA>CAA	p.P275Q	FOS_uc010tva.1_Missense_Mutation_p.P239Q|FOS_uc010asi.2_Missense_Mutation_p.P161Q|FOS_uc001xro.2_Missense_Mutation_p.P127Q	NM_005252	NP_005243	P01100	FOS_HUMAN	v-fos FBJ murine osteosarcoma viral oncogene	275					cellular response to reactive oxygen species|DNA methylation|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|SMAD protein signal transduction|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|transcription from RNA polymerase II promoter|transforming growth factor beta receptor signaling pathway		protein dimerization activity|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(2)|ovary(1)	3		all_lung(585;0.0138)|all_epithelial(191;0.0263)|all_neural(303;0.112)		BRCA - Breast invasive adenocarcinoma(234;0.0117)		TTCCTGTTCCCAGCATCATCC	0.582													37	93	---	---	---	---	PASS	A	75747808	A	A	75747808	3	1	119	1	0	0	0	0	1	0	0	0	5985	594	21	3	838	3	FOS	14	75747808	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	924038	75747808	31601732	980	44153										
C14orf174	161394	broad.mit.edu	37	chr14	77844289	77844289	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaggtttcgggggccacagtCagagagagaaatttagaatt	14	5	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:77844289C>G	uc001xtq.1	+	1	528	c.528C>G	c.(526-528)GTC>GTG	p.V176V	TMED8_uc010ast.1_5'Flank|TMED8_uc001xto.1_5'Flank	NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	176											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		GGGCCACAGTCAGAGAGAGAA	0.488													4	219	---	---	---	---	PASS	G	77844289	G	G	77844289	2	3	119	1	0	0	0	0	0	0	0	1	1759	813	29	2		2	C14orf174	14	77844289	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2096481	77844289	29505251	981	44154										
NDUFB1	4707	broad.mit.edu	37	chr14	92588099	92588099	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgccgcgcccgcacggagcaGaggggtgacgccagcaaatc	15	15	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:92588099G>A	uc001yaf.2	-	1	55	c.23C>T	c.(22-24)TCT>TTT	p.S8F	NDUFB1_uc001yag.1_RNA|CPSF2_uc001yah.1_5'Flank	NM_004545	NP_004536	O75438	NDUB1_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0		all_cancers(154;0.0766)		COAD - Colon adenocarcinoma(157;0.205)	NADH(DB00157)	GCACGGAGCAGAGGGGTGACG	0.532													19	120	---	---	---	---	PASS	A	92588099	A	A	92588099	3	1	119	1	0	0	0	0	1	0	0	0	10278	942	33	2	306	2	NDUFB1	14	92588099	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	14743810	92588099	14761441	982	44155										
DICER1	23405	broad.mit.edu	37	chr14	95578573	95578573	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcagccaatcgtacacagctCattggtggaccctgaaaata	8	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:95578573C>G	uc001ydw.2	-	14	2234	c.2052G>C	c.(2050-2052)ATG>ATC	p.M684I	DICER1_uc001ydv.2_Missense_Mutation_p.M674I|DICER1_uc001ydx.2_Missense_Mutation_p.M684I	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	684	Dicer dsRNA-binding fold.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		GTACACAGCTCATTGGTGGAC	0.388			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				6	152	---	---	---	---	PASS	G	95578573	G	G	95578573	3	3	119	1	0	0	0	0	1	0	0	0	4521	826	29	2	3776	2	DICER1	14	95578573	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2990474	95578573	11770967	983	44156										
DICER1	23405	broad.mit.edu	37	chr14	95582871	95582871	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctaacattatataattagaGatgggtgcccttgctcttcc	8	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:95582871G>C	uc001ydw.2	-	11	1853	c.1671C>G	c.(1669-1671)ATC>ATG	p.I557M	DICER1_uc001ydv.2_Missense_Mutation_p.I547M|DICER1_uc001ydx.2_Missense_Mutation_p.I557M	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	557	Helicase C-terminal.|Required for interaction with PRKRA and TARBP2.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		TATAATTAGAGATGGGTGCCC	0.348			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				58	348	---	---	---	---	PASS	C	95582871	C	C	95582871	3	2	119	1	0	0	0	0	1	0	0	0	4521	932	33	2	4169	2	DICER1	14	95582871	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4298	95582871	11766669	984	44157										
C14orf49	161176	broad.mit.edu	37	chr14	95912339	95912339	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccaggagtgccgtggctctCtcctggccaaagatgccaat	11	13	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:95912339C>G	uc001yei.3	-	8	1554	c.1539G>C	c.(1537-1539)GAG>GAC	p.E513D	C14orf49_uc010avi.2_Missense_Mutation_p.E513D|C14orf49_uc001yej.1_Missense_Mutation_p.E513D	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	513	Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		CCGTGGCTCTCTCCTGGCCAA	0.577													135	172	---	---	---	---	PASS	G	95912339	G	G	95912339	3	3	119	1	0	0	0	0	1	0	0	0	1776	912	32	2	1428	2	C14orf49	14	95912339	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	329468	95912339	11437201	985	44158										
C14orf49	161176	broad.mit.edu	37	chr14	95932538	95932538	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tagaactcatctcgggccagCaggtactcgctccagtgcag	11	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:95932538C>G	uc001yei.3	-	3	372	c.357G>C	c.(355-357)CTG>CTC	p.L119L	C14orf49_uc010avi.2_Silent_p.L119L|C14orf49_uc001yej.1_Silent_p.L119L	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	119	Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		CTCGGGCCAGCAGGTACTCGC	0.627													26	49	---	---	---	---	PASS	G	95932538	G	G	95932538	2	3	119	1	0	0	0	0	0	0	0	1	1776	697	25	4		4	C14orf49	14	95932538	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	20199	95932538	11417002	986	44159										
DEGS2	123099	broad.mit.edu	37	chr14	100615443	100615443	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacatgtagtgctcggccacGaagtggcccgagatggggtg	16	9	0	1	rs145891510		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:100615443G>A	uc001ygx.2	-	2	775	c.687C>T	c.(685-687)TTC>TTT	p.F229F		NM_206918	NP_996801	Q6QHC5	DEGS2_HUMAN	degenerative spermatocyte homolog 2, lipid	229	Helical; (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	sphingosine hydroxylase activity				0		Melanoma(154;0.212)				GCTCGGCCACGAAGTGGCCCG	0.622													86	116	---	---	---	---	PASS	A	100615443	A	A	100615443	2	1	119	1	0	0	0	0	0	0	0	1	4423	1049	37	2		2	DEGS2	14	100615443	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	4682905	100615443	6734097	987	44160										
DLK1	8788	broad.mit.edu	37	chr14	101201015	101201015	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgcttcaccatcctgggcGtgctcaccagcctggtggtg	12	14	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:101201015G>A	uc001yhs.3	+	5	1087	c.934G>A	c.(934-936)GTG>ATG	p.V312M	DLK1_uc001yhu.3_Missense_Mutation_p.V239M	NM_003836	NP_003827	P80370	DLK1_HUMAN	delta-like 1 homolog precursor	312	Helical; (Potential).				multicellular organismal development	extracellular space|integral to membrane|soluble fraction				ovary(2)|breast(1)|skin(1)	4		Melanoma(154;0.155)				CATCCTGGGCGTGCTCACCAG	0.597													32	173	---	---	---	---	PASS	A	101201015	A	A	101201015	3	1	119	1	0	0	0	0	1	0	0	0	4564	1145	40	1	952	1	DLK1	14	101201015	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	585572	101201015	6148525	988	44161										
PPP2R5C	5527	broad.mit.edu	37	chr14	102391487	102391487	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctaattccaggcacagaaaGatccgaagaaggaccgtcct	9	11	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:102391487G>C	uc001yko.2	+	14	1593	c.1453G>C	c.(1453-1455)GAT>CAT	p.D485H	PPP2R5C_uc010txr.1_Missense_Mutation_p.D516H|PPP2R5C_uc001ykk.2_Missense_Mutation_p.D501H|PPP2R5C_uc001ykp.2_Missense_Mutation_p.D446H	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	485					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|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						GGCACAGAAAGATCCGAAGAA	0.522													74	433	---	---	---	---	PASS	C	102391487	C	C	102391487	3	2	119	1	0	0	0	0	1	0	0	0	12394	942	33	2	1900	2	PPP2R5C	14	102391487	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1190472	102391487	4958053	989	44162										
DYNC1H1	1778	broad.mit.edu	37	chr14	102498736	102498736	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcaccacagactggaagcaGatccgctccatcatcatgcg	9	14	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:102498736G>T	uc001yks.2	+	52	10175	c.10011G>T	c.(10009-10011)CAG>CAT	p.Q3337H		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3337	Stalk (By similarity).				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						ACTGGAAGCAGATCCGCTCCA	0.572													8	224	---	---	---	---	PASS	T	102498736	T	T	102498736	3	4	119	1	0	0	0	0	1	0	0	0	4841	933	33	2	10217	2	DYNC1H1	14	102498736	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	107249	102498736	4850804	990	44163										
CDC42BPB	9578	broad.mit.edu	37	chr14	103470347	103470347	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccagcacatcgcgctcctctCggaagcacgcggtctgcaaa	10	16	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:103470347C>T	uc001ymi.1	-	4	597	c.365G>A	c.(364-366)CGA>CAA	p.R122Q		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	122	Protein kinase.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		GCGCTCCTCTCGGAAGCACGC	0.627													6	43	---	---	---	---	PASS	T	103470347	T	T	103470347	3	4	119	1	0	0	0	0	1	0	0	0	3073	884	31	2	4906	2	CDC42BPB	14	103470347	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	971611	103470347	3879193	991	44164										
CRIP2	1397	broad.mit.edu	37	chr14	105945519	105945519	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccctgcctgcgctgcgagcGctgcgggaagacactgaccc	14	16	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr14:105945519G>T	uc001yrd.1	+	6	533	c.464G>T	c.(463-465)CGC>CTC	p.R155L	CRIP2_uc010tyr.1_Missense_Mutation_p.R229L|CRIP2_uc001yre.1_Missense_Mutation_p.R155L|CRIP2_uc001yrf.1_RNA|CRIP2_uc001yrg.2_RNA|CRIP2_uc001yrh.1_RNA	NM_001312	NP_001303	P52943	CRIP2_HUMAN	cysteine-rich protein 2	155	LIM zinc-binding 2.						zinc ion binding				0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.235)		CGCTGCGAGCGCTGCGGGAAG	0.687													5	19	---	---	---	---	PASS	T	105945519	T	T	105945519	3	4	119	1	0	0	0	0	1	0	0	0	3875	1087	38	1	486	1	CRIP2	14	105945519	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2475172	105945519	1404021	992	44165										
OR4N4	283694	broad.mit.edu	37	chr15	22382511	22382511	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acagtagtgacagaatttatCctccttggtctgactcagtc	8	10	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:22382511C>A	uc001yuc.1	+	7	1020	c.39C>A	c.(37-39)ATC>ATA	p.I13I	LOC727924_uc001yub.1_RNA|OR4N4_uc010tzv.1_Silent_p.I13I	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	13	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CAGAATTTATCCTCCTTGGTC	0.343													82	384	---	---	---	---	PASS	A	22382511	A	A	22382511	2	1	119	1	0	0	0	0	0	0	0	1	11078	845	30	2		2	OR4N4	15	22382511	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08		22382511	80148881	993	44166										
GABRA5	2558	broad.mit.edu	37	chr15	27182355	27182355	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgtaccctaattctgaagtcGtttacgtctggaccaacggc	9	12	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:27182355G>A	uc001zbd.1	+	9	943	c.604G>A	c.(604-606)GTT>ATT	p.V202I	GABRB3_uc001zbb.2_Intron	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	202	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TTCTGAAGTCGTTTACGTCTG	0.512													39	112	---	---	---	---	PASS	A	27182355	A	A	27182355	3	1	119	1	0	0	0	0	1	0	0	0	6164	1145	40	1	626	1	GABRA5	15	27182355	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4799844	27182355	75349037	994	44167										
GABRG3	2567	broad.mit.edu	37	chr15	27572057	27572057	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgaacagcaacatggtgggGttaatctggatcccagacac	11	10	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:27572057G>T	uc001zbg.1	+	4	538	c.372G>T	c.(370-372)GGG>GGT	p.G124G	GABRG3_uc001zbf.2_Silent_p.G124G	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	124	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		ACATGGTGGGGTTAATCTGGA	0.458													13	204	---	---	---	---	PASS	T	27572057	T	T	27572057	2	4	119	1	0	0	0	0	0	0	0	1	6173	1248	44	3		3	GABRG3	15	27572057	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	389702	27572057	74959335	995	44168										
OCA2	4948	broad.mit.edu	37	chr15	28202874	28202874	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgccagacgtgaatctcgtgCttcagttctgcagagaaagg	12	10	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:28202874C>T	uc001zbh.3	-	16	1754	c.1644G>A	c.(1642-1644)AAG>AAA	p.K548K	OCA2_uc010ayv.2_Silent_p.K524K	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	548	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		GAATCTCGTGCTTCAGTTCTG	0.612									Oculocutaneous_Albinism				7	62	---	---	---	---	PASS	T	28202874	T	T	28202874	2	4	119	1	0	0	0	0	0	0	0	1	10815	796	28	3		3	OCA2	15	28202874	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	630817	28202874	74328518	996	44169										
HERC2	8924	broad.mit.edu	37	chr15	28491051	28491051	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatgccaggccaggctaactCttcatgatcatcccgttcct	7	14	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:28491051C>T	uc001zbj.2	-	23	3659	c.3553G>A	c.(3553-3555)GAG>AAG	p.E1185K		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1185					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CAGGCTAACTCTTCATGATCA	0.478													22	108	---	---	---	---	PASS	T	28491051	T	T	28491051	3	4	119	1	0	0	0	0	1	0	0	0	7058	922	32	2	11235	2	HERC2	15	28491051	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	288177	28491051	74040341	997	44170										
APBA2	321	broad.mit.edu	37	chr15	29367139	29367139	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccaggtttgcaatggtctgGagcagccaaggaagcagcag	14	9	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:29367139G>T	uc001zck.2	+	4	1174	c.967G>T	c.(967-969)GAG>TAG	p.E323*	APBA2_uc010azj.2_Nonsense_Mutation_p.E323*|APBA2_uc010uat.1_Nonsense_Mutation_p.E323*|APBA2_uc001zcl.2_Nonsense_Mutation_p.E323*|APBA2_uc001zcm.1_Nonsense_Mutation_p.E27*	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	323					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)		CAATGGTCTGGAGCAGCCAAG	0.413													8	56	---	---	---	---	PASS	T	29367139	T	T	29367139	4	4	119	1	0	0	0	0	0	1	0	0	757	1175	41	2	973	2	APBA2	15	29367139	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	876088	29367139	73164253	998	44171										
SCG5	6447	broad.mit.edu	37	chr15	32935813	32935813	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aatggtctccaggatggtctCtaccatgctatctggcctac	9	12	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:32935813C>G	uc001zha.2	+	2	137	c.20C>G	c.(19-21)TCT>TGT	p.S7C	SCG5_uc001zgz.2_Missense_Mutation_p.S7C	NM_001144757	NP_001138229	P05408	7B2_HUMAN	secretogranin V isoform 1	7					intracellular protein transport|neuropeptide signaling pathway|peptide hormone processing|regulation of hormone secretion	extracellular region|stored secretory granule	enzyme inhibitor activity|GTP binding|unfolded protein binding				0		all_lung(180;7.32e-08)		all cancers(64;6.48e-17)|Epithelial(43;1.23e-11)|GBM - Glioblastoma multiforme(186;1.39e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0212)		AGGATGGTCTCTACCATGCTA	0.463													70	201	---	---	---	---	PASS	G	32935813	G	G	32935813	3	3	119	1	0	0	0	0	1	0	0	0	13893	913	32	2	22	2	SCG5	15	32935813	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3568674	32935813	69595579	999	44172										
RYR3	6263	broad.mit.edu	37	chr15	33895559	33895559	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctttgatggacttcaccttTggtcaggtgagtaccttgct	11	9	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:33895559T>G	uc001zhi.2	+	18	2228	c.2158T>G	c.(2158-2160)TGG>GGG	p.W720G	RYR3_uc010bar.2_Missense_Mutation_p.W720G	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	720	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		ACTTCACCTTTGGTCAGGTGA	0.468													101	327	---	---	---	---	PASS	G	33895559	G	G	33895559	3	3	119	1	0	0	0	0	1	0	0	0	13770	1812	63	5	2228	5	RYR3	15	33895559	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	959746	33895559	68635833	1000	44173										
C15orf55	256646	broad.mit.edu	37	chr15	34647258	34647258	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	accctcaatttctggcagatCtgctgtccccagaaaaacag	7	13	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:34647258C>G	uc001zif.2	+	6	1470	c.1315C>G	c.(1315-1317)CTG>GTG	p.L439V	C15orf55_uc010ucc.1_Missense_Mutation_p.L467V|C15orf55_uc010ucd.1_Missense_Mutation_p.L457V	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	439						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		TCTGGCAGATCTGCTGTCCCC	0.473			T	BRD3|BRD4	lethal midline carcinoma								32	175	---	---	---	---	PASS	G	34647258	G	G	34647258	3	3	119	1	0	0	0	0	1	0	0	0	1803	912	32	2	1337	2	C15orf55	15	34647258	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	751699	34647258	67884134	1001	44174										
CHP	11261	broad.mit.edu	37	chr15	41555038	41555038	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aatgaaaagagcaaagatgtGaatggacccgaaccactcaa	9	8	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:41555038G>A	uc001znl.2	+	4	450	c.306G>A	c.(304-306)GTG>GTA	p.V102V		NM_007236	NP_009167	Q99653	CHP1_HUMAN	calcium binding protein P22	102					potassium ion transport|small GTPase mediated signal transduction		potassium channel regulator activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;5.87e-16)|Lung NSC(122;8.86e-12)|all_lung(180;2.47e-10)|Melanoma(134;0.0574)|Colorectal(260;0.0946)|Ovarian(310;0.143)		GBM - Glioblastoma multiforme(113;1.68e-06)|LUSC - Lung squamous cell carcinoma(244;0.008)|Lung(196;0.00802)|BRCA - Breast invasive adenocarcinoma(123;0.169)		GCAAAGATGTGAATGGACCCG	0.413													35	107	---	---	---	---	PASS	A	41555038	A	A	41555038	2	1	119	1	0	0	0	0	0	0	0	1	3366	1277	45	2		2	CHP	15	41555038	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	6907780	41555038	60976354	1002	44175										
RPAP1	26015	broad.mit.edu	37	chr15	41812753	41812753	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgatccaggaagttggcatAgaggtcagggaaagacgtca	14	6	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:41812753A>T	uc001zod.2	-	22	3755	c.3631T>A	c.(3631-3633)TAT>AAT	p.Y1211N	RPAP1_uc001zoc.2_Missense_Mutation_p.Y230N	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	1211	Leu-rich.					nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		AAGTTGGCATAGAGGTCAGGG	0.592													9	51	---	---	---	---	PASS	T	41812753	T	T	41812753	3	4	119	1	0	0	0	0	1	0	0	0	13541	420	15	5	566	5	RPAP1	15	41812753	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	257715	41812753	60718639	1003	44176										
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42139651	42139651	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cacaccttctccgaccccacCtgccccggagcccctgcggt	8	22	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:42139651C>T	uc010bco.2	+	19	2165	c.2064C>T	c.(2062-2064)ACC>ACT	p.T688T	JMJD7-PLA2G4B_uc001zoo.3_Silent_p.T919T|JMJD7-PLA2G4B_uc010bcn.2_Intron|JMJD7-PLA2G4B_uc001zoq.3_Silent_p.T389T	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	688	PLA2c.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						CCGACCCCACCTGCCCCGGAG	0.677													11	180	---	---	---	---	PASS	T	42139651	T	T	42139651	2	4	119	1	0	0	0	0	0	0	0	1	7955	668	24	3		3	JMJD7-PLA2G4B	15	42139651	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	326898	42139651	60391741	1004	44177										
SPTBN5	51332	broad.mit.edu	37	chr15	42178428	42178428	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaatgctgccagtagctgcCgcatggcgggcagcgagtct	15	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:42178428C>T	uc001zos.2	-	7	1253	c.920G>A	c.(919-921)CGG>CAG	p.R307Q		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	342	Spectrin 1.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		CAGTAGCTGCCGCATGGCGGG	0.632													6	17	---	---	---	---	PASS	T	42178428	T	T	42178428	3	4	119	1	0	0	0	0	1	0	0	0	15121	652	23	1	10247	1	SPTBN5	15	42178428	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	38777	42178428	60352964	1005	44178										
ZFP106	64397	broad.mit.edu	37	chr15	42727711	42727711	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcaaagacaccaatacatttCcgactctaaagtttaagcac	4	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:42727711C>T	uc001zpw.2	-	11	5018	c.4683G>A	c.(4681-4683)CGG>CGA	p.R1561R	ZFP106_uc001zpu.2_Silent_p.R659R|ZFP106_uc001zpv.2_Silent_p.R746R|ZFP106_uc001zpx.2_Silent_p.R789R	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1561	WD 1.					nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		CAATACATTTCCGACTCTAAA	0.398													12	196	---	---	---	---	PASS	T	42727711	T	T	42727711	2	4	119	1	0	0	0	0	0	0	0	1	17634	842	30	2		2	ZFP106	15	42727711	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	549283	42727711	59803681	1006	44179										
CDAN1	146059	broad.mit.edu	37	chr15	43026155	43026155	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctctgtttcttaaaagtatGaaaggctcggtcactggaga	10	8	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:43026155G>A	uc001zql.2	-	8	1465	c.1348C>T	c.(1348-1350)CAT>TAT	p.H450Y	CDAN1_uc001zqk.2_5'UTR|CDAN1_uc010bcx.1_RNA	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	450						integral to membrane	protein binding			ovary(2)	2		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		TTAAAAGTATGAAAGGCTCGG	0.433													13	51	---	---	---	---	PASS	A	43026155	A	A	43026155	3	1	119	1	0	0	0	0	1	0	0	0	3054	1290	45	2	2419	2	CDAN1	15	43026155	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	298444	43026155	59505237	1007	44180										
ZSCAN29	146050	broad.mit.edu	37	chr15	43662016	43662016	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agttggctgaaagcctcccgCggcccagccacctcctggta	11	16	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:43662016C>T	uc001zrk.1	-	1	243	c.96G>A	c.(94-96)CCG>CCA	p.P32P	ZSCAN29_uc001zrj.1_5'Flank|ZSCAN29_uc010bdf.1_Silent_p.P31P|ZSCAN29_uc001zrl.1_RNA|ZSCAN29_uc010bdg.1_Silent_p.P31P|ZSCAN29_uc001zrm.2_Silent_p.P31P|TUBGCP4_uc001zrn.2_5'Flank|TUBGCP4_uc001zro.2_5'Flank	NM_152455	NP_689668	Q8IWY8	ZSC29_HUMAN	zinc finger protein 690	32	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.97e-07)		AAGCCTCCCGCGGCCCAGCCA	0.532													5	122	---	---	---	---	PASS	T	43662016	T	T	43662016	2	4	119	1	0	0	0	0	0	0	0	1	18233	755	27	1		1	ZSCAN29	15	43662016	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	635861	43662016	58869376	1008	44181										
WDR76	79968	broad.mit.edu	37	chr15	44149268	44149268	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tagacggacacctggaacttCttatgagaaacttaccagtt	8	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:44149268C>T	uc001zti.1	+	10	1339	c.1316C>T	c.(1315-1317)TCT>TTT	p.S439F		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	439	WD 3.										0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)		CCTGGAACTTCTTATGAGAAA	0.428													10	132	---	---	---	---	PASS	T	44149268	T	T	44149268	3	4	119	1	0	0	0	0	1	0	0	0	17323	913	32	2	1354	2	WDR76	15	44149268	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	487252	44149268	58382124	1009	44182										
DUOX1	53905	broad.mit.edu	37	chr15	45444182	45444182	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcgcttcattgagaactaccGgcgccacatcggctgcgtgg	13	13	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:45444182G>T	uc001zus.1	+	25	3471	c.3125G>T	c.(3124-3126)CGG>CTG	p.R1042L	DUOX1_uc001zut.1_Missense_Mutation_p.R1042L|DUOX1_uc010bee.1_Missense_Mutation_p.R422L|DUOX1_uc001zuu.2_Missense_Mutation_p.R184L	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	1042	Cytoplasmic (Potential).|Interaction with TXNDC11 (By similarity).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		GAGAACTACCGGCGCCACATC	0.587													3	64	---	---	---	---	PASS	T	45444182	T	T	45444182	3	4	119	1	0	0	0	0	1	0	0	0	4800	1116	39	1	3215	1	DUOX1	15	45444182	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1294914	45444182	57087210	1010	44183										
SLC30A4	7782	broad.mit.edu	37	chr15	45779760	45779760	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctactgtatcccatatgattCgaaatgttgtaaaagccaca	6	9	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:45779760C>T	uc001zvj.2	-	6	1277	c.965G>A	c.(964-966)CGA>CAA	p.R322Q		NM_013309	NP_037441	O14863	ZNT4_HUMAN	solute carrier family 30 (zinc transporter),	322	Helical; (Potential).				regulation of sequestering of zinc ion|response to toxin	endosome membrane|integral to membrane|late endosome	zinc ion transmembrane transporter activity				0		Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.58e-16)|GBM - Glioblastoma multiforme(94;2.15e-06)		CCATATGATTCGAAATGTTGT	0.348													55	123	---	---	---	---	PASS	T	45779760	T	T	45779760	3	4	119	1	0	0	0	0	1	0	0	0	14557	884	31	2	336	2	SLC30A4	15	45779760	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	335578	45779760	56751632	1011	44184										
SLC12A1	6557	broad.mit.edu	37	chr15	48541786	48541786	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttacagcggaactgaacaccAttgctcccatcatctccaac	5	15	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:48541786A>G	uc001zwn.3	+	14	1915	c.1699A>G	c.(1699-1701)ATT>GTT	p.I567V	SLC12A1_uc010uew.1_Missense_Mutation_p.I373V|SLC12A1_uc010bem.2_Missense_Mutation_p.I567V|SLC12A1_uc001zwq.3_Missense_Mutation_p.I338V|SLC12A1_uc001zwr.3_Missense_Mutation_p.I294V	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	567	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	ACTGAACACCATTGCTCCCAT	0.433													29	104	---	---	---	---	PASS	G	48541786	G	G	48541786	3	3	119	1	0	0	0	0	1	0	0	0	14382	217	8	5	1849	5	SLC12A1	15	48541786	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	2762026	48541786	53989606	1012	44185										
SLC12A1	6557	broad.mit.edu	37	chr15	48591428	48591428	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agaaattaaaaagagaaactCcgtggaaaattacagatgca	8	5	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:48591428C>A	uc001zwn.3	+	25	3268	c.3052C>A	c.(3052-3054)CCG>ACG	p.P1018T	SLC12A1_uc001zwq.3_Missense_Mutation_p.P789T|SLC12A1_uc001zwr.3_Missense_Mutation_p.P745T	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	1018	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	AAGAGAAACTCCGTGGAAAAT	0.353													12	29	---	---	---	---	PASS	A	48591428	A	A	48591428	3	1	119	1	0	0	0	0	1	0	0	0	14382	855	30	2	3246	2	SLC12A1	15	48591428	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	49642	48591428	53939964	1013	44186										
TRPM7	54822	broad.mit.edu	37	chr15	50904981	50904981	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcatcaatgtctacaatttCatctttggttcttttcttct	3	9	8	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:50904981C>T	uc001zyt.3	-	16	2080	c.1816G>A	c.(1816-1818)GAA>AAA	p.E606K	TRPM7_uc010bew.1_Missense_Mutation_p.E606K|TRPM7_uc001zyu.2_Missense_Mutation_p.E164K	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	606	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		TCTACAATTTCATCTTTGGTT	0.358													25	183	---	---	---	---	PASS	T	50904981	T	T	50904981	3	4	119	1	0	0	0	0	1	0	0	0	16588	835	29	2	3877	2	TRPM7	15	50904981	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2313553	50904981	51626411	1014	44187										
CCPG1	9236	broad.mit.edu	37	chr15	55651990	55651990	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcttttaacatgtacctttGaattatctgtctaaattcat	3	7	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:55651990G>A	uc002acv.1	-	8	2146	c.1981C>T	c.(1981-1983)CAA>TAA	p.Q661*	CCPG1_uc002acy.2_Nonsense_Mutation_p.Q661*|CCPG1_uc002acu.1_Nonsense_Mutation_p.Q517*|CCPG1_uc002acw.1_Nonsense_Mutation_p.Q386*|CCPG1_uc002acx.2_Intron|CCPG1_uc010bfk.1_Nonsense_Mutation_p.Q661*|CCPG1_uc002acz.1_Nonsense_Mutation_p.Q661*	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2	661	Lumenal (Potential).				cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		ATGTACCTTTGAATTATCTGT	0.358													14	80	---	---	---	---	PASS	A	55651990	A	A	55651990	4	1	119	1	0	0	0	0	0	1	0	0	2938	1299	45	2	296	2	CCPG1	15	55651990	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4747009	55651990	46879402	1015	44188										
CCPG1	9236	broad.mit.edu	37	chr15	55669255	55669255	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacttcttgatttccaatttCttctaacttaggtggctcaa	5	9	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:55669255C>T	uc002acv.1	-	5	511	c.346G>A	c.(346-348)GAA>AAA	p.E116K	CCPG1_uc002acy.2_Missense_Mutation_p.E116K|DYX1C1_uc010ugh.1_RNA|CCPG1_uc002acw.1_5'UTR|CCPG1_uc002acx.2_Missense_Mutation_p.E116K|CCPG1_uc010bfk.1_Missense_Mutation_p.E116K|CCPG1_uc002acz.1_Missense_Mutation_p.E116K	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2	116	Cytoplasmic (Potential).|Interaction with MCF2L and SRC (By similarity).				cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		TTTCCAATTTCTTCTAACTTA	0.413													30	210	---	---	---	---	PASS	T	55669255	T	T	55669255	3	4	119	1	0	0	0	0	1	0	0	0	2938	922	32	2	1943	2	CCPG1	15	55669255	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	17265	55669255	46862137	1016	44189										
ALDH1A2	8854	broad.mit.edu	37	chr15	58247467	58247467	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcccgcaagccaaattctccCctgaaacacagaaatgggcc	7	15	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:58247467C>A	uc002aex.2	-	13	1543	c.1485G>T	c.(1483-1485)ATG>ATT	p.M495I	ALDH1A2_uc002aey.2_Missense_Mutation_p.M457I|ALDH1A2_uc010ugv.1_Missense_Mutation_p.M474I|ALDH1A2_uc010ugw.1_Missense_Mutation_p.M466I|ALDH1A2_uc002aew.2_Missense_Mutation_p.M399I	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	495					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	CAAATTCTCCCCTGAAACACA	0.537													43	152	---	---	---	---	PASS	A	58247467	A	A	58247467	3	1	119	1	0	0	0	0	1	0	0	0	491	637	22	3	75	3	ALDH1A2	15	58247467	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2578212	58247467	44283925	1017	44190										
ADAM10	102	broad.mit.edu	37	chr15	58925402	58925402	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agacaatacttactggggatCcaaagttatgtccaacttcg	8	9	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:58925402C>A	uc002afd.1	-	9	1613	c.1169G>T	c.(1168-1170)GGA>GTA	p.G390V	ADAM10_uc010bgc.1_RNA|ADAM10_uc010ugz.1_Missense_Mutation_p.G89V|ADAM10_uc002afe.1_Intron	NM_001110	NP_001101	O14672	ADA10_HUMAN	ADAM metallopeptidase domain 10 precursor	390	Peptidase M12B.|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)		TACTGGGGATCCAAAGTTATG	0.318													11	62	---	---	---	---	PASS	A	58925402	A	A	58925402	3	1	119	1	0	0	0	0	1	0	0	0	234	855	30	2	1109	2	ADAM10	15	58925402	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	677935	58925402	43605990	1018	44191										
MYO1E	4643	broad.mit.edu	37	chr15	59519720	59519720	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caccaccctagatttttccaGaaggaagttggagatctttc	8	10	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:59519720G>C	uc002aga.2	-	7	952	c.580C>G	c.(580-582)CTG>GTG	p.L194V		NM_004998	NP_004989	Q12965	MYO1E_HUMAN	myosin IE	194	Myosin head-like.				actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)		GATTTTTCCAGAAGGAAGTTG	0.443													52	120	---	---	---	---	PASS	C	59519720	C	C	59519720	3	2	119	1	0	0	0	0	1	0	0	0	10072	933	33	2	2834	2	MYO1E	15	59519720	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	594318	59519720	43011672	1019	44192										
GCNT3	9245	broad.mit.edu	37	chr15	59911741	59911741	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acgttataaggccatctatgGgactgaactttgagacacac	9	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:59911741G>A	uc002age.2	+	3	1753	c.1304G>A	c.(1303-1305)GGG>GAG	p.G435E	GCNT3_uc002agd.2_Missense_Mutation_p.G435E	NM_004751	NP_004742	O95395	GCNT3_HUMAN	glucosaminyl (N-acetyl) transferase 3, mucin	435	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|membrane fraction	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)	2						GCCATCTATGGGACTGAACTT	0.468													32	261	---	---	---	---	PASS	A	59911741	A	A	59911741	3	1	119	1	0	0	0	0	1	0	0	0	6302	1232	43	3	1306	3	GCNT3	15	59911741	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	392021	59911741	42619651	1020	44193										
TLN2	83660	broad.mit.edu	37	chr15	62993335	62993335	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatgggttcagaacaaagtcGacgaatccaaacacgaaatc	8	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:62993335G>A	uc002alb.3	+	14	1618	c.1618G>A	c.(1618-1620)GAC>AAC	p.D540N		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	540					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GAACAAAGTCGACGAATCCAA	0.512													10	108	---	---	---	---	PASS	A	62993335	A	A	62993335	3	1	119	1	0	0	0	0	1	0	0	0	15945	1058	37	2	1672	2	TLN2	15	62993335	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3081594	62993335	39538057	1021	44194										
CILP	8483	broad.mit.edu	37	chr15	65489732	65489732	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgggatcgcacattcacttcCagtggccccacaatcttcac	7	16	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:65489732C>T	uc002aon.2	-	9	3073	c.2892G>A	c.(2890-2892)CTG>CTA	p.L964L		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	964					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						CATTCACTTCCAGTGGCCCCA	0.552													22	103	---	---	---	---	PASS	T	65489732	T	T	65489732	2	4	119	1	0	0	0	0	0	0	0	1	3429	581	21	3		3	CILP	15	65489732	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2496397	65489732	37041660	1022	44195										
LRRC49	54839	broad.mit.edu	37	chr15	71188191	71188191	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttaataatgtttttcaggttGaattcaagctaaataaagac	6	4	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:71188191G>C	uc002asw.2	+	3	356	c.109G>C	c.(109-111)GAA>CAA	p.E37Q	LRRC49_uc002asu.2_Missense_Mutation_p.E27Q|LRRC49_uc002asx.2_5'UTR|LRRC49_uc010ukf.1_Missense_Mutation_p.E42Q|LRRC49_uc002asy.2_5'UTR|LRRC49_uc002asz.2_5'UTR	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	37						cytoplasm|microtubule				ovary(1)	1						TTTTCAGGTTGAATTCAAGCT	0.274													14	89	---	---	---	---	PASS	C	71188191	C	C	71188191	3	2	119	1	0	0	0	0	1	0	0	0	9006	1291	45	2	119	2	LRRC49	15	71188191	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5698459	71188191	31343201	1023	44196										
NEO1	4756	broad.mit.edu	37	chr15	73418810	73418810	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaacagccttctcccttagtCagagtcattggtcaggatgt	9	10	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:73418810C>G	uc002avm.3	+	4	919	c.777C>G	c.(775-777)GTC>GTG	p.V259V	NEO1_uc010ukx.1_Silent_p.V259V|NEO1_uc010uky.1_Silent_p.V259V|NEO1_uc010ukz.1_5'UTR	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	259	Extracellular (Potential).|Ig-like C2-type 3.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						CTCCCTTAGTCAGAGTCATTG	0.363													70	190	---	---	---	---	PASS	G	73418810	G	G	73418810	2	3	119	1	0	0	0	0	0	0	0	1	10336	813	29	2		2	NEO1	15	73418810	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2230619	73418810	29112582	1024	44197										
STOML1	9399	broad.mit.edu	37	chr15	74281457	74281457	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaagcccctcaccttgcaggGagggacgttgaaggctcgtg	15	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:74281457G>T	uc002awe.2	-	3	453	c.382C>A	c.(382-384)CCC>ACC	p.P128T	STOML1_uc002awf.2_Missense_Mutation_p.P128T|STOML1_uc010bje.2_Missense_Mutation_p.P128T|STOML1_uc010uld.1_Missense_Mutation_p.P86T|STOML1_uc002awh.2_Intron|STOML1_uc002awg.2_Intron|STOML1_uc002awi.2_Missense_Mutation_p.P41T	NM_004809	NP_004800	Q9UBI4	STML1_HUMAN	stomatin (EPB72)-like 1	128	Cytoplasmic (Potential).					integral to membrane	sterol binding			skin(1)	1						ACCTTGCAGGGAGGGACGTTG	0.597													6	87	---	---	---	---	PASS	T	74281457	T	T	74281457	3	4	119	1	0	0	0	0	1	0	0	0	15312	1174	41	2	834	2	STOML1	15	74281457	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	862647	74281457	28249935	1025	44198										
MAN2C1	4123	broad.mit.edu	37	chr15	75655061	75655061	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagctccgggcacatttcctCacagtctctttgaagggcca	9	14	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:75655061C>G	uc002baf.2	-	7	836	c.819G>C	c.(817-819)GTG>GTC	p.V273V	MAN2C1_uc002bag.2_Silent_p.V273V|MAN2C1_uc002bah.2_Silent_p.V273V|MAN2C1_uc010bkk.2_Intron|MAN2C1_uc010umi.1_Silent_p.V55V|MAN2C1_uc010umj.1_RNA	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	273					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						CACATTTCCTCACAGTCTCTT	0.622													10	60	---	---	---	---	PASS	G	75655061	G	G	75655061	2	3	119	1	0	0	0	0	0	0	0	1	9218	813	29	2		2	MAN2C1	15	75655061	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1373604	75655061	26876331	1026	44199										
DNAJA4	55466	broad.mit.edu	37	chr15	78563008	78563008	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggtggtggacggatggctaGagagagaagaggtaaatgct	18	3	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:78563008G>C	uc002bdj.1	+	2	419	c.302G>C	c.(301-303)AGA>ACA	p.R101T	DNAJA4_uc002bdi.2_Missense_Mutation_p.R130T|DNAJA4_uc002bdk.2_Missense_Mutation_p.R74T|DNAJA4_uc002bdl.2_Missense_Mutation_p.R16T	NM_001130182	NP_001123654	Q8WW22	DNJA4_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 4	101					protein folding|response to heat	membrane	ATP binding|heat shock protein binding|metal ion binding|unfolded protein binding			skin(1)	1						CGGATGGCTAGAGAGAGAAGA	0.428													38	112	---	---	---	---	PASS	C	78563008	C	C	78563008	3	2	119	1	0	0	0	0	1	0	0	0	4614	942	33	2	454	2	DNAJA4	15	78563008	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2907947	78563008	23968384	1027	44200										
CHRNB4	1143	broad.mit.edu	37	chr15	78921717	78921717	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcacacagacgctggtgacGatggagaaggtgaccagcac	14	10	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:78921717G>A	uc002bed.1	-	5	1042	c.930C>T	c.(928-930)ATC>ATT	p.I310I	CHRNB4_uc002bee.1_Intron|CHRNB4_uc010blh.1_Silent_p.I128I	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	310	Helical; (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						CGCTGGTGACGATGGAGAAGG	0.597													14	76	---	---	---	---	PASS	A	78921717	A	A	78921717	2	1	119	1	0	0	0	0	0	0	0	1	3393	1048	37	2		2	CHRNB4	15	78921717	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	358709	78921717	23609675	1028	44201										
KIAA1024	23251	broad.mit.edu	37	chr15	79749984	79749984	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctctggtcagggcaagtacAgtgacaggcacaccatgaag	12	11	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:79749984A>C	uc002bew.1	+	2	1570	c.1495A>C	c.(1495-1497)AGT>CGT	p.S499R	KIAA1024_uc010unk.1_Missense_Mutation_p.S499R	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	499						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						GGGCAAGTACAGTGACAGGCA	0.532													23	59	---	---	---	---	PASS	C	79749984	C	C	79749984	3	2	119	1	0	0	0	0	1	0	0	0	8205	188	7	5	1497	5	KIAA1024	15	79749984	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	828267	79749984	22781408	1029	44202										
FAH	2184	broad.mit.edu	37	chr15	80465390	80465390	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagtgggagtatgtccctctCgggccattccttgggaagag	14	9	1	1	rs145851627		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:80465390C>T	uc002bfj.2	+	10	823	c.741C>T	c.(739-741)CTC>CTT	p.L247L	FAH_uc002bfk.1_Silent_p.L247L|FAH_uc002bfm.1_Silent_p.L247L|FAH_uc002bfn.1_Silent_p.L177L	NM_000137	NP_000128	P16930	FAAA_HUMAN	fumarylacetoacetase	247					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	fumarylacetoacetase activity|metal ion binding				0						ATGTCCCTCTCGGGCCATTCC	0.572									Tyrosinemia_type_1		OREG0023354	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	44	192	---	---	---	---	PASS	T	80465390	T	T	80465390	2	4	119	1	0	0	0	0	0	0	0	1	5371	871	31	2		2	FAH	15	80465390	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	715406	80465390	22066002	1030	44203										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84651319	84651319	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgcccccgacatcggcgtgtAccggtgcattgcaggctctg	13	14	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:84651319A>T	uc002bjz.3	+	21	3163	c.2939A>T	c.(2938-2940)TAC>TTC	p.Y980F	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.Y980F|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.Y980F	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	980	Ig-like C2-type 1.					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)			ATCGGCGTGTACCGGTGCATT	0.572													18	105	---	---	---	---	PASS	T	84651319	T	T	84651319	3	4	119	1	0	0	0	0	1	0	0	0	276	391	14	5	3017	5	ADAMTSL3	15	84651319	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	4185929	84651319	17880073	1031	44204										
MRPL46	26589	broad.mit.edu	37	chr15	89010599	89010599	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taacagcgtccgccttacggGcgccgccatctttcgttctc	9	16	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr15:89010599G>C	uc002bmj.2	-	1	35	c.10C>G	c.(10-12)CCC>GCC	p.P4A	MRPL46_uc002bmi.1_5'Flank|MRPL46_uc002bmk.2_Missense_Mutation_p.P4A|MRPS11_uc002bmm.2_5'Flank|MRPS11_uc002bml.2_5'Flank|MRPS11_uc002bmn.2_5'Flank|MRPS11_uc010bnj.2_5'Flank	NM_022163	NP_071446	Q9H2W6	RM46_HUMAN	mitochondrial ribosomal protein L46 precursor	4						mitochondrion|ribosome	hydrolase activity			central_nervous_system(1)	1	Lung NSC(78;0.203)		BRCA - Breast invasive adenocarcinoma(143;0.188)			CGCCTTACGGGCGCCGCCATC	0.672													3	4	---	---	---	---	PASS	C	89010599	C	C	89010599	3	2	119	1	0	0	0	0	1	0	0	0	9810	1203	42	4	845	4	MRPL46	15	89010599	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4359280	89010599	13520793	1032	44205										
RHBDL1	9028	broad.mit.edu	37	chr16	726323	726323	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actcaggccttggctggcggCtcctcactgcagcagctgga	13	14	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:726323C>T	uc002cis.1	+	1	249	c.222C>T	c.(220-222)GGC>GGT	p.G74G	RHBDL1_uc002cir.1_Intron|RHBDL1_uc010uun.1_Intron	NM_003961	NP_003952	O75783	RHBL1_HUMAN	rhomboid protease 1	74					proteolysis|signal transduction	integral to plasma membrane|membrane fraction	calcium ion binding|serine-type endopeptidase activity				0		Hepatocellular(780;0.0218)				TGGCTGGCGGCTCCTCACTGC	0.672													6	6	---	---	---	---	PASS	T	726323	T	T	726323	2	4	119	1	0	0	0	0	0	0	0	1	13321	784	28	3		3	RHBDL1	16	726323	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08		726323	89628430	1033	44206										
SSTR5	6755	broad.mit.edu	37	chr16	1129885	1129885	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acggagccgcgtccagacagGatccggcagcagcaggaggc	16	13	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:1129885G>C	uc002ckq.2	+	1	1105	c.1017G>C	c.(1015-1017)AGG>AGC	p.R339S	LOC146336_uc002cko.2_5'Flank|LOC146336_uc002ckp.1_5'Flank	NM_001053	NP_001044	P35346	SSR5_HUMAN	somatostatin receptor 5	339	Cytoplasmic (Potential).				negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			lung(1)	1		Hepatocellular(780;0.00369)			Octreotide(DB00104)	GTCCAGACAGGATCCGGCAGC	0.677													3	20	---	---	---	---	PASS	C	1129885	C	C	1129885	3	2	119	1	0	0	0	0	1	0	0	0	15200	1165	41	2	1019	2	SSTR5	16	1129885	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	403562	1129885	89224868	1034	44207										
BAIAP3	8938	broad.mit.edu	37	chr16	1388632	1388632	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccgccgcaggactgagcagGacccagggagtgccagcgcc	15	15	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:1388632G>A	uc002clk.1	+	2	187	c.187G>A	c.(187-189)GAC>AAC	p.D63N	BAIAP3_uc002clj.2_Missense_Mutation_p.D28N|BAIAP3_uc010uuz.1_Missense_Mutation_p.D28N|BAIAP3_uc010uva.1_Missense_Mutation_p.D28N|BAIAP3_uc010uvb.1_Missense_Mutation_p.D63N|BAIAP3_uc010uvc.1_Missense_Mutation_p.D28N	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	63					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				GACTGAGCAGGACCCAGGGAG	0.697													3	12	---	---	---	---	PASS	A	1388632	A	A	1388632	3	1	119	1	0	0	0	0	1	0	0	0	1304	1174	41	2	193	2	BAIAP3	16	1388632	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	258747	1388632	88966121	1035	44208										
HS3ST6	64711	broad.mit.edu	37	chr16	1961753	1961753	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgccgccctgggccttcttGaggcaggggaagcccttggt	15	13	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:1961753G>C	uc002cnf.2	-	2	774	c.774C>G	c.(772-774)CTC>CTG	p.L258L		NM_001009606	NP_001009606	C9JH64	C9JH64_HUMAN	heparan sulfate (glucosamine)	258											0						GGGCCTTCTTGAGGCAGGGGA	0.701													14	35	---	---	---	---	PASS	C	1961753	C	C	1961753	2	2	119	1	0	0	0	0	0	0	0	1	7369	1277	45	2		2	HS3ST6	16	1961753	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	573121	1961753	88393000	1036	44209										
MEFV	4210	broad.mit.edu	37	chr16	3304210	3304210	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccttcaggtccgcagatgcCcctccatccggagtgggcct	11	16	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:3304210C>A	uc002cun.1	-	2	898	c.858G>T	c.(856-858)GGG>GGT	p.G286G		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	286					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)	CCGCAGATGCCCCTCCATCCG	0.418													42	222	---	---	---	---	PASS	A	3304210	A	A	3304210	2	1	119	1	0	0	0	0	0	0	0	1	9459	610	22	3		3	MEFV	16	3304210	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1342457	3304210	87050543	1037	44210										
VASN	114990	broad.mit.edu	37	chr16	4431739	4431739	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcgacctctcgggcctcttCccccgcctgcggctgctggc	13	19	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:4431739C>A	uc002cwj.1	+	2	1016	c.861C>A	c.(859-861)TTC>TTA	p.F287L	CORO7_uc002cwe.2_Intron|CORO7_uc002cwf.2_Intron|CORO7_uc002cwg.3_Intron|CORO7_uc002cwh.3_Intron|CORO7_uc010uxh.1_Intron|CORO7_uc010uxi.1_Intron|CORO7_uc002cwi.1_Intron|CORO7_uc010uxj.1_Intron|CORO7_uc010btp.1_Intron	NM_138440	NP_612449	Q6EMK4	VASN_HUMAN	slit-like 2 precursor	287	LRR 10.|Extracellular (Potential).					extracellular region|integral to membrane					0						CGGGCCTCTTCCCCCGCCTGC	0.706													5	35	---	---	---	---	PASS	A	4431739	A	A	4431739	3	1	119	1	0	0	0	0	1	0	0	0	17124	854	30	2	863	2	VASN	16	4431739	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1127529	4431739	85923014	1038	44211										
ZNF500	26048	broad.mit.edu	37	chr16	4802659	4802659	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagctctggctgaagcgcttCccacactcggggcacgggta	14	13	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:4802659C>G	uc002cxp.1	-	6	1408	c.1161G>C	c.(1159-1161)GGG>GGC	p.G387G	ZNF500_uc002cxo.1_Silent_p.G179G|ZNF500_uc010uxt.1_Silent_p.G387G	NM_021646	NP_067678	O60304	ZN500_HUMAN	zinc finger protein 500	387	C2H2-type 3.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						TGAAGCGCTTCCCACACTCGG	0.637													4	26	---	---	---	---	PASS	G	4802659	G	G	4802659	2	3	119	1	0	0	0	0	0	0	0	1	17945	842	30	2		2	ZNF500	16	4802659	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	370920	4802659	85552094	1039	44212										
SEC14L5	9717	broad.mit.edu	37	chr16	5061152	5061152	+	Frame_Shift_Del	DEL	C	-	-													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctccagtggcaaatgcacagCccccccagcagcgtggcctg							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:5061152delC	uc002cye.2	+	15	2037	c.1857delC	c.(1855-1857)AGCfs	p.S619fs		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	619	GOLD.					integral to membrane|intracellular	transporter activity				0						AAATGCACAGCCCCCCCAGCA	0.662													18	9	---	---	---	---		-	5061152	-	-	5061152	7	5	119	1	0	1	0	1	0	0	0	0	13985	738	26	0	1911	0	SEC14L5	16	5061152	Frame_Shift_Del	DEL	C	TCGA-60-2698-01A-01D-1522-08	258493	5061152	85293601	1040	44213										
TXNDC11	51061	broad.mit.edu	37	chr16	11785193	11785193	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttggatccaagatgtaatgaGattcttctttcacgtcaaca	7	8	4	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:11785193G>C	uc010buu.1	-	9	1996	c.1934C>G	c.(1933-1935)TCT>TGT	p.S645C	TXNDC11_uc002dbg.1_Missense_Mutation_p.S618C	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	645					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						GATGTAATGAGATTCTTCTTT	0.423													4	234	---	---	---	---	PASS	C	11785193	C	C	11785193	3	2	119	1	0	0	0	0	1	0	0	0	16789	942	33	2	1043	2	TXNDC11	16	11785193	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6724041	11785193	78569560	1041	44214										
SMG1	23049	broad.mit.edu	37	chr16	18840913	18840913	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagtgtgagtccgagggcttGgttgggtagccctatcaaga	15	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:18840913G>A	uc002dfm.2	-	54	9661	c.9298C>T	c.(9298-9300)CAA>TAA	p.Q3100*	SMG1_uc010bwb.2_Nonsense_Mutation_p.Q2960*|SMG1_uc010bwa.2_Nonsense_Mutation_p.Q1831*	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	3100					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						CCGAGGGCTTGGTTGGGTAGC	0.468													29	61	---	---	---	---	PASS	A	18840913	A	A	18840913	4	1	119	1	0	0	0	0	0	1	0	0	14795	1357	47	3	1727	3	SMG1	16	18840913	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	7055720	18840913	71513840	1042	44215										
GP2	2813	broad.mit.edu	37	chr16	20331610	20331610	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aatgttcctgcaggcactagCctggacggggctggtcacag	14	11	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:20331610C>G	uc002dgv.2	-	6	924	c.841G>C	c.(841-843)GCT>CCT	p.A281P	GP2_uc002dgw.2_Missense_Mutation_p.A278P|GP2_uc002dgx.2_Missense_Mutation_p.A134P|GP2_uc002dgy.2_Missense_Mutation_p.A131P	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	281	ZP.					anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						CAGGCACTAGCCTGGACGGGG	0.517													6	175	---	---	---	---	PASS	G	20331610	G	G	20331610	3	3	119	1	0	0	0	0	1	0	0	0	6582	739	26	4	800	4	GP2	16	20331610	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1490697	20331610	70023143	1043	44216										
PDILT	204474	broad.mit.edu	37	chr16	20395985	20395985	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acctttgcagctgatgggctCtgacctgttgccctcaaaaa	9	12	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:20395985C>G	uc002dhc.1	-	3	614	c.391G>C	c.(391-393)GAG>CAG	p.E131Q		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	131					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						CTGATGGGCTCTGACCTGTTG	0.353													43	272	---	---	---	---	PASS	G	20395985	G	G	20395985	3	3	119	1	0	0	0	0	1	0	0	0	11674	922	32	2	1403	2	PDILT	16	20395985	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	64375	20395985	69958768	1044	44217										
VWA3A	146177	broad.mit.edu	37	chr16	22134981	22134981	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatgagaggcggattgagtgGctctccctggccagcagaag	15	9	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:22134981G>C	uc010vbq.1	+	16	1581	c.1485G>C	c.(1483-1485)TGG>TGC	p.W495C	VWA3A_uc010bxd.2_RNA|VWA3A_uc010bxc.2_Missense_Mutation_p.W503C	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	495						extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		GGATTGAGTGGCTCTCCCTGG	0.537													7	159	---	---	---	---	PASS	C	22134981	C	C	22134981	3	2	119	1	0	0	0	0	1	0	0	0	17237	1212	42	4	1547	4	VWA3A	16	22134981	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1738996	22134981	68219772	1045	44218										
CHP2	63928	broad.mit.edu	37	chr16	23766387	23766387	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggccatggggtcgcgcagctCccacgccgcggtcattcccg	14	17	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:23766387C>A	uc002dmb.1	+	1	440	c.17C>A	c.(16-18)TCC>TAC	p.S6Y		NM_022097	NP_071380	O43745	CHP2_HUMAN	hepatocellular carcinoma antigen gene 520	6							calcium ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(48;0.0144)		TCGCGCAGCTCCCACGCCGCG	0.751													5	31	---	---	---	---	PASS	A	23766387	A	A	23766387	3	1	119	1	0	0	0	0	1	0	0	0	3367	855	30	2	19	2	CHP2	16	23766387	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1631406	23766387	66588366	1046	44219										
PRKCB	5579	broad.mit.edu	37	chr16	24105581	24105581	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcatgggatctttgtcctttGggatttctgaacttcagaaa	9	7	4	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:24105581G>C	uc002dmd.2	+	7	981	c.784G>C	c.(784-786)GGG>CGG	p.G262R	PRKCB_uc002dme.2_Missense_Mutation_p.G262R	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	262					apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding	p.G262V(1)		ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	TTTGTCCTTTGGGATTTCTGA	0.448													25	266	---	---	---	---	PASS	C	24105581	C	C	24105581	3	2	119	1	0	0	0	0	1	0	0	0	12508	1348	47	4	810	4	PRKCB	16	24105581	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	339194	24105581	66249172	1047	44220										
JMJD5	79831	broad.mit.edu	37	chr16	27221549	27221549	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtaaagaagacctgaagttGgacctcggggagaaagtgga	15	5	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:27221549G>T	uc002doh.2	+	2	287	c.105G>T	c.(103-105)TTG>TTT	p.L35F	JMJD5_uc010bxv.2_Missense_Mutation_p.L35F|JMJD5_uc010vcn.1_Missense_Mutation_p.L73F|JMJD5_uc010bxw.2_Missense_Mutation_p.L35F	NM_024773	NP_079049	Q8N371	KDM8_HUMAN	jumonji domain containing 5 isoform 2	35					G2/M transition of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|histone demethylase activity (H3-K36 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(2)|upper_aerodigestive_tract(1)	3						ACCTGAAGTTGGACCTCGGGG	0.617													34	77	---	---	---	---	PASS	T	27221549	T	T	27221549	3	4	119	1	0	0	0	0	1	0	0	0	7952	1339	47	3	225	3	JMJD5	16	27221549	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3115968	27221549	63133204	1048	44221										
MAZ	4150	broad.mit.edu	37	chr16	29819011	29819011	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccgacacaagctgtcgcactCggacgagaagccctaccagt	10	15	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:29819011C>T	uc002dty.2	+	2	1073	c.905C>T	c.(904-906)TCG>TTG	p.S302L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAZ_uc002dtv.1_Intron|MAZ_uc010vdx.1_Missense_Mutation_p.S279L|MAZ_uc002dtw.2_Intron|MAZ_uc002dtx.2_Missense_Mutation_p.S302L|MAZ_uc010bzg.2_Intron|MAZ_uc002dtz.1_Missense_Mutation_p.S20L|MAZ_uc002dua.2_5'Flank|MAZ_uc010vdy.1_5'Flank	NM_002383	NP_002374	P56270	MAZ_HUMAN	MYC-associated zinc finger protein isoform 1	302					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						CTGTCGCACTCGGACGAGAAG	0.632													26	139	---	---	---	---	PASS	T	29819011	T	T	29819011	3	4	119	1	0	0	0	0	1	0	0	0	9340	893	31	2	911	2	MAZ	16	29819011	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2597462	29819011	60535742	1049	44222										
ZNF768	79724	broad.mit.edu	37	chr16	30536455	30536455	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctggccagagtgagtgcgctGgtggcgaagcaggtaagagc	18	8	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:30536455G>T	uc002dyk.3	-	2	1182	c.1006C>A	c.(1006-1008)CAG>AAG	p.Q336K	ZNF768_uc010vex.1_Missense_Mutation_p.Q305K|uc002dyl.1_5'Flank|ZNF768_uc010vew.1_Missense_Mutation_p.Q305K	NM_024671	NP_078947	Q9H5H4	ZN768_HUMAN	zinc finger protein 768	336	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	DNA binding|zinc ion binding				0						TGAGTGCGCTGGTGGCGAAGC	0.627													13	48	---	---	---	---	PASS	T	30536455	T	T	30536455	3	4	119	1	0	0	0	0	1	0	0	0	18138	1357	47	3	620	3	ZNF768	16	30536455	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	717444	30536455	59818298	1050	44223										
ORAI3	93129	broad.mit.edu	37	chr16	30964632	30964632	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cactcatggtctccacgtgtCtgctgccccacattgaagct	8	15	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:30964632C>A	uc002eac.2	+	2	561	c.355C>A	c.(355-357)CTG>ATG	p.L119M		NM_152288	NP_689501	Q9BRQ5	ORAI3_HUMAN	ORAI calcium release-activated calcium modulator	119						integral to membrane	protein binding				0						CTCCACGTGTCTGCTGCCCCA	0.612											OREG0023742	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	178	---	---	---	---	PASS	A	30964632	A	A	30964632	3	1	119	1	0	0	0	0	1	0	0	0	11259	912	32	2	361	2	ORAI3	16	30964632	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	428177	30964632	59390121	1051	44224										
ITGAX	3687	broad.mit.edu	37	chr16	31374072	31374072	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggccgaagtcacggggactCaggttgggcgtgacaggagc	18	9	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:31374072C>T	uc002ebu.1	+	12	1424	c.1357C>T	c.(1357-1359)CAG>TAG	p.Q453*	ITGAX_uc002ebt.2_Nonsense_Mutation_p.Q453*|ITGAX_uc010vfk.1_Nonsense_Mutation_p.Q103*	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	453	FG-GAP 5.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CACGGGGACTCAGGTTGGGCG	0.662													6	54	---	---	---	---	PASS	T	31374072	T	T	31374072	4	4	119	1	0	0	0	0	0	1	0	0	7889	827	29	2	1403	2	ITGAX	16	31374072	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	409440	31374072	58980681	1052	44225										
TGFB1I1	7041	broad.mit.edu	37	chr16	31487877	31487877	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttgcggggagcccttcggaGatgagggtgagagtgaactc	18	7	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:31487877G>C	uc002ecd.1	+	9	990	c.964G>C	c.(964-966)GAT>CAT	p.D322H	TGFB1I1_uc002ece.1_Missense_Mutation_p.D305H|TGFB1I1_uc010caq.1_Missense_Mutation_p.D161H	NM_001042454	NP_001035919	O43294	TGFI1_HUMAN	transforming growth factor beta 1 induced	322	LIM zinc-binding 2.				androgen receptor signaling pathway|cell adhesion|negative regulation of cell proliferation|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|transcription from RNA polymerase II promoter|ubiquitin-dependent SMAD protein catabolic process|Wnt receptor signaling pathway	cytoplasm|cytoskeleton|focal adhesion|nuclear matrix	androgen receptor binding|I-SMAD binding|Roundabout binding|transcription coactivator activity|zinc ion binding				0						GCCCTTCGGAGATGAGGGTGA	0.632													5	18	---	---	---	---	PASS	C	31487877	C	C	31487877	3	2	119	1	0	0	0	0	1	0	0	0	15814	942	33	2	998	2	TGFB1I1	16	31487877	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	113805	31487877	58866876	1053	44226										
VPS35	55737	broad.mit.edu	37	chr16	46697018	46697018	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgctttgatcaaagcactGatagtctggtgggcaaatga	11	7	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:46697018G>A	uc002eef.3	-	14	1803	c.1704C>T	c.(1702-1704)ATC>ATT	p.I568I	VPS35_uc002eed.2_Silent_p.I389I|VPS35_uc002eee.2_Silent_p.I529I	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	568					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				TCAAAGCACTGATAGTCTGGT	0.363													57	57	---	---	---	---	PASS	A	46697018	A	A	46697018	2	1	119	1	0	0	0	0	0	0	0	1	17200	1280	45	2		2	VPS35	16	46697018	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	15209141	46697018	43657735	1054	44227										
SIAH1	6477	broad.mit.edu	37	chr16	48395889	48395889	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggttgtaatggacttatgctGatgcatcagatggggcatta	13	5	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:48395889G>C	uc002efo.1	-	2	568	c.451C>G	c.(451-453)CAG>GAG	p.Q151E	uc002efk.1_RNA|SIAH1_uc002efl.2_RNA|SIAH1_uc002efn.1_Missense_Mutation_p.Q182E	NM_003031	NP_003022	Q8IUQ4	SIAH1_HUMAN	seven in absentia homolog 1 isoform a	151	SIAH-type.|SBD.			Q->A: In E; does not impair its ability to interact with CACYBP and degrade CTNNB1; when associated with A-142.	axon guidance|cell cycle|neuron apoptosis|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	beta-catenin destruction complex|cytosol|nucleus	protein C-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		all_cancers(37;0.157)|all_lung(18;0.11)|Breast(268;0.238)				GACTTATGCTGATGCATCAGA	0.478													6	109	---	---	---	---	PASS	C	48395889	C	C	48395889	3	2	119	1	0	0	0	0	1	0	0	0	14299	1299	45	2	401	2	SIAH1	16	48395889	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1698871	48395889	41958864	1055	44228										
ZNF423	23090	broad.mit.edu	37	chr16	49557553	49557553	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acctgcagctcggtctggaaGaagaacttctgagggcactg	13	10	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:49557553G>T	uc002efs.2	-	8	4105	c.3807C>A	c.(3805-3807)TTC>TTA	p.F1269L	ZNF423_uc010vgn.1_Missense_Mutation_p.F1152L	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	1269	C2H2-type 30.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				CGGTCTGGAAGAAGAACTTCT	0.602													5	63	---	---	---	---	PASS	T	49557553	T	T	49557553	3	4	119	1	0	0	0	0	1	0	0	0	17895	933	33	2	55	2	ZNF423	16	49557553	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1161664	49557553	40797200	1056	44229										
ADCY7	113	broad.mit.edu	37	chr16	50342626	50342626	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcactatctctgagagggtgGagacacagcccctgctgagg	14	11	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:50342626G>A	uc002egd.1	+	16	2252	c.1984G>A	c.(1984-1986)GAG>AAG	p.E662K	ADCY7_uc002egc.1_Missense_Mutation_p.E662K	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	662					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	TGAGAGGGTGGAGACACAGCC	0.647													4	99	---	---	---	---	PASS	A	50342626	A	A	50342626	3	1	119	1	0	0	0	0	1	0	0	0	299	1175	41	2	2046	2	ADCY7	16	50342626	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	785073	50342626	40012127	1057	44230										
GPR56	9289	broad.mit.edu	37	chr16	57685308	57685308	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttccctgaccccaggggcctCtaccacttctgcctctactg	7	18	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:57685308C>G	uc002emb.2	+	4	553	c.261C>G	c.(259-261)CTC>CTG	p.L87L	GPR56_uc002elz.1_Intron|GPR56_uc002ema.1_5'UTR|GPR56_uc002emc.2_Silent_p.L87L|GPR56_uc002emf.2_Silent_p.L87L|GPR56_uc010vhs.1_Silent_p.L87L|GPR56_uc002emd.2_Silent_p.L87L|GPR56_uc002eme.2_Silent_p.L87L|GPR56_uc010vht.1_Silent_p.L92L|GPR56_uc002emg.3_Silent_p.L87L|GPR56_uc010vhu.1_5'UTR	NM_005682	NP_005673	Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56 isoform a	87	Extracellular (Potential).				brain development|cell adhesion|cell-cell signaling|neuropeptide signaling pathway	integral to plasma membrane	G-protein coupled receptor activity				0						CCAGGGGCCTCTACCACTTCT	0.572													5	181	---	---	---	---	PASS	G	57685308	G	G	57685308	2	3	119	1	0	0	0	0	0	0	0	1	6700	900	32	2		2	GPR56	16	57685308	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	7342682	57685308	32669445	1058	44231										
CNGB1	1258	broad.mit.edu	37	chr16	57998082	57998082	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggcccggagggatatggtgGaagtaagggcagcctccttg	18	8	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:57998082G>T	uc002emt.2	-	4	307	c.242C>A	c.(241-243)TCC>TAC	p.S81Y	CNGB1_uc010cdh.2_Missense_Mutation_p.S81Y|CNGB1_uc002emu.2_Missense_Mutation_p.S81Y	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	81					sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						GGATATGGTGGAAGTAAGGGC	0.562													11	74	---	---	---	---	PASS	T	57998082	T	T	57998082	3	4	119	1	0	0	0	0	1	0	0	0	3600	1174	41	2	3663	2	CNGB1	16	57998082	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	312774	57998082	32356671	1059	44232										
CCDC113	29070	broad.mit.edu	37	chr16	58287906	58287906	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttctcttgggttgcagtttcGaggcaggcgtagatccaaat	12	8	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:58287906G>A	uc002ene.2	+	3	312	c.233G>A	c.(232-234)CGA>CAA	p.R78Q	CCDC113_uc010vid.1_Intron	NM_014157	NP_054876	Q9H0I3	CC113_HUMAN	coiled-coil domain containing 113 isoform 1	78						protein complex					0						TTGCAGTTTCGAGGCAGGCGT	0.498													10	125	---	---	---	---	PASS	A	58287906	A	A	58287906	3	1	119	1	0	0	0	0	1	0	0	0	2750	1058	37	2	243	2	CCDC113	16	58287906	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	289824	58287906	32066847	1060	44233										
LRRC29	26231	broad.mit.edu	37	chr16	67241837	67241837	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagccttggccaggagctggCtgcctgggcccagcccttgt	14	15	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:67241837C>T	uc002esd.2	-	3	1339	c.442G>A	c.(442-444)GCC>ACC	p.A148T	LRRC29_uc002ese.2_Missense_Mutation_p.A148T|LRRC29_uc002esf.2_Missense_Mutation_p.A148T|LRRC29_uc002esg.2_Missense_Mutation_p.A148T	NM_012163	NP_036295	Q8WV35	LRC29_HUMAN	F-box and leucine-rich repeat protein 9	148	F-box.|LRR 5.										0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		CAGGAGCTGGCTGCCTGGGCC	0.617													16	75	---	---	---	---	PASS	T	67241837	T	T	67241837	3	4	119	1	0	0	0	0	1	0	0	0	8983	797	28	3	237	3	LRRC29	16	67241837	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	8953931	67241837	23112916	1061	44234										
FAM65A	79567	broad.mit.edu	37	chr16	67578699	67578699	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcagtatgcgagttcagcagGcggtgggagatcccggccag	17	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:67578699G>T	uc010vjp.1	+	16	2991	c.2895G>T	c.(2893-2895)AGG>AGT	p.R965S	FAM65A_uc002eth.2_Missense_Mutation_p.R945S|FAM65A_uc010cej.2_Missense_Mutation_p.R948S|FAM65A_uc010vjq.1_Missense_Mutation_p.R959S|FAM65A_uc002etk.2_Missense_Mutation_p.R943S	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	949						cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		AGTTCAGCAGGCGGTGGGAGA	0.652													12	150	---	---	---	---	PASS	T	67578699	T	T	67578699	3	4	119	1	0	0	0	0	1	0	0	0	5599	1194	42	3	2893	3	FAM65A	16	67578699	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	336862	67578699	22776054	1062	44235										
CTCF	10664	broad.mit.edu	37	chr16	67671757	67671757	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcacgcccgagatgatcctCagcatgatggaccggtgatg	12	12	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:67671757C>G	uc002etl.2	+	12	2456	c.2166C>G	c.(2164-2166)CTC>CTG	p.L722L	CTCF_uc010cek.2_Silent_p.L394L|CTCF_uc002etm.1_Silent_p.L209L	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor	722					chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)		AGATGATCCTCAGCATGATGG	0.572													8	57	---	---	---	---	PASS	G	67671757	G	G	67671757	2	3	119	1	0	0	0	0	0	0	0	1	4000	813	29	2		2	CTCF	16	67671757	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	93058	67671757	22682996	1063	44236										
PRMT7	54496	broad.mit.edu	37	chr16	68373336	68373336	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccacgtgcagaccagcctcGgagagcaggtcatcgtccct	11	15	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:68373336G>A	uc002evy.1	+	8	892	c.616G>A	c.(616-618)GGA>AGA	p.G206R	PRMT7_uc002evx.1_Missense_Mutation_p.G206R|PRMT7_uc010vlg.1_Missense_Mutation_p.G156R|PRMT7_uc002evz.1_Missense_Mutation_p.G52R	NM_019023	NP_061896	Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	206					cell differentiation|DNA methylation involved in gamete generation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	[myelin basic protein]-arginine N-methyltransferase activity|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N monomethyltransferase activity|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		GACCAGCCTCGGAGAGCAGGT	0.612													73	82	---	---	---	---	PASS	A	68373336	A	A	68373336	3	1	119	1	0	0	0	0	1	0	0	0	12541	1117	39	1	638	1	PRMT7	16	68373336	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	701579	68373336	21981417	1064	44237										
CHTF8	54921	broad.mit.edu	37	chr16	69154385	69154385	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggcgggttttgaaaaggatCttgtctttgatgagtgctgt	15	4	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:69154385C>G	uc002ewn.1	-	4	410	c.309G>C	c.(307-309)AAG>AAC	p.K103N	CHTF8_uc002ewm.1_5'UTR|CHTF8_uc002ewo.1_Missense_Mutation_p.K84N|CHTF8_uc002ewp.1_Missense_Mutation_p.K103N	NM_001040146	NP_001035236	P0CG13	CTF8_HUMAN	chromosome transmission fidelity factor 8	103					cell cycle|DNA replication	nucleus	DNA binding				0						TGAAAAGGATCTTGTCTTTGA	0.532													5	110	---	---	---	---	PASS	G	69154385	G	G	69154385	3	3	119	1	0	0	0	0	1	0	0	0	3415	912	32	2	60	2	CHTF8	16	69154385	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	781049	69154385	21200368	1065	44238										
NFAT5	10725	broad.mit.edu	37	chr16	69704161	69704161	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaaaactcttggaagtcagaAgctgaaattgatatggaact	10	5	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:69704161A>T	uc002exm.1	+	8	2681	c.1473A>T	c.(1471-1473)GAA>GAT	p.E491D	NFAT5_uc002exh.1_Missense_Mutation_p.E285D|NFAT5_uc002exi.2_Missense_Mutation_p.E415D|NFAT5_uc002exj.1_Missense_Mutation_p.E415D|NFAT5_uc002exk.1_Missense_Mutation_p.E415D|NFAT5_uc002exl.1_Missense_Mutation_p.E509D|NFAT5_uc002exn.1_Missense_Mutation_p.E509D	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	491					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GGAAGTCAGAAGCTGAAATTG	0.249													4	74	---	---	---	---	PASS	T	69704161	T	T	69704161	3	4	119	1	0	0	0	0	1	0	0	0	10360	69	3	5	1561	5	NFAT5	16	69704161	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	549776	69704161	20650592	1066	44239										
VAC14	55697	broad.mit.edu	37	chr16	70818111	70818111	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caggtcaaacttgttgctctCagtcacaatgtcctgtggat	9	10	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:70818111C>G	uc002ezm.2	-	5	757	c.499G>C	c.(499-501)GAG>CAG	p.E167Q	VAC14_uc010cfw.2_5'UTR|VAC14_uc002ezn.2_Intron	NM_018052	NP_060522	Q08AM6	VAC14_HUMAN	Vac14 homolog	167					interspecies interaction between organisms	endoplasmic reticulum|endosome membrane|microsome	protein binding|receptor activity			pancreas(1)|skin(1)	2		Ovarian(137;0.0699)				TTGTTGCTCTCAGTCACAATG	0.557													30	31	---	---	---	---	PASS	G	70818111	G	G	70818111	3	3	119	1	0	0	0	0	1	0	0	0	17108	835	29	2	1909	2	VAC14	16	70818111	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1113950	70818111	19536642	1067	44240										
FTSJD1	55783	broad.mit.edu	37	chr16	71317774	71317774	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	accaacacatagcaggactgCgcaggtcctcaggggatcag	12	12	2	0	rs148258352	byFrequency	TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:71317774C>T	uc010cga.2	-	3	2456	c.2050G>A	c.(2050-2052)GCA>ACA	p.A684T	FTSJD1_uc002ezy.3_Missense_Mutation_p.A684T|FTSJD1_uc002ezz.3_Missense_Mutation_p.A684T	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	684						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						AGCAGGACTGCGCAGGTCCTC	0.433													8	184	---	---	---	---	PASS	T	71317774	T	T	71317774	3	4	119	1	0	0	0	0	1	0	0	0	6090	768	27	1	266	1	FTSJD1	16	71317774	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	499663	71317774	19036979	1068	44241										
ZNF19	7567	broad.mit.edu	37	chr16	71509875	71509875	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taaaggcttttccacactcaCtacactcaaaaggtttctcc	4	13	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:71509875C>G	uc010cgc.1	-	6	1081	c.575G>C	c.(574-576)AGT>ACT	p.S192T	ZNF23_uc002fai.2_Intron|ZNF19_uc002fak.1_Missense_Mutation_p.S180T|ZNF19_uc002fal.1_Missense_Mutation_p.S180T|ZNF19_uc002fam.1_Missense_Mutation_p.S192T	NM_006961	NP_008892	P17023	ZNF19_HUMAN	zinc finger protein 19	192	C2H2-type 2.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(137;0.00965)		BRCA - Breast invasive adenocarcinoma(221;0.0161)|Kidney(780;0.0598)		TCCACACTCACTACACTCAAA	0.458													4	139	---	---	---	---	PASS	G	71509875	G	G	71509875	3	3	119	1	0	0	0	0	1	0	0	0	17752	565	20	4	805	4	ZNF19	16	71509875	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	192101	71509875	18844878	1069	44242										
MARVELD3	91862	broad.mit.edu	37	chr16	71663343	71663343	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggtggaatattaccagtcaGaggcggaaggactcctggaa	14	7	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:71663343G>C	uc002fat.2	+	2	604	c.541G>C	c.(541-543)GAG>CAG	p.E181Q	MARVELD3_uc002fas.1_Missense_Mutation_p.E181Q|MARVELD3_uc002fau.2_Missense_Mutation_p.E181Q|MARVELD3_uc010cge.2_Missense_Mutation_p.Q126H	NM_052858	NP_443090	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 2	181	Cytoplasmic (Potential).					integral to membrane				skin(1)	1		Ovarian(137;0.125)				TTACCAGTCAGAGGCGGAAGG	0.507													6	141	---	---	---	---	PASS	C	71663343	C	C	71663343	3	2	119	1	0	0	0	0	1	0	0	0	9319	943	33	2	547	2	MARVELD3	16	71663343	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	153468	71663343	18691410	1070	44243										
MARVELD3	91862	broad.mit.edu	37	chr16	71668506	71668506	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgctgcctatggctctcctGtgtgtaaagagaggcaggcg	14	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:71668506G>T	uc002fat.2	+	3	1069	c.1006G>T	c.(1006-1008)GTG>TTG	p.V336L	MARVELD3_uc002fau.2_Intron|MARVELD3_uc010cge.2_Intron	NM_052858	NP_443090	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 2	336	MARVEL.|Extracellular (Potential).					integral to membrane				skin(1)	1		Ovarian(137;0.125)				TGGCTCTCCTGTGTGTAAAGA	0.557													5	67	---	---	---	---	PASS	T	71668506	T	T	71668506	3	4	119	1	0	0	0	0	1	0	0	0	9319	1377	48	3	1016	3	MARVELD3	16	71668506	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5163	71668506	18686247	1071	44244										
MARVELD3	91862	broad.mit.edu	37	chr16	71674663	71674663	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acaggcattggtgtttacctCcacgtggctctgcagatcaa	10	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:71674663C>G	uc002fau.2	+	3	1029	c.966C>G	c.(964-966)CTC>CTG	p.L322L	PHLPP2_uc002fav.2_RNA|MARVELD3_uc010cge.2_3'UTR	NM_001017967	NP_001017967	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane				skin(1)	1		Ovarian(137;0.125)				GTGTTTACCTCCACGTGGCTC	0.577													41	55	---	---	---	---	PASS	G	71674663	G	G	71674663	2	3	119	1	0	0	0	0	0	0	0	1	9319	842	30	2		2	MARVELD3	16	71674663	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	6157	71674663	18680090	1072	44245										
PHLPP2	23035	broad.mit.edu	37	chr16	71748541	71748541	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggaagaggaggaggaggaaGaggaagaggaggtggtggtg	24	0	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:71748541G>A	uc002fax.2	-	1	164	c.158C>T	c.(157-159)TCT>TTT	p.S53F	PHLPP2_uc010cgf.2_Missense_Mutation_p.S53F|PHLPP2_uc002fay.1_Missense_Mutation_p.S53F	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	53	Poly-Ser.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						ggaggaggaagaggaagagga	0.373													5	66	---	---	---	---	PASS	A	71748541	A	A	71748541	3	1	119	1	0	0	0	0	1	0	0	0	11855	942	33	2	3885	2	PHLPP2	16	71748541	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	73878	71748541	18606212	1073	44246										
PMFBP1	83449	broad.mit.edu	37	chr16	72158677	72158677	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catgcccacctccttatcgtCctcaaggaggttctctttta	6	14	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:72158677C>A	uc002fcc.3	-	17	2765	c.2593G>T	c.(2593-2595)GAC>TAC	p.D865Y	PMFBP1_uc002fcd.2_Missense_Mutation_p.D860Y|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.D715Y|PMFBP1_uc010cgo.1_Missense_Mutation_p.D156Y	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	865	Potential.									ovary(2)	2		Ovarian(137;0.179)				TCCTTATCGTCCTCAAGGAGG	0.572											OREG0023927	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	109	132	---	---	---	---	PASS	A	72158677	A	A	72158677	3	1	119	1	0	0	0	0	1	0	0	0	12134	855	30	2	525	2	PMFBP1	16	72158677	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	410136	72158677	18196076	1074	44247										
CHST5	23563	broad.mit.edu	37	chr16	75563946	75563946	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcgcatcaggtcgcgcacggCcatgtgcagcgttgccgcgc	15	15	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:75563946C>T	uc002fei.2	-	3	1732	c.337G>A	c.(337-339)GCC>ACC	p.A113T	CHST5_uc002fej.1_Missense_Mutation_p.A119T	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	113	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						TCGCGCACGGCCATGTGCAGC	0.607													57	51	---	---	---	---	PASS	T	75563946	T	T	75563946	3	4	119	1	0	0	0	0	1	0	0	0	3407	739	26	3	902	3	CHST5	16	75563946	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3405269	75563946	14790807	1075	44248										
CNTNAP4	85445	broad.mit.edu	37	chr16	76528891	76528891	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcgcctgatcttcaaaaatGtacttgtggattagagggaa	10	6	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:76528891G>A	uc002feu.1	+	16	2550	c.2165G>A	c.(2164-2166)TGT>TAT	p.C722Y	CNTNAP4_uc002fev.1_Missense_Mutation_p.C586Y|CNTNAP4_uc010chb.1_Missense_Mutation_p.C649Y|CNTNAP4_uc002fex.1_Missense_Mutation_p.C725Y|CNTNAP4_uc002few.2_Missense_Mutation_p.C697Y	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	722	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						CTTCAAAAATGTACTTGTGGA	0.418													16	280	---	---	---	---	PASS	A	76528891	A	A	76528891	3	1	119	1	0	0	0	0	1	0	0	0	3649	1377	48	3	2232	3	CNTNAP4	16	76528891	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	964945	76528891	13825862	1076	44249										
CDYL2	124359	broad.mit.edu	37	chr16	80666953	80666953	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgttatccgaggtctgactgGacagcaggatgtgcgtgaac	14	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:80666953G>C	uc002ffs.2	-	3	902	c.797C>G	c.(796-798)TCC>TGC	p.S266C		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	266						nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						GGTCTGACTGGACAGCAGGAT	0.552													78	102	---	---	---	---	PASS	C	80666953	C	C	80666953	3	2	119	1	0	0	0	0	1	0	0	0	3186	1174	41	2	743	2	CDYL2	16	80666953	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4138062	80666953	9687800	1077	44250										
PKD1L2	114780	broad.mit.edu	37	chr16	81194499	81194499	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgtgtctttgtgaatgccgGggcagcaggatctgtgatca	14	8	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:81194499G>A	uc002fgh.1	-	22	3489	c.3489C>T	c.(3487-3489)CCC>CCT	p.P1163P	PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	1163	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GTGAATGCCGGGGCAGCAGGA	0.567													12	34	---	---	---	---	PASS	A	81194499	A	A	81194499	2	1	119	1	0	0	0	0	0	0	0	1	11965	1219	43	3		3	PKD1L2	16	81194499	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	527546	81194499	9160254	1078	44251										
NECAB2	54550	broad.mit.edu	37	chr16	84024221	84024221	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtggaggccatcgaggaacaGaccagccagctccggtgagt	15	11	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:84024221G>A	uc002fhd.2	+	6	599	c.582G>A	c.(580-582)CAG>CAA	p.Q194Q	NECAB2_uc002fhe.2_Silent_p.Q111Q	NM_019065	NP_061938	Q7Z6G3	NECA2_HUMAN	neuronal calcium-binding protein 2	194	Potential.				antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity|protein binding			ovary(2)	2						TCGAGGAACAGACCAGCCAGC	0.612													8	81	---	---	---	---	PASS	A	84024221	A	A	84024221	2	1	119	1	0	0	0	0	0	0	0	1	10305	933	33	2		2	NECAB2	16	84024221	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	2829722	84024221	6330532	1079	44252										
KCNG4	93107	broad.mit.edu	37	chr16	84270759	84270759	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctggggctcctgtcgaagaaGaactcctggctgtcctcgtc	12	13	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:84270759G>A	uc010voc.1	-	2	454	c.333C>T	c.(331-333)TTC>TTT	p.F111F	KCNG4_uc002fhu.1_Silent_p.F111F	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	111	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						TGTCGAAGAAGAACTCCTGGC	0.627													42	41	---	---	---	---	PASS	A	84270759	A	A	84270759	2	1	119	1	0	0	0	0	0	0	0	1	8030	933	33	2		2	KCNG4	16	84270759	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	246538	84270759	6083994	1080	44253										
FOXF1	2294	broad.mit.edu	37	chr16	86544562	86544562	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	accatcgacccggccagcgaGttcatgttcgaggagggctc	13	13	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:86544562G>T	uc002fjl.2	+	1	430	c.387G>T	c.(385-387)GAG>GAT	p.E129D	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	129	Fork-head.				branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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 factor binding				0						CGGCCAGCGAGTTCATGTTCG	0.642													10	271	---	---	---	---	PASS	T	86544562	T	T	86544562	3	4	119	1	0	0	0	0	1	0	0	0	6005	1020	36	3	389	3	FOXF1	16	86544562	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2273803	86544562	3810191	1081	44254										
ZCCHC14	23174	broad.mit.edu	37	chr16	87446239	87446239	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gacgcgggcagcacgtccatCatggcgctgccaaagctctt	12	14	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:87446239C>G	uc002fjz.1	-	12	1704	c.1677G>C	c.(1675-1677)ATG>ATC	p.M559I	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Missense_Mutation_p.M335I	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	559					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		GCACGTCCATCATGGCGCTGC	0.557													72	96	---	---	---	---	PASS	G	87446239	G	G	87446239	3	3	119	1	0	0	0	0	1	0	0	0	17580	826	29	2	1180	2	ZCCHC14	16	87446239	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	901677	87446239	2908514	1082	44255										
CPNE7	27132	broad.mit.edu	37	chr16	89650455	89650455	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtgatcgccgaggacatctCggggaacaacggctacgtgg	16	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:89650455C>T	uc002fnp.2	+	6	807	c.677C>T	c.(676-678)TCG>TTG	p.S226L	CPNE7_uc002fnq.2_Missense_Mutation_p.S151L	NM_014427	NP_055242	Q9UBL6	CPNE7_HUMAN	copine 7 isoform b	226					lipid metabolic process		transporter activity				0		all_hematologic(23;0.0748)		all cancers(4;3.63e-08)|OV - Ovarian serous cystadenocarcinoma(4;1.7e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0147)		GAGGACATCTCGGGGAACAAC	0.711													47	44	---	---	---	---	PASS	T	89650455	T	T	89650455	3	4	119	1	0	0	0	0	1	0	0	0	3817	893	31	2	699	2	CPNE7	16	89650455	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2204216	89650455	704298	1083	44256										
DEF8	54849	broad.mit.edu	37	chr16	90020690	90020690	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatgagaagctggcccgtttCcggcaggcccacctcaaccc	11	16	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr16:90020690C>T	uc002fpn.1	+	3	302	c.213C>T	c.(211-213)TTC>TTT	p.F71F	DEF8_uc002fpl.2_Silent_p.F10F|DEF8_uc002fpm.2_Silent_p.F10F|DEF8_uc002fpo.1_Silent_p.F10F|DEF8_uc002fpp.1_Silent_p.F10F|DEF8_uc010vpq.1_Intron|DEF8_uc010vpr.1_Silent_p.F10F	NM_207514	NP_997397	Q6ZN54	DEFI8_HUMAN	differentially expressed in FDCP 8 isoform 1	71					intracellular signal transduction		zinc ion binding			central_nervous_system(1)	1		all_cancers(9;7.59e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.0019)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0274)		TGGCCCGTTTCCGGCAGGCCC	0.642													15	107	---	---	---	---	PASS	T	90020690	T	T	90020690	2	4	119	1	0	0	0	0	0	0	0	1	4387	854	30	2		2	DEF8	16	90020690	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	370235	90020690	334063	1084	44257										
ABR	29	broad.mit.edu	37	chr17	1028535	1028535	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taccccaggagccagtccctCaggtggagtcggggagacgc	15	13	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:1028535C>T	uc002fsd.2	-	2	339	c.229G>A	c.(229-231)GAG>AAG	p.E77K	ABR_uc002fse.2_Missense_Mutation_p.E31K|ABR_uc010cjq.1_Missense_Mutation_p.E89K	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	77					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		GCCAGTCCCTCAGGTGGAGTC	0.667													4	97	---	---	---	---	PASS	T	1028535	T	T	1028535	3	4	119	1	0	0	0	0	1	0	0	0	99	835	29	2	2577	2	ABR	17	1028535	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08		1028535	80166675	1085	44258										
OR3A1	4994	broad.mit.edu	37	chr17	3195370	3195370	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acattggggccacagaagttGagcgtggacatggccacagt	14	9	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:3195370G>C	uc002fvh.1	-	1	507	c.507C>G	c.(505-507)CTC>CTG	p.L169L		NM_002550	NP_002541	P47881	OR3A1_HUMAN	olfactory receptor, family 3, subfamily A,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(2)|central_nervous_system(1)	3						CACAGAAGTTGAGCGTGGACA	0.562													5	220	---	---	---	---	PASS	C	3195370	C	C	3195370	2	2	119	1	0	0	0	0	0	0	0	1	11037	1277	45	2		2	OR3A1	17	3195370	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	2166835	3195370	77999840	1086	44259										
OR3A1	4994	broad.mit.edu	37	chr17	3195694	3195694	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttccccaggaagaagtacatGggggtgtggagtttgggctc	16	7	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:3195694G>T	uc002fvh.1	-	1	183	c.183C>A	c.(181-183)CCC>CCA	p.P61P		NM_002550	NP_002541	P47881	OR3A1_HUMAN	olfactory receptor, family 3, subfamily A,	61	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(2)|central_nervous_system(1)	3						AGAAGTACATGGGGGTGTGGA	0.557													31	49	---	---	---	---	PASS	T	3195694	T	T	3195694	2	4	119	1	0	0	0	0	0	0	0	1	11037	1335	47	3		3	OR3A1	17	3195694	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	324	3195694	77999516	1087	44260										
ASPA	443	broad.mit.edu	37	chr17	3392563	3392563	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctcagcctcaaggggttctGagagctgatatcttggatca	11	10	5	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:3392563G>C	uc010ckg.2	+	5	652	c.561G>C	c.(559-561)CTG>CTC	p.L187L	SPATA22_uc010vrg.1_Intron|ASPA_uc002fvq.2_Silent_p.L187L	NM_001128085	NP_001121557	P45381	ACY2_HUMAN	aspartoacylase	187					aspartate catabolic process	cytoplasm|nucleus	aminoacylase activity|aspartoacylase activity|hydrolase activity, acting on ester bonds|metal ion binding				0					L-Aspartic Acid(DB00128)	AAGGGGTTCTGAGAGCTGATA	0.318													13	220	---	---	---	---	PASS	C	3392563	C	C	3392563	2	2	119	1	0	0	0	0	0	0	0	1	1050	1277	45	2		2	ASPA	17	3392563	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	196869	3392563	77802647	1088	44261										
TRPV1	7442	broad.mit.edu	37	chr17	3495371	3495371	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcggacttacctggcaccggTggggccgtctcctggcctct	14	15	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:3495371T>G	uc010vrr.1	-	1	801	c.274A>C	c.(274-276)ACC>CCC	p.T92P	TRPV1_uc010vro.1_Missense_Mutation_p.T92P|TRPV1_uc010vrp.1_Missense_Mutation_p.T92P|TRPV1_uc010vrq.1_Silent_p.P66P|TRPV1_uc010vrs.1_Missense_Mutation_p.T92P|TRPV1_uc010vrt.1_Missense_Mutation_p.T92P|TRPV1_uc010vru.1_Missense_Mutation_p.T92P	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	92	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	CTGGCACCGGTGGGGCCGTCT	0.637													15	25	---	---	---	---	PASS	G	3495371	G	G	3495371	3	3	119	1	0	0	0	0	1	0	0	0	16592	1696	59	5	1978	5	TRPV1	17	3495371	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	102808	3495371	77699839	1089	44262										
C17orf85	55421	broad.mit.edu	37	chr17	3724582	3724582	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgacgtcaagccaacgtcatCcccaatcagggctctcttct	7	16	5	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:3724582C>A	uc010ckl.1	-	9	984	c.961G>T	c.(961-963)GAT>TAT	p.D321Y	C17orf85_uc002fwr.2_Missense_Mutation_p.D31Y|C17orf85_uc002fwq.2_Missense_Mutation_p.D41Y	NM_001114118	NP_001107590	Q53F19	CQ085_HUMAN	ELG protein isoform a	321							nucleotide binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (3;0.0725)		CCAACGTCATCCCCAATCAGG	0.443													50	76	---	---	---	---	PASS	A	3724582	A	A	3724582	3	1	119	1	0	0	0	0	1	0	0	0	1888	855	30	2	921	2	C17orf85	17	3724582	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	229211	3724582	77470628	1090	44263										
ATP2A3	489	broad.mit.edu	37	chr17	3846764	3846764	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgttcatcttctccaccaggCaagtcagagctgtctccgtg	9	14	5	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:3846764C>A	uc002fxb.1	-	11	1491	c.1340G>T	c.(1339-1341)TGC>TTC	p.C447F	ATP2A3_uc002fwx.1_Missense_Mutation_p.C447F|ATP2A3_uc002fwy.1_Missense_Mutation_p.C447F|ATP2A3_uc002fwz.1_Missense_Mutation_p.C447F|ATP2A3_uc002fxa.1_Missense_Mutation_p.C447F|ATP2A3_uc002fxc.1_Missense_Mutation_p.C447F|ATP2A3_uc002fxd.1_Missense_Mutation_p.C447F	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	447	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		CTCCACCAGGCAAGTCAGAGC	0.642													99	148	---	---	---	---	PASS	A	3846764	A	A	3846764	3	1	119	1	0	0	0	0	1	0	0	0	1138	710	25	3	1914	3	ATP2A3	17	3846764	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	122182	3846764	77348446	1091	44264										
ZZEF1	23140	broad.mit.edu	37	chr17	3981258	3981258	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtagcaccaggatagcaggcTgccttggacggaccagaaca	13	11	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:3981258T>A	uc002fxe.2	-	19	2972	c.2908A>T	c.(2908-2910)AGC>TGC	p.S970C	ZZEF1_uc002fxk.1_Missense_Mutation_p.S971C	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	970							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GATAGCAGGCTGCCTTGGACG	0.527													49	70	---	---	---	---	PASS	A	3981258	A	A	3981258	3	1	119	1	0	0	0	0	1	0	0	0	18252	1580	55	5	6125	5	ZZEF1	17	3981258	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	134494	3981258	77213952	1092	44265										
MYBBP1A	10514	broad.mit.edu	37	chr17	4445961	4445961	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggaactgtgagggggctgtTgcgcttggtcaggaaggagc	20	6	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:4445961T>A	uc002fyb.3	-	21	3030	c.2968A>T	c.(2968-2970)AAC>TAC	p.N990Y	MYBBP1A_uc002fxz.3_Missense_Mutation_p.N990Y|MYBBP1A_uc002fya.3_5'Flank|MYBBP1A_uc010vsa.1_Missense_Mutation_p.N32Y	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	990					nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						AGGGGGCTGTTGCGCTTGGTC	0.642													53	71	---	---	---	---	PASS	A	4445961	A	A	4445961	3	1	119	1	0	0	0	0	1	0	0	0	10008	1812	63	5	1082	5	MYBBP1A	17	4445961	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	464703	4445961	76749249	1093	44266										
ZNF594	84622	broad.mit.edu	37	chr17	5087060	5087060	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ataagatttgaactttgattAgagtctttcccacattcatt	5	7	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:5087060A>G	uc010cla.1	-	2	648	c.492T>C	c.(490-492)TCT>TCC	p.S164S		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	164	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						AACTTTGATTAGAGTCTTTCC	0.333													22	152	---	---	---	---	PASS	G	5087060	G	G	5087060	2	3	119	1	0	0	0	0	0	0	0	1	18021	407	15	5		5	ZNF594	17	5087060	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	641099	5087060	76108150	1094	44267										
TP53	7157	broad.mit.edu	37	chr17	7578212	7578212	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggcaccaccacactatgtcGaaaagtgtttctgtcatcca	8	12	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:7578212G>A	uc002gim.2	-	6	831	c.637C>T	c.(637-639)CGA>TGA	p.R213*	TP53_uc002gig.1_Nonsense_Mutation_p.R213*|TP53_uc002gih.2_Nonsense_Mutation_p.R213*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R81*|TP53_uc010cng.1_Nonsense_Mutation_p.R81*|TP53_uc002gii.1_Nonsense_Mutation_p.R81*|TP53_uc010cnh.1_Nonsense_Mutation_p.R213*|TP53_uc010cni.1_Nonsense_Mutation_p.R213*|TP53_uc002gij.2_Nonsense_Mutation_p.R213*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.R120*|TP53_uc002gio.2_Nonsense_Mutation_p.R81*|TP53_uc010vug.1_Nonsense_Mutation_p.R174*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	213	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(186)|p.R213L(25)|p.R213Q(22)|p.R213fs*34(10)|p.0?(7)|p.R213P(5)|p.R81*(2)|p.R120*(2)|p.R213G(2)|p.K164_P219del(1)|p.D208_V216delDRNTFRHSV(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R213*33(1)|p.D208fs*1(1)|p.R213>L(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(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)		ACACTATGTCGAAAAGTGTTT	0.532		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			30	42	---	---	---	---	PASS	A	7578212	A	A	7578212	4	1	119	1	0	0	0	0	0	1	0	0	16378	1066	37	2	657	2	TP53	17	7578212	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2491152	7578212	73616998	1095	44268										
PER1	5187	broad.mit.edu	37	chr17	8045131	8045131	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcttctctcaccatcacatCaagagcccgaggcagttggc	10	14	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:8045131C>G	uc002gkd.2	-	22	3830	c.3592G>C	c.(3592-3594)GAT>CAT	p.D1198H	PER1_uc010cns.2_Missense_Mutation_p.D72H|PER1_uc010vuq.1_RNA	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	1198	CRY binding domain (By similarity).				circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						ACCATCACATCAAGAGCCCGA	0.547			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					16	218	---	---	---	---	PASS	G	8045131	G	G	8045131	3	3	119	1	0	0	0	0	1	0	0	0	11729	826	29	2	288	2	PER1	17	8045131	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	466919	8045131	73150079	1096	44269										
MYH8	4626	broad.mit.edu	37	chr17	10295205	10295205	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttaaagatacttacagcctcCtcagcttgtctcttgtatga	6	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:10295205C>A	uc002gmm.2	-	39	5753	c.5658G>T	c.(5656-5658)GAG>GAT	p.E1886D	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1886	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TTACAGCCTCCTCAGCTTGTC	0.398									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				17	270	---	---	---	---	PASS	A	10295205	A	A	10295205	3	1	119	1	0	0	0	0	1	0	0	0	10041	680	24	3	163	3	MYH8	17	10295205	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2250074	10295205	70900005	1097	44270										
MYH8	4626	broad.mit.edu	37	chr17	10312884	10312884	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaacatgcactcctcttccaGgatggagaagatgcccagtg	11	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:10312884G>A	uc002gmm.2	-	16	1704	c.1609C>T	c.(1609-1611)CTG>TTG	p.L537L	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	537	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TCCTCTTCCAGGATGGAGAAG	0.473									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				18	98	---	---	---	---	PASS	A	10312884	A	A	10312884	2	1	119	1	0	0	0	0	0	0	0	1	10041	991	35	3		3	MYH8	17	10312884	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	17679	10312884	70882326	1098	44271										
MYH8	4626	broad.mit.edu	37	chr17	10315812	10315812	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttctcgtagacggctttggCcagagcacccaccgcattgt	10	14	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:10315812C>A	uc002gmm.2	-	14	1386	c.1291G>T	c.(1291-1293)GCC>TCC	p.A431S	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	431	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						ACGGCTTTGGCCAGAGCACCC	0.502									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				157	293	---	---	---	---	PASS	A	10315812	A	A	10315812	3	1	119	1	0	0	0	0	1	0	0	0	10041	739	26	3	4630	3	MYH8	17	10315812	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2928	10315812	70879398	1099	44272										
MYH1	4619	broad.mit.edu	37	chr17	10411765	10411765	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agccccaccacagtctcattCagggggtccttgttcttgtc	9	14	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:10411765C>T	uc002gmo.2	-	16	1906	c.1812G>A	c.(1810-1812)CTG>CTA	p.L604L	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	604	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CAGTCTCATTCAGGGGGTCCT	0.522													42	64	---	---	---	---	PASS	T	10411765	T	T	10411765	2	4	119	1	0	0	0	0	0	0	0	1	10029	813	29	2		2	MYH1	17	10411765	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	95953	10411765	70783445	1100	44273										
MYH2	4620	broad.mit.edu	37	chr17	10440603	10440603	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagctagagttttcattgcaGacttctggtacagtccaacc	9	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:10440603G>C	uc010coi.2	-	16	1972	c.1844C>G	c.(1843-1845)TCT>TGT	p.S615C	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.S615C|MYH2_uc010coj.2_Missense_Mutation_p.S615C	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	615	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TTTCATTGCAGACTTCTGGTA	0.448													41	289	---	---	---	---	PASS	C	10440603	C	C	10440603	3	2	119	1	0	0	0	0	1	0	0	0	10035	942	33	2	4081	2	MYH2	17	10440603	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	28838	10440603	70754607	1101	44274										
MYH3	4621	broad.mit.edu	37	chr17	10537469	10537469	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctccagctctgcttggctctCctcacactttgtcttccact	5	17	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:10537469C>T	uc002gmq.1	-	31	4464	c.4387G>A	c.(4387-4389)GAG>AAG	p.E1463K		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1463	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						GCTTGGCTCTCCTCACACTTT	0.483													7	173	---	---	---	---	PASS	T	10537469	T	T	10537469	3	4	119	1	0	0	0	0	1	0	0	0	10036	864	30	2	1475	2	MYH3	17	10537469	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	96866	10537469	70657741	1102	44275										
DNAH9	1770	broad.mit.edu	37	chr17	11572751	11572751	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actcatggagagagtccagaGaatgatgggcctctgctgtg	14	8	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:11572751G>C	uc002gne.2	+	17	3061	c.2993G>C	c.(2992-2994)AGA>ACA	p.R998T	DNAH9_uc010coo.2_Missense_Mutation_p.R292T	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	998	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AGAGTCCAGAGAATGATGGGC	0.552													29	40	---	---	---	---	PASS	C	11572751	C	C	11572751	3	2	119	1	0	0	0	0	1	0	0	0	4608	942	33	2	3059	2	DNAH9	17	11572751	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1035282	11572751	69622459	1103	44276										
DNAH9	1770	broad.mit.edu	37	chr17	11631152	11631152	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagtcttgtggcaacatctaCaaaggccttgctcagactgg	10	11	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:11631152C>A	uc002gne.2	+	28	5795	c.5727C>A	c.(5725-5727)TAC>TAA	p.Y1909*	DNAH9_uc010coo.2_Nonsense_Mutation_p.Y1203*	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1909	AAA 1 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GCAACATCTACAAAGGCCTTG	0.473													38	42	---	---	---	---	PASS	A	11631152	A	A	11631152	4	1	119	1	0	0	0	0	0	1	0	0	4608	489	17	3	5837	3	DNAH9	17	11631152	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	58401	11631152	69564058	1104	44277										
NCOR1	9611	broad.mit.edu	37	chr17	16068381	16068381	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgtattaactcttcctttGagagttttgaaggtgaagca	9	6	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:16068381G>C	uc002gpo.2	-	5	770	c.530C>G	c.(529-531)TCA>TGA	p.S177*	NCOR1_uc002gpn.2_Nonsense_Mutation_p.S177*|NCOR1_uc002gpp.1_Nonsense_Mutation_p.S68*|NCOR1_uc002gpr.2_Nonsense_Mutation_p.S68*|NCOR1_uc002gps.1_Nonsense_Mutation_p.S177*|NCOR1_uc010coz.1_5'UTR|NCOR1_uc010cpb.1_Nonsense_Mutation_p.S177*|NCOR1_uc010cpa.1_Nonsense_Mutation_p.S177*|NCOR1_uc002gpu.2_Nonsense_Mutation_p.S177*	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	177	Potential.|Interaction with ZBTB33 and HEXIM1.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CTCTTCCTTTGAGAGTTTTGA	0.398													6	187	---	---	---	---	PASS	C	16068381	C	C	16068381	4	2	119	1	0	0	0	0	0	1	0	0	10235	1294	45	2	6960	2	NCOR1	17	16068381	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4437229	16068381	65126829	1105	44278										
SMCR7	125170	broad.mit.edu	37	chr17	18167409	18167409	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgcaggacgcagcttgagttCtgcccccgtgggagcagccc	14	15	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:18167409C>A	uc002gst.2	+	4	907	c.696C>A	c.(694-696)TTC>TTA	p.F232L	SMCR7_uc002gsu.2_3'UTR|SMCR7_uc010vxq.1_Missense_Mutation_p.F243L	NM_139162	NP_631901	Q96C03	SMCR7_HUMAN	Smith-Magenis syndrome chromosome region,	232						integral to membrane	protein binding				0	all_neural(463;0.228)					AGCTTGAGTTCTGCCCCCGTG	0.711													5	6	---	---	---	---	PASS	A	18167409	A	A	18167409	3	1	119	1	0	0	0	0	1	0	0	0	14790	912	32	2	743	2	SMCR7	17	18167409	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2099028	18167409	63027801	1106	44279										
SMCR7	125170	broad.mit.edu	37	chr17	18167821	18167821	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgccgtggttgctcggctCtggggcagctaggccggggt	18	11	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:18167821C>T	uc002gst.2	+	4	1319	c.1108C>T	c.(1108-1110)CTG>TTG	p.L370L	SMCR7_uc002gsu.2_3'UTR|SMCR7_uc010vxq.1_Silent_p.L381L	NM_139162	NP_631901	Q96C03	SMCR7_HUMAN	Smith-Magenis syndrome chromosome region,	370						integral to membrane	protein binding				0	all_neural(463;0.228)					TTGCTCGGCTCTGGGGCAGCT	0.677													40	57	---	---	---	---	PASS	T	18167821	T	T	18167821	2	4	119	1	0	0	0	0	0	0	0	1	14790	912	32	2		2	SMCR7	17	18167821	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	412	18167821	63027389	1107	44280										
CCDC144B	284047	broad.mit.edu	37	chr17	18525829	18525829	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tacctggattgttattttgaGgaagactttcaggtgtctgt	11	5	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:18525829G>C	uc002gub.1	-	2	483	c.398C>G	c.(397-399)CCT>CGT	p.P133R	CCDC144B_uc002gua.3_RNA|CCDC144B_uc010vyc.1_RNA|CCDC144B_uc002guc.1_Missense_Mutation_p.P133R	NM_182568	NP_872374			coiled-coil domain containing 144B											ovary(1)|skin(1)	2						GTTATTTTGAGGAAGACTTTC	0.299													23	101	---	---	---	---	PASS	C	18525829	C	C	18525829	3	2	119	1	0	0	0	0	1	0	0	0	2778	1000	35	4	1814	4	CCDC144B	17	18525829	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	358008	18525829	62669381	1108	44281										
EPN2	22905	broad.mit.edu	37	chr17	19232925	19232925	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tacaattaaagatgacttttCtgaatttgacaaccttcgga	6	7	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:19232925C>T	uc002gvd.3	+	9	1824	c.1376C>T	c.(1375-1377)TCT>TTT	p.S459F	EPN2_uc010cql.1_Missense_Mutation_p.S168F|EPN2_uc002gve.3_Missense_Mutation_p.S402F|EPN2_uc002gvf.3_Missense_Mutation_p.S174F|EPN2_uc010vyo.1_Missense_Mutation_p.S167F|EPN2_uc010vyp.1_Missense_Mutation_p.S395F|EPN2_uc010vyq.1_Missense_Mutation_p.S396F|EPN2_uc002gvh.1_Missense_Mutation_p.S459F|EPN2_uc002gvj.3_Missense_Mutation_p.S122F	NM_014964	NP_055779	O95208	EPN2_HUMAN	epsin 2 isoform b	459	6 X 3 AA repeats of [DE]-P-W.				endocytosis		lipid binding			skin(1)	1	all_cancers(12;3.11e-05)|all_epithelial(12;0.00121)|Hepatocellular(7;0.00345)|Breast(13;0.143)					GATGACTTTTCTGAATTTGAC	0.428													13	335	---	---	---	---	PASS	T	19232925	T	T	19232925	3	4	119	1	0	0	0	0	1	0	0	0	5186	913	32	2	1402	2	EPN2	17	19232925	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	707096	19232925	61962285	1109	44282										
AKAP10	11216	broad.mit.edu	37	chr17	19861529	19861529	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgctgttagttctattattCaggtcaattccttctgaatg	8	7	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:19861529C>G	uc002gwo.2	-	4	812	c.675G>C	c.(673-675)CTG>CTC	p.L225L	AKAP10_uc002gwp.1_Silent_p.L225L|AKAP10_uc010cqw.1_Silent_p.L225L|AKAP10_uc010vze.1_Silent_p.L146L	NM_007202	NP_009133	O43572	AKA10_HUMAN	A-kinase anchor protein 10 precursor	225	RGS 1.				blood coagulation|protein localization	cytosol|mitochondrion|plasma membrane	signal transducer activity			skin(1)	1	all_cancers(12;2.08e-05)|all_epithelial(12;0.00158)|Breast(13;0.165)					TTCTATTATTCAGGTCAATTC	0.428													5	196	---	---	---	---	PASS	G	19861529	G	G	19861529	2	3	119	1	0	0	0	0	0	0	0	1	446	813	29	2		2	AKAP10	17	19861529	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	628604	19861529	61333681	1110	44283										
PIGS	94005	broad.mit.edu	37	chr17	26881331	26881331	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcacagccataggcaggaaGagtgggatgtagatggcaaa	16	6	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:26881331G>A	uc002hbo.2	-	12	1948	c.1575C>T	c.(1573-1575)CTC>CTT	p.L525L	UNC119_uc002hbk.2_5'Flank|UNC119_uc002hbm.2_5'Flank|PIGS_uc002hbn.2_Silent_p.L517L|PIGS_uc010wap.1_Silent_p.L464L	NM_033198	NP_149975	Q96S52	PIGS_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	525	Helical; (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			breast(2)|urinary_tract(1)|kidney(1)	4	Lung NSC(42;0.00431)					TAGGCAGGAAGAGTGGGATGT	0.542													11	213	---	---	---	---	PASS	A	26881331	A	A	26881331	2	1	119	1	0	0	0	0	0	0	0	1	11898	929	33	2		2	PIGS	17	26881331	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	7019802	26881331	54313879	1111	44284										
GIT1	28964	broad.mit.edu	37	chr17	27901841	27901841	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccactggggcgccgggctctGggggcactgtcttccggcac	16	15	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:27901841G>T	uc002hef.2	-	20	2379	c.2165C>A	c.(2164-2166)CCA>CAA	p.P722Q	GIT1_uc002heg.2_Missense_Mutation_p.P731Q|GIT1_uc010wbg.1_Missense_Mutation_p.P708Q|GIT1_uc010csb.1_3'UTR	NM_014030	NP_054749	Q9Y2X7	GIT1_HUMAN	G protein-coupled receptor kinase interactor 1	722	Interaction with PXN and TGFB1I1 (By similarity).				regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|focal adhesion	ARF GTPase activator activity|protein binding|zinc ion binding				0				READ - Rectum adenocarcinoma(3;0.0419)|Colorectal(3;0.069)		GCCGGGCTCTGGGGGCACTGT	0.667													7	23	---	---	---	---	PASS	T	27901841	T	T	27901841	3	4	119	1	0	0	0	0	1	0	0	0	6396	1348	47	3	124	3	GIT1	17	27901841	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1020510	27901841	53293369	1112	44285										
ANKRD13B	124930	broad.mit.edu	37	chr17	27936431	27936431	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cggagatggtgaatgggtatGaagctaaggtgaggctgcag	18	4	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:27936431G>A	uc002hei.2	+	7	927	c.814G>A	c.(814-816)GAA>AAA	p.E272K	ANKRD13B_uc002heh.2_Missense_Mutation_p.E140K|ANKRD13B_uc002hej.2_RNA	NM_152345	NP_689558	Q86YJ7	AN13B_HUMAN	ankyrin repeat domain 13B	272											0						GAATGGGTATGAAGCTAAGGT	0.607													6	52	---	---	---	---	PASS	A	27936431	A	A	27936431	3	1	119	1	0	0	0	0	1	0	0	0	642	1291	45	2	840	2	ANKRD13B	17	27936431	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	34590	27936431	53258779	1113	44286										
CRLF3	51379	broad.mit.edu	37	chr17	29120551	29120551	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catctcctcgggcgcagactCtgaactggtaatcaacgttg	10	12	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:29120551C>G	uc002hfr.3	-	5	852	c.743G>C	c.(742-744)AGA>ACA	p.R248T	CRLF3_uc010wbr.1_Missense_Mutation_p.R132T	NM_015986	NP_057070	Q8IUI8	CRLF3_HUMAN	cytokine receptor-like factor 3	248	Fibronectin type-III.				negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|positive regulation of cell cycle arrest|positive regulation of JAK-STAT cascade|positive regulation of transcription from RNA polymerase II promoter	cytoplasm					0		all_hematologic(16;0.014)|Acute lymphoblastic leukemia(14;0.0236)|Myeloproliferative disorder(56;0.0255)				GGCGCAGACTCTGAACTGGTA	0.453													53	156	---	---	---	---	PASS	G	29120551	G	G	29120551	3	3	119	1	0	0	0	0	1	0	0	0	3888	913	32	2	601	2	CRLF3	17	29120551	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1184120	29120551	52074659	1114	44287										
ATAD5	79915	broad.mit.edu	37	chr17	29185178	29185178	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcattttattctttattgcaGttcatgaggacaaggaagga	10	5	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:29185178G>T	uc002hfs.1	+	9	3140	c.2794_splice	c.e9-1	p.F932_splice	ATAD5_uc002hft.1_Splice_Site_p.F829_splice	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5						response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				CTTTATTGCAGTTCATGAGGA	0.308													27	104	---	---	---	---	PASS	T	29185178	T	T	29185178	5	4	119	1	0	0	0	0	0	0	1	0	1076	1043	36	3	2827	3	ATAD5	17	29185178	Splice_Site	SNP	G	TCGA-60-2698-01A-01D-1522-08	64627	29185178	52010032	1115	44288										
C17orf42	79736	broad.mit.edu	37	chr17	29227467	29227467	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatgatgagtatattcctctCattaaactccaacggtcact	6	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:29227467C>T	uc002hfu.2	-	3	679	c.609G>A	c.(607-609)ATG>ATA	p.M203I	C17orf42_uc002hfv.2_RNA|C17orf42_uc002hfw.2_Missense_Mutation_p.M203I	NM_024683	NP_078959	Q96QE5	TEFM_HUMAN	hypothetical protein LOC79736	203					oxidative phosphorylation|regulation of transcription, DNA-dependent|transcription from mitochondrial promoter	mitochondrial nucleoid|ribonucleoprotein complex	DNA polymerase processivity factor activity|nucleic acid binding|protein binding			ovary(1)	1		all_cancers(10;4.64e-07)|all_hematologic(16;0.014)|Acute lymphoblastic leukemia(14;0.0236)|Myeloproliferative disorder(56;0.0255)				ATATTCCTCTCATTAAACTCC	0.438													20	196	---	---	---	---	PASS	T	29227467	T	T	29227467	3	4	119	1	0	0	0	0	1	0	0	0	1856	826	29	2	481	2	C17orf42	17	29227467	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	42289	29227467	51967743	1116	44289										
ADAP2	55803	broad.mit.edu	37	chr17	29261292	29261292	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttctggcaagagaaggcctcCtgaagtacttcacaaaggaa	10	9	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:29261292C>T	uc002hfx.2	+	5	766	c.487C>T	c.(487-489)CTG>TTG	p.L163L	ADAP2_uc010csk.2_Silent_p.L169L|ADAP2_uc002hfy.2_Silent_p.L163L|ADAP2_uc010csl.2_RNA	NM_018404	NP_060874	Q9NPF8	ADAP2_HUMAN	centaurin-alpha 2 protein	163	PH 1.				heart development|regulation of ARF GTPase activity	mitochondrial envelope|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding, bridging|zinc ion binding	p.?(1)		ovary(1)	1						AGAAGGCCTCCTGAAGTACTT	0.488													25	58	---	---	---	---	PASS	T	29261292	T	T	29261292	2	4	119	1	0	0	0	0	0	0	0	1	280	680	24	3		3	ADAP2	17	29261292	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	33825	29261292	51933918	1117	44290										
NF1	4763	broad.mit.edu	37	chr17	29587397	29587397	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atttttgaaggtttttccttGatatagcatctgattgtcct	7	6	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:29587397G>C	uc002hgg.2	+	34	4774	c.4441G>C	c.(4441-4443)GAT>CAT	p.D1481H	NF1_uc002hgh.2_Missense_Mutation_p.D1460H|NF1_uc002hgi.1_Missense_Mutation_p.D493H	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	1481					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(3)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		GTTTTTCCTTGATATAGCATC	0.343			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			12	284	---	---	---	---	PASS	C	29587397	C	C	29587397	3	2	119	1	0	0	0	0	1	0	0	0	10356	1290	45	2	4636	2	NF1	17	29587397	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	326105	29587397	51607813	1118	44291										
RHBDL3	162494	broad.mit.edu	37	chr17	30611719	30611719	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tacattagcacaggcaagttCcggagtcttctggagagcca	11	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:30611719C>T	uc002hhe.1	+	3	191	c.177C>T	c.(175-177)TTC>TTT	p.F59F	RHBDL3_uc010csw.1_Silent_p.F51F|RHBDL3_uc010csx.1_Silent_p.F59F|RHBDL3_uc010csy.1_Intron|RHBDL3_uc002hhf.1_Intron	NM_138328	NP_612201	P58872	RHBL3_HUMAN	rhomboid protease 3	59	EF-hand 1.				proteolysis	integral to membrane	calcium ion binding|serine-type endopeptidase activity			ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)				CAGGCAAGTTCCGGAGTCTTC	0.592													36	51	---	---	---	---	PASS	T	30611719	T	T	30611719	2	4	119	1	0	0	0	0	0	0	0	1	13323	854	30	2		2	RHBDL3	17	30611719	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1024322	30611719	50583491	1119	44292										
ACCN1	40	broad.mit.edu	37	chr17	31355356	31355356	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctgtaaacaggaaaaaagtCgaggcccatctctgaggatc	11	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:31355356C>G	uc002hhu.2	-	4	1163	c.889G>C	c.(889-891)GAC>CAC	p.D297H	ACCN1_uc002hht.2_Missense_Mutation_p.D348H	NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	297	Extracellular (By similarity).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	GGAAAAAAGTCGAGGCCCATC	0.562													7	85	---	---	---	---	PASS	G	31355356	G	G	31355356	3	3	119	1	0	0	0	0	1	0	0	0	128	884	31	2	677	2	ACCN1	17	31355356	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	743637	31355356	49839854	1120	44293										
CCL3	6348	broad.mit.edu	37	chr17	34416616	34416616	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccgggaggtgtagctgaagCagcaggcggtcggcgtgtca	19	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:34416616C>G	uc002hkv.2	-	2	203	c.101G>C	c.(100-102)TGC>TCC	p.C34S		NM_002983	NP_002974	P10147	CCL3_HUMAN	chemokine (C-C motif) ligand 3	34					cell-cell signaling|cellular calcium ion homeostasis|cellular component movement|cytoskeleton organization|exocytosis|G-protein coupled receptor protein signaling pathway|immune response|inflammatory response|regulation of viral genome replication	extracellular space|soluble fraction	chemoattractant activity|chemokine activity|signal transducer activity				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GTAGCTGAAGCAGCAGGCGGT	0.552													55	113	---	---	---	---	PASS	G	34416616	G	G	34416616	3	3	119	1	0	0	0	0	1	0	0	0	2901	710	25	4	185	4	CCL3	17	34416616	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3061260	34416616	46778594	1121	44294										
DDX52	11056	broad.mit.edu	37	chr17	35980966	35980966	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaaaaatgtaattgcttttCccttattccctgctcttcca	4	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:35980966C>T	uc002hoi.1	-	12	1567	c.1529G>A	c.(1528-1530)GGA>GAA	p.G510E	DDX52_uc002hoh.1_Missense_Mutation_p.G402E	NM_007010	NP_008941	Q9Y2R4	DDX52_HUMAN	ATP-dependent RNA helicase ROK1 isoform a	510	Helicase C-terminal.					nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|skin(1)	2		Breast(25;0.00637)|Ovarian(249;0.15)				AATTGCTTTTCCCTTATTCCC	0.323													40	87	---	---	---	---	PASS	T	35980966	T	T	35980966	3	4	119	1	0	0	0	0	1	0	0	0	4370	855	30	2	286	2	DDX52	17	35980966	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1564350	35980966	45214244	1122	44295										
STAC2	342667	broad.mit.edu	37	chr17	37373068	37373068	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agggggggcactcaccagtgGgtggggactctttgcttgtg	18	8	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:37373068G>T	uc002hrs.2	-	4	800	c.581C>A	c.(580-582)CCC>CAC	p.P194H	STAC2_uc010cvt.2_Missense_Mutation_p.P52H	NM_198993	NP_945344	Q6ZMT1	STAC2_HUMAN	SH3 and cysteine rich domain 2	194					intracellular signal transduction		metal ion binding			pancreas(1)	1						CTCACCAGTGGGTGGGGACTC	0.512													9	10	---	---	---	---	PASS	T	37373068	T	T	37373068	3	4	119	1	0	0	0	0	1	0	0	0	15239	1232	43	3	686	3	STAC2	17	37373068	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1392102	37373068	43822142	1123	44296										
IKZF3	22806	broad.mit.edu	37	chr17	37949016	37949016	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catctttccactggttggccTgctactatcgaatgagacaa	8	11	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:37949016T>G	uc002hsu.2	-	4	396	c.334A>C	c.(334-336)AGG>CGG	p.R112R	IKZF3_uc002htd.2_Silent_p.R78R|IKZF3_uc010cwd.2_Intron|IKZF3_uc002hsv.2_Silent_p.R78R|IKZF3_uc010cwe.2_Silent_p.R112R|IKZF3_uc010cwf.2_Intron|IKZF3_uc010cwg.2_Intron|IKZF3_uc002hsw.2_Silent_p.R112R|IKZF3_uc002hsx.2_Silent_p.R112R|IKZF3_uc002hsy.2_Silent_p.R112R|IKZF3_uc002hsz.2_Silent_p.R112R|IKZF3_uc002hta.2_Silent_p.R112R|IKZF3_uc002htb.2_RNA|IKZF3_uc010cwh.2_Intron|IKZF3_uc002htc.2_5'UTR	NM_012481	NP_036613	Q9UKT9	IKZF3_HUMAN	aiolos isoform 1	112					B cell activation|mesoderm development|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)|kidney(2)|skin(2)	6	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CTGGTTGGCCTGCTACTATCG	0.393													28	197	---	---	---	---	PASS	G	37949016	G	G	37949016	2	3	119	1	0	0	0	0	0	0	0	1	7616	1579	55	5		5	IKZF3	17	37949016	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	575948	37949016	43246194	1124	44297										
PSMD3	5709	broad.mit.edu	37	chr17	38152561	38152561	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttccaccagcgcatctccttCtgcctagatatccacaacat	4	16	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:38152561C>A	uc002htn.1	+	10	1610	c.1446C>A	c.(1444-1446)TTC>TTA	p.F482L	PSMD3_uc010wen.1_RNA|PSMD3_uc010weo.1_Missense_Mutation_p.F383L	NM_002809	NP_002800	O43242	PSMD3_HUMAN	proteasome 26S non-ATPase subunit 3	482					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	enzyme regulator activity|protein binding			ovary(1)|pancreas(1)	2	Colorectal(19;0.000442)					GCATCTCCTTCTGCCTAGATA	0.557													54	300	---	---	---	---	PASS	A	38152561	A	A	38152561	3	1	119	1	0	0	0	0	1	0	0	0	12699	912	32	2	1484	2	PSMD3	17	38152561	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	203545	38152561	43042649	1125	44298										
THRA	7067	broad.mit.edu	37	chr17	38230776	38230776	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagcaaggtggagtgtgggtCagacccagaggagaacaggt	17	6	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:38230776C>G	uc002htw.2	+	2	518	c.35C>G	c.(34-36)TCA>TGA	p.S12*	THRA_uc010cwp.1_Nonsense_Mutation_p.S12*|THRA_uc002htv.2_Nonsense_Mutation_p.S12*|THRA_uc002htx.2_Nonsense_Mutation_p.S12*	NM_003250	NP_003241	P10827	THA_HUMAN	thyroid hormone receptor, alpha isoform 2	12	Modulating.				negative regulation of RNA polymerase II transcriptional preinitiation complex assembly|negative regulation of transcription initiation, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription from RNA polymerase II promoter	cytosol|nucleoplasm	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|TBP-class protein binding|thyroid hormone binding|thyroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding				0	Colorectal(19;0.000442)	Myeloproliferative disorder(1115;0.0255)			Levothyroxine(DB00451)|Liothyronine(DB00279)	GAGTGTGGGTCAGACCCAGAG	0.582													8	62	---	---	---	---	PASS	G	38230776	G	G	38230776	4	3	119	1	0	0	0	0	0	1	0	0	15870	838	29	2	37	2	THRA	17	38230776	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	78215	38230776	42964434	1126	44299										
WIPF2	147179	broad.mit.edu	37	chr17	38421164	38421164	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcagaacaggaccaagtggcCagtctctggctcctcctcct	9	15	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:38421164C>T	uc002hug.1	+	5	976	c.736C>T	c.(736-738)CAG>TAG	p.Q246*	WIPF2_uc002huh.1_Nonsense_Mutation_p.Q96*|WIPF2_uc010cww.1_Nonsense_Mutation_p.Q96*|WIPF2_uc002hui.1_Nonsense_Mutation_p.Q246*|WIPF2_uc010cwx.1_Intron|WIPF2_uc010cwy.1_Nonsense_Mutation_p.Q246*	NM_133264	NP_573571	Q8TF74	WIPF2_HUMAN	WIRE protein	246						cytoplasm|cytoskeleton	actin binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						ACCAAGTGGCCAGTCTCTGGC	0.617										HNSCC(43;0.11)			12	255	---	---	---	---	PASS	T	38421164	T	T	38421164	4	4	119	1	0	0	0	0	0	1	0	0	17365	595	21	3	750	3	WIPF2	17	38421164	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	190388	38421164	42774046	1127	44300										
KRT28	162605	broad.mit.edu	37	chr17	38956043	38956043	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcaacagagccaccacatgCactgctgcctgcaaagcctg	9	15	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:38956043C>A	uc002hvh.1	-	1	169	c.103G>T	c.(103-105)GCA>TCA	p.A35S		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	35	Gly-rich.|Head.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				CCACCACATGCACTGCTGCCT	0.547													15	180	---	---	---	---	PASS	A	38956043	A	A	38956043	3	1	119	1	0	0	0	0	1	0	0	0	8465	710	25	3	1323	3	KRT28	17	38956043	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	534879	38956043	42239167	1128	44301										
KRT12	3859	broad.mit.edu	37	chr17	39023065	39023065	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gattttgcatagtttcttttTctgatccagaaagaaggcct	8	7	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:39023065T>A	uc002hvk.2	-	1	398	c.374A>T	c.(373-375)GAA>GTA	p.E125V		NM_000223	NP_000214	Q99456	K1C12_HUMAN	keratin 12	125	Rod.|Coil 1A.				visual perception	intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				AGTTTCTTTTTCTGATCCAGA	0.463													23	403	---	---	---	---	PASS	A	39023065	A	A	39023065	3	1	119	1	0	0	0	0	1	0	0	0	8449	1783	62	5	1142	5	KRT12	17	39023065	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	67022	39023065	42172145	1129	44302										
HAP1	9001	broad.mit.edu	37	chr17	39883619	39883619	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggttgctggcggagggtcttCacctcctcctgcatctcaat	11	13	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:39883619C>T	uc002hxm.1	-	9	1374	c.1362G>A	c.(1360-1362)GTG>GTA	p.V454V	JUP_uc010wfs.1_Intron|HAP1_uc002hxn.1_Intron|HAP1_uc002hxo.1_Intron|HAP1_uc002hxp.1_Intron	NM_177977	NP_817084	P54257	HAP1_HUMAN	huntingtin-associated protein 1 isoform 2	454	Glu-rich.|HAP1 N-terminal.				brain development|protein localization|synaptic transmission	actin cytoskeleton	protein binding			ovary(2)	2		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.0677)			GGAGGGTCTTCACCTCCTCCT	0.627													24	119	---	---	---	---	PASS	T	39883619	T	T	39883619	2	4	119	1	0	0	0	0	0	0	0	1	6953	841	29	2		2	HAP1	17	39883619	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	860554	39883619	41311591	1130	44303										
ACLY	47	broad.mit.edu	37	chr17	40030069	40030069	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccctccatgctcaccttttCtggaaccagaggaggccgag	11	14	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:40030069C>T	uc002hyg.2	-	23	2800	c.2637G>A	c.(2635-2637)CAG>CAA	p.Q879Q	ACLY_uc002hyh.2_Silent_p.Q869Q|ACLY_uc002hyi.2_Silent_p.Q933Q|ACLY_uc010wfx.1_Silent_p.Q923Q|ACLY_uc010wfy.1_Silent_p.Q608Q	NM_001096	NP_001087	P53396	ACLY_HUMAN	ATP citrate lyase isoform 1	879					ATP catabolic process|cellular carbohydrate metabolic process|citrate metabolic process|coenzyme A metabolic process|energy reserve metabolic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	citrate lyase complex|cytosol|nucleus	ATP binding|ATP citrate synthase activity|citrate (pro-3S)-lyase activity|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			ovary(2)|central_nervous_system(1)	3		Breast(137;0.000143)				CTCACCTTTTCTGGAACCAGA	0.577													44	215	---	---	---	---	PASS	T	40030069	T	T	40030069	2	4	119	1	0	0	0	0	0	0	0	1	143	912	32	2		2	ACLY	17	40030069	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	146450	40030069	41165141	1131	44304										
UBTF	7343	broad.mit.edu	37	chr17	42289010	42289010	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgataggcgtccttctccttCtgggacagcagcttccactg	10	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:42289010C>T	uc002igb.2	-	9	1078	c.1011G>A	c.(1009-1011)CAG>CAA	p.Q337Q	UBTF_uc002igc.2_Silent_p.Q300Q|UBTF_uc010czs.2_Silent_p.Q337Q|UBTF_uc002igd.2_Silent_p.Q300Q|UBTF_uc010czt.2_Silent_p.Q337Q|UBTF_uc002ige.2_Silent_p.Q300Q	NM_014233	NP_055048	P17480	UBF1_HUMAN	upstream binding transcription factor, RNA	337	HMG box 3.				positive regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm	DNA binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		CCTTCTCCTTCTGGGACAGCA	0.582													25	147	---	---	---	---	PASS	T	42289010	T	T	42289010	2	4	119	1	0	0	0	0	0	0	0	1	16906	912	32	2		2	UBTF	17	42289010	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2258941	42289010	38906200	1132	44305										
PLEKHM1	9842	broad.mit.edu	37	chr17	43531063	43531063	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctgtcactcagcatcttctCattgttcctgatgcggaaac	8	12	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:43531063C>T	uc002ija.2	-	7	2325	c.2155G>A	c.(2155-2157)GAG>AAG	p.E719K	PLEKHM1_uc010wjm.1_Missense_Mutation_p.E691K|PLEKHM1_uc002ijb.2_Missense_Mutation_p.E194K|PLEKHM1_uc010wjn.1_Missense_Mutation_p.E668K|PLEKHM1_uc002ijc.2_Missense_Mutation_p.E173K	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	719	PH 2.				intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					AGCATCTTCTCATTGTTCCTG	0.527													12	54	---	---	---	---	PASS	T	43531063	T	T	43531063	3	4	119	1	0	0	0	0	1	0	0	0	12080	835	29	2	1039	2	PLEKHM1	17	43531063	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1242053	43531063	37664147	1133	44306										
PLEKHM1	9842	broad.mit.edu	37	chr17	43552830	43552830	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caatggggtgagcgtccactCatttaagatggcagacttgt	12	8	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:43552830C>T	uc002ija.2	-	4	729	c.559G>A	c.(559-561)GAG>AAG	p.E187K	PLEKHM1_uc010wjm.1_Missense_Mutation_p.E159K|PLEKHM1_uc002ijb.2_5'UTR|PLEKHM1_uc010wjn.1_Missense_Mutation_p.E136K|hsa-mir-4315-1|MI0015844_5'Flank	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	187					intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					AGCGTCCACTCATTTAAGATG	0.572													18	123	---	---	---	---	PASS	T	43552830	T	T	43552830	3	4	119	1	0	0	0	0	1	0	0	0	12080	835	29	2	2647	2	PLEKHM1	17	43552830	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	21767	43552830	37642380	1134	44307										
PLEKHM1	9842	broad.mit.edu	37	chr17	43552914	43552914	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaggaggaactcgccctcctCagcatcccggagcagggcgg	14	14	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:43552914C>A	uc002ija.2	-	4	645	c.475G>T	c.(475-477)GAG>TAG	p.E159*	PLEKHM1_uc010wjm.1_Nonsense_Mutation_p.E131*|PLEKHM1_uc002ijb.2_5'UTR|PLEKHM1_uc010wjn.1_Nonsense_Mutation_p.E108*|hsa-mir-4315-1|MI0015844_5'Flank	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	159	RUN.				intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					TCGCCCTCCTCAGCATCCCGG	0.597													11	82	---	---	---	---	PASS	A	43552914	A	A	43552914	4	1	119	1	0	0	0	0	0	1	0	0	12080	835	29	2	2731	2	PLEKHM1	17	43552914	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	84	43552914	37642296	1135	44308										
C17orf57	124989	broad.mit.edu	37	chr17	45412602	45412602	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attagatgatggctctaattCttttgcaactgacttgtcat	7	7	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:45412602C>G	uc002iln.2	+	5	482	c.71C>G	c.(70-72)TCT>TGT	p.S24C	ITGB3_uc010wkr.1_RNA|C17orf57_uc002ilm.2_Missense_Mutation_p.S24C|C17orf57_uc002ill.1_5'UTR|C17orf57_uc010daz.1_Missense_Mutation_p.S24C	NM_152347	NP_689560	Q8IY85	CQ057_HUMAN	hypothetical protein LOC124989	24							calcium ion binding			breast(1)|central_nervous_system(1)|skin(1)	3						GGCTCTAATTCTTTTGCAACT	0.343													45	303	---	---	---	---	PASS	G	45412602	G	G	45412602	3	3	119	1	0	0	0	0	1	0	0	0	1865	913	32	2	77	2	C17orf57	17	45412602	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1859688	45412602	35782608	1136	44309										
SP6	80320	broad.mit.edu	37	chr17	45925390	45925390	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggtgaggtcagcgcgccctGagtgtgggggaggtccatcc	18	10	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:45925390G>C	uc002img.1	-	2	738	c.406C>G	c.(406-408)CAG>GAG	p.Q136E	SP6_uc002imh.1_Missense_Mutation_p.Q136E	NM_199262	NP_954871	Q3SY56	SP6_HUMAN	Sp6 transcription factor	136					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						AGCGCGCCCTGAGTGTGGGGG	0.687													6	20	---	---	---	---	PASS	C	45925390	C	C	45925390	3	2	119	1	0	0	0	0	1	0	0	0	14968	1299	45	2	728	2	SP6	17	45925390	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	512788	45925390	35269820	1137	44310										
SKAP1	8631	broad.mit.edu	37	chr17	46247982	46247982	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcttatacctccttttcgtCgagtgccactctcatcctct	4	16	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:46247982C>G	uc002ini.1	-	10	978	c.866G>C	c.(865-867)CGA>CCA	p.R289P	SKAP1_uc002inj.1_Missense_Mutation_p.R289P|SKAP1_uc010dbd.1_Missense_Mutation_p.R195P|SKAP1_uc010dbe.1_Missense_Mutation_p.R289P	NM_003726	NP_003717	Q86WV1	SKAP1_HUMAN	src kinase associated phosphoprotein 1 isoform	289					positive regulation of transcription from RNA polymerase II promoter|T cell receptor signaling pathway	cytoplasm|nucleus|plasma membrane	antigen binding|protein kinase binding|SH2 domain binding				0						TCCTTTTCGTCGAGTGCCACT	0.403													135	266	---	---	---	---	PASS	G	46247982	G	G	46247982	3	3	119	1	0	0	0	0	1	0	0	0	14355	884	31	2	225	2	SKAP1	17	46247982	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	322592	46247982	34947228	1138	44311										
CACNA1G	8913	broad.mit.edu	37	chr17	48696040	48696040	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccctccgggactgtgaccagGagtccacctgctacaacacg	10	16	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:48696040G>C	uc002irk.1	+	33	5824	c.5452G>C	c.(5452-5454)GAG>CAG	p.E1818Q	CACNA1G_uc002irj.1_Missense_Mutation_p.E1784Q|CACNA1G_uc002irl.1_Missense_Mutation_p.E1795Q|CACNA1G_uc002irm.1_Missense_Mutation_p.E1784Q|CACNA1G_uc002irn.1_Missense_Mutation_p.E1777Q|CACNA1G_uc002iro.1_Missense_Mutation_p.E1784Q|CACNA1G_uc002irp.1_Missense_Mutation_p.E1818Q|CACNA1G_uc002irq.1_Missense_Mutation_p.E1795Q|CACNA1G_uc002irr.1_Missense_Mutation_p.E1818Q|CACNA1G_uc002irs.1_Missense_Mutation_p.E1807Q|CACNA1G_uc002irt.1_Missense_Mutation_p.E1800Q|CACNA1G_uc002irv.1_Missense_Mutation_p.E1807Q|CACNA1G_uc002irw.1_Missense_Mutation_p.E1795Q|CACNA1G_uc002iru.1_Missense_Mutation_p.E1784Q|CACNA1G_uc002irx.1_Missense_Mutation_p.E1731Q|CACNA1G_uc002iry.1_Missense_Mutation_p.E1720Q|CACNA1G_uc002irz.1_Missense_Mutation_p.E1724Q|CACNA1G_uc002isa.1_Missense_Mutation_p.E1697Q|CACNA1G_uc002isb.1_Missense_Mutation_p.E1738Q|CACNA1G_uc002isc.1_Missense_Mutation_p.E1720Q|CACNA1G_uc002isd.1_Missense_Mutation_p.E1706Q|CACNA1G_uc002ise.1_Missense_Mutation_p.E1686Q|CACNA1G_uc002isf.1_Missense_Mutation_p.E1713Q|CACNA1G_uc002isg.1_Missense_Mutation_p.E1679Q|CACNA1G_uc002ish.1_Missense_Mutation_p.E1686Q|CACNA1G_uc002isi.1_Missense_Mutation_p.E1674Q	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1818	IV.|Extracellular (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	CTGTGACCAGGAGTCCACCTG	0.572													11	62	---	---	---	---	PASS	C	48696040	C	C	48696040	3	2	119	1	0	0	0	0	1	0	0	0	2544	1175	41	2	5849	2	CACNA1G	17	48696040	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2448058	48696040	32499170	1139	44312										
SPAG9	9043	broad.mit.edu	37	chr17	49197929	49197929	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctcgaactcgcggtagatgGagccggccaggccggacacc	15	14	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:49197929G>C	uc002itc.2	-	1	298	c.89C>G	c.(88-90)TCC>TGC	p.S30C	SPAG9_uc002itb.2_Missense_Mutation_p.S30C|SPAG9_uc002itd.2_Missense_Mutation_p.S30C	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	30					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			GCGGTAGATGGAGCCGGCCAG	0.667													7	14	---	---	---	---	PASS	C	49197929	C	C	49197929	3	2	119	1	0	0	0	0	1	0	0	0	14985	1174	41	2	3996	2	SPAG9	17	49197929	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	501889	49197929	31997281	1140	44313										
CA10	56934	broad.mit.edu	37	chr17	49710972	49710972	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actcatgctcagaaagatctGagatggctggttctggctga	12	8	4	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:49710972G>C	uc002itw.3	-	8	1815	c.829C>G	c.(829-831)CAG>GAG	p.Q277E	CA10_uc002itu.3_Missense_Mutation_p.Q206E|CA10_uc002itv.3_Missense_Mutation_p.Q283E|CA10_uc002itx.3_Missense_Mutation_p.Q277E|CA10_uc002ity.3_Missense_Mutation_p.Q277E|CA10_uc002itz.2_Missense_Mutation_p.Q277E	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	277					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			AGAAAGATCTGAGATGGCTGG	0.507													35	77	---	---	---	---	PASS	C	49710972	C	C	49710972	3	2	119	1	0	0	0	0	1	0	0	0	2511	1299	45	2	165	2	CA10	17	49710972	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	513043	49710972	31484238	1141	44314										
C17orf47	284083	broad.mit.edu	37	chr17	56620706	56620706	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aaactcggtgtacaccatcaGaatctttaaggacagagagt	9	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:56620706G>C	uc002iwq.1	-	1	978	c.842C>G	c.(841-843)TCT>TGT	p.S281C	SEPT4_uc010wnx.1_5'Flank|SEPT4_uc010wny.1_5'Flank	NM_001038704	NP_001033793	Q8NEP4	CQ047_HUMAN	hypothetical protein LOC284083	281										breast(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TACACCATCAGAATCTTTAAG	0.448													9	247	---	---	---	---	PASS	C	56620706	C	C	56620706	3	2	119	1	0	0	0	0	1	0	0	0	1858	942	33	2	878	2	C17orf47	17	56620706	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6909734	56620706	24574504	1142	44315										
TRIM37	4591	broad.mit.edu	37	chr17	57181689	57181689	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acaacacagtttggagcaatGaggacacaggcgtgcatccc	11	11	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:57181689G>T	uc002iwy.3	-	2	532	c.88C>A	c.(88-90)CAT>AAT	p.H30N	TRIM37_uc002iwz.3_Missense_Mutation_p.H30N|TRIM37_uc002ixa.3_5'UTR|TRIM37_uc010woc.1_Intron|uc002ixb.2_5'Flank	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	30	RING-type; degenerate.					perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TTGGAGCAATGAGGACACAGG	0.368									Mulibrey_Nanism				4	103	---	---	---	---	PASS	T	57181689	T	T	57181689	3	4	119	1	0	0	0	0	1	0	0	0	16508	1290	45	2	2906	2	TRIM37	17	57181689	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	560983	57181689	24013521	1143	44316										
BRIP1	83990	broad.mit.edu	37	chr17	59761290	59761290	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acagttttactttccatcttCtctgttttgaaacggggagg	9	8	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:59761290C>T	uc002izk.1	-	20	3258	c.3117G>A	c.(3115-3117)GAG>GAA	p.E1039E		NM_032043	NP_114432	Q9BX63	FANCJ_HUMAN	BRCA1 interacting protein C-terminal helicase 1	1039	Interaction with BRCA1.				DNA damage checkpoint|double-strand break repair|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(1)	1						TTTCCATCTTCTCTGTTTTGA	0.418			F|N|Mis			AML|leukemia|breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				40	298	---	---	---	---	PASS	T	59761290	T	T	59761290	2	4	119	1	0	0	0	0	0	0	0	1	1514	912	32	2		2	BRIP1	17	59761290	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2579601	59761290	21433920	1144	44317										
CCDC47	57003	broad.mit.edu	37	chr17	61842099	61842099	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcagaatcctggatacctaCatcaacaatcgttattgggt	7	9	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:61842099C>G	uc002jbs.3	-	3	708	c.372_splice	c.e3+1	p.D124_splice	CCDC47_uc010ddx.2_Splice_Site_p.D124_splice|CCDC47_uc002jbt.2_Splice_Site_p.D124_splice	NM_020198	NP_064583	Q96A33	CCD47_HUMAN	coiled-coil domain containing 47 precursor							integral to membrane	protein binding				0						TGGATACCTACATCAACAATC	0.333													25	156	---	---	---	---	PASS	G	61842099	G	G	61842099	5	3	119	1	0	0	0	0	0	0	1	0	2818	492	17	4	1122	4	CCDC47	17	61842099	Splice_Site	SNP	C	TCGA-60-2698-01A-01D-1522-08	2080809	61842099	19353111	1145	44318										
CSH2	1443	broad.mit.edu	37	chr17	61950643	61950643	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtttggacggcaccagcctCttgaagccagggcaggcaga	15	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:61950643C>A	uc002jch.2	-	2	182	c.67G>T	c.(67-69)GAG>TAG	p.E23*	CSH2_uc002jcg.2_Nonsense_Mutation_p.E23*|CSH2_uc002jci.2_Nonsense_Mutation_p.E23*|GH2_uc002jcj.2_Intron|CSH2_uc002jck.2_Nonsense_Mutation_p.E23*	NM_020991	NP_066271	P01243	CSH_HUMAN	chorionic somatomammotropin hormone 2 isoform 1	23					female pregnancy|signal transduction	extracellular region	hormone activity|metal ion binding				0						GCACCAGCCTCTTGAAGCCAG	0.622													10	70	---	---	---	---	PASS	A	61950643	A	A	61950643	4	1	119	1	0	0	0	0	0	1	0	0	3941	922	32	2	650	2	CSH2	17	61950643	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	108544	61950643	19244567	1146	44319										
ABCA5	23461	broad.mit.edu	37	chr17	67270115	67270115	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcaccagcagaattttgaaGaagcagacttgttttgtatt	8	7	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:67270115G>T	uc002jif.2	-	19	3967	c.2749C>A	c.(2749-2751)CTT>ATT	p.L917I	ABCA5_uc002jic.2_Missense_Mutation_p.L140I|ABCA5_uc002jid.2_5'UTR|ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.L917I|ABCA5_uc002jih.2_Missense_Mutation_p.L917I|ABCA5_uc010dfe.2_Missense_Mutation_p.L917I	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	917					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					GAATTTTGAAGAAGCAGACTT	0.398													6	178	---	---	---	---	PASS	T	67270115	T	T	67270115	3	4	119	1	0	0	0	0	1	0	0	0	35	942	33	2	2259	2	ABCA5	17	67270115	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	5319472	67270115	13925095	1147	44320										
SDK2	54549	broad.mit.edu	37	chr17	71346925	71346925	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcatagaaggggttggctttCtgggctggagcacagatagt	15	6	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:71346925C>G	uc010dfm.2	-	42	5763	c.5763G>C	c.(5761-5763)CAG>CAC	p.Q1921H	SDK2_uc002jjt.3_Missense_Mutation_p.Q1061H	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1921	Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						GGTTGGCTTTCTGGGCTGGAG	0.542													19	164	---	---	---	---	PASS	G	71346925	G	G	71346925	3	3	119	1	0	0	0	0	1	0	0	0	13969	912	32	2	771	2	SDK2	17	71346925	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4076810	71346925	9848285	1148	44321										
ARMC7	79637	broad.mit.edu	37	chr17	73106666	73106666	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttatttctcgattcgctgtCggaggagaatgagaccctgg	12	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:73106666C>G	uc002jmw.1	+	2	502	c.200C>G	c.(199-201)TCG>TGG	p.S67W	ARMC7_uc002jmv.1_Missense_Mutation_p.S67W|ARMC7_uc010wru.1_Intron	NM_024585	NP_078861	Q9H6L4	ARMC7_HUMAN	armadillo repeat containing 7	67	ARM 1.						binding			pancreas(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)			GATTCGCTGTCGGAGGAGAAT	0.537													15	125	---	---	---	---	PASS	G	73106666	G	G	73106666	3	3	119	1	0	0	0	0	1	0	0	0	956	893	31	2	206	2	ARMC7	17	73106666	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1759741	73106666	8088544	1149	44322										
SOCS3	9021	broad.mit.edu	37	chr17	76354523	76354523	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcggggcatcgtactggtcCaggaactcccgaatgggccc	14	13	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:76354523C>T	uc002jvl.2	-	2	1070	c.654G>A	c.(652-654)CTG>CTA	p.L218L		NM_003955	NP_003946	O14543	SOCS3_HUMAN	suppressor of cytokine signaling 3	218	SOCS box.				anti-apoptosis|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|regulation of growth|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol	protein kinase inhibitor activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.000688)|OV - Ovarian serous cystadenocarcinoma(97;0.0554)			CGTACTGGTCCAGGAACTCCC	0.622													4	84	---	---	---	---	PASS	T	76354523	T	T	76354523	2	4	119	1	0	0	0	0	0	0	0	1	14915	581	21	3		3	SOCS3	17	76354523	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	3247857	76354523	4840687	1150	44323										
CCDC40	55036	broad.mit.edu	37	chr17	78073442	78073442	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctagtgctggagcgccagcgCctggacaagcgactggctct	14	13	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:78073442C>G	uc010dht.2	+	20	3324	c.3297C>G	c.(3295-3297)CGC>CGG	p.R1099R	CCDC40_uc002jxm.3_Silent_p.R882R|CCDC40_uc002jxn.3_Silent_p.R495R|GAA_uc002jxo.2_5'Flank|GAA_uc002jxp.2_5'Flank|GAA_uc002jxq.2_5'Flank	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	1099					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			AGCGCCAGCGCCTGGACAAGC	0.642													7	65	---	---	---	---	PASS	G	78073442	G	G	78073442	2	3	119	1	0	0	0	0	0	0	0	1	2812	726	26	4		4	CCDC40	17	78073442	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1718919	78073442	3121768	1151	44324										
RNF213	57674	broad.mit.edu	37	chr17	78360162	78360162	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctctgtgctaccgctctcgtCagctacttgattcgcctaca	7	15	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:78360162C>T	uc002jyh.1	+	37	9094	c.8871C>T	c.(8869-8871)GTC>GTT	p.V2957V	uc002jyi.1_Intron|RNF213_uc010dhx.1_5'UTR	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)			CCGCTCTCGTCAGCTACTTGA	0.532													10	180	---	---	---	---	PASS	T	78360162	T	T	78360162	2	4	119	1	0	0	0	0	0	0	0	1	13477	813	29	2		2	RNF213	17	78360162	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	286720	78360162	2835048	1152	44325										
C17orf70	80233	broad.mit.edu	37	chr17	79516348	79516348	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggtccaggctgcaggtcatCaggcggcctttggcggacag	16	11	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:79516348C>G	uc002kaq.2	-	4	1342	c.1287G>C	c.(1285-1287)CTG>CTC	p.L429L	C17orf70_uc002kao.1_5'Flank|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Silent_p.L278L	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	429					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			TGCAGGTCATCAGGCGGCCTT	0.607													6	77	---	---	---	---	PASS	G	79516348	G	G	79516348	2	3	119	1	0	0	0	0	0	0	0	1	1877	813	29	2		2	C17orf70	17	79516348	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1156186	79516348	1678862	1153	44326										
FASN	2194	broad.mit.edu	37	chr17	80054246	80054246	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catgtccacaccgccgatgaGgttgtcccagaactcctgca	9	15	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr17:80054246G>A	uc002kdu.2	-	2	193	c.76C>T	c.(76-78)CTC>TTC	p.L26F		NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	26	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)	CCGCCGATGAGGTTGTCCCAG	0.647													19	100	---	---	---	---	PASS	A	80054246	A	A	80054246	3	1	119	1	0	0	0	0	1	0	0	0	5683	1000	35	3	7627	3	FASN	17	80054246	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	537898	80054246	1140964	1154	44327										
COLEC12	81035	broad.mit.edu	37	chr18	333090	333090	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcctcaaaaatttctttctCaactgaaaaatagtagcatt	3	8	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:333090C>G	uc002kkm.2	-	7	2085	c.1870G>C	c.(1870-1872)GAG>CAG	p.E624Q		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	624	Extracellular (Potential).|C-type lectin.				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				ATTTCTTTCTCAACTGAAAAA	0.393													26	351	---	---	---	---	PASS	G	333090	G	G	333090	3	3	119	1	0	0	0	0	1	0	0	0	3712	835	29	2	374	2	COLEC12	18	333090	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08		333090	77744158	1155	44328										
COLEC12	81035	broad.mit.edu	37	chr18	335072	335072	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttagatcctttgccgccacGctctccggggggaccagctg	12	14	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:335072G>T	uc002kkm.2	-	6	1701	c.1486C>A	c.(1486-1488)CGT>AGT	p.R496S		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	496	Collagen-like 2.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				TTGCCGCCACGCTCTCCGGGG	0.677													14	250	---	---	---	---	PASS	T	335072	T	T	335072	3	4	119	1	0	0	0	0	1	0	0	0	3712	1087	38	1	762	1	COLEC12	18	335072	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1982	335072	77742176	1156	44329										
COLEC12	81035	broad.mit.edu	37	chr18	335092	335092	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctctccggggggaccagctGgtccaattgggcctctctca	13	14	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:335092G>A	uc002kkm.2	-	6	1681	c.1466C>T	c.(1465-1467)CCA>CTA	p.P489L		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	489	Collagen-like 2.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				GGGACCAGCTGGTCCAATTGG	0.677													19	282	---	---	---	---	PASS	A	335092	A	A	335092	3	1	119	1	0	0	0	0	1	0	0	0	3712	1348	47	3	782	3	COLEC12	18	335092	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	20	335092	77742156	1157	44330										
CLUL1	27098	broad.mit.edu	37	chr18	627255	627255	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actgtggatgtgaattctctCtttaacaggagttttaacgt	9	6	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:627255C>G	uc002kkp.2	+	5	727	c.582C>G	c.(580-582)CTC>CTG	p.L194L	CLUL1_uc010wys.1_Silent_p.L246L|CLUL1_uc002kkq.2_Silent_p.L194L	NM_014410	NP_055225	Q15846	CLUL1_HUMAN	clusterin-like 1 (retinal) precursor	194					cell death	extracellular region				ovary(2)	2						TGAATTCTCTCTTTAACAGGA	0.408													63	826	---	---	---	---	PASS	G	627255	G	G	627255	2	3	119	1	0	0	0	0	0	0	0	1	3570	900	32	2		2	CLUL1	18	627255	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	292163	627255	77449993	1158	44331										
SMCHD1	23347	broad.mit.edu	37	chr18	2705786	2705786	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agaagtatatgctacaggagGagaggttcaaattgcaatgg	13	4	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:2705786G>A	uc002klm.3	+	14	2126	c.1937G>A	c.(1936-1938)GGA>GAA	p.G646E	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_5'Flank	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	646					chromosome organization		ATP binding				0						GCTACAGGAGGAGAGGTTCAA	0.343													17	201	---	---	---	---	PASS	A	2705786	A	A	2705786	3	1	119	1	0	0	0	0	1	0	0	0	14788	1174	41	2	1991	2	SMCHD1	18	2705786	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2078531	2705786	75371462	1159	44332										
SMCHD1	23347	broad.mit.edu	37	chr18	2750347	2750347	+	Splice_Site	SNP	G	T	T													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctcctcttttgttttgttaGgggagagcatactcttcagg							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:2750347G>T	uc002klm.3	+	32	4197	c.4008_splice	c.e32-1	p.R1336_splice	SMCHD1_uc002klk.3_Splice_Site|SMCHD1_uc002kll.3_Splice_Site	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible						chromosome organization		ATP binding				0						TGTTTTGTTAGGGGAGAGCAT	0.338													13	164	---	---	---	---	PASS	T	2750347	T	T	2750347	5	4	119	1	0	0	0	0	0	0	1	0	14788	1014	35	3	4133	3	SMCHD1	18	2750347	Splice_Site	SNP	G	TCGA-60-2698-01A-01D-1522-08	44561	2750347	75326901	1160	44333	823	2								
SMCHD1	23347	broad.mit.edu	37	chr18	2750348	2750348	+	Missense_Mutation	SNP	G	T	T													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcctcttttgttttgttagGggagagcatactcttcaggt							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:2750348G>T	uc002klm.3	+	32	4197	c.4008G>T	c.(4006-4008)AGG>AGT	p.R1336S	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	1336					chromosome organization		ATP binding				0						GTTTTGTTAGGGGAGAGCATA	0.343													13	163	---	---	---	---	PASS	T	2750348	T	T	2750348	3	4	119	1	0	0	0	0	1	0	0	0	14788	1246	43	3	4134	3	SMCHD1	18	2750348	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1	2750348	75326900	1161	44334	823	2								
EMILIN2	84034	broad.mit.edu	37	chr18	2891883	2891883	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgcaccttttgaaatctctCaacgacacgatgcacaggaa	7	12	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:2891883C>G	uc002kln.2	+	4	1917	c.1758C>G	c.(1756-1758)CTC>CTG	p.L586L		NM_032048	NP_114437	Q9BXX0	EMIL2_HUMAN	elastin microfibril interfacer 2 precursor	586	Potential.				cell adhesion	collagen	extracellular matrix constituent conferring elasticity|protein binding			skin(2)|ovary(1)	3				READ - Rectum adenocarcinoma(2;0.1)		TGAAATCTCTCAACGACACGA	0.463													15	190	---	---	---	---	PASS	G	2891883	G	G	2891883	2	3	119	1	0	0	0	0	0	0	0	1	5094	813	29	2		2	EMILIN2	18	2891883	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	141535	2891883	75185365	1162	44335										
LPIN2	9663	broad.mit.edu	37	chr18	2960699	2960699	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttccaaaccgaacgtgaaaaGgtgaacactgatagctgcca	9	10	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:2960699G>T	uc002klo.2	-	2	379	c.140C>A	c.(139-141)CCT>CAT	p.P47H		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	47	N-LIP.				fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		AACGTGAAAAGGTGAACACTG	0.488													24	386	---	---	---	---	PASS	T	2960699	T	T	2960699	3	4	119	1	0	0	0	0	1	0	0	0	8919	1000	35	3	2626	3	LPIN2	18	2960699	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	68816	2960699	75116549	1163	44336										
MYOM1	8736	broad.mit.edu	37	chr18	3086147	3086147	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtctccttcttaatatttgcCacctaggagaaaaaccataa	5	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:3086147C>A	uc002klp.2	-	30	4474	c.4140G>T	c.(4138-4140)GTG>GTT	p.V1380V	MYOM1_uc002klq.2_Silent_p.V1284V	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	1380	Ig-like C2-type 4.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						TAATATTTGCCACCTAGGAGA	0.343													14	265	---	---	---	---	PASS	A	3086147	A	A	3086147	2	1	119	1	0	0	0	0	0	0	0	1	10091	581	21	3		3	MYOM1	18	3086147	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	125448	3086147	74991101	1164	44337										
MYOM1	8736	broad.mit.edu	37	chr18	3134771	3134771	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctcccacgaaactaccactGaggtgtctgtgtttctgctt	8	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:3134771G>A	uc002klp.2	-	16	2595	c.2261C>T	c.(2260-2262)TCA>TTA	p.S754L	MYOM1_uc002klq.2_Missense_Mutation_p.S754L	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	754	Fibronectin type-III 3.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						AACTACCACTGAGGTGTCTGT	0.488													16	260	---	---	---	---	PASS	A	3134771	A	A	3134771	3	1	119	1	0	0	0	0	1	0	0	0	10091	1294	45	2	2888	2	MYOM1	18	3134771	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	48624	3134771	74942477	1165	44338										
DLGAP1	9229	broad.mit.edu	37	chr18	3502631	3502631	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgggaggtgggtcttggatGagcattaggattctgcacaa	15	6	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:3502631G>A	uc002kmf.2	-	9	2651	c.2584C>T	c.(2584-2586)CAT>TAT	p.H862Y	DLGAP1_uc010wyz.1_Missense_Mutation_p.H862Y|DLGAP1_uc002kme.1_Missense_Mutation_p.H560Y|DLGAP1_uc010dkn.2_Missense_Mutation_p.H570Y|DLGAP1_uc010wyw.1_Missense_Mutation_p.H568Y|DLGAP1_uc010wyx.1_Missense_Mutation_p.H584Y|DLGAP1_uc010wyy.1_Missense_Mutation_p.H546Y|DLGAP1_uc002kmg.2_Missense_Mutation_p.H560Y	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	862					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				GGTCTTGGATGAGCATTAGGA	0.383													36	367	---	---	---	---	PASS	A	3502631	A	A	3502631	3	1	119	1	0	0	0	0	1	0	0	0	4559	1290	45	2	357	2	DLGAP1	18	3502631	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	367860	3502631	74574617	1166	44339										
DLGAP1	9229	broad.mit.edu	37	chr18	3879723	3879723	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgcagggtgtgatagccatCgcggctgagtggcagctgcc	16	11	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:3879723C>T	uc002kmf.2	-	1	413	c.346G>A	c.(346-348)GAT>AAT	p.D116N	DLGAP1_uc010wyz.1_Missense_Mutation_p.D116N|DLGAP1_uc002kmk.2_Missense_Mutation_p.D116N|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	116					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				TGATAGCCATCGCGGCTGAGT	0.687													12	132	---	---	---	---	PASS	T	3879723	T	T	3879723	3	4	119	1	0	0	0	0	1	0	0	0	4559	884	31	2	2682	2	DLGAP1	18	3879723	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	377092	3879723	74197525	1167	44340			2	51		4	4	235	C		1.845188e-07
DLGAP1	9229	broad.mit.edu	37	chr18	3879819	3879819	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcggggcaccagggcacactCgtccttcagctcttgctgcg	13	15	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:3879819C>T	uc002kmf.2	-	1	317	c.250G>A	c.(250-252)GAG>AAG	p.E84K	DLGAP1_uc010wyz.1_Missense_Mutation_p.E84K|DLGAP1_uc002kmk.2_Missense_Mutation_p.E84K|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	84					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				AGGGCACACTCGTCCTTCAGC	0.682													13	282	---	---	---	---	PASS	T	3879819	T	T	3879819	3	4	119	1	0	0	0	0	1	0	0	0	4559	893	31	2	2778	2	DLGAP1	18	3879819	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	96	3879819	74197429	1168	44341			2	51		4	4	235	C		1.845188e-07
DLGAP1	9229	broad.mit.edu	37	chr18	3879831	3879831	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcacactcgtccttcagctCttgctgcgaggtgtagtgcc	12	13	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:3879831C>G	uc002kmf.2	-	1	305	c.238G>C	c.(238-240)GAG>CAG	p.E80Q	DLGAP1_uc010wyz.1_Missense_Mutation_p.E80Q|DLGAP1_uc002kmk.2_Missense_Mutation_p.E80Q|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	80					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				TCCTTCAGCTCTTGCTGCGAG	0.677													12	279	---	---	---	---	PASS	G	3879831	G	G	3879831	3	3	119	1	0	0	0	0	1	0	0	0	4559	922	32	2	2790	2	DLGAP1	18	3879831	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	12	3879831	74197417	1169	44342			2	51		4	4	235	C		1.845188e-07
DLGAP1	9229	broad.mit.edu	37	chr18	3879957	3879957	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtggtctgcggggtggtgctCcactgggctcagcaggtagg	19	9	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:3879957C>T	uc002kmf.2	-	1	179	c.112G>A	c.(112-114)GAG>AAG	p.E38K	DLGAP1_uc010wyz.1_Missense_Mutation_p.E38K|DLGAP1_uc002kmk.2_Missense_Mutation_p.E38K|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	38					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				GGGTGGTGCTCCACTGGGCTC	0.672													19	263	---	---	---	---	PASS	T	3879957	T	T	3879957	3	4	119	1	0	0	0	0	1	0	0	0	4559	864	30	2	2916	2	DLGAP1	18	3879957	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	126	3879957	74197291	1170	44343			2	51		4	4	235	C		1.845188e-07
EPB41L3	23136	broad.mit.edu	37	chr18	5395691	5395691	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagcacgcctggctccagatCtgtgcctggatcgacctaaa	10	14	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:5395691C>T	uc002kmt.1	-	20	3075	c.2989G>A	c.(2989-2991)GAT>AAT	p.D997N	EPB41L3_uc010wzh.1_Missense_Mutation_p.D828N|EPB41L3_uc002kmu.1_Missense_Mutation_p.D775N|EPB41L3_uc010dkq.1_Missense_Mutation_p.D666N|EPB41L3_uc002kms.1_Missense_Mutation_p.D232N|EPB41L3_uc010wze.1_Missense_Mutation_p.D302N|EPB41L3_uc010wzf.1_Missense_Mutation_p.D294N|EPB41L3_uc010wzg.1_Missense_Mutation_p.D269N|EPB41L3_uc010dkr.2_Missense_Mutation_p.D389N	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	997	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GGCTCCAGATCTGTGCCTGGA	0.512													59	415	---	---	---	---	PASS	T	5395691	T	T	5395691	3	4	119	1	0	0	0	0	1	0	0	0	5154	913	32	2	286	2	EPB41L3	18	5395691	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1515734	5395691	72681557	1171	44344										
ARHGAP28	79822	broad.mit.edu	37	chr18	6859846	6859846	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acagtactaccctgtctgacGcatcccaggataaagaaggg	10	11	1	2	rs147162571		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:6859846G>T	uc010wzi.1	+	4	383	c.145G>T	c.(145-147)GCA>TCA	p.A49S	ARHGAP28_uc002knc.2_Missense_Mutation_p.A174S|ARHGAP28_uc002knd.2_Missense_Mutation_p.A67S|ARHGAP28_uc002kne.2_Missense_Mutation_p.A67S|ARHGAP28_uc002knf.2_Missense_Mutation_p.A58S			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	49					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				CCTGTCTGACGCATCCCAGGA	0.428													62	395	---	---	---	---	PASS	T	6859846	T	T	6859846	3	4	119	1	0	0	0	0	1	0	0	0	877	1087	38	1	209	1	ARHGAP28	18	6859846	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1464155	6859846	71217402	1172	44345										
LAMA1	284217	broad.mit.edu	37	chr18	6977865	6977865	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttccacgtctttgacttttCttccagccaacagagctaac	5	13	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:6977865C>G	uc002knm.2	-	44	6300	c.6206G>C	c.(6205-6207)AGA>ACA	p.R2069T	LAMA1_uc010wzj.1_Missense_Mutation_p.R1545T	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2069	Domain II and I.				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)	TTTGACTTTTCTTCCAGCCAA	0.398													9	56	---	---	---	---	PASS	G	6977865	G	G	6977865	3	3	119	1	0	0	0	0	1	0	0	0	8605	913	32	2	3101	2	LAMA1	18	6977865	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	118019	6977865	71099383	1173	44346										
LAMA1	284217	broad.mit.edu	37	chr18	7037697	7037697	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtgcatcttgctgagacggGatcttcctgggactgatcaa	12	9	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:7037697G>C	uc002knm.2	-	12	1711	c.1617C>G	c.(1615-1617)ATC>ATG	p.I539M	LAMA1_uc010wzj.1_Missense_Mutation_p.I15M	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	539	Laminin IV type A 1.				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)	GCTGAGACGGGATCTTCCTGG	0.507													22	135	---	---	---	---	PASS	C	7037697	C	C	7037697	3	2	119	1	0	0	0	0	1	0	0	0	8605	1164	41	2	7818	2	LAMA1	18	7037697	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	59832	7037697	71039551	1174	44347										
ANKRD12	23253	broad.mit.edu	37	chr18	9258259	9258259	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatgccaaaaggaaacctaaAtgaacaagatccaaaacatt	6	8	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:9258259A>C	uc002knv.2	+	9	5251	c.4994A>C	c.(4993-4995)AAT>ACT	p.N1665T	ANKRD12_uc002knw.2_Missense_Mutation_p.N1642T|ANKRD12_uc002knx.2_Missense_Mutation_p.N1642T|ANKRD12_uc010dkx.1_Missense_Mutation_p.N1372T	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	1665						nucleus				ovary(2)|central_nervous_system(1)	3						GGAAACCTAAATGAACAAGAT	0.348													13	97	---	---	---	---	PASS	C	9258259	C	C	9258259	3	2	119	1	0	0	0	0	1	0	0	0	640	101	4	5	5024	5	ANKRD12	18	9258259	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	2220562	9258259	68818989	1175	44348										
ANKRD12	23253	broad.mit.edu	37	chr18	9263833	9263833	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atccacttaaagagctttttCgacaacaggaagttgtaagg	9	7	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:9263833C>T	uc002knv.2	+	10	5967	c.5710C>T	c.(5710-5712)CGA>TGA	p.R1904*	ANKRD12_uc002knw.2_Nonsense_Mutation_p.R1881*|ANKRD12_uc002knx.2_Nonsense_Mutation_p.R1881*	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	1904						nucleus				ovary(2)|central_nervous_system(1)	3						AGAGCTTTTTCGACAACAGGA	0.299													26	174	---	---	---	---	PASS	T	9263833	T	T	9263833	4	4	119	1	0	0	0	0	0	1	0	0	640	876	31	2	5744	2	ANKRD12	18	9263833	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5574	9263833	68813415	1176	44349										
C18orf1	753	broad.mit.edu	37	chr18	13438368	13438368	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggtgaccgagcacccgcctCcgggcatcttcaactgtaag	11	14	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:13438368C>T	uc002ksa.2	+	4	834	c.166C>T	c.(166-168)CCG>TCG	p.P56S	C18orf1_uc002ksb.2_Missense_Mutation_p.P56S	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	56	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		GCACCCGCCTCCGGGCATCTT	0.542													32	257	---	---	---	---	PASS	T	13438368	T	T	13438368	3	4	119	1	0	0	0	0	1	0	0	0	1894	855	30	2	172	2	C18orf1	18	13438368	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4174535	13438368	64638880	1177	44350										
C18orf1	753	broad.mit.edu	37	chr18	13438379	13438379	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cacccgcctccgggcatcttCaactgtaagtctctcctccc	6	19	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:13438379C>T	uc002ksa.2	+	4	845	c.177C>T	c.(175-177)TTC>TTT	p.F59F	C18orf1_uc002ksb.2_Silent_p.F59F	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	59	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		CGGGCATCTTCAACTGTAAGT	0.547													41	247	---	---	---	---	PASS	T	13438379	T	T	13438379	2	4	119	1	0	0	0	0	0	0	0	1	1894	825	29	2		2	C18orf1	18	13438379	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	11	13438379	64638869	1178	44351										
C18orf1	753	broad.mit.edu	37	chr18	13645550	13645550	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctctttcctccatcaccagcGcagcaacgcacacaggggca	8	17	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:13645550G>A	uc002ksa.2	+	7	1483	c.815G>A	c.(814-816)CGC>CAC	p.R272H	C18orf1_uc002ksb.2_Missense_Mutation_p.R254H|C18orf1_uc002kse.2_Missense_Mutation_p.R235H|C18orf1_uc002ksf.2_Missense_Mutation_p.R217H|C18orf1_uc002ksg.1_Missense_Mutation_p.R195H|C18orf1_uc002ksh.1_Missense_Mutation_p.R214H|C18orf1_uc002ksi.1_Missense_Mutation_p.R196H	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	272	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		CATCACCAGCGCAGCAACGCA	0.587													4	161	---	---	---	---	PASS	A	13645550	A	A	13645550	3	1	119	1	0	0	0	0	1	0	0	0	1894	1087	38	1	914	1	C18orf1	18	13645550	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	207171	13645550	64431698	1179	44352										
ASXL3	80816	broad.mit.edu	37	chr18	31323250	31323250	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccaaacttagaagtctcttcTacccctgaaacaaaaatgga	5	11	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:31323250T>C	uc010dmg.1	+	12	3493	c.3438T>C	c.(3436-3438)TCT>TCC	p.S1146S	ASXL3_uc002kxq.2_Silent_p.S853S	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1146					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						AAGTCTCTTCTACCCCTGAAA	0.507													9	38	---	---	---	---	PASS	C	31323250	C	C	31323250	2	2	119	1	0	0	0	0	0	0	0	1	1068	1509	53	5		5	ASXL3	18	31323250	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	17677700	31323250	46753998	1180	44353										
ME2	4200	broad.mit.edu	37	chr18	48473422	48473422	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tatgctaataaaatggctttCcgatacccagaacctgaaga	7	9	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:48473422C>G	uc002ley.2	+	16	1879	c.1623C>G	c.(1621-1623)TTC>TTG	p.F541L	ME2_uc010dpd.2_3'UTR	NM_002396	NP_002387	P23368	MAOM_HUMAN	malic enzyme 2, NAD(+)-dependent, mitochondrial	541					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)	AAATGGCTTTCCGATACCCAG	0.383													23	319	---	---	---	---	PASS	G	48473422	G	G	48473422	3	3	119	1	0	0	0	0	1	0	0	0	9418	854	30	2	1681	2	ME2	18	48473422	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	17150172	48473422	29603826	1181	44354										
TCF4	6925	broad.mit.edu	37	chr18	52899786	52899786	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatatccttcttgtcgtcatCtaatttcttgtcctccgaag	6	11	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:52899786C>G	uc002lfz.2	-	17	2215	c.1603G>C	c.(1603-1605)GAT>CAT	p.D535H	TCF4_uc002lfw.3_Missense_Mutation_p.D375H|TCF4_uc010xdu.1_Missense_Mutation_p.D405H|TCF4_uc010xdv.1_Missense_Mutation_p.D405H|TCF4_uc002lfx.2_Missense_Mutation_p.D464H|TCF4_uc010xdw.1_Missense_Mutation_p.D405H|TCF4_uc002lfy.2_Missense_Mutation_p.D493H|TCF4_uc010xdx.1_Missense_Mutation_p.D511H|TCF4_uc010dph.1_Missense_Mutation_p.D535H|TCF4_uc010xdy.1_Missense_Mutation_p.D511H|TCF4_uc002lga.2_Missense_Mutation_p.D637H|TCF4_uc002lgb.1_Missense_Mutation_p.D375H|TCF4_uc010dpi.2_Missense_Mutation_p.D541H|TCF4_uc002lfv.2_Missense_Mutation_p.D318H	NM_003199	NP_003190	P15884	ITF2_HUMAN	transcription factor 4 isoform b	535			D -> G (in PTHS; loss of function).		positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)		TTGTCGTCATCTAATTTCTTG	0.413													6	116	---	---	---	---	PASS	G	52899786	G	G	52899786	3	3	119	1	0	0	0	0	1	0	0	0	15692	913	32	2	424	2	TCF4	18	52899786	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	4426364	52899786	25177462	1182	44355										
CDH19	28513	broad.mit.edu	37	chr18	64197089	64197089	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aatgagtccttacctgaccaGagcctgcattttcacaaaca	6	12	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:64197089G>T	uc002lkc.1	-	9	1589	c.1451C>A	c.(1450-1452)TCT>TAT	p.S484Y	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Missense_Mutation_p.S484Y	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	484	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				TACCTGACCAGAGCCTGCATT	0.279													42	143	---	---	---	---	PASS	T	64197089	T	T	64197089	3	4	119	1	0	0	0	0	1	0	0	0	3104	942	33	2	883	2	CDH19	18	64197089	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	11297303	64197089	13880159	1183	44356										
NETO1	81832	broad.mit.edu	37	chr18	70417456	70417456	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggatgaggggttttcctggcTgtgtgggcatctctgtcaag	16	7	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:70417456T>A	uc002lkw.2	-	9	1666	c.1382A>T	c.(1381-1383)CAG>CTG	p.Q461L	NETO1_uc002lkx.1_Missense_Mutation_p.Q460L|NETO1_uc002lky.1_Missense_Mutation_p.Q461L	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	461	Cytoplasmic (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		TTTTCCTGGCTGTGTGGGCAT	0.483													4	90	---	---	---	---	PASS	A	70417456	A	A	70417456	3	1	119	1	0	0	0	0	1	0	0	0	10339	1580	55	5	227	5	NETO1	18	70417456	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	6220367	70417456	7659792	1184	44357										
FBXO15	201456	broad.mit.edu	37	chr18	71796839	71796839	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagtataattgcccaacctaAaccaaatattctggagaaag	6	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:71796839A>G	uc002lle.2	-	5	694	c.358T>C	c.(358-360)TTA>CTA	p.L120L	FBXO15_uc002llf.2_Silent_p.L196L	NM_152676	NP_689889	Q8NCQ5	FBX15_HUMAN	F-box protein 15 isoform 1	120										ovary(2)|pancreas(1)	3		Esophageal squamous(42;0.103)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.143)		GCCCAACCTAAACCAAATATT	0.303													21	55	---	---	---	---	PASS	G	71796839	G	G	71796839	2	3	119	1	0	0	0	0	0	0	0	1	5728	11	1	5		5	FBXO15	18	71796839	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	1379383	71796839	6280409	1185	44358										
ZNF236	7776	broad.mit.edu	37	chr18	74635112	74635112	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaaatccactctcgattgtCatgtgaagactcacacaggt	8	10	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:74635112C>G	uc002lmi.2	+	21	3835	c.3637C>G	c.(3637-3639)CAT>GAT	p.H1213D	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1213	C2H2-type 23.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TCTCGATTGTCATGTGAAGAC	0.383													13	59	---	---	---	---	PASS	G	74635112	G	G	74635112	3	3	119	1	0	0	0	0	1	0	0	0	17786	826	29	2	3719	2	ZNF236	18	74635112	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2838273	74635112	3442136	1186	44359										
ZNF236	7776	broad.mit.edu	37	chr18	74639006	74639006	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggccagctgggggtgacctGaccgtgtctctgacagatgg	16	10	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:74639006G>C	uc002lmi.2	+	23	4233	c.4035G>C	c.(4033-4035)CTG>CTC	p.L1345L	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1345					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GGGGTGACCTGACCGTGTCTC	0.418													22	117	---	---	---	---	PASS	C	74639006	C	C	74639006	2	2	119	1	0	0	0	0	0	0	0	1	17786	1277	45	2		2	ZNF236	18	74639006	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	3894	74639006	3438242	1187	44360										
ADNP2	22850	broad.mit.edu	37	chr18	77895042	77895042	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgcctgtgaatcagccagtGagacctggtgcttcgcagaa	12	11	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr18:77895042G>A	uc002lnw.2	+	4	2201	c.1746G>A	c.(1744-1746)GTG>GTA	p.V582V		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	582					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		ATCAGCCAGTGAGACCTGGTG	0.537													18	83	---	---	---	---	PASS	A	77895042	A	A	77895042	2	1	119	1	0	0	0	0	0	0	0	1	324	1277	45	2		2	ADNP2	18	77895042	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	3256036	77895042	182206	1188	44361										
MED16	10025	broad.mit.edu	37	chr19	875362	875362	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagctgatggcgatgaggaaGagcttggtgtggtagtcgca	18	5	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:875362G>C	uc002lqd.1	-	10	1804	c.1653C>G	c.(1651-1653)CTC>CTG	p.L551L	MED16_uc010drw.1_Silent_p.L376L|MED16_uc002lqe.2_Silent_p.L540L|MED16_uc002lqf.2_Silent_p.L540L|MED16_uc010xfv.1_Intron|MED16_uc010xfw.1_Silent_p.L471L|MED16_uc010xfx.1_Silent_p.L396L|MED16_uc010xfy.1_Intron|MED16_uc010xfz.1_5'Flank	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	551					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGATGAGGAAGAGCTTGGTGT	0.647													30	50	---	---	---	---	PASS	C	875362	C	C	875362	2	2	119	1	0	0	0	0	0	0	0	1	9434	929	33	2		2	MED16	19	875362	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08		875362	58253621	1189	44362										
SBNO2	22904	broad.mit.edu	37	chr19	1109754	1109756	+	In_Frame_Del	DEL	CTC	-	-													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgctggctctcctcgtagatCtcctcgataccgggagcaag							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:1109754_1109756delCTC	uc002lrk.3	-	27	3287_3289	c.3049_3051delGAG	c.(3049-3051)GAGdel	p.E1017del	SBNO2_uc002lri.3_5'Flank|SBNO2_uc002lrj.3_In_Frame_Del_p.E960del|SBNO2_uc010dse.2_In_Frame_Del_p.E1000del|SBNO2_uc010xgj.1_Intron	NM_014963	NP_055778	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 isoform 1	1017					macrophage activation involved in immune response|negative regulation of transcription, DNA-dependent|regulation of inflammatory response|transcription, DNA-dependent						0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCGTAGATCTCCTCGATACCG	0.675													31	30	---	---	---	---		-	1109756	-	-	1109754	7	5	119	1	0	1	0	1	0	0	0	0	13863	912	32	0	1073	0	SBNO2	19	1109754	In_Frame_Del	DEL	CTC	TCGA-60-2698-01A-01D-1522-08	234392	1109754	58019229	1190	44363										
MUM1	84939	broad.mit.edu	37	chr19	1360266	1360266	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgcagggacaggtagagctGaccggtctctgcgagggaag	17	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:1360266G>C	uc010xgm.1	+	4	415	c.346G>C	c.(346-348)GAC>CAC	p.D116H	MUM1_uc010dsi.2_Missense_Mutation_p.D48H|MUM1_uc002lrz.2_Missense_Mutation_p.D117H|MUM1_uc002lsb.2_Missense_Mutation_p.D48H|MUM1_uc002lsc.1_Missense_Mutation_p.D48H			Q2TAK8	MUM1_HUMAN	SubName: Full=MUM1 protein;	116					chromatin organization|DNA repair	nucleus	nucleosome binding|protein binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGTAGAGCTGACCGGTCTCT	0.597											OREG0025088	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	70	107	---	---	---	---	PASS	C	1360266	C	C	1360266	3	2	119	1	0	0	0	0	1	0	0	0	9985	1290	45	2	363	2	MUM1	19	1360266	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	250512	1360266	57768717	1191	44364										
MUM1	84939	broad.mit.edu	37	chr19	1360504	1360504	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cccgttggtcctcccagctgGaggtggtgcccaagatgaga	14	12	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:1360504G>C	uc010xgm.1	+	4	653	c.584G>C	c.(583-585)GGA>GCA	p.G195A	MUM1_uc010dsi.2_Missense_Mutation_p.G127A|MUM1_uc002lrz.2_Missense_Mutation_p.G196A|MUM1_uc002lsb.2_Missense_Mutation_p.G127A|MUM1_uc002lsc.1_Missense_Mutation_p.G127A			Q2TAK8	MUM1_HUMAN	SubName: Full=MUM1 protein;	195					chromatin organization|DNA repair	nucleus	nucleosome binding|protein binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCCAGCTGGAGGTGGTGCC	0.532											OREG0025088	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	42	---	---	---	---	PASS	C	1360504	C	C	1360504	3	2	119	1	0	0	0	0	1	0	0	0	9985	1174	41	2	601	2	MUM1	19	1360504	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	238	1360504	57768479	1192	44365										
MOBKL2A	126308	broad.mit.edu	37	chr19	2078284	2078284	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tactcatacttggggcccccCgacatgacggggcaggactg	13	13	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:2078284C>T	uc002luu.2	-	1	435	c.276G>A	c.(274-276)TCG>TCA	p.S92S	MOBKL2A_uc002luv.2_Silent_p.S92S	NM_130807	NP_570719	Q96BX8	MOL2A_HUMAN	MOB-LAK	92						intracellular	metal ion binding			lung(1)	1		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGGGCCCCCCGACATGACGG	0.612													5	30	---	---	---	---	PASS	T	2078284	T	T	2078284	2	4	119	1	0	0	0	0	0	0	0	1	9684	639	23	1		1	MOBKL2A	19	2078284	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	717780	2078284	57050699	1193	44366										
NFIC	4782	broad.mit.edu	37	chr19	3381931	3381931	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccaagctgcgcaaggacatCcggcccgagtgccgcgagga	15	14	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:3381931C>G	uc010xhi.1	+	2	314	c.252C>G	c.(250-252)ATC>ATG	p.I84M	NFIC_uc002lxo.2_Missense_Mutation_p.I75M|NFIC_uc010xhh.1_Missense_Mutation_p.I75M|NFIC_uc002lxp.2_Missense_Mutation_p.I84M|NFIC_uc010xhj.1_Missense_Mutation_p.I84M|NFIC_uc002lxq.1_Missense_Mutation_p.I36M	NM_205843	NP_995315	P08651	NFIC_HUMAN	nuclear factor I/C isoform 2	84	CTF/NF-I.				DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.8e-05)|Epithelial(107;2.94e-108)|BRCA - Breast invasive adenocarcinoma(158;0.00154)|STAD - Stomach adenocarcinoma(1328;0.191)		GCAAGGACATCCGGCCCGAGT	0.677													6	149	---	---	---	---	PASS	G	3381931	G	G	3381931	3	3	119	1	0	0	0	0	1	0	0	0	10372	845	30	2	265	2	NFIC	19	3381931	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1303647	3381931	55747052	1194	44367										
PTPRS	5802	broad.mit.edu	37	chr19	5244280	5244280	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggagttgacggccgacaccCagatctcgtactccgagttg	12	12	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:5244280C>G	uc002mbv.2	-	11	1436	c.1202G>C	c.(1201-1203)TGG>TCG	p.W401S	PTPRS_uc002mbu.1_Missense_Mutation_p.W388S|PTPRS_uc010xin.1_Missense_Mutation_p.W388S|PTPRS_uc002mbw.2_Missense_Mutation_p.W388S|PTPRS_uc002mbx.2_Missense_Mutation_p.W392S|PTPRS_uc002mby.2_Missense_Mutation_p.W388S	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	401	Fibronectin type-III 1.|Extracellular (Potential).				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GGCCGACACCCAGATCTCGTA	0.647													9	81	---	---	---	---	PASS	G	5244280	G	G	5244280	3	3	119	1	0	0	0	0	1	0	0	0	12811	595	21	4	4756	4	PTPRS	19	5244280	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1862349	5244280	53884703	1195	44368										
LONP1	9361	broad.mit.edu	37	chr19	5692044	5692044	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgcagtcccggggtggccgtCaccgttccacggccagcgcc	14	17	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:5692044C>T	uc002mcx.2	-	18	2912	c.2879G>A	c.(2878-2880)TGA>TAA	p.*960*	LONP1_uc002mcy.2_Silent_p.*896*|LONP1_uc010duh.2_Silent_p.*701*|LONP1_uc010dui.2_Silent_p.*944*|LONP1_uc002mcz.2_Silent_p.*764*	NM_004793	NP_004784	P36776	LONM_HUMAN	mitochondrial lon peptidase 1 precursor	960					cellular chaperone-mediated protein complex assembly|cellular response to oxidative stress|misfolded or incompletely synthesized protein catabolic process|mitochondrial DNA metabolic process|oxidation-dependent protein catabolic process|protein homooligomerization|response to hypoxia	mitochondrial nucleoid	ADP binding|ATP binding|ATP-dependent peptidase activity|DNA polymerase binding|G-quadruplex DNA binding|mitochondrial heavy strand promoter anti-sense binding|mitochondrial light strand promoter anti-sense binding|sequence-specific DNA binding|serine-type endopeptidase activity|single-stranded DNA binding|single-stranded RNA binding				0						GGGTGGCCGTCACCGTTCCAC	0.687													4	92	---	---	---	---	PASS	T	5692044	T	T	5692044	2	4	119	1	0	0	0	0	0	0	0	1	8892	837	29	2		2	LONP1	19	5692044	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	447764	5692044	53436939	1196	44369										
VAV1	7409	broad.mit.edu	37	chr19	6825109	6825109	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcctgaaacctcaagacattGagatcatctttatcaacatt	4	10	4	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:6825109G>C	uc002mfu.1	+	7	797	c.700G>C	c.(700-702)GAG>CAG	p.E234Q	VAV1_uc010xjh.1_Missense_Mutation_p.E202Q|VAV1_uc010dva.1_Missense_Mutation_p.E234Q|VAV1_uc002mfv.1_Missense_Mutation_p.E179Q	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	234	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						TCAAGACATTGAGATCATCTT	0.537													58	165	---	---	---	---	PASS	C	6825109	C	C	6825109	3	2	119	1	0	0	0	0	1	0	0	0	17128	1291	45	2	726	2	VAV1	19	6825109	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1133065	6825109	52303874	1197	44370										
EMR1	2015	broad.mit.edu	37	chr19	6896534	6896534	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcaaaatcacttcaaggatCcaggagtgcgatgcaaaggt	12	8	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:6896534C>T	uc002mfw.2	+	3	258	c.220C>T	c.(220-222)CCA>TCA	p.P74S	EMR1_uc010dvc.2_Missense_Mutation_p.P74S|EMR1_uc010dvb.2_Missense_Mutation_p.P74S|EMR1_uc010xji.1_Missense_Mutation_p.P74S|EMR1_uc010xjj.1_Missense_Mutation_p.P74S	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	74	Extracellular (Potential).|EGF-like 1.				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					CTTCAAGGATCCAGGAGTGCG	0.483													71	75	---	---	---	---	PASS	T	6896534	T	T	6896534	3	4	119	1	0	0	0	0	1	0	0	0	5104	855	30	2	230	2	EMR1	19	6896534	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	71425	6896534	52232449	1198	44371										
FBN3	84467	broad.mit.edu	37	chr19	8150300	8150300	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcacagcttcctgtaggcaGaggtgccgggcaggggacag	18	10	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:8150300G>A	uc002mjf.2	-	55	7055	c.7034C>T	c.(7033-7035)TCT>TTT	p.S2345F	FBN3_uc002mje.2_Missense_Mutation_p.S184F	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2345	TB 9.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CCTGTAGGCAGAGGTGCCGGG	0.706													5	10	---	---	---	---	PASS	A	8150300	A	A	8150300	3	1	119	1	0	0	0	0	1	0	0	0	5704	942	33	2	1431	2	FBN3	19	8150300	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1253766	8150300	50978683	1199	44372										
NDUFA7	4701	broad.mit.edu	37	chr19	8381519	8381519	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acccacagggagcttgggagGaggctgagttctgaggggaa	18	7	1	2	rs142961225	by1000genomes	TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:8381519G>T	uc002mjm.1	-	3	150	c.112C>A	c.(112-114)CCT>ACT	p.P38T		NM_005001	NP_004992	O95182	NDUA7_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	38					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0					NADH(DB00157)	AGCTTGGGAGGAGGCTGAGTT	0.552													8	114	---	---	---	---	PASS	T	8381519	T	T	8381519	3	4	119	1	0	0	0	0	1	0	0	0	10270	1174	41	2	237	2	NDUFA7	19	8381519	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	231219	8381519	50747464	1200	44373										
ADAMTS10	81794	broad.mit.edu	37	chr19	8670048	8670048	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgtgccctgccagtagacggGagctgcgggtcaggttcagc	16	12	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:8670048G>T	uc002mkj.1	-	4	558	c.284C>A	c.(283-285)TCC>TAC	p.S95Y	ADAMTS10_uc002mkk.1_5'UTR	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	95					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						CAGTAGACGGGAGCTGCGGGT	0.706													18	22	---	---	---	---	PASS	T	8670048	T	T	8670048	3	4	119	1	0	0	0	0	1	0	0	0	256	1174	41	2	3119	2	ADAMTS10	19	8670048	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	288529	8670048	50458935	1201	44374										
OR1M1	125963	broad.mit.edu	37	chr19	9204718	9204718	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgtgtccctcctcggtcctCaccactgtgaaggagaaagc	10	14	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:9204718C>T	uc010xkj.1	+	1	798	c.798C>T	c.(796-798)CTC>CTT	p.L266L		NM_001004456	NP_001004456	Q8NGA1	OR1M1_HUMAN	olfactory receptor, family 1, subfamily M,	266	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3						CCTCGGTCCTCACCACTGTGA	0.547													26	299	---	---	---	---	PASS	T	9204718	T	T	9204718	2	4	119	1	0	0	0	0	0	0	0	1	10968	813	29	2		2	OR1M1	19	9204718	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	534670	9204718	49924265	1202	44375										
OR7D4	125958	broad.mit.edu	37	chr19	9325149	9325149	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtggcagatggccacaaacCggtcataggccatcacggcc	13	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:9325149C>T	uc002mla.1	-	1	365	c.365G>A	c.(364-366)CGG>CAG	p.R122Q		NM_001005191	NP_001005191	Q8NG98	OR7D4_HUMAN	olfactory receptor, family 7, subfamily D,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GGCCACAAACCGGTCATAGGC	0.502													5	131	---	---	---	---	PASS	T	9325149	T	T	9325149	3	4	119	1	0	0	0	0	1	0	0	0	11220	652	23	1	577	1	OR7D4	19	9325149	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	120431	9325149	49803834	1203	44376										
RAVER1	125950	broad.mit.edu	37	chr19	10432272	10432272	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctggagggcgcccaggggtGagtctcccaggatgccgggc	19	12	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:10432272G>C	uc002moa.2	-	7	1327	c.1247C>G	c.(1246-1248)TCA>TGA	p.S416*		NM_133452	NP_597709	Q8IY67	RAVR1_HUMAN	RAVER1	399						cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.81e-09)|Epithelial(33;3.65e-06)|all cancers(31;8.35e-06)			GCCCAGGGGTGAGTCTCCCAG	0.687													5	33	---	---	---	---	PASS	C	10432272	C	C	10432272	4	2	119	1	0	0	0	0	0	1	0	0	13094	1294	45	2	1051	2	RAVER1	19	10432272	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1107123	10432272	48696711	1204	44377										
RAVER1	125950	broad.mit.edu	37	chr19	10439679	10439679	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggttggccacacacagcaggGcatccgtgggctgcagctgc	15	13	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:10439679G>T	uc002moa.2	-	3	526	c.446C>A	c.(445-447)GCC>GAC	p.A149D		NM_133452	NP_597709	Q8IY67	RAVR1_HUMAN	RAVER1	132	RRM 2.					cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.81e-09)|Epithelial(33;3.65e-06)|all cancers(31;8.35e-06)			ACACAGCAGGGCATCCGTGGG	0.662													4	14	---	---	---	---	PASS	T	10439679	T	T	10439679	3	4	119	1	0	0	0	0	1	0	0	0	13094	1203	42	3	1868	3	RAVER1	19	10439679	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	7407	10439679	48689304	1205	44378										
DNM2	1785	broad.mit.edu	37	chr19	10912999	10912999	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gacattgagcagtcctacatCaacacgaaccatgaggactt	8	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:10912999C>G	uc002mps.1	+	12	1622	c.1458C>G	c.(1456-1458)ATC>ATG	p.I486M	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Missense_Mutation_p.I486M|DNM2_uc002mpv.1_Missense_Mutation_p.I486M|DNM2_uc002mpu.1_Missense_Mutation_p.I486M|DNM2_uc010dxl.1_Missense_Mutation_p.I486M|DNM2_uc002mpw.2_Missense_Mutation_p.I219M	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	486					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			AGTCCTACATCAACACGAACC	0.562													8	114	---	---	---	---	PASS	G	10912999	G	G	10912999	3	3	119	1	0	0	0	0	1	0	0	0	4672	816	29	2	1647	2	DNM2	19	10912999	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	473320	10912999	48215984	1206	44379										
DNM2	1785	broad.mit.edu	37	chr19	10913020	10913020	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacacgaaccatgaggacttCatcgggtttgccaagtaggt	11	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:10913020C>T	uc002mps.1	+	12	1643	c.1479C>T	c.(1477-1479)TTC>TTT	p.F493F	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Silent_p.F493F|DNM2_uc002mpv.1_Silent_p.F493F|DNM2_uc002mpu.1_Silent_p.F493F|DNM2_uc010dxl.1_Silent_p.F493F|DNM2_uc002mpw.2_Silent_p.F226F	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	493					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			ATGAGGACTTCATCGGGTTTG	0.537													8	112	---	---	---	---	PASS	T	10913020	T	T	10913020	2	4	119	1	0	0	0	0	0	0	0	1	4672	825	29	2		2	DNM2	19	10913020	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	21	10913020	48215963	1207	44380										
DOCK6	57572	broad.mit.edu	37	chr19	11338084	11338084	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatgtcgtccaggaagcgtcCggggaagcgcagcttgcggg	18	10	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:11338084C>A	uc002mqs.3	-	24	2925	c.2884G>T	c.(2884-2886)GGA>TGA	p.G962*	DOCK6_uc010xlq.1_Nonsense_Mutation_p.G301*	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	962					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						AGGAAGCGTCCGGGGAAGCGC	0.517													26	33	---	---	---	---	PASS	A	11338084	A	A	11338084	4	1	119	1	0	0	0	0	0	1	0	0	4691	661	23	1	3359	1	DOCK6	19	11338084	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	425064	11338084	47790899	1208	44381										
ZNF440	126070	broad.mit.edu	37	chr19	11943147	11943147	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attccagttcccttcgatatCatgaaaggactcacactgga	7	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:11943147C>G	uc002msp.1	+	4	1312	c.1156C>G	c.(1156-1158)CAT>GAT	p.H386D		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	386	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCTTCGATATCATGAAAGGAC	0.438													8	131	---	---	---	---	PASS	G	11943147	G	G	11943147	3	3	119	1	0	0	0	0	1	0	0	0	17910	826	29	2	1170	2	ZNF440	19	11943147	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	605063	11943147	47185836	1209	44382										
ZNF799	90576	broad.mit.edu	37	chr19	12502916	12502916	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggctttcatatggacctactCcaggaagagtgttcttggtc	11	9	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:12502916C>G	uc010dyt.2	-	4	446	c.296G>C	c.(295-297)GGA>GCA	p.G99A	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	99					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						TGGACCTACTCCAGGAAGAGT	0.413													73	112	---	---	---	---	PASS	G	12502916	G	G	12502916	3	3	119	1	0	0	0	0	1	0	0	0	18163	855	30	2	1639	2	ZNF799	19	12502916	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	559769	12502916	46626067	1210	44383										
TRMT1	55621	broad.mit.edu	37	chr19	13216201	13216201	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcctccatagcttcgtcggcCgccttgcccctgtgcgaggg	12	16	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:13216201C>A	uc002mwj.2	-	15	1963	c.1713G>T	c.(1711-1713)GCG>GCT	p.A571A	LYL1_uc002mwi.2_5'Flank|TRMT1_uc010xmy.1_Silent_p.A175A|TRMT1_uc002mwk.2_Silent_p.A542A|TRMT1_uc002mwl.3_Silent_p.A571A|TRMT1_uc010xmz.1_3'UTR	NM_017722	NP_060192	Q9NXH9	TRM1_HUMAN	tRNA methyltransferase 1 isoform 1	571							RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.08e-22)	GBM - Glioblastoma multiforme(1328;0.0356)		CTTCGTCGGCCGCCTTGCCCC	0.642													10	186	---	---	---	---	PASS	A	13216201	A	A	13216201	2	1	119	1	0	0	0	0	0	0	0	1	16558	639	23	1		1	TRMT1	19	13216201	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	713285	13216201	45912782	1211	44384										
OR7C2	26658	broad.mit.edu	37	chr19	15053102	15053102	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgcagttacaccaccttctAggacaagtctggcagcctcg	9	14	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:15053102A>G	uc010xoc.1	+	1	802	c.802A>G	c.(802-804)AGG>GGG	p.R268G		NM_012377	NP_036509	O60412	OR7C2_HUMAN	olfactory receptor, family 7, subfamily C,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Ovarian(108;0.203)					ACCACCTTCTAGGACAAGTCT	0.542													86	139	---	---	---	---	PASS	G	15053102	G	G	15053102	3	3	119	1	0	0	0	0	1	0	0	0	11218	411	15	5	804	5	OR7C2	19	15053102	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	1836901	15053102	44075881	1212	44385										
SYDE1	85360	broad.mit.edu	37	chr19	15224645	15224645	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gacgaggaggtcggcgagccGagggtcaccggtgacttcga	18	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:15224645G>A	uc002nah.1	+	8	2110	c.2079G>A	c.(2077-2079)CCG>CCA	p.P693P	SYDE1_uc002nai.1_Silent_p.P626P|SYDE1_uc002naj.1_Silent_p.P350P	NM_033025	NP_149014	Q6ZW31	SYDE1_HUMAN	synapse defective 1, Rho GTPase, homolog 1	693					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|pancreas(1)	2						TCGGCGAGCCGAGGGTCACCG	0.627													16	169	---	---	---	---	PASS	A	15224645	A	A	15224645	2	1	119	1	0	0	0	0	0	0	0	1	15432	1045	37	2		2	SYDE1	19	15224645	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	171543	15224645	43904338	1213	44386										
NOTCH3	4854	broad.mit.edu	37	chr19	15298024	15298024	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtccacctggctctcgcagcGtgtgcccgtgtagccaggag	14	14	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:15298024G>C	uc002nan.2	-	11	1808	c.1732C>G	c.(1732-1734)CGC>GGC	p.R578G	NOTCH3_uc002nao.1_Missense_Mutation_p.R578G	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	578	Extracellular (Potential).|EGF-like 14; calcium-binding (Potential).		R -> C (in CADASIL).		Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CTCTCGCAGCGTGTGCCCGTG	0.647													18	45	---	---	---	---	PASS	C	15298024	C	C	15298024	3	2	119	1	0	0	0	0	1	0	0	0	10550	1145	40	4	5325	4	NOTCH3	19	15298024	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	73379	15298024	43830959	1214	44387										
WIZ	58525	broad.mit.edu	37	chr19	15537819	15537819	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcaggggtgtcatgtcttccCgtggtgccccccagggaccc	13	15	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:15537819C>A	uc002nbc.2	-	4	1600	c.1577G>T	c.(1576-1578)CGG>CTG	p.R526L	WIZ_uc002nba.3_Missense_Mutation_p.R393L|WIZ_uc002nbb.3_Missense_Mutation_p.R352L	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	1209						nucleus	zinc ion binding				0						CATGTCTTCCCGTGGTGCCCC	0.617													7	167	---	---	---	---	PASS	A	15537819	A	A	15537819	3	1	119	1	0	0	0	0	1	0	0	0	17372	652	23	1	1349	1	WIZ	19	15537819	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	239795	15537819	43591164	1215	44388										
NWD1	284434	broad.mit.edu	37	chr19	16918790	16918790	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctctttctttacgagtgtgCaacttccaaagcgtttccct	6	13	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:16918790C>A	uc002neu.3	+	18	4552	c.4130C>A	c.(4129-4131)GCA>GAA	p.A1377E	NWD1_uc002net.3_Missense_Mutation_p.A1242E|NWD1_uc002nev.3_Missense_Mutation_p.A1171E			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1377							ATP binding			skin(3)|ovary(2)|pancreas(2)	7						TACGAGTGTGCAACTTCCAAA	0.587													38	299	---	---	---	---	PASS	A	16918790	A	A	16918790	3	1	119	1	0	0	0	0	1	0	0	0	10781	710	25	3	3779	3	NWD1	19	16918790	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1380971	16918790	42210193	1216	44389										
USHBP1	83878	broad.mit.edu	37	chr19	17370132	17370132	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagatgcaatgctgtggcctCagcctcccgctggcctagct	11	15	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:17370132C>T	uc002nfs.1	-	7	1125	c.1012G>A	c.(1012-1014)GAG>AAG	p.E338K	USHBP1_uc002nfr.1_5'Flank|USHBP1_uc002nft.1_RNA|USHBP1_uc010xpk.1_Missense_Mutation_p.E274K|USHBP1_uc010eam.1_Missense_Mutation_p.E266K	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	338							PDZ domain binding			ovary(1)	1						GCTGTGGCCTCAGCCTCCCGC	0.577													4	71	---	---	---	---	PASS	T	17370132	T	T	17370132	3	4	119	1	0	0	0	0	1	0	0	0	17034	835	29	2	1127	2	USHBP1	19	17370132	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	451342	17370132	41758851	1217	44390										
BST2	684	broad.mit.edu	37	chr19	17516377	17516377	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgcaatagtcatacgaagtaGatgccatccagatctcccct	7	12	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:17516377G>C	uc002ngl.2	-	1	17	c.8C>G	c.(7-9)TCT>TGT	p.S3C	uc010eat.1_5'Flank|uc002ngm.1_5'Flank	NM_004335	NP_004326	Q10589	BST2_HUMAN	bone marrow stromal cell antigen 2 precursor	3	Cytoplasmic (Potential).				B cell activation|cell proliferation|cell-cell signaling|defense response to virus|humoral immune response|innate immune response|multicellular organismal development|positive regulation of I-kappaB kinase/NF-kappaB cascade	anchored to membrane|Golgi apparatus|integral to plasma membrane|late endosome	protein homodimerization activity|signal transducer activity			ovary(3)	3						ATACGAAGTAGATGCCATCCA	0.512													11	164	---	---	---	---	PASS	C	17516377	C	C	17516377	3	2	119	1	0	0	0	0	1	0	0	0	1534	942	33	2	550	2	BST2	19	17516377	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	146245	17516377	41612606	1218	44391										
UNC13A	23025	broad.mit.edu	37	chr19	17735674	17735674	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcggcaggacgatggttttCtccatggtgttcataaccag	13	9	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:17735674C>G	uc002nhd.2	-	35	4425	c.4425G>C	c.(4423-4425)GAG>GAC	p.E1475D		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1387	MHD2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						CGATGGTTTTCTCCATGGTGT	0.587													11	66	---	---	---	---	PASS	G	17735674	G	G	17735674	3	3	119	1	0	0	0	0	1	0	0	0	16981	912	32	2	986	2	UNC13A	19	17735674	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	219297	17735674	41393309	1219	44392										
SLC5A5	6528	broad.mit.edu	37	chr19	17986877	17986877	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggcgggccccgccaggtgctCacgctggcccagaaccactc	13	18	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:17986877C>G	uc002nhr.3	+	5	1007	c.660C>G	c.(658-660)CTC>CTG	p.L220L		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	220	Extracellular (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						GCCAGGTGCTCACGCTGGCCC	0.557													72	97	---	---	---	---	PASS	G	17986877	G	G	17986877	2	3	119	1	0	0	0	0	0	0	0	1	14668	813	29	2		2	SLC5A5	19	17986877	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	251203	17986877	41142106	1220	44393										
SLC5A5	6528	broad.mit.edu	37	chr19	17992823	17992823	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtcactgtagaagacctcatCaaacctcggctgcggagcct	10	13	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:17992823C>G	uc002nhr.3	+	9	1460	c.1113C>G	c.(1111-1113)ATC>ATG	p.I371M		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	371	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						AAGACCTCATCAAACCTCGGC	0.592													6	90	---	---	---	---	PASS	G	17992823	G	G	17992823	3	3	119	1	0	0	0	0	1	0	0	0	14668	816	29	2	1147	2	SLC5A5	19	17992823	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5946	17992823	41136160	1221	44394										
ELL	8178	broad.mit.edu	37	chr19	18561345	18561345	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcaggtgcacagtctggaagCtgggcccggggcttgtcctc	16	12	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:18561345C>G	uc002njh.2	-	8	1479	c.1407G>C	c.(1405-1407)CAG>CAC	p.Q469H	ELL_uc010ebq.2_Missense_Mutation_p.Q412H|ELL_uc002njg.2_Missense_Mutation_p.Q336H	NM_006532	NP_006523	P55199	ELL_HUMAN	elongation factor RNA polymerase II	469					positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	Cajal body|nuclear speck|transcription elongation factor complex	protein binding			lung(1)	1				GBM - Glioblastoma multiforme(1328;7.81e-07)		AGTCTGGAAGCTGGGCCCGGG	0.667			T	MLL	AL								4	71	---	---	---	---	PASS	G	18561345	G	G	18561345	3	3	119	1	0	0	0	0	1	0	0	0	5062	796	28	4	478	4	ELL	19	18561345	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	568522	18561345	40567638	1222	44395										
SFRS14	10147	broad.mit.edu	37	chr19	19141784	19141784	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctttaaactgaagagtttCgcttacagcctcaccactgg	8	11	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:19141784C>T	uc002nkx.2	-	2	243	c.97G>A	c.(97-99)GAA>AAA	p.E33K	SFRS14_uc002nkz.1_Missense_Mutation_p.E47K|SFRS14_uc002nla.1_Missense_Mutation_p.E33K|SFRS14_uc002nlb.2_Missense_Mutation_p.E33K|SFRS14_uc010xqk.1_5'UTR|ARMC6_uc002nlc.2_5'Flank|ARMC6_uc002nld.2_5'Flank|ARMC6_uc010xql.1_5'Flank|ARMC6_uc002nle.2_5'Flank	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	33					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			TGAAGAGTTTCGCTTACAGCC	0.408													30	503	---	---	---	---	PASS	T	19141784	T	T	19141784	3	4	119	1	0	0	0	0	1	0	0	0	14170	893	31	2	3187	2	SFRS14	19	19141784	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	580439	19141784	39987199	1223	44396										
NDUFA13	51079	broad.mit.edu	37	chr19	19636994	19636994	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcgcctctcttcacaggctAcagcatgctggccataggga	11	13	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:19636994A>G	uc010xqy.1	+	2	606	c.347A>G	c.(346-348)TAC>TGC	p.Y116C	NDUFA13_uc002nms.2_Missense_Mutation_p.Y116C|NDUFA13_uc010xqx.1_Missense_Mutation_p.Y116C|YJEFN3_uc002nmt.1_5'Flank|YJEFN3_uc010ecf.1_5'Flank|YJEFN3_uc002nmu.1_5'Flank	NM_015965	NP_057049	Q9P0J0	NDUAD_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	33	Helical; (Potential).				apoptotic nuclear change|induction of apoptosis by extracellular signals|negative regulation of cell growth|negative regulation of transcription, DNA-dependent|negative regulation of translation|protein import into nucleus|reactive oxygen species metabolic process|respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex I|nucleoplasm	ATP binding|NADH dehydrogenase (ubiquinone) activity|protein binding				0					NADH(DB00157)	TTCACAGGCTACAGCATGCTG	0.637													18	21	---	---	---	---	PASS	G	19636994	G	G	19636994	3	3	119	1	0	0	0	0	1	0	0	0	10263	391	14	5	104	5	NDUFA13	19	19636994	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	495210	19636994	39491989	1224	44397										
CILP2	148113	broad.mit.edu	37	chr19	19654817	19654817	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgctgactccggggagccgcTacgcttcgccaggattctgc	13	14	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:19654817T>A	uc002nmv.3	+	8	1548	c.1463T>A	c.(1462-1464)CTA>CAA	p.L488Q	CILP2_uc002nmw.3_Missense_Mutation_p.L494Q	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	488						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						GGGGAGCCGCTACGCTTCGCC	0.677													10	13	---	---	---	---	PASS	A	19654817	A	A	19654817	3	1	119	1	0	0	0	0	1	0	0	0	3430	1522	53	5	1493	5	CILP2	19	19654817	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	17823	19654817	39474166	1225	44398										
ZNF253	56242	broad.mit.edu	37	chr19	20002737	20002737	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attcataccggagagaaaccCtacagatgtgaagaatgtgg	11	7	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:20002737C>G	uc002noj.2	+	4	773	c.681C>G	c.(679-681)CCC>CCG	p.P227P	ZNF253_uc002nok.2_Silent_p.P151P|ZNF253_uc002nol.2_RNA	NM_021047	NP_066385	O75346	ZN253_HUMAN	zinc finger protein 253	227				Missing (in Ref. 1; AAC26844).	negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAGAGAAACCCTACAGATGTG	0.383													10	105	---	---	---	---	PASS	G	20002737	G	G	20002737	2	3	119	1	0	0	0	0	0	0	0	1	17794	668	24	4		4	ZNF253	19	20002737	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	347920	20002737	39126246	1226	44399										
ZNF91	7644	broad.mit.edu	37	chr19	23544021	23544021	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcttatgtgtagaaagacttGaggaatgattaaaagctttg	10	3	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:23544021G>C	uc002nre.2	-	4	1873	c.1760C>G	c.(1759-1761)TCA>TGA	p.S587*	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Nonsense_Mutation_p.S555*	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	587	C2H2-type 16.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				AGAAAGACTTGAGGAATGATT	0.353													10	169	---	---	---	---	PASS	C	23544021	C	C	23544021	4	2	119	1	0	0	0	0	0	1	0	0	18197	1294	45	2	1819	2	ZNF91	19	23544021	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3541284	23544021	35584962	1227	44400										
ZNF91	7644	broad.mit.edu	37	chr19	23544679	23544679	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcagtatgagttatcttatGattagcaagggttgaggaat	11	3	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:23544679G>C	uc002nre.2	-	4	1215	c.1102C>G	c.(1102-1104)CAT>GAT	p.H368D	ZNF91_uc010xrj.1_Missense_Mutation_p.H336D	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	368	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				GTTATCTTATGATTAGCAAGG	0.348													79	133	---	---	---	---	PASS	C	23544679	C	C	23544679	3	2	119	1	0	0	0	0	1	0	0	0	18197	1290	45	2	2477	2	ZNF91	19	23544679	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	658	23544679	35584304	1228	44401										
ZNF254	9534	broad.mit.edu	37	chr19	24289358	24289358	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttaataaaacaggtattgctGtctctaagccagacctgatc	7	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:24289358G>C	uc002nru.2	+	3	300	c.166G>C	c.(166-168)GTC>CTC	p.V56L	ZNF254_uc010xrk.1_Intron|ZNF254_uc002nrt.1_RNA	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	56	KRAB.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				AGGTATTGCTGTCTCTAAGCC	0.398													61	126	---	---	---	---	PASS	C	24289358	C	C	24289358	3	2	119	1	0	0	0	0	1	0	0	0	17795	1377	48	4	176	4	ZNF254	19	24289358	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	744679	24289358	34839625	1229	44402										
LRP3	4037	broad.mit.edu	37	chr19	33695573	33695573	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctttgacgtggaggagtcccAccagtgctccctggactggc	13	13	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:33695573A>T	uc010edh.2	+	4	383	c.290A>T	c.(289-291)CAC>CTC	p.H97L	LRP3_uc010xrp.1_5'UTR|LRP3_uc002nuk.3_5'UTR	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	97	Extracellular (Potential).|CUB 1.				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					GAGGAGTCCCACCAGTGCTCC	0.672													98	102	---	---	---	---	PASS	T	33695573	T	T	33695573	3	4	119	1	0	0	0	0	1	0	0	0	8958	159	6	5	304	5	LRP3	19	33695573	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	9406215	33695573	25433410	1230	44403										
FFAR3	2865	broad.mit.edu	37	chr19	35849879	35849879	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcactttcctggtggggctCcccctcaacctgctggccct	9	18	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:35849879C>G	uc002nzd.2	+	2	162	c.87C>G	c.(85-87)CTC>CTG	p.L29L	FFAR3_uc010xsu.1_RNA	NM_005304	NP_005295	O14843	FFAR3_HUMAN	free fatty acid receptor 3	29	Helical; Name=1; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding				0	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;1.29e-19)|OV - Ovarian serous cystadenocarcinoma(14;4.63e-18)|all cancers(14;5.19e-17)|LUSC - Lung squamous cell carcinoma(66;0.0221)			TGGTGGGGCTCCCCCTCAACC	0.647													7	198	---	---	---	---	PASS	G	35849879	G	G	35849879	2	3	119	1	0	0	0	0	0	0	0	1	5829	842	30	2		2	FFAR3	19	35849879	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2154306	35849879	23279104	1231	44404										
NPHS1	4868	broad.mit.edu	37	chr19	36342189	36342189	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atggagaggatcactctgggAgacacgagctcgggccccat	14	11	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:36342189A>G	uc002oby.2	-	3	372	c.372T>C	c.(370-372)TCT>TCC	p.S124S		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	124	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TCACTCTGGGAGACACGAGCT	0.622													5	78	---	---	---	---	PASS	G	36342189	G	G	36342189	2	3	119	1	0	0	0	0	0	0	0	1	10582	291	11	5		5	NPHS1	19	36342189	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	492310	36342189	22786794	1232	44405										
KIRREL2	84063	broad.mit.edu	37	chr19	36348353	36348353	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tactgggggctagttcagtgGactaagagtgggctggccct	16	8	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:36348353G>A	uc002ocb.3	+	2	380	c.168G>A	c.(166-168)TGG>TGA	p.W56*	KIRREL2_uc002obz.3_Nonsense_Mutation_p.W56*|KIRREL2_uc002oca.3_Intron|KIRREL2_uc002occ.3_Intron|KIRREL2_uc002ocd.3_Nonsense_Mutation_p.W53*	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	56	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TAGTTCAGTGGACTAAGAGTG	0.652													8	207	---	---	---	---	PASS	A	36348353	A	A	36348353	4	1	119	1	0	0	0	0	0	1	0	0	8325	1183	41	2	174	2	KIRREL2	19	36348353	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6164	36348353	22780630	1233	44406										
ZNF345	25850	broad.mit.edu	37	chr19	37369115	37369115	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaatgtaagaactgtgggaaGgcttatgggagggattcaga	16	3	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:37369115G>A	uc002oex.2	+	3	1761	c.1383G>A	c.(1381-1383)AAG>AAA	p.K461K	ZNF345_uc002oey.3_Silent_p.K461K|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	461	C2H2-type 15.				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ACTGTGGGAAGGCTTATGGGA	0.388													79	334	---	---	---	---	PASS	A	37369115	A	A	37369115	2	1	119	1	0	0	0	0	0	0	0	1	17856	991	35	3		3	ZNF345	19	37369115	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1020762	37369115	21759868	1234	44407										
ZNF527	84503	broad.mit.edu	37	chr19	37879981	37879981	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagctttcagacagagtgctCaccttgctcaacatcagagg	9	11	4	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:37879981C>G	uc010efk.1	+	5	1141	c.1030C>G	c.(1030-1032)CAC>GAC	p.H344D	ZNF527_uc002ogf.3_Missense_Mutation_p.H312D|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	344	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ACAGAGTGCTCACCTTGCTCA	0.438													9	267	---	---	---	---	PASS	G	37879981	G	G	37879981	3	3	119	1	0	0	0	0	1	0	0	0	17965	826	29	2	1044	2	ZNF527	19	37879981	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	510866	37879981	21249002	1235	44408										
ZNF781	163115	broad.mit.edu	37	chr19	38160578	38160578	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgatgctgaataagagttGagcgattgttaaatgccttc	10	6	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:38160578G>C	uc002ogy.2	-	4	1214	c.472C>G	c.(472-474)CAA>GAA	p.Q158E	ZNF781_uc002ogz.2_Missense_Mutation_p.Q153E	NM_152605	NP_689818	Q8N8C0	ZN781_HUMAN	zinc finger protein 781	158					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AATAAGAGTTGAGCGATTGTT	0.388													78	407	---	---	---	---	PASS	C	38160578	C	C	38160578	3	2	119	1	0	0	0	0	1	0	0	0	18151	1299	45	2	515	2	ZNF781	19	38160578	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	280597	38160578	20968405	1236	44409										
FAM98C	147965	broad.mit.edu	37	chr19	38896018	38896018	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccttctctgcccccagggtCcctgcagcccctcctcagct	8	21	2	0	rs139841886		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:38896018C>G	uc002oin.1	+	5	609	c.590C>G	c.(589-591)TCC>TGC	p.S197C	FAM98C_uc002oio.1_Intron|FAM98C_uc010xtz.1_Intron	NM_174905	NP_777565	Q17RN3	FA98C_HUMAN	hypothetical protein LOC147965	197								p.S197F(1)		skin(1)	1	all_cancers(60;3.95e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCCCCAGGGTCCCTGCAGCCC	0.582													34	141	---	---	---	---	PASS	G	38896018	G	G	38896018	3	3	119	1	0	0	0	0	1	0	0	0	5658	855	30	2	608	2	FAM98C	19	38896018	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	735440	38896018	20232965	1237	44410										
RYR1	6261	broad.mit.edu	37	chr19	38980838	38980838	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagcggagccgctatggcctCctcataaaagccttcagcat	9	14	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:38980838C>T	uc002oit.2	+	36	6067	c.5937C>T	c.(5935-5937)CTC>CTT	p.L1979L	RYR1_uc002oiu.2_Silent_p.L1979L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1979	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GCTATGGCCTCCTCATAAAAG	0.617													19	58	---	---	---	---	PASS	T	38980838	T	T	38980838	2	4	119	1	0	0	0	0	0	0	0	1	13768	842	30	2		2	RYR1	19	38980838	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	84820	38980838	20148145	1238	44411										
RYR1	6261	broad.mit.edu	37	chr19	39055641	39055641	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcatcttcgacgtggtgaacGagggcggcgaggctgagaag	17	8	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:39055641G>A	uc002oit.2	+	91	12797	c.12667G>A	c.(12667-12669)GAG>AAG	p.E4223K	RYR1_uc002oiu.2_Missense_Mutation_p.E4218K|RYR1_uc002oiv.1_Missense_Mutation_p.E1132K	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4223					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CGTGGTGAACGAGGGCGGCGA	0.637													4	6	---	---	---	---	PASS	A	39055641	A	A	39055641	3	1	119	1	0	0	0	0	1	0	0	0	13768	1059	37	2	13029	2	RYR1	19	39055641	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	74803	39055641	20073342	1239	44412										
MAP4K1	11184	broad.mit.edu	37	chr19	39086131	39086131	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atggaggggcttacctgatcCgagcctagagcccacacctg	12	13	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:39086131C>T	uc002oix.1	-	29	2442	c.2334G>A	c.(2332-2334)TCG>TCA	p.S778S	MAP4K1_uc002oiw.1_Silent_p.S365S|MAP4K1_uc002oiy.1_Silent_p.S778S	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	778	CNH.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TTACCTGATCCGAGCCTAGAG	0.567													6	97	---	---	---	---	PASS	T	39086131	T	T	39086131	2	4	119	1	0	0	0	0	0	0	0	1	9259	639	23	1		1	MAP4K1	19	39086131	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	30490	39086131	20042852	1240	44413										
FBXO27	126433	broad.mit.edu	37	chr19	39521733	39521733	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggccacagaccctcctcctCtaggtccaagacctgcttct	7	17	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:39521733C>T	uc002okh.2	-	4	590	c.508G>A	c.(508-510)GAG>AAG	p.E170K		NM_178820	NP_849142	Q8NI29	FBX27_HUMAN	F-box protein 27	170	FBA.				protein catabolic process	SCF ubiquitin ligase complex	glycoprotein binding			ovary(1)	1	all_cancers(60;3.79e-07)|all_lung(34;1.26e-07)|Lung NSC(34;1.46e-07)|all_epithelial(25;4.69e-07)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			CCCTCCTCCTCTAGGTCCAAG	0.522													191	204	---	---	---	---	PASS	T	39521733	T	T	39521733	3	4	119	1	0	0	0	0	1	0	0	0	5737	922	32	2	355	2	FBXO27	19	39521733	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	435602	39521733	19607250	1241	44414										
PLEKHG2	64857	broad.mit.edu	37	chr19	39914967	39914967	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggaggttccagggatgttcAgggcccagaccctgtctgca	14	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:39914967A>T	uc010xuz.1	+	19	3519	c.3194A>T	c.(3193-3195)CAG>CTG	p.Q1065L	PLEKHG2_uc010xuy.1_Missense_Mutation_p.Q1006L|PLEKHG2_uc002olj.2_Intron|PLEKHG2_uc010xva.1_Missense_Mutation_p.Q843L	NM_022835	NP_073746	Q9H7P9	PKHG2_HUMAN	common-site lymphoma/leukemia guanine nucleotide	1065					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			skin(2)|pancreas(1)|breast(1)	4	all_cancers(60;3.08e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;6.57e-07)|Ovarian(47;0.0569)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			AGGGATGTTCAGGGCCCAGAC	0.587													51	296	---	---	---	---	PASS	T	39914967	T	T	39914967	3	4	119	1	0	0	0	0	1	0	0	0	12069	188	7	5	3264	5	PLEKHG2	19	39914967	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	393234	39914967	19214016	1242	44415										
DYRK1B	9149	broad.mit.edu	37	chr19	40316475	40316475	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtcatccgagtccggagggcTgaggcagccgggtgctgggg	20	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:40316475T>A	uc002omj.2	-	11	2050	c.1770A>T	c.(1768-1770)TCA>TCT	p.S590S	DYRK1B_uc002omi.2_Silent_p.S562S|DYRK1B_uc002omk.2_Silent_p.S550S	NM_004714	NP_004705	Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	590					positive regulation of transcription, DNA-dependent	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|transcription coactivator activity			ovary(4)|stomach(1)|central_nervous_system(1)|skin(1)	7	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)		Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)			TCCGGAGGGCTGAGGCAGCCG	0.706													8	24	---	---	---	---	PASS	A	40316475	A	A	40316475	2	1	119	1	0	0	0	0	0	0	0	1	4855	1567	55	5		5	DYRK1B	19	40316475	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	401508	40316475	18812508	1243	44416										
LTBP4	8425	broad.mit.edu	37	chr19	41120352	41120352	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccccgagggcacctgtgacGgtgagcctgcccccacccgc	13	19	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:41120352G>A	uc002ooh.1	+	22	3013	c.3013G>A	c.(3013-3015)GAT>AAT	p.D1005N	LTBP4_uc002oog.1_Missense_Mutation_p.D968N|LTBP4_uc002ooi.1_Missense_Mutation_p.D938N|LTBP4_uc002ooj.1_5'UTR|LTBP4_uc002ook.1_Missense_Mutation_p.D225N|LTBP4_uc002ool.1_Missense_Mutation_p.D103N|LTBP4_uc002oom.1_RNA|LTBP4_uc010xvp.1_5'UTR	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1005	Cys-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CACCTGTGACGGTGAGCCTGC	0.697													3	16	---	---	---	---	PASS	A	41120352	A	A	41120352	3	1	119	1	0	0	0	0	1	0	0	0	9076	1130	39	1	3392	1	LTBP4	19	41120352	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	803877	41120352	18008631	1244	44417										
CNFN	84518	broad.mit.edu	37	chr19	42891373	42891373	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagacaaaaggtgagggccgCccagtcgtgcccgacggagc	15	13	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:42891373C>A	uc002otp.3	-	4	326	c.271G>T	c.(271-273)GCG>TCG	p.A91S	CNFN_uc002otq.3_Missense_Mutation_p.A104S	NM_032488	NP_115877	Q9BYD5	CNFN_HUMAN	cornifelin	91					keratinization	cornified envelope|cytoplasm					0		Prostate(69;0.00899)				GTGAGGGCCGCCCAGTCGTGC	0.667													10	39	---	---	---	---	PASS	A	42891373	A	A	42891373	3	1	119	1	0	0	0	0	1	0	0	0	3595	739	26	3	71	3	CNFN	19	42891373	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1771021	42891373	16237610	1245	44418										
CEACAM8	1088	broad.mit.edu	37	chr19	43098952	43098952	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctgccaggggatgcgccatCtgcaggaaggggctgagatg	17	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:43098952C>A	uc002oud.2	-	1	131	c.29G>T	c.(28-30)AGA>ATA	p.R10I	uc010eif.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron	NM_001816	NP_001807	P31997	CEAM8_HUMAN	carcinoembryonic antigen-related cell adhesion	10					immune response	anchored to membrane|extracellular space|integral to plasma membrane				ovary(1)	1		Prostate(69;0.00899)				GATGCGCCATCTGCAGGAAGG	0.607													26	210	---	---	---	---	PASS	A	43098952	A	A	43098952	3	1	119	1	0	0	0	0	1	0	0	0	3198	913	32	2	1040	2	CEACAM8	19	43098952	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	207579	43098952	16030031	1246	44419										
PSG1	5669	broad.mit.edu	37	chr19	43372279	43372279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttcgactgtcatggatttgGagctttccttgccagtggct	11	10	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:43372279G>T	uc002ovb.2	-	5	1355	c.1217C>A	c.(1216-1218)TCC>TAC	p.S406Y	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_Intron|PSG1_uc002our.1_Missense_Mutation_p.S406Y|PSG1_uc010eio.1_Missense_Mutation_p.S406Y|PSG1_uc002oux.1_Missense_Mutation_p.S335Y|PSG1_uc002ouy.1_Missense_Mutation_p.S313Y|PSG1_uc002ouz.1_Missense_Mutation_p.S406Y|PSG1_uc002ova.1_Missense_Mutation_p.S313Y|PSG1_uc002ovc.2_Missense_Mutation_p.S313Y|PSG1_uc002ovd.1_Missense_Mutation_p.S406Y	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	406	Ig-like C2-type 3.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				CATGGATTTGGAGCTTTCCTT	0.473													74	367	---	---	---	---	PASS	T	43372279	T	T	43372279	3	4	119	1	0	0	0	0	1	0	0	0	12653	1174	41	2	103	2	PSG1	19	43372279	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	273327	43372279	15756704	1247	44420										
PSG5	5673	broad.mit.edu	37	chr19	43674284	43674284	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaggaagacgtcctattcctGaaggagctgtcatggaaaga	13	7	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:43674284G>A	uc002ovu.2	-	5	1102	c.971C>T	c.(970-972)TCA>TTA	p.S324L	PSG6_uc010xwk.1_Intron|PSG5_uc010eir.2_Missense_Mutation_p.S199L|PSG5_uc002ovx.2_Missense_Mutation_p.S324L|PSG5_uc002ovv.2_Missense_Mutation_p.S417L|PSG5_uc002ovw.2_Missense_Mutation_p.S146L	NM_002781	NP_002772	Q15238	PSG5_HUMAN	pregnancy specific beta-1-glycoprotein 5	324					female pregnancy	extracellular region				skin(3)	3		Prostate(69;0.00899)				TCCTATTCCTGAAGGAGCTGT	0.428													29	144	---	---	---	---	PASS	A	43674284	A	A	43674284	3	1	119	1	0	0	0	0	1	0	0	0	12658	1294	45	2	40	2	PSG5	19	43674284	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	302005	43674284	15454699	1248	44421										
ZNF221	7638	broad.mit.edu	37	chr19	44471455	44471455	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtgggaagagatctactcaGaattcacagcttcatttaca	8	8	4	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:44471455G>A	uc002oxx.2	+	6	2129	c.1801G>A	c.(1801-1803)GAA>AAA	p.E601K	ZNF221_uc010ejb.1_Missense_Mutation_p.E601K|ZNF221_uc010xws.1_Missense_Mutation_p.E601K	NM_013359	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	601					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Prostate(69;0.0352)				GATCTACTCAGAATTCACAGC	0.443													42	139	---	---	---	---	PASS	A	44471455	A	A	44471455	3	1	119	1	0	0	0	0	1	0	0	0	17772	943	33	2	1815	2	ZNF221	19	44471455	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	797171	44471455	14657528	1249	44422										
ZNF230	7773	broad.mit.edu	37	chr19	44514653	44514653	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccttcagtgatgttgccatCtttgatcctcctcagcagtt	7	12	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:44514653C>G	uc002oyb.1	+	5	713	c.462C>G	c.(460-462)ATC>ATG	p.I154M		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	154	KRNB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				ATGTTGCCATCTTTGATCCTC	0.448													36	251	---	---	---	---	PASS	G	44514653	G	G	44514653	3	3	119	1	0	0	0	0	1	0	0	0	17781	903	32	2	476	2	ZNF230	19	44514653	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	43198	44514653	14614330	1250	44423										
ZNF234	10780	broad.mit.edu	37	chr19	44661248	44661248	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tattcagccttcacaatttcAggcccatcggagaatccaca	6	13	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:44661248A>G	uc002oym.2	+	6	1386	c.1079A>G	c.(1078-1080)CAG>CGG	p.Q360R	ZNF234_uc002oyl.3_Missense_Mutation_p.Q360R	NM_006630	NP_006621	Q14588	ZN234_HUMAN	zinc finger protein 234	360	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				TCACAATTTCAGGCCCATCGG	0.443													3	82	---	---	---	---	PASS	G	44661248	G	G	44661248	3	3	119	1	0	0	0	0	1	0	0	0	17784	188	7	5	1093	5	ZNF234	19	44661248	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	146595	44661248	14467735	1251	44424										
ZNF226	7769	broad.mit.edu	37	chr19	44680253	44680253	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tacaatcaggagagaagtctCttacatgtgttgagcgtgga	12	6	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:44680253C>T	uc002oyp.2	+	6	982	c.838C>T	c.(838-840)CTT>TTT	p.L280F	ZNF226_uc002oyq.2_Missense_Mutation_p.L163F|ZNF226_uc002oyr.2_Missense_Mutation_p.L163F|ZNF226_uc010ejg.2_3'UTR|ZNF226_uc002oys.2_Missense_Mutation_p.L280F|ZNF226_uc002oyt.2_Missense_Mutation_p.L280F	NM_001032373	NP_001027545	Q9NYT6	ZN226_HUMAN	zinc finger protein 226 isoform a	280	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				AGAGAAGTCTCTTACATGTGT	0.428													12	92	---	---	---	---	PASS	T	44680253	T	T	44680253	3	4	119	1	0	0	0	0	1	0	0	0	17777	913	32	2	906	2	ZNF226	19	44680253	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	19005	44680253	14448730	1252	44425										
ZNF227	7770	broad.mit.edu	37	chr19	44738912	44738912	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atttgcattaaaatacctttCaaatcaagagctgtcctgct	5	9	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:44738912C>G	uc002oyu.2	+	6	534	c.329C>G	c.(328-330)TCA>TGA	p.S110*	ZNF227_uc010xwu.1_Nonsense_Mutation_p.S59*|ZNF227_uc002oyv.2_Nonsense_Mutation_p.S110*|ZNF227_uc010xwv.1_Nonsense_Mutation_p.S59*|ZNF227_uc010xww.1_Nonsense_Mutation_p.S31*|ZNF227_uc002oyw.2_Nonsense_Mutation_p.S82*|ZNF227_uc010ejh.2_Nonsense_Mutation_p.S103*|ZNF235_uc002oyx.1_RNA	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	110					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)				AAATACCTTTCAAATCAAGAG	0.383													38	124	---	---	---	---	PASS	G	44738912	G	G	44738912	4	3	119	1	0	0	0	0	0	1	0	0	17778	838	29	2	343	2	ZNF227	19	44738912	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	58659	44738912	14390071	1253	44426										
ZNF285	26974	broad.mit.edu	37	chr19	44891432	44891432	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaagggaagagctgcgcctGaagcccttgccacattcttt	11	11	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:44891432G>C	uc002ozd.3	-	4	1062	c.975C>G	c.(973-975)TTC>TTG	p.F325L	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Missense_Mutation_p.F332L	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	325	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						AGCTGCGCCTGAAGCCCTTGC	0.493													34	249	---	---	---	---	PASS	C	44891432	C	C	44891432	3	2	119	1	0	0	0	0	1	0	0	0	17819	1281	45	2	801	2	ZNF285	19	44891432	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	152520	44891432	14237551	1254	44427										
CEACAM20	125931	broad.mit.edu	37	chr19	45024764	45024764	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggttcaggcttgaaggcacGacttgaggcatggtcagtgt	15	7	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:45024764G>A	uc010ejn.1	-	5	790	c.774C>T	c.(772-774)GTC>GTT	p.V258V	CEACAM20_uc010ejo.1_Silent_p.V258V|CEACAM20_uc010ejp.1_Silent_p.V258V|CEACAM20_uc010ejq.1_Silent_p.V258V	NM_001102597	NP_001096067	Q6UY09	CEA20_HUMAN	carcinoembryonic antigen-related cell adhesion	258	Extracellular (Potential).|Ig-like C2-type 3.					integral to membrane				large_intestine(2)	2		Prostate(69;0.0352)				TTGAAGGCACGACTTGAGGCA	0.522													62	96	---	---	---	---	PASS	A	45024764	A	A	45024764	2	1	119	1	0	0	0	0	0	0	0	1	3191	1045	37	2		2	CEACAM20	19	45024764	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	133332	45024764	14104219	1255	44428										
ERCC2	2068	broad.mit.edu	37	chr19	45856557	45856557	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccatcctgggtctcaataaaGagcagcttgttcctctggat	9	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:45856557G>C	uc002pbj.2	-	18	1748	c.1701C>G	c.(1699-1701)CTC>CTG	p.L567L	ERCC2_uc002pbh.2_Silent_p.L130L|ERCC2_uc002pbi.2_Silent_p.L260L|ERCC2_uc010ejz.2_Silent_p.L489L|ERCC2_uc002pbk.2_Silent_p.L543L	NM_000400	NP_000391	P18074	ERCC2_HUMAN	excision repair cross-complementing rodent	567	Mediates interaction with MMS19.				cell cycle checkpoint|chromosome segregation|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|UV protection|viral reproduction	cytoplasm|holo TFIIH complex|MMXD complex	5'-3' DNA helicase activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding|protein C-terminus binding|protein N-terminus binding			lung(2)|pancreas(1)	3		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		TCTCAATAAAGAGCAGCTTGT	0.607			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				5	52	---	---	---	---	PASS	C	45856557	C	C	45856557	2	2	119	1	0	0	0	0	0	0	0	1	5213	929	33	2		2	ERCC2	19	45856557	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	831793	45856557	13272426	1256	44429										
SYMPK	8189	broad.mit.edu	37	chr19	46355782	46355782	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtggggtctttgttgatgatCagctcctggacctggaagga	15	7	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:46355782C>G	uc002pdn.2	-	4	428	c.183G>C	c.(181-183)CTG>CTC	p.L61L	SYMPK_uc002pdo.1_Silent_p.L61L|SYMPK_uc002pdp.1_Silent_p.L61L|SYMPK_uc002pdq.1_Silent_p.L61L	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	61	Interaction with HSF1.				cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		TGTTGATGATCAGCTCCTGGA	0.453													3	110	---	---	---	---	PASS	G	46355782	G	G	46355782	2	3	119	1	0	0	0	0	0	0	0	1	15436	813	29	2		2	SYMPK	19	46355782	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	499225	46355782	12773201	1257	44430										
KPTN	11133	broad.mit.edu	37	chr19	47986776	47986776	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taccttgatgaacgtgatccCcacaaccagaccccgcttgg	8	15	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:47986776C>T	uc002pgy.2	-	2	396	c.292G>A	c.(292-294)GGG>AGG	p.G98R	KPTN_uc010xys.1_RNA|uc002pgz.1_5'Flank	NM_007059	NP_008990	Q9Y664	KPTN_HUMAN	kaptin (actin binding protein)	98					actin filament organization|cellular component movement|sensory perception of sound	actin cytoskeleton|growth cone|microtubule organizing center|nucleus|perinuclear region of cytoplasm|stereocilium	actin binding			ovary(1)	1		all_cancers(25;1.55e-10)|all_epithelial(76;3.4e-08)|all_lung(116;1.73e-07)|Lung NSC(112;3.95e-07)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		OV - Ovarian serous cystadenocarcinoma(262;0.000428)|all cancers(93;0.000631)|Epithelial(262;0.0153)|GBM - Glioblastoma multiforme(486;0.0694)		AACGTGATCCCCACAACCAGA	0.582											OREG0025593	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	5	---	---	---	---	PASS	T	47986776	T	T	47986776	3	4	119	1	0	0	0	0	1	0	0	0	8437	623	22	3	1062	3	KPTN	19	47986776	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1630994	47986776	11142207	1258	44431										
CCDC114	93233	broad.mit.edu	37	chr19	48801295	48801295	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtggggccatcttcttcggAaggtcctccaggctctggcc	13	13	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:48801295A>G	uc002pir.2	-	12	2036	c.1353T>C	c.(1351-1353)CTT>CTC	p.L451L	CCDC114_uc002piq.2_Silent_p.L260L|CCDC114_uc002pio.2_Silent_p.L488L|CCDC114_uc002pis.1_Silent_p.L131L	NM_144577	NP_653178	Q96M63	CC114_HUMAN	coiled-coil domain containing 114 isoform 2	451										ovary(1)	1		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000162)|Epithelial(262;0.0134)|GBM - Glioblastoma multiforme(486;0.0143)		TCTTCTTCGGAAGGTCCTCCA	0.682													12	56	---	---	---	---	PASS	G	48801295	G	G	48801295	2	3	119	1	0	0	0	0	0	0	0	1	2751	233	9	5		5	CCDC114	19	48801295	Silent	SNP	A	TCGA-60-2698-01A-01D-1522-08	814519	48801295	10327688	1259	44432										
SPHK2	56848	broad.mit.edu	37	chr19	49131269	49131269	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgggagctggtccaggggctGagcctgagtgagtgggatgg	21	7	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:49131269G>C	uc002pjr.2	+	5	1065	c.699G>C	c.(697-699)CTG>CTC	p.L233L	SPHK2_uc010xzt.1_Silent_p.L174L|SPHK2_uc002pjs.2_Silent_p.L233L|SPHK2_uc002pjt.2_Silent_p.L27L|SPHK2_uc002pju.2_Silent_p.L197L|SPHK2_uc002pjv.2_Silent_p.L197L|SPHK2_uc002pjw.2_Silent_p.L295L|SPHK2_uc010xzu.1_Silent_p.L197L	NM_020126	NP_064511	Q9NRA0	SPHK2_HUMAN	sphingosine kinase 2	233	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|cell proliferation|sphinganine-1-phosphate biosynthetic process	cytosol|lysosomal membrane|membrane fraction	ATP binding|D-erythro-sphingosine kinase activity|diacylglycerol kinase activity|Ras GTPase binding|sphinganine kinase activity			lung(1)	1		all_lung(116;0.000125)|Lung NSC(112;0.000202)|all_epithelial(76;0.000283)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		TCCAGGGGCTGAGCCTGAGTG	0.662													6	100	---	---	---	---	PASS	C	49131269	C	C	49131269	2	2	119	1	0	0	0	0	0	0	0	1	15046	1277	45	2		2	SPHK2	19	49131269	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	329974	49131269	9997714	1260	44433										
MYH14	79784	broad.mit.edu	37	chr19	50796543	50796543	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcccagcaggaccgggatgaGatggcagatgaggtggccaa	17	9	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:50796543G>C	uc002prr.1	+	36	5234	c.5187G>C	c.(5185-5187)GAG>GAC	p.E1729D	MYH14_uc010enu.1_Missense_Mutation_p.E1770D|MYH14_uc002prq.1_Missense_Mutation_p.E1737D|MYH14_uc010ycb.1_Missense_Mutation_p.E80D|MYH14_uc002prs.1_Missense_Mutation_p.E80D	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1729	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		ACCGGGATGAGATGGCAGATG	0.617													3	13	---	---	---	---	PASS	C	50796543	C	C	50796543	3	2	119	1	0	0	0	0	1	0	0	0	10033	933	33	2	5456	2	MYH14	19	50796543	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1665274	50796543	8332440	1261	44434										
C19orf48	84798	broad.mit.edu	37	chr19	51301373	51301373	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caaaccaggagcagctccccCaggattctggcctgcttcac	9	16	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:51301373C>T	uc002ptf.2	-	5	1255	c.333G>A	c.(331-333)CTG>CTA	p.L111L	C19orf48_uc002pte.2_RNA|C19orf48_uc002ptg.2_Silent_p.L111L	NM_199249	NP_954857	Q6RUI8	CS048_HUMAN	multidrug resistance-related protein	111										ovary(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00531)|GBM - Glioblastoma multiforme(134;0.0145)		GCAGCTCCCCCAGGATTCTGG	0.627													57	224	---	---	---	---	PASS	T	51301373	T	T	51301373	2	4	119	1	0	0	0	0	0	0	0	1	1931	581	21	3		3	C19orf48	19	51301373	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	504830	51301373	7827610	1262	44435										
ZNF577	84765	broad.mit.edu	37	chr19	52376400	52376400	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtgcagtgaggtatgccttCtgagaaaaggctttcccaca	11	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:52376400C>T	uc010yde.1	-	7	1234	c.843G>A	c.(841-843)CAG>CAA	p.Q281Q	ZNF577_uc010ydd.1_Intron|ZNF577_uc002pxx.3_Silent_p.Q222Q|ZNF577_uc002pxv.2_Silent_p.Q274Q|ZNF577_uc002pxw.2_Silent_p.Q215Q	NM_032679	NP_116068	Q9BSK1	ZN577_HUMAN	zinc finger protein 577 isoform a	281	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		GGTATGCCTTCTGAGAAAAGG	0.468													20	95	---	---	---	---	PASS	T	52376400	T	T	52376400	2	4	119	1	0	0	0	0	0	0	0	1	18006	912	32	2		2	ZNF577	19	52376400	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1075027	52376400	6752583	1263	44436										
ZNF765	91661	broad.mit.edu	37	chr19	53911436	53911436	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cacaaaaacaggaagtacatAtgagggaaaaatctttccaa	7	7	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:53911436A>G	uc010ydx.1	+	6	955	c.628A>G	c.(628-630)ATG>GTG	p.M210V	ZNF765_uc002qbm.2_Missense_Mutation_p.M210V|ZNF765_uc002qbn.2_Intron	NM_001040185	NP_001035275	Q7L2R6	ZN765_HUMAN	zinc finger protein 765	210					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00379)		GGAAGTACATATGAGGGAAAA	0.348													5	97	---	---	---	---	PASS	G	53911436	G	G	53911436	3	3	119	1	0	0	0	0	1	0	0	0	18136	449	16	5	638	5	ZNF765	19	53911436	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	1535036	53911436	5217547	1264	44437										
ZNF765	91661	broad.mit.edu	37	chr19	53911925	53911925	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggaagtcacattttacatgcCatcatagagttcatactgga	8	8	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:53911925C>A	uc010ydx.1	+	6	1444	c.1117C>A	c.(1117-1119)CAT>AAT	p.H373N	ZNF765_uc002qbm.2_Missense_Mutation_p.H373N|ZNF765_uc002qbn.2_Intron	NM_001040185	NP_001035275	Q7L2R6	ZN765_HUMAN	zinc finger protein 765	373	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00379)		TTTTACATGCCATCATAGAGT	0.413													48	191	---	---	---	---	PASS	A	53911925	A	A	53911925	3	1	119	1	0	0	0	0	1	0	0	0	18136	594	21	3	1127	3	ZNF765	19	53911925	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	489	53911925	5217058	1265	44438										
LILRA6	79168	broad.mit.edu	37	chr19	54744149	54744149	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggacggggtcagcgccctcaCctgagaccatgagttccagg	14	13	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:54744149C>A	uc002qeu.1	-	6	1382	c.1258_splice	c.e6+1	p.G420_splice	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Splice_Site_p.G420_splice|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Splice_Site_p.G420_splice|LILRA6_uc002qem.1_Splice_Site|LILRB3_uc002qen.1_Splice_Site|LILRB3_uc002qeo.1_Intron|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Intron|LILRB3_uc002qer.1_Intron|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Splice_Site_p.G420_splice|LILRA6_uc010yeq.1_Splice_Site_p.G420_splice|LILRA6_uc002qet.3_Splice_Site|LILRA6_uc002qev.1_Splice_Site_p.A281_splice	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,							integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		AGCGCCCTCACCTGAGACCAT	0.652													3	81	---	---	---	---	PASS	A	54744149	A	A	54744149	5	1	119	1	0	0	0	0	0	0	1	0	8789	521	18	3	198	3	LILRA6	19	54744149	Splice_Site	SNP	C	TCGA-60-2698-01A-01D-1522-08	832224	54744149	4384834	1266	44439										
FCAR	2204	broad.mit.edu	37	chr19	55399578	55399578	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtggacctcaatgtctcagGgatctacaggtgctacggtt	12	9	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:55399578G>A	uc002qhr.1	+	4	763	c.566G>A	c.(565-567)GGG>GAG	p.G189E	FCAR_uc002qhq.2_Missense_Mutation_p.G189E|FCAR_uc002qhs.1_Intron|FCAR_uc002qht.1_Missense_Mutation_p.G162E|FCAR_uc010esi.1_Intron|FCAR_uc002qhu.1_Intron|FCAR_uc002qhv.1_Missense_Mutation_p.G189E|FCAR_uc002qhw.1_Missense_Mutation_p.G177E|FCAR_uc002qhx.1_Intron|FCAR_uc002qhy.1_Missense_Mutation_p.G177E|FCAR_uc002qhz.1_Missense_Mutation_p.G177E|FCAR_uc002qia.1_Missense_Mutation_p.G80E	NM_002000	NP_001991	P24071	FCAR_HUMAN	Fc alpha receptor isoform a precursor	189	Ig-like C2-type 2.|Extracellular (Potential).				immune response	extracellular region|integral to plasma membrane	IgA binding|receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0443)		AATGTCTCAGGGATCTACAGG	0.557													10	45	---	---	---	---	PASS	A	55399578	A	A	55399578	3	1	119	1	0	0	0	0	1	0	0	0	5773	1232	43	3	580	3	FCAR	19	55399578	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	655429	55399578	3729405	1267	44440										
NCR1	9437	broad.mit.edu	37	chr19	55424101	55424101	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcccagaatctccttcggatGggcctggcctttctagtcct	10	14	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:55424101G>A	uc002qib.2	+	7	815	c.777G>A	c.(775-777)ATG>ATA	p.M259I	NCR1_uc002qic.2_Missense_Mutation_p.M258I|NCR1_uc002qie.2_Missense_Mutation_p.M242I|NCR1_uc002qid.2_Missense_Mutation_p.M164I|NCR1_uc002qif.2_Missense_Mutation_p.M147I|NCR1_uc010esj.2_Missense_Mutation_p.M152I	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1	259	Helical; (Potential).				cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		TCCTTCGGATGGGCCTGGCCT	0.552													12	106	---	---	---	---	PASS	A	55424101	A	A	55424101	3	1	119	1	0	0	0	0	1	0	0	0	10237	1348	47	3	803	3	NCR1	19	55424101	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	24523	55424101	3704882	1268	44441										
NLRP7	199713	broad.mit.edu	37	chr19	55447743	55447743	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtgcgtgagggtcttcttcCcaatgaaagcaagacagaag	13	8	2	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:55447743C>A	uc002qih.3	-	6	2262	c.2186G>T	c.(2185-2187)GGG>GTG	p.G729V	NLRP7_uc002qig.3_Missense_Mutation_p.G701V|NLRP7_uc002qii.3_Missense_Mutation_p.G729V|NLRP7_uc010esk.2_Missense_Mutation_p.G729V|NLRP7_uc010esl.2_Missense_Mutation_p.G757V	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	729							ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		GGTCTTCTTCCCAATGAAAGC	0.502													14	49	---	---	---	---	PASS	A	55447743	A	A	55447743	3	1	119	1	0	0	0	0	1	0	0	0	10482	623	22	3	951	3	NLRP7	19	55447743	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	23642	55447743	3681240	1269	44442										
C19orf51	352909	broad.mit.edu	37	chr19	55670794	55670794	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgttgaatccctgcagctgcTcctgccgcacgtccaccagg	10	16	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:55670794T>A	uc002qji.1	-	12	1296	c.1262A>T	c.(1261-1263)GAG>GTG	p.E421V	TNNI3_uc002qjg.3_5'Flank|TNNI3_uc010yft.1_5'Flank|C19orf51_uc002qjh.1_Missense_Mutation_p.E236V|C19orf51_uc002qjj.1_Missense_Mutation_p.E468V|C19orf51_uc002qjk.1_Missense_Mutation_p.E367V|C19orf51_uc002qjl.1_Missense_Mutation_p.E488V			Q8N9W5	CS051_HUMAN	RecName: Full=UPF0470 protein C19orf51;	421											0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		CTGCAGCTGCTCCTGCCGCAC	0.627													27	96	---	---	---	---	PASS	A	55670794	A	A	55670794	3	1	119	1	0	0	0	0	1	0	0	0	1933	1551	54	5	367	5	C19orf51	19	55670794	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	223051	55670794	3458189	1270	44443										
SBK2	646643	broad.mit.edu	37	chr19	56047654	56047654	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcccttcctcagactgtttgCcgggcatctctgcgagaaca	10	14	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:56047654C>G	uc010ygc.1	-	1	8	c.8G>C	c.(7-9)GGC>GCC	p.G3A		NM_001101401	NP_001094871	P0C263	SBK2_HUMAN	SH3-binding domain kinase family, member 2	3							ATP binding|protein serine/threonine kinase activity				0						AGACTGTTTGCCGGGCATCTC	0.478													7	29	---	---	---	---	PASS	G	56047654	G	G	56047654	3	3	119	1	0	0	0	0	1	0	0	0	13861	739	26	4	1049	4	SBK2	19	56047654	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	376860	56047654	3081329	1271	44444										
EPN1	29924	broad.mit.edu	37	chr19	56206529	56206529	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgcaggaggcccagccactgGcccttccgtcaccaacccct	9	19	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:56206529G>T	uc002qlw.2	+	11	1880	c.1538G>T	c.(1537-1539)GGC>GTC	p.G513V	EPN1_uc002qlv.2_Missense_Mutation_p.G487V|EPN1_uc010etd.2_Missense_Mutation_p.G512V|EPN1_uc002qlx.2_Missense_Mutation_p.G599V	NM_001130072	NP_001123544	Q9Y6I3	EPN1_HUMAN	epsin 1 isoform b	513	Ala/Gly/Pro-rich.|3 X 3 AA repeats of N-P-F.				endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|cytoplasm|nucleus|plasma membrane	lipid binding				0		Colorectal(82;0.00244)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.112)		CCAGCCACTGGCCCTTCCGTC	0.667													4	23	---	---	---	---	PASS	T	56206529	T	T	56206529	3	4	119	1	0	0	0	0	1	0	0	0	5185	1203	42	3	1917	3	EPN1	19	56206529	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	158875	56206529	2922454	1272	44445										
NLRP13	126204	broad.mit.edu	37	chr19	56423149	56423149	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttaaccttttacagtgcttTaggcaaaatgaagaagcttg	8	6	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:56423149T>C	uc010ygg.1	-	5	2059	c.2034A>G	c.(2032-2034)CTA>CTG	p.L678L		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	678							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)		TACAGTGCTTTAGGCAAAATG	0.393													55	193	---	---	---	---	PASS	C	56423149	C	C	56423149	2	2	119	1	0	0	0	0	0	0	0	1	10475	1741	61	5		5	NLRP13	19	56423149	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	216620	56423149	2705834	1273	44446										
ZNF470	388566	broad.mit.edu	37	chr19	57089033	57089033	+	Silent	SNP	T	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcactgatcacataggactTattcagcataagagaactca							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:57089033T>A	uc002qnl.3	+	6	1912	c.1236T>A	c.(1234-1236)CTT>CTA	p.L412L	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	412	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		ACATAGGACTTATTCAGCATA	0.413													23	105	---	---	---	---	PASS	A	57089033	A	A	57089033	2	1	119	1	0	0	0	0	0	0	0	1	17926	1741	61	5		5	ZNF470	19	57089033	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	665884	57089033	2039950	1274	44447	824	2								
ZNF470	388566	broad.mit.edu	37	chr19	57089034	57089034	+	Missense_Mutation	SNP	A	T	T													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcactgatcacataggacttAttcagcataagagaactcat							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:57089034A>T	uc002qnl.3	+	6	1913	c.1237A>T	c.(1237-1239)ATT>TTT	p.I413F	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	413	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		CATAGGACTTATTCAGCATAA	0.413													23	102	---	---	---	---	PASS	T	57089034	T	T	57089034	3	4	119	1	0	0	0	0	1	0	0	0	17926	449	16	5	1251	5	ZNF470	19	57089034	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	1	57089034	2039949	1275	44448	824	2								
ZNF548	147694	broad.mit.edu	37	chr19	57909923	57909923	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tccaccctagtgagacatgtGgcccacccttgaaagacatt	8	13	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:57909923G>C	uc002qom.2	+	3	518	c.268G>C	c.(268-270)GGC>CGC	p.G90R	ZNF547_uc002qpm.3_Intron|ZNF548_uc002qon.2_Missense_Mutation_p.G93R	NM_152909	NP_690873	Q8NEK5	ZN548_HUMAN	zinc finger protein 548	90					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGAGACATGTGGCCCACCCTT	0.488													12	124	---	---	---	---	PASS	C	57909923	C	C	57909923	3	2	119	1	0	0	0	0	1	0	0	0	17977	1348	47	4	318	4	ZNF548	19	57909923	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	820889	57909923	1219060	1276	44449										
ZSCAN4	201516	broad.mit.edu	37	chr19	58187739	58187739	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcactcatggctgcaaccaGaaaagcacagcaaggatgaa	9	10	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:58187739G>A	uc002qpu.2	+	3	923	c.226G>A	c.(226-228)GAA>AAA	p.E76K		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	76	SCAN box.				telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GCTGCAACCAGAAAAGCACAG	0.398													7	137	---	---	---	---	PASS	A	58187739	A	A	58187739	3	1	119	1	0	0	0	0	1	0	0	0	18234	943	33	2	228	2	ZSCAN4	19	58187739	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	277816	58187739	941244	1277	44450										
ZNF135	7694	broad.mit.edu	37	chr19	58579503	58579503	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acacaggagagaaaccctatGaatgtaaccagtgtggcaga	11	8	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:58579503G>T	uc010yhq.1	+	5	1783	c.1687G>T	c.(1687-1689)GAA>TAA	p.E563*	ZNF135_uc002qre.2_Nonsense_Mutation_p.E551*|ZNF135_uc002qrd.1_Intron|ZNF135_uc002qrf.2_Nonsense_Mutation_p.E509*|ZNF135_uc002qrg.2_Nonsense_Mutation_p.E521*|ZNF135_uc010yhr.1_Nonsense_Mutation_p.E372*	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	563					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		GAAACCCTATGAATGTAACCA	0.537													19	84	---	---	---	---	PASS	T	58579503	T	T	58579503	4	4	119	1	0	0	0	0	0	1	0	0	17722	1291	45	2	1854	2	ZNF135	19	58579503	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	391764	58579503	549480	1278	44451										
ZNF274	10782	broad.mit.edu	37	chr19	58718552	58718552	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctggtagagggtgtgacctgGatgtctgaggaggaaggtaa	18	4	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr19:58718552G>C	uc002qrq.1	+	7	1182	c.723G>C	c.(721-723)TGG>TGC	p.W241C	ZNF274_uc010yhu.1_RNA|ZNF274_uc010yhv.1_RNA|ZNF274_uc002qrr.1_Missense_Mutation_p.W209C|ZNF274_uc002qrs.1_Missense_Mutation_p.W136C|ZNF274_uc010eum.1_5'UTR	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	241	SCAN box.				viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		GTGTGACCTGGATGTCTGAGG	0.562													5	22	---	---	---	---	PASS	C	58718552	C	C	58718552	3	2	119	1	0	0	0	0	1	0	0	0	17806	1174	41	2	736	2	ZNF274	19	58718552	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	139049	58718552	410431	1279	44452										
CSNK2A1	1457	broad.mit.edu	37	chr20	470443	470443	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cctgatcataattgtcatgtCcatggaaaaatggctccttc	7	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:470443C>G	uc002wdw.1	-	10	1097	c.704G>C	c.(703-705)GGA>GCA	p.G235A	CSNK2A1_uc002wdx.1_Missense_Mutation_p.G235A|CSNK2A1_uc002wdy.1_Missense_Mutation_p.G99A	NM_177559	NP_808227	P68400	CSK21_HUMAN	casein kinase II alpha 1 subunit isoform a	235	Protein kinase.				axon guidance|Wnt receptor signaling pathway	cytosol|NuRD complex|plasma membrane|Sin3 complex	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			ovary(1)	1		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)			ATTGTCATGTCCATGGAAAAA	0.383													4	129	---	---	---	---	PASS	G	470443	G	G	470443	3	3	119	1	0	0	0	0	1	0	0	0	3957	855	30	2	491	2	CSNK2A1	20	470443	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08		470443	62555077	1280	44453										
SNPH	9751	broad.mit.edu	37	chr20	1281296	1281296	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acccccctgcagcagaaggaGgtgtgcatccggcacctgaa	12	14	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:1281296G>C	uc002wes.2	+	5	485	c.249G>C	c.(247-249)GAG>GAC	p.E83D	SNPH_uc002wet.2_Missense_Mutation_p.E127D	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	83	Potential.				synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						AGCAGAAGGAGGTGTGCATCC	0.657													4	68	---	---	---	---	PASS	C	1281296	C	C	1281296	3	2	119	1	0	0	0	0	1	0	0	0	14850	991	35	4	259	4	SNPH	20	1281296	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	810853	1281296	61744224	1281	44454										
TGM3	7053	broad.mit.edu	37	chr20	2290881	2290881	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtttccactctccaatggcaGtagtggtggctggagtgcgg	15	9	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:2290881G>A	uc002wfx.3	+	3	336	c.239G>A	c.(238-240)AGT>AAT	p.S80N		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	80					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	TCCAATGGCAGTAGTGGTGGC	0.542													69	139	---	---	---	---	PASS	A	2290881	A	A	2290881	3	1	119	1	0	0	0	0	1	0	0	0	15828	1029	36	3	249	3	TGM3	20	2290881	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1009585	2290881	60734639	1282	44455										
ProSAPiP1	9762	broad.mit.edu	37	chr20	3146652	3146652	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actatcggaggtccccaggtCctggtagcccgaccccccac	10	18	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:3146652C>A	uc002wia.1	-	2	2212	c.814G>T	c.(814-816)GAC>TAC	p.D272Y	ProSAPiP1_uc002wib.1_Missense_Mutation_p.D272Y	NM_014731	NP_055546	O60299	PRIP1_HUMAN	ProSAPiP1 protein	272						cell junction|cytoplasm|postsynaptic density|postsynaptic membrane				pancreas(1)	1						GTCCCCAGGTCCTGGTAGCCC	0.672													7	60	---	---	---	---	PASS	A	3146652	A	A	3146652	3	1	119	1	0	0	0	0	1	0	0	0	12870	855	30	2	1215	2	ProSAPiP1	20	3146652	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	855771	3146652	59878868	1283	44456										
PROKR2	128674	broad.mit.edu	37	chr20	5294721	5294721	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gatgatggccaccaggaagtCggagatggccaggttggcaa	16	8	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:5294721C>T	uc010zqw.1	-	1	295	c.295G>A	c.(295-297)GAC>AAC	p.D99N	PROKR2_uc010zqx.1_Missense_Mutation_p.D99N|PROKR2_uc010zqy.1_Missense_Mutation_p.D99N|uc002wly.1_5'Flank	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	99	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						ACCAGGAAGTCGGAGATGGCC	0.572										HNSCC(71;0.22)			31	84	---	---	---	---	PASS	T	5294721	T	T	5294721	3	4	119	1	0	0	0	0	1	0	0	0	12553	884	31	2	866	2	PROKR2	20	5294721	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2148069	5294721	57730799	1284	44457										
PLCB1	23236	broad.mit.edu	37	chr20	8678350	8678350	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gttgtcgctgtgtggagctgGactgctggaagggacggact	18	7	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:8678350G>C	uc002wnb.2	+	11	1090	c.1087G>C	c.(1087-1089)GAC>CAC	p.D363H	PLCB1_uc010zrb.1_Missense_Mutation_p.D262H|PLCB1_uc002wna.2_Missense_Mutation_p.D363H|PLCB1_uc002wnc.1_Missense_Mutation_p.D262H	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	363	PI-PLC X-box.				activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TGTGGAGCTGGACTGCTGGAA	0.473													25	257	---	---	---	---	PASS	C	8678350	C	C	8678350	3	2	119	1	0	0	0	0	1	0	0	0	12027	1174	41	2	1129	2	PLCB1	20	8678350	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3383629	8678350	54347170	1285	44458										
SNAP25	6616	broad.mit.edu	37	chr20	10286827	10286827	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccaaccaacgtgcaacaaaGatgctgggaagtggttaagt	12	8	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:10286827G>C	uc002wnq.1	+	8	815	c.603G>C	c.(601-603)AAG>AAC	p.K201N	SNAP25_uc002wnr.1_Missense_Mutation_p.K201N|SNAP25_uc002wns.1_Missense_Mutation_p.K138N|SNAP25_uc010gca.1_Missense_Mutation_p.K201N|SNAP25_uc010gcb.1_Missense_Mutation_p.K138N|SNAP25_uc010gcc.1_Missense_Mutation_p.K95N	NM_130811	NP_570824	P60880	SNP25_HUMAN	synaptosomal-associated protein 25 isoform	201	t-SNARE coiled-coil homology 2.				energy reserve metabolic process|glutamate secretion|neurotransmitter uptake|synaptic vesicle docking involved in exocytosis	cell junction|growth cone|perinuclear region of cytoplasm|synapse|synaptosome				skin(2)	2					Botulinum Toxin Type A(DB00083)	GTGCAACAAAGATGCTGGGAA	0.453													17	57	---	---	---	---	PASS	C	10286827	C	C	10286827	3	2	119	1	0	0	0	0	1	0	0	0	14830	933	33	2	751	2	SNAP25	20	10286827	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1608477	10286827	52738693	1286	44459										
MACROD2	140733	broad.mit.edu	37	chr20	14066369	14066369	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agaggtagatgctatagtcaAtgccggtgagtagttgattt	13	4	1	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:14066369A>G	uc002wou.2	+	3	530	c.266A>G	c.(265-267)AAT>AGT	p.N89S	MACROD2_uc002wot.2_Missense_Mutation_p.N89S	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	89	Macro.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				GCTATAGTCAATGCCGGTGAG	0.308													14	53	---	---	---	---	PASS	G	14066369	G	G	14066369	3	3	119	1	0	0	0	0	1	0	0	0	9146	101	4	5	276	5	MACROD2	20	14066369	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	3779542	14066369	48959151	1287	44460										
PAX1	5075	broad.mit.edu	37	chr20	21687476	21687476	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacaagatcggcagcctggcGcagcccggaccgtacgaggc	14	14	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:21687476G>C	uc002wsj.2	+	2	741	c.687G>C	c.(685-687)GCG>GCC	p.A229A	PAX1_uc010zsl.1_Silent_p.A229A|PAX1_uc010zsm.1_Silent_p.A205A	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	229					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						GCAGCCTGGCGCAGCCCGGAC	0.647													10	35	---	---	---	---	PASS	C	21687476	C	C	21687476	2	2	119	1	0	0	0	0	0	0	0	1	11478	1074	38	4		4	PAX1	20	21687476	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	7621107	21687476	41338044	1288	44461										
NAPB	63908	broad.mit.edu	37	chr20	23361892	23361892	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgaagtggcagagggcagcTttgaagaagtaatcctttgc	13	6	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:23361892T>C	uc002wta.2	-	8	741	c.624A>G	c.(622-624)AAA>AAG	p.K208K	NAPB_uc002wtc.2_Silent_p.K114K|NAPB_uc002wtb.2_Silent_p.K212K|NAPB_uc002wtd.3_RNA|NAPB_uc010zss.1_Silent_p.K95K|NAPB_uc010zst.1_Silent_p.K169K	NM_022080	NP_071363	Q9H115	SNAB_HUMAN	N-ethylmaleimide-sensitive factor attachment	208					intracellular protein transport|vesicle-mediated transport	membrane				ovary(1)	1	Lung NSC(19;0.0646)|Colorectal(13;0.0993)|all_lung(19;0.143)					AGAGGGCAGCTTTGAAGAAGT	0.398													44	236	---	---	---	---	PASS	C	23361892	C	C	23361892	2	2	119	1	0	0	0	0	0	0	0	1	10162	1606	56	5		5	NAPB	20	23361892	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	1674416	23361892	39663628	1289	44462										
TMEM90B	79953	broad.mit.edu	37	chr20	24523908	24523908	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggtgggggccagcacagtgCcggccagcctggacagcagc	18	13	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:24523908C>A	uc002wtw.1	+	2	808	c.175C>A	c.(175-177)CCG>ACG	p.P59T		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	59	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						CAGCACAGTGCCGGCCAGCCT	0.617													32	80	---	---	---	---	PASS	A	24523908	A	A	24523908	3	1	119	1	0	0	0	0	1	0	0	0	16216	739	26	3	177	3	TMEM90B	20	24523908	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1162016	24523908	38501612	1290	44463										
PLAGL2	5326	broad.mit.edu	37	chr20	30784767	30784767	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agagataggtgaggattccaGagggtagctcatacccatgg	14	7	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:30784767G>C	uc002wxn.2	-	3	1196	c.979C>G	c.(979-981)CTG>GTG	p.L327V		NM_002657	NP_002648	Q9UPG8	PLAL2_HUMAN	pleiomorphic adenoma gene-like 2	327						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			GAGGATTCCAGAGGGTAGCTC	0.572													9	289	---	---	---	---	PASS	C	30784767	C	C	30784767	3	2	119	1	0	0	0	0	1	0	0	0	12020	933	33	2	515	2	PLAGL2	20	30784767	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6260859	30784767	32240753	1291	44464										
C20orf186	149954	broad.mit.edu	37	chr20	31685537	31685537	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgaaggtgttggccactgccGaggtcatggtctcccagccc	13	13	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:31685537G>A	uc010zue.1	+	11	1528	c.1513G>A	c.(1513-1515)GAG>AAG	p.E505K		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	505						cytoplasm|extracellular region	lipid binding				0						GGCCACTGCCGAGGTCATGGT	0.582													11	120	---	---	---	---	PASS	A	31685537	A	A	31685537	3	1	119	1	0	0	0	0	1	0	0	0	2098	1059	37	2	1555	2	C20orf186	20	31685537	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	900770	31685537	31339983	1292	44465										
EIF2S2	8894	broad.mit.edu	37	chr20	32677584	32677584	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgcttgcccgtgacagcctgGaagccggttttgatactggc	13	12	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:32677584G>T	uc002xaf.2	-	9	1123	c.954C>A	c.(952-954)TTC>TTA	p.F318L	EIF2S2_uc002xag.2_Missense_Mutation_p.F315L|EIF2S2_uc010ges.2_Missense_Mutation_p.F258L	NM_003908	NP_003899	P20042	IF2B_HUMAN	eukaryotic translation initiation factor 2 beta	318						cytosol|eukaryotic translation initiation factor 2 complex	metal ion binding|protein binding|translation initiation factor activity			large_intestine(1)	1						TGACAGCCTGGAAGCCGGTTT	0.488													18	122	---	---	---	---	PASS	T	32677584	T	T	32677584	3	4	119	1	0	0	0	0	1	0	0	0	5010	1165	41	2	51	2	EIF2S2	20	32677584	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	992047	32677584	30347936	1293	44466										
GGT7	2686	broad.mit.edu	37	chr20	33442668	33442668	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgaagccctccaggatgttGagagcactgatgagggcagg	15	8	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:33442668G>A	uc002xay.2	-	9	1204	c.1161C>T	c.(1159-1161)CTC>CTT	p.L387L	GGT7_uc002xaz.1_Silent_p.L404L	NM_178026	NP_821158	Q9UJ14	GGT7_HUMAN	gamma-glutamyltransferase 7	387	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(1)	1						CCAGGATGTTGAGAGCACTGA	0.592													4	86	---	---	---	---	PASS	A	33442668	A	A	33442668	2	1	119	1	0	0	0	0	0	0	0	1	6364	1277	45	2		2	GGT7	20	33442668	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	765084	33442668	29582852	1294	44467										
TRPC4AP	26133	broad.mit.edu	37	chr20	33591291	33591291	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agcaggttgtggaagttgttGagcaggaagccggggtactt	17	5	0	1	rs151041246		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:33591291G>C	uc002xbk.2	-	18	2212	c.2178C>G	c.(2176-2178)CTC>CTG	p.L726L	TRPC4AP_uc002xbj.2_RNA|TRPC4AP_uc010zuq.1_Silent_p.L317L|TRPC4AP_uc002xbl.2_Silent_p.L718L|TRPC4AP_uc010zur.1_Silent_p.L687L	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	726					protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			GGAAGTTGTTGAGCAGGAAGC	0.612													14	68	---	---	---	---	PASS	C	33591291	C	C	33591291	2	2	119	1	0	0	0	0	0	0	0	1	16578	1277	45	2		2	TRPC4AP	20	33591291	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	148623	33591291	29434229	1295	44468										
TRPC4AP	26133	broad.mit.edu	37	chr20	33595396	33595396	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggaacatctggtctgcatagGaggtggtccctcggaggaaa	15	8	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:33595396G>A	uc002xbk.2	-	14	1677	c.1643C>T	c.(1642-1644)TCC>TTC	p.S548F	TRPC4AP_uc002xbj.2_5'Flank|TRPC4AP_uc010zuq.1_Missense_Mutation_p.S139F|TRPC4AP_uc002xbl.2_Missense_Mutation_p.S540F|TRPC4AP_uc010zur.1_Missense_Mutation_p.S509F|TRPC4AP_uc002xbm.1_3'UTR	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	548					protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			GTCTGCATAGGAGGTGGTCCC	0.607													19	92	---	---	---	---	PASS	A	33595396	A	A	33595396	3	1	119	1	0	0	0	0	1	0	0	0	16578	1174	41	2	774	2	TRPC4AP	20	33595396	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4105	33595396	29430124	1296	44469										
SPAG4	6676	broad.mit.edu	37	chr20	34205126	34205126	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgaccctggatctgaggcagGagatgcctcccccgcgggtg	15	14	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:34205126G>C	uc002xdb.1	+	2	490	c.373G>C	c.(373-375)GAG>CAG	p.E125Q	SPAG4_uc010zvi.1_Missense_Mutation_p.E48Q	NM_003116	NP_003107	Q9NPE6	SPAG4_HUMAN	sperm associated antigen 4	125					spermatogenesis	cilium|flagellar axoneme|integral to membrane	structural molecule activity				0	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			TCTGAGGCAGGAGATGCCTCC	0.637													2	7	---	---	---	---	PASS	C	34205126	C	C	34205126	3	2	119	1	0	0	0	0	1	0	0	0	14980	1175	41	2	379	2	SPAG4	20	34205126	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	609730	34205126	28820394	1297	44470										
EPB41L1	2036	broad.mit.edu	37	chr20	34773052	34773052	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctccagatactacctgtgcCtgcagctgcgggcagacatc	10	14	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:34773052C>T	uc002xfb.2	+	7	751	c.580C>T	c.(580-582)CTG>TTG	p.L194L	EPB41L1_uc002xeu.2_Silent_p.L132L|EPB41L1_uc010zvo.1_Silent_p.L194L|EPB41L1_uc002xev.2_Silent_p.L194L|EPB41L1_uc002xew.2_Silent_p.L97L|EPB41L1_uc002xex.2_Silent_p.L163L|EPB41L1_uc002xey.2_Intron|EPB41L1_uc002xez.2_Silent_p.L132L	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	194	FERM.				cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					CTACCTGTGCCTGCAGCTGCG	0.592													4	94	---	---	---	---	PASS	T	34773052	T	T	34773052	2	4	119	1	0	0	0	0	0	0	0	1	5152	680	24	3		3	EPB41L1	20	34773052	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	567926	34773052	28252468	1298	44471										
ACTR5	79913	broad.mit.edu	37	chr20	37383748	37383748	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgcggcggctgcaggagctCaatgcccggcggcgggagga	19	11	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:37383748C>A	uc002xjd.2	+	4	949	c.924C>A	c.(922-924)CTC>CTA	p.L308L		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	308	Potential.				DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)				TGCAGGAGCTCAATGCCCGGC	0.602													3	34	---	---	---	---	PASS	A	37383748	A	A	37383748	2	1	119	1	0	0	0	0	0	0	0	1	215	813	29	2		2	ACTR5	20	37383748	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2610696	37383748	25641772	1299	44472										
PTPRT	11122	broad.mit.edu	37	chr20	40980734	40980734	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcagagatacctgaaattttGgtggcaatccgagtggtgac	13	7	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:40980734G>T	uc002xkg.2	-	10	1936	c.1752C>A	c.(1750-1752)ACC>ACA	p.T584T	PTPRT_uc010ggj.2_Silent_p.T584T	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	584	Extracellular (Potential).|Fibronectin type-III 3.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CTGAAATTTTGGTGGCAATCC	0.468													48	76	---	---	---	---	PASS	T	40980734	T	T	40980734	2	4	119	1	0	0	0	0	0	0	0	1	12812	1335	47	3		3	PTPRT	20	40980734	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	3596986	40980734	22044786	1300	44473										
MATN4	8785	broad.mit.edu	37	chr20	43926926	43926926	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccgtgcaccctgcgcctcgGagaagctgtgctccaccatg	12	16	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:43926926G>A	uc002xnn.2	-	7	1497	c.1310C>T	c.(1309-1311)TCC>TTC	p.S437F	MATN4_uc002xno.2_Missense_Mutation_p.S396F|MATN4_uc002xnp.2_Missense_Mutation_p.S355F|MATN4_uc010zwr.1_Missense_Mutation_p.S385F|MATN4_uc002xnr.1_Missense_Mutation_p.S437F	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	478	VWFA 2.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				CTGCGCCTCGGAGAAGCTGTG	0.667													11	60	---	---	---	---	PASS	A	43926926	A	A	43926926	3	1	119	1	0	0	0	0	1	0	0	0	9336	1174	41	2	451	2	MATN4	20	43926926	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2946192	43926926	19098594	1301	44474										
SLC13A3	64849	broad.mit.edu	37	chr20	45204214	45204214	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggagccagggggtcttacctCacagcctttggccatggcga	14	12	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:45204214C>G	uc002xsf.1	-	10	1368	c.1330G>C	c.(1330-1332)GAG>CAG	p.E444Q	SLC13A3_uc010ghn.1_Missense_Mutation_p.E413Q|SLC13A3_uc010zxw.1_Missense_Mutation_p.E394Q|SLC13A3_uc002xsg.1_Missense_Mutation_p.E397Q|SLC13A3_uc010gho.1_Missense_Mutation_p.E362Q|SLC13A3_uc010zxx.1_Missense_Mutation_p.E346Q|SLC13A3_uc010zxv.1_Intron	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	444	Cytoplasmic (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	GGTCTTACCTCACAGCCTTTG	0.632													3	12	---	---	---	---	PASS	G	45204214	G	G	45204214	3	3	119	1	0	0	0	0	1	0	0	0	14393	835	29	2	494	2	SLC13A3	20	45204214	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1277288	45204214	17821306	1302	44475										
PREX1	57580	broad.mit.edu	37	chr20	47266640	47266640	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taggacacttccatgaggttGatgtggcaattggtggggca	15	6	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:47266640G>C	uc002xtw.1	-	24	2945	c.2922C>G	c.(2920-2922)ATC>ATG	p.I974M	PREX1_uc002xtv.1_Missense_Mutation_p.I271M	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	974					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			CCATGAGGTTGATGTGGCAAT	0.622													42	197	---	---	---	---	PASS	C	47266640	C	C	47266640	3	2	119	1	0	0	0	0	1	0	0	0	12476	1280	45	2	2125	2	PREX1	20	47266640	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2062426	47266640	15758880	1303	44476										
TSHZ2	128553	broad.mit.edu	37	chr20	51871800	51871800	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccccttacactcaagtcaaGaaagagtcagaagacaaaga	8	10	3	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:51871800G>C	uc002xwo.2	+	2	2759	c.1803G>C	c.(1801-1803)AAG>AAC	p.K601N		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	601					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CTCAAGTCAAGAAAGAGTCAG	0.512													10	189	---	---	---	---	PASS	C	51871800	C	C	51871800	3	2	119	1	0	0	0	0	1	0	0	0	16621	933	33	2	1809	2	TSHZ2	20	51871800	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4605160	51871800	11153720	1304	44477										
TSHZ2	128553	broad.mit.edu	37	chr20	51871975	51871975	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggaggagaagctgatgaaaGagggcagcgagaaggagaaa	18	3	0	6			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:51871975G>C	uc002xwo.2	+	2	2934	c.1978G>C	c.(1978-1980)GAG>CAG	p.E660Q		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	660					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GCTGATGAAAGAGGGCAGCGA	0.597													40	48	---	---	---	---	PASS	C	51871975	C	C	51871975	3	2	119	1	0	0	0	0	1	0	0	0	16621	943	33	2	1984	2	TSHZ2	20	51871975	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	175	51871975	11153545	1305	44478										
CDH26	60437	broad.mit.edu	37	chr20	58571034	58571034	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccagtgggctcacatgtgtgGagcttgcagatgcagaagtg	15	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:58571034G>A	uc002ybe.2	+	12	2113	c.1813G>A	c.(1813-1815)GAG>AAG	p.E605K	CDH26_uc002ybf.1_Missense_Mutation_p.E185K|CDH26_uc010zzy.1_RNA|CDH26_uc002ybg.2_Missense_Mutation_p.E119K|CDH26_uc002ybh.2_5'Flank|CDH26_uc002ybi.2_5'Flank	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	605	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			CACATGTGTGGAGCTTGCAGA	0.552													4	85	---	---	---	---	PASS	A	58571034	A	A	58571034	3	1	119	1	0	0	0	0	1	0	0	0	3110	1175	41	2	1859	2	CDH26	20	58571034	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6699059	58571034	4454486	1306	44479										
DIDO1	11083	broad.mit.edu	37	chr20	61525358	61525358	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgttctgtccacatttggatGagaagcactttctaggcctg	10	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:61525358G>A	uc002ydr.1	-	12	3025	c.2761C>T	c.(2761-2763)CAT>TAT	p.H921Y	DIDO1_uc002yds.1_Missense_Mutation_p.H921Y|DIDO1_uc002ydt.1_Missense_Mutation_p.H921Y|DIDO1_uc002ydu.1_Missense_Mutation_p.H921Y	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	921					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					ACATTTGGATGAGAAGCACTT	0.607													5	130	---	---	---	---	PASS	A	61525358	A	A	61525358	3	1	119	1	0	0	0	0	1	0	0	0	4522	1290	45	2	4010	2	DIDO1	20	61525358	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2954324	61525358	1500162	1307	44480										
BIRC7	79444	broad.mit.edu	37	chr20	61870880	61870880	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gcggccacctggtctgtgctGagtgtgcccccggcctgcag	15	15	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:61870880G>A	uc002yej.2	+	6	993	c.820G>A	c.(820-822)GAG>AAG	p.E274K	BIRC7_uc010gkc.1_3'UTR|BIRC7_uc002yei.2_Missense_Mutation_p.E256K	NM_139317	NP_647478	Q96CA5	BIRC7_HUMAN	livin inhibitor of apoptosis isoform alpha	274	RING-type.				activation of JUN kinase activity|anti-apoptosis|DNA fragmentation involved in apoptotic nuclear change	cytoplasm|nucleus	enzyme binding|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3	all_cancers(38;2.72e-09)					GGTCTGTGCTGAGTGTGCCCC	0.706													8	49	---	---	---	---	PASS	A	61870880	A	A	61870880	3	1	119	1	0	0	0	0	1	0	0	0	1439	1291	45	2	842	2	BIRC7	20	61870880	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	345522	61870880	1154640	1308	44481										
MYT1	4661	broad.mit.edu	37	chr20	62871199	62871199	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gaagccctgtttctggagctGtccggcctgagccaggccct	13	14	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr20:62871199G>A	uc002yii.2	+	22	3544	c.3180G>A	c.(3178-3180)CTG>CTA	p.L1060L	MYT1_uc002yij.2_Silent_p.L719L|MYT1_uc002yik.2_Silent_p.L26L	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	1060					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					TTCTGGAGCTGTCCGGCCTGA	0.587													11	191	---	---	---	---	PASS	A	62871199	A	A	62871199	2	1	119	1	0	0	0	0	0	0	0	1	10106	1364	48	3		3	MYT1	20	62871199	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	1000319	62871199	154321	1309	44482										
RBM11	54033	broad.mit.edu	37	chr21	15599481	15599481	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gactcaccaacaaccaagtgActctgacctttatcagatga	6	12	3	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:15599481A>G	uc002yjo.3	+	5	755	c.713A>G	c.(712-714)GAC>GGC	p.D238G	RBM11_uc002yjn.3_Missense_Mutation_p.D124G|RBM11_uc002yjp.3_Missense_Mutation_p.D124G	NM_144770	NP_658983	P57052	RBM11_HUMAN	RNA binding motif protein 11	238							nucleotide binding|RNA binding				0				Epithelial(23;0.000314)|COAD - Colon adenocarcinoma(22;0.00242)|Colorectal(24;0.0129)|Lung(58;0.141)		CAACCAAGTGACTCTGACCTT	0.428													80	335	---	---	---	---	PASS	G	15599481	G	G	15599481	3	3	119	1	0	0	0	0	1	0	0	0	13112	275	10	5	731	5	RBM11	21	15599481	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08		15599481	32530414	1310	44483										
TMPRSS15	5651	broad.mit.edu	37	chr21	19651328	19651328	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caatagaacaatttcttcctGgaggaaaaacttgattttct	6	7	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:19651328G>T	uc002ykw.2	-	23	2748	c.2717C>A	c.(2716-2718)CCA>CAA	p.P906Q		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	906	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						ATTTCTTCCTGGAGGAAAAAC	0.323													8	88	---	---	---	---	PASS	T	19651328	T	T	19651328	3	4	119	1	0	0	0	0	1	0	0	0	16243	1348	47	3	354	3	TMPRSS15	21	19651328	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4051847	19651328	28478567	1311	44484										
NCAM2	4685	broad.mit.edu	37	chr21	22849633	22849633	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagataaggaagaccaatggCtagagaaaaaagtgcaagga	12	4	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:22849633C>G	uc002yld.1	+	15	2167	c.1918C>G	c.(1918-1920)CTA>GTA	p.L640V	NCAM2_uc011acb.1_Missense_Mutation_p.L498V	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	640	Fibronectin type-III 2.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		AGACCAATGGCTAGAGAAAAA	0.353													14	55	---	---	---	---	PASS	G	22849633	G	G	22849633	3	3	119	1	0	0	0	0	1	0	0	0	10203	796	28	4	1976	4	NCAM2	21	22849633	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3198305	22849633	25280262	1312	44485										
NCAM2	4685	broad.mit.edu	37	chr21	22849675	22849675	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ataaagaccacatcattttgGagcatctccagtggaccatg	8	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:22849675G>T	uc002yld.1	+	15	2209	c.1960G>T	c.(1960-1962)GAG>TAG	p.E654*	NCAM2_uc011acb.1_Nonsense_Mutation_p.E512*	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	654	Fibronectin type-III 2.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		CATCATTTTGGAGCATCTCCA	0.388													14	84	---	---	---	---	PASS	T	22849675	T	T	22849675	4	4	119	1	0	0	0	0	0	1	0	0	10203	1175	41	2	2018	2	NCAM2	21	22849675	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	42	22849675	25280220	1313	44486										
GRIK1	2897	broad.mit.edu	37	chr21	31023509	31023509	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctctccatggaccacttctCaatgatggatgacacgtgag	9	11	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:31023509C>G	uc002yno.1	-	6	1347	c.883G>C	c.(883-885)GAG>CAG	p.E295Q	GRIK1_uc002ynn.2_Missense_Mutation_p.E295Q|GRIK1_uc011acs.1_Missense_Mutation_p.E295Q|GRIK1_uc011act.1_Missense_Mutation_p.E239Q|GRIK1_uc010glq.1_Missense_Mutation_p.E153Q|GRIK1_uc002ynr.2_Missense_Mutation_p.E295Q	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	295	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	GACCACTTCTCAATGATGGAT	0.473													18	88	---	---	---	---	PASS	G	31023509	G	G	31023509	3	3	119	1	0	0	0	0	1	0	0	0	6773	835	29	2	2081	2	GRIK1	21	31023509	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	8173834	31023509	17106386	1314	44487										
TIAM1	7074	broad.mit.edu	37	chr21	32526612	32526612	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagctcgcagatcaccttgcGcagcttatctgcatccgaga	10	13	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:32526612G>A	uc002yow.1	-	18	3596	c.3124C>T	c.(3124-3126)CGC>TGC	p.R1042C	TIAM1_uc011adk.1_Missense_Mutation_p.R1042C|TIAM1_uc011adl.1_Missense_Mutation_p.R982C	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1042	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						ATCACCTTGCGCAGCTTATCT	0.567													11	132	---	---	---	---	PASS	A	32526612	A	A	32526612	3	1	119	1	0	0	0	0	1	0	0	0	15887	1087	38	1	1699	1	TIAM1	21	32526612	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1503103	32526612	15603283	1315	44488										
C21orf45	54069	broad.mit.edu	37	chr21	33642731	33642731	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacttacctttcaatggcttCaacactgaggcaaaacaagt	6	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:33642731C>T	uc002ypi.2	-	3	562	c.511G>A	c.(511-513)GAA>AAA	p.E171K	C21orf45_uc011adn.1_Missense_Mutation_p.E171K	NM_018944	NP_061817	Q9NYP9	MS18A_HUMAN	chromosome 21 open reading frame 45	171					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm					0						TCAATGGCTTCAACACTGAGG	0.413													18	95	---	---	---	---	PASS	T	33642731	T	T	33642731	3	4	119	1	0	0	0	0	1	0	0	0	2126	835	29	2	202	2	C21orf45	21	33642731	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1116119	33642731	14487164	1316	44489										
DOPEY2	9980	broad.mit.edu	37	chr21	37610966	37610966	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gacaagagagatccaaggcaGtcgagtaacatctcacaatc	9	10	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:37610966G>T	uc002yvg.2	+	17	2922	c.2843G>T	c.(2842-2844)AGT>ATT	p.S948I	DOPEY2_uc011aeb.1_Missense_Mutation_p.S897I	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	948					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						ATCCAAGGCAGTCGAGTAACA	0.493													21	53	---	---	---	---	PASS	T	37610966	T	T	37610966	3	4	119	1	0	0	0	0	1	0	0	0	4708	1029	36	3	2905	3	DOPEY2	21	37610966	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	3968235	37610966	10518929	1317	44490										
KCNJ15	3772	broad.mit.edu	37	chr21	39671705	39671705	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atcgccagacccaaaaagcgGgctgagaccatcaagttcag	10	12	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:39671705G>C	uc002ywv.2	+	4	824	c.522G>C	c.(520-522)CGG>CGC	p.R174R	KCNJ15_uc002yww.2_Silent_p.R174R|KCNJ15_uc002ywx.2_Silent_p.R174R	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	174	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						CCAAAAAGCGGGCTGAGACCA	0.502													30	75	---	---	---	---	PASS	C	39671705	C	C	39671705	2	2	119	1	0	0	0	0	0	0	0	1	8049	1219	43	4		4	KCNJ15	21	39671705	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	2060739	39671705	8458190	1318	44491										
BRWD1	54014	broad.mit.edu	37	chr21	40559097	40559097	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attttttcttagccgcagcaGaagcatttcgatggggcagt	11	8	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:40559097G>C	uc002yxk.1	-	42	6957	c.6818C>G	c.(6817-6819)TCT>TGT	p.S2273C	BRWD1_uc010goc.1_Missense_Mutation_p.S916C	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	2273					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				AGCCGCAGCAGAAGCATTTCG	0.323													37	147	---	---	---	---	PASS	C	40559097	C	C	40559097	3	2	119	1	0	0	0	0	1	0	0	0	1525	942	33	2	148	2	BRWD1	21	40559097	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	887392	40559097	7570798	1319	44492										
IGSF5	150084	broad.mit.edu	37	chr21	41142978	41142978	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cggtctcctggtcagccattCaagctattattttgttccgg	9	11	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:41142978C>G	uc002yyo.2	+	4	657	c.554C>G	c.(553-555)TCA>TGA	p.S185*		NM_001080444	NP_001073913	Q9NSI5	IGSF5_HUMAN	immunoglobulin superfamily 5 like	185	Ig-like V-type 2.|Extracellular (Potential).					integral to membrane|tight junction					0		Prostate(19;5.35e-06)				GTCAGCCATTCAAGCTATTAT	0.537													16	95	---	---	---	---	PASS	G	41142978	G	G	41142978	4	3	119	1	0	0	0	0	0	1	0	0	7602	838	29	2	568	2	IGSF5	21	41142978	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	583881	41142978	6986917	1320	44493										
DSCAM	1826	broad.mit.edu	37	chr21	41385099	41385099	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgctgaggtaatgtggccacGgcccccggctgccacgactg	14	15	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:41385099G>T	uc002yyq.1	-	33	6353	c.5901C>A	c.(5899-5901)GCC>GCA	p.A1967A	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1967	Cytoplasmic (Potential).			HRPGDLIHLPPYLRMDFLLNRGGPGTSRDLSLGQACLEPQK SRTLKRPTVLEPIPMEAASSASSTREGQSWQPGAVATLPQR EGAELGQAAKMSSSQESLLDSRGHLKGNNPYAKSYTLV -> IGQVTSYICLHTLEWTFC (in Ref. 1; AAC17966).	cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				ATGTGGCCACGGCCCCCGGCT	0.652													3	23	---	---	---	---	PASS	T	41385099	T	T	41385099	2	4	119	1	0	0	0	0	0	0	0	1	4768	1103	39	1		1	DSCAM	21	41385099	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	242121	41385099	6744796	1321	44494										
PDE9A	5152	broad.mit.edu	37	chr21	44179162	44179162	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcgggctggtcagggacttCagcatcaaccctgtcaccct	10	15	4	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:44179162C>T	uc002zbm.2	+	11	927	c.864C>T	c.(862-864)TTC>TTT	p.F288F	PDE9A_uc002zbn.2_Silent_p.F161F|PDE9A_uc002zbo.2_Silent_p.F235F|PDE9A_uc002zbp.2_Silent_p.F81F|PDE9A_uc002zbq.2_Silent_p.F186F|PDE9A_uc002zbs.2_Silent_p.F81F|PDE9A_uc002zbr.2_Silent_p.F81F|PDE9A_uc002zbt.2_Silent_p.F160F|PDE9A_uc002zbu.2_Silent_p.F154F|PDE9A_uc002zbv.2_Silent_p.F128F|PDE9A_uc002zbw.2_Silent_p.F71F|PDE9A_uc002zbx.2_Silent_p.F228F|PDE9A_uc002zby.2_Silent_p.F71F|PDE9A_uc002zbz.2_Silent_p.F180F|PDE9A_uc002zca.2_Silent_p.F247F|PDE9A_uc002zcb.2_Silent_p.F262F|PDE9A_uc002zcc.2_Silent_p.F187F|PDE9A_uc002zcd.2_Silent_p.F202F|PDE9A_uc002zce.2_Silent_p.F221F|PDE9A_uc002zcf.2_Silent_p.F81F|PDE9A_uc002zcg.2_Silent_p.F81F|PDE9A_uc002zch.2_Silent_p.F71F|PDE9A_uc010gpf.1_Silent_p.F81F	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a	288	Catalytic (By similarity).				platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						TCAGGGACTTCAGCATCAACC	0.602													4	56	---	---	---	---	PASS	T	44179162	T	T	44179162	2	4	119	1	0	0	0	0	0	0	0	1	11655	825	29	2		2	PDE9A	21	44179162	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2794063	44179162	3950733	1322	44495										
PKNOX1	5316	broad.mit.edu	37	chr21	44448912	44448912	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgctcagaaccggccagttCagaggttttggcctgattct	11	11	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:44448912C>G	uc002zcq.1	+	10	1215	c.1027C>G	c.(1027-1029)CAG>GAG	p.Q343E	PKNOX1_uc002zcp.1_Missense_Mutation_p.Q343E|PKNOX1_uc011aex.1_Missense_Mutation_p.Q226E	NM_004571	NP_004562	P55347	PKNX1_HUMAN	PBX/knotted 1 homeobox 1	343							sequence-specific DNA binding			large_intestine(2)	2						CCGGCCAGTTCAGAGGTTTTG	0.512													67	221	---	---	---	---	PASS	G	44448912	G	G	44448912	3	3	119	1	0	0	0	0	1	0	0	0	11982	827	29	2	1061	2	PKNOX1	21	44448912	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	269750	44448912	3680983	1323	44496										
PKNOX1	5316	broad.mit.edu	37	chr21	44450169	44450169	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtgccctggcccctgcccaCatcagcgggctggtcttgga	14	15	2	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:44450169C>G	uc002zcq.1	+	11	1457	c.1269C>G	c.(1267-1269)CAC>CAG	p.H423Q	PKNOX1_uc011aex.1_Missense_Mutation_p.H306Q	NM_004571	NP_004562	P55347	PKNX1_HUMAN	PBX/knotted 1 homeobox 1	423							sequence-specific DNA binding			large_intestine(2)	2						CCCCTGCCCACATCAGCGGGC	0.607													18	53	---	---	---	---	PASS	G	44450169	G	G	44450169	3	3	119	1	0	0	0	0	1	0	0	0	11982	477	17	4	1307	4	PKNOX1	21	44450169	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1257	44450169	3679726	1324	44497										
CBS	875	broad.mit.edu	37	chr21	44483143	44483143	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgctccgtctggttcagctCctccggctctgcgaggatgg	13	14	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:44483143C>T	uc002zcu.2	-	10	1119	c.874G>A	c.(874-876)GAG>AAG	p.E292K	CBS_uc002zcs.1_Missense_Mutation_p.E187K|CBS_uc002zct.2_Missense_Mutation_p.E292K|CBS_uc002zcw.3_Missense_Mutation_p.E292K|CBS_uc002zcv.2_Missense_Mutation_p.E292K|CBS_uc002zcx.2_5'Flank	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	292					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	TGGTTCAGCTCCTCCGGCTCT	0.632													34	123	---	---	---	---	PASS	T	44483143	T	T	44483143	3	4	119	1	0	0	0	0	1	0	0	0	2711	864	30	2	813	2	CBS	21	44483143	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	32974	44483143	3646752	1325	44498										
CBS	875	broad.mit.edu	37	chr21	44483170	44483170	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctctgcgaggatggacccttCgggatccaccccaatgatct	10	14	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:44483170C>T	uc002zcu.2	-	10	1092	c.847G>A	c.(847-849)GAA>AAA	p.E283K	CBS_uc002zcs.1_Missense_Mutation_p.E178K|CBS_uc002zct.2_Missense_Mutation_p.E283K|CBS_uc002zcw.3_Missense_Mutation_p.E283K|CBS_uc002zcv.2_Missense_Mutation_p.E283K|CBS_uc002zcx.2_5'Flank	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	283					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	ATGGACCCTTCGGGATCCACC	0.607													33	106	---	---	---	---	PASS	T	44483170	T	T	44483170	3	4	119	1	0	0	0	0	1	0	0	0	2711	893	31	2	840	2	CBS	21	44483170	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	27	44483170	3646725	1326	44499										
TRPM2	7226	broad.mit.edu	37	chr21	45811239	45811239	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcttcctggagaacggggtgCagctgaaggagtttgtcacc	14	9	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:45811239C>T	uc002zet.1	+	12	1738	c.1525C>T	c.(1525-1527)CAG>TAG	p.Q509*	TRPM2_uc002zeu.1_Nonsense_Mutation_p.Q509*|TRPM2_uc002zew.1_Nonsense_Mutation_p.Q509*|TRPM2_uc010gpt.1_Nonsense_Mutation_p.Q509*|TRPM2_uc002zex.1_Nonsense_Mutation_p.Q295*|TRPM2_uc002zey.1_Nonsense_Mutation_p.Q22*	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	509	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GAACGGGGTGCAGCTGAAGGA	0.557													39	153	---	---	---	---	PASS	T	45811239	T	T	45811239	4	4	119	1	0	0	0	0	0	1	0	0	16583	711	25	3	1567	3	TRPM2	21	45811239	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1328069	45811239	2318656	1327	44500										
KRTAP10-5	386680	broad.mit.edu	37	chr21	45999863	45999863	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agctagactgctggcagcatGaagtggaagccccagagcag	14	10	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:45999863G>T	uc002zfl.1	-	1	619	c.593C>A	c.(592-594)TCA>TAA	p.S198*	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198694	NP_941967	P60370	KR105_HUMAN	keratin associated protein 10-5	198	22 X 5 AA repeats of C-C-X(3).					keratin filament					0						CTGGCAGCATGAAGTGGAAGC	0.632													64	236	---	---	---	---	PASS	T	45999863	T	T	45999863	4	4	119	1	0	0	0	0	0	1	0	0	8512	1294	45	2	226	2	KRTAP10-5	21	45999863	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	188624	45999863	2130032	1328	44501										
COL6A2	1292	broad.mit.edu	37	chr21	47546006	47546006	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	acagtgacggccatcggcatCggggacatgttccacgagaa	13	11	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:47546006C>T	uc002zia.1	+	26	2359	c.2277C>T	c.(2275-2277)ATC>ATT	p.I759I	COL6A2_uc002zhy.1_Silent_p.I759I|COL6A2_uc002zhz.1_Silent_p.I759I|COL6A2_uc002zib.1_Silent_p.I165I|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	759	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		CCATCGGCATCGGGGACATGT	0.627													16	260	---	---	---	---	PASS	T	47546006	T	T	47546006	2	4	119	1	0	0	0	0	0	0	0	1	3700	874	31	2		2	COL6A2	21	47546006	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1546143	47546006	583889	1329	44502										
PCNT	5116	broad.mit.edu	37	chr21	47864606	47864606	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtgtggtaatttgtttgaaGagccactccatccccaaatt	9	9	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr21:47864606G>C	uc002zji.3	+	46	9947	c.9840_splice	c.e46-1	p.R3280_splice	PCNT_uc002zjj.2_Splice_Site_p.R3083_splice	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin						cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TTTGTTTGAAGAGCCACTCCA	0.403													13	110	---	---	---	---	PASS	C	47864606	C	C	47864606	5	2	119	1	0	0	0	0	0	0	1	0	11590	956	33	2	10021	2	PCNT	21	47864606	Splice_Site	SNP	G	TCGA-60-2698-01A-01D-1522-08	318600	47864606	265289	1330	44503										
OR11H1	81061	broad.mit.edu	37	chr22	16449122	16449122	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagtataggatccaataataAagaggaagttaccaaaaata	8	4	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:16449122A>T	uc011agd.1	-	1	683	c.683T>A	c.(682-684)TTT>TAT	p.F228Y		NM_001005239	NP_001005239	Q8NG94	O11H1_HUMAN	olfactory receptor, family 11, subfamily H,	228	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.208)		Kidney(3;0.00216)|KIRC - Kidney renal clear cell carcinoma(3;0.00244)|Lung(27;0.0724)|COAD - Colon adenocarcinoma(3;0.211)		TCCAATAATAAAGAGGAAGTT	0.438													31	220	---	---	---	---	PASS	T	16449122	T	T	16449122	3	4	119	1	0	0	0	0	1	0	0	0	10926	14	1	5	299	5	OR11H1	22	16449122	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08		16449122	34855444	1331	44504										
CECR5	27440	broad.mit.edu	37	chr22	17619130	17619130	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagatgcagctctggcttgcTgagggctgttgctgccgtgt	16	9	1	2	rs138657583	byFrequency	TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:17619130T>A	uc002zmf.2	-	8	1081	c.1053A>T	c.(1051-1053)TCA>TCT	p.S351S	CECR5_uc002zmd.2_Silent_p.S162S|CECR5_uc002zme.2_Silent_p.S143S|CECR5_uc002zmg.2_Silent_p.S151S|CECR5_uc002zmh.2_Silent_p.S321S	NM_033070	NP_149061	Q9BXW7	CECR5_HUMAN	cat eye syndrome chromosome region, candidate 5	351							hydrolase activity				0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)				TCTGGCTTGCTGAGGGCTGTT	0.617													24	41	---	---	---	---	PASS	A	17619130	A	A	17619130	2	1	119	1	0	0	0	0	0	0	0	1	3207	1567	55	5		5	CECR5	22	17619130	Silent	SNP	T	TCGA-60-2698-01A-01D-1522-08	1170008	17619130	33685436	1332	44505										
HIRA	7290	broad.mit.edu	37	chr22	19371184	19371184	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cagagaggcgtgattcttctCcggccatctgctgtccgagt	12	12	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:19371184C>T	uc002zpf.1	-	13	1594	c.1374G>A	c.(1372-1374)CGG>CGA	p.R458R	HIRA_uc011agx.1_Silent_p.R324R|HIRA_uc010grn.1_Silent_p.R458R|HIRA_uc010gro.1_Silent_p.R414R|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	458	Interaction with CCNA1.|Interaction with ASF1A.|Required for repression of histone gene transcription.			RRR->KKK: Impairs binding to ASF1A.|RR->AK: Impairs binding to ASF1A.|Missing: Impairs binding to ASF1A.|R->A: Impairs binding to ASF1A.|RRR->AKK: Abrogates binding to ASF1A.|R->K: Impairs binding to ASF1A; when associated with K-460.	chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					TGATTCTTCTCCGGCCATCTG	0.448													6	224	---	---	---	---	PASS	T	19371184	T	T	19371184	2	4	119	1	0	0	0	0	0	0	0	1	7120	842	30	2		2	HIRA	22	19371184	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1752054	19371184	31933382	1333	44506										
HIRA	7290	broad.mit.edu	37	chr22	19384325	19384325	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cttacctcatcaaaaggcttGgtgatgctggtctccaactg	9	11	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:19384325G>C	uc002zpf.1	-	7	859	c.639C>G	c.(637-639)ACC>ACG	p.T213T	HIRA_uc011agx.1_Silent_p.T79T|HIRA_uc010grn.1_Silent_p.T213T|HIRA_uc010gro.1_Silent_p.T169T|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	213					chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					CAAAAGGCTTGGTGATGCTGG	0.567													36	81	---	---	---	---	PASS	C	19384325	C	C	19384325	2	2	119	1	0	0	0	0	0	0	0	1	7120	1335	47	4		4	HIRA	22	19384325	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	13141	19384325	31920241	1334	44507										
TRMT2A	27037	broad.mit.edu	37	chr22	20103652	20103652	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccatagaggggtcaccacgtCggccactcgtgttactggtg	13	12	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:20103652C>A	uc002zrk.1	-	3	723	c.508G>T	c.(508-510)GAC>TAC	p.D170Y	TRMT2A_uc002zrl.1_Missense_Mutation_p.D170Y|TRMT2A_uc002zrm.1_5'UTR|TRMT2A_uc002zrn.1_Missense_Mutation_p.D170Y|TRMT2A_uc011ahk.1_Missense_Mutation_p.D170Y|RANBP1_uc011ahl.1_5'Flank|RANBP1_uc002zro.1_5'Flank|RANBP1_uc002zrp.2_5'Flank	NM_182984	NP_892029	Q8IZ69	TRM2A_HUMAN	HpaII tiny fragments locus 9C	170					RNA processing		nucleotide binding|RNA binding|RNA methyltransferase activity			breast(1)	1						GTCACCACGTCGGCCACTCGT	0.642													15	65	---	---	---	---	PASS	A	20103652	A	A	20103652	3	1	119	1	0	0	0	0	1	0	0	0	16562	884	31	2	1413	2	TRMT2A	22	20103652	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	719327	20103652	31200914	1335	44508										
HIC2	23119	broad.mit.edu	37	chr22	21799210	21799210	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgtgcctgttcttgcccacaGgtggtgcgcgtgggcagggc	17	12	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:21799210G>A	uc002zur.3	+	3	257	c.27_splice	c.e3-1	p.R9_splice	HIC2_uc002zus.3_Splice_Site_p.R9_splice	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2						negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CTTGCCCACAGGTGGTGCGCG	0.667													12	59	---	---	---	---	PASS	A	21799210	A	A	21799210	5	1	119	1	0	0	0	0	0	0	1	0	7102	1014	35	3	32	3	HIC2	22	21799210	Splice_Site	SNP	G	TCGA-60-2698-01A-01D-1522-08	1695558	21799210	29505356	1336	44509										
SGSM1	129049	broad.mit.edu	37	chr22	25243621	25243621	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cggctgtggaggcctgcgttCtgcacgggcttcggcggcgg	19	12	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:25243621C>G	uc003abg.2	+	4	317	c.160C>G	c.(160-162)CTG>GTG	p.L54V	SGSM1_uc003abh.2_Missense_Mutation_p.L54V|SGSM1_uc010guu.1_Missense_Mutation_p.L54V|SGSM1_uc003abj.2_Missense_Mutation_p.L54V|SGSM1_uc003abi.1_Missense_Mutation_p.L29V|SGSM1_uc003abf.2_Missense_Mutation_p.L54V	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	54	RUN.					Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						GGCCTGCGTTCTGCACGGGCT	0.622													4	24	---	---	---	---	PASS	G	25243621	G	G	25243621	3	3	119	1	0	0	0	0	1	0	0	0	14222	912	32	2	174	2	SGSM1	22	25243621	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3444411	25243621	26060945	1337	44510										
TFIP11	24144	broad.mit.edu	37	chr22	26888319	26888319	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caatgttctcccgtgctcctGgctgcatgtaggcacctaag	10	13	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:26888319G>T	uc003acr.2	-	14	2548	c.2174C>A	c.(2173-2175)CCA>CAA	p.P725Q	TFIP11_uc003acq.2_Missense_Mutation_p.P84Q|TFIP11_uc003acs.2_Missense_Mutation_p.P725Q|TFIP11_uc003act.2_Missense_Mutation_p.P725Q|uc003acu.1_RNA	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	725					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						CCGTGCTCCTGGCTGCATGTA	0.582													10	176	---	---	---	---	PASS	T	26888319	T	T	26888319	3	4	119	1	0	0	0	0	1	0	0	0	15804	1348	47	3	343	3	TFIP11	22	26888319	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1644698	26888319	24416247	1338	44511										
SYN3	8224	broad.mit.edu	37	chr22	33402434	33402434	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	catcagtcctgaggtggcctGaggggcctgcttcatggcac	14	12	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:33402434G>C	uc003amx.2	-	1	373	c.214C>G	c.(214-216)CAG>GAG	p.Q72E	SYN3_uc003amy.2_Missense_Mutation_p.Q72E|SYN3_uc003amz.2_Missense_Mutation_p.Q72E	NM_003490	NP_003481	O14994	SYN3_HUMAN	synapsin III isoform IIIa	72	B; linker.				neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1						GAGGTGGCCTGAGGGGCCTGC	0.602													27	162	---	---	---	---	PASS	C	33402434	C	C	33402434	3	2	119	1	0	0	0	0	1	0	0	0	15439	1299	45	2	1580	2	SYN3	22	33402434	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6514115	33402434	17902132	1339	44512										
LARGE	9215	broad.mit.edu	37	chr22	33712171	33712171	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtgggtgcggtggacagtgaAgcgctctcgccggaactcat	16	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:33712171A>G	uc003and.3	-	12	1930	c.1351T>C	c.(1351-1353)TTC>CTC	p.F451L	LARGE_uc011amd.1_Missense_Mutation_p.F250L|LARGE_uc003ane.3_Missense_Mutation_p.F451L|LARGE_uc010gwp.2_Missense_Mutation_p.F399L|LARGE_uc011ame.1_Missense_Mutation_p.F383L|LARGE_uc011amf.1_Missense_Mutation_p.F451L|LARGE_uc010gwq.1_RNA	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	451	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				TGGACAGTGAAGCGCTCTCGC	0.602													8	69	---	---	---	---	PASS	G	33712171	G	G	33712171	3	3	119	1	0	0	0	0	1	0	0	0	8627	72	3	5	939	5	LARGE	22	33712171	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	309737	33712171	17592395	1340	44513										
APOL6	80830	broad.mit.edu	37	chr22	36055367	36055367	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggctatgacttggccactctCtcaaaggaatggaagcacct	10	11	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:36055367C>G	uc003aoe.2	+	3	1050	c.756C>G	c.(754-756)CTC>CTG	p.L252L	APOL6_uc003aod.2_RNA	NM_030641	NP_085144	Q9BWW8	APOL6_HUMAN	apolipoprotein L6	252					lipoprotein metabolic process	cytoplasm|extracellular region	lipid binding|lipid transporter activity				0						TGGCCACTCTCTCAAAGGAAT	0.527													5	101	---	---	---	---	PASS	G	36055367	G	G	36055367	2	3	119	1	0	0	0	0	0	0	0	1	810	900	32	2		2	APOL6	22	36055367	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	2343196	36055367	15249199	1341	44514										
TMPRSS6	164656	broad.mit.edu	37	chr22	37462230	37462230	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctgaccagccccgccaggaAccagcggccactgagtgcct	12	17	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:37462230A>G	uc003aqs.1	-	18	2440	c.2326T>C	c.(2326-2328)TTC>CTC	p.F776L	TMPRSS6_uc003aqt.1_Missense_Mutation_p.F789L	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	776	Peptidase S1.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						CCCGCCAGGAACCAGCGGCCA	0.617													7	22	---	---	---	---	PASS	G	37462230	G	G	37462230	3	3	119	1	0	0	0	0	1	0	0	0	16248	43	2	5	113	5	TMPRSS6	22	37462230	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	1406863	37462230	13842336	1342	44515										
CYTH4	27128	broad.mit.edu	37	chr22	37693655	37693655	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctgacccctgacgtccaggaCattgcacggttcctgtataa	9	13	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:37693655C>T	uc003arf.2	+	5	401	c.285C>T	c.(283-285)GAC>GAT	p.D95D	CYTH4_uc003ard.3_Silent_p.D95D|CYTH4_uc003are.2_Silent_p.D95D|CYTH4_uc011amw.1_Silent_p.D38D|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	95	SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						ACGTCCAGGACATTGCACGGT	0.567													20	140	---	---	---	---	PASS	T	37693655	T	T	37693655	2	4	119	1	0	0	0	0	0	0	0	1	4206	477	17	3		3	CYTH4	22	37693655	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	231425	37693655	13610911	1343	44516										
SUN2	25777	broad.mit.edu	37	chr22	39138319	39138319	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctcctacctggatgcgagcaGcagtttccctgcggaaatcc	10	14	0	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:39138319G>T	uc003awh.1	-	10	1339	c.1055C>A	c.(1054-1056)GCT>GAT	p.A352D	SUN2_uc011anz.1_Missense_Mutation_p.A387D|SUN2_uc011aoa.1_Missense_Mutation_p.A341D|SUN2_uc003awi.1_Missense_Mutation_p.A352D|SUN2_uc010gxq.1_Missense_Mutation_p.A373D|SUN2_uc010gxr.1_Missense_Mutation_p.A352D|SUN2_uc010gxs.1_Missense_Mutation_p.A352D	NM_015374	NP_056189	Q9UH99	SUN2_HUMAN	unc-84 homolog B	352	Potential.|Perinuclear space.				centrosome localization|cytoskeletal anchoring at nuclear membrane|mitotic spindle organization|nuclear envelope organization|nuclear matrix anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	endosome membrane|integral to membrane|nuclear inner membrane|SUN-KASH complex	lamin binding|microtubule binding			large_intestine(1)|skin(1)	2						GATGCGAGCAGCAGTTTCCCT	0.617													16	102	---	---	---	---	PASS	T	39138319	T	T	39138319	3	4	119	1	0	0	0	0	1	0	0	0	15389	971	34	3	1138	3	SUN2	22	39138319	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1444664	39138319	12166247	1344	44517										
TNRC6B	23112	broad.mit.edu	37	chr22	40718922	40718922	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgatgaagtcagccgctttCtggcacaagctcagccccct	9	14	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:40718922C>G	uc011aor.1	+	23	5390	c.5179C>G	c.(5179-5181)CTG>GTG	p.L1727V	TNRC6B_uc003aym.2_Missense_Mutation_p.L923V|TNRC6B_uc003ayn.3_Missense_Mutation_p.L1617V	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1727					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						CAGCCGCTTTCTGGCACAAGC	0.582													20	38	---	---	---	---	PASS	G	40718922	G	G	40718922	3	3	119	1	0	0	0	0	1	0	0	0	16338	912	32	2	5390	2	TNRC6B	22	40718922	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1580603	40718922	10585644	1345	44518										
SGSM3	27352	broad.mit.edu	37	chr22	40803811	40803811	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agatcgtgtctcagaaggacGagcactgctgggtgggggag	18	7	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:40803811G>A	uc003ayu.1	+	14	1752	c.1543G>A	c.(1543-1545)GAG>AAG	p.E515K	SGSM3_uc011aos.1_Missense_Mutation_p.E448K|SGSM3_uc011aot.1_Missense_Mutation_p.E452K|SGSM3_uc010gyd.1_Missense_Mutation_p.E586K	NM_015705	NP_056520	Q96HU1	SGSM3_HUMAN	small G protein signaling modulator 3	515	SH3.				cell cycle arrest|Rap protein signal transduction	cytoplasm	Rab GTPase activator activity|Rab GTPase binding			ovary(2)	2						TCAGAAGGACGAGCACTGCTG	0.632													27	70	---	---	---	---	PASS	A	40803811	A	A	40803811	3	1	119	1	0	0	0	0	1	0	0	0	14224	1059	37	2	1593	2	SGSM3	22	40803811	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	84889	40803811	10500755	1346	44519										
XPNPEP3	63929	broad.mit.edu	37	chr22	41278163	41278163	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cgctagaagaatttcaacatCttctaccaaaaatgaaaggt	6	8	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:41278163C>G	uc003azh.2	+	3	663	c.571C>G	c.(571-573)CTT>GTT	p.L191V	XPNPEP3_uc011aox.1_Missense_Mutation_p.L191V|XPNPEP3_uc003azi.2_Missense_Mutation_p.L112V|XPNPEP3_uc011aoy.1_RNA|XPNPEP3_uc010gyh.1_RNA	NM_022098	NP_071381	Q9NQH7	XPP3_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 3,	191					cellular process	mitochondrion	aminopeptidase activity|manganese ion binding|metallopeptidase activity				0						ATTTCAACATCTTCTACCAAA	0.418													51	107	---	---	---	---	PASS	G	41278163	G	G	41278163	3	3	119	1	0	0	0	0	1	0	0	0	17441	913	32	2	581	2	XPNPEP3	22	41278163	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	474352	41278163	10026403	1347	44520										
RANGAP1	5905	broad.mit.edu	37	chr22	41642673	41642673	+	Frame_Shift_Del	DEL	G	-	-													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caggattccagggcgctgttGggcctgcggggaaagagggg							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:41642673delG	uc003azs.2	-	15	3168	c.1698delC	c.(1696-1698)CCCfs	p.P566fs	RANGAP1_uc003azt.2_Frame_Shift_Del_p.P566fs|RANGAP1_uc003azu.2_Frame_Shift_Del_p.P566fs|RANGAP1_uc003azr.2_Frame_Shift_Del_p.P79fs|RANGAP1_uc010gyk.2_Frame_Shift_Del_p.P69fs|RANGAP1_uc011aoz.1_Frame_Shift_Del_p.P511fs	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	566					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						GGGCGCTGTTGGGCCTGCGGG	0.562													5	7	---	---	---	---		-	41642673	-	-	41642673	7	5	119	1	0	1	0	1	0	0	0	0	13033	1335	47	0	69	0	RANGAP1	22	41642673	Frame_Shift_Del	DEL	G	TCGA-60-2698-01A-01D-1522-08	364510	41642673	9661893	1348	44521										
ZC3H7B	23264	broad.mit.edu	37	chr22	41751776	41751776	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgcagctggaccaaggagcgGcgggtccttctggtgatgtc	16	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:41751776G>A	uc003azw.2	+	19	2400	c.2184G>A	c.(2182-2184)CGG>CGA	p.R728R	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	744					interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						CCAAGGAGCGGCGGGTCCTTC	0.597													17	21	---	---	---	---	PASS	A	41751776	A	A	41751776	2	1	119	1	0	0	0	0	0	0	0	1	17570	1190	42	3		3	ZC3H7B	22	41751776	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	109103	41751776	9552790	1349	44522										
XRCC6	2547	broad.mit.edu	37	chr22	42042909	42042909	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tactccctcaggttaaagctGaagctcaacaaagatatagt	7	9	2	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:42042909G>A	uc003bao.1	+	7	853	c.783G>A	c.(781-783)CTG>CTA	p.L261L	XRCC6_uc003bap.1_Silent_p.L220L|XRCC6_uc011apc.1_Silent_p.L211L|XRCC6_uc003baq.1_Silent_p.L261L|XRCC6_uc003bar.1_Silent_p.L261L|XRCC6_uc003bas.1_Silent_p.L211L	NM_001469	NP_001460	P12956	XRCC6_HUMAN	ATP-dependent DNA helicase II, 70 kDa subunit	261	Ku.				DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding	p.L261L(1)		skin(2)|ovary(1)|lung(1)|kidney(1)	5						GGTTAAAGCTGAAGCTCAACA	0.383								Direct_reversal_of_damage|NHEJ					17	349	---	---	---	---	PASS	A	42042909	A	A	42042909	2	1	119	1	0	0	0	0	0	0	0	1	17454	1277	45	2		2	XRCC6	22	42042909	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	291133	42042909	9261657	1350	44523										
C22orf9	23313	broad.mit.edu	37	chr22	45595791	45595791	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cggaagaactcctcgctgtcGttggccgagtgcgacttctt	12	12	1	1	rs150877720		TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:45595791G>A	uc003bfx.1	-	8	1044	c.978C>T	c.(976-978)AAC>AAT	p.N326N	C22orf9_uc010gzw.1_Silent_p.N178N|C22orf9_uc003bfv.1_Silent_p.N335N|C22orf9_uc003bfw.1_Silent_p.N331N|C22orf9_uc010gzx.2_Silent_p.N308N	NM_001009880	NP_001009880	Q6ICG6	K0930_HUMAN	hypothetical protein LOC23313 isoform b	326							protein binding				0		Ovarian(80;0.00965)|all_neural(38;0.0244)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|READ - Rectum adenocarcinoma(1;0.000617)|Colorectal(1;0.0024)		CCTCGCTGTCGTTGGCCGAGT	0.627													29	146	---	---	---	---	PASS	A	45595791	A	A	45595791	2	1	119	1	0	0	0	0	0	0	0	1	2151	1136	40	1		1	C22orf9	22	45595791	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	3552882	45595791	5708775	1351	44524										
PKDREJ	10343	broad.mit.edu	37	chr22	46654413	46654413	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttctattgacttgtcatagcCgtaagtcagtccataaaata	6	8	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chr22:46654413C>T	uc003bhh.2	-	1	4807	c.4807G>A	c.(4807-4809)GGC>AGC	p.G1603S		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1603	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TTGTCATAGCCGTAAGTCAGT	0.393													29	93	---	---	---	---	PASS	T	46654413	T	T	46654413	3	4	119	1	0	0	0	0	1	0	0	0	11970	652	23	1	1958	1	PKDREJ	22	46654413	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1058622	46654413	4650153	1352	44525										
NLGN4X	57502	broad.mit.edu	37	chrX	5821118	5821118	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caacacgaagatgaacgtacCcagttttggcgaagttcgtc	10	10	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:5821118C>T	uc010ndh.2	-	5	2102	c.1601G>A	c.(1600-1602)GGT>GAT	p.G534D	NLGN4X_uc004crp.2_Missense_Mutation_p.G554D|NLGN4X_uc004crq.2_Missense_Mutation_p.G534D|NLGN4X_uc010ndi.2_Missense_Mutation_p.G571D|NLGN4X_uc004crr.2_Missense_Mutation_p.G534D|NLGN4X_uc010ndj.2_Missense_Mutation_p.G534D	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	534	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						ATGAACGTACCCAGTTTTGGC	0.478													8	82	---	---	---	---	PASS	T	5821118	T	T	5821118	3	4	119	1	0	0	0	0	1	0	0	0	10464	637	22	3	857	3	NLGN4X	23	5821118	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08		5821118	149449442	1353	44526										
ASB11	140456	broad.mit.edu	37	chrX	15311360	15311360	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gggccttggctccgaactccAgcagcacattgacacatgca	10	14	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:15311360A>T	uc004cwp.1	-	4	452	c.452T>A	c.(451-453)CTG>CAG	p.L151Q	ASB11_uc004cwo.1_Missense_Mutation_p.L130Q|ASB11_uc010nes.1_RNA|ASB11_uc010net.1_Missense_Mutation_p.L134Q	NM_080873	NP_543149	Q8WXH4	ASB11_HUMAN	ankyrin repeat and SOCS box-containing protein	151	ANK 3.				intracellular signal transduction					breast(2)|skin(1)	3	Hepatocellular(33;0.183)					TCCGAACTCCAGCAGCACATT	0.547													51	190	---	---	---	---	PASS	T	15311360	T	T	15311360	3	4	119	1	0	0	0	0	1	0	0	0	1015	188	7	5	535	5	ASB11	23	15311360	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	9490242	15311360	139959200	1354	44527										
CNKSR2	22866	broad.mit.edu	37	chrX	21534642	21534642	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atttggtgaatgcactacgaGaggacccgagtggtgttatc	13	7	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:21534642G>C	uc004czx.1	+	9	886	c.850G>C	c.(850-852)GAG>CAG	p.E284Q	CNKSR2_uc004czw.2_Missense_Mutation_p.E284Q|CNKSR2_uc011mjn.1_Intron|CNKSR2_uc011mjo.1_Missense_Mutation_p.E284Q	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	284	PDZ.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						TGCACTACGAGAGGACCCGAG	0.413													34	129	---	---	---	---	PASS	C	21534642	C	C	21534642	3	2	119	1	0	0	0	0	1	0	0	0	3607	943	33	2	884	2	CNKSR2	23	21534642	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	6223282	21534642	133735918	1355	44528										
DDX53	168400	broad.mit.edu	37	chrX	23018538	23018538	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aacaagaaagctacaactcaGaatccagtgtggataatgct	8	8	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:23018538G>C	uc004daj.2	+	1	452	c.364G>C	c.(364-366)GAA>CAA	p.E122Q		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	122						nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						CTACAACTCAGAATCCAGTGT	0.403													10	122	---	---	---	---	PASS	C	23018538	C	C	23018538	3	2	119	1	0	0	0	0	1	0	0	0	4371	943	33	2	366	2	DDX53	23	23018538	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1483896	23018538	132252022	1356	44529										
FAM47A	158724	broad.mit.edu	37	chrX	34148575	34148575	+	Frame_Shift_Del	DEL	T	-	-													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cacttgaagaattcacggagTttttccgatgtgtatctata							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:34148575delT	uc004ddg.2	-	1	1854	c.1821delA	c.(1819-1821)AAAfs	p.K607fs		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	607										ovary(4)|central_nervous_system(1)	5						ATTCACGGAGTTTTTCCGATG	0.443													50	47	---	---	---	---		-	34148575	-	-	34148575	7	5	119	1	0	1	0	1	0	0	0	0	5569	1722	60	0	558	0	FAM47A	23	34148575	Frame_Shift_Del	DEL	T	TCGA-60-2698-01A-01D-1522-08	11130037	34148575	121121985	1357	44530										
LANCL3	347404	broad.mit.edu	37	chrX	37526617	37526617	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgtattcggtgtggggaactCacatggcagaaaggcctgct	14	8	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:37526617C>G	uc011mkd.1	+	4	1280	c.978C>G	c.(976-978)CTC>CTG	p.L326L	LANCL3_uc004ddp.1_Silent_p.L326L	NM_198511	NP_940913	Q6ZV70	LANC3_HUMAN	LanC lantibiotic synthetase component C-like 3	326							catalytic activity				0						GTGGGGAACTCACATGGCAGA	0.507													14	63	---	---	---	---	PASS	G	37526617	G	G	37526617	2	3	119	1	0	0	0	0	0	0	0	1	8622	813	29	2		2	LANCL3	23	37526617	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	3378042	37526617	117743943	1358	44531										
RPGR	6103	broad.mit.edu	37	chrX	38144829	38144829	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	taatgtggtaatacattattCcagaactttttggaacctga	7	6	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:38144829C>A	uc004ded.1	-	15	3591	c.3423G>T	c.(3421-3423)TGG>TGT	p.W1141C	RPGR_uc004deb.2_Intron|RPGR_uc004dea.2_Intron|RPGR_uc004dec.2_Intron	NM_001034853	NP_001030025	Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator isoform C	Error:Variant_position_missing_in_Q92834_after_alignment					intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						ATACATTATTCCAGAACTTTT	0.398													87	76	---	---	---	---	PASS	A	38144829	A	A	38144829	3	1	119	1	0	0	0	0	1	0	0	0	13548	856	30	2	598	2	RPGR	23	38144829	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	618212	38144829	117125731	1359	44532										
ARAF	369	broad.mit.edu	37	chrX	47426294	47426294	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcttctagctcactggccaGagtttcagcactgatggtga	10	10	4	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:47426294G>C	uc011mlq.1	+	8	844	c.711G>C	c.(709-711)CAG>CAC	p.Q237H	ARAF_uc011mln.1_Intron|ARAF_uc011mlo.1_Missense_Mutation_p.Q103H|ARAF_uc011mlp.1_Missense_Mutation_p.Q237H|ARAF_uc004dic.1_Missense_Mutation_p.Q18H	NM_001654	NP_001645	P10398	ARAF_HUMAN	v-raf murine sarcoma 3611 viral oncogene	237					intracellular signal transduction|negative regulation of apoptosis|positive regulation of peptidyl-serine phosphorylation		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity			large_intestine(3)|lung(2)|ovary(1)|skin(1)	7					Adenosine triphosphate(DB00171)	TCACTGGCCAGAGTTTCAGCA	0.602													19	71	---	---	---	---	PASS	C	47426294	C	C	47426294	3	2	119	1	0	0	0	0	1	0	0	0	837	933	33	2	737	2	ARAF	23	47426294	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	9281465	47426294	107844266	1360	44533										
MAGED1	9500	broad.mit.edu	37	chrX	51644851	51644851	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctgacctgggatgaggaagGagattttggagatccctggt	16	6	0	4			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:51644851G>C	uc004dpm.2	+	12	2257	c.2162G>C	c.(2161-2163)GGA>GCA	p.G721A	MAGED1_uc004dpn.2_Missense_Mutation_p.G777A|MAGED1_uc004dpo.2_Missense_Mutation_p.G721A	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	721					apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					GATGAGGAAGGAGATTTTGGA	0.542										Multiple Myeloma(10;0.10)			12	43	---	---	---	---	PASS	C	51644851	C	C	51644851	3	2	119	1	0	0	0	0	1	0	0	0	9183	1174	41	2	2376	2	MAGED1	23	51644851	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	4218557	51644851	103625709	1361	44534										
HUWE1	10075	broad.mit.edu	37	chrX	53584372	53584372	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tctgttcagtggagtcatttGacttagatgcagtacactgc	10	8	3	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:53584372G>C	uc004dsp.2	-	60	8579	c.8177C>G	c.(8176-8178)TCA>TGA	p.S2726*	HUWE1_uc004dsn.2_Nonsense_Mutation_p.S1550*|MIR98_hsa-mir-98|MI0000100_5'Flank|uc004dsr.1_5'Flank|uc004dss.2_5'Flank|MIRLET7F2_hsa-let-7f-2|MI0000068_5'Flank	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2726					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GGAGTCATTTGACTTAGATGC	0.433													9	82	---	---	---	---	PASS	C	53584372	C	C	53584372	4	2	119	1	0	0	0	0	0	1	0	0	7461	1294	45	2	5047	2	HUWE1	23	53584372	Nonsense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1939521	53584372	101686188	1362	44535										
TRO	7216	broad.mit.edu	37	chrX	54952896	54952896	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ggtgattctgagtgtcatttTtatgaatggcaacaaggcca	11	6	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:54952896T>A	uc004dtq.2	+	8	1738	c.1631T>A	c.(1630-1632)TTT>TAT	p.F544Y	TRO_uc004dts.2_Missense_Mutation_p.F544Y|TRO_uc004dtr.2_Missense_Mutation_p.F544Y|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_RNA|TRO_uc004dtv.2_Missense_Mutation_p.F147Y|TRO_uc011mok.1_Missense_Mutation_p.F75Y|TRO_uc004dtw.2_Missense_Mutation_p.F147Y|TRO_uc004dtx.2_5'UTR	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	544	MAGE.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						AGTGTCATTTTTATGAATGGC	0.493													13	68	---	---	---	---	PASS	A	54952896	A	A	54952896	3	1	119	1	0	0	0	0	1	0	0	0	16571	1841	64	5	1657	5	TRO	23	54952896	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	1368524	54952896	100317664	1363	44536										
USP51	158880	broad.mit.edu	37	chrX	55514731	55514731	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ctccaaacgaaacgctggtaGatcaacctcaggttcttctg	8	12	4	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:55514731G>T	uc004dun.1	-	2	721	c.642C>A	c.(640-642)ATC>ATA	p.I214I	USP51_uc011moo.1_Intron	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	214					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						AACGCTGGTAGATCAACCTCA	0.493													40	18	---	---	---	---	PASS	T	55514731	T	T	55514731	2	4	119	1	0	0	0	0	0	0	0	1	17080	932	33	2		2	USP51	23	55514731	Silent	SNP	G	TCGA-60-2698-01A-01D-1522-08	561835	55514731	99755829	1364	44537										
ZC4H2	55906	broad.mit.edu	37	chrX	64137706	64137706	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gctttttggggttccgggacCgactcttggccttgcaaaga	13	10	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:64137706C>A	uc004dvu.2	-	5	720	c.632G>T	c.(631-633)CGG>CTG	p.R211L	ZC4H2_uc004dvv.2_Missense_Mutation_p.R188L|ZC4H2_uc011mov.1_Missense_Mutation_p.R188L|ZC4H2_uc011mow.1_Missense_Mutation_p.G157C|ZC4H2_uc004dvw.1_3'UTR	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	211							metal ion binding|protein binding			ovary(1)	1						GTTCCGGGACCGACTCTTGGC	0.488													20	15	---	---	---	---	PASS	A	64137706	A	A	64137706	3	1	119	1	0	0	0	0	1	0	0	0	17575	652	23	1	65	1	ZC4H2	23	64137706	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	8622975	64137706	91132854	1365	44538										
P2RY4	5030	broad.mit.edu	37	chrX	69478906	69478906	+	Missense_Mutation	SNP	C	G	G													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agtggtcaaactcttcaggcCgagtggtgtcatggcacagg							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:69478906C>G	uc004dxz.1	-	1	749	c.569G>C	c.(568-570)CGG>CCG	p.R190P		NM_002565	NP_002556	P51582	P2RY4_HUMAN	pyrimidinergic receptor P2Y4	190	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1						CTCTTCAGGCCGAGTGGTGTC	0.572													40	14	---	---	---	---	PASS	G	69478906	G	G	69478906	3	3	119	1	0	0	0	0	1	0	0	0	11353	652	23	4	532	4	P2RY4	23	69478906	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	5341200	69478906	85791654	1366	44539	825	2								
P2RY4	5030	broad.mit.edu	37	chrX	69478907	69478907	+	Missense_Mutation	SNP	G	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gtggtcaaactcttcaggccGagtggtgtcatggcacagga							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:69478907G>A	uc004dxz.1	-	1	748	c.568C>T	c.(568-570)CGG>TGG	p.R190W		NM_002565	NP_002556	P51582	P2RY4_HUMAN	pyrimidinergic receptor P2Y4	190	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1						TCTTCAGGCCGAGTGGTGTCA	0.572													40	12	---	---	---	---	PASS	A	69478907	A	A	69478907	3	1	119	1	0	0	0	0	1	0	0	0	11353	1057	37	2	533	2	P2RY4	23	69478907	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1	69478907	85791653	1367	44540	825	2								
ZMYM3	9203	broad.mit.edu	37	chrX	70472742	70472742	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tggatcaggtggtaccacctCaggggtctggccccctggtc	14	13	3	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:70472742C>T	uc004dzh.1	-	2	451	c.364G>A	c.(364-366)GAG>AAG	p.E122K	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Missense_Mutation_p.E122K|ZMYM3_uc004dzj.1_Missense_Mutation_p.E122K|ZMYM3_uc011mpu.1_5'Flank|ZMYM3_uc004dzk.3_Missense_Mutation_p.E122K|ZMYM3_uc004dzl.3_Missense_Mutation_p.E122K|ZMYM3_uc004dzm.3_Missense_Mutation_p.E122K	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	122					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					GGTACCACCTCAGGGGTCTGG	0.622													9	27	---	---	---	---	PASS	T	70472742	T	T	70472742	3	4	119	1	0	0	0	0	1	0	0	0	17698	835	29	2	3862	2	ZMYM3	23	70472742	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	993835	70472742	84797818	1368	44541										
RGAG4	340526	broad.mit.edu	37	chrX	71351267	71351267	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gccccgcaaggaattaacctCggccagggctctcccgagct	11	16	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:71351267C>A	uc010nlh.1	-	1	485	c.124G>T	c.(124-126)GAG>TAG	p.E42*	NHSL2_uc011mqa.1_Intron|RGAG4_uc004eaj.1_RNA|NHSL2_uc004eak.1_5'Flank|NHSL2_uc010nli.2_5'Flank	NM_001024455	NP_001019626	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	42										ovary(2)|skin(1)	3	Renal(35;0.156)					GAATTAACCTCGGCCAGGGCT	0.597													41	49	---	---	---	---	PASS	A	71351267	A	A	71351267	4	1	119	1	0	0	0	0	0	1	0	0	13275	893	31	2	1589	2	RGAG4	23	71351267	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	878525	71351267	83919293	1369	44542										
TBX22	50945	broad.mit.edu	37	chrX	79282234	79282234	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atccatgcataagtacaaacCccgagtgcacgtgatagagc	9	11	0	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:79282234C>A	uc010nmg.1	+	6	799	c.665C>A	c.(664-666)CCC>CAC	p.P222H	TBX22_uc004edi.1_Missense_Mutation_p.P102H|TBX22_uc004edj.1_Missense_Mutation_p.P222H	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	222	T-box.				multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						AAGTACAAACCCCGAGTGCAC	0.458													42	50	---	---	---	---	PASS	A	79282234	A	A	79282234	3	1	119	1	0	0	0	0	1	0	0	0	15655	623	22	3	683	3	TBX22	23	79282234	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	7930967	79282234	75988326	1370	44543										
BRWD3	254065	broad.mit.edu	37	chrX	79937529	79937529	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggagagctagtcctggcatGagatactgaggtattctggt	14	6	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:79937529G>A	uc004edt.2	-	39	4725	c.4462C>T	c.(4462-4464)CAT>TAT	p.H1488Y	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.H1084Y|BRWD3_uc004edp.2_Missense_Mutation_p.H1317Y|BRWD3_uc004edq.2_Missense_Mutation_p.H1084Y|BRWD3_uc010nmj.1_Missense_Mutation_p.H1084Y|BRWD3_uc004edr.2_Missense_Mutation_p.H1158Y|BRWD3_uc004eds.2_Missense_Mutation_p.H1084Y|BRWD3_uc004edu.2_Missense_Mutation_p.H1158Y|BRWD3_uc004edv.2_Missense_Mutation_p.H1084Y|BRWD3_uc004edw.2_Missense_Mutation_p.H1084Y|BRWD3_uc004edx.2_Missense_Mutation_p.H1084Y|BRWD3_uc004edy.2_Missense_Mutation_p.H1084Y|BRWD3_uc004edz.2_Missense_Mutation_p.H1158Y|BRWD3_uc004eea.2_Missense_Mutation_p.H1158Y|BRWD3_uc004eeb.2_Missense_Mutation_p.H1084Y	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	1488										ovary(4)	4						GTCCTGGCATGAGATACTGAG	0.353													24	114	---	---	---	---	PASS	A	79937529	A	A	79937529	3	1	119	1	0	0	0	0	1	0	0	0	1526	1290	45	2	958	2	BRWD3	23	79937529	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	655295	79937529	75333031	1371	44544										
CYLC1	1538	broad.mit.edu	37	chrX	83128683	83128683	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atgtcaagaaagatgacaagAaaaaggatgtaaagaaggac	11	3	1	5			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:83128683A>G	uc004eei.1	+	4	988	c.967A>G	c.(967-969)AAA>GAA	p.K323E	CYLC1_uc004eeh.1_Missense_Mutation_p.K322E	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	323	2.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						AGATGACAAGAAAAAGGATGT	0.274													12	33	---	---	---	---	PASS	G	83128683	G	G	83128683	3	3	119	1	0	0	0	0	1	0	0	0	4141	247	9	5	981	5	CYLC1	23	83128683	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	3191154	83128683	72141877	1372	44545										
KLHL4	56062	broad.mit.edu	37	chrX	86887307	86887307	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caatttggagtcgcagttatTgataataagctctatgtcgt	9	6	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:86887307T>G	uc004efb.2	+	7	1604	c.1422T>G	c.(1420-1422)ATT>ATG	p.I474M	KLHL4_uc004efa.2_Missense_Mutation_p.I474M	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	474	Kelch 1.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						TCGCAGTTATTGATAATAAGC	0.413													46	26	---	---	---	---	PASS	G	86887307	G	G	86887307	3	3	119	1	0	0	0	0	1	0	0	0	8391	1800	63	5	1448	5	KLHL4	23	86887307	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	3758624	86887307	68383253	1373	44546										
CPXCR1	53336	broad.mit.edu	37	chrX	88009209	88009209	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	atatatccataccatgaatgTtatgatcacaaacaccaata	3	9	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:88009209T>C	uc004efd.3	+	3	1053	c.794T>C	c.(793-795)GTT>GCT	p.V265A	CPXCR1_uc004efc.3_Missense_Mutation_p.V265A	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	265						intracellular	zinc ion binding			ovary(3)	3						ACCATGAATGTTATGATCACA	0.328													24	25	---	---	---	---	PASS	C	88009209	C	C	88009209	3	2	119	1	0	0	0	0	1	0	0	0	3836	1725	60	5	796	5	CPXCR1	23	88009209	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	1121902	88009209	67261351	1374	44547										
NAP1L3	4675	broad.mit.edu	37	chrX	92927281	92927281	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gagaacttcaggctaacatcCgacaagaacttcagaatggg	10	9	2	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:92927281C>T	uc004efq.2	-	1	1328	c.1023G>A	c.(1021-1023)TCG>TCA	p.S341S	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	341					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						GGCTAACATCCGACAAGAACT	0.423													68	44	---	---	---	---	PASS	T	92927281	T	T	92927281	2	4	119	1	0	0	0	0	0	0	0	1	10158	639	23	1		1	NAP1L3	23	92927281	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	4918072	92927281	62343279	1375	44548										
CENPI	2491	broad.mit.edu	37	chrX	100417910	100417910	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aagaagtagtgttcatcattCttccattcccagagcagagg	9	9	3	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:100417910C>G	uc004egx.2	+	21	2495	c.2225C>G	c.(2224-2226)TCT>TGT	p.S742C	CENPI_uc011mrg.1_Missense_Mutation_p.S728C	NM_006733	NP_006724	Q92674	CENPI_HUMAN	centromere protein I	742					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	cytosol|kinetochore|nucleoplasm	protein binding			skin(1)	1						GTTCATCATTCTTCCATTCCC	0.388													111	63	---	---	---	---	PASS	G	100417910	G	G	100417910	3	3	119	1	0	0	0	0	1	0	0	0	3233	913	32	2	2303	2	CENPI	23	100417910	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	7490629	100417910	54852650	1376	44549										
BTK	695	broad.mit.edu	37	chrX	100617573	100617573	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	attcctgttctccaaaatttGgcagcccatagcatttttgg	7	10	1	0			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:100617573G>T	uc004ehg.2	-	6	689	c.496C>A	c.(496-498)CAA>AAA	p.Q166K	BTK_uc010nnn.2_Missense_Mutation_p.Q166K|BTK_uc010nno.2_Missense_Mutation_p.Q200K|BTK_uc004ehi.2_Missense_Mutation_p.Q166K	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	166	Btk-type.				calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						TCCAAAATTTGGCAGCCCATA	0.448									Agammaglobulinemia_X-linked				116	79	---	---	---	---	PASS	T	100617573	T	T	100617573	3	4	119	1	0	0	0	0	1	0	0	0	1557	1357	47	3	1539	3	BTK	23	100617573	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	199663	100617573	54652987	1377	44550										
TCEAL5	340543	broad.mit.edu	37	chrX	102528982	102528982	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcctgtacatctctttgcatCcaatgaaaaccacccatttt	3	13	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:102528982C>G	uc004ejz.1	-	3	805	c.510G>C	c.(508-510)TGG>TGC	p.W170C		NM_001012979	NP_001012997	Q5H9L2	TCAL5_HUMAN	transcription elongation factor A (SII)-like 5	170					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(1)|breast(1)	2						CTCTTTGCATCCAATGAAAAC	0.517													53	162	---	---	---	---	PASS	G	102528982	G	G	102528982	3	3	119	1	0	0	0	0	1	0	0	0	15671	856	30	2	114	2	TCEAL5	23	102528982	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1911409	102528982	52741578	1378	44551										
MUM1L1	139221	broad.mit.edu	37	chrX	105450803	105450803	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgctagtggacaaagccaggGaggattatagtgagagtatt	14	4	0	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:105450803G>C	uc004emf.1	+	4	2027	c.1378G>C	c.(1378-1380)GAG>CAG	p.E460Q	MUM1L1_uc004emg.1_Missense_Mutation_p.E460Q	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	460										ovary(2)|pancreas(1)|skin(1)	4						CAAAGCCAGGGAGGATTATAG	0.363													54	50	---	---	---	---	PASS	C	105450803	C	C	105450803	3	2	119	1	0	0	0	0	1	0	0	0	9986	1175	41	2	1380	2	MUM1L1	23	105450803	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	2921821	105450803	49819757	1379	44552										
TEX13B	56156	broad.mit.edu	37	chrX	107224904	107224904	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttcgggggatcttacggcatGgaagagcttccatctcagca	12	10	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:107224904G>T	uc004enn.1	-	2	547	c.454C>A	c.(454-456)CAT>AAT	p.H152N		NM_031273	NP_112563	Q9BXU2	TX13B_HUMAN	testis expressed 13B	152										ovary(1)	1						CTTACGGCATGGAAGAGCTTC	0.597													15	80	---	---	---	---	PASS	T	107224904	T	T	107224904	3	4	119	1	0	0	0	0	1	0	0	0	15774	1348	47	3	492	3	TEX13B	23	107224904	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	1774101	107224904	48045656	1380	44553										
DCX	1641	broad.mit.edu	37	chrX	110644549	110644549	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	agttgtctgaggaacagacaTagctttcccctaaggcaaga	10	9	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:110644549T>A	uc004epd.2	-	3	789	c.617A>T	c.(616-618)TAT>TTT	p.Y206F	DCX_uc011msv.1_Missense_Mutation_p.Y206F|DCX_uc004epe.2_Missense_Mutation_p.Y125F|DCX_uc004epf.2_Missense_Mutation_p.Y125F|DCX_uc004epg.2_Missense_Mutation_p.Y125F	NM_000555	NP_000546	O43602	DCX_HUMAN	doublecortin isoform a	206	Doublecortin 1.		Y -> H (in LISX1 and SBHX).|Y -> D (in SBHX).		axon guidance|central nervous system development|intracellular signal transduction	cytosol|microtubule associated complex	microtubule binding			central_nervous_system(2)|lung(1)|skin(1)	4						GGAACAGACATAGCTTTCCCC	0.378													78	55	---	---	---	---	PASS	A	110644549	A	A	110644549	3	1	119	1	0	0	0	0	1	0	0	0	4318	1406	49	5	743	5	DCX	23	110644549	Missense_Mutation	SNP	T	TCGA-60-2698-01A-01D-1522-08	3419645	110644549	44626011	1381	44554										
IL13RA1	3597	broad.mit.edu	37	chrX	117900499	117900499	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tttttattttcaaggtccaaGaggctaaatgtgagaatcca	8	6	1	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:117900499G>C	uc004eqs.2	+	7	878	c.835G>C	c.(835-837)GAG>CAG	p.E279Q	IL13RA1_uc004eqt.1_Missense_Mutation_p.E279Q	NM_001560	NP_001551	P78552	I13R1_HUMAN	interleukin 13 receptor, alpha 1 precursor	279	Extracellular (Potential).					interleukin-13 receptor complex	cytokine receptor activity				0						CAAGGTCCAAGAGGCTAAATG	0.338													45	36	---	---	---	---	PASS	C	117900499	C	C	117900499	3	2	119	1	0	0	0	0	1	0	0	0	7629	943	33	2	861	2	IL13RA1	23	117900499	Missense_Mutation	SNP	G	TCGA-60-2698-01A-01D-1522-08	7255950	117900499	37370061	1382	44555										
DCAF12L1	139170	broad.mit.edu	37	chrX	125685517	125685517	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	cacagtgatgatgtggcggtAgaagctcagcgaccgcacgc	14	11	1	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:125685517A>G	uc004eul.2	-	1	1326	c.1075T>C	c.(1075-1077)TAC>CAC	p.Y359H		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	359	WD 4.									skin(3)|ovary(1)	4						ATGTGGCGGTAGAAGCTCAGC	0.622													4	38	---	---	---	---	PASS	G	125685517	G	G	125685517	3	3	119	1	0	0	0	0	1	0	0	0	4264	420	15	5	320	5	DCAF12L1	23	125685517	Missense_Mutation	SNP	A	TCGA-60-2698-01A-01D-1522-08	7785018	125685517	29585043	1383	44556										
ELF4	2000	broad.mit.edu	37	chrX	129205333	129205333	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ttgccatcctttgatttcttCctaatggggatgctggggtc	11	9	1	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:129205333C>G	uc004evd.3	-	6	979	c.594G>C	c.(592-594)AGG>AGC	p.R198S	ELF4_uc004eve.3_Missense_Mutation_p.R198S	NM_001421	NP_001412	Q99607	ELF4_HUMAN	E74-like factor 4	198	RUNX1-binding.				natural killer cell proliferation|NK T cell proliferation|positive regulation of transcription from RNA polymerase II promoter	PML body	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TTGATTTCTTCCTAATGGGGA	0.592			T	ERG	AML								14	59	---	---	---	---	PASS	G	129205333	G	G	129205333	3	3	119	1	0	0	0	0	1	0	0	0	5056	854	30	2	1413	2	ELF4	23	129205333	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	3519816	129205333	26065227	1384	44557										
RAB33A	9363	broad.mit.edu	37	chrX	129318484	129318484	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tgagggaacagatccaggtgCcctccaacttagccctgaaa	10	12	0	3			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:129318484C>A	uc004evl.2	+	2	748	c.484C>A	c.(484-486)CCC>ACC	p.P162T	RAB33A_uc010nre.2_RNA	NM_004794	NP_004785	Q14088	RB33A_HUMAN	Ras-related protein Rab-33A	162					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding				0						GATCCAGGTGCCCTCCAACTT	0.512													12	106	---	---	---	---	PASS	A	129318484	A	A	129318484	3	1	119	1	0	0	0	0	1	0	0	0	12922	739	26	3	490	3	RAB33A	23	129318484	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	113151	129318484	25952076	1385	44558										
SPANXN2	494119	broad.mit.edu	37	chrX	142803733	142803733	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	caggggctcttcctcttctcCccattggtgcttgaagtcgg	11	13	3	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:142803733C>A	uc004fbz.2	-	1	784	c.30G>T	c.(28-30)GGG>GGT	p.G10G		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	10										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TCCTCTTCTCCCCATTGGTGC	0.333													155	178	---	---	---	---	PASS	A	142803733	A	A	142803733	2	1	119	1	0	0	0	0	0	0	0	1	14991	610	22	3		3	SPANXN2	23	142803733	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	13485249	142803733	12466827	1386	44559										
CD99L2	83692	broad.mit.edu	37	chrX	149937524	149937524	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	ccctcagatccgggctggttCgggcggcggcggcggctctg	18	14	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:149937524C>A	uc004fel.2	-	11	890	c.772G>T	c.(772-774)GAA>TAA	p.E258*	CD99L2_uc004fek.2_RNA|CD99L2_uc004fem.2_Nonsense_Mutation_p.E209*|CD99L2_uc004fen.2_Nonsense_Mutation_p.E186*|CD99L2_uc004feo.2_RNA|CD99L2_uc011myb.1_Nonsense_Mutation_p.E185*	NM_031462	NP_113650	Q8TCZ2	C99L2_HUMAN	CD99 antigen-like 2 isoform E3'-E4'-E3-E4	258	Cytoplasmic (Potential).|Poly-Pro.				cell adhesion	cell junction|integral to membrane				large_intestine(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CGGGCTGGTTCGGGCGGCGGC	0.622													43	39	---	---	---	---	PASS	A	149937524	A	A	149937524	4	1	119	1	0	0	0	0	0	1	0	0	3051	893	31	2	20	2	CD99L2	23	149937524	Nonsense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	7133791	149937524	5333036	1387	44560										
MAGEA6	4105	broad.mit.edu	37	chrX	151870215	151870215	+	Missense_Mutation	SNP	C	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	aggacctcgcatttcctaccCactcctgcatgagtgggctt							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:151870215C>A	uc004ffq.1	+	3	1099	c.905C>A	c.(904-906)CCA>CAA	p.P302Q	MAGEA6_uc004ffr.1_Missense_Mutation_p.P302Q|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	302	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					ATTTCCTACCCACTCCTGCAT	0.562													90	67	---	---	---	---	PASS	A	151870215	A	A	151870215	3	1	119	1	0	0	0	0	1	0	0	0	9170	594	21	3	907	3	MAGEA6	23	151870215	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	1932691	151870215	3400345	1388	44561	826	2								
MAGEA6	4105	broad.mit.edu	37	chrX	151870217	151870217	+	Missense_Mutation	SNP	C	A	A													0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	gacctcgcatttcctacccaCtcctgcatgagtgggctttg							TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:151870217C>A	uc004ffq.1	+	3	1101	c.907C>A	c.(907-909)CTC>ATC	p.L303I	MAGEA6_uc004ffr.1_Missense_Mutation_p.L303I|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	303	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					TTCCTACCCACTCCTGCATGA	0.572													92	69	---	---	---	---	PASS	A	151870217	A	A	151870217	3	1	119	1	0	0	0	0	1	0	0	0	9170	565	20	3	909	3	MAGEA6	23	151870217	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	2	151870217	3400343	1389	44562	826	2								
PNCK	139728	broad.mit.edu	37	chrX	152936585	152936585	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	tcaaactcatagctggccctCaggatctggctgaagagctc	10	12	4	2			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:152936585C>A	uc011myu.1	-	8	1110	c.924G>T	c.(922-924)CTG>CTT	p.L308L	PNCK_uc011myt.1_Silent_p.L242L|PNCK_uc004fia.2_Silent_p.L260L|PNCK_uc004fhz.3_Silent_p.L123L|PNCK_uc010nuh.2_3'UTR|PNCK_uc011myv.1_3'UTR|PNCK_uc011myw.1_3'UTR	NM_001039582	NP_001034671	Q6P2M8	KCC1B_HUMAN	pregnancy upregulated non-ubiquitously expressed	225	Protein kinase.					cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGCTGGCCCTCAGGATCTGGC	0.587													10	100	---	---	---	---	PASS	A	152936585	A	A	152936585	2	1	119	1	0	0	0	0	0	0	0	1	12145	813	29	2		2	PNCK	23	152936585	Silent	SNP	C	TCGA-60-2698-01A-01D-1522-08	1066368	152936585	2333975	1390	44563										
UBL4A	8266	broad.mit.edu	37	chrX	153713988	153713988	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.418722786647315	577	2.60532015221572e-202	3.85298289713075	4.6440461487809	3.10928870246565	5.3630284839837e-08	2.37314010416279e-06	427	actcagggacctctcgtaatCctggggagagaagggcagga	15	9	2	1			TCGA-60-2698-01A-01D-1522-08	TCGA-60-2698-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2045c788-9ea8-4ea5-a5e3-65fc16a62adb	059e5a0f-ca79-4cac-b2a9-f39bb8d44206	g.chrX:153713988C>A	uc004flo.2	-	4	373	c.364G>T	c.(364-366)GAT>TAT	p.D122Y		NM_014235	NP_055050	P11441	UBL4A_HUMAN	ubiquitin-like 4	122					protein modification process|tail-anchored membrane protein insertion into ER membrane|transport	BAT3 complex	small conjugating protein ligase activity				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTCTCGTAATCCTGGGGAGAG	0.607													5	85	---	---	---	---	PASS	A	153713988	A	A	153713988	3	1	119	1	0	0	0	0	1	0	0	0	16884	869	30	2	113	2	UBL4A	23	153713988	Missense_Mutation	SNP	C	TCGA-60-2698-01A-01D-1522-08	777403	153713988	1556572	1391	44564										
PRDM16	63976	broad.mit.edu	37	chr1	3319418	3319418	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gtccaagctggacctgcggcGccataagaagtacacgtgtg	13	11	0	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:3319418G>T	uc001akf.2	+	6	820	c.740G>T	c.(739-741)CGC>CTC	p.R247L	PRDM16_uc001akc.2_Missense_Mutation_p.R247L|PRDM16_uc001akd.2_Missense_Mutation_p.R247L|PRDM16_uc001ake.2_Missense_Mutation_p.R247L|PRDM16_uc009vlh.2_5'UTR	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	247	C2H2-type 1; atypical.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		GACCTGCGGCGCCATAAGAAG	0.637			T	EVI1	MDS|AML								35	61	---	---	---	---	PASS	T	3319418	T	T	3319418	3	4	120	1	0	0	0	0	1	0	0	0	12457	1087	38	1	762	1	PRDM16	1	3319418	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08		3319418	245931203	1	44565										
CCDC27	148870	broad.mit.edu	37	chr1	3672112	3672112	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctgttcttggccaggcggggCtcagacacgaacgtggacgg	16	11	2	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:3672112C>A	uc001akv.2	+	3	615	c.534C>A	c.(532-534)GGC>GGA	p.G178G		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	178										skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		CCAGGCGGGGCTCAGACACGA	0.632													45	237	---	---	---	---	PASS	A	3672112	A	A	3672112	2	1	120	1	0	0	0	0	0	0	0	1	2801	784	28	3		3	CCDC27	1	3672112	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	352694	3672112	245578509	2	44566										
MTOR	2475	broad.mit.edu	37	chr1	11259718	11259718	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tcatcctgttgatcttcattCagttcagaccagcaggacac	7	12	5	2	rs145404035		TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:11259718C>G	uc001asd.2	-	27	4108	c.3987G>C	c.(3985-3987)CTG>CTC	p.L1329L		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	1329					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GATCTTCATTCAGTTCAGACC	0.507													41	121	---	---	---	---	PASS	G	11259718	G	G	11259718	2	3	120	1	0	0	0	0	0	0	0	1	9954	813	29	2		2	MTOR	1	11259718	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	7587606	11259718	237990903	3	44567										
UBR4	23352	broad.mit.edu	37	chr1	19501466	19501466	+	Silent	SNP	C	T	T													0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	accacagaatcaagtcggttCaaatcatcctctgaggcttc							TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:19501466C>T	uc001bbi.2	-	21	2839	c.2835G>A	c.(2833-2835)TTG>TTA	p.L945L	UBR4_uc001bbm.1_Silent_p.L156L	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	945					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CAAGTCGGTTCAAATCATCCT	0.438													6	144	---	---	---	---	PASS	T	19501466	T	T	19501466	2	4	120	1	0	0	0	0	0	0	0	1	16901	825	29	2		2	UBR4	1	19501466	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	8241748	19501466	229749155	4	44568	827	2								
UBR4	23352	broad.mit.edu	37	chr1	19501471	19501471	+	Missense_Mutation	SNP	C	T	T													0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	agaatcaagtcggttcaaatCatcctctgaggcttctgggg							TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:19501471C>T	uc001bbi.2	-	21	2834	c.2830G>A	c.(2830-2832)GAT>AAT	p.D944N	UBR4_uc001bbm.1_Missense_Mutation_p.D155N	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	944					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CGGTTCAAATCATCCTCTGAG	0.433													6	146	---	---	---	---	PASS	T	19501471	T	T	19501471	3	4	120	1	0	0	0	0	1	0	0	0	16901	826	29	2	13065	2	UBR4	1	19501471	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	5	19501471	229749150	5	44569	827	2								
DDOST	1650	broad.mit.edu	37	chr1	20979440	20979440	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gacccatttgccatttgagaGctgctggatcacgatgctat	10	10	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:20979440G>T	uc001bdo.1	-	9	1161	c.1018C>A	c.(1018-1020)CTC>ATC	p.L340I	DDOST_uc009vpw.1_Missense_Mutation_p.L340I|DDOST_uc010odd.1_Missense_Mutation_p.L139I|DDOST_uc010ode.1_Missense_Mutation_p.L303I	NM_005216	NP_005207	P39656	OST48_HUMAN	dolichyl-diphosphooligosaccharide-protein	340	Lumenal (Potential).				innate immune response|post-translational protein modification|response to cytokine stimulus|T cell activation	integral to membrane|microsome|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding				0		all_lung(284;2.98e-05)|Lung NSC(340;3.25e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(152;1.17e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000141)|Kidney(64;0.000177)|GBM - Glioblastoma multiforme(114;0.00046)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CCATTTGAGAGCTGCTGGATC	0.522													4	125	---	---	---	---	PASS	T	20979440	T	T	20979440	3	4	120	1	0	0	0	0	1	0	0	0	4335	971	34	3	364	3	DDOST	1	20979440	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	1477969	20979440	228271181	6	44570										
COL16A1	1307	broad.mit.edu	37	chr1	32167759	32167759	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ccgaaggtagcccaaagaccGagcagccacaggccaggagc	13	14	0	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:32167759G>A	uc001btk.1	-	2	401	c.36C>T	c.(34-36)CTC>CTT	p.L12L	COL16A1_uc001btl.3_Silent_p.L12L	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	12					cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		CCCAAAGACCGAGCAGCCACA	0.587													7	57	---	---	---	---	PASS	A	32167759	A	A	32167759	2	1	120	1	0	0	0	0	0	0	0	1	3673	1045	37	2		2	COL16A1	1	32167759	Silent	SNP	G	TCGA-60-2707-01A-01D-1522-08	11188319	32167759	217082862	7	44571										
CSMD2	114784	broad.mit.edu	37	chr1	34190222	34190222	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	acagctgaaggtcaccagcgCgcccacgtagaagtcattcc	10	14	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:34190222C>A	uc001bxn.1	-	18	2688	c.2659G>T	c.(2659-2661)GCG>TCG	p.A887S	CSMD2_uc001bxm.1_Missense_Mutation_p.A927S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	887	Sushi 5.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GTCACCAGCGCGCCCACGTAG	0.567													40	58	---	---	---	---	PASS	A	34190222	A	A	34190222	3	1	120	1	0	0	0	0	1	0	0	0	3945	768	27	1	8012	1	CSMD2	1	34190222	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	2022463	34190222	215060399	8	44572										
CLCA1	1179	broad.mit.edu	37	chr1	86964384	86964384	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tgtcccaaatgctcccatacCtgatctcttcccacctggcc	5	18	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:86964384C>A	uc001dlt.2	+	13	2372	c.2243C>A	c.(2242-2244)CCT>CAT	p.P748H		NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	748					calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		GCTCCCATACCTGATCTCTTC	0.483													54	105	---	---	---	---	PASS	A	86964384	A	A	86964384	3	1	120	1	0	0	0	0	1	0	0	0	3457	681	24	3	2293	3	CLCA1	1	86964384	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	52774162	86964384	162286237	9	44573										
GFI1	2672	broad.mit.edu	37	chr1	92941667	92941667	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ttcccacagaggtcgcagccGaagggcttgaagcctgtgtg	14	11	0	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:92941667G>T	uc001dou.3	-	7	1352	c.1188C>A	c.(1186-1188)TTC>TTA	p.F396L	GFI1_uc001dov.3_Missense_Mutation_p.F396L|GFI1_uc001dow.3_Missense_Mutation_p.F396L	NM_001127215	NP_001120687	Q99684	GFI1_HUMAN	growth factor independent 1	396	C2H2-type 6.				negative regulation of calcidiol 1-monooxygenase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1/S phase of mitotic cell cycle|transcription, DNA-dependent|viral reproduction	nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)	1		all_lung(203;0.00292)|Lung NSC(277;0.0115)|all_neural(321;0.185)|Glioma(108;0.203)		OV - Ovarian serous cystadenocarcinoma(397;9.04e-07)|Epithelial(280;1.17e-05)|all cancers(265;5.61e-05)|GBM - Glioblastoma multiforme(16;0.0191)		GGTCGCAGCCGAAGGGCTTGA	0.607													13	18	---	---	---	---	PASS	T	92941667	T	T	92941667	3	4	120	1	0	0	0	0	1	0	0	0	6339	1049	37	2	84	2	GFI1	1	92941667	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	5977283	92941667	156308954	10	44574										
HORMAD1	84072	broad.mit.edu	37	chr1	150689735	150689735	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gactggtgttcagttgatatCttattgggaaataccagtgc	11	6	2	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:150689735C>G	uc001evk.1	-	3	163	c.57G>C	c.(55-57)AAG>AAC	p.K19N	HORMAD1_uc001evl.1_Missense_Mutation_p.K19N|HORMAD1_uc001evm.1_5'UTR	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	19					blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			CAGTTGATATCTTATTGGGAA	0.343													6	293	---	---	---	---	PASS	G	150689735	G	G	150689735	3	3	120	1	0	0	0	0	1	0	0	0	7286	912	32	2	1179	2	HORMAD1	1	150689735	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	57748068	150689735	98560886	11	44575										
FCRL2	79368	broad.mit.edu	37	chr1	157740401	157740401	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ttctgttctccctggcatttCagaacgatgctgtctccttc	7	13	4	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:157740401C>G	uc001fre.2	-	3	167	c.108G>C	c.(106-108)CTG>CTC	p.L36L	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Silent_p.L36L|FCRL2_uc009wsp.2_Silent_p.L36L|FCRL2_uc010pia.1_Silent_p.L36L	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	36	Ig-like C2-type 1.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CCTGGCATTTCAGAACGATGC	0.438													5	139	---	---	---	---	PASS	G	157740401	G	G	157740401	2	3	120	1	0	0	0	0	0	0	0	1	5795	813	29	2		2	FCRL2	1	157740401	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	7050666	157740401	91510220	12	44576										
SPTA1	6708	broad.mit.edu	37	chr1	158597422	158597422	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tgaactagctcaccttatttAggatgtcttctccttgtgca	7	10	3	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:158597422A>G	uc001fst.1	-	40	5856	c.5657T>C	c.(5656-5658)CTA>CCA	p.L1886P		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1886	Spectrin 18.				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)					CACCTTATTTAGGATGTCTTC	0.423													63	201	---	---	---	---	PASS	G	158597422	G	G	158597422	3	3	120	1	0	0	0	0	1	0	0	0	15115	420	15	5	1654	5	SPTA1	1	158597422	Missense_Mutation	SNP	A	TCGA-60-2707-01A-01D-1522-08	857021	158597422	90653199	13	44577										
PVRL4	81607	broad.mit.edu	37	chr1	161042609	161042609	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	agagcctggagacagcagttCagtctgtgtttctatctccc	10	11	4	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:161042609C>T	uc001fxo.2	-	9	1674	c.1375G>A	c.(1375-1377)GAA>AAA	p.E459K	ARHGAP30_uc001fxk.2_5'Flank|ARHGAP30_uc001fxl.2_5'Flank|ARHGAP30_uc001fxm.2_5'Flank|ARHGAP30_uc009wtx.2_5'Flank|ARHGAP30_uc001fxn.1_5'Flank|PVRL4_uc010pjy.1_Missense_Mutation_p.E113K|PVRL4_uc010pjz.1_Missense_Mutation_p.E168K	NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	459	Cytoplasmic (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			GACAGCAGTTCAGTCTGTGTT	0.562													25	53	---	---	---	---	PASS	T	161042609	T	T	161042609	3	4	120	1	0	0	0	0	1	0	0	0	12842	835	29	2	161	2	PVRL4	1	161042609	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	2445187	161042609	88208012	14	44578										
PAPPA2	60676	broad.mit.edu	37	chr1	176668640	176668640	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tgtgctctggctgcaggcctGtgaggtaccaggttctccgc	14	12	2	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:176668640G>T	uc001gkz.2	+	8	4315	c.3151G>T	c.(3151-3153)GTG>TTG	p.V1051L	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1051					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CTGCAGGCCTGTGAGGTACCA	0.552													71	189	---	---	---	---	PASS	T	176668640	T	T	176668640	3	4	120	1	0	0	0	0	1	0	0	0	11433	1377	48	3	3230	3	PAPPA2	1	176668640	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	15626031	176668640	72581981	15	44579										
TPR	7175	broad.mit.edu	37	chr1	186321214	186321214	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	cagacaatttaagcatttccTtttccttcttcaaattttct	2	10	3	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:186321214T>A	uc001grv.2	-	19	2660	c.2363A>T	c.(2362-2364)AAG>ATG	p.K788M		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	788	Potential.				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)		AAGCATTTCCTTTTCCTTCTT	0.318			T	NTRK1	papillary thyroid								63	118	---	---	---	---	PASS	A	186321214	A	A	186321214	3	1	120	1	0	0	0	0	1	0	0	0	16413	1609	56	5	4860	5	TPR	1	186321214	Missense_Mutation	SNP	T	TCGA-60-2707-01A-01D-1522-08	9652574	186321214	62929407	16	44580										
F13B	2165	broad.mit.edu	37	chr1	197024901	197024901	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	cgcaacgagatatttttgatCccctcagtaagtaatattca	6	9	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:197024901C>T	uc001gtt.1	-	8	1342	c.1298G>A	c.(1297-1299)GGA>GAA	p.G433E		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	433	Sushi 7.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TATTTTTGATCCCCTCAGTAA	0.418													16	163	---	---	---	---	PASS	T	197024901	T	T	197024901	3	4	120	1	0	0	0	0	1	0	0	0	5341	855	30	2	707	2	F13B	1	197024901	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	10703687	197024901	52225720	17	44581										
LHX9	56956	broad.mit.edu	37	chr1	197896900	197896900	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	agcagcttgcccagaaaacaGgtctgaccaaaagagttttg	10	9	1	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:197896900G>T	uc001guk.1	+	4	1350	c.913G>T	c.(913-915)GGT>TGT	p.G305C	LHX9_uc001gui.1_Missense_Mutation_p.G296C|LHX9_uc001guj.1_Missense_Mutation_p.G311C	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	305	Homeobox.				motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						CCAGAAAACAGGTCTGACCAA	0.478													34	104	---	---	---	---	PASS	T	197896900	T	T	197896900	3	4	120	1	0	0	0	0	1	0	0	0	8777	1000	35	3	959	3	LHX9	1	197896900	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	871999	197896900	51353721	18	44582										
PIK3C2B	5287	broad.mit.edu	37	chr1	204403630	204403630	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	caaaatcaatgtggaacatgTgaccagtggtcttcagcatg	10	8	3	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:204403630T>C	uc001haw.2	-	25	4102	c.3623A>G	c.(3622-3624)CAC>CGC	p.H1208R	PIK3C2B_uc010pqv.1_Missense_Mutation_p.H1180R	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	1208	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			GTGGAACATGTGACCAGTGGT	0.517													26	39	---	---	---	---	PASS	C	204403630	C	C	204403630	3	2	120	1	0	0	0	0	1	0	0	0	11910	1696	59	5	1321	5	PIK3C2B	1	204403630	Missense_Mutation	SNP	T	TCGA-60-2707-01A-01D-1522-08	6506730	204403630	44846991	19	44583										
PCNXL2	80003	broad.mit.edu	37	chr1	233296087	233296087	+	Nonsense_Mutation	SNP	C	T	T													0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	atggggtgtgaaatccacatCcagggatgatgcttgcggag							TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:233296087C>T	uc001hvl.2	-	19	3694	c.3459G>A	c.(3457-3459)TGG>TGA	p.W1153*	PCNXL2_uc001hvm.1_RNA|PCNXL2_uc009xfu.2_RNA|PCNXL2_uc001hvp.1_RNA|PCNXL2_uc009xfv.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1153						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				AAATCCACATCCAGGGATGAT	0.453													29	110	---	---	---	---	PASS	T	233296087	T	T	233296087	4	4	120	1	0	0	0	0	0	1	0	0	11592	856	30	2	3018	2	PCNXL2	1	233296087	Nonsense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	28892457	233296087	15954534	20	44584	828	2								
PCNXL2	80003	broad.mit.edu	37	chr1	233296088	233296088	+	Missense_Mutation	SNP	C	A	A													0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tggggtgtgaaatccacatcCagggatgatgcttgcggagc							TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:233296088C>A	uc001hvl.2	-	19	3693	c.3458G>T	c.(3457-3459)TGG>TTG	p.W1153L	PCNXL2_uc001hvm.1_RNA|PCNXL2_uc009xfu.2_RNA|PCNXL2_uc001hvp.1_RNA|PCNXL2_uc009xfv.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1153						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				AATCCACATCCAGGGATGATG	0.448													29	111	---	---	---	---	PASS	A	233296088	A	A	233296088	3	1	120	1	0	0	0	0	1	0	0	0	11592	595	21	3	3019	3	PCNXL2	1	233296088	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	1	233296088	15954533	21	44585	828	2								
C1orf150	148823	broad.mit.edu	37	chr1	247712512	247712512	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	agatgggaaattatctcctgCgaaaactcaggtgagtcttg	11	7	3	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr1:247712512C>A	uc001idf.2	+	1	64	c.19C>A	c.(19-21)CGA>AGA	p.R7R	C1orf150_uc009xgw.2_Intron|C1orf150_uc001ida.3_RNA|C1orf150_uc001idb.3_RNA|C1orf150_uc009xgx.2_Intron	NM_145278	NP_660321	Q5JQS6	CA150_HUMAN	hypothetical protein LOC148823	7											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)			TTATCTCCTGCGAAAACTCAG	0.468													38	82	---	---	---	---	PASS	A	247712512	A	A	247712512	2	1	120	1	0	0	0	0	0	0	0	1	2004	760	27	1		1	C1orf150	1	247712512	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	14416424	247712512	1538109	22	44586										
VRK2	7444	broad.mit.edu	37	chr2	58366799	58366799	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	taaaaaatttaataattcacAggtgaaatagcccaattttt	4	5	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr2:58366799A>T	uc002rzo.2	+	14	1602	c.857_splice	c.e14-2	p.C286_splice	VRK2_uc010fcb.2_Splice_Site_p.C286_splice|VRK2_uc002rzs.2_Splice_Site_p.C286_splice|VRK2_uc002rzr.2_Splice_Site_p.C286_splice|VRK2_uc010fcc.2_Splice_Site_p.C168_splice|VRK2_uc002rzv.2_Splice_Site_p.C286_splice|VRK2_uc010fcd.2_Splice_Site_p.C263_splice|VRK2_uc002rzp.2_Splice_Site_p.C286_splice|VRK2_uc010ypg.1_Splice_Site_p.C286_splice|VRK2_uc002rzq.2_Splice_Site_p.C286_splice|VRK2_uc002rzu.2_Splice_Site_p.C286_splice|VRK2_uc002rzt.2_Splice_Site_p.C168_splice	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2							integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						AATAATTCACAGGTGAAATAG	0.318													23	88	---	---	---	---	PASS	T	58366799	T	T	58366799	5	4	120	1	0	0	0	0	0	0	1	0	17217	202	7	5	893	5	VRK2	2	58366799	Splice_Site	SNP	A	TCGA-60-2707-01A-01D-1522-08		58366799	184832574	23	44587										
USP34	9736	broad.mit.edu	37	chr2	61576402	61576402	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tacaaggtgatggagctgttCttctaagctcttcttcctct	8	10	5	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr2:61576402C>G	uc002sbe.2	-	13	1548	c.1526G>C	c.(1525-1527)AGA>ACA	p.R509T		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	509					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TGGAGCTGTTCTTCTAAGCTC	0.348													4	143	---	---	---	---	PASS	G	61576402	G	G	61576402	3	3	120	1	0	0	0	0	1	0	0	0	17062	913	32	2	9386	2	USP34	2	61576402	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	3209603	61576402	181622971	24	44588										
SPR	6697	broad.mit.edu	37	chr2	73118540	73118540	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gtggacccagacatgcgaaaAgggctgcaggagctgaaggc	16	9	0	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr2:73118540A>G	uc002sik.2	+	3	710	c.660A>G	c.(658-660)AAA>AAG	p.K220K		NM_003124	NP_003115	P35270	SPRE_HUMAN	sepiapterin reductase	220					nitric oxide biosynthetic process|tetrahydrobiopterin biosynthetic process	cytoplasm	aldo-keto reductase (NADP) activity|NADP binding|sepiapterin reductase activity			ovary(2)	2						ACATGCGAAAAGGGCTGCAGG	0.557													3	131	---	---	---	---	PASS	G	73118540	G	G	73118540	2	3	120	1	0	0	0	0	0	0	0	1	15090	69	3	5		5	SPR	2	73118540	Silent	SNP	A	TCGA-60-2707-01A-01D-1522-08	11542138	73118540	170080833	25	44589										
VWA3B	200403	broad.mit.edu	37	chr2	98853155	98853155	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	acagctccacctatgttcccGtcctggacaagcatgtcgtg	9	14	0	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr2:98853155G>T	uc002syo.2	+	19	2899	c.2635G>T	c.(2635-2637)GTC>TTC	p.V879F	VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Missense_Mutation_p.V398F|VWA3B_uc002sym.2_Missense_Mutation_p.V879F|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.V536F|VWA3B_uc002syp.1_Missense_Mutation_p.V271F|VWA3B_uc002syq.1_Missense_Mutation_p.V155F|VWA3B_uc002syr.1_Missense_Mutation_p.V196F|VWA3B_uc010fih.1_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	879										ovary(3)|large_intestine(2)|skin(1)	6						CTATGTTCCCGTCCTGGACAA	0.478													66	165	---	---	---	---	PASS	T	98853155	T	T	98853155	3	4	120	1	0	0	0	0	1	0	0	0	17238	1145	40	1	2705	1	VWA3B	2	98853155	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	25734615	98853155	144346218	26	44590										
SLC35F5	80255	broad.mit.edu	37	chr2	114483083	114483083	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	agtaaaaagaaacctggccaTaagagcagcagattaaacaa	8	7	0	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr2:114483083T>C	uc002tku.1	-	12	1546	c.1122A>G	c.(1120-1122)TTA>TTG	p.L374L	SLC35F5_uc002tkt.2_RNA	NM_025181	NP_079457	Q8WV83	S35F5_HUMAN	solute carrier family 35, member F5	374	Poly-Leu.|Helical; (Potential).				transport	integral to membrane					0						AACCTGGCCATAAGAGCAGCA	0.308													44	85	---	---	---	---	PASS	C	114483083	C	C	114483083	2	2	120	1	0	0	0	0	0	0	0	1	14592	1403	49	5		5	SLC35F5	2	114483083	Silent	SNP	T	TCGA-60-2707-01A-01D-1522-08	15629928	114483083	128716290	27	44591										
MBD5	55777	broad.mit.edu	37	chr2	149226468	149226468	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	accaatgtgtaatttttcaaCtaatatggaaataccacgag	6	7	1	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr2:149226468C>G	uc002twm.3	+	9	1944	c.956C>G	c.(955-957)ACT>AGT	p.T319S	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.T319S|MBD5_uc002twn.1_5'Flank	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	319						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		AATTTTTCAACTAATATGGAA	0.443													6	159	---	---	---	---	PASS	G	149226468	G	G	149226468	3	3	120	1	0	0	0	0	1	0	0	0	9347	565	20	4	970	4	MBD5	2	149226468	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	34743385	149226468	93972905	28	44592			1	52		2	2	14	N	C_A	5.96299e-05
MBD5	55777	broad.mit.edu	37	chr2	149226481	149226481	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ttttcaactaatatggaaatAccacgagcaatgttccacca	5	10	1	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr2:149226481A>G	uc002twm.3	+	9	1957	c.969A>G	c.(967-969)ATA>ATG	p.I323M	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.I323M|MBD5_uc002twn.1_5'Flank	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	323						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		ATATGGAAATACCACGAGCAA	0.433													6	146	---	---	---	---	PASS	G	149226481	G	G	149226481	3	3	120	1	0	0	0	0	1	0	0	0	9347	381	14	5	983	5	MBD5	2	149226481	Missense_Mutation	SNP	A	TCGA-60-2707-01A-01D-1522-08	13	149226481	93972892	29	44593			1	52		2	2	14	N	C_A	5.96299e-05
ABCB11	8647	broad.mit.edu	37	chr2	169781299	169781299	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tgagacccctgggacccaacGttagtttcatatttctgaaa	8	10	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr2:169781299G>C	uc002ueo.1	-	27	3759	c.3633C>G	c.(3631-3633)AAC>AAG	p.N1211K	ABCB11_uc010zda.1_Missense_Mutation_p.N629K|ABCB11_uc010zdb.1_Missense_Mutation_p.N687K	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	1211	Cytoplasmic (Potential).|ABC transporter 2.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	GGGACCCAACGTTAGTTTCAT	0.413													48	144	---	---	---	---	PASS	C	169781299	C	C	169781299	3	2	120	1	0	0	0	0	1	0	0	0	42	1136	40	4	340	4	ABCB11	2	169781299	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	20554818	169781299	73418074	30	44594										
TTN	7273	broad.mit.edu	37	chr2	179395669	179395669	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tggtgatgtcacagccttttCagttaccctggccttttgaa	9	10	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr2:179395669C>T	uc010zfg.1	-	307	98193	c.97969G>A	c.(97969-97971)GAA>AAA	p.E32657K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E26352K|TTN_uc010zfi.1_Missense_Mutation_p.E26285K|TTN_uc010zfj.1_Missense_Mutation_p.E26160K|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33584							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)			ACAGCCTTTTCAGTTACCCTG	0.488													8	441	---	---	---	---	PASS	T	179395669	T	T	179395669	3	4	120	1	0	0	0	0	1	0	0	0	16732	835	29	2	2326	2	TTN	2	179395669	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	9614370	179395669	63803704	31	44595										
RFTN2	130132	broad.mit.edu	37	chr2	198498484	198498484	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ggaagtagggctgccattttGttccatttgatactgtccac	10	9	0	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr2:198498484G>T	uc002uuo.3	-	4	1078	c.676C>A	c.(676-678)CAA>AAA	p.Q226K		NM_144629	NP_653230	Q52LD8	RFTN2_HUMAN	raftlin family member 2	226						plasma membrane					0						CTGCCATTTTGTTCCATTTGA	0.363													56	225	---	---	---	---	PASS	T	198498484	T	T	198498484	3	4	120	1	0	0	0	0	1	0	0	0	13259	1386	48	3	853	3	RFTN2	2	198498484	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	19102815	198498484	44700889	32	44596										
AGAP1	116987	broad.mit.edu	37	chr2	236653377	236653377	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gacgctgttatatttgtcttCagcttggaggatgaaataag	11	5	2	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr2:236653377C>T	uc002vvs.2	+	5	1027	c.432C>T	c.(430-432)TTC>TTT	p.F144F	AGAP1_uc002vvt.2_Silent_p.F144F	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	144	Small GTPase-like.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						TATTTGTCTTCAGCTTGGAGG	0.488													9	206	---	---	---	---	PASS	T	236653377	T	T	236653377	2	4	120	1	0	0	0	0	0	0	0	1	366	825	29	2		2	AGAP1	2	236653377	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	38154893	236653377	6545996	33	44597										
AGAP1	116987	broad.mit.edu	37	chr2	236653401	236653401	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ttggaggatgaaataagtttCcagaccgtttaccactacta	8	8	0	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr2:236653401C>G	uc002vvs.2	+	5	1051	c.456C>G	c.(454-456)TTC>TTG	p.F152L	AGAP1_uc002vvt.2_Missense_Mutation_p.F152L	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	152	Small GTPase-like.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						AAATAAGTTTCCAGACCGTTT	0.507													7	163	---	---	---	---	PASS	G	236653401	G	G	236653401	3	3	120	1	0	0	0	0	1	0	0	0	366	854	30	2	474	2	AGAP1	2	236653401	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	24	236653401	6545972	34	44598										
SLC6A11	6538	broad.mit.edu	37	chr3	10861396	10861396	+	Splice_Site	SNP	G	T	T													0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tcctttcttttgtcctttcaGgcattggctatgcaacacag							TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr3:10861396G>T	uc003bvz.2	+	3	426	c.392_splice	c.e3-1	p.G131_splice	SLC6A11_uc003bvy.1_Splice_Site_p.G131_splice	NM_014229	NP_055044	P48066	S6A11_HUMAN	solute carrier family 6 (neurotransmitter						neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.229)		TGTCCTTTCAGGCATTGGCTA	0.408													96	178	---	---	---	---	PASS	T	10861396	T	T	10861396	5	4	120	1	0	0	0	0	0	0	1	0	14674	1014	35	3	401	3	SLC6A11	3	10861396	Splice_Site	SNP	G	TCGA-60-2707-01A-01D-1522-08		10861396	187161034	35	44599	829	2								
SLC6A11	6538	broad.mit.edu	37	chr3	10861397	10861397	+	Missense_Mutation	SNP	G	T	T													0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	cctttcttttgtcctttcagGcattggctatgcaacacagg							TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr3:10861397G>T	uc003bvz.2	+	3	426	c.392G>T	c.(391-393)GGC>GTC	p.G131V	SLC6A11_uc003bvy.1_Missense_Mutation_p.G131V	NM_014229	NP_055044	P48066	S6A11_HUMAN	solute carrier family 6 (neurotransmitter	131	Helical; Name=3; (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.229)		GTCCTTTCAGGCATTGGCTAT	0.403													97	176	---	---	---	---	PASS	T	10861397	T	T	10861397	3	4	120	1	0	0	0	0	1	0	0	0	14674	1217	42	3	402	3	SLC6A11	3	10861397	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	1	10861397	187161033	36	44600	829	2								
STAB1	23166	broad.mit.edu	37	chr3	52551041	52551041	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gccatgggggctgctcccctCatgccaactgtaccaaggtg	12	14	1	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr3:52551041C>T	uc003dej.2	+	42	4479	c.4405C>T	c.(4405-4407)CAT>TAT	p.H1469Y	STAB1_uc003dek.1_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1469	Extracellular (Potential).|EGF-like 11.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CTGCTCCCCTCATGCCAACTG	0.677													4	93	---	---	---	---	PASS	T	52551041	T	T	52551041	3	4	120	1	0	0	0	0	1	0	0	0	15236	826	29	2	4571	2	STAB1	3	52551041	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	41689644	52551041	145471389	37	44601										
C3orf63	23272	broad.mit.edu	37	chr3	56675432	56675432	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	cgctggtagaaatagcaacaGaatacttagatgttgcatca	9	7	1	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr3:56675432G>A	uc003did.3	-	15	2665	c.2564C>T	c.(2563-2565)TCT>TTT	p.S855F	C3orf63_uc003dic.3_Missense_Mutation_p.S459F|C3orf63_uc003die.3_Missense_Mutation_p.S855F	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	855										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		AATAGCAACAGAATACTTAGA	0.388													4	88	---	---	---	---	PASS	A	56675432	A	A	56675432	3	1	120	1	0	0	0	0	1	0	0	0	2239	942	33	2	2548	2	C3orf63	3	56675432	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	4124391	56675432	141346998	38	44602										
LRIG1	26018	broad.mit.edu	37	chr3	66449460	66449460	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	acttgatcttgtttccaaacAgagtcctgtagtttccaaac	6	10	1	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr3:66449460A>G	uc003dmx.2	-	10	1180	c.1166T>C	c.(1165-1167)CTG>CCG	p.L389P	LRIG1_uc011bfu.1_Missense_Mutation_p.L9P|LRIG1_uc003dmw.2_Missense_Mutation_p.L55P|LRIG1_uc010hnz.2_Intron|LRIG1_uc010hoa.2_Missense_Mutation_p.L413P	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	389	Extracellular (Potential).|LRR 14.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		GTTTCCAAACAGAGTCCTGTA	0.473													20	23	---	---	---	---	PASS	G	66449460	G	G	66449460	3	3	120	1	0	0	0	0	1	0	0	0	8944	188	7	5	2155	5	LRIG1	3	66449460	Missense_Mutation	SNP	A	TCGA-60-2707-01A-01D-1522-08	9774028	66449460	131572970	39	44603										
OR5K3	403277	broad.mit.edu	37	chr3	98109948	98109948	+	Missense_Mutation	SNP	G	C	C													0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tctgcattcagatgactgcaGgagcctacctagctggcaac							TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr3:98109948G>C	uc011bgw.1	+	1	439	c.439G>C	c.(439-441)GGA>CGA	p.G147R		NM_001005516	NP_001005516	A6NET4	OR5K3_HUMAN	olfactory receptor, family 5, subfamily K,	147	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GATGACTGCAGGAGCCTACCT	0.468													60	306	---	---	---	---	PASS	C	98109948	C	C	98109948	3	2	120	1	0	0	0	0	1	0	0	0	11168	1001	35	4	441	4	OR5K3	3	98109948	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	31660488	98109948	99912482	40	44604	830	2								
OR5K3	403277	broad.mit.edu	37	chr3	98109949	98109949	+	Missense_Mutation	SNP	G	T	T													0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctgcattcagatgactgcagGagcctacctagctggcaacc							TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr3:98109949G>T	uc011bgw.1	+	1	440	c.440G>T	c.(439-441)GGA>GTA	p.G147V		NM_001005516	NP_001005516	A6NET4	OR5K3_HUMAN	olfactory receptor, family 5, subfamily K,	147	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGACTGCAGGAGCCTACCTA	0.468													64	301	---	---	---	---	PASS	T	98109949	T	T	98109949	3	4	120	1	0	0	0	0	1	0	0	0	11168	1174	41	2	442	2	OR5K3	3	98109949	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	1	98109949	99912481	41	44605	830	2								
MED12L	116931	broad.mit.edu	37	chr3	151067921	151067921	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ggcaaagagcgtgatgaagcAaggcatcagctgaagaagat	14	6	1	6			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr3:151067921A>G	uc003eyp.2	+	15	2258	c.2220A>G	c.(2218-2220)GCA>GCG	p.A740A	MED12L_uc011bnz.1_Silent_p.A600A|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	740					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)			GTGATGAAGCAAGGCATCAGC	0.413													146	514	---	---	---	---	PASS	G	151067921	G	G	151067921	2	3	120	1	0	0	0	0	0	0	0	1	9429	117	5	5		5	MED12L	3	151067921	Silent	SNP	A	TCGA-60-2707-01A-01D-1522-08	52957972	151067921	46954509	42	44606										
ZNF718	255403	broad.mit.edu	37	chr4	155143	155143	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	acataagagaattcatgccaGagagaaattctacaagtgtg	9	6	2	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr4:155143G>C	uc003fzt.3	+	8	801	c.668G>C	c.(667-669)AGA>ACA	p.R223T	ZNF595_uc003fzu.1_Intron|ZNF718_uc010iaz.2_RNA|ZNF718_uc003fzw.3_Missense_Mutation_p.E3Q	NM_001039127	NP_001034216	Q3SXZ3	ZN718_HUMAN	zinc finger protein 718	223					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0681)|Epithelial(2;0.0838)|all cancers(2;0.135)|LUSC - Lung squamous cell carcinoma(95;0.18)		ATTCATGCCAGAGAGAAATTC	0.378													3	57	---	---	---	---	PASS	C	155143	C	C	155143	3	2	120	1	0	0	0	0	1	0	0	0	18117	942	33	2	682	2	ZNF718	4	155143	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08		155143	190999133	43	44607										
GRSF1	2926	broad.mit.edu	37	chr4	71698085	71698085	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ggaagtcctctcaaacgaacCacaccatcatttaccacagg	6	14	2	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr4:71698085C>T	uc010iia.1	-	4	836	c.753G>A	c.(751-753)GTG>GTA	p.V251V	GRSF1_uc011caz.1_Silent_p.V133V|GRSF1_uc003hfs.2_Silent_p.V89V	NM_002092	NP_002083	Q12849	GRSF1_HUMAN	G-rich RNA sequence binding factor 1 isoform 1	251	RRM 2.				mRNA polyadenylation		mRNA binding|nucleotide binding				0		all_hematologic(202;0.21)	Lung(101;0.235)			TCAAACGAACCACACCATCAT	0.393													18	87	---	---	---	---	PASS	T	71698085	T	T	71698085	2	4	120	1	0	0	0	0	0	0	0	1	6809	581	21	3		3	GRSF1	4	71698085	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	71542942	71698085	119456191	44	44608										
ADH1B	125	broad.mit.edu	37	chr4	100231999	100231999	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tgggttattaacgcatccagTgaaaacttcttagccataaa	7	8	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr4:100231999T>C	uc003hus.3	-	8	1110	c.1026A>G	c.(1024-1026)TCA>TCG	p.S342S	ADH1A_uc011ceg.1_Intron|ADH1B_uc003hut.3_Silent_p.S302S|ADH1B_uc011ceh.1_Silent_p.S187S|ADH1B_uc011cei.1_Silent_p.S302S	NM_000668	NP_000659	P00325	ADH1B_HUMAN	class I alcohol dehydrogenase, beta subunit	342					ethanol oxidation|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|zinc ion binding			ovary(1)|breast(1)	2				OV - Ovarian serous cystadenocarcinoma(123;1.02e-07)	Fomepizole(DB01213)|NADH(DB00157)	ACGCATCCAGTGAAAACTTCT	0.358													42	153	---	---	---	---	PASS	C	100231999	C	C	100231999	2	2	120	1	0	0	0	0	0	0	0	1	308	1683	59	5		5	ADH1B	4	100231999	Silent	SNP	T	TCGA-60-2707-01A-01D-1522-08	28533914	100231999	90922277	45	44609										
ANKRD50	57182	broad.mit.edu	37	chr4	125591827	125591827	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctcatttgttctagcaccttGttcaataagtgcttcacata	5	10	4	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr4:125591827G>T	uc003ifg.3	-	3	2871	c.2605C>A	c.(2605-2607)CAA>AAA	p.Q869K	ANKRD50_uc011cgo.1_Missense_Mutation_p.Q690K|ANKRD50_uc010inw.2_Missense_Mutation_p.Q869K	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	869	ANK 12.									central_nervous_system(1)	1						CTAGCACCTTGTTCAATAAGT	0.388													61	198	---	---	---	---	PASS	T	125591827	T	T	125591827	3	4	120	1	0	0	0	0	1	0	0	0	677	1386	48	3	1688	3	ANKRD50	4	125591827	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	25359828	125591827	65562449	46	44610										
SORBS2	8470	broad.mit.edu	37	chr4	186544783	186544783	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	accccgtcctggtcgctgtcGgaaaactccacgtgtgctcg	11	15	0	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr4:186544783G>A	uc003iyl.2	-	13	2646	c.1788C>T	c.(1786-1788)TCC>TCT	p.S596S	SORBS2_uc003iyh.2_Intron|SORBS2_uc011ckw.1_Intron|SORBS2_uc003iyi.2_Intron|SORBS2_uc011ckx.1_Intron|SORBS2_uc003iyk.2_Intron|SORBS2_uc003iym.2_Silent_p.S696S|SORBS2_uc003iyn.1_Intron|SORBS2_uc011cku.1_Intron|SORBS2_uc011ckv.1_Silent_p.S500S|SORBS2_uc003iyd.2_Intron|SORBS2_uc003iye.2_Intron|SORBS2_uc003iya.2_Intron|SORBS2_uc003iyb.2_Intron|SORBS2_uc003iyc.2_Intron|SORBS2_uc003iyg.2_Silent_p.S710S|SORBS2_uc003iyf.2_Intron|SORBS2_uc003iyo.1_Intron	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	596						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		GGTCGCTGTCGGAAAACTCCA	0.582													19	65	---	---	---	---	PASS	A	186544783	A	A	186544783	2	1	120	1	0	0	0	0	0	0	0	1	14928	1103	39	1		1	SORBS2	4	186544783	Silent	SNP	G	TCGA-60-2707-01A-01D-1522-08	60952956	186544783	4609493	47	44611										
ADAMTS16	170690	broad.mit.edu	37	chr5	5303866	5303866	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gaagctgcagtggctggtgtCcgcctggtcccaggtaggtg	17	10	0	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr5:5303866C>T	uc003jdl.2	+	20	3311	c.3173C>T	c.(3172-3174)TCC>TTC	p.S1058F	ADAMTS16_uc003jdk.1_Missense_Mutation_p.S1058F	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1058	TSP type-1 5.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TGGCTGGTGTCCGCCTGGTCC	0.547													3	46	---	---	---	---	PASS	T	5303866	T	T	5303866	3	4	120	1	0	0	0	0	1	0	0	0	261	855	30	2	3251	2	ADAMTS16	5	5303866	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08		5303866	175611394	48	44612										
ADAMTS12	81792	broad.mit.edu	37	chr5	33576688	33576688	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tctccatttctggacctttgGtcaaggtattgtaaaatgga	9	7	3	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr5:33576688G>A	uc003jia.1	-	19	3606	c.3443C>T	c.(3442-3444)ACC>ATC	p.T1148I	ADAMTS12_uc010iuq.1_Missense_Mutation_p.T1063I	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1148	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TGGACCTTTGGTCAAGGTATT	0.473										HNSCC(64;0.19)			54	220	---	---	---	---	PASS	A	33576688	A	A	33576688	3	1	120	1	0	0	0	0	1	0	0	0	257	1261	44	3	1365	3	ADAMTS12	5	33576688	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	28272822	33576688	147338572	49	44613										
C5orf42	65250	broad.mit.edu	37	chr5	37148352	37148352	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	agggccagaagagaattcaaTgtgatccactggtccaatct	10	9	2	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr5:37148352T>C	uc011cpa.1	-	42	8461	c.8230A>G	c.(8230-8232)ATT>GTT	p.I2744V	C5orf42_uc003jkp.1_RNA|C5orf42_uc011coy.1_Missense_Mutation_p.I1262V|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.I1837V	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2744										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			GAGAATTCAATGTGATCCACT	0.343													56	83	---	---	---	---	PASS	C	37148352	C	C	37148352	3	2	120	1	0	0	0	0	1	0	0	0	2301	1464	51	5	1407	5	C5orf42	5	37148352	Missense_Mutation	SNP	T	TCGA-60-2707-01A-01D-1522-08	3571664	37148352	143766908	50	44614										
FGF10	2255	broad.mit.edu	37	chr5	44305140	44305140	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gaaagtgagcagaggtgtttTtccttcgtgttttctgtcct	11	7	1	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr5:44305140T>A	uc003jog.1	-	3	584	c.584A>T	c.(583-585)AAA>ATA	p.K195I		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	195					actin cytoskeleton reorganization|activation of MAPK activity|bud outgrowth involved in lung branching|ERK1 and ERK2 cascade|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|insulin receptor signaling pathway|lacrimal gland development|lung saccule development|mesonephros development|negative regulation of cell cycle arrest|positive regulation of ATPase activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of DNA repair|positive regulation of DNA replication|positive regulation of epithelial cell migration|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of ERK1 and ERK2 cascade|positive regulation of hair follicle cell proliferation|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of lymphocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of urothelial cell proliferation|protein localization at cell surface|radial glial cell differentiation|regulation of saliva secretion|response to protein stimulus|secretion by lung epithelial cell involved in lung growth|tear secretion|thymus development|urothelial cell proliferation	cell surface|extracellular space|nucleus|plasma membrane	chemoattractant activity|growth factor activity|heparin binding|type 2 fibroblast growth factor receptor binding			lung(3)	3	Lung NSC(6;1.12e-06)					AGAGGTGTTTTTCCTTCGTGT	0.438													25	386	---	---	---	---	PASS	A	44305140	A	A	44305140	3	1	120	1	0	0	0	0	1	0	0	0	5839	1841	64	5	46	5	FGF10	5	44305140	Missense_Mutation	SNP	T	TCGA-60-2707-01A-01D-1522-08	7156788	44305140	136610120	51	44615										
PPIP5K2	23262	broad.mit.edu	37	chr5	102472515	102472515	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gacttgaatatgcagtatctCatacaagataggtgagtggt	11	5	1	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr5:102472515C>G	uc003kod.3	+	4	909	c.390C>G	c.(388-390)CTC>CTG	p.L130L	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Silent_p.L130L|PPIP5K2_uc010jbo.1_Silent_p.L52L	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	130					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						TGCAGTATCTCATACAAGATA	0.279													5	255	---	---	---	---	PASS	G	102472515	G	G	102472515	2	3	120	1	0	0	0	0	0	0	0	1	12333	813	29	2		2	PPIP5K2	5	102472515	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	58167375	102472515	78442745	52	44616										
PRPF4B	8899	broad.mit.edu	37	chr6	4032677	4032677	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	caaagacagaaggtcacggtCcaaagagagaaaatcaaaac	9	8	2	4			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr6:4032677C>T	uc003mvv.2	+	2	1017	c.926C>T	c.(925-927)TCC>TTC	p.S309F	PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	309	Arg/Lys-rich (basic).					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				AGGTCACGGTCCAAAGAGAGA	0.383													19	137	---	---	---	---	PASS	T	4032677	T	T	4032677	3	4	120	1	0	0	0	0	1	0	0	0	12573	855	30	2	932	2	PRPF4B	6	4032677	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08		4032677	167082390	53	44617										
DST	667	broad.mit.edu	37	chr6	56489989	56489989	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gatctgctgaactctgcattCttcggcgtttcactggagat	10	10	4	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr6:56489989C>T	uc003pdf.2	-	34	4725	c.4697G>A	c.(4696-4698)AGA>AAA	p.R1566K	DST_uc003pcz.3_Missense_Mutation_p.R1388K|DST_uc011dxj.1_Missense_Mutation_p.R1417K|DST_uc011dxk.1_Missense_Mutation_p.R1428K|DST_uc003pcy.3_Missense_Mutation_p.R1062K|DST_uc003pdb.2_Missense_Mutation_p.R1062K|DST_uc003pdc.3_Missense_Mutation_p.R1062K|DST_uc003pdd.3_Missense_Mutation_p.R1062K	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	1388	Nuclear localization signal; in isoform 6 (By similarity).				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)			ACTCTGCATTCTTCGGCGTTT	0.358													5	374	---	---	---	---	PASS	T	56489989	T	T	56489989	3	4	120	1	0	0	0	0	1	0	0	0	4783	913	32	2	17226	2	DST	6	56489989	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	52457312	56489989	114625078	54	44618										
MYO6	4646	broad.mit.edu	37	chr6	76540217	76540217	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	cagaagcaataaagtcatatCaaggaaaatctcttgggaca	8	7	3	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr6:76540217C>A	uc003pih.1	+	5	625	c.346C>A	c.(346-348)CAA>AAA	p.Q116K	MYO6_uc003pig.1_Missense_Mutation_p.Q116K|MYO6_uc003pii.1_Missense_Mutation_p.Q116K	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	116	Myosin head-like.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		AAAGTCATATCAAGGAAAATC	0.308													4	161	---	---	---	---	PASS	A	76540217	A	A	76540217	3	1	120	1	0	0	0	0	1	0	0	0	10081	827	29	2	360	2	MYO6	6	76540217	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	20050228	76540217	94574850	55	44619										
AIM1	202	broad.mit.edu	37	chr6	106978181	106978181	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gacttgttccatgaaagtacAttggggcacgtaagtatttt	10	6	0	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr6:106978181A>T	uc003prh.2	+	6	3972	c.3485A>T	c.(3484-3486)CAT>CTT	p.H1162L		NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	1162	Beta/gamma crystallin 'Greek key' 3.						sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		ATGAAAGTACATTGGGGCACG	0.348													44	188	---	---	---	---	PASS	T	106978181	T	T	106978181	3	4	120	1	0	0	0	0	1	0	0	0	430	217	8	5	3507	5	AIM1	6	106978181	Missense_Mutation	SNP	A	TCGA-60-2707-01A-01D-1522-08	30437964	106978181	64136886	56	44620										
WISP3	8838	broad.mit.edu	37	chr6	112389555	112389555	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	aatgagaaaagagaaaagacTgtgttacattcagccttgcg	10	6	1	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr6:112389555T>C	uc003pvm.2	+	5	847	c.737T>C	c.(736-738)CTG>CCG	p.L246P	WISP3_uc003pvn.2_RNA|WISP3_uc003pvo.2_Missense_Mutation_p.L264P	NM_003880	NP_003871	O95389	WISP3_HUMAN	WNT1 inducible signaling pathway protein 3	246	TSP type-1.				cell-cell signaling|regulation of cell growth|signal transduction	extracellular region|soluble fraction	growth factor activity|insulin-like growth factor binding				0		all_cancers(87;0.000196)|Acute lymphoblastic leukemia(125;1.18e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0283)|OV - Ovarian serous cystadenocarcinoma(136;0.0613)|Epithelial(106;0.0827)|GBM - Glioblastoma multiforme(226;0.0972)|BRCA - Breast invasive adenocarcinoma(108;0.246)		GAGAAAAGACTGTGTTACATT	0.343													18	55	---	---	---	---	PASS	C	112389555	C	C	112389555	3	2	120	1	0	0	0	0	1	0	0	0	17371	1580	55	5	805	5	WISP3	6	112389555	Missense_Mutation	SNP	T	TCGA-60-2707-01A-01D-1522-08	5411374	112389555	58725512	57	44621										
SYNE1	23345	broad.mit.edu	37	chr6	152777171	152777171	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ttacagttttcttgacaagcTaacagttcctataacgaaat	5	8	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr6:152777171T>C	uc010kiw.2	-	23	3179	c.2577A>G	c.(2575-2577)TTA>TTG	p.L859L	SYNE1_uc003qot.3_Silent_p.L866L|SYNE1_uc003qou.3_Silent_p.L859L|SYNE1_uc010kjb.1_Silent_p.L842L|SYNE1_uc003qow.2_Silent_p.L154L|SYNE1_uc003qox.1_Silent_p.L375L|SYNE1_uc003qoz.2_Silent_p.L291L|SYNE1_uc003qoy.2_Silent_p.L426L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	859	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)		CTTGACAAGCTAACAGTTCCT	0.358										HNSCC(10;0.0054)			30	139	---	---	---	---	PASS	C	152777171	C	C	152777171	2	2	120	1	0	0	0	0	0	0	0	1	15442	1519	53	5		5	SYNE1	6	152777171	Silent	SNP	T	TCGA-60-2707-01A-01D-1522-08	40387616	152777171	18337896	58	44622										
ETV1	2115	broad.mit.edu	37	chr7	13949273	13949273	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctaccatcgaatttttctggGacaacacaggtgtcatcata	7	10	3	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr7:13949273G>C	uc011jxq.1	-	11	1663	c.924C>G	c.(922-924)GTC>GTG	p.V308V	ETV1_uc011jxn.1_Silent_p.V268V|ETV1_uc011jxo.1_Silent_p.V205V|ETV1_uc011jxp.1_Silent_p.V250V|ETV1_uc003ssw.3_Silent_p.V285V|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Silent_p.V290V|ETV1_uc011jxs.1_Silent_p.V290V|ETV1_uc010ktv.2_Missense_Mutation_p.S177C	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	308					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						ATTTTTCTGGGACAACACAGG	0.388			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								14	227	---	---	---	---	PASS	C	13949273	C	C	13949273	2	2	120	1	0	0	0	0	0	0	0	1	5277	1161	41	2		2	ETV1	7	13949273	Silent	SNP	G	TCGA-60-2707-01A-01D-1522-08		13949273	145189390	59	44623										
BMPER	168667	broad.mit.edu	37	chr7	34094781	34094781	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctttgggcccccaggactctActgtggtttgcaagaggaag	13	10	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr7:34094781A>G	uc011kap.1	+	9	907	c.793A>G	c.(793-795)ACT>GCT	p.T265A		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	265	VWFC 4.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						CCAGGACTCTACTGTGGTTTG	0.498													51	180	---	---	---	---	PASS	G	34094781	G	G	34094781	3	3	120	1	0	0	0	0	1	0	0	0	1468	391	14	5	827	5	BMPER	7	34094781	Missense_Mutation	SNP	A	TCGA-60-2707-01A-01D-1522-08	20145508	34094781	125043882	60	44624										
SAMD9L	219285	broad.mit.edu	37	chr7	92764414	92764414	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	attgttctgcagaaggacttCcacaaaccttggctcccgaa	8	12	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr7:92764414C>T	uc003umh.1	-	5	2087	c.871G>A	c.(871-873)GAA>AAA	p.E291K	SAMD9L_uc003umj.1_Missense_Mutation_p.E291K|SAMD9L_uc003umi.1_Missense_Mutation_p.E291K|SAMD9L_uc010lfb.1_Missense_Mutation_p.E291K|SAMD9L_uc003umk.1_Missense_Mutation_p.E291K|SAMD9L_uc010lfc.1_Missense_Mutation_p.E291K|SAMD9L_uc010lfd.1_Missense_Mutation_p.E291K|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	291										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			AGAAGGACTTCCACAAACCTT	0.363													7	350	---	---	---	---	PASS	T	92764414	T	T	92764414	3	4	120	1	0	0	0	0	1	0	0	0	13827	864	30	2	3887	2	SAMD9L	7	92764414	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	58669633	92764414	66374249	61	44625										
FEZF1	389549	broad.mit.edu	37	chr7	121944169	121944169	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	atgcgggagccgagggcaccGccgcgggcgccgccggggcc	20	16	0	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr7:121944169G>T	uc003vkd.2	-	1	397	c.323C>A	c.(322-324)GCG>GAG	p.A108E	FEZF1_uc003vkc.2_Missense_Mutation_p.A108E|uc010lko.1_RNA|uc003vkf.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	108					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						CGAGGGCAccgccgcgggcgc	0.602													7	13	---	---	---	---	PASS	T	121944169	T	T	121944169	3	4	120	1	0	0	0	0	1	0	0	0	5825	1087	38	1	1120	1	FEZF1	7	121944169	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	29179755	121944169	37194494	62	44626										
CUL1	8454	broad.mit.edu	37	chr7	148457552	148457552	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	accagagagagtactgaattCttgcagcagaacccagttac	9	10	1	4			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr7:148457552C>A	uc010lpg.2	+	7	1279	c.753C>A	c.(751-753)TTC>TTA	p.F251L	CUL1_uc003wey.2_Missense_Mutation_p.F251L|CUL1_uc003wez.2_Missense_Mutation_p.F141L	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	251					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GTACTGAATTCTTGCAGCAGA	0.348													6	326	---	---	---	---	PASS	A	148457552	A	A	148457552	3	1	120	1	0	0	0	0	1	0	0	0	4054	912	32	2	775	2	CUL1	7	148457552	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	26513383	148457552	10681111	63	44627										
SSPO	23145	broad.mit.edu	37	chr7	149522435	149522435	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	agtgcccacacagctgtgccGacctctgggaccgcgttcag	12	15	2	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr7:149522435G>A	uc010lpk.2	+	101	14062	c.14062G>A	c.(14062-14064)GAC>AAC	p.D4688N	SSPO_uc010lpm.1_RNA|SSPO_uc003wgg.2_RNA|SSPO_uc003wgh.2_RNA|SSPO_uc003wgi.1_RNA	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	4688	TIL 6.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CAGCTGTGCCGACCTCTGGGA	0.622													30	102	---	---	---	---	PASS	A	149522435	A	A	149522435	3	1	120	1	0	0	0	0	1	0	0	0	15188	1058	37	2	14447	2	SSPO	7	149522435	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	1064883	149522435	9616228	64	44628										
REPIN1	29803	broad.mit.edu	37	chr7	150069612	150069612	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	actcgcgcgtgcactccggcGagcggcccttcgcctgcgag	14	17	0	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr7:150069612G>T	uc010lpq.1	+	4	1771	c.1282G>T	c.(1282-1284)GAG>TAG	p.E428*	REPIN1_uc003whd.2_Nonsense_Mutation_p.E417*|REPIN1_uc010lpr.1_Nonsense_Mutation_p.E485*|REPIN1_uc003whc.2_Nonsense_Mutation_p.E428*|REPIN1_uc003whe.2_Nonsense_Mutation_p.E428*	NM_013400	NP_037532	Q9BWE0	REPI1_HUMAN	replication initiator 1 isoform 1	428					DNA replication	nuclear origin of replication recognition complex	DNA binding|zinc ion binding			pancreas(1)	1	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)			GCACTCCGGCGAGCGGCCCTT	0.731													7	9	---	---	---	---	PASS	T	150069612	T	T	150069612	4	4	120	1	0	0	0	0	0	1	0	0	13227	1059	37	2	1459	2	REPIN1	7	150069612	Nonsense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	547177	150069612	9069051	65	44629										
RNF32	140545	broad.mit.edu	37	chr7	156469341	156469341	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gctaccagaagaagattcttGaatgttgaattcatagtcaa	8	6	3	5			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr7:156469341G>C	uc003wmo.2	+	9	1263	c.1081G>C	c.(1081-1083)GAA>CAA	p.E361Q	RNF32_uc010lqm.2_Missense_Mutation_p.E361Q|RNF32_uc003wmq.2_3'UTR|RNF32_uc003wmr.2_Missense_Mutation_p.E361Q|RNF32_uc003wmu.2_RNA	NM_030936	NP_112198	Q9H0A6	RNF32_HUMAN	ring finger protein 32	361						aggresome|endosome	protein binding|zinc ion binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00291)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		GAAGATTCTTGAATGTTGAAT	0.453													3	91	---	---	---	---	PASS	C	156469341	C	C	156469341	3	2	120	1	0	0	0	0	1	0	0	0	13488	1291	45	2	1111	2	RNF32	7	156469341	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	6399729	156469341	2669322	66	44630										
MYBL1	4603	broad.mit.edu	37	chr8	67488371	67488371	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	cgcatttttctcttctttctGaggatggctggtggagtgct	12	8	3	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr8:67488371G>C	uc003xwj.2	-	10	1748	c.1341C>G	c.(1339-1341)CTC>CTG	p.L447L	MYBL1_uc003xwl.2_Silent_p.L447L|MYBL1_uc003xwk.2_Silent_p.L446L	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog	447	Negative regulatory domain (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			TCTTCTTTCTGAGGATGGCTG	0.448													22	191	---	---	---	---	PASS	C	67488371	C	C	67488371	2	2	120	1	0	0	0	0	0	0	0	1	10009	1277	45	2		2	MYBL1	8	67488371	Silent	SNP	G	TCGA-60-2707-01A-01D-1522-08		67488371	78875651	67	44631										
MMP16	4325	broad.mit.edu	37	chr8	89068417	89068417	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ccaaatggctgaatcaatacCatgagggggaattccacttc	9	10	1	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr8:89068417C>A	uc003yeb.3	-	8	1594	c.1312G>T	c.(1312-1314)GGT>TGT	p.G438C		NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	438	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						GAATCAATACCATGAGGGGGA	0.418													73	145	---	---	---	---	PASS	A	89068417	A	A	89068417	3	1	120	1	0	0	0	0	1	0	0	0	9655	594	21	3	523	3	MMP16	8	89068417	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	21580046	89068417	57295605	68	44632										
MMP16	4325	broad.mit.edu	37	chr8	89198754	89198754	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctgtcctgtcaatgcatatcGctttcgacgaatatgaaatt	7	9	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr8:89198754G>A	uc003yeb.3	-	3	637	c.355C>T	c.(355-357)CGA>TGA	p.R119*	MMP16_uc003yec.2_Nonsense_Mutation_p.R119*	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	119					collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						AATGCATATCGCTTTCGACGA	0.393													15	601	---	---	---	---	PASS	A	89198754	A	A	89198754	4	1	120	1	0	0	0	0	0	1	0	0	9655	1095	38	1	1656	1	MMP16	8	89198754	Nonsense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	130337	89198754	57165268	69	44633										
SLC26A7	115111	broad.mit.edu	37	chr8	92378924	92378924	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	aaggaaaatgcctgtaatcaGccacttgatgatatcagcaa	8	8	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr8:92378924G>T	uc003yex.2	+	15	1883	c.1605G>T	c.(1603-1605)CAG>CAT	p.Q535H	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Missense_Mutation_p.Q535H|SLC26A7_uc003yfa.2_Missense_Mutation_p.Q535H	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	535	STAS.|Cytoplasmic (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)			CCTGTAATCAGCCACTTGATG	0.308													103	201	---	---	---	---	PASS	T	92378924	T	T	92378924	3	4	120	1	0	0	0	0	1	0	0	0	14522	962	34	3	1655	3	SLC26A7	8	92378924	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	3180170	92378924	53985098	70	44634										
RNF19A	25897	broad.mit.edu	37	chr8	101270912	101270912	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tccattgttaccatgttcttCagcaatatgattcaactgtg	6	9	3	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr8:101270912C>T	uc003yjj.1	-	11	2706	c.2389G>A	c.(2389-2391)GAA>AAA	p.E797K	RNF19A_uc003yjk.1_Missense_Mutation_p.E797K	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	797	Interaction with CASR.				microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)			CCATGTTCTTCAGCAATATGA	0.363													15	246	---	---	---	---	PASS	T	101270912	T	T	101270912	3	4	120	1	0	0	0	0	1	0	0	0	13470	835	29	2	131	2	RNF19A	8	101270912	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	8891988	101270912	45093110	71	44635										
PABPC1	26986	broad.mit.edu	37	chr8	101721391	101721391	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ggcaccctgagcagtccagcGaggacttggtcttagttgag	14	10	1	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr8:101721391G>A	uc003yjs.1	-	9	1810	c.1306C>T	c.(1306-1308)CGC>TGC	p.R436C	PABPC1_uc011lhc.1_Missense_Mutation_p.R404C|PABPC1_uc011lhd.1_Missense_Mutation_p.R391C|PABPC1_uc003yjt.1_Missense_Mutation_p.R433C|PABPC1_uc003yju.2_RNA	NM_002568	NP_002559	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	436					mRNA polyadenylation|mRNA stabilization|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|translation	catalytic step 2 spliceosome|cytosol	nucleotide binding|poly(A) RNA binding|protein C-terminus binding|translation activator activity				0	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			GCAGTCCAGCGAGGACTTGGT	0.418													8	390	---	---	---	---	PASS	A	101721391	A	A	101721391	3	1	120	1	0	0	0	0	1	0	0	0	11363	1058	37	2	628	2	PABPC1	8	101721391	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	450479	101721391	44642631	72	44636										
SCRIB	23513	broad.mit.edu	37	chr8	144885849	144885849	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gatgccctcgtctgtggggtCgcgggggttgccagcgtggc	19	11	1	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr8:144885849C>T	uc003yzp.1	-	23	3389	c.3382G>A	c.(3382-3384)GAC>AAC	p.D1128N	SCRIB_uc003yzn.1_5'UTR|SCRIB_uc003yzo.1_Missense_Mutation_p.D1128N	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	1128	PDZ 4.|Interaction with ARHGEF7.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			TCTGTGGGGTCGCGGGGGTTG	0.701													11	9	---	---	---	---	PASS	T	144885849	T	T	144885849	3	4	120	1	0	0	0	0	1	0	0	0	13937	884	31	2	1645	2	SCRIB	8	144885849	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	43164458	144885849	1478173	73	44637										
TRPM6	140803	broad.mit.edu	37	chr9	77422954	77422954	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ttttcaattactctaccttgTattttctgtagaggttgttg	7	6	3	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr9:77422954T>C	uc004ajl.1	-	14	1872	c.1634A>G	c.(1633-1635)TAC>TGC	p.Y545C	TRPM6_uc004ajk.1_Missense_Mutation_p.Y540C|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.Y545C|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	545	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						CTCTACCTTGTATTTTCTGTA	0.368													10	287	---	---	---	---	PASS	C	77422954	C	C	77422954	3	2	120	1	0	0	0	0	1	0	0	0	16587	1638	57	5	4538	5	TRPM6	9	77422954	Missense_Mutation	SNP	T	TCGA-60-2707-01A-01D-1522-08		77422954	63790477	74	44638										
PRUNE2	158471	broad.mit.edu	37	chr9	79321922	79321922	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctgctttgttgattgtcacaGaatgggtttgacttattctc	9	7	2	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr9:79321922G>C	uc010mpk.2	-	8	5392	c.5268C>G	c.(5266-5268)TTC>TTG	p.F1756L	PRUNE2_uc004akj.3_5'Flank|PRUNE2_uc010mpl.1_5'Flank	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1756					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						GATTGTCACAGAATGGGTTTG	0.428													5	137	---	---	---	---	PASS	C	79321922	C	C	79321922	3	2	120	1	0	0	0	0	1	0	0	0	12641	933	33	2	4046	2	PRUNE2	9	79321922	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	1898968	79321922	61891509	75	44639										
IARS	3376	broad.mit.edu	37	chr9	94991310	94991310	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	atcatggaagacagccagctCtgtatttttcacaccaaaaa	6	10	3	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr9:94991310C>G	uc004art.1	-	31	3639	c.3382G>C	c.(3382-3384)GAG>CAG	p.E1128Q	IARS_uc004ars.1_Intron|IARS_uc004aru.3_Missense_Mutation_p.E1128Q|IARS_uc010mqr.2_Missense_Mutation_p.E1018Q|IARS_uc010mqt.2_Missense_Mutation_p.E351Q	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	1128					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	ACAGCCAGCTCTGTATTTTTC	0.428													17	319	---	---	---	---	PASS	G	94991310	G	G	94991310	3	3	120	1	0	0	0	0	1	0	0	0	7473	922	32	2	422	2	IARS	9	94991310	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	15669388	94991310	46222121	76	44640										
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112898755	112898755	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	acaatggaacatcctccccaGagcctggtgcagtggttctg	11	12	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr9:112898755G>T	uc004bei.2	+	9	1819	c.1627G>T	c.(1627-1629)GAG>TAG	p.E543*	PALM2-AKAP2_uc004bek.3_Nonsense_Mutation_p.E311*|PALM2-AKAP2_uc004bej.3_Nonsense_Mutation_p.E311*|PALM2-AKAP2_uc004bel.1_Nonsense_Mutation_p.E121*|AKAP2_uc011lwi.1_Nonsense_Mutation_p.E169*|AKAP2_uc004bem.2_Nonsense_Mutation_p.E169*|PALM2-AKAP2_uc010mtw.1_Nonsense_Mutation_p.E129*|AKAP2_uc011lwj.1_Nonsense_Mutation_p.E80*|PALM2-AKAP2_uc004ben.2_Nonsense_Mutation_p.E80*	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	80							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						ATCCTCCCCAGAGCCTGGTGC	0.577													70	150	---	---	---	---	PASS	T	112898755	T	T	112898755	4	4	120	1	0	0	0	0	0	1	0	0	11410	943	33	2	961	2	PALM2-AKAP2	9	112898755	Nonsense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	17907445	112898755	28314676	77	44641										
COBRA1	25920	broad.mit.edu	37	chr9	140150833	140150833	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gcttttctctggtgaagatgCcgtccctgcagcccgtggtg	13	12	1	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr9:140150833C>T	uc004cmm.3	+	3	522	c.319C>T	c.(319-321)CCG>TCG	p.P107S		NM_015456	NP_056271	Q8WX92	NELFB_HUMAN	cofactor of BRCA1	107					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleoplasm	protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.137)	OV - Ovarian serous cystadenocarcinoma(145;9.42e-05)|Epithelial(140;0.000766)		GGTGAAGATGCCGTCCCTGCA	0.572													4	115	---	---	---	---	PASS	T	140150833	T	T	140150833	3	4	120	1	0	0	0	0	1	0	0	0	3655	739	26	3	329	3	COBRA1	9	140150833	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	27252078	140150833	1062598	78	44642										
CUBN	8029	broad.mit.edu	37	chr10	17142197	17142197	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	aactcgtgtggacagttgtcCatggattctaaccggaaaaa	10	8	1	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr10:17142197C>A	uc001ioo.2	-	14	1624	c.1572G>T	c.(1570-1572)ATG>ATT	p.M524I		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	524	CUB 1.				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)	GACAGTTGTCCATGGATTCTA	0.383													44	119	---	---	---	---	PASS	A	17142197	A	A	17142197	3	1	120	1	0	0	0	0	1	0	0	0	4051	594	21	3	9515	3	CUBN	10	17142197	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08		17142197	118392550	79	44643										
ST8SIA6	338596	broad.mit.edu	37	chr10	17432598	17432598	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	catttctccgtcagttggagCgacttctcattcagatatgt	8	10	4	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr10:17432598C>A	uc001ipd.2	-	3	222	c.222G>T	c.(220-222)TCG>TCT	p.S74S	ST8SIA6_uc010qce.1_RNA|uc001ipe.2_Intron|uc001ipf.1_Intron	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	74	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						TCAGTTGGAGCGACTTCTCAT	0.308													73	270	---	---	---	---	PASS	A	17432598	A	A	17432598	2	1	120	1	0	0	0	0	0	0	0	1	15235	755	27	1		1	ST8SIA6	10	17432598	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	290401	17432598	118102149	80	44644										
SLC39A12	221074	broad.mit.edu	37	chr10	18254544	18254544	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gtgtttgtctgggacaaggaAacttgccttccccagactac	10	11	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr10:18254544A>G	uc001ipo.2	+	4	949	c.676A>G	c.(676-678)AAC>GAC	p.N226D	SLC39A12_uc001ipn.2_Missense_Mutation_p.N226D|SLC39A12_uc001ipp.2_Missense_Mutation_p.N226D|SLC39A12_uc010qck.1_Missense_Mutation_p.N92D	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	226	Cytoplasmic (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						GGGACAAGGAAACTTGCCTTC	0.438													36	89	---	---	---	---	PASS	G	18254544	G	G	18254544	3	3	120	1	0	0	0	0	1	0	0	0	14615	14	1	5	686	5	SLC39A12	10	18254544	Missense_Mutation	SNP	A	TCGA-60-2707-01A-01D-1522-08	821946	18254544	117280203	81	44645										
ERCC6	2074	broad.mit.edu	37	chr10	50690811	50690811	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ataaacacaggcaacgtgccTaactttcccgggaagatgaa	9	10	0	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr10:50690811T>A	uc001jhs.3	-	10	2245	c.2091A>T	c.(2089-2091)TTA>TTT	p.L697F	ERCC6_uc010qgr.1_Missense_Mutation_p.L67F|ERCC6_uc001jhr.3_Missense_Mutation_p.L97F	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	697					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						GCAACGTGCCTAACTTTCCCG	0.483								Direct_reversal_of_damage|NER					39	136	---	---	---	---	PASS	A	50690811	A	A	50690811	3	1	120	1	0	0	0	0	1	0	0	0	5217	1519	53	5	2438	5	ERCC6	10	50690811	Missense_Mutation	SNP	T	TCGA-60-2707-01A-01D-1522-08	32436267	50690811	84843936	82	44646										
CHAT	1103	broad.mit.edu	37	chr10	50856640	50856640	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tggtgcagtgcactgagcatCtgctcaagcacgtgtgagtc	13	10	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr10:50856640C>A	uc001jhz.2	+	9	1522	c.1369C>A	c.(1369-1371)CTG>ATG	p.L457M	CHAT_uc001jhv.1_Missense_Mutation_p.L339M|CHAT_uc001jhx.1_Missense_Mutation_p.L339M|CHAT_uc001jhy.1_Missense_Mutation_p.L339M|CHAT_uc001jia.2_Missense_Mutation_p.L339M|CHAT_uc010qgs.1_Missense_Mutation_p.L339M	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	457					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	CACTGAGCATCTGCTCAAGCA	0.582													17	34	---	---	---	---	PASS	A	50856640	A	A	50856640	3	1	120	1	0	0	0	0	1	0	0	0	3313	912	32	2	1447	2	CHAT	10	50856640	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	165829	50856640	84678107	83	44647										
DLG5	9231	broad.mit.edu	37	chr10	79581516	79581516	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gtggccgccggccacgcacgTccaccagcccaaagccacgg	12	19	0	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr10:79581516T>C	uc001jzk.2	-	15	2796	c.2726A>G	c.(2725-2727)GAC>GGC	p.D909G	DLG5_uc001jzi.2_5'Flank|DLG5_uc001jzj.2_Intron|DLG5_uc009xru.1_RNA|DLG5_uc001jzl.3_Missense_Mutation_p.D513G	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	909					cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			GCCACGCACGTCCACCAGCCC	0.677													12	11	---	---	---	---	PASS	C	79581516	C	C	79581516	3	2	120	1	0	0	0	0	1	0	0	0	4558	1667	58	5	3105	5	DLG5	10	79581516	Missense_Mutation	SNP	T	TCGA-60-2707-01A-01D-1522-08	28724876	79581516	55953231	84	44648										
GRID1	2894	broad.mit.edu	37	chr10	87628874	87628874	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tgcagacggaaagatttgccGgaccacggtcatccttccaa	10	12	1	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr10:87628874G>A	uc001kdl.1	-	6	945	c.844C>T	c.(844-846)CGG>TGG	p.R282W	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	282	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	AAGATTTGCCGGACCACGGTC	0.537										Multiple Myeloma(13;0.14)			12	243	---	---	---	---	PASS	A	87628874	A	A	87628874	3	1	120	1	0	0	0	0	1	0	0	0	6771	1115	39	1	2229	1	GRID1	10	87628874	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	8047358	87628874	47905873	85	44649										
PTEN	5728	broad.mit.edu	37	chr10	89685287	89685287	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	aaggtttttggattcaaagcAtaaaaaccattacaagatat	6	5	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr10:89685287A>G	uc001kfb.2	+	4	1213	c.182A>G	c.(181-183)CAT>CGT	p.H61R		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	61	Phosphatase tensin-type.		H -> R (loss of phosphatase activity towards Ins(1,3,4,5)P4).|H -> D (in VATER).		activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.H61R(6)|p.?(4)|p.R55fs*1(4)|p.Y27fs*1(2)|p.Y27_N212>Y(2)|p.H61P(1)|p.H61L(1)|p.V54fs*29(1)|p.R55_L70>S(1)|p.F56fs*2(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		GATTCAAAGCATAAAAACCAT	0.259		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			10	26	---	---	---	---	PASS	G	89685287	G	G	89685287	3	3	120	1	0	0	0	0	1	0	0	0	12738	217	8	5	192	5	PTEN	10	89685287	Missense_Mutation	SNP	A	TCGA-60-2707-01A-01D-1522-08	2056413	89685287	45849460	86	44650										
HBD	3045	broad.mit.edu	37	chr11	5255418	5255418	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	aaaggactcaaagaacctctGggtccaagggtagaccacca	10	11	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr11:5255418G>T	uc001maf.1	-	2	313	c.118C>A	c.(118-120)CAG>AAG	p.Q40K		NM_000519	NP_000510	P02042	HBD_HUMAN	delta globin	40					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity	p.Q40H(1)		ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;5.69e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAGAACCTCTGGGTCCAAGGG	0.512													44	105	---	---	---	---	PASS	T	5255418	T	T	5255418	3	4	120	1	0	0	0	0	1	0	0	0	6979	1357	47	3	333	3	HBD	11	5255418	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08		5255418	129751098	87	44651										
AMPD3	272	broad.mit.edu	37	chr11	10483250	10483250	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	aggagagggagctgcagaagGagctggcagagcagaagtct	18	6	1	4			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr11:10483250G>T	uc001mio.1	+	2	519	c.184G>T	c.(184-186)GAG>TAG	p.E62*	AMPD3_uc010rbz.1_5'UTR|AMPD3_uc001min.1_Nonsense_Mutation_p.E71*|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfx.1_Nonsense_Mutation_p.E62*|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Nonsense_Mutation_p.E69*|AMPD3_uc009yfy.2_Nonsense_Mutation_p.E62*	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	62					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		GCTGCAGAAGGAGCTGGCAGA	0.562													14	35	---	---	---	---	PASS	T	10483250	T	T	10483250	4	4	120	1	0	0	0	0	0	1	0	0	587	1175	41	2	237	2	AMPD3	11	10483250	Nonsense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	5227832	10483250	124523266	88	44652										
ANO3	63982	broad.mit.edu	37	chr11	26568986	26568986	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	atactttggtgagaagattgGactatactttgcttggctgg	12	5	0	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr11:26568986G>C	uc001mqt.3	+	12	1323	c.1178G>C	c.(1177-1179)GGA>GCA	p.G393A	ANO3_uc010rdr.1_Missense_Mutation_p.G377A|ANO3_uc010rds.1_Missense_Mutation_p.G232A|ANO3_uc010rdt.1_Missense_Mutation_p.G247A	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	393	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GAGAAGATTGGACTATACTTT	0.373													12	527	---	---	---	---	PASS	C	26568986	C	C	26568986	3	2	120	1	0	0	0	0	1	0	0	0	698	1174	41	2	1224	2	ANO3	11	26568986	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	16085736	26568986	108437530	89	44653										
OR10AG1	282770	broad.mit.edu	37	chr11	55735361	55735361	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	accgtgataaacaccaccgcTactacatggactgttatctc	6	13	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr11:55735361T>A	uc010rit.1	-	1	579	c.579A>T	c.(577-579)GTA>GTT	p.V193V		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	193	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					ACACCACCGCTACTACATGGA	0.393													34	96	---	---	---	---	PASS	A	55735361	A	A	55735361	2	1	120	1	0	0	0	0	0	0	0	1	10897	1509	53	5		5	OR10AG1	11	55735361	Silent	SNP	T	TCGA-60-2707-01A-01D-1522-08	29166375	55735361	79271155	90	44654										
SLC43A3	29015	broad.mit.edu	37	chr11	57176681	57176681	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ttctgaagggagcctttgatGagggtgaagatggggaactg	17	4	1	5			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr11:57176681G>T	uc001nkg.2	-	13	1748	c.1338C>A	c.(1336-1338)CTC>CTA	p.L446L	PRG2_uc001nke.2_Intron|SLC43A3_uc001nkh.2_Silent_p.L446L|SLC43A3_uc010rjr.1_Silent_p.L459L|SLC43A3_uc009yme.2_Silent_p.L446L|SLC43A3_uc001nki.2_Silent_p.L446L	NM_014096	NP_054815	Q8NBI5	S43A3_HUMAN	solute carrier family 43, member 3	446	Helical; (Potential).				transmembrane transport	integral to membrane				central_nervous_system(1)	1						AGCCTTTGATGAGGGTGAAGA	0.572													7	241	---	---	---	---	PASS	T	57176681	T	T	57176681	2	4	120	1	0	0	0	0	0	0	0	1	14634	1277	45	2		2	SLC43A3	11	57176681	Silent	SNP	G	TCGA-60-2707-01A-01D-1522-08	1441320	57176681	77829835	91	44655										
ALG9	79796	broad.mit.edu	37	chr11	111724408	111724408	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gccatcagcgaccaatgaaaGaaactcttccacctgtgttt	7	12	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr11:111724408G>C	uc001pmb.2	-	8	852	c.753C>G	c.(751-753)TTC>TTG	p.F251L	ALG9_uc001ply.2_Missense_Mutation_p.F80L|ALG9_uc001plz.2_Missense_Mutation_p.F80L|ALG9_uc010rwm.1_Missense_Mutation_p.F251L|ALG9_uc010rwn.1_Missense_Mutation_p.F205L|ALG9_uc010rwo.1_Missense_Mutation_p.F79L|ALG9_uc009yyh.1_Missense_Mutation_p.F146L	NM_001077690	NP_001071158	Q9H6U8	ALG9_HUMAN	asparagine-linked glycosylation 9 protein	251	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			large_intestine(1)|ovary(1)	2		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;6.81e-07)|BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|all cancers(92;1.3e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0587)		ACCAATGAAAGAAACTCTTCC	0.373													5	223	---	---	---	---	PASS	C	111724408	C	C	111724408	3	2	120	1	0	0	0	0	1	0	0	0	524	933	33	2	1139	2	ALG9	11	111724408	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	54547727	111724408	23282108	92	44656										
ETS1	2113	broad.mit.edu	37	chr11	128360395	128360395	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tgttctttagtgaaaccactGaaagtagcttttaatgcttg	8	6	1	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr11:128360395G>A	uc010sbs.1	-	2	475	c.159C>T	c.(157-159)TTC>TTT	p.F53F	ETS1_uc001qej.2_Silent_p.F97F|ETS1_uc009zch.2_Intron|ETS1_uc009zcg.2_Silent_p.F53F	NM_005238	NP_005229	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	53	PNT.				cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)		TGAAACCACTGAAAGTAGCTT	0.408													12	212	---	---	---	---	PASS	A	128360395	A	A	128360395	2	1	120	1	0	0	0	0	0	0	0	1	5275	1281	45	2		2	ETS1	11	128360395	Silent	SNP	G	TCGA-60-2707-01A-01D-1522-08	16635987	128360395	6646121	93	44657										
BARX2	8538	broad.mit.edu	37	chr11	129321248	129321248	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gatggcagagccaccagaccCgccccaggagttgccaatac	11	15	0	2	rs146199848	byFrequency	TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr11:129321248C>A	uc001qfc.3	+	4	841	c.791C>A	c.(790-792)CCG>CAG	p.P264Q		NM_003658	NP_003649	Q9UMQ3	BARX2_HUMAN	BarH-like homeobox 2	264											0	all_hematologic(175;0.0749)	Lung NSC(97;0.000383)|all_lung(97;0.000824)|Breast(109;0.000962)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.00929)|Lung(977;0.0245)|LUSC - Lung squamous cell carcinoma(976;0.0253)		CCACCAGACCCGCCCCAGGAG	0.567													32	80	---	---	---	---	PASS	A	129321248	A	A	129321248	3	1	120	1	0	0	0	0	1	0	0	0	1316	652	23	1	805	1	BARX2	11	129321248	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	960853	129321248	5685268	94	44658										
ADAMTS8	11095	broad.mit.edu	37	chr11	130286846	130286846	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	aaatcttacctagttcatggGccagggtgtgggccgcctgg	14	10	2	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr11:130286846G>A	uc001qgg.3	-	3	1443	c.1085C>T	c.(1084-1086)GCC>GTC	p.A362V		NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	362	Peptidase M12B.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		TAGTTCATGGGCCAGGGTGTG	0.557													78	281	---	---	---	---	PASS	A	130286846	A	A	130286846	3	1	120	1	0	0	0	0	1	0	0	0	272	1203	42	3	1612	3	ADAMTS8	11	130286846	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	965598	130286846	4719670	95	44659										
CLEC4A	50856	broad.mit.edu	37	chr12	8290778	8290778	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	agtgatcccaatgagcgctgCgttgtgctaaattttcgtaa	10	8	0	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr12:8290778C>T	uc001qtz.1	+	6	856	c.609C>T	c.(607-609)TGC>TGT	p.C203C	CLEC4A_uc009zga.1_Silent_p.C164C|CLEC4A_uc001qub.1_Silent_p.C170C|CLEC4A_uc001quc.1_Silent_p.C131C|CLEC4A_uc009zgb.1_3'UTR	NM_016184	NP_057268	Q9UMR7	CLC4A_HUMAN	C-type lectin domain family 4, member A isoform	203	Extracellular (Potential).|C-type lectin.				cell adhesion|cell surface receptor linked signaling pathway|innate immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0				Kidney(36;0.0915)		ATGAGCGCTGCGTTGTGCTAA	0.443													11	175	---	---	---	---	PASS	T	8290778	T	T	8290778	2	4	120	1	0	0	0	0	0	0	0	1	3512	776	27	1		1	CLEC4A	12	8290778	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08		8290778	125561117	96	44660										
PLEKHA5	54477	broad.mit.edu	37	chr12	19501339	19501339	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gtcttcctttcaagggtccaGattatagactctacaagagt	8	9	3	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr12:19501339G>A	uc001reb.2	+	19	2493	c.2407G>A	c.(2407-2409)GAT>AAT	p.D803N	PLEKHA5_uc010sie.1_Missense_Mutation_p.D964N|PLEKHA5_uc001rea.2_Missense_Mutation_p.D861N|PLEKHA5_uc009zin.2_Missense_Mutation_p.D561N|PLEKHA5_uc010sif.1_Missense_Mutation_p.D792N|PLEKHA5_uc010sig.1_Missense_Mutation_p.D785N|PLEKHA5_uc010sih.1_Missense_Mutation_p.D758N|PLEKHA5_uc001rec.1_Missense_Mutation_p.D612N|PLEKHA5_uc009zio.2_Intron	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	803							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					CAAGGGTCCAGATTATAGACT	0.333													4	179	---	---	---	---	PASS	A	19501339	A	A	19501339	3	1	120	1	0	0	0	0	1	0	0	0	12059	942	33	2	2799	2	PLEKHA5	12	19501339	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	11210561	19501339	114350556	97	44661										
TSPAN11	441631	broad.mit.edu	37	chr12	31135496	31135496	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tgtggaagcaacagctcagcCgactggcagcacagcacgta	12	12	1	0	rs138636959	byFrequency	TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr12:31135496C>T	uc010sju.1	+	6	866	c.486C>T	c.(484-486)GCC>GCT	p.A162A	TSPAN11_uc001rjp.2_Silent_p.A162A|TSPAN11_uc010sjv.1_Silent_p.A152A	NM_001080509	NP_001073978	A1L157	TSN11_HUMAN	tetraspanin 11	162						integral to membrane					0	all_lung(12;3.11e-10)|Lung NSC(12;5.24e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					ACAGCTCAGCCGACTGGCAGC	0.657													4	46	---	---	---	---	PASS	T	31135496	T	T	31135496	2	4	120	1	0	0	0	0	0	0	0	1	16632	639	23	1		1	TSPAN11	12	31135496	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	11634157	31135496	102716399	98	44662										
KIF21A	55605	broad.mit.edu	37	chr12	39756974	39756974	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gggacatgtgtggccctcttGctcttgtctcccaaggcact	11	13	3	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr12:39756974G>C	uc001rly.2	-	7	1091	c.945C>G	c.(943-945)AGC>AGG	p.S315R	KIF21A_uc001rlx.2_Missense_Mutation_p.S315R|KIF21A_uc001rlz.2_Missense_Mutation_p.S315R|KIF21A_uc010skl.1_Missense_Mutation_p.S315R|KIF21A_uc001rma.1_Missense_Mutation_p.S323R	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	315					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TGGCCCTCTTGCTCTTGTCTC	0.388													75	200	---	---	---	---	PASS	C	39756974	C	C	39756974	3	2	120	1	0	0	0	0	1	0	0	0	8288	1310	46	4	4207	4	KIF21A	12	39756974	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	8621478	39756974	94094921	99	44663										
ADAMTS20	80070	broad.mit.edu	37	chr12	43824238	43824238	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctcattgacacatttaacatCtcgcatctgatacccatgtc	4	13	3	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr12:43824238C>T	uc010skx.1	-	23	3298	c.3298G>A	c.(3298-3300)GAT>AAT	p.D1100N	ADAMTS20_uc001rno.1_Missense_Mutation_p.D254N|ADAMTS20_uc001rnp.1_Missense_Mutation_p.D254N	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1100	TSP type-1 6.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CATTTAACATCTCGCATCTGA	0.388													13	69	---	---	---	---	PASS	T	43824238	T	T	43824238	3	4	120	1	0	0	0	0	1	0	0	0	266	913	32	2	2501	2	ADAMTS20	12	43824238	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	4067264	43824238	90027657	100	44664										
DGKA	1606	broad.mit.edu	37	chr12	56346885	56346885	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gcaattgagatgggccaaatCtataccaagctcaagaatgc	9	9	2	2	rs1395282		TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr12:56346885C>G	uc001sij.2	+	22	2268	c.2004C>G	c.(2002-2004)ATC>ATG	p.I668M	DGKA_uc001sik.2_Missense_Mutation_p.I668M|DGKA_uc001sil.2_Missense_Mutation_p.I668M|DGKA_uc001sim.2_Missense_Mutation_p.I668M|DGKA_uc001sin.2_Missense_Mutation_p.I668M|DGKA_uc009zof.2_Missense_Mutation_p.I314M|DGKA_uc001sio.2_Missense_Mutation_p.I410M	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	668					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	TGGGCCAAATCTATACCAAGC	0.522													11	133	---	---	---	---	PASS	G	56346885	G	G	56346885	3	3	120	1	0	0	0	0	1	0	0	0	4465	903	32	2	2086	2	DGKA	12	56346885	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	12522647	56346885	77505010	101	44665										
OXA1L	5018	broad.mit.edu	37	chr14	23240354	23240354	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	acatgacctggacaaattacCtccacgggaaggcttcctag	9	12	0	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr14:23240354C>A	uc001wgn.2	+	8	1247	c.1247C>A	c.(1246-1248)CCT>CAT	p.P416H	OXA1L_uc001wgo.2_RNA|OXA1L_uc010akc.2_Missense_Mutation_p.P416H|OXA1L_uc001wgp.2_Missense_Mutation_p.P340H|OXA1L_uc001wgq.2_Missense_Mutation_p.P120H	NM_005015	NP_005006	Q15070	OXA1L_HUMAN	oxidase (cytochrome c) assembly 1-like	356	Mitochondrial matrix (Potential).				aerobic respiration|mitochondrial proton-transporting ATP synthase complex assembly|mitochondrial respiratory chain complex I assembly|negative regulation of ATPase activity|negative regulation of oxidoreductase activity|protein insertion into membrane|protein tetramerization	integral to mitochondrial membrane|mitochondrial respiratory chain|protein complex	protein homodimerization activity|ribosome binding			central_nervous_system(1)	1	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.0096)		GACAAATTACCTCCACGGGAA	0.463													4	194	---	---	---	---	PASS	A	23240354	A	A	23240354	3	1	120	1	0	0	0	0	1	0	0	0	11328	681	24	3	1277	3	OXA1L	14	23240354	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08		23240354	84109186	102	44666										
HSPA2	3306	broad.mit.edu	37	chr14	65008837	65008837	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tcaagaggaacaccacgatcCccaccaagcagacgcagacc	8	16	1	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr14:65008837C>A	uc001xhj.2	+	2	1346	c.1270C>A	c.(1270-1272)CCC>ACC	p.P424T	HSPA2_uc001xhk.3_Missense_Mutation_p.P424T	NM_021979	NP_068814	P54652	HSP72_HUMAN	heat shock 70kDa protein 2	424					response to unfolded protein|spermatid development	cell surface	ATP binding|unfolded protein binding			skin(1)	1				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)		CACCACGATCCCCACCAAGCA	0.587													37	80	---	---	---	---	PASS	A	65008837	A	A	65008837	3	1	120	1	0	0	0	0	1	0	0	0	7411	623	22	3	1272	3	HSPA2	14	65008837	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	41768483	65008837	42340703	103	44667										
MPP5	64398	broad.mit.edu	37	chr14	67746180	67746180	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ccaaattcctccaaagaccgGaatagataaccctatgtttg	6	11	0	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr14:67746180G>A	uc001xjc.2	+	3	759	c.293G>A	c.(292-294)GGA>GAA	p.G98E	MPP5_uc001xjd.2_Missense_Mutation_p.G64E|MPP5_uc001xjb.1_Missense_Mutation_p.G98E	NM_022474	NP_071919	Q8N3R9	MPP5_HUMAN	membrane protein, palmitoylated 5	98	Interaction with PARD6B (By similarity).				tight junction assembly	cytoplasm|endomembrane system|tight junction	protein domain specific binding			ovary(1)	1				all cancers(60;0.000388)|OV - Ovarian serous cystadenocarcinoma(108;0.00762)|BRCA - Breast invasive adenocarcinoma(234;0.0106)		CCAAAGACCGGAATAGATAAC	0.378													6	212	---	---	---	---	PASS	A	67746180	A	A	67746180	3	1	120	1	0	0	0	0	1	0	0	0	9737	1174	41	2	295	2	MPP5	14	67746180	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	2737343	67746180	39603360	104	44668										
ADAM21	8747	broad.mit.edu	37	chr14	70925837	70925837	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	attctcagggaaaccgttttGgtcactgtggtataaatggc	11	7	2	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr14:70925837G>T	uc001xmd.2	+	1	1621	c.1621G>T	c.(1621-1623)GGT>TGT	p.G541C		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	541	Cys-rich.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		AAACCGTTTTGGTCACTGTGG	0.378													8	262	---	---	---	---	PASS	T	70925837	T	T	70925837	3	4	120	1	0	0	0	0	1	0	0	0	243	1348	47	3	1623	3	ADAM21	14	70925837	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	3179657	70925837	36423703	105	44669										
ESRRB	2103	broad.mit.edu	37	chr14	76949083	76949083	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gagcttgtggtcatcattggCtgggccaagcacatcccagg	13	11	2	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr14:76949083C>A	uc001xsq.1	+	5	835	c.768C>A	c.(766-768)GGC>GGA	p.G256G	ESRRB_uc001xsr.2_Silent_p.G256G|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	256						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		TCATCATTGGCTGGGCCAAGC	0.607													6	162	---	---	---	---	PASS	A	76949083	A	A	76949083	2	1	120	1	0	0	0	0	0	0	0	1	5261	784	28	3		3	ESRRB	14	76949083	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	6023246	76949083	30400457	106	44670										
GALC	2581	broad.mit.edu	37	chr14	88417033	88417033	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ttaagaacaaaggtggcaaaTtgttgtgacacattgaaata	9	4	0	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr14:88417033T>C	uc001xvt.2	-	11	1620	c.1221A>G	c.(1219-1221)CAA>CAG	p.Q407Q	GALC_uc010tvw.1_RNA|GALC_uc010tvx.1_Silent_p.Q381Q|GALC_uc010tvy.1_Silent_p.Q384Q|GALC_uc010tvz.1_Silent_p.Q351Q	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	407					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0						AGGTGGCAAATTGTTGTGACA	0.289													17	67	---	---	---	---	PASS	C	88417033	C	C	88417033	2	2	120	1	0	0	0	0	0	0	0	1	6201	1490	52	5		5	GALC	14	88417033	Silent	SNP	T	TCGA-60-2707-01A-01D-1522-08	11467950	88417033	18932507	107	44671										
HERC2	8924	broad.mit.edu	37	chr15	28518105	28518105	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gccaagtgctggtcctgcagGgggatgcttcctggcccttt	14	12	0	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr15:28518105G>T	uc001zbj.2	-	8	952	c.846C>A	c.(844-846)CCC>CCA	p.P282P	HERC2_uc001zbl.1_5'UTR	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	282					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GGTCCTGCAGGGGGATGCTTC	0.602													15	115	---	---	---	---	PASS	T	28518105	T	T	28518105	2	4	120	1	0	0	0	0	0	0	0	1	7058	1219	43	3		3	HERC2	15	28518105	Silent	SNP	G	TCGA-60-2707-01A-01D-1522-08		28518105	74013287	108	44672										
RYR3	6263	broad.mit.edu	37	chr15	33923440	33923440	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ggccctggggtgccacattgCtcatgttaacccagctgctg	12	13	1	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr15:33923440C>A	uc001zhi.2	+	23	2883	c.2813C>A	c.(2812-2814)GCT>GAT	p.A938D	RYR3_uc010bar.2_Missense_Mutation_p.A938D	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	938	4 X approximate repeats.|1.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGCCACATTGCTCATGTTAAC	0.448													3	20	---	---	---	---	PASS	A	33923440	A	A	33923440	3	1	120	1	0	0	0	0	1	0	0	0	13770	797	28	3	2903	3	RYR3	15	33923440	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	5405335	33923440	68607952	109	44673										
ZNF280D	54816	broad.mit.edu	37	chr15	56981653	56981653	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	aaggacgttttgataaaaatGaactttcactcatacctaca	5	8	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr15:56981653G>T	uc002adu.2	-	8	732	c.515C>A	c.(514-516)TCA>TAA	p.S172*	ZNF280D_uc002adv.2_Nonsense_Mutation_p.S159*|ZNF280D_uc010bfq.2_Nonsense_Mutation_p.S172*|ZNF280D_uc002adw.1_Nonsense_Mutation_p.S200*|ZNF280D_uc010bfr.1_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		TGATAAAAATGAACTTTCACT	0.274													8	47	---	---	---	---	PASS	T	56981653	T	T	56981653	4	4	120	1	0	0	0	0	0	1	0	0	17814	1294	45	2	2484	2	ZNF280D	15	56981653	Nonsense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	23058213	56981653	45549739	110	44674										
TBC1D21	161514	broad.mit.edu	37	chr15	74176528	74176528	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ttatgccaaatgtatgagaaGattcagccccttctggaaaa	8	8	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr15:74176528G>C	uc002avz.2	+	4	392	c.309G>C	c.(307-309)AAG>AAC	p.K103N	TBC1D21_uc010ulc.1_Missense_Mutation_p.K67N	NM_153356	NP_699187	Q8IYX1	TBC21_HUMAN	TBC1 domain family, member 21	103	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			ovary(2)	2						TGTATGAGAAGATTCAGCCCC	0.507													61	157	---	---	---	---	PASS	C	74176528	C	C	74176528	3	2	120	1	0	0	0	0	1	0	0	0	15607	933	33	2	323	2	TBC1D21	15	74176528	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	17194875	74176528	28354864	111	44675										
ALPK3	57538	broad.mit.edu	37	chr15	85405926	85405926	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gggtctggctgactctggctGctggggggacaagctctttg	17	9	3	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr15:85405926G>A	uc002ble.2	+	10	4963	c.4796G>A	c.(4795-4797)TGC>TAC	p.C1599Y	ALPK3_uc010upc.1_5'Flank	NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1599	Alpha-type protein kinase.				heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GACTCTGGCTGCTGGGGGGAC	0.582													48	104	---	---	---	---	PASS	A	85405926	A	A	85405926	3	1	120	1	0	0	0	0	1	0	0	0	546	1319	46	3	4834	3	ALPK3	15	85405926	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	11229398	85405926	17125466	112	44676										
ALPK3	57538	broad.mit.edu	37	chr15	85406841	85406841	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	aatcttcgcagcagaagcccGggccgcgcctggctttgggg	15	13	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr15:85406841G>T	uc002ble.2	+	11	5242	c.5075G>T	c.(5074-5076)CGG>CTG	p.R1692L	ALPK3_uc010upc.1_5'Flank	NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1692	Alpha-type protein kinase.				heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GCAGAAGCCCGGGCCGCGCCT	0.552													15	55	---	---	---	---	PASS	T	85406841	T	T	85406841	3	4	120	1	0	0	0	0	1	0	0	0	546	1116	39	1	5117	1	ALPK3	15	85406841	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	915	85406841	17124551	113	44677										
CHD2	1106	broad.mit.edu	37	chr15	93498730	93498730	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ataacaacatatgagatcctCttgaaagataaggtgtgtaa	8	5	1	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr15:93498730C>G	uc002bsp.2	+	15	2372	c.1797C>G	c.(1795-1797)CTC>CTG	p.L599L	CHD2_uc002bso.1_Silent_p.L599L	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	599	Helicase ATP-binding.				regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			ATGAGATCCTCTTGAAAGATA	0.343													3	48	---	---	---	---	PASS	G	93498730	G	G	93498730	2	3	120	1	0	0	0	0	0	0	0	1	3325	900	32	2		2	CHD2	15	93498730	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	8091889	93498730	9032662	114	44678										
LRRK1	79705	broad.mit.edu	37	chr15	101592036	101592036	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gaaatcagaggatgtgcagtActtcgacatggaagactgtg	13	6	1	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr15:101592036A>T	uc002bwr.2	+	24	3879	c.3560A>T	c.(3559-3561)TAC>TTC	p.Y1187F	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bws.2_5'Flank	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	1187					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GATGTGCAGTACTTCGACATG	0.642													23	64	---	---	---	---	PASS	T	101592036	T	T	101592036	3	4	120	1	0	0	0	0	1	0	0	0	9032	391	14	5	3650	5	LRRK1	15	101592036	Missense_Mutation	SNP	A	TCGA-60-2707-01A-01D-1522-08	8093306	101592036	939356	115	44679										
SMG1	23049	broad.mit.edu	37	chr16	18844332	18844332	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tgcgtttcttaagtaggcctGaagagattccactagagtct	10	8	2	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr16:18844332G>C	uc002dfm.2	-	51	9085	c.8722C>G	c.(8722-8724)CAG>GAG	p.Q2908E	SMG1_uc010bwb.2_Missense_Mutation_p.Q2768E|SMG1_uc010bwa.2_Missense_Mutation_p.Q1639E	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2908					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						AAGTAGGCCTGAAGAGATTCC	0.488													7	537	---	---	---	---	PASS	C	18844332	C	C	18844332	3	2	120	1	0	0	0	0	1	0	0	0	14795	1299	45	2	2315	2	SMG1	16	18844332	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08		18844332	71510421	116	44680										
SMG1	23049	broad.mit.edu	37	chr16	18870975	18870975	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ttgaacttcaatggatttctGaagttccctcggatccggac	9	10	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr16:18870975G>C	uc002dfm.2	-	27	4219	c.3856C>G	c.(3856-3858)CAG>GAG	p.Q1286E	SMG1_uc010bwb.2_Missense_Mutation_p.Q1146E|SMG1_uc010bwa.2_Missense_Mutation_p.Q17E	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	1286	FAT.|Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						ATGGATTTCTGAAGTTCCCTC	0.348													8	84	---	---	---	---	PASS	C	18870975	C	C	18870975	3	2	120	1	0	0	0	0	1	0	0	0	14795	1299	45	2	7277	2	SMG1	16	18870975	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	26643	18870975	71483778	117	44681										
ACSM5	54988	broad.mit.edu	37	chr16	20441054	20441054	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ggaggagaggccctcaacccTgacgtgagggagaagtggaa	17	8	1	4			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr16:20441054T>C	uc002dhe.2	+	8	1203	c.1056T>C	c.(1054-1056)CCT>CCC	p.P352P		NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	352					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2						CCCTCAACCCTGACGTGAGGG	0.562													43	120	---	---	---	---	PASS	C	20441054	C	C	20441054	2	2	120	1	0	0	0	0	0	0	0	1	187	1567	55	5		5	ACSM5	16	20441054	Silent	SNP	T	TCGA-60-2707-01A-01D-1522-08	1570079	20441054	69913699	118	44682										
TOX3	27324	broad.mit.edu	37	chr16	52497890	52497890	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	cacgccatcttgttccacgaGatttcttgagattgtaatgg	9	9	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr16:52497890G>C	uc002egw.2	-	3	535	c.364C>G	c.(364-366)CTC>GTC	p.L122V	TOX3_uc010vgt.1_Missense_Mutation_p.L117V|TOX3_uc010vgu.1_Missense_Mutation_p.L122V	NM_001080430	NP_001073899	O15405	TOX3_HUMAN	TOX high mobility group box family member 3	122					apoptosis|negative regulation of neuron apoptosis|positive regulation of anti-apoptosis|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|estrogen response element binding|phosphoprotein binding|protein homodimerization activity				0						TGTTCCACGAGATTTCTTGAG	0.438													5	211	---	---	---	---	PASS	C	52497890	C	C	52497890	3	2	120	1	0	0	0	0	1	0	0	0	16376	942	33	2	1386	2	TOX3	16	52497890	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	32056836	52497890	37856863	119	44683										
PDPR	55066	broad.mit.edu	37	chr16	70166087	70166087	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tgatggaagaatttatattcGgaactggcagggtggcatcc	13	6	0	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr16:70166087G>A	uc002eyf.1	+	9	1838	c.881G>A	c.(880-882)CGG>CAG	p.R294Q	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.R194Q|PDPR_uc002eyg.1_Missense_Mutation_p.R22Q	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	294					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)		ATTTATATTCGGAACTGGCAG	0.473													6	112	---	---	---	---	PASS	A	70166087	A	A	70166087	3	1	120	1	0	0	0	0	1	0	0	0	11689	1116	39	1	907	1	PDPR	16	70166087	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	17668197	70166087	20188666	120	44684										
PMFBP1	83449	broad.mit.edu	37	chr16	72166728	72166728	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctgcagggccttgcactccgCctccttggacttgtcctgct	10	16	0	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr16:72166728C>T	uc002fcc.3	-	10	1538	c.1366G>A	c.(1366-1368)GCG>ACG	p.A456T	PMFBP1_uc002fcd.2_Missense_Mutation_p.A456T|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.A311T	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	456	Potential.									ovary(2)	2		Ovarian(137;0.179)				TTGCACTCCGCCTCCTTGGAC	0.582													23	326	---	---	---	---	PASS	T	72166728	T	T	72166728	3	4	120	1	0	0	0	0	1	0	0	0	12134	739	26	3	1765	3	PMFBP1	16	72166728	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	2000641	72166728	18188025	121	44685										
SDR42E1	93517	broad.mit.edu	37	chr16	82033204	82033204	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ggcttctgaggccagaatgtGagcctgcaccaagttatcca	11	11	1	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr16:82033204G>C	uc002fgu.2	-	3	822	c.694C>G	c.(694-696)CAC>GAC	p.H232D		NM_145168	NP_660151	Q8WUS8	D42E1_HUMAN	short chain dehydrogenase/reductase family 42E,	232					steroid biosynthetic process	integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding				0						GCCAGAATGTGAGCCTGCACC	0.532													82	216	---	---	---	---	PASS	C	82033204	C	C	82033204	3	2	120	1	0	0	0	0	1	0	0	0	13973	1290	45	2	491	2	SDR42E1	16	82033204	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	9866476	82033204	8321549	122	44686										
CDH13	1012	broad.mit.edu	37	chr16	83520150	83520150	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ccgataatgccctcctgcggTataatatccgtcagcagacg	9	13	1	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr16:83520150T>C	uc002fgx.2	+	7	970	c.850T>C	c.(850-852)TAT>CAT	p.Y284H	CDH13_uc010vns.1_Missense_Mutation_p.Y331H|CDH13_uc010vnt.1_Missense_Mutation_p.Y30H|CDH13_uc010vnu.1_Missense_Mutation_p.Y245H	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	284	Cadherin 2.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		CCTCCTGCGGTATAATATCCG	0.537													36	77	---	---	---	---	PASS	C	83520150	C	C	83520150	3	2	120	1	0	0	0	0	1	0	0	0	3099	1638	57	5	876	5	CDH13	16	83520150	Missense_Mutation	SNP	T	TCGA-60-2707-01A-01D-1522-08	1486946	83520150	6834603	123	44687										
SLC25A11	8402	broad.mit.edu	37	chr17	4841830	4841830	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ccacagtgtgaggacaccctCttcccgggtgattcgaatca	10	13	2	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr17:4841830C>G	uc002fzo.1	-	4	636	c.523G>C	c.(523-525)GAG>CAG	p.E175Q	SLC25A11_uc002fzp.1_Missense_Mutation_p.E171Q|RNF167_uc002fzq.2_5'Flank|RNF167_uc002fzr.2_5'Flank|RNF167_uc002fzs.2_5'Flank|RNF167_uc002fzt.2_5'Flank|RNF167_uc002fzu.2_5'Flank|RNF167_uc002fzv.2_5'Flank|RNF167_uc002fzw.1_5'Flank|RNF167_uc002fzx.2_5'Flank	NM_003562	NP_003553	Q02978	M2OM_HUMAN	solute carrier family 25 member 11 isoform 1	175	Solcar 2.				gluconeogenesis	integral to plasma membrane|mitochondrial inner membrane	oxoglutarate:malate antiporter activity				0						AGGACACCCTCTTCCCGGGTG	0.587													7	193	---	---	---	---	PASS	G	4841830	G	G	4841830	3	3	120	1	0	0	0	0	1	0	0	0	14473	922	32	2	441	2	SLC25A11	17	4841830	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08		4841830	76353380	124	44688										
TP53	7157	broad.mit.edu	37	chr17	7579585	7579585	+	Frame_Shift_Del	DEL	G	-	-													0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tccattgcttgggacggcaaGggggactgtagatgggtgaa					rs11575998		TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr17:7579585delG	uc002gim.2	-	4	296	c.102delC	c.(100-102)CCCfs	p.P34fs	TP53_uc002gig.1_Frame_Shift_Del_p.P34fs|TP53_uc002gih.2_Frame_Shift_Del_p.P34fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Frame_Shift_Del_p.P34fs|TP53_uc010cni.1_Frame_Shift_Del_p.P34fs|TP53_uc002gij.2_Frame_Shift_Del_p.P34fs|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_5'UTR|TP53_uc010cnk.1_Frame_Shift_Del_p.P49fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	34	Transcription activation (acidic).|Interaction with HRMT1L2.		P -> L (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.P34L(2)|p.?(1)|p.S33fs*23(1)|p.P34fs*8(1)|p.P36fs*7(1)|p.P13fs*18(1)|p.S33fs*6(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)		GGGACGGCAAGGGGGACTGTA	0.383		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)			191	120	---	---	---	---		-	7579585	-	-	7579585	7	5	120	1	0	1	0	1	0	0	0	0	16378	987	35	0	1200	0	TP53	17	7579585	Frame_Shift_Del	DEL	G	TCGA-60-2707-01A-01D-1522-08	2737755	7579585	73615625	125	44689										
NF1	4763	broad.mit.edu	37	chr17	29679291	29679291	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tcaggacactaaaggagactCagccatggtcctctcccaaa	8	13	3	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr17:29679291C>T	uc002hgg.2	+	51	7807	c.7474C>T	c.(7474-7476)CAG>TAG	p.Q2492*	NF1_uc002hgh.2_Nonsense_Mutation_p.Q2471*|NF1_uc010cso.2_Nonsense_Mutation_p.Q680*|NF1_uc010wbt.1_Intron|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2492					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		AAAGGAGACTCAGCCATGGTC	0.473			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			7	144	---	---	---	---	PASS	T	29679291	T	T	29679291	4	4	120	1	0	0	0	0	0	1	0	0	10356	827	29	2	7737	2	NF1	17	29679291	Nonsense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	22099706	29679291	51515919	126	44690										
RHBDL3	162494	broad.mit.edu	37	chr17	30621462	30621462	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tacatcttcatgcatgcaggGtgagtacctgtcttcttttg	9	9	4	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr17:30621462G>C	uc002hhe.1	+	5	682	c.668_splice	c.e5+1	p.G223_splice	RHBDL3_uc010csw.1_Splice_Site_p.G215_splice|RHBDL3_uc010csx.1_Splice_Site_p.G223_splice|RHBDL3_uc010csy.1_Splice_Site_p.G125_splice|RHBDL3_uc002hhf.1_Splice_Site_p.G125_splice	NM_138328	NP_612201	P58872	RHBL3_HUMAN	rhomboid protease 3						proteolysis	integral to membrane	calcium ion binding|serine-type endopeptidase activity			ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)				TGCATGCAGGGTGAGTACCTG	0.408													40	97	---	---	---	---	PASS	C	30621462	C	C	30621462	5	2	120	1	0	0	0	0	0	0	1	0	13323	1275	44	4	687	4	RHBDL3	17	30621462	Splice_Site	SNP	G	TCGA-60-2707-01A-01D-1522-08	942171	30621462	50573748	127	44691										
GAS2L2	246176	broad.mit.edu	37	chr17	34079743	34079743	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gtccagcccatagaggtcgcGaagccactcagccaggtctt	11	14	2	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr17:34079743G>A	uc002hjv.1	-	1	155	c.127C>T	c.(127-129)CGC>TGC	p.R43C		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	43	CH.				cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TAGAGGTCGCGAAGCCACTCA	0.612													4	98	---	---	---	---	PASS	A	34079743	A	A	34079743	3	1	120	1	0	0	0	0	1	0	0	0	6247	1058	37	2	2539	2	GAS2L2	17	34079743	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	3458281	34079743	47115467	128	44692										
KRT33A	3883	broad.mit.edu	37	chr17	39503459	39503459	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gcggtctccaagctggcagcGcagggtgttaacctcctgat	13	12	1	1	rs143073969		TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr17:39503459G>A	uc002hwk.1	-	4	641	c.604C>T	c.(604-606)CGC>TGC	p.R202C		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	202	Rod.|Coil 1B.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				AGCTGGCAGCGCAGGGTGTTA	0.502													5	76	---	---	---	---	PASS	A	39503459	A	A	39503459	3	1	120	1	0	0	0	0	1	0	0	0	8469	1087	38	1	626	1	KRT33A	17	39503459	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	5423716	39503459	41691751	129	44693										
SLC4A1	6521	broad.mit.edu	37	chr17	42332032	42332032	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	catcaggcaccgagagtttcTgtgggagggggtagcaggta	17	7	2	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr17:42332032T>C	uc002igf.3	-	16	2040	c.1891_splice	c.e16-1	p.K631_splice		NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member						bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		CGAGAGTTTCTGTGGGAGGGG	0.617													11	27	---	---	---	---	PASS	C	42332032	C	C	42332032	5	2	120	1	0	0	0	0	0	0	1	0	14650	1594	55	5	866	5	SLC4A1	17	42332032	Splice_Site	SNP	T	TCGA-60-2707-01A-01D-1522-08	2828573	42332032	38863178	130	44694										
KPNB1	3837	broad.mit.edu	37	chr17	45748153	45748153	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	agctacttactgcttatcttCttcatttgaactcatagttc	4	10	4	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr17:45748153C>T	uc002ilt.1	+	12	1838	c.1502C>T	c.(1501-1503)TCT>TTT	p.S501F	KPNB1_uc010wkw.1_Missense_Mutation_p.S356F|KPNB1_uc010wkx.1_Missense_Mutation_p.S285F	NM_002265	NP_002256	Q14974	IMB1_HUMAN	karyopherin beta 1	501					DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|protein import into nucleus, translocation|ribosomal protein import into nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein domain specific binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TGCTTATCTTCTTCATTTGAA	0.428													6	273	---	---	---	---	PASS	T	45748153	T	T	45748153	3	4	120	1	0	0	0	0	1	0	0	0	8435	913	32	2	1548	2	KPNB1	17	45748153	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	3416121	45748153	35447057	131	44695										
ARSG	22901	broad.mit.edu	37	chr17	66364803	66364803	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	agcctgtatggtgcagggctCtgggagatggacagtctggt	17	7	2	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr17:66364803C>T	uc002jhc.2	+	7	1615	c.819C>T	c.(817-819)CTC>CTT	p.L273L	ARSG_uc002jhb.1_Silent_p.L109L	NM_014960	NP_055775	Q96EG1	ARSG_HUMAN	Arylsulfatase G precursor	273					sulfur compound metabolic process	endoplasmic reticulum|extracellular space|lysosome	arylsulfatase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;5.34e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			GTGCAGGGCTCTGGGAGATGG	0.542													12	207	---	---	---	---	PASS	T	66364803	T	T	66364803	2	4	120	1	0	0	0	0	0	0	0	1	992	900	32	2		2	ARSG	17	66364803	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	20616650	66364803	14830407	132	44696										
COG1	9382	broad.mit.edu	37	chr17	71189264	71189264	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gctggatctgcgcgaccctgCggctcttttcgagacgcatg	13	13	2	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr17:71189264C>G	uc002jjg.2	+	1	92	c.56C>G	c.(55-57)GCG>GGG	p.A19G	COG1_uc002jjh.2_Missense_Mutation_p.A19G|COG1_uc002jjf.1_Missense_Mutation_p.A19G	NM_018714	NP_061184	Q8WTW3	COG1_HUMAN	component of oligomeric golgi complex 1	19					Golgi organization|intra-Golgi vesicle-mediated transport|protein transport	Golgi membrane|Golgi transport complex	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			CGCGACCCTGCGGCTCTTTTC	0.662													7	12	---	---	---	---	PASS	G	71189264	G	G	71189264	3	3	120	1	0	0	0	0	1	0	0	0	3657	768	27	4	58	4	COG1	17	71189264	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	4824461	71189264	10005946	133	44697										
DTNA	1837	broad.mit.edu	37	chr18	32462135	32462135	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctccagatggaggaatacctGaaacagaagctgcaagatga	11	8	0	5			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr18:32462135G>C	uc010dmn.1	+	20	2185	c.2184G>C	c.(2182-2184)CTG>CTC	p.L728L	DTNA_uc002kxw.2_Silent_p.L671L|DTNA_uc010dmj.2_Silent_p.L668L|DTNA_uc002kxz.2_Silent_p.L675L|DTNA_uc002kxy.2_Silent_p.L668L|DTNA_uc010xby.1_Silent_p.L418L|DTNA_uc010xbz.1_Silent_p.L437L|DTNA_uc010xca.1_Silent_p.L380L|DTNA_uc002kye.2_Silent_p.L376L	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	728					neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						AGGAATACCTGAAACAGAAGC	0.512													4	96	---	---	---	---	PASS	C	32462135	C	C	32462135	2	2	120	1	0	0	0	0	0	0	0	1	4788	1277	45	2		2	DTNA	18	32462135	Silent	SNP	G	TCGA-60-2707-01A-01D-1522-08		32462135	45615113	134	44698										
NLRP4	147945	broad.mit.edu	37	chr19	56363671	56363671	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tggaacataaccttaagaatCtttcaaaagatggatagaaa	7	5	2	3			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr19:56363671C>A	uc002qmd.3	+	2	647	c.225C>A	c.(223-225)ATC>ATA	p.I75I		NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	75	DAPIN.						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)		CCTTAAGAATCTTTCAAAAGA	0.443													4	125	---	---	---	---	PASS	A	56363671	A	A	56363671	2	1	120	1	0	0	0	0	0	0	0	1	10479	903	32	2		2	NLRP4	19	56363671	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08		56363671	2765312	135	44699										
PLAGL2	5326	broad.mit.edu	37	chr20	30784525	30784525	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	aagtccacattagcagcgcaGagggcctcagagaggttggc	14	10	1	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr20:30784525G>A	uc002wxn.2	-	3	1438	c.1221C>T	c.(1219-1221)CTC>CTT	p.L407L		NM_002657	NP_002648	Q9UPG8	PLAL2_HUMAN	pleiomorphic adenoma gene-like 2	407						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			TAGCAGCGCAGAGGGCCTCAG	0.652													4	44	---	---	---	---	PASS	A	30784525	A	A	30784525	2	1	120	1	0	0	0	0	0	0	0	1	12020	929	33	2		2	PLAGL2	20	30784525	Silent	SNP	G	TCGA-60-2707-01A-01D-1522-08		30784525	32240995	136	44700										
ZBTB46	140685	broad.mit.edu	37	chr20	62378374	62378374	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ccttgtcgtccgccaacagcGcatcctcaggggccaggccc	11	18	1	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr20:62378374G>A	uc002ygv.1	-	5	1880	c.1679C>T	c.(1678-1680)GCG>GTG	p.A560V	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	560					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					CGCCAACAGCGCATCCTCAGG	0.711													3	40	---	---	---	---	PASS	A	62378374	A	A	62378374	3	1	120	1	0	0	0	0	1	0	0	0	17544	1087	38	1	94	1	ZBTB46	20	62378374	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	31593849	62378374	647146	137	44701										
DNAJC28	54943	broad.mit.edu	37	chr21	34861439	34861439	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ccttataaatgttgcagaatCagcagtattagagccactgt	8	8	1	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr21:34861439C>G	uc002yrv.2	-	2	711	c.262G>C	c.(262-264)GAT>CAT	p.D88H	DNAJC28_uc002yrw.2_Missense_Mutation_p.D88H	NM_017833	NP_060303	Q9NX36	DJC28_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 28	88	J.						heat shock protein binding				0						GTTGCAGAATCAGCAGTATTA	0.413													9	232	---	---	---	---	PASS	G	34861439	G	G	34861439	3	3	120	1	0	0	0	0	1	0	0	0	4646	826	29	2	908	2	DNAJC28	21	34861439	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08		34861439	13268456	138	44702										
COL6A2	1292	broad.mit.edu	37	chr21	47532209	47532209	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctggccaacatgacggagcaGatccggcaggaccgcagcaa	13	13	0	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr21:47532209G>C	uc002zia.1	+	3	514	c.432G>C	c.(430-432)CAG>CAC	p.Q144H	COL6A2_uc002zhy.1_Missense_Mutation_p.Q144H|COL6A2_uc002zhz.1_Missense_Mutation_p.Q144H|COL6A2_uc002zib.1_Intron	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	144	VWFA 1.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		TGACGGAGCAGATCCGGCAGG	0.692													4	25	---	---	---	---	PASS	C	47532209	C	C	47532209	3	2	120	1	0	0	0	0	1	0	0	0	3700	933	33	2	438	2	COL6A2	21	47532209	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	12670770	47532209	597686	139	44703										
NPTXR	23467	broad.mit.edu	37	chr22	39224304	39224304	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ggacccaccgtgctccagctCagccacacgaccctgcagga	10	18	1	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr22:39224304C>T	uc003awk.2	-	2	992	c.838G>A	c.(838-840)GAG>AAG	p.E280K		NM_014293	NP_055108	O95502	NPTXR_HUMAN	neuronal pentraxin receptor	280	Extracellular (Potential).					integral to membrane	metal ion binding			central_nervous_system(2)|skin(1)	3	Melanoma(58;0.04)					TGCTCCAGCTCAGCCACACGA	0.612													35	94	---	---	---	---	PASS	T	39224304	T	T	39224304	3	4	120	1	0	0	0	0	1	0	0	0	10604	835	29	2	680	2	NPTXR	22	39224304	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08		39224304	12080262	140	44704										
EFCAB6	64800	broad.mit.edu	37	chr22	43996133	43996133	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	agtaatgtgcccttttccctCggtgtcgtatcttaaaacaa	7	10	1	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chr22:43996133C>T	uc003bdy.1	-	23	2907	c.2692G>A	c.(2692-2694)GAG>AAG	p.E898K	EFCAB6_uc003bdz.1_Missense_Mutation_p.E746K|EFCAB6_uc010gzi.1_Missense_Mutation_p.E746K|EFCAB6_uc010gzj.1_Missense_Mutation_p.E124K	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	898	EF-hand 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CCTTTTCCCTCGGTGTCGTAT	0.428													6	329	---	---	---	---	PASS	T	43996133	T	T	43996133	3	4	120	1	0	0	0	0	1	0	0	0	4939	893	31	2	1853	2	EFCAB6	22	43996133	Missense_Mutation	SNP	C	TCGA-60-2707-01A-01D-1522-08	4771829	43996133	7308433	141	44705										
MBTPS2	51360	broad.mit.edu	37	chrX	21900556	21900556	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctgattttaacccaggtaccTgatttccctctcaggagctc	7	13	1	2			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chrX:21900556T>C	uc004dae.2	+	11	1540	c.1343T>C	c.(1342-1344)CTG>CCG	p.L448P	MBTPS2_uc010nfr.2_Missense_Mutation_p.L41P	NM_015884	NP_056968	O43462	MBTP2_HUMAN	membrane-bound transcription factor peptidase,	448	Helical; (Potential).				cholesterol metabolic process|proteolysis	Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity			ovary(1)	1						CCCAGGTACCTGATTTCCCTC	0.413													3	149	---	---	---	---	PASS	C	21900556	C	C	21900556	3	2	120	1	0	0	0	0	1	0	0	0	9362	1580	55	5	1385	5	MBTPS2	23	21900556	Missense_Mutation	SNP	T	TCGA-60-2707-01A-01D-1522-08		21900556	133370004	142	44706										
GATA1	2623	broad.mit.edu	37	chrX	48652460	48652460	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gtgctgtcagggcctgttagCcacctcatgcctttccctgg	11	14	2	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chrX:48652460C>T	uc004dkq.3	+	6	1222	c.1131C>T	c.(1129-1131)AGC>AGT	p.S377S		NM_002049	NP_002040	P15976	GATA1_HUMAN	GATA binding protein 1	377					basophil differentiation|eosinophil differentiation|erythrocyte development|megakaryocyte differentiation|platelet aggregation|platelet formation|positive regulation of anti-apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|regulation of glycoprotein biosynthetic process|transcription from RNA polymerase II promoter	nuclear membrane|nucleolus|nucleoplasm	C2H2 zinc finger domain binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(246)|lung(2)	248						GGCCTGTTAGCCACCTCATGC	0.662			Mis|F		megakaryoblastic leukemia of Downs Syndrome								12	5	---	---	---	---	PASS	T	48652460	T	T	48652460	2	4	120	1	0	0	0	0	0	0	0	1	6253	738	26	3		3	GATA1	23	48652460	Silent	SNP	C	TCGA-60-2707-01A-01D-1522-08	26751904	48652460	106618100	143	44707										
FAAH2	158584	broad.mit.edu	37	chrX	57515355	57515355	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	tgggggctgggtctgtccagGaaagttttaggaggaccttc	16	7	1	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chrX:57515355G>A	uc004dvc.2	+	11	1738	c.1589G>A	c.(1588-1590)GGA>GAA	p.G530E		NM_174912	NP_777572	Q6GMR7	FAAH2_HUMAN	fatty acid amide hydrolase 2	530						integral to membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|hydrolase activity			ovary(3)	3						GTCTGTCCAGGAAAGTTTTAG	0.483										HNSCC(52;0.14)			4	63	---	---	---	---	PASS	A	57515355	A	A	57515355	3	1	120	1	0	0	0	0	1	0	0	0	5354	1174	41	2	1631	2	FAAH2	23	57515355	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	8862895	57515355	97755205	144	44708										
ARMCX2	9823	broad.mit.edu	37	chrX	100911754	100911754	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	ctttgggtaccgctccagtcGctgatgtggctttcggtata	12	10	0	1			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chrX:100911754G>A	uc004eid.2	-	3	1176	c.821C>T	c.(820-822)GCG>GTG	p.A274V	ARMCX2_uc004eie.3_Missense_Mutation_p.A274V|ARMCX2_uc004eif.3_Missense_Mutation_p.A274V|ARMCX2_uc004eig.3_Missense_Mutation_p.A274V|ARMCX2_uc010nnt.2_Missense_Mutation_p.A274V	NM_177949	NP_808818	Q7L311	ARMX2_HUMAN	ALEX2 protein	274	Ala-rich.					integral to membrane	binding			ovary(6)	6						CGCTCCAGTCGCTGATGTGGC	0.562													39	187	---	---	---	---	PASS	A	100911754	A	A	100911754	3	1	120	1	0	0	0	0	1	0	0	0	960	1087	38	1	1081	1	ARMCX2	23	100911754	Missense_Mutation	SNP	G	TCGA-60-2707-01A-01D-1522-08	43396399	100911754	54358806	145	44709										
TMLHE	55217	broad.mit.edu	37	chrX	154774821	154774821	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.26056338028169	37	2.18590759715248e-11	3.34830097087379	4.75242718446602	2.33602393316776	0.194796051606385	0.547284144989367	26	gaggctgtatggtgccaatgGacagctaaaggaagtaagct	14	6	0	0			TCGA-60-2707-01A-01D-1522-08	TCGA-60-2707-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d1fa470-2789-4576-9743-0362af682c1d	278eaa1f-56e1-48e7-903f-9b9c3ad9eb82	g.chrX:154774821G>C	uc004fnn.2	-	2	283	c.117C>G	c.(115-117)GTC>GTG	p.V39V	TMLHE_uc004fno.2_Silent_p.V39V|TMLHE_uc004fnp.3_Silent_p.V39V	NM_018196	NP_060666	Q9NVH6	TMLH_HUMAN	trimethyllysine hydroxylase, epsilon	39					carnitine biosynthetic process	mitochondrial matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|trimethyllysine dioxygenase activity			ovary(1)	1	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Succinic acid(DB00139)|Vitamin C(DB00126)	GGTGCCAATGGACAGCTAAAG	0.463													8	100	---	---	---	---	PASS	C	154774821	C	C	154774821	2	2	120	1	0	0	0	0	0	0	0	1	16229	1161	41	2		2	TMLHE	23	154774821	Silent	SNP	G	TCGA-60-2707-01A-01D-1522-08	53863067	154774821	495739	146	44710										
PODN	127435	broad.mit.edu	37	chr1	53544621	53544621	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	catggctcagctgcgtgagcTgtacctcaccagcaaccgac	10	15	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:53544621T>A	uc001cuv.2	+	8	1590	c.1583T>A	c.(1582-1584)CTG>CAG	p.L528Q	PODN_uc001cuw.2_Missense_Mutation_p.L509Q|PODN_uc010onr.1_Missense_Mutation_p.L509Q|PODN_uc010ons.1_Missense_Mutation_p.L386Q	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	480	LRR 16.				negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding			ovary(1)|pancreas(1)	2						CTGCGTGAGCTGTACCTCACC	0.667													6	5	---	---	---	---	PASS	A	53544621	A	A	53544621	3	1	121	1	0	0	0	0	1	0	0	0	12178	1580	55	5	1613	5	PODN	1	53544621	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08		53544621	195706000	1	44711										
LRRC42	115353	broad.mit.edu	37	chr1	54428065	54428065	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	atcatagtaactgcaagacaGagggctgggctgaccaggta	13	8	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:54428065G>C	uc001cwj.1	+	6	1110	c.910G>C	c.(910-912)GAG>CAG	p.E304Q	LRRC42_uc001cwl.1_Missense_Mutation_p.E304Q|LRRC42_uc001cwk.1_Missense_Mutation_p.E304Q|LRRC42_uc009vzm.1_Missense_Mutation_p.E304Q	NM_052940	NP_443172	Q9Y546	LRC42_HUMAN	leucine rich repeat containing 42	304											0						CTGCAAGACAGAGGGCTGGGC	0.443													11	37	---	---	---	---	PASS	C	54428065	C	C	54428065	3	2	121	1	0	0	0	0	1	0	0	0	9000	943	33	2	928	2	LRRC42	1	54428065	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	883444	54428065	194822556	2	44712										
DAB1	1600	broad.mit.edu	37	chr1	57610988	57610988	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtttcatcatggaatcttgaCataacttgtctccccgagct	7	11	4	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:57610988C>A	uc001cys.1	-	5	856	c.182G>T	c.(181-183)TGT>TTT	p.C61F	DAB1_uc001cyt.1_Missense_Mutation_p.C61F|DAB1_uc001cyq.1_Missense_Mutation_p.C61F|DAB1_uc001cyr.1_Missense_Mutation_p.C61F|DAB1_uc009vzw.1_Missense_Mutation_p.C61F|DAB1_uc009vzx.1_Missense_Mutation_p.C61F	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	61	PID.				cell differentiation|nervous system development					skin(2)|ovary(1)	3						GGAATCTTGACATAACTTGTC	0.393													84	50	---	---	---	---	PASS	A	57610988	A	A	57610988	3	1	121	1	0	0	0	0	1	0	0	0	4217	478	17	3	1533	3	DAB1	1	57610988	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	3182923	57610988	191639633	3	44713										
LRRC7	57554	broad.mit.edu	37	chr1	70257828	70257828	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tagttaatcttaaagaactcGacatcagtaaaaatggtaag	7	5	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:70257828G>C	uc001dep.2	+	2	322	c.292G>C	c.(292-294)GAC>CAC	p.D98H	LRRC7_uc001deo.1_Missense_Mutation_p.D136H|LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	98	LRR 4.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TAAAGAACTCGACATCAGTAA	0.299													78	70	---	---	---	---	PASS	C	70257828	C	C	70257828	3	2	121	1	0	0	0	0	1	0	0	0	9020	1058	37	2	298	2	LRRC7	1	70257828	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	12646840	70257828	178992793	4	44714										
HHLA3	11147	broad.mit.edu	37	chr1	70820859	70820859	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gagcactgtagaagaggaatGaaggccaaacaattaaaagc	11	6	0	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:70820859G>A	uc001dfa.2	+	1	367	c.225G>A	c.(223-225)ATG>ATA	p.M75I	ANKRD13C_uc001dex.3_5'Flank|ANKRD13C_uc009wbk.2_5'Flank|ANKRD13C_uc001dey.3_5'Flank|HHLA3_uc010oqp.1_Intron|HHLA3_uc001dfb.2_Intron|HHLA3_uc001dfc.2_Intron	NM_001036645	NP_001031722	Q9XRX5	HHLA3_HUMAN	HERV-H LTR-associating 3 isoform 2	75							protein binding				0						gaagaggaatgaaggccaaac	0.204													9	15	---	---	---	---	PASS	A	70820859	A	A	70820859	3	1	121	1	0	0	0	0	1	0	0	0	7096	1290	45	2	227	2	HHLA3	1	70820859	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	563031	70820859	178429762	5	44715										
LRRIQ3	127255	broad.mit.edu	37	chr1	74649223	74649223	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgcatactctaagagagatgCaagactgcaaattttccata	7	8	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:74649223C>A	uc001dfy.3	-	2	338	c.146G>T	c.(145-147)TGC>TTC	p.C49F	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	49										ovary(2)	2						aagagagatgcaagactgcaa	0.149													57	40	---	---	---	---	PASS	A	74649223	A	A	74649223	3	1	121	1	0	0	0	0	1	0	0	0	9030	710	25	3	1756	3	LRRIQ3	1	74649223	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	3828364	74649223	174601398	6	44716										
RBM15	64783	broad.mit.edu	37	chr1	110882542	110882543	+	Frame_Shift_Del	DEL	TG	-	-													0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cggcgcggaatacaagactcTgaagataagcgagttggggt							TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:110882542_110882543delTG	uc001dzl.1	+	1	598_599	c.515_516delTG	c.(514-516)CTGfs	p.L172fs	RBM15_uc001dzm.1_Frame_Shift_Del_p.L172fs|uc001dzj.2_5'Flank	NM_022768	NP_073605	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	172	RRM 1.				interspecies interaction between organisms	nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		TACAAGACTCTGAAGATAAGCG	0.609			T	MKL1	acute megakaryocytic leukemia						OREG0013656	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	67	31	---	---	---	---		-	110882543	-	-	110882542	7	5	121	1	0	1	0	1	0	0	0	0	13116	1580	55	0	517	0	RBM15	1	110882542	Frame_Shift_Del	DEL	TG	TCGA-60-2708-01A-01D-1522-08	36233319	110882542	138368079	7	44717										
PDE4DIP	9659	broad.mit.edu	37	chr1	144863397	144863397	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agggactcaaagagctgctgTttctcttcacactgttgctg	10	10	3	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:144863397T>C	uc001elw.3	-	37	6297	c.6006A>G	c.(6004-6006)AAA>AAG	p.K2002K	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Silent_p.K1896K|PDE4DIP_uc001elv.3_Silent_p.K1009K|PDE4DIP_uc001ema.2_3'UTR	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	2002	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		AGAGCTGCTGTTTCTCTTCAC	0.527			T	PDGFRB	MPD								81	288	---	---	---	---	PASS	C	144863397	C	C	144863397	2	2	121	1	0	0	0	0	0	0	0	1	11643	1722	60	5		5	PDE4DIP	1	144863397	Silent	SNP	T	TCGA-60-2708-01A-01D-1522-08	33980855	144863397	104387224	8	44718										
HRNR	388697	broad.mit.edu	37	chr1	152191550	152191550	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agtcatgttggccggagcttGatgactgccctgacgtagat	13	9	1	4			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:152191550G>A	uc001ezt.1	-	3	2631	c.2555C>T	c.(2554-2556)TCA>TTA	p.S852L		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	852	9.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCCGGAGCTTGATGACTGCCC	0.572													21	71	---	---	---	---	PASS	A	152191550	A	A	152191550	3	1	121	1	0	0	0	0	1	0	0	0	7359	1294	45	2	6001	2	HRNR	1	152191550	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	7328153	152191550	97059071	9	44719										
BCAN	63827	broad.mit.edu	37	chr1	156618424	156618424	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gaagcacgggcgtactgccaGgagcggggtgcagagattgc	18	9	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:156618424G>A	uc001fpp.2	+	6	1170	c.834G>A	c.(832-834)CAG>CAA	p.Q278Q	BCAN_uc001fpo.2_Silent_p.Q278Q	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	278	Link 2.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CGTACTGCCAGGAGCGGGGTG	0.527													46	173	---	---	---	---	PASS	A	156618424	A	A	156618424	2	1	121	1	0	0	0	0	0	0	0	1	1345	991	35	3		3	BCAN	1	156618424	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	4426874	156618424	92632197	10	44720										
VANGL2	57216	broad.mit.edu	37	chr1	160389286	160389286	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtggacgcccttcttttcgtGcactacctggccgtggtcct	11	14	1	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:160389286G>A	uc001fwb.1	+	5	986	c.687G>A	c.(685-687)GTG>GTA	p.V229V	VANGL2_uc001fwc.1_Silent_p.V229V	NM_020335	NP_065068	Q9ULK5	VANG2_HUMAN	vang-like 2	229	Helical; Name=4; (Potential).				apical protein localization|heart looping|nonmotile primary cilium assembly	apical plasma membrane|integral to membrane				ovary(1)	1	all_cancers(52;1.08e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TTCTTTTCGTGCACTACCTGG	0.647													24	97	---	---	---	---	PASS	A	160389286	A	A	160389286	2	1	121	1	0	0	0	0	0	0	0	1	17117	1306	46	3		3	VANGL2	1	160389286	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	3770862	160389286	88861335	11	44721										
HSPA6	3310	broad.mit.edu	37	chr1	161495444	161495444	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gccaagctggacaaggcccaGattcatgacgtcgtcctggt	12	12	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:161495444G>C	uc001gap.2	+	2	1656	c.996G>C	c.(994-996)CAG>CAC	p.Q332H	HSPA6_uc001gaq.2_Missense_Mutation_p.Q332H	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	332					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			ACAAGGCCCAGATTCATGACG	0.602													6	50	---	---	---	---	PASS	C	161495444	C	C	161495444	3	2	121	1	0	0	0	0	1	0	0	0	7415	933	33	2	998	2	HSPA6	1	161495444	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	1106158	161495444	87755177	12	44722										
FAM5C	339479	broad.mit.edu	37	chr1	190067570	190067570	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gatgcgacttctcaggtagaTgtgtactgtctcaaaaaatg	10	7	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:190067570T>A	uc001gse.1	-	8	2111	c.1879A>T	c.(1879-1881)ATC>TTC	p.I627F	FAM5C_uc010pot.1_Missense_Mutation_p.I525F	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	627						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CTCAGGTAGATGTGTACTGTC	0.463													125	414	---	---	---	---	PASS	A	190067570	A	A	190067570	3	1	121	1	0	0	0	0	1	0	0	0	5594	1464	51	5	425	5	FAM5C	1	190067570	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	28572126	190067570	59183051	13	44723										
CACNA1S	779	broad.mit.edu	37	chr1	201030449	201030449	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtctctccctgctcctggaaGgtgacaatgacgaagcccac	10	14	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:201030449G>C	uc001gvv.2	-	25	3428	c.3201C>G	c.(3199-3201)ACC>ACG	p.T1067T		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1067	Cytoplasmic (Potential).|Dihydropyridine binding (By similarity).|III.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GCTCCTGGAAGGTGACAATGA	0.527													22	81	---	---	---	---	PASS	C	201030449	C	C	201030449	2	2	121	1	0	0	0	0	0	0	0	1	2547	987	35	4		4	CACNA1S	1	201030449	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	10962879	201030449	48220172	14	44724										
ZC3H11A	9877	broad.mit.edu	37	chr1	203816789	203816789	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggccactccaggggcaaggcGgctgctgcgaatcaccaaaa	13	13	1	0	rs142558234		TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:203816789G>C	uc001hac.2	+	15	2136	c.1520G>C	c.(1519-1521)CGG>CCG	p.R507P	ZC3H11A_uc001had.2_Missense_Mutation_p.R507P|ZC3H11A_uc001hae.2_Missense_Mutation_p.R507P|ZC3H11A_uc001haf.2_Missense_Mutation_p.R507P|ZC3H11A_uc010pqm.1_Missense_Mutation_p.R453P|ZC3H11A_uc001hag.1_Missense_Mutation_p.R507P	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	507							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			GGGGCAAGGCGGCTGCTGCGA	0.537													24	137	---	---	---	---	PASS	C	203816789	C	C	203816789	3	2	121	1	0	0	0	0	1	0	0	0	17557	1116	39	4	1562	4	ZC3H11A	1	203816789	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	2786340	203816789	45433832	15	44725										
PIK3C2B	5287	broad.mit.edu	37	chr1	204438582	204438582	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cagggagcctttgggccaggGatctgagccaggctgtggcc	17	11	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:204438582G>C	uc001haw.2	-	3	828	c.349C>G	c.(349-351)CCC>GCC	p.P117A	PIK3C2B_uc010pqv.1_Missense_Mutation_p.P117A|PIK3C2B_uc001hax.1_Missense_Mutation_p.P117A|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	117	Interaction with GRB2.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			TTGGGCCAGGGATCTGAGCCA	0.572													48	58	---	---	---	---	PASS	C	204438582	C	C	204438582	3	2	121	1	0	0	0	0	1	0	0	0	11910	1174	41	2	4683	2	PIK3C2B	1	204438582	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	621793	204438582	44812039	16	44726										
NUCKS1	64710	broad.mit.edu	37	chr1	205687487	205687487	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gggggcttgtagatgttttcTtttctggcgggctttccggt	15	7	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:205687487T>C	uc001hdb.2	-	7	913	c.653A>G	c.(652-654)AAG>AGG	p.K218R		NM_022731	NP_073568	Q9H1E3	NUCKS_HUMAN	nuclear casein kinase and cyclin-dependent	218						nucleus					0	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			AGATGTTTTCTTTTCTGGCGG	0.517													236	316	---	---	---	---	PASS	C	205687487	C	C	205687487	3	2	121	1	0	0	0	0	1	0	0	0	10720	1609	56	5	82	5	NUCKS1	1	205687487	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	1248905	205687487	43563134	17	44727										
CENPF	1063	broad.mit.edu	37	chr1	214826228	214826228	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cttctaaagaagaatgtctcAgttcacagaagctggagata	9	7	3	4			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:214826228A>T	uc001hkm.2	+	16	8392	c.8218A>T	c.(8218-8220)AGT>TGT	p.S2740C		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2836	Potential.|Sufficient for self-association.|Sufficient for centromere localization.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		AGAATGTCTCAGTTCACAGAA	0.333													133	148	---	---	---	---	PASS	T	214826228	T	T	214826228	3	4	121	1	0	0	0	0	1	0	0	0	3231	188	7	5	8276	5	CENPF	1	214826228	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	9138741	214826228	34424393	18	44728										
ITPKB	3707	broad.mit.edu	37	chr1	226829751	226829751	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggggcctcggggtccacctcGatcatcttctggtacatgtc	12	13	3	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:226829751G>C	uc010pvo.1	-	5	2662	c.2322C>G	c.(2320-2322)ATC>ATG	p.I774M		NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	774	Calmodulin-binding (By similarity).						ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				GGTCCACCTCGATCATCTTCT	0.627													136	163	---	---	---	---	PASS	C	226829751	C	C	226829751	3	2	121	1	0	0	0	0	1	0	0	0	7918	1048	37	2	534	2	ITPKB	1	226829751	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	12003523	226829751	22420870	19	44729										
RYR2	6262	broad.mit.edu	37	chr1	237604779	237604779	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gagaatgggatctatacaacGtaaggtaaggtgatagaaaa	12	3	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:237604779G>A	uc001hyl.1	+	13	1286	c.1166G>A	c.(1165-1167)CGT>CAT	p.R389H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	389	Cytoplasmic (By similarity).|MIR 5.				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)			TCTATACAACGTAAGGTAAGG	0.358													38	103	---	---	---	---	PASS	A	237604779	A	A	237604779	3	1	121	1	0	0	0	0	1	0	0	0	13769	1145	40	1	1216	1	RYR2	1	237604779	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	10775028	237604779	11645842	20	44730										
VN1R5	317705	broad.mit.edu	37	chr1	247419831	247419831	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cagccccagcatcttctcctTggcaaagctcaaacatcctt	5	16	3	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:247419831T>A	uc010pyu.1	+	2	458	c.458T>A	c.(457-459)TTG>TAG	p.L153*		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	153	Extracellular (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			ATCTTCTCCTTGGCAAAGCTC	0.488													79	239	---	---	---	---	PASS	A	247419831	A	A	247419831	4	1	121	1	0	0	0	0	0	1	0	0	17178	1821	63	5	460	5	VN1R5	1	247419831	Nonsense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	9815052	247419831	1830790	21	44731										
OR2G3	81469	broad.mit.edu	37	chr1	247769642	247769642	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tacagtggtgattatattctAtggcaccataatctacgtgt	8	7	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:247769642A>T	uc010pyz.1	+	1	755	c.755A>T	c.(754-756)TAT>TTT	p.Y252F		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	252	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			ATTATATTCTATGGCACCATA	0.488													68	78	---	---	---	---	PASS	T	247769642	T	T	247769642	3	4	121	1	0	0	0	0	1	0	0	0	10999	449	16	5	757	5	OR2G3	1	247769642	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	349811	247769642	1480979	22	44732										
TRIM58	25893	broad.mit.edu	37	chr1	248039548	248039548	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtgcctcttctccaactggaAagtcctcgctgcattgggat	10	12	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:248039548A>C	uc001ido.2	+	6	1266	c.1218A>C	c.(1216-1218)GAA>GAC	p.E406D	OR2W3_uc001idp.1_Intron	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	406	B30.2/SPRY.					intracellular	zinc ion binding	p.E406*(1)		skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TCCAACTGGAAAGTCCTCGCT	0.488													103	362	---	---	---	---	PASS	C	248039548	C	C	248039548	3	2	121	1	0	0	0	0	1	0	0	0	16528	11	1	5	1240	5	TRIM58	1	248039548	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	269906	248039548	1211073	23	44733										
OR2T1	26696	broad.mit.edu	37	chr1	248570350	248570350	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggatgtgactggagctctgaAgagggccttggggaggttca	18	6	2	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr1:248570350A>G	uc010pzm.1	+	1	1055	c.1055A>G	c.(1054-1056)AAG>AGG	p.K352R		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	352	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGAGCTCTGAAGAGGGCCTTG	0.522													69	375	---	---	---	---	PASS	G	248570350	G	G	248570350	3	3	121	1	0	0	0	0	1	0	0	0	11016	72	3	5	1057	5	OR2T1	1	248570350	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	530802	248570350	680271	24	44734										
DYNC2LI1	51626	broad.mit.edu	37	chr2	44032358	44032358	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cagtatgctgaaaatgaagtCgatgagatgagaattcagaa	11	4	1	5			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:44032358C>T	uc002rtk.2	+	12	1062	c.966C>T	c.(964-966)GTC>GTT	p.V322V	DYNC2LI1_uc002rtj.2_Silent_p.V322V|DYNC2LI1_uc002rtl.2_Silent_p.V323V|DYNC2LI1_uc010ynz.1_Silent_p.V196V	NM_016008	NP_057092	Q8TCX1	DC2L1_HUMAN	dynein 2 light intermediate chain isoform 1	322						apical part of cell|axonemal dynein complex|cilium axoneme|cytoplasm|microtubule|motile primary cilium	motor activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				AAAATGAAGTCGATGAGATGA	0.378													64	79	---	---	---	---	PASS	T	44032358	T	T	44032358	2	4	121	1	0	0	0	0	0	0	0	1	4847	871	31	2		2	DYNC2LI1	2	44032358	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08		44032358	199167015	25	44735										
ETAA1	54465	broad.mit.edu	37	chr2	67630366	67630366	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ttgtttaataggttaaaaacAcaaagtcaagaagaagaact	7	4	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:67630366A>T	uc002sdz.1	+	5	691	c.552A>T	c.(550-552)ACA>ACT	p.T184T		NM_019002	NP_061875	Q9NY74	ETAA1_HUMAN	ETAA16 protein	184	Potential.					cytoplasm|nucleus				ovary(3)|large_intestine(1)	4						GGTTAAAAACACAAAGTCAAG	0.259													29	51	---	---	---	---	PASS	T	67630366	T	T	67630366	2	4	121	1	0	0	0	0	0	0	0	1	5267	146	6	5		5	ETAA1	2	67630366	Silent	SNP	A	TCGA-60-2708-01A-01D-1522-08	23598008	67630366	175569007	26	44736										
DUSP11	8446	broad.mit.edu	37	chr2	73993667	73993667	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ttattgtggactggttgcatGagatgtgctgagtcttcaaa	12	5	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:73993667G>A	uc002sjp.2	-	8	855	c.813C>T	c.(811-813)CTC>CTT	p.L271L		NM_003584	NP_003575	O75319	DUS11_HUMAN	dual specificity phosphatase 11	224					RNA processing	nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity|RNA binding			skin(1)	1						CTGGTTGCATGAGATGTGCTG	0.418													76	215	---	---	---	---	PASS	A	73993667	A	A	73993667	2	1	121	1	0	0	0	0	0	0	0	1	4811	1277	45	2		2	DUSP11	2	73993667	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	6363301	73993667	169205706	27	44737										
VPS24	51652	broad.mit.edu	37	chr2	86769390	86769390	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cttaccccttatttgcctgtCaacaactctcatttcctttc	2	15	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:86769390C>G	uc002srj.2	-	2	220	c.91G>C	c.(91-93)GAC>CAC	p.D31H	VPS24_uc002srk.2_Intron|VPS24_uc002srl.2_Missense_Mutation_p.D31H|VPS24_uc010ytl.1_Missense_Mutation_p.D60H	NM_016079	NP_057163	Q9Y3E7	CHMP3_HUMAN	vacuolar protein sorting 24 isoform 1	31	Potential.|Intramolecular interaction with C- terminus.				cell cycle|cell division|cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			central_nervous_system(1)	1						ATTTGCCTGTCAACAACTCTC	0.328													21	137	---	---	---	---	PASS	G	86769390	G	G	86769390	3	3	121	1	0	0	0	0	1	0	0	0	17192	826	29	2	597	2	VPS24	2	86769390	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	12775723	86769390	156429983	28	44738										
CNGA3	1261	broad.mit.edu	37	chr2	99013489	99013489	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cgatgaggagctggccagggCgggcgcggaccccaaggacc	18	13	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:99013489C>T	uc002syt.2	+	8	2273	c.1856C>T	c.(1855-1857)GCG>GTG	p.A619V	CNGA3_uc002syu.2_Missense_Mutation_p.A601V|CNGA3_uc010fij.2_Missense_Mutation_p.A623V	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	619					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						CTGGCCAGGGCGGGCGCGGAC	0.622													9	31	---	---	---	---	PASS	T	99013489	T	T	99013489	3	4	121	1	0	0	0	0	1	0	0	0	3598	768	27	1	1882	1	CNGA3	2	99013489	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	12244099	99013489	144185884	29	44739										
SPOPL	339745	broad.mit.edu	37	chr2	139326626	139326626	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgtccacagtttggcattccAcgcaaacggctaaaacagtc	8	12	0	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:139326626A>T	uc002tvh.2	+	11	1555	c.1155A>T	c.(1153-1155)CCA>CCT	p.P385P		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	385						nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		TTGGCATTCCACGCAAACGGC	0.443													288	301	---	---	---	---	PASS	T	139326626	T	T	139326626	2	4	121	1	0	0	0	0	0	0	0	1	15084	146	6	5		5	SPOPL	2	139326626	Silent	SNP	A	TCGA-60-2708-01A-01D-1522-08	40313137	139326626	103872747	30	44740										
STK39	27347	broad.mit.edu	37	chr2	169023809	169023809	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	caacaacaaaatccacttacCtccacttagtaatttcatga	2	12	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:169023809C>A	uc002uea.2	-	3	590	c.430G>T	c.(430-432)GGT>TGT	p.G144C		NM_013233	NP_037365	Q9UEW8	STK39_HUMAN	serine threonine kinase 39 (STE20/SPS1 homolog,	144	Protein kinase.				response to stress	cytoplasm|nucleus	ATP binding|protein binding|receptor signaling protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2						ATCCACTTACCTCCACTTAGT	0.398													50	41	---	---	---	---	PASS	A	169023809	A	A	169023809	3	1	121	1	0	0	0	0	1	0	0	0	15304	695	24	3	1271	3	STK39	2	169023809	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	29697183	169023809	74175564	31	44741										
TTN	7273	broad.mit.edu	37	chr2	179393337	179393343	+	Frame_Shift_Del	DEL	TTAATAT	-	-													0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agagaacattttgtccttcaTtaatattttgagatctaggc							TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:179393337_179393343delTTAATAT	uc010zfg.1	-	309	99655_99661	c.99431_99437delATATTAA	c.(99430-99438)AATATTAATfs	p.N33144fs	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Frame_Shift_Del_p.N26839fs|TTN_uc010zfi.1_Frame_Shift_Del_p.N26772fs|TTN_uc010zfj.1_Frame_Shift_Del_p.N26647fs|TTN_uc002umq.2_Frame_Shift_Del_p.N161fs	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34071_34073							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)			TTGTCCTTCATTAATATTTTGAGATCT	0.391													29	27	---	---	---	---		-	179393343	-	-	179393337	7	5	121	1	0	1	0	1	0	0	0	0	16732	1493	52	0	850	0	TTN	2	179393337	Frame_Shift_Del	DEL	TTAATAT	TCGA-60-2708-01A-01D-1522-08	10369528	179393337	63806036	32	44742										
TTN	7273	broad.mit.edu	37	chr2	179399114	179399114	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ttagtactgactctttctatCttctgcttcaaccatgggtg	7	10	5	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:179399114C>T	uc010zfg.1	-	307	94748	c.94524G>A	c.(94522-94524)AAG>AAA	p.K31508K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.K25203K|TTN_uc010zfi.1_Silent_p.K25136K|TTN_uc010zfj.1_Silent_p.K25011K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32435							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)			CTCTTTCTATCTTCTGCTTCA	0.458													35	145	---	---	---	---	PASS	T	179399114	T	T	179399114	2	4	121	1	0	0	0	0	0	0	0	1	16732	912	32	2		2	TTN	2	179399114	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	5777	179399114	63800259	33	44743										
STAT1	6772	broad.mit.edu	37	chr2	191845378	191845378	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cgtccacggaatgagaccatCggggctggcgttaggaccta	14	11	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:191845378C>T	uc002usj.2	-	19	1988	c.1600G>A	c.(1600-1602)GAT>AAT	p.D534N	STAT1_uc010fse.1_Missense_Mutation_p.D534N|STAT1_uc002usk.2_Missense_Mutation_p.D534N|STAT1_uc002usl.2_Missense_Mutation_p.D536N|STAT1_uc010fsf.1_Missense_Mutation_p.D346N	NM_007315	NP_009330	P42224	STAT1_HUMAN	signal transducer and activator of transcription	534					activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)	ATGAGACCATCGGGGCTGGCG	0.433													16	64	---	---	---	---	PASS	T	191845378	T	T	191845378	3	4	121	1	0	0	0	0	1	0	0	0	15263	884	31	2	684	2	STAT1	2	191845378	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	12446264	191845378	51353995	34	44744										
PLCL1	5334	broad.mit.edu	37	chr2	198950527	198950527	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggaattccagcggattgttcGgaacaaagaactaaaactgt	10	7	0	1	rs144546582		TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:198950527G>A	uc010fsp.2	+	2	2577	c.2286G>A	c.(2284-2286)TCG>TCA	p.S762S	PLCL1_uc002uuv.3_Silent_p.S683S	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	762	C2.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	CGGATTGTTCGGAACAAAGAA	0.423													56	173	---	---	---	---	PASS	A	198950527	A	A	198950527	2	1	121	1	0	0	0	0	0	0	0	1	12039	1103	39	1		1	PLCL1	2	198950527	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	7105149	198950527	44248846	35	44745										
AOX1	316	broad.mit.edu	37	chr2	201515770	201515770	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gatcaatgccaagaacctaaTccagtgttggagagaatgta	10	7	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:201515770T>A	uc002uvx.2	+	26	3022	c.2921T>A	c.(2920-2922)ATC>AAC	p.I974N	AOX1_uc010zhf.1_Missense_Mutation_p.I530N|AOX1_uc010fsu.2_Missense_Mutation_p.I340N	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	974					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	AAGAACCTAATCCAGTGTTGG	0.393													89	98	---	---	---	---	PASS	A	201515770	A	A	201515770	3	1	121	1	0	0	0	0	1	0	0	0	729	1435	50	5	3023	5	AOX1	2	201515770	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	2565243	201515770	41683603	36	44746										
B3GNT7	93010	broad.mit.edu	37	chr2	232263482	232263482	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cgagggcttcaagactttcgGcatctcccggaaccgcaaca	10	14	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr2:232263482G>A	uc002vrs.2	+	2	1232	c.1052G>A	c.(1051-1053)GGC>GAC	p.G351D		NM_145236	NP_660279	Q8NFL0	B3GN7_HUMAN	UDP-GlcNAc:betaGal	351	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;3.22e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0139)		AAGACTTTCGGCATCTCCCGG	0.637													8	44	---	---	---	---	PASS	A	232263482	A	A	232263482	3	1	121	1	0	0	0	0	1	0	0	0	1262	1203	42	3	1058	3	B3GNT7	2	232263482	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	30747712	232263482	10935891	37	44747										
CNTN4	152330	broad.mit.edu	37	chr3	3081782	3081782	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgtggtggccttccggccctAcggtaaaatgatctggatgc	13	10	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr3:3081782A>G	uc003bpc.2	+	19	2446	c.2225A>G	c.(2224-2226)TAC>TGC	p.Y742C	CNTN4_uc003bpb.1_Missense_Mutation_p.Y413C|CNTN4_uc003bpe.2_Missense_Mutation_p.Y414C|CNTN4_uc003bpf.2_Missense_Mutation_p.Y413C|CNTN4_uc003bpg.2_5'UTR	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	742	Fibronectin type-III 2.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		TTCCGGCCCTACGGTAAAATG	0.517													44	49	---	---	---	---	PASS	G	3081782	G	G	3081782	3	3	121	1	0	0	0	0	1	0	0	0	3643	391	14	5	2291	5	CNTN4	3	3081782	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08		3081782	194940648	38	44748										
VHL	7428	broad.mit.edu	37	chr3	10183766	10183766	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cccaggtcatcttctgcaatCgcagtccgcgcgtcgtgctg	11	15	3	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr3:10183766C>G	uc003bvc.2	+	1	448	c.235C>G	c.(235-237)CGC>GGC	p.R79G	VHL_uc003bvd.2_Missense_Mutation_p.R79G	NM_000551	NP_000542	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor isoform 1	79			R -> P (in VHLD).		anti-apoptosis|cell morphogenesis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell differentiation|positive regulation of transcription, DNA-dependent|protein stabilization|protein ubiquitination|proteolysis	cytosol|endoplasmic reticulum|membrane|mitochondrion|nucleus	protein binding|transcription factor binding	p.F76fs*80(2)|p.R79fs*80(2)|p.S72_V87>L(1)|p.R79R(1)|p.R60fs*35(1)|p.R79P(1)|p.R79_P81>P(1)|p.C77_R79del(1)|p.N78_R79insN(1)|p.R79H(1)|p.N78fs*80(1)|p.V74fs*77(1)|p.F76fs*81(1)|p.R79fs*52(1)|p.R79fs*88(1)		kidney(1273)|soft_tissue(24)|adrenal_gland(15)|large_intestine(13)|pancreas(5)|endometrium(4)|thyroid(3)|upper_aerodigestive_tract(3)|central_nervous_system(2)|lung(2)|pleura(1)|paratesticular_tissues(1)	1346				Kidney(1;0.000404)|KIRC - Kidney renal clear cell carcinoma(1;0.000569)		CTTCTGCAATCGCAGTCCGCG	0.711		1	D|Mis|N|F|S		renal|hemangioma|pheochromocytoma	renal|hemangioma|pheochromocytoma			von_Hippel-Lindau_disease|Chuvash_Polycythemia_|Pheochromocytoma_(Adrenal)_Familial				5	9	---	---	---	---	PASS	G	10183766	G	G	10183766	3	3	121	1	0	0	0	0	1	0	0	0	17159	884	31	2	237	2	VHL	3	10183766	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	7101984	10183766	187838664	39	44749										
EPM2AIP1	9852	broad.mit.edu	37	chr3	37032748	37032748	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tcttgtactacaaagccttaTggattagattcatttctttc	5	8	3	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr3:37032748T>C	uc003cgk.2	-	1	2048	c.1821A>G	c.(1819-1821)CCA>CCG	p.P607P	MLH1_uc011aye.1_5'Flank|MLH1_uc003cgl.2_5'Flank|MLH1_uc011ayb.1_5'Flank|MLH1_uc010hge.2_5'Flank|MLH1_uc003cgn.3_5'Flank|MLH1_uc011ayc.1_5'Flank|MLH1_uc011ayd.1_5'Flank|MLH1_uc003cgo.2_5'Flank	NM_014805	NP_055620	Q7L775	EPMIP_HUMAN	EPM2A interacting protein 1	607						endoplasmic reticulum					0						CAAAGCCTTATGGATTAGATT	0.368													44	65	---	---	---	---	PASS	C	37032748	C	C	37032748	2	2	121	1	0	0	0	0	0	0	0	1	5184	1451	51	5		5	EPM2AIP1	3	37032748	Silent	SNP	T	TCGA-60-2708-01A-01D-1522-08	26848982	37032748	160989682	40	44750										
CSRNP1	64651	broad.mit.edu	37	chr3	39185792	39185792	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cctcagcagagctcgacgtcGccgggctgggtagggctgta	16	12	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr3:39185792G>A	uc003cjg.2	-	4	830	c.616C>T	c.(616-618)CGA>TGA	p.R206*	CSRNP1_uc003cjh.2_Nonsense_Mutation_p.R206*	NM_033027	NP_149016	Q96S65	CSRN1_HUMAN	AXIN1 up-regulated 1	206					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(4)|skin(1)	5						GCTCGACGTCGCCGGGCTGGG	0.632													58	54	---	---	---	---	PASS	A	39185792	A	A	39185792	4	1	121	1	0	0	0	0	0	1	0	0	3963	1095	38	1	1161	1	CSRNP1	3	39185792	Nonsense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	2153044	39185792	158836638	41	44751										
KBTBD5	131377	broad.mit.edu	37	chr3	42729785	42729785	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cctggactcggtcatgtgctAcgacaggctgtgagcatggc	14	11	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr3:42729785A>G	uc003clv.1	+	2	1404	c.1304A>G	c.(1303-1305)TAC>TGC	p.Y435C		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	435	Kelch 2.									ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		GTCATGTGCTACGACAGGCTG	0.647													15	13	---	---	---	---	PASS	G	42729785	G	G	42729785	3	3	121	1	0	0	0	0	1	0	0	0	7996	391	14	5	1310	5	KBTBD5	3	42729785	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	3543993	42729785	155292645	42	44752										
KIF15	56992	broad.mit.edu	37	chr3	44882596	44882596	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	caccacctcactttcaaacaCatttggcaaaactcctggaa	4	14	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr3:44882596C>A	uc003cnx.3	+	29	3600	c.3451C>A	c.(3451-3453)CAT>AAT	p.H1151N	KIF15_uc010hiq.2_Missense_Mutation_p.H1054N|KIF15_uc010hir.2_Missense_Mutation_p.H199N	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	1151	Potential.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		CTTTCAAACACATTTGGCAAA	0.338													20	41	---	---	---	---	PASS	A	44882596	A	A	44882596	3	1	121	1	0	0	0	0	1	0	0	0	8277	478	17	3	3565	3	KIF15	3	44882596	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	2152811	44882596	153139834	43	44753										
BAP1	8314	broad.mit.edu	37	chr3	52443746	52443746	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ttaccgaaatcttccacgagCagggtgaagaggcctgggtg	14	9	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr3:52443746C>A	uc003ddx.2	-	2	166	c.51G>T	c.(49-51)CTG>CTT	p.L17L	PHF7_uc003ddy.2_5'Flank|PHF7_uc003ddz.2_5'Flank	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	17					monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity	p.?(1)		pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		CTTCCACGAGCAGGGTGAAGA	0.692			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								3	38	---	---	---	---	PASS	A	52443746	A	A	52443746	2	1	121	1	0	0	0	0	0	0	0	1	1311	697	25	3		3	BAP1	3	52443746	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	7561150	52443746	145578684	44	44754										
CRYBG3	131544	broad.mit.edu	37	chr3	97660112	97660112	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cctatagtggaaagaatactCagatctggtactactgccga	9	9	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr3:97660112C>G	uc003drx.2	+	17	2846	c.2782C>G	c.(2782-2784)CAG>GAG	p.Q928E	CRYBG3_uc010hoz.1_RNA	NM_153605	NP_705833			beta-gamma crystallin domain containing 3												0						AAAGAATACTCAGATCTGGTA	0.433													52	218	---	---	---	---	PASS	G	97660112	G	G	97660112	3	3	121	1	0	0	0	0	1	0	0	0	3913	827	29	2	2848	2	CRYBG3	3	97660112	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	45216366	97660112	100362318	45	44755										
KALRN	8997	broad.mit.edu	37	chr3	124351436	124351436	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cgtcggcttaacagcgggaaGgcagatggaaacatcaaaaa	12	8	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr3:124351436G>T	uc003ehg.2	+	35	5473	c.5346G>T	c.(5344-5346)AAG>AAT	p.K1782N	KALRN_uc003ehi.2_Missense_Mutation_p.K155N|KALRN_uc003ehk.2_Missense_Mutation_p.K85N|KALRN_uc003ehj.2_Missense_Mutation_p.K85N	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1782					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						ACAGCGGGAAGGCAGATGGAA	0.557													62	123	---	---	---	---	PASS	T	124351436	T	T	124351436	3	4	121	1	0	0	0	0	1	0	0	0	7975	991	35	3	5640	3	KALRN	3	124351436	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	26691324	124351436	73670994	46	44756										
TRIM42	287015	broad.mit.edu	37	chr3	140407277	140407277	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gagcagacagccagtctgtaCagaacagcagcagcttccac	10	13	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr3:140407277C>A	uc003eto.1	+	3	1944	c.1753C>A	c.(1753-1755)CAG>AAG	p.Q585K		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	585						intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						CCAGTCTGTACAGAACAGCAG	0.577													71	123	---	---	---	---	PASS	A	140407277	A	A	140407277	3	1	121	1	0	0	0	0	1	0	0	0	16514	479	17	3	1763	3	TRIM42	3	140407277	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	16055841	140407277	57615153	47	44757										
PEX5L	51555	broad.mit.edu	37	chr3	179616027	179616027	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ccttatctgccgccctagagCcttttccctataacagtgaa	6	14	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr3:179616027C>T	uc003fki.1	-	3	231	c.101G>A	c.(100-102)GGC>GAC	p.G34D	PEX5L_uc011bqd.1_5'UTR|PEX5L_uc011bqe.1_Intron|PEX5L_uc011bqf.1_5'UTR|PEX5L_uc003fkj.1_Intron|PEX5L_uc010hxd.1_Missense_Mutation_p.G32D|PEX5L_uc011bqg.1_Missense_Mutation_p.G10D|PEX5L_uc011bqh.1_Intron	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	34					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			CGCCCTAGAGCCTTTTCCCTA	0.418													80	160	---	---	---	---	PASS	T	179616027	T	T	179616027	3	4	121	1	0	0	0	0	1	0	0	0	11749	739	26	3	1831	3	PEX5L	3	179616027	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	39208750	179616027	18406403	48	44758										
IDUA	3425	broad.mit.edu	37	chr4	995294	995294	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	atgtttccaagtggaacttcGagacgtggaatgagccagac	12	8	0	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr4:995294G>A	uc003gby.2	+	5	620	c.532G>A	c.(532-534)GAG>AAG	p.E178K	IDUA_uc003gbz.2_RNA|IDUA_uc003gca.2_Missense_Mutation_p.E131K	NM_000203	NP_000194	P35475	IDUA_HUMAN	alpha-L-iduronidase precursor	178					disaccharide metabolic process	lysosome	cation binding|L-iduronidase activity				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)		Laronidase(DB00090)	GTGGAACTTCGAGACGTGGAA	0.597													40	135	---	---	---	---	PASS	A	995294	A	A	995294	3	1	121	1	0	0	0	0	1	0	0	0	7504	1059	37	2	550	2	IDUA	4	995294	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08		995294	190158982	49	44759										
IDUA	3425	broad.mit.edu	37	chr4	995327	995327	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agccagaccaccacgactttGacaacgtctccatgaccatg	7	15	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr4:995327G>C	uc003gby.2	+	5	653	c.565G>C	c.(565-567)GAC>CAC	p.D189H	IDUA_uc003gbz.2_RNA|IDUA_uc003gca.2_Missense_Mutation_p.D142H	NM_000203	NP_000194	P35475	IDUA_HUMAN	alpha-L-iduronidase precursor	189					disaccharide metabolic process	lysosome	cation binding|L-iduronidase activity				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)		Laronidase(DB00090)	CCACGACTTTGACAACGTCTC	0.602													39	107	---	---	---	---	PASS	C	995327	C	C	995327	3	2	121	1	0	0	0	0	1	0	0	0	7504	1290	45	2	583	2	IDUA	4	995327	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	33	995327	190158949	50	44760										
PCDH7	5099	broad.mit.edu	37	chr4	30723874	30723874	+	Frame_Shift_Del	DEL	C	-	-													0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gcgcgactcctacgagctgaCcctgcgagtgcgcgacggcg							TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr4:30723874delC	uc003gsk.1	+	1	1838	c.830delC	c.(829-831)ACCfs	p.T277fs	PCDH7_uc011bxw.1_Intron|PCDH7_uc011bxx.1_Frame_Shift_Del_p.T277fs	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	277	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						TACGAGCTGACCCTGCGAGTG	0.692													2	6	---	---	---	---		-	30723874	-	-	30723874	7	5	121	1	0	1	0	1	0	0	0	0	11516	507	18	0	832	0	PCDH7	4	30723874	Frame_Shift_Del	DEL	C	TCGA-60-2708-01A-01D-1522-08	29728547	30723874	160430402	51	44761										
TECRL	253017	broad.mit.edu	37	chr4	65275039	65275039	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aagtaatgctctcttgcgttCcgaagcgagggacttgtgcc	12	10	1	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr4:65275039C>T	uc003hcv.2	-	1	140	c.31G>A	c.(31-33)GAA>AAA	p.E11K	TECRL_uc003hcw.2_Missense_Mutation_p.E11K	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	11					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						CTCTTGCGTTCCGAAGCGAGG	0.418													101	86	---	---	---	---	PASS	T	65275039	T	T	65275039	3	4	121	1	0	0	0	0	1	0	0	0	15743	864	30	2	1108	2	TECRL	4	65275039	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	34551165	65275039	125879237	52	44762										
PDE5A	8654	broad.mit.edu	37	chr4	120419875	120419875	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tagcaaagggaaacagtcctCtgacacgtgggtcagggcct	13	10	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr4:120419875C>T	uc003idh.2	-	21	2664	c.2509G>A	c.(2509-2511)GAG>AAG	p.E837K	uc003ide.3_Intron|PDE5A_uc003idf.2_Missense_Mutation_p.E795K|PDE5A_uc003idg.2_Missense_Mutation_p.E785K	NM_001083	NP_001074	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 1	837	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)	AAACAGTCCTCTGACACGTGG	0.502													4	155	---	---	---	---	PASS	T	120419875	T	T	120419875	3	4	121	1	0	0	0	0	1	0	0	0	11644	922	32	2	122	2	PDE5A	4	120419875	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	55144836	120419875	70734401	53	44763										
RXFP1	59350	broad.mit.edu	37	chr4	159559192	159559192	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	taatccaatccagaaaattcAagcaaaccaatttgattatc	3	9	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr4:159559192A>G	uc003ipz.2	+	13	1086	c.1004A>G	c.(1003-1005)CAA>CGA	p.Q335R	RXFP1_uc010iqj.1_Missense_Mutation_p.Q164R|RXFP1_uc011cja.1_Missense_Mutation_p.Q230R|RXFP1_uc010iqo.2_Intron|RXFP1_uc011cjb.1_Intron|RXFP1_uc010iqk.2_Missense_Mutation_p.Q203R|RXFP1_uc011cjc.1_Missense_Mutation_p.Q254R|RXFP1_uc011cjd.1_Missense_Mutation_p.Q254R|RXFP1_uc010iql.2_Missense_Mutation_p.Q179R|RXFP1_uc011cje.1_Missense_Mutation_p.Q362R|RXFP1_uc010iqm.2_Missense_Mutation_p.Q302R|RXFP1_uc011cjf.1_Missense_Mutation_p.Q205R|RXFP1_uc010iqn.2_Missense_Mutation_p.Q281R	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	335	Extracellular (Potential).|LRR 8.					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		CAGAAAATTCAAGCAAACCAA	0.289													18	62	---	---	---	---	PASS	G	159559192	G	G	159559192	3	3	121	1	0	0	0	0	1	0	0	0	13759	130	5	5	1054	5	RXFP1	4	159559192	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	39139317	159559192	31595084	54	44764										
ZFP42	132625	broad.mit.edu	37	chr4	188924632	188924632	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cgtctgtgcggaatgtgggaAagcgttcgttgagagctcaa	15	7	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr4:188924632A>G	uc003izg.1	+	3	916	c.671A>G	c.(670-672)AAA>AGA	p.K224R	ZFP42_uc003izh.1_Missense_Mutation_p.K224R|ZFP42_uc003izi.1_Missense_Mutation_p.K224R	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	224	C2H2-type 2.				female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		GAATGTGGGAAAGCGTTCGTT	0.507													28	104	---	---	---	---	PASS	G	188924632	G	G	188924632	3	3	121	1	0	0	0	0	1	0	0	0	17647	14	1	5	673	5	ZFP42	4	188924632	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	29365440	188924632	2229644	55	44765										
PLCXD3	345557	broad.mit.edu	37	chr5	41313840	41313840	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cactctctcctggcttctgcGtgcggacccactgcatcatg	9	16	3	0	rs144321987	byFrequency	TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr5:41313840G>T	uc003jmm.1	-	3	947	c.845C>A	c.(844-846)ACG>AAG	p.T282K		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	282					intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						TGGCTTCTGCGTGCGGACCCA	0.423													33	25	---	---	---	---	PASS	T	41313840	T	T	41313840	3	4	121	1	0	0	0	0	1	0	0	0	12043	1145	40	1	124	1	PLCXD3	5	41313840	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08		41313840	139601420	56	44766										
FNIP1	96459	broad.mit.edu	37	chr5	131008213	131008213	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ctggcactcatctgaaattcCtagcagctccttagagctgt	8	12	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr5:131008213C>A	uc003kvs.1	-	14	2066	c.1924G>T	c.(1924-1926)GGA>TGA	p.G642*	RAPGEF6_uc003kvp.1_Intron|FNIP1_uc003kvt.1_Nonsense_Mutation_p.G614*|FNIP1_uc010jdm.1_Nonsense_Mutation_p.G597*	NM_133372	NP_588613	Q8TF40	FNIP1_HUMAN	folliculin interacting protein 1 isoform 1	642					regulation of protein phosphorylation	cytoplasm	protein binding			pancreas(1)|skin(1)	2		all_cancers(142;0.00347)|Lung NSC(810;0.106)|all_lung(232;0.123)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0665)		TCTGAAATTCCTAGCAGCTCC	0.373													173	159	---	---	---	---	PASS	A	131008213	A	A	131008213	4	1	121	1	0	0	0	0	0	1	0	0	5975	690	24	3	1596	3	FNIP1	5	131008213	Nonsense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	89694373	131008213	49907047	57	44767										
AFF4	27125	broad.mit.edu	37	chr5	132232283	132232283	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agctatcttcttcctccactGaggagggtttaacaggagtc	10	10	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr5:132232283G>T	uc003kyd.2	-	11	2447	c.2039C>A	c.(2038-2040)TCA>TAA	p.S680*	AFF4_uc011cxk.1_Nonsense_Mutation_p.S358*|AFF4_uc003kye.1_Nonsense_Mutation_p.S680*	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	680					transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTCCTCCACTGAGGAGGGTTT	0.478													90	67	---	---	---	---	PASS	T	132232283	T	T	132232283	4	4	121	1	0	0	0	0	0	1	0	0	359	1294	45	2	1496	2	AFF4	5	132232283	Nonsense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	1224070	132232283	48682977	58	44768										
PCDHB3	56132	broad.mit.edu	37	chr5	140481455	140481455	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	acaccctagtgtcagaaggcGcgctggacagagagaccaga	13	11	1	4			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr5:140481455G>A	uc003lio.2	+	1	1222	c.1222G>A	c.(1222-1224)GCG>ACG	p.A408T	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	408	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTCAGAAGGCGCGCTGGACAG	0.483													37	74	---	---	---	---	PASS	A	140481455	A	A	140481455	3	1	121	1	0	0	0	0	1	0	0	0	11543	1087	38	1	1224	1	PCDHB3	5	140481455	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	8249172	140481455	40433805	59	44769										
PCDHB10	56126	broad.mit.edu	37	chr5	140573030	140573030	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tcctttttctggggaaatctTtctcagagaattgcttgatt	8	7	3	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr5:140573030T>G	uc003lix.2	+	1	1079	c.905T>G	c.(904-906)TTT>TGT	p.F302C		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	302	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGGGAAATCTTTCTCAGAGAA	0.373													43	97	---	---	---	---	PASS	G	140573030	G	G	140573030	3	3	121	1	0	0	0	0	1	0	0	0	11535	1841	64	5	907	5	PCDHB10	5	140573030	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	91575	140573030	40342230	60	44770										
PCDHGB2	56103	broad.mit.edu	37	chr5	140740522	140740522	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ccgaccgggatgaaggcataAacgcagagatcacctactcc	10	13	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr5:140740522A>C	uc003ljs.1	+	1	820	c.820A>C	c.(820-822)AAC>CAC	p.N274H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Missense_Mutation_p.N274H	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	274	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAAGGCATAAACGCAGAGAT	0.478													14	47	---	---	---	---	PASS	C	140740522	C	C	140740522	3	2	121	1	0	0	0	0	1	0	0	0	11563	14	1	5	822	5	PCDHGB2	5	140740522	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	167492	140740522	40174738	61	44771										
PPARGC1B	133522	broad.mit.edu	37	chr5	149213089	149213089	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gttctcggagactgaaccctGagctgggcccctggctgaca	13	13	1	4			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr5:149213089G>T	uc003lrc.2	+	5	1495	c.1453G>T	c.(1453-1455)GAG>TAG	p.E485*	PPARGC1B_uc003lrb.1_Nonsense_Mutation_p.E485*|PPARGC1B_uc003lrd.2_Nonsense_Mutation_p.E446*|PPARGC1B_uc003lrf.2_Nonsense_Mutation_p.E464*|PPARGC1B_uc003lre.1_Nonsense_Mutation_p.E464*	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	485					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			ACTGAACCCTGAGCTGGGCCC	0.662													7	1	---	---	---	---	PASS	T	149213089	T	T	149213089	4	4	121	1	0	0	0	0	0	1	0	0	12301	1291	45	2	1478	2	PPARGC1B	5	149213089	Nonsense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	8472567	149213089	31702171	62	44772										
CCNJL	79616	broad.mit.edu	37	chr5	159680620	159680620	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggtgggcctgcaaggagtccCgataggccaagcataggtcc	15	11	0	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr5:159680620C>A	uc003lyb.1	-	7	1325	c.1073G>T	c.(1072-1074)CGG>CTG	p.R358L	CCNJL_uc011dee.1_Missense_Mutation_p.R310L|CCNJL_uc003lyc.1_RNA	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	358						nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAAGGAGTCCCGATAGGCCAA	0.647													52	35	---	---	---	---	PASS	A	159680620	A	A	159680620	3	1	121	1	0	0	0	0	1	0	0	0	2929	652	23	1	238	1	CCNJL	5	159680620	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	10467531	159680620	21234640	63	44773										
PRPF4B	8899	broad.mit.edu	37	chr6	4032628	4032628	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gcgatcgaggtaaaaaatccAgatccccagttgatttaaga	9	8	0	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:4032628A>G	uc003mvv.2	+	2	968	c.877A>G	c.(877-879)AGA>GGA	p.R293G	PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	293	Arg/Lys-rich (basic).					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				TAAAAAATCCAGATCCCCAGT	0.338													54	103	---	---	---	---	PASS	G	4032628	G	G	4032628	3	3	121	1	0	0	0	0	1	0	0	0	12573	180	7	5	883	5	PRPF4B	6	4032628	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08		4032628	167082439	64	44774										
SLC17A2	10246	broad.mit.edu	37	chr6	25917239	25917239	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	atgtgctccttttccctaacActtatgcacgggtgatgcat	8	11	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:25917239A>T	uc011dkb.1	-	6	809	c.726T>A	c.(724-726)AGT>AGA	p.S242R	SLC17A2_uc011dkc.1_Missense_Mutation_p.S242R|SLC17A2_uc003nfl.2_Missense_Mutation_p.S242R			O00624	NPT3_HUMAN	SubName: Full=Solute carrier family 17 (Sodium phosphate), member 2, isoform CRA_b; SubName: Full=Putative uncharacterized protein SLC17A2;	242					phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			ovary(1)	1						TTTCCCTAACACTTATGCACG	0.512													29	67	---	---	---	---	PASS	T	25917239	T	T	25917239	3	4	121	1	0	0	0	0	1	0	0	0	14417	156	6	5	604	5	SLC17A2	6	25917239	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	21884611	25917239	145197828	65	44775										
HIST1H2BF	8343	broad.mit.edu	37	chr6	26200140	26200140	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtgtcagagggcaccaaggcCgtcaccaagtacaccagctc	11	14	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:26200140C>A	uc003ngx.2	+	1	354	c.354C>A	c.(352-354)GCC>GCA	p.A118A	HIST1H3D_uc003ngv.2_5'Flank|HIST1H2AD_uc003ngw.2_5'Flank	NM_003522	NP_003513	P62807	H2B1C_HUMAN	histone cluster 1, H2bf	118					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0		all_hematologic(11;0.196)				GCACCAAGGCCGTCACCAAGT	0.542													27	61	---	---	---	---	PASS	A	26200140	A	A	26200140	2	1	121	1	0	0	0	0	0	0	0	1	7145	639	23	1		1	HIST1H2BF	6	26200140	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	282901	26200140	144914927	66	44776										
NEU1	4758	broad.mit.edu	37	chr6	31828353	31828353	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tccgtcccgctccagcgtccCatggccacacacgatgaggc	10	18	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:31828353C>A	uc003nxq.3	-	4	817	c.661G>T	c.(661-663)GGG>TGG	p.G221W	NEU1_uc010jtg.2_RNA|NEU1_uc003nxr.3_RNA|NEU1_uc010jth.2_Missense_Mutation_p.G52W|NEU1_uc003nxs.3_Missense_Mutation_p.G221W	NM_000434	NP_000425	Q99519	NEUR1_HUMAN	neuraminidase precursor	221						cytoplasmic membrane-bounded vesicle|lysosomal lumen|lysosomal membrane|plasma membrane	exo-alpha-sialidase activity|protein binding			ovary(1)	1					Oseltamivir(DB00198)|Zanamivir(DB00558)	TCCAGCGTCCCATGGCCACAC	0.632													38	117	---	---	---	---	PASS	A	31828353	A	A	31828353	3	1	121	1	0	0	0	0	1	0	0	0	10341	594	21	3	598	3	NEU1	6	31828353	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	5628213	31828353	139286714	67	44777										
SYNGAP1	8831	broad.mit.edu	37	chr6	33408702	33408702	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agacctcacgaaccctcaccCtcattgccaaggtcatccag	6	17	4	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:33408702C>T	uc011dri.1	+	11	2068	c.1873C>T	c.(1873-1875)CTC>TTC	p.L625F	SYNGAP1_uc010juy.2_Missense_Mutation_p.L610F|SYNGAP1_uc010juz.2_Missense_Mutation_p.L337F	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	625	Ras-GAP.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						AACCCTCACCCTCATTGCCAA	0.438													6	61	---	---	---	---	PASS	T	33408702	T	T	33408702	3	4	121	1	0	0	0	0	1	0	0	0	15444	681	24	3	1915	3	SYNGAP1	6	33408702	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	1580349	33408702	137706365	68	44778										
MAPK13	5603	broad.mit.edu	37	chr6	36100432	36100432	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggatgtcttcaccccagcctCctccctgcgcaacttctatg	7	17	3	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:36100432C>T	uc003ols.2	+	3	382	c.284C>T	c.(283-285)TCC>TTC	p.S95F	MAPK13_uc003olt.2_RNA	NM_002754	NP_002745	O15264	MK13_HUMAN	mitogen-activated protein kinase 13	95	Protein kinase.				cell cycle|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|positive regulation of interleukin-6 production|Ras protein signal transduction|response to stress		ATP binding|MAP kinase activity|protein binding			breast(2)|central_nervous_system(1)	3						ACCCCAGCCTCCTCCCTGCGC	0.607													21	214	---	---	---	---	PASS	T	36100432	T	T	36100432	3	4	121	1	0	0	0	0	1	0	0	0	9275	855	30	2	294	2	MAPK13	6	36100432	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	2691730	36100432	135014635	69	44779										
TTBK1	84630	broad.mit.edu	37	chr6	43220491	43220491	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tcatagctgaaaaagatcggGggcgggggctttggtgagat	17	5	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:43220491G>T	uc003ouq.1	+	3	402	c.123G>T	c.(121-123)GGG>GGT	p.G41G		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	41	ATP (By similarity).|Protein kinase.					cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			AAAAGATCGGGGGCGGGGGCT	0.582													30	56	---	---	---	---	PASS	T	43220491	T	T	43220491	2	4	121	1	0	0	0	0	0	0	0	1	16673	1219	43	3		3	TTBK1	6	43220491	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	7120059	43220491	127894576	70	44780										
ZNF292	23036	broad.mit.edu	37	chr6	87969104	87969104	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gctatgacaaaggatgcactAtttaagcactatggtaaaat	8	6	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:87969104A>G	uc003plm.3	+	8	5798	c.5757A>G	c.(5755-5757)CTA>CTG	p.L1919L		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1919	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		AGGATGCACTATTTAAGCACT	0.308													18	28	---	---	---	---	PASS	G	87969104	G	G	87969104	2	3	121	1	0	0	0	0	0	0	0	1	17823	436	16	5		5	ZNF292	6	87969104	Silent	SNP	A	TCGA-60-2708-01A-01D-1522-08	44748613	87969104	83145963	71	44781										
FHL5	9457	broad.mit.edu	37	chr6	97053783	97053783	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	acttttggagtacaggttccCgcaaaatggaatttaaggga	11	6	0	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:97053783C>G	uc003pos.1	+	5	745	c.340C>G	c.(340-342)CGC>GGC	p.R114G	FHL5_uc003pot.1_Missense_Mutation_p.R114G	NM_020482	NP_065228	Q5TD97	FHL5_HUMAN	activator of cAMP-responsive element modulator	114	LIM zinc-binding 2.					nucleus	zinc ion binding			ovary(2)	2		all_cancers(76;1.57e-07)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00266)|Colorectal(196;0.0341)|Lung NSC(302;0.204)		BRCA - Breast invasive adenocarcinoma(108;0.0948)		TACAGGTTCCCGCAAAATGGA	0.353													27	72	---	---	---	---	PASS	G	97053783	G	G	97053783	3	3	121	1	0	0	0	0	1	0	0	0	5881	652	23	4	350	4	FHL5	6	97053783	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	9084679	97053783	74061284	72	44782										
EPB41L2	2037	broad.mit.edu	37	chr6	131276358	131276358	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgctttcagctcattggtctGcacttccttggtctcccttt	7	13	4	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:131276358G>A	uc003qch.2	-	3	774	c.592C>T	c.(592-594)CAG>TAG	p.Q198*	EPB41L2_uc003qcg.1_Nonsense_Mutation_p.Q198*|EPB41L2_uc011eby.1_Nonsense_Mutation_p.Q198*|EPB41L2_uc003qci.2_Nonsense_Mutation_p.Q198*|EPB41L2_uc010kfk.2_Nonsense_Mutation_p.Q198*|EPB41L2_uc010kfl.1_Nonsense_Mutation_p.Q198*	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	198					cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		TCATTGGTCTGCACTTCCTTG	0.438													45	323	---	---	---	---	PASS	A	131276358	A	A	131276358	4	1	121	1	0	0	0	0	0	1	0	0	5153	1328	46	3	2493	3	EPB41L2	6	131276358	Nonsense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	34222575	131276358	39838709	73	44783										
ENPP3	5169	broad.mit.edu	37	chr6	131995401	131995401	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	caaaggaacaaaataatccaGcctggtggcatgggcaacca	10	10	0	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:131995401G>T	uc003qcu.3	+	9	1089	c.742G>T	c.(742-744)GCC>TCC	p.A248S	ENPP3_uc010kfn.1_RNA|ENPP3_uc011ecc.1_Missense_Mutation_p.A214S|ENPP3_uc010kfo.1_RNA|ENPP3_uc010kfp.1_RNA|ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Missense_Mutation_p.A248S	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	248	Extracellular (Potential).|Phosphodiesterase.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		AAATAATCCAGCCTGGTGGCA	0.423													16	77	---	---	---	---	PASS	T	131995401	T	T	131995401	3	4	121	1	0	0	0	0	1	0	0	0	5131	971	34	3	772	3	ENPP3	6	131995401	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	719043	131995401	39119666	74	44784										
KIAA1244	57221	broad.mit.edu	37	chr6	138531058	138531058	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tctttacagaagcttctgtcGgaagagaggtttgtatccat	10	7	2	2	rs138636575		TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:138531058G>A	uc003qhu.2	+	4	231	c.231G>A	c.(229-231)TCG>TCA	p.S77S		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	77					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		AGCTTCTGTCGGAAGAGAGGT	0.458													52	139	---	---	---	---	PASS	A	138531058	A	A	138531058	2	1	121	1	0	0	0	0	0	0	0	1	8217	1103	39	1		1	KIAA1244	6	138531058	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	6535657	138531058	32584009	75	44785										
SHPRH	257218	broad.mit.edu	37	chr6	146244844	146244844	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gttatttcatttcgcactcgCtgaactagctcctcatcaat	5	12	3	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:146244844C>T	uc003qlf.2	-	18	3879	c.3480G>A	c.(3478-3480)CAG>CAA	p.Q1160Q	SHPRH_uc003qld.2_Silent_p.Q1169Q|SHPRH_uc003qle.2_Silent_p.Q1169Q|SHPRH_uc003qlg.1_Silent_p.Q716Q|SHPRH_uc003qlh.2_Silent_p.Q85Q|SHPRH_uc003qli.1_Silent_p.Q85Q	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	1160					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		TTCGCACTCGCTGAACTAGCT	0.363													73	99	---	---	---	---	PASS	T	146244844	T	T	146244844	2	4	121	1	0	0	0	0	0	0	0	1	14291	796	28	3		3	SHPRH	6	146244844	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	7713786	146244844	24870223	76	44786										
ARID1B	57492	broad.mit.edu	37	chr6	157522135	157522135	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aatatgtgggcagcacgcaaTgatatgccttatccctacca	8	11	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:157522135T>C	uc003qqn.2	+	18	4505	c.4353T>C	c.(4351-4353)AAT>AAC	p.N1451N	ARID1B_uc003qqo.2_Silent_p.N1411N|ARID1B_uc003qqp.2_Silent_p.N1398N	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1456					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		CAGCACGCAATGATATGCCTT	0.617													23	37	---	---	---	---	PASS	C	157522135	C	C	157522135	2	2	121	1	0	0	0	0	0	0	0	1	914	1461	51	5		5	ARID1B	6	157522135	Silent	SNP	T	TCGA-60-2708-01A-01D-1522-08	11277291	157522135	13592932	77	44787										
SMOC2	64094	broad.mit.edu	37	chr6	169053815	169053815	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agtttgttgaatactgtgacGtgaataatgacaaatccatc	8	6	0	4			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr6:169053815G>A	uc003qws.1	+	11	1212	c.1192G>A	c.(1192-1194)GTG>ATG	p.V398M	SMOC2_uc003qwr.1_Missense_Mutation_p.V409M|SMOC2_uc011egu.1_Missense_Mutation_p.V75M	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	398	2 (Potential).|EF-hand 2.				signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		ATACTGTGACGTGAATAATGA	0.458													18	76	---	---	---	---	PASS	A	169053815	A	A	169053815	3	1	121	1	0	0	0	0	1	0	0	0	14802	1145	40	1	1267	1	SMOC2	6	169053815	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	11531680	169053815	2061252	78	44788										
RBAK	57786	broad.mit.edu	37	chr7	5105028	5105028	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cactacagaagccattcaggAgagaaaccctatgaatgtaa	8	9	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:5105028A>G	uc010kss.1	+	6	2265	c.1941A>G	c.(1939-1941)GGA>GGG	p.G647G	LOC389458_uc003snr.2_Intron|RBAK_uc003sns.1_Silent_p.G647G	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	647	Interaction with AR.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		GCCATTCAGGAGAGAAACCCT	0.398													14	285	---	---	---	---	PASS	G	5105028	G	G	5105028	2	3	121	1	0	0	0	0	0	0	0	1	13100	291	11	5		5	RBAK	7	5105028	Silent	SNP	A	TCGA-60-2708-01A-01D-1522-08		5105028	154033635	79	44789										
PLEKHA8	84725	broad.mit.edu	37	chr7	30092432	30092432	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cttatatttgaaatctgcagAgatagactgcagcatatcaa	7	7	2	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:30092432A>G	uc003tam.1	+	7	837	c.746A>G	c.(745-747)GAG>GGG	p.E249G	PLEKHA8_uc003tao.2_Missense_Mutation_p.E133G|PLEKHA8_uc003tap.1_Missense_Mutation_p.E249G|PLEKHA8_uc003tan.2_Missense_Mutation_p.E249G	NM_032639	NP_116028	Q96JA3	PKHA8_HUMAN	pleckstrin homology domain containing, family A	249					protein transport	cytoplasm	glycolipid binding|glycolipid transporter activity			breast(3)|ovary(1)	4						AAATCTGCAGAGATAGACTGC	0.294													29	58	---	---	---	---	PASS	G	30092432	G	G	30092432	3	3	121	1	0	0	0	0	1	0	0	0	12062	304	11	5	772	5	PLEKHA8	7	30092432	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	24987404	30092432	129046231	80	44790										
VPS41	27072	broad.mit.edu	37	chr7	38768321	38768321	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gaacacctttcatttgagttCggtgcattttcttcagtaag	8	8	3	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:38768321C>T	uc003tgy.2	-	26	2356	c.2330G>A	c.(2329-2331)CGA>CAA	p.R777Q	VPS41_uc003tgz.2_Missense_Mutation_p.R752Q|VPS41_uc010kxn.2_Missense_Mutation_p.R688Q|VPS41_uc003tgx.2_RNA	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	777					Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						CATTTGAGTTCGGTGCATTTT	0.393													42	183	---	---	---	---	PASS	T	38768321	T	T	38768321	3	4	121	1	0	0	0	0	1	0	0	0	17207	884	31	2	250	2	VPS41	7	38768321	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	8675889	38768321	120370342	81	44791										
HECW1	23072	broad.mit.edu	37	chr7	43484216	43484216	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cggtgaagccccagccagcaCcaaggaggagcccttggagg	15	13	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:43484216C>A	uc003tid.1	+	11	2050	c.1445C>A	c.(1444-1446)ACC>AAC	p.T482N	HECW1_uc011kbi.1_Missense_Mutation_p.T482N	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	482	Glu-rich.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CCAGCCAGCACCAAGGAGGAG	0.537													11	15	---	---	---	---	PASS	A	43484216	A	A	43484216	3	1	121	1	0	0	0	0	1	0	0	0	7042	507	18	3	1479	3	HECW1	7	43484216	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	4715895	43484216	115654447	82	44792										
HECW1	23072	broad.mit.edu	37	chr7	43546832	43546832	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aaaactggaagccaaaggatTtggtcagggtccggggaaaa	14	6	1	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:43546832T>A	uc003tid.1	+	22	4333	c.3728T>A	c.(3727-3729)TTT>TAT	p.F1243Y	HECW1_uc011kbi.1_Missense_Mutation_p.F1209Y	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1243					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GCCAAAGGATTTGGTCAGGGT	0.488													93	116	---	---	---	---	PASS	A	43546832	A	A	43546832	3	1	121	1	0	0	0	0	1	0	0	0	7042	1841	64	5	3806	5	HECW1	7	43546832	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	62616	43546832	115591831	83	44793										
ADCY1	107	broad.mit.edu	37	chr7	45701693	45701693	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	attctctcagatataaaaccGgccaaaaggatgaagttcaa	7	8	3	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:45701693G>T	uc003tne.3	+	8	1503	c.1485G>T	c.(1483-1485)CCG>CCT	p.P495P	ADCY1_uc003tnd.2_Silent_p.P270P	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	495	Interaction with calmodulin (By similarity).|Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	ATATAAAACCGGCCAAAAGGA	0.488													34	62	---	---	---	---	PASS	T	45701693	T	T	45701693	2	4	121	1	0	0	0	0	0	0	0	1	292	1103	39	1		1	ADCY1	7	45701693	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	2154861	45701693	113436970	84	44794										
ABCA13	154664	broad.mit.edu	37	chr7	48318575	48318575	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgatttgttggtgccatttcTtgacttggcctttgaaatga	10	6	1	4			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:48318575T>C	uc003toq.2	+	18	7809	c.7784T>C	c.(7783-7785)CTT>CCT	p.L2595P	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2595					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GTGCCATTTCTTGACTTGGCC	0.308													95	137	---	---	---	---	PASS	C	48318575	C	C	48318575	3	2	121	1	0	0	0	0	1	0	0	0	31	1609	56	5	7683	5	ABCA13	7	48318575	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	2616882	48318575	110820088	85	44795										
EGFR	1956	broad.mit.edu	37	chr7	55241711	55241711	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aaagatcaaagtgctgggctCcggtgcgttcggcacggtgt	15	9	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:55241711C>G	uc003tqk.2	+	18	2405	c.2159C>G	c.(2158-2160)TCC>TGC	p.S720C	EGFR_uc010kzg.1_Missense_Mutation_p.S675C|EGFR_uc011kco.1_Missense_Mutation_p.S667C	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	720	Cytoplasmic (Potential).|Protein kinase.|ATP.				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.S720F(5)|p.S720P(2)|p.S720S(1)|p.S720T(1)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	GTGCTGGGCTCCGGTGCGTTC	0.572		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			7	176	---	---	---	---	PASS	G	55241711	G	G	55241711	3	3	121	1	0	0	0	0	1	0	0	0	4967	855	30	2	2493	2	EGFR	7	55241711	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	6923136	55241711	103896952	86	44796										
CRCP	27297	broad.mit.edu	37	chr7	65617210	65617210	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgcagatggtggaagagagtGaagagcggctcacggaggag	19	5	1	4			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:65617210G>T	uc003tus.2	+	6	458	c.313G>T	c.(313-315)GAA>TAA	p.E105*	CRCP_uc003tuv.2_RNA|CRCP_uc011kdw.1_Nonsense_Mutation_p.E98*|CRCP_uc003tut.2_Nonsense_Mutation_p.E72*|CRCP_uc003tuu.2_Nonsense_Mutation_p.E28*	NM_014478	NP_055293	O75575	RPC9_HUMAN	calcitonin gene-related peptide-receptor	105					acrosome reaction|innate immune response|response to virus|transcription from RNA polymerase III promoter	DNA polymerase III complex|nucleus|plasma membrane	calcitonin receptor activity|DNA-directed RNA polymerase activity|nucleotide binding				0						GGAAGAGAGTGAAGAGCGGCT	0.527													20	81	---	---	---	---	PASS	T	65617210	T	T	65617210	4	4	121	1	0	0	0	0	0	1	0	0	3852	1291	45	2	425	2	CRCP	7	65617210	Nonsense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	10375499	65617210	93521453	87	44797										
CROT	54677	broad.mit.edu	37	chr7	87011274	87011274	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgaacatcagttattatgtgGatgagaaaatttttcagaat	8	3	2	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:87011274G>C	uc003uit.2	+	11	1272	c.1027G>C	c.(1027-1029)GAT>CAT	p.D343H	CROT_uc003uiu.2_Missense_Mutation_p.D371H	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	343					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	TTATTATGTGGATGAGAAAAT	0.274													15	127	---	---	---	---	PASS	C	87011274	C	C	87011274	3	2	121	1	0	0	0	0	1	0	0	0	3894	1174	41	2	1149	2	CROT	7	87011274	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	21394064	87011274	72127389	88	44798										
ADAM22	53616	broad.mit.edu	37	chr7	87792411	87792411	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggtccccaaatgatgtgcttAgaacacaggtgtcttcctgt	10	10	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:87792411A>G	uc003ujn.2	+	23	2071	c.1992A>G	c.(1990-1992)TTA>TTG	p.L664L	ADAM22_uc003ujk.1_Silent_p.L664L|ADAM22_uc003ujl.1_Silent_p.L664L|ADAM22_uc003ujm.2_Silent_p.L664L|ADAM22_uc003ujo.2_Silent_p.L664L|ADAM22_uc003ujp.1_Silent_p.L716L	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	664	Cys-rich.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			TGATGTGCTTAGAACACAGGT	0.428													121	257	---	---	---	---	PASS	G	87792411	G	G	87792411	2	3	121	1	0	0	0	0	0	0	0	1	244	417	15	5		5	ADAM22	7	87792411	Silent	SNP	A	TCGA-60-2708-01A-01D-1522-08	781137	87792411	71346252	89	44799										
LRCH4	4034	broad.mit.edu	37	chr7	100179992	100179992	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ccaaggctgggttcaggcatCtcaggcaattgtggtagagg	15	8	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:100179992C>G	uc003uvj.2	-	2	364	c.311G>C	c.(310-312)AGA>ACA	p.R104T	LRCH4_uc010lgz.2_RNA|LRCH4_uc003uvi.2_RNA|LRCH4_uc011kjx.1_RNA	NM_002319	NP_002310	O75427	LRCH4_HUMAN	leucine-rich repeats and calponin homology (CH)	104	LRR 3.				nervous system development	PML body	protein binding			large_intestine(1)|ovary(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GTTCAGGCATCTCAGGCAATT	0.637													17	114	---	---	---	---	PASS	G	100179992	G	G	100179992	3	3	121	1	0	0	0	0	1	0	0	0	8935	913	32	2	1808	2	LRCH4	7	100179992	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	12387581	100179992	58958671	90	44800										
LAMB1	3912	broad.mit.edu	37	chr7	107621203	107621203	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggaatccagaaggttatctcCcaaagtatgcagtttcacaa	8	9	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:107621203C>A	uc003vew.2	-	8	1065	c.730G>T	c.(730-732)GGA>TGA	p.G244*	LAMB1_uc003vev.2_Nonsense_Mutation_p.G268*|LAMB1_uc003vex.2_Nonsense_Mutation_p.G244*|LAMB1_uc010ljn.1_Nonsense_Mutation_p.G330*	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	244	Laminin N-terminal.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGGTTATCTCCCAAAGTATGC	0.363													70	123	---	---	---	---	PASS	A	107621203	A	A	107621203	4	1	121	1	0	0	0	0	0	1	0	0	8610	632	22	3	4738	3	LAMB1	7	107621203	Nonsense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	7441211	107621203	51517460	91	44801										
CNOT4	4850	broad.mit.edu	37	chr7	135048672	135048674	+	In_Frame_Del	DEL	TGT	-	-													0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	caggctgtcggtggtggcagTgttggacgttggtgcactgt							TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:135048672_135048674delTGT	uc011kpy.1	-	10	1864_1866	c.1772_1774delACA	c.(1771-1776)AACACT>ACT	p.N591del	CNOT4_uc003vss.2_Intron|CNOT4_uc011kpz.1_In_Frame_Del_p.N588del|CNOT4_uc003vst.2_Intron	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						GTGGTGGCAGTGTTGGACGTTGG	0.552													225	118	---	---	---	---		-	135048674	-	-	135048672	7	5	121	1	0	1	0	1	0	0	0	0	3621	1711	59	0		0	CNOT4	7	135048672	In_Frame_Del	DEL	TGT	TCGA-60-2708-01A-01D-1522-08	27427469	135048672	24089991	92	44802										
OR2F1	26211	broad.mit.edu	37	chr7	143657910	143657910	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tcttttatgccattttaacaCcaatgctgaaccccatgatt	4	11	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:143657910C>A	uc003wds.1	+	1	891	c.847C>A	c.(847-849)CCA>ACA	p.P283T		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					CATTTTAACACCAATGCTGAA	0.463													84	125	---	---	---	---	PASS	A	143657910	A	A	143657910	3	1	121	1	0	0	0	0	1	0	0	0	10996	507	18	3	849	3	OR2F1	7	143657910	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	8609238	143657910	15480753	93	44803										
SSPO	23145	broad.mit.edu	37	chr7	149510823	149510823	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtcactgcagctgcctggacCtgctgaccgggcagcggcac	14	15	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:149510823C>A	uc010lpk.2	+	72	10108	c.10108C>A	c.(10108-10110)CTG>ATG	p.L3370M		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3370					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CTGCCTGGACCTGCTGACCGG	0.697													16	36	---	---	---	---	PASS	A	149510823	A	A	149510823	3	1	121	1	0	0	0	0	1	0	0	0	15188	680	24	3	10384	3	SSPO	7	149510823	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	5852913	149510823	9627840	94	44804										
CDK5	1020	broad.mit.edu	37	chr7	150754047	150754047	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	taggcagatctcccggagggCggaactcggcacaccctgca	13	14	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr7:150754047C>T	uc003wir.1	-	3	203	c.142G>A	c.(142-144)GCC>ACC	p.A48T	CDK5_uc003wis.1_Missense_Mutation_p.A48T|SLC4A2_uc003wit.3_5'Flank	NM_004935	NP_004926	Q00535	CDK5_HUMAN	cyclin-dependent kinase 5 isoform 1	48	Protein kinase.				activation of pro-apoptotic gene products|blood coagulation|cell division|cell proliferation|embryo development|negative regulation of transcription, DNA-dependent|positive regulation of neuron apoptosis	axon|cytosol|dendrite|growth cone|lamellipodium|membrane|neuromuscular junction|neuronal cell body	acetylcholine receptor activator activity|ATP binding|cyclin-dependent protein kinase activity|ErbB-2 class receptor binding|ErbB-3 class receptor binding|tau-protein kinase activity			lung(1)|central_nervous_system(1)	2		Breast(660;0.159)|Ovarian(593;0.182)	OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)|LUSC - Lung squamous cell carcinoma(290;0.008)|Lung(243;0.00942)|BRCA - Breast invasive adenocarcinoma(188;0.242)		TCCCGGAGGGCGGAACTCGGC	0.662													26	40	---	---	---	---	PASS	T	150754047	T	T	150754047	3	4	121	1	0	0	0	0	1	0	0	0	3142	768	27	1	776	1	CDK5	7	150754047	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	1243224	150754047	8384616	95	44805										
CYP7B1	9420	broad.mit.edu	37	chr8	65527680	65527680	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgcagcaaacggtcaatttcGtcacgcactgctgccatagc	9	13	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr8:65527680G>A	uc003xvj.2	-	4	1164	c.960C>T	c.(958-960)GAC>GAT	p.D320D		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	320					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				GGTCAATTTCGTCACGCACTG	0.488													19	103	---	---	---	---	PASS	A	65527680	A	A	65527680	2	1	121	1	0	0	0	0	0	0	0	1	4197	1136	40	1		1	CYP7B1	8	65527680	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08		65527680	80836342	96	44806										
ZFHX4	79776	broad.mit.edu	37	chr8	77617343	77617343	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agctttctggaaccaaaaaaAtccacttctgtttatcccca	4	12	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr8:77617343A>T	uc003yav.2	+	2	1407	c.1020A>T	c.(1018-1020)AAA>AAT	p.K340N	ZFHX4_uc003yat.1_Missense_Mutation_p.K340N|ZFHX4_uc003yau.1_Missense_Mutation_p.K340N|ZFHX4_uc003yaw.1_Missense_Mutation_p.K340N	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	340						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AACCAAAAAAATCCACTTCTG	0.433										HNSCC(33;0.089)			100	132	---	---	---	---	PASS	T	77617343	T	T	77617343	3	4	121	1	0	0	0	0	1	0	0	0	17632	98	4	5	1022	5	ZFHX4	8	77617343	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	12089663	77617343	68746679	97	44807										
LRRCC1	85444	broad.mit.edu	37	chr8	86037118	86037118	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgttacaagaatcagaaaagCcaaagactgaaataattaaa	6	5	1	4			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr8:86037118C>T	uc003ycw.2	+	8	1370	c.1216C>T	c.(1216-1218)CCA>TCA	p.P406S	LRRCC1_uc010lzz.1_RNA|LRRCC1_uc010maa.1_Missense_Mutation_p.P107S|LRRCC1_uc003ycx.2_Missense_Mutation_p.P313S|LRRCC1_uc003ycy.2_Missense_Mutation_p.P386S	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	406					cell division|mitosis	centriole|nucleus					0						ATCAGAAAAGCCAAAGACTGA	0.299													54	159	---	---	---	---	PASS	T	86037118	T	T	86037118	3	4	121	1	0	0	0	0	1	0	0	0	9026	739	26	3	1246	3	LRRCC1	8	86037118	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	8419775	86037118	60326904	98	44808										
CNGB3	54714	broad.mit.edu	37	chr8	87683247	87683247	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtagagggctgttctttgacGcattcttttcaccaggttgt	11	8	3	2	rs146488853		TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr8:87683247G>A	uc003ydx.2	-	4	464	c.418C>T	c.(418-420)CGT>TGT	p.R140C	CNGB3_uc010maj.2_Missense_Mutation_p.R2C	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	140	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						GTTCTTTGACGCATTCTTTTC	0.473													214	540	---	---	---	---	PASS	A	87683247	A	A	87683247	3	1	121	1	0	0	0	0	1	0	0	0	3601	1087	38	1	2071	1	CNGB3	8	87683247	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	1646129	87683247	58680775	99	44809										
TM7SF4	81501	broad.mit.edu	37	chr8	105361153	105361153	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ttaaaggtctcctagatggtAtgacttgcaacctaagggca	10	8	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr8:105361153A>T	uc003ylx.1	+	2	422	c.373A>T	c.(373-375)ATG>TTG	p.M125L		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	125					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CCTAGATGGTATGACTTGCAA	0.418													77	157	---	---	---	---	PASS	T	105361153	T	T	105361153	3	4	121	1	0	0	0	0	1	0	0	0	15973	449	16	5	375	5	TM7SF4	8	105361153	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	17677906	105361153	41002869	100	44810										
ADCY8	114	broad.mit.edu	37	chr8	132052079	132052079	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aaatagcgctggtagaggcgTtccaaatcccgagatttgaa	11	8	0	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr8:132052079T>C	uc003ytd.3	-	1	757	c.501A>G	c.(499-501)GAA>GAG	p.E167E	ADCY8_uc010mds.2_Silent_p.E167E	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	167	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GGTAGAGGCGTTCCAAATCCC	0.527										HNSCC(32;0.087)			23	140	---	---	---	---	PASS	C	132052079	C	C	132052079	2	2	121	1	0	0	0	0	0	0	0	1	300	1722	60	5		5	ADCY8	8	132052079	Silent	SNP	T	TCGA-60-2708-01A-01D-1522-08	26690926	132052079	14311943	101	44811										
DENND3	22898	broad.mit.edu	37	chr8	142154342	142154342	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tttaatacccagcccgccacCtggaccgctccatttggtaa	7	15	0	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr8:142154342C>G	uc003yvy.2	+	5	757	c.479C>G	c.(478-480)CCT>CGT	p.P160R	DENND3_uc010mep.2_Missense_Mutation_p.P173R	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	160	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)			AGCCCGCCACCTGGACCGCTC	0.363													114	105	---	---	---	---	PASS	G	142154342	G	G	142154342	3	3	121	1	0	0	0	0	1	0	0	0	4432	681	24	4	493	4	DENND3	8	142154342	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	10102263	142154342	4209680	102	44812										
SMARCA2	6595	broad.mit.edu	37	chr9	2081948	2081948	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gcactcatcacttatctgatGgagcacaaaagactcaatgg	8	10	4	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr9:2081948G>A	uc003zhc.2	+	15	2400	c.2301G>A	c.(2299-2301)ATG>ATA	p.M767I	SMARCA2_uc003zhd.2_Missense_Mutation_p.M767I|SMARCA2_uc010mha.2_Missense_Mutation_p.M758I	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	767	Helicase ATP-binding.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		CTTATCTGATGGAGCACAAAA	0.428													199	120	---	---	---	---	PASS	A	2081948	A	A	2081948	3	1	121	1	0	0	0	0	1	0	0	0	14769	1348	47	3	2355	3	SMARCA2	9	2081948	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08		2081948	139131483	103	44813										
RFX3	5991	broad.mit.edu	37	chr9	3225139	3225139	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gaattggattcaggaggcttGgttgcacgccagtctcgaga	14	8	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr9:3225139G>C	uc003zhr.2	-	18	2465	c.2153C>G	c.(2152-2154)CCA>CGA	p.P718R	RFX3_uc010mhd.2_Missense_Mutation_p.P718R	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	718					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		CAGGAGGCTTGGTTGCACGCC	0.502													22	57	---	---	---	---	PASS	C	3225139	C	C	3225139	3	2	121	1	0	0	0	0	1	0	0	0	13264	1348	47	4	100	4	RFX3	9	3225139	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	1143191	3225139	137988292	104	44814										
MAMDC2	256691	broad.mit.edu	37	chr9	72741227	72741227	+	Silent	SNP	C	A	A													0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	atgtcttttccctttacactCgggatgtggctggcctttac							TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr9:72741227C>A	uc004ahm.2	+	6	1413	c.796C>A	c.(796-798)CGG>AGG	p.R266R	MAMDC2_uc004ahn.2_RNA	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	266	MAM 2.					endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						CCTTTACACTCGGGATGTGGC	0.547													7	21	---	---	---	---	PASS	A	72741227	A	A	72741227	2	1	121	1	0	0	0	0	0	0	0	1	9203	875	31	2		2	MAMDC2	9	72741227	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	69516088	72741227	68472204	105	44815	831	2								
MAMDC2	256691	broad.mit.edu	37	chr9	72741230	72741230	+	Missense_Mutation	SNP	G	A	A													0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tcttttccctttacactcggGatgtggctggcctttacgag							TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr9:72741230G>A	uc004ahm.2	+	6	1416	c.799G>A	c.(799-801)GAT>AAT	p.D267N	MAMDC2_uc004ahn.2_RNA	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	267	MAM 2.					endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						TTACACTCGGGATGTGGCTGG	0.552													10	22	---	---	---	---	PASS	A	72741230	A	A	72741230	3	1	121	1	0	0	0	0	1	0	0	0	9203	1174	41	2	821	2	MAMDC2	9	72741230	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	3	72741230	68472201	106	44816	831	2								
TLE1	7088	broad.mit.edu	37	chr9	84202721	84202721	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aatgtcaatacagctggctcCgtctgtgtggccctggaatt	11	10	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr9:84202721C>G	uc004aly.2	-	17	2293	c.1852G>C	c.(1852-1854)GGA>CGA	p.G618R	TLE1_uc004alz.2_Missense_Mutation_p.G628R|TLE1_uc011lsr.1_Missense_Mutation_p.G603R	NM_005077	NP_005068	Q04724	TLE1_HUMAN	transducin-like enhancer protein 1	618	WD 4.				negative regulation of Wnt receptor signaling pathway|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway		transcription factor binding			ovary(1)|skin(1)	2						CAGCTGGCTCCGTCTGTGTGG	0.502													44	23	---	---	---	---	PASS	G	84202721	G	G	84202721	3	3	121	1	0	0	0	0	1	0	0	0	15935	661	23	4	476	4	TLE1	9	84202721	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	11461491	84202721	57010710	107	44817										
FRMD3	257019	broad.mit.edu	37	chr9	85863243	85863243	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtcaaagagcatgtcaatctCatcgtcatccacaggggtgg	11	10	4	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr9:85863243C>G	uc004ams.1	-	14	1586	c.1384G>C	c.(1384-1386)GAG>CAG	p.E462Q	FRMD3_uc004amr.1_Missense_Mutation_p.E448Q|FRMD3_uc004amq.1_Missense_Mutation_p.E119Q	NM_174938	NP_777598	A2A2Y4	FRMD3_HUMAN	FERM domain containing 3	462						cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2						ATGTCAATCTCATCGTCATCC	0.433													58	179	---	---	---	---	PASS	G	85863243	G	G	85863243	3	3	121	1	0	0	0	0	1	0	0	0	6050	835	29	2	413	2	FRMD3	9	85863243	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	1660522	85863243	55350188	108	44818										
ZNF883	169834	broad.mit.edu	37	chr9	115760453	115760453	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	atatgtgttttctgatgctgGgtcagggatgcaagacaagt	13	5	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr9:115760453G>T	uc011lwy.1	-	5	1326	c.87C>A	c.(85-87)ACC>ACA	p.T29T		NM_001101338	NP_001094808	P0CG24	ZN883_HUMAN	hypothetical protein LOC169834	29	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTGATGCTGGGTCAGGGATG	0.383													124	59	---	---	---	---	PASS	T	115760453	T	T	115760453	2	4	121	1	0	0	0	0	0	0	0	1	18195	1219	43	3		3	ZNF883	9	115760453	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	29897210	115760453	25452978	109	44819										
FAM102A	399665	broad.mit.edu	37	chr9	130710472	130710472	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gcagggaggaatcctggcctGggatggagatggacttggca	18	7	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr9:130710472G>A	uc004bsx.1	-	6	573	c.494C>T	c.(493-495)CCA>CTA	p.P165L	FAM102A_uc004bsw.1_Missense_Mutation_p.P23L|FAM102A_uc004bsy.1_5'UTR	NM_001035254	NP_001030331	Q5T9C2	F102A_HUMAN	early estrogen-induced gene 1 protein isoform a	165	Ser-rich.									ovary(1)	1						ATCCTGGCCTGGGATGGAGAT	0.617													39	34	---	---	---	---	PASS	A	130710472	A	A	130710472	3	1	121	1	0	0	0	0	1	0	0	0	5382	1348	47	3	684	3	FAM102A	9	130710472	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	14950019	130710472	10502959	110	44820										
SETX	23064	broad.mit.edu	37	chr9	135203765	135203765	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	acactgagaatcagattcctCaaactgaaaaagagtctctg	7	9	3	4			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr9:135203765C>T	uc004cbk.2	-	10	3403	c.3220G>A	c.(3220-3222)GAG>AAG	p.E1074K	SETX_uc004cbj.2_Missense_Mutation_p.E693K|SETX_uc010mzt.2_Missense_Mutation_p.E693K	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1074					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		TCAGATTCCTCAAACTGAAAA	0.383													128	92	---	---	---	---	PASS	T	135203765	T	T	135203765	3	4	121	1	0	0	0	0	1	0	0	0	14141	835	29	2	4881	2	SETX	9	135203765	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	4493293	135203765	6009666	111	44821										
KIAA0649	9858	broad.mit.edu	37	chr9	138378032	138378032	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggccagaggtgagagctgccCgcaggctgcccagggtccac	16	14	0	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr9:138378032C>T	uc004cfr.1	+	4	2225	c.1676C>T	c.(1675-1677)CCG>CTG	p.P559L		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	559						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		GAGAGCTGCCCGCAGGCTGCC	0.617													105	95	---	---	---	---	PASS	T	138378032	T	T	138378032	3	4	121	1	0	0	0	0	1	0	0	0	8187	652	23	1	1678	1	KIAA0649	9	138378032	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	3174267	138378032	2835399	112	44822										
FAM107B	83641	broad.mit.edu	37	chr10	14816587	14816587	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cccaaaacaggcgagcagagCtgagcacggaaatggatgca	13	10	0	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr10:14816587C>G	uc001ina.1	-	1	310	c.76G>C	c.(76-78)GCT>CCT	p.A26P	FAM107B_uc010qbu.1_RNA	NM_031453	NP_113641	Q9H098	F107B_HUMAN	hypothetical protein LOC83641	Error:Variant_position_missing_in_Q9H098_after_alignment										breast(4)	4						GCGAGCAGAGCTGAGCACGGA	0.517													24	64	---	---	---	---	PASS	G	14816587	G	G	14816587	3	3	121	1	0	0	0	0	1	0	0	0	5390	797	28	4	864	4	FAM107B	10	14816587	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08		14816587	120718160	113	44823										
PTER	9317	broad.mit.edu	37	chr10	16526710	16526710	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	attagccgagacacacagacGttgaagaggcttgcagaaga	12	8	0	6	rs147446984	byFrequency	TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr10:16526710G>T	uc001iog.1	+	3	534	c.327G>T	c.(325-327)ACG>ACT	p.T109T	PTER_uc001ioh.1_Silent_p.T109T|PTER_uc001ioi.1_Silent_p.T109T|PTER_uc009xjp.1_Silent_p.T109T	NM_030664	NP_109589	Q96BW5	PTER_HUMAN	phosphotriesterase related	109					catabolic process		hydrolase activity, acting on ester bonds|zinc ion binding			ovary(2)	2						ACACACAGACGTTGAAGAGGC	0.488													48	31	---	---	---	---	PASS	T	16526710	T	T	16526710	2	4	121	1	0	0	0	0	0	0	0	1	12739	1132	40	1		1	PTER	10	16526710	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	1710123	16526710	119008037	114	44824										
APBB1IP	54518	broad.mit.edu	37	chr10	26855898	26855898	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	actcggttgcaggataagaaGccagccctcgggaaccacca	11	13	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr10:26855898G>C	uc001iss.2	+	15	1803	c.1482G>C	c.(1480-1482)AAG>AAC	p.K494N		NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	494					blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						AGGATAAGAAGCCAGCCCTCG	0.478													18	14	---	---	---	---	PASS	C	26855898	C	C	26855898	3	2	121	1	0	0	0	0	1	0	0	0	760	962	34	4	1532	4	APBB1IP	10	26855898	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	10329188	26855898	108678849	115	44825										
SVIL	6840	broad.mit.edu	37	chr10	29770543	29770543	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gcaagttccccggggttcttCtcattcgatctcttcagttc	8	13	4	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr10:29770543C>G	uc001iut.1	-	28	5823	c.5070G>C	c.(5068-5070)GAG>GAC	p.E1690D	LOC387647_uc001iup.2_Intron|LOC387647_uc001iuq.1_Intron|SVIL_uc010qdw.1_Missense_Mutation_p.E604D|SVIL_uc001iuu.1_Missense_Mutation_p.E1264D|SVIL_uc009xlc.2_Missense_Mutation_p.E482D	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1690					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				CGGGGTTCTTCTCATTCGATC	0.493													14	621	---	---	---	---	PASS	G	29770543	G	G	29770543	3	3	121	1	0	0	0	0	1	0	0	0	15418	912	32	2	1618	2	SVIL	10	29770543	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	2914645	29770543	105764204	116	44826										
ZNF33B	7582	broad.mit.edu	37	chr10	43127419	43127419	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ttcttcctccagtctccatgGttcttctccttgttccagcc	5	16	4	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr10:43127419G>C	uc001jaf.1	-	4	323	c.208C>G	c.(208-210)CCA>GCA	p.P70A	ZNF33B_uc009xmg.1_Missense_Mutation_p.P70A|ZNF33B_uc001jae.1_RNA|ZNF33B_uc001jag.1_5'UTR	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	70	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AGTCTCCATGGTTCTTCTCCT	0.443													15	515	---	---	---	---	PASS	C	43127419	C	C	43127419	3	2	121	1	0	0	0	0	1	0	0	0	17852	1261	44	4	2136	4	ZNF33B	10	43127419	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	13356876	43127419	92407328	117	44827										
GDF10	2662	broad.mit.edu	37	chr10	48429014	48429014	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggggcccagtggcctgcgcgGctcggcgcacgcgggggtcc	20	15	0	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr10:48429014G>T	uc001jfb.2	-	2	1328	c.872C>A	c.(871-873)GCC>GAC	p.A291D	GDF10_uc009xnp.2_Missense_Mutation_p.A290D|GDF10_uc009xnq.1_Missense_Mutation_p.A291D	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	291					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						GGCCTGCGCGGCTCGGCGCAC	0.721													7	3	---	---	---	---	PASS	T	48429014	T	T	48429014	3	4	121	1	0	0	0	0	1	0	0	0	6311	1203	42	3	572	3	GDF10	10	48429014	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	5301595	48429014	87105733	118	44828										
NLRP6	171389	broad.mit.edu	37	chr11	281741	281741	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtgaggtgctgccctgctggAcaggcactgcggctgatcag	16	11	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:281741A>C	uc010qvs.1	+	4	2007	c.2007A>C	c.(2005-2007)GGA>GGC	p.G669G	NLRP6_uc010qvt.1_Silent_p.G669G	NM_138329	NP_612202	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	669						cytoplasm	ATP binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.28e-28)|Epithelial(43;2.47e-27)|OV - Ovarian serous cystadenocarcinoma(40;4.66e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.0485)|LUSC - Lung squamous cell carcinoma(625;0.122)		GCCCTGCTGGACAGGCACTGC	0.652													28	79	---	---	---	---	PASS	C	281741	C	C	281741	2	2	121	1	0	0	0	0	0	0	0	1	10481	262	10	5		5	NLRP6	11	281741	Silent	SNP	A	TCGA-60-2708-01A-01D-1522-08		281741	134724775	119	44829										
MUC2	4583	broad.mit.edu	37	chr11	1093584	1093584	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	accacaactacggtgaccgcAaccccaacacccaccggcac	6	20	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:1093584A>T	uc001lsx.1	+	31	12516	c.12489A>T	c.(12487-12489)CCA>CCT	p.P4163P		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4163				P -> A (in Ref. 4).		inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	cGGTGACCGCAACCCCAACAC	0.348													15	28	---	---	---	---	PASS	T	1093584	T	T	1093584	2	4	121	1	0	0	0	0	0	0	0	1	9975	117	5	5		5	MUC2	11	1093584	Silent	SNP	A	TCGA-60-2708-01A-01D-1522-08	811843	1093584	133912932	120	44830										
OR51I1	390063	broad.mit.edu	37	chr11	5462167	5462167	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aaatgttgttaacatggatgTctccacatgctactttcatg	7	8	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:5462167T>C	uc010qze.1	-	1	578	c.578A>G	c.(577-579)GAC>GGC	p.D193G	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,	193	Extracellular (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)		AACATGGATGTCTCCACATGC	0.443													16	48	---	---	---	---	PASS	C	5462167	C	C	5462167	3	2	121	1	0	0	0	0	1	0	0	0	11100	1667	58	5	370	5	OR51I1	11	5462167	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	4368583	5462167	129544349	121	44831										
OR51I2	390064	broad.mit.edu	37	chr11	5474866	5474866	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cagtgatcctgcaggctgtgCgagtggagcccagcctccat	13	13	0	1	rs145725236		TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:5474866C>A	uc010qzf.1	+	1	148	c.148C>A	c.(148-150)CGA>AGA	p.R50R	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004754	NP_001004754	Q9H344	O51I2_HUMAN	olfactory receptor, family 51, subfamily I,	50	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.09e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCAGGCTGTGCGAGTGGAGCC	0.577													25	62	---	---	---	---	PASS	A	5474866	A	A	5474866	2	1	121	1	0	0	0	0	0	0	0	1	11101	760	27	1		1	OR51I2	11	5474866	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	12699	5474866	129531650	122	44832										
EIF4G2	1982	broad.mit.edu	37	chr11	10825569	10825569	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ctctgttcctcctcctcgggGaggaggggattttcacgctt	12	12	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:10825569G>A	uc001mjc.2	-	8	996	c.579C>T	c.(577-579)CTC>CTT	p.L193L	EIF4G2_uc001mjb.2_5'UTR|EIF4G2_uc009ygf.2_5'UTR|EIF4G2_uc001mjd.2_Silent_p.L193L|EIF4G2_uc001mjf.1_5'UTR|SNORD97_uc009yge.2_5'Flank	NM_001418	NP_001409	P78344	IF4G2_HUMAN	eukaryotic translation initiation factor 4	193	MIF4G.				cell cycle arrest|cell death|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		CCTCCTCGGGGAGGAGGGGAT	0.388													35	104	---	---	---	---	PASS	A	10825569	A	A	10825569	2	1	121	1	0	0	0	0	0	0	0	1	5037	1161	41	2		2	EIF4G2	11	10825569	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	5350703	10825569	124180947	123	44833										
DGKZ	8525	broad.mit.edu	37	chr11	46397475	46397475	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cgactatgaggccctgcactAcgacaaggagcagctcaagg	12	12	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:46397475A>G	uc001ncn.1	+	22	2674	c.2549A>G	c.(2548-2550)TAC>TGC	p.Y850C	DGKZ_uc001nch.1_Missense_Mutation_p.Y678C|DGKZ_uc010rgq.1_Missense_Mutation_p.Y605C|DGKZ_uc001ncj.1_Missense_Mutation_p.Y628C|DGKZ_uc010rgr.1_Missense_Mutation_p.Y627C|DGKZ_uc001nck.1_Missense_Mutation_p.Y440C|DGKZ_uc001ncl.2_Missense_Mutation_p.Y662C|DGKZ_uc001ncm.2_Missense_Mutation_p.Y661C|DGKZ_uc009yky.1_Missense_Mutation_p.Y662C|DGKZ_uc010rgs.1_Missense_Mutation_p.Y639C	NM_001105540	NP_001099010	Q13574	DGKZ_HUMAN	diacylglycerol kinase zeta isoform 4	850					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell migration|intracellular signal transduction|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of mitotic cell cycle|platelet activation	cytoplasm|lamellipodium|nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|diacylglycerol kinase activity|lipid kinase activity|metal ion binding|protein binding|protein C-terminus binding			pancreas(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.0259)|Lung(87;0.141)		GCCCTGCACTACGACAAGGAG	0.701													11	9	---	---	---	---	PASS	G	46397475	G	G	46397475	3	3	121	1	0	0	0	0	1	0	0	0	4474	391	14	5	3078	5	DGKZ	11	46397475	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	35571906	46397475	88609041	124	44834										
OR5W2	390148	broad.mit.edu	37	chr11	55681828	55681828	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tctaccagcatcttgggcccAgttgcagtagaatagcagag	11	10	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:55681828A>T	uc010rir.1	-	1	231	c.231T>A	c.(229-231)ACT>ACA	p.T77T		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	77	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TCTTGGGCCCAGTTGCAGTAG	0.413													44	86	---	---	---	---	PASS	T	55681828	T	T	55681828	2	4	121	1	0	0	0	0	0	0	0	1	11185	175	7	5		5	OR5W2	11	55681828	Silent	SNP	A	TCGA-60-2708-01A-01D-1522-08	9284353	55681828	79324688	125	44835										
OR8H1	219469	broad.mit.edu	37	chr11	56057972	56057972	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	atttcaatgtcgtatgtgtcCatgcaggacagagctaaaat	9	7	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:56057972C>A	uc010rje.1	-	1	567	c.567G>T	c.(565-567)ATG>ATT	p.M189I		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					CGTATGTGTCCATGCAGGACA	0.428													60	131	---	---	---	---	PASS	A	56057972	A	A	56057972	3	1	121	1	0	0	0	0	1	0	0	0	11237	594	21	3	370	3	OR8H1	11	56057972	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	376144	56057972	78948544	126	44836										
OR5M11	219487	broad.mit.edu	37	chr11	56309961	56309961	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tatctgttggtggtcttataTacatgcaaaagagagtccca	9	7	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:56309961T>C	uc010rjl.1	-	1	773	c.773A>G	c.(772-774)TAT>TGT	p.Y258C		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	258	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGGTCTTATATACATGCAAAA	0.433													52	88	---	---	---	---	PASS	C	56309961	C	C	56309961	3	2	121	1	0	0	0	0	1	0	0	0	11174	1406	49	5	147	5	OR5M11	11	56309961	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	251989	56309961	78696555	127	44837										
OR4D11	219986	broad.mit.edu	37	chr11	59271632	59271632	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ttgcactgacacttttgctcTtgagttcttgatgatttcca	7	9	2	4			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:59271632T>A	uc001noa.1	+	1	584	c.584T>A	c.(583-585)CTT>CAT	p.L195H		NM_001004706	NP_001004706	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D,	195	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						ACTTTTGCTCTTGAGTTCTTG	0.488													79	212	---	---	---	---	PASS	A	59271632	A	A	59271632	3	1	121	1	0	0	0	0	1	0	0	0	11055	1609	56	5	586	5	OR4D11	11	59271632	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	2961671	59271632	75734884	128	44838										
SPTBN2	6712	broad.mit.edu	37	chr11	66468296	66468296	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aggcagggtggccggcccttCttcagaggccacagcagtct	14	13	3	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:66468296C>T	uc001ojd.2	-	16	3346	c.3274G>A	c.(3274-3276)GAA>AAA	p.E1092K		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1092	Spectrin 8.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GCCGGCCCTTCTTCAGAGGCC	0.687													11	28	---	---	---	---	PASS	T	66468296	T	T	66468296	3	4	121	1	0	0	0	0	1	0	0	0	15119	922	32	2	3986	2	SPTBN2	11	66468296	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	7196664	66468296	68538220	129	44839										
PCF11	51585	broad.mit.edu	37	chr11	82880157	82880157	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tcatggtccatcaggggctgCgattaggtttgatggacctc	13	9	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:82880157C>T	uc001ozx.3	+	8	3125	c.2780C>T	c.(2779-2781)GCG>GTG	p.A927V	PCF11_uc010rsu.1_Missense_Mutation_p.A1058V	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	927	Gly-rich.				mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						TCAGGGGCTGCGATTAGGTTT	0.542													24	43	---	---	---	---	PASS	T	82880157	T	T	82880157	3	4	121	1	0	0	0	0	1	0	0	0	11573	768	27	1	2810	1	PCF11	11	82880157	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	16411861	82880157	52126359	130	44840										
GRIA4	2893	broad.mit.edu	37	chr11	105789538	105789538	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggcatctgaaattgcaaaacAtattggtatcaagtataaaa	7	5	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:105789538A>G	uc001pix.2	+	11	1816	c.1370A>G	c.(1369-1371)CAT>CGT	p.H457R	GRIA4_uc001piw.2_Missense_Mutation_p.H457R	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	457	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	ATTGCAAAACATATTGGTATC	0.358													26	63	---	---	---	---	PASS	G	105789538	G	G	105789538	3	3	121	1	0	0	0	0	1	0	0	0	6770	217	8	5	1445	5	GRIA4	11	105789538	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	22909381	105789538	29216978	131	44841										
EXPH5	23086	broad.mit.edu	37	chr11	108398896	108398896	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ctcacaggcataggaggtccTgcatggccatcacatctgtg	11	12	3	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:108398896T>G	uc001pkk.2	-	4	570	c.459A>C	c.(457-459)GCA>GCC	p.A153A	EXPH5_uc010rvy.1_Intron|EXPH5_uc010rvz.1_5'UTR|EXPH5_uc010rwa.1_Silent_p.A77A	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	153					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		TAGGAGGTCCTGCATGGCCAT	0.418													46	82	---	---	---	---	PASS	G	108398896	G	G	108398896	2	3	121	1	0	0	0	0	0	0	0	1	5322	1567	55	5		5	EXPH5	11	108398896	Silent	SNP	T	TCGA-60-2708-01A-01D-1522-08	2609358	108398896	26607620	132	44842										
OR10S1	219873	broad.mit.edu	37	chr11	123847651	123847651	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agtgcagggggagaaggcccGctgccggccctgggctgtgc	19	12	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:123847651G>T	uc001pzm.1	-	1	748	c.748C>A	c.(748-750)CGG>AGG	p.R250R		NM_001004474	NP_001004474	Q8NGN2	O10S1_HUMAN	olfactory receptor, family 10, subfamily S,	250	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GAGAAGGCCCGCTGCCGGCCC	0.617													45	69	---	---	---	---	PASS	T	123847651	T	T	123847651	2	4	121	1	0	0	0	0	0	0	0	1	10918	1086	38	1		1	OR10S1	11	123847651	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	15448755	123847651	11158865	133	44843										
OR10G8	219869	broad.mit.edu	37	chr11	123900704	123900704	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgtgatcgctacctggccatCagttacccgctcaggtacac	9	14	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr11:123900704C>G	uc001pzp.1	+	1	375	c.375C>G	c.(373-375)ATC>ATG	p.I125M		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		ACCTGGCCATCAGTTACCCGC	0.567													67	131	---	---	---	---	PASS	G	123900704	G	G	123900704	3	3	121	1	0	0	0	0	1	0	0	0	10903	816	29	2	377	2	OR10G8	11	123900704	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	53053	123900704	11105812	134	44844										
C1R	715	broad.mit.edu	37	chr12	7241522	7241522	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cacagcattgctgctggtgtCgaggtcggggggcctttgct	16	10	0	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:7241522C>T	uc010sfy.1	-	6	888	c.829G>A	c.(829-831)GAC>AAC	p.D277N	C1R_uc010sfz.1_Missense_Mutation_p.D291N|C1R_uc010sga.1_Missense_Mutation_p.D243N	NM_001733	NP_001724	P00736	C1R_HUMAN	complement component 1, r subcomponent	277	CUB 2.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity				0					Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CTGCTGGTGTCGAGGTCGGGG	0.562													15	22	---	---	---	---	PASS	T	7241522	T	T	7241522	3	4	121	1	0	0	0	0	1	0	0	0	1972	884	31	2	991	2	C1R	12	7241522	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08		7241522	126610373	135	44845										
ITPR2	3709	broad.mit.edu	37	chr12	26709222	26709222	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cttccctcagggaacagcagTtctggactgtacaatacatc	8	12	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:26709222T>C	uc001rhg.2	-	36	5325	c.4908A>G	c.(4906-4908)GAA>GAG	p.E1636E		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1636	Cytoplasmic (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)					GGAACAGCAGTTCTGGACTGT	0.473													90	159	---	---	---	---	PASS	C	26709222	C	C	26709222	2	2	121	1	0	0	0	0	0	0	0	1	7921	1722	60	5		5	ITPR2	12	26709222	Silent	SNP	T	TCGA-60-2708-01A-01D-1522-08	19467700	26709222	107142673	136	44846										
SYT10	341359	broad.mit.edu	37	chr12	33579079	33579079	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	taatctttccttaccgggttGatgacgtaggctcagtaatt	9	8	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:33579079G>T	uc001rll.1	-	2	800	c.503C>A	c.(502-504)TCA>TAA	p.S168*	SYT10_uc009zju.1_5'UTR	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	168	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					TTACCGGGTTGATGACGTAGG	0.279													149	333	---	---	---	---	PASS	T	33579079	T	T	33579079	4	4	121	1	0	0	0	0	0	1	0	0	15463	1294	45	2	1092	2	SYT10	12	33579079	Nonsense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	6869857	33579079	100272816	137	44847										
ADAMTS20	80070	broad.mit.edu	37	chr12	43925955	43925955	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tcccatctgccttcattataGgttctaagaaatattcaccg	5	11	4	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:43925955G>C	uc010skx.1	-	3	497	c.497C>G	c.(496-498)CCT>CGT	p.P166R		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	166						proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CTTCATTATAGGTTCTAAGAA	0.348													21	151	---	---	---	---	PASS	C	43925955	C	C	43925955	3	2	121	1	0	0	0	0	1	0	0	0	266	1000	35	4	5382	4	ADAMTS20	12	43925955	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	10346876	43925955	89925940	138	44848										
TROAP	10024	broad.mit.edu	37	chr12	49719645	49719645	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	acctcgaggccggacattgtGcccccagaggctacaggctc	12	15	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:49719645G>T	uc001rtx.3	+	5	778	c.611G>T	c.(610-612)TGC>TTC	p.C204F	TROAP_uc009zlh.2_Missense_Mutation_p.C204F|TROAP_uc001rty.2_5'Flank	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	204					cell adhesion	cytoplasm				ovary(1)	1						CGGACATTGTGCCCCCAGAGG	0.632													24	60	---	---	---	---	PASS	T	49719645	T	T	49719645	3	4	121	1	0	0	0	0	1	0	0	0	16572	1319	46	3	727	3	TROAP	12	49719645	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	5793690	49719645	84132250	139	44849										
FAIM2	23017	broad.mit.edu	37	chr12	50264382	50264382	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tccaaaaatatactcctcagGgctcagcgagtggcgtcggt	11	11	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:50264382G>T	uc001rvj.1	-	12	1001	c.856C>A	c.(856-858)CCT>ACT	p.P286T	FAIM2_uc001rvi.1_Missense_Mutation_p.P240T|FAIM2_uc001rvk.1_RNA	NM_012306	NP_036438	Q9BWQ8	FAIM2_HUMAN	Fas apoptotic inhibitory molecule 2	286					anti-apoptosis|apoptosis	cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|ovary(1)|skin(1)	3						TACTCCTCAGGGCTCAGCGAG	0.517													54	84	---	---	---	---	PASS	T	50264382	T	T	50264382	3	4	121	1	0	0	0	0	1	0	0	0	5376	1232	43	3	98	3	FAIM2	12	50264382	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	544737	50264382	83587513	140	44850										
KRT6A	3853	broad.mit.edu	37	chr12	52884946	52884946	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgctgtgcgcttgttgatttCatcctcatatctacaggaag	9	9	3	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:52884946C>T	uc001sam.2	-	3	975	c.766G>A	c.(766-768)GAA>AAA	p.E256K		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	256	Coil 1B.|Rod.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		TTGTTGATTTCATCCTCATAT	0.453													88	170	---	---	---	---	PASS	T	52884946	T	T	52884946	3	4	121	1	0	0	0	0	1	0	0	0	8480	835	29	2	956	2	KRT6A	12	52884946	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	2620564	52884946	80966949	141	44851										
HOXC12	3228	broad.mit.edu	37	chr12	54350155	54350155	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agccgctctcggaagaagcgCaagccctattcgaagttgca	11	12	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:54350155C>T	uc010soq.1	+	2	654	c.654C>T	c.(652-654)CGC>CGT	p.R218R		NM_173860	NP_776272	P31275	HXC12_HUMAN	homeobox C12	218	Homeobox.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						GGAAGAAGCGCAAGCCCTATT	0.592													88	149	---	---	---	---	PASS	T	54350155	T	T	54350155	2	4	121	1	0	0	0	0	0	0	0	1	7311	697	25	3		3	HOXC12	12	54350155	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	1465209	54350155	79501740	142	44852										
HOXC11	3227	broad.mit.edu	37	chr12	54367289	54367289	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aagtggcaccatcggaacagCtactcctcctgctatgcggc	10	14	0	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:54367289C>G	uc001sem.2	+	1	380	c.264C>G	c.(262-264)AGC>AGG	p.S88R		NM_014212	NP_055027	O43248	HXC11_HUMAN	homeobox C11	88					endoderm development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ATCGGAACAGCTACTCCTCCT	0.627			T	NUP98	AML								82	145	---	---	---	---	PASS	G	54367289	G	G	54367289	3	3	121	1	0	0	0	0	1	0	0	0	7310	796	28	4	266	4	HOXC11	12	54367289	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	17134	54367289	79484606	143	44853										
DNAJC14	85406	broad.mit.edu	37	chr12	56221155	56221155	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cccagccatggtcaagagtcGagccacttcctcttcaggct	9	15	3	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:56221155G>A	uc001shx.1	-	2	1492	c.1288C>T	c.(1288-1290)CGA>TGA	p.R430*	DNAJC14_uc001shu.1_Nonsense_Mutation_p.R430*|DNAJC14_uc009zob.1_Nonsense_Mutation_p.R430*|DNAJC14_uc001shy.1_Nonsense_Mutation_p.R430*	NM_032364	NP_115740	Q6Y2X3	DJC14_HUMAN	dopamine receptor interacting protein	430					protein folding|protein transport	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|unfolded protein binding			ovary(3)|large_intestine(1)	4						GTCAAGAGTCGAGCCACTTCC	0.542													82	153	---	---	---	---	PASS	A	56221155	A	A	56221155	4	1	121	1	0	0	0	0	0	1	0	0	4633	1066	37	2	844	2	DNAJC14	12	56221155	Nonsense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	1853866	56221155	77630740	144	44854										
GAS2L3	283431	broad.mit.edu	37	chr12	101012343	101012343	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cattccaaaatcatgctgtcGgcatgaagagctacatgaag	9	9	1	3	rs147048300	by1000genomes	TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:101012343G>A	uc001thu.2	+	8	852	c.626G>A	c.(625-627)CGG>CAG	p.R209Q	GAS2L3_uc009zty.2_Missense_Mutation_p.R209Q|GAS2L3_uc001thv.2_Missense_Mutation_p.R105Q	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	209	GAR.				cell cycle arrest					skin(1)	1						TCATGCTGTCGGCATGAAGAG	0.398													8	232	---	---	---	---	PASS	A	101012343	A	A	101012343	3	1	121	1	0	0	0	0	1	0	0	0	6248	1116	39	1	648	1	GAS2L3	12	101012343	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	44791188	101012343	32839552	145	44855										
SRRM4	84530	broad.mit.edu	37	chr12	119583288	119583288	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	acgactcaggaaatgacacgTcctcgccaccctccacgcaa	7	17	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:119583288T>G	uc001txa.1	+	9	1166	c.874T>G	c.(874-876)TCC>GCC	p.S292A		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	292	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						AAATGACACGTCCTCGCCACC	0.637													6	17	---	---	---	---	PASS	G	119583288	G	G	119583288	3	3	121	1	0	0	0	0	1	0	0	0	15170	1667	58	5	908	5	SRRM4	12	119583288	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	18570945	119583288	14268607	146	44856										
EP400	57634	broad.mit.edu	37	chr12	132508341	132508341	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggtggagaggtagtgaaaatAgctcagctggcatccatcac	13	8	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:132508341A>T	uc001ujn.2	+	23	4745	c.4710A>T	c.(4708-4710)ATA>ATT	p.I1570I	EP400_uc001ujl.2_Silent_p.I1569I|EP400_uc001ujm.2_Silent_p.I1489I	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1606					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		TAGTGAAAATAGCTCAGCTGG	0.493													53	82	---	---	---	---	PASS	T	132508341	T	T	132508341	2	4	121	1	0	0	0	0	0	0	0	1	5149	410	15	5		5	EP400	12	132508341	Silent	SNP	A	TCGA-60-2708-01A-01D-1522-08	12925053	132508341	1343554	147	44857										
GOLGA3	2802	broad.mit.edu	37	chr12	133350809	133350809	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tcacggcgggcggtggtctcAgcagctcctccagcagcgag	15	14	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr12:133350809A>T	uc001ukz.1	-	23	4800	c.4241T>A	c.(4240-4242)CTG>CAG	p.L1414Q		NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1414	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CGGTGGTCTCAGCAGCTCCTC	0.622													20	44	---	---	---	---	PASS	T	133350809	T	T	133350809	3	4	121	1	0	0	0	0	1	0	0	0	6554	188	7	5	263	5	GOLGA3	12	133350809	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	842468	133350809	501086	148	44858										
HTR2A	3356	broad.mit.edu	37	chr13	47409668	47409668	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aagggaatgaaaaatgacacAaaagagccgatcaggacaaa	10	6	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr13:47409668A>T	uc001vbq.2	-	3	854	c.720T>A	c.(718-720)TTT>TTA	p.F240L	HTR2A_uc001vbr.2_Missense_Mutation_p.F140L|HTR2A_uc010acr.2_Missense_Mutation_p.F240L	NM_000621	NP_000612	P28223	5HT2A_HUMAN	5-hydroxytryptamine receptor 2A isoform 1	240	Helical; Name=5; (By similarity).				ERK1 and ERK2 cascade|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	integral to plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|serotonin binding|serotonin receptor activity			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		all_lung(13;7.2e-10)|Lung NSC(96;3.77e-07)|Breast(56;2.06e-05)|Prostate(109;0.00116)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Myeloproliferative disorder(33;0.0333)		GBM - Glioblastoma multiforme(144;4.67e-05)|COAD - Colon adenocarcinoma(199;0.224)	Aripiprazole(DB01238)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cisapride(DB00604)|Clomipramine(DB01242)|Clozapine(DB00363)|Cyclobenzaprine(DB00924)|Cyproheptadine(DB00434)|Dihydroergotamine(DB00320)|Donepezil(DB00843)|Epinastine(DB00751)|Ergotamine(DB00696)|Fluvoxamine(DB00176)|Mesoridazine(DB00933)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Olanzapine(DB00334)|Paliperidone(DB01267)|Paroxetine(DB00715)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	AAAATGACACAAAAGAGCCGA	0.438													34	33	---	---	---	---	PASS	T	47409668	T	T	47409668	3	4	121	1	0	0	0	0	1	0	0	0	7441	127	5	5	699	5	HTR2A	13	47409668	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08		47409668	67760210	149	44859										
ATP7B	540	broad.mit.edu	37	chr13	52520501	52520501	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ccggtgcccaccatgacagcCgtgggcgtggccagccccag	14	17	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr13:52520501C>T	uc001vfw.2	-	13	3136	c.2979G>A	c.(2977-2979)ACG>ACA	p.T993T	ATP7B_uc010adv.2_Silent_p.T563T|ATP7B_uc001vfx.2_Silent_p.T786T|ATP7B_uc001vfy.2_Silent_p.T882T|ATP7B_uc010tgt.1_Intron|ATP7B_uc010tgu.1_Silent_p.T945T|ATP7B_uc010tgv.1_Silent_p.T915T|ATP7B_uc001vfv.2_Silent_p.T265T|ATP7B_uc010tgs.1_Silent_p.T265T	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	993	Helical; (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		CCATGACAGCCGTGGGCGTGG	0.642									Wilson_disease				16	5	---	---	---	---	PASS	T	52520501	T	T	52520501	2	4	121	1	0	0	0	0	0	0	0	1	1191	639	23	1		1	ATP7B	13	52520501	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	5110833	52520501	62649377	150	44860										
OR11H12	440153	broad.mit.edu	37	chr14	19377759	19377759	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	catatgcactgactataacaGggaatggagccattgctttt	9	8	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr14:19377759G>T	uc010tkp.1	+	1	166	c.166G>T	c.(166-168)GGG>TGG	p.G56W		NM_001013354	NP_001013372	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H,	56	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GACTATAACAGGGAATGGAGC	0.398													367	110	---	---	---	---	PASS	T	19377759	T	T	19377759	3	4	121	1	0	0	0	0	1	0	0	0	10927	1000	35	3	168	3	OR11H12	14	19377759	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08		19377759	87971781	151	44861										
SALL2	6297	broad.mit.edu	37	chr14	21991560	21991560	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ctcttcttcctcatcctcctCttcctcctcctcagacaact	1	20	5	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr14:21991560C>G	uc001wbe.2	-	2	2584	c.2302G>C	c.(2302-2304)GAG>CAG	p.E768Q	SALL2_uc010tly.1_Missense_Mutation_p.E766Q|SALL2_uc010tlz.1_Missense_Mutation_p.E631Q|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Missense_Mutation_p.E633Q|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	768	Poly-Glu.						DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		tcatcctcctcttcctcctcc	0.458													40	107	---	---	---	---	PASS	G	21991560	G	G	21991560	3	3	121	1	0	0	0	0	1	0	0	0	13811	922	32	2	725	2	SALL2	14	21991560	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	2613801	21991560	85357980	152	44862										
JUB	84962	broad.mit.edu	37	chr14	23444075	23444075	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gggaggatgggttggccacaGgctgcacacttaggagcata	16	8	0	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr14:23444075G>A	uc001whz.2	-	6	1771	c.1395C>T	c.(1393-1395)GCC>GCT	p.A465A	JUB_uc001why.2_Silent_p.A48A	NM_032876	NP_116265	Q96IF1	JUB_HUMAN	ajuba isoform 1	465	LIM zinc-binding 3.				cell cycle|gene silencing by miRNA|positive regulation of protein complex assembly	cell-cell junction|cytoplasmic mRNA processing body|microtubule organizing center	alpha-catenin binding|zinc ion binding				0	all_cancers(95;4.6e-05)			GBM - Glioblastoma multiforme(265;0.0122)		GTTGGCCACAGGCTGCACACT	0.577													177	47	---	---	---	---	PASS	A	23444075	A	A	23444075	2	1	121	1	0	0	0	0	0	0	0	1	7968	987	35	3		3	JUB	14	23444075	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	1452515	23444075	83905465	153	44863										
NID2	22795	broad.mit.edu	37	chr14	52534597	52534597	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tctcccgagggcagcgccccGcgcttgacctcctcgtaagc	11	18	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr14:52534597G>A	uc001wzo.2	-	2	747	c.513C>T	c.(511-513)CGC>CGT	p.R171R	NID2_uc010tqs.1_Silent_p.R171R|NID2_uc010tqt.1_Silent_p.R171R|NID2_uc001wzp.2_Silent_p.R171R	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	171	NIDO.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					GCAGCGCCCCGCGCTTGACCT	0.632													24	432	---	---	---	---	PASS	A	52534597	A	A	52534597	2	1	121	1	0	0	0	0	0	0	0	1	10415	1074	38	1		1	NID2	14	52534597	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	29090522	52534597	54814943	154	44864										
ADAM21	8747	broad.mit.edu	37	chr14	70925402	70925402	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	accagggatcatgtctgcatAatcctccaagattgggggaa	11	9	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr14:70925402A>T	uc001xmd.2	+	1	1186	c.1186A>T	c.(1186-1188)AAT>TAT	p.N396Y		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	396	Peptidase M12B.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		ATGTCTGCATAATCCTCCAAG	0.438													185	79	---	---	---	---	PASS	T	70925402	T	T	70925402	3	4	121	1	0	0	0	0	1	0	0	0	243	362	13	5	1188	5	ADAM21	14	70925402	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	18390805	70925402	36424138	155	44865										
SIPA1L1	26037	broad.mit.edu	37	chr14	72200451	72200451	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gcaggcagcctatgcccgacCctggcctgatgcccctgcct	11	18	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr14:72200451C>T	uc001xms.2	+	19	5341	c.4993C>T	c.(4993-4995)CCT>TCT	p.P1665S	SIPA1L1_uc001xmt.2_Missense_Mutation_p.P1644S|SIPA1L1_uc001xmu.2_Missense_Mutation_p.P1644S|SIPA1L1_uc001xmv.2_Missense_Mutation_p.P1665S|SIPA1L1_uc010ttm.1_Missense_Mutation_p.P1119S|SIPA1L1_uc001xmw.2_Missense_Mutation_p.P430S	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1665					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TATGCCCGACCCTGGCCTGAT	0.587													36	52	---	---	---	---	PASS	T	72200451	T	T	72200451	3	4	121	1	0	0	0	0	1	0	0	0	14329	623	22	3	5063	3	SIPA1L1	14	72200451	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	1275049	72200451	35149089	156	44866										
ABCD4	5826	broad.mit.edu	37	chr14	74753465	74753465	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tccccagctgctggccgatgCgatagagctcgctctccact	10	16	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr14:74753465C>T	uc001xpr.2	-	18	1843	c.1691G>A	c.(1690-1692)CGC>CAC	p.R564H	ABCD4_uc001xps.2_Missense_Mutation_p.R405H|ABCD4_uc001xpt.2_Missense_Mutation_p.R405H|ABCD4_uc010tur.1_Missense_Mutation_p.R460H	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	564	ABC transporter.					ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)		CTGGCCGATGCGATAGAGCTC	0.582													11	102	---	---	---	---	PASS	T	74753465	T	T	74753465	3	4	121	1	0	0	0	0	1	0	0	0	63	768	27	1	137	1	ABCD4	14	74753465	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	2553014	74753465	32596075	157	44867										
FLRT2	23768	broad.mit.edu	37	chr14	86088921	86088921	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tggccgtcagggaattaaatAtgaatcttttgtcctgtccc	9	9	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr14:86088921A>G	uc001xvr.2	+	2	1830	c.1063A>G	c.(1063-1065)ATG>GTG	p.M355V	FLRT2_uc010atd.2_Missense_Mutation_p.M355V	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	355	Extracellular (Potential).|LRRCT.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GGAATTAAATATGAATCTTTT	0.547													269	94	---	---	---	---	PASS	G	86088921	G	G	86088921	3	3	121	1	0	0	0	0	1	0	0	0	5939	449	16	5	1065	5	FLRT2	14	86088921	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	11335456	86088921	21260619	158	44868										
HSP90AA1	3320	broad.mit.edu	37	chr14	102605647	102605647	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ctgggcggggatccagacggTcgcgcgggtattcagcactc	16	12	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr14:102605647T>C	uc001ykv.3	-	1	440	c.95A>G	c.(94-96)GAC>GGC	p.D32G	WDR20_uc001yky.1_5'Flank|WDR20_uc001yla.2_5'Flank|WDR20_uc001ykz.2_5'Flank|WDR20_uc001ylb.2_5'Flank|WDR20_uc010txu.1_5'Flank|WDR20_uc001ylc.2_5'Flank|WDR20_uc001yld.2_5'Flank|WDR20_uc001yle.2_5'Flank|WDR20_uc001ylf.2_5'Flank	NM_001017963	NP_001017963	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 1	Error:Variant_position_missing_in_P07900_after_alignment					axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	ATCCAGACGGTCGCGCGGGTA	0.642													21	34	---	---	---	---	PASS	C	102605647	C	C	102605647	3	2	121	1	0	0	0	0	1	0	0	0	7401	1667	58	5	2517	5	HSP90AA1	14	102605647	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	16516726	102605647	4743893	159	44869										
CYFIP1	23191	broad.mit.edu	37	chr15	22962496	22962496	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gaatcagggagccacgatccAcctcccgccgtctaaccgct	9	17	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr15:22962496A>T	uc001yus.2	+	20	2320	c.2216A>T	c.(2215-2217)CAC>CTC	p.H739L	CYFIP1_uc001yut.2_Missense_Mutation_p.H739L|CYFIP1_uc010aya.1_Missense_Mutation_p.H767L|CYFIP1_uc001yuu.2_Missense_Mutation_p.H308L	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	739					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		GCCACGATCCACCTCCCGCCG	0.507													21	23	---	---	---	---	PASS	T	22962496	T	T	22962496	3	4	121	1	0	0	0	0	1	0	0	0	4137	159	6	5	2671	5	CYFIP1	15	22962496	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08		22962496	79568896	160	44870										
SHF	90525	broad.mit.edu	37	chr15	45491044	45491044	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ccgccagttgcttttcttctTctgttttggcccattagcca	7	13	3	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr15:45491044T>A	uc001zuy.2	-	2	724	c.229A>T	c.(229-231)AAG>TAG	p.K77*		NM_138356	NP_612365	Q7M4L6	SHF_HUMAN	Src homology 2 domain containing F	77										ovary(1)	1		all_cancers(109;8.13e-11)|all_epithelial(112;6.29e-09)|Lung NSC(122;3.57e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;4.1e-16)|GBM - Glioblastoma multiforme(94;5.98e-06)		CTTTTCTTCTTCTGTTTTGGC	0.572											OREG0023105	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	123	84	---	---	---	---	PASS	A	45491044	A	A	45491044	4	1	121	1	0	0	0	0	0	1	0	0	14277	1792	62	5	1070	5	SHF	15	45491044	Nonsense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	22528548	45491044	57040348	161	44871										
SGK269	79834	broad.mit.edu	37	chr15	77471208	77471208	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtcctgtagtaatgcattctCtgctctacccttctccatga	6	13	3	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr15:77471208C>G	uc002bcm.2	-	3	3369	c.3061G>C	c.(3061-3063)GAG>CAG	p.E1021Q	SGK269_uc002bcn.2_Missense_Mutation_p.E1021Q	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	1021					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		AATGCATTCTCTGCTCTACCC	0.468													36	110	---	---	---	---	PASS	G	77471208	G	G	77471208	3	3	121	1	0	0	0	0	1	0	0	0	14211	922	32	2	2195	2	SGK269	15	77471208	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	31980164	77471208	25060184	162	44872										
EFTUD1	79631	broad.mit.edu	37	chr15	82523274	82523274	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	taagaacttcctttttgatgCcaattttttgactgtagatt	6	6	0	4			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr15:82523274C>G	uc002bgt.1	-	8	939	c.770G>C	c.(769-771)GGC>GCC	p.G257A	EFTUD1_uc002bgu.1_Missense_Mutation_p.G206A	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	257					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						CTTTTTGATGCCAATTTTTTG	0.289													17	140	---	---	---	---	PASS	G	82523274	G	G	82523274	3	3	121	1	0	0	0	0	1	0	0	0	4960	739	26	4	2644	4	EFTUD1	15	82523274	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	5052066	82523274	20008118	163	44873										
PARN	5073	broad.mit.edu	37	chr16	14720998	14720998	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gacatctggtgaggatctatTgaagggtttcgggaaaacat	13	5	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr16:14720998T>C	uc010uzd.1	-	5	434	c.292A>G	c.(292-294)AAT>GAT	p.N98D	PARN_uc010uzc.1_Missense_Mutation_p.N37D|PARN_uc010uze.1_Intron|PARN_uc010uzf.1_Intron|PARN_uc010uzg.1_Intron	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation	98					female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2						GAGGATCTATTGAAGGGTTTC	0.368													16	11	---	---	---	---	PASS	C	14720998	C	C	14720998	3	2	121	1	0	0	0	0	1	0	0	0	11453	1812	63	5	1707	5	PARN	16	14720998	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08		14720998	75633755	164	44874										
TRADD	8717	broad.mit.edu	37	chr16	67189189	67189189	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gccagttcttcatcccggagCcggtcgggctaggggaatgg	16	11	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr16:67189189C>T	uc002eri.1	-	4	518	c.438G>A	c.(436-438)CGG>CGA	p.R146R	TRADD_uc002erh.1_Silent_p.R86R	NM_003789	NP_003780	Q15628	TRADD_HUMAN	TNFRSF1A-associated via death domain	146					activation of caspase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|tumor necrosis factor-mediated signaling pathway	cytoskeleton|cytosol|receptor complex	binding, bridging|death domain binding|identical protein binding|kinase binding|signal transducer activity			lung(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		CATCCCGGAGCCGGTCGGGCT	0.697													5	20	---	---	---	---	PASS	T	67189189	T	T	67189189	2	4	121	1	0	0	0	0	0	0	0	1	16433	726	26	3		3	TRADD	16	67189189	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	52468191	67189189	23165564	165	44875										
CENPT	80152	broad.mit.edu	37	chr16	67866358	67866358	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tcagtgggctgggtacttacCctggctccatgggaacgccc	13	13	1	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr16:67866358C>A	uc002eun.3	-	5	750	c.201G>T	c.(199-201)AGG>AGT	p.R67S	CENPT_uc002eum.3_Missense_Mutation_p.R67S|CENPT_uc010vkc.1_5'UTR|CENPT_uc010vkd.1_5'UTR|CENPT_uc010vke.1_5'UTR	NM_025082	NP_079358	Q96BT3	CENPT_HUMAN	centromere protein T	67					mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleus	DNA binding				0		Acute lymphoblastic leukemia(13;0.000299)|all_hematologic(13;0.0184)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00429)|Epithelial(162;0.019)|all cancers(182;0.124)		GGGTACTTACCCTGGCTCCAT	0.607													31	63	---	---	---	---	PASS	A	67866358	A	A	67866358	3	1	121	1	0	0	0	0	1	0	0	0	3242	637	22	3	1532	3	CENPT	16	67866358	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	677169	67866358	22488395	166	44876										
TP53	7157	broad.mit.edu	37	chr17	7578469	7578469	+	Frame_Shift_Del	DEL	C	-	-													0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ccatggcgcggacgcgggtgCcgggcgggggtgtggaatca							TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr17:7578469delC	uc002gim.2	-	5	655	c.461delG	c.(460-462)GGCfs	p.G154fs	TP53_uc002gig.1_Frame_Shift_Del_p.G154fs|TP53_uc002gih.2_Frame_Shift_Del_p.G154fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.G22fs|TP53_uc010cng.1_Frame_Shift_Del_p.G22fs|TP53_uc002gii.1_Frame_Shift_Del_p.G22fs|TP53_uc010cnh.1_Frame_Shift_Del_p.G154fs|TP53_uc010cni.1_Frame_Shift_Del_p.G154fs|TP53_uc002gij.2_Frame_Shift_Del_p.G154fs|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Frame_Shift_Del_p.G61fs|TP53_uc002gio.2_Frame_Shift_Del_p.G22fs|TP53_uc010vug.1_Frame_Shift_Del_p.G115fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	154	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		G -> D (in sporadic cancers; somatic mutation).|G -> S (in sporadic cancers; somatic mutation).|G -> A (in sporadic cancers; somatic mutation).|G -> V (in a brain tumor with no family history; germline mutation and in sporadic cancers; somatic mutation).|G -> I (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> C (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G154V(36)|p.G154G(12)|p.G154S(9)|p.0?(7)|p.G154D(6)|p.P152fs*14(4)|p.G154I(3)|p.G154fs*27(3)|p.G154fs*16(2)|p.G154fs*14(2)|p.P153fs*26(2)|p.P153fs*22(2)|p.P151_V173del23(1)|p.G154_R156delGTR(1)|p.G154C(1)|p.Q144_G154del11(1)|p.D148_T155delDSTPPPGT(1)|p.G154A(1)|p.S149fs*72(1)|p.G154fs*22(1)|p.D148fs*23(1)|p.P153_G154insX(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)		GACGCGGGTGCCGGGCGGGGG	0.607		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)			42	48	---	---	---	---		-	7578469	-	-	7578469	7	5	121	1	0	1	0	1	0	0	0	0	16378	739	26	0	837	0	TP53	17	7578469	Frame_Shift_Del	DEL	C	TCGA-60-2708-01A-01D-1522-08		7578469	73616741	167	44877										
COX10	1352	broad.mit.edu	37	chr17	13980210	13980210	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agcctatctttgtccagaaaGccaaatgaaaaggaattgat	8	7	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr17:13980210G>A	uc002gof.3	+	3	540	c.336G>A	c.(334-336)AAG>AAA	p.K112K	COX10_uc010vvs.1_Intron|COX10_uc010vvt.1_5'UTR	NM_001303	NP_001294	Q12887	COX10_HUMAN	heme A:farnesyltransferase precursor	112					heme a biosynthetic process|heme O biosynthetic process|respiratory chain complex IV assembly	integral to membrane|mitochondrial membrane	protoheme IX farnesyltransferase activity				0		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)		TGTCCAGAAAGCCAAATGAAA	0.413													53	42	---	---	---	---	PASS	A	13980210	A	A	13980210	2	1	121	1	0	0	0	0	0	0	0	1	3762	962	34	3		3	COX10	17	13980210	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	6401741	13980210	67215000	168	44878										
MYO18A	399687	broad.mit.edu	37	chr17	27437117	27437117	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ttgatggtgtcgatgagggcGtcctgccgaggggaagagac	18	7	0	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr17:27437117G>A	uc002hdt.1	-	19	3248	c.3090C>T	c.(3088-3090)GAC>GAT	p.D1030D	MYO18A_uc010wbc.1_Silent_p.D572D|MYO18A_uc002hds.2_Silent_p.D572D|MYO18A_uc010csa.1_Silent_p.D1030D|MYO18A_uc002hdu.1_Silent_p.D1030D|MYO18A_uc010wbd.1_Silent_p.D699D	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	1030	Myosin head-like.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CGATGAGGGCGTCCTGCCGAG	0.622													10	30	---	---	---	---	PASS	A	27437117	A	A	27437117	2	1	121	1	0	0	0	0	0	0	0	1	10065	1136	40	1		1	MYO18A	17	27437117	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	13456907	27437117	53758093	169	44879										
NF1	4763	broad.mit.edu	37	chr17	29701119	29701119	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggatccgcaagccaagtgcaGaagcaaagaagcgctggcag	14	10	0	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr17:29701119G>C	uc002hgg.2	+	58	8799	c.8466G>C	c.(8464-8466)CAG>CAC	p.Q2822H	NF1_uc002hgh.2_Missense_Mutation_p.Q2801H|NF1_uc010cso.2_Missense_Mutation_p.Q1028H|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2822					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		GCCAAGTGCAGAAGCAAAGAA	0.463			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			15	75	---	---	---	---	PASS	C	29701119	C	C	29701119	3	2	121	1	0	0	0	0	1	0	0	0	10356	933	33	2	8757	2	NF1	17	29701119	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	2264002	29701119	51494091	170	44880										
KRT37	8688	broad.mit.edu	37	chr17	39580033	39580033	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cttgatcctaaagtcatcagCagccagcttcgcgttgtcaa	8	12	3	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr17:39580033C>A	uc002hwp.1	-	2	603	c.556G>T	c.(556-558)GCT>TCT	p.A186S	uc002hwo.1_RNA	NM_003770	NP_003761	O76014	KRT37_HUMAN	keratin 37	186	Rod.|Coil 1B.					intermediate filament	structural molecule activity			skin(1)	1		Breast(137;0.000496)				AAGTCATCAGCAGCCAGCTTC	0.313													13	68	---	---	---	---	PASS	A	39580033	A	A	39580033	3	1	121	1	0	0	0	0	1	0	0	0	8474	710	25	3	817	3	KRT37	17	39580033	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	9878914	39580033	41615177	171	44881										
SKAP1	8631	broad.mit.edu	37	chr17	46257527	46257527	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggaaccacaacttggggagtCaaaaccatcaatatcatcat	7	10	4	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr17:46257527C>T	uc002ini.1	-	9	827	c.715G>A	c.(715-717)GAC>AAC	p.D239N	SKAP1_uc002inj.1_Missense_Mutation_p.D239N|SKAP1_uc010dbd.1_Missense_Mutation_p.D145N|SKAP1_uc010dbe.1_Missense_Mutation_p.D239N	NM_003726	NP_003717	Q86WV1	SKAP1_HUMAN	src kinase associated phosphoprotein 1 isoform	239					positive regulation of transcription from RNA polymerase II promoter|T cell receptor signaling pathway	cytoplasm|nucleus|plasma membrane	antigen binding|protein kinase binding|SH2 domain binding				0						CTTGGGGAGTCAAAACCATCA	0.358													34	86	---	---	---	---	PASS	T	46257527	T	T	46257527	3	4	121	1	0	0	0	0	1	0	0	0	14355	826	29	2	380	2	SKAP1	17	46257527	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	6677494	46257527	34937683	172	44882										
APPBP2	10513	broad.mit.edu	37	chr17	58543698	58543698	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggagtgcacacagttctccaTagagtgcagctttatttgct	10	9	1	1	rs140223877		TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr17:58543698T>C	uc002iys.1	-	5	914	c.626A>G	c.(625-627)TAT>TGT	p.Y209C	APPBP2_uc010ddl.1_Missense_Mutation_p.Y138C	NM_006380	NP_006371	Q92624	APBP2_HUMAN	amyloid beta precursor protein-binding protein	209	TPR 3.				intracellular protein transport	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|nucleus	microtubule motor activity|protein binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.67e-13)|all cancers(12;1.44e-11)|Colorectal(3;0.01)			CAGTTCTCCATAGAGTGCAGC	0.348													102	124	---	---	---	---	PASS	C	58543698	C	C	58543698	3	2	121	1	0	0	0	0	1	0	0	0	816	1406	49	5	1167	5	APPBP2	17	58543698	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	12286171	58543698	22651512	173	44883										
KIAA1632	57724	broad.mit.edu	37	chr18	43531083	43531083	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cttaccaatttctgcagccaGagaagaatatcatcatgaaa	6	9	3	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr18:43531083G>C	uc002lbm.2	-	4	1474	c.1374C>G	c.(1372-1374)CTC>CTG	p.L458L	KIAA1632_uc002lbo.1_Silent_p.L458L	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	458					autophagy						0						TCTGCAGCCAGAGAAGAATAT	0.348													20	71	---	---	---	---	PASS	C	43531083	C	C	43531083	2	2	121	1	0	0	0	0	0	0	0	1	8249	929	33	2		2	KIAA1632	18	43531083	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08		43531083	34546165	174	44884										
SMAD7	4092	broad.mit.edu	37	chr18	46474754	46474754	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tttaaaaatcatctactcacCagttggtttgagaaaatcca	5	8	3	1	rs34000389		TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr18:46474754C>A	uc002ldg.2	-	2	954	c.667G>T	c.(667-669)GCA>TCA	p.A223S	SMAD7_uc010xde.1_Missense_Mutation_p.A8S	NM_005904	NP_005895	O15105	SMAD7_HUMAN	SMAD family member 7	223					adherens junction assembly|artery morphogenesis|BMP signaling pathway|cellular protein complex localization|negative regulation of BMP signaling pathway|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of pathway-restricted SMAD protein phosphorylation|negative regulation of peptidyl-serine phosphorylation|negative regulation of peptidyl-threonine phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of ubiquitin-protein ligase activity|pathway-restricted SMAD protein phosphorylation|positive regulation of anti-apoptosis|positive regulation of cell-cell adhesion|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein stabilization|regulation of activin receptor signaling pathway|response to laminar fluid shear stress|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	centrosome|cytosol|nucleolus|plasma membrane|transcription factor complex	activin binding|beta-catenin binding|I-SMAD binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor, inhibitory cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding				0	Colorectal(1;0.0518)					ATCTACTCACCAGTTGGTTTG	0.423													3	59	---	---	---	---	PASS	A	46474754	A	A	46474754	3	1	121	1	0	0	0	0	1	0	0	0	14763	608	21	3	625	3	SMAD7	18	46474754	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	2943671	46474754	31602494	175	44885										
MUC16	94025	broad.mit.edu	37	chr19	9038137	9038137	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gaatgtagaagtcactggagCtgagaaaaaaagaacatgga	12	4	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr19:9038137C>A	uc002mkp.2	-	8	36344	c.36140_splice	c.e8-1	p.T12047_splice		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16						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						GTCACTGGAGCTGAGAAAAAA	0.453													3	7	---	---	---	---	PASS	A	9038137	A	A	9038137	5	1	121	1	0	0	0	0	0	0	1	0	9973	811	28	3	7692	3	MUC16	19	9038137	Splice_Site	SNP	C	TCGA-60-2708-01A-01D-1522-08		9038137	50090846	176	44886										
ZGLP1	100125288	broad.mit.edu	37	chr19	10419279	10419279	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgggtgactcctgggtttagCcggccagggggttccaactt	15	10	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr19:10419279C>T	uc002mnw.3	-	1	955	c.79G>A	c.(79-81)GCT>ACT	p.A27T	FDX1L_uc002mnx.1_Intron	NM_001103167	NP_001096637	P0C6A0	ZGLP1_HUMAN	GATA like protein-1	27					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						CTGGGTTTAGCCGGCCAGGGG	0.597													3	44	---	---	---	---	PASS	T	10419279	T	T	10419279	3	4	121	1	0	0	0	0	1	0	0	0	17670	739	26	3	752	3	ZGLP1	19	10419279	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	1381142	10419279	48709704	177	44887										
CACNA1A	773	broad.mit.edu	37	chr19	13356036	13356036	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tatcggtgatgctgcccagaAcagtcacaaagtcgaagatg	11	9	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr19:13356036A>C	uc010dze.2	-	31	5149	c.4913T>G	c.(4912-4914)GTT>GGT	p.V1638G	CACNA1A_uc010xnd.1_Missense_Mutation_p.V343G|CACNA1A_uc002mwx.3_Missense_Mutation_p.V343G|CACNA1A_uc010dzc.2_Missense_Mutation_p.V1163G|CACNA1A_uc002mwy.3_Missense_Mutation_p.V1637G|CACNA1A_uc010xne.1_Missense_Mutation_p.V1166G|CACNA1A_uc002mwv.3_Missense_Mutation_p.V154G	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1638	Helical; Name=S3 of repeat IV; (Potential).|IV.				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	GCTGCCCAGAACAGTCACAAA	0.572													29	53	---	---	---	---	PASS	C	13356036	C	C	13356036	3	2	121	1	0	0	0	0	1	0	0	0	2538	43	2	5	2780	5	CACNA1A	19	13356036	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	2936757	13356036	45772947	178	44888										
AKAP8	10270	broad.mit.edu	37	chr19	15465755	15465755	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gggaacagcgtctttagactCtgcatcagtttgttccactt	9	10	3	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr19:15465755C>G	uc002nav.2	-	14	2111	c.2050G>C	c.(2050-2052)GAG>CAG	p.E684Q	AKAP8_uc010dzy.2_Missense_Mutation_p.E233Q	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	684					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						TCTTTAGACTCTGCATCAGTT	0.532													5	161	---	---	---	---	PASS	G	15465755	G	G	15465755	3	3	121	1	0	0	0	0	1	0	0	0	457	922	32	2	32	2	AKAP8	19	15465755	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	2109719	15465755	43663228	179	44889										
NCAN	1463	broad.mit.edu	37	chr19	19344641	19344641	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aacccttgtcttcatggaggGacatgtaatgccaatggcac	10	10	2	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr19:19344641G>C	uc002nlz.2	+	9	3162	c.3063G>C	c.(3061-3063)GGG>GGC	p.G1021G	NCAN_uc010ecc.1_Silent_p.G585G	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	1021	EGF-like 1.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			TTCATGGAGGGACATGTAATG	0.488													37	193	---	---	---	---	PASS	C	19344641	C	C	19344641	2	2	121	1	0	0	0	0	0	0	0	1	10204	1161	41	2		2	NCAN	19	19344641	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	3878886	19344641	39784342	180	44890										
CYP2A13	1553	broad.mit.edu	37	chr19	41594403	41594403	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gcctcagggctgcttctggtGaccttgctggcctgcctgac	13	14	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr19:41594403G>A	uc002opt.2	+	1	36	c.27G>A	c.(25-27)GTG>GTA	p.V9V		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	9					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	TGCTTCTGGTGACCTTGCTGG	0.582													13	63	---	---	---	---	PASS	A	41594403	A	A	41594403	2	1	121	1	0	0	0	0	0	0	0	1	4161	1277	45	2		2	CYP2A13	19	41594403	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	22249762	41594403	17534580	181	44891										
MYH14	79784	broad.mit.edu	37	chr19	50796886	50796886	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gcagttggaggaagagctggAggaggagcagagcaactcgg	19	6	0	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr19:50796886A>T	uc002prr.1	+	37	5335	c.5288A>T	c.(5287-5289)GAG>GTG	p.E1763V	MYH14_uc010enu.1_Missense_Mutation_p.E1804V|MYH14_uc002prq.1_Missense_Mutation_p.E1771V|MYH14_uc010ycb.1_Missense_Mutation_p.E114V|MYH14_uc002prs.1_Missense_Mutation_p.E114V	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1763	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		GAAGAGCTGGAGGAGGAGCAG	0.627													13	31	---	---	---	---	PASS	T	50796886	T	T	50796886	3	4	121	1	0	0	0	0	1	0	0	0	10033	304	11	5	5561	5	MYH14	19	50796886	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	9202483	50796886	8332097	182	44892										
ZNF600	162966	broad.mit.edu	37	chr19	53269323	53269323	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agggatggcttgtgactgaaGgtcttgccacactcattaca	11	9	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr19:53269323G>A	uc002qab.3	-	3	1972	c.1686C>T	c.(1684-1686)ACC>ACT	p.T562T		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	562	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		TGTGACTGAAGGTCTTGCCAC	0.438													75	420	---	---	---	---	PASS	A	53269323	A	A	53269323	2	1	121	1	0	0	0	0	0	0	0	1	18027	987	35	3		3	ZNF600	19	53269323	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	2472437	53269323	5859660	183	44893										
NLRP8	126205	broad.mit.edu	37	chr19	56466391	56466391	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgagcagtttgctgagcaaaAcgatgcttccagaggccacg	12	10	0	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr19:56466391A>C	uc002qmh.2	+	3	1038	c.967A>C	c.(967-969)ACG>CCG	p.T323P	NLRP8_uc010etg.2_Missense_Mutation_p.T323P	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	323	NACHT.					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)		GCTGAGCAAAACGATGCTTCC	0.517													102	153	---	---	---	---	PASS	C	56466391	C	C	56466391	3	2	121	1	0	0	0	0	1	0	0	0	10483	43	2	5	977	5	NLRP8	19	56466391	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	3197068	56466391	2662592	184	44894										
USP29	57663	broad.mit.edu	37	chr19	57641900	57641900	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gcaagccaagagcagcatcaGagagacctggaaaatggctc	12	10	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr19:57641900G>C	uc002qny.2	+	4	2213	c.1857G>C	c.(1855-1857)CAG>CAC	p.Q619H		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	619					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AGCAGCATCAGAGAGACCTGG	0.493													21	91	---	---	---	---	PASS	C	57641900	C	C	57641900	3	2	121	1	0	0	0	0	1	0	0	0	17056	933	33	2	1859	2	USP29	19	57641900	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	1175509	57641900	1487083	185	44895										
TMC2	117532	broad.mit.edu	37	chr20	2577827	2577827	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aatacccaaggaagcacaggCgaaggggagagtgacaactt	13	8	0	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:2577827C>T	uc002wgf.1	+	10	1122	c.1107C>T	c.(1105-1107)GGC>GGT	p.G369G	TMC2_uc002wgg.1_Silent_p.G353G|TMC2_uc010zpw.1_Silent_p.G201G|TMC2_uc010zpx.1_Silent_p.G200G	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	369	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						GAAGCACAGGCGAAGGGGAGA	0.527													29	63	---	---	---	---	PASS	T	2577827	T	T	2577827	2	4	121	1	0	0	0	0	0	0	0	1	15982	755	27	1		1	TMC2	20	2577827	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08		2577827	60447693	186	44896										
ADAM33	80332	broad.mit.edu	37	chr20	3660177	3660177	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggtgcgccagggttgtccatCcaggacccagtgcggggtga	17	11	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:3660177C>A	uc002wit.2	-	2	226	c.139G>T	c.(139-141)GAT>TAT	p.D47Y	ADAM33_uc002wir.1_Missense_Mutation_p.D47Y|ADAM33_uc002wiu.2_Missense_Mutation_p.D47Y|ADAM33_uc002wiw.1_RNA|ADAM33_uc010gba.1_Missense_Mutation_p.D47Y|ADAM33_uc010gbb.1_Missense_Mutation_p.D47Y|ADAM33_uc002wix.1_Missense_Mutation_p.D47Y|ADAM33_uc010zqg.1_Missense_Mutation_p.D47Y|ADAM33_uc010zqh.1_Missense_Mutation_p.D47Y|ADAM33_uc002wiy.2_Missense_Mutation_p.D47Y	NM_025220	NP_079496	Q9BZ11	ADA33_HUMAN	ADAM metallopeptidase domain 33 isoform alpha	47	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|ovary(1)|skin(1)	4						GGTTGTCCATCCAGGACCCAG	0.642													6	25	---	---	---	---	PASS	A	3660177	A	A	3660177	3	1	121	1	0	0	0	0	1	0	0	0	250	855	30	2	2386	2	ADAM33	20	3660177	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	1082350	3660177	59365343	187	44897										
RBBP9	10741	broad.mit.edu	37	chr20	18470558	18470558	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ttccagggaaggaacgggtcGtcagtagagccaaactgcac	13	10	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:18470558G>A	uc002wqy.2	-	5	487	c.411C>T	c.(409-411)GAC>GAT	p.D137D		NM_006606	NP_006597	O75884	RBBP9_HUMAN	retinoblastoma binding protein 9	137						cytoplasm|nucleus	hydrolase activity			haematopoietic_and_lymphoid_tissue(1)	1						GGAACGGGTCGTCAGTAGAGC	0.483													92	80	---	---	---	---	PASS	A	18470558	A	A	18470558	2	1	121	1	0	0	0	0	0	0	0	1	13106	1136	40	1		1	RBBP9	20	18470558	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	14810381	18470558	44554962	188	44898										
REM1	28954	broad.mit.edu	37	chr20	30071999	30071999	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtggtgttcgactgtaaattCatcgagacatccgccacgct	10	11	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:30071999C>T	uc002wwa.2	+	5	947	c.663C>T	c.(661-663)TTC>TTT	p.F221F	NCRNA00028_uc010ztn.1_5'Flank	NM_014012	NP_054731	O75628	REM1_HUMAN	RAS-like GTP-binding protein REM	221					small GTPase mediated signal transduction	membrane	calmodulin binding|GTP binding|GTPase activity			lung(2)|pancreas(2)	4	all_cancers(5;0.000119)|Lung NSC(7;1.32e-05)|all_lung(7;2.14e-05)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			ACTGTAAATTCATCGAGACAT	0.657													5	43	---	---	---	---	PASS	T	30071999	T	T	30071999	2	4	121	1	0	0	0	0	0	0	0	1	13222	825	29	2		2	REM1	20	30071999	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	11601441	30071999	32953521	189	44899										
HCK	3055	broad.mit.edu	37	chr20	30689285	30689285	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gagtgtgctggatgacttctAcacggccacagagagccagt	13	10	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:30689285A>G	uc002wxh.2	+	13	1715	c.1544A>G	c.(1543-1545)TAC>TGC	p.Y515C	HCK_uc010gdy.2_Missense_Mutation_p.Y494C|HCK_uc002wxi.2_Missense_Mutation_p.Y493C	NM_002110	NP_002101	P08631	HCK_HUMAN	hemopoietic cell kinase isoform p61HCK	515	Protein kinase.				interspecies interaction between organisms|mesoderm development|regulation of defense response to virus by virus|viral reproduction	caveola|cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|ovary(2)|central_nervous_system(2)|pancreas(1)	9			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			GATGACTTCTACACGGCCACA	0.607													14	40	---	---	---	---	PASS	G	30689285	G	G	30689285	3	3	121	1	0	0	0	0	1	0	0	0	6994	391	14	5	1600	5	HCK	20	30689285	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	617286	30689285	32336235	190	44900										
CHMP4B	128866	broad.mit.edu	37	chr20	32438759	32438759	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ctgtccattgcatttgaaggGacatcgataaagttgatgag	11	6	0	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:32438759G>C	uc002xaa.2	+	3	526	c.370G>C	c.(370-372)GAC>CAC	p.D124H		NM_176812	NP_789782	Q9H444	CHM4B_HUMAN	chromatin modifying protein 4B	124	Potential.				cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			ovary(1)|central_nervous_system(1)	2						CATTTGAAGGGACATCGATAA	0.473													12	164	---	---	---	---	PASS	C	32438759	C	C	32438759	3	2	121	1	0	0	0	0	1	0	0	0	3357	1188	41	2	380	2	CHMP4B	20	32438759	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	1749474	32438759	30586761	191	44901										
CHMP4B	128866	broad.mit.edu	37	chr20	32438855	32438855	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tttcgaaacctgtagggtttGgagaagagtttgacgaggtg	15	4	0	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:32438855G>C	uc002xaa.2	+	3	622	c.466G>C	c.(466-468)GGA>CGA	p.G156R		NM_176812	NP_789782	Q9H444	CHM4B_HUMAN	chromatin modifying protein 4B	156	Potential.				cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			ovary(1)|central_nervous_system(1)	2						TGTAGGGTTTGGAGAAGAGTT	0.448													11	197	---	---	---	---	PASS	C	32438855	C	C	32438855	3	2	121	1	0	0	0	0	1	0	0	0	3357	1349	47	4	476	4	CHMP4B	20	32438855	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	96	32438855	30586665	192	44902										
DDX27	55661	broad.mit.edu	37	chr20	47835940	47835940	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggctgcgaaaagttaagggcCggaccgcaggctgtgctcgc	16	11	0	0	rs150992243	by1000genomes	TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:47835940C>T	uc002xuh.2	+	1	109	c.48C>T	c.(46-48)GCC>GCT	p.A16A		NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	16						nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			AGTTAAGGGCCGGACCGCAGG	0.607													14	24	---	---	---	---	PASS	T	47835940	T	T	47835940	2	4	121	1	0	0	0	0	0	0	0	1	4354	639	23	1		1	DDX27	20	47835940	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	15397085	47835940	15189580	193	44903										
SPATA2	9825	broad.mit.edu	37	chr20	48523016	48523016	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtccttggccgcccgctcgcTggccgacttctggagtgcca	13	16	1	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:48523016T>A	uc010gie.2	-	3	1053	c.703A>T	c.(703-705)AGC>TGC	p.S235C	SPATA2_uc002xuw.2_Missense_Mutation_p.S235C|SPATA2_uc010zyn.1_Missense_Mutation_p.S98C	NM_001135773	NP_001129245	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	235					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			GCCCGCTCGCTGGCCGACTTC	0.682													16	77	---	---	---	---	PASS	A	48523016	A	A	48523016	3	1	121	1	0	0	0	0	1	0	0	0	15004	1580	55	5	863	5	SPATA2	20	48523016	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	687076	48523016	14502504	194	44904										
CASS4	57091	broad.mit.edu	37	chr20	55027781	55027781	+	Missense_Mutation	SNP	C	T	T													0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtaaccttcagaacagaattCgggaccagatgcagaccatc							TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:55027781C>T	uc002xxp.2	+	6	1774	c.1549C>T	c.(1549-1551)CGG>TGG	p.R517W	CASS4_uc002xxq.3_Missense_Mutation_p.R517W|CASS4_uc002xxr.2_Missense_Mutation_p.R517W|CASS4_uc010zze.1_Missense_Mutation_p.R463W|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	517					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						GAACAGAATTCGGGACCAGAT	0.463													36	80	---	---	---	---	PASS	T	55027781	T	T	55027781	3	4	121	1	0	0	0	0	1	0	0	0	2683	875	31	2	1567	2	CASS4	20	55027781	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	6504765	55027781	7997739	195	44905	832	2								
CASS4	57091	broad.mit.edu	37	chr20	55027782	55027782	+	Missense_Mutation	SNP	G	T	T													0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	taaccttcagaacagaattcGggaccagatgcagaccatct							TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:55027782G>T	uc002xxp.2	+	6	1775	c.1550G>T	c.(1549-1551)CGG>CTG	p.R517L	CASS4_uc002xxq.3_Missense_Mutation_p.R517L|CASS4_uc002xxr.2_Missense_Mutation_p.R517L|CASS4_uc010zze.1_Missense_Mutation_p.R463L|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	517					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						AACAGAATTCGGGACCAGATG	0.468													36	79	---	---	---	---	PASS	T	55027782	T	T	55027782	3	4	121	1	0	0	0	0	1	0	0	0	2683	1116	39	1	1568	1	CASS4	20	55027782	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	1	55027782	7997738	196	44906	832	2								
NPEPL1	79716	broad.mit.edu	37	chr20	57289620	57289620	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ctcctggcctccctaggaccGagacaacagccccagctcct	8	19	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:57289620G>A	uc010zzs.1	+	11	1402	c.1307G>A	c.(1306-1308)CGA>CAA	p.R436Q	NPEPL1_uc010zzr.1_Missense_Mutation_p.R388Q|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Missense_Mutation_p.R408Q|NPEPL1_uc002xzp.2_3'UTR	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	436					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			CCCTAGGACCGAGACAACAGC	0.647													3	6	---	---	---	---	PASS	A	57289620	A	A	57289620	3	1	121	1	0	0	0	0	1	0	0	0	10574	1058	37	2	1195	2	NPEPL1	20	57289620	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	2261838	57289620	5735900	197	44907										
CHRNA4	1137	broad.mit.edu	37	chr20	61982049	61982049	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aagagcggcagccgccggatGacgaaggcataggtgatgtc	16	9	0	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr20:61982049G>A	uc002yes.2	-	5	892	c.714C>T	c.(712-714)GTC>GTT	p.V238V	CHRNA4_uc002yet.1_Silent_p.V62V|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Silent_p.V167V|CHRNA4_uc002yev.1_Silent_p.V62V|CHRNA4_uc010gkf.1_Silent_p.V62V	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	238	Extracellular (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	GCCGCCGGATGACGAAGGCAT	0.597													29	49	---	---	---	---	PASS	A	61982049	A	A	61982049	2	1	121	1	0	0	0	0	0	0	0	1	3385	1277	45	2		2	CHRNA4	20	61982049	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	4692429	61982049	1043471	198	44908										
GRIK1	2897	broad.mit.edu	37	chr21	31062214	31062214	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtctgtatgtgtggaacttcGagagcattgcaaatagactg	12	6	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr21:31062214G>C	uc002yno.1	-	3	842	c.378C>G	c.(376-378)CTC>CTG	p.L126L	GRIK1_uc002ynn.2_Silent_p.L126L|GRIK1_uc011acs.1_Silent_p.L126L|GRIK1_uc011act.1_Silent_p.L70L|GRIK1_uc010glq.1_Intron|GRIK1_uc002ynr.2_Silent_p.L126L	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	126	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	GTGGAACTTCGAGAGCATTGC	0.517													11	296	---	---	---	---	PASS	C	31062214	C	C	31062214	2	2	121	1	0	0	0	0	0	0	0	1	6773	1045	37	2		2	GRIK1	21	31062214	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08		31062214	17067681	199	44909										
SUSD2	56241	broad.mit.edu	37	chr22	24584086	24584086	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cggcacctggtcctcacccaCcccgaagtgccagccaggtg	11	18	1	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr22:24584086C>T	uc002zzn.1	+	13	2368	c.2324C>T	c.(2323-2325)ACC>ATC	p.T775I		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	775	Sushi.|Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						TCCTCACCCACCCCGAAGTGC	0.647													15	203	---	---	---	---	PASS	T	24584086	T	T	24584086	3	4	121	1	0	0	0	0	1	0	0	0	15405	507	18	3	2374	3	SUSD2	22	24584086	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08		24584086	26720480	200	44910										
CACNG2	10369	broad.mit.edu	37	chr22	36960438	36960438	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggttggctgtgttggagtggAgagagtccttgttctccttc	15	7	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr22:36960438A>T	uc003aps.1	-	4	1214	c.932T>A	c.(931-933)CTC>CAC	p.L311H		NM_006078	NP_006069	Q9Y698	CCG2_HUMAN	voltage-dependent calcium channel gamma-2	311					membrane depolarization|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0						GTTGGAGTGGAGAGAGTCCTT	0.532													29	73	---	---	---	---	PASS	T	36960438	T	T	36960438	3	4	121	1	0	0	0	0	1	0	0	0	2557	304	11	5	43	5	CACNG2	22	36960438	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	12376352	36960438	14344128	201	44911										
IL17REL	400935	broad.mit.edu	37	chr22	50439241	50439241	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	cccacacgctctgacactgcGtctcctgggtgtccaggctc	10	17	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chr22:50439241G>A	uc003bje.1	-	5	393	c.161C>T	c.(160-162)ACG>ATG	p.T54M		NM_001001694	NP_001001694	Q6ZVW7	I17EL_HUMAN	interleukin 17 receptor E-like	54										pancreas(1)	1		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		CTGACACTGCGTCTCCTGGGT	0.706													17	35	---	---	---	---	PASS	A	50439241	A	A	50439241	3	1	121	1	0	0	0	0	1	0	0	0	7644	1145	40	1	889	1	IL17REL	22	50439241	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	13478803	50439241	865325	202	44912										
CLCN4	1183	broad.mit.edu	37	chrX	10176330	10176330	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgcaggaggcgcaagaccacCaggctggggaagtacccggt	16	11	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:10176330C>A	uc004csy.3	+	9	1519	c.1089C>A	c.(1087-1089)ACC>ACA	p.T363T	CLCN4_uc011mid.1_Silent_p.T269T	NM_001830	NP_001821	P51793	CLCN4_HUMAN	chloride channel 4	363						early endosome membrane|integral to membrane|late endosome membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						GCAAGACCACCAGGCTGGGGA	0.607													56	260	---	---	---	---	PASS	A	10176330	A	A	10176330	2	1	121	1	0	0	0	0	0	0	0	1	3465	581	21	3		3	CLCN4	23	10176330	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08		10176330	145094230	203	44913										
ARHGAP6	395	broad.mit.edu	37	chrX	11682535	11682535	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ccggccaggacagaaggcagGtcccaggccatgctcttctt	12	14	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:11682535G>A	uc004cup.1	-	1	1287	c.414C>T	c.(412-414)GAC>GAT	p.D138D	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cur.1_Silent_p.D138D	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	138					actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						CAGAAGGCAGGTCCCAGGCCA	0.627													19	38	---	---	---	---	PASS	A	11682535	A	A	11682535	2	1	121	1	0	0	0	0	0	0	0	1	887	1252	44	3		3	ARHGAP6	23	11682535	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	1506205	11682535	143588025	204	44914										
TAB3	257397	broad.mit.edu	37	chrX	30873081	30873081	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ctgatgaactctgagatgtcTgtctaatataaatagaacca	7	7	3	4			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:30873081T>C	uc004dcj.2	-	6	1364	c.701A>G	c.(700-702)CAG>CGG	p.Q234R	TAB3_uc004dck.2_Missense_Mutation_p.Q234R|TAB3_uc010ngl.2_Missense_Mutation_p.Q234R	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	234	Pro-rich.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|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|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						CTGAGATGTCTGTCTAATATA	0.478													32	27	---	---	---	---	PASS	C	30873081	C	C	30873081	3	2	121	1	0	0	0	0	1	0	0	0	15494	1580	55	5	1461	5	TAB3	23	30873081	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	19190546	30873081	124397479	205	44915										
FAM47A	158724	broad.mit.edu	37	chrX	34150182	34150182	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gagtaaaaactcgtcacggcGacaaacgagagtatcttcgg	11	9	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:34150182G>A	uc004ddg.2	-	1	247	c.214C>T	c.(214-216)CGC>TGC	p.R72C		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	72								p.R72H(1)		ovary(4)|central_nervous_system(1)	5						TCGTCACGGCGACAAACGAGA	0.537													40	141	---	---	---	---	PASS	A	34150182	A	A	34150182	3	1	121	1	0	0	0	0	1	0	0	0	5569	1058	37	2	2165	2	FAM47A	23	34150182	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	3277101	34150182	121120378	206	44916										
PHF16	9767	broad.mit.edu	37	chrX	46893118	46893118	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tgtgtgttatgtccaaagaaAggtggagccctgaagaccac	12	8	0	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:46893118A>T	uc004dgx.2	+	7	834	c.783A>T	c.(781-783)AAA>AAT	p.K261N	PHF16_uc004dgy.2_Missense_Mutation_p.K261N	NM_001077445	NP_001070913	Q92613	JADE3_HUMAN	PHD finger protein 16	261					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0						GTCCAAAGAAAGGTGGAGCCC	0.552													10	29	---	---	---	---	PASS	T	46893118	T	T	46893118	3	4	121	1	0	0	0	0	1	0	0	0	11827	69	3	5	805	5	PHF16	23	46893118	Missense_Mutation	SNP	A	TCGA-60-2708-01A-01D-1522-08	12742936	46893118	108377442	207	44917										
PHF16	9767	broad.mit.edu	37	chrX	46917581	46917581	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tatctcagggcttcctttgaCaaatgcacttgaaaactcac	6	11	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:46917581C>A	uc004dgx.2	+	11	1625	c.1574C>A	c.(1573-1575)ACA>AAA	p.T525K	PHF16_uc004dgy.2_Missense_Mutation_p.T525K	NM_001077445	NP_001070913	Q92613	JADE3_HUMAN	PHD finger protein 16	525					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0						CTTCCTTTGACAAATGCACTT	0.388													25	160	---	---	---	---	PASS	A	46917581	A	A	46917581	3	1	121	1	0	0	0	0	1	0	0	0	11827	478	17	3	1612	3	PHF16	23	46917581	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	24463	46917581	108352979	208	44918										
ZNF41	7592	broad.mit.edu	37	chrX	47308234	47308234	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ttggatgtacatcaacctggGgtttctgggggaagactttg	14	6	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:47308234G>A	uc004dhs.3	-	4	1128	c.1061C>T	c.(1060-1062)CCC>CTC	p.P354L	ZNF41_uc004dhu.3_Missense_Mutation_p.P346L|ZNF41_uc004dht.3_Missense_Mutation_p.P226L|ZNF41_uc004dhv.3_Missense_Mutation_p.P322L|ZNF41_uc004dhw.3_Missense_Mutation_p.P314L|ZNF41_uc004dhy.3_Missense_Mutation_p.P312L|ZNF41_uc004dhx.3_Missense_Mutation_p.P312L|ZNF41_uc011mlm.1_Missense_Mutation_p.P226L	NM_153380	NP_700359	P51814	ZNF41_HUMAN	zinc finger protein 41	354	C2H2-type 2; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3		all_lung(315;0.000129)				ATCAACCTGGGGTTTCTGGGG	0.423													68	239	---	---	---	---	PASS	A	47308234	A	A	47308234	3	1	121	1	0	0	0	0	1	0	0	0	17886	1232	43	3	1408	3	ZNF41	23	47308234	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	390653	47308234	107962326	209	44919										
SLC35A2	7355	broad.mit.edu	37	chrX	48767184	48767184	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggcaaagaagcggtcccctgGcaacgtgcgggcgtagcgga	17	11	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:48767184G>T	uc004dlo.1	-	2	185	c.181C>A	c.(181-183)CCA>ACA	p.P61T	SLC35A2_uc011mml.1_Missense_Mutation_p.P74T|SLC35A2_uc004dlp.1_Missense_Mutation_p.P61T|SLC35A2_uc011mmm.1_Missense_Mutation_p.P89T|SLC35A2_uc011mmn.1_Intron|SLC35A2_uc004dlr.1_5'UTR|SLC35A2_uc004dlq.2_Missense_Mutation_p.P61T|SLC35A2_uc011mmo.1_Missense_Mutation_p.P74T	NM_005660	NP_005651	P78381	S35A2_HUMAN	solute carrier family 35, member A2 isoform a	61					galactose metabolic process	Golgi membrane|integral to membrane|nucleus	sugar:hydrogen symporter activity|UDP-galactose transmembrane transporter activity			breast(1)	1						CGGTCCCCTGGCAACGTGCGG	0.597													5	19	---	---	---	---	PASS	T	48767184	T	T	48767184	3	4	121	1	0	0	0	0	1	0	0	0	14571	1203	42	3	1181	3	SLC35A2	23	48767184	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	1458950	48767184	106503376	210	44920										
WDR45	11152	broad.mit.edu	37	chrX	48933067	48933067	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tccttgagagcaaagatatgGacagtacccttatcactgga	9	9	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:48933067G>T	uc004dmk.1	-	9	955	c.783C>A	c.(781-783)GTC>GTA	p.V261V	PRAF2_uc004dmh.2_5'Flank|PRAF2_uc004dmi.2_5'Flank|PRAF2_uc011mmt.1_Silent_p.V159V|WDR45_uc004dmj.1_Silent_p.V222V|WDR45_uc004dml.1_Silent_p.V262V|WDR45_uc004dmm.1_Silent_p.V226V|WDR45_uc010nim.1_Intron|WDR45_uc004dmn.1_Silent_p.V152V|WDR45_uc004dmo.1_Silent_p.V284V|WDR45_uc004dmp.1_Silent_p.V262V	NM_001029896	NP_001025067	Q9Y484	WIPI4_HUMAN	WD repeat domain 45 isoform 2	261	WD 3.				autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1						CAAAGATATGGACAGTACCCT	0.552													6	19	---	---	---	---	PASS	T	48933067	T	T	48933067	2	4	121	1	0	0	0	0	0	0	0	1	17294	1161	41	2		2	WDR45	23	48933067	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	165883	48933067	106337493	211	44921										
IQSEC2	23096	broad.mit.edu	37	chrX	53284070	53284070	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggatggtcctggcagccctgCggctcaggaaggagccccca	15	14	1	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:53284070C>T	uc004dsd.2	-	4	1244	c.1043G>A	c.(1042-1044)CGC>CAC	p.R348H	IQSEC2_uc004dsc.2_Missense_Mutation_p.R143H	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	338	IQ.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						GGCAGCCCTGCGGCTCAGGAA	0.602													5	22	---	---	---	---	PASS	T	53284070	T	T	53284070	3	4	121	1	0	0	0	0	1	0	0	0	7818	768	27	1	3471	1	IQSEC2	23	53284070	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	4351003	53284070	101986490	212	44922										
ZXDA	7789	broad.mit.edu	37	chrX	57936554	57936554	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ctgaccggagcccgcggtctCcacgtcgccacccaccgggt	12	19	1	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:57936554C>A	uc004dve.2	-	1	514	c.301G>T	c.(301-303)GAG>TAG	p.E101*		NM_007156	NP_009087	P98168	ZXDA_HUMAN	zinc finger, X-linked, duplicated A	101					positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						CCCGCGGTCTCCACGTCGCCA	0.746													4	21	---	---	---	---	PASS	A	57936554	A	A	57936554	4	1	121	1	0	0	0	0	0	1	0	0	18247	864	30	2	2102	2	ZXDA	23	57936554	Nonsense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	4652484	57936554	97334006	213	44923										
VSIG4	11326	broad.mit.edu	37	chrX	65242194	65242194	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtagttgccattgatctgggCgatgatctggtactcctgtc	12	9	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:65242194C>T	uc004dwh.2	-	8	1238	c.1111G>A	c.(1111-1113)GCC>ACC	p.A371T	VSIG4_uc004dwi.2_Missense_Mutation_p.A277T|VSIG4_uc010nkq.1_3'UTR|VSIG4_uc004dwj.2_3'UTR|VSIG4_uc011moy.1_3'UTR|VSIG4_uc004dwk.2_3'UTR|VSIG4_uc004dwl.2_Intron	NM_007268	NP_009199	Q9Y279	VSIG4_HUMAN	V-set and immunoglobulin domain containing 4	371	Cytoplasmic (Potential).				complement activation, alternative pathway	integral to membrane	protein binding				0						TTGATCTGGGCGATGATCTGG	0.517													25	83	---	---	---	---	PASS	T	65242194	T	T	65242194	3	4	121	1	0	0	0	0	1	0	0	0	17222	768	27	1	92	1	VSIG4	23	65242194	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	7305640	65242194	90028366	214	44924										
OPHN1	4983	broad.mit.edu	37	chrX	67454367	67454367	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tttcttttttgaagacaggtGtaagtgccgatccagtaaag	10	6	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:67454367G>T	uc004dww.3	-	6	742	c.448C>A	c.(448-450)CAC>AAC	p.H150N	OPHN1_uc011mpg.1_Missense_Mutation_p.H150N|OPHN1_uc004dwx.2_Missense_Mutation_p.H150N	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	150					axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						GAAGACAGGTGTAAGTGCCGA	0.408													34	129	---	---	---	---	PASS	T	67454367	T	T	67454367	3	4	121	1	0	0	0	0	1	0	0	0	10875	1377	48	3	2036	3	OPHN1	23	67454367	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	2212173	67454367	87816193	215	44925										
IGBP1	3476	broad.mit.edu	37	chrX	69354654	69354654	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tatggcatctcaaagacaggCtaaaatacagaggtgggtca	11	7	2	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:69354654C>A	uc004dxv.2	+	2	969	c.470C>A	c.(469-471)GCT>GAT	p.A157D	IGBP1_uc004dxw.2_Missense_Mutation_p.A157D	NM_001551	NP_001542	P78318	IGBP1_HUMAN	immunoglobulin binding protein 1	157					B cell activation|negative regulation of caspase activity|negative regulation of stress-activated MAPK cascade|negative regulation of transcription from RNA polymerase II promoter|regulation of microtubule-based movement|response to interleukin-1|response to tumor necrosis factor|signal transduction	cytoplasm	protein phosphatase type 2A regulator activity			kidney(1)|pancreas(1)	2						CAAAGACAGGCTAAAATACAG	0.498													11	105	---	---	---	---	PASS	A	69354654	A	A	69354654	3	1	121	1	0	0	0	0	1	0	0	0	7567	797	28	3	476	3	IGBP1	23	69354654	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	1900287	69354654	85915906	216	44926										
NLGN3	54413	broad.mit.edu	37	chrX	70389551	70389551	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	accatcgccgtgggggcctcCctcctgttccttaacgttct	9	16	1	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:70389551C>T	uc004dzb.2	+	7	2395	c.2091C>T	c.(2089-2091)TCC>TCT	p.S697S	NLGN3_uc004dzc.2_Silent_p.S580S|NLGN3_uc011mps.1_Silent_p.S677S|NLGN3_uc004dze.2_Silent_p.S515S	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	717	Helical; (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					TGGGGGCCTCCCTCCTGTTCC	0.637													29	34	---	---	---	---	PASS	T	70389551	T	T	70389551	2	4	121	1	0	0	0	0	0	0	0	1	10463	610	22	3		3	NLGN3	23	70389551	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	1034897	70389551	84881009	217	44927										
PHKA1	5255	broad.mit.edu	37	chrX	71872438	71872438	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gtatagagactgaccccacaTgtgaggcaatttccccatgg	10	11	0	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:71872438T>A	uc004eax.3	-	12	1502	c.1201A>T	c.(1201-1203)ATG>TTG	p.M401L	PHKA1_uc004eay.3_Missense_Mutation_p.M401L|PHKA1_uc011mqi.1_Missense_Mutation_p.M401L	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	401					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					TGACCCCACATGTGAGGCAAT	0.433													28	42	---	---	---	---	PASS	A	71872438	A	A	71872438	3	1	121	1	0	0	0	0	1	0	0	0	11843	1464	51	5	2554	5	PHKA1	23	71872438	Missense_Mutation	SNP	T	TCGA-60-2708-01A-01D-1522-08	1482887	71872438	83398122	218	44928										
CDX4	1046	broad.mit.edu	37	chrX	72674404	72674404	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aacctattgagatacagcagGttatagtctccgaatgaaag	9	7	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:72674404G>A	uc011mqk.1	+	3	838	c.838G>A	c.(838-840)GTT>ATT	p.V280I		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	280						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(35;0.156)					GATACAGCAGGTTATAGTCTC	0.428													16	55	---	---	---	---	PASS	A	72674404	A	A	72674404	3	1	121	1	0	0	0	0	1	0	0	0	3184	1261	44	3	848	3	CDX4	23	72674404	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	801966	72674404	82596156	219	44929										
CYLC1	1538	broad.mit.edu	37	chrX	83128919	83128919	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gacaagaaaaaggatgcaaaGaaaattacattctctactga	7	6	1	3			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:83128919G>C	uc004eei.1	+	4	1224	c.1203G>C	c.(1201-1203)AAG>AAC	p.K401N	CYLC1_uc004eeh.1_Missense_Mutation_p.K400N	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	401	4.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						AGGATGCAAAGAAAATTACAT	0.318													6	31	---	---	---	---	PASS	C	83128919	C	C	83128919	3	2	121	1	0	0	0	0	1	0	0	0	4141	933	33	2	1217	2	CYLC1	23	83128919	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	10454515	83128919	72141641	220	44930										
HDX	139324	broad.mit.edu	37	chrX	83724375	83724375	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tatgtttgtttgttccttgcCtacttgatgaactggctgga	10	7	0	2	rs141784700	byFrequency	TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:83724375C>T	uc004eek.1	-	3	465	c.356G>A	c.(355-357)AGG>AAG	p.R119K	HDX_uc011mqv.1_Missense_Mutation_p.R119K|HDX_uc004eel.1_Missense_Mutation_p.R61K	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	119						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						TGTTCCTTGCCTACTTGATGA	0.388													118	192	---	---	---	---	PASS	T	83724375	T	T	83724375	3	4	121	1	0	0	0	0	1	0	0	0	7026	681	24	3	1748	3	HDX	23	83724375	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	595456	83724375	71546185	221	44931										
PCDH19	57526	broad.mit.edu	37	chrX	99551818	99551818	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ttccggggcatccagcacctGtcagagtggccaagaatccg	12	13	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:99551818G>T	uc010nmz.2	-	6	4580	c.2904C>A	c.(2902-2904)GAC>GAA	p.D968E	PCDH19_uc004efw.3_Missense_Mutation_p.D920E|PCDH19_uc004efx.3_Missense_Mutation_p.D921E	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	968	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						TCCAGCACCTGTCAGAGTGGC	0.493													43	144	---	---	---	---	PASS	T	99551818	T	T	99551818	3	4	121	1	0	0	0	0	1	0	0	0	11514	1368	48	3	546	3	PCDH19	23	99551818	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	15827443	99551818	55718742	222	44932										
HNRNPH2	3188	broad.mit.edu	37	chrX	100668298	100668298	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ccaagttctgcaggaaaactCcagtgactatcagtcaaacc	7	12	3	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:100668298C>A	uc004ehm.2	+	2	1492	c.1322C>A	c.(1321-1323)TCC>TAC	p.S441Y	HNRNPH2_uc004ehn.2_Missense_Mutation_p.S441Y	NM_019597	NP_062543	P55795	HNRH2_HUMAN	heterogeneous nuclear ribonucleoprotein H2	441					nuclear mRNA splicing, via spliceosome	actin cytoskeleton|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						CAGGAAAACTCCAGTGACTAT	0.453													93	374	---	---	---	---	PASS	A	100668298	A	A	100668298	3	1	121	1	0	0	0	0	1	0	0	0	7267	855	30	2	1324	2	HNRNPH2	23	100668298	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	1116480	100668298	54602262	223	44933										
ARMCX2	9823	broad.mit.edu	37	chrX	100911569	100911569	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ctccccttcctcagaatcagGgacctctgccaggaaagcct	8	16	3	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:100911569G>T	uc004eid.2	-	3	1361	c.1006C>A	c.(1006-1008)CCT>ACT	p.P336T	ARMCX2_uc004eie.3_Missense_Mutation_p.P336T|ARMCX2_uc004eif.3_Missense_Mutation_p.P336T|ARMCX2_uc004eig.3_Missense_Mutation_p.P336T|ARMCX2_uc010nnt.2_Missense_Mutation_p.P336T	NM_177949	NP_808818	Q7L311	ARMX2_HUMAN	ALEX2 protein	336						integral to membrane	binding			ovary(6)	6						TCAGAATCAGGGACCTCTGCC	0.607													23	111	---	---	---	---	PASS	T	100911569	T	T	100911569	3	4	121	1	0	0	0	0	1	0	0	0	960	1232	43	3	896	3	ARMCX2	23	100911569	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	243271	100911569	54358991	224	44934										
NRK	203447	broad.mit.edu	37	chrX	105152981	105152981	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ctcgggtgttcatgccactaCaggctcaggtgaaggctaaa	12	10	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:105152981C>A	uc004emd.2	+	13	1651	c.1348C>A	c.(1348-1350)CAG>AAG	p.Q450K	NRK_uc010npc.1_Missense_Mutation_p.Q118K	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	450	Gln-rich.						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						CATGCCACTACAGGCTCAGGT	0.572										HNSCC(51;0.14)			11	44	---	---	---	---	PASS	A	105152981	A	A	105152981	3	1	121	1	0	0	0	0	1	0	0	0	10655	479	17	3	1398	3	NRK	23	105152981	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	4241412	105152981	50117579	225	44935										
UTP14A	10813	broad.mit.edu	37	chrX	129059031	129059031	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gacctgtgttagaagggcagCagtcagagaggaccccaaat	13	9	1	2			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:129059031C>A	uc004euz.2	+	12	1637	c.1609C>A	c.(1609-1611)CAG>AAG	p.Q537K	UTP14A_uc011mup.1_Missense_Mutation_p.Q485K|UTP14A_uc011muq.1_Missense_Mutation_p.Q483K	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	537					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						AGAAGGGCAGCAGTCAGAGAG	0.478													44	208	---	---	---	---	PASS	A	129059031	A	A	129059031	3	1	121	1	0	0	0	0	1	0	0	0	17092	711	25	3	1655	3	UTP14A	23	129059031	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	23906050	129059031	26211529	226	44936										
TFDP3	51270	broad.mit.edu	37	chrX	132351916	132351916	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	tggcaggaagtggtccctttCctctgcaccgtctcccagac	10	15	2	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:132351916C>A	uc004exb.1	-	1	461	c.372G>T	c.(370-372)AGG>AGT	p.R124S		NM_016521	NP_057605	Q5H9I0	TFDP3_HUMAN	transcription factor Dp family, member 3	124	Potential.					transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TGGTCCCTTTCCTCTGCACCG	0.587													35	124	---	---	---	---	PASS	A	132351916	A	A	132351916	3	1	121	1	0	0	0	0	1	0	0	0	15796	854	30	2	849	2	TFDP3	23	132351916	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	3292885	132351916	22918644	227	44937										
GPR112	139378	broad.mit.edu	37	chrX	135405392	135405392	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gcgaggttaaaagcatgatgCgtagctttcctggcagcttg	13	8	0	1			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:135405392C>A	uc004ezu.1	+	5	817	c.526C>A	c.(526-528)CGT>AGT	p.R176S	GPR112_uc010nsb.1_Intron	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	176	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					AAGCATGATGCGTAGCTTTCC	0.448													118	185	---	---	---	---	PASS	A	135405392	A	A	135405392	3	1	121	1	0	0	0	0	1	0	0	0	6629	768	27	1	532	1	GPR112	23	135405392	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	3053476	135405392	19865168	228	44938										
LDOC1	23641	broad.mit.edu	37	chrX	140271150	140271150	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agctggctgttctcgatgctCagggcgcggtgccgcatcag	15	12	3	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:140271150C>G	uc004fbj.2	-	1	161	c.57G>C	c.(55-57)CTG>CTC	p.L19L		NM_012317	NP_036449	O95751	LDOC1_HUMAN	leucine zipper, down-regulated in cancer 1	19					negative regulation of cell proliferation	nucleus	protein binding				0	Acute lymphoblastic leukemia(192;7.65e-05)					TCTCGATGCTCAGGGCGCGGT	0.677													4	35	---	---	---	---	PASS	G	140271150	G	G	140271150	2	3	121	1	0	0	0	0	0	0	0	1	8709	813	29	2		2	LDOC1	23	140271150	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	4865758	140271150	14999410	229	44939										
MAGEA11	4110	broad.mit.edu	37	chrX	148797511	148797511	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	aagaagtcagcactgcaagcCtgaggaaggccttcaggccc	12	12	2	2	rs141055931		TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:148797511C>T	uc004fdq.2	+	5	467	c.365C>T	c.(364-366)CCT>CTT	p.P122L	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Missense_Mutation_p.P93L	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	122						cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CACTGCAAGCCTGAGGAAGGC	0.577													13	125	---	---	---	---	PASS	T	148797511	T	T	148797511	3	4	121	1	0	0	0	0	1	0	0	0	9165	681	24	3	392	3	MAGEA11	23	148797511	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	8526361	148797511	6473049	230	44940										
MAGEA3	4102	broad.mit.edu	37	chrX	151935780	151935780	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	agcatttctgcctttgtgacCggctccctggctcgatactt	9	13	1	1	rs150153047		TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:151935780C>T	uc004fgp.2	-	3	596	c.387G>A	c.(385-387)CCG>CCA	p.P129P		NM_005362	NP_005353	P43357	MAGA3_HUMAN	melanoma antigen family A, 3	129	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					CCTTTGTGACCGGCTCCCTGG	0.527													96	167	---	---	---	---	PASS	T	151935780	T	T	151935780	2	4	121	1	0	0	0	0	0	0	0	1	9167	639	23	1		1	MAGEA3	23	151935780	Silent	SNP	C	TCGA-60-2708-01A-01D-1522-08	3138269	151935780	3334780	231	44941										
FLNA	2316	broad.mit.edu	37	chrX	153594739	153594739	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	gccactgggctccaggccggGaccttgggctgtcactttgc	14	14	1	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:153594739G>T	uc004fkk.2	-	8	1414	c.1165C>A	c.(1165-1167)CCC>ACC	p.P389T	FLNA_uc010nuu.1_Missense_Mutation_p.P389T	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	389	Filamin 2.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TCCAGGCCGGGACCTTGGGCT	0.597													18	98	---	---	---	---	PASS	T	153594739	T	T	153594739	3	4	121	1	0	0	0	0	1	0	0	0	5933	1174	41	2	6942	2	FLNA	23	153594739	Missense_Mutation	SNP	G	TCGA-60-2708-01A-01D-1522-08	1658959	153594739	1675821	232	44942										
PLXNA3	55558	broad.mit.edu	37	chrX	153692007	153692007	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ctgggctccggggacccgcaCtgtggttggtgtgtgctgcg	18	11	0	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:153692007C>G	uc004flm.2	+	6	1694	c.1521C>G	c.(1519-1521)CAC>CAG	p.H507Q		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	507	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGGACCCGCACTGTGGTTGGT	0.706													6	15	---	---	---	---	PASS	G	153692007	G	G	153692007	3	3	121	1	0	0	0	0	1	0	0	0	12121	564	20	4	1539	4	PLXNA3	23	153692007	Missense_Mutation	SNP	C	TCGA-60-2708-01A-01D-1522-08	97268	153692007	1578553	233	44943										
CTAG2	30848	broad.mit.edu	37	chrX	153880851	153880851	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	29	0.000892682395108299	1.93470460614152	3.17558411214953	1.24532710280374	0.321257069400288	0.746332413021294	14	ggtgcggcatcccgggacagGatcctgcggaccagctccgc	15	15	0	0			TCGA-60-2708-01A-01D-1522-08	TCGA-60-2708-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a371189b-5808-4408-824e-8dacec925cc5	8932f808-9727-47e3-b7d5-d19f0e577fe9	g.chrX:153880851G>A	uc004fmi.1	-	2	377	c.324C>T	c.(322-324)ATC>ATT	p.I108I	CTAG2_uc004fmh.1_Silent_p.I108I	NM_020994	NP_066274	O75638	CTAG2_HUMAN	cancer/testis antigen 2 isoform LAGE-1b	108						centrosome				pancreas(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCCGGGACAGGATCCTGCGGA	0.612													25	104	---	---	---	---	PASS	A	153880851	A	A	153880851	2	1	121	1	0	0	0	0	0	0	0	1	3991	1164	41	2		2	CTAG2	23	153880851	Silent	SNP	G	TCGA-60-2708-01A-01D-1522-08	188844	153880851	1389709	234	44944										
DEPDC1	55635	broad.mit.edu	37	chr1	68948029	68948029	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttggtcttgaacagtcaaagTagaggttctcttaaaaccag	9	7	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:68948029T>C	uc001dem.3	-	8	1579	c.1462A>G	c.(1462-1464)ACT>GCT	p.T488A	DEPDC1_uc001dej.3_5'Flank|DEPDC1_uc001dek.3_Intron|DEPDC1_uc001del.3_Intron	NM_001114120	NP_001107592	Q5TB30	DEP1A_HUMAN	DEP domain containing 1 isoform a	488					intracellular signal transduction|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	GTPase activator activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(397;7.21e-36)		ACAGTCAAAGTAGAGGTTCTC	0.378													16	43	---	---	---	---	PASS	C	68948029	C	C	68948029	3	2	122	1	0	0	0	0	1	0	0	0	4439	1638	57	5	993	5	DEPDC1	1	68948029	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08		68948029	180302592	1	44945										
C1orf173	127254	broad.mit.edu	37	chr1	75107143	75107143	+	Nonsense_Mutation	SNP	C	A	A													0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	agaccttcttgtgtgctctcCctagaataagaaagcaattt							TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:75107143C>A	uc001dgg.2	-	5	535	c.316G>T	c.(316-318)GGA>TGA	p.G106*		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	106										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						GTGTGCTCTCCCTAGAATAAG	0.393													5	49	---	---	---	---	PASS	A	75107143	A	A	75107143	4	1	122	1	0	0	0	0	0	1	0	0	2014	637	22	3	4316	3	C1orf173	1	75107143	Nonsense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	6159114	75107143	174143478	2	44946	833	2								
C1orf173	127254	broad.mit.edu	37	chr1	75107144	75107144	+	Splice_Site	SNP	C	G	G													0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gaccttcttgtgtgctctccCtagaataagaaagcaattta							TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:75107144C>G	uc001dgg.2	-	5	535	c.316_splice	c.e5-1	p.G106_splice		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254											ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TGTGCTCTCCCTAGAATAAGA	0.393													5	49	---	---	---	---	PASS	G	75107144	G	G	75107144	5	3	122	1	0	0	0	0	0	0	1	0	2014	695	24	4	4317	4	C1orf173	1	75107144	Splice_Site	SNP	C	TCGA-60-2709-01A-21D-1817-08	1	75107144	174143477	3	44947	833	2								
FAM73A	374986	broad.mit.edu	37	chr1	78324687	78324687	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cctttgtcactgcccattttAcgaggaagccatgcatttag	8	11	1	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:78324687A>G	uc001dhx.2	+	9	1093	c.1061A>G	c.(1060-1062)TAC>TGC	p.Y354C	FAM73A_uc010ork.1_Missense_Mutation_p.Y354C|FAM73A_uc010orl.1_Missense_Mutation_p.Y316C|FAM73A_uc001dhy.1_Missense_Mutation_p.Y143C	NM_198549	NP_940951	Q8NAN2	FA73A_HUMAN	hypothetical protein LOC374986	354						integral to membrane				ovary(1)	1				Colorectal(170;0.226)		TGCCCATTTTACGAGGAAGCC	0.403													5	79	---	---	---	---	PASS	G	78324687	G	G	78324687	3	3	122	1	0	0	0	0	1	0	0	0	5617	391	14	5	1095	5	FAM73A	1	78324687	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	3217543	78324687	170925934	4	44948										
ATP8B2	57198	broad.mit.edu	37	chr1	154316660	154316660	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gaggacaaacttcagcaaggGgttccagagaccattgccct	11	11	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:154316660G>T	uc001fex.2	+	19	2064	c.2064G>T	c.(2062-2064)GGG>GGT	p.G688G		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	674	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TTCAGCAAGGGGTTCCAGAGA	0.557													7	66	---	---	---	---	PASS	T	154316660	T	T	154316660	2	4	122	1	0	0	0	0	0	0	0	1	1195	1219	43	3		3	ATP8B2	1	154316660	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	75991973	154316660	94933961	5	44949										
DCST1	149095	broad.mit.edu	37	chr1	155014074	155014074	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	agatgtatgagctgaagaccAagctgcgttgctcctgtgag	13	8	0	5			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:155014074A>C	uc001fgn.1	+	7	829	c.733A>C	c.(733-735)AAG>CAG	p.K245Q	DCST1_uc010per.1_Missense_Mutation_p.K270Q|DCST1_uc010pes.1_Missense_Mutation_p.K220Q	NM_152494	NP_689707	Q5T197	DCST1_HUMAN	DC-STAMP domain containing 1 isoform 1	245	Extracellular (Potential).					integral to membrane	zinc ion binding			ovary(1)|skin(1)	2	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			GCTGAAGACCAAGCTGCGTTG	0.612													17	71	---	---	---	---	PASS	C	155014074	C	C	155014074	3	2	122	1	0	0	0	0	1	0	0	0	4302	131	5	5	755	5	DCST1	1	155014074	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	697414	155014074	94236547	6	44950										
DARC	2532	broad.mit.edu	37	chr1	159175347	159175347	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atgattccttcccagatggaGactatggtgccaacctggaa	10	10	0	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:159175347G>C	uc001fto.2	+	2	358	c.118G>C	c.(118-120)GAC>CAC	p.D40H	DARC_uc001ftp.3_Missense_Mutation_p.D42H	NM_002036	NP_002027	Q16570	DUFFY_HUMAN	Duffy blood group antigen isoform b	40	Extracellular (Potential).				defense response	integral to membrane|plasma membrane	C-C chemokine binding|chemokine receptor activity			ovary(1)|lung(1)	2	all_hematologic(112;0.0429)					CCCAGATGGAGACTATGGTGC	0.537													8	89	---	---	---	---	PASS	C	159175347	C	C	159175347	3	2	122	1	0	0	0	0	1	0	0	0	4240	942	33	2	151	2	DARC	1	159175347	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	4161273	159175347	90075274	7	44951										
SLAMF8	56833	broad.mit.edu	37	chr1	159799706	159799706	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aagtgctgagcaaagtcgggGgctcggtgctgctggtggca	18	8	0	1	rs138614766		TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:159799706G>A	uc001fue.3	+	2	301	c.91G>A	c.(91-93)GGC>AGC	p.G31S		NM_020125	NP_064510	Q9P0V8	SLAF8_HUMAN	SLAM family member 8 precursor	31	Extracellular (Potential).					integral to membrane					0	all_hematologic(112;0.0597)					CAAAGTCGGGGGCTCGGTGCT	0.597													9	229	---	---	---	---	PASS	A	159799706	A	A	159799706	3	1	122	1	0	0	0	0	1	0	0	0	14370	1232	43	3	97	3	SLAMF8	1	159799706	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	624359	159799706	89450915	8	44952										
F5	2153	broad.mit.edu	37	chr1	169489877	169489877	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	actgattctcttttattgtaGaggcatctgaattgccatta	7	7	2	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:169489877G>T	uc001ggg.1	-	22	6219	c.6074C>A	c.(6073-6075)TCT>TAT	p.S2025Y		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	2025	F5/8 type C 1.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TTTTATTGTAGAGGCATCTGA	0.333													8	58	---	---	---	---	PASS	T	169489877	T	T	169489877	3	4	122	1	0	0	0	0	1	0	0	0	5348	942	33	2	616	2	F5	1	169489877	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	9690171	169489877	79760744	9	44953										
F5	2153	broad.mit.edu	37	chr1	169511269	169511269	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgagaaactggcttttcttcAgtctactctttcctccatcc	5	13	4	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:169511269A>G	uc001ggg.1	-	13	3204	c.3059T>C	c.(3058-3060)CTG>CCG	p.L1020P		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1020	B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	GCTTTTCTTCAGTCTACTCTT	0.433													45	260	---	---	---	---	PASS	G	169511269	G	G	169511269	3	3	122	1	0	0	0	0	1	0	0	0	5348	188	7	5	3667	5	F5	1	169511269	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	21392	169511269	79739352	10	44954										
SERPINC1	462	broad.mit.edu	37	chr1	173880956	173880956	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ccttgaagtccaggggctggAgcttggctccatataccaac	11	12	0	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:173880956A>G	uc001gjt.2	-	3	724	c.605T>C	c.(604-606)CTC>CCC	p.L202P		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	202					blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	CAGGGGCTGGAGCTTGGCTCC	0.493													32	117	---	---	---	---	PASS	G	173880956	G	G	173880956	3	3	122	1	0	0	0	0	1	0	0	0	14109	304	11	5	809	5	SERPINC1	1	173880956	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	4369687	173880956	75369665	11	44955										
SERPINC1	462	broad.mit.edu	37	chr1	173880990	173880990	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	taccaactcactgatgtcctGgtaggtctcattgaaggtaa	9	9	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:173880990G>C	uc001gjt.2	-	3	690	c.571C>G	c.(571-573)CAG>GAG	p.Q191E		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	191					blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	CTGATGTCCTGGTAGGTCTCA	0.488													34	125	---	---	---	---	PASS	C	173880990	C	C	173880990	3	2	122	1	0	0	0	0	1	0	0	0	14109	1357	47	4	843	4	SERPINC1	1	173880990	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	34	173880990	75369631	12	44956										
RC3H1	149041	broad.mit.edu	37	chr1	173962058	173962058	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atgggctttcgaattgtttcGtcgaaagtctgagtgcaaat	11	6	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:173962058G>A	uc001gju.3	-	1	153	c.66C>T	c.(64-66)GAC>GAT	p.D22D	RC3H1_uc010pms.1_Silent_p.D22D|RC3H1_uc001gjv.2_Silent_p.D22D|RC3H1_uc010pmt.1_Silent_p.D22D	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	22	RING-type; degenerate.				cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GAATTGTTTCGTCGAAAGTCT	0.478													4	111	---	---	---	---	PASS	A	173962058	A	A	173962058	2	1	122	1	0	0	0	0	0	0	0	1	13166	1136	40	1		1	RC3H1	1	173962058	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	81068	173962058	75288563	13	44957										
C1orf125	126859	broad.mit.edu	37	chr1	179460734	179460734	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cttgctgattttaatgatacCcaactttactgaccaagact	5	10	0	4			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:179460734C>T	uc001gmo.2	+	19	2280	c.2153C>T	c.(2152-2154)CCC>CTC	p.P718L	C1orf125_uc009wxg.2_RNA|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.P718L|C1orf125_uc009wxh.2_RNA	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	718											0						TTAATGATACCCAACTTTACT	0.378													7	92	---	---	---	---	PASS	T	179460734	T	T	179460734	3	4	122	1	0	0	0	0	1	0	0	0	1993	623	22	3	2223	3	C1orf125	1	179460734	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	5498676	179460734	69789887	14	44958										
F13B	2165	broad.mit.edu	37	chr1	197026480	197026480	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atttctgctgacccatggatCtcaaaattaagttcacattc	5	10	3	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:197026480C>T	uc001gtt.1	-	6	965	c.921G>A	c.(919-921)GAG>GAA	p.E307E		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	307	Sushi 5.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						ACCCATGGATCTCAAAATTAA	0.378													21	126	---	---	---	---	PASS	T	197026480	T	T	197026480	2	4	122	1	0	0	0	0	0	0	0	1	5341	912	32	2		2	F13B	1	197026480	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	17565746	197026480	52224141	15	44959										
SYT2	127833	broad.mit.edu	37	chr1	202572227	202572227	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cttccccctcagtcaggcctGtctctgcgtcgtcgtcatcc	8	18	4	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:202572227G>A	uc001gye.2	-	4	558	c.365C>T	c.(364-366)ACA>ATA	p.T122I	SYT2_uc010pqb.1_Missense_Mutation_p.T122I|SYT2_uc009xaf.2_5'UTR	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	122	Cytoplasmic (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	AGTCAGGCCTGTCTCTGCGTC	0.552													4	129	---	---	---	---	PASS	A	202572227	A	A	202572227	3	1	122	1	0	0	0	0	1	0	0	0	15471	1377	48	3	918	3	SYT2	1	202572227	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	5545747	202572227	46678394	16	44960										
PLXNA2	5362	broad.mit.edu	37	chr1	208390594	208390594	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgtctgaagggatcttgatgAgagaggagacaaaatcgctg	14	5	2	5			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:208390594A>G	uc001hgz.2	-	2	1432	c.674T>C	c.(673-675)CTC>CCC	p.L225P	PLXNA2_uc001hha.3_Missense_Mutation_p.L279P	NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	225	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GATCTTGATGAGAGAGGAGAC	0.542													16	301	---	---	---	---	PASS	G	208390594	G	G	208390594	3	3	122	1	0	0	0	0	1	0	0	0	12120	304	11	5	5134	5	PLXNA2	1	208390594	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	5818367	208390594	40860027	17	44961										
INTS7	25896	broad.mit.edu	37	chr1	212149931	212149931	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gggtaacacataccattctgGaagcctgtctggcaatacgg	11	10	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:212149931G>T	uc001hiw.1	-	12	1706	c.1601C>A	c.(1600-1602)TCC>TAC	p.S534Y	INTS7_uc009xdb.1_Missense_Mutation_p.S534Y|INTS7_uc001hix.1_Missense_Mutation_p.S410Y|INTS7_uc001hiy.1_Missense_Mutation_p.S534Y|INTS7_uc010pta.1_Missense_Mutation_p.S485Y	NM_015434	NP_056249	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	534					snRNA processing	integrator complex	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		TACCATTCTGGAAGCCTGTCT	0.403													5	135	---	---	---	---	PASS	T	212149931	T	T	212149931	3	4	122	1	0	0	0	0	1	0	0	0	7783	1174	41	2	1323	2	INTS7	1	212149931	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	3759337	212149931	37100690	18	44962										
ESRRG	2104	broad.mit.edu	37	chr1	216737588	216737588	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atgcttcgcccatccaatgaTaaccaccaactctcggtcgg	7	15	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:216737588T>C	uc001hkw.1	-	5	1001	c.835A>G	c.(835-837)ATC>GTC	p.I279V	ESRRG_uc001hky.1_Missense_Mutation_p.I256V|ESRRG_uc009xdp.1_Missense_Mutation_p.I256V|ESRRG_uc001hkz.1_Missense_Mutation_p.I217V|ESRRG_uc010puc.1_Missense_Mutation_p.I256V|ESRRG_uc001hla.1_Missense_Mutation_p.I256V|ESRRG_uc001hlb.1_Missense_Mutation_p.I256V|ESRRG_uc010pud.1_Missense_Mutation_p.I87V|ESRRG_uc001hlc.1_Missense_Mutation_p.I256V|ESRRG_uc001hld.1_Missense_Mutation_p.I256V|ESRRG_uc001hkx.1_Missense_Mutation_p.I291V|ESRRG_uc009xdo.1_Missense_Mutation_p.I256V|ESRRG_uc001hle.1_Missense_Mutation_p.I256V	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	279					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	CATCCAATGATAACCACCAAC	0.443													15	58	---	---	---	---	PASS	C	216737588	C	C	216737588	3	2	122	1	0	0	0	0	1	0	0	0	5262	1406	49	5	553	5	ESRRG	1	216737588	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	4587657	216737588	32513033	19	44963										
SIPA1L2	57568	broad.mit.edu	37	chr1	232649736	232649736	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	acggagacacctgcatttgtGcagtgagagctgagtgacga	14	8	0	4			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:232649736G>A	uc001hvg.2	-	1	1508	c.1350C>T	c.(1348-1350)TGC>TGT	p.C450C		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	450					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				CTGCATTTGTGCAGTGAGAGC	0.527													33	224	---	---	---	---	PASS	A	232649736	A	A	232649736	2	1	122	1	0	0	0	0	0	0	0	1	14330	1311	46	3		3	SIPA1L2	1	232649736	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	15912148	232649736	16600885	20	44964										
HEATR1	55127	broad.mit.edu	37	chr1	236736089	236736089	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gggtttagctttatctggtgGctccagttctattcggactt	11	8	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:236736089G>C	uc001hyd.1	-	25	3624	c.3499C>G	c.(3499-3501)CCA>GCA	p.P1167A	HEATR1_uc009xgh.1_Missense_Mutation_p.P329A	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1167					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			TTATCTGGTGGCTCCAGTTCT	0.383													40	346	---	---	---	---	PASS	C	236736089	C	C	236736089	3	2	122	1	0	0	0	0	1	0	0	0	7027	1203	42	4	3019	4	HEATR1	1	236736089	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	4086353	236736089	12514532	21	44965										
ACTN2	88	broad.mit.edu	37	chr1	236889288	236889288	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cagaggaaaactgctccttaTagaaatgtgaacattcagaa	8	7	1	4			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:236889288T>C	uc001hyf.2	+	5	708	c.504T>C	c.(502-504)TAT>TAC	p.Y168Y	ACTN2_uc001hyg.2_5'UTR|ACTN2_uc009xgi.1_Silent_p.Y168Y	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	168	CH 2.|Actin-binding.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			CTGCTCCTTATAGAAATGTGA	0.483													25	179	---	---	---	---	PASS	C	236889288	C	C	236889288	2	2	122	1	0	0	0	0	0	0	0	1	205	1413	49	5		5	ACTN2	1	236889288	Silent	SNP	T	TCGA-60-2709-01A-21D-1817-08	153199	236889288	12361333	22	44966										
KIF26B	55083	broad.mit.edu	37	chr1	245850124	245850124	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cagacgctcttccatcagctCctggctgagcgagatgagcg	12	13	2	4			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:245850124C>G	uc001ibf.1	+	12	4279	c.3839C>G	c.(3838-3840)TCC>TGC	p.S1280C	KIF26B_uc001ibg.1_Missense_Mutation_p.S898C|KIF26B_uc001ibh.1_Missense_Mutation_p.S522C	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1280					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			TCCATCAGCTCCTGGCTGAGC	0.612													4	35	---	---	---	---	PASS	G	245850124	G	G	245850124	3	3	122	1	0	0	0	0	1	0	0	0	8295	855	30	2	3885	2	KIF26B	1	245850124	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	8960836	245850124	3400497	23	44967										
OR11L1	391189	broad.mit.edu	37	chr1	248005145	248005145	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gcctgccattcaagaaggttCtggaatcctaacagctgaaa	9	10	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr1:248005145C>T	uc001idn.1	-	1	54	c.54G>A	c.(52-54)CAG>CAA	p.Q18Q		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CAAGAAGGTTCTGGAATCCTA	0.483													8	61	---	---	---	---	PASS	T	248005145	T	T	248005145	2	4	122	1	0	0	0	0	0	0	0	1	10930	912	32	2		2	OR11L1	1	248005145	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	2155021	248005145	1245476	24	44968										
HEATR5B	54497	broad.mit.edu	37	chr2	37259800	37259800	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctgctctctttgtcccctgtAttttttgccaggctcatggc	8	13	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:37259800A>T	uc002rpp.1	-	22	3429	c.3333T>A	c.(3331-3333)AAT>AAA	p.N1111K		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1111							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				TGTCCCCTGTATTTTTTGCCA	0.388													19	89	---	---	---	---	PASS	T	37259800	T	T	37259800	3	4	122	1	0	0	0	0	1	0	0	0	7032	446	16	5	2942	5	HEATR5B	2	37259800	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08		37259800	205939573	25	44969										
DHX57	90957	broad.mit.edu	37	chr2	39025486	39025486	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	attgtgctgatgatccgggaTcctcgaggacacgtacacag	12	10	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:39025486T>G	uc002rrf.2	-	24	4215	c.4116A>C	c.(4114-4116)GGA>GGC	p.G1372G	DHX57_uc002rrd.3_Silent_p.G711G|DHX57_uc002rre.2_Silent_p.G805G	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	1372							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				TGATCCGGGATCCTCGAGGAC	0.453													6	134	---	---	---	---	PASS	G	39025486	G	G	39025486	2	3	122	1	0	0	0	0	0	0	0	1	4513	1422	50	5		5	DHX57	2	39025486	Silent	SNP	T	TCGA-60-2709-01A-21D-1817-08	1765686	39025486	204173887	26	44970										
CHAC2	494143	broad.mit.edu	37	chr2	54001452	54001452	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tatattggaacatgtgataaTcctgattatcttggtcctgc	8	7	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:54001452T>C	uc002rxk.1	+	3	440	c.345T>C	c.(343-345)AAT>AAC	p.N115N	ASB3_uc002rxg.1_Intron|ASB3_uc002rxh.1_Intron|ASB3_uc002rxi.3_Intron|ASB3_uc010yoo.1_Intron	NM_001008708	NP_001008708	Q8WUX2	CHAC2_HUMAN	ChaC, cation transport regulator-like 2	115											0			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			CATGTGATAATCCTGATTATC	0.368													5	127	---	---	---	---	PASS	C	54001452	C	C	54001452	2	2	122	1	0	0	0	0	0	0	0	1	3309	1432	50	5		5	CHAC2	2	54001452	Silent	SNP	T	TCGA-60-2709-01A-21D-1817-08	14975966	54001452	189197921	27	44971										
LRRTM1	347730	broad.mit.edu	37	chr2	80530036	80530036	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtgatgcttgtcagggacttCcaagagttgaggatccgggg	16	7	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:80530036C>G	uc002sok.1	-	2	1179	c.909G>C	c.(907-909)TGG>TGC	p.W303C	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	303	Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						TCAGGGACTTCCAAGAGTTGA	0.627										HNSCC(69;0.2)			12	46	---	---	---	---	PASS	G	80530036	G	G	80530036	3	3	122	1	0	0	0	0	1	0	0	0	9039	856	30	2	663	2	LRRTM1	2	80530036	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	26528584	80530036	162669337	28	44972										
CTNNA2	1496	broad.mit.edu	37	chr2	80874960	80874960	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gaaacacatttcgcctgtacAggctttaagtgaattcaaag	8	8	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:80874960A>T	uc010ysh.1	+	18	2830	c.2825A>T	c.(2824-2826)CAG>CTG	p.Q942L	CTNNA2_uc010yse.1_Missense_Mutation_p.Q894L|CTNNA2_uc010ysf.1_Missense_Mutation_p.Q894L|CTNNA2_uc010ysg.1_Missense_Mutation_p.Q849L|CTNNA2_uc010ysi.1_Missense_Mutation_p.Q526L|CTNNA2_uc010ysj.1_Missense_Mutation_p.Q223L	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	942					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TCGCCTGTACAGGCTTTAAGT	0.353													38	149	---	---	---	---	PASS	T	80874960	T	T	80874960	3	4	122	1	0	0	0	0	1	0	0	0	4013	188	7	5	2539	5	CTNNA2	2	80874960	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	344924	80874960	162324413	29	44973										
SMYD1	150572	broad.mit.edu	37	chr2	88396294	88396294	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctcttcctgggggtgaaagaCaaccccaaggtacacacagc	10	13	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:88396294C>G	uc002ssr.2	+	6	881	c.879C>G	c.(877-879)GAC>GAG	p.D293E	SMYD1_uc002ssq.1_Intron|SMYD1_uc002sss.2_5'UTR	NM_198274	NP_938015	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	293					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						GGGTGAAAGACAACCCCAAGG	0.527													9	57	---	---	---	---	PASS	G	88396294	G	G	88396294	3	3	122	1	0	0	0	0	1	0	0	0	14821	477	17	4	901	4	SMYD1	2	88396294	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	7521334	88396294	154803079	30	44974										
TRIM43	129868	broad.mit.edu	37	chr2	96260870	96260870	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	agagaaatctatatgaggagGgaagaacagccttcctctgg	12	7	2	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:96260870G>A	uc002suv.2	+	3	620	c.484G>A	c.(484-486)GGA>AGA	p.G162R		NM_138800	NP_620155	Q96BQ3	TRI43_HUMAN	tripartite motif-containing 43	162						intracellular	zinc ion binding			ovary(1)	1						ATATGAGGAGGGAAGAACAGC	0.398													5	50	---	---	---	---	PASS	A	96260870	A	A	96260870	3	1	122	1	0	0	0	0	1	0	0	0	16515	1233	43	3	490	3	TRIM43	2	96260870	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	7864576	96260870	146938503	31	44975										
SMPD4	55627	broad.mit.edu	37	chr2	130929950	130929950	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tggtgaggggctggtcccccCtgggctggaggagagtggtg	21	8	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:130929950C>T	uc002tqq.1	-	8	1268	c.748G>A	c.(748-750)GGG>AGG	p.G250R	SMPD4_uc002tqp.1_5'UTR|SMPD4_uc010yzy.1_Intron|SMPD4_uc010yzz.1_Intron|SMPD4_uc002tqr.1_Missense_Mutation_p.G250R|SMPD4_uc002tqs.1_Missense_Mutation_p.G118R|SMPD4_uc002tqt.1_Missense_Mutation_p.G128R|SMPD4_uc010zaa.1_Missense_Mutation_p.G137R|SMPD4_uc010zab.1_Missense_Mutation_p.G177R|SMPD4_uc010zac.1_Intron|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	211					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	CTGGTCCCCCCTGGGCTGGAG	0.617													14	58	---	---	---	---	PASS	T	130929950	T	T	130929950	3	4	122	1	0	0	0	0	1	0	0	0	14807	681	24	3	1904	3	SMPD4	2	130929950	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	34669080	130929950	112269423	32	44976										
LCT	3938	broad.mit.edu	37	chr2	136566975	136566975	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tcccagttgggaaaatccgaGaccaggagatagagaagcgg	14	8	0	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:136566975G>T	uc002tuu.1	-	8	2953	c.2942C>A	c.(2941-2943)TCT>TAT	p.S981Y		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	981	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		GAAAATCCGAGACCAGGAGAT	0.498													16	101	---	---	---	---	PASS	T	136566975	T	T	136566975	3	4	122	1	0	0	0	0	1	0	0	0	8693	942	33	2	2881	2	LCT	2	136566975	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	5637025	136566975	106632398	33	44977										
GALNT13	114805	broad.mit.edu	37	chr2	155098562	155098562	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gatgtaagacaaaagtctacCctgatgaacttccaaacaca	6	10	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:155098562C>G	uc002tyr.3	+	5	898	c.331C>G	c.(331-333)CCT>GCT	p.P111A	GALNT13_uc002tyt.3_Missense_Mutation_p.P111A|GALNT13_uc010foc.1_5'UTR	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	111	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						AAAAGTCTACCCTGATGAACT	0.328													5	56	---	---	---	---	PASS	G	155098562	G	G	155098562	3	3	122	1	0	0	0	0	1	0	0	0	6211	623	22	4	341	4	GALNT13	2	155098562	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	18531587	155098562	88100811	34	44978										
KCNJ3	3760	broad.mit.edu	37	chr2	155711690	155711690	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctggtatctaaaaccaccaaGatgttatctgatcccatgag	7	10	2	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:155711690G>T	uc002tyv.1	+	3	1566	c.1371G>T	c.(1369-1371)AAG>AAT	p.K457N	KCNJ3_uc010zce.1_3'UTR	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	457	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	AAACCACCAAGATGTTATCTG	0.473													4	74	---	---	---	---	PASS	T	155711690	T	T	155711690	3	4	122	1	0	0	0	0	1	0	0	0	8052	933	33	2	1381	2	KCNJ3	2	155711690	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	613128	155711690	87487683	35	44979										
RAPGEF4	11069	broad.mit.edu	37	chr2	173853511	173853511	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctgcctctatcgtcttacgaGaagataactgccatttctta	6	11	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:173853511G>A	uc002uhv.3	+	14	1505	c.1318G>A	c.(1318-1320)GAA>AAA	p.E440K	RAPGEF4_uc002uhw.3_Missense_Mutation_p.E296K|RAPGEF4_uc010zec.1_Missense_Mutation_p.E287K|RAPGEF4_uc010zed.1_Missense_Mutation_p.E269K|RAPGEF4_uc010zee.1_Missense_Mutation_p.E287K|RAPGEF4_uc010fqo.2_Missense_Mutation_p.E269K|RAPGEF4_uc010zef.1_Missense_Mutation_p.E220K|RAPGEF4_uc010zeg.1_Missense_Mutation_p.E267K|RAPGEF4_uc010fqp.1_Missense_Mutation_p.E220K|RAPGEF4_uc010zeh.1_Missense_Mutation_p.E220K	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	440	cAMP 2.				blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			CGTCTTACGAGAAGATAACTG	0.483													17	77	---	---	---	---	PASS	A	173853511	A	A	173853511	3	1	122	1	0	0	0	0	1	0	0	0	13046	943	33	2	1388	2	RAPGEF4	2	173853511	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	18141821	173853511	69345862	36	44980										
NFE2L2	4780	broad.mit.edu	37	chr2	178098804	178098804	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctgaattgggagaaattcacCtgtctcttcatctagttgta	8	8	4	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:178098804C>T	uc002ulh.3	-	2	796	c.241G>A	c.(241-243)GGT>AGT	p.G81S	NFE2L2_uc002ulg.3_Missense_Mutation_p.G65S|NFE2L2_uc010zfa.1_Missense_Mutation_p.G65S|NFE2L2_uc002uli.3_Missense_Mutation_p.G65S|NFE2L2_uc010fra.2_Missense_Mutation_p.G65S|NFE2L2_uc010frb.2_Missense_Mutation_p.G65S	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	81					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			AGAAATTCACCTGTCTCTTCA	0.438			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			23	79	---	---	---	---	PASS	T	178098804	T	T	178098804	3	4	122	1	0	0	0	0	1	0	0	0	10368	681	24	3	1592	3	NFE2L2	2	178098804	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	4245293	178098804	65100569	37	44981										
TTN	7273	broad.mit.edu	37	chr2	179427766	179427766	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gttctggtcgacctttgataGtgacaaataagcgtaaagta	10	6	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:179427766G>A	uc010zfg.1	-	275	75613	c.75389C>T	c.(75388-75390)ACT>ATT	p.T25130I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T18825I|TTN_uc010zfi.1_Missense_Mutation_p.T18758I|TTN_uc010zfj.1_Missense_Mutation_p.T18633I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26057							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)			ACCTTTGATAGTGACAAATAA	0.468													7	237	---	---	---	---	PASS	A	179427766	A	A	179427766	3	1	122	1	0	0	0	0	1	0	0	0	16732	1029	36	3	25034	3	TTN	2	179427766	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	1328962	179427766	63771607	38	44982										
ASNSD1	54529	broad.mit.edu	37	chr2	190535246	190535246	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aagcaaacttgactttacccCgaggaattggtgaaaaatta	8	7	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:190535246C>T	uc002uqt.2	+	6	2160	c.1726C>T	c.(1726-1728)CGA>TGA	p.R576*		NM_019048	NP_061921	Q9NWL6	ASND1_HUMAN	asparagine synthetase domain containing 1	576	Asparagine synthetase.				asparagine biosynthetic process|glutamine metabolic process		asparagine synthase (glutamine-hydrolyzing) activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0449)|all cancers(119;0.118)			GACTTTACCCCGAGGAATTGG	0.413													19	88	---	---	---	---	PASS	T	190535246	T	T	190535246	4	4	122	1	0	0	0	0	0	1	0	0	1049	644	23	1	1736	1	ASNSD1	2	190535246	Nonsense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	11107480	190535246	52664127	39	44983										
WDFY1	57590	broad.mit.edu	37	chr2	224759044	224759044	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	agctgaaggtagcacagcgaCtgcaccttgtcactgcaaac	10	12	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr2:224759044C>G	uc002vnq.2	-	8	789	c.738G>C	c.(736-738)CAG>CAC	p.Q246H		NM_020830	NP_065881	Q8IWB7	WDFY1_HUMAN	WD repeat and FYVE domain containing 1	246	WD 6.					cytosol|early endosome|nucleus	1-phosphatidylinositol binding|zinc ion binding			lung(1)	1		all_lung(227;0.00682)|Lung NSC(271;0.00859)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;5.34e-10)|all cancers(144;1.67e-07)|Lung(261;0.00807)|LUSC - Lung squamous cell carcinoma(224;0.00843)		AGCACAGCGACTGCACCTTGT	0.502													5	47	---	---	---	---	PASS	G	224759044	G	G	224759044	3	3	122	1	0	0	0	0	1	0	0	0	17265	564	20	4	514	4	WDFY1	2	224759044	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	34223798	224759044	18440329	40	44984										
NR1D2	9975	broad.mit.edu	37	chr3	24001171	24001171	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tttgttcttagggtttctttCggagaagtattcaacaaaac	8	6	3	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr3:24001171C>G	uc003ccs.2	+	4	701	c.382C>G	c.(382-384)CGG>GGG	p.R128G	NR1D2_uc010hfd.2_RNA|NR1D2_uc011awk.1_Missense_Mutation_p.R53G	NM_005126	NP_005117	Q14995	NR1D2_HUMAN	nuclear receptor subfamily 1, group D, member 2	128	Nuclear receptor.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			urinary_tract(1)|kidney(1)|skin(1)	3						GGGTTTCTTTCGGAGAAGTAT	0.353													5	73	---	---	---	---	PASS	G	24001171	G	G	24001171	3	3	122	1	0	0	0	0	1	0	0	0	10616	875	31	2	396	2	NR1D2	3	24001171	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08		24001171	174021259	41	44985										
EPM2AIP1	9852	broad.mit.edu	37	chr3	37033875	37033875	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	caagctaagccctgctgtctGcagggactctaggattgccg	12	12	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr3:37033875G>A	uc003cgk.2	-	1	921	c.694C>T	c.(694-696)CAG>TAG	p.Q232*	MLH1_uc011aye.1_5'Flank|MLH1_uc003cgl.2_5'Flank|MLH1_uc011ayb.1_5'Flank|MLH1_uc010hge.2_5'Flank|MLH1_uc003cgn.3_5'Flank|MLH1_uc011ayc.1_5'Flank|MLH1_uc011ayd.1_5'Flank|MLH1_uc003cgo.2_5'Flank	NM_014805	NP_055620	Q7L775	EPMIP_HUMAN	EPM2A interacting protein 1	232						endoplasmic reticulum					0						CCTGCTGTCTGCAGGGACTCT	0.498													5	195	---	---	---	---	PASS	A	37033875	A	A	37033875	4	1	122	1	0	0	0	0	0	1	0	0	5184	1328	46	3	1133	3	EPM2AIP1	3	37033875	Nonsense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	13032704	37033875	160988555	42	44986										
CADPS	8618	broad.mit.edu	37	chr3	62570895	62570895	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttttgaggcttatccattcgGacagcaagtttgattttgag	10	6	0	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr3:62570895G>T	uc003dll.2	-	8	1902	c.1542C>A	c.(1540-1542)GTC>GTA	p.V514V	CADPS_uc003dlk.1_Silent_p.V18V|CADPS_uc003dlm.2_Silent_p.V514V|CADPS_uc003dln.2_Silent_p.V514V	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	514					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		TATCCATTCGGACAGCAAGTT	0.448													23	107	---	---	---	---	PASS	T	62570895	T	T	62570895	2	4	122	1	0	0	0	0	0	0	0	1	2570	1161	41	2		2	CADPS	3	62570895	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	25537020	62570895	135451535	43	44987										
CADPS	8618	broad.mit.edu	37	chr3	62570972	62570972	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtgccactctgactgtttggGgctgttcggggtgggatgga	18	7	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr3:62570972G>T	uc003dll.2	-	8	1825	c.1465C>A	c.(1465-1467)CCC>ACC	p.P489T	CADPS_uc003dlk.1_5'UTR|CADPS_uc003dlm.2_Missense_Mutation_p.P489T|CADPS_uc003dln.2_Missense_Mutation_p.P489T	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	489					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		GACTGTTTGGGGCTGTTCGGG	0.398													25	104	---	---	---	---	PASS	T	62570972	T	T	62570972	3	4	122	1	0	0	0	0	1	0	0	0	2570	1232	43	3	2761	3	CADPS	3	62570972	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	77	62570972	135451458	44	44988										
TMF1	7110	broad.mit.edu	37	chr3	69097101	69097101	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tatcactggtggtagaagtaCctgatgaaaaggtactaaca	10	6	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr3:69097101C>A	uc003dnn.2	-	2	1002	c.755G>T	c.(754-756)GGT>GTT	p.G252V	TMF1_uc011bfx.1_Missense_Mutation_p.G252V	NM_007114	NP_009045	P82094	TMF1_HUMAN	TATA element modulatory factor 1	252					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi membrane|nucleus	DNA binding|protein binding|transcription cofactor activity				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;4.48e-05)|Epithelial(33;0.000274)|LUSC - Lung squamous cell carcinoma(21;0.0123)|KIRC - Kidney renal clear cell carcinoma(39;0.211)|Kidney(39;0.247)		GGTAGAAGTACCTGATGAAAA	0.403													14	75	---	---	---	---	PASS	A	69097101	A	A	69097101	3	1	122	1	0	0	0	0	1	0	0	0	16225	507	18	3	2590	3	TMF1	3	69097101	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	6526129	69097101	128925329	45	44989										
OR5H2	79310	broad.mit.edu	37	chr3	98002546	98002546	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gcgccctgcatctccacaagCagatgaccaagatatgatag	9	12	1	4			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr3:98002546C>T	uc003dsj.1	+	1	815	c.815C>T	c.(814-816)GCA>GTA	p.A272V		NM_001005482	NP_001005482	Q8NGV7	OR5H2_HUMAN	olfactory receptor, family 5, subfamily H,	272	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3						TCTCCACAAGCAGATGACCAA	0.378													11	79	---	---	---	---	PASS	T	98002546	T	T	98002546	3	4	122	1	0	0	0	0	1	0	0	0	11162	710	25	3	817	3	OR5H2	3	98002546	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	28905445	98002546	100019884	46	44990										
CLDND1	56650	broad.mit.edu	37	chr3	98235705	98235705	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cagcaacataacaacttactGagcccagtgtacacagacct	6	13	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr3:98235705G>A	uc003dsp.2	-	5	1440	c.560C>T	c.(559-561)TCA>TTA	p.S187L	CLDND1_uc003dso.2_Intron|CLDND1_uc003dsq.2_Missense_Mutation_p.S187L|CLDND1_uc003dss.2_Missense_Mutation_p.S187L|CLDND1_uc003dsr.2_Missense_Mutation_p.S92L|CLDND1_uc003dst.2_Missense_Mutation_p.S210L|CLDND1_uc003dsu.2_Missense_Mutation_p.S187L|CLDND1_uc003dsv.2_Missense_Mutation_p.S187L	NM_019895	NP_063948	Q9NY35	CLDN1_HUMAN	claudin domain containing 1 protein isoform a	187	Helical; (Potential).					integral to membrane				ovary(1)	1						ACAACTTACTGAGCCCAGTGT	0.443													14	68	---	---	---	---	PASS	A	98235705	A	A	98235705	3	1	122	1	0	0	0	0	1	0	0	0	3493	1294	45	2	205	2	CLDND1	3	98235705	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	233159	98235705	99786725	47	44991										
COL8A1	1295	broad.mit.edu	37	chr3	99509692	99509692	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cacaataccagcccctgggtCagcaagtacctcacatgcct	7	16	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr3:99509692C>A	uc003dtg.1	+	4	411	c.166C>A	c.(166-168)CAG>AAG	p.Q56K	COL8A1_uc003dth.1_Missense_Mutation_p.Q56K|COL8A1_uc003dti.1_Missense_Mutation_p.Q56K	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	56	Nonhelical region (NC2).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						GCCCCTGGGTCAGCAAGTACC	0.537													7	81	---	---	---	---	PASS	A	99509692	A	A	99509692	3	1	122	1	0	0	0	0	1	0	0	0	3705	827	29	2	168	2	COL8A1	3	99509692	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	1273987	99509692	98512738	48	44992										
ZIC1	7545	broad.mit.edu	37	chr3	147128288	147128288	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atcggccgggggcttcggggGcccacacggccacacggacg	17	15	0	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr3:147128288G>C	uc003ewe.2	+	1	1108	c.389G>C	c.(388-390)GGC>GCC	p.G130A		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	130					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GGCTTCGGGGGCCCACACGGC	0.711													4	32	---	---	---	---	PASS	C	147128288	C	C	147128288	3	2	122	1	0	0	0	0	1	0	0	0	17675	1203	42	4	391	4	ZIC1	3	147128288	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	47618596	147128288	50894142	49	44993										
MFSD1	64747	broad.mit.edu	37	chr3	158539385	158539385	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tctctgtctttttaattttaGagttttctttacagagaaat	5	5	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr3:158539385G>C	uc003fcl.1	+	10	894	c.864_splice	c.e10-1	p.K288_splice	MFSD1_uc003fcm.1_Splice_Site|MFSD1_uc003fcn.1_Splice_Site_p.K191_splice|MFSD1_uc011bow.1_Splice_Site_p.K249_splice|MFSD1_uc011box.1_Splice_Site_p.K215_splice	NM_022736	NP_073573	Q9H3U5	MFSD1_HUMAN	major facilitator superfamily domain containing						transmembrane transport	integral to membrane					0			Lung(72;0.00372)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TTTAATTTTAGAGTTTTCTTT	0.284													3	114	---	---	---	---	PASS	C	158539385	C	C	158539385	5	2	122	1	0	0	0	0	0	0	1	0	9527	956	33	2	1048	2	MFSD1	3	158539385	Splice_Site	SNP	G	TCGA-60-2709-01A-21D-1817-08	11411097	158539385	39483045	50	44994										
TTC14	151613	broad.mit.edu	37	chr3	180328168	180328168	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gaatatgaaagagaggacaaTtatggggaggatatcaaaac	12	3	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr3:180328168T>C	uc003fkk.2	+	12	2283	c.2151T>C	c.(2149-2151)AAT>AAC	p.N717N	TTC14_uc003fkl.2_3'UTR|TTC14_uc003fkm.2_Intron	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	717							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			GAGAGGACAATTATGGGGAGG	0.358													8	147	---	---	---	---	PASS	C	180328168	C	C	180328168	2	2	122	1	0	0	0	0	0	0	0	1	16678	1490	52	5		5	TTC14	3	180328168	Silent	SNP	T	TCGA-60-2709-01A-21D-1817-08	21788783	180328168	17694262	51	44995										
HTR3E	285242	broad.mit.edu	37	chr3	183824055	183824055	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tccctgctgctccactgcaaCagcccggggagatgctgtcc	11	16	0	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr3:183824055C>G	uc010hxq.2	+	8	1531	c.1065C>G	c.(1063-1065)AAC>AAG	p.N355K	HTR3E_uc003fml.3_Missense_Mutation_p.N340K|HTR3E_uc003fmm.2_Missense_Mutation_p.N370K|HTR3E_uc010hxr.2_Missense_Mutation_p.N381K|HTR3E_uc003fmn.2_Missense_Mutation_p.N355K	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	355	Cytoplasmic (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			TCCACTGCAACAGCCCGGGGA	0.637													6	70	---	---	---	---	PASS	G	183824055	G	G	183824055	3	3	122	1	0	0	0	0	1	0	0	0	7448	477	17	4	1136	4	HTR3E	3	183824055	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	3495887	183824055	14198375	52	44996										
STK32B	55351	broad.mit.edu	37	chr4	5170131	5170131	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttcggaatgttttccgggagCtgcagatcatgcaagggctg	14	8	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr4:5170131C>T	uc003gih.1	+	3	278	c.214C>T	c.(214-216)CTG>TTG	p.L72L	STK32B_uc010ida.1_Silent_p.L25L	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	72	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						TTTCCGGGAGCTGCAGATCAT	0.532													3	40	---	---	---	---	PASS	T	5170131	T	T	5170131	2	4	122	1	0	0	0	0	0	0	0	1	15297	796	28	3		3	STK32B	4	5170131	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08		5170131	185984145	53	44997										
NFXL1	152518	broad.mit.edu	37	chr4	47905311	47905311	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tggatacagggcatgtgaaaTatacagaaacatcccgaaca	9	8	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr4:47905311T>C	uc010igh.2	-	5	723	c.546A>G	c.(544-546)ATA>ATG	p.I182M	NFXL1_uc003gxp.2_Missense_Mutation_p.I182M|NFXL1_uc003gxq.3_RNA|NFXL1_uc010igi.2_Missense_Mutation_p.I182M	NM_152995	NP_694540	Q6ZNB6	NFXL1_HUMAN	nuclear transcription factor, X-box binding-like	182	RING-type; atypical.					integral to membrane|nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						GCATGTGAAATATACAGAAAC	0.343													12	54	---	---	---	---	PASS	C	47905311	C	C	47905311	3	2	122	1	0	0	0	0	1	0	0	0	10388	1396	49	5	2265	5	NFXL1	4	47905311	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	42735180	47905311	143248965	54	44998										
C4orf51	646603	broad.mit.edu	37	chr4	146651106	146651106	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	acagtcgacgagggaaaggtGtcctaaagcatgtaagaatc	12	7	0	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr4:146651106G>T	uc003ikk.2	+	5	490	c.490G>T	c.(490-492)GTC>TTC	p.V164F		NM_001080531	NP_001074000	C9J302	CD051_HUMAN	chromosome 4 open reading frame 51	164											0						AGGGAAAGGTGTCCTAAAGCA	0.498													12	62	---	---	---	---	PASS	T	146651106	T	T	146651106	3	4	122	1	0	0	0	0	1	0	0	0	2277	1377	48	3	508	3	C4orf51	4	146651106	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	98745795	146651106	44503170	55	44999										
CDH10	1008	broad.mit.edu	37	chr5	24498560	24498560	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtcatagaacacagcaaactGtggggcattgtcattaacat	9	8	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr5:24498560G>T	uc003jgr.1	-	9	1794	c.1462C>A	c.(1462-1464)CAG>AAG	p.Q488K	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	488	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ACAGCAAACTGTGGGGCATTG	0.408										HNSCC(23;0.051)			14	83	---	---	---	---	PASS	T	24498560	T	T	24498560	3	4	122	1	0	0	0	0	1	0	0	0	3096	1386	48	3	920	3	CDH10	5	24498560	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08		24498560	156416700	56	45000										
PLCXD3	345557	broad.mit.edu	37	chr5	41382481	41382481	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	acgaattccagctcctagctGgccagtaaaattcattgtct	7	11	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr5:41382481G>T	uc003jmm.1	-	2	361	c.259C>A	c.(259-261)CAG>AAG	p.Q87K		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	87	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						GCTCCTAGCTGGCCAGTAAAA	0.448													12	78	---	---	---	---	PASS	T	41382481	T	T	41382481	3	4	122	1	0	0	0	0	1	0	0	0	12043	1357	47	3	714	3	PLCXD3	5	41382481	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	16883921	41382481	139532779	57	45001										
MRPS30	10884	broad.mit.edu	37	chr5	44815184	44815184	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tggggtacacaaagtaagccTctttatgaaacaattgagga	10	6	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr5:44815184T>C	uc003joh.2	+	5	1238	c.1200T>C	c.(1198-1200)CCT>CCC	p.P400P		NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	400					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)					AAAGTAAGCCTCTTTATGAAA	0.333													8	58	---	---	---	---	PASS	C	44815184	C	C	44815184	2	2	122	1	0	0	0	0	0	0	0	1	9840	1538	54	5		5	MRPS30	5	44815184	Silent	SNP	T	TCGA-60-2709-01A-21D-1817-08	3432703	44815184	136100076	58	45002										
MAST4	375449	broad.mit.edu	37	chr5	66429345	66429345	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtccgtctgcctcatagcttGttggttacctccatggggca	11	12	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr5:66429345G>T	uc003jut.1	+	16	1598	c.1530G>T	c.(1528-1530)TTG>TTT	p.L510F	MAST4_uc003juu.1_Missense_Mutation_p.L520F|MAST4_uc011cra.1_Missense_Mutation_p.L493F|MAST4_uc003juv.2_Missense_Mutation_p.L505F|MAST4_uc003juw.2_Missense_Mutation_p.L505F	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	702	Protein kinase.					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)		CTCATAGCTTGTTGGTTACCT	0.408													6	150	---	---	---	---	PASS	T	66429345	T	T	66429345	3	4	122	1	0	0	0	0	1	0	0	0	9327	1368	48	3	2293	3	MAST4	5	66429345	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	21614161	66429345	114485915	59	45003										
AP3B1	8546	broad.mit.edu	37	chr5	77521374	77521374	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gacattacttactgtgctttTatctttcagaagtttttcaa	5	7	3	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr5:77521374T>C	uc003kfj.2	-	6	720	c.595A>G	c.(595-597)AAA>GAA	p.K199E		NM_003664	NP_003655	O00203	AP3B1_HUMAN	adaptor-related protein complex 3, beta 1	199					endocytosis|melanosome organization	clathrin coated vesicle membrane|Golgi apparatus|membrane coat	protein phosphatase binding|protein transporter activity			central_nervous_system(1)	1		all_lung(232;0.000397)|Lung NSC(167;0.00106)|Ovarian(174;0.0105)|Prostate(461;0.215)		OV - Ovarian serous cystadenocarcinoma(54;8.23e-47)|Epithelial(54;2.74e-41)|all cancers(79;4.8e-36)		ACTGTGCTTTTATCTTTCAGA	0.229									Hermansky-Pudlak_syndrome				5	30	---	---	---	---	PASS	C	77521374	C	C	77521374	3	2	122	1	0	0	0	0	1	0	0	0	744	1763	61	5	2777	5	AP3B1	5	77521374	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	11092029	77521374	103393886	60	45004										
LOC153328	153328	broad.mit.edu	37	chr5	135188282	135188282	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tcttcaagggcatgtccttcCccctcgccagcattgccgtc	8	17	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr5:135188282C>A	uc003laz.1	+	4	365	c.193C>A	c.(193-195)CCC>ACC	p.P65T	LOC153328_uc003lba.2_Missense_Mutation_p.P65T			Q6ZT89	S2548_HUMAN	RecName: Full=Putative mitochondrial carrier protein FLJ44862;	65	Solcar 1.|Helical; Name=2; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CATGTCCTTCCCCCTCGCCAG	0.627													5	162	---	---	---	---	PASS	A	135188282	A	A	135188282	3	1	122	1	0	0	0	0	1	0	0	0	8871	623	22	3	207	3	LOC153328	5	135188282	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	57666908	135188282	45726978	61	45005										
PKD2L2	27039	broad.mit.edu	37	chr5	137241999	137241999	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctatgactattttattgcttCctgtgaaatcacattctgta	5	8	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr5:137241999C>T	uc003lby.2	+	6	907	c.851C>T	c.(850-852)TCC>TTC	p.S284F	PKD2L2_uc010jep.1_Missense_Mutation_p.S224F|PKD2L2_uc003lbw.1_Missense_Mutation_p.S284F|PKD2L2_uc003lbx.2_Missense_Mutation_p.S284F|PKD2L2_uc011cyi.1_5'UTR	NM_014386	NP_055201	Q9NZM6	PK2L2_HUMAN	polycystic kidney disease 2-like 2	284	Helical; (Potential).					integral to membrane	calcium ion binding|ion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TTTATTGCTTCCTGTGAAATC	0.343													18	96	---	---	---	---	PASS	T	137241999	T	T	137241999	3	4	122	1	0	0	0	0	1	0	0	0	11968	855	30	2	873	2	PKD2L2	5	137241999	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	2053717	137241999	43673261	62	45006										
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139876442	139876442	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aaagaatacttggaaaccaaAggtcagaaagacacagtgtc	9	7	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr5:139876442A>T	uc003lfs.1	+	15	2707	c.2583A>T	c.(2581-2583)AAA>AAT	p.K861N	ANKHD1_uc003lfq.1_Missense_Mutation_p.K880N|ANKHD1_uc003lfr.2_Missense_Mutation_p.K861N|ANKHD1_uc003lft.1_Intron|ANKHD1_uc003lfu.1_Missense_Mutation_p.K341N|ANKHD1_uc003lfv.1_Intron	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	861						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGAAACCAAAGGTCAGAAAG	0.433													16	109	---	---	---	---	PASS	T	139876442	T	T	139876442	3	4	122	1	0	0	0	0	1	0	0	0	629	69	3	5	2641	5	ANKHD1-EIF4EBP3	5	139876442	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	2634443	139876442	41038818	63	45007										
PCDHB2	56133	broad.mit.edu	37	chr5	140475898	140475898	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctcgcctccctggtctccatCaacgcggacaacggccacct	8	19	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr5:140475898C>G	uc003lil.2	+	1	1662	c.1524C>G	c.(1522-1524)ATC>ATG	p.I508M	PCDHB2_uc003lim.1_Missense_Mutation_p.I169M	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	508	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGTCTCCATCAACGCGGACA	0.701													24	142	---	---	---	---	PASS	G	140475898	G	G	140475898	3	3	122	1	0	0	0	0	1	0	0	0	11542	816	29	2	1526	2	PCDHB2	5	140475898	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	599456	140475898	40439362	64	45008										
ARAP3	64411	broad.mit.edu	37	chr5	141039405	141039405	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cactcgcacctcgtgctcccCtcgcccatccgtctggaaca	7	20	1	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr5:141039405C>T	uc003llm.2	-	22	3286	c.3208G>A	c.(3208-3210)GGG>AGG	p.G1070R	ARAP3_uc003lll.2_Missense_Mutation_p.G21R|ARAP3_uc011dbe.1_Missense_Mutation_p.G732R|ARAP3_uc003lln.2_Missense_Mutation_p.G901R	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1070	Rho-GAP.				cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						TCGTGCTCCCCTCGCCCATCC	0.567													4	35	---	---	---	---	PASS	T	141039405	T	T	141039405	3	4	122	1	0	0	0	0	1	0	0	0	840	681	24	3	1474	3	ARAP3	5	141039405	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	563507	141039405	39875855	65	45009										
ITK	3702	broad.mit.edu	37	chr5	156638380	156638380	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ggtgctggcccttaaagaagGtaattaaactcctttgccat	9	9	0	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr5:156638380G>T	uc003lwo.1	+	3	407	c.325_splice	c.e3+1	p.E109_splice		NM_005546	NP_005537	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase						cellular defense response|intracellular signal transduction|T cell receptor signaling pathway	cytosol|plasma membrane	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(12)|ovary(8)|skin(4)|stomach(1)|central_nervous_system(1)	26	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTTAAAGAAGGTAATTAAACT	0.493			T	SYK	peripheral T-cell lymphoma								18	98	---	---	---	---	PASS	T	156638380	T	T	156638380	5	4	122	1	0	0	0	0	0	0	1	0	7909	1275	44	3	336	3	ITK	5	156638380	Splice_Site	SNP	G	TCGA-60-2709-01A-21D-1817-08	15598975	156638380	24276880	66	45010										
PROP1	5626	broad.mit.edu	37	chr5	177422872	177422872	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gccgggtgtctctcaggcaaCaggttgctgccgactcgccc	13	15	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr5:177422872C>T	uc003mif.1	-	1	372	c.63G>A	c.(61-63)CTG>CTA	p.L21L		NM_006261	NP_006252	O75360	PROP1_HUMAN	PROP paired-like homeobox 1	21					central nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(89;0.00176)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCTCAGGCAACAGGTTGCTGC	0.657													9	77	---	---	---	---	PASS	T	177422872	T	T	177422872	2	4	122	1	0	0	0	0	0	0	0	1	12557	465	17	3		3	PROP1	5	177422872	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	20784492	177422872	3492388	67	45011										
HIST1H2AH	85235	broad.mit.edu	37	chr6	27115231	27115231	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	accatcgcgcagggtggtgtCttgcccaatatccaggccgt	12	13	1	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr6:27115231C>T	uc003niz.2	+	1	324	c.324C>T	c.(322-324)GTC>GTT	p.V108V	HIST1H2BK_uc003nix.1_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080596	NP_542163	Q96KK5	H2A1H_HUMAN	histone cluster 1, H2ah	108					nucleosome assembly	nucleosome|nucleus	DNA binding				0						AGGGTGGTGTCTTGCCCAATA	0.547													4	98	---	---	---	---	PASS	T	27115231	T	T	27115231	2	4	122	1	0	0	0	0	0	0	0	1	7134	900	32	2		2	HIST1H2AH	6	27115231	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08		27115231	143999836	68	45012										
PRIM2	5558	broad.mit.edu	37	chr6	57512544	57512544	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gccaacgtattctaaatggtGgtaaagacataaagaaggaa	10	5	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr6:57512544G>C	uc003pdx.2	+	15	1459	c.1372G>C	c.(1372-1374)GGT>CGT	p.G458R		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	458					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		TCTAAATGGTGGTAAAGACAT	0.388													5	222	---	---	---	---	PASS	C	57512544	C	C	57512544	3	2	122	1	0	0	0	0	1	0	0	0	12491	1348	47	4	1422	4	PRIM2	6	57512544	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	30397313	57512544	113602523	69	45013										
EYS	346007	broad.mit.edu	37	chr6	66200499	66200499	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttttttacctgaaaattgctCatcacattcacaaatgaaac	3	9	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr6:66200499C>A	uc011dxu.1	-	5	1388	c.850G>T	c.(850-852)GAG>TAG	p.E284*	EYS_uc003peq.2_Nonsense_Mutation_p.E284*|EYS_uc003per.1_Nonsense_Mutation_p.E284*|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	284	EGF-like 3.				response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						GAAAATTGCTCATCACATTCA	0.289													35	31	---	---	---	---	PASS	A	66200499	A	A	66200499	4	1	122	1	0	0	0	0	0	1	0	0	5332	835	29	2	8702	2	EYS	6	66200499	Nonsense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	8687955	66200499	104914568	70	45014										
COL12A1	1303	broad.mit.edu	37	chr6	75828897	75828897	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctccttgataaacgtgagggCcttgcctacagaatgtggca	11	10	0	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr6:75828897C>T	uc003phs.2	-	46	7382	c.7216G>A	c.(7216-7218)GCC>ACC	p.A2406T	COL12A1_uc003pht.2_Missense_Mutation_p.A1242T	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2406	VWFA 4.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						AACGTGAGGGCCTTGCCTACA	0.473													5	60	---	---	---	---	PASS	T	75828897	T	T	75828897	3	4	122	1	0	0	0	0	1	0	0	0	3669	739	26	3	2059	3	COL12A1	6	75828897	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	9628398	75828897	95286170	71	45015										
MDN1	23195	broad.mit.edu	37	chr6	90353767	90353767	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ccaactcaaaccactgtctgAgggcatcgctgagtgtctca	9	13	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr6:90353767A>C	uc003pnn.1	-	102	16864	c.16748T>G	c.(16747-16749)CTC>CGC	p.L5583R		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5583	VWFA.				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)		CCACTGTCTGAGGGCATCGCT	0.463													3	108	---	---	---	---	PASS	C	90353767	C	C	90353767	3	2	122	1	0	0	0	0	1	0	0	0	9415	304	11	5	46	5	MDN1	6	90353767	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	14524870	90353767	80761300	72	45016										
BEND3	57673	broad.mit.edu	37	chr6	107391975	107391975	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cccgagggaggattcttcttCtccatgatcttgtgcgagat	11	10	4	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr6:107391975C>G	uc003prs.2	-	5	1070	c.420G>C	c.(418-420)GAG>GAC	p.E140D		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	140										ovary(3)	3						GATTCTTCTTCTCCATGATCT	0.577													16	132	---	---	---	---	PASS	G	107391975	G	G	107391975	3	3	122	1	0	0	0	0	1	0	0	0	1399	912	32	2	2070	2	BEND3	6	107391975	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	17038208	107391975	63723092	73	45017										
MCM9	254394	broad.mit.edu	37	chr6	119232904	119232904	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	actgagatttccctgtgccaGgatccccaaccaataaaaga	7	12	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr6:119232904G>C	uc003pyh.2	-	7	1324	c.1061C>G	c.(1060-1062)CCT>CGT	p.P354R		NM_153255	NP_694987	Q9NXL9	MCM9_HUMAN	minichromosome maintenance complex component 9	354	MCM.|ATP (Potential).				DNA replication		ATP binding|DNA binding|nucleoside-triphosphatase activity			ovary(1)	1		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0676)|OV - Ovarian serous cystadenocarcinoma(136;0.194)		CCCTGTGCCAGGATCCCCAAC	0.378													13	51	---	---	---	---	PASS	C	119232904	C	C	119232904	3	2	122	1	0	0	0	0	1	0	0	0	9394	1000	35	4	118	4	MCM9	6	119232904	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	11840929	119232904	51882163	74	45018										
HIVEP2	3097	broad.mit.edu	37	chr6	143092297	143092297	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ggagaaaatggaattgtctcTtgatgtggaaataagtgtgg	14	2	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr6:143092297T>C	uc003qjd.2	-	5	4322	c.3579A>G	c.(3577-3579)CAA>CAG	p.Q1193Q		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1193					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GAATTGTCTCTTGATGTGGAA	0.433													5	210	---	---	---	---	PASS	C	143092297	C	C	143092297	2	2	122	1	0	0	0	0	0	0	0	1	7187	1606	56	5		5	HIVEP2	6	143092297	Silent	SNP	T	TCGA-60-2709-01A-21D-1817-08	23859393	143092297	28022770	75	45019										
SYNE1	23345	broad.mit.edu	37	chr6	152671350	152671350	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgtctccaggctgcttgtctCcaggaggtcaggtgccacca	12	13	3	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr6:152671350C>A	uc010kiw.2	-	72	12456	c.11854G>T	c.(11854-11856)GAG>TAG	p.E3952*	SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Nonsense_Mutation_p.E3952*|SYNE1_uc010kja.1_Nonsense_Mutation_p.E657*	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3952	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)		CTGCTTGTCTCCAGGAGGTCA	0.522										HNSCC(10;0.0054)			28	79	---	---	---	---	PASS	A	152671350	A	A	152671350	4	1	122	1	0	0	0	0	0	1	0	0	15442	864	30	2	14912	2	SYNE1	6	152671350	Nonsense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	9579053	152671350	18443717	76	45020										
EIF3B	8662	broad.mit.edu	37	chr7	2402714	2402714	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttcttctccaggtatatgacGatcagtgacgagtgggatat	11	7	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:2402714G>T	uc003slx.2	+	4	905	c.822G>T	c.(820-822)ACG>ACT	p.T274T	EIF3B_uc003sly.2_Silent_p.T274T|EIF3B_uc003slz.1_Silent_p.T235T|EIF3B_uc003sma.2_Silent_p.T2T	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,	274	Sufficient for interaction with EIF3E.|Sufficient for interaction with EIF3J.				regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		GGTATATGACGATCAGTGACG	0.502													23	293	---	---	---	---	PASS	T	2402714	T	T	2402714	2	4	122	1	0	0	0	0	0	0	0	1	5013	1045	37	2		2	EIF3B	7	2402714	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08		2402714	156735949	77	45021										
CARD11	84433	broad.mit.edu	37	chr7	2956965	2956965	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gaagcttgctcgcgagagacGggggctgacccgggggtcgc	19	11	0	2	rs142828146		TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:2956965G>A	uc003smv.2	-	20	3066	c.2662C>T	c.(2662-2664)CGT>TGT	p.R888C		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	888					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity	p.R881C(1)		haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		CGCGAGAGACGGGGGCTGACC	0.557			Mis		DLBCL								13	90	---	---	---	---	PASS	A	2956965	A	A	2956965	3	1	122	1	0	0	0	0	1	0	0	0	2645	1116	39	1	826	1	CARD11	7	2956965	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	554251	2956965	156181698	78	45022										
SDK1	221935	broad.mit.edu	37	chr7	4247876	4247876	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cttcaacgccgccggagatgGacctaagagtgacccccagc	11	15	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:4247876G>T	uc003smx.2	+	37	5499	c.5360G>T	c.(5359-5361)GGA>GTA	p.G1787V	SDK1_uc010kso.2_Missense_Mutation_p.G1043V|SDK1_uc003smy.2_Missense_Mutation_p.G274V	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1787	Fibronectin type-III 11.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GCCGGAGATGGACCTAAGAGT	0.617													4	60	---	---	---	---	PASS	T	4247876	T	T	4247876	3	4	122	1	0	0	0	0	1	0	0	0	13968	1174	41	2	5506	2	SDK1	7	4247876	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	1290911	4247876	154890787	79	45023										
SNX13	23161	broad.mit.edu	37	chr7	17874389	17874389	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgtacataataatacctttcTttgaatgtcatcaaagattt	4	6	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:17874389T>C	uc003stw.1	-	14	1672	c.1459A>G	c.(1459-1461)AGA>GGA	p.R487G	SNX13_uc003stv.2_Missense_Mutation_p.R487G|SNX13_uc010kuc.2_Missense_Mutation_p.R284G			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;	487	RGS.				cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					AATACCTTTCTTTGAATGTCA	0.279													5	46	---	---	---	---	PASS	C	17874389	C	C	17874389	3	2	122	1	0	0	0	0	1	0	0	0	14884	1617	56	5	1466	5	SNX13	7	17874389	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	13626513	17874389	141264274	80	45024										
CCDC129	223075	broad.mit.edu	37	chr7	31690783	31690783	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tccatgagatggaagccatgAagacgatatgccaaagtttc	10	8	0	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:31690783A>G	uc003tcj.1	+	12	3604	c.2611A>G	c.(2611-2613)AAG>GAG	p.K871E	CCDC129_uc011kad.1_Missense_Mutation_p.K881E|CCDC129_uc003tci.1_Missense_Mutation_p.K722E|CCDC129_uc011kae.1_Missense_Mutation_p.K897E|CCDC129_uc003tck.1_Missense_Mutation_p.K779E	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	871											0						GGAAGCCATGAAGACGATATG	0.478													3	130	---	---	---	---	PASS	G	31690783	G	G	31690783	3	3	122	1	0	0	0	0	1	0	0	0	2764	247	9	5	2653	5	CCDC129	7	31690783	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	13816394	31690783	127447880	81	45025										
ELMO1	9844	broad.mit.edu	37	chr7	37264597	37264597	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gccaaggaccgctgcaggatCgagatgtctatggctgactt	13	10	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:37264597C>A	uc003tfk.1	-	9	895	c.588G>T	c.(586-588)TCG>TCT	p.S196S	ELMO1_uc011kbc.1_Silent_p.S100S|ELMO1_uc010kxg.1_Silent_p.S196S	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	196					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						GCTGCAGGATCGAGATGTCTA	0.502													12	67	---	---	---	---	PASS	A	37264597	A	A	37264597	2	1	122	1	0	0	0	0	0	0	0	1	5065	871	31	2		2	ELMO1	7	37264597	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	5573814	37264597	121874066	82	45026										
AEBP1	165	broad.mit.edu	37	chr7	44150570	44150570	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gagtgagctcccagagccggTggtggctcgtttcatccgca	14	12	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:44150570T>A	uc003tkb.2	+	13	1849	c.1544T>A	c.(1543-1545)GTG>GAG	p.V515E	AEBP1_uc003tkc.3_Missense_Mutation_p.V58E|AEBP1_uc003tkd.2_5'Flank	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	515	Required for DNA-binding and interaction with NFKBIA (By similarity).|F5/8 type C.|Interaction with MAPK1 and MAPK3 (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCAGAGCCGGTGGTGGCTCGT	0.632													11	69	---	---	---	---	PASS	A	44150570	A	A	44150570	3	1	122	1	0	0	0	0	1	0	0	0	349	1696	59	5	1594	5	AEBP1	7	44150570	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	6885973	44150570	114988093	83	45027										
ABCA13	154664	broad.mit.edu	37	chr7	48313943	48313943	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tttcagaagcttgtaaaaggTatttactttaacatcctgga	7	6	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:48313943T>C	uc003toq.2	+	17	4705	c.4680T>C	c.(4678-4680)GGT>GGC	p.G1560G	ABCA13_uc010kyr.2_Silent_p.G1063G	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1560					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TTGTAAAAGGTATTTACTTTA	0.313													17	117	---	---	---	---	PASS	C	48313943	C	C	48313943	2	2	122	1	0	0	0	0	0	0	0	1	31	1625	57	5		5	ABCA13	7	48313943	Silent	SNP	T	TCGA-60-2709-01A-21D-1817-08	4163373	48313943	110824720	84	45028										
CRCP	27297	broad.mit.edu	37	chr7	65617275	65617275	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtcaccagcattctgcctgcAgagccagaggctgagcagaa	12	12	2	4			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:65617275A>G	uc003tus.2	+	6	523	c.378A>G	c.(376-378)GCA>GCG	p.A126A	CRCP_uc003tuv.2_RNA|CRCP_uc011kdw.1_Silent_p.A119A|CRCP_uc003tut.2_Silent_p.A93A|CRCP_uc003tuu.2_Silent_p.A49A	NM_014478	NP_055293	O75575	RPC9_HUMAN	calcitonin gene-related peptide-receptor	126					acrosome reaction|innate immune response|response to virus|transcription from RNA polymerase III promoter	DNA polymerase III complex|nucleus|plasma membrane	calcitonin receptor activity|DNA-directed RNA polymerase activity|nucleotide binding				0						TTCTGCCTGCAGAGCCAGAGG	0.527													10	39	---	---	---	---	PASS	G	65617275	G	G	65617275	2	3	122	1	0	0	0	0	0	0	0	1	3852	175	7	5		5	CRCP	7	65617275	Silent	SNP	A	TCGA-60-2709-01A-21D-1817-08	17303332	65617275	93521388	85	45029										
TYW1	55253	broad.mit.edu	37	chr7	66463151	66463151	+	Missense_Mutation	SNP	G	T	T													0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgctgttagcattagcctttGgatttgtgtccagattgtca							TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:66463151G>T	uc003tvn.2	+	2	253	c.104G>T	c.(103-105)TGG>TTG	p.W35L	SBDS_uc003tvm.1_5'Flank|TYW1_uc010lai.2_RNA	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	35					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				ATTAGCCTTTGGATTTGTGTC	0.348													17	159	---	---	---	---	PASS	T	66463151	T	T	66463151	3	4	122	1	0	0	0	0	1	0	0	0	16815	1357	47	3	110	3	TYW1	7	66463151	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	845876	66463151	92675512	86	45030	834	2								
TYW1	55253	broad.mit.edu	37	chr7	66463152	66463152	+	Missense_Mutation	SNP	G	T	T													0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gctgttagcattagcctttgGatttgtgtccagattgtcat							TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:66463152G>T	uc003tvn.2	+	2	254	c.105G>T	c.(103-105)TGG>TGT	p.W35C	SBDS_uc003tvm.1_5'Flank|TYW1_uc010lai.2_RNA	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	35					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				TTAGCCTTTGGATTTGTGTCC	0.343													18	160	---	---	---	---	PASS	T	66463152	T	T	66463152	3	4	122	1	0	0	0	0	1	0	0	0	16815	1183	41	2	111	2	TYW1	7	66463152	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	1	66463152	92675511	87	45031	834	2								
CACNA2D1	781	broad.mit.edu	37	chr7	81589146	81589146	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gcttttctccatgaaagattCtgcaaaataaatatggtatc	6	7	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:81589146C>A	uc003uhr.1	-	37	3223	c.2967_splice	c.e37-1	p.R989_splice	CACNA2D1_uc011kgy.1_Splice_Site_p.R201_splice	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha							voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	ATGAAAGATTCTGCAAAATAA	0.313													8	31	---	---	---	---	PASS	A	81589146	A	A	81589146	5	1	122	1	0	0	0	0	0	0	1	0	2548	927	32	2	321	2	CACNA2D1	7	81589146	Splice_Site	SNP	C	TCGA-60-2709-01A-21D-1817-08	15125994	81589146	77549517	88	45032										
MCM7	4176	broad.mit.edu	37	chr7	99694927	99694927	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aaagcccaactacttactgcGaggcgccagtcgatcaatgt	9	12	1	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:99694927G>A	uc003usw.1	-	10	1708	c.1198C>T	c.(1198-1200)CGC>TGC	p.R400C	MCM7_uc003usv.1_Missense_Mutation_p.R224C|MCM7_uc003usx.1_Missense_Mutation_p.R224C	NM_005916	NP_005907	P33993	MCM7_HUMAN	minichromosome maintenance complex component 7	400	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of phosphorylation|response to DNA damage stimulus|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)				Atorvastatin(DB01076)	TACTTACTGCGAGGCGCCAGT	0.473													5	45	---	---	---	---	PASS	A	99694927	A	A	99694927	3	1	122	1	0	0	0	0	1	0	0	0	9392	1058	37	2	985	2	MCM7	7	99694927	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	18105781	99694927	59443736	89	45033										
MUC17	140453	broad.mit.edu	37	chr7	100682143	100682143	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctttccacaactcctgttgaCaccagcacacctatgaccac	4	17	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:100682143C>T	uc003uxp.1	+	3	7499	c.7446C>T	c.(7444-7446)GAC>GAT	p.D2482D	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2482	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|39.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CTCCTGTTGACACCAGCACAC	0.517													48	476	---	---	---	---	PASS	T	100682143	T	T	100682143	2	4	122	1	0	0	0	0	0	0	0	1	9974	477	17	3		3	MUC17	7	100682143	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	987216	100682143	58456520	90	45034										
RELN	5649	broad.mit.edu	37	chr7	103113314	103113314	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgtagaaatgtctgagcccaTgttgtcgtgaaaaattcatc	9	7	2	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:103113314T>C	uc003vca.2	-	66	10488	c.10328A>G	c.(10327-10329)CAT>CGT	p.H3443R	RELN_uc010liz.2_Missense_Mutation_p.H3441R	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3443	Arg-rich (basic).				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TCTGAGCCCATGTTGTCGTGA	0.383													13	93	---	---	---	---	PASS	C	103113314	C	C	103113314	3	2	122	1	0	0	0	0	1	0	0	0	13220	1464	51	5	58	5	RELN	7	103113314	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	2431171	103113314	56025349	91	45035										
C7orf58	79974	broad.mit.edu	37	chr7	120629925	120629925	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atgcccaggaaaccagaaagGtaagactctcataagcttaa	8	9	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:120629925G>T	uc003vjq.3	+	2	696	c.249_splice	c.e2+1	p.K83_splice	C7orf58_uc003vjr.1_Splice_Site_p.K83_splice|C7orf58_uc003vjs.3_Splice_Site_p.K83_splice	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1							endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					AACCAGAAAGGTAAGACTCTC	0.428													5	177	---	---	---	---	PASS	T	120629925	T	T	120629925	5	4	122	1	0	0	0	0	0	0	1	0	2405	1275	44	3	252	3	C7orf58	7	120629925	Splice_Site	SNP	G	TCGA-60-2709-01A-21D-1817-08	17516611	120629925	38508738	92	45036										
PTPRZ1	5803	broad.mit.edu	37	chr7	121684484	121684484	+	Nonsense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttgttttgccaggagcaataTgtcttcattcatgatacact	7	8	3	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:121684484T>G	uc003vjy.2	+	23	6341	c.5946T>G	c.(5944-5946)TAT>TAG	p.Y1982*	PTPRZ1_uc003vjz.2_Nonsense_Mutation_p.Y1115*|PTPRZ1_uc011knt.1_Nonsense_Mutation_p.Y572*	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1982	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						AGGAGCAATATGTCTTCATTC	0.388													19	74	---	---	---	---	PASS	G	121684484	G	G	121684484	4	3	122	1	0	0	0	0	0	1	0	0	12814	1471	51	5	6036	5	PTPRZ1	7	121684484	Nonsense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	1054559	121684484	37454179	93	45037										
GPR37	2861	broad.mit.edu	37	chr7	124386948	124386948	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtcagtgccactactgtacaGttcatctgactctctagttg	8	11	4	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:124386948G>A	uc003vli.2	-	2	2124	c.1473C>T	c.(1471-1473)AAC>AAT	p.N491N		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	491	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CTACTGTACAGTTCATCTGAC	0.448													10	108	---	---	---	---	PASS	A	124386948	A	A	124386948	2	1	122	1	0	0	0	0	0	0	0	1	6691	1020	36	3		3	GPR37	7	124386948	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	2702464	124386948	34751715	94	45038										
OR2A5	393046	broad.mit.edu	37	chr7	143748079	143748079	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgtgctgacacctggctcaaCcaggtggtcatctttgctgc	11	12	3	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:143748079C>G	uc011ktw.1	+	1	585	c.585C>G	c.(583-585)AAC>AAG	p.N195K		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	195	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					CCTGGCTCAACCAGGTGGTCA	0.572													27	238	---	---	---	---	PASS	G	143748079	G	G	143748079	3	3	122	1	0	0	0	0	1	0	0	0	10981	506	18	4	587	4	OR2A5	7	143748079	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	19361131	143748079	15390584	95	45039										
SSPO	23145	broad.mit.edu	37	chr7	149500666	149500666	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctgaagtggccaggggtgtcCttcctcctgggcaactgcag	14	12	0	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:149500666C>T	uc010lpk.2	+	55	8067	c.8067C>T	c.(8065-8067)TCC>TCT	p.S2689S		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2689					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CAGGGGTGTCCTTCCTCCTGG	0.682													3	21	---	---	---	---	PASS	T	149500666	T	T	149500666	2	4	122	1	0	0	0	0	0	0	0	1	15188	668	24	3		3	SSPO	7	149500666	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	5752587	149500666	9637997	96	45040										
MLL3	58508	broad.mit.edu	37	chr7	152007083	152007083	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgagacaacagctttgtccaCgttcactaacaatggttctt	7	10	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr7:152007083C>A	uc003wla.2	-	6	1036	c.817G>T	c.(817-819)GTG>TTG	p.V273L		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	273					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GCTTTGTCCACGTTCACTAAC	0.393			N		medulloblastoma								6	81	---	---	---	---	PASS	A	152007083	A	A	152007083	3	1	122	1	0	0	0	0	1	0	0	0	9622	536	19	1	14134	1	MLL3	7	152007083	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	2506417	152007083	7131580	97	45041										
CSMD1	64478	broad.mit.edu	37	chr8	3266999	3266999	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gttctgctgacaggtgataaCtctctcccccaccagctcaa	7	15	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr8:3266999C>A	uc011kwk.1	-	13	2083	c.1693G>T	c.(1693-1695)GTT>TTT	p.V565F	CSMD1_uc011kwj.1_5'UTR	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	565	Extracellular (Potential).|Sushi 3.					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)		CAGGTGATAACTCTCTCCCCC	0.552													4	24	---	---	---	---	PASS	A	3266999	A	A	3266999	3	1	122	1	0	0	0	0	1	0	0	0	3944	565	20	3		3	CSMD1	8	3266999	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08		3266999	143097023	98	45042										
SGCZ	137868	broad.mit.edu	37	chr8	13959960	13959960	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cctgcagcagcactcacctgGaccccacggggagcttccat	10	17	1	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr8:13959960G>T	uc003wwq.2	-	7	1329	c.669C>A	c.(667-669)GTC>GTA	p.V223V	SGCZ_uc010lss.2_Silent_p.V176V	NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta	210	Extracellular (Potential).				cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		CACTCACCTGGACCCCACGGG	0.478													5	44	---	---	---	---	PASS	T	13959960	T	T	13959960	2	4	122	1	0	0	0	0	0	0	0	1	14204	1161	41	2		2	SGCZ	8	13959960	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	10692961	13959960	132404062	99	45043										
BIN3	55909	broad.mit.edu	37	chr8	22481752	22481752	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tacctggtggagcttggccaGcactggccccgtcttctcct	11	15	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr8:22481752G>A	uc003xcl.2	-	7	560	c.463C>T	c.(463-465)CTG>TTG	p.L155L	BIN3_uc003xck.2_Silent_p.L107L|BIN3_uc010ltw.2_Silent_p.L101L	NM_018688	NP_061158	Q9NQY0	BIN3_HUMAN	bridging integrator 3	155	BAR.				actin filament organization|barrier septum formation|cell cycle|protein localization|unidimensional cell growth	cytoplasm|cytoskeleton	cytoskeletal adaptor activity				0		Prostate(55;0.0424)|Breast(100;0.102)|all_epithelial(46;0.143)		BRCA - Breast invasive adenocarcinoma(99;0.00664)|Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)		AGCTTGGCCAGCACTGGCCCC	0.622													3	45	---	---	---	---	PASS	A	22481752	A	A	22481752	2	1	122	1	0	0	0	0	0	0	0	1	1434	962	34	3		3	BIN3	8	22481752	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	8521792	22481752	123882270	100	45044										
DPYSL2	1808	broad.mit.edu	37	chr8	26510758	26510758	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgttttgcagctggctgagcTgagaggggttcctcgtggcc	16	9	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr8:26510758T>A	uc003xfb.1	+	13	1822	c.1472T>A	c.(1471-1473)CTG>CAG	p.L491Q	DPYSL2_uc003xfa.2_Missense_Mutation_p.L596Q|DPYSL2_uc010luk.1_RNA|DPYSL2_uc011lah.1_Missense_Mutation_p.L455Q	NM_001386	NP_001377	Q16555	DPYL2_HUMAN	dihydropyrimidinase-like 2	491					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	dihydropyrimidinase activity|protein binding			large_intestine(1)	1		all_cancers(63;0.121)|Ovarian(32;2.68e-05)|all_epithelial(46;0.116)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;3.33e-10)|Colorectal(74;0.183)		CTGGCTGAGCTGAGAGGGGTT	0.602													16	176	---	---	---	---	PASS	A	26510758	A	A	26510758	3	1	122	1	0	0	0	0	1	0	0	0	4747	1580	55	5	1522	5	DPYSL2	8	26510758	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	4029006	26510758	119853264	101	45045										
TRIM55	84675	broad.mit.edu	37	chr8	67047300	67047300	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aacatctactgtctgaactgCgaagtacccacctgctctct	6	14	3	1	rs150385092	by1000genomes	TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr8:67047300C>T	uc003xvv.2	+	3	643	c.417C>T	c.(415-417)TGC>TGT	p.C139C	TRIM55_uc003xvu.2_Silent_p.C139C|TRIM55_uc003xvw.2_Silent_p.C139C|TRIM55_uc003xvx.2_Silent_p.C139C	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	139	B box-type.					cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			GTCTGAACTGCGAAGTACCCA	0.527													4	109	---	---	---	---	PASS	T	67047300	T	T	67047300	2	4	122	1	0	0	0	0	0	0	0	1	16526	776	27	1		1	TRIM55	8	67047300	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	40536542	67047300	79316722	102	45046										
ZFHX4	79776	broad.mit.edu	37	chr8	77767552	77767552	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ggtatgatcaaaataaaaccGattttgatgagacttcatcg	8	6	2	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr8:77767552G>T	uc003yav.2	+	10	8647	c.8260G>T	c.(8260-8262)GAT>TAT	p.D2754Y	ZFHX4_uc003yau.1_Missense_Mutation_p.D2799Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.D2754Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2754						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAATAAAACCGATTTTGATGA	0.443										HNSCC(33;0.089)			6	50	---	---	---	---	PASS	T	77767552	T	T	77767552	3	4	122	1	0	0	0	0	1	0	0	0	17632	1058	37	2	8429	2	ZFHX4	8	77767552	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	10720252	77767552	68596470	103	45047										
CSMD3	114788	broad.mit.edu	37	chr8	113326816	113326816	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tcaatatgactccagtagaaTctagccgtaattcattggca	7	9	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr8:113326816T>A	uc003ynu.2	-	48	7550	c.7391A>T	c.(7390-7392)GAT>GTT	p.D2464V	CSMD3_uc003yns.2_Missense_Mutation_p.D1666V|CSMD3_uc003ynt.2_Missense_Mutation_p.D2424V|CSMD3_uc011lhx.1_Missense_Mutation_p.D2360V|CSMD3_uc003ynw.1_Missense_Mutation_p.D175V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2464	CUB 14.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TCCAGTAGAATCTAGCCGTAA	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			4	49	---	---	---	---	PASS	A	113326816	A	A	113326816	3	1	122	1	0	0	0	0	1	0	0	0	3946	1435	50	5	3828	5	CSMD3	8	113326816	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	35559264	113326816	33037206	104	45048										
CSMD3	114788	broad.mit.edu	37	chr8	113702181	113702181	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aattaattcaaacccaaactGgcattcaaaccttaaaacat	2	10	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr8:113702181G>T	uc003ynu.2	-	14	2230	c.2071C>A	c.(2071-2073)CAG>AAG	p.Q691K	CSMD3_uc003yns.2_5'UTR|CSMD3_uc003ynt.2_Missense_Mutation_p.Q651K|CSMD3_uc011lhx.1_Missense_Mutation_p.Q587K	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	691	Extracellular (Potential).|Sushi 3.					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						AACCCAAACTGGCATTCAAAC	0.373										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			14	257	---	---	---	---	PASS	T	113702181	T	T	113702181	3	4	122	1	0	0	0	0	1	0	0	0	3946	1357	47	3	9284	3	CSMD3	8	113702181	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	375365	113702181	32661841	105	45049										
FAM135B	51059	broad.mit.edu	37	chr8	139164043	139164043	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctctatgaagagatctggtcCtggggttttcaagtgctatg	12	7	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr8:139164043C>A	uc003yuy.2	-	13	2846	c.2675G>T	c.(2674-2676)AGG>ATG	p.R892M	FAM135B_uc003yux.2_Missense_Mutation_p.R793M|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.R454M|FAM135B_uc003yvb.2_Missense_Mutation_p.R454M	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	892								p.R892G(1)		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)			AGATCTGGTCCTGGGGTTTTC	0.473										HNSCC(54;0.14)			11	159	---	---	---	---	PASS	A	139164043	A	A	139164043	3	1	122	1	0	0	0	0	1	0	0	0	5449	681	24	3	1577	3	FAM135B	8	139164043	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	25461862	139164043	7199979	106	45050										
GDA	9615	broad.mit.edu	37	chr9	74838057	74838057	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	attctagagtgaagcccataGtgacaccacgtttttccctc	7	12	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr9:74838057G>A	uc004aiq.2	+	7	811	c.628G>A	c.(628-630)GTG>ATG	p.V210M	GDA_uc011lse.1_Missense_Mutation_p.V136M|GDA_uc011lsf.1_Missense_Mutation_p.V136M|GDA_uc004air.2_Missense_Mutation_p.V210M|GDA_uc010mow.1_RNA|GDA_uc004ais.2_Intron|GDA_uc004ait.1_Missense_Mutation_p.V136M	NM_004293	NP_004284	Q9Y2T3	GUAD_HUMAN	guanine deaminase	210					nervous system development|purine base metabolic process|purine nucleotide catabolic process	cytosol	guanine deaminase activity|zinc ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		GAAGCCCATAGTGACACCACG	0.308													36	136	---	---	---	---	PASS	A	74838057	A	A	74838057	3	1	122	1	0	0	0	0	1	0	0	0	6306	1029	36	3	654	3	GDA	9	74838057	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08		74838057	66375374	107	45051										
C9orf170	401535	broad.mit.edu	37	chr9	89771592	89771592	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ggaagcccagattggaaaaaCctcttgatagatgtcactcg	10	9	2	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr9:89771592C>G	uc004apa.1	+	2	360	c.273C>G	c.(271-273)AAC>AAG	p.N91K		NM_001001709	NP_001001709	A2RU37	CI170_HUMAN	hypothetical protein LOC401535	91											0						attggaaaaacctCTTGATAG	0.184													6	32	---	---	---	---	PASS	G	89771592	G	G	89771592	3	3	122	1	0	0	0	0	1	0	0	0	2469	506	18	4	279	4	C9orf170	9	89771592	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	14933535	89771592	51441839	108	45052										
CTSL2	1515	broad.mit.edu	37	chr9	99797855	99797855	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atggcctgcatccatagcaaCggagatgggccccacagttg	12	12	0	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr9:99797855C>T	uc004awt.2	-	6	939	c.742G>A	c.(742-744)GTT>ATT	p.V248I	CTSL2_uc010msi.2_Missense_Mutation_p.V248I|CTSL2_uc004awu.2_Missense_Mutation_p.V193I|CTSL2_uc010msj.1_Missense_Mutation_p.V193I	NM_001333	NP_001324	O60911	CATL2_HUMAN	cathepsin L2 preproprotein	248						lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(62;0.0559)				TCCATAGCAACGGAGATGGGC	0.468													10	51	---	---	---	---	PASS	T	99797855	T	T	99797855	3	4	122	1	0	0	0	0	1	0	0	0	4039	536	19	1	274	1	CTSL2	9	99797855	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	10026263	99797855	41415576	109	45053										
ZBTB34	403341	broad.mit.edu	37	chr9	129642902	129642902	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	accccctttgtgtgcaagttCtgtgggaagaagtacacacg	11	10	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr9:129642902C>T	uc004bqm.3	+	2	1309	c.1212C>T	c.(1210-1212)TTC>TTT	p.F404F		NM_001099270	NP_001092740	Q8NCN2	ZBT34_HUMAN	zinc finger and BTB domain containing 34	404	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGTGCAAGTTCTGTGGGAAGA	0.493													9	34	---	---	---	---	PASS	T	129642902	T	T	129642902	2	4	122	1	0	0	0	0	0	0	0	1	17534	912	32	2		2	ZBTB34	9	129642902	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	29845047	129642902	11570529	110	45054										
SPTAN1	6709	broad.mit.edu	37	chr9	131339714	131339714	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	attcaagtgaagcgagaggaActgattacaaactgggagca	12	6	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr9:131339714A>T	uc004bvl.3	+	8	1127	c.1014A>T	c.(1012-1014)GAA>GAT	p.E338D	SPTAN1_uc011mbg.1_Missense_Mutation_p.E338D|SPTAN1_uc011mbh.1_Missense_Mutation_p.E350D|SPTAN1_uc004bvm.3_Missense_Mutation_p.E338D|SPTAN1_uc004bvn.3_Missense_Mutation_p.E338D	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	338	Spectrin 4.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						AGCGAGAGGAACTGATTACAA	0.517													25	96	---	---	---	---	PASS	T	131339714	T	T	131339714	3	4	122	1	0	0	0	0	1	0	0	0	15116	40	2	5	1040	5	SPTAN1	9	131339714	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	1696812	131339714	9873717	111	45055										
DIP2C	22982	broad.mit.edu	37	chr10	468780	468780	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tcacctatgtgggtctgagcCatgacgtccgccagcctgtg	12	13	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr10:468780C>A	uc001ifp.2	-	5	678	c.588G>T	c.(586-588)ATG>ATT	p.M196I	DIP2C_uc009xhk.1_Missense_Mutation_p.W198L	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	196						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GGGTCTGAGCCATGACGTCCG	0.612													13	68	---	---	---	---	PASS	A	468780	A	A	468780	3	1	122	1	0	0	0	0	1	0	0	0	4529	594	21	3	4214	3	DIP2C	10	468780	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08		468780	135065967	112	45056										
ITGA8	8516	broad.mit.edu	37	chr10	15600082	15600082	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ggataactcaccagtattttTgcagggctctgtctgtggaa	11	8	3	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr10:15600082T>C	uc001ioc.1	-	26	2757	c.2757A>G	c.(2755-2757)GCA>GCG	p.A919A	ITGA8_uc010qcb.1_Silent_p.A904A	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	919	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						CCAGTATTTTTGCAGGGCTCT	0.448													7	160	---	---	---	---	PASS	C	15600082	C	C	15600082	2	2	122	1	0	0	0	0	0	0	0	1	7882	1799	63	5		5	ITGA8	10	15600082	Silent	SNP	T	TCGA-60-2709-01A-21D-1817-08	15131302	15600082	119934665	113	45057										
ANKRD26	22852	broad.mit.edu	37	chr10	27306536	27306536	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgaccaagttctaccatattCctttctatatgacttctcag	4	11	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr10:27306536C>G	uc001ith.2	-	30	4570	c.4398G>C	c.(4396-4398)AGG>AGC	p.R1466S	ANKRD26_uc001itg.2_Missense_Mutation_p.R1153S|ANKRD26_uc009xku.1_Missense_Mutation_p.R1467S	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1466	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						CTACCATATTCCTTTCTATAT	0.308													5	79	---	---	---	---	PASS	G	27306536	G	G	27306536	3	3	122	1	0	0	0	0	1	0	0	0	654	854	30	2	751	2	ANKRD26	10	27306536	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	11706454	27306536	108228211	114	45058										
ANKRD26	22852	broad.mit.edu	37	chr10	27366456	27366456	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tttcctgttctcacagtgccAtatgttgcttctactacagt	6	11	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr10:27366456A>G	uc001ith.2	-	9	1060	c.888T>C	c.(886-888)TAT>TAC	p.Y296Y	ANKRD26_uc001itg.2_Silent_p.Y15Y|ANKRD26_uc009xku.1_Silent_p.Y296Y	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	296						centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TCACAGTGCCATATGTTGCTT	0.323													6	81	---	---	---	---	PASS	G	27366456	G	G	27366456	2	3	122	1	0	0	0	0	0	0	0	1	654	224	8	5		5	ANKRD26	10	27366456	Silent	SNP	A	TCGA-60-2709-01A-21D-1817-08	59920	27366456	108168291	115	45059										
RBP4	5950	broad.mit.edu	37	chr10	95351849	95351849	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttgctacaaaaggtttctttCtgatctgccatcgcagtaac	7	10	3	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr10:95351849C>A	uc001kit.2	-	6	673	c.589G>T	c.(589-591)GAA>TAA	p.E197*		NM_006744	NP_006735	P02753	RET4_HUMAN	retinol-binding protein 4, plasma precursor	197					cardiac muscle tissue development|embryonic organ morphogenesis|embryonic retina morphogenesis in camera-type eye|embryonic skeletal system development|female genitalia morphogenesis|gluconeogenesis|glucose homeostasis|heart trabecula formation|lung development|maintenance of gastrointestinal epithelium|negative regulation of cardiac muscle cell proliferation|positive regulation of immunoglobulin secretion|positive regulation of insulin secretion|response to retinoic acid|retinol metabolic process|urinary bladder development|uterus development|vagina development	extracellular space	protein binding|retinal binding|retinol binding				0		Colorectal(252;0.122)			Vitamin A(DB00162)	AGGTTTCTTTCTGATCTGCCA	0.363													7	56	---	---	---	---	PASS	A	95351849	A	A	95351849	4	1	122	1	0	0	0	0	0	1	0	0	13158	922	32	2	20	2	RBP4	10	95351849	Nonsense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	67985393	95351849	40182898	116	45060										
PDCD11	22984	broad.mit.edu	37	chr10	105201613	105201613	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ccaagccagcagaagcgcccCggctgcagctgtcttcaggc	12	16	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr10:105201613C>T	uc001kwy.1	+	31	4675	c.4588C>T	c.(4588-4590)CGG>TGG	p.R1530W		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1530					mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		AGAAGCGCCCCGGCTGCAGCT	0.607													3	53	---	---	---	---	PASS	T	105201613	T	T	105201613	3	4	122	1	0	0	0	0	1	0	0	0	11617	643	23	1	4706	1	PDCD11	10	105201613	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	9849764	105201613	30333134	117	45061										
MUC5B	727897	broad.mit.edu	37	chr11	1281021	1281021	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	agagtggccgggcagtgctgTggggagtgcgtccagaccgc	19	10	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:1281021T>A	uc009ycr.1	+	67	17886	c.17760T>A	c.(17758-17760)TGT>TGA	p.C5920*	MUC5B_uc001ltb.2_Nonsense_Mutation_p.C5586*	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5583	VWFC 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GGCAGTGCTGTGGGGAGTGCG	0.667													21	75	---	---	---	---	PASS	A	1281021	A	A	1281021	4	1	122	1	0	0	0	0	0	1	0	0	9979	1702	59	5	16936	5	MUC5B	11	1281021	Nonsense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08		1281021	133725495	118	45062										
ANO3	63982	broad.mit.edu	37	chr11	26556100	26556100	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ccaaatatgaaaatggaataTcaaaagtgggtaagaacatt	8	4	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:26556100T>C	uc001mqt.3	+	9	1112	c.967T>C	c.(967-969)TCA>CCA	p.S323P	ANO3_uc010rdr.1_Missense_Mutation_p.S307P|ANO3_uc010rds.1_Missense_Mutation_p.S162P|ANO3_uc010rdt.1_Missense_Mutation_p.S177P	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	323	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						AAATGGAATATCAAAAGTGGG	0.323													15	81	---	---	---	---	PASS	C	26556100	C	C	26556100	3	2	122	1	0	0	0	0	1	0	0	0	698	1435	50	5	1001	5	ANO3	11	26556100	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	25275079	26556100	108450416	119	45063										
NUP160	23279	broad.mit.edu	37	chr11	47808037	47808037	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtagtgatgacagatgagagCtgattggctgctagccaggc	15	7	0	5			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:47808037C>A	uc001ngm.2	-	32	3901	c.3816G>T	c.(3814-3816)CAG>CAT	p.Q1272H	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	1272					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						CAGATGAGAGCTGATTGGCTG	0.463													4	136	---	---	---	---	PASS	A	47808037	A	A	47808037	3	1	122	1	0	0	0	0	1	0	0	0	10757	796	28	3	514	3	NUP160	11	47808037	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	21251937	47808037	87198479	120	45064										
OR4P4	81300	broad.mit.edu	37	chr11	55405936	55405936	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tatttttgttttgctacattGctatttggatgggaaactta	8	4	0	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:55405936G>T	uc010rij.1	+	1	103	c.103G>T	c.(103-105)GCT>TCT	p.A35S		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TTGCTACATTGCTATTTGGAT	0.368													4	105	---	---	---	---	PASS	T	55405936	T	T	55405936	3	4	122	1	0	0	0	0	1	0	0	0	11080	1319	46	3	105	3	OR4P4	11	55405936	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	7597899	55405936	79600580	121	45065										
OR4P4	81300	broad.mit.edu	37	chr11	55406141	55406141	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gatacaactctttaccacccAtttttttggaggcatagaga	7	9	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:55406141A>T	uc010rij.1	+	1	308	c.308A>T	c.(307-309)CAT>CTT	p.H103L		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TTTACCACCCATTTTTTTGGA	0.433													4	80	---	---	---	---	PASS	T	55406141	T	T	55406141	3	4	122	1	0	0	0	0	1	0	0	0	11080	217	8	5	310	5	OR4P4	11	55406141	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	205	55406141	79600375	122	45066										
OR5L1	219437	broad.mit.edu	37	chr11	55579077	55579077	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttgttagccaacctgggcatGattgcactgattcaggtcag	11	9	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:55579077G>C	uc001nhw.1	+	1	135	c.135G>C	c.(133-135)ATG>ATC	p.M45I		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				ACCTGGGCATGATTGCACTGA	0.488													51	250	---	---	---	---	PASS	C	55579077	C	C	55579077	3	2	122	1	0	0	0	0	1	0	0	0	11170	1290	45	2	137	2	OR5L1	11	55579077	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	172936	55579077	79427439	123	45067										
OR5D18	219438	broad.mit.edu	37	chr11	55587917	55587917	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctccaaaaactccaggcacaCagtcaaagtggcctctgtgt	8	13	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:55587917C>A	uc010rin.1	+	1	812	c.812C>A	c.(811-813)ACA>AAA	p.T271K		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	271	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				TCCAGGCACACAGTCAAAGTG	0.507													19	96	---	---	---	---	PASS	A	55587917	A	A	55587917	3	1	122	1	0	0	0	0	1	0	0	0	11157	478	17	3	814	3	OR5D18	11	55587917	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	8840	55587917	79418599	124	45068										
SERPING1	710	broad.mit.edu	37	chr11	57379296	57379296	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ggctctcagcccttctgtttTcaaggccatcatggagaaac	9	12	4	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:57379296T>C	uc001nkp.1	+	7	1327	c.1136T>C	c.(1135-1137)TTC>TCC	p.F379S	SERPING1_uc001nkq.1_Intron|SERPING1_uc010rju.1_Missense_Mutation_p.F327S|SERPING1_uc010rjv.1_Missense_Mutation_p.F384S|SERPING1_uc001nkr.1_Missense_Mutation_p.F379S|SERPING1_uc009ymi.1_Missense_Mutation_p.F388S|SERPING1_uc009ymj.1_Intron|SERPING1_uc001nks.1_Missense_Mutation_p.F70S	NM_000062	NP_000053	P05155	IC1_HUMAN	serpin peptidase inhibitor, clade G, member 1	379					blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1						CCTTCTGTTTTCAAGGCCATC	0.512									Hereditary_Angioedema				5	159	---	---	---	---	PASS	C	57379296	C	C	57379296	3	2	122	1	0	0	0	0	1	0	0	0	14116	1783	62	5	1158	5	SERPING1	11	57379296	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	1791379	57379296	77627220	125	45069										
OR5B12	390191	broad.mit.edu	37	chr11	58207460	58207460	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctgaggaagaagtacatgggGgtgtggagacaggagtccag	18	5	0	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:58207460G>T	uc010rkh.1	-	1	165	c.165C>A	c.(163-165)ACC>ACA	p.T55T		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	55	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AGTACATGGGGGTGTGGAGAC	0.483													10	49	---	---	---	---	PASS	T	58207460	T	T	58207460	2	4	122	1	0	0	0	0	0	0	0	1	11148	1219	43	3		3	OR5B12	11	58207460	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	828164	58207460	76799056	126	45070										
MS4A6E	245802	broad.mit.edu	37	chr11	60107344	60107344	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tttcttgactttcagggaacTctgtctctgatgctggtttc	9	9	4	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:60107344T>A	uc001npd.2	+	3	374	c.360T>A	c.(358-360)ACT>ACA	p.T120T		NM_139249	NP_640342	Q96DS6	M4A6E_HUMAN	membrane-spanning 4-domains, subfamily A, member	120	Extracellular (Potential).					integral to membrane	receptor activity				0						TTCAGGGAACTCTGTCTCTGA	0.478													6	265	---	---	---	---	PASS	A	60107344	A	A	60107344	2	1	122	1	0	0	0	0	0	0	0	1	9865	1538	54	5		5	MS4A6E	11	60107344	Silent	SNP	T	TCGA-60-2709-01A-21D-1817-08	1899884	60107344	74899172	127	45071										
MS4A12	54860	broad.mit.edu	37	chr11	60269474	60269474	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	agtttattatctctggctctCtctctgtgtcagcatccaag	7	11	4	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:60269474C>A	uc001npr.2	+	4	490	c.433C>A	c.(433-435)CTC>ATC	p.L145I		NM_017716	NP_060186	Q9NXJ0	M4A12_HUMAN	membrane-spanning 4-domains, subfamily A, member	145	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						CTCTGGCTCTCTCTCTGTGTC	0.393													8	184	---	---	---	---	PASS	A	60269474	A	A	60269474	3	1	122	1	0	0	0	0	1	0	0	0	9856	913	32	2	443	2	MS4A12	11	60269474	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	162130	60269474	74737042	128	45072										
PCF11	51585	broad.mit.edu	37	chr11	82881007	82881007	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ggcaatatacctgctccaatGacagtaggaaatattcaggc	9	9	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:82881007G>T	uc001ozx.3	+	8	3975	c.3630G>T	c.(3628-3630)ATG>ATT	p.M1210I	PCF11_uc010rsu.1_Missense_Mutation_p.M1341I	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	1210					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						CTGCTCCAATGACAGTAGGAA	0.348													4	24	---	---	---	---	PASS	T	82881007	T	T	82881007	3	4	122	1	0	0	0	0	1	0	0	0	11573	1290	45	2	3660	2	PCF11	11	82881007	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	22611533	82881007	52125509	129	45073										
SYTL2	54843	broad.mit.edu	37	chr11	85445732	85445732	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctgctttgatttctctaactTttggattgaagtatctgcga	8	7	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:85445732T>A	uc010rth.1	-	6	913	c.637A>T	c.(637-639)AAG>TAG	p.K213*	SYTL2_uc010rtg.1_Nonsense_Mutation_p.K214*|SYTL2_uc010rti.1_Nonsense_Mutation_p.K213*|SYTL2_uc010rtj.1_Nonsense_Mutation_p.K165*|SYTL2_uc001pbf.3_Nonsense_Mutation_p.K213*|SYTL2_uc010rtf.1_Nonsense_Mutation_p.K71*	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	213					intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		TTCTCTAACTTTTGGATTGAA	0.373													9	89	---	---	---	---	PASS	A	85445732	A	A	85445732	4	1	122	1	0	0	0	0	0	1	0	0	15480	1850	64	5	4700	5	SYTL2	11	85445732	Nonsense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	2564725	85445732	49560784	130	45074										
PRSS23	11098	broad.mit.edu	37	chr11	86519238	86519238	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	acgatggaaaaacctatgtgAaaggaacccagaagcttcga	10	8	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:86519238A>G	uc001pcb.2	+	2	769	c.553A>G	c.(553-555)AAA>GAA	p.K185E	PRSS23_uc001pcc.1_Intron|PRSS23_uc010rts.1_Missense_Mutation_p.K153E	NM_007173	NP_009104	O95084	PRS23_HUMAN	protease, serine, 23 precursor	185					proteolysis	extracellular region|nucleus	serine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				AACCTATGTGAAAGGAACCCA	0.537													6	64	---	---	---	---	PASS	G	86519238	G	G	86519238	3	3	122	1	0	0	0	0	1	0	0	0	12620	247	9	5	555	5	PRSS23	11	86519238	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	1073506	86519238	48487278	131	45075										
NOX4	50507	broad.mit.edu	37	chr11	89075240	89075240	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aaaatagatcaaaatgacatAcaacagggtgttgagtattg	9	4	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:89075240A>G	uc001pct.2	-	14	1576	c.1337_splice	c.e14+1	p.L446_splice	NOX4_uc009yvr.2_Splice_Site_p.L421_splice|NOX4_uc001pcu.2_Splice_Site_p.L372_splice|NOX4_uc001pcw.2_Splice_Site_p.L139_splice|NOX4_uc001pcx.2_Intron|NOX4_uc001pcv.2_Intron|NOX4_uc009yvo.2_Splice_Site|NOX4_uc010rtu.1_Splice_Site_p.L280_splice|NOX4_uc009yvp.2_Intron|NOX4_uc010rtv.1_Intron|NOX4_uc009yvq.2_Splice_Site_p.L422_splice	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a						cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				AAAATGACATACAACAGGGTG	0.358													5	59	---	---	---	---	PASS	G	89075240	G	G	89075240	5	3	122	1	0	0	0	0	0	0	1	0	10558	405	14	5	417	5	NOX4	11	89075240	Splice_Site	SNP	A	TCGA-60-2709-01A-21D-1817-08	2556002	89075240	45931276	132	45076										
ATM	472	broad.mit.edu	37	chr11	108235917	108235917	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttcaccctactctgaatgcaGatgaccaagaatgcaaacga	7	11	2	4			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:108235917G>T	uc001pkb.1	+	62	9344	c.8959G>T	c.(8959-8961)GAT>TAT	p.D2987Y	ATM_uc009yxr.1_Missense_Mutation_p.D2987Y|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.D1639Y	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2987					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TCTGAATGCAGATGACCAAGA	0.403			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			7	63	---	---	---	---	PASS	T	108235917	T	T	108235917	3	4	122	1	0	0	0	0	1	0	0	0	1109	942	33	2	9201	2	ATM	11	108235917	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	19160677	108235917	26770599	133	45077										
VWA5A	4013	broad.mit.edu	37	chr11	123993736	123993736	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cccagaagatcaaccatcaaAtacctgtggagagtttatct	7	10	3	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:123993736A>T	uc001pzu.2	+	8	1039	c.830A>T	c.(829-831)AAT>ATT	p.N277I	VWA5A_uc001pzr.2_Missense_Mutation_p.N277I|VWA5A_uc001pzs.2_Missense_Mutation_p.N277I|VWA5A_uc010sae.1_Missense_Mutation_p.N293I|VWA5A_uc001pzt.2_Missense_Mutation_p.N277I	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	277										upper_aerodigestive_tract(1)|ovary(1)	2						CAACCATCAAATACCTGTGGA	0.463													4	72	---	---	---	---	PASS	T	123993736	T	T	123993736	3	4	122	1	0	0	0	0	1	0	0	0	17239	101	4	5	852	5	VWA5A	11	123993736	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	15757819	123993736	11012780	134	45078										
HEPACAM	220296	broad.mit.edu	37	chr11	124792701	124792701	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cagggagttttgcttttctaGcttcttctgtttcctgtgaa	9	8	3	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:124792701G>T	uc001qbk.2	-	5	1223	c.817C>A	c.(817-819)CTA>ATA	p.L273I	HEPACAM_uc009zbj.2_5'UTR|HEPACAM_uc001qbl.1_Missense_Mutation_p.L273I	NM_152722	NP_689935	Q14CZ8	HECAM_HUMAN	hepatocyte cell adhesion molecule precursor	273	Cytoplasmic (Potential).				cell adhesion|cell cycle arrest|regulation of growth	cytoplasm|integral to membrane				pancreas(1)	1	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.54e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		TGCTTTTCTAGCTTCTTCTGT	0.483													6	156	---	---	---	---	PASS	T	124792701	T	T	124792701	3	4	122	1	0	0	0	0	1	0	0	0	7052	962	34	3	445	3	HEPACAM	11	124792701	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	798965	124792701	10213815	135	45079										
ST3GAL4	6484	broad.mit.edu	37	chr11	126277527	126277527	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tccatccccaagaacatccaGaggtaaggcggcactccgac	9	15	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:126277527G>C	uc001qds.2	+	6	558	c.339G>C	c.(337-339)CAG>CAC	p.Q113H	ST3GAL4_uc001qdt.2_Missense_Mutation_p.Q109H|ST3GAL4_uc009zcc.2_Intron|ST3GAL4_uc009zcd.2_Missense_Mutation_p.Q102H|ST3GAL4_uc001qdu.2_Missense_Mutation_p.Q109H|ST3GAL4_uc001qdv.2_Missense_Mutation_p.Q113H|ST3GAL4_uc009zce.2_Missense_Mutation_p.Q109H|ST3GAL4_uc001qdw.2_Missense_Mutation_p.Q102H|ST3GAL4_uc001qdx.1_Missense_Mutation_p.Q102H|ST3GAL4_uc001qdy.2_5'UTR|ST3GAL4_uc001qdz.2_5'UTR	NM_006278	NP_006269	Q11206	SIA4C_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	113	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.138)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0767)		AGAACATCCAGAGGTAAGGCG	0.607													24	151	---	---	---	---	PASS	C	126277527	C	C	126277527	3	2	122	1	0	0	0	0	1	0	0	0	15216	933	33	2	345	2	ST3GAL4	11	126277527	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	1484826	126277527	8728989	136	45080										
ARHGAP32	9743	broad.mit.edu	37	chr11	128844054	128844054	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cagaagctacagccttactcTgactgcttgagacagactga	9	11	1	5			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr11:128844054T>C	uc009zcp.2	-	20	2996	c.2996A>G	c.(2995-2997)CAG>CGG	p.Q999R	ARHGAP32_uc009zcq.1_Missense_Mutation_p.Q959R|ARHGAP32_uc009zco.2_5'UTR|ARHGAP32_uc001qez.2_Missense_Mutation_p.Q650R	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	999					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						AGCCTTACTCTGACTGCTTGA	0.478													9	124	---	---	---	---	PASS	C	128844054	C	C	128844054	3	2	122	1	0	0	0	0	1	0	0	0	881	1580	55	5	3279	5	ARHGAP32	11	128844054	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	2566527	128844054	6162462	137	45081										
ATN1	1822	broad.mit.edu	37	chr12	7050104	7050104	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gggtctcaccttacccggatCccctacccagctggaactct	8	17	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:7050104C>T	uc001qrw.1	+	8	3513	c.3276C>T	c.(3274-3276)ATC>ATT	p.I1092I	ATN1_uc001qrx.1_Silent_p.I1092I|C12orf57_uc009zfj.1_5'Flank	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	1092					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						TTACCCGGATCCCCTACCCAG	0.592													10	74	---	---	---	---	PASS	T	7050104	T	T	7050104	2	4	122	1	0	0	0	0	0	0	0	1	1111	845	30	2		2	ATN1	12	7050104	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08		7050104	126801791	138	45082										
AICDA	57379	broad.mit.edu	37	chr12	8757847	8757847	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ggctatttgcaccccggcgcGgtgcagccgccgcagcccct	13	18	0	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:8757847G>C	uc001qur.2	-	3	470	c.391C>G	c.(391-393)CGC>GGC	p.R131G	AICDA_uc001qup.1_Missense_Mutation_p.R126G|AICDA_uc001quq.1_Missense_Mutation_p.R126G|AICDA_uc009zgd.1_Intron	NM_020661	NP_065712	Q9GZX7	AICDA_HUMAN	activation-induced cytidine deaminase	131					B cell differentiation|DNA demethylation|mRNA processing|negative regulation of methylation-dependent chromatin silencing	cytoplasm	cytidine deaminase activity|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung SC(5;0.184)					ACCCCGGCGCGGTGCAGCCGC	0.642									Immune_Deficiency_with_Hyper-IgM				12	36	---	---	---	---	PASS	C	8757847	C	C	8757847	3	2	122	1	0	0	0	0	1	0	0	0	422	1116	39	4	217	4	AICDA	12	8757847	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	1707743	8757847	125094048	139	45083										
GRIN2B	2904	broad.mit.edu	37	chr12	13761674	13761674	+	Missense_Mutation	SNP	C	T	T													0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	catgatcttggaggtggtccCctttgggttctgcacaggta							TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:13761674C>T	uc001rbt.2	-	9	2052	c.1873G>A	c.(1873-1875)GGG>AGG	p.G625R		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	625	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GAGGTGGTCCCCTTTGGGTTC	0.532													19	91	---	---	---	---	PASS	T	13761674	T	T	13761674	3	4	122	1	0	0	0	0	1	0	0	0	6780	623	22	3	2601	3	GRIN2B	12	13761674	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	5003827	13761674	120090221	140	45084	835	2								
GRIN2B	2904	broad.mit.edu	37	chr12	13761675	13761675	+	Silent	SNP	C	T	T													0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atgatcttggaggtggtcccCtttgggttctgcacaggtac							TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:13761675C>T	uc001rbt.2	-	9	2051	c.1872G>A	c.(1870-1872)AAG>AAA	p.K624K		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	624	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AGGTGGTCCCCTTTGGGTTCT	0.532													19	93	---	---	---	---	PASS	T	13761675	T	T	13761675	2	4	122	1	0	0	0	0	0	0	0	1	6780	680	24	3		3	GRIN2B	12	13761675	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	1	13761675	120090220	141	45085	835	2								
SLCO1B3	28234	broad.mit.edu	37	chr12	21032524	21032524	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctatatttccctctaatctgCgaaagcaaatcagttgccgg	7	11	3	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:21032524C>T	uc001rek.2	+	10	1416	c.1290C>T	c.(1288-1290)TGC>TGT	p.C430C	SLCO1B3_uc001rel.2_Silent_p.C430C|SLCO1B3_uc010sil.1_Silent_p.C430C|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Silent_p.C255C	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	430	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					CTCTAATCTGCGAAAGCAAAT	0.299													4	80	---	---	---	---	PASS	T	21032524	T	T	21032524	2	4	122	1	0	0	0	0	0	0	0	1	14724	776	27	1		1	SLCO1B3	12	21032524	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	7270849	21032524	112819371	142	45086										
LRRK2	120892	broad.mit.edu	37	chr12	40704330	40704330	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	catgagtaaaatcaccaaggAactcctgaataagcgagggt	10	8	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:40704330A>G	uc001rmg.3	+	31	4536	c.4415A>G	c.(4414-4416)GAA>GGA	p.E1472G	LRRK2_uc009zjw.2_Missense_Mutation_p.E310G|LRRK2_uc001rmi.2_Missense_Mutation_p.E305G	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1472	Roc.				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)				ATCACCAAGGAACTCCTGAAT	0.473													37	201	---	---	---	---	PASS	G	40704330	G	G	40704330	3	3	122	1	0	0	0	0	1	0	0	0	9033	246	9	5	4537	5	LRRK2	12	40704330	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	19671806	40704330	93147565	143	45087										
KRT1	3848	broad.mit.edu	37	chr12	53074075	53074075	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gttgatgatcccagcagagcCagagctgaagccccctccac	10	15	0	5			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:53074075C>A	uc001sau.1	-	1	117	c.58G>T	c.(58-60)GGC>TGC	p.G20C	KRT1_uc001sav.1_Missense_Mutation_p.G20C	NM_006121	NP_006112	P04264	K2C1_HUMAN	keratin 1	20	Head.|Gly/Phe/Ser-rich.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding			ovary(1)|skin(1)	2						CCAGCAGAGCCAGAGCTGAAG	0.512													17	87	---	---	---	---	PASS	A	53074075	A	A	53074075	3	1	122	1	0	0	0	0	1	0	0	0	8447	594	21	3	1912	3	KRT1	12	53074075	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	12369745	53074075	80777820	144	45088										
ARHGAP9	64333	broad.mit.edu	37	chr12	57872974	57872974	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gggacgaagatgggtcgagaGgtggagggagcttctaggcg	21	5	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:57872974G>A	uc001sod.2	-	5	622	c.429C>T	c.(427-429)ACC>ACT	p.T143T	ARHGAP9_uc001snz.2_5'Flank|ARHGAP9_uc001soa.2_5'Flank|ARHGAP9_uc001sob.2_Silent_p.T72T|ARHGAP9_uc001soc.2_Silent_p.T72T|ARHGAP9_uc001soe.1_Silent_p.T151T|ARHGAP9_uc010sro.1_Silent_p.T72T	NM_032496	NP_115885	Q9BRR9	RHG09_HUMAN	Rho GTPase activating protein 9 isoform 1	72	SH3.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			lung(1)	1			GBM - Glioblastoma multiforme(3;3.37e-34)			TGGGTCGAGAGGTGGAGGGAG	0.562													4	109	---	---	---	---	PASS	A	57872974	A	A	57872974	2	1	122	1	0	0	0	0	0	0	0	1	889	987	35	3		3	ARHGAP9	12	57872974	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	4798899	57872974	75978921	145	45089										
SLC26A10	65012	broad.mit.edu	37	chr12	58014145	58014145	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gcatggcttttgctctcctgGcctccgtgcccccggtgttt	11	15	1	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:58014145G>A	uc001spe.2	+	1	453	c.142G>A	c.(142-144)GCC>ACC	p.A48T	uc001spc.2_5'Flank|SLC26A10_uc001spf.2_RNA	NM_133489	NP_597996	Q8NG04	S2610_HUMAN	solute carrier family 26, member 10	48	Helical; (Potential).					integral to membrane	antiporter activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(17;0.122)					TGCTCTCCTGGCCTCCGTGCC	0.562													106	678	---	---	---	---	PASS	A	58014145	A	A	58014145	3	1	122	1	0	0	0	0	1	0	0	0	14515	1203	42	3	144	3	SLC26A10	12	58014145	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	141171	58014145	75837750	146	45090										
PPFIA2	8499	broad.mit.edu	37	chr12	81839428	81839428	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cctgagggagactgggcttgCcgttttaccaccgtcattct	11	12	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:81839428C>A	uc001szo.1	-	6	638	c.477G>T	c.(475-477)CGG>CGT	p.R159R	PPFIA2_uc010sue.1_Silent_p.R59R|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	85										ovary(3)|lung(2)|pancreas(1)	6						ACTGGGCTTGCCGTTTTACCA	0.428													8	67	---	---	---	---	PASS	A	81839428	A	A	81839428	2	1	122	1	0	0	0	0	0	0	0	1	12310	726	26	3		3	PPFIA2	12	81839428	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	23825283	81839428	52012467	147	45091										
TMTC2	160335	broad.mit.edu	37	chr12	83290168	83290168	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cataccctttgttcctgccaCgaacctgtttttctatgtcg	6	13	1	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:83290168C>G	uc001szt.2	+	3	1658	c.1226C>G	c.(1225-1227)ACG>AGG	p.T409R	TMTC2_uc001szr.1_Missense_Mutation_p.T409R|TMTC2_uc001szs.1_Missense_Mutation_p.T409R|TMTC2_uc010suk.1_Missense_Mutation_p.T164R	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	409	Helical; (Potential).					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						GTTCCTGCCACGAACCTGTTT	0.418													4	183	---	---	---	---	PASS	G	83290168	G	G	83290168	3	3	122	1	0	0	0	0	1	0	0	0	16258	536	19	4	1236	4	TMTC2	12	83290168	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	1450740	83290168	50561727	148	45092										
SLC5A8	160728	broad.mit.edu	37	chr12	101555837	101555837	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	agatatgataaagaataccaGttatccatcagtggagtcct	8	7	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:101555837G>T	uc001thz.3	-	13	1935	c.1545C>A	c.(1543-1545)AAC>AAA	p.N515K		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	515	Extracellular (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						AAGAATACCAGTTATCCATCA	0.378													19	199	---	---	---	---	PASS	T	101555837	T	T	101555837	3	4	122	1	0	0	0	0	1	0	0	0	14671	1020	36	3	299	3	SLC5A8	12	101555837	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	18265669	101555837	32296058	149	45093										
PAH	5053	broad.mit.edu	37	chr12	103237440	103237440	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tcaccttactttctccttggCatcattaaaactctctgcca	3	14	4	0	rs62516103		TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:103237440C>A	uc001tjq.1	-	12	1655	c.1183G>T	c.(1183-1185)GCC>TCC	p.A395S		NM_000277	NP_000268	P00439	PH4H_HUMAN	phenylalanine hydroxylase	395			A -> P (in PKU; haplotype 1).|A -> G (in PKU).		catecholamine biosynthetic process|L-phenylalanine catabolic process|neurotransmitter biosynthetic process	cytosol	phenylalanine 4-monooxygenase activity			ovary(4)	4					Epinephrine(DB00668)|L-Phenylalanine(DB00120)|Levodopa(DB01235)|Norepinephrine(DB00368)|Tetrahydrobiopterin(DB00360)	TTCTCCTTGGCATCATTAAAA	0.542													3	40	---	---	---	---	PASS	A	103237440	A	A	103237440	3	1	122	1	0	0	0	0	1	0	0	0	11394	710	25	3	187	3	PAH	12	103237440	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	1681603	103237440	30614455	150	45094										
STAB2	55576	broad.mit.edu	37	chr12	104031865	104031865	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	acctgggaccaaatcggcacAgttgtacatgccaagaaggc	11	11	0	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:104031865A>T	uc001tjw.2	+	8	967	c.781A>T	c.(781-783)AGT>TGT	p.S261C		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	261	Extracellular (Potential).|EGF-like 4.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						AAATCGGCACAGTTGTACATG	0.493													13	154	---	---	---	---	PASS	T	104031865	T	T	104031865	3	4	122	1	0	0	0	0	1	0	0	0	15237	188	7	5	811	5	STAB2	12	104031865	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	794425	104031865	29820030	151	45095										
UBC	7316	broad.mit.edu	37	chr12	125397618	125397618	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ggtcttgccagtgagtgtctTcacgaagatttgcatcccac	10	11	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:125397618T>C	uc001ugs.3	-	2	1148	c.700A>G	c.(700-702)AAG>GAG	p.K234E	UBC_uc001ugr.2_5'Flank|UBC_uc001ugu.1_Missense_Mutation_p.K234E|UBC_uc001ugt.2_Missense_Mutation_p.K234E|UBC_uc001ugv.2_Intron|UBC_uc001ugw.2_Missense_Mutation_p.K82E	NM_021009	NP_066289	P0CG48	UBC_HUMAN	ubiquitin C	234	Ubiquitin-like 4.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.17e-05)|Epithelial(86;0.000207)|all cancers(50;0.00308)		GTGAGTGTCTTCACGAAGATT	0.512													5	232	---	---	---	---	PASS	C	125397618	C	C	125397618	3	2	122	1	0	0	0	0	1	0	0	0	16839	1792	62	5	1361	5	UBC	12	125397618	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	21365753	125397618	8454277	152	45096										
DHX37	57647	broad.mit.edu	37	chr12	125473469	125473469	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cggggatgtcttaccctccaGttccagctgcacggggggcg	15	13	1	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:125473469G>T	uc001ugy.2	-	1	199	c.100C>A	c.(100-102)CTG>ATG	p.L34M		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	34							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		TTACCCTCCAGTTCCAGCTGC	0.706													4	27	---	---	---	---	PASS	T	125473469	T	T	125473469	3	4	122	1	0	0	0	0	1	0	0	0	4510	1020	36	3	3481	3	DHX37	12	125473469	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	75851	125473469	8378426	153	45097										
TMEM132B	114795	broad.mit.edu	37	chr12	126135332	126135332	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtgtcctcacccagtttgtgGccgagtcacctgacttaggg	12	12	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr12:126135332G>A	uc001uhe.1	+	7	1740	c.1732G>A	c.(1732-1734)GCC>ACC	p.A578T	TMEM132B_uc001uhf.1_Missense_Mutation_p.A90T	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	578	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		CCAGTTTGTGGCCGAGTCACC	0.592													7	64	---	---	---	---	PASS	A	126135332	A	A	126135332	3	1	122	1	0	0	0	0	1	0	0	0	16043	1203	42	3	1758	3	TMEM132B	12	126135332	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	661863	126135332	7716563	154	45098										
POU4F1	5457	broad.mit.edu	37	chr13	79175769	79175769	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tcgccgccgttgaagagctcAggcttgttcattttctcgcg	11	12	3	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr13:79175769A>G	uc001vkv.2	-	2	1275	c.1041T>C	c.(1039-1041)CCT>CCC	p.P347P	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	347					axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		TGAAGAGCTCAGGCTTGTTCA	0.662													3	37	---	---	---	---	PASS	G	79175769	G	G	79175769	2	3	122	1	0	0	0	0	0	0	0	1	12278	175	7	5		5	POU4F1	13	79175769	Silent	SNP	A	TCGA-60-2709-01A-21D-1817-08		79175769	35994109	155	45099										
NALCN	259232	broad.mit.edu	37	chr13	101890232	101890232	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtaaatcccaaacaccatatCttcagaagtgcttccaaatc	4	12	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr13:101890232C>A	uc001vox.1	-	12	1497	c.1308G>T	c.(1306-1308)AAG>AAT	p.K436N	NALCN_uc001voy.2_Missense_Mutation_p.K151N|NALCN_uc001voz.2_Missense_Mutation_p.K436N|NALCN_uc001vpa.2_Missense_Mutation_p.K436N	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	436	Helical; Name=S2 of repeat II; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AACACCATATCTTCAGAAGTG	0.318													12	164	---	---	---	---	PASS	A	101890232	A	A	101890232	3	1	122	1	0	0	0	0	1	0	0	0	10148	912	32	2	4040	2	NALCN	13	101890232	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	22714463	101890232	13279646	156	45100										
KIAA0586	9786	broad.mit.edu	37	chr14	58896152	58896152	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atcccatggtgtcagaaagtGtaagcaaaaggattcttaat	9	6	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr14:58896152G>T	uc001xdv.3	+	2	543	c.270_splice	c.e2+1	p.S90_splice	KIAA0586_uc010trr.1_Splice_Site_p.S90_splice|KIAA0586_uc001xdt.3_Splice_Site_p.S5_splice|KIAA0586_uc001xdu.3_Splice_Site_p.S75_splice|KIAA0586_uc010trs.1_Splice_Site_p.S5_splice|TIMM9_uc010aph.2_5'Flank|TIMM9_uc001xds.2_5'Flank|TIMM9_uc010api.2_5'Flank	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein											ovary(1)	1						GTCAGAAAGTGTAAGCAAAAG	0.313													4	131	---	---	---	---	PASS	T	58896152	T	T	58896152	5	4	122	1	0	0	0	0	0	0	1	0	8186	1391	48	3	277	3	KIAA0586	14	58896152	Splice_Site	SNP	G	TCGA-60-2709-01A-21D-1817-08		58896152	48453388	157	45101										
TLN2	83660	broad.mit.edu	37	chr15	62948154	62948154	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtgttgcagtaaattggctgGatcacagccgaacattcaga	11	8	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr15:62948154G>T	uc002alb.3	+	5	529	c.529G>T	c.(529-531)GAT>TAT	p.D177Y		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	177	FERM.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						AAATTGGCTGGATCACAGCCG	0.378													12	46	---	---	---	---	PASS	T	62948154	T	T	62948154	3	4	122	1	0	0	0	0	1	0	0	0	15945	1174	41	2	547	2	TLN2	15	62948154	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08		62948154	39583238	158	45102										
HERC1	8925	broad.mit.edu	37	chr15	64021766	64021766	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aacatagcagttcatgaagaTgagcaggctgactgttttct	10	7	2	4			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr15:64021766T>C	uc002amp.2	-	15	3099	c.2951A>G	c.(2950-2952)CAT>CGT	p.H984R	HERC1_uc010uil.1_Intron	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	984					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TTCATGAAGATGAGCAGGCTG	0.368													13	146	---	---	---	---	PASS	C	64021766	C	C	64021766	3	2	122	1	0	0	0	0	1	0	0	0	7057	1464	51	5	11890	5	HERC1	15	64021766	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	1073612	64021766	38509626	159	45103										
CILP	8483	broad.mit.edu	37	chr15	65489813	65489813	+	Missense_Mutation	SNP	C	A	A													0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	catgccagatagtcttcagtCcagctcatagggtcatcttc							TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr15:65489813C>A	uc002aon.2	-	9	2992	c.2811G>T	c.(2809-2811)TGG>TGT	p.W937C		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	937					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						AGTCTTCAGTCCAGCTCATAG	0.532													8	122	---	---	---	---	PASS	A	65489813	A	A	65489813	3	1	122	1	0	0	0	0	1	0	0	0	3429	856	30	2	747	2	CILP	15	65489813	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	1468047	65489813	37041579	160	45104	836	2								
CILP	8483	broad.mit.edu	37	chr15	65489814	65489814	+	Missense_Mutation	SNP	C	A	A													0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atgccagatagtcttcagtcCagctcatagggtcatcttcg							TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr15:65489814C>A	uc002aon.2	-	9	2991	c.2810G>T	c.(2809-2811)TGG>TTG	p.W937L		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	937					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						GTCTTCAGTCCAGCTCATAGG	0.532													10	124	---	---	---	---	PASS	A	65489814	A	A	65489814	3	1	122	1	0	0	0	0	1	0	0	0	3429	595	21	3	748	3	CILP	15	65489814	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	1	65489814	37041578	161	45105	836	2								
CD276	80381	broad.mit.edu	37	chr15	73996674	73996674	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctgactggcaacgtgaccacGtcgcagatggccaacgagca	12	13	0	3	rs143706609	byFrequency	TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr15:73996674G>T	uc002avv.1	+	6	1464	c.1230G>T	c.(1228-1230)ACG>ACT	p.T410T	CD276_uc010bjd.1_Silent_p.T264T|CD276_uc002avu.1_Silent_p.T410T|CD276_uc002avw.1_Silent_p.T192T|CD276_uc010ulb.1_Silent_p.T356T|CD276_uc002avx.2_RNA	NM_001024736	NP_001019907	Q5ZPR3	CD276_HUMAN	CD276 antigen isoform a	410	Extracellular (Potential).|Ig-like C2-type 2.				cell proliferation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of T cell proliferation|regulation of immune response|T cell activation	external side of plasma membrane|integral to membrane	receptor binding			skin(1)	1						ACGTGACCACGTCGCAGATGG	0.642											OREG0023265	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	55	---	---	---	---	PASS	T	73996674	T	T	73996674	2	4	122	1	0	0	0	0	0	0	0	1	2992	1132	40	1		1	CD276	15	73996674	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	8506860	73996674	28534718	162	45106										
CCDC33	80125	broad.mit.edu	37	chr15	74565187	74565187	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tccttccctatcccgtccatGatgaactttgacgtgcctcg	7	15	0	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr15:74565187G>T	uc002axo.2	+	7	1108	c.714G>T	c.(712-714)ATG>ATT	p.M238I	CCDC33_uc002axp.2_Missense_Mutation_p.M60I	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	441							protein binding			ovary(3)|skin(2)	5						TCCCGTCCATGATGAACTTTG	0.602													27	87	---	---	---	---	PASS	T	74565187	T	T	74565187	3	4	122	1	0	0	0	0	1	0	0	0	2806	1290	45	2	740	2	CCDC33	15	74565187	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	568513	74565187	27966205	163	45107										
ANPEP	290	broad.mit.edu	37	chr15	90347784	90347784	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	agaagttaaggatggggcccGtcacgttcagggcataatcg	14	8	2	1	rs8179199	by1000genomes	TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr15:90347784G>A	uc002bop.3	-	5	1254	c.962C>T	c.(961-963)ACG>ATG	p.T321M		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	321	Extracellular.|Interaction with HCoV-229E.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	GATGGGGCCCGTCACGTTCAG	0.602													12	119	---	---	---	---	PASS	A	90347784	A	A	90347784	3	1	122	1	0	0	0	0	1	0	0	0	710	1145	40	1	2009	1	ANPEP	15	90347784	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	15782597	90347784	12183608	164	45108										
ASPHD1	253982	broad.mit.edu	37	chr16	29917137	29917137	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gaagatgggcctcgagtggtCttcatcgtggacctctggca	14	10	3	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr16:29917137C>A	uc002dut.2	+	3	1238	c.1092C>A	c.(1090-1092)GTC>GTA	p.V364V	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|ASPHD1_uc002duu.3_RNA|ASPHD1_uc010bzi.2_RNA|KCTD13_uc010vee.1_Intron	NM_181718	NP_859069	Q5U4P2	ASPH1_HUMAN	aspartate beta-hydroxylase domain containing 1	364	Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity				0						CTCGAGTGGTCTTCATCGTGG	0.602													4	71	---	---	---	---	PASS	A	29917137	A	A	29917137	2	1	122	1	0	0	0	0	0	0	0	1	1054	900	32	2		2	ASPHD1	16	29917137	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08		29917137	60437616	165	45109										
MYST1	84148	broad.mit.edu	37	chr16	31141397	31141397	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctggaccataagacactgtaCtttgacgtggagccgttcgt	11	10	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr16:31141397C>T	uc002eay.2	+	7	849	c.831C>T	c.(829-831)TAC>TAT	p.Y277Y	MYST1_uc002eax.2_Silent_p.Y277Y|MYST1_uc002eaz.2_Silent_p.Y119Y|MYST1_uc002eba.2_Silent_p.Y61Y|MYST1_uc002ebb.2_RNA	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	277					histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						AGACACTGTACTTTGACGTGG	0.557													10	308	---	---	---	---	PASS	T	31141397	T	T	31141397	2	4	122	1	0	0	0	0	0	0	0	1	10102	576	20	3		3	MYST1	16	31141397	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	1224260	31141397	59213356	166	45110										
PHKB	5257	broad.mit.edu	37	chr16	47695636	47695636	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atttatattttcaggattgcAgttgtctggctagccaagcc	9	8	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr16:47695636A>G	uc002eev.3	+	23	2255	c.2203A>G	c.(2203-2205)AGT>GGT	p.S735G	PHKB_uc002eeu.3_Missense_Mutation_p.S728G	NM_000293	NP_000284	Q93100	KPBB_HUMAN	phosphorylase kinase, beta isoform a	735					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				TCAGGATTGCAGTTGTCTGGC	0.448													19	85	---	---	---	---	PASS	G	47695636	G	G	47695636	3	3	122	1	0	0	0	0	1	0	0	0	11845	188	7	5	2352	5	PHKB	16	47695636	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	16554239	47695636	42659117	167	45111										
CDH8	1006	broad.mit.edu	37	chr16	61747850	61747850	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atctttgtccatggcgctaaCagtttgaatgacctgaaaca	8	9	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr16:61747850C>G	uc002eog.1	-	10	1801	c.1549G>C	c.(1549-1551)GTT>CTT	p.V517L		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	517	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		ATGGCGCTAACAGTTTGAATG	0.393													11	75	---	---	---	---	PASS	G	61747850	G	G	61747850	3	3	122	1	0	0	0	0	1	0	0	0	3116	478	17	4	862	4	CDH8	16	61747850	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	14052214	61747850	28606903	168	45112										
ZFHX3	463	broad.mit.edu	37	chr16	72828130	72828130	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tttagattaactgaggacatGgaggggctttcaaagtcttc	11	6	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr16:72828130G>A	uc002fck.2	-	9	9124	c.8451C>T	c.(8449-8451)TCC>TCT	p.S2817S	ZFHX3_uc002fcl.2_Silent_p.S1903S	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2817					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CTGAGGACATGGAGGGGCTTT	0.463													4	130	---	---	---	---	PASS	A	72828130	A	A	72828130	2	1	122	1	0	0	0	0	0	0	0	1	17631	1335	47	3		3	ZFHX3	16	72828130	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	11080280	72828130	17526623	169	45113										
MYH8	4626	broad.mit.edu	37	chr17	10315735	10315735	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aagaccccgatgaagtactgCctgggctgcttggtgtccag	13	11	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr17:10315735C>A	uc002gmm.2	-	14	1463	c.1368G>T	c.(1366-1368)AGG>AGT	p.R456S	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	456	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TGAAGTACTGCCTGGGCTGCT	0.483									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				35	206	---	---	---	---	PASS	A	10315735	A	A	10315735	3	1	122	1	0	0	0	0	1	0	0	0	10041	738	26	3	4553	3	MYH8	17	10315735	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08		10315735	70879475	170	45114										
KAT2A	2648	broad.mit.edu	37	chr17	40269416	40269416	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ggggacgcacgggtcaaagaCgaggcgggcgatatactcct	16	10	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr17:40269416C>T	uc002hyx.2	-	10	1687	c.1627G>A	c.(1627-1629)GTC>ATC	p.V543I		NM_021078	NP_066564	Q92830	KAT2A_HUMAN	general control of amino acid synthesis 5-like	543	N-acetyltransferase.				chromatin remodeling|histone deubiquitination|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	H3 histone acetyltransferase activity|histone deacetylase binding|protein binding|transcription coactivator activity			upper_aerodigestive_tract(1)|lung(1)	2						GGGTCAAAGACGAGGCGGGCG	0.637													6	64	---	---	---	---	PASS	T	40269416	T	T	40269416	3	4	122	1	0	0	0	0	1	0	0	0	7981	536	19	1	922	1	KAT2A	17	40269416	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	29953681	40269416	40925794	171	45115										
DCAKD	79877	broad.mit.edu	37	chr17	43111557	43111557	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ccaggccctggcacttacccCggaggaagtacttgaacgtc	11	14	0	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr17:43111557C>A	uc002ihx.2	-	2	570	c.314G>T	c.(313-315)CGG>CTG	p.R105L	DCAKD_uc010daa.1_Missense_Mutation_p.R105L|DCAKD_uc010dab.1_Missense_Mutation_p.R105L|DCAKD_uc002ihy.2_Missense_Mutation_p.R105L	NM_024819	NP_079095	Q8WVC6	DCAKD_HUMAN	dephospho-CoA kinase domain containing	105	DPCK.				coenzyme A biosynthetic process		ATP binding|dephospho-CoA kinase activity				0		Prostate(33;0.155)				GCACTTACCCCGGAGGAAGTA	0.622													15	42	---	---	---	---	PASS	A	43111557	A	A	43111557	3	1	122	1	0	0	0	0	1	0	0	0	4279	652	23	1	393	1	DCAKD	17	43111557	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	2842141	43111557	38083653	172	45116										
FMNL1	752	broad.mit.edu	37	chr17	43321333	43321333	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gcatcccgcgcctgccggagCgcatgaccacactcaccttc	9	19	1	1	rs138140582		TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr17:43321333C>A	uc002iin.2	+	18	2589	c.2389C>A	c.(2389-2391)CGC>AGC	p.R797S	FMNL1_uc002iiq.2_Missense_Mutation_p.R375S|FMNL1_uc010dag.2_RNA	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	797	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						CCTGCCGGAGCGCATGACCAC	0.662													7	101	---	---	---	---	PASS	A	43321333	A	A	43321333	3	1	122	1	0	0	0	0	1	0	0	0	5951	768	27	1	2459	1	FMNL1	17	43321333	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	209776	43321333	37873877	173	45117										
MAP2K6	5608	broad.mit.edu	37	chr17	67515558	67515558	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttcactgtcaccttttatggCgcactgtttcgggaggtagg	12	9	2	0	rs55977235		TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr17:67515558C>T	uc002jij.2	+	5	639	c.351C>T	c.(349-351)GGC>GGT	p.G117G	MAP2K6_uc002jii.2_Silent_p.G117G|MAP2K6_uc002jik.2_Silent_p.G147G	NM_002758	NP_002749	P52564	MP2K6_HUMAN	mitogen-activated protein kinase kinase 6	117	Protein kinase.				activation of MAPK activity|cell cycle arrest|DNA damage induced protein phosphorylation|innate immune response|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of muscle cell differentiation|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|pancreas(1)	5	Breast(10;6.05e-10)					CCTTTTATGGCGCACTGTTTC	0.433													5	212	---	---	---	---	PASS	T	67515558	T	T	67515558	2	4	122	1	0	0	0	0	0	0	0	1	9241	755	27	1		1	MAP2K6	17	67515558	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	24194225	67515558	13679652	174	45118										
ITGB4	3691	broad.mit.edu	37	chr17	73727038	73727038	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cgtggagctgctggaggaggCcttcaatgtgagggcagctc	17	9	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr17:73727038C>A	uc002jpg.2	+	9	1272	c.1085C>A	c.(1084-1086)GCC>GAC	p.A362D	ITGB4_uc002jph.2_Missense_Mutation_p.A362D|ITGB4_uc010dgo.2_Missense_Mutation_p.A362D|ITGB4_uc002jpi.3_Missense_Mutation_p.A362D|ITGB4_uc010dgp.1_Missense_Mutation_p.A362D|ITGB4_uc002jpj.2_Missense_Mutation_p.A362D|ITGB4_uc010wsh.1_5'Flank	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	362	Extracellular (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			CTGGAGGAGGCCTTCAATGTG	0.612													6	101	---	---	---	---	PASS	A	73727038	A	A	73727038	3	1	122	1	0	0	0	0	1	0	0	0	7897	739	26	3	1115	3	ITGB4	17	73727038	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	6211480	73727038	7468172	175	45119										
RPTOR	57521	broad.mit.edu	37	chr17	78867568	78867568	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	agcagcagcgccagcagcacCctgggcagccccgagaatga	13	15	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr17:78867568C>T	uc002jyt.1	+	20	3109	c.2304C>T	c.(2302-2304)ACC>ACT	p.T768T	RPTOR_uc010wug.1_Silent_p.T610T	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	768					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						CCAGCAGCACCCTGGGCAGCC	0.667													12	68	---	---	---	---	PASS	T	78867568	T	T	78867568	2	4	122	1	0	0	0	0	0	0	0	1	13665	610	22	3		3	RPTOR	17	78867568	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	5140530	78867568	2327642	176	45120										
ROCK1	6093	broad.mit.edu	37	chr18	18533574	18533574	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtatttttgaccactttccgGaaagactgatttgcagtgga	10	7	0	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr18:18533574G>A	uc002kte.2	-	32	4967	c.4026C>T	c.(4024-4026)TTC>TTT	p.F1342F		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	1342	Auto-inhibitory.				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)					CCACTTTCCGGAAAGACTGAT	0.358													5	247	---	---	---	---	PASS	A	18533574	A	A	18533574	2	1	122	1	0	0	0	0	0	0	0	1	13517	1165	41	2		2	ROCK1	18	18533574	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08		18533574	59543674	177	45121										
NPC1	4864	broad.mit.edu	37	chr18	21123435	21123435	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttacctaagaaaaatgctacAgtctcagaaaaggatgacag	8	7	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr18:21123435A>T	uc002kum.3	-	14	2503	c.2229T>A	c.(2227-2229)ACT>ACA	p.T743T	NPC1_uc010xaz.1_Silent_p.T476T|NPC1_uc010xba.1_Silent_p.T588T	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	743	SSD.				autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					AAAATGCTACAGTCTCAGAAA	0.488													15	90	---	---	---	---	PASS	T	21123435	T	T	21123435	2	4	122	1	0	0	0	0	0	0	0	1	10570	175	7	5		5	NPC1	18	21123435	Silent	SNP	A	TCGA-60-2709-01A-21D-1817-08	2589861	21123435	56953813	178	45122										
ZNF532	55205	broad.mit.edu	37	chr18	56587032	56587032	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	acgccatccagcagcaaactGtcgtggtgccggcatccagc	11	15	0	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr18:56587032G>C	uc002lho.2	+	4	2060	c.1513G>C	c.(1513-1515)GTC>CTC	p.V505L	ZNF532_uc002lhp.2_Missense_Mutation_p.V503L|ZNF532_uc010xeg.1_Missense_Mutation_p.V503L|ZNF532_uc002lhr.2_Missense_Mutation_p.V503L|ZNF532_uc002lhs.2_Missense_Mutation_p.V503L	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	505					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						GCAGCAAACTGTCGTGGTGCC	0.572													5	49	---	---	---	---	PASS	C	56587032	C	C	56587032	3	2	122	1	0	0	0	0	1	0	0	0	17969	1377	48	4	1515	4	ZNF532	18	56587032	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	35463597	56587032	21490216	179	45123										
AES	166	broad.mit.edu	37	chr19	3055671	3055671	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctggctcttacctcttgggaGaggtagggcaggacctgggc	16	10	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:3055671G>C	uc002lwy.1	-	5	461	c.288C>G	c.(286-288)CTC>CTG	p.L96L	AES_uc002lwx.1_3'UTR|AES_uc002lwz.1_Silent_p.L96L|AES_uc002lxa.1_Silent_p.L40L|AES_uc002lxb.1_Silent_p.L163L|AES_uc002lxc.2_Silent_p.L163L	NM_001130	NP_001121	Q08117	AES_HUMAN	amino-terminal enhancer of split isoform b	96	Gln-rich (Q domain).				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of response to cytokine stimulus|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|response to interleukin-1|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCTTGGGAGAGGTAGGGCA	0.637													4	68	---	---	---	---	PASS	C	3055671	C	C	3055671	2	2	122	1	0	0	0	0	0	0	0	1	352	929	33	2		2	AES	19	3055671	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08		3055671	56073312	180	45124										
TICAM1	148022	broad.mit.edu	37	chr19	4817415	4817415	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtctggtctttgacagagcaGgggtttttgaccggctccag	14	9	2	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:4817415G>A	uc002mbi.2	-	2	1226	c.975C>T	c.(973-975)CCC>CCT	p.P325P		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	325	Pro-rich.				apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB 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|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		TGACAGAGCAGGGGTTTTTGA	0.567													15	88	---	---	---	---	PASS	A	4817415	A	A	4817415	2	1	122	1	0	0	0	0	0	0	0	1	15889	987	35	3		3	TICAM1	19	4817415	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	1761744	4817415	54311568	181	45125										
KIAA1543	57662	broad.mit.edu	37	chr19	7682718	7682718	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttccgggcgctctacacgctGtcgggggagacagaggagct	16	11	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:7682718G>A	uc002mgv.3	+	17	3626	c.3525G>A	c.(3523-3525)CTG>CTA	p.L1175L	KIAA1543_uc002mgu.3_Silent_p.L1202L|KIAA1543_uc002mgw.2_Silent_p.L305L	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	1175	CKK.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						TCTACACGCTGTCGGGGGAGA	0.612													8	30	---	---	---	---	PASS	A	7682718	A	A	7682718	2	1	122	1	0	0	0	0	0	0	0	1	8243	1364	48	3		3	KIAA1543	19	7682718	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	2865303	7682718	51446265	182	45126										
MUC16	94025	broad.mit.edu	37	chr19	9088858	9088858	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	agagagaagtggcagaggttGaaacagtggttgttgctgaa	16	3	0	5			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:9088858G>A	uc002mkp.2	-	1	3161	c.2957C>T	c.(2956-2958)TCA>TTA	p.S986L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	986	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGCAGAGGTTGAAACAGTGGT	0.463													14	331	---	---	---	---	PASS	A	9088858	A	A	9088858	3	1	122	1	0	0	0	0	1	0	0	0	9973	1294	45	2	40902	2	MUC16	19	9088858	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	1406140	9088858	50040125	183	45127										
MUC16	94025	broad.mit.edu	37	chr19	9089167	9089167	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tggccaaggtggtccttactCtggaaacagaagtctcaggt	12	9	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:9089167C>T	uc002mkp.2	-	1	2852	c.2648G>A	c.(2647-2649)AGA>AAA	p.R883K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	883	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTCCTTACTCTGGAAACAGA	0.483													3	38	---	---	---	---	PASS	T	9089167	T	T	9089167	3	4	122	1	0	0	0	0	1	0	0	0	9973	913	32	2	41211	2	MUC16	19	9089167	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	309	9089167	50039816	184	45128										
CYP4F8	11283	broad.mit.edu	37	chr19	15739591	15739591	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gtctatgaccccttccgcttCgacccagaaaacgcccagaa	7	16	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:15739591C>T	uc002nbi.2	+	14	1399	c.1335C>T	c.(1333-1335)TTC>TTT	p.F445F	CYP4F8_uc010xoj.1_Silent_p.F257F	NM_007253	NP_009184	P98187	CP4F8_HUMAN	cytochrome P450, family 4, subfamily F,	445					prostaglandin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	alkane 1-monooxygenase activity|aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			large_intestine(1)	1						CCTTCCGCTTCGACCCAGAAA	0.602													8	83	---	---	---	---	PASS	T	15739591	T	T	15739591	2	4	122	1	0	0	0	0	0	0	0	1	4191	883	31	2		2	CYP4F8	19	15739591	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	6650424	15739591	43389392	185	45129										
OR10H3	26532	broad.mit.edu	37	chr19	15853137	15853137	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aaacttttgcagaaggttctGccctctaagctcctaatggc	8	11	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:15853137G>T	uc010xoq.1	+	1	935	c.935G>T	c.(934-936)TGC>TTC	p.C312F		NM_013938	NP_039226	O60404	O10H3_HUMAN	olfactory receptor, family 10, subfamily H,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGAAGGTTCTGCCCTCTAAGC	0.323													4	113	---	---	---	---	PASS	T	15853137	T	T	15853137	3	4	122	1	0	0	0	0	1	0	0	0	10907	1319	46	3	937	3	OR10H3	19	15853137	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	113546	15853137	43275846	186	45130										
ZNF208	7757	broad.mit.edu	37	chr19	22156774	22156774	+	Silent	SNP	T	A	A													0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	accttatgtttagtaaggatTgagaacttactaaaggcttt							TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:22156774T>A	uc002nqp.2	-	4	1211	c.1062A>T	c.(1060-1062)TCA>TCT	p.S354S	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TAGTAAGGATTGAGAACTTAC	0.398													6	55	---	---	---	---	PASS	A	22156774	A	A	22156774	2	1	122	1	0	0	0	0	0	0	0	1	17763	1799	63	5		5	ZNF208	19	22156774	Silent	SNP	T	TCGA-60-2709-01A-21D-1817-08	6303637	22156774	36972209	187	45131	837	2								
ZNF208	7757	broad.mit.edu	37	chr19	22156775	22156775	+	Missense_Mutation	SNP	G	A	A													0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ccttatgtttagtaaggattGagaacttactaaaggctttg							TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:22156775G>A	uc002nqp.2	-	4	1210	c.1061C>T	c.(1060-1062)TCA>TTA	p.S354L	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				AGTAAGGATTGAGAACTTACT	0.403													6	55	---	---	---	---	PASS	A	22156775	A	A	22156775	3	1	122	1	0	0	0	0	1	0	0	0	17763	1294	45	2	2785	2	ZNF208	19	22156775	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	1	22156775	36972208	188	45132	837	2								
ZNF99	7652	broad.mit.edu	37	chr19	22942420	22942420	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gcatatgttctcaatattatTtcttggaaagaatcttttat	5	5	3	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:22942420T>A	uc010xrh.1	-	4	354	c.354A>T	c.(352-354)GAA>GAT	p.E118D		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)				TCAATATTATTTCTTGGAAAG	0.313													11	53	---	---	---	---	PASS	A	22942420	A	A	22942420	3	1	122	1	0	0	0	0	1	0	0	0	18201	1838	64	5	2774	5	ZNF99	19	22942420	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	785645	22942420	36186563	189	45133										
ZNF536	9745	broad.mit.edu	37	chr19	30936147	30936147	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	caaacgccggggttctgtttGataaggagaagcgggagtac	15	7	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:30936147G>T	uc002nsu.1	+	2	1816	c.1678G>T	c.(1678-1680)GAT>TAT	p.D560Y	ZNF536_uc010edd.1_Missense_Mutation_p.D560Y	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	560					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GGTTCTGTTTGATAAGGAGAA	0.537													6	136	---	---	---	---	PASS	T	30936147	T	T	30936147	3	4	122	1	0	0	0	0	1	0	0	0	17971	1290	45	2	1680	2	ZNF536	19	30936147	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	7993727	30936147	28192836	190	45134										
CEBPG	1054	broad.mit.edu	37	chr19	33870400	33870400	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	agccggttgaaaagcaagcaGaaagcacaagacacactgca	10	10	0	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:33870400G>A	uc002nup.2	+	2	544	c.255G>A	c.(253-255)CAG>CAA	p.Q85Q		NM_001806	NP_001797	P53567	CEBPG_HUMAN	CCAAT/enhancer binding protein gamma	85	Basic motif.				B cell differentiation|enucleate erythrocyte differentiation|liver development|natural killer cell mediated cytotoxicity|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of DNA binding|positive regulation of DNA repair|positive regulation of interferon-gamma biosynthetic process|positive regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter	nucleus	protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding				0	Esophageal squamous(110;0.137)					AAAGCAAGCAGAAAGCACAAG	0.453													6	25	---	---	---	---	PASS	A	33870400	A	A	33870400	2	1	122	1	0	0	0	0	0	0	0	1	3203	933	33	2		2	CEBPG	19	33870400	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	2934253	33870400	25258583	191	45135										
SIPA1L3	23094	broad.mit.edu	37	chr19	38610493	38610493	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cgacagagggttctgtggagGacataagggagatagtgcag	17	5	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:38610493G>C	uc002ohk.2	+	9	3348	c.2839G>C	c.(2839-2841)GAC>CAC	p.D947H		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	947					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TTCTGTGGAGGACATAAGGGA	0.532													8	44	---	---	---	---	PASS	C	38610493	C	C	38610493	3	2	122	1	0	0	0	0	1	0	0	0	14331	1174	41	2	2865	2	SIPA1L3	19	38610493	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	4740093	38610493	20518490	192	45136										
CEACAM6	4680	broad.mit.edu	37	chr19	42265883	42265883	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tctctttcctccagatggccCagatggccccaccatttccc	6	18	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:42265883C>G	uc002orm.2	+	4	859	c.710C>G	c.(709-711)CCA>CGA	p.P237R		NM_002483	NP_002474	P40199	CEAM6_HUMAN	carcinoembryonic antigen-related cell adhesion	237	Ig-like C2-type 2.				cell-cell signaling|signal transduction	anchored to membrane|integral to plasma membrane				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(3;0.00575)|all cancers(3;0.0352)|Epithelial(262;0.0797)		CCAGATGGCCCAGATGGCCCC	0.557													4	136	---	---	---	---	PASS	G	42265883	G	G	42265883	3	3	122	1	0	0	0	0	1	0	0	0	3196	594	21	4	724	4	CEACAM6	19	42265883	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	3655390	42265883	16863100	193	45137										
PSG7	5676	broad.mit.edu	37	chr19	43430857	43430857	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	attgatggtgatgtagggctTgggcagcttcgctgtgtgaa	16	5	0	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:43430857T>A	uc002ovl.3	-	5	823	c.721A>T	c.(721-723)AAG>TAG	p.K241*	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_RNA|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Nonsense_Mutation_p.K119*	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	241	Ig-like C2-type 2.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				ATGTAGGGCTTGGGCAGCTTC	0.468													17	304	---	---	---	---	PASS	A	43430857	A	A	43430857	4	1	122	1	0	0	0	0	0	1	0	0	12660	1821	63	5	550	5	PSG7	19	43430857	Nonsense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	1164974	43430857	15698126	194	45138										
PSG6	5675	broad.mit.edu	37	chr19	43585314	43585314	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgtggacaagtagaagaacaTccttcccctcggaaactttt	8	10	0	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:43585314T>A	uc002ovi.2	-	2	242	c.149A>T	c.(148-150)GAT>GTT	p.D50V	PSG6_uc010xwk.1_Intron|PSG2_uc002ovr.2_Missense_Mutation_p.D50V|PSG2_uc002ovq.3_Missense_Mutation_p.D50V|PSG2_uc010eiq.1_Missense_Mutation_p.D50V|PSG2_uc002ovs.3_Missense_Mutation_p.D50V|PSG2_uc002ovt.3_Missense_Mutation_p.D50V			Q00889	PSG6_HUMAN	SubName: Full=Putative uncharacterized protein PSG6;	50	Ig-like V-type.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				TAGAAGAACATCCTTCCCCTC	0.468													13	249	---	---	---	---	PASS	A	43585314	A	A	43585314	3	1	122	1	0	0	0	0	1	0	0	0	12659	1435	50	5		5	PSG6	19	43585314	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	154457	43585314	15543669	195	45139										
NANOS2	339345	broad.mit.edu	37	chr19	46417622	46417622	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttaagcgggcagtacttgagCgtatgggcctggtcaccggt	15	9	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:46417622C>A	uc002pdu.2	-	1	415	c.330G>T	c.(328-330)ACG>ACT	p.T110T		NM_001029861	NP_001025032	P60321	NANO2_HUMAN	nanos homolog 2	110	Nanos-type.|C2HC 2.				germ-line stem cell maintenance|mRNA catabolic process|multicellular organismal development|negative regulation of meiosis|regulation of translation|spermatogenesis	cytoplasmic mRNA processing body|perinuclear region of cytoplasm	RNA binding|zinc ion binding				0		Ovarian(192;0.0308)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00442)|GBM - Glioblastoma multiforme(486;0.0668)|Epithelial(262;0.231)		AGTACTTGAGCGTATGGGCCT	0.657													6	41	---	---	---	---	PASS	A	46417622	A	A	46417622	2	1	122	1	0	0	0	0	0	0	0	1	10152	755	27	1		1	NANOS2	19	46417622	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	2832308	46417622	12711361	196	45140										
SIGLEC14	100049587	broad.mit.edu	37	chr19	52147135	52147135	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cctatgttaggcagctccagGgtcccagacattgaggtctg	12	11	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:52147135G>T	uc002pxf.3	-	5	1029	c.909C>A	c.(907-909)ACC>ACA	p.T303T		NM_001098612	NP_001092082	Q08ET2	SIG14_HUMAN	sialic acid binding Ig-like lectin 14 precursor	303	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to membrane|plasma membrane	protein binding|sugar binding			ovary(1)	1		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000965)|OV - Ovarian serous cystadenocarcinoma(262;0.0195)		GCAGCTCCAGGGTCCCAGACA	0.592													15	58	---	---	---	---	PASS	T	52147135	T	T	52147135	2	4	122	1	0	0	0	0	0	0	0	1	14309	1219	43	3		3	SIGLEC14	19	52147135	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	5729513	52147135	6981848	197	45141										
HAS1	3036	broad.mit.edu	37	chr19	52220302	52220302	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gaaggctacccagtatcgcaGgctgcttaggaagctgaccc	12	12	0	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:52220302G>T	uc002pxo.1	-	3	882	c.847C>A	c.(847-849)CTG>ATG	p.L283M	HAS1_uc010epc.1_Translation_Start_Site|HAS1_uc010epd.1_Missense_Mutation_p.L248M|HAS1_uc002pxn.1_Missense_Mutation_p.L290M|HAS1_uc002pxp.1_Missense_Mutation_p.L282M	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1	283	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding			ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		CAGTATCGCAGGCTGCTTAGG	0.597													16	94	---	---	---	---	PASS	T	52220302	T	T	52220302	3	4	122	1	0	0	0	0	1	0	0	0	6961	991	35	3	901	3	HAS1	19	52220302	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	73167	52220302	6908681	198	45142										
LILRA6	79168	broad.mit.edu	37	chr19	54744726	54744726	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cctgccatcaggatgttcagGgggtcgctgggggccgacca	16	12	2	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:54744726G>A	uc002qeu.1	-	5	1060	c.936C>T	c.(934-936)CCC>CCT	p.P312P	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Silent_p.P312P|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Silent_p.P312P|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Silent_p.P312P|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Silent_p.P312P|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Silent_p.P312P|LILRA6_uc010yeq.1_Silent_p.P312P|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Silent_p.P173P	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	312	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GGATGTTCAGGGGGTCGCTGG	0.682													14	142	---	---	---	---	PASS	A	54744726	A	A	54744726	2	1	122	1	0	0	0	0	0	0	0	1	8789	1219	43	3		3	LILRA6	19	54744726	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	2524424	54744726	4384257	199	45143										
KIR2DS4	3809	broad.mit.edu	37	chr19	55354355	55354355	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	atagttggccttcacccactGaaccaagctccaaaaccggt	7	14	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:55354355G>A	uc002qhm.1	+	6	743	c.697G>A	c.(697-699)GAA>AAA	p.E233K	KIR2DS4_uc010yfk.1_RNA|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_Intron|KIR2DS4_uc002qhn.1_Intron	NM_012314	NP_036446	P43632	KI2S4_HUMAN	killer cell immunoglobulin-like receptor, two	233	Extracellular (Potential).					integral to plasma membrane	receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		TTCACCCACTGAACCAAGCTC	0.498													6	296	---	---	---	---	PASS	A	55354355	A	A	55354355	3	1	122	1	0	0	0	0	1	0	0	0	8319	1291	45	2	693	2	KIR2DS4	19	55354355	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	609629	55354355	3774628	200	45144										
ZNF304	57343	broad.mit.edu	37	chr19	57868963	57868963	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttagtagctcccaccttgttCaacacaagaaagttcacact	5	12	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr19:57868963C>A	uc010ygw.1	+	3	2114	c.1726C>A	c.(1726-1728)CAA>AAA	p.Q576K	ZNF304_uc010etw.2_Missense_Mutation_p.Q623K|ZNF304_uc010etx.2_Missense_Mutation_p.Q534K	NM_020657	NP_065708	Q9HCX3	ZN304_HUMAN	zinc finger protein 304	576	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0265)		CCACCTTGTTCAACACAAGAA	0.483													3	53	---	---	---	---	PASS	A	57868963	A	A	57868963	3	1	122	1	0	0	0	0	1	0	0	0	17830	827	29	2	1736	2	ZNF304	19	57868963	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	2514608	57868963	1260020	201	45145										
PLCB1	23236	broad.mit.edu	37	chr20	8628584	8628584	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgcaagtcactccagaagggCgtattcctctcaaaaagtaa	8	10	2	1	rs142186851		TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr20:8628584C>T	uc002wnb.2	+	6	505	c.502C>T	c.(502-504)CGT>TGT	p.R168C	PLCB1_uc010zrb.1_Missense_Mutation_p.R67C|PLCB1_uc010gbv.1_Missense_Mutation_p.R168C|PLCB1_uc002wmz.1_Missense_Mutation_p.R168C|PLCB1_uc002wna.2_Missense_Mutation_p.R168C|PLCB1_uc002wnc.1_Missense_Mutation_p.R67C	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	168					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TCCAGAAGGGCGTATTCCTCT	0.323													4	116	---	---	---	---	PASS	T	8628584	T	T	8628584	3	4	122	1	0	0	0	0	1	0	0	0	12027	768	27	1	524	1	PLCB1	20	8628584	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08		8628584	54396936	202	45146										
PTPRT	11122	broad.mit.edu	37	chr20	41306584	41306584	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tggtcgtgtgaggagcactcGgatctcatactcaacatcgg	12	10	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr20:41306584G>A	uc002xkg.2	-	7	1259	c.1075C>T	c.(1075-1077)CGA>TGA	p.R359*	PTPRT_uc010ggj.2_Nonsense_Mutation_p.R359*	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	359	Extracellular (Potential).|Fibronectin type-III 1.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				AGGAGCACTCGGATCTCATAC	0.567													18	104	---	---	---	---	PASS	A	41306584	A	A	41306584	4	1	122	1	0	0	0	0	0	1	0	0	12812	1124	39	1	3411	1	PTPRT	20	41306584	Nonsense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	32678000	41306584	21718936	203	45147										
SFRS15	57466	broad.mit.edu	37	chr21	33067159	33067159	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttctgtgtaagtggttcattTtgtgcctgaaaagaagcttg	11	5	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr21:33067159T>C	uc002ypd.2	-	10	1629	c.1203A>G	c.(1201-1203)CAA>CAG	p.Q401Q	SFRS15_uc002ype.2_Silent_p.Q401Q|SFRS15_uc010glu.2_Silent_p.Q386Q|SFRS15_uc002ypf.1_Silent_p.Q75Q	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	401						nucleus	nucleotide binding|RNA binding				0						GTGGTTCATTTTGTGCCTGAA	0.433													11	56	---	---	---	---	PASS	C	33067159	C	C	33067159	2	2	122	1	0	0	0	0	0	0	0	1	14171	1838	64	5		5	SFRS15	21	33067159	Silent	SNP	T	TCGA-60-2709-01A-21D-1817-08		33067159	15062736	204	45148										
DYRK1A	1859	broad.mit.edu	37	chr21	38862490	38862490	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctttcagtgcatttgaaacgCcactttatgtttcgaaacca	6	10	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr21:38862490C>G	uc002ywk.2	+	6	753	c.678C>G	c.(676-678)CGC>CGG	p.R226R	DYRK1A_uc002ywi.2_Silent_p.R226R|DYRK1A_uc002ywj.2_Silent_p.R217R|DYRK1A_uc002ywl.2_Silent_p.R226R|DYRK1A_uc002ywm.2_Silent_p.R226R|DYRK1A_uc011aei.1_5'UTR	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	226	Protein kinase.				nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						ATTTGAAACGCCACTTTATGT	0.348													3	79	---	---	---	---	PASS	G	38862490	G	G	38862490	2	3	122	1	0	0	0	0	0	0	0	1	4854	726	26	4		4	DYRK1A	21	38862490	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	5795331	38862490	9267405	205	45149										
PCNT	5116	broad.mit.edu	37	chr21	47822383	47822383	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tcagagaacttgaggaagagAacacgagcttgaaggtaagc	13	6	1	4			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr21:47822383A>T	uc002zji.3	+	27	5208	c.5101A>T	c.(5101-5103)AAC>TAC	p.N1701Y	PCNT_uc002zjj.2_Missense_Mutation_p.N1583Y	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	1701	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TGAGGAAGAGAACACGAGCTT	0.493													6	65	---	---	---	---	PASS	T	47822383	T	T	47822383	3	4	122	1	0	0	0	0	1	0	0	0	11590	246	9	5	5207	5	PCNT	21	47822383	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	8959893	47822383	307512	206	45150										
PIWIL3	440822	broad.mit.edu	37	chr22	25115789	25115789	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tgggctcaagccaatcgtgtCatagatgacgttataatgag	11	7	2	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr22:25115789C>T	uc003abd.1	-	20	2875	c.2458G>A	c.(2458-2460)GAC>AAC	p.D820N	PIWIL3_uc011ajx.1_Missense_Mutation_p.D702N|PIWIL3_uc011ajy.1_Missense_Mutation_p.D702N|PIWIL3_uc010gut.1_Missense_Mutation_p.D811N	NM_001008496	NP_001008496	Q7Z3Z3	PIWL3_HUMAN	piwi-like 3	820	Piwi.				cell differentiation|gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatogenesis	cytoplasm	RNA binding			ovary(3)|central_nervous_system(1)	4						CCAATCGTGTCATAGATGACG	0.378													8	63	---	---	---	---	PASS	T	25115789	T	T	25115789	3	4	122	1	0	0	0	0	1	0	0	0	11959	826	29	2	198	2	PIWIL3	22	25115789	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08		25115789	26188777	207	45151										
ISX	91464	broad.mit.edu	37	chr22	35478545	35478545	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aagcggagggttcgtaccacCttcaccactgagcagctgca	11	13	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr22:35478545C>T	uc003anj.2	+	2	1215	c.264C>T	c.(262-264)ACC>ACT	p.T88T	ISX_uc011amg.1_Silent_p.T76T	NM_001008494	NP_001008494	Q2M1V0	ISX_HUMAN	intestine-specific homeobox	88	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)	5						TTCGTACCACCTTCACCACTG	0.562													12	102	---	---	---	---	PASS	T	35478545	T	T	35478545	2	4	122	1	0	0	0	0	0	0	0	1	7865	668	24	3		3	ISX	22	35478545	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	10362756	35478545	15826021	208	45152										
CACNA1I	8911	broad.mit.edu	37	chr22	39994197	39994197	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gctggtgatcctgctgaactGcgtgacacttggcatgtacc	12	11	0	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr22:39994197G>T	uc003ayc.2	+	2	278	c.278G>T	c.(277-279)TGC>TTC	p.C93F	CACNA1I_uc003ayd.2_Missense_Mutation_p.C93F|CACNA1I_uc003aye.2_Missense_Mutation_p.C8F|CACNA1I_uc003ayf.2_Missense_Mutation_p.C8F	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	93	Helical; Name=S1 of repeat I; (Potential).|I.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CTGCTGAACTGCGTGACACTT	0.542													3	16	---	---	---	---	PASS	T	39994197	T	T	39994197	3	4	122	1	0	0	0	0	1	0	0	0	2546	1319	46	3	284	3	CACNA1I	22	39994197	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	4515652	39994197	11310369	209	45153										
IL17REL	400935	broad.mit.edu	37	chr22	50438983	50438983	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	agggtgacatagaggtgctgGgccacgctcaccgcaaagca	14	11	1	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr22:50438983G>T	uc003bje.1	-	6	490	c.258C>A	c.(256-258)GCC>GCA	p.A86A		NM_001001694	NP_001001694	Q6ZVW7	I17EL_HUMAN	interleukin 17 receptor E-like	86										pancreas(1)	1		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		AGAGGTGCTGGGCCACGCTCA	0.652													19	92	---	---	---	---	PASS	T	50438983	T	T	50438983	2	4	122	1	0	0	0	0	0	0	0	1	7644	1219	43	3		3	IL17REL	22	50438983	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	10444786	50438983	865583	210	45154										
MAPK11	5600	broad.mit.edu	37	chr22	50704662	50704662	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ggcaccaactcacgtgttctGaggagatttttgccagaacc	10	11	2	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr22:50704662G>C	uc003bkr.2	-	9	813	c.755C>G	c.(754-756)TCA>TGA	p.S252*	MAPK11_uc010hax.2_Nonsense_Mutation_p.S74*|MAPK11_uc011ars.1_RNA|MAPK11_uc010hay.1_RNA|MAPK11_uc011art.1_3'UTR|MAPK11_uc010haz.2_3'UTR	NM_002751	NP_002742	Q15759	MK11_HUMAN	mitogen-activated protein kinase 11	252	Protein kinase.				activation of MAPK activity|innate immune response|mRNA metabolic process|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of muscle cell differentiation|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|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|nucleoplasm	ATP binding|MAP kinase activity|protein binding			lung(1)|breast(1)	2		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CACGTGTTCTGAGGAGATTTT	0.607													4	11	---	---	---	---	PASS	C	50704662	C	C	50704662	4	2	122	1	0	0	0	0	0	1	0	0	9273	1294	45	2	355	2	MAPK11	22	50704662	Nonsense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	265679	50704662	599904	211	45155										
ARSA	410	broad.mit.edu	37	chr22	51065062	51065062	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cagcgtctcttcaagcagccCcaggtcccctatggctgtca	9	16	3	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr22:51065062C>G	uc003bnb.3	-	5	1058	c.805G>C	c.(805-807)GGG>CGG	p.G269R	ARSA_uc003bna.3_Missense_Mutation_p.G185R|ARSA_uc003bnc.3_Missense_Mutation_p.G269R|ARSA_uc003bnd.3_Missense_Mutation_p.G269R|ARSA_uc003bmz.3_Missense_Mutation_p.G269R|ARSA_uc010hbf.2_3'UTR	NM_001085426	NP_001078895	P15289	ARSA_HUMAN	arylsulfatase A isoform a precursor	269						lysosome	arylsulfatase activity|calcium ion binding|cerebroside-sulfatase activity			pancreas(1)|skin(1)	2		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)	Micafungin(DB01141)	TCAAGCAGCCCCAGGTCCCCT	0.642													4	44	---	---	---	---	PASS	G	51065062	G	G	51065062	3	3	122	1	0	0	0	0	1	0	0	0	987	623	22	4	738	4	ARSA	22	51065062	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	360400	51065062	239504	212	45156										
SHANK3	85358	broad.mit.edu	37	chr22	51117757	51117757	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	caggcctgccgctttgggcaCgtgcagcatctggagcacct	13	14	1	0			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chr22:51117757C>T	uc003bne.1	+	7	786	c.786C>T	c.(784-786)CAC>CAT	p.H262H		NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	262										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		GCTTTGGGCACGTGCAGCATC	0.652													12	35	---	---	---	---	PASS	T	51117757	T	T	51117757	2	4	122	1	0	0	0	0	0	0	0	1	14266	535	19	1		1	SHANK3	22	51117757	Silent	SNP	C	TCGA-60-2709-01A-21D-1817-08	52695	51117757	186809	213	45157										
CSF2RA	1438	broad.mit.edu	37	chrX	1409284	1409284	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	caagactcaggaacccatgtGggatgtcacctggataacct	10	11	2	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chrX:1409284G>A	uc010nct.2	+	8	850	c.528G>A	c.(526-528)GTG>GTA	p.V176V	CSF2RA_uc011mhb.1_Silent_p.V176V|CSF2RA_uc004cpq.2_Silent_p.V176V|CSF2RA_uc004cpn.2_Silent_p.V176V|CSF2RA_uc004cpo.2_Silent_p.V176V|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Silent_p.V43V|CSF2RA_uc004cpp.2_Silent_p.V176V|CSF2RA_uc010ncv.2_Silent_p.V176V|CSF2RA_uc004cpr.2_Silent_p.V176V	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	176	Extracellular (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	GAACCCATGTGGGATGTCACC	0.353													41	263	---	---	---	---	PASS	A	1409284	A	A	1409284	2	1	122	1	0	0	0	0	0	0	0	1	3934	1335	47	3		3	CSF2RA	23	1409284	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08		1409284	153861276	214	45158										
MAGEB2	4113	broad.mit.edu	37	chrX	30236741	30236741	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gctccgtgcccgtgagaaacGccgcaaggcccgagatgaga	14	13	0	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chrX:30236741G>T	uc004dbz.2	+	2	147	c.44G>T	c.(43-45)CGC>CTC	p.R15L		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	15							protein binding			ovary(1)	1						CGTGAGAAACGCCGCAAGGCC	0.542													5	9	---	---	---	---	PASS	T	30236741	T	T	30236741	3	4	122	1	0	0	0	0	1	0	0	0	9176	1087	38	1	46	1	MAGEB2	23	30236741	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	28827457	30236741	125033819	215	45159										
SYTL5	94122	broad.mit.edu	37	chrX	37953630	37953630	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aaagagtcaccgcagaaacaCttctggcacaccttccatag	7	13	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chrX:37953630C>A	uc004ddu.2	+	9	1448	c.914C>A	c.(913-915)ACT>AAT	p.T305N	SYTL5_uc004ddv.2_Missense_Mutation_p.T305N|SYTL5_uc004ddx.2_Missense_Mutation_p.T305N	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	305					intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						CGCAGAAACACTTCTGGCACA	0.423													9	35	---	---	---	---	PASS	A	37953630	A	A	37953630	3	1	122	1	0	0	0	0	1	0	0	0	15483	565	20	3	940	3	SYTL5	23	37953630	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	7716889	37953630	117316930	216	45160										
BRWD3	254065	broad.mit.edu	37	chrX	79945466	79945466	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	aagctaaaactgcttcttacCcaataaatcgaagtaagaca	5	9	1	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chrX:79945466C>A	uc004edt.2	-	32	3991	c.3728G>T	c.(3727-3729)GGG>GTG	p.G1243V	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.G839V|BRWD3_uc004edp.2_Missense_Mutation_p.G1072V|BRWD3_uc004edq.2_Missense_Mutation_p.G839V|BRWD3_uc010nmj.1_Missense_Mutation_p.G839V|BRWD3_uc004edr.2_Missense_Mutation_p.G913V|BRWD3_uc004eds.2_Missense_Mutation_p.G839V|BRWD3_uc004edu.2_Missense_Mutation_p.G913V|BRWD3_uc004edv.2_Missense_Mutation_p.G839V|BRWD3_uc004edw.2_Missense_Mutation_p.G839V|BRWD3_uc004edx.2_Missense_Mutation_p.G839V|BRWD3_uc004edy.2_Missense_Mutation_p.G839V|BRWD3_uc004edz.2_Missense_Mutation_p.G913V|BRWD3_uc004eea.2_Missense_Mutation_p.G913V|BRWD3_uc004eeb.2_Missense_Mutation_p.G839V	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	1243										ovary(4)	4						TGCTTCTTACCCAATAAATCG	0.284													5	26	---	---	---	---	PASS	A	79945466	A	A	79945466	3	1	122	1	0	0	0	0	1	0	0	0	1526	637	22	3	1720	3	BRWD3	23	79945466	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	41991836	79945466	75325094	217	45161										
PCDH11X	27328	broad.mit.edu	37	chrX	91134254	91134254	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	acgaccttcgaggtacctgtGtccgtacacaccagaccggt	10	14	0	1			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chrX:91134254G>T	uc004efk.1	+	2	3860	c.3015G>T	c.(3013-3015)GTG>GTT	p.V1005V	PCDH11X_uc004efl.1_Silent_p.V1005V|PCDH11X_uc004efo.1_Silent_p.V1005V|PCDH11X_uc010nmv.1_Silent_p.V1005V|PCDH11X_uc004efm.1_Silent_p.V1005V|PCDH11X_uc004efn.1_Silent_p.V1005V|PCDH11X_uc004efh.1_Silent_p.V1005V|PCDH11X_uc004efj.1_Silent_p.V1005V	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1005	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						AGGTACCTGTGTCCGTACACA	0.413													33	83	---	---	---	---	PASS	T	91134254	T	T	91134254	2	4	122	1	0	0	0	0	0	0	0	1	11508	1364	48	3		3	PCDH11X	23	91134254	Silent	SNP	G	TCGA-60-2709-01A-21D-1817-08	11188788	91134254	64136306	218	45162										
AMOT	154796	broad.mit.edu	37	chrX	112033995	112033995	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ttctgaaacgttggtgggctGacagttgccctgacgctgtt	13	9	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chrX:112033995G>A	uc004epr.2	-	7	1942	c.1942C>T	c.(1942-1944)CAG>TAG	p.Q648*	AMOT_uc004eps.2_Nonsense_Mutation_p.Q239*	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	648	Potential.				actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						TTGGTGGGCTGACAGTTGCCC	0.512													16	45	---	---	---	---	PASS	A	112033995	A	A	112033995	4	1	122	1	0	0	0	0	0	1	0	0	582	1299	45	2	1332	2	AMOT	23	112033995	Nonsense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	20899741	112033995	43236565	219	45163										
ODZ1	10178	broad.mit.edu	37	chrX	123518273	123518273	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	ctgggttttgtcatttacagAaacagtctgaagttgcccat	9	8	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chrX:123518273A>G	uc004euj.2	-	29	6551	c.6487T>C	c.(6487-6489)TCT>CCT	p.S2163P	ODZ1_uc011muj.1_Missense_Mutation_p.S2169P|ODZ1_uc010nqy.2_Missense_Mutation_p.S2170P	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2163	YD 17.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TCATTTACAGAAACAGTCTGA	0.433													3	89	---	---	---	---	PASS	G	123518273	G	G	123518273	3	3	122	1	0	0	0	0	1	0	0	0	10834	246	9	5	1702	5	ODZ1	23	123518273	Missense_Mutation	SNP	A	TCGA-60-2709-01A-21D-1817-08	11484278	123518273	31752287	220	45164										
TMEM185A	84548	broad.mit.edu	37	chrX	148685677	148685677	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	cagggccagtggatgatcttGtccagtcttaaggcaatgaa	12	8	2	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chrX:148685677G>T	uc011mxq.1	-	5	794	c.483C>A	c.(481-483)GAC>GAA	p.D161E	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|TMEM185A_uc011mxp.1_Missense_Mutation_p.D102E|TMEM185A_uc004fdo.2_Intron|TMEM185A_uc004fdp.3_Missense_Mutation_p.D78E	NM_032508	NP_115897	Q8NFB2	T185A_HUMAN	transmembrane protein 185A	161	Helical; (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					GGATGATCTTGTCCAGTCTTA	0.249													5	74	---	---	---	---	PASS	T	148685677	T	T	148685677	3	4	122	1	0	0	0	0	1	0	0	0	16104	1368	48	3	585	3	TMEM185A	23	148685677	Missense_Mutation	SNP	G	TCGA-60-2709-01A-21D-1817-08	25167404	148685677	6584883	221	45165										
MAGEA8	4107	broad.mit.edu	37	chrX	149013524	149013524	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	tcttcagcaaagcctctgagTgcatgcaggtgatctttggc	11	10	4	2			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chrX:149013524T>C	uc004fdw.1	+	3	693	c.478T>C	c.(478-480)TGC>CGC	p.C160R		NM_005364	NP_005355	P43361	MAGA8_HUMAN	melanoma antigen family A, 8	160	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					AGCCTCTGAGTGCATGCAGGT	0.483													5	67	---	---	---	---	PASS	C	149013524	C	C	149013524	3	2	122	1	0	0	0	0	1	0	0	0	9171	1696	59	5	480	5	MAGEA8	23	149013524	Missense_Mutation	SNP	T	TCGA-60-2709-01A-21D-1817-08	327847	149013524	6257036	222	45166										
VAMP7	6845	broad.mit.edu	37	chrX	155127863	155127863	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0917431192660551	20	0.106385139815893	1.39594890981809	1.6053412462908	1.28427299703264	0.427864573711048	0.801770950033723	0	gttcaagagcacagacagcaCttccatatgccatgaatagc	8	11	1	3			TCGA-60-2709-01A-21D-1817-08	TCGA-60-2709-11A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	4f321c92-ae27-4253-bd8b-4505ba8c7dc4	288537e6-f3c2-47bd-9597-72438bf457a7	g.chrX:155127863C>G	uc004fnr.2	+	4	466	c.292C>G	c.(292-294)CTT>GTT	p.L98V	VAMP7_uc004fnt.2_Missense_Mutation_p.L57V|VAMP7_uc011naa.1_Missense_Mutation_p.L59V|VAMP7_uc011nab.1_5'UTR|VAMP7_uc004fns.2_Missense_Mutation_p.L98V|VAMP7_uc011nac.1_Missense_Mutation_p.L31V	NM_005638	NP_005629	P51809	VAMP7_HUMAN	vesicle-associated membrane protein 7 isoform 1	98	Longin.|Cytoplasmic (Potential).			L -> P (in Ref. 5; BAD96514).	calcium ion-dependent exocytosis|endosome to lysosome transport|eosinophil degranulation|ER to Golgi vesicle-mediated transport|neutrophil degranulation|phagocytosis, engulfment|post-Golgi vesicle-mediated transport|protein transport|vesicle fusion	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|phagocytic vesicle membrane|plasma membrane|SNARE complex|transport vesicle membrane	protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					ACAGACAGCACTTCCATATGC	0.393													13	156	---	---	---	---	PASS	G	155127863	G	G	155127863	3	3	122	1	0	0	0	0	1	0	0	0	17114	565	20	4	302	4	VAMP7	23	155127863	Missense_Mutation	SNP	C	TCGA-60-2709-01A-21D-1817-08	6114339	155127863	142697	223	45167										
MEGF6	1953	broad.mit.edu	37	chr1	3512012	3512012	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	agcccatgtagtagacggttCtagaaagaaagagagaaggg	14	5	1	5			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:3512012C>A	uc001akl.2	-	3	494	c.267_splice	c.e3-1	p.R89_splice		NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor							extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		GTAGACGGTTCTAGAAAGAAA	0.617													19	55	---	---	---	---	PASS	A	3512012	A	A	3512012	5	1	123	1	0	0	0	0	0	0	1	0	9462	927	32	2	4499	2	MEGF6	1	3512012	Splice_Site	SNP	C	TCGA-60-2710-01A-01D-1522-08		3512012	245738609	1	45168										
RERE	473	broad.mit.edu	37	chr1	8684379	8684379	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aaacgcttaccagtttgaagTcttgaatgctacagatgaaa	8	7	1	4			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:8684379T>A	uc001ape.2	-	4	1196	c.386A>T	c.(385-387)GAC>GTC	p.D129V	RERE_uc001apf.2_Missense_Mutation_p.D129V|RERE_uc001aph.1_Missense_Mutation_p.D129V	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	129	BAH.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		CAGTTTGAAGTCTTGAATGCT	0.383													75	168	---	---	---	---	PASS	A	8684379	A	A	8684379	3	1	123	1	0	0	0	0	1	0	0	0	13231	1667	58	5	4398	5	RERE	1	8684379	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	5172367	8684379	240566242	2	45169										
VPS13D	55187	broad.mit.edu	37	chr1	12414036	12414036	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	attttatcttcataggttttGtgtggctataaagaaagaga	9	3	2	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:12414036G>T	uc001atv.2	+	47	9578	c.9437G>T	c.(9436-9438)TGT>TTT	p.C3146F	VPS13D_uc001atw.2_Missense_Mutation_p.C3121F|VPS13D_uc001atx.2_Missense_Mutation_p.C2333F	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3145					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		CATAGGTTTTGTGTGGCTATA	0.313													30	70	---	---	---	---	PASS	T	12414036	T	T	12414036	3	4	123	1	0	0	0	0	1	0	0	0	17189	1377	48	3	9619	3	VPS13D	1	12414036	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	3729657	12414036	236836585	3	45170										
ARHGEF10L	55160	broad.mit.edu	37	chr1	17948358	17948358	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cgtgctttttggcccgagcaGgtggtccggaggcatatcct	14	11	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:17948358G>T	uc001ban.2	+	11	1102	c.943_splice	c.e11-1	p.V315_splice	ARHGEF10L_uc009vpe.1_Splice_Site_p.V276_splice|ARHGEF10L_uc001bao.2_Splice_Site_p.V276_splice|ARHGEF10L_uc001bap.2_Splice_Site_p.V276_splice|ARHGEF10L_uc010ocr.1_Splice_Site_p.V73_splice|ARHGEF10L_uc001baq.2_Splice_Site_p.V81_splice|ARHGEF10L_uc010ocs.1_Splice_Site_p.V93_splice|ARHGEF10L_uc001bar.2_Splice_Site_p.V93_splice	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)						regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		GGCCCGAGCAGGTGGTCCGGA	0.582													41	183	---	---	---	---	PASS	T	17948358	T	T	17948358	5	4	123	1	0	0	0	0	0	0	1	0	895	1014	35	3	980	3	ARHGEF10L	1	17948358	Splice_Site	SNP	G	TCGA-60-2710-01A-01D-1522-08	5534322	17948358	231302263	4	45171										
RHBDL2	54933	broad.mit.edu	37	chr1	39384712	39384712	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tctccaagtatgttcctcggGacttttcgggcagcatccat	9	12	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:39384712G>A	uc001ccu.1	-	2	401	c.173C>T	c.(172-174)TCC>TTC	p.S58F	RHBDL2_uc010oin.1_Missense_Mutation_p.S58F|RHBDL2_uc010oio.1_Missense_Mutation_p.S138F|RHBDL2_uc001ccv.2_Missense_Mutation_p.S58F	NM_017821	NP_060291	Q9NX52	RHBL2_HUMAN	rhomboid protease 2	58					proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity				0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			TGTTCCTCGGGACTTTTCGGG	0.552													72	132	---	---	---	---	PASS	A	39384712	A	A	39384712	3	1	123	1	0	0	0	0	1	0	0	0	13322	1174	41	2	766	2	RHBDL2	1	39384712	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	21436354	39384712	209865909	5	45172										
KIAA0467	23334	broad.mit.edu	37	chr1	43915782	43915782	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ctttcactgcaggttgtgctGaatcagaagttcactgactg	10	9	3	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:43915782G>A	uc001cjk.1	+	56	7860	c.7398G>A	c.(7396-7398)CTG>CTA	p.L2466L	KIAA0467_uc001cjl.1_Silent_p.L454L	NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	3365						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AGGTTGTGCTGAATCAGAAGT	0.542													6	120	---	---	---	---	PASS	A	43915782	A	A	43915782	2	1	123	1	0	0	0	0	0	0	0	1	8178	1277	45	2		2	KIAA0467	1	43915782	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	4531070	43915782	205334839	6	45173										
CC2D1B	200014	broad.mit.edu	37	chr1	52828404	52828404	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	atgtcctcagggccaaactcCataaagagccccatctgaga	8	13	2	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:52828404C>G	uc001ctq.1	-	3	222	c.84G>C	c.(82-84)ATG>ATC	p.M28I	CC2D1B_uc001cts.2_5'Flank	NM_032449	NP_115825	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B	28										ovary(2)	2						GGCCAAACTCCATAAAGAGCC	0.572													52	172	---	---	---	---	PASS	G	52828404	G	G	52828404	3	3	123	1	0	0	0	0	1	0	0	0	2727	594	21	4	2580	4	CC2D1B	1	52828404	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	8912622	52828404	196422217	7	45174										
DAB1	1600	broad.mit.edu	37	chr1	57480937	57480937	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aaactgcccggccacagttgGccagggctgctgagtggcag	15	12	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:57480937G>A	uc001cys.1	-	14	1737	c.1063C>T	c.(1063-1065)CCA>TCA	p.P355S	DAB1_uc001cyt.1_Missense_Mutation_p.P353S|DAB1_uc001cyq.1_Missense_Mutation_p.P353S|DAB1_uc001cyr.1_Missense_Mutation_p.P269S|DAB1_uc009vzw.1_Missense_Mutation_p.P337S|DAB1_uc009vzx.1_Missense_Mutation_p.P355S	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	388					cell differentiation|nervous system development					skin(2)|ovary(1)	3						GCCACAGTTGGCCAGGGCTGC	0.652													47	86	---	---	---	---	PASS	A	57480937	A	A	57480937	3	1	123	1	0	0	0	0	1	0	0	0	4217	1203	42	3	616	3	DAB1	1	57480937	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	4652533	57480937	191769684	8	45175										
CDC7	8317	broad.mit.edu	37	chr1	91989991	91989991	+	Nonstop_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ttttaaagatatgagcttgtGataatggatcttcatttaat	7	3	2	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:91989991G>T	uc001doe.2	+	12	1889	c.1724G>T	c.(1723-1725)TGA>TTA	p.*575L	CDC7_uc001dof.2_Nonstop_Mutation_p.*575L|CDC7_uc010osw.1_Nonstop_Mutation_p.*547L|CDC7_uc009wdc.2_Nonstop_Mutation_p.*575L|CDC7_uc009wdd.2_Nonstop_Mutation_p.*218L	NM_003503	NP_003494	O00311	CDC7_HUMAN	cell division cycle 7	575					cell cycle checkpoint|cell division|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|positive regulation of cell proliferation|regulation of S phase	cytoplasm|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	5		all_lung(203;0.0165)|Lung NSC(277;0.0562)		all cancers(265;0.00108)|Epithelial(280;0.0184)|KIRC - Kidney renal clear cell carcinoma(1967;0.124)		ATGAGCTTGTGATAATGGATC	0.328													29	112	---	---	---	---	PASS	T	91989991	T	T	91989991	4	4	123	1	0	0	0	0	0	0	0	0	3084	1285	45	2	1766	2	CDC7	1	91989991	Nonstop_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	34509054	91989991	157260630	9	45176										
WNT2B	7482	broad.mit.edu	37	chr1	113059863	113059863	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	caggtgattacctgcggcgaCgctatgatggggctgtgcag	16	9	0	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:113059863C>T	uc001ecb.2	+	4	1317	c.802C>T	c.(802-804)CGC>TGC	p.R268C	WNT2B_uc001eca.2_Missense_Mutation_p.R249C|WNT2B_uc009wgg.2_Missense_Mutation_p.R176C	NM_024494	NP_078613	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family,	268					chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity			ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCTGCGGCGACGCTATGATGG	0.607													32	73	---	---	---	---	PASS	T	113059863	T	T	113059863	3	4	123	1	0	0	0	0	1	0	0	0	17384	536	19	1	949	1	WNT2B	1	113059863	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	21069872	113059863	136190758	10	45177										
GDAP2	54834	broad.mit.edu	37	chr1	118424471	118424471	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	acgaaatgtgggatgtacaaAataaacagccttcaaattcc	7	8	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:118424471A>C	uc001ehf.2	-	12	1575	c.1276T>G	c.(1276-1278)TTT>GTT	p.F426V	GDAP2_uc001ehg.2_Missense_Mutation_p.F426V	NM_017686	NP_060156	Q9NXN4	GDAP2_HUMAN	ganglioside induced differentiation associated	426	CRAL-TRIO.									ovary(2)	2		all_cancers(81;0.0156)|all_lung(203;5.81e-05)|Lung NSC(69;0.000446)|all_epithelial(167;0.00295)		Lung(183;0.0583)|LUSC - Lung squamous cell carcinoma(189;0.194)		GGATGTACAAAATAAACAGCC	0.313													30	67	---	---	---	---	PASS	C	118424471	C	C	118424471	3	2	123	1	0	0	0	0	1	0	0	0	6309	14	1	5	274	5	GDAP2	1	118424471	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	5364608	118424471	130826150	11	45178										
LCE3A	353142	broad.mit.edu	37	chr1	152595351	152595351	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gtggccacagctggagctccCgccttgctgaccacttcccc	10	18	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:152595351C>A	uc010pdt.1	-	1	229	c.229G>T	c.(229-231)GGG>TGG	p.G77W		NM_178431	NP_848518	Q5TA76	LCE3A_HUMAN	late cornified envelope 3A	77					keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGGAGCTCCCGCCTTGCTGA	0.557													48	79	---	---	---	---	PASS	A	152595351	A	A	152595351	3	1	123	1	0	0	0	0	1	0	0	0	8669	652	23	1	43	1	LCE3A	1	152595351	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	34170880	152595351	96655270	12	45179										
NUP210L	91181	broad.mit.edu	37	chr1	154033014	154033014	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgggactgtctctagagctcAcctcaacagagctttctgct	9	12	4	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:154033014A>T	uc001fdw.2	-	20	2922	c.2850_splice	c.e20+1	p.E950_splice	NUP210L_uc009woq.2_Intron|NUP210L_uc010peh.1_Splice_Site_p.E950_splice	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1							integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TCTAGAGCTCACCTCAACAGA	0.423													72	137	---	---	---	---	PASS	T	154033014	T	T	154033014	5	4	123	1	0	0	0	0	0	0	1	0	10761	173	6	5	2898	5	NUP210L	1	154033014	Splice_Site	SNP	A	TCGA-60-2710-01A-01D-1522-08	1437663	154033014	95217607	13	45180										
GBA	2629	broad.mit.edu	37	chr1	155209779	155209779	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ggtaccaagggcaggaaaggTcggggggtcaaaggagtcac	18	7	2	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:155209779T>G	uc001fjh.2	-	3	355	c.205A>C	c.(205-207)ACC>CCC	p.T69P	RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Intron|GBA_uc010pfx.1_Missense_Mutation_p.T69P|GBA_uc001fji.2_Missense_Mutation_p.T69P|GBA_uc001fjj.2_Missense_Mutation_p.T69P|GBA_uc001fjk.2_Missense_Mutation_p.T69P|GBA_uc001fjl.2_Missense_Mutation_p.T69P|GBA_uc010pfy.1_5'UTR|GBA_uc009wqk.1_Intron	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor	69					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)	GCAGGAAAGGTCGGGGGGTCA	0.602									Gaucher_disease_type_I				16	32	---	---	---	---	PASS	G	155209779	G	G	155209779	3	3	123	1	0	0	0	0	1	0	0	0	6266	1667	58	5	1441	5	GBA	1	155209779	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	1176765	155209779	94040842	14	45181										
MEF2D	4209	broad.mit.edu	37	chr1	156450724	156450724	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cgagtcctccccgtcgggctCggggctgtcgcagccgttga	15	15	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:156450724C>A	uc001fpc.2	-	4	688	c.298G>T	c.(298-300)GAG>TAG	p.E100*	MEF2D_uc001fpb.2_Nonsense_Mutation_p.E100*|MEF2D_uc001fpd.2_Nonsense_Mutation_p.E100*|MEF2D_uc001fpe.1_Nonsense_Mutation_p.E100*|MEF2D_uc009wsa.2_RNA	NM_005920	NP_005911	Q14814	MEF2D_HUMAN	myocyte enhancer factor 2D	100					apoptosis|muscle organ development|nervous system development|positive regulation of transcription from RNA polymerase II promoter	nucleus	activating transcription factor binding|histone deacetylase binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCGTCGGGCTCGGGGCTGTCG	0.667											OREG0013874	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	48	117	---	---	---	---	PASS	A	156450724	A	A	156450724	4	1	123	1	0	0	0	0	0	1	0	0	9458	893	31	2	1303	2	MEF2D	1	156450724	Nonsense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	1240945	156450724	92799897	15	45182										
METTL13	51603	broad.mit.edu	37	chr1	171753323	171753323	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gtgttggaagcagagcctcaGttctccttgcctgtctttgc	11	11	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:171753323G>T	uc001ghz.2	+	2	944	c.597G>T	c.(595-597)CAG>CAT	p.Q199H	METTL13_uc001gia.2_Missense_Mutation_p.Q113H|METTL13_uc001gib.2_Intron|METTL13_uc010pml.1_Missense_Mutation_p.Q198H	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	199							methyltransferase activity|protein binding			kidney(1)	1						CAGAGCCTCAGTTCTCCTTGC	0.582													55	102	---	---	---	---	PASS	T	171753323	T	T	171753323	3	4	123	1	0	0	0	0	1	0	0	0	9497	1020	36	3	603	3	METTL13	1	171753323	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	15302599	171753323	77497298	16	45183										
PTGS2	5743	broad.mit.edu	37	chr1	186648497	186648497	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aatcctgtccgggtacaatcGcacttatactggtcaaatcc	7	12	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:186648497G>A	uc001gsb.2	-	2	263	c.126C>T	c.(124-126)TGC>TGT	p.C42C	PTGS2_uc009wyo.2_5'UTR	NM_000963	NP_000954	P35354	PGH2_HUMAN	prostaglandin-endoperoxide synthase 2 precursor	42	EGF-like.				cellular component movement|cyclooxygenase pathway|hormone biosynthetic process|positive regulation of brown fat cell differentiation|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of fever generation|positive regulation of fibroblast growth factor production|positive regulation of nitric oxide biosynthetic process|positive regulation of platelet-derived growth factor production|positive regulation of prostaglandin biosynthetic process|positive regulation of transforming growth factor-beta production|positive regulation vascular endothelial growth factor production|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|microsome|neuron projection|nucleus	enzyme binding|heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|central_nervous_system(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Carprofen(DB00821)|Celecoxib(DB00482)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Epoprostenol(DB01240)|Etodolac(DB00749)|Etoricoxib(DB01628)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ginseng(DB01404)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lenalidomide(DB00480)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mesalazine(DB00244)|Nabumetone(DB00461)|Naproxen(DB00788)|Oxaprozin(DB00991)|Phenylbutazone(DB00812)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Thalidomide(DB01041)|Tiaprofenic acid(DB01600)|Tolmetin(DB00500)|Valdecoxib(DB00580)	GGGTACAATCGCACTTATACT	0.438													5	78	---	---	---	---	PASS	A	186648497	A	A	186648497	2	1	123	1	0	0	0	0	0	0	0	1	12756	1079	38	1		1	PTGS2	1	186648497	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	14895174	186648497	62602124	17	45184										
CRB1	23418	broad.mit.edu	37	chr1	197316552	197316552	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tttgttggtcaaaaccttgtCacaataatgctacatgtgag	8	7	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:197316552C>A	uc001gtz.2	+	4	1066	c.931C>A	c.(931-933)CAC>AAC	p.H311N	CRB1_uc010poz.1_Missense_Mutation_p.H242N|CRB1_uc001gty.1_Missense_Mutation_p.H311N|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Intron|CRB1_uc010ppb.1_Missense_Mutation_p.H311N|CRB1_uc010ppc.1_RNA	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	311	Extracellular (Potential).|EGF-like 8.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						AAAACCTTGTCACAATAATGC	0.408													73	138	---	---	---	---	PASS	A	197316552	A	A	197316552	3	1	123	1	0	0	0	0	1	0	0	0	3848	826	29	2	945	2	CRB1	1	197316552	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	10668055	197316552	51934069	18	45185										
IRF6	3664	broad.mit.edu	37	chr1	209964185	209964185	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gttgctcacggtcatggtctGcccgtactccttcccacggt	10	15	3	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:209964185G>A	uc001hhq.1	-	7	978	c.715C>T	c.(715-717)CAG>TAG	p.Q239*	IRF6_uc010psm.1_Nonsense_Mutation_p.Q144*|IRF6_uc009xct.1_Nonsense_Mutation_p.Q239*	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	239					cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		GTCATGGTCTGCCCGTACTCC	0.572										HNSCC(57;0.16)			80	139	---	---	---	---	PASS	A	209964185	A	A	209964185	4	1	123	1	0	0	0	0	0	1	0	0	7834	1328	46	3	700	3	IRF6	1	209964185	Nonsense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	12647633	209964185	39286436	19	45186										
INTS7	25896	broad.mit.edu	37	chr1	212193539	212193539	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tcttcacaaattcatccacaTttagaatcttctccaaatgt	2	11	5	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:212193539T>C	uc001hiw.1	-	3	401	c.296A>G	c.(295-297)AAT>AGT	p.N99S	INTS7_uc009xdb.1_Missense_Mutation_p.N99S|INTS7_uc001hix.1_5'UTR|INTS7_uc001hiy.1_Missense_Mutation_p.N99S|INTS7_uc010pta.1_Intron	NM_015434	NP_056249	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	99					snRNA processing	integrator complex	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		TTCATCCACATTTAGAATCTT	0.338													34	51	---	---	---	---	PASS	C	212193539	C	C	212193539	3	2	123	1	0	0	0	0	1	0	0	0	7783	1493	52	5	2664	5	INTS7	1	212193539	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	2229354	212193539	37057082	20	45187										
RPS6KC1	26750	broad.mit.edu	37	chr1	213414125	213414125	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	acatcaaggaagtgaaaaaaCctacacttgcaaaagttcac	6	9	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:213414125C>T	uc010ptr.1	+	11	1465	c.1306C>T	c.(1306-1308)CCT>TCT	p.P436S	RPS6KC1_uc001hkd.2_Missense_Mutation_p.P424S|RPS6KC1_uc010pts.1_Missense_Mutation_p.P224S|RPS6KC1_uc010ptt.1_Missense_Mutation_p.P224S|RPS6KC1_uc010ptu.1_Missense_Mutation_p.P255S|RPS6KC1_uc010ptv.1_5'UTR|RPS6KC1_uc001hke.2_Missense_Mutation_p.P255S	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	436	Protein kinase 1.				cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		AGTGAAAAAACCTACACTTGC	0.413													90	208	---	---	---	---	PASS	T	213414125	T	T	213414125	3	4	123	1	0	0	0	0	1	0	0	0	13658	507	18	3	1348	3	RPS6KC1	1	213414125	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	1220586	213414125	35836496	21	45188										
OR13G1	441933	broad.mit.edu	37	chr1	247835882	247835882	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	atgataagagctgtgtgcacCcaggaattggtgactgcaat	12	7	0	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr1:247835882C>A	uc001idi.1	-	1	462	c.462G>T	c.(460-462)TGG>TGT	p.W154C		NM_001005487	NP_001005487	Q8NGZ3	O13G1_HUMAN	olfactory receptor, family 13, subfamily G,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			CTGTGTGCACCCAGGAATTGG	0.473													32	77	---	---	---	---	PASS	A	247835882	A	A	247835882	3	1	123	1	0	0	0	0	1	0	0	0	10942	624	22	3	465	3	OR13G1	1	247835882	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	34421757	247835882	1414739	22	45189										
COLEC11	78989	broad.mit.edu	37	chr2	3652013	3652013	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	atctggacatcctcagccggCtggcgatgacgcctgctctg	12	14	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:3652013C>A	uc002qya.2	+	2	231	c.83C>A	c.(82-84)GCT>GAT	p.A28D	COLEC11_uc002qxz.2_Translation_Start_Site|COLEC11_uc002qyb.2_Missense_Mutation_p.A28D|COLEC11_uc002qyc.2_Missense_Mutation_p.A28D|COLEC11_uc010ewo.2_Missense_Mutation_p.A28D|COLEC11_uc010ewp.2_5'Flank|COLEC11_uc010ewq.2_5'Flank|COLEC11_uc010ewr.2_5'Flank|COLEC11_uc010ews.2_5'Flank	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	28						collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		CCTCAGCCGGCTGGCGATGAC	0.647													45	130	---	---	---	---	PASS	A	3652013	A	A	3652013	3	1	123	1	0	0	0	0	1	0	0	0	3711	797	28	3	85	3	COLEC11	2	3652013	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08		3652013	239547360	23	45190										
NBAS	51594	broad.mit.edu	37	chr2	15607790	15607790	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cagtaacaactcatttacttGgaaaagttcactaatttcag	5	8	3	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:15607790G>A	uc002rcc.1	-	18	2042	c.2016C>T	c.(2014-2016)TCC>TCT	p.S672S	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	672										ovary(2)|liver(1)|skin(1)	4						TCATTTACTTGGAAAAGTTCA	0.328													19	48	---	---	---	---	PASS	A	15607790	A	A	15607790	2	1	123	1	0	0	0	0	0	0	0	1	10186	1335	47	3		3	NBAS	2	15607790	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	11955777	15607790	227591583	24	45191										
PPM1B	5495	broad.mit.edu	37	chr2	44428979	44428979	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	caagtgtgttgatggcaaggGcccaacagaacaacttgttt	11	8	0	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:44428979G>T	uc002rtt.2	+	2	1069	c.641G>T	c.(640-642)GGC>GTC	p.G214V	PPM1B_uc002rts.2_Missense_Mutation_p.G214V|PPM1B_uc002rtu.2_Missense_Mutation_p.G214V|PPM1B_uc002rtv.2_Intron|PPM1B_uc002rtw.2_Missense_Mutation_p.G214V|PPM1B_uc002rtx.2_Missense_Mutation_p.G214V	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	214					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GATGGCAAGGGCCCAACAGAA	0.438													37	77	---	---	---	---	PASS	T	44428979	T	T	44428979	3	4	123	1	0	0	0	0	1	0	0	0	12336	1203	42	3	643	3	PPM1B	2	44428979	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	28821189	44428979	198770394	25	45192										
TTC7A	57217	broad.mit.edu	37	chr2	47300936	47300936	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	acgtgccacgaggcgtggcaGggcctgggcgaggtgctgca	19	11	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:47300936G>C	uc002rvo.2	+	20	2819	c.2451G>C	c.(2449-2451)CAG>CAC	p.Q817H	TTC7A_uc002rvm.2_Missense_Mutation_p.Q783H|TTC7A_uc010fbb.2_Missense_Mutation_p.Q841H|TTC7A_uc010fbc.2_Missense_Mutation_p.Q463H|TTC7A_uc002rvp.2_Missense_Mutation_p.Q698H|C2orf61_uc010fbd.2_Intron|TTC7A_uc002rvq.2_Missense_Mutation_p.Q557H|TTC7A_uc002rvr.2_Missense_Mutation_p.Q266H	NM_020458	NP_065191	Q9ULT0	TTC7A_HUMAN	tetratricopeptide repeat domain 7A	817	TPR 9.						binding			breast(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)			AGGCGTGGCAGGGCCTGGGCG	0.662													45	60	---	---	---	---	PASS	C	47300936	C	C	47300936	3	2	123	1	0	0	0	0	1	0	0	0	16709	991	35	4	2529	4	TTC7A	2	47300936	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	2871957	47300936	195898437	26	45193										
AFTPH	54812	broad.mit.edu	37	chr2	64779427	64779427	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	attaatagagtcaatgaactGaattctgtaaaagaagtggc	9	4	2	4			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:64779427G>T	uc002sdc.2	+	1	851	c.819G>T	c.(817-819)CTG>CTT	p.L273L	AFTPH_uc002scz.2_Silent_p.L273L|AFTPH_uc002sda.2_Silent_p.L273L|AFTPH_uc002sdb.2_Silent_p.L273L	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	273					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						TCAATGAACTGAATTCTGTAA	0.348													46	77	---	---	---	---	PASS	T	64779427	T	T	64779427	2	4	123	1	0	0	0	0	0	0	0	1	364	1277	45	2		2	AFTPH	2	64779427	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	17478491	64779427	178419946	27	45194										
SEMA4C	54910	broad.mit.edu	37	chr2	97526534	97526534	+	Silent	SNP	G	A	A													0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gagttccgcccaccccccagGtgaagccgagttggagaagg							TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:97526534G>A	uc002sxh.3	-	15	2491	c.2331C>T	c.(2329-2331)CAC>CAT	p.H777H	ANKRD39_uc002sxd.3_5'Flank|SEMA4C_uc002sxf.3_Silent_p.H277H|SEMA4C_uc002sxe.2_Silent_p.H318H|SEMA4C_uc002sxg.3_Silent_p.H830H	NM_017789	NP_060259	Q9C0C4	SEM4C_HUMAN	semaphorin 4C precursor	777	Cytoplasmic (Potential).				muscle cell differentiation|nervous system development|positive regulation of stress-activated MAPK cascade	cell junction|integral to membrane|postsynaptic density|postsynaptic membrane|synaptic vesicle membrane	receptor activity			skin(2)	2						CACCCCCCAGGTGAAGCCGAG	0.677													48	145	---	---	---	---	PASS	A	97526534	A	A	97526534	2	1	123	1	0	0	0	0	0	0	0	1	14033	1252	44	3		3	SEMA4C	2	97526534	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	32747107	97526534	145672839	28	45195	838	2								
SEMA4C	54910	broad.mit.edu	37	chr2	97526535	97526535	+	Missense_Mutation	SNP	T	A	A													0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	agttccgcccaccccccaggTgaagccgagttggagaaggc							TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:97526535T>A	uc002sxh.3	-	15	2490	c.2330A>T	c.(2329-2331)CAC>CTC	p.H777L	ANKRD39_uc002sxd.3_5'Flank|SEMA4C_uc002sxf.3_Missense_Mutation_p.H277L|SEMA4C_uc002sxe.2_Missense_Mutation_p.H318L|SEMA4C_uc002sxg.3_Missense_Mutation_p.H830L	NM_017789	NP_060259	Q9C0C4	SEM4C_HUMAN	semaphorin 4C precursor	777	Cytoplasmic (Potential).				muscle cell differentiation|nervous system development|positive regulation of stress-activated MAPK cascade	cell junction|integral to membrane|postsynaptic density|postsynaptic membrane|synaptic vesicle membrane	receptor activity			skin(2)	2						ACCCCCCAGGTGAAGCCGAGT	0.672													49	137	---	---	---	---	PASS	A	97526535	A	A	97526535	3	1	123	1	0	0	0	0	1	0	0	0	14033	1696	59	5	175	5	SEMA4C	2	97526535	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	1	97526535	145672838	29	45196	838	2								
BUB1	699	broad.mit.edu	37	chr2	111411055	111411055	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gcaccaccatgttttcctcaCaagaatccaaagtcgcctgg	7	14	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:111411055C>A	uc002tgc.2	-	17	2034	c.1922G>T	c.(1921-1923)TGT>TTT	p.C641F	BUB1_uc010yxh.1_Missense_Mutation_p.C621F|BUB1_uc010fkb.2_Missense_Mutation_p.C641F	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	641					apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		GTTTTCCTCACAAGAATCCAA	0.383													40	86	---	---	---	---	PASS	A	111411055	A	A	111411055	3	1	123	1	0	0	0	0	1	0	0	0	1570	478	17	3	1371	3	BUB1	2	111411055	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	13884520	111411055	131788318	30	45197										
DPP10	57628	broad.mit.edu	37	chr2	116593753	116593753	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ggttatggtggctatattgcAtcaatgatcttaaaatcaga	9	5	3	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:116593753A>T	uc002tla.1	+	22	2428	c.1971A>T	c.(1969-1971)GCA>GCT	p.A657A	DPP10_uc002tlb.1_Silent_p.A607A|DPP10_uc002tlc.1_Silent_p.A653A|DPP10_uc002tle.2_Silent_p.A661A|DPP10_uc002tlf.1_Silent_p.A650A	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	657	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						GCTATATTGCATCAATGATCT	0.269													22	36	---	---	---	---	PASS	T	116593753	T	T	116593753	2	4	123	1	0	0	0	0	0	0	0	1	4727	204	8	5		5	DPP10	2	116593753	Silent	SNP	A	TCGA-60-2710-01A-01D-1522-08	5182698	116593753	126605620	31	45198										
RALB	5899	broad.mit.edu	37	chr2	121043651	121043651	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aatcctttacagcaactgccGaattcaggtatgtctgaaat	7	9	2	1	rs139389446		TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:121043651G>A	uc002tmk.2	+	3	506	c.316G>A	c.(316-318)GAA>AAA	p.E106K	RALB_uc010yys.1_Missense_Mutation_p.E128K|RALB_uc002tml.2_Missense_Mutation_p.E127K|RALB_uc002tmm.2_RNA|RALB_uc010yyt.1_Intron	NM_002881	NP_002872	P11234	RALB_HUMAN	v-ral simian leukemia viral oncogene homolog B	106					apoptosis|cell cycle|cytokinesis|nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of exocyst assembly|regulation of exocyst localization	cytosol|midbody|plasma membrane	GTP binding|GTPase activity|protein binding			lung(3)	3		Prostate(154;0.122)				AGCAACTGCCGAATTCAGGTA	0.443													5	110	---	---	---	---	PASS	A	121043651	A	A	121043651	3	1	123	1	0	0	0	0	1	0	0	0	13011	1059	37	2	322	2	RALB	2	121043651	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	4449898	121043651	122155722	32	45199										
LRP1B	53353	broad.mit.edu	37	chr2	141055406	141055406	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	atctgtctccggtgtattccGgctggcagtggcagtaaggc	14	10	2	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:141055406G>T	uc002tvj.1	-	84	13910	c.12938C>A	c.(12937-12939)CCG>CAG	p.P4313Q		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4313	Extracellular (Potential).|EGF-like 12.				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)		GGTGTATTCCGGCTGGCAGTG	0.448										TSP Lung(27;0.18)			127	315	---	---	---	---	PASS	T	141055406	T	T	141055406	3	4	123	1	0	0	0	0	1	0	0	0	8955	1116	39	1	893	1	LRP1B	2	141055406	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	20011755	141055406	102143967	33	45200										
FIGN	55137	broad.mit.edu	37	chr2	164467190	164467190	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aatttcctttgctgttcagaGgacattagctgcttcgttgg	10	8	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:164467190G>A	uc002uck.1	-	3	1463	c.1152C>T	c.(1150-1152)TCC>TCT	p.S384S		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	384						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						GCTGTTCAGAGGACATTAGCT	0.458													41	89	---	---	---	---	PASS	A	164467190	A	A	164467190	2	1	123	1	0	0	0	0	0	0	0	1	5891	987	35	3		3	FIGN	2	164467190	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	23411784	164467190	78732183	34	45201										
LRP2	4036	broad.mit.edu	37	chr2	170094609	170094609	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aaatgtacttaccactcttcTgtccgttccattttgaaacg	5	11	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:170094609T>C	uc002ues.2	-	27	4711	c.4498A>G	c.(4498-4500)AGA>GGA	p.R1500G		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1500	LDL-receptor class B 10.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ACCACTCTTCTGTCCGTTCCA	0.438													32	84	---	---	---	---	PASS	C	170094609	C	C	170094609	3	2	123	1	0	0	0	0	1	0	0	0	8956	1588	55	5	9681	5	LRP2	2	170094609	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	5627419	170094609	73104764	35	45202										
ZNF804A	91752	broad.mit.edu	37	chr2	185801543	185801543	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ctaaagtaaataataatctaGataaaaataagccagactta	4	5	1	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:185801543G>A	uc002uph.2	+	4	2014	c.1420G>A	c.(1420-1422)GAT>AAT	p.D474N		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	474						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TAATAATCTAGATAAAAATAA	0.343													59	139	---	---	---	---	PASS	A	185801543	A	A	185801543	3	1	123	1	0	0	0	0	1	0	0	0	18167	942	33	2	1434	2	ZNF804A	2	185801543	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	15706934	185801543	57397830	36	45203										
ZNF804A	91752	broad.mit.edu	37	chr2	185803089	185803089	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aaagatgaatgagacaccaaCtgagtggctgcgttataatt	10	6	0	4			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:185803089C>A	uc002uph.2	+	4	3560	c.2966C>A	c.(2965-2967)ACT>AAT	p.T989N		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	989						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						GAGACACCAACTGAGTGGCTG	0.413													59	127	---	---	---	---	PASS	A	185803089	A	A	185803089	3	1	123	1	0	0	0	0	1	0	0	0	18167	565	20	3	2980	3	ZNF804A	2	185803089	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	1546	185803089	57396284	37	45204										
ERBB4	2066	broad.mit.edu	37	chr2	212285214	212285214	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gtatagatgggaggtgggatGttgaaagcctgagggaccaa	17	4	0	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:212285214G>A	uc002veg.1	-	25	3185	c.3087C>T	c.(3085-3087)AAC>AAT	p.N1029N	ERBB4_uc002veh.1_Silent_p.N1029N|ERBB4_uc010zji.1_Silent_p.N1019N|ERBB4_uc010zjj.1_Silent_p.N1019N	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1029	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		GAGGTGGGATGTTGAAAGCCT	0.383										TSP Lung(8;0.080)			19	71	---	---	---	---	PASS	A	212285214	A	A	212285214	2	1	123	1	0	0	0	0	0	0	0	1	5209	1368	48	3		3	ERBB4	2	212285214	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	26482125	212285214	30914159	38	45205										
COL4A4	1286	broad.mit.edu	37	chr2	227876905	227876905	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ctgaaactctacctggtcctCcagggtagccgtcttctcct	8	15	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:227876905C>A	uc010zlt.1	-	44	4979	c.4325G>T	c.(4324-4326)GGA>GTA	p.G1442V		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1442	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		ACCTGGTCCTCCAGGGTAGCC	0.542													29	52	---	---	---	---	PASS	A	227876905	A	A	227876905	3	1	123	1	0	0	0	0	1	0	0	0	3693	855	30	2	763	2	COL4A4	2	227876905	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	15591691	227876905	15322468	39	45206										
CCL20	6364	broad.mit.edu	37	chr2	228678678	228678678	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gctttgatgtcagtgctgctActccacctctgcggcgaatc	10	13	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:228678678A>C	uc002vpl.2	+	1	121	c.51A>C	c.(49-51)CTA>CTC	p.L17L	CCL20_uc002vpm.2_Silent_p.L17L	NM_004591	NP_004582	P78556	CCL20_HUMAN	chemokine (C-C motif) ligand 20 isoform 1	17					cell-cell signaling|chemotaxis|defense response to bacterium|immune response|inflammatory response|signal transduction	extracellular space	chemokine activity				0		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;7.3e-11)|all cancers(144;4.13e-08)|Lung(261;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0115)		CAGTGCTGCTACTCCACCTCT	0.468													67	158	---	---	---	---	PASS	C	228678678	C	C	228678678	2	2	123	1	0	0	0	0	0	0	0	1	2892	378	14	5		5	CCL20	2	228678678	Silent	SNP	A	TCGA-60-2710-01A-01D-1522-08	801773	228678678	14520695	40	45207										
TRPM8	79054	broad.mit.edu	37	chr2	234858695	234858695	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tggtggaggtggaggatgccCtgacatcttctgccgtcaag	15	9	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr2:234858695C>A	uc002vvh.2	+	9	1085	c.1045C>A	c.(1045-1047)CTG>ATG	p.L349M	TRPM8_uc010fyj.2_Missense_Mutation_p.L37M	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	349	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	GGAGGATGCCCTGACATCTTC	0.542													22	55	---	---	---	---	PASS	A	234858695	A	A	234858695	3	1	123	1	0	0	0	0	1	0	0	0	16589	680	24	3	1075	3	TRPM8	2	234858695	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	6180017	234858695	8340678	41	45208										
TTC21A	199223	broad.mit.edu	37	chr3	39169890	39169890	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	accccgcctccgtggatgccCatctcctcatgtgtcagatc	8	17	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:39169890C>T	uc003cjc.2	+	13	1789	c.1612C>T	c.(1612-1614)CAT>TAT	p.H538Y	TTC21A_uc003cje.2_Missense_Mutation_p.H539Y|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Missense_Mutation_p.H490Y	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	538							binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		CGTGGATGCCCATCTCCTCAT	0.552													51	46	---	---	---	---	PASS	T	39169890	T	T	39169890	3	4	123	1	0	0	0	0	1	0	0	0	16684	594	21	3	1665	3	TTC21A	3	39169890	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08		39169890	158852540	42	45209										
EIF4E3	317649	broad.mit.edu	37	chr3	71745664	71745664	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gccaccctttgcattactctCctcttccctgggccaaagac	6	17	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:71745664C>A	uc003dov.3	-	4	360	c.352G>T	c.(352-354)GAG>TAG	p.E118*	EIF4E3_uc011bgc.1_Nonsense_Mutation_p.E12*|EIF4E3_uc003dox.2_Nonsense_Mutation_p.E12*|EIF4E3_uc011bgd.1_Nonsense_Mutation_p.E12*|EIF4E3_uc010hoc.2_Nonsense_Mutation_p.E12*	NM_001134651	NP_001128123	Q8N5X7	IF4E3_HUMAN	eukaryotic translation initiation factor 4E	118					regulation of translation	cytoplasm|mRNA cap binding complex	translation initiation factor activity				0		Prostate(10;0.0166)		BRCA - Breast invasive adenocarcinoma(55;2.56e-05)|Epithelial(33;2.9e-05)|Lung(16;9.28e-05)|LUSC - Lung squamous cell carcinoma(21;0.00227)		GCATTACTCTCCTCTTCCCTG	0.438													63	48	---	---	---	---	PASS	A	71745664	A	A	71745664	4	1	123	1	0	0	0	0	0	1	0	0	5031	864	30	2	338	2	EIF4E3	3	71745664	Nonsense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	32575774	71745664	126276766	43	45210										
C3orf38	285237	broad.mit.edu	37	chr3	88205447	88205447	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tttttctcagccccaacctaGattcacatggactgaaatgt	6	11	2	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:88205447G>T	uc003dqw.2	+	4	963	c.652G>T	c.(652-654)GAT>TAT	p.D218Y		NM_173824	NP_776185	Q5JPI3	CC038_HUMAN	hypothetical protein LOC285237	218					apoptosis						0		Lung NSC(201;0.17)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		CCCCAACCTAGATTCACATGG	0.433													79	86	---	---	---	---	PASS	T	88205447	T	T	88205447	3	4	123	1	0	0	0	0	1	0	0	0	2228	942	33	2	662	2	C3orf38	3	88205447	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	16459783	88205447	109816983	44	45211										
EPHA3	2042	broad.mit.edu	37	chr3	89480438	89480438	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tcttgatcaacagtaacttgGtgtgtaaggtttctgatttc	9	6	3	2	rs146856660		TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:89480438G>T	uc003dqy.2	+	13	2500	c.2275G>T	c.(2275-2277)GTG>TTG	p.V759L	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	759	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		CAGTAACTTGGTGTGTAAGGT	0.458										TSP Lung(6;0.00050)			26	30	---	---	---	---	PASS	T	89480438	T	T	89480438	3	4	123	1	0	0	0	0	1	0	0	0	5168	1261	44	3	2351	3	EPHA3	3	89480438	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	1274991	89480438	108541992	45	45212										
EPHA6	285220	broad.mit.edu	37	chr3	96706702	96706702	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cctcctctttggttgaagtaCggggttcttgtgtgaagagt	13	7	2	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:96706702C>T	uc010how.1	+	3	1022	c.979C>T	c.(979-981)CGG>TGG	p.R327W	EPHA6_uc003drp.1_Missense_Mutation_p.R327W	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	232	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						GGTTGAAGTACGGGGTTCTTG	0.478													89	528	---	---	---	---	PASS	T	96706702	T	T	96706702	3	4	123	1	0	0	0	0	1	0	0	0	5171	527	19	1	989	1	EPHA6	3	96706702	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	7226264	96706702	101315728	46	45213										
IMPG2	50939	broad.mit.edu	37	chr3	100961722	100961722	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	atttctaagttctggaacccCgtgagatttgactggagata	10	7	2	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:100961722C>A	uc003duq.1	-	14	3035	c.2832G>T	c.(2830-2832)ACG>ACT	p.T944T	IMPG2_uc011bhe.1_Silent_p.T807T	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	944	Extracellular (Potential).|SEA 2.				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						TCTGGAACCCCGTGAGATTTG	0.408													163	114	---	---	---	---	PASS	A	100961722	A	A	100961722	2	1	123	1	0	0	0	0	0	0	0	1	7729	639	23	1		1	IMPG2	3	100961722	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08	4255020	100961722	97060708	47	45214										
ABHD10	55347	broad.mit.edu	37	chr3	111705116	111705116	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ttcccctttttccaggtttgAttactcaggagttggaagtt	9	8	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:111705116A>T	uc003dyk.3	+	3	413	c.332A>T	c.(331-333)GAT>GTT	p.D111V	ABHD10_uc011bhq.1_5'UTR	NM_018394	NP_060864	Q9NUJ1	ABHDA_HUMAN	abhydrolase domain containing 10 precursor	111						mitochondrion	serine-type peptidase activity				0						TCCAGGTTTGATTACTCAGGA	0.343													70	73	---	---	---	---	PASS	T	111705116	T	T	111705116	3	4	123	1	0	0	0	0	1	0	0	0	74	333	12	5	342	5	ABHD10	3	111705116	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	10743394	111705116	86317314	48	45215										
SLC9A10	285335	broad.mit.edu	37	chr3	111983116	111983116	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	caaattctatatacaaatatGtatgtgcaggaattagaagt	7	4	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:111983116G>A	uc003dyu.2	-	9	1175	c.953C>T	c.(952-954)ACA>ATA	p.T318I	SLC9A10_uc011bhu.1_Intron|SLC9A10_uc010hqc.2_Intron	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	318	Helical; (Potential).				cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						ATACAAATATGTATGTGCAGG	0.249													6	44	---	---	---	---	PASS	A	111983116	A	A	111983116	3	1	123	1	0	0	0	0	1	0	0	0	14710	1377	48	3	2664	3	SLC9A10	3	111983116	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	278000	111983116	86039314	49	45216										
FBXO40	51725	broad.mit.edu	37	chr3	121340300	121340300	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gggaaagcccgcagatccccGccagggcaccacaggcattg	13	15	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:121340300G>T	uc003eeg.2	+	3	234	c.24G>T	c.(22-24)CCG>CCT	p.P8P		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	8					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		GCAGATCCCCGCCAGGGCACC	0.532													138	240	---	---	---	---	PASS	T	121340300	T	T	121340300	2	4	123	1	0	0	0	0	0	0	0	1	5749	1074	38	1		1	FBXO40	3	121340300	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	9357184	121340300	76682130	50	45217										
NCK1	4690	broad.mit.edu	37	chr3	136665037	136665037	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cactggaaagtttgctggcaAtccttggtattatggcaaag	11	7	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:136665037A>G	uc003erh.2	+	3	946	c.839A>G	c.(838-840)AAT>AGT	p.N280S	NCK1_uc011bme.1_Missense_Mutation_p.N216S	NM_006153	NP_006144	P16333	NCK1_HUMAN	NCK adaptor protein 1	280					axon guidance|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of translation|signal complex assembly|T cell activation|T cell receptor signaling pathway	cytosol|endoplasmic reticulum|nucleus	cytoskeletal adaptor activity|receptor binding|receptor signaling complex scaffold activity			pancreas(1)	1						TTTGCTGGCAATCCTTGGTAT	0.423													109	522	---	---	---	---	PASS	G	136665037	G	G	136665037	3	3	123	1	0	0	0	0	1	0	0	0	10219	101	4	5	845	5	NCK1	3	136665037	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	15324737	136665037	61357393	51	45218										
WWTR1	25937	broad.mit.edu	37	chr3	149374963	149374963	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	actccggcaggatcttcttcCgccacgagctaggcttcgga	11	14	2	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:149374963C>A	uc003exe.2	-	1	147	c.131G>T	c.(130-132)CGG>CTG	p.R44L	WWTR1_uc003exf.2_Missense_Mutation_p.R44L|WWTR1_uc011bns.1_Missense_Mutation_p.R44L|WWTR1_uc003exh.2_Missense_Mutation_p.R44L|uc010hvg.1_RNA|uc003exi.1_5'Flank	NM_015472	NP_056287	Q9GZV5	WWTR1_HUMAN	WW domain containing transcription regulator 1	44					hippo signaling cascade|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of protein kinase activity|negative regulation of protein phosphorylation|positive regulation of cell proliferation|positive regulation of epithelial to mesenchymal transition|regulation of SMAD protein import into nucleus|stem cell division|transcription, DNA-dependent	cytoplasm	transcription coactivator activity			breast(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			GATCTTCTTCCGCCACGAGCT	0.627													11	35	---	---	---	---	PASS	A	149374963	A	A	149374963	3	1	123	1	0	0	0	0	1	0	0	0	17414	652	23	1	1095	1	WWTR1	3	149374963	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	12709926	149374963	48647467	52	45219										
OTOL1	131149	broad.mit.edu	37	chr3	161221714	161221714	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tttgtacccagaggaaacttCtggaatttcaccataaattt	6	8	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:161221714C>A	uc011bpb.1	+	4	1418	c.1418C>A	c.(1417-1419)TCT>TAT	p.S473Y		NM_001080440	NP_001073909	A6NHN0	OTOL1_HUMAN	otolin-1 precursor	473	C1q.					collagen					0						GAGGAAACTTCTGGAATTTCA	0.388													22	73	---	---	---	---	PASS	A	161221714	A	A	161221714	3	1	123	1	0	0	0	0	1	0	0	0	11304	913	32	2	1432	2	OTOL1	3	161221714	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	11846751	161221714	36800716	53	45220										
KCNMB3	27094	broad.mit.edu	37	chr3	178968856	178968856	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	agcaggatgaatgcaacaaaAtgaaatcccagttcagagct	9	8	1	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:178968856A>C	uc003fjm.2	-	1	548	c.36T>G	c.(34-36)CAT>CAG	p.H12Q	KCNMB3_uc003fjl.3_Intron|KCNMB3_uc011bqc.1_Intron|KCNMB3_uc003fjn.2_5'UTR|KCNMB3_uc003fjo.2_Intron|KCNMB3_uc003fjp.1_Intron	NM_014407	NP_055222	Q9NPA1	KCMB3_HUMAN	calcium-activated potassium channel beta 3	12	Cytoplasmic (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron	voltage-gated potassium channel complex	calcium-activated potassium channel activity|potassium channel regulator activity				0	all_cancers(143;5.6e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;2.41e-27)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.03)			ATGCAACAAAATGAAATCCCA	0.398													41	302	---	---	---	---	PASS	C	178968856	C	C	178968856	3	2	123	1	0	0	0	0	1	0	0	0	8076	98	4	5	948	5	KCNMB3	3	178968856	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	17747142	178968856	19053574	54	45221										
LAMP3	27074	broad.mit.edu	37	chr3	182871775	182871775	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gttcccagttgtgtggctgaCggttgatgaactggttccag	14	8	0	3	rs150380664	byFrequency	TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:182871775C>T	uc003flh.3	-	2	678	c.454G>A	c.(454-456)GTC>ATC	p.V152I		NM_014398	NP_055213	Q9UQV4	LAMP3_HUMAN	lysosomal-associated membrane protein 3	152	Lumenal (Potential).|Thr-rich.				cell proliferation	integral to membrane|lysosomal membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;9.14e-14)|Ovarian(172;0.0355)		all cancers(12;2.91e-44)|Epithelial(37;5.52e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;4.16e-21)			GTGTGGCTGACGGTTGATGAA	0.522													54	664	---	---	---	---	PASS	T	182871775	T	T	182871775	3	4	123	1	0	0	0	0	1	0	0	0	8619	536	19	1	816	1	LAMP3	3	182871775	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	3902919	182871775	15150655	55	45222										
ATP13A5	344905	broad.mit.edu	37	chr3	193029676	193029676	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	actcattgcaaaatggtaacAgcttcctccttccccacgag	6	14	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:193029676A>G	uc011bsq.1	-	20	2374	c.2374T>C	c.(2374-2376)TGT>CGT	p.C792R		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	792					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		AAATGGTAACAGCTTCCTCCT	0.393													30	301	---	---	---	---	PASS	G	193029676	G	G	193029676	3	3	123	1	0	0	0	0	1	0	0	0	1127	188	7	5	1324	5	ATP13A5	3	193029676	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	10157901	193029676	4992754	56	45223										
IQCG	84223	broad.mit.edu	37	chr3	197665624	197665624	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tggaagtttgtctagattcgTtccttctagattcatttctc	7	8	4	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr3:197665624T>G	uc003fyo.2	-	4	456	c.310A>C	c.(310-312)ACG>CCG	p.T104P	IQCG_uc003fyn.2_Missense_Mutation_p.T6P|IQCG_uc003fyp.2_Missense_Mutation_p.T104P|IQCG_uc003fyq.3_Missense_Mutation_p.T104P	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	104											0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;7.19e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.149)		TCTAGATTCGTTCCTTCTAGA	0.358													46	842	---	---	---	---	PASS	G	197665624	G	G	197665624	3	3	123	1	0	0	0	0	1	0	0	0	7810	1725	60	5	1053	5	IQCG	3	197665624	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	4635948	197665624	356806	57	45224										
KIAA1530	57654	broad.mit.edu	37	chr4	1379710	1379710	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cggatggaccagaagaagcaCgagaagttttcaaaccagtt	11	8	1	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr4:1379710C>T	uc003gde.3	+	14	2538	c.2091C>T	c.(2089-2091)CAC>CAT	p.H697H	KIAA1530_uc010ibv.2_Silent_p.H248H	NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	697											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			AGAAGAAGCACGAGAAGTTTT	0.572													30	47	---	---	---	---	PASS	T	1379710	T	T	1379710	2	4	123	1	0	0	0	0	0	0	0	1	8241	535	19	1		1	KIAA1530	4	1379710	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08		1379710	189774566	58	45225										
NOP14	8602	broad.mit.edu	37	chr4	2944035	2944035	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gcagacaccacgagcagttcCgagttcttcccaagcgctct	9	15	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr4:2944035C>T	uc003ggj.1	-	14	2007	c.1935G>A	c.(1933-1935)TCG>TCA	p.S645S	C4orf10_uc003gge.1_Intron|C4orf10_uc003ggh.2_Intron|C4orf10_uc003ggi.1_Intron|NOP14_uc010icp.2_Silent_p.S391S|NOP14_uc003ggk.3_Silent_p.S645S|NOP14_uc003ggl.2_Silent_p.S645S	NM_003703	NP_003694	P78316	NOP14_HUMAN	probable nucleolar complex protein 14	645					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	mitochondrion|Noc4p-Nop14p complex|small-subunit processome	snoRNA binding			pancreas(1)	1						CGAGCAGTTCCGAGTTCTTCC	0.592													29	44	---	---	---	---	PASS	T	2944035	T	T	2944035	2	4	123	1	0	0	0	0	0	0	0	1	10536	639	23	1		1	NOP14	4	2944035	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08	1564325	2944035	188210241	59	45226										
EVC2	132884	broad.mit.edu	37	chr4	5578063	5578063	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aatccacctccccaggttcgTtcagaatcccgggcccatcg	8	17	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr4:5578063T>C	uc003gij.2	-	18	3230	c.3176A>G	c.(3175-3177)AAC>AGC	p.N1059S	EVC2_uc011bwb.1_Missense_Mutation_p.N499S|EVC2_uc003gik.2_Missense_Mutation_p.N979S	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1059	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						CCCAGGTTCGTTCAGAATCCC	0.612													40	41	---	---	---	---	PASS	C	5578063	C	C	5578063	3	2	123	1	0	0	0	0	1	0	0	0	5286	1725	60	5	770	5	EVC2	4	5578063	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	2634028	5578063	185576213	60	45227										
RHOH	399	broad.mit.edu	37	chr4	40245100	40245100	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cctccgagaccttcccggagGcctacaagcccacagtgtac	9	17	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr4:40245100G>A	uc003guz.2	+	3	818	c.94G>A	c.(94-96)GCC>ACC	p.A32T		NM_004310	NP_004301	Q15669	RHOH_HUMAN	ras homolog gene family, member H precursor	32					negative regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|T cell differentiation	cytosol|mitochondrion|plasma membrane	GTP binding|GTPase inhibitor activity|kinase inhibitor activity|Rho GTPase binding			ovary(1)|lung(1)	2						CTTCCCGGAGGCCTACAAGCC	0.587													32	73	---	---	---	---	PASS	A	40245100	A	A	40245100	3	1	123	1	0	0	0	0	1	0	0	0	13340	1203	42	3	96	3	RHOH	4	40245100	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	34667037	40245100	150909176	61	45228										
ATP10D	57205	broad.mit.edu	37	chr4	47556863	47556863	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tggaaactttgtacattatcGactttttcattgcattggca	7	7	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr4:47556863G>A	uc003gxk.1	+	11	1920	c.1756G>A	c.(1756-1758)GAC>AAC	p.D586N	ATP10D_uc003gxl.1_Intron	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	586	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						GTACATTATCGACTTTTTCAT	0.413													48	147	---	---	---	---	PASS	A	47556863	A	A	47556863	3	1	123	1	0	0	0	0	1	0	0	0	1118	1058	37	2	1794	2	ATP10D	4	47556863	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	7311763	47556863	143597413	62	45229										
FAT4	79633	broad.mit.edu	37	chr4	126238160	126238160	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aacccgagcggcgagggagcGttcctgcatctggtgtccaa	14	12	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr4:126238160G>T	uc003ifj.3	+	1	594	c.594G>T	c.(592-594)GCG>GCT	p.A198A		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	198	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GCGAGGGAGCGTTCCTGCATC	0.652											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	39	---	---	---	---	PASS	T	126238160	T	T	126238160	2	4	123	1	0	0	0	0	0	0	0	1	5692	1132	40	1		1	FAT4	4	126238160	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	78681297	126238160	64916116	63	45230										
SLC10A7	84068	broad.mit.edu	37	chr4	147442805	147442805	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tggacggctccagtttagctCcagcgatcgccagcactatt	10	13	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr4:147442805C>A	uc010ioz.2	-	1	319	c.65G>T	c.(64-66)GGA>GTA	p.G22V	SLC10A7_uc003ikr.2_Missense_Mutation_p.G22V|SLC10A7_uc010ipa.2_Missense_Mutation_p.G22V|SLC10A7_uc003iks.2_RNA|SLC10A7_uc003ikt.2_Missense_Mutation_p.G22V|SLC10A7_uc003iku.3_RNA	NM_001029998	NP_001025169	Q0GE19	NTCP7_HUMAN	solute carrier family 10 (sodium/bile acid	22	Helical; (Potential).					integral to membrane	bile acid:sodium symporter activity				0	all_hematologic(180;0.151)					CAGTTTAGCTCCAGCGATCGC	0.522													70	163	---	---	---	---	PASS	A	147442805	A	A	147442805	3	1	123	1	0	0	0	0	1	0	0	0	14379	855	30	2	1050	2	SLC10A7	4	147442805	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	21204645	147442805	43711471	64	45231										
RXFP1	59350	broad.mit.edu	37	chr4	159493927	159493927	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	acatcacaaagtgcttgcctCagctcctgcactgtaacggt	8	13	2	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr4:159493927C>A	uc003ipz.2	+	2	209	c.127C>A	c.(127-129)CAG>AAG	p.Q43K	RXFP1_uc010iqj.1_5'UTR|RXFP1_uc011cja.1_5'UTR|RXFP1_uc010iqo.2_Missense_Mutation_p.Q43K|RXFP1_uc011cjb.1_5'UTR|RXFP1_uc010iqk.2_5'UTR|RXFP1_uc011cjc.1_5'UTR|RXFP1_uc011cjd.1_5'UTR|RXFP1_uc010iql.2_5'UTR|RXFP1_uc011cje.1_Missense_Mutation_p.Q43K|RXFP1_uc010iqm.2_Missense_Mutation_p.Q43K|RXFP1_uc011cjf.1_5'UTR|RXFP1_uc010iqn.2_Intron	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	43	Extracellular (Potential).|LDL-receptor class A.					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		GTGCTTGCCTCAGCTCCTGCA	0.552													69	150	---	---	---	---	PASS	A	159493927	A	A	159493927	3	1	123	1	0	0	0	0	1	0	0	0	13759	827	29	2	133	2	RXFP1	4	159493927	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	12051122	159493927	31660349	65	45232										
FSTL5	56884	broad.mit.edu	37	chr4	162577607	162577607	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ccacagttgctgcagtgatgCttagtttctgatcttctggc	10	10	3	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr4:162577607C>A	uc003iqh.2	-	7	1203	c.767G>T	c.(766-768)AGC>ATC	p.S256I	FSTL5_uc003iqi.2_Missense_Mutation_p.S255I|FSTL5_uc010iqv.2_Missense_Mutation_p.S255I	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	256	Ig-like 1.					extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TGCAGTGATGCTTAGTTTCTG	0.403													27	64	---	---	---	---	PASS	A	162577607	A	A	162577607	3	1	123	1	0	0	0	0	1	0	0	0	6080	797	28	3	1816	3	FSTL5	4	162577607	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	3083680	162577607	28576669	66	45233										
GPM6A	2823	broad.mit.edu	37	chr4	176594881	176594881	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gattttgaaatccccatagaGatctttgatggccccagttg	9	9	1	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr4:176594881G>T	uc003iuf.2	-	3	1141	c.337C>A	c.(337-339)CTC>ATC	p.L113I	GPM6A_uc011ckj.1_Missense_Mutation_p.L106I|GPM6A_uc003iug.2_Missense_Mutation_p.L113I|GPM6A_uc003iuh.2_Missense_Mutation_p.L102I	NM_201591	NP_963885	P51674	GPM6A_HUMAN	glycoprotein M6A isoform 2	113	Cytoplasmic (Potential).					cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)		TCCCCATAGAGATCTTTGATG	0.423													26	74	---	---	---	---	PASS	T	176594881	T	T	176594881	3	4	123	1	0	0	0	0	1	0	0	0	6615	942	33	2	519	2	GPM6A	4	176594881	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	14017274	176594881	14559395	67	45234										
ODZ3	55714	broad.mit.edu	37	chr4	183664378	183664378	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	atctcccagcagcctccagtCgtgagtagcatcatgggcaa	10	13	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr4:183664378C>A	uc003ivd.1	+	18	3472	c.3435C>A	c.(3433-3435)GTC>GTA	p.V1145V	ODZ3_uc003ive.1_Silent_p.V551V	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1145	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		AGCCTCCAGTCGTGAGTAGCA	0.483													20	61	---	---	---	---	PASS	A	183664378	A	A	183664378	2	1	123	1	0	0	0	0	0	0	0	1	10836	871	31	2		2	ODZ3	4	183664378	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08	7069497	183664378	7489898	68	45235										
TERT	7015	broad.mit.edu	37	chr5	1278882	1278882	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tccgtgagcctgtcctggggGatggtgtcgtacgcgcccgt	16	12	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr5:1278882G>T	uc003jcb.1	-	6	2218	c.2160C>A	c.(2158-2160)ATC>ATA	p.I720I	TERT_uc003jbz.1_5'UTR|TERT_uc003jca.1_Intron|TERT_uc003jcc.1_Silent_p.I720I|TERT_uc003jcd.1_Intron|TERT_uc003jce.1_RNA	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	720	Reverse transcriptase.				anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			TGTCCTGGGGGATGGTGTCGT	0.627									TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				99	309	---	---	---	---	PASS	T	1278882	T	T	1278882	2	4	123	1	0	0	0	0	0	0	0	1	15761	1164	41	2		2	TERT	5	1278882	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08		1278882	179636378	69	45236										
FBXL7	23194	broad.mit.edu	37	chr5	15937167	15937167	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gccagggcttgcagatcgtgGccgccaactgctttgacctc	12	14	0	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr5:15937167G>A	uc003jfn.1	+	4	1829	c.1348G>A	c.(1348-1350)GCC>ACC	p.A450T		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	450	LRR 11.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						GCAGATCGTGGCCGCCAACTG	0.627													32	47	---	---	---	---	PASS	A	15937167	A	A	15937167	3	1	123	1	0	0	0	0	1	0	0	0	5724	1203	42	3	1362	3	FBXL7	5	15937167	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	14658285	15937167	164978093	70	45237										
ISL1	3670	broad.mit.edu	37	chr5	50680535	50680535	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	acatgctttgttagggatggGaaaacctactgtaaaagaga	11	5	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr5:50680535G>A	uc003jor.2	+	2	737	c.189G>A	c.(187-189)GGG>GGA	p.G63G	uc003joq.1_5'Flank	NM_002202	NP_002193	P61371	ISL1_HUMAN	islet-1	63	LIM zinc-binding 1.				generation of precursor metabolites and energy|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3		Lung NSC(810;0.000845)|Breast(144;0.0411)				TTAGGGATGGGAAAACCTACT	0.398													71	239	---	---	---	---	PASS	A	50680535	A	A	50680535	2	1	123	1	0	0	0	0	0	0	0	1	7856	1161	41	2		2	ISL1	5	50680535	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	34743368	50680535	130234725	71	45238										
ISL1	3670	broad.mit.edu	37	chr5	50683365	50683365	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	caagtgcagcatcggcttcaGcaagaacgacttcgtgatgc	11	11	1	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr5:50683365G>C	uc003jor.2	+	3	808	c.260G>C	c.(259-261)AGC>ACC	p.S87T		NM_002202	NP_002193	P61371	ISL1_HUMAN	islet-1	87	LIM zinc-binding 2.				generation of precursor metabolites and energy|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3		Lung NSC(810;0.000845)|Breast(144;0.0411)				ATCGGCTTCAGCAAGAACGAC	0.612													9	33	---	---	---	---	PASS	C	50683365	C	C	50683365	3	2	123	1	0	0	0	0	1	0	0	0	7856	971	34	4	270	4	ISL1	5	50683365	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	2830	50683365	130231895	72	45239										
CLINT1	9685	broad.mit.edu	37	chr5	157218922	157218922	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aggcactgccaaagaactcgCcactggaagcaacagggcct	11	13	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr5:157218922C>T	uc003lxj.1	-	10	1359	c.1169G>A	c.(1168-1170)GGC>GAC	p.G390D	CLINT1_uc003lxg.1_5'Flank|CLINT1_uc003lxh.1_5'UTR|CLINT1_uc003lxi.1_Missense_Mutation_p.G372D|CLINT1_uc011ddv.1_Missense_Mutation_p.G390D	NM_014666	NP_055481	Q14677	EPN4_HUMAN	epsin 4	390					endocytosis|post-Golgi vesicle-mediated transport	clathrin-coated vesicle|cytosol|Golgi apparatus|membrane|perinuclear region of cytoplasm	clathrin binding|lipid binding			ovary(2)|pancreas(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AAAGAACTCGCCACTGGAAGC	0.517													29	32	---	---	---	---	PASS	T	157218922	T	T	157218922	3	4	123	1	0	0	0	0	1	0	0	0	3531	739	26	3	720	3	CLINT1	5	157218922	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	106535557	157218922	23696338	73	45240										
HMMR	3161	broad.mit.edu	37	chr5	162917423	162917423	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	caaaactccgctgtcagcttGctaaaaaaaaacaaagtgag	7	9	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr5:162917423G>T	uc003lzf.2	+	17	2169	c.1987G>T	c.(1987-1989)GCT>TCT	p.A663S	HMMR_uc003lzh.2_Missense_Mutation_p.A664S|HMMR_uc003lzg.2_Missense_Mutation_p.A648S|HMMR_uc011dem.1_Missense_Mutation_p.A577S|uc003lzi.2_Intron	NM_012484	NP_036616	O75330	HMMR_HUMAN	hyaluronan-mediated motility receptor isoform b	663	Hyaluronic acid-binding (Potential).					cell surface|cytoplasm	hyaluronic acid binding				0	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0296)|OV - Ovarian serous cystadenocarcinoma(192;0.0423)|Epithelial(171;0.0848)		CTGTCAGCTTGCTAAAAAAAA	0.313													36	43	---	---	---	---	PASS	T	162917423	T	T	162917423	3	4	123	1	0	0	0	0	1	0	0	0	7242	1319	46	3	2056	3	HMMR	5	162917423	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	5698501	162917423	17997837	74	45241										
HIVEP1	3096	broad.mit.edu	37	chr6	12161866	12161866	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gccttcaggaccctgtgagtActgacgaggatgtcaggatc	13	10	2	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:12161866A>T	uc003nac.2	+	8	6861	c.6682A>T	c.(6682-6684)ACT>TCT	p.T2228S	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2228					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				CCCTGTGAGTACTGACGAGGA	0.567													17	64	---	---	---	---	PASS	T	12161866	T	T	12161866	3	4	123	1	0	0	0	0	1	0	0	0	7186	391	14	5	6708	5	HIVEP1	6	12161866	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08		12161866	158953201	75	45242										
HIST1H1C	3006	broad.mit.edu	37	chr6	26056216	26056216	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gttttcttagcgctcttcttCggagttgcgccgccagccgc	11	14	3	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:26056216C>T	uc003nfw.2	-	1	484	c.441G>A	c.(439-441)CCG>CCA	p.P147P		NM_005319	NP_005310	P16403	H12_HUMAN	histone cluster 1, H1c	147					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)|skin(2)	5						CGCTCTTCTTCGGAGTTGCGC	0.572													52	125	---	---	---	---	PASS	T	26056216	T	T	26056216	2	4	123	1	0	0	0	0	0	0	0	1	7124	871	31	2		2	HIST1H1C	6	26056216	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08	13894350	26056216	145058851	76	45243										
NKAPL	222698	broad.mit.edu	37	chr6	28227222	28227222	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gaaggcgacgcagctcctcgGggagcccaccatccccgcag	13	17	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:28227222G>T	uc003nkt.2	+	1	125	c.73G>T	c.(73-75)GGG>TGG	p.G25W	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	25										upper_aerodigestive_tract(1)|ovary(1)	2						CAGCTCCTCGGGGAGCCCACC	0.662													35	65	---	---	---	---	PASS	T	28227222	T	T	28227222	3	4	123	1	0	0	0	0	1	0	0	0	10440	1232	43	3	75	3	NKAPL	6	28227222	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	2171006	28227222	142887845	77	45244										
GABBR1	2550	broad.mit.edu	37	chr6	29595348	29595348	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cctccagcgccatctccaccGcgggctggcaggcctggccc	12	20	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:29595348G>C	uc003nmt.3	-	6	908	c.572C>G	c.(571-573)GCG>GGG	p.A191G	GABBR1_uc003nmp.3_Missense_Mutation_p.A74G|GABBR1_uc003nms.3_Missense_Mutation_p.A74G|GABBR1_uc003nmu.3_Missense_Mutation_p.A129G|GABBR1_uc011dlr.1_Missense_Mutation_p.A14G|GABBR1_uc011dls.1_Missense_Mutation_p.A191G	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	191	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	CATCTCCACCGCGGGCTGGCA	0.672													6	13	---	---	---	---	PASS	C	29595348	C	C	29595348	3	2	123	1	0	0	0	0	1	0	0	0	6155	1087	38	4	2385	4	GABBR1	6	29595348	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	1368126	29595348	141519719	78	45245										
HLA-DMB	3109	broad.mit.edu	37	chr6	32905205	32905205	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tccctcgtgttaaaaggagtGgttttggctacttgcacaga	11	8	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:32905205G>T	uc003ocl.1	-	3	599	c.366C>A	c.(364-366)ACC>ACA	p.T122T	HLA-DMB_uc003ocj.1_3'UTR|HLA-DMB_uc003ock.1_5'Flank|HLA-DMB_uc010jud.1_5'UTR|HLA-DMB_uc010jue.1_5'UTR|HLA-DMB_uc010juf.1_5'UTR|HLA-DMB_uc011dql.1_Silent_p.T122T	NM_002118	NP_002109	P28068	DMB_HUMAN	major histocompatibility complex, class II, DM	122	Lumenal (Potential).|Ig-like C1-type.|Beta-2.				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	integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0						TAAAAGGAGTGGTTTTGGCTA	0.507													57	135	---	---	---	---	PASS	T	32905205	T	T	32905205	2	4	123	1	0	0	0	0	0	0	0	1	7199	1335	47	3		3	HLA-DMB	6	32905205	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	3309857	32905205	138209862	79	45246										
LHFPL5	222662	broad.mit.edu	37	chr6	35782540	35782540	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gacaagctcctccctgacgaCtacaaggcagatggaaccgg	11	13	0	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:35782540C>A	uc003olg.1	+	2	1007	c.630C>A	c.(628-630)GAC>GAA	p.D210E		NM_182548	NP_872354	Q8TAF8	TMHS_HUMAN	lipoma HMGIC fusion partner-like 5	210						integral to membrane				skin(1)	1						TCCCTGACGACTACAAGGCAG	0.597													18	27	---	---	---	---	PASS	A	35782540	A	A	35782540	3	1	123	1	0	0	0	0	1	0	0	0	8768	564	20	3	636	3	LHFPL5	6	35782540	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	2877335	35782540	135332527	80	45247										
CRISP3	10321	broad.mit.edu	37	chr6	49696509	49696509	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ctgaccaactgatgtttacaGgttaatgtgagcttcaaact	8	8	1	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:49696509G>A	uc003ozs.2	-	8	687	c.672C>T	c.(670-672)ACC>ACT	p.T224T		NM_006061	NP_006052	P54108	CRIS3_HUMAN	cysteine-rich secretory protein 3 precursor	224					innate immune response	proteinaceous extracellular matrix|specific granule				skin(2)	2	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			GATGTTTACAGGTTAATGTGA	0.378													34	176	---	---	---	---	PASS	A	49696509	A	A	49696509	2	1	123	1	0	0	0	0	0	0	0	1	3881	987	35	3		3	CRISP3	6	49696509	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	13913969	49696509	121418558	81	45248										
IMPG1	3617	broad.mit.edu	37	chr6	76734920	76734920	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tctaagcttacctgttgaaaTgacaatggtttcaccaggct	8	9	2	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:76734920T>A	uc003pik.1	-	5	683	c.553A>T	c.(553-555)ATT>TTT	p.I185F		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	185					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				CCTGTTGAAATGACAATGGTT	0.323													48	107	---	---	---	---	PASS	A	76734920	A	A	76734920	3	1	123	1	0	0	0	0	1	0	0	0	7728	1464	51	5	1892	5	IMPG1	6	76734920	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	27038411	76734920	94380147	82	45249										
CYB5R4	51167	broad.mit.edu	37	chr6	84650271	84650271	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tcttcaataaaacagaagatGatataatttggagaagccaa	7	5	2	4			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:84650271G>T	uc003pkf.2	+	14	1429	c.1297G>T	c.(1297-1299)GAT>TAT	p.D433Y		NM_016230	NP_057314	Q7L1T6	NB5R4_HUMAN	cytochrome b5 reductase 4	433					cell development|detection of oxygen|generation of precursor metabolites and energy|glucose homeostasis|insulin secretion|response to antibiotic|superoxide metabolic process	endoplasmic reticulum|perinuclear region of cytoplasm	cytochrome-b5 reductase activity|heme binding|NAD(P)H oxidase activity			breast(2)	2		all_cancers(76;7e-07)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00128)		BRCA - Breast invasive adenocarcinoma(397;0.0871)		AACAGAAGATGATATAATTTG	0.274													22	73	---	---	---	---	PASS	T	84650271	T	T	84650271	3	4	123	1	0	0	0	0	1	0	0	0	4129	1290	45	2	1351	2	CYB5R4	6	84650271	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	7915351	84650271	86464796	83	45250										
SLC35F1	222553	broad.mit.edu	37	chr6	118596691	118596691	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ctatggtatttctaacgtctGggaagaatacatcatccgaa	8	8	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:118596691G>T	uc003pxx.3	+	5	908	c.707G>T	c.(706-708)TGG>TTG	p.W236L	SLC35F1_uc003pxy.1_Missense_Mutation_p.W41L	NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	236	Helical; (Potential).				transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		TCTAACGTCTGGGAAGAATAC	0.438													26	102	---	---	---	---	PASS	T	118596691	T	T	118596691	3	4	123	1	0	0	0	0	1	0	0	0	14588	1357	47	3	725	3	SLC35F1	6	118596691	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	33946420	118596691	52518376	84	45251										
MYB	4602	broad.mit.edu	37	chr6	135511481	135511481	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aaatcgcaaagctactgcctGgacggtaataatatgtcaaa	8	8	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:135511481G>A	uc003qfc.2	+	5	722	c.523G>A	c.(523-525)GGA>AGA	p.G175R	MYB_uc003qfh.2_Missense_Mutation_p.G175R|MYB_uc003qfi.2_Missense_Mutation_p.G175R|MYB_uc010kgi.2_Missense_Mutation_p.G175R|MYB_uc003qfq.2_Missense_Mutation_p.G175R|MYB_uc010kgj.2_Missense_Mutation_p.G175R|MYB_uc003qfo.2_Missense_Mutation_p.G175R|MYB_uc003qfu.2_Missense_Mutation_p.G175R|MYB_uc003qfl.2_RNA|MYB_uc003qfv.2_RNA|MYB_uc003qfz.2_RNA|MYB_uc003qfx.2_RNA|MYB_uc003qga.2_RNA|MYB_uc003qgb.2_RNA|MYB_uc010kgk.2_RNA|MYB_uc003qfd.2_RNA|MYB_uc003qfe.2_RNA|MYB_uc003qfg.2_RNA|MYB_uc003qff.2_RNA|MYB_uc003qfj.2_RNA|MYB_uc003qfm.2_RNA|MYB_uc003qfp.2_RNA|MYB_uc003qfn.2_RNA|MYB_uc003qfk.2_RNA|MYB_uc003qfr.2_RNA|MYB_uc003qfs.2_Intron|MYB_uc003qft.2_RNA|MYB_uc003qfw.2_Intron|MYB_uc003qfy.2_RNA|MYB_uc003qgc.2_RNA|MYB_uc003qfb.1_Missense_Mutation_p.G175R|MYB_uc003qgd.1_5'UTR	NM_005375	NP_005366	P10242	MYB_HUMAN	v-myb myeloblastosis viral oncogene homolog	175	H-T-H motif (By similarity).|HTH myb-type 3.|Interaction with HIPK2 and NLK (By similarity).				blood coagulation|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone H3-K4 methylation|positive regulation of histone H3-K9 methylation|positive regulation of T-helper cell differentiation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear matrix	DNA binding|protein binding			lung(1)	1	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)		GCTACTGCCTGGACGGTAATA	0.388			T	NFIB	adenoid cystic carcinoma								11	38	---	---	---	---	PASS	A	135511481	A	A	135511481	3	1	123	1	0	0	0	0	1	0	0	0	10007	1349	47	3	541	3	MYB	6	135511481	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	16914790	135511481	35603586	85	45252										
MTHFD1L	25902	broad.mit.edu	37	chr6	151293098	151293098	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tctaggggacacctgtgttcGtgcatgcgggcccttttgct	13	11	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:151293098G>C	uc003qob.2	+	20	2297	c.2029G>C	c.(2029-2031)GTG>CTG	p.V677L	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Missense_Mutation_p.V678L|MTHFD1L_uc003qoc.2_Missense_Mutation_p.V625L	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	677	Formyltetrahydrofolate synthetase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		ACCTGTGTTCGTGCATGCGGG	0.448													65	144	---	---	---	---	PASS	C	151293098	C	C	151293098	3	2	123	1	0	0	0	0	1	0	0	0	9928	1145	40	4	2107	4	MTHFD1L	6	151293098	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	15781617	151293098	19821969	86	45253										
C6orf97	80129	broad.mit.edu	37	chr6	151917692	151917692	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ccgagctcaaagccaaactgGccgacaccaatgaactgaag	9	13	1	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:151917692G>A	uc003qol.2	+	9	1779	c.1690G>A	c.(1690-1692)GCC>ACC	p.A564T		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	564	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		AGCCAAACTGGCCGACACCAA	0.468													36	65	---	---	---	---	PASS	A	151917692	A	A	151917692	3	1	123	1	0	0	0	0	1	0	0	0	2374	1203	42	3	1724	3	C6orf97	6	151917692	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	624594	151917692	19197375	87	45254										
T	6862	broad.mit.edu	37	chr6	166572066	166572066	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gttgctcacagaccacaggcTggggtactgactgcaacaga	12	11	1	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:166572066T>A	uc003quu.1	-	9	1538	c.1045A>T	c.(1045-1047)AGC>TGC	p.S349C	T_uc003qut.1_Missense_Mutation_p.S350C|T_uc003quv.1_Missense_Mutation_p.S291C	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	349					anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		GACCACAGGCTGGGGTACTGA	0.652									Chordoma_Familial_Clustering_of				5	13	---	---	---	---	PASS	A	166572066	A	A	166572066	3	1	123	1	0	0	0	0	1	0	0	0	15485	1580	55	5	266	5	T	6	166572066	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	14654374	166572066	4543001	88	45255										
FAM120B	84498	broad.mit.edu	37	chr6	170628197	170628197	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	caagtaaccatggtttcagaCactgaaatcttaaaggtatg	8	7	2	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr6:170628197C>G	uc003qxp.2	+	2	1827	c.1719C>G	c.(1717-1719)GAC>GAG	p.D573E	FAM120B_uc003qxo.1_Missense_Mutation_p.D573E|FAM120B_uc011ehd.1_Intron	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	573					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		TGGTTTCAGACACTGAAATCT	0.403													34	72	---	---	---	---	PASS	G	170628197	G	G	170628197	3	3	123	1	0	0	0	0	1	0	0	0	5417	477	17	4	1721	4	FAM120B	6	170628197	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	4056131	170628197	486870	89	45256										
FAM20C	56975	broad.mit.edu	37	chr7	208896	208896	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tttctctccctccttcctgcAgccatgaagtcggggggcac	10	15	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr7:208896A>C	uc003sip.2	+	3	1016	c.785_splice	c.e3-2	p.A262_splice		NM_020223	NP_064608	Q8IXL6	DMP4_HUMAN	family with sequence similarity 20, member C							extracellular region					0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.57e-17)|Epithelial(4;1.26e-16)|all cancers(6;4.79e-14)		TCCTTCCTGCAGCCATGAAGT	0.597													3	5	---	---	---	---	PASS	C	208896	C	C	208896	5	2	123	1	0	0	0	0	0	0	1	0	5539	202	7	5	793	5	FAM20C	7	208896	Splice_Site	SNP	A	TCGA-60-2710-01A-01D-1522-08		208896	158929767	90	45257										
MICALL2	79778	broad.mit.edu	37	chr7	1477944	1477944	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ccctgactggggaggtcaccGtctcgccaggcagagcaggg	16	13	2	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr7:1477944G>A	uc003skj.3	-	11	2315	c.2168C>T	c.(2167-2169)ACG>ATG	p.T723M	MICALL2_uc003skh.3_Translation_Start_Site|MICALL2_uc003ski.3_Missense_Mutation_p.T210M	NM_182924	NP_891554	Q8IY33	MILK2_HUMAN	MICAL-like 2 isoform 1	723						cytoplasm|cytoskeleton	zinc ion binding			central_nervous_system(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;6.01e-15)		GGAGGTCACCGTCTCGCCAGG	0.697													3	21	---	---	---	---	PASS	A	1477944	A	A	1477944	3	1	123	1	0	0	0	0	1	0	0	0	9574	1145	40	1	574	1	MICALL2	7	1477944	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	1269048	1477944	157660719	91	45258										
HOXA4	3201	broad.mit.edu	37	chr7	27170284	27170284	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cccgagccgctgtgctgcgcGtactcctcgaagggagggaa	15	13	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr7:27170284G>T	uc003sym.3	-	1	116	c.69C>A	c.(67-69)TAC>TAA	p.Y23*		NM_002141	NP_002132	Q00056	HXA4_HUMAN	homeobox A4	23	Pro-rich (part of the transcriptional activation domain).					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						TGTGCTGCGCGTACTCCTCGA	0.488													6	17	---	---	---	---	PASS	T	27170284	T	T	27170284	4	4	123	1	0	0	0	0	0	1	0	0	7294	1140	40	1	901	1	HOXA4	7	27170284	Nonsense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	25692340	27170284	131968379	92	45259										
NEUROD6	63974	broad.mit.edu	37	chr7	31378243	31378243	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgggggagtggtgagctcagGgctgtggtagggtgggtaga	23	3	1	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr7:31378243G>C	uc003tch.2	-	2	993	c.640C>G	c.(640-642)CCT>GCT	p.P214A		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	214					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						GTGAGCTCAGGGCTGTGGTAG	0.527													51	136	---	---	---	---	PASS	C	31378243	C	C	31378243	3	2	123	1	0	0	0	0	1	0	0	0	10351	1232	43	4	377	4	NEUROD6	7	31378243	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	4207959	31378243	127760420	93	45260										
SUN3	256979	broad.mit.edu	37	chr7	48028393	48028393	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	agcatacattacctggagttCaaatgtttgaacggtggttc	10	7	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr7:48028393C>G	uc003tof.2	-	10	1043	c.946G>C	c.(946-948)GAA>CAA	p.E316Q	SUN3_uc010kyq.2_Missense_Mutation_p.E228Q|SUN3_uc003tog.2_Missense_Mutation_p.E316Q|SUN3_uc011kcf.1_Missense_Mutation_p.E304Q	NM_152782	NP_689995	Q8TAQ9	SUN3_HUMAN	Sad1 and UNC84 domain containing 1	316	SUN.					integral to membrane				central_nervous_system(1)	1						ACCTGGAGTTCAAATGTTTGA	0.358													14	106	---	---	---	---	PASS	G	48028393	G	G	48028393	3	3	123	1	0	0	0	0	1	0	0	0	15390	835	29	2	135	2	SUN3	7	48028393	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	16650150	48028393	111110270	94	45261										
MAGI2	9863	broad.mit.edu	37	chr7	77789561	77789561	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gtgggtggatacagagcctgGacttctcccgttctctgggc	14	11	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr7:77789561G>A	uc003ugx.2	-	16	2880	c.2626C>T	c.(2626-2628)CCA>TCA	p.P876S	MAGI2_uc003ugy.2_Missense_Mutation_p.P862S|MAGI2_uc010ldx.1_Missense_Mutation_p.P469S	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	876						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				ACAGAGCCTGGACTTCTCCCG	0.493													40	76	---	---	---	---	PASS	A	77789561	A	A	77789561	3	1	123	1	0	0	0	0	1	0	0	0	9191	1174	41	2	1769	2	MAGI2	7	77789561	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	29761168	77789561	81349102	95	45262										
ZC3HAV1	56829	broad.mit.edu	37	chr7	138764222	138764222	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ccctttgtatttaccgttaaCaagtgctactcttgggtcag	8	10	2	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr7:138764222C>G	uc003vun.2	-	4	1853	c.1465G>C	c.(1465-1467)GTT>CTT	p.V489L	ZC3HAV1_uc003vuo.2_5'Flank|ZC3HAV1_uc003vup.2_Missense_Mutation_p.V489L	NM_020119	NP_064504	Q7Z2W4	ZCCHV_HUMAN	zinc finger antiviral protein isoform 1	489					response to virus	cytoplasm|nucleus	NAD+ ADP-ribosyltransferase activity|RNA binding|zinc ion binding			ovary(1)	1						TTACCGTTAACAAGTGCTACT	0.438													24	95	---	---	---	---	PASS	G	138764222	G	G	138764222	3	3	123	1	0	0	0	0	1	0	0	0	17572	478	17	4	1287	4	ZC3HAV1	7	138764222	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	60974661	138764222	20374441	96	45263										
TRPV5	56302	broad.mit.edu	37	chr7	142612065	142612065	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	actgaccttctggatcatgaTggtgaagggacccagcatct	11	10	3	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr7:142612065T>C	uc003wby.1	-	11	1702	c.1438A>G	c.(1438-1440)ATC>GTC	p.I480V		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	480	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					TGGATCATGATGGTGAAGGGA	0.552													27	91	---	---	---	---	PASS	C	142612065	C	C	142612065	3	2	123	1	0	0	0	0	1	0	0	0	16596	1464	51	5	771	5	TRPV5	7	142612065	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	3847843	142612065	16526598	97	45264										
NOS3	4846	broad.mit.edu	37	chr7	150697679	150697679	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tcaacgtggccgtgctgcacAgttaccaggtgcagaggccc	13	13	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr7:150697679A>G	uc003wif.2	+	10	1521	c.1225A>G	c.(1225-1227)AGT>GGT	p.S409G	NOS3_uc011kuy.1_Missense_Mutation_p.S203G|NOS3_uc011kuz.1_Missense_Mutation_p.S409G|NOS3_uc011kva.1_Missense_Mutation_p.S409G|NOS3_uc011kvb.1_Missense_Mutation_p.S409G	NM_000603	NP_000594	P29474	NOS3_HUMAN	nitric oxide synthase 3 isoform 1	409	Interaction with NOSIP.				anti-apoptosis|arginine catabolic process|blood vessel remodeling|endothelial cell migration|mitochondrion organization|negative regulation of muscle hyperplasia|negative regulation of platelet activation|nitric oxide biosynthetic process|platelet activation|positive regulation of angiogenesis|positive regulation of guanylate cyclase activity|positive regulation of vasodilation|regulation of blood vessel size|regulation of nitric-oxide synthase activity|regulation of systemic arterial blood pressure by endothelin|response to fluid shear stress|response to heat|smooth muscle hyperplasia	caveola|cytoskeleton|cytosol|Golgi membrane	actin monomer binding|arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			central_nervous_system(5)|large_intestine(2)|skin(1)	8	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	L-Arginine(DB00125)|L-Citrulline(DB00155)|Rosuvastatin(DB01098)|Tetrahydrobiopterin(DB00360)	CGTGCTGCACAGTTACCAGGT	0.607													17	32	---	---	---	---	PASS	G	150697679	G	G	150697679	3	3	123	1	0	0	0	0	1	0	0	0	10544	188	7	5	1259	5	NOS3	7	150697679	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	8085614	150697679	8440984	98	45265										
ACCN3	9311	broad.mit.edu	37	chr7	150746188	150746188	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tactacagggagttccaccaCcagactgccctggatgagcg	11	13	0	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr7:150746188C>A	uc003win.2	+	1	584	c.216C>A	c.(214-216)CAC>CAA	p.H72Q	ACCN3_uc003wio.2_Missense_Mutation_p.H72Q|ACCN3_uc003wip.2_Missense_Mutation_p.H72Q|ACCN3_uc003wiq.2_RNA	NM_004769	NP_004760	Q9UHC3	ACCN3_HUMAN	amiloride-sensitive cation channel 3 isoform a	72	Extracellular (Potential).				sensory perception|signal transduction	cytoplasm|integral to plasma membrane	ligand-gated sodium channel activity			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGTTCCACCACCAGACTGCCC	0.657													38	100	---	---	---	---	PASS	A	150746188	A	A	150746188	3	1	123	1	0	0	0	0	1	0	0	0	130	506	18	3	218	3	ACCN3	7	150746188	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	48509	150746188	8392475	99	45266										
MLL3	58508	broad.mit.edu	37	chr7	151893021	151893021	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	caactgattttgctagatcaTctgaaattattccaagaatg	6	7	2	4	rs146504747	by1000genomes	TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr7:151893021T>C	uc003wla.2	-	28	4568	c.4349A>G	c.(4348-4350)GAT>GGT	p.D1450G	MLL3_uc003wkz.2_Missense_Mutation_p.D511G	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1450					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TGCTAGATCATCTGAAATTAT	0.333			N		medulloblastoma								22	51	---	---	---	---	PASS	C	151893021	C	C	151893021	3	2	123	1	0	0	0	0	1	0	0	0	9622	1435	50	5	10514	5	MLL3	7	151893021	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	1146833	151893021	7245642	100	45267										
DLGAP2	9228	broad.mit.edu	37	chr8	1626678	1626678	+	Frame_Shift_Del	DEL	C	-	-													0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tagagactgggaggatgtctCcgtgccgcagggatggctcg							TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr8:1626678delC	uc003wpl.2	+	9	2444	c.2347delC	c.(2347-2349)CCGfs	p.P783fs	DLGAP2_uc003wpm.2_Frame_Shift_Del_p.P769fs	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	862					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		GAGGATGTCTCCGTGCCGCAG	0.597													10	7	---	---	---	---		-	1626678	-	-	1626678	7	5	123	1	0	1	0	1	0	0	0	0	4560	855	30	0	2377	0	DLGAP2	8	1626678	Frame_Shift_Del	DEL	C	TCGA-60-2710-01A-01D-1522-08		1626678	144737344	101	45268										
HMBOX1	79618	broad.mit.edu	37	chr8	28827926	28827926	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cgattatctacatccaatggAaagatgtcaccaactcgcta	6	11	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr8:28827926A>G	uc003xhd.3	+	3	732	c.390A>G	c.(388-390)GGA>GGG	p.G130G	HMBOX1_uc010lvd.2_Silent_p.G130G|HMBOX1_uc003xhc.3_Silent_p.G130G|HMBOX1_uc010lve.2_RNA|HMBOX1_uc003xhe.2_Silent_p.G130G|HMBOX1_uc011lay.1_Silent_p.G130G|HMBOX1_uc003xhf.2_Silent_p.G118G|HMBOX1_uc003xhg.2_Silent_p.G118G	NM_001135726	NP_001129198	Q6NT76	HMBX1_HUMAN	homeobox containing 1	130					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(32;0.0192)		KIRC - Kidney renal clear cell carcinoma(542;0.135)|Kidney(114;0.161)		CATCCAATGGAAAGATGTCAC	0.453													41	87	---	---	---	---	PASS	G	28827926	G	G	28827926	2	3	123	1	0	0	0	0	0	0	0	1	7218	233	9	5		5	HMBOX1	8	28827926	Silent	SNP	A	TCGA-60-2710-01A-01D-1522-08	27201248	28827926	117536096	102	45269										
ADAM2	2515	broad.mit.edu	37	chr8	39606952	39606952	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gaagcactacagtgacagtgCtttttgttattgcataccta	8	8	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr8:39606952C>T	uc003xnj.2	-	18	1968	c.1893G>A	c.(1891-1893)AAG>AAA	p.K631K	ADAM2_uc003xnk.2_Silent_p.K612K|ADAM2_uc011lck.1_Silent_p.K568K|ADAM2_uc003xnl.2_Silent_p.K475K	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	631	Extracellular (Potential).|EGF-like.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		AGTGACAGTGCTTTTTGTTAT	0.348													81	171	---	---	---	---	PASS	T	39606952	T	T	39606952	2	4	123	1	0	0	0	0	0	0	0	1	241	796	28	3		3	ADAM2	8	39606952	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08	10779026	39606952	106757070	103	45270										
RP1	6101	broad.mit.edu	37	chr8	55537767	55537767	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ccagggaactcaagaccaagCaaagcatcgtttttataggc	9	10	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr8:55537767C>A	uc003xsd.1	+	4	1473	c.1325C>A	c.(1324-1326)GCA>GAA	p.A442E	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	442					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CAAGACCAAGCAAAGCATCGT	0.433													34	77	---	---	---	---	PASS	A	55537767	A	A	55537767	3	1	123	1	0	0	0	0	1	0	0	0	13532	710	25	3	1335	3	RP1	8	55537767	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	15930815	55537767	90826255	104	45271										
CHD7	55636	broad.mit.edu	37	chr8	61655401	61655402	+	Frame_Shift_Ins	INS	-	T	T													0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgtcctcggcaccaagggaaINSttgactgggcacatgaggcc							TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr8:61655401_61655402insT	uc003xue.2	+	2	1887_1888	c.1410_1411insT	c.(1408-1413)GAATTGfs	p.E470fs		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	470_471	Pro-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)			CACCAAGGGAATTGACTGGGCA	0.55													28	14	---	---	---	---		T	61655402	T	T	61655401	7	5	123	1	0	1	1	0	0	0	0	0	3330	98	4	0	1412	0	CHD7	8	61655401	Frame_Shift_Ins	INS	-	TCGA-60-2710-01A-01D-1522-08	6117634	61655401	84708621	105	45272										
ADHFE1	137872	broad.mit.edu	37	chr8	67357485	67357485	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tattgagtttgcccaaaaggGagcttttgatgcctatgttg	11	6	0	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr8:67357485G>T	uc003xwb.3	+	6	420	c.386G>T	c.(385-387)GGA>GTA	p.G129V	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Missense_Mutation_p.G81V|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_Intron|ADHFE1_uc011les.1_Missense_Mutation_p.G59V|ADHFE1_uc011leq.1_Intron|ADHFE1_uc011ler.1_Intron	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	129					2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			GCCCAAAAGGGAGCTTTTGAT	0.408													55	120	---	---	---	---	PASS	T	67357485	T	T	67357485	3	4	123	1	0	0	0	0	1	0	0	0	314	1174	41	2	408	2	ADHFE1	8	67357485	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	5702084	67357485	79006537	106	45273										
CSMD3	114788	broad.mit.edu	37	chr8	113657367	113657367	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gggttacatcaacagtccatGtacaattcagagaatttgga	9	7	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr8:113657367G>T	uc003ynu.2	-	20	3440	c.3281C>A	c.(3280-3282)ACA>AAA	p.T1094K	CSMD3_uc003yns.2_Missense_Mutation_p.T366K|CSMD3_uc003ynt.2_Missense_Mutation_p.T1054K|CSMD3_uc011lhx.1_Missense_Mutation_p.T990K	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1094	Extracellular (Potential).|CUB 6.					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						AACAGTCCATGTACAATTCAG	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			19	73	---	---	---	---	PASS	T	113657367	T	T	113657367	3	4	123	1	0	0	0	0	1	0	0	0	3946	1377	48	3	8050	3	CSMD3	8	113657367	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	46299882	113657367	32706655	107	45274										
BAI1	575	broad.mit.edu	37	chr8	143559650	143559650	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cacgcgtgaatgcaacgggcCttcctacgggggtgcggagt	16	11	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr8:143559650C>A	uc003ywm.2	+	6	1673	c.1490C>A	c.(1489-1491)CCT>CAT	p.P497H		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	497	Extracellular (Potential).|TSP type-1 4.				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					TGCAACGGGCCTTCCTACGGG	0.692													5	26	---	---	---	---	PASS	A	143559650	A	A	143559650	3	1	123	1	0	0	0	0	1	0	0	0	1298	681	24	3	1512	3	BAI1	8	143559650	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	29902283	143559650	2804372	108	45275										
DMRT1	1761	broad.mit.edu	37	chr9	916890	916890	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgaggatgctccctcttaccCggaagccagggcgagcggta	14	12	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr9:916890C>T	uc003zgv.2	+	4	1099	c.950C>T	c.(949-951)CCG>CTG	p.P317L		NM_021951	NP_068770	Q9Y5R6	DMRT1_HUMAN	doublesex and mab-3 related transcription factor	317					cell differentiation|male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(10;2.66e-10)|Lung NSC(10;2.82e-10)|Breast(48;0.232)		Lung(218;0.037)		CCCTCTTACCCGGAAGCCAGG	0.547													38	39	---	---	---	---	PASS	T	916890	T	T	916890	3	4	123	1	0	0	0	0	1	0	0	0	4585	652	23	1	964	1	DMRT1	9	916890	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08		916890	140296541	109	45276										
C9orf79	286234	broad.mit.edu	37	chr9	90500146	90500146	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tttcctccttcaccacagccGcatggtcccctggcctcctc	6	20	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr9:90500146G>A	uc004app.3	+	4	779	c.744G>A	c.(742-744)CCG>CCA	p.P248P	C9orf79_uc004apo.1_Silent_p.P60P	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	248	Pro-rich.					integral to membrane				ovary(3)	3						CACCACAGCCGCATGGTCCCC	0.627													32	183	---	---	---	---	PASS	A	90500146	A	A	90500146	2	1	123	1	0	0	0	0	0	0	0	1	2497	1074	38	1		1	C9orf79	9	90500146	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	89583256	90500146	50713285	110	45277										
RNF20	56254	broad.mit.edu	37	chr9	104316311	104316311	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ggagatgaaactattgctggAtatgtaccgttctgccccaa	10	9	1	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr9:104316311A>T	uc004bbn.2	+	14	2033	c.1943A>T	c.(1942-1944)GAT>GTT	p.D648V		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	648	Potential.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		CTATTGCTGGATATGTACCGT	0.448													66	76	---	---	---	---	PASS	T	104316311	T	T	104316311	3	4	123	1	0	0	0	0	1	0	0	0	13473	333	12	5	1993	5	RNF20	9	104316311	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	13816165	104316311	36897120	111	45278										
CDH23	64072	broad.mit.edu	37	chr10	73491830	73491830	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gcacagggcttatcatcaccGtgaattacctggactacgag	10	11	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr10:73491830G>A	uc001jrx.3	+	31	4179	c.3802G>A	c.(3802-3804)GTG>ATG	p.V1268M	CDH23_uc001jrz.2_Missense_Mutation_p.V884M|C10orf105_uc001jsb.1_Intron|CDH23_uc001jsc.1_Missense_Mutation_p.V76M	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1268	Cadherin 12.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						TATCATCACCGTGAATTACCT	0.567													4	59	---	---	---	---	PASS	A	73491830	A	A	73491830	3	1	123	1	0	0	0	0	1	0	0	0	3108	1145	40	1	4231	1	CDH23	10	73491830	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08		73491830	62042917	112	45279										
FGFR2	2263	broad.mit.edu	37	chr10	123279562	123279562	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ttcttttccacgtgcttgatCcactggatgtggggctgggc	13	10	1	1	rs121918499		TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr10:123279562C>G	uc010qtk.1	-	7	1517	c.870G>C	c.(868-870)TGG>TGC	p.W290C	FGFR2_uc010qtg.1_Intron|FGFR2_uc010qth.1_Missense_Mutation_p.W175C|FGFR2_uc010qti.1_Missense_Mutation_p.W201C|FGFR2_uc010qtj.1_Missense_Mutation_p.W290C|FGFR2_uc010qtl.1_Missense_Mutation_p.W290C|FGFR2_uc010qtm.1_Missense_Mutation_p.W175C|FGFR2_uc001lfl.3_Missense_Mutation_p.W290C|FGFR2_uc001lfm.2_Missense_Mutation_p.W201C|FGFR2_uc001lfn.3_RNA|FGFR2_uc010qtn.1_Missense_Mutation_p.W309C|FGFR2_uc010qto.1_Missense_Mutation_p.W194C|FGFR2_uc001lfo.1_Missense_Mutation_p.W309C|FGFR2_uc010qtp.1_Missense_Mutation_p.W309C|FGFR2_uc001lfg.3_5'Flank	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	290	Ig-like C2-type 3.|Extracellular (Potential).		W -> R (in CS).|W -> C (in PS; severe; also in a lung squamous cell carcinoma sample; somatic mutation).|W -> G (in CS).		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	p.W290C(2)		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)	CGTGCTTGATCCACTGGATGT	0.552		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				30	48	---	---	---	---	PASS	G	123279562	G	G	123279562	3	3	123	1	0	0	0	0	1	0	0	0	5866	856	30	2	1899	2	FGFR2	10	123279562	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	49787732	123279562	12255185	113	45280										
PAOX	196743	broad.mit.edu	37	chr10	135204850	135204850	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgcgggggaagccacacatcGcacgttttactccacgacgc	11	14	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr10:135204850G>A	uc001lmv.2	+	7	1507	c.1427G>A	c.(1426-1428)CGC>CAC	p.R476H	PAOX_uc001lmw.2_RNA|PAOX_uc001lmx.2_Silent_p.S423S|PAOX_uc001lmy.2_3'UTR|PAOX_uc001lmz.2_RNA|PAOX_uc001lna.2_RNA|PAOX_uc001lnb.2_RNA|PAOX_uc001lnc.2_RNA|MTG1_uc001lnd.2_5'Flank	NM_152911	NP_690875	Q6QHF9	PAOX_HUMAN	polyamine oxidase isoform 1	614					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		GCCACACATCGCACGTTTTAC	0.622													68	85	---	---	---	---	PASS	A	135204850	A	A	135204850	3	1	123	1	0	0	0	0	1	0	0	0	11423	1087	38	1	1453	1	PAOX	10	135204850	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	11925288	135204850	329897	114	45281										
MUC6	4588	broad.mit.edu	37	chr11	1026120	1026120	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgggtgccctgctgacaggcCcacctcccccttgagcagga	12	16	0	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr11:1026120C>T	uc001lsw.2	-	21	2619	c.2568G>A	c.(2566-2568)TGG>TGA	p.W856*		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	856					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GCTGACAGGCCCACCTCCCCC	0.662													3	10	---	---	---	---	PASS	T	1026120	T	T	1026120	4	4	123	1	0	0	0	0	0	1	0	0	9980	624	22	3	4803	3	MUC6	11	1026120	Nonsense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08		1026120	133980396	115	45282										
AMBRA1	55626	broad.mit.edu	37	chr11	46419148	46419148	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gaatggggacaggggaggaaGagggcagggttggctgggtt	23	3	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr11:46419148G>T	uc010rgu.1	-	18	4109	c.3749C>A	c.(3748-3750)TCT>TAT	p.S1250Y	AMBRA1_uc010rgt.1_3'UTR|AMBRA1_uc009ylc.1_Missense_Mutation_p.S1221Y|AMBRA1_uc001ncu.1_Missense_Mutation_p.S1160Y|AMBRA1_uc001ncv.2_Missense_Mutation_p.S1253Y|AMBRA1_uc001ncw.2_Missense_Mutation_p.S1131Y|AMBRA1_uc001ncx.2_Missense_Mutation_p.S1190Y	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	1250					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		AGGGGAGGAAGAGGGCAGGGT	0.647													21	54	---	---	---	---	PASS	T	46419148	T	T	46419148	3	4	123	1	0	0	0	0	1	0	0	0	565	942	33	2	151	2	AMBRA1	11	46419148	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	45393028	46419148	88587368	116	45283										
OR5T2	219464	broad.mit.edu	37	chr11	56000488	56000488	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	atagtctgcagttcaagattGtctgtgaagcccttcagtac	9	9	4	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr11:56000488G>A	uc010rjc.1	-	1	174	c.174C>T	c.(172-174)GAC>GAT	p.D58D		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	58	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GTTCAAGATTGTCTGTGAAGC	0.358													12	93	---	---	---	---	PASS	A	56000488	A	A	56000488	2	1	123	1	0	0	0	0	0	0	0	1	11182	1368	48	3		3	OR5T2	11	56000488	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	9581340	56000488	79006028	117	45284										
TNKS1BP1	85456	broad.mit.edu	37	chr11	57087823	57087823	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tggtggccgcgaagcgctctGaggctgggcggaaaggggca	20	9	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr11:57087823G>A	uc001njr.2	-	2	770	c.458C>T	c.(457-459)TCA>TTA	p.S153L	TNKS1BP1_uc001njs.2_Missense_Mutation_p.S153L|TNKS1BP1_uc009ymd.1_5'UTR	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	153	Pro-rich.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GAAGCGCTCTGAGGCTGGGCG	0.682													52	119	---	---	---	---	PASS	A	57087823	A	A	57087823	3	1	123	1	0	0	0	0	1	0	0	0	16317	1294	45	2	4767	2	TNKS1BP1	11	57087823	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	1087335	57087823	77918693	118	45285										
AHNAK	79026	broad.mit.edu	37	chr11	62287531	62287531	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aagccaggcatgctgaatttGggcattttcaccttgggcat	11	9	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr11:62287531G>C	uc001ntl.2	-	5	14658	c.14358C>G	c.(14356-14358)CCC>CCG	p.P4786P	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4786					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TGCTGAATTTGGGCATTTTCA	0.537													111	336	---	---	---	---	PASS	C	62287531	C	C	62287531	2	2	123	1	0	0	0	0	0	0	0	1	414	1335	47	4		4	AHNAK	11	62287531	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	5199708	62287531	72718985	119	45286										
SNX32	254122	broad.mit.edu	37	chr11	65620388	65620388	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gggtctcctcttttcgaaagAatctcattgagctggcagag	11	9	3	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr11:65620388A>C	uc001ofr.2	+	12	1244	c.1117A>C	c.(1117-1119)AAT>CAT	p.N373H		NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B	373					cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		TTTTCGAAAGAATCTCATTGA	0.622													63	129	---	---	---	---	PASS	C	65620388	C	C	65620388	3	2	123	1	0	0	0	0	1	0	0	0	14902	246	9	5	1163	5	SNX32	11	65620388	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	3332857	65620388	69386128	120	45287										
CWF19L2	143884	broad.mit.edu	37	chr11	107288983	107288983	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ttgttcttctcatcaacactCaggatgtgaatggactcacg	8	10	5	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr11:107288983C>A	uc010rvp.1	-	9	1494	c.1464G>T	c.(1462-1464)CTG>CTT	p.L488L	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	488							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		CATCAACACTCAGGATGTGAA	0.388													45	111	---	---	---	---	PASS	A	107288983	A	A	107288983	2	1	123	1	0	0	0	0	0	0	0	1	4072	813	29	2		2	CWF19L2	11	107288983	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08	41668595	107288983	27717533	121	45288										
BCL9L	283149	broad.mit.edu	37	chr11	118772546	118772546	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gtcttcggtccagcccatgcCtggtctcacgggcctctgca	11	16	3	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr11:118772546C>T	uc001pug.2	-	6	2871	c.1906G>A	c.(1906-1908)GGC>AGC	p.G636S	BCL9L_uc009zal.2_Missense_Mutation_p.G631S	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	636					negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		CAGCCCATGCCTGGTCTCACG	0.607													25	46	---	---	---	---	PASS	T	118772546	T	T	118772546	3	4	123	1	0	0	0	0	1	0	0	0	1382	681	24	3	2605	3	BCL9L	11	118772546	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	11483563	118772546	16233970	122	45289										
CCND2	894	broad.mit.edu	37	chr12	4385368	4385368	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	atttacaccgacaactccatCaagcctcaggagctgctggt	8	13	2	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr12:4385368C>A	uc001qmo.2	+	2	698	c.393C>A	c.(391-393)ATC>ATA	p.I131I		NM_001759	NP_001750	P30279	CCND2_HUMAN	cyclin D2	131	Cyclin N-terminal.				cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding	p.I131M(1)		haematopoietic_and_lymphoid_tissue(1)|breast(1)|kidney(1)	3			all cancers(3;4.15e-10)|GBM - Glioblastoma multiforme(3;6.34e-05)|Colorectal(7;0.00245)|OV - Ovarian serous cystadenocarcinoma(31;0.00301)|COAD - Colon adenocarcinoma(12;0.0264)|STAD - Stomach adenocarcinoma(119;0.206)			ACAACTCCATCAAGCCTCAGG	0.567			T	IGL@	NHL,CLL								3	38	---	---	---	---	PASS	A	4385368	A	A	4385368	2	1	123	1	0	0	0	0	0	0	0	1	2917	816	29	2		2	CCND2	12	4385368	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08		4385368	129466527	123	45290										
IFFO1	25900	broad.mit.edu	37	chr12	6658975	6658975	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ctgctgagccacatcgcagaGcttggcggtgatgtcgatgc	14	11	0	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr12:6658975G>A	uc001qpd.1	-	4	1052	c.1018C>T	c.(1018-1020)CTC>TTC	p.L340F	IFFO1_uc001qoy.2_RNA|IFFO1_uc001qpa.1_5'Flank|IFFO1_uc001qpb.1_Missense_Mutation_p.L17F|IFFO1_uc001qpe.1_RNA|IFFO1_uc010sfe.1_Missense_Mutation_p.L340F|IFFO1_uc001qpf.1_Missense_Mutation_p.L340F|IFFO1_uc001qoz.1_5'Flank|IFFO1_uc001qpc.1_Missense_Mutation_p.L340F|IFFO1_uc001qpg.2_5'Flank	NM_080730	NP_542768	Q0D2I5	IFFO1_HUMAN	intermediate filament family orphan isoform 2	340						intermediate filament					0						ACATCGCAGAGCTTGGCGGTG	0.607													20	35	---	---	---	---	PASS	A	6658975	A	A	6658975	3	1	123	1	0	0	0	0	1	0	0	0	7510	971	34	3	701	3	IFFO1	12	6658975	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	2273607	6658975	127192920	124	45291										
PRB1	5542	broad.mit.edu	37	chr12	11507478	11507478	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	attagggagggagattcttcCtggctgacatctagaagaga	13	6	2	4			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr12:11507478C>T	uc001qzw.1	-	2	112	c.75G>A	c.(73-75)CAG>CAA	p.Q25Q	PRB1_uc001qzu.1_Silent_p.Q25Q|PRB1_uc001qzv.1_Silent_p.Q25Q	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	25				NLNEDVSQEESPSLIA -> SCVGFYSVFLFSLCPL (in Ref. 4; AAA36502).		extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GAGATTCTTCCTGGCTGACAT	0.428													62	137	---	---	---	---	PASS	T	11507478	T	T	11507478	2	4	123	1	0	0	0	0	0	0	0	1	12442	680	24	3		3	PRB1	12	11507478	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08	4848503	11507478	122344417	125	45292										
GRIN2B	2904	broad.mit.edu	37	chr12	13716347	13716347	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gggtacttagtggtggaggcGtttgacgtcaccgccactgg	16	9	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr12:13716347G>A	uc001rbt.2	-	13	4004	c.3825C>T	c.(3823-3825)AAC>AAT	p.N1275N		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1275	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TGGTGGAGGCGTTTGACGTCA	0.582													23	80	---	---	---	---	PASS	A	13716347	A	A	13716347	2	1	123	1	0	0	0	0	0	0	0	1	6780	1136	40	1		1	GRIN2B	12	13716347	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	2208869	13716347	120135548	126	45293										
LRRK2	120892	broad.mit.edu	37	chr12	40699752	40699752	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ttaaacatataggatgtaaaGccaaagacatcataaggtta	7	5	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr12:40699752G>A	uc001rmg.3	+	28	4064	c.3943G>A	c.(3943-3945)GCC>ACC	p.A1315T	LRRK2_uc009zjw.2_Missense_Mutation_p.A153T|LRRK2_uc001rmi.2_Missense_Mutation_p.A148T	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1315					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)				AGGATGTAAAGCCAAAGACAT	0.294													26	71	---	---	---	---	PASS	A	40699752	A	A	40699752	3	1	123	1	0	0	0	0	1	0	0	0	9033	971	34	3	4053	3	LRRK2	12	40699752	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	26983405	40699752	93152143	127	45294										
KRT81	3887	broad.mit.edu	37	chr12	52681782	52681782	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	actcaccttgctgcggtaccAggactcggcctcggcccggc	12	17	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr12:52681782A>G	uc001sab.2	-	5	936	c.886T>C	c.(886-888)TGG>CGG	p.W296R	KRT86_uc010snq.1_Intron|KRT86_uc009zmg.2_Intron|KRT81_uc001sac.2_Intron	NM_002281	NP_002272	Q14533	KRT81_HUMAN	keratin, hair, basic, 1	296	Rod.|Coil 2.					keratin filament	protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		CTGCGGTACCAGGACTCGGCC	0.557													25	83	---	---	---	---	PASS	G	52681782	G	G	52681782	3	3	123	1	0	0	0	0	1	0	0	0	8495	188	7	5	651	5	KRT81	12	52681782	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	11982030	52681782	81170113	128	45295										
AMHR2	269	broad.mit.edu	37	chr12	53824031	53824031	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cagtgcaggagaggaggcgtCcctacatcccatccacctgg	12	14	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr12:53824031C>G	uc001scx.1	+	10	1468	c.1390C>G	c.(1390-1392)CCC>GCC	p.P464A	AMHR2_uc009zmy.1_Silent_p.V462V	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	464	Cytoplasmic (Potential).|Protein kinase.				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	GAGGAGGCGTCCCTACATCCC	0.602									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				88	204	---	---	---	---	PASS	G	53824031	G	G	53824031	3	3	123	1	0	0	0	0	1	0	0	0	573	855	30	2	1428	2	AMHR2	12	53824031	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	1142249	53824031	80027864	129	45296										
RBMS2	5939	broad.mit.edu	37	chr12	56982752	56982752	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	agaaccaagtggcagtggacGcaccctcagagcatggggtc	14	11	1	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr12:56982752G>A	uc001sln.2	+	13	1379	c.1180G>A	c.(1180-1182)GCA>ACA	p.A394T	RBMS2_uc010sqp.1_Missense_Mutation_p.A249T|RBMS2_uc010sqq.1_Missense_Mutation_p.A269T|RBMS2_uc009zou.2_Missense_Mutation_p.R149H	NM_002898	NP_002889	Q15434	RBMS2_HUMAN	RNA binding motif, single stranded interacting	394					RNA processing	nucleus	nucleotide binding|RNA binding				0						GGCAGTGGACGCACCCTCAGA	0.577													10	179	---	---	---	---	PASS	A	56982752	A	A	56982752	3	1	123	1	0	0	0	0	1	0	0	0	13149	1087	38	1	1230	1	RBMS2	12	56982752	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	3158721	56982752	76869143	130	45297										
MAP1LC3B2	643246	broad.mit.edu	37	chr12	117014012	117014012	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tggtgaacggacacagcatgGtcagcgtctccacaccaatc	10	13	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr12:117014012G>T	uc009zwk.1	+	2	419	c.265G>T	c.(265-267)GTC>TTC	p.V89F		NM_001085481	NP_001078950	A6NCE7	MP3B2_HUMAN	microtubule-associated protein 1 light chain 3	89					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule					0						ACACAGCATGGTCAGCGTCTC	0.483													49	126	---	---	---	---	PASS	T	117014012	T	T	117014012	3	4	123	1	0	0	0	0	1	0	0	0	9232	1261	44	3	267	3	MAP1LC3B2	12	117014012	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	60031260	117014012	16837883	131	45298										
TMEM132D	121256	broad.mit.edu	37	chr12	129569169	129569169	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ggggctgctcaggtgctggtAggtgaagttcaccaccacgt	15	10	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr12:129569169A>G	uc009zyl.1	-	6	1850	c.1522T>C	c.(1522-1524)TAC>CAC	p.Y508H	TMEM132D_uc001uia.2_Missense_Mutation_p.Y46H	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	508	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		AGGTGCTGGTAGGTGAAGTTC	0.537													14	70	---	---	---	---	PASS	G	129569169	G	G	129569169	3	3	123	1	0	0	0	0	1	0	0	0	16044	420	15	5	1793	5	TMEM132D	12	129569169	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	12555157	129569169	4282726	132	45299										
PUS1	80324	broad.mit.edu	37	chr12	132428116	132428116	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ctggaaggcagtgaaggggaCggagacactgactgaggcga	18	7	0	4			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr12:132428116C>T	uc001ujf.2	+	6	1748	c.1269C>T	c.(1267-1269)GAC>GAT	p.D423D	PUS1_uc001ujg.2_Silent_p.D395D|PUS1_uc001ujh.2_Silent_p.D395D|PUS1_uc001uji.2_Silent_p.D370D	NM_025215	NP_079491	Q9Y606	TRUA_HUMAN	pseudouridine synthase 1 isoform 1	423						mitochondrion	pseudouridine synthase activity|pseudouridylate synthase activity|RNA binding			breast(1)|central_nervous_system(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.05e-08)|Epithelial(86;2.51e-07)|all cancers(50;2.94e-07)		GTGAAGGGGACGGAGACACTG	0.602													36	114	---	---	---	---	PASS	T	132428116	T	T	132428116	2	4	123	1	0	0	0	0	0	0	0	1	12830	535	19	1		1	PUS1	12	132428116	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08	2858947	132428116	1423779	133	45300										
C13orf18	80183	broad.mit.edu	37	chr13	46930571	46930571	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cattatccgtacttactaggCtctactggagttccacagcc	7	13	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr13:46930571C>A	uc010acl.2	-	10	1931	c.1326G>T	c.(1324-1326)GAG>GAT	p.E442D	C13orf18_uc001vbf.3_Missense_Mutation_p.E375D|C13orf18_uc001vbg.3_Missense_Mutation_p.E170D|C13orf18_uc010tfz.1_Missense_Mutation_p.E285D|C13orf18_uc010acm.2_Missense_Mutation_p.E307D|C13orf18_uc010acn.2_Missense_Mutation_p.E227D|C13orf18_uc001vbe.3_Missense_Mutation_p.E442D|C13orf18_uc001vbh.3_Missense_Mutation_p.E442D|C13orf18_uc001vbi.3_Missense_Mutation_p.E285D|C13orf18_uc010aco.1_Missense_Mutation_p.E442D	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	442											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		ACTTACTAGGCTCTACTGGAG	0.463													10	12	---	---	---	---	PASS	A	46930571	A	A	46930571	3	1	123	1	0	0	0	0	1	0	0	0	1720	796	28	3	686	3	C13orf18	13	46930571	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08		46930571	68239307	134	45301										
SUCLA2	8803	broad.mit.edu	37	chr13	48563082	48563082	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ccttttcctctaccaccagcTaaaacctgtgcctttatcac	3	16	2	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr13:48563082T>A	uc001vbs.2	-	3	363	c.306A>T	c.(304-306)TTA>TTT	p.L102F	SUCLA2_uc010tgb.1_Missense_Mutation_p.L42F|SUCLA2_uc010tgc.1_5'UTR|SUCLA2_uc010tgd.1_Missense_Mutation_p.L42F|SUCLA2_uc001vbt.1_RNA|SUCLA2_uc001vbu.1_Missense_Mutation_p.L102F	NM_003850	NP_003841	Q9P2R7	SUCB1_HUMAN	succinate-CoA ligase, ADP-forming, beta subunit	102	ATP-grasp.				succinyl-CoA pathway|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			central_nervous_system(1)	1		all_cancers(8;1.13e-24)|all_epithelial(8;1.78e-13)|all_lung(13;2.85e-06)|Breast(56;0.000141)|Lung NSC(96;0.000226)|all_hematologic(8;0.000885)|Prostate(109;0.00132)|Acute lymphoblastic leukemia(8;0.0167)|Myeloproliferative disorder(33;0.039)|Hepatocellular(98;0.0556)|Lung SC(185;0.102)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(144;2.1e-06)	Succinic acid(DB00139)	TACCACCAGCTAAAACCTGTG	0.368													11	198	---	---	---	---	PASS	A	48563082	A	A	48563082	3	1	123	1	0	0	0	0	1	0	0	0	15362	1519	53	5	1121	5	SUCLA2	13	48563082	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	1632511	48563082	66606796	135	45302										
C13orf34	79866	broad.mit.edu	37	chr13	73321211	73321211	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgtgcatgtcacctcttgctGaaagcagtgtcattccttgt	9	10	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr13:73321211G>A	uc001viv.1	+	10	1563	c.1444G>A	c.(1444-1446)GAA>AAA	p.E482K	C13orf34_uc010thq.1_Missense_Mutation_p.E257K|C13orf34_uc010aen.1_Missense_Mutation_p.E557K|C13orf34_uc010thr.1_Missense_Mutation_p.E412K|C13orf34_uc001viw.1_Missense_Mutation_p.E431K	NM_024808	NP_079084	Q6PGQ7	BORA_HUMAN	aurora borealis	482					cell division|mitosis|regulation of mitosis|regulation of mitotic spindle organization|regulation of protein localization		protein kinase binding				0		Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.000227)		ACCTCTTGCTGAAAGCAGTGT	0.403													151	156	---	---	---	---	PASS	A	73321211	A	A	73321211	3	1	123	1	0	0	0	0	1	0	0	0	1728	1291	45	2	1478	2	C13orf34	13	73321211	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	24758129	73321211	41848667	136	45303										
COL4A1	1282	broad.mit.edu	37	chr13	110822951	110822951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tttgggcccctccgtggcatGgcctggggatcccggtaacc	14	14	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr13:110822951G>T	uc001vqw.3	-	42	3807	c.3685C>A	c.(3685-3687)CAT>AAT	p.H1229N	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1229	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			TCCGTGGCATGGCCTGGGGAT	0.672													9	9	---	---	---	---	PASS	T	110822951	T	T	110822951	3	4	123	1	0	0	0	0	1	0	0	0	3689	1348	47	3	1368	3	COL4A1	13	110822951	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	37501740	110822951	4346927	137	45304										
COL4A2	1284	broad.mit.edu	37	chr13	111092145	111092145	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gttcattccagggttaccctGgcttgagtggtgaaaaagga	13	7	1	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr13:111092145G>T	uc001vqx.2	+	16	1211	c.922G>T	c.(922-924)GGC>TGC	p.G308C		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	308	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GGGTTACCCTGGCTTGAGTGG	0.478													70	61	---	---	---	---	PASS	T	111092145	T	T	111092145	3	4	123	1	0	0	0	0	1	0	0	0	3690	1348	47	3	980	3	COL4A2	13	111092145	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	269194	111092145	4077733	138	45305										
F7	2155	broad.mit.edu	37	chr13	113773143	113773143	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	agggggacagtggaggcccaCatgccacccactaccggggc	15	14	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr13:113773143C>T	uc001vsv.2	+	9	1273	c.1222C>T	c.(1222-1224)CAT>TAT	p.H408Y	F7_uc001vsw.2_Missense_Mutation_p.H386Y|F7_uc010tjt.1_Missense_Mutation_p.H339Y	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	408	Peptidase S1.		H -> Q (in FA7D).|H -> R (in FA7D).		anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	TGGAGGCCCACATGCCACCCA	0.632													14	4	---	---	---	---	PASS	T	113773143	T	T	113773143	3	4	123	1	0	0	0	0	1	0	0	0	5349	478	17	3	1256	3	F7	13	113773143	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	2680998	113773143	1396735	139	45306										
ABHD4	63874	broad.mit.edu	37	chr14	23072983	23072983	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cttcgagtagctgggccctgGggtgagtagcctgtagtatc	15	9	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr14:23072983G>A	uc001wgm.2	+	4	708	c.639G>A	c.(637-639)TGG>TGA	p.W213*	ABHD4_uc010tmz.1_3'UTR|ABHD4_uc010tna.1_Nonsense_Mutation_p.W213*|ABHD4_uc010tnb.1_Intron	NM_022060	NP_071343	Q8TB40	ABHD4_HUMAN	abhydrolase domain containing 4	213					lipid catabolic process		hydrolase activity			central_nervous_system(1)	1	all_cancers(95;5.49e-05)			GBM - Glioblastoma multiforme(265;0.0153)		CTGGGCCCTGGGGTGAGTAGC	0.522													22	38	---	---	---	---	PASS	A	23072983	A	A	23072983	4	1	123	1	0	0	0	0	0	1	0	0	84	1246	43	3	653	3	ABHD4	14	23072983	Nonsense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08		23072983	84276557	140	45307										
KHNYN	23351	broad.mit.edu	37	chr14	24901672	24901674	+	In_Frame_Del	DEL	GAG	-	-													0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tcgggggcctcaatggaaacGaggcgcccgagggggcaact							TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr14:24901672_24901674delGAG	uc001wph.3	+	3	1407_1409	c.1205_1207delGAG	c.(1204-1209)CGAGGC>CGC	p.G403del	KHNYN_uc010tpc.1_In_Frame_Del_p.G444del|KHNYN_uc010alw.2_In_Frame_Del_p.G403del|CBLN3_uc001wpg.3_5'Flank	NM_015299	NP_056114	O15037	KHNYN_HUMAN	hypothetical protein LOC23351	403										ovary(2)|liver(1)	3						CAATGGAAACGAGGCGCCCGAGG	0.655											OREG0022627	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	12	---	---	---	---		-	24901674	-	-	24901672	7	5	123	1	0	1	0	1	0	0	0	0	8150	1058	37	0	1211	0	KHNYN	14	24901672	In_Frame_Del	DEL	GAG	TCGA-60-2710-01A-01D-1522-08	1828689	24901672	82447868	141	45308										
MTHFD1	4522	broad.mit.edu	37	chr14	64921543	64921543	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gcttcattctgcccattcgcGacatccgcgccagcgttggg	11	15	2	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr14:64921543G>A	uc001xhb.2	+	26	3055	c.2668G>A	c.(2668-2670)GAC>AAC	p.D890N	MTHFD1_uc010aqf.2_Missense_Mutation_p.D946N|ZBTB25_uc001xhc.2_Intron	NM_005956	NP_005947	P11586	C1TC_HUMAN	methylenetetrahydrofolate dehydrogenase 1	890	Formyltetrahydrofolate synthetase.				folic acid metabolic process|folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process	cytosol|mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|methylenetetrahydrofolate dehydrogenase|protein binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(108;8.7e-12)|all cancers(60;3.29e-11)|BRCA - Breast invasive adenocarcinoma(234;0.0488)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	GCCCATTCGCGACATCCGCGC	0.532													10	144	---	---	---	---	PASS	A	64921543	A	A	64921543	3	1	123	1	0	0	0	0	1	0	0	0	9927	1058	37	2	2770	2	MTHFD1	14	64921543	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	40019871	64921543	42427997	142	45309										
SERPINA12	145264	broad.mit.edu	37	chr14	94964657	94964657	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aaagctttataattccttggTgagaagctcggctttagaag	10	6	0	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr14:94964657T>C	uc001ydj.2	-	3	874	c.78A>G	c.(76-78)TCA>TCG	p.S26S		NM_173850	NP_776249	Q8IW75	SPA12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	26					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			central_nervous_system(2)|ovary(1)|lung(1)	4				COAD - Colon adenocarcinoma(157;0.235)		AATTCCTTGGTGAGAAGCTCG	0.483													83	84	---	---	---	---	PASS	C	94964657	C	C	94964657	2	2	123	1	0	0	0	0	0	0	0	1	14089	1683	59	5		5	SERPINA12	14	94964657	Silent	SNP	T	TCGA-60-2710-01A-01D-1522-08	30043114	94964657	12384883	143	45310										
JAG2	3714	broad.mit.edu	37	chr14	105617415	105617415	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gcaagaaaaagcgttaaggcAtggcttcccttcacactcat	8	11	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr14:105617415A>G	uc001yqg.2	-	10	1698	c.1294T>C	c.(1294-1296)TGC>CGC	p.C432R	JAG2_uc001yqf.2_5'UTR|JAG2_uc001yqh.2_Intron	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	432	Extracellular (Potential).|EGF-like 6; calcium-binding (Potential).				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding			lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		GCGTTAAGGCATGGCTTCCCT	0.582													6	5	---	---	---	---	PASS	G	105617415	G	G	105617415	3	3	123	1	0	0	0	0	1	0	0	0	7935	217	8	5	2490	5	JAG2	14	105617415	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	10652758	105617415	1732125	144	45311										
PLCB2	5330	broad.mit.edu	37	chr15	40586508	40586508	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	caccaccacgtcgatgcggtCcactgagaaggggttgaact	12	12	0	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr15:40586508C>T	uc001zld.2	-	19	2321	c.2020G>A	c.(2020-2022)GAC>AAC	p.D674N	PLCB2_uc001zlc.2_5'Flank|PLCB2_uc010bbo.2_Missense_Mutation_p.D670N|PLCB2_uc010ucm.1_Missense_Mutation_p.D674N	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	674	C2.				activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		TCGATGCGGTCCACTGAGAAG	0.597													25	73	---	---	---	---	PASS	T	40586508	T	T	40586508	3	4	123	1	0	0	0	0	1	0	0	0	12028	855	30	2	1593	2	PLCB2	15	40586508	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08		40586508	61944884	145	45312										
SERINC4	619189	broad.mit.edu	37	chr15	44089090	44089090	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cagagaaagtcagatacatgAtatagcagctgatgacagaa	10	6	1	6			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr15:44089090A>T	uc010bds.1	-	4	629	c.161T>A	c.(160-162)ATC>AAC	p.I54N	ELL3_uc001zsx.1_5'UTR|C15orf63_uc001ztb.2_Intron|SERINC4_uc001ztc.1_RNA|SERINC4_uc001ztd.1_Intron|SERINC4_uc001zte.1_Missense_Mutation_p.I54N	NM_001033517	NP_001028689	A6NH21	SERC4_HUMAN	serine incorporator 4	298	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane					0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		GBM - Glioblastoma multiforme(94;7.81e-07)		CAGATACATGATATAGCAGCT	0.493													69	259	---	---	---	---	PASS	T	44089090	T	T	44089090	3	4	123	1	0	0	0	0	1	0	0	0	14082	333	12	5	687	5	SERINC4	15	44089090	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	3502582	44089090	58442302	146	45313										
CEP152	22995	broad.mit.edu	37	chr15	49073427	49073427	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ttttttccagttgaccttttTaatacccaaatccacatacg	3	11	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr15:49073427T>C	uc001zwy.2	-	12	1577	c.1543A>G	c.(1543-1545)AAA>GAA	p.K515E	CEP152_uc001zwz.2_Missense_Mutation_p.K515E|CEP152_uc001zxa.1_Missense_Mutation_p.K422E	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	515					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		TTGACCTTTTTAATACCCAAA	0.343													65	197	---	---	---	---	PASS	C	49073427	C	C	49073427	3	2	123	1	0	0	0	0	1	0	0	0	3248	1763	61	5	3481	5	CEP152	15	49073427	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	4984337	49073427	53457965	147	45314										
CEP152	22995	broad.mit.edu	37	chr15	49081013	49081013	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ccaacctgttctttaagtgcGgtgactgtggcatccaaatt	9	10	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr15:49081013G>C	uc001zwy.2	-	9	1192	c.1158C>G	c.(1156-1158)ACC>ACG	p.T386T	CEP152_uc001zwz.2_Silent_p.T386T|CEP152_uc001zxa.1_Silent_p.T293T	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	386	Potential.				centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		CTTTAAGTGCGGTGACTGTGG	0.378													104	415	---	---	---	---	PASS	C	49081013	C	C	49081013	2	2	123	1	0	0	0	0	0	0	0	1	3248	1103	39	4		4	CEP152	15	49081013	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	7586	49081013	53450379	148	45315										
HDC	3067	broad.mit.edu	37	chr15	50544911	50544911	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gaaacccccggaactcggggCacaggaaggcagtgcctgca	14	13	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr15:50544911C>T	uc001zxz.2	-	8	954	c.848G>A	c.(847-849)TGC>TAC	p.C283Y	HDC_uc001zxy.2_Missense_Mutation_p.C26Y|HDC_uc010uff.1_Missense_Mutation_p.C283Y	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	283					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	GAACTCGGGGCACAGGAAGGC	0.562													11	52	---	---	---	---	PASS	T	50544911	T	T	50544911	3	4	123	1	0	0	0	0	1	0	0	0	7015	710	25	3	1160	3	HDC	15	50544911	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	1463898	50544911	51986481	149	45316										
VPS13C	54832	broad.mit.edu	37	chr15	62266538	62266538	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgtggcaaaggtatactgttCatcaaatatagcacatcttt	7	7	3	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr15:62266538C>A	uc002agz.2	-	25	2561	c.2487G>T	c.(2485-2487)ATG>ATT	p.M829I	VPS13C_uc002aha.2_Missense_Mutation_p.M786I|VPS13C_uc002ahb.1_Missense_Mutation_p.M829I|VPS13C_uc002ahc.1_Missense_Mutation_p.M786I	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	829					protein localization					ovary(2)	2						GTATACTGTTCATCAAATATA	0.348													52	174	---	---	---	---	PASS	A	62266538	A	A	62266538	3	1	123	1	0	0	0	0	1	0	0	0	17188	826	29	2	9046	2	VPS13C	15	62266538	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	11721627	62266538	40264854	150	45317										
ADAMTS7	11173	broad.mit.edu	37	chr15	79051768	79051768	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgcatcctggcgcagtcagcGgcgggcaacccgctgatggc	15	14	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr15:79051768G>A	uc002bej.3	-	24	5267	c.5056C>T	c.(5056-5058)CGC>TGC	p.R1686C		NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1686					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						CGCAGTCAGCGGCGGGCAACC	0.731													4	12	---	---	---	---	PASS	A	79051768	A	A	79051768	3	1	123	1	0	0	0	0	1	0	0	0	271	1116	39	1	8	1	ADAMTS7	15	79051768	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	16785230	79051768	23479624	151	45318										
ALPK3	57538	broad.mit.edu	37	chr15	85400801	85400801	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	caggtaccagatgtggagggGcggaccccaggtccccggag	17	12	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr15:85400801G>T	uc002ble.2	+	6	3605	c.3438G>T	c.(3436-3438)GGG>GGT	p.G1146G		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1146					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			ATGTGGAGGGGCGGACCCCAG	0.632													26	196	---	---	---	---	PASS	T	85400801	T	T	85400801	2	4	123	1	0	0	0	0	0	0	0	1	546	1190	42	3		3	ALPK3	15	85400801	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	6349033	85400801	17130591	152	45319										
PKD1	5310	broad.mit.edu	37	chr16	2152898	2152898	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ctcctgctagccgagcagttGtgctcattgggccggggctc	14	13	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr16:2152898G>C	uc002cos.1	-	24	9074	c.8865C>G	c.(8863-8865)CAC>CAG	p.H2955Q	PKD1_uc002cot.1_Missense_Mutation_p.H2955Q|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2955	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CCGAGCAGTTGTGCTCATTGG	0.642													6	140	---	---	---	---	PASS	C	2152898	C	C	2152898	3	2	123	1	0	0	0	0	1	0	0	0	11963	1368	48	4	4138	4	PKD1	16	2152898	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08		2152898	88201855	153	45320										
ABCC1	4363	broad.mit.edu	37	chr16	16208628	16208628	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tccgagtgtctgcagggatcGccgtgtttggctactccatg	13	11	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr16:16208628G>A	uc010bvi.2	+	23	3260	c.3085G>A	c.(3085-3087)GCC>ACC	p.A1029T	ABCC1_uc010bvj.2_Missense_Mutation_p.A970T|ABCC1_uc010bvk.2_Missense_Mutation_p.A973T|ABCC1_uc010bvl.2_Missense_Mutation_p.A1029T|ABCC1_uc010bvm.2_Missense_Mutation_p.A914T|ABCC1_uc002del.3_Missense_Mutation_p.A923T	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1029	ABC transmembrane type-1 2.|Helical; Name=13.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TGCAGGGATCGCCGTGTTTGG	0.617													13	28	---	---	---	---	PASS	A	16208628	A	A	16208628	3	1	123	1	0	0	0	0	1	0	0	0	49	1087	38	1	3175	1	ABCC1	16	16208628	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	14055730	16208628	74146125	154	45321										
MLKL	197259	broad.mit.edu	37	chr16	74709650	74709650	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	agtctgtgttttcctcaactCaaatcctgcaagctagatag	7	10	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr16:74709650C>T	uc002fdb.2	-	8	1492	c.1051G>A	c.(1051-1053)GAG>AAG	p.E351K	MLKL_uc002fdc.2_Intron	NM_152649	NP_689862	Q8NB16	MLKL_HUMAN	mixed lineage kinase domain-like isoform 1	351	Protein kinase.						ATP binding|protein binding|protein kinase activity			stomach(2)	2						TTCCTCAACTCAAATCCTGCA	0.438													6	137	---	---	---	---	PASS	T	74709650	T	T	74709650	3	4	123	1	0	0	0	0	1	0	0	0	9619	835	29	2	411	2	MLKL	16	74709650	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	58501022	74709650	15645103	155	45322										
MAP1LC3B	81631	broad.mit.edu	37	chr16	87436590	87436590	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tggtgaacggacacagcatgGtcagcgtctccacaccaatc	10	13	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr16:87436590G>T	uc002fjx.2	+	4	498	c.265G>T	c.(265-267)GTC>TTC	p.V89F	MAP1LC3B_uc010chs.2_RNA	NM_022818	NP_073729	Q9GZQ8	MLP3B_HUMAN	microtubule-associated proteins 1A/1B light	89					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule	protein binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0249)		ACACAGCATGGTCAGCGTCTC	0.458													6	75	---	---	---	---	PASS	T	87436590	T	T	87436590	3	4	123	1	0	0	0	0	1	0	0	0	9231	1261	44	3	279	3	MAP1LC3B	16	87436590	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	12726940	87436590	2918163	156	45323										
TP53	7157	broad.mit.edu	37	chr17	7577550	7577550	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgggcctccggttcatgccgCccatgcaggaactgttacac	11	14	1	0	rs28934572		TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr17:7577550C>T	uc002gim.2	-	7	925	c.731G>A	c.(730-732)GGC>GAC	p.G244D	TP53_uc002gig.1_Missense_Mutation_p.G244D|TP53_uc002gih.2_Missense_Mutation_p.G244D|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G112D|TP53_uc010cng.1_Missense_Mutation_p.G112D|TP53_uc002gii.1_Missense_Mutation_p.G112D|TP53_uc010cnh.1_Missense_Mutation_p.G244D|TP53_uc010cni.1_Missense_Mutation_p.G244D|TP53_uc002gij.2_Missense_Mutation_p.G244D|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.G151D|TP53_uc002gio.2_Missense_Mutation_p.G112D	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	244	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		G -> A (in sporadic cancers; somatic mutation).|G -> S (in sporadic cancers; somatic mutation).|G -> R (in sporadic cancers; somatic mutation).|MG -> IC (in a sporadic cancer; somatic mutation).|G -> E (in a sporadic cancer; somatic mutation).|G -> C (in sporadic cancers; somatic mutation).|MG -> IS (in a sporadic cancer; somatic mutation).|G -> V (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G244S(35)|p.G244C(34)|p.G244D(32)|p.G244V(14)|p.G244G(13)|p.G244A(9)|p.0?(7)|p.G244fs*3(5)|p.G244R(3)|p.M243_G244>IC(1)|p.G244fs*19(1)|p.G244fs*17(1)|p.M243fs*18(1)|p.G244E(1)|p.S241_G245delSCMGG(1)|p.C242fs*98(1)|p.C242_M246>L(1)|p.G244del(1)|p.C238_M246delCNSSCMGGM(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)		GTTCATGCCGCCCATGCAGGA	0.577		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)			20	35	---	---	---	---	PASS	T	7577550	T	T	7577550	3	4	123	1	0	0	0	0	1	0	0	0	16378	739	26	3	559	3	TP53	17	7577550	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08		7577550	73617660	157	45324										
MYO15A	51168	broad.mit.edu	37	chr17	18022280	18022280	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	agaagggccagttccgcagcGcctcggccttcttctggggc	14	14	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr17:18022280G>A	uc010vxh.1	+	2	504	c.166G>A	c.(166-168)GCC>ACC	p.A56T		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	56	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GTTCCGCAGCGCCTCGGCCTT	0.607													20	17	---	---	---	---	PASS	A	18022280	A	A	18022280	3	1	123	1	0	0	0	0	1	0	0	0	10063	1087	38	1	168	1	MYO15A	17	18022280	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	10444730	18022280	63172930	158	45325										
ACCN1	40	broad.mit.edu	37	chr17	32483299	32483299	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gagggtcacagctgggaagaCcaggctttgagccaccactt	13	11	1	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr17:32483299C>G	uc002hhu.2	-	1	527	c.253G>C	c.(253-255)GTC>CTC	p.V85L		NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	85	Extracellular (By similarity).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	GCTGGGAAGACCAGGCTTTGA	0.582													30	53	---	---	---	---	PASS	G	32483299	G	G	32483299	3	3	123	1	0	0	0	0	1	0	0	0	128	507	18	4	2037	4	ACCN1	17	32483299	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	14461019	32483299	48711911	159	45326										
TMEM101	84336	broad.mit.edu	37	chr17	42089432	42089432	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	catcaatgagcagcatgacaGggggcagcagtacagccagg	14	10	1	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr17:42089432G>A	uc002ieu.2	-	4	663	c.638C>T	c.(637-639)CCT>CTT	p.P213L	TMEM101_uc010wis.1_Missense_Mutation_p.P155L	NM_032376	NP_115752	Q96IK0	TM101_HUMAN	transmembrane protein 101	213	Helical; (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		Breast(137;0.0264)|Prostate(33;0.0861)		BRCA - Breast invasive adenocarcinoma(366;0.113)		CAGCATGACAGGGGGCAGCAG	0.562													42	83	---	---	---	---	PASS	A	42089432	A	A	42089432	3	1	123	1	0	0	0	0	1	0	0	0	16013	1000	35	3	139	3	TMEM101	17	42089432	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	9606133	42089432	39105778	160	45327										
COL1A1	1277	broad.mit.edu	37	chr17	48275825	48275825	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gcacggaaattcctccggttGatttctcatcatagccataa	7	11	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr17:48275825G>A	uc002iqm.2	-	6	638	c.512C>T	c.(511-513)TCA>TTA	p.S171L		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	171	Nonhelical region (N-terminal).				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	TCCTCCGGTTGATTTCTCATC	0.522			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta				OREG0024560	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	25	---	---	---	---	PASS	A	48275825	A	A	48275825	3	1	123	1	0	0	0	0	1	0	0	0	3677	1294	45	2	4066	2	COL1A1	17	48275825	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	6186393	48275825	32919385	161	45328										
LRRC30	339291	broad.mit.edu	37	chr18	7231499	7231499	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ctcctacagtgcctcaaggtCctgtttgtcaacatgaactg	8	12	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr18:7231499C>G	uc010wzk.1	+	1	363	c.363C>G	c.(361-363)GTC>GTG	p.V121V		NM_001105581	NP_001099051	A6NM36	LRC30_HUMAN	leucine rich repeat containing 30	121	LRR 3.									ovary(1)|liver(1)	2						GCCTCAAGGTCCTGTTTGTCA	0.602													25	56	---	---	---	---	PASS	G	7231499	G	G	7231499	2	3	123	1	0	0	0	0	0	0	0	1	8985	842	30	2		2	LRRC30	18	7231499	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08		7231499	70845749	162	45329										
IMPACT	55364	broad.mit.edu	37	chr18	22007887	22007887	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aatcaatttctttcagaatgAggaaattgaagcaatggcag	9	5	3	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr18:22007887A>C	uc002kvh.3	+	2	153	c.41A>C	c.(40-42)GAG>GCG	p.E14A	IMPACT_uc002kvg.3_5'UTR	NM_018439	NP_060909	Q9P2X3	IMPCT_HUMAN	Impact homolog	14	RWD.										0	all_cancers(21;0.00018)|all_epithelial(16;1.5e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)					TTTCAGAATGAGGAAATTGAA	0.323													73	164	---	---	---	---	PASS	C	22007887	C	C	22007887	3	2	123	1	0	0	0	0	1	0	0	0	7724	304	11	5	47	5	IMPACT	18	22007887	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	14776388	22007887	56069361	163	45330										
CELF4	56853	broad.mit.edu	37	chr18	35145471	35145471	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cgtggtccttcatgggaatgGtcgacgggttccccgggctg	16	11	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr18:35145471G>A	uc002lae.2	-	1	530	c.134C>T	c.(133-135)ACC>ATC	p.T45I	CELF4_uc010dnd.1_Missense_Mutation_p.T45I|CELF4_uc002lag.2_Missense_Mutation_p.T45I|CELF4_uc002laf.2_Missense_Mutation_p.T41I|CELF4_uc002lai.2_Missense_Mutation_p.T41I	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	45	Sufficient for RNA-binding and MSE- dependent splicing activity.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						CATGGGAATGGTCGACGGGTT	0.612													22	54	---	---	---	---	PASS	A	35145471	A	A	35145471	3	1	123	1	0	0	0	0	1	0	0	0	3218	1261	44	3	1374	3	CELF4	18	35145471	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	13137584	35145471	42931777	164	45331										
DCC	1630	broad.mit.edu	37	chr18	50731683	50731683	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cctgcctatgcaaacggtccAgtccaaggttacagattgtt	9	11	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr18:50731683A>T	uc002lfe.1	+	10	2258	c.1671A>T	c.(1669-1671)CCA>CCT	p.P557P	DCC_uc010xdr.1_Silent_p.P405P|DCC_uc010dpf.1_Silent_p.P212P	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	557	Extracellular (Potential).|Fibronectin type-III 2.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		CAAACGGTCCAGTCCAAGGTT	0.488													84	208	---	---	---	---	PASS	T	50731683	T	T	50731683	2	4	123	1	0	0	0	0	0	0	0	1	4282	175	7	5		5	DCC	18	50731683	Silent	SNP	A	TCGA-60-2710-01A-01D-1522-08	15586212	50731683	27345565	165	45332										
SERPINB11	89778	broad.mit.edu	37	chr18	61390434	61390434	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gtcaccaaccaagggcctatAtttatcaaaagccatccaca	5	13	2	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr18:61390434A>G	uc002ljk.3	+	9	1042	c.980A>G	c.(979-981)TAT>TGT	p.Y327C	SERPINB11_uc010xes.1_Missense_Mutation_p.Y152C|SERPINB11_uc010dqd.2_Intron|SERPINB11_uc002ljj.3_Missense_Mutation_p.Y213C|SERPINB11_uc010dqe.2_Missense_Mutation_p.Y126C|SERPINB11_uc010dqf.2_Missense_Mutation_p.Y125C	NM_080475	NP_536723	Q96P15	SPB11_HUMAN	serpin peptidase inhibitor, clade B, member 11	327					regulation of proteolysis	cytoplasm	serine-type endopeptidase inhibitor activity			breast(1)	1		Esophageal squamous(42;0.129)				AAGGGCCTATATTTATCAAAA	0.478													19	39	---	---	---	---	PASS	G	61390434	G	G	61390434	3	3	123	1	0	0	0	0	1	0	0	0	14098	449	16	5	1006	5	SERPINB11	18	61390434	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	10658751	61390434	16686814	166	45333										
RTTN	25914	broad.mit.edu	37	chr18	67816249	67816249	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aaggagaatgcagttacccaGaggatcttctgtgtcggcat	12	8	2	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr18:67816249G>C	uc002lkp.2	-	17	2265	c.2197C>G	c.(2197-2199)CTG>GTG	p.L733V	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	733							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				CAGTTACCCAGAGGATCTTCT	0.368													62	133	---	---	---	---	PASS	C	67816249	C	C	67816249	3	2	123	1	0	0	0	0	1	0	0	0	13737	933	33	2	4615	2	RTTN	18	67816249	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	6425815	67816249	10260999	167	45334										
DOT1L	84444	broad.mit.edu	37	chr19	2210489	2210489	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gcccagagggcaaggtggccGgccccgccgacgcccccatg	15	18	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:2210489G>T	uc002lvb.3	+	13	1132	c.1096G>T	c.(1096-1098)GGC>TGC	p.G366C	DOT1L_uc002lvc.1_5'Flank	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	366						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAAGGTGGCCGGCCCCGCCGA	0.736													8	17	---	---	---	---	PASS	T	2210489	T	T	2210489	3	4	123	1	0	0	0	0	1	0	0	0	4709	1116	39	1	1146	1	DOT1L	19	2210489	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08		2210489	56918494	168	45335										
ZNF57	126295	broad.mit.edu	37	chr19	2917240	2917240	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgtgggcaaactttccaacaTcctcgttacctctcccacca	5	16	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:2917240T>A	uc002lwr.2	+	4	769	c.621T>A	c.(619-621)CAT>CAA	p.H207Q	ZNF57_uc010xha.1_Missense_Mutation_p.H175Q	NM_173480	NP_775751	Q68EA5	ZNF57_HUMAN	zinc finger protein 57	207	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.00161)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTTCCAACATCCTCGTTACC	0.498													29	72	---	---	---	---	PASS	A	2917240	A	A	2917240	3	1	123	1	0	0	0	0	1	0	0	0	17998	1432	50	5	635	5	ZNF57	19	2917240	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	706751	2917240	56211743	169	45336										
TUBB4	10382	broad.mit.edu	37	chr19	6501604	6501604	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gtatgtgcctgtggggtcgaTgccatgttcgtcactgataa	13	8	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:6501604T>A	uc002mfg.1	-	2	195	c.88A>T	c.(88-90)ATC>TTC	p.I30F	TUBB4_uc002mff.1_5'UTR	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	30					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		GTGGGGTCGATGCCATGTTCG	0.582													31	73	---	---	---	---	PASS	A	6501604	A	A	6501604	3	1	123	1	0	0	0	0	1	0	0	0	16755	1464	51	5	1258	5	TUBB4	19	6501604	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	3584364	6501604	52627379	170	45337										
RAVER1	125950	broad.mit.edu	37	chr19	10439562	10439562	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	caaagccatagcccttggatTggccagtgcgctcactgtag	11	12	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:10439562T>A	uc002moa.2	-	3	643	c.563A>T	c.(562-564)CAA>CTA	p.Q188L		NM_133452	NP_597709	Q8IY67	RAVR1_HUMAN	RAVER1	171	RRM 2.					cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.81e-09)|Epithelial(33;3.65e-06)|all cancers(31;8.35e-06)			GCCCTTGGATTGGCCAGTGCG	0.637													4	54	---	---	---	---	PASS	A	10439562	A	A	10439562	3	1	123	1	0	0	0	0	1	0	0	0	13094	1812	63	5	1751	5	RAVER1	19	10439562	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	3937958	10439562	48689421	171	45338										
KEAP1	9817	broad.mit.edu	37	chr19	10600447	10600447	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ccccacggcataaaggagacGattgaggacagccacgccca	11	14	0	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:10600447G>A	uc002moq.1	-	4	1564	c.1408C>T	c.(1408-1410)CGT>TGT	p.R470C	KEAP1_uc002mop.1_Missense_Mutation_p.R188C|KEAP1_uc002mor.1_Missense_Mutation_p.R470C	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	470	Kelch 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			TAAAGGAGACGATTGAGGACA	0.557													21	39	---	---	---	---	PASS	A	10600447	A	A	10600447	3	1	123	1	0	0	0	0	1	0	0	0	8141	1058	37	2	478	2	KEAP1	19	10600447	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	160885	10600447	48528536	172	45339										
ZNF442	79973	broad.mit.edu	37	chr19	12461559	12461559	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgagttctttcatgtcttacAtaggaactgtaatcagggaa	9	6	4	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:12461559A>G	uc002mtr.1	-	6	1451	c.840T>C	c.(838-840)TAT>TAC	p.Y280Y	ZNF442_uc010xmk.1_Silent_p.Y211Y	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	280	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						CATGTCTTACATAGGAACTGT	0.398													141	246	---	---	---	---	PASS	G	12461559	G	G	12461559	2	3	123	1	0	0	0	0	0	0	0	1	17912	224	8	5		5	ZNF442	19	12461559	Silent	SNP	A	TCGA-60-2710-01A-01D-1522-08	1861112	12461559	46667424	173	45340										
CCDC105	126402	broad.mit.edu	37	chr19	15131288	15131288	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cccagaccctggcctcctgcCgagacactctgaacttctgc	8	18	2	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:15131288C>T	uc002nae.2	+	3	790	c.691C>T	c.(691-693)CGA>TGA	p.R231*		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	231					microtubule cytoskeleton organization	microtubule				ovary(1)	1						GGCCTCCTGCCGAGACACTCT	0.587													6	29	---	---	---	---	PASS	T	15131288	T	T	15131288	4	4	123	1	0	0	0	0	0	1	0	0	2740	644	23	1	701	1	CCDC105	19	15131288	Nonsense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	2669729	15131288	43997695	174	45341										
ZNF101	94039	broad.mit.edu	37	chr19	19790295	19790295	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cacagtaacaccaactcgaaAgagaccttatgaatgcaagg	8	10	0	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:19790295A>G	uc002nni.1	+	4	607	c.497A>G	c.(496-498)AAG>AGG	p.K166R	ZNF101_uc010ecg.1_Missense_Mutation_p.K46R|ZNF101_uc002nnj.1_Missense_Mutation_p.K46R	NM_033204	NP_149981	Q8IZC7	ZN101_HUMAN	zinc finger protein 101	166					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CCAACTCGAAAGAGACCTTAT	0.468													59	162	---	---	---	---	PASS	G	19790295	G	G	19790295	3	3	123	1	0	0	0	0	1	0	0	0	17711	72	3	5	511	5	ZNF101	19	19790295	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	4659007	19790295	39338688	175	45342										
ZNF676	163223	broad.mit.edu	37	chr19	22362956	22362956	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gtatgaattatcttatgttcAgtaaggatcgaggaccagct	10	6	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:22362956A>T	uc002nqs.1	-	3	1881	c.1563T>A	c.(1561-1563)ACT>ACA	p.T521T		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	521	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				TCTTATGTTCAGTAAGGATCG	0.403													64	125	---	---	---	---	PASS	T	22362956	T	T	22362956	2	4	123	1	0	0	0	0	0	0	0	1	18080	175	7	5		5	ZNF676	19	22362956	Silent	SNP	A	TCGA-60-2710-01A-01D-1522-08	2572661	22362956	36766027	176	45343										
ZNF676	163223	broad.mit.edu	37	chr19	22364342	22364342	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	attttttggaaagaatcttcTatgccttgctctggccaaaa	7	8	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:22364342T>C	uc002nqs.1	-	3	495	c.177A>G	c.(175-177)ATA>ATG	p.I59M		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	59					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				AAGAATCTTCTATGCCTTGCT	0.303													29	53	---	---	---	---	PASS	C	22364342	C	C	22364342	3	2	123	1	0	0	0	0	1	0	0	0	18080	1512	53	5	1593	5	ZNF676	19	22364342	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	1386	22364342	36764641	177	45344										
ZNF91	7644	broad.mit.edu	37	chr19	23544209	23544209	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aaggattgtctaaaagctttGccacattcttcaaatttgta	6	7	3	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:23544209G>A	uc002nre.2	-	4	1685	c.1572C>T	c.(1570-1572)GGC>GGT	p.G524G	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Silent_p.G492G	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	524	C2H2-type 14; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				TAAAAGCTTTGCCACATTCTT	0.333													47	70	---	---	---	---	PASS	A	23544209	A	A	23544209	2	1	123	1	0	0	0	0	0	0	0	1	18197	1306	46	3		3	ZNF91	19	23544209	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	1179867	23544209	35584774	178	45345										
CEACAM5	1048	broad.mit.edu	37	chr19	42219744	42219744	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cccaacatcactgtgaataaTagtggatcctatacgtgcca	7	11	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:42219744T>C	uc002ork.2	+	4	1000	c.879T>C	c.(877-879)AAT>AAC	p.N293N	CEACAM5_uc010ehz.1_3'UTR|CEACAM5_uc002orj.1_Silent_p.N293N|CEACAM5_uc002orl.2_Silent_p.N293N	NM_004363	NP_004354	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion	293	Ig-like 3.					anchored to membrane|basolateral plasma membrane|integral to plasma membrane				skin(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		CTGTGAATAATAGTGGATCCT	0.493													40	66	---	---	---	---	PASS	C	42219744	C	C	42219744	2	2	123	1	0	0	0	0	0	0	0	1	3195	1403	49	5		5	CEACAM5	19	42219744	Silent	SNP	T	TCGA-60-2710-01A-01D-1522-08	18675535	42219744	16909239	179	45346										
CA11	770	broad.mit.edu	37	chr19	49143088	49143088	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ccaggccattggggccgcggGaggcagcgctgaaattcccg	16	13	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:49143088G>A	uc002pjz.1	-	5	1086	c.524C>T	c.(523-525)TCC>TTC	p.S175F	SEC1_uc010xzv.1_Intron|SEC1_uc002pka.2_Intron|SEC1_uc010xzw.1_Intron|SEC1_uc010ema.2_Intron|DBP_uc002pjx.3_5'Flank|DBP_uc002pjy.2_5'Flank|DBP_uc010elz.1_5'Flank	NM_001217	NP_001208	O75493	CAH11_HUMAN	carbonic anhydrase XI precursor	175						extracellular region					0		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000103)|all cancers(93;0.000119)|GBM - Glioblastoma multiforme(486;0.00634)|Epithelial(262;0.016)		GGGGCCGCGGGAGGCAGCGCT	0.488													49	110	---	---	---	---	PASS	A	49143088	A	A	49143088	3	1	123	1	0	0	0	0	1	0	0	0	2512	1174	41	2	482	2	CA11	19	49143088	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	6923344	49143088	9985895	180	45347										
ZNF761	388561	broad.mit.edu	37	chr19	53959049	53959049	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	caaattttgaaatacatcggAaaattcatactgaagacaat	5	6	1	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:53959049A>T	uc010eqp.2	+	7	1746	c.1288A>T	c.(1288-1290)AAA>TAA	p.K430*	ZNF761_uc010ydy.1_Nonsense_Mutation_p.K376*|ZNF761_uc002qbt.1_Nonsense_Mutation_p.K376*	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	430	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		AATACATCGGAAAATTCATAC	0.393													22	167	---	---	---	---	PASS	T	53959049	T	T	53959049	4	4	123	1	0	0	0	0	0	1	0	0	18133	247	9	5	1299	5	ZNF761	19	53959049	Nonsense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	4815961	53959049	5169934	181	45348										
NLRP13	126204	broad.mit.edu	37	chr19	56443409	56443409	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gtgaggtcagattcattgtcTggaagatgccgaggaccact	13	8	3	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:56443409T>C	uc010ygg.1	-	1	294	c.269A>G	c.(268-270)CAG>CGG	p.Q90R		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	90	DAPIN.						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)		ATTCATTGTCTGGAAGATGCC	0.507													11	139	---	---	---	---	PASS	C	56443409	C	C	56443409	3	2	123	1	0	0	0	0	1	0	0	0	10475	1580	55	5	2904	5	NLRP13	19	56443409	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	2484360	56443409	2685574	182	45349										
ZNF460	10794	broad.mit.edu	37	chr19	57802555	57802555	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aacacctccttcagcatcacAtcatccatactggggagaag	7	13	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:57802555A>G	uc002qog.2	+	3	968	c.646A>G	c.(646-648)ATC>GTC	p.I216V	ZNF460_uc010ygv.1_Missense_Mutation_p.I175V	NM_006635	NP_006626	Q14592	ZN460_HUMAN	zinc finger protein 460	216	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TCAGCATCACATCATCCATAC	0.527													45	110	---	---	---	---	PASS	G	57802555	G	G	57802555	3	3	123	1	0	0	0	0	1	0	0	0	17921	217	8	5	656	5	ZNF460	19	57802555	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	1359146	57802555	1326428	183	45350										
ZNF543	125919	broad.mit.edu	37	chr19	57839516	57839516	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tcaagtgaagccctatgaatGcacagagtgtgggaaaacct	11	8	1	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr19:57839516G>T	uc002qoi.1	+	4	1031	c.686G>T	c.(685-687)TGC>TTC	p.C229F		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	229	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		CCCTATGAATGCACAGAGTGT	0.448													48	89	---	---	---	---	PASS	T	57839516	T	T	57839516	3	4	123	1	0	0	0	0	1	0	0	0	17973	1319	46	3	700	3	ZNF543	19	57839516	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	36961	57839516	1289467	184	45351										
CHGB	1114	broad.mit.edu	37	chr20	5904465	5904465	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	aaaatgagctgaccttgaacGagaagaatttcttcccagaa	8	8	1	6			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr20:5904465G>A	uc002wmg.2	+	4	1981	c.1675G>A	c.(1675-1677)GAG>AAG	p.E559K	CHGB_uc010zqz.1_Missense_Mutation_p.E242K	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	559						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						GACCTTGAACGAGAAGAATTT	0.468													28	71	---	---	---	---	PASS	A	5904465	A	A	5904465	3	1	123	1	0	0	0	0	1	0	0	0	3339	1059	37	2	1689	2	CHGB	20	5904465	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08		5904465	57121055	185	45352										
SPTLC3	55304	broad.mit.edu	37	chr20	13074196	13074196	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cttggggcccgactctcaggTgcaaccataagaatcttcaa	9	12	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr20:13074196T>C	uc002wod.1	+	6	1087	c.798T>C	c.(796-798)GGT>GGC	p.G266G		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	266					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	GACTCTCAGGTGCAACCATAA	0.418													30	107	---	---	---	---	PASS	C	13074196	C	C	13074196	2	2	123	1	0	0	0	0	0	0	0	1	15124	1683	59	5		5	SPTLC3	20	13074196	Silent	SNP	T	TCGA-60-2710-01A-01D-1522-08	7169731	13074196	49951324	186	45353										
SEMG1	6406	broad.mit.edu	37	chr20	43836328	43836328	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cacagggtagttatacaccaTaaaggaggcaaagctcatcg	10	9	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr20:43836328T>C	uc002xni.2	+	2	447	c.390T>C	c.(388-390)CAT>CAC	p.H130H	SEMG1_uc002xnj.2_Silent_p.H130H|SEMG2_uc010ggz.2_Intron|SEMG1_uc002xnh.2_Silent_p.H130H	NM_003007	NP_002998	P04279	SEMG1_HUMAN	semenogelin I preproprotein	130					insemination|sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(2)	2		Myeloproliferative disorder(115;0.0122)				TTATACACCATAAAGGAGGCA	0.413													31	89	---	---	---	---	PASS	C	43836328	C	C	43836328	2	2	123	1	0	0	0	0	0	0	0	1	14044	1403	49	5		5	SEMG1	20	43836328	Silent	SNP	T	TCGA-60-2710-01A-01D-1522-08	30762132	43836328	19189192	187	45354										
MC3R	4159	broad.mit.edu	37	chr20	54824588	54824588	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	actgccacctgccgacggggTggccccacagcaacactcat	10	17	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr20:54824588T>C	uc002xxb.2	+	1	801	c.689T>C	c.(688-690)GTG>GCG	p.V230A		NM_019888	NP_063941	P41968	MC3R_HUMAN	melanocortin 3 receptor	267	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|protein binding			ovary(2)|breast(2)	4			Colorectal(105;0.202)			GCCGACGGGGTGGCCCCACAG	0.607													21	83	---	---	---	---	PASS	C	54824588	C	C	54824588	3	2	123	1	0	0	0	0	1	0	0	0	9365	1696	59	5	691	5	MC3R	20	54824588	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	10988260	54824588	8200932	188	45355										
PCK1	5105	broad.mit.edu	37	chr20	56138687	56138687	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ccgcatttcccagcgcctgcGggaagaccaacctggccatg	11	16	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr20:56138687G>T	uc002xyn.3	+	6	1028	c.865G>T	c.(865-867)GGG>TGG	p.G289W	PCK1_uc010zzm.1_Intron	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	289	GTP.				gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			CAGCGCCTGCGGGAAGACCAA	0.547													54	101	---	---	---	---	PASS	T	56138687	T	T	56138687	3	4	123	1	0	0	0	0	1	0	0	0	11581	1116	39	1	883	1	PCK1	20	56138687	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	1314099	56138687	6886833	189	45356										
TMPRSS15	5651	broad.mit.edu	37	chr21	19744574	19744574	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tctccatcacaaaataaatcAgcttttatacacgttagagc	4	10	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr21:19744574A>T	uc002ykw.2	-	6	631	c.600T>A	c.(598-600)GCT>GCA	p.A200A		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	200	Extracellular (Potential).|LDL-receptor class A 1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						AAAATAAATCAGCTTTTATAC	0.378													42	80	---	---	---	---	PASS	T	19744574	T	T	19744574	2	4	123	1	0	0	0	0	0	0	0	1	16243	175	7	5		5	TMPRSS15	21	19744574	Silent	SNP	A	TCGA-60-2710-01A-01D-1522-08		19744574	28385321	190	45357										
SON	6651	broad.mit.edu	37	chr21	34925604	34925604	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ggctgccccagagtcttcagCtatggctgtcctggagtctt	12	12	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr21:34925604C>T	uc002yse.1	+	3	4116	c.4067C>T	c.(4066-4068)GCT>GTT	p.A1356V	SON_uc002ysb.1_Missense_Mutation_p.A1356V|SON_uc002ysc.2_Missense_Mutation_p.A1356V|SON_uc002ysd.2_Missense_Mutation_p.A347V|SON_uc002ysf.1_Intron|SON_uc002ysg.2_Missense_Mutation_p.A347V	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	1356					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						GAGTCTTCAGCTATGGCTGTC	0.552													17	28	---	---	---	---	PASS	T	34925604	T	T	34925604	3	4	123	1	0	0	0	0	1	0	0	0	14926	797	28	3	4077	3	SON	21	34925604	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	15181030	34925604	13204291	191	45358										
SGSM1	129049	broad.mit.edu	37	chr22	25275485	25275485	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ccagatcctctccagagcctTctatggatgtacgtataggg	10	11	2	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr22:25275485T>A	uc003abg.2	+	15	1809	c.1652T>A	c.(1651-1653)TTC>TAC	p.F551Y	SGSM1_uc003abh.2_Missense_Mutation_p.F551Y|SGSM1_uc010guu.1_Missense_Mutation_p.F496Y|SGSM1_uc003abj.2_Missense_Mutation_p.F496Y|SGSM1_uc003abi.1_Missense_Mutation_p.F471Y	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	551						Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						TCCAGAGCCTTCTATGGATGT	0.453													14	39	---	---	---	---	PASS	A	25275485	A	A	25275485	3	1	123	1	0	0	0	0	1	0	0	0	14222	1783	62	5	1710	5	SGSM1	22	25275485	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08		25275485	26029081	192	45359										
HSCB	150274	broad.mit.edu	37	chr22	29138228	29138228	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ggaactgcggcggcccatggGgccccgggcgggaggacagg	21	12	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr22:29138228G>C	uc003aea.2	+	1	186	c.145G>C	c.(145-147)GGC>CGC	p.G49R	CHEK2_uc003adt.1_5'Flank|CHEK2_uc003adu.1_5'Flank|CHEK2_uc003adv.1_5'Flank|CHEK2_uc003adw.1_5'Flank|CHEK2_uc003adx.1_5'Flank|CHEK2_uc003ady.1_5'Flank|CHEK2_uc003adz.1_5'Flank	NM_172002	NP_741999	Q8IWL3	HSC20_HUMAN	J-type co-chaperone HSC20 precursor	49					iron-sulfur cluster assembly|protein folding	mitochondrion	chaperone binding|heat shock protein binding|metal ion binding			kidney(1)	1						CGGCCCATGGGGCCCCGGGCG	0.647													43	62	---	---	---	---	PASS	C	29138228	C	C	29138228	3	2	123	1	0	0	0	0	1	0	0	0	7374	1232	43	4	147	4	HSCB	22	29138228	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	3862743	29138228	22166338	193	45360										
PKDREJ	10343	broad.mit.edu	37	chr22	46655253	46655253	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gcatatgaacagccaaatgtGcctgctaaacagattttcca	7	10	0	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chr22:46655253G>A	uc003bhh.2	-	1	3967	c.3967C>T	c.(3967-3969)CAC>TAC	p.H1323Y		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1323	Cytoplasmic (Potential).|PLAT.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		AGCCAAATGTGCCTGCTAAAC	0.453													61	135	---	---	---	---	PASS	A	46655253	A	A	46655253	3	1	123	1	0	0	0	0	1	0	0	0	11970	1319	46	3	2798	3	PKDREJ	22	46655253	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	17517025	46655253	4649313	194	45361										
SFRS17A	8227	broad.mit.edu	37	chrX	1714314	1714314	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	caaacacctgagtgatgcctCaattaagaagcggcagctgg	11	10	1	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:1714314C>T	uc004cqa.2	+	3	996	c.800C>T	c.(799-801)TCA>TTA	p.S267L	SFRS17A_uc010ncx.1_Missense_Mutation_p.S267L|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'Flank	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	267					B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AGTGATGCCTCAATTAAGAAG	0.517													84	219	---	---	---	---	PASS	T	1714314	T	T	1714314	3	4	123	1	0	0	0	0	1	0	0	0	14173	838	29	2	806	2	SFRS17A	23	1714314	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08		1714314	153556246	195	45362										
NHS	4810	broad.mit.edu	37	chrX	17745563	17745563	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	atccactgcatgtttttactCataataagcagaacacagta	5	9	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:17745563C>T	uc004cxx.2	+	6	3612	c.3274C>T	c.(3274-3276)CAT>TAT	p.H1092Y	NHS_uc011mix.1_Missense_Mutation_p.H1113Y|NHS_uc004cxy.2_Missense_Mutation_p.H936Y|NHS_uc004cxz.2_Missense_Mutation_p.H915Y|NHS_uc004cya.2_Missense_Mutation_p.H815Y	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1092						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					TGTTTTTACTCATAATAAGCA	0.423													106	255	---	---	---	---	PASS	T	17745563	T	T	17745563	3	4	123	1	0	0	0	0	1	0	0	0	10411	826	29	2	3401	2	NHS	23	17745563	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	16031249	17745563	137524997	196	45363										
CDKL5	6792	broad.mit.edu	37	chrX	18671607	18671607	+	Missense_Mutation	SNP	G	T	T													0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gccctgattcacagggcccaGgtaaaccaagctgcgctcct							TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:18671607G>T	uc004cym.2	+	21	3289	c.3036G>T	c.(3034-3036)CAG>CAT	p.Q1012H	CDKL5_uc004cyn.2_Missense_Mutation_p.Q1012H|RS1_uc004cyo.2_Intron	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	1012					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					ACAGGGCCCAGGTAAACCAAG	0.567													12	61	---	---	---	---	PASS	T	18671607	T	T	18671607	3	4	123	1	0	0	0	0	1	0	0	0	3157	991	35	3	3114	3	CDKL5	23	18671607	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	926044	18671607	136598953	197	45364	839	2								
CDKL5	6792	broad.mit.edu	37	chrX	18671608	18671608	+	Missense_Mutation	SNP	G	T	T													0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ccctgattcacagggcccagGtaaaccaagctgcgctcctg							TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:18671608G>T	uc004cym.2	+	21	3290	c.3037G>T	c.(3037-3039)GTA>TTA	p.V1013L	CDKL5_uc004cyn.2_Missense_Mutation_p.V1013L|RS1_uc004cyo.2_Intron	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	1013					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					CAGGGCCCAGGTAAACCAAGC	0.567													12	62	---	---	---	---	PASS	T	18671608	T	T	18671608	3	4	123	1	0	0	0	0	1	0	0	0	3157	1261	44	3	3115	3	CDKL5	23	18671608	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	1	18671608	136598952	198	45365	839	2								
IL1RAPL1	11141	broad.mit.edu	37	chrX	29938132	29938132	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	attgtggactctgtggaagaAggtgacttgggaaattactc	13	5	1	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:29938132A>C	uc004dby.2	+	8	1486	c.978A>C	c.(976-978)GAA>GAC	p.E326D		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	326	Extracellular (Potential).|Ig-like C2-type 3.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						CTGTGGAAGAAGGTGACTTGG	0.408													78	171	---	---	---	---	PASS	C	29938132	C	C	29938132	3	2	123	1	0	0	0	0	1	0	0	0	7661	69	3	5	1004	5	IL1RAPL1	23	29938132	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	11266524	29938132	125332428	199	45366										
PHF16	9767	broad.mit.edu	37	chrX	46893157	46893157	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	accaagacagggactaaatgGgctcatgtcagctgtgccct	11	11	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:46893157G>T	uc004dgx.2	+	7	873	c.822G>T	c.(820-822)TGG>TGT	p.W274C	PHF16_uc004dgy.2_Missense_Mutation_p.W274C	NM_001077445	NP_001070913	Q92613	JADE3_HUMAN	PHD finger protein 16	274					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0						GGACTAAATGGGCTCATGTCA	0.542													7	15	---	---	---	---	PASS	T	46893157	T	T	46893157	3	4	123	1	0	0	0	0	1	0	0	0	11827	1241	43	3	844	3	PHF16	23	46893157	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	16955025	46893157	108377403	200	45367										
PPP1R3F	89801	broad.mit.edu	37	chrX	49142924	49142924	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgtcacaccctccagcccagAaggggacagccccaaggaat	10	15	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:49142924A>C	uc004dnh.1	+	4	1788	c.1772A>C	c.(1771-1773)GAA>GCA	p.E591A	PPP1R3F_uc011mnd.1_Missense_Mutation_p.E262A|PPP1R3F_uc004dni.2_Missense_Mutation_p.E245A|PPP1R3F_uc004dnj.1_Missense_Mutation_p.E245A	NM_033215	NP_149992	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory (inhibitor)	591	Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	Ovarian(276;0.236)					TCCAGCCCAGAAGGGGACAGC	0.637													20	47	---	---	---	---	PASS	C	49142924	C	C	49142924	3	2	123	1	0	0	0	0	1	0	0	0	12375	246	9	5	1786	5	PPP1R3F	23	49142924	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	2249767	49142924	106127636	201	45368										
HUWE1	10075	broad.mit.edu	37	chrX	53573708	53573708	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tttcagtgaggccagaggacAccatcttaaagtctgtactg	10	9	3	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:53573708A>T	uc004dsp.2	-	69	11117	c.10715T>A	c.(10714-10716)GTG>GAG	p.V3572E	HUWE1_uc004dsn.2_Missense_Mutation_p.V2380E|HUWE1_uc004dsq.1_5'Flank	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3572					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GCCAGAGGACACCATCTTAAA	0.493													10	48	---	---	---	---	PASS	T	53573708	T	T	53573708	3	4	123	1	0	0	0	0	1	0	0	0	7461	159	6	5	2473	5	HUWE1	23	53573708	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	4430784	53573708	101696852	202	45369										
HUWE1	10075	broad.mit.edu	37	chrX	53596671	53596671	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	acctgggcatctgtgccactCcctgcagcagccaggcttgc	11	16	1	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:53596671C>A	uc004dsp.2	-	48	6831	c.6429G>T	c.(6427-6429)GGG>GGT	p.G2143G	HUWE1_uc004dsn.2_Silent_p.G967G	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2143					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CTGTGCCACTCCCTGCAGCAG	0.572													34	139	---	---	---	---	PASS	A	53596671	A	A	53596671	2	1	123	1	0	0	0	0	0	0	0	1	7461	842	30	2		2	HUWE1	23	53596671	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08	22963	53596671	101673889	203	45370										
WNK3	65267	broad.mit.edu	37	chrX	54321216	54321216	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ttgtcttctttattggcgtcAcccggtctctaatggattta	8	9	4	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:54321216A>G	uc004dtd.1	-	8	1902	c.1463T>C	c.(1462-1464)GTG>GCG	p.V488A	WNK3_uc004dtc.1_Missense_Mutation_p.V488A	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	488					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						TATTGGCGTCACCCGGTCTCT	0.438													25	86	---	---	---	---	PASS	G	54321216	G	G	54321216	3	3	123	1	0	0	0	0	1	0	0	0	17376	159	6	5	4007	5	WNK3	23	54321216	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	724545	54321216	100949344	204	45371										
ARHGEF9	23229	broad.mit.edu	37	chrX	62885773	62885773	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ggggcagggttaccttcttgCagaggaccatctggtggtca	15	9	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:62885773C>A	uc004dvl.2	-	7	1888	c.1049G>T	c.(1048-1050)TGC>TTC	p.C350F	ARHGEF9_uc004dvj.1_Missense_Mutation_p.C239F|ARHGEF9_uc004dvk.1_Intron|ARHGEF9_uc011mos.1_Missense_Mutation_p.C329F|ARHGEF9_uc004dvm.1_Missense_Mutation_p.C329F|ARHGEF9_uc011mot.1_Missense_Mutation_p.C297F|ARHGEF9_uc004dvn.2_Missense_Mutation_p.C357F	NM_015185	NP_056000	O43307	ARHG9_HUMAN	Cdc42 guanine exchange factor 9	350	PH.				apoptosis|induction of apoptosis by extracellular signals|ion transmembrane transport|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(5)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	8						TACCTTCTTGCAGAGGACCAT	0.587													11	38	---	---	---	---	PASS	A	62885773	A	A	62885773	3	1	123	1	0	0	0	0	1	0	0	0	912	710	25	3	517	3	ARHGEF9	23	62885773	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	8564557	62885773	92384787	205	45372										
HEPH	9843	broad.mit.edu	37	chrX	65408293	65408293	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tagatgagaacctcagctggCatctcaatgagaacattgcc	9	10	2	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:65408293C>A	uc011moz.1	+	5	787	c.727C>A	c.(727-729)CAT>AAT	p.H243N	HEPH_uc004dwn.2_Missense_Mutation_p.H243N|HEPH_uc004dwo.2_5'UTR|HEPH_uc010nkr.2_Missense_Mutation_p.H243N|HEPH_uc011mpa.1_Missense_Mutation_p.H243N	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	240	Extracellular (Potential).|Plastocyanin-like 2.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						CCTCAGCTGGCATCTCAATGA	0.502													12	28	---	---	---	---	PASS	A	65408293	A	A	65408293	3	1	123	1	0	0	0	0	1	0	0	0	7054	710	25	3	898	3	HEPH	23	65408293	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	2522520	65408293	89862267	206	45373										
FOXO4	4303	broad.mit.edu	37	chrX	70321032	70321032	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	atctcacctcttcccattccCtgctatctcggagtggtctc	6	16	4	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:70321032C>T	uc004dys.1	+	2	1305	c.952C>T	c.(952-954)CTG>TTG	p.L318L	FOXO4_uc010nkz.2_Intron|FOXO4_uc004dyt.1_Silent_p.L263L	NM_005938	NP_005929	P98177	FOXO4_HUMAN	forkhead box O4	318					cell cycle arrest|cell differentiation|embryo development|G1 phase of mitotic cell cycle|insulin receptor signaling pathway|mitotic cell cycle G2/M transition DNA damage checkpoint|muscle organ development|negative regulation of angiogenesis|negative regulation of cell proliferation|negative regulation of smooth muscle cell differentiation|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase 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			central_nervous_system(2)|prostate(1)	3	Renal(35;0.156)					TTCCCATTCCCTGCTATCTCG	0.552											OREG0019856	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	143	---	---	---	---	PASS	T	70321032	T	T	70321032	2	4	123	1	0	0	0	0	0	0	0	1	6025	680	24	3		3	FOXO4	23	70321032	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08	4912739	70321032	84949528	207	45374										
IL2RG	3561	broad.mit.edu	37	chrX	70328447	70328447	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tctgggcttctccaaatctcAccgttccagccagaaataca	6	14	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:70328447A>C	uc004dyw.1	-	6	868	c.854_splice	c.e6+1	p.R285_splice	CXorf65_uc011mpo.1_5'Flank|CXorf65_uc011mpp.1_5'Flank|IL2RG_uc004dyv.1_Intron|IL2RG_uc004dyx.1_Splice_Site_p.R95_splice	NM_000206	NP_000197	P31785	IL2RG_HUMAN	interleukin 2 receptor, gamma precursor						immune response|interleukin-4-mediated signaling pathway|interspecies interaction between organisms	external side of plasma membrane|integral to plasma membrane	cytokine receptor activity|interleukin-2 binding			pancreas(1)	1	Renal(35;0.156)				Aldesleukin(DB00041)|Denileukin diftitox(DB00004)	TCCAAATCTCACCGTTCCAGC	0.463									Severe_Combined_Immunodeficiency_X-linked				6	13	---	---	---	---	PASS	C	70328447	C	C	70328447	5	2	123	1	0	0	0	0	0	0	1	0	7688	173	6	5	265	5	IL2RG	23	70328447	Splice_Site	SNP	A	TCGA-60-2710-01A-01D-1522-08	7415	70328447	84942113	208	45375										
MED12	9968	broad.mit.edu	37	chrX	70351922	70351922	+	Splice_Site	SNP	G	T	T													0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgtgcctttcatcctccccaGgagatgaactccctcttgga							TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:70351922G>T	uc004dyy.2	+	30	4319	c.4120_splice	c.e30-1	p.E1374_splice	MED12_uc011mpq.1_Splice_Site_p.E1374_splice|MED12_uc004dyz.2_Splice_Site_p.E1374_splice|MED12_uc004dza.2_Splice_Site_p.E1221_splice|MED12_uc010nla.2_Intron	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12						androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					ATCCTCCCCAGGAGATGAACT	0.498													32	112	---	---	---	---	PASS	T	70351922	T	T	70351922	5	4	123	1	0	0	0	0	0	0	1	0	9428	1014	35	3	4237	3	MED12	23	70351922	Splice_Site	SNP	G	TCGA-60-2710-01A-01D-1522-08	23475	70351922	84918638	209	45376	840	2								
MED12	9968	broad.mit.edu	37	chrX	70351923	70351923	+	Nonsense_Mutation	SNP	G	T	T													0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gtgcctttcatcctccccagGagatgaactccctcttggag							TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:70351923G>T	uc004dyy.2	+	30	4319	c.4120G>T	c.(4120-4122)GAG>TAG	p.E1374*	MED12_uc011mpq.1_Nonsense_Mutation_p.E1374*|MED12_uc004dyz.2_Nonsense_Mutation_p.E1374*|MED12_uc004dza.2_Nonsense_Mutation_p.E1221*|MED12_uc010nla.2_Intron	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1374					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					TCCTCCCCAGGAGATGAACTC	0.493													31	110	---	---	---	---	PASS	T	70351923	T	T	70351923	4	4	123	1	0	0	0	0	0	1	0	0	9428	1188	41	2	4238	2	MED12	23	70351923	Nonsense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	1	70351923	84918637	210	45377	840	2								
BRWD3	254065	broad.mit.edu	37	chrX	79978075	79978075	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	acataccattagccacatatCccagctgtggtataagctgt	7	11	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:79978075C>A	uc004edt.2	-	17	2125	c.1862G>T	c.(1861-1863)GGA>GTA	p.G621V	BRWD3_uc010nmi.1_5'Flank|BRWD3_uc004edo.2_Missense_Mutation_p.G217V|BRWD3_uc004edp.2_Missense_Mutation_p.G450V|BRWD3_uc004edq.2_Missense_Mutation_p.G217V|BRWD3_uc010nmj.1_Missense_Mutation_p.G217V|BRWD3_uc004edr.2_Missense_Mutation_p.G291V|BRWD3_uc004eds.2_Missense_Mutation_p.G217V|BRWD3_uc004edu.2_Missense_Mutation_p.G291V|BRWD3_uc004edv.2_Missense_Mutation_p.G217V|BRWD3_uc004edw.2_Missense_Mutation_p.G217V|BRWD3_uc004edx.2_Missense_Mutation_p.G217V|BRWD3_uc004edy.2_Missense_Mutation_p.G217V|BRWD3_uc004edz.2_Missense_Mutation_p.G291V|BRWD3_uc004eea.2_Missense_Mutation_p.G291V|BRWD3_uc004eeb.2_Missense_Mutation_p.G217V	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	621										ovary(4)	4						AGCCACATATCCCAGCTGTGG	0.383													51	169	---	---	---	---	PASS	A	79978075	A	A	79978075	3	1	123	1	0	0	0	0	1	0	0	0	1526	855	30	2	3646	2	BRWD3	23	79978075	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	9626152	79978075	75292485	211	45378										
BRWD3	254065	broad.mit.edu	37	chrX	79999534	79999534	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tttatcacttttcttacctgTatggaagtaatagaagctga	7	6	2	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:79999534T>A	uc004edt.2	-	8	1073	c.810A>T	c.(808-810)ATA>ATT	p.I270I	BRWD3_uc004edo.2_5'UTR|BRWD3_uc004edp.2_Silent_p.I99I|BRWD3_uc004edq.2_5'UTR|BRWD3_uc010nmj.1_5'UTR|BRWD3_uc004edr.2_5'UTR|BRWD3_uc004eds.2_5'UTR|BRWD3_uc004edu.2_5'UTR|BRWD3_uc004edv.2_5'UTR|BRWD3_uc004edw.2_5'UTR|BRWD3_uc004edx.2_5'UTR|BRWD3_uc004edy.2_5'UTR|BRWD3_uc004edz.2_5'UTR|BRWD3_uc004eea.2_5'UTR|BRWD3_uc004eeb.2_Intron	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	270	WD 4.									ovary(4)	4						TTCTTACCTGTATGGAAGTAA	0.378													50	157	---	---	---	---	PASS	A	79999534	A	A	79999534	2	1	123	1	0	0	0	0	0	0	0	1	1526	1628	57	5		5	BRWD3	23	79999534	Silent	SNP	T	TCGA-60-2710-01A-01D-1522-08	21459	79999534	75271026	212	45379										
CPXCR1	53336	broad.mit.edu	37	chrX	88008902	88008902	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tatgtgatagatatttctctCaggctgcagggtgtcagaat	11	6	3	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:88008902C>T	uc004efd.3	+	3	746	c.487C>T	c.(487-489)CAG>TAG	p.Q163*	CPXCR1_uc004efc.3_Nonsense_Mutation_p.Q163*	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	163						intracellular	zinc ion binding			ovary(3)	3						ATATTTCTCTCAGGCTGCAGG	0.388													32	119	---	---	---	---	PASS	T	88008902	T	T	88008902	4	4	123	1	0	0	0	0	0	1	0	0	3836	827	29	2	489	2	CPXCR1	23	88008902	Nonsense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	8009368	88008902	67261658	213	45380										
PCDH11X	27328	broad.mit.edu	37	chrX	91131779	91131779	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gtttcattgcatgttttccaGagtcaaaacatttttggcct	7	8	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:91131779G>T	uc004efk.1	+	2	1386	c.541_splice	c.e2-1	p.S181_splice	PCDH11X_uc004efl.1_Splice_Site_p.S181_splice|PCDH11X_uc004efo.1_Splice_Site_p.S181_splice|PCDH11X_uc010nmv.1_Splice_Site_p.S181_splice|PCDH11X_uc004efm.1_Splice_Site_p.S181_splice|PCDH11X_uc004efn.1_Splice_Site_p.S181_splice|PCDH11X_uc004efh.1_Splice_Site_p.S181_splice|PCDH11X_uc004efj.1_Splice_Site_p.S181_splice	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c						homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ATGTTTTCCAGAGTCAAAACA	0.274													27	104	---	---	---	---	PASS	T	91131779	T	T	91131779	5	4	123	1	0	0	0	0	0	0	1	0	11508	956	33	2	546	2	PCDH11X	23	91131779	Splice_Site	SNP	G	TCGA-60-2710-01A-01D-1522-08	3122877	91131779	64138781	214	45381										
ARMCX2	9823	broad.mit.edu	37	chrX	100912250	100912250	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ggcctgactgcctgccccacTctgagcctcagcgctggatg	12	16	2	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:100912250T>A	uc004eid.2	-	3	680	c.325A>T	c.(325-327)AGT>TGT	p.S109C	ARMCX2_uc004eie.3_Missense_Mutation_p.S109C|ARMCX2_uc004eif.3_Missense_Mutation_p.S109C|ARMCX2_uc004eig.3_Missense_Mutation_p.S109C|ARMCX2_uc010nnt.2_Missense_Mutation_p.S109C	NM_177949	NP_808818	Q7L311	ARMX2_HUMAN	ALEX2 protein	109	Ala-rich.					integral to membrane	binding			ovary(6)	6						CCTGCCCCACTCTGAGCCTCA	0.627													96	99	---	---	---	---	PASS	A	100912250	A	A	100912250	3	1	123	1	0	0	0	0	1	0	0	0	960	1551	54	5	1577	5	ARMCX2	23	100912250	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	9780471	100912250	54358310	215	45382										
COL4A5	1287	broad.mit.edu	37	chrX	107869498	107869498	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gttcctggacaacctggctcCccaggattacctggacagaa	10	13	0	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:107869498C>T	uc004enz.1	+	36	3367	c.3165C>T	c.(3163-3165)TCC>TCT	p.S1055S	COL4A5_uc011mso.1_Silent_p.S1055S|COL4A5_uc004eob.1_Silent_p.S663S	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	1055	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						AACCTGGCTCCCCAGGATTAC	0.458									Alport_syndrome_with_Diffuse_Leiomyomatosis				36	232	---	---	---	---	PASS	T	107869498	T	T	107869498	2	4	123	1	0	0	0	0	0	0	0	1	3694	610	22	3		3	COL4A5	23	107869498	Silent	SNP	C	TCGA-60-2710-01A-01D-1522-08	6957248	107869498	47401062	216	45383										
AMMECR1	9949	broad.mit.edu	37	chrX	109444273	109444273	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gtctatggtctgtatatggtCccatcctgtagagagatgac	11	8	2	3			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:109444273C>T	uc004eoo.2	-	5	877	c.796G>A	c.(796-798)GAC>AAC	p.D266N	AMMECR1_uc004eop.2_Missense_Mutation_p.D229N|AMMECR1_uc004eoq.2_Missense_Mutation_p.D143N	NM_015365	NP_056180	Q9Y4X0	AMER1_HUMAN	AMMECR1 protein isoform 1	266	AMMECR1.										0						TGTATATGGTCCCATCCTGTA	0.378													81	258	---	---	---	---	PASS	T	109444273	T	T	109444273	3	4	123	1	0	0	0	0	1	0	0	0	578	855	30	2	213	2	AMMECR1	23	109444273	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	1574775	109444273	45826287	217	45384										
RGAG1	57529	broad.mit.edu	37	chrX	109694824	109694824	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tgtccacaccgctactgtcaGtcccagatgctggagaaatg	10	12	1	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:109694824G>C	uc004eor.1	+	3	1225	c.979G>C	c.(979-981)GTC>CTC	p.V327L	RGAG1_uc011msr.1_Missense_Mutation_p.V327L	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	327										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GCTACTGTCAGTCCCAGATGC	0.498													206	630	---	---	---	---	PASS	C	109694824	C	C	109694824	3	2	123	1	0	0	0	0	1	0	0	0	13274	1029	36	4	981	4	RGAG1	23	109694824	Missense_Mutation	SNP	G	TCGA-60-2710-01A-01D-1522-08	250551	109694824	45575736	218	45385										
ALG13	79868	broad.mit.edu	37	chrX	111002983	111002983	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tacttttccgaatgctgattCttcatctgtccctcatggag	7	11	4	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:111002983C>A	uc011msy.1	+	27	3204	c.3170C>A	c.(3169-3171)TCT>TAT	p.S1057Y	ALG13_uc011msx.1_Missense_Mutation_p.S874Y|ALG13_uc011msz.1_Missense_Mutation_p.S979Y|ALG13_uc011mta.1_Missense_Mutation_p.S874Y|ALG13_uc011mtb.1_Missense_Mutation_p.S874Y			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	1057					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						AATGCTGATTCTTCATCTGTC	0.423													11	43	---	---	---	---	PASS	A	111002983	A	A	111002983	3	1	123	1	0	0	0	0	1	0	0	0	515	913	32	2	3418	2	ALG13	23	111002983	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	1308159	111002983	44267577	219	45386										
TRPC5	7224	broad.mit.edu	37	chrX	111025340	111025340	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	atccagagcttcgtccttgcAaacttccactcgatatcagc	6	14	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:111025340A>G	uc004epl.1	-	8	2842	c.1923T>C	c.(1921-1923)TTT>TTC	p.F641F	TRPC5_uc004epm.1_Silent_p.F641F	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	641	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						TCGTCCTTGCAAACTTCCACT	0.428													48	211	---	---	---	---	PASS	G	111025340	G	G	111025340	2	3	123	1	0	0	0	0	0	0	0	1	16579	127	5	5		5	TRPC5	23	111025340	Silent	SNP	A	TCGA-60-2710-01A-01D-1522-08	22357	111025340	44245220	220	45387										
LRCH2	57631	broad.mit.edu	37	chrX	114422790	114422790	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ttttaaattgtttccttaccTaatgttaaggtatgttaaca	5	5	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:114422790T>A	uc010nqe.2	-	2	524	c.493A>T	c.(493-495)AGC>TGC	p.S165C	LRCH2_uc004epz.2_Missense_Mutation_p.S165C|RBMXL3_uc011mte.1_5'Flank	NM_020871	NP_065922	Q5VUJ6	LRCH2_HUMAN	leucine-rich repeats and calponin homology (CH)	165	LRR 4.									ovary(1)	1						TTTCCTTACCTAATGTTAAGG	0.284													4	22	---	---	---	---	PASS	A	114422790	A	A	114422790	3	1	123	1	0	0	0	0	1	0	0	0	8933	1536	53	5	1884	5	LRCH2	23	114422790	Missense_Mutation	SNP	T	TCGA-60-2710-01A-01D-1522-08	3397450	114422790	40847770	221	45388										
ODZ1	10178	broad.mit.edu	37	chrX	123615730	123615730	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	acaagagatttcaacttgtaGactttgcgagtattggtgtc	10	6	1	2			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:123615730G>T	uc004euj.2	-	21	3844	c.3780C>A	c.(3778-3780)GTC>GTA	p.V1260V	ODZ1_uc011muj.1_Silent_p.V1266V|ODZ1_uc010nqy.2_Silent_p.V1267V	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1260	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TCAACTTGTAGACTTTGCGAG	0.438													152	223	---	---	---	---	PASS	T	123615730	T	T	123615730	2	4	123	1	0	0	0	0	0	0	0	1	10834	929	33	2		2	ODZ1	23	123615730	Silent	SNP	G	TCGA-60-2710-01A-01D-1522-08	9192940	123615730	31654830	222	45389										
OCRL	4952	broad.mit.edu	37	chrX	128722228	128722228	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	attgtctggataccagcattCctgagacaatccgtatcctt	7	11	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:128722228C>A	uc004euq.2	+	21	2494	c.2329C>A	c.(2329-2331)CCT>ACT	p.P777T	OCRL_uc004eur.2_Missense_Mutation_p.P769T|OCRL_uc010nrb.2_5'Flank	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	777	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TACCAGCATTCCTGAGACAAT	0.443													40	143	---	---	---	---	PASS	A	128722228	A	A	128722228	3	1	123	1	0	0	0	0	1	0	0	0	10823	855	30	2	2411	2	OCRL	23	128722228	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	5106498	128722228	26548332	223	45390										
IGSF1	3547	broad.mit.edu	37	chrX	130419191	130419191	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gggggttgctgggctctgacCacagggtggggagcatctgg	20	8	2	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:130419191C>T	uc004ewd.2	-	5	867	c.629G>A	c.(628-630)TGG>TAG	p.W210*	IGSF1_uc004ewe.3_Nonsense_Mutation_p.W199*|IGSF1_uc004ewf.2_Nonsense_Mutation_p.W190*|IGSF1_uc004ewg.2_Nonsense_Mutation_p.W210*	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	210	Ig-like C2-type 2.|Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GGGCTCTGACCACAGGGTGGG	0.552													37	168	---	---	---	---	PASS	T	130419191	T	T	130419191	4	4	123	1	0	0	0	0	0	1	0	0	7596	595	21	3	3522	3	IGSF1	23	130419191	Nonsense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	1696963	130419191	24851369	224	45391										
SLC9A6	10479	broad.mit.edu	37	chrX	135067759	135067759	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	gcccctttggttgctcctcgCagtgggcgtctttgactggg	14	12	1	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:135067759C>T	uc004ezj.2	+	1	174	c.98C>T	c.(97-99)GCA>GTA	p.A33V	SLC9A6_uc004ezk.2_Missense_Mutation_p.A33V|SLC9A6_uc011mvx.1_Intron	NM_006359	NP_006350	Q92581	SL9A6_HUMAN	solute carrier family 9 (sodium/hydrogen	33	Helical; (Potential).				regulation of pH	early endosome membrane|endoplasmic reticulum membrane|integral to membrane|microsome|plasma membrane|recycling endosome membrane	sodium:hydrogen antiporter activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TTGCTCCTCGCAGTGGGCGTC	0.711													20	57	---	---	---	---	PASS	T	135067759	T	T	135067759	3	4	123	1	0	0	0	0	1	0	0	0	14718	710	25	3	100	3	SLC9A6	23	135067759	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	4648568	135067759	20202801	225	45392										
BCAP31	10134	broad.mit.edu	37	chrX	152986426	152986426	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ggacttgaaaatcttctgccAtctgtgaagaagacaaaaag	9	7	3	4			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:152986426A>G	uc011myz.1	-	3	250	c.94T>C	c.(94-96)TGG>CGG	p.W32R	BCAP31_uc011myy.1_5'UTR|BCAP31_uc004fid.2_Missense_Mutation_p.W99R|BCAP31_uc011mza.1_Missense_Mutation_p.W32R|BCAP31_uc004fie.2_Missense_Mutation_p.W32R	NM_001139441	NP_001132913	P51572	BAP31_HUMAN	B-cell receptor-associated protein 31 isoform b	32	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|immune response|intracellular protein transport|vesicle-mediated transport	cytosol|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to plasma membrane	receptor binding				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ATCTTCTGCCATCTGTGAAGA	0.473													36	46	---	---	---	---	PASS	G	152986426	G	G	152986426	3	3	123	1	0	0	0	0	1	0	0	0	1347	231	8	5	670	5	BCAP31	23	152986426	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	17918667	152986426	2284134	226	45393										
ABCD1	215	broad.mit.edu	37	chrX	152991559	152991559	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	cgcggcggaagggggagctgCgctacatgcactcgcgtgtg	18	11	0	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:152991559C>A	uc004fif.2	+	1	1237	c.838C>A	c.(838-840)CGC>AGC	p.R280S	BCAP31_uc004fid.2_5'Flank|BCAP31_uc011myz.1_5'Flank|BCAP31_uc011mza.1_5'Flank|BCAP31_uc004fie.2_5'Flank	NM_000033	NP_000024	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member	280	ABC transmembrane type-1.		R -> C (in X-ALD).		fatty acid beta-oxidation using acyl-CoA oxidase|peroxisomal membrane transport|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|identical protein binding|peroxisomal fatty-acyl-CoA transporter activity				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGGGGAGCTGCGCTACATGCA	0.692													8	16	---	---	---	---	PASS	A	152991559	A	A	152991559	3	1	123	1	0	0	0	0	1	0	0	0	60	768	27	1	840	1	ABCD1	23	152991559	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	5133	152991559	2279001	227	45394										
ABCD1	215	broad.mit.edu	37	chrX	153005583	153005583	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tctgctcatcacaggccccaAtggctgcggcaagagctccc	10	16	3	1			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:153005583A>G	uc004fif.2	+	6	1925	c.1526A>G	c.(1525-1527)AAT>AGT	p.N509S	ABCD1_uc004fig.2_Missense_Mutation_p.N9S	NM_000033	NP_000024	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member	509	ATP (By similarity).|ABC transporter.				fatty acid beta-oxidation using acyl-CoA oxidase|peroxisomal membrane transport|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|identical protein binding|peroxisomal fatty-acyl-CoA transporter activity				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACAGGCCCCAATGGCTGCGGC	0.647													44	181	---	---	---	---	PASS	G	153005583	G	G	153005583	3	3	123	1	0	0	0	0	1	0	0	0	60	101	4	5	1548	5	ABCD1	23	153005583	Missense_Mutation	SNP	A	TCGA-60-2710-01A-01D-1522-08	14024	153005583	2264977	228	45395										
NAA10	8260	broad.mit.edu	37	chrX	153195637	153195637	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	ctcgatggcacccagcaccaCgtgcctgcccttctctttca	7	18	2	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:153195637C>T	uc004fjm.1	-	8	622	c.511G>A	c.(511-513)GTG>ATG	p.V171M	NAA10_uc004fjn.1_Missense_Mutation_p.V156M	NM_003491	NP_003482	P41227	NAA10_HUMAN	alpha-N-acetyltransferase 1A	171					DNA packaging|internal protein amino acid acetylation|N-terminal protein amino acid acetylation	cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity|protein binding			ovary(1)	1						CCCAGCACCACGTGCCTGCCC	0.617													52	215	---	---	---	---	PASS	T	153195637	T	T	153195637	3	4	123	1	0	0	0	0	1	0	0	0	10116	536	19	1	200	1	NAA10	23	153195637	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	190054	153195637	2074923	229	45396										
IRAK1	3654	broad.mit.edu	37	chrX	153279714	153279714	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.052863436123348	12	0.665937854907983	0.962420558165239	0.793574846206425	1.00519480519481	0.0200300915227592	0.157643740096309	0	tccagcctcctcagcctcctCttccaccaggtctttctgtg	6	18	4	0			TCGA-60-2710-01A-01D-1522-08	TCGA-60-2710-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	faecb1fe-b4ef-434d-818c-81ad2167dd25	3f0dd66e-22ec-4bf8-aa0f-17b8134055be	g.chrX:153279714C>T	uc004fjs.1	-	11	1397	c.1318G>A	c.(1318-1320)GAG>AAG	p.E440K	IRAK1_uc004fjr.1_Missense_Mutation_p.E440K|IRAK1_uc004fjt.1_Intron|IRAK1_uc010nur.2_Intron|IRAK1_uc004fju.2_Missense_Mutation_p.E466K	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	440	Protein kinase.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|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|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TCAGCCTCCTCTTCCACCAGG	0.567													112	151	---	---	---	---	PASS	T	153279714	T	T	153279714	3	4	123	1	0	0	0	0	1	0	0	0	7821	922	32	2	836	2	IRAK1	23	153279714	Missense_Mutation	SNP	C	TCGA-60-2710-01A-01D-1522-08	84077	153279714	1990846	230	45397										
RSC1A1	6248	broad.mit.edu	37	chr1	15986589	15986589	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aagaacatctttctttacaaGatctttctgatcatgcttcc	4	10	5	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr1:15986589G>T	uc010obn.1	+	1	226	c.226G>T	c.(226-228)GAT>TAT	p.D76Y	DDI2_uc001awx.1_3'UTR|DDI2_uc009voj.1_3'UTR	NM_006511	NP_006502	Q92681	RSCA1_HUMAN	regulatory solute carrier protein, family 1,	76					negative regulation of transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transport	cell junction|Golgi apparatus|nucleus	ion channel inhibitor activity			ovary(1)	1		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00276)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TTCTTTACAAGATCTTTCTGA	0.428													58	143	---	---	---	---	PASS	T	15986589	T	T	15986589	3	4	124	1	0	0	0	0	1	0	0	0	13698	942	33	2	228	2	RSC1A1	1	15986589	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08		15986589	233264032	1	45398										
ALDH4A1	8659	broad.mit.edu	37	chr1	19209686	19209686	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aaagggcgagatggccgccaCgaagccctggggaaggaggc	18	10	0	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr1:19209686C>T	uc001bbb.2	-	7	886	c.610G>A	c.(610-612)GTG>ATG	p.V204M	ALDH4A1_uc010ocu.1_Missense_Mutation_p.V144M|ALDH4A1_uc001bbc.2_Missense_Mutation_p.V204M	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	204					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	ATGGCCGCCACGAAGCCCTGG	0.677													30	22	---	---	---	---	PASS	T	19209686	T	T	19209686	3	4	124	1	0	0	0	0	1	0	0	0	501	536	19	1	1117	1	ALDH4A1	1	19209686	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	3223097	19209686	230040935	2	45399										
BEST4	266675	broad.mit.edu	37	chr1	45253092	45253092	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tgctgagcggttgcagtaccGggccacctgagcatacacgt	13	12	0	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr1:45253092G>A	uc001cmm.2	-	2	248	c.199C>T	c.(199-201)CGG>TGG	p.R67W		NM_153274	NP_695006	Q8NFU0	BEST4_HUMAN	bestrophin 4	67	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TTGCAGTACCGGGCCACCTGA	0.587													174	88	---	---	---	---	PASS	A	45253092	A	A	45253092	3	1	124	1	0	0	0	0	1	0	0	0	1407	1115	39	1	1254	1	BEST4	1	45253092	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	26043406	45253092	203997529	3	45400										
CCDC18	343099	broad.mit.edu	37	chr1	93651976	93651976	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ctaaataaacttaggcaacaGaatgcttgtttggtcacaca	7	8	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr1:93651976G>A	uc001dpq.2	+	4	900	c.732G>A	c.(730-732)CAG>CAA	p.Q244Q		NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	126	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		TTAGGCAACAGAATGCTTGTT	0.328													94	38	---	---	---	---	PASS	A	93651976	A	A	93651976	2	1	124	1	0	0	0	0	0	0	0	1	2794	933	33	2		2	CCDC18	1	93651976	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08	48398884	93651976	155598645	4	45401										
LPPR4	9890	broad.mit.edu	37	chr1	99772055	99772055	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tgtcctccaaagcagccccaAgaacactgaaggcagcacgg	10	14	0	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr1:99772055A>G	uc001dse.2	+	7	1887	c.1781A>G	c.(1780-1782)AAG>AGG	p.K594R	LPPR4_uc010oue.1_Missense_Mutation_p.K536R	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	594							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		AGCAGCCCCAAGAACACTGAA	0.552													15	58	---	---	---	---	PASS	G	99772055	G	G	99772055	3	3	124	1	0	0	0	0	1	0	0	0	8927	72	3	5	1807	5	LPPR4	1	99772055	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	6120079	99772055	149478566	5	45402										
IGSF3	3321	broad.mit.edu	37	chr1	117150836	117150836	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gcgagctgttgaaggcccagGagacagcaaagtaacggtcg	15	9	0	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr1:117150836G>A	uc001egr.1	-	5	1655	c.950C>T	c.(949-951)TCC>TTC	p.S317F	IGSF3_uc001egq.1_Missense_Mutation_p.S317F|IGSF3_uc001egs.1_5'UTR	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	317	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		GAAGGCCCAGGAGACAGCAAA	0.597													21	23	---	---	---	---	PASS	A	117150836	A	A	117150836	3	1	124	1	0	0	0	0	1	0	0	0	7601	1174	41	2	2726	2	IGSF3	1	117150836	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	17378781	117150836	132099785	6	45403										
SPAG17	200162	broad.mit.edu	37	chr1	118623790	118623790	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	taacagctgtctattatcagGgactgagagtttgagattat	10	5	2	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr1:118623790G>C	uc001ehk.2	-	15	2211	c.2143C>G	c.(2143-2145)CCT>GCT	p.P715A		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	715						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		CTATTATCAGGGACTGAGAGT	0.373													49	302	---	---	---	---	PASS	C	118623790	C	C	118623790	3	2	124	1	0	0	0	0	1	0	0	0	14979	1232	43	4	4664	4	SPAG17	1	118623790	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	1472954	118623790	130626831	7	45404										
C1orf51	148523	broad.mit.edu	37	chr1	150256018	150256018	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cacccaaggttgtaccacagAgggagacctgctgtttgccc	11	13	0	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr1:150256018A>T	uc001euh.2	+	2	477	c.341A>T	c.(340-342)GAG>GTG	p.E114V	C1orf51_uc001eui.2_Missense_Mutation_p.E26V|C1orf51_uc001euj.2_Missense_Mutation_p.E114V	NM_144697	NP_653298	Q8N365	CA051_HUMAN	hypothetical protein LOC148523	114											0	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGTACCACAGAGGGAGACCTG	0.527													38	283	---	---	---	---	PASS	T	150256018	T	T	150256018	3	4	124	1	0	0	0	0	1	0	0	0	2043	304	11	5	343	5	C1orf51	1	150256018	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	31632228	150256018	98994603	8	45405										
RXRG	6258	broad.mit.edu	37	chr1	165370528	165370528	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tctgcagcggggtctccaacAtctccatgaggaaggtgtca	12	11	4	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr1:165370528A>G	uc001gda.2	-	10	1664	c.1364T>C	c.(1363-1365)ATG>ACG	p.M455T		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	455	Ligand-binding (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	GGTCTCCAACATCTCCATGAG	0.612													27	77	---	---	---	---	PASS	G	165370528	G	G	165370528	3	3	124	1	0	0	0	0	1	0	0	0	13765	217	8	5	31	5	RXRG	1	165370528	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	15114510	165370528	83880093	9	45406										
DUSP27	92235	broad.mit.edu	37	chr1	167095879	167095879	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	caagagcaagagagaggaggCggcagacaggagctcagaag	17	7	1	5			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr1:167095879C>T	uc001geb.1	+	5	1511	c.1511C>T	c.(1510-1512)GCG>GTG	p.A504V		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	504					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						AGAGAGGAGGCGGCAGACAGG	0.602													11	41	---	---	---	---	PASS	T	167095879	T	T	167095879	3	4	124	1	0	0	0	0	1	0	0	0	4824	768	27	1	1529	1	DUSP27	1	167095879	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	1725351	167095879	82154742	10	45407										
CNGA3	1261	broad.mit.edu	37	chr2	99013208	99013208	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	atgtacatcatcaacgagggCaagctggccgtggtggctga	14	9	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr2:99013208C>A	uc002syt.2	+	8	1992	c.1575C>A	c.(1573-1575)GGC>GGA	p.G525G	CNGA3_uc002syu.2_Silent_p.G507G|CNGA3_uc010fij.2_Silent_p.G529G	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	525	cGMP.		G -> D (in ACHM2).		signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						TCAACGAGGGCAAGCTGGCCG	0.552													77	118	---	---	---	---	PASS	A	99013208	A	A	99013208	2	1	124	1	0	0	0	0	0	0	0	1	3598	697	25	3		3	CNGA3	2	99013208	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08		99013208	144186165	11	45408										
LCT	3938	broad.mit.edu	37	chr2	136547235	136547235	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aacttcgctgatgctttgggGatccttggcagagaagggtc	14	8	0	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr2:136547235G>T	uc002tuu.1	-	16	5480	c.5469C>A	c.(5467-5469)ATC>ATA	p.I1823I		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1823	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		ATGCTTTGGGGATCCTTGGCA	0.537													24	143	---	---	---	---	PASS	T	136547235	T	T	136547235	2	4	124	1	0	0	0	0	0	0	0	1	8693	1164	41	2		2	LCT	2	136547235	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08	37534027	136547235	106652138	12	45409										
TTN	7273	broad.mit.edu	37	chr2	179633590	179633590	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gagatgccttcatagttcacTgtcacctcaaaagtaatagt	7	9	4	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr2:179633590T>A	uc010zfg.1	-	38	9197	c.8973A>T	c.(8971-8973)ACA>ACT	p.T2991T	TTN_uc010zfh.1_Silent_p.T2945T|TTN_uc010zfi.1_Silent_p.T2945T|TTN_uc010zfj.1_Silent_p.T2945T|TTN_uc002unb.2_Silent_p.T2991T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2991							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)			CATAGTTCACTGTCACCTCAA	0.388													20	97	---	---	---	---	PASS	A	179633590	A	A	179633590	2	1	124	1	0	0	0	0	0	0	0	1	16732	1567	55	5		5	TTN	2	179633590	Silent	SNP	T	TCGA-60-2711-01A-01D-1522-08	43086355	179633590	63565783	13	45410										
IQCA1	79781	broad.mit.edu	37	chr2	237240050	237240050	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	actggattcatgctggttatCgccgtaataaactcaactgc	8	10	2	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr2:237240050C>T	uc002vvz.1	-	18	2507	c.2325G>A	c.(2323-2325)GCG>GCA	p.A775A	IQCA1_uc002vwb.2_Silent_p.A783A|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Silent_p.A734A	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	775							ATP binding			ovary(1)	1						TGCTGGTTATCGCCGTAATAA	0.463													57	142	---	---	---	---	PASS	T	237240050	T	T	237240050	2	4	124	1	0	0	0	0	0	0	0	1	7802	871	31	2		2	IQCA1	2	237240050	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	57606460	237240050	5959323	14	45411										
TOP2B	7155	broad.mit.edu	37	chr3	25674273	25674273	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ttgatctaccacataatccaCgtgccgtccaccctaaagaa	5	14	1	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:25674273C>G	uc011awn.1	-	9	1082	c.1039G>C	c.(1039-1041)GTG>CTG	p.V347L	TOP2B_uc003cdj.2_Missense_Mutation_p.V342L	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	347					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						ACATAATCCACGTGCCGTCCA	0.318													40	81	---	---	---	---	PASS	G	25674273	G	G	25674273	3	3	124	1	0	0	0	0	1	0	0	0	16363	536	19	4	3953	4	TOP2B	3	25674273	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08		25674273	172348157	15	45412										
CCBP2	1238	broad.mit.edu	37	chr3	42906815	42906815	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tctcaccttgtttctgcataCgctgttggacctgcaagtat	8	11	2	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:42906815C>T	uc003cme.2	+	3	1000	c.821C>T	c.(820-822)ACG>ATG	p.T274M	CCBP2_uc003cmd.1_Intron|CCBP2_uc003cmf.2_Missense_Mutation_p.T274M|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Intron	NM_001296	NP_001287	O00590	CCBP2_HUMAN	chemokine binding protein 2	274	Extracellular (Potential).				chemotaxis|immune response|multicellular organismal development	integral to plasma membrane	C-X-C chemokine receptor activity			lung(4)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.241)		TTTCTGCATACGCTGTTGGAC	0.537													64	198	---	---	---	---	PASS	T	42906815	T	T	42906815	3	4	124	1	0	0	0	0	1	0	0	0	2734	536	19	1	823	1	CCBP2	3	42906815	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	17232542	42906815	155115615	16	45413										
MON1A	84315	broad.mit.edu	37	chr3	49949259	49949259	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ctcctcctgcaggtcccgggCcacacccgtcagctgggtgc	12	18	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:49949259C>T	uc003cxz.2	-	3	730	c.604G>A	c.(604-606)GCC>ACC	p.A202T	MON1A_uc003cya.2_Intron|MON1A_uc003cyb.2_Intron	NM_032355	NP_115731	Q86VX9	MON1A_HUMAN	MON1 homolog A isoform a	105							protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		AGGTCCCGGGCCACACCCGTC	0.667													44	29	---	---	---	---	PASS	T	49949259	T	T	49949259	3	4	124	1	0	0	0	0	1	0	0	0	9698	739	26	3	1370	3	MON1A	3	49949259	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	7042444	49949259	148073171	17	45414										
ATXN7	6314	broad.mit.edu	37	chr3	63967989	63967989	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	agcctggccttaactgccccTcaataccaaagccaaccttg	6	16	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:63967989T>C	uc003dlw.3	+	7	1433	c.880T>C	c.(880-882)TCA>CCA	p.S294P	ATXN7_uc003dlv.2_Missense_Mutation_p.S294P|ATXN7_uc010hnv.2_Missense_Mutation_p.S294P|ATXN7_uc011bfn.1_Missense_Mutation_p.S149P	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	294					cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		TAACTGCCCCTCAATACCAAA	0.507													3	48	---	---	---	---	PASS	C	63967989	C	C	63967989	3	2	124	1	0	0	0	0	1	0	0	0	1215	1551	54	5	966	5	ATXN7	3	63967989	Missense_Mutation	SNP	T	TCGA-60-2711-01A-01D-1522-08	14018730	63967989	134054441	18	45415										
C3orf38	285237	broad.mit.edu	37	chr3	88205613	88205613	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gaaaatcaaatttatcaaccTgaaaattatgggagagagtt	8	4	2	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:88205613T>C	uc003dqw.2	+	4	1129	c.818T>C	c.(817-819)CTG>CCG	p.L273P		NM_173824	NP_776185	Q5JPI3	CC038_HUMAN	hypothetical protein LOC285237	273					apoptosis						0		Lung NSC(201;0.17)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		TTTATCAACCTGAAAATTATG	0.378													3	64	---	---	---	---	PASS	C	88205613	C	C	88205613	3	2	124	1	0	0	0	0	1	0	0	0	2228	1580	55	5	828	5	C3orf38	3	88205613	Missense_Mutation	SNP	T	TCGA-60-2711-01A-01D-1522-08	24237624	88205613	109816817	19	45416										
H1FOO	132243	broad.mit.edu	37	chr3	129270138	129270138	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	agaaaggctgggctgcccatCaaggcctcatcatccaaagt	10	12	3	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:129270138C>G	uc003emu.2	+	5	1001	c.996C>G	c.(994-996)ATC>ATG	p.I332M	H1FOO_uc003emv.2_Missense_Mutation_p.I193M	NM_153833	NP_722575	Q8IZA3	H1FOO_HUMAN	H1 histone family, member O, oocyte-specific	332					meiosis|nucleosome assembly	cytoplasm|nucleosome	DNA binding			skin(1)	1						GGCTGCCCATCAAGGCCTCAT	0.587													14	57	---	---	---	---	PASS	G	129270138	G	G	129270138	3	3	124	1	0	0	0	0	1	0	0	0	6922	816	29	2	1014	2	H1FOO	3	129270138	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	41064525	129270138	68752292	20	45417										
COL6A6	131873	broad.mit.edu	37	chr3	130290178	130290178	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cttcttcgtggagacttttgGaggtctgaagggaatatttt	12	5	2	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:130290178G>T	uc010htl.2	+	6	2949	c.2918G>T	c.(2917-2919)GGA>GTA	p.G973V		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	973	VWFA 5.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GAGACTTTTGGAGGTCTGAAG	0.458													41	45	---	---	---	---	PASS	T	130290178	T	T	130290178	3	4	124	1	0	0	0	0	1	0	0	0	3703	1174	41	2	2940	2	COL6A6	3	130290178	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	1020040	130290178	67732252	21	45418										
PLOD2	5352	broad.mit.edu	37	chr3	145809643	145809643	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aagagtgcagccattatcctGtgtccatgaattgggtacat	10	8	0	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:145809643G>C	uc003evs.1	-	8	1329	c.823C>G	c.(823-825)CAG>GAG	p.Q275E	PLOD2_uc011bnm.1_Missense_Mutation_p.Q220E|PLOD2_uc003evr.1_Missense_Mutation_p.Q275E	NM_000935	NP_000926	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	275					protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)	CCATTATCCTGTGTCCATGAA	0.373													7	156	---	---	---	---	PASS	C	145809643	C	C	145809643	3	2	124	1	0	0	0	0	1	0	0	0	12102	1386	48	4	1505	4	PLOD2	3	145809643	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	15519465	145809643	52212787	22	45419										
ARL14	80117	broad.mit.edu	37	chr3	160395683	160395683	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	agccacatgaaatcaagaggAgacactttggcgttcttcaa	9	9	3	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:160395683A>G	uc003fdq.2	+	1	736	c.549A>G	c.(547-549)GGA>GGG	p.G183G		NM_025047	NP_079323	Q8N4G2	ARL14_HUMAN	ADP-ribosylation factor-like 14	183					small GTPase mediated signal transduction	intracellular	GTP binding				0			Lung(72;7.02e-05)|LUSC - Lung squamous cell carcinoma(72;7.23e-05)			AATCAAGAGGAGACACTTTGG	0.483													7	381	---	---	---	---	PASS	G	160395683	G	G	160395683	2	3	124	1	0	0	0	0	0	0	0	1	930	291	11	5		5	ARL14	3	160395683	Silent	SNP	A	TCGA-60-2711-01A-01D-1522-08	14586040	160395683	37626747	23	45420										
WDR49	151790	broad.mit.edu	37	chr3	167254726	167254726	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	catggtgctgtatacctcctTtccattcttcaggctggatg	9	11	2	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:167254726T>A	uc003fev.1	-	7	1136	c.830A>T	c.(829-831)AAA>ATA	p.K277I	WDR49_uc003feu.1_Missense_Mutation_p.K102I|WDR49_uc011bpd.1_Missense_Mutation_p.K341I|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	277										large_intestine(1)|ovary(1)|skin(1)	3						TATACCTCCTTTCCATTCTTC	0.388													7	219	---	---	---	---	PASS	A	167254726	A	A	167254726	3	1	124	1	0	0	0	0	1	0	0	0	17299	1841	64	5	1299	5	WDR49	3	167254726	Missense_Mutation	SNP	T	TCGA-60-2711-01A-01D-1522-08	6859043	167254726	30767704	24	45421										
ECT2	1894	broad.mit.edu	37	chr3	172491779	172491779	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aagactatttttggtagcatCccagatatctttgatgtaca	7	7	1	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:172491779C>A	uc003fii.2	+	13	1560	c.1422C>A	c.(1420-1422)ATC>ATA	p.I474I	ECT2_uc010hwv.1_Silent_p.I505I|ECT2_uc003fih.2_Silent_p.I473I|ECT2_uc003fij.1_Silent_p.I474I|ECT2_uc003fik.1_Silent_p.I474I|ECT2_uc003fil.1_Silent_p.I505I	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	474	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			TTGGTAGCATCCCAGATATCT	0.323													9	365	---	---	---	---	PASS	A	172491779	A	A	172491779	2	1	124	1	0	0	0	0	0	0	0	1	4901	845	30	2		2	ECT2	3	172491779	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	5237053	172491779	25530651	25	45422										
C3orf59	151963	broad.mit.edu	37	chr3	192517235	192517235	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	agtggcacaaggctgagtggCgcatgtcgagtgtcacaggc	16	9	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:192517235C>G	uc011bsp.1	-	2	737	c.416G>C	c.(415-417)CGC>CCC	p.R139P		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	139											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		GGCTGAGTGGCGCATGTCGAG	0.507													9	446	---	---	---	---	PASS	G	192517235	G	G	192517235	3	3	124	1	0	0	0	0	1	0	0	0	2237	768	27	4	1063	4	C3orf59	3	192517235	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	20025456	192517235	5505195	26	45423										
MUC4	4585	broad.mit.edu	37	chr3	195492215	195492215	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ggcaggagacctggttccagCcccagctgggccaccgaggc	15	15	0	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr3:195492215C>T	uc011bto.1	-	10	13800	c.13340G>A	c.(13339-13341)GGC>GAC	p.G4447D	MUC4_uc003fuz.2_Missense_Mutation_p.G173D|MUC4_uc003fva.2_Missense_Mutation_p.G55D|MUC4_uc003fvb.2_Missense_Mutation_p.G91D|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.G91D|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.G55D|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.G139D|MUC4_uc011bti.1_Missense_Mutation_p.G139D|MUC4_uc011btj.1_Missense_Mutation_p.G316D|MUC4_uc011btk.1_Missense_Mutation_p.G55D|MUC4_uc011btl.1_Missense_Mutation_p.G84D|MUC4_uc011btm.1_Missense_Mutation_p.G264D|MUC4_uc011btn.1_Missense_Mutation_p.G55D|MUC4_uc003fvo.2_Missense_Mutation_p.G339D|MUC4_uc003fvp.2_Missense_Mutation_p.G288D|MUC4_uc010hzu.1_Missense_Mutation_p.G1187D	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1332	AMOP.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		CTGGTTCCAGCCCCAGCTGGG	0.627													6	72	---	---	---	---	PASS	T	195492215	T	T	195492215	3	4	124	1	0	0	0	0	1	0	0	0	9978	739	26	3	2582	3	MUC4	3	195492215	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	2974980	195492215	2530215	27	45424										
ATP8A1	10396	broad.mit.edu	37	chr4	42580397	42580397	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ttcagtccaaaattactagcGccaccatctgttgggagagg	10	10	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr4:42580397G>T	uc003gwr.2	-	12	1240	c.1008C>A	c.(1006-1008)GGC>GGA	p.G336G	ATP8A1_uc003gws.2_Silent_p.G336G|ATP8A1_uc011byz.1_Silent_p.G336G	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	336	Extracellular (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	AATTACTAGCGCCACCATCTG	0.363													39	173	---	---	---	---	PASS	T	42580397	T	T	42580397	2	4	124	1	0	0	0	0	0	0	0	1	1192	1074	38	1		1	ATP8A1	4	42580397	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08		42580397	148573879	28	45425										
CWH43	80157	broad.mit.edu	37	chr4	49005780	49005780	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tcagctgcggggctcctttaCctgcacacatgggcagctgc	12	14	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr4:49005780C>A	uc003gyv.2	+	7	1013	c.831C>A	c.(829-831)TAC>TAA	p.Y277*	CWH43_uc011bzl.1_Nonsense_Mutation_p.Y250*	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	277	Helical; (Potential).				GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						GGCTCCTTTACCTGCACACAT	0.488													34	127	---	---	---	---	PASS	A	49005780	A	A	49005780	4	1	124	1	0	0	0	0	0	1	0	0	4073	518	18	3	857	3	CWH43	4	49005780	Nonsense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	6425383	49005780	142148496	29	45426										
KIAA1211	57482	broad.mit.edu	37	chr4	57190272	57190272	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ctgtctctgcccacgcaggtCagtgtcagcgtgcagcctgg	13	14	3	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr4:57190272C>A	uc003hbk.2	+	10	3772	c.3381C>A	c.(3379-3381)GTC>GTA	p.V1127V	KIAA1211_uc010iha.2_Silent_p.V1120V	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	1127										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					CCACGCAGGTCAGTGTCAGCG	0.587													38	62	---	---	---	---	PASS	A	57190272	A	A	57190272	2	1	124	1	0	0	0	0	0	0	0	1	8215	813	29	2		2	KIAA1211	4	57190272	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	8184492	57190272	133964004	30	45427										
ENAM	10117	broad.mit.edu	37	chr4	71508698	71508698	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aaagccagaatttgcccaaaGggattgttttagggtcaaga	11	6	1	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr4:71508698G>A	uc011caw.1	+	9	1836	c.1555G>A	c.(1555-1557)GGG>AGG	p.G519R		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	519					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			TTTGCCCAAAGGGATTGTTTT	0.398													59	157	---	---	---	---	PASS	A	71508698	A	A	71508698	3	1	124	1	0	0	0	0	1	0	0	0	5112	1000	35	3	1585	3	ENAM	4	71508698	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	14318426	71508698	119645578	31	45428										
GPRIN3	285513	broad.mit.edu	37	chr4	90170453	90170453	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	atgccgaaggttcgctagtgAggggggttggttgaggtgtc	19	5	0	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr4:90170453A>T	uc003hsm.1	-	2	1328	c.809T>A	c.(808-810)CTC>CAC	p.L270H		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	270										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		TTCGCTAGTGAGGGGGGTTGG	0.562													61	165	---	---	---	---	PASS	T	90170453	T	T	90170453	3	4	124	1	0	0	0	0	1	0	0	0	6731	304	11	5	1525	5	GPRIN3	4	90170453	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	18661755	90170453	100983823	32	45429										
CFI	3426	broad.mit.edu	37	chr4	110685823	110685823	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ctctgaatctgtatttccatGcttcaaggaaacactaaact	5	10	3	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr4:110685823G>T	uc003hzr.3	-	3	560	c.352C>A	c.(352-354)CAT>AAT	p.H118N	CFI_uc003hzq.2_5'Flank|CFI_uc011cft.1_Missense_Mutation_p.H118N|CFI_uc003hzs.3_Missense_Mutation_p.H118N	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	118	SRCR.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		GTATTTCCATGCTTCAAGGAA	0.318													21	68	---	---	---	---	PASS	T	110685823	T	T	110685823	3	4	124	1	0	0	0	0	1	0	0	0	3289	1319	46	3	1443	3	CFI	4	110685823	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	20515370	110685823	80468453	33	45430										
SCLT1	132320	broad.mit.edu	37	chr4	129964586	129964586	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tgcccatttagttctcctagGtgtttatcatactcagtaac	6	10	3	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr4:129964586G>C	uc003igp.2	-	4	704	c.198C>G	c.(196-198)CAC>CAG	p.H66Q	SCLT1_uc003igq.2_Missense_Mutation_p.H66Q|SCLT1_uc010iob.1_Missense_Mutation_p.H66Q|SCLT1_uc003igr.2_Missense_Mutation_p.H66Q|SCLT1_uc003igs.2_RNA|SCLT1_uc003igt.3_Missense_Mutation_p.H66Q	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	66						centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						GTTCTCCTAGGTGTTTATCAT	0.269													9	33	---	---	---	---	PASS	C	129964586	C	C	129964586	3	2	124	1	0	0	0	0	1	0	0	0	13906	1252	44	4	1940	4	SCLT1	4	129964586	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	19278763	129964586	61189690	34	45431										
FGA	2243	broad.mit.edu	37	chr4	155507372	155507372	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cagtctgggttgttaggcctCgcgttcccagagcctgggct	14	12	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr4:155507372C>T	uc003iod.1	-	5	1267	c.1209G>A	c.(1207-1209)GCG>GCA	p.A403A	FGA_uc003ioe.1_Silent_p.A403A|FGA_uc003iof.1_Intron	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	403	By similarity.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	TGTTAGGCCTCGCGTTCCCAG	0.512													71	167	---	---	---	---	PASS	T	155507372	T	T	155507372	2	4	124	1	0	0	0	0	0	0	0	1	5830	871	31	2		2	FGA	4	155507372	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	25542786	155507372	35646904	35	45432										
VEGFC	7424	broad.mit.edu	37	chr4	177650829	177650829	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	attttccaatattctgggtaGagtacagtcatgagttcatc	8	7	3	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr4:177650829G>C	uc003ius.1	-	2	649	c.219C>G	c.(217-219)CTC>CTG	p.L73L		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	73					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		ATTCTGGGTAGAGTACAGTCA	0.438													26	87	---	---	---	---	PASS	C	177650829	C	C	177650829	2	2	124	1	0	0	0	0	0	0	0	1	17149	929	33	2		2	VEGFC	4	177650829	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08	22143457	177650829	13503447	36	45433										
SLC12A7	10723	broad.mit.edu	37	chr5	1073810	1073810	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cccctccagcaccgagcccaCgatggtcaggcccttgccgg	11	19	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr5:1073810C>A	uc003jbu.2	-	17	2245	c.2179G>T	c.(2179-2181)GTG>TTG	p.V727L		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	727					potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	ACCGAGCCCACGATGGTCAGG	0.697													31	141	---	---	---	---	PASS	A	1073810	A	A	1073810	3	1	124	1	0	0	0	0	1	0	0	0	14388	536	19	1	1104	1	SLC12A7	5	1073810	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08		1073810	179841450	37	45434										
NSUN2	54888	broad.mit.edu	37	chr5	6611197	6611197	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	actgcccatctttcgtcattAcctgcagaaccacagggtac	7	14	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr5:6611197A>T	uc003jdu.2	-	11	1162	c.1097T>A	c.(1096-1098)GTA>GAA	p.V366E	NSUN2_uc003jdt.2_Missense_Mutation_p.V130E|NSUN2_uc011cmk.1_Missense_Mutation_p.V331E|NSUN2_uc003jdv.2_Missense_Mutation_p.V130E	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	366						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						TTTCGTCATTACCTGCAGAAC	0.488													132	227	---	---	---	---	PASS	T	6611197	T	T	6611197	3	4	124	1	0	0	0	0	1	0	0	0	10678	405	14	5	1242	5	NSUN2	5	6611197	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	5537387	6611197	174304063	38	45435										
CTNND2	1501	broad.mit.edu	37	chr5	11199629	11199629	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	caccagtgctgggatgccacCacagtttttcagggcaattt	10	11	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr5:11199629C>T	uc003jfa.1	-	11	2051	c.1906G>A	c.(1906-1908)GGT>AGT	p.G636S	CTNND2_uc010itt.2_Missense_Mutation_p.G545S|CTNND2_uc011cmy.1_Missense_Mutation_p.G299S|CTNND2_uc011cmz.1_Missense_Mutation_p.G203S|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.G203S	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	636	ARM 4.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GGGATGCCACCACAGTTTTTC	0.473													47	286	---	---	---	---	PASS	T	11199629	T	T	11199629	3	4	124	1	0	0	0	0	1	0	0	0	4020	594	21	3	1819	3	CTNND2	5	11199629	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	4588432	11199629	169715631	39	45436										
PRLR	5618	broad.mit.edu	37	chr5	35065617	35065617	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tggtcagtctcagaatggaaGctttctacctccctctgctg	9	12	4	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr5:35065617G>A	uc003jjm.2	-	10	1973	c.1443C>T	c.(1441-1443)AGC>AGT	p.S481S	PRLR_uc003jjg.1_Intron|PRLR_uc003jjh.1_Intron|PRLR_uc003jji.1_Intron|PRLR_uc003jjj.1_Intron|PRLR_uc003jjk.1_Intron|PRLR_uc003jjl.3_Silent_p.S380S	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	481	Cytoplasmic (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	CAGAATGGAAGCTTTCTACCT	0.493													152	177	---	---	---	---	PASS	A	35065617	A	A	35065617	2	1	124	1	0	0	0	0	0	0	0	1	12531	962	34	3		3	PRLR	5	35065617	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08	23865988	35065617	145849643	40	45437										
DAB2	1601	broad.mit.edu	37	chr5	39377138	39377138	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ccaaagggcttgttgttgacCaagcattgggtgccacagat	12	9	0	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr5:39377138C>A	uc003jlx.2	-	12	2282	c.1751G>T	c.(1750-1752)TGG>TTG	p.W584L	DAB2_uc003jlw.2_Missense_Mutation_p.W563L	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	584					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			TGTTGTTGACCAAGCATTGGG	0.552											OREG0016586	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	74	172	---	---	---	---	PASS	A	39377138	A	A	39377138	3	1	124	1	0	0	0	0	1	0	0	0	4218	595	21	3	573	3	DAB2	5	39377138	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	4311521	39377138	141538122	41	45438										
DAB2	1601	broad.mit.edu	37	chr5	39382758	39382758	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tcttcctggtttggtactttGtggaggtgggataatggcta	14	5	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr5:39382758G>C	uc003jlx.2	-	10	1834	c.1303C>G	c.(1303-1305)CAA>GAA	p.Q435E	DAB2_uc003jlw.2_Missense_Mutation_p.Q414E	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	435					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			TTGGTACTTTGTGGAGGTGGG	0.498													35	264	---	---	---	---	PASS	C	39382758	C	C	39382758	3	2	124	1	0	0	0	0	1	0	0	0	4218	1386	48	4	1029	4	DAB2	5	39382758	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	5620	39382758	141532502	42	45439										
HCN1	348980	broad.mit.edu	37	chr5	45462055	45462055	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	caggagcagcatcatgccgaTgagattaaaaattctcacca	8	10	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr5:45462055T>A	uc003jok.2	-	3	929	c.904A>T	c.(904-906)ATC>TTC	p.I302F		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	302	Helical; Name=Segment S5; (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						ATCATGCCGATGAGATTAAAA	0.398													17	92	---	---	---	---	PASS	A	45462055	A	A	45462055	3	1	124	1	0	0	0	0	1	0	0	0	6996	1464	51	5	1792	5	HCN1	5	45462055	Missense_Mutation	SNP	T	TCGA-60-2711-01A-01D-1522-08	6079297	45462055	135453205	43	45440										
PCDHA11	56138	broad.mit.edu	37	chr5	140250178	140250178	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ctactcgctggtggagcggcGgttgggcgaccgcgcgctgt	18	12	0	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr5:140250178G>A	uc003lia.2	+	1	2348	c.1490G>A	c.(1489-1491)CGG>CAG	p.R497Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.R497Q	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	497	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGAGCGGCGGTTGGGCGAC	0.672													21	95	---	---	---	---	PASS	A	140250178	A	A	140250178	3	1	124	1	0	0	0	0	1	0	0	0	11521	1116	39	1	1492	1	PCDHA11	5	140250178	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	94788123	140250178	40665082	44	45441										
JAKMIP2	9832	broad.mit.edu	37	chr5	147029988	147029988	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ttgcactcagcctccttgacCagaaagagttgttcgtccaa	8	12	1	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr5:147029988C>A	uc003loq.1	-	4	1132	c.750G>T	c.(748-750)CTG>CTT	p.L250L	JAKMIP2_uc011dbx.1_Silent_p.L208L|JAKMIP2_uc003lor.1_Silent_p.L250L|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Silent_p.L250L	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	250						Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTCCTTGACCAGAAAGAGTT	0.493													14	112	---	---	---	---	PASS	A	147029988	A	A	147029988	2	1	124	1	0	0	0	0	0	0	0	1	7941	581	21	3		3	JAKMIP2	5	147029988	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	6779810	147029988	33885272	45	45442										
DOK3	79930	broad.mit.edu	37	chr5	176931494	176931494	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	agggagggcagagaggtggcCcgtggcagggggcagggctg	24	7	0	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr5:176931494C>A	uc003mhk.2	-	6	986	c.981G>T	c.(979-981)CGG>CGT	p.R327R	DOK3_uc003mhh.3_Intron|DOK3_uc003mhi.3_Intron|DOK3_uc003mhj.3_Intron|DOK3_uc003mhl.2_Silent_p.R271R	NM_024872	NP_079148	Q7L591	DOK3_HUMAN	docking protein 3 isoform 1	327	Pro-rich.					cytoplasm|plasma membrane	insulin receptor binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	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)|Epithelial(233;0.191)			GAGAGGTGGCCCGTGGCAGGG	0.726													4	3	---	---	---	---	PASS	A	176931494	A	A	176931494	2	1	124	1	0	0	0	0	0	0	0	1	4698	610	22	3		3	DOK3	5	176931494	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	29901506	176931494	3983766	46	45443										
CNOT6	57472	broad.mit.edu	37	chr5	179996224	179996224	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	acaaactatgatgttcctctCagaagtgaagaacattattg	7	7	1	4			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr5:179996224C>G	uc003mlx.2	+	10	1491	c.1142C>G	c.(1141-1143)TCA>TGA	p.S381*	CNOT6_uc010jld.2_Nonsense_Mutation_p.S381*|CNOT6_uc010jle.2_Nonsense_Mutation_p.S376*	NM_015455	NP_056270	Q9ULM6	CNOT6_HUMAN	CCR4-NOT transcription complex, subunit 6	381					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	exonuclease activity|metal ion binding|protein binding|RNA binding				0	all_cancers(89;3.3e-05)|all_epithelial(37;7.38e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00543)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.023)		ATGTTCCTCTCAGAAGTGAAG	0.398													59	152	---	---	---	---	PASS	G	179996224	G	G	179996224	4	3	124	1	0	0	0	0	0	1	0	0	3622	838	29	2	1176	2	CNOT6	5	179996224	Nonsense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	3064730	179996224	919036	47	45444										
BPHL	670	broad.mit.edu	37	chr6	3152808	3152808	+	Nonstop_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	agcagaagacttcctacaatGagaatgcacactccagtctt	7	11	1	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr6:3152808G>C	uc003mva.2	+	7	924	c.875G>C	c.(874-876)TGA>TCA	p.*292S	BPHL_uc003muz.2_RNA|BPHL_uc011dht.1_RNA|BPHL_uc003muy.2_Nonstop_Mutation_p.*275S	NM_004332	NP_004323	Q86WA6	BPHL_HUMAN	biphenyl hydrolase-like precursor	292					cellular amino acid metabolic process|response to toxin	mitochondrion	hydrolase activity				0	Ovarian(93;0.0386)	all_hematologic(90;0.108)				TTCCTACAATGAGAATGCACA	0.438													30	131	---	---	---	---	PASS	C	3152808	C	C	3152808	4	2	124	1	0	0	0	0	0	0	0	0	1489	1285	45	2	901	2	BPHL	6	3152808	Nonstop_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08		3152808	167962259	48	45445										
COL12A1	1303	broad.mit.edu	37	chr6	75831144	75831144	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aagaacacaatatctgccttGgcccctttgcatactgcaaa	6	12	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr6:75831144G>T	uc003phs.2	-	44	7126	c.6960C>A	c.(6958-6960)GCC>GCA	p.A2320A	COL12A1_uc003pht.2_Silent_p.A1156A	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2320					cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TATCTGCCTTGGCCCCTTTGC	0.368													17	209	---	---	---	---	PASS	T	75831144	T	T	75831144	2	4	124	1	0	0	0	0	0	0	0	1	3669	1335	47	3		3	COL12A1	6	75831144	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08	72678336	75831144	95283923	49	45446										
PRSS35	167681	broad.mit.edu	37	chr6	84234198	84234198	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gatgctgagtcgggctccacCggttcgggggtctatctgcg	16	11	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr6:84234198C>T	uc003pjz.2	+	2	1201	c.1038C>T	c.(1036-1038)ACC>ACT	p.T346T	PRSS35_uc010kbm.2_Silent_p.T346T	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	346	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		CGGGCTCCACCGGTTCGGGGG	0.507													37	113	---	---	---	---	PASS	T	84234198	T	T	84234198	2	4	124	1	0	0	0	0	0	0	0	1	12624	639	23	1		1	PRSS35	6	84234198	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	8403054	84234198	86880869	50	45447										
ZUFSP	221302	broad.mit.edu	37	chr6	116966902	116966902	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tctcctctagagaaagagcaCcctctactgccaatatctgg	7	13	4	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr6:116966902C>G	uc003pxf.1	-	9	1910	c.1664G>C	c.(1663-1665)GGT>GCT	p.G555A	ZUFSP_uc010kef.1_Missense_Mutation_p.G359A	NM_145062	NP_659499	Q96AP4	ZUFSP_HUMAN	zinc finger with UFM1-specific peptidase domain	555						intracellular	zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(226;0.0258)|all cancers(137;0.0368)|OV - Ovarian serous cystadenocarcinoma(136;0.0464)|Epithelial(106;0.186)		AGAAAGAGCACCCTCTACTGC	0.308													26	161	---	---	---	---	PASS	G	116966902	G	G	116966902	3	3	124	1	0	0	0	0	1	0	0	0	18243	507	18	4	80	4	ZUFSP	6	116966902	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	32732704	116966902	54148165	51	45448										
C6orf174	387104	broad.mit.edu	37	chr6	127797341	127797341	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gccttcaggcctctgttctcCacctccagttcgacgatttt	7	15	3	0	rs3734449	by1000genomes	TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr6:127797341C>A	uc003qbd.2	-	6	2695	c.1830G>T	c.(1828-1830)GTG>GTT	p.V610V	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	610	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CTCTGTTCTCCACCTCCAGTT	0.612													35	182	---	---	---	---	PASS	A	127797341	A	A	127797341	2	1	124	1	0	0	0	0	0	0	0	1	2345	581	21	3		3	C6orf174	6	127797341	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	10830439	127797341	43317726	52	45449										
COL28A1	340267	broad.mit.edu	37	chr7	7476074	7476074	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tctcccttaaatccaggtatCccaggtcctcctctatctcc	4	17	3	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr7:7476074C>T	uc003src.1	-	23	1929	c.1812G>A	c.(1810-1812)GGG>GGA	p.G604G	COL28A1_uc011jxe.1_Silent_p.G287G|COL28A1_uc003srd.2_Silent_p.G159G|COL28A1_uc003sre.1_Silent_p.G25G	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	604					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		ATCCAGGTATCCCAGGTCCTC	0.393													55	132	---	---	---	---	PASS	T	7476074	T	T	7476074	2	4	124	1	0	0	0	0	0	0	0	1	3686	842	30	2		2	COL28A1	7	7476074	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08		7476074	151662589	53	45450										
FERD3L	222894	broad.mit.edu	37	chr7	19184757	19184757	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tccgcgctcctcttcctcctCctcttctccgtccccctggt	5	22	3	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr7:19184757C>T	uc003suo.1	-	1	288	c.229G>A	c.(229-231)GAG>AAG	p.E77K	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	77	Poly-Glu.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						tcttcctcctcctcttctccg	0.373													11	36	---	---	---	---	PASS	T	19184757	T	T	19184757	3	4	124	1	0	0	0	0	1	0	0	0	5816	864	30	2	275	2	FERD3L	7	19184757	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	11708683	19184757	139953906	54	45451										
CALCR	799	broad.mit.edu	37	chr7	93055693	93055693	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cagatgactcttgctctatgAtattcaaagggatgatctca	8	8	4	4			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr7:93055693A>G	uc003umv.1	-	15	1763	c.1502T>C	c.(1501-1503)ATC>ACC	p.I501T	CALCR_uc011kia.1_Missense_Mutation_p.I281T|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.I467T|CALCR_uc003umw.2_Missense_Mutation_p.I467T	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	483	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	TTGCTCTATGATATTCAAAGG	0.463													11	315	---	---	---	---	PASS	G	93055693	G	G	93055693	3	3	124	1	0	0	0	0	1	0	0	0	2579	333	12	5	28	5	CALCR	7	93055693	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	73870936	93055693	66082970	55	45452										
SH2B2	10603	broad.mit.edu	37	chr7	101960886	101960886	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tgacatgctccgccacttccAcacacaccccatcccactgg	5	20	0	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr7:101960886A>T	uc011kko.1	+	6	1658	c.1613A>T	c.(1612-1614)CAC>CTC	p.H538L		NM_020979	NP_066189	O14492	SH2B2_HUMAN	SH2B adaptor protein 2	495	SH2.				blood coagulation|insulin receptor signaling pathway|intracellular signal transduction	cytosol|plasma membrane	JAK pathway signal transduction adaptor activity|SH3/SH2 adaptor activity|signal transducer activity				0						CGCCACTTCCACACACACCCC	0.637													8	67	---	---	---	---	PASS	T	101960886	T	T	101960886	3	4	124	1	0	0	0	0	1	0	0	0	14228	159	6	5	1375	5	SH2B2	7	101960886	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	8905193	101960886	57177777	56	45453										
PIK3CG	5294	broad.mit.edu	37	chr7	106508490	106508490	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cggcgctgattggctatgacGtcactgacgtcagcaacgtg	13	11	2	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr7:106508490G>A	uc003vdv.3	+	2	569	c.484G>A	c.(484-486)GTC>ATC	p.V162I	PIK3CG_uc003vdu.2_Missense_Mutation_p.V162I|PIK3CG_uc003vdw.2_Missense_Mutation_p.V162I	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	162					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						TGGCTATGACGTCACTGACGT	0.687													10	24	---	---	---	---	PASS	A	106508490	A	A	106508490	3	1	124	1	0	0	0	0	1	0	0	0	11916	1145	40	1	486	1	PIK3CG	7	106508490	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	4547604	106508490	52630173	57	45454										
CLCN1	1180	broad.mit.edu	37	chr7	143043685	143043685	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ctctcaggtcaaagaccctcCatcttccagtccctgcttca	5	17	4	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr7:143043685C>G	uc003wcr.1	+	19	2385	c.2298C>G	c.(2296-2298)TCC>TCG	p.S766S	CLCN1_uc011ktc.1_Silent_p.S378S	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	766	Cytoplasmic (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					AAAGACCCTCCATCTTCCAGT	0.547													9	163	---	---	---	---	PASS	G	143043685	G	G	143043685	2	3	124	1	0	0	0	0	0	0	0	1	3462	581	21	4		4	CLCN1	7	143043685	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	36535195	143043685	16094978	58	45455										
OR2A5	393046	broad.mit.edu	37	chr7	143747957	143747957	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cttgggcatgtggttcccttCtggccctggtccatgtggtt	13	11	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr7:143747957C>G	uc011ktw.1	+	1	463	c.463C>G	c.(463-465)CTG>GTG	p.L155V		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					TGGTTCCCTTCTGGCCCTGGT	0.532													162	338	---	---	---	---	PASS	G	143747957	G	G	143747957	3	3	124	1	0	0	0	0	1	0	0	0	10981	912	32	2	465	2	OR2A5	7	143747957	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	704272	143747957	15390706	59	45456										
ZNF425	155054	broad.mit.edu	37	chr7	148815409	148815409	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cccactcttgttccgaaaaaTataaggccacatcatcaaat	4	12	3	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr7:148815409T>C	uc003wfj.2	-	2	123	c.50A>G	c.(49-51)TAT>TGT	p.Y17C		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	17	KRAB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TTCCGAAAAATATAAGGCCAC	0.388													81	326	---	---	---	---	PASS	C	148815409	C	C	148815409	3	2	124	1	0	0	0	0	1	0	0	0	17896	1406	49	5	2220	5	ZNF425	7	148815409	Missense_Mutation	SNP	T	TCGA-60-2711-01A-01D-1522-08	5067452	148815409	10323254	60	45457										
DLC1	10395	broad.mit.edu	37	chr8	13357323	13357323	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ccttcatggctgtcattttcGtccacatcctttgaaagatg	7	11	2	2	rs146650078		TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr8:13357323G>A	uc003wwm.2	-	2	702	c.258C>T	c.(256-258)GAC>GAT	p.D86D	DLC1_uc003wwn.2_Silent_p.D86D|DLC1_uc011kxy.1_Silent_p.D86D	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	86					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TGTCATTTTCGTCCACATCCT	0.443													6	406	---	---	---	---	PASS	A	13357323	A	A	13357323	2	1	124	1	0	0	0	0	0	0	0	1	4550	1136	40	1		1	DLC1	8	13357323	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08		13357323	133006699	61	45458										
SLC7A2	6542	broad.mit.edu	37	chr8	17412160	17412160	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gtctagctcaaatcaattccAaaacgaagacaccaataatt	4	10	3	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr8:17412160A>G	uc011kyc.1	+	7	1316	c.1147A>G	c.(1147-1149)AAA>GAA	p.K383E	SLC7A2_uc011kyd.1_Intron|SLC7A2_uc011kye.1_Missense_Mutation_p.K423E|SLC7A2_uc011kyf.1_Missense_Mutation_p.K383E	NM_001008539	NP_001008539	P52569	CTR2_HUMAN	solute carrier family 7, member 2 isoform 2	383	Cytoplasmic (Potential).				cellular amino acid metabolic process|ion transport	cytoplasm|integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity			ovary(2)|skin(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	L-Lysine(DB00123)|L-Ornithine(DB00129)	AATCAATTCCAAAACGAAGAC	0.418													88	141	---	---	---	---	PASS	G	17412160	G	G	17412160	3	3	124	1	0	0	0	0	1	0	0	0	14697	131	5	5	1293	5	SLC7A2	8	17412160	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	4054837	17412160	128951862	62	45459										
PCM1	5108	broad.mit.edu	37	chr8	17851086	17851086	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gatactcagcagctggaccgGcaaattaaagcaattatgaa	9	8	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr8:17851086G>A	uc003wyi.3	+	29	5207	c.4785G>A	c.(4783-4785)CGG>CGA	p.R1595R	PCM1_uc011kyh.1_Silent_p.R1587R|PCM1_uc003wyj.3_Silent_p.R1541R|PCM1_uc011kyi.1_Silent_p.R394R|PCM1_uc011kyj.1_Silent_p.R351R|PCM1_uc003wyk.3_Silent_p.R277R|PCM1_uc011kyk.1_Silent_p.R211R	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	1595	Interaction with HAP1.				centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		AGCTGGACCGGCAAATTAAAG	0.318			T	RET|JAK2	papillary thyroid|CML|MPD								3	16	---	---	---	---	PASS	A	17851086	A	A	17851086	2	1	124	1	0	0	0	0	0	0	0	1	11584	1190	42	3		3	PCM1	8	17851086	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08	438926	17851086	128512936	63	45460										
PKHD1L1	93035	broad.mit.edu	37	chr8	110439365	110439365	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tcaaatggagaagcacctgcGgaaagcagaatcttctacag	10	9	3	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr8:110439365G>A	uc003yne.2	+	25	3084	c.2980G>A	c.(2980-2982)GGA>AGA	p.G994R		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	994	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			AAGCACCTGCGGAAAGCAGAA	0.403										HNSCC(38;0.096)			17	59	---	---	---	---	PASS	A	110439365	A	A	110439365	3	1	124	1	0	0	0	0	1	0	0	0	11972	1117	39	1	3078	1	PKHD1L1	8	110439365	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	92588279	110439365	35924657	64	45461										
CSMD3	114788	broad.mit.edu	37	chr8	113303772	113303772	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	taaaggtttgtcccattgtcCatttggttgacatatcaaaa	7	7	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr8:113303772C>A	uc003ynu.2	-	56	9100	c.8941G>T	c.(8941-8943)GGA>TGA	p.G2981*	CSMD3_uc003yns.2_Nonsense_Mutation_p.G2183*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.G2941*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.G2812*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2981	Extracellular (Potential).|Sushi 20.					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						TCCCATTGTCCATTTGGTTGA	0.333										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			18	100	---	---	---	---	PASS	A	113303772	A	A	113303772	4	1	124	1	0	0	0	0	0	1	0	0	3946	603	21	3	2246	3	CSMD3	8	113303772	Nonsense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	2864407	113303772	33060250	65	45462										
CSMD3	114788	broad.mit.edu	37	chr8	113564904	113564904	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gaaaaggatagccaggagatAagattcttcctgatgattct	10	6	2	4			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr8:113564904A>T	uc003ynu.2	-	26	4439	c.4280T>A	c.(4279-4281)TTA>TAA	p.L1427*	CSMD3_uc003yns.2_Nonsense_Mutation_p.L699*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.L1387*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.L1323*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1427	Extracellular (Potential).|CUB 8.					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						GCCAGGAGATAAGATTCTTCC	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			27	95	---	---	---	---	PASS	T	113564904	T	T	113564904	4	4	124	1	0	0	0	0	0	1	0	0	3946	372	13	5	7027	5	CSMD3	8	113564904	Nonsense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	261132	113564904	32799118	66	45463										
TG	7038	broad.mit.edu	37	chr8	134145775	134145775	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	catttgcaaccccctggcctGactttgtaccccgtgctggt	9	15	0	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr8:134145775G>C	uc003ytw.2	+	47	8100	c.8059G>C	c.(8059-8061)GAC>CAC	p.D2687H	TG_uc010mdw.2_Missense_Mutation_p.D1446H|TG_uc011ljb.1_Missense_Mutation_p.D1056H|TG_uc011ljc.1_Missense_Mutation_p.D820H	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2687					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CCCCTGGCCTGACTTTGTACC	0.502													29	99	---	---	---	---	PASS	C	134145775	C	C	134145775	3	2	124	1	0	0	0	0	1	0	0	0	15810	1290	45	2	8245	2	TG	8	134145775	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	20580871	134145775	12218247	67	45464										
PTK2	5747	broad.mit.edu	37	chr8	141889697	141889697	+	Missense_Mutation	SNP	G	A	A													0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gaatccatagcaggccacatGctttactttgtgactgtcca							TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr8:141889697G>A	uc003yvu.2	-	4	465	c.235C>T	c.(235-237)CAT>TAT	p.H79Y	PTK2_uc003yvr.2_5'UTR|PTK2_uc003yvs.2_Missense_Mutation_p.H79Y|PTK2_uc003yvt.2_Missense_Mutation_p.H101Y|PTK2_uc003yvv.2_Intron|PTK2_uc011ljr.1_Missense_Mutation_p.H79Y	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	79	FERM.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			CAGGCCACATGCTTTACTTTG	0.438													82	400	---	---	---	---	PASS	A	141889697	A	A	141889697	3	1	124	1	0	0	0	0	1	0	0	0	12762	1319	46	3	3039	3	PTK2	8	141889697	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	7743922	141889697	4474325	68	45465	841	2								
PTK2	5747	broad.mit.edu	37	chr8	141889698	141889698	+	Silent	SNP	C	T	T													0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aatccatagcaggccacatgCtttactttgtgactgtccac							TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr8:141889698C>T	uc003yvu.2	-	4	464	c.234G>A	c.(232-234)AAG>AAA	p.K78K	PTK2_uc003yvr.2_5'UTR|PTK2_uc003yvs.2_Silent_p.K78K|PTK2_uc003yvt.2_Silent_p.K100K|PTK2_uc003yvv.2_Intron|PTK2_uc011ljr.1_Silent_p.K78K	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	78	FERM.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			AGGCCACATGCTTTACTTTGT	0.438													83	396	---	---	---	---	PASS	T	141889698	T	T	141889698	2	4	124	1	0	0	0	0	0	0	0	1	12762	796	28	3		3	PTK2	8	141889698	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	1	141889698	4474324	69	45466	841	2								
ZNF251	90987	broad.mit.edu	37	chr8	145947101	145947101	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gagccatcatttaaagcaggTttctctccaacacgagtctg	8	11	3	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr8:145947101T>C	uc003zdv.3	-	5	2200	c.1944A>G	c.(1942-1944)AAA>AAG	p.K648K		NM_138367	NP_612376	Q9BRH9	ZN251_HUMAN	zinc finger protein 251	648					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;7.54e-38)|all cancers(56;6.19e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.198)		TTAAAGCAGGTTTCTCTCCAA	0.403													24	65	---	---	---	---	PASS	C	145947101	C	C	145947101	2	2	124	1	0	0	0	0	0	0	0	1	17793	1722	60	5		5	ZNF251	8	145947101	Silent	SNP	T	TCGA-60-2711-01A-01D-1522-08	4057403	145947101	416921	70	45467										
IFNE	338376	broad.mit.edu	37	chr9	21481486	21481486	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gtgtcctttttggtactgctGaggactcaaagacttctgag	11	8	2	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr9:21481486G>A	uc003zpg.2	-	1	827	c.208C>T	c.(208-210)CAG>TAG	p.Q70*	LOC554202_uc003zpe.2_Intron|LOC554202_uc003zpf.2_Intron	NM_176891	NP_795372	Q86WN2	IFNE_HUMAN	interferon, epsilon precursor	70					defense response|response to virus	extracellular space	cytokine activity|cytokine receptor binding				0						TGGTACTGCTGAGGACTCAAA	0.433													72	44	---	---	---	---	PASS	A	21481486	A	A	21481486	4	1	124	1	0	0	0	0	0	1	0	0	7547	1299	45	2	422	2	IFNE	9	21481486	Nonsense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08		21481486	119731945	71	45468										
PGM5	5239	broad.mit.edu	37	chr9	71094458	71094458	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tgggccaaatttggccgccaCtactattgcaggtgaggaga	13	9	0	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr9:71094458C>A	uc004agr.2	+	8	1513	c.1284C>A	c.(1282-1284)CAC>CAA	p.H428Q		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	428					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						TTGGCCGCCACTACTATTGCA	0.502													22	57	---	---	---	---	PASS	A	71094458	A	A	71094458	3	1	124	1	0	0	0	0	1	0	0	0	11801	564	20	3	1314	3	PGM5	9	71094458	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	49612972	71094458	70118973	72	45469										
VPS13A	23230	broad.mit.edu	37	chr9	79985424	79985424	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	agactaccaacagaagagaaGagaagccatgaataagcaac	9	8	0	5			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr9:79985424G>A	uc004akr.2	+	65	9097	c.8837G>A	c.(8836-8838)AGA>AAA	p.R2946K	VPS13A_uc004akp.3_Missense_Mutation_p.R2946K|VPS13A_uc004akq.3_Missense_Mutation_p.R2946K|VPS13A_uc004aks.2_Missense_Mutation_p.R2907K	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2946					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						CAGAAGAGAAGAGAAGCCATG	0.468													25	57	---	---	---	---	PASS	A	79985424	A	A	79985424	3	1	124	1	0	0	0	0	1	0	0	0	17186	942	33	2	9095	2	VPS13A	9	79985424	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	8890966	79985424	61228007	73	45470										
TEX10	54881	broad.mit.edu	37	chr9	103066024	103066024	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ctggcccacaacaggcagctCctcaggcccaactctgttca	8	17	3	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr9:103066024C>A	uc004bas.2	-	14	2781	c.2566G>T	c.(2566-2568)GAG>TAG	p.E856*	TEX10_uc011lvf.1_Nonsense_Mutation_p.E695*|TEX10_uc011lvg.1_Nonsense_Mutation_p.E840*	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	856						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		ACAGGCAGCTCCTCAGGCCCA	0.577													58	177	---	---	---	---	PASS	A	103066024	A	A	103066024	4	1	124	1	0	0	0	0	0	1	0	0	15769	864	30	2	231	2	TEX10	9	103066024	Nonsense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	23080600	103066024	38147407	74	45471										
LMX1B	4010	broad.mit.edu	37	chr9	129455586	129455586	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ggcctccttcgaggtctcgtCgaagccttgccgaaaggtga	13	12	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr9:129455586C>G	uc004bqj.2	+	4	706	c.656C>G	c.(655-657)TCG>TGG	p.S219W	LMX1B_uc004bqi.2_Missense_Mutation_p.S219W|LMX1B_uc011maa.1_Missense_Mutation_p.S219W	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	219	Homeobox.				dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GAGGTCTCGTCGAAGCCTTGC	0.587									Nail-Patella_Syndrome				8	4	---	---	---	---	PASS	G	129455586	G	G	129455586	3	3	124	1	0	0	0	0	1	0	0	0	8862	893	31	2	739	2	LMX1B	9	129455586	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	26389562	129455586	11757845	75	45472										
PIP5KL1	138429	broad.mit.edu	37	chr9	130688212	130688212	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aacaagggggctgccctcagGggcgggatccacccagcggc	16	14	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr9:130688212G>T	uc011mao.1	-	8	742	c.697C>A	c.(697-699)CCT>ACT	p.P233T	PIP5KL1_uc004bsu.2_Missense_Mutation_p.P30T	NM_001135219	NP_001128691	Q5T9C9	PI5L1_HUMAN	phosphatidylinositol-4-phosphate 5-kinase-like 1	233	PIPK.					cytoplasm|membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			lung(1)|kidney(1)	2						CTGCCCTCAGGGGCGGGATCC	0.582													60	29	---	---	---	---	PASS	T	130688212	T	T	130688212	3	4	124	1	0	0	0	0	1	0	0	0	11942	1232	43	3	499	3	PIP5KL1	9	130688212	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	1232626	130688212	10525219	76	45473										
OGDHL	55753	broad.mit.edu	37	chr10	50966569	50966569	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gcgccagccaaacaccgggaCgtcatgtgcagccaggagcc	13	15	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr10:50966569C>A	uc001jie.2	-	2	212	c.70G>T	c.(70-72)GTC>TTC	p.V24F	OGDHL_uc009xog.2_Missense_Mutation_p.V51F|OGDHL_uc010qgt.1_Missense_Mutation_p.V24F|OGDHL_uc010qgu.1_Intron|OGDHL_uc009xoh.2_Intron	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	24					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						AACACCGGGACGTCATGTGCA	0.612													7	52	---	---	---	---	PASS	A	50966569	A	A	50966569	3	1	124	1	0	0	0	0	1	0	0	0	10840	536	19	1	3050	1	OGDHL	10	50966569	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08		50966569	84568178	77	45474										
CRTAC1	55118	broad.mit.edu	37	chr10	99667794	99667794	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	actggccgcagcgtccacaaAggtgccatcgccccggttgt	12	15	0	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr10:99667794A>T	uc001kou.1	-	6	1182	c.826T>A	c.(826-828)TTT>ATT	p.F276I	CRTAC1_uc001kov.2_Missense_Mutation_p.F265I|CRTAC1_uc001kot.1_Missense_Mutation_p.F66I	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	276						proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		GCGTCCACAAAGGTGCCATCG	0.627													8	46	---	---	---	---	PASS	T	99667794	T	T	99667794	3	4	124	1	0	0	0	0	1	0	0	0	3896	72	3	5	1199	5	CRTAC1	10	99667794	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	48701225	99667794	35866953	78	45475										
PPRC1	23082	broad.mit.edu	37	chr10	103901185	103901185	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ctgccccagtctcaccttacAgttccacatgtacctatggg	7	15	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr10:103901185A>G	uc001kum.2	+	5	2959	c.2920A>G	c.(2920-2922)AGT>GGT	p.S974G	PPRC1_uc001kun.2_Missense_Mutation_p.S854G|PPRC1_uc010qqj.1_Missense_Mutation_p.S974G|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	974	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		CTCACCTTACAGTTCCACATG	0.607													24	80	---	---	---	---	PASS	G	103901185	G	G	103901185	3	3	124	1	0	0	0	0	1	0	0	0	12410	188	7	5	2938	5	PPRC1	10	103901185	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	4233391	103901185	31633562	79	45476										
CNNM2	54805	broad.mit.edu	37	chr10	104809514	104809514	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	taaacaatgagggagaagggGatccattttatgaagttctg	12	4	1	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr10:104809514G>A	uc001kwm.2	+	2	1796	c.1672G>A	c.(1672-1674)GAT>AAT	p.D558N	CNNM2_uc001kwn.2_Missense_Mutation_p.D558N	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	558	CBS 2.				ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		GGGAGAAGGGGATCCATTTTA	0.368													36	149	---	---	---	---	PASS	A	104809514	A	A	104809514	3	1	124	1	0	0	0	0	1	0	0	0	3613	1174	41	2	1720	2	CNNM2	10	104809514	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	908329	104809514	30725233	80	45477										
OR51F2	119694	broad.mit.edu	37	chr11	4842815	4842815	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gtttgtggtcctctgtgaacGgagcctccataagcctatgt	11	10	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr11:4842815G>C	uc010qyn.1	+	1	200	c.200G>C	c.(199-201)CGG>CCG	p.R67P		NM_001004753	NP_001004753	Q8NH61	O51F2_HUMAN	olfactory receptor, family 51, subfamily F,	67	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTCTGTGAACGGAGCCTCCAT	0.478													55	277	---	---	---	---	PASS	C	4842815	C	C	4842815	3	2	124	1	0	0	0	0	1	0	0	0	11097	1116	39	4	202	4	OR51F2	11	4842815	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08		4842815	130163701	81	45478										
OR2AG2	338755	broad.mit.edu	37	chr11	6789764	6789764	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aggatgtggccaccatgatcCagcagactcttgggctcatg	12	11	2	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr11:6789764C>A	uc001meq.1	-	1	425	c.425G>T	c.(424-426)TGG>TTG	p.W142L		NM_001004490	NP_001004490	A6NM03	O2AG2_HUMAN	olfactory receptor, family 2, subfamily AG,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CACCATGATCCAGCAGACTCT	0.517													21	73	---	---	---	---	PASS	A	6789764	A	A	6789764	3	1	124	1	0	0	0	0	1	0	0	0	10985	595	21	3	529	3	OR2AG2	11	6789764	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	1946949	6789764	128216752	82	45479										
OR4C15	81309	broad.mit.edu	37	chr11	55321900	55321900	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tcctttgtcctaattgcagaCtatacatgatccctgttgga	7	10	0	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr11:55321900C>G	uc010rig.1	+	1	118	c.118C>G	c.(118-120)CTA>GTA	p.L40V		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	Error:Variant_position_missing_in_Q8NGM1_after_alignment					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TAATTGCAGACTATACATGAT	0.383										HNSCC(20;0.049)			64	269	---	---	---	---	PASS	G	55321900	G	G	55321900	3	3	124	1	0	0	0	0	1	0	0	0	11048	564	20	4	120	4	OR4C15	11	55321900	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	48532136	55321900	79684616	83	45480										
FAM111A	63901	broad.mit.edu	37	chr11	58920509	58920509	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	caacaagtacctatggaactAtataatggaattactcctgt	6	8	0	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr11:58920509A>T	uc010rkp.1	+	5	1595	c.1368A>T	c.(1366-1368)CTA>CTT	p.L456L	FAM111A_uc010rkq.1_Silent_p.L456L|FAM111A_uc010rkr.1_Silent_p.L456L|FAM111A_uc001nno.2_Silent_p.L456L|FAM111A_uc001nnp.2_Silent_p.L456L|FAM111A_uc001nnq.2_Silent_p.L456L	NM_001142521	NP_001135993	Q96PZ2	F111A_HUMAN	hypothetical protein LOC63901	456					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_epithelial(135;0.139)				CTATGGAACTATATAATGGAA	0.383													50	134	---	---	---	---	PASS	T	58920509	T	T	58920509	2	4	124	1	0	0	0	0	0	0	0	1	5399	436	16	5		5	FAM111A	11	58920509	Silent	SNP	A	TCGA-60-2711-01A-01D-1522-08	3598609	58920509	76086007	84	45481										
RASGRP2	10235	broad.mit.edu	37	chr11	64507609	64507609	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ccacagggttccgctgagtcAcctgccgcttccacttgtag	10	15	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr11:64507609A>T	uc009ypu.2	-	6	625	c.398T>A	c.(397-399)GTG>GAG	p.V133E	RASGRP2_uc001oat.2_Missense_Mutation_p.V35E|RASGRP2_uc001oau.2_5'UTR|RASGRP2_uc009ypv.2_Missense_Mutation_p.V133E|RASGRP2_uc009ypw.2_Missense_Mutation_p.V133E	NM_001098671	NP_001092141	Q7LDG7	GRP2_HUMAN	RAS guanyl releasing protein 2	133					platelet activation|Ras protein signal transduction|regulation of cell growth|regulation of small GTPase mediated signal transduction	cell junction|cytosol|ruffle membrane|synapse|synaptosome	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity				0						CCGCTGAGTCACCTGCCGCTT	0.602													24	72	---	---	---	---	PASS	T	64507609	T	T	64507609	3	4	124	1	0	0	0	0	1	0	0	0	13075	159	6	5	1475	5	RASGRP2	11	64507609	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	5587100	64507609	70498907	85	45482										
TBC1D10C	374403	broad.mit.edu	37	chr11	67174428	67174428	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cgagtggttcctgtgcctctTcgcccgctccctgcccttcc	9	19	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr11:67174428T>G	uc001ola.2	+	8	808	c.779T>G	c.(778-780)TTC>TGC	p.F260C	PPP1CA_uc001okx.1_Intron|TBC1D10C_uc001okz.2_Intron|TBC1D10C_uc001olb.2_RNA	NM_198517	NP_940919	Q8IV04	TB10C_HUMAN	TBC1 domain family, member 10C	260	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			CTGTGCCTCTTCGCCCGCTCC	0.682													123	150	---	---	---	---	PASS	G	67174428	G	G	67174428	3	3	124	1	0	0	0	0	1	0	0	0	15597	1783	62	5	805	5	TBC1D10C	11	67174428	Missense_Mutation	SNP	T	TCGA-60-2711-01A-01D-1522-08	2666819	67174428	67832088	86	45483										
ARHGEF17	9828	broad.mit.edu	37	chr11	73021927	73021927	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	caccgggctgccacctctgaAgagcctactgggttctctgt	11	14	2	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr11:73021927A>G	uc001otu.2	+	1	2265	c.2244A>G	c.(2242-2244)GAA>GAG	p.E748E		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	748					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						CCACCTCTGAAGAGCCTACTG	0.622													17	69	---	---	---	---	PASS	G	73021927	G	G	73021927	2	3	124	1	0	0	0	0	0	0	0	1	900	69	3	5		5	ARHGEF17	11	73021927	Silent	SNP	A	TCGA-60-2711-01A-01D-1522-08	5847499	73021927	61984589	87	45484										
FOLH1B	219595	broad.mit.edu	37	chr11	89431699	89431699	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ccaaggcctggggagatgtgAagagacagatttctgttgca	14	7	1	4			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr11:89431699A>G	uc001pda.2	+	14	1787	c.1261A>G	c.(1261-1263)AAG>GAG	p.K421E		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	421					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						GGGAGATGTGAAGAGACAGAT	0.458													102	99	---	---	---	---	PASS	G	89431699	G	G	89431699	3	3	124	1	0	0	0	0	1	0	0	0	5980	247	9	5	1307	5	FOLH1B	11	89431699	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	16409772	89431699	45574817	88	45485										
MTNR1B	4544	broad.mit.edu	37	chr11	92715352	92715352	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ttccgcagggaatacaagagGatcctcttggccctttggaa	11	10	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr11:92715352G>T	uc001pdk.1	+	2	1066	c.963G>T	c.(961-963)AGG>AGT	p.R321S		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	321	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	AATACAAGAGGATCCTCTTGG	0.532													80	319	---	---	---	---	PASS	T	92715352	T	T	92715352	3	4	124	1	0	0	0	0	1	0	0	0	9952	1165	41	2	969	2	MTNR1B	11	92715352	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	3283653	92715352	42291164	89	45486										
KDM4D	55693	broad.mit.edu	37	chr11	94731718	94731718	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cctatggctgcccgcagtggGacacggtgccacacccttgt	12	15	0	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr11:94731718G>C	uc001pfe.2	+	3	2014	c.1182G>C	c.(1180-1182)GGG>GGC	p.G394G		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	394					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CCCGCAGTGGGACACGGTGCC	0.627													18	46	---	---	---	---	PASS	C	94731718	C	C	94731718	2	2	124	1	0	0	0	0	0	0	0	1	8131	1161	41	2		2	KDM4D	11	94731718	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08	2016366	94731718	40274798	90	45487										
B3GAT1	27087	broad.mit.edu	37	chr11	134253790	134253790	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gtgtagttgaggccggtgtcGcgcagcaggcgcgcggtcag	19	10	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr11:134253790G>A	uc001qhq.2	-	4	666	c.405C>T	c.(403-405)CGC>CGT	p.R135R	B3GAT1_uc001qhr.2_Silent_p.R135R|B3GAT1_uc010scv.1_Silent_p.R148R	NM_018644	NP_061114	Q9P2W7	B3GA1_HUMAN	beta-1,3-glucuronyltransferase 1	135	Lumenal (Potential).				carbohydrate metabolic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.39e-23)|all_epithelial(12;7.17e-17)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|Medulloblastoma(222;0.0125)|all_neural(223;0.0137)|Esophageal squamous(93;0.0559)		Epithelial(10;2.58e-11)|all cancers(11;5.75e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.000879)|Lung(977;0.0864)		GGCCGGTGTCGCGCAGCAGGC	0.716													3	6	---	---	---	---	PASS	A	134253790	A	A	134253790	2	1	124	1	0	0	0	0	0	0	0	1	1253	1074	38	1		1	B3GAT1	11	134253790	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08	39522072	134253790	752726	91	45488										
PRB2	653247	broad.mit.edu	37	chr12	11546585	11546585	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tttgttgcctccttgtggggGtggtccttgtggctttcctg	14	9	0	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr12:11546585G>T	uc010shk.1	-	3	462	c.427C>A	c.(427-429)CCC>ACC	p.P143T		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			CCTTGTGGGGGTGGTCCTTGT	0.592													98	470	---	---	---	---	PASS	T	11546585	T	T	11546585	3	4	124	1	0	0	0	0	1	0	0	0	12443	1261	44	3	827	3	PRB2	12	11546585	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08		11546585	122305310	92	45489										
KIF21A	55605	broad.mit.edu	37	chr12	39763666	39763666	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cccagttcttcctcaacaatGttaacatcaaatcctgttcc	3	14	3	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr12:39763666G>A	uc001rly.2	-	3	461	c.315C>T	c.(313-315)AAC>AAT	p.N105N	KIF21A_uc001rlx.2_Silent_p.N105N|KIF21A_uc001rlz.2_Silent_p.N105N|KIF21A_uc010skl.1_Silent_p.N105N|KIF21A_uc001rma.1_Silent_p.N105N	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	105	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				CCTCAACAATGTTAACATCAA	0.338													24	88	---	---	---	---	PASS	A	39763666	A	A	39763666	2	1	124	1	0	0	0	0	0	0	0	1	8288	1368	48	3		3	KIF21A	12	39763666	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08	28217081	39763666	94088229	93	45490										
NELL2	4753	broad.mit.edu	37	chr12	45173490	45173490	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tctctgtcctagccaaaatgTtgtgcctagaggcaagtctg	10	10	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr12:45173490T>A	uc001rog.2	-	5	1157	c.562A>T	c.(562-564)ACA>TCA	p.T188S	NELL2_uc001rof.3_Missense_Mutation_p.T187S|NELL2_uc001roh.2_Missense_Mutation_p.T188S|NELL2_uc009zkd.2_Missense_Mutation_p.T187S|NELL2_uc010skz.1_Missense_Mutation_p.T238S|NELL2_uc010sla.1_Missense_Mutation_p.T211S|NELL2_uc001roi.1_Missense_Mutation_p.T188S|NELL2_uc010slb.1_Missense_Mutation_p.T187S|NELL2_uc001roj.2_Missense_Mutation_p.T188S	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	188	TSP N-terminal.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		AGCCAAAATGTTGTGCCTAGA	0.368													25	107	---	---	---	---	PASS	A	45173490	A	A	45173490	3	1	124	1	0	0	0	0	1	0	0	0	10334	1725	60	5	1952	5	NELL2	12	45173490	Missense_Mutation	SNP	T	TCGA-60-2711-01A-01D-1522-08	5409824	45173490	88678405	94	45491										
NAA25	80018	broad.mit.edu	37	chr12	112478342	112478342	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tgtgttttcaagttaccatcTttaacttctaagaggtcacc	6	9	4	1	rs112342385		TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr12:112478342T>C	uc001ttm.2	-	21	2501	c.2481A>G	c.(2479-2481)AAA>AAG	p.K827K	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Silent_p.K799K|NAA25_uc009zwa.1_Silent_p.K805K	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	827						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						AGTTACCATCTTTAACTTCTA	0.289													24	100	---	---	---	---	PASS	C	112478342	C	C	112478342	2	2	124	1	0	0	0	0	0	0	0	1	10121	1606	56	5		5	NAA25	12	112478342	Silent	SNP	T	TCGA-60-2711-01A-01D-1522-08	67304852	112478342	21373553	95	45492										
POLE	5426	broad.mit.edu	37	chr12	133215752	133215752	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	atgttgtggagtgtgcggtgCagggcagggtcatgaagcag	19	5	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr12:133215752C>A	uc001uks.1	-	40	5555	c.5511G>T	c.(5509-5511)CTG>CTT	p.L1837L	POLE_uc001ukq.1_Silent_p.L47L|POLE_uc001ukr.1_Silent_p.L641L|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1837					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		GTGTGCGGTGCAGGGCAGGGT	0.577								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage			OREG0022269	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	88	---	---	---	---	PASS	A	133215752	A	A	133215752	2	1	124	1	0	0	0	0	0	0	0	1	12196	697	25	3		3	POLE	12	133215752	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	20737410	133215752	636143	96	45493										
PROZ	8858	broad.mit.edu	37	chr13	113819369	113819369	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ttgctgccgcaaatgcagacCagtgtgcctgcggggtgctg	15	11	0	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr13:113819369C>A	uc001vta.1	+	6	515	c.508C>A	c.(508-510)CAG>AAG	p.Q170K	PROZ_uc010agr.1_Missense_Mutation_p.Q192K	NM_003891	NP_003882	P22891	PROZ_HUMAN	protein Z, vitamin K-dependent plasma	170					blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.216)	all cancers(43;0.104)		Menadione(DB00170)	AAATGCAGACCAGTGTGCCTG	0.522													32	26	---	---	---	---	PASS	A	113819369	A	A	113819369	3	1	124	1	0	0	0	0	1	0	0	0	12562	595	21	3	530	3	PROZ	13	113819369	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08		113819369	1350509	97	45494										
SPTB	6710	broad.mit.edu	37	chr14	65253722	65253722	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tggatggcgatgatacctgcCaggtcccgccccaggtcttt	12	13	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr14:65253722C>T	uc001xht.2	-	15	3015	c.2961G>A	c.(2959-2961)CTG>CTA	p.L987L	SPTB_uc001xhr.2_Silent_p.L987L|SPTB_uc001xhs.2_Silent_p.L987L|SPTB_uc001xhu.2_Silent_p.L987L	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	987	Spectrin 7.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TGATACCTGCCAGGTCCCGCC	0.602													32	41	---	---	---	---	PASS	T	65253722	T	T	65253722	2	4	124	1	0	0	0	0	0	0	0	1	15117	581	21	3		3	SPTB	14	65253722	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08		65253722	42095818	98	45495										
UBE3A	7337	broad.mit.edu	37	chr15	25615718	25615718	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	agcagcccaacttacccggaCaagtgcatcatctatgatat	7	12	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr15:25615718C>A	uc001zaq.2	-	4	1612	c.1612G>T	c.(1612-1614)GTC>TTC	p.V538F	uc001zae.2_Intron|UBE3A_uc001zar.2_Missense_Mutation_p.V515F|UBE3A_uc001zas.2_Missense_Mutation_p.V535F|UBE3A_uc001zat.2_Missense_Mutation_p.V515F	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	538					brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		CTTACCCGGACAAGTGCATCA	0.368													47	311	---	---	---	---	PASS	A	25615718	A	A	25615718	3	1	124	1	0	0	0	0	1	0	0	0	16876	478	17	3	1047	3	UBE3A	15	25615718	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08		25615718	76915674	99	45496										
HERC2	8924	broad.mit.edu	37	chr15	28421627	28421627	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	agggagaactgagctccacaCtcaatctggcacaccccctg	9	15	2	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr15:28421627C>A	uc001zbj.2	-	63	9739	c.9633G>T	c.(9631-9633)GAG>GAT	p.E3211D		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3211	RCC1 10.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GAGCTCCACACTCAATCTGGC	0.542													20	156	---	---	---	---	PASS	A	28421627	A	A	28421627	3	1	124	1	0	0	0	0	1	0	0	0	7058	564	20	3	4995	3	HERC2	15	28421627	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	2805909	28421627	74109765	100	45497										
TRPM1	4308	broad.mit.edu	37	chr15	31294195	31294195	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	atgtaaactttttgacctgaGagatgggaatcccaaagttt	9	6	0	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr15:31294195G>C	uc001zfm.2	-	27	4770	c.4642C>G	c.(4642-4644)CTC>GTC	p.L1548V	TRPM1_uc010azy.2_Missense_Mutation_p.L1455V|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1548	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		TTTGACCTGAGAGATGGGAAT	0.423													193	254	---	---	---	---	PASS	C	31294195	C	C	31294195	3	2	124	1	0	0	0	0	1	0	0	0	16582	942	33	2	173	2	TRPM1	15	31294195	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	2872568	31294195	71237197	101	45498										
RPAP1	26015	broad.mit.edu	37	chr15	41819250	41819250	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gaactatagtctctatcagcCgagggcactccaggacctat	9	12	2	0	rs143236694	byFrequency	TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr15:41819250C>A	uc001zod.2	-	14	1887	c.1763G>T	c.(1762-1764)CGG>CTG	p.R588L		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	588						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		CTCTATCAGCCGAGGGCACTC	0.562													77	76	---	---	---	---	PASS	A	41819250	A	A	41819250	3	1	124	1	0	0	0	0	1	0	0	0	13541	652	23	1	2466	1	RPAP1	15	41819250	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	10525055	41819250	60712142	102	45499										
SPTBN5	51332	broad.mit.edu	37	chr15	42150811	42150811	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gggcctcacccgctgcagctCctgctgttggtgcatgctcg	13	15	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr15:42150811C>T	uc001zos.2	-	49	8443	c.8110G>A	c.(8110-8112)GAG>AAG	p.E2704K		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	2739	Spectrin 24.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		CGCTGCAGCTCCTGCTGTTGG	0.612													19	12	---	---	---	---	PASS	T	42150811	T	T	42150811	3	4	124	1	0	0	0	0	1	0	0	0	15121	864	30	2	2889	2	SPTBN5	15	42150811	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	331561	42150811	60380581	103	45500										
BLM	641	broad.mit.edu	37	chr15	91293049	91293049	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tgtaagagtaagcactgctcAgaaatcaaaaaagggtaaga	10	5	2	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr15:91293049A>T	uc002bpr.2	+	3	648	c.551A>T	c.(550-552)CAG>CTG	p.Q184L	BLM_uc010uqh.1_Missense_Mutation_p.Q184L|BLM_uc010uqi.1_5'UTR|BLM_uc010bnx.2_Missense_Mutation_p.Q184L	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	184					double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			AGCACTGCTCAGAAATCAAAA	0.378			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				54	75	---	---	---	---	PASS	T	91293049	T	T	91293049	3	4	124	1	0	0	0	0	1	0	0	0	1445	188	7	5	557	5	BLM	15	91293049	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	49142238	91293049	11238343	104	45501										
CASKIN1	57524	broad.mit.edu	37	chr16	2234823	2234823	+	Nonsense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ttcttgggcggctgctccccAtagacctgcccggcgtgggc	14	15	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr16:2234823A>C	uc010bsg.1	-	14	1403	c.1371T>G	c.(1369-1371)TAT>TAG	p.Y457*		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	457	CASK-binding (By similarity).				signal transduction	cytoplasm				skin(2)	2						GCTGCTCCCCATAGACCTGCC	0.682													10	15	---	---	---	---	PASS	C	2234823	C	C	2234823	4	2	124	1	0	0	0	0	0	1	0	0	2666	224	8	5	2952	5	CASKIN1	16	2234823	Nonsense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08		2234823	88119930	105	45502										
DNAH3	55567	broad.mit.edu	37	chr16	20944647	20944647	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cacacatagatgtcctgatgCagaaacattgcgctctcccc	7	14	1	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr16:20944647C>T	uc010vbe.1	-	62	12180	c.12180G>A	c.(12178-12180)CTG>CTA	p.L4060L	DNAH3_uc010vbd.1_Silent_p.L1495L	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	4060					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TGTCCTGATGCAGAAACATTG	0.517													33	206	---	---	---	---	PASS	T	20944647	T	T	20944647	2	4	124	1	0	0	0	0	0	0	0	1	4603	697	25	3		3	DNAH3	16	20944647	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	18709824	20944647	69410106	106	45503										
USP31	57478	broad.mit.edu	37	chr16	23079455	23079455	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ctgcagactgcctgccacccGgagacgagggaactccagag	13	14	0	3	rs150676134		TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr16:23079455G>A	uc002dll.2	-	16	3971	c.3971C>T	c.(3970-3972)CCG>CTG	p.P1324L	USP31_uc002dlk.2_Missense_Mutation_p.P596L|USP31_uc010vca.1_Missense_Mutation_p.P627L|USP31_uc010bxm.2_Missense_Mutation_p.P612L	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	1324					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		CCTGCCACCCGGAGACGAGGG	0.502													32	156	---	---	---	---	PASS	A	23079455	A	A	23079455	3	1	124	1	0	0	0	0	1	0	0	0	17059	1116	39	1	91	1	USP31	16	23079455	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	2134808	23079455	67275298	107	45504										
USP31	57478	broad.mit.edu	37	chr16	23079989	23079989	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tgtggtctgaagtcctgctcTtcccaggtgggaaagggctc	14	10	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr16:23079989T>C	uc002dll.2	-	16	3437	c.3437A>G	c.(3436-3438)AAG>AGG	p.K1146R	USP31_uc002dlk.2_Missense_Mutation_p.K418R|USP31_uc010vca.1_Missense_Mutation_p.K449R|USP31_uc010bxm.2_Missense_Mutation_p.K434R	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	1146	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		AGTCCTGCTCTTCCCAGGTGG	0.587													36	56	---	---	---	---	PASS	C	23079989	C	C	23079989	3	2	124	1	0	0	0	0	1	0	0	0	17059	1609	56	5	625	5	USP31	16	23079989	Missense_Mutation	SNP	T	TCGA-60-2711-01A-01D-1522-08	534	23079989	67274764	108	45505										
ALOX15	246	broad.mit.edu	37	chr17	4542424	4542424	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gagggtcctcgcccacagtgCggcctagaaggacagaggag	16	11	0	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr17:4542424C>T	uc002fyh.2	-	3	355	c.341G>A	c.(340-342)CGC>CAC	p.R114H	ALOX15_uc010vsd.1_Missense_Mutation_p.R75H|ALOX15_uc010vse.1_Missense_Mutation_p.R136H	NM_001140	NP_001131	P16050	LOX15_HUMAN	arachidonate 15-lipoxygenase	114	PLAT.				inflammatory response|leukotriene biosynthetic process	nucleus	arachidonate 15-lipoxygenase activity|iron ion binding|lipoxygenase activity			skin(3)|ovary(1)|lung(1)	5				READ - Rectum adenocarcinoma(115;0.0327)	Ciclopirox(DB01188)|Masoprocol(DB00179)|Zileuton(DB00744)	GCCCACAGTGCGGCCTAGAAG	0.607													5	250	---	---	---	---	PASS	T	4542424	T	T	4542424	3	4	124	1	0	0	0	0	1	0	0	0	538	768	27	1	1695	1	ALOX15	17	4542424	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08		4542424	76652786	109	45506										
TP53	7157	broad.mit.edu	37	chr17	7577145	7577146	+	Frame_Shift_Ins	INS	-	T	T													0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tcaaagctgttccgtcccagINStagattaccactactcagga							TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr17:7577145_7577146insT	uc002gim.2	-	8	986_987	c.792_793insA	c.(790-795)CTACTGfs	p.L264fs	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Frame_Shift_Ins_p.L264fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Ins_p.L132fs|TP53_uc010cng.1_Frame_Shift_Ins_p.L132fs|TP53_uc002gii.1_Frame_Shift_Ins_p.L132fs|TP53_uc010cnh.1_Frame_Shift_Ins_p.L264fs|TP53_uc010cni.1_Frame_Shift_Ins_p.L264fs|TP53_uc002gij.2_Frame_Shift_Ins_p.L264fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	264_265	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		L -> M (in sporadic cancers; somatic mutation).|L -> Q (in sporadic cancers; somatic mutation).|L -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).|L -> R (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.L264L(5)|p.L264fs*81(4)|p.?(4)|p.L264del(4)|p.L265M(4)|p.L265fs*80(3)|p.L264I(3)|p.G262_F270delGNLLGRNSF(2)|p.G262_S269delGNLLGRNS(2)|p.L265del(2)|p.264_265insSSGNL(1)|p.E258fs*71(1)|p.L265fs*81(1)|p.G262fs*2(1)|p.L264V(1)|p.L264P(1)|p.L264R(1)|p.S261_L264>R(1)|p.L265_R267delLGR(1)|p.L265_K305del41(1)|p.L265L(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)		TTCCGTCCCAGTAGATTACCAC	0.515		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)			17	15	---	---	---	---		T	7577146	T	T	7577145	7	5	124	1	0	1	1	0	0	0	0	0	16378	1020	36	0	493	0	TP53	17	7577145	Frame_Shift_Ins	INS	-	TCGA-60-2711-01A-01D-1522-08	3034721	7577145	73618065	110	45507										
PIK3R6	146850	broad.mit.edu	37	chr17	8732154	8732154	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	caggcagctcatcagcccccGtgggaaggtcccgctcaatg	12	15	3	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr17:8732154G>A	uc002glq.1	-	11	1283	c.1043C>T	c.(1042-1044)ACG>ATG	p.T348M	PIK3R6_uc002glr.1_RNA|PIK3R6_uc002gls.1_RNA	NM_001010855	NP_001010855	Q5UE93	PI3R6_HUMAN	phosphoinositide-3-kinase, regulatory subunit 6	348					platelet activation	cytosol					0						ATCAGCCCCCGTGGGAAGGTC	0.667													10	15	---	---	---	---	PASS	A	8732154	A	A	8732154	3	1	124	1	0	0	0	0	1	0	0	0	11923	1145	40	1	1260	1	PIK3R6	17	8732154	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	1155009	8732154	72463056	111	45508										
CDRT15	146822	broad.mit.edu	37	chr17	14139248	14139248	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tggacccgcatccatgcctgGaggaggaggttgcctctggg	16	11	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr17:14139248G>C	uc010vvu.1	-	3	492	c.492C>G	c.(490-492)CTC>CTG	p.L164L	CDRT15_uc010coq.2_RNA	NM_001007530	NP_001007531	Q96T59	CDRTF_HUMAN	CMT1A duplicated region transcript 15	164											0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)		TCCATGCCTGGAGGAGGAGGT	0.612													3	21	---	---	---	---	PASS	C	14139248	C	C	14139248	2	2	124	1	0	0	0	0	0	0	0	1	3175	1161	41	2		2	CDRT15	17	14139248	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08	5407094	14139248	67055962	112	45509										
PRKCA	5578	broad.mit.edu	37	chr17	64738758	64738758	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	agggatctgaagttagataaCgtcatgttggattcagaagg	13	4	3	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr17:64738758C>G	uc002jfp.1	+	13	1448	c.1404C>G	c.(1402-1404)AAC>AAG	p.N468K	PRKCA_uc002jfo.1_Missense_Mutation_p.N339K	NM_002737	NP_002728	P17252	KPCA_HUMAN	protein kinase C, alpha	468	Protein kinase.				activation of phospholipase C activity|energy reserve metabolic process|induction of apoptosis by extracellular signals|intracellular signal transduction|mRNA metabolic process|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of blood vessel endothelial cell migration|regulation of insulin secretion|response to interleukin-1|synaptic transmission	cytosol|endoplasmic reticulum|membrane fraction|nucleoplasm|plasma membrane	ATP binding|enzyme binding|histone kinase activity (H3-T6 specific)|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(1)|stomach(1)|lung(1)|breast(1)|ovary(1)	9			BRCA - Breast invasive adenocarcinoma(6;4.68e-09)		Phosphatidylserine(DB00144)|Vitamin E(DB00163)	AGTTAGATAACGTCATGTTGG	0.448													44	268	---	---	---	---	PASS	G	64738758	G	G	64738758	3	3	124	1	0	0	0	0	1	0	0	0	12507	535	19	4	1454	4	PRKCA	17	64738758	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	50599510	64738758	16456452	113	45510										
BPTF	2186	broad.mit.edu	37	chr17	65908159	65908159	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	agctaaaaaataccactgacAaaaagaataatgaaaatcga	5	6	0	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr17:65908159A>G	uc002jgf.2	+	11	4220	c.4159A>G	c.(4159-4161)AAA>GAA	p.K1387E	BPTF_uc002jge.2_Missense_Mutation_p.K1513E	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1513					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TACCACTGACAAAAAGAATAA	0.303													43	78	---	---	---	---	PASS	G	65908159	G	G	65908159	3	3	124	1	0	0	0	0	1	0	0	0	1495	131	5	5	4587	5	BPTF	17	65908159	Missense_Mutation	SNP	A	TCGA-60-2711-01A-01D-1522-08	1169401	65908159	15287051	114	45511										
ABCA9	10350	broad.mit.edu	37	chr17	67039676	67039676	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cattgtcatcaatgacgtaaTgtattgtctttcttgtgtaa	7	6	4	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr17:67039676T>C	uc002jhu.2	-	6	897	c.754A>G	c.(754-756)ATT>GTT	p.I252V	ABCA9_uc010dez.2_Missense_Mutation_p.I252V|ABCA9_uc002jhv.2_Missense_Mutation_p.I252V	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	252					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					AATGACGTAATGTATTGTCTT	0.328													5	237	---	---	---	---	PASS	C	67039676	C	C	67039676	3	2	124	1	0	0	0	0	1	0	0	0	39	1464	51	5	4256	5	ABCA9	17	67039676	Missense_Mutation	SNP	T	TCGA-60-2711-01A-01D-1522-08	1131517	67039676	14155534	115	45512										
RNF213	57674	broad.mit.edu	37	chr17	78363638	78363638	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ccttctgcaggccttaaacaGatgccagttaaaacacacca	6	13	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr17:78363638G>C	uc002jyh.1	+	41	9648	c.9425G>C	c.(9424-9426)AGA>ACA	p.R3142T	uc002jyi.1_Intron|RNF213_uc010dhx.1_Missense_Mutation_p.R86T	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)			GCCTTAAACAGATGCCAGTTA	0.532													128	42	---	---	---	---	PASS	C	78363638	C	C	78363638	3	2	124	1	0	0	0	0	1	0	0	0	13477	942	33	2	15783	2	RNF213	17	78363638	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	11323962	78363638	2831572	116	45513										
CSNK1D	1453	broad.mit.edu	37	chr17	80211076	80211076	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aagttgtctggcttcacatcCcggtggatgaagttctttga	11	8	3	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr17:80211076C>A	uc002kej.2	-	4	697	c.381G>T	c.(379-381)CGG>CGT	p.R127R	SLC16A3_uc002kee.2_Intron|CSNK1D_uc002kef.2_Silent_p.R127R|CSNK1D_uc002kei.2_Silent_p.R127R|CSNK1D_uc010wvj.1_Intron|CSNK1D_uc010dil.2_5'Flank|CSNK1D_uc002keh.2_5'UTR|CSNK1D_uc010dim.1_5'Flank	NM_001893	NP_001884	P48730	KC1D_HUMAN	casein kinase 1, delta isoform 1	127	Protein kinase.				circadian regulation of gene expression|DNA repair|G2/M transition of mitotic cell cycle|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|regulation of circadian rhythm|Wnt receptor signaling pathway	centrosome|cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			breast(2)	2	Breast(20;0.00136)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.227)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0155)			GCTTCACATCCCGGTGGATGA	0.567													73	398	---	---	---	---	PASS	A	80211076	A	A	80211076	2	1	124	1	0	0	0	0	0	0	0	1	3952	610	22	3		3	CSNK1D	17	80211076	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	1847438	80211076	984134	117	45514										
CD226	10666	broad.mit.edu	37	chr18	67563247	67563247	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tttccaggttccgaaacaatGtggctatttgatggcacagc	10	9	0	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr18:67563247G>A	uc010dqo.2	-	3	864	c.417C>T	c.(415-417)CAC>CAT	p.H139H	CD226_uc002lkm.3_Silent_p.H139H	NM_006566	NP_006557	Q15762	CD226_HUMAN	CD226 molecule precursor	139	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|cell recognition|positive regulation of Fc receptor mediated stimulatory signaling pathway|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	cell surface|integral to plasma membrane|membrane raft	cell adhesion molecule binding|integrin binding|protein kinase binding|receptor activity				0		Esophageal squamous(42;0.129)				CCGAAACAATGTGGCTATTTG	0.468													13	86	---	---	---	---	PASS	A	67563247	A	A	67563247	2	1	124	1	0	0	0	0	0	0	0	1	2986	1368	48	3		3	CD226	18	67563247	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08		67563247	10514001	118	45515										
ALKBH7	84266	broad.mit.edu	37	chr19	6374904	6374904	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aacgccggattccccggggcCggcgcatctccgtgatctgc	13	16	2	1	rs147538989	byFrequency	TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:6374904C>A	uc002meo.1	+	4	974	c.586C>A	c.(586-588)CGG>AGG	p.R196R		NM_032306	NP_115682	Q9BT30	ALKB7_HUMAN	spermatogenesis associated 11 precursor	196						extracellular region|nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TCCCCGGGGCCGGCGCATCTC	0.637													33	63	---	---	---	---	PASS	A	6374904	A	A	6374904	2	1	124	1	0	0	0	0	0	0	0	1	532	643	23	1		1	ALKBH7	19	6374904	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08		6374904	52754079	119	45516										
C3	718	broad.mit.edu	37	chr19	6718267	6718267	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cccagcctcacctgtggagcCaggggtgtagatggtcttgt	14	11	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:6718267C>G	uc002mfm.2	-	3	486	c.424G>C	c.(424-426)GGC>CGC	p.G142R		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	142					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		CCTGTGGAGCCAGGGGTGTAG	0.647													20	14	---	---	---	---	PASS	G	6718267	G	G	6718267	3	3	124	1	0	0	0	0	1	0	0	0	2204	594	21	4	4723	4	C3	19	6718267	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	343363	6718267	52410716	120	45517										
RLN3	117579	broad.mit.edu	37	chr19	14139151	14139151	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ttcatccgagcagtcatcttCacctgcgggggctcccggtg	12	14	4	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:14139151C>T	uc002mxw.1	+	1	135	c.135C>T	c.(133-135)TTC>TTT	p.F45F	RLN3_uc010dzj.1_Silent_p.F45F	NM_080864	NP_543140	Q8WXF3	REL3_HUMAN	relaxin 3 preproprotein	45						extracellular region	hormone activity				0						CAGTCATCTTCACCTGCGGGG	0.647													76	39	---	---	---	---	PASS	T	14139151	T	T	14139151	2	4	124	1	0	0	0	0	0	0	0	1	13393	825	29	2		2	RLN3	19	14139151	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	7420884	14139151	44989832	121	45518										
CCDC105	126402	broad.mit.edu	37	chr19	15132725	15132725	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ctcccggaggctgcgcgcctCgcacaggtaaaccccctccc	10	20	0	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:15132725C>A	uc002nae.2	+	6	1344	c.1245C>A	c.(1243-1245)CTC>CTA	p.L415L		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	415					microtubule cytoskeleton organization	microtubule				ovary(1)	1						CTGCGCGCCTCGCACAGGTAA	0.617													3	38	---	---	---	---	PASS	A	15132725	A	A	15132725	2	1	124	1	0	0	0	0	0	0	0	1	2740	871	31	2		2	CCDC105	19	15132725	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	993574	15132725	43996258	122	45519										
ZNF100	163227	broad.mit.edu	37	chr19	21909693	21909693	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cagtatgaatcatcttatgtGcagttagttgtgaggaccgg	12	6	2	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:21909693G>A	uc002nqi.2	-	5	1620	c.1421C>T	c.(1420-1422)GCA>GTA	p.A474V	ZNF100_uc002nqh.2_Missense_Mutation_p.A410V	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	474	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CATCTTATGTGCAGTTAGTTG	0.403													33	117	---	---	---	---	PASS	A	21909693	A	A	21909693	3	1	124	1	0	0	0	0	1	0	0	0	17710	1319	46	3	211	3	ZNF100	19	21909693	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	6776968	21909693	37219290	123	45520										
SLC7A9	11136	broad.mit.edu	37	chr19	33355535	33355535	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aggctcccaagtctctttacCcagcgtcgcgaggaccccgc	10	17	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:33355535C>T	uc002ntv.3	-	3	352	c.235G>A	c.(235-237)GGT>AGT	p.G79S	SLC7A9_uc002ntt.3_Intron|SLC7A9_uc002ntu.3_Missense_Mutation_p.G79S|SLC7A9_uc002ntw.3_Intron	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	79	Helical; (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	GTCTCTTTACCCAGCGTCGCG	0.632													9	51	---	---	---	---	PASS	T	33355535	T	T	33355535	3	4	124	1	0	0	0	0	1	0	0	0	14705	637	22	3	1272	3	SLC7A9	19	33355535	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	11445842	33355535	25773448	124	45521										
ZNF781	163115	broad.mit.edu	37	chr19	38160634	38160634	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tcgtaaagtctctcatcagtGtgaattttccgatgtctatt	7	8	4	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:38160634G>A	uc002ogy.2	-	4	1158	c.416C>T	c.(415-417)ACA>ATA	p.T139I	ZNF781_uc002ogz.2_Missense_Mutation_p.T134I	NM_152605	NP_689818	Q8N8C0	ZN781_HUMAN	zinc finger protein 781	139					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTCATCAGTGTGAATTTTCC	0.383													14	278	---	---	---	---	PASS	A	38160634	A	A	38160634	3	1	124	1	0	0	0	0	1	0	0	0	18151	1377	48	3	571	3	ZNF781	19	38160634	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	4805099	38160634	20968349	125	45522										
SPINT2	10653	broad.mit.edu	37	chr19	38778547	38778547	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ggtgacctggccaccagcagGaatgcagcggattcctctgt	13	12	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:38778547G>T	uc002ohr.1	+	3	640	c.309G>T	c.(307-309)AGG>AGT	p.R103S	SPINT2_uc002ohs.1_Missense_Mutation_p.R46S	NM_021102	NP_066925	O43291	SPIT2_HUMAN	serine protease inhibitor, Kunitz type, 2	103	Extracellular (Potential).				cellular component movement	cytoplasm|extracellular region|integral to membrane|soluble fraction	serine-type endopeptidase inhibitor activity				0	all_cancers(60;6.83e-07)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CCACCAGCAGGAATGCAGCGG	0.527													50	199	---	---	---	---	PASS	T	38778547	T	T	38778547	3	4	124	1	0	0	0	0	1	0	0	0	15068	1165	41	2	319	2	SPINT2	19	38778547	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	617913	38778547	20350436	126	45523										
SPTBN4	57731	broad.mit.edu	37	chr19	41074150	41074150	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ttggagcggcaggagtccagCgaacaggagatgcccatcag	15	10	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:41074150C>T	uc002ony.2	+	31	7004	c.6918C>T	c.(6916-6918)AGC>AGT	p.S2306S	SPTBN4_uc002onz.2_Silent_p.S2306S|SPTBN4_uc010egx.2_Silent_p.S1049S	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	2306					actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AGGAGTCCAGCGAACAGGAGA	0.657													4	9	---	---	---	---	PASS	T	41074150	T	T	41074150	2	4	124	1	0	0	0	0	0	0	0	1	15120	767	27	1		1	SPTBN4	19	41074150	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	2295603	41074150	18054833	127	45524										
ZNF230	7773	broad.mit.edu	37	chr19	44515581	44515581	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	acaagaggcgcttgaatctgGatataattttatcattattt	7	5	2	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:44515581G>C	uc002oyb.1	+	5	1641	c.1390G>C	c.(1390-1392)GAT>CAT	p.D464H		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	464					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				CTTGAATCTGGATATAATTTT	0.249													13	50	---	---	---	---	PASS	C	44515581	C	C	44515581	3	2	124	1	0	0	0	0	1	0	0	0	17781	1174	41	2	1404	2	ZNF230	19	44515581	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	3441431	44515581	14613402	128	45525										
ZNF224	7767	broad.mit.edu	37	chr19	44605048	44605048	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gaagctgtatcgagatgtgaTgctggagaacttcaggaacc	13	7	1	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:44605048T>C	uc002oyh.1	+	4	412	c.110T>C	c.(109-111)ATG>ACG	p.M37T		NM_013398	NP_037530	Q9NZL3	ZN224_HUMAN	zinc finger protein 224	37	KRAB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				CGAGATGTGATGCTGGAGAAC	0.542													5	237	---	---	---	---	PASS	C	44605048	C	C	44605048	3	2	124	1	0	0	0	0	1	0	0	0	17775	1464	51	5	116	5	ZNF224	19	44605048	Missense_Mutation	SNP	T	TCGA-60-2711-01A-01D-1522-08	89467	44605048	14523935	129	45526										
DMWD	1762	broad.mit.edu	37	chr19	46289601	46289601	+	Nonsense_Mutation	SNP	C	A	A													0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	accggctgctgtcgccgcctCctctgcccttgtggtgtagg							TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:46289601C>A	uc002pdj.1	-	3	1199	c.1153G>T	c.(1153-1155)GAG>TAG	p.E385*	DMWD_uc002pdk.1_Nonsense_Mutation_p.E385*|DMWD_uc010eko.1_Nonsense_Mutation_p.E70*	NM_004943	NP_004934	Q09019	DMWD_HUMAN	dystrophia myotonica-containing WD repeat motif	385					meiosis						0		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00604)|GBM - Glioblastoma multiforme(486;0.0807)|Epithelial(262;0.236)		GTCGCCGCCTCCTCTGCCCTT	0.711													21	42	---	---	---	---	PASS	A	46289601	A	A	46289601	4	1	124	1	0	0	0	0	0	1	0	0	4593	864	30	2	883	2	DMWD	19	46289601	Nonsense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	1684553	46289601	12839382	130	45527	842	2								
DMWD	1762	broad.mit.edu	37	chr19	46289602	46289602	+	Missense_Mutation	SNP	C	A	A													0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ccggctgctgtcgccgcctcCtctgcccttgtggtgtaggg							TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:46289602C>A	uc002pdj.1	-	3	1198	c.1152G>T	c.(1150-1152)GAG>GAT	p.E384D	DMWD_uc002pdk.1_Missense_Mutation_p.E384D|DMWD_uc010eko.1_Missense_Mutation_p.E69D	NM_004943	NP_004934	Q09019	DMWD_HUMAN	dystrophia myotonica-containing WD repeat motif	384					meiosis						0		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00604)|GBM - Glioblastoma multiforme(486;0.0807)|Epithelial(262;0.236)		TCGCCGCCTCCTCTGCCCTTG	0.716													21	44	---	---	---	---	PASS	A	46289602	A	A	46289602	3	1	124	1	0	0	0	0	1	0	0	0	4593	680	24	3	884	3	DMWD	19	46289602	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	1	46289602	12839381	131	45528	842	2								
C19orf73	55150	broad.mit.edu	37	chr19	49622111	49622111	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ggggaaccctgcaggccgcaCtactgtctgcgtgggagtcg	16	12	1	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr19:49622111C>G	uc002pmq.3	-	1	287	c.169G>C	c.(169-171)GTG>CTG	p.V57L	PPFIA3_uc002pmr.2_5'Flank|PPFIA3_uc010yai.1_5'Flank	NM_018111	NP_060581	Q9NVV2	CS073_HUMAN	hypothetical protein LOC55150	57										large_intestine(1)	1						GCAGGCCGCACTACTGTCTGC	0.716													5	21	---	---	---	---	PASS	G	49622111	G	G	49622111	3	3	124	1	0	0	0	0	1	0	0	0	1948	565	20	4	224	4	C19orf73	19	49622111	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	3332509	49622111	9506872	132	45529										
CST4	1472	broad.mit.edu	37	chr20	23666553	23666553	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	aggcttcttgacacctggaaTtcaccagggacattctgtcc	9	12	3	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr20:23666553T>A	uc002wto.1	-	3	460	c.404A>T	c.(403-405)AAT>ATT	p.N135I		NM_001899	NP_001890	P01036	CYTS_HUMAN	cystatin S precursor	135				N -> D (in Ref. 10; AA sequence).		extracellular region	cysteine-type endopeptidase inhibitor activity			breast(1)	1	Lung NSC(19;0.0789)|Colorectal(13;0.0993)|all_lung(19;0.169)					ACACCTGGAATTCACCAGGGA	0.567													28	70	---	---	---	---	PASS	A	23666553	A	A	23666553	3	1	124	1	0	0	0	0	1	0	0	0	3974	1493	52	5	25	5	CST4	20	23666553	Missense_Mutation	SNP	T	TCGA-60-2711-01A-01D-1522-08		23666553	39358967	133	45530										
ELMO2	63916	broad.mit.edu	37	chr20	44997542	44997542	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ctgctcacctcatatttattAggtgcgatgaagtttaaggt	9	7	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr20:44997542A>G	uc002xrt.1	-	21	2160	c.1950T>C	c.(1948-1950)CCT>CCC	p.P650P	ELMO2_uc010zxq.1_Silent_p.P382P|ELMO2_uc002xrs.1_Silent_p.P397P|ELMO2_uc002xru.1_Silent_p.P650P|ELMO2_uc010zxr.1_Silent_p.P662P|ELMO2_uc010zxs.1_Silent_p.P467P	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2	650	PH.				apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CATATTTATTAGGTGCGATGA	0.458													4	272	---	---	---	---	PASS	G	44997542	G	G	44997542	2	3	124	1	0	0	0	0	0	0	0	1	5066	407	15	5		5	ELMO2	20	44997542	Silent	SNP	A	TCGA-60-2711-01A-01D-1522-08	21330989	44997542	18027978	134	45531										
ZMYND8	23613	broad.mit.edu	37	chr20	45976616	45976616	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tcacctttggagcgagtagaGatatccatgccctctaccac	8	13	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr20:45976616G>A	uc002xta.1	-	2	263	c.9C>T	c.(7-9)ATC>ATT	p.I3I	ZMYND8_uc010ghr.1_Silent_p.I3I|ZMYND8_uc002xst.1_Silent_p.I3I|ZMYND8_uc002xsu.1_Silent_p.I3I|ZMYND8_uc002xsv.1_Silent_p.I3I|ZMYND8_uc002xsw.1_5'UTR|ZMYND8_uc002xsx.1_5'UTR|ZMYND8_uc002xsy.1_Silent_p.I3I|ZMYND8_uc002xsz.1_Silent_p.I3I|ZMYND8_uc010zxy.1_Silent_p.I30I|ZMYND8_uc002xtb.1_Silent_p.I23I|ZMYND8_uc002xss.2_Silent_p.I28I|ZMYND8_uc010zxz.1_Silent_p.I23I|ZMYND8_uc002xtc.1_Silent_p.I23I|ZMYND8_uc002xtd.1_Silent_p.I23I|ZMYND8_uc002xte.1_Silent_p.I3I|ZMYND8_uc010zya.1_Silent_p.I3I|ZMYND8_uc002xtf.1_Silent_p.I23I|ZMYND8_uc010ghs.1_Silent_p.I22I|ZMYND8_uc002xth.2_Silent_p.I23I	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	3							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			AGCGAGTAGAGATATCCATGC	0.388													35	198	---	---	---	---	PASS	A	45976616	A	A	45976616	2	1	124	1	0	0	0	0	0	0	0	1	17708	932	33	2		2	ZMYND8	20	45976616	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08	979074	45976616	17048904	135	45532										
PHACTR3	116154	broad.mit.edu	37	chr20	58318189	58318189	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	ggaccaaacgcccccggcgcGtcctgaatatctggtctcag	11	15	2	1	rs143288140		TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr20:58318189G>A	uc002yau.2	+	2	613	c.146G>A	c.(145-147)CGT>CAT	p.R49H	PHACTR3_uc002yat.2_Missense_Mutation_p.R46H|PHACTR3_uc010zzw.1_Missense_Mutation_p.R8H|PHACTR3_uc002yav.2_Missense_Mutation_p.R8H|PHACTR3_uc002yaw.2_Missense_Mutation_p.R8H|PHACTR3_uc002yax.2_Missense_Mutation_p.R8H	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	49						nuclear matrix	actin binding|protein phosphatase inhibitor activity	p.R49H(1)		ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			CCCCCGGCGCGTCCTGAATAT	0.567													70	144	---	---	---	---	PASS	A	58318189	A	A	58318189	3	1	124	1	0	0	0	0	1	0	0	0	11811	1145	40	1	152	1	PHACTR3	20	58318189	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	12341573	58318189	4707331	136	45533										
TRPM2	7226	broad.mit.edu	37	chr21	45833791	45833791	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	caggtgtgaacttcaacccgGagcactgcagccccaatggc	11	14	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chr21:45833791G>T	uc002zet.1	+	21	3193	c.2980G>T	c.(2980-2982)GAG>TAG	p.E994*	TRPM2_uc002zeu.1_Nonsense_Mutation_p.E994*|TRPM2_uc002zew.1_Nonsense_Mutation_p.E994*|TRPM2_uc010gpt.1_Nonsense_Mutation_p.E994*|TRPM2_uc002zex.1_Nonsense_Mutation_p.E780*|TRPM2_uc002zey.1_Nonsense_Mutation_p.E507*	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	994	Extracellular (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CTTCAACCCGGAGCACTGCAG	0.637													146	94	---	---	---	---	PASS	T	45833791	T	T	45833791	4	4	124	1	0	0	0	0	0	1	0	0	16583	1175	41	2	3058	2	TRPM2	21	45833791	Nonsense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08		45833791	2296104	137	45534										
MXRA5	25878	broad.mit.edu	37	chrX	3235500	3235500	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	cagcgcacgctgggcaggggCgcagccttggcagtgcagtg	18	12	0	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:3235500C>A	uc004crg.3	-	6	6379	c.6222G>T	c.(6220-6222)GCG>GCT	p.A2074A		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2074	Ig-like C2-type 5.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TGGGCAGGGGCGCAGCCTTGG	0.647													5	6	---	---	---	---	PASS	A	3235500	A	A	3235500	2	1	124	1	0	0	0	0	0	0	0	1	10003	755	27	1		1	MXRA5	23	3235500	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08		3235500	152035060	138	45535										
FIGF	2277	broad.mit.edu	37	chrX	15381379	15381379	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tgagtaattcgaagtagttcCtccaaactagaagcagccct	8	10	0	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:15381379C>T	uc004cwt.1	-	2	662	c.153G>A	c.(151-153)GAG>GAA	p.E51E		NM_004469	NP_004460	O43915	VEGFD_HUMAN	vascular endothelial growth factor D	51					angiogenesis|cell differentiation|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of cell proliferation|positive regulation of mast cell chemotaxis|vascular endothelial growth factor receptor signaling pathway	extracellular space|membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity|platelet-derived growth factor receptor binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Hepatocellular(33;0.183)					GAAGTAGTTCCTCCAAACTAG	0.438													28	97	---	---	---	---	PASS	T	15381379	T	T	15381379	2	4	124	1	0	0	0	0	0	0	0	1	5889	680	24	3		3	FIGF	23	15381379	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	12145879	15381379	139889181	139	45536										
PHKA2	5256	broad.mit.edu	37	chrX	18956828	18956828	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	acattcaatgttttcgaagaGcttgagttcagcagggtcat	10	7	3	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:18956828G>A	uc004cyv.3	-	10	1388	c.958C>T	c.(958-960)CTC>TTC	p.L320F		NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	320					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					TTTTCGAAGAGCTTGAGTTCA	0.383													8	143	---	---	---	---	PASS	A	18956828	A	A	18956828	3	1	124	1	0	0	0	0	1	0	0	0	11844	971	34	3	2845	3	PHKA2	23	18956828	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	3575449	18956828	136313732	140	45537										
MAP3K15	389840	broad.mit.edu	37	chrX	19380917	19380917	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gttttctgttctagagtttgCcgcagaagattctggtactc	10	8	3	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:19380917C>T	uc004czk.1	-	27	3680	c.2043G>A	c.(2041-2043)CGG>CGA	p.R681R	MAP3K15_uc004czj.1_Silent_p.R641R|MAP3K15_uc004czi.1_Silent_p.R140R	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	1206	Potential.						ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					CTAGAGTTTGCCGCAGAAGAT	0.333													5	223	---	---	---	---	PASS	T	19380917	T	T	19380917	2	4	124	1	0	0	0	0	0	0	0	1	9249	726	26	3		3	MAP3K15	23	19380917	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	424089	19380917	135889643	141	45538										
GLOD5	392465	broad.mit.edu	37	chrX	48624360	48624360	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	attccaagatcctgggcatgGaggtcatgacttttaaggta	11	7	1	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:48624360G>T	uc011mmh.1	+	2	225	c.184G>T	c.(184-186)GAG>TAG	p.E62*	GLOD5_uc004dko.1_Nonsense_Mutation_p.E62*	NM_001080489	NP_001073958			glyoxalase domain containing 5												0						CCTGGGCATGGAGGTCATGAC	0.423													3	29	---	---	---	---	PASS	T	48624360	T	T	48624360	4	4	124	1	0	0	0	0	0	1	0	0	6451	1175	41	2	190	2	GLOD5	23	48624360	Nonsense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	29243443	48624360	106646200	142	45539										
ZNF711	7552	broad.mit.edu	37	chrX	84502615	84502615	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gaagtcttggattgcacacgCcagactctagaatggcccat	10	11	2	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:84502615C>G	uc004eeo.2	+	3	384	c.37C>G	c.(37-39)CCA>GCA	p.P13A	ZNF711_uc004eep.2_Missense_Mutation_p.P13A|ZNF711_uc004eeq.2_Missense_Mutation_p.P13A	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	13					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						ATTGCACACGCCAGACTCTAG	0.328													51	228	---	---	---	---	PASS	G	84502615	G	G	84502615	3	3	124	1	0	0	0	0	1	0	0	0	18113	739	26	4	39	4	ZNF711	23	84502615	Missense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	35878255	84502615	70767945	143	45540										
PCDH19	57526	broad.mit.edu	37	chrX	99551335	99551335	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tctttgttgcgaccttccttCagaatggggctgacctcatg	10	11	3	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:99551335C>A	uc010nmz.2	-	6	5063	c.3387G>T	c.(3385-3387)CTG>CTT	p.L1129L	PCDH19_uc004efw.3_Silent_p.L1081L|PCDH19_uc004efx.3_Silent_p.L1082L	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	1129	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						GACCTTCCTTCAGAATGGGGC	0.502													72	313	---	---	---	---	PASS	A	99551335	A	A	99551335	2	1	124	1	0	0	0	0	0	0	0	1	11514	813	29	2		2	PCDH19	23	99551335	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	15048720	99551335	55719225	144	45541										
NXF5	55998	broad.mit.edu	37	chrX	101096499	101096499	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	acttattcttcacagagtagGgcgcagtaaaatgactgaca	9	8	2	3			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:101096499G>T	uc011mrk.1	-	6	632	c.272C>A	c.(271-273)CCC>CAC	p.P91H	NXF5_uc004eih.1_RNA|NXF5_uc004eii.1_RNA|NXF5_uc004eij.1_RNA|NXF5_uc004eik.1_RNA|NXF5_uc004eil.1_RNA	NM_032946	NP_116564	Q9H1B4	NXF5_HUMAN	nuclear RNA export factor 5	91	RRM.				mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nucleus	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						CACAGAGTAGGGCGCAGTAAA	0.473													34	139	---	---	---	---	PASS	T	101096499	T	T	101096499	3	4	124	1	0	0	0	0	1	0	0	0	10786	1232	43	3	869	3	NXF5	23	101096499	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	1545164	101096499	54174061	145	45542										
IRS4	8471	broad.mit.edu	37	chrX	107977874	107977874	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	tggccaccacctgagccatgCccacctccaggtctctggcc	9	19	1	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:107977874C>T	uc004eoc.2	-	1	1734	c.1701G>A	c.(1699-1701)GGG>GGA	p.G567G		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	567						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						CTGAGCCATGCCCACCTCCAG	0.637													6	386	---	---	---	---	PASS	T	107977874	T	T	107977874	2	4	124	1	0	0	0	0	0	0	0	1	7842	726	26	3		3	IRS4	23	107977874	Silent	SNP	C	TCGA-60-2711-01A-01D-1522-08	6881375	107977874	47292686	146	45543										
DCAF12L2	340578	broad.mit.edu	37	chrX	125299305	125299305	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gctacggtgtcactcagccaGgcgactgcgaagatccagtc	12	13	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:125299305G>C	uc004euk.1	-	1	630	c.603C>G	c.(601-603)GCC>GCG	p.A201A		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	201	WD 2.									lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						CACTCAGCCAGGCGACTGCGA	0.642													12	81	---	---	---	---	PASS	C	125299305	C	C	125299305	2	2	124	1	0	0	0	0	0	0	0	1	4265	987	35	4		4	DCAF12L2	23	125299305	Silent	SNP	G	TCGA-60-2711-01A-01D-1522-08	17321431	125299305	29971255	147	45544										
SPANXN1	494118	broad.mit.edu	37	chrX	144337261	144337261	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gatgaaaacgtcagaatattCaacagtattagcgttttgct	8	6	2	2			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:144337261C>A	uc004fcb.2	+	2	146	c.146C>A	c.(145-147)TCA>TAA	p.S49*		NM_001009614	NP_001009614	Q5VSR9	SPXN1_HUMAN	SPANX-N1 protein	49											0	Acute lymphoblastic leukemia(192;6.56e-05)					TCAGAATATTCAACAGTATTA	0.428													54	168	---	---	---	---	PASS	A	144337261	A	A	144337261	4	1	124	1	0	0	0	0	0	1	0	0	14990	838	29	2	152	2	SPANXN1	23	144337261	Nonsense_Mutation	SNP	C	TCGA-60-2711-01A-01D-1522-08	19037956	144337261	10933299	148	45545										
SLC6A8	6535	broad.mit.edu	37	chrX	152959803	152959803	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gggctctgtcccccagggcgGgatgtacgtcttccagctgt	14	13	2	0			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:152959803G>T	uc004fib.3	+	10	1675	c.1397G>T	c.(1396-1398)GGG>GTG	p.G466V	SLC6A8_uc004fic.3_Missense_Mutation_p.G456V|SLC6A8_uc011myx.1_Missense_Mutation_p.G351V|SLC6A8_uc010nuj.2_RNA	NM_005629	NP_005620	P48029	SC6A8_HUMAN	solute carrier family 6 member 8 isoform 1	466	Extracellular (Potential).				creatine metabolic process|muscle contraction	integral to plasma membrane	creatine:sodium symporter activity|neurotransmitter:sodium symporter activity			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Creatine(DB00148)	CCCCAGGGCGGGATGTACGTC	0.632													44	164	---	---	---	---	PASS	T	152959803	T	T	152959803	3	4	124	1	0	0	0	0	1	0	0	0	14690	1232	43	3	1435	3	SLC6A8	23	152959803	Missense_Mutation	SNP	G	TCGA-60-2711-01A-01D-1522-08	8622542	152959803	2310757	149	45546										
FLNA	2316	broad.mit.edu	37	chrX	153589928	153589928	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0878378378378378	13	0.213651497165227	1.35067752486483	2.18571177812884	0.838270142180095	0.481265818703551	0.81842946137857	0	gtgaactcctggtctttgccAacgtccacctctgtggaaac	9	13	2	1			TCGA-60-2711-01A-01D-1522-08	TCGA-60-2711-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ed85cc9-31bc-4cea-9e54-13b7c0e645fa	ce7955c2-2a2f-4d9e-b90b-c4cad1feba49	g.chrX:153589928A>T	uc004fkk.2	-	21	3204	c.2955T>A	c.(2953-2955)GTT>GTA	p.V985V	FLNA_uc010nuu.1_Silent_p.V985V	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	985	Filamin 8.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGTCTTTGCCAACGTCCACCT	0.562													37	128	---	---	---	---	PASS	T	153589928	T	T	153589928	2	4	124	1	0	0	0	0	0	0	0	1	5933	117	5	5		5	FLNA	23	153589928	Silent	SNP	A	TCGA-60-2711-01A-01D-1522-08	630125	153589928	1680632	150	45547										
MACF1	23499	broad.mit.edu	37	chr1	39823488	39823488	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	acagttttaaggaaggcaaaGaaccatcagaaattggaaac	9	6	1	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr1:39823488G>A	uc010oiu.1	+	9	7317	c.7186G>A	c.(7186-7188)GAA>AAA	p.E2396K	MACF1_uc010ois.1_Missense_Mutation_p.E1894K|MACF1_uc001cda.1_Missense_Mutation_p.E1802K|MACF1_uc001cdc.1_Missense_Mutation_p.E981K|MACF1_uc001cdb.1_Missense_Mutation_p.E981K	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3961					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)			GGAAGGCAAAGAACCATCAGA	0.428													11	82	---	---	---	---	PASS	A	39823488	A	A	39823488	3	1	125	1	0	0	0	0	1	0	0	0	9144	943	33	2	11989	2	MACF1	1	39823488	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08		39823488	209427133	1	45548										
ASB17	127247	broad.mit.edu	37	chr1	76397634	76397634	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	atagtcttttgtcttcttgaGaagcaattccacaaagtcag	7	8	4	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr1:76397634G>A	uc001dhe.1	-	1	483	c.343C>T	c.(343-345)CTC>TTC	p.L115F	ASB17_uc001dhf.1_RNA	NM_080868	NP_543144	Q8WXJ9	ASB17_HUMAN	ankyrin repeat and SOCS box-containing 17	115					intracellular signal transduction					ovary(1)	1						GTCTTCTTGAGAAGCAATTCC	0.338													27	71	---	---	---	---	PASS	A	76397634	A	A	76397634	3	1	125	1	0	0	0	0	1	0	0	0	1021	942	33	2	556	2	ASB17	1	76397634	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	36574146	76397634	172852987	2	45549										
PLEKHO1	51177	broad.mit.edu	37	chr1	150131220	150131220	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	agcagtctctcccgaccttgGgaaaaaacagacaaaggggc	11	11	1	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr1:150131220G>T	uc001ett.2	+	6	1010	c.732G>T	c.(730-732)TGG>TGT	p.W244C	PLEKHO1_uc001etr.2_Missense_Mutation_p.W72C|PLEKHO1_uc001ets.2_Missense_Mutation_p.W61C|PLEKHO1_uc001etu.2_Missense_Mutation_p.W72C	NM_016274	NP_057358	Q53GL0	PKHO1_HUMAN	pleckstrin homology domain containing, family O	244	Interaction with ATM, CKIP, IFP35 and NMI.					cytoplasm|nucleus|plasma membrane				lung(1)	1	Lung NSC(24;7.78e-28)|Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			CCCGACCTTGGGAAAAAACAG	0.637													16	93	---	---	---	---	PASS	T	150131220	T	T	150131220	3	4	125	1	0	0	0	0	1	0	0	0	12084	1241	43	3	754	3	PLEKHO1	1	150131220	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	73733586	150131220	99119401	3	45550										
SHC1	6464	broad.mit.edu	37	chr1	154942792	154942792	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gcgccccccagccgggttggCcagcctcaggttgctcatcc	12	18	2	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr1:154942792C>T	uc001ffv.2	-	1	432	c.211G>A	c.(211-213)GCC>ACC	p.A71T	SHC1_uc001ffz.1_5'Flank|SHC1_uc001ffw.2_Missense_Mutation_p.A71T|SHC1_uc001ffx.2_Intron|SHC1_uc001ffy.2_Intron	NM_183001	NP_892113	P29353	SHC1_HUMAN	SHC-transforming protein 1 isoform 1	71					activation of MAPK activity|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|positive regulation of DNA replication|Ras protein signal transduction|regulation of epidermal growth factor receptor activity|regulation of growth	cytosol|mitochondrial matrix|Shc-EGFR complex	epidermal growth factor receptor binding|insulin receptor binding|insulin-like growth factor receptor binding|phospholipid binding|protein binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(1)|skin(1)	2	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			GCCGGGTTGGCCAGCCTCAGG	0.662													3	58	---	---	---	---	PASS	T	154942792	T	T	154942792	3	4	125	1	0	0	0	0	1	0	0	0	14270	739	26	3	1591	3	SHC1	1	154942792	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	4811572	154942792	94307829	4	45551										
CD1E	913	broad.mit.edu	37	chr1	158325820	158325820	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gagcaaccctggatgtggcgGctggggaggcagctggcctg	19	10	0	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr1:158325820G>T	uc001fse.2	+	4	1068	c.829G>T	c.(829-831)GCT>TCT	p.A277S	CD1E_uc010pid.1_Missense_Mutation_p.A275S|CD1E_uc010pie.1_Missense_Mutation_p.A178S|CD1E_uc010pif.1_Missense_Mutation_p.A88S|CD1E_uc001fsd.2_Intron|CD1E_uc001fsk.2_Missense_Mutation_p.A187S|CD1E_uc001fsj.2_Intron|CD1E_uc001fsc.2_Missense_Mutation_p.A88S|CD1E_uc010pig.1_Intron|CD1E_uc001fsa.2_Intron|CD1E_uc001fsf.2_Missense_Mutation_p.A277S|CD1E_uc001fry.2_Intron|CD1E_uc001fsg.2_Intron|CD1E_uc001fsh.2_Missense_Mutation_p.A88S|CD1E_uc001fsi.2_Intron|CD1E_uc009wsv.2_Missense_Mutation_p.A178S|CD1E_uc001frz.2_Missense_Mutation_p.A187S|CD1E_uc009wsw.2_Missense_Mutation_p.A35S	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	277	Ig-like.				antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					GGATGTGGCGGCTGGGGAGGC	0.612													18	86	---	---	---	---	PASS	T	158325820	T	T	158325820	3	4	125	1	0	0	0	0	1	0	0	0	2978	1203	42	3	843	3	CD1E	1	158325820	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	3383028	158325820	90924801	5	45552										
ASPM	259266	broad.mit.edu	37	chr1	197069639	197069639	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ttacttctagcttgaataatGataacactgcttctgatctg	6	8	3	3			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr1:197069639G>A	uc001gtu.2	-	18	8999	c.8742C>T	c.(8740-8742)ATC>ATT	p.I2914I	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Silent_p.I762I	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2914	IQ 33.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						CTTGAATAATGATAACACTGC	0.294													10	129	---	---	---	---	PASS	A	197069639	A	A	197069639	2	1	125	1	0	0	0	0	0	0	0	1	1056	1280	45	2		2	ASPM	1	197069639	Silent	SNP	G	TCGA-60-2712-01A-01D-1522-08	38743819	197069639	52180982	6	45553										
SYT2	127833	broad.mit.edu	37	chr1	202574852	202574852	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gggcatcgtggcggtggtggTggcaggagccacaataggct	19	8	0	0	rs75160100		TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr1:202574852T>G	uc001gye.2	-	2	242	c.49A>C	c.(49-51)ACC>CCC	p.T17P	SYT2_uc010pqb.1_Missense_Mutation_p.T17P|SYT2_uc009xaf.2_Intron	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	17	Vesicular (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	GCGGTGGTGGTGGCAGGAGCC	0.577													8	37	---	---	---	---	PASS	G	202574852	G	G	202574852	3	3	125	1	0	0	0	0	1	0	0	0	15471	1696	59	5	1242	5	SYT2	1	202574852	Missense_Mutation	SNP	T	TCGA-60-2712-01A-01D-1522-08	5505213	202574852	46675769	7	45554										
CHI3L1	1116	broad.mit.edu	37	chr1	203152863	203152863	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	catgggtgcgcagaaatggcGgtactgacttgatgaaagtc	14	7	0	4			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr1:203152863G>A	uc001gzi.2	-	5	542	c.371C>T	c.(370-372)CCG>CTG	p.P124L	FMOD_uc010pqi.1_Intron|CHI3L1_uc001gzk.1_5'Flank|CHI3L1_uc001gzj.2_Missense_Mutation_p.P124L	NM_001276	NP_001267	P36222	CH3L1_HUMAN	chitinase 3-like 1 precursor	124					chitin catabolic process	extracellular space|proteinaceous extracellular matrix	cation binding|chitinase activity|extracellular matrix structural constituent|sugar binding			pancreas(1)	1						CAGAAATGGCGGTACTGACTT	0.522													30	79	---	---	---	---	PASS	A	203152863	A	A	203152863	3	1	125	1	0	0	0	0	1	0	0	0	3340	1116	39	1	804	1	CHI3L1	1	203152863	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	578011	203152863	46097758	8	45555										
KLF11	8462	broad.mit.edu	37	chr2	10192505	10192505	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	atgcgcagtgaccacctgacGaagcatgcccggcgccacat	11	15	0	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr2:10192505G>T	uc002raf.1	+	4	1572	c.1410G>T	c.(1408-1410)ACG>ACT	p.T470T	KLF11_uc010yjc.1_Silent_p.T453T	NM_003597	NP_003588	O14901	KLF11_HUMAN	Kruppel-like factor 11	470	C2H2-type 3.				apoptosis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|regulation of transcription involved in S phase of mitotic cell cycle	nucleus	sequence-specific DNA binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.133)|OV - Ovarian serous cystadenocarcinoma(76;0.228)		ACCACCTGACGAAGCATGCCC	0.607													27	99	---	---	---	---	PASS	T	10192505	T	T	10192505	2	4	125	1	0	0	0	0	0	0	0	1	8339	1045	37	2		2	KLF11	2	10192505	Silent	SNP	G	TCGA-60-2712-01A-01D-1522-08		10192505	233006868	9	45556										
PLB1	151056	broad.mit.edu	37	chr2	28802550	28802550	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ctgtttataggcggcaatgaCctctgtgatttctgcaatga	10	8	2	3			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr2:28802550C>T	uc002rmb.1	+	23	1542	c.1542C>T	c.(1540-1542)GAC>GAT	p.D514D	PLB1_uc010ezj.1_Silent_p.D525D|PLB1_uc002rmc.2_Silent_p.D202D|PLB1_uc002rmd.1_Silent_p.D24D	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	514	4 X 308-326 AA approximate repeats.|2.|Extracellular (Potential).				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					GCGGCAATGACCTCTGTGATT	0.473													52	163	---	---	---	---	PASS	T	28802550	T	T	28802550	2	4	125	1	0	0	0	0	0	0	0	1	12024	506	18	3		3	PLB1	2	28802550	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08	18610045	28802550	214396823	10	45557										
EPAS1	2034	broad.mit.edu	37	chr2	46597015	46597015	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	aggagctgcttggccgctcaGcctatgaattctaccatgcg	11	12	2	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr2:46597015G>C	uc002ruv.2	+	7	1317	c.829G>C	c.(829-831)GCC>CCC	p.A277P		NM_001430	NP_001421	Q99814	EPAS1_HUMAN	endothelial PAS domain protein 1	277	PAS 2.				angiogenesis|myoblast cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|response to hypoxia	transcription factor complex	histone acetyltransferase binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription coactivator activity|transcription factor binding			ovary(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	LUSC - Lung squamous cell carcinoma(58;0.151)			TGGCCGCTCAGCCTATGAATT	0.478													23	67	---	---	---	---	PASS	C	46597015	C	C	46597015	3	2	125	1	0	0	0	0	1	0	0	0	5150	971	34	4	855	4	EPAS1	2	46597015	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	17794465	46597015	196602358	11	45558										
DCTN1	1639	broad.mit.edu	37	chr2	74594825	74594825	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	caaattcttgccccacacctGatagtacttgatggccttgg	8	12	1	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr2:74594825G>C	uc002skx.2	-	18	2493	c.2182C>G	c.(2182-2184)CAG>GAG	p.Q728E	DCTN1_uc002skt.1_5'Flank|DCTN1_uc002skv.2_Missense_Mutation_p.Q594E|DCTN1_uc002sku.2_Missense_Mutation_p.Q594E|DCTN1_uc002skw.1_Missense_Mutation_p.Q704E|DCTN1_uc010ffd.2_Missense_Mutation_p.Q708E|DCTN1_uc002sky.2_Missense_Mutation_p.Q691E	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	728					cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						CCCCACACCTGATAGTACTTG	0.502													26	75	---	---	---	---	PASS	C	74594825	C	C	74594825	3	2	125	1	0	0	0	0	1	0	0	0	4306	1299	45	2	1714	2	DCTN1	2	74594825	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	27997810	74594825	168604548	12	45559										
MAP4K4	9448	broad.mit.edu	37	chr2	102481430	102481430	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tctcgctcccctgttctgtcCcgtcgagattccccactgca	7	18	2	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr2:102481430C>G	uc002tbg.2	+	17	1960	c.1905C>G	c.(1903-1905)TCC>TCG	p.S635S	MAP4K4_uc002tbc.2_Silent_p.S712S|MAP4K4_uc002tbd.2_Silent_p.S604S|MAP4K4_uc002tbe.2_Silent_p.S550S|MAP4K4_uc002tbf.2_Silent_p.S604S|MAP4K4_uc010yvy.1_Silent_p.S627S|MAP4K4_uc002tbh.2_Silent_p.S550S|MAP4K4_uc002tbi.2_Silent_p.S434S|MAP4K4_uc010yvz.1_Silent_p.S607S|MAP4K4_uc002tbk.2_Silent_p.S90S|MAP4K4_uc002tbl.2_5'UTR	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	635					intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CTGTTCTGTCCCGTCGAGATT	0.448													4	7	---	---	---	---	PASS	G	102481430	G	G	102481430	2	3	125	1	0	0	0	0	0	0	0	1	9262	610	22	4		4	MAP4K4	2	102481430	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08	27886605	102481430	140717943	13	45560										
DPP10	57628	broad.mit.edu	37	chr2	116101417	116101417	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	actcacaaattcgtcagaaaCcagattgtctttggaagacc	7	10	3	3			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr2:116101417C>G	uc002tla.1	+	3	657	c.200C>G	c.(199-201)ACC>AGC	p.T67S	DPP10_uc002tlb.1_Missense_Mutation_p.T17S|DPP10_uc002tlc.1_Missense_Mutation_p.T63S|DPP10_uc002tle.2_Missense_Mutation_p.T71S|DPP10_uc002tlf.1_Missense_Mutation_p.T60S	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	67	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TCGTCAGAAACCAGATTGTCT	0.348													32	120	---	---	---	---	PASS	G	116101417	G	G	116101417	3	3	125	1	0	0	0	0	1	0	0	0	4727	507	18	4	381	4	DPP10	2	116101417	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	13619987	116101417	127097956	14	45561										
TTN	7273	broad.mit.edu	37	chr2	179593377	179593377	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tgaaaagtatctactgggaaCtatttgtttcccgtctttaa	7	7	2	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr2:179593377C>G	uc010zfg.1	-	63	15768	c.15544G>C	c.(15544-15546)GTT>CTT	p.V5182L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.V1843L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6109							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)			CTACTGGGAACTATTTGTTTC	0.408													24	55	---	---	---	---	PASS	G	179593377	G	G	179593377	3	3	125	1	0	0	0	0	1	0	0	0	16732	565	20	4	85441	4	TTN	2	179593377	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	63491960	179593377	63605996	15	45562										
SATB2	23314	broad.mit.edu	37	chr2	200213525	200213525	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gatatctggagagacttccaCggaagagttggttggctctg	14	7	2	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr2:200213525C>T	uc002uuy.1	-	7	1889	c.1072G>A	c.(1072-1074)GTG>ATG	p.V358M	SATB2_uc010fsq.1_Missense_Mutation_p.V240M|SATB2_uc002uuz.1_Missense_Mutation_p.V358M|SATB2_uc002uva.1_Missense_Mutation_p.V358M|SATB2_uc002uvb.1_Missense_Mutation_p.V101M	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	358	CUT 1.					cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GAGACTTCCACGGAAGAGTTG	0.547													79	214	---	---	---	---	PASS	T	200213525	T	T	200213525	3	4	125	1	0	0	0	0	1	0	0	0	13854	536	19	1	1149	1	SATB2	2	200213525	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	20620148	200213525	42985848	16	45563										
CRYGA	1418	broad.mit.edu	37	chr2	209025628	209025628	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	caggcctcagcagatactgcCgcccccggtagttgggcatt	12	14	1	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr2:209025628C>T	uc002vcq.3	-	3	442	c.425G>A	c.(424-426)CGG>CAG	p.R142Q		NM_014617	NP_055432	P11844	CRGA_HUMAN	crystallin, gamma A	142	Beta/gamma crystallin 'Greek key' 4.				visual perception		structural constituent of eye lens				0				Epithelial(149;0.067)|LUSC - Lung squamous cell carcinoma(261;0.0708)|Lung(261;0.135)		CAGATACTGCCGCCCCCGGTA	0.572													53	166	---	---	---	---	PASS	T	209025628	T	T	209025628	3	4	125	1	0	0	0	0	1	0	0	0	3914	652	23	1	103	1	CRYGA	2	209025628	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	8812103	209025628	34173745	17	45564										
MAP2	4133	broad.mit.edu	37	chr2	210560619	210560619	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ggaagaagagatagaagcccAgggagaatatgataaactgc	13	5	0	5			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr2:210560619A>G	uc002vde.1	+	7	3973	c.3725A>G	c.(3724-3726)CAG>CGG	p.Q1242R	MAP2_uc002vdc.1_Missense_Mutation_p.Q1242R|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.Q1238R	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1242					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)	ATAGAAGCCCAGGGAGAATAT	0.488													29	92	---	---	---	---	PASS	G	210560619	G	G	210560619	3	3	125	1	0	0	0	0	1	0	0	0	9235	188	7	5	3739	5	MAP2	2	210560619	Missense_Mutation	SNP	A	TCGA-60-2712-01A-01D-1522-08	1534991	210560619	32638754	18	45565										
ERBB4	2066	broad.mit.edu	37	chr2	212812187	212812187	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ttaatccaagttcttgaagtCcaaagtttccatcttttctg	5	9	3	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr2:212812187C>T	uc002veg.1	-	3	487	c.389G>A	c.(388-390)GGA>GAA	p.G130E	ERBB4_uc002veh.1_Missense_Mutation_p.G130E|ERBB4_uc010zji.1_Missense_Mutation_p.G130E|ERBB4_uc010zjj.1_Missense_Mutation_p.G130E|ERBB4_uc010fut.1_Missense_Mutation_p.G130E	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	130	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TTCTTGAAGTCCAAAGTTTCC	0.343										TSP Lung(8;0.080)			14	78	---	---	---	---	PASS	T	212812187	T	T	212812187	3	4	125	1	0	0	0	0	1	0	0	0	5209	855	30	2	3641	2	ERBB4	2	212812187	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	2251568	212812187	30387186	19	45566										
SCLY	51540	broad.mit.edu	37	chr2	238991888	238991888	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	atgaccaacttttccttccaGttttatggtcccaggattgg	8	10	0	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr2:238991888G>A	uc010fyv.2	+	7	842	c.778_splice	c.e7-1	p.F260_splice	SCLY_uc002vxm.3_Splice_Site_p.F227_splice|SCLY_uc002vxn.2_Splice_Site_p.F260_splice|SCLY_uc010znq.1_Intron|SCLY_uc010znr.1_Splice_Site_p.F166_splice	NM_016510	NP_057594	Q96I15	SCLY_HUMAN	selenocysteine lyase						cellular amino acid metabolic process	cytosol	pyridoxal phosphate binding|selenocysteine lyase activity|transferase activity			ovary(2)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;1.37e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.6e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;8.25e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000128)|Lung(119;0.0118)|LUSC - Lung squamous cell carcinoma(224;0.0285)		TTTCCTTCCAGTTTTATGGTC	0.284													42	125	---	---	---	---	PASS	A	238991888	A	A	238991888	5	1	125	1	0	0	0	0	0	0	1	0	13907	1043	36	3	803	3	SCLY	2	238991888	Splice_Site	SNP	G	TCGA-60-2712-01A-01D-1522-08	26179701	238991888	4207485	20	45567										
FOXP1	27086	broad.mit.edu	37	chr3	71090510	71090510	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gggagtgtggactgagagctGtccattggtagaggcatgtg	18	5	0	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr3:71090510G>A	uc003dol.2	-	7	1161	c.838C>T	c.(838-840)CAG>TAG	p.Q280*	FOXP1_uc003dom.2_Nonsense_Mutation_p.Q204*|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Nonsense_Mutation_p.Q280*|FOXP1_uc003dop.2_Nonsense_Mutation_p.Q280*|FOXP1_uc003doq.1_Nonsense_Mutation_p.Q279*|FOXP1_uc003doi.2_Nonsense_Mutation_p.Q180*|FOXP1_uc003doj.2_Nonsense_Mutation_p.Q180*|FOXP1_uc003dok.2_Nonsense_Mutation_p.Q93*|FOXP1_uc003dor.1_Nonsense_Mutation_p.Q58*	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	280					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)		ACTGAGAGCTGTCCATTGGTA	0.522			T	PAX5	ALL								44	91	---	---	---	---	PASS	A	71090510	A	A	71090510	4	1	125	1	0	0	0	0	0	1	0	0	6026	1386	48	3	1239	3	FOXP1	3	71090510	Nonsense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08		71090510	126931920	21	45568										
CADM2	253559	broad.mit.edu	37	chr3	85935470	85935470	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tggttcaaaaatgacaaagaGattaaaggtaaagaatagaa	9	2	1	4			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr3:85935470G>T	uc003dqj.2	+	4	1121	c.495G>T	c.(493-495)GAG>GAT	p.E165D	CADM2_uc003dqk.2_Missense_Mutation_p.E174D|CADM2_uc003dql.2_Missense_Mutation_p.E167D	NM_153184	NP_694854	Q8N3J6	CADM2_HUMAN	immunoglobulin superfamily, member 4D	165	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly	integral to membrane|plasma membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4		Lung NSC(201;0.0148)		LUSC - Lung squamous cell carcinoma(29;0.000815)|Lung(72;0.00304)|BRCA - Breast invasive adenocarcinoma(55;0.156)|Epithelial(33;0.157)		ATGACAAAGAGATTAAAGGTA	0.323													20	41	---	---	---	---	PASS	T	85935470	T	T	85935470	3	4	125	1	0	0	0	0	1	0	0	0	2567	933	33	2	580	2	CADM2	3	85935470	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	14844960	85935470	112086960	22	45569										
OR5K4	403278	broad.mit.edu	37	chr3	98073073	98073073	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	cctatgaccgctatgtggccAtatgccacccactgcagtac	8	15	0	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr3:98073073A>G	uc011bgv.1	+	1	376	c.376A>G	c.(376-378)ATA>GTA	p.I126V		NM_001005517	NP_001005517	A6NMS3	OR5K4_HUMAN	olfactory receptor, family 5, subfamily K,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						CTATGTGGCCATATGCCACCC	0.483													48	422	---	---	---	---	PASS	G	98073073	G	G	98073073	3	3	125	1	0	0	0	0	1	0	0	0	11169	217	8	5	378	5	OR5K4	3	98073073	Missense_Mutation	SNP	A	TCGA-60-2712-01A-01D-1522-08	12137603	98073073	99949357	23	45570										
KIAA2018	205717	broad.mit.edu	37	chr3	113379864	113379864	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	caggaagacaaagaggaacaGgctggttggtagccaatgca	14	7	0	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr3:113379864G>T	uc003eam.2	-	7	1076	c.665C>A	c.(664-666)CCT>CAT	p.P222H	KIAA2018_uc003eal.2_Missense_Mutation_p.P166H	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	222					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						AAGAGGAACAGGCTGGTTGGT	0.478													59	69	---	---	---	---	PASS	T	113379864	T	T	113379864	3	4	125	1	0	0	0	0	1	0	0	0	8268	1000	35	3	6076	3	KIAA2018	3	113379864	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	15306791	113379864	84642566	24	45571										
CLSTN2	64084	broad.mit.edu	37	chr3	140167502	140167502	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	taattacattgggaagggttGtgaccgggagacctactctg	13	7	1	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr3:140167502G>C	uc003etn.2	+	6	1119	c.929G>C	c.(928-930)TGT>TCT	p.C310S	CLSTN2_uc003etm.2_Missense_Mutation_p.C310S	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	310	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						GGGAAGGGTTGTGACCGGGAG	0.463										HNSCC(16;0.037)			110	281	---	---	---	---	PASS	C	140167502	C	C	140167502	3	2	125	1	0	0	0	0	1	0	0	0	3562	1377	48	4	951	4	CLSTN2	3	140167502	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	26787638	140167502	57854928	25	45572										
TM4SF19	116211	broad.mit.edu	37	chr3	196051168	196051168	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tgcaggtctttgaatgggtaAccatatttccaagcttgtgt	10	7	1	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr3:196051168A>G	uc003fwl.1	-	4	548	c.423T>C	c.(421-423)GGT>GGC	p.G141G	TM4SF19_uc003fwj.2_RNA|uc003fwk.1_3'UTR|TM4SF19_uc010iad.1_Silent_p.G141G|TM4SF19_uc011btv.1_Silent_p.G115G	NM_138461	NP_612470	Q96DZ7	T4S19_HUMAN	transmembrane 4 L six family member 19	141	Extracellular (Potential).					integral to membrane					0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;4.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		TGAATGGGTAACCATATTTCC	0.433													46	122	---	---	---	---	PASS	G	196051168	G	G	196051168	2	3	125	1	0	0	0	0	0	0	0	1	15965	30	2	5		5	TM4SF19	3	196051168	Silent	SNP	A	TCGA-60-2712-01A-01D-1522-08	55883666	196051168	1971262	26	45573										
GAK	2580	broad.mit.edu	37	chr4	887731	887731	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gtacttcccattgactattcGaagtttcgctccatcctcaa	5	13	1	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr4:887731G>A	uc003gbm.3	-	8	1007	c.808C>T	c.(808-810)CGA>TGA	p.R270*	GAK_uc003gbn.3_Nonsense_Mutation_p.R191*|GAK_uc010ibk.1_Nonsense_Mutation_p.R164*|GAK_uc003gbl.3_Nonsense_Mutation_p.R134*	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	270	Protein kinase.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		TTGACTATTCGAAGTTTCGCT	0.607													3	35	---	---	---	---	PASS	A	887731	A	A	887731	4	1	125	1	0	0	0	0	0	1	0	0	6195	1066	37	2	3211	2	GAK	4	887731	Nonsense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08		887731	190266545	27	45574										
KIAA1109	84162	broad.mit.edu	37	chr4	123195521	123195521	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ttttacatcaaaagatgactGagacttgtgctactgctcat	7	8	2	3			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr4:123195521G>C	uc003ieh.2	+	47	8515	c.8470G>C	c.(8470-8472)GAG>CAG	p.E2824Q	KIAA1109_uc003iel.1_Missense_Mutation_p.E759Q|KIAA1109_uc003iek.2_Missense_Mutation_p.E1443Q	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2824					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAAGATGACTGAGACTTGTGC	0.279													23	48	---	---	---	---	PASS	C	123195521	C	C	123195521	3	2	125	1	0	0	0	0	1	0	0	0	8208	1291	45	2	8656	2	KIAA1109	4	123195521	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	122307790	123195521	67958755	28	45575										
GRIA2	2891	broad.mit.edu	37	chr4	158253997	158253997	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tctgctctgacctatgatgcCgttcaagtgatgactgaagc	10	10	3	5			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr4:158253997C>T	uc003ipm.3	+	7	1368	c.909C>T	c.(907-909)GCC>GCT	p.A303A	GRIA2_uc011cit.1_Silent_p.A256A|GRIA2_uc003ipl.3_Silent_p.A303A|GRIA2_uc003ipk.3_Silent_p.A256A|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	303	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	CCTATGATGCCGTTCAAGTGA	0.473													8	191	---	---	---	---	PASS	T	158253997	T	T	158253997	2	4	125	1	0	0	0	0	0	0	0	1	6768	639	23	1		1	GRIA2	4	158253997	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08	35058476	158253997	32900279	29	45576										
NIPBL	25836	broad.mit.edu	37	chr5	36985487	36985487	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ggtgatggaaggcctgaaacTccaaagcaaaaaggtgagag	14	6	0	3			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr5:36985487T>C	uc003jkl.3	+	10	2704	c.2205T>C	c.(2203-2205)ACT>ACC	p.T735T	NIPBL_uc003jkk.3_Silent_p.T735T|NIPBL_uc003jkm.1_Silent_p.T614T	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	735					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GGCCTGAAACTCCAAAGCAAA	0.488													4	93	---	---	---	---	PASS	C	36985487	C	C	36985487	2	2	125	1	0	0	0	0	0	0	0	1	10428	1538	54	5		5	NIPBL	5	36985487	Silent	SNP	T	TCGA-60-2712-01A-01D-1522-08		36985487	143929773	30	45577										
DMXL1	1657	broad.mit.edu	37	chr5	118465097	118465097	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gtgtagaagattctaatcagGcagatgtaaaatctgatgaa	10	4	3	5			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr5:118465097G>T	uc003ksd.2	+	10	1475	c.1294G>T	c.(1294-1296)GCA>TCA	p.A432S	DMXL1_uc010jcl.1_Missense_Mutation_p.A432S|DMXL1_uc003ksc.1_Missense_Mutation_p.A432S	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	432										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		TTCTAATCAGGCAGATGTAAA	0.323													23	77	---	---	---	---	PASS	T	118465097	T	T	118465097	3	4	125	1	0	0	0	0	1	0	0	0	4594	1203	42	3	1332	3	DMXL1	5	118465097	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	81479610	118465097	62450163	31	45578										
PCDHGA11	56105	broad.mit.edu	37	chr5	140800885	140800885	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tgcgggggttccgggccaggCagatccgatattcggtgcca	16	11	0	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr5:140800885C>T	uc003lkq.1	+	1	349	c.91C>T	c.(91-93)CAG>TAG	p.Q31*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Nonsense_Mutation_p.Q31*|PCDHGA11_uc003lkp.1_Nonsense_Mutation_p.Q31*	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	31	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGGGCCAGGCAGATCCGATA	0.657													19	51	---	---	---	---	PASS	T	140800885	T	T	140800885	4	4	125	1	0	0	0	0	0	1	0	0	11552	711	25	3	93	3	PCDHGA11	5	140800885	Nonsense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	22335788	140800885	40114375	32	45579										
CSNK1A1	1452	broad.mit.edu	37	chr5	148889453	148889453	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	catacttaccttacataaaaCttcaacaggcgtggacatct	5	11	2	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr5:148889453C>A	uc003lqx.1	-	7	1219	c.739G>T	c.(739-741)GTT>TTT	p.V247F	CSNK1A1_uc011dcb.1_Missense_Mutation_p.V156F|CSNK1A1_uc011dcc.1_Missense_Mutation_p.V186F|CSNK1A1_uc003lqv.1_Missense_Mutation_p.V158F|CSNK1A1_uc003lqw.1_Missense_Mutation_p.V275F|CSNK1A1_uc003lqy.1_Missense_Mutation_p.V247F|CSNK1A1_uc010jha.1_Missense_Mutation_p.V247F	NM_001892	NP_001883	P48729	KC1A_HUMAN	casein kinase 1, alpha 1 isoform 2	247	Protein kinase.				cell division|mitosis|Wnt receptor signaling pathway	centrosome|condensed chromosome kinetochore|cytosol|nuclear speck	ATP binding|protein binding|protein binding|protein serine/threonine kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.0407)		TTACATAAAACTTCAACAGGC	0.204													3	65	---	---	---	---	PASS	A	148889453	A	A	148889453	3	1	125	1	0	0	0	0	1	0	0	0	3950	565	20	3	290	3	CSNK1A1	5	148889453	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	8088568	148889453	32025807	33	45580										
KIF6	221458	broad.mit.edu	37	chr6	39563859	39563859	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gtaatgtagtgacaagttgaTatacttggcctctgttagaa	10	5	1	3	rs151248135		TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr6:39563859T>G	uc003oot.2	-	7	912	c.817A>C	c.(817-819)ATC>CTC	p.I273L	KIF6_uc010jxa.1_Missense_Mutation_p.I64L|KIF6_uc011dua.1_Missense_Mutation_p.I273L|KIF6_uc010jxb.1_Missense_Mutation_p.I273L	NM_145027	NP_659464	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	273	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3						GACAAGTTGATATACTTGGCC	0.358													30	83	---	---	---	---	PASS	G	39563859	G	G	39563859	3	3	125	1	0	0	0	0	1	0	0	0	8308	1406	49	5	1695	5	KIF6	6	39563859	Missense_Mutation	SNP	T	TCGA-60-2712-01A-01D-1522-08		39563859	131551208	34	45581										
PRSS35	167681	broad.mit.edu	37	chr6	84233224	84233224	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ggaccctcattgatggatctGaaatggaatgggattttatg	12	5	2	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr6:84233224G>C	uc003pjz.2	+	2	227	c.64G>C	c.(64-66)GAA>CAA	p.E22Q	PRSS35_uc010kbm.2_Missense_Mutation_p.E22Q	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	22					proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		TGATGGATCTGAAATGGAATG	0.413													54	198	---	---	---	---	PASS	C	84233224	C	C	84233224	3	2	125	1	0	0	0	0	1	0	0	0	12624	1291	45	2	66	2	PRSS35	6	84233224	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	44669365	84233224	86881843	35	45582										
SGK1	6446	broad.mit.edu	37	chr6	134495937	134495937	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	cccttagcagcctcagttttCaccgtcatcaccaccgcggg	8	17	4	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr6:134495937C>T	uc003qen.3	-	1	98	c.9G>A	c.(7-9)GTG>GTA	p.V3V	SGK1_uc003qeo.3_Intron|SGK1_uc011ect.1_5'UTR|SGK1_uc011ecu.1_Silent_p.V3V|SGK1_uc011ecv.1_Intron|SGK1_uc011ecw.1_Intron	NM_005627	NP_005618	O00141	SGK1_HUMAN	serum/glucocorticoid regulated kinase 1 isoform	3	Necessary for localization to the cytoplasm.				apoptosis|response to stress|sodium ion transport	endoplasmic reticulum|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(3)|stomach(1)|lung(1)|central_nervous_system(1)	6	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00317)|GBM - Glioblastoma multiforme(68;0.00847)		CCTCAGTTTTCACCGTCATCA	0.587													26	157	---	---	---	---	PASS	T	134495937	T	T	134495937	2	4	125	1	0	0	0	0	0	0	0	1	14207	813	29	2		2	SGK1	6	134495937	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08	50262713	134495937	36619130	36	45583										
CARD11	84433	broad.mit.edu	37	chr7	2987233	2987233	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tcggttgatcttggatggcaGcataggggcattaagcactt	13	7	1	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr7:2987233G>A	uc003smv.2	-	3	600	c.196C>T	c.(196-198)CTG>TTG	p.L66L		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	66	CARD.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		TTGGATGGCAGCATAGGGGCA	0.542			Mis		DLBCL								5	177	---	---	---	---	PASS	A	2987233	A	A	2987233	2	1	125	1	0	0	0	0	0	0	0	1	2645	962	34	3		3	CARD11	7	2987233	Silent	SNP	G	TCGA-60-2712-01A-01D-1522-08		2987233	156151430	37	45584										
DNAH11	8701	broad.mit.edu	37	chr7	21723442	21723442	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tacatggctgtctcaacttcGtcaccgatgggaggataccc	10	12	2	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr7:21723442G>A	uc003svc.2	+	33	5553	c.5522G>A	c.(5521-5523)CGT>CAT	p.R1841H		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1841	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TCTCAACTTCGTCACCGATGG	0.443									Kartagener_syndrome				59	427	---	---	---	---	PASS	A	21723442	A	A	21723442	3	1	125	1	0	0	0	0	1	0	0	0	4599	1145	40	1	5649	1	DNAH11	7	21723442	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	18736209	21723442	137415221	38	45585										
NPSR1	387129	broad.mit.edu	37	chr7	34884573	34884573	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	caaaaatcaaggctatcaagTatagcatcatcatcattctt	4	9	6	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr7:34884573T>C	uc003teg.1	+	7	951	c.823T>C	c.(823-825)TAT>CAT	p.Y275H	AAA1_uc010kwq.1_Intron|AAA1_uc011kaq.1_Intron|NPSR1_uc003teh.1_Missense_Mutation_p.Y275H|NPSR1_uc010kwt.1_Missense_Mutation_p.Y122H|NPSR1_uc010kwu.1_Missense_Mutation_p.Y65H|NPSR1_uc010kwv.1_Missense_Mutation_p.Y209H|NPSR1_uc003tei.1_Missense_Mutation_p.Y275H|NPSR1_uc010kww.1_Missense_Mutation_p.Y264H|NPSR1_uc011kar.1_Missense_Mutation_p.Y209H	NM_207172	NP_997055	Q6W5P4	NPSR1_HUMAN	G protein-coupled receptor for asthma	275	Cytoplasmic (Potential).					cytoplasm|integral to membrane|plasma membrane	vasopressin receptor activity			skin(3)|pancreas(1)	4					Halothane(DB01159)	GGCTATCAAGTATAGCATCAT	0.443													41	132	---	---	---	---	PASS	C	34884573	C	C	34884573	3	2	125	1	0	0	0	0	1	0	0	0	10600	1638	57	5	849	5	NPSR1	7	34884573	Missense_Mutation	SNP	T	TCGA-60-2712-01A-01D-1522-08	13161131	34884573	124254090	39	45586										
ZNF479	90827	broad.mit.edu	37	chr7	57188280	57188280	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tgtggttagtaagtgctgagGagcgcctaaaggcttggcca	15	7	0	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr7:57188280G>T	uc010kzo.2	-	5	1113	c.842C>A	c.(841-843)TCC>TAC	p.S281Y		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	281	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			AAGTGCTGAGGAGCGCCTAAA	0.458													29	98	---	---	---	---	PASS	T	57188280	T	T	57188280	3	4	125	1	0	0	0	0	1	0	0	0	17930	1174	41	2	736	2	ZNF479	7	57188280	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	22303707	57188280	101950383	40	45587										
WBSCR17	64409	broad.mit.edu	37	chr7	70880936	70880936	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	taccccgggctggtgaaggtGgtaagaaatcagaagaggga	16	6	1	4			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr7:70880936G>A	uc003tvy.2	+	4	651	c.651G>A	c.(649-651)GTG>GTA	p.V217V	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	217	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TGGTGAAGGTGGTAAGAAATC	0.532													21	74	---	---	---	---	PASS	A	70880936	A	A	70880936	2	1	125	1	0	0	0	0	0	0	0	1	17261	1335	47	3		3	WBSCR17	7	70880936	Silent	SNP	G	TCGA-60-2712-01A-01D-1522-08	13692656	70880936	88257727	41	45588										
SEMA3E	9723	broad.mit.edu	37	chr7	83119520	83119520	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ctctcttgatattcatccagCagcattgtatggagatcaag	8	9	3	2	rs148264760		TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr7:83119520C>G	uc003uhy.1	-	2	652	c.186G>C	c.(184-186)CTG>CTC	p.L62L		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	62	Sema.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				ATTCATCCAGCAGCATTGTAT	0.413													21	71	---	---	---	---	PASS	G	83119520	G	G	83119520	2	3	125	1	0	0	0	0	0	0	0	1	14028	697	25	4		4	SEMA3E	7	83119520	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08	12238584	83119520	76019143	42	45589										
PIK3CG	5294	broad.mit.edu	37	chr7	106508035	106508035	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ggagaactataaacagcccgTggtgctgagagaggacaact	13	8	0	3			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr7:106508035T>C	uc003vdv.3	+	2	114	c.29T>C	c.(28-30)GTG>GCG	p.V10A	PIK3CG_uc003vdu.2_Missense_Mutation_p.V10A|PIK3CG_uc003vdw.2_Missense_Mutation_p.V10A	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	10					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						AAACAGCCCGTGGTGCTGAGA	0.577													29	107	---	---	---	---	PASS	C	106508035	C	C	106508035	3	2	125	1	0	0	0	0	1	0	0	0	11916	1696	59	5	31	5	PIK3CG	7	106508035	Missense_Mutation	SNP	T	TCGA-60-2712-01A-01D-1522-08	23388515	106508035	52630628	43	45590										
CFTR	1080	broad.mit.edu	37	chr7	117307102	117307102	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tcaagcaagtgcaagtctaaGccccagattgctgctctgaa	9	11	3	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr7:117307102G>T	uc003vjd.2	+	27	4515	c.4383G>T	c.(4381-4383)AAG>AAT	p.K1461N	CFTR_uc011knq.1_Missense_Mutation_p.K867N	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	1461	Cytoplasmic (Potential).				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	GCAAGTCTAAGCCCCAGATTG	0.512									Cystic_Fibrosis				4	100	---	---	---	---	PASS	T	117307102	T	T	117307102	3	4	125	1	0	0	0	0	1	0	0	0	3294	962	34	3	4489	3	CFTR	7	117307102	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	10799067	117307102	41831561	44	45591										
KRBA1	84626	broad.mit.edu	37	chr7	149419581	149419581	+	Frame_Shift_Del	DEL	C	-	-													0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tgggcggggagcccagccctCccacccatagccccagcagg							TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr7:149419581delC	uc003wfz.2	+	6	934	c.535delC	c.(535-537)CCCfs	p.P179fs	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_5'Flank	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	179										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GCCCAGCCCTCCCACCCATAG	0.627													16	7	---	---	---	---		-	149419581	-	-	149419581	7	5	125	1	0	1	0	1	0	0	0	0	8439	855	30	0	553	0	KRBA1	7	149419581	Frame_Shift_Del	DEL	C	TCGA-60-2712-01A-01D-1522-08	32112479	149419581	9719082	45	45592										
VCPIP1	80124	broad.mit.edu	37	chr8	67578502	67578502	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	aggcatgccagaagagctctCggcctactagagcccgagac	12	13	1	4			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr8:67578502C>T	uc003xwn.2	-	1	951	c.692G>A	c.(691-693)CGA>CAA	p.R231Q	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	231	OTU.				protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			GAAGAGCTCTCGGCCTACTAG	0.507													65	90	---	---	---	---	PASS	T	67578502	T	T	67578502	3	4	125	1	0	0	0	0	1	0	0	0	17138	884	31	2	2988	2	VCPIP1	8	67578502	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08		67578502	78785520	46	45593										
KCNB2	9312	broad.mit.edu	37	chr8	73850288	73850288	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	aaattcattccaacccaggaGacacaggttattgtcccaca	6	12	1	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr8:73850288G>A	uc003xzb.2	+	3	3286	c.2698G>A	c.(2698-2700)GAC>AAC	p.D900N		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	900	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			CAACCCAGGAGACACAGGTTA	0.348													7	233	---	---	---	---	PASS	A	73850288	A	A	73850288	3	1	125	1	0	0	0	0	1	0	0	0	8013	942	33	2	2704	2	KCNB2	8	73850288	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	6271786	73850288	72513734	47	45594										
EPPK1	83481	broad.mit.edu	37	chr8	144940614	144940614	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	cacggggtcgatgacgaagcCggtggccgcctgcgcctcca	15	15	0	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr8:144940614C>T	uc003zaa.1	-	2	14831	c.14818G>A	c.(14818-14820)GGC>AGC	p.G4940S		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	4940	Plectin 62.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ATGACGAAGCCGGTGGCCGCC	0.721													3	26	---	---	---	---	PASS	T	144940614	T	T	144940614	3	4	125	1	0	0	0	0	1	0	0	0	5190	652	23	1	458	1	EPPK1	8	144940614	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	71090326	144940614	1423408	48	45595										
C9orf79	286234	broad.mit.edu	37	chr9	90502147	90502147	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	acaagcaagtcagtcccgacCgtgagtggccctctcgctgc	11	15	2	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr9:90502147C>A	uc004app.3	+	4	2780	c.2745C>A	c.(2743-2745)ACC>ACA	p.T915T	C9orf79_uc004apo.1_Silent_p.T727T	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	915						integral to membrane				ovary(3)	3						CAGTCCCGACCGTGAGTGGCC	0.587													25	44	---	---	---	---	PASS	A	90502147	A	A	90502147	2	1	125	1	0	0	0	0	0	0	0	1	2497	639	23	1		1	C9orf79	9	90502147	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08		90502147	50711284	49	45596										
RAPGEF1	2889	broad.mit.edu	37	chr9	134504004	134504004	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	catgggggccaccacagccaCtcgggtaggggacggcgccg	17	14	0	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr9:134504004C>G	uc004cbc.2	-	8	1028	c.898G>C	c.(898-900)GTG>CTG	p.V300L	RAPGEF1_uc004cbb.2_Missense_Mutation_p.V318L|RAPGEF1_uc010mzm.2_5'Flank|RAPGEF1_uc010mzn.2_Missense_Mutation_p.V305L|RAPGEF1_uc004cbd.2_Missense_Mutation_p.V305L	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	300					activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		ACCACAGCCACTCGGGTAGGG	0.592													11	29	---	---	---	---	PASS	G	134504004	G	G	134504004	3	3	125	1	0	0	0	0	1	0	0	0	13043	565	20	4	2403	4	RAPGEF1	9	134504004	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	44001857	134504004	6709427	50	45597										
CAMSAP1	157922	broad.mit.edu	37	chr9	138707778	138707778	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	cagggaagatgccgccgacgCggtctcccagtctcggtctg	14	14	3	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr9:138707778C>A	uc004cgr.3	-	15	4345	c.4345G>T	c.(4345-4347)GCG>TCG	p.A1449S	CAMSAP1_uc004cgq.3_Missense_Mutation_p.A1339S|CAMSAP1_uc010nbg.2_Missense_Mutation_p.A1171S	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1449						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		GCCGCCGACGCGGTCTCCCAG	0.607													28	83	---	---	---	---	PASS	A	138707778	A	A	138707778	3	1	125	1	0	0	0	0	1	0	0	0	2611	768	27	1	475	1	CAMSAP1	9	138707778	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	4203774	138707778	2505653	51	45598										
MYO3A	53904	broad.mit.edu	37	chr10	26463194	26463194	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gcatgagacagtcaaagagaGgcaagttgaaccagtgacac	12	8	1	4			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr10:26463194G>T	uc001isn.2	+	30	4361	c.4001G>T	c.(4000-4002)AGG>ATG	p.R1334M	MYO3A_uc009xkp.1_Intron|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1334					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GTCAAAGAGAGGCAAGTTGAA	0.502													45	156	---	---	---	---	PASS	T	26463194	T	T	26463194	3	4	125	1	0	0	0	0	1	0	0	0	10076	1000	35	3	4111	3	MYO3A	10	26463194	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08		26463194	109071553	52	45599										
PCDH15	65217	broad.mit.edu	37	chr10	55582413	55582413	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	aaggaacactcagcaggagaActgatgacattaggttctga	11	7	2	4			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr10:55582413A>T	uc001jju.1	-	33	5468	c.5073T>A	c.(5071-5073)AGT>AGA	p.S1691R	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.S1688R|PCDH15_uc010qhw.1_Missense_Mutation_p.S1651R|PCDH15_uc010qhx.1_Missense_Mutation_p.S1622R|PCDH15_uc010qhy.1_Missense_Mutation_p.S1698R|PCDH15_uc010qhz.1_Missense_Mutation_p.S1693R|PCDH15_uc010qia.1_Missense_Mutation_p.S1671R|PCDH15_uc010qib.1_Missense_Mutation_p.S1668R	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1691	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CAGCAGGAGAACTGATGACAT	0.423										HNSCC(58;0.16)			36	128	---	---	---	---	PASS	T	55582413	T	T	55582413	3	4	125	1	0	0	0	0	1	0	0	0	11511	40	2	5	2404	5	PCDH15	10	55582413	Missense_Mutation	SNP	A	TCGA-60-2712-01A-01D-1522-08	29119219	55582413	79952334	53	45600										
MYPN	84665	broad.mit.edu	37	chr10	69881497	69881497	+	Missense_Mutation	SNP	C	A	A													0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tcaagctagaaaacgactttCtcctgatcagatgaaacact							TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr10:69881497C>A	uc001jnm.3	+	3	487	c.302C>A	c.(301-303)TCT>TAT	p.S101Y	MYPN_uc001jnl.1_Missense_Mutation_p.S101Y|MYPN_uc001jnn.3_Intron|MYPN_uc001jno.3_Missense_Mutation_p.S101Y|MYPN_uc001jnp.1_Missense_Mutation_p.S101Y|MYPN_uc009xps.2_Missense_Mutation_p.S101Y|MYPN_uc009xpt.2_Missense_Mutation_p.S101Y|MYPN_uc010qit.1_5'UTR|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	101	Interaction with CARP.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						AAACGACTTTCTCCTGATCAG	0.448													47	120	---	---	---	---	PASS	A	69881497	A	A	69881497	3	1	125	1	0	0	0	0	1	0	0	0	10098	913	32	2	304	2	MYPN	10	69881497	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	14299084	69881497	65653250	54	45601	843	2								
MYPN	84665	broad.mit.edu	37	chr10	69881505	69881505	+	Missense_Mutation	SNP	C	G	G													0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gaaaacgactttctcctgatCagatgaaacactcacctaat							TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr10:69881505C>G	uc001jnm.3	+	3	495	c.310C>G	c.(310-312)CAG>GAG	p.Q104E	MYPN_uc001jnl.1_Missense_Mutation_p.Q104E|MYPN_uc001jnn.3_Intron|MYPN_uc001jno.3_Missense_Mutation_p.Q104E|MYPN_uc001jnp.1_Missense_Mutation_p.Q104E|MYPN_uc009xps.2_Missense_Mutation_p.Q104E|MYPN_uc009xpt.2_Missense_Mutation_p.Q104E|MYPN_uc010qit.1_Translation_Start_Site|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	104	Interaction with CARP.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						TTCTCCTGATCAGATGAAACA	0.443													45	120	---	---	---	---	PASS	G	69881505	G	G	69881505	3	3	125	1	0	0	0	0	1	0	0	0	10098	827	29	2	312	2	MYPN	10	69881505	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	8	69881505	65653242	55	45602	843	2								
PGAP2	27315	broad.mit.edu	37	chr11	3845356	3845356	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tcacttatgtctcctcctccGaggacttcagtgggtgcctg	10	13	3	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr11:3845356G>C	uc001lys.2	+	4	718	c.592G>C	c.(592-594)GAG>CAG	p.E198Q	PGAP2_uc001lyl.2_Missense_Mutation_p.E155Q|PGAP2_uc010qxw.1_Missense_Mutation_p.E255Q|PGAP2_uc010qxx.1_Missense_Mutation_p.R178P|PGAP2_uc001lyp.3_Intron|PGAP2_uc010qxy.1_Missense_Mutation_p.E194Q|PGAP2_uc010qxz.1_Missense_Mutation_p.E194Q|PGAP2_uc001lyn.3_Missense_Mutation_p.R90P|PGAP2_uc010qya.1_RNA|PGAP2_uc001lyr.2_Missense_Mutation_p.E137Q|PGAP2_uc010qyb.1_Missense_Mutation_p.R140P|PGAP2_uc001lyt.2_5'UTR	NM_014489	NP_055304	Q9UHJ9	PGAP2_HUMAN	FGF receptor activating protein 1 isoform 1	198					GPI anchor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein transporter activity				0						CTCCTCCTCCGAGGACTTCAG	0.607													10	42	---	---	---	---	PASS	C	3845356	C	C	3845356	3	2	125	1	0	0	0	0	1	0	0	0	11778	1059	37	2	781	2	PGAP2	11	3845356	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08		3845356	131161160	56	45603										
KIF18A	81930	broad.mit.edu	37	chr11	28058212	28058212	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	agttccacctgaagatgagcCtattcaaaaaaataaaaaaa	5	7	1	3			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr11:28058212C>A	uc001msc.2	-	14	2131	c.1949_splice	c.e14-1	p.C650_splice		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A						blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						GAAGATGAGCCTATTCAAAAA	0.318													9	38	---	---	---	---	PASS	A	28058212	A	A	28058212	5	1	125	1	0	0	0	0	0	0	1	0	8280	695	24	3	764	3	KIF18A	11	28058212	Splice_Site	SNP	C	TCGA-60-2712-01A-01D-1522-08	24212856	28058212	106948304	57	45604										
OR5R1	219479	broad.mit.edu	37	chr11	56184914	56184914	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ttgtctgtgtccaaggagtgAtttgatttgggctgtaggta	14	4	1	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr11:56184914A>G	uc010rji.1	-	1	795	c.795T>C	c.(793-795)AAT>AAC	p.N265N		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CCAAGGAGTGATTTGATTTGG	0.433													44	195	---	---	---	---	PASS	G	56184914	G	G	56184914	2	3	125	1	0	0	0	0	0	0	0	1	11180	330	12	5		5	OR5R1	11	56184914	Silent	SNP	A	TCGA-60-2712-01A-01D-1522-08	28126702	56184914	78821602	58	45605										
PYGM	5837	broad.mit.edu	37	chr11	64519091	64519091	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tccctccaatcatcacagtcCgaggcacaaaaaacttattg	5	13	2	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr11:64519091C>T	uc001oax.3	-	15	2622	c.1805G>A	c.(1804-1806)CGG>CAG	p.R602Q	PYGM_uc001oay.3_Missense_Mutation_p.R514Q	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	602			R -> W (in GSD5).		glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	CATCACAGTCCGAGGCACAAA	0.552													23	137	---	---	---	---	PASS	T	64519091	T	T	64519091	3	4	125	1	0	0	0	0	1	0	0	0	12862	652	23	1	747	1	PYGM	11	64519091	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	8334177	64519091	70487425	59	45606										
SIK3	23387	broad.mit.edu	37	chr11	116728678	116728678	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gcagagggctgtcatggcaaCctttggtcaatgtacttgaa	12	8	2	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr11:116728678C>T	uc001ppy.2	-	20	3221	c.3185G>A	c.(3184-3186)GGT>GAT	p.G1062D	SIK3_uc001ppz.2_Missense_Mutation_p.G901D|SIK3_uc001pqa.2_Missense_Mutation_p.G1002D|SIK3_uc001ppw.2_Missense_Mutation_p.G419D|SIK3_uc001ppx.2_Missense_Mutation_p.G440D|SIK3_uc001pqb.2_Missense_Mutation_p.G365D	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	1062						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						GTCATGGCAACCTTTGGTCAA	0.537													7	153	---	---	---	---	PASS	T	116728678	T	T	116728678	3	4	125	1	0	0	0	0	1	0	0	0	14319	507	18	3	622	3	SIK3	11	116728678	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	52209587	116728678	18277838	60	45607										
OR8B8	26493	broad.mit.edu	37	chr11	124310149	124310149	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gcatgggcaccacagtggtaTagaatagggaagacaccttg	13	8	0	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr11:124310149T>A	uc010sal.1	-	1	833	c.833A>T	c.(832-834)TAT>TTT	p.Y278F		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		CACAGTGGTATAGAATAGGGA	0.408													40	119	---	---	---	---	PASS	A	124310149	A	A	124310149	3	1	125	1	0	0	0	0	1	0	0	0	11230	1406	49	5	105	5	OR8B8	11	124310149	Missense_Mutation	SNP	T	TCGA-60-2712-01A-01D-1522-08	7581471	124310149	10696367	61	45608										
PUS7L	83448	broad.mit.edu	37	chr12	44136321	44136321	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gaactttccttcccttcccaAatctctgtggtccatagtaa	5	13	1	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr12:44136321A>C	uc001rnq.3	-	5	1790	c.1301T>G	c.(1300-1302)TTT>TGT	p.F434C	PUS7L_uc001rnr.3_Missense_Mutation_p.F434C|PUS7L_uc001rns.3_Missense_Mutation_p.F434C|PUS7L_uc009zkb.2_Missense_Mutation_p.F121C	NM_001098615	NP_001092085	Q9H0K6	PUS7L_HUMAN	pseudouridylate synthase 7 homolog (S.	434	TRUD.				pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)		TCCCTTCCCAAATCTCTGTGG	0.313													48	160	---	---	---	---	PASS	C	44136321	C	C	44136321	3	2	125	1	0	0	0	0	1	0	0	0	12834	14	1	5	824	5	PUS7L	12	44136321	Missense_Mutation	SNP	A	TCGA-60-2712-01A-01D-1522-08		44136321	89715574	62	45609										
SLC38A2	54407	broad.mit.edu	37	chr12	46756368	46756368	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	actgtaatgagactatgacgCcaccaactgaaatcttttga	7	9	1	4			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr12:46756368C>A	uc001rpg.2	-	14	1673	c.1233G>T	c.(1231-1233)TGG>TGT	p.W411C	SLC38A2_uc010sli.1_Missense_Mutation_p.W249C|SLC38A2_uc001rph.2_Missense_Mutation_p.W311C	NM_018976	NP_061849	Q96QD8	S38A2_HUMAN	solute carrier family 38, member 2	411	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|glutamate secretion|neurotransmitter secretion|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			urinary_tract(1)|skin(1)	2	Lung SC(27;0.192)|Renal(347;0.236)		OV - Ovarian serous cystadenocarcinoma(5;0.0048)|Epithelial(2;0.0374)	GBM - Glioblastoma multiforme(48;0.226)		GACTATGACGCCACCAACTGA	0.318													24	101	---	---	---	---	PASS	A	46756368	A	A	46756368	3	1	125	1	0	0	0	0	1	0	0	0	14604	740	26	3	299	3	SLC38A2	12	46756368	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	2620047	46756368	87095527	63	45610										
EIF4B	1975	broad.mit.edu	37	chr12	53421697	53421697	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	accgaggcagcagagactatGatagaggtaattgtaaaaca	11	6	0	3			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr12:53421697G>C	uc001sbh.3	+	7	1005	c.799G>C	c.(799-801)GAT>CAT	p.D267H	EIF4B_uc009zmp.1_RNA|EIF4B_uc010snu.1_Missense_Mutation_p.D267H|EIF4B_uc010snv.1_Missense_Mutation_p.D228H|EIF4B_uc001sbi.2_Missense_Mutation_p.D19H	NM_001417	NP_001408	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	267	Arg-rich.|Asp-rich.				insulin receptor signaling pathway|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	nucleotide binding|translation initiation factor activity			breast(1)|kidney(1)	2						CAGAGACTATGATAGAGGTAA	0.363													43	103	---	---	---	---	PASS	C	53421697	C	C	53421697	3	2	125	1	0	0	0	0	1	0	0	0	5027	1290	45	2	825	2	EIF4B	12	53421697	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	6665329	53421697	80430198	64	45611										
HAL	3034	broad.mit.edu	37	chr12	96379721	96379721	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	caaggtgtatgcatcctggaCgcgatcacagaacctgtgac	11	11	1	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr12:96379721C>T	uc001tem.1	-	14	1468	c.1171G>A	c.(1171-1173)GTC>ATC	p.V391I	HAL_uc009zti.1_RNA|HAL_uc010suw.1_Missense_Mutation_p.V183I|HAL_uc010sux.1_Missense_Mutation_p.V391I	NM_002108	NP_002099	P42357	HUTH_HUMAN	histidine ammonia-lyase	391					biosynthetic process|histidine catabolic process	cytosol	histidine ammonia-lyase activity			ovary(2)|skin(1)	3					L-Histidine(DB00117)	GCATCCTGGACGCGATCACAG	0.418													6	101	---	---	---	---	PASS	T	96379721	T	T	96379721	3	4	125	1	0	0	0	0	1	0	0	0	6947	536	19	1	834	1	HAL	12	96379721	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	42958024	96379721	37472174	65	45612										
PITPNM2	57605	broad.mit.edu	37	chr12	123481933	123481933	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gggcaccaggcggatggcaaGgcggcccagggcgctggggt	21	11	0	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr12:123481933G>A	uc001uej.1	-	10	1550	c.1411C>T	c.(1411-1413)CTT>TTT	p.L471F	PITPNM2_uc001uek.1_Missense_Mutation_p.L471F	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	471					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)		CGGATGGCAAGGCGGCCCAGG	0.667													12	97	---	---	---	---	PASS	A	123481933	A	A	123481933	3	1	125	1	0	0	0	0	1	0	0	0	11951	1000	35	3	2702	3	PITPNM2	12	123481933	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	27102212	123481933	10369962	66	45613										
KIAA0831	22863	broad.mit.edu	37	chr14	55878363	55878363	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gtagacgaaatcgccgctctGaacgcatttggcgcaggtca	12	11	2	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr14:55878363G>A	uc001xbx.1	-	1	214	c.178C>T	c.(178-180)CAG>TAG	p.Q60*	FBXO34_uc001xbv.2_Intron	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	60					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0						TCGCCGCTCTGAACGCATTTG	0.662													8	13	---	---	---	---	PASS	A	55878363	A	A	55878363	4	1	125	1	0	0	0	0	0	1	0	0	8195	1299	45	2	1340	2	KIAA0831	14	55878363	Nonsense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08		55878363	51471177	67	45614										
SPTB	6710	broad.mit.edu	37	chr14	65218954	65218954	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ggaagcatgttgctgcatttCtacagcaacagactctgttt	9	9	2	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr14:65218954C>T	uc010aqi.2	-	15	2680	c.2665G>A	c.(2665-2667)GAA>AAA	p.E889K	SPTB_uc001xhr.2_Intron|SPTB_uc001xhs.2_Intron	NM_001024858	NP_001020029	P11277	SPTB1_HUMAN	spectrin beta isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TGCTGCATTTCTACAGCAACA	0.363													10	16	---	---	---	---	PASS	T	65218954	T	T	65218954	3	4	125	1	0	0	0	0	1	0	0	0	15117	928	32	2		2	SPTB	14	65218954	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	9340591	65218954	42130586	68	45615										
SPTB	6710	broad.mit.edu	37	chr14	65219028	65219028	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tcctctcctctccctcttctCccttacttttgagggcagga	6	16	4	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr14:65219028C>G	uc010aqi.2	-	15	2606	c.2591G>C	c.(2590-2592)GGA>GCA	p.G864A	SPTB_uc001xhr.2_Intron|SPTB_uc001xhs.2_Intron	NM_001024858	NP_001020029	P11277	SPTB1_HUMAN	spectrin beta isoform a	Error:Variant_position_missing_in_P11277_after_alignment					actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		tccctcttctccctTACTTTT	0.219													6	9	---	---	---	---	PASS	G	65219028	G	G	65219028	3	3	125	1	0	0	0	0	1	0	0	0	15117	870	30	2		2	SPTB	14	65219028	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	74	65219028	42130512	69	45616										
RIN3	79890	broad.mit.edu	37	chr14	93142874	93142874	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gctcatgtatgtgctggcccGcagcaacctcacggagatgc	12	13	2	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr14:93142874G>A	uc001yap.2	+	8	2542	c.2390G>A	c.(2389-2391)CGC>CAC	p.R797H	RIN3_uc010auk.2_Missense_Mutation_p.R459H|RIN3_uc001yaq.2_Missense_Mutation_p.R722H|RIN3_uc001yas.1_Missense_Mutation_p.R459H	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	797	VPS9.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				GTGCTGGCCCGCAGCAACCTC	0.602													15	97	---	---	---	---	PASS	A	93142874	A	A	93142874	3	1	125	1	0	0	0	0	1	0	0	0	13373	1087	38	1	2420	1	RIN3	14	93142874	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	27923846	93142874	14206666	70	45617										
DYNC1H1	1778	broad.mit.edu	37	chr14	102445718	102445718	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	acccgtgtcttctcagctccGggtccttacactcagtgaag	9	14	3	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr14:102445718G>A	uc001yks.2	+	3	571	c.407G>A	c.(406-408)CGG>CAG	p.R136Q		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	136	Stem (By similarity).				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						TCTCAGCTCCGGGTCCTTACA	0.403													48	233	---	---	---	---	PASS	A	102445718	A	A	102445718	3	1	125	1	0	0	0	0	1	0	0	0	4841	1116	39	1	417	1	DYNC1H1	14	102445718	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	9302844	102445718	4903822	71	45618										
KIAA0284	283638	broad.mit.edu	37	chr14	105353958	105353959	+	Frame_Shift_Ins	INS	-	G	G													0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	acgggcctcccggctgaggcINSgggcccggctgggggacgct							TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr14:105353958_105353959insG	uc010axb.2	+	12	3606_3607	c.3382_3383insG	c.(3382-3384)CGGfs	p.R1128fs	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Frame_Shift_Ins_p.R1058fs|KIAA0284_uc001yps.2_Frame_Shift_Ins_p.R1034fs|KIAA0284_uc001ypt.2_5'Flank	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	1128						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		CCGGCTGAGGCGGGCCCGGCTG	0.733													4	2	---	---	---	---		G	105353959	G	G	105353958	7	5	125	1	0	1	1	0	0	0	0	0	8166	759	27	0	3424	0	KIAA0284	14	105353958	Frame_Shift_Ins	INS	-	TCGA-60-2712-01A-01D-1522-08	2908240	105353958	1995582	72	45619										
TRPM1	4308	broad.mit.edu	37	chr15	31334348	31334348	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	atcagctcgtggaagggataCtggaaccgactcacggcagg	14	10	2	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr15:31334348C>T	uc001zfm.2	-	16	1955	c.1827G>A	c.(1825-1827)CAG>CAA	p.Q609Q	TRPM1_uc010azy.2_Silent_p.Q516Q|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	609	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		GGAAGGGATACTGGAACCGAC	0.473													11	16	---	---	---	---	PASS	T	31334348	T	T	31334348	2	4	125	1	0	0	0	0	0	0	0	1	16582	564	20	3		3	TRPM1	15	31334348	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08		31334348	71197044	73	45620										
TYRO3	7301	broad.mit.edu	37	chr15	41862298	41862298	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gtgctaacggccctggtgacGgctgctgccctggccctcat	13	15	1	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr15:41862298G>A	uc001zof.1	+	10	1550	c.1326G>A	c.(1324-1326)ACG>ACA	p.T442T		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	442	Helical; (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		CCCTGGTGACGGCTGCTGCCC	0.612													9	64	---	---	---	---	PASS	A	41862298	A	A	41862298	2	1	125	1	0	0	0	0	0	0	0	1	16811	1103	39	1		1	TYRO3	15	41862298	Silent	SNP	G	TCGA-60-2712-01A-01D-1522-08	10527950	41862298	60669094	74	45621										
AP3S2	10239	broad.mit.edu	37	chr15	90378852	90378852	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ttcacagcagacacagcccgCgcaggggctgctgaaaggcc	13	14	1	2	rs112739850	byFrequency	TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr15:90378852C>A	uc002boq.3	-	6	913	c.477G>T	c.(475-477)GCG>GCT	p.A159A	AP3S2_uc002bos.3_Silent_p.A360A|AP3S2_uc010bns.2_RNA|AP3S2_uc002bor.3_RNA|AP3S2_uc010bnt.2_RNA	NM_005829	NP_005820	P59780	AP3S2_HUMAN	adaptor-related protein complex 3, sigma 2	159					intracellular protein transport|vesicle-mediated transport	cytoplasmic vesicle membrane|Golgi apparatus|membrane coat	protein transporter activity				0	Lung NSC(78;0.0181)|all_lung(78;0.0384)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.223)			ACACAGCCCGCGCAGGGGCTG	0.438													54	121	---	---	---	---	PASS	A	90378852	A	A	90378852	2	1	125	1	0	0	0	0	0	0	0	1	750	755	27	1		1	AP3S2	15	90378852	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08	48516554	90378852	12152540	75	45622										
RTN4RL1	146760	broad.mit.edu	37	chr17	1840292	1840292	+	Frame_Shift_Del	DEL	C	-	-													0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	aggggacagcggagctggagCcccggaacctctgcagccat							TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr17:1840292delC	uc002ftp.2	-	2	843	c.824delG	c.(823-825)GGCfs	p.G275fs		NM_178568	NP_848663	Q86UN2	R4RL1_HUMAN	reticulon 4 receptor-like 1 precursor	275	LRRCT.				axon regeneration	anchored to plasma membrane	receptor activity				0						GGAGCTGGAGCCCCGGAACCT	0.706													6	4	---	---	---	---		-	1840292	-	-	1840292	7	5	125	1	0	1	0	1	0	0	0	0	13731	739	26	0	505	0	RTN4RL1	17	1840292	Frame_Shift_Del	DEL	C	TCGA-60-2712-01A-01D-1522-08		1840292	79354918	76	45623										
ITGAE	3682	broad.mit.edu	37	chr17	3704418	3704418	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gacttactggctatgcagagCagagtgtggaagagccacat	13	8	0	3			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr17:3704418C>A	uc002fwo.3	-	1	120	c.21G>T	c.(19-21)CTG>CTT	p.L7L		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	7					cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		CTATGCAGAGCAGAGTGTGGA	0.627													18	20	---	---	---	---	PASS	A	3704418	A	A	3704418	2	1	125	1	0	0	0	0	0	0	0	1	7885	697	25	3		3	ITGAE	17	3704418	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08	1864126	3704418	77490792	77	45624										
TP53	7157	broad.mit.edu	37	chr17	7579312	7579312	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	agcccctcagggcaactgacCgtgcaagtcacagacttggc	11	14	2	2	rs55863639		TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr17:7579312C>A	uc002gim.2	-	4	569	c.375G>T	c.(373-375)ACG>ACT	p.T125T	TP53_uc002gig.1_Silent_p.T125T|TP53_uc002gih.2_Silent_p.T125T|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Silent_p.T125T|TP53_uc010cni.1_Silent_p.T125T|TP53_uc002gij.2_Silent_p.T125T|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Silent_p.T86T|TP53_uc010cnk.1_Silent_p.T140T	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	125	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		T -> A (in a sporadic cancer; somatic mutation).|T -> M (in sporadic cancers; somatic mutation).|T -> R (in sporadic cancers; somatic mutation).|T -> P (in a sporadic cancer; somatic mutation).|T -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.T125T(15)|p.0?(7)|p.T125M(7)|p.T125K(3)|p.T125R(3)|p.?(2)|p.V73fs*9(1)|p.T125P(1)|p.G105_T125del21(1)|p.Y126fs*11(1)|p.T125fs*45(1)|p.T125fs*24(1)|p.T125A(1)|p.P13fs*18(1)|p.T125_Y126insX(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)		GGCAACTGACCGTGCAAGTCA	0.537		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)			31	55	---	---	---	---	PASS	A	7579312	A	A	7579312	2	1	125	1	0	0	0	0	0	0	0	1	16378	666	23	1		1	TP53	17	7579312	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08	3874894	7579312	73615898	78	45625										
SMCR8	140775	broad.mit.edu	37	chr17	18221387	18221392	+	In_Frame_Del	DEL	AAGCCC	-	-													0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ccagctatggctgctacgctAagcccgtgaaacattgggcc							TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr17:18221387_18221392delAAGCCC	uc002gsy.3	+	1	2794_2799	c.2284_2289delAAGCCC	c.(2284-2289)AAGCCCdel	p.KP762del		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	762_763										central_nervous_system(1)	1						CTGCTACGCTAAGCCCGTGAAACATT	0.539													94	44	---	---	---	---		-	18221392	-	-	18221387	7	5	125	1	0	1	0	1	0	0	0	0	14792	363	13	0	2286	0	SMCR8	17	18221387	In_Frame_Del	DEL	AAGCCC	TCGA-60-2712-01A-01D-1522-08	10642075	18221387	62973823	79	45626										
RARA	5914	broad.mit.edu	37	chr17	38510742	38510742	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	acggggctgctcagcgccatCtgcctcatctgcggaggtgg	15	13	4	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr17:38510742C>T	uc002huk.1	+	7	1451	c.996C>T	c.(994-996)ATC>ATT	p.I332I	RARA_uc002hul.3_Silent_p.I332I|RARA_uc010wfe.1_Silent_p.I235I|RARA_uc002hun.1_Silent_p.I327I	NM_000964	NP_000955	P10276	RARA_HUMAN	retinoic acid receptor, alpha isoform 1	332	Ligand-binding.				apoptotic cell clearance|cellular response to estrogen stimulus|cellular response to retinoic acid|estrogen receptor signaling pathway|negative regulation of granulocyte differentiation|negative regulation of interferon-gamma production|negative regulation of tumor necrosis factor production|positive regulation of binding|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of interleukin-13 production|positive regulation of interleukin-4 production|positive regulation of interleukin-5 production|positive regulation of T-helper 2 cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	cytoplasm|nucleoplasm	chromatin DNA binding|enzyme binding|protein domain specific binding|protein heterodimerization activity|receptor binding|retinoic acid binding|retinoic acid receptor activity|retinoic acid-responsive element binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00143)		Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Isotretinoin(DB00982)|Tamibarotene(DB04942)|Tazarotene(DB00799)	TCAGCGCCATCTGCCTCATCT	0.682			T	PML|ZNF145|TIF1|NUMA1|NPM1	APL								14	47	---	---	---	---	PASS	T	38510742	T	T	38510742	2	4	125	1	0	0	0	0	0	0	0	1	13052	903	32	2		2	RARA	17	38510742	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08	20289355	38510742	42684468	80	45627										
CCDC57	284001	broad.mit.edu	37	chr17	80136939	80136939	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ctcagaccctgaatcagggcCtctgacttttggatctggtc	10	12	4	3			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr17:80136939C>A	uc002kdz.1	-	10	1693	c.1338G>T	c.(1336-1338)GAG>GAT	p.E446D	CCDC57_uc002kdx.1_Missense_Mutation_p.E446D|CCDC57_uc010dik.1_Intron	NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	446	Potential.									ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			GAATCAGGGCCTCTGACTTTT	0.622													20	49	---	---	---	---	PASS	A	80136939	A	A	80136939	3	1	125	1	0	0	0	0	1	0	0	0	2827	680	24	3	1445	3	CCDC57	17	80136939	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	41626197	80136939	1058271	81	45628										
ZCCHC2	54877	broad.mit.edu	37	chr18	60241410	60241410	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	aattgcttcactaggaaatgAgaatggaaaccttttagaag	9	5	1	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr18:60241410A>C	uc002lip.3	+	13	2096	c.2096A>C	c.(2095-2097)GAG>GCG	p.E699A	ZCCHC2_uc002lio.2_RNA|ZCCHC2_uc002liq.2_Missense_Mutation_p.E169A	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	699					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding			lung(1)|prostate(1)	2						CTAGGAAATGAGAATGGAAAC	0.423													113	300	---	---	---	---	PASS	C	60241410	C	C	60241410	3	2	125	1	0	0	0	0	1	0	0	0	17584	304	11	5	2146	5	ZCCHC2	18	60241410	Missense_Mutation	SNP	A	TCGA-60-2712-01A-01D-1522-08		60241410	17835838	82	45629										
CNN1	1264	broad.mit.edu	37	chr19	11660497	11660497	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	cgcagcggggcatgacggtgTatgggctgccacgccaggtc	17	12	0	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr19:11660497T>G	uc002msc.1	+	7	945	c.781T>G	c.(781-783)TAT>GAT	p.Y261D	CNN1_uc010xmb.1_Missense_Mutation_p.Y211D|CNN1_uc010xmc.1_Missense_Mutation_p.Y211D	NM_001299	NP_001290	P51911	CNN1_HUMAN	calponin 1, basic, smooth muscle	261	Calponin-like 3.				actomyosin structure organization|regulation of smooth muscle contraction	cytoskeleton	actin binding|calmodulin binding				0						CATGACGGTGTATGGGCTGCC	0.632													3	62	---	---	---	---	PASS	G	11660497	G	G	11660497	3	3	125	1	0	0	0	0	1	0	0	0	3609	1638	57	5	807	5	CNN1	19	11660497	Missense_Mutation	SNP	T	TCGA-60-2712-01A-01D-1522-08		11660497	47468486	83	45630										
ZNF443	10224	broad.mit.edu	37	chr19	12541874	12541874	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	taggacaatcaaagcctttcCcacatatcttacatttatga	4	10	2	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr19:12541874C>T	uc002mtu.2	-	4	1310	c.1112G>A	c.(1111-1113)GGG>GAG	p.G371E		NM_005815	NP_005806	Q9Y2A4	ZN443_HUMAN	zinc finger protein 443	371	C2H2-type 9.				induction of apoptosis|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						AAAGCCTTTCCCACATATCTT	0.423													105	332	---	---	---	---	PASS	T	12541874	T	T	12541874	3	4	125	1	0	0	0	0	1	0	0	0	17913	623	22	3	907	3	ZNF443	19	12541874	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	881377	12541874	46587109	84	45631										
DCAF15	90379	broad.mit.edu	37	chr19	14069908	14069908	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ccacagcacctgccccctggCgcctgccagcccccctgagc	9	23	0	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr19:14069908C>T	uc002mxt.2	+	7	842	c.836C>T	c.(835-837)GCG>GTG	p.A279V	DCAF15_uc002mxu.2_5'Flank	NM_138353	NP_612362	Q66K64	DCA15_HUMAN	DDB1 and CUL4 associated factor 15	279										central_nervous_system(1)	1						TGCCCCCTGGCGCCTGCCAGC	0.657													8	132	---	---	---	---	PASS	T	14069908	T	T	14069908	3	4	125	1	0	0	0	0	1	0	0	0	4267	768	27	1	862	1	DCAF15	19	14069908	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	1528034	14069908	45059075	85	45632										
NCAN	1463	broad.mit.edu	37	chr19	19338756	19338756	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	tggcttgcaggccactgtagAtgaggtgcaggacccctggc	15	11	0	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr19:19338756A>T	uc002nlz.2	+	8	2426	c.2327A>T	c.(2326-2328)GAT>GTT	p.D776V	NCAN_uc010ecc.1_Missense_Mutation_p.D340V	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	776					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GCCACTGTAGATGAGGTGCAG	0.612													37	139	---	---	---	---	PASS	T	19338756	T	T	19338756	3	4	125	1	0	0	0	0	1	0	0	0	10204	333	12	5	2353	5	NCAN	19	19338756	Missense_Mutation	SNP	A	TCGA-60-2712-01A-01D-1522-08	5268848	19338756	39790227	86	45633										
ZNF99	7652	broad.mit.edu	37	chr19	22942393	22942393	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	aatcgtaaattcttatgtccAcatcttgcatatgttctcaa	4	9	3	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr19:22942393A>G	uc010xrh.1	-	4	381	c.381T>C	c.(379-381)TGT>TGC	p.C127C		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)				TCTTATGTCCACATCTTGCAT	0.323													25	101	---	---	---	---	PASS	G	22942393	G	G	22942393	2	3	125	1	0	0	0	0	0	0	0	1	18201	157	6	5		5	ZNF99	19	22942393	Silent	SNP	A	TCGA-60-2712-01A-01D-1522-08	3603637	22942393	36186590	87	45634										
RYR1	6261	broad.mit.edu	37	chr19	39019663	39019663	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	accccctgcaccagttggtcCtgcacttcagccgcactgcc	8	19	1	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr19:39019663C>T	uc002oit.2	+	76	11237	c.11107C>T	c.(11107-11109)CTG>TTG	p.L3703L	RYR1_uc002oiu.2_Silent_p.L3698L|RYR1_uc002oiv.1_Silent_p.L618L|RYR1_uc010xuf.1_Silent_p.L623L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3703					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CCAGTTGGTCCTGCACTTCAG	0.517													9	38	---	---	---	---	PASS	T	39019663	T	T	39019663	2	4	125	1	0	0	0	0	0	0	0	1	13768	680	24	3		3	RYR1	19	39019663	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08	16077270	39019663	20109320	88	45635										
SIRT2	22933	broad.mit.edu	37	chr19	39384061	39384061	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	acaggggactcacagcgttcGctctgcatgtaccgggccac	12	14	2	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr19:39384061G>T	uc002ojt.1	-	4	419	c.219C>A	c.(217-219)AGC>AGA	p.S73R	SIRT2_uc010egh.1_Missense_Mutation_p.S36R|SIRT2_uc010egi.1_Missense_Mutation_p.S36R|SIRT2_uc002ojs.1_Missense_Mutation_p.S53R|SIRT2_uc002oju.1_Missense_Mutation_p.S36R|SIRT2_uc010egj.1_Missense_Mutation_p.S36R|SIRT2_uc002ojv.1_Missense_Mutation_p.S73R	NM_012237	NP_036369	Q8IXJ6	SIRT2_HUMAN	sirtuin 2 isoform 1	73	Deacetylase sirtuin-type.				cell division|chromatin silencing at rDNA|chromatin silencing at telomere|mitosis|negative regulation of striated muscle tissue development|protein ADP-ribosylation|regulation of exit from mitosis|regulation of phosphorylation|response to redox state	chromatin silencing complex|cytoplasm|microtubule	histone acetyltransferase binding|histone deacetylase binding|NAD+ binding|NAD-dependent histone deacetylase activity|transcription factor binding|tubulin deacetylase activity|ubiquitin binding|zinc ion binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00125)|LUSC - Lung squamous cell carcinoma(53;0.00191)			CACAGCGTTCGCTCTGCATGT	0.587													11	43	---	---	---	---	PASS	T	39384061	T	T	39384061	3	4	125	1	0	0	0	0	1	0	0	0	14338	1078	38	1	1002	1	SIRT2	19	39384061	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	364398	39384061	19744922	89	45636										
FCGBP	8857	broad.mit.edu	37	chr19	40420081	40420081	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gtcaggccaaagtccgtgcgCacgacggcatccctgccctg	12	16	1	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr19:40420081C>T	uc002omp.3	-	6	2921	c.2913G>A	c.(2911-2913)GTG>GTA	p.V971V		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	971	VWFD 2.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			AGTCCGTGCGCACGACGGCAT	0.592													13	94	---	---	---	---	PASS	T	40420081	T	T	40420081	2	4	125	1	0	0	0	0	0	0	0	1	5778	697	25	3		3	FCGBP	19	40420081	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08	1036020	40420081	18708902	90	45637										
CRX	1406	broad.mit.edu	37	chr19	48342889	48342889	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	cagggccgtctctgacctccGccccctatgccatgacctac	8	19	1	2	rs142111462		TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr19:48342889G>A	uc002phq.3	+	4	769	c.565G>A	c.(565-567)GCC>ACC	p.A189T		NM_000554	NP_000545	O43186	CRX_HUMAN	cone-rod homeobox protein	189					organ morphogenesis|response to stimulus|visual perception		leucine zipper domain binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2		all_cancers(25;2.76e-09)|all_epithelial(76;7.01e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000266)|all cancers(93;0.000788)|Epithelial(262;0.0226)|GBM - Glioblastoma multiforme(486;0.0521)		TCTGACCTCCGCCCCCTATGC	0.667													17	109	---	---	---	---	PASS	A	48342889	A	A	48342889	3	1	125	1	0	0	0	0	1	0	0	0	3902	1087	38	1	575	1	CRX	19	48342889	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	7922808	48342889	10786094	91	45638										
PTOV1	53635	broad.mit.edu	37	chr19	50358117	50358118	+	Frame_Shift_Ins	INS	-	A	A													0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	cagtggccgcagaagctgatINScatgcagctgatccctcagc							TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr19:50358117_50358118insA	uc002pqf.1	+	4	592_593	c.422_423insA	c.(421-423)ATCfs	p.I141fs	PTOV1_uc010ybf.1_Frame_Shift_Ins_p.I109fs|PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Frame_Shift_Ins_p.I109fs|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	141					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		CAGAAGCTGATCATGCAGCTGA	0.658													53	31	---	---	---	---		A	50358118	A	A	50358117	7	5	125	1	0	1	1	0	0	0	0	0	12769	1435	50	0	436	0	PTOV1	19	50358117	Frame_Shift_Ins	INS	-	TCGA-60-2712-01A-01D-1522-08	2015228	50358117	8770866	92	45639										
TMC4	147798	broad.mit.edu	37	chr19	54664257	54664257	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gcgtccgtaggagttagccaGagccacagtgtacgccatca	12	12	1	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr19:54664257G>C	uc010erf.2	-	14	2149	c.2017C>G	c.(2017-2019)CTG>GTG	p.L673V	LENG1_uc002qdm.2_5'Flank|TMC4_uc002qdn.2_Missense_Mutation_p.L387V|TMC4_uc002qdo.2_Missense_Mutation_p.L667V	NM_001145303	NP_001138775	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 1	673	Helical; (Potential).					integral to membrane				pancreas(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					gagttagccagAGCCACAGTG	0.418													12	94	---	---	---	---	PASS	C	54664257	C	C	54664257	3	2	125	1	0	0	0	0	1	0	0	0	15984	933	33	2	129	2	TMC4	19	54664257	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	4306140	54664257	4464726	93	45640										
FAM113A	64773	broad.mit.edu	37	chr20	2818880	2818880	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	acttatggtagggctcaccaGggggatagccacgcttgggc	15	10	1	0			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr20:2818880G>A	uc002wgz.1	-	6	1336	c.839C>T	c.(838-840)CCT>CTT	p.P280L	FAM113A_uc002whb.1_Missense_Mutation_p.P131L|FAM113A_uc002wha.1_Missense_Mutation_p.P131L|FAM113A_uc010zqa.1_Missense_Mutation_p.P127L|FAM113A_uc002whc.1_Missense_Mutation_p.P229L|VPS16_uc002whe.2_5'Flank|VPS16_uc002whf.2_5'Flank|VPS16_uc002whd.2_5'Flank	NM_022760	NP_073597	Q9H1Q7	F113A_HUMAN	hypothetical protein LOC64773	280							hydrolase activity|protein binding			ovary(2)	2						GGGCTCACCAGGGGGATAGCC	0.617													24	157	---	---	---	---	PASS	A	2818880	A	A	2818880	3	1	125	1	0	0	0	0	1	0	0	0	5401	1000	35	3	537	3	FAM113A	20	2818880	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08		2818880	60206640	94	45641										
CDC25B	994	broad.mit.edu	37	chr20	3782409	3782409	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	aggcatggagagtctcattaGtgccccactggtcaagacct	11	11	2	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr20:3782409G>C	uc002wjn.2	+	9	1659	c.881G>C	c.(880-882)AGT>ACT	p.S294T	CDC25B_uc010zqk.1_Missense_Mutation_p.S230T|CDC25B_uc010zql.1_Missense_Mutation_p.S216T|CDC25B_uc010zqm.1_Intron|CDC25B_uc002wjl.2_Missense_Mutation_p.S182T|CDC25B_uc002wjm.2_Missense_Mutation_p.S182T|CDC25B_uc002wjo.2_Missense_Mutation_p.S280T|CDC25B_uc002wjp.2_Missense_Mutation_p.S253T|CDC25B_uc002wjq.2_Missense_Mutation_p.S94T|CDC25B_uc010gbc.2_5'Flank	NM_021873	NP_068659	P30305	MPIP2_HUMAN	cell division cycle 25B isoform 1	294					cell division|G2/M transition of mitotic cell cycle|mitosis|positive regulation of cell proliferation	cytosol|microtubule organizing center|nucleoplasm	protein binding|protein tyrosine phosphatase activity			lung(3)|ovary(2)	5						AGTCTCATTAGTGCCCCACTG	0.572													15	50	---	---	---	---	PASS	C	3782409	C	C	3782409	3	2	125	1	0	0	0	0	1	0	0	0	3063	1029	36	4	915	4	CDC25B	20	3782409	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08	963529	3782409	59243111	95	45642										
C20orf12	55184	broad.mit.edu	37	chr20	18374420	18374420	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ctttatccttttgattttttCaatagtatctgaggtactct	5	7	3	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr20:18374420C>T	uc010zsa.1	-	17	2010	c.1801G>A	c.(1801-1803)GAA>AAA	p.E601K	C20orf12_uc010zrz.1_Missense_Mutation_p.E120K|C20orf12_uc002wqp.3_Missense_Mutation_p.E292K|C20orf12_uc002wqr.3_RNA|C20orf12_uc002wqs.3_Missense_Mutation_p.E468K|C20orf12_uc002wqq.3_Missense_Mutation_p.E582K	NM_001099407	NP_001092877	Q9NVP4	CT012_HUMAN	hypothetical protein LOC55184	409						intracellular	zinc ion binding			ovary(1)	1		Myeloproliferative disorder(85;0.0122)				TTGATTTTTTCAATAGTATCT	0.388													30	62	---	---	---	---	PASS	T	18374420	T	T	18374420	3	4	125	1	0	0	0	0	1	0	0	0	2085	835	29	2	534	2	C20orf12	20	18374420	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	14592011	18374420	44651100	96	45643										
HUNK	30811	broad.mit.edu	37	chr21	33296887	33296887	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	atgatccgccaccccaatatCactcagctccttgatatttt	4	14	2	2			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr21:33296887C>T	uc002yph.2	+	2	729	c.369C>T	c.(367-369)ATC>ATT	p.I123I		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	123	Protein kinase.				multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						ACCCCAATATCACTCAGCTCC	0.478													16	79	---	---	---	---	PASS	T	33296887	T	T	33296887	2	4	125	1	0	0	0	0	0	0	0	1	7458	816	29	2		2	HUNK	21	33296887	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08		33296887	14833008	97	45644										
SYNJ1	8867	broad.mit.edu	37	chr21	34003386	34003386	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	actggagggctggtgccgggCgggagcagagggacaggagg	23	7	0	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr21:34003386C>A	uc002yqh.2	-	32	4758	c.4758G>T	c.(4756-4758)CCG>CCT	p.P1586P	SYNJ1_uc011ads.1_3'UTR|SYNJ1_uc002yqf.2_3'UTR|SYNJ1_uc002yqg.2_Silent_p.P1500P|SYNJ1_uc002yqi.2_3'UTR|SYNJ1_uc002yqe.3_Silent_p.P172P	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	1547	Pro-rich.						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						TGGTGCCGGGCGGGAGCAGAG	0.507													27	93	---	---	---	---	PASS	A	34003386	A	A	34003386	2	1	125	1	0	0	0	0	0	0	0	1	15449	755	27	1		1	SYNJ1	21	34003386	Silent	SNP	C	TCGA-60-2712-01A-01D-1522-08	706499	34003386	14126509	98	45645										
AIRE	326	broad.mit.edu	37	chr21	45706878	45706878	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	cagatgtggacctcagccagCcccggaaggggaggaagccc	15	13	1	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr21:45706878C>A	uc002zei.2	+	3	452	c.325C>A	c.(325-327)CCC>ACC	p.P109T		NM_000383	NP_000374	O43918	AIRE_HUMAN	autoimmune regulator isoform 1	109					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	chromatin binding|histone binding|transcription regulatory region DNA binding|translation regulator activity|zinc ion binding			skin(1)	1				Colorectal(79;0.0806)		CCTCAGCCAGCCCCGGAAGGG	0.667									Autoimmune_PolyEndocrinopathy_Candidiasis_Ectodermal_Dystrophy				4	61	---	---	---	---	PASS	A	45706878	A	A	45706878	3	1	125	1	0	0	0	0	1	0	0	0	437	739	26	3	335	3	AIRE	21	45706878	Missense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08	11703492	45706878	2423017	99	45646										
DEPDC5	9681	broad.mit.edu	37	chr22	32297747	32297747	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	ggctttgaacccgaaacgtaCtgggatcgaatgcacctctt	10	11	1	1			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chr22:32297747C>G	uc003als.2	+	40	4444	c.4302C>G	c.(4300-4302)TAC>TAG	p.Y1434*	DEPDC5_uc011als.1_Nonsense_Mutation_p.Y1365*|DEPDC5_uc011alu.1_Nonsense_Mutation_p.Y1465*|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Nonsense_Mutation_p.Y1456*|DEPDC5_uc003alu.2_Nonsense_Mutation_p.Y883*|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Nonsense_Mutation_p.Y732*|DEPDC5_uc011alx.1_Nonsense_Mutation_p.Y282*|DEPDC5_uc010gwk.2_Nonsense_Mutation_p.Y460*|DEPDC5_uc011aly.1_Nonsense_Mutation_p.Y282*	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1434					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						CCGAAACGTACTGGGATCGAA	0.428													8	38	---	---	---	---	PASS	G	32297747	G	G	32297747	4	3	125	1	0	0	0	0	0	1	0	0	4442	576	20	4	4544	4	DEPDC5	22	32297747	Nonsense_Mutation	SNP	C	TCGA-60-2712-01A-01D-1522-08		32297747	19006819	100	45647										
DDX53	168400	broad.mit.edu	37	chrX	23019367	23019367	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.15	15	0.0291240249330445	1.80079037183402	2.1384385665529	1.66902522267543	0.155613477924309	0.491849742725048	7	gaagattttattagatgtgcGcccagaccgacagactgtta	10	8	0	4			TCGA-60-2712-01A-01D-1522-08	TCGA-60-2712-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	6662dd1b-3e4f-4b7a-b603-cfa7fd92fc30	43753f7f-fa3a-4a0f-890e-919b92ff4e6f	g.chrX:23019367G>A	uc004daj.2	+	1	1281	c.1193G>A	c.(1192-1194)CGC>CAC	p.R398H		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	398	Helicase ATP-binding.					nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						TTAGATGTGCGCCCAGACCGA	0.393													12	667	---	---	---	---	PASS	A	23019367	A	A	23019367	3	1	125	1	0	0	0	0	1	0	0	0	4371	1087	38	1	1195	1	DDX53	23	23019367	Missense_Mutation	SNP	G	TCGA-60-2712-01A-01D-1522-08		23019367	132251193	101	45648										
LOC649330	649330	broad.mit.edu	37	chr1	12907844	12907844	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agccgtacatctccgctgctGatcgtttcacacctgcgttt	8	14	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:12907844G>T	uc009vno.2	-	1	394	c.299C>A	c.(298-300)TCA>TAA	p.S100*	HNRNPCL1_uc010obf.1_Nonsense_Mutation_p.S100*	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	100							nucleic acid binding|nucleotide binding				0						CTCCGCTGCTGATCGTTTCAC	0.488													17	107	---	---	---	---	PASS	T	12907844	T	T	12907844	4	4	126	1	0	0	0	0	0	1	0	0	8885	1294	45	2	586	2	LOC649330	1	12907844	Nonsense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08		12907844	236342777	1	45649										
NBPF1	55672	broad.mit.edu	37	chr1	16913756	16913756	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcttcagccttctgcacctcCctgatgagccaggtgggaca	10	14	3	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:16913756C>A	uc009vos.1	-	11	1455	c.567G>T	c.(565-567)AGG>AGT	p.R189S	NBPF1_uc009vot.1_5'UTR|NBPF1_uc001ayz.1_5'UTR|NBPF1_uc010oce.1_Intron	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	189	NBPF 1.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TCTGCACCTCCCTGATGAGCC	0.522													64	474	---	---	---	---	PASS	A	16913756	A	A	16913756	3	1	126	1	0	0	0	0	1	0	0	0	10192	637	22	3	2933	3	NBPF1	1	16913756	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	4005912	16913756	232336865	2	45650										
PAX7	5081	broad.mit.edu	37	chr1	19018401	19018401	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctacccagacatatacacccGcgaggagctggcgcagagga	12	13	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:19018401G>T	uc001bay.2	+	5	1338	c.740G>T	c.(739-741)CGC>CTC	p.R247L	PAX7_uc001baz.2_Missense_Mutation_p.R245L|PAX7_uc010oct.1_Missense_Mutation_p.R247L	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	247	Homeobox.				anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		ATATACACCCGCGAGGAGCTG	0.607			T	FOXO1A	alveolar rhabdomyosarcoma								14	20	---	---	---	---	PASS	T	19018401	T	T	19018401	3	4	126	1	0	0	0	0	1	0	0	0	11484	1087	38	1	758	1	PAX7	1	19018401	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	2104645	19018401	230232220	3	45651										
RRAGC	64121	broad.mit.edu	37	chr1	39330343	39330343	+	Translation_Start_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tttcaaactgagaagaatccTattcagcacgcttctcctcc	5	13	3	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:39330343T>C	uc001ccr.2	-	6	954	c.-31A>G	c.(-33--29)ATAGG>ATGGG		MYCBP_uc001ccs.2_Nonstop_Mutation_p.*104W	NM_022157	NP_071440	Q9HB90	RRAGC_HUMAN	Ras-related GTP binding C						apoptosis|cell growth|cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade|RNA splicing|small GTPase mediated signal transduction|transcription, DNA-dependent	lysosome|nucleus	GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein heterodimerization activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)				AGAAGAATCCTATTCAGCACG	0.338													36	527	---	---	---	---	PASS	C	39330343	C	C	39330343	1	2	126	1	0	0	0	0	0	0	0	0	13674	1535	53	5		5	RRAGC	1	39330343	Translation_Start_Site	SNP	T	TCGA-60-2713-01A-01D-1522-08	20311942	39330343	209920278	4	45652										
KDM4A	9682	broad.mit.edu	37	chr1	44137484	44137484	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	atggcagggtcactgtgggaGagccatgcacgaggaagaaa	16	7	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:44137484G>C	uc001cjx.2	+	11	1838	c.1672G>C	c.(1672-1674)GAG>CAG	p.E558Q	KDM4A_uc010oki.1_Intron	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	558					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1						CACTGTGGGAGAGCCATGCAC	0.592													63	238	---	---	---	---	PASS	C	44137484	C	C	44137484	3	2	126	1	0	0	0	0	1	0	0	0	8128	943	33	2	1710	2	KDM4A	1	44137484	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	4807141	44137484	205113137	5	45653										
CYP4Z1	199974	broad.mit.edu	37	chr1	47564825	47564825	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gctgaagtgaaaacgttcatGtttgcaggacatgacaccac	10	9	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:47564825G>A	uc001cqu.1	+	8	939	c.936G>A	c.(934-936)ATG>ATA	p.M312I		NM_178134	NP_835235	Q86W10	CP4Z1_HUMAN	cytochrome P450 4Z1	312	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			skin(1)	1						AAACGTTCATGTTTGCAGGAC	0.448													79	221	---	---	---	---	PASS	A	47564825	A	A	47564825	3	1	126	1	0	0	0	0	1	0	0	0	4194	1377	48	3	966	3	CYP4Z1	1	47564825	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	3427341	47564825	201685796	6	45654										
SGIP1	84251	broad.mit.edu	37	chr1	67185013	67185013	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cagccccctaaccatgggagCtcaggacactctccctgttg	9	16	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:67185013C>G	uc001dcr.2	+	19	1884	c.1667C>G	c.(1666-1668)GCT>GGT	p.A556G	SGIP1_uc010opd.1_Missense_Mutation_p.A156G|SGIP1_uc001dcs.2_Missense_Mutation_p.A156G|SGIP1_uc001dct.2_Missense_Mutation_p.A158G|SGIP1_uc009wat.2_Missense_Mutation_p.A350G|SGIP1_uc001dcu.2_Missense_Mutation_p.A61G	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	556					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						ACCATGGGAGCTCAGGACACT	0.423													25	52	---	---	---	---	PASS	G	67185013	G	G	67185013	3	3	126	1	0	0	0	0	1	0	0	0	14206	797	28	4	1741	4	SGIP1	1	67185013	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	19620188	67185013	182065608	7	45655										
TCTEX1D1	200132	broad.mit.edu	37	chr1	67220352	67220352	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tccataggttatgatgatgtCagacaatgctaaaggcagag	11	6	1	4			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:67220352C>G	uc001dcv.2	+	2	142	c.11C>G	c.(10-12)TCA>TGA	p.S4*	TCTEX1D1_uc009wau.2_RNA|TCTEX1D1_uc009wav.2_RNA	NM_152665	NP_689878	Q8N7M0	TC1D1_HUMAN	Tctex1 domain containing 1	4											0						ATGATGATGTCAGACAATGCT	0.368													35	72	---	---	---	---	PASS	G	67220352	G	G	67220352	4	3	126	1	0	0	0	0	0	1	0	0	15716	838	29	2	13	2	TCTEX1D1	1	67220352	Nonsense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	35339	67220352	182030269	8	45656										
TYW3	127253	broad.mit.edu	37	chr1	75229610	75229610	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cctacagcatgctttggaaaGggaaacgatgactaacttac	9	9	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:75229610G>A	uc001dgn.2	+	6	682	c.593G>A	c.(592-594)AGG>AAG	p.R198K	TYW3_uc010oqw.1_Missense_Mutation_p.R165K|TYW3_uc010oqx.1_Missense_Mutation_p.R114K|TYW3_uc010oqy.1_RNA	NM_138467	NP_612476	Q6IPR3	TYW3_HUMAN	tRNA-yW synthesizing protein 3 homolog isoform	198					tRNA processing		methyltransferase activity			ovary(2)	2						GCTTTGGAAAGGGAAACGATG	0.348													46	110	---	---	---	---	PASS	A	75229610	A	A	75229610	3	1	126	1	0	0	0	0	1	0	0	0	16817	1000	35	3	615	3	TYW3	1	75229610	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	8009258	75229610	174021011	9	45657										
ASB17	127247	broad.mit.edu	37	chr1	76384752	76384752	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgatggttagtctgcaaagaTgtaatagttcacatggatct	10	5	3	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:76384752T>G	uc001dhe.1	-	3	913	c.773A>C	c.(772-774)CAT>CCT	p.H258P	ASB17_uc001dhf.1_RNA	NM_080868	NP_543144	Q8WXJ9	ASB17_HUMAN	ankyrin repeat and SOCS box-containing 17	258	SOCS box.				intracellular signal transduction					ovary(1)	1						TCTGCAAAGATGTAATAGTTC	0.348													40	103	---	---	---	---	PASS	G	76384752	G	G	76384752	3	3	126	1	0	0	0	0	1	0	0	0	1021	1464	51	5	118	5	ASB17	1	76384752	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	1155142	76384752	172865869	10	45658										
CLCA4	22802	broad.mit.edu	37	chr1	87041018	87041018	+	Missense_Mutation	SNP	G	T	T													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tctgttgaaacttttaggtgGgcacttgggcatacaatctt							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:87041018G>T	uc009wcs.2	+	11	1731	c.1687G>T	c.(1687-1689)GGC>TGC	p.G563C	CLCA4_uc009wct.2_Missense_Mutation_p.G326C|CLCA4_uc009wcu.2_Missense_Mutation_p.G383C	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	563						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		CTTTTAGGTGGGCACTTGGGC	0.353													34	80	---	---	---	---	PASS	T	87041018	T	T	87041018	3	4	126	1	0	0	0	0	1	0	0	0	3459	1232	43	3	1729	3	CLCA4	1	87041018	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	10656266	87041018	162209603	11	45659	844	2								
CLCA4	22802	broad.mit.edu	37	chr1	87041019	87041019	+	Missense_Mutation	SNP	G	T	T													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgttgaaacttttaggtggGcacttgggcatacaatcttc							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:87041019G>T	uc009wcs.2	+	11	1732	c.1688G>T	c.(1687-1689)GGC>GTC	p.G563V	CLCA4_uc009wct.2_Missense_Mutation_p.G326V|CLCA4_uc009wcu.2_Missense_Mutation_p.G383V	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	563						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		TTTTAGGTGGGCACTTGGGCA	0.353													33	79	---	---	---	---	PASS	T	87041019	T	T	87041019	3	4	126	1	0	0	0	0	1	0	0	0	3459	1203	42	3	1730	3	CLCA4	1	87041019	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	1	87041019	162209602	12	45660	844	2								
COL11A1	1301	broad.mit.edu	37	chr1	103548429	103548429	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctctgtaagcagtatctgagCctttagaattctttctgttt	7	8	4	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:103548429C>A	uc001dul.2	-	2	524	c.206G>T	c.(205-207)GGC>GTC	p.G69V	COL11A1_uc001dum.2_Missense_Mutation_p.G69V|COL11A1_uc001dun.2_Missense_Mutation_p.G69V|COL11A1_uc009weh.2_Missense_Mutation_p.G69V	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	69	TSP N-terminal.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		AGTATCTGAGCCTTTAGAATT	0.348													57	184	---	---	---	---	PASS	A	103548429	A	A	103548429	3	1	126	1	0	0	0	0	1	0	0	0	3667	739	26	3	5635	3	COL11A1	1	103548429	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	16507410	103548429	145702192	13	45661										
AMY2B	280	broad.mit.edu	37	chr1	104114855	104114855	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aagatgaatttagaaacatgGtgactagatgtaacaatgtt	9	3	0	5			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:104114855G>T	uc001duq.2	+	4	908	c.292G>T	c.(292-294)GTG>TTG	p.V98L	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.V98L	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	98					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		TAGAAACATGGTGACTAGATG	0.358													72	198	---	---	---	---	PASS	T	104114855	T	T	104114855	3	4	126	1	0	0	0	0	1	0	0	0	595	1261	44	3	298	3	AMY2B	1	104114855	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	566426	104114855	145135766	14	45662										
HIPK1	204851	broad.mit.edu	37	chr1	114499410	114499410	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tttgtgacaatgactcacctTttggattttccacatagcaa	6	9	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:114499410T>G	uc001eem.2	+	6	1730	c.1569T>G	c.(1567-1569)CTT>CTG	p.L523L	HIPK1_uc001eel.2_Silent_p.L523L|HIPK1_uc001een.2_Silent_p.L523L|HIPK1_uc001eeo.2_Silent_p.L149L|HIPK1_uc001eep.2_Silent_p.L129L	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	523					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGACTCACCTTTTGGATTTTC	0.368													13	183	---	---	---	---	PASS	G	114499410	G	G	114499410	2	3	126	1	0	0	0	0	0	0	0	1	7116	1828	64	5		5	HIPK1	1	114499410	Silent	SNP	T	TCGA-60-2713-01A-01D-1522-08	10384555	114499410	134751211	15	45663										
NOTCH2	4853	broad.mit.edu	37	chr1	120512258	120512258	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cagtcatctccactccagccGttgacacatacacagccata	5	16	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:120512258G>A	uc001eik.2	-	6	1240	c.984C>T	c.(982-984)AAC>AAT	p.N328N	NOTCH2_uc001eil.2_Silent_p.N328N|NOTCH2_uc001eim.3_Silent_p.N245N	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	328	Extracellular (Potential).|EGF-like 8; calcium-binding (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		CACTCCAGCCGTTGACACATA	0.557			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				23	44	---	---	---	---	PASS	A	120512258	A	A	120512258	2	1	126	1	0	0	0	0	0	0	0	1	10548	1136	40	1		1	NOTCH2	1	120512258	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	6012848	120512258	128738363	16	45664										
HIST2H3D	653604	broad.mit.edu	37	chr1	149785117	149785117	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	acggtgccgggccggtagcgGtgcggcttcttcaccccgcc	15	16	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:149785117G>C	uc010pbl.1	-	1	120	c.120C>G	c.(118-120)CAC>CAG	p.H40Q	HIST2H2BF_uc010pbj.1_5'Flank|HIST2H2BF_uc010pbk.1_5'Flank|HIST2H2BF_uc001esr.2_5'Flank	NM_001123375	NP_001116847	Q71DI3	H32_HUMAN	histone cluster 2, H3d	40					blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding|protein binding				0						GCCGGTAGCGGTGCGGCTTCT	0.711													6	31	---	---	---	---	PASS	C	149785117	C	C	149785117	3	2	126	1	0	0	0	0	1	0	0	0	7181	1252	44	4	292	4	HIST2H3D	1	149785117	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	29272859	149785117	99465504	17	45665										
MEF2D	4209	broad.mit.edu	37	chr1	156452388	156452388	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcacatagcacgctcagctcAtacgccttcttcatcaggcc	6	16	6	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:156452388A>G	uc001fpc.2	-	3	489	c.99T>C	c.(97-99)TAT>TAC	p.Y33Y	MEF2D_uc001fpb.2_Silent_p.Y33Y|MEF2D_uc001fpd.2_Silent_p.Y33Y|MEF2D_uc001fpe.1_Silent_p.Y33Y|MEF2D_uc009wsa.2_RNA	NM_005920	NP_005911	Q14814	MEF2D_HUMAN	myocyte enhancer factor 2D	33	MADS-box.				apoptosis|muscle organ development|nervous system development|positive regulation of transcription from RNA polymerase II promoter	nucleus	activating transcription factor binding|histone deacetylase binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CGCTCAGCTCATACGCCTTCT	0.547													53	182	---	---	---	---	PASS	G	156452388	G	G	156452388	2	3	126	1	0	0	0	0	0	0	0	1	9458	224	8	5		5	MEF2D	1	156452388	Silent	SNP	A	TCGA-60-2713-01A-01D-1522-08	6667271	156452388	92798233	18	45666										
FCRL5	83416	broad.mit.edu	37	chr1	157514060	157514060	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	accaacacttactctgcaccTgtatccaggatctcgggctg	8	14	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:157514060T>G	uc001fqu.2	-	5	994	c.836A>C	c.(835-837)CAG>CCG	p.Q279P	FCRL5_uc009wsm.2_Missense_Mutation_p.Q279P|FCRL5_uc010phv.1_Missense_Mutation_p.Q279P|FCRL5_uc010phw.1_Missense_Mutation_p.Q194P|FCRL5_uc001fqv.1_Missense_Mutation_p.Q279P|FCRL5_uc010phx.1_Missense_Mutation_p.Q30P	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	279	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				ACTCTGCACCTGTATCCAGGA	0.507													88	282	---	---	---	---	PASS	G	157514060	G	G	157514060	3	3	126	1	0	0	0	0	1	0	0	0	5798	1580	55	5	2149	5	FCRL5	1	157514060	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	1061672	157514060	91736561	19	45667										
USP21	27005	broad.mit.edu	37	chr1	161133756	161133756	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gaggttttttgtgacctgtcCctgcccatccccaaggtggg	12	12	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:161133756C>T	uc010pke.1	+	9	1580	c.1203C>T	c.(1201-1203)TCC>TCT	p.S401S	USP21_uc010pkc.1_Silent_p.S401S|USP21_uc010pkd.1_Silent_p.S401S|USP21_uc010pkf.1_Silent_p.S401S|PPOX_uc001fyj.2_5'Flank|PPOX_uc001fyn.2_5'Flank|PPOX_uc001fyg.2_5'Flank|PPOX_uc001fyl.2_5'Flank|PPOX_uc001fym.2_5'Flank|PPOX_uc001fyk.2_5'Flank|PPOX_uc001fyh.2_5'Flank|PPOX_uc010pkg.1_5'Flank|PPOX_uc009wuc.1_5'Flank|PPOX_uc010pkh.1_5'Flank|PPOX_uc001fyi.2_5'Flank	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	401					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GTGACCTGTCCCTGCCCATCC	0.592													62	92	---	---	---	---	PASS	T	161133756	T	T	161133756	2	4	126	1	0	0	0	0	0	0	0	1	17050	610	22	3		3	USP21	1	161133756	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	3619696	161133756	88116865	20	45668										
DUSP27	92235	broad.mit.edu	37	chr1	167097643	167097643	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gaggaagttcacccagagctTtatgaggtctgaagaagagg	14	6	2	5			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:167097643T>C	uc001geb.1	+	5	3275	c.3275T>C	c.(3274-3276)TTT>TCT	p.F1092S		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	1092					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						ACCCAGAGCTTTATGAGGTCT	0.517													26	28	---	---	---	---	PASS	C	167097643	C	C	167097643	3	2	126	1	0	0	0	0	1	0	0	0	4824	1841	64	5	3293	5	DUSP27	1	167097643	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	5963887	167097643	82152978	21	45669										
SERPINC1	462	broad.mit.edu	37	chr1	173878825	173878825	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	catctcctccaattcatccaGccactcttgcagcacctctg	4	18	4	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:173878825G>A	uc001gjt.2	-	5	1137	c.1018C>T	c.(1018-1020)CTG>TTG	p.L340L		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	340					blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	AATTCATCCAGCCACTCTTGC	0.552													72	151	---	---	---	---	PASS	A	173878825	A	A	173878825	2	1	126	1	0	0	0	0	0	0	0	1	14109	962	34	3		3	SERPINC1	1	173878825	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	6781182	173878825	75371796	22	45670										
TNN	63923	broad.mit.edu	37	chr1	175049472	175049472	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agcacagctatgagattcttGgtttgctgcctggaaccaag	11	9	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:175049472G>T	uc001gkl.1	+	4	1071	c.958G>T	c.(958-960)GGT>TGT	p.G320C	TNN_uc010pmx.1_Missense_Mutation_p.G320C	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	320	Fibronectin type-III 1.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		TGAGATTCTTGGTTTGCTGCC	0.537													31	116	---	---	---	---	PASS	T	175049472	T	T	175049472	3	4	126	1	0	0	0	0	1	0	0	0	16320	1348	47	3	968	3	TNN	1	175049472	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	1170647	175049472	74201149	23	45671										
ASTN1	460	broad.mit.edu	37	chr1	176998800	176998800	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cctcctgctccttgaaggatCcgtgtaaaaggtcagctggg	12	11	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:176998800C>T	uc001glc.2	-	5	1302	c.1090G>A	c.(1090-1092)GAT>AAT	p.D364N	ASTN1_uc001glb.1_Missense_Mutation_p.D364N|ASTN1_uc001gld.1_Missense_Mutation_p.D364N|ASTN1_uc009wwx.1_Missense_Mutation_p.D364N|ASTN1_uc001gle.3_RNA|MIR488_hsa-mir-488|MI0003123_5'Flank	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	364					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						CTTGAAGGATCCGTGTAAAAG	0.547													18	59	---	---	---	---	PASS	T	176998800	T	T	176998800	3	4	126	1	0	0	0	0	1	0	0	0	1064	855	30	2	2874	2	ASTN1	1	176998800	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	1949328	176998800	72251821	24	45672										
TDRD5	163589	broad.mit.edu	37	chr1	179609057	179609057	+	Missense_Mutation	SNP	G	A	A													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gggacatctctgttgtgtaaGgatttctgaggataagtggt							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:179609057G>A	uc001gnf.1	+	10	1854	c.1604G>A	c.(1603-1605)AGG>AAG	p.R535K	TDRD5_uc010pnp.1_Missense_Mutation_p.R535K|TDRD5_uc001gnh.1_Missense_Mutation_p.R90K	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	535	Tudor.				DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						TGTTGTGTAAGGATTTCTGAG	0.413													85	303	---	---	---	---	PASS	A	179609057	A	A	179609057	3	1	126	1	0	0	0	0	1	0	0	0	15730	1000	35	3	1638	3	TDRD5	1	179609057	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	2610257	179609057	69641564	25	45673	845	2								
TDRD5	163589	broad.mit.edu	37	chr1	179609058	179609058	+	Missense_Mutation	SNP	G	T	T													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ggacatctctgttgtgtaagGatttctgaggataagtggtg							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:179609058G>T	uc001gnf.1	+	10	1855	c.1605G>T	c.(1603-1605)AGG>AGT	p.R535S	TDRD5_uc010pnp.1_Missense_Mutation_p.R535S|TDRD5_uc001gnh.1_Missense_Mutation_p.R90S	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	535	Tudor.				DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						GTTGTGTAAGGATTTCTGAGG	0.418													85	302	---	---	---	---	PASS	T	179609058	T	T	179609058	3	4	126	1	0	0	0	0	1	0	0	0	15730	1165	41	2	1639	2	TDRD5	1	179609058	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	1	179609058	69641563	26	45674	845	2								
CACNA1E	777	broad.mit.edu	37	chr1	181708377	181708377	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ggtcgttggcgcattggtggCctttgctctggcgtaagtga	16	8	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:181708377C>T	uc001gow.2	+	25	3872	c.3707C>T	c.(3706-3708)GCC>GTC	p.A1236V	CACNA1E_uc009wxs.2_Missense_Mutation_p.A1124V|CACNA1E_uc001gox.1_Missense_Mutation_p.A462V|CACNA1E_uc009wxt.2_Missense_Mutation_p.A462V	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1236	III.|Helical; Name=S3 of repeat III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GCATTGGTGGCCTTTGCTCTG	0.498													121	156	---	---	---	---	PASS	T	181708377	T	T	181708377	3	4	126	1	0	0	0	0	1	0	0	0	2542	739	26	3	3805	3	CACNA1E	1	181708377	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	2099319	181708377	67542244	27	45675										
LAMC2	3918	broad.mit.edu	37	chr1	183204853	183204853	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ggacggtgctgtggtgcaagGgcttgtggaaaagtacgttc	17	6	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:183204853G>T	uc001gqa.2	+	16	2758	c.2444G>T	c.(2443-2445)GGG>GTG	p.G815V	LAMC2_uc001gpz.3_Missense_Mutation_p.G815V|LAMC2_uc010poa.1_Missense_Mutation_p.G515V	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	815	Potential.|Domain II and I.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						GTGGTGCAAGGGCTTGTGGAA	0.562											OREG0014042	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	57	---	---	---	---	PASS	T	183204853	T	T	183204853	3	4	126	1	0	0	0	0	1	0	0	0	8615	1232	43	3	2506	3	LAMC2	1	183204853	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	1496476	183204853	66045768	28	45676										
TPR	7175	broad.mit.edu	37	chr1	186303599	186303599	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gccatagctgcagctgtcacTttacttggagtagacacaac	9	11	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:186303599T>C	uc001grv.2	-	36	5337	c.5040A>G	c.(5038-5040)AAA>AAG	p.K1680K		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1680					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)		CAGCTGTCACTTTACTTGGAG	0.448			T	NTRK1	papillary thyroid								34	99	---	---	---	---	PASS	C	186303599	C	C	186303599	2	2	126	1	0	0	0	0	0	0	0	1	16413	1606	56	5		5	TPR	1	186303599	Silent	SNP	T	TCGA-60-2713-01A-01D-1522-08	3098746	186303599	62947022	29	45677										
PLA2G4A	5321	broad.mit.edu	37	chr1	186957570	186957570	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	acagaatccatctcgttgctCtgtttcccttagtaatgttg	7	10	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:186957570C>G	uc001gsc.2	+	18	2385	c.2180C>G	c.(2179-2181)TCT>TGT	p.S727C	PLA2G4A_uc010pos.1_Missense_Mutation_p.S667C	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	727	PLA2c.				phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	TCTCGTTGCTCTGTTTCCCTT	0.383													32	122	---	---	---	---	PASS	G	186957570	G	G	186957570	3	3	126	1	0	0	0	0	1	0	0	0	12001	913	32	2	2246	2	PLA2G4A	1	186957570	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	653971	186957570	62293051	30	45678										
ASPM	259266	broad.mit.edu	37	chr1	197086919	197086919	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	attagtccaggatactatacCtgaataagtgatgctgcttt	8	7	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:197086919C>T	uc001gtu.2	-	17	4322	c.4065G>A	c.(4063-4065)CAG>CAA	p.Q1355Q	ASPM_uc001gtv.2_Silent_p.Q1355Q|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1355	IQ 1.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GATACTATACCTGAATAAGTG	0.269													24	126	---	---	---	---	PASS	T	197086919	T	T	197086919	2	4	126	1	0	0	0	0	0	0	0	1	1056	695	24	3		3	ASPM	1	197086919	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	10129349	197086919	52163702	31	45679										
MTR	4548	broad.mit.edu	37	chr1	236976069	236976069	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cttgttgaagcataccaagaGcaggccaaaggacttctgga	11	9	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:236976069G>A	uc001hyi.3	+	6	957	c.534G>A	c.(532-534)GAG>GAA	p.E178E	MTR_uc010pxv.1_RNA|MTR_uc010pxw.1_5'UTR|MTR_uc010pxx.1_Silent_p.E178E|MTR_uc010pxy.1_Silent_p.E178E|MTR_uc009xgj.1_Missense_Mutation_p.S9N	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	178	Hcy-binding.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	CATACCAAGAGCAGGCCAAAG	0.428													50	134	---	---	---	---	PASS	A	236976069	A	A	236976069	2	1	126	1	0	0	0	0	0	0	0	1	9958	962	34	3		3	MTR	1	236976069	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	39889150	236976069	12274552	32	45680										
OR11L1	391189	broad.mit.edu	37	chr1	248004991	248004991	+	Nonsense_Mutation	SNP	C	A	A													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ggtggacgtgtaccagacctCcagaaaggagagatgctgga							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:248004991C>A	uc001idn.1	-	1	208	c.208G>T	c.(208-210)GAG>TAG	p.E70*		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	70	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TACCAGACCTCCAGAAAGGAG	0.562													23	26	---	---	---	---	PASS	A	248004991	A	A	248004991	4	1	126	1	0	0	0	0	0	1	0	0	10930	864	30	2	764	2	OR11L1	1	248004991	Nonsense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	11028922	248004991	1245630	33	45681	846	2								
OR11L1	391189	broad.mit.edu	37	chr1	248004992	248004992	+	Silent	SNP	C	A	A													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtggacgtgtaccagacctcCagaaaggagagatgctggag							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:248004992C>A	uc001idn.1	-	1	207	c.207G>T	c.(205-207)CTG>CTT	p.L69L		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			ACCAGACCTCCAGAAAGGAGA	0.567													23	25	---	---	---	---	PASS	A	248004992	A	A	248004992	2	1	126	1	0	0	0	0	0	0	0	1	10930	581	21	3		3	OR11L1	1	248004992	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	1	248004992	1245629	34	45682	846	2								
OR2T33	391195	broad.mit.edu	37	chr1	248436163	248436163	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttgacattagatcatcttgaCctgtgggcctcattttgctg	9	9	3	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:248436163C>A	uc010pzi.1	-	1	954	c.954G>T	c.(952-954)AGG>AGT	p.R318S		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	318	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ATCATCTTGACCTGTGGGCCT	0.403													6	256	---	---	---	---	PASS	A	248436163	A	A	248436163	3	1	126	1	0	0	0	0	1	0	0	0	11024	506	18	3	11	3	OR2T33	1	248436163	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	431171	248436163	814458	35	45683										
OR2T12	127064	broad.mit.edu	37	chr1	248458341	248458342	+	Frame_Shift_Del	DEL	GG	-	-													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	caagccaaacgcaccaacacGggggcctcgcagaagaagtg							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:248458341_248458342delGG	uc010pzj.1	-	1	539_540	c.539_540delCC	c.(538-540)CCCfs	p.P180fs		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			GCACCAACACGGGGGCCTCGCA	0.559													93	53	---	---	---	---		-	248458342	-	-	248458341	7	5	126	1	0	1	0	1	0	0	0	0	11019	1103	39	0	425	0	OR2T12	1	248458341	Frame_Shift_Del	DEL	GG	TCGA-60-2713-01A-01D-1522-08	22178	248458341	792280	36	45684										
OR2T11	127077	broad.mit.edu	37	chr1	248790367	248790367	+	Frame_Shift_Del	DEL	G	-	-													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	atcactgtaaatacaatcccGgcagcctcactgttcaccag							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr1:248790367delG	uc001ier.1	-	1	63	c.63delC	c.(61-63)GCCfs	p.A21fs		NM_001001964	NP_001001964	Q8NH01	O2T11_HUMAN	olfactory receptor, family 2, subfamily T,	21	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATACAATCCCGGCAGCCTCAC	0.532													83	55	---	---	---	---		-	248790367	-	-	248790367	7	5	126	1	0	1	0	1	0	0	0	0	11018	1103	39	0	891	0	OR2T11	1	248790367	Frame_Shift_Del	DEL	G	TCGA-60-2713-01A-01D-1522-08	332026	248790367	460254	37	45685										
ASAP2	8853	broad.mit.edu	37	chr2	9508556	9508556	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agactttcatttttgcagctCgccaagaatattgggaatgc	9	8	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:9508556C>A	uc002qzh.2	+	16	1804	c.1464C>A	c.(1462-1464)CTC>CTA	p.L488L	ASAP2_uc002qzi.2_Silent_p.L488L	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	488	Arf-GAP.				regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						TTTTGCAGCTCGCCAAGAATA	0.408													23	54	---	---	---	---	PASS	A	9508556	A	A	9508556	2	1	126	1	0	0	0	0	0	0	0	1	1011	871	31	2		2	ASAP2	2	9508556	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08		9508556	233690817	38	45686										
NBAS	51594	broad.mit.edu	37	chr2	15557812	15557812	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	attccgctccatcccaagtcGaataagtgacaatgcacagt	7	12	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:15557812G>C	uc002rcc.1	-	24	2628	c.2602C>G	c.(2602-2604)CGA>GGA	p.R868G	NBAS_uc010exl.1_Intron|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	868										ovary(2)|liver(1)|skin(1)	4						ATCCCAAGTCGAATAAGTGAC	0.378													16	60	---	---	---	---	PASS	C	15557812	C	C	15557812	3	2	126	1	0	0	0	0	1	0	0	0	10186	1066	37	2	4629	2	NBAS	2	15557812	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	6049256	15557812	227641561	39	45687										
KIAA1841	84542	broad.mit.edu	37	chr2	61333770	61333770	+	Missense_Mutation	SNP	G	C	C													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctggagccaaatacaccatgGggtcccaaaactggggagct							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:61333770G>C	uc002saw.3	+	14	1887	c.1584G>C	c.(1582-1584)TGG>TGC	p.W528C	KIAA1841_uc002sax.3_Missense_Mutation_p.W382C|KIAA1841_uc002say.2_Missense_Mutation_p.W528C	NM_001129993	NP_001123465	Q6NSI8	K1841_HUMAN	KIAA1841 protein isoform a	528											0			Epithelial(17;0.193)			ATACACCATGGGGTCCCAAAA	0.368													25	94	---	---	---	---	PASS	C	61333770	C	C	61333770	3	2	126	1	0	0	0	0	1	0	0	0	8261	1241	43	4	1630	4	KIAA1841	2	61333770	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	45775958	61333770	181865603	40	45688	847	2								
KIAA1841	84542	broad.mit.edu	37	chr2	61333771	61333771	+	Missense_Mutation	SNP	G	T	T													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tggagccaaatacaccatggGgtcccaaaactggggagctc							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:61333771G>T	uc002saw.3	+	14	1888	c.1585G>T	c.(1585-1587)GGT>TGT	p.G529C	KIAA1841_uc002sax.3_Missense_Mutation_p.G383C|KIAA1841_uc002say.2_Missense_Mutation_p.G529C	NM_001129993	NP_001123465	Q6NSI8	K1841_HUMAN	KIAA1841 protein isoform a	529											0			Epithelial(17;0.193)			TACACCATGGGGTCCCAAAAC	0.363													24	92	---	---	---	---	PASS	T	61333771	T	T	61333771	3	4	126	1	0	0	0	0	1	0	0	0	8261	1232	43	3	1631	3	KIAA1841	2	61333771	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	1	61333771	181865602	41	45689	847	2								
C2orf86	51057	broad.mit.edu	37	chr2	63631451	63631451	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgccaactagcagaatggcAccacttgggtggcagcttat	11	11	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:63631451A>C	uc002sch.2	-	10	1613	c.1167T>G	c.(1165-1167)GGT>GGG	p.G389G	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Silent_p.G230G|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Silent_p.G197G|C2orf86_uc002sci.1_Silent_p.G365G|C2orf86_uc010fcr.1_Silent_p.G279G	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	389	WD 2.				cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						GCAGAATGGCACCACTTGGGT	0.443													8	199	---	---	---	---	PASS	C	63631451	C	C	63631451	2	2	126	1	0	0	0	0	0	0	0	1	2201	146	6	5		5	C2orf86	2	63631451	Silent	SNP	A	TCGA-60-2713-01A-01D-1522-08	2297680	63631451	179567922	42	45690										
DYSF	8291	broad.mit.edu	37	chr2	71740924	71740924	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	attcctggatcaaagcggagGcccgggggctcccaccaccc	12	16	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:71740924G>C	uc002sie.2	+	6	912	c.536G>C	c.(535-537)GGC>GCC	p.G179A	DYSF_uc010feg.2_Missense_Mutation_p.G210A|DYSF_uc010feh.2_Missense_Mutation_p.G179A|DYSF_uc002sig.3_Missense_Mutation_p.G179A|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.G179A|DYSF_uc010fef.2_Missense_Mutation_p.G210A|DYSF_uc010fei.2_Missense_Mutation_p.G210A|DYSF_uc010fek.2_Missense_Mutation_p.G211A|DYSF_uc010fej.2_Missense_Mutation_p.G180A|DYSF_uc010fel.2_Missense_Mutation_p.G180A|DYSF_uc010feo.2_Missense_Mutation_p.G211A|DYSF_uc010fem.2_Missense_Mutation_p.G180A|DYSF_uc010fen.2_Missense_Mutation_p.G211A|DYSF_uc002sif.2_Missense_Mutation_p.G180A	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	179	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CAAAGCGGAGGCCCGGGGGCT	0.587													21	32	---	---	---	---	PASS	C	71740924	C	C	71740924	3	2	126	1	0	0	0	0	1	0	0	0	4859	1203	42	4	750	4	DYSF	2	71740924	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	8109473	71740924	171458449	43	45691										
DCTN1	1639	broad.mit.edu	37	chr2	74605138	74605138	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cgtgaatacctgggactggcGcacaaagatgccatgccctt	11	12	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:74605138G>A	uc002skx.2	-	2	579	c.268C>T	c.(268-270)CGC>TGC	p.R90C	DCTN1_uc002skw.1_Missense_Mutation_p.R73C|DCTN1_uc010ffd.2_Missense_Mutation_p.R90C|DCTN1_uc002sky.2_Missense_Mutation_p.R73C	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	90	CAP-Gly.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						TGGGACTGGCGCACAAAGATG	0.488													6	58	---	---	---	---	PASS	A	74605138	A	A	74605138	3	1	126	1	0	0	0	0	1	0	0	0	4306	1087	38	1	3704	1	DCTN1	2	74605138	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	2864214	74605138	168594235	44	45692										
C2orf3	6936	broad.mit.edu	37	chr2	75917778	75917778	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aggtaccttcgagattcaatCtcttctaaaatccactgagt	6	10	3	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:75917778C>G	uc002sno.2	-	8	1342	c.1212G>C	c.(1210-1212)GAG>GAC	p.E404D	C2orf3_uc010ffs.2_5'UTR|C2orf3_uc002snn.2_Missense_Mutation_p.E235D|C2orf3_uc010fft.2_Missense_Mutation_p.E79D	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	404					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						GAGATTCAATCTCTTCTAAAA	0.313													9	213	---	---	---	---	PASS	G	75917778	G	G	75917778	3	3	126	1	0	0	0	0	1	0	0	0	2162	912	32	2	1173	2	C2orf3	2	75917778	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	1312640	75917778	167281595	45	45693										
RANBP2	5903	broad.mit.edu	37	chr2	109381112	109381112	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cttcaactgctaagaaatgtGtatcatgccaaaatctaaac	5	9	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:109381112G>C	uc002tem.3	+	20	4243	c.4117G>C	c.(4117-4119)GTA>CTA	p.V1373L		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1373	RanBP2-type 1.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TAAGAAATGTGTATCATGCCA	0.398													64	204	---	---	---	---	PASS	C	109381112	C	C	109381112	3	2	126	1	0	0	0	0	1	0	0	0	13028	1377	48	4	4195	4	RANBP2	2	109381112	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	33463334	109381112	133818261	46	45694										
DPP10	57628	broad.mit.edu	37	chr2	116538554	116538554	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tagtcccatgaatcaacattTcttattattctgtgaaggta	6	7	3	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:116538554T>A	uc002tla.1	+	16	1923	c.1466T>A	c.(1465-1467)TTC>TAC	p.F489Y	DPP10_uc002tlb.1_Missense_Mutation_p.F439Y|DPP10_uc002tlc.1_Missense_Mutation_p.F485Y|DPP10_uc002tle.2_Missense_Mutation_p.F493Y|DPP10_uc002tlf.1_Missense_Mutation_p.F482Y	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	489	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						AATCAACATTTCTTATTATTC	0.289													43	104	---	---	---	---	PASS	A	116538554	A	A	116538554	3	1	126	1	0	0	0	0	1	0	0	0	4727	1783	62	5	1699	5	DPP10	2	116538554	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	7157442	116538554	126660819	47	45695										
SMPD4	55627	broad.mit.edu	37	chr2	130930227	130930227	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gatgaggctcaaggcaaagaAgaatatgtaatactcgaacg	11	6	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:130930227A>G	uc002tqq.1	-	7	1115	c.595T>C	c.(595-597)TTC>CTC	p.F199L	SMPD4_uc002tqp.1_5'UTR|SMPD4_uc010yzy.1_Intron|SMPD4_uc010yzz.1_Intron|SMPD4_uc002tqr.1_Missense_Mutation_p.F199L|SMPD4_uc002tqs.1_Missense_Mutation_p.F67L|SMPD4_uc002tqt.1_Missense_Mutation_p.F77L|SMPD4_uc010zaa.1_Missense_Mutation_p.F86L|SMPD4_uc010zab.1_Missense_Mutation_p.F126L|SMPD4_uc010zac.1_Intron|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	160					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	aaggcaaagaagaatatgtaa	0.458													79	60	---	---	---	---	PASS	G	130930227	G	G	130930227	3	3	126	1	0	0	0	0	1	0	0	0	14807	72	3	5	2061	5	SMPD4	2	130930227	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	14391673	130930227	112269146	48	45696										
ARL5A	26225	broad.mit.edu	37	chr2	152670727	152670727	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ccaggaagaacgaagagattCttggccaccaatatcccaca	8	12	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:152670727C>T	uc002txx.1	-	3	530	c.211G>A	c.(211-213)GAA>AAA	p.E71K	ARL5A_uc010zcc.1_RNA|ARL5A_uc002txv.1_Missense_Mutation_p.E34K|ARL5A_uc002txw.1_Missense_Mutation_p.E34K	NM_012097	NP_036229	Q9Y689	ARL5A_HUMAN	ADP-ribosylation factor-like 5A isoform 1	71					small GTPase mediated signal transduction	intracellular	GTP binding				0				BRCA - Breast invasive adenocarcinoma(221;0.153)		CGAAGAGATTCTTGGCCACCA	0.323													84	93	---	---	---	---	PASS	T	152670727	T	T	152670727	3	4	126	1	0	0	0	0	1	0	0	0	939	922	32	2	344	2	ARL5A	2	152670727	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	21740500	152670727	90528646	49	45697										
SCN2A	6326	broad.mit.edu	37	chr2	166226715	166226715	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgacaaggttttcacttacaTattcattctggaaatgctgc	7	8	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:166226715T>C	uc002udc.2	+	20	4045	c.3755T>C	c.(3754-3756)ATA>ACA	p.I1252T	SCN2A_uc002udd.2_Missense_Mutation_p.I1252T|SCN2A_uc002ude.2_Missense_Mutation_p.I1252T	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1252	Helical; Name=S2 of repeat III; (Potential).|III.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	TTCACTTACATATTCATTCTG	0.368													4	246	---	---	---	---	PASS	C	166226715	C	C	166226715	3	2	126	1	0	0	0	0	1	0	0	0	13916	1406	49	5	3925	5	SCN2A	2	166226715	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	13555988	166226715	76972658	50	45698										
PHOSPHO2	493911	broad.mit.edu	37	chr2	170557600	170557600	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgaactacgtgattcttatcGaaaaggattttggacagaat	9	5	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:170557600G>A	uc002ufg.2	+	4	507	c.119G>A	c.(118-120)CGA>CAA	p.R40Q	KLHL23_uc002ufh.1_Intron	NM_001008489	NP_001008489	Q8TCD6	PHOP2_HUMAN	phosphatase, orphan 2	40							metal ion binding|pyridoxal phosphatase activity			skin(1)	1						GATTCTTATCGAAAAGGATTT	0.363													48	92	---	---	---	---	PASS	A	170557600	A	A	170557600	3	1	126	1	0	0	0	0	1	0	0	0	11857	1058	37	2	121	2	PHOSPHO2	2	170557600	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	4330885	170557600	72641773	51	45699										
TTN	7273	broad.mit.edu	37	chr2	179399137	179399137	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgcttcaaccatgggtgctGgagagcctccgatgctgtca	12	12	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:179399137G>C	uc010zfg.1	-	307	94725	c.94501C>G	c.(94501-94503)CAG>GAG	p.Q31501E	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q25196E|TTN_uc010zfi.1_Missense_Mutation_p.Q25129E|TTN_uc010zfj.1_Missense_Mutation_p.Q25004E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32428							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)			CATGGGTGCTGGAGAGCCTCC	0.433													74	73	---	---	---	---	PASS	C	179399137	C	C	179399137	3	2	126	1	0	0	0	0	1	0	0	0	16732	1357	47	4	5794	4	TTN	2	179399137	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	8841537	179399137	63800236	52	45700										
TTN	7273	broad.mit.edu	37	chr2	179428869	179428869	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttgacaacaagagttgttttCtgaatagtagatttaatttc	7	4	1	4			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:179428869C>G	uc010zfg.1	-	275	74510	c.74286G>C	c.(74284-74286)CAG>CAC	p.Q24762H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q18457H|TTN_uc010zfi.1_Missense_Mutation_p.Q18390H|TTN_uc010zfj.1_Missense_Mutation_p.Q18265H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25689							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.Q18265Q(1)		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)			GAGTTGTTTTCTGAATAGTAG	0.388													9	346	---	---	---	---	PASS	G	179428869	G	G	179428869	3	3	126	1	0	0	0	0	1	0	0	0	16732	912	32	2	26137	2	TTN	2	179428869	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	29732	179428869	63770504	53	45701										
TTN	7273	broad.mit.edu	37	chr2	179435834	179435834	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgcctctggccgtcctggtgGatcacatgggtcacgagcca	13	13	3	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:179435834G>A	uc010zfg.1	-	275	67545	c.67321C>T	c.(67321-67323)CCA>TCA	p.P22441S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P16136S|TTN_uc010zfi.1_Missense_Mutation_p.P16069S|TTN_uc010zfj.1_Missense_Mutation_p.P15944S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23368							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)			CGTCCTGGTGGATCACATGGG	0.463													77	92	---	---	---	---	PASS	A	179435834	A	A	179435834	3	1	126	1	0	0	0	0	1	0	0	0	16732	1174	41	2	33102	2	TTN	2	179435834	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	6965	179435834	63763539	54	45702										
EEF1B2	1933	broad.mit.edu	37	chr2	207026083	207026083	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tttcaagcctgccaggagtgAagaaagctttgggcaaatat	11	7	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:207026083A>T	uc002vbf.1	+	4	375	c.217A>T	c.(217-219)AAG>TAG	p.K73*	NDUFS1_uc010ziq.1_5'Flank|NDUFS1_uc002vbe.2_5'Flank|NDUFS1_uc010zir.1_5'Flank|NDUFS1_uc010zis.1_5'Flank|NDUFS1_uc010zit.1_5'Flank|NDUFS1_uc010ziu.1_5'Flank|EEF1B2_uc002vbg.1_Nonsense_Mutation_p.K73*|EEF1B2_uc002vbh.1_Nonsense_Mutation_p.K73*|SNORD51_uc002vbi.1_5'Flank|SNORA41_uc002vbj.2_5'Flank	NM_001037663	NP_001032752	P24534	EF1B_HUMAN	eukaryotic translation elongation factor 1 beta	73	GST C-terminal.					cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						GCCAGGAGTGAAGAAAGCTTT	0.378													9	133	---	---	---	---	PASS	T	207026083	T	T	207026083	4	4	126	1	0	0	0	0	0	1	0	0	4925	247	9	5	227	5	EEF1B2	2	207026083	Nonsense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	27590249	207026083	36173290	55	45703										
SP140	11262	broad.mit.edu	37	chr2	231101851	231101851	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gaacctgcaggagcaggtttGccctgagcccattttcaggt	12	11	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr2:231101851G>T	uc002vql.2	+	2	228	c.113G>T	c.(112-114)TGC>TTC	p.C38F	SP140_uc010zma.1_RNA|SP140_uc002vqj.2_Missense_Mutation_p.C38F|SP140_uc002vqk.2_Missense_Mutation_p.C38F|SP140_uc002vqn.2_Missense_Mutation_p.C38F|SP140_uc002vqm.2_Missense_Mutation_p.C38F|SP140_uc010fxl.2_Missense_Mutation_p.C38F	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	38	HSR.				defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		GAGCAGGTTTGCCCTGAGCCC	0.488													29	42	---	---	---	---	PASS	T	231101851	T	T	231101851	3	4	126	1	0	0	0	0	1	0	0	0	14962	1319	46	3	119	3	SP140	2	231101851	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	24075768	231101851	12097522	56	45704										
CNTN4	152330	broad.mit.edu	37	chr3	2861191	2861191	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcttgacaactttaaaacaaGaacaagaagcactgtgtctg	7	8	2	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:2861191G>T	uc003bpc.2	+	6	601	c.380G>T	c.(379-381)AGA>ATA	p.R127I	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Missense_Mutation_p.R127I	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	127	Ig-like C2-type 2.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		TTTAAAACAAGAACAAGAAGC	0.413													40	34	---	---	---	---	PASS	T	2861191	T	T	2861191	3	4	126	1	0	0	0	0	1	0	0	0	3643	942	33	2	394	2	CNTN4	3	2861191	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08		2861191	195161239	57	45705										
DCLK3	85443	broad.mit.edu	37	chr3	36756930	36756930	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtcttgccagctgtttcgatCcaggggtgctgaagaacctg	13	10	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:36756930C>A	uc003cgi.2	-	5	2327	c.1836G>T	c.(1834-1836)TGG>TGT	p.W612C		NM_033403	NP_208382	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	612	Protein kinase.					cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			lung(3)|large_intestine(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	9						CTGTTTCGATCCAGGGGTGCT	0.552													43	50	---	---	---	---	PASS	A	36756930	A	A	36756930	3	1	126	1	0	0	0	0	1	0	0	0	4293	856	30	2	114	2	DCLK3	3	36756930	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	33895739	36756930	161265500	58	45706										
LARS2	23395	broad.mit.edu	37	chr3	45530201	45530201	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgaataggaattcccagtaCtagctcagaggacaccatct	8	11	2	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:45530201C>G	uc003cop.1	+	12	1321	c.1136C>G	c.(1135-1137)ACT>AGT	p.T379S	LARS2_uc010hit.1_Missense_Mutation_p.T336S	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial	379					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)	ATTCCCAGTACTAGCTCAGAG	0.468													42	42	---	---	---	---	PASS	G	45530201	G	G	45530201	3	3	126	1	0	0	0	0	1	0	0	0	8635	565	20	4	1174	4	LARS2	3	45530201	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	8773271	45530201	152492229	59	45707										
FAM19A4	151647	broad.mit.edu	37	chr3	68934335	68934335	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aataatcttaccttggggacCtcataagatgtggttctagt	9	7	3	1	rs78056889	byFrequency	TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:68934335C>A	uc003dnh.1	-	2	448	c.5G>T	c.(4-6)AGG>ATG	p.R2M	FAM19A4_uc003dni.1_Missense_Mutation_p.R2M	NM_182522	NP_872328	Q96LR4	F19A4_HUMAN	family with sequence similarity 19 (chemokine	2						extracellular region				skin(2)	2		Lung NSC(201;0.0198)		BRCA - Breast invasive adenocarcinoma(55;1.38e-05)|Epithelial(33;0.000124)|LUSC - Lung squamous cell carcinoma(21;0.0248)|KIRC - Kidney renal clear cell carcinoma(39;0.0729)|Kidney(39;0.0904)		CCTTGGGGACCTCATAAGATG	0.383													41	55	---	---	---	---	PASS	A	68934335	A	A	68934335	3	1	126	1	0	0	0	0	1	0	0	0	5534	681	24	3	437	3	FAM19A4	3	68934335	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	23404134	68934335	129088095	60	45708										
COL8A1	1295	broad.mit.edu	37	chr3	99509631	99509631	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcctactatgggatcaagccGctgccacctcaaattcctcc	7	16	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:99509631G>A	uc003dtg.1	+	4	350	c.105G>A	c.(103-105)CCG>CCA	p.P35P	COL8A1_uc003dth.1_Silent_p.P35P|COL8A1_uc003dti.1_Silent_p.P35P	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	35	Nonhelical region (NC2).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						GGATCAAGCCGCTGCCACCTC	0.557													40	75	---	---	---	---	PASS	A	99509631	A	A	99509631	2	1	126	1	0	0	0	0	0	0	0	1	3705	1074	38	1		1	COL8A1	3	99509631	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	30575296	99509631	98512799	61	45709										
NIT2	56954	broad.mit.edu	37	chr3	100064427	100064427	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aaatccattatttgtgatgcAgatccatctgtttgacattg	7	7	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:100064427A>G	uc003dtv.2	+	5	411	c.337_splice	c.e5-2	p.I113_splice	NIT2_uc011bha.1_Intron	NM_020202	NP_064587	Q9NQR4	NIT2_HUMAN	nitrilase family, member 2						nitrogen compound metabolic process		omega-amidase activity			ovary(1)	1						TTTGTGATGCAGATCCATCTG	0.403													14	67	---	---	---	---	PASS	G	100064427	G	G	100064427	5	3	126	1	0	0	0	0	0	0	1	0	10434	202	7	5	353	5	NIT2	3	100064427	Splice_Site	SNP	A	TCGA-60-2713-01A-01D-1522-08	554796	100064427	97958003	62	45710										
TRAT1	50852	broad.mit.edu	37	chr3	108568089	108568089	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aataagatgcaggaagccacCccatctgcacaggtgagttt	10	10	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:108568089C>G	uc003dxi.1	+	5	435	c.291C>G	c.(289-291)ACC>ACG	p.T97T	TRAT1_uc010hpx.1_Silent_p.T60T	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	97	Cytoplasmic (Potential).				cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						AGGAAGCCACCCCATCTGCAC	0.373													90	134	---	---	---	---	PASS	G	108568089	G	G	108568089	2	3	126	1	0	0	0	0	0	0	0	1	16463	610	22	4		4	TRAT1	3	108568089	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	8503662	108568089	89454341	63	45711										
SIDT1	54847	broad.mit.edu	37	chr3	113327364	113327364	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgctaccatgtctgccctaaTtattccaacttccaattcgg	5	13	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:113327364T>C	uc003eak.2	+	17	2352	c.1701T>C	c.(1699-1701)AAT>AAC	p.N567N	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Silent_p.N567N|SIDT1_uc011big.1_Silent_p.N320N|SIDT1_uc011bih.1_RNA|SIDT1_uc011bii.1_Silent_p.N20N	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	567	Extracellular (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						TCTGCCCTAATTATTCCAACT	0.433													316	286	---	---	---	---	PASS	C	113327364	C	C	113327364	2	2	126	1	0	0	0	0	0	0	0	1	14302	1490	52	5		5	SIDT1	3	113327364	Silent	SNP	T	TCGA-60-2713-01A-01D-1522-08	4759275	113327364	84695066	64	45712										
STXBP5L	9515	broad.mit.edu	37	chr3	121137266	121137266	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agtatagaagggatgaaaggCgctgctggaggggtgatggg	20	3	0	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:121137266C>G	uc003eec.3	+	27	3521	c.3381C>G	c.(3379-3381)GGC>GGG	p.G1127G	STXBP5L_uc011bji.1_Silent_p.G1103G	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	1127	v-SNARE coiled-coil homology.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		GGATGAAAGGCGCTGCTGGAG	0.527													18	81	---	---	---	---	PASS	G	121137266	G	G	121137266	2	3	126	1	0	0	0	0	0	0	0	1	15356	755	27	4		4	STXBP5L	3	121137266	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	7809902	121137266	76885164	65	45713										
DTX3L	151636	broad.mit.edu	37	chr3	122287963	122287963	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agaaaggaggcgaattaactCtccttgggacccaagatgac	11	9	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:122287963C>T	uc003efk.2	+	3	1116	c.1027C>T	c.(1027-1029)CTC>TTC	p.L343F	DTX3L_uc010hrj.2_Intron	NM_138287	NP_612144	Q8TDB6	DTX3L_HUMAN	deltex 3-like	343					histone monoubiquitination|response to DNA damage stimulus	cytoplasm|nucleus	histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)	4				GBM - Glioblastoma multiforme(114;0.0459)		CGAATTAACTCTCCTTGGGAC	0.383													78	355	---	---	---	---	PASS	T	122287963	T	T	122287963	3	4	126	1	0	0	0	0	1	0	0	0	4796	913	32	2	1037	2	DTX3L	3	122287963	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	1150697	122287963	75734467	66	45714										
SEC22A	26984	broad.mit.edu	37	chr3	122942494	122942494	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tctctttcctggatgagcttCagaaggagttcattactact	8	9	3	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:122942494C>T	uc003ege.2	+	3	350	c.271C>T	c.(271-273)CAG>TAG	p.Q91*	SEC22A_uc003egf.2_Nonsense_Mutation_p.Q91*	NM_012430	NP_036562	Q96IW7	SC22A_HUMAN	SEC22 vesicle trafficking protein homolog A	91	Cytoplasmic (Potential).|Longin.				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|integral to membrane	transporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0548)		GGATGAGCTTCAGAAGGAGTT	0.378													135	454	---	---	---	---	PASS	T	122942494	T	T	122942494	4	4	126	1	0	0	0	0	0	1	0	0	13988	827	29	2	277	2	SEC22A	3	122942494	Nonsense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	654531	122942494	75079936	67	45715										
KALRN	8997	broad.mit.edu	37	chr3	124141740	124141740	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	atttctccatgagaagcagcAtgaattggagctcaatgcag	10	8	2	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:124141740A>G	uc003ehg.2	+	15	2745	c.2618A>G	c.(2617-2619)CAT>CGT	p.H873R	KALRN_uc010hrv.1_Missense_Mutation_p.H873R|KALRN_uc003ehf.1_Missense_Mutation_p.H873R|KALRN_uc011bjy.1_Missense_Mutation_p.H873R|KALRN_uc003ehh.1_Missense_Mutation_p.H219R	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	873					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						GAGAAGCAGCATGAATTGGAG	0.453													26	128	---	---	---	---	PASS	G	124141740	G	G	124141740	3	3	126	1	0	0	0	0	1	0	0	0	7975	217	8	5	2676	5	KALRN	3	124141740	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	1199246	124141740	73880690	68	45716										
TMCC1	23023	broad.mit.edu	37	chr3	129389793	129389793	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgtggtagtgctcaagtttCttttgcagctggaggatagt	13	6	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:129389793C>A	uc003emz.3	-	5	1392	c.891G>T	c.(889-891)AAG>AAT	p.K297N	TMCC1_uc003emy.3_5'UTR|TMCC1_uc011blc.1_Missense_Mutation_p.K118N|TMCC1_uc010htg.2_Missense_Mutation_p.K183N	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	297	Potential.					integral to membrane				skin(1)	1						GCTCAAGTTTCTTTTGCAGCT	0.522													91	328	---	---	---	---	PASS	A	129389793	A	A	129389793	3	1	126	1	0	0	0	0	1	0	0	0	15989	912	32	2	1082	2	TMCC1	3	129389793	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	5248053	129389793	68632637	69	45717										
DNAJC13	23317	broad.mit.edu	37	chr3	132211259	132211259	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gaggtttttatgattgtaggCgcctgatgatagagaagatt	13	3	0	5			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:132211259C>T	uc003eor.2	+	33	3690	c.3625C>T	c.(3625-3627)CGC>TGC	p.R1209C		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1209							heat shock protein binding			ovary(1)|breast(1)	2						TGATTGTAGGCGCCTGATGAT	0.373													10	689	---	---	---	---	PASS	T	132211259	T	T	132211259	3	4	126	1	0	0	0	0	1	0	0	0	4632	782	27	1	3751	1	DNAJC13	3	132211259	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	2821466	132211259	65811171	70	45718										
TOPBP1	11073	broad.mit.edu	37	chr3	133335770	133335770	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtctcctctatcgttataatCtggaatgaaagttttacttt	6	7	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:133335770C>G	uc003eps.2	-	23	3892	c.3760_splice	c.e23-1	p.I1254_splice		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1						DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						TCGTTATAATCTGGAATGAAA	0.279								Other_conserved_DNA_damage_response_genes					10	8	---	---	---	---	PASS	G	133335770	G	G	133335770	5	3	126	1	0	0	0	0	0	0	1	0	16366	927	32	2	833	2	TOPBP1	3	133335770	Splice_Site	SNP	C	TCGA-60-2713-01A-01D-1522-08	1124511	133335770	64686660	71	45719										
TF	7018	broad.mit.edu	37	chr3	133476704	133476704	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	taaggactctgcccacgggtTtttaaaagtcccccccagga	9	13	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:133476704T>A	uc003epu.1	+	13	2690	c.962T>A	c.(961-963)TTT>TAT	p.F321Y	TF_uc011blt.1_Missense_Mutation_p.F194Y|TF_uc003epw.1_Intron|TF_uc003epv.1_Missense_Mutation_p.F321Y	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	321	Transferrin-like 1.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	GCCCACGGGTTTTTAAAAGTC	0.478													33	192	---	---	---	---	PASS	A	133476704	A	A	133476704	3	1	126	1	0	0	0	0	1	0	0	0	15782	1841	64	5	992	5	TF	3	133476704	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	140934	133476704	64545726	72	45720										
RAB6B	51560	broad.mit.edu	37	chr3	133560496	133560496	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtttttgacaagaagtcaatCccaatggttgcctgttagag	10	7	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:133560496C>T	uc003epy.2	-	3	522	c.141G>A	c.(139-141)GGG>GGA	p.G47G	RAB6B_uc011blu.1_Silent_p.G34G	NM_016577	NP_057661	Q9NRW1	RAB6B_HUMAN	RAB6B, member RAS oncogene family	47	Effector region (By similarity).				protein transport|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|Golgi membrane	GTP binding|GTPase activity|protein binding			pancreas(1)	1						AGAAGTCAATCCCAATGGTTG	0.512													36	166	---	---	---	---	PASS	T	133560496	T	T	133560496	2	4	126	1	0	0	0	0	0	0	0	1	12952	842	30	2		2	RAB6B	3	133560496	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	83792	133560496	64461934	73	45721										
RASA2	5922	broad.mit.edu	37	chr3	141295906	141295906	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cttcgtttctttgctgtagcCgtagtatcacctcatacttt	6	11	3	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:141295906C>G	uc003etz.1	+	15	1548	c.1548C>G	c.(1546-1548)GCC>GCG	p.A516A	RASA2_uc010huq.1_Silent_p.A516A|RASA2_uc003eua.1_Silent_p.A516A|RASA2_uc011bnc.1_Silent_p.A108A	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	516	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6						TTGCTGTAGCCGTAGTATCAC	0.348													83	171	---	---	---	---	PASS	G	141295906	G	G	141295906	2	3	126	1	0	0	0	0	0	0	0	1	13061	639	23	4		4	RASA2	3	141295906	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	7735410	141295906	56726524	74	45722										
CPB1	1360	broad.mit.edu	37	chr3	148552387	148552387	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcactgtggagaatgttctaAagcagaatgaactacaatac	8	7	2	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:148552387A>T	uc003ewl.2	+	3	273	c.250A>T	c.(250-252)AAG>TAG	p.K84*		NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein	84					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			GAATGTTCTAAAGCAGAATGA	0.368													73	157	---	---	---	---	PASS	T	148552387	T	T	148552387	4	4	126	1	0	0	0	0	0	1	0	0	3796	15	1	5	260	5	CPB1	3	148552387	Nonsense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	7256481	148552387	49470043	75	45723										
TM4SF18	116441	broad.mit.edu	37	chr3	149048162	149048162	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctctggcaacatttatagttGttattattctccagtaccag	6	9	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:149048162G>T	uc003exa.2	-	3	359	c.222C>A	c.(220-222)AAC>AAA	p.N74K		NM_138786	NP_620141	Q96CE8	T4S18_HUMAN	transmembrane 4 L six family member 18	74	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			ATTTATAGTTGTTATTATTCT	0.368													40	143	---	---	---	---	PASS	T	149048162	T	T	149048162	3	4	126	1	0	0	0	0	1	0	0	0	15964	1368	48	3	399	3	TM4SF18	3	149048162	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	495775	149048162	48974268	76	45724										
SUCNR1	56670	broad.mit.edu	37	chr3	151598764	151598764	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttgctattttaatctccttgGccatttgggttttagtaacc	7	8	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:151598764G>C	uc003ezf.1	+	3	532	c.433G>C	c.(433-435)GCC>CCC	p.A145P		NM_033050	NP_149039	Q9BXA5	SUCR1_HUMAN	succinate receptor 1	145	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)		Succinic acid(DB00139)	AATCTCCTTGGCCATTTGGGT	0.363													112	486	---	---	---	---	PASS	C	151598764	C	C	151598764	3	2	126	1	0	0	0	0	1	0	0	0	15365	1203	42	4	439	4	SUCNR1	3	151598764	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	2550602	151598764	46423666	77	45725										
SI	6476	broad.mit.edu	37	chr3	164735583	164735583	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttgttgcaacttctggagttGggcccaaaaacatataaaaa	8	7	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:164735583G>T	uc003fei.2	-	30	3661	c.3599C>A	c.(3598-3600)CCA>CAA	p.P1200Q		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1200	Sucrase.|Lumenal.				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)	TTCTGGAGTTGGGCCCAAAAA	0.333										HNSCC(35;0.089)			25	86	---	---	---	---	PASS	T	164735583	T	T	164735583	3	4	126	1	0	0	0	0	1	0	0	0	14297	1348	47	3	1960	3	SI	3	164735583	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	13136819	164735583	33286847	78	45726										
GHSR	2693	broad.mit.edu	37	chr3	172166132	172166132	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cccagcgagtcgttgccgggGgaagcatcccagtccaggtc	14	14	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr3:172166132G>A	uc003fib.1	-	1	72	c.72C>T	c.(70-72)TCC>TCT	p.S24S	GHSR_uc011bpv.1_Silent_p.S24S	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	24	Extracellular (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)			CGTTGCCGGGGGAAGCATCCC	0.687													17	32	---	---	---	---	PASS	A	172166132	A	A	172166132	2	1	126	1	0	0	0	0	0	0	0	1	6375	1219	43	3		3	GHSR	3	172166132	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	7430549	172166132	25856298	79	45727										
LIMCH1	22998	broad.mit.edu	37	chr4	41682081	41682081	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtgggaaaaggcccaaaaggAggtggaagaggaagaacgca	17	5	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr4:41682081A>T	uc003gvu.3	+	19	2480	c.2426A>T	c.(2425-2427)GAG>GTG	p.E809V	LIMCH1_uc003gvv.3_Missense_Mutation_p.E809V|LIMCH1_uc003gvw.3_Missense_Mutation_p.E808V|LIMCH1_uc003gvx.3_Missense_Mutation_p.E821V|LIMCH1_uc003gwe.3_Missense_Mutation_p.E732V|LIMCH1_uc003gvy.3_Missense_Mutation_p.E637V|LIMCH1_uc003gwa.3_Missense_Mutation_p.E649V|LIMCH1_uc003gvz.3_Missense_Mutation_p.E1193V|LIMCH1_uc011byu.1_Missense_Mutation_p.E642V|LIMCH1_uc003gwc.3_Missense_Mutation_p.E654V|LIMCH1_uc003gwd.3_Missense_Mutation_p.E642V|LIMCH1_uc011byv.1_Missense_Mutation_p.E559V|LIMCH1_uc011byw.1_Missense_Mutation_p.E108V	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	809	Glu-rich.				actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						GCCCAAAAGGAGGTGGAAGAG	0.448													4	3	---	---	---	---	PASS	T	41682081	T	T	41682081	3	4	126	1	0	0	0	0	1	0	0	0	8797	304	11	5	2528	5	LIMCH1	4	41682081	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08		41682081	149472195	80	45728										
SGCB	6443	broad.mit.edu	37	chr4	52895916	52895916	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtgcttttataaagagggtgGatcactcccatgtcagatac	10	8	2	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr4:52895916G>C	uc003gzj.2	-	3	417	c.357C>G	c.(355-357)ATC>ATG	p.I119M	SGCB_uc011bzp.1_Missense_Mutation_p.I49M	NM_000232	NP_000223	Q16585	SGCB_HUMAN	sarcoglycan, beta	119	Extracellular (Potential).|Cys-rich.		I -> F (in LGMD2E).		cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma					0			GBM - Glioblastoma multiforme(4;7.63e-12)|LUSC - Lung squamous cell carcinoma(32;0.00204)			AAAGAGGGTGGATCACTCCCA	0.433													46	98	---	---	---	---	PASS	C	52895916	C	C	52895916	3	2	126	1	0	0	0	0	1	0	0	0	14200	1164	41	2	615	2	SGCB	4	52895916	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	11213835	52895916	138258360	81	45729										
REST	5978	broad.mit.edu	37	chr4	57796299	57796299	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	acaatggatgtctcaaaagtGaaactaaagaaaaccaaaaa	6	6	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr4:57796299G>A	uc003hch.2	+	4	1622	c.1275G>A	c.(1273-1275)GTG>GTA	p.V425V	REST_uc003hci.2_Silent_p.V425V|REST_uc010ihf.2_Silent_p.V99V	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	425	Lys-rich.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					TCTCAAAAGTGAAACTAAAGA	0.348													5	155	---	---	---	---	PASS	A	57796299	A	A	57796299	2	1	126	1	0	0	0	0	0	0	0	1	13234	1277	45	2		2	REST	4	57796299	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	4900383	57796299	133357977	82	45730										
CENPE	1062	broad.mit.edu	37	chr4	104044211	104044211	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tctttggatatggtagcactTctttcctcaaactctgttga	7	9	4	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr4:104044211T>G	uc003hxb.1	-	43	7050	c.6960A>C	c.(6958-6960)AGA>AGC	p.R2320S	CENPE_uc003hxc.1_Missense_Mutation_p.R2199S	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	2320	Kinetochore-binding domain.|Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TGGTAGCACTTCTTTCCTCAA	0.299													56	91	---	---	---	---	PASS	G	104044211	G	G	104044211	3	3	126	1	0	0	0	0	1	0	0	0	3230	1780	62	5	1173	5	CENPE	4	104044211	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	46247912	104044211	87110065	83	45731										
KIAA1109	84162	broad.mit.edu	37	chr4	123094218	123094218	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tttgtcctgtggatggattaTttacctcacatattataatt	6	6	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr4:123094218T>C	uc003ieh.2	+	2	170	c.125T>C	c.(124-126)ATT>ACT	p.I42T		NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	42	Helical; (Potential).				regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GGATGGATTATTTACCTCACA	0.328													6	244	---	---	---	---	PASS	C	123094218	C	C	123094218	3	2	126	1	0	0	0	0	1	0	0	0	8208	1493	52	5	131	5	KIAA1109	4	123094218	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	19050007	123094218	68060058	84	45732										
PCDH10	57575	broad.mit.edu	37	chr4	134072811	134072811	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cctactctatcctcgagtgcCagatccagggcatgagcgtc	10	14	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr4:134072811C>A	uc003iha.2	+	1	2342	c.1516C>A	c.(1516-1518)CAG>AAG	p.Q506K	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.Q506K	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	506	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CCTCGAGTGCCAGATCCAGGG	0.577													48	127	---	---	---	---	PASS	A	134072811	A	A	134072811	3	1	126	1	0	0	0	0	1	0	0	0	11507	595	21	3	1518	3	PCDH10	4	134072811	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	10978593	134072811	57081465	85	45733										
PCDH18	54510	broad.mit.edu	37	chr4	138442370	138442370	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gctgcacactggagtgagttCcaagtggcggcccacagttg	14	11	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr4:138442370C>A	uc003ihe.3	-	4	3608	c.3221G>T	c.(3220-3222)GGA>GTA	p.G1074V	PCDH18_uc003ihf.3_Missense_Mutation_p.G1066V|PCDH18_uc011cgz.1_Missense_Mutation_p.G285V|PCDH18_uc003ihg.3_Missense_Mutation_p.G853V|PCDH18_uc011cha.1_Missense_Mutation_p.G254V	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	1074	Interaction with DAB1 (By similarity).|Cytoplasmic (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					GGAGTGAGTTCCAAGTGGCGG	0.527													25	20	---	---	---	---	PASS	A	138442370	A	A	138442370	3	1	126	1	0	0	0	0	1	0	0	0	11513	855	30	2	190	2	PCDH18	4	138442370	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	4369559	138442370	52711906	86	45734										
USP38	84640	broad.mit.edu	37	chr4	144135239	144135239	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctaacaagattcttgttaatAaagatgtacctcagaaacca	5	8	2	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr4:144135239A>G	uc003ijb.2	+	9	2644	c.2110A>G	c.(2110-2112)AAA>GAA	p.K704E	USP38_uc003ija.3_Missense_Mutation_p.K704E|USP38_uc003ijc.2_RNA	NM_032557	NP_115946	Q8NB14	UBP38_HUMAN	ubiquitin specific peptidase 38	704					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_hematologic(180;0.158)					TCTTGTTAATAAAGATGTACC	0.368													52	81	---	---	---	---	PASS	G	144135239	G	G	144135239	3	3	126	1	0	0	0	0	1	0	0	0	17066	363	13	5	2144	5	USP38	4	144135239	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	5692869	144135239	47019037	87	45735										
TLR2	7097	broad.mit.edu	37	chr4	154624999	154624999	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtaaagtggaaacgttaacaAtccggaggctgcatattcca	10	8	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr4:154624999A>G	uc003inq.2	+	3	1159	c.940A>G	c.(940-942)ATC>GTC	p.I314V	TLR2_uc003inr.2_Missense_Mutation_p.I314V|TLR2_uc003ins.2_Missense_Mutation_p.I314V	NM_003264	NP_003255	O60603	TLR2_HUMAN	toll-like receptor 2 precursor	314	Extracellular (Potential).				cellular response to diacyl bacterial lipopeptide|cellular response to lipoteichoic acid|cellular response to triacyl bacterial lipopeptide|detection of diacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|I-kappaB phosphorylation|induction of apoptosis|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of interferon-beta production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of Wnt receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|integral to plasma membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	Gram-positive bacterial cell surface binding|lipopolysaccharide receptor activity|peptidoglycan binding|protein heterodimerization activity|transmembrane receptor activity|triacyl lipopeptide binding			ovary(1)|lung(1)|breast(1)	3	all_hematologic(180;0.093)	Renal(120;0.117)				AACGTTAACAATCCGGAGGCT	0.338													4	154	---	---	---	---	PASS	G	154624999	G	G	154624999	3	3	126	1	0	0	0	0	1	0	0	0	15948	101	4	5	942	5	TLR2	4	154624999	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	10489760	154624999	36529277	88	45736										
DCHS2	54798	broad.mit.edu	37	chr4	155287483	155287483	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttgatgatctcggtgcctggCtgggtctcatcactgatgct	12	10	3	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr4:155287483C>A	uc003inw.2	-	5	573	c.573G>T	c.(571-573)CAG>CAT	p.Q191H	DCHS2_uc003inx.2_Missense_Mutation_p.Q785H	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	191	Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CGGTGCCTGGCTGGGTCTCAT	0.498													32	41	---	---	---	---	PASS	A	155287483	A	A	155287483	3	1	126	1	0	0	0	0	1	0	0	0	4288	796	28	3	8357	3	DCHS2	4	155287483	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	662484	155287483	35866793	89	45737										
TLL1	7092	broad.mit.edu	37	chr4	166996093	166996093	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	atgtgtcaacacgatggggaGctacatgtgtcaatgccgta	12	8	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr4:166996093G>A	uc003irh.1	+	17	2899	c.2252G>A	c.(2251-2253)AGC>AAC	p.S751N	TLL1_uc011cjn.1_Missense_Mutation_p.S774N|TLL1_uc011cjo.1_Missense_Mutation_p.S575N	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	751	EGF-like 2; calcium-binding (Potential).				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		ACGATGGGGAGCTACATGTGT	0.398													75	122	---	---	---	---	PASS	A	166996093	A	A	166996093	3	1	126	1	0	0	0	0	1	0	0	0	15942	971	34	3	2318	3	TLL1	4	166996093	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	11708610	166996093	24158183	90	45738										
MTMR12	54545	broad.mit.edu	37	chr5	32239230	32239230	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgcagtgggggtccatcatCagttgcaccagagaggaaat	13	9	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr5:32239230C>T	uc003jhq.2	-	13	1391	c.1221G>A	c.(1219-1221)CTG>CTA	p.L407L	MTMR12_uc010iuk.2_Silent_p.L407L|MTMR12_uc010iul.2_Silent_p.L407L	NM_001040446	NP_001035536	Q9C0I1	MTMRC_HUMAN	myotubularin related protein 12	407	Myotubularin phosphatase.					cytoplasm	phosphatase activity			ovary(1)	1						GGTCCATCATCAGTTGCACCA	0.527													36	97	---	---	---	---	PASS	T	32239230	T	T	32239230	2	4	126	1	0	0	0	0	0	0	0	1	9941	813	29	2		2	MTMR12	5	32239230	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08		32239230	148676030	91	45739										
ZFR	51663	broad.mit.edu	37	chr5	32400290	32400290	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cttctgctttatttcctgttGactgcagcttattaccacct	5	12	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr5:32400290G>A	uc003jhr.1	-	9	1615	c.1535C>T	c.(1534-1536)TCA>TTA	p.S512L		NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	512					multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		ATTTCCTGTTGACTGCAGCTT	0.318													16	84	---	---	---	---	PASS	A	32400290	A	A	32400290	3	1	126	1	0	0	0	0	1	0	0	0	17656	1294	45	2	1737	2	ZFR	5	32400290	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	161060	32400290	148514970	92	45740										
ADAMTS12	81792	broad.mit.edu	37	chr5	33576387	33576387	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tggtctcctcccagagggagCagagtgttggctggcttttc	14	10	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr5:33576387C>G	uc003jia.1	-	19	3907	c.3744G>C	c.(3742-3744)CTG>CTC	p.L1248L	ADAMTS12_uc010iuq.1_Silent_p.L1163L	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1248	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CCAGAGGGAGCAGAGTGTTGG	0.522										HNSCC(64;0.19)			6	373	---	---	---	---	PASS	G	33576387	G	G	33576387	2	3	126	1	0	0	0	0	0	0	0	1	257	697	25	4		4	ADAMTS12	5	33576387	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	1176097	33576387	147338873	93	45741										
C5orf28	64417	broad.mit.edu	37	chr5	43446645	43446645	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgaaggaaaggtcttcgcggGagagtcaaagcagcctgagg	16	7	2	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr5:43446645G>C	uc003jny.2	-	3	470	c.327C>G	c.(325-327)CTC>CTG	p.L109L	C5orf28_uc003jnv.3_Silent_p.L109L|C5orf28_uc003jnx.2_Silent_p.L109L	NM_022483	NP_071928	Q0VDI3	CE028_HUMAN	hypothetical protein LOC64417	109						integral to membrane					0	Lung NSC(6;2.07e-05)					GTCTTCGCGGGAGAGTCAAAG	0.383													35	90	---	---	---	---	PASS	C	43446645	C	C	43446645	2	2	126	1	0	0	0	0	0	0	0	1	2289	1161	41	2		2	C5orf28	5	43446645	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	9870258	43446645	137468615	94	45742										
SKIV2L2	23517	broad.mit.edu	37	chr5	54640937	54640937	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tccagggtgacttcagagaaGataattttaatactgcaatg	9	6	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr5:54640937G>C	uc003jpy.3	+	10	1287	c.1021G>C	c.(1021-1023)GAT>CAT	p.D341H	SKIV2L2_uc011cqi.1_Missense_Mutation_p.D240H	NM_015360	NP_056175	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2	341					maturation of 5.8S rRNA	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(1)|skin(1)	2		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				CTTCAGAGAAGATAATTTTAA	0.368													17	17	---	---	---	---	PASS	C	54640937	C	C	54640937	3	2	126	1	0	0	0	0	1	0	0	0	14360	942	33	2	1059	2	SKIV2L2	5	54640937	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	11194292	54640937	126274323	95	45743										
GIN1	54826	broad.mit.edu	37	chr5	102440400	102440400	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gaacaaatctgtcatgattaTagcatatacatgacttctgt	6	7	3	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr5:102440400T>C	uc003koa.1	-	4	566	c.484A>G	c.(484-486)ATA>GTA	p.I162V	GIN1_uc003kob.1_Missense_Mutation_p.I15V|GIN1_uc003koc.1_Missense_Mutation_p.I162V	NM_017676	NP_060146	Q9NXP7	GIN1_HUMAN	zinc finger, H2C2 domain containing	162	Integrase catalytic.				DNA integration		DNA binding			ovary(1)|skin(1)	2		all_cancers(142;3.23e-07)|all_epithelial(76;3.64e-10)|Prostate(80;0.00914)|Ovarian(225;0.0139)|Lung NSC(167;0.0212)|Colorectal(57;0.0249)|all_lung(232;0.0283)		Epithelial(69;3.57e-14)|COAD - Colon adenocarcinoma(37;0.00794)		GTCATGATTATAGCATATACA	0.358													44	50	---	---	---	---	PASS	C	102440400	C	C	102440400	3	2	126	1	0	0	0	0	1	0	0	0	6386	1406	49	5	1104	5	GIN1	5	102440400	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	47799463	102440400	78474860	96	45744										
PCDHB5	26167	broad.mit.edu	37	chr5	140515935	140515935	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttcgcctgaaaagggcattgGatttcgaggcaactccatat	10	9	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr5:140515935G>T	uc003liq.2	+	1	1136	c.919G>T	c.(919-921)GAT>TAT	p.D307Y		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	307	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAGGGCATTGGATTTCGAGGC	0.438													130	113	---	---	---	---	PASS	T	140515935	T	T	140515935	3	4	126	1	0	0	0	0	1	0	0	0	11545	1174	41	2	921	2	PCDHB5	5	140515935	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	38075535	140515935	40399325	97	45745										
PCDHGA3	56112	broad.mit.edu	37	chr5	140725166	140725166	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcgctgagatccttcgactaCgagcaatttagagacttaaa	9	9	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr5:140725166C>T	uc003ljm.1	+	1	1566	c.1566C>T	c.(1564-1566)TAC>TAT	p.Y522Y	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.Y282Y|PCDHGA3_uc011dap.1_Silent_p.Y522Y	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	522	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTTCGACTACGAGCAATTTA	0.562													63	67	---	---	---	---	PASS	T	140725166	T	T	140725166	2	4	126	1	0	0	0	0	0	0	0	1	11555	547	19	1		1	PCDHGA3	5	140725166	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	209231	140725166	40190094	98	45746										
JAKMIP2	9832	broad.mit.edu	37	chr5	146991901	146991901	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtcttttatttgtcttttctGgatgtctgttttatcttcta	6	6	6	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr5:146991901G>T	uc003loq.1	-	20	2762	c.2380C>A	c.(2380-2382)CAG>AAG	p.Q794K	JAKMIP2_uc011dbx.1_Missense_Mutation_p.Q752K|JAKMIP2_uc003lor.1_Missense_Mutation_p.Q773K|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.Q794K	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	794	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCTTTTCTGGATGTCTGTT	0.303													6	18	---	---	---	---	PASS	T	146991901	T	T	146991901	3	4	126	1	0	0	0	0	1	0	0	0	7941	1357	47	3	60	3	JAKMIP2	5	146991901	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	6266735	146991901	33923359	99	45747										
ANXA6	309	broad.mit.edu	37	chr5	150484827	150484827	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttcatggatttgtaaagtttGtcggcaaagaagagaggctt	12	4	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr5:150484827G>C	uc003ltl.1	-	24	1970	c.1818C>G	c.(1816-1818)GAC>GAG	p.D606E	ANXA6_uc011dcp.1_Missense_Mutation_p.D574E|ANXA6_uc003ltm.1_Missense_Mutation_p.D600E|ANXA6_uc003ltn.1_Missense_Mutation_p.D393E|ANXA6_uc003lto.1_Missense_Mutation_p.D193E	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	606						melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGTAAAGTTTGTCGGCAAAGA	0.478													17	26	---	---	---	---	PASS	C	150484827	C	C	150484827	3	2	126	1	0	0	0	0	1	0	0	0	722	1368	48	4	215	4	ANXA6	5	150484827	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	3492926	150484827	30430433	100	45748										
OR2B2	81697	broad.mit.edu	37	chr6	27880034	27880034	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aaagggtggaatctctagccAtggttgatctgagaaaacta	11	6	2	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:27880034A>G	uc011dkw.1	-	1	64	c.64T>C	c.(64-66)TGG>CGG	p.W22R		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATCTCTAGCCATGGTTGATCT	0.363													38	112	---	---	---	---	PASS	G	27880034	G	G	27880034	3	3	126	1	0	0	0	0	1	0	0	0	10989	217	8	5	1013	5	OR2B2	6	27880034	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08		27880034	143235033	101	45749										
STK38	11329	broad.mit.edu	37	chr6	36485579	36485579	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	acaacccacaaactgtctgcCtccactagaatgtcacgctc	5	16	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:36485579C>A	uc003omg.2	-	5	1017	c.429G>T	c.(427-429)GAG>GAT	p.E143D	STK38_uc003omh.2_Missense_Mutation_p.E143D|STK38_uc003omi.2_Missense_Mutation_p.E143D	NM_007271	NP_009202	Q15208	STK38_HUMAN	serine/threonine kinase 38	143	Protein kinase.				intracellular protein kinase cascade|negative regulation of MAP kinase activity	cytoplasm|MLL5-L complex	ATP binding|magnesium ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6						AACTGTCTGCCTCCACTAGAA	0.413													58	125	---	---	---	---	PASS	A	36485579	A	A	36485579	3	1	126	1	0	0	0	0	1	0	0	0	15302	680	24	3	1004	3	STK38	6	36485579	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	8605545	36485579	134629488	102	45750										
FGD2	221472	broad.mit.edu	37	chr6	36982742	36982742	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	atagtagacccctctaacacCctgctccgtgagggcccggt	10	15	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:36982742C>G	uc010jwp.1	+	8	1128	c.957C>G	c.(955-957)ACC>ACG	p.T319T	FGD2_uc003ong.2_Silent_p.T41T|FGD2_uc011dtv.1_5'UTR|FGD2_uc003oni.1_Silent_p.T125T	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	319	PH 1.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3						CCTCTAACACCCTGCTCCGTG	0.632													23	61	---	---	---	---	PASS	G	36982742	G	G	36982742	2	3	126	1	0	0	0	0	0	0	0	1	5833	610	22	4		4	FGD2	6	36982742	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	497163	36982742	134132325	103	45751										
UBR2	23304	broad.mit.edu	37	chr6	42613251	42613251	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aggtaaatgctacagatgaaAtcaagcgagagattatccat	9	6	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:42613251A>G	uc011dur.1	+	21	2332	c.2332A>G	c.(2332-2334)ATC>GTC	p.I778V	UBR2_uc011dus.1_Missense_Mutation_p.I423V|UBR2_uc003osh.2_RNA	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	778					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			TACAGATGAAATCAAGCGAGA	0.343													54	117	---	---	---	---	PASS	G	42613251	G	G	42613251	3	3	126	1	0	0	0	0	1	0	0	0	16899	101	4	5	2560	5	UBR2	6	42613251	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	5630509	42613251	128501816	104	45752										
CRIP3	401262	broad.mit.edu	37	chr6	43275417	43275417	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgctggggctgagaggagtGgtgcagccagggctgggagt	21	7	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:43275417G>A	uc010jyn.1	-	4	261	c.261C>T	c.(259-261)ACC>ACT	p.T87T	CRIP3_uc003ouu.1_Silent_p.T87T	NM_206922	NP_996805	Q6Q6R5	CRIP3_HUMAN	cysteine-rich protein 3	87						cytoplasm	zinc ion binding			skin(1)	1			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00998)|OV - Ovarian serous cystadenocarcinoma(102;0.0305)			TGAGAGGAGTGGTGCAGCCAG	0.612													39	93	---	---	---	---	PASS	A	43275417	A	A	43275417	2	1	126	1	0	0	0	0	0	0	0	1	3876	1335	47	3		3	CRIP3	6	43275417	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	662166	43275417	127839650	105	45753										
PKHD1	5314	broad.mit.edu	37	chr6	51798958	51798958	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ccaggaacttgactccatagGgaaagaagggagttgagtag	14	6	0	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:51798958G>A	uc003pah.1	-	37	6347	c.6071C>T	c.(6070-6072)CCC>CTC	p.P2024L	PKHD1_uc010jzn.1_Missense_Mutation_p.P49L|PKHD1_uc003pai.2_Missense_Mutation_p.P2024L	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2024	Extracellular (Potential).|G8 1.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GACTCCATAGGGAAAGAAGGG	0.507											OREG0017491	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	92	---	---	---	---	PASS	A	51798958	A	A	51798958	3	1	126	1	0	0	0	0	1	0	0	0	11971	1232	43	3	6316	3	PKHD1	6	51798958	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	8523541	51798958	119316109	106	45754										
PKHD1	5314	broad.mit.edu	37	chr6	51890901	51890901	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttaagttcacaatgtcacagGaccgattgcccacaagtacc	7	12	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:51890901G>T	uc003pah.1	-	32	3983	c.3707C>A	c.(3706-3708)TCC>TAC	p.S1236Y	PKHD1_uc003pai.2_Missense_Mutation_p.S1236Y	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1236	Extracellular (Potential).|IPT/TIG 7.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AATGTCACAGGACCGATTGCC	0.562													37	66	---	---	---	---	PASS	T	51890901	T	T	51890901	3	4	126	1	0	0	0	0	1	0	0	0	11971	1174	41	2	8700	2	PKHD1	6	51890901	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	91943	51890901	119224166	107	45755										
COL9A1	1297	broad.mit.edu	37	chr6	71003996	71003996	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcaacaaaaagagtagcactActcctctccacgccaatcat	4	14	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:71003996A>G	uc003pfg.3	-	5	729	c.570T>C	c.(568-570)AGT>AGC	p.S190S		NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	190	Nonhelical region (NC4).|TSP N-terminal.				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						GAGTAGCACTACTCCTCTCCA	0.448													92	230	---	---	---	---	PASS	G	71003996	G	G	71003996	2	3	126	1	0	0	0	0	0	0	0	1	3707	388	14	5		5	COL9A1	6	71003996	Silent	SNP	A	TCGA-60-2713-01A-01D-1522-08	19113095	71003996	100111071	108	45756										
DOPEY1	23033	broad.mit.edu	37	chr6	83869602	83869602	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tataacagccagcggtggttAaacctctatctctctgcttg	8	11	3	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:83869602A>C	uc003pjs.1	+	37	7145	c.6885A>C	c.(6883-6885)TTA>TTC	p.L2295F	DOPEY1_uc011dyy.1_Missense_Mutation_p.L2286F|DOPEY1_uc010kbl.1_Missense_Mutation_p.L2286F|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	2295					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)		AGCGGTGGTTAAACCTCTATC	0.458													30	87	---	---	---	---	PASS	C	83869602	C	C	83869602	3	2	126	1	0	0	0	0	1	0	0	0	4707	359	13	5	7023	5	DOPEY1	6	83869602	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	12865606	83869602	87245465	109	45757										
RIPPLY2	134701	broad.mit.edu	37	chr6	84563453	84563453	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ccctgggtggacgccggaggCaagaaagaagaggagacgcc	17	10	0	4			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:84563453C>T	uc003pke.2	+	2	286	c.135C>T	c.(133-135)GGC>GGT	p.G45G		NM_001009994	NP_001009994	Q5TAB7	RIPP2_HUMAN	ripply2 protein	45					somite rostral/caudal axis specification	nucleus					0						ACGCCGGAGGCAAGAAAGAAG	0.672													6	22	---	---	---	---	PASS	T	84563453	T	T	84563453	2	4	126	1	0	0	0	0	0	0	0	1	13385	697	25	3		3	RIPPLY2	6	84563453	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	693851	84563453	86551614	110	45758										
GPR63	81491	broad.mit.edu	37	chr6	97247000	97247000	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctacacaaaaggaagttgccCaagaaactgcaatcagaacc	7	11	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:97247000C>A	uc010kcl.2	-	3	1086	c.608G>T	c.(607-609)TGG>TTG	p.W203L	GPR63_uc003pou.2_Missense_Mutation_p.W203L	NM_001143957	NP_001137429	Q9BZJ6	GPR63_HUMAN	G protein-coupled receptor 63	203	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;6.89e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0618)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0912)		GGAAGTTGCCCAAGAAACTGC	0.463													55	126	---	---	---	---	PASS	A	97247000	A	A	97247000	3	1	126	1	0	0	0	0	1	0	0	0	6704	595	21	3	655	3	GPR63	6	97247000	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	12683547	97247000	73868067	111	45759										
C6orf191	253582	broad.mit.edu	37	chr6	130154674	130154674	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ccaaacccattcttccacaaCtggaacaaaaaacaatccac	2	15	1	0	rs148503789	byFrequency	TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:130154674C>G	uc003qbs.2	-	4	333	c.250G>C	c.(250-252)GTT>CTT	p.V84L		NM_001010876	NP_001010876	Q5VVB8	CF191_HUMAN	hypothetical protein LOC253582	84	Helical; (Potential).					integral to membrane				large_intestine(1)	1				GBM - Glioblastoma multiforme(226;0.0387)|all cancers(137;0.115)|OV - Ovarian serous cystadenocarcinoma(155;0.131)		TCTTCCACAACTGGAACAAAA	0.348													30	134	---	---	---	---	PASS	G	130154674	G	G	130154674	3	3	126	1	0	0	0	0	1	0	0	0	2348	565	20	4	144	4	C6orf191	6	130154674	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	32907674	130154674	40960393	112	45760										
TMEM200A	114801	broad.mit.edu	37	chr6	130762304	130762304	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgggcatcttatgcccccttTgctctctgacagctctgtgt	9	13	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:130762304T>G	uc003qca.2	+	3	1608	c.737T>G	c.(736-738)TTG>TGG	p.L246W	TMEM200A_uc010kfh.2_Missense_Mutation_p.L246W|TMEM200A_uc010kfi.2_Missense_Mutation_p.L246W|TMEM200A_uc003qcb.2_Missense_Mutation_p.L246W	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	246	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		ATGCCCCCTTTGCTCTCTGAC	0.473													48	109	---	---	---	---	PASS	G	130762304	G	G	130762304	3	3	126	1	0	0	0	0	1	0	0	0	16120	1821	63	5	739	5	TMEM200A	6	130762304	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	607630	130762304	40352763	113	45761										
TAAR5	9038	broad.mit.edu	37	chr6	132909864	132909864	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcggtgagaagaccttctggCtcagtgtgagtttcagtgcc	14	9	3	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:132909864C>A	uc003qdk.2	-	1	1014	c.962G>T	c.(961-963)AGC>ATC	p.S321I		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	321	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		GACCTTCTGGCTCAGTGTGAG	0.458													34	66	---	---	---	---	PASS	A	132909864	A	A	132909864	3	1	126	1	0	0	0	0	1	0	0	0	15488	797	28	3	55	3	TAAR5	6	132909864	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	2147560	132909864	38205203	114	45762										
VNN2	8875	broad.mit.edu	37	chr6	133078687	133078687	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcacaatgattcgagcacccTgttcaaaacaagcaaaataa	5	10	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:133078687T>A	uc003qdt.2	-	2	225	c.214_splice	c.e2-1	p.G72_splice	VNN2_uc003qds.2_Splice_Site|VNN2_uc010kgb.2_Splice_Site_p.G72_splice|VNN2_uc003qdv.2_Splice_Site_p.G19_splice	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor						cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		TCGAGCACCCTGTTCAAAACA	0.433													52	124	---	---	---	---	PASS	A	133078687	A	A	133078687	5	1	126	1	0	0	0	0	0	0	1	0	17180	1594	55	5	1374	5	VNN2	6	133078687	Splice_Site	SNP	T	TCGA-60-2713-01A-01D-1522-08	168823	133078687	38036380	115	45763										
VNN2	8875	broad.mit.edu	37	chr6	133078907	133078907	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aaactggtgtttctgttttaTttggcaaaatgacagcatgt	9	5	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:133078907T>C	uc003qdt.2	-	1	127	c.116A>G	c.(115-117)AAT>AGT	p.N39S	VNN2_uc003qds.2_5'Flank|VNN2_uc010kgb.2_Missense_Mutation_p.N39S|VNN2_uc003qdv.2_Intron	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor	39	CN hydrolase.				cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		TTCTGTTTTATTTGGCAAAAT	0.438													8	286	---	---	---	---	PASS	C	133078907	C	C	133078907	3	2	126	1	0	0	0	0	1	0	0	0	17180	1493	52	5	1474	5	VNN2	6	133078907	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	220	133078907	38036160	116	45764										
VTA1	51534	broad.mit.edu	37	chr6	142539763	142539763	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aaaaggctctcaagttactgAcgacaggcagagaatgaagc	11	8	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:142539763A>G	uc003qiw.2	+	8	922	c.907A>G	c.(907-909)ACG>GCG	p.T303A	VTA1_uc011edt.1_RNA|VTA1_uc011edu.1_Missense_Mutation_p.T218A	NM_016485	NP_057569	Q9NP79	VTA1_HUMAN	Vps20-associated 1 homolog	303	Interaction with VPS4B (By similarity).				cellular membrane organization|endosome transport|protein transport	cytosol|endosome membrane	protein binding				0	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;1.34e-05)|GBM - Glioblastoma multiforme(68;0.00182)		CAAGTTACTGACGACAGGCAG	0.438													50	93	---	---	---	---	PASS	G	142539763	G	G	142539763	3	3	126	1	0	0	0	0	1	0	0	0	17230	275	10	5	937	5	VTA1	6	142539763	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	9460856	142539763	28575304	117	45765										
SYNE1	23345	broad.mit.edu	37	chr6	152546946	152546946	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tctttcttgttctgaatcaaAgcaagtccattctgctcaat	5	10	6	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:152546946A>C	uc010kiw.2	-	116	21863	c.21261T>G	c.(21259-21261)GCT>GCG	p.A7087A	SYNE1_uc010kiv.2_Silent_p.A1611A|SYNE1_uc003qos.3_Silent_p.A1611A|SYNE1_uc003qot.3_Silent_p.A7016A|SYNE1_uc003qou.3_Silent_p.A7087A|SYNE1_uc003qor.3_5'UTR	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7087	Cytoplasmic (Potential).|Spectrin 22.				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)		TCTGAATCAAAGCAAGTCCAT	0.363										HNSCC(10;0.0054)			61	143	---	---	---	---	PASS	C	152546946	C	C	152546946	2	2	126	1	0	0	0	0	0	0	0	1	15442	59	3	5		5	SYNE1	6	152546946	Silent	SNP	A	TCGA-60-2713-01A-01D-1522-08	10007183	152546946	18568121	118	45766										
PARK2	5071	broad.mit.edu	37	chr6	162394383	162394383	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gttccgactatttgttgcgaTcaggtgcaaagctactgatg	11	8	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr6:162394383T>A	uc003qtx.3	-	6	819	c.685A>T	c.(685-687)ATC>TTC	p.I229F	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_Missense_Mutation_p.I38F|PARK2_uc003qtw.3_Missense_Mutation_p.I38F|PARK2_uc003qty.3_Missense_Mutation_p.I201F|PARK2_uc003qtz.3_Missense_Mutation_p.I80F|PARK2_uc010kke.1_Missense_Mutation_p.I229F	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	229	SYT11 binding 1.				aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		TTTGTTGCGATCAGGTGCAAA	0.428													6	135	---	---	---	---	PASS	A	162394383	A	A	162394383	3	1	126	1	0	0	0	0	1	0	0	0	11449	1435	50	5	740	5	PARK2	6	162394383	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	9847437	162394383	8720684	119	45767										
OSBPL3	26031	broad.mit.edu	37	chr7	24881927	24881927	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgaagagcttggagataacaGaacttcctgagcatcaaaaa	9	7	1	5			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr7:24881927G>C	uc003sxf.2	-	13	1777	c.1372C>G	c.(1372-1374)CTG>GTG	p.L458V	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Missense_Mutation_p.L422V|OSBPL3_uc003sxh.2_Missense_Mutation_p.L427V|OSBPL3_uc003sxi.2_Missense_Mutation_p.L391V|OSBPL3_uc003sxj.1_Missense_Mutation_p.L187V|OSBPL3_uc003sxk.1_Missense_Mutation_p.L156V	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	458					lipid transport		lipid binding|protein binding			skin(1)	1						GGAGATAACAGAACTTCCTGA	0.403													21	668	---	---	---	---	PASS	C	24881927	C	C	24881927	3	2	126	1	0	0	0	0	1	0	0	0	11279	933	33	2	1335	2	OSBPL3	7	24881927	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08		24881927	134256736	120	45768										
BBS9	27241	broad.mit.edu	37	chr7	33423374	33423374	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	atattttgaaaaacagggagTcaaagattttgcatgttctt	8	4	2	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr7:33423374T>C	uc003tdn.1	+	18	2399	c.1886T>C	c.(1885-1887)GTC>GCC	p.V629A	BBS9_uc003tdo.1_Missense_Mutation_p.V594A|BBS9_uc003tdp.1_Missense_Mutation_p.V624A|BBS9_uc003tdq.1_Missense_Mutation_p.V589A|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Missense_Mutation_p.V153A|BBS9_uc003tds.1_Missense_Mutation_p.V52A|BBS9_uc003tdt.2_RNA|BBS9_uc011kao.1_Missense_Mutation_p.V507A	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	629					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			AAACAGGGAGTCAAAGATTTT	0.353									Bardet-Biedl_syndrome				30	93	---	---	---	---	PASS	C	33423374	C	C	33423374	3	2	126	1	0	0	0	0	1	0	0	0	1342	1667	58	5	1952	5	BBS9	7	33423374	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	8541447	33423374	125715289	121	45769										
TARP	445347	broad.mit.edu	37	chr7	38357052	38357052	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gagcaaaactacttacgagcCccaaggactgccagcgttga	10	12	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr7:38357052C>T	uc003tge.1	-	2	419	c.42G>A	c.(40-42)GGG>GGA	p.G14G	uc003tfz.1_5'Flank|TARP_uc003tgf.1_5'Flank|TARP_uc003tgj.1_5'Flank|TARP_uc003tgh.1_5'Flank|TARP_uc003tgi.1_5'Flank|TARP_uc003tgg.1_5'Flank			A2JGV3	A2JGV3_HUMAN	Homo sapiens TCRgamma alternate reading frame protein (TCRg) mRNA, complete cds.	Error:Variant_position_missing_in_A2JGV3_after_alignment											0						ACTTACGAGCCCCAAGGACTG	0.458													10	11	---	---	---	---	PASS	T	38357052	T	T	38357052	2	4	126	1	0	0	0	0	0	0	0	1	15555	638	22	3		3	TARP	7	38357052	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	4933678	38357052	120781611	122	45770										
VSTM2A	222008	broad.mit.edu	37	chr7	54617718	54617718	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	atgcaggccttcgaagcctcGcccatgtggctgcaggatat	12	12	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr7:54617718G>T	uc010kzf.2	+	4	894	c.489G>T	c.(487-489)TCG>TCT	p.S163S	VSTM2A_uc010kze.2_Silent_p.S163S|VSTM2A_uc003tqc.3_Silent_p.S163S	NM_182546	NP_872352	Q8TAG5	VTM2A_HUMAN	V-set and transmembrane domain containing 2	163						extracellular region					0			STAD - Stomach adenocarcinoma(5;0.0525)			TCGAAGCCTCGCCCATGTGGC	0.592													7	11	---	---	---	---	PASS	T	54617718	T	T	54617718	2	4	126	1	0	0	0	0	0	0	0	1	17226	1074	38	1		1	VSTM2A	7	54617718	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	16260666	54617718	104520945	123	45771										
C7orf64	84060	broad.mit.edu	37	chr7	92164118	92164118	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gacaacacaactgcaggagcGcaaaagaagaagagaagatg	12	7	0	4			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr7:92164118G>A	uc003ulz.2	+	4	892	c.851G>A	c.(850-852)CGC>CAC	p.R284H	C7orf64_uc003uma.2_Missense_Mutation_p.R284H	NM_032120	NP_115496	Q5RL73	CG064_HUMAN	hypothetical protein LOC84060	284							nucleotide binding			ovary(2)	2						CTGCAGGAGCGCAAAAGAAGA	0.428													4	68	---	---	---	---	PASS	A	92164118	A	A	92164118	3	1	126	1	0	0	0	0	1	0	0	0	2410	1087	38	1	865	1	C7orf64	7	92164118	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	37546400	92164118	66974545	124	45772										
HEPACAM2	253012	broad.mit.edu	37	chr7	92838131	92838131	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcctctccaaggtcaacagtAaacacttcccctacttttag	5	14	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr7:92838131A>G	uc003umm.2	-	4	797	c.774T>C	c.(772-774)TTT>TTC	p.F258F	HEPACAM2_uc003uml.2_Silent_p.F246F|HEPACAM2_uc010lff.2_Silent_p.F246F|HEPACAM2_uc011khy.1_Silent_p.F281F	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	258	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(3)|breast(1)|kidney(1)	5						GGTCAACAGTAAACACTTCCC	0.383													7	189	---	---	---	---	PASS	G	92838131	G	G	92838131	2	3	126	1	0	0	0	0	0	0	0	1	7053	359	13	5		5	HEPACAM2	7	92838131	Silent	SNP	A	TCGA-60-2713-01A-01D-1522-08	674013	92838131	66300532	125	45773										
RELN	5649	broad.mit.edu	37	chr7	103338356	103338356	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgtgtccactgggtcgagacTatcttctaaaacgacttgtc	9	10	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr7:103338356T>C	uc003vca.2	-	10	1247	c.1087A>G	c.(1087-1089)AGT>GGT	p.S363G	RELN_uc010liz.2_Missense_Mutation_p.S363G	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	363					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		GGGTCGAGACTATCTTCTAAA	0.428													132	80	---	---	---	---	PASS	C	103338356	C	C	103338356	3	2	126	1	0	0	0	0	1	0	0	0	13220	1522	53	5	9519	5	RELN	7	103338356	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	10500225	103338356	55800307	126	45774										
IMPDH1	3614	broad.mit.edu	37	chr7	128034978	128034978	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tggctgctgctgctcttctcCatggcatccagtgagcccat	10	14	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr7:128034978C>T	uc011kol.1	-	11	1366	c.1260G>A	c.(1258-1260)ATG>ATA	p.M420I	IMPDH1_uc011kom.1_Missense_Mutation_p.M415I|IMPDH1_uc003vmt.2_Missense_Mutation_p.M395I|IMPDH1_uc003vmu.2_Missense_Mutation_p.M505I|IMPDH1_uc003vmw.2_Missense_Mutation_p.M495I|IMPDH1_uc011kon.1_Missense_Mutation_p.M472I|IMPDH1_uc003vmv.2_Missense_Mutation_p.M469I|IMPDH1_uc003vmx.2_Missense_Mutation_p.M428I|IMPDH1_uc003vmy.2_Missense_Mutation_p.M436I|uc011koo.1_5'Flank	NM_001142573	NP_001136045	P20839	IMDH1_HUMAN	inosine monophosphate dehydrogenase 1 isoform e	420					GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	DNA binding|IMP dehydrogenase activity|metal ion binding			skin(2)|lung(1)|central_nervous_system(1)	4					Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)|Ribavirin(DB00811)|Thioguanine(DB00352)	TGCTCTTCTCCATGGCATCCA	0.637													84	41	---	---	---	---	PASS	T	128034978	T	T	128034978	3	4	126	1	0	0	0	0	1	0	0	0	7726	594	21	3	300	3	IMPDH1	7	128034978	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	24696622	128034978	31103685	127	45775										
PARP12	64761	broad.mit.edu	37	chr7	139754535	139754535	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcctggctaagagtgtttggGgacacagaacctgaactgtc	12	9	0	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr7:139754535G>C	uc003vvl.1	-	4	1663	c.789C>G	c.(787-789)TCC>TCG	p.S263S	PARP12_uc003vvk.1_Silent_p.S49S|PARP12_uc010lnf.1_RNA	NM_022750	NP_073587	Q9H0J9	PAR12_HUMAN	poly ADP-ribose polymerase 12	263						nucleus	NAD+ ADP-ribosyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)	3	Melanoma(164;0.0142)					GAGTGTTTGGGGACACAGAAC	0.418													79	58	---	---	---	---	PASS	C	139754535	C	C	139754535	2	2	126	1	0	0	0	0	0	0	0	1	11457	1219	43	4		4	PARP12	7	139754535	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	11719557	139754535	19384128	128	45776										
ABCF2	10061	broad.mit.edu	37	chr7	150923535	150923535	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgccttcttcttggccaggtCggagggcatgatgatgaccc	13	11	2	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr7:150923535C>G	uc003wjp.2	-	2	121	c.10G>C	c.(10-12)GAC>CAC	p.D4H	ABCF2_uc003wjo.1_Missense_Mutation_p.D4H	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	4						ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TTGGCCAGGTCGGAGGGCATG	0.502													6	108	---	---	---	---	PASS	G	150923535	G	G	150923535	3	3	126	1	0	0	0	0	1	0	0	0	66	884	31	2	1958	2	ABCF2	7	150923535	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	11169000	150923535	8215128	129	45777										
PRKAG2	51422	broad.mit.edu	37	chr7	151273477	151273477	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctacaaaactttgttttttaCtctcccacagtggcgctgct	6	12	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr7:151273477C>A	uc003wkk.2	-	7	1537	c.926G>T	c.(925-927)AGT>ATT	p.S309I	PRKAG2_uc003wki.2_Missense_Mutation_p.S68I|PRKAG2_uc011kvl.1_Missense_Mutation_p.S184I|PRKAG2_uc003wkj.2_Missense_Mutation_p.S265I|PRKAG2_uc003wkl.2_Intron|PRKAG2_uc010lqe.1_RNA	NM_016203	NP_057287	Q9UGJ0	AAKG2_HUMAN	AMP-activated protein kinase gamma2 subunit	309	CBS 1.				ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)		TTGTTTTTTACTCTCCCACAG	0.413													27	23	---	---	---	---	PASS	A	151273477	A	A	151273477	3	1	126	1	0	0	0	0	1	0	0	0	12501	565	20	3	823	3	PRKAG2	7	151273477	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	349942	151273477	7865186	130	45778										
RBM33	155435	broad.mit.edu	37	chr7	155471376	155471376	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aatgaagatgaagaaaatttCaggtactcaatattacctca	6	6	3	4			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr7:155471376C>T	uc010lqk.1	+	4	614	c.246C>T	c.(244-246)TTC>TTT	p.F82F	RBM33_uc003wme.2_Silent_p.F82F	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	82							nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		AAGAAAATTTCAGGTACTCAA	0.249													6	4	---	---	---	---	PASS	T	155471376	T	T	155471376	2	4	126	1	0	0	0	0	0	0	0	1	13130	825	29	2		2	RBM33	7	155471376	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	4197899	155471376	3667287	131	45779										
MTUS1	57509	broad.mit.edu	37	chr8	17611496	17611496	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcttcctgattcgatttcacGgcagatgttgttcttggaac	9	9	3	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:17611496G>C	uc003wxv.2	-	2	2295	c.1821C>G	c.(1819-1821)GCC>GCG	p.A607A	MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Silent_p.A607A|MTUS1_uc010lsz.2_Silent_p.A607A	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	607						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		TCGATTTCACGGCAGATGTTG	0.433													208	165	---	---	---	---	PASS	C	17611496	C	C	17611496	2	2	126	1	0	0	0	0	0	0	0	1	9965	1103	39	4		4	MTUS1	8	17611496	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08		17611496	128752526	132	45780										
NPBWR1	2831	broad.mit.edu	37	chr8	53852603	53852603	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgtaccagttgtctacgcgGtgatctgcgccgtgggtctg	14	11	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:53852603G>A	uc011ldu.1	+	1	136	c.136G>A	c.(136-138)GTG>ATG	p.V46M		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	46	Helical; Name=1; (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				TGTCTACGCGGTGATCTGCGC	0.687													10	31	---	---	---	---	PASS	A	53852603	A	A	53852603	3	1	126	1	0	0	0	0	1	0	0	0	10568	1261	44	3	138	3	NPBWR1	8	53852603	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	36241107	53852603	92511419	133	45781										
RP1	6101	broad.mit.edu	37	chr8	55539638	55539638	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctagaaaaaggcaaagtgtaGaggctgccattcaagtagat	11	6	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:55539638G>C	uc003xsd.1	+	4	3344	c.3196G>C	c.(3196-3198)GAG>CAG	p.E1066Q	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1066					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GCAAAGTGTAGAGGCTGCCAT	0.388													44	136	---	---	---	---	PASS	C	55539638	C	C	55539638	3	2	126	1	0	0	0	0	1	0	0	0	13532	943	33	2	3206	2	RP1	8	55539638	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	1687035	55539638	90824384	134	45782										
HNF4G	3174	broad.mit.edu	37	chr8	76476304	76476304	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcatcagtcatttcacaccaGcatctctccaaacaaaagca	4	14	4	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:76476304G>T	uc003yaq.2	+	11	1470	c.1200G>T	c.(1198-1200)CAG>CAT	p.Q400H	HNF4G_uc003yar.2_Missense_Mutation_p.Q437H	NM_004133	NP_004124	Q14541	HNF4G_HUMAN	hepatocyte nuclear factor 4, gamma	400					endocrine pancreas development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1	Breast(64;0.0448)		BRCA - Breast invasive adenocarcinoma(89;0.161)			TTTCACACCAGCATCTCTCCA	0.423													74	167	---	---	---	---	PASS	T	76476304	T	T	76476304	3	4	126	1	0	0	0	0	1	0	0	0	7254	962	34	3	1349	3	HNF4G	8	76476304	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	20936666	76476304	69887718	135	45783										
ZFHX4	79776	broad.mit.edu	37	chr8	77617281	77617281	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcagtaataaatgcgtctccGccataatacaggggattggc	10	9	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:77617281G>T	uc003yav.2	+	2	1345	c.958G>T	c.(958-960)GCC>TCC	p.A320S	ZFHX4_uc003yat.1_Missense_Mutation_p.A320S|ZFHX4_uc003yau.1_Missense_Mutation_p.A320S|ZFHX4_uc003yaw.1_Missense_Mutation_p.A320S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	320						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATGCGTCTCCGCCATAATACA	0.413										HNSCC(33;0.089)			72	143	---	---	---	---	PASS	T	77617281	T	T	77617281	3	4	126	1	0	0	0	0	1	0	0	0	17632	1087	38	1	960	1	ZFHX4	8	77617281	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	1140977	77617281	68746741	136	45784										
ZNF704	619279	broad.mit.edu	37	chr8	81733701	81733701	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttttctttttcatggtcaagGatccggctggcttttttggt	10	7	3	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:81733701G>A	uc003yby.1	-	2	361	c.129C>T	c.(127-129)ATC>ATT	p.I43I		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	43						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			CATGGTCAAGGATCCGGCTGG	0.428													239	495	---	---	---	---	PASS	A	81733701	A	A	81733701	2	1	126	1	0	0	0	0	0	0	0	1	18104	1164	41	2		2	ZNF704	8	81733701	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	4116420	81733701	64630321	137	45785										
TMEM67	91147	broad.mit.edu	37	chr8	94821290	94821290	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcttttttacattagaaaaaTggtcctgctagactactgag	7	7	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:94821290T>G	uc011lgk.1	+	25	2633	c.2562T>G	c.(2560-2562)AAT>AAG	p.N854K	TMEM67_uc010maw.2_Missense_Mutation_p.N560K|TMEM67_uc003yga.3_Missense_Mutation_p.N773K|TMEM67_uc011lgl.1_Missense_Mutation_p.N253K	NM_153704	NP_714915	Q5HYA8	MKS3_HUMAN	meckelin isoform 1	854					cilium assembly|ER-associated protein catabolic process|negative regulation of centrosome duplication	centrosome|cilium membrane|cytoplasmic vesicle membrane|endoplasmic reticulum membrane|integral to membrane|microtubule basal body	unfolded protein binding			ovary(2)	2	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.00896)			ATTAGAAAAATGGTCCTGCTA	0.303													63	145	---	---	---	---	PASS	G	94821290	G	G	94821290	3	3	126	1	0	0	0	0	1	0	0	0	16193	1461	51	5	2798	5	TMEM67	8	94821290	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	13087589	94821290	51542732	138	45786										
TMEM74	157753	broad.mit.edu	37	chr8	109797102	109797102	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tggaaaggcatctggctgaaGagtactgttttgcagagagg	15	5	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:109797102G>C	uc003ymy.1	-	2	331	c.226C>G	c.(226-228)CTT>GTT	p.L76V	TMEM74_uc003ymx.2_Intron	NM_153015	NP_694560	Q96NL1	TMM74_HUMAN	transmembrane protein 74	76					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(57;3.08e-10)			TCTGGCTGAAGAGTACTGTTT	0.498													71	161	---	---	---	---	PASS	C	109797102	C	C	109797102	3	2	126	1	0	0	0	0	1	0	0	0	16199	942	33	2	695	2	TMEM74	8	109797102	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	14975812	109797102	36566920	139	45787										
PKHD1L1	93035	broad.mit.edu	37	chr8	110461643	110461643	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aattcaattatattagtttgTggctcagaatgtgcaattga	8	4	2	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:110461643T>G	uc003yne.2	+	40	6206	c.6102T>G	c.(6100-6102)TGT>TGG	p.C2034W		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2034	Extracellular (Potential).|IPT/TIG 13.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TATTAGTTTGTGGCTCAGAAT	0.373										HNSCC(38;0.096)			8	21	---	---	---	---	PASS	G	110461643	G	G	110461643	3	3	126	1	0	0	0	0	1	0	0	0	11972	1702	59	5	6260	5	PKHD1L1	8	110461643	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	664541	110461643	35902379	140	45788										
CSMD3	114788	broad.mit.edu	37	chr8	113988344	113988344	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgttatgctcctctaactcaCcagtggaggtagtgtgggtc	12	9	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:113988344C>A	uc003ynu.2	-	7	1223	c.1064G>T	c.(1063-1065)GGT>GTT	p.G355V	CSMD3_uc003ynt.2_Missense_Mutation_p.G315V|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	355	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CTCTAACTCACCAGTGGAGGT	0.413										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			37	123	---	---	---	---	PASS	A	113988344	A	A	113988344	3	1	126	1	0	0	0	0	1	0	0	0	3946	507	18	3	10319	3	CSMD3	8	113988344	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	3526701	113988344	32375678	141	45789										
TRPS1	7227	broad.mit.edu	37	chr8	116616439	116616439	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctccaaggtgcttttctgggCtgcaaagtcctctgggacag	12	11	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:116616439C>A	uc003ynz.2	-	3	2177	c.1718G>T	c.(1717-1719)AGC>ATC	p.S573I	TRPS1_uc011lhy.1_Missense_Mutation_p.S577I|TRPS1_uc003yny.2_Missense_Mutation_p.S586I|TRPS1_uc010mcy.2_Missense_Mutation_p.S573I	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	573					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			CTTTTCTGGGCTGCAAAGTCC	0.453									Langer-Giedion_syndrome				35	74	---	---	---	---	PASS	A	116616439	A	A	116616439	3	1	126	1	0	0	0	0	1	0	0	0	16590	797	28	3	2143	3	TRPS1	8	116616439	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	2628095	116616439	29747583	142	45790										
FER1L6	654463	broad.mit.edu	37	chr8	125131175	125131175	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gaaaggagccagagcccctgGccaagcccaagtgagtggag	15	11	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:125131175G>T	uc003yqw.2	+	40	5586	c.5380G>T	c.(5380-5382)GCC>TCC	p.A1794S	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1794	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			AGAGCCCCTGGCCAAGCCCAA	0.502													15	47	---	---	---	---	PASS	T	125131175	T	T	125131175	3	4	126	1	0	0	0	0	1	0	0	0	5815	1203	42	3	5534	3	FER1L6	8	125131175	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	8514736	125131175	21232847	143	45791										
CYP11B2	1585	broad.mit.edu	37	chr8	143996584	143996584	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ccactgcatccaccatcgggAggaacctctgcacggccttg	10	16	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr8:143996584A>G	uc003yxk.1	-	3	476	c.473T>C	c.(472-474)CTC>CCC	p.L158P		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	158					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	CACCATCGGGAGGAACCTCTG	0.637									Familial_Hyperaldosteronism_type_I				12	38	---	---	---	---	PASS	G	143996584	G	G	143996584	3	3	126	1	0	0	0	0	1	0	0	0	4146	304	11	5	1066	5	CYP11B2	8	143996584	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	18865409	143996584	2367438	144	45792										
IL33	90865	broad.mit.edu	37	chr9	6254481	6254481	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ggtgacggtgttgatggtaaGatgttaatggtaaccctgag	15	4	0	4			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr9:6254481G>T	uc003zjt.2	+	7	597	c.540G>T	c.(538-540)AAG>AAT	p.K180N	IL33_uc011lmg.1_Missense_Mutation_p.K138N|IL33_uc011lmh.1_Missense_Mutation_p.K54N|IL33_uc003zju.1_Missense_Mutation_p.K180N	NM_033439	NP_254274	O95760	IL33_HUMAN	interleukin 33 precursor	180					positive regulation of chemokine secretion|positive regulation of inflammatory response|positive regulation of macrophage activation|positive regulation of transcription from RNA polymerase II promoter	extracellular space	cytokine activity				0		Acute lymphoblastic leukemia(23;0.158)|Prostate(43;0.167)		GBM - Glioblastoma multiforme(50;0.0161)|Lung(218;0.105)		TTGATGGTAAGATGTTAATGG	0.323													11	15	---	---	---	---	PASS	T	6254481	T	T	6254481	3	4	126	1	0	0	0	0	1	0	0	0	7693	933	33	2	562	2	IL33	9	6254481	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08		6254481	134958950	145	45793										
C9orf79	286234	broad.mit.edu	37	chr9	90502488	90502488	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agggtcccagtgggcaagggCtgaagatgccctgcaggcac	16	11	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr9:90502488C>G	uc004app.3	+	4	3121	c.3086C>G	c.(3085-3087)GCT>GGT	p.A1029G		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	1029						integral to membrane				ovary(3)	3						TGGGCAAGGGCTGAAGATGCC	0.597													37	73	---	---	---	---	PASS	G	90502488	G	G	90502488	3	3	126	1	0	0	0	0	1	0	0	0	2497	797	28	4	3100	4	C9orf79	9	90502488	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	84248007	90502488	50710943	146	45794										
SPIN1	10927	broad.mit.edu	37	chr9	91077445	91077445	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtgtgggtccgagcaaacctGtttcccagccccggcggaac	13	14	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr9:91077445G>C	uc010mqj.2	+	4	636	c.136G>C	c.(136-138)GTT>CTT	p.V46L	SPIN1_uc004apy.2_Missense_Mutation_p.V46L|SPIN1_uc004apz.2_Missense_Mutation_p.V46L|SPIN1_uc010mqk.2_Missense_Mutation_p.V46L	NM_006717	NP_006708	Q9Y657	SPIN1_HUMAN	spindlin	46					cell cycle|gamete generation|multicellular organismal development	nucleus	methylated histone residue binding				0						GAGCAAACCTGTTTCCCAGCC	0.488													26	109	---	---	---	---	PASS	C	91077445	C	C	91077445	3	2	126	1	0	0	0	0	1	0	0	0	15051	1377	48	4	146	4	SPIN1	9	91077445	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	574957	91077445	50135986	147	45795										
SVEP1	79987	broad.mit.edu	37	chr9	113312235	113312235	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	atgtcattcagctctcgaatGttcccttgccatatgccaaa	6	12	3	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr9:113312235G>T	uc010mtz.2	-	2	1018	c.681C>A	c.(679-681)AAC>AAA	p.N227K	SVEP1_uc010mua.1_Missense_Mutation_p.N227K|SVEP1_uc004beu.2_Missense_Mutation_p.N227K|SVEP1_uc004bev.2_5'UTR	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	227	VWFA.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GCTCTCGAATGTTCCCTTGCC	0.498													35	97	---	---	---	---	PASS	T	113312235	T	T	113312235	3	4	126	1	0	0	0	0	1	0	0	0	15417	1368	48	3	10222	3	SVEP1	9	113312235	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	22234790	113312235	27901196	148	45796										
SNX30	401548	broad.mit.edu	37	chr9	115598673	115598673	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gatcgaatagcccagcggatCatcaaagaagaaataggtga	11	7	2	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr9:115598673C>G	uc004bgj.3	+	5	946	c.798C>G	c.(796-798)ATC>ATG	p.I266M	SNX30_uc004bgi.3_5'Flank	NM_001012994	NP_001013012	Q5VWJ9	SNX30_HUMAN	sorting nexin family member 30	266					cell communication|protein transport	cytoplasm	phosphatidylinositol binding				0						CCCAGCGGATCATCAAAGAAG	0.468													50	63	---	---	---	---	PASS	G	115598673	G	G	115598673	3	3	126	1	0	0	0	0	1	0	0	0	14900	816	29	2	816	2	SNX30	9	115598673	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	2286438	115598673	25614758	149	45797										
FKBP15	23307	broad.mit.edu	37	chr9	115964868	115964868	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aacatgatggaccagttctgTctctggtcatcataaaaggt	9	8	4	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr9:115964868T>C	uc004bgs.2	-	6	559	c.441A>G	c.(439-441)AGA>AGG	p.R147R	FKBP15_uc010muu.1_Silent_p.R211R|FKBP15_uc011lxd.1_Silent_p.R79R|FKBP15_uc010mut.1_Silent_p.R15R|FKBP15_uc004bgt.2_Silent_p.R147R	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	147	Important for function in growth cone organization (By similarity).				endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						ACCAGTTCTGTCTCTGGTCAT	0.403													6	6	---	---	---	---	PASS	C	115964868	C	C	115964868	2	2	126	1	0	0	0	0	0	0	0	1	5905	1664	58	5		5	FKBP15	9	115964868	Silent	SNP	T	TCGA-60-2713-01A-01D-1522-08	366195	115964868	25248563	150	45798										
ASTN2	23245	broad.mit.edu	37	chr9	119977009	119977009	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cagcagcagcagcagcagcgCgatgaggccaccctggagca	14	14	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr9:119977009C>G	uc004bjs.1	-	3	744	c.643G>C	c.(643-645)GCG>CCG	p.A215P	ASTN2_uc004bjr.1_Missense_Mutation_p.A215P|ASTN2_uc004bjt.1_Missense_Mutation_p.A215P	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	215	Helical; (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						AGCAGCAGCGCGATGAGGCCA	0.612													13	43	---	---	---	---	PASS	G	119977009	G	G	119977009	3	3	126	1	0	0	0	0	1	0	0	0	1065	768	27	4	3535	4	ASTN2	9	119977009	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	4012141	119977009	21236422	151	45799										
LRRC8A	56262	broad.mit.edu	37	chr9	131671419	131671419	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctacatccccatccagatcgGcaacctcaccaacctggagc	6	18	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr9:131671419G>C	uc004bwl.3	+	3	2230	c.1976G>C	c.(1975-1977)GGC>GCC	p.G659A	LRRC8A_uc010myp.2_Missense_Mutation_p.G659A|LRRC8A_uc010myq.2_Missense_Mutation_p.G659A	NM_019594	NP_062540	Q8IWT6	LRC8A_HUMAN	leucine rich repeat containing 8 family, member	659	LRR 12.				pre-B cell differentiation	integral to membrane					0						ATCCAGATCGGCAACCTCACC	0.577													24	46	---	---	---	---	PASS	C	131671419	C	C	131671419	3	2	126	1	0	0	0	0	1	0	0	0	9021	1203	42	4	1978	4	LRRC8A	9	131671419	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	11694410	131671419	9542012	152	45800										
SARDH	1757	broad.mit.edu	37	chr9	136536678	136536678	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tttctcaatgctcagggagtCgatggcgcggtaccctgcgt	13	11	2	0	rs150998618	byFrequency	TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr9:136536678C>T	uc004cep.3	-	18	2439	c.2305G>A	c.(2305-2307)GAC>AAC	p.D769N	SARDH_uc004ceo.2_Missense_Mutation_p.D769N|SARDH_uc011mdn.1_Missense_Mutation_p.D769N|SARDH_uc011mdo.1_Missense_Mutation_p.D601N|SARDH_uc004cen.2_Missense_Mutation_p.D197N	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	769					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		CTCAGGGAGTCGATGGCGCGG	0.672													5	16	---	---	---	---	PASS	T	136536678	T	T	136536678	3	4	126	1	0	0	0	0	1	0	0	0	13841	884	31	2	467	2	SARDH	9	136536678	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	4865259	136536678	4676753	153	45801										
GPSM1	26086	broad.mit.edu	37	chr9	139229007	139229007	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttgaggctgctgtgcaggtgGgcaccgaggacctgaagaca	16	9	0	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr9:139229007G>A	uc004chd.2	+	2	392	c.172G>A	c.(172-174)GGC>AGC	p.G58S	GPSM1_uc004chc.2_Missense_Mutation_p.G58S	NM_001145638	NP_001139110	Q86YR5	GPSM1_HUMAN	G-protein signaling modulator 1 (AGS3-like, C.	58	TPR 1.|Mediates association with membranes (By similarity).				cell differentiation|nervous system development|signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|plasma membrane	binding|GTPase activator activity				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.39e-06)|Epithelial(140;3.24e-06)		TGTGCAGGTGGGCACCGAGGA	0.632													15	28	---	---	---	---	PASS	A	139229007	A	A	139229007	3	1	126	1	0	0	0	0	1	0	0	0	6734	1232	43	3	178	3	GPSM1	9	139229007	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	2692329	139229007	1984424	154	45802										
SFMBT2	57713	broad.mit.edu	37	chr10	7205846	7205846	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgcaccgtcggaagggtcagAagcaggagtgcttggccgtc	16	10	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:7205846A>T	uc009xio.1	-	21	2662	c.2571T>A	c.(2569-2571)CTT>CTA	p.L857L	SFMBT2_uc001ijn.1_Silent_p.L857L|SFMBT2_uc010qay.1_Silent_p.L692L	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	857	SAM.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GAAGGGTCAGAAGCAGGAGTG	0.567													24	54	---	---	---	---	PASS	T	7205846	T	T	7205846	2	4	126	1	0	0	0	0	0	0	0	1	14158	233	9	5		5	SFMBT2	10	7205846	Silent	SNP	A	TCGA-60-2713-01A-01D-1522-08		7205846	128328901	155	45803										
C10orf111	221060	broad.mit.edu	37	chr10	15138369	15138369	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	acagaaactataccagaaaaTaggatacaaaaccaacagtg	6	8	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:15138369T>A	uc001inw.2	-	2	729	c.455A>T	c.(454-456)TAT>TTT	p.Y152F	RPP38_uc001iny.3_5'Flank|RPP38_uc009xjm.2_5'Flank|RPP38_uc001inx.3_5'Flank	NM_153244	NP_694976	Q8N326	CJ111_HUMAN	hypothetical protein LOC221060	152						integral to membrane					0						TACCAGAAAATAGGATACAAA	0.284													10	27	---	---	---	---	PASS	A	15138369	A	A	15138369	3	1	126	1	0	0	0	0	1	0	0	0	1583	1406	49	5	16	5	C10orf111	10	15138369	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	7932523	15138369	120396378	156	45804										
ITGA8	8516	broad.mit.edu	37	chr10	15573126	15573126	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttcaaaggacaccagggatgCaagagcatagggatcatttt	11	7	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:15573126C>G	uc001ioc.1	-	28	2905	c.2905G>C	c.(2905-2907)GCA>CCA	p.A969P	ITGA8_uc010qcb.1_Missense_Mutation_p.A954P	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	969	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						ACCAGGGATGCAAGAGCATAG	0.308													56	132	---	---	---	---	PASS	G	15573126	G	G	15573126	3	3	126	1	0	0	0	0	1	0	0	0	7882	710	25	4	298	4	ITGA8	10	15573126	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	434757	15573126	119961621	157	45805										
MLLT10	8028	broad.mit.edu	37	chr10	21962303	21962303	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tttttcaggaactccaggcaGtgtaaagtcatcttctggaa	9	8	4	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:21962303G>T	uc001iqs.2	+	11	1424	c.1076G>T	c.(1075-1077)AGT>ATT	p.S359I	MLLT10_uc001iqt.2_Missense_Mutation_p.S359I|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Missense_Mutation_p.S359I|MLLT10_uc001ira.2_Intron|MLLT10_uc001irb.2_5'Flank|MLLT10_uc001iqz.2_Missense_Mutation_p.S114I	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	359	DNA-binding.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						ACTCCAGGCAGTGTAAAGTCA	0.428			T	MLL|PICALM|CDK6	AL								80	214	---	---	---	---	PASS	T	21962303	T	T	21962303	3	4	126	1	0	0	0	0	1	0	0	0	9626	1029	36	3	1114	3	MLLT10	10	21962303	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	6389177	21962303	113572444	158	45806										
GAD2	2572	broad.mit.edu	37	chr10	26534925	26534925	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgattctgattaaatgtgatGagaggtgagcacgcatcggc	13	6	1	5			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:26534925G>C	uc001isp.2	+	8	1419	c.916G>C	c.(916-918)GAG>CAG	p.E306Q	GAD2_uc001isq.2_Missense_Mutation_p.E306Q	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	306					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	TAAATGTGATGAGAGGTGAGC	0.428													13	38	---	---	---	---	PASS	C	26534925	C	C	26534925	3	2	126	1	0	0	0	0	1	0	0	0	6180	1291	45	2	946	2	GAD2	10	26534925	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	4572622	26534925	108999822	159	45807										
PDSS1	23590	broad.mit.edu	37	chr10	26998618	26998618	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aaatgtctgagtactactttGatgggaaagggaaagccttt	11	5	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:26998618G>T	uc001isv.2	+	5	434	c.388G>T	c.(388-390)GAT>TAT	p.D130Y	PDSS1_uc001isw.2_Missense_Mutation_p.D130Y	NM_014317	NP_055132	Q5T2R2	DPS1_HUMAN	prenyl diphosphate synthase, subunit 1	130					isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	metal ion binding|protein heterodimerization activity				0						GTACTACTTTGATGGGAAAGG	0.403													98	205	---	---	---	---	PASS	T	26998618	T	T	26998618	3	4	126	1	0	0	0	0	1	0	0	0	11693	1290	45	2	406	2	PDSS1	10	26998618	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	463693	26998618	108536129	160	45808										
CUL2	8453	broad.mit.edu	37	chr10	35324157	35324157	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcatcatggatgtggttttgCagctcctgaatcatatgagg	11	7	3	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:35324157C>T	uc001ixv.2	-	10	1155	c.945G>A	c.(943-945)CTG>CTA	p.L315L	CUL2_uc009xma.2_Silent_p.L184L|CUL2_uc010qer.1_Silent_p.L334L|CUL2_uc001ixw.2_Silent_p.L315L|CUL2_uc010qes.1_Silent_p.L252L	NM_003591	NP_003582	Q13617	CUL2_HUMAN	cullin 2	315					cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding			ovary(3)	3						TGTGGTTTTGCAGCTCCTGAA	0.458													15	93	---	---	---	---	PASS	T	35324157	T	T	35324157	2	4	126	1	0	0	0	0	0	0	0	1	4055	697	25	3		3	CUL2	10	35324157	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	8325539	35324157	100210590	161	45809										
OGDHL	55753	broad.mit.edu	37	chr10	50944484	50944484	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aggtcatagtacacctttccCgtgcagaagatgagccgctg	11	11	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:50944484C>A	uc001jie.2	-	21	2815	c.2673G>T	c.(2671-2673)ACG>ACT	p.T891T	OGDHL_uc009xog.2_Silent_p.T918T|OGDHL_uc010qgt.1_Silent_p.T834T|OGDHL_uc010qgu.1_Silent_p.T682T	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	891					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						ACACCTTTCCCGTGCAGAAGA	0.627													55	88	---	---	---	---	PASS	A	50944484	A	A	50944484	2	1	126	1	0	0	0	0	0	0	0	1	10840	639	23	1		1	OGDHL	10	50944484	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	15620327	50944484	84590263	162	45810										
SLC16A12	387700	broad.mit.edu	37	chr10	91198522	91198522	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ccataagccataaacagaacGgagacggctaacacaacaaa	7	11	0	2	rs142419410		TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:91198522G>C	uc001kgm.2	-	6	1168	c.777C>G	c.(775-777)TCC>TCG	p.S259S	SLC16A12_uc001kgl.2_5'Flank	NM_213606	NP_998771	Q6ZSM3	MOT12_HUMAN	solute carrier family 16 (monocarboxylic acid	259	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			skin(1)	1						TAAACAGAACGGAGACGGCTA	0.448													27	33	---	---	---	---	PASS	C	91198522	C	C	91198522	2	2	126	1	0	0	0	0	0	0	0	1	14405	1103	39	4		4	SLC16A12	10	91198522	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	40254038	91198522	44336225	163	45811										
PIK3AP1	118788	broad.mit.edu	37	chr10	98416601	98416601	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ccaccatcaggttcccaggtGaagtcaccgtcggcaggttc	11	14	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:98416601G>A	uc001kmq.2	-	3	649	c.521C>T	c.(520-522)TCA>TTA	p.S174L	PIK3AP1_uc001kmp.2_5'UTR	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	174						cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		GTTCCCAGGTGAAGTCACCGT	0.552													59	69	---	---	---	---	PASS	A	98416601	A	A	98416601	3	1	126	1	0	0	0	0	1	0	0	0	11908	1294	45	2	1956	2	PIK3AP1	10	98416601	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	7218079	98416601	37118146	164	45812										
DNMBP	23268	broad.mit.edu	37	chr10	101668899	101668899	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gactgggaggagaggagcgtCatttctagaagggaaaagag	17	4	2	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:101668899C>T	uc001kqj.2	-	5	2357	c.2265G>A	c.(2263-2265)ATG>ATA	p.M755I	DNMBP_uc001kqg.2_Missense_Mutation_p.M43I|DNMBP_uc001kqh.2_Missense_Mutation_p.M387I	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	755	Potential.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		AGAGGAGCGTCATTTCTAGAA	0.512													20	35	---	---	---	---	PASS	T	101668899	T	T	101668899	3	4	126	1	0	0	0	0	1	0	0	0	4674	826	29	2	2520	2	DNMBP	10	101668899	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	3252298	101668899	33865848	165	45813										
TRIM8	81603	broad.mit.edu	37	chr10	104404932	104404932	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgcgacgtggagatccgaagGaatgaaatccgggcaagtac	14	8	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:104404932G>C	uc001kvz.2	+	1	681	c.558G>C	c.(556-558)AGG>AGC	p.R186S		NM_030912	NP_112174	Q9BZR9	TRIM8_HUMAN	tripartite motif-containing 8	186	Potential.					cytoplasm|PML body	ligase activity|protein homodimerization activity|zinc ion binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		AGATCCGAAGGAATGAAATCC	0.582													12	12	---	---	---	---	PASS	C	104404932	C	C	104404932	3	2	126	1	0	0	0	0	1	0	0	0	16545	1165	41	2	560	2	TRIM8	10	104404932	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	2736033	104404932	31129815	166	45814										
SH3PXD2A	9644	broad.mit.edu	37	chr10	105484070	105484070	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cgggtcgagcctcgaagaacCggaagacttcgtcacactgt	12	12	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:105484070C>G	uc001kxj.1	-	5	496	c.356G>C	c.(355-357)CGG>CCG	p.R119P	SH3PXD2A_uc010qqu.1_Missense_Mutation_p.R49P	NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	119	PX.				cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)		CTCGAAGAACCGGAAGACTTC	0.557													9	8	---	---	---	---	PASS	G	105484070	G	G	105484070	3	3	126	1	0	0	0	0	1	0	0	0	14256	652	23	4	3001	4	SH3PXD2A	10	105484070	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	1079138	105484070	30050677	167	45815										
DPYSL4	10570	broad.mit.edu	37	chr10	134015564	134015564	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgtgggctctgacgctgacCtggtcatatggaaccccaag	12	12	2	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr10:134015564C>A	uc009ybb.2	+	11	1379	c.1225C>A	c.(1225-1227)CTG>ATG	p.L409M		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	409					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-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;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		TGACGCTGACCTGGTCATATG	0.542													19	135	---	---	---	---	PASS	A	134015564	A	A	134015564	3	1	126	1	0	0	0	0	1	0	0	0	4749	680	24	3	1267	3	DPYSL4	10	134015564	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	28531494	134015564	1519183	168	45816										
TSSC4	10078	broad.mit.edu	37	chr11	2424286	2424286	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gaaggcctgggcagggcccaTcggagccctgcctcaccaag	14	15	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:2424286T>A	uc001lwj.2	+	4	784	c.423T>A	c.(421-423)CAT>CAA	p.H141Q	TSSC4_uc001lwi.2_Missense_Mutation_p.H77Q|TSSC4_uc001lwk.2_Missense_Mutation_p.H141Q|TSSC4_uc001lwl.2_Missense_Mutation_p.H141Q	NM_005706	NP_005697	Q9Y5U2	TSSC4_HUMAN	tumor suppressing subtransferable candidate 4	141											0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.00145)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCAGGGCCCATCGGAGCCCTG	0.667													5	9	---	---	---	---	PASS	A	2424286	A	A	2424286	3	1	126	1	0	0	0	0	1	0	0	0	16664	1432	50	5	425	5	TSSC4	11	2424286	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08		2424286	132582230	169	45817										
OR51A7	119687	broad.mit.edu	37	chr11	4928829	4928829	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	catgggcctgtccctctcctCccttcctaccatgttgaggg	9	16	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:4928829C>A	uc010qyq.1	+	1	230	c.230C>A	c.(229-231)TCC>TAC	p.S77Y		NM_001004749	NP_001004749	Q8NH64	O51A7_HUMAN	olfactory receptor, family 51, subfamily A,	77	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCCCTCTCCTCCCTTCCTACC	0.453													71	157	---	---	---	---	PASS	A	4928829	A	A	4928829	3	1	126	1	0	0	0	0	1	0	0	0	11088	855	30	2	232	2	OR51A7	11	4928829	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	2504543	4928829	130077687	170	45818										
OR51B2	79345	broad.mit.edu	37	chr11	5344663	5344663	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cttggttttgatgctgtagaTgacagggttcattaaaggag	13	4	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:5344663T>A	uc001mao.1	-	1	920	c.865A>T	c.(865-867)ATC>TTC	p.I289F	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	289	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATGCTGTAGATGACAGGGTTC	0.378													10	163	---	---	---	---	PASS	A	5344663	A	A	5344663	3	1	126	1	0	0	0	0	1	0	0	0	11089	1464	51	5	77	5	OR51B2	11	5344663	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	415834	5344663	129661853	171	45819										
PRKCDBP	112464	broad.mit.edu	37	chr11	6340741	6340741	+	Silent	SNP	G	C	C													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agctcggactggtccgccggGcccaagggctctggtgcctt							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:6340741G>C	uc001mcu.1	-	2	472	c.438C>G	c.(436-438)GGC>GGG	p.G146G		NM_145040	NP_659477	Q969G5	PRDBP_HUMAN	protein kinase C, delta binding protein	146											0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGTCCGCCGGGCCCAAGGGCT	0.677													7	16	---	---	---	---	PASS	C	6340741	C	C	6340741	2	2	126	1	0	0	0	0	0	0	0	1	12510	1190	42	4		4	PRKCDBP	11	6340741	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	996078	6340741	128665775	172	45820	848	2								
PRKCDBP	112464	broad.mit.edu	37	chr11	6340742	6340742	+	Missense_Mutation	SNP	C	A	A													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gctcggactggtccgccgggCccaagggctctggtgccttc							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:6340742C>A	uc001mcu.1	-	2	471	c.437G>T	c.(436-438)GGC>GTC	p.G146V		NM_145040	NP_659477	Q969G5	PRDBP_HUMAN	protein kinase C, delta binding protein	146											0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GTCCGCCGGGCCCAAGGGCTC	0.677													7	15	---	---	---	---	PASS	A	6340742	A	A	6340742	3	1	126	1	0	0	0	0	1	0	0	0	12510	739	26	3	352	3	PRKCDBP	11	6340742	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	1	6340742	128665774	173	45821	848	2								
USP47	55031	broad.mit.edu	37	chr11	11962033	11962033	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tggaacgctgctacaatgatTtgcgtcttctcagtgtctcc	9	11	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:11962033T>G	uc001mjq.1	+	20	3074	c.2311T>G	c.(2311-2313)TTG>GTG	p.L771V	USP47_uc001mjr.2_Missense_Mutation_p.L683V|USP47_uc001mjs.2_Missense_Mutation_p.L751V|USP47_uc001mjt.1_Missense_Mutation_p.L57V	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	771					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		CTACAATGATTTGCGTCTTCT	0.338													60	121	---	---	---	---	PASS	G	11962033	G	G	11962033	3	3	126	1	0	0	0	0	1	0	0	0	17075	1838	64	5	2117	5	USP47	11	11962033	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	5621291	11962033	123044483	174	45822										
NAV2	89797	broad.mit.edu	37	chr11	20057511	20057511	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtttgtcttggcagctgggaCgacagcagctccgtcagcag	14	11	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:20057511C>T	uc010rdm.1	+	13	3205	c.2844C>T	c.(2842-2844)GAC>GAT	p.D948D	NAV2_uc001mpp.2_Silent_p.D861D|NAV2_uc001mpr.3_Silent_p.D925D|NAV2_uc001mpt.2_Silent_p.D11D|NAV2_uc009yhx.2_Silent_p.D11D|NAV2_uc009yhy.1_Translation_Start_Site	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	948						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						GCAGCTGGGACGACAGCAGCT	0.537													10	38	---	---	---	---	PASS	T	20057511	T	T	20057511	2	4	126	1	0	0	0	0	0	0	0	1	10184	535	19	1		1	NAV2	11	20057511	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	8095478	20057511	114949005	175	45823										
OR4C12	283093	broad.mit.edu	37	chr11	50003189	50003189	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcatttctgagtgtgtagacCacgggatttaacattgggac	12	7	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:50003189C>G	uc010ria.1	-	1	849	c.849G>C	c.(847-849)GTG>GTC	p.V283V		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GTGTGTAGACCACGGGATTTA	0.398													53	77	---	---	---	---	PASS	G	50003189	G	G	50003189	2	3	126	1	0	0	0	0	0	0	0	1	11046	581	21	4		4	OR4C12	11	50003189	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	29945678	50003189	85003327	176	45824										
OR4A15	81328	broad.mit.edu	37	chr11	55135622	55135622	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtccctgggttcccccatgtActtttttctggcttctttat	7	12	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:55135622A>T	uc010rif.1	+	1	263	c.263A>T	c.(262-264)TAC>TTC	p.Y88F		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	88	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TCCCCCATGTACTTTTTTCTG	0.413													17	284	---	---	---	---	PASS	T	55135622	T	T	55135622	3	4	126	1	0	0	0	0	1	0	0	0	11040	391	14	5	265	5	OR4A15	11	55135622	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	5132433	55135622	79870894	177	45825										
OR5D18	219438	broad.mit.edu	37	chr11	55587510	55587510	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aaccctctgctctacacagtTaacatgtcccagaaactctg	5	14	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:55587510T>C	uc010rin.1	+	1	405	c.405T>C	c.(403-405)GTT>GTC	p.V135V		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				TCTACACAGTTAACATGTCCC	0.468													137	288	---	---	---	---	PASS	C	55587510	C	C	55587510	2	2	126	1	0	0	0	0	0	0	0	1	11157	1741	61	5		5	OR5D18	11	55587510	Silent	SNP	T	TCGA-60-2713-01A-01D-1522-08	451888	55587510	79419006	178	45826										
SPRYD5	84767	broad.mit.edu	37	chr11	55655725	55655725	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aatgtgccataaagcagatgTggagctactccaggtatgga	12	7	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:55655725T>A	uc010rip.1	+	4	817	c.725T>A	c.(724-726)GTG>GAG	p.V242E	SPRYD5_uc010riq.1_Missense_Mutation_p.V99E	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	242						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				AAAGCAGATGTGGAGCTACTC	0.448													21	64	---	---	---	---	PASS	A	55655725	A	A	55655725	3	1	126	1	0	0	0	0	1	0	0	0	15110	1696	59	5	735	5	SPRYD5	11	55655725	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	68215	55655725	79350791	179	45827										
CTNND1	1500	broad.mit.edu	37	chr11	57571186	57571187	+	Frame_Shift_Del	DEL	AT	-	-													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agatgaagtgatcattcctcAttctggttgggagcgggaac							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:57571186_57571187delAT	uc001nmc.3	+	8	2085_2086	c.1514_1515delAT	c.(1513-1515)CATfs	p.H505fs	CTNND1_uc001nlh.1_Frame_Shift_Del_p.H505fs|CTNND1_uc001nlu.3_Frame_Shift_Del_p.H404fs|CTNND1_uc001nlt.3_Frame_Shift_Del_p.H404fs|CTNND1_uc001nls.3_Frame_Shift_Del_p.H404fs|CTNND1_uc001nlw.3_Frame_Shift_Del_p.H404fs|CTNND1_uc001nmf.3_Frame_Shift_Del_p.H505fs|CTNND1_uc001nmd.3_Frame_Shift_Del_p.H451fs|CTNND1_uc001nlk.3_Frame_Shift_Del_p.H451fs|CTNND1_uc001nme.3_Frame_Shift_Del_p.H505fs|CTNND1_uc001nll.3_Frame_Shift_Del_p.H451fs|CTNND1_uc001nmg.3_Frame_Shift_Del_p.H451fs|CTNND1_uc001nlj.3_Frame_Shift_Del_p.H451fs|CTNND1_uc001nlr.3_Frame_Shift_Del_p.H451fs|CTNND1_uc001nlp.3_Frame_Shift_Del_p.H451fs|CTNND1_uc001nlx.3_Frame_Shift_Del_p.H182fs|CTNND1_uc001nlz.3_Frame_Shift_Del_p.H182fs|CTNND1_uc009ymn.2_Frame_Shift_Del_p.H182fs|CTNND1_uc001nlm.3_Frame_Shift_Del_p.H505fs|CTNND1_uc001nly.3_Frame_Shift_Del_p.H182fs|CTNND1_uc001nmb.3_Frame_Shift_Del_p.H182fs|CTNND1_uc001nma.3_Frame_Shift_Del_p.H182fs|CTNND1_uc001nmi.3_Frame_Shift_Del_p.H404fs|CTNND1_uc001nmh.3_Frame_Shift_Del_p.H505fs|CTNND1_uc001nlq.3_Frame_Shift_Del_p.H404fs|CTNND1_uc001nln.3_Frame_Shift_Del_p.H505fs|CTNND1_uc001nli.3_Frame_Shift_Del_p.H505fs|CTNND1_uc001nlo.3_Frame_Shift_Del_p.H404fs|CTNND1_uc001nlv.3_Frame_Shift_Del_p.H404fs	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	505	ARM 4.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				ATCATTCCTCATTCTGGTTGGG	0.495													41	24	---	---	---	---		-	57571187	-	-	57571186	7	5	126	1	0	1	0	1	0	0	0	0	4019	217	8	0	1536	0	CTNND1	11	57571186	Frame_Shift_Del	DEL	AT	TCGA-60-2713-01A-01D-1522-08	1915461	57571186	77435330	180	45828										
OR4D6	219983	broad.mit.edu	37	chr11	59224895	59224895	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcttgggtgagtggtggtttGcattcaatcatccaggtaat	12	6	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:59224895G>A	uc010rku.1	+	1	462	c.462G>A	c.(460-462)TTG>TTA	p.L154L		NM_001004708	NP_001004708	Q8NGJ1	OR4D6_HUMAN	olfactory receptor, family 4, subfamily D,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTGGTGGTTTGCATTCAATCA	0.512													94	199	---	---	---	---	PASS	A	59224895	A	A	59224895	2	1	126	1	0	0	0	0	0	0	0	1	11058	1310	46	3		3	OR4D6	11	59224895	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	1653709	59224895	75781621	181	45829										
INTS5	80789	broad.mit.edu	37	chr11	62416509	62416509	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cagtgcccagcaaagctggtGacatgactgccagctgcagt	12	12	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:62416509G>C	uc001nud.2	-	2	1096	c.1043C>G	c.(1042-1044)TCA>TGA	p.S348*	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	348					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						CAAAGCTGGTGACATGACTGC	0.607													92	132	---	---	---	---	PASS	C	62416509	C	C	62416509	4	2	126	1	0	0	0	0	0	1	0	0	7781	1294	45	2	2020	2	INTS5	11	62416509	Nonsense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	3191614	62416509	72590007	182	45830										
PPP1R14B	26472	broad.mit.edu	37	chr11	64013996	64013996	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtgaccttcccttggcgcctCactgggccctcatcgtccgc	10	18	2	1	rs12787613		TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:64013996C>T	uc001nza.2	-	1	418	c.150G>A	c.(148-150)GTG>GTA	p.V50V		NM_138689	NP_619634	Q96C90	PP14B_HUMAN	protein phosphatase 1 regulatory subunit 14B	50					regulation of phosphorylation	cytoplasm	protein phosphatase inhibitor activity				0						CTTGGCGCCTCACTGGGCCCT	0.642													7	16	---	---	---	---	PASS	T	64013996	T	T	64013996	2	4	126	1	0	0	0	0	0	0	0	1	12360	813	29	2		2	PPP1R14B	11	64013996	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	1597487	64013996	70992520	183	45831										
SHANK2	22941	broad.mit.edu	37	chr11	70333107	70333107	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gagaggaaggccggggagttCctcctggcttccagccgctt	15	12	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:70333107C>T	uc001oqc.2	-	21	3369	c.3291G>A	c.(3289-3291)AGG>AGA	p.R1097R	SHANK2_uc010rqn.1_Silent_p.R509R|SHANK2_uc001opz.2_Silent_p.R502R|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	718					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)			CCGGGGAGTTCCTCCTGGCTT	0.716													20	33	---	---	---	---	PASS	T	70333107	T	T	70333107	2	4	126	1	0	0	0	0	0	0	0	1	14265	854	30	2		2	SHANK2	11	70333107	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	6319111	70333107	64673409	184	45832										
MYO7A	4647	broad.mit.edu	37	chr11	76900494	76900494	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctctgcgtgggctgtttcgcCccctccgagaagtttgtcaa	11	13	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:76900494C>G	uc001oyb.2	+	28	3881	c.3609C>G	c.(3607-3609)GCC>GCG	p.A1203A	MYO7A_uc010rsm.1_Silent_p.A1192A|MYO7A_uc001oyc.2_Silent_p.A1203A|MYO7A_uc009yus.1_RNA|MYO7A_uc009yut.1_Silent_p.A414A	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	1203	MyTH4 1.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						GCTGTTTCGCCCCCTCCGAGA	0.607													40	90	---	---	---	---	PASS	G	76900494	G	G	76900494	2	3	126	1	0	0	0	0	0	0	0	1	10082	610	22	4		4	MYO7A	11	76900494	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	6567387	76900494	58106022	185	45833										
FOLH1B	219595	broad.mit.edu	37	chr11	89424278	89424278	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tctacaatatttctatgaaaCatccacaggaaatgaagaca	5	8	2	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:89424278C>G	uc001pda.2	+	11	1454	c.928C>G	c.(928-930)CAT>GAT	p.H310D		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	310					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TTCTATGAAACATCCACAGGA	0.328													48	151	---	---	---	---	PASS	G	89424278	G	G	89424278	3	3	126	1	0	0	0	0	1	0	0	0	5980	478	17	4	962	4	FOLH1B	11	89424278	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	12523784	89424278	45582238	186	45834										
NAALAD2	10003	broad.mit.edu	37	chr11	89911209	89911209	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	caagactatgcagaagctttGaaaaactatgcagcaagtat	8	7	0	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:89911209G>A	uc001pdf.3	+	16	1891	c.1782G>A	c.(1780-1782)TTG>TTA	p.L594L	NAALAD2_uc009yvx.2_Silent_p.L561L|NAALAD2_uc009yvy.2_Intron	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	594	Extracellular (Potential).				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				CAGAAGCTTTGAAAAACTATG	0.338													76	149	---	---	---	---	PASS	A	89911209	A	A	89911209	2	1	126	1	0	0	0	0	0	0	0	1	10128	1281	45	2		2	NAALAD2	11	89911209	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	486931	89911209	45095307	187	45835										
MMP20	9313	broad.mit.edu	37	chr11	102479831	102479831	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	acggtaaacaaattaaaaccTagacaatatgagagagaaaa	7	5	0	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:102479831T>C	uc001phc.2	-	5	663	c.650_splice	c.e5-1	p.G217_splice		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein						proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		AATTAAAACCTAGACAATATG	0.398													37	61	---	---	---	---	PASS	C	102479831	C	C	102479831	5	2	126	1	0	0	0	0	0	0	1	0	9659	1536	53	5	827	5	MMP20	11	102479831	Splice_Site	SNP	T	TCGA-60-2713-01A-01D-1522-08	12568622	102479831	32526685	188	45836										
TTC12	54970	broad.mit.edu	37	chr11	113209554	113209554	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	caagctgcaaacccaggtgaAaggtgagcacgttcctgctg	12	11	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:113209554A>G	uc001pnu.2	+	9	740	c.635A>G	c.(634-636)AAA>AGA	p.K212R	TTC12_uc001pnv.2_Missense_Mutation_p.K218R|TTC12_uc001pnw.2_RNA|TTC12_uc001pnx.2_Missense_Mutation_p.K62R	NM_017868	NP_060338	Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12	212							binding			pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4		all_cancers(61;2.73e-16)|all_epithelial(67;8.64e-10)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.183)|Renal(330;0.187)		BRCA - Breast invasive adenocarcinoma(274;5.3e-06)|Epithelial(105;8.37e-05)|all cancers(92;0.000694)		ACCCAGGTGAAAGGTGAGCAC	0.488													45	98	---	---	---	---	PASS	G	113209554	G	G	113209554	3	3	126	1	0	0	0	0	1	0	0	0	16676	14	1	5	665	5	TTC12	11	113209554	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	10729723	113209554	21796962	189	45837										
HTR3A	3359	broad.mit.edu	37	chr11	113857739	113857739	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ccagaggcccccagccacctCccaagccaccaagactgatg	8	19	0	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:113857739C>T	uc010rxb.1	+	7	1456	c.1223C>T	c.(1222-1224)TCC>TTC	p.S408F	HTR3A_uc010rxa.1_Missense_Mutation_p.S376F|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Missense_Mutation_p.S355F	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	370	Cytoplasmic (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	CCAGCCACCTCCCAAGCCACC	0.577													13	41	---	---	---	---	PASS	T	113857739	T	T	113857739	3	4	126	1	0	0	0	0	1	0	0	0	7444	855	30	2	1275	2	HTR3A	11	113857739	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	648185	113857739	21148777	190	45838										
KIRREL3	84623	broad.mit.edu	37	chr11	126299112	126299112	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ggagtgctcctcaccctcccGaccagaggctggttccttgt	11	15	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:126299112G>T	uc001qea.2	-	15	2129	c.1768C>A	c.(1768-1770)CGG>AGG	p.R590R	KIRREL3_uc001qeb.2_Silent_p.R578R|ST3GAL4_uc001qdx.1_Intron	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	590	Cytoplasmic (Potential).				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		TCACCCTCCCGACCAGAGGCT	0.488													20	45	---	---	---	---	PASS	T	126299112	T	T	126299112	2	4	126	1	0	0	0	0	0	0	0	1	8326	1057	37	2		2	KIRREL3	11	126299112	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	12441373	126299112	8707404	191	45839										
ETS1	2113	broad.mit.edu	37	chr11	128360362	128360362	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aaaaccataccttttgggatCcccagtcgttgctgttcttt	7	11	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr11:128360362C>T	uc010sbs.1	-	2	508	c.192G>A	c.(190-192)GGG>GGA	p.G64G	ETS1_uc001qej.2_Silent_p.G108G|ETS1_uc009zch.2_Intron|ETS1_uc009zcg.2_Silent_p.G64G	NM_005238	NP_005229	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	64	PNT.				cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)		CTTTTGGGATCCCCAGTCGTT	0.443													40	158	---	---	---	---	PASS	T	128360362	T	T	128360362	2	4	126	1	0	0	0	0	0	0	0	1	5275	842	30	2		2	ETS1	11	128360362	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	2061250	128360362	6646154	192	45840										
WNK1	65125	broad.mit.edu	37	chr12	994619	994619	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cctctctgcaccatcttcctCttcctctcctggagcaggag	7	17	4	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:994619C>G	uc001qio.3	+	19	5156	c.4649C>G	c.(4648-4650)TCT>TGT	p.S1550C	WNK1_uc001qip.3_Missense_Mutation_p.S1303C|WNK1_uc001qir.3_Missense_Mutation_p.S723C	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1550					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CCATCTTCCTCTTCCTCTCCT	0.473													356	365	---	---	---	---	PASS	G	994619	G	G	994619	3	3	126	1	0	0	0	0	1	0	0	0	17374	913	32	2	6225	2	WNK1	12	994619	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08		994619	132857276	193	45841										
VWF	7450	broad.mit.edu	37	chr12	6076765	6076765	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	atcgatcatcacagtcttccCgggctggaagcagaggcacc	11	13	3	1	rs142316324	byFrequency	TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:6076765C>T	uc001qnn.1	-	47	8024	c.7774G>A	c.(7774-7776)GGG>AGG	p.G2592R	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2592	VWFC 3.				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)	ACAGTCTTCCCGGGCTGGAAG	0.617													92	135	---	---	---	---	PASS	T	6076765	T	T	6076765	3	4	126	1	0	0	0	0	1	0	0	0	17243	652	23	1	691	1	VWF	12	6076765	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	5082146	6076765	127775130	194	45842										
C1RL	51279	broad.mit.edu	37	chr12	7249253	7249253	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gagccaggcgttgcaggcctCcctgggagctacaggcagcc	15	14	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:7249253C>T	uc001qsn.2	-	6	1215	c.1198G>A	c.(1198-1200)GAG>AAG	p.E400K	C1RL_uc009zft.2_3'UTR	NM_016546	NP_057630	Q9NZP8	C1RL_HUMAN	complement component 1, r subcomponent-like	400	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis		serine-type endopeptidase activity			pancreas(1)	1						TTGCAGGCCTCCCTGGGAGCT	0.562													88	214	---	---	---	---	PASS	T	7249253	T	T	7249253	3	4	126	1	0	0	0	0	1	0	0	0	1973	864	30	2	269	2	C1RL	12	7249253	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	1172488	7249253	126602642	195	45843										
CD163	9332	broad.mit.edu	37	chr12	7636217	7636217	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcccccaggaacctccatgcCagatctccacacgtccagaa	6	18	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:7636217C>T	uc001qsz.3	-	12	2962	c.2834G>A	c.(2833-2835)TGG>TAG	p.W945*	CD163_uc001qta.3_Nonsense_Mutation_p.W945*|CD163_uc009zfw.2_Nonsense_Mutation_p.W978*	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	945	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						ACCTCCATGCCAGATCTCCAC	0.478													40	97	---	---	---	---	PASS	T	7636217	T	T	7636217	4	4	126	1	0	0	0	0	0	1	0	0	2967	595	21	3	656	3	CD163	12	7636217	Nonsense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	386964	7636217	126215678	196	45844										
PIK3C2G	5288	broad.mit.edu	37	chr12	18691231	18691231	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aagcacagccaactgctcttGaacctgctggaaatggtaag	10	10	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:18691231G>A	uc001rdt.2	+	24	3458	c.3342G>A	c.(3340-3342)TTG>TTA	p.L1114L	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Silent_p.L1155L|PIK3C2G_uc010sic.1_Silent_p.L933L	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	1114	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				AACTGCTCTTGAACCTGCTGG	0.373													44	87	---	---	---	---	PASS	A	18691231	A	A	18691231	2	1	126	1	0	0	0	0	0	0	0	1	11911	1281	45	2		2	PIK3C2G	12	18691231	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	11055014	18691231	115160664	197	45845										
FAM113B	91523	broad.mit.edu	37	chr12	47628923	47628923	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	catcctgggggactctgtgcAtagggcagtatacaaggacc	13	10	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:47628923A>G	uc001rpn.2	+	4	808	c.77A>G	c.(76-78)CAT>CGT	p.H26R	FAM113B_uc010slj.1_Intron|FAM113B_uc001rpq.2_Missense_Mutation_p.H26R	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	26							hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					GACTCTGTGCATAGGGCAGTA	0.592													37	49	---	---	---	---	PASS	G	47628923	G	G	47628923	3	3	126	1	0	0	0	0	1	0	0	0	5402	217	8	5	79	5	FAM113B	12	47628923	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	28937692	47628923	86222972	198	45846										
SCN8A	6334	broad.mit.edu	37	chr12	52163735	52163735	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtccctgtggaacagcctgaGgaatacttggatccagatgc	12	10	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:52163735G>T	uc001ryw.2	+	18	3634	c.3456G>T	c.(3454-3456)GAG>GAT	p.E1152D	SCN8A_uc010snl.1_Missense_Mutation_p.E1017D	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	1152					axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	AACAGCCTGAGGAATACTTGG	0.512													6	12	---	---	---	---	PASS	T	52163735	T	T	52163735	3	4	126	1	0	0	0	0	1	0	0	0	13924	991	35	3	3522	3	SCN8A	12	52163735	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	4534812	52163735	81688160	199	45847										
ESPL1	9700	broad.mit.edu	37	chr12	53680386	53680386	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgtactacccaactttttgCaagctcctggggctggcagc	10	13	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:53680386C>T	uc001sck.2	+	18	3957	c.3866C>T	c.(3865-3867)GCA>GTA	p.A1289V	ESPL1_uc001scj.2_Missense_Mutation_p.A964V|ESPL1_uc010soe.1_Intron	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1289					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CAACTTTTTGCAAGCTCCTGG	0.562													47	71	---	---	---	---	PASS	T	53680386	T	T	53680386	3	4	126	1	0	0	0	0	1	0	0	0	5253	710	25	3	3932	3	ESPL1	12	53680386	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	1516651	53680386	80171509	200	45848										
LRIG3	121227	broad.mit.edu	37	chr12	59276795	59276795	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tagctggcaatcgcacaaaaGgcttgatgtatttaaatgcc	9	8	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:59276795G>C	uc001sqr.2	-	12	1582	c.1336C>G	c.(1336-1338)CTT>GTT	p.L446V	LRIG3_uc009zqh.2_Missense_Mutation_p.L386V|LRIG3_uc010ssh.1_RNA	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like	446	LRRCT.					integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			TCGCACAAAAGGCTTGATGTA	0.393													26	65	---	---	---	---	PASS	C	59276795	C	C	59276795	3	2	126	1	0	0	0	0	1	0	0	0	8946	1000	35	4	2055	4	LRIG3	12	59276795	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	5596409	59276795	74575100	201	45849										
NR1H4	9971	broad.mit.edu	37	chr12	100928734	100928734	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgtgaagcagcatgcagatcAgaccgtgaatgaagacagtg	13	7	1	6			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:100928734A>T	uc001tht.1	+	4	723	c.695A>T	c.(694-696)CAG>CTG	p.Q232L	NR1H4_uc001thp.1_Missense_Mutation_p.Q218L|NR1H4_uc001thq.1_Missense_Mutation_p.Q222L|NR1H4_uc010svj.1_RNA|NR1H4_uc001thr.1_Missense_Mutation_p.Q222L|NR1H4_uc010svk.1_Missense_Mutation_p.Q171L|NR1H4_uc001ths.1_Missense_Mutation_p.Q228L	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	232					bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						CATGCAGATCAGACCGTGAAT	0.418													21	88	---	---	---	---	PASS	T	100928734	T	T	100928734	3	4	126	1	0	0	0	0	1	0	0	0	10619	188	7	5	667	5	NR1H4	12	100928734	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	41651939	100928734	32923161	202	45850										
GPN3	51184	broad.mit.edu	37	chr12	110902989	110902989	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agaccggttgagggcttcacAgtgctggaccatggtggcac	15	10	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:110902989A>C	uc001tqr.2	-	2	135	c.79T>G	c.(79-81)TGT>GGT	p.C27G	GPN3_uc001tqs.2_Missense_Mutation_p.C37G	NM_016301	NP_057385	Q9UHW5	GPN3_HUMAN	GPN-loop GTPase 3 isoform 1	27						protein complex	GTP binding				0						AGGGCTTCACAGTGCTGGACC	0.502													20	99	---	---	---	---	PASS	C	110902989	C	C	110902989	3	2	126	1	0	0	0	0	1	0	0	0	6619	188	7	5	803	5	GPN3	12	110902989	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	9974255	110902989	22948906	203	45851										
C12orf51	283450	broad.mit.edu	37	chr12	112686205	112686205	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aaatcatattcttcagcatgTtcttcttgatattggaaatt	5	6	5	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:112686205T>C	uc009zwc.2	-	19	2814	c.2796A>G	c.(2794-2796)GAA>GAG	p.E932E		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CTTCAGCATGTTCTTCTTGAT	0.373													23	35	---	---	---	---	PASS	C	112686205	C	C	112686205	2	2	126	1	0	0	0	0	0	0	0	1	1696	1722	60	5		5	C12orf51	12	112686205	Silent	SNP	T	TCGA-60-2713-01A-01D-1522-08	1783216	112686205	21165690	204	45852										
CCDC62	84660	broad.mit.edu	37	chr12	123276602	123276602	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agacgacagaaaataatgagCaacgagaagagatcattcgc	10	7	1	5			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:123276602C>A	uc001udc.2	+	6	851	c.706C>A	c.(706-708)CAA>AAA	p.Q236K	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Missense_Mutation_p.Q236K|CCDC62_uc001ude.2_Intron	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	236	Potential.					cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		AAATAATGAGCAACGAGAAGA	0.378													4	197	---	---	---	---	PASS	A	123276602	A	A	123276602	3	1	126	1	0	0	0	0	1	0	0	0	2833	711	25	3	728	3	CCDC62	12	123276602	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	10590397	123276602	10575293	205	45853										
POLE	5426	broad.mit.edu	37	chr12	133202806	133202806	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agcggcaggggtctcggaacTgggcctcctcggagaactcg	16	12	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:133202806T>A	uc001uks.1	-	46	6472	c.6428A>T	c.(6427-6429)CAG>CTG	p.Q2143L	POLE_uc001ukq.1_Missense_Mutation_p.Q353L|POLE_uc001ukr.1_Missense_Mutation_p.Q947L|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	2143					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		GTCTCGGAACTGGGCCTCCTC	0.582								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					12	28	---	---	---	---	PASS	A	133202806	A	A	133202806	3	1	126	1	0	0	0	0	1	0	0	0	12196	1580	55	5	448	5	POLE	12	133202806	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	9926204	133202806	649089	206	45854										
GOLGA3	2802	broad.mit.edu	37	chr12	133363004	133363004	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cgtccgcagcctccttggccGcgagggcctcctgcaggcgg	15	17	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr12:133363004G>A	uc001ukz.1	-	15	3603	c.3044C>T	c.(3043-3045)GCG>GTG	p.A1015V	GOLGA3_uc001ula.1_Missense_Mutation_p.A1015V|GOLGA3_uc001ulb.2_Missense_Mutation_p.A1015V	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1015	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CTCCTTGGCCGCGAGGGCCTC	0.652													3	32	---	---	---	---	PASS	A	133363004	A	A	133363004	3	1	126	1	0	0	0	0	1	0	0	0	6554	1087	38	1	1630	1	GOLGA3	12	133363004	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	160198	133363004	488891	207	45855										
SCEL	8796	broad.mit.edu	37	chr13	78192138	78192138	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttctctctctcttttaaacaGccaagacttggacaatctta	4	11	4	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr13:78192138G>A	uc001vki.2	+	27	1742	c.1572_splice	c.e27-1	p.S524_splice	SCEL_uc001vkj.2_Splice_Site_p.S504_splice|SCEL_uc010thx.1_Splice_Site_p.S482_splice	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1						embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		CTTTTAAACAGCCAAGACTTG	0.358													71	110	---	---	---	---	PASS	A	78192138	A	A	78192138	5	1	126	1	0	0	0	0	0	0	1	0	13888	985	34	3	1673	3	SCEL	13	78192138	Splice_Site	SNP	G	TCGA-60-2713-01A-01D-1522-08		78192138	36977740	208	45856										
ABHD13	84945	broad.mit.edu	37	chr13	108882501	108882501	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aggctatttcactgcacttgAacagttcatcaaagaagtcg	8	9	3	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr13:108882501A>G	uc001vqq.2	+	2	1200	c.935A>G	c.(934-936)GAA>GGA	p.E312G		NM_032859	NP_116248	Q7L211	ABHDD_HUMAN	abhydrolase domain containing 13	312						integral to membrane	hydrolase activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					ACTGCACTTGAACAGTTCATC	0.383													45	55	---	---	---	---	PASS	G	108882501	G	G	108882501	3	3	126	1	0	0	0	0	1	0	0	0	78	246	9	5	937	5	ABHD13	13	108882501	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	30690363	108882501	6287377	209	45857										
LRFN5	145581	broad.mit.edu	37	chr14	42356319	42356319	+	Missense_Mutation	SNP	G	C	C													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	taatctagaaaccattccttGggatgctgttgagaagatgg							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr14:42356319G>C	uc001wvm.2	+	3	1689	c.491G>C	c.(490-492)TGG>TCG	p.W164S	LRFN5_uc010ana.2_Missense_Mutation_p.W164S	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	164	Extracellular (Potential).|LRR 5.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		ACCATTCCTTGGGATGCTGTT	0.413										HNSCC(30;0.082)			45	46	---	---	---	---	PASS	C	42356319	C	C	42356319	3	2	126	1	0	0	0	0	1	0	0	0	8941	1357	47	4	493	4	LRFN5	14	42356319	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08		42356319	64993221	210	45858	849	2								
LRFN5	145581	broad.mit.edu	37	chr14	42356320	42356320	+	Missense_Mutation	SNP	G	T	T													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aatctagaaaccattccttgGgatgctgttgagaagatggt							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr14:42356320G>T	uc001wvm.2	+	3	1690	c.492G>T	c.(490-492)TGG>TGT	p.W164C	LRFN5_uc010ana.2_Missense_Mutation_p.W164C	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	164	Extracellular (Potential).|LRR 5.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		CCATTCCTTGGGATGCTGTTG	0.413										HNSCC(30;0.082)			44	46	---	---	---	---	PASS	T	42356320	T	T	42356320	3	4	126	1	0	0	0	0	1	0	0	0	8941	1241	43	3	494	3	LRFN5	14	42356320	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	1	42356320	64993220	211	45859	849	2								
C14orf37	145407	broad.mit.edu	37	chr14	58605845	58605845	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgttgccgatggtactgctgAcatcatcattggatcttcag	10	9	4	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr14:58605845A>T	uc001xdc.2	-	2	343	c.232T>A	c.(232-234)TCA>ACA	p.S78T	C14orf37_uc010tro.1_Missense_Mutation_p.S116T|C14orf37_uc001xdd.2_Missense_Mutation_p.S78T|C14orf37_uc001xde.2_Missense_Mutation_p.S78T	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	78	Extracellular (Potential).					integral to membrane	binding				0						GGTACTGCTGACATCATCATT	0.468													9	200	---	---	---	---	PASS	T	58605845	T	T	58605845	3	4	126	1	0	0	0	0	1	0	0	0	1771	275	10	5	2120	5	C14orf37	14	58605845	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	16249525	58605845	48743695	212	45860										
DLST	1743	broad.mit.edu	37	chr14	75361058	75361058	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcgcattgctcagcgtctgaAggaggcccagaatacatgtg	13	10	2	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr14:75361058A>C	uc001xqv.2	+	10	779	c.716A>C	c.(715-717)AAG>ACG	p.K239T	DLST_uc001xqu.2_Missense_Mutation_p.K151T|DLST_uc001xqt.2_Missense_Mutation_p.K155T|DLST_uc010tuw.1_Missense_Mutation_p.K153T|DLST_uc001xqs.2_RNA|DLST_uc010tuv.1_Missense_Mutation_p.K239T	NM_001933	NP_001924	P36957	ODO2_HUMAN	dihydrolipoamide S-succinyltransferase (E2	239					lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	dihydrolipoyllysine-residue succinyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00698)		CAGCGTCTGAAGGAGGCCCAG	0.463													47	101	---	---	---	---	PASS	C	75361058	C	C	75361058	3	2	126	1	0	0	0	0	1	0	0	0	4569	72	3	5	754	5	DLST	14	75361058	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	16755213	75361058	31988482	213	45861										
KCNK10	54207	broad.mit.edu	37	chr14	88652016	88652016	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gctggagttgtctgagttacAcatcttttccgtctcctcct	8	12	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr14:88652016A>G	uc001xwo.2	-	7	1937	c.1480T>C	c.(1480-1482)TGT>CGT	p.C494R	KCNK10_uc001xwm.2_Missense_Mutation_p.C499R|KCNK10_uc001xwn.2_Missense_Mutation_p.C499R	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	494	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						TCTGAGTTACACATCTTTTCC	0.517													68	57	---	---	---	---	PASS	G	88652016	G	G	88652016	3	3	126	1	0	0	0	0	1	0	0	0	8059	159	6	5	140	5	KCNK10	14	88652016	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	13290958	88652016	18697524	214	45862										
EML5	161436	broad.mit.edu	37	chr14	89123748	89123748	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aattgagggttctttttgttGtaaatgaggcttgattccta	10	4	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr14:89123748G>A	uc001xxg.2	-	28	4162	c.3976C>T	c.(3976-3978)CAA>TAA	p.Q1326*	EML5_uc001xxf.2_Nonsense_Mutation_p.Q121*|EML5_uc001xxh.1_Nonsense_Mutation_p.Q465*	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	1326						cytoplasm|microtubule				ovary(3)	3						TCTTTTTGTTGTAAATGAGGC	0.313													5	7	---	---	---	---	PASS	A	89123748	A	A	89123748	4	1	126	1	0	0	0	0	0	1	0	0	5100	1386	48	3	2025	3	EML5	14	89123748	Nonsense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	471732	89123748	18225792	215	45863										
DICER1	23405	broad.mit.edu	37	chr14	95556996	95556996	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cccgtcgtaagttctctcagCcgggctgtaaaaaatccaaa	8	12	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr14:95556996C>A	uc001ydw.2	-	28	5790	c.5608G>T	c.(5608-5610)GCT>TCT	p.A1870S	DICER1_uc010avh.1_Missense_Mutation_p.A768S|DICER1_uc001ydv.2_Missense_Mutation_p.A1860S|DICER1_uc001ydx.2_Missense_Mutation_p.A1870S	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1870	DRBM.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		GTTCTCTCAGCCGGGCTGTAA	0.433			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				125	119	---	---	---	---	PASS	A	95556996	A	A	95556996	3	1	126	1	0	0	0	0	1	0	0	0	4521	739	26	3	164	3	DICER1	14	95556996	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	6433248	95556996	11792544	216	45864										
PPP2R5C	5527	broad.mit.edu	37	chr14	102375969	102375969	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	acgccctgaagctcttcatgGagatgaaccaaaagctattt	8	10	2	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr14:102375969G>C	uc001yko.2	+	11	1335	c.1195G>C	c.(1195-1197)GAG>CAG	p.E399Q	PPP2R5C_uc010txr.1_Missense_Mutation_p.E430Q|PPP2R5C_uc001ykk.2_Missense_Mutation_p.E454Q|PPP2R5C_uc001ykn.2_Missense_Mutation_p.E399Q|PPP2R5C_uc001ykp.2_Missense_Mutation_p.E399Q|PPP2R5C_uc001ykq.2_Missense_Mutation_p.G254A	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	399					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|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						GCTCTTCATGGAGATGAACCA	0.443													74	89	---	---	---	---	PASS	C	102375969	C	C	102375969	3	2	126	1	0	0	0	0	1	0	0	0	12394	1175	41	2	1606	2	PPP2R5C	14	102375969	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	6818973	102375969	4973571	217	45865										
HERC2	8924	broad.mit.edu	37	chr15	28520140	28520140	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcccctccacacctttgcccGcaggccgggaactgcagacg	11	18	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr15:28520140G>A	uc001zbj.2	-	6	660	c.554C>T	c.(553-555)GCG>GTG	p.A185V	HERC2_uc001zbl.1_5'UTR	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	185					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ACCTTTGCCCGCAGGCCGGGA	0.577													3	47	---	---	---	---	PASS	A	28520140	A	A	28520140	3	1	126	1	0	0	0	0	1	0	0	0	7058	1087	38	1	14302	1	HERC2	15	28520140	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08		28520140	74011252	218	45866										
RYR3	6263	broad.mit.edu	37	chr15	34021227	34021227	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcttctgcctctctagatacAgtaagttgcaaaaataacaa	6	9	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr15:34021227A>C	uc001zhi.2	+	47	7273	c.7203A>C	c.(7201-7203)ACA>ACC	p.T2401T	RYR3_uc010bar.2_Silent_p.T2401T	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2401	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CTCTAGATACAGTAAGTTGCA	0.363													18	52	---	---	---	---	PASS	C	34021227	C	C	34021227	2	2	126	1	0	0	0	0	0	0	0	1	13770	202	7	5		5	RYR3	15	34021227	Silent	SNP	A	TCGA-60-2713-01A-01D-1522-08	5501087	34021227	68510165	219	45867										
PLCB2	5330	broad.mit.edu	37	chr15	40594337	40594337	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ggaggggttggggggctcacTtcttcaccggaatcttccct	14	11	4	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr15:40594337T>G	uc001zld.2	-	6	807	c.506A>C	c.(505-507)AAC>ACC	p.N169T	PLCB2_uc010bbo.2_Missense_Mutation_p.N169T|PLCB2_uc010ucm.1_Missense_Mutation_p.N169T|PLCB2_uc001zle.3_Missense_Mutation_p.N169T	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	169					activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		GGGGGCTCACTTCTTCACCGG	0.592													97	248	---	---	---	---	PASS	G	40594337	G	G	40594337	3	3	126	1	0	0	0	0	1	0	0	0	12028	1623	56	5	3159	5	PLCB2	15	40594337	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	6573110	40594337	61937055	220	45868										
NDUFAF1	51103	broad.mit.edu	37	chr15	41679764	41679764	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gaatggaccatccactttatCagccaaggtgaatcctatag	8	10	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr15:41679764C>G	uc001znx.2	-	5	1244	c.862G>C	c.(862-864)GAT>CAT	p.D288H	NDUFAF1_uc010bcf.2_RNA	NM_016013	NP_057097	Q9Y375	CIA30_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	288					mitochondrial electron transport, NADH to ubiquinone|protein complex assembly	mitochondrial respiratory chain complex I	unfolded protein binding			ovary(1)	1		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;8e-17)|GBM - Glioblastoma multiforme(113;1.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.114)		TCCACTTTATCAGCCAAGGTG	0.348													39	71	---	---	---	---	PASS	G	41679764	G	G	41679764	3	3	126	1	0	0	0	0	1	0	0	0	10274	826	29	2	125	2	NDUFAF1	15	41679764	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	1085427	41679764	60851628	221	45869										
PYGO1	26108	broad.mit.edu	37	chr15	55838348	55838348	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgcagttaagaggccataaGctgtttcagtcattccagta	9	9	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr15:55838348G>T	uc010bfl.1	-	3	1189	c.1133C>A	c.(1132-1134)GCT>GAT	p.A378D	PYGO1_uc002adf.1_Missense_Mutation_p.A378D	NM_015617	NP_056432	Q9Y3Y4	PYGO1_HUMAN	pygopus homolog 1	378	PHD-type.				Wnt receptor signaling pathway	nucleus	zinc ion binding			ovary(1)|skin(1)	2				all cancers(107;0.0131)|GBM - Glioblastoma multiforme(80;0.18)		GAGGCCATAAGCTGTTTCAGT	0.438													59	120	---	---	---	---	PASS	T	55838348	T	T	55838348	3	4	126	1	0	0	0	0	1	0	0	0	12863	971	34	3	130	3	PYGO1	15	55838348	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	14158584	55838348	46693044	222	45870										
LINGO1	84894	broad.mit.edu	37	chr15	77907010	77907010	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtgaagtagttgggcagtagCacatcagggaagtccttgaa	14	6	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr15:77907010C>T	uc002bct.1	-	2	1291	c.1239G>A	c.(1237-1239)GTG>GTA	p.V413V	LINGO1_uc002bcu.1_Silent_p.V407V	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	413	Extracellular (Potential).|LRRCT.|Ig-like C2-type.				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						TGGGCAGTAGCACATCAGGGA	0.652													3	4	---	---	---	---	PASS	T	77907010	T	T	77907010	2	4	126	1	0	0	0	0	0	0	0	1	8814	697	25	3		3	LINGO1	15	77907010	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	22068662	77907010	24624382	223	45871										
VPS33B	26276	broad.mit.edu	37	chr15	91550786	91550786	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcctgagctacagtgttgatCcaacgctgatctccttcctg	9	13	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr15:91550786C>T	uc002bqp.1	-	8	870	c.516G>A	c.(514-516)TGG>TGA	p.W172*	VPS33B_uc002bqq.1_Nonsense_Mutation_p.W81*|VPS33B_uc010uqu.1_Nonsense_Mutation_p.W145*	NM_018668	NP_061138	Q9H267	VP33B_HUMAN	vacuolar protein sorting 33B (yeast homolog))	172					cellular membrane fusion|lysosome localization|melanosome localization|platelet alpha granule organization|protein transport|vesicle docking involved in exocytosis	late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm|platelet alpha granule	protein binding			ovary(2)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					CAGTGTTGATCCAACGCTGAT	0.522													32	79	---	---	---	---	PASS	T	91550786	T	T	91550786	4	4	126	1	0	0	0	0	0	1	0	0	17199	856	30	2	1401	2	VPS33B	15	91550786	Nonsense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	13643776	91550786	10980606	224	45872										
PKMYT1	9088	broad.mit.edu	37	chr16	3026838	3026838	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtgccagcctggggtccgagGagggaagaggcggctgatgg	21	8	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr16:3026838G>A	uc002csn.2	-	3	648	c.205C>T	c.(205-207)CCT>TCT	p.P69S	PKMYT1_uc010uwn.1_RNA|PKMYT1_uc002csm.2_Missense_Mutation_p.P69S|PKMYT1_uc002cso.2_Intron|PKMYT1_uc002csp.2_Missense_Mutation_p.P60S|PKMYT1_uc002csq.2_Missense_Mutation_p.P60S|PKMYT1_uc010bsy.1_Missense_Mutation_p.P60S	NM_004203	NP_004194	Q99640	PMYT1_HUMAN	protein kinase Myt1 isoform 1	69	Pro-rich.				G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis	endoplasmic reticulum membrane|Golgi membrane|membrane fraction|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1						GGGGTCCGAGGAGGGAAGAGG	0.692													6	0	---	---	---	---	PASS	A	3026838	A	A	3026838	3	1	126	1	0	0	0	0	1	0	0	0	11978	1174	41	2	1360	2	PKMYT1	16	3026838	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08		3026838	87327915	225	45873										
CLEC16A	23274	broad.mit.edu	37	chr16	11217769	11217769	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cgcctggccaaaggccgcatCcaggcaaggcgcatgaagat	13	13	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr16:11217769C>T	uc002dao.2	+	21	2669	c.2439C>T	c.(2437-2439)ATC>ATT	p.I813I	CLEC16A_uc002dan.3_Silent_p.I795I|CLEC16A_uc002dap.2_5'Flank	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	813										ovary(1)|central_nervous_system(1)	2						AAGGCCGCATCCAGGCAAGGC	0.597													25	11	---	---	---	---	PASS	T	11217769	T	T	11217769	2	4	126	1	0	0	0	0	0	0	0	1	3500	845	30	2		2	CLEC16A	16	11217769	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	8190931	11217769	79136984	226	45874										
DNAH3	55567	broad.mit.edu	37	chr16	20975048	20975048	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cacacctcctccgtaatttcCttcttctgtttcatgatgcc	4	15	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr16:20975048C>T	uc010vbe.1	-	53	10158	c.10158G>A	c.(10156-10158)AAG>AAA	p.K3386K	DNAH3_uc010vbd.1_Silent_p.K821K	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3386					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CCGTAATTTCCTTCTTCTGTT	0.512													35	104	---	---	---	---	PASS	T	20975048	T	T	20975048	2	4	126	1	0	0	0	0	0	0	0	1	4603	680	24	3		3	DNAH3	16	20975048	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	9757279	20975048	69379705	227	45875										
OTOA	146183	broad.mit.edu	37	chr16	21702908	21702908	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gtgtttgtgtcatttagatcTgcagtgttcaaagatctcta	9	6	4	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr16:21702908T>A	uc002djh.2	+	8	640	c.639T>A	c.(637-639)TCT>TCA	p.S213S	uc002diq.3_Intron|OTOA_uc010vbj.1_Silent_p.S134S	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	213					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		CATTTAGATCTGCAGTGTTCA	0.468													49	61	---	---	---	---	PASS	A	21702908	A	A	21702908	2	1	126	1	0	0	0	0	0	0	0	1	11302	1567	55	5		5	OTOA	16	21702908	Silent	SNP	T	TCGA-60-2713-01A-01D-1522-08	727860	21702908	68651845	228	45876										
HS3ST2	9956	broad.mit.edu	37	chr16	22926300	22926300	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gaccctcgagagccagatcaCgctggagaagacgcccagct	12	14	1	4			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr16:22926300C>T	uc002dli.2	+	2	593	c.521C>T	c.(520-522)ACG>ATG	p.T174M	HS3ST2_uc002dlj.2_RNA	NM_006043	NP_006034	Q9Y278	HS3S2_HUMAN	heparan sulfate D-glucosaminyl	174	Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 2 activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(48;0.0299)		AGCCAGATCACGCTGGAGAAG	0.572													119	133	---	---	---	---	PASS	T	22926300	T	T	22926300	3	4	126	1	0	0	0	0	1	0	0	0	7364	536	19	1	527	1	HS3ST2	16	22926300	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	1223392	22926300	67428453	229	45877										
ABCC11	85320	broad.mit.edu	37	chr16	48264455	48264455	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ggatttctctcttgctgactCcaggggccatcttggagagt	12	10	3	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr16:48264455C>T	uc002eff.1	-	2	479	c.129G>A	c.(127-129)TGG>TGA	p.W43*	ABCC11_uc002efg.1_Nonsense_Mutation_p.W43*|ABCC11_uc002efh.1_Nonsense_Mutation_p.W43*|ABCC11_uc010vgl.1_Nonsense_Mutation_p.W43*	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	43	Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				CTTGCTGACTCCAGGGGCCAT	0.493									Cerumen_Type				24	17	---	---	---	---	PASS	T	48264455	T	T	48264455	4	4	126	1	0	0	0	0	0	1	0	0	51	856	30	2	4131	2	ABCC11	16	48264455	Nonsense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	25338155	48264455	42090298	230	45878										
ZNF423	23090	broad.mit.edu	37	chr16	49669764	49669764	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ggccacccacctgtccgttgGcgctgcgggccatgcagccg	14	17	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr16:49669764G>C	uc002efs.2	-	5	3597	c.3299C>G	c.(3298-3300)GCC>GGC	p.A1100G	ZNF423_uc010vgn.1_Missense_Mutation_p.A983G	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	1100					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				CTGTCCGTTGGCGCTGCGGGC	0.692													4	6	---	---	---	---	PASS	C	49669764	C	C	49669764	3	2	126	1	0	0	0	0	1	0	0	0	17895	1203	42	4	575	4	ZNF423	16	49669764	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	1405309	49669764	40684989	231	45879										
SLC12A3	6559	broad.mit.edu	37	chr16	56928501	56928501	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	aggaggtggagcaaatgcaaGatccgtgtgttcgtaggcgg	17	6	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr16:56928501G>A	uc010ccm.2	+	22	2609	c.2580G>A	c.(2578-2580)AAG>AAA	p.K860K	SLC12A3_uc002ekd.3_Silent_p.K869K|SLC12A3_uc010ccn.2_Silent_p.K868K	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	860	Cytoplasmic (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	GCAAATGCAAGATCCGTGTGT	0.572													21	21	---	---	---	---	PASS	A	56928501	A	A	56928501	2	1	126	1	0	0	0	0	0	0	0	1	14384	933	33	2		2	SLC12A3	16	56928501	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	7258737	56928501	33426252	232	45880										
NLRC5	84166	broad.mit.edu	37	chr16	57059739	57059739	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cgacactgtcttccagtaccTggagaagaacgctgaccaag	10	12	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr16:57059739T>C	uc002ekk.1	+	6	1109	c.884T>C	c.(883-885)CTG>CCG	p.L295P	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.L100P|NLRC5_uc002ekl.2_Missense_Mutation_p.L100P|NLRC5_uc002ekm.2_Missense_Mutation_p.L100P|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	295	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)				TTCCAGTACCTGGAGAAGAAC	0.562													11	129	---	---	---	---	PASS	C	57059739	C	C	57059739	3	2	126	1	0	0	0	0	1	0	0	0	10470	1580	55	5	898	5	NLRC5	16	57059739	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	131238	57059739	33295014	233	45881										
TMCO7	79613	broad.mit.edu	37	chr16	69074235	69074235	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cagcttgcctgattgctgtgGccaaaacagatggtgaagtt	12	8	0	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr16:69074235G>T	uc002ewi.3	+	17	3031	c.3019G>T	c.(3019-3021)GCC>TCC	p.A1007S		NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	1007						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		GATTGCTGTGGCCAAAACAGA	0.473													5	9	---	---	---	---	PASS	T	69074235	T	T	69074235	3	4	126	1	0	0	0	0	1	0	0	0	15998	1203	42	3	3085	3	TMCO7	16	69074235	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	12014496	69074235	21280518	234	45882										
HYDIN	54768	broad.mit.edu	37	chr16	71096233	71096233	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cacagtaggcacctcctcacAcacctgggggagagaaaacc	10	14	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr16:71096233A>T	uc002ezr.2	-	17	2343	c.2215T>A	c.(2215-2217)TGT>AGT	p.C739S	HYDIN_uc010cfz.1_Missense_Mutation_p.C484S|HYDIN_uc002ezv.2_Missense_Mutation_p.C739S|HYDIN_uc010vmc.1_Missense_Mutation_p.C756S|HYDIN_uc010vmd.1_Missense_Mutation_p.C766S	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	739										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				ACCTCCTCACACACCTGGGGG	0.542													8	11	---	---	---	---	PASS	T	71096233	T	T	71096233	3	4	126	1	0	0	0	0	1	0	0	0	7467	159	6	5	13439	5	HYDIN	16	71096233	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	2021998	71096233	19258520	235	45883										
VAT1L	57687	broad.mit.edu	37	chr16	77850862	77850862	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ggtgcgacaagggaatattgAcaaccctcccaagactcccc	9	14	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr16:77850862A>G	uc002ffg.1	+	2	375	c.278A>G	c.(277-279)GAC>GGC	p.D93G		NM_020927	NP_065978	Q9HCJ6	VAT1L_HUMAN	vesicle amine transport protein 1 homolog (T.	93							oxidoreductase activity|zinc ion binding			central_nervous_system(1)	1						GGGAATATTGACAACCCTCCC	0.438													58	65	---	---	---	---	PASS	G	77850862	G	G	77850862	3	3	126	1	0	0	0	0	1	0	0	0	17127	275	10	5	284	5	VAT1L	16	77850862	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	6754629	77850862	12503891	236	45884										
ZMYND15	84225	broad.mit.edu	37	chr17	4644148	4644148	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ccacctgcgagacctgagccCctacatcagctttgtcagcc	8	17	2	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr17:4644148C>T	uc002fyt.2	+	2	344	c.305C>T	c.(304-306)CCC>CTC	p.P102L	CXCL16_uc002fyr.3_5'Flank|CXCL16_uc002fys.3_5'Flank|ZMYND15_uc002fyv.2_Missense_Mutation_p.P102L|ZMYND15_uc002fyu.2_Missense_Mutation_p.P102L	NM_032265	NP_115641	Q9H091	ZMY15_HUMAN	zinc finger, MYND-type containing 15 isoform 2	102							zinc ion binding				0						GACCTGAGCCCCTACATCAGC	0.453													12	10	---	---	---	---	PASS	T	4644148	T	T	4644148	3	4	126	1	0	0	0	0	1	0	0	0	17705	623	22	3	307	3	ZMYND15	17	4644148	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08		4644148	76551062	237	45885										
TP53	7157	broad.mit.edu	37	chr17	7579470	7579470	+	Frame_Shift_Del	DEL	C	-	-													0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agctgctggtgcaggggccaCggggggagcagcctctggca							TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr17:7579470delC	uc002gim.2	-	4	411	c.217delG	c.(217-219)GTGfs	p.V73fs	TP53_uc002gig.1_Frame_Shift_Del_p.V73fs|TP53_uc002gih.2_Frame_Shift_Del_p.V73fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Frame_Shift_Del_p.V73fs|TP53_uc010cni.1_Frame_Shift_Del_p.V73fs|TP53_uc002gij.2_Frame_Shift_Del_p.V73fs|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Frame_Shift_Del_p.V34fs|TP53_uc010cnk.1_Frame_Shift_Del_p.V88fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	73	Interaction with WWOX.|Interaction with HRMT1L2.		V -> M (in sporadic cancers; somatic mutation).|V -> E (in a sporadic cancer; somatic mutation).|V -> L (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.V73L(3)|p.G59fs*23(3)|p.V73fs*50(2)|p.V73fs*76(2)|p.V73M(2)|p.V73fs*9(1)|p.R65fs*38(1)|p.E68fs*76(1)|p.D48fs*55(1)|p.P13fs*18(1)|p.S33fs*23(1)|p.D57_A76del20(1)|p.V73E(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)		GCAGGGGCCACGGGGGGAGCA	0.602		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)			68	55	---	---	---	---		-	7579470	-	-	7579470	7	5	126	1	0	1	0	1	0	0	0	0	16378	536	19	0	1085	0	TP53	17	7579470	Frame_Shift_Del	DEL	C	TCGA-60-2713-01A-01D-1522-08	2935322	7579470	73615740	238	45886										
DNAH2	146754	broad.mit.edu	37	chr17	7637984	7637984	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	atcctgcaccttgccaagtcGtcctacttggcgccctttat	7	15	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr17:7637984G>A	uc002giu.1	+	6	950	c.936G>A	c.(934-936)TCG>TCA	p.S312S	DNAH2_uc002git.2_Silent_p.S312S|DNAH2_uc010vuk.1_Silent_p.S312S	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	312	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TTGCCAAGTCGTCCTACTTGG	0.522													41	31	---	---	---	---	PASS	A	7637984	A	A	7637984	2	1	126	1	0	0	0	0	0	0	0	1	4602	1132	40	1		1	DNAH2	17	7637984	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	58514	7637984	73557226	239	45887										
ARHGEF15	22899	broad.mit.edu	37	chr17	8215685	8215685	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgtcccggcgctccgcctccCcagaacctgctccccggtct	9	21	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr17:8215685C>A	uc002glc.2	+	2	449	c.328C>A	c.(328-330)CCA>ACA	p.P110T	ARHGEF15_uc002glb.1_Missense_Mutation_p.P110T|ARHGEF15_uc002gld.2_Missense_Mutation_p.P110T|ARHGEF15_uc010vuw.1_Missense_Mutation_p.P110T	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	110	Pro-rich.				negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CTCCGCCTCCCCAGAACCTGC	0.672													91	109	---	---	---	---	PASS	A	8215685	A	A	8215685	3	1	126	1	0	0	0	0	1	0	0	0	898	623	22	3	330	3	ARHGEF15	17	8215685	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	577701	8215685	72979525	240	45888										
DNAH9	1770	broad.mit.edu	37	chr17	11648123	11648123	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	actgcccacaggatcactacGactggggcctacgggccatc	11	15	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr17:11648123G>A	uc002gne.2	+	31	6189	c.6121G>A	c.(6121-6123)GAC>AAC	p.D2041N	DNAH9_uc010coo.2_Missense_Mutation_p.D1335N	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2041	AAA 1 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GGATCACTACGACTGGGGCCT	0.552													30	49	---	---	---	---	PASS	A	11648123	A	A	11648123	3	1	126	1	0	0	0	0	1	0	0	0	4608	1058	37	2	6243	2	DNAH9	17	11648123	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	3432438	11648123	69547087	241	45889										
HNF1B	6928	broad.mit.edu	37	chr17	36093800	36093800	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	catatttccagaactctggaCtgtctggttgaattctgaaa	8	8	3	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr17:36093800C>A	uc002hok.3	-	3	780	c.559G>T	c.(559-561)GTC>TTC	p.V187F	HNF1B_uc010wdi.1_Intron|HNF1B_uc010cve.1_5'UTR	NM_000458	NP_000449	P35680	HNF1B_HUMAN	hepatocyte nuclear factor 1-beta isoform 1	187					endocrine pancreas development|genitalia development|kidney development|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric nephron tubule development|regulation of pronephros size	nucleus	DNA binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			GAACTCTGGACTGTCTGGTTG	0.428									Hereditary_Prostate_Cancer				30	62	---	---	---	---	PASS	A	36093800	A	A	36093800	3	1	126	1	0	0	0	0	1	0	0	0	7252	565	20	3	1142	3	HNF1B	17	36093800	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	24445677	36093800	45101410	242	45890										
VEZF1	7716	broad.mit.edu	37	chr17	56052036	56052036	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tagtgagtgttaaaggagagGtcatggataatggactggtt	15	2	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr17:56052036G>A	uc002ivf.1	-	6	1507	c.1364C>T	c.(1363-1365)ACC>ATC	p.T455I		NM_007146	NP_009077	Q14119	VEZF1_HUMAN	zinc finger protein 161	455	4 X 7 AA repeats of P-[LV]-T-[IL]-T-[ST]- P.				cellular defense response|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						TAAAGGAGAGGTCATGGATAA	0.463													56	235	---	---	---	---	PASS	A	56052036	A	A	56052036	3	1	126	1	0	0	0	0	1	0	0	0	17152	1261	44	3	205	3	VEZF1	17	56052036	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	19958236	56052036	25143174	243	45891										
C17orf77	146723	broad.mit.edu	37	chr17	72588710	72588710	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tactgcctggaggagaggacGgacaaggccagccatgagga	16	9	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr17:72588710G>A	uc002jla.1	+	3	887	c.525G>A	c.(523-525)ACG>ACA	p.T175T	CD300LD_uc002jkz.2_5'Flank	NM_152460	NP_689673	Q96MU5	CQ077_HUMAN	hypothetical protein LOC146723	175						extracellular region					0						AGGAGAGGACGGACAAGGCCA	0.607													8	43	---	---	---	---	PASS	A	72588710	A	A	72588710	2	1	126	1	0	0	0	0	0	0	0	1	1882	1103	39	1		1	C17orf77	17	72588710	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	16536674	72588710	8606500	244	45892										
SLC26A11	284129	broad.mit.edu	37	chr17	78221984	78221984	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgtgcttctgggaggtgcaGtacggcatcctggccggggc	17	11	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr17:78221984G>T	uc002jyb.1	+	14	1619	c.1350G>T	c.(1348-1350)CAG>CAT	p.Q450H	SLC26A11_uc002jyc.1_Missense_Mutation_p.Q450H|SLC26A11_uc002jyd.1_Missense_Mutation_p.Q450H|SLC26A11_uc010dhv.1_Missense_Mutation_p.Q450H	NM_173626	NP_775897	Q86WA9	S2611_HUMAN	solute carrier family 26, member 11	450	Helical; (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|plasma membrane	anion:anion antiporter activity|secondary active sulfate transmembrane transporter activity				0	all_neural(118;0.0538)		OV - Ovarian serous cystadenocarcinoma(97;0.0344)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			GGGAGGTGCAGTACGGCATCC	0.662													29	14	---	---	---	---	PASS	T	78221984	T	T	78221984	3	4	126	1	0	0	0	0	1	0	0	0	14516	1020	36	3	1396	3	SLC26A11	17	78221984	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	5633274	78221984	2973226	245	45893										
METRNL	284207	broad.mit.edu	37	chr17	81043114	81043114	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgttcgtggaggccacgccGcagcaggatatcggccggag	16	12	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr17:81043114G>A	uc002kgh.2	+	2	596	c.471G>A	c.(469-471)CCG>CCA	p.P157P	METRNL_uc002kgi.2_Silent_p.P75P	NM_001004431	NP_001004431	Q641Q3	METRL_HUMAN	meteorin, glial cell differentiation	157						extracellular region					0	Breast(20;0.000443)|all_neural(118;0.0779)		BRCA - Breast invasive adenocarcinoma(99;0.0517)|OV - Ovarian serous cystadenocarcinoma(97;0.0868)			AGGCCACGCCGCAGCAGGATA	0.662													4	112	---	---	---	---	PASS	A	81043114	A	A	81043114	2	1	126	1	0	0	0	0	0	0	0	1	9489	1074	38	1		1	METRNL	17	81043114	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	2821130	81043114	152096	246	45894										
YES1	7525	broad.mit.edu	37	chr18	743305	743305	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttgtcctagtttaacctctaGtcgcaaagattctcgaggga	9	9	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr18:743305G>A	uc002kky.2	-	7	1056	c.835C>T	c.(835-837)CTA>TTA	p.L279L	YES1_uc002kkz.2_Silent_p.L279L	NM_005433	NP_005424	P07947	YES_HUMAN	viral oncogene yes-1 homolog 1	279	Protein kinase.				blood coagulation|leukocyte migration|regulation of vascular permeability|T cell costimulation	cytosol|plasma membrane	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|ovary(1)	3					Dasatinib(DB01254)	TTAACCTCTAGTCGCAAAGAT	0.428													66	164	---	---	---	---	PASS	A	743305	A	A	743305	2	1	126	1	0	0	0	0	0	0	0	1	17471	1020	36	3		3	YES1	18	743305	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08		743305	77333943	247	45895										
FAM38B	63895	broad.mit.edu	37	chr18	10677834	10677834	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	taagaggaaaagaaagcttaTctgttgctatttccgatttt	8	5	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr18:10677834T>C	uc002kor.3	-	11	1663	c.1523A>G	c.(1522-1524)GAT>GGT	p.D508G	FAM38B_uc002koq.2_Missense_Mutation_p.D343G	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2551						integral to membrane	ion channel activity			ovary(1)	1						AGAAAGCTTATCTGTTGCTAT	0.328													35	62	---	---	---	---	PASS	C	10677834	C	C	10677834	3	2	126	1	0	0	0	0	1	0	0	0	5555	1435	50	5	622	5	FAM38B	18	10677834	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	9934529	10677834	67399414	248	45896										
CCDC68	80323	broad.mit.edu	37	chr18	52609983	52609983	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agaattatcttccatcttatCccttgggggaatttctgtgg	9	8	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr18:52609983C>A	uc002lfs.2	-	3	212	c.40G>T	c.(40-42)GAT>TAT	p.D14Y	CCDC68_uc002lft.2_Missense_Mutation_p.D14Y	NM_001143829	NP_001137301	Q9H2F9	CCD68_HUMAN	coiled-coil domain containing 68	14										skin(1)	1				Colorectal(16;0.0256)|READ - Rectum adenocarcinoma(59;0.21)		TCCATCTTATCCCTTGGGGGA	0.388													60	162	---	---	---	---	PASS	A	52609983	A	A	52609983	3	1	126	1	0	0	0	0	1	0	0	0	2840	855	30	2	1007	2	CCDC68	18	52609983	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	41932149	52609983	25467265	249	45897										
CDH20	28316	broad.mit.edu	37	chr18	59166691	59166691	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gacggaccttatgtggccacTgtgccagaaatgtcccctgt	11	12	0	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr18:59166691T>A	uc010dps.1	+	2	531	c.519T>A	c.(517-519)ACT>ACA	p.T173T	CDH20_uc002lif.2_Silent_p.T167T	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	173	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				ATGTGGCCACTGTGCCAGAAA	0.418													25	49	---	---	---	---	PASS	A	59166691	A	A	59166691	2	1	126	1	0	0	0	0	0	0	0	1	3106	1567	55	5		5	CDH20	18	59166691	Silent	SNP	T	TCGA-60-2713-01A-01D-1522-08	6556708	59166691	18910557	250	45898										
VPS4B	9525	broad.mit.edu	37	chr18	61067385	61067385	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tttcatcaatgaagataatgGagggcttgttctctctggca	10	7	4	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr18:61067385G>C	uc002lix.2	-	7	946	c.686C>G	c.(685-687)TCC>TGC	p.S229C	VPS4B_uc010dpx.2_Missense_Mutation_p.S229C|VPS4B_uc010dpy.2_Missense_Mutation_p.S111C|VPS4B_uc010dpz.1_Missense_Mutation_p.S111C	NM_004869	NP_004860	O75351	VPS4B_HUMAN	vacuolar protein sorting factor 4B	229					cell cycle|cell division|cellular membrane organization|endosome to lysosome transport via multivesicular body sorting pathway|intracellular cholesterol transport|protein transport|response to lipid	cytosol|early endosome|late endosome membrane|lysosome|nucleus|vacuolar membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding			ovary(1)	1						GAAGATAATGGAGGGCTTGTT	0.328													54	126	---	---	---	---	PASS	C	61067385	C	C	61067385	3	2	126	1	0	0	0	0	1	0	0	0	17210	1174	41	2	668	2	VPS4B	18	61067385	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	1900694	61067385	17009863	251	45899										
INSR	3643	broad.mit.edu	37	chr19	7172392	7172392	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcggcggatttttagataccCtgaaatttcttcaatgaggc	9	8	2	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:7172392C>A	uc002mgd.1	-	5	1286	c.1177G>T	c.(1177-1179)GGG>TGG	p.G393W	INSR_uc002mge.1_Missense_Mutation_p.G393W|INSR_uc002mgf.2_Missense_Mutation_p.G393W	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	393			G -> R (in LEPRCH; Verona-1).		activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TTTAGATACCCTGAAATTTCT	0.463													4	182	---	---	---	---	PASS	A	7172392	A	A	7172392	3	1	126	1	0	0	0	0	1	0	0	0	7773	681	24	3	3043	3	INSR	19	7172392	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08		7172392	51956591	252	45900										
FBN3	84467	broad.mit.edu	37	chr19	8174207	8174207	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gacaccaactccgatctcggCactgcaggaaatgccactgt	9	14	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:8174207C>A	uc002mjf.2	-	35	4543	c.4522G>T	c.(4522-4524)GCC>TCC	p.A1508S		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1508	TB 6.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CCGATCTCGGCACTGCAGGAA	0.602													35	90	---	---	---	---	PASS	A	8174207	A	A	8174207	3	1	126	1	0	0	0	0	1	0	0	0	5704	710	25	3	4023	3	FBN3	19	8174207	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	1001815	8174207	50954776	253	45901										
DNM2	1785	broad.mit.edu	37	chr19	10904484	10904484	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tggagctctccgggggcgccCgaatcaatcgcatcttccac	11	15	3	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:10904484C>T	uc002mps.1	+	8	1245	c.1081C>T	c.(1081-1083)CGA>TGA	p.R361*	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Nonsense_Mutation_p.R361*|DNM2_uc002mpv.1_Nonsense_Mutation_p.R361*|DNM2_uc002mpu.1_Nonsense_Mutation_p.R361*|DNM2_uc010dxl.1_Nonsense_Mutation_p.R361*|DNM2_uc002mpw.2_Nonsense_Mutation_p.R94*	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	361					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			CGGGGGCGCCCGAATCAATCG	0.602													70	157	---	---	---	---	PASS	T	10904484	T	T	10904484	4	4	126	1	0	0	0	0	0	1	0	0	4672	644	23	1	1111	1	DNM2	19	10904484	Nonsense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	2730277	10904484	48224499	254	45902										
UNC13A	23025	broad.mit.edu	37	chr19	17722649	17722649	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cagagacttcacccacagggTcttctacacccaagcctggg	9	15	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:17722649T>C	uc002nhd.2	-	41	4838	c.4838A>G	c.(4837-4839)GAC>GGC	p.D1613G		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1525					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						ACCCACAGGGTCTTCTACACC	0.582													5	121	---	---	---	---	PASS	C	17722649	C	C	17722649	3	2	126	1	0	0	0	0	1	0	0	0	16981	1667	58	5	549	5	UNC13A	19	17722649	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	6818165	17722649	41406334	255	45903										
ZNF536	9745	broad.mit.edu	37	chr19	30935683	30935683	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gctgtcggtgaagaacaagtCccccagcgaccccgaggtgc	13	14	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:30935683C>T	uc002nsu.1	+	2	1352	c.1214C>T	c.(1213-1215)TCC>TTC	p.S405F	ZNF536_uc010edd.1_Missense_Mutation_p.S405F	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	405					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					AAGAACAAGTCCCCCAGCGAC	0.627													16	79	---	---	---	---	PASS	T	30935683	T	T	30935683	3	4	126	1	0	0	0	0	1	0	0	0	17971	855	30	2	1216	2	ZNF536	19	30935683	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	13213034	30935683	28193300	256	45904										
RYR1	6261	broad.mit.edu	37	chr19	39008173	39008173	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cctgccccgatggtgggagcGcgggcccgaggcaccccctt	15	17	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:39008173G>A	uc002oit.2	+	66	9990	c.9860G>A	c.(9859-9861)CGC>CAC	p.R3287H	RYR1_uc002oiu.2_Missense_Mutation_p.R3287H|RYR1_uc002oiv.1_Missense_Mutation_p.R207H|RYR1_uc010xuf.1_Missense_Mutation_p.R207H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3287					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TGGTGGGAGCGCGGGCCCGAG	0.687													16	17	---	---	---	---	PASS	A	39008173	A	A	39008173	3	1	126	1	0	0	0	0	1	0	0	0	13768	1087	38	1	10122	1	RYR1	19	39008173	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	8072490	39008173	20120810	257	45905										
DLL3	10683	broad.mit.edu	37	chr19	39989646	39989646	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	acggatgtccgggctcctctCccagactgtgatcctagcgc	11	15	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:39989646C>A	uc002olx.2	+	1	90	c.32C>A	c.(31-33)TCC>TAC	p.S11Y	DLL3_uc010egq.2_Missense_Mutation_p.S11Y|DLL3_uc002olw.2_Missense_Mutation_p.S11Y	NM_016941	NP_058637	Q9NYJ7	DLL3_HUMAN	delta-like 3 protein isoform 1 precursor	11					Notch signaling pathway|skeletal system development	integral to membrane	Notch binding			central_nervous_system(2)|breast(1)	3	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GGGCTCCTCTCCCAGACTGTG	0.622													64	118	---	---	---	---	PASS	A	39989646	A	A	39989646	3	1	126	1	0	0	0	0	1	0	0	0	4567	855	30	2	34	2	DLL3	19	39989646	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	981473	39989646	19139337	258	45906										
SPTBN4	57731	broad.mit.edu	37	chr19	41074173	41074173	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	acaggagatgcccatcagagGagacctggtcaaggggtgag	16	8	2	4			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:41074173G>A	uc002ony.2	+	31	7027	c.6941G>A	c.(6940-6942)GGA>GAA	p.G2314E	SPTBN4_uc002onz.2_Missense_Mutation_p.G2314E|SPTBN4_uc010egx.2_Missense_Mutation_p.G1057E	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	2314					actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCCATCAGAGGAGACCTGGTC	0.642													5	6	---	---	---	---	PASS	A	41074173	A	A	41074173	3	1	126	1	0	0	0	0	1	0	0	0	15120	1174	41	2	7153	2	SPTBN4	19	41074173	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	1084527	41074173	18054810	259	45907										
CEACAM19	56971	broad.mit.edu	37	chr19	45179577	45179577	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctgcccagtacacacctgccCaccaacgctgggatcctggc	9	18	0	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:45179577C>T	uc002ozo.3	+	3	939	c.459C>T	c.(457-459)CCC>CCT	p.P153P	CEACAM19_uc002ozp.3_Silent_p.P153P	NM_020219	NP_064604	Q7Z692	CEA19_HUMAN	carcinoembryonic antigen-related cell adhesion	153	Extracellular (Potential).					integral to membrane					0	Lung NSC(12;0.00308)|all_lung(12;0.00806)	Prostate(69;0.0376)				CACACCTGCCCACCAACGCTG	0.577													49	133	---	---	---	---	PASS	T	45179577	T	T	45179577	2	4	126	1	0	0	0	0	0	0	0	1	3190	581	21	3		3	CEACAM19	19	45179577	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	4105404	45179577	13949406	260	45908										
ERCC2	2068	broad.mit.edu	37	chr19	45864870	45864870	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcggtgatctccagagtatgCagcagggaccggaggcgttc	15	10	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:45864870C>T	uc002pbj.2	-	12	1196	c.1149G>A	c.(1147-1149)CTG>CTA	p.L383L	ERCC2_uc002pbh.2_5'Flank|ERCC2_uc002pbi.2_Silent_p.L76L|ERCC2_uc010ejz.2_Silent_p.L305L|ERCC2_uc002pbk.2_Silent_p.L359L|ERCC2_uc002pbl.3_Silent_p.L359L	NM_000400	NP_000391	P18074	ERCC2_HUMAN	excision repair cross-complementing rodent	383					cell cycle checkpoint|chromosome segregation|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|UV protection|viral reproduction	cytoplasm|holo TFIIH complex|MMXD complex	5'-3' DNA helicase activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding|protein C-terminus binding|protein N-terminus binding			lung(2)|pancreas(1)	3		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		CCAGAGTATGCAGCAGGGACC	0.622			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				26	55	---	---	---	---	PASS	T	45864870	T	T	45864870	2	4	126	1	0	0	0	0	0	0	0	1	5213	697	25	3		3	ERCC2	19	45864870	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	685293	45864870	13264113	261	45909										
TEAD2	8463	broad.mit.edu	37	chr19	49846506	49846506	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	acctccaccttctccaccacCtgcttgccaaaagagcagac	5	18	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:49846506C>G	uc002pnj.2	-	10	1150	c.1059G>C	c.(1057-1059)CAG>CAC	p.Q353H	uc002pnb.1_5'Flank|TEAD2_uc002png.2_Missense_Mutation_p.Q356H|TEAD2_uc002pnh.2_Missense_Mutation_p.Q357H|TEAD2_uc002pni.2_Missense_Mutation_p.Q356H|TEAD2_uc010yao.1_Missense_Mutation_p.Q225H|TEAD2_uc010emw.2_Missense_Mutation_p.Q356H	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	353	Transcriptional activation (Potential).				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		TCTCCACCACCTGCTTGCCAA	0.577													28	74	---	---	---	---	PASS	G	49846506	G	G	49846506	3	3	126	1	0	0	0	0	1	0	0	0	15736	680	24	4	296	4	TEAD2	19	49846506	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	3981636	49846506	9282477	262	45910										
LRRC4B	94030	broad.mit.edu	37	chr19	51021853	51021853	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	catgccctcggtgacgttgaGgtccgtgggcggctccacga	15	13	0	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:51021853G>C	uc002pss.2	-	3	1254	c.1117C>G	c.(1117-1119)CTC>GTC	p.L373V		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	373	Extracellular (Potential).|Ig-like C2-type.					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		GTGACGTTGAGGTCCGTGGGC	0.657													17	34	---	---	---	---	PASS	C	51021853	C	C	51021853	3	2	126	1	0	0	0	0	1	0	0	0	9007	1000	35	4	1028	4	LRRC4B	19	51021853	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	1175347	51021853	8107130	263	45911										
KLK5	25818	broad.mit.edu	37	chr19	51452339	51452339	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cagattcataaactggtgacAgggagtagtggccgagacgg	15	7	1	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:51452339A>T	uc002pue.2	-	5	586	c.368T>A	c.(367-369)CTG>CAG	p.L123Q	KLK5_uc002puf.2_Missense_Mutation_p.L123Q|KLK5_uc002pug.2_Missense_Mutation_p.L123Q	NM_001077491	NP_001070959	Q9Y337	KLK5_HUMAN	kallikrein-related peptidase 5 preproprotein	123	Peptidase S1.				epidermis development|positive regulation of G-protein coupled receptor protein signaling pathway|proteolysis	extracellular space	protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00379)|GBM - Glioblastoma multiforme(134;0.00888)		AACTGGTGACAGGGAGTAGTG	0.537													48	108	---	---	---	---	PASS	T	51452339	T	T	51452339	3	4	126	1	0	0	0	0	1	0	0	0	8407	188	7	5	525	5	KLK5	19	51452339	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	430486	51452339	7676644	264	45912										
ZNF813	126017	broad.mit.edu	37	chr19	53994933	53994933	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcagtcgaatttcagccctcGtaattcatacggcaattcat	6	11	4	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:53994933G>C	uc002qbu.2	+	4	1575	c.1447G>C	c.(1447-1449)GTA>CTA	p.V483L	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	483	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		TTCAGCCCTCGTAATTCATAC	0.398													41	66	---	---	---	---	PASS	C	53994933	C	C	53994933	3	2	126	1	0	0	0	0	1	0	0	0	18172	1145	40	4	1457	4	ZNF813	19	53994933	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	2542594	53994933	5134050	265	45913										
LILRB1	10859	broad.mit.edu	37	chr19	55144573	55144573	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cagggatggatgcaaactttCcttctgaccaaggagggggc	14	9	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:55144573C>T	uc002qgj.2	+	8	1405	c.1065C>T	c.(1063-1065)TTC>TTT	p.F355F	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Silent_p.F355F|LILRB1_uc002qgk.2_Silent_p.F355F|LILRB1_uc002qgm.2_Silent_p.F355F|LILRB1_uc010erq.2_Silent_p.F355F|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	355	Ig-like C2-type 4.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		TGCAAACTTTCCTTCTGACCA	0.557										HNSCC(37;0.09)			46	113	---	---	---	---	PASS	T	55144573	T	T	55144573	2	4	126	1	0	0	0	0	0	0	0	1	8790	854	30	2		2	LILRB1	19	55144573	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	1149640	55144573	3984410	266	45914										
KIR3DL1	3811	broad.mit.edu	37	chr19	55331449	55331449	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgtcagctcccagtgatcccCtggacatcgtggtcacaggt	11	13	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr19:55331449C>A	uc002qhk.3	+	4	700	c.637C>A	c.(637-639)CTG>ATG	p.L213M	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_Missense_Mutation_p.L155M|KIR3DL1_uc010esf.2_Missense_Mutation_p.L118M|KIR3DL1_uc010yfo.1_Missense_Mutation_p.L155M|KIR3DL1_uc002qhl.3_Missense_Mutation_p.L213M	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	213	Extracellular (Potential).				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		CAGTGATCCCCTGGACATCGT	0.527													75	173	---	---	---	---	PASS	A	55331449	A	A	55331449	3	1	126	1	0	0	0	0	1	0	0	0	8320	680	24	3	651	3	KIR3DL1	19	55331449	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	186876	55331449	3797534	267	45915										
TGM3	7053	broad.mit.edu	37	chr20	2308867	2308867	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcgcggaggttaatgccgacCgcatcacctggctgtacgac	12	13	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr20:2308867C>A	uc002wfx.3	+	9	1286	c.1189C>A	c.(1189-1191)CGC>AGC	p.R397S		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	397					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	TAATGCCGACCGCATCACCTG	0.562													39	90	---	---	---	---	PASS	A	2308867	A	A	2308867	3	1	126	1	0	0	0	0	1	0	0	0	15828	652	23	1	1223	1	TGM3	20	2308867	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08		2308867	60716653	268	45916										
TMC2	117532	broad.mit.edu	37	chr20	2591193	2591193	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cgcatctttgcactcttcctGgggaacctctacacatttct	6	14	4	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr20:2591193G>T	uc002wgf.1	+	12	1557	c.1542G>T	c.(1540-1542)CTG>CTT	p.L514L	TMC2_uc002wgg.1_Silent_p.L498L|TMC2_uc010zpw.1_Silent_p.L346L|TMC2_uc010zpx.1_Silent_p.L345L	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	514	Helical; (Potential).					integral to membrane				ovary(3)	3						CACTCTTCCTGGGGAACCTCT	0.542													41	65	---	---	---	---	PASS	T	2591193	T	T	2591193	2	4	126	1	0	0	0	0	0	0	0	1	15982	1335	47	3		3	TMC2	20	2591193	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	282326	2591193	60434327	269	45917										
HAO1	54363	broad.mit.edu	37	chr20	7886836	7886836	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttgcaacaattggcaatgatGtcagtcttctcagccatttg	8	9	3	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr20:7886836G>T	uc002wmw.1	-	4	710	c.686C>A	c.(685-687)ACA>AAA	p.T229K	HAO1_uc010gbu.2_Missense_Mutation_p.T229K	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	229	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						TGGCAATGATGTCAGTCTTCT	0.398													85	201	---	---	---	---	PASS	T	7886836	T	T	7886836	3	4	126	1	0	0	0	0	1	0	0	0	6951	1377	48	3	446	3	HAO1	20	7886836	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	5295643	7886836	55138684	270	45918										
TASP1	55617	broad.mit.edu	37	chr20	13463945	13463945	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cttgtaaagcatgtgaacatTctctagccagtatggtgcgc	10	9	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr20:13463945T>C	uc002woi.2	-	11	1031	c.914A>G	c.(913-915)GAA>GGA	p.E305G	TASP1_uc010zri.1_RNA|TASP1_uc002woh.2_Missense_Mutation_p.E282G|TASP1_uc010zrj.1_RNA	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	305					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						ATGTGAACATTCTCTAGCCAG	0.418													64	119	---	---	---	---	PASS	C	13463945	C	C	13463945	3	2	126	1	0	0	0	0	1	0	0	0	15586	1783	62	5	364	5	TASP1	20	13463945	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	5577109	13463945	49561575	271	45919										
TM9SF4	9777	broad.mit.edu	37	chr20	30737566	30737566	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tctgtatgatcctcatcgtcAtctgtgagtgtgcccagcgg	11	11	4	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr20:30737566A>T	uc002wxj.2	+	10	1319	c.1084A>T	c.(1084-1086)ATC>TTC	p.I362F	TM9SF4_uc010zts.1_Missense_Mutation_p.I269F|TM9SF4_uc002wxk.2_Missense_Mutation_p.I345F|TM9SF4_uc010gdz.2_Missense_Mutation_p.I269F	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	362	Helical; (Potential).					integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CCTCATCGTCATCTGTGAGTG	0.617													30	56	---	---	---	---	PASS	T	30737566	T	T	30737566	3	4	126	1	0	0	0	0	1	0	0	0	15977	217	8	5	1122	5	TM9SF4	20	30737566	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	17273621	30737566	32287954	272	45920										
KCNS1	3787	broad.mit.edu	37	chr20	43723628	43723628	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcctccgacaccccatcaatGctgctcagcaagtcctcaaa	6	17	3	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr20:43723628G>A	uc002xnc.2	-	5	1861	c.1464C>T	c.(1462-1464)AGC>AGT	p.S488S	KCNS1_uc002xnd.2_Silent_p.S488S	NM_002251	NP_002242	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel	488	Cytoplasmic (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity|protein binding				0		Myeloproliferative disorder(115;0.0122)				CCCCATCAATGCTGCTCAGCA	0.577													100	199	---	---	---	---	PASS	A	43723628	A	A	43723628	2	1	126	1	0	0	0	0	0	0	0	1	8088	1310	46	3		3	KCNS1	20	43723628	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	12986062	43723628	19301892	273	45921										
WFDC11	259239	broad.mit.edu	37	chr20	44277374	44277374	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ggttttagtaatctccactgGtttcctgtaaaacaaaaagg	8	7	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr20:44277374G>A	uc002xpa.2	-	5	443	c.248C>T	c.(247-249)ACC>ATC	p.T83I		NM_147197	NP_671730	Q8NEX6	WFD11_HUMAN	WAP four-disulfide core domain 11 precursor	83						extracellular region					0		Myeloproliferative disorder(115;0.0122)				ATCTCCACTGGTTTCCTGTAA	0.433													25	61	---	---	---	---	PASS	A	44277374	A	A	44277374	3	1	126	1	0	0	0	0	1	0	0	0	17346	1261	44	3	19	3	WFDC11	20	44277374	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	553746	44277374	18748146	274	45922										
ZNF217	7764	broad.mit.edu	37	chr20	52198011	52198011	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcagcttacccagatggattCcttcgggaagcccatcctca	9	14	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr20:52198011C>G	uc002xwq.3	-	1	1626	c.1355G>C	c.(1354-1356)GGA>GCA	p.G452A	ZNF217_uc010gij.1_Missense_Mutation_p.G444A	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	452					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			CAGATGGATTCCTTCGGGAAG	0.592													38	74	---	---	---	---	PASS	G	52198011	G	G	52198011	3	3	126	1	0	0	0	0	1	0	0	0	17769	855	30	2	1807	2	ZNF217	20	52198011	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	7920637	52198011	10827509	275	45923										
PRIC285	85441	broad.mit.edu	37	chr20	62191884	62191884	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agttctcattcccttcgtccGtggacaccagcaggctccgc	9	16	1	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr20:62191884G>A	uc002yfm.2	-	17	8340	c.7448C>T	c.(7447-7449)ACG>ATG	p.T2483M	PRIC285_uc002yfl.1_Missense_Mutation_p.T1914M	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	2483					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CCCTTCGTCCGTGGACACCAG	0.642													4	212	---	---	---	---	PASS	A	62191884	A	A	62191884	3	1	126	1	0	0	0	0	1	0	0	0	12485	1145	40	1	517	1	PRIC285	20	62191884	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	9993873	62191884	833636	276	45924										
TPTE	7179	broad.mit.edu	37	chr21	10971318	10971318	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ttggggccgagctcaatgatGactcccgccaggtcagtcgg	14	12	2	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr21:10971318G>C	uc002yip.1	-	5	407	c.39C>G	c.(37-39)GTC>GTG	p.V13V	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Silent_p.V13V|TPTE_uc002yir.1_Silent_p.V13V|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	13					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		GCTCAATGATGACTCCCGCCA	0.328													12	97	---	---	---	---	PASS	C	10971318	C	C	10971318	2	2	126	1	0	0	0	0	0	0	0	1	16427	1277	45	2		2	TPTE	21	10971318	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08		10971318	37158577	277	45925										
USP25	29761	broad.mit.edu	37	chr21	17214842	17214842	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agcatgaagataaaagtcctGaaacagttttgcagtcggta	10	6	0	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr21:17214842G>T	uc002yjy.1	+	18	2537	c.2320G>T	c.(2320-2322)GAA>TAA	p.E774*	USP25_uc011aby.1_Nonsense_Mutation_p.E774*|USP25_uc002yjz.1_Nonsense_Mutation_p.E774*|USP25_uc010gla.1_Intron	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	774					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		TAAAAGTCCTGAAACAGTTTT	0.343													193	173	---	---	---	---	PASS	T	17214842	T	T	17214842	4	4	126	1	0	0	0	0	0	1	0	0	17053	1291	45	2	2390	2	USP25	21	17214842	Nonsense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	6243524	17214842	30915053	278	45926										
ADAMTS5	11096	broad.mit.edu	37	chr21	28305361	28305361	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ccccagttgccatggcttgaCgtctgaaatagagaatagaa	10	9	1	4	rs141311682		TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr21:28305361C>T	uc002ymg.2	-	5	2421	c.1692G>A	c.(1690-1692)ACG>ACA	p.T564T		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	564	Disintegrin.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CATGGCTTGACGTCTGAAATA	0.433													12	67	---	---	---	---	PASS	T	28305361	T	T	28305361	2	4	126	1	0	0	0	0	0	0	0	1	269	523	19	1		1	ADAMTS5	21	28305361	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	11090519	28305361	19824534	279	45927										
TIAM1	7074	broad.mit.edu	37	chr21	32638871	32638871	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gcctccctcagccaaatatgTagcgtcatccccgtaaagcc	7	16	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr21:32638871T>A	uc002yow.1	-	5	890	c.418A>T	c.(418-420)ACA>TCA	p.T140S	TIAM1_uc011adk.1_Missense_Mutation_p.T140S|TIAM1_uc011adl.1_Missense_Mutation_p.T140S|TIAM1_uc002yox.1_Intron	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	140					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						GCCAAATATGTAGCGTCATCC	0.542													52	97	---	---	---	---	PASS	A	32638871	A	A	32638871	3	1	126	1	0	0	0	0	1	0	0	0	15887	1638	57	5	4457	5	TIAM1	21	32638871	Missense_Mutation	SNP	T	TCGA-60-2713-01A-01D-1522-08	4333510	32638871	15491024	280	45928										
DOPEY2	9980	broad.mit.edu	37	chr21	37649359	37649359	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	atggtgtcttcatccgccccGtcggtgtacagcgtgcaagc	12	13	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr21:37649359G>T	uc002yvg.2	+	28	5752	c.5673G>T	c.(5671-5673)CCG>CCT	p.P1891P	DOPEY2_uc011aeb.1_Silent_p.P1840P	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	1891					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						CATCCGCCCCGTCGGTGTACA	0.493													47	65	---	---	---	---	PASS	T	37649359	T	T	37649359	2	4	126	1	0	0	0	0	0	0	0	1	4708	1132	40	1		1	DOPEY2	21	37649359	Silent	SNP	G	TCGA-60-2713-01A-01D-1522-08	5010488	37649359	10480536	281	45929										
RRP1B	23076	broad.mit.edu	37	chr21	45095037	45095037	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgaactctccaaagtcggggGgaaggaggtaagcagctgcc	15	9	1	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr21:45095037G>T	uc002zdk.2	+	6	656	c.542G>T	c.(541-543)GGG>GTG	p.G181V		NM_015056	NP_055871	Q14684	RRP1B_HUMAN	ribosomal RNA processing 1 homolog B	181					rRNA processing	cytosol|nucleolus|preribosome, small subunit precursor	protein binding			skin(1)	1				STAD - Stomach adenocarcinoma(101;0.178)		AAAGTCGGGGGGAAGGAGGTA	0.572													36	60	---	---	---	---	PASS	T	45095037	T	T	45095037	3	4	126	1	0	0	0	0	1	0	0	0	13688	1232	43	3	564	3	RRP1B	21	45095037	Missense_Mutation	SNP	G	TCGA-60-2713-01A-01D-1522-08	7445678	45095037	3034858	282	45930										
EP300	2033	broad.mit.edu	37	chr22	41573348	41573348	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cacttctcagcctcagcctaCccctcccaatagcatgccac	4	20	2	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chr22:41573348C>A	uc003azl.3	+	31	6028	c.5633C>A	c.(5632-5634)ACC>AAC	p.T1878N		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1878					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						CCTCAGCCTACCCCTCCCAAT	0.652			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				4	190	---	---	---	---	PASS	A	41573348	A	A	41573348	3	1	126	1	0	0	0	0	1	0	0	0	5148	507	18	3	5755	3	EP300	22	41573348	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08		41573348	9731218	283	45931										
ARSH	347527	broad.mit.edu	37	chrX	2947377	2947377	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	cttccactactgtggggtctAtctgcacacggtcaggtggc	12	12	3	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chrX:2947377A>G	uc011mhj.1	+	8	1289	c.1289A>G	c.(1288-1290)TAT>TGT	p.Y430C		NM_001011719	NP_001011719	Q5FYA8	ARSH_HUMAN	arylsulfatase family, member H	430						integral to membrane	arylsulfatase activity|metal ion binding			lung(1)	1		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				TGTGGGGTCTATCTGCACACG	0.567													65	34	---	---	---	---	PASS	G	2947377	G	G	2947377	3	3	126	1	0	0	0	0	1	0	0	0	993	449	16	5	1319	5	ARSH	23	2947377	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08		2947377	152323183	284	45932										
RAB9A	9367	broad.mit.edu	37	chrX	13727147	13727147	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	agtgtcgatgattcacaaagCttccagaacttaagtaactg	8	8	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chrX:13727147C>T	uc004cvm.2	+	3	464	c.282C>T	c.(280-282)AGC>AGT	p.S94S	RAB9A_uc010neh.2_Silent_p.S94S	NM_004251	NP_004242	P51151	RAB9A_HUMAN	RAB9A, member RAS oncogene family	94					protein transport|small GTPase mediated signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome|lysosome|plasma membrane	GDP binding|GTP binding|GTPase activity|protein binding			ovary(1)	1						ATTCACAAAGCTTCCAGAACT	0.438													124	69	---	---	---	---	PASS	T	13727147	T	T	13727147	2	4	126	1	0	0	0	0	0	0	0	1	12958	796	28	3		3	RAB9A	23	13727147	Silent	SNP	C	TCGA-60-2713-01A-01D-1522-08	10779770	13727147	141543413	285	45933										
DMD	1756	broad.mit.edu	37	chrX	32398798	32398798	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgttgctttctttctgttacCtgaaaagaattataatgaaa	6	5	2	3			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chrX:32398798C>A	uc004dda.1	-	34	4919	c.4675_splice	c.e34-1	p.V1559_splice	DMD_uc004dcw.2_Splice_Site_p.V215_splice|DMD_uc004dcx.2_Splice_Site_p.V218_splice|DMD_uc004dcz.2_Splice_Site_p.V1436_splice|DMD_uc004dcy.1_Splice_Site_p.V1555_splice|DMD_uc004ddb.1_Splice_Site_p.V1551_splice|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform						muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTTCTGTTACCTGAAAAGAAT	0.299													4	110	---	---	---	---	PASS	A	32398798	A	A	32398798	5	1	126	1	0	0	0	0	0	0	1	0	4580	695	24	3	6715	3	DMD	23	32398798	Splice_Site	SNP	C	TCGA-60-2713-01A-01D-1522-08	18671651	32398798	122871762	286	45934										
RGAG4	340526	broad.mit.edu	37	chrX	71350235	71350235	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	ctcttccttcttcttcatttCttcctccttcttcatctcct	0	17	8	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chrX:71350235C>A	uc010nlh.1	-	1	1517	c.1156G>T	c.(1156-1158)GAA>TAA	p.E386*	NHSL2_uc011mqa.1_Intron|RGAG4_uc004eaj.1_RNA	NM_001024455	NP_001019626	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	386	Glu-rich.									ovary(2)|skin(1)	3	Renal(35;0.156)					ttcttcatttcttcctccttc	0.239													10	9	---	---	---	---	PASS	A	71350235	A	A	71350235	4	1	126	1	0	0	0	0	0	1	0	0	13275	922	32	2	557	2	RGAG4	23	71350235	Nonsense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	38951437	71350235	83920325	287	45935										
RBM41	55285	broad.mit.edu	37	chrX	106331793	106331793	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	gctgcgtcagcttcttaggcCcagtccaacactgctcaggt	10	14	3	0			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chrX:106331793C>G	uc004emz.2	-	5	831	c.800G>C	c.(799-801)GGG>GCG	p.G267A	RBM41_uc004emy.1_Missense_Mutation_p.G267A	NM_018301	NP_060771	Q96IZ5	RBM41_HUMAN	RNA binding motif protein 41	267							nucleotide binding|RNA binding			ovary(1)	1						CTTCTTAGGCCCAGTCCAACA	0.448													68	49	---	---	---	---	PASS	G	106331793	G	G	106331793	3	3	126	1	0	0	0	0	1	0	0	0	13135	623	22	4	462	4	RBM41	23	106331793	Missense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	34981558	106331793	48938767	288	45936										
HPRT1	3251	broad.mit.edu	37	chrX	133632689	133632689	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tgtaggatatgcccttgactAtaatgaatacttcagggatt	9	6	1	2			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chrX:133632689A>G	uc004exl.3	+	8	751	c.584A>G	c.(583-585)TAT>TGT	p.Y195C	HPRT1_uc010nrs.2_RNA	NM_000194	NP_000185	P00492	HPRT_HUMAN	hypoxanthine phosphoribosyltransferase 1	195			Y -> C (in GOUT-HPRT; Dirranbandi).		adenine salvage|central nervous system neuron development|cerebral cortex neuron differentiation|cytolysis|dendrite morphogenesis|GMP catabolic process|GMP salvage|grooming behavior|guanine salvage|hypoxanthine salvage|IMP salvage|lymphocyte proliferation|positive regulation of dopamine metabolic process|protein homotetramerization|purine ribonucleoside salvage|response to amphetamine|striatum development	cytosol	guanine phosphoribosyltransferase activity|hypoxanthine phosphoribosyltransferase activity|magnesium ion binding|nucleotide binding|protein homodimerization activity				0	Acute lymphoblastic leukemia(192;0.000127)				Mercaptopurine(DB01033)|Thioguanine(DB00352)	GCCCTTGACTATAATGAATAC	0.289													41	22	---	---	---	---	PASS	G	133632689	G	G	133632689	3	3	126	1	0	0	0	0	1	0	0	0	7338	449	16	5	614	5	HPRT1	23	133632689	Missense_Mutation	SNP	A	TCGA-60-2713-01A-01D-1522-08	27300896	133632689	21637871	289	45937										
SAGE1	55511	broad.mit.edu	37	chrX	134987483	134987483	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.105633802816901	30	0.0406740971801801	1.44634927191986	1.98428970287953	1.06779859828158	0.477849621897703	0.81842946137857	9	tcgaactgacaaagtcttgtCaactgctccaccacagcttg	7	13	2	1			TCGA-60-2713-01A-01D-1522-08	TCGA-60-2713-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	79eb7bba-f0d8-462c-add7-20a2fb7843e1	9eba89e5-0eb9-413a-ae43-30a1d30a7eeb	g.chrX:134987483C>G	uc004ezh.2	+	5	553	c.386C>G	c.(385-387)TCA>TGA	p.S129*	SAGE1_uc010nry.1_Nonsense_Mutation_p.S98*|SAGE1_uc011mvv.1_Nonsense_Mutation_p.S129*	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	129										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AAAGTCTTGTCAACTGCTCCA	0.463													71	29	---	---	---	---	PASS	G	134987483	G	G	134987483	4	3	126	1	0	0	0	0	0	1	0	0	13809	838	29	2	400	2	SAGE1	23	134987483	Nonsense_Mutation	SNP	C	TCGA-60-2713-01A-01D-1522-08	1354794	134987483	20283077	290	45938										
KIAA0562	9731	broad.mit.edu	37	chr1	3765275	3765275	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aatcatatactggtgagcaaGtaactgcagtttccttattc	7	8	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:3765275G>T	uc001aky.2	-	3	543	c.184C>A	c.(184-186)CTT>ATT	p.L62I	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Missense_Mutation_p.L62I	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	62						centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		TGGTGAGCAAGTAACTGCAGT	0.368													12	134	---	---	---	---	PASS	T	3765275	T	T	3765275	3	4	127	1	0	0	0	0	1	0	0	0	8184	1029	36	3	2673	3	KIAA0562	1	3765275	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08		3765275	245485346	1	45939										
CAMTA1	23261	broad.mit.edu	37	chr1	7724860	7724860	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	taccccgtggcccagcccagCctcggcaacgcctccaacat	8	20	0	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:7724860C>T	uc001aoi.2	+	9	2460	c.2253C>T	c.(2251-2253)AGC>AGT	p.S751S		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	751					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		CCCAGCCCAGCCTCGGCAACG	0.637													5	220	---	---	---	---	PASS	T	7724860	T	T	7724860	2	4	127	1	0	0	0	0	0	0	0	1	2613	738	26	3		3	CAMTA1	1	7724860	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	3959585	7724860	241525761	2	45940										
UBR4	23352	broad.mit.edu	37	chr1	19467977	19467977	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tccaggggagaggggttgccAttgttgacattttcagctgt	14	7	1	2	rs12068417		TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:19467977A>G	uc001bbi.2	-	57	8356	c.8352T>C	c.(8350-8352)AAT>AAC	p.N2784N	UBR4_uc001bbk.1_Silent_p.N466N	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2784					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		AGGGGTTGCCATTGTTGACAT	0.557													9	110	---	---	---	---	PASS	G	19467977	G	G	19467977	2	3	127	1	0	0	0	0	0	0	0	1	16901	214	8	5		5	UBR4	1	19467977	Silent	SNP	A	TCGA-60-2715-01A-01D-1522-08	11743117	19467977	229782644	3	45941										
ZSWIM5	57643	broad.mit.edu	37	chr1	45671871	45671871	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggcgggccccgaggaccaggCagctgctgccgacgccccct	15	18	0	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:45671871C>A	uc001cnd.2	-	1	380	c.152G>T	c.(151-153)TGC>TTC	p.C51F		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	51							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					GAGGACCAGGCAGCTGCTGCC	0.716													2	1	---	---	---	---	PASS	A	45671871	A	A	45671871	3	1	127	1	0	0	0	0	1	0	0	0	18241	710	25	3	3461	3	ZSWIM5	1	45671871	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	26203894	45671871	203578750	4	45942										
SLC35D1	23169	broad.mit.edu	37	chr1	67515497	67515497	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aaggctccaataatcattgcAaatacagtcattttaatacc	4	9	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:67515497A>G	uc001ddk.2	-	6	885	c.501T>C	c.(499-501)TTT>TTC	p.F167F	SLC35D1_uc010oph.1_Silent_p.F88F	NM_015139	NP_055954	Q9NTN3	S35D1_HUMAN	solute carrier family 35 (UDP-glucuronic	167	Helical; (Potential).				chondroitin sulfate biosynthetic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	integral to endoplasmic reticulum membrane	UDP-glucuronic acid transmembrane transporter activity|UDP-N-acetylgalactosamine transmembrane transporter activity				0					Lorazepam(DB00186)	TAATCATTGCAAATACAGTCA	0.308													6	55	---	---	---	---	PASS	G	67515497	G	G	67515497	2	3	127	1	0	0	0	0	0	0	0	1	14581	127	5	5		5	SLC35D1	1	67515497	Silent	SNP	A	TCGA-60-2715-01A-01D-1522-08	21843626	67515497	181735124	5	45943										
LRRC7	57554	broad.mit.edu	37	chr1	70482168	70482168	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	attgaagaatttaccattctCatttaccaaacttaaagagc	4	8	1	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:70482168C>T	uc001dep.2	+	12	1187	c.1157C>T	c.(1156-1158)TCA>TTA	p.S386L	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	386	LRR 16.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TTACCATTCTCATTTACCAAA	0.259													11	136	---	---	---	---	PASS	T	70482168	T	T	70482168	3	4	127	1	0	0	0	0	1	0	0	0	9020	838	29	2	1203	2	LRRC7	1	70482168	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	2966671	70482168	178768453	6	45944										
ZRANB2	9406	broad.mit.edu	37	chr1	71534977	71534977	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	accttgatttcgacccacgaGatctcgaacgttctctggaa	8	12	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:71534977G>C	uc001dft.2	-	8	819	c.752C>G	c.(751-753)TCT>TGT	p.S251C	ZRANB2_uc001dfs.2_Missense_Mutation_p.S251C|uc010oqr.1_5'Flank|MIR186_hsa-mir-186|MI0000483_5'Flank	NM_203350	NP_976225	O95218	ZRAB2_HUMAN	zinc finger protein 265 isoform 1	251	Arg/Ser-rich.|Required for nuclear targeting.				mRNA processing|RNA splicing	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						CGACCCACGAGATCTCGAACG	0.433													5	79	---	---	---	---	PASS	C	71534977	C	C	71534977	3	2	127	1	0	0	0	0	1	0	0	0	18220	942	33	2	290	2	ZRANB2	1	71534977	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	1052809	71534977	177715644	7	45945										
MSH4	4438	broad.mit.edu	37	chr1	76280711	76280711	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aaaacttcttttcagaatgtTaatttcactactatccaaag	3	8	3	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:76280711T>C	uc001dhd.1	+	5	746	c.705T>C	c.(703-705)GTT>GTC	p.V235V		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	235					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						TTCAGAATGTTAATTTCACTA	0.343								MMR					7	78	---	---	---	---	PASS	C	76280711	C	C	76280711	2	2	127	1	0	0	0	0	0	0	0	1	9872	1741	61	5		5	MSH4	1	76280711	Silent	SNP	T	TCGA-60-2715-01A-01D-1522-08	4745734	76280711	172969910	8	45946										
CCDC18	343099	broad.mit.edu	37	chr1	93677773	93677773	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gccaagaaagtagcaaattaAgtagtttagaaacagaacct	8	6	0	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:93677773A>T	uc001dpq.2	+	11	1972	c.1804A>T	c.(1804-1806)AGT>TGT	p.S602C	CCDC18_uc009wdl.1_Missense_Mutation_p.S163C	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	484										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)		TAGCAAATTAAGTAGTTTAGA	0.318													7	315	---	---	---	---	PASS	T	93677773	T	T	93677773	3	4	127	1	0	0	0	0	1	0	0	0	2794	72	3	5	1846	5	CCDC18	1	93677773	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	17397062	93677773	155572848	9	45947										
CHRNB2	1141	broad.mit.edu	37	chr1	154544128	154544128	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tctcagtgctgctggcgctcAcggtcttcctgctgctcatc	10	15	4	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:154544128A>G	uc001ffg.2	+	5	1093	c.829A>G	c.(829-831)ACG>GCG	p.T277A		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	277	Helical; (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	GCTGGCGCTCACGGTCTTCCT	0.582													15	189	---	---	---	---	PASS	G	154544128	G	G	154544128	3	3	127	1	0	0	0	0	1	0	0	0	3391	159	6	5	847	5	CHRNB2	1	154544128	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	60866355	154544128	94706493	10	45948										
GPATCH4	54865	broad.mit.edu	37	chr1	156565284	156565284	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tgattggtttgctctctgctAttcaattccccaagcccact	6	13	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:156565284A>T	uc001fpm.2	-	8	888	c.849T>A	c.(847-849)AAT>AAA	p.N283K	APOA1BP_uc010php.1_Intron|GPATCH4_uc001fpl.2_Missense_Mutation_p.N278K	NM_015590	NP_056405	Q5T3I0	GPTC4_HUMAN	G patch domain containing 4 isoform 1	278						intracellular	nucleic acid binding			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCTCTCTGCTATTCAATTCCC	0.493													148	497	---	---	---	---	PASS	T	156565284	T	T	156565284	3	4	127	1	0	0	0	0	1	0	0	0	6593	446	16	5	282	5	GPATCH4	1	156565284	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	2021156	156565284	92685337	11	45949										
CD1C	911	broad.mit.edu	37	chr1	158263072	158263072	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtgattctaatagtccttgtGttatggtttaagaagcactg	10	5	1	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:158263072G>T	uc001fru.2	+	5	1252	c.960G>T	c.(958-960)GTG>GTT	p.V320V	CD1C_uc001frv.2_Intron	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	320	Helical; (Potential).				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					TAGTCCTTGTGTTATGGTTTA	0.393													30	515	---	---	---	---	PASS	T	158263072	T	T	158263072	2	4	127	1	0	0	0	0	0	0	0	1	2976	1364	48	3		3	CD1C	1	158263072	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	1697788	158263072	90987549	12	45950										
SPTA1	6708	broad.mit.edu	37	chr1	158650398	158650398	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cacactcattggcatattggTtcacttcaacaactctccct	4	14	4	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:158650398T>G	uc001fst.1	-	5	852	c.653A>C	c.(652-654)AAC>ACC	p.N218T		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	218	Spectrin 3.				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)					GGCATATTGGTTCACTTCAAC	0.453													49	244	---	---	---	---	PASS	G	158650398	G	G	158650398	3	3	127	1	0	0	0	0	1	0	0	0	15115	1725	60	5	6798	5	SPTA1	1	158650398	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	387326	158650398	90600223	13	45951										
NDUFS2	4720	broad.mit.edu	37	chr1	161179712	161179712	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gcttatatccggccaggaggAgtgcaccaggtgagcaggtc	15	10	0	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:161179712A>T	uc001fyv.2	+	7	1141	c.693A>T	c.(691-693)GGA>GGT	p.G231G	NDUFS2_uc010pki.1_Silent_p.G133G|NDUFS2_uc001fyw.2_Silent_p.G231G|NDUFS2_uc010pkj.1_Silent_p.G180G|NDUFS2_uc001fyx.2_Silent_p.G231G	NM_004550	NP_004541	O75306	NDUS2_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 2	231					mitochondrial electron transport, NADH to ubiquinone|response to oxidative stress|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity|protein binding|quinone binding			skin(1)	1	all_cancers(52;1.16e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		NADH(DB00157)	GGCCAGGAGGAGTGCACCAGG	0.547											OREG0013941	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	45	---	---	---	---	PASS	T	161179712	T	T	161179712	2	4	127	1	0	0	0	0	0	0	0	1	10292	291	11	5		5	NDUFS2	1	161179712	Silent	SNP	A	TCGA-60-2715-01A-01D-1522-08	2529314	161179712	88070909	14	45952										
DENND1B	163486	broad.mit.edu	37	chr1	197509126	197509126	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	acgcttttctgagtttcctcCcttttcattgtgtaatttgt	6	9	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:197509126C>T	uc010ppe.1	-	19	1761	c.1423G>A	c.(1423-1425)GGA>AGA	p.G475R	DENND1B_uc010ppf.1_RNA	NM_001142795	NP_001136267	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 1	Error:Variant_position_missing_in_Q6P3S1_after_alignment						clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						GAGTTTCCTCCCTTTTCATTG	0.338													4	115	---	---	---	---	PASS	T	197509126	T	T	197509126	3	4	127	1	0	0	0	0	1	0	0	0	4427	632	22	3	860	3	DENND1B	1	197509126	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	36329414	197509126	51741495	15	45953										
TRAF3IP3	80342	broad.mit.edu	37	chr1	209933511	209933511	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtcccaatgtgaccacttgcCgccaggtggggaagacgctg	14	12	0	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:209933511C>G	uc001hho.2	+	3	417	c.127C>G	c.(127-129)CGC>GGC	p.R43G	TRAF3IP3_uc001hhl.2_Missense_Mutation_p.R43G|TRAF3IP3_uc001hhm.1_Missense_Mutation_p.R43G|TRAF3IP3_uc001hhn.2_Missense_Mutation_p.R43G|TRAF3IP3_uc009xcr.2_Missense_Mutation_p.R43G	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	43	Cytoplasmic (Potential).					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		GACCACTTGCCGCCAGGTGGG	0.612													4	61	---	---	---	---	PASS	G	209933511	G	G	209933511	3	3	127	1	0	0	0	0	1	0	0	0	16439	652	23	4	129	4	TRAF3IP3	1	209933511	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	12424385	209933511	39317110	16	45954										
EPRS	2058	broad.mit.edu	37	chr1	220152836	220152836	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tggtcataacaccaatagttCgagttgtcaggccccaggag	11	10	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:220152836C>A	uc001hly.1	-	27	4103	c.3833G>T	c.(3832-3834)CGA>CTA	p.R1278L		NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	1278	Prolyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	ACCAATAGTTCGAGTTGTCAG	0.413													13	193	---	---	---	---	PASS	A	220152836	A	A	220152836	3	1	127	1	0	0	0	0	1	0	0	0	5191	884	31	2	729	2	EPRS	1	220152836	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	10219325	220152836	29097785	17	45955										
MIA3	375056	broad.mit.edu	37	chr1	222806450	222806450	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ttcctcccaattccagggccAgttacaacagaagacactcc	6	15	0	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:222806450A>T	uc001hnl.2	+	6	3345	c.3336A>T	c.(3334-3336)CCA>CCT	p.P1112P	MIA3_uc009xea.1_Silent_p.P948P	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	1112	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		TTCCAGGGCCAGTTACAACAG	0.353													8	602	---	---	---	---	PASS	T	222806450	T	T	222806450	2	4	127	1	0	0	0	0	0	0	0	1	9565	175	7	5		5	MIA3	1	222806450	Silent	SNP	A	TCGA-60-2715-01A-01D-1522-08	2653614	222806450	26444171	18	45956										
LEFTY2	7044	broad.mit.edu	37	chr1	226125168	226125168	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tggagcctccttggcacgagCgccccatccgaggcacagct	12	16	0	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:226125168C>A	uc001hpt.1	-	4	1154	c.1074G>T	c.(1072-1074)GCG>GCT	p.A358A	LEFTY2_uc010pvk.1_Silent_p.A324A|LEFTY2_uc009xek.1_3'UTR	NM_003240	NP_003231	O00292	LFTY2_HUMAN	endometrial bleeding associated factor	358					cell growth|multicellular organismal development|platelet activation|platelet degranulation|transforming growth factor beta receptor signaling pathway	extracellular space|platelet alpha granule lumen	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)					TTGGCACGAGCGCCCCATCCG	0.577													5	125	---	---	---	---	PASS	A	226125168	A	A	226125168	2	1	127	1	0	0	0	0	0	0	0	1	8716	755	27	1		1	LEFTY2	1	226125168	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	3318718	226125168	23125453	19	45957										
RYR2	6262	broad.mit.edu	37	chr1	237870287	237870287	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	atgtggaagatgtttgtccaAacataccgtctttggagaaa	10	6	1	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:237870287A>T	uc001hyl.1	+	68	9739	c.9619A>T	c.(9619-9621)AAC>TAC	p.N3207Y	RYR2_uc010pxz.1_Missense_Mutation_p.N162Y	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3207					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)			TGTTTGTCCAAACATACCGTC	0.418													72	284	---	---	---	---	PASS	T	237870287	T	T	237870287	3	4	127	1	0	0	0	0	1	0	0	0	13769	14	1	5	9889	5	RYR2	1	237870287	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	11745119	237870287	11380334	20	45958										
OR2B11	127623	broad.mit.edu	37	chr1	247614915	247614915	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gatggccacgtagcggtccaGggccatggcggccaggacga	17	12	0	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr1:247614915G>T	uc010pyx.1	-	1	370	c.370C>A	c.(370-372)CTG>ATG	p.L124M		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	124	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TAGCGGTCCAGGGCCATGGCG	0.607													18	89	---	---	---	---	PASS	T	247614915	T	T	247614915	3	4	127	1	0	0	0	0	1	0	0	0	10988	991	35	3	586	3	OR2B11	1	247614915	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	9744628	247614915	1635706	21	45959										
KCNF1	3754	broad.mit.edu	37	chr2	11053750	11053750	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtggtgtcatcgccatcgccCtgcccatccaccccatcatc	7	19	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:11053750C>T	uc002rax.2	+	1	1688	c.1198C>T	c.(1198-1200)CTG>TTG	p.L400L		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	400	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		CGCCATCGCCCTGCCCATCCA	0.592													3	60	---	---	---	---	PASS	T	11053750	T	T	11053750	2	4	127	1	0	0	0	0	0	0	0	1	8026	680	24	3		3	KCNF1	2	11053750	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08		11053750	232145623	22	45960										
GREB1	9687	broad.mit.edu	37	chr2	11770204	11770204	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ccaacctggaggccagctggAgagcatgcgactacccctcg	12	15	0	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:11770204A>T	uc002rbk.1	+	26	4880	c.4580A>T	c.(4579-4581)GAG>GTG	p.E1527V	GREB1_uc002rbp.1_Missense_Mutation_p.E525V	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1527						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)		GGCCAGCTGGAGAGCATGCGA	0.557													15	95	---	---	---	---	PASS	T	11770204	T	T	11770204	3	4	127	1	0	0	0	0	1	0	0	0	6760	304	11	5	4786	5	GREB1	2	11770204	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	716454	11770204	231429169	23	45961										
CAD	790	broad.mit.edu	37	chr2	27449096	27449096	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gaatgacagggagtatcagcTcctgaggcagacagctatca	12	9	2	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:27449096T>C	uc002rji.2	+	13	2102	c.1940T>C	c.(1939-1941)CTC>CCC	p.L647P	CAD_uc010eyw.2_Intron	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	647	CPSase (Carbamoyl-phosphate synthase).|CPSase A.|ATP-grasp 1.				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	GAGTATCAGCTCCTGAGGCAG	0.542													15	70	---	---	---	---	PASS	C	27449096	C	C	27449096	3	2	127	1	0	0	0	0	1	0	0	0	2565	1551	54	5	1990	5	CAD	2	27449096	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	15678892	27449096	215750277	24	45962										
LRRTM4	80059	broad.mit.edu	37	chr2	77745843	77745843	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ttgaagatggtaggtctaggGataatcagaggtttctgggg	16	3	3	3	rs34870411		TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:77745843G>A	uc002snr.2	-	3	1567	c.1152C>T	c.(1150-1152)ATC>ATT	p.I384I	LRRTM4_uc002snq.2_Silent_p.I384I|LRRTM4_uc002sns.2_Silent_p.I384I|LRRTM4_uc002snt.2_Silent_p.I385I	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	384	Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TAGGTCTAGGGATAATCAGAG	0.488													6	90	---	---	---	---	PASS	A	77745843	A	A	77745843	2	1	127	1	0	0	0	0	0	0	0	1	9042	1164	41	2		2	LRRTM4	2	77745843	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	50296747	77745843	165453530	25	45963										
CD8B	926	broad.mit.edu	37	chr2	87085349	87085349	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	acctcttcaccgtggatagtCccttttgcggaatcccagag	9	13	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:87085349C>T	uc002srz.2	-	2	284	c.234G>A	c.(232-234)GGG>GGA	p.G78G	RMND5A_uc002srs.3_Intron|CD8B_uc002srw.2_Silent_p.G78G|CD8B_uc002srx.2_Silent_p.G78G|CD8B_uc002sry.2_Silent_p.G78G|CD8B_uc010fgt.2_Silent_p.G78G|CD8B_uc002ssa.2_Silent_p.G78G|CD8B_uc010yto.1_Silent_p.G78G	NM_004931	NP_004922	P10966	CD8B_HUMAN	CD8b antigen isoform 5 precursor	78	Ig-like V-type.|Extracellular (Potential).				immune response|regulation of defense response to virus by virus|regulation of immune response|T cell activation|transmembrane receptor protein tyrosine kinase signaling pathway|viral reproduction	early endosome|extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			upper_aerodigestive_tract(1)|skin(1)	2						CGTGGATAGTCCCTTTTGCGG	0.552													11	114	---	---	---	---	PASS	T	87085349	T	T	87085349	2	4	127	1	0	0	0	0	0	0	0	1	3045	842	30	2		2	CD8B	2	87085349	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	9339506	87085349	156114024	26	45964										
IL1RL2	8808	broad.mit.edu	37	chr2	102851383	102851383	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ccaatgtcatcgatgaaaacGttaagctgtgcaggaggctg	12	8	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:102851383G>C	uc002tbs.2	+	11	1450	c.1324G>C	c.(1324-1326)GTT>CTT	p.V442L	IL1RL2_uc002tbt.2_Missense_Mutation_p.V324L	NM_003854	NP_003845	Q9HB29	ILRL2_HUMAN	interleukin 1 receptor-like 2 precursor	442	TIR.|Cytoplasmic (Potential).				cellular defense response|innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity			ovary(2)	2						CGATGAAAACGTTAAGCTGTG	0.473													17	95	---	---	---	---	PASS	C	102851383	C	C	102851383	3	2	127	1	0	0	0	0	1	0	0	0	7664	1145	40	4	1362	4	IL1RL2	2	102851383	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	15766034	102851383	140347990	27	45965										
GCC2	9648	broad.mit.edu	37	chr2	109086493	109086493	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	taccaaaaaaatattaatagTttgcaggaagagcttttaca	6	5	0	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:109086493T>C	uc002tec.2	+	6	862	c.708T>C	c.(706-708)AGT>AGC	p.S236S	GCC2_uc002ted.2_Silent_p.S135S	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	236	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						ATATTAATAGTTTGCAGGAAG	0.373													11	193	---	---	---	---	PASS	C	109086493	C	C	109086493	2	2	127	1	0	0	0	0	0	0	0	1	6286	1722	60	5		5	GCC2	2	109086493	Silent	SNP	T	TCGA-60-2715-01A-01D-1522-08	6235110	109086493	134112880	28	45966										
POTEE	445582	broad.mit.edu	37	chr2	131976314	131976314	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ccctgctgcagggggagcggCaagagcaaggtgggcgcttg	19	10	0	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:131976314C>T	uc002tsn.2	+	1	391	c.339C>T	c.(337-339)GGC>GGT	p.G113G	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	113							ATP binding				0						GGGGGAGCGGCAAGAGCAAGG	0.602													9	204	---	---	---	---	PASS	T	131976314	T	T	131976314	2	4	127	1	0	0	0	0	0	0	0	1	12264	697	25	3		3	POTEE	2	131976314	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	22889821	131976314	111223059	29	45967										
PKP4	8502	broad.mit.edu	37	chr2	159537044	159537044	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ctatgaagatccttattttgAtgaccgagttcactttccag	7	9	1	4			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:159537044A>C	uc002tzv.2	+	22	3694	c.3434A>C	c.(3433-3435)GAT>GCT	p.D1145A	PKP4_uc002tzw.2_Missense_Mutation_p.D1102A|PKP4_uc002tzx.2_Missense_Mutation_p.D802A|PKP4_uc002uaa.2_Missense_Mutation_p.D954A|uc002uab.1_Intron|PKP4_uc002uac.2_Missense_Mutation_p.D326A|PKP4_uc002uad.2_RNA	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	1145					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						CCTTATTTTGATGACCGAGTT	0.373										HNSCC(62;0.18)			6	323	---	---	---	---	PASS	C	159537044	C	C	159537044	3	2	127	1	0	0	0	0	1	0	0	0	11987	333	12	5	3516	5	PKP4	2	159537044	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	27560730	159537044	83662329	30	45968										
SCN1A	6323	broad.mit.edu	37	chr2	166909449	166909449	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	caggtccacaaactctgtgaCgtacctgtaatagggagttc	10	10	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:166909449C>T	uc010zcz.1	-	5	625	c.607G>A	c.(607-609)GTC>ATC	p.V203I	SCN1A_uc002udo.3_Missense_Mutation_p.V72I|SCN1A_uc010fpk.2_Missense_Mutation_p.V72I	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	203	Helical; Name=S3 of repeat I; (By similarity).|I.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AACTCTGTGACGTACCTGTAA	0.438													4	68	---	---	---	---	PASS	T	166909449	T	T	166909449	3	4	127	1	0	0	0	0	1	0	0	0	13914	536	19	1	5510	1	SCN1A	2	166909449	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	7372405	166909449	76289924	31	45969										
RBM45	129831	broad.mit.edu	37	chr2	178988913	178988913	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cagacagatgttgtacttccAtcatgcaaaaaaaaagctcc	6	10	1	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:178988913A>G	uc002ulv.2	+	8	1220	c.1128A>G	c.(1126-1128)CCA>CCG	p.P376P		NM_152945	NP_694453	Q8IUH3	RBM45_HUMAN	RNA binding motif protein 45	378					cell differentiation|nervous system development	cytoplasm|nucleus	nucleotide binding|RNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.00957)|all cancers(119;0.037)			TTGTACTTCCATCATGCAAAA	0.358													4	225	---	---	---	---	PASS	G	178988913	G	G	178988913	2	3	127	1	0	0	0	0	0	0	0	1	13139	204	8	5		5	RBM45	2	178988913	Silent	SNP	A	TCGA-60-2715-01A-01D-1522-08	12079464	178988913	64210460	32	45970										
TTN	7273	broad.mit.edu	37	chr2	179485341	179485341	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tttaagaggctcaacaatccTaaggtcttcctctgttgtaa	7	9	3	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:179485341T>C	uc010zfg.1	-	197	38427	c.38203A>G	c.(38203-38205)AGG>GGG	p.R12735G	TTN_uc010zfh.1_Missense_Mutation_p.R6430G|TTN_uc010zfi.1_Missense_Mutation_p.R6363G|TTN_uc010zfj.1_Missense_Mutation_p.R6238G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13662							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)			TCAACAATCCTAAGGTCTTCC	0.323													9	141	---	---	---	---	PASS	C	179485341	C	C	179485341	3	2	127	1	0	0	0	0	1	0	0	0	16732	1521	53	5	62246	5	TTN	2	179485341	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	496428	179485341	63714032	33	45971										
COL4A3	1285	broad.mit.edu	37	chr2	228135511	228135511	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cccaggtgcccagggtgaccCaggacttaaaggagaaaaag	13	10	0	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:228135511C>A	uc002vom.1	+	25	1763	c.1601C>A	c.(1600-1602)CCA>CAA	p.P534Q	COL4A3_uc002von.1_Missense_Mutation_p.P534Q|COL4A3_uc002voo.1_Missense_Mutation_p.P534Q|COL4A3_uc002vop.1_Missense_Mutation_p.P534Q|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	534	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)		CAGGGTGACCCAGGACTTAAA	0.493													6	100	---	---	---	---	PASS	A	228135511	A	A	228135511	3	1	127	1	0	0	0	0	1	0	0	0	3691	594	21	3	1699	3	COL4A3	2	228135511	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	48650170	228135511	15063862	34	45972										
TM4SF20	79853	broad.mit.edu	37	chr2	228243969	228243969	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tccattgcaggatgtccatcCttcgcagcaggtcatggtca	10	12	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:228243969C>T	uc002vpb.2	-	1	54	c.16G>A	c.(16-18)GGA>AGA	p.G6R		NM_024795	NP_079071	Q53R12	T4S20_HUMAN	transmembrane 4 L six family member 20	6	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0		Renal(207;0.025)|all_lung(227;0.123)|Esophageal squamous(248;0.23)|all_hematologic(139;0.248)		Epithelial(121;3.8e-11)|all cancers(144;2.57e-08)|Lung(261;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0115)		GATGTCCATCCTTCGCAGCAG	0.463													5	181	---	---	---	---	PASS	T	228243969	T	T	228243969	3	4	127	1	0	0	0	0	1	0	0	0	15966	690	24	3	689	3	TM4SF20	2	228243969	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	108458	228243969	14955404	35	45973										
C2orf54	79919	broad.mit.edu	37	chr2	241829491	241829491	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ctctcgtggttgacccggtcGaggatggagaggctgtccag	16	10	1	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr2:241829491G>A	uc002wae.3	-	3	984	c.825C>T	c.(823-825)CTC>CTT	p.L275L	C2orf54_uc002wac.2_Silent_p.L107L|C2orf54_uc002wad.2_Silent_p.L126L	NM_001085437	NP_001078906	Q08AI8	CB054_HUMAN	hypothetical protein LOC79919 isoform 1	275											0		all_epithelial(40;3.99e-16)|Breast(86;2.35e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|Lung NSC(271;0.094)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;8.14e-32)|all cancers(36;4.77e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;4.88e-06)|Lung(119;0.000452)|LUSC - Lung squamous cell carcinoma(224;0.00415)|Colorectal(34;0.021)|COAD - Colon adenocarcinoma(134;0.15)		TGACCCGGTCGAGGATGGAGA	0.662													4	49	---	---	---	---	PASS	A	241829491	A	A	241829491	2	1	127	1	0	0	0	0	0	0	0	1	2175	1045	37	2		2	C2orf54	2	241829491	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	13585522	241829491	1369882	36	45974										
IL5RA	3568	broad.mit.edu	37	chr3	3139576	3139576	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	atggcgtgaagggcaaacagCtgatcaaagggcctgatagc	14	8	1	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:3139576C>A	uc011ask.1	-	8	1331	c.687G>T	c.(685-687)CAG>CAT	p.Q229H	IL5RA_uc010hbq.2_Missense_Mutation_p.Q229H|IL5RA_uc010hbr.2_Intron|IL5RA_uc010hbs.2_Missense_Mutation_p.Q229H|IL5RA_uc011asl.1_Missense_Mutation_p.Q229H|IL5RA_uc011asm.1_Missense_Mutation_p.Q229H|IL5RA_uc010hbt.2_Missense_Mutation_p.Q229H|IL5RA_uc011asn.1_Missense_Mutation_p.Q229H|IL5RA_uc010hbu.2_Missense_Mutation_p.Q229H	NM_000564	NP_000555	Q01344	IL5RA_HUMAN	interleukin 5 receptor, alpha isoform 1	229	Extracellular (Potential).				cell proliferation	extracellular space|integral to membrane|plasma membrane	interleukin-5 receptor activity			ovary(1)	1				Epithelial(13;0.00278)|all cancers(10;0.00809)|OV - Ovarian serous cystadenocarcinoma(96;0.00944)		GGGCAAACAGCTGATCAAAGG	0.398													6	84	---	---	---	---	PASS	A	3139576	A	A	3139576	3	1	127	1	0	0	0	0	1	0	0	0	7700	796	28	3	625	3	IL5RA	3	3139576	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08		3139576	194882854	37	45975										
XIRP1	165904	broad.mit.edu	37	chr3	39227577	39227577	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	agtgcttgctcttccctactGacctttctgggggctgctgg	12	12	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:39227577G>A	uc003cjk.1	-	2	3581	c.3360C>T	c.(3358-3360)GTC>GTT	p.V1120V	XIRP1_uc003cji.2_Intron|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	1120							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CTTCCCTACTGACCTTTCTGG	0.602													11	191	---	---	---	---	PASS	A	39227577	A	A	39227577	2	1	127	1	0	0	0	0	0	0	0	1	17426	1277	45	2		2	XIRP1	3	39227577	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	36088001	39227577	158794853	38	45976										
LRRC2	79442	broad.mit.edu	37	chr3	46574382	46574382	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gaaacccacattgagttcttTcaggttcttcaaacaacctg	6	11	4	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:46574382T>A	uc010hji.2	-	5	872	c.508A>T	c.(508-510)AAA>TAA	p.K170*	LRRC2_uc003cpu.3_Nonsense_Mutation_p.K170*	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2	170	LRR 3.									ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		TTGAGTTCTTTCAGGTTCTTC	0.358													16	233	---	---	---	---	PASS	A	46574382	A	A	46574382	4	1	127	1	0	0	0	0	0	1	0	0	8976	1792	62	5	627	5	LRRC2	3	46574382	Nonsense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	7346805	46574382	151448048	39	45977										
TLR9	54106	broad.mit.edu	37	chr3	52257452	52257452	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	attcagccaggagagagaacTgtccttcaacaccaggcctt	9	12	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:52257452T>A	uc003dda.1	-	2	1514	c.880A>T	c.(880-882)AGT>TGT	p.S294C	TLR9_uc003ddb.2_Missense_Mutation_p.S391C	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	294	LRR 9.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	GAGAGAGAACTGTCCTTCAAC	0.562													6	64	---	---	---	---	PASS	A	52257452	A	A	52257452	3	1	127	1	0	0	0	0	1	0	0	0	15955	1580	55	5	2222	5	TLR9	3	52257452	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	5683070	52257452	145764978	40	45978										
CADPS	8618	broad.mit.edu	37	chr3	62423878	62423878	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	taggcgtcggccacgtccatCccgggtttctgtaaagaaac	11	12	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:62423878C>T	uc003dll.2	-	28	4038	c.3678G>A	c.(3676-3678)GGG>GGA	p.G1226G	CADPS_uc003dlj.1_Silent_p.G181G|CADPS_uc003dlk.1_Silent_p.G674G|CADPS_uc003dlm.2_Silent_p.G1187G|CADPS_uc003dln.2_Silent_p.G1147G	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	1226	Mediates targeting and association with DCVs (By similarity).				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		CCACGTCCATCCCGGGTTTCT	0.463													11	62	---	---	---	---	PASS	T	62423878	T	T	62423878	2	4	127	1	0	0	0	0	0	0	0	1	2570	842	30	2		2	CADPS	3	62423878	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	10166426	62423878	135598552	41	45979										
ACPP	55	broad.mit.edu	37	chr3	132071602	132071602	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggcctacagatggcgctagaTgtttacaacggactccttcc	10	12	0	2	rs116804987	byFrequency	TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:132071602T>C	uc010htp.2	+	9	993	c.903T>C	c.(901-903)GAT>GAC	p.D301D	ACPP_uc003eon.3_Silent_p.D268D|ACPP_uc003eop.3_Silent_p.D301D	NM_001099	NP_001090	P15309	PPAP_HUMAN	acid phosphatase, prostate short isoform	301						extracellular region|lysosomal membrane	5'-nucleotidase activity|acid phosphatase activity			ovary(1)	1						TGGCGCTAGATGTTTACAACG	0.423													30	200	---	---	---	---	PASS	C	132071602	C	C	132071602	2	2	127	1	0	0	0	0	0	0	0	1	167	1461	51	5		5	ACPP	3	132071602	Silent	SNP	T	TCGA-60-2715-01A-01D-1522-08	69647724	132071602	65950828	42	45980										
ZIC4	84107	broad.mit.edu	37	chr3	147113823	147113823	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cagaagcaaatgtggttggcCtgttccgggccgccgacgtg	15	11	0	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:147113823C>A	uc003ewd.1	-	3	777	c.504G>T	c.(502-504)CAG>CAT	p.Q168H	ZIC4_uc003ewc.1_Missense_Mutation_p.Q98H|ZIC4_uc011bno.1_Missense_Mutation_p.Q218H	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	168						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						TGTGGTTGGCCTGTTCCGGGC	0.607													30	226	---	---	---	---	PASS	A	147113823	A	A	147113823	3	1	127	1	0	0	0	0	1	0	0	0	17678	680	24	3	512	3	ZIC4	3	147113823	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	15042221	147113823	50908607	43	45981										
IGSF10	285313	broad.mit.edu	37	chr3	151161030	151161030	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aggctaggtttcttatatacAaagtcccatttgaaaataag	7	6	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:151161030A>T	uc011bod.1	-	5	5705	c.5705T>A	c.(5704-5706)TTG>TAG	p.L1902*	IGSF10_uc011bob.1_5'Flank|IGSF10_uc011boc.1_5'Flank	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1902	Ig-like C2-type 5.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TCTTATATACAAAGTCCCATT	0.433													8	209	---	---	---	---	PASS	T	151161030	T	T	151161030	4	4	127	1	0	0	0	0	0	1	0	0	7597	131	5	5	2222	5	IGSF10	3	151161030	Nonsense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	4047207	151161030	46861400	44	45982										
MME	4311	broad.mit.edu	37	chr3	154862192	154862192	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cgagaagtttttattcagacTttagatgacctcacttggat	8	7	2	4			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:154862192T>C	uc010hvr.1	+	14	1573	c.1362T>C	c.(1360-1362)ACT>ACC	p.T454T	MME_uc003fab.1_Silent_p.T454T|MME_uc003fac.1_Silent_p.T454T|MME_uc003fad.1_Silent_p.T454T|MME_uc003fae.1_Silent_p.T454T	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	454	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	TTATTCAGACTTTAGATGACC	0.368													5	159	---	---	---	---	PASS	C	154862192	C	C	154862192	2	2	127	1	0	0	0	0	0	0	0	1	9645	1596	56	5		5	MME	3	154862192	Silent	SNP	T	TCGA-60-2715-01A-01D-1522-08	3701162	154862192	43160238	45	45983										
ZBBX	79740	broad.mit.edu	37	chr3	167023649	167023649	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tttctcctttaaatttctttCaaaggaggtgctttcctcaa	5	9	4	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:167023649C>G	uc003fep.2	-	17	1830	c.1507G>C	c.(1507-1509)GAA>CAA	p.E503Q	ZBBX_uc011bpc.1_Missense_Mutation_p.E503Q|ZBBX_uc003feq.2_Missense_Mutation_p.E474Q	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	503						intracellular	zinc ion binding			ovary(2)	2						AAATTTCTTTCAAAGGAGGTG	0.343													9	84	---	---	---	---	PASS	G	167023649	G	G	167023649	3	3	127	1	0	0	0	0	1	0	0	0	17513	835	29	2	915	2	ZBBX	3	167023649	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	12161457	167023649	30998781	46	45984										
TTC14	151613	broad.mit.edu	37	chr3	180324305	180324305	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	agtttgaacaaagcaatagaAgattttgagcttgcattaga	9	4	0	5			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:180324305A>T	uc003fkk.2	+	9	1218	c.1086A>T	c.(1084-1086)GAA>GAT	p.E362D	TTC14_uc003fkl.2_Missense_Mutation_p.E362D|TTC14_uc003fkm.2_Missense_Mutation_p.E362D	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	362	TPR 3.						RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AAGCAATAGAAGATTTTGAGC	0.383													17	292	---	---	---	---	PASS	T	180324305	T	T	180324305	3	4	127	1	0	0	0	0	1	0	0	0	16678	69	3	5	1120	5	TTC14	3	180324305	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	13300656	180324305	17698125	47	45985										
CCDC39	339829	broad.mit.edu	37	chr3	180372682	180372682	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	atctcactttccaaaaacttGatcttttctttaaccaaatt	1	10	3	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:180372682G>C	uc010hxe.2	-	7	913	c.798C>G	c.(796-798)ATC>ATG	p.I266M	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	266	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			CCAAAAACTTGATCTTTTCTT	0.308													7	40	---	---	---	---	PASS	C	180372682	C	C	180372682	3	2	127	1	0	0	0	0	1	0	0	0	2811	1280	45	2	2083	2	CCDC39	3	180372682	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	48377	180372682	17649748	48	45986										
LAMP3	27074	broad.mit.edu	37	chr3	182841950	182841950	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ataaggcagagaccaaccacGatggccccaatcacaggaag	10	12	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:182841950G>T	uc003flh.3	-	6	1394	c.1170C>A	c.(1168-1170)ATC>ATA	p.I390I		NM_014398	NP_055213	Q9UQV4	LAMP3_HUMAN	lysosomal-associated membrane protein 3	390	Helical; (Potential).				cell proliferation	integral to membrane|lysosomal membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;9.14e-14)|Ovarian(172;0.0355)		all cancers(12;2.91e-44)|Epithelial(37;5.52e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;4.16e-21)			GACCAACCACGATGGCCCCAA	0.463													32	467	---	---	---	---	PASS	T	182841950	T	T	182841950	2	4	127	1	0	0	0	0	0	0	0	1	8619	1048	37	2		2	LAMP3	3	182841950	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	2469268	182841950	15180480	49	45987										
HTR3C	170572	broad.mit.edu	37	chr3	183778105	183778105	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	acctgctcttcatggcctccTccatccttactgtcattgtc	5	16	3	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:183778105T>A	uc003fmk.2	+	9	1343	c.1309T>A	c.(1309-1311)TCC>ACC	p.S437T		NM_130770	NP_570126	Q8WXA8	5HT3C_HUMAN	5-hydroxytryptamine receptor 3 subunit C	437	Helical; Name=4; (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)			CATGGCCTCCTCCATCCTTAC	0.572													54	528	---	---	---	---	PASS	A	183778105	A	A	183778105	3	1	127	1	0	0	0	0	1	0	0	0	7446	1551	54	5	1343	5	HTR3C	3	183778105	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	936155	183778105	14244325	50	45988										
HTR3E	285242	broad.mit.edu	37	chr3	183822650	183822650	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cgcatcaggtataagaaaccCatgaaggtggacagtatctg	11	8	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:183822650C>A	uc010hxq.2	+	5	931	c.465C>A	c.(463-465)CCC>CCA	p.P155P	HTR3E_uc003fml.3_Silent_p.P140P|HTR3E_uc003fmm.2_Silent_p.P170P|HTR3E_uc010hxr.2_Silent_p.P181P|HTR3E_uc003fmn.2_Silent_p.P155P	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	155	Extracellular (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			ATAAGAAACCCATGAAGGTGG	0.478													29	342	---	---	---	---	PASS	A	183822650	A	A	183822650	2	1	127	1	0	0	0	0	0	0	0	1	7448	581	21	3		3	HTR3E	3	183822650	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	44545	183822650	14199780	51	45989										
EIF2B5	8893	broad.mit.edu	37	chr3	183859720	183859720	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	catcctgagccaggtgataaCgtggtgctggaccagaccta	12	11	0	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:183859720C>T	uc003fmp.2	+	8	1528	c.1164C>T	c.(1162-1164)AAC>AAT	p.N388N	EIF2B5_uc003fmq.2_Silent_p.N109N|EIF2B5_uc003fmr.2_5'Flank	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	388					astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			CAGGTGATAACGTGGTGCTGG	0.567													10	201	---	---	---	---	PASS	T	183859720	T	T	183859720	2	4	127	1	0	0	0	0	0	0	0	1	5004	535	19	1		1	EIF2B5	3	183859720	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	37070	183859720	14162710	52	45990										
SENP5	205564	broad.mit.edu	37	chr3	196650360	196650360	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggtctctcattactgtgacaCtctctaatcgaattatttca	5	10	4	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr3:196650360C>T	uc003fwz.3	+	7	2209	c.1960C>T	c.(1960-1962)CTC>TTC	p.L654F	SENP5_uc011bty.1_Intron	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	654	Protease.				cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		TACTGTGACACTCTCTAATCG	0.323													56	198	---	---	---	---	PASS	T	196650360	T	T	196650360	3	4	127	1	0	0	0	0	1	0	0	0	14049	565	20	3	1982	3	SENP5	3	196650360	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	12790640	196650360	1372070	53	45991										
HTT	3064	broad.mit.edu	37	chr4	3189537	3189537	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	taattaataggttaagagatGgggacagtacttcaacgcta	10	5	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr4:3189537G>A	uc011bvq.1	+	40	5300	c.5155G>A	c.(5155-5157)GGG>AGG	p.G1719R		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1717					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GTTAAGAGATGGGGACAGTAC	0.378													7	216	---	---	---	---	PASS	A	3189537	A	A	3189537	3	1	127	1	0	0	0	0	1	0	0	0	7457	1348	47	3	5303	3	HTT	4	3189537	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08		3189537	187964739	54	45992										
PDGFRA	5156	broad.mit.edu	37	chr4	54292082	54292082	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ttatcggtcagactataactAtcagccgagtagaaggcagg	11	8	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr4:54292082A>G	uc003haa.2	+	12	1153	c.967A>G	c.(967-969)ATC>GTC	p.I323V	FIP1L1_uc003gzx.3_Missense_Mutation_p.I308V|FIP1L1_uc011bzt.1_Missense_Mutation_p.I287V|FIP1L1_uc003gzy.2_Missense_Mutation_p.I323V|FIP1L1_uc011bzu.1_Missense_Mutation_p.I308V|FIP1L1_uc003gzz.2_Missense_Mutation_p.I249V|FIP1L1_uc003hab.2_Missense_Mutation_p.I288V|FIP1L1_uc003hac.2_Missense_Mutation_p.I68V|FIP1L1_uc010ign.2_RNA|FIP1L1_uc003had.2_5'UTR|FIP1L1_uc003hae.2_5'Flank	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	Error:Variant_position_missing_in_P16234_after_alignment					cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	GACTATAACTATCAGCCGAGT	0.333			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			8	165	---	---	---	---	PASS	G	54292082	G	G	54292082	3	3	127	1	0	0	0	0	1	0	0	0	11661	449	16	5		5	PDGFRA	4	54292082	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	51102545	54292082	136862194	55	45993										
KDR	3791	broad.mit.edu	37	chr4	55953823	55953823	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tttggggtcacatacttcctCctcctccatacaggaaacag	7	13	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr4:55953823C>A	uc003has.2	-	27	3915	c.3613G>T	c.(3613-3615)GAG>TAG	p.E1205*	KDR_uc003hat.1_Nonsense_Mutation_p.E1205*	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	1205	Cytoplasmic (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)	CATACTTCCTCCTCCTCCATA	0.488			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			6	220	---	---	---	---	PASS	A	55953823	A	A	55953823	4	1	127	1	0	0	0	0	0	1	0	0	8139	864	30	2	473	2	KDR	4	55953823	Nonsense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	1661741	55953823	135200453	56	45994										
PDLIM5	10611	broad.mit.edu	37	chr4	95376450	95376450	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cattagaaccatgagcaactAcagtgtgtcactggttggcc	10	10	1	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr4:95376450A>G	uc003hti.2	+	2	162	c.11A>G	c.(10-12)TAC>TGC	p.Y4C	PDLIM5_uc003htf.2_Missense_Mutation_p.Y4C|PDLIM5_uc003htg.2_Missense_Mutation_p.Y4C|PDLIM5_uc011cdx.1_Missense_Mutation_p.Y4C|PDLIM5_uc003hth.2_Missense_Mutation_p.Y4C|PDLIM5_uc003htj.2_5'UTR|PDLIM5_uc003htk.2_Missense_Mutation_p.Y4C|PDLIM5_uc011cdy.1_5'UTR	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	4	PDZ.				regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		ATGAGCAACTACAGTGTGTCA	0.423													3	53	---	---	---	---	PASS	G	95376450	G	G	95376450	3	3	127	1	0	0	0	0	1	0	0	0	11683	391	14	5	13	5	PDLIM5	4	95376450	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	39422627	95376450	95777826	57	45995										
ANK2	287	broad.mit.edu	37	chr4	114277103	114277103	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ctggaagccagccctgtgctAgaagataactcttcacacaa	8	12	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr4:114277103A>G	uc003ibe.3	+	38	7429	c.7329A>G	c.(7327-7329)CTA>CTG	p.L2443L	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Intron|ANK2_uc011cgb.1_Silent_p.L2458L	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2410					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GCCCTGTGCTAGAAGATAACT	0.517													10	153	---	---	---	---	PASS	G	114277103	G	G	114277103	2	3	127	1	0	0	0	0	0	0	0	1	621	407	15	5		5	ANK2	4	114277103	Silent	SNP	A	TCGA-60-2715-01A-01D-1522-08	18900653	114277103	76877173	58	45996										
FAT4	79633	broad.mit.edu	37	chr4	126241388	126241388	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	acactaattggcaaattagaCtatgaagcaacacctgccta	6	10	0	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr4:126241388C>T	uc003ifj.3	+	1	3822	c.3822C>T	c.(3820-3822)GAC>GAT	p.D1274D		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1274	Cadherin 12.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GCAAATTAGACTATGAAGCAA	0.353													14	187	---	---	---	---	PASS	T	126241388	T	T	126241388	2	4	127	1	0	0	0	0	0	0	0	1	5692	564	20	3		3	FAT4	4	126241388	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	11964285	126241388	64912888	59	45997										
PCDH10	57575	broad.mit.edu	37	chr4	134071806	134071806	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	acagctacttctccctggacGtgcagacccagggggatggc	13	13	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr4:134071806G>T	uc003iha.2	+	1	1337	c.511G>T	c.(511-513)GTG>TTG	p.V171L	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.V171L	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	171	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CTCCCTGGACGTGCAGACCCA	0.632													5	127	---	---	---	---	PASS	T	134071806	T	T	134071806	3	4	127	1	0	0	0	0	1	0	0	0	11507	1145	40	1	513	1	PCDH10	4	134071806	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	7830418	134071806	57082470	60	45998										
TMEM184C	55751	broad.mit.edu	37	chr4	148549579	148549579	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tcagacctttcaccaccatcGttgctttgtaagtactcgga	7	12	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr4:148549579G>A	uc003ila.3	+	5	1134	c.565G>A	c.(565-567)GTT>ATT	p.V189I		NM_018241	NP_060711	Q9NVA4	T184C_HUMAN	transmembrane protein 184C	189	Helical; (Potential).					integral to membrane					0						CACCACCATCGTTGCTTTGTA	0.338													9	212	---	---	---	---	PASS	A	148549579	A	A	148549579	3	1	127	1	0	0	0	0	1	0	0	0	16103	1145	40	1	583	1	TMEM184C	4	148549579	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	14477773	148549579	42604697	61	45999										
DCHS2	54798	broad.mit.edu	37	chr4	155219360	155219360	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	agggttctgttccaaaactgGatcattgtcattaacatcag	8	8	4	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr4:155219360G>A	uc003inw.2	-	18	4741	c.4741C>T	c.(4741-4743)CCA>TCA	p.P1581S		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1581	Cadherin 13.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TCCAAAACTGGATCATTGTCA	0.453													13	186	---	---	---	---	PASS	A	155219360	A	A	155219360	3	1	127	1	0	0	0	0	1	0	0	0	4288	1174	41	2	4041	2	DCHS2	4	155219360	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	6669781	155219360	35934916	62	46000										
FAT1	2195	broad.mit.edu	37	chr4	187539060	187539060	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggaggatagctggatcttttCaccatgatctgatgcaacca	10	9	3	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr4:187539060C>A	uc003izf.2	-	10	8868	c.8680G>T	c.(8680-8682)GAA>TAA	p.E2894*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2894	Extracellular (Potential).|Cadherin 26.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TGGATCTTTTCACCATGATCT	0.438										HNSCC(5;0.00058)			30	120	---	---	---	---	PASS	A	187539060	A	A	187539060	4	1	127	1	0	0	0	0	0	1	0	0	5689	835	29	2	5158	2	FAT1	4	187539060	Nonsense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	32319700	187539060	3615216	63	46001										
FAT1	2195	broad.mit.edu	37	chr4	187554967	187554967	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tccacatcgaagtgactgtcGtagttgccacctaatttggg	10	10	0	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr4:187554967G>A	uc003izf.2	-	7	4382	c.4194C>T	c.(4192-4194)TAC>TAT	p.Y1398Y		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1398	Extracellular (Potential).|Cadherin 12.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AGTGACTGTCGTAGTTGCCAC	0.418										HNSCC(5;0.00058)			11	209	---	---	---	---	PASS	A	187554967	A	A	187554967	2	1	127	1	0	0	0	0	0	0	0	1	5689	1140	40	1		1	FAT1	4	187554967	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	15907	187554967	3599309	64	46002										
DNAH5	1767	broad.mit.edu	37	chr5	13700924	13700924	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tccttcatccatttggtgacTtcattgcaaagcaccatatt	5	11	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr5:13700924T>C	uc003jfd.2	-	78	13590	c.13548A>G	c.(13546-13548)GAA>GAG	p.E4516E	DNAH5_uc003jfc.2_Silent_p.E684E	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4516					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					ATTTGGTGACTTCATTGCAAA	0.483									Kartagener_syndrome				21	377	---	---	---	---	PASS	C	13700924	C	C	13700924	2	2	127	1	0	0	0	0	0	0	0	1	4604	1606	56	5		5	DNAH5	5	13700924	Silent	SNP	T	TCGA-60-2715-01A-01D-1522-08		13700924	167214336	65	46003										
RNASEN	29102	broad.mit.edu	37	chr5	31515208	31515208	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cttgtcaggcatggtctcctCgggctctttttccttgattg	10	11	3	1	rs151137891	by1000genomes	TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr5:31515208C>T	uc003jhg.2	-	7	1536	c.1177G>A	c.(1177-1179)GAG>AAG	p.E393K	RNASEN_uc003jhh.2_Missense_Mutation_p.E356K|RNASEN_uc003jhi.2_Missense_Mutation_p.E356K|RNASEN_uc010iui.1_Missense_Mutation_p.E316K	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	393					gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						ATGGTCTCCTCGGGCTCTTTT	0.463													24	279	---	---	---	---	PASS	T	31515208	T	T	31515208	3	4	127	1	0	0	0	0	1	0	0	0	13417	893	31	2	3063	2	RNASEN	5	31515208	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	17814284	31515208	149400052	66	46004										
RXFP3	51289	broad.mit.edu	37	chr5	33937978	33937978	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ccctgtgagcgtgtgcctagCgcactccaacagctgcctca	10	16	1	1	rs143656786		TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr5:33937978C>T	uc003jic.1	+	1	1490	c.1133C>T	c.(1132-1134)GCG>GTG	p.A378V		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	378	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						GTGTGCCTAGCGCACTCCAAC	0.617													11	104	---	---	---	---	PASS	T	33937978	T	T	33937978	3	4	127	1	0	0	0	0	1	0	0	0	13761	768	27	1	1135	1	RXFP3	5	33937978	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	2422770	33937978	146977282	67	46005										
C6	729	broad.mit.edu	37	chr5	41186243	41186243	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cctactgcttttgacagtttTacatattcctccagtgaaag	6	10	0	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr5:41186243T>C	uc003jmk.2	-	6	865	c.655A>G	c.(655-657)AAA>GAA	p.K219E	C6_uc003jml.1_Missense_Mutation_p.K219E	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	219	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TTGACAGTTTTACATATTCCT	0.438													31	166	---	---	---	---	PASS	C	41186243	C	C	41186243	3	2	127	1	0	0	0	0	1	0	0	0	2315	1763	61	5	2201	5	C6	5	41186243	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	7248265	41186243	139729017	68	46006										
RNF180	285671	broad.mit.edu	37	chr5	63510147	63510147	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	atactaacaatctgactttcCtgatggacctgccctcagct	6	13	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr5:63510147C>A	uc003jti.2	+	4	1104	c.994C>A	c.(994-996)CTG>ATG	p.L332M	RNF180_uc003jth.3_Missense_Mutation_p.L332M|RNF180_uc010iws.2_Intron	NM_001113561	NP_001107033	Q86T96	RN180_HUMAN	ring finger protein 180 isoform 1	332	Interaction with ZIC2 (By similarity).|Cytoplasmic (Potential).					integral to membrane|nuclear envelope	zinc ion binding				0		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0848)|Colorectal(97;0.234)		Lung(70;0.114)		TCTGACTTTCCTGATGGACCT	0.512													27	122	---	---	---	---	PASS	A	63510147	A	A	63510147	3	1	127	1	0	0	0	0	1	0	0	0	13464	680	24	3	1004	3	RNF180	5	63510147	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	22323904	63510147	117405113	69	46007										
VCAN	1462	broad.mit.edu	37	chr5	82835875	82835875	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	acggtggcacctctccctttCtccacggacatcggacatcc	8	17	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr5:82835875C>A	uc003kii.3	+	8	7409	c.7053C>A	c.(7051-7053)TTC>TTA	p.F2351L	VCAN_uc003kij.3_Missense_Mutation_p.F1364L|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.F1015L	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2351	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CTCTCCCTTTCTCCACGGACA	0.458													4	130	---	---	---	---	PASS	A	82835875	A	A	82835875	3	1	127	1	0	0	0	0	1	0	0	0	17135	912	32	2	7079	2	VCAN	5	82835875	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	19325728	82835875	98079385	70	46008										
HAPLN1	1404	broad.mit.edu	37	chr5	82969301	82969301	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ttgtctgaaagatgatcagcCcagcagattgaaatcagcac	9	9	3	5			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr5:82969301C>A	uc003kim.2	-	1	113	c.42G>T	c.(40-42)TGG>TGT	p.W14C	HAPLN1_uc003kin.2_Missense_Mutation_p.W14C	NM_001884	NP_001875	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	14					cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)		GATGATCAGCCCAGCAGATTG	0.398													9	195	---	---	---	---	PASS	A	82969301	A	A	82969301	3	1	127	1	0	0	0	0	1	0	0	0	6954	624	22	3	1038	3	HAPLN1	5	82969301	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	133426	82969301	97945959	71	46009										
PDE6A	5145	broad.mit.edu	37	chr5	149240474	149240474	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggtgttactggatgcagcagGacttggatgtagttgcaccc	14	8	0	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr5:149240474G>C	uc003lrg.3	-	22	2687	c.2567C>G	c.(2566-2568)TCC>TGC	p.S856C		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	856					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			GATGCAGCAGGACTTGGATGT	0.562													3	55	---	---	---	---	PASS	C	149240474	C	C	149240474	3	2	127	1	0	0	0	0	1	0	0	0	11645	1174	41	2	19	2	PDE6A	5	149240474	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	66271173	149240474	31674786	72	46010										
GABRA1	2554	broad.mit.edu	37	chr5	161277820	161277820	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	agctgctccagcccgcgatgAggaaaagtccaggtctgtct	12	12	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr5:161277820A>T	uc010jiw.2	+	3	472	c.4A>T	c.(4-6)AGG>TGG	p.R2W	GABRA1_uc010jix.2_Missense_Mutation_p.R2W|GABRA1_uc010jiy.2_Missense_Mutation_p.R2W|GABRA1_uc003lyx.3_Missense_Mutation_p.R2W|GABRA1_uc010jiz.2_Missense_Mutation_p.R2W|GABRA1_uc010jja.2_Missense_Mutation_p.R2W|GABRA1_uc010jjb.2_Missense_Mutation_p.R2W	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	2					gamma-aminobutyric acid signaling pathway|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			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	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;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	GCCCGCGATGAGGAAAAGTCC	0.468													5	191	---	---	---	---	PASS	T	161277820	T	T	161277820	3	4	127	1	0	0	0	0	1	0	0	0	6160	295	11	5	6	5	GABRA1	5	161277820	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	12037346	161277820	19637440	73	46011										
NUP153	9972	broad.mit.edu	37	chr6	17640218	17640218	+	Missense_Mutation	SNP	C	A	A													0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tccttctttcaggatttctgCaggtctaaaaggaccctcac							TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr6:17640218C>A	uc003ncd.1	-	15	1998	c.1798G>T	c.(1798-1800)GCA>TCA	p.A600S	NUP153_uc011dje.1_Missense_Mutation_p.A631S|NUP153_uc010jpl.1_Intron	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	600					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			AGGATTTCTGCAGGTCTAAAA	0.333													18	310	---	---	---	---	PASS	A	17640218	A	A	17640218	3	1	127	1	0	0	0	0	1	0	0	0	10755	710	25	3	2661	3	NUP153	6	17640218	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08		17640218	153474849	74	46012	850	2								
NUP153	9972	broad.mit.edu	37	chr6	17640222	17640222	+	Missense_Mutation	SNP	T	G	G													0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tctttcaggatttctgcaggTctaaaaggaccctcacaatc							TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr6:17640222T>G	uc003ncd.1	-	15	1994	c.1794A>C	c.(1792-1794)AGA>AGC	p.R598S	NUP153_uc011dje.1_Missense_Mutation_p.R629S|NUP153_uc010jpl.1_Intron	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	598					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			TTTCTGCAGGTCTAAAAGGAC	0.338													19	308	---	---	---	---	PASS	G	17640222	G	G	17640222	3	3	127	1	0	0	0	0	1	0	0	0	10755	1664	58	5	2665	5	NUP153	6	17640222	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	4	17640222	153474845	75	46013	850	2								
HIST1H1D	3007	broad.mit.edu	37	chr6	26234964	26234964	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tcgtagccagcagccgcaagCgctttcttaagcgcggccag	12	14	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr6:26234964C>T	uc003nhd.2	-	1	253	c.198G>A	c.(196-198)GCG>GCA	p.A66A		NM_005320	NP_005311	P16402	H13_HUMAN	histone cluster 1, H1d	66	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding			skin(1)	1		all_hematologic(11;0.0945)|Acute lymphoblastic leukemia(11;0.167)				CAGCCGCAAGCGCTTTCTTAA	0.537													12	161	---	---	---	---	PASS	T	26234964	T	T	26234964	2	4	127	1	0	0	0	0	0	0	0	1	7125	755	27	1		1	HIST1H1D	6	26234964	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	8594742	26234964	144880103	76	46014										
HIST1H2BK	85236	broad.mit.edu	37	chr6	27114544	27114544	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggctttcttcgagcccttctTgggcgcgggagcggacttcg	15	12	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr6:27114544T>A	uc003nix.1	-	1	76	c.34A>T	c.(34-36)AAG>TAG	p.K12*	HIST1H2AH_uc003niz.2_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080593	NP_542160	O60814	H2B1K_HUMAN	histone cluster 1, H2bk	12					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						GAGCCCTTCTTGGGCGCGGGA	0.577													13	212	---	---	---	---	PASS	A	27114544	A	A	27114544	4	1	127	1	0	0	0	0	0	1	0	0	7150	1821	63	5	350	5	HIST1H2BK	6	27114544	Nonsense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	879580	27114544	144000523	77	46015										
PHF1	5252	broad.mit.edu	37	chr6	33381294	33381294	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gggatgctggacatctgagcAaccgacagcagagttactgt	13	9	1	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr6:33381294A>G	uc003oeh.2	+	6	783	c.547A>G	c.(547-549)AAC>GAC	p.N183D	PHF1_uc011drh.1_RNA|PHF1_uc003oei.2_Missense_Mutation_p.N183D|PHF1_uc010jux.2_5'UTR	NM_024165	NP_077084	O43189	PHF1_HUMAN	PHD finger protein 1 isoform b	183					chromatin modification	nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(999;0.0443)				ACATCTGAGCAACCGACAGCA	0.557													17	66	---	---	---	---	PASS	G	33381294	G	G	33381294	3	3	127	1	0	0	0	0	1	0	0	0	11820	130	5	5	565	5	PHF1	6	33381294	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	6266750	33381294	137733773	78	46016										
GRM4	2914	broad.mit.edu	37	chr6	34004261	34004261	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tggtaccctgtgcaaggctcGcagtgccagcagcaaggcat	13	12	0	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr6:34004261G>A	uc003oir.3	-	8	1796	c.1626C>T	c.(1624-1626)TGC>TGT	p.C542C	GRM4_uc011dsn.1_Silent_p.C495C|GRM4_uc010jvh.2_Silent_p.C542C|GRM4_uc010jvi.2_Silent_p.C234C|GRM4_uc003oio.2_Silent_p.C234C|GRM4_uc003oip.2_RNA|GRM4_uc011dsl.1_Silent_p.C402C|GRM4_uc003oiq.2_Silent_p.C409C|GRM4_uc011dsm.1_Silent_p.C373C	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	542	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	TGCAAGGCTCGCAGTGCCAGC	0.657													33	102	---	---	---	---	PASS	A	34004261	A	A	34004261	2	1	127	1	0	0	0	0	0	0	0	1	6799	1079	38	1		1	GRM4	6	34004261	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	622967	34004261	137110806	79	46017										
PACSIN1	29993	broad.mit.edu	37	chr6	34499478	34499478	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gaccaacgggggcgccaaccCctttgaggacgactccaagg	13	14	0	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr6:34499478C>T	uc003ojo.2	+	9	1345	c.1139C>T	c.(1138-1140)CCC>CTC	p.P380L	PACSIN1_uc003ojp.2_Missense_Mutation_p.P380L	NM_020804	NP_065855	Q9BY11	PACN1_HUMAN	protein kinase C and casein kinase substrate in	380					endocytosis		protein kinase activity				0						GGCGCCAACCCCTTTGAGGAC	0.642													9	264	---	---	---	---	PASS	T	34499478	T	T	34499478	3	4	127	1	0	0	0	0	1	0	0	0	11374	623	22	3	1169	3	PACSIN1	6	34499478	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	495217	34499478	136615589	80	46018										
DAAM2	23500	broad.mit.edu	37	chr6	39864710	39864710	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggggcgcctacgggttccggGtggccagcctcaacaagatc	15	13	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr6:39864710G>C	uc003oow.2	+	20	2620	c.2464G>C	c.(2464-2466)GTG>CTG	p.V822L	DAAM2_uc003oox.2_Missense_Mutation_p.V822L	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	822	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CGGGTTCCGGGTGGCCAGCCT	0.597													9	59	---	---	---	---	PASS	C	39864710	C	C	39864710	3	2	127	1	0	0	0	0	1	0	0	0	4216	1261	44	4	2538	4	DAAM2	6	39864710	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	5365232	39864710	131250357	81	46019										
TBCC	6903	broad.mit.edu	37	chr6	42713543	42713543	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtttctgcagcccctggagcCgagaggccgcctcctccagc	12	17	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr6:42713543C>G	uc003osl.2	-	1	342	c.269G>C	c.(268-270)CGG>CCG	p.R90P		NM_003192	NP_003183	Q15814	TBCC_HUMAN	beta-tubulin cofactor C	90					'de novo' posttranslational protein folding|post-chaperonin tubulin folding pathway	cytoplasm|microtubule|photoreceptor connecting cilium	chaperone binding|GTPase activity				0	Colorectal(47;0.196)		all cancers(41;0.00122)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.125)			CCCCTGGAGCCGAGAGGCCGC	0.647													5	72	---	---	---	---	PASS	G	42713543	G	G	42713543	3	3	127	1	0	0	0	0	1	0	0	0	15628	652	23	4	775	4	TBCC	6	42713543	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	2848833	42713543	128401524	82	46020										
MANEA	79694	broad.mit.edu	37	chr6	96053893	96053893	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tggctttacttatggctcatCacatcagaattgggctagcc	9	10	3	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr6:96053893C>T	uc003poo.1	+	5	1141	c.1001C>T	c.(1000-1002)TCA>TTA	p.S334L		NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	334	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		TATGGCTCATCACATCAGAAT	0.363													13	151	---	---	---	---	PASS	T	96053893	T	T	96053893	3	4	127	1	0	0	0	0	1	0	0	0	9221	838	29	2	1015	2	MANEA	6	96053893	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	53340350	96053893	75061174	83	46021										
SYNE1	23345	broad.mit.edu	37	chr6	152660412	152660412	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tgaatgtcttttgctgtggtTttcaccgaagcatttgacag	10	7	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr6:152660412T>G	uc010kiw.2	-	75	12917	c.12315A>C	c.(12313-12315)AAA>AAC	p.K4105N	SYNE1_uc003qot.3_Missense_Mutation_p.K4034N|SYNE1_uc003qou.3_Missense_Mutation_p.K4105N|SYNE1_uc010kja.1_Missense_Mutation_p.K810N	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4105	Potential.|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)		TTGCTGTGGTTTTCACCGAAG	0.393										HNSCC(10;0.0054)			8	161	---	---	---	---	PASS	G	152660412	G	G	152660412	3	3	127	1	0	0	0	0	1	0	0	0	15442	1838	64	5	14439	5	SYNE1	6	152660412	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	56606519	152660412	18454655	84	46022										
FNDC1	84624	broad.mit.edu	37	chr6	159618523	159618523	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cactaaaatgggcctgaaagTcacgtgggacccacccaaag	10	12	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr6:159618523T>A	uc010kjv.2	+	2	370	c.170T>A	c.(169-171)GTC>GAC	p.V57D	FNDC1_uc010kjw.1_Missense_Mutation_p.V5D	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	57	Fibronectin type-III 1.					extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		GGCCTGAAAGTCACGTGGGAC	0.453													5	282	---	---	---	---	PASS	A	159618523	A	A	159618523	3	1	127	1	0	0	0	0	1	0	0	0	5968	1667	58	5	176	5	FNDC1	6	159618523	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	6958111	159618523	11496544	85	46023										
THSD7A	221981	broad.mit.edu	37	chr7	11501650	11501650	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aaccctacctgtagctttggCacgcttgaggtgcctcacag	10	13	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr7:11501650C>A	uc003ssf.3	-	10	2741	c.2489G>T	c.(2488-2490)TGC>TTC	p.C830F		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	830	TSP type-1 8.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		GTAGCTTTGGCACGCTTGAGG	0.527										HNSCC(18;0.044)			8	501	---	---	---	---	PASS	A	11501650	A	A	11501650	3	1	127	1	0	0	0	0	1	0	0	0	15876	710	25	3	2556	3	THSD7A	7	11501650	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08		11501650	147637013	86	46024										
INMT	11185	broad.mit.edu	37	chr7	30791874	30791874	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	agcccctcacccgaggccgaGatgctgaagtttaacttgga	11	12	1	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr7:30791874G>A	uc003tbs.1	+	1	124	c.108G>A	c.(106-108)GAG>GAA	p.E36E	FAM188B_uc010kwe.2_5'UTR|INMT_uc010kwc.1_Intron|INMT_uc010kwd.1_Silent_p.E36E	NM_006774	NP_006765	O95050	INMT_HUMAN	indolethylamine N-methyltransferase	36						cytoplasm	amine N-methyltransferase activity				0						CCGAGGCCGAGATGCTGAAGT	0.577													35	118	---	---	---	---	PASS	A	30791874	A	A	30791874	2	1	127	1	0	0	0	0	0	0	0	1	7745	933	33	2		2	INMT	7	30791874	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	19290224	30791874	128346789	87	46025										
PDE1C	5137	broad.mit.edu	37	chr7	31862822	31862822	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ctctgaaccagaggtcttgaCacctgatcgcttggcatctg	10	12	3	4			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr7:31862822C>A	uc003tcm.1	-	14	1916	c.1447G>T	c.(1447-1449)GTC>TTC	p.V483F	PDE1C_uc003tcn.1_Missense_Mutation_p.V483F|PDE1C_uc003tco.1_Missense_Mutation_p.V543F|PDE1C_uc003tcr.2_Missense_Mutation_p.V483F|PDE1C_uc003tcs.2_Missense_Mutation_p.V483F	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	483	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			GAGGTCTTGACACCTGATCGC	0.433													26	134	---	---	---	---	PASS	A	31862822	A	A	31862822	3	1	127	1	0	0	0	0	1	0	0	0	11635	478	17	3	473	3	PDE1C	7	31862822	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	1070948	31862822	127275841	88	46026										
ABCB4	5244	broad.mit.edu	37	chr7	87056086	87056086	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aagtccatcggtttccacatCaaggctcttctgacacattt	6	12	3	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr7:87056086C>A	uc003uiv.1	-	16	2120	c.2044G>T	c.(2044-2046)GAT>TAT	p.D682Y	ABCB4_uc003uiw.1_Missense_Mutation_p.D682Y|ABCB4_uc003uix.1_Missense_Mutation_p.D682Y	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	682	Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					GTTTCCACATCAAGGCTCTTC	0.363													17	161	---	---	---	---	PASS	A	87056086	A	A	87056086	3	1	127	1	0	0	0	0	1	0	0	0	43	826	29	2	1868	2	ABCB4	7	87056086	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	55193264	87056086	72082577	89	46027										
ABCB1	5243	broad.mit.edu	37	chr7	87179536	87179536	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gcatcagctggactgttgtgCtcttcccacagccactgttt	9	13	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr7:87179536C>A	uc003uiz.1	-	13	1719	c.1301G>T	c.(1300-1302)AGC>ATC	p.S434I	ABCB1_uc011khc.1_Missense_Mutation_p.S370I	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	434	ATP 1 (By similarity).|ABC transporter 1.|Cytoplasmic (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	GACTGTTGTGCTCTTCCCACA	0.552													7	53	---	---	---	---	PASS	A	87179536	A	A	87179536	3	1	127	1	0	0	0	0	1	0	0	0	40	797	28	3	2609	3	ABCB1	7	87179536	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	123450	87179536	71959127	90	46028										
PRKAR2B	5577	broad.mit.edu	37	chr7	106791406	106791406	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gaataattgtgaaaaacaatGccaaaaagagaaaaatgtat	7	3	0	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr7:106791406G>T	uc003vdx.2	+	7	956	c.781G>T	c.(781-783)GCC>TCC	p.A261S		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	261	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						GAAAAACAATGCCAAAAAGAG	0.313													5	47	---	---	---	---	PASS	T	106791406	T	T	106791406	3	4	127	1	0	0	0	0	1	0	0	0	12506	1319	46	3	807	3	PRKAR2B	7	106791406	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	19611870	106791406	52347257	91	46029										
LRRN3	54674	broad.mit.edu	37	chr7	110764114	110764114	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tatagctcctgagagctttcCttctaatctaaatgtagaag	7	8	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr7:110764114C>G	uc003vft.3	+	4	2332	c.1286C>G	c.(1285-1287)CCT>CGT	p.P429R	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.P429R|LRRN3_uc003vfs.3_Missense_Mutation_p.P429R	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	429	Extracellular (Potential).|Ig-like C2-type.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		GAGAGCTTTCCTTCTAATCTA	0.453													35	286	---	---	---	---	PASS	G	110764114	G	G	110764114	3	3	127	1	0	0	0	0	1	0	0	0	9036	681	24	4	1288	4	LRRN3	7	110764114	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	3972708	110764114	48374549	92	46030										
DOCK4	9732	broad.mit.edu	37	chr7	111448922	111448922	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ttcacaacccattgttacccGcatgtcaccatacctgaaat	4	14	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr7:111448922G>A	uc003vfx.2	-	30	3390	c.3121C>T	c.(3121-3123)CGG>TGG	p.R1041W	DOCK4_uc003vfw.2_Missense_Mutation_p.R482W|DOCK4_uc003vfy.2_Missense_Mutation_p.R1077W|uc003vfz.2_Intron	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1041					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				ATTGTTACCCGCATGTCACCA	0.403													3	43	---	---	---	---	PASS	A	111448922	A	A	111448922	3	1	127	1	0	0	0	0	1	0	0	0	4689	1086	38	1	2871	1	DOCK4	7	111448922	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	684808	111448922	47689741	93	46031										
PPP1R3A	5506	broad.mit.edu	37	chr7	113518838	113518838	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	catgtggatcaaacgctgttTcctttacctcgatgggcctg	10	11	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr7:113518838T>A	uc010ljy.1	-	4	2340	c.2309A>T	c.(2308-2310)GAA>GTA	p.E770V		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	770					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						AAACGCTGTTTCCTTTACCTC	0.403													12	259	---	---	---	---	PASS	A	113518838	A	A	113518838	3	1	127	1	0	0	0	0	1	0	0	0	12371	1783	62	5	1063	5	PPP1R3A	7	113518838	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	2069916	113518838	45619825	94	46032										
ASZ1	136991	broad.mit.edu	37	chr7	117007445	117007445	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	agtttgcagaccttttcactCaaatcttcaacattattaac	3	10	4	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr7:117007445C>T	uc003vjb.2	-	12	1299	c.1236G>A	c.(1234-1236)TTG>TTA	p.L412L	ASZ1_uc011kno.1_Silent_p.L403L|ASZ1_uc011knp.1_Silent_p.L204L	NM_130768	NP_570124	Q8WWH4	ASZ1_HUMAN	ankyrin repeat, SAM and basic leucine zipper	412					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	signal transducer activity			central_nervous_system(2)|ovary(1)	3	Lung NSC(10;0.00156)|all_lung(10;0.00175)		STAD - Stomach adenocarcinoma(10;0.000512)			CCTTTTCACTCAAATCTTCAA	0.318													5	54	---	---	---	---	PASS	T	117007445	T	T	117007445	2	4	127	1	0	0	0	0	0	0	0	1	1069	825	29	2		2	ASZ1	7	117007445	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	3488607	117007445	42131218	95	46033										
OR2F1	26211	broad.mit.edu	37	chr7	143657678	143657678	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	atcatggtgtctagcattgtTcttctgatgacacccttctg	8	10	5	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr7:143657678T>C	uc003wds.1	+	1	659	c.615T>C	c.(613-615)GTT>GTC	p.V205V		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	205	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					CTAGCATTGTTCTTCTGATGA	0.468													6	190	---	---	---	---	PASS	C	143657678	C	C	143657678	2	2	127	1	0	0	0	0	0	0	0	1	10996	1770	62	5		5	OR2F1	7	143657678	Silent	SNP	T	TCGA-60-2715-01A-01D-1522-08	26650233	143657678	15480985	96	46034										
KCNH2	3757	broad.mit.edu	37	chr7	150648568	150648568	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tgacgcagatggagaagatcTtctctgagttggtgttggga	15	5	2	5			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr7:150648568T>C	uc003wic.2	-	7	1926	c.1913A>G	c.(1912-1914)AAG>AGG	p.K638R	KCNH2_uc003wib.2_Missense_Mutation_p.K298R|KCNH2_uc011kux.1_Missense_Mutation_p.K542R|KCNH2_uc003wid.2_Missense_Mutation_p.K298R|KCNH2_uc003wie.2_Missense_Mutation_p.K638R	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	638	Extracellular (Potential).		K -> E (in LQT2).|Missing (in LQT2).		blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	GGAGAAGATCTTCTCTGAGTT	0.587													11	215	---	---	---	---	PASS	C	150648568	C	C	150648568	3	2	127	1	0	0	0	0	1	0	0	0	8032	1609	56	5	1871	5	KCNH2	7	150648568	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	6990890	150648568	8490095	97	46035										
EBF2	64641	broad.mit.edu	37	chr8	25897562	25897562	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	acctacacatcacttcgtgcGtcaggagaactcggcacatt	8	13	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr8:25897562G>A	uc003xes.1	-	5	481	c.464C>T	c.(463-465)ACG>ATG	p.T155M	PPP2R2A_uc003xek.2_Intron|EBF2_uc003xet.1_Missense_Mutation_p.T155M	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	155	C5-type (Potential).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		CACTTCGTGCGTCAGGAGAAC	0.602													30	269	---	---	---	---	PASS	A	25897562	A	A	25897562	3	1	127	1	0	0	0	0	1	0	0	0	4881	1145	40	1	1311	1	EBF2	8	25897562	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08		25897562	120466460	98	46036										
RP1	6101	broad.mit.edu	37	chr8	55537790	55537790	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	agcatcgtttttataggcccCctacacctggactaagaaga	8	11	0	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr8:55537790C>G	uc003xsd.1	+	4	1496	c.1348C>G	c.(1348-1350)CCT>GCT	p.P450A	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	450					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TTATAGGCCCCCTACACCTGG	0.438													18	154	---	---	---	---	PASS	G	55537790	G	G	55537790	3	3	127	1	0	0	0	0	1	0	0	0	13532	623	22	4	1358	4	RP1	8	55537790	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	29640228	55537790	90826232	99	46037										
SLCO5A1	81796	broad.mit.edu	37	chr8	70617409	70617409	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gcaccaagtttcaattttttTataatgtagcctccgaggac	7	9	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr8:70617409T>G	uc003xyl.2	-	6	2186	c.1479A>C	c.(1477-1479)ATA>ATC	p.I493I	SLCO5A1_uc010lzb.2_Silent_p.I438I|SLCO5A1_uc011lfa.1_Intron|SLCO5A1_uc003xyk.2_Silent_p.I493I|SLCO5A1_uc010lzc.2_Silent_p.I438I	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	493	Helical; Name=8; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			TCAATTTTTTTATAATGTAGC	0.408													15	196	---	---	---	---	PASS	G	70617409	G	G	70617409	2	3	127	1	0	0	0	0	0	0	0	1	14731	1744	61	5		5	SLCO5A1	8	70617409	Silent	SNP	T	TCGA-60-2715-01A-01D-1522-08	15079619	70617409	75746613	100	46038										
VPS13B	157680	broad.mit.edu	37	chr8	100514011	100514011	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gaggaaccagtggacgtgttAgtttatggatgcagtgggtg	17	4	0	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr8:100514011A>T	uc003yiv.2	+	26	4078	c.3967A>T	c.(3967-3969)AGT>TGT	p.S1323C	VPS13B_uc003yiw.2_Missense_Mutation_p.S1323C|VPS13B_uc003yiu.1_Missense_Mutation_p.S1323C|VPS13B_uc003yix.1_Missense_Mutation_p.S793C	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1323					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TGGACGTGTTAGTTTATGGAT	0.413													20	281	---	---	---	---	PASS	T	100514011	T	T	100514011	3	4	127	1	0	0	0	0	1	0	0	0	17187	420	15	5	4188	5	VPS13B	8	100514011	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	29896602	100514011	45850011	101	46039										
SYBU	55638	broad.mit.edu	37	chr8	110598380	110598380	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gctgctcgaggagctaaaatCagcttcactacctgaaaaac	8	11	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr8:110598380C>A	uc003ynj.3	-	4	602	c.439G>T	c.(439-441)GAT>TAT	p.D147Y	SYBU_uc003yni.3_Missense_Mutation_p.D144Y|SYBU_uc003ynk.3_Missense_Mutation_p.D28Y|SYBU_uc010mco.2_Missense_Mutation_p.D146Y|SYBU_uc003ynl.3_Missense_Mutation_p.D146Y|SYBU_uc010mcp.2_Missense_Mutation_p.D147Y|SYBU_uc010mcq.2_Missense_Mutation_p.D147Y|SYBU_uc003yno.3_Missense_Mutation_p.D28Y|SYBU_uc010mcr.2_Missense_Mutation_p.D147Y|SYBU_uc003ynm.3_Missense_Mutation_p.D146Y|SYBU_uc003ynn.3_Missense_Mutation_p.D146Y|SYBU_uc010mcs.2_Missense_Mutation_p.D28Y|SYBU_uc010mct.2_Missense_Mutation_p.D147Y|SYBU_uc010mcu.2_Missense_Mutation_p.D146Y|SYBU_uc003ynp.3_Missense_Mutation_p.D79Y|SYBU_uc010mcv.2_Missense_Mutation_p.D147Y|SYBU_uc011lhw.1_Missense_Mutation_p.D17Y	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	147	Sufficient for interaction with KIF5B.|Ser-rich.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						GAGCTAAAATCAGCTTCACTA	0.542													3	23	---	---	---	---	PASS	A	110598380	A	A	110598380	3	1	127	1	0	0	0	0	1	0	0	0	15424	826	29	2	1568	2	SYBU	8	110598380	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	10084369	110598380	35765642	102	46040										
CSMD3	114788	broad.mit.edu	37	chr8	114326869	114326869	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	agtcgtattcttcttctagaGcaaatgactgaaaaacaatt	6	7	3	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr8:114326869G>T	uc003ynu.2	-	2	491	c.332C>A	c.(331-333)GCT>GAT	p.A111D	CSMD3_uc003ynt.2_Missense_Mutation_p.A71D|CSMD3_uc011lhx.1_Missense_Mutation_p.A111D|CSMD3_uc010mcx.1_Missense_Mutation_p.A111D|CSMD3_uc003ynx.3_Missense_Mutation_p.A111D	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	111	Extracellular (Potential).|CUB 1.					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						TTCTTCTAGAGCAAATGACTG	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			5	186	---	---	---	---	PASS	T	114326869	T	T	114326869	3	4	127	1	0	0	0	0	1	0	0	0	3946	971	34	3	11071	3	CSMD3	8	114326869	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	3728489	114326869	32037153	103	46041										
KCNV2	169522	broad.mit.edu	37	chr9	2717996	2717996	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggaggtcaccaccgccaagcCcgagggccccagcgaccctc	12	19	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr9:2717996C>A	uc003zho.1	+	1	471	c.257C>A	c.(256-258)CCC>CAC	p.P86H		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	86	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		ACCGCCAAGCCCGAGGGCCCC	0.657													14	28	---	---	---	---	PASS	A	2717996	A	A	2717996	3	1	127	1	0	0	0	0	1	0	0	0	8095	623	22	3	259	3	KCNV2	9	2717996	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08		2717996	138495435	104	46042										
PTPRD	5789	broad.mit.edu	37	chr9	8633316	8633316	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aaccttcacttgagcacttaCcccgcaaaactgtgagtctg	7	13	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr9:8633316C>T	uc003zkk.2	-	13	1063	c.352_splice	c.e13+1	p.E118_splice	PTPRD_uc003zkp.2_Splice_Site_p.E118_splice|PTPRD_uc003zkq.2_Splice_Site_p.E118_splice|PTPRD_uc003zkr.2_Splice_Site_p.E118_splice|PTPRD_uc003zks.2_Splice_Site_p.E118_splice|PTPRD_uc003zkl.2_Splice_Site_p.E118_splice|PTPRD_uc003zkm.2_Splice_Site_p.E118_splice|PTPRD_uc003zkn.2_Splice_Site_p.E118_splice|PTPRD_uc003zko.2_Splice_Site_p.E118_splice|PTPRD_uc003zkt.1_Splice_Site_p.E118_splice	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TGAGCACTTACCCCGCAAAAC	0.423										TSP Lung(15;0.13)			28	219	---	---	---	---	PASS	T	8633316	T	T	8633316	5	4	127	1	0	0	0	0	0	0	1	0	12799	521	18	3	5585	3	PTPRD	9	8633316	Splice_Site	SNP	C	TCGA-60-2715-01A-01D-1522-08	5915320	8633316	132580115	105	46043										
ALG2	85365	broad.mit.edu	37	chr9	101981079	101981079	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtaaaataggatcttcttccGccgtctagccagcctgaaca	8	12	3	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr9:101981079G>A	uc004azf.2	-	2	458	c.388C>T	c.(388-390)CGG>TGG	p.R130W	ALG2_uc004azg.2_Missense_Mutation_p.R37W	NM_033087	NP_149078	Q9H553	ALG2_HUMAN	alpha-1,3-mannosyltransferase ALG2	130					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in endoplasmic reticulum|protein N-linked glycosylation via asparagine|response to calcium ion	endoplasmic reticulum membrane|integral to membrane|membrane fraction|nucleus|perinuclear region of cytoplasm	alpha-1,3-mannosyltransferase activity|calcium-dependent protein binding|glycolipid 3-alpha-mannosyltransferase activity|protein anchor|protein heterodimerization activity|protein N-terminus binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.0559)				ATCTTCTTCCGCCGTCTAGCC	0.448													10	95	---	---	---	---	PASS	A	101981079	A	A	101981079	3	1	127	1	0	0	0	0	1	0	0	0	519	1086	38	1	866	1	ALG2	9	101981079	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	93347763	101981079	39232352	106	46044										
GTPBP4	23560	broad.mit.edu	37	chr10	1043190	1043190	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gccaaccattgatccgaataCcaggaccctgcttttgtgtg	9	12	0	1	rs149028639		TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr10:1043190C>T	uc001ift.2	+	5	574	c.503C>T	c.(502-504)ACC>ATC	p.T168I	GTPBP4_uc010qac.1_5'UTR|GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Missense_Mutation_p.T52I|GTPBP4_uc010qae.1_Missense_Mutation_p.T121I	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	168					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		GATCCGAATACCAGGACCCTG	0.373													21	448	---	---	---	---	PASS	T	1043190	T	T	1043190	3	4	127	1	0	0	0	0	1	0	0	0	6882	507	18	3	521	3	GTPBP4	10	1043190	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08		1043190	134491557	107	46045										
KIF5B	3799	broad.mit.edu	37	chr10	32322782	32322782	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gcaatacctaccttgtcatcAagctgtttgtataatttagc	6	9	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr10:32322782A>C	uc001iwe.3	-	12	1766	c.1296T>G	c.(1294-1296)CTT>CTG	p.L432L		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	432					stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				CCTTGTCATCAAGCTGTTTGT	0.338													9	107	---	---	---	---	PASS	C	32322782	C	C	32322782	2	2	127	1	0	0	0	0	0	0	0	1	8306	117	5	5		5	KIF5B	10	32322782	Silent	SNP	A	TCGA-60-2715-01A-01D-1522-08	31279592	32322782	103211965	108	46046										
PGBD3	267004	broad.mit.edu	37	chr10	50723759	50723759	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ccgatacttatcaatgttttCatcagctctgtctacgcctc	5	13	5	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr10:50723759C>T	uc001jht.2	-	2	1657	c.1402G>A	c.(1402-1404)GAA>AAA	p.E468K	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Missense_Mutation_p.E936K|PGBD3_uc001jhu.2_Missense_Mutation_p.E936K	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	468										pancreas(1)|breast(1)|skin(1)	3						TCAATGTTTTCATCAGCTCTG	0.408													33	429	---	---	---	---	PASS	T	50723759	T	T	50723759	3	4	127	1	0	0	0	0	1	0	0	0	11782	835	29	2	383	2	PGBD3	10	50723759	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	18400977	50723759	84810988	109	46047										
EXOC6	54536	broad.mit.edu	37	chr10	94659401	94659401	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	agaacagatgagtgccaaaaGgtgagttggtttttttccta	11	5	0	4			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr10:94659401G>A	uc001kig.2	+	5	524	c.458G>A	c.(457-459)AGG>AAG	p.R153K	EXOC6_uc010qnr.1_Missense_Mutation_p.R169K|EXOC6_uc001kie.2_Missense_Mutation_p.R148K|EXOC6_uc001kif.3_Missense_Mutation_p.R153K|EXOC6_uc009xub.2_Missense_Mutation_p.R153K|EXOC6_uc009xuc.2_Missense_Mutation_p.R153K	NM_019053	NP_061926	Q8TAG9	EXOC6_HUMAN	SEC15-like 1 isoform a	153					protein transport|vesicle docking involved in exocytosis	exocyst				skin(1)	1		Colorectal(252;0.123)				AGTGCCAAAAGGTGAGTTGGT	0.269													3	118	---	---	---	---	PASS	A	94659401	A	A	94659401	3	1	127	1	0	0	0	0	1	0	0	0	5308	1014	35	3	566	3	EXOC6	10	94659401	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	43935642	94659401	40875346	110	46048										
AS3MT	57412	broad.mit.edu	37	chr10	104632929	104632929	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	catctaatgtgacttttattCatggctacattgagaagttg	8	6	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr10:104632929C>A	uc001kwk.2	+	5	537	c.397C>A	c.(397-399)CAT>AAT	p.H133N	AS3MT_uc001kwj.2_Missense_Mutation_p.H135N|AS3MT_uc009xxh.2_Missense_Mutation_p.H133N	NM_020682	NP_065733	Q9HBK9	AS3MT_HUMAN	arsenic (+3 oxidation state) methyltransferase	133					arsonoacetate metabolic process|toxin metabolic process	cytosol	arsenite methyltransferase activity|methylarsonite methyltransferase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;5.87e-09)|all cancers(201;1.58e-07)|BRCA - Breast invasive adenocarcinoma(275;0.223)		GACTTTTATTCATGGCTACAT	0.363													4	112	---	---	---	---	PASS	A	104632929	A	A	104632929	3	1	127	1	0	0	0	0	1	0	0	0	1005	826	29	2	415	2	AS3MT	10	104632929	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	9973528	104632929	30901818	111	46049										
HSPA12A	259217	broad.mit.edu	37	chr10	118434726	118434726	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cccgtaggtgagcggcgaccGgcgcaccttgatgaccgcgg	16	14	0	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr10:118434726G>A	uc001lct.2	-	12	1699	c.1594C>T	c.(1594-1596)CGG>TGG	p.R532W	HSPA12A_uc001lcu.2_Missense_Mutation_p.R449W	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	532							ATP binding			ovary(1)	1				all cancers(201;0.0158)		AGCGGCGACCGGCGCACCTTG	0.662													3	50	---	---	---	---	PASS	A	118434726	A	A	118434726	3	1	127	1	0	0	0	0	1	0	0	0	7404	1115	39	1	437	1	HSPA12A	10	118434726	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	13801797	118434726	17100021	112	46050										
MKI67	4288	broad.mit.edu	37	chr10	129901609	129901609	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ttgagcttgttgcggtgtctTctagttctggtgatgatttg	13	5	3	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr10:129901609T>G	uc001lke.2	-	13	8690	c.8495A>C	c.(8494-8496)GAA>GCA	p.E2832A	MKI67_uc001lkf.2_Missense_Mutation_p.E2472A|MKI67_uc009yav.1_Missense_Mutation_p.E2407A|MKI67_uc009yaw.1_Missense_Mutation_p.E1982A	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2832	16 X 122 AA approximate repeats.|16.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TGCGGTGTCTTCTAGTTCTGG	0.488													31	265	---	---	---	---	PASS	G	129901609	G	G	129901609	3	3	127	1	0	0	0	0	1	0	0	0	9598	1783	62	5	1287	5	MKI67	10	129901609	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	11466883	129901609	5633138	113	46051										
CDHR5	53841	broad.mit.edu	37	chr11	618689	618689	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cccaccgggtgtggttggttGgtgggaggtgctggttccca	18	9	0	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr11:618689G>A	uc001lqj.2	-	13	1975	c.1870C>T	c.(1870-1872)CAA>TAA	p.Q624*	IRF7_uc001lqg.2_5'Flank|IRF7_uc001lqh.2_5'Flank|IRF7_uc001lqi.2_5'Flank|IRF7_uc010qwh.1_5'Flank|CDHR5_uc001lqk.2_Intron|CDHR5_uc009ycc.2_Nonsense_Mutation_p.Q458*|CDHR5_uc009ycd.2_Nonsense_Mutation_p.Q618*|CDHR5_uc001lql.2_Nonsense_Mutation_p.Q624*	NM_021924	NP_068743	Q9HBB8	CDHR5_HUMAN	mucin and cadherin-like isoform 1	624	4 X 31 AA approximate tandem repeats.|3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						GTGGTTGGTTGGTGGGAGGTG	0.657													9	128	---	---	---	---	PASS	A	618689	A	A	618689	4	1	127	1	0	0	0	0	0	1	0	0	3122	1357	47	3	679	3	CDHR5	11	618689	Nonsense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08		618689	134387827	114	46052										
KRTAP5-6	440023	broad.mit.edu	37	chr11	1718724	1718724	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aagggaggctgtggctcttgTggctgctcccagtgcagttg	16	9	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr11:1718724T>A	uc001lua.2	+	1	300	c.249T>A	c.(247-249)TGT>TGA	p.C83*		NM_001012416	NP_001012416	Q6L8G9	KRA56_HUMAN	keratin associated protein 5-6	83	6 X 4 AA repeats of C-C-X-P.					keratin filament					0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GTGGCTCTTGTGGCTGCTCCC	0.642													13	89	---	---	---	---	PASS	A	1718724	A	A	1718724	4	1	127	1	0	0	0	0	0	1	0	0	8565	1702	59	5	251	5	KRTAP5-6	11	1718724	Nonsense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	1100035	1718724	133287792	115	46053										
UBQLNL	143630	broad.mit.edu	37	chr11	5537287	5537287	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cactctgctgctgtttccttTggtgtttctgtcccggtggc	11	12	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr11:5537287T>C	uc001maz.3	-	1	670	c.385A>G	c.(385-387)AAA>GAA	p.K129E	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	129										large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		CTGTTTCCTTTGGTGTTTCTG	0.537													21	148	---	---	---	---	PASS	C	5537287	C	C	5537287	3	2	127	1	0	0	0	0	1	0	0	0	16897	1821	63	5	1046	5	UBQLNL	11	5537287	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	3818563	5537287	129469229	116	46054										
OR52N1	79473	broad.mit.edu	37	chr11	5809595	5809595	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	caagcatcacacccctaagaAaagtgaggaacccagcttta	7	12	1	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr11:5809595A>C	uc010qzo.1	-	1	452	c.452T>G	c.(451-453)TTT>TGT	p.F151C	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001913	NP_001001913	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N,	151	Helical; Name=4; (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)		ACCCCTAAGAAAAGTGAGGAA	0.517													24	103	---	---	---	---	PASS	C	5809595	C	C	5809595	3	2	127	1	0	0	0	0	1	0	0	0	11127	14	1	5	513	5	OR52N1	11	5809595	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	272308	5809595	129196921	117	46055										
SYT7	9066	broad.mit.edu	37	chr11	61295405	61295405	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	accttcaaagaggaaggtctCgttccagtgggggttcaggt	14	8	3	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr11:61295405C>T	uc001nrv.2	-	5	610	c.604G>A	c.(604-606)GAG>AAG	p.E202K	SYT7_uc009ynr.2_Missense_Mutation_p.E277K	NM_004200	NP_004191	O43581	SYT7_HUMAN	synaptotagmin VII	202	C2 1.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|pancreas(1)	4						AGGAAGGTCTCGTTCCAGTGG	0.567													16	161	---	---	---	---	PASS	T	61295405	T	T	61295405	3	4	127	1	0	0	0	0	1	0	0	0	15476	893	31	2	627	2	SYT7	11	61295405	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	55485810	61295405	73711111	118	46056										
PYGM	5837	broad.mit.edu	37	chr11	64525759	64525759	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ctggttaaaaatcccaaactCatagcgaatcccgtagccat	6	12	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr11:64525759C>A	uc001oax.3	-	4	1304	c.487G>T	c.(487-489)GAG>TAG	p.E163*	PYGM_uc001oay.3_Intron	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	163					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	ATCCCAAACTCATAGCGAATC	0.592													8	172	---	---	---	---	PASS	A	64525759	A	A	64525759	4	1	127	1	0	0	0	0	0	1	0	0	12862	835	29	2	2109	2	PYGM	11	64525759	Nonsense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	3230354	64525759	70480757	119	46057										
ANO1	55107	broad.mit.edu	37	chr11	70007820	70007820	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cctacacccccatcttttacGtggcgttcttcaaaggccgg	8	15	3	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr11:70007820G>A	uc001opj.2	+	18	2178	c.1873G>A	c.(1873-1875)GTG>ATG	p.V625M	ANO1_uc001opk.1_Missense_Mutation_p.V567M|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.V334M	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	625	Helical; (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						CATCTTTTACGTGGCGTTCTT	0.552													8	408	---	---	---	---	PASS	A	70007820	A	A	70007820	3	1	127	1	0	0	0	0	1	0	0	0	695	1145	40	1	1943	1	ANO1	11	70007820	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	5482061	70007820	64998696	120	46058										
ATG16L2	89849	broad.mit.edu	37	chr11	72528819	72528819	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	agggaggagtcagagcttgaCtcagaccaagtcccatcact	11	11	3	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr11:72528819C>A	uc001otd.2	+	3	277	c.237C>A	c.(235-237)GAC>GAA	p.D79E	ATG16L2_uc001otc.1_Missense_Mutation_p.D79E|ATG16L2_uc010rrf.1_Missense_Mutation_p.D79E|ATG16L2_uc001ote.2_5'UTR|ATG16L2_uc009ytj.1_Missense_Mutation_p.D79E	NM_033388	NP_203746	Q8NAA4	A16L2_HUMAN	ATG16 autophagy related 16-like 2	79					autophagy|protein transport	cytoplasm	protein binding				0			BRCA - Breast invasive adenocarcinoma(5;2.73e-06)			CAGAGCTTGACTCAGACCAAG	0.577													3	50	---	---	---	---	PASS	A	72528819	A	A	72528819	3	1	127	1	0	0	0	0	1	0	0	0	1092	564	20	3	247	3	ATG16L2	11	72528819	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	2520999	72528819	62477697	121	46059										
PICALM	8301	broad.mit.edu	37	chr11	85692224	85692224	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	caacctttggttgccagttaGatcccccagttaacttcttt	6	12	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr11:85692224G>T	uc001pbm.2	-	17	2013	c.1727C>A	c.(1726-1728)TCT>TAT	p.S576Y	PICALM_uc001pbl.2_Missense_Mutation_p.S526Y|PICALM_uc001pbn.2_Missense_Mutation_p.S569Y|PICALM_uc010rtl.1_Missense_Mutation_p.S475Y|PICALM_uc001pbk.2_RNA|PICALM_uc010rtk.1_Missense_Mutation_p.S153Y|PICALM_uc001pbo.1_Missense_Mutation_p.S208Y	NM_007166	NP_009097	Q13492	PICAL_HUMAN	phosphatidylinositol-binding clathrin assembly	576					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)				TTGCCAGTTAGATCCCCCAGT	0.353			T	MLLT10|MLL	TALL|AML|								7	203	---	---	---	---	PASS	T	85692224	T	T	85692224	3	4	127	1	0	0	0	0	1	0	0	0	11880	942	33	2	275	2	PICALM	11	85692224	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	13163405	85692224	49314292	122	46060										
MTNR1B	4544	broad.mit.edu	37	chr11	92714914	92714914	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtggtggccttgctgcccaaCttctttgtggggtccctgga	14	11	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr11:92714914C>A	uc001pdk.1	+	2	628	c.525C>A	c.(523-525)AAC>AAA	p.N175K		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	175	Helical; Name=4; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	TGCTGCCCAACTTCTTTGTGG	0.612													4	89	---	---	---	---	PASS	A	92714914	A	A	92714914	3	1	127	1	0	0	0	0	1	0	0	0	9952	564	20	3	531	3	MTNR1B	11	92714914	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	7022690	92714914	42291602	123	46061										
CACNA1C	775	broad.mit.edu	37	chr12	2778165	2778165	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tgttcaatgccaccctgtttGccctggtcaggacggccctg	11	14	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr12:2778165G>T	uc009zdu.1	+	40	5147	c.4834G>T	c.(4834-4836)GCC>TCC	p.A1612S	CACNA1C_uc009zdv.1_Missense_Mutation_p.A1561S|CACNA1C_uc001qkb.2_Missense_Mutation_p.A1564S|CACNA1C_uc001qkc.2_Missense_Mutation_p.A1564S|CACNA1C_uc001qke.2_Missense_Mutation_p.A1553S|CACNA1C_uc001qkf.2_Missense_Mutation_p.A1553S|CACNA1C_uc001qjz.2_Missense_Mutation_p.A1564S|CACNA1C_uc001qkd.2_Missense_Mutation_p.A1564S|CACNA1C_uc001qkg.2_Missense_Mutation_p.A1551S|CACNA1C_uc009zdw.1_Missense_Mutation_p.A1586S|CACNA1C_uc001qkh.2_Missense_Mutation_p.A1553S|CACNA1C_uc001qkl.2_Missense_Mutation_p.A1612S|CACNA1C_uc001qkn.2_Missense_Mutation_p.A1564S|CACNA1C_uc001qko.2_Missense_Mutation_p.A1584S|CACNA1C_uc001qkp.2_Missense_Mutation_p.A1564S|CACNA1C_uc001qkr.2_Missense_Mutation_p.A1581S|CACNA1C_uc001qku.2_Missense_Mutation_p.A1564S|CACNA1C_uc001qkq.2_Missense_Mutation_p.A1592S|CACNA1C_uc001qks.2_Missense_Mutation_p.A1564S|CACNA1C_uc001qkt.2_Missense_Mutation_p.A1564S|CACNA1C_uc001qki.1_Missense_Mutation_p.A1300S|CACNA1C_uc001qkj.1_Missense_Mutation_p.A1300S|CACNA1C_uc001qkk.1_Missense_Mutation_p.A1300S|CACNA1C_uc001qkm.1_Missense_Mutation_p.A1289S|CACNA1C_uc010sea.1_Missense_Mutation_p.A255S	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1612	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CACCCTGTTTGCCCTGGTCAG	0.562													9	113	---	---	---	---	PASS	T	2778165	T	T	2778165	3	4	127	1	0	0	0	0	1	0	0	0	2540	1319	46	3	5166	3	CACNA1C	12	2778165	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08		2778165	131073730	124	46062										
KRT5	3852	broad.mit.edu	37	chr12	52913973	52913973	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ccaccgccacccccggaccgGgacacggaggtgaagctggt	14	16	0	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr12:52913973G>C	uc001san.2	-	1	271	c.108C>G	c.(106-108)TCC>TCG	p.S36S	KRT5_uc009zmh.2_Silent_p.S36S	NM_000424	NP_000415	P13647	K2C5_HUMAN	keratin 5	36	Head.				epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		CCCCGGACCGGGACACGGAGG	0.677													4	48	---	---	---	---	PASS	C	52913973	C	C	52913973	2	2	127	1	0	0	0	0	0	0	0	1	8479	1219	43	4		4	KRT5	12	52913973	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	50135808	52913973	80937922	125	46063										
VEZT	55591	broad.mit.edu	37	chr12	95645743	95645743	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cactttaccaatacttacagGatctgggacacacagacttt	6	11	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr12:95645743G>T	uc001tdz.2	+	2	169	c.64G>T	c.(64-66)GAT>TAT	p.D22Y	VEZT_uc009zsy.1_5'UTR|VEZT_uc001tdr.2_5'UTR|VEZT_uc001tds.2_5'UTR|VEZT_uc001tdt.2_5'UTR|VEZT_uc009zsz.1_Missense_Mutation_p.D22Y|VEZT_uc001tdv.2_5'UTR|VEZT_uc001tdw.1_5'UTR|VEZT_uc009zta.1_5'UTR	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	22						acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						ATACTTACAGGATCTGGGACA	0.368													5	164	---	---	---	---	PASS	T	95645743	T	T	95645743	3	4	127	1	0	0	0	0	1	0	0	0	17153	1174	41	2	70	2	VEZT	12	95645743	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	42731770	95645743	38206152	126	46064										
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100452092	100452092	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ctgatccaatttctcctgagCcacttttgtaaacaagtcca	5	12	1	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr12:100452092C>G	uc001tgq.2	-	14	3192	c.2963G>C	c.(2962-2964)GGC>GCC	p.G988A	UHRF1BP1L_uc001tgp.2_Missense_Mutation_p.G638A	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	988										ovary(2)	2						TTCTCCTGAGCCACTTTTGTA	0.308													22	186	---	---	---	---	PASS	G	100452092	G	G	100452092	3	3	127	1	0	0	0	0	1	0	0	0	16966	739	26	4	1463	4	UHRF1BP1L	12	100452092	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	4806349	100452092	33399803	127	46065										
ATP6V0A2	23545	broad.mit.edu	37	chr12	124209287	124209287	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aacttgctggaactgatagaGtacactcacatgctgagagt	10	8	1	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr12:124209287G>T	uc001ufr.2	+	4	629	c.381G>T	c.(379-381)GAG>GAT	p.E127D	ATP6V0A2_uc001ufq.1_Missense_Mutation_p.E127D	NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	127	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		AACTGATAGAGTACACTCACA	0.408													47	268	---	---	---	---	PASS	T	124209287	T	T	124209287	3	4	127	1	0	0	0	0	1	0	0	0	1169	1020	36	3	395	3	ATP6V0A2	12	124209287	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	23757195	124209287	9642608	128	46066										
GLT1D1	144423	broad.mit.edu	37	chr12	129360565	129360565	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tggctgagaactgcgaggctGccctggctcttcatctctat	11	12	3	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr12:129360565G>T	uc010tbh.1	+	2	151	c.142G>T	c.(142-144)GCC>TCC	p.A48S	GLT1D1_uc001uhx.1_Missense_Mutation_p.A59S|GLT1D1_uc001uhy.1_RNA	NM_144669	NP_653270	Q96MS3	GL1D1_HUMAN	glycosyltransferase 1 domain containing 1	59					biosynthetic process	extracellular region	transferase activity, transferring glycosyl groups				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.97e-06)|Epithelial(86;3.97e-05)|all cancers(50;0.00019)		CTGCGAGGCTGCCCTGGCTCT	0.473													70	312	---	---	---	---	PASS	T	129360565	T	T	129360565	3	4	127	1	0	0	0	0	1	0	0	0	6465	1319	46	3	181	3	GLT1D1	12	129360565	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	5151278	129360565	4491330	129	46067										
NBEA	26960	broad.mit.edu	37	chr13	35864575	35864575	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtggttgagcttgttatgctGctttgttctcaggtacaaaa	11	6	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr13:35864575G>T	uc001uvb.2	+	35	6032	c.5826G>T	c.(5824-5826)CTG>CTT	p.L1942L	NBEA_uc010abi.2_Silent_p.L598L	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1942						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TTGTTATGCTGCTTTGTTCTC	0.323													41	291	---	---	---	---	PASS	T	35864575	T	T	35864575	2	4	127	1	0	0	0	0	0	0	0	1	10187	1306	46	3		3	NBEA	13	35864575	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08		35864575	79305303	130	46068										
ZC3H13	23091	broad.mit.edu	37	chr13	46559779	46559779	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tagtatctctggcatctctcCgatcccgaccatctcgaggt	8	14	3	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr13:46559779C>T	uc010tfw.1	-	9	1379	c.1373G>A	c.(1372-1374)CGG>CAG	p.R458Q	ZC3H13_uc001vas.1_Missense_Mutation_p.R458Q|ZC3H13_uc001vat.1_Missense_Mutation_p.R458Q	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	458	Arg/Ser-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		GGCATCTCTCCGATCCCGACC	0.483													29	377	---	---	---	---	PASS	T	46559779	T	T	46559779	3	4	127	1	0	0	0	0	1	0	0	0	17562	652	23	1	3353	1	ZC3H13	13	46559779	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	10695204	46559779	68610099	131	46069										
KPNA3	3839	broad.mit.edu	37	chr13	50306891	50306891	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ttagtaacatacctgcaataTagcttctagggttacatttt	6	7	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr13:50306891T>C	uc001vdj.2	-	4	641	c.226A>G	c.(226-228)ATA>GTA	p.I76V		NM_002267	NP_002258	O00505	IMA3_HUMAN	karyopherin alpha 3	76	ARM 1; truncated.				interspecies interaction between organisms|NLS-bearing substrate import into nucleus|protein complex assembly	cytoplasm|nuclear pore	nuclear localization sequence binding|protein transporter activity				0		Lung NSC(96;2.46e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.42e-09)		ACCTGCAATATAGCTTCTAGG	0.244													10	80	---	---	---	---	PASS	C	50306891	C	C	50306891	3	2	127	1	0	0	0	0	1	0	0	0	8431	1406	49	5	1395	5	KPNA3	13	50306891	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	3747112	50306891	64862987	132	46070										
PCDH17	27253	broad.mit.edu	37	chr13	58208468	58208468	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aacgacaccgcggagctgcaGgtgccgcgcaacgctggcct	14	15	0	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr13:58208468G>T	uc001vhq.1	+	1	2680	c.1788G>T	c.(1786-1788)CAG>CAT	p.Q596H	PCDH17_uc010aec.1_Missense_Mutation_p.Q596H	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	596	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CGGAGCTGCAGGTGCCGCGCA	0.647													15	48	---	---	---	---	PASS	T	58208468	T	T	58208468	3	4	127	1	0	0	0	0	1	0	0	0	11512	991	35	3	1790	3	PCDH17	13	58208468	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	7901577	58208468	56961410	133	46071										
KLHL1	57626	broad.mit.edu	37	chr13	70514196	70514196	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtgtagctgtgggccaccttCattaactcaatgcatccttg	9	11	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr13:70514196C>A	uc001vip.2	-	4	1784	c.990G>T	c.(988-990)ATG>ATT	p.M330I	KLHL1_uc010thm.1_Missense_Mutation_p.M269I	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	330					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		GGGCCACCTTCATTAACTCAA	0.413													6	92	---	---	---	---	PASS	A	70514196	A	A	70514196	3	1	127	1	0	0	0	0	1	0	0	0	8365	826	29	2	1288	2	KLHL1	13	70514196	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	12305728	70514196	44655682	134	46072										
MYCBP2	23077	broad.mit.edu	37	chr13	77760189	77760189	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aagaatactcaacaatgactCaaaacattcctaatccagaa	3	10	2	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr13:77760189C>G	uc001vkf.2	-	32	4238	c.4147G>C	c.(4147-4149)GAG>CAG	p.E1383Q	MYCBP2_uc010aev.2_Missense_Mutation_p.E787Q	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1383					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AACAATGACTCAAAACATTCC	0.363													8	93	---	---	---	---	PASS	G	77760189	G	G	77760189	3	3	127	1	0	0	0	0	1	0	0	0	10018	835	29	2	9987	2	MYCBP2	13	77760189	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	7245993	77760189	37409689	135	46073										
COL4A1	1282	broad.mit.edu	37	chr13	110864803	110864803	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggaatacctggggggcctggCgggccgtcttggccaggaat	18	10	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr13:110864803C>T	uc001vqw.3	-	6	470	c.348G>A	c.(346-348)CCG>CCA	p.P116P	COL4A1_uc010agl.2_Silent_p.P116P	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	116					angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			GGGGGCCTGGCGGGCCGTCTT	0.453													42	361	---	---	---	---	PASS	T	110864803	T	T	110864803	2	4	127	1	0	0	0	0	0	0	0	1	3689	755	27	1		1	COL4A1	13	110864803	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	33104614	110864803	4305075	136	46074										
COL4A2	1284	broad.mit.edu	37	chr13	111138086	111138086	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ccacatcaaaggagtcaaggGagacatcggagtccccggca	12	12	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr13:111138086G>A	uc001vqx.2	+	34	3399	c.3110G>A	c.(3109-3111)GGA>GAA	p.G1037E		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	1037	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GGAGTCAAGGGAGACATCGGA	0.627													10	130	---	---	---	---	PASS	A	111138086	A	A	111138086	3	1	127	1	0	0	0	0	1	0	0	0	3690	1174	41	2	3240	2	COL4A2	13	111138086	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	273283	111138086	4031792	137	46075										
SSTR1	6751	broad.mit.edu	37	chr14	38679090	38679090	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tggtgcatcccatcaaggcgGcccgctaccgccggcccacc	11	19	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr14:38679090G>A	uc001wul.1	+	3	1113	c.496G>A	c.(496-498)GCC>ACC	p.A166T	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	166	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	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;0.00444)	Octreotide(DB00104)	CATCAAGGCGGCCCGCTACCG	0.637													14	73	---	---	---	---	PASS	A	38679090	A	A	38679090	3	1	127	1	0	0	0	0	1	0	0	0	15196	1203	42	3	498	3	SSTR1	14	38679090	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08		38679090	68670450	138	46076										
SYNE2	23224	broad.mit.edu	37	chr14	64593522	64593522	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ctcgattacaaccgcagttaCcaggtatgattccgagcaca	8	12	0	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr14:64593522C>A	uc001xgm.2	+	73	14144	c.13914C>A	c.(13912-13914)TAC>TAA	p.Y4638*	SYNE2_uc001xgl.2_Nonsense_Mutation_p.Y4638*|SYNE2_uc010apy.2_Nonsense_Mutation_p.Y1023*|SYNE2_uc010apz.1_Nonsense_Mutation_p.Y530*	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	4638	Potential.|Cytoplasmic (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)		ACCGCAGTTACCAGGTATGAT	0.458													6	97	---	---	---	---	PASS	A	64593522	A	A	64593522	4	1	127	1	0	0	0	0	0	1	0	0	15443	518	18	3	14200	3	SYNE2	14	64593522	Nonsense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	25914432	64593522	42756018	139	46077										
PCNX	22990	broad.mit.edu	37	chr14	71555129	71555129	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	acggagagctttggggactgCatcccatcatatgtccaggt	12	10	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr14:71555129C>T	uc001xmo.2	+	29	5866	c.5420C>T	c.(5419-5421)GCA>GTA	p.A1807V	PCNX_uc010are.1_Missense_Mutation_p.A1696V|PCNX_uc010arf.1_Missense_Mutation_p.A595V	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1807						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)		TTGGGGACTGCATCCCATCAT	0.423													4	106	---	---	---	---	PASS	T	71555129	T	T	71555129	3	4	127	1	0	0	0	0	1	0	0	0	11591	710	25	3	5534	3	PCNX	14	71555129	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	6961607	71555129	35794411	140	46078										
C14orf145	145508	broad.mit.edu	37	chr14	81380730	81380730	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtccaagcatctggtccactTgtcgcaggttccgactggta	11	12	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr14:81380730T>A	uc001xux.2	-	3	341	c.170A>T	c.(169-171)CAA>CTA	p.Q57L	C14orf145_uc001xuz.2_Missense_Mutation_p.Q57L|C14orf145_uc001xva.1_Missense_Mutation_p.Q57L|C14orf145_uc010ata.1_Missense_Mutation_p.Q57L	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	57						centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		CTGGTCCACTTGTCGCAGGTT	0.393													17	173	---	---	---	---	PASS	A	81380730	A	A	81380730	3	1	127	1	0	0	0	0	1	0	0	0	1749	1812	63	5	3202	5	C14orf145	14	81380730	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	9825601	81380730	25968810	141	46079										
TECPR2	9895	broad.mit.edu	37	chr14	102916045	102916045	+	Missense_Mutation	SNP	C	T	T													0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tgccactcactcggtggccaCagcagcccaagcccccgtag							TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr14:102916045C>T	uc001ylw.1	+	14	3303	c.3155C>T	c.(3154-3156)ACA>ATA	p.T1052I	TECPR2_uc010awl.2_Missense_Mutation_p.T1052I|TECPR2_uc010txx.1_Missense_Mutation_p.T215I	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1052							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						TCGGTGGCCACAGCAGCCCAA	0.547													10	153	---	---	---	---	PASS	T	102916045	T	T	102916045	3	4	127	1	0	0	0	0	1	0	0	0	15741	478	17	3	3205	3	TECPR2	14	102916045	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	21535315	102916045	4433495	142	46080	851	2								
TECPR2	9895	broad.mit.edu	37	chr14	102916046	102916046	+	Silent	SNP	A	T	T													0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gccactcactcggtggccacAgcagcccaagcccccgtaga							TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr14:102916046A>T	uc001ylw.1	+	14	3304	c.3156A>T	c.(3154-3156)ACA>ACT	p.T1052T	TECPR2_uc010awl.2_Silent_p.T1052T|TECPR2_uc010txx.1_Silent_p.T215T	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1052							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						CGGTGGCCACAGCAGCCCAAG	0.547													10	148	---	---	---	---	PASS	T	102916046	T	T	102916046	2	4	127	1	0	0	0	0	0	0	0	1	15741	175	7	5		5	TECPR2	14	102916046	Silent	SNP	A	TCGA-60-2715-01A-01D-1522-08	1	102916046	4433494	143	46081	851	2								
BAG5	9529	broad.mit.edu	37	chr14	104026793	104026793	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cctccgataatttctgatttCtgtccggccgcacacatcta	6	14	3	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr14:104026793C>A	uc001yni.1	-	2	943	c.709G>T	c.(709-711)GAA>TAA	p.E237*	KLC1_uc010tyd.1_5'Flank|BAG5_uc001ynh.1_Nonsense_Mutation_p.E278*|BAG5_uc001ynj.1_Nonsense_Mutation_p.E237*|C14orf153_uc001ynl.3_5'Flank|C14orf153_uc010tyc.1_5'Flank	NM_004873	NP_004864	Q9UL15	BAG5_HUMAN	BCL2-associated athanogene 5 isoform b	237	BAG 3.				apoptosis|negative regulation of protein refolding|negative regulation of ubiquitin-protein ligase activity|neuron death|protein folding|regulation of inclusion body assembly	inclusion body|perinuclear region of cytoplasm	chaperone binding|ubiquitin protein ligase binding			ovary(2)	2		Melanoma(154;0.155)	Epithelial(46;0.144)			TTTCTGATTTCTGTCCGGCCG	0.458													13	196	---	---	---	---	PASS	A	104026793	A	A	104026793	4	1	127	1	0	0	0	0	0	1	0	0	1290	922	32	2	638	2	BAG5	14	104026793	Nonsense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	1110747	104026793	3322747	144	46082										
AHNAK2	113146	broad.mit.edu	37	chr14	105415980	105415980	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtcacttccgccttggggccTttcaggtccagcttggcgcc	12	15	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr14:105415980T>C	uc010axc.1	-	7	5928	c.5808A>G	c.(5806-5808)AAA>AAG	p.K1936K	AHNAK2_uc001ypx.2_Silent_p.K1836K	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1936						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)			CCTTGGGGCCTTTCAGGTCCA	0.607													18	373	---	---	---	---	PASS	C	105415980	C	C	105415980	2	2	127	1	0	0	0	0	0	0	0	1	415	1606	56	5		5	AHNAK2	14	105415980	Silent	SNP	T	TCGA-60-2715-01A-01D-1522-08	1389187	105415980	1933560	145	46083										
ATP10A	57194	broad.mit.edu	37	chr15	25953150	25953150	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtgcaggttggtctccaggcGaatggcagactggaagagga	17	7	1	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr15:25953150G>A	uc010ayu.2	-	12	2654	c.2548C>T	c.(2548-2550)CGC>TGC	p.R850C		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	850	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GTCTCCAGGCGAATGGCAGAC	0.542													16	56	---	---	---	---	PASS	A	25953150	A	A	25953150	3	1	127	1	0	0	0	0	1	0	0	0	1116	1058	37	2	1991	2	ATP10A	15	25953150	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08		25953150	76578242	146	46084										
GABRA5	2558	broad.mit.edu	37	chr15	27126086	27126086	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gatgggctcttggatggctaCgacaacagacttcggcccgg	14	11	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr15:27126086C>G	uc001zbd.1	+	5	519	c.180C>G	c.(178-180)TAC>TAG	p.Y60*	GABRB3_uc001zbb.2_Intron	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	60	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TGGATGGCTACGACAACAGAC	0.502													3	90	---	---	---	---	PASS	G	27126086	G	G	27126086	4	3	127	1	0	0	0	0	0	1	0	0	6164	547	19	4	186	4	GABRA5	15	27126086	Nonsense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	1172936	27126086	75405306	147	46085										
ZNF263	10127	broad.mit.edu	37	chr16	3340467	3340467	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tcgccacctgagaacgcataCgggagagagaccctataaat	10	11	0	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr16:3340467C>T	uc002cuq.2	+	6	2293	c.1961C>T	c.(1960-1962)ACG>ATG	p.T654M	ZNF263_uc010uww.1_Missense_Mutation_p.T302M|ZNF263_uc002cur.2_Missense_Mutation_p.T302M	NM_005741	NP_005732	O14978	ZN263_HUMAN	zinc finger protein 263	654					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(3)|ovary(1)	4						AGAACGCATACGGGAGAGAGA	0.488													33	224	---	---	---	---	PASS	T	3340467	T	T	3340467	3	4	127	1	0	0	0	0	1	0	0	0	17800	536	19	1	1983	1	ZNF263	16	3340467	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08		3340467	87014286	148	46086										
ARHGAP17	55114	broad.mit.edu	37	chr16	24971010	24971010	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	accttgatgggctcgcatttCggggagggtcttttctaaga	13	8	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr16:24971010C>T	uc002dnb.2	-	9	799	c.706G>A	c.(706-708)GAA>AAA	p.E236K	ARHGAP17_uc002dna.2_5'Flank|ARHGAP17_uc002dnc.2_Missense_Mutation_p.E236K|ARHGAP17_uc010vcf.1_Missense_Mutation_p.E57K|ARHGAP17_uc002dnf.2_Missense_Mutation_p.E144K|ARHGAP17_uc002dng.1_Intron	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	236	BAR.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		GCTCGCATTTCGGGGAGGGTC	0.483													7	127	---	---	---	---	PASS	T	24971010	T	T	24971010	3	4	127	1	0	0	0	0	1	0	0	0	867	893	31	2	1987	2	ARHGAP17	16	24971010	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	21630543	24971010	65383743	149	46087										
IL4R	3566	broad.mit.edu	37	chr16	27374493	27374493	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggctggttacaaggccttctCaagcctgcttgccagcagtg	12	12	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr16:27374493C>A	uc002don.2	+	11	2062	c.1820C>A	c.(1819-1821)TCA>TAA	p.S607*	IL4R_uc002dop.3_Nonsense_Mutation_p.S592*|IL4R_uc010bxy.2_Nonsense_Mutation_p.S607*|IL4R_uc002doo.2_Nonsense_Mutation_p.S447*	NM_000418	NP_000409	P24394	IL4RA_HUMAN	interleukin 4 receptor alpha chain isoform a	607	Required for IL4-induced gene expression.|Cytoplasmic (Potential).				immune response|production of molecular mediator involved in inflammatory response	integral to plasma membrane	identical protein binding|interleukin-4 receptor activity|receptor signaling protein activity			ovary(1)|skin(1)	2						AAGGCCTTCTCAAGCCTGCTT	0.597													4	101	---	---	---	---	PASS	A	27374493	A	A	27374493	4	1	127	1	0	0	0	0	0	1	0	0	7698	838	29	2	1872	2	IL4R	16	27374493	Nonsense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	2403483	27374493	62980260	150	46088										
ATXN2L	11273	broad.mit.edu	37	chr16	28841947	28841947	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tttcctcagggaggggaagtAtatccctctgcctcaacgag	11	11	3	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr16:28841947A>G	uc002drc.2	+	9	1214	c.1046A>G	c.(1045-1047)TAT>TGT	p.Y349C	uc010vct.1_Intron|ATXN2L_uc010byl.1_Missense_Mutation_p.Y349C|ATXN2L_uc002drb.2_Missense_Mutation_p.Y349C|ATXN2L_uc002dqy.2_Missense_Mutation_p.Y349C|ATXN2L_uc002dra.2_Missense_Mutation_p.Y349C|ATXN2L_uc002dqz.2_Missense_Mutation_p.Y349C|ATXN2L_uc010vdb.1_Missense_Mutation_p.Y349C|ATXN2L_uc002dre.2_Missense_Mutation_p.Y349C|ATXN2L_uc002drf.2_5'UTR	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	349						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						GAGGGGAAGTATATCCCTCTG	0.552													10	62	---	---	---	---	PASS	G	28841947	G	G	28841947	3	3	127	1	0	0	0	0	1	0	0	0	1212	449	16	5	1080	5	ATXN2L	16	28841947	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	1467454	28841947	61512806	151	46089										
SRCAP	10847	broad.mit.edu	37	chr16	30749733	30749733	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tagtgccagcccgggaagccCgtctgtccgcagcatgtcag	13	14	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr16:30749733C>T	uc002dze.1	+	34	8757	c.8372C>T	c.(8371-8373)CCG>CTG	p.P2791L	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.P2586L	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2791	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CCGGGAAGCCCGTCTGTCCGC	0.662													7	123	---	---	---	---	PASS	T	30749733	T	T	30749733	3	4	127	1	0	0	0	0	1	0	0	0	15134	652	23	1	8498	1	SRCAP	16	30749733	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	1907786	30749733	59605020	152	46090										
VPS4A	27183	broad.mit.edu	37	chr16	69350244	69350244	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aagagaaacacggcaagaagCcagtcaaagagaaccagagt	11	8	1	4			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr16:69350244C>T	uc002eww.2	+	3	378	c.250C>T	c.(250-252)CCA>TCA	p.P84S		NM_013245	NP_037377	Q9UN37	VPS4A_HUMAN	vacuolar protein sorting factor 4A	84	Interaction with CHMP1B.				cell cycle|cellular membrane organization|cytokinesis|endosome transport|protein transport	cytosol|late endosome membrane|midbody|perinuclear region of cytoplasm	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein domain specific binding				0		Ovarian(137;0.101)				CGGCAAGAAGCCAGTCAAAGA	0.572													4	128	---	---	---	---	PASS	T	69350244	T	T	69350244	3	4	127	1	0	0	0	0	1	0	0	0	17209	739	26	3	260	3	VPS4A	16	69350244	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	38600511	69350244	21004509	153	46091										
NFAT5	10725	broad.mit.edu	37	chr16	69727791	69727791	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	agtccacagtttcctcacttCagaacccaggtcctacccag	6	16	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr16:69727791C>T	uc002exm.1	+	12	5217	c.4009C>T	c.(4009-4011)CAG>TAG	p.Q1337*	NFAT5_uc002exi.2_Nonsense_Mutation_p.Q1261*|NFAT5_uc002exj.1_Nonsense_Mutation_p.Q1261*|NFAT5_uc002exk.1_Nonsense_Mutation_p.Q1261*|NFAT5_uc002exl.1_Nonsense_Mutation_p.Q1355*|NFAT5_uc002exn.1_Nonsense_Mutation_p.Q1354*|NFAT5_uc002exo.1_RNA	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	1337					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						TTCCTCACTTCAGAACCCAGG	0.473													15	185	---	---	---	---	PASS	T	69727791	T	T	69727791	4	4	127	1	0	0	0	0	0	1	0	0	10360	827	29	2	4113	2	NFAT5	16	69727791	Nonsense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	377547	69727791	20626962	154	46092										
GALNS	2588	broad.mit.edu	37	chr16	88898492	88898492	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggtctgcttcccacacagaaAggggccgttgctgccacctg	12	14	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr16:88898492A>T	uc002fly.3	-	9	1005	c.916T>A	c.(916-918)TTT>ATT	p.F306I	GALNS_uc010cid.2_Missense_Mutation_p.F312I|GALNS_uc002flz.3_5'UTR	NM_000512	NP_000503	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfate sulfatase	306						lysosome	metal ion binding|N-acetylgalactosamine-4-sulfatase activity|N-acetylgalactosamine-6-sulfatase activity			large_intestine(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0496)	Hyaluronidase(DB00070)	CCACACAGAAAGGGGCCGTTG	0.657													5	31	---	---	---	---	PASS	T	88898492	T	T	88898492	3	4	127	1	0	0	0	0	1	0	0	0	6206	72	3	5	676	5	GALNS	16	88898492	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	19170701	88898492	1456261	155	46093										
SENP3	26168	broad.mit.edu	37	chr17	7468014	7468014	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aggggagcgcagcttggcacCccctgatgccagcatcctca	12	15	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr17:7468014C>A	uc002ghm.2	+	3	1061	c.788C>A	c.(787-789)CCC>CAC	p.P263H	EIF4A1_uc002gho.1_5'Flank|SENP3_uc002ghn.1_Missense_Mutation_p.P98H	NM_015670	NP_056485	Q9H4L4	SENP3_HUMAN	SUMO1/sentrin/SMT3 specific protease 3	263					proteolysis	MLL1 complex|nucleolus	cysteine-type peptidase activity			ovary(1)|central_nervous_system(1)	2		Prostate(122;0.157)				AGCTTGGCACCCCCTGATGCC	0.577													4	93	---	---	---	---	PASS	A	7468014	A	A	7468014	3	1	127	1	0	0	0	0	1	0	0	0	14048	623	22	3	794	3	SENP3	17	7468014	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08		7468014	73727196	156	46094										
TOP3A	7156	broad.mit.edu	37	chr17	18188474	18188474	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	acttctttgctttagccaccGcttcaatgaaaacctgcttg	6	12	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr17:18188474G>A	uc002gsx.1	-	15	2088	c.1859C>T	c.(1858-1860)GCG>GTG	p.A620V	TOP3A_uc010cpz.1_Missense_Mutation_p.A72V|TOP3A_uc010vxr.1_Missense_Mutation_p.A150V|TOP3A_uc002gsw.1_Missense_Mutation_p.A72V|TOP3A_uc010vxs.1_Missense_Mutation_p.A518V	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	620					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						TTTAGCCACCGCTTCAATGAA	0.279													49	319	---	---	---	---	PASS	A	18188474	A	A	18188474	3	1	127	1	0	0	0	0	1	0	0	0	16364	1087	38	1	1166	1	TOP3A	17	18188474	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	10720460	18188474	63006736	157	46095										
SRCIN1	80725	broad.mit.edu	37	chr17	36705423	36705423	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cttggagggcttctctgtgcGgtatcggggcacggtcaact	15	10	2	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr17:36705423G>A	uc002hqd.2	-	16	3211	c.2986C>T	c.(2986-2988)CGC>TGC	p.R996C	SRCIN1_uc002hqf.1_Missense_Mutation_p.R868C|SRCIN1_uc002hqe.2_Missense_Mutation_p.R850C	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	868	Pro-rich.				exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						TTCTCTGTGCGGTATCGGGGC	0.642													8	34	---	---	---	---	PASS	A	36705423	A	A	36705423	3	1	127	1	0	0	0	0	1	0	0	0	15135	1116	39	1	581	1	SRCIN1	17	36705423	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	18516949	36705423	44489787	158	46096										
IKZF3	22806	broad.mit.edu	37	chr17	37949057	37949057	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	catgtctctccaacttaatgTtttcatattcattatattct	2	9	4	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr17:37949057T>C	uc002hsu.2	-	4	355	c.293A>G	c.(292-294)AAC>AGC	p.N98S	IKZF3_uc002htd.2_Missense_Mutation_p.N64S|IKZF3_uc010cwd.2_Intron|IKZF3_uc002hsv.2_Missense_Mutation_p.N64S|IKZF3_uc010cwe.2_Missense_Mutation_p.N98S|IKZF3_uc010cwf.2_Intron|IKZF3_uc010cwg.2_Intron|IKZF3_uc002hsw.2_Missense_Mutation_p.N98S|IKZF3_uc002hsx.2_Missense_Mutation_p.N98S|IKZF3_uc002hsy.2_Missense_Mutation_p.N98S|IKZF3_uc002hsz.2_Missense_Mutation_p.N98S|IKZF3_uc002hta.2_Missense_Mutation_p.N98S|IKZF3_uc002htb.2_RNA|IKZF3_uc010cwh.2_Intron|IKZF3_uc002htc.2_5'UTR	NM_012481	NP_036613	Q9UKT9	IKZF3_HUMAN	aiolos isoform 1	98					B cell activation|mesoderm development|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)|kidney(2)|skin(2)	6	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CAACTTAATGTTTTCATATTC	0.393													13	220	---	---	---	---	PASS	C	37949057	C	C	37949057	3	2	127	1	0	0	0	0	1	0	0	0	7616	1725	60	5	1256	5	IKZF3	17	37949057	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	1243634	37949057	43246153	159	46097										
KRTAP9-8	83901	broad.mit.edu	37	chr17	39394356	39394356	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tacgtgctgcaggaccacctGctggaagcccaccactgtga	11	14	0	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr17:39394356G>A	uc002hwh.3	+	1	87	c.53G>A	c.(52-54)TGC>TAC	p.C18Y	KRTAP9-9_uc010wfq.1_Intron	NM_031963	NP_114169	Q9BYQ0	KRA98_HUMAN	keratin associated protein 9.8	18	15 X 5 AA repeats of C-C-[RQVSGE]- [SPSNQ]-[TASPI].					keratin filament				ovary(1)	1		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			AGGACCACCTGCTGGAAGCCC	0.617													7	113	---	---	---	---	PASS	A	39394356	A	A	39394356	3	1	127	1	0	0	0	0	1	0	0	0	8576	1319	46	3	55	3	KRTAP9-8	17	39394356	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	1445299	39394356	41800854	160	46098										
EME1	146956	broad.mit.edu	37	chr17	48453533	48453533	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ccttgcagtgtcacttggagGagaagggctgggccgtctga	16	9	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr17:48453533G>T	uc002iqs.1	+	3	955	c.882G>T	c.(880-882)AGG>AGT	p.R294S	MRPL27_uc002iqq.2_5'Flank|MRPL27_uc002iqr.2_5'Flank|EME1_uc010dbp.1_Missense_Mutation_p.R294S	NM_152463	NP_689676	Q96AY2	EME1_HUMAN	essential meiotic endonuclease 1 homolog 1	294					DNA recombination|DNA repair	nucleolus	DNA binding|endonuclease activity|metal ion binding|protein binding				0	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			TCACTTGGAGGAGAAGGGCTG	0.522								Direct_reversal_of_damage|Homologous_recombination					10	137	---	---	---	---	PASS	T	48453533	T	T	48453533	3	4	127	1	0	0	0	0	1	0	0	0	5088	1165	41	2	888	2	EME1	17	48453533	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	9059177	48453533	32741677	161	46099										
TOM1L1	10040	broad.mit.edu	37	chr17	52978259	52978259	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aagagtcaccgggatccctaCgcgacctccgtgggccacct	11	16	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr17:52978259C>G	uc002iud.2	+	1	208	c.33C>G	c.(31-33)TAC>TAG	p.Y11*	TOM1L1_uc002iub.2_5'UTR|TOM1L1_uc002iuc.2_Nonsense_Mutation_p.Y11*|TOM1L1_uc010dca.1_Nonsense_Mutation_p.Y11*|TOM1L1_uc010wnb.1_Nonsense_Mutation_p.Y11*|TOM1L1_uc010wnc.1_5'UTR|TOM1L1_uc010dbz.2_5'UTR|TOM1L1_uc010wnd.1_5'UTR	NM_005486	NP_005477	O75674	TM1L1_HUMAN	target of myb1-like 1	11					intracellular protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	cytosol|endosome membrane|Golgi stack|lysosome	SH3 domain binding|ubiquitin binding			ovary(1)	1						GGGATCCCTACGCGACCTCCG	0.672													7	128	---	---	---	---	PASS	G	52978259	G	G	52978259	4	3	127	1	0	0	0	0	0	1	0	0	16349	547	19	4	35	4	TOM1L1	17	52978259	Nonsense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	4524726	52978259	28216951	162	46100										
TEX2	55852	broad.mit.edu	37	chr17	62291306	62291306	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtccatctgccaggacaggcGaggcagcagggccggcgggg	19	12	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr17:62291306G>A	uc002jec.2	-	2	445	c.272C>T	c.(271-273)TCG>TTG	p.S91L	TEX2_uc002jed.2_Missense_Mutation_p.S91L|TEX2_uc002jee.2_Missense_Mutation_p.S91L	NM_018469	NP_060939	Q8IWB9	TEX2_HUMAN	testis expressed sequence 2	91					signal transduction|sphingolipid metabolic process	integral to membrane				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		CAGGACAGGCGAGGCAGCAGG	0.592													26	275	---	---	---	---	PASS	A	62291306	A	A	62291306	3	1	127	1	0	0	0	0	1	0	0	0	15778	1059	37	2	3176	2	TEX2	17	62291306	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	9313047	62291306	18903904	163	46101										
SLC16A6	9120	broad.mit.edu	37	chr17	66267716	66267716	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggtctgagcagtgctccgaaGatgacaatgtttaactgtag	12	7	1	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr17:66267716G>T	uc002jgz.1	-	5	773	c.585C>A	c.(583-585)ATC>ATA	p.I195I	ARSG_uc002jhc.2_Intron|SLC16A6_uc002jha.1_Silent_p.I195I	NM_004694	NP_004685	O15403	MOT7_HUMAN	solute carrier family 16, member 6	195	Helical; (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity				0	all_cancers(12;1.24e-09)		BRCA - Breast invasive adenocarcinoma(8;3.17e-08)|LUSC - Lung squamous cell carcinoma(166;0.24)		Pyruvic acid(DB00119)	GTGCTCCGAAGATGACAATGT	0.478													41	137	---	---	---	---	PASS	T	66267716	T	T	66267716	2	4	127	1	0	0	0	0	0	0	0	1	14412	932	33	2		2	SLC16A6	17	66267716	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	3976410	66267716	14927494	164	46102										
SAP30BP	29115	broad.mit.edu	37	chr17	73698642	73698642	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ccaaaggaagaaagaatttcGgaaccctaggtaagtttccc	9	9	0	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr17:73698642G>A	uc002jpe.2	+	6	533	c.479G>A	c.(478-480)CGG>CAG	p.R160Q	SAP30BP_uc002jpc.1_RNA|SAP30BP_uc010wsf.1_RNA|SAP30BP_uc010wsg.1_RNA|SAP30BP_uc002jpf.2_Missense_Mutation_p.R144Q	NM_013260	NP_037392	Q9UHR5	S30BP_HUMAN	transcriptional regulator protein	160					apoptosis|induction of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1	all_cancers(13;6.42e-08)		all cancers(21;4.25e-07)|Epithelial(20;9.57e-07)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			AAAGAATTTCGGAACCCTAGG	0.433													10	99	---	---	---	---	PASS	A	73698642	A	A	73698642	3	1	127	1	0	0	0	0	1	0	0	0	13834	1116	39	1	501	1	SAP30BP	17	73698642	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	7430926	73698642	7496568	165	46103										
DUS1L	64118	broad.mit.edu	37	chr17	80019200	80019200	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cacggcagggctccggccctCgaacagggcggggttgtgca	17	13	0	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr17:80019200C>T	uc002kdq.2	-	7	1146	c.727G>A	c.(727-729)GAG>AAG	p.E243K	DUS1L_uc002kdp.2_Missense_Mutation_p.E112K|DUS1L_uc002kdr.2_Missense_Mutation_p.E243K|DUS1L_uc002kds.2_RNA|DUS1L_uc002kdt.2_RNA|DUS1L_uc010wvi.1_Missense_Mutation_p.E226K	NM_022156	NP_071439	Q6P1R4	DUS1L_HUMAN	PP3111 protein	243					tRNA processing		flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity			skin(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			CTCCGGCCCTCGAACAGGGCG	0.677													5	50	---	---	---	---	PASS	T	80019200	T	T	80019200	3	4	127	1	0	0	0	0	1	0	0	0	4805	893	31	2	722	2	DUS1L	17	80019200	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	6320558	80019200	1176010	166	46104										
RBBP8	5932	broad.mit.edu	37	chr18	20573509	20573509	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tgctctccagacaataaaccAtcattacaaataaaagaaga	4	9	2	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr18:20573509A>G	uc002ktw.2	+	11	2050	c.1719A>G	c.(1717-1719)CCA>CCG	p.P573P	RBBP8_uc002kty.2_Silent_p.P573P|RBBP8_uc002ktz.2_Silent_p.P573P|RBBP8_uc002kua.2_Silent_p.P573P|RBBP8_uc010xap.1_5'Flank|RBBP8_uc002ktx.1_Silent_p.P573P	NM_002894	NP_002885	Q99708	COM1_HUMAN	retinoblastoma binding protein 8 isoform a	573					cell cycle checkpoint|DNA double-strand break processing involved in repair via single-strand annealing|meiosis|regulation of transcription from RNA polymerase II promoter	nucleus	damaged DNA binding|protein binding|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)|lung(1)|skin(1)	3	all_cancers(21;4.34e-05)|all_epithelial(16;8.3e-07)|Lung NSC(20;0.0107)|Colorectal(14;0.0202)|all_lung(20;0.0291)|Ovarian(20;0.19)		OV - Ovarian serous cystadenocarcinoma(1;0.00196)			ACAATAAACCATCATTACAAA	0.413								Direct_reversal_of_damage|Homologous_recombination					23	182	---	---	---	---	PASS	G	20573509	G	G	20573509	2	3	127	1	0	0	0	0	0	0	0	1	13105	204	8	5		5	RBBP8	18	20573509	Silent	SNP	A	TCGA-60-2715-01A-01D-1522-08		20573509	57503739	167	46105										
NCAN	1463	broad.mit.edu	37	chr19	19329873	19329873	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gcgcagcccgagatgcccctCggataaagtggaccaaggtg	14	12	0	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr19:19329873C>T	uc002nlz.2	+	3	322	c.223C>T	c.(223-225)CGG>TGG	p.R75W		NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	75	Ig-like V-type.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			AGATGCCCCTCGGATAAAGTG	0.657													6	64	---	---	---	---	PASS	T	19329873	T	T	19329873	3	4	127	1	0	0	0	0	1	0	0	0	10204	875	31	2	229	2	NCAN	19	19329873	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08		19329873	39799110	168	46106										
NCAN	1463	broad.mit.edu	37	chr19	19339016	19339016	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gcaccaccttgagccctcagGtggccctggatacaagcatt	10	14	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr19:19339016G>T	uc002nlz.2	+	8	2686	c.2587G>T	c.(2587-2589)GTG>TTG	p.V863L	NCAN_uc010ecc.1_Missense_Mutation_p.V427L	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	863					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GAGCCCTCAGGTGGCCCTGGA	0.587													12	180	---	---	---	---	PASS	T	19339016	T	T	19339016	3	4	127	1	0	0	0	0	1	0	0	0	10204	1261	44	3	2613	3	NCAN	19	19339016	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	9143	19339016	39789967	169	46107										
NPHS1	4868	broad.mit.edu	37	chr19	36335017	36335017	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gggctcacagtgcacgtccaGccgcagccgcgcttccgcgg	14	17	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr19:36335017G>A	uc002oby.2	-	16	2200	c.2200C>T	c.(2200-2202)CTG>TTG	p.L734L		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	734	Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGCACGTCCAGCCGCAGCCGC	0.652													10	38	---	---	---	---	PASS	A	36335017	A	A	36335017	2	1	127	1	0	0	0	0	0	0	0	1	10582	962	34	3		3	NPHS1	19	36335017	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	16996001	36335017	22793966	170	46108										
IRF3	3661	broad.mit.edu	37	chr19	50165456	50165456	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	acatgccagggtctggcagtGtgactggccatccaggcagc	14	12	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr19:50165456G>C	uc010end.1	-	6	1113	c.731C>G	c.(730-732)ACA>AGA	p.T244R	IRF3_uc002pos.1_5'Flank|IRF3_uc002pot.1_Intron|IRF3_uc002pox.1_Missense_Mutation_p.T244R|IRF3_uc002poy.1_Missense_Mutation_p.T244R|IRF3_uc002pou.2_Missense_Mutation_p.T244R|IRF3_uc002pov.2_Missense_Mutation_p.T98R|IRF3_uc002pow.2_Missense_Mutation_p.T244R|IRF3_uc002poz.1_Missense_Mutation_p.T244R|BCL2L12_uc002ppa.2_5'Flank|BCL2L12_uc002ppb.2_5'Flank	NM_001571	NP_001562	Q14653	IRF3_HUMAN	interferon regulatory factor 3	244	Involved in HERC5 binding.				interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|endosome membrane|nucleoplasm|plasma membrane	DNA binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(2)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.02)		GTCTGGCAGTGTGACTGGCCA	0.672													6	73	---	---	---	---	PASS	C	50165456	C	C	50165456	3	2	127	1	0	0	0	0	1	0	0	0	7831	1377	48	4	564	4	IRF3	19	50165456	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	13830439	50165456	8963527	171	46109										
PRPF31	26121	broad.mit.edu	37	chr19	54627995	54627995	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ctcagtgctgccccacaccgGctacatctaccacagtgaca	7	17	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr19:54627995G>A	uc002qdh.2	+	8	1211	c.815G>A	c.(814-816)GGC>GAC	p.G272D	PRPF31_uc010yek.1_Missense_Mutation_p.G272D	NM_015629	NP_056444	Q8WWY3	PRP31_HUMAN	pre-mRNA processing factor 31 homolog	272	Nop.				assembly of spliceosomal tri-snRNP	Cajal body|MLL1 complex|nuclear speck|U4 snRNP|U4/U6 x U5 tri-snRNP complex|U4atac snRNP	RNA binding|snRNP binding			ovary(1)	1	all_cancers(19;0.00681)|all_epithelial(19;0.00362)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CCCCACACCGGCTACATCTAC	0.662													3	46	---	---	---	---	PASS	A	54627995	A	A	54627995	3	1	127	1	0	0	0	0	1	0	0	0	12566	1203	42	3	841	3	PRPF31	19	54627995	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	4462539	54627995	4500988	172	46110										
NLRP8	126205	broad.mit.edu	37	chr19	56481994	56481994	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gggcatctaaagactctcatActaagaaaaaactccctgga	7	10	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr19:56481994A>C	uc002qmh.2	+	6	2537	c.2466A>C	c.(2464-2466)ATA>ATC	p.I822I	NLRP8_uc010etg.2_Silent_p.I822I	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	822	LRR 2.					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)		AGACTCTCATACTAAGAAAAA	0.488													30	301	---	---	---	---	PASS	C	56481994	C	C	56481994	2	2	127	1	0	0	0	0	0	0	0	1	10483	381	14	5		5	NLRP8	19	56481994	Silent	SNP	A	TCGA-60-2715-01A-01D-1522-08	1853999	56481994	2646989	173	46111										
SNPH	9751	broad.mit.edu	37	chr20	1285887	1285887	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gagtgacccggctgtctgtgGtgaccgccagccgggtgatc	16	12	1	3			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr20:1285887G>C	uc002wes.2	+	6	910	c.674G>C	c.(673-675)GGT>GCT	p.G225A	SNPH_uc002wet.2_Missense_Mutation_p.G269A	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	225					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						GCTGTCTGTGGTGACCGCCAG	0.677													4	40	---	---	---	---	PASS	C	1285887	C	C	1285887	3	2	127	1	0	0	0	0	1	0	0	0	14850	1261	44	4	688	4	SNPH	20	1285887	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08		1285887	61739633	174	46112										
SLC4A11	83959	broad.mit.edu	37	chr20	3209565	3209565	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gcggggagtgggggtaggcgGcatggatccaaggcagccca	20	9	0	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr20:3209565G>A	uc002wig.2	-	16	2207	c.2159C>T	c.(2158-2160)GCC>GTC	p.A720V	SLC4A11_uc010zqe.1_Missense_Mutation_p.A747V|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.A704V	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	720	Helical; (Potential).|Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						GGGGTAGGCGGCATGGATCCA	0.617													4	76	---	---	---	---	PASS	A	3209565	A	A	3209565	3	1	127	1	0	0	0	0	1	0	0	0	14652	1203	42	3	532	3	SLC4A11	20	3209565	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	1923678	3209565	59815955	175	46113										
C20orf72	92667	broad.mit.edu	37	chr20	17956459	17956459	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tgtccagcatattctgaaagAtgtcagtggagtgcgagctc	12	8	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr20:17956459A>C	uc002wqh.2	+	3	726	c.644A>C	c.(643-645)GAT>GCT	p.D215A	C20orf72_uc010gco.2_Intron|C20orf72_uc010gcp.2_RNA	NM_052865	NP_443097	Q9BQP7	CT072_HUMAN	hypothetical protein LOC92667	215											0						ATTCTGAAAGATGTCAGTGGA	0.418													4	162	---	---	---	---	PASS	C	17956459	C	C	17956459	3	2	127	1	0	0	0	0	1	0	0	0	2118	333	12	5	650	5	C20orf72	20	17956459	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	14746894	17956459	45069061	176	46114										
CST4	1472	broad.mit.edu	37	chr20	23666549	23666549	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ccctaggcttcttgacacctGgaattcaccagggacattct	8	13	3	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr20:23666549G>C	uc002wto.1	-	3	464	c.408C>G	c.(406-408)TCC>TCG	p.S136S		NM_001899	NP_001890	P01036	CYTS_HUMAN	cystatin S precursor	136						extracellular region	cysteine-type endopeptidase inhibitor activity			breast(1)	1	Lung NSC(19;0.0789)|Colorectal(13;0.0993)|all_lung(19;0.169)					CTTGACACCTGGAATTCACCA	0.577													4	93	---	---	---	---	PASS	C	23666549	C	C	23666549	2	2	127	1	0	0	0	0	0	0	0	1	3974	1335	47	4		4	CST4	20	23666549	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	5710090	23666549	39358971	177	46115										
ZNF337	26152	broad.mit.edu	37	chr20	25656918	25656918	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gtgtattctcttgtgcacaaCgaagtatgacttattagtat	8	6	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr20:25656918C>G	uc002wva.2	-	4	1528	c.1006G>C	c.(1006-1008)GTT>CTT	p.V336L	uc002wuz.2_RNA|ZNF337_uc010ztg.1_Missense_Mutation_p.V304L|ZNF337_uc002wvb.2_Missense_Mutation_p.V336L|ZNF337_uc002wvc.2_Missense_Mutation_p.V336L	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	336	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTGTGCACAACGAAGTATGAC	0.483													5	174	---	---	---	---	PASS	G	25656918	G	G	25656918	3	3	127	1	0	0	0	0	1	0	0	0	17850	536	19	4	1253	4	ZNF337	20	25656918	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	1990369	25656918	37368602	178	46116										
NCOA6	23054	broad.mit.edu	37	chr20	33345834	33345834	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	acaggctgcattgggtgatgTgggggagctaaagatcctga	16	6	0	3	rs957277		TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr20:33345834T>A	uc002xav.2	-	8	3288	c.717A>T	c.(715-717)CCA>CCT	p.P239P	NCOA6_uc002xaw.2_Silent_p.P239P|NCOA6_uc010gew.1_Silent_p.P196P	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	239	TBP/GTF2A-binding region.|NCOA1-binding region.|Gln-rich.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						TTGGGTGATGTGGGGGAGCTA	0.363													7	96	---	---	---	---	PASS	A	33345834	A	A	33345834	2	1	127	1	0	0	0	0	0	0	0	1	10233	1683	59	5		5	NCOA6	20	33345834	Silent	SNP	T	TCGA-60-2715-01A-01D-1522-08	7688916	33345834	29679686	179	46117										
GGT7	2686	broad.mit.edu	37	chr20	33450711	33450711	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tccctgtttactgagcacctCgatgcccagtgaagtgcagc	10	13	0	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr20:33450711C>A	uc002xay.2	-	3	506	c.463G>T	c.(463-465)GAG>TAG	p.E155*	GGT7_uc002xaz.1_Nonsense_Mutation_p.E172*|GGT7_uc002xba.1_Nonsense_Mutation_p.E155*	NM_178026	NP_821158	Q9UJ14	GGT7_HUMAN	gamma-glutamyltransferase 7	155	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(1)	1						CTGAGCACCTCGATGCCCAGT	0.617													9	48	---	---	---	---	PASS	A	33450711	A	A	33450711	4	1	127	1	0	0	0	0	0	1	0	0	6364	893	31	2	1577	2	GGT7	20	33450711	Nonsense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	104877	33450711	29574809	180	46118										
VSTM2L	128434	broad.mit.edu	37	chr20	36560111	36560111	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	agatggcctgctccttccgcGgcagcggctccccctcctac	10	19	0	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr20:36560111G>A	uc002xhk.3	+	2	450	c.196G>A	c.(196-198)GGC>AGC	p.G66S		NM_080607	NP_542174	Q96N03	VTM2L_HUMAN	V-set and transmembrane domain containing 2 like	66	Ig-like.									ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.00878)				CTCCTTCCGCGGCAGCGGCTC	0.622													30	178	---	---	---	---	PASS	A	36560111	A	A	36560111	3	1	127	1	0	0	0	0	1	0	0	0	17227	1116	39	1	202	1	VSTM2L	20	36560111	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	3109400	36560111	26465409	181	46119										
CBLN4	140689	broad.mit.edu	37	chr20	54573676	54573676	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cagcctccaaccaaattaccTttctccagttttaggtaaac	4	13	1	0			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr20:54573676T>A	uc002xxa.2	-	3	1328	c.543A>T	c.(541-543)AAA>AAT	p.K181N		NM_080617	NP_542184	Q9NTU7	CBLN4_HUMAN	cerebellin 4 precursor	181	C1q.					cell junction|extracellular region|synapse				ovary(3)|pancreas(1)	4			Colorectal(105;0.202)			CCAAATTACCTTTCTCCAGTT	0.468													7	165	---	---	---	---	PASS	A	54573676	A	A	54573676	3	1	127	1	0	0	0	0	1	0	0	0	2707	1606	56	5	66	5	CBLN4	20	54573676	Missense_Mutation	SNP	T	TCGA-60-2715-01A-01D-1522-08	18013565	54573676	8451844	182	46120										
C20orf108	116151	broad.mit.edu	37	chr20	54941160	54941160	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cctgcaatcctgctgaaactCggatttaaagagtccctggt	9	11	0	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr20:54941160C>T	uc002xxc.2	+	3	475	c.396C>T	c.(394-396)CTC>CTT	p.L132L		NM_080821	NP_543011	Q96KR6	CT108_HUMAN	hypothetical protein LOC116151	132	DUF1279.					integral to membrane					0			Colorectal(105;0.202)			TGCTGAAACTCGGATTTAAAG	0.453													8	115	---	---	---	---	PASS	T	54941160	T	T	54941160	2	4	127	1	0	0	0	0	0	0	0	1	2078	871	31	2		2	C20orf108	20	54941160	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	367484	54941160	8084360	183	46121										
GAB4	128954	broad.mit.edu	37	chr22	17443716	17443716	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gcctgggtcttctccagatcCacctggacatagtccacctt	8	15	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr22:17443716C>T	uc002zlw.2	-	10	1740	c.1632G>A	c.(1630-1632)GTG>GTA	p.V544V		NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	544										large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				TCTCCAGATCCACCTGGACAT	0.607													7	95	---	---	---	---	PASS	T	17443716	T	T	17443716	2	4	127	1	0	0	0	0	0	0	0	1	6151	581	21	3		3	GAB4	22	17443716	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08		17443716	33860850	184	46122										
CRYBB1	1414	broad.mit.edu	37	chr22	26997948	26997948	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tggtgttgcccttgaagttgGccccttcaaacagggagatt	12	9	1	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr22:26997948G>T	uc003acy.1	-	5	540	c.470C>A	c.(469-471)GCC>GAC	p.A157D		NM_001887	NP_001878	P53674	CRBB1_HUMAN	crystallin, beta B1	157	Beta/gamma crystallin 'Greek key' 3.				visual perception		structural constituent of eye lens			ovary(1)	1						CTTGAAGTTGGCCCCTTCAAA	0.557													21	111	---	---	---	---	PASS	T	26997948	T	T	26997948	3	4	127	1	0	0	0	0	1	0	0	0	3910	1203	42	3	296	3	CRYBB1	22	26997948	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	9554232	26997948	24306618	185	46123										
CARD10	29775	broad.mit.edu	37	chr22	37888691	37888691	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	tccagccgggagctgggcagGtctagcaggttacggatgag	17	9	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr22:37888691G>T	uc003asx.1	-	17	2598	c.2595C>A	c.(2593-2595)GAC>GAA	p.D865E	CARD10_uc003ast.1_RNA|CARD10_uc003asu.1_5'Flank|CARD10_uc003asv.1_5'UTR|CARD10_uc011ank.1_Missense_Mutation_p.D183E|CARD10_uc003asw.1_Missense_Mutation_p.D579E|CARD10_uc003asy.1_Missense_Mutation_p.D865E	NM_014550	NP_055365	Q9BWT7	CAR10_HUMAN	caspase recruitment domain protein 10	865					activation of NF-kappaB-inducing kinase activity|protein complex assembly|regulation of apoptosis	CBM complex	receptor signaling complex scaffold activity			upper_aerodigestive_tract(1)|lung(1)|breast(1)|ovary(1)|prostate(1)|kidney(1)	6	Melanoma(58;0.0574)					AGCTGGGCAGGTCTAGCAGGT	0.687													4	32	---	---	---	---	PASS	T	37888691	T	T	37888691	3	4	127	1	0	0	0	0	1	0	0	0	2644	1252	44	3	519	3	CARD10	22	37888691	Missense_Mutation	SNP	G	TCGA-60-2715-01A-01D-1522-08	10890743	37888691	13415875	186	46124										
TRIOBP	11078	broad.mit.edu	37	chr22	38122102	38122102	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cttctcatccccaccacgccAggctcctgagccatccctct	5	21	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr22:38122102A>G	uc003atr.2	+	7	3810	c.3539A>G	c.(3538-3540)CAG>CGG	p.Q1180R	TRIOBP_uc003atu.2_Missense_Mutation_p.Q1008R|TRIOBP_uc003atq.1_Missense_Mutation_p.Q1180R|TRIOBP_uc003ats.1_Missense_Mutation_p.Q1008R	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1180					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CCACCACGCCAGGCTCCTGAG	0.622													15	141	---	---	---	---	PASS	G	38122102	G	G	38122102	3	3	127	1	0	0	0	0	1	0	0	0	16550	188	7	5	3557	5	TRIOBP	22	38122102	Missense_Mutation	SNP	A	TCGA-60-2715-01A-01D-1522-08	233411	38122102	13182464	187	46125										
GTPBP1	9567	broad.mit.edu	37	chr22	39122020	39122020	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cctctgcttaggatgtgcccGatattccagatctccaacgt	8	13	2	1	rs146011021		TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr22:39122020G>T	uc003awg.2	+	7	1237	c.1083G>T	c.(1081-1083)CCG>CCT	p.P361P		NM_004286	NP_004277	O00178	GTPB1_HUMAN	GTP binding protein 1	361					immune response|positive regulation of mRNA catabolic process|signal transduction	cytoplasmic exosome (RNase complex)|cytosol	GTP binding|GTPase activity			ovary(1)	1	Melanoma(58;0.04)					GGATGTGCCCGATATTCCAGA	0.572													27	250	---	---	---	---	PASS	T	39122020	T	T	39122020	2	4	127	1	0	0	0	0	0	0	0	1	6878	1045	37	2		2	GTPBP1	22	39122020	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	999918	39122020	12182546	188	46126										
PNPLA5	150379	broad.mit.edu	37	chr22	44285398	44285398	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	gcaaagggcaagttgttgctCagagccccatcgatgtagcg	13	10	1	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chr22:44285398C>A	uc003beg.2	-	4	610	c.513G>T	c.(511-513)CTG>CTT	p.L171L	PNPLA5_uc011aqc.1_Intron|PNPLA5_uc003beh.2_Intron	NM_138814	NP_620169	Q7Z6Z6	PLPL5_HUMAN	patatin-like phospholipase domain containing 5	171	Patatin.				lipid catabolic process		hydrolase activity				0		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				AGTTGTTGCTCAGAGCCCCAT	0.637													14	221	---	---	---	---	PASS	A	44285398	A	A	44285398	2	1	127	1	0	0	0	0	0	0	0	1	12168	813	29	2		2	PNPLA5	22	44285398	Silent	SNP	C	TCGA-60-2715-01A-01D-1522-08	5163378	44285398	7019168	189	46127										
GSPT2	23708	broad.mit.edu	37	chrX	51487663	51487663	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	ggctgtgctggtcatctctgCcaggaaaggagagtttgaaa	14	7	2	2			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chrX:51487663C>A	uc004dpl.2	+	1	1167	c.941C>A	c.(940-942)GCC>GAC	p.A314D		NM_018094	NP_060564	Q8IYD1	ERF3B_HUMAN	peptide chain release factor 3	314					cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|translational termination	cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1	Ovarian(276;0.236)					GTCATCTCTGCCAGGAAAGGA	0.428													30	151	---	---	---	---	PASS	A	51487663	A	A	51487663	3	1	127	1	0	0	0	0	1	0	0	0	6827	739	26	3	943	3	GSPT2	23	51487663	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08		51487663	103782897	190	46128										
SPANXC	64663	broad.mit.edu	37	chrX	140336531	140336531	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	aatcttaccgtctcattcacCtcgttggattcacaggggac	8	12	4	0	rs145019855	byFrequency	TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chrX:140336531C>A	uc004fbk.2	-	1	116	c.60G>T	c.(58-60)GAG>GAT	p.E20D	SPANXC_uc004fbl.2_Intron	NM_022661	NP_073152	Q9NY87	SPNXC_HUMAN	sperm protein associated with the nucleus, X	20						cytoplasm|nucleus					0	Acute lymphoblastic leukemia(192;7.65e-05)					TCTCATTCACCTCGTTGGATT	0.294													19	139	---	---	---	---	PASS	A	140336531	A	A	140336531	3	1	127	1	0	0	0	0	1	0	0	0	14987	680	24	3	241	3	SPANXC	23	140336531	Missense_Mutation	SNP	C	TCGA-60-2715-01A-01D-1522-08	88848868	140336531	14934029	191	46129										
GABRA3	2556	broad.mit.edu	37	chrX	151336820	151336820	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0578947368421053	11	0.577736950843462	1.03454493688906	1.62359205406512	0.856895806312149	0.49076968674246	0.81842946137857	0	cgggaaattttgtcaaccttGctgacactgttgtaggtctt	10	8	2	1			TCGA-60-2715-01A-01D-1522-08	TCGA-60-2715-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8e05a30d-2177-45e0-90fd-8c5961268c39	61fa546c-6900-471c-b579-b62fa1f697b7	g.chrX:151336820G>A	uc010ntk.1	-	10	1599	c.1359C>T	c.(1357-1359)AGC>AGT	p.S453S		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	453	Cytoplasmic (Probable).				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(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TGTCAACCTTGCTGACACTGT	0.512													24	132	---	---	---	---	PASS	A	151336820	A	A	151336820	2	1	127	1	0	0	0	0	0	0	0	1	6162	1310	46	3		3	GABRA3	23	151336820	Silent	SNP	G	TCGA-60-2715-01A-01D-1522-08	11000289	151336820	3933740	192	46130										
TMEM51	55092	broad.mit.edu	37	chr1	15541865	15541865	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aagaggaagcagcggcagggCgaggacctggcccatgtcca	16	11	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:15541865C>T	uc001avw.3	+	3	801	c.282C>T	c.(280-282)GGC>GGT	p.G94G	TMEM51_uc010obk.1_Silent_p.G94G|TMEM51_uc001avz.2_Silent_p.G94G|TMEM51_uc001avy.2_Silent_p.G94G|TMEM51_uc001avx.2_Silent_p.G94G	NM_001136216	NP_001129688	Q9NW97	TMM51_HUMAN	transmembrane protein 51	94						integral to membrane					0		Renal(390;0.00145)|Breast(348;0.00186)|Colorectal(325;0.00215)|all_lung(284;0.00459)|Lung NSC(340;0.0104)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;2.07e-06)|COAD - Colon adenocarcinoma(227;7.14e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000175)|KIRC - Kidney renal clear cell carcinoma(229;0.00141)|STAD - Stomach adenocarcinoma(313;0.00644)|READ - Rectum adenocarcinoma(331;0.0751)		AGCGGCAGGGCGAGGACCTGG	0.652													15	17	---	---	---	---	PASS	T	15541865	T	T	15541865	2	4	128	1	0	0	0	0	0	0	0	1	16174	755	27	1		1	TMEM51	1	15541865	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08		15541865	233708756	1	46131										
UBR4	23352	broad.mit.edu	37	chr1	19454211	19454211	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggacttcattcagggcgctgCgctcattcttcttggagaca	11	11	5	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:19454211C>T	uc001bbi.2	-	63	9138	c.9134G>A	c.(9133-9135)CGC>CAC	p.R3045H	UBR4_uc001bbk.1_Missense_Mutation_p.R692H	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3045					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CAGGGCGCTGCGCTCATTCTT	0.478													6	155	---	---	---	---	PASS	T	19454211	T	T	19454211	3	4	128	1	0	0	0	0	1	0	0	0	16901	768	27	1	6593	1	UBR4	1	19454211	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	3912346	19454211	229796410	2	46132										
UBR4	23352	broad.mit.edu	37	chr1	19478225	19478225	+	Missense_Mutation	SNP	C	A	A													0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gagcgactcaggttgagctgCatagttctgccgaagatctc							TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:19478225C>A	uc001bbi.2	-	48	7129	c.7125G>T	c.(7123-7125)ATG>ATT	p.M2375I	UBR4_uc001bbk.1_Missense_Mutation_p.M29I|UBR4_uc001bbl.1_Missense_Mutation_p.M312I|UBR4_uc001bbm.1_Missense_Mutation_p.M1587I	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2375					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GGTTGAGCTGCATAGTTCTGC	0.507													71	113	---	---	---	---	PASS	A	19478225	A	A	19478225	3	1	128	1	0	0	0	0	1	0	0	0	16901	710	25	3	8662	3	UBR4	1	19478225	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	24014	19478225	229772396	3	46133	852	2								
UBR4	23352	broad.mit.edu	37	chr1	19478226	19478226	+	Missense_Mutation	SNP	A	T	T													0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	agcgactcaggttgagctgcAtagttctgccgaagatctcg							TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:19478226A>T	uc001bbi.2	-	48	7128	c.7124T>A	c.(7123-7125)ATG>AAG	p.M2375K	UBR4_uc001bbk.1_Missense_Mutation_p.M29K|UBR4_uc001bbl.1_Missense_Mutation_p.M312K|UBR4_uc001bbm.1_Missense_Mutation_p.M1587K	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2375					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GTTGAGCTGCATAGTTCTGCC	0.507													71	114	---	---	---	---	PASS	T	19478226	T	T	19478226	3	4	128	1	0	0	0	0	1	0	0	0	16901	217	8	5	8663	5	UBR4	1	19478226	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	1	19478226	229772395	4	46134	852	2								
KDM1A	23028	broad.mit.edu	37	chr1	23397826	23397826	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	agttcttagtgaaaagcaaaCacagggatctgaccgcccta	9	10	2	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:23397826C>G	uc001bgi.2	+	11	1599	c.1450C>G	c.(1450-1452)CAC>GAC	p.H484D	KDM1A_uc001bgj.2_Missense_Mutation_p.H508D	NM_015013	NP_055828	O60341	KDM1A_HUMAN	lysine-specific histone demethylase 1 isoform b	484	Potential.|Demethylase activity.				blood coagulation|muscle cell development|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of protein binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin	androgen receptor binding|chromatin binding|enzyme binding|flavin adenine dinucleotide binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-K9 specific)|ligand-dependent nuclear receptor transcription coactivator activity|MyoD binding|oxidoreductase activity|p53 binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2						GAAAAGCAAACACAGGGATCT	0.403													64	120	---	---	---	---	PASS	G	23397826	G	G	23397826	3	3	128	1	0	0	0	0	1	0	0	0	8122	478	17	4	1572	4	KDM1A	1	23397826	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	3919600	23397826	225852795	5	46135										
INADL	10207	broad.mit.edu	37	chr1	62483535	62483535	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ttttcccaaacagataaacaAtcagattctgtatggaagaa	6	7	2	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:62483535A>G	uc001dab.2	+	29	3989	c.3875A>G	c.(3874-3876)AAT>AGT	p.N1292S	INADL_uc009waf.1_Missense_Mutation_p.N1292S|INADL_uc001daa.2_Missense_Mutation_p.N1292S|INADL_uc001dad.3_Missense_Mutation_p.N989S|INADL_uc001dac.2_RNA|INADL_uc010oot.1_Missense_Mutation_p.N76S|INADL_uc009wag.2_Missense_Mutation_p.N76S|INADL_uc010oou.1_Intron	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1292	PDZ 7.				intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						CAGATAAACAATCAGATTCTG	0.333													64	103	---	---	---	---	PASS	G	62483535	G	G	62483535	3	3	128	1	0	0	0	0	1	0	0	0	7731	101	4	5	3985	5	INADL	1	62483535	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	39085709	62483535	186767086	6	46136										
LRRC7	57554	broad.mit.edu	37	chr1	70225900	70225900	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gcctggagatgaccaccaaaCggaaaatcatcggccgtctg	11	12	2	2	rs150507629		TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:70225900C>T	uc001dep.2	+	1	43	c.13C>T	c.(13-15)CGG>TGG	p.R5W	LRRC7_uc001deo.1_Missense_Mutation_p.R43W|LRRC7_uc009wbg.2_Translation_Start_Site	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	5						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GACCACCAAACGGAAAATCAT	0.438													9	63	---	---	---	---	PASS	T	70225900	T	T	70225900	3	4	128	1	0	0	0	0	1	0	0	0	9020	527	19	1	15	1	LRRC7	1	70225900	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	7742365	70225900	179024721	7	46137										
SFRS11	9295	broad.mit.edu	37	chr1	70716350	70716350	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gacagtgagaaagagaaaaaAgaagagaagaaaccaataga	11	3	0	6			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:70716350A>G	uc001des.2	+	13	1441	c.1317A>G	c.(1315-1317)AAA>AAG	p.K439K	SFRS11_uc001det.2_Silent_p.K438K|SFRS11_uc001dev.2_Silent_p.K249K|SFRS11_uc001dew.2_Silent_p.K379K	NM_004768	NP_004759	Q05519	SRS11_HUMAN	splicing factor, arginine/serine-rich 11	439					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0						AAGAGAAAAAAGAAGAGAAGA	0.393													21	49	---	---	---	---	PASS	G	70716350	G	G	70716350	2	3	128	1	0	0	0	0	0	0	0	1	14166	69	3	5		5	SFRS11	1	70716350	Silent	SNP	A	TCGA-60-2719-01A-01D-1522-08	490450	70716350	178534271	8	46138										
ZNF644	84146	broad.mit.edu	37	chr1	91405548	91405548	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	attgcgatctcgaaatgtccGtccacattctctacaagcat	6	12	2	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:91405548G>A	uc001dnw.2	-	3	1505	c.1363C>T	c.(1363-1365)CGG>TGG	p.R455W	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.R455W	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	455	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		CGAAATGTCCGTCCACATTCT	0.403													10	231	---	---	---	---	PASS	A	91405548	A	A	91405548	3	1	128	1	0	0	0	0	1	0	0	0	18057	1144	40	1	2636	1	ZNF644	1	91405548	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	20689198	91405548	157845073	9	46139										
ARHGAP29	9411	broad.mit.edu	37	chr1	94685819	94685819	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ctatatcttccttacctttcActtttgcagtgagcatttct	4	11	3	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:94685819A>G	uc001dqj.3	-	3	704	c.335T>C	c.(334-336)GTG>GCG	p.V112A	ARHGAP29_uc009wdq.1_RNA|ARHGAP29_uc001dql.2_Missense_Mutation_p.V112A	NM_004815	NP_004806	Q52LW3	RHG29_HUMAN	PTPL1-associated RhoGAP 1	112					Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|upper_aerodigestive_tract(1)|ovary(1)	11		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		CTTACCTTTCACTTTTGCAGT	0.368													107	152	---	---	---	---	PASS	G	94685819	G	G	94685819	3	3	128	1	0	0	0	0	1	0	0	0	878	159	6	5	3534	5	ARHGAP29	1	94685819	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	3280271	94685819	154564802	10	46140										
COL11A1	1301	broad.mit.edu	37	chr1	103474062	103474062	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cacctttggccccagatgaaCcaggccccccctatagagaa	8	16	0	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:103474062C>A	uc001dul.2	-	15	1958	c.1640G>T	c.(1639-1641)GGT>GTT	p.G547V	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Missense_Mutation_p.G559V|COL11A1_uc001dun.2_Missense_Mutation_p.G508V|COL11A1_uc009weh.2_Missense_Mutation_p.G431V	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	547	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCCAGATGAACCAGGCCCCCC	0.299													58	56	---	---	---	---	PASS	A	103474062	A	A	103474062	3	1	128	1	0	0	0	0	1	0	0	0	3667	507	18	3	3992	3	COL11A1	1	103474062	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	8788243	103474062	145776559	11	46141										
RSBN1	54665	broad.mit.edu	37	chr1	114354481	114354481	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gccgctccttgtggcccttaTgcttgggcccggccgcgctc	13	17	0	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:114354481T>C	uc001edq.2	-	1	590	c.554A>G	c.(553-555)CAT>CGT	p.H185R	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	185	His-rich.					nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTGGCCCTTATGCTTGGGCCC	0.682													19	26	---	---	---	---	PASS	C	114354481	C	C	114354481	3	2	128	1	0	0	0	0	1	0	0	0	13696	1464	51	5	1882	5	RSBN1	1	114354481	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	10880419	114354481	134896140	12	46142										
IGSF3	3321	broad.mit.edu	37	chr1	117150571	117150571	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tctctctacttactgaggggGaggactatgatggggatgtt	14	6	2	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:117150571G>T	uc001egr.1	-	5	1920	c.1215C>A	c.(1213-1215)CTC>CTA	p.L405L	IGSF3_uc001egq.1_Silent_p.L405L|IGSF3_uc001egs.1_Silent_p.L78L	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	405	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		TACTGAGGGGGAGGACTATGA	0.517													15	192	---	---	---	---	PASS	T	117150571	T	T	117150571	2	4	128	1	0	0	0	0	0	0	0	1	7601	1161	41	2		2	IGSF3	1	117150571	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	2796090	117150571	132100050	13	46143										
HORMAD1	84072	broad.mit.edu	37	chr1	150680777	150680777	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggtcaaacaaacatcattagGtaaaggccccagattttgca	8	9	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:150680777G>T	uc001evk.1	-	9	608	c.502C>A	c.(502-504)CCT>ACT	p.P168T	HORMAD1_uc001evl.1_Missense_Mutation_p.P161T|HORMAD1_uc001evm.1_Missense_Mutation_p.P88T	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	168	HORMA.				blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			ACATCATTAGGTAAAGGCCCC	0.353													8	103	---	---	---	---	PASS	T	150680777	T	T	150680777	3	4	128	1	0	0	0	0	1	0	0	0	7286	1261	44	3	710	3	HORMAD1	1	150680777	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	33530206	150680777	98569844	14	46144										
SEMA6C	10500	broad.mit.edu	37	chr1	151109537	151109537	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gtttacatactcgggctacgCgggagaactgcacctagggg	14	10	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:151109537C>A	uc001ewu.2	-	11	1070	c.770G>T	c.(769-771)CGC>CTC	p.R257L	SEMA6C_uc001ewv.2_Missense_Mutation_p.R257L|SEMA6C_uc001eww.2_Missense_Mutation_p.R217L|SEMA6C_uc010pcq.1_Missense_Mutation_p.R257L|SEMA6C_uc009wml.1_RNA	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	257	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			TCGGGCTACGCGGGAGAACTG	0.582													31	103	---	---	---	---	PASS	A	151109537	A	A	151109537	3	1	128	1	0	0	0	0	1	0	0	0	14041	768	27	1	2158	1	SEMA6C	1	151109537	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	428760	151109537	98141084	15	46145										
HSD17B7	51478	broad.mit.edu	37	chr1	162774108	162774108	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	caccatataatggaacagaaGctctggtatgttactgaagt	9	7	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:162774108G>A	uc001gci.2	+	7	894	c.799G>A	c.(799-801)GCT>ACT	p.A267T	HSD17B7_uc009wuv.2_RNA	NM_016371	NP_057455	P56937	DHB7_HUMAN	hydroxysteroid (17-beta) dehydrogenase 7	267	Cytoplasmic (Potential).				cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	3-keto sterol reductase activity|estradiol 17-beta-dehydrogenase activity			ovary(1)	1	all_hematologic(112;0.115)				NADH(DB00157)	TGGAACAGAAGCTCTGGTATG	0.333													36	60	---	---	---	---	PASS	A	162774108	A	A	162774108	3	1	128	1	0	0	0	0	1	0	0	0	7388	971	34	3	825	3	HSD17B7	1	162774108	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	11664571	162774108	86476513	16	46146										
DUSP27	92235	broad.mit.edu	37	chr1	167097199	167097199	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gtggctcagtggcctcaggaCggaggaaaaacctcctttcc	12	12	2	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:167097199C>A	uc001geb.1	+	5	2831	c.2831C>A	c.(2830-2832)ACG>AAG	p.T944K		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	944	Ser-rich.				protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						GGCCTCAGGACGGAGGAAAAA	0.507													9	36	---	---	---	---	PASS	A	167097199	A	A	167097199	3	1	128	1	0	0	0	0	1	0	0	0	4824	536	19	1	2849	1	DUSP27	1	167097199	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	4323091	167097199	82153422	17	46147										
C1orf25	81627	broad.mit.edu	37	chr1	185125643	185125643	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ctcaggggcagaggctagggAcggggacagggccggagcct	20	10	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:185125643A>C	uc001grf.3	-	1	474	c.202T>G	c.(202-204)TCC>GCC	p.S68A	C1orf26_uc001grg.3_5'Flank|C1orf26_uc001grh.3_5'Flank|C1orf25_uc010pon.1_Intron	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	68						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						gaggctagggacggggacagg	0.219													24	23	---	---	---	---	PASS	C	185125643	C	C	185125643	3	2	128	1	0	0	0	0	1	0	0	0	2034	275	10	5	2059	5	C1orf25	1	185125643	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	18028444	185125643	64124978	18	46148										
C1orf26	54823	broad.mit.edu	37	chr1	185153960	185153960	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggaaaactactaaaacgtgcCcagcacaaagctatacctgc	7	12	0	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:185153960C>G	uc001grg.3	+	9	1440	c.1326C>G	c.(1324-1326)GCC>GCG	p.A442A	C1orf26_uc001grh.3_Silent_p.A442A	NM_001105518	NP_001098988	Q5T5J6	SWT1_HUMAN	hypothetical protein LOC54823	442	PINc.										0						TAAAACGTGCCCAGCACAAAG	0.378													71	84	---	---	---	---	PASS	G	185153960	G	G	185153960	2	3	128	1	0	0	0	0	0	0	0	1	2035	610	22	4		4	C1orf26	1	185153960	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	28317	185153960	64096661	19	46149										
NAV1	89796	broad.mit.edu	37	chr1	201752839	201752839	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gcacaggagcatggagtcccTccagatgccaatgagcctcc	11	14	0	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:201752839T>A	uc001gwu.2	+	7	3010	c.2663T>A	c.(2662-2664)CTC>CAC	p.L888H	NAV1_uc001gwv.1_Missense_Mutation_p.L396H|NAV1_uc001gww.1_Missense_Mutation_p.L497H|NAV1_uc001gwx.2_Missense_Mutation_p.L497H|NAV1_uc001gwy.1_Missense_Mutation_p.L269H	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	888					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						ATGGAGTCCCTCCAGATGCCA	0.602													26	90	---	---	---	---	PASS	A	201752839	A	A	201752839	3	1	128	1	0	0	0	0	1	0	0	0	10183	1551	54	5	2746	5	NAV1	1	201752839	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	16598879	201752839	47497782	20	46150										
CR2	1380	broad.mit.edu	37	chr1	207646387	207646387	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tgcaaatggatacaagatatCtggcaaggaagccccatatt	9	8	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:207646387C>T	uc001hfw.2	+	10	1935	c.1841C>T	c.(1840-1842)TCT>TTT	p.S614F	CR2_uc001hfv.2_Missense_Mutation_p.S614F|CR2_uc009xch.2_Missense_Mutation_p.S614F|CR2_uc009xci.1_Missense_Mutation_p.S99F	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	614	Sushi 10.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TACAAGATATCTGGCAAGGAA	0.453													34	108	---	---	---	---	PASS	T	207646387	T	T	207646387	3	4	128	1	0	0	0	0	1	0	0	0	3842	913	32	2	1879	2	CR2	1	207646387	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	5893548	207646387	41604234	21	46151										
LIN9	286826	broad.mit.edu	37	chr1	226475435	226475435	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aggaagcttgagcagattacGtaatcgaaaaccaatcttct	8	8	2	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:226475435G>A	uc001hqa.2	-	5	686	c.376C>T	c.(376-378)CGT>TGT	p.R126C	LIN9_uc001hqb.2_Missense_Mutation_p.R91C|LIN9_uc001hqc.2_Missense_Mutation_p.R58C|LIN9_uc009xel.1_Missense_Mutation_p.R91C	NM_173083	NP_775106	Q5TKA1	LIN9_HUMAN	lin-9 homolog	110	Sufficient for interaction with RB1.				cell cycle|DNA replication	nucleoplasm					0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.131)		AGCAGATTACGTAATCGAAAA	0.303													99	123	---	---	---	---	PASS	A	226475435	A	A	226475435	3	1	128	1	0	0	0	0	1	0	0	0	8813	1145	40	1	1344	1	LIN9	1	226475435	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	18829048	226475435	22775186	22	46152										
OBSCN	84033	broad.mit.edu	37	chr1	228495859	228495859	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tggttgatgcggaggtgacgGccgatgaggatgttgagttc	18	5	0	4			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:228495859G>A	uc009xez.1	+	47	12558	c.12514G>A	c.(12514-12516)GCC>ACC	p.A4172T	OBSCN_uc001hsn.2_Missense_Mutation_p.A4172T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4172	Ig-like 43.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGAGGTGACGGCCGATGAGGA	0.597													20	64	---	---	---	---	PASS	A	228495859	A	A	228495859	3	1	128	1	0	0	0	0	1	0	0	0	10812	1203	42	3	12696	3	OBSCN	1	228495859	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	2020424	228495859	20754762	23	46153										
NLRP3	114548	broad.mit.edu	37	chr1	247588143	247588143	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cacggcctctgcgcccacctCtgggggctctgctctttggc	12	17	4	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:247588143C>A	uc001icr.2	+	5	1536	c.1398C>A	c.(1396-1398)CTC>CTA	p.L466L	NLRP3_uc001ics.2_Silent_p.L466L|NLRP3_uc001icu.2_Silent_p.L466L|NLRP3_uc001icw.2_Silent_p.L466L|NLRP3_uc001icv.2_Silent_p.L466L|NLRP3_uc010pyw.1_Silent_p.L464L|NLRP3_uc001ict.1_Silent_p.L464L	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	466	NACHT.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			GCGCCCACCTCTGGGGGCTCT	0.592													11	37	---	---	---	---	PASS	A	247588143	A	A	247588143	2	1	128	1	0	0	0	0	0	0	0	1	10478	900	32	2		2	NLRP3	1	247588143	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	19092284	247588143	1662478	24	46154										
OR2T10	127069	broad.mit.edu	37	chr1	248756875	248756875	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gtcaagtctatgagtgagagCtggtttataaagaagtacat	11	4	2	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr1:248756875C>G	uc010pzn.1	-	1	195	c.195G>C	c.(193-195)CAG>CAC	p.Q65H		NM_001004693	NP_001004693	Q8NGZ9	O2T10_HUMAN	olfactory receptor, family 2, subfamily T,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGAGTGAGAGCTGGTTTATAA	0.428													33	46	---	---	---	---	PASS	G	248756875	G	G	248756875	3	3	128	1	0	0	0	0	1	0	0	0	11017	796	28	4	746	4	OR2T10	1	248756875	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	1168732	248756875	493746	25	46155										
SH3YL1	26751	broad.mit.edu	37	chr2	229996	229996	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	agagttcagctggactggtgCagatgactgctgtggtcttg	15	7	2	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:229996C>A	uc002qvx.2	-	8	835	c.751G>T	c.(751-753)GCA>TCA	p.A251S	SH3YL1_uc002qvy.2_Missense_Mutation_p.A251S|SH3YL1_uc002qvz.2_RNA|SH3YL1_uc002qwa.2_RNA|SH3YL1_uc010ewe.2_Missense_Mutation_p.A155S|SH3YL1_uc002qvu.2_RNA|SH3YL1_uc002qvv.2_Missense_Mutation_p.A155S|SH3YL1_uc002qvw.2_RNA	NM_015677	NP_056492	Q96HL8	SH3Y1_HUMAN	SH3 domain containing, Ysc84-like 1 isoform 1	251										ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.034)		all cancers(51;0.000647)|Epithelial(75;0.0043)|OV - Ovarian serous cystadenocarcinoma(76;0.00871)|GBM - Glioblastoma multiforme(21;0.148)		TGGACTGGTGCAGATGACTGC	0.313													41	61	---	---	---	---	PASS	A	229996	A	A	229996	3	1	128	1	0	0	0	0	1	0	0	0	14263	710	25	3	289	3	SH3YL1	2	229996	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08		229996	242969377	26	46156										
KIDINS220	57498	broad.mit.edu	37	chr2	8938353	8938353	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tttgtgcatatttcagtgtcAggattgcactgtaagatatc	9	6	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:8938353A>C	uc002qzc.2	-	10	1160	c.978T>G	c.(976-978)CCT>CCG	p.P326P	KIDINS220_uc010yiv.1_Silent_p.P92P|KIDINS220_uc002qzd.2_Silent_p.P284P|KIDINS220_uc010yiw.1_Silent_p.P327P	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	326	Cytoplasmic (Potential).|ANK 10.				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TTTCAGTGTCAGGATTGCACT	0.343													45	75	---	---	---	---	PASS	C	8938353	C	C	8938353	2	2	128	1	0	0	0	0	0	0	0	1	8271	175	7	5		5	KIDINS220	2	8938353	Silent	SNP	A	TCGA-60-2719-01A-01D-1522-08	8708357	8938353	234261020	27	46157										
GCKR	2646	broad.mit.edu	37	chr2	27720154	27720154	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gccaatcacggagaagtcaaAcccactgacccaggatctag	9	13	3	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:27720154A>C	uc002rky.2	+	2	170	c.104A>C	c.(103-105)AAC>ACC	p.N35T	FNDC4_uc002rkx.2_5'Flank|GCKR_uc010ezd.2_Missense_Mutation_p.N35T|GCKR_uc010ylu.1_5'UTR	NM_001486	NP_001477	Q14397	GCKR_HUMAN	glucokinase regulatory protein	35					carbohydrate metabolic process|glucose transport|negative regulation of glucokinase activity|positive regulation of gene expression|protein import into nucleus, translocation|regulation of glucose transport|response to fructose stimulus|transmembrane transport|triglyceride homeostasis|urate metabolic process	cytosol|nucleoplasm	fructose-6-phosphate binding|protein binding			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)					GAGAAGTCAAACCCACTGACC	0.537													8	174	---	---	---	---	PASS	C	27720154	C	C	27720154	3	2	128	1	0	0	0	0	1	0	0	0	6294	43	2	5	110	5	GCKR	2	27720154	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	18781801	27720154	215479219	28	46158										
SPDYA	245711	broad.mit.edu	37	chr2	29045243	29045243	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gagggctaaatttactataaGtgagcataccaggataaatt	9	5	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:29045243G>T	uc002rmj.2	+	5	553	c.347G>T	c.(346-348)AGT>ATT	p.S116I	SPDYA_uc002rmi.2_Missense_Mutation_p.S116I|SPDYA_uc002rmk.2_Missense_Mutation_p.S116I|SPDYA_uc002rml.2_Missense_Mutation_p.S116I	NM_182756	NP_877433	Q5MJ70	SPDYA_HUMAN	speedy homolog A isoform 1	116	Speedy/Ringo box; Required for CDK- binding (By similarity).				G1/S transition of mitotic cell cycle|multicellular organismal development|positive regulation of cell proliferation|response to DNA damage stimulus	nucleus	protein kinase binding			upper_aerodigestive_tract(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					TTTACTATAAGTGAGCATACC	0.254													25	34	---	---	---	---	PASS	T	29045243	T	T	29045243	3	4	128	1	0	0	0	0	1	0	0	0	15026	1029	36	3	357	3	SPDYA	2	29045243	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	1325089	29045243	214154130	29	46159										
EML4	27436	broad.mit.edu	37	chr2	42472648	42472648	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tttattttattttatagatgAtagtatttctgctgcaagta	6	3	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:42472648A>G	uc002rsi.2	+	2	291	c.29A>G	c.(28-30)GAT>GGT	p.D10G	EML4_uc002rsh.3_Missense_Mutation_p.D10G|EML4_uc010fap.2_Missense_Mutation_p.D10G	NM_019063	NP_061936	Q9HC35	EMAL4_HUMAN	echinoderm microtubule associated protein like 4	10					microtubule-based process|mitosis	cytoplasm|microtubule	protein binding		EML4/ALK(246)	lung(246)|ovary(2)|central_nervous_system(1)|skin(1)	250						TTTATAGATGATAGTATTTCT	0.338			T	ALK	NSCLC								19	18	---	---	---	---	PASS	G	42472648	G	G	42472648	3	3	128	1	0	0	0	0	1	0	0	0	5099	333	12	5	35	5	EML4	2	42472648	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	13427405	42472648	200726725	30	46160										
FBXO11	80204	broad.mit.edu	37	chr2	48035532	48035532	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cttaatgcagttcacacataTggcatttcgatctgtggtgt	9	8	2	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:48035532T>C	uc010fbl.2	-	22	2452	c.2338A>G	c.(2338-2340)ATA>GTA	p.I780V	FBXO11_uc002rwe.2_Missense_Mutation_p.I780V|FBXO11_uc010fbk.2_Missense_Mutation_p.I288V	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	864	UBR-type.				ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding	p.I780V(1)		ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TTCACACATATGGCATTTCGA	0.338													77	145	---	---	---	---	PASS	C	48035532	C	C	48035532	3	2	128	1	0	0	0	0	1	0	0	0	5727	1464	51	5	201	5	FBXO11	2	48035532	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	5562884	48035532	195163841	31	46161										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48873991	48873991	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aaattctaatgtggagtcagTgctcagtggttcagctagca	11	7	4	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:48873991T>A	uc010yol.1	+	5	2806	c.2759T>A	c.(2758-2760)GTG>GAG	p.V920E	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.V967E|GTF2A1L_uc002rws.1_Missense_Mutation_p.V263E|GTF2A1L_uc010yom.1_Missense_Mutation_p.V229E|GTF2A1L_uc002rwt.2_Missense_Mutation_p.V263E	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	920					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GTGGAGTCAGTGCTCAGTGGT	0.463													62	96	---	---	---	---	PASS	A	48873991	A	A	48873991	3	1	128	1	0	0	0	0	1	0	0	0	15316	1696	59	5	2926	5	STON1-GTF2A1L	2	48873991	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	838459	48873991	194325382	32	46162										
CCDC85A	114800	broad.mit.edu	37	chr2	56420458	56420458	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggagccctgatcacaaacacGgaggaggcagtggaggaagt	16	8	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:56420458G>A	uc002rzn.2	+	2	1625	c.1123G>A	c.(1123-1125)GGA>AGA	p.G375R		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	375										breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TCACAAACACGGAGGAGGCAG	0.642													15	19	---	---	---	---	PASS	A	56420458	A	A	56420458	3	1	128	1	0	0	0	0	1	0	0	0	2859	1117	39	1	1129	1	CCDC85A	2	56420458	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	7546467	56420458	186778915	33	46163										
CTNNA2	1496	broad.mit.edu	37	chr2	80096990	80096990	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atgctacaaatgagcaagacCttgcaaaccgttttaaagag	8	8	0	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:80096990C>A	uc010ysh.1	+	4	519	c.514C>A	c.(514-516)CTT>ATT	p.L172I	CTNNA2_uc010yse.1_Missense_Mutation_p.L172I|CTNNA2_uc010ysf.1_Missense_Mutation_p.L172I|CTNNA2_uc010ysg.1_Missense_Mutation_p.L172I	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	172					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TGAGCAAGACCTTGCAAACCG	0.378													70	115	---	---	---	---	PASS	A	80096990	A	A	80096990	3	1	128	1	0	0	0	0	1	0	0	0	4013	681	24	3	528	3	CTNNA2	2	80096990	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	23676532	80096990	163102383	34	46164										
LRRTM1	347730	broad.mit.edu	37	chr2	80529586	80529586	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	agctgcctgaggctggctggGaaacacttccaggacacgta	13	11	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:80529586G>A	uc002sok.1	-	2	1629	c.1359C>T	c.(1357-1359)TTC>TTT	p.F453F	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	453	Cytoplasmic (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GGCTGGCTGGGAAACACTTCC	0.577										HNSCC(69;0.2)			5	50	---	---	---	---	PASS	A	80529586	A	A	80529586	2	1	128	1	0	0	0	0	0	0	0	1	9039	1165	41	2		2	LRRTM1	2	80529586	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	432596	80529586	162669787	35	46165										
AFF3	3899	broad.mit.edu	37	chr2	100182031	100182031	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ttccattgcatttccacactCgataaacgacaatgctgctt	5	12	0	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:100182031C>T	uc002tag.2	-	19	3273	c.3037G>A	c.(3037-3039)GAG>AAG	p.E1013K	AFF3_uc002taf.2_Missense_Mutation_p.E1038K	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	1013					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						TTTCCACACTCGATAAACGAC	0.398													98	148	---	---	---	---	PASS	T	100182031	T	T	100182031	3	4	128	1	0	0	0	0	1	0	0	0	358	893	31	2	667	2	AFF3	2	100182031	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	19652445	100182031	143017342	36	46166										
YSK4	80122	broad.mit.edu	37	chr2	135779388	135779388	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gacaaatgtcaagcaatgacTcagcatgtctttctatcaaa	6	9	5	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:135779388T>C	uc002tue.1	-	2	66	c.35A>G	c.(34-36)GAG>GGG	p.E12G	YSK4_uc010fne.1_5'UTR|YSK4_uc002tuf.1_Missense_Mutation_p.E12G|YSK4_uc010fnc.1_Missense_Mutation_p.E12G|YSK4_uc010fnd.1_Missense_Mutation_p.E12G|YSK4_uc010zbg.1_Missense_Mutation_p.E12G|YSK4_uc002tui.3_Missense_Mutation_p.E29G	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	12							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		AAGCAATGACTCAGCATGTCT	0.333													40	126	---	---	---	---	PASS	C	135779388	C	C	135779388	3	2	128	1	0	0	0	0	1	0	0	0	17492	1551	54	5	3987	5	YSK4	2	135779388	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	35597357	135779388	107419985	37	46167										
BAZ2B	29994	broad.mit.edu	37	chr2	160303316	160303316	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atctttgattttgtcaactcTagcatccaaaggctggtttt	7	8	3	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:160303316T>C	uc002uao.2	-	6	1025	c.673A>G	c.(673-675)AGA>GGA	p.R225G	BAZ2B_uc002uap.2_Missense_Mutation_p.R223G|BAZ2B_uc002uas.1_Missense_Mutation_p.R162G|BAZ2B_uc002uau.1_Missense_Mutation_p.R223G|BAZ2B_uc002uaq.1_Missense_Mutation_p.R153G|BAZ2B_uc002uat.3_Missense_Mutation_p.R162G|BAZ2B_uc010fop.1_Missense_Mutation_p.R223G	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	225	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TTGTCAACTCTAGCATCCAAA	0.358													127	205	---	---	---	---	PASS	C	160303316	C	C	160303316	3	2	128	1	0	0	0	0	1	0	0	0	1332	1530	53	5	5961	5	BAZ2B	2	160303316	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	24523928	160303316	82896057	38	46168										
PDK1	5163	broad.mit.edu	37	chr2	173427012	173427012	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gtgctgaggatgctaaagctAtttatgagtaagttcactat	10	5	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:173427012A>G	uc002uhr.2	+	3	503	c.403A>G	c.(403-405)ATT>GTT	p.I135V	PDK1_uc010zdz.1_5'UTR|PDK1_uc010zea.1_RNA|PDK1_uc002uhq.1_Missense_Mutation_p.I135V|PDK1_uc002uhs.2_Missense_Mutation_p.I135V|PDK1_uc010zeb.1_Missense_Mutation_p.I135V	NM_002610	NP_002601	Q15118	PDK1_HUMAN	pyruvate dehydrogenase kinase 1 precursor	135					glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|small GTPase mediated signal transduction	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(3)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.12)			TGCTAAAGCTATTTATGAGTA	0.333									Autosomal_Dominant_Polycystic_Kidney_Disease				98	172	---	---	---	---	PASS	G	173427012	G	G	173427012	3	3	128	1	0	0	0	0	1	0	0	0	11675	449	16	5	413	5	PDK1	2	173427012	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	13123696	173427012	69772361	39	46169										
TTN	7273	broad.mit.edu	37	chr2	179584771	179584771	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tcgtttttgatttggcatatAtattttccagaattagatgc	7	5	0	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:179584771A>G	uc010zfg.1	-	78	20090	c.19866T>C	c.(19864-19866)TAT>TAC	p.Y6622Y	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.Y3283Y	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7549							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)			TTTGGCATATATATTTTCCAG	0.398													22	70	---	---	---	---	PASS	G	179584771	G	G	179584771	2	3	128	1	0	0	0	0	0	0	0	1	16732	456	16	5		5	TTN	2	179584771	Silent	SNP	A	TCGA-60-2719-01A-01D-1522-08	6157759	179584771	63614602	40	46170										
ITGAV	3685	broad.mit.edu	37	chr2	187500923	187500923	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tgcacaagctatttttgatgAcagctatttgggtaggtaaa	10	5	0	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:187500923A>G	uc002upq.2	+	7	1022	c.746A>G	c.(745-747)GAC>GGC	p.D249G	ITGAV_uc010frs.2_Missense_Mutation_p.D213G|ITGAV_uc010zfv.1_Missense_Mutation_p.D203G	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	249	FG-GAP 4.|Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		ATTTTTGATGACAGCTATTTG	0.328													30	184	---	---	---	---	PASS	G	187500923	G	G	187500923	3	3	128	1	0	0	0	0	1	0	0	0	7888	275	10	5	823	5	ITGAV	2	187500923	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	7916152	187500923	55698450	41	46171										
SF3B1	23451	broad.mit.edu	37	chr2	198281577	198281577	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gctgggacgctgctgctccaTtgacgacttttagttctcca	10	12	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:198281577T>C	uc002uue.2	-	6	602	c.554A>G	c.(553-555)AAT>AGT	p.N185S	SF3B1_uc010fsk.1_RNA	NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	185					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			TGCTGCTCCATTGACGACTTT	0.433													174	234	---	---	---	---	PASS	C	198281577	C	C	198281577	3	2	128	1	0	0	0	0	1	0	0	0	14149	1493	52	5	3440	5	SF3B1	2	198281577	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	10780654	198281577	44917796	42	46172										
SPATS2L	26010	broad.mit.edu	37	chr2	201283977	201283977	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ttgtttctcattctagaacaAtaaaagaaaaagaagcaagt	6	5	2	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:201283977A>G	uc002uvn.3	+	6	555	c.203A>G	c.(202-204)AAT>AGT	p.N68S	SPATS2L_uc010fst.2_Missense_Mutation_p.N68S|SPATS2L_uc002uvo.3_Missense_Mutation_p.N8S|SPATS2L_uc002uvp.3_Missense_Mutation_p.N68S|SPATS2L_uc002uvq.3_Missense_Mutation_p.N68S|SPATS2L_uc002uvr.3_Missense_Mutation_p.N68S|SPATS2L_uc010zhc.1_Missense_Mutation_p.N98S	NM_015535	NP_056350	Q9NUQ6	SPS2L_HUMAN	SPATS2-like protein isoform a	68						cytoplasm|nucleolus				ovary(2)|pancreas(1)	3						TTCTAGAACAATAAAAGAAAA	0.403													4	5	---	---	---	---	PASS	G	201283977	G	G	201283977	3	3	128	1	0	0	0	0	1	0	0	0	15019	101	4	5	217	5	SPATS2L	2	201283977	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	3002400	201283977	41915396	43	46173										
INO80D	54891	broad.mit.edu	37	chr2	206921016	206921016	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atacatgagaagtgtggagaGaaggctgtggctttcatgag	15	4	1	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:206921016G>A	uc002vaz.3	-	4	1275	c.870C>T	c.(868-870)TTC>TTT	p.F290F		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	290					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						AGTGTGGAGAGAAGGCTGTGG	0.537													29	85	---	---	---	---	PASS	A	206921016	A	A	206921016	2	1	128	1	0	0	0	0	0	0	0	1	7749	933	33	2		2	INO80D	2	206921016	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	5637039	206921016	36278357	44	46174										
ABCB6	10058	broad.mit.edu	37	chr2	220078648	220078648	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tctgatttagtaaaaccagtGaagcgctcgacttccactcc	7	12	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr2:220078648G>A	uc002vkc.1	-	9	1755	c.1478C>T	c.(1477-1479)TCA>TTA	p.S493L	ABCB6_uc010fwe.1_Missense_Mutation_p.S447L	NM_005689	NP_005680	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B, member 6	493	ABC transmembrane type-1.				cadmium ion transmembrane transport|cellular iron ion homeostasis|detoxification of cadmium ion|porphyrin biosynthetic process	ATP-binding cassette (ABC) transporter complex|Golgi apparatus|integral to mitochondrial outer membrane|plasma membrane|vacuolar membrane	ATP binding|efflux transmembrane transporter activity|heme binding|heme-transporting ATPase activity			breast(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;1.22e-06)|all cancers(144;0.000201)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TAAAACCAGTGAAGCGCTCGA	0.542													94	119	---	---	---	---	PASS	A	220078648	A	A	220078648	3	1	128	1	0	0	0	0	1	0	0	0	45	1294	45	2	1094	2	ABCB6	2	220078648	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	13157632	220078648	23120725	45	46175										
TIMP4	7079	broad.mit.edu	37	chr3	12195884	12195884	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ctttccctctgcaccaaggaCaggtcctcccagggctcgat	9	16	1	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr3:12195884C>A	uc003bwo.2	-	4	727	c.420G>T	c.(418-420)CTG>CTT	p.L140L	SYN2_uc003bwl.1_Intron|SYN2_uc003bwm.2_Intron|SYN2_uc003bwn.2_Intron	NM_003256	NP_003247	Q99727	TIMP4_HUMAN	tissue inhibitor of metalloproteinase 4	140	NTR.						metal ion binding|metalloendopeptidase inhibitor activity				0						GCACCAAGGACAGGTCCTCCC	0.502													92	53	---	---	---	---	PASS	A	12195884	A	A	12195884	2	1	128	1	0	0	0	0	0	0	0	1	15917	465	17	3		3	TIMP4	3	12195884	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08		12195884	185826546	46	46176										
KCNH8	131096	broad.mit.edu	37	chr3	19436804	19436804	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ccttctgaagtgggaagttgGtaagggcttacatttgtcac	12	7	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr3:19436804G>A	uc003cbk.1	+	7	1372	c.1177_splice	c.e7+1	p.G393_splice	KCNH8_uc011awe.1_Splice_Site_p.G393_splice|KCNH8_uc010hex.1_Splice_Site|KCNH8_uc011awf.1_Splice_Site_p.G24_splice	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,							integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						TGGGAAGTTGGTAAGGGCTTA	0.363													54	41	---	---	---	---	PASS	A	19436804	A	A	19436804	5	1	128	1	0	0	0	0	0	0	1	0	8038	1275	44	3	1204	3	KCNH8	3	19436804	Splice_Site	SNP	G	TCGA-60-2719-01A-01D-1522-08	7240920	19436804	178585626	47	46177										
LARS2	23395	broad.mit.edu	37	chr3	45588957	45588957	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gtgtcaggcttttgcaaggaCgaagcatcaagaagtccttc	11	9	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr3:45588957C>T	uc003cop.1	+	22	2832	c.2647C>T	c.(2647-2649)CGA>TGA	p.R883*	LARS2_uc010hit.1_Nonsense_Mutation_p.R840*	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial	883					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)	TTTGCAAGGACGAAGCATCAA	0.537													6	161	---	---	---	---	PASS	T	45588957	T	T	45588957	4	4	128	1	0	0	0	0	0	1	0	0	8635	528	19	1	2725	1	LARS2	3	45588957	Nonsense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	26152153	45588957	152433473	48	46178										
ATXN7	6314	broad.mit.edu	37	chr3	63981634	63981634	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aaacgcaaaaacagttccccActgttggttcactcttcctc	5	14	2	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr3:63981634A>G	uc003dlw.3	+	12	2689	c.2136A>G	c.(2134-2136)CCA>CCG	p.P712P	ATXN7_uc003dlv.2_Silent_p.P712P|ATXN7_uc010hnv.2_Silent_p.P712P|ATXN7_uc011bfn.1_Silent_p.P567P	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	712	Ser-rich.				cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		ACAGTTCCCCACTGTTGGTTC	0.403													36	20	---	---	---	---	PASS	G	63981634	G	G	63981634	2	3	128	1	0	0	0	0	0	0	0	1	1215	146	6	5		5	ATXN7	3	63981634	Silent	SNP	A	TCGA-60-2719-01A-01D-1522-08	18392677	63981634	134040796	49	46179										
LRIG1	26018	broad.mit.edu	37	chr3	66436511	66436511	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gtgacctgacggaggtgcagGatggtggtgtactccatcac	15	9	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr3:66436511G>T	uc003dmx.2	-	13	1697	c.1683C>A	c.(1681-1683)ATC>ATA	p.I561I	SLC25A26_uc011bft.1_Intron|LRIG1_uc011bfu.1_Silent_p.I181I|LRIG1_uc003dmw.2_Silent_p.I227I|LRIG1_uc010hnz.2_Silent_p.I277I|LRIG1_uc010hoa.2_Silent_p.I585I	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	561	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		GGAGGTGCAGGATGGTGGTGT	0.552													104	56	---	---	---	---	PASS	T	66436511	T	T	66436511	2	4	128	1	0	0	0	0	0	0	0	1	8944	1164	41	2		2	LRIG1	3	66436511	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	2454877	66436511	131585919	50	46180										
FILIP1L	11259	broad.mit.edu	37	chr3	99649618	99649618	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tccaacccagctgacctgcaGttctccctccagaatgctga	7	16	1	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr3:99649618G>T	uc003dtm.2	-	2	710	c.247C>A	c.(247-249)CTG>ATG	p.L83M	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.L83M|uc003dtq.2_5'Flank	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	83						cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						CTGACCTGCAGTTCTCCCTCC	0.493													10	39	---	---	---	---	PASS	T	99649618	T	T	99649618	3	4	128	1	0	0	0	0	1	0	0	0	5895	1020	36	3	3201	3	FILIP1L	3	99649618	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	33213107	99649618	98372812	51	46181										
STAG1	10274	broad.mit.edu	37	chr3	136076678	136076678	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ttttggtatttaaatgcaaaCtctatgccatccctgaagta	6	8	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr3:136076678C>T	uc003era.1	-	28	3241	c.2949G>A	c.(2947-2949)GAG>GAA	p.E983E	STAG1_uc003erb.1_Silent_p.E983E	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	983					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						TAAATGCAAACTCTATGCCAT	0.323													44	53	---	---	---	---	PASS	T	136076678	T	T	136076678	2	4	128	1	0	0	0	0	0	0	0	1	15241	564	20	3		3	STAG1	3	136076678	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	36427060	136076678	61945752	52	46182										
SMC4	10051	broad.mit.edu	37	chr3	160118637	160118637	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gccccgtaaaggcacccagcCctccactgcccggcgcagag	11	19	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr3:160118637C>T	uc003fdh.2	+	2	136	c.23C>T	c.(22-24)CCC>CTC	p.P8L	IFT80_uc003fda.2_Intron|IFT80_uc011boy.1_5'Flank|IFT80_uc003fdd.1_5'Flank|IFT80_uc003fde.1_5'Flank|SMC4_uc003fdf.1_RNA|SMC4_uc003fdg.1_Missense_Mutation_p.P8L|SMC4_uc010hwc.1_5'UTR|SMC4_uc003fdi.2_Missense_Mutation_p.P8L|SMC4_uc003fdj.2_Missense_Mutation_p.P8L|SMC4_uc010hwd.2_Missense_Mutation_p.P8L	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	8					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			GGCACCCAGCCCTCCACTGCC	0.771													4	15	---	---	---	---	PASS	T	160118637	T	T	160118637	3	4	128	1	0	0	0	0	1	0	0	0	14785	623	22	3	25	3	SMC4	3	160118637	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	24041959	160118637	37903793	53	46183										
ZBBX	79740	broad.mit.edu	37	chr3	166960360	166960360	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gaaatctgtggaaatctgacTtatattcagtgattggctgc	10	6	3	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr3:166960360T>C	uc003fep.2	-	20	2532	c.2209A>G	c.(2209-2211)AGT>GGT	p.S737G	ZBBX_uc011bpc.1_Missense_Mutation_p.S776G|ZBBX_uc003feq.2_Missense_Mutation_p.S708G	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	737						intracellular	zinc ion binding			ovary(2)	2						GAAATCTGACTTATATTCAGT	0.368													144	70	---	---	---	---	PASS	C	166960360	C	C	166960360	3	2	128	1	0	0	0	0	1	0	0	0	17513	1609	56	5	201	5	ZBBX	3	166960360	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	6841723	166960360	31062070	54	46184										
GHSR	2693	broad.mit.edu	37	chr3	172166129	172166129	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tcgcccagcgagtcgttgccGggggaagcatcccagtccag	14	14	0	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr3:172166129G>A	uc003fib.1	-	1	75	c.75C>T	c.(73-75)CCC>CCT	p.P25P	GHSR_uc011bpv.1_Silent_p.P25P	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	25	Extracellular (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)			AGTCGTTGCCGGGGGAAGCAT	0.682													17	53	---	---	---	---	PASS	A	172166129	A	A	172166129	2	1	128	1	0	0	0	0	0	0	0	1	6375	1103	39	1		1	GHSR	3	172166129	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	5205769	172166129	25856301	55	46185										
EPHB3	2049	broad.mit.edu	37	chr3	184297317	184297317	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tttacctacgaggaccctaaTgaggctgttcgggagtttgc	12	9	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr3:184297317T>A	uc003foz.2	+	10	2291	c.1854T>A	c.(1852-1854)AAT>AAA	p.N618K		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	618	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			AGGACCCTAATGAGGCTGTTC	0.552													32	235	---	---	---	---	PASS	A	184297317	A	A	184297317	3	1	128	1	0	0	0	0	1	0	0	0	5176	1461	51	5	1892	5	EPHB3	3	184297317	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	12131188	184297317	13725113	56	46186										
EPHA5	2044	broad.mit.edu	37	chr4	66189926	66189926	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cgacaagagtcactccaagcCgtctcaaatccctgcatgaa	7	14	2	2	rs145811811		TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr4:66189926C>A	uc003hcy.2	-	18	3213	c.3020G>T	c.(3019-3021)CGG>CTG	p.R1007L	EPHA5_uc003hcx.2_Missense_Mutation_p.R939L|EPHA5_uc003hcz.2_Missense_Mutation_p.R985L|EPHA5_uc011cah.1_Missense_Mutation_p.R1008L|EPHA5_uc011cai.1_Missense_Mutation_p.R986L	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	1007	Cytoplasmic (Potential).|SAM.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity	p.R1007Q(1)		lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CACTCCAAGCCGTCTCAAATC	0.433										TSP Lung(17;0.13)			44	47	---	---	---	---	PASS	A	66189926	A	A	66189926	3	1	128	1	0	0	0	0	1	0	0	0	5170	652	23	1	97	1	EPHA5	4	66189926	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08		66189926	124964350	57	46187										
GRID2	2895	broad.mit.edu	37	chr4	94436493	94436493	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gacagcatgtattcccaaatGtggcggatgatcaaccgaag	11	9	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr4:94436493G>C	uc011cdt.1	+	13	2382	c.2124G>C	c.(2122-2124)ATG>ATC	p.M708I	GRID2_uc011cdu.1_Missense_Mutation_p.M613I	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	708	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	ATTCCCAAATGTGGCGGATGA	0.473													34	27	---	---	---	---	PASS	C	94436493	C	C	94436493	3	2	128	1	0	0	0	0	1	0	0	0	6772	1377	48	4	2174	4	GRID2	4	94436493	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	28246567	94436493	96717783	58	46188										
CFI	3426	broad.mit.edu	37	chr4	110662170	110662170	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cacagttttccccccaactcAcaacaccccagacataagtc	3	18	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr4:110662170A>G	uc003hzr.3	-	13	1839	c.1631T>C	c.(1630-1632)GTG>GCG	p.V544A	CFI_uc003hzq.2_Missense_Mutation_p.V341A|CFI_uc011cft.1_Missense_Mutation_p.V552A|CFI_uc003hzs.3_Missense_Mutation_p.V537A	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	544	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		CCCCCAACTCACAACACCCCA	0.463													17	433	---	---	---	---	PASS	G	110662170	G	G	110662170	3	3	128	1	0	0	0	0	1	0	0	0	3289	159	6	5	124	5	CFI	4	110662170	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	16225677	110662170	80492106	59	46189										
BBS12	166379	broad.mit.edu	37	chr4	123665027	123665027	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aataaactggagcagattccGagagtttatgacgttgttac	10	6	0	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr4:123665027G>T	uc003ieu.2	+	2	2173	c.1980G>T	c.(1978-1980)CCG>CCT	p.P660P		NM_152618	NP_689831	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	660					cellular protein metabolic process	cilium	ATP binding			ovary(2)	2						AGCAGATTCCGAGAGTTTATG	0.368									Bardet-Biedl_syndrome				3	101	---	---	---	---	PASS	T	123665027	T	T	123665027	2	4	128	1	0	0	0	0	0	0	0	1	1337	1045	37	2		2	BBS12	4	123665027	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	13002857	123665027	67489249	60	46190										
FAT4	79633	broad.mit.edu	37	chr4	126240503	126240503	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gtcccacagctctcctctagTgtcatcttaacagtttatgt	6	12	4	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr4:126240503T>A	uc003ifj.3	+	1	2937	c.2937T>A	c.(2935-2937)AGT>AGA	p.S979R		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	979	Cadherin 9.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TCTCCTCTAGTGTCATCTTAA	0.448													78	66	---	---	---	---	PASS	A	126240503	A	A	126240503	3	1	128	1	0	0	0	0	1	0	0	0	5692	1693	59	5	2939	5	FAT4	4	126240503	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	2575476	126240503	64913773	61	46191										
LARP1B	55132	broad.mit.edu	37	chr4	129012165	129012165	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atttttaaaaggttggaagcGagatagagaaaaaagggatg	13	1	0	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr4:129012165G>T	uc003iga.2	+	6	499	c.368G>T	c.(367-369)CGA>CTA	p.R123L	LARP1B_uc003ifw.1_Missense_Mutation_p.R76L|LARP1B_uc003ifx.2_Missense_Mutation_p.R123L|LARP1B_uc003ify.2_Missense_Mutation_p.R123L|LARP1B_uc003ifz.1_Missense_Mutation_p.R123L	NM_018078	NP_060548	Q659C4	LAR1B_HUMAN	La ribonucleoprotein domain family member 2	123	Arg-rich.						RNA binding				0						GGTTGGAAGCGAGATAGAGAA	0.373													3	85	---	---	---	---	PASS	T	129012165	T	T	129012165	3	4	128	1	0	0	0	0	1	0	0	0	8629	1058	37	2	382	2	LARP1B	4	129012165	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	2771662	129012165	62142111	62	46192										
NEIL3	55247	broad.mit.edu	37	chr4	178272630	178272630	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aagtcggaagagcactggacCtgtgtggtgtgtactttaat	13	6	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr4:178272630C>T	uc003iut.2	+	7	1083	c.966C>T	c.(964-966)ACC>ACT	p.T322T	NEIL3_uc010irs.2_Intron	NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	322	RanBP2-type.				base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		AGCACTGGACCTGTGTGGTGT	0.438								BER_DNA_glycosylases					118	100	---	---	---	---	PASS	T	178272630	T	T	178272630	2	4	128	1	0	0	0	0	0	0	0	1	10320	668	24	3		3	NEIL3	4	178272630	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	49260465	178272630	12881646	63	46193										
CTNND2	1501	broad.mit.edu	37	chr5	11346612	11346612	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tgcagctgtcggtaggggtcCgcgtaattggaggctgggcc	18	9	0	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr5:11346612C>A	uc003jfa.1	-	9	1645	c.1500G>T	c.(1498-1500)GCG>GCT	p.A500A	CTNND2_uc010itt.2_Silent_p.A409A|CTNND2_uc011cmy.1_Silent_p.A163A|CTNND2_uc011cmz.1_Silent_p.A67A|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Silent_p.A67A	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	500					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GGTAGGGGTCCGCGTAATTGG	0.657													177	113	---	---	---	---	PASS	A	11346612	A	A	11346612	2	1	128	1	0	0	0	0	0	0	0	1	4020	639	23	1		1	CTNND2	5	11346612	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08		11346612	169568648	64	46194										
CDH10	1008	broad.mit.edu	37	chr5	24535250	24535250	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aacgtggtgggttgtcattgAcatctgtcagcgtgatgttc	13	7	3	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr5:24535250A>T	uc003jgr.1	-	5	1117	c.785T>A	c.(784-786)GTC>GAC	p.V262D	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	262	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		GTTGTCATTGACATCTGTCAG	0.448										HNSCC(23;0.051)			10	250	---	---	---	---	PASS	T	24535250	T	T	24535250	3	4	128	1	0	0	0	0	1	0	0	0	3096	275	10	5	1613	5	CDH10	5	24535250	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	13188638	24535250	156380010	65	46195										
TIMD4	91937	broad.mit.edu	37	chr5	156390197	156390197	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	catcagccagagaatgagagGttctttggacattttgacgg	12	7	2	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr5:156390197G>T	uc003lwh.2	-	1	70	c.13C>A	c.(13-15)CCT>ACT	p.P5T	TIMD4_uc010jii.2_Missense_Mutation_p.P5T	NM_138379	NP_612388	Q96H15	TIMD4_HUMAN	T-cell immunoglobulin and mucin domain	5						integral to membrane				ovary(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AGAATGAGAGGTTCTTTGGAC	0.453													62	27	---	---	---	---	PASS	T	156390197	T	T	156390197	3	4	128	1	0	0	0	0	1	0	0	0	15900	1261	44	3	1159	3	TIMD4	5	156390197	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	131854947	156390197	24525063	66	46196										
CYFIP2	26999	broad.mit.edu	37	chr5	156787368	156787368	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gccgcttgccccgacatgagTatggctccccaggttggtga	13	13	0	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr5:156787368T>A	uc003lwq.2	+	27	3034	c.2896T>A	c.(2896-2898)TAT>AAT	p.Y966N	CYFIP2_uc011ddn.1_Missense_Mutation_p.Y940N|CYFIP2_uc011ddo.1_Missense_Mutation_p.Y770N|CYFIP2_uc003lwr.2_Missense_Mutation_p.Y966N|CYFIP2_uc003lws.2_Missense_Mutation_p.Y966N|CYFIP2_uc003lwt.2_Missense_Mutation_p.Y869N|CYFIP2_uc011ddp.1_Missense_Mutation_p.Y700N	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	991					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)			CCGACATGAGTATGGCTCCCC	0.502													54	51	---	---	---	---	PASS	A	156787368	A	A	156787368	3	1	128	1	0	0	0	0	1	0	0	0	4138	1638	57	5	2990	5	CYFIP2	5	156787368	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	397171	156787368	24127892	67	46197										
GABRG2	2566	broad.mit.edu	37	chr5	161580117	161580117	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aggcccctaccattgatatcCgcccaagatcagcaaccatt	6	15	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr5:161580117C>G	uc003lyz.3	+	9	1505	c.1147C>G	c.(1147-1149)CGC>GGC	p.R383G	GABRG2_uc010jjc.2_Missense_Mutation_p.R431G|GABRG2_uc003lyy.3_Missense_Mutation_p.R391G|GABRG2_uc011dej.1_Missense_Mutation_p.R288G	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	383	Cytoplasmic (Probable).				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)		CATTGATATCCGCCCAAGATC	0.493													53	43	---	---	---	---	PASS	G	161580117	G	G	161580117	3	3	128	1	0	0	0	0	1	0	0	0	6172	652	23	4	1333	4	GABRG2	5	161580117	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	4792749	161580117	19335143	68	46198										
SH3PXD2B	285590	broad.mit.edu	37	chr5	171766540	171766540	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atgatggattctttccgcggAgggaggctgggcttctcctc	14	10	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr5:171766540A>T	uc003mbr.2	-	13	1740	c.1569T>A	c.(1567-1569)CCT>CCA	p.P523P		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	523					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CTTTCCGCGGAGGGAGGCTGG	0.632													60	23	---	---	---	---	PASS	T	171766540	T	T	171766540	2	4	128	1	0	0	0	0	0	0	0	1	14257	291	11	5		5	SH3PXD2B	5	171766540	Silent	SNP	A	TCGA-60-2719-01A-01D-1522-08	10186423	171766540	9148720	69	46199										
NUP153	9972	broad.mit.edu	37	chr6	17675990	17675990	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ataatttgaagcagtactagTtgttgaaggttcttaaaaga	9	3	1	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:17675990T>C	uc003ncd.1	-	3	546	c.346A>G	c.(346-348)ACT>GCT	p.T116A	NUP153_uc011dje.1_Missense_Mutation_p.T116A|NUP153_uc010jpl.1_Missense_Mutation_p.T116A	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	116					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			GCAGTACTAGTTGTTGAAGGT	0.348													54	98	---	---	---	---	PASS	C	17675990	C	C	17675990	3	2	128	1	0	0	0	0	1	0	0	0	10755	1725	60	5	4161	5	NUP153	6	17675990	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08		17675990	153439077	70	46200										
ID4	3400	broad.mit.edu	37	chr6	19838206	19838206	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tatgaacgactgctatagccGcctgcggaggctggtgccca	13	12	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:19838206G>T	uc003ncw.2	+	1	590	c.221G>T	c.(220-222)CGC>CTC	p.R74L		NM_001546	NP_001537	P47928	ID4_HUMAN	inhibitor of DNA binding 4, dominant negative	74	Helix-loop-helix motif.						transcription corepressor activity				0	Ovarian(93;0.0355)|Breast(50;0.0654)|all_epithelial(95;0.12)		OV - Ovarian serous cystadenocarcinoma(7;0.00659)|all cancers(50;0.0327)|Epithelial(50;0.0621)			TGCTATAGCCGCCTGCGGAGG	0.562													6	3	---	---	---	---	PASS	T	19838206	T	T	19838206	3	4	128	1	0	0	0	0	1	0	0	0	7492	1087	38	1	223	1	ID4	6	19838206	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	2162216	19838206	151276861	71	46201										
BTN1A1	696	broad.mit.edu	37	chr6	26505264	26505264	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ccaggtgcagtggagaacttCcaagggagagaagtttccat	13	8	0	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:26505264C>A	uc003nif.3	+	3	559	c.539C>A	c.(538-540)TCC>TAC	p.S180Y		NM_001732	NP_001723	Q13410	BT1A1_HUMAN	butyrophilin, subfamily 1, member A1 precursor	180	Extracellular (Potential).|Ig-like V-type 2.					extracellular region|integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2						TGGAGAACTTCCAAGGGAGAG	0.498													48	94	---	---	---	---	PASS	A	26505264	A	A	26505264	3	1	128	1	0	0	0	0	1	0	0	0	1559	855	30	2	549	2	BTN1A1	6	26505264	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	6667058	26505264	144609803	72	46202										
OR12D3	81797	broad.mit.edu	37	chr6	29342373	29342373	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	acagagccttgtggagtattCtgcaggacctgttcttaaac	10	9	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:29342373C>A	uc003nme.2	-	1	696	c.692G>T	c.(691-693)AGA>ATA	p.R231I		NM_030959	NP_112221	Q9UGF7	O12D3_HUMAN	olfactory receptor, family 12, subfamily D,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3						GTGGAGTATTCTGCAGGACCT	0.463													63	71	---	---	---	---	PASS	A	29342373	A	A	29342373	3	1	128	1	0	0	0	0	1	0	0	0	10932	913	32	2	262	2	OR12D3	6	29342373	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	2837109	29342373	141772694	73	46203										
OR10C1	442194	broad.mit.edu	37	chr6	29408069	29408069	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ctggccggcgccacatctctCgctctggatgtgctctccag	11	16	3	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:29408069C>T	uc011dlp.1	+	1	277	c.277C>T	c.(277-279)CGC>TGC	p.R93C	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	93	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCACATCTCTCGCTCTGGATG	0.592													63	107	---	---	---	---	PASS	T	29408069	T	T	29408069	3	4	128	1	0	0	0	0	1	0	0	0	10898	884	31	2	279	2	OR10C1	6	29408069	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	65696	29408069	141706998	74	46204										
TNXB	7148	broad.mit.edu	37	chr6	32018015	32018015	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gggggtggcatctgtcacggTcagctcccccaggcgaggct	16	13	3	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:32018015T>A	uc003nzl.2	-	27	9395	c.9193A>T	c.(9193-9195)ACC>TCC	p.T3065S		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3112	Fibronectin type-III 23.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TCTGTCACGGTCAGCTCCCCC	0.622													34	75	---	---	---	---	PASS	A	32018015	A	A	32018015	3	1	128	1	0	0	0	0	1	0	0	0	16343	1667	58	5	5592	5	TNXB	6	32018015	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	2609946	32018015	139097052	75	46205										
HLA-DPA1	3113	broad.mit.edu	37	chr6	33041344	33041344	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gaacattctgtcttcagggcGcatgttgtggggtctataat	12	7	4	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:33041344G>A	uc003ocs.1	-	1	35	c.4C>T	c.(4-6)CGC>TGC	p.R2C	HLA-DPA1_uc010juk.2_Missense_Mutation_p.R2C|HLA-DPA1_uc003oct.1_Missense_Mutation_p.R2C|HLA-DPB1_uc011dqn.1_5'Flank|HLA-DPB1_uc003ocu.1_5'Flank|HLA-DPB1_uc011dqo.1_5'Flank|HLA-DPB1_uc011dqp.1_5'Flank	NM_033554	NP_291032	P20036	DPA1_HUMAN	major histocompatibility complex, class II, DP	2					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			skin(1)	1						TCTTCAGGGCGCATGTTGTGG	0.532													5	192	---	---	---	---	PASS	A	33041344	A	A	33041344	3	1	128	1	0	0	0	0	1	0	0	0	7202	1087	38	1	794	1	HLA-DPA1	6	33041344	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	1023329	33041344	138073723	76	46206										
COL11A2	1302	broad.mit.edu	37	chr6	33137206	33137206	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ctgtggggcctttaggccctGgtggccctggctctcctggc	15	14	1	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:33137206G>A	uc003ocx.1	-	51	3980	c.3752C>T	c.(3751-3753)CCA>CTA	p.P1251L	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Missense_Mutation_p.P1165L|COL11A2_uc003ocz.1_Missense_Mutation_p.P1144L	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1251	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						TTTAGGCCCTGGTGGCCCTGG	0.637													28	41	---	---	---	---	PASS	A	33137206	A	A	33137206	3	1	128	1	0	0	0	0	1	0	0	0	3668	1348	47	3	1522	3	COL11A2	6	33137206	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	95862	33137206	137977861	77	46207										
TAPBP	6892	broad.mit.edu	37	chr6	33272137	33272137	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	caggctgggatggtgaattcGacaggcatagcgtgccccat	14	10	0	1	rs79026906		TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:33272137G>A	uc003odx.1	-	5	1318	c.1147C>T	c.(1147-1149)CGA>TGA	p.R383*	TAPBP_uc010jus.1_Nonsense_Mutation_p.R401*|TAPBP_uc003ody.2_3'UTR|TAPBP_uc003odz.2_Nonsense_Mutation_p.R383*|TAPBP_uc010jut.1_Nonsense_Mutation_p.R296*|TAPBP_uc011drc.1_Nonsense_Mutation_p.R383*	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	383	Ig-like C1-type.|Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1						TGGTGAATTCGACAGGCATAG	0.652													8	84	---	---	---	---	PASS	A	33272137	A	A	33272137	4	1	128	1	0	0	0	0	0	1	0	0	15549	1066	37	2	395	2	TAPBP	6	33272137	Nonsense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	134931	33272137	137842930	78	46208										
DNAH8	1769	broad.mit.edu	37	chr6	38830121	38830121	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tgctcccgcaggacctgctgGcactggcaaaacagaaacca	10	14	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:38830121G>A	uc003ooe.1	+	42	6146	c.5546G>A	c.(5545-5547)GGC>GAC	p.G1849D		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GGACCTGCTGGCACTGGCAAA	0.463													62	129	---	---	---	---	PASS	A	38830121	A	A	38830121	3	1	128	1	0	0	0	0	1	0	0	0	4607	1203	42	3	5704	3	DNAH8	6	38830121	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	5557984	38830121	132284946	79	46209										
CUL9	23113	broad.mit.edu	37	chr6	43190552	43190552	+	Frame_Shift_Del	DEL	C	-	-													0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tgcgtgtacagcttctacagCcaggacgcagagtacatgga							TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:43190552delC	uc003ouk.2	+	38	7143	c.7068delC	c.(7066-7068)AGCfs	p.S2356fs	CUL9_uc003oul.2_Frame_Shift_Del_p.S2328fs|CUL9_uc010jyk.2_Frame_Shift_Del_p.S1508fs|CUL9_uc003oun.2_Frame_Shift_Del_p.S151fs	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	2356					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GCTTCTACAGCCAGGACGCAG	0.627													106	52	---	---	---	---		-	43190552	-	-	43190552	7	5	128	1	0	1	0	1	0	0	0	0	4061	738	26	0	7214	0	CUL9	6	43190552	Frame_Shift_Del	DEL	C	TCGA-60-2719-01A-01D-1522-08	4360431	43190552	127924515	80	46210										
TCTE1	202500	broad.mit.edu	37	chr6	44249916	44249916	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atggcgagcacctgtgacagGagtgtggcggtgggctcaga	18	8	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:44249916G>C	uc003oxi.2	-	4	1383	c.1227C>G	c.(1225-1227)CTC>CTG	p.L409L	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_182539	NP_872345	Q5JU00	TCTE1_HUMAN	t-complex-associated testis expressed 1	409	LRR 4.									ovary(2)|skin(2)	4	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CCTGTGACAGGAGTGTGGCGG	0.602													22	30	---	---	---	---	PASS	C	44249916	C	C	44249916	2	2	128	1	0	0	0	0	0	0	0	1	15714	1161	41	2		2	TCTE1	6	44249916	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	1059364	44249916	126865151	81	46211										
ENPP4	22875	broad.mit.edu	37	chr6	46107441	46107441	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atggcttcagagctgattatCtgaagaactatgaatttcct	8	7	2	5			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:46107441C>T	uc003oxy.2	+	2	380	c.121C>T	c.(121-123)CTG>TTG	p.L41L		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	41	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						AGCTGATTATCTGAAGAACTA	0.338													9	235	---	---	---	---	PASS	T	46107441	T	T	46107441	2	4	128	1	0	0	0	0	0	0	0	1	5132	912	32	2		2	ENPP4	6	46107441	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	1857525	46107441	125007626	82	46212										
UBE2CBP	90025	broad.mit.edu	37	chr6	83748153	83748153	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	acctgatgacacggtctctcCcaacattaccttgcaacgct	6	15	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:83748153C>T	uc003pjp.2	-	5	757	c.649G>A	c.(649-651)GGA>AGA	p.G217R	UBE2CBP_uc011dyx.1_RNA|UBE2CBP_uc003pjr.2_Missense_Mutation_p.G185R	NM_198920	NP_944602	Q7Z6J8	UB2CB_HUMAN	ubiquitin-conjugating enzyme E2C binding	217						cytoplasm	ligase activity			ovary(1)	1		all_cancers(76;0.000374)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0548)		BRCA - Breast invasive adenocarcinoma(397;0.0944)		ACGGTCTCTCCCAACATTACC	0.328													61	112	---	---	---	---	PASS	T	83748153	T	T	83748153	3	4	128	1	0	0	0	0	1	0	0	0	16844	632	22	3	544	3	UBE2CBP	6	83748153	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	37640712	83748153	87366914	83	46213										
FIG4	9896	broad.mit.edu	37	chr6	110056478	110056478	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tgacatctttgaagatgaagGattaattacacaaggtggaa	10	4	1	4			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:110056478G>T	uc003ptt.2	+	6	838	c.623G>T	c.(622-624)GGA>GTA	p.G208V	FIG4_uc011eau.1_Missense_Mutation_p.G62V	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	208	SAC.				cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		GAAGATGAAGGATTAATTACA	0.368													83	155	---	---	---	---	PASS	T	110056478	T	T	110056478	3	4	128	1	0	0	0	0	1	0	0	0	5888	1174	41	2	645	2	FIG4	6	110056478	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	26308325	110056478	61058589	84	46214										
C6orf204	387119	broad.mit.edu	37	chr6	118801596	118801596	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tttgttgtctgagattatcaTtttcattctgaagctgtttt	7	5	4	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:118801596T>C	uc003pxz.1	-	9	2414	c.1826A>G	c.(1825-1827)AAT>AGT	p.N609S		NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	609	Potential.					centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		GAGATTATCATTTTCATTCTG	0.343													76	121	---	---	---	---	PASS	C	118801596	C	C	118801596	3	2	128	1	0	0	0	0	1	0	0	0	2353	1493	52	5	611	5	C6orf204	6	118801596	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	8745118	118801596	52313471	85	46215										
TXLNB	167838	broad.mit.edu	37	chr6	139583798	139583798	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cctgacagagcttcatatttCgctcactctgctgctcgatc	7	14	3	2	rs147752054	by1000genomes	TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:139583798C>T	uc011eds.1	-	5	965	c.800G>A	c.(799-801)CGA>CAA	p.R267Q		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	267	Potential.					cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		CTTCATATTTCGCTCACTCTG	0.498													87	123	---	---	---	---	PASS	T	139583798	T	T	139583798	3	4	128	1	0	0	0	0	1	0	0	0	16785	884	31	2	1278	2	TXLNB	6	139583798	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	20782202	139583798	31531269	86	46216										
GRM1	2911	broad.mit.edu	37	chr6	146720537	146720537	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tcaacgaggccaaatatatcGcgttcaccatgtacaccacc	6	14	2	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:146720537G>C	uc010khw.1	+	8	2832	c.2362G>C	c.(2362-2364)GCG>CCG	p.A788P	GRM1_uc010khv.1_Missense_Mutation_p.A788P|GRM1_uc003qll.2_Missense_Mutation_p.A788P|GRM1_uc011edz.1_Missense_Mutation_p.A788P|GRM1_uc011eea.1_Missense_Mutation_p.A788P	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	788	Helical; Name=6; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CAAATATATCGCGTTCACCAT	0.493													64	117	---	---	---	---	PASS	C	146720537	C	C	146720537	3	2	128	1	0	0	0	0	1	0	0	0	6796	1087	38	4	2388	4	GRM1	6	146720537	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	7136739	146720537	24394530	87	46217										
PLEKHG1	57480	broad.mit.edu	37	chr6	151161857	151161857	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gcattctttgaatagtccgcGcactccaaaaaagccggtta	8	11	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:151161857G>A	uc003qny.1	+	17	4295	c.3983G>A	c.(3982-3984)CGC>CAC	p.R1328H	PLEKHG1_uc011eem.1_Missense_Mutation_p.R1387H	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	1328					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		AATAGTCCGCGCACTCCAAAA	0.428													13	179	---	---	---	---	PASS	A	151161857	A	A	151161857	3	1	128	1	0	0	0	0	1	0	0	0	12068	1087	38	1	4041	1	PLEKHG1	6	151161857	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	4441320	151161857	19953210	88	46218										
IGF2R	3482	broad.mit.edu	37	chr6	160525909	160525909	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ccagaggtgaaagttcactcGggcaggggagctggggcaga	18	8	1	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr6:160525909G>T	uc003qta.2	+	48	7417	c.7269G>T	c.(7267-7269)TCG>TCT	p.S2423S		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	2423	Cytoplasmic (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		AAGTTCACTCGGGCAGGGGAG	0.587													49	97	---	---	---	---	PASS	T	160525909	T	T	160525909	2	4	128	1	0	0	0	0	0	0	0	1	7576	1103	39	1		1	IGF2R	6	160525909	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	9364052	160525909	10589158	89	46219										
DNAH11	8701	broad.mit.edu	37	chr7	21646301	21646301	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tcagagagagattcagacacTatgcccctcttggatttaat	8	9	3	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr7:21646301T>A	uc003svc.2	+	20	3833	c.3802T>A	c.(3802-3804)TAT>AAT	p.Y1268N		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1268	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						ATTCAGACACTATGCCCCTCT	0.333									Kartagener_syndrome				18	33	---	---	---	---	PASS	A	21646301	A	A	21646301	3	1	128	1	0	0	0	0	1	0	0	0	4599	1522	53	5	3880	5	DNAH11	7	21646301	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08		21646301	137492362	90	46220										
DNAH11	8701	broad.mit.edu	37	chr7	21730458	21730458	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	actatgaacccgggttatgcTggtcgaaccgaattaccgga	11	10	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr7:21730458T>A	uc003svc.2	+	36	6052	c.6021T>A	c.(6019-6021)GCT>GCA	p.A2007A		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2007	AAA 1 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CGGGTTATGCTGGTCGAACCG	0.408									Kartagener_syndrome				123	240	---	---	---	---	PASS	A	21730458	A	A	21730458	2	1	128	1	0	0	0	0	0	0	0	1	4599	1567	55	5		5	DNAH11	7	21730458	Silent	SNP	T	TCGA-60-2719-01A-01D-1522-08	84157	21730458	137408205	91	46221										
DNAH11	8701	broad.mit.edu	37	chr7	21757534	21757534	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	acttcaattcctgagagtagCctggtgcaggtttgtcttcg	11	9	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr7:21757534C>A	uc003svc.2	+	44	7177	c.7146C>A	c.(7144-7146)AGC>AGA	p.S2382R		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2382					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTGAGAGTAGCCTGGTGCAGG	0.403									Kartagener_syndrome				69	165	---	---	---	---	PASS	A	21757534	A	A	21757534	3	1	128	1	0	0	0	0	1	0	0	0	4599	738	26	3	7317	3	DNAH11	7	21757534	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	27076	21757534	137381129	92	46222										
ELMO1	9844	broad.mit.edu	37	chr7	37298804	37298804	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	actcagtgccgctctccaccAtctgcgtgaggagagagata	11	12	3	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr7:37298804A>G	uc003tfk.1	-	6	702	c.395T>C	c.(394-396)ATG>ACG	p.M132T	ELMO1_uc011kbc.1_Missense_Mutation_p.M36T|ELMO1_uc010kxg.1_Missense_Mutation_p.M132T	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	132					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						GCTCTCCACCATCTGCGTGAG	0.522													18	53	---	---	---	---	PASS	G	37298804	G	G	37298804	3	3	128	1	0	0	0	0	1	0	0	0	5065	217	8	5	1856	5	ELMO1	7	37298804	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	15541270	37298804	121839859	93	46223										
HECW1	23072	broad.mit.edu	37	chr7	43496007	43496007	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	caccccggatggcatgcggaGatcggggtccatccagcaga	14	13	0	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr7:43496007G>C	uc003tid.1	+	13	3217	c.2612G>C	c.(2611-2613)AGA>ACA	p.R871T	HECW1_uc011kbi.1_Missense_Mutation_p.R837T	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	871	Potential.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GGCATGCGGAGATCGGGGTCC	0.582													11	44	---	---	---	---	PASS	C	43496007	C	C	43496007	3	2	128	1	0	0	0	0	1	0	0	0	7042	942	33	2	2654	2	HECW1	7	43496007	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	6197203	43496007	115642656	94	46224										
GRM3	2913	broad.mit.edu	37	chr7	86416271	86416271	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cagcaactacgagcaagagtCcaagatcatgtttgtggtga	11	8	1	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr7:86416271C>A	uc003uid.2	+	3	2262	c.1163C>A	c.(1162-1164)TCC>TAC	p.S388Y	GRM3_uc010lef.2_Missense_Mutation_p.S386Y|GRM3_uc010leg.2_Missense_Mutation_p.S260Y|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	388	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GAGCAAGAGTCCAAGATCATG	0.542													29	137	---	---	---	---	PASS	A	86416271	A	A	86416271	3	1	128	1	0	0	0	0	1	0	0	0	6798	855	30	2	1169	2	GRM3	7	86416271	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	42920264	86416271	72722392	95	46225										
CDK14	5218	broad.mit.edu	37	chr7	90419918	90419918	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aagttggtagctctgaaggtGatcaggctgcaggaagaaga	15	5	2	4			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr7:90419918G>A	uc003uky.2	+	5	717	c.495G>A	c.(493-495)GTG>GTA	p.V165V	CDK14_uc003ukt.1_Silent_p.V119V|CDK14_uc003ukv.1_Silent_p.V119V|CDK14_uc003uku.1_Silent_p.V119V|CDK14_uc003ukx.1_RNA|CDK14_uc003ukz.1_Silent_p.V147V|CDK14_uc010les.1_Silent_p.V119V|CDK14_uc011khl.1_Silent_p.V36V	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	165	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						CTCTGAAGGTGATCAGGCTGC	0.403													43	73	---	---	---	---	PASS	A	90419918	A	A	90419918	2	1	128	1	0	0	0	0	0	0	0	1	3130	1277	45	2		2	CDK14	7	90419918	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	4003647	90419918	68718745	96	46226										
FZD1	8321	broad.mit.edu	37	chr7	90895353	90895353	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gtgtgtaatgacaagttcgcCgaggacggggcacgcactgt	15	9	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr7:90895353C>T	uc003ula.2	+	1	1571	c.1158C>T	c.(1156-1158)GCC>GCT	p.A386A		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	386	Extracellular (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			ACAAGTTCGCCGAGGACGGGG	0.602													59	107	---	---	---	---	PASS	T	90895353	T	T	90895353	2	4	128	1	0	0	0	0	0	0	0	1	6128	639	23	1		1	FZD1	7	90895353	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	475435	90895353	68243310	97	46227										
SLC13A1	6561	broad.mit.edu	37	chr7	122765635	122765635	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tactcaaccaatttctcctgTaggtgtagttttagtcagtg	8	8	3	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr7:122765635T>C	uc003vkm.2	-	11	1253	c.1228A>G	c.(1228-1230)ACA>GCA	p.T410A	SLC13A1_uc010lks.2_Missense_Mutation_p.T286A	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	410						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	ATTTCTCCTGTAGGTGTAGTT	0.368													87	143	---	---	---	---	PASS	C	122765635	C	C	122765635	3	2	128	1	0	0	0	0	1	0	0	0	14391	1638	57	5	579	5	SLC13A1	7	122765635	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	31870282	122765635	36373028	98	46228										
FLNC	2318	broad.mit.edu	37	chr7	128492892	128492892	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ctttccacagggatctccttCacccccaaggaggtcgggga	11	14	2	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr7:128492892C>T	uc003vnz.3	+	37	6224	c.6015C>T	c.(6013-6015)TTC>TTT	p.F2005F	FLNC_uc003voa.3_Silent_p.F1972F	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2005	Filamin 18.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GGATCTCCTTCACCCCCAAGG	0.632													49	68	---	---	---	---	PASS	T	128492892	T	T	128492892	2	4	128	1	0	0	0	0	0	0	0	1	5935	825	29	2		2	FLNC	7	128492892	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	5727257	128492892	30645771	99	46229										
CNOT4	4850	broad.mit.edu	37	chr7	135048771	135048771	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gggtagaagtgcccttagccCgtcctgccattccttcatat	9	13	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr7:135048771C>A	uc011kpy.1	-	10	1767	c.1675G>T	c.(1675-1677)GGG>TGG	p.G559W	CNOT4_uc003vss.2_Intron|CNOT4_uc011kpz.1_Missense_Mutation_p.G556W|CNOT4_uc003vst.2_Intron	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						GCCCTTAGCCCGTCCTGCCAT	0.428													70	208	---	---	---	---	PASS	A	135048771	A	A	135048771	3	1	128	1	0	0	0	0	1	0	0	0	3621	667	23	1		1	CNOT4	7	135048771	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	6555879	135048771	24089892	100	46230										
CSMD1	64478	broad.mit.edu	37	chr8	3855524	3855524	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	caatggtgtccccgggctcaGccagaatggtccaggtgcag	14	12	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr8:3855524G>A	uc011kwk.1	-	5	1109	c.719C>T	c.(718-720)GCT>GTT	p.A240V		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	240	Extracellular (Potential).|CUB 2.					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)		CCCGGGCTCAGCCAGAATGGT	0.562													7	7	---	---	---	---	PASS	A	3855524	A	A	3855524	3	1	128	1	0	0	0	0	1	0	0	0	3944	971	34	3	10052	3	CSMD1	8	3855524	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08		3855524	142508498	101	46231										
KCTD9	54793	broad.mit.edu	37	chr8	25296837	25296837	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tacaatgagctgtccatgacGcaagtagttcaaaatgggtt	10	7	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr8:25296837G>A	uc003xeo.2	-	6	615	c.457C>T	c.(457-459)CGT>TGT	p.R153C	PPP2R2A_uc003xek.2_Intron	NM_017634	NP_060104	Q7L273	KCTD9_HUMAN	potassium channel tetramerisation domain	153	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		TGTCCATGACGCAAGTAGTTC	0.353													7	67	---	---	---	---	PASS	A	25296837	A	A	25296837	3	1	128	1	0	0	0	0	1	0	0	0	8116	1087	38	1	740	1	KCTD9	8	25296837	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	21441313	25296837	121067185	102	46232										
GSR	2936	broad.mit.edu	37	chr8	30567337	30567337	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gtgttgacacttaccgccaaTtgaatttaccctcacaactt	5	12	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr8:30567337T>C	uc003xih.1	-	3	507	c.416A>G	c.(415-417)AAT>AGT	p.N139S		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	139					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)	TTACCGCCAATTGAATTTACC	0.368													47	21	---	---	---	---	PASS	C	30567337	C	C	30567337	3	2	128	1	0	0	0	0	1	0	0	0	6828	1493	52	5	1196	5	GSR	8	30567337	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	5270500	30567337	115796685	103	46233										
TRAM1	23471	broad.mit.edu	37	chr8	71506818	71506818	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tgatatgtagaaaaacttcaTttgaaatctgtacaacacaa	5	6	2	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr8:71506818T>C	uc003xyo.1	-	6	663	c.493A>G	c.(493-495)ATG>GTG	p.M165V	TRAM1_uc011lfc.1_Missense_Mutation_p.M134V	NM_014294	NP_055109	Q15629	TRAM1_HUMAN	translocation associated membrane protein 1	165	Helical; (Potential).|TLC.				cotranslational protein targeting to membrane|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity			ovary(1)	1			Epithelial(68;0.00679)|all cancers(69;0.0324)|OV - Ovarian serous cystadenocarcinoma(28;0.0509)			AAAAACTTCATTTGAAATCTG	0.308													52	106	---	---	---	---	PASS	C	71506818	C	C	71506818	3	2	128	1	0	0	0	0	1	0	0	0	16448	1493	52	5	655	5	TRAM1	8	71506818	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	40939481	71506818	74857204	104	46234										
FABP5	2171	broad.mit.edu	37	chr8	82195650	82195650	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gcaatggccaagccagattgTatcatcacttgtgatggtaa	10	8	2	2	rs143988575		TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr8:82195650T>C	uc003yca.1	+	2	177	c.129T>C	c.(127-129)TGT>TGC	p.C43C		NM_001444	NP_001435	Q01469	FABP5_HUMAN	fatty acid binding protein 5	43					epidermis development	cytoplasm	fatty acid binding|protein binding|transporter activity				0	Lung NSC(7;3.57e-05)|all_lung(9;0.00011)		Epithelial(68;0.102)			AGCCAGATTGTATCATCACTT	0.388													58	55	---	---	---	---	PASS	C	82195650	C	C	82195650	2	2	128	1	0	0	0	0	0	0	0	1	5360	1644	57	5		5	FABP5	8	82195650	Silent	SNP	T	TCGA-60-2719-01A-01D-1522-08	10688832	82195650	64168372	105	46235										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885116	88885116	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gaaggccacactgggaatgtCgttctccgaggcggggtatg	16	9	1	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr8:88885116C>A	uc003ydz.2	-	1	1181	c.1084G>T	c.(1084-1086)GAC>TAC	p.D362Y		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	362										ovary(1)	1						CTGGGAATGTCGTTCTCCGAG	0.627													9	172	---	---	---	---	PASS	A	88885116	A	A	88885116	3	1	128	1	0	0	0	0	1	0	0	0	4272	884	31	2	107	2	DCAF4L2	8	88885116	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	6689466	88885116	57478906	106	46236										
KCNS2	3788	broad.mit.edu	37	chr8	99440386	99440386	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggccattctggagctctgcgAtgactacgacgacgtccagc	12	13	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr8:99440386A>G	uc003yin.2	+	2	529	c.179A>G	c.(178-180)GAT>GGT	p.D60G		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	60	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			GAGCTCTGCGATGACTACGAC	0.627													25	165	---	---	---	---	PASS	G	99440386	G	G	99440386	3	3	128	1	0	0	0	0	1	0	0	0	8089	333	12	5	181	5	KCNS2	8	99440386	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	10555270	99440386	46923636	107	46237										
FAM135B	51059	broad.mit.edu	37	chr8	139180147	139180147	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aacagacaaacctgtcgcagGgcagtccacgtatctgtcct	9	13	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr8:139180147G>A	uc003yuy.2	-	12	1420	c.1249C>T	c.(1249-1251)CCT>TCT	p.P417S	FAM135B_uc003yux.2_Missense_Mutation_p.P318S|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	417										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)			CCTGTCGCAGGGCAGTCCACG	0.507										HNSCC(54;0.14)			68	238	---	---	---	---	PASS	A	139180147	A	A	139180147	3	1	128	1	0	0	0	0	1	0	0	0	5449	1232	43	3	3007	3	FAM135B	8	139180147	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	39739761	139180147	7183875	108	46238										
CYP11B1	1584	broad.mit.edu	37	chr8	143956549	143956549	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggggttgcgacccagagagtAgaggaacacgcgcaccaatg	15	10	0	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr8:143956549A>G	uc003yxi.2	-	8	1229	c.1222T>C	c.(1222-1224)TAC>CAC	p.Y408H	CYP11B1_uc010mex.2_Missense_Mutation_p.Y107H|CYP11B1_uc003yxh.2_Intron|CYP11B1_uc003yxj.2_Intron|CYP11B1_uc010mey.2_Missense_Mutation_p.Y479H	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	408					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	CCCAGAGAGTAGAGGAACACG	0.632									Familial_Hyperaldosteronism_type_I				98	83	---	---	---	---	PASS	G	143956549	G	G	143956549	3	3	128	1	0	0	0	0	1	0	0	0	4145	420	15	5	297	5	CYP11B1	8	143956549	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	4776402	143956549	2407473	109	46239										
GRHPR	9380	broad.mit.edu	37	chr9	37424897	37424897	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tccctgccaaggagctagagCgaggtgtggcgggggcccac	17	12	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr9:37424897C>T	uc003zzu.1	+	2	180	c.139C>T	c.(139-141)CGA>TGA	p.R47*	GRHPR_uc010mlu.2_5'UTR|GRHPR_uc010mlv.1_5'UTR|GRHPR_uc003zzt.1_5'UTR	NM_012203	NP_036335	Q9UBQ7	GRHPR_HUMAN	glyoxylate reductase/hydroxypyruvate reductase	47					cellular nitrogen compound metabolic process|excretion|glyoxylate metabolic process	peroxisomal matrix	glycerate dehydrogenase activity|glyoxylate reductase (NADP) activity|hydroxypyruvate reductase activity|NAD binding|protein binding				0				GBM - Glioblastoma multiforme(29;0.00687)		GGAGCTAGAGCGAGGTGTGGC	0.667													16	26	---	---	---	---	PASS	T	37424897	T	T	37424897	4	4	128	1	0	0	0	0	0	1	0	0	6766	760	27	1	145	1	GRHPR	9	37424897	Nonsense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08		37424897	103788534	110	46240										
C9orf135	138255	broad.mit.edu	37	chr9	72459523	72459523	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aattcaacatatcggcgactGggaaccgatgaatccccagt	9	11	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr9:72459523G>T	uc004ahl.2	+	2	308	c.243G>T	c.(241-243)CTG>CTT	p.L81L	C9orf135_uc011lrw.1_Intron|C9orf135_uc010moq.2_Intron|C9orf135_uc011lrx.1_Intron|C9orf135_uc010mop.2_Silent_p.L81L	NM_001010940	NP_001010940	Q5VTT2	CI135_HUMAN	hypothetical protein LOC138255	81	Extracellular (Potential).					integral to membrane				ovary(1)	1						ATCGGCGACTGGGAACCGATG	0.388													5	89	---	---	---	---	PASS	T	72459523	T	T	72459523	2	4	128	1	0	0	0	0	0	0	0	1	2458	1335	47	3		3	C9orf135	9	72459523	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	35034626	72459523	68753908	111	46241										
SLC27A4	10999	broad.mit.edu	37	chr9	131110861	131110861	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gccagcctggacccctcgctCagcctcttctgctctggctc	9	19	4	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr9:131110861C>T	uc004but.2	+	4	878	c.594C>T	c.(592-594)CTC>CTT	p.L198L	SLC27A4_uc004buu.2_Intron	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	198					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						ACCCCTCGCTCAGCCTCTTCT	0.627													50	35	---	---	---	---	PASS	T	131110861	T	T	131110861	2	4	128	1	0	0	0	0	0	0	0	1	14528	813	29	2		2	SLC27A4	9	131110861	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	58651338	131110861	10102570	112	46242										
POMT1	10585	broad.mit.edu	37	chr9	134393912	134393912	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tttgtgcacgtgaacacttcCgctgtcttaaaggtaaggac	10	9	1	1	rs144385159	byFrequency	TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr9:134393912C>T	uc004cav.2	+	14	1621	c.1419C>T	c.(1417-1419)TCC>TCT	p.S473S	POMT1_uc004cax.2_Silent_p.S451S|POMT1_uc011mcj.1_Silent_p.S229S|POMT1_uc004cau.2_Silent_p.S451S|POMT1_uc004caw.2_Silent_p.S397S|POMT1_uc011mck.1_Silent_p.S334S|POMT1_uc011mcl.1_Silent_p.S299S|POMT1_uc011mcm.1_Silent_p.S421S|POMT1_uc011mcn.1_Silent_p.S176S	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	473	MIR 3.				multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		TGAACACTTCCGCTGTCTTAA	0.537													183	107	---	---	---	---	PASS	T	134393912	T	T	134393912	2	4	128	1	0	0	0	0	0	0	0	1	12245	639	23	1		1	POMT1	9	134393912	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	3283051	134393912	6819519	113	46243										
LCN8	138307	broad.mit.edu	37	chr9	139651601	139651602	+	Frame_Shift_Ins	INS	-	C	C													0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atcggaggccacaccgacttINSccctccagaatcctccaatc							TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr9:139651601_139651602insC	uc004cjb.1	-	2	392_393	c.43_44insG	c.(43-45)GAAfs	p.E15fs	LCN8_uc004cja.2_5'Flank|LCN8_uc004cjc.1_Frame_Shift_Ins_p.E15fs	NM_178469	NP_848564	Q6JVE9	LCN8_HUMAN	lipocalin 8	38					transport	extracellular region	binding			pancreas(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;5.56e-06)|Epithelial(140;8.32e-05)		CACACCGACTTCCCTCCAGAAT	0.624													13	17	---	---	---	---		C	139651602	C	C	139651601	7	5	128	1	0	1	1	0	0	0	0	0	8686	1783	62	0	438	0	LCN8	9	139651601	Frame_Shift_Ins	INS	-	TCGA-60-2719-01A-01D-1522-08	5257689	139651601	1561830	114	46244										
CACNA1B	774	broad.mit.edu	37	chr9	140880881	140880881	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gcaggtactggagctccctgCggaacctggtggtgtccctg	15	12	0	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr9:140880881C>T	uc004cog.2	+	14	1931	c.1786C>T	c.(1786-1788)CGG>TGG	p.R596W	CACNA1B_uc011mfd.1_Missense_Mutation_p.R127W	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	596	Cytoplasmic (Potential).|II.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	GAGCTCCCTGCGGAACCTGGT	0.587													3	25	---	---	---	---	PASS	T	140880881	T	T	140880881	3	4	128	1	0	0	0	0	1	0	0	0	2539	759	27	1	1840	1	CACNA1B	9	140880881	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	1229280	140880881	332550	115	46245										
FRMD4A	55691	broad.mit.edu	37	chr10	13900908	13900908	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cttgacatcggcggccctccGtcatctaagagggaagagaa	12	11	2	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr10:13900908G>A	uc001ims.2	-	3	402	c.50C>T	c.(49-51)ACG>ATG	p.T17M	FRMD4A_uc009xjf.1_Missense_Mutation_p.T17M|FRMD4A_uc001imt.1_Missense_Mutation_p.T50M|FRMD4A_uc001imu.1_Missense_Mutation_p.T33M	NM_018027	NP_060497	Q9P2Q2	FRM4A_HUMAN	FERM domain containing 4A	17						cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3						GCGGCCCTCCGTCATCTAAGA	0.498													9	147	---	---	---	---	PASS	A	13900908	A	A	13900908	3	1	128	1	0	0	0	0	1	0	0	0	6051	1145	40	1	3157	1	FRMD4A	10	13900908	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08		13900908	121633839	116	46246										
MLLT10	8028	broad.mit.edu	37	chr10	21959404	21959404	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	acaagcactagcaacaactcTatatctggatcattgaagcg	7	10	3	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr10:21959404T>A	uc001iqs.2	+	10	1170	c.822T>A	c.(820-822)TCT>TCA	p.S274S	MLLT10_uc001iqt.2_Silent_p.S274S|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Silent_p.S274S|MLLT10_uc001ira.2_5'UTR|MLLT10_uc001iqz.2_Silent_p.S29S	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	274	Self-association.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						GCAACAACTCTATATCTGGAT	0.368			T	MLL|PICALM|CDK6	AL								33	23	---	---	---	---	PASS	A	21959404	A	A	21959404	2	1	128	1	0	0	0	0	0	0	0	1	9626	1509	53	5		5	MLLT10	10	21959404	Silent	SNP	T	TCGA-60-2719-01A-01D-1522-08	8058496	21959404	113575343	117	46247										
SLC18A2	6571	broad.mit.edu	37	chr10	119013587	119013587	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ttctccagcagctatgccttCctgctgattgccaggtcgct	9	14	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr10:119013587C>T	uc001ldd.1	+	5	583	c.552C>T	c.(550-552)TTC>TTT	p.F184F	SLC18A2_uc009xyy.1_5'UTR	NM_003054	NP_003045	Q05940	VMAT2_HUMAN	solute carrier family 18 (vesicular monoamine),	184	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted monoamine transport vesicle membrane|integral to plasma membrane|membrane fraction	monoamine transmembrane transporter activity				0		Colorectal(252;0.19)		all cancers(201;0.029)	Alseroxylon(DB00386)|Reserpine(DB00206)|Tetrabenazine(DB04844)	GCTATGCCTTCCTGCTGATTG	0.602													146	76	---	---	---	---	PASS	T	119013587	T	T	119013587	2	4	128	1	0	0	0	0	0	0	0	1	14426	854	30	2		2	SLC18A2	10	119013587	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	97054183	119013587	16521160	118	46248										
MUC6	4588	broad.mit.edu	37	chr11	1016826	1016826	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atggggttggataggtagtgGtggtctggaaggatgttgca	19	2	1	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:1016826G>T	uc001lsw.2	-	31	6026	c.5975C>A	c.(5974-5976)ACC>AAC	p.T1992N		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1992	Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		ATAGGTAGTGGTGGTCTGGAA	0.552													19	676	---	---	---	---	PASS	T	1016826	T	T	1016826	3	4	128	1	0	0	0	0	1	0	0	0	9980	1261	44	3	1356	3	MUC6	11	1016826	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08		1016826	133989690	119	46249										
OR51A4	401666	broad.mit.edu	37	chr11	4967668	4967668	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cccagtacagtcttgaggatCagggtgtaagacacagcaat	11	9	2	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:4967668C>G	uc010qys.1	-	1	663	c.663G>C	c.(661-663)CTG>CTC	p.L221L		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	221	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCTTGAGGATCAGGGTGTAAG	0.428													45	101	---	---	---	---	PASS	G	4967668	G	G	4967668	2	3	128	1	0	0	0	0	0	0	0	1	11087	813	29	2		2	OR51A4	11	4967668	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	3950842	4967668	130038848	120	46250										
OR56A4	120793	broad.mit.edu	37	chr11	6023374	6023374	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	agagctgggggaatgaggtgGtgcaggatgttgagcaggat	20	3	0	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:6023374G>T	uc010qzv.1	-	1	1005	c.1005C>A	c.(1003-1005)CAC>CAA	p.H335Q		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAATGAGGTGGTGCAGGATGT	0.493													38	55	---	---	---	---	PASS	T	6023374	T	T	6023374	3	4	128	1	0	0	0	0	1	0	0	0	11135	1252	44	3	94	3	OR56A4	11	6023374	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	1055706	6023374	128983142	121	46251										
OR6A2	8590	broad.mit.edu	37	chr11	6816012	6816012	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ctggtgctggtacaggtgcaGagtacagcatagggctctct	14	9	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:6816012G>C	uc001mes.1	-	1	1128	c.928C>G	c.(928-930)CTG>GTG	p.L310V		NM_003696	NP_003687	O95222	OR6A2_HUMAN	olfactory receptor, family 6, subfamily A,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TACAGGTGCAGAGTACAGCAT	0.448													56	92	---	---	---	---	PASS	C	6816012	C	C	6816012	3	2	128	1	0	0	0	0	1	0	0	0	11186	933	33	2	59	2	OR6A2	11	6816012	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	792638	6816012	128190504	122	46252										
OR10A4	283297	broad.mit.edu	37	chr11	6898608	6898608	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aggcattctccacctgttccGcccacctcttggttgtctct	7	16	3	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:6898608G>A	uc010rat.1	+	1	730	c.730G>A	c.(730-732)GCC>ACC	p.A244T		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	244	Helical; Name=6; (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)		CACCTGTTCCGCCCACCTCTT	0.527													82	115	---	---	---	---	PASS	A	6898608	A	A	6898608	3	1	128	1	0	0	0	0	1	0	0	0	10892	1087	38	1	732	1	OR10A4	11	6898608	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	82596	6898608	128107908	123	46253										
AMPD3	272	broad.mit.edu	37	chr11	10503750	10503750	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	catccgcgggcggatactgcAcctccggaagagggccttcc	13	15	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:10503750A>G	uc001mio.1	+	4	902	c.567A>G	c.(565-567)GCA>GCG	p.A189A	AMPD3_uc010rbz.1_Silent_p.A30A|AMPD3_uc001min.1_Silent_p.A198A|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfx.1_Silent_p.A189A|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Silent_p.A196A|AMPD3_uc009yfy.2_Silent_p.A189A	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	189					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		CGGATACTGCACCTCCGGAAG	0.622													43	73	---	---	---	---	PASS	G	10503750	G	G	10503750	2	3	128	1	0	0	0	0	0	0	0	1	587	146	6	5		5	AMPD3	11	10503750	Silent	SNP	A	TCGA-60-2719-01A-01D-1522-08	3605142	10503750	124502766	124	46254										
INSC	387755	broad.mit.edu	37	chr11	15247263	15247263	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gcggcccttgccaacatcacGttctttgacacaatggcctg	9	14	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:15247263G>A	uc001mly.2	+	9	1246	c.1200G>A	c.(1198-1200)ACG>ACA	p.T400T	INSC_uc001mlz.2_Silent_p.T353T|INSC_uc001mma.2_Silent_p.T353T|INSC_uc010rcs.1_Silent_p.T388T|INSC_uc001mmb.2_Silent_p.T353T|INSC_uc001mmc.2_Silent_p.T311T	NM_001031853	NP_001027024	Q1MX18	INSC_HUMAN	inscuteable isoform a	400					cell differentiation|nervous system development	cytoplasm	binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)	5						CCAACATCACGTTCTTTGACA	0.512													24	31	---	---	---	---	PASS	A	15247263	A	A	15247263	2	1	128	1	0	0	0	0	0	0	0	1	7764	1132	40	1		1	INSC	11	15247263	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	4743513	15247263	119759253	125	46255										
WT1	7490	broad.mit.edu	37	chr11	32421532	32421532	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	accgtgcgtgtgtattctgtAttgggctccgcagaggatgg	15	8	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:32421532A>C	uc001mtn.1	-	6	1256	c.1060T>G	c.(1060-1062)TAC>GAC	p.Y354D	WT1_uc001mtl.1_Missense_Mutation_p.Y142D|WT1_uc001mtm.1_Missense_Mutation_p.Y125D|WT1_uc001mto.1_Missense_Mutation_p.Y354D|WT1_uc001mtp.1_Missense_Mutation_p.Y337D|WT1_uc001mtq.1_Missense_Mutation_p.Y337D|WT1_uc009yjs.1_RNA	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D	286					adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding		EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			TGTATTCTGTATTGGGCTCCG	0.577			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				50	86	---	---	---	---	PASS	C	32421532	C	C	32421532	3	2	128	1	0	0	0	0	1	0	0	0	17405	449	16	5	513	5	WT1	11	32421532	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	17174269	32421532	102584984	126	46256										
PEX16	9409	broad.mit.edu	37	chr11	45935463	45935463	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gccgctccctccgggtcaggCcctttctgtcactcaggagg	12	16	4	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:45935463C>A	uc001nbu.2	-	9	1106	c.794G>T	c.(793-795)GGC>GTC	p.G265V	PEX16_uc001nbt.2_Missense_Mutation_p.G265V	NM_004813	NP_004804	Q9Y5Y5	PEX16_HUMAN	peroxisomal biogenesis factor 16 isoform 1	265	Interaction with PEX19.|Cytoplasmic (Potential).				ER-dependent peroxisome organization|peroxisome membrane biogenesis|protein import into peroxisome matrix|protein import into peroxisome membrane	endoplasmic reticulum membrane|integral to peroxisomal membrane	protein C-terminus binding			ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.223)		CCGGGTCAGGCCCTTTCTGTC	0.652													10	15	---	---	---	---	PASS	A	45935463	A	A	45935463	3	1	128	1	0	0	0	0	1	0	0	0	11743	739	26	3	321	3	PEX16	11	45935463	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	13513931	45935463	89071053	127	46257										
OR8H1	219469	broad.mit.edu	37	chr11	56058339	56058339	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	agtaactgaggtcaataaatGacaagtgagtaaggaaaaaa	10	3	1	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:56058339G>T	uc010rje.1	-	1	200	c.200C>A	c.(199-201)TCA>TAA	p.S67*		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					GTCAATAAATGACAAGTGAGT	0.418													223	391	---	---	---	---	PASS	T	56058339	T	T	56058339	4	4	128	1	0	0	0	0	0	1	0	0	11237	1294	45	2	737	2	OR8H1	11	56058339	Nonsense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	10122876	56058339	78948177	128	46258										
OR4D6	219983	broad.mit.edu	37	chr11	59225269	59225269	+	Frame_Shift_Del	DEL	C	-	-													0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cattaataacacggtcattaCccccatgctgaaccccatca							TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:59225269delC	uc010rku.1	+	1	836	c.836delC	c.(835-837)ACCfs	p.T279fs		NM_001004708	NP_001004708	Q8NGJ1	OR4D6_HUMAN	olfactory receptor, family 4, subfamily D,	279	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACGGTCATTACCCCCATGCTG	0.502													252	112	---	---	---	---		-	59225269	-	-	59225269	7	5	128	1	0	1	0	1	0	0	0	0	11058	507	18	0	838	0	OR4D6	11	59225269	Frame_Shift_Del	DEL	C	TCGA-60-2719-01A-01D-1522-08	3166930	59225269	75781247	129	46259										
USP28	57646	broad.mit.edu	37	chr11	113675696	113675696	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gtagacaaggacatgctgaaGtcgaggatcactgtgagagg	15	6	1	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:113675696G>A	uc001poh.2	-	20	2506	c.2473C>T	c.(2473-2475)CTT>TTT	p.L825F	USP28_uc001pog.2_Missense_Mutation_p.L501F|USP28_uc010rwy.1_Missense_Mutation_p.L668F|USP28_uc001poi.2_Missense_Mutation_p.L148F	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	825					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)		ACATGCTGAAGTCGAGGATCA	0.433													53	88	---	---	---	---	PASS	A	113675696	A	A	113675696	3	1	128	1	0	0	0	0	1	0	0	0	17055	1029	36	3	784	3	USP28	11	113675696	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	54450427	113675696	21330820	130	46260										
OR8D2	283160	broad.mit.edu	37	chr11	124189986	124189986	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aggttccccaccactgtgacCacatatattccaaggaacag	7	13	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:124189986C>G	uc010sah.1	-	1	108	c.108G>C	c.(106-108)GTG>GTC	p.V36V		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0525)		CCACTGTGACCACATATATTC	0.453													49	120	---	---	---	---	PASS	G	124189986	G	G	124189986	2	3	128	1	0	0	0	0	0	0	0	1	11232	581	21	4		4	OR8D2	11	124189986	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	10514290	124189986	10816530	131	46261										
ARHGAP32	9743	broad.mit.edu	37	chr11	128843255	128843255	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ttcgggcaacatttttcggaGgcggtggtggtgggataaga	17	5	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr11:128843255G>A	uc009zcp.2	-	21	3104	c.3104C>T	c.(3103-3105)CCT>CTT	p.P1035L	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_5'UTR|ARHGAP32_uc001qez.2_Missense_Mutation_p.P686L	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1035	Poly-Pro.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						ATTTTTCGGAGGCGGTGGTGG	0.527													121	157	---	---	---	---	PASS	A	128843255	A	A	128843255	3	1	128	1	0	0	0	0	1	0	0	0	881	1000	35	3	3167	3	ARHGAP32	11	128843255	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	4653269	128843255	6163261	132	46262										
SLC2A3	6515	broad.mit.edu	37	chr12	8077098	8077098	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ccttcttcctgccctttccaCcagaaatagctggaagaaga	7	13	1	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr12:8077098C>T	uc001qtr.2	-	8	1238	c.976G>A	c.(976-978)GTG>ATG	p.V326M		NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	326	Cytoplasmic (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		GCCCTTTCCACCAGAAATAGC	0.433													27	114	---	---	---	---	PASS	T	8077098	T	T	8077098	3	4	128	1	0	0	0	0	1	0	0	0	14545	507	18	3	526	3	SLC2A3	12	8077098	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08		8077098	125774797	133	46263										
KLRC1	3821	broad.mit.edu	37	chr12	10601872	10601872	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tctatagaaagcagactggaGttcttcgaagtacaggccag	11	8	2	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr12:10601872G>A	uc001qyl.2	-	5	617	c.453C>T	c.(451-453)AAC>AAT	p.N151N	KLRC1_uc009zhm.1_Silent_p.N151N|KLRC1_uc001qym.2_Silent_p.N133N|KLRC1_uc001qyn.2_Silent_p.N151N|KLRC1_uc001qyo.2_Silent_p.N133N	NM_002259	NP_002250	P26715	NKG2A_HUMAN	killer cell lectin-like receptor subfamily C,	151	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|regulation of immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0						GCAGACTGGAGTTCTTCGAAG	0.303													154	246	---	---	---	---	PASS	A	10601872	A	A	10601872	2	1	128	1	0	0	0	0	0	0	0	1	8415	1020	36	3		3	KLRC1	12	10601872	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	2524774	10601872	123250023	134	46264										
ST8SIA1	6489	broad.mit.edu	37	chr12	22487151	22487151	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggacgtttgtcgccgggcccGcccgcaggggctcatcgcag	16	15	1	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr12:22487151G>T	uc001rfo.3	-	1	498	c.16C>A	c.(16-18)CGG>AGG	p.R6R	ST8SIA1_uc009zix.2_5'UTR|uc001rfp.1_Intron	NM_003034	NP_003025	Q92185	SIA8A_HUMAN	alpha-2,8-sialyltransferase 1	6	Cytoplasmic (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(3)	3						CGCCGGGCCCGCCCGCAGGGG	0.731													26	45	---	---	---	---	PASS	T	22487151	T	T	22487151	2	4	128	1	0	0	0	0	0	0	0	1	15230	1086	38	1		1	ST8SIA1	12	22487151	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	11885279	22487151	111364744	135	46265										
CAPRIN2	65981	broad.mit.edu	37	chr12	30888129	30888129	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cttctctgggccttcttttgCgcttttagtagctgttaaaa	8	9	2	0	rs145888176		TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr12:30888129C>G	uc001rji.1	-	4	1333	c.582G>C	c.(580-582)GCG>GCC	p.A194A	CAPRIN2_uc001rjf.1_5'UTR|CAPRIN2_uc001rjg.1_5'UTR|CAPRIN2_uc001rjh.1_Silent_p.A194A|CAPRIN2_uc001rjj.1_5'UTR|CAPRIN2_uc001rjk.3_Silent_p.A194A|CAPRIN2_uc001rjl.3_Silent_p.A194A	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	194	Potential.				negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					CCTTCTTTTGCGCTTTTAGTA	0.378													78	171	---	---	---	---	PASS	G	30888129	G	G	30888129	2	3	128	1	0	0	0	0	0	0	0	1	2636	755	27	4		4	CAPRIN2	12	30888129	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	8400978	30888129	102963766	136	46266										
PPHLN1	51535	broad.mit.edu	37	chr12	42792791	42792791	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	catcaaaaaccaaagagattGaacaggtgagagtctagttg	10	6	2	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr12:42792791G>A	uc001rng.1	+	9	1009	c.904G>A	c.(904-906)GAA>AAA	p.E302K	PPHLN1_uc001rmy.2_Missense_Mutation_p.E320K|PPHLN1_uc001rna.2_Missense_Mutation_p.E254K|PPHLN1_uc001rne.2_Missense_Mutation_p.E290K|PPHLN1_uc001rnb.2_Missense_Mutation_p.E309K|PPHLN1_uc001rnd.2_Missense_Mutation_p.E254K|PPHLN1_uc001rnc.2_Missense_Mutation_p.E302K|PPHLN1_uc001rnf.2_Missense_Mutation_p.E283K|PPHLN1_uc010skq.1_Missense_Mutation_p.E228K|PPHLN1_uc010skr.1_Missense_Mutation_p.E247K|PPHLN1_uc010sks.1_Missense_Mutation_p.E228K|PPHLN1_uc010skt.1_Missense_Mutation_p.E182K|PPHLN1_uc001rni.1_Missense_Mutation_p.E247K|PPHLN1_uc001rnh.1_RNA|PPHLN1_uc010sku.1_Missense_Mutation_p.E235K|PPHLN1_uc001rnj.2_Missense_Mutation_p.E118K	NM_016488	NP_057572	Q8NEY8	PPHLN_HUMAN	periphilin 1 isoform 1	302					keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)		CAAAGAGATTGAACAGGTGAG	0.343													61	98	---	---	---	---	PASS	A	42792791	A	A	42792791	3	1	128	1	0	0	0	0	1	0	0	0	12315	1291	45	2	959	2	PPHLN1	12	42792791	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	11904662	42792791	91059104	137	46267										
ZDHHC17	23390	broad.mit.edu	37	chr12	77216233	77216233	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cagagaaaaaatgtgtggatGatcaaccacttacaagaggc	10	7	1	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr12:77216233G>T	uc001syk.1	+	8	982	c.819G>T	c.(817-819)ATG>ATT	p.M273I	ZDHHC17_uc001syi.1_RNA|ZDHHC17_uc001syj.2_RNA	NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	273	Cytoplasmic (Potential).				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						ATGTGTGGATGATCAACCACT	0.368													17	43	---	---	---	---	PASS	T	77216233	T	T	77216233	3	4	128	1	0	0	0	0	1	0	0	0	17604	1290	45	2	849	2	ZDHHC17	12	77216233	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	34423442	77216233	56635662	138	46268										
MYF6	4618	broad.mit.edu	37	chr12	81101662	81101662	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gcccccggaagcggggagcgAcagcagcggagaggaacatg	18	11	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr12:81101662A>T	uc001szf.1	+	1	217	c.164A>T	c.(163-165)GAC>GTC	p.D55V		NM_002469	NP_002460	P23409	MYF6_HUMAN	myogenic factor 6	55					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						GCGGGGAGCGACAGCAGCGGA	0.617													41	57	---	---	---	---	PASS	T	81101662	T	T	81101662	3	4	128	1	0	0	0	0	1	0	0	0	10028	275	10	5	166	5	MYF6	12	81101662	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	3885429	81101662	52750233	139	46269										
TMEM119	338773	broad.mit.edu	37	chr12	108985855	108985855	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tcagcagaaaggccagggagCccaccacagcaatcagcatc	10	14	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr12:108985855C>A	uc001tng.2	-	2	468	c.305G>T	c.(304-306)GGC>GTC	p.G102V	TMEM119_uc001tnf.2_RNA	NM_181724	NP_859075	Q4V9L6	TM119_HUMAN	transmembrane protein 119 precursor	102	Helical; (Potential).					integral to membrane				ovary(1)	1						GGCCAGGGAGCCCACCACAGC	0.602													36	54	---	---	---	---	PASS	A	108985855	A	A	108985855	3	1	128	1	0	0	0	0	1	0	0	0	16029	739	26	3	550	3	TMEM119	12	108985855	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	27884193	108985855	24866040	140	46270										
FBXW8	26259	broad.mit.edu	37	chr12	117402577	117402577	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cccttcctggaatcagaggaCgaggaggatgagcctggaat	14	9	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr12:117402577C>T	uc001twg.1	+	5	835	c.753C>T	c.(751-753)GAC>GAT	p.D251D	FBXW8_uc001twf.1_Silent_p.D185D|FBXW8_uc009zwp.1_RNA	NM_153348	NP_699179	Q8N3Y1	FBXW8_HUMAN	F-box and WD repeat domain containing 8 isoform	251							protein binding			ovary(2)|pancreas(1)	3	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)		AATCAGAGGACGAGGAGGATG	0.517													93	220	---	---	---	---	PASS	T	117402577	T	T	117402577	2	4	128	1	0	0	0	0	0	0	0	1	5770	535	19	1		1	FBXW8	12	117402577	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	8416722	117402577	16449318	141	46271										
CDK2AP1	8099	broad.mit.edu	37	chr12	123751808	123751808	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aagacgttgccatgctggtgGaaggcgagtggacactccca	14	10	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr12:123751808G>A	uc001ueq.2	-	2	599	c.77C>T	c.(76-78)TCC>TTC	p.S26F	CDK2AP1_uc001uep.2_RNA	NM_004642	NP_004633	O14519	CDKA1_HUMAN	CDK2-associated protein  1	26					DNA-dependent DNA replication|protein phosphorylation|S phase of mitotic cell cycle	cytoplasm|nucleus	DNA binding|protein binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000554)|Epithelial(86;0.00178)		CATGCTGGTGGAAGGCGAGTG	0.612													38	66	---	---	---	---	PASS	A	123751808	A	A	123751808	3	1	128	1	0	0	0	0	1	0	0	0	3138	1174	41	2	282	2	CDK2AP1	12	123751808	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	6349231	123751808	10100087	142	46272										
CLYBL	171425	broad.mit.edu	37	chr13	100518606	100518606	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ctggtgtacattgactttcgAgatggagctgggctgcttag	14	7	0	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr13:100518606A>T	uc001vok.2	+	6	761	c.747A>T	c.(745-747)CGA>CGT	p.R249R	CLYBL_uc010tix.1_3'UTR|CLYBL_uc010tiy.1_Silent_p.R215R	NM_206808	NP_996531	Q8N0X4	CLYBL_HUMAN	citrate lyase beta like precursor	249					cellular aromatic compound metabolic process	citrate lyase complex|mitochondrion	citrate (pro-3S)-lyase activity|metal ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TTGACTTTCGAGATGGAGCTG	0.468													43	30	---	---	---	---	PASS	T	100518606	T	T	100518606	2	4	128	1	0	0	0	0	0	0	0	1	3573	291	11	5		5	CLYBL	13	100518606	Silent	SNP	A	TCGA-60-2719-01A-01D-1522-08		100518606	14651272	143	46273										
OR4Q3	441669	broad.mit.edu	37	chr14	20216294	20216294	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ttctgccagggccagaacaaGgtcttctctacctgtgcttc	9	13	3	1	rs138111427		TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr14:20216294G>T	uc010tkt.1	+	1	708	c.708G>T	c.(706-708)AAG>AAT	p.K236N		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GCCAGAACAAGGTCTTCTCTA	0.483													56	404	---	---	---	---	PASS	T	20216294	T	T	20216294	3	4	128	1	0	0	0	0	1	0	0	0	11081	991	35	3	710	3	OR4Q3	14	20216294	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08		20216294	87133246	144	46274										
MYH7	4625	broad.mit.edu	37	chr14	23895275	23895275	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gcagctggtgcatgaccaggGggttgtccatcacccctgtg	14	12	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr14:23895275G>T	uc001wjx.2	-	19	2166	c.2060C>A	c.(2059-2061)CCC>CAC	p.P687H		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	687	Myosin head-like.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CATGACCAGGGGGTTGTCCAT	0.448													22	45	---	---	---	---	PASS	T	23895275	T	T	23895275	3	4	128	1	0	0	0	0	1	0	0	0	10039	1232	43	3	3835	3	MYH7	14	23895275	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	3678981	23895275	83454265	145	46275										
CTSG	1511	broad.mit.edu	37	chr14	25043635	25043635	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cagtgcacagcgtcccgggtCtcagtccctcctgggctcta	11	16	2	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr14:25043635C>T	uc001wpq.2	-	4	447	c.410G>A	c.(409-411)AGA>AAA	p.R137K		NM_001911	NP_001902	P08311	CATG_HUMAN	cathepsin G preproprotein	137	Peptidase S1.				immune response|proteolysis	cell surface|extracellular space|plasma membrane|stored secretory granule	heparin binding|serine-type endopeptidase activity			ovary(2)	2				GBM - Glioblastoma multiforme(265;0.0269)		CGTCCCGGGTCTCAGTCCCTC	0.607													69	106	---	---	---	---	PASS	T	25043635	T	T	25043635	3	4	128	1	0	0	0	0	1	0	0	0	4035	913	32	2	365	2	CTSG	14	25043635	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	1148360	25043635	82305905	146	46276										
ZC3H14	79882	broad.mit.edu	37	chr14	89037457	89037457	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tgtattagataaacttcgctCtgttacaactggtaagattc	7	7	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr14:89037457C>G	uc001xww.2	+	4	449	c.224C>G	c.(223-225)TCT>TGT	p.S75C	ZC3H14_uc010twd.1_Missense_Mutation_p.S75C|ZC3H14_uc010twe.1_Missense_Mutation_p.S75C|ZC3H14_uc001xwx.2_Missense_Mutation_p.S75C|ZC3H14_uc010twf.1_5'UTR|ZC3H14_uc001xwy.2_Missense_Mutation_p.S41C|ZC3H14_uc010twg.1_5'Flank	NM_024824	NP_079100	Q6PJT7	ZC3HE_HUMAN	zinc finger CCCH-type containing 14 isoform 1	75						cytoplasm|cytoplasm|nuclear speck	protein binding|RNA binding|zinc ion binding			ovary(2)|skin(1)	3						AAACTTCGCTCTGTTACAACT	0.308													51	48	---	---	---	---	PASS	G	89037457	G	G	89037457	3	3	128	1	0	0	0	0	1	0	0	0	17563	913	32	2	238	2	ZC3H14	14	89037457	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	63993822	89037457	18312083	147	46277										
KIAA1409	57578	broad.mit.edu	37	chr14	94088544	94088544	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gaggagacgatgaaccaaggCgatgacggcccctccggtaa	14	11	0	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr14:94088544C>T	uc001ybv.1	+	28	4583	c.4500C>T	c.(4498-4500)GGC>GGT	p.G1500G	KIAA1409_uc001ybs.1_Silent_p.G1478G	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1655						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TGAACCAAGGCGATGACGGCC	0.552													21	62	---	---	---	---	PASS	T	94088544	T	T	94088544	2	4	128	1	0	0	0	0	0	0	0	1	8230	755	27	1		1	KIAA1409	14	94088544	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	5051087	94088544	13260996	148	46278										
SERPINA1	5265	broad.mit.edu	37	chr14	94845910	94845910	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cgctcttcagatcataggttCcagtaatggacagtttgggt	11	8	3	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr14:94845910C>A	uc001ycx.3	-	4	1217	c.956G>T	c.(955-957)GGA>GTA	p.G319V	SERPINA1_uc001ycw.3_RNA|SERPINA1_uc010auw.2_Missense_Mutation_p.G319V|SERPINA1_uc010aux.2_Missense_Mutation_p.G319V|SERPINA1_uc001ycy.3_Missense_Mutation_p.G319V|SERPINA1_uc010auy.2_Missense_Mutation_p.G319V|SERPINA1_uc001ycz.3_Missense_Mutation_p.G319V|SERPINA1_uc010auz.2_Missense_Mutation_p.G319V|SERPINA1_uc010ava.2_Missense_Mutation_p.G319V|SERPINA1_uc001ydb.3_Missense_Mutation_p.G319V|SERPINA1_uc010avb.2_Missense_Mutation_p.G319V|SERPINA1_uc001ydc.3_Missense_Mutation_p.G319V|SERPINA1_uc001yda.1_Missense_Mutation_p.G319V	NM_000295	NP_000286	P01009	A1AT_HUMAN	serine proteinase inhibitor, clade A, member 1	319					acute-phase response|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen|proteinaceous extracellular matrix	protease binding|serine-type endopeptidase inhibitor activity			skin(1)	1		all_cancers(154;0.0649)|all_epithelial(191;0.223)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)	Alpha-1-proteinase inhibitor(DB00058)	ATCATAGGTTCCAGTAATGGA	0.522									Alpha-1-Antitrypsin_Deficiency				101	69	---	---	---	---	PASS	A	94845910	A	A	94845910	3	1	128	1	0	0	0	0	1	0	0	0	14086	855	30	2	308	2	SERPINA1	14	94845910	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	757366	94845910	12503630	149	46279										
GABRG3	2567	broad.mit.edu	37	chr15	27725806	27725806	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gtgtttttagatggctatccCaaagaagaaatgatttatag	9	4	0	4			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr15:27725806C>T	uc001zbg.1	+	6	751	c.585C>T	c.(583-585)CCC>CCT	p.P195P	GABRG3_uc001zbf.2_Silent_p.P195P	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	195	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		ATGGCTATCCCAAAGAAGAAA	0.353													3	33	---	---	---	---	PASS	T	27725806	T	T	27725806	2	4	128	1	0	0	0	0	0	0	0	1	6173	581	21	3		3	GABRG3	15	27725806	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08		27725806	74805586	150	46280										
ACTC1	70	broad.mit.edu	37	chr15	35085622	35085622	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gagccacacggagctcattgTagaaggtgtggtgccagatc	14	9	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr15:35085622T>C	uc001ziu.1	-	3	521	c.278A>G	c.(277-279)TAC>TGC	p.Y93C	uc001zit.1_Intron	NM_005159	NP_005150	P68032	ACTC_HUMAN	cardiac muscle alpha actin 1 proprotein	93					apoptosis|cardiac muscle tissue morphogenesis|cardiac myofibril assembly|muscle filament sliding|skeletal muscle thin filament assembly	actomyosin, actin part|cytosol|I band	ATP binding|ATPase activity|myosin binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(180;2.3e-08)		all cancers(64;5.83e-19)|GBM - Glioblastoma multiforme(113;1.98e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		GAGCTCATTGTAGAAGGTGTG	0.572													71	120	---	---	---	---	PASS	C	35085622	C	C	35085622	3	2	128	1	0	0	0	0	1	0	0	0	195	1638	57	5	875	5	ACTC1	15	35085622	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	7359816	35085622	67445770	151	46281										
SPTBN5	51332	broad.mit.edu	37	chr15	42144471	42144471	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tcagcgagctgccagctctcCcgggcttcagctcctgtggc	12	16	3	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr15:42144471C>T	uc001zos.2	-	62	10721	c.10388G>A	c.(10387-10389)GGG>GAG	p.G3463E		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	3498					actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		GCCAGCTCTCCCGGGCTTCAG	0.647													8	13	---	---	---	---	PASS	T	42144471	T	T	42144471	3	4	128	1	0	0	0	0	1	0	0	0	15121	623	22	3	559	3	SPTBN5	15	42144471	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	7058849	42144471	60386921	152	46282										
SPATA5L1	79029	broad.mit.edu	37	chr15	45697670	45697670	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ctgacagcactctgtagggaGgctgccatgcatgccctcct	11	14	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr15:45697670G>T	uc001zve.2	+	2	1351	c.1242G>T	c.(1240-1242)GAG>GAT	p.E414D	SPATA5L1_uc001zvf.2_RNA	NM_024063	NP_076968	Q9BVQ7	SPA5L_HUMAN	spermatogenesis associated 5-like 1	414						cytoplasm	ATP binding|nucleoside-triphosphatase activity			ovary(3)|skin(1)	4		Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;7.31e-17)|GBM - Glioblastoma multiforme(94;6.28e-07)		TCTGTAGGGAGGCTGCCATGC	0.428													75	84	---	---	---	---	PASS	T	45697670	T	T	45697670	3	4	128	1	0	0	0	0	1	0	0	0	15011	991	35	3	1248	3	SPATA5L1	15	45697670	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	3553199	45697670	56833722	153	46283										
SEMA6D	80031	broad.mit.edu	37	chr15	48063194	48063194	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cccctcagttttttccgtctAgtccgccacctcattcccca	4	19	3	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr15:48063194A>G	uc010bek.2	+	19	2794	c.2434A>G	c.(2434-2436)AGT>GGT	p.S812G	SEMA6D_uc001zvw.2_Missense_Mutation_p.S750G|SEMA6D_uc001zvy.2_Missense_Mutation_p.S812G|SEMA6D_uc001zvz.2_Missense_Mutation_p.S756G|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Missense_Mutation_p.S750G|SEMA6D_uc001zwc.2_Missense_Mutation_p.S737G	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	812	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		TTTTCCGTCTAGTCCGCCACC	0.502													66	117	---	---	---	---	PASS	G	48063194	G	G	48063194	3	3	128	1	0	0	0	0	1	0	0	0	14042	420	15	5	2547	5	SEMA6D	15	48063194	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	2365524	48063194	54468198	154	46284										
DYX1C1	161582	broad.mit.edu	37	chr15	55790004	55790004	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atctttgctttgctgctctcAtcgtctatgggagcataaag	9	9	3	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr15:55790004A>G	uc002adc.2	-	3	545	c.177T>C	c.(175-177)GAT>GAC	p.D59D	CCPG1_uc002acy.2_5'UTR|DYX1C1_uc010ugh.1_RNA|DYX1C1_uc010ugi.1_RNA|DYX1C1_uc002adb.2_Silent_p.D59D|DYX1C1_uc002add.2_Silent_p.D59D	NM_130810	NP_570722	Q8WXU2	DYXC1_HUMAN	dyslexia susceptibility 1 candidate 1 isoform a	59	CS.|Mediates interaction with ESR1 and STUB1.				neuron migration|regulation of estrogen receptor signaling pathway|regulation of proteasomal protein catabolic process	cytoplasm|nucleus	estrogen receptor binding			skin(1)	1				all cancers(107;0.0118)|GBM - Glioblastoma multiforme(80;0.171)		TGCTGCTCTCATCGTCTATGG	0.408													101	160	---	---	---	---	PASS	G	55790004	G	G	55790004	2	3	128	1	0	0	0	0	0	0	0	1	4862	214	8	5		5	DYX1C1	15	55790004	Silent	SNP	A	TCGA-60-2719-01A-01D-1522-08	7726810	55790004	46741388	155	46285										
IGDCC4	57722	broad.mit.edu	37	chr15	65680905	65680905	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tcgctctccaggccatggacCtcagcactgaagatgtttcc	9	14	2	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr15:65680905C>A	uc002aou.1	-	16	2937	c.2727G>T	c.(2725-2727)GAG>GAT	p.E909D	IGDCC4_uc002aot.1_Missense_Mutation_p.E497D	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	909	Extracellular (Potential).|Fibronectin type-III 5.					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						GGCCATGGACCTCAGCACTGA	0.637													67	122	---	---	---	---	PASS	A	65680905	A	A	65680905	3	1	128	1	0	0	0	0	1	0	0	0	7569	680	24	3	1045	3	IGDCC4	15	65680905	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	9890901	65680905	36850487	156	46286										
ITGA11	22801	broad.mit.edu	37	chr15	68603377	68603377	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tcctccactggggtgggccgGtactcagtgctattgcccca	12	14	1	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr15:68603377G>A	uc002ari.2	-	26	3216	c.3129C>T	c.(3127-3129)TAC>TAT	p.Y1043Y	ITGA11_uc010bib.2_Silent_p.Y1044Y	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	1043	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	GGGTGGGCCGGTACTCAGTGC	0.587													9	18	---	---	---	---	PASS	A	68603377	A	A	68603377	2	1	128	1	0	0	0	0	0	0	0	1	7874	1256	44	3		3	ITGA11	15	68603377	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	2922472	68603377	33928015	157	46287										
PKM2	5315	broad.mit.edu	37	chr15	72499082	72499082	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aactcaccaggtgctgcatgCgcacagcctccagaggatag	11	13	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr15:72499082C>A	uc002atx.1	-	8	1368	c.1127G>T	c.(1126-1128)CGC>CTC	p.R376L	PKM2_uc002ats.1_Missense_Mutation_p.R43L|PKM2_uc002att.1_Missense_Mutation_p.R142L|PKM2_uc002atu.1_Missense_Mutation_p.R142L|PKM2_uc010bit.1_Missense_Mutation_p.R381L|PKM2_uc010uki.1_Missense_Mutation_p.R450L|PKM2_uc002atv.1_Missense_Mutation_p.R411L|PKM2_uc002atw.1_Missense_Mutation_p.R376L|PKM2_uc002aty.1_Missense_Mutation_p.R376L|PKM2_uc010ukj.1_Missense_Mutation_p.R361L|PKM2_uc010ukk.1_Missense_Mutation_p.R302L|PKM2_uc010biu.1_Missense_Mutation_p.R397L|PKM2_uc002atz.1_RNA	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	376	Interaction with POU5F1.				glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	GTGCTGCATGCGCACAGCCTC	0.592													39	63	---	---	---	---	PASS	A	72499082	A	A	72499082	3	1	128	1	0	0	0	0	1	0	0	0	11977	768	27	1	655	1	PKM2	15	72499082	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	3895705	72499082	30032310	158	46288										
CREBBP	1387	broad.mit.edu	37	chr16	3828022	3828022	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aaatccttacttggaggtctCacaggttgtgcctgtggaat	11	8	1	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr16:3828022C>T	uc002cvv.2	-	10	2307	c.2103G>A	c.(2101-2103)GTG>GTA	p.V701V	CREBBP_uc002cvw.2_Silent_p.V663V	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	701					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)		TTGGAGGTCTCACAGGTTGTG	0.502			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				103	74	---	---	---	---	PASS	T	3828022	T	T	3828022	2	4	128	1	0	0	0	0	0	0	0	1	3861	813	29	2		2	CREBBP	16	3828022	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08		3828022	86526731	159	46289										
CRYM	1428	broad.mit.edu	37	chr16	21281170	21281170	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gctgtaggcctggaccccagCcccaaggatgcacagcactt	11	15	0	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr16:21281170C>A	uc002dik.2	-	4	515	c.430G>T	c.(430-432)GCT>TCT	p.A144S	CRYM_uc010bwq.1_RNA|CRYM_uc002dil.2_Missense_Mutation_p.A102S|CRYM_uc002dim.2_Missense_Mutation_p.A144S	NM_001888	NP_001879	Q14894	CRYM_HUMAN	crystallin, mu isoform 1	144	NADP.				negative regulation of transcription from RNA polymerase II promoter|sensory perception of sound|thyroid hormone transport	cytoplasm|nucleus|plasma membrane	NADP binding|protein homodimerization activity|thyroid hormone binding|transcription corepressor activity				0				GBM - Glioblastoma multiforme(48;0.0573)	Levothyroxine(DB00451)	TGGACCCCAGCCCCAAGGATG	0.527													46	40	---	---	---	---	PASS	A	21281170	A	A	21281170	3	1	128	1	0	0	0	0	1	0	0	0	3921	739	26	3	534	3	CRYM	16	21281170	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	17453148	21281170	69073583	160	46290										
TEPP	374739	broad.mit.edu	37	chr16	58011824	58011824	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gcggcagcgcaaccagctggCgggcgtgaagcagcagctct	16	13	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr16:58011824C>A	uc002emw.3	+	2	306	c.269C>A	c.(268-270)GCG>GAG	p.A90E	TEPP_uc002emv.3_Missense_Mutation_p.A90E	NM_199456	NP_955535	Q6URK8	TEPP_HUMAN	testis/prostate/placenta-expressed protein	90						extracellular region				kidney(1)|central_nervous_system(1)|skin(1)	3						AACCAGCTGGCGGGCGTGAAG	0.657													51	19	---	---	---	---	PASS	A	58011824	A	A	58011824	3	1	128	1	0	0	0	0	1	0	0	0	15757	768	27	1	275	1	TEPP	16	58011824	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	36730654	58011824	32342929	161	46291										
FANCA	2175	broad.mit.edu	37	chr16	89809333	89809333	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gggtgctggggaggcagcctCaggggagaggaaactgggac	21	7	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr16:89809333C>G	uc002fou.1	-	37	3682	c.3640G>C	c.(3640-3642)GAG>CAG	p.E1214Q	FANCA_uc010vpn.1_Missense_Mutation_p.E1214Q|FANCA_uc010vpo.1_Missense_Mutation_p.E300Q	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	1214					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		GAGGCAGCCTCAGGGGAGAGG	0.542			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				48	22	---	---	---	---	PASS	G	89809333	G	G	89809333	3	3	128	1	0	0	0	0	1	0	0	0	5662	835	29	2	755	2	FANCA	16	89809333	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	31797509	89809333	545420	162	46292										
KIF1C	10749	broad.mit.edu	37	chr17	4910576	4910576	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aggagacagagaagattataGctgagctgaacgagacatgg	14	5	0	6			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr17:4910576G>C	uc002gan.1	+	15	1680	c.1354G>C	c.(1354-1356)GCT>CCT	p.A452P		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	452	Potential.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						GAAGATTATAGCTGAGCTGAA	0.582													13	7	---	---	---	---	PASS	C	4910576	C	C	4910576	3	2	128	1	0	0	0	0	1	0	0	0	8285	971	34	4	1404	4	KIF1C	17	4910576	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08		4910576	76284634	163	46293										
NEURL4	84461	broad.mit.edu	37	chr17	7231109	7231109	+	Frame_Shift_Del	DEL	C	-	-													0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	agcccgacactacccacgagCcccccttcaggcccgtggca							TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr17:7231109delC	uc002gga.1	-	2	384	c.377delG	c.(376-378)GGCfs	p.G126fs	NEURL4_uc002ggb.1_Frame_Shift_Del_p.G126fs|NEURL4_uc002ggc.1_5'Flank	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	126	NHR 1.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						TACCCACGAGCCCCCCTTCAG	0.622													26	50	---	---	---	---		-	7231109	-	-	7231109	7	5	128	1	0	1	0	1	0	0	0	0	10347	739	26	0	4423	0	NEURL4	17	7231109	Frame_Shift_Del	DEL	C	TCGA-60-2719-01A-01D-1522-08	2320533	7231109	73964101	164	46294										
TP53	7157	broad.mit.edu	37	chr17	7578272	7578272	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tccttccactcggataagatGctgaggaggggccagaccta	12	11	0	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr17:7578272G>C	uc002gim.2	-	6	771	c.577C>G	c.(577-579)CAT>GAT	p.H193D	TP53_uc002gig.1_Missense_Mutation_p.H193D|TP53_uc002gih.2_Missense_Mutation_p.H193D|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H61D|TP53_uc010cng.1_Missense_Mutation_p.H61D|TP53_uc002gii.1_Missense_Mutation_p.H61D|TP53_uc010cnh.1_Missense_Mutation_p.H193D|TP53_uc010cni.1_Missense_Mutation_p.H193D|TP53_uc002gij.2_Missense_Mutation_p.H193D|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.H100D|TP53_uc002gio.2_Missense_Mutation_p.H61D|TP53_uc010vug.1_Missense_Mutation_p.H154D	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	193	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		H -> D (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> Y (in sporadic cancers; somatic mutation).|QH -> HN (in a sporadic cancer; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|QH -> HY (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> R (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H193R(67)|p.H193L(29)|p.H193Y(26)|p.H193P(12)|p.0?(7)|p.H193D(7)|p.H193N(4)|p.A189_V197delAPPQHLIRV(4)|p.H193fs*16(3)|p.P191fs*53(2)|p.H193H(2)|p.K164_P219del(1)|p.P191fs*15(1)|p.P191fs*6(1)|p.H193_I195delHLI(1)|p.H193_I195>AP(1)|p.A189fs*53(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CGGATAAGATGCTGAGGAGGG	0.557		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)			43	23	---	---	---	---	PASS	C	7578272	C	C	7578272	3	2	128	1	0	0	0	0	1	0	0	0	16378	1319	46	4	717	4	TP53	17	7578272	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	347163	7578272	73616938	165	46295										
MYH2	4620	broad.mit.edu	37	chr17	10431192	10431192	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cacattttctctaggtttccCtatagaagaaaaagtaaaag	6	7	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr17:10431192C>G	uc010coi.2	-	28	3873	c.3745_splice	c.e28-1	p.G1249_splice	uc002gml.1_Intron|MYH2_uc002gmp.3_Splice_Site_p.G1249_splice|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa						muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTAGGTTTCCCTATAGAAGAA	0.398													94	39	---	---	---	---	PASS	G	10431192	G	G	10431192	5	3	128	1	0	0	0	0	0	0	1	0	10035	695	24	4	2133	4	MYH2	17	10431192	Splice_Site	SNP	C	TCGA-60-2719-01A-01D-1522-08	2852920	10431192	70764018	166	46296										
MYO15A	51168	broad.mit.edu	37	chr17	18023903	18023903	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggggcagccagaaggcccggGcgggcggccctgctgtcagg	20	13	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr17:18023903G>C	uc010vxh.1	+	2	2127	c.1789G>C	c.(1789-1791)GCG>CCG	p.A597P		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	597	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GAAGGCCCGGGCGGGCGGCCC	0.697													5	1	---	---	---	---	PASS	C	18023903	C	C	18023903	3	2	128	1	0	0	0	0	1	0	0	0	10063	1203	42	4	1791	4	MYO15A	17	18023903	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	7592711	18023903	63171307	167	46297										
FBXO47	494188	broad.mit.edu	37	chr17	37119235	37119235	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gattactacgtctaagtttcTggttgggaatcaaagtgaaa	10	5	3	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr17:37119235T>C	uc002hrc.2	-	2	244	c.44A>G	c.(43-45)CAG>CGG	p.Q15R		NM_001008777	NP_001008777	Q5MNV8	FBX47_HUMAN	F-box protein 47	15											0						TCTAAGTTTCTGGTTGGGAAT	0.373													137	65	---	---	---	---	PASS	C	37119235	C	C	37119235	3	2	128	1	0	0	0	0	1	0	0	0	5756	1580	55	5	1354	5	FBXO47	17	37119235	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	19095332	37119235	44075975	168	46298										
CDC42EP4	23580	broad.mit.edu	37	chr17	71281876	71281876	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggggaggggccgccacggcgTacgggggagcctgggtgatg	23	9	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr17:71281876T>C	uc002jjn.2	-	2	911	c.764A>G	c.(763-765)TAC>TGC	p.Y255C	CDC42EP4_uc002jjo.2_Missense_Mutation_p.Y255C|CDC42EP4_uc002jjp.1_Missense_Mutation_p.Y185C	NM_012121	NP_036253	Q9H3Q1	BORG4_HUMAN	Cdc42 effector protein 4	255					positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|cytoplasm|endomembrane system|membrane|microtubule cytoskeleton	GTP-Rho binding				0			LUSC - Lung squamous cell carcinoma(166;0.0352)|Lung(188;0.0711)			CGCCACGGCGTACGGGGGAGC	0.687													10	10	---	---	---	---	PASS	C	71281876	C	C	71281876	3	2	128	1	0	0	0	0	1	0	0	0	3078	1638	57	5	310	5	CDC42EP4	17	71281876	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	34162641	71281876	9913334	169	46299										
DSC1	1823	broad.mit.edu	37	chr18	28721973	28721973	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tttgtttaccttgacaacacAcagcactccttcatttgtat	4	11	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr18:28721973A>G	uc002kwn.2	-	9	1511	c.1249T>C	c.(1249-1251)TGT>CGT	p.C417R	DSC1_uc002kwm.2_Missense_Mutation_p.C417R	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	417	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			TTGACAACACACAGCACTCCT	0.323													39	117	---	---	---	---	PASS	G	28721973	G	G	28721973	3	3	128	1	0	0	0	0	1	0	0	0	4765	159	6	5	1507	5	DSC1	18	28721973	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08		28721973	49355275	170	46300										
MAPRE2	10982	broad.mit.edu	37	chr18	32677486	32677486	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aaagtaaaatttcaagcaaaGctggaacatgaatatattca	6	5	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr18:32677486G>A	uc002kyg.2	+	3	507	c.327G>A	c.(325-327)AAG>AAA	p.K109K	MAPRE2_uc010xcb.1_Silent_p.K66K|MAPRE2_uc010xcc.1_Silent_p.K97K|MAPRE2_uc002kyf.2_Silent_p.K109K|MAPRE2_uc002kyh.2_Silent_p.K56K|MAPRE2_uc010xcd.1_Silent_p.K66K	NM_014268	NP_055083	Q15555	MARE2_HUMAN	microtubule-associated protein, RP/EB family,	109	CH.				cell division|cell proliferation|mitosis|signal transduction	cytoplasm|microtubule	microtubule binding			ovary(1)	1						TTCAAGCAAAGCTGGAACATG	0.378													44	58	---	---	---	---	PASS	A	32677486	A	A	32677486	2	1	128	1	0	0	0	0	0	0	0	1	9295	962	34	3		3	MAPRE2	18	32677486	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	3955513	32677486	45399762	171	46301										
RTTN	25914	broad.mit.edu	37	chr18	67741225	67741225	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ccaaaacttgaatgagtcatCtaaacctgcaacaacgagaa	6	10	2	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr18:67741225C>A	uc002lkp.2	-	34	4638	c.4570G>T	c.(4570-4572)GAT>TAT	p.D1524Y	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.D612Y	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1524							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				AATGAGTCATCTAAACCTGCA	0.413													35	64	---	---	---	---	PASS	A	67741225	A	A	67741225	3	1	128	1	0	0	0	0	1	0	0	0	13737	913	32	2	2174	2	RTTN	18	67741225	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	35063739	67741225	10336023	172	46302										
TLE2	7089	broad.mit.edu	37	chr19	3006571	3006571	+	Silent	SNP	C	A	A													0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tgggccagcgtgtgcagctgCcgggcgtgccgcgggatgcc							TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:3006571C>A	uc002lww.2	-	15	1610	c.1347G>T	c.(1345-1347)CGG>CGT	p.R449R	TLE2_uc010xhb.1_Silent_p.R116R|TLE2_uc010dth.2_Silent_p.R450R|TLE2_uc010xhc.1_Silent_p.R327R|TLE2_uc010dti.2_Silent_p.R463R|TLE2_uc010xhd.1_Silent_p.R357R	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1	449					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGTGCAGCTGCCGGGCGTGCC	0.682													4	5	---	---	---	---	PASS	A	3006571	A	A	3006571	2	1	128	1	0	0	0	0	0	0	0	1	15936	726	26	3		3	TLE2	19	3006571	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08		3006571	56122412	173	46303	853	2								
TLE2	7089	broad.mit.edu	37	chr19	3006572	3006572	+	Missense_Mutation	SNP	C	G	G													0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gggccagcgtgtgcagctgcCgggcgtgccgcgggatgccc							TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:3006572C>G	uc002lww.2	-	15	1609	c.1346G>C	c.(1345-1347)CGG>CCG	p.R449P	TLE2_uc010xhb.1_Missense_Mutation_p.R116P|TLE2_uc010dth.2_Missense_Mutation_p.R450P|TLE2_uc010xhc.1_Missense_Mutation_p.R327P|TLE2_uc010dti.2_Missense_Mutation_p.R463P|TLE2_uc010xhd.1_Missense_Mutation_p.R357P	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1	449					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTGCAGCTGCCGGGCGTGCCG	0.682													4	5	---	---	---	---	PASS	G	3006572	G	G	3006572	3	3	128	1	0	0	0	0	1	0	0	0	15936	652	23	4	909	4	TLE2	19	3006572	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	1	3006572	56122411	174	46304	853	2								
C3	718	broad.mit.edu	37	chr19	6707088	6707088	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cccaccccgtgggacctactCctggccaggcccaggtggct	12	18	0	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:6707088C>A	uc002mfm.2	-	17	2306	c.2244G>T	c.(2242-2244)AGG>AGT	p.R748S		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	748		Cleavage; by C3 convertase.			complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		GGGACCTACTCCTGGCCAGGC	0.697													16	20	---	---	---	---	PASS	A	6707088	A	A	6707088	3	1	128	1	0	0	0	0	1	0	0	0	2204	869	30	2	2847	2	C3	19	6707088	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	3700516	6707088	52421895	175	46305										
MUC16	94025	broad.mit.edu	37	chr19	9090002	9090002	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cattgaaatcccagtgggaaCagcaaactgatgggtggttg	13	7	0	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:9090002C>A	uc002mkp.2	-	1	2017	c.1813G>T	c.(1813-1815)GTT>TTT	p.V605F		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	605	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCAGTGGGAACAGCAAACTGA	0.547													30	73	---	---	---	---	PASS	A	9090002	A	A	9090002	3	1	128	1	0	0	0	0	1	0	0	0	9973	478	17	3	42046	3	MUC16	19	9090002	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	2382914	9090002	50038981	176	46306										
ZNF700	90592	broad.mit.edu	37	chr19	12060436	12060436	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atgaaaaaactcacactggaGagaaaccctatgaatgcaac	7	9	1	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:12060436G>C	uc002msu.2	+	4	1723	c.1597G>C	c.(1597-1599)GAG>CAG	p.E533Q	ZNF700_uc010xme.1_Missense_Mutation_p.E551Q|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	533					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCACACTGGAGAGAAACCCTA	0.398													58	89	---	---	---	---	PASS	C	12060436	C	C	12060436	3	2	128	1	0	0	0	0	1	0	0	0	18101	943	33	2	1611	2	ZNF700	19	12060436	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	2970434	12060436	47068547	177	46307										
CCDC123	84902	broad.mit.edu	37	chr19	33424558	33424558	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tatttctgtatatctttgacGtgctctaccagttatatctg	6	8	4	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:33424558G>A	uc002nty.2	-	8	774	c.685C>T	c.(685-687)CGT>TGT	p.R229C	CCDC123_uc002ntx.2_Translation_Start_Site|CCDC123_uc010edg.2_RNA|CCDC123_uc002ntz.1_Missense_Mutation_p.R229C|CCDC123_uc002nua.2_Missense_Mutation_p.R229C	NM_032816	NP_116205	Q96ST8	CEP89_HUMAN	coiled-coil domain containing 123	229						centrosome|spindle pole					0	Esophageal squamous(110;0.137)					TATCTTTGACGTGCTCTACCA	0.318													75	166	---	---	---	---	PASS	A	33424558	A	A	33424558	3	1	128	1	0	0	0	0	1	0	0	0	2759	1145	40	1	1714	1	CCDC123	19	33424558	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	21364122	33424558	25704425	178	46308										
NPHS1	4868	broad.mit.edu	37	chr19	36330456	36330456	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aggcttccactccagccccaCggagtgtggggtcagactca	12	14	2	1	rs114849139	by1000genomes	TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:36330456C>A	uc002oby.2	-	21	2869	c.2869G>T	c.(2869-2871)GTG>TTG	p.V957L	NPHS1_uc010eem.1_5'Flank	NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	957	Fibronectin type-III.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TCCAGCCCCACGGAGTGTGGG	0.572													36	90	---	---	---	---	PASS	A	36330456	A	A	36330456	3	1	128	1	0	0	0	0	1	0	0	0	10582	536	19	1	892	1	NPHS1	19	36330456	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	2905898	36330456	22798527	179	46309										
GMFG	9535	broad.mit.edu	37	chr19	39819164	39819164	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gagccaggcctcagtgaggtCatcagtggtgcggatttcga	15	9	3	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:39819164C>T	uc002okz.3	-	7	492	c.382G>A	c.(382-384)GAC>AAC	p.D128N	GMFG_uc002okx.3_3'UTR	NM_004877	NP_004868	O60234	GMFG_HUMAN	glia maturation factor, gamma	128	ADF-H.				protein phosphorylation	intracellular	actin binding|enzyme activator activity|growth factor activity|protein kinase inhibitor activity			skin(1)	1	all_cancers(60;2.5e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.15e-27)|all cancers(26;1.3e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			TCAGTGAGGTCATCAGTGGTG	0.448													41	167	---	---	---	---	PASS	T	39819164	T	T	39819164	3	4	128	1	0	0	0	0	1	0	0	0	6490	826	29	2	50	2	GMFG	19	39819164	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	3488708	39819164	19309819	180	46310										
EXOC3L2	90332	broad.mit.edu	37	chr19	45731017	45731017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gttctcatggaatcgctccaCacgctgctggaagctggtgg	13	11	1	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:45731017C>A	uc002pay.1	-	5	348	c.307G>T	c.(307-309)GTG>TTG	p.V103L		NM_138568	NP_612635	Q2M3D2	EX3L2_HUMAN	exocyst complex component 3-like 2	103										ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00883)		AATCGCTCCACACGCTGCTGG	0.632													13	6	---	---	---	---	PASS	A	45731017	A	A	45731017	3	1	128	1	0	0	0	0	1	0	0	0	5305	478	17	3	946	3	EXOC3L2	19	45731017	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	5911853	45731017	13397966	181	46311										
PPP2R1A	5518	broad.mit.edu	37	chr19	52723042	52723042	+	Silent	SNP	G	T	T													0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tccctgctccctgccattgtGgagctggctgaggacgccaa							TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:52723042G>T	uc002pyp.2	+	10	1386	c.1227G>T	c.(1225-1227)GTG>GTT	p.V409V	PPP2R1A_uc010ydk.1_Silent_p.V354V|PPP2R1A_uc002pyq.2_Silent_p.V230V	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	409	HEAT 11.|PP2A subunit C binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		CTGCCATTGTGGAGCTGGCTG	0.622			Mis		clear cell ovarian carcinoma								5	45	---	---	---	---	PASS	T	52723042	T	T	52723042	2	4	128	1	0	0	0	0	0	0	0	1	12382	1335	47	3		3	PPP2R1A	19	52723042	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	6992025	52723042	6405941	182	46312	854	2								
PPP2R1A	5518	broad.mit.edu	37	chr19	52723043	52723043	+	Nonsense_Mutation	SNP	G	T	T													0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ccctgctccctgccattgtgGagctggctgaggacgccaag							TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:52723043G>T	uc002pyp.2	+	10	1387	c.1228G>T	c.(1228-1230)GAG>TAG	p.E410*	PPP2R1A_uc010ydk.1_Nonsense_Mutation_p.E355*|PPP2R1A_uc002pyq.2_Nonsense_Mutation_p.E231*	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	410	HEAT 11.|PP2A subunit C binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		TGCCATTGTGGAGCTGGCTGA	0.627			Mis		clear cell ovarian carcinoma								4	47	---	---	---	---	PASS	T	52723043	T	T	52723043	4	4	128	1	0	0	0	0	0	1	0	0	12382	1175	41	2	1266	2	PPP2R1A	19	52723043	Nonsense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	1	52723043	6405940	183	46313	854	2								
PPP1R12C	54776	broad.mit.edu	37	chr19	55602904	55602904	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	catccttgaggcgctggttgTcagcgcggaggtcagacagg	16	10	2	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:55602904T>A	uc002qix.2	-	22	2301	c.2285A>T	c.(2284-2286)GAC>GTC	p.D762V	PPP1R12C_uc010yfs.1_Missense_Mutation_p.D687V|PPP1R12C_uc002qiy.2_Missense_Mutation_p.D760V	NM_017607	NP_060077	Q9BZL4	PP12C_HUMAN	protein phosphatase 1, regulatory subunit 12C	762	Potential.					cytoplasm				ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		GCGCTGGTTGTCAGCGCGGAG	0.647													29	11	---	---	---	---	PASS	A	55602904	A	A	55602904	3	1	128	1	0	0	0	0	1	0	0	0	12356	1667	58	5	67	5	PPP1R12C	19	55602904	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	2879861	55602904	3526079	184	46314										
NLRP5	126206	broad.mit.edu	37	chr19	56520216	56520216	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gaccaagcaaggaaaaagtgCcaggttagaggggtggagtt	16	5	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:56520216C>T	uc002qmj.2	+	3	505	c.505C>T	c.(505-507)CCA>TCA	p.P169S	NLRP5_uc002qmi.2_Missense_Mutation_p.P169S	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	169						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)		GGAAAAAGTGCCAGGTTAGAG	0.294													3	22	---	---	---	---	PASS	T	56520216	T	T	56520216	3	4	128	1	0	0	0	0	1	0	0	0	10480	739	26	3	515	3	NLRP5	19	56520216	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	917312	56520216	2608767	185	46315										
SLC27A5	10998	broad.mit.edu	37	chr19	59012686	59012686	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cacaagtaccgcaggagctcGcccacatacaggatcactgt	9	14	1	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr19:59012686G>A	uc002qtc.2	-	4	1259	c.1149C>T	c.(1147-1149)GGC>GGT	p.G383G	SLC27A5_uc002qtb.2_5'Flank	NM_012254	NP_036386	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid	383	Cytoplasmic (Probable).				bile acid and bile salt transport|bile acid biosynthetic process|very long-chain fatty acid metabolic process	endoplasmic reticulum membrane|integral to membrane	ATP binding|cholate-CoA ligase activity|long-chain fatty acid-CoA ligase activity				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.181)		GCAGGAGCTCGCCCACATACA	0.542													6	199	---	---	---	---	PASS	A	59012686	A	A	59012686	2	1	128	1	0	0	0	0	0	0	0	1	14529	1074	38	1		1	SLC27A5	19	59012686	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	2492470	59012686	116297	186	46316										
CPXM1	56265	broad.mit.edu	37	chr20	2774852	2774852	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggtatcaatccttctgtcccCttagccgctccaggcgcctg	9	16	2	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr20:2774852C>A	uc002wgu.2	-	14	2253	c.2189G>T	c.(2188-2190)AGG>ATG	p.R730M	CPXM1_uc010gas.2_Missense_Mutation_p.R656M	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	730					cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						CTTCTGTCCCCTTAGCCGCTC	0.607													45	83	---	---	---	---	PASS	A	2774852	A	A	2774852	3	1	128	1	0	0	0	0	1	0	0	0	3837	681	24	3	19	3	CPXM1	20	2774852	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08		2774852	60250668	187	46317										
C20orf26	26074	broad.mit.edu	37	chr20	20180530	20180530	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cataaacgctccatcaaaggCggtctccaaggatccggtgg	11	12	2	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr20:20180530C>T	uc002wru.2	+	17	1992	c.1916C>T	c.(1915-1917)GCG>GTG	p.A639V	C20orf26_uc010zse.1_Missense_Mutation_p.A619V	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	639										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		CCATCAAAGGCGGTCTCCAAG	0.617													62	146	---	---	---	---	PASS	T	20180530	T	T	20180530	3	4	128	1	0	0	0	0	1	0	0	0	2106	768	27	1	2010	1	C20orf26	20	20180530	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	17405678	20180530	42844990	188	46318										
C20orf26	26074	broad.mit.edu	37	chr20	20269293	20269293	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gaagaatgtggattatgaaaCgtttaaagccctcaatgatg	10	5	1	3	rs140045830		TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr20:20269293C>T	uc002wru.2	+	23	2913	c.2837C>T	c.(2836-2838)ACG>ATG	p.T946M	C20orf26_uc002wrw.2_Intron	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	946										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GATTATGAAACGTTTAAAGCC	0.408													146	328	---	---	---	---	PASS	T	20269293	T	T	20269293	3	4	128	1	0	0	0	0	1	0	0	0	2106	536	19	1	2955	1	C20orf26	20	20269293	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	88763	20269293	42756227	189	46319										
CST8	10047	broad.mit.edu	37	chr20	23472353	23472353	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tcctcctcaccattcccctgGccctggtggccaggaaagac	9	17	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr20:23472353G>T	uc002wth.1	+	2	406	c.49G>T	c.(49-51)GCC>TCC	p.A17S		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	17						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					CATTCCCCTGGCCCTGGTGGC	0.567													74	162	---	---	---	---	PASS	T	23472353	T	T	23472353	3	4	128	1	0	0	0	0	1	0	0	0	3978	1203	42	3	51	3	CST8	20	23472353	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	3203060	23472353	39553167	190	46320										
NPBWR2	2832	broad.mit.edu	37	chr20	62737573	62737573	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gccttgaaccagacctgctcGggccacgggaagctcagccc	12	16	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr20:62737573G>C	uc011abt.1	-	1	612	c.612C>G	c.(610-612)CCC>CCG	p.P204P		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	204	Extracellular (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					AGACCTGCTCGGGCCACGGGA	0.627													13	22	---	---	---	---	PASS	C	62737573	C	C	62737573	2	2	128	1	0	0	0	0	0	0	0	1	10569	1103	39	4		4	NPBWR2	20	62737573	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	39265220	62737573	287947	191	46321										
NCAM2	4685	broad.mit.edu	37	chr21	22804589	22804589	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tctggaaaattgtacgctccCatggagttcaaagtgagtca	10	8	3	1	rs35592118		TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr21:22804589C>A	uc002yld.1	+	12	1891	c.1642C>A	c.(1642-1644)CAT>AAT	p.H548N	NCAM2_uc011acb.1_Missense_Mutation_p.H406N	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	548	Fibronectin type-III 1.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TGTACGCTCCCATGGAGTTCA	0.408													53	23	---	---	---	---	PASS	A	22804589	A	A	22804589	3	1	128	1	0	0	0	0	1	0	0	0	10203	594	21	3	1688	3	NCAM2	21	22804589	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08		22804589	25325306	192	46322										
GRIK1	2897	broad.mit.edu	37	chr21	31023582	31023582	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atgtttacgccactgtacctAtagagttccagatccaaagc	7	11	0	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr21:31023582A>G	uc002yno.1	-	6	1274	c.810T>C	c.(808-810)TAT>TAC	p.Y270Y	GRIK1_uc002ynn.2_Silent_p.Y270Y|GRIK1_uc011acs.1_Silent_p.Y270Y|GRIK1_uc011act.1_Silent_p.Y214Y|GRIK1_uc010glq.1_Silent_p.Y128Y|GRIK1_uc002ynr.2_Silent_p.Y270Y	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	270	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	CACTGTACCTATAGAGTTCCA	0.383													61	23	---	---	---	---	PASS	G	31023582	G	G	31023582	2	3	128	1	0	0	0	0	0	0	0	1	6773	456	16	5		5	GRIK1	21	31023582	Silent	SNP	A	TCGA-60-2719-01A-01D-1522-08	8218993	31023582	17106313	193	46323										
XKR3	150165	broad.mit.edu	37	chr22	17264895	17264895	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tctcccgtcaattattttgtCatctgacaactgcagtttca	5	11	5	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr22:17264895C>T	uc002zlv.2	-	4	1092	c.994G>A	c.(994-996)GAC>AAC	p.D332N	XKR3_uc011agf.1_Missense_Mutation_p.D332N	NM_175878	NP_787074	Q5GH77	XKR3_HUMAN	X Kell blood group precursor-related family,	332						integral to membrane|plasma membrane				large_intestine(1)|ovary(1)|skin(1)	3	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				ATTATTTTGTCATCTGACAAC	0.408													70	200	---	---	---	---	PASS	T	17264895	T	T	17264895	3	4	128	1	0	0	0	0	1	0	0	0	17429	826	29	2	389	2	XKR3	22	17264895	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08		17264895	34039671	194	46324										
MYO18B	84700	broad.mit.edu	37	chr22	26164516	26164516	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	agcaccgagatcttggccccGaaagctgagaagacccggac	12	13	1	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr22:26164516G>A	uc003abz.1	+	4	883	c.633G>A	c.(631-633)CCG>CCA	p.P211P	MYO18B_uc003aca.1_Silent_p.P92P|MYO18B_uc010guy.1_Silent_p.P92P|MYO18B_uc010guz.1_Silent_p.P92P|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_5'Flank	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	211						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TCTTGGCCCCGAAAGCTGAGA	0.597													14	9	---	---	---	---	PASS	A	26164516	A	A	26164516	2	1	128	1	0	0	0	0	0	0	0	1	10066	1045	37	2		2	MYO18B	22	26164516	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	8899621	26164516	25140050	195	46325										
OSBP2	23762	broad.mit.edu	37	chr22	31289967	31289967	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gaccctgtcagccaagctgcTgtggaagaagtacccgctgc	12	13	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr22:31289967T>C	uc003aiy.1	+	12	2458	c.2354T>C	c.(2353-2355)CTG>CCG	p.L785P	OSBP2_uc011ala.1_Missense_Mutation_p.L619P|OSBP2_uc010gwc.1_Missense_Mutation_p.L612P|OSBP2_uc011alb.1_Missense_Mutation_p.L736P|OSBP2_uc003aiz.1_Missense_Mutation_p.L784P|OSBP2_uc003aja.1_Missense_Mutation_p.L418P|OSBP2_uc011alc.1_Missense_Mutation_p.L527P|OSBP2_uc003ajb.2_Missense_Mutation_p.L330P|OSBP2_uc011ald.1_Missense_Mutation_p.L329P|OSBP2_uc010gwd.1_Intron	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	785					lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						GCCAAGCTGCTGTGGAAGAAG	0.592													4	8	---	---	---	---	PASS	C	31289967	C	C	31289967	3	2	128	1	0	0	0	0	1	0	0	0	11274	1580	55	5	2400	5	OSBP2	22	31289967	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	5125451	31289967	20014599	196	46326										
CERK	64781	broad.mit.edu	37	chr22	47087573	47087573	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cccgtctcccaagtgggcagCcggggagaggcccctggggc	17	15	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chr22:47087573C>G	uc003bia.2	-	11	1335	c.1228G>C	c.(1228-1230)GCT>CCT	p.A410P	CERK_uc010hae.2_Missense_Mutation_p.A212P	NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	410					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		AAGTGGGCAGCCGGGGAGAGG	0.572													30	43	---	---	---	---	PASS	G	47087573	G	G	47087573	3	3	128	1	0	0	0	0	1	0	0	0	3267	739	26	4	397	4	CERK	22	47087573	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	15797606	47087573	4216993	197	46327										
GPR143	4935	broad.mit.edu	37	chrX	9728759	9728759	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cagagggggtggactcaccgCactccccacgcagaaagcag	13	14	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:9728759C>G	uc004cst.1	-	2	418	c.418G>C	c.(418-420)GCG>CCG	p.A140P		NM_000273	NP_000264	P51810	GP143_HUMAN	G protein-coupled receptor 143	120	Extracellular (Potential).				calcium-mediated signaling using intracellular calcium source|eye pigment biosynthetic process|melanosome organization|melanosome transport|phosphatidylinositol-mediated signaling|regulation of calcium-mediated signaling|visual perception	apical plasma membrane|Golgi apparatus|integral to membrane|lysosomal membrane|melanosome membrane|membrane fraction	dopamine binding|L-DOPA receptor activity|protein binding|tyrosine binding			ovary(1)	1		Hepatocellular(5;0.000888)				GGACTCACCGCACTCCCCACG	0.393													7	21	---	---	---	---	PASS	G	9728759	G	G	9728759	3	3	128	1	0	0	0	0	1	0	0	0	6651	710	25	4	888	4	GPR143	23	9728759	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08		9728759	145541801	198	46328										
CLCN4	1183	broad.mit.edu	37	chrX	10182002	10182002	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cccaggacagcatgactgtcGaggacgtggagacgctcatc	13	12	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:10182002G>A	uc004csy.3	+	11	2288	c.1858G>A	c.(1858-1860)GAG>AAG	p.E620K	CLCN4_uc011mid.1_Missense_Mutation_p.E526K	NM_001830	NP_001821	P51793	CLCN4_HUMAN	chloride channel 4	620	CBS 1.|Cytoplasmic (By similarity).					early endosome membrane|integral to membrane|late endosome membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						CATGACTGTCGAGGACGTGGA	0.632													7	84	---	---	---	---	PASS	A	10182002	A	A	10182002	3	1	128	1	0	0	0	0	1	0	0	0	3465	1059	37	2	1892	2	CLCN4	23	10182002	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	453243	10182002	145088558	199	46329										
AMELX	265	broad.mit.edu	37	chrX	11316790	11316790	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	caccacatcccagtggtgccAgctcagcagcccgtgatccc	9	18	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:11316790A>G	uc004cut.2	+	5	335	c.267A>G	c.(265-267)CCA>CCG	p.P89P	ARHGAP6_uc004cup.1_Intron|ARHGAP6_uc004cuo.1_Intron|ARHGAP6_uc004cur.1_Intron|ARHGAP6_uc004cun.1_Intron|ARHGAP6_uc011mif.1_Intron|AMELX_uc004cus.2_Silent_p.P103P|AMELX_uc004cuu.2_Silent_p.P73P	NM_001142	NP_001133	Q99217	AMELX_HUMAN	amelogenin (X chromosome) isoform 1 precursor	89					cell adhesion|cell proliferation|chondrocyte differentiation|enamel mineralization|epithelial to mesenchymal transition|ion homeostasis|odontogenesis of dentine-containing tooth|osteoblast differentiation|positive regulation of collagen biosynthetic process|positive regulation of tooth mineralization|signal transduction	proteinaceous extracellular matrix	cell surface binding|growth factor activity|hydroxyapatite binding|identical protein binding|structural constituent of tooth enamel				0						CAGTGGTGCCAGCTCAGCAGC	0.622													79	199	---	---	---	---	PASS	G	11316790	G	G	11316790	2	3	128	1	0	0	0	0	0	0	0	1	569	175	7	5		5	AMELX	23	11316790	Silent	SNP	A	TCGA-60-2719-01A-01D-1522-08	1134788	11316790	143953770	200	46330										
EGFL6	25975	broad.mit.edu	37	chrX	13651197	13651197	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gcttatgtccagatagccttTtatctgtggatgactgaatg	10	7	1	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:13651197T>G	uc004cvi.2	+	12	1885	c.1645T>G	c.(1645-1647)TTA>GTA	p.L549V	EGFL6_uc004cvj.2_Missense_Mutation_p.L550V	NM_015507	NP_056322	Q8IUX8	EGFL6_HUMAN	epidermal growth factor-like protein 6	549					cell adhesion|cell cycle|cell differentiation|multicellular organismal development	basement membrane|extracellular space|membrane	calcium ion binding|integrin binding			breast(2)	2						AGATAGCCTTTTATCTGTGGA	0.398													9	263	---	---	---	---	PASS	G	13651197	G	G	13651197	3	3	128	1	0	0	0	0	1	0	0	0	4963	1838	64	5	1694	5	EGFL6	23	13651197	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	2334407	13651197	141619363	201	46331										
PHEX	5251	broad.mit.edu	37	chrX	22245715	22245715	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	caacaaccagctcttcttccTgagttatgctcatgtgagta	7	11	3	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:22245715T>C	uc004dah.2	+	20	2260	c.2057T>C	c.(2056-2058)CTG>CCG	p.L686P	PHEX_uc011mjr.1_Missense_Mutation_p.L686P|PHEX_uc011mjs.1_Missense_Mutation_p.L589P	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	686					biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						CTCTTCTTCCTGAGTTATGCT	0.458													104	138	---	---	---	---	PASS	C	22245715	C	C	22245715	3	2	128	1	0	0	0	0	1	0	0	0	11819	1580	55	5	2135	5	PHEX	23	22245715	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	8594518	22245715	133024845	202	46332										
PDK3	5165	broad.mit.edu	37	chrX	24483633	24483633	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	agcagatcgagcgctactcgCgcttttcgccgtcgccgctc	11	16	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:24483633C>T	uc004dbg.2	+	1	290	c.61C>T	c.(61-63)CGC>TGC	p.R21C	PDK3_uc004dbh.2_Missense_Mutation_p.R21C	NM_005391	NP_005382	Q15120	PDK3_HUMAN	pyruvate dehydrogenase kinase 3 isoform 2	21					glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|protein binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						GCGCTACTCGCGCTTTTCGCC	0.697													13	27	---	---	---	---	PASS	T	24483633	T	T	24483633	3	4	128	1	0	0	0	0	1	0	0	0	11677	768	27	1	63	1	PDK3	23	24483633	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	2237918	24483633	130786927	203	46333										
CYBB	1536	broad.mit.edu	37	chrX	37663354	37663354	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gcttgtggctgtgataagcaGgagtttcaagatgcgtggaa	15	5	1	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:37663354G>T	uc004ddr.2	+	9	1183	c.1122G>T	c.(1120-1122)CAG>CAT	p.Q374H	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Missense_Mutation_p.Q342H|CYBB_uc011mkg.1_Missense_Mutation_p.Q107H	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	374	Cytoplasmic (Potential).|FAD-binding FR-type.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						GTGATAAGCAGGAGTTTCAAG	0.453													61	121	---	---	---	---	PASS	T	37663354	T	T	37663354	3	4	128	1	0	0	0	0	1	0	0	0	4133	991	35	3	1156	3	CYBB	23	37663354	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	13179721	37663354	117607206	204	46334										
SYTL5	94122	broad.mit.edu	37	chrX	37969625	37969625	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gaactctgcagctctcagtcTggcactatgatcgatttgga	10	10	3	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:37969625T>A	uc004ddu.2	+	14	2020	c.1486T>A	c.(1486-1488)TGG>AGG	p.W496R	SYTL5_uc004ddv.2_Missense_Mutation_p.W496R|SYTL5_uc004ddx.2_Missense_Mutation_p.W518R	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	496	C2 1.				intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						GCTCTCAGTCTGGCACTATGA	0.448													175	194	---	---	---	---	PASS	A	37969625	A	A	37969625	3	1	128	1	0	0	0	0	1	0	0	0	15483	1580	55	5	1602	5	SYTL5	23	37969625	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	306271	37969625	117300935	205	46335										
PORCN	64840	broad.mit.edu	37	chrX	48372703	48372703	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggctttctttccgaggccacGgccacgttggcgggggctgg	17	12	1	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:48372703G>T	uc010nie.1	+	9	953	c.795G>T	c.(793-795)ACG>ACT	p.T265T	PORCN_uc004djr.1_Silent_p.T260T|PORCN_uc004djs.1_Silent_p.T254T|PORCN_uc004djt.1_Silent_p.T183T|PORCN_uc011mlx.1_Silent_p.T183T|PORCN_uc004dju.1_Silent_p.T123T|PORCN_uc004djv.1_Silent_p.T265T|PORCN_uc004djw.1_Silent_p.T259T	NM_203475	NP_982301	Q9H237	PORCN_HUMAN	porcupine isoform D	265	Helical; (Potential).				Wnt receptor signaling pathway	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(2)|central_nervous_system(1)	3						CCGAGGCCACGGCCACGTTGG	0.627													68	77	---	---	---	---	PASS	T	48372703	T	T	48372703	2	4	128	1	0	0	0	0	0	0	0	1	12258	1103	39	1		1	PORCN	23	48372703	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	10403078	48372703	106897857	206	46336										
TBC1D25	4943	broad.mit.edu	37	chrX	48418069	48418069	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ccgagagcggatggactacaTgaaacgcaagagccgcgagt	14	10	0	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:48418069T>A	uc004dka.1	+	6	884	c.773T>A	c.(772-774)ATG>AAG	p.M258K	TBC1D25_uc011mly.1_Missense_Mutation_p.M200K|TBC1D25_uc004dkb.1_Missense_Mutation_p.M4K|TBC1D25_uc011mlz.1_Missense_Mutation_p.M4K|TBC1D25_uc011mma.1_Missense_Mutation_p.M4K|TBC1D25_uc004dkc.1_Missense_Mutation_p.M4K|TBC1D25_uc011mmb.1_Missense_Mutation_p.M262K|TBC1D25_uc011mmc.1_Missense_Mutation_p.M4K|TBC1D25_uc011mmd.1_Missense_Mutation_p.M4K	NM_002536	NP_002527	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	258	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			ovary(1)	1						ATGGACTACATGAAACGCAAG	0.592													43	66	---	---	---	---	PASS	A	48418069	A	A	48418069	3	1	128	1	0	0	0	0	1	0	0	0	15612	1464	51	5	795	5	TBC1D25	23	48418069	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	45366	48418069	106852491	207	46337										
CACNA1F	778	broad.mit.edu	37	chrX	49074999	49074999	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tcaccaccgagatggcgctgGagctggggaaggggcaatcc	16	11	1	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:49074999G>A	uc004dnb.2	-	24	2938	c.2876C>T	c.(2875-2877)TCC>TTC	p.S959F	CACNA1F_uc010nip.2_Missense_Mutation_p.S948F	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	959	III.|Extracellular (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	GATGGCGCTGGAGCTGGGGAA	0.622													7	26	---	---	---	---	PASS	A	49074999	A	A	49074999	3	1	128	1	0	0	0	0	1	0	0	0	2543	1174	41	2	3157	2	CACNA1F	23	49074999	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	656930	49074999	106195561	208	46338										
FAM120C	54954	broad.mit.edu	37	chrX	54161493	54161493	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gagaagagatgagttgggtcCcactgggaatggtggtggat	18	4	0	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:54161493C>G	uc004dsz.3	-	7	1470	c.1387G>C	c.(1387-1389)GGA>CGA	p.G463R	FAM120C_uc011moh.1_Missense_Mutation_p.G463R	NM_017848	NP_060318	Q9NX05	F120C_HUMAN	hypothetical protein LOC54954	463										ovary(1)|central_nervous_system(1)	2						GAGTTGGGTCCCACTGGGAAT	0.458													62	73	---	---	---	---	PASS	G	54161493	G	G	54161493	3	3	128	1	0	0	0	0	1	0	0	0	5418	632	22	4	1943	4	FAM120C	23	54161493	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	5086494	54161493	101109067	209	46339										
ZC3H12B	340554	broad.mit.edu	37	chrX	64721936	64721936	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gcctgaggaatggctgtccaTtgcccgtaagcctgaggcta	13	11	0	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:64721936T>C	uc010nko.2	+	5	1334	c.1325T>C	c.(1324-1326)ATT>ACT	p.I442T		NM_001010888	NP_001010888	Q5HYM0	ZC12B_HUMAN	zinc finger CCCH-type containing 12B	442							endonuclease activity|nucleic acid binding|zinc ion binding			lung(1)|kidney(1)|pancreas(1)	3						TGGCTGTCCATTGCCCGTAAG	0.567													19	21	---	---	---	---	PASS	C	64721936	C	C	64721936	3	2	128	1	0	0	0	0	1	0	0	0	17559	1493	52	5	1376	5	ZC3H12B	23	64721936	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	10560443	64721936	90548624	210	46340										
RPS6KA6	27330	broad.mit.edu	37	chrX	83362666	83362666	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	cagtaaattcaggatcaaaaCaaaaagtatcatctggtttt	6	6	4	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:83362666C>G	uc004eej.1	-	13	1153	c.1076G>C	c.(1075-1077)TGT>TCT	p.C359S	RPS6KA6_uc011mqt.1_Missense_Mutation_p.C359S|RPS6KA6_uc011mqu.1_Missense_Mutation_p.C256S	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	359	AGC-kinase C-terminal.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						AGGATCAAAACAAAAAGTATC	0.299													3	77	---	---	---	---	PASS	G	83362666	G	G	83362666	3	3	128	1	0	0	0	0	1	0	0	0	13655	478	17	4	1201	4	RPS6KA6	23	83362666	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	18640730	83362666	71907894	211	46341										
NAP1L3	4675	broad.mit.edu	37	chrX	92927456	92927456	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gaagcctttcctcaggaactCttttatgagtctctcttact	6	11	4	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:92927456C>A	uc004efq.2	-	1	1153	c.848G>T	c.(847-849)AGA>ATA	p.R283I	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	283					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						CTCAGGAACTCTTTTATGAGT	0.453													107	129	---	---	---	---	PASS	A	92927456	A	A	92927456	3	1	128	1	0	0	0	0	1	0	0	0	10158	913	32	2	676	2	NAP1L3	23	92927456	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	9564790	92927456	62343104	212	46342										
CENPI	2491	broad.mit.edu	37	chrX	100402956	100402956	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aatcagagttcaatttcagcAgcaagacttatcaagaattt	6	7	4	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:100402956A>T	uc004egx.2	+	19	2170	c.1900A>T	c.(1900-1902)AGC>TGC	p.S634C	CENPI_uc011mrg.1_Missense_Mutation_p.S634C	NM_006733	NP_006724	Q92674	CENPI_HUMAN	centromere protein I	634					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	cytosol|kinetochore|nucleoplasm	protein binding			skin(1)	1						CAATTTCAGCAGCAAGACTTA	0.358													89	133	---	---	---	---	PASS	T	100402956	T	T	100402956	3	4	128	1	0	0	0	0	1	0	0	0	3233	188	7	5	1970	5	CENPI	23	100402956	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	7475500	100402956	54867604	213	46343										
MUM1L1	139221	broad.mit.edu	37	chrX	105449901	105449901	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	atgcttgttagcatcttcagAgagtgatgattccctgtatg	10	7	2	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:105449901A>T	uc004emf.1	+	4	1125	c.476A>T	c.(475-477)GAG>GTG	p.E159V	MUM1L1_uc004emg.1_Missense_Mutation_p.E159V	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	159										ovary(2)|pancreas(1)|skin(1)	4						GCATCTTCAGAGAGTGATGAT	0.428													20	47	---	---	---	---	PASS	T	105449901	T	T	105449901	3	4	128	1	0	0	0	0	1	0	0	0	9986	304	11	5	478	5	MUM1L1	23	105449901	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	5046945	105449901	49820659	214	46344										
VSIG1	340547	broad.mit.edu	37	chrX	107316490	107316490	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gtttcaacagacccaaccacCgggattttggtcattggaaa	9	10	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:107316490C>A	uc004eno.2	+	5	740	c.579C>A	c.(577-579)ACC>ACA	p.T193T	VSIG1_uc011msk.1_Silent_p.T229T	NM_182607	NP_872413	Q86XK7	VSIG1_HUMAN	V-set and immunoglobulin domain containing 1	193	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						ACCCAACCACCGGGATTTTGG	0.428													146	377	---	---	---	---	PASS	A	107316490	A	A	107316490	2	1	128	1	0	0	0	0	0	0	0	1	17219	639	23	1		1	VSIG1	23	107316490	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	1866589	107316490	47954070	215	46345										
LONRF3	79836	broad.mit.edu	37	chrX	118124510	118124510	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	acgcatctgaccttgaatgcGctctatgtatgaggtacgtc	10	10	2	3			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:118124510G>A	uc004eqw.2	+	5	1433	c.1402G>A	c.(1402-1404)GCT>ACT	p.A468T	LONRF3_uc004eqx.2_Missense_Mutation_p.A427T|LONRF3_uc004eqy.2_RNA|LONRF3_uc004eqz.2_Missense_Mutation_p.A212T	NM_001031855	NP_001027026	Q496Y0	LONF3_HUMAN	LON peptidase N-terminal domain and ring finger	468	RING-type 2.				proteolysis		ATP-dependent peptidase activity|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)	2						CCTTGAATGCGCTCTATGTAT	0.468													86	115	---	---	---	---	PASS	A	118124510	A	A	118124510	3	1	128	1	0	0	0	0	1	0	0	0	8896	1087	38	1	1420	1	LONRF3	23	118124510	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	10808020	118124510	37146050	216	46346										
KIAA1210	57481	broad.mit.edu	37	chrX	118222607	118222607	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	gagctgctgcaatcatcagaAgtgttgtacttttcaacata	8	8	3	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:118222607A>C	uc004era.3	-	11	2586	c.2586T>G	c.(2584-2586)ACT>ACG	p.T862T		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	862										ovary(4)|skin(1)	5						AATCATCAGAAGTGTTGTACT	0.498													24	45	---	---	---	---	PASS	C	118222607	C	C	118222607	2	2	128	1	0	0	0	0	0	0	0	1	8214	59	3	5		5	KIAA1210	23	118222607	Silent	SNP	A	TCGA-60-2719-01A-01D-1522-08	98097	118222607	37047953	217	46347										
SEPT6	23157	broad.mit.edu	37	chrX	118763348	118763348	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggagccctgggactggagcaGctcagccgccgtctttcttt	13	13	3	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:118763348G>T	uc004erv.2	-	9	1478	c.1213C>A	c.(1213-1215)CTG>ATG	p.L405M	SEPT6_uc010nqk.2_RNA|SEPT6_uc004ers.2_Missense_Mutation_p.L405M|SEPT6_uc004ert.2_Missense_Mutation_p.L405M|SEPT6_uc004eru.2_Missense_Mutation_p.L405M|SEPT6_uc004erw.2_Missense_Mutation_p.L347M|SEPT6_uc011mtv.1_Missense_Mutation_p.L347M|SEPT6_uc011mtw.1_Missense_Mutation_p.L435M	NM_015129	NP_055944	Q14141	SEPT6_HUMAN	septin 6 isoform B	405	Potential.				cell cycle|cytokinesis|interspecies interaction between organisms	cleavage furrow|condensed chromosome kinetochore|midbody|septin complex|spindle	GTP binding|protein binding			lung(1)|ovary(1)|prostate(1)|kidney(1)	4						GACTGGAGCAGCTCAGCCGCC	0.512													115	134	---	---	---	---	PASS	T	118763348	T	T	118763348	3	4	128	1	0	0	0	0	1	0	0	0	14068	962	34	3	121	3	SEPT6	23	118763348	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	540741	118763348	36507212	218	46348										
ENOX2	10495	broad.mit.edu	37	chrX	129837178	129837178	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ccatgcagttggatcagacaTaggtagtgtcattgcagtgg	13	7	2	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:129837178T>C	uc004evw.2	-	5	518	c.100A>G	c.(100-102)ATG>GTG	p.M34V	ENOX2_uc004evx.2_Missense_Mutation_p.M5V|ENOX2_uc004evy.2_Missense_Mutation_p.M5V	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	34					cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						GGATCAGACATAGGTAGTGTC	0.403													57	164	---	---	---	---	PASS	C	129837178	C	C	129837178	3	2	128	1	0	0	0	0	1	0	0	0	5127	1406	49	5	1780	5	ENOX2	23	129837178	Missense_Mutation	SNP	T	TCGA-60-2719-01A-01D-1522-08	11073830	129837178	25433382	219	46349										
ARHGAP36	158763	broad.mit.edu	37	chrX	130218282	130218282	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aaatttcctttccaattggcCaacgacttctgggatccaaa	6	11	1	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:130218282C>A	uc004evz.2	+	5	994	c.649C>A	c.(649-651)CAA>AAA	p.Q217K	ARHGAP36_uc004ewa.2_Missense_Mutation_p.Q205K|ARHGAP36_uc004ewb.2_Missense_Mutation_p.Q186K|ARHGAP36_uc004ewc.2_Missense_Mutation_p.Q81K	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	217					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						TCCAATTGGCCAACGACTTCT	0.498													28	69	---	---	---	---	PASS	A	130218282	A	A	130218282	3	1	128	1	0	0	0	0	1	0	0	0	883	595	21	3	663	3	ARHGAP36	23	130218282	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	381104	130218282	25052278	220	46350										
ZNF75D	7626	broad.mit.edu	37	chrX	134427658	134427658	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ggcaatctttcttcttacctCattctttgttccatcaggct	5	12	6	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:134427658C>T	uc004eyp.2	-	3	3064	c.409G>A	c.(409-411)GAG>AAG	p.E137K	ZNF75D_uc004eym.2_Intron|ZNF75D_uc004eyn.2_5'Flank|ZNF75D_uc004eyo.2_Missense_Mutation_p.E137K	NM_007131	NP_009062	P51815	ZN75D_HUMAN	zinc finger protein 75	137					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTTCTTACCTCATTCTTTGTT	0.438													110	94	---	---	---	---	PASS	T	134427658	T	T	134427658	3	4	128	1	0	0	0	0	1	0	0	0	18131	835	29	2	1143	2	ZNF75D	23	134427658	Missense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	4209376	134427658	20842902	221	46351										
MAMLD1	10046	broad.mit.edu	37	chrX	149638838	149638838	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	acccccagttggtctggtctGcctcctccaggactctctcc	8	18	3	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:149638838G>T	uc004fee.1	+	3	1069	c.993G>T	c.(991-993)CTG>CTT	p.L331L	MAMLD1_uc011mxt.1_Silent_p.L293L|MAMLD1_uc011mxu.1_Silent_p.L306L|MAMLD1_uc011mxv.1_Silent_p.L306L|MAMLD1_uc011mxw.1_Silent_p.L258L	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	331					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					GGTCTGGTCTGCCTCCTCCAG	0.488													30	66	---	---	---	---	PASS	T	149638838	T	T	149638838	2	4	128	1	0	0	0	0	0	0	0	1	9208	1306	46	3		3	MAMLD1	23	149638838	Silent	SNP	G	TCGA-60-2719-01A-01D-1522-08	15211180	149638838	5631722	222	46352										
MTMR1	8776	broad.mit.edu	37	chrX	149895709	149895709	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aaagatgtcatgtatatctgCccatttatgggagcagtgag	11	6	2	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:149895709C>A	uc004fei.2	+	4	486	c.351C>A	c.(349-351)TGC>TGA	p.C117*	MTMR1_uc011mya.1_Nonsense_Mutation_p.C23*|MTMR1_uc004feg.1_Nonsense_Mutation_p.C117*|MTMR1_uc004feh.1_Nonsense_Mutation_p.C125*|MTMR1_uc004fej.2_RNA|MTMR1_uc010ntf.2_RNA	NM_003828	NP_003819	Q13613	MTMR1_HUMAN	myotubularin-related protein 1	117	GRAM.					plasma membrane	protein tyrosine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TGTATATCTGCCCATTTATGG	0.368													61	87	---	---	---	---	PASS	A	149895709	A	A	149895709	4	1	128	1	0	0	0	0	0	1	0	0	9938	747	26	3	365	3	MTMR1	23	149895709	Nonsense_Mutation	SNP	C	TCGA-60-2719-01A-01D-1522-08	256871	149895709	5374851	223	46353										
GABRQ	55879	broad.mit.edu	37	chrX	151821678	151821678	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	ccaaaggtcgacaagtggtcCcggttcctcttccctctggc	10	15	2	0			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:151821678C>A	uc004ffp.1	+	9	1853	c.1833C>A	c.(1831-1833)TCC>TCA	p.S611S		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	611						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ACAAGTGGTCCCGGTTCCTCT	0.527													116	128	---	---	---	---	PASS	A	151821678	A	A	151821678	2	1	128	1	0	0	0	0	0	0	0	1	6175	610	22	3		3	GABRQ	23	151821678	Silent	SNP	C	TCGA-60-2719-01A-01D-1522-08	1925969	151821678	3448882	224	46354										
FLNA	2316	broad.mit.edu	37	chrX	153577267	153577267	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	tgggatgtgctcgtccccccAtttgaccaccagtgtgtact	10	13	0	1			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:153577267A>T	uc004fkk.2	-	48	8143	c.7894T>A	c.(7894-7896)TGG>AGG	p.W2632R	FLNA_uc004fki.2_Missense_Mutation_p.W672R|FLNA_uc011mzn.1_Missense_Mutation_p.W765R|FLNA_uc010nuu.1_Missense_Mutation_p.W2624R	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2632	Self-association site, tail.|Filamin 24.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TCGTCCCCCCATTTGACCACC	0.667													50	60	---	---	---	---	PASS	T	153577267	T	T	153577267	3	4	128	1	0	0	0	0	1	0	0	0	5933	217	8	5	53	5	FLNA	23	153577267	Missense_Mutation	SNP	A	TCGA-60-2719-01A-01D-1522-08	1755589	153577267	1693293	225	46355										
MPP1	4354	broad.mit.edu	37	chrX	154009998	154009998	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0852017937219731	19	0.0795633491484151	1.48305041284168	1.8147853736089	1.36766433953135	0.0792068906018774	0.350490490913307	0	aagaactcattggcagagatGttcctcgtcatctcctccgt	8	12	3	2			TCGA-60-2719-01A-01D-1522-08	TCGA-60-2719-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee6cc68e-8d2a-41ee-82c6-0fecdf7e6259	7efd4b88-beed-4e5e-b434-2bc0103084e6	g.chrX:154009998G>T	uc004fmp.1	-	10	1141	c.1026C>A	c.(1024-1026)AAC>AAA	p.N342K	MPP1_uc010nvg.1_Missense_Mutation_p.N322K|MPP1_uc011mzv.1_Missense_Mutation_p.N312K|MPP1_uc004fmq.1_Missense_Mutation_p.N296K|MPP1_uc011mzw.1_Missense_Mutation_p.N325K	NM_002436	NP_002427	Q00013	EM55_HUMAN	palmitoylated membrane protein 1	342	Guanylate kinase-like.|Interaction with MPP5.				regulation of neutrophil chemotaxis|signal transduction	integral to plasma membrane|membrane fraction|stereocilium	guanylate kinase activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TGGCAGAGATGTTCCTCGTCA	0.468													166	207	---	---	---	---	PASS	T	154009998	T	T	154009998	3	4	128	1	0	0	0	0	1	0	0	0	9733	1368	48	3	386	3	MPP1	23	154009998	Missense_Mutation	SNP	G	TCGA-60-2719-01A-01D-1522-08	432731	154009998	1260562	226	46356										
CHD5	26038	broad.mit.edu	37	chr1	6196612	6196612	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtcaggaagttgaggagatgGaacagctcctccaggttgtt	14	7	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:6196612G>A	uc001amb.1	-	17	2761	c.2661C>T	c.(2659-2661)TTC>TTT	p.F887F	CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA|CHD5_uc009vlx.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	887	Helicase ATP-binding.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		TGAGGAGATGGAACAGCTCCT	0.542													11	216	---	---	---	---	PASS	A	6196612	A	A	6196612	2	1	129	1	0	0	0	0	0	0	0	1	3328	1165	41	2		2	CHD5	1	6196612	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08		6196612	243054009	1	46357										
CA6	765	broad.mit.edu	37	chr1	9017275	9017275	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcccagcagatgcactttcaCtggggaggtgcgtcctcgga	14	12	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:9017275C>A	uc001apm.2	+	3	363	c.339C>A	c.(337-339)CAC>CAA	p.H113Q	CA6_uc009vmn.2_Missense_Mutation_p.H53Q	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	113		Zinc; catalytic.			one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)		TGCACTTTCACTGGGGAGGTG	0.592													16	72	---	---	---	---	PASS	A	9017275	A	A	9017275	3	1	129	1	0	0	0	0	1	0	0	0	2521	564	20	3	349	3	CA6	1	9017275	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2820663	9017275	240233346	2	46358										
EXOSC10	5394	broad.mit.edu	37	chr1	11151198	11151198	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttttttgcatgaagcagccgGaaagtttcagattttgcttt	9	6	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:11151198G>C	uc001asa.2	-	5	566	c.516C>G	c.(514-516)TTC>TTG	p.F172L	EXOSC10_uc001asb.2_Missense_Mutation_p.F172L|EXOSC10_uc009vmy.1_Missense_Mutation_p.F172L	NM_001001998	NP_001001998	Q01780	EXOSX_HUMAN	exosome component 10 isoform 1	172					CUT catabolic process|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear polyadenylation-dependent rRNA catabolic process|nuclear retention of unspliced pre-mRNA at the site of transcription|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasm|nuclear exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5' exonuclease activity|exoribonuclease activity|identical protein binding|nucleotide binding|protein serine/threonine kinase activity|RNA binding			upper_aerodigestive_tract(1)	1	Ovarian(185;0.249)	Lung NSC(185;1.74e-05)|all_lung(284;2.05e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.18e-07)|COAD - Colon adenocarcinoma(227;8.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000315)|Kidney(185;0.000832)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|READ - Rectum adenocarcinoma(331;0.0526)|STAD - Stomach adenocarcinoma(313;0.202)		GAAGCAGCCGGAAAGTTTCAG	0.343													32	225	---	---	---	---	PASS	C	11151198	C	C	11151198	3	2	129	1	0	0	0	0	1	0	0	0	5314	1165	41	2	2225	2	EXOSC10	1	11151198	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	2133923	11151198	238099423	3	46359										
C1QC	714	broad.mit.edu	37	chr1	22974057	22974057	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tactttgtctaccacgcgtcGcatacagccaacctgtgcgt	8	14	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:22974057G>A	uc001bgc.3	+	3	622	c.519G>A	c.(517-519)TCG>TCA	p.S173S	C1QC_uc001bga.3_Silent_p.S173S|C1QC_uc001bgb.2_Silent_p.S173S	NM_172369	NP_758957	P02747	C1QC_HUMAN	complement component 1, q subcomponent, C chain	173	C1q.				complement activation, classical pathway|innate immune response|negative regulation of granulocyte differentiation|negative regulation of macrophage differentiation	collagen					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.21e-27)|Colorectal(126;1.5e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.61e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000538)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.196)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	ACCACGCGTCGCATACAGCCA	0.582													4	112	---	---	---	---	PASS	A	22974057	A	A	22974057	2	1	129	1	0	0	0	0	0	0	0	1	1957	1074	38	1		1	C1QC	1	22974057	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	11822859	22974057	226276564	4	46360										
MYOM3	127294	broad.mit.edu	37	chr1	24400709	24400709	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cggcatcagtgactatgactGagtaggtgcccaaatcctcg	11	11	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:24400709G>C	uc001bin.3	-	23	3072	c.2909C>G	c.(2908-2910)TCA>TGA	p.S970*	MYOM3_uc001bim.3_Nonsense_Mutation_p.S627*|MYOM3_uc001bio.2_Nonsense_Mutation_p.S970*	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	970										skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		GACTATGACTGAGTAGGTGCC	0.582													22	90	---	---	---	---	PASS	C	24400709	C	C	24400709	4	2	129	1	0	0	0	0	0	1	0	0	10093	1294	45	2	1464	2	MYOM3	1	24400709	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1426652	24400709	224849912	5	46361										
RHCE	6006	broad.mit.edu	37	chr1	25715488	25715488	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggcaggcacttggctcccccGatggagatcagcccagccac	12	16	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:25715488G>A	uc001bkf.2	-	6	1004	c.918C>T	c.(916-918)ATC>ATT	p.I306I	RHCE_uc001bkg.2_Silent_p.I306I|RHCE_uc001bkh.2_Silent_p.I201I|RHCE_uc001bki.2_Intron|RHCE_uc001bkj.2_Silent_p.I290I	NM_020485	NP_065231	P18577	RHCE_HUMAN	Rhesus blood group, CcEe antigens isoform 1	306	Helical; (Potential).					integral to plasma membrane					0		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0426)|OV - Ovarian serous cystadenocarcinoma(117;2.12e-27)|Colorectal(126;3.16e-08)|COAD - Colon adenocarcinoma(152;1.72e-06)|STAD - Stomach adenocarcinoma(196;0.00035)|KIRC - Kidney renal clear cell carcinoma(1967;0.000769)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|GBM - Glioblastoma multiforme(114;0.00458)|READ - Rectum adenocarcinoma(331;0.0649)		TGGCTCCCCCGATGGAGATCA	0.607													7	43	---	---	---	---	PASS	A	25715488	A	A	25715488	2	1	129	1	0	0	0	0	0	0	0	1	13325	1048	37	2		2	RHCE	1	25715488	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	1314779	25715488	223535133	6	46362										
ARID1A	8289	broad.mit.edu	37	chr1	27099425	27099425	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tatgaatacctctgacatgaTggggcgcatgtcctatgagc	11	9	1	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:27099425T>C	uc001bmv.1	+	14	4035	c.3662T>C	c.(3661-3663)ATG>ACG	p.M1221T	ARID1A_uc001bmt.1_Missense_Mutation_p.M1220T|ARID1A_uc001bmu.1_Missense_Mutation_p.M1221T|ARID1A_uc001bmw.1_Missense_Mutation_p.M838T|ARID1A_uc001bmx.1_Missense_Mutation_p.M67T|ARID1A_uc009vsm.1_5'UTR|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1221					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	p.M1220fs*9(1)|p.M1220fs*2(1)		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)		TCTGACATGATGGGGCGCATG	0.473			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								10	79	---	---	---	---	PASS	C	27099425	C	C	27099425	3	2	129	1	0	0	0	0	1	0	0	0	913	1464	51	5	3716	5	ARID1A	1	27099425	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	1383937	27099425	222151196	7	46363										
HIVEP3	59269	broad.mit.edu	37	chr1	41976541	41976541	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtagtccccgccctccagctCtgaggagagtgtgaatttgg	13	11	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:41976541C>G	uc001cgz.3	-	9	8015	c.6802G>C	c.(6802-6804)GAG>CAG	p.E2268Q	HIVEP3_uc001cha.3_Missense_Mutation_p.E2267Q|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	2268					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CCCTCCAGCTCTGAGGAGAGT	0.687													10	53	---	---	---	---	PASS	G	41976541	G	G	41976541	3	3	129	1	0	0	0	0	1	0	0	0	7188	922	32	2	422	2	HIVEP3	1	41976541	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	14877116	41976541	207274080	8	46364										
PTCH2	8643	broad.mit.edu	37	chr1	45307547	45307547	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cagagctgttccaagtttgtCtcaataatggccatgcggag	11	9	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:45307547C>G	uc010olf.1	-	2	249	c.237G>C	c.(235-237)GAG>GAC	p.E79D	PTCH2_uc010olg.1_5'UTR	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	79	Extracellular (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					CCAAGTTTGTCTCAATAATGG	0.547									Basal_Cell_Nevus_syndrome				22	132	---	---	---	---	PASS	G	45307547	G	G	45307547	3	3	129	1	0	0	0	0	1	0	0	0	12731	912	32	2	3478	2	PTCH2	1	45307547	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	3331006	45307547	203943074	9	46365										
TTC4	7268	broad.mit.edu	37	chr1	55207145	55207145	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	taggatcctctcctttttgcAagaattttctccgggggaga	10	9	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:55207145A>C	uc001cxx.3	+	10	1176	c.1123A>C	c.(1123-1125)AAG>CAG	p.K375Q	C1orf175_uc001cxq.2_RNA|TTC4_uc001cxw.3_Missense_Mutation_p.K276Q|TTC4_uc001cxv.2_Missense_Mutation_p.K386Q	NM_004623	NP_004614	O95801	TTC4_HUMAN	tetratricopeptide repeat domain 4	375							binding				0						TCCTTTTTGCAAGAATTTTCT	0.488													41	208	---	---	---	---	PASS	C	55207145	C	C	55207145	3	2	129	1	0	0	0	0	1	0	0	0	16707	131	5	5	1161	5	TTC4	1	55207145	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	9899598	55207145	194043476	10	46366										
BSND	7809	broad.mit.edu	37	chr1	55464892	55464892	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aagaccttccggatcggcttCattgtgctggggcttttcct	11	11	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:55464892C>T	uc001cye.2	+	1	276	c.33C>T	c.(31-33)TTC>TTT	p.F11F		NM_057176	NP_476517	Q8WZ55	BSND_HUMAN	barttin	11	Helical; (Potential).					basolateral plasma membrane|cytoplasm|integral to plasma membrane|protein complex				ovary(1)|skin(1)	2						GGATCGGCTTCATTGTGCTGG	0.622													9	121	---	---	---	---	PASS	T	55464892	T	T	55464892	2	4	129	1	0	0	0	0	0	0	0	1	1531	825	29	2		2	BSND	1	55464892	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	257747	55464892	193785729	11	46367										
DOCK7	85440	broad.mit.edu	37	chr1	63090929	63090929	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcctacatgacagaacaataCctgcttaaaaaaatttgtca	4	9	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:63090929C>A	uc001daq.2	-	12	1459	c.1425_splice	c.e12+1	p.Q475_splice	DOCK7_uc001dan.2_Splice_Site_p.Q367_splice|DOCK7_uc001dao.2_Splice_Site_p.Q367_splice|DOCK7_uc001dap.2_Splice_Site_p.Q475_splice|DOCK7_uc009wah.1_Splice_Site_p.Q475_splice	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7						activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						CAGAACAATACCTGCTTAAAA	0.383													31	203	---	---	---	---	PASS	A	63090929	A	A	63090929	5	1	129	1	0	0	0	0	0	0	1	0	4692	521	18	3	5055	3	DOCK7	1	63090929	Splice_Site	SNP	C	TCGA-60-2720-01A-01D-1522-08	7626037	63090929	186159692	12	46368										
LRRC7	57554	broad.mit.edu	37	chr1	70257790	70257790	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	taacgacctttcaaatctgcCaaccactattgctagtttag	5	11	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:70257790C>A	uc001dep.2	+	2	284	c.254C>A	c.(253-255)CCA>CAA	p.P85Q	LRRC7_uc001deo.1_Missense_Mutation_p.P123Q|LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	85	LRR 3.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TCAAATCTGCCAACCACTATT	0.294													20	166	---	---	---	---	PASS	A	70257790	A	A	70257790	3	1	129	1	0	0	0	0	1	0	0	0	9020	594	21	3	260	3	LRRC7	1	70257790	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	7166861	70257790	178992831	13	46369										
PTGER3	5733	broad.mit.edu	37	chr1	71513140	71513140	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcaatcctcgccagaccctgGagggcgcgtgaggttgcccc	14	15	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:71513140G>C	uc001dfg.1	-	1	352	c.121C>G	c.(121-123)CCA>GCA	p.P41A	PTGER3_uc001dfh.1_RNA|PTGER3_uc001dfi.1_RNA|PTGER3_uc001dfj.1_RNA|PTGER3_uc001dfk.1_Missense_Mutation_p.P41A|PTGER3_uc001dfl.1_Missense_Mutation_p.P41A|PTGER3_uc009wbm.1_Missense_Mutation_p.P41A|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Missense_Mutation_p.P41A|PTGER3_uc009wbn.1_Missense_Mutation_p.P41A|PTGER3_uc009wbo.2_Missense_Mutation_p.P41A|PTGER3_uc001dfo.2_Missense_Mutation_p.P41A|PTGER3_uc001dfp.1_Missense_Mutation_p.P41A|PTGER3_uc001dfq.2_Missense_Mutation_p.P41A|uc001dfr.2_RNA	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	41	Extracellular (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	CCAGACCCTGGAGGGCGCGTG	0.677													3	16	---	---	---	---	PASS	C	71513140	C	C	71513140	3	2	129	1	0	0	0	0	1	0	0	0	12744	1174	41	2	1370	2	PTGER3	1	71513140	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1255350	71513140	177737481	14	46370										
SLC44A5	204962	broad.mit.edu	37	chr1	75693535	75693535	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtgtactgctggtaacagtgCcatattccttgaaaaagaaa	9	7	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:75693535C>T	uc001dgu.2	-	13	1005	c.861G>A	c.(859-861)TGG>TGA	p.W287*	SLC44A5_uc001dgt.2_Nonsense_Mutation_p.W287*|SLC44A5_uc001dgs.2_Nonsense_Mutation_p.W245*|SLC44A5_uc001dgr.2_Nonsense_Mutation_p.W245*|SLC44A5_uc010oqz.1_Nonsense_Mutation_p.W326*|SLC44A5_uc010ora.1_Nonsense_Mutation_p.W281*|SLC44A5_uc010orb.1_Nonsense_Mutation_p.W157*	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	287	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						GGTAACAGTGCCATATTCCTT	0.333													9	55	---	---	---	---	PASS	T	75693535	T	T	75693535	4	4	129	1	0	0	0	0	0	1	0	0	14639	740	26	3	1457	3	SLC44A5	1	75693535	Nonsense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	4180395	75693535	173557086	15	46371										
LPHN2	23266	broad.mit.edu	37	chr1	82409190	82409190	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atacgacaaacgtgccgcatCaaatgcttttatgatatgcg	8	9	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:82409190C>T	uc001dit.3	+	6	1116	c.935C>T	c.(934-936)TCA>TTA	p.S312L	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.S312L|LPHN2_uc001div.2_Missense_Mutation_p.S312L|LPHN2_uc009wcd.2_Missense_Mutation_p.S312L	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	312	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		CGTGCCGCATCAAATGCTTTT	0.383													14	178	---	---	---	---	PASS	T	82409190	T	T	82409190	3	4	129	1	0	0	0	0	1	0	0	0	8916	838	29	2	949	2	LPHN2	1	82409190	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	6715655	82409190	166841431	16	46372										
CCBL2	56267	broad.mit.edu	37	chr1	89430565	89430565	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gttaaaaagagatccatatgCtcctactgtcacaaggattt	7	8	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:89430565C>T	uc001dmp.2	-	5	777	c.400G>A	c.(400-402)GCA>ACA	p.A134T	CCBL2_uc001dmq.2_Missense_Mutation_p.A100T|CCBL2_uc001dmr.2_5'UTR	NM_001008661	NP_001008661	Q6YP21	KAT3_HUMAN	kynurenine aminotransferase III isoform 1	134					biosynthetic process|kynurenine metabolic process|tryptophan catabolic process		cysteine-S-conjugate beta-lyase activity|kynurenine-glyoxylate transaminase activity|kynurenine-oxoglutarate transaminase activity|pyridoxal phosphate binding			ovary(1)	1		Lung NSC(277;0.123)		all cancers(265;0.0117)|Epithelial(280;0.0341)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GATCCATATGCTCCTACTGTC	0.328													16	107	---	---	---	---	PASS	T	89430565	T	T	89430565	3	4	129	1	0	0	0	0	1	0	0	0	2733	797	28	3	1004	3	CCBL2	1	89430565	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	7021375	89430565	159820056	17	46373										
TGFBR3	7049	broad.mit.edu	37	chr1	92181880	92181880	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtgttgtatagctccatgttGaaggtgatgtttccgtgggg	15	5	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:92181880G>C	uc001doh.2	-	12	2245	c.1779C>G	c.(1777-1779)TTC>TTG	p.F593L	TGFBR3_uc009wde.2_Missense_Mutation_p.F370L|TGFBR3_uc010osy.1_Missense_Mutation_p.F551L|TGFBR3_uc001doi.2_Missense_Mutation_p.F592L|TGFBR3_uc001doj.2_Missense_Mutation_p.F592L	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	593	ZP.|Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		GCTCCATGTTGAAGGTGATGT	0.493													6	83	---	---	---	---	PASS	C	92181880	C	C	92181880	3	2	129	1	0	0	0	0	1	0	0	0	15820	1281	45	2	800	2	TGFBR3	1	92181880	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	2751315	92181880	157068741	18	46374										
RPAP2	79871	broad.mit.edu	37	chr1	92846357	92846357	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggtttctagacaccctccttGaagaattacatctaaaaaat	5	9	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:92846357G>A	uc001dot.2	+	12	1874	c.1765G>A	c.(1765-1767)GAA>AAA	p.E589K	RPAP2_uc009wdh.2_RNA	NM_024813	NP_079089	Q8IXW5	RPAP2_HUMAN	RNA polymerase II associated protein 2	589						integral to membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		all_lung(203;0.0565)|Lung NSC(277;0.152)|Glioma(108;0.222)		all cancers(265;0.00647)|GBM - Glioblastoma multiforme(16;0.0234)|Epithelial(280;0.115)		CACCCTCCTTGAAGAATTACA	0.363													41	200	---	---	---	---	PASS	A	92846357	A	A	92846357	3	1	129	1	0	0	0	0	1	0	0	0	13542	1291	45	2	1811	2	RPAP2	1	92846357	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	664477	92846357	156404264	19	46375										
ARHGAP29	9411	broad.mit.edu	37	chr1	94640064	94640064	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	actccttcaaaggcaggattCttgcaaaacttgtctaaatt	6	9	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:94640064C>G	uc001dqj.3	-	23	3516	c.3147G>C	c.(3145-3147)AAG>AAC	p.K1049N	ARHGAP29_uc009wdq.1_Intron	NM_004815	NP_004806	Q52LW3	RHG29_HUMAN	PTPL1-associated RhoGAP 1	1049					Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|upper_aerodigestive_tract(1)|ovary(1)	11		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		AGGCAGGATTCTTGCAAAACT	0.378													20	248	---	---	---	---	PASS	G	94640064	G	G	94640064	3	3	129	1	0	0	0	0	1	0	0	0	878	912	32	2	642	2	ARHGAP29	1	94640064	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1793707	94640064	154610557	20	46376										
COL11A1	1301	broad.mit.edu	37	chr1	103343604	103343604	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aaaacaaacaggaccaacttCaaatccgaacttctgattct	4	11	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:103343604C>T	uc001dul.2	-	67	5710	c.5392G>A	c.(5392-5394)GAA>AAA	p.E1798K	COL11A1_uc001duk.2_Missense_Mutation_p.E994K|COL11A1_uc001dum.2_Missense_Mutation_p.E1810K|COL11A1_uc001dun.2_Missense_Mutation_p.E1759K|COL11A1_uc009weh.2_Missense_Mutation_p.E1682K	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1798	Fibrillar collagen NC1.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GGACCAACTTCAAATCCGAAC	0.353													23	152	---	---	---	---	PASS	T	103343604	T	T	103343604	3	4	129	1	0	0	0	0	1	0	0	0	3667	835	29	2	32	2	COL11A1	1	103343604	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	8703540	103343604	145907017	21	46377										
COL11A1	1301	broad.mit.edu	37	chr1	103488453	103488453	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agaatccctgccgtctatttCtttgttttcatatagtgtat	6	8	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:103488453C>T	uc001dul.2	-	8	1408	c.1090G>A	c.(1090-1092)GAA>AAA	p.E364K	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Missense_Mutation_p.E376K|COL11A1_uc001dun.2_Missense_Mutation_p.E325K|COL11A1_uc009weh.2_Intron	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	364	Nonhelical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCGTCTATTTCTTTGTTTTCA	0.358													19	129	---	---	---	---	PASS	T	103488453	T	T	103488453	3	4	129	1	0	0	0	0	1	0	0	0	3667	922	32	2	4570	2	COL11A1	1	103488453	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	144849	103488453	145762168	22	46378										
PRMT6	55170	broad.mit.edu	37	chr1	107600266	107600266	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	acccctggtgctgtccacctCgccttttcacccggccactc	7	20	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:107600266C>T	uc010ous.1	+	1	1000	c.929C>T	c.(928-930)TCG>TTG	p.S310L		NM_018137	NP_060607	Q96LA8	ANM6_HUMAN	protein arginine methyltransferase 6	310					base-excision repair|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone binding|histone methyltransferase activity (H2A-R3 specific)|histone methyltransferase activity (H3-R2 specific)|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity				0		all_epithelial(167;0.000429)|all_lung(203;0.00122)|Lung NSC(277;0.00185)		Lung(183;0.0305)|Epithelial(280;0.0765)|Colorectal(144;0.0998)|all cancers(265;0.14)|LUSC - Lung squamous cell carcinoma(189;0.173)|BRCA - Breast invasive adenocarcinoma(282;0.242)		CTGTCCACCTCGCCTTTTCAC	0.607													12	101	---	---	---	---	PASS	T	107600266	T	T	107600266	3	4	129	1	0	0	0	0	1	0	0	0	12540	893	31	2	931	2	PRMT6	1	107600266	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	4111813	107600266	141650355	23	46379										
CELSR2	1952	broad.mit.edu	37	chr1	109795405	109795405	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	acaaggggatgcccccagccCgcacacctatggaagtgaca	11	14	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:109795405C>T	uc001dxa.3	+	1	2765	c.2704C>T	c.(2704-2706)CGC>TGC	p.R902C		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	902	Extracellular (Potential).|Cadherin 7.				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		GCCCCCAGCCCGCACACCTAT	0.552													4	105	---	---	---	---	PASS	T	109795405	T	T	109795405	3	4	129	1	0	0	0	0	1	0	0	0	3222	652	23	1	2706	1	CELSR2	1	109795405	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2195139	109795405	139455216	24	46380										
RAP1A	5906	broad.mit.edu	37	chr1	112246973	112246973	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttcttcccacaggttccaatGattttggttggcaataaatg	8	8	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:112246973G>A	uc001ebi.2	+	6	437	c.333G>A	c.(331-333)ATG>ATA	p.M111I	RAP1A_uc001ebk.2_Missense_Mutation_p.M111I|RAP1A_uc001ebl.2_Missense_Mutation_p.M111I|RAP1A_uc001ebm.2_RNA	NM_002884	NP_002875	P62834	RAP1A_HUMAN	RAP1A, member of RAS oncogene family precursor	111					activation of MAPKK activity|blood coagulation|energy reserve metabolic process|nerve growth factor receptor signaling pathway|regulation of insulin secretion	cytosol|plasma membrane	GTP binding|GTPase activity				0		all_cancers(81;6.79e-06)|all_epithelial(167;2.42e-05)|all_lung(203;0.000105)|Lung NSC(277;0.00021)		Lung(183;0.0183)|Colorectal(144;0.0418)|LUSC - Lung squamous cell carcinoma(189;0.0966)|all cancers(265;0.098)|Epithelial(280;0.0981)|COAD - Colon adenocarcinoma(174;0.141)		AGGTTCCAATGATTTTGGTTG	0.373													17	92	---	---	---	---	PASS	A	112246973	A	A	112246973	3	1	129	1	0	0	0	0	1	0	0	0	13035	1290	45	2	351	2	RAP1A	1	112246973	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	2451568	112246973	137003648	25	46381										
TTF2	8458	broad.mit.edu	37	chr1	117631574	117631574	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cactggaacccccattcaaaAcaacttattggatatgtatt	5	10	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:117631574A>G	uc001egy.2	+	13	2332	c.2312A>G	c.(2311-2313)AAC>AGC	p.N771S		NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	771	Helicase ATP-binding.				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		CCCATTCAAAACAACTTATTG	0.438													31	206	---	---	---	---	PASS	G	117631574	G	G	117631574	3	3	129	1	0	0	0	0	1	0	0	0	16716	43	2	5	2362	5	TTF2	1	117631574	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	5384601	117631574	131619047	26	46382										
HSD3B2	3284	broad.mit.edu	37	chr1	119962195	119962195	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agagagtccatcatgaatgtCaatgtgaaaggtacagtagc	11	6	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:119962195C>T	uc001ehs.2	+	2	1070	c.297C>T	c.(295-297)GTC>GTT	p.V99V	HSD3B2_uc001eht.2_Silent_p.V99V|HSD3B2_uc001ehu.2_Silent_p.V99V	NM_000198	NP_000189	P26439	3BHS2_HUMAN	3 beta-hydroxysteroid dehydrogenase 2	99					androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)	TCATGAATGTCAATGTGAAAG	0.458													17	58	---	---	---	---	PASS	T	119962195	T	T	119962195	2	4	129	1	0	0	0	0	0	0	0	1	7391	813	29	2		2	HSD3B2	1	119962195	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	2330621	119962195	129288426	27	46383										
C1orf56	54964	broad.mit.edu	37	chr1	151020396	151020396	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cccgggcggcgggggcccaaGgcctgacccagactccgacc	15	18	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:151020396G>A	uc001ewn.2	+	1	138	c.73G>A	c.(73-75)GGC>AGC	p.G25S		NM_017860	NP_060330	Q9BUN1	CA056_HUMAN	hypothetical protein LOC54964 precursor	25						extracellular region					0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GGGGGCCCAAGGCCTGACCCA	0.711													5	23	---	---	---	---	PASS	A	151020396	A	A	151020396	3	1	129	1	0	0	0	0	1	0	0	0	2048	1000	35	3	75	3	C1orf56	1	151020396	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	31058201	151020396	98230225	28	46384										
RPTN	126638	broad.mit.edu	37	chr1	152127601	152127601	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgtgctaagagtttgtgttgGtgatgttggctatcctcttc	12	6	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:152127601G>T	uc001ezs.1	-	3	2039	c.1974C>A	c.(1972-1974)CAC>CAA	p.H658Q		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	658	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						GTTTGTGTTGGTGATGTTGGC	0.522													25	177	---	---	---	---	PASS	T	152127601	T	T	152127601	3	4	129	1	0	0	0	0	1	0	0	0	13664	1252	44	3	384	3	RPTN	1	152127601	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1107205	152127601	97123020	29	46385										
ADAR	103	broad.mit.edu	37	chr1	154574268	154574268	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aggatcttccaaggcagatgTggagttgctgtcttcaggtt	13	7	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:154574268T>C	uc001ffh.2	-	2	1050	c.850A>G	c.(850-852)ACA>GCA	p.T284A	ADAR_uc001ffj.2_Missense_Mutation_p.T284A|ADAR_uc001ffi.2_Missense_Mutation_p.T284A|ADAR_uc001ffk.2_5'UTR|ADAR_uc001ffl.1_5'UTR	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	284					adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		AAGGCAGATGTGGAGTTGCTG	0.498													45	259	---	---	---	---	PASS	C	154574268	C	C	154574268	3	2	129	1	0	0	0	0	1	0	0	0	281	1696	59	5	2886	5	ADAR	1	154574268	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	2446667	154574268	94676353	30	46386										
PKLR	5313	broad.mit.edu	37	chr1	155261636	155261636	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aaagcaaggggaagactcctCggcataagtggacctggcgg	15	9	0	1	rs113403872	byFrequency	TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:155261636C>T	uc001fkb.3	-	10	1568	c.1529G>A	c.(1528-1530)CGA>CAA	p.R510Q	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Missense_Mutation_p.R479Q	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	510			R -> Q (in PKRD; the most common mutation in European population).		endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	GAAGACTCCTCGGCATAAGTG	0.587													5	136	---	---	---	---	PASS	T	155261636	T	T	155261636	3	4	129	1	0	0	0	0	1	0	0	0	11976	884	31	2	203	2	PKLR	1	155261636	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	687368	155261636	93988985	31	46387										
ASH1L	55870	broad.mit.edu	37	chr1	155408743	155408743	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggcagttgcaatcacagcatCaatacttttctccatgggct	8	11	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:155408743C>G	uc009wqq.2	-	5	5683	c.5203G>C	c.(5203-5205)GAT>CAT	p.D1735H	ASH1L_uc001fkt.2_Missense_Mutation_p.D1735H	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1735	Ser-rich.				cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			ATCACAGCATCAATACTTTTC	0.517													7	107	---	---	---	---	PASS	G	155408743	G	G	155408743	3	3	129	1	0	0	0	0	1	0	0	0	1041	826	29	2	3787	2	ASH1L	1	155408743	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	147107	155408743	93841878	32	46388										
NES	10763	broad.mit.edu	37	chr1	156641556	156641556	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	acgctctcttctttgagtgaCtttaagaactcttgattctc	6	10	4	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:156641556C>G	uc001fpq.2	-	4	2557	c.2424G>C	c.(2422-2424)AAG>AAC	p.K808N		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	808	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CTTTGAGTGACTTTAAGAACT	0.413													22	135	---	---	---	---	PASS	G	156641556	G	G	156641556	3	3	129	1	0	0	0	0	1	0	0	0	10337	564	20	4	2445	4	NES	1	156641556	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1232813	156641556	92609065	33	46389										
ISG20L2	81875	broad.mit.edu	37	chr1	156693248	156693248	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cacagaggaatgtccgctctTcccaacctgagcaagcaagg	10	13	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:156693248T>C	uc001fps.1	-	3	1216	c.955A>G	c.(955-957)AAG>GAG	p.K319E	ISG20L2_uc001fpt.1_Missense_Mutation_p.K319E	NM_030980	NP_112242	Q9H9L3	I20L2_HUMAN	interferon stimulated exonuclease gene	319	Exonuclease.				ribosome biogenesis	nucleolus	exonuclease activity|nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGTCCGCTCTTCCCAACCTGA	0.532													26	201	---	---	---	---	PASS	C	156693248	C	C	156693248	3	2	129	1	0	0	0	0	1	0	0	0	7855	1792	62	5	110	5	ISG20L2	1	156693248	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	51692	156693248	92557373	34	46390										
SPTA1	6708	broad.mit.edu	37	chr1	158615169	158615169	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctctgcctccatgtcagcacGgtgctcctgtgggaaaaagg	12	12	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:158615169G>C	uc001fst.1	-	29	4202	c.4003C>G	c.(4003-4005)CGT>GGT	p.R1335G		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1335	Spectrin 13.				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)					ATGTCAGCACGGTGCTCCTGT	0.488													13	87	---	---	---	---	PASS	C	158615169	C	C	158615169	3	2	129	1	0	0	0	0	1	0	0	0	15115	1116	39	4	3352	4	SPTA1	1	158615169	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1921921	158615169	90635452	35	46391										
MAEL	84944	broad.mit.edu	37	chr1	166974348	166974348	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agagtcaactggtgtttgaaGcatatggcaaaggcatcagg	13	6	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:166974348G>A	uc001gdy.1	+	7	755	c.684G>A	c.(682-684)AAG>AAA	p.K228K	MAEL_uc001gdz.1_Silent_p.K197K|MAEL_uc009wvf.1_RNA	NM_032858	NP_116247	Q96JY0	MAEL_HUMAN	maelstrom homolog	228					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|multicellular organismal development|piRNA metabolic process|spermatogenesis	piP-body	DNA binding			skin(1)	1						GGTGTTTGAAGCATATGGCAA	0.353													9	65	---	---	---	---	PASS	A	166974348	A	A	166974348	2	1	129	1	0	0	0	0	0	0	0	1	9154	962	34	3		3	MAEL	1	166974348	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	8359179	166974348	82276273	36	46392										
BAT2L2	23215	broad.mit.edu	37	chr1	171509532	171509532	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aaaaaaggaaggctttatacGatcttctgaaggaccaaaac	8	7	2	1	rs149366991	by1000genomes	TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:171509532G>T	uc010pmg.1	+	16	3187	c.2921G>T	c.(2920-2922)CGA>CTA	p.R974L	BAT2L2_uc010pmh.1_5'UTR	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	974							protein C-terminus binding				0						GGCTTTATACGATCTTCTGAA	0.403													5	41	---	---	---	---	PASS	T	171509532	T	T	171509532	3	4	129	1	0	0	0	0	1	0	0	0	1321	1058	37	2	2979	2	BAT2L2	1	171509532	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	4535184	171509532	77741089	37	46393										
PAPPA2	60676	broad.mit.edu	37	chr1	176659322	176659322	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gggatgcctggccacaccgaCaccatgatccatgaagtggg	13	12	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:176659322C>A	uc001gkz.2	+	5	3351	c.2187C>A	c.(2185-2187)GAC>GAA	p.D729E	PAPPA2_uc001gky.1_Missense_Mutation_p.D729E|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	729	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GCCACACCGACACCATGATCC	0.483													33	218	---	---	---	---	PASS	A	176659322	A	A	176659322	3	1	129	1	0	0	0	0	1	0	0	0	11433	477	17	3	2201	3	PAPPA2	1	176659322	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	5149790	176659322	72591299	38	46394										
FAM5B	57795	broad.mit.edu	37	chr1	177250107	177250107	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cctttgggggcagccactctGagagctggttcatgcctgtg	14	11	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:177250107G>A	uc001glf.2	+	8	2107	c.1795G>A	c.(1795-1797)GAG>AAG	p.E599K	FAM5B_uc001glg.2_Missense_Mutation_p.E494K	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	599						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CAGCCACTCTGAGAGCTGGTT	0.557													6	58	---	---	---	---	PASS	A	177250107	A	A	177250107	3	1	129	1	0	0	0	0	1	0	0	0	5593	1291	45	2	1821	2	FAM5B	1	177250107	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	590785	177250107	72000514	39	46395										
CACNA1E	777	broad.mit.edu	37	chr1	181548209	181548209	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tctctgtccttccttctaggCctgcagattgtgttgaagtc	9	11	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:181548209C>G	uc001gow.2	+	5	783	c.618C>G	c.(616-618)AGC>AGG	p.S206R	CACNA1E_uc009wxr.2_Missense_Mutation_p.S113R|CACNA1E_uc009wxs.2_Missense_Mutation_p.S113R	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	206	Cytoplasmic (Potential).|I.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TCCTTCTAGGCCTGCAGATTG	0.478													10	142	---	---	---	---	PASS	G	181548209	G	G	181548209	3	3	129	1	0	0	0	0	1	0	0	0	2542	753	26	4	636	4	CACNA1E	1	181548209	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	4298102	181548209	67702412	40	46396										
TROVE2	6738	broad.mit.edu	37	chr1	193038376	193038376	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gctgaagctttaattagattGattgaagatggcagaggatg	13	3	0	6			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:193038376G>T	uc001gss.2	+	2	367	c.192G>T	c.(190-192)TTG>TTT	p.L64F	TROVE2_uc001gst.1_Intron|TROVE2_uc001gsu.1_Intron|TROVE2_uc001gsv.1_Missense_Mutation_p.L64F|TROVE2_uc001gsw.2_Missense_Mutation_p.L64F|TROVE2_uc009wyp.2_Missense_Mutation_p.L64F|TROVE2_uc009wyq.2_Missense_Mutation_p.L64F|TROVE2_uc001gsx.1_Missense_Mutation_p.L64F	NM_004600	NP_004591	P10155	RO60_HUMAN	TROVE domain family, member 2 isoform 2	64	TROVE.				transcription from RNA polymerase III promoter	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0						TAATTAGATTGATTGAAGATG	0.398													16	88	---	---	---	---	PASS	T	193038376	T	T	193038376	3	4	129	1	0	0	0	0	1	0	0	0	16573	1281	45	2	194	2	TROVE2	1	193038376	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	11490167	193038376	56212245	41	46397										
CFH	3075	broad.mit.edu	37	chr1	196712697	196712697	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgtaggagcccttatgaaatGtttggggatgaagaagtgat	14	3	0	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:196712697G>T	uc001gtj.3	+	20	3489	c.3249G>T	c.(3247-3249)ATG>ATT	p.M1083I		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	1083	Sushi 18.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						CTTATGAAATGTTTGGGGATG	0.388													28	321	---	---	---	---	PASS	T	196712697	T	T	196712697	3	4	129	1	0	0	0	0	1	0	0	0	3283	1377	48	3	3345	3	CFH	1	196712697	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3674321	196712697	52537924	42	46398										
CFHR4	10877	broad.mit.edu	37	chr1	196881977	196881977	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ataaatgtaaaccaggatatGcaacagcagatggaaattct	8	6	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:196881977G>T	uc001gto.2	+	3	433	c.364G>T	c.(364-366)GCA>TCA	p.A122S	CFHR4_uc009wyy.2_Missense_Mutation_p.A368S|CFHR4_uc001gtp.2_Missense_Mutation_p.A369S	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	122	Sushi 2.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						ACCAGGATATGCAACAGCAGA	0.284													29	185	---	---	---	---	PASS	T	196881977	T	T	196881977	3	4	129	1	0	0	0	0	1	0	0	0	3287	1319	46	3	374	3	CFHR4	1	196881977	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	169280	196881977	52368644	43	46399										
IKBKE	9641	broad.mit.edu	37	chr1	206651597	206651597	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	accagttctttgcggagaccAgtgacatcctgcagcgagtt	11	11	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:206651597A>T	uc001hdz.1	+	9	1275	c.907A>T	c.(907-909)AGT>TGT	p.S303C	IKBKE_uc009xbu.1_3'UTR|IKBKE_uc009xbv.1_Missense_Mutation_p.S303C|IKBKE_uc001hea.1_Missense_Mutation_p.S218C	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	303	Protein kinase.				DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding			ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)					TGCGGAGACCAGTGACATCCT	0.612													28	176	---	---	---	---	PASS	T	206651597	T	T	206651597	3	4	129	1	0	0	0	0	1	0	0	0	7612	188	7	5	933	5	IKBKE	1	206651597	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	9769620	206651597	42599024	44	46400										
SYT14	255928	broad.mit.edu	37	chr1	210329086	210329086	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggctgtgactcccaaatgagCgtgtcagaaatgtcgtgtag	13	8	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:210329086C>A	uc009xcv.2	+	7	1257	c.1185C>A	c.(1183-1185)AGC>AGA	p.S395R	SYT14_uc001hhs.3_Missense_Mutation_p.S440R|SYT14_uc001hht.3_Missense_Mutation_p.S395R|SYT14_uc001hhu.3_RNA|SYT14_uc010psn.1_Missense_Mutation_p.S440R|SYT14_uc010pso.1_Missense_Mutation_p.S357R	NM_153262	NP_694994	Q8NB59	SYT14_HUMAN	synaptotagmin XIV isoform 4	395	Cytoplasmic (Potential).					integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)		CCCAAATGAGCGTGTCAGAAA	0.353													21	93	---	---	---	---	PASS	A	210329086	A	A	210329086	3	1	129	1	0	0	0	0	1	0	0	0	15467	767	27	1	1350	1	SYT14	1	210329086	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	3677489	210329086	38921535	45	46401										
KCNH1	3756	broad.mit.edu	37	chr1	211093411	211093411	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gctgaacaggctgctgatgcCctgggagaagaggaacacag	15	9	0	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:211093411C>A	uc001hib.2	-	7	1203	c.1033G>T	c.(1033-1035)GGC>TGC	p.G345C	KCNH1_uc001hic.2_Missense_Mutation_p.G318C	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	345	Extracellular (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		CTGCTGATGCCCTGGGAGAAG	0.527													15	73	---	---	---	---	PASS	A	211093411	A	A	211093411	3	1	129	1	0	0	0	0	1	0	0	0	8031	637	22	3	1956	3	KCNH1	1	211093411	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	764325	211093411	38157210	46	46402										
USH2A	7399	broad.mit.edu	37	chr1	215987192	215987192	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aacaaacgggatatacttttCttcacaacagcgatgtccag	7	10	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:215987192C>T	uc001hku.1	-	49	10012	c.9625G>A	c.(9625-9627)GAA>AAA	p.E3209K		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3209	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATATACTTTTCTTCACAACAG	0.413										HNSCC(13;0.011)			5	145	---	---	---	---	PASS	T	215987192	T	T	215987192	3	4	129	1	0	0	0	0	1	0	0	0	17033	922	32	2	6079	2	USH2A	1	215987192	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	4893781	215987192	33263429	47	46403										
EPRS	2058	broad.mit.edu	37	chr1	220184343	220184343	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gagcttcaggtacattcactGggatcacttctttcttcagt	8	10	6	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:220184343G>A	uc001hly.1	-	13	1820	c.1550C>T	c.(1549-1551)CCA>CTA	p.P517L	EPRS_uc010puf.1_Missense_Mutation_p.P268L|EPRS_uc001hlz.1_Missense_Mutation_p.P524L|EPRS_uc009xdt.1_Missense_Mutation_p.P220L	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	517	Glutamyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	TACATTCACTGGGATCACTTC	0.403													27	253	---	---	---	---	PASS	A	220184343	A	A	220184343	3	1	129	1	0	0	0	0	1	0	0	0	5191	1348	47	3	3068	3	EPRS	1	220184343	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	4197151	220184343	29066278	48	46404										
HHIPL2	79802	broad.mit.edu	37	chr1	222712020	222712020	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agtctccaaagatatacaggCcattgagatttggggattca	10	7	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:222712020C>T	uc001hnh.1	-	5	1605	c.1547G>A	c.(1546-1548)GGC>GAC	p.G516D		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	516					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		GATATACAGGCCATTGAGATT	0.378													8	69	---	---	---	---	PASS	T	222712020	T	T	222712020	3	4	129	1	0	0	0	0	1	0	0	0	7094	739	26	3	647	3	HHIPL2	1	222712020	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2527677	222712020	26538601	49	46405										
CNIH3	149111	broad.mit.edu	37	chr1	224918248	224918248	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggctcacgctggggctgaatGtccctctacttttctatcac	9	13	4	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:224918248G>C	uc001hos.1	+	4	981	c.283G>C	c.(283-285)GTC>CTC	p.V95L		NM_152495	NP_689708	Q8TBE1	CNIH3_HUMAN	cornichon homolog 3	95	Cytoplasmic (Potential).				intracellular signal transduction|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic shaft|postsynaptic membrane					0	Breast(184;0.218)			GBM - Glioblastoma multiforme(131;0.073)		GGGGCTGAATGTCCCTCTACT	0.517													3	5	---	---	---	---	PASS	C	224918248	C	C	224918248	3	2	129	1	0	0	0	0	1	0	0	0	3604	1377	48	4	297	4	CNIH3	1	224918248	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	2206228	224918248	24332373	50	46406										
ACTA1	58	broad.mit.edu	37	chr1	229568794	229568794	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctaggggcgtcatccccggcGaagccggctttcaccaggcc	13	16	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:229568794G>A	uc001htm.2	-	2	174	c.69C>T	c.(67-69)TTC>TTT	p.F23F		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	23					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	CATCCCCGGCGAAGCCGGCTT	0.682													30	123	---	---	---	---	PASS	A	229568794	A	A	229568794	2	1	129	1	0	0	0	0	0	0	0	1	191	1049	37	2		2	ACTA1	1	229568794	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	4650546	229568794	19681827	51	46407										
RYR2	6262	broad.mit.edu	37	chr1	237656289	237656289	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgctcactctgtgtttgccaCggggttgcagtccgttctaa	11	11	3	0	rs17686573	by1000genomes	TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:237656289C>A	uc001hyl.1	+	19	1983	c.1863C>A	c.(1861-1863)CAC>CAA	p.H621Q		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	621	Cytoplasmic (By similarity).|B30.2/SPRY 1.				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)			GTGTTTGCCACGGGGTTGCAG	0.378													6	33	---	---	---	---	PASS	A	237656289	A	A	237656289	3	1	129	1	0	0	0	0	1	0	0	0	13769	535	19	1	1937	1	RYR2	1	237656289	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	8087495	237656289	11594332	52	46408										
RYR2	6262	broad.mit.edu	37	chr1	237870313	237870313	+	Missense_Mutation	SNP	G	T	T													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccgtctttggagaaactcatGgaagaaatcgtggaattagc							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:237870313G>T	uc001hyl.1	+	68	9765	c.9645G>T	c.(9643-9645)ATG>ATT	p.M3215I	RYR2_uc010pxz.1_Missense_Mutation_p.M170I	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3215					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)			AGAAACTCATGGAAGAAATCG	0.423													30	192	---	---	---	---	PASS	T	237870313	T	T	237870313	3	4	129	1	0	0	0	0	1	0	0	0	13769	1348	47	3	9915	3	RYR2	1	237870313	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	214024	237870313	11380308	53	46409	855	2								
RYR2	6262	broad.mit.edu	37	chr1	237870314	237870314	+	Nonsense_Mutation	SNP	G	T	T													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgtctttggagaaactcatgGaagaaatcgtggaattagcc							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:237870314G>T	uc001hyl.1	+	68	9766	c.9646G>T	c.(9646-9648)GAA>TAA	p.E3216*	RYR2_uc010pxz.1_Nonsense_Mutation_p.E171*	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3216					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)			GAAACTCATGGAAGAAATCGT	0.428													30	190	---	---	---	---	PASS	T	237870314	T	T	237870314	4	4	129	1	0	0	0	0	0	1	0	0	13769	1175	41	2	9916	2	RYR2	1	237870314	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1	237870314	11380307	54	46410	855	2								
RYR2	6262	broad.mit.edu	37	chr1	237947443	237947443	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aatcatgggaagcgccaaacGcatcgagagggtctattttg	12	8	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:237947443G>A	uc001hyl.1	+	90	12551	c.12431G>A	c.(12430-12432)CGC>CAC	p.R4144H	RYR2_uc010pya.1_Missense_Mutation_p.R559H	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4144					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)			AGCGCCAAACGCATCGAGAGG	0.498													4	127	---	---	---	---	PASS	A	237947443	A	A	237947443	3	1	129	1	0	0	0	0	1	0	0	0	13769	1087	38	1	12789	1	RYR2	1	237947443	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	77129	237947443	11303178	55	46411										
CHRM3	1131	broad.mit.edu	37	chr1	240071750	240071750	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atggaccaagaccacagcagCagtgacagttggaacaacaa	10	10	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:240071750C>G	uc001hyp.2	+	5	1778	c.999C>G	c.(997-999)AGC>AGG	p.S333R		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	333	Cytoplasmic (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	ACCACAGCAGCAGTGACAGTT	0.567													6	55	---	---	---	---	PASS	G	240071750	G	G	240071750	3	3	129	1	0	0	0	0	1	0	0	0	3378	709	25	4	1001	4	CHRM3	1	240071750	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2124307	240071750	9178871	56	46412										
KMO	8564	broad.mit.edu	37	chr1	241724047	241724047	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gaggaaggaatgatcacagtGcttgggtaactacgggtcag	15	6	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:241724047G>A	uc009xgp.2	+	6	509	c.444G>A	c.(442-444)GTG>GTA	p.V148V	KMO_uc001hyy.2_Silent_p.V148V|KMO_uc009xgo.1_Silent_p.V148V	NM_003679	NP_003670	O15229	KMO_HUMAN	kynurenine 3-monooxygenase	148					pyridine nucleotide biosynthetic process|response to salt stress	cytosol|integral to membrane|mitochondrial outer membrane	electron carrier activity|flavin adenine dinucleotide binding|kynurenine 3-monooxygenase activity|NAD(P)H oxidase activity			ovary(2)	2	Ovarian(103;0.103)|all_lung(81;0.23)		OV - Ovarian serous cystadenocarcinoma(106;0.0176)			TGATCACAGTGCTTGGGTAAC	0.428													5	64	---	---	---	---	PASS	A	241724047	A	A	241724047	2	1	129	1	0	0	0	0	0	0	0	1	8424	1306	46	3		3	KMO	1	241724047	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	1652297	241724047	7526574	57	46413										
AHCTF1	25909	broad.mit.edu	37	chr1	247025290	247025290	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccattttgggtggacatcttCttccacaaatgaaattctag	7	9	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:247025290C>G	uc001ibu.1	-	27	3713	c.3706G>C	c.(3706-3708)GAA>CAA	p.E1236Q	AHCTF1_uc001ibv.1_Missense_Mutation_p.E1245Q|AHCTF1_uc009xgs.1_Missense_Mutation_p.E97Q|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	1236	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			TGGACATCTTCTTCCACAAAT	0.383													5	71	---	---	---	---	PASS	G	247025290	G	G	247025290	3	3	129	1	0	0	0	0	1	0	0	0	408	922	32	2	3130	2	AHCTF1	1	247025290	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	5301243	247025290	2225331	58	46414										
OR14A16	284532	broad.mit.edu	37	chr1	247978248	247978248	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atccaaaatagaaggagactCtgaagctggcttcagataag	10	7	2	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:247978248C>G	uc001idm.1	-	1	784	c.784G>C	c.(784-786)GAG>CAG	p.E262Q		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GAAGGAGACTCTGAAGCTGGC	0.413													4	92	---	---	---	---	PASS	G	247978248	G	G	247978248	3	3	129	1	0	0	0	0	1	0	0	0	10945	922	32	2	149	2	OR14A16	1	247978248	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	952958	247978248	1272373	59	46415										
OR2W3	343171	broad.mit.edu	37	chr1	248058999	248058999	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atcctgatcgcgtacctcctGaccctcgtaggcaacaccac	7	17	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:248058999G>T	uc001idp.1	+	3	380	c.111G>T	c.(109-111)CTG>CTT	p.L37L	OR2W3_uc010pzb.1_Silent_p.L37L	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	37	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CGTACCTCCTGACCCTCGTAG	0.582													31	189	---	---	---	---	PASS	T	248058999	T	T	248058999	2	4	129	1	0	0	0	0	0	0	0	1	11033	1277	45	2		2	OR2W3	1	248058999	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	80751	248058999	1191622	60	46416										
OR2M7	391196	broad.mit.edu	37	chr1	248487405	248487405	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgctacagcatcaatgattcCatctgtagagcccaggatcc	8	13	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:248487405C>T	uc010pzk.1	-	1	466	c.466G>A	c.(466-468)GGA>AGA	p.G156R		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCAATGATTCCATCTGTAGAG	0.478													32	508	---	---	---	---	PASS	T	248487405	T	T	248487405	3	4	129	1	0	0	0	0	1	0	0	0	11014	603	21	3	475	3	OR2M7	1	248487405	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	428406	248487405	763216	61	46417										
OR2T1	26696	broad.mit.edu	37	chr1	248569970	248569970	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgcaattcccgggagattaaCcacttcttctgtgaggcacc	9	12	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr1:248569970C>A	uc010pzm.1	+	1	675	c.675C>A	c.(673-675)AAC>AAA	p.N225K		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	225	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGGAGATTAACCACTTCTTCT	0.512													25	126	---	---	---	---	PASS	A	248569970	A	A	248569970	3	1	129	1	0	0	0	0	1	0	0	0	11016	506	18	3	677	3	OR2T1	1	248569970	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	82565	248569970	680651	62	46418										
TPO	7173	broad.mit.edu	37	chr2	1520679	1520679	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgggaggctccctcgggtgaCttggatctccatgtcgctgg	15	12	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:1520679C>A	uc002qww.2	+	15	2634	c.2543C>A	c.(2542-2544)ACT>AAT	p.T848N	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.T791N|TPO_uc002qwr.2_Missense_Mutation_p.T848N|TPO_uc002qwx.2_Missense_Mutation_p.T791N|TPO_uc010yio.1_Missense_Mutation_p.T675N|TPO_uc010yip.1_Missense_Mutation_p.T804N|TPO_uc002qwy.1_Missense_Mutation_p.T144N|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	848	Helical; (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CCTCGGGTGACTTGGATCTCC	0.582													13	72	---	---	---	---	PASS	A	1520679	A	A	1520679	3	1	129	1	0	0	0	0	1	0	0	0	16407	565	20	3	2597	3	TPO	2	1520679	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08		1520679	241678694	63	46419										
MATN3	4148	broad.mit.edu	37	chr2	20201770	20201770	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	accttcatagcactcacaatGataagagccacttctgtcat	5	12	4	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:20201770G>C	uc002rdl.2	-	4	1051	c.988C>G	c.(988-990)CAT>GAT	p.H330D	MATN3_uc010exu.1_Missense_Mutation_p.H288D	NM_002381	NP_002372	O15232	MATN3_HUMAN	matrilin 3 precursor	330	EGF-like 2.				skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CACTCACAATGATAAGAGCCA	0.418													19	46	---	---	---	---	PASS	C	20201770	C	C	20201770	3	2	129	1	0	0	0	0	1	0	0	0	9335	1290	45	2	492	2	MATN3	2	20201770	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	18681091	20201770	222997603	64	46420										
APOB	338	broad.mit.edu	37	chr2	21228375	21228375	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atcaacttcagggaattttaCctcggggagtgttggtaggt	13	6	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:21228375C>T	uc002red.2	-	26	11493	c.11365G>A	c.(11365-11367)GTA>ATA	p.V3789I		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3789					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GGGAATTTTACCTCGGGGAGT	0.398													56	260	---	---	---	---	PASS	T	21228375	T	T	21228375	3	4	129	1	0	0	0	0	1	0	0	0	785	507	18	3	2342	3	APOB	2	21228375	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1026605	21228375	221970998	65	46421										
DPYSL5	56896	broad.mit.edu	37	chr2	27157544	27157544	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	acgcggctgcctatgtcacgGtgcctcccctgagactggac	12	15	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:27157544G>A	uc002rhu.3	+	8	1047	c.889G>A	c.(889-891)GTG>ATG	p.V297M	DPYSL5_uc002rhv.3_Missense_Mutation_p.V297M	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	297					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTATGTCACGGTGCCTCCCCT	0.577													62	352	---	---	---	---	PASS	A	27157544	A	A	27157544	3	1	129	1	0	0	0	0	1	0	0	0	4750	1261	44	3	915	3	DPYSL5	2	27157544	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	5929169	27157544	216041829	66	46422										
BIRC6	57448	broad.mit.edu	37	chr2	32823032	32823032	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gaggagcgacttgatatcatGaaggtaaaaaataatgataa	10	3	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:32823032G>C	uc010ezu.2	+	69	13961	c.13827G>C	c.(13825-13827)ATG>ATC	p.M4609I		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4609	Ubiquitin-conjugating.				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)					TTGATATCATGAAGGTAAAAA	0.393													3	34	---	---	---	---	PASS	C	32823032	C	C	32823032	3	2	129	1	0	0	0	0	1	0	0	0	1438	1290	45	2	14101	2	BIRC6	2	32823032	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	5665488	32823032	210376341	67	46423										
LTBP1	4052	broad.mit.edu	37	chr2	33246033	33246033	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tctccggccacaactctgtgTgtgtaaaccagggaccaagg	11	12	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:33246033T>C	uc002ros.2	+	3	623	c.623T>C	c.(622-624)GTG>GCG	p.V208A		NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	208	EGF-like 1.				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CAACTCTGTGTGTGTAAACCA	0.532													91	447	---	---	---	---	PASS	C	33246033	C	C	33246033	3	2	129	1	0	0	0	0	1	0	0	0	9073	1696	59	5	633	5	LTBP1	2	33246033	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	423001	33246033	209953340	68	46424										
SOS1	6654	broad.mit.edu	37	chr2	39250320	39250320	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gttcatcttcttgattgctaGttgtttccccttcatttgct	6	10	4	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:39250320G>C	uc002rrk.3	-	10	1290	c.1249C>G	c.(1249-1251)CTA>GTA	p.L417V	SOS1_uc010ynr.1_RNA|SOS1_uc002rrj.3_Missense_Mutation_p.L31V|SOS1_uc002rrl.2_Missense_Mutation_p.L149V	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	417					apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				TTGATTGCTAGTTGTTTCCCC	0.358									Noonan_syndrome				36	157	---	---	---	---	PASS	C	39250320	C	C	39250320	3	2	129	1	0	0	0	0	1	0	0	0	14936	1020	36	4	2808	4	SOS1	2	39250320	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	6004287	39250320	203949053	69	46425										
SLC8A1	6546	broad.mit.edu	37	chr2	40656111	40656111	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agtcaacaaacacagtgttaGtcaaatcaccacctctgcgg	7	12	4	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:40656111G>T	uc002rrx.2	-	1	1334	c.1310C>A	c.(1309-1311)ACT>AAT	p.T437N	SLC8A1_uc002rry.2_Missense_Mutation_p.T437N|SLC8A1_uc002rrz.2_Missense_Mutation_p.T437N|SLC8A1_uc002rsa.2_Missense_Mutation_p.T437N|SLC8A1_uc002rsd.3_Missense_Mutation_p.T437N|SLC8A1_uc002rsb.1_Missense_Mutation_p.T437N|SLC8A1_uc010fan.1_Missense_Mutation_p.T437N|SLC8A1_uc002rsc.1_Missense_Mutation_p.T437N	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	437	Calx-beta 1.|Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CACAGTGTTAGTCAAATCACC	0.443													25	132	---	---	---	---	PASS	T	40656111	T	T	40656111	3	4	129	1	0	0	0	0	1	0	0	0	14706	1029	36	3	1759	3	SLC8A1	2	40656111	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1405791	40656111	202543262	70	46426										
DYNC2LI1	51626	broad.mit.edu	37	chr2	44021646	44021646	+	Missense_Mutation	SNP	G	T	T													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttcaaaacctaatgatctctGgcccaccatggaaaatctct							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:44021646G>T	uc002rtk.2	+	6	467	c.371G>T	c.(370-372)TGG>TTG	p.W124L	DYNC2LI1_uc002rth.2_Missense_Mutation_p.W124L|DYNC2LI1_uc002rti.2_3'UTR|DYNC2LI1_uc002rtj.2_Missense_Mutation_p.W124L|DYNC2LI1_uc002rtl.2_Missense_Mutation_p.W124L|DYNC2LI1_uc010ynz.1_5'UTR	NM_016008	NP_057092	Q8TCX1	DC2L1_HUMAN	dynein 2 light intermediate chain isoform 1	124						apical part of cell|axonemal dynein complex|cilium axoneme|cytoplasm|microtubule|motile primary cilium	motor activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				AATGATCTCTGGCCCACCATG	0.348													7	102	---	---	---	---	PASS	T	44021646	T	T	44021646	3	4	129	1	0	0	0	0	1	0	0	0	4847	1357	47	3	393	3	DYNC2LI1	2	44021646	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3365535	44021646	199177727	71	46427	856	2								
DYNC2LI1	51626	broad.mit.edu	37	chr2	44021647	44021647	+	Missense_Mutation	SNP	G	C	C													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcaaaacctaatgatctctgGcccaccatggaaaatctctt							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:44021647G>C	uc002rtk.2	+	6	468	c.372G>C	c.(370-372)TGG>TGC	p.W124C	DYNC2LI1_uc002rth.2_Missense_Mutation_p.W124C|DYNC2LI1_uc002rti.2_3'UTR|DYNC2LI1_uc002rtj.2_Missense_Mutation_p.W124C|DYNC2LI1_uc002rtl.2_Missense_Mutation_p.W124C|DYNC2LI1_uc010ynz.1_5'UTR	NM_016008	NP_057092	Q8TCX1	DC2L1_HUMAN	dynein 2 light intermediate chain isoform 1	124						apical part of cell|axonemal dynein complex|cilium axoneme|cytoplasm|microtubule|motile primary cilium	motor activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				ATGATCTCTGGCCCACCATGG	0.353													7	100	---	---	---	---	PASS	C	44021647	C	C	44021647	3	2	129	1	0	0	0	0	1	0	0	0	4847	1212	42	4	394	4	DYNC2LI1	2	44021647	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1	44021647	199177726	72	46428	856	2								
SIX2	10736	broad.mit.edu	37	chr2	45235921	45235921	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcgggaatttgcggcgcacgCggtatttgcccacggcgccc	15	14	0	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:45235921C>A	uc002ruo.2	-	1	622	c.329G>T	c.(328-330)CGC>CTC	p.R110L	SIX2_uc002rup.2_Missense_Mutation_p.R110L	NM_016932	NP_058628	Q9NPC8	SIX2_HUMAN	SIX homeobox 2	110						nucleus	sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				GCGGCGCACGCGGTATTTGCC	0.657													17	105	---	---	---	---	PASS	A	45235921	A	A	45235921	3	1	129	1	0	0	0	0	1	0	0	0	14347	768	27	1	554	1	SIX2	2	45235921	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1214274	45235921	197963452	73	46429										
NRXN1	9378	broad.mit.edu	37	chr2	50724617	50724617	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aaggcaacatagctcgatttGgtcttgaaggtgacaggatc	12	7	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:50724617G>A	uc010fbq.2	-	14	4330	c.2853C>T	c.(2851-2853)ACC>ACT	p.T951T	NRXN1_uc002rxb.3_Silent_p.T583T|NRXN1_uc002rxe.3_Silent_p.T911T|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			AGCTCGATTTGGTCTTGAAGG	0.398													11	61	---	---	---	---	PASS	A	50724617	A	A	50724617	2	1	129	1	0	0	0	0	0	0	0	1	10665	1335	47	3		3	NRXN1	2	50724617	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	5488696	50724617	192474756	74	46430										
PSME4	23198	broad.mit.edu	37	chr2	54147397	54147397	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctcaggctgaagaaaggagtCcaaaagataaaaggcaaaag	11	6	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:54147397C>G	uc002rxp.2	-	19	2409	c.2353G>C	c.(2353-2355)GAC>CAC	p.D785H	PSME4_uc010yop.1_Missense_Mutation_p.D671H|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Missense_Mutation_p.D160H|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	785					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|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|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			AGAAAGGAGTCCAAAAGATAA	0.428													6	325	---	---	---	---	PASS	G	54147397	G	G	54147397	3	3	129	1	0	0	0	0	1	0	0	0	12709	855	30	2	3290	2	PSME4	2	54147397	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	3422780	54147397	189051976	75	46431										
CCDC88A	55704	broad.mit.edu	37	chr2	55562301	55562301	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcctgttccagtatcttaatCtaatttgaaaagaaaataat	4	6	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:55562301C>G	uc002ryv.2	-	15	2499	c.1657_splice	c.e15-1	p.I553_splice	CCDC88A_uc010yoz.1_Splice_Site_p.I553_splice|CCDC88A_uc010ypa.1_Splice_Site_p.I553_splice|CCDC88A_uc010ypb.1_Intron|CCDC88A_uc002ryu.2_Splice_Site|CCDC88A_uc002ryw.2_Splice_Site	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1						activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						GTATCTTAATCTAATTTGAAA	0.348													10	43	---	---	---	---	PASS	G	55562301	G	G	55562301	5	3	129	1	0	0	0	0	0	0	1	0	2863	927	32	2	4031	2	CCDC88A	2	55562301	Splice_Site	SNP	C	TCGA-60-2720-01A-01D-1522-08	1414904	55562301	187637072	76	46432										
USP34	9736	broad.mit.edu	37	chr2	61575411	61575411	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aggattatgaccatgatcatCgtcttcatcttcctctttga	6	10	5	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:61575411C>T	uc002sbe.2	-	15	1901	c.1879G>A	c.(1879-1881)GAT>AAT	p.D627N		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	627					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			CCATGATCATCGTCTTCATCT	0.488													15	91	---	---	---	---	PASS	T	61575411	T	T	61575411	3	4	129	1	0	0	0	0	1	0	0	0	17062	884	31	2	9025	2	USP34	2	61575411	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	6013110	61575411	181623962	77	46433										
ARHGAP25	9938	broad.mit.edu	37	chr2	69049822	69049822	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gggtcccctggggaggaagcCagtgcactctcttcccaagc	13	14	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:69049822C>T	uc002seu.2	+	10	1912	c.1548C>T	c.(1546-1548)GCC>GCT	p.A516A	ARHGAP25_uc010fdg.2_Silent_p.A517A|ARHGAP25_uc010yql.1_Silent_p.A477A|ARHGAP25_uc002sew.2_Silent_p.A509A|ARHGAP25_uc002sex.2_Silent_p.A510A|ARHGAP25_uc002sey.2_Silent_p.A243A	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	516					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						GGGAGGAAGCCAGTGCACTCT	0.537													17	146	---	---	---	---	PASS	T	69049822	T	T	69049822	2	4	129	1	0	0	0	0	0	0	0	1	874	581	21	3		3	ARHGAP25	2	69049822	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	7474411	69049822	174149551	78	46434										
STAMBP	10617	broad.mit.edu	37	chr2	74074661	74074661	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgatccggaaccaggagctaGaaaaagagcgactgaaaatt	11	7	0	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:74074661G>C	uc002sjs.2	+	5	573	c.523G>C	c.(523-525)GAA>CAA	p.E175Q	STAMBP_uc002sjt.2_Missense_Mutation_p.E175Q|STAMBP_uc002sju.2_Missense_Mutation_p.E175Q|STAMBP_uc002sjv.2_Missense_Mutation_p.E175Q	NM_201647	NP_964010	O95630	STABP_HUMAN	STAM binding protein	175	Glu-rich.				JAK-STAT cascade|positive regulation of cell proliferation	early endosome|membrane|nucleus	metal ion binding|metallopeptidase activity|protein binding			ovary(1)|lung(1)|breast(1)|pancreas(1)	4						CCAGGAGCTAGAAAAAGAGCG	0.507													9	66	---	---	---	---	PASS	C	74074661	C	C	74074661	3	2	129	1	0	0	0	0	1	0	0	0	15249	943	33	2	537	2	STAMBP	2	74074661	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	5024839	74074661	169124712	79	46435										
SLC4A5	57835	broad.mit.edu	37	chr2	74480125	74480125	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgtcagcagagggcaccttcTtggggggctcaatccggata	14	10	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:74480125T>C	uc002sko.1	-	10	1246	c.1244A>G	c.(1243-1245)AAG>AGG	p.K415R	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Missense_Mutation_p.K415R|SLC4A5_uc010ffc.1_Missense_Mutation_p.K415R|SLC4A5_uc002skp.1_Missense_Mutation_p.K351R|SLC4A5_uc002sks.1_Missense_Mutation_p.K415R	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	415	Cytoplasmic (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						GGGCACCTTCTTGGGGGGCTC	0.468													27	119	---	---	---	---	PASS	C	74480125	C	C	74480125	3	2	129	1	0	0	0	0	1	0	0	0	14657	1609	56	5	2237	5	SLC4A5	2	74480125	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	405464	74480125	168719248	80	46436										
LRRTM1	347730	broad.mit.edu	37	chr2	80530489	80530489	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccgtggaagaggtcgggcgcGagcgcctgcagcttgttgta	17	10	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:80530489G>T	uc002sok.1	-	2	726	c.456C>A	c.(454-456)CTC>CTA	p.L152L	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	152	LRR 3.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GGTCGGGCGCGAGCGCCTGCA	0.642										HNSCC(69;0.2)			21	82	---	---	---	---	PASS	T	80530489	T	T	80530489	2	4	129	1	0	0	0	0	0	0	0	1	9039	1045	37	2		2	LRRTM1	2	80530489	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	6050364	80530489	162668884	81	46437										
INPP4A	3631	broad.mit.edu	37	chr2	99149956	99149956	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atgcacagacggagatcattGaggtgggtgctggtggtctc	16	7	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:99149956G>C	uc002syy.2	+	5	661	c.268G>C	c.(268-270)GAG>CAG	p.E90Q	INPP4A_uc010yvj.1_Missense_Mutation_p.E90Q|INPP4A_uc010yvk.1_Missense_Mutation_p.E90Q|INPP4A_uc002syx.2_Missense_Mutation_p.E90Q|INPP4A_uc010fik.2_Intron	NM_001134224	NP_001127696	Q96PE3	INP4A_HUMAN	inositol polyphosphate-4-phosphatase, type 1	90	C2.				signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			kidney(1)	1						GGAGATCATTGAGGTGGGTGC	0.517													17	71	---	---	---	---	PASS	C	99149956	C	C	99149956	3	2	129	1	0	0	0	0	1	0	0	0	7752	1291	45	2	278	2	INPP4A	2	99149956	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	18619467	99149956	144049417	82	46438										
ANKRD57	65124	broad.mit.edu	37	chr2	110373630	110373630	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcacattgagaccaaagtccAatgtatttgggtaaaaattg	8	6	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:110373630A>G	uc002tfb.2	+	1	1720	c.1564A>G	c.(1564-1566)AAT>GAT	p.N522D	SEPT10_uc010ywu.1_5'Flank|SEPT10_uc002tew.2_5'Flank|SEPT10_uc002tex.2_5'Flank|SEPT10_uc002tey.2_5'Flank|SEPT10_uc010ywv.1_5'Flank	NM_023016	NP_075392	Q53LP3	ANR57_HUMAN	ankyrin repeat domain 57	522											0						ACCAAAGTCCAATGTATTTGG	0.473													11	33	---	---	---	---	PASS	G	110373630	G	G	110373630	3	3	129	1	0	0	0	0	1	0	0	0	683	130	5	5	1566	5	ANKRD57	2	110373630	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	11223674	110373630	132825743	83	46439										
CNTNAP5	129684	broad.mit.edu	37	chr2	125555884	125555884	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caggacttcgtggttgttctGctctgcaagaatggtgagtg	14	7	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:125555884G>T	uc002tno.2	+	19	3565	c.3201G>T	c.(3199-3201)CTG>CTT	p.L1067L	CNTNAP5_uc010flu.2_Silent_p.L1068L	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	1067	Extracellular (Potential).|Laminin G-like 4.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TGGTTGTTCTGCTCTGCAAGA	0.498													7	76	---	---	---	---	PASS	T	125555884	T	T	125555884	2	4	129	1	0	0	0	0	0	0	0	1	3650	1306	46	3		3	CNTNAP5	2	125555884	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	15182254	125555884	117643489	84	46440										
PLEKHB2	55041	broad.mit.edu	37	chr2	131897811	131897811	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gttgtctacgctgcgaatggGcaggcgtatgccgtgcccta	14	11	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:131897811G>T	uc002tsg.3	+	7	1055	c.495G>T	c.(493-495)GGG>GGT	p.G165G	PLEKHB2_uc002tsh.2_Intron|PLEKHB2_uc002tsj.3_Silent_p.G164G|PLEKHB2_uc002tsf.3_Silent_p.G173G|PLEKHB2_uc010zao.1_Silent_p.G115G|PLEKHB2_uc010zap.1_Intron|PLEKHB2_uc010zaq.1_Missense_Mutation_p.G121V|PLEKHB2_uc002tsi.3_Silent_p.G206G	NM_001100623	NP_001094093	Q96CS7	PKHB2_HUMAN	pleckstrin homology domain containing, family B	165						membrane	protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.0828)		CTGCGAATGGGCAGGCGTATG	0.527													4	41	---	---	---	---	PASS	T	131897811	T	T	131897811	2	4	129	1	0	0	0	0	0	0	0	1	12065	1190	42	3		3	PLEKHB2	2	131897811	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	6341927	131897811	111301562	85	46441										
LRP1B	53353	broad.mit.edu	37	chr2	141083359	141083359	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctgctgacagagactactgaAttagagccatcatacagaac	8	10	1	5			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:141083359A>G	uc002tvj.1	-	80	13284	c.12312T>C	c.(12310-12312)AAT>AAC	p.N4104N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4104	Extracellular (Potential).|LDL-receptor class B 36.				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)		AGACTACTGAATTAGAGCCAT	0.363										TSP Lung(27;0.18)			6	75	---	---	---	---	PASS	G	141083359	G	G	141083359	2	3	129	1	0	0	0	0	0	0	0	1	8955	98	4	5		5	LRP1B	2	141083359	Silent	SNP	A	TCGA-60-2720-01A-01D-1522-08	9185548	141083359	102116014	86	46442										
LRP1B	53353	broad.mit.edu	37	chr2	141201953	141201953	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atcttgcccattacatcttaAgtttactgggatacatttct	5	9	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:141201953A>G	uc002tvj.1	-	65	11212	c.10240T>C	c.(10240-10242)TTA>CTA	p.L3414L		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3414	Extracellular (Potential).|LDL-receptor class A 23.				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)		TTACATCTTAAGTTTACTGGG	0.398										TSP Lung(27;0.18)			32	207	---	---	---	---	PASS	G	141201953	G	G	141201953	2	3	129	1	0	0	0	0	0	0	0	1	8955	69	3	5		5	LRP1B	2	141201953	Silent	SNP	A	TCGA-60-2720-01A-01D-1522-08	118594	141201953	101997420	87	46443										
KCNH7	90134	broad.mit.edu	37	chr2	163292047	163292047	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgaatatcgatccagtttccTggccacgcgcacaagacgga	10	12	0	2	rs79852917		TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:163292047T>A	uc002uch.1	-	8	1827	c.1615A>T	c.(1615-1617)AGG>TGG	p.R539W	KCNH7_uc002uci.2_Missense_Mutation_p.R532W	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	539	Helical; Voltage-sensor; Name=Segment S4; (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	TCCAGTTTCCTGGCCACGCGC	0.463													20	83	---	---	---	---	PASS	A	163292047	A	A	163292047	3	1	129	1	0	0	0	0	1	0	0	0	8037	1579	55	5	2077	5	KCNH7	2	163292047	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	22090094	163292047	79907326	88	46444										
SCN2A	6326	broad.mit.edu	37	chr2	166183444	166183444	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tttattggaagatcctacatCaaggcaaagagcaatgagta	9	6	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:166183444C>G	uc002udc.2	+	13	2389	c.2099C>G	c.(2098-2100)TCA>TGA	p.S700*	SCN2A_uc002udd.2_Nonsense_Mutation_p.S700*|SCN2A_uc002ude.2_Nonsense_Mutation_p.S700*	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	700					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	GATCCTACATCAAGGCAAAGA	0.393													29	180	---	---	---	---	PASS	G	166183444	G	G	166183444	4	3	129	1	0	0	0	0	0	1	0	0	13916	838	29	2	2241	2	SCN2A	2	166183444	Nonsense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2891397	166183444	77015929	89	46445										
SCN1A	6323	broad.mit.edu	37	chr2	166903458	166903458	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgaccaatacaaaaaatatcAtgtacgttttcccagcagca	5	10	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:166903458A>T	uc010zcz.1	-	9	1217	c.1199T>A	c.(1198-1200)ATG>AAG	p.M400K	SCN1A_uc002udo.3_Missense_Mutation_p.M269K|SCN1A_uc010fpk.2_Missense_Mutation_p.M269K	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	400	Helical; Name=S6 of repeat I; (By similarity).|I.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AAAAAATATCATGTACGTTTT	0.383													12	161	---	---	---	---	PASS	T	166903458	T	T	166903458	3	4	129	1	0	0	0	0	1	0	0	0	13914	217	8	5	4902	5	SCN1A	2	166903458	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	720014	166903458	76295915	90	46446										
XIRP2	129446	broad.mit.edu	37	chr2	168099807	168099807	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttggggcttattcttctgaCactgtagaaaatgcagagaa	10	7	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:168099807C>G	uc002udx.2	+	8	1923	c.1905C>G	c.(1903-1905)GAC>GAG	p.D635E	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.D460E|XIRP2_uc010fpq.2_Missense_Mutation_p.D413E|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	460					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ATTCTTCTGACACTGTAGAAA	0.433													20	98	---	---	---	---	PASS	G	168099807	G	G	168099807	3	3	129	1	0	0	0	0	1	0	0	0	17427	477	17	4	1935	4	XIRP2	2	168099807	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1196349	168099807	75099566	91	46447										
KBTBD10	10324	broad.mit.edu	37	chr2	170366466	170366466	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttgtagtccttacttccgtGagtactttttatctgaaatt	6	8	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:170366466G>C	uc002ueu.1	+	1	255	c.178G>C	c.(178-180)GAG>CAG	p.E60Q	KBTBD10_uc010zdh.1_Intron	NM_006063	NP_006054	O60662	KBTBA_HUMAN	kelch repeat and BTB (POZ) domain containing 10	60	BTB.				striated muscle contraction	centrosome|nucleolus|plasma membrane|pseudopodium|ruffle					0						TTACTTCCGTGAGTACTTTTT	0.388													58	269	---	---	---	---	PASS	C	170366466	C	C	170366466	3	2	129	1	0	0	0	0	1	0	0	0	7990	1291	45	2	180	2	KBTBD10	2	170366466	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	2266659	170366466	72832907	92	46448										
PDE11A	50940	broad.mit.edu	37	chr2	178545563	178545563	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctttttcttaccgaaatataTcacgatggtttttgatgttc	6	7	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:178545563T>C	uc002ulq.2	-	16	2732	c.2414A>G	c.(2413-2415)GAT>GGT	p.D805G	PDE11A_uc002ulp.2_Missense_Mutation_p.D361G|PDE11A_uc002ulr.2_Missense_Mutation_p.D555G|PDE11A_uc002uls.1_Missense_Mutation_p.D447G|PDE11A_uc002ult.1_Missense_Mutation_p.D555G|PDE11A_uc002ulu.1_Missense_Mutation_p.D447G	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	805	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			CCGAAATATATCACGATGGTT	0.328									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				11	61	---	---	---	---	PASS	C	178545563	C	C	178545563	3	2	129	1	0	0	0	0	1	0	0	0	11631	1435	50	5	407	5	PDE11A	2	178545563	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	8179097	178545563	64653810	93	46449										
TTN	7273	broad.mit.edu	37	chr2	179413051	179413051	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttggttctggcatttcatagGgctcaccaacaccatactca	7	12	4	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:179413051G>T	uc010zfg.1	-	288	85822	c.85598C>A	c.(85597-85599)CCC>CAC	p.P28533H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P22228H|TTN_uc010zfi.1_Missense_Mutation_p.P22161H|TTN_uc010zfj.1_Missense_Mutation_p.P22036H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29460							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)			CATTTCATAGGGCTCACCAAC	0.468													46	212	---	---	---	---	PASS	T	179413051	T	T	179413051	3	4	129	1	0	0	0	0	1	0	0	0	16732	1232	43	3	14773	3	TTN	2	179413051	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	867488	179413051	63786322	94	46450										
TTN	7273	broad.mit.edu	37	chr2	179417146	179417146	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tttcagccaactgatggatgGtttgggttttcccttataag	10	7	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:179417146G>T	uc010zfg.1	-	284	83001	c.82777C>A	c.(82777-82779)CCA>ACA	p.P27593T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P21288T|TTN_uc010zfi.1_Missense_Mutation_p.P21221T|TTN_uc010zfj.1_Missense_Mutation_p.P21096T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28520							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)			CTGATGGATGGTTTGGGTTTT	0.408													10	55	---	---	---	---	PASS	T	179417146	T	T	179417146	3	4	129	1	0	0	0	0	1	0	0	0	16732	1261	44	3	17610	3	TTN	2	179417146	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	4095	179417146	63782227	95	46451										
TTN	7273	broad.mit.edu	37	chr2	179452497	179452497	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcactatgaccagtttcctcAtgctggcatccaaatcaatc	5	13	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:179452497A>G	uc010zfg.1	-	255	56059	c.55835T>C	c.(55834-55836)ATG>ACG	p.M18612T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.M12307T|TTN_uc010zfi.1_Missense_Mutation_p.M12240T|TTN_uc010zfj.1_Missense_Mutation_p.M12115T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19539							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)			CAGTTTCCTCATGCTGGCATC	0.423													7	69	---	---	---	---	PASS	G	179452497	G	G	179452497	3	3	129	1	0	0	0	0	1	0	0	0	16732	217	8	5	44668	5	TTN	2	179452497	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	35351	179452497	63746876	96	46452										
TTN	7273	broad.mit.edu	37	chr2	179479391	179479391	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tattttaggttcaggttttcCggttacggtggcaggaagtt	13	5	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:179479391C>T	uc010zfg.1	-	210	41370	c.41146G>A	c.(41146-41148)GGA>AGA	p.G13716R	uc002ump.1_RNA|TTN_uc010zfh.1_Missense_Mutation_p.G7411R|TTN_uc010zfi.1_Missense_Mutation_p.G7344R|TTN_uc010zfj.1_Missense_Mutation_p.G7219R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14643							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)			TCAGGTTTTCCGGTTACGGTG	0.438													15	71	---	---	---	---	PASS	T	179479391	T	T	179479391	3	4	129	1	0	0	0	0	1	0	0	0	16732	661	23	1	59251	1	TTN	2	179479391	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	26894	179479391	63719982	97	46453										
TTN	7273	broad.mit.edu	37	chr2	179482119	179482119	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tatcttttccttcttcgcatCgctcaattatatagcctaat	3	11	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:179482119C>T	uc010zfg.1	-	203	40213	c.39989G>A	c.(39988-39990)CGA>CAA	p.R13330Q	TTN_uc010zfh.1_Missense_Mutation_p.R7025Q|TTN_uc010zfi.1_Missense_Mutation_p.R6958Q|TTN_uc010zfj.1_Missense_Mutation_p.R6833Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14257							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)			TTCTTCGCATCGCTCAATTAT	0.383													7	28	---	---	---	---	PASS	T	179482119	T	T	179482119	3	4	129	1	0	0	0	0	1	0	0	0	16732	884	31	2	60436	2	TTN	2	179482119	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2728	179482119	63717254	98	46454										
TTN	7273	broad.mit.edu	37	chr2	179596050	179596050	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	accttttactgagagtaatgCagaacatctttgtattcctg	7	8	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:179596050C>T	uc010zfg.1	-	56	13935	c.13711G>A	c.(13711-13713)GCA>ACA	p.A4571T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A1232T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5498							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)			GAGAGTAATGCAGAACATCTT	0.433													78	565	---	---	---	---	PASS	T	179596050	T	T	179596050	3	4	129	1	0	0	0	0	1	0	0	0	16732	710	25	3	87302	3	TTN	2	179596050	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	113931	179596050	63603323	99	46455										
ZNF804A	91752	broad.mit.edu	37	chr2	185801203	185801203	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gagttgttaggaaataaatcCacagttcttgacatgtctaa	8	6	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:185801203C>A	uc002uph.2	+	4	1674	c.1080C>A	c.(1078-1080)TCC>TCA	p.S360S		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	360						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						GAAATAAATCCACAGTTCTTG	0.363													12	111	---	---	---	---	PASS	A	185801203	A	A	185801203	2	1	129	1	0	0	0	0	0	0	0	1	18167	581	21	3		3	ZNF804A	2	185801203	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	6205153	185801203	57398170	100	46456										
GULP1	51454	broad.mit.edu	37	chr2	189387534	189387534	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aaggaacagaagttgtgagaGatgctgtaaggaaactaaag	13	3	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:189387534G>T	uc010fru.2	+	5	603	c.142G>T	c.(142-144)GAT>TAT	p.D48Y	GULP1_uc002uqc.3_Missense_Mutation_p.D48Y|GULP1_uc002uqd.2_Missense_Mutation_p.D48Y|GULP1_uc010zfw.1_Intron|GULP1_uc002uqe.2_Missense_Mutation_p.D48Y|GULP1_uc002uqf.2_Missense_Mutation_p.D48Y|GULP1_uc002uqg.2_Missense_Mutation_p.D48Y	NM_016315	NP_057399	Q9UBP9	GULP1_HUMAN	GULP, engulfment adaptor PTB domain containing	48	PID.				apoptosis|lipid transport|phagocytosis, engulfment	cytoplasm|intracellular membrane-bounded organelle	signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0423)|Epithelial(96;0.158)			AGTTGTGAGAGATGCTGTAAG	0.383													15	103	---	---	---	---	PASS	T	189387534	T	T	189387534	3	4	129	1	0	0	0	0	1	0	0	0	6901	942	33	2	152	2	GULP1	2	189387534	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3586331	189387534	53811839	101	46457										
BOLL	66037	broad.mit.edu	37	chr2	198631324	198631324	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aggggagctacatacagaacGtgactataaaaggatggaaa	12	5	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:198631324G>T	uc002uus.2	-	7	794	c.484C>A	c.(484-486)CGT>AGT	p.R162S	uc002uup.2_Intron|BOLL_uc002uur.2_Missense_Mutation_p.R168S|BOLL_uc002uut.2_Missense_Mutation_p.R174S|BOLL_uc010zha.1_Missense_Mutation_p.R53S|BOLL_uc002uuu.1_Missense_Mutation_p.R168S	NM_033030	NP_149019	Q8N9W6	BOLL_HUMAN	boule isoform 2	162					cell differentiation|meiosis|multicellular organismal development|positive regulation of translational initiation|spermatogenesis	cytoplasm	nucleotide binding|protein binding|RNA binding|translation activator activity			ovary(2)	2						CATACAGAACGTGACTATAAA	0.343													6	43	---	---	---	---	PASS	T	198631324	T	T	198631324	3	4	129	1	0	0	0	0	1	0	0	0	1487	1145	40	1	387	1	BOLL	2	198631324	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	9243790	198631324	44568049	102	46458										
AOX1	316	broad.mit.edu	37	chr2	201501731	201501731	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agggaaggtgttaaaaaccgGaatcattgcagccgtcactg	12	8	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:201501731G>C	uc002uvx.2	+	22	2545	c.2444G>C	c.(2443-2445)GGA>GCA	p.G815A	AOX1_uc010zhf.1_Missense_Mutation_p.G371A|AOX1_uc010fsu.2_Missense_Mutation_p.G181A	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	815					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	TTAAAAACCGGAATCATTGCA	0.458													17	66	---	---	---	---	PASS	C	201501731	C	C	201501731	3	2	129	1	0	0	0	0	1	0	0	0	729	1174	41	2	2530	2	AOX1	2	201501731	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	2870407	201501731	41697642	103	46459										
ALS2CR11	151254	broad.mit.edu	37	chr2	202400915	202400915	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcctggttagaaatagtgcaCaatgagtgcacttctgtggg	12	7	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:202400915C>G	uc002uye.2	-	13	1383	c.1335G>C	c.(1333-1335)TTG>TTC	p.L445F	ALS2CR11_uc002uyf.2_Missense_Mutation_p.L445F|ALS2CR11_uc010fti.2_Intron	NM_152525	NP_689738	Q53TS8	AL2SA_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	445										large_intestine(1)|ovary(1)|skin(1)	3						AAATAGTGCACAATGAGTGCA	0.383													52	260	---	---	---	---	PASS	G	202400915	G	G	202400915	3	3	129	1	0	0	0	0	1	0	0	0	552	477	17	4	4290	4	ALS2CR11	2	202400915	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	899184	202400915	40798458	104	46460										
C2orf67	151050	broad.mit.edu	37	chr2	210888922	210888922	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccttcaacatttttactgtaAgctctagcaagaaaatcagg	6	9	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:210888922A>C	uc002vds.2	-	14	2776	c.2568T>G	c.(2566-2568)GCT>GCG	p.A856A	C2orf67_uc002vdt.2_Silent_p.A814A	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	856										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		TTTTACTGTAAGCTCTAGCAA	0.373													16	85	---	---	---	---	PASS	C	210888922	C	C	210888922	2	2	129	1	0	0	0	0	0	0	0	1	2186	59	3	5		5	C2orf67	2	210888922	Silent	SNP	A	TCGA-60-2720-01A-01D-1522-08	8488007	210888922	32310451	105	46461										
CPS1	1373	broad.mit.edu	37	chr2	211473090	211473090	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtcttctttttatagctaccCattggcattcattgctgcaa	6	10	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:211473090C>T	uc002vee.3	+	19	2330	c.2198C>T	c.(2197-2199)CCA>CTA	p.P733L	CPS1_uc010fur.2_Missense_Mutation_p.P739L|CPS1_uc010fus.2_Missense_Mutation_p.P282L	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	733	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)		TATAGCTACCCATTGGCATTC	0.358													18	172	---	---	---	---	PASS	T	211473090	T	T	211473090	3	4	129	1	0	0	0	0	1	0	0	0	3823	594	21	3	2294	3	CPS1	2	211473090	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	584168	211473090	31726283	106	46462										
VIL1	7429	broad.mit.edu	37	chr2	219297587	219297587	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atcctggaccagaagtacaaTggtgaaccagtccagatccg	10	11	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:219297587T>C	uc002via.2	+	13	1478	c.1413T>C	c.(1411-1413)AAT>AAC	p.N471N	VIL1_uc010zke.1_Silent_p.N160N|VIL1_uc002vib.2_Silent_p.N471N	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1	471	Core.				actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGAAGTACAATGGTGAACCAG	0.557													17	52	---	---	---	---	PASS	C	219297587	C	C	219297587	2	2	129	1	0	0	0	0	0	0	0	1	17161	1461	51	5		5	VIL1	2	219297587	Silent	SNP	T	TCGA-60-2720-01A-01D-1522-08	7824497	219297587	23901786	107	46463										
CCL20	6364	broad.mit.edu	37	chr2	228681066	228681066	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctgtgtgcgcaaatccaaaaCagacttgggtgaaatatatt	9	7	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:228681066C>A	uc002vpl.2	+	3	305	c.235C>A	c.(235-237)CAG>AAG	p.Q79K	CCL20_uc002vpm.2_Missense_Mutation_p.Q78K	NM_004591	NP_004582	P78556	CCL20_HUMAN	chemokine (C-C motif) ligand 20 isoform 1	79					cell-cell signaling|chemotaxis|defense response to bacterium|immune response|inflammatory response|signal transduction	extracellular space	chemokine activity				0		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;7.3e-11)|all cancers(144;4.13e-08)|Lung(261;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0115)		AAATCCAAAACAGACTTGGGT	0.383													17	104	---	---	---	---	PASS	A	228681066	A	A	228681066	3	1	129	1	0	0	0	0	1	0	0	0	2892	479	17	3	245	3	CCL20	2	228681066	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	9383479	228681066	14518307	108	46464										
DNER	92737	broad.mit.edu	37	chr2	230453205	230453205	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caggcaatatctgggatcacCtgggaagggaaaaaaaaaac	11	7	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:230453205C>A	uc002vpv.2	-	3	733	c.586_splice	c.e3-1	p.V196_splice	DNER_uc010zly.1_5'Flank	NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing						central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		CTGGGATCACCTGGGAAGGGA	0.433													9	41	---	---	---	---	PASS	A	230453205	A	A	230453205	5	1	129	1	0	0	0	0	0	0	1	0	4667	695	24	3	1672	3	DNER	2	230453205	Splice_Site	SNP	C	TCGA-60-2720-01A-01D-1522-08	1772139	230453205	12746168	109	46465										
SH3BP4	23677	broad.mit.edu	37	chr2	235950606	235950606	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	catcttggagatgaaagtgtCagccgagataaaaaatgacc	10	7	2	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:235950606C>G	uc002vvp.2	+	4	1586	c.1193C>G	c.(1192-1194)TCA>TGA	p.S398*	SH3BP4_uc010fym.2_Nonsense_Mutation_p.S398*|SH3BP4_uc002vvq.2_Nonsense_Mutation_p.S398*	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	398					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		ATGAAAGTGTCAGCCGAGATA	0.527													6	71	---	---	---	---	PASS	G	235950606	G	G	235950606	4	3	129	1	0	0	0	0	0	1	0	0	14246	838	29	2	1199	2	SH3BP4	2	235950606	Nonsense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	5497401	235950606	7248767	110	46466										
RNPEPL1	57140	broad.mit.edu	37	chr2	241515974	241515974	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctggaattcgagcgctggctCaatgccacaggcccgccgct	12	15	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr2:241515974C>G	uc002vzi.2	+	9	1433	c.840C>G	c.(838-840)CTC>CTG	p.L280L	RNPEPL1_uc010fzf.2_Silent_p.L186L|RNPEPL1_uc002vzj.2_Intron	NM_018226	NP_060696	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like	280					leukotriene biosynthetic process|proteolysis		aminopeptidase activity|metallopeptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)		AGCGCTGGCTCAATGCCACAG	0.667													6	25	---	---	---	---	PASS	G	241515974	G	G	241515974	2	3	129	1	0	0	0	0	0	0	0	1	13510	813	29	2		2	RNPEPL1	2	241515974	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	5565368	241515974	1683399	111	46467										
TGM4	7047	broad.mit.edu	37	chr3	44943025	44943025	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtgtgtggcagatgagctttGagaaaggccagggcgtgctc	17	7	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:44943025G>C	uc003coc.3	+	7	740	c.667G>C	c.(667-669)GAG>CAG	p.E223Q	TGM4_uc003cob.2_RNA	NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)	223					peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	GATGAGCTTTGAGAAAGGCCA	0.607													4	11	---	---	---	---	PASS	C	44943025	C	C	44943025	3	2	129	1	0	0	0	0	1	0	0	0	15829	1291	45	2	693	2	TGM4	3	44943025	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08		44943025	153079405	112	46468										
CACNA2D2	9254	broad.mit.edu	37	chr3	50404011	50404011	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggttcagggcacacacacctCattgttaacctcgcagtcca	8	14	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:50404011C>G	uc003daq.2	-	31	2694	c.2656G>C	c.(2656-2658)GAG>CAG	p.E886Q	CACNA2D2_uc003dap.2_Missense_Mutation_p.E879Q|CACNA2D2_uc003dao.2_5'Flank	NM_006030	NP_006021	Q9NY47	CA2D2_HUMAN	calcium channel, voltage-dependent, alpha	886	Extracellular (Potential).				energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000365)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)	Gabapentin(DB00996)	ACACACACCTCATTGTTAACC	0.597													10	47	---	---	---	---	PASS	G	50404011	G	G	50404011	3	3	129	1	0	0	0	0	1	0	0	0	2549	835	29	2	838	2	CACNA2D2	3	50404011	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	5460986	50404011	147618419	113	46469										
DNAH1	25981	broad.mit.edu	37	chr3	52398929	52398929	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctcaagctcttctctggcatCgtgtccgacctgtttcccac	7	16	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:52398929C>T	uc011bef.1	+	34	5673	c.5412C>T	c.(5410-5412)ATC>ATT	p.I1804I		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1804					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TCTCTGGCATCGTGTCCGACC	0.607													26	87	---	---	---	---	PASS	T	52398929	T	T	52398929	2	4	129	1	0	0	0	0	0	0	0	1	4597	874	31	2		2	DNAH1	3	52398929	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	1994918	52398929	145623501	114	46470										
ITIH4	3700	broad.mit.edu	37	chr3	52851038	52851038	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttcgatccatgagaacccaGccttctccctctcatactgg	6	16	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:52851038G>A	uc003dfz.2	-	21	2369	c.2333C>T	c.(2332-2334)GCT>GTT	p.A778V	ITIH4_uc011bel.1_Missense_Mutation_p.A492V|ITIH4_uc003dfy.2_Missense_Mutation_p.A573V|ITIH4_uc011bem.1_Missense_Mutation_p.A783V|ITIH4_uc011ben.1_Missense_Mutation_p.A748V	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	778					acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		TGAGAACCCAGCCTTCTCCCT	0.592													32	131	---	---	---	---	PASS	A	52851038	A	A	52851038	3	1	129	1	0	0	0	0	1	0	0	0	7906	971	34	3	475	3	ITIH4	3	52851038	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	452109	52851038	145171392	115	46471										
CACNA2D3	55799	broad.mit.edu	37	chr3	54930847	54930847	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccctctctggtaccgaagagCcgctgagcagattccaggga	12	13	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:54930847C>T	uc003dhf.2	+	26	2366	c.2318C>T	c.(2317-2319)GCC>GTC	p.A773V	CACNA2D3_uc003dhg.1_Missense_Mutation_p.A679V|CACNA2D3_uc003dhh.1_RNA|uc003dhk.1_RNA	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	773	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		TACCGAAGAGCCGCTGAGCAG	0.527													5	154	---	---	---	---	PASS	T	54930847	T	T	54930847	3	4	129	1	0	0	0	0	1	0	0	0	2550	739	26	3	2420	3	CACNA2D3	3	54930847	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2079809	54930847	143091583	116	46472										
ROBO1	6091	broad.mit.edu	37	chr3	78683154	78683154	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctggtcgtatgattggttgtAtgggatagttggaggaactg	16	3	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:78683154A>G	uc003dqe.2	-	24	3620	c.3412T>C	c.(3412-3414)TAC>CAC	p.Y1138H	ROBO1_uc003dqb.2_Missense_Mutation_p.Y1099H|ROBO1_uc003dqc.2_Missense_Mutation_p.Y1038H|ROBO1_uc003dqd.2_Missense_Mutation_p.Y1093H|ROBO1_uc010hoh.2_Missense_Mutation_p.Y330H|ROBO1_uc011bgl.1_Missense_Mutation_p.Y710H	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1138	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		GATTGGTTGTATGGGATAGTT	0.398													17	84	---	---	---	---	PASS	G	78683154	G	G	78683154	3	3	129	1	0	0	0	0	1	0	0	0	13513	449	16	5	1575	5	ROBO1	3	78683154	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	23752307	78683154	119339276	117	46473										
KIAA2018	205717	broad.mit.edu	37	chr3	113375001	113375001	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gaccacactgtgtattcctcTgatgttctgagagtgacctc	9	11	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:113375001T>C	uc003eam.2	-	7	5939	c.5528A>G	c.(5527-5529)CAG>CGG	p.Q1843R	KIAA2018_uc003eal.2_Missense_Mutation_p.Q1787R	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1843					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						TGTATTCCTCTGATGTTCTGA	0.443													19	209	---	---	---	---	PASS	C	113375001	C	C	113375001	3	2	129	1	0	0	0	0	1	0	0	0	8268	1580	55	5	1213	5	KIAA2018	3	113375001	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	34691847	113375001	84647429	118	46474										
ZNF148	7707	broad.mit.edu	37	chr3	124951424	124951424	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttggtggacaggctgggcctCagctttcttctgagaagtca	13	9	4	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:124951424C>G	uc003ehx.3	-	9	2632	c.2146G>C	c.(2146-2148)GAG>CAG	p.E716Q	SLC12A8_uc003ehw.3_Intron|ZNF148_uc003ehz.3_Missense_Mutation_p.E716Q|ZNF148_uc010hsa.2_Missense_Mutation_p.E716Q|ZNF148_uc003eia.3_Missense_Mutation_p.E716Q|ZNF148_uc003ehy.2_Missense_Mutation_p.E53Q	NM_021964	NP_068799	Q9UQR1	ZN148_HUMAN	zinc finger protein 148	716					cellular defense response|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4						GGCTGGGCCTCAGCTTTCTTC	0.473													21	182	---	---	---	---	PASS	G	124951424	G	G	124951424	3	3	129	1	0	0	0	0	1	0	0	0	17731	835	29	2	242	2	ZNF148	3	124951424	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	11576423	124951424	73071006	119	46475										
TPRA1	131601	broad.mit.edu	37	chr3	127295676	127295676	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	acacacaccaaaggccaggcCcaggatgatcacactcagct	8	15	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:127295676C>A	uc003ejl.2	-	4	697	c.406G>T	c.(406-408)GGC>TGC	p.G136C	TPRA1_uc003ejm.2_RNA|TPRA1_uc003ejo.2_Missense_Mutation_p.G136C|TPRA1_uc010hsk.2_Missense_Mutation_p.G136C|TPRA1_uc003ejn.2_Missense_Mutation_p.G136C	NM_016372	NP_057456	Q86W33	TPRA1_HUMAN	G protein-coupled receptor 175 isoform 1	136	Helical; Name=3; (Potential).				aging|lipid metabolic process	integral to membrane	G-protein coupled receptor activity				0						AAGGCCAGGCCCAGGATGATC	0.642													9	59	---	---	---	---	PASS	A	127295676	A	A	127295676	3	1	129	1	0	0	0	0	1	0	0	0	16414	623	22	3	743	3	TPRA1	3	127295676	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2344252	127295676	70726754	120	46476										
CCRL1	51554	broad.mit.edu	37	chr3	132320083	132320083	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctgcaacatgagcaaacgcaTggacatcgccatccaagtca	8	13	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:132320083T>C	uc003eow.2	+	2	925	c.842T>C	c.(841-843)ATG>ACG	p.M281T	ACAD11_uc003eov.3_Intron|ACAD11_uc011blr.1_Intron|CCRL1_uc003eox.2_Missense_Mutation_p.M281T	NM_016557	NP_057641	Q9NPB9	CCRL1_HUMAN	chemokine (C-C motif) receptor-like 1	281	Extracellular (Potential).				chemotaxis|immune response	integral to plasma membrane	C-C chemokine receptor activity				0						AGCAAACGCATGGACATCGCC	0.443													19	207	---	---	---	---	PASS	C	132320083	C	C	132320083	3	2	129	1	0	0	0	0	1	0	0	0	2949	1464	51	5	844	5	CCRL1	3	132320083	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	5024407	132320083	65702347	121	46477										
EPHB1	2047	broad.mit.edu	37	chr3	134670815	134670815	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atcaaactctactgcaacggGgatggggaatggatggtgcc	14	8	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:134670815G>A	uc003eqt.2	+	3	946	c.726G>A	c.(724-726)GGG>GGA	p.G242G	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_Intron	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	242	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						ACTGCAACGGGGATGGGGAAT	0.572													45	283	---	---	---	---	PASS	A	134670815	A	A	134670815	2	1	129	1	0	0	0	0	0	0	0	1	5174	1219	43	3		3	EPHB1	3	134670815	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	2350732	134670815	63351615	122	46478										
PLS1	5357	broad.mit.edu	37	chr3	142408474	142408474	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtttaggagacaaatgacctGaagcgtgctggactcatgct	12	8	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:142408474G>C	uc010huv.2	+	10	1155	c.996G>C	c.(994-996)CTG>CTC	p.L332L	PLS1_uc003euz.2_Silent_p.L332L|PLS1_uc003eva.2_Silent_p.L332L	NM_001145319	NP_001138791	Q14651	PLSI_HUMAN	plastin 1	332	Actin-binding 1.|CH 2.					cytoplasm	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(1)	1						CAAATGACCTGAAGCGTGCTG	0.338													8	117	---	---	---	---	PASS	C	142408474	C	C	142408474	2	2	129	1	0	0	0	0	0	0	0	1	12107	1277	45	2		2	PLS1	3	142408474	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	7737659	142408474	55613956	123	46479										
SELT	51714	broad.mit.edu	37	chr3	150344895	150344895	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgaagctcaatgtgcatatgGattcaatcccacaccatcga	7	11	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:150344895G>C	uc011bnx.1	+	6	646	c.562G>C	c.(562-564)GAT>CAT	p.D188H		NM_016275	NP_057359	P62341	SELT_HUMAN	selenoprotein T precursor	188					cell redox homeostasis|selenocysteine incorporation		selenium binding				0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			TGTGCATATGGATTCAATCCC	0.383													38	186	---	---	---	---	PASS	C	150344895	C	C	150344895	3	2	129	1	0	0	0	0	1	0	0	0	14022	1174	41	2	580	2	SELT	3	150344895	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	7936421	150344895	47677535	124	46480										
SLITRK3	22865	broad.mit.edu	37	chr3	164905811	164905811	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aagccctttccagccgagaaGagaagggtttctttgagcct	11	10	1	3	rs150831053	byFrequency	TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:164905811G>T	uc003fej.3	-	2	3252	c.2808C>A	c.(2806-2808)CTC>CTA	p.L936L	SLITRK3_uc003fek.2_Silent_p.L936L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	936	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						CAGCCGAGAAGAGAAGGGTTT	0.498										HNSCC(40;0.11)			42	286	---	---	---	---	PASS	T	164905811	T	T	164905811	2	4	129	1	0	0	0	0	0	0	0	1	14744	929	33	2		2	SLITRK3	3	164905811	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	14560916	164905811	33116619	125	46481										
SLITRK3	22865	broad.mit.edu	37	chr3	164907492	164907492	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgtgcaaattacaggtacacCcagtggggcatataatgggg	13	7	0	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:164907492C>T	uc003fej.3	-	2	1571	c.1127G>A	c.(1126-1128)GGG>GAG	p.G376E	SLITRK3_uc003fek.2_Missense_Mutation_p.G376E	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	376	LRRNT.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						ACAGGTACACCCAGTGGGGCA	0.478										HNSCC(40;0.11)			45	261	---	---	---	---	PASS	T	164907492	T	T	164907492	3	4	129	1	0	0	0	0	1	0	0	0	14744	623	22	3	1810	3	SLITRK3	3	164907492	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1681	164907492	33114938	126	46482										
WDR49	151790	broad.mit.edu	37	chr3	167245649	167245649	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agcattgcagacaccagtcaCacaaatactgcagtctgcag	8	12	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:167245649C>A	uc003fev.1	-	11	1813	c.1507G>T	c.(1507-1509)GTG>TTG	p.V503L	WDR49_uc003feu.1_Missense_Mutation_p.V328L|WDR49_uc011bpd.1_Intron|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	503	WD 8.									large_intestine(1)|ovary(1)|skin(1)	3						ACACCAGTCACACAAATACTG	0.403													13	77	---	---	---	---	PASS	A	167245649	A	A	167245649	3	1	129	1	0	0	0	0	1	0	0	0	17299	478	17	3	606	3	WDR49	3	167245649	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2338157	167245649	30776781	127	46483										
LEPREL1	55214	broad.mit.edu	37	chr3	189712013	189712013	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttaaggcttgttcgaagtgCctgatagccatctcaaagtc	9	10	1	1	rs138997029		TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:189712013C>A	uc011bsk.1	-	3	1081	c.693G>T	c.(691-693)AGG>AGT	p.R231S	LEPREL1_uc003fsg.2_Missense_Mutation_p.R50S	NM_018192	NP_060662	Q8IVL5	P3H2_HUMAN	leprecan-like 1 isoform a	231	TPR 3.				collagen metabolic process|negative regulation of cell proliferation|peptidyl-proline hydroxylation	basement membrane|endoplasmic reticulum|Golgi apparatus	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			breast(3)|ovary(1)	4	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GTTCGAAGTGCCTGATAGCCA	0.378													23	103	---	---	---	---	PASS	A	189712013	A	A	189712013	3	1	129	1	0	0	0	0	1	0	0	0	8730	738	26	3	1485	3	LEPREL1	3	189712013	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	22466364	189712013	8310417	128	46484										
ATP13A3	79572	broad.mit.edu	37	chr3	194177845	194177845	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtaggcatgcatcccctttgTcagtcctgcactatgctttt	8	12	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:194177845T>C	uc003fty.3	-	6	940	c.538A>G	c.(538-540)ACA>GCA	p.T180A		NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	180					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		ATCCCCTTTGTCAGTCCTGCA	0.328													23	117	---	---	---	---	PASS	C	194177845	C	C	194177845	3	2	129	1	0	0	0	0	1	0	0	0	1125	1667	58	5	3250	5	ATP13A3	3	194177845	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	4465832	194177845	3844585	129	46485										
BDH1	622	broad.mit.edu	37	chr3	197238966	197238966	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	catcttggcgatcttttcatCaaagtacttcttgccgtagt	7	10	5	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:197238966C>T	uc003fxr.2	-	8	1234	c.832G>A	c.(832-834)GAT>AAT	p.D278N	BDH1_uc003fxs.2_Missense_Mutation_p.D278N|BDH1_uc003fxt.2_Missense_Mutation_p.D191N|BDH1_uc003fxu.2_Missense_Mutation_p.D278N	NM_203314	NP_976059	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1	278					cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			ovary(1)	1	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	ATCTTTTCATCAAAGTACTTC	0.577													14	134	---	---	---	---	PASS	T	197238966	T	T	197238966	3	4	129	1	0	0	0	0	1	0	0	0	1390	826	29	2	203	2	BDH1	3	197238966	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	3061121	197238966	783464	130	46486										
KIAA0226	9711	broad.mit.edu	37	chr3	197428728	197428728	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggagcgggctctcgtgctttCtggcaaactaaaaagcaaaa	11	9	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr3:197428728C>G	uc003fyc.2	-	6	761	c.578G>C	c.(577-579)AGA>ACA	p.R193T	KIAA0226_uc003fyd.3_Missense_Mutation_p.R133T|KIAA0226_uc003fye.1_5'UTR|KIAA0226_uc003fyf.2_Missense_Mutation_p.R26T|KIAA0226_uc003fyg.2_Missense_Mutation_p.R186T	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	193					autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		CTCGTGCTTTCTGGCAAACTA	0.502													6	58	---	---	---	---	PASS	G	197428728	G	G	197428728	3	3	129	1	0	0	0	0	1	0	0	0	8162	913	32	2	2449	2	KIAA0226	3	197428728	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	189762	197428728	593702	131	46487										
SLC2A9	56606	broad.mit.edu	37	chr4	9836629	9836629	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cagtcaagatgaacgggatgCcacctgcagtgtgtgagcca	13	10	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr4:9836629C>T	uc003gmc.2	-	11	1356	c.1295G>A	c.(1294-1296)GGC>GAC	p.G432D	SLC2A9_uc003gmd.2_Missense_Mutation_p.G403D	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein	432	Helical; Name=10; (Potential).				glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						GAACGGGATGCCACCTGCAGT	0.542													3	56	---	---	---	---	PASS	T	9836629	T	T	9836629	3	4	129	1	0	0	0	0	1	0	0	0	14552	739	26	3	335	3	SLC2A9	4	9836629	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08		9836629	181317647	132	46488										
ZNF518B	85460	broad.mit.edu	37	chr4	10447079	10447079	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agacagggtcattttatttgGaatacaaactacatcttttt	6	6	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr4:10447079G>T	uc003gmn.2	-	3	1361	c.874C>A	c.(874-876)CCA>ACA	p.P292T		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	292					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						ATTTTATTTGGAATACAAACT	0.373													53	282	---	---	---	---	PASS	T	10447079	T	T	10447079	3	4	129	1	0	0	0	0	1	0	0	0	17960	1174	41	2	2354	2	ZNF518B	4	10447079	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	610450	10447079	180707197	133	46489										
SLIT2	9353	broad.mit.edu	37	chr4	20619273	20619273	+	Nonsense_Mutation	SNP	G	T	T													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgggggacagctgtgatcgaGgtaagccagccccactgggc							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr4:20619273G>T	uc003gpr.1	+	36	4552	c.4348G>T	c.(4348-4350)GAA>TAA	p.E1450*	SLIT2_uc003gps.1_Nonsense_Mutation_p.E1442*	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1450					apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CTGTGATCGAGGTAAGCCAGC	0.468													5	20	---	---	---	---	PASS	T	20619273	T	T	20619273	4	4	129	1	0	0	0	0	0	1	0	0	14740	1014	35	3	4490	3	SLIT2	4	20619273	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	10172194	20619273	170535003	134	46490	857	2								
SLIT2	9353	broad.mit.edu	37	chr4	20619274	20619274	+	Splice_Site	SNP	G	T	T													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gggggacagctgtgatcgagGtaagccagccccactgggca							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr4:20619274G>T	uc003gpr.1	+	36	4552	c.4348_splice	c.e36+1	p.E1450_splice	SLIT2_uc003gps.1_Splice_Site_p.E1442_splice	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor						apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TGTGATCGAGGTAAGCCAGCC	0.463													5	20	---	---	---	---	PASS	T	20619274	T	T	20619274	5	4	129	1	0	0	0	0	0	0	1	0	14740	1275	44	3	4491	3	SLIT2	4	20619274	Splice_Site	SNP	G	TCGA-60-2720-01A-01D-1522-08	1	20619274	170535002	135	46491	857	2								
KLB	152831	broad.mit.edu	37	chr4	39436170	39436170	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aaacaccatggctaaaatggGacaaaatgtttcacttaatt	6	7	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr4:39436170G>C	uc003gua.2	+	2	1263	c.1166G>C	c.(1165-1167)GGA>GCA	p.G389A	KLB_uc011byj.1_Missense_Mutation_p.G389A	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	389	Extracellular (Potential).|Glycosyl hydrolase-1 1.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						GCTAAAATGGGACAAAATGTT	0.423													34	148	---	---	---	---	PASS	C	39436170	C	C	39436170	3	2	129	1	0	0	0	0	1	0	0	0	8332	1174	41	2	1172	2	KLB	4	39436170	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	18816896	39436170	151718106	136	46492										
FRYL	285527	broad.mit.edu	37	chr4	48575205	48575205	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctgcagaacacagctcacctCtggccttctttcgagtgctt	8	14	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr4:48575205C>G	uc003gyh.1	-	26	3507	c.2902G>C	c.(2902-2904)GAG>CAG	p.E968Q	FRYL_uc003gyk.2_Missense_Mutation_p.E968Q	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	968					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						CAGCTCACCTCTGGCCTTCTT	0.343													5	95	---	---	---	---	PASS	G	48575205	G	G	48575205	3	3	129	1	0	0	0	0	1	0	0	0	6064	922	32	2	6295	2	FRYL	4	48575205	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	9139035	48575205	142579071	137	46493										
CEP135	9662	broad.mit.edu	37	chr4	56846395	56846395	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agatttgaaaaatatatggaAgatatacagtccaatgttaa	7	3	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr4:56846395A>T	uc003hbi.2	+	12	1794	c.1560A>T	c.(1558-1560)GAA>GAT	p.E520D	CEP135_uc003hbj.2_Missense_Mutation_p.E226D	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	520	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					AATATATGGAAGATATACAGT	0.284													35	104	---	---	---	---	PASS	T	56846395	T	T	56846395	3	4	129	1	0	0	0	0	1	0	0	0	3247	69	3	5	1602	5	CEP135	4	56846395	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	8271190	56846395	134307881	138	46494										
KIAA1211	57482	broad.mit.edu	37	chr4	57180260	57180260	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggccctgcctggaccagaacGgacacccaggcgaggacaag	14	14	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr4:57180260G>C	uc003hbk.2	+	8	983	c.592G>C	c.(592-594)GGA>CGA	p.G198R	KIAA1211_uc010iha.2_Missense_Mutation_p.G191R|KIAA1211_uc011bzz.1_Missense_Mutation_p.G108R|KIAA1211_uc003hbm.1_Missense_Mutation_p.G84R	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	198										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					GGACCAGAACGGACACCCAGG	0.542													8	47	---	---	---	---	PASS	C	57180260	C	C	57180260	3	2	129	1	0	0	0	0	1	0	0	0	8215	1117	39	4	610	4	KIAA1211	4	57180260	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	333865	57180260	133974016	139	46495										
AGPAT9	84803	broad.mit.edu	37	chr4	84519333	84519333	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgccccccatgaccagagagGtattccttagctaacacttt	7	13	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr4:84519333G>C	uc003how.2	+	11	1343	c.1125_splice	c.e11+1	p.E375_splice	AGPAT9_uc003hox.2_Splice_Site_p.E375_splice|AGPAT9_uc003hoy.2_Splice_Site_p.E375_splice	NM_032717	NP_116106	Q53EU6	GPAT3_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 9						phospholipid biosynthetic process|regulation of TOR signaling cascade|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	glycerol-3-phosphate O-acyltransferase activity			skin(1)	1		Hepatocellular(203;0.114)				GACCAGAGAGGTATTCCTTAG	0.473													16	84	---	---	---	---	PASS	C	84519333	C	C	84519333	5	2	129	1	0	0	0	0	0	0	1	0	392	1275	44	4	1164	4	AGPAT9	4	84519333	Splice_Site	SNP	G	TCGA-60-2720-01A-01D-1522-08	27339073	84519333	106634943	140	46496										
NPY1R	4886	broad.mit.edu	37	chr4	164247564	164247564	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caccaagaatgatcacagctCcataagcaagagctaaggta	8	10	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr4:164247564C>A	uc003iqm.1	-	2	409	c.143G>T	c.(142-144)GGA>GTA	p.G48V	NPY1R_uc011cjj.1_Intron	NM_000909	NP_000900	P25929	NPY1R_HUMAN	neuropeptide Y receptor Y1	48	Helical; Name=1; (Potential).				inhibition of adenylate cyclase activity by G-protein signaling pathway|outflow tract morphogenesis	integral to plasma membrane	protein binding			lung(1)|pancreas(1)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				GATCACAGCTCCATAAGCAAG	0.408													28	118	---	---	---	---	PASS	A	164247564	A	A	164247564	3	1	129	1	0	0	0	0	1	0	0	0	10608	855	30	2	1019	2	NPY1R	4	164247564	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	79728231	164247564	26906712	141	46497										
CCDC110	256309	broad.mit.edu	37	chr4	186379310	186379310	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgaagccaaaggcctactctGaggactagaagtatcttcgt	10	10	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr4:186379310G>C	uc003ixu.3	-	6	2507	c.2431C>G	c.(2431-2433)CAG>GAG	p.Q811E	CCDC110_uc003ixv.3_Missense_Mutation_p.Q774E|CCDC110_uc011ckt.1_Missense_Mutation_p.Q811E	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	811						nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		GGCCTACTCTGAGGACTAGAA	0.373													15	73	---	---	---	---	PASS	C	186379310	C	C	186379310	3	2	129	1	0	0	0	0	1	0	0	0	2747	1299	45	2	78	2	CCDC110	4	186379310	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	22131746	186379310	4774966	142	46498										
CCDC110	256309	broad.mit.edu	37	chr4	186380438	186380438	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tatctgcacagattcttttaGgtaattctgtaagtactgaa	7	6	3	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr4:186380438G>T	uc003ixu.3	-	6	1379	c.1303C>A	c.(1303-1305)CTA>ATA	p.L435I	CCDC110_uc003ixv.3_Missense_Mutation_p.L398I|CCDC110_uc011ckt.1_Missense_Mutation_p.L435I	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	435	Potential.					nucleus				central_nervous_system(1)	1		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		GATTCTTTTAGGTAATTCTGT	0.323													38	220	---	---	---	---	PASS	T	186380438	T	T	186380438	3	4	129	1	0	0	0	0	1	0	0	0	2747	991	35	3	1206	3	CCDC110	4	186380438	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1128	186380438	4773838	143	46499										
CMBL	134147	broad.mit.edu	37	chr5	10286599	10286599	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttcagatacttcaagatagcActgatctctctagaacagaa	6	9	4	5			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:10286599A>G	uc003jes.2	-	4	784	c.333T>C	c.(331-333)AGT>AGC	p.S111S		NM_138809	NP_620164	Q96DG6	CMBL_HUMAN	carboxymethylenebutenolidase	111						cytosol	hydrolase activity|protein binding			skin(1)	1						TCAAGATAGCACTGATCTCTC	0.413													13	73	---	---	---	---	PASS	G	10286599	G	G	10286599	2	3	129	1	0	0	0	0	0	0	0	1	3576	156	6	5		5	CMBL	5	10286599	Silent	SNP	A	TCGA-60-2720-01A-01D-1522-08		10286599	170628661	144	46500										
MARCH6	10299	broad.mit.edu	37	chr5	10417441	10417441	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gttgtccctctccttctgggGctcctgtttgagctggtcat	11	12	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:10417441G>C	uc003jet.1	+	22	2391	c.2208G>C	c.(2206-2208)GGG>GGC	p.G736G	MARCH6_uc011cmu.1_Silent_p.G688G|MARCH6_uc003jeu.1_Silent_p.G434G|MARCH6_uc011cmv.1_Silent_p.G631G	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	736	Helical; (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						TCCTTCTGGGGCTCCTGTTTG	0.468													11	444	---	---	---	---	PASS	C	10417441	C	C	10417441	2	2	129	1	0	0	0	0	0	0	0	1	9305	1190	42	4		4	MARCH6	5	10417441	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	130842	10417441	170497819	145	46501										
DNAH5	1767	broad.mit.edu	37	chr5	13766220	13766220	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agcagcagtacgcaatccatGatccgcatgatgaggtgagg	13	9	0	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:13766220G>C	uc003jfd.2	-	59	10008	c.9966C>G	c.(9964-9966)ATC>ATG	p.I3322M	DNAH5_uc003jfc.2_Translation_Start_Site	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3322	Stalk (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CGCAATCCATGATCCGCATGA	0.527									Kartagener_syndrome				76	172	---	---	---	---	PASS	C	13766220	C	C	13766220	3	2	129	1	0	0	0	0	1	0	0	0	4604	1280	45	2	3992	2	DNAH5	5	13766220	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3348779	13766220	167149040	146	46502										
DNAH5	1767	broad.mit.edu	37	chr5	13922215	13922215	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gaacagcttattcgtcctcaCcttctccttcagactctcct	4	16	4	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:13922215C>T	uc003jfd.2	-	5	702	c.660_splice	c.e5+1	p.K220_splice	DNAH5_uc003jfe.1_Splice_Site	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5						microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTCGTCCTCACCTTCTCCTTC	0.478									Kartagener_syndrome				8	81	---	---	---	---	PASS	T	13922215	T	T	13922215	5	4	129	1	0	0	0	0	0	0	1	0	4604	521	18	3	13513	3	DNAH5	5	13922215	Splice_Site	SNP	C	TCGA-60-2720-01A-01D-1522-08	155995	13922215	166993045	147	46503										
C5orf22	55322	broad.mit.edu	37	chr5	31534424	31534424	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	taggctcaaagcatcttcctGccagtaatgtaagtttttta	7	8	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:31534424G>A	uc003jhj.3	+	2	254	c.127G>A	c.(127-129)GCC>ACC	p.A43T	RNASEN_uc003jhh.2_5'Flank|RNASEN_uc003jhg.2_5'Flank|RNASEN_uc003jhi.2_5'Flank|C5orf22_uc011cnw.1_RNA|C5orf22_uc003jhk.3_5'UTR	NM_018356	NP_060826	Q49AR2	CE022_HUMAN	hypothetical protein LOC55322	43										ovary(2)	2						GCATCTTCCTGCCAGTAATGT	0.423													14	224	---	---	---	---	PASS	A	31534424	A	A	31534424	3	1	129	1	0	0	0	0	1	0	0	0	2285	1319	46	3	133	3	C5orf22	5	31534424	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	17612209	31534424	149380836	148	46504										
RXFP3	51289	broad.mit.edu	37	chr5	33938115	33938115	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccttcaccgccactaccaagCcggagcacgaggatcagggg	12	15	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:33938115C>A	uc003jic.1	+	1	1627	c.1270C>A	c.(1270-1272)CCG>ACG	p.P424T		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	424	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CACTACCAAGCCGGAGCACGA	0.567													10	24	---	---	---	---	PASS	A	33938115	A	A	33938115	3	1	129	1	0	0	0	0	1	0	0	0	13761	739	26	3	1272	3	RXFP3	5	33938115	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2403691	33938115	146977145	149	46505										
PRLR	5618	broad.mit.edu	37	chr5	35084623	35084623	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgagaaactgcttcccatctGgttagtggcattgaccatca	9	11	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:35084623G>T	uc003jjm.2	-	5	852	c.322C>A	c.(322-324)CAG>AAG	p.Q108K	PRLR_uc003jjg.1_Missense_Mutation_p.Q108K|PRLR_uc003jjh.1_Missense_Mutation_p.Q108K|PRLR_uc003jji.1_Missense_Mutation_p.Q37K|PRLR_uc003jjj.1_Missense_Mutation_p.Q108K|PRLR_uc003jjk.1_Missense_Mutation_p.Q37K|PRLR_uc003jjl.3_Intron|PRLR_uc010iuw.1_Missense_Mutation_p.Q37K	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	108	Fibronectin type-III 1.|Extracellular (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	CTTCCCATCTGGTTAGTGGCA	0.468													163	345	---	---	---	---	PASS	T	35084623	T	T	35084623	3	4	129	1	0	0	0	0	1	0	0	0	12531	1357	47	3	1570	3	PRLR	5	35084623	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1146508	35084623	145830637	150	46506										
C6	729	broad.mit.edu	37	chr5	41155154	41155154	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atccaacagtttcaaagccaGtaaggcatgaaatttcaaca	6	9	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:41155154G>T	uc003jmk.2	-	14	2231	c.2021C>A	c.(2020-2022)ACT>AAT	p.T674N	C6_uc003jml.1_Missense_Mutation_p.T674N	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	674	Sushi 1.|C5b-binding domain.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TTCAAAGCCAGTAAGGCATGA	0.398													24	174	---	---	---	---	PASS	T	41155154	T	T	41155154	3	4	129	1	0	0	0	0	1	0	0	0	2315	1029	36	3	803	3	C6	5	41155154	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	6070531	41155154	139760106	151	46507										
PLCXD3	345557	broad.mit.edu	37	chr5	41382263	41382263	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tagatgtctttcagcatttgGaccagtttttcatggtgata	9	6	3	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:41382263G>C	uc003jmm.1	-	2	579	c.477C>G	c.(475-477)GTC>GTG	p.V159V		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	159	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						TCAGCATTTGGACCAGTTTTT	0.418													45	348	---	---	---	---	PASS	C	41382263	C	C	41382263	2	2	129	1	0	0	0	0	0	0	0	1	12043	1161	41	2		2	PLCXD3	5	41382263	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	227109	41382263	139532997	152	46508										
GHR	2690	broad.mit.edu	37	chr5	42718770	42718770	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gatggcgactctggacgtacCagctgttgtgaacctgacat	12	10	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:42718770C>T	uc003jmt.2	+	10	1204	c.1161C>T	c.(1159-1161)ACC>ACT	p.T387T	GHR_uc011cpq.1_Silent_p.T200T	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	387	Cytoplasmic (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	CTGGACGTACCAGCTGTTGTG	0.468													45	246	---	---	---	---	PASS	T	42718770	T	T	42718770	2	4	129	1	0	0	0	0	0	0	0	1	6371	581	21	3		3	GHR	5	42718770	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	1336507	42718770	138196490	153	46509										
HCN1	348980	broad.mit.edu	37	chr5	45462025	45462025	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	taagaactgaagacaaccatCccagtggcacaggagcagca	10	11	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:45462025C>T	uc003jok.2	-	3	959	c.934G>A	c.(934-936)GAT>AAT	p.D312N		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	312	Helical; Name=Segment S5; (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						AGACAACCATCCCAGTGGCAC	0.413													5	84	---	---	---	---	PASS	T	45462025	T	T	45462025	3	4	129	1	0	0	0	0	1	0	0	0	6996	855	30	2	1762	2	HCN1	5	45462025	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2743255	45462025	135453235	154	46510										
SKIV2L2	23517	broad.mit.edu	37	chr5	54706356	54706356	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgttttgccattgtagtgctGatgagctccttctaactgag	10	8	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:54706356G>C	uc003jpy.3	+	23	2916	c.2650G>C	c.(2650-2652)GAT>CAT	p.D884H	SKIV2L2_uc011cqi.1_Missense_Mutation_p.D783H	NM_015360	NP_056175	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2	884					maturation of 5.8S rRNA	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(1)|skin(1)	2		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				TTGTAGTGCTGATGAGCTCCT	0.343													32	131	---	---	---	---	PASS	C	54706356	C	C	54706356	3	2	129	1	0	0	0	0	1	0	0	0	14360	1290	45	2	2740	2	SKIV2L2	5	54706356	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	9244331	54706356	126208904	155	46511										
RAB3C	115827	broad.mit.edu	37	chr5	57913583	57913583	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agtgtggggaaaacatctttTctattccgttatgcagatga	10	6	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:57913583T>C	uc003jrp.2	+	2	235	c.138T>C	c.(136-138)TTT>TTC	p.F46F		NM_138453	NP_612462	Q96E17	RAB3C_HUMAN	RAB3C, member RAS oncogene family	46					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)|central_nervous_system(1)	2		all_cancers(5;9.93e-10)|all_epithelial(5;1.49e-10)|all_lung(5;8.97e-05)|Lung NSC(5;0.000139)|Prostate(74;0.0664)		OV - Ovarian serous cystadenocarcinoma(10;1.8e-34)		AAACATCTTTTCTATTCCGTT	0.393													23	65	---	---	---	---	PASS	C	57913583	C	C	57913583	2	2	129	1	0	0	0	0	0	0	0	1	12933	1780	62	5		5	RAB3C	5	57913583	Silent	SNP	T	TCGA-60-2720-01A-01D-1522-08	3207227	57913583	123001677	156	46512										
WDR41	55255	broad.mit.edu	37	chr5	76732210	76732210	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctcttccaaatccccacatgTtaaaaaaacctagaaaaaga	3	11	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:76732210T>C	uc003kff.1	-	12	1390	c.1103A>G	c.(1102-1104)AAC>AGC	p.N368S	WDR41_uc011csy.1_Missense_Mutation_p.N310S|WDR41_uc011csz.1_Missense_Mutation_p.N313S	NM_018268	NP_060738	Q9HAD4	WDR41_HUMAN	WD repeat domain 41	368											0		all_lung(232;0.000961)|Lung NSC(167;0.0011)|Ovarian(174;0.0105)|Prostate(461;0.059)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-50)|Epithelial(54;2.04e-44)|all cancers(79;6.84e-40)		TCCCCACATGTTAAAAAAACC	0.353													15	98	---	---	---	---	PASS	C	76732210	C	C	76732210	3	2	129	1	0	0	0	0	1	0	0	0	17291	1725	60	5	284	5	WDR41	5	76732210	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	18818627	76732210	104183050	157	46513										
SLCO6A1	133482	broad.mit.edu	37	chr5	101816026	101816026	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aatgctataaatattgctacCaggccagatgaaatatcgta	7	7	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:101816026C>A	uc003knn.2	-	2	643	c.471G>T	c.(469-471)CTG>CTT	p.L157L	SLCO6A1_uc003kno.2_Silent_p.L157L|SLCO6A1_uc003knp.2_Silent_p.L157L|SLCO6A1_uc003knq.2_Silent_p.L157L	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	157	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		ATATTGCTACCAGGCCAGATG	0.353													23	129	---	---	---	---	PASS	A	101816026	A	A	101816026	2	1	129	1	0	0	0	0	0	0	0	1	14732	581	21	3		3	SLCO6A1	5	101816026	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	25083816	101816026	79099234	158	46514										
FTMT	94033	broad.mit.edu	37	chr5	121187661	121187661	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttccaaggaggcggcgctatGctgtcctgcttcaggctcct	12	13	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:121187661G>A	uc003kss.2	+	1	12	c.3G>A	c.(1-3)ATG>ATA	p.M1I		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	1					cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		GCGGCGCTATGCTGTCCTGCT	0.687													10	65	---	---	---	---	PASS	A	121187661	A	A	121187661	3	1	129	1	0	0	0	0	1	0	0	0	6085	1319	46	3	5	3	FTMT	5	121187661	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	19371635	121187661	59727599	159	46515										
PCDHA1	56147	broad.mit.edu	37	chr5	140166707	140166707	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aaggtgtaaatggtgaagtcGtcttttcctttgacagtggt	12	5	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:140166707G>A	uc003lhb.2	+	1	832	c.832G>A	c.(832-834)GTC>ATC	p.V278I	PCDHA1_uc003lha.2_Missense_Mutation_p.V278I|PCDHA1_uc003lgz.2_Missense_Mutation_p.V278I	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	278	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTGAAGTCGTCTTTTCCTT	0.388													21	144	---	---	---	---	PASS	A	140166707	A	A	140166707	3	1	129	1	0	0	0	0	1	0	0	0	11519	1145	40	1	834	1	PCDHA1	5	140166707	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	18979046	140166707	40748553	160	46516										
PCDHB12	56124	broad.mit.edu	37	chr5	140589822	140589822	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctccgacgtcaatgacaacgCccccgccttcacccaaactt	5	19	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:140589822C>A	uc003liz.2	+	1	1532	c.1343C>A	c.(1342-1344)GCC>GAC	p.A448D	PCDHB12_uc011dak.1_Missense_Mutation_p.A111D	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	448	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AATGACAACGCCCCCGCCTTC	0.607													17	84	---	---	---	---	PASS	A	140589822	A	A	140589822	3	1	129	1	0	0	0	0	1	0	0	0	11537	739	26	3	1345	3	PCDHB12	5	140589822	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	423115	140589822	40325438	161	46517										
PCDHGB6	56100	broad.mit.edu	37	chr5	140789620	140789620	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gccagtgagcccggactcttCagcctggggctgcgcactgg	15	14	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:140789620C>T	uc003lkj.1	+	1	1851	c.1851C>T	c.(1849-1851)TTC>TTT	p.F617F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Silent_p.F617F	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	617	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGGACTCTTCAGCCTGGGGC	0.687													5	26	---	---	---	---	PASS	T	140789620	T	T	140789620	2	4	129	1	0	0	0	0	0	0	0	1	11567	825	29	2		2	PCDHGB6	5	140789620	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	199798	140789620	40125640	162	46518										
PCDHGB6	56100	broad.mit.edu	37	chr5	140789936	140789936	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gacgctctctcagccctgctActtgggactgcttccatcct	8	16	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:140789936A>G	uc003lkj.1	+	1	2167	c.2167A>G	c.(2167-2169)ACT>GCT	p.T723A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.T723A|PCDHGA10_uc011day.1_5'Flank|PCDHGA10_uc003lkl.1_5'Flank	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	723	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCCCTGCTACTTGGGACTG	0.537													24	151	---	---	---	---	PASS	G	140789936	G	G	140789936	3	3	129	1	0	0	0	0	1	0	0	0	11567	391	14	5	2169	5	PCDHGB6	5	140789936	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	316	140789936	40125324	163	46519										
WWC1	23286	broad.mit.edu	37	chr5	167855776	167855776	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aagcagtgggtgcgacccgaAttcagattgccctgaagtaa	12	9	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:167855776A>G	uc003lzu.2	+	13	2077	c.1984A>G	c.(1984-1986)ATT>GTT	p.I662V	WWC1_uc003lzv.2_Missense_Mutation_p.I662V|WWC1_uc011den.1_Missense_Mutation_p.I662V|WWC1_uc003lzw.2_Missense_Mutation_p.I461V|WWC1_uc010jjf.1_5'Flank	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	662	C2.				cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		TGCGACCCGAATTCAGATTGC	0.547													13	48	---	---	---	---	PASS	G	167855776	G	G	167855776	3	3	129	1	0	0	0	0	1	0	0	0	17408	101	4	5	2034	5	WWC1	5	167855776	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	27065840	167855776	13059484	164	46520										
SLIT3	6586	broad.mit.edu	37	chr5	168119667	168119667	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atgctgacagaggttcagctCaggcacacagtggtcaatca	11	10	4	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:168119667C>G	uc003mab.2	-	29	3541	c.3121G>C	c.(3121-3123)GAG>CAG	p.E1041Q	SLIT3_uc010jjg.2_Missense_Mutation_p.E1048Q	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	1041	EGF-like 4.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGGTTCAGCTCAGGCACACAG	0.577													11	105	---	---	---	---	PASS	G	168119667	G	G	168119667	3	3	129	1	0	0	0	0	1	0	0	0	14741	835	29	2	1482	2	SLIT3	5	168119667	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	263891	168119667	12795593	165	46521										
BTNL8	79908	broad.mit.edu	37	chr5	180377429	180377429	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	catagtcatctgcccagtcaCccaggaatcagagaaagagg	10	11	4	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr5:180377429C>A	uc003mmp.2	+	8	1622	c.1388C>A	c.(1387-1389)ACC>AAC	p.T463N	BTNL8_uc003mmq.2_3'UTR|BTNL8_uc011dhg.1_Missense_Mutation_p.T338N|BTNL8_uc010jll.2_3'UTR|BTNL8_uc010jlm.2_Missense_Mutation_p.T347N|BTNL8_uc011dhh.1_Missense_Mutation_p.T279N	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	463	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGCCCAGTCACCCAGGAATCA	0.517													47	242	---	---	---	---	PASS	A	180377429	A	A	180377429	3	1	129	1	0	0	0	0	1	0	0	0	1567	507	18	3	1574	3	BTNL8	5	180377429	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	12257762	180377429	537831	166	46522										
FOXC1	2296	broad.mit.edu	37	chr6	1612301	1612301	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttccagccagtctctgtacCgcacgtccggagctttcgtc	9	16	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:1612301C>T	uc003mtp.2	+	1	1621	c.1621C>T	c.(1621-1623)CGC>TGC	p.R541C		NM_001453	NP_001444	Q12948	FOXC1_HUMAN	forkhead box C1	541					anti-apoptosis|artery morphogenesis|blood vessel remodeling|brain development|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|germ cell migration|glycosaminoglycan metabolic process|lacrimal gland development|lymphangiogenesis|metanephros development|negative regulation of mitotic cell cycle|neural crest cell fate commitment|Notch signaling pathway|odontogenesis of dentine-containing tooth|ossification|ovarian follicle development|paraxial mesodermal cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	nuclear heterochromatin|transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|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|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(93;0.0733)	all_cancers(2;4.45e-07)|all_epithelial(2;4.33e-05)|all_lung(73;0.0713)|all_hematologic(90;0.0895)		Epithelial(2;0.0904)|OV - Ovarian serous cystadenocarcinoma(45;0.095)|all cancers(2;0.168)		GTCTCTGTACCGCACGTCCGG	0.512													13	62	---	---	---	---	PASS	T	1612301	T	T	1612301	3	4	129	1	0	0	0	0	1	0	0	0	5994	652	23	1	1623	1	FOXC1	6	1612301	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08		1612301	169502766	167	46523										
TBC1D7	51256	broad.mit.edu	37	chr6	13327088	13327088	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tccacgaaaccccactttctCataatatactgaacgaaagt	4	12	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:13327088C>T	uc003naj.2	-	2	134	c.43G>A	c.(43-45)GAG>AAG	p.E15K	TBC1D7_uc011dis.1_RNA|TBC1D7_uc003nan.2_Missense_Mutation_p.E15K|TBC1D7_uc003nal.2_Missense_Mutation_p.E15K|TBC1D7_uc003nam.2_Missense_Mutation_p.E15K|TBC1D7_uc003nao.2_Missense_Mutation_p.E15K|TBC1D7_uc010jpd.2_Missense_Mutation_p.E15K|TBC1D7_uc003nap.2_Missense_Mutation_p.E15K|TBC1D7_uc003naq.2_Missense_Mutation_p.E15K	NM_016495	NP_057579	Q9P0N9	TBCD7_HUMAN	TBC1 domain family, member 7 isoform a	15					positive regulation of protein ubiquitination	cytoplasmic membrane-bounded vesicle	protein binding|Rab GTPase activator activity			ovary(1)	1	Breast(50;0.0296)|Ovarian(93;0.0339)	all_hematologic(90;0.135)	Epithelial(50;0.0784)|BRCA - Breast invasive adenocarcinoma(129;0.13)|all cancers(50;0.21)			CCCACTTTCTCATAATATACT	0.378													13	130	---	---	---	---	PASS	T	13327088	T	T	13327088	3	4	129	1	0	0	0	0	1	0	0	0	15621	835	29	2	866	2	TBC1D7	6	13327088	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	11714787	13327088	157787979	168	46524										
HIST1H2BG	8339	broad.mit.edu	37	chr6	26216643	26216643	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtgggccagacgggaagcctCgcctgcgatgcgttcgaaga	16	11	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:26216643C>G	uc003ngz.2	-	1	230	c.229G>C	c.(229-231)GAG>CAG	p.E77Q	HIST1H2AE_uc003nha.1_5'Flank	NM_003518	NP_003509	P62807	H2B1C_HUMAN	histone cluster 1, H2bg	77					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			ovary(1)	1		all_hematologic(11;0.196)				CGGGAAGCCTCGCCTGCGATG	0.572													39	184	---	---	---	---	PASS	G	26216643	G	G	26216643	3	3	129	1	0	0	0	0	1	0	0	0	7146	893	31	2	155	2	HIST1H2BG	6	26216643	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	12889555	26216643	144898424	169	46525										
FLOT1	10211	broad.mit.edu	37	chr6	30707977	30707977	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcctgtgctcggcgggtgttGacctcgatgtcataggcggc	16	11	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:30707977G>C	uc003nrm.2	-	8	845	c.681C>G	c.(679-681)GTC>GTG	p.V227V	FLOT1_uc011dmr.1_Silent_p.V179V	NM_005803	NP_005794	O75955	FLOT1_HUMAN	flotillin 1	227						centriolar satellite|endosome|integral to membrane|melanosome|membrane fraction					0						GGCGGGTGTTGACCTCGATGT	0.572													18	52	---	---	---	---	PASS	C	30707977	C	C	30707977	2	2	129	1	0	0	0	0	0	0	0	1	5936	1277	45	2		2	FLOT1	6	30707977	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	4491334	30707977	140407090	170	46526										
HLA-C	3107	broad.mit.edu	37	chr6	31237800	31237800	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agctccaaggacagctaggaCaaccaggacagccaggccag	12	13	0	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:31237800C>A	uc003nsy.2	-	5	965	c.958G>T	c.(958-960)GTC>TTC	p.V320F	HLA-C_uc011dnj.1_Missense_Mutation_p.V292F|HLA-C_uc003nsx.2_Missense_Mutation_p.V199F|HLA-C_uc003nsz.2_Missense_Mutation_p.V320F|HLA-C_uc010jsl.2_Missense_Mutation_p.V320F|HLA-C_uc003nta.2_Missense_Mutation_p.V320F|HLA-C_uc003ntb.2_RNA|HLA-C_uc003ntc.1_Intron|HLA-B_uc010jsm.1_Intron|HLA-B_uc011dnk.1_Intron|HLA-C_uc011dnl.1_Missense_Mutation_p.V199F	NM_002117	NP_002108	Q9TNN7	1C05_HUMAN	major histocompatibility complex, class I, C	320	Helical; (Potential).				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 membrane|MHC class I protein complex					0						ACAGCTAGGACAACCAGGACA	0.597													10	39	---	---	---	---	PASS	A	31237800	A	A	31237800	3	1	129	1	0	0	0	0	1	0	0	0	7197	478	17	3	158	3	HLA-C	6	31237800	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	529823	31237800	139877267	171	46527										
LY6G5B	58496	broad.mit.edu	37	chr6	31639832	31639832	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atgacaggcccctggccctgCctctgtctgactcccagatt	9	16	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:31639832C>T	uc003nvt.1	+	3	379	c.379C>T	c.(379-381)CCT>TCT	p.P127S	CSNK2B_uc003nvs.1_3'UTR	NM_021221	NP_067044	Q8NDX9	LY65B_HUMAN	lymphocyte antigen 6 complex G5B precursor	127						extracellular region					0						CCTGGCCCTGCCTCTGTCTGA	0.612													22	64	---	---	---	---	PASS	T	31639832	T	T	31639832	3	4	129	1	0	0	0	0	1	0	0	0	9092	739	26	3	389	3	LY6G5B	6	31639832	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	402032	31639832	139475235	172	46528										
UHRF1BP1	54887	broad.mit.edu	37	chr6	34804081	34804081	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctaccatctgctcatctcccGcctggacctgcacatttgtg	7	16	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:34804081G>T	uc003oju.3	+	8	1223	c.989G>T	c.(988-990)CGC>CTC	p.R330L	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	330										ovary(3)	3						CTCATCTCCCGCCTGGACCTG	0.582													44	179	---	---	---	---	PASS	T	34804081	T	T	34804081	3	4	129	1	0	0	0	0	1	0	0	0	16965	1087	38	1	1019	1	UHRF1BP1	6	34804081	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3164249	34804081	136310986	173	46529										
C6orf127	340204	broad.mit.edu	37	chr6	35755727	35755727	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aatgagaaatggcttagcatCgcctatggccgttgtcagaa	11	8	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:35755727C>G	uc003old.3	+	3	363	c.306C>G	c.(304-306)ATC>ATG	p.I102M		NM_001010886	NP_001010886	A2RUU4	CF127_HUMAN	hypothetical protein LOC340204 precursor	102					digestion|lipid catabolic process	extracellular region	enzyme activator activity			skin(1)	1						GGCTTAGCATCGCCTATGGCC	0.483													13	122	---	---	---	---	PASS	G	35755727	G	G	35755727	3	3	129	1	0	0	0	0	1	0	0	0	2327	874	31	2	316	2	C6orf127	6	35755727	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	951646	35755727	135359340	174	46530										
PGK2	5232	broad.mit.edu	37	chr6	49754754	49754754	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttggctccattgtccaggcaGtacttgatgcttgggatgga	13	8	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:49754754G>T	uc003ozu.2	-	1	254	c.147C>A	c.(145-147)TAC>TAA	p.Y49*		NM_138733	NP_620061	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	49					glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			ovary(1)	1	Lung NSC(77;0.0402)					TGTCCAGGCAGTACTTGATGC	0.473													25	185	---	---	---	---	PASS	T	49754754	T	T	49754754	4	4	129	1	0	0	0	0	0	1	0	0	11791	1024	36	3	1110	3	PGK2	6	49754754	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	13999027	49754754	121360313	175	46531										
DEFB112	245915	broad.mit.edu	37	chr6	50011472	50011472	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gacctccaatcgctgtacatGacttccacctactaaaggtg	7	13	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:50011472G>C	uc011dws.1	-	2	158	c.158C>G	c.(157-159)TCA>TGA	p.S53*		NM_001037498	NP_001032587	Q30KQ8	DB112_HUMAN	beta-defensin 112 precursor	53					defense response to bacterium	extracellular region				central_nervous_system(1)	1	Lung NSC(77;0.042)					CGCTGTACATGACTTCCACCT	0.418													24	170	---	---	---	---	PASS	C	50011472	C	C	50011472	4	2	129	1	0	0	0	0	0	1	0	0	4401	1294	45	2	186	2	DEFB112	6	50011472	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	256718	50011472	121103595	176	46532										
PKHD1	5314	broad.mit.edu	37	chr6	51934297	51934297	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aagatcctgtttagcactgaTcagccatgccttcttgtgga	9	10	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:51934297T>C	uc003pah.1	-	11	1012	c.736A>G	c.(736-738)ATC>GTC	p.I246V	PKHD1_uc003pai.2_Missense_Mutation_p.I246V	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	246	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TTAGCACTGATCAGCCATGCC	0.448													19	200	---	---	---	---	PASS	C	51934297	C	C	51934297	3	2	129	1	0	0	0	0	1	0	0	0	11971	1435	50	5	11755	5	PKHD1	6	51934297	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	1922825	51934297	119180770	177	46533										
COL12A1	1303	broad.mit.edu	37	chr6	75833800	75833800	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccacgcactgtaatttcttgTccccttgttcctgattatga	6	12	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:75833800T>C	uc003phs.2	-	42	6901	c.6735A>G	c.(6733-6735)GGA>GGG	p.G2245G	COL12A1_uc003pht.2_Silent_p.G1081G	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2245	Fibronectin type-III 18.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TAATTTCTTGTCCCCTTGTTC	0.383													27	114	---	---	---	---	PASS	C	75833800	C	C	75833800	2	2	129	1	0	0	0	0	0	0	0	1	3669	1654	58	5		5	COL12A1	6	75833800	Silent	SNP	T	TCGA-60-2720-01A-01D-1522-08	23899503	75833800	95281267	178	46534										
COL12A1	1303	broad.mit.edu	37	chr6	75875447	75875447	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atgtccaataagccccaattGatgtgtcagtgatgtcttta	8	8	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:75875447G>A	uc003phs.2	-	14	2925	c.2759C>T	c.(2758-2760)TCA>TTA	p.S920L	COL12A1_uc003pht.2_Intron	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	920	Fibronectin type-III 6.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						AGCCCCAATTGATGTGTCAGT	0.378													21	160	---	---	---	---	PASS	A	75875447	A	A	75875447	3	1	129	1	0	0	0	0	1	0	0	0	3669	1294	45	2	6644	2	COL12A1	6	75875447	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	41647	75875447	95239620	179	46535										
COL12A1	1303	broad.mit.edu	37	chr6	75887482	75887482	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tctggaatcaagttctccagTgttctcctcctctgattggg	9	11	5	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:75887482T>C	uc003phs.2	-	12	2500	c.2334A>G	c.(2332-2334)ACA>ACG	p.T778T	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_Silent_p.T436T	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	778	Fibronectin type-III 4.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						AGTTCTCCAGTGTTCTCCTCC	0.433													100	596	---	---	---	---	PASS	C	75887482	C	C	75887482	2	2	129	1	0	0	0	0	0	0	0	1	3669	1683	59	5		5	COL12A1	6	75887482	Silent	SNP	T	TCGA-60-2720-01A-01D-1522-08	12035	75887482	95227585	180	46536										
IMPG1	3617	broad.mit.edu	37	chr6	76728496	76728496	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	actgggagtcagcgagctctGccttgaacttctggtttacc	11	11	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:76728496G>A	uc003pik.1	-	7	876	c.746C>T	c.(745-747)GCA>GTA	p.A249V		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	249	SEA 1.				visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				AGCGAGCTCTGCCTTGAACTT	0.493													24	136	---	---	---	---	PASS	A	76728496	A	A	76728496	3	1	129	1	0	0	0	0	1	0	0	0	7728	1319	46	3	1691	3	IMPG1	6	76728496	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	841014	76728496	94386571	181	46537										
AKD1	221264	broad.mit.edu	37	chr6	109819062	109819062	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gctccgcacacttagggaatCgactcttcagctctgacagt	9	13	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:109819062C>G	uc003ptn.2	-	37	5230	c.5153G>C	c.(5152-5154)CGA>CCA	p.R1718P	AKD1_uc011eas.1_Missense_Mutation_p.R103P	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1718					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						CTTAGGGAATCGACTCTTCAG	0.493													17	155	---	---	---	---	PASS	G	109819062	G	G	109819062	3	3	129	1	0	0	0	0	1	0	0	0	460	884	31	2	602	2	AKD1	6	109819062	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	33090566	109819062	61296005	182	46538										
WASF1	8936	broad.mit.edu	37	chr6	110423414	110423414	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gattttctatcaaacctgtaGcagaactgaaatgacaaaga	7	7	2	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:110423414G>A	uc003ptv.1	-	10	1736	c.899C>T	c.(898-900)GCT>GTT	p.A300V	WASF1_uc003ptw.1_Missense_Mutation_p.A300V|WASF1_uc003ptx.1_Missense_Mutation_p.A300V|WASF1_uc003pty.1_Missense_Mutation_p.A300V	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	300					actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)		CAAACCTGTAGCAGAACTGAA	0.418													34	178	---	---	---	---	PASS	A	110423414	A	A	110423414	3	1	129	1	0	0	0	0	1	0	0	0	17249	971	34	3	788	3	WASF1	6	110423414	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	604352	110423414	60691653	183	46539										
RFX6	222546	broad.mit.edu	37	chr6	117198459	117198459	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atggccaaggtcccggagctGgaagacaccttcctgcaggc	13	13	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:117198459G>T	uc003pxm.2	+	1	84	c.21G>T	c.(19-21)CTG>CTT	p.L7L		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	7					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TCCCGGAGCTGGAAGACACCT	0.642													3	31	---	---	---	---	PASS	T	117198459	T	T	117198459	2	4	129	1	0	0	0	0	0	0	0	1	13267	1335	47	3		3	RFX6	6	117198459	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	6775045	117198459	53916608	184	46540										
RFX6	222546	broad.mit.edu	37	chr6	117237368	117237368	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tttactctgcaactagatccAgcattttttattacactttt	3	9	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:117237368A>G	uc003pxm.2	+	9	926	c.863A>G	c.(862-864)CAG>CGG	p.Q288R		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	288					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						AACTAGATCCAGCATTTTTTA	0.323													29	204	---	---	---	---	PASS	G	117237368	G	G	117237368	3	3	129	1	0	0	0	0	1	0	0	0	13267	188	7	5	897	5	RFX6	6	117237368	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	38909	117237368	53877699	185	46541										
GOPC	57120	broad.mit.edu	37	chr6	117896345	117896345	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccattttttacacaccttccTgccagttccttatccaagta	3	14	0	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:117896345T>G	uc003pxu.2	-	4	875	c.645A>C	c.(643-645)GCA>GCC	p.A215A	GOPC_uc003pxq.1_5'Flank|GOPC_uc003pxv.2_Silent_p.A207A	NM_020399	NP_065132	Q9HD26	GOPC_HUMAN	golgi associated PDZ and coiled-coil motif	215					apical protein localization|cytoplasmic sequestering of CFTR protein|ER to Golgi vesicle-mediated transport|Golgi to plasma membrane transport|protein homooligomerization|protein transport	cell junction|dendrite|Golgi membrane|postsynaptic density|postsynaptic membrane|trans-Golgi network transport vesicle	cystic fibrosis transmembrane conductance regulator binding			ovary(1)	1		all_cancers(87;0.00844)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0363)|OV - Ovarian serous cystadenocarcinoma(136;0.0821)|all cancers(137;0.0976)		CACACCTTCCTGCCAGTTCCT	0.353			O	ROS1	glioblastoma								27	124	---	---	---	---	PASS	G	117896345	G	G	117896345	2	3	129	1	0	0	0	0	0	0	0	1	6573	1567	55	5		5	GOPC	6	117896345	Silent	SNP	T	TCGA-60-2720-01A-01D-1522-08	658977	117896345	53218722	186	46542										
SYNE1	23345	broad.mit.edu	37	chr6	152650936	152650936	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agcgaggctgtgttctaaatCcgcagaaatcagctccttgg	11	10	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:152650936C>A	uc010kiw.2	-	78	15486	c.14884G>T	c.(14884-14886)GAT>TAT	p.D4962Y	SYNE1_uc003qot.3_Missense_Mutation_p.D4891Y|SYNE1_uc003qou.3_Missense_Mutation_p.D4962Y|SYNE1_uc010kiz.2_Missense_Mutation_p.D717Y	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4962	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)		TGTTCTAAATCCGCAGAAATC	0.483										HNSCC(10;0.0054)			45	362	---	---	---	---	PASS	A	152650936	A	A	152650936	3	1	129	1	0	0	0	0	1	0	0	0	15442	855	30	2	11858	2	SYNE1	6	152650936	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	34754591	152650936	18464131	187	46543										
NOX3	50508	broad.mit.edu	37	chr6	155728352	155728352	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctttaagcctgtaatcacgtCagtattttcgtcccagtgta	7	10	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:155728352C>T	uc003qqm.2	-	12	1595	c.1492G>A	c.(1492-1494)GAC>AAC	p.D498N		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	498	Cytoplasmic (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		GTAATCACGTCAGTATTTTCG	0.388													14	90	---	---	---	---	PASS	T	155728352	T	T	155728352	3	4	129	1	0	0	0	0	1	0	0	0	10557	826	29	2	222	2	NOX3	6	155728352	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	3077416	155728352	15386715	188	46544										
TULP4	56995	broad.mit.edu	37	chr6	158882724	158882724	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggtcaagttctacaatgttcGtggggagcacatcttcacac	10	10	4	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:158882724G>T	uc003qrf.2	+	6	2346	c.989G>T	c.(988-990)CGT>CTT	p.R330L	TULP4_uc011efo.1_Missense_Mutation_p.R330L|TULP4_uc003qrg.2_Missense_Mutation_p.R330L	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	330					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		TACAATGTTCGTGGGGAGCAC	0.483													25	131	---	---	---	---	PASS	T	158882724	T	T	158882724	3	4	129	1	0	0	0	0	1	0	0	0	16773	1145	40	1	1011	1	TULP4	6	158882724	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3154372	158882724	12232343	189	46545										
TULP4	56995	broad.mit.edu	37	chr6	158924188	158924188	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gccagcacctggacgtgtccCgactgcccttcatctccccc	8	20	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:158924188C>T	uc003qrf.2	+	13	4850	c.3493C>T	c.(3493-3495)CGA>TGA	p.R1165*	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	1165					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		GGACGTGTCCCGACTGCCCTT	0.557													16	155	---	---	---	---	PASS	T	158924188	T	T	158924188	4	4	129	1	0	0	0	0	0	1	0	0	16773	644	23	1	3543	1	TULP4	6	158924188	Nonsense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	41464	158924188	12190879	190	46546										
SLC22A2	6582	broad.mit.edu	37	chr6	160664782	160664782	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcacctgcaaggcccatgtgCatgatgaggccctggtagag	13	11	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr6:160664782C>G	uc003qtf.2	-	7	1271	c.1101G>C	c.(1099-1101)ATG>ATC	p.M367I	SLC22A2_uc003qte.1_Missense_Mutation_p.M367I	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	367	Helical; (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		GGCCCATGTGCATGATGAGGC	0.517													8	81	---	---	---	---	PASS	G	160664782	G	G	160664782	3	3	129	1	0	0	0	0	1	0	0	0	14450	710	25	4	586	4	SLC22A2	6	160664782	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1740594	160664782	10450285	191	46547										
FBXL18	80028	broad.mit.edu	37	chr7	5545180	5545180	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caggatgtgaaggaggatctCatcagagaaccctaggaggt	14	7	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:5545180C>T	uc003soo.2	-	2	194	c.100G>A	c.(100-102)GAG>AAG	p.E34K	FBXL18_uc003son.3_Missense_Mutation_p.E34K	NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	34	F-box.									central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)		AGGAGGATCTCATCAGAGAAC	0.552													24	118	---	---	---	---	PASS	T	5545180	T	T	5545180	3	4	129	1	0	0	0	0	1	0	0	0	5714	835	29	2	2072	2	FBXL18	7	5545180	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08		5545180	153593483	192	46548										
USP42	84132	broad.mit.edu	37	chr7	6187427	6187427	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cccacccatagccccggccaGtcctctccccgccccgtcat	6	24	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:6187427G>C	uc011jwo.1	+	12	1413	c.1290G>C	c.(1288-1290)CAG>CAC	p.Q430H	USP42_uc010kth.1_Missense_Mutation_p.Q363H|USP42_uc011jwp.1_Missense_Mutation_p.Q430H|USP42_uc011jwq.1_Missense_Mutation_p.Q237H|USP42_uc011jwr.1_Missense_Mutation_p.Q275H	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	430					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		GCCCCGGCCAGTCCTCTCCCC	0.542													20	120	---	---	---	---	PASS	C	6187427	C	C	6187427	3	2	129	1	0	0	0	0	1	0	0	0	17070	1020	36	4	1332	4	USP42	7	6187427	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	642247	6187427	152951236	193	46549										
ITGB8	3696	broad.mit.edu	37	chr7	20403298	20403298	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttcaaatgcagcatcctgtGccaggtgccttgcgctgggt	12	12	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:20403298G>A	uc003suu.2	+	2	871	c.166G>A	c.(166-168)GCC>ACC	p.A56T	ITGB8_uc011jyh.1_5'UTR|ITGB8_uc003sut.2_Missense_Mutation_p.A56T	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	56	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						AGCATCCTGTGCCAGGTGCCT	0.393													8	64	---	---	---	---	PASS	A	20403298	A	A	20403298	3	1	129	1	0	0	0	0	1	0	0	0	7901	1319	46	3	172	3	ITGB8	7	20403298	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	14215871	20403298	138735365	194	46550										
DNAH11	8701	broad.mit.edu	37	chr7	21639650	21639650	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gctggggatggcttctatgaTcttgtagaagaaatgttatg	13	4	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:21639650T>A	uc003svc.2	+	15	2944	c.2913T>A	c.(2911-2913)GAT>GAA	p.D971E		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	971	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GCTTCTATGATCTTGTAGAAG	0.393									Kartagener_syndrome				5	57	---	---	---	---	PASS	A	21639650	A	A	21639650	3	1	129	1	0	0	0	0	1	0	0	0	4599	1432	50	5	2971	5	DNAH11	7	21639650	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	1236352	21639650	137499013	195	46551										
JAZF1	221895	broad.mit.edu	37	chr7	27934861	27934861	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtcggagtgctgctgcggaaTgaagaggagggggtgatggg	22	4	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:27934861T>C	uc003szn.2	-	3	604	c.363A>G	c.(361-363)TCA>TCG	p.S121S	JAZF1_uc003szm.2_Silent_p.S57S	NM_175061	NP_778231	Q86VZ6	JAZF1_HUMAN	JAZF zinc finger 1	121					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcriptional repressor complex	nucleic acid binding|transcription corepressor activity|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131						TGCTGCGGAATGAAGAGGAGG	0.612			T	SUZ12	endometrial stromal tumours								5	32	---	---	---	---	PASS	C	27934861	C	C	27934861	2	2	129	1	0	0	0	0	0	0	0	1	7946	1451	51	5		5	JAZF1	7	27934861	Silent	SNP	T	TCGA-60-2720-01A-01D-1522-08	6295211	27934861	131203802	196	46552										
HECW1	23072	broad.mit.edu	37	chr7	43484409	43484409	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tccgagctggagacggtgatCgcgtcagcctgcggggaccc	16	13	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:43484409C>A	uc003tid.1	+	11	2243	c.1638C>A	c.(1636-1638)ATC>ATA	p.I546I	HECW1_uc011kbi.1_Silent_p.I546I	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	546					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						AGACGGTGATCGCGTCAGCCT	0.687													4	68	---	---	---	---	PASS	A	43484409	A	A	43484409	2	1	129	1	0	0	0	0	0	0	0	1	7042	874	31	2		2	HECW1	7	43484409	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	15549548	43484409	115654254	197	46553										
SEMA3C	10512	broad.mit.edu	37	chr7	80378307	80378307	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agaaaagtggtgttatttttTactccatactggacaatttc	7	6	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:80378307T>C	uc003uhj.2	-	17	2311	c.1749A>G	c.(1747-1749)GTA>GTG	p.V583V	SEMA3C_uc011kgw.1_Silent_p.V601V	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	583	Ig-like C2-type.				immune response|response to drug	membrane	receptor activity			ovary(1)	1						TGTTATTTTTTACTCCATACT	0.423													18	102	---	---	---	---	PASS	C	80378307	C	C	80378307	2	2	129	1	0	0	0	0	0	0	0	1	14026	1741	61	5		5	SEMA3C	7	80378307	Silent	SNP	T	TCGA-60-2720-01A-01D-1522-08	36893898	80378307	78760356	198	46554										
SEMA3A	10371	broad.mit.edu	37	chr7	83636776	83636776	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cacccttctcacatcactcaTgctatacatacacacggctg	4	16	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:83636776T>C	uc003uhz.2	-	10	1348	c.1033A>G	c.(1033-1035)ATG>GTG	p.M345V		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	345	Sema.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						ACATCACTCATGCTATACATA	0.433													20	109	---	---	---	---	PASS	C	83636776	C	C	83636776	3	2	129	1	0	0	0	0	1	0	0	0	14024	1464	51	5	1314	5	SEMA3A	7	83636776	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	3258469	83636776	75501887	199	46555										
GRM3	2913	broad.mit.edu	37	chr7	86468931	86468931	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtctgatcctggtgcaaattGtgatggtgtctgtgtggctc	14	7	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:86468931G>T	uc003uid.2	+	4	3200	c.2101G>T	c.(2101-2103)GTG>TTG	p.V701L	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Missense_Mutation_p.V573L|GRM3_uc010leh.2_Missense_Mutation_p.V293L	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	701	Helical; Name=4; (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GGTGCAAATTGTGATGGTGTC	0.522													9	100	---	---	---	---	PASS	T	86468931	T	T	86468931	3	4	129	1	0	0	0	0	1	0	0	0	6798	1377	48	3	2111	3	GRM3	7	86468931	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	2832155	86468931	72669732	200	46556										
AKAP9	10142	broad.mit.edu	37	chr7	91630969	91630969	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctgagattgtttctgcatctGaatccagaaaggaactagaa	9	7	2	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:91630969G>C	uc003ulg.2	+	8	1963	c.1738G>C	c.(1738-1740)GAA>CAA	p.E580Q	AKAP9_uc003ule.2_Missense_Mutation_p.E592Q|AKAP9_uc003ulf.2_Missense_Mutation_p.E580Q|AKAP9_uc003uli.2_Missense_Mutation_p.E205Q	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	592	Glu-rich.|Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTCTGCATCTGAATCCAGAAA	0.333			T	BRAF	papillary thyroid								23	147	---	---	---	---	PASS	C	91630969	C	C	91630969	3	2	129	1	0	0	0	0	1	0	0	0	459	1291	45	2	1768	2	AKAP9	7	91630969	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	5162038	91630969	67507694	201	46557										
PON1	5444	broad.mit.edu	37	chr7	94937332	94937332	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agttcacatacttgccatcgGgtgaaatgttgattccatta	8	8	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:94937332G>T	uc003uns.2	-	6	786	c.689C>A	c.(688-690)CCC>CAC	p.P230H	PON1_uc011kih.1_Missense_Mutation_p.P230H	NM_000446	NP_000437	P27169	PON1_HUMAN	paraoxonase 1 precursor	230					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	CTTGCCATCGGGTGAAATGTT	0.358													15	106	---	---	---	---	PASS	T	94937332	T	T	94937332	3	4	129	1	0	0	0	0	1	0	0	0	12248	1232	43	3	394	3	PON1	7	94937332	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3306363	94937332	64201331	202	46558										
PON1	5444	broad.mit.edu	37	chr7	94937345	94937345	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gccatcgggtgaaatgttgaTtccattagcaaaatcaaatc	8	8	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:94937345T>A	uc003uns.2	-	6	773	c.676A>T	c.(676-678)ATC>TTC	p.I226F	PON1_uc011kih.1_Missense_Mutation_p.I226F	NM_000446	NP_000437	P27169	PON1_HUMAN	paraoxonase 1 precursor	226					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	GAAATGTTGATTCCATTAGCA	0.383													16	107	---	---	---	---	PASS	A	94937345	A	A	94937345	3	1	129	1	0	0	0	0	1	0	0	0	12248	1493	52	5	407	5	PON1	7	94937345	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	13	94937345	64201318	203	46559										
CYP3A4	1576	broad.mit.edu	37	chr7	99358583	99358583	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tatatgtaaggatctatgttGtccttgttcttcttgctgaa	8	6	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:99358583G>T	uc003urv.1	-	12	1379	c.1275C>A	c.(1273-1275)GAC>GAA	p.D425E	CYP3A4_uc003urw.1_Missense_Mutation_p.D424E|CYP3A4_uc011kiz.1_Missense_Mutation_p.D384E|CYP3A4_uc011kja.1_Missense_Mutation_p.D376E|CYP3A4_uc011kjb.1_Missense_Mutation_p.D275E	NM_017460	NP_059488	P08684	CP3A4_HUMAN	cytochrome P450, family 3, subfamily A,	425					alkaloid catabolic process|androgen metabolic process|exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|oxidative demethylation|steroid catabolic process|xenobiotic metabolic process	cell surface|endoplasmic reticulum membrane|integral to membrane|microsome	albendazole monooxygenase activity|caffeine oxidase activity|electron carrier activity|enzyme binding|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen|oxygen binding|quinine 3-monooxygenase activity|steroid binding|taurochenodeoxycholate 6alpha-hydroxylase activity|testosterone 6-beta-hydroxylase activity|vitamin D 24-hydroxylase activity|vitamin D3 25-hydroxylase activity			central_nervous_system(3)|ovary(1)	4	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)				Albendazole(DB00518)|Alclometasone(DB00240)|Alfentanil(DB00802)|Alfuzosin(DB00346)|Aliskiren(DB01258)|Almotriptan(DB00918)|Alosetron(DB00969)|Alprazolam(DB00404)|Amlodipine(DB00381)|Amprenavir(DB00701)|Aprepitant(DB00673)|Aripiprazole(DB01238)|Astemizole(DB00637)|Atazanavir(DB01072)|Atorvastatin(DB01076)|Benazepril(DB00542)|Bepridil(DB01244)|Betamethasone(DB00443)|Bexarotene(DB00307)|Bortezomib(DB00188)|Bosentan(DB00559)|Bromocriptine(DB01200)|Budesonide(DB01222)|Bupivacaine(DB00297)|Buprenorphine(DB00921)|Buspirone(DB00490)|Busulfan(DB01008)|Carbamazepine(DB00564)|Cevimeline(DB00185)|Chlorpheniramine(DB01114)|Ciclesonide(DB01410)|Cilostazol(DB01166)|Cinacalcet(DB01012)|Cisapride(DB00604)|Clarithromycin(DB01211)|Clindamycin(DB01190)|Clofibrate(DB00636)|Clonazepam(DB01068)|Clopidogrel(DB00758)|Cocaine(DB00907)|Conivaptan(DB00872)|Conjugated Estrogens(DB00286)|Cyproterone(DB04839)|Darifenacin(DB00496)|Darunavir(DB01264)|Dasatinib(DB01254)|Delavirdine(DB00705)|Desogestrel(DB00304)|Dexamethasone(DB01234)|Diazepam(DB00829)|Dihydroergotamine(DB00320)|Diltiazem(DB00343)|Diphenhydramine(DB01075)|Disopyramide(DB00280)|Dofetilide(DB00204)|Dolasetron(DB00757)|Domperidone(DB01184)|Donepezil(DB00843)|Doxorubicin(DB00997)|Drospirenone(DB01395)|Dutasteride(DB01126)|Efavirenz(DB00625)|Eletriptan(DB00216)|Enalapril(DB00584)|Epirubicin(DB00445)|Eplerenone(DB00700)|Ergotamine(DB00696)|Erlotinib(DB00530)|Erythromycin(DB00199)|Escitalopram(DB01175)|Esomeprazole(DB00736)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethinyl Estradiol(DB00977)|Ethosuximide(DB00593)|Etonogestrel(DB00294)|Etoposide(DB00773)|Etoricoxib(DB01628)|Exemestane(DB00990)|Felodipine(DB01023)|Fentanyl(DB00813)|Fexofenadine(DB00950)|Finasteride(DB01216)|Fluconazole(DB00196)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Fosamprenavir(DB01319)|Fulvestrant(DB00947)|Galantamine(DB00674)|Gefitinib(DB00317)|Gemfibrozil(DB01241)|Granisetron(DB00889)|Grepafloxacin(DB00365)|Halofantrine(DB01218)|Hydrocodone(DB00956)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Hydromorphone(DB00327)|Imatinib(DB00619)|Indinavir(DB00224)|Ipratropium(DB00332)|Irinotecan(DB00762)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Isradipine(DB00270)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Lercanidipine(DB00528)|Letrozole(DB01006)|Levobupivacaine(DB01002)|Levomethadyl Acetate(DB01227)|Levothyroxine(DB00451)|Lomustine(DB01206)|Loperamide(DB00836)|Lopinavir(DB01601)|Loratadine(DB00455)|Losartan(DB00678)|Lovastatin(DB00227)|Maraviroc(DB04835)|Marinol(DB00470)|Mebendazole(DB00643)|Medroxyprogesterone(DB00603)|Methadone(DB00333)|Methylprednisolone(DB00959)|Metyrapone(DB01011)|Mibefradil(DB01388)|Midazolam(DB00683)|Mifepristone(DB00834)|Mirtazapine(DB00370)|Modafinil(DB00745)|Mometasone(DB00764)|Montelukast(DB00471)|Nateglinide(DB00731)|Nefazodone(DB01149)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Norethindrone(DB00717)|Norgestrel(DB00506)|Nystatin(DB00646)|Ondansetron(DB00904)|Oxybutynin(DB01062)|Paclitaxel(DB01229)|Paliperidone(DB01267)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Paricalcitol(DB00910)|Phenmetrazine(DB00830)|Pimecrolimus(DB00337)|Pimozide(DB01100)|Pioglitazone(DB01132)|Posaconazole(DB01263)|Pranlukast(DB01411)|Prednisolone(DB00860)|Prednisone(DB00635)|Prochlorperazine(DB00433)|Quetiapine(DB01224)|Quinapril(DB00881)|Quinine(DB00468)|Rabeprazole(DB01129)|Ranolazine(DB00243)|Reboxetine(DB00234)|Retapamulin(DB01256)|Rifabutin(DB00615)|Rifampin(DB01045)|Rimonabant(DB06155)|Ritonavir(DB00503)|Rofecoxib(DB00533)|Roxithromycin(DB00778)|Salmeterol(DB00938)|Saquinavir(DB01232)|Sertindole(DB06144)|Sibutramine(DB01105)|Simvastatin(DB00641)|Sirolimus(DB00877)|Sitagliptin(DB01261)|Solifenacin(DB01591)|Sorafenib(DB00398)|Sunitinib(DB01268)|Tacrolimus(DB00864)|Tadalafil(DB00820)|Tamoxifen(DB00675)|Telithromycin(DB00976)|Terconazole(DB00251)|Terfenadine(DB00342)|Testosterone(DB00624)|Tiagabine(DB00906)|Ticlopidine(DB00208)|Tinidazole(DB00911)|Tiotropium(DB01409)|Tipranavir(DB00932)|Toremifene(DB00539)|Triazolam(DB00897)|Trimetrexate(DB01157)|Troglitazone(DB00197)|Valdecoxib(DB00580)|Vardenafil(DB00862)|Vinblastine(DB00570)|Vincristine(DB00541)|Vindesine(DB00309)|Vinorelbine(DB00361)|Voriconazole(DB00582)|Zaleplon(DB00962)|Zileuton(DB00744)|Ziprasidone(DB00246)|Zolpidem(DB00425)|Zonisamide(DB00909)	GATCTATGTTGTCCTTGTTCT	0.388													49	347	---	---	---	---	PASS	T	99358583	T	T	99358583	3	4	129	1	0	0	0	0	1	0	0	0	4178	1368	48	3	244	3	CYP3A4	7	99358583	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	4421238	99358583	59780080	204	46560										
ZSCAN21	7589	broad.mit.edu	37	chr7	99661526	99661526	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gccaataaacctgaggccagCttagagaggcagtgcgtaaa	12	9	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:99661526C>G	uc003uso.2	+	4	852	c.708C>G	c.(706-708)AGC>AGG	p.S236R	ZSCAN21_uc003usn.1_Missense_Mutation_p.S235R	NM_145914	NP_666019	Q9Y5A6	ZSC21_HUMAN	zinc finger protein 38	236					positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			CTGAGGCCAGCTTAGAGAGGC	0.463													5	159	---	---	---	---	PASS	G	99661526	G	G	99661526	3	3	129	1	0	0	0	0	1	0	0	0	18230	796	28	4	718	4	ZSCAN21	7	99661526	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	302943	99661526	59477137	205	46561										
GATS	352954	broad.mit.edu	37	chr7	99831237	99831237	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aagcacttacctaggaatccTtcctcatcgacaatgatagt	6	11	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:99831237T>C	uc003uua.3	-	2	456	c.207A>G	c.(205-207)GAA>GAG	p.E69E	GATS_uc003uty.3_RNA|GATS_uc003utz.3_RNA|GATS_uc010lgt.2_RNA|GATS_uc010lgu.2_RNA	NM_178831	NP_849153	Q8NAP1	GATS_HUMAN	GATS, stromal antigen 3 opposite strand	69											0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CTAGGAATCCTTCCTCATCGA	0.517													25	185	---	---	---	---	PASS	C	99831237	C	C	99831237	2	2	129	1	0	0	0	0	0	0	0	1	6264	1606	56	5		5	GATS	7	99831237	Silent	SNP	T	TCGA-60-2720-01A-01D-1522-08	169711	99831237	59307426	206	46562										
COG5	10466	broad.mit.edu	37	chr7	106938787	106938787	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aatgcctgcttcaaaaacatCgaagctgccaagcaaaacaa	6	11	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:106938787C>T	uc003ved.2	-	12	1731	c.1206G>A	c.(1204-1206)TCG>TCA	p.S402S	COG5_uc003vec.2_Silent_p.S402S|COG5_uc003vee.2_Silent_p.S402S	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	402					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						TCAAAAACATCGAAGCTGCCA	0.318													19	71	---	---	---	---	PASS	T	106938787	T	T	106938787	2	4	129	1	0	0	0	0	0	0	0	1	3661	871	31	2		2	COG5	7	106938787	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	7107550	106938787	52199876	207	46563										
C7orf58	79974	broad.mit.edu	37	chr7	120906456	120906456	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccagttctggataagcccttCattgagaccaacatttgaaa	7	10	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:120906456C>T	uc003vjq.3	+	19	2933	c.2486C>T	c.(2485-2487)TCA>TTA	p.S829L		NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	829						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					ATAAGCCCTTCATTGAGACCA	0.393													40	228	---	---	---	---	PASS	T	120906456	T	T	120906456	3	4	129	1	0	0	0	0	1	0	0	0	2405	838	29	2	2602	2	C7orf58	7	120906456	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	13967669	120906456	38232207	208	46564										
GCC1	79571	broad.mit.edu	37	chr7	127224785	127224785	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtcttttgtccacctccccaCctgcaaatggcccatcccca	5	19	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:127224785C>A	uc003vma.2	-	1	870	c.452G>T	c.(451-453)GGT>GTT	p.G151V		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	151						Golgi membrane|plasma membrane	protein binding			ovary(2)	2						CACCTCCCCACCTGCAAATGG	0.572													29	181	---	---	---	---	PASS	A	127224785	A	A	127224785	3	1	129	1	0	0	0	0	1	0	0	0	6285	507	18	3	1883	3	GCC1	7	127224785	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	6318329	127224785	31913878	209	46565										
SND1	27044	broad.mit.edu	37	chr7	127727088	127727088	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gagtatgccttcgccttcatCcaggtgccccaagatgtgag	11	12	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:127727088C>T	uc003vmi.2	+	21	2629	c.2403C>T	c.(2401-2403)ATC>ATT	p.I801I	SND1_uc010lle.2_Silent_p.I454I	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	801					gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						TCGCCTTCATCCAGGTGCCCC	0.592													10	57	---	---	---	---	PASS	T	127727088	T	T	127727088	2	4	129	1	0	0	0	0	0	0	0	1	14844	845	30	2		2	SND1	7	127727088	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	502303	127727088	31411575	210	46566										
PLXNA4	91584	broad.mit.edu	37	chr7	132193188	132193188	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	acacttggggttgtcctcgtCcggccctgtctcatgcgtca	11	14	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:132193188C>G	uc003vra.3	-	2	494	c.265G>C	c.(265-267)GAC>CAC	p.D89H	PLXNA4_uc003vrc.2_Missense_Mutation_p.D89H|PLXNA4_uc003vrb.2_Missense_Mutation_p.D89H	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	89	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane		p.D89Y(1)		ovary(1)	1						TTGTCCTCGTCCGGCCCTGTC	0.552													8	97	---	---	---	---	PASS	G	132193188	G	G	132193188	3	3	129	1	0	0	0	0	1	0	0	0	12122	855	30	2	5857	2	PLXNA4	7	132193188	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	4466100	132193188	26945475	211	46567										
LRGUK	136332	broad.mit.edu	37	chr7	133812405	133812405	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gagtcctcagagtccgaaatGctgaatttggaggtgtgtct	13	7	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:133812405G>T	uc003vrm.1	+	1	301	c.285G>T	c.(283-285)ATG>ATT	p.M95I		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	95							ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						AGTCCGAAATGCTGAATTTGG	0.642													11	51	---	---	---	---	PASS	T	133812405	T	T	133812405	3	4	129	1	0	0	0	0	1	0	0	0	8943	1319	46	3	287	3	LRGUK	7	133812405	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1619217	133812405	25326258	212	46568										
TMEM140	55281	broad.mit.edu	37	chr7	134849576	134849576	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgtgtcctctgtgctgctggCaggcggcctgggcctcttcc	14	14	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:134849576C>T	uc003vsi.2	+	2	664	c.383C>T	c.(382-384)GCA>GTA	p.A128V	C7orf49_uc003vsh.2_Intron	NM_018295	NP_060765	Q9NV12	TM140_HUMAN	transmembrane protein 140	128	Helical; (Potential).					integral to membrane				large_intestine(1)	1						GTGCTGCTGGCAGGCGGCCTG	0.652													8	46	---	---	---	---	PASS	T	134849576	T	T	134849576	3	4	129	1	0	0	0	0	1	0	0	0	16052	710	25	3	385	3	TMEM140	7	134849576	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1037171	134849576	24289087	213	46569										
OR6V1	346517	broad.mit.edu	37	chr7	142749826	142749826	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	catctgccacccactgcgctAtggcactctgatgagccggg	11	15	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:142749826A>T	uc011ksv.1	+	1	389	c.389A>T	c.(388-390)TAT>TTT	p.Y130F		NM_001001667	NP_001001667	Q8N148	OR6V1_HUMAN	olfactory receptor, family 6, subfamily V,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.059)					CCACTGCGCTATGGCACTCTG	0.592													38	172	---	---	---	---	PASS	T	142749826	T	T	142749826	3	4	129	1	0	0	0	0	1	0	0	0	11211	449	16	5	391	5	OR6V1	7	142749826	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	7900250	142749826	16388837	214	46570										
ZNF425	155054	broad.mit.edu	37	chr7	148802388	148802388	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agactttcctacagacatagCaggaatagcatcttggccct	8	11	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:148802388C>A	uc003wfj.2	-	4	648	c.575G>T	c.(574-576)TGC>TTC	p.C192F		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	192	C2H2-type 1.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			ACAGACATAGCAGGAATAGCA	0.498													16	120	---	---	---	---	PASS	A	148802388	A	A	148802388	3	1	129	1	0	0	0	0	1	0	0	0	17896	710	25	3	1687	3	ZNF425	7	148802388	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	6052562	148802388	10336275	215	46571										
NCAPG2	54892	broad.mit.edu	37	chr7	158455040	158455040	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgcatgcaacatcgtttactGacagtgttttgtccagaacc	8	10	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr7:158455040G>A	uc003wnv.1	-	16	1980	c.1835C>T	c.(1834-1836)TCA>TTA	p.S612L	NCAPG2_uc010lqu.1_Missense_Mutation_p.S404L|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.S612L|NCAPG2_uc011kwe.1_Missense_Mutation_p.S612L|NCAPG2_uc011kwc.1_Missense_Mutation_p.S113L|NCAPG2_uc011kwd.1_Intron	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	612					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		ATCGTTTACTGACAGTGTTTT	0.338													16	114	---	---	---	---	PASS	A	158455040	A	A	158455040	3	1	129	1	0	0	0	0	1	0	0	0	10208	1294	45	2	1648	2	NCAPG2	7	158455040	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	9652652	158455040	683623	216	46572										
MFHAS1	9258	broad.mit.edu	37	chr8	8750069	8750069	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcaggtgcgccagccggttaAagctgacatccagctcctcc	11	15	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:8750069A>G	uc003wsj.1	-	1	1063	c.500T>C	c.(499-501)TTT>TCT	p.F167S		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	167	LRR 5.										0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		CAGCCGGTTAAAGCTGACATC	0.677													3	15	---	---	---	---	PASS	G	8750069	G	G	8750069	3	3	129	1	0	0	0	0	1	0	0	0	9521	14	1	5	2670	5	MFHAS1	8	8750069	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08		8750069	137613953	217	46573										
MTMR9	66036	broad.mit.edu	37	chr8	11167123	11167123	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gaccgatggctcagtaaattGgaggcctctaactggctgac	12	10	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:11167123G>A	uc003wtm.2	+	6	1295	c.897G>A	c.(895-897)TTG>TTA	p.L299L	MTMR9_uc010lrx.2_Silent_p.L192L|MTMR9_uc011kxa.1_Silent_p.L214L	NM_015458	NP_056273	Q96QG7	MTMR9_HUMAN	myotubularin related protein 9	299	Myotubularin phosphatase.					cytoplasm	phosphatase activity|protein binding				0			STAD - Stomach adenocarcinoma(15;0.215)	COAD - Colon adenocarcinoma(149;0.0678)		TCAGTAAATTGGAGGCCTCTA	0.443													14	90	---	---	---	---	PASS	A	11167123	A	A	11167123	2	1	129	1	0	0	0	0	0	0	0	1	9950	1339	47	3		3	MTMR9	8	11167123	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	2417054	11167123	135196899	218	46574										
ADAM2	2515	broad.mit.edu	37	chr8	39606913	39606913	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	catagatctgattgaactgaGcaatctggaggtaaatatga	10	5	2	5			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:39606913G>T	uc003xnj.2	-	18	2007	c.1932C>A	c.(1930-1932)TGC>TGA	p.C644*	ADAM2_uc003xnk.2_Nonsense_Mutation_p.C625*|ADAM2_uc011lck.1_Nonsense_Mutation_p.C581*|ADAM2_uc003xnl.2_Nonsense_Mutation_p.C488*	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	644	Extracellular (Potential).|EGF-like.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		ATTGAACTGAGCAATCTGGAG	0.383													10	187	---	---	---	---	PASS	T	39606913	T	T	39606913	4	4	129	1	0	0	0	0	0	1	0	0	241	963	34	3	287	3	ADAM2	8	39606913	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	28439790	39606913	106757109	219	46575										
MYST3	7994	broad.mit.edu	37	chr8	41798770	41798770	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atctttatcaccaaaacgttCctgggtttttctgttcttcc	5	11	4	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:41798770C>A	uc010lxb.2	-	16	3173	c.2629G>T	c.(2629-2631)GAA>TAA	p.E877*	MYST3_uc010lxc.2_Nonsense_Mutation_p.E877*|MYST3_uc003xon.3_Nonsense_Mutation_p.E877*	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	877					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			CCAAAACGTTCCTGGGTTTTT	0.483													13	108	---	---	---	---	PASS	A	41798770	A	A	41798770	4	1	129	1	0	0	0	0	0	1	0	0	10104	864	30	2	3397	2	MYST3	8	41798770	Nonsense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2191857	41798770	104565252	220	46576										
POTEA	340441	broad.mit.edu	37	chr8	43152602	43152602	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gacattgaatcaaaaaacaaGgtacagatctaccaatttta	5	7	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:43152602G>T	uc003xpz.1	+	3	631	c.588G>T	c.(586-588)AAG>AAT	p.K196N	POTEA_uc003xqa.1_Missense_Mutation_p.K196N	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	196										ovary(1)	1						CAAAAAACAAGGTACAGATCT	0.338													6	93	---	---	---	---	PASS	T	43152602	T	T	43152602	3	4	129	1	0	0	0	0	1	0	0	0	12261	1014	35	3	598	3	POTEA	8	43152602	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1353832	43152602	103211420	221	46577										
PXDNL	137902	broad.mit.edu	37	chr8	52321575	52321575	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcgcagagggacggccgctgGcacacgcggggctggagcgc	19	13	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:52321575G>C	uc003xqu.3	-	17	2710	c.2609C>G	c.(2608-2610)GCC>GGC	p.A870G	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	870					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				ACGGCCGCTGGCACACGCGGG	0.647													3	36	---	---	---	---	PASS	C	52321575	C	C	52321575	3	2	129	1	0	0	0	0	1	0	0	0	12848	1203	42	4	1810	4	PXDNL	8	52321575	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	9168973	52321575	94042447	222	46578										
CLVS1	157807	broad.mit.edu	37	chr8	62212755	62212755	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggcattaagagggctctgatCgatgggttccccggggtgct	16	9	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:62212755C>G	uc003xuh.2	+	2	693	c.369C>G	c.(367-369)ATC>ATG	p.I123M	CLVS1_uc003xug.2_Missense_Mutation_p.I123M|CLVS1_uc003xui.2_Intron|CLVS1_uc010lyp.2_Missense_Mutation_p.I123M	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1	123	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						GGGCTCTGATCGATGGGTTCC	0.488													28	75	---	---	---	---	PASS	G	62212755	G	G	62212755	3	3	129	1	0	0	0	0	1	0	0	0	3571	874	31	2	371	2	CLVS1	8	62212755	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	9891180	62212755	84151267	223	46579										
PREX2	80243	broad.mit.edu	37	chr8	68968096	68968096	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggaatggagcaagatacctgGgtcatgatctctgaacaggg	14	7	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:68968096G>T	uc003xxv.1	+	10	1152	c.1125G>T	c.(1123-1125)TGG>TGT	p.W375C	PREX2_uc003xxu.1_Missense_Mutation_p.W375C|PREX2_uc011lez.1_Missense_Mutation_p.W310C	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	375					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						AAGATACCTGGGTCATGATCT	0.353													57	109	---	---	---	---	PASS	T	68968096	T	T	68968096	3	4	129	1	0	0	0	0	1	0	0	0	12477	1241	43	3	1163	3	PREX2	8	68968096	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	6755341	68968096	77395926	224	46580										
ZFHX4	79776	broad.mit.edu	37	chr8	77618685	77618685	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	acctccgaattcatatgaccAgcgaaaagcacatgcataat	6	11	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:77618685A>T	uc003yav.2	+	2	2749	c.2362A>T	c.(2362-2364)AGC>TGC	p.S788C	ZFHX4_uc003yat.1_Missense_Mutation_p.S788C|ZFHX4_uc003yau.1_Missense_Mutation_p.S788C|ZFHX4_uc003yaw.1_Missense_Mutation_p.S788C	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	788	C2H2-type 4; degenerate.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCATATGACCAGCGAAAAGCA	0.493										HNSCC(33;0.089)			3	35	---	---	---	---	PASS	T	77618685	T	T	77618685	3	4	129	1	0	0	0	0	1	0	0	0	17632	188	7	5	2364	5	ZFHX4	8	77618685	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	8650589	77618685	68745337	225	46581										
DPY19L4	286148	broad.mit.edu	37	chr8	95751682	95751682	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ataacaaaactgtatctctgAagactataaatgcagtgcag	7	7	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:95751682A>T	uc003ygx.2	+	5	509	c.385A>T	c.(385-387)AAG>TAG	p.K129*	DPY19L4_uc003ygy.2_Nonsense_Mutation_p.K66*	NM_181787	NP_861452	Q7Z388	D19L4_HUMAN	dpy-19-like 4	129						integral to membrane				ovary(2)	2	Breast(36;3.85e-06)					TGTATCTCTGAAGACTATAAA	0.348													59	130	---	---	---	---	PASS	T	95751682	T	T	95751682	4	4	129	1	0	0	0	0	0	1	0	0	4743	247	9	5	403	5	DPY19L4	8	95751682	Nonsense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	18132997	95751682	50612340	226	46582										
RIMS2	9699	broad.mit.edu	37	chr8	104898074	104898074	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttattcaatggaaagaactcGagaggctcagggaccaagtt	11	7	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:104898074G>T	uc003yls.2	+	2	822	c.581G>T	c.(580-582)CGA>CTA	p.R194L	RIMS2_uc003ylp.2_Missense_Mutation_p.R416L|RIMS2_uc003ylw.2_Missense_Mutation_p.R224L|RIMS2_uc003ylq.2_Missense_Mutation_p.R224L|RIMS2_uc003ylr.2_Missense_Mutation_p.R224L	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	447					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GAAAGAACTCGAGAGGCTCAG	0.463										HNSCC(12;0.0054)			30	84	---	---	---	---	PASS	T	104898074	T	T	104898074	3	4	129	1	0	0	0	0	1	0	0	0	13368	1058	37	2	1387	2	RIMS2	8	104898074	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	9146392	104898074	41465948	227	46583										
PKHD1L1	93035	broad.mit.edu	37	chr8	110477264	110477264	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tggttctcccatttagtgaaGgcttgactgtctcttctgtg	10	9	3	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:110477264G>T	uc003yne.2	+	49	8307	c.8203G>T	c.(8203-8205)GGC>TGC	p.G2735C		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2735	Extracellular (Potential).|PbH1 4.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ATTTAGTGAAGGCTTGACTGT	0.458										HNSCC(38;0.096)			61	196	---	---	---	---	PASS	T	110477264	T	T	110477264	3	4	129	1	0	0	0	0	1	0	0	0	11972	1000	35	3	8397	3	PKHD1L1	8	110477264	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	5579190	110477264	35886758	228	46584										
CSMD3	114788	broad.mit.edu	37	chr8	113323290	113323290	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cactgctttttccaacaagtCggaatcctcgatcacaggcc	7	14	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:113323290C>T	uc003ynu.2	-	50	7961	c.7802G>A	c.(7801-7803)CGA>CAA	p.R2601Q	CSMD3_uc003yns.2_Missense_Mutation_p.R1803Q|CSMD3_uc003ynt.2_Missense_Mutation_p.R2561Q|CSMD3_uc011lhx.1_Missense_Mutation_p.R2497Q|CSMD3_uc003ynw.1_Missense_Mutation_p.R312Q	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2601	Extracellular (Potential).|Sushi 14.					integral to membrane|plasma membrane		p.R2601L(1)		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						TCCAACAAGTCGGAATCCTCG	0.493										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			8	154	---	---	---	---	PASS	T	113323290	T	T	113323290	3	4	129	1	0	0	0	0	1	0	0	0	3946	884	31	2	3409	2	CSMD3	8	113323290	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2846026	113323290	33040732	229	46585										
C8orf76	84933	broad.mit.edu	37	chr8	124253547	124253547	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cctctcctcgaacaccgagtCctcgaactcgccgccgaaca	7	19	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:124253547C>G	uc003yqc.1	-	1	71	c.40G>C	c.(40-42)GAC>CAC	p.D14H	C8orf76_uc003yqd.2_Intron	NM_032847	NP_116236	Q96K31	CH076_HUMAN	hypothetical protein LOC84933	14							binding			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			AACACCGAGTCCTCGAACTCG	0.711													3	28	---	---	---	---	PASS	G	124253547	G	G	124253547	3	3	129	1	0	0	0	0	1	0	0	0	2437	855	30	2	1126	2	C8orf76	8	124253547	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	10930257	124253547	22110475	230	46586										
OC90	729330	broad.mit.edu	37	chr8	133044247	133044247	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atctctccaagctgtggcatCacctgcatgttgtccccact	7	15	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:133044247C>T	uc003ytg.2	-	11	912	c.912G>A	c.(910-912)GTG>GTA	p.V304V	OC90_uc011lix.1_Silent_p.V304V	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	320					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GCTGTGGCATCACCTGCATGT	0.537													8	181	---	---	---	---	PASS	T	133044247	T	T	133044247	2	4	129	1	0	0	0	0	0	0	0	1	10814	813	29	2		2	OC90	8	133044247	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	8790700	133044247	13319775	231	46587										
COL22A1	169044	broad.mit.edu	37	chr8	139601598	139601598	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccgggaggtcctgggaggccAggatgtccagctggtcctgt	17	11	0	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:139601598A>T	uc003yvd.2	-	65	5226	c.4779T>A	c.(4777-4779)CCT>CCA	p.P1593P	COL22A1_uc011ljo.1_Silent_p.P873P	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1593	Pro-rich.|Gly-rich.|Collagen-like 16.				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)			CTGGGAGGCCAGGATGTCCAG	0.637										HNSCC(7;0.00092)			5	47	---	---	---	---	PASS	T	139601598	T	T	139601598	2	4	129	1	0	0	0	0	0	0	0	1	3681	175	7	5		5	COL22A1	8	139601598	Silent	SNP	A	TCGA-60-2720-01A-01D-1522-08	6557351	139601598	6762424	232	46588										
COL22A1	169044	broad.mit.edu	37	chr8	139610962	139610962	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agccatattagcatccttacCctcagtcctggaaatcccgg	7	14	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:139610962C>A	uc003yvd.2	-	61	4812	c.4365G>T	c.(4363-4365)AGG>AGT	p.R1455S	COL22A1_uc011ljo.1_Missense_Mutation_p.R735S	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1455	Pro-rich.|Gly-rich.				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)			GCATCCTTACCCTCAGTCCTG	0.493										HNSCC(7;0.00092)			4	162	---	---	---	---	PASS	A	139610962	A	A	139610962	3	1	129	1	0	0	0	0	1	0	0	0	3681	637	22	3	535	3	COL22A1	8	139610962	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	9364	139610962	6753060	233	46589										
COL22A1	169044	broad.mit.edu	37	chr8	139629157	139629157	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aaagtgaggcgcccacttacCcggggaccgggtgcaccaga	14	13	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:139629157C>T	uc003yvd.2	-	54	4317	c.3870G>A	c.(3868-3870)CGG>CGA	p.R1290R	COL22A1_uc011ljo.1_Silent_p.R570R	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1290	Pro-rich.|Gly-rich.|Collagen-like 12.				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)			GCCCACTTACCCGGGGACCGG	0.572										HNSCC(7;0.00092)			40	81	---	---	---	---	PASS	T	139629157	T	T	139629157	2	4	129	1	0	0	0	0	0	0	0	1	3681	637	22	3		3	COL22A1	8	139629157	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	18195	139629157	6734865	234	46590										
TRAPPC9	83696	broad.mit.edu	37	chr8	141370151	141370151	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tggtttgagctcactcacccTgatccgacaagaagtccagc	9	13	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:141370151T>C	uc003yvj.2	-	9	1627	c.1493A>G	c.(1492-1494)CAG>CGG	p.Q498R	TRAPPC9_uc003yvh.2_Missense_Mutation_p.Q596R|TRAPPC9_uc003yvi.1_Missense_Mutation_p.Q489R	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	498					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						TCACTCACCCTGATCCGACAA	0.498													55	84	---	---	---	---	PASS	C	141370151	C	C	141370151	3	2	129	1	0	0	0	0	1	0	0	0	16462	1580	55	5	2013	5	TRAPPC9	8	141370151	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	1740994	141370151	4993871	235	46591										
CYC1	1537	broad.mit.edu	37	chr8	145151528	145151528	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttctccctgctcacgggctActgcgagccacccaccgggg	11	18	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:145151528A>T	uc003zaz.3	+	5	696	c.653A>T	c.(652-654)TAC>TTC	p.Y218F	CYC1_uc003zay.2_Missense_Mutation_p.Y159F	NM_001916	NP_001907	P08574	CY1_HUMAN	cytochrome c-1	218					respiratory electron transport chain|transport	cell junction|integral to membrane|mitochondrial inner membrane|respiratory chain	electron transporter, transferring electrons from CoQH2-cytochrome c reductase complex and cytochrome c oxidase complex activity|heme binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;8.71e-40)|all cancers(56;3e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CTCACGGGCTACTGCGAGCCA	0.587											OREG0019052	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	152	---	---	---	---	PASS	T	145151528	T	T	145151528	3	4	129	1	0	0	0	0	1	0	0	0	4135	391	14	5	671	5	CYC1	8	145151528	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	3781377	145151528	1212494	236	46592										
KIFC2	90990	broad.mit.edu	37	chr8	145698044	145698044	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gctcgcatgccctggtcacgCtgacgctgcgcgcggcgtct	14	16	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr8:145698044C>T	uc003zcz.2	+	16	1881	c.1816C>T	c.(1816-1818)CTG>TTG	p.L606L	KIFC2_uc003zda.2_5'UTR	NM_145754	NP_665697	Q96AC6	KIFC2_HUMAN	kinesin family member C2	606	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CCTGGTCACGCTGACGCTGCG	0.731													13	29	---	---	---	---	PASS	T	145698044	T	T	145698044	2	4	129	1	0	0	0	0	0	0	0	1	8313	796	28	3		3	KIFC2	8	145698044	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	546516	145698044	665978	237	46593										
IFNB1	3456	broad.mit.edu	37	chr9	21077471	21077471	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgctcatgagttttcccctgGtgaaatcttctttctccagt	7	11	4	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr9:21077471G>A	uc003zok.2	-	1	473	c.398C>T	c.(397-399)ACC>ATC	p.T133I		NM_002176	NP_002167	P01574	IFNB_HUMAN	interferon, beta 1, fibroblast precursor	133					activation of caspase activity|B cell proliferation|blood coagulation|cellular response to exogenous dsRNA|defense response to virus|induction of apoptosis|natural killer cell activation|negative regulation of cell proliferation|negative regulation of T cell differentiation|negative regulation of T-helper 2 cell cytokine production|negative regulation of viral genome replication|negative regulation of viral transcription|negative regulation of virion penetration into host cell|positive regulation of innate immune response|positive regulation of transcription from RNA polymerase II promoter|regulation of MHC class I biosynthetic process|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding|transcription corepressor activity			ovary(1)|breast(1)|kidney(1)	3				GBM - Glioblastoma multiforme(5;7.45e-142)|Lung(24;2.42e-17)|LUSC - Lung squamous cell carcinoma(38;7.17e-11)	Interferon beta-1a(DB00060)|Interferon beta-1b(DB00068)	TTTTCCCCTGGTGAAATCTTC	0.438													57	301	---	---	---	---	PASS	A	21077471	A	A	21077471	3	1	129	1	0	0	0	0	1	0	0	0	7546	1261	44	3	169	3	IFNB1	9	21077471	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08		21077471	120135960	238	46594										
FXN	2395	broad.mit.edu	37	chr9	71687670	71687670	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccttggcctattccggaaaaGatgcttgatgcccagccccg	10	14	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr9:71687670G>C	uc004aha.2	+	5	845	c.625G>C	c.(625-627)GAT>CAT	p.D209H	FXN_uc011lrr.1_Intron|FXN_uc004agz.2_3'UTR	NM_000144	NP_000135	Q16595	FRDA_HUMAN	frataxin isoform 1 preproprotein	209					cellular iron ion homeostasis|cellular response to hydrogen peroxide|heme biosynthetic process|ion transport|iron incorporation into metallo-sulfur cluster|negative regulation of apoptosis|negative regulation of release of cytochrome c from mitochondria|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity|protein autoprocessing|regulation of ferrochelatase activity|response to iron ion	cytosol|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferric iron binding|ferrous iron binding|ferroxidase activity|iron chaperone activity|protein binding				0						TTCCGGAAAAGATGCTTGATG	0.473													12	76	---	---	---	---	PASS	C	71687670	C	C	71687670	3	2	129	1	0	0	0	0	1	0	0	0	6114	942	33	2	651	2	FXN	9	71687670	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	50610199	71687670	69525761	239	46595										
KIF27	55582	broad.mit.edu	37	chr9	86498736	86498736	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tttttaaattacctgaactcTcagctttgcagcatccatct	4	11	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr9:86498736T>C	uc004ana.2	-	10	2581	c.2437A>G	c.(2437-2439)AGA>GGA	p.R813G	KIF27_uc010mpw.2_Missense_Mutation_p.R813G|KIF27_uc010mpx.2_Missense_Mutation_p.R813G	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	813	Potential.				cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						ACCTGAACTCTCAGCTTTGCA	0.348													22	86	---	---	---	---	PASS	C	86498736	C	C	86498736	3	2	129	1	0	0	0	0	1	0	0	0	8296	1559	54	5	1804	5	KIF27	9	86498736	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	14811066	86498736	54714695	240	46596										
EPB41L4B	54566	broad.mit.edu	37	chr9	111979247	111979247	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tggggacctcagaggcccctCtttgttctccagggtcagtg	13	12	4	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr9:111979247C>G	uc004bdz.1	-	16	1883	c.1588G>C	c.(1588-1590)GAG>CAG	p.E530Q		NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	530						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						AGAGGCCCCTCTTTGTTCTCC	0.463													36	153	---	---	---	---	PASS	G	111979247	G	G	111979247	3	3	129	1	0	0	0	0	1	0	0	0	5156	922	32	2	1158	2	EPB41L4B	9	111979247	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	25480511	111979247	29234184	241	46597										
PAPPA	5069	broad.mit.edu	37	chr9	119115100	119115100	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aatgcagacctccagaccgcCcggtgccgagagaataagca	11	13	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr9:119115100C>A	uc004bjn.2	+	16	4461	c.4080C>A	c.(4078-4080)GCC>GCA	p.A1360A	PAPPA_uc011lxq.1_Silent_p.A735A	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1360	Sushi 3.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						TCCAGACCGCCCGGTGCCGAG	0.572													12	83	---	---	---	---	PASS	A	119115100	A	A	119115100	2	1	129	1	0	0	0	0	0	0	0	1	11432	610	22	3		3	PAPPA	9	119115100	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	7135853	119115100	22098331	242	46598										
SETX	23064	broad.mit.edu	37	chr9	135224757	135224757	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	acggagtgttggaagcatagCgctttaggaagtcaatggtg	15	5	1	0	rs79740039	byFrequency	TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr9:135224757C>A	uc004cbk.2	-	3	242	c.59G>T	c.(58-60)CGC>CTC	p.R20L		NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	20					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		GGAAGCATAGCGCTTTAGGAA	0.483													17	64	---	---	---	---	PASS	A	135224757	A	A	135224757	3	1	129	1	0	0	0	0	1	0	0	0	14141	768	27	1	8070	1	SETX	9	135224757	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	16109657	135224757	5988674	243	46599										
ABCA2	20	broad.mit.edu	37	chr9	139905173	139905173	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atcatcctccacaggcttggTagacacaggcatgcgccttg	10	13	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr9:139905173T>A	uc011mem.1	-	39	6218	c.6070A>T	c.(6070-6072)ACC>TCC	p.T2024S	ABCA2_uc011mel.1_Missense_Mutation_p.T2025S|ABCA2_uc004ckl.1_Missense_Mutation_p.T1955S|ABCA2_uc004ckm.1_Missense_Mutation_p.T2055S	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	2024					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		ACAGGCTTGGTAGACACAGGC	0.632													18	59	---	---	---	---	PASS	A	139905173	A	A	139905173	3	1	129	1	0	0	0	0	1	0	0	0	32	1638	57	5	1277	5	ABCA2	9	139905173	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	4680416	139905173	1308258	244	46600										
EXD3	54932	broad.mit.edu	37	chr9	140246640	140246640	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttcacctccagcctcgagtCagcctcagtcgccctgggag	10	17	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr9:140246640C>G	uc004cmp.2	-	12	1247	c.1051G>C	c.(1051-1053)GAC>CAC	p.D351H	C9orf167_uc011mew.1_Intron|EXD3_uc010ncf.1_Missense_Mutation_p.D31H|EXD3_uc004cmq.1_RNA	NM_017820	NP_060290	Q8N9H8	MUT7_HUMAN	exonuclease 3'-5' domain containing 3	351					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						AGCCTCGAGTCAGCCTCAGTC	0.647													16	94	---	---	---	---	PASS	G	140246640	G	G	140246640	3	3	129	1	0	0	0	0	1	0	0	0	5299	826	29	2	1623	2	EXD3	9	140246640	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	341467	140246640	966791	245	46601										
GDF2	2658	broad.mit.edu	37	chr10	48413671	48413671	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttgtagaggacggagatgggGctcagtttggtgggcacaca	17	6	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:48413671G>T	uc001jfa.1	-	2	1360	c.1197C>A	c.(1195-1197)AGC>AGA	p.S399R		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	399					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						CGGAGATGGGGCTCAGTTTGG	0.582													5	47	---	---	---	---	PASS	T	48413671	T	T	48413671	3	4	129	1	0	0	0	0	1	0	0	0	6314	1194	42	3	96	3	GDF2	10	48413671	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08		48413671	87121076	246	46602										
ASAH2	56624	broad.mit.edu	37	chr10	52008313	52008313	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggccactgtgatggcactcaTcattacaaggaggaaaatca	10	9	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:52008313T>A	uc001jjd.2	-	1	58	c.58A>T	c.(58-60)ATG>TTG	p.M20L	ASAH2_uc009xos.2_Missense_Mutation_p.M20L	NM_019893	NP_063946	Q9NR71	ASAH2_HUMAN	N-acylsphingosine amidohydrolase 2 isoform a	20	Helical; Signal-anchor for type II membrane protein; (Potential).				apoptosis|ceramide metabolic process|signal transduction	integral to membrane|mitochondrion|plasma membrane	ceramidase activity				0						ATGGCACTCATCATTACAAGG	0.448													16	117	---	---	---	---	PASS	A	52008313	A	A	52008313	3	1	129	1	0	0	0	0	1	0	0	0	1007	1435	50	5	2364	5	ASAH2	10	52008313	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	3594642	52008313	83526434	247	46603										
PCDH15	65217	broad.mit.edu	37	chr10	55782810	55782810	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tactgctccatctgttgccaCaacaacaagttcatagtagt	6	11	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:55782810C>A	uc001jju.1	-	19	2763	c.2368G>T	c.(2368-2370)GTG>TTG	p.V790L	PCDH15_uc010qhq.1_Missense_Mutation_p.V795L|PCDH15_uc010qhr.1_Missense_Mutation_p.V790L|PCDH15_uc010qhs.1_Missense_Mutation_p.V802L|PCDH15_uc010qht.1_Missense_Mutation_p.V797L|PCDH15_uc010qhu.1_Missense_Mutation_p.V790L|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.V790L|PCDH15_uc010qhw.1_Missense_Mutation_p.V753L|PCDH15_uc010qhx.1_Missense_Mutation_p.V719L|PCDH15_uc010qhy.1_Missense_Mutation_p.V795L|PCDH15_uc010qhz.1_Missense_Mutation_p.V790L|PCDH15_uc010qia.1_Missense_Mutation_p.V768L|PCDH15_uc010qib.1_Missense_Mutation_p.V768L|PCDH15_uc001jjw.2_Missense_Mutation_p.V790L	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	790	Extracellular (Potential).|Cadherin 7.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TCTGTTGCCACAACAACAAGT	0.418										HNSCC(58;0.16)			23	151	---	---	---	---	PASS	A	55782810	A	A	55782810	3	1	129	1	0	0	0	0	1	0	0	0	11511	478	17	3	5178	3	PCDH15	10	55782810	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	3774497	55782810	79751937	248	46604										
ZNF365	22891	broad.mit.edu	37	chr10	64415325	64415325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	acgttgtgctgaatacacttGcagagtcgtgctgtggtctc	12	9	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:64415325G>T	uc001jmd.1	+	4	659	c.325G>T	c.(325-327)GCA>TCA	p.A109S	ZNF365_uc001jmc.2_Intron|ZNF365_uc001jme.1_Intron|ZNF365_uc001jmf.1_Intron|ZNF365_uc009xpg.1_Intron	NM_199452	NP_955524	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform D	109										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GAATACACTTGCAGAGTCGTG	0.507													22	98	---	---	---	---	PASS	T	64415325	T	T	64415325	3	4	129	1	0	0	0	0	1	0	0	0	17866	1319	46	3	1813	3	ZNF365	10	64415325	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	8632515	64415325	71119422	249	46605										
SEC24C	9632	broad.mit.edu	37	chr10	75519797	75519797	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cccaccaacatcgctggcttCagcctcaggaagtttcccta	7	16	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:75519797C>T	uc001juw.2	+	6	682	c.503C>T	c.(502-504)TCA>TTA	p.S168L	SEC24C_uc010qkn.1_RNA|SEC24C_uc009xrj.1_Missense_Mutation_p.S26L|SEC24C_uc001jux.2_Missense_Mutation_p.S168L|SEC24C_uc010qko.1_Missense_Mutation_p.S26L|SEC24C_uc010qkp.1_Intron|SEC24C_uc010qkq.1_Intron	NM_004922	NP_004913	P53992	SC24C_HUMAN	SEC24-related protein C	168					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|zinc ion binding			skin(2)|central_nervous_system(1)	3	Prostate(51;0.0112)					TCGCTGGCTTCAGCCTCAGGA	0.532													44	190	---	---	---	---	PASS	T	75519797	T	T	75519797	3	4	129	1	0	0	0	0	1	0	0	0	13996	838	29	2	517	2	SEC24C	10	75519797	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	11104472	75519797	60014950	250	46606										
GPR120	338557	broad.mit.edu	37	chr10	95326724	95326724	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcctggtactcaacctcttcTgcgcggacctgctcttcatc	8	16	5	0	rs150044710	by1000genomes	TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:95326724T>G	uc010qnt.1	+	1	303	c.247T>G	c.(247-249)TGC>GGC	p.C83G	GPR120_uc010qnu.1_Missense_Mutation_p.C83G	NM_181745	NP_859529	Q5NUL3	O3FA1_HUMAN	G protein-coupled receptor 120	83	Helical; Name=2; (Potential).				negative regulation of cytokine secretion|negative regulation of inflammatory response|regulation of glucose transport	integral to membrane|plasma membrane	fatty acid binding				0		Colorectal(252;0.122)				CAACCTCTTCTGCGCGGACCT	0.672													8	32	---	---	---	---	PASS	G	95326724	G	G	95326724	3	3	129	1	0	0	0	0	1	0	0	0	6636	1580	55	5	249	5	GPR120	10	95326724	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	19806927	95326724	40208023	251	46607										
ABCC2	1244	broad.mit.edu	37	chr10	101591877	101591877	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccacaggccggattgtgaacAggtttgccggcgtaagtatc	13	10	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:101591877A>T	uc001kqf.2	+	23	3386	c.3247A>T	c.(3247-3249)AGG>TGG	p.R1083W		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	1083	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GATTGTGAACAGGTTTGCCGG	0.443													29	112	---	---	---	---	PASS	T	101591877	T	T	101591877	3	4	129	1	0	0	0	0	1	0	0	0	53	179	7	5	3337	5	ABCC2	10	101591877	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	6265153	101591877	33942870	252	46608										
CPN1	1369	broad.mit.edu	37	chr10	101835705	101835705	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgtagccgtcggggttcatgGatggcaggatgtgaatgcgc	17	8	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:101835705G>A	uc001kql.2	-	2	643	c.383C>T	c.(382-384)TCC>TTC	p.S128F		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	128	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		GGGGTTCATGGATGGCAGGAT	0.582													15	78	---	---	---	---	PASS	A	101835705	A	A	101835705	3	1	129	1	0	0	0	0	1	0	0	0	3809	1174	41	2	1025	2	CPN1	10	101835705	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	243828	101835705	33699042	253	46609										
PPRC1	23082	broad.mit.edu	37	chr10	103898521	103898521	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtcaccccgggagggctcctCtgtgagtgtgggaccagggg	18	11	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:103898521C>G	uc001kum.2	+	3	527	c.488C>G	c.(487-489)TCT>TGT	p.S163C	PPRC1_uc001kun.2_Missense_Mutation_p.S43C|PPRC1_uc010qqj.1_Missense_Mutation_p.S163C|PPRC1_uc009xxa.2_5'Flank	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	163					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		GAGGGCTCCTCTGTGAGTGTG	0.507													19	138	---	---	---	---	PASS	G	103898521	G	G	103898521	3	3	129	1	0	0	0	0	1	0	0	0	12410	927	32	2	498	2	PPRC1	10	103898521	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2062816	103898521	31636226	254	46610										
ELOVL3	83401	broad.mit.edu	37	chr10	103987391	103987391	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tctgcttgccagggcaacctCattccccatagccctgatct	7	16	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:103987391C>G	uc001kut.2	+	2	273	c.110C>G	c.(109-111)TCA>TGA	p.S37*		NM_152310	NP_689523	Q9HB03	ELOV3_HUMAN	elongation of very long chain fatty acids like	37	Helical; (Potential).				fatty acid elongation, monounsaturated fatty acid|fatty acid elongation, polyunsaturated fatty acid|fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding			ovary(2)	2		Colorectal(252;0.207)		Epithelial(162;4.47e-08)|all cancers(201;7.96e-07)		AGGGCAACCTCATTCCCCATA	0.532													29	302	---	---	---	---	PASS	G	103987391	G	G	103987391	4	3	129	1	0	0	0	0	0	1	0	0	5075	838	29	2	116	2	ELOVL3	10	103987391	Nonsense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	88870	103987391	31547356	255	46611										
ELOVL3	83401	broad.mit.edu	37	chr10	103987488	103987488	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctgcaagggcctctcatcctCtggtccttctgccttgcaat	8	15	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:103987488C>G	uc001kut.2	+	2	370	c.207C>G	c.(205-207)CTC>CTG	p.L69L		NM_152310	NP_689523	Q9HB03	ELOV3_HUMAN	elongation of very long chain fatty acids like	69	Helical; (Potential).				fatty acid elongation, monounsaturated fatty acid|fatty acid elongation, polyunsaturated fatty acid|fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding			ovary(2)	2		Colorectal(252;0.207)		Epithelial(162;4.47e-08)|all cancers(201;7.96e-07)		CTCTCATCCTCTGGTCCTTCT	0.527													29	237	---	---	---	---	PASS	G	103987488	G	G	103987488	2	3	129	1	0	0	0	0	0	0	0	1	5075	900	32	2		2	ELOVL3	10	103987488	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	97	103987488	31547259	256	46612										
INA	9118	broad.mit.edu	37	chr10	105037298	105037298	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgcttcgccgtgttcatcgaGaaggtgcatcagctggagac	13	11	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:105037298G>A	uc001kws.2	+	1	379	c.330G>A	c.(328-330)GAG>GAA	p.E110E	uc001kwr.2_5'Flank|INA_uc009xxj.2_Silent_p.E110E	NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	110	Coil 1A.|Rod.		E -> Q (in a breast cancer sample; somatic mutation).		cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton	p.E110Q(1)		ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		TGTTCATCGAGAAGGTGCATC	0.672													8	31	---	---	---	---	PASS	A	105037298	A	A	105037298	2	1	129	1	0	0	0	0	0	0	0	1	7730	933	33	2		2	INA	10	105037298	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	1049810	105037298	30497449	257	46613										
DMBT1	1755	broad.mit.edu	37	chr10	124402788	124402788	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agagcgtatgacccctcttcCcgctgctaccgaggctgtgt	11	14	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:124402788C>A	uc001lgk.1	+	53	7222	c.7116C>A	c.(7114-7116)TCC>TCA	p.S2372S	DMBT1_uc001lgl.1_Silent_p.S2362S|DMBT1_uc001lgm.1_Silent_p.S1744S|DMBT1_uc009xzz.1_Silent_p.S2371S|DMBT1_uc010qtx.1_Silent_p.S1092S|DMBT1_uc009yab.1_Silent_p.S1075S|DMBT1_uc009yac.1_Silent_p.S666S	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	2372	ZP.				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)				ACCCCTCTTCCCGCTGCTACC	0.607													38	166	---	---	---	---	PASS	A	124402788	A	A	124402788	2	1	129	1	0	0	0	0	0	0	0	1	4577	610	22	3		3	DMBT1	10	124402788	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	19365490	124402788	11131959	258	46614										
ZRANB1	54764	broad.mit.edu	37	chr10	126631520	126631520	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gaacactaggacacagcactGgacttgctctgtttgcacat	9	11	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr10:126631520G>A	uc001lic.2	+	1	829	c.458G>A	c.(457-459)TGG>TAG	p.W153*	ZRANB1_uc010qug.1_Nonsense_Mutation_p.W179*	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	153	RanBP2-type 3.				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)		ACACAGCACTGGACTTGCTCT	0.418													57	184	---	---	---	---	PASS	A	126631520	A	A	126631520	4	1	129	1	0	0	0	0	0	1	0	0	18219	1357	47	3	460	3	ZRANB1	10	126631520	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	2228732	126631520	8903227	259	46615										
HBE1	3046	broad.mit.edu	37	chr11	5291102	5291102	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agtgacggcagccttctcctCagcagtaaaatgcaccatga	9	12	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:5291102C>T	uc001mal.1	-	1	272	c.19G>A	c.(19-21)GAG>AAG	p.E7K	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Missense_Mutation_p.E7K	NM_005330	NP_005321	P02100	HBE_HUMAN	epsilon globin	7					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.34e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCCTTCTCCTCAGCAGTAAAA	0.527													7	46	---	---	---	---	PASS	T	5291102	T	T	5291102	3	4	129	1	0	0	0	0	1	0	0	0	6980	835	29	2	436	2	HBE1	11	5291102	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08		5291102	129715414	260	46616										
OR52E4	390081	broad.mit.edu	37	chr11	5905882	5905882	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	actgttctgttggtggtcatGgcttatgaccgctttgttgc	12	8	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:5905882G>T	uc010qzs.1	+	1	360	c.360G>T	c.(358-360)ATG>ATT	p.M120I	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	120	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGGTGGTCATGGCTTATGACC	0.458													37	133	---	---	---	---	PASS	T	5905882	T	T	5905882	3	4	129	1	0	0	0	0	1	0	0	0	11116	1348	47	3	362	3	OR52E4	11	5905882	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	614780	5905882	129100634	261	46617										
RRP8	23378	broad.mit.edu	37	chr11	6622567	6622567	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgggccccatccagccgctgTgccatgcgggctcgcaaagc	13	17	0	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:6622567T>A	uc001med.2	-	3	808	c.729A>T	c.(727-729)GCA>GCT	p.A243A	ILK_uc001mee.2_5'Flank|ILK_uc001mef.2_5'Flank|ILK_uc010rap.1_5'Flank|ILK_uc010raq.1_5'Flank|ILK_uc001meg.2_5'Flank|ILK_uc001meh.2_5'Flank	NM_015324	NP_056139	O43159	RRP8_HUMAN	ribosomal RNA processing 8, methyltransferase,	243					chromatin modification|chromatin silencing at rDNA|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	methylated histone residue binding|S-adenosylmethionine-dependent methyltransferase activity				0						CCAGCCGCTGTGCCATGCGGG	0.622													5	26	---	---	---	---	PASS	A	6622567	A	A	6622567	2	1	129	1	0	0	0	0	0	0	0	1	13690	1683	59	5		5	RRP8	11	6622567	Silent	SNP	T	TCGA-60-2720-01A-01D-1522-08	716685	6622567	128383949	262	46618										
AMPD3	272	broad.mit.edu	37	chr11	10514974	10514974	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcaagcacacataccagacgGagcctgacaggactgtggca	11	12	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:10514974G>C	uc001mio.1	+	7	1353	c.1018G>C	c.(1018-1020)GAG>CAG	p.E340Q	AMPD3_uc010rbz.1_Missense_Mutation_p.E181Q|AMPD3_uc001min.1_Missense_Mutation_p.E349Q|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.E347Q|AMPD3_uc009yfy.2_Missense_Mutation_p.E340Q	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	340					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		ATACCAGACGGAGCCTGACAG	0.607													27	115	---	---	---	---	PASS	C	10514974	C	C	10514974	3	2	129	1	0	0	0	0	1	0	0	0	587	1175	41	2	1091	2	AMPD3	11	10514974	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3892407	10514974	124491542	263	46619										
MYOD1	4654	broad.mit.edu	37	chr11	17741680	17741680	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgcaaggccgccaccatgcgCgagcggcgccgcctgagcaa	14	17	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:17741680C>A	uc001mni.2	+	1	571	c.351C>A	c.(349-351)CGC>CGA	p.R117R		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	117	Basic motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						CCACCATGCGCGAGCGGCGCC	0.662													7	14	---	---	---	---	PASS	A	17741680	A	A	17741680	2	1	129	1	0	0	0	0	0	0	0	1	10088	755	27	1		1	MYOD1	11	17741680	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	7226706	17741680	117264836	264	46620										
NELL1	4745	broad.mit.edu	37	chr11	21592335	21592335	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caagatattctgccgacggaCagcttgtgattgccagaatc	10	10	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:21592335C>G	uc001mqe.2	+	18	2159	c.2006C>G	c.(2005-2007)ACA>AGA	p.T669R	NELL1_uc001mqf.2_Missense_Mutation_p.T622R|NELL1_uc009yid.2_Missense_Mutation_p.T697R|NELL1_uc010rdo.1_Missense_Mutation_p.T612R|NELL1_uc010rdp.1_Missense_Mutation_p.T382R|NELL1_uc001mqh.2_Missense_Mutation_p.T214R	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	669	VWFC 3.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						TGCCGACGGACAGCTTGTGAT	0.428													26	130	---	---	---	---	PASS	G	21592335	G	G	21592335	3	3	129	1	0	0	0	0	1	0	0	0	10333	478	17	4	2076	4	NELL1	11	21592335	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	3850655	21592335	113414181	265	46621										
ANO3	63982	broad.mit.edu	37	chr11	26677983	26677983	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tatgagtttactttacaataCtggcatatccttgctgctag	7	8	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:26677983C>A	uc001mqt.3	+	26	2863	c.2718C>A	c.(2716-2718)TAC>TAA	p.Y906*	ANO3_uc010rdr.1_Nonsense_Mutation_p.Y890*|ANO3_uc010rds.1_Nonsense_Mutation_p.Y745*|ANO3_uc010rdt.1_Nonsense_Mutation_p.Y760*	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	906	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CTTTACAATACTGGCATATCC	0.378													38	179	---	---	---	---	PASS	A	26677983	A	A	26677983	4	1	129	1	0	0	0	0	0	1	0	0	698	576	20	3	2820	3	ANO3	11	26677983	Nonsense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	5085648	26677983	108328533	266	46622										
DCDC1	341019	broad.mit.edu	37	chr11	31329246	31329246	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tggatgctgatatagaacaaGaattgtttttactgtttgat	9	3	0	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:31329246G>A	uc001msv.2	-	4	576	c.374C>T	c.(373-375)TCT>TTT	p.S125F	DCDC1_uc001msu.1_5'UTR	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	125					intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					TATAGAACAAGAATTGTTTTT	0.393													54	343	---	---	---	---	PASS	A	31329246	A	A	31329246	3	1	129	1	0	0	0	0	1	0	0	0	4284	942	33	2	714	2	DCDC1	11	31329246	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	4651263	31329246	103677270	267	46623										
FOLH1	2346	broad.mit.edu	37	chr11	49168478	49168478	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgcatacttgttgtggctgcTtggagcatagatgacatgcc	12	8	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:49168478T>C	uc001ngy.2	-	19	2344	c.2083A>G	c.(2083-2085)AGC>GGC	p.S695G	FOLH1_uc001ngx.2_Silent_p.Q94Q|FOLH1_uc001ngz.2_Missense_Mutation_p.S664G|FOLH1_uc009yly.2_Missense_Mutation_p.S680G|FOLH1_uc009ylz.2_Missense_Mutation_p.S649G|FOLH1_uc009yma.2_Missense_Mutation_p.S387G	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	695	Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	TTGTGGCTGCTTGGAGCATAG	0.438													73	126	---	---	---	---	PASS	C	49168478	C	C	49168478	3	2	129	1	0	0	0	0	1	0	0	0	5979	1609	56	5	173	5	FOLH1	11	49168478	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	17839232	49168478	85838038	268	46624										
FOLH1	2346	broad.mit.edu	37	chr11	49178328	49178328	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aagtcgttggaagaacacctCaaaatcatttccagatccca	6	11	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:49178328C>G	uc001ngy.2	-	15	1825	c.1564G>C	c.(1564-1566)GAG>CAG	p.E522Q	FOLH1_uc001ngx.2_5'Flank|FOLH1_uc001ngz.2_Missense_Mutation_p.E522Q|FOLH1_uc009yly.2_Missense_Mutation_p.E507Q|FOLH1_uc009ylz.2_Missense_Mutation_p.E507Q|FOLH1_uc009yma.2_Missense_Mutation_p.E214Q	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	522	NAALADase.|Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	AAGAACACCTCAAAATCATTT	0.318													33	184	---	---	---	---	PASS	G	49178328	G	G	49178328	3	3	129	1	0	0	0	0	1	0	0	0	5979	835	29	2	708	2	FOLH1	11	49178328	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	9850	49178328	85828188	269	46625										
OR4A16	81327	broad.mit.edu	37	chr11	55110699	55110699	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gagaccaagcagcaatgttaCagaatttgtcctcctgggcc	10	11	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:55110699C>G	uc010rie.1	+	1	23	c.23C>G	c.(22-24)ACA>AGA	p.T8R		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						AGCAATGTTACAGAATTTGTC	0.373													12	80	---	---	---	---	PASS	G	55110699	G	G	55110699	3	3	129	1	0	0	0	0	1	0	0	0	11041	478	17	4	25	4	OR4A16	11	55110699	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	5932371	55110699	79895817	270	46626										
OR4A16	81327	broad.mit.edu	37	chr11	55111057	55111057	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tatgtggctatctctaagccGctgcactatttgaacatcat	7	10	2	1	rs76791457	byFrequency	TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:55111057G>C	uc010rie.1	+	1	381	c.381G>C	c.(379-381)CCG>CCC	p.P127P		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	127	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						TCTCTAAGCCGCTGCACTATT	0.468													52	291	---	---	---	---	PASS	C	55111057	C	C	55111057	2	2	129	1	0	0	0	0	0	0	0	1	11041	1074	38	4		4	OR4A16	11	55111057	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	358	55111057	79895459	271	46627										
OR8I2	120586	broad.mit.edu	37	chr11	55861587	55861587	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gataacacatcatcgctgacCcaggcgcaggtggcatctgt	11	12	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:55861587C>A	uc010rix.1	+	1	804	c.804C>A	c.(802-804)ACC>ACA	p.T268T		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					CATCGCTGACCCAGGCGCAGG	0.458													23	154	---	---	---	---	PASS	A	55861587	A	A	55861587	2	1	129	1	0	0	0	0	0	0	0	1	11240	610	22	3		3	OR8I2	11	55861587	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	750530	55861587	79144929	272	46628										
OR8H1	219469	broad.mit.edu	37	chr11	56057843	56057843	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtagacaaagctttctgcttTcctgaagtggaattaatttt	8	6	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:56057843T>C	uc010rje.1	-	1	696	c.696A>G	c.(694-696)GGA>GGG	p.G232G		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					CTTTCTGCTTTCCTGAAGTGG	0.378													23	171	---	---	---	---	PASS	C	56057843	C	C	56057843	2	2	129	1	0	0	0	0	0	0	0	1	11237	1770	62	5		5	OR8H1	11	56057843	Silent	SNP	T	TCGA-60-2720-01A-01D-1522-08	196256	56057843	78948673	273	46629										
TNKS1BP1	85456	broad.mit.edu	37	chr11	57069961	57069961	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aggagaagtcctgactggggGatctggcaggagggccttgg	19	7	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:57069961G>A	uc001njr.2	-	6	4967	c.4655C>T	c.(4654-4656)TCC>TTC	p.S1552F	TNKS1BP1_uc001njp.2_Missense_Mutation_p.S124F|TNKS1BP1_uc001njq.2_Missense_Mutation_p.S124F|TNKS1BP1_uc001njs.2_Missense_Mutation_p.S1552F	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	1552	Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				CTGACTGGGGGATCTGGCAGG	0.632													10	39	---	---	---	---	PASS	A	57069961	A	A	57069961	3	1	129	1	0	0	0	0	1	0	0	0	16317	1174	41	2	554	2	TNKS1BP1	11	57069961	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1012118	57069961	77936555	274	46630										
TUT1	64852	broad.mit.edu	37	chr11	62348921	62348921	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	taggctgcgaagctgccgctCggcctcggacaactccctca	11	16	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:62348921C>T	uc001nto.2	-	3	678	c.640G>A	c.(640-642)GAG>AAG	p.E214K		NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	176					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						AGCTGCCGCTCGGCCTCGGAC	0.607													4	58	---	---	---	---	PASS	T	62348921	T	T	62348921	3	4	129	1	0	0	0	0	1	0	0	0	16777	893	31	2	2126	2	TUT1	11	62348921	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	5278960	62348921	72657595	275	46631										
SLC22A6	9356	broad.mit.edu	37	chr11	62747414	62747414	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccatagtatgcaaagctagtGgcaaacctagcagagagaag	11	8	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:62747414G>T	uc001nwk.2	-	7	1351	c.1044C>A	c.(1042-1044)GCC>GCA	p.A348A	SLC22A6_uc001nwl.2_Silent_p.A348A|SLC22A6_uc001nwj.2_Silent_p.A348A|SLC22A6_uc001nwm.2_Silent_p.A348A	NM_004790	NP_004781	Q4U2R8	S22A6_HUMAN	solute carrier family 22 member 6 isoform a	348	Helical; (Potential).				alpha-ketoglutarate transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|protein binding				0						CAAAGCTAGTGGCAAACCTAG	0.353													11	72	---	---	---	---	PASS	T	62747414	T	T	62747414	2	4	129	1	0	0	0	0	0	0	0	1	14458	1335	47	3		3	SLC22A6	11	62747414	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	398493	62747414	72259102	276	46632										
NDUFS8	4728	broad.mit.edu	37	chr11	67800460	67800460	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgggcagcccgcaccctgctGtggactgagctcttccgagg	14	15	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:67800460G>T	uc001onc.2	+	4	287	c.180G>T	c.(178-180)CTG>CTT	p.L60L	NDUFS8_uc010rpz.1_Silent_p.L60L|NDUFS8_uc009ysb.1_Intron|NDUFS8_uc009ysc.1_Silent_p.L60L	NM_002496	NP_002487	O00217	NDUS8_HUMAN	NADH dehydrogenase ubiquinone Fe-S 8 precursor	60					mitochondrial electron transport, NADH to ubiquinone|mitochondrial respiratory chain complex I assembly|response to oxidative stress|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity			skin(1)	1					NADH(DB00157)	GCACCCTGCTGTGGACTGAGC	0.657													12	89	---	---	---	---	PASS	T	67800460	T	T	67800460	2	4	129	1	0	0	0	0	0	0	0	1	10298	1364	48	3		3	NDUFS8	11	67800460	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	5053046	67800460	67206056	277	46633										
PDE2A	5138	broad.mit.edu	37	chr11	72316271	72316271	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aggtaggtgtagacagtttcCtaggacagaaggcacttatg	13	6	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:72316271C>T	uc010rrc.1	-	4	478	c.235_splice	c.e4-1	p.E79_splice	PDE2A_uc001oso.2_Splice_Site_p.E58_splice|PDE2A_uc010rra.1_Splice_Site_p.E72_splice|PDE2A_uc001osn.2_Splice_Site_p.E72_splice|PDE2A_uc010rrb.1_Splice_Site_p.E70_splice|PDE2A_uc010rrd.1_Intron	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1						platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	AGACAGTTTCCTAGGACAGAA	0.577													13	54	---	---	---	---	PASS	T	72316271	T	T	72316271	5	4	129	1	0	0	0	0	0	0	1	0	11636	695	24	3	2703	3	PDE2A	11	72316271	Splice_Site	SNP	C	TCGA-60-2720-01A-01D-1522-08	4515811	72316271	62690245	278	46634										
PRKRIR	5612	broad.mit.edu	37	chr11	76062339	76062339	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agcatggtgttcctccgacgTattgaatttgagttgtccca	10	9	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:76062339T>A	uc001oxh.1	-	5	1855	c.1855A>T	c.(1855-1857)ACG>TCG	p.T619S	PRKRIR_uc010rrz.1_Missense_Mutation_p.T444S	NM_004705	NP_004696	O43422	P52K_HUMAN	protein-kinase, interferon-inducible double	619					negative regulation of cell proliferation|response to stress|signal transduction		DNA binding|metal ion binding|protein dimerization activity			ovary(2)|pancreas(1)	3						TCCTCCGACGTATTGAATTTG	0.418													46	293	---	---	---	---	PASS	A	76062339	A	A	76062339	3	1	129	1	0	0	0	0	1	0	0	0	12526	1638	57	5	434	5	PRKRIR	11	76062339	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	3746068	76062339	58944177	279	46635										
AMOTL1	154810	broad.mit.edu	37	chr11	94554932	94554932	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gatattaacagaggagaaccGggtgcttcaccaggaacttc	11	9	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:94554932G>C	uc001pfb.2	+	4	1528	c.1358G>C	c.(1357-1359)CGG>CCG	p.R453P	AMOTL1_uc001pfc.2_Missense_Mutation_p.R403P	NM_130847	NP_570899	Q8IY63	AMOL1_HUMAN	angiomotin like 1	453	Potential.					cytoplasm|tight junction	identical protein binding			ovary(1)|breast(1)	2		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				GAGGAGAACCGGGTGCTTCAC	0.572													4	110	---	---	---	---	PASS	C	94554932	C	C	94554932	3	2	129	1	0	0	0	0	1	0	0	0	583	1116	39	4	1372	4	AMOTL1	11	94554932	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	18492593	94554932	40451584	280	46636										
CWC15	51503	broad.mit.edu	37	chr11	94704613	94704613	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccaactctctcctgaagtcaCggttacgaacctcttcaggg	8	14	4	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:94704613C>A	uc001pfd.3	-	3	293	c.170G>T	c.(169-171)CGT>CTT	p.R57L	CWC15_uc009ywl.1_Missense_Mutation_p.R57L|KDM4D_uc001pfe.2_5'Flank	NM_016403	NP_057487	Q9P013	CWC15_HUMAN	CWC15 homolog	57	Potential.				nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome	protein binding|RNA binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CCTGAAGTCACGGTTACGAAC	0.403													5	32	---	---	---	---	PASS	A	94704613	A	A	94704613	3	1	129	1	0	0	0	0	1	0	0	0	4067	536	19	1	538	1	CWC15	11	94704613	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	149681	94704613	40301903	281	46637										
ZNF259	8882	broad.mit.edu	37	chr11	116649706	116649706	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtcattgagccctagctcctCattttggtcaaaggtgcgct	10	11	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:116649706C>T	uc001ppp.2	-	14	1348	c.1315G>A	c.(1315-1317)GAG>AAG	p.E439K	ZNF259_uc009yzd.2_Missense_Mutation_p.E410K|ZNF259_uc001ppq.2_Missense_Mutation_p.E369K	NM_003904	NP_003895	O75312	ZPR1_HUMAN	zinc finger protein 259	439					cell proliferation|signal transduction	cytoplasm|nucleolus					0	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.61e-06)|all cancers(92;0.000139)|OV - Ovarian serous cystadenocarcinoma(223;0.153)		CCTAGCTCCTCATTTTGGTCA	0.562													15	111	---	---	---	---	PASS	T	116649706	T	T	116649706	3	4	129	1	0	0	0	0	1	0	0	0	17798	835	29	2	68	2	ZNF259	11	116649706	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	21945093	116649706	18356810	282	46638										
MFRP	83552	broad.mit.edu	37	chr11	119216246	119216246	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	attgcatggtctgtggccacCtggatatgccacacgcagtg	12	11	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr11:119216246C>A	uc001pwj.2	-	5	685	c.525G>T	c.(523-525)CAG>CAT	p.Q175H	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Missense_Mutation_p.Q175H	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		CTGTGGCCACCTGGATATGCC	0.582													12	91	---	---	---	---	PASS	A	119216246	A	A	119216246	3	1	129	1	0	0	0	0	1	0	0	0	9526	680	24	3	1250	3	MFRP	11	119216246	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2566540	119216246	15790270	283	46639										
WNK1	65125	broad.mit.edu	37	chr12	863029	863029	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tggagcttcccggccttcctCtttccctgccccagcccagc	8	20	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:863029C>G	uc001qio.3	+	1	805	c.298C>G	c.(298-300)CTT>GTT	p.L100V	WNK1_uc001qin.2_Missense_Mutation_p.L100V|WNK1_uc001qip.3_Missense_Mutation_p.L100V	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	100					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CGGCCTTCCTCTTTCCCTGCC	0.682													9	32	---	---	---	---	PASS	G	863029	G	G	863029	3	3	129	1	0	0	0	0	1	0	0	0	17374	913	32	2	300	2	WNK1	12	863029	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08		863029	132988866	284	46640										
ART4	420	broad.mit.edu	37	chr12	14993526	14993526	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttgagggagaagtactgtaCaggtgcacccaggcaggtga	15	8	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:14993526C>T	uc001rcl.1	-	2	1072	c.706G>A	c.(706-708)GTA>ATA	p.V236I	ART4_uc009zid.1_Intron|ART4_uc009zie.1_Intron|ART4_uc001rcm.1_Missense_Mutation_p.V236I	NM_021071	NP_066549	Q93070	NAR4_HUMAN	ADP-ribosyltransferase 4 precursor	236					arginine metabolic process|protein ADP-ribosylation	anchored to membrane|plasma membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity				0						AAGTACTGTACAGGTGCACCC	0.468													19	110	---	---	---	---	PASS	T	14993526	T	T	14993526	3	4	129	1	0	0	0	0	1	0	0	0	999	478	17	3	246	3	ART4	12	14993526	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	14130497	14993526	118858369	285	46641										
SLCO1B3	28234	broad.mit.edu	37	chr12	21068990	21068990	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gattcccagcacttgttttaTatattgttttcatttttgct	5	7	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:21068990T>C	uc001rek.2	+	15	2044	c.1918T>C	c.(1918-1920)TAT>CAT	p.Y640H	SLCO1B3_uc001rel.2_Missense_Mutation_p.Y640H|SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Intron	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	640	Helical; Name=12; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					ACTTGTTTTATATATTGTTTT	0.303													14	75	---	---	---	---	PASS	C	21068990	C	C	21068990	3	2	129	1	0	0	0	0	1	0	0	0	14724	1406	49	5	1972	5	SLCO1B3	12	21068990	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	6075464	21068990	112782905	286	46642										
TMTC1	83857	broad.mit.edu	37	chr12	29725064	29725064	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gctgttctgtagtggtagatCgcttccttgttccgaccttg	11	10	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:29725064C>A	uc001rjb.2	-	9	1656	c.1182G>T	c.(1180-1182)GCG>GCT	p.A394A	TMTC1_uc001riz.2_Silent_p.A151A|TMTC1_uc001rja.2_Silent_p.A238A|TMTC1_uc001rjc.1_Silent_p.A456A	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	502	TPR 1.					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					AGTGGTAGATCGCTTCCTTGT	0.478													12	86	---	---	---	---	PASS	A	29725064	A	A	29725064	2	1	129	1	0	0	0	0	0	0	0	1	16257	871	31	2		2	TMTC1	12	29725064	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	8656074	29725064	104126831	287	46643										
ADAMTS20	80070	broad.mit.edu	37	chr12	43821158	43821158	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tggacaaggccctggaccacAttgctgtaactctggaggct	12	11	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:43821158A>T	uc010skx.1	-	27	4060	c.4060T>A	c.(4060-4062)TGT>AGT	p.C1354S	ADAMTS20_uc001rno.1_Missense_Mutation_p.C472S	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1354	TSP type-1 9.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CCTGGACCACATTGCTGTAAC	0.458													18	92	---	---	---	---	PASS	T	43821158	T	T	43821158	3	4	129	1	0	0	0	0	1	0	0	0	266	217	8	5	1723	5	ADAMTS20	12	43821158	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	14096094	43821158	90030737	288	46644										
SENP1	29843	broad.mit.edu	37	chr12	48440158	48440158	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cctgtgtgaagttgattggtCtgtctttggtaatacagtca	11	6	3	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:48440158C>G	uc001rqx.2	-	17	2299	c.1853G>C	c.(1852-1854)AGA>ACA	p.R618T	SENP1_uc001rqw.2_Missense_Mutation_p.R617T|SENP1_uc001rqy.2_Missense_Mutation_p.R419T|SENP1_uc001rqz.2_Missense_Mutation_p.R419T|SENP1_uc009zkx.2_Missense_Mutation_p.R618T	NM_014554	NP_055369	Q9P0U3	SENP1_HUMAN	sentrin/SUMO-specific protease 1	618					activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)				GTTGATTGGTCTGTCTTTGGT	0.443													35	178	---	---	---	---	PASS	G	48440158	G	G	48440158	3	3	129	1	0	0	0	0	1	0	0	0	14046	913	32	2	89	2	SENP1	12	48440158	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	4619000	48440158	85411737	289	46645										
DDX23	9416	broad.mit.edu	37	chr12	49231121	49231121	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cccactcaaaaacaaatttcCggtcattgagatgtctcgtt	6	11	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:49231121C>G	uc001rsm.2	-	8	900	c.809G>C	c.(808-810)CGG>CCG	p.R270P		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	270						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6						AACAAATTTCCGGTCATTGAG	0.512													12	130	---	---	---	---	PASS	G	49231121	G	G	49231121	3	3	129	1	0	0	0	0	1	0	0	0	4350	652	23	4	1693	4	DDX23	12	49231121	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	790963	49231121	84620774	290	46646										
RHEBL1	121268	broad.mit.edu	37	chr12	49460814	49460814	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccaagagtcactatcttgctGtaagctgaaaagaaaagaaa	8	7	2	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:49460814G>C	uc001rtc.1	-	3	336	c.129C>G	c.(127-129)TAC>TAG	p.Y43*	RHEBL1_uc001rtd.1_Nonsense_Mutation_p.Y39*|RHEBL1_uc009zlc.1_Intron	NM_144593	NP_653194	Q8TAI7	REBL1_HUMAN	Ras homolog enriched in brain like 1 precursor	43	Effector region (By similarity).				positive regulation of NF-kappaB transcription factor activity|small GTPase mediated signal transduction|TOR signaling cascade	cytoplasm|plasma membrane	GTP binding|GTPase activity|protein binding			lung(1)|breast(1)	2						CTATCTTGCTGTAAGCTGAAA	0.393													21	119	---	---	---	---	PASS	C	49460814	C	C	49460814	4	2	129	1	0	0	0	0	0	1	0	0	13329	1372	48	4	446	4	RHEBL1	12	49460814	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	229693	49460814	84391081	291	46647										
HOXC12	3228	broad.mit.edu	37	chr12	54348956	54348956	+	Silent	SNP	C	T	T													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctcaaccctcccttcggccgCacgtgcgagctggcgcgcgt							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:54348956C>T	uc010soq.1	+	1	243	c.243C>T	c.(241-243)CGC>CGT	p.R81R		NM_173860	NP_776272	P31275	HXC12_HUMAN	homeobox C12	81					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						CCTTCGGCCGCACGTGCGAGC	0.721													3	9	---	---	---	---	PASS	T	54348956	T	T	54348956	2	4	129	1	0	0	0	0	0	0	0	1	7311	697	25	3		3	HOXC12	12	54348956	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	4888142	54348956	79502939	292	46648	858	2								
HOXC12	3228	broad.mit.edu	37	chr12	54348957	54348957	+	Missense_Mutation	SNP	A	T	T													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcaaccctcccttcggccgcAcgtgcgagctggcgcgcgtg							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:54348957A>T	uc010soq.1	+	1	244	c.244A>T	c.(244-246)ACG>TCG	p.T82S		NM_173860	NP_776272	P31275	HXC12_HUMAN	homeobox C12	82					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						CTTCGGCCGCACGTGCGAGCT	0.721													3	9	---	---	---	---	PASS	T	54348957	T	T	54348957	3	4	129	1	0	0	0	0	1	0	0	0	7311	159	6	5	246	5	HOXC12	12	54348957	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	1	54348957	79502938	293	46649	858	2								
OR6C1	390321	broad.mit.edu	37	chr12	55715190	55715190	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aaagatagagtgtccttgagCaagggagtggcaatactaaa	12	5	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:55715190C>A	uc010spi.1	+	1	807	c.807C>A	c.(805-807)AGC>AGA	p.S269R		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						TGTCCTTGAGCAAGGGAGTGG	0.423													26	230	---	---	---	---	PASS	A	55715190	A	A	55715190	3	1	129	1	0	0	0	0	1	0	0	0	11190	709	25	3	809	3	OR6C1	12	55715190	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1366233	55715190	78136705	294	46650										
IKZF4	64375	broad.mit.edu	37	chr12	56426419	56426419	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	acaaacagcagagtaccctgGaggagcacaaggagcggtgc	14	10	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:56426419G>C	uc001sjb.1	+	7	949	c.790G>C	c.(790-792)GAG>CAG	p.E264Q	IKZF4_uc010sqa.1_Missense_Mutation_p.E217Q|IKZF4_uc001sjc.1_Missense_Mutation_p.E264Q|IKZF4_uc001sjd.1_Missense_Mutation_p.E162Q|IKZF4_uc009zoi.1_Missense_Mutation_p.E219Q|IKZF4_uc001sje.1_Missense_Mutation_p.E223Q	NM_022465	NP_071910	Q9H2S9	IKZF4_HUMAN	zinc finger protein, subfamily 1A, 4	264	C2H2-type 4.				negative regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (6;0.025)|OV - Ovarian serous cystadenocarcinoma(18;0.123)			GAGTACCCTGGAGGAGCACAA	0.547													16	54	---	---	---	---	PASS	C	56426419	C	C	56426419	3	2	129	1	0	0	0	0	1	0	0	0	7617	1175	41	2	812	2	IKZF4	12	56426419	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	711229	56426419	77425476	295	46651										
LRP1	4035	broad.mit.edu	37	chr12	57573625	57573625	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccgaaacctgttctggacaaGctatgacaccaataagaagc	8	11	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:57573625G>A	uc001snd.2	+	30	5493	c.5027G>A	c.(5026-5028)AGC>AAC	p.S1676N		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1676	Extracellular (Potential).|LDL-receptor class B 14.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TTCTGGACAAGCTATGACACC	0.582													39	197	---	---	---	---	PASS	A	57573625	A	A	57573625	3	1	129	1	0	0	0	0	1	0	0	0	8951	971	34	3	5145	3	LRP1	12	57573625	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1147206	57573625	76278270	296	46652										
IL22	50616	broad.mit.edu	37	chr12	68646350	68646350	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcctgcatataaggctggaaCctatcagattgagggaacag	11	8	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:68646350C>A	uc001sty.1	-	3	383	c.330G>T	c.(328-330)AGG>AGT	p.R110S	IL22_uc010stb.1_Missense_Mutation_p.R110S	NM_020525	NP_065386	Q9GZX6	IL22_HUMAN	interleukin 22 precursor	110					acute-phase response	extracellular space	cytokine activity|interleukin-22 receptor binding				0		Myeloproliferative disorder(1001;0.0255)	Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;5.06e-05)|BRCA - Breast invasive adenocarcinoma(357;0.00104)		AAGGCTGGAACCTATCAGATT	0.527													16	95	---	---	---	---	PASS	A	68646350	A	A	68646350	3	1	129	1	0	0	0	0	1	0	0	0	7672	506	18	3	221	3	IL22	12	68646350	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	11072725	68646350	65205545	297	46653										
NAV3	89795	broad.mit.edu	37	chr12	78516094	78516094	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cctccacacgagctctgagtCcattgacctccccctcagcc	6	20	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:78516094C>A	uc001syp.2	+	16	4297	c.4124C>A	c.(4123-4125)TCC>TAC	p.S1375Y	NAV3_uc001syo.2_Missense_Mutation_p.S1375Y|NAV3_uc010sub.1_Missense_Mutation_p.S875Y|NAV3_uc009zsf.2_Intron	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1375	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AGCTCTGAGTCCATTGACCTC	0.572										HNSCC(70;0.22)			22	175	---	---	---	---	PASS	A	78516094	A	A	78516094	3	1	129	1	0	0	0	0	1	0	0	0	10185	855	30	2	4186	2	NAV3	12	78516094	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	9869744	78516094	55335801	298	46654										
PPFIA2	8499	broad.mit.edu	37	chr12	81777827	81777827	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	taatgtccctttgatacttgGtgttcatttcttctgtttta	6	7	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:81777827G>C	uc001szo.1	-	9	1120	c.959C>G	c.(958-960)ACC>AGC	p.T320S	PPFIA2_uc010sue.1_Missense_Mutation_p.T220S|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	246										ovary(3)|lung(2)|pancreas(1)	6						TTGATACTTGGTGTTCATTTC	0.423													9	66	---	---	---	---	PASS	C	81777827	C	C	81777827	3	2	129	1	0	0	0	0	1	0	0	0	12310	1261	44	4	2910	4	PPFIA2	12	81777827	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3261733	81777827	52074068	299	46655										
STAB2	55576	broad.mit.edu	37	chr12	104106206	104106206	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cagcaggattccaaggaaacGggaccatctgcacaggcaag	12	11	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:104106206G>A	uc001tjw.2	+	41	4582	c.4396G>A	c.(4396-4398)GGG>AGG	p.G1466R	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1466	Extracellular (Potential).|EGF-like 11.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CCAAGGAAACGGGACCATCTG	0.512													22	121	---	---	---	---	PASS	A	104106206	A	A	104106206	3	1	129	1	0	0	0	0	1	0	0	0	15237	1116	39	1	4558	1	STAB2	12	104106206	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	22328379	104106206	29745689	300	46656										
KIAA1033	23325	broad.mit.edu	37	chr12	105543402	105543402	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	taattttataggttaatttcAcctaccagtttttgaaaaag	5	5	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:105543402A>T	uc001tld.2	+	25	2611	c.2524A>T	c.(2524-2526)ACC>TCC	p.T842S	KIAA1033_uc010swr.1_Missense_Mutation_p.T843S|KIAA1033_uc010sws.1_Missense_Mutation_p.T654S	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	842					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						GGTTAATTTCACCTACCAGTT	0.189													8	84	---	---	---	---	PASS	T	105543402	T	T	105543402	3	4	129	1	0	0	0	0	1	0	0	0	8206	159	6	5	2622	5	KIAA1033	12	105543402	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	1437196	105543402	28308493	301	46657										
ALDH2	217	broad.mit.edu	37	chr12	112229892	112229892	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcgtaatccaggttgctgctGggagcagcaacctcaagaga	13	10	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:112229892G>A	uc001tst.2	+	8	1264	c.823G>A	c.(823-825)GGG>AGG	p.G275R	ALDH2_uc010syi.1_Missense_Mutation_p.G228R|ALDH2_uc009zvy.2_Missense_Mutation_p.G199R	NM_000690	NP_000681	P05091	ALDH2_HUMAN	mitochondrial aldehyde dehydrogenase 2	275					carbohydrate metabolic process|ethanol oxidation|neurotransmitter biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase|electron carrier activity			skin(2)|ovary(1)|central_nervous_system(1)	4					Disulfiram(DB00822)|Guanidine(DB00536)|NADH(DB00157)|Nitroglycerin(DB00727)	GGTTGCTGCTGGGAGCAGCAA	0.542			T	HMGA2	leiomyoma								12	77	---	---	---	---	PASS	A	112229892	A	A	112229892	3	1	129	1	0	0	0	0	1	0	0	0	496	1348	47	3	853	3	ALDH2	12	112229892	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	6686490	112229892	21622003	302	46658										
TMEM120B	144404	broad.mit.edu	37	chr12	122181597	122181597	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcgctgcagacgctgtgtagCagttccatcagtaagcagaa	12	10	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:122181597C>T	uc001ubc.3	+	2	276	c.132C>T	c.(130-132)AGC>AGT	p.S44S	TMEM120B_uc009zxh.2_Silent_p.S44S	NM_001080825	NP_001074294	A0PK00	T120B_HUMAN	transmembrane protein 120B	44	Potential.					integral to membrane					0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;5.75e-05)|Epithelial(86;0.000128)|BRCA - Breast invasive adenocarcinoma(302;0.238)		CGCTGTGTAGCAGTTCCATCA	0.552													14	103	---	---	---	---	PASS	T	122181597	T	T	122181597	2	4	129	1	0	0	0	0	0	0	0	1	16031	709	25	3		3	TMEM120B	12	122181597	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	9951705	122181597	11670298	303	46659										
GPR109B	8843	broad.mit.edu	37	chr12	123200969	123200969	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctggcggttcatggcaaacaTgaagagcaccagccggcaag	13	11	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:123200969T>A	uc001ucy.3	-	1	471	c.316A>T	c.(316-318)ATG>TTG	p.M106L	GPR81_uc001ucw.1_Intron	NM_006018	NP_006009	P49019	HCAR3_HUMAN	G protein-coupled receptor 109B	106	Helical; Name=3; (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	ATGGCAAACATGAAGAGCACC	0.552													5	41	---	---	---	---	PASS	A	123200969	A	A	123200969	3	1	129	1	0	0	0	0	1	0	0	0	6626	1464	51	5	851	5	GPR109B	12	123200969	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	1019372	123200969	10650926	304	46660										
PIWIL1	9271	broad.mit.edu	37	chr12	130840128	130840128	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gttcaaagggagcttcgagaCtggggtttgagctttgattc	14	6	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:130840128C>A	uc001uik.2	+	12	1410	c.1320C>A	c.(1318-1320)GAC>GAA	p.D440E	PIWIL1_uc001uij.1_Missense_Mutation_p.D440E	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	440					gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		AGCTTCGAGACTGGGGTTTGA	0.378													35	287	---	---	---	---	PASS	A	130840128	A	A	130840128	3	1	129	1	0	0	0	0	1	0	0	0	11957	564	20	3	1362	3	PIWIL1	12	130840128	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	7639159	130840128	3011767	305	46661										
STX2	2054	broad.mit.edu	37	chr12	131311740	131311740	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttcattaaacgctcttacctGatggaagaaatcatccatga	6	9	3	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr12:131311740G>A	uc001uio.2	-	2	270	c.103C>T	c.(103-105)CAG>TAG	p.Q35*	STX2_uc001uip.2_Nonsense_Mutation_p.Q35*|STX2_uc010tbj.1_Nonsense_Mutation_p.Q35*	NM_194356	NP_919337	P32856	STX2_HUMAN	syntaxin 2 isoform 2	35	Potential.|Cytoplasmic (Potential).				acrosome reaction|ectoderm development|intracellular protein transport|organ morphogenesis|signal transduction	basolateral plasma membrane|integral to membrane|microsome|soluble fraction	calcium-dependent protein binding|SNAP receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.79e-06)|all cancers(50;5.27e-05)|Epithelial(86;5.29e-05)		GCTCTTACCTGATGGAAGAAA	0.274													10	124	---	---	---	---	PASS	A	131311740	A	A	131311740	4	1	129	1	0	0	0	0	0	1	0	0	15344	1299	45	2	881	2	STX2	12	131311740	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	471612	131311740	2540155	306	46662										
ELF1	1997	broad.mit.edu	37	chr13	41524010	41524010	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	catatttttcttgcacctgcTgtgtttccatcacttcagga	6	11	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr13:41524010T>A	uc001uxs.2	-	5	834	c.461A>T	c.(460-462)CAG>CTG	p.Q154L	ELF1_uc010tfc.1_Missense_Mutation_p.Q130L|ELF1_uc010acd.2_Missense_Mutation_p.Q47L	NM_172373	NP_758961	P32519	ELF1_HUMAN	E74-like factor 1 (ets domain transcription	154					positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung NSC(96;8.3e-05)|Prostate(109;0.0233)|Breast(139;0.0296)|Lung SC(185;0.0367)		all cancers(112;1.87e-08)|Epithelial(112;8.45e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000202)|GBM - Glioblastoma multiforme(144;0.00266)|BRCA - Breast invasive adenocarcinoma(63;0.072)		TTGCACCTGCTGTGTTTCCAT	0.448													38	212	---	---	---	---	PASS	A	41524010	A	A	41524010	3	1	129	1	0	0	0	0	1	0	0	0	5053	1580	55	5	1418	5	ELF1	13	41524010	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08		41524010	73645868	307	46663										
SLITRK1	114798	broad.mit.edu	37	chr13	84454819	84454819	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caaaggtctcttcttgggcaGggggcgccgggagactagaa	16	9	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr13:84454819G>C	uc001vlk.2	-	1	1710	c.824C>G	c.(823-825)CCT>CGT	p.P275R		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	275	Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		TTCTTGGGCAGGGGGCGCCGG	0.552													18	73	---	---	---	---	PASS	C	84454819	C	C	84454819	3	2	129	1	0	0	0	0	1	0	0	0	14742	1000	35	4	1270	4	SLITRK1	13	84454819	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	42930809	84454819	30715059	308	46664										
OR4K14	122740	broad.mit.edu	37	chr14	20482746	20482746	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caaggaaagcaacccactgtCtgagatcataattataccca	6	11	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr14:20482746C>A	uc010tky.1	-	1	607	c.607G>T	c.(607-609)GAC>TAC	p.D203Y		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	203	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		AACCCACTGTCTGAGATCATA	0.512													9	54	---	---	---	---	PASS	A	20482746	A	A	20482746	3	1	129	1	0	0	0	0	1	0	0	0	11069	913	32	2	328	2	OR4K14	14	20482746	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08		20482746	86866794	309	46665										
OR10G3	26533	broad.mit.edu	37	chr14	22038006	22038006	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttcacctcttggttccgcagAgtgtagataagggggttgag	14	7	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr14:22038006A>G	uc010tmb.1	-	1	870	c.870T>C	c.(868-870)ACT>ACC	p.T290T		NM_001005465	NP_001005465	Q8NGC4	O10G3_HUMAN	olfactory receptor, family 10, subfamily G,	290	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|central_nervous_system(1)	2	all_cancers(95;0.000987)			GBM - Glioblastoma multiforme(265;0.0139)		GGTTCCGCAGAGTGTAGATAA	0.552													23	108	---	---	---	---	PASS	G	22038006	G	G	22038006	2	3	129	1	0	0	0	0	0	0	0	1	10900	291	11	5		5	OR10G3	14	22038006	Silent	SNP	A	TCGA-60-2720-01A-01D-1522-08	1555260	22038006	85311534	310	46666										
ACIN1	22985	broad.mit.edu	37	chr14	23562722	23562722	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggaatgcagcatggggtgttGagtgtttctgtaaattttct	13	4	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr14:23562722G>C	uc001wit.3	-	2	672	c.344C>G	c.(343-345)TCA>TGA	p.S115*	ACIN1_uc010akg.2_Nonsense_Mutation_p.S115*|ACIN1_uc010tnj.1_Nonsense_Mutation_p.S115*|C14orf119_uc001wiu.2_5'Flank	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	115					apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		ATGGGGTGTTGAGTGTTTCTG	0.438													16	125	---	---	---	---	PASS	C	23562722	C	C	23562722	4	2	129	1	0	0	0	0	0	1	0	0	142	1294	45	2	3900	2	ACIN1	14	23562722	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1524716	23562722	83786818	311	46667										
ZFP36L1	677	broad.mit.edu	37	chr14	69256636	69256636	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggtggcagcggcggtggcagCggcactgggaaacccagcaa	18	11	0	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr14:69256636C>A	uc001xkh.1	-	2	761	c.631G>T	c.(631-633)GCT>TCT	p.A211S	ZFP36L1_uc001xki.1_Missense_Mutation_p.A211S	NM_004926	NP_004917	Q07352	TISB_HUMAN	butyrate response factor 1	211					regulation of mRNA stability	cytosol|nucleus	DNA binding|mRNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				all cancers(60;0.00203)|BRCA - Breast invasive adenocarcinoma(234;0.00205)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		gcggtggcagcggcACTGGGA	0.587											OREG0022753	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	102	---	---	---	---	PASS	A	69256636	A	A	69256636	3	1	129	1	0	0	0	0	1	0	0	0	17643	768	27	1	389	1	ZFP36L1	14	69256636	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	45693914	69256636	38092904	312	46668										
FLRT2	23768	broad.mit.edu	37	chr14	86088661	86088661	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caaccagataaaccacattcCtttgacagccttctcaaatc	3	14	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr14:86088661C>T	uc001xvr.2	+	2	1570	c.803C>T	c.(802-804)CCT>CTT	p.P268L	FLRT2_uc010atd.2_Missense_Mutation_p.P268L	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	268	Extracellular (Potential).|LRR 9.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		AACCACATTCCTTTGACAGCC	0.473													68	256	---	---	---	---	PASS	T	86088661	T	T	86088661	3	4	129	1	0	0	0	0	1	0	0	0	5939	681	24	3	805	3	FLRT2	14	86088661	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	16832025	86088661	21260879	313	46669										
CCDC88C	440193	broad.mit.edu	37	chr14	91792395	91792395	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aaaatgatattatcttctctCagctcctggttagcaaaaac	5	9	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr14:91792395C>T	uc010aty.2	-	11	1155	c.1056G>A	c.(1054-1056)CTG>CTA	p.L352L		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	352	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				TATCTTCTCTCAGCTCCTGGT	0.458													6	20	---	---	---	---	PASS	T	91792395	T	T	91792395	2	4	129	1	0	0	0	0	0	0	0	1	2865	813	29	2		2	CCDC88C	14	91792395	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	5703734	91792395	15557145	314	46670										
KIAA1409	57578	broad.mit.edu	37	chr14	94088420	94088420	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gatagatctatcctcagattCaacctcggggcctgaaaaac	8	11	3	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr14:94088420C>T	uc001ybv.1	+	28	4459	c.4376C>T	c.(4375-4377)TCA>TTA	p.S1459L	KIAA1409_uc001ybs.1_Missense_Mutation_p.S1437L	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1614						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TCCTCAGATTCAACCTCGGGG	0.463													27	120	---	---	---	---	PASS	T	94088420	T	T	94088420	3	4	129	1	0	0	0	0	1	0	0	0	8230	838	29	2	4416	2	KIAA1409	14	94088420	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2296025	94088420	13261120	315	46671										
HERC2	8924	broad.mit.edu	37	chr15	28419668	28419668	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccacaagccacgcgtgtgatCttctggccttctaagccttg	9	14	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr15:28419668C>G	uc001zbj.2	-	65	10036	c.9930G>C	c.(9928-9930)AAG>AAC	p.K3310N		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3310	RCC1 12.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CGCGTGTGATCTTCTGGCCTT	0.602													12	68	---	---	---	---	PASS	G	28419668	G	G	28419668	3	3	129	1	0	0	0	0	1	0	0	0	7058	912	32	2	4690	2	HERC2	15	28419668	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08		28419668	74111724	316	46672										
DLL4	54567	broad.mit.edu	37	chr15	41228522	41228522	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccacgtcagcgactgtgcccGtaacccttgcgcccacggtg	11	17	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr15:41228522G>T	uc001zng.1	+	9	1657	c.1337G>T	c.(1336-1338)CGT>CTT	p.R446L		NM_019074	NP_061947	Q9NR61	DLL4_HUMAN	delta-like 4 protein precursor	446	EGF-like 7.|Extracellular (Potential).				blood circulation|cell communication|cell differentiation|Notch receptor processing|Notch signaling pathway	integral to membrane|plasma membrane	calcium ion binding|Notch binding			breast(2)	2		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		GACTGTGCCCGTAACCCTTGC	0.642													5	17	---	---	---	---	PASS	T	41228522	T	T	41228522	3	4	129	1	0	0	0	0	1	0	0	0	4568	1145	40	1	1371	1	DLL4	15	41228522	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	12808854	41228522	61302870	317	46673										
CATSPER2	117155	broad.mit.edu	37	chr15	43922915	43922915	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgctttacttgtcttccaagTtcatcagtgcctgcactgca	7	12	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr15:43922915T>G	uc001zsh.2	-	13	1792	c.1577A>C	c.(1576-1578)AAC>ACC	p.N526T	STRC_uc010udz.1_Intron|CATSPER2_uc010bdm.2_RNA|CATSPER2_uc001zsi.2_Missense_Mutation_p.N524T|CATSPER2_uc001zsj.2_Missense_Mutation_p.N524T	NM_172095	NP_742093	Q96P56	CTSR2_HUMAN	sperm-associated cation channel 2 isoform 2	526	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|protein binding|voltage-gated ion channel activity			ovary(1)	1		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		GTCTTCCAAGTTCATCAGTGC	0.383													13	64	---	---	---	---	PASS	G	43922915	G	G	43922915	3	3	129	1	0	0	0	0	1	0	0	0	2688	1725	60	5	19	5	CATSPER2	15	43922915	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	2694393	43922915	58608477	318	46674										
MAPK6	5597	broad.mit.edu	37	chr15	52356574	52356574	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aggaagcatcacagcaactgGctggaaaagaaagggaaaag	13	6	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr15:52356574G>A	uc002abp.2	+	6	2337	c.1543G>A	c.(1543-1545)GCT>ACT	p.A515T		NM_002748	NP_002739	Q16659	MK06_HUMAN	mitogen-activated protein kinase 6	515					cell cycle		ATP binding|MAP kinase activity			lung(3)|ovary(1)	4				all cancers(107;0.0028)		ACAGCAACTGGCTGGAAAAGA	0.393													3	39	---	---	---	---	PASS	A	52356574	A	A	52356574	3	1	129	1	0	0	0	0	1	0	0	0	9281	1203	42	3	1561	3	MAPK6	15	52356574	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	8433659	52356574	50174818	319	46675										
UNC13C	440279	broad.mit.edu	37	chr15	54305124	54305124	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtggctaattttttcaagagCttgattttaccttacattca	6	7	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr15:54305124C>A	uc002ack.2	+	1	24	c.24C>A	c.(22-24)AGC>AGA	p.S8R		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	8					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TTTTCAAGAGCTTGATTTTAC	0.358													10	56	---	---	---	---	PASS	A	54305124	A	A	54305124	3	1	129	1	0	0	0	0	1	0	0	0	16983	796	28	3	26	3	UNC13C	15	54305124	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1948550	54305124	48226268	320	46676										
ALDH1A2	8854	broad.mit.edu	37	chr15	58302913	58302913	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atatcgaaaggttttgatgaCgccctgcaaatccacataaa	7	9	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr15:58302913C>T	uc002aex.2	-	4	485	c.427G>A	c.(427-429)GTC>ATC	p.V143I	ALDH1A2_uc002aey.2_Missense_Mutation_p.V143I|ALDH1A2_uc010ugv.1_Missense_Mutation_p.V122I|ALDH1A2_uc010ugw.1_Missense_Mutation_p.V114I|ALDH1A2_uc002aew.2_Missense_Mutation_p.V47I	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	143					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	GTTTTGATGACGCCCTGCAAA	0.433													23	88	---	---	---	---	PASS	T	58302913	T	T	58302913	3	4	129	1	0	0	0	0	1	0	0	0	491	536	19	1	1169	1	ALDH1A2	15	58302913	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	3997789	58302913	44228479	321	46677										
MYO1E	4643	broad.mit.edu	37	chr15	59516905	59516905	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	taccagagtttcctgaaactCccgcctgtcgtcaatgtcat	7	13	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr15:59516905C>A	uc002aga.2	-	8	1132	c.760G>T	c.(760-762)GAG>TAG	p.E254*		NM_004998	NP_004989	Q12965	MYO1E_HUMAN	myosin IE	254	Myosin head-like.				actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)		TCCTGAAACTCCCGCCTGTCG	0.522													13	48	---	---	---	---	PASS	A	59516905	A	A	59516905	4	1	129	1	0	0	0	0	0	1	0	0	10072	864	30	2	2650	2	MYO1E	15	59516905	Nonsense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1213992	59516905	43014487	322	46678										
SPESP1	246777	broad.mit.edu	37	chr15	69238497	69238497	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctctcaggtgaaactgcgatAgaaaaacccgaagagtttgg	11	8	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr15:69238497A>T	uc002arn.1	+	2	752	c.624A>T	c.(622-624)ATA>ATT	p.I208I	NOX5_uc002arp.1_Intron|NOX5_uc002arq.1_Intron|NOX5_uc010bid.1_Intron|NOX5_uc002aro.2_Intron	NM_145658	NP_663633	Q6UW49	SPESP_HUMAN	sperm equatorial segment protein 1 precursor	208					multicellular organismal development	acrosomal vesicle					0						AAACTGCGATAGAAAAACCCG	0.403													44	167	---	---	---	---	PASS	T	69238497	T	T	69238497	2	4	129	1	0	0	0	0	0	0	0	1	15039	410	15	5		5	SPESP1	15	69238497	Silent	SNP	A	TCGA-60-2720-01A-01D-1522-08	9721592	69238497	33292895	323	46679										
HCN4	10021	broad.mit.edu	37	chr15	73616009	73616009	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcccagcccagatcctggggGagggcggaagatggcagcag	18	11	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr15:73616009G>C	uc002avp.2	-	8	3419	c.2425C>G	c.(2425-2427)CCC>GCC	p.P809A		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	809	Cytoplasmic (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		GATCCTGGGGGAGGGCGGAAG	0.692													10	24	---	---	---	---	PASS	C	73616009	C	C	73616009	3	2	129	1	0	0	0	0	1	0	0	0	6999	1174	41	2	1190	2	HCN4	15	73616009	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	4377512	73616009	28915383	324	46680										
CSPG4	1464	broad.mit.edu	37	chr15	75982045	75982045	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cctccatcaggtccagcgtgGgctgcacatgcctccactca	9	17	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr15:75982045G>C	uc002baw.2	-	3	1454	c.1361C>G	c.(1360-1362)CCC>CGC	p.P454R		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	454	Extracellular (Potential).|CSPG 1.|Globular or compact configuration stabilized by disulfide bonds.|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						GTCCAGCGTGGGCTGCACATG	0.642													12	95	---	---	---	---	PASS	C	75982045	C	C	75982045	3	2	129	1	0	0	0	0	1	0	0	0	3960	1232	43	4	5639	4	CSPG4	15	75982045	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	2366036	75982045	26549347	325	46681										
IQGAP1	8826	broad.mit.edu	37	chr15	91027569	91027569	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tacatttccattggtgaaatCatcaacacccacactgtaag	5	11	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr15:91027569C>T	uc002bpl.1	+	30	4007	c.3906C>T	c.(3904-3906)ATC>ATT	p.I1302I		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1302	C2.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			TTGGTGAAATCATCAACACCC	0.373													22	143	---	---	---	---	PASS	T	91027569	T	T	91027569	2	4	129	1	0	0	0	0	0	0	0	1	7814	816	29	2		2	IQGAP1	15	91027569	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	15045524	91027569	11503823	326	46682										
CLUAP1	23059	broad.mit.edu	37	chr16	3576429	3576429	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caggaagctaaaaacactctCtgcctgatacagaacaagct	7	11	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:3576429C>T	uc002cvk.1	+	9	978	c.873C>T	c.(871-873)CTC>CTT	p.L291L	CLUAP1_uc002cvj.1_Silent_p.L291L|CLUAP1_uc002cvl.1_Silent_p.L291L|CLUAP1_uc002cvm.1_Silent_p.L125L	NM_015041	NP_055856	Q96AJ1	CLUA1_HUMAN	clusterin associated protein 1 isoform 1	291	Potential.					nucleus	protein binding			ovary(1)|breast(1)|pancreas(1)	3						AAAACACTCTCTGCCTGATAC	0.478													4	29	---	---	---	---	PASS	T	3576429	T	T	3576429	2	4	129	1	0	0	0	0	0	0	0	1	3569	900	32	2		2	CLUAP1	16	3576429	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08		3576429	86778324	327	46683										
CLEC16A	23274	broad.mit.edu	37	chr16	11272305	11272305	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	acgtggccaggagcgcagccGtggagacagccagcctgtcc	15	14	0	1	rs74163628		TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:11272305G>T	uc002dao.2	+	24	3150	c.2920G>T	c.(2920-2922)GTG>TTG	p.V974L	CLEC16A_uc002dap.2_Missense_Mutation_p.V61L	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	974										ovary(1)|central_nervous_system(1)	2						GAGCGCAGCCGTGGAGACAGC	0.617													9	39	---	---	---	---	PASS	T	11272305	T	T	11272305	3	4	129	1	0	0	0	0	1	0	0	0	3500	1145	40	1	3010	1	CLEC16A	16	11272305	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	7695876	11272305	79082448	328	46684										
MYH11	4629	broad.mit.edu	37	chr16	15797886	15797886	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tccattgaagtctgcgtctcGagtgtccgtttcctcctcag	9	13	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:15797886G>C	uc002ddy.2	-	41	5988	c.5881C>G	c.(5881-5883)CGA>GGA	p.R1961G	MYH11_uc002ddv.2_3'UTR|MYH11_uc002ddw.2_3'UTR|MYH11_uc002ddx.2_Missense_Mutation_p.R1968G|MYH11_uc010bvg.2_3'UTR|NDE1_uc010uzy.1_Intron|NDE1_uc002dds.2_Intron	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1961	Carboxyl-terminal.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						TCTGCGTCTCGAGTGTCCGTT	0.448			T	CBFB	AML								51	177	---	---	---	---	PASS	C	15797886	C	C	15797886	3	2	129	1	0	0	0	0	1	0	0	0	10031	1066	37	2	41	2	MYH11	16	15797886	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	4525581	15797886	74556867	329	46685										
SRCAP	10847	broad.mit.edu	37	chr16	30736362	30736362	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgtttggtggcccccggcctCgacgccagccccccccacca	10	22	0	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:30736362C>G	uc002dze.1	+	25	6002	c.5617C>G	c.(5617-5619)CGA>GGA	p.R1873G	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.R1668G|SRCAP_uc010bzz.1_Missense_Mutation_p.R1443G	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1873	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CCCCCGGCCTCGACGCCAGCC	0.582													20	118	---	---	---	---	PASS	G	30736362	G	G	30736362	3	3	129	1	0	0	0	0	1	0	0	0	15134	876	31	2	5707	2	SRCAP	16	30736362	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	14938476	30736362	59618391	330	46686										
TGFB1I1	7041	broad.mit.edu	37	chr16	31485212	31485212	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cccggcggcccctccattctCctcttccagcggtgtcttgg	10	18	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:31485212C>T	uc002ecd.1	+	4	265	c.239C>T	c.(238-240)TCC>TTC	p.S80F	TGFB1I1_uc002ece.1_Missense_Mutation_p.S63F|TGFB1I1_uc010caq.1_5'UTR	NM_001042454	NP_001035919	O43294	TGFI1_HUMAN	transforming growth factor beta 1 induced	80	Transcription activation (By similarity).|Interaction with PTK2B.				androgen receptor signaling pathway|cell adhesion|negative regulation of cell proliferation|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|transcription from RNA polymerase II promoter|ubiquitin-dependent SMAD protein catabolic process|Wnt receptor signaling pathway	cytoplasm|cytoskeleton|focal adhesion|nuclear matrix	androgen receptor binding|I-SMAD binding|Roundabout binding|transcription coactivator activity|zinc ion binding				0						CCTCCATTCTCCTCTTCCAGC	0.597													9	144	---	---	---	---	PASS	T	31485212	T	T	31485212	3	4	129	1	0	0	0	0	1	0	0	0	15814	855	30	2	253	2	TGFB1I1	16	31485212	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	748850	31485212	58869541	331	46687										
C16orf78	123970	broad.mit.edu	37	chr16	49433113	49433113	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggatgcaggaatgaatgtggAtatccacccccacatggtcg	12	10	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:49433113A>T	uc002efr.2	+	5	765	c.722A>T	c.(721-723)GAT>GTT	p.D241V		NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970	241										central_nervous_system(1)	1						ATGAATGTGGATATCCACCCC	0.488													23	105	---	---	---	---	PASS	T	49433113	T	T	49433113	3	4	129	1	0	0	0	0	1	0	0	0	1835	333	12	5	740	5	C16orf78	16	49433113	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	17947901	49433113	40921640	332	46688										
NOD2	64127	broad.mit.edu	37	chr16	50745449	50745449	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gacccagtcttcttcggggcCgcctccccaccctcctgcac	8	21	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:50745449C>T	uc002egm.1	+	4	1732	c.1627C>T	c.(1627-1629)CGC>TGC	p.R543C	NOD2_uc010cbk.1_Missense_Mutation_p.R516C|NOD2_uc002egl.1_Missense_Mutation_p.R321C|NOD2_uc010cbl.1_Missense_Mutation_p.R321C|NOD2_uc010cbm.1_Missense_Mutation_p.R321C|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	543	NACHT.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				TCTTCGGGGCCGCCTCCCCAC	0.617													4	85	---	---	---	---	PASS	T	50745449	T	T	50745449	3	4	129	1	0	0	0	0	1	0	0	0	10517	652	23	1	1641	1	NOD2	16	50745449	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1312336	50745449	39609304	333	46689										
CMTM3	123920	broad.mit.edu	37	chr16	66642254	66642254	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tctgctatgtggcgtcctcaGcatctgccttcctcacagcg	9	15	4	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:66642254G>A	uc002epu.2	+	3	449	c.190G>A	c.(190-192)GCA>ACA	p.A64T	CMTM3_uc002epv.2_Missense_Mutation_p.A64T|CMTM3_uc002epw.2_Missense_Mutation_p.A64T|CMTM3_uc002epx.2_Missense_Mutation_p.A64T|CMTM3_uc002epy.2_RNA	NM_001048251	NP_001041716	Q96MX0	CKLF3_HUMAN	chemokine-like factor superfamily 3	64	MARVEL.|Helical; (Potential).				chemotaxis	extracellular space|integral to membrane	cytokine activity			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0671)|Epithelial(162;0.164)		GGCGTCCTCAGCATCTGCCTT	0.527											OREG0023859	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	166	---	---	---	---	PASS	A	66642254	A	A	66642254	3	1	129	1	0	0	0	0	1	0	0	0	3584	971	34	3	196	3	CMTM3	16	66642254	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	15896805	66642254	23712499	334	46690										
CDH16	1014	broad.mit.edu	37	chr16	66944338	66944338	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggcacaggggcaagagtcagGgctggggcaggaggggcctt	21	8	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:66944338G>T	uc002eql.2	-	15	2065	c.1992C>A	c.(1990-1992)GCC>GCA	p.A664A	CDH16_uc010cdy.2_Silent_p.A642A|CDH16_uc002eqm.2_Silent_p.A567A	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	664	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		CAAGAGTCAGGGCTGGGGCAG	0.632													31	93	---	---	---	---	PASS	T	66944338	T	T	66944338	2	4	129	1	0	0	0	0	0	0	0	1	3101	1219	43	3		3	CDH16	16	66944338	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	302084	66944338	23410415	335	46691										
ZDHHC1	29800	broad.mit.edu	37	chr16	67432782	67432782	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caaagaactccacgaagacaTatgtggccaccagcaccagg	9	13	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:67432782T>A	uc010vjm.1	-	6	900	c.596A>T	c.(595-597)TAT>TTT	p.Y199F		NM_013304	NP_037436	Q8WTX9	ZDHC1_HUMAN	zinc finger, DHHC-type containing 1	199	Helical; (Potential).					integral to membrane	DNA binding|zinc ion binding				0		Ovarian(137;0.223)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0178)|all cancers(182;5.71e-53)|Epithelial(162;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(108;1.53e-29)|Kidney(780;4.37e-05)|BRCA - Breast invasive adenocarcinoma(181;5.8e-05)|GBM - Glioblastoma multiforme(240;0.0022)		CACGAAGACATATGTGGCCAC	0.592													9	23	---	---	---	---	PASS	A	67432782	A	A	67432782	3	1	129	1	0	0	0	0	1	0	0	0	17597	1406	49	5	885	5	ZDHHC1	16	67432782	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	488444	67432782	22921971	336	46692										
ADAT1	23536	broad.mit.edu	37	chr16	75646552	75646552	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aactctgatggtgagctgctCcgttggtgacctccctggct	12	12	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:75646552C>A	uc002feo.1	-	7	734	c.632G>T	c.(631-633)GGA>GTA	p.G211V	ADAT1_uc002fep.1_Missense_Mutation_p.G62V	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	211	A to I editase.				tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						GTGAGCTGCTCCGTTGGTGAC	0.522													28	154	---	---	---	---	PASS	A	75646552	A	A	75646552	3	1	129	1	0	0	0	0	1	0	0	0	284	855	30	2	896	2	ADAT1	16	75646552	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	8213770	75646552	14708201	337	46693										
WWOX	51741	broad.mit.edu	37	chr16	79245607	79245607	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gccgctgcatgccctcaccaGaagctcagagcgaagagacg	12	14	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:79245607G>A	uc002ffk.2	+	9	1284	c.1159G>A	c.(1159-1161)GAA>AAA	p.E387K	WWOX_uc010vnk.1_Missense_Mutation_p.E274K|WWOX_uc002ffl.2_Missense_Mutation_p.E207K|WWOX_uc010che.2_Missense_Mutation_p.R171K	NM_016373	NP_057457	Q9NZC7	WWOX_HUMAN	WW domain-containing oxidoreductase isoform 1	387	Interaction with MAPT (By similarity).				apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)		GCCCTCACCAGAAGCTCAGAG	0.622													23	82	---	---	---	---	PASS	A	79245607	A	A	79245607	3	1	129	1	0	0	0	0	1	0	0	0	17411	943	33	2	1255	2	WWOX	16	79245607	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3599055	79245607	11109146	338	46694										
PKD1L2	114780	broad.mit.edu	37	chr16	81190635	81190635	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atcaccaggaacgtgcttccGaagaaagtgaggtggttgca	13	8	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr16:81190635G>A	uc002fgh.1	-	24	3954	c.3954C>T	c.(3952-3954)TTC>TTT	p.F1318F	PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	1318	GPS.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						ACGTGCTTCCGAAGAAAGTGA	0.577													5	14	---	---	---	---	PASS	A	81190635	A	A	81190635	2	1	129	1	0	0	0	0	0	0	0	1	11965	1049	37	2		2	PKD1L2	16	81190635	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	1945028	81190635	9164118	339	46695										
DVL2	1856	broad.mit.edu	37	chr17	7130726	7130726	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccaggacccagccatacccaGaaaggcattagggatggtga	12	11	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr17:7130726G>A	uc002gez.1	-	12	1642	c.1360C>T	c.(1360-1362)CTG>TTG	p.L454L	DVL2_uc010vtr.1_Silent_p.L448L	NM_004422	NP_004413	O14641	DVL2_HUMAN	dishevelled 2	454	DEP.				canonical Wnt receptor signaling pathway involved in regulation of cell proliferation|intracellular signal transduction|neural tube closure|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|segment specification|transcription from RNA polymerase II promoter	cytosol|nucleus|plasma membrane	frizzled binding|identical protein binding|signal transducer activity			lung(1)|kidney(1)	2						GCCATACCCAGAAAGGCATTA	0.597													17	69	---	---	---	---	PASS	A	7130726	A	A	7130726	2	1	129	1	0	0	0	0	0	0	0	1	4836	933	33	2		2	DVL2	17	7130726	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08		7130726	74064484	340	46696										
TP53	7157	broad.mit.edu	37	chr17	7578190	7578190	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	accagacctcaggcggctcaTagggcaccaccacactatgt	9	15	2	1	rs121912666		TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr17:7578190T>C	uc002gim.2	-	6	853	c.659A>G	c.(658-660)TAT>TGT	p.Y220C	TP53_uc002gig.1_Missense_Mutation_p.Y220C|TP53_uc002gih.2_Missense_Mutation_p.Y220C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y88C|TP53_uc010cng.1_Missense_Mutation_p.Y88C|TP53_uc002gii.1_Missense_Mutation_p.Y88C|TP53_uc010cnh.1_Missense_Mutation_p.Y220C|TP53_uc010cni.1_Missense_Mutation_p.Y220C|TP53_uc002gij.2_Missense_Mutation_p.Y220C|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.Y127C|TP53_uc002gio.2_Missense_Mutation_p.Y88C|TP53_uc010vug.1_Missense_Mutation_p.Y181C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	220	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> N (in sporadic cancers; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> S (in a brain tumor with no family history; germline mutation and in sporadic cancers; somatic mutation).|Y -> F (in a sporadic cancer; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Y220C(205)|p.Y220N(12)|p.Y220H(9)|p.Y220S(9)|p.0?(7)|p.Y220fs*27(4)|p.Y220*(3)|p.Y220D(2)|p.Y127C(2)|p.D208fs*1(1)|p.Y220_P223delYEPP(1)|p.?(1)|p.V218_E224delVPYEPPE(1)|p.V218_E221delVPYE(1)|p.V218_Y220delVPY(1)|p.Y220fs*25(1)|p.V216_Y220delVVVPY(1)|p.Y220fs*1(1)|p.Y220fs*2(1)|p.V218fs*26(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)		AGGCGGCTCATAGGGCACCAC	0.557		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)			11	36	---	---	---	---	PASS	C	7578190	C	C	7578190	3	2	129	1	0	0	0	0	1	0	0	0	16378	1406	49	5	635	5	TP53	17	7578190	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	447464	7578190	73617020	341	46697										
C17orf59	54785	broad.mit.edu	37	chr17	8093017	8093017	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tctgctgcccgcggccgcctCctcgtcgttgtcttcctcct	9	19	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr17:8093017C>T	uc010vut.1	-	1	548	c.442G>A	c.(442-444)GAG>AAG	p.E148K		NM_017622	NP_060092	Q96GS4	CQ059_HUMAN	hypothetical protein LOC54785	148											0						GCGGCCGCCTCCTCGTCGTTG	0.731													3	27	---	---	---	---	PASS	T	8093017	T	T	8093017	3	4	129	1	0	0	0	0	1	0	0	0	1867	864	30	2	635	2	C17orf59	17	8093017	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	514827	8093017	73102193	342	46698										
MYH4	4622	broad.mit.edu	37	chr17	10354133	10354133	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgcctctttaattcttcaatCtgttgtgtaaatgcttgttt	6	7	4	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr17:10354133C>G	uc002gmn.2	-	29	4056	c.3945G>C	c.(3943-3945)CAG>CAC	p.Q1315H	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1315	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						ATTCTTCAATCTGTTGTGTAA	0.403													30	167	---	---	---	---	PASS	G	10354133	G	G	10354133	3	3	129	1	0	0	0	0	1	0	0	0	10037	912	32	2	1922	2	MYH4	17	10354133	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2261116	10354133	70841077	343	46699										
MYH1	4619	broad.mit.edu	37	chr17	10404771	10404771	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttctctgctttggcccgggAggcccgctctgcctcgattt	11	15	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr17:10404771A>C	uc002gmo.2	-	27	3488	c.3394T>G	c.(3394-3396)TCC>GCC	p.S1132A	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1132	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TTGGCCCGGGAGGCCCGCTCT	0.567													13	100	---	---	---	---	PASS	C	10404771	C	C	10404771	3	2	129	1	0	0	0	0	1	0	0	0	10029	304	11	5	2481	5	MYH1	17	10404771	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	50638	10404771	70790439	344	46700										
KIAA0100	9703	broad.mit.edu	37	chr17	26967595	26967595	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cacctcttttgactattcatGgacaataccacgcttgtgtt	6	11	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr17:26967595G>C	uc002hbu.2	-	8	972	c.873C>G	c.(871-873)TCC>TCG	p.S291S	KIAA0100_uc002hbv.2_Silent_p.S291S|KIAA0100_uc010crr.1_Silent_p.S148S	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	291						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					GACTATTCATGGACAATACCA	0.478													20	104	---	---	---	---	PASS	C	26967595	C	C	26967595	2	2	129	1	0	0	0	0	0	0	0	1	8154	1335	47	4		4	KIAA0100	17	26967595	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	16562824	26967595	54227615	345	46701										
NF1	4763	broad.mit.edu	37	chr17	29509539	29509539	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	catgcagaatgtgcagaaaaGctatttgacttggtggatgg	13	5	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr17:29509539G>C	uc002hgg.2	+	8	1077	c.744G>C	c.(742-744)AAG>AAC	p.K248N	NF1_uc002hge.1_Missense_Mutation_p.K248N|NF1_uc002hgf.1_Missense_Mutation_p.K248N|NF1_uc002hgh.2_Missense_Mutation_p.K248N|NF1_uc010csn.1_Missense_Mutation_p.K108N	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	248					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		GTGCAGAAAAGCTATTTGACT	0.358			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			4	69	---	---	---	---	PASS	C	29509539	C	C	29509539	3	2	129	1	0	0	0	0	1	0	0	0	10356	962	34	4	774	4	NF1	17	29509539	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	2541944	29509539	51685671	346	46702										
RHOT1	55288	broad.mit.edu	37	chr17	30533963	30533963	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agaatcggaatttctaactgAagctgaaatcatttgtgatg	9	5	2	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr17:30533963A>C	uc002hgz.2	+	17	1690	c.1451A>C	c.(1450-1452)GAA>GCA	p.E484A	RHOT1_uc002hgw.2_Missense_Mutation_p.E484A|RHOT1_uc002hgy.2_Missense_Mutation_p.E484A|RHOT1_uc002hha.2_Missense_Mutation_p.E357A|RHOT1_uc010csv.2_RNA|RHOT1_uc002hgx.2_Missense_Mutation_p.E357A|RHOT1_uc010wby.1_Missense_Mutation_p.E484A|RHOT1_uc002hhb.2_Missense_Mutation_p.E463A|RHOT1_uc002hgv.2_Missense_Mutation_p.E484A	NM_018307	NP_060777	Q8IXI2	MIRO1_HUMAN	ras homolog gene family, member T1 isoform 3	484	Miro 2.|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(56;0.0255)|Breast(31;0.116)|Ovarian(249;0.182)				TTTCTAACTGAAGCTGAAATC	0.318													26	112	---	---	---	---	PASS	C	30533963	C	C	30533963	3	2	129	1	0	0	0	0	1	0	0	0	13343	246	9	5	1517	5	RHOT1	17	30533963	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	1024424	30533963	50661247	347	46703										
KRT9	3857	broad.mit.edu	37	chr17	39726126	39726126	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cctacctccttatgattcttCttgagggccatcagctcctc	6	15	3	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr17:39726126C>G	uc002hxe.3	-	3	933	c.867G>C	c.(865-867)AAG>AAC	p.K289N	JUP_uc010wfs.1_Intron	NM_000226	NP_000217	P35527	K1C9_HUMAN	keratin 9	289	Rod.|Coil 1B.				intermediate filament organization|skin development		protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Breast(137;0.000307)				TATGATTCTTCTTGAGGGCCA	0.537													49	212	---	---	---	---	PASS	G	39726126	G	G	39726126	3	3	129	1	0	0	0	0	1	0	0	0	8501	912	32	2	1024	2	KRT9	17	39726126	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	9192163	39726126	41469084	348	46704										
G6PC	2538	broad.mit.edu	37	chr17	41052951	41052951	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tccagtcaacacattacctcCaggtgaattaccaagactcc	5	14	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr17:41052951C>T	uc002icb.1	+	1	137	c.58C>T	c.(58-60)CAG>TAG	p.Q20*	LOC388387_uc002ibz.2_5'Flank|LOC388387_uc002iby.2_5'Flank|LOC388387_uc002ica.2_5'Flank|LOC388387_uc010whe.1_5'Flank|G6PC_uc010whf.1_Nonsense_Mutation_p.Q22*	NM_000151	NP_000142	P35575	G6PC_HUMAN	glucose-6-phosphatase, catalytic subunit	20	Lumenal (Potential).		Q -> R (in GSD1A).		gluconeogenesis|glucose homeostasis|transmembrane transport	integral to endoplasmic reticulum membrane	glucose-6-phosphatase activity|phosphate binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.113)		ACATTACCTCCAGGTGAATTA	0.502									Glycogen_Storage_Disease_type_Ia				23	109	---	---	---	---	PASS	T	41052951	T	T	41052951	4	4	129	1	0	0	0	0	0	1	0	0	6143	595	21	3	60	3	G6PC	17	41052951	Nonsense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1326825	41052951	40142259	349	46705										
KIF2B	84643	broad.mit.edu	37	chr17	51901872	51901872	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcagaacaagcctcacacccCattcagagccagcaaactca	5	16	4	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr17:51901872C>T	uc002iua.2	+	1	1634	c.1478C>T	c.(1477-1479)CCA>CTA	p.P493L	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	493					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CCTCACACCCCATTCAGAGCC	0.527													12	58	---	---	---	---	PASS	T	51901872	T	T	51901872	3	4	129	1	0	0	0	0	1	0	0	0	8298	594	21	3	1480	3	KIF2B	17	51901872	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	10848921	51901872	29293338	350	46706										
TTYH2	94015	broad.mit.edu	37	chr17	72245212	72245212	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aacgtcacggagggccagatCagcacaggtaactacacact	10	12	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr17:72245212C>T	uc002jkc.2	+	7	898	c.867C>T	c.(865-867)ATC>ATT	p.I289I	TTYH2_uc010wqw.1_Silent_p.I268I|TTYH2_uc002jkd.2_5'UTR	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	289	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						AGGGCCAGATCAGCACAGGTA	0.572													16	53	---	---	---	---	PASS	T	72245212	T	T	72245212	2	4	129	1	0	0	0	0	0	0	0	1	16737	816	29	2		2	TTYH2	17	72245212	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	20343340	72245212	8949998	351	46707										
EPB41L3	23136	broad.mit.edu	37	chr18	5423483	5423483	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttctcgtttgcgcttgtgtCctgccactataacgaaactt	7	12	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr18:5423483C>A	uc002kmt.1	-	11	1319	c.1233G>T	c.(1231-1233)AGG>AGT	p.R411S	EPB41L3_uc010wzh.1_Missense_Mutation_p.R411S|EPB41L3_uc002kmu.1_Missense_Mutation_p.R411S|EPB41L3_uc010dkq.1_Missense_Mutation_p.R302S|EPB41L3_uc010dkr.2_5'UTR	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	411	Hydrophilic.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GCGCTTGTGTCCTGCCACTAT	0.458													8	60	---	---	---	---	PASS	A	5423483	A	A	5423483	3	1	129	1	0	0	0	0	1	0	0	0	5154	854	30	2	2078	2	EPB41L3	18	5423483	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08		5423483	72653765	352	46708										
ANKRD12	23253	broad.mit.edu	37	chr18	9254883	9254883	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tacatttatttcatatttccActggtaaatctcccaaacat	2	10	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr18:9254883A>T	uc002knv.2	+	9	1875	c.1618A>T	c.(1618-1620)ACT>TCT	p.T540S	ANKRD12_uc002knw.2_Missense_Mutation_p.T517S|ANKRD12_uc002knx.2_Missense_Mutation_p.T517S|ANKRD12_uc010dkx.1_Missense_Mutation_p.T247S	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	540						nucleus				ovary(2)|central_nervous_system(1)	3						TCATATTTCCACTGGTAAATC	0.348													7	84	---	---	---	---	PASS	T	9254883	T	T	9254883	3	4	129	1	0	0	0	0	1	0	0	0	640	159	6	5	1648	5	ANKRD12	18	9254883	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	3831400	9254883	68822365	353	46709										
CEP192	55125	broad.mit.edu	37	chr18	13113642	13113642	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atgcccagttttgggatgttGaatgtcaccctcttaaggag	11	8	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr18:13113642G>C	uc010xac.1	+	41	7185	c.7105G>C	c.(7105-7107)GAA>CAA	p.E2369Q	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.E1894Q|CEP192_uc002kru.2_Intron|CEP192_uc002krv.2_Missense_Mutation_p.E791Q|CEP192_uc002krw.2_Missense_Mutation_p.E518Q|CEP192_uc002krx.2_Missense_Mutation_p.E373Q|CEP192_uc002kry.2_Intron	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	2369										ovary(4)|pancreas(1)	5						TTGGGATGTTGAATGTCACCC	0.398													26	148	---	---	---	---	PASS	C	13113642	C	C	13113642	3	2	129	1	0	0	0	0	1	0	0	0	3251	1291	45	2	7263	2	CEP192	18	13113642	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3858759	13113642	64963606	354	46710										
FAM59A	64762	broad.mit.edu	37	chr18	29867683	29867683	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caaaggaaagtgcatggggaGgatcttgttgttccgcagca	14	7	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr18:29867683G>A	uc002kxl.2	-	4	933	c.877C>T	c.(877-879)CTC>TTC	p.L293F	FAM59A_uc002kxk.1_Missense_Mutation_p.L293F	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	293	CABIT.									ovary(1)|skin(1)	2						TGCATGGGGAGGATCTTGTTG	0.547													25	109	---	---	---	---	PASS	A	29867683	A	A	29867683	3	1	129	1	0	0	0	0	1	0	0	0	5592	1000	35	3	1762	3	FAM59A	18	29867683	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	16754041	29867683	48209565	355	46711										
PIK3C3	5289	broad.mit.edu	37	chr18	39637940	39637940	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gaataaagaaatggtagaagGaatggggggcacacagagtg	16	3	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr18:39637940G>T	uc002lap.2	+	22	2415	c.2357G>T	c.(2356-2358)GGA>GTA	p.G786V	PIK3C3_uc010xcl.1_Missense_Mutation_p.G723V|PIK3C3_uc002laq.2_Missense_Mutation_p.G271V	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	786	PI3K/PI4K.				cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						ATGGTAGAAGGAATGGGGGGC	0.473										TSP Lung(28;0.18)			13	72	---	---	---	---	PASS	T	39637940	T	T	39637940	3	4	129	1	0	0	0	0	1	0	0	0	11912	1174	41	2	2443	2	PIK3C3	18	39637940	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	9770257	39637940	38439308	356	46712										
WDR7	23335	broad.mit.edu	37	chr18	54423947	54423947	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	actcctgactgaagaagcctCtaggccgaatactgctctta	8	12	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr18:54423947C>T	uc002lgk.1	+	15	2334	c.2123C>T	c.(2122-2124)TCT>TTT	p.S708F	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.S708F	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	708										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		GAAGAAGCCTCTAGGCCGAAT	0.428													18	140	---	---	---	---	PASS	T	54423947	T	T	54423947	3	4	129	1	0	0	0	0	1	0	0	0	17317	913	32	2	2177	2	WDR7	18	54423947	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	14786007	54423947	23653301	357	46713										
ALPK2	115701	broad.mit.edu	37	chr18	56247398	56247398	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttcttctgtgttacttggatCataagcctctccagtgtgcc	8	11	4	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr18:56247398C>T	uc002lhj.3	-	4	824	c.610G>A	c.(610-612)GAT>AAT	p.D204N		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	204							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						TTACTTGGATCATAAGCCTCT	0.398													13	347	---	---	---	---	PASS	T	56247398	T	T	56247398	3	4	129	1	0	0	0	0	1	0	0	0	545	826	29	2	5942	2	ALPK2	18	56247398	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1823451	56247398	21829850	358	46714										
PTPRS	5802	broad.mit.edu	37	chr19	5243974	5243974	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgtcgccgacggaggtgaagGcgagcacccgcacggtgtag	17	12	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:5243974G>A	uc002mbv.2	-	11	1742	c.1508C>T	c.(1507-1509)GCC>GTC	p.A503V	PTPRS_uc002mbu.1_Missense_Mutation_p.A490V|PTPRS_uc010xin.1_Missense_Mutation_p.A490V|PTPRS_uc002mbw.2_Missense_Mutation_p.A490V|PTPRS_uc002mbx.2_Missense_Mutation_p.A494V|PTPRS_uc002mby.2_Missense_Mutation_p.A490V	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	503	Extracellular (Potential).|Fibronectin type-III 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GGAGGTGAAGGCGAGCACCCG	0.706													8	21	---	---	---	---	PASS	A	5243974	A	A	5243974	3	1	129	1	0	0	0	0	1	0	0	0	12811	1203	42	3	4450	3	PTPRS	19	5243974	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08		5243974	53885009	359	46715										
DUS3L	56931	broad.mit.edu	37	chr19	5785396	5785396	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tccagcccacccaggcacctGatgcggatccagtcggctgc	11	17	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:5785396G>C	uc002mdc.2	-	12	1975	c.1878C>G	c.(1876-1878)ATC>ATG	p.I626M	PRR22_uc002mdb.1_5'Flank|PRR22_uc010xiv.1_5'Flank|DUS3L_uc002mdd.2_Missense_Mutation_p.I384M|DUS3L_uc010duk.2_Missense_Mutation_p.I291M	NM_020175	NP_064560	Q96G46	DUS3L_HUMAN	dihydrouridine synthase 3-like isoform 1	626					tRNA processing		flavin adenine dinucleotide binding|nucleic acid binding|tRNA dihydrouridine synthase activity|zinc ion binding				0						CCAGGCACCTGATGCGGATCC	0.672													4	10	---	---	---	---	PASS	C	5785396	C	C	5785396	3	2	129	1	0	0	0	0	1	0	0	0	4807	1280	45	2	82	2	DUS3L	19	5785396	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	541422	5785396	53343587	360	46716										
MUC16	94025	broad.mit.edu	37	chr19	9006672	9006672	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agaacactctccgtgatgttGaacttcctggagccagggtg	12	10	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:9006672G>C	uc002mkp.2	-	44	39780	c.39576C>G	c.(39574-39576)TTC>TTG	p.F13192L	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.F9L|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13194	SEA 8.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCGTGATGTTGAACTTCCTGG	0.532													35	175	---	---	---	---	PASS	C	9006672	C	C	9006672	3	2	129	1	0	0	0	0	1	0	0	0	9973	1281	45	2	4111	2	MUC16	19	9006672	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3221276	9006672	50122311	361	46717										
MUC16	94025	broad.mit.edu	37	chr19	9033667	9033667	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctggaaccagggtgccgcatGtcctcctcgtactgcaggtt	12	13	0	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:9033667G>A	uc002mkp.2	-	9	36474	c.36270C>T	c.(36268-36270)GAC>GAT	p.D12090D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12092	SEA 1.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTGCCGCATGTCCTCCTCGT	0.587													14	63	---	---	---	---	PASS	A	9033667	A	A	9033667	2	1	129	1	0	0	0	0	0	0	0	1	9973	1368	48	3		3	MUC16	19	9033667	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	26995	9033667	50095316	362	46718										
MUC16	94025	broad.mit.edu	37	chr19	9083649	9083649	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggggaagtggaagaaggatgGagtggactttctgttactcc	16	5	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:9083649G>T	uc002mkp.2	-	1	8370	c.8166C>A	c.(8164-8166)CTC>CTA	p.L2722L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2722	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AAGAAGGATGGAGTGGACTTT	0.468													20	121	---	---	---	---	PASS	T	9083649	T	T	9083649	2	4	129	1	0	0	0	0	0	0	0	1	9973	1161	41	2		2	MUC16	19	9083649	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	49982	9083649	50045334	363	46719										
ZNF443	10224	broad.mit.edu	37	chr19	12541212	12541212	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agtgaaggctttaccacattGtggacattcataggatttct	9	7	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:12541212G>A	uc002mtu.2	-	4	1972	c.1774C>T	c.(1774-1776)CAA>TAA	p.Q592*		NM_005815	NP_005806	Q9Y2A4	ZN443_HUMAN	zinc finger protein 443	592	C2H2-type 17.				induction of apoptosis|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						TTACCACATTGTGGACATTCA	0.408													39	175	---	---	---	---	PASS	A	12541212	A	A	12541212	4	1	129	1	0	0	0	0	0	1	0	0	17913	1386	48	3	245	3	ZNF443	19	12541212	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	3457563	12541212	46587771	364	46720										
OR7A10	390892	broad.mit.edu	37	chr19	14952021	14952021	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gatgagattgcacgtatggaGgaaactatcttagagtaaga	12	4	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:14952021G>A	uc002mzx.1	-	1	669	c.669C>T	c.(667-669)TCC>TCT	p.S223S		NM_001005190	NP_001005190	O76100	OR7AA_HUMAN	olfactory receptor, family 7, subfamily A,	223	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					CACGTATGGAGGAAACTATCT	0.458													9	81	---	---	---	---	PASS	A	14952021	A	A	14952021	2	1	129	1	0	0	0	0	0	0	0	1	11214	987	35	3		3	OR7A10	19	14952021	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	2410809	14952021	44176962	365	46721										
ZNF585A	199704	broad.mit.edu	37	chr19	37644315	37644315	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgtacaaaagccttcccacaTtcaatgcatacatagagctt	5	11	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:37644315T>A	uc002ofo.1	-	5	717	c.486A>T	c.(484-486)GAA>GAT	p.E162D	ZNF585A_uc002ofm.1_Missense_Mutation_p.E107D|ZNF585A_uc002ofn.1_Missense_Mutation_p.E107D	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	162	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CCTTCCCACATTCAATGCATA	0.373													34	249	---	---	---	---	PASS	A	37644315	A	A	37644315	3	1	129	1	0	0	0	0	1	0	0	0	18014	1490	52	5	1827	5	ZNF585A	19	37644315	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	22692294	37644315	21484668	366	46722										
ZNF383	163087	broad.mit.edu	37	chr19	37733871	37733871	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gctcatacctttctcaacatCagagaatccataccggtaag	6	12	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:37733871C>G	uc002oft.1	+	8	1313	c.733C>G	c.(733-735)CAG>GAG	p.Q245E	ZNF383_uc002ofs.1_Missense_Mutation_p.Q180E|ZNF383_uc002ofu.1_Missense_Mutation_p.Q245E	NM_152604	NP_689817	Q8NA42	ZN383_HUMAN	zinc finger protein 383	245	C2H2-type 3.				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)			TTCTCAACATCAGAGAATCCA	0.408													27	101	---	---	---	---	PASS	G	37733871	G	G	37733871	3	3	129	1	0	0	0	0	1	0	0	0	17871	827	29	2	747	2	ZNF383	19	37733871	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	89556	37733871	21395112	367	46723										
RYR1	6261	broad.mit.edu	37	chr19	38985056	38985056	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caagaggacttcgtgcagagCcccgagctggtgcgggccat	15	12	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:38985056C>A	uc002oit.2	+	39	6469	c.6339C>A	c.(6337-6339)AGC>AGA	p.S2113R	RYR1_uc002oiu.2_Missense_Mutation_p.S2113R|RYR1_uc002oiv.1_5'Flank	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2113	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TCGTGCAGAGCCCCGAGCTGG	0.662													13	56	---	---	---	---	PASS	A	38985056	A	A	38985056	3	1	129	1	0	0	0	0	1	0	0	0	13768	738	26	3	6493	3	RYR1	19	38985056	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1251185	38985056	20143927	368	46724										
NFKBIB	4793	broad.mit.edu	37	chr19	39398189	39398189	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtgccatgctccggcccaacCccatcctcgcccgcctcctc	7	23	0	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:39398189C>G	uc002ojw.2	+	5	917	c.859C>G	c.(859-861)CCC>GCC	p.P287A	NFKBIB_uc002ojx.2_Missense_Mutation_p.P255A|NFKBIB_uc002ojy.2_Missense_Mutation_p.P287A	NM_002503	NP_002494	Q15653	IKBB_HUMAN	nuclear factor of kappa light polypeptide gene	287	ANK 6.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|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|transcription, DNA-dependent	cytosol|nucleus	protein binding|signal transducer activity|transcription coactivator activity			lung(1)|kidney(1)	2	all_cancers(60;4.39e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			CCGGCCCAACCCCATCCTCGC	0.701													12	48	---	---	---	---	PASS	G	39398189	G	G	39398189	3	3	129	1	0	0	0	0	1	0	0	0	10378	623	22	4	877	4	NFKBIB	19	39398189	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	413133	39398189	19730794	369	46725										
QPCTL	54814	broad.mit.edu	37	chr19	46205165	46205165	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gacgaccacatccccttcctCcgcagaggtaccagctgcag	9	17	0	1	rs140632651		TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:46205165C>G	uc010xxr.1	+	6	1217	c.996C>G	c.(994-996)CTC>CTG	p.L332L	QPCTL_uc010ekn.2_Silent_p.L238L	NM_017659	NP_060129	Q9NXS2	QPCTL_HUMAN	glutaminyl-peptide cyclotransferase-like isoform	332					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	Golgi membrane|integral to membrane	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|protein binding|zinc ion binding			skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0059)|GBM - Glioblastoma multiforme(486;0.0882)|Epithelial(262;0.208)		TCCCCTTCCTCCGCAGAGGTA	0.597													10	64	---	---	---	---	PASS	G	46205165	G	G	46205165	2	3	129	1	0	0	0	0	0	0	0	1	12875	842	30	2		2	QPCTL	19	46205165	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	6806976	46205165	12923818	370	46726										
QPCTL	54814	broad.mit.edu	37	chr19	46206205	46206205	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tccacgcccttccctgctgtCtggcacacccctgcggacac	8	20	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:46206205C>G	uc010xxr.1	+	7	1268	c.1047C>G	c.(1045-1047)GTC>GTG	p.V349V	QPCTL_uc010ekn.2_Silent_p.V255V	NM_017659	NP_060129	Q9NXS2	QPCTL_HUMAN	glutaminyl-peptide cyclotransferase-like isoform	349					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	Golgi membrane|integral to membrane	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|protein binding|zinc ion binding			skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0059)|GBM - Glioblastoma multiforme(486;0.0882)|Epithelial(262;0.208)		TCCCTGCTGTCTGGCACACCC	0.602													39	200	---	---	---	---	PASS	G	46206205	G	G	46206205	2	3	129	1	0	0	0	0	0	0	0	1	12875	900	32	2		2	QPCTL	19	46206205	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	1040	46206205	12922778	371	46727										
IRF2BP1	26145	broad.mit.edu	37	chr19	46388288	46388288	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcgccccaccagcccgtgatCcttcttgaagcgcacattga	8	16	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:46388288C>A	uc002pds.1	-	1	1089	c.745G>T	c.(745-747)GAT>TAT	p.D249Y		NM_015649	NP_056464	Q8IU81	I2BP1_HUMAN	interferon regulatory factor 2 binding protein	249					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00442)|GBM - Glioblastoma multiforme(486;0.0402)|Epithelial(262;0.231)		AGCCCGTGATCCTTCTTGAAG	0.632													23	93	---	---	---	---	PASS	A	46388288	A	A	46388288	3	1	129	1	0	0	0	0	1	0	0	0	7829	855	30	2	1013	2	IRF2BP1	19	46388288	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	182083	46388288	12740695	372	46728										
PRR12	57479	broad.mit.edu	37	chr19	50097967	50097967	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tctccagccatgcacacgccAggccccacggagctcttcat	8	18	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:50097967A>T	uc002poo.3	+	4	375	c.375A>T	c.(373-375)CCA>CCT	p.P125P		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	539	Pro-rich.						DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		TGCACACGCCAGGCCCCACGG	0.652													7	21	---	---	---	---	PASS	T	50097967	T	T	50097967	2	4	129	1	0	0	0	0	0	0	0	1	12584	175	7	5		5	PRR12	19	50097967	Silent	SNP	A	TCGA-60-2720-01A-01D-1522-08	3709679	50097967	9031016	373	46729										
KCNC3	3748	broad.mit.edu	37	chr19	50827098	50827098	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	taagaaactccaccttgtctGggcagaaggtgatgcgcatg	12	9	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:50827098G>C	uc002pru.1	-	2	1407	c.1112C>G	c.(1111-1113)CCA>CGA	p.P371R	KCNC3_uc002prt.1_Missense_Mutation_p.P7R	NM_004977	NP_004968	Q14003	KCNC3_HUMAN	Shaw-related voltage-gated potassium channel	371	Cytoplasmic (Potential).				cell death	voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1		all_neural(266;0.057)|Ovarian(192;0.208)		OV - Ovarian serous cystadenocarcinoma(262;0.00283)|GBM - Glioblastoma multiforme(134;0.0181)		CACCTTGTCTGGGCAGAAGGT	0.582													13	77	---	---	---	---	PASS	C	50827098	C	C	50827098	3	2	129	1	0	0	0	0	1	0	0	0	8016	1348	47	4	1173	4	KCNC3	19	50827098	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	729131	50827098	8301885	374	46730										
ZNF649	65251	broad.mit.edu	37	chr19	52395145	52395145	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cagatgatcatcagctttctCaatttctaagagagagaaca	7	8	4	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:52395145C>G	uc002pxy.2	-	5	512	c.244G>C	c.(244-246)GAG>CAG	p.E82Q	ZNF577_uc010ydf.1_5'Flank	NM_023074	NP_075562	Q9BS31	ZN649_HUMAN	zinc finger protein 649	82					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00152)|OV - Ovarian serous cystadenocarcinoma(262;0.0185)		TCAGCTTTCTCAATTTCTAAG	0.413													17	112	---	---	---	---	PASS	G	52395145	G	G	52395145	3	3	129	1	0	0	0	0	1	0	0	0	18061	835	29	2	1277	2	ZNF649	19	52395145	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1568047	52395145	6733838	375	46731										
ZNF616	90317	broad.mit.edu	37	chr19	52627196	52627196	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctaggaagaccaggttcctaTagttctccaacatcacatcc	6	13	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:52627196T>C	uc002pym.2	-	3	402	c.119A>G	c.(118-120)TAT>TGT	p.Y40C	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	40	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		CAGGTTCCTATAGTTCTCCAA	0.433													24	127	---	---	---	---	PASS	C	52627196	C	C	52627196	3	2	129	1	0	0	0	0	1	0	0	0	18038	1406	49	5	2234	5	ZNF616	19	52627196	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	232051	52627196	6501787	376	46732										
ZNF600	162966	broad.mit.edu	37	chr19	53269954	53269954	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgtaagttttctctccagtgTgaattcttttatgtcttgcc	7	8	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:53269954T>A	uc002qab.3	-	3	1341	c.1055A>T	c.(1054-1056)CAC>CTC	p.H352L		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	352	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		CTCTCCAGTGTGAATTCTTTT	0.398													34	200	---	---	---	---	PASS	A	53269954	A	A	53269954	3	1	129	1	0	0	0	0	1	0	0	0	18027	1696	59	5	1117	5	ZNF600	19	53269954	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	642758	53269954	5859029	377	46733										
ZNF665	79788	broad.mit.edu	37	chr19	53669219	53669219	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	catcacatttataatgttttCctcgattattaggagacttc	5	8	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:53669219C>T	uc010eqm.1	-	4	624	c.524G>A	c.(523-525)GGA>GAA	p.G175E		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	110					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		ATAATGTTTTCCTCGATTATT	0.383													42	242	---	---	---	---	PASS	T	53669219	T	T	53669219	3	4	129	1	0	0	0	0	1	0	0	0	18070	855	30	2	1516	2	ZNF665	19	53669219	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	399265	53669219	5459764	378	46734										
LILRB2	10288	broad.mit.edu	37	chr19	54782843	54782843	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gctggcgaaggtcacgttccCcctccttgtacagaacaaat	9	13	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:54782843C>T	uc002qfb.2	-	6	1045	c.779G>A	c.(778-780)GGG>GAG	p.G260E	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Missense_Mutation_p.G260E|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Missense_Mutation_p.G260E|LILRB2_uc010yet.1_Missense_Mutation_p.G144E|LILRB2_uc010yeu.1_RNA	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	260	Extracellular (Potential).|Ig-like C2-type 3.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GTCACGTTCCCCCTCCTTGTA	0.652													24	94	---	---	---	---	PASS	T	54782843	T	T	54782843	3	4	129	1	0	0	0	0	1	0	0	0	8791	623	22	3	1053	3	LILRB2	19	54782843	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1113624	54782843	4346140	379	46735										
KIR2DL3	3804	broad.mit.edu	37	chr19	55253692	55253692	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	actccccctatcagttgtcaGctcccagtgaccctctggac	7	17	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:55253692G>A	uc002qgv.2	+	3	355	c.337G>A	c.(337-339)GCT>ACT	p.A113T	KIR2DL3_uc002qgx.2_Missense_Mutation_p.A113T|KIR2DL3_uc002qgy.2_Missense_Mutation_p.A113T|KIR2DL3_uc010erw.1_Missense_Mutation_p.A113T|KIR2DL1_uc002qgz.1_Missense_Mutation_p.A23T|KIR2DL3_uc002qha.1_RNA	NM_015868	NP_056952	P43628	KI2L3_HUMAN	killer cell immunoglobulin-like receptor, two	113	Extracellular (Potential).				immune response|regulation of immune response	integral to plasma membrane	antigen binding|protein binding|receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		TCAGTTGTCAGCTCCCAGTGA	0.532													39	377	---	---	---	---	PASS	A	55253692	A	A	55253692	3	1	129	1	0	0	0	0	1	0	0	0	8317	971	34	3	347	3	KIR2DL3	19	55253692	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	470849	55253692	3875291	380	46736										
NLRP9	338321	broad.mit.edu	37	chr19	56223865	56223865	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agtgtctcctatttcattatGcccaagtttcagggtcttca	7	10	5	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:56223865G>C	uc002qly.2	-	7	2621	c.2593C>G	c.(2593-2595)CAT>GAT	p.H865D		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	865	LRR 5.					cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		ATTTCATTATGCCCAAGTTTC	0.458													11	94	---	---	---	---	PASS	C	56223865	C	C	56223865	3	2	129	1	0	0	0	0	1	0	0	0	10484	1319	46	4	394	4	NLRP9	19	56223865	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	970173	56223865	2905118	381	46737										
NLRP8	126205	broad.mit.edu	37	chr19	56487670	56487670	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgtacattacagatcctggaGtaagtggcccctcgtctcct	9	12	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:56487670G>C	uc002qmh.2	+	8	2947	c.2876_splice	c.e8+1	p.E959_splice	NLRP8_uc010etg.2_Splice_Site_p.E940_splice	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8							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)		AGATCCTGGAGTAAGTGGCCC	0.453													14	81	---	---	---	---	PASS	C	56487670	C	C	56487670	5	2	129	1	0	0	0	0	0	0	1	0	10483	1043	36	4	2907	4	NLRP8	19	56487670	Splice_Site	SNP	G	TCGA-60-2720-01A-01D-1522-08	263805	56487670	2641313	382	46738										
ZNF471	57573	broad.mit.edu	37	chr19	57036767	57036767	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gaaagattttagccatcatgCatcactcactcagcatcaaa	5	11	5	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr19:57036767C>T	uc002qnh.2	+	5	1464	c.1331C>T	c.(1330-1332)GCA>GTA	p.A444V		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	444	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		AGCCATCATGCATCACTCACT	0.418													8	160	---	---	---	---	PASS	T	57036767	T	T	57036767	3	4	129	1	0	0	0	0	1	0	0	0	17927	710	25	3	1345	3	ZNF471	19	57036767	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	549097	57036767	2092216	383	46739										
NOP56	10528	broad.mit.edu	37	chr20	2638797	2638797	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aggaaacagttaatgaccctGaggaggcaggccacagaagt	13	8	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr20:2638797G>C	uc002wgh.2	+	12	1695	c.1642G>C	c.(1642-1644)GAG>CAG	p.E548Q	NOP56_uc010zpy.1_RNA|NOP56_uc002wgi.2_Missense_Mutation_p.E382Q|NOP56_uc002wgm.1_3'UTR	NM_006392	NP_006383	O00567	NOP56_HUMAN	nucleolar protein 5A	548	Lys-rich.				rRNA processing	box C/D snoRNP complex|pre-snoRNP complex	protein binding|snoRNA binding			ovary(1)|pancreas(1)	2						TAATGACCCTGAGGAGGCAGG	0.537													9	22	---	---	---	---	PASS	C	2638797	C	C	2638797	3	2	129	1	0	0	0	0	1	0	0	0	10539	1291	45	2	1688	2	NOP56	20	2638797	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08		2638797	60386723	384	46740										
SLC4A11	83959	broad.mit.edu	37	chr20	3218260	3218260	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agggaagcagaaaggtcaccAgccccatggaccaagccctg	12	13	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr20:3218260A>G	uc002wig.2	-	1	114	c.66T>C	c.(64-66)GCT>GCC	p.A22A	SLC4A11_uc010zqe.1_Intron|SLC4A11_uc002wih.2_Intron|SLC4A11_uc010zqf.1_Intron	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	22	Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						AAAGGTCACCAGCCCCATGGA	0.592													37	177	---	---	---	---	PASS	G	3218260	G	G	3218260	2	3	129	1	0	0	0	0	0	0	0	1	14652	175	7	5		5	SLC4A11	20	3218260	Silent	SNP	A	TCGA-60-2720-01A-01D-1522-08	579463	3218260	59807260	385	46741										
JAG1	182	broad.mit.edu	37	chr20	10639146	10639146	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttcggggcccatccagccttCcatgcaagttttgttgccat	9	13	0	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr20:10639146C>A	uc002wnw.2	-	4	1180	c.664G>T	c.(664-666)GAA>TAA	p.E222*		NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	222	Extracellular (Potential).|DSL.				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						ATCCAGCCTTCCATGCAAGTT	0.498									Alagille_Syndrome				48	184	---	---	---	---	PASS	A	10639146	A	A	10639146	4	1	129	1	0	0	0	0	0	1	0	0	7934	864	30	2	3084	2	JAG1	20	10639146	Nonsense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	7420886	10639146	52386374	386	46742										
C20orf12	55184	broad.mit.edu	37	chr20	18379240	18379240	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cataacacctgaggtgagcaGagatgtgatccagctgtctt	11	9	1	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr20:18379240G>C	uc010zsa.1	-	14	1729	c.1520C>G	c.(1519-1521)TCT>TGT	p.S507C	C20orf12_uc010zrz.1_Missense_Mutation_p.S26C|C20orf12_uc002wqp.3_Missense_Mutation_p.S198C|C20orf12_uc002wqr.3_RNA|C20orf12_uc002wqs.3_Missense_Mutation_p.S374C|C20orf12_uc002wqq.3_Missense_Mutation_p.S488C	NM_001099407	NP_001092877	Q9NVP4	CT012_HUMAN	hypothetical protein LOC55184	315						intracellular	zinc ion binding			ovary(1)	1		Myeloproliferative disorder(85;0.0122)				GAGGTGAGCAGAGATGTGATC	0.433													46	185	---	---	---	---	PASS	C	18379240	C	C	18379240	3	2	129	1	0	0	0	0	1	0	0	0	2085	942	33	2	827	2	C20orf12	20	18379240	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	7740094	18379240	44646280	387	46743										
BPIL3	128859	broad.mit.edu	37	chr20	31622639	31622639	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccaaccggcttctgcgggatGaggagacaggcctccccgtg	14	14	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr20:31622639G>T	uc010zuc.1	+	4	373	c.373G>T	c.(373-375)GAG>TAG	p.E125*	BPIL3_uc010zud.1_Nonsense_Mutation_p.E64*	NM_174897	NP_777557	Q8NFQ5	BPIL3_HUMAN	bactericidal/permeability-increasing	125						extracellular region	lipid binding			ovary(1)|pancreas(1)	2						TCTGCGGGATGAGGAGACAGG	0.592													20	114	---	---	---	---	PASS	T	31622639	T	T	31622639	4	4	129	1	0	0	0	0	0	1	0	0	1493	1291	45	2	387	2	BPIL3	20	31622639	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	13243399	31622639	31402881	388	46744										
PLUNC	51297	broad.mit.edu	37	chr20	31825567	31825567	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctacgggctgttagcccagaCcatggcccagtttggaggcc	13	13	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr20:31825567C>A	uc002wyv.2	+	2	120	c.50C>A	c.(49-51)ACC>AAC	p.T17N	PLUNC_uc002wyt.3_Missense_Mutation_p.T17N|PLUNC_uc002wyu.3_Missense_Mutation_p.T17N	NM_130852	NP_570913	Q9NP55	PLUNC_HUMAN	palate, lung and nasal epithelium associated	17					innate immune response	extracellular region	lipid binding				0						TTAGCCCAGACCATGGCCCAG	0.562													14	107	---	---	---	---	PASS	A	31825567	A	A	31825567	3	1	129	1	0	0	0	0	1	0	0	0	12115	507	18	3	52	3	PLUNC	20	31825567	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	202928	31825567	31199953	389	46745										
LBP	3929	broad.mit.edu	37	chr20	36975032	36975032	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgccaggatcaccgacaaggGactgcagtatggtaagaagc	13	10	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr20:36975032G>C	uc002xic.1	+	1	148	c.113G>C	c.(112-114)GGA>GCA	p.G38A		NM_004139	NP_004130	P18428	LBP_HUMAN	lipopolysaccharide-binding protein precursor	38					acute-phase response|cellular defense response|cellular response to lipoteichoic acid|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|detection of molecule of bacterial origin|innate immune response|lipid transport|lipopolysaccharide transport|lipopolysaccharide-mediated signaling pathway|macrophage activation involved in immune response|negative regulation of tumor necrosis factor production|opsonization|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of macrophage activation|positive regulation of respiratory burst involved in inflammatory response|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of tumor necrosis factor production|Toll signaling pathway	extracellular space	Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|lipid binding|lipopolysaccharide binding|lipoteichoic acid binding|receptor binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.00878)				ACCGACAAGGGACTGCAGTAT	0.622													8	60	---	---	---	---	PASS	C	36975032	C	C	36975032	3	2	129	1	0	0	0	0	1	0	0	0	8651	1174	41	2	115	2	LBP	20	36975032	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	5149465	36975032	26050488	390	46746										
PTPRT	11122	broad.mit.edu	37	chr20	40730766	40730766	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgcccgggctcggcttacatCcatcagtgctgcgttgatgt	12	12	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr20:40730766C>G	uc002xkg.2	-	26	3896	c.3712G>C	c.(3712-3714)GAT>CAT	p.D1238H	PTPRT_uc010ggj.2_Missense_Mutation_p.D1257H|PTPRT_uc010ggi.2_Missense_Mutation_p.D441H	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1238	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CGGCTTACATCCATCAGTGCT	0.557													11	88	---	---	---	---	PASS	G	40730766	G	G	40730766	3	3	129	1	0	0	0	0	1	0	0	0	12812	855	30	2	637	2	PTPRT	20	40730766	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	3755734	40730766	22294754	391	46747										
C20orf85	128602	broad.mit.edu	37	chr20	56735872	56735872	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgctggcccaagcagggcgtGcactgaatccagacggagtt	14	11	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr20:56735872G>C	uc002xyv.2	+	4	446	c.408G>C	c.(406-408)GTG>GTC	p.V136V		NM_178456	NP_848551	Q9H1P6	CT085_HUMAN	hypothetical protein LOC128602	136										ovary(1)	1	all_epithelial(3;5.99e-14)|Lung NSC(12;0.000152)|all_lung(29;0.000518)|Melanoma(10;0.118)		BRCA - Breast invasive adenocarcinoma(13;5.53e-12)|Epithelial(14;7.42e-08)|all cancers(14;7.19e-07)			AGCAGGGCGTGCACTGAATCC	0.607													8	45	---	---	---	---	PASS	C	56735872	C	C	56735872	2	2	129	1	0	0	0	0	0	0	0	1	2120	1306	46	4		4	C20orf85	20	56735872	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	16005106	56735872	6289648	392	46748										
NCAM2	4685	broad.mit.edu	37	chr21	22881368	22881368	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gaactcgaagaaggaaaagcTgcatacctgtgagtatcagg	12	7	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr21:22881368T>A	uc002yld.1	+	16	2523	c.2274T>A	c.(2272-2274)GCT>GCA	p.A758A	NCAM2_uc011acb.1_Silent_p.A616A	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	758	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		AAGGAAAAGCTGCATACCTGT	0.453													13	87	---	---	---	---	PASS	A	22881368	A	A	22881368	2	1	129	1	0	0	0	0	0	0	0	1	10203	1567	55	5		5	NCAM2	21	22881368	Silent	SNP	T	TCGA-60-2720-01A-01D-1522-08		22881368	25248527	393	46749										
HLCS	3141	broad.mit.edu	37	chr21	38309503	38309503	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccccagcaggctcactcccaGaggcactgcctctcctttgt	8	18	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr21:38309503G>C	uc010gnb.2	-	4	1443	c.242C>G	c.(241-243)TCT>TGT	p.S81C	HLCS_uc002yvs.2_Missense_Mutation_p.S81C|HLCS_uc010gnc.1_Missense_Mutation_p.S228C	NM_000411	NP_000402	P50747	BPL1_HUMAN	holocarboxylase synthetase	81					cell proliferation|histone biotinylation|response to biotin	chromatin|cytosol|mitochondrion|nuclear lamina|nuclear matrix	ATP binding|biotin binding|biotin-[acetyl-CoA-carboxylase] ligase activity|biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity|biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity|biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity|enzyme binding			ovary(2)|breast(1)|kidney(1)|liver(1)	5		Myeloproliferative disorder(46;0.0422)			Biotin(DB00121)	CTCACTCCCAGAGGCACTGCC	0.547													10	110	---	---	---	---	PASS	C	38309503	C	C	38309503	3	2	129	1	0	0	0	0	1	0	0	0	7213	942	33	2	1970	2	HLCS	21	38309503	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	15428135	38309503	9820392	394	46750										
RGL4	266747	broad.mit.edu	37	chr22	24034931	24034931	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	accaccactgctggcggaccTggggcctgctctggagccag	14	15	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr22:24034931T>C	uc002zxn.2	+	3	1619	c.449T>C	c.(448-450)CTG>CCG	p.L150P	LOC91316_uc002zxh.3_RNA|LOC91316_uc002zxi.3_RNA|LOC91316_uc002zxk.3_Intron|LOC91316_uc010gua.2_Intron|LOC91316_uc002zxl.3_Intron|LOC91316_uc011aiz.1_Intron|LOC91316_uc002zxm.3_Intron|RGL4_uc002zxo.2_Missense_Mutation_p.L150P|RGL4_uc002zxp.1_Missense_Mutation_p.L14P|RGL4_uc002zxq.2_Missense_Mutation_p.L14P	NM_153615	NP_705843	Q8IZJ4	RGDSR_HUMAN	ral guanine nucleotide dissociation	150	Pro-rich.				small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle	guanyl-nucleotide exchange factor activity			ovary(1)	1						CTGGCGGACCTGGGGCCTGCT	0.627													19	95	---	---	---	---	PASS	C	24034931	C	C	24034931	3	2	129	1	0	0	0	0	1	0	0	0	13279	1580	55	5	459	5	RGL4	22	24034931	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08		24034931	27269635	395	46751										
ASPHD2	57168	broad.mit.edu	37	chr22	26829924	26829924	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gccagtcccctgagtgcgtgCgctgcacccacaacgagggc	13	16	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr22:26829924C>T	uc003acg.2	+	2	740	c.343C>T	c.(343-345)CGC>TGC	p.R115C		NM_020437	NP_065170	Q6ICH7	ASPH2_HUMAN	aspartate beta-hydroxylase domain containing 2	115	Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity			ovary(1)	1						TGAGTGCGTGCGCTGCACCCA	0.642													8	44	---	---	---	---	PASS	T	26829924	T	T	26829924	3	4	129	1	0	0	0	0	1	0	0	0	1055	768	27	1	345	1	ASPHD2	22	26829924	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2794993	26829924	24474642	396	46752										
NEFH	4744	broad.mit.edu	37	chr22	29884889	29884889	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggctttggcccaattcctttCtcgcttccagaaggactccc	8	15	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr22:29884889C>T	uc003afo.2	+	4	1331	c.1260C>T	c.(1258-1260)TTC>TTT	p.F420F	NEFH_uc003afp.2_5'Flank	NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	420	Tail.				cell death|nervous system development	neurofilament					0						CAATTCCTTTCTCGCTTCCAG	0.448													31	134	---	---	---	---	PASS	T	29884889	T	T	29884889	2	4	129	1	0	0	0	0	0	0	0	1	10314	912	32	2		2	NEFH	22	29884889	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	3054965	29884889	21419677	397	46753										
LIMK2	3985	broad.mit.edu	37	chr22	31661978	31661978	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctggccccagctccccaaagGagcccctgctgttcagccgt	10	18	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr22:31661978G>C	uc003akh.2	+	8	1046	c.901G>C	c.(901-903)GAG>CAG	p.E301Q	LIMK2_uc003akg.2_Missense_Mutation_p.E218Q|LIMK2_uc003aki.2_Missense_Mutation_p.E55Q|LIMK2_uc003akj.2_Missense_Mutation_p.E280Q|LIMK2_uc003akk.2_Missense_Mutation_p.E280Q|LIMK2_uc011aln.1_Missense_Mutation_p.E218Q	NM_005569	NP_005560	P53671	LIMK2_HUMAN	LIM domain kinase 2 isoform 2a	301						mitochondrion|nucleus	ATP binding|protein serine/threonine kinase activity|zinc ion binding			ovary(2)	2						CTCCCCAAAGGAGCCCCTGCT	0.567													13	95	---	---	---	---	PASS	C	31661978	C	C	31661978	3	2	129	1	0	0	0	0	1	0	0	0	8802	1175	41	2	988	2	LIMK2	22	31661978	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1777089	31661978	19642588	398	46754										
MCM5	4174	broad.mit.edu	37	chr22	35799254	35799254	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tactggattgaggtggagatGgaggatctggccagctttga	16	5	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr22:35799254G>A	uc003anu.3	+	3	316	c.222G>A	c.(220-222)ATG>ATA	p.M74I	MCM5_uc010gwr.2_5'UTR|MCM5_uc003anv.3_Missense_Mutation_p.M74I	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	74					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						AGGTGGAGATGGAGGATCTGG	0.587													9	84	---	---	---	---	PASS	A	35799254	A	A	35799254	3	1	129	1	0	0	0	0	1	0	0	0	9390	1348	47	3	228	3	MCM5	22	35799254	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	4137276	35799254	15505312	399	46755										
ACO2	50	broad.mit.edu	37	chr22	41918985	41918985	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgcgccaccattgagcgggaCggctatgtgagtgcccatat	13	12	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr22:41918985C>A	uc003bac.2	+	10	1312	c.1290C>A	c.(1288-1290)GAC>GAA	p.D430E	ACO2_uc003bad.2_Missense_Mutation_p.D455E	NM_001098	NP_001089	Q99798	ACON_HUMAN	aconitase 2, mitochondrial precursor	430					citrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron ion binding|isocitrate hydro-lyase (cis-aconitate-forming) activity			breast(2)|ovary(1)|lung(1)	4						TTGAGCGGGACGGCTATGTGA	0.642													3	120	---	---	---	---	PASS	A	41918985	A	A	41918985	3	1	129	1	0	0	0	0	1	0	0	0	147	535	19	1	1328	1	ACO2	22	41918985	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	6119731	41918985	9385581	400	46756										
CYP2D6	1565	broad.mit.edu	37	chr22	42522959	42522959	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcccagacggcctcatccttCagcaccgatgacaggttggt	10	14	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr22:42522959C>T	uc003bce.2	-	8	1299	c.1209G>A	c.(1207-1209)CTG>CTA	p.L403L	uc003bcd.1_Intron|CYP2D6_uc010gyu.2_Silent_p.L97L|CYP2D6_uc003bcf.2_Silent_p.L352L	NM_000106	NP_000097	Q6NWU0	Q6NWU0_HUMAN	cytochrome P450, family 2, subfamily D,	403							electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen			breast(1)|skin(1)	2						CCTCATCCTTCAGCACCGATG	0.602													9	12	---	---	---	---	PASS	T	42522959	T	T	42522959	2	4	129	1	0	0	0	0	0	0	0	1	4169	813	29	2		2	CYP2D6	22	42522959	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	603974	42522959	8781607	401	46757										
CYP2D6	1565	broad.mit.edu	37	chr22	42523955	42523955	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cactatgcacaggttctcatCattgaagctgctctcagggt	9	11	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr22:42523955C>T	uc003bce.2	-	6	964	c.874G>A	c.(874-876)GAT>AAT	p.D292N	uc003bcd.1_Intron|CYP2D6_uc010gyu.2_Intron|CYP2D6_uc003bcf.2_Missense_Mutation_p.D241N	NM_000106	NP_000097	Q6NWU0	Q6NWU0_HUMAN	cytochrome P450, family 2, subfamily D,	292							electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen			breast(1)|skin(1)	2						AGGTTCTCATCATTGAAGCTG	0.597													14	96	---	---	---	---	PASS	T	42523955	T	T	42523955	3	4	129	1	0	0	0	0	1	0	0	0	4169	826	29	2	635	2	CYP2D6	22	42523955	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	996	42523955	8780611	402	46758										
KIAA1644	85352	broad.mit.edu	37	chr22	44696781	44696781	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcagaaaacagcaatgagaaGaggacggcgagcacgttcaa	13	8	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr22:44696781G>A	uc003bet.2	-	2	178	c.45C>T	c.(43-45)CTC>CTT	p.L15L		NM_001099294	NP_001092764	Q3SXP7	K1644_HUMAN	hypothetical protein LOC85352 precursor	15						integral to membrane				ovary(1)	1		all_neural(38;0.0762)|Ovarian(80;0.105)|Glioma(61;0.222)				GCAATGAGAAGAGGACGGCGA	0.597													7	50	---	---	---	---	PASS	A	44696781	A	A	44696781	2	1	129	1	0	0	0	0	0	0	0	1	8250	929	33	2		2	KIAA1644	22	44696781	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	2172826	44696781	6607785	403	46759										
BRD1	23774	broad.mit.edu	37	chr22	50217446	50217446	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggcggggacgcagtcgccctTgcgcttctcattgacgatct	13	13	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr22:50217446T>A	uc003biv.2	-	1	1007	c.520A>T	c.(520-522)AAG>TAG	p.K174*	BRD1_uc011arf.1_5'UTR|BRD1_uc011arg.1_Nonsense_Mutation_p.K174*|BRD1_uc011arh.1_Nonsense_Mutation_p.K174*|BRD1_uc003biu.3_Nonsense_Mutation_p.K174*	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	174					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CAGTCGCCCTTGCGCTTCTCA	0.582													6	64	---	---	---	---	PASS	A	50217446	A	A	50217446	4	1	129	1	0	0	0	0	0	1	0	0	1501	1821	63	5	2704	5	BRD1	22	50217446	Nonsense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	5520665	50217446	1087120	404	46760										
CPT1B	1375	broad.mit.edu	37	chr22	51009322	51009322	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cccaacaacggtgctgacctCagcaaggaaaggagagctga	12	11	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chr22:51009322C>T	uc003bmk.3	-	15	2188	c.2026G>A	c.(2026-2028)GAG>AAG	p.E676K	CPT1B_uc003bml.2_Missense_Mutation_p.E676K|CPT1B_uc003bmm.2_Missense_Mutation_p.E676K|CPT1B_uc003bmo.2_Missense_Mutation_p.E676K|CPT1B_uc011asa.1_Missense_Mutation_p.E642K|CPT1B_uc003bmn.2_Missense_Mutation_p.E676K|CPT1B_uc011asb.1_Missense_Mutation_p.E595K|CHKB-CPT1B_uc003bmp.2_Missense_Mutation_p.E471K|uc003bmr.1_5'Flank	NM_001145137	NP_001138609	Q92523	CPT1B_HUMAN	carnitine palmitoyltransferase 1B isoform a	676	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)	2		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		all cancers(3;3.56e-77)|OV - Ovarian serous cystadenocarcinoma(4;5.39e-74)|Epithelial(4;5.58e-70)|GBM - Glioblastoma multiforme(4;5.59e-08)|LUAD - Lung adenocarcinoma(64;0.0016)|Lung(4;0.00942)|BRCA - Breast invasive adenocarcinoma(115;0.207)		GTGCTGACCTCAGCAAGGAAA	0.577													29	225	---	---	---	---	PASS	T	51009322	T	T	51009322	3	4	129	1	0	0	0	0	1	0	0	0	3832	835	29	2	308	2	CPT1B	22	51009322	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	791876	51009322	295244	405	46761										
WWC3	55841	broad.mit.edu	37	chrX	10109498	10109498	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gaagatagcattcttcacaaGgccaaggatcaacatacctc	7	11	3	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:10109498G>T	uc004csx.3	+	23	3434	c.3236G>T	c.(3235-3237)AGG>ATG	p.R1079M	WWC3_uc010nds.2_Missense_Mutation_p.R743M|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	1079										ovary(4)	4						TTCTTCACAAGGCCAAGGATC	0.463													9	101	---	---	---	---	PASS	T	10109498	T	T	10109498	3	4	129	1	0	0	0	0	1	0	0	0	17410	1000	35	3	3322	3	WWC3	23	10109498	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08		10109498	145161062	406	46762										
ASB11	140456	broad.mit.edu	37	chrX	15311321	15311321	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctgcctcatggatgggcgagGccaggtgcacctccaactgg	14	13	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:15311321G>T	uc004cwp.1	-	4	491	c.491C>A	c.(490-492)GCC>GAC	p.A164D	ASB11_uc004cwo.1_Missense_Mutation_p.A143D|ASB11_uc010nes.1_RNA|ASB11_uc010net.1_Missense_Mutation_p.A147D	NM_080873	NP_543149	Q8WXH4	ASB11_HUMAN	ankyrin repeat and SOCS box-containing protein	164	ANK 4.				intracellular signal transduction					breast(2)|skin(1)	3	Hepatocellular(33;0.183)					GATGGGCGAGGCCAGGTGCAC	0.542													24	284	---	---	---	---	PASS	T	15311321	T	T	15311321	3	4	129	1	0	0	0	0	1	0	0	0	1015	1203	42	3	496	3	ASB11	23	15311321	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	5201823	15311321	139959239	407	46763										
TMEM27	57393	broad.mit.edu	37	chrX	15657880	15657880	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgatccggttcttgttcattCtaaaatgcaatgataattaa	6	6	3	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:15657880C>G	uc004cxc.1	-	5	574	c.318_splice	c.e5-1	p.R106_splice		NM_020665	NP_065716	Q9HBJ8	TMM27_HUMAN	transmembrane protein 27 precursor						proteolysis	integral to membrane	metallopeptidase activity|peptidyl-dipeptidase activity			ovary(1)	1	Hepatocellular(33;0.183)					CTTGTTCATTCTAAAATGCAA	0.313													16	215	---	---	---	---	PASS	G	15657880	G	G	15657880	5	3	129	1	0	0	0	0	0	0	1	0	16149	927	32	2	359	2	TMEM27	23	15657880	Splice_Site	SNP	C	TCGA-60-2720-01A-01D-1522-08	346559	15657880	139612680	408	46764										
SCML2	10389	broad.mit.edu	37	chrX	18283874	18283874	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	actgcattgaatgctggcttGcttcggaaggagaagactct	12	8	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:18283874G>T	uc004cyl.2	-	8	936	c.779C>A	c.(778-780)GCA>GAA	p.A260E	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_Missense_Mutation_p.A260E|SCML2_uc011miz.1_Missense_Mutation_p.A194E|SCML2_uc010nfc.2_5'UTR	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	260					anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					ATGCTGGCTTGCTTCGGAAGG	0.368													24	177	---	---	---	---	PASS	T	18283874	T	T	18283874	3	4	129	1	0	0	0	0	1	0	0	0	13910	1319	46	3	1355	3	SCML2	23	18283874	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	2625994	18283874	136986686	409	46765										
PHKA2	5256	broad.mit.edu	37	chrX	18919706	18919706	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tggtagggctggatgtggagGagtggatagggcgcactggg	22	4	0	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:18919706G>C	uc004cyv.3	-	27	3354	c.2924C>G	c.(2923-2925)TCC>TGC	p.S975C	PHKA2_uc004cyu.3_Missense_Mutation_p.S273C|PHKA2_uc010nfe.1_Missense_Mutation_p.S25C|PHKA2_uc010nff.1_Intron	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	975					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					GGATGTGGAGGAGTGGATAGG	0.557													11	61	---	---	---	---	PASS	C	18919706	C	C	18919706	3	2	129	1	0	0	0	0	1	0	0	0	11844	1174	41	2	811	2	PHKA2	23	18919706	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	635832	18919706	136350854	410	46766										
GPR64	10149	broad.mit.edu	37	chrX	19021157	19021157	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcaatccacgagtccaggagGaagaccaggttcagcagaag	13	10	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:19021157G>A	uc004cyx.2	-	24	2201	c.2037C>T	c.(2035-2037)TTC>TTT	p.F679F	GPR64_uc004cyy.2_Silent_p.F676F|GPR64_uc004cyz.2_Silent_p.F665F|GPR64_uc004czb.2_Silent_p.F679F|GPR64_uc004czc.2_Silent_p.F663F|GPR64_uc004czd.2_Silent_p.F655F|GPR64_uc004cze.2_Silent_p.F649F|GPR64_uc004czf.2_Silent_p.F641F|GPR64_uc004cza.2_Silent_p.F657F|GPR64_uc004cyw.2_Silent_p.F663F|GPR64_uc010nfj.2_Silent_p.F560F	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	679	Helical; Name=2; (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					AGTCCAGGAGGAAGACCAGGT	0.463													14	136	---	---	---	---	PASS	A	19021157	A	A	19021157	2	1	129	1	0	0	0	0	0	0	0	1	6705	1165	41	2		2	GPR64	23	19021157	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	101451	19021157	136249403	411	46767										
DDX53	168400	broad.mit.edu	37	chrX	23018387	23018387	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggttacagtggatcaaaaatAaaagatctacaacattcgac	7	7	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:23018387A>G	uc004daj.2	+	1	301	c.213A>G	c.(211-213)ATA>ATG	p.I71M		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	71	KH.					nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						GATCAAAAATAAAAGATCTAC	0.398													9	129	---	---	---	---	PASS	G	23018387	G	G	23018387	3	3	129	1	0	0	0	0	1	0	0	0	4371	352	13	5	215	5	DDX53	23	23018387	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	3997230	23018387	132252173	412	46768										
FAM48B1	100130302	broad.mit.edu	37	chrX	24380969	24380969	+	Missense_Mutation	SNP	G	C	C													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tagaaggagatactcacctaGggcgggaaaaactctgcagg							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:24380969G>C	uc011mjx.1	+	1	92	c.92G>C	c.(91-93)AGG>ACG	p.R31T		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						TACTCACCTAGGGCGGGAAAA	0.423													13	167	---	---	---	---	PASS	C	24380969	C	C	24380969	3	2	129	1	0	0	0	0	1	0	0	0	5573	1000	35	4	94	4	FAM48B1	23	24380969	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1362582	24380969	130889591	413	46769	859	2								
FAM48B1	100130302	broad.mit.edu	37	chrX	24380970	24380970	+	Missense_Mutation	SNP	G	T	T													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agaaggagatactcacctagGgcgggaaaaactctgcagga							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:24380970G>T	uc011mjx.1	+	1	93	c.93G>T	c.(91-93)AGG>AGT	p.R31S		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						ACTCACCTAGGGCGGGAAAAA	0.423													12	164	---	---	---	---	PASS	T	24380970	T	T	24380970	3	4	129	1	0	0	0	0	1	0	0	0	5573	1223	43	3	95	3	FAM48B1	23	24380970	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1	24380970	130889590	414	46770	859	2								
FAM47A	158724	broad.mit.edu	37	chrX	34148947	34148947	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctggacctccgacgtgtcttGggatgttccgggtggggatg	17	9	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:34148947G>C	uc004ddg.2	-	1	1482	c.1449C>G	c.(1447-1449)CCC>CCG	p.P483P		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	483										ovary(4)|central_nervous_system(1)	5						GACGTGTCTTGGGATGTTCCG	0.617													18	95	---	---	---	---	PASS	C	34148947	C	C	34148947	2	2	129	1	0	0	0	0	0	0	0	1	5569	1335	47	4		4	FAM47A	23	34148947	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	9767977	34148947	121121613	415	46771										
CXorf36	79742	broad.mit.edu	37	chrX	45013207	45013207	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcatcccggatgaacagatgCccgttgttaaagacgccgaa	11	11	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:45013207C>A	uc004dgg.2	-	4	984	c.909G>T	c.(907-909)GGG>GGT	p.G303G		NM_176819	NP_789789	Q9H7Y0	CX036_HUMAN	hypothetical protein LOC79742 isoform 1	303						extracellular region				lung(1)	1						TGAACAGATGCCCGTTGTTAA	0.537													7	80	---	---	---	---	PASS	A	45013207	A	A	45013207	2	1	129	1	0	0	0	0	0	0	0	1	4106	726	26	3		3	CXorf36	23	45013207	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	10864260	45013207	110257353	416	46772										
ZNF81	347344	broad.mit.edu	37	chrX	47775612	47775612	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	accagaagtctcatactggaGaaaagtcttatatatgtgct	8	7	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:47775612G>C	uc010nhy.1	+	6	1935	c.1567G>C	c.(1567-1569)GAA>CAA	p.E523Q		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	523						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				TCATACTGGAGAAAAGTCTTA	0.418													15	121	---	---	---	---	PASS	C	47775612	C	C	47775612	3	2	129	1	0	0	0	0	1	0	0	0	18171	943	33	2	1581	2	ZNF81	23	47775612	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	2762405	47775612	107494948	417	46773										
GPKOW	27238	broad.mit.edu	37	chrX	48973958	48973958	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttggttccttaccttcccaTagaggcctcggtgagggcca	11	13	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:48973958T>C	uc004dmr.2	-	5	780	c.773A>G	c.(772-774)TAT>TGT	p.Y258C		NM_015698	NP_056513	Q92917	GPKOW_HUMAN	G patch domain and KOW motifs	258	KOW 1.					nucleus	nucleic acid binding			ovary(2)	2						TACCTTCCCATAGAGGCCTCG	0.478													11	101	---	---	---	---	PASS	C	48973958	C	C	48973958	3	2	129	1	0	0	0	0	1	0	0	0	6613	1406	49	5	685	5	GPKOW	23	48973958	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	1198346	48973958	106296602	418	46774										
CACNA1F	778	broad.mit.edu	37	chrX	49066420	49066420	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccgtctggtggggggatgacCtcatctagcagcttctgttt	13	10	4	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:49066420C>A	uc004dnb.2	-	40	4766	c.4704G>T	c.(4702-4704)GAG>GAT	p.E1568D	CACNA1F_uc010nip.2_Missense_Mutation_p.E1557D	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	1568	Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	GGGGGATGACCTCATCTAGCA	0.592													8	97	---	---	---	---	PASS	A	49066420	A	A	49066420	3	1	129	1	0	0	0	0	1	0	0	0	2543	680	24	3	1265	3	CACNA1F	23	49066420	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	92462	49066420	106204140	419	46775										
CCDC22	28952	broad.mit.edu	37	chrX	49105371	49105371	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcaacatccggaagcagaagGaagagatcaccaaggtacac	11	10	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:49105371G>T	uc004dnd.1	+	13	1681	c.1525G>T	c.(1525-1527)GAA>TAA	p.E509*	CCDC22_uc004dnc.1_RNA	NM_014008	NP_054727	O60826	CCD22_HUMAN	coiled-coil domain containing 22	509	Potential.									central_nervous_system(1)	1						GAAGCAGAAGGAAGAGATCAC	0.607													5	39	---	---	---	---	PASS	T	49105371	T	T	49105371	4	4	129	1	0	0	0	0	0	1	0	0	2797	1175	41	2	1575	2	CCDC22	23	49105371	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	38951	49105371	106165189	420	46776										
SHROOM4	57477	broad.mit.edu	37	chrX	50350966	50350966	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccaagctgatgtgactctctGagaaggcacggctgcgcagt	13	11	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:50350966G>C	uc004dpe.2	-	6	3202	c.3176C>G	c.(3175-3177)TCA>TGA	p.S1059*	SHROOM4_uc004dpd.3_RNA	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	1059					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					GTGACTCTCTGAGAAGGCACG	0.557													10	87	---	---	---	---	PASS	C	50350966	C	C	50350966	4	2	129	1	0	0	0	0	0	1	0	0	14296	1294	45	2	1321	2	SHROOM4	23	50350966	Nonsense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1245595	50350966	104919594	421	46777										
SHROOM4	57477	broad.mit.edu	37	chrX	50377427	50377427	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cttcttcacctgcctctgtgCcactagctgctttagtggtt	8	13	3	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:50377427C>G	uc004dpe.2	-	4	1672	c.1646G>C	c.(1645-1647)GGC>GCC	p.G549A	SHROOM4_uc004dpd.3_RNA|SHROOM4_uc004dpf.1_Missense_Mutation_p.G433A	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	549					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					TGCCTCTGTGCCACTAGCTGC	0.602													8	35	---	---	---	---	PASS	G	50377427	G	G	50377427	3	3	129	1	0	0	0	0	1	0	0	0	14296	739	26	4	2859	4	SHROOM4	23	50377427	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	26461	50377427	104893133	422	46778										
BMP15	9210	broad.mit.edu	37	chrX	50659053	50659053	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcctacgactccgttttatgTgtcagcagcaaaaagatagt	8	9	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:50659053T>G	uc011mnw.1	+	2	625	c.625T>G	c.(625-627)TGT>GGT	p.C209G		NM_005448	NP_005439	O95972	BMP15_HUMAN	bone morphogenetic protein 15 precursor	209					female gamete generation|granulosa cell development|ovarian follicle development	extracellular space	cytokine activity|growth factor activity			ovary(2)	2	Ovarian(276;0.236)					CCGTTTTATGTGTCAGCAGCA	0.428													19	172	---	---	---	---	PASS	G	50659053	G	G	50659053	3	3	129	1	0	0	0	0	1	0	0	0	1458	1696	59	5	631	5	BMP15	23	50659053	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	281626	50659053	104611507	423	46779										
SPANXN5	494197	broad.mit.edu	37	chrX	52825663	52825663	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	actaagtccctgtttggtgtCtcctgcatctgttaagaaaa	8	9	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:52825663C>G	uc004drc.1	-	2	84	c.84G>C	c.(82-84)GAG>GAC	p.E28D		NM_001009616	NP_001009616	Q5MJ07	SPXN5_HUMAN	SPANX family, member N5	28											0	Ovarian(276;0.236)					TGTTTGGTGTCTCCTGCATCT	0.408													16	145	---	---	---	---	PASS	G	52825663	G	G	52825663	3	3	129	1	0	0	0	0	1	0	0	0	14993	912	32	2	138	2	SPANXN5	23	52825663	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2166610	52825663	102444897	424	46780										
HUWE1	10075	broad.mit.edu	37	chrX	53616585	53616585	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gctgtcatgatcaggtcacaCacacggtatactgtgtctgg	11	10	4	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:53616585C>A	uc004dsp.2	-	36	4785	c.4383G>T	c.(4381-4383)GTG>GTT	p.V1461V	HUWE1_uc004dsn.2_Silent_p.V286V	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	1461					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						TCAGGTCACACACACGGTATA	0.473													18	165	---	---	---	---	PASS	A	53616585	A	A	53616585	2	1	129	1	0	0	0	0	0	0	0	1	7461	465	17	3		3	HUWE1	23	53616585	Silent	SNP	C	TCGA-60-2720-01A-01D-1522-08	790922	53616585	101653975	425	46781										
GNL3L	54552	broad.mit.edu	37	chrX	54578751	54578751	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gatcagcttctatataccacCaccagccactcacactctgc	4	17	4	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:54578751C>T	uc004dth.1	+	13	1347	c.1208C>T	c.(1207-1209)CCA>CTA	p.P403L	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	403					ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						TATATACCACCACCAGCCACT	0.502													12	126	---	---	---	---	PASS	T	54578751	T	T	54578751	3	4	129	1	0	0	0	0	1	0	0	0	6538	594	21	3	1254	3	GNL3L	23	54578751	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	962166	54578751	100691809	426	46782										
ITIH5L	347365	broad.mit.edu	37	chrX	54776515	54776515	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ccataggtcctgtcaccagtCggatgtctgcgtgctggaac	12	12	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:54776515C>A	uc004dtj.2	-	13	3785	c.3755G>T	c.(3754-3756)CGA>CTA	p.R1252L		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	1252					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						TGTCACCAGTCGGATGTCTGC	0.592													9	50	---	---	---	---	PASS	A	54776515	A	A	54776515	3	1	129	1	0	0	0	0	1	0	0	0	7908	884	31	2	190	2	ITIH5L	23	54776515	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	197764	54776515	100494045	427	46783										
ITIH5L	347365	broad.mit.edu	37	chrX	54783527	54783527	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gagcagactgatggcctcagGgaggatgctagaaggcagca	16	8	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:54783527G>A	uc004dtj.2	-	8	3010	c.2980C>T	c.(2980-2982)CCT>TCT	p.P994S		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	994	Pro-rich.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						ATGGCCTCAGGGAGGATGCTA	0.542													5	62	---	---	---	---	PASS	A	54783527	A	A	54783527	3	1	129	1	0	0	0	0	1	0	0	0	7908	1232	43	3	985	3	ITIH5L	23	54783527	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	7012	54783527	100487033	428	46784										
PFKFB1	5207	broad.mit.edu	37	chrX	54975540	54975540	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	attcagggccttccactgctCataggggacacccagggcct	11	14	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:54975540C>G	uc004dty.1	-	9	1032	c.961G>C	c.(961-963)GAG>CAG	p.E321Q	PFKFB1_uc010nkd.1_Intron|PFKFB1_uc011mol.1_Missense_Mutation_p.E256Q	NM_002625	NP_002616	P16118	F261_HUMAN	6-phosphofructo-2-kinase/fructose-2,	321	Fructose-2,6-bisphosphatase.				energy reserve metabolic process|fructose 2,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|intracellular protein kinase cascade	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(1)	1						TTCCACTGCTCATAGGGGACA	0.567													14	123	---	---	---	---	PASS	G	54975540	G	G	54975540	3	3	129	1	0	0	0	0	1	0	0	0	11760	835	29	2	478	2	PFKFB1	23	54975540	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	192013	54975540	100295020	429	46785										
APEX2	27301	broad.mit.edu	37	chrX	55028721	55028721	+	Silent	SNP	G	T	T													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aaggacaatgctaccccagtGgctgctgaagaaggcctgag							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:55028721G>T	uc004dtz.2	+	3	355	c.279G>T	c.(277-279)GTG>GTT	p.V93V	APEX2_uc011mom.1_Intron	NM_014481	NP_055296	Q9UBZ4	APEX2_HUMAN	apurinic/apyrimidinic endonuclease 2	93					cell cycle|DNA recombination|DNA repair	nucleus	DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|endonuclease activity|exonuclease activity|zinc ion binding			breast(1)	1						CTACCCCAGTGGCTGCTGAAG	0.552								Other_BER_factors					10	29	---	---	---	---	PASS	T	55028721	T	T	55028721	2	4	129	1	0	0	0	0	0	0	0	1	770	1335	47	3		3	APEX2	23	55028721	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	53181	55028721	100241839	430	46786	860	2								
APEX2	27301	broad.mit.edu	37	chrX	55028722	55028722	+	Missense_Mutation	SNP	G	T	T													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aggacaatgctaccccagtgGctgctgaagaaggcctgagt							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:55028722G>T	uc004dtz.2	+	3	356	c.280G>T	c.(280-282)GCT>TCT	p.A94S	APEX2_uc011mom.1_Intron	NM_014481	NP_055296	Q9UBZ4	APEX2_HUMAN	apurinic/apyrimidinic endonuclease 2	94					cell cycle|DNA recombination|DNA repair	nucleus	DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|endonuclease activity|exonuclease activity|zinc ion binding			breast(1)	1						TACCCCAGTGGCTGCTGAAGA	0.547								Other_BER_factors					10	31	---	---	---	---	PASS	T	55028722	T	T	55028722	3	4	129	1	0	0	0	0	1	0	0	0	770	1203	42	3	290	3	APEX2	23	55028722	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1	55028722	100241838	431	46787	860	2								
FAM123B	139285	broad.mit.edu	37	chrX	63412770	63412770	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgtctccaaagccccatgggCactctgagagctgggaaatt	11	11	2	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:63412770C>A	uc004dvo.2	-	2	670	c.397G>T	c.(397-399)GCC>TCC	p.A133S		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	133					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						GCCCCATGGGCACTCTGAGAG	0.542													13	101	---	---	---	---	PASS	A	63412770	A	A	63412770	3	1	129	1	0	0	0	0	1	0	0	0	5423	710	25	3	3014	3	FAM123B	23	63412770	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	8384048	63412770	91857790	432	46788										
MTMR8	55613	broad.mit.edu	37	chrX	63445504	63445504	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtgatgtccatgaggttcatCttggctaattggagaactat	11	6	2	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:63445504C>G	uc011mou.1	-	10	1220	c.1152G>C	c.(1150-1152)AAG>AAC	p.K384N	ASB12_uc004dvp.1_Splice_Site_p.M1_splice|ASB12_uc004dvq.1_Missense_Mutation_p.K9N|ASB12_uc004dvr.1_Missense_Mutation_p.K9N	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	Error:Variant_position_missing_in_Q96EF0_after_alignment						nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						TGAGGTTCATCTTGGCTAATT	0.493													3	18	---	---	---	---	PASS	G	63445504	G	G	63445504	3	3	129	1	0	0	0	0	1	0	0	0	9949	928	32	2		2	MTMR8	23	63445504	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	32734	63445504	91825056	433	46789										
FOXO4	4303	broad.mit.edu	37	chrX	70320607	70320607	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cgaggccaccggcaaaagctCttggtggatgctgaaccctg	13	12	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:70320607C>G	uc004dys.1	+	2	880	c.527C>G	c.(526-528)TCT>TGT	p.S176C	FOXO4_uc010nkz.2_Missense_Mutation_p.S176C|FOXO4_uc004dyt.1_Missense_Mutation_p.S121C	NM_005938	NP_005929	P98177	FOXO4_HUMAN	forkhead box O4	176	Fork-head.				cell cycle arrest|cell differentiation|embryo development|G1 phase of mitotic cell cycle|insulin receptor signaling pathway|mitotic cell cycle G2/M transition DNA damage checkpoint|muscle organ development|negative regulation of angiogenesis|negative regulation of cell proliferation|negative regulation of smooth muscle cell differentiation|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase 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			central_nervous_system(2)|prostate(1)	3	Renal(35;0.156)					GGCAAAAGCTCTTGGTGGATG	0.527											OREG0019856	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	33	---	---	---	---	PASS	G	70320607	G	G	70320607	3	3	129	1	0	0	0	0	1	0	0	0	6025	913	32	2	533	2	FOXO4	23	70320607	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	6875103	70320607	84949953	434	46790										
PIN4	5303	broad.mit.edu	37	chrX	71416654	71416654	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggtcagacacattctatgtgAaaaacatggcaaaatcatgg	9	7	3	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:71416654A>G	uc004eam.2	+	3	247	c.212A>G	c.(211-213)GAA>GGA	p.E71G	PIN4_uc004eao.1_Missense_Mutation_p.E71G	NM_006223	NP_006214	Q9Y237	PIN4_HUMAN	protein (peptidyl-prolyl cis/trans isomerase)	46	PpiC.				protein folding|rRNA processing	cytoplasm|mitochondrial matrix|mitochondrial matrix|nucleolus|nucleolus|preribosome|spindle|spindle	bent DNA binding|DNA binding|double-stranded DNA binding|peptidyl-prolyl cis-trans isomerase activity				0	Renal(35;0.156)					ATTCTATGTGAAAAACATGGC	0.408													19	122	---	---	---	---	PASS	G	71416654	G	G	71416654	3	3	129	1	0	0	0	0	1	0	0	0	11931	246	9	5	222	5	PIN4	23	71416654	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	1096047	71416654	83853906	435	46791										
SLC16A2	6567	broad.mit.edu	37	chrX	73744338	73744338	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtggtgtctgctgggagtagCattttctccatgtccttccc	11	11	2	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:73744338C>A	uc004ebt.2	+	3	1108	c.942C>A	c.(940-942)AGC>AGA	p.S314R	SLC16A2_uc010nlr.1_5'UTR	NM_006517	NP_006508	P36021	MOT8_HUMAN	solute carrier family 16, member 2	240	Helical; (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			breast(2)|ovary(1)	3					Pyruvic acid(DB00119)	CTGGGAGTAGCATTTTCTCCA	0.537													8	70	---	---	---	---	PASS	A	73744338	A	A	73744338	3	1	129	1	0	0	0	0	1	0	0	0	14408	709	25	3	952	3	SLC16A2	23	73744338	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2327684	73744338	81526222	436	46792										
MAGEE1	57692	broad.mit.edu	37	chrX	75650413	75650413	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tctggaagaagatgctgccaGagcctttgctgagggttggc	15	8	1	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:75650413G>T	uc004ecm.1	+	1	2297	c.2090G>T	c.(2089-2091)AGA>ATA	p.R697I		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	697						dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						GATGCTGCCAGAGCCTTTGCT	0.473													6	33	---	---	---	---	PASS	T	75650413	T	T	75650413	3	4	129	1	0	0	0	0	1	0	0	0	9185	942	33	2	2092	2	MAGEE1	23	75650413	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1906075	75650413	79620147	437	46793										
ATRX	546	broad.mit.edu	37	chrX	76920166	76920166	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ggttttcttcattttgttttCcagttctttttttcccttct	4	9	4	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:76920166C>A	uc004ecp.3	-	11	4143	c.3911G>T	c.(3910-3912)GGA>GTA	p.G1304V	ATRX_uc004ecq.3_Missense_Mutation_p.G1266V|ATRX_uc004eco.3_Missense_Mutation_p.G1089V|ATRX_uc004ecr.2_Missense_Mutation_p.G1236V	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1304					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	ATTTTGTTTTCCAGTTCTTTT	0.373			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						26	243	---	---	---	---	PASS	A	76920166	A	A	76920166	3	1	129	1	0	0	0	0	1	0	0	0	1208	855	30	2	3667	2	ATRX	23	76920166	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1269753	76920166	78350394	438	46794										
ATRX	546	broad.mit.edu	37	chrX	76938172	76938172	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgtgcccttgattatccattCcttttttgctgtgtttctca	6	10	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:76938172C>A	uc004ecp.3	-	9	2808	c.2576G>T	c.(2575-2577)GGA>GTA	p.G859V	ATRX_uc004ecq.3_Missense_Mutation_p.G821V|ATRX_uc004eco.3_Missense_Mutation_p.G644V|ATRX_uc004ecr.2_Missense_Mutation_p.G791V|ATRX_uc010nlx.1_Missense_Mutation_p.G830V|ATRX_uc010nly.1_Missense_Mutation_p.G804V	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	859					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	ATTATCCATTCCTTTTTTGCT	0.318			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						82	758	---	---	---	---	PASS	A	76938172	A	A	76938172	3	1	129	1	0	0	0	0	1	0	0	0	1208	855	30	2	5010	2	ATRX	23	76938172	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	18006	76938172	78332388	439	46795										
ATRX	546	broad.mit.edu	37	chrX	76938658	76938658	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aagaattacgcttatcctttTttctcactggaactgatagt	6	8	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:76938658T>C	uc004ecp.3	-	9	2322	c.2090A>G	c.(2089-2091)AAA>AGA	p.K697R	ATRX_uc004ecq.3_Missense_Mutation_p.K659R|ATRX_uc004eco.3_Missense_Mutation_p.K482R|ATRX_uc004ecr.2_Missense_Mutation_p.K629R|ATRX_uc010nlx.1_Missense_Mutation_p.K668R|ATRX_uc010nly.1_Missense_Mutation_p.K642R	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	697					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	CTTATCCTTTTTTCTCACTGG	0.353			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						36	507	---	---	---	---	PASS	C	76938658	C	C	76938658	3	2	129	1	0	0	0	0	1	0	0	0	1208	1841	64	5	5496	5	ATRX	23	76938658	Missense_Mutation	SNP	T	TCGA-60-2720-01A-01D-1522-08	486	76938658	78331902	440	46796										
ZCCHC5	203430	broad.mit.edu	37	chrX	77912921	77912921	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tacatgaccctccccttggcAgagttgatggatgcactggt	11	11	0	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:77912921A>C	uc004edc.1	-	2	1293	c.997T>G	c.(997-999)TGC>GGC	p.C333G		NM_152694	NP_689907	Q8N8U3	ZCHC5_HUMAN	zinc finger, CCHC domain containing 5	333							nucleic acid binding|zinc ion binding			ovary(1)	1						TCCCCTTGGCAGAGTTGATGG	0.468													9	76	---	---	---	---	PASS	C	77912921	C	C	77912921	3	2	129	1	0	0	0	0	1	0	0	0	17588	188	7	5	434	5	ZCCHC5	23	77912921	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	974263	77912921	77357639	441	46797										
CYLC1	1538	broad.mit.edu	37	chrX	83128432	83128432	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcccatatcagagatttgctCagaaaatagtttaaatgttg	7	6	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:83128432C>G	uc004eei.1	+	4	737	c.716C>G	c.(715-717)TCA>TGA	p.S239*	CYLC1_uc004eeh.1_Nonsense_Mutation_p.S238*	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	239					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						GAGATTTGCTCAGAAAATAGT	0.333													17	61	---	---	---	---	PASS	G	83128432	G	G	83128432	4	3	129	1	0	0	0	0	0	1	0	0	4141	838	29	2	730	2	CYLC1	23	83128432	Nonsense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	5215511	83128432	72142128	442	46798										
DACH2	117154	broad.mit.edu	37	chrX	85906092	85906092	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	aacttcagaagatgaagcttAtggctatgaacactcttcag	8	8	3	4			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:85906092A>G	uc004eew.2	+	4	864	c.694A>G	c.(694-696)ATG>GTG	p.M232V	DACH2_uc004eex.2_Missense_Mutation_p.M219V|DACH2_uc010nmq.2_Missense_Mutation_p.M98V|DACH2_uc011mra.1_Missense_Mutation_p.M65V|DACH2_uc010nmr.2_Missense_Mutation_p.M13V	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	232					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						GATGAAGCTTATGGCTATGAA	0.388													7	39	---	---	---	---	PASS	G	85906092	G	G	85906092	3	3	129	1	0	0	0	0	1	0	0	0	4221	449	16	5	708	5	DACH2	23	85906092	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	2777660	85906092	69364468	443	46799										
TGIF2LX	90316	broad.mit.edu	37	chrX	89177476	89177476	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	caaaacgggcaaagatgcccAtgccacccacctgcagagca	9	15	0	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:89177476A>T	uc004efe.2	+	2	441	c.392A>T	c.(391-393)CAT>CTT	p.H131L		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	131						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						AAAGATGCCCATGCCACCCAC	0.567													13	113	---	---	---	---	PASS	T	89177476	T	T	89177476	3	4	129	1	0	0	0	0	1	0	0	0	15824	217	8	5	394	5	TGIF2LX	23	89177476	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	3271384	89177476	66093084	444	46800										
ARMCX3	51566	broad.mit.edu	37	chrX	100880489	100880489	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttgtcgcaaagattctcaatActcgggatcccatagttaag	8	9	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:100880489A>T	uc004ehz.1	+	5	1053	c.520A>T	c.(520-522)ACT>TCT	p.T174S	ARMCX3_uc004eia.1_Missense_Mutation_p.T174S|ARMCX3_uc004eib.1_Missense_Mutation_p.T174S|ARMCX3_uc004eic.1_Missense_Mutation_p.T174S	NM_016607	NP_057691	Q9UH62	ARMX3_HUMAN	armadillo repeat containing, X-linked 3	174	ARM 2.					integral to membrane	binding			ovary(1)|lung(1)	2						GATTCTCAATACTCGGGATCC	0.393													26	256	---	---	---	---	PASS	T	100880489	T	T	100880489	3	4	129	1	0	0	0	0	1	0	0	0	961	391	14	5	522	5	ARMCX3	23	100880489	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	11703013	100880489	54390071	445	46801										
ZMAT1	84460	broad.mit.edu	37	chrX	101138538	101138538	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctcttctgtcctttcttcaaCagatttctttttctctttcc	2	13	6	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:101138538C>G	uc004eim.2	-	2	4846	c.1348G>C	c.(1348-1350)GTT>CTT	p.V450L	ZMAT1_uc011mrl.1_Missense_Mutation_p.V621L|ZMAT1_uc004ein.2_Missense_Mutation_p.V450L|ZMAT1_uc011mrm.1_Missense_Mutation_p.V450L	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	450						nucleus	zinc ion binding			ovary(1)	1						CTTTCTTCAACAGATTTCTTT	0.358													25	178	---	---	---	---	PASS	G	101138538	G	G	101138538	3	3	129	1	0	0	0	0	1	0	0	0	17688	478	17	4	59	4	ZMAT1	23	101138538	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	258049	101138538	54132022	446	46802										
RGAG1	57529	broad.mit.edu	37	chrX	109694590	109694590	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgtccaaagtgctaatgactGctctagcctctggagagata	10	9	2	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:109694590G>C	uc004eor.1	+	3	991	c.745G>C	c.(745-747)GCT>CCT	p.A249P	RGAG1_uc011msr.1_Missense_Mutation_p.A249P	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	249										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GCTAATGACTGCTCTAGCCTC	0.488													19	151	---	---	---	---	PASS	C	109694590	C	C	109694590	3	2	129	1	0	0	0	0	1	0	0	0	13274	1319	46	4	747	4	RGAG1	23	109694590	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	8556052	109694590	45575970	447	46803										
TRPC5	7224	broad.mit.edu	37	chrX	111025199	111025199	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttgcgccttctccgtctaccGtcagggtctcttttggggca	11	13	4	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:111025199G>T	uc004epl.1	-	8	2983	c.2064C>A	c.(2062-2064)GAC>GAA	p.D688E	TRPC5_uc004epm.1_Missense_Mutation_p.D688E	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	688	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						TCCGTCTACCGTCAGGGTCTC	0.368													45	218	---	---	---	---	PASS	T	111025199	T	T	111025199	3	4	129	1	0	0	0	0	1	0	0	0	16579	1136	40	1	873	1	TRPC5	23	111025199	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1330609	111025199	44245361	448	46804										
TRPC5	7224	broad.mit.edu	37	chrX	111195319	111195319	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctgagcagaagctccacagcGcccaccacttccttgcgtat	8	16	0	2	rs139867130		TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:111195319G>C	uc004epl.1	-	2	1249	c.330C>G	c.(328-330)GGC>GGG	p.G110G	TRPC5_uc004epm.1_Silent_p.G110G	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	110	ANK 3.|Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						GCTCCACAGCGCCCACCACTT	0.547													44	196	---	---	---	---	PASS	C	111195319	C	C	111195319	2	2	129	1	0	0	0	0	0	0	0	1	16579	1074	38	4		4	TRPC5	23	111195319	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	170120	111195319	44075241	449	46805										
KLHL13	90293	broad.mit.edu	37	chrX	117033294	117033294	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gtcattggcgccttctggatCcatttgtcagtatcagggtc	11	10	4	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:117033294C>A	uc004eql.2	-	7	1607	c.1545G>T	c.(1543-1545)TGG>TGT	p.W515C	KLHL13_uc004eqk.2_Missense_Mutation_p.W464C|KLHL13_uc011mtn.1_Missense_Mutation_p.W355C|KLHL13_uc011mto.1_Missense_Mutation_p.W509C|KLHL13_uc011mtp.1_Missense_Mutation_p.W517C|KLHL13_uc004eqm.2_Missense_Mutation_p.W464C|KLHL13_uc011mtq.1_Missense_Mutation_p.W499C	NM_033495	NP_277030	Q9P2N7	KLH13_HUMAN	kelch-like 13	515	Kelch 4.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex				kidney(1)|skin(1)	2						CCTTCTGGATCCATTTGTCAG	0.413													107	542	---	---	---	---	PASS	A	117033294	A	A	117033294	3	1	129	1	0	0	0	0	1	0	0	0	8369	856	30	2	426	2	KLHL13	23	117033294	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	5837975	117033294	38237266	450	46806										
DOCK11	139818	broad.mit.edu	37	chrX	117815708	117815708	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctttcttaaatgacagccaaGctagcaagtatccacctaag	6	11	1	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:117815708G>T	uc004eqp.2	+	51	5977	c.5914G>T	c.(5914-5916)GCT>TCT	p.A1972S	DOCK11_uc004eqq.2_Missense_Mutation_p.A1751S	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1972	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						TGACAGCCAAGCTAGCAAGTA	0.363													19	195	---	---	---	---	PASS	T	117815708	T	T	117815708	3	4	129	1	0	0	0	0	1	0	0	0	4686	971	34	3	6116	3	DOCK11	23	117815708	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	782414	117815708	37454852	451	46807										
ATP1B4	23439	broad.mit.edu	37	chrX	119500453	119500453	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	agaagaagaggctcgggtgaCggtggtgcccaaatcggagg	18	7	0	4	rs147823363	byFrequency	TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:119500453C>A	uc004esr.2	+	2	221	c.137C>A	c.(136-138)ACG>AAG	p.T46K	ATP1B4_uc004esq.2_Missense_Mutation_p.T46K|ATP1B4_uc011mtx.1_Missense_Mutation_p.T46K|ATP1B4_uc011mty.1_Missense_Mutation_p.T46K	NM_001142447	NP_001135919	Q9UN42	AT1B4_HUMAN	ATPase, (Na+)/K+ transporting, beta 4	46	Glu-rich.|Nuclear (Potential).				ATP biosynthetic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to plasma membrane|nuclear inner membrane	sodium:potassium-exchanging ATPase activity			ovary(1)|skin(1)	2						GCTCGGGTGACGGTGGTGCCC	0.353													9	102	---	---	---	---	PASS	A	119500453	A	A	119500453	3	1	129	1	0	0	0	0	1	0	0	0	1135	536	19	1	143	1	ATP1B4	23	119500453	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1684745	119500453	35770107	452	46808										
PHF6	84295	broad.mit.edu	37	chrX	133549058	133549058	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttctctagttgttttcttctGgcacagtccagctcacaaca	6	12	4	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:133549058G>T	uc004exj.2	+	8	944	c.742G>T	c.(742-744)GGC>TGC	p.G248C	PHF6_uc004exk.2_Missense_Mutation_p.G248C|PHF6_uc011mvk.1_Missense_Mutation_p.G214C|PHF6_uc004exh.2_Missense_Mutation_p.G249C|PHF6_uc010nrr.2_Missense_Mutation_p.G248C|PHF6_uc004exi.2_Missense_Mutation_p.G249C	NM_001015877	NP_001015877	Q8IWS0	PHF6_HUMAN	PHD finger protein 6 isoform 1	248					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					GTTTTCTTCTGGCACAGTCCA	0.328													13	96	---	---	---	---	PASS	T	133549058	T	T	133549058	3	4	129	1	0	0	0	0	1	0	0	0	11838	1348	47	3	771	3	PHF6	23	133549058	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	14048605	133549058	21721502	453	46809										
SAGE1	55511	broad.mit.edu	37	chrX	134991916	134991916	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ttgacagtagctggtattccGgccatgagtaccagggatca	12	9	1	2			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:134991916G>A	uc004ezh.2	+	14	1868	c.1701G>A	c.(1699-1701)CCG>CCA	p.P567P	SAGE1_uc010nry.1_Silent_p.P536P|SAGE1_uc011mvv.1_Silent_p.P191P	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	567										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CTGGTATTCCGGCCATGAGTA	0.418													31	267	---	---	---	---	PASS	A	134991916	A	A	134991916	2	1	129	1	0	0	0	0	0	0	0	1	13809	1103	39	1		1	SAGE1	23	134991916	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	1442858	134991916	20278644	454	46810										
GPR112	139378	broad.mit.edu	37	chrX	135430018	135430018	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	ctgaaaaggaaagcacgagtGcccttccagcatatactccc	8	13	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:135430018G>T	uc004ezu.1	+	6	4444	c.4153G>T	c.(4153-4155)GCC>TCC	p.A1385S	GPR112_uc010nsb.1_Missense_Mutation_p.A1180S|GPR112_uc010nsc.1_Missense_Mutation_p.A1152S	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1385	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					AAGCACGAGTGCCCTTCCAGC	0.448													33	345	---	---	---	---	PASS	T	135430018	T	T	135430018	3	4	129	1	0	0	0	0	1	0	0	0	6629	1319	46	3	4163	3	GPR112	23	135430018	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	438102	135430018	19840542	455	46811										
CXorf66	347487	broad.mit.edu	37	chrX	139038712	139038712	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tttggtatggatggcttttgTagacttgagggtctgattaa	13	3	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:139038712T>C	uc004fbb.2	-	3	451	c.429A>G	c.(427-429)CTA>CTG	p.L143L		NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor	143	Ser-rich.|Cytoplasmic (Potential).					integral to membrane					0						ATGGCTTTTGTAGACTTGAGG	0.413													62	544	---	---	---	---	PASS	C	139038712	C	C	139038712	2	2	129	1	0	0	0	0	0	0	0	1	4118	1625	57	5		5	CXorf66	23	139038712	Silent	SNP	T	TCGA-60-2720-01A-01D-1522-08	3608694	139038712	16231848	456	46812										
MAGEC1	9947	broad.mit.edu	37	chrX	140994934	140994934	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgtctcctcactactttcctCagagccctcagggggaggac	10	14	4	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:140994934C>G	uc004fbt.2	+	4	2030	c.1744C>G	c.(1744-1746)CAG>GAG	p.Q582E	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	582							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CTACTTTCCTCAGAGCCCTCA	0.592										HNSCC(15;0.026)			160	738	---	---	---	---	PASS	G	140994934	G	G	140994934	3	3	129	1	0	0	0	0	1	0	0	0	9180	827	29	2	1750	2	MAGEC1	23	140994934	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1956222	140994934	14275626	457	46813										
TMEM185A	84548	broad.mit.edu	37	chrX	148685689	148685689	+	Silent	SNP	G	T	T													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atgatcttgtccagtcttaaGgcaatgaatataaactggag							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:148685689G>T	uc011mxq.1	-	5	782	c.471C>A	c.(469-471)GCC>GCA	p.A157A	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|TMEM185A_uc011mxp.1_Silent_p.A98A|TMEM185A_uc004fdo.2_Intron|TMEM185A_uc004fdp.3_Silent_p.A74A	NM_032508	NP_115897	Q8NFB2	T185A_HUMAN	transmembrane protein 185A	157	Helical; (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CCAGTCTTAAGGCAATGAATA	0.264													5	96	---	---	---	---	PASS	T	148685689	T	T	148685689	2	4	129	1	0	0	0	0	0	0	0	1	16104	987	35	3		3	TMEM185A	23	148685689	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	7690755	148685689	6584871	458	46814	861	2								
TMEM185A	84548	broad.mit.edu	37	chrX	148685690	148685690	+	Missense_Mutation	SNP	G	T	T													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgatcttgtccagtcttaagGcaatgaatataaactggaga							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:148685690G>T	uc011mxq.1	-	5	781	c.470C>A	c.(469-471)GCC>GAC	p.A157D	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|TMEM185A_uc011mxp.1_Missense_Mutation_p.A98D|TMEM185A_uc004fdo.2_Intron|TMEM185A_uc004fdp.3_Missense_Mutation_p.A74D	NM_032508	NP_115897	Q8NFB2	T185A_HUMAN	transmembrane protein 185A	157	Helical; (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CAGTCTTAAGGCAATGAATAT	0.269													5	96	---	---	---	---	PASS	T	148685690	T	T	148685690	3	4	129	1	0	0	0	0	1	0	0	0	16104	1203	42	3	598	3	TMEM185A	23	148685690	Missense_Mutation	SNP	G	TCGA-60-2720-01A-01D-1522-08	1	148685690	6584870	459	46815	861	2								
CNGA2	1260	broad.mit.edu	37	chrX	150909321	150909321	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gggattggtactactgctggCtatttgtcattgccatgccc	11	10	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:150909321C>A	uc004fey.1	+	5	654	c.430C>A	c.(430-432)CTA>ATA	p.L144I		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	144	Helical; Name=H1; (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CTACTGCTGGCTATTTGTCAT	0.552													35	304	---	---	---	---	PASS	A	150909321	A	A	150909321	3	1	129	1	0	0	0	0	1	0	0	0	3597	796	28	3	444	3	CNGA2	23	150909321	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	2223631	150909321	4361239	460	46816										
MAGEA4	4103	broad.mit.edu	37	chrX	151092696	151092696	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	cacctgcctgggcctttcctAtgatggcctgctgggtaata	11	12	0	1			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:151092696A>G	uc004fez.2	+	3	716	c.560A>G	c.(559-561)TAT>TGT	p.Y187C	MAGEA4_uc004ffa.2_Missense_Mutation_p.Y187C|MAGEA4_uc004ffb.2_Missense_Mutation_p.Y187C|MAGEA4_uc004ffc.2_Missense_Mutation_p.Y187C|MAGEA4_uc004ffd.2_Missense_Mutation_p.Y187C	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	187	MAGE.						protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGCCTTTCCTATGATGGCCTG	0.542													36	181	---	---	---	---	PASS	G	151092696	G	G	151092696	3	3	129	1	0	0	0	0	1	0	0	0	9168	449	16	5	562	5	MAGEA4	23	151092696	Missense_Mutation	SNP	A	TCGA-60-2720-01A-01D-1522-08	183375	151092696	4177864	461	46817										
GABRQ	55879	broad.mit.edu	37	chrX	151817747	151817747	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	gcagcttgttccctggatctGcataaattccctatggacaa	8	11	1	0			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:151817747G>T	uc004ffp.1	+	5	581	c.561G>T	c.(559-561)CTG>CTT	p.L187L		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	187	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCCTGGATCTGCATAAATTCC	0.502													16	215	---	---	---	---	PASS	T	151817747	T	T	151817747	2	4	129	1	0	0	0	0	0	0	0	1	6175	1306	46	3		3	GABRQ	23	151817747	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	725051	151817747	3452813	462	46818										
ZNF185	7739	broad.mit.edu	37	chrX	152087623	152087623	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tcctcagatgaacagaaacgGaggtaatggaatggtgcctt	12	7	1	3			TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:152087623G>T	uc010ntv.1	+	7	565	c.528G>T	c.(526-528)CGG>CGT	p.R176R	ZNF185_uc011myg.1_Silent_p.R176R|ZNF185_uc011myh.1_Silent_p.R176R|ZNF185_uc011myi.1_Silent_p.R176R|ZNF185_uc011myj.1_Silent_p.R176R|ZNF185_uc011myk.1_Silent_p.R176R|ZNF185_uc004fgw.3_Silent_p.R41R|ZNF185_uc004fgu.2_5'UTR|ZNF185_uc004fgv.2_5'Flank	NM_007150	NP_009081	O15231	ZN185_HUMAN	zinc finger protein 185	176						cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AACAGAAACGGAGGTAATGGA	0.478													4	30	---	---	---	---	PASS	T	152087623	T	T	152087623	2	4	129	1	0	0	0	0	0	0	0	1	17749	1161	41	2		2	ZNF185	23	152087623	Silent	SNP	G	TCGA-60-2720-01A-01D-1522-08	269876	152087623	3182937	463	46819										
DNASE1L1	1774	broad.mit.edu	37	chrX	153631282	153631282	+	Splice_Site	SNP	C	A	A													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	atgccagccccatcccttcaCctcctcctcggtgagctgga							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:153631282C>A	uc004fks.1	-	7	965	c.774_splice	c.e7+1	p.E258_splice	RPL10_uc004fkq.1_Intron|RPL10_uc004fkr.1_Intron|DNASE1L1_uc004fkt.1_Splice_Site_p.E258_splice|DNASE1L1_uc004fku.1_Splice_Site_p.E258_splice|DNASE1L1_uc004fkv.1_Splice_Site_p.E258_splice|DNASE1L1_uc004fkw.1_Splice_Site_p.E258_splice	NM_006730	NP_006721	P49184	DNSL1_HUMAN	deoxyribonuclease I-like 1 precursor						DNA catabolic process	endoplasmic reticulum	DNA binding|endodeoxyribonuclease activity, producing 5'-phosphomonoesters				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CATCCCTTCACCTCCTCCTCG	0.677													9	87	---	---	---	---	PASS	A	153631282	A	A	153631282	5	1	129	1	0	0	0	0	0	0	1	0	4661	521	18	3	141	3	DNASE1L1	23	153631282	Splice_Site	SNP	C	TCGA-60-2720-01A-01D-1522-08	1543659	153631282	1639278	464	46820	862	2								
DNASE1L1	1774	broad.mit.edu	37	chrX	153631283	153631283	+	Missense_Mutation	SNP	C	A	A													0.216630196936543	99	2.08319302818776e-21	2.79170416403172	3.49761993076162	2.10855987364794	0.00237705491878434	0.0355326700164936	64	tgccagccccatcccttcacCtcctcctcggtgagctggaa							TCGA-60-2720-01A-01D-1522-08	TCGA-60-2720-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b435ddf-a496-40a2-82e8-6b10391aae5d	9ac07c1e-f5e7-48e8-a58b-3e2ac5c68324	g.chrX:153631283C>A	uc004fks.1	-	7	965	c.774G>T	c.(772-774)GAG>GAT	p.E258D	RPL10_uc004fkq.1_Intron|RPL10_uc004fkr.1_Intron|DNASE1L1_uc004fkt.1_Missense_Mutation_p.E258D|DNASE1L1_uc004fku.1_Missense_Mutation_p.E258D|DNASE1L1_uc004fkv.1_Missense_Mutation_p.E258D|DNASE1L1_uc004fkw.1_Missense_Mutation_p.E258D	NM_006730	NP_006721	P49184	DNSL1_HUMAN	deoxyribonuclease I-like 1 precursor	258					DNA catabolic process	endoplasmic reticulum	DNA binding|endodeoxyribonuclease activity, producing 5'-phosphomonoesters				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ATCCCTTCACCTCCTCCTCGG	0.677													9	87	---	---	---	---	PASS	A	153631283	A	A	153631283	3	1	129	1	0	0	0	0	1	0	0	0	4661	695	24	3	142	3	DNASE1L1	23	153631283	Missense_Mutation	SNP	C	TCGA-60-2720-01A-01D-1522-08	1	153631283	1639277	465	46821	862	2								
SDF4	51150	broad.mit.edu	37	chr1	1153991	1153991	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	gagatgaactcgggcacagaGagctgcttgtcaccgtcctg	13	11	1	3			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr1:1153991G>A	uc001adh.3	-	6	1088	c.759C>T	c.(757-759)CTC>CTT	p.L253L	SDF4_uc001adg.2_RNA|SDF4_uc001adi.3_Silent_p.L253L|SDF4_uc009vjv.2_Silent_p.L131L|SDF4_uc009vjw.2_RNA	NM_016176	NP_057260	Q9BRK5	CAB45_HUMAN	stromal cell derived factor 4 isoform 2	253	4 (Potential).|EF-hand 4.				cerebellum development|fat cell differentiation|response to ethanol|UV protection|zymogen granule exocytosis	bleb|Golgi lumen|late endosome|soluble fraction	calcium ion binding|calcium ion binding|identical protein binding|protein binding			upper_aerodigestive_tract(1)|large_intestine(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;7.85e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.42e-21)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;4.83e-05)|Kidney(185;0.00252)|BRCA - Breast invasive adenocarcinoma(365;0.00263)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0368)|Lung(427;0.204)		CGGGCACAGAGAGCTGCTTGT	0.632													17	65	---	---	---	---	PASS	A	1153991	A	A	1153991	2	1	130	1	0	0	0	0	0	0	0	1	13962	929	33	2		2	SDF4	1	1153991	Silent	SNP	G	TCGA-60-2721-01A-01D-1522-08		1153991	248096630	1	46822										
PGD	5226	broad.mit.edu	37	chr1	10477566	10477566	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	agggggctgcatcattagaaGgtaagtgagaggcagcccag	16	7	1	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr1:10477566G>C	uc001arc.2	+	10	1199	c.1109G>C	c.(1108-1110)AGT>ACT	p.S370T	PGD_uc001ard.2_Missense_Mutation_p.S290T|PGD_uc010oak.1_Missense_Mutation_p.S348T|PGD_uc010oal.1_Missense_Mutation_p.S357T	NM_002631	NP_002622	P52209	6PGD_HUMAN	phosphogluconate dehydrogenase	370					pentose-phosphate shunt, oxidative branch	cytosol	NADP binding|phosphogluconate dehydrogenase (decarboxylating) activity|protein binding			ovary(1)	1	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.14e-07)|COAD - Colon adenocarcinoma(227;7.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.00832)|READ - Rectum adenocarcinoma(331;0.0487)		ATCATTAGAAGGTAAGTGAGA	0.562													29	102	---	---	---	---	PASS	C	10477566	C	C	10477566	3	2	130	1	0	0	0	0	1	0	0	0	11787	1014	35	4	1147	4	PGD	1	10477566	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	9323575	10477566	238773055	2	46823										
RPS6KA1	6195	broad.mit.edu	37	chr1	26883509	26883509	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	aagctataccgtcgtgagatCaagccacccttcaagccagc	8	14	2	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr1:26883509C>G	uc001bmr.1	+	13	1165	c.1002C>G	c.(1000-1002)ATC>ATG	p.I334M	RPS6KA1_uc010ofe.1_Missense_Mutation_p.I242M|RPS6KA1_uc010off.1_Missense_Mutation_p.I318M|RPS6KA1_uc001bms.1_Missense_Mutation_p.I343M|RPS6KA1_uc009vsl.1_Missense_Mutation_p.I177M	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	334	AGC-kinase C-terminal.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		GTCGTGAGATCAAGCCACCCT	0.587													30	108	---	---	---	---	PASS	G	26883509	G	G	26883509	3	3	130	1	0	0	0	0	1	0	0	0	13650	816	29	2	1191	2	RPS6KA1	1	26883509	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	16405943	26883509	222367112	3	46824										
HDAC1	3065	broad.mit.edu	37	chr1	32797376	32797376	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cctgaggagagtggcgatgaGgacgaagacgaccctgacaa	15	9	0	5			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr1:32797376G>C	uc001bvb.1	+	11	1251	c.1188G>C	c.(1186-1188)GAG>GAC	p.E396D	HDAC1_uc010ohf.1_Missense_Mutation_p.E367D|HDAC1_uc001bvc.1_Missense_Mutation_p.E152D	NM_004964	NP_004955	Q13547	HDAC1_HUMAN	histone deacetylase 1	396				Missing: Strongly decreases deacetylase activity, and disrupts interaction with NuRD and SIN3 complexes.	anti-apoptosis|blood coagulation|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|histone H3 deacetylation|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of androgen receptor signaling pathway|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytosol|NuRD complex|Sin3 complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|identical protein binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|RNA polymerase II transcription corepressor activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|breast(1)	3		Breast(348;0.000523)|Lung NSC(340;0.000992)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Lung SC(1967;0.113)		KIRC - Kidney renal clear cell carcinoma(1967;0.138)	Vorinostat(DB02546)	GTGGCGATGAGGACGAAGACG	0.567													39	131	---	---	---	---	PASS	C	32797376	C	C	32797376	3	2	130	1	0	0	0	0	1	0	0	0	7004	991	35	4	1230	4	HDAC1	1	32797376	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	5913867	32797376	216453245	4	46825										
KTI12	112970	broad.mit.edu	37	chr1	52498835	52498835	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cgggagagtaaaaggcaccgGacccatgctttgcagatttc	12	10	0	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr1:52498835G>A	uc001ctj.1	-	1	638	c.599C>T	c.(598-600)TCC>TTC	p.S200F	TXNDC12_uc001cti.2_Intron	NM_138417	NP_612426	Q96EK9	KTI12_HUMAN	KTI12 homolog, chromatin associated	200							ATP binding			central_nervous_system(2)	2						AAAGGCACCGGACCCATGCTT	0.577													42	118	---	---	---	---	PASS	A	52498835	A	A	52498835	3	1	130	1	0	0	0	0	1	0	0	0	8584	1174	41	2	469	2	KTI12	1	52498835	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	19701459	52498835	196751786	5	46826										
CC2D1B	200014	broad.mit.edu	37	chr1	52828391	52828391	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	catgcccagcagcatgtcctCagggccaaactccataaaga	8	14	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr1:52828391C>G	uc001ctq.1	-	3	235	c.97G>C	c.(97-99)GAG>CAG	p.E33Q	CC2D1B_uc001cts.2_5'Flank	NM_032449	NP_115825	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B	33										ovary(2)	2						AGCATGTCCTCAGGGCCAAAC	0.572													53	165	---	---	---	---	PASS	G	52828391	G	G	52828391	3	3	130	1	0	0	0	0	1	0	0	0	2727	835	29	2	2567	2	CC2D1B	1	52828391	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	329556	52828391	196422230	6	46827										
NPR1	4881	broad.mit.edu	37	chr1	153654196	153654196	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	acaggtgaacaccatcccagCatccttccacgacgggctcc	8	17	0	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr1:153654196C>A	uc001fcs.3	+	4	1473	c.1052C>A	c.(1051-1053)GCA>GAA	p.A351E	NPR1_uc010pdz.1_Missense_Mutation_p.A97E	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	351	Extracellular (Potential).				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	ACCATCCCAGCATCCTTCCAC	0.582													51	79	---	---	---	---	PASS	A	153654196	A	A	153654196	3	1	130	1	0	0	0	0	1	0	0	0	10594	710	25	3	1066	3	NPR1	1	153654196	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	100825805	153654196	95596425	7	46828										
NUF2	83540	broad.mit.edu	37	chr1	163295920	163295920	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ataagatcttaacaggagctGatggtaaaaacctcaccaag	8	8	2	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr1:163295920G>A	uc001gcq.1	+	2	379	c.79G>A	c.(79-81)GAT>AAT	p.D27N	NUF2_uc001gcp.2_Missense_Mutation_p.D27N|NUF2_uc001gcr.1_Missense_Mutation_p.D27N|NUF2_uc009wvc.1_Missense_Mutation_p.D27N	NM_145697	NP_663735	Q9BZD4	NUF2_HUMAN	NUF2, NDC80 kinetochore complex component	27	Interaction with the N-terminus of NDC80.				cell division|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding			ovary(3)|skin(1)	4	all_hematologic(923;0.101)					AACAGGAGCTGATGGTAAAAA	0.358													122	163	---	---	---	---	PASS	A	163295920	A	A	163295920	3	1	130	1	0	0	0	0	1	0	0	0	10747	1290	45	2	81	2	NUF2	1	163295920	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	9641724	163295920	85954701	8	46829										
ABL2	27	broad.mit.edu	37	chr1	179090794	179090794	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cgccaacgtaaacctctccaTactgaccgcccccaagtttg	6	17	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr1:179090794T>C	uc001gmj.3	-	5	1183	c.896A>G	c.(895-897)TAT>TGT	p.Y299C	ABL2_uc010pnf.1_Missense_Mutation_p.Y299C|ABL2_uc010png.1_Missense_Mutation_p.Y278C|ABL2_uc010pnh.1_Missense_Mutation_p.Y278C|ABL2_uc009wxe.2_Missense_Mutation_p.Y278C|ABL2_uc001gmg.3_Missense_Mutation_p.Y284C|ABL2_uc001gmi.3_Missense_Mutation_p.Y284C|ABL2_uc001gmh.3_Missense_Mutation_p.Y263C|ABL2_uc010pne.1_Missense_Mutation_p.Y263C|ABL2_uc009wxf.1_Missense_Mutation_p.Y284C|ABL2_uc001gmk.2_Missense_Mutation_p.Y263C	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	299	ATP (By similarity).|Protein kinase.				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	AACCTCTCCATACTGACCGCC	0.453			T	ETV6	AML								135	213	---	---	---	---	PASS	C	179090794	C	C	179090794	3	2	130	1	0	0	0	0	1	0	0	0	93	1406	49	5	2729	5	ABL2	1	179090794	Missense_Mutation	SNP	T	TCGA-60-2721-01A-01D-1522-08	15794874	179090794	70159827	9	46830										
SOX13	9580	broad.mit.edu	37	chr1	204092245	204092245	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cccctgtcaacctaggacctCatcagcctggactcatcccc	6	19	4	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr1:204092245C>T	uc001ham.2	+	11	1735	c.1140C>T	c.(1138-1140)CTC>CTT	p.L380L	SOX13_uc010pqp.1_Silent_p.L379L|SOX13_uc010pqq.1_Silent_p.L247L	NM_005686	NP_005677	Q9UN79	SOX13_HUMAN	SRY-box 13	380					anatomical structure morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2	all_cancers(21;0.0754)|Breast(84;0.116)|all_epithelial(62;0.189)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)			CCTAGGACCTCATCAGCCTGG	0.612													56	104	---	---	---	---	PASS	T	204092245	T	T	204092245	2	4	130	1	0	0	0	0	0	0	0	1	14944	813	29	2		2	SOX13	1	204092245	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08	25001451	204092245	45158376	10	46831										
C1orf74	148304	broad.mit.edu	37	chr1	209956220	209956220	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ctcagaggagatgctgagatCagcaaagtcattctgagtcc	11	9	4	4			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr1:209956220C>T	uc001hhp.1	-	2	1003	c.760G>A	c.(760-762)GAT>AAT	p.D254N		NM_152485	NP_689698	Q96LT6	CA074_HUMAN	hypothetical protein LOC148304	254										skin(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0328)		ATGCTGAGATCAGCAAAGTCA	0.478													53	231	---	---	---	---	PASS	T	209956220	T	T	209956220	3	4	130	1	0	0	0	0	1	0	0	0	2058	826	29	2	53	2	C1orf74	1	209956220	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	5863975	209956220	39294401	11	46832										
OR2L13	284521	broad.mit.edu	37	chr1	248263404	248263404	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ccttcaccaccatttcaacaCatttaactgtagtgatcttt	3	12	3	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr1:248263404C>T	uc001ids.2	+	3	1064	c.727C>T	c.(727-729)CAT>TAT	p.H243Y		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			CATTTCAACACATTTAACTGT	0.453													83	144	---	---	---	---	PASS	T	248263404	T	T	248263404	3	4	130	1	0	0	0	0	1	0	0	0	11006	478	17	3	729	3	OR2L13	1	248263404	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	38307184	248263404	987217	12	46833										
APLF	200558	broad.mit.edu	37	chr2	68765102	68765102	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	aaacttccaatagaggaactTggtaaagtttctaaacataa	6	6	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr2:68765102T>C	uc002sep.2	+	7	1076	c.903T>C	c.(901-903)CTT>CTC	p.L301L	APLF_uc002seq.1_RNA|APLF_uc010fdf.2_Silent_p.L277L|APLF_uc002ser.1_Silent_p.L32L	NM_173545	NP_775816	Q8IW19	APLF_HUMAN	aprataxin and PNKP like factor	301					double-strand break repair|single strand break repair	cytosol|nucleus	3'-5' exonuclease activity|DNA-(apurinic or apyrimidinic site) lyase activity|endodeoxyribonuclease activity|metal ion binding|nucleotide binding|protein binding			ovary(2)	2						TAGAGGAACTTGGTAAAGTTT	0.363													33	97	---	---	---	---	PASS	C	68765102	C	C	68765102	2	2	130	1	0	0	0	0	0	0	0	1	776	1799	63	5		5	APLF	2	68765102	Silent	SNP	T	TCGA-60-2721-01A-01D-1522-08		68765102	174434271	13	46834										
DPP10	57628	broad.mit.edu	37	chr2	116572478	116572478	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	caagatttgatggcagaggaAgtggattccagggtctgaaa	14	5	1	4			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr2:116572478A>G	uc002tla.1	+	20	2267	c.1810A>G	c.(1810-1812)AGT>GGT	p.S604G	DPP10_uc002tlb.1_Missense_Mutation_p.S554G|DPP10_uc002tlc.1_Missense_Mutation_p.S600G|DPP10_uc002tle.2_Missense_Mutation_p.S608G|DPP10_uc002tlf.1_Missense_Mutation_p.S597G	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	604	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TGGCAGAGGAAGTGGATTCCA	0.423													56	150	---	---	---	---	PASS	G	116572478	G	G	116572478	3	3	130	1	0	0	0	0	1	0	0	0	4727	72	3	5	2059	5	DPP10	2	116572478	Missense_Mutation	SNP	A	TCGA-60-2721-01A-01D-1522-08	47807376	116572478	126626895	14	46835										
GALNT13	114805	broad.mit.edu	37	chr2	155158078	155158078	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tttggatggatgaatttaaaGatttcttctacatcatatcc	6	6	3	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr2:155158078G>C	uc002tyr.3	+	9	1699	c.1132G>C	c.(1132-1134)GAT>CAT	p.D378H	GALNT13_uc002tyt.3_Missense_Mutation_p.D378H|GALNT13_uc010foc.1_Missense_Mutation_p.D197H|GALNT13_uc010fod.2_Missense_Mutation_p.D131H	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	378	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						TGAATTTAAAGATTTCTTCTA	0.363													68	220	---	---	---	---	PASS	C	155158078	C	C	155158078	3	2	130	1	0	0	0	0	1	0	0	0	6211	942	33	2	1158	2	GALNT13	2	155158078	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	38585600	155158078	88041295	15	46836										
MAP1D	254042	broad.mit.edu	37	chr2	172944926	172944926	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tggactgtggtctccctagaCaatcaaaggtgtttgctttc	10	9	2	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr2:172944926C>T	uc002uhk.2	+	9	994	c.921C>T	c.(919-921)GAC>GAT	p.D307D	MAP1D_uc010zdw.1_Silent_p.D189D	NM_199227	NP_954697	Q6UB28	AMP1D_HUMAN	methionine aminopeptidase 1D precursor	307					N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis	mitochondrion	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)			tctccctagacaatcAAAGGT	0.383													59	179	---	---	---	---	PASS	T	172944926	T	T	172944926	2	4	130	1	0	0	0	0	0	0	0	1	9229	477	17	3		3	MAP1D	2	172944926	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08	17786848	172944926	70254447	16	46837										
TRIM59	286827	broad.mit.edu	37	chr3	160155865	160155865	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	gataaactttggtaaacagaTagagaggcttcagaaaacca	9	6	1	3			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr3:160155865T>C	uc003fdm.2	-	3	1302	c.1107A>G	c.(1105-1107)CTA>CTG	p.L369L	IFT80_uc003fda.2_Intron	NM_173084	NP_775107	Q8IWR1	TRI59_HUMAN	tripartite motif-containing 59	369						integral to membrane|intracellular	zinc ion binding				0			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			GGTAAACAGATAGAGAGGCTT	0.313													87	88	---	---	---	---	PASS	C	160155865	C	C	160155865	2	2	130	1	0	0	0	0	0	0	0	1	16529	1393	49	5		5	TRIM59	3	160155865	Silent	SNP	T	TCGA-60-2721-01A-01D-1522-08		160155865	37866565	17	46838										
CEP135	9662	broad.mit.edu	37	chr4	56831872	56831872	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	atacgagagcttatggaaacCaaggaaacagtgacatctga	10	7	1	3			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr4:56831872C>T	uc003hbi.2	+	8	1125	c.891C>T	c.(889-891)ACC>ACT	p.T297T	CEP135_uc003hbj.2_Silent_p.T3T|CEP135_uc010igz.1_Silent_p.T127T	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	297	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					TTATGGAAACCAAGGAAACAG	0.353													44	75	---	---	---	---	PASS	T	56831872	T	T	56831872	2	4	130	1	0	0	0	0	0	0	0	1	3247	581	21	3		3	CEP135	4	56831872	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08		56831872	134322404	18	46839										
KIAA1109	84162	broad.mit.edu	37	chr4	123268789	123268789	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cagccaagtcagtcagcctcCttcacccacatgcctcagtc	6	18	4	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr4:123268789C>T	uc003ieh.2	+	74	13029	c.12984C>T	c.(12982-12984)TCC>TCT	p.S4328S	KIAA1109_uc003iem.2_Silent_p.S684S	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4328					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGTCAGCCTCCTTCACCCACA	0.498													51	47	---	---	---	---	PASS	T	123268789	T	T	123268789	2	4	130	1	0	0	0	0	0	0	0	1	8208	668	24	3		3	KIAA1109	4	123268789	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08	66436917	123268789	67885487	19	46840										
ANKH	56172	broad.mit.edu	37	chr5	14758688	14758688	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tgcagtttattgataatgtaGtatcctaaatcactataagc	6	6	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr5:14758688G>C	uc003jfm.3	-	3	664	c.333C>G	c.(331-333)TAC>TAG	p.Y111*		NM_054027	NP_473368	Q9HCJ1	ANKH_HUMAN	progressive ankylosis protein	111	Extracellular (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						TGATAATGTAGTATCCTAAAT	0.408													50	144	---	---	---	---	PASS	C	14758688	C	C	14758688	4	2	130	1	0	0	0	0	0	1	0	0	627	1024	36	4	1185	4	ANKH	5	14758688	Nonsense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08		14758688	166156572	20	46841										
OR2B2	81697	broad.mit.edu	37	chr6	27879971	27879971	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tgacacaagaattattgtcaGattgccaaagattgtcaaga	8	6	2	5			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr6:27879971G>A	uc011dkw.1	-	1	127	c.127C>T	c.(127-129)CTG>TTG	p.L43L		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATTATTGTCAGATTGCCAAAG	0.393													52	88	---	---	---	---	PASS	A	27879971	A	A	27879971	2	1	130	1	0	0	0	0	0	0	0	1	10989	933	33	2		2	OR2B2	6	27879971	Silent	SNP	G	TCGA-60-2721-01A-01D-1522-08		27879971	143235096	21	46842										
PKHD1	5314	broad.mit.edu	37	chr6	51907784	51907784	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	atcaagatccgatgcattccAacaggtagcaaatctgtctg	8	10	3	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr6:51907784A>C	uc003pah.1	-	27	3246	c.2970T>G	c.(2968-2970)GTT>GTG	p.V990V	PKHD1_uc003pai.2_Silent_p.V990V	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	990	IPT/TIG 4.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GATGCATTCCAACAGGTAGCA	0.453													77	141	---	---	---	---	PASS	C	51907784	C	C	51907784	2	2	130	1	0	0	0	0	0	0	0	1	11971	117	5	5		5	PKHD1	6	51907784	Silent	SNP	A	TCGA-60-2721-01A-01D-1522-08	24027813	51907784	119207283	22	46843										
PHF3	23469	broad.mit.edu	37	chr6	64394489	64394489	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tagtccattgtttaagttttCagataaagaagaacatgaac	7	5	1	4			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr6:64394489C>T	uc003pep.1	+	3	892	c.866C>T	c.(865-867)TCA>TTA	p.S289L	PHF3_uc010kaf.1_Missense_Mutation_p.S289L|PHF3_uc003pem.2_Missense_Mutation_p.S242L|PHF3_uc010kag.1_Missense_Mutation_p.S201L|PHF3_uc010kah.1_Missense_Mutation_p.S103L|PHF3_uc003pen.2_Missense_Mutation_p.S201L|PHF3_uc011dxs.1_Intron|PHF3_uc003peo.2_Missense_Mutation_p.S289L	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	289					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			TTTAAGTTTTCAGATAAAGAA	0.343													30	130	---	---	---	---	PASS	T	64394489	T	T	64394489	3	4	130	1	0	0	0	0	1	0	0	0	11836	838	29	2	876	2	PHF3	6	64394489	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	12486705	64394489	106720578	23	46844										
BAI3	577	broad.mit.edu	37	chr6	69349286	69349286	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	gctgcaaaccacccaagtctGcaatcttaccagggaggcca	9	14	2	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr6:69349286G>A	uc003pev.3	+	3	1167	c.719G>A	c.(718-720)TGC>TAC	p.C240Y	BAI3_uc010kak.2_Missense_Mutation_p.C240Y	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	240	Extracellular (Potential).				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)				ACCCAAGTCTGCAATCTTACC	0.537													20	37	---	---	---	---	PASS	A	69349286	A	A	69349286	3	1	130	1	0	0	0	0	1	0	0	0	1300	1319	46	3	721	3	BAI3	6	69349286	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	4954797	69349286	101765781	24	46845										
IMPG1	3617	broad.mit.edu	37	chr6	76633407	76633407	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	agttttgtatgcttgattttCagagtgatctggcaacctac	9	7	2	3			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr6:76633407C>T	uc003pik.1	-	16	2390	c.2260G>A	c.(2260-2262)GAA>AAA	p.E754K		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	754					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				GCTTGATTTTCAGAGTGATCT	0.299													20	29	---	---	---	---	PASS	T	76633407	T	T	76633407	3	4	130	1	0	0	0	0	1	0	0	0	7728	835	29	2	141	2	IMPG1	6	76633407	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	7284121	76633407	94481660	25	46846										
TAAR2	9287	broad.mit.edu	37	chr6	132939033	132939033	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	aaataccagcagttctccacCgatctgatcatactatatgg	6	11	3	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr6:132939033C>A	uc003qdl.1	-	2	312	c.312G>T	c.(310-312)TCG>TCT	p.S104S	TAAR2_uc010kfr.1_Silent_p.S59S	NM_001033080	NP_001028252	Q9P1P5	TAAR2_HUMAN	trace amine associated receptor 2 isoform 1	104	Extracellular (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00608)|GBM - Glioblastoma multiforme(226;0.0151)		AGTTCTCCACCGATCTGATCA	0.423													48	107	---	---	---	---	PASS	A	132939033	A	A	132939033	2	1	130	1	0	0	0	0	0	0	0	1	15487	639	23	1		1	TAAR2	6	132939033	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08	56305626	132939033	38176034	26	46847										
TTLL2	83887	broad.mit.edu	37	chr6	167754034	167754034	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ggatttgcaagcctgctgagTtatctcgtgggagggggata	16	6	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr6:167754034T>A	uc003qvs.1	+	3	734	c.646T>A	c.(646-648)TTA>ATA	p.L216I	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	216	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GCCTGCTGAGTTATCTCGTGG	0.418													45	160	---	---	---	---	PASS	A	167754034	A	A	167754034	3	1	130	1	0	0	0	0	1	0	0	0	16724	1722	60	5	656	5	TTLL2	6	167754034	Missense_Mutation	SNP	T	TCGA-60-2721-01A-01D-1522-08	34815001	167754034	3361033	27	46848										
ABCB5	340273	broad.mit.edu	37	chr7	20784946	20784946	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	agagcctgtgctcttcaactGcagcattgctgagaacatcg	10	11	2	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr7:20784946G>T	uc003suw.3	+	17	2525	c.1979G>T	c.(1978-1980)TGC>TTC	p.C660F	ABCB5_uc010kuh.2_Missense_Mutation_p.C1105F	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	660	Cytoplasmic (Potential).|ABC transporter 2.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						CTCTTCAACTGCAGCATTGCT	0.448													48	110	---	---	---	---	PASS	T	20784946	T	T	20784946	3	4	130	1	0	0	0	0	1	0	0	0	44	1319	46	3	3453	3	ABCB5	7	20784946	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08		20784946	138353717	28	46849										
TBX20	57057	broad.mit.edu	37	chr7	35242047	35242047	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ccatttttagaagagtcataCaaatggcgtcatcacagcag	8	9	3	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr7:35242047C>T	uc011kas.1	-	8	1350	c.1339G>A	c.(1339-1341)GTA>ATA	p.V447I		NM_001077653	NP_001071121	Q9UMR3	TBX20_HUMAN	T-box transcription factor TBX20	447						nucleus	DNA binding			central_nervous_system(1)	1						AAGAGTCATACAAATGGCGTC	0.507													9	17	---	---	---	---	PASS	T	35242047	T	T	35242047	3	4	130	1	0	0	0	0	1	0	0	0	15653	478	17	3	7	3	TBX20	7	35242047	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	14457101	35242047	123896616	29	46850										
TNS3	64759	broad.mit.edu	37	chr7	47453597	47453597	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ttcagaaagggccggcacacTgaaagaaaggcacaactgtc	11	10	1	3			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr7:47453597T>C	uc003tnv.2	-	12	954	c.587_splice	c.e12-1	p.V196_splice	TNS3_uc003tnw.2_Splice_Site_p.V196_splice|TNS3_uc010kyo.1_Splice_Site_p.V196_splice	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3							focal adhesion	protein binding			ovary(4)	4						GCCGGCACACTGAAAGAAAGG	0.463													32	112	---	---	---	---	PASS	C	47453597	C	C	47453597	5	2	130	1	0	0	0	0	0	0	1	0	16341	1594	55	5	3832	5	TNS3	7	47453597	Splice_Site	SNP	T	TCGA-60-2721-01A-01D-1522-08	12211550	47453597	111685066	30	46851										
TFR2	7036	broad.mit.edu	37	chr7	100230713	100230713	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ccgcaggtcctgcaggtcttCgggccgcccgtagtgggcgt	16	14	1	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr7:100230713C>A	uc003uvv.1	-	6	801	c.760G>T	c.(760-762)GAA>TAA	p.E254*	TFR2_uc010lhc.1_5'UTR|TFR2_uc003uvu.1_Nonsense_Mutation_p.E83*	NM_003227	NP_003218	Q9UP52	TFR2_HUMAN	transferrin receptor 2	254	Extracellular (Potential).				cellular iron ion homeostasis|iron ion transport|proteolysis	cytoplasm|integral to plasma membrane	peptidase activity|transferrin receptor activity			ovary(1)|pancreas(1)	2	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					TGCAGGTCTTCGGGCCGCCCG	0.697													25	71	---	---	---	---	PASS	A	100230713	A	A	100230713	4	1	130	1	0	0	0	0	0	1	0	0	15808	893	31	2	1697	2	TFR2	7	100230713	Nonsense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	52777116	100230713	58907950	31	46852										
EPHB6	2051	broad.mit.edu	37	chr7	142568388	142568388	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	gagtgctaccaggacaacttCtccaagtttggcctctgtac	9	12	2	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr7:142568388C>T	uc011kst.1	+	19	3694	c.2907C>T	c.(2905-2907)TTC>TTT	p.F969F	EPHB6_uc011ksu.1_Silent_p.F969F|EPHB6_uc003wbs.2_Silent_p.F677F|EPHB6_uc003wbt.2_Silent_p.F443F|EPHB6_uc003wbu.2_Silent_p.F677F|EPHB6_uc003wbv.2_Silent_p.F353F	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	969	SAM.|Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					AGGACAACTTCTCCAAGTTTG	0.607													54	196	---	---	---	---	PASS	T	142568388	T	T	142568388	2	4	130	1	0	0	0	0	0	0	0	1	5178	912	32	2		2	EPHB6	7	142568388	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08	42337675	142568388	16570275	32	46853										
INSIG1	3638	broad.mit.edu	37	chr7	155094556	155094556	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ataggacgacagttagctatGgtaagtgaaatgatcatatt	10	4	1	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr7:155094556G>A	uc003wly.2	+	5	1015	c.804G>A	c.(802-804)ATG>ATA	p.M268I	INSIG1_uc011kvu.1_Missense_Mutation_p.M116I|INSIG1_uc003wlz.2_3'UTR	NM_005542	NP_005533	O15503	INSI1_HUMAN	insulin induced gene 1 isoform 1	268	Cytoplasmic.				cell proliferation|ER-nuclear sterol response pathway	endoplasmic reticulum membrane|integral to membrane	protein binding				0	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGTTAGCTATGGTAAGTGAAA	0.383													54	193	---	---	---	---	PASS	A	155094556	A	A	155094556	3	1	130	1	0	0	0	0	1	0	0	0	7765	1362	47	3	818	3	INSIG1	7	155094556	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	12526168	155094556	4044107	33	46854										
GPR124	25960	broad.mit.edu	37	chr8	37699012	37699012	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ccccgggtggtgtgcagctgCttgtacggggtggcagcctc	17	12	0	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr8:37699012C>T	uc003xkj.2	+	19	3519	c.3156C>T	c.(3154-3156)TGC>TGT	p.C1052C	GPR124_uc010lvy.2_Silent_p.C835C	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	1052	Helical; Name=7; (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			TGTGCAGCTGCTTGTACGGGG	0.697													39	91	---	---	---	---	PASS	T	37699012	T	T	37699012	2	4	130	1	0	0	0	0	0	0	0	1	6638	805	28	3		3	GPR124	8	37699012	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08		37699012	108665010	34	46855										
INTS8	55656	broad.mit.edu	37	chr8	95879535	95879535	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	gaatgatattacagctgaacAcatttctatttggccatctt	6	8	2	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr8:95879535A>G	uc003yhb.2	+	20	2510	c.2384A>G	c.(2383-2385)CAC>CGC	p.H795R	INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Missense_Mutation_p.H622R	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	795					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					ACAGCTGAACACATTTCTATT	0.274													59	208	---	---	---	---	PASS	G	95879535	G	G	95879535	3	3	130	1	0	0	0	0	1	0	0	0	7784	159	6	5	2462	5	INTS8	8	95879535	Missense_Mutation	SNP	A	TCGA-60-2721-01A-01D-1522-08	58180523	95879535	50484487	35	46856										
MTERFD1	51001	broad.mit.edu	37	chr8	97263324	97263324	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tatcttggacaaatccacgcCtataataaattataaatact	3	8	1	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr8:97263324C>G	uc003yhs.1	-	4	566	c.488_splice	c.e4-1	p.G163_splice	MTERFD1_uc003yhr.1_Splice_Site_p.G42_splice|MTERFD1_uc010mbd.1_Splice_Site_p.G163_splice	NM_015942	NP_057026	Q96E29	MTER1_HUMAN	MTERF domain containing 1 precursor						negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion	transcription regulatory region DNA binding			ovary(1)	1	Breast(36;5.16e-05)					AAATCCACGCCTATAATAAAT	0.333													28	98	---	---	---	---	PASS	G	97263324	G	G	97263324	5	3	130	1	0	0	0	0	0	0	1	0	9919	695	24	4	786	4	MTERFD1	8	97263324	Splice_Site	SNP	C	TCGA-60-2721-01A-01D-1522-08	1383789	97263324	49100698	36	46857										
TG	7038	broad.mit.edu	37	chr8	134025901	134025901	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tgcaaacccaacctggggctGtgagatgtatgttctatgct	11	9	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr8:134025901G>C	uc003ytw.2	+	37	6495	c.6454G>C	c.(6454-6456)GTG>CTG	p.V2152L	TG_uc010mdw.2_Missense_Mutation_p.V911L|TG_uc011ljb.1_Missense_Mutation_p.V521L|TG_uc011ljc.1_Missense_Mutation_p.V285L	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2152	Type IIIA.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		ACCTGGGGCTGTGAGATGTAT	0.517													37	122	---	---	---	---	PASS	C	134025901	C	C	134025901	3	2	130	1	0	0	0	0	1	0	0	0	15810	1377	48	4	6600	4	TG	8	134025901	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	36762577	134025901	12338121	37	46858										
DNM1	1759	broad.mit.edu	37	chr9	131004537	131004537	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cgcaagggctggctgactatCaataatattggcatcatgaa	10	8	2	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr9:131004537C>G	uc011mau.1	+	15	1671	c.1584C>G	c.(1582-1584)ATC>ATG	p.I528M	DNM1_uc011mat.1_Missense_Mutation_p.I528M|DNM1_uc004bub.1_Translation_Start_Site|DNM1_uc004buc.1_Translation_Start_Site|DNM1_uc004bud.3_RNA	NM_004408	NP_004399	Q05193	DYN1_HUMAN	dynamin 1 isoform 1	528	PH.				receptor-mediated endocytosis	microtubule	GTP binding|GTPase activity			ovary(2)	2						GGCTGACTATCAATAATATTG	0.557													14	23	---	---	---	---	PASS	G	131004537	G	G	131004537	3	3	130	1	0	0	0	0	1	0	0	0	4670	816	29	2	1637	2	DNM1	9	131004537	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08		131004537	10208894	38	46859										
CEL	1056	broad.mit.edu	37	chr9	135945996	135945996	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	gctaccggccccaagacaggAcagtctctaaggccatgatc	10	14	1	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr9:135945996A>G	uc010naa.1	+	10	1460	c.1444A>G	c.(1444-1446)ACA>GCA	p.T482A		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	479					cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		CCAAGACAGGACAGTCTCTAA	0.607													38	89	---	---	---	---	PASS	G	135945996	G	G	135945996	3	3	130	1	0	0	0	0	1	0	0	0	3209	275	10	5	1482	5	CEL	9	135945996	Missense_Mutation	SNP	A	TCGA-60-2721-01A-01D-1522-08	4941459	135945996	5267435	39	46860										
GBGT1	26301	broad.mit.edu	37	chr9	136029232	136029232	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cgaagactgccccaccataaTagaagtccccttcgctgtct	7	15	1	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr9:136029232T>C	uc004ccw.2	-	7	1057	c.776A>G	c.(775-777)TAT>TGT	p.Y259C	RALGDS_uc011mcw.1_Intron|GBGT1_uc004ccx.2_Missense_Mutation_p.Y212C|GBGT1_uc010nab.2_3'UTR|GBGT1_uc011mcx.1_Missense_Mutation_p.Y242C|GBGT1_uc010nac.1_Missense_Mutation_p.Y123C|GBGT1_uc004ccy.1_3'UTR	NM_021996	NP_068836	Q8N5D6	GBGT1_HUMAN	globoside	259	Lumenal (Potential).				carbohydrate metabolic process|glycolipid biosynthetic process	Golgi membrane|integral to membrane	metal ion binding				0				OV - Ovarian serous cystadenocarcinoma(145;3.49e-06)|Epithelial(140;2.59e-05)		CCCACCATAATAGAAGTCCCC	0.592													38	51	---	---	---	---	PASS	C	136029232	C	C	136029232	3	2	130	1	0	0	0	0	1	0	0	0	6272	1406	49	5	271	5	GBGT1	9	136029232	Missense_Mutation	SNP	T	TCGA-60-2721-01A-01D-1522-08	83236	136029232	5184199	40	46861										
NEBL	10529	broad.mit.edu	37	chr10	21177072	21177072	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ctgcaaaaacactgtcaattGtggctggcatccgcttataa	8	10	1	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr10:21177072G>A	uc001iqi.2	-	4	720	c.323C>T	c.(322-324)ACA>ATA	p.T108I	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	108	Nebulin 3.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						ACTGTCAATTGTGGCTGGCAT	0.353													40	69	---	---	---	---	PASS	A	21177072	A	A	21177072	3	1	130	1	0	0	0	0	1	0	0	0	10303	1377	48	3	2821	3	NEBL	10	21177072	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08		21177072	114357675	41	46862										
ARMC4	55130	broad.mit.edu	37	chr10	28233864	28233864	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	atccctcattgaacacaacgCaatcactgtagctgtttgat	6	11	2	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr10:28233864C>G	uc009xky.2	-	11	1512	c.1414G>C	c.(1414-1416)GCG>CCG	p.A472P	ARMC4_uc010qds.1_5'UTR|ARMC4_uc010qdt.1_Missense_Mutation_p.A164P|ARMC4_uc001itz.2_Missense_Mutation_p.A472P|ARMC4_uc010qdu.1_Missense_Mutation_p.A164P	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	472							binding			ovary(4)|skin(2)	6						GAACACAACGCAATCACTGTA	0.438													26	106	---	---	---	---	PASS	G	28233864	G	G	28233864	3	3	130	1	0	0	0	0	1	0	0	0	953	710	25	4	1760	4	ARMC4	10	28233864	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	7056792	28233864	107300883	42	46863										
ARHGAP12	94134	broad.mit.edu	37	chr10	32098194	32098194	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ccttagtttctggatcactgCgaggttgccacttactctgt	9	11	3	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr10:32098194C>A	uc001ivz.1	-	17	2362	c.2092G>T	c.(2092-2094)GCA>TCA	p.A698S	ARHGAP12_uc001ivy.1_Missense_Mutation_p.A644S|ARHGAP12_uc009xls.2_Missense_Mutation_p.A649S|ARHGAP12_uc001iwb.1_Missense_Mutation_p.A691S|ARHGAP12_uc001iwc.1_Missense_Mutation_p.A666S|ARHGAP12_uc009xlq.1_Missense_Mutation_p.A619S|ARHGAP12_uc001ivw.1_5'Flank|ARHGAP12_uc001ivx.1_5'UTR	NM_018287	NP_060757	Q8IWW6	RHG12_HUMAN	Rho GTPase activating protein 12	698	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0		Prostate(175;0.0199)				TGGATCACTGCGAGGTTGCCA	0.358													33	117	---	---	---	---	PASS	A	32098194	A	A	32098194	3	1	130	1	0	0	0	0	1	0	0	0	865	768	27	1	464	1	ARHGAP12	10	32098194	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	3864330	32098194	103436553	43	46864										
SCD	6319	broad.mit.edu	37	chr10	102116493	102116493	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	aagaacattagcccccgggaGaatatcctggtttcacttgg	10	10	1	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr10:102116493G>A	uc001kqy.2	+	5	1342	c.852G>A	c.(850-852)GAG>GAA	p.E284E		NM_005063	NP_005054	O00767	ACOD_HUMAN	stearoyl-CoA desaturase 1	284	Cytoplasmic (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity				0		Colorectal(252;0.0323)		Epithelial(162;1.97e-10)|all cancers(201;1.73e-08)		GCCCCCGGGAGAATATCCTGG	0.502													12	45	---	---	---	---	PASS	A	102116493	A	A	102116493	2	1	130	1	0	0	0	0	0	0	0	1	13886	933	33	2		2	SCD	10	102116493	Silent	SNP	G	TCGA-60-2721-01A-01D-1522-08	70018299	102116493	33418254	44	46865										
CPT1A	1374	broad.mit.edu	37	chr11	68549256	68549256	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tacctgtcgtaacatcggccGtgtagtagagatttggcgta	12	8	0	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr11:68549256G>A	uc001oog.3	-	11	1505	c.1335C>T	c.(1333-1335)CAC>CAT	p.H445H	CPT1A_uc001oof.3_Silent_p.H445H|CPT1A_uc009ysj.2_Intron	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	445	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	AACATCGGCCGTGTAGTAGAG	0.488													91	289	---	---	---	---	PASS	A	68549256	A	A	68549256	2	1	130	1	0	0	0	0	0	0	0	1	3831	1136	40	1		1	CPT1A	11	68549256	Silent	SNP	G	TCGA-60-2721-01A-01D-1522-08		68549256	66457260	45	46866										
ALKBH8	91801	broad.mit.edu	37	chr11	107403129	107403129	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tgggtgcttaaaatccatgaCaatcttgaagcaaagataaa	8	6	1	3			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr11:107403129C>A	uc010rvr.1	-	8	850	c.775G>T	c.(775-777)GTC>TTC	p.V259F	ALKBH8_uc001pjk.2_Missense_Mutation_p.V7F|ALKBH8_uc010rvq.1_Missense_Mutation_p.V122F|ALKBH8_uc009yxp.2_Missense_Mutation_p.V259F|ALKBH8_uc001pjl.2_RNA	NM_138775	NP_620130	Q96BT7	ALKB8_HUMAN	alkB, alkylation repair homolog 8	259	Fe2OG dioxygenase.				response to DNA damage stimulus	cytosol|nucleus	metal ion binding|nucleotide binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|protein binding|RNA binding|tRNA (uracil) methyltransferase activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00512)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.53e-05)|Epithelial(105;0.00029)|all cancers(92;0.00518)		AAATCCATGACAATCTTGAAG	0.388													20	77	---	---	---	---	PASS	A	107403129	A	A	107403129	3	1	130	1	0	0	0	0	1	0	0	0	533	478	17	3	1239	3	ALKBH8	11	107403129	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	38853873	107403129	27603387	46	46867										
M6PR	4074	broad.mit.edu	37	chr12	9098176	9098176	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	accctggcccacagtgctctCaaagctgtaaagagaagtgg	11	11	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr12:9098176C>G	uc001qvf.2	-	3	351	c.181G>C	c.(181-183)GAG>CAG	p.E61Q		NM_002355	NP_002346	P20645	MPRD_HUMAN	cation-dependent mannose-6-phosphate receptor	61	Lumenal (Potential).				endosome to lysosome transport|receptor-mediated endocytosis	cell surface|endosome|integral to plasma membrane|lysosomal membrane	mannose binding|mannose transmembrane transporter activity|transmembrane receptor activity				0		Hepatocellular(102;0.137)		BRCA - Breast invasive adenocarcinoma(232;0.0146)		ACAGTGCTCTCAAAGCTGTAA	0.468													25	79	---	---	---	---	PASS	G	9098176	G	G	9098176	3	3	130	1	0	0	0	0	1	0	0	0	9140	835	29	2	672	2	M6PR	12	9098176	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08		9098176	124753719	47	46868										
KLRB1	3820	broad.mit.edu	37	chr12	9750713	9750713	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	aatgaaaaatttaatccaatCcaaaacagaattgctttgtc	4	7	0	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr12:9750713C>T	uc010sgt.1	-	5	521	c.459G>A	c.(457-459)TGG>TGA	p.W153*		NM_002258	NP_002249	Q12918	KLRB1_HUMAN	killer cell lectin-like receptor subfamily B,	153	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	sugar binding|transmembrane receptor activity				0						TTAATCCAATCCAAAACAGAA	0.299													14	55	---	---	---	---	PASS	T	9750713	T	T	9750713	4	4	130	1	0	0	0	0	0	1	0	0	8414	856	30	2	225	2	KLRB1	12	9750713	Nonsense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	652537	9750713	124101182	48	46869										
ETV6	2120	broad.mit.edu	37	chr12	11905406	11905406	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ggaacgaatttcatatacacCtccagagagcccagtgccga	9	12	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr12:11905406C>A	uc001qzz.2	+	2	330	c.56C>A	c.(55-57)CCT>CAT	p.P19H		NM_001987	NP_001978	P41212	ETV6_HUMAN	ets variant 6	19						cytoplasm|nucleolus	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		ETV6/NTRK3(234)|ETV6/JAK2(11)	soft_tissue(85)|kidney(66)|breast(55)|salivary_gland(26)|haematopoietic_and_lymphoid_tissue(13)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)|pancreas(1)	250		all_cancers(2;1.88e-12)|Acute lymphoblastic leukemia(2;6.91e-39)|all_hematologic(2;2.7e-36)				TCATATACACCTCCAGAGAGC	0.542			T	NTRK3|RUNX1|PDGFRB|ABL1|MN1|ABL2|FACL6|CHIC2|ARNT|JAK2|EVI1|CDX2|STL|HLXB9|MDS2|PER1|SYK|TTL|FGFR3|PAX5	congenital fibrosarcoma|multiple leukemia and lymphoma| secretory breast|MDS|ALL								51	158	---	---	---	---	PASS	A	11905406	A	A	11905406	3	1	130	1	0	0	0	0	1	0	0	0	5283	681	24	3	62	3	ETV6	12	11905406	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	2154693	11905406	121946489	49	46870										
DDX11	1663	broad.mit.edu	37	chr12	31238029	31238029	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	agctggtcctcgccgaatacGagagtgatgaggagaaaaag	14	7	0	4			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr12:31238029G>A	uc001rjt.1	+	5	858	c.607G>A	c.(607-609)GAG>AAG	p.E203K	DDX11_uc010sjw.1_Missense_Mutation_p.E203K|DDX11_uc010sjx.1_RNA|DDX11_uc001rjr.1_Missense_Mutation_p.E203K|DDX11_uc001rjs.1_Missense_Mutation_p.E203K|DDX11_uc001rju.1_5'UTR|DDX11_uc001rjv.1_Missense_Mutation_p.E203K|DDX11_uc001rjw.1_Missense_Mutation_p.E177K|DDX11_uc001rjx.1_5'Flank	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	203	Glu-rich.|Helicase ATP-binding.				G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					CGCCGAATACGAGAGTGATGA	0.627										Multiple Myeloma(12;0.14)			7	9	---	---	---	---	PASS	A	31238029	A	A	31238029	3	1	130	1	0	0	0	0	1	0	0	0	4343	1059	37	2	621	2	DDX11	12	31238029	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	19332623	31238029	102613866	50	46871										
CACNB3	784	broad.mit.edu	37	chr12	49221670	49221670	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cgcaaccggccttggcccaaGgatagctactgacagcctcc	10	16	0	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr12:49221670G>C	uc001rsl.1	+	13	1644	c.1443G>C	c.(1441-1443)AAG>AAC	p.K481N	CACNB3_uc010sly.1_Missense_Mutation_p.K468N|CACNB3_uc010slz.1_Missense_Mutation_p.K480N|CACNB3_uc001rsk.1_Missense_Mutation_p.K328N	NM_000725	NP_000716	P54284	CACB3_HUMAN	calcium channel, voltage-dependent, beta 3	481					axon guidance|membrane depolarization|synaptic transmission	cytosol|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0					Verapamil(DB00661)	CTTGGCCCAAGGATAGCTACT	0.647													12	37	---	---	---	---	PASS	C	49221670	C	C	49221670	3	2	130	1	0	0	0	0	1	0	0	0	2554	991	35	4	1493	4	CACNB3	12	49221670	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	17983641	49221670	84630225	51	46872										
ATXN2	6311	broad.mit.edu	37	chr12	111957681	111957681	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	catcatgatttcctttaaatAcctagtgtttatgctgtgcc	6	9	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr12:111957681A>T	uc001tsj.2	-	8	1628	c.1466_splice	c.e8+1	p.R489_splice	ATXN2_uc001tsh.2_Splice_Site_p.R224_splice|ATXN2_uc001tsi.2_Splice_Site_p.R200_splice|ATXN2_uc001tsk.2_Splice_Site|ATXN2_uc001tsm.1_Splice_Site_p.R224_splice	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2						cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						TCCTTTAAATACCTAGTGTTT	0.388													87	231	---	---	---	---	PASS	T	111957681	T	T	111957681	5	4	130	1	0	0	0	0	0	0	1	0	1211	405	14	5	2545	5	ATXN2	12	111957681	Splice_Site	SNP	A	TCGA-60-2721-01A-01D-1522-08	62736011	111957681	21894214	52	46873										
DHX37	57647	broad.mit.edu	37	chr12	125461949	125461949	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ggtcttcccgctgccggtctCaccacacacgatgacgatgg	11	15	2	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr12:125461949C>T	uc001ugy.2	-	5	925	c.826G>A	c.(826-828)GAG>AAG	p.E276K		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	276	ATP (By similarity).|Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		CTGCCGGTCTCACCACACACG	0.577													44	126	---	---	---	---	PASS	T	125461949	T	T	125461949	3	4	130	1	0	0	0	0	1	0	0	0	4510	835	29	2	2739	2	DHX37	12	125461949	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	13504268	125461949	8389946	53	46874										
SLC15A4	121260	broad.mit.edu	37	chr12	129294641	129294641	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tgtttagaagattgctgaaaGactccaatgccttcactttg	8	8	1	4			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr12:129294641G>C	uc001uhu.2	-	3	911	c.858C>G	c.(856-858)GTC>GTG	p.V286V	SLC15A4_uc001uhv.2_Intron	NM_145648	NP_663623	Q8N697	S15A4_HUMAN	solute carrier family 15, member 4	286					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.69e-06)|Epithelial(86;1.17e-05)|all cancers(50;5.07e-05)		ATTGCTGAAAGACTCCAATGC	0.378													47	136	---	---	---	---	PASS	C	129294641	C	C	129294641	2	2	130	1	0	0	0	0	0	0	0	1	14401	929	33	2		2	SLC15A4	12	129294641	Silent	SNP	G	TCGA-60-2721-01A-01D-1522-08	3832692	129294641	4557254	54	46875										
SLC15A4	121260	broad.mit.edu	37	chr12	129299345	129299345	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	actctggcgctctccacttcGcttctgggaacagcaggaat	10	13	3	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr12:129299345G>A	uc001uhu.2	-	2	870	c.817C>T	c.(817-819)CGA>TGA	p.R273*	SLC15A4_uc001uhv.2_RNA|MGC16384_uc001uhw.2_5'Flank	NM_145648	NP_663623	Q8N697	S15A4_HUMAN	solute carrier family 15, member 4	273					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.69e-06)|Epithelial(86;1.17e-05)|all cancers(50;5.07e-05)		TCTCCACTTCGCTTCTGGGAA	0.453													59	111	---	---	---	---	PASS	A	129299345	A	A	129299345	4	1	130	1	0	0	0	0	0	1	0	0	14401	1095	38	1	944	1	SLC15A4	12	129299345	Nonsense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	4704	129299345	4552550	55	46876										
PUS1	80324	broad.mit.edu	37	chr12	132425925	132425925	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ctgcccacgtttgcctttgcGcacaaggaccgggacgttca	11	14	1	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr12:132425925G>T	uc001ujf.2	+	5	1112	c.633G>T	c.(631-633)GCG>GCT	p.A211A	PUS1_uc001ujg.2_Silent_p.A183A|PUS1_uc001ujh.2_Silent_p.A183A|PUS1_uc001uji.2_Silent_p.A158A	NM_025215	NP_079491	Q9Y606	TRUA_HUMAN	pseudouridine synthase 1 isoform 1	211						mitochondrion	pseudouridine synthase activity|pseudouridylate synthase activity|RNA binding			breast(1)|central_nervous_system(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.05e-08)|Epithelial(86;2.51e-07)|all cancers(50;2.94e-07)		TTGCCTTTGCGCACAAGGACC	0.607													28	67	---	---	---	---	PASS	T	132425925	T	T	132425925	2	4	130	1	0	0	0	0	0	0	0	1	12830	1074	38	1		1	PUS1	12	132425925	Silent	SNP	G	TCGA-60-2721-01A-01D-1522-08	3126580	132425925	1425970	56	46877										
TUBA3C	7278	broad.mit.edu	37	chr13	19748035	19748035	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	accttcttcagcctcggcttCcacggaatccacgcccacct	6	19	2	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr13:19748035C>T	uc009zzj.2	-	5	1370	c.1321G>A	c.(1321-1323)GAA>AAA	p.E441K		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	441					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		GCCTCGGCTTCCACGGAATCC	0.587													106	98	---	---	---	---	PASS	T	19748035	T	T	19748035	3	4	130	1	0	0	0	0	1	0	0	0	16743	864	30	2	35	2	TUBA3C	13	19748035	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08		19748035	95421843	57	46878										
PLEKHG3	26030	broad.mit.edu	37	chr14	65197885	65197885	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	atgagcacgcggtccggctcCaggtgctctggggctgggac	17	12	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr14:65197885C>T	uc001xho.1	+	7	1116	c.847C>T	c.(847-849)CAG>TAG	p.Q283*	PLEKHG3_uc001xhn.1_Nonsense_Mutation_p.Q227*|PLEKHG3_uc001xhp.2_Nonsense_Mutation_p.Q283*|PLEKHG3_uc010aqh.1_5'UTR	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	283					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GGTCCGGCTCCAGGTGCTCTG	0.652													14	34	---	---	---	---	PASS	T	65197885	T	T	65197885	4	4	130	1	0	0	0	0	0	1	0	0	12070	595	21	3	693	3	PLEKHG3	14	65197885	Nonsense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08		65197885	42151655	58	46879										
PLEKHG3	26030	broad.mit.edu	37	chr14	65209878	65209878	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ccctccgcccggagccccctCagccccacagagaccttcag	8	22	2	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr14:65209878C>G	uc001xho.1	+	17	3386	c.3117C>G	c.(3115-3117)CTC>CTG	p.L1039L	PLEKHG3_uc001xhn.1_Silent_p.L983L|PLEKHG3_uc001xhp.2_Silent_p.L1160L|PLEKHG3_uc010aqh.1_Silent_p.L581L|PLEKHG3_uc001xhq.1_Silent_p.L544L	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	1039					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GGAGCCCCCTCAGCCCCACAG	0.612													44	138	---	---	---	---	PASS	G	65209878	G	G	65209878	2	3	130	1	0	0	0	0	0	0	0	1	12070	813	29	2		2	PLEKHG3	14	65209878	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08	11993	65209878	42139662	59	46880										
IREB2	3658	broad.mit.edu	37	chr15	78782999	78782999	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ctccaggctattgaaaatgcCcatgtcttattatatttggg	8	8	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr15:78782999C>G	uc002bdr.2	+	18	2382	c.2220C>G	c.(2218-2220)GCC>GCG	p.A740A	IREB2_uc010unb.1_Silent_p.A490A	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	740							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		TTGAAAATGCCCATGTCTTAT	0.378													97	328	---	---	---	---	PASS	G	78782999	G	G	78782999	2	3	130	1	0	0	0	0	0	0	0	1	7826	610	22	4		4	IREB2	15	78782999	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08		78782999	23748393	60	46881										
TEKT5	146279	broad.mit.edu	37	chr16	10770015	10770015	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tgttgtcgttactgaacttgGcccaggtctcaggtacggag	13	9	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr16:10770015G>C	uc002czz.1	-	5	959	c.887C>G	c.(886-888)GCC>GGC	p.A296G		NM_144674	NP_653275	Q96M29	TEKT5_HUMAN	tektin 5	296					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2						ACTGAACTTGGCCCAGGTCTC	0.433													18	55	---	---	---	---	PASS	C	10770015	C	C	10770015	3	2	130	1	0	0	0	0	1	0	0	0	15753	1203	42	4	582	4	TEKT5	16	10770015	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08		10770015	79584738	61	46882										
ACSM5	54988	broad.mit.edu	37	chr16	20430718	20430718	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	caagctgctggtgtcagacaGcagtcggccaggctggttga	15	10	1	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr16:20430718G>T	uc002dhe.2	+	4	731	c.584G>T	c.(583-585)AGC>ATC	p.S195I	ACSM5_uc002dhd.1_Missense_Mutation_p.S195I	NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	195					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2						GTGTCAGACAGCAGTCGGCCA	0.537													18	62	---	---	---	---	PASS	T	20430718	T	T	20430718	3	4	130	1	0	0	0	0	1	0	0	0	187	971	34	3	594	3	ACSM5	16	20430718	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	9660703	20430718	69924035	62	46883										
ACSM2A	123876	broad.mit.edu	37	chr16	20491959	20491959	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	gctccttggagaccggggaaTcaaagatgaagatgggtatt	14	6	1	4			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr16:20491959T>C	uc010bwe.2	+	12	1585	c.1346T>C	c.(1345-1347)ATC>ACC	p.I449T	ACSM2A_uc010vax.1_Missense_Mutation_p.I370T|ACSM2A_uc002dhf.3_Missense_Mutation_p.I449T|ACSM2A_uc002dhg.3_Missense_Mutation_p.I449T|ACSM2A_uc010vay.1_Missense_Mutation_p.I370T|ACSM2A_uc002dhh.3_Missense_Mutation_p.I79T	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	449					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						GACCGGGGAATCAAAGATGAA	0.502													31	96	---	---	---	---	PASS	C	20491959	C	C	20491959	3	2	130	1	0	0	0	0	1	0	0	0	183	1435	50	5	1384	5	ACSM2A	16	20491959	Missense_Mutation	SNP	T	TCGA-60-2721-01A-01D-1522-08	61241	20491959	69862794	63	46884										
EEF2K	29904	broad.mit.edu	37	chr16	22291592	22291592	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cggactgtgatgagggcggtGagtacgacggaatgcaggac	18	7	0	3			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr16:22291592G>T	uc002dki.2	+	17	2448	c.1963G>T	c.(1963-1965)GAG>TAG	p.E655*	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	655					insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		TGAGGGCGGTGAGTACGACGG	0.607													18	49	---	---	---	---	PASS	T	22291592	T	T	22291592	4	4	130	1	0	0	0	0	0	1	0	0	4930	1291	45	2	2025	2	EEF2K	16	22291592	Nonsense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	1799633	22291592	68063161	64	46885										
TNRC6A	27327	broad.mit.edu	37	chr16	24801959	24801959	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	aaagcagtgtgtgggccaaaAcaggaggtacagtggagagc	16	6	0	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr16:24801959A>G	uc002dmm.2	+	6	2110	c.1996A>G	c.(1996-1998)ACA>GCA	p.T666A	TNRC6A_uc010bxs.2_Missense_Mutation_p.T413A|TNRC6A_uc010vcc.1_Missense_Mutation_p.T413A|TNRC6A_uc002dmn.2_Missense_Mutation_p.T413A|TNRC6A_uc002dmo.2_Missense_Mutation_p.T413A	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	666	Sufficient for interaction with EIF2C2.|Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		GTGGGCCAAAACAGGAGGTAC	0.458													19	55	---	---	---	---	PASS	G	24801959	G	G	24801959	3	3	130	1	0	0	0	0	1	0	0	0	16337	43	2	5	2018	5	TNRC6A	16	24801959	Missense_Mutation	SNP	A	TCGA-60-2721-01A-01D-1522-08	2510367	24801959	65552794	65	46886										
NLRP1	22861	broad.mit.edu	37	chr17	5424256	5424256	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cagacacagtgtaacgacagCccatataaagtggggtcagc	11	10	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr17:5424256C>T	uc002gci.2	-	14	4415	c.3860G>A	c.(3859-3861)GGC>GAC	p.G1287D	NLRP1_uc002gcg.1_Missense_Mutation_p.G1291D|NLRP1_uc002gck.2_Intron|NLRP1_uc002gcj.2_Missense_Mutation_p.G1257D|NLRP1_uc002gcl.2_Intron|NLRP1_uc002gch.3_Intron	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1287					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				GTAACGACAGCCCATATAAAG	0.498													12	15	---	---	---	---	PASS	T	5424256	T	T	5424256	3	4	130	1	0	0	0	0	1	0	0	0	10471	739	26	3	640	3	NLRP1	17	5424256	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08		5424256	75770954	66	46887										
TP53	7157	broad.mit.edu	37	chr17	7578239	7578239	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	gtttctgtcatccaaatactCcacacgcaaatttccttcca	3	14	2	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr17:7578239C>A	uc002gim.2	-	6	804	c.610G>T	c.(610-612)GAG>TAG	p.E204*	TP53_uc002gig.1_Nonsense_Mutation_p.E204*|TP53_uc002gih.2_Nonsense_Mutation_p.E204*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.E72*|TP53_uc010cng.1_Nonsense_Mutation_p.E72*|TP53_uc002gii.1_Nonsense_Mutation_p.E72*|TP53_uc010cnh.1_Nonsense_Mutation_p.E204*|TP53_uc010cni.1_Nonsense_Mutation_p.E204*|TP53_uc002gij.2_Nonsense_Mutation_p.E204*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.E111*|TP53_uc002gio.2_Nonsense_Mutation_p.E72*|TP53_uc010vug.1_Nonsense_Mutation_p.E165*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	204	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> A (in sporadic cancers; somatic mutation).|VE -> LV (in a sporadic cancer; somatic mutation).|E -> V (in a sporadic cancer; somatic mutation).|E -> D (in sporadic cancers; somatic mutation).|E -> Q (in a sporadic cancer; somatic mutation).|E -> G (in sporadic cancers; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.E204*(23)|p.0?(7)|p.E204fs*5(3)|p.E204G(2)|p.E204E(2)|p.E204K(2)|p.E204fs*43(2)|p.K164_P219del(1)|p.E204Q(1)|p.E204D(1)|p.E204fs*4(1)|p.E204A(1)|p.V203_E204>V*(1)|p.E204V(1)|p.V203_E204>LV(1)|p.E204fs*39(1)|p.G199fs*42(1)|p.E204_N210delEYLDDRN(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)		TCCAAATACTCCACACGCAAA	0.542		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)			17	43	---	---	---	---	PASS	A	7578239	A	A	7578239	4	1	130	1	0	0	0	0	0	1	0	0	16378	864	30	2	684	2	TP53	17	7578239	Nonsense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	2153983	7578239	73616971	67	46888										
DHRS7C	201140	broad.mit.edu	37	chr17	9684839	9684839	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tgatcaaggcatcatataggTtctctagcctctcccagttc	7	12	4	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr17:9684839T>C	uc010vvb.1	-	2	227	c.227A>G	c.(226-228)AAC>AGC	p.N76S	DHRS7C_uc010cof.2_Missense_Mutation_p.N76S	NM_001105571	NP_001099041	A6NNS2	DRS7C_HUMAN	dehydrogenase/reductase (SDR family) member 7C	76						extracellular region	binding|oxidoreductase activity				0						ATCATATAGGTTCTCTAGCCT	0.562													13	27	---	---	---	---	PASS	C	9684839	C	C	9684839	3	2	130	1	0	0	0	0	1	0	0	0	4497	1725	60	5	728	5	DHRS7C	17	9684839	Missense_Mutation	SNP	T	TCGA-60-2721-01A-01D-1522-08	2106600	9684839	71510371	68	46889										
KRT23	25984	broad.mit.edu	37	chr17	39092695	39092695	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	aaccccaagaccctccagggGgtgggcagctccgcgtggtg	15	14	0	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr17:39092695G>A	uc002hvm.1	-	2	750	c.161C>T	c.(160-162)CCC>CTC	p.P54L	KRT23_uc010wfl.1_Intron|KRT23_uc010cxf.1_Intron|KRT23_uc010cxg.2_Missense_Mutation_p.P54L|KRT23_uc002hvn.1_Missense_Mutation_p.P54L	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	54	Head.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				CCCTCCAGGGGGTGGGCAGCT	0.682													44	74	---	---	---	---	PASS	A	39092695	A	A	39092695	3	1	130	1	0	0	0	0	1	0	0	0	8460	1232	43	3	1139	3	KRT23	17	39092695	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	29407856	39092695	42102515	69	46890										
SEC14L1	6397	broad.mit.edu	37	chr17	75190993	75190993	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ccgtggtgggcacccctgacGgtgggtctggcaggggcttc	18	12	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr17:75190993G>A	uc002jto.2	+	7	976	c.709G>A	c.(709-711)GAC>AAC	p.D237N	SEC14L1_uc010dhc.2_Missense_Mutation_p.D237N|SEC14L1_uc010wth.1_Missense_Mutation_p.D237N|SEC14L1_uc002jtm.2_Missense_Mutation_p.D237N|SEC14L1_uc010wti.1_Missense_Mutation_p.D203N	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	237					transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						CACCCCTGACGGTGGGTCTGG	0.632													34	113	---	---	---	---	PASS	A	75190993	A	A	75190993	3	1	130	1	0	0	0	0	1	0	0	0	13981	1130	39	1	727	1	SEC14L1	17	75190993	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	36098298	75190993	6004217	70	46891										
AFG3L2	10939	broad.mit.edu	37	chr18	12353077	12353077	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ccaaagttgcctcttcctctCttccttcccaccgcatcgat	4	18	2	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr18:12353077C>G	uc002kqz.1	-	10	1358	c.1245G>C	c.(1243-1245)AAG>AAC	p.K415N		NM_006796	NP_006787	Q9Y4W6	AFG32_HUMAN	AFG3 ATPase family gene 3-like 2	415					cell death|protein catabolic process|proteolysis	integral to membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0					Adenosine triphosphate(DB00171)	CTCTTCCTCTCTTCCTTCCCA	0.502													40	174	---	---	---	---	PASS	G	12353077	G	G	12353077	3	3	130	1	0	0	0	0	1	0	0	0	360	912	32	2	1180	2	AFG3L2	18	12353077	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08		12353077	65724171	71	46892										
B4GALT6	9331	broad.mit.edu	37	chr18	29246305	29246305	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tttctctcaacattatacctCgagcttgtaccataaagaga	5	10	2	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr18:29246305C>G	uc002kwz.3	-	2	443	c.146G>C	c.(145-147)CGA>CCA	p.R49P	B4GALT6_uc010dma.2_Intron|B4GALT6_uc010dmb.2_Missense_Mutation_p.R49P	NM_004775	NP_004766	Q9UBX8	B4GT6_HUMAN	beta-1,4-galactosyltransferase 6	49	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding				0			OV - Ovarian serous cystadenocarcinoma(10;0.00791)			CATTATACCTCGAGCTTGTAC	0.313													45	148	---	---	---	---	PASS	G	29246305	G	G	29246305	3	3	130	1	0	0	0	0	1	0	0	0	1275	884	31	2	1034	2	B4GALT6	18	29246305	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	16893228	29246305	48830943	72	46893										
DIRAS1	148252	broad.mit.edu	37	chr19	2717450	2717450	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ctcatcgcacttgttgcccaCgagcatcacggggatgtcct	10	14	2	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr19:2717450C>T	uc002lwf.3	-	2	513	c.355G>A	c.(355-357)GTG>ATG	p.V119M		NM_145173	NP_660156	O95057	DIRA1_HUMAN	DIRAS family, GTP-binding RAS-like 1	119					small GTPase mediated signal transduction	intracellular|plasma membrane	GTP binding|GTPase activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTGTTGCCCACGAGCATCACG	0.637													17	28	---	---	---	---	PASS	T	2717450	T	T	2717450	3	4	130	1	0	0	0	0	1	0	0	0	4530	536	19	1	245	1	DIRAS1	19	2717450	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08		2717450	56411533	73	46894										
CELF5	60680	broad.mit.edu	37	chr19	3293414	3293414	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	aggctcaaagtccagctgaaGcggcccaaagacccgggaca	12	13	1	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr19:3293414G>A	uc002lxm.2	+	12	1465	c.1428G>A	c.(1426-1428)AAG>AAA	p.K476K	CELF5_uc002lxl.1_3'UTR|CELF5_uc010dtj.1_3'UTR|CELF5_uc010xhg.1_3'UTR|CELF5_uc002lxn.2_RNA	NM_021938	NP_068757	Q8N6W0	CELF5_HUMAN	bruno-like 5, RNA binding protein	476	RRM 3.				mRNA processing	cytoplasm|nucleus	nucleotide binding|RNA binding			ovary(2)	2						TCCAGCTGAAGCGGCCCAAAG	0.677													13	30	---	---	---	---	PASS	A	3293414	A	A	3293414	2	1	130	1	0	0	0	0	0	0	0	1	3219	962	34	3		3	CELF5	19	3293414	Silent	SNP	G	TCGA-60-2721-01A-01D-1522-08	575964	3293414	55835569	74	46895										
FUT5	2527	broad.mit.edu	37	chr19	5867442	5867442	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	gttgcagtcggccgcgccggGcaccatctctgagcagcggg	16	14	1	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr19:5867442G>C	uc002mdo.3	-	2	383	c.295C>G	c.(295-297)CCC>GCC	p.P99A	FUT5_uc010duo.2_Missense_Mutation_p.P99A	NM_002034	NP_002025	Q11128	FUT5_HUMAN	fucosyltransferase 5	99	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity|alpha(1,3)-fucosyltransferase activity				0						GCCGCGCCGGGCACCATCTCT	0.632													17	53	---	---	---	---	PASS	C	5867442	C	C	5867442	3	2	130	1	0	0	0	0	1	0	0	0	6107	1203	42	4	833	4	FUT5	19	5867442	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	2574028	5867442	53261541	75	46896										
KHSRP	8570	broad.mit.edu	37	chr19	6420434	6420434	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	caaggtgacccacactcactCaggcccaccatgccgtctgg	9	17	3	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr19:6420434C>A	uc002mer.3	-	5	584	c.474G>T	c.(472-474)CTG>CTT	p.L158L		NM_003685	NP_003676	Q92945	FUBP2_HUMAN	KH-type splicing regulatory protein	158	Gly-rich.|KH 1.				mRNA processing|mRNA transport|regulation of transcription, DNA-dependent|RNA splicing, via transesterification reactions|transcription, DNA-dependent	cytosol|nucleus	DNA binding|protein binding|RNA binding			skin(1)	1						CACACTCACTCAGGCCCACCA	0.597													10	26	---	---	---	---	PASS	A	6420434	A	A	6420434	2	1	130	1	0	0	0	0	0	0	0	1	8151	840	29	2		2	KHSRP	19	6420434	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08	552992	6420434	52708549	76	46897										
ZNF562	54811	broad.mit.edu	37	chr19	9764312	9764312	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	ttgtagggttgtcttccattGagaatttcaagatgcacagc	10	7	2	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr19:9764312G>C	uc010xks.1	-	6	757	c.594C>G	c.(592-594)CTC>CTG	p.L198L	ZNF562_uc002mly.2_Silent_p.L198L|ZNF562_uc002mlx.2_Silent_p.L126L|ZNF562_uc010xkt.1_Silent_p.L161L|ZNF562_uc010xku.1_Silent_p.L129L|ZNF562_uc010xkv.1_Silent_p.L197L|ZNF562_uc010xkw.1_Silent_p.L82L	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	198	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTCTTCCATTGAGAATTTCAA	0.398													30	116	---	---	---	---	PASS	C	9764312	C	C	9764312	2	2	130	1	0	0	0	0	0	0	0	1	17990	1277	45	2		2	ZNF562	19	9764312	Silent	SNP	G	TCGA-60-2721-01A-01D-1522-08	3343878	9764312	49364671	77	46898										
KCNN1	3780	broad.mit.edu	37	chr19	18085079	18085079	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tggtgacggagaccgagctgTcctggggggtgtacaccaag	17	9	0	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr19:18085079T>C	uc002nht.2	+	3	692	c.382T>C	c.(382-384)TCC>CCC	p.S128P	KCNN1_uc010xqa.1_Missense_Mutation_p.S128P	NM_002248	NP_002239	Q92952	KCNN1_HUMAN	potassium intermediate/small conductance	128	Helical; Name=Segment S1; (Potential).				synaptic transmission	voltage-gated potassium channel complex	calmodulin binding|small conductance calcium-activated potassium channel activity				0						GACCGAGCTGTCCTGGGGGGT	0.632													16	45	---	---	---	---	PASS	C	18085079	C	C	18085079	3	2	130	1	0	0	0	0	1	0	0	0	8078	1667	58	5	384	5	KCNN1	19	18085079	Missense_Mutation	SNP	T	TCGA-60-2721-01A-01D-1522-08	8320767	18085079	41043904	78	46899										
TM6SF2	53345	broad.mit.edu	37	chr19	19375667	19375667	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	caggtgcatggaagcccccaTgtgcgagaactgtgcctggt	14	11	0	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr19:19375667T>C	uc002nmd.1	-	10	990	c.940A>G	c.(940-942)ATG>GTG	p.M314V	HAPLN4_uc002nmb.2_5'Flank|HAPLN4_uc002nmc.2_Intron	NM_001001524	NP_001001524	Q9BZW4	TM6S2_HUMAN	transmembrane 6 superfamily member 2	314						integral to membrane					0			Epithelial(12;0.0151)			GAAGCCCCCATGTGCGAGAAC	0.607													17	48	---	---	---	---	PASS	C	19375667	C	C	19375667	3	2	130	1	0	0	0	0	1	0	0	0	15970	1464	51	5	197	5	TM6SF2	19	19375667	Missense_Mutation	SNP	T	TCGA-60-2721-01A-01D-1522-08	1290588	19375667	39753316	79	46900										
APOC2	344	broad.mit.edu	37	chr19	45452030	45452030	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cctcacccaggtgaaggaatCtctctccagttactgggagt	10	12	3	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr19:45452030C>G	uc002pah.2	+	3	231	c.128C>G	c.(127-129)TCT>TGT	p.S43C		NM_000483	NP_000474	P02655	APOC2_HUMAN	apolipoprotein C-II precursor	43	Lipid binding.				cholesterol efflux|chylomicron remnant clearance|high-density lipoprotein particle clearance|lipid catabolic process|lipoprotein metabolic process|negative regulation of cholesterol transport|negative regulation of lipid metabolic process|negative regulation of receptor-mediated endocytosis|negative regulation of very-low-density lipoprotein particle clearance|phospholipid efflux|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of phospholipase activity|positive regulation of phospholipid catabolic process|positive regulation of triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	chylomicron|intermediate-density lipoprotein particle|low-density lipoprotein particle|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	lipase inhibitor activity|lipid binding|lipoprotein lipase activator activity|phospholipase activator activity|phospholipase binding|protein homodimerization activity			kidney(1)	1	Lung NSC(12;0.00858)|all_lung(12;0.0197)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00327)|Epithelial(262;0.174)		GTGAAGGAATCTCTCTCCAGT	0.582													41	119	---	---	---	---	PASS	G	45452030	G	G	45452030	3	3	130	1	0	0	0	0	1	0	0	0	798	913	32	2	134	2	APOC2	19	45452030	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	26076363	45452030	13676953	80	46901										
PPP1R15A	23645	broad.mit.edu	37	chr19	49376765	49376765	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cagtggaggccctggagaggAcagagaaacactggggctga	17	8	0	3			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr19:49376765A>G	uc002pky.3	+	2	544	c.275A>G	c.(274-276)GAC>GGC	p.D92G		NM_014330	NP_055145	O75807	PR15A_HUMAN	protein phosphatase 1, regulatory subunit 15A	92	Required for localization in the endoplasmic reticulum.				apoptosis|cell cycle arrest|regulation of translation|response to DNA damage stimulus	endoplasmic reticulum	protein binding			lung(1)	1		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000244)|all cancers(93;0.000694)|GBM - Glioblastoma multiforme(486;0.0222)|Epithelial(262;0.033)		CCTGGAGAGGACAGAGAAACA	0.577													26	93	---	---	---	---	PASS	G	49376765	G	G	49376765	3	3	130	1	0	0	0	0	1	0	0	0	12363	275	10	5	277	5	PPP1R15A	19	49376765	Missense_Mutation	SNP	A	TCGA-60-2721-01A-01D-1522-08	3924735	49376765	9752218	81	46902										
ZNF582	147948	broad.mit.edu	37	chr19	56896044	56896044	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cggtttctcaccagtatgaaCtctctgatgttgtataaaat	7	8	2	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr19:56896044C>G	uc002qmz.1	-	5	901	c.742G>C	c.(742-744)GTT>CTT	p.V248L	ZNF582_uc002qmy.2_Missense_Mutation_p.V279L	NM_144690	NP_653291	Q96NG8	ZN582_HUMAN	zinc finger protein 582	248	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|large_intestine(1)	4		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0547)		CCAGTATGAACTCTCTGATGT	0.378													22	94	---	---	---	---	PASS	G	56896044	G	G	56896044	3	3	130	1	0	0	0	0	1	0	0	0	18011	565	20	4	815	4	ZNF582	19	56896044	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	7519279	56896044	2232939	82	46903										
PEG3	5178	broad.mit.edu	37	chr19	57326518	57326518	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	gtcatcagggtcatccttctGagggtcttccatgtctgagc	11	11	6	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr19:57326518G>T	uc002qnu.2	-	7	3643	c.3292C>A	c.(3292-3294)CAG>AAG	p.Q1098K	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.Q1069K|PEG3_uc002qnv.2_Missense_Mutation_p.Q1098K|PEG3_uc002qnw.2_Missense_Mutation_p.Q974K|PEG3_uc002qnx.2_Missense_Mutation_p.Q972K|PEG3_uc010etr.2_Missense_Mutation_p.Q1098K	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1098					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TCATCCTTCTGAGGGTCTTCC	0.517													64	191	---	---	---	---	PASS	T	57326518	T	T	57326518	3	4	130	1	0	0	0	0	1	0	0	0	11720	1299	45	2	1478	2	PEG3	19	57326518	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	430474	57326518	1802465	83	46904										
USP29	57663	broad.mit.edu	37	chr19	57640619	57640619	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	gaagataaccctgtaccaaaCaagaaatataagacagattc	6	8	0	4			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr19:57640619C>G	uc002qny.2	+	4	932	c.576C>G	c.(574-576)AAC>AAG	p.N192K		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	192					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CTGTACCAAACAAGAAATATA	0.368													57	135	---	---	---	---	PASS	G	57640619	G	G	57640619	3	3	130	1	0	0	0	0	1	0	0	0	17056	477	17	4	578	4	USP29	19	57640619	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	314101	57640619	1488364	84	46905										
PAK7	57144	broad.mit.edu	37	chr20	9523233	9523233	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	caacagctgctgtttctcacCttgtgtaggtccttcactct	7	13	3	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr20:9523233C>T	uc002wnl.2	-	10	2549	c.2004G>A	c.(2002-2004)AAG>AAA	p.K668K	PAK7_uc002wnk.2_Silent_p.K668K|PAK7_uc002wnj.2_Silent_p.K668K|PAK7_uc010gby.1_Intron	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	668	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			TGTTTCTCACCTTGTGTAGGT	0.483													71	237	---	---	---	---	PASS	T	9523233	T	T	9523233	2	4	130	1	0	0	0	0	0	0	0	1	11405	695	24	3		3	PAK7	20	9523233	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08		9523233	53502287	85	46906										
C20orf94	128710	broad.mit.edu	37	chr20	10603339	10603339	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tgaaacaaaaagcagtgtcaCgagcaaatcgcagaccagaa	9	9	1	3			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr20:10603339C>G	uc010zre.1	+	8	719	c.539C>G	c.(538-540)ACG>AGG	p.T180R		NM_001009608	NP_001009608	Q5VYV7	CT094_HUMAN	hypothetical protein LOC128710	180							protein binding				0						AGCAGTGTCACGAGCAAATCG	0.433													20	78	---	---	---	---	PASS	G	10603339	G	G	10603339	3	3	130	1	0	0	0	0	1	0	0	0	2121	536	19	4	565	4	C20orf94	20	10603339	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	1080106	10603339	52422181	86	46907										
C20orf186	149954	broad.mit.edu	37	chr20	31671218	31671218	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cttccatgtccgaggaccccCcccagtatataccaacggca	7	17	0	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr20:31671218C>T	uc010zue.1	+	3	230	c.215C>T	c.(214-216)CCC>CTC	p.P72L		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	72						cytoplasm|extracellular region	lipid binding				0						CGAGGACCCCCCCCAGTATAT	0.488													59	120	---	---	---	---	PASS	T	31671218	T	T	31671218	3	4	130	1	0	0	0	0	1	0	0	0	2098	623	22	3	225	3	C20orf186	20	31671218	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	21067879	31671218	31354302	87	46908										
STAU1	6780	broad.mit.edu	37	chr20	47770589	47770589	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	atgcacagtgcatttagttcTacagtaggggttatgctttc	10	7	1	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chr20:47770589T>C	uc002xud.2	-	4	636	c.225A>G	c.(223-225)GTA>GTG	p.V75V	STAU1_uc002xua.2_5'UTR|STAU1_uc002xub.2_5'UTR|STAU1_uc002xuc.2_5'UTR|STAU1_uc002xue.2_5'UTR|STAU1_uc002xuf.2_5'UTR|STAU1_uc002xug.2_Silent_p.V75V	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	75	DRBM 1.					microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			CATTTAGTTCTACAGTAGGGG	0.368													64	191	---	---	---	---	PASS	C	47770589	C	C	47770589	2	2	130	1	0	0	0	0	0	0	0	1	15271	1509	53	5		5	STAU1	20	47770589	Silent	SNP	T	TCGA-60-2721-01A-01D-1522-08	16099371	47770589	15254931	88	46909										
NYX	60506	broad.mit.edu	37	chrX	41333813	41333813	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	gcctccccgggctccgtggcCggcctggacctcagccaggt	14	18	1	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chrX:41333813C>T	uc004dfh.2	+	2	1537	c.1107C>T	c.(1105-1107)GCC>GCT	p.A369A	NYX_uc011mku.1_Silent_p.A364A	NM_022567	NP_072089	Q9GZU5	NYX_HUMAN	nyctalopin precursor	369	LRRCT.				response to stimulus|visual perception	intracellular|proteinaceous extracellular matrix				lung(2)	2						GCTCCGTGGCCGGCCTGGACC	0.706													4	2	---	---	---	---	PASS	T	41333813	T	T	41333813	2	4	130	1	0	0	0	0	0	0	0	1	10797	639	23	1		1	NYX	23	41333813	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08		41333813	113936747	89	46910										
MAGIX	79917	broad.mit.edu	37	chrX	49021258	49021258	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tgatccagggtaaggcacatAgtgctccgaagccatcccag	11	12	0	1			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chrX:49021258A>T	uc010nin.1	+	4	384	c.337A>T	c.(337-339)AGT>TGT	p.S113C	MAGIX_uc010nio.1_Intron|MAGIX_uc004dmt.2_Intron|MAGIX_uc004dmu.2_Missense_Mutation_p.S54C|MAGIX_uc004dmw.2_Missense_Mutation_p.S46C	NM_024859	NP_079135	Q9H6Y5	MAGIX_HUMAN	MAGI family member, X-linked isoform a	113											0						TAAGGCACATAGTGCTCCGAA	0.557													89	70	---	---	---	---	PASS	T	49021258	T	T	49021258	3	4	130	1	0	0	0	0	1	0	0	0	9193	420	15	5	391	5	MAGIX	23	49021258	Missense_Mutation	SNP	A	TCGA-60-2721-01A-01D-1522-08	7687445	49021258	106249302	90	46911										
AR	367	broad.mit.edu	37	chrX	66931320	66931320	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	agcaccaccagccccactgaGgagacaacccagaagctgac	9	16	0	4			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chrX:66931320G>A	uc004dwu.1	+	4	3077	c.1962G>A	c.(1960-1962)GAG>GAA	p.E654E	AR_uc004dwv.1_Silent_p.E122E	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	653	Interaction with HIPK3 (By similarity).|Interaction with MYST2.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	GCCCCACTGAGGAGACAACCC	0.507									Androgen_Insensitivity_Syndrome				8	10	---	---	---	---	PASS	A	66931320	A	A	66931320	2	1	130	1	0	0	0	0	0	0	0	1	836	991	35	3		3	AR	23	66931320	Silent	SNP	G	TCGA-60-2721-01A-01D-1522-08	17910062	66931320	88339240	91	46912										
PABPC5	140886	broad.mit.edu	37	chrX	90690734	90690734	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	cacccgaatctgccgtgatcCggtgacccgcagccccctgg	11	18	1	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chrX:90690734C>A	uc004efg.2	+	2	598	c.158C>A	c.(157-159)CCG>CAG	p.P53Q	PABPC5_uc004eff.1_Intron	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	53	RRM 1.					cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						TGCCGTGATCCGGTGACCCGC	0.542													15	17	---	---	---	---	PASS	A	90690734	A	A	90690734	3	1	130	1	0	0	0	0	1	0	0	0	11367	652	23	1	160	1	PABPC5	23	90690734	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	23759414	90690734	64579826	92	46913										
GRIA3	2892	broad.mit.edu	37	chrX	122613996	122613996	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	acaaatggtggtacgataagGgggaatgtggagccaaggac	16	5	0	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chrX:122613996G>C	uc004etq.3	+	15	2700	c.2407G>C	c.(2407-2409)GGG>CGG	p.G803R	GRIA3_uc004etr.3_Intron|GRIA3_uc004ets.3_RNA	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	803	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	GTACGATAAGGGGGAATGTGG	0.438													34	33	---	---	---	---	PASS	C	122613996	C	C	122613996	3	2	130	1	0	0	0	0	1	0	0	0	6769	1232	43	4	2580	4	GRIA3	23	122613996	Missense_Mutation	SNP	G	TCGA-60-2721-01A-01D-1522-08	31923262	122613996	32656564	93	46914										
ODZ1	10178	broad.mit.edu	37	chrX	123514551	123514551	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	tctgtccatgccctaatcccCtcttccccctcttgcagcct	4	20	3	0			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chrX:123514551C>A	uc004euj.2	-	31	8077	c.8013G>T	c.(8011-8013)GAG>GAT	p.E2671D	ODZ1_uc011muj.1_Missense_Mutation_p.E2677D|ODZ1_uc010nqy.2_Missense_Mutation_p.E2678D	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2671	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CCCTAATCCCCTCTTCCCCCT	0.517													129	113	---	---	---	---	PASS	A	123514551	A	A	123514551	3	1	130	1	0	0	0	0	1	0	0	0	10834	680	24	3	168	3	ODZ1	23	123514551	Missense_Mutation	SNP	C	TCGA-60-2721-01A-01D-1522-08	900555	123514551	31756009	94	46915										
ZDHHC9	51114	broad.mit.edu	37	chrX	128946745	128946745	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.210526315789474	20	0.000500850618669244	2.35112692763938	2.82135231316726	2.01525165226233	1	1	11	aggaaagtatgaaatccagtCagtcccacgacggaccagag	11	10	1	2			TCGA-60-2721-01A-01D-1522-08	TCGA-60-2721-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8defff62-9395-47cb-bb19-4b8487d9ea8e	30c3332d-63d9-4c8c-ac66-424e9008f789	g.chrX:128946745C>A	uc004euv.2	-	7	1095	c.726G>T	c.(724-726)CTG>CTT	p.L242L	ZDHHC9_uc004euw.2_Silent_p.L242L	NM_001008222	NP_001008223	Q9Y397	ZDHC9_HUMAN	zinc finger, DHHC domain containing 9	242	Helical; (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1						GAAATCCAGTCAGTCCCACGA	0.453													64	62	---	---	---	---	PASS	A	128946745	A	A	128946745	2	1	130	1	0	0	0	0	0	0	0	1	17619	813	29	2		2	ZDHHC9	23	128946745	Silent	SNP	C	TCGA-60-2721-01A-01D-1522-08	5432194	128946745	26323815	95	46916										
ATAD3A	55210	broad.mit.edu	37	chr1	1459303	1459303	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gcctgtacaggaacatcctgAtgtacgggccaccaggcacc	11	14	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:1459303A>T	uc001afz.1	+	10	1286	c.1192A>T	c.(1192-1194)ATG>TTG	p.M398L	ATAD3A_uc001aga.1_Missense_Mutation_p.M350L|ATAD3A_uc001agb.1_Missense_Mutation_p.M271L	NM_018188	NP_060658	Q9NVI7	ATD3A_HUMAN	ATPase family, AAA domain containing 3A	398							ATP binding|nucleoside-triphosphatase activity|protein binding			skin(1)	1	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.12e-36)|OV - Ovarian serous cystadenocarcinoma(86;2.18e-22)|Colorectal(212;0.000164)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00233)|BRCA - Breast invasive adenocarcinoma(365;0.00469)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0347)|Lung(427;0.147)		GAACATCCTGATGTACGGGCC	0.642													56	55	---	---	---	---	PASS	T	1459303	T	T	1459303	3	4	131	1	0	0	0	0	1	0	0	0	1073	333	12	5	1230	5	ATAD3A	1	1459303	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08		1459303	247791318	1	46917										
LOC649330	649330	broad.mit.edu	37	chr1	12907697	12907697	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cccttcgtgaggtgtttcctGatagacgttgacgtttcgag	12	9	0	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:12907697G>C	uc009vno.2	-	1	541	c.446C>G	c.(445-447)TCA>TGA	p.S149*	HNRNPCL1_uc010obf.1_Nonsense_Mutation_p.S149*	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	149							nucleic acid binding|nucleotide binding				0						GGTGTTTCCTGATAGACGTTG	0.498													55	156	---	---	---	---	PASS	C	12907697	C	C	12907697	4	2	131	1	0	0	0	0	0	1	0	0	8885	1294	45	2	439	2	LOC649330	1	12907697	Nonsense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	11448394	12907697	236342924	2	46918										
C1QA	712	broad.mit.edu	37	chr1	22965844	22965844	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccaaaaagggtcacatttacCagggctctgaggccgacagc	11	12	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:22965844C>T	uc001bfy.2	+	3	767	c.682C>T	c.(682-684)CAG>TAG	p.Q228*	C1QA_uc001bfz.2_Nonsense_Mutation_p.Q228*	NM_015991	NP_057075	P02745	C1QA_HUMAN	complement component 1, q subcomponent, A chain	228	C1q.				cell-cell signaling|complement activation, classical pathway|innate immune response	collagen|complement component C1 complex					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.41e-27)|Colorectal(126;1.52e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.63e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000541)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TCACATTTACCAGGGCTCTGA	0.602													26	57	---	---	---	---	PASS	T	22965844	T	T	22965844	4	4	131	1	0	0	0	0	0	1	0	0	1954	595	21	3	688	3	C1QA	1	22965844	Nonsense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	10058147	22965844	226284777	3	46919										
CSMD2	114784	broad.mit.edu	37	chr1	34042934	34042934	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cttcgctccacaggtggtagCcctgggggtgccgggtacag	16	12	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:34042934C>T	uc001bxn.1	-	50	7573	c.7544G>A	c.(7543-7545)GGC>GAC	p.G2515D	CSMD2_uc001bxm.1_Missense_Mutation_p.G2513D	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2515	Sushi 14.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CAGGTGGTAGCCCTGGGGGTG	0.617													31	94	---	---	---	---	PASS	T	34042934	T	T	34042934	3	4	131	1	0	0	0	0	1	0	0	0	3945	739	26	3	2999	3	CSMD2	1	34042934	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	11077090	34042934	215207687	4	46920										
DLGAP3	58512	broad.mit.edu	37	chr1	35350614	35350614	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	acctgcacgccaatagagtgGaactccctccggctcctgtt	9	15	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:35350614G>A	uc001byc.2	-	6	1965	c.1965C>T	c.(1963-1965)TTC>TTT	p.F655F		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	655					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				CAATAGAGTGGAACTCCCTCC	0.597													37	35	---	---	---	---	PASS	A	35350614	A	A	35350614	2	1	131	1	0	0	0	0	0	0	0	1	4561	1165	41	2		2	DLGAP3	1	35350614	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	1307680	35350614	213900007	5	46921										
TRIT1	54802	broad.mit.edu	37	chr1	40319707	40319707	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	attggttcctcccacaacaaTaggaattttgtctcgggcaa	8	10	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:40319707T>C	uc010oiz.1	-	3	363	c.349A>G	c.(349-351)ATT>GTT	p.I117V	TRIT1_uc001cec.3_RNA|TRIT1_uc001ced.3_5'UTR|TRIT1_uc001cee.3_RNA|TRIT1_uc001cef.3_RNA|TRIT1_uc001ceg.3_5'UTR|TRIT1_uc001ceh.3_5'UTR|TRIT1_uc009vvv.2_5'UTR|TRIT1_uc001cei.3_5'UTR|TRIT1_uc001ceq.2_Intron|TRIT1_uc001cek.2_Intron|TRIT1_uc009vvx.2_Intron|TRIT1_uc001cel.2_Intron|TRIT1_uc001cem.2_Intron|TRIT1_uc001cen.2_Intron|TRIT1_uc001ceo.2_Intron|TRIT1_uc001cep.2_Intron|TRIT1_uc010oja.1_RNA	NM_017646	NP_060116	Q9H3H1	MOD5_HUMAN	tRNA isopentenyltransferase 1 precursor	117					tRNA processing	mitochondrion	ATP binding|metal ion binding|tRNA dimethylallyltransferase activity			ovary(1)	1	all_cancers(7;4.55e-14)|all_lung(5;1.23e-16)|all_epithelial(6;2.17e-16)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;3.29e-18)|Epithelial(16;3.07e-17)|all cancers(16;6.21e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CCCACAACAATAGGAATTTTG	0.373													67	35	---	---	---	---	PASS	C	40319707	C	C	40319707	3	2	131	1	0	0	0	0	1	0	0	0	16557	1406	49	5	1090	5	TRIT1	1	40319707	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	4969093	40319707	208930914	6	46922										
ZSWIM5	57643	broad.mit.edu	37	chr1	45501723	45501723	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctacttaccttccagcagtaAgatgcattgtttttgcagtg	8	9	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:45501723A>G	uc001cnd.2	-	9	2371	c.2143T>C	c.(2143-2145)TTA>CTA	p.L715L		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	715							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TCCAGCAGTAAGATGCATTGT	0.488													60	46	---	---	---	---	PASS	G	45501723	G	G	45501723	2	3	131	1	0	0	0	0	0	0	0	1	18241	69	3	5		5	ZSWIM5	1	45501723	Silent	SNP	A	TCGA-60-2722-01A-01D-1522-08	5182016	45501723	203748898	7	46923										
ROR1	4919	broad.mit.edu	37	chr1	64643964	64643964	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agatattcacgtccggcttcGgtcctgggagggactctcaa	12	11	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:64643964G>A	uc001dbj.2	+	9	2639	c.2240G>A	c.(2239-2241)CGG>CAG	p.R747Q	uc001dbm.2_5'Flank	NM_005012	NP_005003	Q01973	ROR1_HUMAN	receptor tyrosine kinase-like orphan receptor 1	747	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19						GTCCGGCTTCGGTCCTGGGAG	0.512													19	70	---	---	---	---	PASS	A	64643964	A	A	64643964	3	1	131	1	0	0	0	0	1	0	0	0	13526	1116	39	1	2282	1	ROR1	1	64643964	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	19142241	64643964	184606657	8	46924										
LRRC7	57554	broad.mit.edu	37	chr1	70397238	70397238	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agacttgacctaggcaataaTgaattcggtgagctggtaag	12	6	0	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:70397238T>C	uc001dep.2	+	6	612	c.582T>C	c.(580-582)AAT>AAC	p.N194N	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	194	LRR 8.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TAGGCAATAATGAATTCGGTG	0.388													12	47	---	---	---	---	PASS	C	70397238	C	C	70397238	2	2	131	1	0	0	0	0	0	0	0	1	9020	1461	51	5		5	LRRC7	1	70397238	Silent	SNP	T	TCGA-60-2722-01A-01D-1522-08	5753274	70397238	178853383	9	46925										
ELTD1	64123	broad.mit.edu	37	chr1	79404932	79404932	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	attatctaaatggcagtttgCattcacattttctgtaaaaa	5	6	3	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:79404932C>A	uc001diq.3	-	4	493	c.337G>T	c.(337-339)GCA>TCA	p.A113S		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	113	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)		TGGCAGTTTGCATTCACATTT	0.249													15	31	---	---	---	---	PASS	A	79404932	A	A	79404932	3	1	131	1	0	0	0	0	1	0	0	0	5084	710	25	3	1783	3	ELTD1	1	79404932	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	9007694	79404932	169845689	10	46926										
COL24A1	255631	broad.mit.edu	37	chr1	86306958	86306958	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgtgctatcttctcctgggtAgccctaaaatgaaataatga	8	8	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:86306958A>T	uc001dlj.2	-	42	3616	c.3574T>A	c.(3574-3576)TAC>AAC	p.Y1192N	COL24A1_uc001dli.2_Missense_Mutation_p.Y328N|COL24A1_uc010osd.1_Missense_Mutation_p.Y492N|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	1192	Collagen-like 12.				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)		TCTCCTGGGTAGCCCTAAAAT	0.328													27	23	---	---	---	---	PASS	T	86306958	T	T	86306958	3	4	131	1	0	0	0	0	1	0	0	0	3683	420	15	5	1646	5	COL24A1	1	86306958	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	6902026	86306958	162943663	11	46927										
DPYD	1806	broad.mit.edu	37	chr1	98157303	98157303	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aggtccttcattagctcaatCtcaaaattcactacatcata	3	11	5	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:98157303C>A	uc001drv.2	-	7	869	c.732G>T	c.(730-732)GAG>GAT	p.E244D	DPYD_uc010oub.1_RNA	NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	244					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	TTAGCTCAATCTCAAAATTCA	0.368													43	48	---	---	---	---	PASS	A	98157303	A	A	98157303	3	1	131	1	0	0	0	0	1	0	0	0	4745	912	32	2	2413	2	DPYD	1	98157303	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	11850345	98157303	151093318	12	46928										
COL11A1	1301	broad.mit.edu	37	chr1	103380351	103380351	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cagcttcccctttctctcctCtttctcctttgggaccctaa	4	17	3	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:103380351C>G	uc001dul.2	-	51	4151	c.3833G>C	c.(3832-3834)AGA>ACA	p.R1278T	COL11A1_uc001duk.2_Missense_Mutation_p.R474T|COL11A1_uc001dum.2_Missense_Mutation_p.R1290T|COL11A1_uc001dun.2_Missense_Mutation_p.R1239T|COL11A1_uc009weh.2_Missense_Mutation_p.R1162T	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1278	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TTTCTCTCCTCTTTCTCCTTT	0.428													5	17	---	---	---	---	PASS	G	103380351	G	G	103380351	3	3	131	1	0	0	0	0	1	0	0	0	3667	913	32	2	1655	2	COL11A1	1	103380351	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	5223048	103380351	145870270	13	46929										
PHTF1	10745	broad.mit.edu	37	chr1	114269168	114269168	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcacttatgttcacaataggCatcatcaaatataagacaat	4	8	4	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:114269168C>A	uc009wgp.1	-	5	812	c.360G>T	c.(358-360)ATG>ATT	p.M120I	PHTF1_uc001edn.2_Missense_Mutation_p.M120I|PHTF1_uc010own.1_Missense_Mutation_p.M120I|PHTF1_uc001edp.2_Missense_Mutation_p.M120I	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	120						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCACAATAGGCATCATCAAAT	0.328													46	38	---	---	---	---	PASS	A	114269168	A	A	114269168	3	1	131	1	0	0	0	0	1	0	0	0	11862	710	25	3	1984	3	PHTF1	1	114269168	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	10888817	114269168	134981453	14	46930										
SEC22B	9554	broad.mit.edu	37	chr1	145112467	145112467	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gaattgcaagatgtgcagagGatcatggtggccaatatcga	13	6	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:145112467G>C	uc001eml.1	+	6	581	c.441G>C	c.(439-441)AGG>AGC	p.R147S	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron	NM_004892	NP_004883	O75396	SC22B_HUMAN	SEC22 vesicle trafficking protein homolog B	147	v-SNARE coiled-coil homology.|Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|melanosome	protein binding				0						ATGTGCAGAGGATCATGGTGG	0.408													14	273	---	---	---	---	PASS	C	145112467	C	C	145112467	3	2	131	1	0	0	0	0	1	0	0	0	13989	1165	41	2	455	2	SEC22B	1	145112467	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	30843299	145112467	104138154	15	46931										
NOTCH2NL	388677	broad.mit.edu	37	chr1	145273192	145273192	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cttttccatacagatgtccaGaaggcttcttgggggaatat	10	8	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:145273192G>T	uc001emn.3	+	3	416	c.46G>T	c.(46-48)GAA>TAA	p.E16*	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_5'UTR|NOTCH2NL_uc001emm.3_Nonsense_Mutation_p.E16*|NOTCH2NL_uc001emo.2_Nonsense_Mutation_p.E16*|NOTCH2NL_uc010oyh.1_RNA	NM_203458	NP_982283	Q7Z3S9	NT2NL_HUMAN	Notch homolog 2 N-terminal like protein	16	EGF-like 1.				cell differentiation|multicellular organismal development|Notch signaling pathway	cytoplasm|extracellular region	calcium ion binding			ovary(1)	1						CAGATGTCCAGAAGGCTTCTT	0.463													11	299	---	---	---	---	PASS	T	145273192	T	T	145273192	4	4	131	1	0	0	0	0	0	1	0	0	10549	943	33	2	52	2	NOTCH2NL	1	145273192	Nonsense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	160725	145273192	103977429	16	46932										
ADAR	103	broad.mit.edu	37	chr1	154574628	154574628	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tttcttcggagtcccaagttTcccagacagatcatgtgctg	9	11	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:154574628T>A	uc001ffh.2	-	2	690	c.490A>T	c.(490-492)AAA>TAA	p.K164*	ADAR_uc001ffj.2_Nonsense_Mutation_p.K164*|ADAR_uc001ffi.2_Nonsense_Mutation_p.K164*|ADAR_uc001ffk.2_5'UTR|ADAR_uc001ffl.1_5'UTR	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	164	DRADA 1.				adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		GTCCCAAGTTTCCCAGACAGA	0.473													331	418	---	---	---	---	PASS	A	154574628	A	A	154574628	4	1	131	1	0	0	0	0	0	1	0	0	281	1792	62	5	3246	5	ADAR	1	154574628	Nonsense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	9301436	154574628	94675993	17	46933										
ADAR	103	broad.mit.edu	37	chr1	154574810	154574810	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gctggaaccctctctggagcCcctgacttctgagatgcacg	11	14	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:154574810C>T	uc001ffh.2	-	2	508	c.308G>A	c.(307-309)GGG>GAG	p.G103E	ADAR_uc001ffj.2_Missense_Mutation_p.G103E|ADAR_uc001ffi.2_Missense_Mutation_p.G103E|ADAR_uc001ffk.2_5'UTR|ADAR_uc001ffl.1_5'UTR|ADAR_uc001ffm.1_Intron|ADAR_uc001ffn.1_Intron	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	103					adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		TCTCTGGAGCCCCTGACTTCT	0.567													107	144	---	---	---	---	PASS	T	154574810	T	T	154574810	3	4	131	1	0	0	0	0	1	0	0	0	281	623	22	3	3428	3	ADAR	1	154574810	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	182	154574810	94675811	18	46934										
FCRL1	115350	broad.mit.edu	37	chr1	157772251	157772251	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	atattgctcagcatcactctCcctcactgaaggaatctcat	5	13	5	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:157772251C>A	uc001frg.2	-	4	636	c.523G>T	c.(523-525)GAG>TAG	p.E175*	FCRL1_uc001frf.2_5'Flank|FCRL1_uc001frh.2_Nonsense_Mutation_p.E175*|FCRL1_uc001fri.2_Nonsense_Mutation_p.E175*|FCRL1_uc001frj.2_Intron	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	175	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GCATCACTCTCCCTCACTGAA	0.488													198	198	---	---	---	---	PASS	A	157772251	A	A	157772251	4	1	131	1	0	0	0	0	0	1	0	0	5794	864	30	2	864	2	FCRL1	1	157772251	Nonsense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	3197441	157772251	91478370	19	46935										
SPTA1	6708	broad.mit.edu	37	chr1	158645971	158645971	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttcatatctgctggtggccaGggcacgaatatgctcccagc	11	12	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:158645971G>T	uc001fst.1	-	8	1271	c.1072C>A	c.(1072-1074)CTG>ATG	p.L358M		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	358	Spectrin 4.				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)					CTGGTGGCCAGGGCACGAATA	0.488													278	264	---	---	---	---	PASS	T	158645971	T	T	158645971	3	4	131	1	0	0	0	0	1	0	0	0	15115	991	35	3	6367	3	SPTA1	1	158645971	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	873720	158645971	90604650	20	46936										
OR6K2	81448	broad.mit.edu	37	chr1	158669554	158669554	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttttatagcttcttttatttCtttattcctcaggctataga	4	7	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:158669554C>A	uc001fsu.1	-	1	889	c.889G>T	c.(889-891)GAA>TAA	p.E297*		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TCTTTTATTTCTTTATTCCTC	0.383													62	96	---	---	---	---	PASS	A	158669554	A	A	158669554	4	1	131	1	0	0	0	0	0	1	0	0	11202	922	32	2	89	2	OR6K2	1	158669554	Nonsense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	23583	158669554	90581067	21	46937										
OR10J3	441911	broad.mit.edu	37	chr1	159283910	159283910	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttcagcaggtgtctcacatcAcagaagaagtgggagatgac	12	8	3	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:159283910A>T	uc010piu.1	-	1	540	c.540T>A	c.(538-540)TGT>TGA	p.C180*		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					GTCTCACATCACAGAAGAAGT	0.502													70	93	---	---	---	---	PASS	T	159283910	T	T	159283910	4	4	131	1	0	0	0	0	0	1	0	0	10911	157	6	5	451	5	OR10J3	1	159283910	Nonsense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	614356	159283910	89966711	22	46938										
OLFML2B	25903	broad.mit.edu	37	chr1	161976198	161976198	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttgcctcgcttattcatctcGgttcgaatttcttccatgtc	6	12	3	0	rs140833279		TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:161976198G>T	uc001gbu.2	-	4	1036	c.612C>A	c.(610-612)ACC>ACA	p.T204T	OLFML2B_uc010pkq.1_Silent_p.T204T	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	204	Potential.									skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			TATTCATCTCGGTTCGAATTT	0.433													131	194	---	---	---	---	PASS	T	161976198	T	T	161976198	2	4	131	1	0	0	0	0	0	0	0	1	10858	1103	39	1		1	OLFML2B	1	161976198	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	2692288	161976198	87274423	23	46939										
PAPPA2	60676	broad.mit.edu	37	chr1	176738762	176738762	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gaaggaaattctgctcacatGttcttctgggcactgggacc	11	10	4	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:176738762G>C	uc001gkz.2	+	16	5507	c.4343G>C	c.(4342-4344)TGT>TCT	p.C1448S	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1448	Sushi 1.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CTGCTCACATGTTCTTCTGGG	0.478													139	25	---	---	---	---	PASS	C	176738762	C	C	176738762	3	2	131	1	0	0	0	0	1	0	0	0	11433	1377	48	4	4454	4	PAPPA2	1	176738762	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	14762564	176738762	72511859	24	46940										
KCNT2	343450	broad.mit.edu	37	chr1	196227362	196227362	+	Frame_Shift_Del	DEL	T	-	-													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gacccaagtgtttcattctaTttttcacaagttcagcaagc							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:196227362delT	uc001gtd.1	-	26	3233	c.3173delA	c.(3172-3174)AATfs	p.N1058fs	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Frame_Shift_Del_p.N991fs|KCNT2_uc001gtf.1_Frame_Shift_Del_p.N1034fs|KCNT2_uc001gtg.1_RNA|KCNT2_uc001gth.1_Frame_Shift_Del_p.N562fs	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	1058	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TTTCATTCTATTTTTCACAAG	0.393													32	181	---	---	---	---		-	196227362	-	-	196227362	7	5	131	1	0	1	0	1	0	0	0	0	8092	1493	52	0	246	0	KCNT2	1	196227362	Frame_Shift_Del	DEL	T	TCGA-60-2722-01A-01D-1522-08	19488600	196227362	53023259	25	46941										
CFH	3075	broad.mit.edu	37	chr1	196682958	196682958	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agaaaaagcgaaatatcaatGcaaactaggatatgtaacag	8	5	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:196682958G>A	uc001gtj.3	+	10	1670	c.1430G>A	c.(1429-1431)TGC>TAC	p.C477Y		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	477	Sushi 8.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						AAATATCAATGCAAACTAGGA	0.343													22	88	---	---	---	---	PASS	A	196682958	A	A	196682958	3	1	131	1	0	0	0	0	1	0	0	0	3283	1319	46	3	1486	3	CFH	1	196682958	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	455596	196682958	52567663	26	46942										
DENND1B	163486	broad.mit.edu	37	chr1	197522230	197522230	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgcatttagttttgccagtcGaccatcgataaactagaatt	7	8	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:197522230G>A	uc001guf.3	-	16	1500	c.1162C>T	c.(1162-1164)CGA>TGA	p.R388*	DENND1B_uc010ppe.1_Nonsense_Mutation_p.R368*|DENND1B_uc010ppf.1_Intron|DENND1B_uc001gue.3_Nonsense_Mutation_p.R358*	NM_144977	NP_659414	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 2	388	dDENN.					clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						TTTGCCAGTCGACCATCGATA	0.299													8	134	---	---	---	---	PASS	A	197522230	A	A	197522230	4	1	131	1	0	0	0	0	0	1	0	0	4427	1066	37	2	1238	2	DENND1B	1	197522230	Nonsense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	839272	197522230	51728391	27	46943										
KIF14	9928	broad.mit.edu	37	chr1	200587391	200587391	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tactttccttagaaacaccaTtattttctgtttcacctccc	2	13	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:200587391T>C	uc010ppk.1	-	2	900	c.461A>G	c.(460-462)AAT>AGT	p.N154S	KIF14_uc010ppj.1_5'UTR	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	154	Required for PRC1-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						AGAAACACCATTATTTTCTGT	0.358													91	109	---	---	---	---	PASS	C	200587391	C	C	200587391	3	2	131	1	0	0	0	0	1	0	0	0	8276	1493	52	5	4601	5	KIF14	1	200587391	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	3065161	200587391	48663230	28	46944										
PIK3C2B	5287	broad.mit.edu	37	chr1	204394051	204394051	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctgagccaggtccagctctcGcaggcggatgttcacctcac	11	15	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:204394051G>A	uc001haw.2	-	34	5313	c.4834C>T	c.(4834-4836)CGA>TGA	p.R1612*	PIK3C2B_uc010pqv.1_Nonsense_Mutation_p.R1584*	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	1612					cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			TCCAGCTCTCGCAGGCGGATG	0.637													59	3	---	---	---	---	PASS	A	204394051	A	A	204394051	4	1	131	1	0	0	0	0	0	1	0	0	11910	1095	38	1	74	1	PIK3C2B	1	204394051	Nonsense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	3806660	204394051	44856570	29	46945										
MAPKAPK2	9261	broad.mit.edu	37	chr1	206902762	206902762	+	Missense_Mutation	SNP	G	T	T													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agcatccgaaatcatgaagaGcatcggtgaggccatccagt							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:206902762G>T	uc001hem.1	+	4	792	c.506G>T	c.(505-507)AGC>ATC	p.S169I	MAPKAPK2_uc001hel.1_Missense_Mutation_p.S169I	NM_032960	NP_116584	P49137	MAPK2_HUMAN	mitogen-activated protein kinase-activated	169	Protein kinase.				activation of MAPK activity|hormone biosynthetic process|innate immune response|leukotriene biosynthetic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|prostanoid metabolic process|Ras protein signal transduction|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|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|signal transducer activity				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.211)			ATCATGAAGAGCATCGGTGAG	0.522													235	41	---	---	---	---	PASS	T	206902762	T	T	206902762	3	4	131	1	0	0	0	0	1	0	0	0	9289	971	34	3	520	3	MAPKAPK2	1	206902762	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	2508711	206902762	42347859	30	46946	863	2								
MAPKAPK2	9261	broad.mit.edu	37	chr1	206902763	206902763	+	Silent	SNP	C	T	T													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gcatccgaaatcatgaagagCatcggtgaggccatccagta							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:206902763C>T	uc001hem.1	+	4	793	c.507C>T	c.(505-507)AGC>AGT	p.S169S	MAPKAPK2_uc001hel.1_Silent_p.S169S	NM_032960	NP_116584	P49137	MAPK2_HUMAN	mitogen-activated protein kinase-activated	169	Protein kinase.				activation of MAPK activity|hormone biosynthetic process|innate immune response|leukotriene biosynthetic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|prostanoid metabolic process|Ras protein signal transduction|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|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|signal transducer activity				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.211)			TCATGAAGAGCATCGGTGAGG	0.522													233	40	---	---	---	---	PASS	T	206902763	T	T	206902763	2	4	131	1	0	0	0	0	0	0	0	1	9289	709	25	3		3	MAPKAPK2	1	206902763	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	1	206902763	42347858	31	46947	863	2								
CAMK1G	57172	broad.mit.edu	37	chr1	209785290	209785290	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cccctgagatcaccatcaccGaggcacctgtcctggaccac	8	18	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:209785290G>A	uc001hhd.2	+	11	1171	c.1069G>A	c.(1069-1071)GAG>AAG	p.E357K	CAMK1G_uc001hhf.3_Missense_Mutation_p.E357K|CAMK1G_uc001hhe.2_Missense_Mutation_p.E357K	NM_020439	NP_065172	Q96NX5	KCC1G_HUMAN	calcium/calmodulin-dependent protein kinase IG	357						Golgi membrane|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0475)		CACCATCACCGAGGCACCTGT	0.647													76	116	---	---	---	---	PASS	A	209785290	A	A	209785290	3	1	131	1	0	0	0	0	1	0	0	0	2598	1059	37	2	1107	2	CAMK1G	1	209785290	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	2882527	209785290	39465331	32	46948										
USH2A	7399	broad.mit.edu	37	chr1	216270521	216270521	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gctgcaaagacaatcaaaccTtcaggcacttttgttcgaaa	7	10	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:216270521T>A	uc001hku.1	-	22	5049	c.4662A>T	c.(4660-4662)GAA>GAT	p.E1554D		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1554	Laminin G-like 1.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CAATCAAACCTTCAGGCACTT	0.408										HNSCC(13;0.011)			100	26	---	---	---	---	PASS	A	216270521	A	A	216270521	3	1	131	1	0	0	0	0	1	0	0	0	17033	1606	56	5	11150	5	USH2A	1	216270521	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	6485231	216270521	32980100	33	46949										
NUP133	55746	broad.mit.edu	37	chr1	229631744	229631744	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	catttactgatgtttgaactCgtcaggctataaaagcttga	8	7	1	3	rs147071617	byFrequency	TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:229631744C>A	uc001htn.2	-	7	962	c.870G>T	c.(868-870)ACG>ACT	p.T290T		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	290					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				TGTTTGAACTCGTCAGGCTAT	0.363													3	117	---	---	---	---	PASS	A	229631744	A	A	229631744	2	1	131	1	0	0	0	0	0	0	0	1	10754	871	31	2		2	NUP133	1	229631744	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	13361223	229631744	19618877	34	46950										
RYR2	6262	broad.mit.edu	37	chr1	237947973	237947973	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttgggggaagcctcgtcgaaGgtgctaaaaagatcaaagtt	13	6	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:237947973G>A	uc001hyl.1	+	90	13081	c.12961G>A	c.(12961-12963)GGT>AGT	p.G4321S	RYR2_uc010pya.1_Missense_Mutation_p.G736S	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4321					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)			CCTCGTCGAAGGTGCTAAAAA	0.522													94	11	---	---	---	---	PASS	A	237947973	A	A	237947973	3	1	131	1	0	0	0	0	1	0	0	0	13769	1000	35	3	13319	3	RYR2	1	237947973	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	8316229	237947973	11302648	35	46951										
CEP170	9859	broad.mit.edu	37	chr1	243329385	243329385	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aagttgcagagccagtacttCtcactgtcatgccagactca	8	12	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:243329385C>A	uc001hzs.2	-	13	2285	c.1877G>T	c.(1876-1878)AGA>ATA	p.R626I	CEP170_uc001hzt.2_Missense_Mutation_p.R528I|CEP170_uc001hzu.2_Missense_Mutation_p.R528I|CEP170_uc001hzv.1_Missense_Mutation_p.R4I	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	626						centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			GCCAGTACTTCTCACTGTCAT	0.413													41	1	---	---	---	---	PASS	A	243329385	A	A	243329385	3	1	131	1	0	0	0	0	1	0	0	0	3250	913	32	2	2939	2	CEP170	1	243329385	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	5381412	243329385	5921236	36	46952										
OR1C1	26188	broad.mit.edu	37	chr1	247921531	247921531	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	caagttactaaggaagaagtAcataggggaatggaggtgag	15	3	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:247921531A>T	uc010pza.1	-	1	178	c.178T>A	c.(178-180)TAC>AAC	p.Y60N		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	60	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			AGGAAGAAGTACATAGGGGAA	0.463													50	7	---	---	---	---	PASS	T	247921531	T	T	247921531	3	4	131	1	0	0	0	0	1	0	0	0	10952	391	14	5	768	5	OR1C1	1	247921531	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	4592146	247921531	1329090	37	46953										
OR2T8	343172	broad.mit.edu	37	chr1	248085208	248085208	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgaagaacagtgaggtgaagGgagccctgacaaggtgtatg	16	5	0	5			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:248085208G>A	uc010pzc.1	+	1	889	c.889G>A	c.(889-891)GGA>AGA	p.G297R		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TGAGGTGAAGGGAGCCCTGAC	0.463													227	36	---	---	---	---	PASS	A	248085208	A	A	248085208	3	1	131	1	0	0	0	0	1	0	0	0	11030	1233	43	3	891	3	OR2T8	1	248085208	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	163677	248085208	1165413	38	46954										
OR2M2	391194	broad.mit.edu	37	chr1	248344163	248344163	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aatcccctcatctacagcctCcgcaacaaggaggtgactag	8	14	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:248344163C>T	uc010pzf.1	+	1	876	c.876C>T	c.(874-876)CTC>CTT	p.L292L		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	292	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TCTACAGCCTCCGCAACAAGG	0.463													75	230	---	---	---	---	PASS	T	248344163	T	T	248344163	2	4	131	1	0	0	0	0	0	0	0	1	11010	842	30	2		2	OR2M2	1	248344163	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	258955	248344163	906458	39	46955										
OR2T4	127074	broad.mit.edu	37	chr1	248525318	248525318	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tagcaggttcagaatttttcCttctagccaccatggcctat	7	11	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr1:248525318C>G	uc001ieh.1	+	1	436	c.436C>G	c.(436-438)CTT>GTT	p.L146V		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	146	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AGAATTTTTCCTTCTAGCCAC	0.522													294	38	---	---	---	---	PASS	G	248525318	G	G	248525318	3	3	131	1	0	0	0	0	1	0	0	0	11027	681	24	4	438	4	OR2T4	1	248525318	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	181155	248525318	725303	40	46956										
SNTG2	54221	broad.mit.edu	37	chr2	1241743	1241743	+	Frame_Shift_Del	DEL	G	-	-													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agcccaggatggcaccgactGgctgcgggcggtctcagcca							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:1241743delG	uc002qwq.2	+	10	931	c.803delG	c.(802-804)TGGfs	p.W268fs	SNTG2_uc010ewi.2_Frame_Shift_Del_p.W141fs	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	268					central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		GGCACCGACTGGCTGCGGGCG	0.582													2	7	---	---	---	---		-	1241743	-	-	1241743	7	5	131	1	0	1	0	1	0	0	0	0	14875	1357	47	0	841	0	SNTG2	2	1241743	Frame_Shift_Del	DEL	G	TCGA-60-2722-01A-01D-1522-08		1241743	241957630	41	46957										
KCNK3	3777	broad.mit.edu	37	chr2	26950669	26950669	+	Silent	SNP	C	T	T													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	acaccttggtgaggtacctgCtgcaccgcgccaagaagggg							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:26950669C>T	uc002rhn.2	+	2	581	c.418C>T	c.(418-420)CTG>TTG	p.L140L		NM_002246	NP_002237	O14649	KCNK3_HUMAN	potassium channel, subfamily K, member 3	140	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAGGTACCTGCTGCACCGCGC	0.622													110	19	---	---	---	---	PASS	T	26950669	T	T	26950669	2	4	131	1	0	0	0	0	0	0	0	1	8067	796	28	3		3	KCNK3	2	26950669	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	25708926	26950669	216248704	42	46958	864	2								
KCNK3	3777	broad.mit.edu	37	chr2	26950670	26950670	+	Missense_Mutation	SNP	T	G	G													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	caccttggtgaggtacctgcTgcaccgcgccaagaaggggc							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:26950670T>G	uc002rhn.2	+	2	582	c.419T>G	c.(418-420)CTG>CGG	p.L140R		NM_002246	NP_002237	O14649	KCNK3_HUMAN	potassium channel, subfamily K, member 3	140	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGGTACCTGCTGCACCGCGCC	0.622													111	18	---	---	---	---	PASS	G	26950670	G	G	26950670	3	3	131	1	0	0	0	0	1	0	0	0	8067	1580	55	5	425	5	KCNK3	2	26950670	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	1	26950670	216248703	43	46959	864	2								
PLEKHH2	130271	broad.mit.edu	37	chr2	43919696	43919696	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aaaagcagctaatattcaaaCcagtgaatcagagacaagat	7	7	2	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:43919696C>G	uc010yny.1	+	4	313	c.230C>G	c.(229-231)ACC>AGC	p.T77S	PLEKHH2_uc002rte.3_Missense_Mutation_p.T77S|PLEKHH2_uc002rtf.3_Missense_Mutation_p.T77S	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	77	Potential.					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				AATATTCAAACCAGTGAATCA	0.308													37	55	---	---	---	---	PASS	G	43919696	G	G	43919696	3	3	131	1	0	0	0	0	1	0	0	0	12077	507	18	4	240	4	PLEKHH2	2	43919696	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	16969026	43919696	199279677	44	46960										
LRPPRC	10128	broad.mit.edu	37	chr2	44184548	44184548	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgaagcctagcagtaggctaCttcttatagactgcagcgag	11	9	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:44184548C>A	uc002rtr.2	-	14	1683	c.1625G>T	c.(1624-1626)AGT>ATT	p.S542I	LRPPRC_uc010yob.1_Missense_Mutation_p.S442I	NM_133259	NP_573566	P42704	LPPRC_HUMAN	leucine-rich PPR motif-containing protein	542					mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CAGTAGGCTACTTCTTATAGA	0.388													95	112	---	---	---	---	PASS	A	44184548	A	A	44184548	3	1	131	1	0	0	0	0	1	0	0	0	8965	565	20	3	2659	3	LRPPRC	2	44184548	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	264852	44184548	199014825	45	46961										
LHCGR	3973	broad.mit.edu	37	chr2	48914948	48914948	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	atccagtgaagccatttttgCagttggaggtgtaagctgaa	12	6	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:48914948C>G	uc002rwu.3	-	11	2058	c.1988G>C	c.(1987-1989)TGC>TCC	p.C663S	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	663	Cytoplasmic (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	GCCATTTTTGCAGTTGGAGGT	0.423									Familial_Male-Limited_Precocious_Puberty				66	427	---	---	---	---	PASS	G	48914948	G	G	48914948	3	3	131	1	0	0	0	0	1	0	0	0	8762	710	25	4	115	4	LHCGR	2	48914948	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	4730400	48914948	194284425	46	46962										
PUS10	150962	broad.mit.edu	37	chr2	61238926	61238926	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tggaagtttgtaaggtgcatGaaaatccacaccacagaatc	9	8	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:61238926G>C	uc010fci.2	-	2	160	c.100C>G	c.(100-102)CAT>GAT	p.H34D	PUS10_uc002sao.2_Missense_Mutation_p.H34D|PUS10_uc010ypk.1_5'UTR|PUS10_uc002sap.1_RNA|PUS10_uc002saq.1_RNA	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	34					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)			TAAGGTGCATGAAAATCCACA	0.343													26	66	---	---	---	---	PASS	C	61238926	C	C	61238926	3	2	131	1	0	0	0	0	1	0	0	0	12831	1290	45	2	1557	2	PUS10	2	61238926	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	12323978	61238926	181960447	47	46963										
ATP6V1B1	525	broad.mit.edu	37	chr2	71188824	71188824	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aacttggccaatgaccccacGtgagctttccctgatgccca	8	15	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:71188824G>T	uc002shj.2	+	8	872	c.785_splice	c.e8+1	p.T262_splice	ATP6V1B1_uc002shi.1_Silent_p.T262T|ATP6V1B1_uc010fdv.2_Splice_Site_p.T262_splice|ATP6V1B1_uc010fdw.2_Splice_Site|ATP6V1B1_uc010fdx.2_Splice_Site_p.T220_splice	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1						ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						ATGACCCCACGTGAGCTTTCC	0.562													88	101	---	---	---	---	PASS	T	71188824	T	T	71188824	5	4	131	1	0	0	0	0	0	0	1	0	1178	1159	40	1	816	1	ATP6V1B1	2	71188824	Splice_Site	SNP	G	TCGA-60-2722-01A-01D-1522-08	9949898	71188824	172010549	48	46964										
NAT8B	51471	broad.mit.edu	37	chr2	73928183	73928183	+	Missense_Mutation	SNP	G	C	C													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	caatgctatgtctacataccGcgtccagggttttttggcaa							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:73928183G>C	uc002sjk.1	-	2	285	c.250C>G	c.(250-252)CGG>GGG	p.R84G		NM_016347	NP_057431	Q9UHF3	NAT8B_HUMAN	N-acetyltransferase 8B	84	N-acetyltransferase.				gastrulation with mouth forming second	integral to membrane	N-acetyltransferase activity				0						TCTACATACCGCGTCCAGGGT	0.547													9	236	---	---	---	---	PASS	C	73928183	C	C	73928183	3	2	131	1	0	0	0	0	1	0	0	0	10180	1086	38	4	437	4	NAT8B	2	73928183	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	2739359	73928183	169271190	49	46965	865	2								
NAT8B	51471	broad.mit.edu	37	chr2	73928184	73928184	+	Silent	SNP	C	T	T													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aatgctatgtctacataccgCgtccagggttttttggcaag							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:73928184C>T	uc002sjk.1	-	2	284	c.249G>A	c.(247-249)ACG>ACA	p.T83T		NM_016347	NP_057431	Q9UHF3	NAT8B_HUMAN	N-acetyltransferase 8B	83	N-acetyltransferase.				gastrulation with mouth forming second	integral to membrane	N-acetyltransferase activity				0						CTACATACCGCGTCCAGGGTT	0.552													9	241	---	---	---	---	PASS	T	73928184	T	T	73928184	2	4	131	1	0	0	0	0	0	0	0	1	10180	755	27	1		1	NAT8B	2	73928184	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	1	73928184	169271189	50	46966	865	2								
C2orf3	6936	broad.mit.edu	37	chr2	75921419	75921419	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cataaattttcatgcttttaTagaatttacaatttagagct	4	5	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:75921419T>C	uc002sno.2	-	6	1098	c.968A>G	c.(967-969)TAT>TGT	p.Y323C	C2orf3_uc010ffs.2_5'UTR|C2orf3_uc002snn.2_Missense_Mutation_p.Y154C|C2orf3_uc010fft.2_5'UTR	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	323					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CATGCTTTTATAGAATTTACA	0.303													115	149	---	---	---	---	PASS	C	75921419	C	C	75921419	3	2	131	1	0	0	0	0	1	0	0	0	2162	1406	49	5	1425	5	C2orf3	2	75921419	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	1993235	75921419	167277954	51	46967										
IL1F7	27178	broad.mit.edu	37	chr2	113676172	113676172	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gaagctggctgcccaaaaggAatcagcacgccggcccttca	11	14	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:113676172A>G	uc002tij.2	+	5	485	c.443A>G	c.(442-444)GAA>GGA	p.E148G	IL1F7_uc002tik.2_Missense_Mutation_p.E127G|IL1F7_uc002til.2_Missense_Mutation_p.E108G|IL1F7_uc002tim.2_Missense_Mutation_p.E87G|IL1F7_uc002tin.2_Missense_Mutation_p.E122G	NM_014439	NP_055254	Q9NZH6	IL37_HUMAN	interleukin 1 family, member 7 isoform 1	148					immune response	cytosol|extracellular space|nucleus	cytokine activity|interleukin-1 receptor antagonist activity|interleukin-1 receptor binding				0						GCCCAAAAGGAATCAGCACGC	0.532													27	51	---	---	---	---	PASS	G	113676172	G	G	113676172	3	3	131	1	0	0	0	0	1	0	0	0	7655	246	9	5	532	5	IL1F7	2	113676172	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	37754753	113676172	129523201	52	46968										
MARCO	8685	broad.mit.edu	37	chr2	119732098	119732098	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aattccctttcccttccaggCccctcgggaccccaaggccc	7	20	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:119732098C>T	uc002tln.1	+	6	702	c.570C>T	c.(568-570)GGC>GGT	p.G190G	MARCO_uc010yyf.1_Silent_p.G112G	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	190	Collagen-like.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						CCCTTCCAGGCCCCTCGGGAC	0.542													31	25	---	---	---	---	PASS	T	119732098	T	T	119732098	2	4	131	1	0	0	0	0	0	0	0	1	9311	753	26	3		3	MARCO	2	119732098	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	6055926	119732098	123467275	53	46969										
CNTNAP5	129684	broad.mit.edu	37	chr2	125660653	125660653	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tggactcagatgtgaatgcaGtgaccacggtgcattcttca	11	9	3	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:125660653G>C	uc002tno.2	+	22	3992	c.3628G>C	c.(3628-3630)GTG>CTG	p.V1210L	CNTNAP5_uc010flu.2_Missense_Mutation_p.V1211L	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	1210	Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TGTGAATGCAGTGACCACGGT	0.522													5	6	---	---	---	---	PASS	C	125660653	C	C	125660653	3	2	131	1	0	0	0	0	1	0	0	0	3650	1029	36	4	3714	4	CNTNAP5	2	125660653	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	5928555	125660653	117538720	54	46970										
LCT	3938	broad.mit.edu	37	chr2	136566451	136566451	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tccgtttctaaaaatggggtGagcaaaccagcccagggaga	12	9	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:136566451G>T	uc002tuu.1	-	8	3477	c.3466C>A	c.(3466-3468)CAC>AAC	p.H1156N		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1156	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		AAAATGGGGTGAGCAAACCAG	0.567													73	80	---	---	---	---	PASS	T	136566451	T	T	136566451	3	4	131	1	0	0	0	0	1	0	0	0	8693	1290	45	2	2357	2	LCT	2	136566451	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	10905798	136566451	106632922	55	46971										
TBR1	10716	broad.mit.edu	37	chr2	162280499	162280499	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cgcccggcgccgccgaggacGccaagcccaaggacctgtcc	13	19	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:162280499G>T	uc002ubw.1	+	6	2112	c.1810G>T	c.(1810-1812)GCC>TCC	p.A604S	TBR1_uc010foy.2_Missense_Mutation_p.A317S	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	604						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CGCCGAGGACGCCAAGCCCAA	0.721													3	1	---	---	---	---	PASS	T	162280499	T	T	162280499	3	4	131	1	0	0	0	0	1	0	0	0	15644	1087	38	1	1832	1	TBR1	2	162280499	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	25714048	162280499	80918874	56	46972										
SLC4A10	57282	broad.mit.edu	37	chr2	162804167	162804167	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tctattttggtctgtgatccTgttcttttccacagttactc	6	10	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:162804167T>A	uc002ubx.3	+	17	2379	c.2195T>A	c.(2194-2196)CTG>CAG	p.L732Q	SLC4A10_uc002uby.3_Missense_Mutation_p.L702Q|SLC4A10_uc010zcs.1_Missense_Mutation_p.L713Q	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	732	Helical; (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						TCTGTGATCCTGTTCTTTTCC	0.433													94	80	---	---	---	---	PASS	A	162804167	A	A	162804167	3	1	131	1	0	0	0	0	1	0	0	0	14651	1580	55	5	2346	5	SLC4A10	2	162804167	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	523668	162804167	80395206	57	46973										
XIRP2	129446	broad.mit.edu	37	chr2	167760266	167760266	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	acaacaccagggaatatggtCggccagaagtgctgaaggag	14	8	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:167760266C>A	uc002udx.2	+	1	292	c.274C>A	c.(274-276)CGG>AGG	p.R92R	XIRP2_uc010fpn.2_Silent_p.R92R|XIRP2_uc010fpo.2_Silent_p.R92R|XIRP2_uc010fpp.2_Silent_p.R92R	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	Error:Variant_position_missing_in_A4UGR9_after_alignment					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GGAATATGGTCGGCCAGAAGT	0.522													35	28	---	---	---	---	PASS	A	167760266	A	A	167760266	2	1	131	1	0	0	0	0	0	0	0	1	17427	875	31	2		2	XIRP2	2	167760266	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	4956099	167760266	75439107	58	46974										
TLK1	9874	broad.mit.edu	37	chr2	171863104	171863104	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cattaacttgtgttgcttcaGatagaaatccaagtcattgc	7	8	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:171863104G>A	uc002ugn.2	-	17	2120	c.1648C>T	c.(1648-1650)CTG>TTG	p.L550L	TLK1_uc002ugo.2_Silent_p.L571L|TLK1_uc002ugp.2_Silent_p.L502L|TLK1_uc002ugq.2_RNA|TLK1_uc010zdn.1_Silent_p.L454L	NM_012290	NP_036422	Q9UKI8	TLK1_HUMAN	tousled-like kinase 1 isoform 1	550	Protein kinase.				cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1						TGTTGCTTCAGATAGAAATCC	0.338													87	78	---	---	---	---	PASS	A	171863104	A	A	171863104	2	1	131	1	0	0	0	0	0	0	0	1	15940	933	33	2		2	TLK1	2	171863104	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	4102838	171863104	71336269	59	46975										
HOXD1	3231	broad.mit.edu	37	chr2	177054177	177054177	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtgaagaggaatgcctctaaGaaaggtaagtccgcgggcct	14	8	1	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:177054177G>C	uc002ukv.3	+	1	871	c.648G>C	c.(646-648)AAG>AAC	p.K216N	HOXD1_uc010fqy.2_Missense_Mutation_p.K216N|HOXD1_uc010zez.1_Missense_Mutation_p.K216N	NM_024501	NP_078777	Q9GZZ0	HXD1_HUMAN	homeobox D1	216						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.0226)		ATGCCTCTAAGAAAGGTAAGT	0.652													19	15	---	---	---	---	PASS	C	177054177	C	C	177054177	3	2	131	1	0	0	0	0	1	0	0	0	7318	933	33	2	650	2	HOXD1	2	177054177	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	5191073	177054177	66145196	60	46976										
TTN	7273	broad.mit.edu	37	chr2	179436113	179436113	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cctggaggacagtgtgacaaCtggagtgccaggaggaccag	16	9	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:179436113C>G	uc010zfg.1	-	275	67266	c.67042G>C	c.(67042-67044)GTT>CTT	p.V22348L	uc002umo.2_Intron|uc002ump.1_RNA|TTN_uc010zfh.1_Missense_Mutation_p.V16043L|TTN_uc010zfi.1_Missense_Mutation_p.V15976L|TTN_uc010zfj.1_Missense_Mutation_p.V15851L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23275							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)			AGTGTGACAACTGGAGTGCCA	0.468													52	145	---	---	---	---	PASS	G	179436113	G	G	179436113	3	3	131	1	0	0	0	0	1	0	0	0	16732	565	20	4	33381	4	TTN	2	179436113	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	2381936	179436113	63763260	61	46977										
TTN	7273	broad.mit.edu	37	chr2	179634606	179634606	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agtgggacacctcacactcaAaagaggcagttttggtctca	10	10	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:179634606A>T	uc010zfg.1	-	37	8926	c.8702T>A	c.(8701-8703)TTT>TAT	p.F2901Y	TTN_uc010zfh.1_Missense_Mutation_p.F2855Y|TTN_uc010zfi.1_Missense_Mutation_p.F2855Y|TTN_uc010zfj.1_Missense_Mutation_p.F2855Y|TTN_uc002unb.2_Missense_Mutation_p.F2901Y	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2901							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)			CTCACACTCAAAAGAGGCAGT	0.388													64	158	---	---	---	---	PASS	T	179634606	T	T	179634606	3	4	131	1	0	0	0	0	1	0	0	0	16732	14	1	5	102590	5	TTN	2	179634606	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	198493	179634606	63564767	62	46978										
TTN	7273	broad.mit.edu	37	chr2	179664389	179664397	+	In_Frame_Del	DEL	GCCCAGCGG	-	-													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgttttatgtggcagctgttGcccagcggcaccatctatga							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:179664389_179664397delGCCCAGCGG	uc002und.2	-	6	956_964	c.731_739delCCGCTGGGC	c.(730-741)GCCGCTGGGCAA>GAA	p.244_247AAGQ>E	TTN_uc010zfg.1_In_Frame_Del_p.244_247AAGQ>E|TTN_uc010zfh.1_In_Frame_Del_p.244_247AAGQ>E|TTN_uc010zfi.1_In_Frame_Del_p.244_247AAGQ>E|TTN_uc010zfj.1_In_Frame_Del_p.244_247AAGQ>E|TTN_uc002unb.2_In_Frame_Del_p.244_247AAGQ>E			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	244_247							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)			GGCAGCTGTTGCCCAGCGGCACCATCTAT	0.493													42	26	---	---	---	---		-	179664397	-	-	179664389	7	5	131	1	0	1	0	1	0	0	0	0	16732	1328	46	0	110677	0	TTN	2	179664389	In_Frame_Del	DEL	GCCCAGCGG	TCGA-60-2722-01A-01D-1522-08	29783	179664389	63534984	63	46979										
NCKAP1	10787	broad.mit.edu	37	chr2	183822296	183822296	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcttattcactgcttgactgAtagttttggcacaatgcttg	8	8	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:183822296A>G	uc002upc.2	-	19	2312	c.1910T>C	c.(1909-1911)ATC>ACC	p.I637T	NCKAP1_uc002upb.2_Missense_Mutation_p.I643T	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	637					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			TGCTTGACTGATAGTTTTGGC	0.378													82	68	---	---	---	---	PASS	G	183822296	G	G	183822296	3	3	131	1	0	0	0	0	1	0	0	0	10221	333	12	5	1528	5	NCKAP1	2	183822296	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	4157907	183822296	59377077	64	46980										
NRP2	8828	broad.mit.edu	37	chr2	206628623	206628623	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gggcggcgagtggaagcacgGgcggatcatcctgcccagct	17	12	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:206628623G>A	uc002vaw.2	+	13	3061	c.2270G>A	c.(2269-2271)GGG>GAG	p.G757E	NRP2_uc002vau.2_Missense_Mutation_p.G757E|NRP2_uc002vav.2_Missense_Mutation_p.G757E|NRP2_uc002vax.2_Missense_Mutation_p.G757E|NRP2_uc002vay.2_Missense_Mutation_p.G757E	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	757	Extracellular (Potential).|MAM.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						TGGAAGCACGGGCGGATCATC	0.612											OREG0015155	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	55	44	---	---	---	---	PASS	A	206628623	A	A	206628623	3	1	131	1	0	0	0	0	1	0	0	0	10661	1232	43	3	2347	3	NRP2	2	206628623	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	22806327	206628623	36570750	65	46981										
PLEKHM3	389072	broad.mit.edu	37	chr2	208866361	208866361	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcatccacttccaaagcttcCatgtcacaggctccaggagg	8	14	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:208866361C>T	uc002vcl.2	-	2	493	c.3G>A	c.(1-3)ATG>ATA	p.M1I	PLEKHM3_uc002vcm.2_Missense_Mutation_p.M1I	NM_001080475	NP_001073944	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M,	1					intracellular signal transduction		metal ion binding			ovary(1)	1						CCAAAGCTTCCATGTCACAGG	0.478													86	72	---	---	---	---	PASS	T	208866361	T	T	208866361	3	4	131	1	0	0	0	0	1	0	0	0	12082	594	21	3	2310	3	PLEKHM3	2	208866361	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	2237738	208866361	34333012	66	46982										
CPS1	1373	broad.mit.edu	37	chr2	211447374	211447374	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggaagattgaatttgaaggtCagcctgtggattttgtggat	14	3	1	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:211447374C>A	uc002vee.3	+	6	694	c.562C>A	c.(562-564)CAG>AAG	p.Q188K	CPS1_uc010fur.2_Missense_Mutation_p.Q194K	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	188	Anthranilate phosphoribosyltransferase homolog.				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)		ATTTGAAGGTCAGCCTGTGGA	0.348													68	61	---	---	---	---	PASS	A	211447374	A	A	211447374	3	1	131	1	0	0	0	0	1	0	0	0	3823	827	29	2	606	2	CPS1	2	211447374	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	2581013	211447374	31751999	67	46983										
CPS1	1373	broad.mit.edu	37	chr2	211502530	211502530	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgaggcccagacaagggagcTgaggttaaagaaaaacatcc	12	8	0	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:211502530T>G	uc002vee.3	+	22	2924	c.2792T>G	c.(2791-2793)CTG>CGG	p.L931R	CPS1_uc010fur.2_Missense_Mutation_p.L937R|CPS1_uc010fus.2_Missense_Mutation_p.L480R	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	931					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)		ACAAGGGAGCTGAGGTTAAAG	0.473													58	57	---	---	---	---	PASS	G	211502530	G	G	211502530	3	3	131	1	0	0	0	0	1	0	0	0	3823	1580	55	5	2900	5	CPS1	2	211502530	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	55156	211502530	31696843	68	46984										
USP37	57695	broad.mit.edu	37	chr2	219350415	219350415	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cctgttaaatttgtgcctgaCaagagcacacttcccaccac	6	14	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:219350415C>A	uc002vie.2	-	16	2095	c.1642G>T	c.(1642-1644)GTC>TTC	p.V548F	USP37_uc010fvs.1_Missense_Mutation_p.V548F|USP37_uc010zkf.1_Missense_Mutation_p.V548F|USP37_uc002vif.2_Missense_Mutation_p.V548F|USP37_uc002vig.2_Missense_Mutation_p.V476F	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	548					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		TTGTGCCTGACAAGAGCACAC	0.338													68	46	---	---	---	---	PASS	A	219350415	A	A	219350415	3	1	131	1	0	0	0	0	1	0	0	0	17065	478	17	3	1341	3	USP37	2	219350415	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	7847885	219350415	23848958	69	46985										
COL4A4	1286	broad.mit.edu	37	chr2	227915752	227915752	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tagaccagttgagcctggagGgcctgggggtccaggaggcc	18	10	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:227915752G>T	uc010zlt.1	-	33	3745	c.3091C>A	c.(3091-3093)CCT>ACT	p.P1031T		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1031	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		GAGCCTGGAGGGCCTGGGGGT	0.567													114	89	---	---	---	---	PASS	T	227915752	T	T	227915752	3	4	131	1	0	0	0	0	1	0	0	0	3693	1232	43	3	2045	3	COL4A4	2	227915752	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	8565337	227915752	15283621	70	46986										
COL4A4	1286	broad.mit.edu	37	chr2	227973298	227973298	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agcaagagggaattcttaccGggtctcccatttgccccttt	9	12	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:227973298G>A	uc010zlt.1	-	12	1388	c.734C>T	c.(733-735)CCG>CTG	p.P245L		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	245	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		AATTCTTACCGGGTCTCCCAT	0.418													54	128	---	---	---	---	PASS	A	227973298	A	A	227973298	3	1	131	1	0	0	0	0	1	0	0	0	3693	1130	39	1	4486	1	COL4A4	2	227973298	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	57546	227973298	15226075	71	46987										
SPHKAP	80309	broad.mit.edu	37	chr2	228883190	228883190	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cactccacccttgtcttgttTtgaatacatgccatccacaa	4	14	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:228883190T>C	uc002vpq.2	-	7	2427	c.2380A>G	c.(2380-2382)AAA>GAA	p.K794E	SPHKAP_uc002vpp.2_Missense_Mutation_p.K794E|SPHKAP_uc010zlx.1_Missense_Mutation_p.K794E	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	794						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TTGTCTTGTTTTGAATACATG	0.483													355	269	---	---	---	---	PASS	C	228883190	C	C	228883190	3	2	131	1	0	0	0	0	1	0	0	0	15047	1850	64	5	2746	5	SPHKAP	2	228883190	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	909892	228883190	14316183	72	46988										
COL6A3	1293	broad.mit.edu	37	chr2	238249727	238249727	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgtccacatcgctccctgccGctctcctgtccctgaaggaa	8	17	1	1	rs114806654	by1000genomes	TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr2:238249727G>T	uc002vwl.2	-	38	8117	c.7832C>A	c.(7831-7833)GCG>GAG	p.A2611E	COL6A3_uc002vwo.2_Missense_Mutation_p.A2405E|COL6A3_uc010znj.1_Missense_Mutation_p.A2004E|COL6A3_uc002vwj.2_5'UTR	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2611	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GCTCCCTGCCGCTCTCCTGTC	0.512													106	63	---	---	---	---	PASS	T	238249727	T	T	238249727	3	4	131	1	0	0	0	0	1	0	0	0	3701	1087	38	1	1729	1	COL6A3	2	238249727	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	9366537	238249727	4949646	73	46989										
ATP2B2	491	broad.mit.edu	37	chr3	10392220	10392220	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcgccagtgaccatgcggacCgtgatgcctgcccgctggca	13	15	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:10392220C>A	uc003bvt.2	-	15	2617	c.2178G>T	c.(2176-2178)ACG>ACT	p.T726T	ATP2B2_uc003bvv.2_Silent_p.T681T|ATP2B2_uc003bvw.2_Silent_p.T681T|ATP2B2_uc010hdo.2_Silent_p.T431T	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	726	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CCATGCGGACCGTGATGCCTG	0.652													42	14	---	---	---	---	PASS	A	10392220	A	A	10392220	2	1	131	1	0	0	0	0	0	0	0	1	1140	639	23	1		1	ATP2B2	3	10392220	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08		10392220	187630210	74	46990										
GRIP2	80852	broad.mit.edu	37	chr3	14551459	14551459	+	Frame_Shift_Del	DEL	G	-	-													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtgtaactgacggcacctgtGgtctccagctcatctgcaag							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:14551459delG	uc011avi.1	-	18	2241	c.2241delC	c.(2239-2241)ACCfs	p.T747fs	GRIP2_uc010heh.2_RNA|GRIP2_uc011avh.1_Frame_Shift_Del_p.T278fs	NM_001080423	NP_001073892	Q9C0E4	GRIP2_HUMAN	glutamate receptor interacting protein 2	649					synaptic transmission	cytosol|plasma membrane	protein binding			pancreas(1)	1						CGGCACCTGTGGTCTCCAGCT	0.547													4	2	---	---	---	---		-	14551459	-	-	14551459	7	5	131	1	0	1	0	1	0	0	0	0	6788	1335	47	0	1215	0	GRIP2	3	14551459	Frame_Shift_Del	DEL	G	TCGA-60-2722-01A-01D-1522-08	4159239	14551459	183470971	75	46991										
LRRC2	79442	broad.mit.edu	37	chr3	46569047	46569047	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtcaacttgtttttatacaaGagaaagctctgcagctcctc	7	10	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:46569047G>C	uc010hji.2	-	7	1162	c.798C>G	c.(796-798)CTC>CTG	p.L266L	LRRC2_uc003cpu.3_Silent_p.L266L	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2	266	LRR 7.									ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		TTTTATACAAGAGAAAGCTCT	0.418													37	13	---	---	---	---	PASS	C	46569047	C	C	46569047	2	2	131	1	0	0	0	0	0	0	0	1	8976	929	33	2		2	LRRC2	3	46569047	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	32017588	46569047	151453383	76	46992										
BSN	8927	broad.mit.edu	37	chr3	49691379	49691379	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtgacggtgagggtggcactCctcagccttcccgggcatat	14	12	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:49691379C>T	uc003cxe.3	+	5	4504	c.4390C>T	c.(4390-4392)CCT>TCT	p.P1464S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1464					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		GGGTGGCACTCCTCAGCCTTC	0.612													88	19	---	---	---	---	PASS	T	49691379	T	T	49691379	3	4	131	1	0	0	0	0	1	0	0	0	1530	855	30	2	4408	2	BSN	3	49691379	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	3122332	49691379	148331051	77	46993										
C3orf30	152405	broad.mit.edu	37	chr3	118866052	118866052	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	acctccagttgacaatgctcActacactgaatctgaccaga	6	13	2	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:118866052A>T	uc003ecb.1	+	1	1056	c.1016A>T	c.(1015-1017)CAC>CTC	p.H339L	IGSF11_uc003eby.2_5'Flank|IGSF11_uc003ebz.2_5'Flank|IGSF11_uc010hqs.2_5'Flank|C3orf30_uc011biw.1_Missense_Mutation_p.H339L	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	339										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		GACAATGCTCACTACACTGAA	0.468													29	55	---	---	---	---	PASS	T	118866052	T	T	118866052	3	4	131	1	0	0	0	0	1	0	0	0	2220	159	6	5	1018	5	C3orf30	3	118866052	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	69174673	118866052	79156378	78	46994										
POPDC2	64091	broad.mit.edu	37	chr3	119361403	119361403	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtagctctggagaggaattcTagaagctgtggaaagaaaaa	13	4	2	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:119361403T>C	uc003ecx.1	-	4	1149	c.1015A>G	c.(1015-1017)AGA>GGA	p.R339G	POPDC2_uc010hqw.1_3'UTR|POPDC2_uc003ecy.1_3'UTR	NM_022135	NP_071418	Q9HBU9	POPD2_HUMAN	popeye protein 2	339				R -> K (in Ref. 1; AAG23406).		integral to membrane				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.242)		AGAGGAATTCTAGAAGCTGTG	0.428													49	65	---	---	---	---	PASS	C	119361403	C	C	119361403	3	2	131	1	0	0	0	0	1	0	0	0	12255	1530	53	5	83	5	POPDC2	3	119361403	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	495351	119361403	78661027	79	46995										
GOLGB1	2804	broad.mit.edu	37	chr3	121417551	121417551	+	Nonsense_Mutation	SNP	C	A	A													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tggagctattccctcaccctCcatctgtttcatttctttct							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:121417551C>A	uc003eei.3	-	13	1930	c.1804G>T	c.(1804-1806)GAG>TAG	p.E602*	GOLGB1_uc010hrc.2_Nonsense_Mutation_p.E607*|GOLGB1_uc003eej.3_Nonsense_Mutation_p.E568*|GOLGB1_uc011bjm.1_Nonsense_Mutation_p.E488*|GOLGB1_uc010hrd.1_Nonsense_Mutation_p.E566*	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	602	Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CCCTCACCCTCCATCTGTTTC	0.413													90	172	---	---	---	---	PASS	A	121417551	A	A	121417551	4	1	131	1	0	0	0	0	0	1	0	0	6565	864	30	2	8015	2	GOLGB1	3	121417551	Nonsense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	2056148	121417551	76604879	80	46996	866	2								
GOLGB1	2804	broad.mit.edu	37	chr3	121417552	121417552	+	Missense_Mutation	SNP	C	G	G													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggagctattccctcaccctcCatctgtttcatttctttctg							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:121417552C>G	uc003eei.3	-	13	1929	c.1803G>C	c.(1801-1803)ATG>ATC	p.M601I	GOLGB1_uc010hrc.2_Missense_Mutation_p.M606I|GOLGB1_uc003eej.3_Missense_Mutation_p.M567I|GOLGB1_uc011bjm.1_Missense_Mutation_p.M487I|GOLGB1_uc010hrd.1_Missense_Mutation_p.M565I	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	601	Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CCTCACCCTCCATCTGTTTCA	0.413													92	172	---	---	---	---	PASS	G	121417552	G	G	121417552	3	3	131	1	0	0	0	0	1	0	0	0	6565	594	21	4	8016	4	GOLGB1	3	121417552	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1	121417552	76604878	81	46997	866	2								
KALRN	8997	broad.mit.edu	37	chr3	124397156	124397156	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tctgggcaacaaagtctctgTtaaagtgagtaaggtattcc	10	7	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:124397156T>C	uc003ehg.2	+	50	7440	c.7313T>C	c.(7312-7314)GTT>GCT	p.V2438A	KALRN_uc003ehk.2_Missense_Mutation_p.V741A	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2437					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						AAAGTCTCTGTTAAAGTGAGT	0.498													53	64	---	---	---	---	PASS	C	124397156	C	C	124397156	3	2	131	1	0	0	0	0	1	0	0	0	7975	1725	60	5	7667	5	KALRN	3	124397156	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	2979604	124397156	73625274	82	46998										
COL6A6	131873	broad.mit.edu	37	chr3	130311403	130311403	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agggagaaagaggagcccctGgaccagtgggagagcaaggt	18	7	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:130311403G>A	uc010htl.2	+	13	4322	c.4291G>A	c.(4291-4293)GGA>AGA	p.G1431R	COL6A6_uc003eni.3_5'UTR	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1431	Triple-helical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						AGGAGCCCCTGGACCAGTGGG	0.408													16	24	---	---	---	---	PASS	A	130311403	A	A	130311403	3	1	131	1	0	0	0	0	1	0	0	0	3703	1349	47	3	4341	3	COL6A6	3	130311403	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	5914247	130311403	67711027	83	46999										
PLSCR5	389158	broad.mit.edu	37	chr3	146307484	146307484	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgctgctttgactgttacatCtagatctgcaggaacatgaa	9	8	2	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:146307484C>T	uc003ewb.2	-	6	1737	c.733G>A	c.(733-735)GAT>AAT	p.D245N	PLSCR5_uc010hvb.2_Missense_Mutation_p.D233N|PLSCR5_uc010hvc.2_Missense_Mutation_p.D245N	NM_001085420	NP_001078889	A0PG75	PLS5_HUMAN	phospholipid scramblase family, member 5	245											0						ACTGTTACATCTAGATCTGCA	0.383													137	237	---	---	---	---	PASS	T	146307484	T	T	146307484	3	4	131	1	0	0	0	0	1	0	0	0	12113	913	32	2	90	2	PLSCR5	3	146307484	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	15996081	146307484	51714946	84	47000										
HPS3	84343	broad.mit.edu	37	chr3	148885004	148885004	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cagtcattccatatgctaatCatgaactgaaagaagagaac	7	8	2	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:148885004C>G	uc003ewu.1	+	15	2913	c.2773C>G	c.(2773-2775)CAT>GAT	p.H925D	CP_uc011bnr.1_Intron|HPS3_uc011bnq.1_Missense_Mutation_p.H760D|HPS3_uc003ewv.1_RNA	NM_032383	NP_115759	Q969F9	HPS3_HUMAN	Hermansky-Pudlak syndrome 3 protein	925						cytoplasm				ovary(5)|large_intestine(1)	6			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			ATATGCTAATCATGAACTGAA	0.353									Hermansky-Pudlak_syndrome				34	174	---	---	---	---	PASS	G	148885004	G	G	148885004	3	3	131	1	0	0	0	0	1	0	0	0	7340	826	29	2	2831	2	HPS3	3	148885004	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	2577520	148885004	49137426	85	47001										
PTX3	5806	broad.mit.edu	37	chr3	157160481	157160481	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcacatccttgtgggtaaatGgtgaactggcggctaccact	11	10	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:157160481G>C	uc003fbl.3	+	3	1002	c.859G>C	c.(859-861)GGT>CGT	p.G287R	VEPH1_uc003fbj.1_Intron|VEPH1_uc003fbk.1_Intron|VEPH1_uc010hvu.1_Intron	NM_002852	NP_002843	P26022	PTX3_HUMAN	pentraxin 3 precursor	287	Pentaxin.				inflammatory response	extracellular region				central_nervous_system(1)	1			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			GTGGGTAAATGGTGAACTGGC	0.542													47	179	---	---	---	---	PASS	C	157160481	C	C	157160481	3	2	131	1	0	0	0	0	1	0	0	0	12822	1348	47	4	869	4	PTX3	3	157160481	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	8275477	157160481	40861949	86	47002										
IFT80	57560	broad.mit.edu	37	chr3	160037573	160037573	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tggctcttcttttcgttaatGttacttgaaaatttttccac	5	8	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:160037573G>C	uc011boy.1	-	9	1365	c.932C>G	c.(931-933)ACA>AGA	p.T311R	IFT80_uc003fda.2_RNA|IFT80_uc003fdb.1_Missense_Mutation_p.T174R|IFT80_uc003fdd.1_5'UTR|IFT80_uc003fde.1_Missense_Mutation_p.T174R	NM_020800	NP_065851	Q9P2H3	IFT80_HUMAN	WD repeat domain 56	311						cilium axoneme|microtubule basal body				ovary(1)	1			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TTTCGTTAATGTTACTTGAAA	0.373													59	325	---	---	---	---	PASS	C	160037573	C	C	160037573	3	2	131	1	0	0	0	0	1	0	0	0	7564	1377	48	4	1449	4	IFT80	3	160037573	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	2877092	160037573	37984857	87	47003										
KPNA4	3840	broad.mit.edu	37	chr3	160253340	160253340	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttaattgaattccttggttaTcacttgaagcattctataaa	5	6	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:160253340T>C	uc003fdn.2	-	5	554	c.248A>G	c.(247-249)GAT>GGT	p.D83G		NM_002268	NP_002259	O00629	IMA4_HUMAN	karyopherin alpha 4	83	ARM 1; truncated.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			TCCTTGGTTATCACTTGAAGC	0.308													89	27	---	---	---	---	PASS	C	160253340	C	C	160253340	3	2	131	1	0	0	0	0	1	0	0	0	8432	1435	50	5	1369	5	KPNA4	3	160253340	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	215767	160253340	37769090	88	47004										
SI	6476	broad.mit.edu	37	chr3	164735787	164735787	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgctgttgagtaagaaaacaCcatgagcattgccctcctct	8	11	1	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:164735787C>A	uc003fei.2	-	29	3553	c.3491G>T	c.(3490-3492)GGT>GTT	p.G1164V		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1164	Sucrase.|Lumenal.				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)	TAAGAAAACACCATGAGCATT	0.318										HNSCC(35;0.089)			55	239	---	---	---	---	PASS	A	164735787	A	A	164735787	3	1	131	1	0	0	0	0	1	0	0	0	14297	507	18	3	2072	3	SI	3	164735787	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	4482447	164735787	33286643	89	47005										
MECOM	2122	broad.mit.edu	37	chr3	168833655	168833656	+	Frame_Shift_Ins	INS	-	A	A													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gaaccaaagtatttttcagcINSaatagaagcaatagccttta							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:168833655_168833656insA	uc003ffi.3	-	7	1709_1710	c.1440_1441insT	c.(1438-1443)ATTGCTfs	p.I480fs	MECOM_uc010hwk.1_Frame_Shift_Ins_p.I503fs|MECOM_uc003ffj.3_Frame_Shift_Ins_p.I545fs|MECOM_uc011bpi.1_Frame_Shift_Ins_p.I481fs|MECOM_uc003ffn.3_Frame_Shift_Ins_p.I480fs|MECOM_uc003ffk.2_Frame_Shift_Ins_p.I480fs|MECOM_uc003ffl.2_Frame_Shift_Ins_p.I640fs|MECOM_uc011bpj.1_Frame_Shift_Ins_p.I668fs|MECOM_uc011bpk.1_Frame_Shift_Ins_p.I470fs|MECOM_uc010hwn.2_Frame_Shift_Ins_p.I668fs	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	480_481					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						TATTTTTCAGCAATAGAAGCAA	0.426													449	216	---	---	---	---		A	168833656	A	A	168833655	7	5	131	1	0	1	1	0	0	0	0	0	9422	710	25	0	1754	0	MECOM	3	168833655	Frame_Shift_Ins	INS	-	TCGA-60-2722-01A-01D-1522-08	4097868	168833655	29188775	90	47006										
EIF5A2	56648	broad.mit.edu	37	chr3	170624845	170624845	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aaggacaaatatcttcatatTttttgcccgtgaaaatatca	5	7	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:170624845T>G	uc003fhd.2	-	3	333	c.203A>C	c.(202-204)AAA>ACA	p.K68T		NM_020390	NP_065123	Q9GZV4	IF5A2_HUMAN	eIF-5A2 protein	68					mRNA transport|peptidyl-lysine modification to hypusine|polyamine homeostasis|positive regulation of cell proliferation|positive regulation of translational elongation|positive regulation of translational termination|post-translational protein modification|protein transport|spermatogenesis|translational frameshifting|transmembrane transport	cytosol|endoplasmic reticulum membrane|nuclear pore	protein binding|ribosome binding|translation elongation factor activity				0	all_cancers(22;1.61e-19)|all_lung(20;1.59e-15)|Lung NSC(18;7.08e-15)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;9.8e-16)|Lung(28;4.28e-15)			ATCTTCATATTTTTTGCCCGT	0.343													54	255	---	---	---	---	PASS	G	170624845	G	G	170624845	3	3	131	1	0	0	0	0	1	0	0	0	5042	1841	64	5	270	5	EIF5A2	3	170624845	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	1791190	170624845	27397585	91	47007										
TNIK	23043	broad.mit.edu	37	chr3	170843853	170843853	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gttcagagcctcctgaaaccCagagaggccctttgtgggct	12	12	1	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:170843853C>T	uc003fhh.2	-	17	2206	c.1861G>A	c.(1861-1863)GGG>AGG	p.G621R	TNIK_uc003fhi.2_Missense_Mutation_p.G566R|TNIK_uc003fhj.2_Missense_Mutation_p.G592R|TNIK_uc003fhk.2_Missense_Mutation_p.G621R|TNIK_uc003fhl.2_Missense_Mutation_p.G537R|TNIK_uc003fhm.2_Missense_Mutation_p.G566R|TNIK_uc003fhn.2_Missense_Mutation_p.G592R|TNIK_uc003fho.2_Missense_Mutation_p.G537R	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	621	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			TCCTGAAACCCAGAGAGGCCC	0.572													52	363	---	---	---	---	PASS	T	170843853	T	T	170843853	3	4	131	1	0	0	0	0	1	0	0	0	16310	594	21	3	2289	3	TNIK	3	170843853	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	219008	170843853	27178577	92	47008										
CHRD	8646	broad.mit.edu	37	chr3	184105818	184105818	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccgactgctgcaaacagtgtCcaggtgagagaggtggctga	15	9	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:184105818C>T	uc003fov.2	+	20	2797	c.2551C>T	c.(2551-2553)CCA>TCA	p.P851S	CHRD_uc003fow.2_Missense_Mutation_p.P481S|CHRD_uc003fox.2_Missense_Mutation_p.P851S|CHRD_uc003foy.2_Missense_Mutation_p.P481S|CHRD_uc010hyc.2_Missense_Mutation_p.P441S|CHRD_uc011brr.1_Missense_Mutation_p.P393S	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	851					BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CAAACAGTGTCCAGGTGAGAG	0.602													14	75	---	---	---	---	PASS	T	184105818	T	T	184105818	3	4	131	1	0	0	0	0	1	0	0	0	3372	855	30	2	2629	2	CHRD	3	184105818	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	13261965	184105818	13916612	93	47009										
KNG1	3827	broad.mit.edu	37	chr3	186450437	186450437	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	caactttctatttcaagattGacaatgtgaaaaaagcaaga	6	6	2	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:186450437G>T	uc011bsa.1	+	7	1116	c.904G>T	c.(904-906)GAC>TAC	p.D302Y	KNG1_uc003fqr.2_Missense_Mutation_p.D302Y	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	302	Cystatin 3.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	TTTCAAGATTGACAATGTGAA	0.398													108	597	---	---	---	---	PASS	T	186450437	T	T	186450437	3	4	131	1	0	0	0	0	1	0	0	0	8427	1290	45	2	930	2	KNG1	3	186450437	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	2344619	186450437	11571993	94	47010										
MASP1	5648	broad.mit.edu	37	chr3	186937970	186937970	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcaccccaggacacagtgccCaccaggtaccactggcctct	8	18	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr3:186937970C>T	uc003frh.1	-	16	2321	c.1989G>A	c.(1987-1989)GTG>GTA	p.V663V		NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	663	Peptidase S1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		ACACAGTGCCCACCAGGTACC	0.562											OREG0015972	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	58	169	---	---	---	---	PASS	T	186937970	T	T	186937970	2	4	131	1	0	0	0	0	0	0	0	1	9322	581	21	3		3	MASP1	3	186937970	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	487533	186937970	11084460	95	47011										
CORIN	10699	broad.mit.edu	37	chr4	47667114	47667114	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	accaaaatggtgcaagaaaaGaacatgaggtatttataaca	8	5	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:47667114G>A	uc003gxm.2	-	11	1617	c.1524C>T	c.(1522-1524)TTC>TTT	p.F508F	CORIN_uc011bzf.1_Silent_p.F369F|CORIN_uc011bzg.1_Silent_p.F441F|CORIN_uc011bzh.1_Silent_p.F471F|CORIN_uc011bzi.1_Silent_p.F471F	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	508	Extracellular (Potential).|FZ 2.				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						TGCAAGAAAAGAACATGAGGT	0.418													53	87	---	---	---	---	PASS	A	47667114	A	A	47667114	2	1	131	1	0	0	0	0	0	0	0	1	3752	933	33	2		2	CORIN	4	47667114	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08		47667114	143487162	96	47012										
AASDH	132949	broad.mit.edu	37	chr4	57248730	57248730	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gacggtggtgaatctggctcGataggtacataagcagccgg	15	8	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:57248730G>T	uc003hbn.2	-	3	417	c.264C>A	c.(262-264)ATC>ATA	p.I88I	AASDH_uc010ihb.2_5'UTR|AASDH_uc011caa.1_Intron|AASDH_uc003hbo.2_5'UTR|AASDH_uc011cab.1_5'UTR|AASDH_uc010ihc.2_Silent_p.I88I|AASDH_uc003hbp.2_Silent_p.I88I|AASDH_uc003hbq.1_Silent_p.I88I	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	88					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				AATCTGGCTCGATAGGTACAT	0.323													3	48	---	---	---	---	PASS	T	57248730	T	T	57248730	2	4	131	1	0	0	0	0	0	0	0	1	22	1048	37	2		2	AASDH	4	57248730	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	9581616	57248730	133905546	97	47013										
UGT2B10	7365	broad.mit.edu	37	chr4	69696583	69696583	+	Nonsense_Mutation	SNP	G	T	T													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttgctagaaaaggaaagaagGgaaaaagggattagttatat							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:69696583G>T	uc003hee.2	+	6	1598	c.1573G>T	c.(1573-1575)GGA>TGA	p.G525*	UGT2B10_uc011cam.1_Nonsense_Mutation_p.G441*	NM_001075	NP_001066	P36537	UDB10_HUMAN	UDP glucuronosyltransferase 2B10 isoform 1	525					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						AGGAAAGAAGGGAAAAAGGGA	0.378													35	295	---	---	---	---	PASS	T	69696583	T	T	69696583	4	4	131	1	0	0	0	0	0	1	0	0	16953	1233	43	3	1595	3	UGT2B10	4	69696583	Nonsense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	12447853	69696583	121457693	98	47014	867	2								
UGT2B10	7365	broad.mit.edu	37	chr4	69696584	69696584	+	Missense_Mutation	SNP	G	T	T													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgctagaaaaggaaagaaggGaaaaagggattagttatatc							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:69696584G>T	uc003hee.2	+	6	1599	c.1574G>T	c.(1573-1575)GGA>GTA	p.G525V	UGT2B10_uc011cam.1_Missense_Mutation_p.G441V	NM_001075	NP_001066	P36537	UDB10_HUMAN	UDP glucuronosyltransferase 2B10 isoform 1	525					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						GGAAAGAAGGGAAAAAGGGAT	0.378													38	290	---	---	---	---	PASS	T	69696584	T	T	69696584	3	4	131	1	0	0	0	0	1	0	0	0	16953	1174	41	2	1596	2	UGT2B10	4	69696584	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	1	69696584	121457692	99	47015	867	2								
RUFY3	22902	broad.mit.edu	37	chr4	71628293	71628293	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	catgaacatggccaagctgaGtatcaagggcttgattgaat	11	7	1	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:71628293G>T	uc003hfq.2	+	2	831	c.236G>T	c.(235-237)AGT>ATT	p.S79I	RUFY3_uc003hfp.3_Missense_Mutation_p.S139I|RUFY3_uc011cax.1_Missense_Mutation_p.S97I|RUFY3_uc003hfr.2_Missense_Mutation_p.S79I|RUFY3_uc011cay.1_Missense_Mutation_p.S15I	NM_014961	NP_055776	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 2	79					negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			GCCAAGCTGAGTATCAAGGGC	0.468													170	793	---	---	---	---	PASS	T	71628293	T	T	71628293	3	4	131	1	0	0	0	0	1	0	0	0	13740	1029	36	3	604	3	RUFY3	4	71628293	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	1931709	71628293	119525983	100	47016										
ADAMTS3	9508	broad.mit.edu	37	chr4	73280574	73280574	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	catgtctatgggagcctgttCtacagctgatctcttgtaga	10	9	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:73280574C>G	uc003hgk.1	-	4	656	c.619G>C	c.(619-621)GAA>CAA	p.E207Q		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	207					collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GGAGCCTGTTCTACAGCTGAT	0.363													70	349	---	---	---	---	PASS	G	73280574	G	G	73280574	3	3	131	1	0	0	0	0	1	0	0	0	267	922	32	2	3074	2	ADAMTS3	4	73280574	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1652281	73280574	117873702	101	47017										
FRAS1	80144	broad.mit.edu	37	chr4	79301038	79301038	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gcactcccaccaatggtcagCtagtgctctcaagaaatgga	9	12	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:79301038C>A	uc003hlb.2	+	27	3891	c.3451C>A	c.(3451-3453)CTA>ATA	p.L1151I	FRAS1_uc003hkw.2_Missense_Mutation_p.L1151I	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	1150	CSPG 1.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						CAATGGTCAGCTAGTGCTCTC	0.473													35	183	---	---	---	---	PASS	A	79301038	A	A	79301038	3	1	131	1	0	0	0	0	1	0	0	0	6042	796	28	3	3557	3	FRAS1	4	79301038	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	6020464	79301038	111853238	102	47018										
FAM190A	401145	broad.mit.edu	37	chr4	91230018	91230018	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	actataaattttctaagccaGttctacagagccaatccatt	4	10	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:91230018G>T	uc003hsv.3	+	2	923	c.583G>T	c.(583-585)GTT>TTT	p.V195F	FAM190A_uc003hsu.3_Missense_Mutation_p.V195F|FAM190A_uc010ikv.2_RNA|FAM190A_uc003hsw.2_Missense_Mutation_p.V195F	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1	195										large_intestine(1)|ovary(1)	2						TTCTAAGCCAGTTCTACAGAG	0.398													74	61	---	---	---	---	PASS	T	91230018	T	T	91230018	3	4	131	1	0	0	0	0	1	0	0	0	5521	1029	36	3	585	3	FAM190A	4	91230018	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	11928980	91230018	99924258	103	47019										
DDIT4L	115265	broad.mit.edu	37	chr4	101109190	101109190	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctcagggacaaggacctttgAgcaaccaagtttagtttgct	10	9	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:101109190A>G	uc003hvq.2	-	3	429	c.226T>C	c.(226-228)TCA>CCA	p.S76P		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	76					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		AGGACCTTTGAGCAACCAAGT	0.463													5	203	---	---	---	---	PASS	G	101109190	G	G	101109190	3	3	131	1	0	0	0	0	1	0	0	0	4332	304	11	5	359	5	DDIT4L	4	101109190	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	9879172	101109190	90045086	104	47020										
QRFPR	84109	broad.mit.edu	37	chr4	122250738	122250738	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ataacaaactgcagacaaaaCattttttttgaagttttcat	4	6	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:122250738C>T	uc010inj.1	-	6	1406	c.1027G>A	c.(1027-1029)GTT>ATT	p.V343I	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_3'UTR	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	343	Cytoplasmic (Potential).					plasma membrane	neuropeptide Y receptor activity				0						GCAGACAAAACATTTTTTTTG	0.328													67	22	---	---	---	---	PASS	T	122250738	T	T	122250738	3	4	131	1	0	0	0	0	1	0	0	0	12878	478	17	3	272	3	QRFPR	4	122250738	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	21141548	122250738	68903538	105	47021										
ANKRD50	57182	broad.mit.edu	37	chr4	125593263	125593263	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	caagaagtttggagaggataTctaacttgcgttgaaaatct	10	5	2	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:125593263T>C	uc003ifg.3	-	3	1435	c.1169A>G	c.(1168-1170)GAT>GGT	p.D390G	ANKRD50_uc011cgo.1_Missense_Mutation_p.D211G|ANKRD50_uc010inw.2_Missense_Mutation_p.D390G	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	390										central_nervous_system(1)	1						GGAGAGGATATCTAACTTGCG	0.393													6	183	---	---	---	---	PASS	C	125593263	C	C	125593263	3	2	131	1	0	0	0	0	1	0	0	0	677	1435	50	5	3124	5	ANKRD50	4	125593263	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	3342525	125593263	65561013	106	47022										
FAT4	79633	broad.mit.edu	37	chr4	126237699	126237699	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cctgggtccacggggccgagCcgcgccaggtgttccaagtg	16	14	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:126237699C>T	uc003ifj.3	+	1	133	c.133C>T	c.(133-135)CCG>TCG	p.P45S		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	45	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CGGGGCCGAGCCGCGCCAGGT	0.622											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	37	---	---	---	---	PASS	T	126237699	T	T	126237699	3	4	131	1	0	0	0	0	1	0	0	0	5692	739	26	3	135	3	FAT4	4	126237699	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	644436	126237699	64916577	107	47023										
FBXW7	55294	broad.mit.edu	37	chr4	153247289	153247289	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gccatcatattgaacacagcGgactgctgcaacatgaccca	8	13	1	2	rs149680468		TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:153247289G>C	uc003ims.2	-	10	1662	c.1513C>G	c.(1513-1515)CGC>GGC	p.R505G	FBXW7_uc011cii.1_Missense_Mutation_p.R505G|FBXW7_uc003imt.2_Missense_Mutation_p.R505G|FBXW7_uc011cih.1_Missense_Mutation_p.R329G|FBXW7_uc003imq.2_Missense_Mutation_p.R425G|FBXW7_uc003imr.2_Missense_Mutation_p.R387G	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	505	WD 4.		R -> L (in an ovarian cancer cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R505C(36)|p.R505L(6)|p.R505G(4)|p.R425C(2)|p.R425G(2)|p.R266G(2)|p.R505H(2)|p.R505S(1)|p.R505P(1)|p.R266C(1)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TGAACACAGCGGACTGCTGCA	0.468			Mis|N|D|F		colorectal|endometrial|T-ALL								78	21	---	---	---	---	PASS	C	153247289	C	C	153247289	3	2	131	1	0	0	0	0	1	0	0	0	5769	1116	39	4	622	4	FBXW7	4	153247289	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	27009590	153247289	37906987	108	47024										
NPY1R	4886	broad.mit.edu	37	chr4	164246622	164246622	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gttgaagaagaactgcaagtCtctctggaagtttttgttca	10	6	3	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:164246622C>G	uc003iqm.1	-	3	1254	c.988G>C	c.(988-990)GAC>CAC	p.D330H	NPY1R_uc011cjj.1_Missense_Mutation_p.D87H	NM_000909	NP_000900	P25929	NPY1R_HUMAN	neuropeptide Y receptor Y1	330	Cytoplasmic (Potential).				inhibition of adenylate cyclase activity by G-protein signaling pathway|outflow tract morphogenesis	integral to plasma membrane	protein binding			lung(1)|pancreas(1)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				AACTGCAAGTCTCTCTGGAAG	0.423													79	27	---	---	---	---	PASS	G	164246622	G	G	164246622	3	3	131	1	0	0	0	0	1	0	0	0	10608	913	32	2	170	2	NPY1R	4	164246622	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	10999333	164246622	26907654	109	47025										
GPM6A	2823	broad.mit.edu	37	chr4	176556084	176556084	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	atgcattgagccgctctttgGagcgagtagagtggatgtca	14	7	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:176556084G>T	uc003iuf.2	-	7	1613	c.809C>A	c.(808-810)TCC>TAC	p.S270Y	GPM6A_uc011ckj.1_Missense_Mutation_p.S263Y|GPM6A_uc003iug.2_Missense_Mutation_p.S270Y|GPM6A_uc003iuh.2_Missense_Mutation_p.S259Y	NM_201591	NP_963885	P51674	GPM6A_HUMAN	glycoprotein M6A isoform 2	270	Cytoplasmic (Potential).					cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)		CCGCTCTTTGGAGCGAGTAGA	0.468													62	24	---	---	---	---	PASS	T	176556084	T	T	176556084	3	4	131	1	0	0	0	0	1	0	0	0	6615	1174	41	2	31	2	GPM6A	4	176556084	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	12309462	176556084	14598192	110	47026										
HELT	391723	broad.mit.edu	37	chr4	185940564	185940564	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	acccccgtttctcataaagtGatagaaaagcggaggaggga	12	8	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr4:185940564G>C	uc011ckq.1	+	2	183	c.183G>C	c.(181-183)GTG>GTC	p.V61V	HELT_uc011cko.1_Silent_p.V17V|HELT_uc003ixa.3_Silent_p.V17V|HELT_uc011ckp.1_5'UTR	NM_001029887	NP_001025058	A6NFD8	HELT_HUMAN	HES/HEY-like transcription factor	61	Basic motif.						DNA binding				0		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;8.92e-26)|Epithelial(43;3.02e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-11)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		CTCATAAAGTGATAGAAAAGC	0.572													12	2	---	---	---	---	PASS	C	185940564	C	C	185940564	2	2	131	1	0	0	0	0	0	0	0	1	7048	1277	45	2		2	HELT	4	185940564	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	9384480	185940564	5213712	111	47027										
SRD5A1	6715	broad.mit.edu	37	chr5	6652021	6652021	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctgttggcgtgtacaatggcGattatgttctgtacctgtaa	11	7	1	0	rs142854865	byFrequency	TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:6652021G>A	uc003jdw.2	+	2	550	c.360G>A	c.(358-360)GCG>GCA	p.A120A	SRD5A1_uc011cml.1_RNA|SRD5A1_uc011cmm.1_Intron	NM_001047	NP_001038	P18405	S5A1_HUMAN	steroid-5-alpha-reductase 1	120	Helical; (Potential).				androgen biosynthetic process|cell differentiation|sex determination|sex differentiation	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|electron carrier activity				0					Dutasteride(DB01126)|Finasteride(DB01216)	GTACAATGGCGATTATGTTCT	0.423													87	67	---	---	---	---	PASS	A	6652021	A	A	6652021	2	1	131	1	0	0	0	0	0	0	0	1	15137	1045	37	2		2	SRD5A1	5	6652021	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08		6652021	174263239	112	47028										
CTNND2	1501	broad.mit.edu	37	chr5	11199612	11199612	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtcttgcggagtaacctcacCagtgctgggatgccaccaca	11	13	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:11199612C>G	uc003jfa.1	-	11	2068	c.1923G>C	c.(1921-1923)CTG>CTC	p.L641L	CTNND2_uc010itt.2_Silent_p.L550L|CTNND2_uc011cmy.1_Silent_p.L304L|CTNND2_uc011cmz.1_Silent_p.L208L|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Silent_p.L208L	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	641	ARM 4.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GTAACCTCACCAGTGCTGGGA	0.453													92	86	---	---	---	---	PASS	G	11199612	G	G	11199612	2	3	131	1	0	0	0	0	0	0	0	1	4020	581	21	4		4	CTNND2	5	11199612	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	4547591	11199612	169715648	113	47029										
CDH10	1008	broad.mit.edu	37	chr5	24535284	24535284	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gatgttcacagtggttgtccCcgataagcctcccatctggc	10	13	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:24535284C>G	uc003jgr.1	-	5	1083	c.751G>C	c.(751-753)GGG>CGG	p.G251R	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	251	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		GTGGTTGTCCCCGATAAGCCT	0.512										HNSCC(23;0.051)			40	78	---	---	---	---	PASS	G	24535284	G	G	24535284	3	3	131	1	0	0	0	0	1	0	0	0	3096	623	22	4	1647	4	CDH10	5	24535284	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	13335672	24535284	156379976	114	47030										
AMACR	23600	broad.mit.edu	37	chr5	34004781	34004781	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccaccaccagcaaagtcagcCaggagattcagcggggcata	11	13	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:34004781C>A	uc003jig.2	-	3	532	c.450G>T	c.(448-450)CTG>CTT	p.L150L	AMACR_uc003jih.2_Intron|AMACR_uc003jii.2_Silent_p.L150L|AMACR_uc003jij.2_Silent_p.L150L|AMACR_uc003jil.1_Silent_p.L150L|AMACR_uc003jik.1_Intron	NM_014324	NP_055139	Q9UHK6	AMACR_HUMAN	alpha-methylacyl-CoA racemase isoform 1	150				L -> V (in Ref. 1; CAB44062).	bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	mitochondrion|peroxisomal matrix	alpha-methylacyl-CoA racemase activity				0						CAAAGTCAGCCAGGAGATTCA	0.428													31	86	---	---	---	---	PASS	A	34004781	A	A	34004781	2	1	131	1	0	0	0	0	0	0	0	1	562	581	21	3		3	AMACR	5	34004781	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	9469497	34004781	146910479	115	47031										
LMBRD2	92255	broad.mit.edu	37	chr5	36122994	36122994	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tttttcacttggatagatacTatgcttttcatcaaaatctt	4	7	4	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:36122994T>C	uc003jkb.1	-	8	1307	c.892A>G	c.(892-894)AGT>GGT	p.S298G		NM_001007527	NP_001007528	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	298	Cytoplasmic (Potential).					integral to membrane					0	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGATAGATACTATGCTTTTCA	0.254													28	43	---	---	---	---	PASS	C	36122994	C	C	36122994	3	2	131	1	0	0	0	0	1	0	0	0	8843	1522	53	5	1239	5	LMBRD2	5	36122994	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	2118213	36122994	144792266	116	47032										
C6	729	broad.mit.edu	37	chr5	41143068	41143068	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agttggtttccacccttgaaGcactgtgggggcaataggca	13	9	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:41143068G>T	uc003jmk.2	-	18	2874	c.2664C>A	c.(2662-2664)TGC>TGA	p.C888*	C6_uc003jml.1_Nonsense_Mutation_p.C888*	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	888	Complement control factor I module 2.|C5b-binding domain.|Kazal-like 2.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				CACCCTTGAAGCACTGTGGGG	0.433													34	67	---	---	---	---	PASS	T	41143068	T	T	41143068	4	4	131	1	0	0	0	0	0	1	0	0	2315	963	34	3	144	3	C6	5	41143068	Nonsense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	5020074	41143068	139772192	117	47033										
ATG10	83734	broad.mit.edu	37	chr5	81549141	81549141	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cttgtttcctaggaatgtcaActatatcacatcatggctga	7	9	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:81549141A>G	uc003khs.2	+	8	989	c.560A>G	c.(559-561)AAC>AGC	p.N187S	ATG10_uc003khr.2_Missense_Mutation_p.N187S|ATG10_uc010jas.2_Missense_Mutation_p.N151S	NM_001131028	NP_001124500	Q9H0Y0	ATG10_HUMAN	APG10 autophagy 10-like	187					autophagy in response to ER overload|positive regulation of protein modification process|protein lipidation|protein modification by small protein conjugation|protein transport	cytoplasm	Atg12 ligase activity|protein binding				0		Lung NSC(167;0.0258)|all_lung(232;0.0294)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;9.94e-41)|Epithelial(54;6.3e-36)|all cancers(79;2.31e-30)		AGGAATGTCAACTATATCACA	0.423													52	62	---	---	---	---	PASS	G	81549141	G	G	81549141	3	3	131	1	0	0	0	0	1	0	0	0	1089	43	2	5	582	5	ATG10	5	81549141	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	40406073	81549141	99366119	118	47034										
HAPLN1	1404	broad.mit.edu	37	chr5	82937507	82937507	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	attttccaggcagcaaatatCtggcccacttttgcaatctg	7	11	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:82937507C>A	uc003kim.2	-	4	944	c.873G>T	c.(871-873)CAG>CAT	p.Q291H	HAPLN1_uc003kin.2_Missense_Mutation_p.Q291H	NM_001884	NP_001875	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	291	Link 2.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)		CAGCAAATATCTGGCCCACTT	0.532													89	236	---	---	---	---	PASS	A	82937507	A	A	82937507	3	1	131	1	0	0	0	0	1	0	0	0	6954	912	32	2	195	2	HAPLN1	5	82937507	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1388366	82937507	97977753	119	47035										
MCTP1	79772	broad.mit.edu	37	chr5	94224657	94224657	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aatcccacatctttcaggttGtgaaatatcctcaatgggct	7	10	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:94224657G>T	uc003kkx.2	-	12	1860	c.1860C>A	c.(1858-1860)CAC>CAA	p.H620Q	MCTP1_uc003kkv.2_Missense_Mutation_p.H399Q|MCTP1_uc003kkw.2_Missense_Mutation_p.H353Q|MCTP1_uc003kkz.2_Missense_Mutation_p.H281Q|MCTP1_uc003kku.2_Missense_Mutation_p.H136Q	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L	620	C2 3.				calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		CTTTCAGGTTGTGAAATATCC	0.438													66	53	---	---	---	---	PASS	T	94224657	T	T	94224657	3	4	131	1	0	0	0	0	1	0	0	0	9400	1368	48	3	1187	3	MCTP1	5	94224657	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	11287150	94224657	86690603	120	47036										
SLCO4C1	353189	broad.mit.edu	37	chr5	101599460	101599460	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	catagccaatagcagggcctAagattgacatagcataaccg	9	10	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:101599460A>G	uc003knm.2	-	4	1114	c.827T>C	c.(826-828)TTA>TCA	p.L276S		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	276	Helical; Name=5; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		AGCAGGGCCTAAGATTGACAT	0.368													77	61	---	---	---	---	PASS	G	101599460	G	G	101599460	3	3	131	1	0	0	0	0	1	0	0	0	14730	372	13	5	1387	5	SLCO4C1	5	101599460	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	7374803	101599460	79315800	121	47037										
GIN1	54826	broad.mit.edu	37	chr5	102440247	102440247	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtagtttatttgtcttacctGttgaatgaattcatctcttt	6	6	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:102440247G>A	uc003koa.1	-	4	719	c.637C>T	c.(637-639)CAG>TAG	p.Q213*	GIN1_uc003kob.1_Nonsense_Mutation_p.Q66*|GIN1_uc003koc.1_Nonsense_Mutation_p.Q213*	NM_017676	NP_060146	Q9NXP7	GIN1_HUMAN	zinc finger, H2C2 domain containing	213	Integrase catalytic.				DNA integration		DNA binding			ovary(1)|skin(1)	2		all_cancers(142;3.23e-07)|all_epithelial(76;3.64e-10)|Prostate(80;0.00914)|Ovarian(225;0.0139)|Lung NSC(167;0.0212)|Colorectal(57;0.0249)|all_lung(232;0.0283)		Epithelial(69;3.57e-14)|COAD - Colon adenocarcinoma(37;0.00794)		TGTCTTACCTGTTGAATGAAT	0.338													8	28	---	---	---	---	PASS	A	102440247	A	A	102440247	4	1	131	1	0	0	0	0	0	1	0	0	6386	1386	48	3	951	3	GIN1	5	102440247	Nonsense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	840787	102440247	78475013	122	47038										
TSLP	85480	broad.mit.edu	37	chr5	110407609	110407609	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	atgttcccttttgccttactAtatgttctgtcagtttcttt	5	9	3	0	rs149732987	byFrequency	TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:110407609A>G	uc003kpb.2	+	1	220	c.21A>G	c.(19-21)CTA>CTG	p.L7L	TSLP_uc003kpa.2_Intron|TSLP_uc010jbt.1_5'Flank	NM_033035	NP_149024	Q969D9	TSLP_HUMAN	thymic stromal lymphopoietin isoform 1	7				MFPFALLYVLS -> MKCLGQSKKEE (in Ref. 3; AAH40592).		extracellular space	cytokine activity				0		all_cancers(142;2.72e-05)|all_epithelial(76;4.39e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0417)|Ovarian(225;0.0443)|Colorectal(57;0.0464)|all_lung(232;0.0507)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.24e-08)|Epithelial(69;1.54e-07)|all cancers(49;1.73e-05)|COAD - Colon adenocarcinoma(37;0.109)		TTGCCTTACTATATGTTCTGT	0.418													119	77	---	---	---	---	PASS	G	110407609	G	G	110407609	2	3	131	1	0	0	0	0	0	0	0	1	16625	436	16	5		5	TSLP	5	110407609	Silent	SNP	A	TCGA-60-2722-01A-01D-1522-08	7967362	110407609	70507651	123	47039										
WDR36	134430	broad.mit.edu	37	chr5	110443093	110443093	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aaatctacaataggcgcttaCtttctcaagccaaaagagtt	6	9	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:110443093C>G	uc003kpd.2	+	12	1566	c.1449C>G	c.(1447-1449)TAC>TAG	p.Y483*	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	483					response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		TAGGCGCTTACTTTCTCAAGC	0.383													48	33	---	---	---	---	PASS	G	110443093	G	G	110443093	4	3	131	1	0	0	0	0	0	1	0	0	17287	576	20	4	1495	4	WDR36	5	110443093	Nonsense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	35484	110443093	70472167	124	47040										
IL3	3562	broad.mit.edu	37	chr5	131396427	131396427	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gcctgcccgtcctgctcctgCtccaactcctggtccgcccc	8	22	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:131396427C>T	uc003kwe.1	+	1	81	c.28C>T	c.(28-30)CTC>TTC	p.L10F		NM_000588	NP_000579	P08700	IL3_HUMAN	interleukin 3 precursor	10					cell-cell signaling|immune response|nervous system development|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of survival gene product expression|positive regulation of tyrosine phosphorylation of Stat5 protein	extracellular space	cytokine activity|growth factor activity|interleukin-3 receptor binding			ovary(2)|central_nervous_system(1)	3		all_cancers(142;7.42e-12)|Lung NSC(810;4.25e-07)|all_lung(232;1.93e-06)|Prostate(281;0.00741)|Breast(839;0.0544)|Lung SC(612;0.122)|Ovarian(839;0.223)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	GBM - Glioblastoma multiforme(465;0.0161)|Lung(113;0.105)	Amlexanox(DB01025)	CCTGCTCCTGCTCCAACTCCT	0.567													46	12	---	---	---	---	PASS	T	131396427	T	T	131396427	3	4	131	1	0	0	0	0	1	0	0	0	7689	797	28	3	30	3	IL3	5	131396427	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	20953334	131396427	49518833	125	47041										
GABRA1	2554	broad.mit.edu	37	chr5	161318025	161318025	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	caagtctccttctggctcaaCagagagtctgtaccagcaag	9	12	4	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:161318025C>A	uc010jiw.2	+	9	1293	c.825C>A	c.(823-825)AAC>AAA	p.N275K	GABRA1_uc010jix.2_Missense_Mutation_p.N275K|GABRA1_uc010jiy.2_Missense_Mutation_p.N275K|GABRA1_uc003lyx.3_Missense_Mutation_p.N275K|GABRA1_uc010jiz.2_Missense_Mutation_p.N275K|GABRA1_uc010jja.2_Missense_Mutation_p.N275K|GABRA1_uc010jjb.2_Missense_Mutation_p.N275K	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	275					gamma-aminobutyric acid signaling pathway|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			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	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;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	TCTGGCTCAACAGAGAGTCTG	0.413													55	24	---	---	---	---	PASS	A	161318025	A	A	161318025	3	1	131	1	0	0	0	0	1	0	0	0	6160	477	17	3	851	3	GABRA1	5	161318025	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	29921598	161318025	19597235	126	47042										
BNIP1	662	broad.mit.edu	37	chr5	172585748	172585748	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtgaaccttccaattccagcAatcaggcctcatggaggaaa	9	11	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr5:172585748A>C	uc003mcj.3	+	4	375	c.271A>C	c.(271-273)AAT>CAT	p.N91H	BNIP1_uc003mci.3_Missense_Mutation_p.N134H|BNIP1_uc003mck.3_Intron|BNIP1_uc003mcl.3_Intron	NM_001205	NP_001196	Q12981	SEC20_HUMAN	BCL2/adenovirus E1B 19kD interacting protein 1	91	Cytoplasmic (Potential).				anti-apoptosis|apoptosis|endoplasmic reticulum membrane fusion|endoplasmic reticulum organization|induction of apoptosis|vesicle-mediated transport	integral to endoplasmic reticulum membrane|nuclear envelope|SNARE complex	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CAATTCCAGCAATCAGGCCTC	0.478													33	11	---	---	---	---	PASS	C	172585748	C	C	172585748	3	2	131	1	0	0	0	0	1	0	0	0	1476	144	5	5	418	5	BNIP1	5	172585748	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	11267723	172585748	8329512	127	47043										
FAM8A1	51439	broad.mit.edu	37	chr6	17600920	17600920	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgcaggagcaggcgggctgcGaggcgcccgaagccgcggcg	20	13	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr6:17600920G>C	uc003ncc.2	+	1	403	c.280G>C	c.(280-282)GAG>CAG	p.E94Q		NM_016255	NP_057339	Q9UBU6	FA8A1_HUMAN	family with sequence similarity 8, member A1	94						integral to membrane					0	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.143)	all cancers(50;0.176)|Epithelial(50;0.204)			GGCGGGCTGCGAGGCGCCCGA	0.731													10	1	---	---	---	---	PASS	C	17600920	C	C	17600920	3	2	131	1	0	0	0	0	1	0	0	0	5649	1059	37	2	282	2	FAM8A1	6	17600920	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08		17600920	153514147	128	47044										
LRRC16A	55604	broad.mit.edu	37	chr6	25471400	25471400	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aatgttttctgttacagtccActgatgtctgtgaacagatc	8	8	2	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr6:25471400A>G	uc011djw.1	+	10	1070	c.694A>G	c.(694-696)ACT>GCT	p.T232A	LRRC16A_uc010jpx.2_Missense_Mutation_p.T232A|LRRC16A_uc010jpy.2_Missense_Mutation_p.T232A|LRRC16A_uc003nez.1_Missense_Mutation_p.T71A	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	232					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						GTTACAGTCCACTGATGTCTG	0.348													106	14	---	---	---	---	PASS	G	25471400	G	G	25471400	3	3	131	1	0	0	0	0	1	0	0	0	8971	159	6	5	732	5	LRRC16A	6	25471400	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	7870480	25471400	145643667	129	47045										
MAS1L	116511	broad.mit.edu	37	chr6	29455059	29455059	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	taagttaggaaaagtgatttTactatgttgatgcaaaaagg	10	2	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr6:29455059T>C	uc011dlq.1	-	1	621	c.621A>G	c.(619-621)GTA>GTG	p.V207V		NM_052967	NP_443199	P35410	MAS1L_HUMAN	MAS1 oncogene-like	207	Helical; Name=4; (Potential).					cytoplasm|integral to membrane|nucleus|plasma membrane	G-protein coupled receptor activity			ovary(7)|lung(2)	9						AAAGTGATTTTACTATGTTGA	0.438													98	11	---	---	---	---	PASS	C	29455059	C	C	29455059	2	2	131	1	0	0	0	0	0	0	0	1	9321	1741	61	5		5	MAS1L	6	29455059	Silent	SNP	T	TCGA-60-2722-01A-01D-1522-08	3983659	29455059	141660008	130	47046										
TNF	7124	broad.mit.edu	37	chr6	31544973	31544973	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccaatggcgtggagctgagaGataaccagctggtggtgcca	15	9	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr6:31544973G>A	uc003nui.2	+	4	530	c.361G>A	c.(361-363)GAT>AAT	p.D121N	TNF_uc003nuj.2_5'UTR	NM_000594	NP_000585	P01375	TNFA_HUMAN	tumor necrosis factor alpha	121	Extracellular (Potential).				activation of caspase activity|activation of MAPK activity|activation of MAPKKK activity|anti-apoptosis|cellular response to nicotine|chronic inflammatory response to antigenic stimulus|embryonic digestive tract development|induction of apoptosis via death domain receptors|induction of necroptosis by extracellular signals|leukocyte tethering or rolling|necrotic cell death|negative regulation of branching involved in lung morphogenesis|negative regulation of cytokine secretion involved in immune response|negative regulation of fat cell differentiation|negative regulation of interleukin-6 production|negative regulation of lipid catabolic process|negative regulation of lipid storage|negative regulation of viral genome replication|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of chemokine biosynthetic process|positive regulation of chemokine production|positive regulation of cytokine secretion|positive regulation of ERK1 and ERK2 cascade|positive regulation of fever generation|positive regulation of heterotypic cell-cell adhesion|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of membrane protein ectodomain proteolysis|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of NFAT protein import into nucleus|positive regulation of nitric oxide biosynthetic process|positive regulation of osteoclast differentiation|positive regulation of peptidyl-serine phosphorylation|positive regulation of podosome assembly|positive regulation of protein complex disassembly|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D biosynthetic process|protein import into nucleus, translocation|receptor biosynthetic process|regulation of insulin secretion|response to glucocorticoid stimulus|response to salt stress|response to virus|sequestering of triglyceride|transformed cell apoptosis|tumor necrosis factor-mediated signaling pathway	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane raft|phagocytic cup|recycling endosome	cytokine activity|identical protein binding|protease binding|transcription regulatory region DNA binding|tumor necrosis factor receptor binding			ovary(1)|pancreas(1)|skin(1)	3		Ovarian(999;0.00556)			Adalimumab(DB00051)|Adenosine(DB00640)|Amrinone(DB01427)|Atorvastatin(DB01076)|Chloroquine(DB00608)|Clenbuterol(DB01407)|Etanercept(DB00005)|Glucosamine(DB01296)|Infliximab(DB00065)|Naltrexone(DB00704)|Pranlukast(DB01411)|Procaterol(DB01366)|Saquinavir(DB01232)|Simvastatin(DB00641)|Thalidomide(DB01041)	GGAGCTGAGAGATAACCAGCT	0.632									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				19	220	---	---	---	---	PASS	A	31544973	A	A	31544973	3	1	131	1	0	0	0	0	1	0	0	0	16268	942	33	2	375	2	TNF	6	31544973	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	2089914	31544973	139570094	131	47047										
OPN5	221391	broad.mit.edu	37	chr6	47775994	47775994	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gactccattcccatacagctCtctgtggtgccaaccctact	6	16	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr6:47775994C>A	uc003ozc.2	+	5	866	c.861C>A	c.(859-861)CTC>CTA	p.L287L	OPN5_uc003ozd.2_Silent_p.L122L	NM_181744	NP_859528	Q6U736	OPN5_HUMAN	opsin 5 isoform 1	287	Extracellular (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1						CCATACAGCTCTCTGTGGTGC	0.458													314	47	---	---	---	---	PASS	A	47775994	A	A	47775994	2	1	131	1	0	0	0	0	0	0	0	1	10883	900	32	2		2	OPN5	6	47775994	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	16231021	47775994	123339073	132	47048										
COL9A1	1297	broad.mit.edu	37	chr6	70972972	70972972	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtccttgagctccaacttctCcgagttctccctggtcacct	7	16	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr6:70972972C>G	uc003pfg.3	-	19	1529	c.1370G>C	c.(1369-1371)GGA>GCA	p.G457A	COL9A1_uc003pfe.3_Missense_Mutation_p.G30A|COL9A1_uc003pff.3_Missense_Mutation_p.G214A	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	457	Triple-helical region (COL2).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						TCCAACTTCTCCGAGTTCTCC	0.328													30	7	---	---	---	---	PASS	G	70972972	G	G	70972972	3	3	131	1	0	0	0	0	1	0	0	0	3707	855	30	2	1475	2	COL9A1	6	70972972	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	23196978	70972972	100142095	133	47049										
IBTK	25998	broad.mit.edu	37	chr6	82909857	82909857	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	acatgctcactttccacgaaCctgtagatgatggactctga	8	11	2	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr6:82909857C>A	uc003pjl.1	-	21	3552	c.3025_splice	c.e21+1	p.G1009_splice	IBTK_uc011dyu.1_Splice_Site|IBTK_uc011dyv.1_Splice_Site_p.E1009_splice|IBTK_uc011dyw.1_Splice_Site_p.G808_splice|IBTK_uc010kbi.1_Splice_Site_p.G703_splice|IBTK_uc003pjm.2_Splice_Site_p.G1009_splice	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase						negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		TTTCCACGAACCTGTAGATGA	0.378													114	67	---	---	---	---	PASS	A	82909857	A	A	82909857	5	1	131	1	0	0	0	0	0	0	1	0	7476	521	18	3	1071	3	IBTK	6	82909857	Splice_Site	SNP	C	TCGA-60-2722-01A-01D-1522-08	11936885	82909857	88205210	134	47050										
LTV1	84946	broad.mit.edu	37	chr6	144181587	144181587	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	atgagcaatatgatgatgatGaaattggagctctggataat	11	3	1	5			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr6:144181587G>A	uc003qjs.2	+	7	927	c.820G>A	c.(820-822)GAA>AAA	p.E274K	LTV1_uc003qju.1_Missense_Mutation_p.E59K|C6orf94_uc010khj.2_5'UTR	NM_032860	NP_116249	Q96GA3	LTV1_HUMAN	LTV1 homolog	274										ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;2.72e-06)|GBM - Glioblastoma multiforme(68;0.0372)		TGATGATGATGAAATTGGAGC	0.328													109	41	---	---	---	---	PASS	A	144181587	A	A	144181587	3	1	131	1	0	0	0	0	1	0	0	0	9081	1291	45	2	846	2	LTV1	6	144181587	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	61271730	144181587	26933480	135	47051										
FBXO30	84085	broad.mit.edu	37	chr6	146127417	146127417	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gctcatcagctttacaagaaTggaaaactgcaccacaaacc	6	12	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr6:146127417T>A	uc003qla.2	-	2	324	c.125A>T	c.(124-126)CAT>CTT	p.H42L	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	42							ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		TTTACAAGAATGGAAAACTGC	0.433													111	31	---	---	---	---	PASS	A	146127417	A	A	146127417	3	1	131	1	0	0	0	0	1	0	0	0	5740	1464	51	5	2120	5	FBXO30	6	146127417	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	1945830	146127417	24987650	136	47052										
PDE10A	10846	broad.mit.edu	37	chr6	165832185	165832185	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcctctccaatatcaaaaagGtctgaatataactccttgtt	4	10	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr6:165832185G>T	uc003qun.2	-	12	1147	c.906C>A	c.(904-906)GAC>GAA	p.D302E	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.D232E|PDE10A_uc003quo.2_Missense_Mutation_p.D312E	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	302	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	TATCAAAAAGGTCTGAATATA	0.388													56	22	---	---	---	---	PASS	T	165832185	T	T	165832185	3	4	131	1	0	0	0	0	1	0	0	0	11630	1252	44	3	1481	3	PDE10A	6	165832185	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	19704768	165832185	5282882	137	47053										
DAGLB	221955	broad.mit.edu	37	chr7	6487437	6487437	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gaccaagtcgtcgctggcgaTggcccagcgccggccgaaga	15	14	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:6487437T>C	uc003sqa.2	-	1	207	c.37A>G	c.(37-39)ATC>GTC	p.I13V	DAGLB_uc011jwu.1_Missense_Mutation_p.I13V|DAGLB_uc003sqb.2_5'UTR|DAGLB_uc003sqc.2_5'UTR|DAGLB_uc011jwv.1_RNA|DAGLB_uc003sqd.3_Intron|DAGLB_uc011jww.1_RNA	NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1	13	Cytoplasmic (Potential).				lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		TCGCTGGCGATGGCCCAGCGC	0.672													14	11	---	---	---	---	PASS	C	6487437	C	C	6487437	3	2	131	1	0	0	0	0	1	0	0	0	4227	1464	51	5	2041	5	DAGLB	7	6487437	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08		6487437	152651226	138	47054										
TMEM106B	54664	broad.mit.edu	37	chr7	12258089	12258089	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttctttcacatttagggcaaGaaaaccaactggtggcattg	9	8	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:12258089G>A	uc011jxk.1	+	4	623	c.223G>A	c.(223-225)GAA>AAA	p.E75K	TMEM106B_uc003ssh.2_Missense_Mutation_p.E75K	NM_018374	NP_060844	Q9NUM4	T106B_HUMAN	transmembrane protein 106B	75						integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (126;0.185)		TTTAGGGCAAGAAAACCAACT	0.338													35	62	---	---	---	---	PASS	A	12258089	A	A	12258089	3	1	131	1	0	0	0	0	1	0	0	0	16018	943	33	2	229	2	TMEM106B	7	12258089	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	5770652	12258089	146880574	139	47055										
DNAH11	8701	broad.mit.edu	37	chr7	21737761	21737761	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gttagttgctgaaggttttgTggatgcgcgtgcattagccc	14	7	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:21737761T>A	uc003svc.2	+	37	6162	c.6131T>A	c.(6130-6132)GTG>GAG	p.V2044E		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2044	AAA 1 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GAAGGTTTTGTGGATGCGCGT	0.413									Kartagener_syndrome				39	45	---	---	---	---	PASS	A	21737761	A	A	21737761	3	1	131	1	0	0	0	0	1	0	0	0	4599	1696	59	5	6274	5	DNAH11	7	21737761	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	9479672	21737761	137400902	140	47056										
BBS9	27241	broad.mit.edu	37	chr7	33192390	33192390	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	caaaaacaggagatggagctCaagccgaagatttgcttcta	10	8	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:33192390C>G	uc003tdn.1	+	3	703	c.190C>G	c.(190-192)CAA>GAA	p.Q64E	BBS9_uc003tdo.1_Missense_Mutation_p.Q64E|BBS9_uc003tdp.1_Missense_Mutation_p.Q64E|BBS9_uc003tdq.1_Missense_Mutation_p.Q64E|BBS9_uc010kwn.1_RNA|BBS9_uc011kan.1_Missense_Mutation_p.Q64E	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	64					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			AGATGGAGCTCAAGCCGAAGA	0.383									Bardet-Biedl_syndrome				64	96	---	---	---	---	PASS	G	33192390	G	G	33192390	3	3	131	1	0	0	0	0	1	0	0	0	1342	827	29	2	196	2	BBS9	7	33192390	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	11454629	33192390	125946273	141	47057										
HECW1	23072	broad.mit.edu	37	chr7	43519310	43519310	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	catctaactcaccgacagcaCctccagaggctccgaagtta	7	15	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:43519310C>G	uc003tid.1	+	17	3806	c.3201C>G	c.(3199-3201)CAC>CAG	p.H1067Q	HECW1_uc011kbi.1_Missense_Mutation_p.H1033Q	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1067					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						ACCGACAGCACCTCCAGAGGC	0.552													126	180	---	---	---	---	PASS	G	43519310	G	G	43519310	3	3	131	1	0	0	0	0	1	0	0	0	7042	506	18	4	3259	4	HECW1	7	43519310	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	10326920	43519310	115619353	142	47058										
PCLO	27445	broad.mit.edu	37	chr7	82579563	82579563	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tctgtggcatcttcgtcatcCgtttgtacaccactgtccac	7	14	3	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:82579563C>A	uc003uhx.2	-	6	10630	c.10341G>T	c.(10339-10341)ACG>ACT	p.T3447T	PCLO_uc003uhv.2_Silent_p.T3447T|PCLO_uc010lec.2_Silent_p.T412T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3378					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CTTCGTCATCCGTTTGTACAC	0.438													53	86	---	---	---	---	PASS	A	82579563	A	A	82579563	2	1	131	1	0	0	0	0	0	0	0	1	11583	639	23	1		1	PCLO	7	82579563	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	39060253	82579563	76559100	143	47059										
TECPR1	25851	broad.mit.edu	37	chr7	97860615	97860615	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tccgctcaggggtgtacaggGcaaaggagtgcttggtctcg	16	9	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:97860615G>T	uc003upg.2	-	14	2250	c.2045C>A	c.(2044-2046)GCC>GAC	p.A682D	TECPR1_uc003uph.1_Missense_Mutation_p.A612D	NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	682	PH.					integral to membrane	protein binding			pancreas(1)	1						GGTGTACAGGGCAAAGGAGTG	0.617													11	21	---	---	---	---	PASS	T	97860615	T	T	97860615	3	4	131	1	0	0	0	0	1	0	0	0	15740	1203	42	3	1504	3	TECPR1	7	97860615	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	15281052	97860615	61278048	144	47060										
C7orf52	375607	broad.mit.edu	37	chr7	100815720	100815720	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cgcaggttgctttcgctaggCcggtagggctgccagtcctg	15	12	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:100815720C>A	uc003uxy.1	-	4	989	c.750G>T	c.(748-750)CGG>CGT	p.R250R	C7orf52_uc003uxz.1_Silent_p.R250R	NM_198571	NP_940973	Q8N8M0	CG052_HUMAN	hypothetical protein LOC375607	250							N-acetyltransferase activity			ovary(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					TTTCGCTAGGCCGGTAGGGCT	0.731													6	10	---	---	---	---	PASS	A	100815720	A	A	100815720	2	1	131	1	0	0	0	0	0	0	0	1	2401	726	26	3		3	C7orf52	7	100815720	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	2955105	100815720	58322943	145	47061										
PIK3CG	5294	broad.mit.edu	37	chr7	106509091	106509091	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggactgcgaccgcaagttcaGggtcaagatcagaggcattg	14	9	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:106509091G>C	uc003vdv.3	+	2	1170	c.1085G>C	c.(1084-1086)AGG>ACG	p.R362T	PIK3CG_uc003vdu.2_Missense_Mutation_p.R362T|PIK3CG_uc003vdw.2_Missense_Mutation_p.R362T	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	362					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						CGCAAGTTCAGGGTCAAGATC	0.562													71	116	---	---	---	---	PASS	C	106509091	C	C	106509091	3	2	131	1	0	0	0	0	1	0	0	0	11916	1000	35	4	1087	4	PIK3CG	7	106509091	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	5693371	106509091	52629572	146	47062										
SLC26A4	5172	broad.mit.edu	37	chr7	107353040	107353040	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttaatagaaacagagctgacGgaagaagaacttgatgtcca	10	6	0	6	rs139556627		TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:107353040G>T	uc003vep.2	+	20	2516	c.2292G>T	c.(2290-2292)ACG>ACT	p.T764T	SLC26A4_uc011kmb.1_Silent_p.T351T|SLC26A4_uc011kmc.1_Silent_p.T325T|SLC26A4_uc011kmd.1_Silent_p.T333T	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	764	Cytoplasmic (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						CAGAGCTGACGGAAGAAGAAC	0.323									Pendred_syndrome				53	76	---	---	---	---	PASS	T	107353040	T	T	107353040	2	4	131	1	0	0	0	0	0	0	0	1	14519	1103	39	1		1	SLC26A4	7	107353040	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	843949	107353040	51785623	147	47063										
KCND2	3751	broad.mit.edu	37	chr7	120386051	120386051	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	actcagcacgattcagatcaGatgtgtggagagaacacctc	10	10	3	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:120386051G>C	uc003vjj.1	+	5	2650	c.1685G>C	c.(1684-1686)AGA>ACA	p.R562T		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	562	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					ATTCAGATCAGATGTGTGGAG	0.453													39	64	---	---	---	---	PASS	C	120386051	C	C	120386051	3	2	131	1	0	0	0	0	1	0	0	0	8019	942	33	2	1703	2	KCND2	7	120386051	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	13033011	120386051	38752612	148	47064										
FLNC	2318	broad.mit.edu	37	chr7	128486185	128486185	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gacagacaatggggacggcaCctaccgagtgcagtacaccg	13	12	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:128486185C>T	uc003vnz.3	+	22	4141	c.3932C>T	c.(3931-3933)ACC>ATC	p.T1311I	FLNC_uc003voa.3_Missense_Mutation_p.T1311I	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1311	Filamin 11.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GGGGACGGCACCTACCGAGTG	0.637													35	35	---	---	---	---	PASS	T	128486185	T	T	128486185	3	4	131	1	0	0	0	0	1	0	0	0	5935	507	18	3	4018	3	FLNC	7	128486185	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	8100134	128486185	30652478	149	47065										
LRGUK	136332	broad.mit.edu	37	chr7	133859319	133859319	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	attgaacagattgctgagctGagagaaatagaatacattaa	9	4	0	6			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:133859319G>A	uc003vrm.1	+	8	967	c.951G>A	c.(949-951)CTG>CTA	p.L317L		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	317	LRR 9.						ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						TTGCTGAGCTGAGAGAAATAG	0.333													65	98	---	---	---	---	PASS	A	133859319	A	A	133859319	2	1	131	1	0	0	0	0	0	0	0	1	8943	1277	45	2		2	LRGUK	7	133859319	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	5373134	133859319	25279344	150	47066										
TRIM24	8805	broad.mit.edu	37	chr7	138255744	138255744	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttataatcttccctctcttcCggatgtaagtagacacaaaa	5	10	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:138255744C>T	uc003vuc.2	+	11	2089	c.1874C>T	c.(1873-1875)CCG>CTG	p.P625L	TRIM24_uc003vub.2_Missense_Mutation_p.P591L	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	625					cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						CCCTCTCTTCCGGATGTAAGT	0.308													98	149	---	---	---	---	PASS	T	138255744	T	T	138255744	3	4	131	1	0	0	0	0	1	0	0	0	16495	652	23	1	1916	1	TRIM24	7	138255744	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	4396425	138255744	20882919	151	47067										
TAS2R40	259286	broad.mit.edu	37	chr7	142919923	142919923	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggccatcaaagccaccagctActttctcatcctctacattt	4	15	3	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:142919923A>G	uc011ksx.1	+	1	752	c.752A>G	c.(751-753)TAC>TGC	p.Y251C		NM_176882	NP_795363	P59535	T2R40_HUMAN	taste receptor, type 2, member 40	251	Helical; Name=6; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			ovary(1)	1	Melanoma(164;0.059)					GCCACCAGCTACTTTCTCATC	0.468													114	143	---	---	---	---	PASS	G	142919923	G	G	142919923	3	3	131	1	0	0	0	0	1	0	0	0	15575	391	14	5	754	5	TAS2R40	7	142919923	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	4664179	142919923	16218740	152	47068										
CNTNAP2	26047	broad.mit.edu	37	chr7	147815229	147815229	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gggaattattggaatgccgcCtctttcccaaacccatcctc	7	14	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr7:147815229C>A	uc003weu.1	+	16	2919	c.2403C>A	c.(2401-2403)GCC>GCA	p.A801A		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	801	Laminin G-like 3.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GGAATGCCGCCTCTTTCCCAA	0.448										HNSCC(39;0.1)			91	108	---	---	---	---	PASS	A	147815229	A	A	147815229	2	1	131	1	0	0	0	0	0	0	0	1	3647	668	24	3		3	CNTNAP2	7	147815229	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	4895306	147815229	11323434	153	47069										
DEFA4	1669	broad.mit.edu	37	chr8	6793613	6793613	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gttcccaacacgaagttctgTtcgccggcagaatactaatc	8	12	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:6793613T>G	uc003wqu.1	-	3	274	c.223A>C	c.(223-225)ACA>CCA	p.T75P		NM_001925	NP_001916	P12838	DEF4_HUMAN	defensin, alpha 4 preproprotein	75					defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular space				large_intestine(1)	1				COAD - Colon adenocarcinoma(149;0.0572)|READ - Rectum adenocarcinoma(644;0.121)		CGAAGTTCTGTTCGCCGGCAG	0.507													76	34	---	---	---	---	PASS	G	6793613	G	G	6793613	3	3	131	1	0	0	0	0	1	0	0	0	4391	1725	60	5	74	5	DEFA4	8	6793613	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08		6793613	139570409	154	47070										
SPAG11B	10407	broad.mit.edu	37	chr8	7308655	7308655	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgaatgctcacctggcccatCtaggccctaaaaagtccaca	7	14	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:7308655C>A	uc003wrk.2	-	3	448	c.281G>T	c.(280-282)AGA>ATA	p.R94I	SPAG11B_uc003wrg.1_Intron|SPAG11B_uc003wrh.1_Intron|SPAG11B_uc003wri.2_Missense_Mutation_p.R41I|SPAG11B_uc003wrj.2_Intron|SPAG11B_uc003wrl.2_Intron	NM_016512	NP_057596	Q08648	SG11B_HUMAN	sperm associated antigen 11B isoform A	94					spermatogenesis	extracellular region					0				COAD - Colon adenocarcinoma(149;0.0162)|READ - Rectum adenocarcinoma(644;0.236)		CCTGGCCCATCTAGGCCCTAA	0.443													30	86	---	---	---	---	PASS	A	7308655	A	A	7308655	3	1	131	1	0	0	0	0	1	0	0	0	14977	913	32	2	243	2	SPAG11B	8	7308655	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	515042	7308655	139055367	155	47071										
RP1L1	94137	broad.mit.edu	37	chr8	10468457	10468457	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctctgcaggggcctcggaaaCtccctctggagctgcccctt	11	16	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:10468457C>T	uc003wtc.2	-	4	3380	c.3151G>A	c.(3151-3153)GTT>ATT	p.V1051I		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1051					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GCCTCGGAAACTCCCTCTGGA	0.692													27	10	---	---	---	---	PASS	T	10468457	T	T	10468457	3	4	131	1	0	0	0	0	1	0	0	0	13533	565	20	3	4055	3	RP1L1	8	10468457	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	3159802	10468457	135895565	156	47072										
MSR1	4481	broad.mit.edu	37	chr8	16032698	16032698	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aactctgggttacgttacctGccactattccaatgagaggg	10	10	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:16032698G>T	uc003wwz.2	-	3	413	c.215C>A	c.(214-216)GCA>GAA	p.A72E	MSR1_uc010lsu.2_Missense_Mutation_p.A90E|MSR1_uc003wxa.2_Missense_Mutation_p.A72E|MSR1_uc003wxb.2_Missense_Mutation_p.A72E|MSR1_uc011kxz.1_Intron	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	72	Helical; Signal-anchor for type II membrane protein; (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		TACGTTACCTGCCACTATTCC	0.418													77	44	---	---	---	---	PASS	T	16032698	T	T	16032698	3	4	131	1	0	0	0	0	1	0	0	0	9886	1319	46	3	1220	3	MSR1	8	16032698	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	5564241	16032698	130331324	157	47073										
LZTS1	11178	broad.mit.edu	37	chr8	20110905	20110905	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctgtgtgtgggcaggctggaCatggagttccggccggagtc	18	9	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:20110905C>G	uc003wzr.2	-	2	648	c.537G>C	c.(535-537)ATG>ATC	p.M179I	LZTS1_uc010ltg.1_Missense_Mutation_p.M179I	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	179					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		GCAGGCTGGACATGGAGTTCC	0.672													16	62	---	---	---	---	PASS	G	20110905	G	G	20110905	3	3	131	1	0	0	0	0	1	0	0	0	9138	478	17	4	1261	4	LZTS1	8	20110905	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	4078207	20110905	126253117	158	47074										
HR	55806	broad.mit.edu	37	chr8	21984877	21984877	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agaggccttgttcacttcctCgctgggttcgctggctccac	11	14	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:21984877C>A	uc003xas.2	-	3	1743	c.1078G>T	c.(1078-1080)GAG>TAG	p.E360*	HR_uc003xat.2_Nonsense_Mutation_p.E360*	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	360							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		TTCACTTCCTCGCTGGGTTCG	0.627													6	259	---	---	---	---	PASS	A	21984877	A	A	21984877	4	1	131	1	0	0	0	0	0	1	0	0	7347	893	31	2	2559	2	HR	8	21984877	Nonsense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1873972	21984877	124379145	159	47075										
KCTD9	54793	broad.mit.edu	37	chr8	25315739	25315739	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccgttcttggggctgccgttCaggaacagggtcacccgcct	13	14	3	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:25315739C>T	uc003xeo.2	-	1	182	c.24G>A	c.(22-24)CTG>CTA	p.L8L	PPP2R2A_uc003xek.2_Intron|CDCA2_uc003xep.1_5'Flank|CDCA2_uc011lae.1_5'Flank|CDCA2_uc003xeq.1_5'Flank	NM_017634	NP_060104	Q7L273	KCTD9_HUMAN	potassium channel tetramerisation domain	8	KHA.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		GGCTGCCGTTCAGGAACAGGG	0.423													6	31	---	---	---	---	PASS	T	25315739	T	T	25315739	2	4	131	1	0	0	0	0	0	0	0	1	8116	813	29	2		2	KCTD9	8	25315739	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	3330862	25315739	121048283	160	47076										
GSR	2936	broad.mit.edu	37	chr8	30539537	30539537	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tttggaatcttccttatattCaaaaagtcgatgggcaagtt	8	6	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:30539537C>G	uc003xih.1	-	11	1286	c.1195G>C	c.(1195-1197)GAA>CAA	p.E399Q		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	399					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)	TCCTTATATTCAAAAAGTCGA	0.388													127	79	---	---	---	---	PASS	G	30539537	G	G	30539537	3	3	131	1	0	0	0	0	1	0	0	0	6828	835	29	2	385	2	GSR	8	30539537	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	5223798	30539537	115824485	161	47077										
ZNF703	80139	broad.mit.edu	37	chr8	37554759	37554760	+	Frame_Shift_Del	DEL	GC	-	-													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cctccaaactcaactcggtgGcggcggcggccaacgggctg							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:37554759_37554760delGC	uc003xjy.1	+	2	537_538	c.340_341delGC	c.(340-342)GCGfs	p.A114fs		NM_025069	NP_079345	Q9H7S9	ZN703_HUMAN	zinc finger protein 703	114	Poly-Ala.				adherens junction assembly|mammary gland epithelial cell differentiation|negative regulation of homotypic cell-cell adhesion|negative regulation of transcription, DNA-dependent|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of mammary gland epithelial cell proliferation|regulation of canonical Wnt receptor signaling pathway|regulation of cell cycle|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			breast(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(5;7.93e-25)|LUSC - Lung squamous cell carcinoma(8;1.05e-09)			CAACTCGGTGGCGGCGGCGGCC	0.733													7	10	---	---	---	---		-	37554760	-	-	37554759	7	5	131	1	0	1	0	1	0	0	0	0	18103	1203	42	0	346	0	ZNF703	8	37554759	Frame_Shift_Del	DEL	GC	TCGA-60-2722-01A-01D-1522-08	7015222	37554759	108809263	162	47078										
ADAM32	203102	broad.mit.edu	37	chr8	39018484	39018484	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	attgtggtggacaaaactttGgtatgtgttttgctttttct	10	4	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:39018484G>A	uc003xmt.3	+	7	839	c.594G>A	c.(592-594)TTG>TTA	p.L198L	ADAM32_uc011lch.1_Silent_p.L205L|ADAM32_uc003xmu.3_Silent_p.L198L	NM_145004	NP_659441	Q8TC27	ADA32_HUMAN	a disintegrin and metalloprotease domain 32	198	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)			ACAAAACTTTGGTATGTGTTT	0.323													6	26	---	---	---	---	PASS	A	39018484	A	A	39018484	2	1	131	1	0	0	0	0	0	0	0	1	249	1362	47	3		3	ADAM32	8	39018484	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	1463725	39018484	107345538	163	47079										
PLAG1	5324	broad.mit.edu	37	chr8	57079300	57079300	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gcatatgaggtagaactgaaCggatatttgaaagaaaggtg	13	3	0	5	rs150353769		TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:57079300C>T	uc003xsq.3	-	3	1456	c.1005G>A	c.(1003-1005)CCG>CCA	p.P335P	PLAG1_uc003xsr.3_Silent_p.P335P|PLAG1_uc010lyi.2_Silent_p.P335P|PLAG1_uc010lyj.2_Silent_p.P253P	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	335	Activates transcription; Inhibition of nuclear import due to lack of NLS and KPNA2 interaction.|Repression domain; contains 3 sumoylation motifs and massively decrease transcription activity.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			TAGAACTGAACGGATATTTGA	0.428			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								132	93	---	---	---	---	PASS	T	57079300	T	T	57079300	2	4	131	1	0	0	0	0	0	0	0	1	12018	523	19	1		1	PLAG1	8	57079300	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	18060816	57079300	89284722	164	47080										
VCPIP1	80124	broad.mit.edu	37	chr8	67579132	67579132	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccaaggacgacggagtctgtGgagcctcagggggaggaggt	19	8	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:67579132G>A	uc003xwn.2	-	1	321	c.62C>T	c.(61-63)CCA>CTA	p.P21L	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	21	Pro-rich.				protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			CGGAGTCTGTGGAGCCTCAGG	0.532													5	5	---	---	---	---	PASS	A	67579132	A	A	67579132	3	1	131	1	0	0	0	0	1	0	0	0	17138	1348	47	3	3618	3	VCPIP1	8	67579132	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	10499832	67579132	78784890	165	47081										
JPH1	56704	broad.mit.edu	37	chr8	75227315	75227315	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gcctcttgttatttgcccacTccccttcatacttcatgcca	4	16	3	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:75227315T>C	uc003yae.2	-	2	960	c.920A>G	c.(919-921)GAG>GGG	p.E307G	JPH1_uc003yaf.2_Missense_Mutation_p.E307G|JPH1_uc003yag.1_Missense_Mutation_p.E171G	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	307	Cytoplasmic (Potential).|MORN 7.				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			ATTTGCCCACTCCCCTTCATA	0.512													173	104	---	---	---	---	PASS	C	75227315	C	C	75227315	3	2	131	1	0	0	0	0	1	0	0	0	7960	1551	54	5	1081	5	JPH1	8	75227315	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	7648183	75227315	71136707	166	47082										
ZFHX4	79776	broad.mit.edu	37	chr8	77617186	77617186	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cttgtgcaagttgtcttttgGttatatcaggtcatttgtaa	9	5	3	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:77617186G>T	uc003yav.2	+	2	1250	c.863G>T	c.(862-864)GGT>GTT	p.G288V	ZFHX4_uc003yat.1_Missense_Mutation_p.G288V|ZFHX4_uc003yau.1_Missense_Mutation_p.G288V|ZFHX4_uc003yaw.1_Missense_Mutation_p.G288V	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	288						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTGTCTTTTGGTTATATCAGG	0.433										HNSCC(33;0.089)			70	66	---	---	---	---	PASS	T	77617186	T	T	77617186	3	4	131	1	0	0	0	0	1	0	0	0	17632	1261	44	3	865	3	ZFHX4	8	77617186	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	2389871	77617186	68746836	167	47083										
CNGB3	54714	broad.mit.edu	37	chr8	87755792	87755792	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttcattccgacgagaactttGttcattctcattgttctctc	5	11	4	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:87755792G>T	uc003ydx.2	-	1	110	c.64C>A	c.(64-66)CAA>AAA	p.Q22K		NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	22	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						CGAGAACTTTGTTCATTCTCA	0.418													118	71	---	---	---	---	PASS	T	87755792	T	T	87755792	3	4	131	1	0	0	0	0	1	0	0	0	3601	1386	48	3	2437	3	CNGB3	8	87755792	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	10138606	87755792	58608230	168	47084										
OTUD6B	51633	broad.mit.edu	37	chr8	92082567	92082567	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gggtggaaggtgcctactagCcggtgcaggtttcttctagc	15	9	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:92082567C>G	uc003yeu.3	+	1	144	c.45C>G	c.(43-45)AGC>AGG	p.S15R	uc003yet.2_5'Flank|OTUD6B_uc011lgh.1_5'UTR	NM_016023	NP_057107	Q8N6M0	OTU6B_HUMAN	OTU domain containing 6B	Error:Variant_position_missing_in_Q8N6M0_after_alignment										ovary(2)|lung(1)	3			BRCA - Breast invasive adenocarcinoma(11;0.0187)			TGCCTACTAGCCGGTGCAGGT	0.617													5	19	---	---	---	---	PASS	G	92082567	G	G	92082567	3	3	131	1	0	0	0	0	1	0	0	0	11317	738	26	4	47	4	OTUD6B	8	92082567	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	4326775	92082567	54281455	169	47085										
PKHD1L1	93035	broad.mit.edu	37	chr8	110439382	110439382	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgcggaaagcagaatcttctAcaggttccctcatttggctt	9	10	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:110439382A>T	uc003yne.2	+	25	3101	c.2997A>T	c.(2995-2997)CTA>CTT	p.L999L		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	999	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			AGAATCTTCTACAGGTTCCCT	0.358										HNSCC(38;0.096)			30	24	---	---	---	---	PASS	T	110439382	T	T	110439382	2	4	131	1	0	0	0	0	0	0	0	1	11972	378	14	5		5	PKHD1L1	8	110439382	Silent	SNP	A	TCGA-60-2722-01A-01D-1522-08	18356815	110439382	35924640	170	47086										
PKHD1L1	93035	broad.mit.edu	37	chr8	110535548	110535548	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aaccaagtcaatggccttagTggaaatacaacaattccgtt	7	9	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:110535548T>C	uc003yne.2	+	76	12521	c.12417T>C	c.(12415-12417)AGT>AGC	p.S4139S		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	4139	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ATGGCCTTAGTGGAAATACAA	0.403										HNSCC(38;0.096)			39	120	---	---	---	---	PASS	C	110535548	C	C	110535548	2	2	131	1	0	0	0	0	0	0	0	1	11972	1693	59	5		5	PKHD1L1	8	110535548	Silent	SNP	T	TCGA-60-2722-01A-01D-1522-08	96166	110535548	35828474	171	47087										
ZHX2	22882	broad.mit.edu	37	chr8	123964728	123964728	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agctggtccccagaagaggtGgaggaggcccggaagaagat	17	8	0	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:123964728G>A	uc003ypk.1	+	3	1545	c.978G>A	c.(976-978)GTG>GTA	p.V326V		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	326	Required for interaction with NFYA.|Required for homodimerization.|Required for repressor activity.|Required for nuclear localization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			CAGAAGAGGTGGAGGAGGCCC	0.602													35	125	---	---	---	---	PASS	A	123964728	A	A	123964728	2	1	131	1	0	0	0	0	0	0	0	1	17673	1335	47	3		3	ZHX2	8	123964728	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	13429180	123964728	22399294	172	47088										
FER1L6	654463	broad.mit.edu	37	chr8	124987425	124987425	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	acaagtgggccctgctcacaGaccctggtgacatcaggact	11	13	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:124987425G>A	uc003yqw.2	+	8	768	c.562G>A	c.(562-564)GAC>AAC	p.D188N		NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	188	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			CCTGCTCACAGACCCTGGTGA	0.532													42	121	---	---	---	---	PASS	A	124987425	A	A	124987425	3	1	131	1	0	0	0	0	1	0	0	0	5815	942	33	2	588	2	FER1L6	8	124987425	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	1022697	124987425	21376597	173	47089										
PHF20L1	51105	broad.mit.edu	37	chr8	133790097	133790097	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gagtaaaaagcccccaaatcGccctggaatcacttttgaga	8	11	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:133790097G>T	uc003ytt.2	+	2	348	c.23G>T	c.(22-24)CGC>CTC	p.R8L	PHF20L1_uc003ytr.2_Missense_Mutation_p.R8L|PHF20L1_uc010mdv.2_Missense_Mutation_p.R8L|PHF20L1_uc003yts.2_Missense_Mutation_p.R8L|PHF20L1_uc011lja.1_Missense_Mutation_p.R8L|PHF20L1_uc003ytu.1_RNA|PHF20L1_uc003ytq.2_Missense_Mutation_p.R8L	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	8							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			CCCCCAAATCGCCCTGGAATC	0.363													97	62	---	---	---	---	PASS	T	133790097	T	T	133790097	3	4	131	1	0	0	0	0	1	0	0	0	11832	1087	38	1	25	1	PHF20L1	8	133790097	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	8802672	133790097	12573925	174	47090										
FAM135B	51059	broad.mit.edu	37	chr8	139163804	139163804	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agcctccgggaaggcattcaCtcctctattaaatgctgtgt	9	11	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:139163804C>A	uc003yuy.2	-	13	3085	c.2914G>T	c.(2914-2916)GTG>TTG	p.V972L	FAM135B_uc003yux.2_Missense_Mutation_p.V873L|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.V534L|FAM135B_uc003yvb.2_Missense_Mutation_p.V534L	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	972										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)			AAGGCATTCACTCCTCTATTA	0.498										HNSCC(54;0.14)			32	134	---	---	---	---	PASS	A	139163804	A	A	139163804	3	1	131	1	0	0	0	0	1	0	0	0	5449	565	20	3	1338	3	FAM135B	8	139163804	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	5373707	139163804	7200218	175	47091										
FAM135B	51059	broad.mit.edu	37	chr8	139164776	139164776	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aatatctaagggctccctcaGggtagaacttagtggatcac	10	9	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:139164776G>T	uc003yuy.2	-	13	2113	c.1942C>A	c.(1942-1944)CTG>ATG	p.L648M	FAM135B_uc003yux.2_Missense_Mutation_p.L549M|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.L210M|FAM135B_uc003yvb.2_Missense_Mutation_p.L210M	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	648										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			GGCTCCCTCAGGGTAGAACTT	0.483										HNSCC(54;0.14)			111	70	---	---	---	---	PASS	T	139164776	T	T	139164776	3	4	131	1	0	0	0	0	1	0	0	0	5449	991	35	3	2310	3	FAM135B	8	139164776	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	972	139164776	7199246	176	47092										
FAM135B	51059	broad.mit.edu	37	chr8	139323149	139323149	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aagacaccttcaaggtcactCggatctggtaatacctaaga	8	10	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:139323149C>A	uc003yuy.2	-	3	263	c.92G>T	c.(91-93)CGA>CTA	p.R31L	FAM135B_uc003yux.2_5'UTR|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	31										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)			CAAGGTCACTCGGATCTGGTA	0.493										HNSCC(54;0.14)			77	59	---	---	---	---	PASS	A	139323149	A	A	139323149	3	1	131	1	0	0	0	0	1	0	0	0	5449	884	31	2	4200	2	FAM135B	8	139323149	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	158373	139323149	7040873	177	47093										
COL22A1	169044	broad.mit.edu	37	chr8	139737671	139737671	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggggcctgggacaccaggggGtcctggagggccctgtagag	20	10	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:139737671G>T	uc003yvd.2	-	24	2599	c.2152C>A	c.(2152-2154)CCC>ACC	p.P718T	COL22A1_uc011ljo.1_Missense_Mutation_p.P18T	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	718	Collagen-like 5.|Pro-rich.|Gly-rich.				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)			ACACCAGGGGGTCCTGGAGGG	0.582										HNSCC(7;0.00092)			147	72	---	---	---	---	PASS	T	139737671	T	T	139737671	3	4	131	1	0	0	0	0	1	0	0	0	3681	1261	44	3	2896	3	COL22A1	8	139737671	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	414522	139737671	6626351	178	47094										
FLJ43860	389690	broad.mit.edu	37	chr8	142500317	142500317	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgcgccaccacccgccacgaGtgcctgcagatggccaccag	11	18	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:142500317G>A	uc003ywi.2	-	5	678	c.597C>T	c.(595-597)CAC>CAT	p.H199H	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	199							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CCCGCCACGAGTGCCTGCAGA	0.647													20	8	---	---	---	---	PASS	A	142500317	A	A	142500317	2	1	131	1	0	0	0	0	0	0	0	1	5930	1020	36	3		3	FLJ43860	8	142500317	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	2762646	142500317	3863705	179	47095										
ZNF250	58500	broad.mit.edu	37	chr8	146108175	146108175	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtttgctctgaaattaatggCttcggactcaagtctgtatt	9	7	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr8:146108175C>T	uc003zeq.3	-	6	525	c.408G>A	c.(406-408)AAG>AAA	p.K136K	COMMD5_uc010mgf.2_Intron|ZNF250_uc003zer.3_Silent_p.K131K|ZNF250_uc010mgg.2_Silent_p.K131K	NM_021061	NP_066405	P15622	ZN250_HUMAN	zinc finger protein 250 isoform a	136					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;2.53e-38)|OV - Ovarian serous cystadenocarcinoma(54;4.07e-38)|all cancers(56;2.27e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.0654)		AAATTAATGGCTTCGGACTCA	0.383													62	271	---	---	---	---	PASS	T	146108175	T	T	146108175	2	4	131	1	0	0	0	0	0	0	0	1	17792	796	28	3		3	ZNF250	8	146108175	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	3607858	146108175	255847	180	47096										
ZCCHC7	84186	broad.mit.edu	37	chr9	37126821	37126821	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agttcaagtgaagaggaagaGagcaccatttcagaaggtga	13	5	2	5			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr9:37126821G>C	uc003zzq.2	+	2	665	c.492G>C	c.(490-492)GAG>GAC	p.E164D	ZCCHC7_uc011lqh.1_Intron|ZCCHC7_uc011lqi.1_Missense_Mutation_p.E163D|ZCCHC7_uc010mlt.2_Missense_Mutation_p.E163D|ZCCHC7_uc003zzs.1_Missense_Mutation_p.E163D	NM_032226	NP_115602	Q8N3Z6	ZCHC7_HUMAN	zinc finger, CCHC domain containing 7	164							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.0137)		AAGAGGAAGAGAGCACCATTT	0.413													128	43	---	---	---	---	PASS	C	37126821	C	C	37126821	3	2	131	1	0	0	0	0	1	0	0	0	17590	933	33	2	494	2	ZCCHC7	9	37126821	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08		37126821	104086610	181	47097										
C9orf95	54981	broad.mit.edu	37	chr9	77684836	77684836	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	attaaaaagaagaaaaccttCgatgattaaaatgggaattt	7	3	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr9:77684836C>T	uc004aju.2	-	5	890	c.292G>A	c.(292-294)GAA>AAA	p.E98K	C9orf95_uc004ajs.3_Missense_Mutation_p.E102K|C9orf95_uc004ajr.3_Missense_Mutation_p.E98K|C9orf95_uc004ajt.3_Missense_Mutation_p.E98K	NM_017881	NP_060351	Q9NWW6	NRK1_HUMAN	nicotinamide riboside kinase 1 isoform 1	98				E->A: Loss of activity.	pyridine nucleotide biosynthetic process		ATP binding|metal ion binding|ribosylnicotinamide kinase activity				0						AGAAAACCTTCGATGATTAAA	0.393													72	108	---	---	---	---	PASS	T	77684836	T	T	77684836	3	4	131	1	0	0	0	0	1	0	0	0	2507	893	31	2	327	2	C9orf95	9	77684836	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	40558015	77684836	63528595	182	47098										
FLJ46321	389763	broad.mit.edu	37	chr9	84603768	84603768	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctgttttctgaacagctataCtgagacagggctgagccctg	11	10	1	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr9:84603768C>A	uc004amn.2	+	1	82	c.35C>A	c.(34-36)ACT>AAT	p.T12N		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	12						integral to membrane					0						AACAGCTATACTGAGACAGGG	0.483													82	131	---	---	---	---	PASS	A	84603768	A	A	84603768	3	1	131	1	0	0	0	0	1	0	0	0	5932	565	20	3	37	3	FLJ46321	9	84603768	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	6918932	84603768	56609663	183	47099										
FLJ46321	389763	broad.mit.edu	37	chr9	84606980	84606980	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttcctccatgtttgtattctTcaatggcattacaaatacat	4	9	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr9:84606980T>A	uc004amn.2	+	4	1642	c.1595T>A	c.(1594-1596)TTC>TAC	p.F532Y		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	532						integral to membrane					0						TTTGTATTCTTCAATGGCATT	0.483													120	22	---	---	---	---	PASS	A	84606980	A	A	84606980	3	1	131	1	0	0	0	0	1	0	0	0	5932	1783	62	5	1609	5	FLJ46321	9	84606980	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	3212	84606980	56606451	184	47100										
MURC	347273	broad.mit.edu	37	chr9	103340680	103340680	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	catagcaatacagggcatatCattaacaaattgtttgagaa	7	6	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr9:103340680C>G	uc004bba.2	+	1	345	c.255C>G	c.(253-255)ATC>ATG	p.I85M		NM_001018116	NP_001018126	Q5BKX8	MURC_HUMAN	muscle-related coiled-coil protein	85					cell differentiation|muscle organ development|transcription, DNA-dependent					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0461)				CAGGGCATATCATTAACAAAT	0.388													227	36	---	---	---	---	PASS	G	103340680	G	G	103340680	3	3	131	1	0	0	0	0	1	0	0	0	9987	816	29	2	257	2	MURC	9	103340680	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	18733700	103340680	37872751	185	47101										
GSN	2934	broad.mit.edu	37	chr9	124064369	124064369	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctttatggagacttcttcacGggcgacgcctacgtcatcct	9	13	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr9:124064369G>A	uc004blf.1	+	2	334	c.273G>A	c.(271-273)ACG>ACA	p.T91T	GSN_uc004bld.1_Silent_p.T40T|GSN_uc010mvq.1_Silent_p.T51T|GSN_uc010mvr.1_Silent_p.T51T|GSN_uc010mvu.1_Silent_p.T40T|GSN_uc010mvt.1_Silent_p.T40T|GSN_uc010mvs.1_Silent_p.T40T|GSN_uc004ble.1_Silent_p.T40T|GSN_uc010mvv.1_Silent_p.T40T|GSN_uc011lyh.1_Silent_p.T57T|GSN_uc011lyi.1_Silent_p.T40T|GSN_uc011lyj.1_Silent_p.T64T	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	91	Actin-severing (Potential).|Gelsolin-like 1.				actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						ACTTCTTCACGGGCGACGCCT	0.597													6	224	---	---	---	---	PASS	A	124064369	A	A	124064369	2	1	131	1	0	0	0	0	0	0	0	1	6825	1103	39	1		1	GSN	9	124064369	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	20723689	124064369	17149062	186	47102										
ABCA2	20	broad.mit.edu	37	chr9	139912256	139912256	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cacctccttgagccggtgctCcttctccgccacgatgtgct	9	17	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr9:139912256C>G	uc011mem.1	-	15	2339	c.2191G>C	c.(2191-2193)GAG>CAG	p.E731Q	ABCA2_uc011mel.1_Missense_Mutation_p.E732Q|ABCA2_uc004ckl.1_Missense_Mutation_p.E662Q|ABCA2_uc004ckm.1_Missense_Mutation_p.E762Q|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	731					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		AGCCGGTGCTCCTTCTCCGCC	0.677													29	4	---	---	---	---	PASS	G	139912256	G	G	139912256	3	3	131	1	0	0	0	0	1	0	0	0	32	864	30	2	5252	2	ABCA2	9	139912256	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	15847887	139912256	1301175	187	47103										
ABCA2	20	broad.mit.edu	37	chr9	139912311	139912311	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	acggagtagacccaggagatCaccatgcacagcggcatcat	11	12	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr9:139912311C>T	uc011mem.1	-	15	2284	c.2136G>A	c.(2134-2136)GTG>GTA	p.V712V	ABCA2_uc011mel.1_Silent_p.V713V|ABCA2_uc004ckl.1_Silent_p.V643V|ABCA2_uc004ckm.1_Silent_p.V743V|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	712	Helical; (Potential).				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CCCAGGAGATCACCATGCACA	0.572													43	2	---	---	---	---	PASS	T	139912311	T	T	139912311	2	4	131	1	0	0	0	0	0	0	0	1	32	813	29	2		2	ABCA2	9	139912311	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	55	139912311	1301120	188	47104										
SFMBT2	57713	broad.mit.edu	37	chr10	7218019	7218019	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gatatcagcacaggactaaaCaaatttggacagcactctag	8	9	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:7218019C>T	uc009xio.1	-	17	2008	c.1917G>A	c.(1915-1917)TTG>TTA	p.L639L	SFMBT2_uc001ijn.1_Silent_p.L639L|SFMBT2_uc010qay.1_Silent_p.L474L	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	639					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						CAGGACTAAACAAATTTGGAC	0.423													138	118	---	---	---	---	PASS	T	7218019	T	T	7218019	2	4	131	1	0	0	0	0	0	0	0	1	14158	477	17	3		3	SFMBT2	10	7218019	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08		7218019	128316728	189	47105										
UPF2	26019	broad.mit.edu	37	chr10	12043711	12043711	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tttctttgtaagatcttcagCttcatctccaccctctaatt	3	12	6	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:12043711C>T	uc001ila.2	-	5	2092	c.1618G>A	c.(1618-1620)GCT>ACT	p.A540T	UPF2_uc001ilb.2_Missense_Mutation_p.A540T|UPF2_uc001ilc.2_Missense_Mutation_p.A540T|UPF2_uc009xiz.1_Missense_Mutation_p.A540T	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	540	Potential.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				AGATCTTCAGCTTCATCTCCA	0.353													7	52	---	---	---	---	PASS	T	12043711	T	T	12043711	3	4	131	1	0	0	0	0	1	0	0	0	17001	797	28	3	2268	3	UPF2	10	12043711	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	4825692	12043711	123491036	190	47106										
DHTKD1	55526	broad.mit.edu	37	chr10	12123485	12123485	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	atttagttgatcatggccttGccaggttggtgacagtatat	11	6	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:12123485G>T	uc001ild.3	+	2	268	c.169G>T	c.(169-171)GCC>TCC	p.A57S		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	57					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			TCATGGCCTTGCCAGGTTGGT	0.413													135	108	---	---	---	---	PASS	T	12123485	T	T	12123485	3	4	131	1	0	0	0	0	1	0	0	0	4500	1319	46	3	175	3	DHTKD1	10	12123485	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	79774	12123485	123411262	191	47107										
CUBN	8029	broad.mit.edu	37	chr10	16967399	16967399	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agggggtcccaagggtggagAacagatatcaggaccatttc	14	8	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:16967399A>T	uc001ioo.2	-	43	6539	c.6487T>A	c.(6487-6489)TCT>ACT	p.S2163T		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2163	CUB 15.				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)	AAGGGTGGAGAACAGATATCA	0.388													32	34	---	---	---	---	PASS	T	16967399	T	T	16967399	3	4	131	1	0	0	0	0	1	0	0	0	4051	246	9	5	4484	5	CUBN	10	16967399	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	4843914	16967399	118567348	192	47108										
SLC39A12	221074	broad.mit.edu	37	chr10	18250781	18250781	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	caggcagtactttgacacttCtcaaagccaggtaagaaggc	10	10	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:18250781C>A	uc001ipo.2	+	3	806	c.533C>A	c.(532-534)TCT>TAT	p.S178Y	SLC39A12_uc001ipn.2_Missense_Mutation_p.S178Y|SLC39A12_uc001ipp.2_Missense_Mutation_p.S178Y|SLC39A12_uc010qck.1_Missense_Mutation_p.S44Y	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	178	Extracellular (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						TTTGACACTTCTCAAAGCCAG	0.418													35	80	---	---	---	---	PASS	A	18250781	A	A	18250781	3	1	131	1	0	0	0	0	1	0	0	0	14615	913	32	2	539	2	SLC39A12	10	18250781	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1283382	18250781	117283966	193	47109										
SLC39A12	221074	broad.mit.edu	37	chr10	18280105	18280105	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tggtttacataagcaggaagCcccagaatttgggcatttcc	10	9	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:18280105C>A	uc001ipo.2	+	8	1568	c.1295C>A	c.(1294-1296)GCC>GAC	p.A432D	SLC39A12_uc001ipn.2_Missense_Mutation_p.A432D|SLC39A12_uc001ipp.2_Missense_Mutation_p.A432D|SLC39A12_uc010qck.1_Missense_Mutation_p.A298D	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	432	Cytoplasmic (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						AAGCAGGAAGCCCCAGAATTT	0.348													58	55	---	---	---	---	PASS	A	18280105	A	A	18280105	3	1	131	1	0	0	0	0	1	0	0	0	14615	739	26	3	1321	3	SLC39A12	10	18280105	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	29324	18280105	117254642	194	47110										
GPR158	57512	broad.mit.edu	37	chr10	25886785	25886785	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	acccccacctccagaaaaagCggtgctcgaagaagggccta	10	14	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:25886785C>T	uc001isj.2	+	11	2290	c.2230C>T	c.(2230-2232)CGG>TGG	p.R744W	GPR158_uc001isk.2_Missense_Mutation_p.R119W	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	744	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						CCAGAAAAAGCGGTGCTCGAA	0.498													49	139	---	---	---	---	PASS	T	25886785	T	T	25886785	3	4	131	1	0	0	0	0	1	0	0	0	6663	759	27	1	2272	1	GPR158	10	25886785	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	7606680	25886785	109647962	195	47111										
ZEB1	6935	broad.mit.edu	37	chr10	31810466	31810466	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aagagccacaagtagaacctCttgatctttcactaccaaag	6	11	3	3	rs138456617		TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:31810466C>T	uc001ivs.3	+	7	2266	c.2203C>T	c.(2203-2205)CTT>TTT	p.L735F	ZEB1_uc001ivr.3_Missense_Mutation_p.L517F|ZEB1_uc010qee.1_Missense_Mutation_p.L517F|ZEB1_uc010qef.1_Missense_Mutation_p.L517F|ZEB1_uc009xlj.1_Missense_Mutation_p.L661F|ZEB1_uc010qeg.1_Missense_Mutation_p.L594F|ZEB1_uc009xlk.1_Missense_Mutation_p.L517F|ZEB1_uc001ivt.3_Missense_Mutation_p.L517F|ZEB1_uc001ivu.3_Missense_Mutation_p.L736F|ZEB1_uc001ivv.3_Missense_Mutation_p.L715F|ZEB1_uc010qeh.1_Missense_Mutation_p.L668F|ZEB1_uc009xlo.1_Missense_Mutation_p.L718F|ZEB1_uc009xlp.2_Missense_Mutation_p.L719F	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	735					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				AGTAGAACCTCTTGATCTTTC	0.428													36	92	---	---	---	---	PASS	T	31810466	T	T	31810466	3	4	131	1	0	0	0	0	1	0	0	0	17620	913	32	2	2243	2	ZEB1	10	31810466	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	5923681	31810466	103724281	196	47112										
ARHGAP12	94134	broad.mit.edu	37	chr10	32106816	32106816	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttccttgacgagttttcagcTttagagaaaagcagggagaa	11	6	1	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:32106816T>A	uc001ivz.1	-	13	1903	c.1633_splice	c.e13-1	p.L545_splice	ARHGAP12_uc001ivy.1_Splice_Site_p.L491_splice|ARHGAP12_uc009xls.2_Splice_Site_p.L496_splice|ARHGAP12_uc001iwb.1_Splice_Site_p.L538_splice|ARHGAP12_uc001iwc.1_Splice_Site_p.L513_splice|ARHGAP12_uc009xlq.1_Splice_Site_p.L466_splice|ARHGAP12_uc001iwd.1_Splice_Site_p.L513_splice|ARHGAP12_uc009xlr.1_Splice_Site_p.L543_splice	NM_018287	NP_060757	Q8IWW6	RHG12_HUMAN	Rho GTPase activating protein 12						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0		Prostate(175;0.0199)				AGTTTTCAGCTTTAGAGAAAA	0.338													23	72	---	---	---	---	PASS	A	32106816	A	A	32106816	5	1	131	1	0	0	0	0	0	0	1	0	865	1623	56	5	941	5	ARHGAP12	10	32106816	Splice_Site	SNP	T	TCGA-60-2722-01A-01D-1522-08	296350	32106816	103427931	197	47113										
GDF2	2658	broad.mit.edu	37	chr10	48414071	48414071	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcagctccagcctggtctccTtggtcccactgctgtggtca	10	15	3	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:48414071T>C	uc001jfa.1	-	2	960	c.797A>G	c.(796-798)AAG>AGG	p.K266R		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	266					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						CCTGGTCTCCTTGGTCCCACT	0.572													19	56	---	---	---	---	PASS	C	48414071	C	C	48414071	3	2	131	1	0	0	0	0	1	0	0	0	6314	1609	56	5	496	5	GDF2	10	48414071	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	16307255	48414071	87120676	198	47114										
FRMPD2	143162	broad.mit.edu	37	chr10	49392891	49392891	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	taaaaatgccagggtcagctTggcctgaatactctccctca	8	12	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:49392891T>C	uc001jgi.2	-	19	2500	c.2393A>G	c.(2392-2394)CAA>CGA	p.Q798R	FRMPD2_uc001jgh.2_Missense_Mutation_p.Q766R|FRMPD2_uc001jgj.2_Missense_Mutation_p.Q776R	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	798	PDZ 1.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		AGGGTCAGCTTGGCCTGAATA	0.338													11	39	---	---	---	---	PASS	C	49392891	C	C	49392891	3	2	131	1	0	0	0	0	1	0	0	0	6058	1812	63	5	1580	5	FRMPD2	10	49392891	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	978820	49392891	86141856	199	47115										
ANK3	288	broad.mit.edu	37	chr10	61831882	61831882	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttggagggagattttacagtCatttctttaatttctgagag	10	4	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:61831882C>A	uc001jky.2	-	37	8949	c.8757G>T	c.(8755-8757)ATG>ATT	p.M2919I	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2919					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						ATTTTACAGTCATTTCTTTAA	0.403													46	57	---	---	---	---	PASS	A	61831882	A	A	61831882	3	1	131	1	0	0	0	0	1	0	0	0	622	826	29	2	4717	2	ANK3	10	61831882	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	12438991	61831882	73702865	200	47116										
JMJD1C	221037	broad.mit.edu	37	chr10	64944447	64944447	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gaggccaaattgaattttccTtctggattacaatattctgg	8	7	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:64944447T>A	uc001jmn.2	-	21	7182	c.6882A>T	c.(6880-6882)GAA>GAT	p.E2294D	JMJD1C_uc001jml.2_Missense_Mutation_p.E2057D|JMJD1C_uc001jmm.2_Missense_Mutation_p.E2006D|JMJD1C_uc010qiq.1_Missense_Mutation_p.E2112D|JMJD1C_uc009xpi.2_Missense_Mutation_p.E2112D|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmo.2_Missense_Mutation_p.E201D	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	2294	JmjC.				blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TGAATTTTCCTTCTGGATTAC	0.363													35	89	---	---	---	---	PASS	A	64944447	A	A	64944447	3	1	131	1	0	0	0	0	1	0	0	0	7950	1606	56	5	764	5	JMJD1C	10	64944447	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	3112565	64944447	70590300	201	47117										
TTC18	118491	broad.mit.edu	37	chr10	75056899	75056899	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcaaatgatgttgtcttcaaGtatttatctctcacaatctt	4	8	6	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:75056899G>T	uc009xrc.2	-	16	1876	c.1755C>A	c.(1753-1755)TAC>TAA	p.Y585*	TTC18_uc001jty.2_Nonsense_Mutation_p.Y585*|TTC18_uc009xrd.1_Nonsense_Mutation_p.Y399*|TTC18_uc001jtx.2_5'UTR	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18	585							binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					TTGTCTTCAAGTATTTATCTC	0.438													31	79	---	---	---	---	PASS	T	75056899	T	T	75056899	4	4	131	1	0	0	0	0	0	1	0	0	16682	1024	36	3	1662	3	TTC18	10	75056899	Nonsense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	10112452	75056899	60477848	202	47118										
SEC24C	9632	broad.mit.edu	37	chr10	75526283	75526283	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tggtcaacgtcaatgagtctCgggcagttatcaccaggtaa	11	9	4	1	rs148361947	byFrequency	TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:75526283C>T	uc001juw.2	+	13	1962	c.1783C>T	c.(1783-1785)CGG>TGG	p.R595W	SEC24C_uc010qkn.1_RNA|SEC24C_uc009xrj.1_Missense_Mutation_p.R453W|SEC24C_uc001jux.2_Missense_Mutation_p.R595W|SEC24C_uc010qko.1_Missense_Mutation_p.R476W|SEC24C_uc010qkp.1_Intron|SEC24C_uc010qkq.1_Intron	NM_004922	NP_004913	P53992	SC24C_HUMAN	SEC24-related protein C	595					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|zinc ion binding			skin(2)|central_nervous_system(1)	3	Prostate(51;0.0112)					CAATGAGTCTCGGGCAGTTAT	0.517													24	50	---	---	---	---	PASS	T	75526283	T	T	75526283	3	4	131	1	0	0	0	0	1	0	0	0	13996	875	31	2	1825	2	SEC24C	10	75526283	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	469384	75526283	60008464	203	47119										
GRID1	2894	broad.mit.edu	37	chr10	87373339	87373339	+	Missense_Mutation	SNP	C	A	A													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggctggtgaggtcacagcggCccatgtgcggccaccacttc							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:87373339C>A	uc001kdl.1	-	15	2527	c.2426G>T	c.(2425-2427)GGC>GTC	p.G809V	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.G380V	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	809	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	GTCACAGCGGCCCATGTGCGG	0.612										Multiple Myeloma(13;0.14)			19	39	---	---	---	---	PASS	A	87373339	A	A	87373339	3	1	131	1	0	0	0	0	1	0	0	0	6771	739	26	3	611	3	GRID1	10	87373339	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	11847056	87373339	48161408	204	47120	868	2								
GRID1	2894	broad.mit.edu	37	chr10	87373340	87373340	+	Missense_Mutation	SNP	C	A	A													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gctggtgaggtcacagcggcCcatgtgcggccaccacttct							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:87373340C>A	uc001kdl.1	-	15	2526	c.2425G>T	c.(2425-2427)GGC>TGC	p.G809C	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.G380C	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	809	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	TCACAGCGGCCCATGTGCGGC	0.607										Multiple Myeloma(13;0.14)			19	42	---	---	---	---	PASS	A	87373340	A	A	87373340	3	1	131	1	0	0	0	0	1	0	0	0	6771	623	22	3	612	3	GRID1	10	87373340	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1	87373340	48161407	205	47121	868	2								
PNLIPRP3	119548	broad.mit.edu	37	chr10	118215325	118215325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agctgggtcaaggataccagGccttggaagaataactggta	13	7	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:118215325G>T	uc001lcl.3	+	5	649	c.548G>T	c.(547-549)GGC>GTC	p.G183V		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	183					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		AGGATACCAGGCCTTGGAAGA	0.443													24	66	---	---	---	---	PASS	T	118215325	T	T	118215325	3	4	131	1	0	0	0	0	1	0	0	0	12152	1203	42	3	566	3	PNLIPRP3	10	118215325	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	30841985	118215325	17319422	206	47122										
PNLIPRP2	5408	broad.mit.edu	37	chr10	118385573	118385573	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gaggacagctggccatcggaCatgtgcaaggtagggcccta	15	10	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:118385573C>A	uc001lcq.2	+	6	347	c.324C>A	c.(322-324)GAC>GAA	p.D108E	PNLIPRP2_uc009xyu.1_RNA|PNLIPRP2_uc009xyv.1_RNA	NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2	107					galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		GGCCATCGGACATGTGCAAGG	0.542													12	14	---	---	---	---	PASS	A	118385573	A	A	118385573	3	1	131	1	0	0	0	0	1	0	0	0	12151	477	17	3	337	3	PNLIPRP2	10	118385573	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	170248	118385573	17149174	207	47123										
NPS	594857	broad.mit.edu	37	chr10	129350859	129350859	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggtcctttcgcaatggagttGgcacagggatgaaaaaaact	12	7	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:129350859G>C	uc001ljx.1	+	3	246	c.226G>C	c.(226-228)GGC>CGC	p.G76R		NM_001030013	NP_001025184	P0C0P6	NPS_HUMAN	neuropeptide S precursor	76					neuropeptide signaling pathway	extracellular region					0						CAATGGAGTTGGCACAGGGAT	0.423													60	198	---	---	---	---	PASS	C	129350859	C	C	129350859	3	2	131	1	0	0	0	0	1	0	0	0	10599	1348	47	4	236	4	NPS	10	129350859	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	10965286	129350859	6183888	208	47124										
INPP5A	3632	broad.mit.edu	37	chr10	134563057	134563057	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccaccatgcagacggtccggGccgccgacaccaatgaagtg	12	15	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:134563057G>T	uc001llp.2	+	10	1017	c.769G>T	c.(769-771)GCC>TCC	p.A257S	INPP5A_uc001llo.1_Missense_Mutation_p.A257S|INPP5A_uc001llq.2_Intron	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	257					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		GACGGTCCGGGCCGCCGACAC	0.627													8	50	---	---	---	---	PASS	T	134563057	T	T	134563057	3	4	131	1	0	0	0	0	1	0	0	0	7754	1203	42	3	807	3	INPP5A	10	134563057	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	5212198	134563057	971690	209	47125										
PAOX	196743	broad.mit.edu	37	chr10	135203156	135203156	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gctggcacagcgccccgtacActagggggtcctacagctac	12	15	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr10:135203156A>C	uc001lmv.2	+	6	1377	c.1297A>C	c.(1297-1299)ACT>CCT	p.T433P	PAOX_uc001lmw.2_Intron|PAOX_uc001lmx.2_Intron|PAOX_uc001lmy.2_Intron|PAOX_uc001lmz.2_RNA|PAOX_uc001lna.2_RNA|PAOX_uc001lnb.2_RNA|PAOX_uc001lnc.2_RNA	NM_152911	NP_690875	Q6QHF9	PAOX_HUMAN	polyamine oxidase isoform 1	571					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		CGCCCCGTACACTAGGGGGTC	0.672													55	47	---	---	---	---	PASS	C	135203156	C	C	135203156	3	2	131	1	0	0	0	0	1	0	0	0	11423	159	6	5	1319	5	PAOX	10	135203156	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	640099	135203156	331591	210	47126										
UBQLNL	143630	broad.mit.edu	37	chr11	5536531	5536531	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctctatgctaggtaaggctgGtatccaagctggctgccgag	13	10	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:5536531G>T	uc001maz.3	-	1	1426	c.1141C>A	c.(1141-1143)CCA>ACA	p.P381T	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	381										large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		GGTAAGGCTGGTATCCAAGCT	0.488													83	84	---	---	---	---	PASS	T	5536531	T	T	5536531	3	4	131	1	0	0	0	0	1	0	0	0	16897	1261	44	3	290	3	UBQLNL	11	5536531	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08		5536531	129469985	211	47127										
OR56A4	120793	broad.mit.edu	37	chr11	6023660	6023660	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgtcatcacaagagagtttgGacacagacaggttactgcag	11	8	2	2	rs116778909	by1000genomes	TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:6023660G>A	uc010qzv.1	-	1	719	c.719C>T	c.(718-720)TCC>TTC	p.S240F		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	188	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGAGAGTTTGGACACAGACAG	0.443													15	87	---	---	---	---	PASS	A	6023660	A	A	6023660	3	1	131	1	0	0	0	0	1	0	0	0	11135	1174	41	2	380	2	OR56A4	11	6023660	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	487129	6023660	128982856	212	47128										
CNGA4	1262	broad.mit.edu	37	chr11	6261348	6261348	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aagggtaggatctcgagtcgCtacgttcgcacctggagttt	13	9	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:6261348C>T	uc001mco.2	+	4	431	c.324C>T	c.(322-324)CGC>CGT	p.R108R	CNGA4_uc010raa.1_Intron|CNGA4_uc001mcn.2_Silent_p.R68R	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	108	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCTCGAGTCGCTACGTTCGCA	0.602													134	131	---	---	---	---	PASS	T	6261348	T	T	6261348	2	4	131	1	0	0	0	0	0	0	0	1	3599	784	28	3		3	CNGA4	11	6261348	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	237688	6261348	128745168	213	47129										
LYVE1	10894	broad.mit.edu	37	chr11	10585798	10585798	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctgtttcaacttggtccttgCcggccaaacttagtcccagc	8	14	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:10585798C>T	uc001miv.2	-	2	495	c.209G>A	c.(208-210)GGC>GAC	p.G70D	uc001miu.2_Intron|LYVE1_uc010rca.1_Intron	NM_006691	NP_006682	Q9Y5Y7	LYVE1_HUMAN	lymphatic vessel endothelial hyaluronan receptor	70	Link.|Extracellular (Potential).				anatomical structure morphogenesis|cell-matrix adhesion|cellular component movement|response to wounding|transport	integral to plasma membrane|membrane fraction				central_nervous_system(1)|skin(1)	2				all cancers(16;7.22e-08)|Epithelial(150;1.03e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0609)		TTGGTCCTTGCCGGCCAAACT	0.473													4	108	---	---	---	---	PASS	T	10585798	T	T	10585798	3	4	131	1	0	0	0	0	1	0	0	0	9129	739	26	3	779	3	LYVE1	11	10585798	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	4324450	10585798	124420718	214	47130										
SLC5A12	159963	broad.mit.edu	37	chr11	26743259	26743259	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	actgcaaagttcttcacctcCatattggaaagtatgacacc	6	11	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:26743259C>A	uc001mra.2	-	1	316	c.3G>T	c.(1-3)ATG>ATT	p.M1I	SLC5A12_uc001mrb.2_Intron|SLC5A12_uc001mrc.3_Missense_Mutation_p.M1I	NM_178498	NP_848593	Q1EHB4	SC5AC_HUMAN	solute carrier family 5 (sodium/glucose	1	Extracellular (Potential).				sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(1)|skin(1)	2						TCTTCACCTCCATATTGGAAA	0.408													97	126	---	---	---	---	PASS	A	26743259	A	A	26743259	3	1	131	1	0	0	0	0	1	0	0	0	14664	594	21	3	1913	3	SLC5A12	11	26743259	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	16157461	26743259	108263257	215	47131										
DDB2	1643	broad.mit.edu	37	chr11	47259387	47259387	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gccggcctctccatctcctaGgcagcctggcatcctcgcta	9	18	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:47259387G>A	uc001neb.2	+	8	1219	c.1024_splice	c.e8-1	p.A342_splice	DDB2_uc001nec.2_Splice_Site|DDB2_uc009yli.1_Splice_Site_p.A278_splice|DDB2_uc001ned.2_Splice_Site|DDB2_uc001nee.2_Splice_Site_p.A153_splice|DDB2_uc001nef.2_Splice_Site_p.A139_splice|DDB2_uc001neg.2_Splice_Site_p.A201_splice|DDB2_uc001neh.2_Splice_Site	NM_000107	NP_000098	Q92466	DDB2_HUMAN	damage-specific DNA binding protein 2						nucleotide-excision repair, DNA damage removal|protein autoubiquitination|protein polyubiquitination|response to UV	nucleoplasm|protein complex	damaged DNA binding|protein binding			kidney(2)|ovary(1)	3						CCATCTCCTAGGCAGCCTGGC	0.453			Mis|N			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				65	21	---	---	---	---	PASS	A	47259387	A	A	47259387	5	1	131	1	0	0	0	0	0	0	1	0	4324	1014	35	3	1053	3	DDB2	11	47259387	Splice_Site	SNP	G	TCGA-60-2722-01A-01D-1522-08	20516128	47259387	87747129	216	47132										
PTPRJ	5795	broad.mit.edu	37	chr11	48145189	48145189	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gatcccagtttctgatctccGtgttgccctcacgggtgtga	11	12	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:48145189G>T	uc001ngp.3	+	5	996	c.641G>T	c.(640-642)CGT>CTT	p.R214L	PTPRJ_uc001ngo.3_Missense_Mutation_p.R214L	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	214	Extracellular (Potential).|Fibronectin type-III 2.		R -> C (in a colon cancer sample; somatic mutation).		contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						TCTGATCTCCGTGTTGCCCTC	0.478													48	13	---	---	---	---	PASS	T	48145189	T	T	48145189	3	4	131	1	0	0	0	0	1	0	0	0	12804	1145	40	1	659	1	PTPRJ	11	48145189	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	885802	48145189	86861327	217	47133										
OR5D16	390144	broad.mit.edu	37	chr11	55606581	55606581	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	actgaattaattctatttgcGgtgatggcctatgaccactt	8	8	1	3	rs139231893	byFrequency	TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:55606581G>T	uc010rio.1	+	1	354	c.354G>T	c.(352-354)GCG>GCT	p.A118A		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	118	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.A118V(1)		ovary(4)|skin(1)	5		all_epithelial(135;0.208)				TTCTATTTGCGGTGATGGCCT	0.423													128	200	---	---	---	---	PASS	T	55606581	T	T	55606581	2	4	131	1	0	0	0	0	0	0	0	1	11156	1103	39	1		1	OR5D16	11	55606581	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	7461392	55606581	79399935	218	47134										
OR5F1	338674	broad.mit.edu	37	chr11	55761527	55761527	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttatgctttctttcaggattGtgtcagaacaagagagcttg	10	6	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:55761527G>T	uc010riv.1	-	1	575	c.575C>A	c.(574-576)ACA>AAA	p.T192K		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	192	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					TTTCAGGATTGTGTCAGAACA	0.448													31	69	---	---	---	---	PASS	T	55761527	T	T	55761527	3	4	131	1	0	0	0	0	1	0	0	0	11158	1377	48	3	372	3	OR5F1	11	55761527	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	154946	55761527	79244989	219	47135										
PRG3	10394	broad.mit.edu	37	chr11	57146214	57146214	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttgactgtgctagtgcagcaCtgaatgcgatagttgaagtt	12	6	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:57146214C>G	uc001njv.1	-	4	557	c.447G>C	c.(445-447)CAG>CAC	p.Q149H		NM_006093	NP_006084	Q9Y2Y8	PRG3_HUMAN	proteoglycan 3 precursor	149	C-type lectin.				basophil activation|histamine biosynthetic process|immune response|leukotriene biosynthetic process|negative regulation of translation|neutrophil activation|positive regulation of interleukin-8 biosynthetic process|superoxide anion generation		sugar binding				0						TAGTGCAGCACTGAATGCGAT	0.502													8	491	---	---	---	---	PASS	G	57146214	G	G	57146214	3	3	131	1	0	0	0	0	1	0	0	0	12480	564	20	4	242	4	PRG3	11	57146214	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1384687	57146214	77860302	220	47136										
CATSPER1	117144	broad.mit.edu	37	chr11	65786339	65786339	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tttttctcgatgagccgcttCagcatggtgccttcactcgc	9	13	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:65786339C>T	uc001ogt.2	-	10	2298	c.2160G>A	c.(2158-2160)CTG>CTA	p.L720L		NM_053054	NP_444282	Q8NEC5	CTSR1_HUMAN	sperm-associated cation channel 1	720	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	protein binding			ovary(2)	2						TGAGCCGCTTCAGCATGGTGC	0.587													39	66	---	---	---	---	PASS	T	65786339	T	T	65786339	2	4	131	1	0	0	0	0	0	0	0	1	2687	813	29	2		2	CATSPER1	11	65786339	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	8640125	65786339	69220177	221	47137										
TMPRSS4	56649	broad.mit.edu	37	chr11	117978579	117978579	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agccaggagcttcgcatgcgGaactcaagtgggtaagtgag	15	8	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:117978579G>A	uc010rxo.1	+	6	822	c.531G>A	c.(529-531)CGG>CGA	p.R177R	TMPRSS4_uc010rxp.1_Silent_p.R172R|TMPRSS4_uc010rxq.1_Silent_p.R30R|TMPRSS4_uc010rxr.1_Silent_p.R152R|TMPRSS4_uc010rxs.1_Silent_p.R137R|TMPRSS4_uc009yzu.2_RNA|TMPRSS4_uc010rxt.1_Silent_p.R152R	NM_019894	NP_063947	Q9NRS4	TMPS4_HUMAN	transmembrane protease, serine 4 isoform 1	177	Extracellular (Potential).|SRCR.				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0431)|all_hematologic(192;0.164)|Breast(348;0.183)|all_neural(223;0.238)		BRCA - Breast invasive adenocarcinoma(274;4.16e-05)|Epithelial(105;0.00204)		TTCGCATGCGGAACTCAAGTG	0.547													27	6	---	---	---	---	PASS	A	117978579	A	A	117978579	2	1	131	1	0	0	0	0	0	0	0	1	16246	1161	41	2		2	TMPRSS4	11	117978579	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	52192240	117978579	17027937	222	47138										
OR8B8	26493	broad.mit.edu	37	chr11	124310284	124310284	+	Frame_Shift_Del	DEL	C	-	-													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgctgaaggctttggacctgCcctccgtggaatcaatgtgg							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:124310284delC	uc010sal.1	-	1	698	c.698delG	c.(697-699)GGCfs	p.G233fs		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	233	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		TTTGGACCTGCCCTCCGTGGA	0.463													33	108	---	---	---	---		-	124310284	-	-	124310284	7	5	131	1	0	1	0	1	0	0	0	0	11230	739	26	0	240	0	OR8B8	11	124310284	Frame_Shift_Del	DEL	C	TCGA-60-2722-01A-01D-1522-08	6331705	124310284	10696232	223	47139										
OR8A1	390275	broad.mit.edu	37	chr11	124440209	124440209	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	catgtactactttctcagcaAtctgtcactcatggatctct	5	12	5	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr11:124440209A>G	uc010san.1	+	1	245	c.245A>G	c.(244-246)AAT>AGT	p.N82S		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	82	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		TTTCTCAGCAATCTGTCACTC	0.493													4	151	---	---	---	---	PASS	G	124440209	G	G	124440209	3	3	131	1	0	0	0	0	1	0	0	0	11225	101	4	5	247	5	OR8A1	11	124440209	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	129925	124440209	10566307	224	47140										
MRPL51	51258	broad.mit.edu	37	chr12	6601442	6601442	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tctcagctttctcttctatcGaaacttcccatgtcggttaa	5	12	3	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:6601442G>A	uc001qom.2	-	3	551	c.382C>T	c.(382-384)CGA>TGA	p.R128*	MRPL51_uc001qon.1_RNA|NCAPD2_uc009zen.1_5'Flank|NCAPD2_uc001qoo.2_5'Flank|NCAPD2_uc010sfd.1_5'Flank	NM_016497	NP_057581	Q4U2R6	RM51_HUMAN	mitochondrial ribosomal protein L51 precursor	128					translation	mitochondrial large ribosomal subunit	protein binding|structural constituent of ribosome				0						CTCTTCTATCGAAACTTCCCA	0.438													62	210	---	---	---	---	PASS	A	6601442	A	A	6601442	4	1	131	1	0	0	0	0	0	1	0	0	9815	1066	37	2	8	2	MRPL51	12	6601442	Nonsense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08		6601442	127250453	225	47141										
A2ML1	144568	broad.mit.edu	37	chr12	9009779	9009779	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggagacattatgggcacagcCctgcagaacctggatggtct	13	10	1	2	rs56179521	by1000genomes	TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:9009779C>A	uc001quz.3	+	24	2966	c.2868C>A	c.(2866-2868)GCC>GCA	p.A956A	A2ML1_uc001qva.1_Silent_p.A536A|A2ML1_uc010sgm.1_Silent_p.A456A	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	800						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TGGGCACAGCCCTGCAGAACC	0.507													33	110	---	---	---	---	PASS	A	9009779	A	A	9009779	2	1	131	1	0	0	0	0	0	0	0	1	5	610	22	3		3	A2ML1	12	9009779	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	2408337	9009779	124842116	226	47142										
GRIN2B	2904	broad.mit.edu	37	chr12	13720031	13720031	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	caatgtcggaactgccaataGaaaaggtgttcgcagatgaa	11	7	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:13720031G>A	uc001rbt.2	-	12	2705	c.2526C>T	c.(2524-2526)TTC>TTT	p.F842F		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	842	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ACTGCCAATAGAAAAGGTGTT	0.498													72	47	---	---	---	---	PASS	A	13720031	A	A	13720031	2	1	131	1	0	0	0	0	0	0	0	1	6780	933	33	2		2	GRIN2B	12	13720031	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	4710252	13720031	120131864	227	47143										
GYS2	2998	broad.mit.edu	37	chr12	21690000	21690000	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cctcctcttcctcatcgtatCtctcatcctccacttcatct	1	19	6	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:21690000C>T	uc001rfb.2	-	16	2255	c.2000G>A	c.(1999-2001)AGA>AAA	p.R667K		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	667					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						CTCATCGTATCTCTCATCCTC	0.483													92	56	---	---	---	---	PASS	T	21690000	T	T	21690000	3	4	131	1	0	0	0	0	1	0	0	0	6913	913	32	2	115	2	GYS2	12	21690000	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	7969969	21690000	112161895	228	47144										
SOX5	6660	broad.mit.edu	37	chr12	23998945	23998945	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcgtttttgatgagctcttcCattttcctctgcttcaaggt	7	10	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:23998945C>T	uc001rfw.2	-	3	555	c.453G>A	c.(451-453)ATG>ATA	p.M151I	SOX5_uc001rfx.2_Missense_Mutation_p.M138I|SOX5_uc001rfy.2_Missense_Mutation_p.M138I|SOX5_uc010siv.1_Missense_Mutation_p.M138I|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.M103I|SOX5_uc001rga.2_Missense_Mutation_p.M116I	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	151					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TGAGCTCTTCCATTTTCCTCT	0.443													37	88	---	---	---	---	PASS	T	23998945	T	T	23998945	3	4	131	1	0	0	0	0	1	0	0	0	14954	594	21	3	1900	3	SOX5	12	23998945	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	2308945	23998945	109852950	229	47145										
NELL2	4753	broad.mit.edu	37	chr12	44917246	44917246	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cattggcacagctgtgcctcCcggtcccacactcatcaata	7	16	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:44917246C>A	uc001rog.2	-	17	2421	c.1826G>T	c.(1825-1827)GGG>GTG	p.G609V	NELL2_uc001rof.3_Missense_Mutation_p.G608V|NELL2_uc001roh.2_Missense_Mutation_p.G609V|NELL2_uc009zkd.2_Missense_Mutation_p.G561V|NELL2_uc010skz.1_Missense_Mutation_p.G659V|NELL2_uc010sla.1_Missense_Mutation_p.G632V|NELL2_uc001roi.1_Missense_Mutation_p.G609V	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	609	EGF-like 6; calcium-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		GCTGTGCCTCCCGGTCCCACA	0.448													70	55	---	---	---	---	PASS	A	44917246	A	A	44917246	3	1	131	1	0	0	0	0	1	0	0	0	10334	623	22	3	640	3	NELL2	12	44917246	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	20918301	44917246	88934649	230	47146										
TMPRSS12	283471	broad.mit.edu	37	chr12	51252600	51252600	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtggacagctgtgattggaaCtaataatatacatggacgct	11	6	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:51252600C>T	uc001rwx.3	+	3	463	c.416C>T	c.(415-417)ACT>ATT	p.T139I	TMPRSS12_uc001rwy.2_Missense_Mutation_p.T139I	NM_182559	NP_872365	Q86WS5	TMPSC_HUMAN	transmembrane protease, serine 12 precursor	139	Peptidase S1.|Extracellular (Potential).				proteolysis	integral to membrane	serine-type endopeptidase activity				0						GTGATTGGAACTAATAATATA	0.279													6	19	---	---	---	---	PASS	T	51252600	T	T	51252600	3	4	131	1	0	0	0	0	1	0	0	0	16241	565	20	3	426	3	TMPRSS12	12	51252600	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	6335354	51252600	82599295	231	47147										
POU6F1	5463	broad.mit.edu	37	chr12	51584082	51584082	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgttcttgagcgtctggcgcCgattgcagaaccagacccgc	12	13	2	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:51584082C>T	uc001rxy.2	-	5	1046	c.854G>A	c.(853-855)CGG>CAG	p.R285Q	POU6F1_uc001rxz.2_Missense_Mutation_p.R285Q|POU6F1_uc001rya.2_Missense_Mutation_p.R285Q	NM_002702	NP_002693	Q14863	PO6F1_HUMAN	POU class 6 homeobox 1	285	Homeobox.				brain development|heart development|muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						CGTCTGGCGCCGATTGCAGAA	0.542													57	57	---	---	---	---	PASS	T	51584082	T	T	51584082	3	4	131	1	0	0	0	0	1	0	0	0	12284	652	23	1	55	1	POU6F1	12	51584082	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	331482	51584082	82267813	232	47148										
KRT72	140807	broad.mit.edu	37	chr12	52992806	52992806	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtagccctcataaatgggctCcaggttcttcctgcagttgt	10	11	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:52992806C>A	uc001sar.2	-	2	603	c.517G>T	c.(517-519)GAG>TAG	p.E173*	KRT72_uc001saq.2_Nonsense_Mutation_p.E173*|KRT72_uc010sns.1_Nonsense_Mutation_p.E173*|KRT72_uc010snt.1_5'UTR	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	173	Linker 1.|Rod.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		TAAATGGGCTCCAGGTTCTTC	0.562													6	198	---	---	---	---	PASS	A	52992806	A	A	52992806	4	1	131	1	0	0	0	0	0	1	0	0	8485	864	30	2	1050	2	KRT72	12	52992806	Nonsense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1408724	52992806	80859089	233	47149										
OR10A7	121364	broad.mit.edu	37	chr12	55615466	55615466	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcattttggtttcctacaccCgcattatcataacaattctg	4	11	3	0	rs138358769		TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:55615466C>T	uc010spf.1	+	1	658	c.658C>T	c.(658-660)CGC>TGC	p.R220C		NM_001005280	NP_001005280	Q8NGE5	O10A7_HUMAN	olfactory receptor, family 10, subfamily A,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)	4						TTCCTACACCCGCATTATCAT	0.458													27	60	---	---	---	---	PASS	T	55615466	T	T	55615466	3	4	131	1	0	0	0	0	1	0	0	0	10895	652	23	1	660	1	OR10A7	12	55615466	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	2622660	55615466	78236429	234	47150										
PAN2	9924	broad.mit.edu	37	chr12	56711394	56711394	+	Nonstop_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggttctttgggaagggtagtCagagcgccagcactgaggag	17	7	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:56711394C>A	uc001skx.2	-	26	3981	c.3608G>T	c.(3607-3609)TGA>TTA	p.*1203L	CNPY2_uc001sku.1_5'Flank|CNPY2_uc001skv.2_5'Flank|PAN2_uc001skw.2_Nonstop_Mutation_p.*351L|PAN2_uc001skz.2_Nonstop_Mutation_p.*1202L|PAN2_uc001sky.2_Nonstop_Mutation_p.*1199L	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	1203					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						GAAGGGTAGTCAGAGCGCCAG	0.488													15	12	---	---	---	---	PASS	A	56711394	A	A	56711394	4	1	131	1	0	0	0	0	0	0	0	0	11414	837	29	2	4	2	PAN2	12	56711394	Nonstop_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1095928	56711394	77140501	235	47151										
PRIM1	5557	broad.mit.edu	37	chr12	57144981	57144981	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgaaagtaattctttatcacTgcaaaataaatgtacatttt	4	5	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:57144981T>A	uc001smd.2	-	2	168	c.104_splice	c.e2-1	p.V35_splice	PRIM1_uc001sme.1_Splice_Site|PRIM1_uc009zoz.1_Splice_Site|PRIM1_uc001smf.2_Splice_Site_p.V35_splice	NM_000946	NP_000937	P49642	PRI1_HUMAN	DNA primase polypeptide 1						DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	DNA primase activity|metal ion binding				0						TCTTTATCACTGCAAAATAAA	0.318													3	5	---	---	---	---	PASS	A	57144981	A	A	57144981	5	1	131	1	0	0	0	0	0	0	1	0	12490	1594	55	5	1208	5	PRIM1	12	57144981	Splice_Site	SNP	T	TCGA-60-2722-01A-01D-1522-08	433587	57144981	76706914	236	47152										
IRAK3	11213	broad.mit.edu	37	chr12	66638391	66638391	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cagcagcagcagtaaacatcTgtggtacatgccagaagagt	11	9	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:66638391T>A	uc001sth.2	+	9	1115	c.1013T>A	c.(1012-1014)CTG>CAG	p.L338Q	IRAK3_uc010ssy.1_Missense_Mutation_p.L277Q	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	338	Protein kinase.				interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		AGTAAACATCTGTGGTACATG	0.428													9	141	---	---	---	---	PASS	A	66638391	A	A	66638391	3	1	131	1	0	0	0	0	1	0	0	0	7824	1580	55	5	1047	5	IRAK3	12	66638391	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	9493410	66638391	67213504	237	47153										
BEST3	144453	broad.mit.edu	37	chr12	70048959	70048959	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggtatcaccagggtcttcttCacagttgaatatattttcct	7	9	4	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:70048959C>T	uc001svg.2	-	10	1962	c.1735G>A	c.(1735-1737)GAA>AAA	p.E579K	BEST3_uc001svd.1_Intron|BEST3_uc001sve.1_Intron|BEST3_uc001svf.2_Missense_Mutation_p.E366K|BEST3_uc010stm.1_Missense_Mutation_p.E473K	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	579	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			GGGTCTTCTTCACAGTTGAAT	0.537													54	30	---	---	---	---	PASS	T	70048959	T	T	70048959	3	4	131	1	0	0	0	0	1	0	0	0	1406	835	29	2	275	2	BEST3	12	70048959	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	3410568	70048959	63802936	238	47154										
PTPRB	5787	broad.mit.edu	37	chr12	70934690	70934690	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aacagccactagcatgccaaTtaaaaacagaccagcactca	5	13	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:70934690T>C	uc001swb.3	-	21	4918	c.4888A>G	c.(4888-4890)ATT>GTT	p.I1630V	PTPRB_uc010sto.1_Missense_Mutation_p.I1540V|PTPRB_uc010stp.1_Missense_Mutation_p.I1540V|PTPRB_uc001swc.3_Missense_Mutation_p.I1848V|PTPRB_uc001swa.3_Missense_Mutation_p.I1760V	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1630	Helical; (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			AGCATGCCAATTAAAAACAGA	0.413													3	15	---	---	---	---	PASS	C	70934690	C	C	70934690	3	2	131	1	0	0	0	0	1	0	0	0	12796	1493	52	5	1153	5	PTPRB	12	70934690	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	885731	70934690	62917205	239	47155										
ANO4	121601	broad.mit.edu	37	chr12	101336160	101336160	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tctctttgtgtgcagacagtGccagaaagaaacaaatcaaa	8	8	2	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:101336160G>A	uc010svm.1	+	5	875	c.303G>A	c.(301-303)GTG>GTA	p.V101V	ANO4_uc010svl.1_RNA|ANO4_uc001thw.2_Silent_p.V66V|ANO4_uc001thx.2_Silent_p.V101V	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	101	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						TGCAGACAGTGCCAGAAAGAA	0.353										HNSCC(74;0.22)			77	59	---	---	---	---	PASS	A	101336160	A	A	101336160	2	1	131	1	0	0	0	0	0	0	0	1	699	1306	46	3		3	ANO4	12	101336160	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	30401470	101336160	32515735	240	47156										
MYBPC1	4604	broad.mit.edu	37	chr12	102064101	102064101	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tattttaccctctctcagaaCctccaaagattcgcattcca	3	14	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:102064101C>G	uc001tii.2	+	23	2608	c.2506C>G	c.(2506-2508)CCT>GCT	p.P836A	MYBPC1_uc001tig.2_Missense_Mutation_p.P843A|MYBPC1_uc010svq.1_Missense_Mutation_p.P805A|MYBPC1_uc001tih.2_Missense_Mutation_p.P843A|MYBPC1_uc001tij.2_Missense_Mutation_p.P818A|MYBPC1_uc010svr.1_Missense_Mutation_p.P818A|MYBPC1_uc010svs.1_Missense_Mutation_p.P836A|MYBPC1_uc010svt.1_Missense_Mutation_p.P806A|MYBPC1_uc010svu.1_Missense_Mutation_p.P799A|MYBPC1_uc001tik.2_Missense_Mutation_p.P792A|MYBPC1_uc001til.2_5'UTR|MYBPC1_uc001tim.2_5'UTR	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	836					cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						TCTCTCAGAACCTCCAAAGAT	0.438													43	181	---	---	---	---	PASS	G	102064101	G	G	102064101	3	3	131	1	0	0	0	0	1	0	0	0	10011	507	18	4	2679	4	MYBPC1	12	102064101	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	727941	102064101	31787794	241	47157										
CCDC63	160762	broad.mit.edu	37	chr12	111342414	111342414	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	atcattgaaaagaagaccaaCgacctgctgctgttggagac	10	9	1	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:111342414C>A	uc001trv.1	+	11	1560	c.1365C>A	c.(1363-1365)AAC>AAA	p.N455K	CCDC63_uc010sye.1_Missense_Mutation_p.N415K|CCDC63_uc001trw.1_Missense_Mutation_p.N370K	NM_152591	NP_689804	Q8NA47	CCD63_HUMAN	coiled-coil domain containing 63	455										skin(6)|ovary(1)|pancreas(1)	8						AGAAGACCAACGACCTGCTGC	0.597													27	91	---	---	---	---	PASS	A	111342414	A	A	111342414	3	1	131	1	0	0	0	0	1	0	0	0	2834	535	19	1	1403	1	CCDC63	12	111342414	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	9278313	111342414	22509481	242	47158										
C12orf51	283450	broad.mit.edu	37	chr12	112622092	112622092	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtccgacaccgaggccgtctCtgcattgtccaggggctccc	12	16	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:112622092C>T	uc009zwc.2	-	54	9430	c.9412G>A	c.(9412-9414)GAG>AAG	p.E3138K		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						GAGGCCGTCTCTGCATTGTCC	0.552													23	67	---	---	---	---	PASS	T	112622092	T	T	112622092	3	4	131	1	0	0	0	0	1	0	0	0	1696	922	32	2	2642	2	C12orf51	12	112622092	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1279678	112622092	21229803	243	47159										
DNAH10	196385	broad.mit.edu	37	chr12	124397757	124397757	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	attgggtgccaaatatgaggCcgccatactggaaaagcaga	12	8	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:124397757C>A	uc001uft.3	+	59	9918	c.9893C>A	c.(9892-9894)GCC>GAC	p.A3298D		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	3298	Potential.|Stalk (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)		AAATATGAGGCCGCCATACTG	0.502													14	4	---	---	---	---	PASS	A	124397757	A	A	124397757	3	1	131	1	0	0	0	0	1	0	0	0	4598	739	26	3	10127	3	DNAH10	12	124397757	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	11775665	124397757	9454138	244	47160										
SCARB1	949	broad.mit.edu	37	chr12	125294743	125294743	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	caggcctccgggctgtagaaCtccagcgaggactcaggagt	14	12	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:125294743C>T	uc001ugo.3	-	6	1072	c.819G>A	c.(817-819)GAG>GAA	p.E273E	SCARB1_uc001ugn.3_Silent_p.E273E|SCARB1_uc001ugm.3_Silent_p.E273E|SCARB1_uc010tbd.1_Silent_p.E273E|SCARB1_uc010tbe.1_Silent_p.E232E|SCARB1_uc001ugp.3_Silent_p.E273E	NM_005505	NP_005496	Q8WTV0	SCRB1_HUMAN	scavenger receptor class B, member 1 isoform 1	273	Extracellular (Potential).				adhesion to symbiont|cell adhesion|cholesterol efflux|cholesterol homeostasis|cholesterol import|detection of lipopolysaccharide|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|lipopolysaccharide transport|lipoprotein metabolic process|positive regulation of cholesterol storage|positive regulation of endothelial cell migration|positive regulation of nitric-oxide synthase activity|recognition of apoptotic cell|reverse cholesterol transport|triglyceride homeostasis|wound healing	caveola	1-phosphatidylinositol binding|apolipoprotein A-I binding|high-density lipoprotein particle receptor activity|lipopolysaccharide receptor activity|low-density lipoprotein particle binding|phosphatidylserine binding|transporter activity			kidney(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000116)|Epithelial(86;0.000415)|all cancers(50;0.00395)	Phosphatidylserine(DB00144)	GGCTGTAGAACTCCAGCGAGG	0.572													6	36	---	---	---	---	PASS	T	125294743	T	T	125294743	2	4	131	1	0	0	0	0	0	0	0	1	13881	564	20	3		3	SCARB1	12	125294743	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	896986	125294743	8557152	245	47161										
UBC	7316	broad.mit.edu	37	chr12	125397880	125397880	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	atcccacctctgagacggagCaccaggtgcagggtagactc	12	13	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr12:125397880C>A	uc001ugs.3	-	2	886	c.438G>T	c.(436-438)GTG>GTT	p.V146V	UBC_uc001ugr.2_5'Flank|UBC_uc001ugu.1_Silent_p.V146V|UBC_uc001ugt.2_Silent_p.V146V|UBC_uc001ugv.2_Intron|UBC_uc001ugw.2_5'UTR	NM_021009	NP_066289	P0CG48	UBC_HUMAN	ubiquitin C	146	Ubiquitin-like 2.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.17e-05)|Epithelial(86;0.000207)|all cancers(50;0.00308)		TGAGACGGAGCACCAGGTGCA	0.557													189	140	---	---	---	---	PASS	A	125397880	A	A	125397880	2	1	131	1	0	0	0	0	0	0	0	1	16839	697	25	3		3	UBC	12	125397880	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	103137	125397880	8454015	246	47162										
C13orf30	144809	broad.mit.edu	37	chr13	43358264	43358264	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttccacaacttccttttattCgagttcctccctccatctat	2	15	1	0	rs1853636		TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr13:43358264C>T	uc010tfk.1	+	2	184	c.61C>T	c.(61-63)CGA>TGA	p.R21*	C13orf30_uc010tfl.1_Nonsense_Mutation_p.R21*	NM_182508	NP_872314	Q8N7L0	CM030_HUMAN	hypothetical protein LOC144809	21											0		Lung NSC(96;0.000369)|Prostate(109;0.0305)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.000512)|OV - Ovarian serous cystadenocarcinoma(117;0.000563)|BRCA - Breast invasive adenocarcinoma(63;0.0677)		TCCTTTTATTCGAGTTCCTCC	0.373													30	47	---	---	---	---	PASS	T	43358264	T	T	43358264	4	4	131	1	0	0	0	0	0	1	0	0	1725	876	31	2	63	2	C13orf30	13	43358264	Nonsense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08		43358264	71811614	247	47163										
SLITRK1	114798	broad.mit.edu	37	chr13	84455097	84455097	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agcctgttaccccggaggtcGaggtgggtgatgggcacata	16	9	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr13:84455097G>C	uc001vlk.2	-	1	1432	c.546C>G	c.(544-546)CTC>CTG	p.L182L		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	182	Extracellular (Potential).|LRR 6.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CCCGGAGGTCGAGGTGGGTGA	0.527													71	26	---	---	---	---	PASS	C	84455097	C	C	84455097	2	2	131	1	0	0	0	0	0	0	0	1	14742	1045	37	2		2	SLITRK1	13	84455097	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	41096833	84455097	30714781	248	47164										
RNASE3	6037	broad.mit.edu	37	chr14	21360008	21360008	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctcgatgcaccattgcaatgCgggcaattaacaattatcga	8	10	0	0	rs115812876	by1000genomes	TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr14:21360008C>A	uc001vyj.2	+	2	217	c.163C>A	c.(163-165)CGG>AGG	p.R55R		NM_002935	NP_002926	P12724	ECP_HUMAN	ribonuclease, RNase A family, 3 (eosinophil	55					defense response to bacterium|RNA catabolic process	extracellular region|soluble fraction	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00453)		OV - Ovarian serous cystadenocarcinoma(11;6.3e-09)|Epithelial(56;1.42e-07)|all cancers(55;5.48e-07)	GBM - Glioblastoma multiforme(265;0.0187)	Pranlukast(DB01411)	CATTGCAATGCGGGCAATTAA	0.463													97	110	---	---	---	---	PASS	A	21360008	A	A	21360008	2	1	131	1	0	0	0	0	0	0	0	1	13405	759	27	1		1	RNASE3	14	21360008	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08		21360008	85989532	249	47165										
HAUS4	54930	broad.mit.edu	37	chr14	23420834	23420834	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtggaggtatctccctctccTggctaggacctaagagccgc	12	13	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr14:23420834T>C	uc001whp.2	-	4	426	c.395A>G	c.(394-396)CAG>CGG	p.Q132R	HAUS4_uc001who.2_Intron|HAUS4_uc001whq.2_Intron|HAUS4_uc001whr.2_Missense_Mutation_p.Q132R|HAUS4_uc001whs.2_Intron|HAUS4_uc001wht.2_Missense_Mutation_p.Q132R|HAUS4_uc001whu.2_Intron|HAUS4_uc001whv.2_Missense_Mutation_p.Q8R|HAUS4_uc001whw.2_Missense_Mutation_p.Q132R|HAUS4_uc001whx.2_Intron	NM_017815	NP_060285	Q9H6D7	HAUS4_HUMAN	HAUS augmin-like complex, subunit 4	132					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				ovary(1)	1						CTCCCTCTCCTGGCTAGGACC	0.498													43	45	---	---	---	---	PASS	C	23420834	C	C	23420834	3	2	131	1	0	0	0	0	1	0	0	0	6968	1580	55	5	720	5	HAUS4	14	23420834	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	2060826	23420834	83928706	250	47166										
ACIN1	22985	broad.mit.edu	37	chr14	23549970	23549970	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggaaggtgtttcttgatcctCttcctcctcagcaggttggc	11	11	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr14:23549970C>A	uc001wit.3	-	6	1076	c.748G>T	c.(748-750)GAG>TAG	p.E250*	ACIN1_uc001wis.3_5'UTR|ACIN1_uc010akg.2_Nonsense_Mutation_p.E250*|ACIN1_uc010tnj.1_Nonsense_Mutation_p.E210*	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	250	Glu-rich.				apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		TCTTGATCCTCTTCCTCCTCA	0.363													253	396	---	---	---	---	PASS	A	23549970	A	A	23549970	4	1	131	1	0	0	0	0	0	1	0	0	142	922	32	2	3480	2	ACIN1	14	23549970	Nonsense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	129136	23549970	83799570	251	47167										
PABPN1	8106	broad.mit.edu	37	chr14	23777252	23777252	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctttttcaagggggccccaaCtggggccgccttgtagcctt	12	13	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr14:23777252C>T	uc001wjh.3	+	3	464	c.276C>T	c.(274-276)AAC>AAT	p.N92N	BCL2L2_uc001wjg.3_Silent_p.N92N|BCL2L2_uc001wji.3_Silent_p.N92N	NM_004643	NP_004634	Q86U42	PABP2_HUMAN	poly(A) binding protein, nuclear 1	Error:Variant_position_missing_in_Q86U42_after_alignment					modification by virus of host mRNA processing|mRNA 3'-end processing|muscle contraction|nuclear mRNA splicing, via spliceosome|poly(A)+ mRNA export from nucleus|termination of RNA polymerase II transcription|viral infectious cycle	cytoplasm|nucleoplasm|ribonucleoprotein complex	nucleotide binding|protein binding|RNA binding			ovary(2)	2	all_cancers(95;6.69e-06)			GBM - Glioblastoma multiforme(265;0.00643)		GGGGCCCCAACTGGGGCCGCC	0.577													60	110	---	---	---	---	PASS	T	23777252	T	T	23777252	2	4	131	1	0	0	0	0	0	0	0	1	11368	564	20	3		3	PABPN1	14	23777252	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	227282	23777252	83572288	252	47168										
FBXO33	254170	broad.mit.edu	37	chr14	39900916	39900916	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tccgtcccctgggccaccgcCgctcagatagttctcggcgg	12	17	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr14:39900916C>G	uc001wvk.2	-	1	789	c.451G>C	c.(451-453)GGC>CGC	p.G151R		NM_203301	NP_976046	Q7Z6M2	FBX33_HUMAN	F-box protein 33	151											0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00121)|Epithelial(34;0.169)	GBM - Glioblastoma multiforme(112;0.0425)		GGGCCACCGCCGCTCAGATAG	0.672													27	41	---	---	---	---	PASS	G	39900916	G	G	39900916	3	3	131	1	0	0	0	0	1	0	0	0	5743	652	23	4	1232	4	FBXO33	14	39900916	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	16123664	39900916	67448624	253	47169										
MDGA2	161357	broad.mit.edu	37	chr14	47351380	47351380	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aattctcccttttgaatattCccatttattttaatctcctg	2	10	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr14:47351380C>T	uc001wwj.3	-	11	2272	c.2076G>A	c.(2074-2076)GGG>GGA	p.G692G	MDGA2_uc001wwh.3_5'UTR|MDGA2_uc001wwi.3_Silent_p.G463G|MDGA2_uc010ani.2_Silent_p.G252G	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	692					spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						TTTGAATATTCCCATTTATTT	0.378													24	54	---	---	---	---	PASS	T	47351380	T	T	47351380	2	4	131	1	0	0	0	0	0	0	0	1	9407	842	30	2		2	MDGA2	14	47351380	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	7450464	47351380	59998160	254	47170										
GPR137C	283554	broad.mit.edu	37	chr14	53066881	53066881	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aagcctgctctttttagtggTgaacttgacttgcgcaatgc	10	9	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr14:53066881T>C	uc001wzu.3	+	3	539	c.539T>C	c.(538-540)GTG>GCG	p.V180A	GPR137C_uc001wzt.3_Missense_Mutation_p.V180A	NM_001099652	NP_001093122	Q8N3F9	G137C_HUMAN	G protein-coupled receptor 137C	180	Helical; (Potential).					integral to membrane					0	Breast(41;0.0716)					TTTTTAGTGGTGAACTTGACT	0.343													102	132	---	---	---	---	PASS	C	53066881	C	C	53066881	3	2	131	1	0	0	0	0	1	0	0	0	6647	1696	59	5	549	5	GPR137C	14	53066881	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	5715501	53066881	54282659	255	47171										
LTBP2	4053	broad.mit.edu	37	chr14	75052758	75052758	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gggctccacggaaaccagagCggcagacacagagctgcggg	16	12	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr14:75052758C>A	uc001xqa.2	-	3	1016	c.629G>T	c.(628-630)CGC>CTC	p.R210L		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	210	EGF-like 1.				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GAAACCAGAGCGGCAGACACA	0.657													7	5	---	---	---	---	PASS	A	75052758	A	A	75052758	3	1	131	1	0	0	0	0	1	0	0	0	9074	768	27	1	4972	1	LTBP2	14	75052758	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	21985877	75052758	32296782	256	47172										
ATXN3	4287	broad.mit.edu	37	chr14	92555162	92555162	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agagaattcaagttaaaccaCtggaaaaaaattgtcaatat	6	5	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr14:92555162C>T	uc001yac.3	-	6	457	c.388_splice	c.e6-1	p.W130_splice	ATXN3_uc010aug.2_Splice_Site_p.W115_splice|ATXN3_uc001yad.3_Splice_Site_p.W75_splice|ATXN3_uc010auh.2_Splice_Site_p.W64_splice|ATXN3_uc001yae.3_Splice_Site_p.W32_splice|ATXN3_uc010twl.1_Splice_Site	NM_004993	NP_004984	P54252	ATX3_HUMAN	ataxin 3 reference isoform						cell death|nervous system development|nucleotide-excision repair|regulation of transcription, DNA-dependent|synaptic transmission|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleoplasm	cysteine-type peptidase activity|protein binding				0		all_cancers(154;0.0768)		COAD - Colon adenocarcinoma(157;0.224)		AGTTAAACCACTGGAAAAAAA	0.323													143	232	---	---	---	---	PASS	T	92555162	T	T	92555162	5	4	131	1	0	0	0	0	0	0	1	0	1213	579	20	3	722	3	ATXN3	14	92555162	Splice_Site	SNP	C	TCGA-60-2722-01A-01D-1522-08	17502404	92555162	14794378	257	47173										
NDN	4692	broad.mit.edu	37	chr15	23931814	23931814	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggaggcctgtcatgggcatgCggttgctcagcgccaccctg	15	13	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr15:23931814C>T	uc001ywk.2	-	1	637	c.551G>A	c.(550-552)CGC>CAC	p.R184H		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	184	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		CATGGGCATGCGGTTGCTCAG	0.642									Prader-Willi_syndrome				27	40	---	---	---	---	PASS	T	23931814	T	T	23931814	3	4	131	1	0	0	0	0	1	0	0	0	10247	768	27	1	418	1	NDN	15	23931814	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08		23931814	78599578	258	47174										
ARHGAP11A	9824	broad.mit.edu	37	chr15	32929724	32929724	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtcaaatattggtgcaatttCaaagtcaagcatggagttac	9	6	3	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr15:32929724C>T	uc001zgy.1	+	12	3472	c.2750C>T	c.(2749-2751)TCA>TTA	p.S917L	ARHGAP11A_uc010ubw.1_Missense_Mutation_p.S728L|ARHGAP11A_uc010ubx.1_Missense_Mutation_p.S728L	NM_014783	NP_055598	Q6P4F7	RHGBA_HUMAN	Rho GTPase activating protein 11A isoform 1	917					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			skin(3)|breast(2)|urinary_tract(1)	6		all_lung(180;1.3e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)		GGTGCAATTTCAAAGTCAAGC	0.373													80	108	---	---	---	---	PASS	T	32929724	T	T	32929724	3	4	131	1	0	0	0	0	1	0	0	0	863	838	29	2	2819	2	ARHGAP11A	15	32929724	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	8997910	32929724	69601668	259	47175										
C15orf55	256646	broad.mit.edu	37	chr15	34649516	34649516	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctgttgccaagtctgggaagCgagctctagctggaggtcca	14	10	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr15:34649516C>A	uc001zif.2	+	7	3378	c.3223C>A	c.(3223-3225)CGA>AGA	p.R1075R	C15orf55_uc010ucc.1_Silent_p.R1103R|C15orf55_uc010ucd.1_Silent_p.R1093R	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	1075						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		GTCTGGGAAGCGAGCTCTAGC	0.592			T	BRD3|BRD4	lethal midline carcinoma								22	61	---	---	---	---	PASS	A	34649516	A	A	34649516	2	1	131	1	0	0	0	0	0	0	0	1	1803	760	27	1		1	C15orf55	15	34649516	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	1719792	34649516	67881876	260	47176										
BNIP2	663	broad.mit.edu	37	chr15	59971939	59971939	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggagccattagtttctttctCactttatttccattaacttc	4	10	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr15:59971939C>T	uc010uhc.1	-	4	513	c.510G>A	c.(508-510)GTG>GTA	p.V170V	BNIP2_uc010uhb.1_Silent_p.V111V	NM_004330	NP_004321	Q12982	BNIP2_HUMAN	BCL2/adenovirus E1B 19kD interacting protein 2	49					anti-apoptosis|apoptosis|positive regulation of muscle cell differentiation	nuclear envelope|perinuclear region of cytoplasm	calcium ion binding|GTPase activator activity|protein binding			ovary(1)	1						GTTTCTTTCTCACTTTATTTC	0.363													9	26	---	---	---	---	PASS	T	59971939	T	T	59971939	2	4	131	1	0	0	0	0	0	0	0	1	1477	813	29	2		2	BNIP2	15	59971939	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	25322423	59971939	42559453	261	47177										
TLN2	83660	broad.mit.edu	37	chr15	62944323	62944323	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gagctcctggtcactatttgTagcagaataggtgagcattc	11	8	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr15:62944323T>C	uc002alb.3	+	3	354	c.354T>C	c.(352-354)TGT>TGC	p.C118C		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	118	FERM.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						TCACTATTTGTAGCAGAATAG	0.428													71	90	---	---	---	---	PASS	C	62944323	C	C	62944323	2	2	131	1	0	0	0	0	0	0	0	1	15945	1644	57	5		5	TLN2	15	62944323	Silent	SNP	T	TCGA-60-2722-01A-01D-1522-08	2972384	62944323	39587069	262	47178										
KIAA1024	23251	broad.mit.edu	37	chr15	79749790	79749790	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttatgcggcaaaacaaaatgGgctcaaatctaaagagatct	8	7	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr15:79749790G>T	uc002bew.1	+	2	1376	c.1301G>T	c.(1300-1302)GGG>GTG	p.G434V	KIAA1024_uc010unk.1_Missense_Mutation_p.G434V	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	434						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						AAACAAAATGGGCTCAAATCT	0.483													54	56	---	---	---	---	PASS	T	79749790	T	T	79749790	3	4	131	1	0	0	0	0	1	0	0	0	8205	1232	43	3	1303	3	KIAA1024	15	79749790	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	16805467	79749790	22781602	263	47179										
IL16	3603	broad.mit.edu	37	chr15	81585347	81585347	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gagagagaactcctcatgctCttctgggcacaccccaccca	8	16	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr15:81585347C>A	uc002bgh.3	+	12	2247	c.1871C>A	c.(1870-1872)TCT>TAT	p.S624Y	IL16_uc002bgc.2_RNA|IL16_uc010blq.1_Intron|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Missense_Mutation_p.S666Y|IL16_uc002bgg.2_Missense_Mutation_p.S624Y|IL16_uc002bgi.1_5'UTR|IL16_uc002bgj.2_Missense_Mutation_p.S118Y|IL16_uc002bgk.2_5'Flank	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	624					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						TCCTCATGCTCTTCTGGGCAC	0.512													40	48	---	---	---	---	PASS	A	81585347	A	A	81585347	3	1	131	1	0	0	0	0	1	0	0	0	7633	913	32	2	1913	2	IL16	15	81585347	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1835557	81585347	20946045	264	47180										
ACAN	176	broad.mit.edu	37	chr15	89398124	89398124	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccactggcgcagcaacagagGaaagtacagaaggcccttct	11	12	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr15:89398124G>A	uc010upo.1	+	12	2682	c.2308G>A	c.(2308-2310)GAA>AAA	p.E770K	ACAN_uc010upp.1_Missense_Mutation_p.E770K|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	770					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			AGCAACAGAGGAAAGTACAGA	0.537													9	17	---	---	---	---	PASS	A	89398124	A	A	89398124	3	1	131	1	0	0	0	0	1	0	0	0	117	1175	41	2	2350	2	ACAN	15	89398124	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	7812777	89398124	13133268	265	47181										
HAGHL	84264	broad.mit.edu	37	chr16	779062	779062	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcgactctgggcgaggagcgCctctacaaccccttcctgcg	11	16	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:779062C>A	uc002cjl.1	+	7	1048	c.767C>A	c.(766-768)GCC>GAC	p.A256D	CCDC78_uc002cji.3_5'Flank|CCDC78_uc002cjg.2_5'Flank|CCDC78_uc002cjj.3_5'Flank|CCDC78_uc002cjh.2_5'Flank|CCDC78_uc010uuo.1_5'Flank|CCDC78_uc002cjk.2_5'Flank|HAGHL_uc002cjm.1_3'UTR|HAGHL_uc002cjn.1_3'UTR|HAGHL_uc002cjo.1_Silent_p.R218R|HAGHL_uc010uup.1_Silent_p.R218R	NM_207112	NP_996995	Q6PII5	HAGHL_HUMAN	hydroxyacylglutathione hydrolase-like isoform 1	256							hydrolase activity|metal ion binding				0		Hepatocellular(780;0.00335)				GCGAGGAGCGCCTCTACAACC	0.627													13	19	---	---	---	---	PASS	A	779062	A	A	779062	3	1	131	1	0	0	0	0	1	0	0	0	6946	739	26	3	789	3	HAGHL	16	779062	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08		779062	89575691	266	47182										
PKD1	5310	broad.mit.edu	37	chr16	2167522	2167522	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gagaccaggaagcgctgcacGgcgggactgtccaccattgc	14	13	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:2167522G>A	uc002cos.1	-	6	1562	c.1353C>T	c.(1351-1353)GCC>GCT	p.A451A	PKD1_uc002cot.1_Silent_p.A451A	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	451	C-type lectin.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AGCGCTGCACGGCGGGACTGT	0.706													7	6	---	---	---	---	PASS	A	2167522	A	A	2167522	2	1	131	1	0	0	0	0	0	0	0	1	11963	1103	39	1		1	PKD1	16	2167522	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	1388460	2167522	88187231	267	47183										
SRRM2	23524	broad.mit.edu	37	chr16	2812332	2812332	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cgatccagaactcccaccagGcgtaggtctcggtctagaac	10	14	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:2812332G>T	uc002crk.2	+	11	2352	c.1803G>T	c.(1801-1803)AGG>AGT	p.R601S	SRRM2_uc002crj.1_Missense_Mutation_p.R505S|SRRM2_uc002crl.1_Missense_Mutation_p.R601S|SRRM2_uc010bsu.1_Missense_Mutation_p.R505S	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	601	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CTCCCACCAGGCGTAGGTCTC	0.617													36	66	---	---	---	---	PASS	T	2812332	T	T	2812332	3	4	131	1	0	0	0	0	1	0	0	0	15168	1194	42	3	1841	3	SRRM2	16	2812332	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	644810	2812332	87542421	268	47184										
BTBD12	84464	broad.mit.edu	37	chr16	3656624	3656624	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtaggaccaattgtgctgtgCggggtttggagggacttggc	18	6	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:3656624C>T	uc002cvp.2	-	3	1238	c.611G>A	c.(610-612)CGC>CAC	p.R204H	BTBD12_uc002cvq.1_Missense_Mutation_p.R204H	NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	204	Interaction with C20orf94, ERCC4 and MSH2.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TTGTGCTGTGCGGGGTTTGGA	0.557								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				185	184	---	---	---	---	PASS	T	3656624	T	T	3656624	3	4	131	1	0	0	0	0	1	0	0	0	1540	768	27	1	4945	1	BTBD12	16	3656624	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	844292	3656624	86698129	269	47185										
UQCRC2	7385	broad.mit.edu	37	chr16	21983385	21983385	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gccacatgtcaagaggggcaGcaacaccaccagccatctgc	10	15	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:21983385G>A	uc002djx.2	+	10	1044	c.908G>A	c.(907-909)AGC>AAC	p.S303N	UQCRC2_uc002djy.2_Missense_Mutation_p.S303N|UQCRC2_uc010bxa.2_RNA|UQCRC2_uc002djz.1_Missense_Mutation_p.S170N	NM_003366	NP_003357	P22695	QCR2_HUMAN	ubiquinol-cytochrome c reductase core protein II	303					aerobic respiration|oxidative phosphorylation|proteolysis|respiratory electron transport chain|transport		metalloendopeptidase activity|zinc ion binding			large_intestine(2)	2				GBM - Glioblastoma multiforme(48;0.0264)		AAGAGGGGCAGCAACACCACC	0.512													22	37	---	---	---	---	PASS	A	21983385	A	A	21983385	3	1	131	1	0	0	0	0	1	0	0	0	17017	971	34	3	946	3	UQCRC2	16	21983385	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	18326761	21983385	68371368	270	47186										
KIAA0556	23247	broad.mit.edu	37	chr16	27772789	27772789	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttgcactacctggggctcacTggcctggaagtggtgggcaa	15	10	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:27772789T>G	uc002dow.2	+	19	3711	c.3687T>G	c.(3685-3687)ACT>ACG	p.T1229T		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	1229										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						TGGGGCTCACTGGCCTGGAAG	0.592													52	65	---	---	---	---	PASS	G	27772789	G	G	27772789	2	3	131	1	0	0	0	0	0	0	0	1	8183	1567	55	5		5	KIAA0556	16	27772789	Silent	SNP	T	TCGA-60-2722-01A-01D-1522-08	5789404	27772789	62581964	271	47187										
APOB48R	55911	broad.mit.edu	37	chr16	28507309	28507309	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggctgagacagcctcaggcgGggaggaggctgaaacagcct	17	10	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:28507309G>C	uc002dqb.1	+	2	957	c.947G>C	c.(946-948)GGG>GCG	p.G316A	uc010vct.1_Intron|APOB48R_uc010byg.1_5'UTR	NM_018690	NP_061160	Q0VD83	APOBR_HUMAN	apolipoprotein B48 receptor	316	Glu-rich.				cholesterol metabolic process|lipid transport	chylomicron|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle					0						GCCTCAGGCGGGGAGGAGGCT	0.672													7	17	---	---	---	---	PASS	C	28507309	C	C	28507309	3	2	131	1	0	0	0	0	1	0	0	0	786	1232	43	4	953	4	APOB48R	16	28507309	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	734520	28507309	61847444	272	47188										
ZNF785	146540	broad.mit.edu	37	chr16	30594536	30594536	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agtggacccgctggtggctgGccaggagggaagggtagctg	20	8	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:30594536G>T	uc002dyw.1	-	3	641	c.563C>A	c.(562-564)GCC>GAC	p.A188D	uc002dyu.2_RNA|ZNF785_uc002dyv.1_Missense_Mutation_p.A173D|ZNF785_uc010vez.1_Missense_Mutation_p.A153D	NM_152458	NP_689671	A8K8V0	ZN785_HUMAN	zinc finger protein 785	188	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTGGTGGCTGGCCAGGAGGGA	0.642													4	38	---	---	---	---	PASS	T	30594536	T	T	30594536	3	4	131	1	0	0	0	0	1	0	0	0	18154	1203	42	3	658	3	ZNF785	16	30594536	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	2087227	30594536	59760217	273	47189										
ZNF423	23090	broad.mit.edu	37	chr16	49670765	49670765	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tggctgtgtttgacgtgcacCtgcaggtcagcctccttgcg	13	12	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:49670765C>G	uc002efs.2	-	5	2596	c.2298G>C	c.(2296-2298)CAG>CAC	p.Q766H	ZNF423_uc010vgn.1_Missense_Mutation_p.Q649H	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	766	C2H2-type 18.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				TGACGTGCACCTGCAGGTCAG	0.602													39	49	---	---	---	---	PASS	G	49670765	G	G	49670765	3	3	131	1	0	0	0	0	1	0	0	0	17895	680	24	4	1576	4	ZNF423	16	49670765	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	19076229	49670765	40683988	274	47190										
ZNF423	23090	broad.mit.edu	37	chr16	49672375	49672375	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cgagctggtggaggagaagcCgcgcttgcacacagtgcact	15	11	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:49672375C>A	uc002efs.2	-	5	986	c.688G>T	c.(688-690)GGC>TGC	p.G230C	ZNF423_uc010vgn.1_Missense_Mutation_p.G113C	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	230	C2H2-type 5.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GAGGAGAAGCCGCGCTTGCAC	0.592													49	75	---	---	---	---	PASS	A	49672375	A	A	49672375	3	1	131	1	0	0	0	0	1	0	0	0	17895	652	23	1	3186	1	ZNF423	16	49672375	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1610	49672375	40682378	275	47191										
NOD2	64127	broad.mit.edu	37	chr16	50733863	50733863	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cgatcttcacaccgtcccagAgggtgaggcactcctggtgt	12	13	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:50733863A>T	uc002egm.1	+	2	643	c.538A>T	c.(538-540)AGG>TGG	p.R180W	NOD2_uc010cbj.1_Missense_Mutation_p.R153W|NOD2_uc010cbk.1_Missense_Mutation_p.R153W|NOD2_uc002egl.1_5'UTR	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	180	CARD 2.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				ACCGTCCCAGAGGGTGAGGCA	0.532													30	28	---	---	---	---	PASS	T	50733863	T	T	50733863	3	4	131	1	0	0	0	0	1	0	0	0	10517	295	11	5	544	5	NOD2	16	50733863	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	1061488	50733863	39620890	276	47192										
SALL1	6299	broad.mit.edu	37	chr16	51172604	51172604	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gagagagcaaggtaccttaaGattgcctttagtcgtgaaag	12	6	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:51172604G>A	uc010vgs.1	-	2	3560	c.3529C>T	c.(3529-3531)CTT>TTT	p.L1177F	SALL1_uc010vgr.1_Missense_Mutation_p.L1080F|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	1177	C2H2-type 9.				adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GGTACCTTAAGATTGCCTTTA	0.493													30	57	---	---	---	---	PASS	A	51172604	A	A	51172604	3	1	131	1	0	0	0	0	1	0	0	0	13810	942	33	2	453	2	SALL1	16	51172604	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	438741	51172604	39182149	277	47193										
CHD9	80205	broad.mit.edu	37	chr16	53302009	53302009	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cattactccaactgaagatgGacagacacgagagctacaga	9	10	0	5			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:53302009G>T	uc002ehb.2	+	21	4852	c.4688G>T	c.(4687-4689)GGA>GTA	p.G1563V	CHD9_uc002egy.2_Missense_Mutation_p.G1563V|CHD9_uc002ehc.2_Missense_Mutation_p.G1563V|CHD9_uc002ehf.2_Missense_Mutation_p.G677V|CHD9_uc010cbw.2_5'UTR|CHD9_uc002ehd.2_Missense_Mutation_p.G1089V	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	1563					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)				ACTGAAGATGGACAGACACGA	0.338													16	15	---	---	---	---	PASS	T	53302009	T	T	53302009	3	4	131	1	0	0	0	0	1	0	0	0	3332	1174	41	2	4770	2	CHD9	16	53302009	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	2129405	53302009	37052744	278	47194										
RPGRIP1L	23322	broad.mit.edu	37	chr16	53720458	53720458	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aagtgctctaactcctctatCtggcctctttgtgactgaat	7	11	4	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:53720458C>G	uc002ehp.2	-	6	727	c.663G>C	c.(661-663)CAG>CAC	p.Q221H	RPGRIP1L_uc002eho.3_Missense_Mutation_p.Q221H|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.Q221H|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.Q221H|RPGRIP1L_uc010vgz.1_Missense_Mutation_p.Q221H|RPGRIP1L_uc002ehq.1_Missense_Mutation_p.Q221H	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	221	Potential.				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)				ACTCCTCTATCTGGCCTCTTT	0.373													85	108	---	---	---	---	PASS	G	53720458	G	G	53720458	3	3	131	1	0	0	0	0	1	0	0	0	13550	912	32	2	3372	2	RPGRIP1L	16	53720458	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	418449	53720458	36634295	279	47195										
CNOT1	23019	broad.mit.edu	37	chr16	58583753	58583753	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcttcataaccagatactgtGaaacccaaggcataaattct	5	10	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:58583753G>A	uc002env.2	-	25	3685	c.3392C>T	c.(3391-3393)TCA>TTA	p.S1131L	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.S1126L|CNOT1_uc002enx.2_Missense_Mutation_p.S1131L|CNOT1_uc002enz.1_Missense_Mutation_p.S560L|CNOT1_uc010vik.1_Missense_Mutation_p.S127L|SNORA46_uc002eny.1_5'Flank	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1131					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		CAGATACTGTGAAACCCAAGG	0.388													122	159	---	---	---	---	PASS	A	58583753	A	A	58583753	3	1	131	1	0	0	0	0	1	0	0	0	3617	1294	45	2	4060	2	CNOT1	16	58583753	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	4863295	58583753	31771000	280	47196										
PLEKHG4	25894	broad.mit.edu	37	chr16	67314219	67314219	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gggcacagtagaaagctcctCagtcctgtcagaagggccag	13	11	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:67314219C>G	uc002eso.3	+	1	2807	c.272C>G	c.(271-273)TCA>TGA	p.S91*	PLEKHG4_uc002esp.3_5'UTR|PLEKHG4_uc002esq.3_Nonsense_Mutation_p.S91*|PLEKHG4_uc002esr.1_Intron|PLEKHG4_uc010cef.2_Nonsense_Mutation_p.S91*|PLEKHG4_uc002ess.3_Nonsense_Mutation_p.S91*|PLEKHG4_uc010ceg.2_Nonsense_Mutation_p.S91*	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	91					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		GAAAGCTCCTCAGTCCTGTCA	0.612													42	53	---	---	---	---	PASS	G	67314219	G	G	67314219	4	3	131	1	0	0	0	0	0	1	0	0	12071	838	29	2	274	2	PLEKHG4	16	67314219	Nonsense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	8730466	67314219	23040534	281	47197										
ZFP90	146198	broad.mit.edu	37	chr16	68592426	68592426	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcaaattggagcaaggagaaGagccatggatatcagaggga	14	5	2	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:68592426G>C	uc010cff.2	+	4	503	c.211G>C	c.(211-213)GAG>CAG	p.E71Q	ZFP90_uc002ewb.2_5'UTR|ZFP90_uc002ewc.2_5'UTR|ZFP90_uc002ewd.2_Missense_Mutation_p.E71Q|ZFP90_uc002ewe.2_Missense_Mutation_p.E71Q	NM_133458	NP_597715	Q8TF47	ZFP90_HUMAN	zinc finger protein 90	71	KRAB.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00233)|Epithelial(162;0.0184)|all cancers(182;0.0946)		GCAAGGAGAAGAGCCATGGAT	0.423													25	50	---	---	---	---	PASS	C	68592426	C	C	68592426	3	2	131	1	0	0	0	0	1	0	0	0	17651	943	33	2	221	2	ZFP90	16	68592426	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	1278207	68592426	21762327	282	47198										
MBTPS1	8720	broad.mit.edu	37	chr16	84103622	84103622	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggggagctttactgttgaagTctgttctgcaccattttttg	11	7	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:84103622T>G	uc002fhi.2	-	14	2306	c.1804A>C	c.(1804-1806)ACT>CCT	p.T602P	MBTPS1_uc002fhh.2_Missense_Mutation_p.T106P	NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	602	Lumenal (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						ACTGTTGAAGTCTGTTCTGCA	0.408													132	206	---	---	---	---	PASS	G	84103622	G	G	84103622	3	3	131	1	0	0	0	0	1	0	0	0	9361	1667	58	5	1394	5	MBTPS1	16	84103622	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	15511196	84103622	6251131	283	47199										
KIAA0513	9764	broad.mit.edu	37	chr16	85100945	85100945	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gcaccgagtctacccaggatGaagagaccctggcactcagg	12	13	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:85100945G>T	uc002fiu.2	+	2	488	c.268G>T	c.(268-270)GAA>TAA	p.E90*	KIAA0513_uc002fis.3_Nonsense_Mutation_p.E90*|KIAA0513_uc010voj.1_Nonsense_Mutation_p.E90*|KIAA0513_uc002fit.2_Nonsense_Mutation_p.E90*	NM_014732	NP_055547	O60268	K0513_HUMAN	hypothetical protein LOC9764	90						cytoplasm				breast(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.234)		TACCCAGGATGAAGAGACCCT	0.617													28	56	---	---	---	---	PASS	T	85100945	T	T	85100945	4	4	131	1	0	0	0	0	0	1	0	0	8181	1291	45	2	270	2	KIAA0513	16	85100945	Nonsense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	997323	85100945	5253808	284	47200										
CDK10	8558	broad.mit.edu	37	chr16	89761139	89761139	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctccccggcacttccgagatCcaccagatcgacttgatcgt	8	16	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:89761139C>A	uc010cio.2	+	10	778	c.735C>A	c.(733-735)ATC>ATA	p.I245I	CDK10_uc002fob.2_3'UTR|CDK10_uc002fod.2_Silent_p.I174I|CDK10_uc002foe.2_Silent_p.I174I|CDK10_uc002fof.2_Silent_p.I174I|CDK10_uc002fog.3_Silent_p.I174I|CDK10_uc002foh.3_Silent_p.I174I|CDK10_uc002foi.2_5'Flank	NM_052988	NP_443714	Q15131	CDK10_HUMAN	cyclin-dependent kinase 10 isoform a	245	Protein kinase.				negative regulation of cell proliferation|traversing start control point of mitotic cell cycle		ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(1)	1		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0276)		CTTCCGAGATCCACCAGATCG	0.592													3	9	---	---	---	---	PASS	A	89761139	A	A	89761139	2	1	131	1	0	0	0	0	0	0	0	1	3125	845	30	2		2	CDK10	16	89761139	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	4660194	89761139	593614	285	47201										
FANCA	2175	broad.mit.edu	37	chr16	89836993	89836993	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tctccgggggagcgacactgGaggcagccatcaggttctga	15	11	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr16:89836993G>A	uc002fou.1	-	24	2243	c.2201C>T	c.(2200-2202)TCC>TTC	p.S734F	FANCA_uc010vpn.1_Missense_Mutation_p.S734F	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	734					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		AGCGACACTGGAGGCAGCCAT	0.642			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				10	14	---	---	---	---	PASS	A	89836993	A	A	89836993	3	1	131	1	0	0	0	0	1	0	0	0	5662	1174	41	2	2246	2	FANCA	16	89836993	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	75854	89836993	517760	286	47202										
TP53	7157	broad.mit.edu	37	chr17	7578394	7578394	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cgctatctgagcagcgctcaTggtgggggcagcgcctcaca	14	13	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr17:7578394T>C	uc002gim.2	-	5	730	c.536A>G	c.(535-537)CAT>CGT	p.H179R	TP53_uc002gig.1_Missense_Mutation_p.H179R|TP53_uc002gih.2_Missense_Mutation_p.H179R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H47R|TP53_uc010cng.1_Missense_Mutation_p.H47R|TP53_uc002gii.1_Missense_Mutation_p.H47R|TP53_uc010cnh.1_Missense_Mutation_p.H179R|TP53_uc010cni.1_Missense_Mutation_p.H179R|TP53_uc002gij.2_Missense_Mutation_p.H179R|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.H86R|TP53_uc002gio.2_Missense_Mutation_p.H47R|TP53_uc010vug.1_Missense_Mutation_p.H140R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	179	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	H -> Q (in sporadic cancers; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|HH -> QS (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> D (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> Y (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H179R(99)|p.H179Y(74)|p.H179L(31)|p.H179Q(17)|p.H179N(13)|p.H179D(10)|p.P177_C182delPHHERC(8)|p.0?(7)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.H179P(3)|p.R175_E180delRCPHHE(3)|p.H179fs*68(2)|p.H179H(2)|p.P177fs*3(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.K164_P219del(1)|p.C176fs*65(1)|p.P177_H179delPHH(1)|p.V173fs*23(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.H179del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.H178fs*6(1)|p.P177_E180delPHHE(1)|p.R42fs*24(1)|p.E171fs*1(1)|p.R174fs*3(1)|p.H178_H179>QY(1)|p.E171fs*61(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCAGCGCTCATGGTGGGGGCA	0.642		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			34	9	---	---	---	---	PASS	C	7578394	C	C	7578394	3	2	131	1	0	0	0	0	1	0	0	0	16378	1464	51	5	762	5	TP53	17	7578394	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08		7578394	73616816	287	47203										
ARHGEF15	22899	broad.mit.edu	37	chr17	8215492	8215492	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aatggctcctctccacaagaActaccccgaaactccaatga	5	15	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr17:8215492A>T	uc002glc.2	+	2	256	c.135A>T	c.(133-135)GAA>GAT	p.E45D	ARHGEF15_uc002glb.1_Missense_Mutation_p.E45D|ARHGEF15_uc002gld.2_Missense_Mutation_p.E45D|ARHGEF15_uc010vuw.1_Missense_Mutation_p.E45D	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	45	Pro-rich.				negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CTCCACAAGAACTACCCCGAA	0.642													69	11	---	---	---	---	PASS	T	8215492	T	T	8215492	3	4	131	1	0	0	0	0	1	0	0	0	898	40	2	5	137	5	ARHGEF15	17	8215492	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	637098	8215492	72979718	288	47204										
TOP3A	7156	broad.mit.edu	37	chr17	18212202	18212202	+	Nonsense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	attttagcacctacctggccAtacagatgataatcaaattc	5	10	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr17:18212202A>C	uc002gsx.1	-	2	463	c.234T>G	c.(232-234)TAT>TAG	p.Y78*	TOP3A_uc002gsw.1_5'Flank|TOP3A_uc010vxs.1_Missense_Mutation_p.M1R|TOP3A_uc010cqa.1_Intron	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	78	Toprim.				DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						CTACCTGGCCATACAGATGAT	0.279													14	17	---	---	---	---	PASS	C	18212202	C	C	18212202	4	2	131	1	0	0	0	0	0	1	0	0	16364	224	8	5	2843	5	TOP3A	17	18212202	Nonsense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	9996710	18212202	62983008	289	47205										
SSH2	85464	broad.mit.edu	37	chr17	27959607	27959607	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttgttccccctcagctggttCcccttcttccaagtctgcta	6	16	3	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr17:27959607C>T	uc002heo.1	-	15	2524	c.2524G>A	c.(2524-2526)GAA>AAA	p.E842K	SSH2_uc010wbh.1_Missense_Mutation_p.E869K	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	842					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TCAGCTGGTTCCCCTTCTTCC	0.577													215	49	---	---	---	---	PASS	T	27959607	T	T	27959607	3	4	131	1	0	0	0	0	1	0	0	0	15184	864	30	2	1751	2	SSH2	17	27959607	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	9747405	27959607	53235603	290	47206										
AP2B1	163	broad.mit.edu	37	chr17	33951435	33951435	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggtggtggctaatgccgtagCggcattatctgaaatcagtg	14	7	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr17:33951435C>T	uc002hjr.2	+	6	734	c.545C>T	c.(544-546)GCG>GTG	p.A182V	AP2B1_uc002hjq.2_Missense_Mutation_p.A182V|AP2B1_uc010wci.1_Missense_Mutation_p.A144V|AP2B1_uc002hjs.2_Missense_Mutation_p.A125V|AP2B1_uc002hjt.2_Missense_Mutation_p.A182V|AP2B1_uc010ctv.2_Missense_Mutation_p.A182V|AP2B1_uc010wcj.1_5'UTR	NM_001282	NP_001273	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1	182					axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|coated pit|cytosol|endocytic vesicle membrane|plasma membrane	clathrin binding|protein transporter activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		AATGCCGTAGCGGCATTATCT	0.463													113	122	---	---	---	---	PASS	T	33951435	T	T	33951435	3	4	131	1	0	0	0	0	1	0	0	0	741	768	27	1	563	1	AP2B1	17	33951435	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	5991828	33951435	47243775	291	47207										
RPL19	6143	broad.mit.edu	37	chr17	37357551	37357551	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tagaccccaatgagaccaatGaaatcgccaatgccaactcc	6	14	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr17:37357551G>A	uc002hrq.1	+	2	153	c.91G>A	c.(91-93)GAA>AAA	p.E31K	RPL19_uc002hrr.1_Missense_Mutation_p.E29K	NM_000981	NP_000972	P84098	RL19_HUMAN	ribosomal protein L19	31					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	RNA binding|structural constituent of ribosome				0						TGAGACCAATGAAATCGCCAA	0.483													36	222	---	---	---	---	PASS	A	37357551	A	A	37357551	3	1	131	1	0	0	0	0	1	0	0	0	13566	1291	45	2	97	2	RPL19	17	37357551	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	3406116	37357551	43837659	292	47208										
CDK12	51755	broad.mit.edu	37	chr17	37627540	37627540	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gggaaagtaaagttggatgaGaactccgagaagcatcttgt	13	5	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr17:37627540G>A	uc010cvv.2	+	2	2041	c.1455G>A	c.(1453-1455)GAG>GAA	p.E485E	CDK12_uc010wef.1_Silent_p.E484E|CDK12_uc002hrw.3_Silent_p.E485E	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	485					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						AGTTGGATGAGAACTCCGAGA	0.393										TCGA Ovarian(9;0.13)			309	221	---	---	---	---	PASS	A	37627540	A	A	37627540	2	1	131	1	0	0	0	0	0	0	0	1	3128	933	33	2		2	CDK12	17	37627540	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	269989	37627540	43567670	293	47209										
MED24	9862	broad.mit.edu	37	chr17	38189317	38189317	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggcccctcccacctgcatgcGcttcaccatcgtcagctgct	8	19	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr17:38189317G>A	uc002htt.2	-	8	1127	c.814C>T	c.(814-816)CGC>TGC	p.R272C	MED24_uc010wes.1_Missense_Mutation_p.R132C|MED24_uc010wet.1_Intron|MED24_uc002hts.2_Missense_Mutation_p.R297C|MED24_uc002htu.2_Missense_Mutation_p.R259C|MED24_uc010cwn.2_Missense_Mutation_p.R259C|MED24_uc010weu.1_Missense_Mutation_p.R182C|MED24_uc010wev.1_Missense_Mutation_p.R222C|MED24_uc010wew.1_Missense_Mutation_p.R201C|MED24_uc010wex.1_Intron|MED24_uc010wez.1_Missense_Mutation_p.R113C|MED24_uc010wfa.1_Missense_Mutation_p.R241C|MED24_uc010wfb.1_Missense_Mutation_p.R284C	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	272					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)					ACCTGCATGCGCTTCACCATC	0.642													13	143	---	---	---	---	PASS	A	38189317	A	A	38189317	3	1	131	1	0	0	0	0	1	0	0	0	9442	1087	38	1	2231	1	MED24	17	38189317	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	561777	38189317	43005893	294	47210										
KIAA1267	284058	broad.mit.edu	37	chr17	44108963	44108963	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cagtcttgctgcctgaggtgCgtcgagtgcagcgggctgct	16	11	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr17:44108963C>A	uc002ikb.2	-	14	3282	c.3197G>T	c.(3196-3198)CGC>CTC	p.R1066L	KIAA1267_uc002ikc.2_Missense_Mutation_p.R1066L|KIAA1267_uc002ikd.2_Missense_Mutation_p.R1066L|KIAA1267_uc010dav.2_Missense_Mutation_p.R1065L|KIAA1267_uc010wkb.1_Missense_Mutation_p.R397L|KIAA1267_uc010wkc.1_Missense_Mutation_p.R334L	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	1066						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				GCCTGAGGTGCGTCGAGTGCA	0.687													36	3	---	---	---	---	PASS	A	44108963	A	A	44108963	3	1	131	1	0	0	0	0	1	0	0	0	8219	768	27	1	124	1	KIAA1267	17	44108963	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	5919646	44108963	37086247	295	47211										
MAP2K6	5608	broad.mit.edu	37	chr17	67513001	67513001	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccttatctttcttagaccacCtcgagatttagactccaagg	6	12	2	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr17:67513001C>A	uc002jij.2	+	3	377	c.89C>A	c.(88-90)CCT>CAT	p.P30H	MAP2K6_uc002jii.2_Missense_Mutation_p.P30H|MAP2K6_uc002jik.2_Missense_Mutation_p.P60H	NM_002758	NP_002749	P52564	MP2K6_HUMAN	mitogen-activated protein kinase kinase 6	30					activation of MAPK activity|cell cycle arrest|DNA damage induced protein phosphorylation|innate immune response|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of muscle cell differentiation|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|pancreas(1)	5	Breast(10;6.05e-10)					CTTAGACCACCTCGAGATTTA	0.373													95	14	---	---	---	---	PASS	A	67513001	A	A	67513001	3	1	131	1	0	0	0	0	1	0	0	0	9241	681	24	3	99	3	MAP2K6	17	67513001	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	23404038	67513001	13682209	296	47212										
GAA	2548	broad.mit.edu	37	chr17	78085891	78085891	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggcctgaccgaagccatcgcCtcccacaggtgagggccacg	13	16	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr17:78085891C>T	uc002jxo.2	+	13	1928	c.1746C>T	c.(1744-1746)GCC>GCT	p.A582A	GAA_uc002jxp.2_Silent_p.A582A|GAA_uc002jxq.2_Silent_p.A582A	NM_001079803	NP_001073271	P10253	LYAG_HUMAN	acid alpha-glucosidase preproprotein	582					cardiac muscle contraction|diaphragm contraction|glycogen catabolic process|lysosome organization|tongue morphogenesis|vacuolar sequestering|ventricular cardiac muscle tissue morphogenesis	lysosomal membrane	carbohydrate binding|maltose alpha-glucosidase activity			ovary(1)	1	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)		Acarbose(DB00284)	AAGCCATCGCCTCCCACAGGT	0.652													77	14	---	---	---	---	PASS	T	78085891	T	T	78085891	2	4	131	1	0	0	0	0	0	0	0	1	6147	668	24	3		3	GAA	17	78085891	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	10572890	78085891	3109319	297	47213										
ZNF750	79755	broad.mit.edu	37	chr17	80788546	80788546	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	accgagagattgagtggaagGtcctgcagctctgagaagct	14	8	1	3	rs138155684	byFrequency	TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr17:80788546G>A	uc002kga.2	-	3	1955	c.1644C>T	c.(1642-1644)GAC>GAT	p.D548D	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	548						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			TGAGTGGAAGGTCCTGCAGCT	0.607													163	26	---	---	---	---	PASS	A	80788546	A	A	80788546	2	1	131	1	0	0	0	0	0	0	0	1	18129	1252	44	3		3	ZNF750	17	80788546	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	2702655	80788546	406664	298	47214										
LPIN2	9663	broad.mit.edu	37	chr18	2937714	2937714	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cttctttgacggcgagtctaCtttagctgccggtttggatt	11	9	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr18:2937714C>A	uc002klo.2	-	7	1383	c.1144G>T	c.(1144-1146)GTA>TTA	p.V382L		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	382					fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		GGCGAGTCTACTTTAGCTGCC	0.443													55	50	---	---	---	---	PASS	A	2937714	A	A	2937714	3	1	131	1	0	0	0	0	1	0	0	0	8919	565	20	3	1602	3	LPIN2	18	2937714	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08		2937714	75139534	299	47215										
EPB41L3	23136	broad.mit.edu	37	chr18	5428401	5428401	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aaatctgtttattcgcagccGgtcgcgatatatcaacagac	8	10	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr18:5428401G>T	uc002kmt.1	-	9	1062	c.976C>A	c.(976-978)CGG>AGG	p.R326R	EPB41L3_uc010wzh.1_Silent_p.R326R|EPB41L3_uc002kmu.1_Silent_p.R326R|EPB41L3_uc010dkq.1_Silent_p.R217R|EPB41L3_uc010dks.1_Silent_p.R348R	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	326	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						ATTCGCAGCCGGTCGCGATAT	0.418													135	152	---	---	---	---	PASS	T	5428401	T	T	5428401	2	4	131	1	0	0	0	0	0	0	0	1	5154	1115	39	1		1	EPB41L3	18	5428401	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	2490687	5428401	72648847	300	47216										
LAMA1	284217	broad.mit.edu	37	chr18	7037633	7037633	+	Missense_Mutation	SNP	G	T	T													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtacttgggagccagtctctGcatgaccgcggtgttgttga							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr18:7037633G>T	uc002knm.2	-	12	1775	c.1681C>A	c.(1681-1683)CAG>AAG	p.Q561K	LAMA1_uc010wzj.1_Missense_Mutation_p.Q37K	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	561	Laminin IV type A 1.				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)	GCCAGTCTCTGCATGACCGCG	0.577													60	82	---	---	---	---	PASS	T	7037633	T	T	7037633	3	4	131	1	0	0	0	0	1	0	0	0	8605	1328	46	3	7754	3	LAMA1	18	7037633	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	1609232	7037633	71039615	301	47217	869	2								
LAMA1	284217	broad.mit.edu	37	chr18	7037634	7037634	+	Missense_Mutation	SNP	C	T	T													0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tacttgggagccagtctctgCatgaccgcggtgttgttgat							TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr18:7037634C>T	uc002knm.2	-	12	1774	c.1680G>A	c.(1678-1680)ATG>ATA	p.M560I	LAMA1_uc010wzj.1_Missense_Mutation_p.M36I	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	560	Laminin IV type A 1.				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)	CCAGTCTCTGCATGACCGCGG	0.577													59	83	---	---	---	---	PASS	T	7037634	T	T	7037634	3	4	131	1	0	0	0	0	1	0	0	0	8605	710	25	3	7755	3	LAMA1	18	7037634	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1	7037634	71039614	302	47218	869	2								
ESCO1	114799	broad.mit.edu	37	chr18	19154258	19154258	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	atcttctttagagtcagactTtacttccagtacttttctct	4	10	4	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr18:19154258T>A	uc002kth.1	-	4	1481	c.547A>T	c.(547-549)AAG>TAG	p.K183*	ESCO1_uc002kti.1_RNA	NM_052911	NP_443143	Q5FWF5	ESCO1_HUMAN	establishment of cohesion 1 homolog 1	183					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding				0						GAGTCAGACTTTACTTCCAGT	0.348													10	209	---	---	---	---	PASS	A	19154258	A	A	19154258	4	1	131	1	0	0	0	0	0	1	0	0	5248	1850	64	5	2011	5	ESCO1	18	19154258	Nonsense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	12116624	19154258	58922990	303	47219										
CCDC102B	79839	broad.mit.edu	37	chr18	66513560	66513560	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aattatttagaatgcgcacaGctttggaaaaagaaatagag	9	4	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr18:66513560G>T	uc002lkk.2	+	6	1061	c.838G>T	c.(838-840)GCT>TCT	p.A280S	CCDC102B_uc002lki.2_Missense_Mutation_p.A280S|CCDC102B_uc002lkj.1_Missense_Mutation_p.A280S	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	280	Potential.									ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				AATGCGCACAGCTTTGGAAAA	0.328													24	50	---	---	---	---	PASS	T	66513560	T	T	66513560	3	4	131	1	0	0	0	0	1	0	0	0	2737	971	34	3	848	3	CCDC102B	18	66513560	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	47359302	66513560	11563688	304	47220										
ADNP2	22850	broad.mit.edu	37	chr18	77875529	77875529	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgacagctgcaaggagttacTgaaggtaagaggacgtaagt	14	5	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr18:77875529T>G	uc002lnw.2	+	2	559	c.104T>G	c.(103-105)CTG>CGG	p.L35R		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	35					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		AAGGAGTTACTGAAGGTAAGA	0.413													30	40	---	---	---	---	PASS	G	77875529	G	G	77875529	3	3	131	1	0	0	0	0	1	0	0	0	324	1580	55	5	106	5	ADNP2	18	77875529	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	11361969	77875529	201719	305	47221										
SPPL2B	56928	broad.mit.edu	37	chr19	2337594	2337594	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gcccagggcagcggagcacgCgggctgctcatcgtcagcag	16	14	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:2337594C>A	uc002lvs.2	+	3	419	c.339C>A	c.(337-339)CGC>CGA	p.R113R	SPPL2B_uc010dsw.1_Silent_p.R85R|SPPL2B_uc010dsy.1_Silent_p.R85R|SPPL2B_uc010dsz.1_Silent_p.R113R|SPPL2B_uc002lvr.2_Silent_p.R113R|SPPL2B_uc010dta.1_5'Flank|SPPL2B_uc002lvu.2_5'Flank	NM_152988	NP_694533	Q8TCT7	PSL1_HUMAN	signal peptide peptidase-like 2B isoform 2	113	Cytoplasmic (Potential).|PA.					Golgi membrane|integral to membrane	aspartic-type endopeptidase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGGAGCACGCGGGCTGCTCA	0.692													34	23	---	---	---	---	PASS	A	2337594	A	A	2337594	2	1	131	1	0	0	0	0	0	0	0	1	15088	755	27	1		1	SPPL2B	19	2337594	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08		2337594	56791389	306	47222										
VAV1	7409	broad.mit.edu	37	chr19	6833552	6833552	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	atctcagaggtaccttctatCagggctaccgctgccatcgg	10	13	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:6833552C>G	uc002mfu.1	+	17	1721	c.1624C>G	c.(1624-1626)CAG>GAG	p.Q542E	VAV1_uc010xjh.1_Missense_Mutation_p.Q510E|VAV1_uc010dva.1_Missense_Mutation_p.Q542E|VAV1_uc002mfv.1_Missense_Mutation_p.Q487E	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	542	Phorbol-ester/DAG-type.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16						TACCTTCTATCAGGGCTACCG	0.547													109	76	---	---	---	---	PASS	G	6833552	G	G	6833552	3	3	131	1	0	0	0	0	1	0	0	0	17128	827	29	2	1690	2	VAV1	19	6833552	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	4495958	6833552	52295431	307	47223										
MUC16	94025	broad.mit.edu	37	chr19	9058161	9058161	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tagtcttcaccaggcctgggAggataagtgaagtcacagga	13	8	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:9058161A>T	uc002mkp.2	-	3	29489	c.29285T>A	c.(29284-29286)CTC>CAC	p.L9762H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9764	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGGCCTGGGAGGATAAGTGA	0.488													11	39	---	---	---	---	PASS	T	9058161	T	T	9058161	3	4	131	1	0	0	0	0	1	0	0	0	9973	304	11	5	14566	5	MUC16	19	9058161	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	2224609	9058161	50070822	308	47224										
MUC16	94025	broad.mit.edu	37	chr19	9075886	9075886	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgttgtaagagctgtctgccCttgtctctgaaaagttgcat	10	8	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:9075886C>T	uc002mkp.2	-	3	11764	c.11560G>A	c.(11560-11562)GGG>AGG	p.G3854R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3855	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCTGTCTGCCCTTGTCTCTGA	0.483													68	73	---	---	---	---	PASS	T	9075886	T	T	9075886	3	4	131	1	0	0	0	0	1	0	0	0	9973	681	24	3	32291	3	MUC16	19	9075886	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	17725	9075886	50053097	309	47225										
MUC16	94025	broad.mit.edu	37	chr19	9089841	9089841	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggaggacttgagccagcagcCgtcttgctcactgctggaga	14	11	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:9089841C>A	uc002mkp.2	-	1	2178	c.1974G>T	c.(1972-1974)ACG>ACT	p.T658T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	658	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGCCAGCAGCCGTCTTGCTCA	0.532													97	97	---	---	---	---	PASS	A	9089841	A	A	9089841	2	1	131	1	0	0	0	0	0	0	0	1	9973	639	23	1		1	MUC16	19	9089841	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	13955	9089841	50039142	310	47226										
OR7G3	390883	broad.mit.edu	37	chr19	9236952	9236952	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccagctgatggaattttcatGacagaggagacaattcgtgt	11	7	1	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:9236952G>A	uc010xkl.1	-	1	675	c.675C>T	c.(673-675)GTC>GTT	p.V225V		NM_001001958	NP_001001958	Q8NG95	OR7G3_HUMAN	olfactory receptor, family 7, subfamily G,	225	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GAATTTTCATGACAGAGGAGA	0.423													40	93	---	---	---	---	PASS	A	9236952	A	A	9236952	2	1	131	1	0	0	0	0	0	0	0	1	11224	1277	45	2		2	OR7G3	19	9236952	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	147111	9236952	49892031	311	47227										
ZNF559	84527	broad.mit.edu	37	chr19	9453741	9453741	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcatgccttactgaatgtgtGtgaattggggctgatacttg	12	6	1	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:9453741G>T	uc002mlg.2	+	7	2261	c.1614G>T	c.(1612-1614)GTG>GTT	p.V538V	ZNF559_uc002mlf.2_Silent_p.V307V|ZNF559_uc010dwl.1_Silent_p.V307V|ZNF559_uc010xkn.1_Silent_p.V530V|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Silent_p.V602V|ZNF559_uc010dwk.1_Silent_p.V307V|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	538					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTGAATGTGTGTGAATTGGGG	0.393													46	98	---	---	---	---	PASS	T	9453741	T	T	9453741	2	4	131	1	0	0	0	0	0	0	0	1	17987	1364	48	3		3	ZNF559	19	9453741	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	216789	9453741	49675242	312	47228										
KEAP1	9817	broad.mit.edu	37	chr19	10600417	10600417	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgaattaaggcggtttgtccCgtcaaagccccccacggcat	10	13	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:10600417C>A	uc002moq.1	-	4	1594	c.1438G>T	c.(1438-1440)GGG>TGG	p.G480W	KEAP1_uc002mop.1_Missense_Mutation_p.G198W|KEAP1_uc002mor.1_Missense_Mutation_p.G480W	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	480	Kelch 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CGGTTTGTCCCGTCAAAGCCC	0.582													32	17	---	---	---	---	PASS	A	10600417	A	A	10600417	3	1	131	1	0	0	0	0	1	0	0	0	8141	652	23	1	448	1	KEAP1	19	10600417	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1146676	10600417	48528566	313	47229										
RGL3	57139	broad.mit.edu	37	chr19	11510944	11510944	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agctggggcaggaggcagctGgtggctcaatgacccgggag	19	9	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:11510944G>T	uc002mrp.2	-	14	1578	c.1514C>A	c.(1513-1515)CCA>CAA	p.P505Q	RGL3_uc002mrn.2_Missense_Mutation_p.P269Q|RGL3_uc002mrm.2_Missense_Mutation_p.P269Q|RGL3_uc002mro.2_Missense_Mutation_p.P505Q	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	505	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						GGAGGCAGCTGGTGGCTCAAT	0.607													44	42	---	---	---	---	PASS	T	11510944	T	T	11510944	3	4	131	1	0	0	0	0	1	0	0	0	13278	1348	47	3	660	3	RGL3	19	11510944	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	910527	11510944	47618039	314	47230										
ZNF44	51710	broad.mit.edu	37	chr19	12383910	12383910	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tatgagggccatctccagtgTgtgccatcatgtgtcttcga	11	10	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:12383910T>A	uc010xmj.1	-	5	1509	c.1304A>T	c.(1303-1305)CAC>CTC	p.H435L	ZNF44_uc002mtl.2_Intron|ZNF44_uc010dyr.1_Intron|ZNF44_uc010xmi.1_RNA|ZNF44_uc002mtn.3_RNA|ZNF44_uc010dys.2_Missense_Mutation_p.H387L	NM_001164276	NP_001157748	P15621	ZNF44_HUMAN	zinc finger protein 44 isoform 1	435	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		Renal(1328;0.157)		GBM - Glioblastoma multiforme(1328;0.0164)|Lung(535;0.179)		ATCTCCAGTGTGTGCCATCAT	0.428													58	47	---	---	---	---	PASS	A	12383910	A	A	12383910	3	1	131	1	0	0	0	0	1	0	0	0	17909	1696	59	5	691	5	ZNF44	19	12383910	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	872966	12383910	46745073	315	47231										
ZNF536	9745	broad.mit.edu	37	chr19	30934929	30934929	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgcacatgcgcacgcacacgGgcgagaagcccttcaagtgc	12	14	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:30934929G>C	uc002nsu.1	+	2	598	c.460G>C	c.(460-462)GGC>CGC	p.G154R	ZNF536_uc010edd.1_Missense_Mutation_p.G154R	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	154					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CACGCACACGGGCGAGAAGCC	0.642													32	48	---	---	---	---	PASS	C	30934929	C	C	30934929	3	2	131	1	0	0	0	0	1	0	0	0	17971	1232	43	4	462	4	ZNF536	19	30934929	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	18551019	30934929	28194054	316	47232										
ZNF536	9745	broad.mit.edu	37	chr19	31040372	31040372	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttagcagcctttaacggactTgcaagtagcacagcaaattc	8	10	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:31040372T>A	uc002nsu.1	+	4	3984	c.3846T>A	c.(3844-3846)CTT>CTA	p.L1282L	ZNF536_uc010edd.1_Silent_p.L1282L	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1282					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TTAACGGACTTGCAAGTAGCA	0.502													63	99	---	---	---	---	PASS	A	31040372	A	A	31040372	2	1	131	1	0	0	0	0	0	0	0	1	17971	1799	63	5		5	ZNF536	19	31040372	Silent	SNP	T	TCGA-60-2722-01A-01D-1522-08	105443	31040372	28088611	317	47233										
ZNF30	90075	broad.mit.edu	37	chr19	35424541	35424541	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctcataagcaggacattcccGttctaaaccacatgtgatcg	7	12	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:35424541G>T	uc010edp.1	+	4	548	c.170G>T	c.(169-171)CGT>CTT	p.R57L	ZNF30_uc002nxf.2_5'UTR|ZNF30_uc010edq.1_Missense_Mutation_p.R58L|ZNF30_uc010edr.1_Missense_Mutation_p.R58L	NM_194325	NP_919306	P17039	ZNF30_HUMAN	zinc finger protein 30 isoform b	57	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_lung(56;8.38e-08)|Lung NSC(56;1.31e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)	GBM - Glioblastoma multiforme(1328;0.0265)		GGACATTCCCGTTCTAAACCA	0.378													9	7	---	---	---	---	PASS	T	35424541	T	T	35424541	3	4	131	1	0	0	0	0	1	0	0	0	17827	1145	40	1	183	1	ZNF30	19	35424541	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	4384169	35424541	23704442	318	47234										
HPN	3249	broad.mit.edu	37	chr19	35551594	35551594	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtggcccaggcctctccccaCggtctgcagctgggggtgca	15	15	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:35551594C>T	uc002nxq.1	+	10	929	c.684C>T	c.(682-684)CAC>CAT	p.H228H	HPN_uc002nxr.1_Silent_p.H228H|HPN_uc002nxs.1_Silent_p.H70H|HPN_uc010xsh.1_Silent_p.H197H|HPN_uc002nxt.1_Silent_p.H112H|LOC100128675_uc010xsi.1_Intron	NM_002151	NP_002142	P05981	HEPS_HUMAN	hepsin	228	Extracellular (Potential).|Peptidase S1.				cell growth|proteolysis	cytoplasm|integral to plasma membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2	all_lung(56;5.38e-08)|Lung NSC(56;8.61e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)		Coagulation factor VIIa(DB00036)	CCTCTCCCCACGGTCTGCAGC	0.662													4	110	---	---	---	---	PASS	T	35551594	T	T	35551594	2	4	131	1	0	0	0	0	0	0	0	1	7336	535	19	1		1	HPN	19	35551594	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	127053	35551594	23577389	319	47235										
CD22	933	broad.mit.edu	37	chr19	35837481	35837481	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tttctcagggcgactatgagAacgtcattccagattttcca	8	10	2	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:35837481A>C	uc010edt.2	+	14	2502	c.2425A>C	c.(2425-2427)AAC>CAC	p.N809H	CD22_uc010xst.1_Missense_Mutation_p.N637H|CD22_uc010edu.2_Missense_Mutation_p.N721H|CD22_uc010edv.2_3'UTR|CD22_uc002nzb.3_Missense_Mutation_p.N632H|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	809	Cytoplasmic (Potential).				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)	CGACTATGAGAACGTCATTCC	0.547													6	14	---	---	---	---	PASS	C	35837481	C	C	35837481	3	2	131	1	0	0	0	0	1	0	0	0	2985	246	9	5	2475	5	CD22	19	35837481	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	285887	35837481	23291502	320	47236										
ARHGAP33	115703	broad.mit.edu	37	chr19	36277800	36277800	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgccacccgctgtcctagaaCtgctgggggctgggggagca	16	12	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:36277800C>T	uc002obr.1	+	20	2513	c.2428C>T	c.(2428-2430)CTG>TTG	p.L810L	ARHGAP33_uc002obs.1_Silent_p.L649L|ARHGAP33_uc002obt.1_Silent_p.L674L|ARHGAP33_uc010eel.2_Silent_p.L398L|ARHGAP33_uc002obv.1_Silent_p.L398L	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	810					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						TGTCCTAGAACTGCTGGGGGC	0.706													3	23	---	---	---	---	PASS	T	36277800	T	T	36277800	2	4	131	1	0	0	0	0	0	0	0	1	882	564	20	3		3	ARHGAP33	19	36277800	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	440319	36277800	22851183	321	47237										
ZFP14	57677	broad.mit.edu	37	chr19	36831374	36831374	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tctacattccttacattcatAaggtttctcaccagtgtgaa	5	10	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:36831374A>G	uc002odx.1	-	4	1447	c.1354T>C	c.(1354-1356)TAT>CAT	p.Y452H	ZFP14_uc010xtd.1_Missense_Mutation_p.Y453H|ZFP14_uc010eex.1_Missense_Mutation_p.Y452H	NM_020917	NP_065968	Q9HCL3	ZFP14_HUMAN	zinc finger protein 14-like	452	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.162)					TTACATTCATAAGGTTTCTCA	0.398													41	193	---	---	---	---	PASS	G	36831374	G	G	36831374	3	3	131	1	0	0	0	0	1	0	0	0	17636	362	13	5	251	5	ZFP14	19	36831374	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	553574	36831374	22297609	322	47238										
ZNF607	84775	broad.mit.edu	37	chr19	38189345	38189345	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggccttgccacattccttacAttcgtagggtttctcagcgc	9	13	1	0	rs146672126		TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:38189345A>G	uc002ohc.1	-	5	2283	c.1687T>C	c.(1687-1689)TGT>CGT	p.C563R	ZNF607_uc002ohb.1_Missense_Mutation_p.C562R	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	563	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			CATTCCTTACATTCGTAGGGT	0.418													58	58	---	---	---	---	PASS	G	38189345	G	G	38189345	3	3	131	1	0	0	0	0	1	0	0	0	18030	217	8	5	407	5	ZNF607	19	38189345	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	1357971	38189345	20939638	323	47239										
PSG2	5670	broad.mit.edu	37	chr19	43579557	43579557	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gctggcactccctgagttccGtatttcacattcatagggtc	9	12	2	1	rs146901045	byFrequency	TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:43579557G>A	uc002ovr.2	-	3	751	c.658C>T	c.(658-660)CGG>TGG	p.R220W	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.R220W|PSG2_uc010eiq.1_Missense_Mutation_p.R220W|PSG2_uc002ovs.3_Missense_Mutation_p.R220W|PSG2_uc002ovt.3_Missense_Mutation_p.R220W	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	220	Ig-like C2-type 1.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				CCTGAGTTCCGTATTTCACAT	0.507													196	302	---	---	---	---	PASS	A	43579557	A	A	43579557	3	1	131	1	0	0	0	0	1	0	0	0	12655	1144	40	1	361	1	PSG2	19	43579557	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	5390212	43579557	15549426	324	47240										
ZNF285	26974	broad.mit.edu	37	chr19	44891930	44891930	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tatcttccctgagagttctgGggctcggtcattatgttggc	12	9	3	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:44891930G>T	uc002ozd.3	-	4	564	c.477C>A	c.(475-477)CCC>CCA	p.P159P	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Silent_p.P166P	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	159					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						GAGAGTTCTGGGGCTCGGTCA	0.443													80	141	---	---	---	---	PASS	T	44891930	T	T	44891930	2	4	131	1	0	0	0	0	0	0	0	1	17819	1219	43	3		3	ZNF285	19	44891930	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	1312373	44891930	14237053	325	47241										
PPP1R13L	10848	broad.mit.edu	37	chr19	45899676	45899676	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tccaggctttcggaggccgcCggcgcagcgtcaggtcgtct	15	14	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:45899676C>T	uc002pbn.2	-	5	808	c.731G>A	c.(730-732)CGG>CAG	p.R244Q	PPP1R13L_uc002pbo.2_Missense_Mutation_p.R244Q|PPP1R13L_uc002pbp.2_Missense_Mutation_p.R244Q	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	244	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		CGGAGGCCGCCGGCGCAGCGT	0.652													32	51	---	---	---	---	PASS	T	45899676	T	T	45899676	3	4	131	1	0	0	0	0	1	0	0	0	12358	652	23	1	1791	1	PPP1R13L	19	45899676	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	1007746	45899676	13229307	326	47242										
SYMPK	8189	broad.mit.edu	37	chr19	46355645	46355645	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cttggaatgcgatgatctccTgccaatgttagagagaaagt	11	7	1	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:46355645T>C	uc002pdn.2	-	5	471	c.226_splice	c.e5-1	p.E76_splice	SYMPK_uc002pdo.1_Splice_Site_p.E76_splice|SYMPK_uc002pdp.1_Splice_Site_p.E76_splice|SYMPK_uc002pdq.1_Splice_Site_p.E76_splice	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin						cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		GATGATCTCCTGCCAATGTTA	0.527													68	104	---	---	---	---	PASS	C	46355645	C	C	46355645	5	2	131	1	0	0	0	0	0	0	1	0	15436	1594	55	5	3692	5	SYMPK	19	46355645	Splice_Site	SNP	T	TCGA-60-2722-01A-01D-1522-08	455969	46355645	12773338	327	47243										
HIF3A	64344	broad.mit.edu	37	chr19	46834442	46834442	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccagagctcagaggacgaggAcgagggagtggagctgctgg	19	8	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:46834442A>T	uc002peh.2	+	13	1771	c.1742A>T	c.(1741-1743)GAC>GTC	p.D581V	HIF3A_uc002peg.3_Missense_Mutation_p.D581V|HIF3A_uc002pei.3_Missense_Mutation_p.D525V|HIF3A_uc002pej.1_Intron|HIF3A_uc002pek.2_Missense_Mutation_p.D525V|HIF3A_uc010xxy.1_Missense_Mutation_p.D512V|HIF3A_uc002pel.2_Missense_Mutation_p.D579V|HIF3A_uc010xxz.1_Missense_Mutation_p.D530V	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	581	ODD.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		GAGGACGAGGACGAGGGAGTG	0.567													32	66	---	---	---	---	PASS	T	46834442	T	T	46834442	3	4	131	1	0	0	0	0	1	0	0	0	7105	275	10	5	1816	5	HIF3A	19	46834442	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	478797	46834442	12294541	328	47244										
FAM83E	54854	broad.mit.edu	37	chr19	49107101	49107101	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccggaactcaaggctgaaggCgtcaacaatttcaccagtca	9	12	4	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:49107101C>T	uc002pjn.2	-	4	891	c.826G>A	c.(826-828)GCC>ACC	p.A276T	SPACA4_uc002pjo.2_5'Flank	NM_017708	NP_060178	Q2M2I3	FA83E_HUMAN	hypothetical protein LOC54854	276										ovary(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		AGGCTGAAGGCGTCAACAATT	0.672													26	40	---	---	---	---	PASS	T	49107101	T	T	49107101	3	4	131	1	0	0	0	0	1	0	0	0	5637	768	27	1	618	1	FAM83E	19	49107101	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	2272659	49107101	10021882	329	47245										
ZNF836	162962	broad.mit.edu	37	chr19	52659713	52659713	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tgtaaggtttgtttccactaTgaactgtctgatgagttgcc	10	7	1	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:52659713T>C	uc010ydi.1	-	5	1597	c.1223A>G	c.(1222-1224)CAT>CGT	p.H408R	ZNF836_uc010ydj.1_Missense_Mutation_p.H408R	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	408	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTTCCACTATGAACTGTCTG	0.418													6	165	---	---	---	---	PASS	C	52659713	C	C	52659713	3	2	131	1	0	0	0	0	1	0	0	0	18184	1464	51	5	1589	5	ZNF836	19	52659713	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	3552612	52659713	6469270	330	47246										
TTYH1	57348	broad.mit.edu	37	chr19	54940526	54940526	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggttctcgtcctgagctgggGctccatgggcctggaggcag	17	11	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:54940526G>A	uc002qfq.2	+	6	868	c.776G>A	c.(775-777)GGC>GAC	p.G259D	TTYH1_uc010yey.1_Missense_Mutation_p.G308D|TTYH1_uc002qfr.2_Missense_Mutation_p.G259D|TTYH1_uc002qft.2_Missense_Mutation_p.G259D|TTYH1_uc002qfu.1_Missense_Mutation_p.G171D	NM_020659	NP_065710	Q9H313	TTYH1_HUMAN	tweety 1 isoform 1	259	Helical; Name=4; (Potential).				cell adhesion	chloride channel complex|plasma membrane	chloride channel activity|iron ion transmembrane transporter activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0767)		CTGAGCTGGGGCTCCATGGGC	0.622													62	81	---	---	---	---	PASS	A	54940526	A	A	54940526	3	1	131	1	0	0	0	0	1	0	0	0	16736	1203	42	3	798	3	TTYH1	19	54940526	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	2280813	54940526	4188457	331	47247										
RDH13	112724	broad.mit.edu	37	chr19	55559778	55559778	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ggcggctttggtgttatactTcctcgtctgccagttcaagt	11	10	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:55559778T>C	uc002qio.3	-	5	762	c.577A>G	c.(577-579)AAG>GAG	p.K193E	RDH13_uc002qip.2_Missense_Mutation_p.K122E|RDH13_uc010esr.1_RNA	NM_001145971	NP_001139443	Q8NBN7	RDH13_HUMAN	retinol dehydrogenase 13 isoform 1	193							binding|oxidoreductase activity			large_intestine(1)|ovary(1)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(297;0.199)	GBM - Glioblastoma multiforme(193;0.0504)	Vitamin A(DB00162)	GTGTTATACTTCCTCGTCTGC	0.592													47	72	---	---	---	---	PASS	C	55559778	C	C	55559778	3	2	131	1	0	0	0	0	1	0	0	0	13192	1792	62	5	430	5	RDH13	19	55559778	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	619252	55559778	3569205	332	47248										
SAPS1	22870	broad.mit.edu	37	chr19	55743015	55743015	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtggcttcctgaggtgctgaGgggggtgtggggtcctgaga	21	6	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:55743015G>A	uc002qjw.3	-	20	2570	c.2328C>T	c.(2326-2328)CCC>CCT	p.P776P	TMEM86B_uc002qjt.2_5'Flank|TMEM86B_uc002qju.2_5'Flank|SAPS1_uc002qjv.2_Silent_p.P838P	NM_014931	NP_055746	Q9UPN7	PP6R1_HUMAN	SAPS domain family, member 1	776	Pro-rich.				regulation of phosphoprotein phosphatase activity	cytoplasm	protein phosphatase binding				0		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		GAGGTGCTGAGGGGGGTGTGG	0.672													19	2	---	---	---	---	PASS	A	55743015	A	A	55743015	2	1	131	1	0	0	0	0	0	0	0	1	13836	987	35	3		3	SAPS1	19	55743015	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	183237	55743015	3385968	333	47249										
ZNF835	90485	broad.mit.edu	37	chr19	57175617	57175617	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gctcggccagagaggcgctcTggctgaagagcgcgccgcag	17	13	1	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:57175617T>C	uc010ygo.1	-	2	1016	c.1016A>G	c.(1015-1017)CAG>CGG	p.Q339R	ZNF835_uc010ygn.1_Missense_Mutation_p.Q317R	NM_001005850	NP_001005850			zinc finger protein 835									p.G334fs*26(1)		pancreas(3)|skin(1)	4						AGAGGCGCTCTGGCTGAAGAG	0.701													4	8	---	---	---	---	PASS	C	57175617	C	C	57175617	3	2	131	1	0	0	0	0	1	0	0	0	18183	1580	55	5	665	5	ZNF835	19	57175617	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	1432602	57175617	1953366	334	47250										
DUXA	503835	broad.mit.edu	37	chr19	57669821	57669821	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agaggcgctgtaggtggtacGacaccgtctggcttctctac	13	11	2	1	rs145101590		TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:57669821G>A	uc002qoa.1	-	4	358	c.313C>T	c.(313-315)CGT>TGT	p.R105C		NM_001012729	NP_001012747	A6NLW8	DUXA_HUMAN	double homeobox A	105	Homeobox 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0123)		TAGGTGGTACGACACCGTCTG	0.468													51	82	---	---	---	---	PASS	A	57669821	A	A	57669821	3	1	131	1	0	0	0	0	1	0	0	0	4834	1058	37	2	313	2	DUXA	19	57669821	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	494204	57669821	1459162	335	47251										
ZNF548	147694	broad.mit.edu	37	chr19	57910184	57910184	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agcaccagggccctcaaagcGagtggaagccatacagggac	13	12	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:57910184G>T	uc002qom.2	+	3	779	c.529G>T	c.(529-531)GAG>TAG	p.E177*	ZNF547_uc002qpm.3_Intron|ZNF548_uc002qon.2_Nonsense_Mutation_p.E180*	NM_152909	NP_690873	Q8NEK5	ZN548_HUMAN	zinc finger protein 548	177					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CCCTCAAAGCGAGTGGAAGCC	0.512													36	53	---	---	---	---	PASS	T	57910184	T	T	57910184	4	4	131	1	0	0	0	0	0	1	0	0	17977	1059	37	2	579	2	ZNF548	19	57910184	Nonsense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	240363	57910184	1218799	336	47252										
ZSCAN1	284312	broad.mit.edu	37	chr19	58549521	58549521	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gtcacagggcccccgaagctGcagggaggccgccagcctgg	16	15	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:58549521G>T	uc002qrc.1	+	3	564	c.317G>T	c.(316-318)TGC>TTC	p.C106F	ZSCAN1_uc002qra.1_Missense_Mutation_p.C106F|ZSCAN1_uc002qrb.1_Missense_Mutation_p.C106F	NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	106	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		CCCCGAAGCTGCAGGGAGGCC	0.692													7	9	---	---	---	---	PASS	T	58549521	T	T	58549521	3	4	131	1	0	0	0	0	1	0	0	0	18223	1319	46	3	319	3	ZSCAN1	19	58549521	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	639337	58549521	579462	337	47253										
ZBTB45	84878	broad.mit.edu	37	chr19	59028370	59028370	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cctcgcctgggccgccacctTcgccatcctcgccatcggtc	9	21	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr19:59028370T>A	uc002qtd.2	-	2	963	c.671A>T	c.(670-672)GAA>GTA	p.E224V	ZBTB45_uc002qte.2_Missense_Mutation_p.E224V|ZBTB45_uc002qtf.2_Missense_Mutation_p.E224V	NM_032792	NP_116181	Q96K62	ZBT45_HUMAN	zinc finger and BTB domain containing 45	224					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0165)|Lung(386;0.18)		GCCGCCACCTTCGCCATCCTC	0.662											OREG0025700	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	118	339	---	---	---	---	PASS	A	59028370	A	A	59028370	3	1	131	1	0	0	0	0	1	0	0	0	17543	1783	62	5	872	5	ZBTB45	19	59028370	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	478849	59028370	100613	338	47254										
C20orf103	24141	broad.mit.edu	37	chr20	9510324	9510324	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tggatgagcgggagcaactgGaagaaaccttgcccctgatt	13	9	0	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr20:9510324G>C	uc002wni.1	+	6	929	c.700G>C	c.(700-702)GAA>CAA	p.E234Q	C20orf103_uc010zrc.1_Missense_Mutation_p.E190Q	NM_012261	NP_036393	Q9UJQ1	CT103_HUMAN	chromosome 20 open reading frame 103 precursor	234	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|lung(1)|breast(1)	3			COAD - Colon adenocarcinoma(9;0.194)			GGAGCAACTGGAAGAAACCTT	0.483													46	87	---	---	---	---	PASS	C	9510324	C	C	9510324	3	2	131	1	0	0	0	0	1	0	0	0	2075	1175	41	2	722	2	C20orf103	20	9510324	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08		9510324	53515196	339	47255										
TASP1	55617	broad.mit.edu	37	chr20	13509103	13509103	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aggtactcacagctgtggagTaggggttatgagctccagta	14	7	1	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr20:13509103T>C	uc002woi.2	-	10	968	c.851A>G	c.(850-852)TAC>TGC	p.Y284C	TASP1_uc010zri.1_Intron|TASP1_uc002woh.2_Missense_Mutation_p.Y261C|TASP1_uc010zrj.1_RNA	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	284					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						AGCTGTGGAGTAGGGGTTATG	0.368													11	23	---	---	---	---	PASS	C	13509103	C	C	13509103	3	2	131	1	0	0	0	0	1	0	0	0	15586	1638	57	5	431	5	TASP1	20	13509103	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	3998779	13509103	49516417	340	47256										
C20orf117	140710	broad.mit.edu	37	chr20	35444018	35444018	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agcatgggccgcgtactctgGcaggaggcgaggtcacagcg	17	11	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr20:35444018G>T	uc002xgd.1	-	5	1440	c.1113C>A	c.(1111-1113)TGC>TGA	p.C371*	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	371											0		Myeloproliferative disorder(115;0.00874)				GCGTACTCTGGCAGGAGGCGA	0.667													6	11	---	---	---	---	PASS	T	35444018	T	T	35444018	4	4	131	1	0	0	0	0	0	1	0	0	2083	1195	42	3	3264	3	C20orf117	20	35444018	Nonsense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	21934915	35444018	27581502	341	47257										
TPTE	7179	broad.mit.edu	37	chr21	10952962	10952962	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cacaattttcttaatcttgcTgctgcaaaaagaagtaaaaa	5	7	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr21:10952962T>C	uc002yip.1	-	9	603	c.235A>G	c.(235-237)AGC>GGC	p.S79G	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.S61G|TPTE_uc002yir.1_Missense_Mutation_p.S41G|TPTE_uc010gkv.1_5'UTR	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	79					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTAATCTTGCTGCTGCAAAAA	0.259													12	82	---	---	---	---	PASS	C	10952962	C	C	10952962	3	2	131	1	0	0	0	0	1	0	0	0	16427	1594	55	5	1484	5	TPTE	21	10952962	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08		10952962	37176933	342	47258										
HSPA13	6782	broad.mit.edu	37	chr21	15746135	15746135	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccgaggaatacgagtggagcCcccaactaaaaccacctcat	8	14	1	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr21:15746135C>T	uc002yjt.2	-	5	1288	c.1219G>A	c.(1219-1221)GGC>AGC	p.G407S	HSPA13_uc011abx.1_Missense_Mutation_p.G199S	NM_006948	NP_008879	P48723	HSP13_HUMAN	heat shock protein 70kDa family member 13	407						endoplasmic reticulum|microsome	ATP binding			kidney(1)	1						CGAGTGGAGCCCCCAACTAAA	0.448													65	140	---	---	---	---	PASS	T	15746135	T	T	15746135	3	4	131	1	0	0	0	0	1	0	0	0	7406	623	22	3	200	3	HSPA13	21	15746135	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	4793173	15746135	32383760	343	47259										
ITSN1	6453	broad.mit.edu	37	chr21	35140086	35140086	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gatcagaggctaccagaggaAccagttttagaagatgaaca	11	7	1	5			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr21:35140086A>G	uc002yta.1	+	11	1264	c.996A>G	c.(994-996)GAA>GAG	p.E332E	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_RNA|ITSN1_uc002ysz.2_Silent_p.E332E|ITSN1_uc010gmg.2_Silent_p.E295E|ITSN1_uc010gmh.2_RNA|ITSN1_uc002ysw.2_Silent_p.E332E|ITSN1_uc010gmi.2_Silent_p.E295E|ITSN1_uc010gmj.2_Silent_p.E216E|ITSN1_uc002ysy.2_Silent_p.E332E|ITSN1_uc002ysx.2_Silent_p.E295E|ITSN1_uc002ytb.1_Silent_p.E332E|ITSN1_uc002ytc.1_Silent_p.E332E|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Silent_p.E295E|ITSN1_uc010gml.2_RNA|ITSN1_uc002ytj.2_Silent_p.E332E|ITSN1_uc010gmm.1_RNA|ITSN1_uc002yte.2_Silent_p.E266E	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	332	KLERQ.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						TACCAGAGGAACCAGTTTTAG	0.358													22	62	---	---	---	---	PASS	G	35140086	G	G	35140086	2	3	131	1	0	0	0	0	0	0	0	1	7926	40	2	5		5	ITSN1	21	35140086	Silent	SNP	A	TCGA-60-2722-01A-01D-1522-08	19393951	35140086	12989809	344	47260										
TTC3	7267	broad.mit.edu	37	chr21	38459620	38459620	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gccttgttagaagattgcccTcacgtggatgattgtgtctt	11	8	2	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr21:38459620T>A	uc002yvz.2	+	2	168	c.63T>A	c.(61-63)CCT>CCA	p.P21P	TTC3_uc011aee.1_Intron|TTC3_uc002ywa.2_Silent_p.P21P|TTC3_uc002ywb.2_Silent_p.P21P|TTC3_uc010gnf.2_5'UTR|TTC3_uc011aed.1_Intron|TTC3_uc010gne.1_Silent_p.P21P	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	21					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				AAGATTGCCCTCACGTGGATG	0.428													238	176	---	---	---	---	PASS	A	38459620	A	A	38459620	2	1	131	1	0	0	0	0	0	0	0	1	16694	1538	54	5		5	TTC3	21	38459620	Silent	SNP	T	TCGA-60-2722-01A-01D-1522-08	3319534	38459620	9670275	345	47261										
ITGB2	3689	broad.mit.edu	37	chr21	46330676	46330676	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cagccccaccagggcgagcaGtggggggcgcaggcccagca	17	15	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr21:46330676G>A	uc002zgd.2	-	1	66	c.22C>T	c.(22-24)CTG>TTG	p.L8L	ITGB2_uc002zge.2_Silent_p.L8L|ITGB2_uc002zgf.3_Silent_p.L8L|ITGB2_uc011afl.1_5'UTR|ITGB2_uc010gpw.2_Silent_p.L8L|ITGB2_uc002zgg.2_Silent_p.L8L	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	8					apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	AGGGCGAGCAGTGGGGGGCGC	0.662													11	5	---	---	---	---	PASS	A	46330676	A	A	46330676	2	1	131	1	0	0	0	0	0	0	0	1	7894	1020	36	3		3	ITGB2	21	46330676	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	7871056	46330676	1799219	346	47262										
PRMT2	3275	broad.mit.edu	37	chr21	48068521	48068521	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cttctgtgcacactatgcgcGgcctagagcggtgagtgggg	16	10	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr21:48068521G>T	uc002zjx.2	+	6	793	c.479G>T	c.(478-480)CGG>CTG	p.R160L	PRMT2_uc002zjw.2_Missense_Mutation_p.R160L|PRMT2_uc002zjy.2_Missense_Mutation_p.R160L|PRMT2_uc010gqm.2_Missense_Mutation_p.R160L|PRMT2_uc011aga.1_Missense_Mutation_p.R160L|PRMT2_uc011agb.1_Missense_Mutation_p.R160L|PRMT2_uc011agc.1_Missense_Mutation_p.R160L|PRMT2_uc002zjz.1_Missense_Mutation_p.R46L	NM_206962	NP_996845	P55345	ANM2_HUMAN	HMT1 hnRNP methyltransferase-like 1	160	Interaction with RB1 (By similarity).|Interaction with ESR1.				developmental cell growth|induction of apoptosis|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of androgen receptor signaling pathway	cytosol|nucleus	androgen receptor binding|estrogen receptor binding|histone-arginine N-methyltransferase activity|peroxisome proliferator activated receptor binding|progesterone receptor binding|protein homodimerization activity|retinoic acid receptor binding|signal transducer activity|thyroid hormone receptor binding|transcription coactivator activity			ovary(1)	1	Breast(49;0.247)	Lung NSC(3;0.245)		Epithelial(3;1.03e-07)|OV - Ovarian serous cystadenocarcinoma(3;4.68e-07)|all cancers(3;7.48e-07)|Colorectal(79;0.167)|Lung(125;0.203)|LUSC - Lung squamous cell carcinoma(216;0.23)|READ - Rectum adenocarcinoma(84;0.248)		CACTATGCGCGGCCTAGAGCG	0.577													40	119	---	---	---	---	PASS	T	48068521	T	T	48068521	3	4	131	1	0	0	0	0	1	0	0	0	12537	1116	39	1	493	1	PRMT2	21	48068521	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	1737845	48068521	61374	347	47263										
PEX26	55670	broad.mit.edu	37	chr22	18567938	18567938	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	tcgccagctttgggactctgCggtgagccacttcttttctc	10	13	3	1	rs149153003	byFrequency	TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr22:18567938C>T	uc002znp.3	+	5	937	c.728C>T	c.(727-729)GCG>GTG	p.A243V	TUBA8_uc002znr.2_Intron|PEX26_uc002znq.3_Missense_Mutation_p.A243V|PEX26_uc002znt.2_Intron	NM_017929	NP_060399	Q7Z412	PEX26_HUMAN	peroxisome biogenesis factor 26	243	Cytoplasmic (Potential).				protein import into peroxisome matrix|protein import into peroxisome membrane	integral to peroxisomal membrane	protein C-terminus binding|protein complex binding			skin(1)	1						TGGGACTCTGCGGTGAGCCAC	0.542													21	112	---	---	---	---	PASS	T	18567938	T	T	18567938	3	4	131	1	0	0	0	0	1	0	0	0	11746	768	27	1	742	1	PEX26	22	18567938	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08		18567938	32736628	348	47264										
GAL3ST1	9514	broad.mit.edu	37	chr22	30952021	30952021	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	cccccgccgagccgttggccCggatcactgcctctggctcg	12	19	2	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr22:30952021C>A	uc003aig.1	-	4	331	c.191G>T	c.(190-192)CGG>CTG	p.R64L	GAL3ST1_uc003aih.1_Missense_Mutation_p.R64L|GAL3ST1_uc003aii.1_Missense_Mutation_p.R64L|GAL3ST1_uc010gvz.1_Missense_Mutation_p.R64L	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	64	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						GCCGTTGGCCCGGATCACTGC	0.682													22	44	---	---	---	---	PASS	A	30952021	A	A	30952021	3	1	131	1	0	0	0	0	1	0	0	0	6197	652	23	1	1084	1	GAL3ST1	22	30952021	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	12384083	30952021	20352545	349	47265										
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31836783	31836783	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	actagcagcaggtaaagggtAaaagggctgacccaggatgg	15	7	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr22:31836783A>T	uc003akz.1	-	18	2787	c.2623T>A	c.(2623-2625)TAC>AAC	p.Y875N	EIF4ENIF1_uc003akx.1_Missense_Mutation_p.Y530N|EIF4ENIF1_uc003aky.1_Missense_Mutation_p.Y555N|EIF4ENIF1_uc003ala.1_Missense_Mutation_p.Y875N|EIF4ENIF1_uc003alb.1_Missense_Mutation_p.Y701N|EIF4ENIF1_uc003akw.1_Missense_Mutation_p.Y365N	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	875						nucleus	protein binding|protein transporter activity			ovary(1)	1						GGTAAAGGGTAAAAGGGCTGA	0.527													57	97	---	---	---	---	PASS	T	31836783	T	T	31836783	3	4	131	1	0	0	0	0	1	0	0	0	5035	362	13	5	342	5	EIF4ENIF1	22	31836783	Missense_Mutation	SNP	A	TCGA-60-2722-01A-01D-1522-08	884762	31836783	19467783	350	47266										
BAIAP2L2	80115	broad.mit.edu	37	chr22	38503901	38503901	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aagtgccgctgggtgtcagaCatctgcaccaagatctcccc	10	14	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr22:38503901C>T	uc003auw.2	-	4	378	c.234G>A	c.(232-234)ATG>ATA	p.M78I		NM_025045	NP_079321	Q6UXY1	BI2L2_HUMAN	BAI1-associated protein 2-like 2	78	IMD.				filopodium assembly|signal transduction		cytoskeletal adaptor activity|SH3 domain binding			pancreas(1)	1	Melanoma(58;0.045)					GGGTGTCAGACATCTGCACCA	0.612													51	116	---	---	---	---	PASS	T	38503901	T	T	38503901	3	4	131	1	0	0	0	0	1	0	0	0	1303	478	17	3	1399	3	BAIAP2L2	22	38503901	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	6667118	38503901	12800665	351	47267										
ATF4	468	broad.mit.edu	37	chr22	39917980	39917980	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	acggtgaacccaattggccaTctcccagaaagtttaacaaa	7	11	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr22:39917980T>A	uc003axz.2	+	3	709	c.429T>A	c.(427-429)CAT>CAA	p.H143Q	ATF4_uc011aol.1_Missense_Mutation_p.H55Q|ATF4_uc003aya.2_Missense_Mutation_p.H143Q	NM_182810	NP_877962	P18848	ATF4_HUMAN	activating transcription factor 4	143					cellular amino acid metabolic process|gluconeogenesis|positive regulation of transcription from RNA polymerase II promoter|response to endoplasmic reticulum stress|transcription from RNA polymerase II promoter	cytoplasm|plasma membrane	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Melanoma(58;0.04)					CAATTGGCCATCTCCCAGAAA	0.532													270	220	---	---	---	---	PASS	A	39917980	A	A	39917980	3	1	131	1	0	0	0	0	1	0	0	0	1082	1432	50	5	435	5	ATF4	22	39917980	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	1414079	39917980	11386586	352	47268										
PPPDE2	27351	broad.mit.edu	37	chr22	42003316	42003316	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gaagaagaactcatccttgtGcacaactatggatgtgtgcc	10	9	1	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr22:42003316G>A	uc003ban.1	-	3	203	c.130C>T	c.(130-132)CAC>TAC	p.H44Y	PPPDE2_uc011apb.1_Intron	NM_015704	NP_056519	Q6ICB0	PPDE2_HUMAN	PPPDE peptidase domain containing 2	44	PPPDE peptidase.										0						TCATCCTTGTGCACAACTATG	0.493													47	37	---	---	---	---	PASS	A	42003316	A	A	42003316	3	1	131	1	0	0	0	0	1	0	0	0	12409	1319	46	3	392	3	PPPDE2	22	42003316	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	2085336	42003316	9301250	353	47269										
TNFRSF13C	115650	broad.mit.edu	37	chr22	42322214	42322214	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	agcgccaggaccagtgccagGcccagcagcgcgggggcgcc	17	16	0	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr22:42322214G>T	uc003bbl.2	-	2	302	c.258C>A	c.(256-258)GGC>GGA	p.G86G	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|TNFRSF13C_uc010gyp.1_Silent_p.G87G	NM_052945	NP_443177	Q96RJ3	TR13C_HUMAN	BAFF receptor	86	Helical; Signal-anchor for type III membrane protein; (Potential).					integral to membrane	receptor activity				0						ccagtgccaggcccagcAGCG	0.657													3	23	---	---	---	---	PASS	T	42322214	T	T	42322214	2	4	131	1	0	0	0	0	0	0	0	1	16285	1190	42	3		3	TNFRSF13C	22	42322214	Silent	SNP	G	TCGA-60-2722-01A-01D-1522-08	318898	42322214	8982352	354	47270										
CERK	64781	broad.mit.edu	37	chr22	47108146	47108146	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ccgcttgccttgtccttttcCtccaaacgggttgataaata	7	12	0	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chr22:47108146C>A	uc003bia.2	-	4	531	c.424G>T	c.(424-426)GGA>TGA	p.G142*	CERK_uc010hae.2_Translation_Start_Site	NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	142	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TGTCCTTTTCCTCCAAACGGG	0.393													57	60	---	---	---	---	PASS	A	47108146	A	A	47108146	4	1	131	1	0	0	0	0	0	1	0	0	3267	690	24	3	1229	3	CERK	22	47108146	Nonsense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	4785932	47108146	4196420	355	47271										
ASB9	140462	broad.mit.edu	37	chrX	15268561	15268561	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ttttgctttacctgactccaGaagcttcttgacacaggctc	7	12	1	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chrX:15268561G>C	uc004cwl.2	-	5	806	c.559C>G	c.(559-561)CTG>GTG	p.L187V	ASB9_uc004cwk.2_Missense_Mutation_p.L187V|ASB9_uc004cwm.2_Missense_Mutation_p.L177V|ASB9_uc010ner.2_Missense_Mutation_p.L187V|ASB9_uc004cwn.2_Missense_Mutation_p.L158V	NM_001031739	NP_001026909	Q96DX5	ASB9_HUMAN	ankyrin repeat and SOCS box-containing 9 isoform	187	ANK 5.				intracellular signal transduction						0	Hepatocellular(33;0.183)					CCTGACTCCAGAAGCTTCTTG	0.348													90	20	---	---	---	---	PASS	C	15268561	C	C	15268561	3	2	131	1	0	0	0	0	1	0	0	0	1030	933	33	2	366	2	ASB9	23	15268561	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08		15268561	140001999	356	47272										
DMD	1756	broad.mit.edu	37	chrX	32361367	32361367	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctgataccactgatgagaaaTttctagagccttttttcttc	6	9	2	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chrX:32361367T>G	uc004dda.1	-	40	5867	c.5623A>C	c.(5623-5625)ATT>CTT	p.I1875L	DMD_uc004dcw.2_Missense_Mutation_p.I531L|DMD_uc004dcx.2_Missense_Mutation_p.I534L|DMD_uc004dcz.2_Missense_Mutation_p.I1752L|DMD_uc004dcy.1_Missense_Mutation_p.I1871L|DMD_uc004ddb.1_Missense_Mutation_p.I1867L|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1875	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGATGAGAAATTTCTAGAGCC	0.393													76	10	---	---	---	---	PASS	G	32361367	G	G	32361367	3	3	131	1	0	0	0	0	1	0	0	0	4580	1493	52	5	5742	5	DMD	23	32361367	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	17092806	32361367	122909193	357	47273										
PJA1	64219	broad.mit.edu	37	chrX	68382648	68382648	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	acagcttatcatctttaaacTtgccagttttccctctcact	3	13	3	0			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chrX:68382648T>A	uc004dxh.2	-	2	720	c.434A>T	c.(433-435)AAG>ATG	p.K145M	PJA1_uc011mpi.1_Translation_Start_Site|PJA1_uc004dxg.2_Intron|PJA1_uc004dxi.2_Missense_Mutation_p.K90M	NM_145119	NP_660095	Q8NG27	PJA1_HUMAN	praja 1 isoform a	145							zinc ion binding				0						ATCTTTAAACTTGCCAGTTTT	0.517													17	1	---	---	---	---	PASS	A	68382648	A	A	68382648	3	1	131	1	0	0	0	0	1	0	0	0	11961	1609	56	5	1501	5	PJA1	23	68382648	Missense_Mutation	SNP	T	TCGA-60-2722-01A-01D-1522-08	36021281	68382648	86887912	358	47274										
TAF1	6872	broad.mit.edu	37	chrX	70597469	70597469	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	ctaggtgttacgttttctacGtctttttggaccagggaaga	11	7	2	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chrX:70597469G>A	uc004dzu.3	+	6	779	c.728G>A	c.(727-729)CGT>CAT	p.R243H	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.R264H	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	243	Protein kinase 1.				G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				CGTTTTCTACGTCTTTTTGGA	0.473													17	48	---	---	---	---	PASS	A	70597469	A	A	70597469	3	1	131	1	0	0	0	0	1	0	0	0	15510	1145	40	1	813	1	TAF1	23	70597469	Missense_Mutation	SNP	G	TCGA-60-2722-01A-01D-1522-08	2214821	70597469	84673091	359	47275										
SLC16A2	6567	broad.mit.edu	37	chrX	73740856	73740856	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gccctcgcgatgggtatgatCttcttctgttctcccattgt	9	12	4	1			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chrX:73740856C>A	uc004ebt.2	+	2	850	c.684C>A	c.(682-684)ATC>ATA	p.I228I		NM_006517	NP_006508	P36021	MOT8_HUMAN	solute carrier family 16, member 2	154	Helical; (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			breast(2)|ovary(1)	3					Pyruvic acid(DB00119)	TGGGTATGATCTTCTTCTGTT	0.522													101	12	---	---	---	---	PASS	A	73740856	A	A	73740856	2	1	131	1	0	0	0	0	0	0	0	1	14408	903	32	2		2	SLC16A2	23	73740856	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	3143387	73740856	81529704	360	47276										
CPXCR1	53336	broad.mit.edu	37	chrX	88009119	88009119	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	attccgtgctattgtgaggtCtgtgctctttgtgtcacaga	11	8	3	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chrX:88009119C>A	uc004efd.3	+	3	963	c.704C>A	c.(703-705)TCT>TAT	p.S235Y	CPXCR1_uc004efc.3_Missense_Mutation_p.S235Y	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	235						intracellular	zinc ion binding			ovary(3)	3						ATTGTGAGGTCTGTGCTCTTT	0.358													17	4	---	---	---	---	PASS	A	88009119	A	A	88009119	3	1	131	1	0	0	0	0	1	0	0	0	3836	913	32	2	706	2	CPXCR1	23	88009119	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	14268263	88009119	67261441	361	47277										
PCDH11X	27328	broad.mit.edu	37	chrX	91090590	91090590	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gcccaggagaaaaactacacCatccgagaagaaatgccaga	9	11	0	4			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chrX:91090590C>A	uc004efk.1	+	1	932	c.87C>A	c.(85-87)ACC>ACA	p.T29T	PCDH11X_uc004efl.1_Silent_p.T29T|PCDH11X_uc004efo.1_Silent_p.T29T|PCDH11X_uc010nmv.1_Silent_p.T29T|PCDH11X_uc004efm.1_Silent_p.T29T|PCDH11X_uc004efn.1_Silent_p.T29T|PCDH11X_uc004efh.1_Silent_p.T29T|PCDH11X_uc004efj.1_Silent_p.T29T	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	29	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						AAAACTACACCATCCGAGAAG	0.493													79	10	---	---	---	---	PASS	A	91090590	A	A	91090590	2	1	131	1	0	0	0	0	0	0	0	1	11508	581	21	3		3	PCDH11X	23	91090590	Silent	SNP	C	TCGA-60-2722-01A-01D-1522-08	3081471	91090590	64179970	362	47278										
DCAF12L2	340578	broad.mit.edu	37	chrX	125298566	125298566	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	gaggcctgaagggagaggccCcccagccacaaagagcttca	13	13	1	3			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chrX:125298566C>G	uc004euk.1	-	1	1369	c.1342G>C	c.(1342-1344)GGG>CGG	p.G448R		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	448										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						GGGAGAGGCCCCCCAGCCACA	0.562													45	14	---	---	---	---	PASS	G	125298566	G	G	125298566	3	3	131	1	0	0	0	0	1	0	0	0	4265	623	22	4	53	4	DCAF12L2	23	125298566	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	34207976	125298566	29971994	363	47279										
SLITRK4	139065	broad.mit.edu	37	chrX	142717087	142717087	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.117647058823529	42	0.000180237932353363	1.83162773451984	2.6210610681054	1.46670100484349	0.566129834184731	0.863836040092219	19	aaatagacagaggcactggcCcaccaggaggacttcgaatg	12	10	0	2			TCGA-60-2722-01A-01D-1522-08	TCGA-60-2722-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	eb955f72-83bf-4635-a7ed-89e4d66e08f4	71cfd62e-551f-4cb5-92c1-d583e1b6c941	g.chrX:142717087C>A	uc004fbx.2	-	2	2214	c.1838G>T	c.(1837-1839)GGG>GTG	p.G613V	SLITRK4_uc004fby.2_Missense_Mutation_p.G613V	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	613	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					AGGCACTGGCCCACCAGGAGG	0.458													91	13	---	---	---	---	PASS	A	142717087	A	A	142717087	3	1	131	1	0	0	0	0	1	0	0	0	14745	623	22	3	679	3	SLITRK4	23	142717087	Missense_Mutation	SNP	C	TCGA-60-2722-01A-01D-1522-08	17418521	142717087	12553473	364	47280										
CCDC27	148870	broad.mit.edu	37	chr1	3680356	3680356	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aaaatgagacgctgcagaagGagctccgagagcggaggcag	16	8	0	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:3680356G>A	uc001akv.2	+	8	1489	c.1408G>A	c.(1408-1410)GAG>AAG	p.E470K		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	470										skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		GCTGCAGAAGGAGCTCCGAGA	0.567													38	74	---	---	---	---	PASS	A	3680356	A	A	3680356	3	1	132	1	0	0	0	0	1	0	0	0	2801	1175	41	2	1438	2	CCDC27	1	3680356	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08		3680356	245570265	1	47281										
NPHP4	261734	broad.mit.edu	37	chr1	5923438	5923438	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	actaggcgcaaactgcaagcCgatggtgtaggtctctccac	11	12	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:5923438C>A	uc001alq.1	-	30	4434	c.4168G>T	c.(4168-4170)GGC>TGC	p.G1390C	NPHP4_uc001alr.1_3'UTR	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	1390					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		AACTGCAAGCCGATGGTGTAG	0.542													61	140	---	---	---	---	PASS	A	5923438	A	A	5923438	3	1	132	1	0	0	0	0	1	0	0	0	10581	652	23	1	116	1	NPHP4	1	5923438	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	2243082	5923438	243327183	2	47282										
CSMD2	114784	broad.mit.edu	37	chr1	34006908	34006908	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccagggtcaccacagtttatGactaggataagagagatata	10	7	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:34006908G>T	uc001bxn.1	-	58	8876	c.8847C>A	c.(8845-8847)GTC>GTA	p.V2949V	CSMD2_uc001bxm.1_Silent_p.V3093V	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2949	Sushi 21.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CACAGTTTATGACTAGGATAA	0.493													29	64	---	---	---	---	PASS	T	34006908	T	T	34006908	2	4	132	1	0	0	0	0	0	0	0	1	3945	1304	45	2		2	CSMD2	1	34006908	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	28083470	34006908	215243713	3	47283										
TNNI3K	51086	broad.mit.edu	37	chr1	74957880	74957880	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gacctggccggagtcatgtgGcagcattaagaagtcgtttc	13	9	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:74957880G>T	uc001dgf.1	+	23	2332	c.2281G>T	c.(2281-2283)GCA>TCA	p.A761S	TNNI3K_uc001dge.1_Missense_Mutation_p.A862S	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	761						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						GAGTCATGTGGCAGCATTAAG	0.478													59	322	---	---	---	---	PASS	T	74957880	T	T	74957880	3	4	132	1	0	0	0	0	1	0	0	0	16326	1203	42	3	2726	3	TNNI3K	1	74957880	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	40950972	74957880	174292741	4	47284										
C1orf173	127254	broad.mit.edu	37	chr1	75037835	75037835	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tctgtctttgtgctctgtgtCtctggcttcactcagtcttt	8	11	7	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:75037835C>A	uc001dgg.2	-	14	3778	c.3559G>T	c.(3559-3561)GAC>TAC	p.D1187Y		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1187	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TGCTCTGTGTCTCTGGCTTCA	0.527													114	274	---	---	---	---	PASS	A	75037835	A	A	75037835	3	1	132	1	0	0	0	0	1	0	0	0	2014	913	32	2	1037	2	C1orf173	1	75037835	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	79955	75037835	174212786	5	47285										
HFM1	164045	broad.mit.edu	37	chr1	91859730	91859730	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcatcaggaacactcttctcAggtgctatctcagtgccaat	7	12	5	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:91859730A>T	uc001doa.3	-	4	514	c.414T>A	c.(412-414)CCT>CCA	p.P138P	HFM1_uc010osu.1_Intron|HFM1_uc010osv.1_Intron|HFM1_uc001doc.1_Silent_p.P138P	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	138							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		CACTCTTCTCAGGTGCTATCT	0.333													54	137	---	---	---	---	PASS	T	91859730	T	T	91859730	2	4	132	1	0	0	0	0	0	0	0	1	7083	175	7	5		5	HFM1	1	91859730	Silent	SNP	A	TCGA-60-2723-01A-01D-1522-08	16821895	91859730	157390891	6	47286										
LPPR4	9890	broad.mit.edu	37	chr1	99772498	99772498	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttctaatccctgaaagaagcAacagccccgaaaacactaga	6	12	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:99772498A>T	uc001dse.2	+	7	2330	c.2224A>T	c.(2224-2226)AAC>TAC	p.N742Y	LPPR4_uc010oue.1_Missense_Mutation_p.N684Y	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	742							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		TGAAAGAAGCAACAGCCCCGA	0.493													19	170	---	---	---	---	PASS	T	99772498	T	T	99772498	3	4	132	1	0	0	0	0	1	0	0	0	8927	130	5	5	2250	5	LPPR4	1	99772498	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	7912768	99772498	149478123	7	47287										
VCAM1	7412	broad.mit.edu	37	chr1	101203708	101203708	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	acaacaaagactatttttctCctgagcttctcgtgctctat	5	11	3	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:101203708C>G	uc001dti.2	+	9	2209	c.2089C>G	c.(2089-2091)CCT>GCT	p.P697A	VCAM1_uc001dtj.2_Missense_Mutation_p.P605A|VCAM1_uc010ouj.1_Missense_Mutation_p.P635A	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	697	Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	CTATTTTTCTCCTGAGCTTCT	0.333													110	268	---	---	---	---	PASS	G	101203708	G	G	101203708	3	3	132	1	0	0	0	0	1	0	0	0	17134	855	30	2	2123	2	VCAM1	1	101203708	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	1431210	101203708	148046913	8	47288										
COL11A1	1301	broad.mit.edu	37	chr1	103488298	103488298	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agtgcatagtatcaacttacGcttgtttctgtaatatcagt	7	7	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:103488298G>T	uc001dul.2	-	8	1563	c.1245C>A	c.(1243-1245)AGC>AGA	p.S415R	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Missense_Mutation_p.S427R|COL11A1_uc001dun.2_Missense_Mutation_p.S376R|COL11A1_uc009weh.2_Intron	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	415	Nonhelical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		ATCAACTTACGCTTGTTTCTG	0.333													21	169	---	---	---	---	PASS	T	103488298	T	T	103488298	3	4	132	1	0	0	0	0	1	0	0	0	3667	1101	38	1	4415	1	COL11A1	1	103488298	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	2284590	103488298	145762323	9	47289										
OVGP1	5016	broad.mit.edu	37	chr1	111969180	111969180	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtgggtgcagagaaaggggtCcaggtcatggggcaagatcg	19	6	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:111969180C>A	uc001eba.2	-	3	195	c.139G>T	c.(139-141)GAC>TAC	p.D47Y	OVGP1_uc001eaz.2_5'UTR|OVGP1_uc010owb.1_5'UTR|OVGP1_uc010owc.1_Missense_Mutation_p.D37Y	NM_002557	NP_002548	Q12889	OVGP1_HUMAN	oviductal glycoprotein 1 precursor	47					chitin catabolic process|female pregnancy|single fertilization	transport vesicle	cation binding|chitinase activity			ovary(4)|large_intestine(1)	5		all_cancers(81;8.18e-06)|all_epithelial(167;5.64e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000302)		Lung(183;0.0253)|Colorectal(144;0.033)|all cancers(265;0.0552)|Epithelial(280;0.0802)|COAD - Colon adenocarcinoma(174;0.123)|LUSC - Lung squamous cell carcinoma(189;0.14)		AGAAAGGGGTCCAGGTCATGG	0.512													16	101	---	---	---	---	PASS	A	111969180	A	A	111969180	3	1	132	1	0	0	0	0	1	0	0	0	11325	855	30	2	1933	2	OVGP1	1	111969180	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	8480882	111969180	137281441	10	47290										
OVGP1	5016	broad.mit.edu	37	chr1	111969196	111969196	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gggtccaggtcatggggcaaGatcgaggcagggcctggccg	19	10	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:111969196G>C	uc001eba.2	-	3	179	c.123C>G	c.(121-123)ATC>ATG	p.I41M	OVGP1_uc001eaz.2_Translation_Start_Site|OVGP1_uc010owb.1_Translation_Start_Site|OVGP1_uc010owc.1_Missense_Mutation_p.I31M	NM_002557	NP_002548	Q12889	OVGP1_HUMAN	oviductal glycoprotein 1 precursor	41					chitin catabolic process|female pregnancy|single fertilization	transport vesicle	cation binding|chitinase activity			ovary(4)|large_intestine(1)	5		all_cancers(81;8.18e-06)|all_epithelial(167;5.64e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000302)		Lung(183;0.0253)|Colorectal(144;0.033)|all cancers(265;0.0552)|Epithelial(280;0.0802)|COAD - Colon adenocarcinoma(174;0.123)|LUSC - Lung squamous cell carcinoma(189;0.14)		CATGGGGCAAGATCGAGGCAG	0.507													16	87	---	---	---	---	PASS	C	111969196	C	C	111969196	3	2	132	1	0	0	0	0	1	0	0	0	11325	932	33	2	1949	2	OVGP1	1	111969196	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	16	111969196	137281425	11	47291										
LRIG2	9860	broad.mit.edu	37	chr1	113657152	113657152	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agtcctgcccctcgtctcaaCtggactaaagatgatgggcc	10	13	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:113657152C>T	uc001edf.1	+	15	2382	c.2184C>T	c.(2182-2184)AAC>AAT	p.N728N	LRIG2_uc009wgn.1_Silent_p.N625N	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	728	Ig-like C2-type 3.|Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		CTCGTCTCAACTGGACTAAAG	0.502													65	115	---	---	---	---	PASS	T	113657152	T	T	113657152	2	4	132	1	0	0	0	0	0	0	0	1	8945	564	20	3		3	LRIG2	1	113657152	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	1687956	113657152	135593469	12	47292										
SYT6	148281	broad.mit.edu	37	chr1	114640424	114640424	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cgggggtatgccagcatctcGttccagtggtccctgcccag	13	14	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:114640424G>T	uc001eev.2	-	6	1435	c.1185C>A	c.(1183-1185)AAC>AAA	p.N395K	SYT6_uc001eeu.2_Missense_Mutation_p.N40K	NM_205848	NP_995320	Q5T7P8	SYT6_HUMAN	synaptotagmin VI	480	Cytoplasmic (Potential).				acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCAGCATCTCGTTCCAGTGGT	0.572													21	134	---	---	---	---	PASS	T	114640424	T	T	114640424	3	4	132	1	0	0	0	0	1	0	0	0	15475	1136	40	1	100	1	SYT6	1	114640424	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	983272	114640424	134610197	13	47293										
PDE4DIP	9659	broad.mit.edu	37	chr1	145075747	145075747	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tctgccgtggggactgagggGttcgcgtcgcgtccccggac	17	13	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:145075747G>T	uc001emh.2	-	1	333	c.116C>A	c.(115-117)ACC>AAC	p.T39N	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elo.2_Missense_Mutation_p.T39N|PDE4DIP_uc001emk.2_Missense_Mutation_p.T39N	NM_022359	NP_071754	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	713					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GGACTGAGGGGTTCGCGTCGC	0.736			T	PDGFRB	MPD								9	154	---	---	---	---	PASS	T	145075747	T	T	145075747	3	4	132	1	0	0	0	0	1	0	0	0	11643	1261	44	3	8696	3	PDE4DIP	1	145075747	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	30435323	145075747	104174874	14	47294										
SEMA6C	10500	broad.mit.edu	37	chr1	151109545	151109545	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	actcgggctacgcgggagaaCtgcacctaggggaggagagt	17	9	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:151109545C>A	uc001ewu.2	-	11	1062	c.762G>T	c.(760-762)CAG>CAT	p.Q254H	SEMA6C_uc001ewv.2_Missense_Mutation_p.Q254H|SEMA6C_uc001eww.2_Missense_Mutation_p.Q214H|SEMA6C_uc010pcq.1_Missense_Mutation_p.Q254H|SEMA6C_uc009wml.1_RNA	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	254	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CGCGGGAGAACTGCACCTAGG	0.567													44	121	---	---	---	---	PASS	A	151109545	A	A	151109545	3	1	132	1	0	0	0	0	1	0	0	0	14041	564	20	3	2166	3	SEMA6C	1	151109545	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	6033798	151109545	98141076	15	47295										
NES	10763	broad.mit.edu	37	chr1	156642911	156642911	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggtagcaggcaagggtgaggGgagggaagttgggctcagga	22	4	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:156642911G>C	uc001fpq.2	-	4	1202	c.1069C>G	c.(1069-1071)CCC>GCC	p.P357A		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	357	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AAGGGTGAGGGGAGGGAAGTT	0.597													35	115	---	---	---	---	PASS	C	156642911	C	C	156642911	3	2	132	1	0	0	0	0	1	0	0	0	10337	1232	43	4	3800	4	NES	1	156642911	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	5533366	156642911	92607710	16	47296										
FCRL4	83417	broad.mit.edu	37	chr1	157559034	157559034	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	acagggttacttcgtggggaGccccgggcctggcatctgta	15	11	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:157559034G>A	uc001fqw.2	-	3	403	c.267C>T	c.(265-267)GGC>GGT	p.G89G	FCRL4_uc010phy.1_RNA	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	89	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				TTCGTGGGGAGCCCCGGGCCT	0.498													8	203	---	---	---	---	PASS	A	157559034	A	A	157559034	2	1	132	1	0	0	0	0	0	0	0	1	5797	958	34	3		3	FCRL4	1	157559034	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	916123	157559034	91691587	17	47297										
FCRL3	115352	broad.mit.edu	37	chr1	157665949	157665949	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	catgcagctctgccaacaggGaacgctgggtctttctaccc	10	14	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:157665949G>T	uc001frb.2	-	7	1305	c.1013C>A	c.(1012-1014)TCC>TAC	p.S338Y	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.S338Y|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Missense_Mutation_p.S64Y|FCRL3_uc001frc.1_Missense_Mutation_p.S338Y	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	338	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					TGCCAACAGGGAACGCTGGGT	0.527													52	118	---	---	---	---	PASS	T	157665949	T	T	157665949	3	4	132	1	0	0	0	0	1	0	0	0	5796	1174	41	2	1227	2	FCRL3	1	157665949	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	106915	157665949	91584672	18	47298										
FCRL2	79368	broad.mit.edu	37	chr1	157739847	157739847	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggagttgaacatccaacctcTgtggagagagccgggtctca	13	10	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:157739847T>C	uc001fre.2	-	4	463	c.404A>G	c.(403-405)CAG>CGG	p.Q135R	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Missense_Mutation_p.Q135R|FCRL2_uc009wsp.2_Intron|FCRL2_uc010pia.1_Missense_Mutation_p.Q135R	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	135	Extracellular (Potential).|Ig-like C2-type 2.				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			ATCCAACCTCTGTGGAGAGAG	0.567													32	82	---	---	---	---	PASS	C	157739847	C	C	157739847	3	2	132	1	0	0	0	0	1	0	0	0	5795	1580	55	5	1158	5	FCRL2	1	157739847	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	73898	157739847	91510774	19	47299										
ATP1A4	480	broad.mit.edu	37	chr1	160147346	160147346	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gctggattctttacctacttTgtaatcctggctgagaatgg	10	8	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:160147346T>C	uc001fve.3	+	18	3107	c.2628T>C	c.(2626-2628)TTT>TTC	p.F876F	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Silent_p.F379F|ATP1A4_uc001fvh.2_Silent_p.F12F	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	876	Extracellular (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TTACCTACTTTGTAATCCTGG	0.522													38	117	---	---	---	---	PASS	C	160147346	C	C	160147346	2	2	132	1	0	0	0	0	0	0	0	1	1131	1809	63	5		5	ATP1A4	1	160147346	Silent	SNP	T	TCGA-60-2723-01A-01D-1522-08	2407499	160147346	89103275	20	47300										
BAT2L2	23215	broad.mit.edu	37	chr1	171510562	171510562	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gttcgaatagataatagactGctagaaaagccttatgtaag	9	5	0	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:171510562G>C	uc010pmg.1	+	16	4217	c.3951G>C	c.(3949-3951)CTG>CTC	p.L1317L	BAT2L2_uc010pmh.1_Silent_p.L294L	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	1317							protein C-terminus binding				0						ATAATAGACTGCTAGAAAAGC	0.433													27	57	---	---	---	---	PASS	C	171510562	C	C	171510562	2	2	132	1	0	0	0	0	0	0	0	1	1321	1306	46	4		4	BAT2L2	1	171510562	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	11363216	171510562	77740059	21	47301										
TNN	63923	broad.mit.edu	37	chr1	175049351	175049351	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aacacggaggattctctgctGgtgagctgggagccctccag	14	11	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:175049351G>T	uc001gkl.1	+	4	950	c.837G>T	c.(835-837)CTG>CTT	p.L279L	TNN_uc010pmx.1_Silent_p.L279L	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	279	Fibronectin type-III 1.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		ATTCTCTGCTGGTGAGCTGGG	0.617													34	76	---	---	---	---	PASS	T	175049351	T	T	175049351	2	4	132	1	0	0	0	0	0	0	0	1	16320	1335	47	3		3	TNN	1	175049351	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	3538789	175049351	74201270	22	47302										
RALGPS2	55103	broad.mit.edu	37	chr1	178885490	178885490	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tacaaacttgatgacttttgAgtagaagcctgagaaaaaaa	8	5	0	5			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:178885490A>G	uc001glz.2	+	20	2086	c.1748A>G	c.(1747-1749)GAG>GGG	p.E583G	RALGPS2_uc010pnb.1_Missense_Mutation_p.E557G	NM_152663	NP_689876	Q86X27	RGPS2_HUMAN	Ral GEF with PH domain and SH3 binding motif 2	583	Required for stimulation of nucleotide exchange by RALA (By similarity).				small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0						ATGACTTTTGAGTAGAAGCCT	0.363													14	62	---	---	---	---	PASS	G	178885490	G	G	178885490	3	3	132	1	0	0	0	0	1	0	0	0	13018	304	11	5	1822	5	RALGPS2	1	178885490	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	3836139	178885490	70365131	23	47303										
XPR1	9213	broad.mit.edu	37	chr1	180775220	180775220	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tctgaattttacagggtttcGaaaaatcctgaaaaagcatg	8	6	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:180775220G>T	uc001goi.2	+	5	662	c.470G>T	c.(469-471)CGA>CTA	p.R157L	XPR1_uc009wxm.2_Missense_Mutation_p.R157L|XPR1_uc009wxn.2_Missense_Mutation_p.R157L	NM_004736	NP_004727	Q9UBH6	XPR1_HUMAN	xenotropic and polytropic retrovirus receptor	157	SPX.|Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0						ACAGGGTTTCGAAAAATCCTG	0.378													34	89	---	---	---	---	PASS	T	180775220	T	T	180775220	3	4	132	1	0	0	0	0	1	0	0	0	17448	1058	37	2	488	2	XPR1	1	180775220	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	1889730	180775220	68475401	24	47304										
CACNA1E	777	broad.mit.edu	37	chr1	181549812	181549812	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgaatgcaaggactggatcgGccccaatgatgggatcaccc	12	11	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:181549812G>T	uc001gow.2	+	6	1016	c.851G>T	c.(850-852)GGC>GTC	p.G284V	CACNA1E_uc009wxr.2_Missense_Mutation_p.G191V|CACNA1E_uc009wxs.2_Missense_Mutation_p.G191V	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	284	I.|Extracellular (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GACTGGATCGGCCCCAATGAT	0.517													79	191	---	---	---	---	PASS	T	181549812	T	T	181549812	3	4	132	1	0	0	0	0	1	0	0	0	2542	1203	42	3	873	3	CACNA1E	1	181549812	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	774592	181549812	67700809	25	47305										
CACNA1S	779	broad.mit.edu	37	chr1	201036078	201036078	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccagcatgttgaagtaattgCggcagaaggaacccttgtgc	12	9	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:201036078C>T	uc001gvv.2	-	20	2821	c.2594G>A	c.(2593-2595)CGC>CAC	p.R865H		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	865	III.|Cytoplasmic (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GAAGTAATTGCGGCAGAAGGA	0.602													13	48	---	---	---	---	PASS	T	201036078	T	T	201036078	3	4	132	1	0	0	0	0	1	0	0	0	2547	768	27	1	3127	1	CACNA1S	1	201036078	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	19486266	201036078	48214543	26	47306										
USH2A	7399	broad.mit.edu	37	chr1	216073560	216073560	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cagaaggattggaaaataacCtgtatgggaaataaatgtca	10	4	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:216073560C>T	uc001hku.1	-	40	7839	c.7452_splice	c.e40-1	p.E2484_splice		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B						maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GGAAAATAACCTGTATGGGAA	0.348										HNSCC(13;0.011)			44	104	---	---	---	---	PASS	T	216073560	T	T	216073560	5	4	132	1	0	0	0	0	0	0	1	0	17033	695	24	3	8289	3	USH2A	1	216073560	Splice_Site	SNP	C	TCGA-60-2723-01A-01D-1522-08	15037482	216073560	33177061	27	47307										
USH2A	7399	broad.mit.edu	37	chr1	216143994	216143994	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cccagagcacaacctttggcCgtgcatgcttggactctgaa	10	13	1	2	rs146406377	byFrequency	TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:216143994C>T	uc001hku.1	-	36	7317	c.6930G>A	c.(6928-6930)ACG>ACA	p.T2310T		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2310	Fibronectin type-III 9.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AACCTTTGGCCGTGCATGCTT	0.408										HNSCC(13;0.011)			47	136	---	---	---	---	PASS	T	216143994	T	T	216143994	2	4	132	1	0	0	0	0	0	0	0	1	17033	639	23	1		1	USH2A	1	216143994	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	70434	216143994	33106627	28	47308										
OBSCN	84033	broad.mit.edu	37	chr1	228471378	228471378	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccaggagggcctgaccctgcGgctcaccatcagtgccctgg	13	16	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:228471378G>C	uc009xez.1	+	33	8956	c.8912G>C	c.(8911-8913)CGG>CCG	p.R2971P	OBSCN_uc001hsn.2_Missense_Mutation_p.R2971P|OBSCN_uc001hsp.1_Missense_Mutation_p.R670P|OBSCN_uc001hsq.1_Missense_Mutation_p.R227P	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2971	Ig-like 29.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CTGACCCTGCGGCTCACCATC	0.672													25	40	---	---	---	---	PASS	C	228471378	C	C	228471378	3	2	132	1	0	0	0	0	1	0	0	0	10812	1116	39	4	9038	4	OBSCN	1	228471378	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	12327384	228471378	20779243	29	47309										
OBSCN	84033	broad.mit.edu	37	chr1	228480222	228480222	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gcgactgcttggtccttcccAgctctgcctgccaggttcat	10	15	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:228480222A>T	uc009xez.1	+	40	10648	c.10604_splice	c.e40-2	p.A3535_splice	OBSCN_uc001hsn.2_Splice_Site_p.A3535_splice|OBSCN_uc001hsq.1_Splice_Site_p.A791_splice	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and						apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGTCCTTCCCAGCTCTGCCTG	0.572													33	94	---	---	---	---	PASS	T	228480222	T	T	228480222	5	4	132	1	0	0	0	0	0	0	1	0	10812	202	7	5	10756	5	OBSCN	1	228480222	Splice_Site	SNP	A	TCGA-60-2723-01A-01D-1522-08	8844	228480222	20770399	30	47310										
RGS7	6000	broad.mit.edu	37	chr1	241099992	241099992	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggcagccattaatgttcccaAatggagcgcctccactgttt	9	12	0	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:241099992A>G	uc001hyv.2	-	5	571	c.241T>C	c.(241-243)TTG>CTG	p.L81L	RGS7_uc010pyh.1_Silent_p.L55L|RGS7_uc010pyj.1_5'UTR|RGS7_uc001hyu.2_Silent_p.L81L|RGS7_uc009xgn.1_Intron|RGS7_uc001hyw.2_Silent_p.L81L	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	81	DEP.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			AATGTTCCCAAATGGAGCGCC	0.383													30	66	---	---	---	---	PASS	G	241099992	G	G	241099992	2	3	132	1	0	0	0	0	0	0	0	1	13310	11	1	5		5	RGS7	1	241099992	Silent	SNP	A	TCGA-60-2723-01A-01D-1522-08	12619770	241099992	8150629	31	47311										
OR2L8	391190	broad.mit.edu	37	chr1	248112521	248112521	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggcatctatggcctatgatcGttacattgctatttgctttc	8	9	1	1	rs148005952	byFrequency	TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:248112521G>T	uc001idt.1	+	1	362	c.362G>T	c.(361-363)CGT>CTT	p.R121L	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			GCCTATGATCGTTACATTGCT	0.443													122	334	---	---	---	---	PASS	T	248112521	T	T	248112521	3	4	132	1	0	0	0	0	1	0	0	0	11009	1145	40	1	364	1	OR2L8	1	248112521	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	7012529	248112521	1138100	32	47312										
OR2AK2	391191	broad.mit.edu	37	chr1	248129478	248129478	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aaggccacactccttgcgttCcccttcacgggataaggcgg	11	14	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:248129478C>G	uc010pzd.1	+	1	845	c.845C>G	c.(844-846)TCC>TGC	p.S282C	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	282	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TCCTTGCGTTCCCCTTCACGG	0.498													46	108	---	---	---	---	PASS	G	248129478	G	G	248129478	3	3	132	1	0	0	0	0	1	0	0	0	10986	855	30	2	847	2	OR2AK2	1	248129478	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	16957	248129478	1121143	33	47313										
OR2M2	391194	broad.mit.edu	37	chr1	248343459	248343459	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tggacacccagctccacaccCccatgtacttcctcctcagc	5	20	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr1:248343459C>A	uc010pzf.1	+	1	172	c.172C>A	c.(172-174)CCC>ACC	p.P58T		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GCTCCACACCCCCATGTACTT	0.537													203	478	---	---	---	---	PASS	A	248343459	A	A	248343459	3	1	132	1	0	0	0	0	1	0	0	0	11010	623	22	3	174	3	OR2M2	1	248343459	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	213981	248343459	907162	34	47314										
SNTG2	54221	broad.mit.edu	37	chr2	1161234	1161234	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tatttttgtcatattgacagGtgcatctgctgagaaatgct	9	6	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:1161234G>T	uc002qwq.2	+	7	540	c.412G>T	c.(412-414)GTG>TTG	p.V138L	SNTG2_uc010ewi.2_Intron	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	138	PDZ.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		ATATTGACAGGTGCATCTGCT	0.428													22	61	---	---	---	---	PASS	T	1161234	T	T	1161234	3	4	132	1	0	0	0	0	1	0	0	0	14875	1275	44	3	438	3	SNTG2	2	1161234	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08		1161234	242038139	35	47315										
PUM2	23369	broad.mit.edu	37	chr2	20494185	20494185	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gctgcttgctgactggctgtGttatttgccgcagctgcagc	13	11	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:20494185G>T	uc002rds.1	-	8	1127	c.1104C>A	c.(1102-1104)AAC>AAA	p.N368K	PUM2_uc002rdt.1_Missense_Mutation_p.N368K|PUM2_uc002rdr.2_Missense_Mutation_p.N307K|PUM2_uc010yjy.1_Missense_Mutation_p.N368K|PUM2_uc002rdu.1_Missense_Mutation_p.N368K|PUM2_uc010yjz.1_Missense_Mutation_p.N307K	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2	368	Ala-rich.|Gln-rich.				regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GACTGGCTGTGTTATTTGCCG	0.483													23	122	---	---	---	---	PASS	T	20494185	T	T	20494185	3	4	132	1	0	0	0	0	1	0	0	0	12826	1368	48	3	2142	3	PUM2	2	20494185	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	19332951	20494185	222705188	36	47316										
CCDC121	79635	broad.mit.edu	37	chr2	27849963	27849963	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggattaaggactccagatacCactgttcctgctgcagctgc	10	12	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:27849963C>A	uc002rle.2	-	2	885	c.704G>T	c.(703-705)TGG>TTG	p.W235L	ZNF512_uc010yly.1_Intron|CCDC121_uc010eze.2_Missense_Mutation_p.W399L|CCDC121_uc002rld.2_Missense_Mutation_p.W397L|GPN1_uc010ezf.2_5'Flank|GPN1_uc010yma.1_5'Flank|GPN1_uc010ymb.1_5'Flank|GPN1_uc010ymc.1_5'Flank|GPN1_uc010ymd.1_5'Flank|GPN1_uc010yme.1_5'Flank|GPN1_uc010ezg.1_5'Flank	NM_024584	NP_078860	Q6ZUS5	CC121_HUMAN	coiled-coil domain containing 121 isoform 3	235	Potential.										0	Acute lymphoblastic leukemia(172;0.155)					CTCCAGATACCACTGTTCCTG	0.478													4	167	---	---	---	---	PASS	A	27849963	A	A	27849963	3	1	132	1	0	0	0	0	1	0	0	0	2757	595	21	3	136	3	CCDC121	2	27849963	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	7355778	27849963	215349410	37	47317										
BIRC6	57448	broad.mit.edu	37	chr2	32667235	32667235	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cagatcacagaacatgcccaGagccttgtgttggatactct	9	11	2	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:32667235G>C	uc010ezu.2	+	18	4181	c.4047G>C	c.(4045-4047)CAG>CAC	p.Q1349H		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1349					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)					AACATGCCCAGAGCCTTGTGT	0.398													82	82	---	---	---	---	PASS	C	32667235	C	C	32667235	3	2	132	1	0	0	0	0	1	0	0	0	1438	933	33	2	4117	2	BIRC6	2	32667235	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	4817272	32667235	210532138	38	47318										
LRRTM4	80059	broad.mit.edu	37	chr2	77746750	77746750	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	atataagctggttaaggccgGcaaactgattggatttgagc	12	6	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:77746750G>A	uc002snr.2	-	3	660	c.245C>T	c.(244-246)GCC>GTC	p.A82V	LRRTM4_uc002snq.2_Missense_Mutation_p.A82V|LRRTM4_uc002sns.2_Missense_Mutation_p.A82V|LRRTM4_uc002snt.2_Missense_Mutation_p.A83V	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	82	LRR 1.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GTTAAGGCCGGCAAACTGATT	0.403													4	167	---	---	---	---	PASS	A	77746750	A	A	77746750	3	1	132	1	0	0	0	0	1	0	0	0	9042	1203	42	3	1541	3	LRRTM4	2	77746750	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	45079515	77746750	165452623	39	47319										
INPP4A	3631	broad.mit.edu	37	chr2	99185132	99185132	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggaagttttgcctgaggattGtaagtatttcttcagtcatg	11	5	3	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:99185132G>T	uc002syy.2	+	23	2926	c.2533_splice	c.e23+1	p.C845_splice	INPP4A_uc010yvj.1_Splice_Site_p.C806_splice|INPP4A_uc010yvk.1_Splice_Site_p.C806_splice|INPP4A_uc002syx.2_Splice_Site_p.C840_splice|INPP4A_uc010fik.2_Splice_Site_p.C174_splice	NM_001134224	NP_001127696	Q96PE3	INP4A_HUMAN	inositol polyphosphate-4-phosphatase, type 1						signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			kidney(1)	1						CCTGAGGATTGTAAGTATTTC	0.433													3	18	---	---	---	---	PASS	T	99185132	T	T	99185132	5	4	132	1	0	0	0	0	0	0	1	0	7752	1391	48	3	2616	3	INPP4A	2	99185132	Splice_Site	SNP	G	TCGA-60-2723-01A-01D-1522-08	21438382	99185132	144014241	40	47320										
IL18RAP	8807	broad.mit.edu	37	chr2	103068286	103068286	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aagaggaatatttatcttgaGccccaactatgtcaatggac	8	8	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:103068286G>A	uc002tbx.2	+	12	1929	c.1445G>A	c.(1444-1446)AGC>AAC	p.S482N	IL18RAP_uc010fiz.2_Missense_Mutation_p.S340N	NM_003853	NP_003844	O95256	I18RA_HUMAN	interleukin 18 receptor accessory protein	482	TIR.|Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|inflammatory response|innate immune response	integral to membrane	transmembrane receptor activity			skin(3)|ovary(2)	5						TTTATCTTGAGCCCCAACTAT	0.348													62	207	---	---	---	---	PASS	A	103068286	A	A	103068286	3	1	132	1	0	0	0	0	1	0	0	0	7648	971	34	3	1483	3	IL18RAP	2	103068286	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	3883154	103068286	140131087	41	47321										
SULT1C2	6819	broad.mit.edu	37	chr2	108921151	108921151	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttttgaaaccttcatcaatgGaaaaggtacgggaacatcct	8	8	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:108921151G>A	uc002tdy.2	+	5	950	c.497G>A	c.(496-498)GGA>GAA	p.G166E	SULT1C2_uc010ywp.1_Missense_Mutation_p.G81E|SULT1C2_uc002tdx.2_Missense_Mutation_p.G177E|SULT1C2_uc010ywq.1_Missense_Mutation_p.G180E	NM_001056	NP_001047	O00338	ST1C2_HUMAN	sulfotransferase family, cytosolic, 1C, member 1	166					3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine metabolic process|sulfation|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	sulfotransferase activity			ovary(1)	1						TTCATCAATGGAAAAGGTACG	0.478													61	154	---	---	---	---	PASS	A	108921151	A	A	108921151	3	1	132	1	0	0	0	0	1	0	0	0	15374	1174	41	2	610	2	SULT1C2	2	108921151	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	5852865	108921151	134278222	42	47322										
ANAPC1	64682	broad.mit.edu	37	chr2	112550114	112550114	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	caccacgctcagacaagtttCtaggttatgaggacctgtct	9	11	3	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:112550114C>A	uc002thi.2	-	38	4784	c.4537G>T	c.(4537-4539)GAA>TAA	p.E1513*		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	1513					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						AGACAAGTTTCTAGGTTATGA	0.438													42	97	---	---	---	---	PASS	A	112550114	A	A	112550114	4	1	132	1	0	0	0	0	0	1	0	0	598	922	32	2	1341	2	ANAPC1	2	112550114	Nonsense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	3628963	112550114	130649259	43	47323										
MARCO	8685	broad.mit.edu	37	chr2	119727695	119727695	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tggggtggggcccagttctgAatctgcaggcgcggctccgg	18	11	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:119727695A>C	uc002tln.1	+	3	337	c.205A>C	c.(205-207)AAT>CAT	p.N69H	MARCO_uc010yyf.1_5'UTR	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	69	Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						CCCAGTTCTGAATCTGCAGGC	0.552													31	82	---	---	---	---	PASS	C	119727695	C	C	119727695	3	2	132	1	0	0	0	0	1	0	0	0	9311	246	9	5	215	5	MARCO	2	119727695	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	7177581	119727695	123471678	44	47324										
ERCC3	2071	broad.mit.edu	37	chr2	128030447	128030447	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tatgccacacaaaccttggaTatgaagatggtgttaatttt	8	6	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:128030447T>A	uc002toh.1	-	11	1916	c.1821A>T	c.(1819-1821)ATA>ATT	p.I607I	ERCC3_uc002toe.1_Silent_p.I362I|ERCC3_uc002tof.1_Silent_p.I543I|ERCC3_uc002tog.1_Silent_p.I543I	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	607	Helicase C-terminal.				cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		AAACCTTGGATATGAAGATGG	0.488			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				19	105	---	---	---	---	PASS	A	128030447	A	A	128030447	2	1	132	1	0	0	0	0	0	0	0	1	5214	1396	49	5		5	ERCC3	2	128030447	Silent	SNP	T	TCGA-60-2723-01A-01D-1522-08	8302752	128030447	115168926	45	47325										
ARHGEF4	50649	broad.mit.edu	37	chr2	131796570	131796570	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggtggtggggccgggtcgccGatggcgagggctggtttcca	21	9	0	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:131796570G>T	uc002tsa.1	+	6	1232	c.712G>T	c.(712-714)GAT>TAT	p.D238Y	ARHGEF4_uc010fmw.1_Intron|ARHGEF4_uc002tsb.1_Missense_Mutation_p.D238Y|ARHGEF4_uc010fmx.1_Missense_Mutation_p.D238Y|ARHGEF4_uc002tsc.1_5'Flank	NM_015320	NP_056135	Q9NR80	ARHG4_HUMAN	Rho guanine nucleotide exchange factor 4 isoform	238	SH3.				apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|lamellipodium assembly|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|ruffle membrane	protein domain specific binding|Rac guanyl-nucleotide exchange factor activity			breast(3)|ovary(2)|skin(1)	6		Prostate(154;0.055)		BRCA - Breast invasive adenocarcinoma(221;0.097)		CCGGGTCGCCGATGGCGAGGG	0.592													14	39	---	---	---	---	PASS	T	131796570	T	T	131796570	3	4	132	1	0	0	0	0	1	0	0	0	908	1058	37	2	726	2	ARHGEF4	2	131796570	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	3766123	131796570	111402803	46	47326										
YSK4	80122	broad.mit.edu	37	chr2	135744462	135744462	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccaaacatttcatagattccAggtccattagcagttgaatt	6	9	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:135744462A>T	uc002tue.1	-	7	2011	c.1980T>A	c.(1978-1980)CCT>CCA	p.P660P	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Silent_p.P547P|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Silent_p.P388P|YSK4_uc002tui.3_Silent_p.P677P	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	660							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		CATAGATTCCAGGTCCATTAG	0.408													100	286	---	---	---	---	PASS	T	135744462	T	T	135744462	2	4	132	1	0	0	0	0	0	0	0	1	17492	175	7	5		5	YSK4	2	135744462	Silent	SNP	A	TCGA-60-2723-01A-01D-1522-08	3947892	135744462	107454911	47	47327										
LRP1B	53353	broad.mit.edu	37	chr2	141598639	141598639	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cgtgacacccaatccactgcTagccctctgatactctgaat	6	15	2	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:141598639T>C	uc002tvj.1	-	30	5934	c.4962A>G	c.(4960-4962)CTA>CTG	p.L1654L		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1654	Extracellular (Potential).|LDL-receptor class B 14.				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)		AATCCACTGCTAGCCCTCTGA	0.363										TSP Lung(27;0.18)			31	155	---	---	---	---	PASS	C	141598639	C	C	141598639	2	2	132	1	0	0	0	0	0	0	0	1	8955	1509	53	5		5	LRP1B	2	141598639	Silent	SNP	T	TCGA-60-2723-01A-01D-1522-08	5854177	141598639	101600734	48	47328										
GALNT5	11227	broad.mit.edu	37	chr2	158114977	158114977	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	caaggttgtgccgttgtggcAtcctgcacatctgcagaccc	11	13	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:158114977A>T	uc002tzg.2	+	1	638	c.383A>T	c.(382-384)CAT>CTT	p.H128L	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	128	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						CCGTTGTGGCATCCTGCACAT	0.557													18	114	---	---	---	---	PASS	T	158114977	T	T	158114977	3	4	132	1	0	0	0	0	1	0	0	0	6216	217	8	5	385	5	GALNT5	2	158114977	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	16516338	158114977	85084396	49	47329										
SCN2A	6326	broad.mit.edu	37	chr2	166246194	166246194	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aactgaatgagaattcaactCcagagaaaaccgatatgacg	8	8	1	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:166246194C>G	uc002udc.2	+	27	6168	c.5878C>G	c.(5878-5880)CCA>GCA	p.P1960A	SCN2A_uc002udd.2_Missense_Mutation_p.P1960A|SCN2A_uc002ude.2_Missense_Mutation_p.P1960A	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1960					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	GAATTCAACTCCAGAGAAAAC	0.368													32	89	---	---	---	---	PASS	G	166246194	G	G	166246194	3	3	132	1	0	0	0	0	1	0	0	0	13916	855	30	2	6076	2	SCN2A	2	166246194	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	8131217	166246194	76953179	50	47330										
SCN1A	6323	broad.mit.edu	37	chr2	166848433	166848433	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	acactgaagttctccaggatGaccgcgatgtacatgttcac	9	11	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:166848433G>T	uc010zcz.1	-	26	5337	c.5319C>A	c.(5317-5319)GTC>GTA	p.V1773V		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1784	IV.|Helical; Name=S6 of repeat IV; (By similarity).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TCTCCAGGATGACCGCGATGT	0.448													82	181	---	---	---	---	PASS	T	166848433	T	T	166848433	2	4	132	1	0	0	0	0	0	0	0	1	13914	1277	45	2		2	SCN1A	2	166848433	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	602239	166848433	76350940	51	47331										
XIRP2	129446	broad.mit.edu	37	chr2	168101741	168101741	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aaaggggtgctttatttttgAgactttttctttagatgaga	10	3	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:168101741A>T	uc002udx.2	+	8	3857	c.3839A>T	c.(3838-3840)GAG>GTG	p.E1280V	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E1105V|XIRP2_uc010fpq.2_Missense_Mutation_p.E1058V|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1105	Xin 21.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TTTATTTTTGAGACTTTTTCT	0.353													24	153	---	---	---	---	PASS	T	168101741	T	T	168101741	3	4	132	1	0	0	0	0	1	0	0	0	17427	304	11	5	3869	5	XIRP2	2	168101741	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	1253308	168101741	75097632	52	47332										
DLX2	1746	broad.mit.edu	37	chr2	172967060	172967060	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccgcccgccgggtgctgctgGttggtgtagtagctgctgtc	16	12	0	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:172967060G>T	uc002uhn.2	-	1	419	c.207C>A	c.(205-207)AAC>AAA	p.N69K	DLX2_uc010zdx.1_Missense_Mutation_p.N69K	NM_004405	NP_004396	Q07687	DLX2_HUMAN	distal-less homeobox 2	69						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.216)			ggTGCTGCTGGTTGGTGTAGT	0.443													2	2	---	---	---	---	PASS	T	172967060	T	T	172967060	3	4	132	1	0	0	0	0	1	0	0	0	4571	1252	44	3	791	3	DLX2	2	172967060	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	4865319	172967060	70232313	53	47333										
HOXD9	3235	broad.mit.edu	37	chr2	176987592	176987592	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ataggccatgagggcgacgaGgtgttcgcggcgcgcttcgg	18	10	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:176987592G>C	uc010zex.1	+	1	180	c.96G>C	c.(94-96)GAG>GAC	p.E32D		NM_014213	NP_055028	P28356	HXD9_HUMAN	homeobox D9	32						nucleus	sequence-specific DNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		AGGGCGACGAGGTGTTCGCGG	0.682													4	21	---	---	---	---	PASS	C	176987592	C	C	176987592	3	2	132	1	0	0	0	0	1	0	0	0	7326	991	35	4	98	4	HOXD9	2	176987592	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	4020532	176987592	66211781	54	47334										
FRZB	2487	broad.mit.edu	37	chr2	183723523	183723523	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gatatactcaccactgcttgCccctctacagtttccgttac	5	15	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:183723523C>A	uc002upa.1	-	2	735	c.517G>T	c.(517-519)GCA>TCA	p.A173S		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein precursor	173					brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)			CCACTGCTTGCCCCTCTACAG	0.348													49	133	---	---	---	---	PASS	A	183723523	A	A	183723523	3	1	132	1	0	0	0	0	1	0	0	0	6065	739	26	3	480	3	FRZB	2	183723523	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	6735931	183723523	59475850	55	47335										
CCDC150	284992	broad.mit.edu	37	chr2	197583269	197583269	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtaaagaggagctgtcccgaAcagtgaagtgtcgtaatgcg	14	7	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:197583269A>T	uc002utp.1	+	18	2044	c.1909A>T	c.(1909-1911)ACA>TCA	p.T637S	CCDC150_uc010zgs.1_Missense_Mutation_p.T284S|CCDC150_uc010zgt.1_Missense_Mutation_p.T54S|CCDC150_uc002utq.1_5'Flank|CCDC150_uc002utr.1_5'Flank	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150	637	Potential.										0						GCTGTCCCGAACAGTGAAGTG	0.403													14	43	---	---	---	---	PASS	T	197583269	T	T	197583269	3	4	132	1	0	0	0	0	1	0	0	0	2785	43	2	5	1979	5	CCDC150	2	197583269	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	13859746	197583269	45616104	56	47336										
CDK15	65061	broad.mit.edu	37	chr2	202712138	202712138	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tctttattgaaatgttccagGgtcaacctttgtttcctggg	9	8	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:202712138G>T	uc002uyt.2	+	9	935	c.886G>T	c.(886-888)GGT>TGT	p.G296C	CDK15_uc010ftm.2_Missense_Mutation_p.G161C|CDK15_uc002uys.2_Missense_Mutation_p.G245C|CDK15_uc010ftn.1_Missense_Mutation_p.G245C|CDK15_uc010fto.1_Missense_Mutation_p.G275C	NM_139158	NP_631897	Q96Q40	CDK15_HUMAN	PFTAIRE protein kinase 2	296	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|metal ion binding|protein binding			breast(2)|ovary(1)|lung(1)|kidney(1)	5					Adenosine triphosphate(DB00171)	AATGTTCCAGGGTCAACCTTT	0.378													13	134	---	---	---	---	PASS	T	202712138	T	T	202712138	3	4	132	1	0	0	0	0	1	0	0	0	3131	1232	43	3	763	3	CDK15	2	202712138	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	5128869	202712138	40487235	57	47337										
WDR12	55759	broad.mit.edu	37	chr2	203762032	203762032	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	actgtcctaaccttttttcaCccaggccacatcttttacaa	3	14	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:203762032C>A	uc002uzl.2	-	5	1195	c.445G>T	c.(445-447)GTG>TTG	p.V149L	WDR12_uc010ftt.2_Missense_Mutation_p.V149L	NM_018256	NP_060726	Q9GZL7	WDR12_HUMAN	WD repeat domain 12 protein	149	WD 2.|Sufficient for nucleolar localization.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						CCTTTTTTCACCCAGGCCACA	0.438													40	115	---	---	---	---	PASS	A	203762032	A	A	203762032	3	1	132	1	0	0	0	0	1	0	0	0	17271	507	18	3	862	3	WDR12	2	203762032	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	1049894	203762032	39437341	58	47338										
NRP2	8828	broad.mit.edu	37	chr2	206617572	206617572	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cttttagacaaagatttgcaGctcccttcgggattcaattg	8	9	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:206617572G>T	uc002vaw.2	+	12	2708	c.1917G>T	c.(1915-1917)CAG>CAT	p.Q639H	NRP2_uc002vau.2_Missense_Mutation_p.Q639H|NRP2_uc002vav.2_Missense_Mutation_p.Q639H|NRP2_uc002vax.2_Missense_Mutation_p.Q639H|NRP2_uc002vay.2_Missense_Mutation_p.Q639H	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	639	Extracellular (Potential).				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						AAGATTTGCAGCTCCCTTCGG	0.488													23	62	---	---	---	---	PASS	T	206617572	T	T	206617572	3	4	132	1	0	0	0	0	1	0	0	0	10661	962	34	3	1990	3	NRP2	2	206617572	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	2855540	206617572	36581801	59	47339										
SPEG	10290	broad.mit.edu	37	chr2	220355278	220355278	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ctgcaccacgagcggatcatGtccctgcacgaggcctacat	10	15	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:220355278G>C	uc010fwg.2	+	37	9069	c.9069G>C	c.(9067-9069)ATG>ATC	p.M3023I		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	3023	Protein kinase 2.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		AGCGGATCATGTCCCTGCACG	0.632													13	64	---	---	---	---	PASS	C	220355278	C	C	220355278	3	2	132	1	0	0	0	0	1	0	0	0	15035	1377	48	4	9227	4	SPEG	2	220355278	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	13737706	220355278	22844095	60	47340										
DOCK10	55619	broad.mit.edu	37	chr2	225672459	225672459	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	catattgtccaggagcatgcCgtacaggggcatgtataaac	11	9	0	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:225672459C>G	uc010fwz.1	-	33	3867	c.3628G>C	c.(3628-3630)GGC>CGC	p.G1210R	DOCK10_uc002vob.2_Missense_Mutation_p.G1204R|DOCK10_uc002voa.2_5'Flank|DOCK10_uc002voc.2_Missense_Mutation_p.G73R	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1210							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		AGGAGCATGCCGTACAGGGGC	0.403													3	14	---	---	---	---	PASS	G	225672459	G	G	225672459	3	3	132	1	0	0	0	0	1	0	0	0	4685	652	23	4	3028	4	DOCK10	2	225672459	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	5317181	225672459	17526914	61	47341										
COL4A3	1285	broad.mit.edu	37	chr2	228128559	228128559	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cctgaaaggaagtaaaggggAacgaggccgcccaggaaagg	16	8	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr2:228128559A>T	uc002vom.1	+	21	1376	c.1214A>T	c.(1213-1215)GAA>GTA	p.E405V	COL4A3_uc002von.1_Missense_Mutation_p.E405V|COL4A3_uc002voo.1_Missense_Mutation_p.E405V|COL4A3_uc002vop.1_Missense_Mutation_p.E405V|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	405	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)		AGTAAAGGGGAACGAGGCCGC	0.552													5	83	---	---	---	---	PASS	T	228128559	T	T	228128559	3	4	132	1	0	0	0	0	1	0	0	0	3691	246	9	5	1296	5	COL4A3	2	228128559	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	2456100	228128559	15070814	62	47342										
FGD5	152273	broad.mit.edu	37	chr3	14862052	14862052	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	actctgggaaggtggccggcTatgtcccagaaaccgtccct	12	13	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:14862052T>G	uc003bzc.2	+	1	1584	c.1474T>G	c.(1474-1476)TAT>GAT	p.Y492D	FGD5_uc011avk.1_Missense_Mutation_p.Y492D	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	492					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						GGTGGCCGGCTATGTCCCAGA	0.617													28	36	---	---	---	---	PASS	G	14862052	G	G	14862052	3	3	132	1	0	0	0	0	1	0	0	0	5836	1522	53	5	1476	5	FGD5	3	14862052	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08		14862052	183160378	63	47343										
METTL6	131965	broad.mit.edu	37	chr3	15457358	15457358	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	atatcaacataacaacatccAcagactctggcggtacatga	6	11	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:15457358A>G	uc003bzs.1	-	4	710	c.452T>C	c.(451-453)GTG>GCG	p.V151A	METTL6_uc011avp.1_Missense_Mutation_p.V106A|METTL6_uc003bzt.1_Missense_Mutation_p.V151A|METTL6_uc010hen.1_5'Flank	NM_152396	NP_689609	Q8TCB7	METL6_HUMAN	methyltransferase like 6	151							methyltransferase activity				0						AACAACATCCACAGACTCTGG	0.408													55	93	---	---	---	---	PASS	G	15457358	G	G	15457358	3	3	132	1	0	0	0	0	1	0	0	0	9504	159	6	5	414	5	METTL6	3	15457358	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	595306	15457358	182565072	64	47344										
TOP2B	7155	broad.mit.edu	37	chr3	25668689	25668689	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cttaattaccaaggtaatggCagcatcatcttcaggaccag	8	10	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:25668689C>A	uc011awn.1	-	16	2048	c.2005G>T	c.(2005-2007)GCC>TCC	p.A669S	TOP2B_uc003cdj.2_Missense_Mutation_p.A664S	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	669					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						AAGGTAATGGCAGCATCATCT	0.398													4	170	---	---	---	---	PASS	A	25668689	A	A	25668689	3	1	132	1	0	0	0	0	1	0	0	0	16363	710	25	3	2959	3	TOP2B	3	25668689	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	10211331	25668689	172353741	65	47345										
ZNF619	285267	broad.mit.edu	37	chr3	40529231	40529231	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaatgttggaaaactttcagCtgtagctcccgcttcatagt	9	9	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:40529231C>T	uc011azb.1	+	6	1628	c.1350C>T	c.(1348-1350)AGC>AGT	p.S450S	ZNF619_uc010hhz.2_Silent_p.S401S|ZNF619_uc003ckj.2_Silent_p.S394S|ZNF619_uc011azc.1_Silent_p.S410S|ZNF619_uc011azd.1_Silent_p.S366S|ZNF619_uc011aza.1_Silent_p.S352S	NM_001145082	NP_001138554	E9PCD9	E9PCD9_HUMAN	zinc finger protein 619 isoform 1	450					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		AAACTTTCAGCTGTAGCTCCC	0.473													35	82	---	---	---	---	PASS	T	40529231	T	T	40529231	2	4	132	1	0	0	0	0	0	0	0	1	18040	796	28	3		3	ZNF619	3	40529231	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	14860542	40529231	157493199	66	47346										
SETD2	29072	broad.mit.edu	37	chr3	47125224	47125224	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccttacctttaggtctttccAactgtccaggagtttggtgg	10	10	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:47125224A>G	uc003cqs.2	-	12	6099	c.6046T>C	c.(6046-6048)TGG>CGG	p.W2016R	SETD2_uc003cqv.2_Missense_Mutation_p.W2083R|SETD2_uc003cqt.1_RNA	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	2016					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		AGGTCTTTCCAACTGTCCAGG	0.388			N|F|S|Mis		clear cell renal carcinoma								105	170	---	---	---	---	PASS	G	47125224	G	G	47125224	3	3	132	1	0	0	0	0	1	0	0	0	14131	130	5	5	1688	5	SETD2	3	47125224	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	6595993	47125224	150897206	67	47347										
MST1R	4486	broad.mit.edu	37	chr3	49940543	49940543	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agtcatcgggccggttatggTgggctgagaagaggcaggct	18	7	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:49940543T>G	uc003cxy.3	-	1	764	c.500A>C	c.(499-501)CAC>CCC	p.H167P	MST1R_uc011bdd.1_Missense_Mutation_p.H167P|MST1R_uc011bde.1_Missense_Mutation_p.H167P|MST1R_uc011bdf.1_Missense_Mutation_p.H167P|MST1R_uc011bdg.1_Missense_Mutation_p.H167P	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	167	Extracellular (Potential).|Sema.				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)		CCGGTTATGGTGGGCTGAGAA	0.632													29	28	---	---	---	---	PASS	G	49940543	G	G	49940543	3	3	132	1	0	0	0	0	1	0	0	0	9891	1696	59	5	3782	5	MST1R	3	49940543	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	2815319	49940543	148081887	68	47348										
GPR128	84873	broad.mit.edu	37	chr3	100364866	100364866	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aaacttttacagctaaatcgGattttagtcaaaaaattatc	4	6	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:100364866G>A	uc003duc.2	+	9	1292	c.1024G>A	c.(1024-1026)GAT>AAT	p.D342N	GPR128_uc011bhc.1_Missense_Mutation_p.D43N	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	342	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						AGCTAAATCGGATTTTAGTCA	0.333													50	189	---	---	---	---	PASS	A	100364866	A	A	100364866	3	1	132	1	0	0	0	0	1	0	0	0	6641	1174	41	2	1058	2	GPR128	3	100364866	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	50424323	100364866	97657564	69	47349										
DZIP3	9666	broad.mit.edu	37	chr3	108403065	108403065	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttatattttctattttagatGcagcagttcttaggaagacc	7	6	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:108403065G>T	uc003dxd.2	+	27	3308	c.2886G>T	c.(2884-2886)ATG>ATT	p.M962I	DZIP3_uc003dxf.1_Missense_Mutation_p.M962I|DZIP3_uc011bhm.1_Missense_Mutation_p.M413I	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	962					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TATTTTAGATGCAGCAGTTCT	0.378													239	356	---	---	---	---	PASS	T	108403065	T	T	108403065	3	4	132	1	0	0	0	0	1	0	0	0	4865	1319	46	3	2988	3	DZIP3	3	108403065	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	8038199	108403065	89619365	70	47350										
CD96	10225	broad.mit.edu	37	chr3	111297997	111297997	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	acctctctccagtccaaatcTtcgatgatgggcggaagttc	9	12	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:111297997T>C	uc003dxw.2	+	5	885	c.715T>C	c.(715-717)TTC>CTC	p.F239L	CD96_uc003dxv.2_Missense_Mutation_p.F223L|CD96_uc003dxx.2_Missense_Mutation_p.F223L|CD96_uc010hpy.1_Missense_Mutation_p.F223L	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor	239	Extracellular (Potential).				cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						AGTCCAAATCTTCGATGATGG	0.443									Opitz_Trigonocephaly_syndrome				68	271	---	---	---	---	PASS	C	111297997	C	C	111297997	3	2	132	1	0	0	0	0	1	0	0	0	3048	1609	56	5	733	5	CD96	3	111297997	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	2894932	111297997	86724433	71	47351										
TMPRSS7	344805	broad.mit.edu	37	chr3	111795864	111795864	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tatgatattgctttgctacaGctcagtattgcctggcctga	9	9	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:111795864G>T	uc010hqb.2	+	14	1889	c.1719G>T	c.(1717-1719)CAG>CAT	p.Q573H	TMPRSS7_uc011bhr.1_Missense_Mutation_p.Q428H	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	699	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						CTTTGCTACAGCTCAGTATTG	0.478													117	381	---	---	---	---	PASS	T	111795864	T	T	111795864	3	4	132	1	0	0	0	0	1	0	0	0	16249	962	34	3	1769	3	TMPRSS7	3	111795864	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	497867	111795864	86226566	72	47352										
ZNF80	7634	broad.mit.edu	37	chr3	113955205	113955205	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcataaggtttctctccagtGtgactccttgtatgtcgagt	9	9	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:113955205G>A	uc010hqo.2	-	1	1221	c.717C>T	c.(715-717)CAC>CAT	p.H239H	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	239	C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)				TCTCTCCAGTGTGACTCCTTG	0.458													149	168	---	---	---	---	PASS	A	113955205	A	A	113955205	2	1	132	1	0	0	0	0	0	0	0	1	18165	1368	48	3		3	ZNF80	3	113955205	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	2159341	113955205	84067225	73	47353										
HEG1	57493	broad.mit.edu	37	chr3	124692706	124692706	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	atacggggacatttggaaatCtccacttttgaagatgagtt	10	6	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:124692706C>A	uc003ehs.3	-	16	3933	c.3865G>T	c.(3865-3867)GAT>TAT	p.D1289Y	HEG1_uc003ehr.3_Missense_Mutation_p.D143Y|HEG1_uc011bke.1_Missense_Mutation_p.D1389Y	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	1289	Cytoplasmic (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						ATTTGGAAATCTCCACTTTTG	0.373													29	104	---	---	---	---	PASS	A	124692706	A	A	124692706	3	1	132	1	0	0	0	0	1	0	0	0	7044	913	32	2	288	2	HEG1	3	124692706	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	10737501	124692706	73329724	74	47354										
PLXNA1	5361	broad.mit.edu	37	chr3	126732960	126732960	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	caacccacagaacatccaggGtgagtgggcgccccggcggg	15	14	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:126732960G>T	uc003ejg.2	+	10	2345	c.2341_splice	c.e10+1	p.A781_splice		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1						axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		AACATCCAGGGTGAGTGGGCG	0.652													19	186	---	---	---	---	PASS	T	126732960	T	T	126732960	5	4	132	1	0	0	0	0	0	0	1	0	12119	1275	44	3	2449	3	PLXNA1	3	126732960	Splice_Site	SNP	G	TCGA-60-2723-01A-01D-1522-08	2040254	126732960	71289470	75	47355										
DNAJC13	23317	broad.mit.edu	37	chr3	132166270	132166270	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaaaaaagtcagaaactttaAaattttctacagagcacaga	6	6	2	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:132166270A>G	uc003eor.2	+	4	315	c.250A>G	c.(250-252)AAA>GAA	p.K84E	DNAJC13_uc010htq.1_Missense_Mutation_p.K84E	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	84							heat shock protein binding			ovary(1)|breast(1)	2						AGAAACTTTAAAATTTTCTAC	0.353													50	133	---	---	---	---	PASS	G	132166270	G	G	132166270	3	3	132	1	0	0	0	0	1	0	0	0	4632	15	1	5	260	5	DNAJC13	3	132166270	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	5433310	132166270	65856160	76	47356										
TMEM108	66000	broad.mit.edu	37	chr3	133098802	133098802	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aggctgcagctcccatggcaAcaccgacaccccgtgcagag	11	16	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:133098802A>G	uc003eph.2	+	4	521	c.247A>G	c.(247-249)ACA>GCA	p.T83A	TMEM108_uc003epi.2_Missense_Mutation_p.T83A|TMEM108_uc003epj.1_Missense_Mutation_p.T83A|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_Missense_Mutation_p.T34A	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	83	Pro-rich.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						TCCCATGGCAACACCGACACC	0.617													39	227	---	---	---	---	PASS	G	133098802	G	G	133098802	3	3	132	1	0	0	0	0	1	0	0	0	16021	43	2	5	253	5	TMEM108	3	133098802	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	932532	133098802	64923628	77	47357										
A4GNT	51146	broad.mit.edu	37	chr3	137850015	137850015	+	Frame_Shift_Del	DEL	G	-	-													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaaggcaaacagaagaggcaGctggacttcagggtgaactg							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:137850015delG	uc003ers.2	-	2	286	c.84delC	c.(82-84)AGCfs	p.S28fs		NM_016161	NP_057245	Q9UNA3	A4GCT_HUMAN	alpha-1,4-N-acetylglucosaminyltransferase	28	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	acetylglucosaminyltransferase activity|galactosyltransferase activity			central_nervous_system(1)	1						AGAAGAGGCAGCTGGACTTCA	0.557													72	63	---	---	---	---		-	137850015	-	-	137850015	7	5	132	1	0	1	0	1	0	0	0	0	7	962	34	0	946	0	A4GNT	3	137850015	Frame_Shift_Del	DEL	G	TCGA-60-2723-01A-01D-1522-08	4751213	137850015	60172415	78	47358										
PRR23B	389151	broad.mit.edu	37	chr3	138739325	138739325	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agcccgcggccaggaccactAtggaggtgagcgcgtccacg	15	14	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:138739325A>G	uc003esy.1	-	1	444	c.179T>C	c.(178-180)ATA>ACA	p.I60T		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	60										breast(1)	1						CAGGACCACTATGGAGGTGAG	0.726													6	33	---	---	---	---	PASS	G	138739325	G	G	138739325	3	3	132	1	0	0	0	0	1	0	0	0	12595	449	16	5	622	5	PRR23B	3	138739325	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	889310	138739325	59283105	79	47359										
BCHE	590	broad.mit.edu	37	chr3	165547603	165547603	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtagttttcaggtctctgatCatctacccagtctgtgtaat	8	9	5	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:165547603C>A	uc003fem.3	-	2	1379	c.1219G>T	c.(1219-1221)GAT>TAT	p.D407Y	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	407					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	GGTCTCTGATCATCTACCCAG	0.398													53	154	---	---	---	---	PASS	A	165547603	A	A	165547603	3	1	132	1	0	0	0	0	1	0	0	0	1358	826	29	2	601	2	BCHE	3	165547603	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	26808278	165547603	32474827	80	47360										
MCF2L2	23101	broad.mit.edu	37	chr3	183014824	183014824	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aactccttggggctgagcaaCgggtactccttgactgtgcc	12	12	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:183014824C>T	uc003fli.1	-	12	1527	c.1437G>A	c.(1435-1437)CCG>CCA	p.P479P	MCF2L2_uc003flj.1_Silent_p.P479P|MCF2L2_uc011bqr.1_Intron|uc003fln.1_RNA|uc003flo.2_5'Flank	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	479					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			GGCTGAGCAACGGGTACTCCT	0.507													39	148	---	---	---	---	PASS	T	183014824	T	T	183014824	2	4	132	1	0	0	0	0	0	0	0	1	9380	523	19	1		1	MCF2L2	3	183014824	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	17467221	183014824	15007606	81	47361										
TNK2	10188	broad.mit.edu	37	chr3	195595138	195595138	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttggtctggccctggctgggCccggcagggacccccgcgcc	16	17	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr3:195595138C>A	uc003fvu.1	-	12	2529	c.1986G>T	c.(1984-1986)GGG>GGT	p.G662G	TNK2_uc003fvq.1_Silent_p.G69G|TNK2_uc003fvr.1_Silent_p.G187G|TNK2_uc003fvs.1_Silent_p.G694G|TNK2_uc003fvt.1_Silent_p.G740G|TNK2_uc010hzw.1_RNA|TNK2_uc003fvv.1_3'UTR	NM_005781	NP_005772	Q07912	ACK1_HUMAN	tyrosine kinase, non-receptor, 2 isoform 1	662	Pro-rich.			Missing (in Ref. 4; AAH08884).	positive regulation of peptidyl-tyrosine phosphorylation|protein ubiquitination|small GTPase mediated signal transduction	adherens junction|cytoplasmic vesicle membrane|endosome|nucleus	ATP binding|GTPase inhibitor activity|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|central_nervous_system(3)|lung(2)|stomach(1)|skin(1)	10	all_cancers(143;6.48e-09)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;1.46e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.3e-19)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;0.000757)	Adenosine triphosphate(DB00171)	CCTGGCTGGGCCCGGCAGGGA	0.701													8	55	---	---	---	---	PASS	A	195595138	A	A	195595138	2	1	132	1	0	0	0	0	0	0	0	1	16315	726	26	3		3	TNK2	3	195595138	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	12580314	195595138	2427292	82	47362										
RGS12	6002	broad.mit.edu	37	chr4	3427268	3427268	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cgggttgtcttggaggagaaGgatccttccagaggaaaggg	17	6	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr4:3427268G>A	uc003ggw.2	+	14	4216	c.3312G>A	c.(3310-3312)AAG>AAA	p.K1104K	RGS12_uc003ggv.2_Silent_p.K1104K|RGS12_uc003ggy.1_Silent_p.K502K|RGS12_uc003ggz.2_Silent_p.K456K|RGS12_uc010icu.1_Silent_p.K303K|RGS12_uc011bvs.1_Silent_p.K446K|RGS12_uc003gha.2_Silent_p.K446K|RGS12_uc010icv.2_Silent_p.K303K|RGS12_uc003ghb.2_Silent_p.K303K	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	1104	RBD 2.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TGGAGGAGAAGGATCCTTCCA	0.622													85	132	---	---	---	---	PASS	A	3427268	A	A	3427268	2	1	132	1	0	0	0	0	0	0	0	1	13295	991	35	3		3	RGS12	4	3427268	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08		3427268	187727008	83	47363										
TBC1D14	57533	broad.mit.edu	37	chr4	6969094	6969094	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aatgacttgggatggaagttAtttgggaaagcgccactccg	13	7	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr4:6969094A>G	uc011bwg.1	+	3	865	c.786A>G	c.(784-786)TTA>TTG	p.L262L	TBC1D14_uc003gjs.3_Silent_p.L262L	NM_001113361	NP_001106832	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14 isoform a	262						intracellular	Rab GTPase activator activity			ovary(1)|pancreas(1)	2						GATGGAAGTTATTTGGGAAAG	0.413													42	87	---	---	---	---	PASS	G	6969094	G	G	6969094	2	3	132	1	0	0	0	0	0	0	0	1	15600	446	16	5		5	TBC1D14	4	6969094	Silent	SNP	A	TCGA-60-2723-01A-01D-1522-08	3541826	6969094	184185182	84	47364										
CC2D2A	57545	broad.mit.edu	37	chr4	15529081	15529081	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccttggcaggctgtaaaataCgttcacagtagtcagcatgt	10	9	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr4:15529081C>T	uc010idv.2	+	13	1406	c.1161C>T	c.(1159-1161)TAC>TAT	p.Y387Y	CC2D2A_uc003gnx.2_Silent_p.Y338Y|CC2D2A_uc003gnv.2_Silent_p.Y387Y	NM_001080522	NP_001073991	Q9P2K1	C2D2A_HUMAN	coiled-coil and C2 domain containing 2A isoform	387					cell projection organization	cilium|microtubule basal body				pancreas(2)|ovary(1)	3						CTGTAAAATACGTTCACAGTA	0.413													9	19	---	---	---	---	PASS	T	15529081	T	T	15529081	2	4	132	1	0	0	0	0	0	0	0	1	2728	547	19	1		1	CC2D2A	4	15529081	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	8559987	15529081	175625195	85	47365										
PROM1	8842	broad.mit.edu	37	chr4	15987391	15987391	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	taaactacttacagagaactCgatccactgcagataatgtt	6	9	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr4:15987391C>G	uc003goo.2	-	21	2484	c.2272G>C	c.(2272-2274)GAG>CAG	p.E758Q	PROM1_uc003gor.2_Missense_Mutation_p.E758Q|PROM1_uc003gos.2_Missense_Mutation_p.E749Q|PROM1_uc003got.2_Missense_Mutation_p.E758Q|PROM1_uc003gou.2_Missense_Mutation_p.E749Q|PROM1_uc003gop.2_Missense_Mutation_p.E749Q|PROM1_uc003goq.3_Missense_Mutation_p.E749Q	NM_006017	NP_006008	O43490	PROM1_HUMAN	prominin 1 isoform 1	758	Extracellular (Potential).				camera-type eye photoreceptor cell differentiation|photoreceptor cell maintenance|retina layer formation	apical plasma membrane|cell surface|integral to plasma membrane|microvillus membrane|photoreceptor outer segment membrane|plasma membrane	beta-actinin binding|cadherin binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	7						ACAGAGAACTCGATCCACTGC	0.318													4	20	---	---	---	---	PASS	G	15987391	G	G	15987391	3	3	132	1	0	0	0	0	1	0	0	0	12555	893	31	2	349	2	PROM1	4	15987391	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	458310	15987391	175166885	86	47366										
SPATA18	132671	broad.mit.edu	37	chr4	52928470	52928470	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	actctaatttgaactcaaccCggagtcaatgcaaccaggtt	7	11	3	1	rs143076152		TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr4:52928470C>A	uc003gzl.2	+	4	672	c.394C>A	c.(394-396)CGG>AGG	p.R132R	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Silent_p.R132R|SPATA18_uc003gzk.1_Silent_p.R132R	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	132	Potential.				mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			GAACTCAACCCGGAGTCAATG	0.358													4	162	---	---	---	---	PASS	A	52928470	A	A	52928470	2	1	132	1	0	0	0	0	0	0	0	1	15002	643	23	1		1	SPATA18	4	52928470	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	36941079	52928470	138225806	87	47367										
UGT2B10	7365	broad.mit.edu	37	chr4	69683839	69683839	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aatttcctcatccattcttaCcaaatgttgattttgttgga	5	8	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr4:69683839C>A	uc003hee.2	+	2	836	c.811C>A	c.(811-813)CCA>ACA	p.P271T	UGT2B10_uc011cam.1_Missense_Mutation_p.P187T	NM_001075	NP_001066	P36537	UDB10_HUMAN	UDP glucuronosyltransferase 2B10 isoform 1	271					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						TCCATTCTTACCAAATGTTGA	0.393													114	209	---	---	---	---	PASS	A	69683839	A	A	69683839	3	1	132	1	0	0	0	0	1	0	0	0	16953	507	18	3	817	3	UGT2B10	4	69683839	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	16755369	69683839	121470437	88	47368										
AFF1	4299	broad.mit.edu	37	chr4	87968580	87968580	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgcaatgcagcagaagcccaCggcttatgtccggcccatgg	12	13	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr4:87968580C>T	uc003hqj.3	+	3	1279	c.872C>T	c.(871-873)ACG>ATG	p.T291M	AFF1_uc011ccx.1_Missense_Mutation_p.T232M|AFF1_uc003hqh.1_Missense_Mutation_p.T298M|AFF1_uc011ccy.1_Missense_Mutation_p.T298M|AFF1_uc011ccz.1_Missense_Mutation_p.T298M|AFF1_uc003hqk.3_Missense_Mutation_p.T291M|AFF1_uc011cda.1_Intron	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	291						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		CAGAAGCCCACGGCTTATGTC	0.557													82	164	---	---	---	---	PASS	T	87968580	T	T	87968580	3	4	132	1	0	0	0	0	1	0	0	0	356	536	19	1	924	1	AFF1	4	87968580	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	18284741	87968580	103185696	89	47369										
NHEDC2	133308	broad.mit.edu	37	chr4	103966046	103966046	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cccacatattatttctttcaCctggtcacggcttggaaagt	7	11	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr4:103966046C>A	uc003hwx.3	-	8	1868	c.996_splice	c.e8+1	p.Q332_splice	NHEDC2_uc010iln.1_Splice_Site_p.Q184_splice|NHEDC2_uc003hwy.2_Splice_Site_p.Q332_splice|NHEDC2_uc011cew.1_Splice_Site_p.Q275_splice|NHEDC2_uc011cex.1_Splice_Site_p.Q275_splice	NM_178833	NP_849155	Q86UD5	NHDC2_HUMAN	Na+/H+ exchanger domain containing 2						sodium ion transport	integral to membrane|mitochondrial membrane	solute:hydrogen antiporter activity				0				OV - Ovarian serous cystadenocarcinoma(123;2.3e-08)		ATTTCTTTCACCTGGTCACGG	0.403													69	121	---	---	---	---	PASS	A	103966046	A	A	103966046	5	1	132	1	0	0	0	0	0	0	1	0	10401	521	18	3	636	3	NHEDC2	4	103966046	Splice_Site	SNP	C	TCGA-60-2723-01A-01D-1522-08	15997466	103966046	87188230	90	47370										
LARP7	51574	broad.mit.edu	37	chr4	113575316	113575316	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agaaaagaggcactgaaaagGtaattgattcatttttgttt	9	3	1	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr4:113575316G>T	uc003iay.2	+	12	1946	c.1668_splice	c.e12+1	p.K556_splice	LARP7_uc003iaz.2_Splice_Site_p.K563_splice|LARP7_uc003iba.2_Splice_Site_p.K477_splice|LARP7_uc003ibb.2_Splice_Site_p.K556_splice	NM_016648	NP_057732	Q4G0J3	LARP7_HUMAN	La ribonucleoprotein domain family, member 7						RNA processing	nucleoplasm|ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(3)	3		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		CACTGAAAAGGTAATTGATTC	0.338													35	45	---	---	---	---	PASS	T	113575316	T	T	113575316	5	4	132	1	0	0	0	0	0	0	1	0	8633	1275	44	3	1711	3	LARP7	4	113575316	Splice_Site	SNP	G	TCGA-60-2723-01A-01D-1522-08	9609270	113575316	77578960	91	47371										
FGF2	2247	broad.mit.edu	37	chr4	123797543	123797543	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggagtgtgtgctaaccgttaCctggctatgaaggaagatgg	15	6	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr4:123797543C>A	uc003iev.1	+	2	713	c.645C>A	c.(643-645)TAC>TAA	p.Y215*		NM_002006	NP_001997	P09038	FGF2_HUMAN	fibroblast growth factor 2	215					activation of MAPK activity|branching involved in ureteric bud morphogenesis|cell migration involved in sprouting angiogenesis|chemotaxis|chondroblast differentiation|embryonic morphogenesis|fibroblast growth factor receptor signaling pathway|inositol phosphate biosynthetic process|insulin receptor signaling pathway|negative regulation of blood vessel endothelial cell migration|negative regulation of cell death|organ morphogenesis|phosphatidylinositol biosynthetic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of cardiac muscle cell proliferation|positive regulation of cell division|positive regulation of cell fate specification|positive regulation of ERK1 and ERK2 cascade|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phospholipase C activity|Ras protein signal transduction|release of sequestered calcium ion into cytosol|wound healing	extracellular space	fibroblast growth factor receptor binding|growth factor activity|heparin binding|ligand-dependent nuclear receptor transcription coactivator activity			ovary(1)|lung(1)|central_nervous_system(1)	3					Pentosan Polysulfate(DB00686)	CTAACCGTTACCTGGCTATGA	0.383													30	60	---	---	---	---	PASS	A	123797543	A	A	123797543	4	1	132	1	0	0	0	0	0	1	0	0	5848	518	18	3	651	3	FGF2	4	123797543	Nonsense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	10222227	123797543	67356733	92	47372										
HAND2	9464	broad.mit.edu	37	chr4	174448478	174448478	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ctgcggccagcccgtccggcCtttggttttcttgtcgttgc	12	14	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr4:174448478C>A	uc003ith.1	-	2	1542	c.604G>T	c.(604-606)GGC>TGC	p.G202C	HAND2_uc003itg.1_Missense_Mutation_p.R167M	NM_021973	NP_068808	P61296	HAND2_HUMAN	basic helix-loop-helix transcription factor	202					adult heart development|angiogenesis|apoptosis|cardiac neural crest cell development involved in outflow tract morphogenesis|heart looping|in utero embryonic development|negative regulation of cardiac muscle cell apoptosis|noradrenergic neuron differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|regulation of secondary heart field cardioblast proliferation|thymus development	nuclear chromatin|transcription factor complex	activating transcription factor binding|protein homodimerization activity|RNA polymerase II regulatory region sequence-specific DNA binding|transcription coactivator activity			skin(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0837)|all_hematologic(60;0.107)		all cancers(43;1.37e-18)|Epithelial(43;5.5e-17)|OV - Ovarian serous cystadenocarcinoma(60;3.3e-10)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		CCCGTCCGGCCTTTGGTTTTC	0.493													57	101	---	---	---	---	PASS	A	174448478	A	A	174448478	3	1	132	1	0	0	0	0	1	0	0	0	6950	681	24	3	53	3	HAND2	4	174448478	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	50650935	174448478	16705798	93	47373										
CEP72	55722	broad.mit.edu	37	chr5	644526	644526	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agacactgcagccacgttaaAtttgcagatcgctggtaagt	10	9	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr5:644526A>G	uc003jbf.2	+	10	1724	c.1652A>G	c.(1651-1653)AAT>AGT	p.N551S		NM_018140	NP_060610	Q9P209	CEP72_HUMAN	centrosomal protein 72 kDa	551	Potential.				G2/M transition of mitotic cell cycle|gamma-tubulin complex localization|spindle organization	centrosome|cytosol				ovary(1)	1			Epithelial(17;0.000339)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|Lung(60;0.0863)			GCCACGTTAAATTTGCAGATC	0.368													48	364	---	---	---	---	PASS	G	644526	G	G	644526	3	3	132	1	0	0	0	0	1	0	0	0	3260	101	4	5	1690	5	CEP72	5	644526	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08		644526	180270734	94	47374										
PAPD7	11044	broad.mit.edu	37	chr5	6739923	6739923	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	caagccctgcggaagcacaaCgtggctgagccgtgttccat	12	13	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr5:6739923C>A	uc003jdx.1	+	4	345	c.216C>A	c.(214-216)AAC>AAA	p.N72K	PAPD7_uc011cmn.1_Missense_Mutation_p.N63K	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	72					cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						GGAAGCACAACGTGGCTGAGC	0.587													3	118	---	---	---	---	PASS	A	6739923	A	A	6739923	3	1	132	1	0	0	0	0	1	0	0	0	11426	535	19	1	226	1	PAPD7	5	6739923	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	6095397	6739923	174175337	95	47375										
CDH18	1016	broad.mit.edu	37	chr5	19838948	19838948	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tacccatccccttttgggacGatgatggacttcggtttcac	9	12	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr5:19838948G>A	uc003jgc.2	-	2	525	c.148C>T	c.(148-150)CGT>TGT	p.R50C	CDH18_uc003jgd.2_Missense_Mutation_p.R50C|CDH18_uc011cnm.1_Missense_Mutation_p.R50C	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	50					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CTTTTGGGACGATGATGGACT	0.418													15	206	---	---	---	---	PASS	A	19838948	A	A	19838948	3	1	132	1	0	0	0	0	1	0	0	0	3103	1058	37	2	2268	2	CDH18	5	19838948	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	13099025	19838948	161076312	96	47376										
ADAMTS12	81792	broad.mit.edu	37	chr5	33535093	33535093	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agccacctccacaggaagtgGaacactgaaagagaaggtga	12	9	0	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr5:33535093G>T	uc003jia.1	-	23	4614	c.4451C>A	c.(4450-4452)TCC>TAC	p.S1484Y	ADAMTS12_uc010iuq.1_Missense_Mutation_p.S1399Y	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1484	TSP type-1 8.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						ACAGGAAGTGGAACACTGAAA	0.488										HNSCC(64;0.19)			26	146	---	---	---	---	PASS	T	33535093	T	T	33535093	3	4	132	1	0	0	0	0	1	0	0	0	257	1174	41	2	341	2	ADAMTS12	5	33535093	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	13696145	33535093	147380167	97	47377										
PRLR	5618	broad.mit.edu	37	chr5	35070228	35070228	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aagagccaagacgctcaccaCtaggtatctgaatgaaggtc	10	10	2	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr5:35070228C>G	uc003jjm.2	-	7	1213	c.683G>C	c.(682-684)AGT>ACT	p.S228T	PRLR_uc003jjg.1_Missense_Mutation_p.S228T|PRLR_uc003jjh.1_Missense_Mutation_p.S228T|PRLR_uc003jji.1_Missense_Mutation_p.S157T|PRLR_uc003jjj.1_Missense_Mutation_p.S228T|PRLR_uc003jjk.1_Missense_Mutation_p.S157T|PRLR_uc003jjl.3_Missense_Mutation_p.S127T|PRLR_uc010iuw.1_Missense_Mutation_p.S157T	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	228	Extracellular (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	ACGCTCACCACTAGGTATCTG	0.413													30	114	---	---	---	---	PASS	G	35070228	G	G	35070228	3	3	132	1	0	0	0	0	1	0	0	0	12531	565	20	4	1201	4	PRLR	5	35070228	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	1535135	35070228	145845032	98	47378										
FYB	2533	broad.mit.edu	37	chr5	39138759	39138759	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtaaaaaatgtaattcatacAtgtcttcatatgtttctcct	4	7	4	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr5:39138759A>T	uc003jls.2	-	5	1461	c.1394T>A	c.(1393-1395)ATA>AAA	p.I465K	FYB_uc003jlt.2_Missense_Mutation_p.I465K|FYB_uc003jlu.2_Missense_Mutation_p.I465K|FYB_uc011cpl.1_Missense_Mutation_p.I475K	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	465	SH2-binding (Potential).|Potential.				cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			TAATTCATACATGTCTTCATA	0.289													7	52	---	---	---	---	PASS	T	39138759	T	T	39138759	3	4	132	1	0	0	0	0	1	0	0	0	6124	231	8	5	1151	5	FYB	5	39138759	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	4068531	39138759	141776501	99	47379										
C7	730	broad.mit.edu	37	chr5	40981579	40981579	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtggaagtgaacggcaaggaGcagacgatgtctgagtgtga	17	5	1	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr5:40981579G>A	uc003jmh.2	+	18	2550	c.2436G>A	c.(2434-2436)GAG>GAA	p.E812E		NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	812	Complement control factor I module 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				ACGGCAAGGAGCAGACGATGT	0.547													26	38	---	---	---	---	PASS	A	40981579	A	A	40981579	2	1	132	1	0	0	0	0	0	0	0	1	2375	962	34	3		3	C7	5	40981579	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	1842820	40981579	139933681	100	47380										
HEATR7B2	133558	broad.mit.edu	37	chr5	41033217	41033217	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agcatcttggacagcaatgcCaatctcagtgatgcttcttg	9	10	3	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr5:41033217C>A	uc003jmj.3	-	23	2777	c.2287G>T	c.(2287-2289)GGC>TGC	p.G763C	HEATR7B2_uc003jmi.3_Missense_Mutation_p.G318C	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	763							binding			ovary(6)|central_nervous_system(2)	8						ACAGCAATGCCAATCTCAGTG	0.448													29	108	---	---	---	---	PASS	A	41033217	A	A	41033217	3	1	132	1	0	0	0	0	1	0	0	0	7035	594	21	3	2550	3	HEATR7B2	5	41033217	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	51638	41033217	139882043	101	47381										
FOXD1	2297	broad.mit.edu	37	chr5	72743694	72743694	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgttctgccaggcggggaacTtctcccggtagtaggggaag	16	9	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr5:72743694T>C	uc003kcp.2	-	1	659	c.494A>G	c.(493-495)AAG>AGG	p.K165R		NM_004472	NP_004463	Q16676	FOXD1_HUMAN	forkhead box D1	165	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|metanephric capsule specification|negative regulation of transcription, DNA-dependent|neural crest cell migration|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0		Lung NSC(167;0.00327)|Ovarian(174;0.0175)|Prostate(461;0.151)		OV - Ovarian serous cystadenocarcinoma(47;1.07e-54)		GGCGGGGAACTTCTCCCGGTA	0.627													35	35	---	---	---	---	PASS	C	72743694	C	C	72743694	3	2	132	1	0	0	0	0	1	0	0	0	5996	1609	56	5	905	5	FOXD1	5	72743694	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	31710477	72743694	108171566	102	47382										
KLHL3	26249	broad.mit.edu	37	chr5	136963999	136963999	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcattacctgcgttgcgccgGcacatgttcatgtctgccac	9	14	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr5:136963999G>A	uc010jek.2	-	13	2022	c.1578C>T	c.(1576-1578)TGC>TGT	p.C526C	KLHL3_uc011cyc.1_Silent_p.C261C|KLHL3_uc003lbr.3_Silent_p.C444C|KLHL3_uc011cyd.1_RNA	NM_017415	NP_059111	Q9UH77	KLHL3_HUMAN	kelch-like 3	526	Kelch 5.					cytoplasm|cytoskeleton	actin binding|structural molecule activity				0		all_hematologic(541;3.67e-07)|Breast(839;7.61e-05)|Prostate(281;0.000825)|Ovarian(839;0.0481)|all_lung(232;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	GBM - Glioblastoma multiforme(465;0.0223)		CGTTGCGCCGGCACATGTTCA	0.537													4	210	---	---	---	---	PASS	A	136963999	A	A	136963999	2	1	132	1	0	0	0	0	0	0	0	1	8383	1195	42	3		3	KLHL3	5	136963999	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	64220305	136963999	43951261	103	47383										
PCDHGA4	56111	broad.mit.edu	37	chr5	140736757	140736757	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccgtcacactcactgtggctGtggccgacagcatcccagat	10	15	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr5:140736757G>T	uc003ljq.1	+	1	1990	c.1990G>T	c.(1990-1992)GTG>TTG	p.V664L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGB2_uc003ljs.1_5'Flank|PCDHGA4_uc003ljp.1_Missense_Mutation_p.V664L|PCDHGB2_uc011dar.1_5'Flank	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	664	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACTGTGGCTGTGGCCGACAG	0.632													13	22	---	---	---	---	PASS	T	140736757	T	T	140736757	3	4	132	1	0	0	0	0	1	0	0	0	11556	1377	48	3	1992	3	PCDHGA4	5	140736757	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	3772758	140736757	40178503	104	47384										
HK3	3101	broad.mit.edu	37	chr5	176316651	176316651	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tggtccatggctcacctacaActagcccaacctcacacggc	7	17	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr5:176316651A>G	uc003mfa.2	-	7	817	c.725T>C	c.(724-726)GTT>GCT	p.V242A	HK3_uc003mez.2_5'Flank	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	242	Regulatory.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTCACCTACAACTAGCCCAAC	0.592													42	52	---	---	---	---	PASS	G	176316651	G	G	176316651	3	3	132	1	0	0	0	0	1	0	0	0	7192	43	2	5	2098	5	HK3	5	176316651	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	35579894	176316651	4598609	105	47385										
DCDC2	51473	broad.mit.edu	37	chr6	24178600	24178600	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccttgagactttctttccttGtctaggaccagttgaagctc	8	11	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:24178600G>T	uc003ndx.2	-	9	1586	c.1284C>A	c.(1282-1284)GAC>GAA	p.D428E	DCDC2_uc003ndy.2_Missense_Mutation_p.D428E|DCDC2_uc003ndw.2_Missense_Mutation_p.D179E	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	428					cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				TTCTTTCCTTGTCTAGGACCA	0.473													75	372	---	---	---	---	PASS	T	24178600	T	T	24178600	3	4	132	1	0	0	0	0	1	0	0	0	4285	1368	48	3	154	3	DCDC2	6	24178600	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08		24178600	146936467	106	47386										
HIST1H2AM	8336	broad.mit.edu	37	chr6	27860917	27860917	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccttgccgccctgcttgccaCgtccagacatggtaaaacga	9	15	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:27860917C>A	uc003nkb.1	-	1	47	c.11G>T	c.(10-12)CGT>CTT	p.R4L	HIST1H3J_uc003nka.2_5'Flank|HIST1H2BO_uc003nkc.1_5'Flank	NM_003514	NP_003505	P0C0S8	H2A1_HUMAN	histone cluster 1, H2am	4					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding			ovary(2)	2						CTGCTTGCCACGTCCAGACAT	0.572													13	68	---	---	---	---	PASS	A	27860917	A	A	27860917	3	1	132	1	0	0	0	0	1	0	0	0	7139	536	19	1	385	1	HIST1H2AM	6	27860917	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	3682317	27860917	143254150	107	47387										
OR2B3	442184	broad.mit.edu	37	chr6	29054979	29054979	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gccaagccctatctgagaagCcaagtagtataaactctttt	7	10	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:29054979C>A	uc003nlx.2	-	1	112	c.47G>T	c.(46-48)GGC>GTC	p.G16V		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						ATCTGAGAAGCCAAGTAGTAT	0.393													30	77	---	---	---	---	PASS	A	29054979	A	A	29054979	3	1	132	1	0	0	0	0	1	0	0	0	10990	739	26	3	898	3	OR2B3	6	29054979	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	1194062	29054979	142060088	108	47388										
SYNGAP1	8831	broad.mit.edu	37	chr6	33393613	33393613	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cgggaccggaggagcgagtcCagtcgcaacaaactgctgag	15	11	0	1	rs147049139		TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:33393613C>T	uc011dri.1	+	3	423	c.228C>T	c.(226-228)TCC>TCT	p.S76S	SYNGAP1_uc003oeo.1_Silent_p.S61S|SYNGAP1_uc010juy.2_Silent_p.S61S	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	76					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						GGAGCGAGTCCAGTCGCAACA	0.687													3	31	---	---	---	---	PASS	T	33393613	T	T	33393613	2	4	132	1	0	0	0	0	0	0	0	1	15444	581	21	3		3	SYNGAP1	6	33393613	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	4338634	33393613	137721454	109	47389										
ANKS1A	23294	broad.mit.edu	37	chr6	34985290	34985290	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agccggagccaggactctgcGgaggggcaggacgggcaggt	20	10	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:34985290G>T	uc003ojx.3	+	11	1606	c.1464G>T	c.(1462-1464)GCG>GCT	p.A488A	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Silent_p.A28A|ANKS1A_uc010jvp.1_Intron	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	488						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						AGGACTCTGCGGAGGGGCAGG	0.592													3	60	---	---	---	---	PASS	T	34985290	T	T	34985290	2	4	132	1	0	0	0	0	0	0	0	1	688	1103	39	1		1	ANKS1A	6	34985290	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	1591677	34985290	136129777	110	47390										
DNAH8	1769	broad.mit.edu	37	chr6	38796023	38796023	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aagaagaatcagaagcagttGataccttaagatattctttc	7	6	2	5			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:38796023G>T	uc003ooe.1	+	28	4096	c.3496G>T	c.(3496-3498)GAT>TAT	p.D1166Y		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AGAAGCAGTTGATACCTTAAG	0.328													66	83	---	---	---	---	PASS	T	38796023	T	T	38796023	3	4	132	1	0	0	0	0	1	0	0	0	4607	1290	45	2	3598	2	DNAH8	6	38796023	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	3810733	38796023	132319044	111	47391										
TBCC	6903	broad.mit.edu	37	chr6	42712981	42712981	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cagtcctccacgatggccctGctggtcacctgcaggaagat	11	14	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:42712981G>A	uc003osl.2	-	1	904	c.831C>T	c.(829-831)AGC>AGT	p.S277S		NM_003192	NP_003183	Q15814	TBCC_HUMAN	beta-tubulin cofactor C	277	C-CAP/cofactor C-like.				'de novo' posttranslational protein folding|post-chaperonin tubulin folding pathway	cytoplasm|microtubule|photoreceptor connecting cilium	chaperone binding|GTPase activity				0	Colorectal(47;0.196)		all cancers(41;0.00122)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.125)			CGATGGCCCTGCTGGTCACCT	0.577													60	86	---	---	---	---	PASS	A	42712981	A	A	42712981	2	1	132	1	0	0	0	0	0	0	0	1	15628	1310	46	3		3	TBCC	6	42712981	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	3916958	42712981	128402086	112	47392										
IL17F	112744	broad.mit.edu	37	chr6	52109205	52109205	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgctactcaccatggctgggCcatgcagggtcttcactgtc	11	13	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:52109205C>T	uc003pam.1	-	1	94	c.23G>A	c.(22-24)GGC>GAC	p.G8D		NM_052872	NP_443104	Q96PD4	IL17F_HUMAN	interleukin 17F precursor	8					cartilage development|inflammatory response|lymphotoxin A biosynthetic process|negative regulation of angiogenesis|proteoglycan metabolic process|regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|regulation of interleukin-2 biosynthetic process|regulation of interleukin-6 biosynthetic process|regulation of interleukin-8 biosynthetic process|regulation of transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|cytokine binding|protein homodimerization activity			ovary(1)	1	Lung NSC(77;0.116)					CATGGCTGGGCCATGCAGGGT	0.453													56	92	---	---	---	---	PASS	T	52109205	T	T	52109205	3	4	132	1	0	0	0	0	1	0	0	0	7638	739	26	3	480	3	IL17F	6	52109205	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	9396224	52109205	119005862	113	47393										
PRIM2	5558	broad.mit.edu	37	chr6	57512471	57512471	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ataaatttccttcctttacaGgtgggtgattgtggcttttc	9	7	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:57512471G>T	uc003pdx.2	+	15	1387	c.1300_splice	c.e15-1	p.V434_splice		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2						DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		TTCCTTTACAGGTGGGTGATT	0.318													17	150	---	---	---	---	PASS	T	57512471	T	T	57512471	5	4	132	1	0	0	0	0	0	0	1	0	12491	1014	35	3	1349	3	PRIM2	6	57512471	Splice_Site	SNP	G	TCGA-60-2723-01A-01D-1522-08	5403266	57512471	113602596	114	47394										
COL12A1	1303	broad.mit.edu	37	chr6	75818736	75818736	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	taaaaatgtgttactcactgCggctgatttcctttcccctt	6	11	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:75818736C>A	uc003phs.2	-	52	8264	c.8098G>T	c.(8098-8100)GCA>TCA	p.A2700S	COL12A1_uc003pht.2_Missense_Mutation_p.A1536S	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2700	TSP N-terminal.|Nonhelical region (NC3).				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTACTCACTGCGGCTGATTTC	0.313													67	101	---	---	---	---	PASS	A	75818736	A	A	75818736	3	1	132	1	0	0	0	0	1	0	0	0	3669	768	27	1	1153	1	COL12A1	6	75818736	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	18306265	75818736	95296331	115	47395										
PHIP	55023	broad.mit.edu	37	chr6	79707136	79707136	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cacaacttcccttacctggcTacaccagctgatagctcggg	8	15	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:79707136T>A	uc003pir.2	-	19	2422	c.2196A>T	c.(2194-2196)GTA>GTT	p.V732V	PHIP_uc011dyp.1_Silent_p.V732V	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	732					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)		CTTACCTGGCTACACCAGCTG	0.463													40	118	---	---	---	---	PASS	A	79707136	A	A	79707136	2	1	132	1	0	0	0	0	0	0	0	1	11842	1509	53	5		5	PHIP	6	79707136	Silent	SNP	T	TCGA-60-2723-01A-01D-1522-08	3888400	79707136	91407931	116	47396										
FAM26D	221301	broad.mit.edu	37	chr6	116879179	116879179	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	atgatgcatcgcataaagaaGctatttggcttcattcccgg	9	9	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:116879179G>T	uc003pxa.2	+	4	620	c.321G>T	c.(319-321)AAG>AAT	p.K107N	FAM26D_uc003pwz.2_Missense_Mutation_p.K64N|FAM26D_uc010ked.2_Missense_Mutation_p.K106N	NM_153036	NP_694581	Q5JW98	FA26D_HUMAN	hypothetical protein LOC221301	250						integral to membrane					0		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0258)|all cancers(137;0.0458)|OV - Ovarian serous cystadenocarcinoma(136;0.0694)|Epithelial(106;0.222)		GCATAAAGAAGCTATTTGGCT	0.473													47	144	---	---	---	---	PASS	T	116879179	T	T	116879179	3	4	132	1	0	0	0	0	1	0	0	0	5549	962	34	3	194	3	FAM26D	6	116879179	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	37172043	116879179	54235888	117	47397										
HSF2	3298	broad.mit.edu	37	chr6	122720903	122720903	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	atgaagcagagttcgaacgtGccggctttcctcagcaagct	11	11	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:122720903G>T	uc003pyu.2	+	1	208	c.21G>T	c.(19-21)GTG>GTT	p.V7V	HSF2_uc003pyt.3_Silent_p.V7V|HSF2_uc003pyv.2_Silent_p.V7V	NM_004506	NP_004497	Q03933	HSF2_HUMAN	heat shock transcription factor 2 isoform a	7	By similarity.				response to stress|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0				OV - Ovarian serous cystadenocarcinoma(136;0.00371)|all cancers(137;0.0299)|GBM - Glioblastoma multiforme(226;0.0586)		GTTCGAACGTGCCGGCTTTCC	0.607													16	61	---	---	---	---	PASS	T	122720903	T	T	122720903	2	4	132	1	0	0	0	0	0	0	0	1	7396	1306	46	3		3	HSF2	6	122720903	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	5841724	122720903	48394164	118	47398										
CLVS2	134829	broad.mit.edu	37	chr6	123332277	123332277	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tctaaactcacaccaagtatGctgcgattagctattgaagg	8	9	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:123332277G>C	uc003pzi.1	+	3	1406	c.537G>C	c.(535-537)ATG>ATC	p.M179I		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	179	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CACCAAGTATGCTGCGATTAG	0.403													52	120	---	---	---	---	PASS	C	123332277	C	C	123332277	3	2	132	1	0	0	0	0	1	0	0	0	3572	1319	46	4	543	4	CLVS2	6	123332277	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	611374	123332277	47782790	119	47399										
SYNE1	23345	broad.mit.edu	37	chr6	152560737	152560737	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	acagcagaagcctgagccatCagctctgtatggaactgggt	12	10	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:152560737C>G	uc010kiw.2	-	108	20600	c.19998G>C	c.(19996-19998)CTG>CTC	p.L6666L	SYNE1_uc010kiv.2_Silent_p.L1190L|SYNE1_uc003qos.3_Silent_p.L1190L|SYNE1_uc003qot.3_Silent_p.L6595L|SYNE1_uc003qou.3_Silent_p.L6666L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6666	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)		CCTGAGCCATCAGCTCTGTAT	0.463										HNSCC(10;0.0054)			46	133	---	---	---	---	PASS	G	152560737	G	G	152560737	2	3	132	1	0	0	0	0	0	0	0	1	15442	813	29	2		2	SYNE1	6	152560737	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	29228460	152560737	18554330	120	47400										
RPS6KA2	6196	broad.mit.edu	37	chr6	166864710	166864710	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agcgtttgcactcggggggaCgccaggagagtctgtaggtg	18	8	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:166864710C>T	uc003qvb.1	-	13	1306	c.1087G>A	c.(1087-1089)GTC>ATC	p.V363I	RPS6KA2_uc011ego.1_Missense_Mutation_p.V274I|RPS6KA2_uc010kkl.1_Missense_Mutation_p.V274I|RPS6KA2_uc003qvc.1_Missense_Mutation_p.V371I|RPS6KA2_uc003qvd.1_Missense_Mutation_p.V388I	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	363	AGC-kinase C-terminal.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		CTCGGGGGGACGCCAGGAGAG	0.493													6	190	---	---	---	---	PASS	T	166864710	T	T	166864710	3	4	132	1	0	0	0	0	1	0	0	0	13651	536	19	1	1150	1	RPS6KA2	6	166864710	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	14303973	166864710	4250357	121	47401										
THBS2	7058	broad.mit.edu	37	chr6	169648983	169648983	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggcacgccggggtcgggcccGcggaactgcttggcgccaat	17	14	0	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr6:169648983G>T	uc003qwt.2	-	4	386	c.138C>A	c.(136-138)CGC>CGA	p.R46R		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	46	TSP N-terminal.|Heparin-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		GGTCGGGCCCGCGGAACTGCT	0.587													28	37	---	---	---	---	PASS	T	169648983	T	T	169648983	2	4	132	1	0	0	0	0	0	0	0	1	15851	1074	38	1		1	THBS2	6	169648983	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	2784273	169648983	1466084	122	47402										
UNCX	340260	broad.mit.edu	37	chr7	1273220	1273220	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cgcacccgcaccaacttcacCggctggcagctggaggagct	12	16	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:1273220C>A	uc011jvw.1	+	2	339	c.339C>A	c.(337-339)ACC>ACA	p.T113T		NM_001080461	NP_001073930	A6NJT0	UNC4_HUMAN	UNC homeobox	113	Homeobox.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		CCAACTTCACCGGCTGGCAGC	0.687													22	11	---	---	---	---	PASS	A	1273220	A	A	1273220	2	1	132	1	0	0	0	0	0	0	0	1	16995	639	23	1		1	UNCX	7	1273220	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08		1273220	157865443	123	47403										
CHN2	1124	broad.mit.edu	37	chr7	29407588	29407588	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gcacctcgtcccaagagaatCatttgtcctcgggaggtcag	11	12	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:29407588C>G	uc003szz.2	+	3	566	c.129C>G	c.(127-129)ATC>ATG	p.I43M	CHN2_uc011jzs.1_Missense_Mutation_p.I118M|CHN2_uc010kva.2_Intron|CHN2_uc010kvb.2_RNA|CHN2_uc010kvc.2_Intron|CHN2_uc011jzt.1_Missense_Mutation_p.I56M|CHN2_uc010kvd.2_Missense_Mutation_p.I43M|CHN2_uc011jzu.1_Missense_Mutation_p.I28M	NM_004067	NP_004058	P52757	CHIO_HUMAN	beta chimerin isoform 2	43					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|membrane	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)	2						CCAAGAGAATCATTTGTCCTC	0.403													74	72	---	---	---	---	PASS	G	29407588	G	G	29407588	3	3	132	1	0	0	0	0	1	0	0	0	3363	816	29	2	139	2	CHN2	7	29407588	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	28134368	29407588	129731075	124	47404										
ABCA13	154664	broad.mit.edu	37	chr7	48313492	48313492	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tttgtatttgttgtctaactCcagtttttcacaaggtcatc	6	8	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:48313492C>A	uc003toq.2	+	17	4254	c.4229C>A	c.(4228-4230)TCC>TAC	p.S1410Y	ABCA13_uc010kyr.2_Missense_Mutation_p.S913Y	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1410					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TTGTCTAACTCCAGTTTTTCA	0.308													6	54	---	---	---	---	PASS	A	48313492	A	A	48313492	3	1	132	1	0	0	0	0	1	0	0	0	31	855	30	2	4124	2	ABCA13	7	48313492	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	18905904	48313492	110825171	125	47405										
C7orf42	55069	broad.mit.edu	37	chr7	66406997	66406997	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aaatcaaggagattaaatccCcagaaatggcagaggtatag	10	6	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:66406997C>T	uc003tvk.2	+	2	409	c.145C>T	c.(145-147)CCA>TCA	p.P49S	C7orf42_uc010lah.2_RNA|C7orf42_uc003tvl.2_Missense_Mutation_p.P49S	NM_017994	NP_060464	Q9NWD8	CG042_HUMAN	hypothetical protein LOC55069	49						integral to membrane				ovary(1)	1						GATTAAATCCCCAGAAATGGC	0.537													26	159	---	---	---	---	PASS	T	66406997	T	T	66406997	3	4	132	1	0	0	0	0	1	0	0	0	2392	623	22	3	147	3	C7orf42	7	66406997	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	18093505	66406997	92731666	126	47406										
POM121	9883	broad.mit.edu	37	chr7	72413685	72413685	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcggccttcggcgctcccgcCagctcacagcccgcctttgg	11	19	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:72413685C>G	uc003twk.2	+	11	3153	c.3153C>G	c.(3151-3153)GCC>GCG	p.A1051A	POM121_uc003twj.2_Silent_p.A786A|POM121_uc010lam.1_Silent_p.A786A	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	1051	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				GCGCTCCCGCCAGCTCACAGC	0.662													8	71	---	---	---	---	PASS	G	72413685	G	G	72413685	2	3	132	1	0	0	0	0	0	0	0	1	12239	581	21	4		4	POM121	7	72413685	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	6006688	72413685	86724978	127	47407										
MAGI2	9863	broad.mit.edu	37	chr7	78119141	78119141	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcgtggatccagccatgatgTtgtctttgtgttatggctga	12	7	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:78119141T>C	uc003ugx.2	-	6	1236	c.982A>G	c.(982-984)ACA>GCA	p.T328A	MAGI2_uc003ugy.2_Missense_Mutation_p.T328A|MAGI2_uc010ldx.1_5'UTR|MAGI2_uc010ldy.1_5'UTR|MAGI2_uc011kgr.1_Missense_Mutation_p.T160A|MAGI2_uc011kgs.1_Missense_Mutation_p.T165A	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	328	WW 1.|Interaction with DDN.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				AGCCATGATGTTGTCTTTGTG	0.368													114	233	---	---	---	---	PASS	C	78119141	C	C	78119141	3	2	132	1	0	0	0	0	1	0	0	0	9191	1725	60	5	3453	5	MAGI2	7	78119141	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	5705456	78119141	81019522	128	47408										
HGF	3082	broad.mit.edu	37	chr7	81381445	81381445	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggtttatttaccttctgaacActgaggaatgtcacagactt	8	8	2	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:81381445A>G	uc003uhl.2	-	5	781	c.616T>C	c.(616-618)TGT>CGT	p.C206R	HGF_uc003uhm.2_Missense_Mutation_p.C201R|HGF_uc003uhn.1_Missense_Mutation_p.C206R|HGF_uc003uho.1_Missense_Mutation_p.C201R|HGF_uc003uhp.2_Missense_Mutation_p.C206R	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	206	Kringle 1.				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						CCTTCTGAACACTGAGGAATG	0.453													26	77	---	---	---	---	PASS	G	81381445	G	G	81381445	3	3	132	1	0	0	0	0	1	0	0	0	7085	159	6	5	1646	5	HGF	7	81381445	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	3262304	81381445	77757218	129	47409										
SAMD9	54809	broad.mit.edu	37	chr7	92731286	92731286	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gactggattttgacagtgcaTtgttctaagagaaaagtata	10	4	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:92731286T>A	uc003umf.2	-	3	4381	c.4125A>T	c.(4123-4125)CAA>CAT	p.Q1375H	SAMD9_uc003umg.2_Missense_Mutation_p.Q1375H	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1375						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			TGACAGTGCATTGTTCTAAGA	0.358													60	226	---	---	---	---	PASS	A	92731286	A	A	92731286	3	1	132	1	0	0	0	0	1	0	0	0	13826	1490	52	5	648	5	SAMD9	7	92731286	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	11349841	92731286	66407377	130	47410										
COL1A2	1278	broad.mit.edu	37	chr7	94047117	94047117	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	caggagagaggggtgctgctGgcatacctggaggcaaggga	19	7	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:94047117G>A	uc003ung.1	+	32	2416	c.1945G>A	c.(1945-1947)GGC>AGC	p.G649S	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_RNA	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	649					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GGGTGCTGCTGGCATACCTGG	0.517										HNSCC(75;0.22)			9	12	---	---	---	---	PASS	A	94047117	A	A	94047117	3	1	132	1	0	0	0	0	1	0	0	0	3678	1348	47	3	2071	3	COL1A2	7	94047117	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	1315831	94047117	65091546	131	47411										
ACTL6B	51412	broad.mit.edu	37	chr7	100246273	100246273	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgaagtcccctgccagagggGacttgacgatgcctagaagg	14	10	0	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:100246273G>A	uc003uvy.2	-	7	682	c.575C>T	c.(574-576)TCC>TTC	p.S192F	ACTL6B_uc003uvx.1_5'UTR|ACTL6B_uc003uvz.2_RNA	NM_016188	NP_057272	O94805	ACL6B_HUMAN	actin-like 6B	192					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex|SWI/SNF complex	ATP binding|protein binding|structural constituent of cytoskeleton			ovary(1)	1	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					TGCCAGAGGGGACTTGACGAT	0.612													7	41	---	---	---	---	PASS	A	100246273	A	A	100246273	3	1	132	1	0	0	0	0	1	0	0	0	199	1174	41	2	737	2	ACTL6B	7	100246273	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	6199156	100246273	58892390	132	47412										
MUC17	140453	broad.mit.edu	37	chr7	100675095	100675095	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cacacttttccccagttctaCtgaagacacttcatctccta	3	15	3	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:100675095C>G	uc003uxp.1	+	3	451	c.398C>G	c.(397-399)ACT>AGT	p.T133S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	133	Extracellular (Potential).|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CCCAGTTCTACTGAAGACACT	0.473													67	158	---	---	---	---	PASS	G	100675095	G	G	100675095	3	3	132	1	0	0	0	0	1	0	0	0	9974	565	20	4	408	4	MUC17	7	100675095	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	428822	100675095	58463568	133	47413										
MUC17	140453	broad.mit.edu	37	chr7	100682506	100682506	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	actcctgttgacaccagcatAcctgtcaccacttctactga	5	15	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:100682506A>G	uc003uxp.1	+	3	7862	c.7809A>G	c.(7807-7809)ATA>ATG	p.I2603M	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2603	Extracellular (Potential).|59 X approximate tandem repeats.|42.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ACACCAGCATACCTGTCACCA	0.453													81	431	---	---	---	---	PASS	G	100682506	G	G	100682506	3	3	132	1	0	0	0	0	1	0	0	0	9974	381	14	5	7819	5	MUC17	7	100682506	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	7411	100682506	58456157	134	47414										
NRCAM	4897	broad.mit.edu	37	chr7	107790506	107790506	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccccttctccatagtcaactAggctgtcgtcactatcttct	5	15	5	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:107790506A>G	uc003vfb.2	-	33	4235	c.3764T>C	c.(3763-3765)CTA>CCA	p.L1255P	NRCAM_uc003vfc.2_Missense_Mutation_p.L1134P|NRCAM_uc011kmk.1_Missense_Mutation_p.L1157P|NRCAM_uc003vfd.2_Missense_Mutation_p.L1138P|NRCAM_uc003vfe.2_Missense_Mutation_p.L1126P|NRCAM_uc003vez.2_Missense_Mutation_p.L38P|NRCAM_uc003vfa.2_Missense_Mutation_p.L99P|NRCAM_uc011kmj.1_Missense_Mutation_p.L101P	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	1255	Cytoplasmic (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						ATAGTCAACTAGGCTGTCGTC	0.443													112	267	---	---	---	---	PASS	G	107790506	G	G	107790506	3	3	132	1	0	0	0	0	1	0	0	0	10644	420	15	5	154	5	NRCAM	7	107790506	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	7108000	107790506	51348157	135	47415										
CADPS2	93664	broad.mit.edu	37	chr7	122033627	122033627	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtttgtgaaattttccattaCacaaaagtgctgaaatagcc	7	7	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:122033627C>A	uc010lkp.2	-	20	2919	c.2756G>T	c.(2755-2757)TGT>TTT	p.C919F	CADPS2_uc011knx.1_Missense_Mutation_p.C294F|CADPS2_uc003vkg.3_Missense_Mutation_p.C613F|CADPS2_uc010lkq.2_Missense_Mutation_p.C913F	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	919	Interaction with DRD2.|MHD1.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						TTTTCCATTACACAAAAGTGC	0.403													20	77	---	---	---	---	PASS	A	122033627	A	A	122033627	3	1	132	1	0	0	0	0	1	0	0	0	2571	478	17	3	1193	3	CADPS2	7	122033627	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	14243121	122033627	37105036	136	47416										
RNF148	378925	broad.mit.edu	37	chr7	122341945	122341945	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcctatgggctaaaagccagGggtcaatgcatgccttatgg	12	9	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:122341945G>C	uc003vkk.1	-	1	1077	c.860C>G	c.(859-861)CCC>CGC	p.P287R	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron|RNF133_uc003vkj.1_5'Flank|RNF148_uc010lkr.1_3'UTR	NM_198085	NP_932351	Q8N7C7	RN148_HUMAN	ring finger protein 148 precursor	287	RING-type; atypical.					integral to membrane	zinc ion binding				0						TAAAAGCCAGGGGTCAATGCA	0.393													62	112	---	---	---	---	PASS	C	122341945	C	C	122341945	3	2	132	1	0	0	0	0	1	0	0	0	13449	1232	43	4	61	4	RNF148	7	122341945	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	308318	122341945	36796718	137	47417										
ZC3HAV1L	92092	broad.mit.edu	37	chr7	138711516	138711516	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaggaccagcttctgcagctCcagctgcgtgcactccttgc	11	15	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:138711516C>A	uc003vum.1	-	4	836	c.824G>T	c.(823-825)GGA>GTA	p.G275V		NM_080660	NP_542391	Q96H79	ZCCHL_HUMAN	zinc finger CCCH-type, antiviral 1-like	275											0						TTCTGCAGCTCCAGCTGCGTG	0.507													33	121	---	---	---	---	PASS	A	138711516	A	A	138711516	3	1	132	1	0	0	0	0	1	0	0	0	17573	855	30	2	86	2	ZC3HAV1L	7	138711516	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	16369571	138711516	20427147	138	47418										
TTC26	79989	broad.mit.edu	37	chr7	138822649	138822649	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aatttgtggattggatattgTgcctttcacctgggtgacta	11	6	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:138822649T>C	uc003vus.2	+	3	312	c.198T>C	c.(196-198)TGT>TGC	p.C66C	TTC26_uc003vuq.2_Silent_p.C66C|TTC26_uc011kqm.1_Silent_p.C66C|TTC26_uc003vur.3_Silent_p.C66C|TTC26_uc011kqn.1_Silent_p.C66C|TTC26_uc011kqo.1_Intron|TTC26_uc011kqp.1_5'UTR|TTC26_uc003vut.2_5'UTR|TTC26_uc011kqq.1_Silent_p.C66C	NM_024926	NP_079202	A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26 isoform 1	66	TPR 1.						binding			ovary(1)	1						TTGGATATTGTGCCTTTCACC	0.299													39	150	---	---	---	---	PASS	C	138822649	C	C	138822649	2	2	132	1	0	0	0	0	0	0	0	1	16691	1702	59	5		5	TTC26	7	138822649	Silent	SNP	T	TCGA-60-2723-01A-01D-1522-08	111133	138822649	20316014	139	47419										
TRPV5	56302	broad.mit.edu	37	chr7	142606744	142606744	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aggcagcttccgctccagcaTcactgtggtggccacgacct	11	15	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:142606744T>A	uc003wby.1	-	14	2071	c.1807A>T	c.(1807-1809)ATG>TTG	p.M603L		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	603	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					CGCTCCAGCATCACTGTGGTG	0.597													12	40	---	---	---	---	PASS	A	142606744	A	A	142606744	3	1	132	1	0	0	0	0	1	0	0	0	16596	1435	50	5	390	5	TRPV5	7	142606744	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	3784095	142606744	16531919	140	47420										
CNTNAP2	26047	broad.mit.edu	37	chr7	147675073	147675073	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cgtaggtcctctgcgctgccAaggagacagtaagtttgcat	12	10	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:147675073A>G	uc003weu.1	+	15	2891	c.2375A>G	c.(2374-2376)CAA>CGA	p.Q792R		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	792	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CTGCGCTGCCAAGGAGACAGT	0.473										HNSCC(39;0.1)			43	81	---	---	---	---	PASS	G	147675073	G	G	147675073	3	3	132	1	0	0	0	0	1	0	0	0	3647	130	5	5	2433	5	CNTNAP2	7	147675073	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	5068329	147675073	11463590	141	47421										
CUL1	8454	broad.mit.edu	37	chr7	148485762	148485762	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttgacaaactcagaacccctAgactgtgagtatccgtgtgt	9	10	1	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:148485762A>G	uc010lpg.2	+	14	2119	c.1593A>G	c.(1591-1593)CTA>CTG	p.L531L	CUL1_uc003wey.2_Silent_p.L531L|CUL1_uc003wez.2_Silent_p.L421L|CUL1_uc003wfa.2_Silent_p.L192L	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	531					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			CAGAACCCCTAGACTGTGAGT	0.428													26	163	---	---	---	---	PASS	G	148485762	G	G	148485762	2	3	132	1	0	0	0	0	0	0	0	1	4054	407	15	5		5	CUL1	7	148485762	Silent	SNP	A	TCGA-60-2723-01A-01D-1522-08	810689	148485762	10652901	142	47422										
ZNF398	57541	broad.mit.edu	37	chr7	148876570	148876570	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	accggcggctgcacacaggcGagcggcccttcagttgtcct	13	15	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:148876570G>C	uc003wfl.2	+	6	1881	c.1606G>C	c.(1606-1608)GAG>CAG	p.E536Q	ZNF398_uc011kul.1_Missense_Mutation_p.E365Q|ZNF398_uc011kum.1_Missense_Mutation_p.E541Q	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	536					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			GCACACAGGCGAGCGGCCCTT	0.612													18	40	---	---	---	---	PASS	C	148876570	C	C	148876570	3	2	132	1	0	0	0	0	1	0	0	0	17882	1059	37	2	1628	2	ZNF398	7	148876570	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	390808	148876570	10262093	143	47423										
GIMAP8	155038	broad.mit.edu	37	chr7	150164377	150164377	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tctttggtgaatacgaacggAggaccctatcatgtgaactt	10	8	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:150164377A>T	uc003whj.2	+	2	921	c.591A>T	c.(589-591)GGA>GGT	p.G197G		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	197						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		ATACGAACGGAGGACCCTATC	0.418													57	127	---	---	---	---	PASS	T	150164377	T	T	150164377	2	4	132	1	0	0	0	0	0	0	0	1	6385	291	11	5		5	GIMAP8	7	150164377	Silent	SNP	A	TCGA-60-2723-01A-01D-1522-08	1287807	150164377	8974286	144	47424										
GIMAP2	26157	broad.mit.edu	37	chr7	150389846	150389846	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcaatggtggctccctgatgGattacatgcacgactcagat	10	10	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:150389846G>C	uc003who.2	+	3	560	c.472G>C	c.(472-474)GAT>CAT	p.D158H	GIMAP1_uc003whp.2_Intron	NM_015660	NP_056475	Q9UG22	GIMA2_HUMAN	GTPase, IMAP family member 2	158						integral to membrane	GTP binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTCCCTGATGGATTACATGCA	0.512													26	66	---	---	---	---	PASS	C	150389846	C	C	150389846	3	2	132	1	0	0	0	0	1	0	0	0	6380	1174	41	2	478	2	GIMAP2	7	150389846	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	225469	150389846	8748817	145	47425										
ABP1	26	broad.mit.edu	37	chr7	150556022	150556022	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	taagtacctgctctttaccaGcccccaggagaacccctggg	9	15	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:150556022G>T	uc003why.1	+	4	5960	c.1742G>T	c.(1741-1743)AGC>ATC	p.S581I	ABP1_uc003whz.1_Missense_Mutation_p.S581I|ABP1_uc003wia.1_Missense_Mutation_p.S581I	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	581					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	CTCTTTACCAGCCCCCAGGAG	0.657													6	13	---	---	---	---	PASS	T	150556022	T	T	150556022	3	4	132	1	0	0	0	0	1	0	0	0	98	971	34	3	1748	3	ABP1	7	150556022	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	166176	150556022	8582641	146	47426										
DPP6	1804	broad.mit.edu	37	chr7	154263965	154263965	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agatatgaaatatctccagaTagagagtatgcacttttttc	7	6	1	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:154263965T>C	uc003wlk.2	+	5	720	c.591T>C	c.(589-591)GAT>GAC	p.D197D	DPP6_uc003wli.2_Silent_p.D133D|DPP6_uc003wlj.2_Silent_p.D197D|DPP6_uc003wlm.2_Silent_p.D135D|DPP6_uc011kvq.1_Silent_p.D135D	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	197	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			TATCTCCAGATAGAGAGTATG	0.284													17	61	---	---	---	---	PASS	C	154263965	C	C	154263965	2	2	132	1	0	0	0	0	0	0	0	1	4730	1403	49	5		5	DPP6	7	154263965	Silent	SNP	T	TCGA-60-2723-01A-01D-1522-08	3707943	154263965	4874698	147	47427										
NCAPG2	54892	broad.mit.edu	37	chr7	158449109	158449109	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	catggatctgcaccctacctTtagaagctgtgttgctctga	9	11	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr7:158449109T>A	uc003wnv.1	-	19	2376	c.2231A>T	c.(2230-2232)AAA>ATA	p.K744I	NCAPG2_uc010lqu.1_Missense_Mutation_p.K536I|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.K744I|NCAPG2_uc011kwe.1_Missense_Mutation_p.K744I|NCAPG2_uc011kwc.1_Missense_Mutation_p.K245I|NCAPG2_uc011kwd.1_Missense_Mutation_p.K187I	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	744					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		CACCCTACCTTTAGAAGCTGT	0.433													30	157	---	---	---	---	PASS	A	158449109	A	A	158449109	3	1	132	1	0	0	0	0	1	0	0	0	10208	1841	64	5	1240	5	NCAPG2	7	158449109	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	4185144	158449109	689554	148	47428										
CSMD1	64478	broad.mit.edu	37	chr8	3008986	3008986	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gggtaagaacctgggaagccGgggctcaggatcacaccacc	14	12	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:3008986G>T	uc011kwk.1	-	40	6357	c.5967C>A	c.(5965-5967)CCC>CCA	p.P1989P	CSMD1_uc011kwj.1_Silent_p.P1381P|CSMD1_uc003wqe.2_Silent_p.P1145P|CSMD1_uc010lrg.2_Silent_p.P57P	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1989	Extracellular (Potential).|CUB 12.					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)		CTGGGAAGCCGGGGCTCAGGA	0.512													5	20	---	---	---	---	PASS	T	3008986	T	T	3008986	2	4	132	1	0	0	0	0	0	0	0	1	3944	1103	39	1		1	CSMD1	8	3008986	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08		3008986	143355036	149	47429										
EBF2	64641	broad.mit.edu	37	chr8	25744281	25744281	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tctcacctacctgtgtaaatGaaccttcctggggctccttt	7	13	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:25744281G>A	uc003xes.1	-	10	1016	c.999C>T	c.(997-999)TTC>TTT	p.F333F	PPP2R2A_uc003xek.2_Intron|EBF2_uc010lug.1_RNA	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	333	IPT/TIG.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		CTGTGTAAATGAACCTTCCTG	0.478													47	64	---	---	---	---	PASS	A	25744281	A	A	25744281	2	1	132	1	0	0	0	0	0	0	0	1	4881	1281	45	2		2	EBF2	8	25744281	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	22735295	25744281	120619741	150	47430										
STAR	6770	broad.mit.edu	37	chr8	38008285	38008285	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gcgctcacccttcatgttgcGcatgtgtctgtaggagctcc	11	13	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:38008285G>A	uc003xkv.1	-	1	316	c.52C>T	c.(52-54)CGC>TGC	p.R18C	STAR_uc010lwc.1_Missense_Mutation_p.R18C	NM_001007243	NP_001007244	P49675	STAR_HUMAN	steroidogenic acute regulatory protein isoform	18					C21-steroid hormone biosynthetic process	mitochondrial intermembrane space	cholesterol transporter activity			ovary(1)	1	Colorectal(12;0.000442)	all_lung(54;0.0151)|Lung NSC(58;0.0295)		READ - Rectum adenocarcinoma(644;0.188)		TTCATGTTGCGCATGTGTCTG	0.418													4	127	---	---	---	---	PASS	A	38008285	A	A	38008285	3	1	132	1	0	0	0	0	1	0	0	0	15253	1087	38	1	833	1	STAR	8	38008285	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	12264004	38008285	108355737	151	47431										
PRKDC	5591	broad.mit.edu	37	chr8	48719888	48719888	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttttgctgagaaagaaacatCtacacaaagaaaaatgagac	7	6	1	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:48719888C>T	uc003xqi.2	-	70	9615	c.9558_splice	c.e70-1	p.R3186_splice	PRKDC_uc003xqj.2_Splice_Site_p.R3186_splice|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic						cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AAAGAAACATCTACACAAAGA	0.383								NHEJ					63	122	---	---	---	---	PASS	T	48719888	T	T	48719888	5	4	132	1	0	0	0	0	0	0	1	0	12521	927	32	2	2901	2	PRKDC	8	48719888	Splice_Site	SNP	C	TCGA-60-2723-01A-01D-1522-08	10711603	48719888	97644134	152	47432										
SDR16C5	195814	broad.mit.edu	37	chr8	57219251	57219251	+	Frame_Shift_Del	DEL	C	-	-													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttaccctgtagtacaaccttCaaacattccagtttttataa							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:57219251delC	uc003xsy.1	-	5	1332	c.694delG	c.(694-696)GAAfs	p.E232fs	SDR16C5_uc010lyk.1_Frame_Shift_Del_p.E232fs|SDR16C5_uc010lyl.1_Frame_Shift_Del_p.E188fs	NM_138969	NP_620419	Q8N3Y7	RDHE2_HUMAN	epidermal retinal dehydrogenase 2	232					detection of light stimulus involved in visual perception|keratinocyte proliferation|retinal metabolic process|retinol metabolic process	endoplasmic reticulum membrane|integral to membrane|integral to membrane of membrane fraction	binding|retinol dehydrogenase activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GTACAACCTTCAAACATTCCA	0.303													113	49	---	---	---	---		-	57219251	-	-	57219251	7	5	132	1	0	1	0	1	0	0	0	0	13971	835	29	0	247	0	SDR16C5	8	57219251	Frame_Shift_Del	DEL	C	TCGA-60-2723-01A-01D-1522-08	8499363	57219251	89144771	153	47433										
ZFHX4	79776	broad.mit.edu	37	chr8	77620259	77620259	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cataccaccaatcacaggcaCgaggcggccctgaagctcta	9	15	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:77620259C>T	uc003yav.2	+	3	3378	c.2991C>T	c.(2989-2991)CAC>CAT	p.H997H	ZFHX4_uc003yat.1_Silent_p.H997H|ZFHX4_uc003yau.1_Silent_p.H1023H|ZFHX4_uc003yaw.1_Silent_p.H997H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	997						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATCACAGGCACGAGGCGGCCC	0.468										HNSCC(33;0.089)			20	120	---	---	---	---	PASS	T	77620259	T	T	77620259	2	4	132	1	0	0	0	0	0	0	0	1	17632	535	19	1		1	ZFHX4	8	77620259	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	20401008	77620259	68743763	154	47434										
FABP5	2171	broad.mit.edu	37	chr8	82196169	82196169	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggagtgggatgggaaggaaaGcacaataacaagaaaattga	14	3	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:82196169G>T	uc003yca.1	+	3	362	c.314G>T	c.(313-315)AGC>ATC	p.S105I		NM_001444	NP_001435	Q01469	FABP5_HUMAN	fatty acid binding protein 5	105					epidermis development	cytoplasm	fatty acid binding|protein binding|transporter activity				0	Lung NSC(7;3.57e-05)|all_lung(9;0.00011)		Epithelial(68;0.102)			GGGAAGGAAAGCACAATAACA	0.398													7	37	---	---	---	---	PASS	T	82196169	T	T	82196169	3	4	132	1	0	0	0	0	1	0	0	0	5360	971	34	3	324	3	FABP5	8	82196169	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	4575910	82196169	64167853	155	47435										
PDP1	54704	broad.mit.edu	37	chr8	94934294	94934294	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgttctctgatgccatgccaGcaccaactcaactgtttttt	6	12	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:94934294G>T	uc003yge.2	+	2	276	c.7G>T	c.(7-9)GCA>TCA	p.A3S	PDP1_uc003ygf.2_Missense_Mutation_p.A28S|PDP1_uc010max.2_Missense_Mutation_p.A28S|PDP1_uc011lgm.1_Missense_Mutation_p.A3S|PDP1_uc011lgn.1_Missense_Mutation_p.A62S	NM_018444	NP_060914	Q9P0J1	PDP1_HUMAN	pyruvate dehyrogenase phosphatase catalytic	3					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						TGCCATGCCAGCACCAACTCA	0.458													20	124	---	---	---	---	PASS	T	94934294	T	T	94934294	3	4	132	1	0	0	0	0	1	0	0	0	11685	971	34	3	190	3	PDP1	8	94934294	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	12738125	94934294	51429728	156	47436										
RAD54B	25788	broad.mit.edu	37	chr8	95412502	95412502	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	atcttgatcctttcacttccTagccatttttgaaattcttt	3	10	3	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:95412502T>C	uc003ygk.2	-	7	1232	c.1134A>G	c.(1132-1134)CTA>CTG	p.L378L	RAD54B_uc010may.1_Silent_p.L185L|RAD54B_uc003ygl.1_RNA	NM_012415	NP_036547	O95073	FSBP_HUMAN	RAD54 homolog B	Error:Variant_position_missing_in_O95073_after_alignment					double-strand break repair via homologous recombination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA translocase activity|protein binding			kidney(2)|lung(1)|skin(1)	4	Breast(36;4.5e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00217)			TTTCACTTCCTAGCCATTTTT	0.338								Direct_reversal_of_damage|Homologous_recombination					34	104	---	---	---	---	PASS	C	95412502	C	C	95412502	2	2	132	1	0	0	0	0	0	0	0	1	12992	1509	53	5		5	RAD54B	8	95412502	Silent	SNP	T	TCGA-60-2723-01A-01D-1522-08	478208	95412502	50951520	157	47437										
RIMS2	9699	broad.mit.edu	37	chr8	104928746	104928746	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ctgaaccacaagtagaacttGtagtttcaaggcctattggg	10	8	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:104928746G>T	uc003yls.2	+	6	1592	c.1351G>T	c.(1351-1353)GTA>TTA	p.V451L	RIMS2_uc003ylp.2_Missense_Mutation_p.V673L|RIMS2_uc003ylw.2_Missense_Mutation_p.V481L|RIMS2_uc003ylq.2_Missense_Mutation_p.V481L|RIMS2_uc003ylr.2_Missense_Mutation_p.V528L|RIMS2_uc003ylt.2_Missense_Mutation_p.V74L|RIMS2_uc003ylu.1_Missense_Mutation_p.V64L|RIMS2_uc003ylv.1_Missense_Mutation_p.V64L	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	751	PDZ.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGTAGAACTTGTAGTTTCAAG	0.348										HNSCC(12;0.0054)			6	151	---	---	---	---	PASS	T	104928746	T	T	104928746	3	4	132	1	0	0	0	0	1	0	0	0	13368	1377	48	3	2173	3	RIMS2	8	104928746	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	9516244	104928746	41435276	158	47438										
PKHD1L1	93035	broad.mit.edu	37	chr8	110447466	110447466	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	atggaagtgctggacatgccCccgttgctgtgtccatggct	13	11	0	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:110447466C>G	uc003yne.2	+	29	3492	c.3388C>G	c.(3388-3390)CCC>GCC	p.P1130A		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1130	Extracellular (Potential).|IPT/TIG 4.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TGGACATGCCCCCGTTGCTGT	0.413										HNSCC(38;0.096)			86	208	---	---	---	---	PASS	G	110447466	G	G	110447466	3	3	132	1	0	0	0	0	1	0	0	0	11972	623	22	4	3502	4	PKHD1L1	8	110447466	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	5518720	110447466	35916556	159	47439										
NOV	4856	broad.mit.edu	37	chr8	120431546	120431546	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cagactcggctctgcatggtGcggccctgtgaacaagagcc	13	13	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:120431546G>A	uc003yoq.2	+	4	959	c.738G>A	c.(736-738)GTG>GTA	p.V246V		NM_002514	NP_002505	P48745	NOV_HUMAN	nephroblastoma overexpressed precursor	246	TSP type-1.				regulation of cell growth		growth factor activity|insulin-like growth factor binding			ovary(2)|skin(2)|kidney(1)	5	all_cancers(13;3.84e-26)|Lung NSC(37;1.19e-08)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000507)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TCTGCATGGTGCGGCCCTGTG	0.562													18	164	---	---	---	---	PASS	A	120431546	A	A	120431546	2	1	132	1	0	0	0	0	0	0	0	1	10553	1306	46	3		3	NOV	8	120431546	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	9984080	120431546	25932476	160	47440										
ADCY8	114	broad.mit.edu	37	chr8	131812707	131812707	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aatgatctcattgagcaagcGcaggcattccactccctggt	9	12	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:131812707G>A	uc003ytd.3	-	15	3281	c.3025C>T	c.(3025-3027)CGC>TGC	p.R1009C	ADCY8_uc010mds.2_Missense_Mutation_p.R878C	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1009	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TTGAGCAAGCGCAGGCATTCC	0.443										HNSCC(32;0.087)			119	328	---	---	---	---	PASS	A	131812707	A	A	131812707	3	1	132	1	0	0	0	0	1	0	0	0	300	1087	38	1	746	1	ADCY8	8	131812707	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	11381161	131812707	14551315	161	47441										
ADCY8	114	broad.mit.edu	37	chr8	131826349	131826349	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccttctctaggaaatggcggGccacatggctgggtaagata	13	9	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:131826349G>A	uc003ytd.3	-	14	3135	c.2879C>T	c.(2878-2880)GCC>GTC	p.A960V	ADCY8_uc010mds.2_Missense_Mutation_p.A829V	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	960	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GAAATGGCGGGCCACATGGCT	0.522										HNSCC(32;0.087)			30	96	---	---	---	---	PASS	A	131826349	A	A	131826349	3	1	132	1	0	0	0	0	1	0	0	0	300	1203	42	3	896	3	ADCY8	8	131826349	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	13642	131826349	14537673	162	47442										
WISP1	8840	broad.mit.edu	37	chr8	134232918	134232918	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tacaactgcacgtgcatcgaCggcgcggtgggctgcacacc	13	14	0	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:134232918C>A	uc003yub.2	+	3	520	c.444C>A	c.(442-444)GAC>GAA	p.D148E	WISP1_uc003yuc.2_Intron|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	148	VWFC.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			CGTGCATCGACGGCGCGGTGG	0.667													28	135	---	---	---	---	PASS	A	134232918	A	A	134232918	3	1	132	1	0	0	0	0	1	0	0	0	17369	535	19	1	454	1	WISP1	8	134232918	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	2406569	134232918	12131104	163	47443										
FAM135B	51059	broad.mit.edu	37	chr8	139164260	139164260	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtctgctccagcatctgttcCagagtcaccacaaagttgag	9	12	3	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:139164260C>T	uc003yuy.2	-	13	2629	c.2458G>A	c.(2458-2460)GGA>AGA	p.G820R	FAM135B_uc003yux.2_Missense_Mutation_p.G721R|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.G382R|FAM135B_uc003yvb.2_Missense_Mutation_p.G382R	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	820										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)			GCATCTGTTCCAGAGTCACCA	0.517										HNSCC(54;0.14)			54	121	---	---	---	---	PASS	T	139164260	T	T	139164260	3	4	132	1	0	0	0	0	1	0	0	0	5449	603	21	3	1794	3	FAM135B	8	139164260	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	4931342	139164260	7199762	164	47444										
FAM135B	51059	broad.mit.edu	37	chr8	139209863	139209863	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	acaggcacaggtctcggtgcCacttgtgtgcgtgctgcatg	14	11	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:139209863C>A	uc003yuy.2	-	8	890	c.719G>T	c.(718-720)TGG>TTG	p.W240L	FAM135B_uc003yux.2_Missense_Mutation_p.W141L|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	240										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)			GTCTCGGTGCCACTTGTGTGC	0.577										HNSCC(54;0.14)			29	114	---	---	---	---	PASS	A	139209863	A	A	139209863	3	1	132	1	0	0	0	0	1	0	0	0	5449	595	21	3	3553	3	FAM135B	8	139209863	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	45603	139209863	7154159	165	47445										
COL22A1	169044	broad.mit.edu	37	chr8	139890011	139890011	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	actttcacaaagacggcgccGcagcttgccccggatcttgt	10	14	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:139890011G>C	uc003yvd.2	-	3	1087	c.640C>G	c.(640-642)CGG>GGG	p.R214G		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	214					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)			AGACGGCGCCGCAGCTTGCCC	0.652										HNSCC(7;0.00092)			15	56	---	---	---	---	PASS	C	139890011	C	C	139890011	3	2	132	1	0	0	0	0	1	0	0	0	3681	1086	38	4	4492	4	COL22A1	8	139890011	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	680148	139890011	6474011	166	47446										
PTK2	5747	broad.mit.edu	37	chr8	141799601	141799601	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gagacggcgtgtgtccgcatGccttgcttttcgctgttggc	14	11	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:141799601G>T	uc003yvu.2	-	14	1379	c.1149C>A	c.(1147-1149)GGC>GGA	p.G383G	PTK2_uc011ljq.1_Silent_p.G44G|PTK2_uc003yvp.2_Silent_p.G44G|PTK2_uc003yvq.2_5'UTR|PTK2_uc003yvr.2_Silent_p.G282G|PTK2_uc003yvs.2_Silent_p.G383G|PTK2_uc003yvt.2_Silent_p.G405G|PTK2_uc003yvv.2_Silent_p.G270G|PTK2_uc011ljr.1_Silent_p.G383G	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	383					axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			GTGTCCGCATGCCTTGCTTTT	0.527													133	475	---	---	---	---	PASS	T	141799601	T	T	141799601	2	4	132	1	0	0	0	0	0	0	0	1	12762	1306	46	3		3	PTK2	8	141799601	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	1909590	141799601	4564421	167	47447										
NFKBIL2	4796	broad.mit.edu	37	chr8	145657681	145657681	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ctcgtaccttggccaggtatCggaatacaggctccatgagg	12	11	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr8:145657681C>A	uc011llg.1	-	23	3737	c.3722G>T	c.(3721-3723)CGA>CTA	p.R1241L	uc011llh.1_5'Flank	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	1241					cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			GGCCAGGTATCGGAATACAGG	0.622													64	203	---	---	---	---	PASS	A	145657681	A	A	145657681	3	1	132	1	0	0	0	0	1	0	0	0	10382	884	31	2	430	2	NFKBIL2	8	145657681	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	3858080	145657681	706341	168	47448										
JAK2	3717	broad.mit.edu	37	chr9	5090820	5090820	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tggtggagaacgagaacagaGttaaaattggagattttggg	15	2	0	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr9:5090820G>C	uc010mhm.2	+	21	3081	c.2968G>C	c.(2968-2970)GTT>CTT	p.V990L	JAK2_uc003ziw.2_Missense_Mutation_p.V990L	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	990	Protein kinase 2.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		CGAGAACAGAGTTAAAATTGG	0.363		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				666	158	---	---	---	---	PASS	C	5090820	C	C	5090820	3	2	132	1	0	0	0	0	1	0	0	0	7938	1029	36	4	3046	4	JAK2	9	5090820	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08		5090820	136122611	169	47449										
IFNA13	3447	broad.mit.edu	37	chr9	21367977	21367977	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttgcagctgagcaccaccagGgccatcagtaaagcaaaggg	12	11	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr9:21367977G>T	uc003zpa.2	-	1	99	c.33C>A	c.(31-33)GCC>GCA	p.A11A		NM_006900	NP_008831	P01562	IFNA1_HUMAN	interferon, alpha 13 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			ovary(1)	1				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.0173)		GCACCACCAGGGCCATCAGTA	0.542													40	99	---	---	---	---	PASS	T	21367977	T	T	21367977	2	4	132	1	0	0	0	0	0	0	0	1	7533	1219	43	3		3	IFNA13	9	21367977	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	16277157	21367977	119845454	170	47450										
TAF1L	138474	broad.mit.edu	37	chr9	32631709	32631709	+	Missense_Mutation	SNP	C	A	A													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	atttgttagtcctcatatgtCcaatggcaccacatgcccca							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr9:32631709C>A	uc003zrg.1	-	1	3959	c.3869G>T	c.(3868-3870)GGA>GTA	p.G1290V	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1290					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CCTCATATGTCCAATGGCACC	0.468													98	188	---	---	---	---	PASS	A	32631709	A	A	32631709	3	1	132	1	0	0	0	0	1	0	0	0	15520	855	30	2	1615	2	TAF1L	9	32631709	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	11263732	32631709	108581722	171	47451	870	2								
TAF1L	138474	broad.mit.edu	37	chr9	32631710	32631710	+	Nonsense_Mutation	SNP	C	A	A													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tttgttagtcctcatatgtcCaatggcaccacatgccccac							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr9:32631710C>A	uc003zrg.1	-	1	3958	c.3868G>T	c.(3868-3870)GGA>TGA	p.G1290*	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1290					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CTCATATGTCCAATGGCACCA	0.473													95	191	---	---	---	---	PASS	A	32631710	A	A	32631710	4	1	132	1	0	0	0	0	0	1	0	0	15520	603	21	3	1616	3	TAF1L	9	32631710	Nonsense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	1	32631710	108581721	172	47452	870	2								
SUSD3	203328	broad.mit.edu	37	chr9	95846984	95846984	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cccctgcctgcctctgggctGgccacaggaatgccacaaca	10	17	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr9:95846984G>T	uc004atb.2	+	5	759	c.723G>T	c.(721-723)CTG>CTT	p.L241L	SUSD3_uc004atc.2_Silent_p.L228L	NM_145006	NP_659443	Q96L08	SUSD3_HUMAN	sushi domain containing 3	241	Cytoplasmic (Potential).					integral to membrane				breast(2)|skin(2)|ovary(1)|lung(1)	6						CCTCTGGGCTGGCCACAGGAA	0.647													23	66	---	---	---	---	PASS	T	95846984	T	T	95846984	2	4	132	1	0	0	0	0	0	0	0	1	15406	1335	47	3		3	SUSD3	9	95846984	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	63215274	95846984	45366447	173	47453										
CYLC2	1539	broad.mit.edu	37	chr9	105767756	105767756	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aagaagcccagtagtacagaCagtgactcaaaggatgatgt	11	7	1	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr9:105767756C>G	uc004bbs.2	+	5	913	c.843C>G	c.(841-843)GAC>GAG	p.D281E		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	281	31 X 3 AA repeats of K-K-X.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				GTAGTACAGACAGTGACTCAA	0.254													15	28	---	---	---	---	PASS	G	105767756	G	G	105767756	3	3	132	1	0	0	0	0	1	0	0	0	4142	477	17	4	861	4	CYLC2	9	105767756	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	9920772	105767756	35445675	174	47454										
PAPPA	5069	broad.mit.edu	37	chr9	118969826	118969826	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttgcaaaatcctcagaggagGagttggcaggagtagcaact	13	7	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr9:118969826G>C	uc004bjn.2	+	3	1951	c.1570G>C	c.(1570-1572)GAG>CAG	p.E524Q	PAPPA_uc011lxp.1_Missense_Mutation_p.E317Q|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	524	Metalloprotease.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CTCAGAGGAGGAGTTGGCAGG	0.443													35	66	---	---	---	---	PASS	C	118969826	C	C	118969826	3	2	132	1	0	0	0	0	1	0	0	0	11432	1175	41	2	1580	2	PAPPA	9	118969826	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	13202070	118969826	22243605	175	47455										
GOLGA1	2800	broad.mit.edu	37	chr9	127652688	127652688	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ctgttgctggaactcttcccTttgcttccgcacctcctcca	6	17	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr9:127652688T>C	uc004bpc.2	-	16	1819	c.1477A>G	c.(1477-1479)AGG>GGG	p.R493G	GOLGA1_uc010mws.2_RNA	NM_002077	NP_002068	Q92805	GOGA1_HUMAN	golgin 97	493	Potential.|Gln-rich.					Golgi cisterna membrane				ovary(1)	1						AACTCTTCCCTTTGCTTCCGC	0.577													62	80	---	---	---	---	PASS	C	127652688	C	C	127652688	3	2	132	1	0	0	0	0	1	0	0	0	6551	1608	56	5	858	5	GOLGA1	9	127652688	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	8682862	127652688	13560743	176	47456										
SETX	23064	broad.mit.edu	37	chr9	135140176	135140176	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcttggcaaatccactgtctAgcttgctgctgggcaaacca	9	12	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr9:135140176A>G	uc004cbk.2	-	26	7667	c.7484T>C	c.(7483-7485)CTA>CCA	p.L2495P	SETX_uc004cbj.2_Missense_Mutation_p.L2143P|SETX_uc010mzt.2_Missense_Mutation_p.L2081P	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	2495					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		TCCACTGTCTAGCTTGCTGCT	0.507													96	135	---	---	---	---	PASS	G	135140176	G	G	135140176	3	3	132	1	0	0	0	0	1	0	0	0	14141	420	15	5	553	5	SETX	9	135140176	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	7487488	135140176	6073255	177	47457										
GFI1B	8328	broad.mit.edu	37	chr9	135863681	135863681	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttctcctgggacaccttggcCacaacctatggccacagcta	8	15	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr9:135863681C>A	uc004ccg.2	+	4	487	c.336C>A	c.(334-336)GCC>GCA	p.A112A	GFI1B_uc010mzy.2_Silent_p.A112A	NM_004188	NP_004179	Q5VTD9	GFI1B_HUMAN	growth factor independent 1B transcription	112	Interaction with ARIH2.				cell proliferation|chromatin modification|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle|transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;9.04e-07)|Epithelial(140;1.17e-05)		ACACCTTGGCCACAACCTATG	0.627													28	55	---	---	---	---	PASS	A	135863681	A	A	135863681	2	1	132	1	0	0	0	0	0	0	0	1	6340	581	21	3		3	GFI1B	9	135863681	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	723505	135863681	5349750	178	47458										
SARDH	1757	broad.mit.edu	37	chr9	136582496	136582496	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgtcttctccagcacggggaCcctgttgatggcgccttcaa	11	13	3	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr9:136582496C>G	uc004cep.3	-	8	1236	c.1102G>C	c.(1102-1104)GTC>CTC	p.V368L	SARDH_uc004ceo.2_Missense_Mutation_p.V368L|SARDH_uc011mdn.1_Missense_Mutation_p.V368L|SARDH_uc011mdo.1_Missense_Mutation_p.V200L	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	368					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		AGCACGGGGACCCTGTTGATG	0.612													35	59	---	---	---	---	PASS	G	136582496	G	G	136582496	3	3	132	1	0	0	0	0	1	0	0	0	13841	507	18	4	1710	4	SARDH	9	136582496	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	718815	136582496	4630935	179	47459										
PCDH15	65217	broad.mit.edu	37	chr10	55913039	55913039	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccatttgacccttcgtctgcGtcgactgcagtgagctggaa	11	12	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr10:55913039G>A	uc001jju.1	-	14	2000	c.1605C>T	c.(1603-1605)GAC>GAT	p.D535D	PCDH15_uc010qhq.1_Silent_p.D540D|PCDH15_uc010qhr.1_Silent_p.D535D|PCDH15_uc010qhs.1_Silent_p.D547D|PCDH15_uc010qht.1_Silent_p.D542D|PCDH15_uc010qhu.1_Silent_p.D535D|PCDH15_uc001jjv.1_Silent_p.D513D|PCDH15_uc010qhv.1_Silent_p.D535D|PCDH15_uc010qhw.1_Silent_p.D498D|PCDH15_uc010qhx.1_Silent_p.D535D|PCDH15_uc010qhy.1_Silent_p.D540D|PCDH15_uc010qhz.1_Silent_p.D535D|PCDH15_uc010qia.1_Silent_p.D513D|PCDH15_uc010qib.1_Silent_p.D513D|PCDH15_uc001jjw.2_Silent_p.D535D	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	535	Cadherin 5.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CTTCGTCTGCGTCGACTGCAG	0.453										HNSCC(58;0.16)			55	88	---	---	---	---	PASS	A	55913039	A	A	55913039	2	1	132	1	0	0	0	0	0	0	0	1	11511	1136	40	1		1	PCDH15	10	55913039	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08		55913039	79621708	180	47460										
MYPN	84665	broad.mit.edu	37	chr10	69934038	69934038	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaagtatttcttcccctccaCgaacaccaccgcagcaactg	6	16	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr10:69934038C>A	uc001jnm.3	+	12	2374	c.2189C>A	c.(2188-2190)ACG>AAG	p.T730K	MYPN_uc001jnn.3_Missense_Mutation_p.T455K|MYPN_uc001jno.3_Missense_Mutation_p.T730K|MYPN_uc009xpt.2_Missense_Mutation_p.T730K|MYPN_uc010qit.1_Missense_Mutation_p.T436K|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	730						nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						TTCCCCTCCACGAACACCACC	0.552													88	205	---	---	---	---	PASS	A	69934038	A	A	69934038	3	1	132	1	0	0	0	0	1	0	0	0	10098	536	19	1	2227	1	MYPN	10	69934038	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	14020999	69934038	65600709	181	47461										
NODAL	4838	broad.mit.edu	37	chr10	72195131	72195131	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ataggcgttgtactgcttggGgtagatgatccaggagcccc	14	9	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr10:72195131G>C	uc001jrc.2	-	2	844	c.802C>G	c.(802-804)CCC>GCC	p.P268A		NM_018055	NP_060525	Q96S42	NODAL_HUMAN	nodal precursor	268					growth	extracellular space	cytokine activity|growth factor activity			large_intestine(1)|kidney(1)	2						TACTGCTTGGGGTAGATGATC	0.547													13	67	---	---	---	---	PASS	C	72195131	C	C	72195131	3	2	132	1	0	0	0	0	1	0	0	0	10518	1232	43	4	249	4	NODAL	10	72195131	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	2261093	72195131	63339616	182	47462										
PPRC1	23082	broad.mit.edu	37	chr10	103908180	103908180	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agatgctcttcctcttcttcGtcatcatcttcctcttcgtc	4	15	7	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr10:103908180G>T	uc001kum.2	+	10	4491	c.4452G>T	c.(4450-4452)TCG>TCT	p.S1484S	PPRC1_uc001kun.2_Silent_p.S1364S|PPRC1_uc010qqj.1_Silent_p.S1220S|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	1484	Arg-rich.|Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		cctcttcttcgtcatcatctt	0.433													71	80	---	---	---	---	PASS	T	103908180	T	T	103908180	2	4	132	1	0	0	0	0	0	0	0	1	12410	1132	40	1		1	PPRC1	10	103908180	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	31713049	103908180	31626567	183	47463										
SORCS1	114815	broad.mit.edu	37	chr10	108437122	108437122	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcatagcaaccaggactccaCcttgatccaggtacaaaaca	6	13	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr10:108437122C>G	uc001kym.2	-	13	1789	c.1781G>C	c.(1780-1782)GGT>GCT	p.G594A	SORCS1_uc001kyl.2_Missense_Mutation_p.G594A|SORCS1_uc009xxs.2_Missense_Mutation_p.G594A|SORCS1_uc001kyn.1_Missense_Mutation_p.G594A|SORCS1_uc001kyo.2_Missense_Mutation_p.G594A	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	594	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CAGGACTCCACCTTGATCCAG	0.473													31	55	---	---	---	---	PASS	G	108437122	G	G	108437122	3	3	132	1	0	0	0	0	1	0	0	0	14930	507	18	4	2015	4	SORCS1	10	108437122	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	4528942	108437122	27097625	184	47464										
NRAP	4892	broad.mit.edu	37	chr10	115350407	115350407	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccgggtcgcaggtgggctggGgcaggggctgcctgtagtgc	21	10	0	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr10:115350407G>A	uc001laj.2	-	40	5050	c.4886C>T	c.(4885-4887)CCC>CTC	p.P1629L	NRAP_uc009xyb.2_Missense_Mutation_p.P382L|NRAP_uc001lak.2_Missense_Mutation_p.P1594L|NRAP_uc001lal.3_Missense_Mutation_p.P1629L	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	1629						fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		GGTGGGCTGGGGCAGGGGCTG	0.657													29	44	---	---	---	---	PASS	A	115350407	A	A	115350407	3	1	132	1	0	0	0	0	1	0	0	0	10638	1232	43	3	318	3	NRAP	10	115350407	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	6913285	115350407	20184340	185	47465										
OR51B4	79339	broad.mit.edu	37	chr11	5322388	5322388	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gggaccacatgaggtgcatgTttcccaaacctgtgaatgaa	11	9	0	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:5322388T>A	uc010qza.1	-	1	789	c.789A>T	c.(787-789)AAA>AAT	p.K263N	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033179	NP_149419	Q9Y5P0	O51B4_HUMAN	olfactory receptor, family 51, subfamily B,	263	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAGGTGCATGTTTCCCAAACC	0.423													27	77	---	---	---	---	PASS	A	5322388	A	A	5322388	3	1	132	1	0	0	0	0	1	0	0	0	11090	1722	60	5	146	5	OR51B4	11	5322388	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08		5322388	129684128	186	47466										
USH1C	10083	broad.mit.edu	37	chr11	17547921	17547921	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	caaggcctcgggagcctaccAggctgatgaagaccttcttc	11	13	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:17547921A>T	uc001mnf.2	-	8	756	c.647T>A	c.(646-648)CTG>CAG	p.L216Q	USH1C_uc001mne.2_Missense_Mutation_p.L216Q|USH1C_uc009yhb.2_Missense_Mutation_p.L216Q|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_Missense_Mutation_p.L180Q	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	216	PDZ 2.				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						GGAGCCTACCAGGCTGATGAA	0.617													6	69	---	---	---	---	PASS	T	17547921	T	T	17547921	3	4	132	1	0	0	0	0	1	0	0	0	17031	188	7	5	2210	5	USH1C	11	17547921	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	12225533	17547921	117458595	187	47467										
LDHAL6A	160287	broad.mit.edu	37	chr11	18498018	18498018	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgataaagatcctgagcagtGggaaaatgtccacaaaaaag	10	6	0	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:18498018G>C	uc001mop.1	+	6	941	c.680G>C	c.(679-681)TGG>TCG	p.W227S	LDHAL6A_uc001moq.2_Missense_Mutation_p.W227S	NM_001144071	NP_001137543	Q6ZMR3	LDH6A_HUMAN	lactate dehydrogenase A-like 6A	227					glycolysis	cytoplasm	binding|L-lactate dehydrogenase activity				0					NADH(DB00157)	CCTGAGCAGTGGGAAAATGTC	0.423													76	130	---	---	---	---	PASS	C	18498018	C	C	18498018	3	2	132	1	0	0	0	0	1	0	0	0	8699	1357	47	4	698	4	LDHAL6A	11	18498018	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	950097	18498018	116508498	188	47468										
OR4C12	283093	broad.mit.edu	37	chr11	50004035	50004035	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtcacattctttttcttctcCatctatgtagtgtgggtgat	8	8	5	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:50004035C>A	uc010ria.1	-	1	3	c.3G>T	c.(1-3)ATG>ATT	p.M1I		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TTTTCTTCTCCATCTATGTAG	0.318													30	86	---	---	---	---	PASS	A	50004035	A	A	50004035	3	1	132	1	0	0	0	0	1	0	0	0	11046	594	21	3	930	3	OR4C12	11	50004035	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	31506017	50004035	85002481	189	47469										
OR4S2	219431	broad.mit.edu	37	chr11	55418580	55418580	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ctcagcttcttgtcttttgtGgacatttgttactcttcagt	7	9	5	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:55418580G>T	uc001nhs.1	+	1	201	c.201G>T	c.(199-201)GTG>GTT	p.V67V		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				TGTCTTTTGTGGACATTTGTT	0.423													73	375	---	---	---	---	PASS	T	55418580	T	T	55418580	2	4	132	1	0	0	0	0	0	0	0	1	11083	1335	47	3		3	OR4S2	11	55418580	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	5414545	55418580	79587936	190	47470			1	53		3	3	471	N	G_C	1.101783e-05
OR4S2	219431	broad.mit.edu	37	chr11	55418609	55418609	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttactcttcagtcacagctcCcaagatgattgttgacctgt	7	11	3	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:55418609C>A	uc001nhs.1	+	1	230	c.230C>A	c.(229-231)CCC>CAC	p.P77H		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	77	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				GTCACAGCTCCCAAGATGATT	0.428													157	337	---	---	---	---	PASS	A	55418609	A	A	55418609	3	1	132	1	0	0	0	0	1	0	0	0	11083	623	22	3	232	3	OR4S2	11	55418609	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	29	55418609	79587907	191	47471			1	53		3	3	471	N	G_C	1.101783e-05
OR4S2	219431	broad.mit.edu	37	chr11	55419050	55419050	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	catcatcctagtttccctgaGaaagcagtcagcagaaggca	9	11	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:55419050G>A	uc001nhs.1	+	1	671	c.671G>A	c.(670-672)AGA>AAA	p.R224K		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	224	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				GTTTCCCTGAGAAAGCAGTCA	0.483													89	205	---	---	---	---	PASS	A	55419050	A	A	55419050	3	1	132	1	0	0	0	0	1	0	0	0	11083	942	33	2	673	2	OR4S2	11	55419050	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	441	55419050	79587466	192	47472			1	53		3	3	471	N	G_C	1.101783e-05
OR4C6	219432	broad.mit.edu	37	chr11	55432892	55432892	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccaaggtgattgtagacaccCtctccaagagcactaccatc	7	14	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:55432892C>T	uc001nht.3	+	3	515	c.250C>T	c.(250-252)CTC>TTC	p.L84F	OR4C6_uc010rik.1_Missense_Mutation_p.L84F	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	84	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TGTAGACACCCTCTCCAAGAG	0.488													85	172	---	---	---	---	PASS	T	55432892	T	T	55432892	3	4	132	1	0	0	0	0	1	0	0	0	11052	681	24	3	252	3	OR4C6	11	55432892	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	13842	55432892	79573624	193	47473										
OR5L2	26338	broad.mit.edu	37	chr11	55594993	55594993	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cttcctagggtgcatggtgcAattctacttgttttgcacat	9	9	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:55594993A>G	uc001nhy.1	+	1	299	c.299A>G	c.(298-300)CAA>CGA	p.Q100R		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	100	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				TGCATGGTGCAATTCTACTTG	0.468										HNSCC(27;0.073)			144	145	---	---	---	---	PASS	G	55594993	G	G	55594993	3	3	132	1	0	0	0	0	1	0	0	0	11171	130	5	5	301	5	OR5L2	11	55594993	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	162101	55594993	79411523	194	47474										
OR8J3	81168	broad.mit.edu	37	chr11	55904440	55904440	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	acataaatagcattgtcccaTagaaaaccgtgactgctatc	6	10	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:55904440T>A	uc010riz.1	-	1	755	c.755A>T	c.(754-756)TAT>TTT	p.Y252F		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	252	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					CATTGTCCCATAGAAAACCGT	0.413													106	128	---	---	---	---	PASS	A	55904440	A	A	55904440	3	1	132	1	0	0	0	0	1	0	0	0	11242	1406	49	5	194	5	OR8J3	11	55904440	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	309447	55904440	79102076	195	47475										
OR5R1	219479	broad.mit.edu	37	chr11	56185406	56185406	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	atgaaggtgagaaaacaaccCagttgggttgcacaagcatg	12	7	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:56185406C>A	uc010rji.1	-	1	303	c.303G>T	c.(301-303)CTG>CTT	p.L101L		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	101	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GAAAACAACCCAGTTGGGTTG	0.453													58	60	---	---	---	---	PASS	A	56185406	A	A	56185406	2	1	132	1	0	0	0	0	0	0	0	1	11180	581	21	3		3	OR5R1	11	56185406	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	280966	56185406	78821110	196	47476										
SERPING1	710	broad.mit.edu	37	chr11	57369607	57369607	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaagggcttcacgaccaaagGtgtcacctcagtctctcaga	10	12	5	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:57369607G>T	uc001nkp.1	+	4	841	c.650G>T	c.(649-651)GGT>GTT	p.G217V	SERPING1_uc001nkq.1_Missense_Mutation_p.G217V|SERPING1_uc010rju.1_Missense_Mutation_p.G165V|SERPING1_uc010rjv.1_Missense_Mutation_p.G222V|SERPING1_uc001nkr.1_Missense_Mutation_p.G217V|SERPING1_uc009ymi.1_Missense_Mutation_p.G217V|SERPING1_uc009ymj.1_Missense_Mutation_p.G217V|SERPING1_uc001nks.1_5'UTR	NM_000062	NP_000053	P05155	IC1_HUMAN	serpin peptidase inhibitor, clade G, member 1	217					blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1						ACGACCAAAGGTGTCACCTCA	0.587									Hereditary_Angioedema				21	130	---	---	---	---	PASS	T	57369607	T	T	57369607	3	4	132	1	0	0	0	0	1	0	0	0	14116	1261	44	3	660	3	SERPING1	11	57369607	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	1184201	57369607	77636909	197	47477										
OR9I1	219954	broad.mit.edu	37	chr11	57886593	57886593	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agcagaaagcactctgtgccTgcacagatggtgaataaaaa	10	8	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:57886593T>A	uc001nml.1	-	1	324	c.324A>T	c.(322-324)GCA>GCT	p.A108A	OR9Q1_uc001nmj.2_Intron	NM_001005211	NP_001005211	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Breast(21;0.0589)				ACTCTGTGCCTGCACAGATGG	0.542													57	51	---	---	---	---	PASS	A	57886593	A	A	57886593	2	1	132	1	0	0	0	0	0	0	0	1	11253	1567	55	5		5	OR9I1	11	57886593	Silent	SNP	T	TCGA-60-2723-01A-01D-1522-08	516986	57886593	77119923	198	47478										
OR9I1	219954	broad.mit.edu	37	chr11	57886914	57886914	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ctggtgagattattcttggcCatggagacaatgtggactgt	13	6	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:57886914C>A	uc001nml.1	-	1	3	c.3G>T	c.(1-3)ATG>ATT	p.M1I	OR9Q1_uc001nmj.2_Intron	NM_001005211	NP_001005211	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Breast(21;0.0589)				TATTCTTGGCCATGGAGACAA	0.413													10	106	---	---	---	---	PASS	A	57886914	A	A	57886914	3	1	132	1	0	0	0	0	1	0	0	0	11253	594	21	3	945	3	OR9I1	11	57886914	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	321	57886914	77119602	199	47479										
OR1S2	219958	broad.mit.edu	37	chr11	57970847	57970847	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaggggaaaaagtacacgccTacagtggttccgtagaacag	13	8	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:57970847T>C	uc010rkb.1	-	1	807	c.807A>G	c.(805-807)GTA>GTG	p.V269V		NM_001004459	NP_001004459	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S,	269	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				AGTACACGCCTACAGTGGTTC	0.502													18	236	---	---	---	---	PASS	C	57970847	C	C	57970847	2	2	132	1	0	0	0	0	0	0	0	1	10973	1509	53	5		5	OR1S2	11	57970847	Silent	SNP	T	TCGA-60-2723-01A-01D-1522-08	83933	57970847	77035669	200	47480										
OR5B12	390191	broad.mit.edu	37	chr11	58207151	58207151	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gagagcctgaaagtgttcccAgtatgaatggatgcattcag	12	7	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:58207151A>T	uc010rkh.1	-	1	474	c.474T>A	c.(472-474)ACT>ACA	p.T158T		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AAGTGTTCCCAGTATGAATGG	0.453													19	87	---	---	---	---	PASS	T	58207151	T	T	58207151	2	4	132	1	0	0	0	0	0	0	0	1	11148	175	7	5		5	OR5B12	11	58207151	Silent	SNP	A	TCGA-60-2723-01A-01D-1522-08	236304	58207151	76799365	201	47481										
OR4D10	390197	broad.mit.edu	37	chr11	59245658	59245658	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtggtgaccctgcatttcgtGccctgcatctatgtctatgc	10	12	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:59245658G>A	uc001nnz.1	+	1	756	c.756G>A	c.(754-756)GTG>GTA	p.V252V		NM_001004705	NP_001004705	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D,	252	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TGCATTTCGTGCCCTGCATCT	0.547													46	203	---	---	---	---	PASS	A	59245658	A	A	59245658	2	1	132	1	0	0	0	0	0	0	0	1	11054	1306	46	3		3	OR4D10	11	59245658	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	1038507	59245658	75760858	202	47482										
AHNAK	79026	broad.mit.edu	37	chr11	62287588	62287588	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gggccatgaacatccacatcAggggtgttgatgtccacttt	11	10	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:62287588A>T	uc001ntl.2	-	5	14601	c.14301T>A	c.(14299-14301)CCT>CCA	p.P4767P	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4767					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CATCCACATCAGGGGTGTTGA	0.522													72	261	---	---	---	---	PASS	T	62287588	T	T	62287588	2	4	132	1	0	0	0	0	0	0	0	1	414	175	7	5		5	AHNAK	11	62287588	Silent	SNP	A	TCGA-60-2723-01A-01D-1522-08	3041930	62287588	72718928	203	47483										
DLG2	1740	broad.mit.edu	37	chr11	83544666	83544666	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aacatactcaccgataggatCtggtctcctctctggagctc	8	13	4	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:83544666C>A	uc001paj.2	-	12	1701	c.1398G>T	c.(1396-1398)CAG>CAT	p.Q466H	DLG2_uc001pai.2_Missense_Mutation_p.Q363H|DLG2_uc010rsy.1_Missense_Mutation_p.Q433H|DLG2_uc010rsz.1_Missense_Mutation_p.Q466H|DLG2_uc010rta.1_Missense_Mutation_p.Q466H|DLG2_uc001pak.2_Missense_Mutation_p.Q571H|DLG2_uc010rtb.1_Missense_Mutation_p.Q433H|DLG2_uc001pal.1_Missense_Mutation_p.Q466H|DLG2_uc001pam.1_Missense_Mutation_p.Q505H	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	466	PDZ 3.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				CCGATAGGATCTGGTCTCCTC	0.433													20	108	---	---	---	---	PASS	A	83544666	A	A	83544666	3	1	132	1	0	0	0	0	1	0	0	0	4555	912	32	2	1312	2	DLG2	11	83544666	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	21257078	83544666	51461850	204	47484										
NAALAD2	10003	broad.mit.edu	37	chr11	89907028	89907028	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	atgggtttgagagtaaatcaCtgtatgaaagctggttggaa	13	3	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:89907028C>A	uc001pdf.3	+	14	1556	c.1447C>A	c.(1447-1449)CTG>ATG	p.L483M	NAALAD2_uc009yvx.2_Missense_Mutation_p.L450M|NAALAD2_uc009yvy.2_Intron	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	483	Extracellular (Potential).|NAALADase.				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				GAGTAAATCACTGTATGAAAG	0.368													38	154	---	---	---	---	PASS	A	89907028	A	A	89907028	3	1	132	1	0	0	0	0	1	0	0	0	10128	564	20	3	1501	3	NAALAD2	11	89907028	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	6362362	89907028	45099488	205	47485										
FOLR4	390243	broad.mit.edu	37	chr11	94039700	94039700	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gcatcccctggaaggacaatGcctgctgcaccctcacgaca	9	16	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:94039700G>T	uc010rud.1	+	2	160	c.160G>T	c.(160-162)GCC>TCC	p.A54S		NM_001080486	NP_001073955	A6ND01	FOLR4_HUMAN	folate receptor 4 (delta) homolog	54						extracellular region	folic acid binding|receptor activity			ovary(1)	1						GAAGGACAATGCCTGCTGCAC	0.547													70	261	---	---	---	---	PASS	T	94039700	T	T	94039700	3	4	132	1	0	0	0	0	1	0	0	0	5984	1319	46	3	166	3	FOLR4	11	94039700	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	4132672	94039700	40966816	206	47486										
THY1	7070	broad.mit.edu	37	chr11	119290968	119290968	+	Missense_Mutation	SNP	G	A	A													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cacgtgcttctttgtctcacGggtcaggctgaactcgtact							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:119290968G>A	uc001pwq.2	-	2	200	c.166C>T	c.(166-168)CGT>TGT	p.R56C	uc001pwo.2_Intron|uc001pwp.1_Intron|THY1_uc001pwr.2_Missense_Mutation_p.R56C|THY1_uc001pws.2_RNA	NM_006288	NP_006279	P04216	THY1_HUMAN	Thy-1 cell surface antigen preproprotein	56	Ig-like V-type.				angiogenesis|cell-cell adhesion|cytoskeleton organization|focal adhesion assembly|negative regulation of axonogenesis|negative regulation of cell migration|negative regulation of protein kinase activity|negative regulation of T cell receptor signaling pathway|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of T cell activation|retinal cone cell development|T cell receptor signaling pathway	endoplasmic reticulum|growth cone|integral to plasma membrane|membrane raft	GPI anchor binding|integrin binding|Rho GTPase activator activity				0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.83e-05)		TTTGTCTCACGGGTCAGGCTG	0.562													34	212	---	---	---	---	PASS	A	119290968	A	A	119290968	3	1	132	1	0	0	0	0	1	0	0	0	15882	1116	39	1	327	1	THY1	11	119290968	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	25251268	119290968	15715548	207	47487	871	2								
THY1	7070	broad.mit.edu	37	chr11	119290969	119290969	+	Silent	SNP	G	T	T													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	acgtgcttctttgtctcacgGgtcaggctgaactcgtactg							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:119290969G>T	uc001pwq.2	-	2	199	c.165C>A	c.(163-165)ACC>ACA	p.T55T	uc001pwo.2_Intron|uc001pwp.1_Intron|THY1_uc001pwr.2_Silent_p.T55T|THY1_uc001pws.2_RNA	NM_006288	NP_006279	P04216	THY1_HUMAN	Thy-1 cell surface antigen preproprotein	55	Ig-like V-type.			LT -> AP (in Ref. 5).	angiogenesis|cell-cell adhesion|cytoskeleton organization|focal adhesion assembly|negative regulation of axonogenesis|negative regulation of cell migration|negative regulation of protein kinase activity|negative regulation of T cell receptor signaling pathway|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of T cell activation|retinal cone cell development|T cell receptor signaling pathway	endoplasmic reticulum|growth cone|integral to plasma membrane|membrane raft	GPI anchor binding|integrin binding|Rho GTPase activator activity				0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.83e-05)		TTGTCTCACGGGTCAGGCTGA	0.562													33	213	---	---	---	---	PASS	T	119290969	T	T	119290969	2	4	132	1	0	0	0	0	0	0	0	1	15882	1219	43	3		3	THY1	11	119290969	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	1	119290969	15715547	208	47488	871	2								
TECTA	7007	broad.mit.edu	37	chr11	120989112	120989112	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aatgagatctactgccaggaGgcttcctgtagcccctacga	10	12	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:120989112G>T	uc010rzo.1	+	6	888	c.888G>T	c.(886-888)GAG>GAT	p.E296D		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	296	VWFC.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		ACTGCCAGGAGGCTTCCTGTA	0.547													26	112	---	---	---	---	PASS	T	120989112	T	T	120989112	3	4	132	1	0	0	0	0	1	0	0	0	15744	991	35	3	910	3	TECTA	11	120989112	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	1698143	120989112	14017404	209	47489										
ZNF202	7753	broad.mit.edu	37	chr11	123597180	123597180	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgacaaggtctgaagtccagCggaagtgctttccgcaatca	11	10	2	2	rs150835875		TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:123597180C>T	uc001pzd.1	-	9	1872	c.1472G>A	c.(1471-1473)CGC>CAC	p.R491H	ZNF202_uc001pzc.1_Missense_Mutation_p.R267H|ZNF202_uc001pze.1_Missense_Mutation_p.R491H|ZNF202_uc001pzf.1_Missense_Mutation_p.R491H	NM_003455	NP_003446	O95125	ZN202_HUMAN	zinc finger protein 202	491	C2H2-type 3.				lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.03)		TGAAGTCCAGCGGAAGTGCTT	0.458													50	249	---	---	---	---	PASS	T	123597180	T	T	123597180	3	4	132	1	0	0	0	0	1	0	0	0	17760	768	27	1	478	1	ZNF202	11	123597180	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	2608068	123597180	11409336	210	47490										
OR10G9	219870	broad.mit.edu	37	chr11	123893774	123893774	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcacgggccttccccatgccCcagggctggacgccccactc	10	20	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:123893774C>A	uc010sad.1	+	1	55	c.55C>A	c.(55-57)CCA>ACA	p.P19T		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	19	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		TCCCCATGCCCCAGGGCTGGA	0.572													30	295	---	---	---	---	PASS	A	123893774	A	A	123893774	3	1	132	1	0	0	0	0	1	0	0	0	10904	623	22	3	57	3	OR10G9	11	123893774	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	296594	123893774	11112742	211	47491										
VSIG2	23584	broad.mit.edu	37	chr11	124620721	124620721	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtggacgtcagtcagtttcaGtgtggccacccccactgtgg	13	12	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:124620721G>T	uc001qas.2	-	3	392	c.316C>A	c.(316-318)CTG>ATG	p.L106M	VSIG2_uc001qat.2_Missense_Mutation_p.L106M	NM_014312	NP_055127	Q96IQ7	VSIG2_HUMAN	V-set and immunoglobulin domain containing 2	106	Extracellular (Potential).|Ig-like V-type.					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)		GTCAGTTTCAGTGTGGCCACC	0.532													15	76	---	---	---	---	PASS	T	124620721	T	T	124620721	3	4	132	1	0	0	0	0	1	0	0	0	17221	1020	36	3	687	3	VSIG2	11	124620721	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	726947	124620721	10385795	212	47492										
PKNOX2	63876	broad.mit.edu	37	chr11	125301131	125301131	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	catggccatgcagcaggctaTgatggctgcacacgatgact	12	11	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr11:125301131T>C	uc001qbu.2	+	13	1576	c.1262T>C	c.(1261-1263)ATG>ACG	p.M421T	PKNOX2_uc010saz.1_Missense_Mutation_p.M392T|PKNOX2_uc010sba.1_Missense_Mutation_p.M392T|PKNOX2_uc010sbb.1_Missense_Mutation_p.M357T|PKNOX2_uc001qbv.2_Missense_Mutation_p.M186T	NM_022062	NP_071345	Q96KN3	PKNX2_HUMAN	PBX/knotted 1 homeobox 2	421						nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(109;0.00234)|all_lung(97;0.0191)|Lung NSC(97;0.0196)|Medulloblastoma(222;0.0447)|all_neural(223;0.116)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.117)		CAGCAGGCTATGATGGCTGCA	0.403													10	21	---	---	---	---	PASS	C	125301131	C	C	125301131	3	2	132	1	0	0	0	0	1	0	0	0	11983	1464	51	5	1300	5	PKNOX2	11	125301131	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	680410	125301131	9705385	213	47493										
SLC6A12	6539	broad.mit.edu	37	chr12	311986	311986	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggtagaagagagcccaggcaAggatgatgatgtagtagaca	15	5	0	5			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:311986A>T	uc001qhz.2	-	6	953	c.410T>A	c.(409-411)CTT>CAT	p.L137H	SLC6A12_uc001qia.2_Missense_Mutation_p.L137H|SLC6A12_uc001qib.2_Missense_Mutation_p.L137H|SLC6A12_uc009zdh.1_Missense_Mutation_p.L137H|SLC6A12_uc009zdi.1_RNA	NM_003044	NP_003035	P48065	S6A12_HUMAN	solute carrier family 6 (neurotransmitter	137	Helical; Name=3; (Potential).				cellular nitrogen compound metabolic process|neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(10;0.0172)|all_epithelial(11;0.0283)|all_lung(10;0.0392)|Lung NSC(10;0.0567)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00227)			AGCCCAGGCAAGGATGATGAT	0.507													34	106	---	---	---	---	PASS	T	311986	T	T	311986	3	4	132	1	0	0	0	0	1	0	0	0	14675	72	3	5	1482	5	SLC6A12	12	311986	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08		311986	133539909	214	47494										
CACNA2D4	93589	broad.mit.edu	37	chr12	1988147	1988147	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	accggggcgccagcttcatcAgctctctcagggccacatct	10	16	5	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:1988147A>T	uc001qjp.2	-	15	1850	c.1619T>A	c.(1618-1620)CTG>CAG	p.L540Q	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Missense_Mutation_p.L428Q	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	540	Cache.|Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		CAGCTTCATCAGCTCTCTCAG	0.622													18	48	---	---	---	---	PASS	T	1988147	T	T	1988147	3	4	132	1	0	0	0	0	1	0	0	0	2551	188	7	5	1890	5	CACNA2D4	12	1988147	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	1676161	1988147	131863748	215	47495										
APOBEC1	339	broad.mit.edu	37	chr12	7805076	7805076	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agttactccactgttaacaaGgtccctgagaccttgccgat	8	12	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:7805076G>A	uc001qtb.2	-	3	434	c.400C>T	c.(400-402)CTT>TTT	p.L134F	APOBEC1_uc001qtc.2_Missense_Mutation_p.L89F|APOBEC1_uc010sgf.1_Missense_Mutation_p.L134F	NM_001644	NP_001635	P41238	ABEC1_HUMAN	apolipoprotein B mRNA editing enzyme	134					cytidine to uridine editing|DNA demethylation|lipid metabolic process|mRNA modification|mRNA processing|negative regulation of methylation-dependent chromatin silencing	nucleoplasm	cytidine deaminase activity|RNA binding|zinc ion binding				0						CTGTTAACAAGGTCCCTGAGA	0.423													47	144	---	---	---	---	PASS	A	7805076	A	A	7805076	3	1	132	1	0	0	0	0	1	0	0	0	787	1000	35	3	322	3	APOBEC1	12	7805076	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	5816929	7805076	126046819	216	47496										
ABCD2	225	broad.mit.edu	37	chr12	40012715	40012715	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgtataggaggtcagcattaCatctaaaataggtttggtca	10	5	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:40012715C>A	uc001rmb.2	-	1	1129	c.703G>T	c.(703-705)GTA>TTA	p.V235L		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	235	ABC transmembrane type-1.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						GTCAGCATTACATCTAAAATA	0.473													67	283	---	---	---	---	PASS	A	40012715	A	A	40012715	3	1	132	1	0	0	0	0	1	0	0	0	61	478	17	3	1559	3	ABCD2	12	40012715	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	32207639	40012715	93839180	217	47497										
ADAMTS20	80070	broad.mit.edu	37	chr12	43833798	43833798	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aacagttcttgttccttgcaCattgatttctttttttgacg	6	8	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:43833798C>T	uc010skx.1	-	17	2365	c.2365G>A	c.(2365-2367)GTG>ATG	p.V789M	ADAMTS20_uc001rno.1_5'Flank|ADAMTS20_uc001rnp.1_5'Flank	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	789	Spacer.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		GTTCCTTGCACATTGATTTCT	0.313													8	10	---	---	---	---	PASS	T	43833798	T	T	43833798	3	4	132	1	0	0	0	0	1	0	0	0	266	478	17	3	3458	3	ADAMTS20	12	43833798	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	3821083	43833798	90018097	218	47498										
VDR	7421	broad.mit.edu	37	chr12	48238617	48238617	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aggagaggcagcggtactgcTtggagtgctcctcattgagg	16	8	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:48238617T>A	uc001rqm.2	-	11	1478	c.1196A>T	c.(1195-1197)AAG>ATG	p.K399M	VDR_uc001rql.2_Missense_Mutation_p.K449M|VDR_uc001rqn.2_Missense_Mutation_p.K399M|VDR_uc010slq.1_Missense_Mutation_p.K367M	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	399	Ligand-binding.				decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	GCGGTACTGCTTGGAGTGCTC	0.597													23	36	---	---	---	---	PASS	A	48238617	A	A	48238617	3	1	132	1	0	0	0	0	1	0	0	0	17146	1609	56	5	91	5	VDR	12	48238617	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	4404819	48238617	85613278	219	47499										
CACNB3	784	broad.mit.edu	37	chr12	49217127	49217127	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cagcctctttcccaacccagGgttcagccgactcctacacc	6	19	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:49217127G>T	uc001rsl.1	+	2	247	c.46G>T	c.(46-48)GGT>TGT	p.G16C	CACNB3_uc010slx.1_Missense_Mutation_p.G3C|CACNB3_uc010sly.1_Missense_Mutation_p.G3C|CACNB3_uc010slz.1_Missense_Mutation_p.G15C|CACNB3_uc001rsk.1_5'UTR	NM_000725	NP_000716	P54284	CACB3_HUMAN	calcium channel, voltage-dependent, beta 3	16					axon guidance|membrane depolarization|synaptic transmission	cytosol|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0					Verapamil(DB00661)	CCCAACCCAGGGTTCAGCCGA	0.612													21	47	---	---	---	---	PASS	T	49217127	T	T	49217127	3	4	132	1	0	0	0	0	1	0	0	0	2554	1246	43	3	52	3	CACNB3	12	49217127	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	978510	49217127	84634768	220	47500										
CSRNP2	81566	broad.mit.edu	37	chr12	51470288	51470288	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tctgagttggaaactgatgaGcccacatccacatcatcaaa	7	11	3	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:51470288G>A	uc001rxu.1	-	2	355	c.57C>T	c.(55-57)GGC>GGT	p.G19G		NM_030809	NP_110436	Q9H175	CSRN2_HUMAN	TGF-beta induced apoptosis protein 12	19					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						AAACTGATGAGCCCACATCCA	0.532													48	86	---	---	---	---	PASS	A	51470288	A	A	51470288	2	1	132	1	0	0	0	0	0	0	0	1	3964	958	34	3		3	CSRNP2	12	51470288	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	2253161	51470288	82381607	221	47501										
AGAP2	116986	broad.mit.edu	37	chr12	58126629	58126629	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tggagatcactacactcaccCtcctggaagacccgatccac	7	16	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:58126629C>G	uc001spq.2	-	6	1683	c.1683G>C	c.(1681-1683)GAG>GAC	p.E561D	AGAP2_uc001spp.2_Missense_Mutation_p.E561D|AGAP2_uc001spr.2_Missense_Mutation_p.E225D	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	561	G domain.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						TACACTCACCCTCCTGGAAGA	0.557													186	314	---	---	---	---	PASS	G	58126629	G	G	58126629	3	3	132	1	0	0	0	0	1	0	0	0	368	695	24	4	1951	4	AGAP2	12	58126629	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	6656341	58126629	75725266	222	47502										
NAV3	89795	broad.mit.edu	37	chr12	78571420	78571420	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtcaccccttgtctggccacCaaagaaacgacaaaatggcc	8	14	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:78571420C>G	uc001syp.2	+	28	5491	c.5318C>G	c.(5317-5319)CCA>CGA	p.P1773R	NAV3_uc001syo.2_Intron|NAV3_uc010sub.1_Intron|NAV3_uc009zsf.2_Intron	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1773						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GTCTGGCCACCAAAGAAACGA	0.428										HNSCC(70;0.22)			19	41	---	---	---	---	PASS	G	78571420	G	G	78571420	3	3	132	1	0	0	0	0	1	0	0	0	10185	609	21	4		4	NAV3	12	78571420	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	20444791	78571420	55280475	223	47503										
STAB2	55576	broad.mit.edu	37	chr12	104089529	104089529	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcgcagcaatataatctggcGaatgcaattgaggctgccga	11	9	1	1	rs146946520	byFrequency	TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:104089529G>T	uc001tjw.2	+	33	3675	c.3489G>T	c.(3487-3489)GCG>GCT	p.A1163A		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1163	Extracellular (Potential).|FAS1 4.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						ATAATCTGGCGAATGCAATTG	0.468													37	60	---	---	---	---	PASS	T	104089529	T	T	104089529	2	4	132	1	0	0	0	0	0	0	0	1	15237	1045	37	2		2	STAB2	12	104089529	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	25518109	104089529	29762366	224	47504										
USP30	84749	broad.mit.edu	37	chr12	109523484	109523484	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcattcagctcctccacataCctcttccggctgatggcagt	7	15	3	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:109523484C>T	uc010sxi.1	+	13	1406	c.1302C>T	c.(1300-1302)TAC>TAT	p.Y434Y	USP30_uc001tnu.3_Silent_p.Y403Y|USP30_uc001tnw.3_Silent_p.Y151Y	NM_032663	NP_116052	Q70CQ3	UBP30_HUMAN	ubiquitin specific peptidase 30	434	Cytoplasmic (Potential).				ubiquitin-dependent protein catabolic process	integral to membrane|mitochondrial outer membrane	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(1)	1						CCTCCACATACCTCTTCCGGC	0.453													83	131	---	---	---	---	PASS	T	109523484	T	T	109523484	2	4	132	1	0	0	0	0	0	0	0	1	17058	518	18	3		3	USP30	12	109523484	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	5433955	109523484	24328411	225	47505										
DNAH10	196385	broad.mit.edu	37	chr12	124343715	124343715	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aggtggataaagtggttcaaAtgttcgagaccatgttaacc	11	6	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr12:124343715A>T	uc001uft.3	+	37	6320	c.6295A>T	c.(6295-6297)ATG>TTG	p.M2099L		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2099	AAA 2 (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)		AGTGGTTCAAATGTTCGAGAC	0.443													25	22	---	---	---	---	PASS	T	124343715	T	T	124343715	3	4	132	1	0	0	0	0	1	0	0	0	4598	101	4	5	6441	5	DNAH10	12	124343715	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	14820231	124343715	9508180	226	47506										
PAN3	255967	broad.mit.edu	37	chr13	28841467	28841467	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgcatatgatttccatgctgGaggagaaactatgatgagca	11	6	0	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr13:28841467G>C	uc001urz.2	+	11	1291	c.1283G>C	c.(1282-1284)GGA>GCA	p.G428A	PAN3_uc010tdo.1_Missense_Mutation_p.G574A|PAN3_uc001ury.2_Missense_Mutation_p.G262A|PAN3_uc001urx.2_Missense_Mutation_p.G374A	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	574	Protein kinase.|Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		TTCCATGCTGGAGGAGAAACT	0.388													38	83	---	---	---	---	PASS	C	28841467	C	C	28841467	3	2	132	1	0	0	0	0	1	0	0	0	11415	1174	41	2	1767	2	PAN3	13	28841467	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08		28841467	86328411	227	47507										
TEP1	7011	broad.mit.edu	37	chr14	20837529	20837529	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	acgctgccgtgtctttagatGtggtgttggctcactatcca	11	10	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr14:20837529G>A	uc001vxe.2	-	53	7670	c.7630C>T	c.(7630-7632)CAT>TAT	p.H2544Y	TEP1_uc010ahj.1_RNA|TEP1_uc010ahk.2_Missense_Mutation_p.H1887Y|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.H2436Y	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	2544					telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		GTCTTTAGATGTGGTGTTGGC	0.413													79	88	---	---	---	---	PASS	A	20837529	A	A	20837529	3	1	132	1	0	0	0	0	1	0	0	0	15756	1377	48	3	265	3	TEP1	14	20837529	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08		20837529	86512011	228	47508										
HOMEZ	57594	broad.mit.edu	37	chr14	23746090	23746090	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gagtctcttctatttcttcaGatgaccagctaataccacag	6	11	4	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr14:23746090G>T	uc001wja.2	-	2	495	c.347C>A	c.(346-348)TCT>TAT	p.S116Y	HOMEZ_uc001wjb.2_Missense_Mutation_p.S118Y	NM_020834	NP_065885	Q8IX15	HOMEZ_HUMAN	homeodomain leucine zipper protein	116						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		TATTTCTTCAGATGACCAGCT	0.517													25	281	---	---	---	---	PASS	T	23746090	T	T	23746090	3	4	132	1	0	0	0	0	1	0	0	0	7281	942	33	2	1309	2	HOMEZ	14	23746090	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	2908561	23746090	83603450	229	47509			2	54		3	3	269	G		3.581434e-06
HOMEZ	57594	broad.mit.edu	37	chr14	23746113	23746113	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaccagctaataccacagcgGaggcgctgggccataaacca	11	13	0	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr14:23746113G>A	uc001wja.2	-	2	472	c.324C>T	c.(322-324)CTC>CTT	p.L108L	HOMEZ_uc001wjb.2_Silent_p.L110L	NM_020834	NP_065885	Q8IX15	HOMEZ_HUMAN	homeodomain leucine zipper protein	108	Homeobox 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		TACCACAGCGGAGGCGCTGGG	0.498													43	268	---	---	---	---	PASS	A	23746113	A	A	23746113	2	1	132	1	0	0	0	0	0	0	0	1	7281	1161	41	2		2	HOMEZ	14	23746113	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	23	23746113	83603427	230	47510			2	54		3	3	269	G		3.581434e-06
HOMEZ	57594	broad.mit.edu	37	chr14	23746358	23746358	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	accgctggcctctttattagGaggcatggtgccttctgatt	11	10	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr14:23746358G>A	uc001wja.2	-	2	227	c.79C>T	c.(79-81)CCT>TCT	p.P27S	HOMEZ_uc001wjb.2_Missense_Mutation_p.P29S	NM_020834	NP_065885	Q8IX15	HOMEZ_HUMAN	homeodomain leucine zipper protein	27						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		TCTTTATTAGGAGGCATGGTG	0.517													6	28	---	---	---	---	PASS	A	23746358	A	A	23746358	3	1	132	1	0	0	0	0	1	0	0	0	7281	1174	41	2	1577	2	HOMEZ	14	23746358	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	245	23746358	83603182	231	47511			2	54		3	3	269	G		3.581434e-06
LRFN5	145581	broad.mit.edu	37	chr14	42360618	42360618	+	Nonsense_Mutation	SNP	C	A	A													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaacaggattatgtgcgttgCcatttcatgcagtctcagtt							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr14:42360618C>A	uc001wvm.2	+	4	2749	c.1551C>A	c.(1549-1551)TGC>TGA	p.C517*	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	517	Extracellular (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		ATGTGCGTTGCCATTTCATGC	0.433										HNSCC(30;0.082)			76	324	---	---	---	---	PASS	A	42360618	A	A	42360618	4	1	132	1	0	0	0	0	0	1	0	0	8941	747	26	3	1557	3	LRFN5	14	42360618	Nonsense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	18614260	42360618	64988922	232	47512	872	2								
LRFN5	145581	broad.mit.edu	37	chr14	42360619	42360619	+	Missense_Mutation	SNP	C	T	T													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aacaggattatgtgcgttgcCatttcatgcagtctcagttt							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr14:42360619C>T	uc001wvm.2	+	4	2750	c.1552C>T	c.(1552-1554)CAT>TAT	p.H518Y	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	518	Extracellular (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TGTGCGTTGCCATTTCATGCA	0.438										HNSCC(30;0.082)			76	327	---	---	---	---	PASS	T	42360619	T	T	42360619	3	4	132	1	0	0	0	0	1	0	0	0	8941	594	21	3	1558	3	LRFN5	14	42360619	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	1	42360619	64988921	233	47513	872	2								
SDCCAG1	9147	broad.mit.edu	37	chr14	50266381	50266381	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaagattcctcttttgaagcCaatttctggatggacctatg	9	8	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr14:50266381C>A	uc001wxc.2	-	24	2456	c.2388G>T	c.(2386-2388)TTG>TTT	p.L796F	SDCCAG1_uc010anj.1_Missense_Mutation_p.L796F|SDCCAG1_uc001wwz.2_5'Flank|SDCCAG1_uc001wxa.2_Missense_Mutation_p.L76F|SDCCAG1_uc010tqi.1_Missense_Mutation_p.L775F|SDCCAG1_uc001wxe.2_Missense_Mutation_p.L754F|SDCCAG1_uc001wxd.1_Missense_Mutation_p.L201F	NM_004713	NP_004704	O60524	NEMF_HUMAN	serologically defined colon cancer antigen 1	796						cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)		CTTTTGAAGCCAATTTCTGGA	0.328													23	117	---	---	---	---	PASS	A	50266381	A	A	50266381	3	1	132	1	0	0	0	0	1	0	0	0	13957	593	21	3	882	3	SDCCAG1	14	50266381	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	7905762	50266381	57083159	234	47514										
DPF3	8110	broad.mit.edu	37	chr14	73238591	73238591	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aatggcttccttgtagaactGgtccccgagcctgccagagt	11	12	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr14:73238591G>A	uc001xnc.2	-	2	56	c.43C>T	c.(43-45)CAG>TAG	p.Q15*	DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Nonsense_Mutation_p.Q15*|DPF3_uc010ttq.1_Nonsense_Mutation_p.Q25*	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	15					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		TTGTAGAACTGGTCCCCGAGC	0.587													6	22	---	---	---	---	PASS	A	73238591	A	A	73238591	4	1	132	1	0	0	0	0	0	1	0	0	4718	1357	47	3	1062	3	DPF3	14	73238591	Nonsense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	22972210	73238591	34110949	235	47515										
CYP46A1	10858	broad.mit.edu	37	chr14	100166358	100166358	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgtgtctcctacagactcttCggccaaggcttggtgtccga	11	12	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr14:100166358C>T	uc001ygo.2	+	5	363	c.363C>T	c.(361-363)TTC>TTT	p.F121F	CYP46A1_uc001ygn.1_Silent_p.F83F	NM_006668	NP_006659	Q9Y6A2	CP46A_HUMAN	cytochrome P450, family 46	121					bile acid biosynthetic process|cholesterol catabolic process|nervous system development|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol 24-hydroxylase activity|electron carrier activity|heme binding|steroid hydroxylase activity				0		Melanoma(154;0.0866)|all_epithelial(191;0.179)				ACAGACTCTTCGGCCAAGGCT	0.423													12	57	---	---	---	---	PASS	T	100166358	T	T	100166358	2	4	132	1	0	0	0	0	0	0	0	1	4182	883	31	2		2	CYP46A1	14	100166358	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	26927767	100166358	7183182	236	47516										
DIO3	1735	broad.mit.edu	37	chr14	102028122	102028122	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gcgaggaggtgcctcccgatGacccgcccatctgcgtgtcc	13	16	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr14:102028122G>A	uc010txq.1	+	1	435	c.211G>A	c.(211-213)GAC>AAC	p.D71N	DIO3OS_uc001ykd.1_5'Flank|uc001yke.2_5'Flank|uc001ykf.2_5'Flank|uc001ykg.2_5'Flank|uc001ykh.3_5'Flank|MIR1247_hsa-mir-1247|MI0006382_5'Flank	NM_001362	NP_001353	P55073	IOD3_HUMAN	deiodinase, iodothyronine, type III	71	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process	endosome membrane|integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|thyroxine 5-deiodinase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(303;0.185)				GCCTCCCGATGACCCGCCCAT	0.642													12	78	---	---	---	---	PASS	A	102028122	A	A	102028122	3	1	132	1	0	0	0	0	1	0	0	0	4526	1290	45	2	291	2	DIO3	14	102028122	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	1861764	102028122	5321418	237	47517										
PACS2	23241	broad.mit.edu	37	chr14	105849743	105849743	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccccgtgaagatcgccgtggCgggagcgcagcattacctca	13	14	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr14:105849743C>T	uc001yqt.2	+	16	1836	c.1661C>T	c.(1660-1662)GCG>GTG	p.A554V	PACS2_uc001yqs.2_Missense_Mutation_p.A479V|PACS2_uc001yqv.2_Missense_Mutation_p.A558V|PACS2_uc001yqu.2_Missense_Mutation_p.A558V	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	554					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		ATCGCCGTGGCGGGAGCGCAG	0.642													16	63	---	---	---	---	PASS	T	105849743	T	T	105849743	3	4	132	1	0	0	0	0	1	0	0	0	11373	768	27	1	1735	1	PACS2	14	105849743	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	3821621	105849743	1499797	238	47518										
SPRED1	161742	broad.mit.edu	37	chr15	38591692	38591692	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcttcaaagtccctcatcagGaagagaatggctgtgctgac	10	10	4	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr15:38591692G>T	uc001zka.3	+	2	486	c.151G>T	c.(151-153)GAA>TAA	p.E51*		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	51	WH1.				inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		CCCTCATCAGGAAGAGAATGG	0.438									Legius_syndrome				37	78	---	---	---	---	PASS	T	38591692	T	T	38591692	4	4	132	1	0	0	0	0	0	1	0	0	15091	1175	41	2	157	2	SPRED1	15	38591692	Nonsense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08		38591692	63939700	239	47519										
FRMD5	84978	broad.mit.edu	37	chr15	44211710	44211710	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gcaggataaaacttcacacgGaagcacatggtgaatggagg	13	7	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr15:44211710G>A	uc001ztl.2	-	4	453	c.276C>T	c.(274-276)TTC>TTT	p.F92F	FRMD5_uc001ztk.1_Silent_p.F3F|FRMD5_uc001ztm.2_5'UTR|FRMD5_uc001ztn.2_5'UTR	NM_032892	NP_116281	Q7Z6J6	FRMD5_HUMAN	FERM domain containing 5 isoform 2	92	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(109;2.29e-15)|all_epithelial(112;9.98e-13)|Lung NSC(122;4.89e-08)|all_lung(180;5.08e-07)|Melanoma(134;0.0275)		all cancers(107;8.63e-20)|GBM - Glioblastoma multiforme(94;3.63e-06)		ACTTCACACGGAAGCACATGG	0.522													95	160	---	---	---	---	PASS	A	44211710	A	A	44211710	2	1	132	1	0	0	0	0	0	0	0	1	6053	1165	41	2		2	FRMD5	15	44211710	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	5620018	44211710	58319682	240	47520										
IGDCC3	9543	broad.mit.edu	37	chr15	65628268	65628268	+	Frame_Shift_Del	DEL	G	-	-													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ctcctcacccacggtggcctGgggatgcacgtggaagtccg							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr15:65628268delG	uc002aos.2	-	3	688	c.436delC	c.(436-438)CAGfs	p.Q146fs		NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	146	Extracellular (Potential).|Ig-like C2-type 2.									ovary(3)	3						ACGGTGGCCTGGGGATGCACG	0.597													56	37	---	---	---	---		-	65628268	-	-	65628268	7	5	132	1	0	1	0	1	0	0	0	0	7568	1357	47	0	2056	0	IGDCC3	15	65628268	Frame_Shift_Del	DEL	G	TCGA-60-2723-01A-01D-1522-08	21416558	65628268	36903124	241	47521										
CYP11A1	1583	broad.mit.edu	37	chr15	74637456	74637456	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cggagcccgccttcttgatgCgcctgtgcaggacactgacg	13	14	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr15:74637456C>T	uc002axt.2	-	3	709	c.554G>A	c.(553-555)CGC>CAC	p.R185H	CYP11A1_uc002axs.2_Missense_Mutation_p.R27H|CYP11A1_uc010bjm.1_Missense_Mutation_p.R27H|CYP11A1_uc010bjn.1_RNA|CYP11A1_uc010bjo.1_Missense_Mutation_p.R185H|CYP11A1_uc010bjp.1_5'Flank|CYP11A1_uc010ulj.1_Intron|CYP11A1_uc010bjq.2_Missense_Mutation_p.R185H	NM_000781	NP_000772	P05108	CP11A_HUMAN	cytochrome P450, family 11, subfamily A,	185					C21-steroid hormone biosynthetic process|cholesterol metabolic process|vitamin D metabolic process|xenobiotic metabolic process	mitochondrial matrix	cholesterol monooxygenase (side-chain-cleaving) activity|electron carrier activity|heme binding			ovary(2)	2					Aminoglutethimide(DB00357)|Cholecalciferol(DB00169)|Cimetidine(DB00501)|Clotrimazole(DB00257)|Digitoxin(DB01396)|Digoxin(DB00390)|Medroxyprogesterone(DB00603)|Ouabain(DB01092)|Progesterone(DB00396)|Testosterone(DB00624)|Trilostane(DB01108)	CTTCTTGATGCGCCTGTGCAG	0.582													4	82	---	---	---	---	PASS	T	74637456	T	T	74637456	3	4	132	1	0	0	0	0	1	0	0	0	4144	768	27	1	1039	1	CYP11A1	15	74637456	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	9009188	74637456	27893936	242	47522										
RCN2	5955	broad.mit.edu	37	chr15	77236139	77236139	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gcgatttgaaaaagctaaccAggattcaggtcccggtttga	11	8	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr15:77236139A>G	uc002bcd.2	+	4	709	c.488A>G	c.(487-489)CAG>CGG	p.Q163R	RCN2_uc002bce.2_Missense_Mutation_p.Q235R|RCN2_uc010bks.2_Missense_Mutation_p.Q116R	NM_002902	NP_002893	Q14257	RCN2_HUMAN	reticulocalbin 2 precursor	163	EF-hand 3.|3; possibly ancestral (Potential).					endoplasmic reticulum lumen	calcium ion binding				0						AAAGCTAACCAGGATTCAGGT	0.308													18	60	---	---	---	---	PASS	G	77236139	G	G	77236139	3	3	132	1	0	0	0	0	1	0	0	0	13180	188	7	5	502	5	RCN2	15	77236139	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	2598683	77236139	25295253	243	47523										
AGPHD1	123688	broad.mit.edu	37	chr15	78805425	78805425	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgttgctttttgttcccctaGacataatgtcaagtggaaac	8	8	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr15:78805425G>T	uc010unc.1	+	2	109	c.-4_splice	c.e2-1		AGPHD1_uc002bdt.2_Splice_Site|AGPHD1_uc010ble.2_Splice_Site	NM_001013619	NP_001013641	A2RU49	AGPD1_HUMAN	aminoglycoside phosphotransferase domain							cytoplasm	kinase activity				0						TGTTCCCCTAGACATAATGTC	0.398													3	49	---	---	---	---	PASS	T	78805425	T	T	78805425	5	4	132	1	0	0	0	0	0	0	1	0	393	956	33	2		2	AGPHD1	15	78805425	Splice_Site	SNP	G	TCGA-60-2723-01A-01D-1522-08	1569286	78805425	23725967	244	47524										
ACSM1	116285	broad.mit.edu	37	chr16	20693666	20693666	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agaggggcactgagaagctaTggagtccacctctgaggcaa	14	9	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr16:20693666T>C	uc002dhm.1	-	3	591	c.523A>G	c.(523-525)ATA>GTA	p.I175V	ACSM1_uc002dhn.1_RNA|ACSM1_uc010bwg.1_Missense_Mutation_p.I175V	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	175					benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						TGAGAAGCTATGGAGTCCACC	0.522													38	62	---	---	---	---	PASS	C	20693666	C	C	20693666	3	2	132	1	0	0	0	0	1	0	0	0	182	1464	51	5	1254	5	ACSM1	16	20693666	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08		20693666	69661087	245	47525										
DNAH3	55567	broad.mit.edu	37	chr16	21078624	21078624	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ctggggaagaatagtctcttCttctccaagtaatcattcag	8	9	5	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr16:21078624C>A	uc010vbe.1	-	24	3498	c.3498G>T	c.(3496-3498)AAG>AAT	p.K1166N		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1166	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ATAGTCTCTTCTTCTCCAAGT	0.438													20	75	---	---	---	---	PASS	A	21078624	A	A	21078624	3	1	132	1	0	0	0	0	1	0	0	0	4603	912	32	2	9007	2	DNAH3	16	21078624	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	384958	21078624	69276129	246	47526										
CNTNAP4	85445	broad.mit.edu	37	chr16	76587245	76587245	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gcttcacaggctgcctctctGcagtgcagctcagccacgtg	11	15	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr16:76587245G>A	uc002feu.1	+	24	3893	c.3508G>A	c.(3508-3510)GCA>ACA	p.A1170T	CNTNAP4_uc002fev.1_Missense_Mutation_p.A1034T|CNTNAP4_uc010chb.1_Missense_Mutation_p.A1097T|CNTNAP4_uc002fex.1_Missense_Mutation_p.A1173T	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	1170	Extracellular (Potential).|Laminin G-like 4.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						CTGCCTCTCTGCAGTGCAGCT	0.547													4	10	---	---	---	---	PASS	A	76587245	A	A	76587245	3	1	132	1	0	0	0	0	1	0	0	0	3649	1319	46	3	3607	3	CNTNAP4	16	76587245	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	55508621	76587245	13767508	247	47527										
FAM101B	359845	broad.mit.edu	37	chr17	293122	293122	+	Missense_Mutation	SNP	G	C	C													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggtactgaggaagcgggtggGcctgtggcgtggctcgaagc							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:293122G>C	uc002frj.2	-	2	542	c.268C>G	c.(268-270)CCC>GCC	p.P90A		NM_182705	NP_874364	Q8N5W9	F101B_HUMAN	hypothetical protein LOC359845	160											0		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.0216)		AAGCGGGTGGGCCTGTGGCGT	0.642													10	36	---	---	---	---	PASS	C	293122	C	C	293122	3	2	132	1	0	0	0	0	1	0	0	0	5381	1203	42	4	170	4	FAM101B	17	293122	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08		293122	80902088	248	47528	873	2								
FAM101B	359845	broad.mit.edu	37	chr17	293123	293123	+	Missense_Mutation	SNP	C	A	A													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtactgaggaagcgggtgggCctgtggcgtggctcgaagcg							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:293123C>A	uc002frj.2	-	2	541	c.267G>T	c.(265-267)AGG>AGT	p.R89S		NM_182705	NP_874364	Q8N5W9	F101B_HUMAN	hypothetical protein LOC359845	159											0		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.0216)		AGCGGGTGGGCCTGTGGCGTG	0.642													10	36	---	---	---	---	PASS	A	293123	A	A	293123	3	1	132	1	0	0	0	0	1	0	0	0	5381	738	26	3	171	3	FAM101B	17	293123	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	1	293123	80902087	249	47529	873	2								
TP53	7157	broad.mit.edu	37	chr17	7578176	7578176	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaccccagttgcaaaccagaCctcaggcggctcatagggca	11	14	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:7578176C>A	uc002gim.2	-	6	866	c.672_splice	c.e6+1	p.E224_splice	TP53_uc002gig.1_Splice_Site_p.E224_splice|TP53_uc002gih.2_Splice_Site_p.E224_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Splice_Site_p.E92_splice|TP53_uc010cng.1_Splice_Site_p.E92_splice|TP53_uc002gii.1_Splice_Site_p.E92_splice|TP53_uc010cnh.1_Splice_Site_p.E224_splice|TP53_uc010cni.1_Splice_Site_p.E224_splice|TP53_uc002gij.2_Splice_Site_p.E224_splice|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Splice_Site_p.E131_splice|TP53_uc002gio.2_Splice_Site_p.E92_splice|TP53_uc010vug.1_Missense_Mutation_p.V186F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						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.?(26)|p.0?(7)|p.V225fs*24(1)|p.E224_V225insXX(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)		GCAAACCAGACCTCAGGCGGC	0.517		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)			13	37	---	---	---	---	PASS	A	7578176	A	A	7578176	5	1	132	1	0	0	0	0	0	0	1	0	16378	521	18	3	621	3	TP53	17	7578176	Splice_Site	SNP	C	TCGA-60-2723-01A-01D-1522-08	7285053	7578176	73617034	250	47530										
CNTROB	116840	broad.mit.edu	37	chr17	7836605	7836605	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cgcctcatgaagggttagacGgcttcgcccaagaattgagt	12	10	1	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:7836605G>C	uc002gjq.2	+	2	1127	c.208G>C	c.(208-210)GGC>CGC	p.G70R	TRAPPC1_uc002gjo.1_5'Flank|CNTROB_uc002gjp.2_Missense_Mutation_p.G70R|CNTROB_uc002gjr.2_5'Flank	NM_053051	NP_444279	Q8N137	CNTRB_HUMAN	centrobin, centrosomal BRCA2 interacting protein	70					centriole replication|centrosome separation|cytokinesis	centriole	protein domain specific binding			breast(1)|central_nervous_system(1)	2		Prostate(122;0.173)				AGGGTTAGACGGCTTCGCCCA	0.562													16	109	---	---	---	---	PASS	C	7836605	C	C	7836605	3	2	132	1	0	0	0	0	1	0	0	0	3651	1116	39	4	210	4	CNTROB	17	7836605	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	258429	7836605	73358605	251	47531										
MYH13	8735	broad.mit.edu	37	chr17	10212613	10212613	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ctcctgctctgacagcctgcGggtccgctccgtctgttcca	10	17	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:10212613G>T	uc002gmk.1	-	35	5197	c.5107C>A	c.(5107-5109)CGC>AGC	p.R1703S		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1703	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GACAGCCTGCGGGTCCGCTCC	0.667													21	20	---	---	---	---	PASS	T	10212613	T	T	10212613	3	4	132	1	0	0	0	0	1	0	0	0	10032	1116	39	1	737	1	MYH13	17	10212613	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	2376008	10212613	70982597	252	47532										
MYH13	8735	broad.mit.edu	37	chr17	10222343	10222343	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ctcagcctccctcttcttgtTcatctcaatctgggctgaag	7	14	6	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:10222343T>C	uc002gmk.1	-	27	3592	c.3502A>G	c.(3502-3504)AAC>GAC	p.N1168D		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1168	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						CTCTTCTTGTTCATCTCAATC	0.582													94	152	---	---	---	---	PASS	C	10222343	C	C	10222343	3	2	132	1	0	0	0	0	1	0	0	0	10032	1783	62	5	2374	5	MYH13	17	10222343	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	9730	10222343	70972867	253	47533										
MYH4	4622	broad.mit.edu	37	chr17	10351439	10351439	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgccttcttcatgctcaagaGatgccttaataaaagcaaca	6	10	3	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:10351439G>A	uc002gmn.2	-	34	4772	c.4661C>T	c.(4660-4662)TCT>TTT	p.S1554F	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1554	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						ATGCTCAAGAGATGCCTTAAT	0.328													37	66	---	---	---	---	PASS	A	10351439	A	A	10351439	3	1	132	1	0	0	0	0	1	0	0	0	10037	942	33	2	1186	2	MYH4	17	10351439	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	129096	10351439	70843771	254	47534										
MYH1	4619	broad.mit.edu	37	chr17	10401147	10401147	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcaacttcattctggagcctCtgcttcgtcttctcaaggga	8	12	6	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:10401147C>G	uc002gmo.2	-	31	4363	c.4269G>C	c.(4267-4269)CAG>CAC	p.Q1423H	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1423	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TCTGGAGCCTCTGCTTCGTCT	0.473													20	103	---	---	---	---	PASS	G	10401147	G	G	10401147	3	3	132	1	0	0	0	0	1	0	0	0	10029	912	32	2	1590	2	MYH1	17	10401147	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	49708	10401147	70794063	255	47535										
DNAH9	1770	broad.mit.edu	37	chr17	11833311	11833311	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccctcccctgagggccacatCatcccccagggcatcctgga	9	19	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:11833311C>G	uc002gne.2	+	63	12074	c.12006C>G	c.(12004-12006)ATC>ATG	p.I4002M	DNAH9_uc010coo.2_Intron|DNAH9_uc002gnf.2_Missense_Mutation_p.I314M	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	4002	AAA 6 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AGGGCCACATCATCCCCCAGG	0.592													24	35	---	---	---	---	PASS	G	11833311	G	G	11833311	3	3	132	1	0	0	0	0	1	0	0	0	4608	816	29	2	12256	2	DNAH9	17	11833311	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	1432164	11833311	69361899	256	47536										
ULK2	9706	broad.mit.edu	37	chr17	19687201	19687201	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	catggcacaaagagagccccCggagttgctgggccccacta	12	14	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:19687201C>A	uc002gwm.3	-	22	2778	c.2269G>T	c.(2269-2271)GGG>TGG	p.G757W	ULK2_uc002gwn.2_Missense_Mutation_p.G757W	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	757					signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					AGAGAGCCCCCGGAGTTGCTG	0.592													22	26	---	---	---	---	PASS	A	19687201	A	A	19687201	3	1	132	1	0	0	0	0	1	0	0	0	16973	652	23	1	865	1	ULK2	17	19687201	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	7853890	19687201	61508009	257	47537										
MED1	5469	broad.mit.edu	37	chr17	37564132	37564132	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tggtgacttactatggctggGagagccacgctcatgctttg	13	9	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:37564132G>C	uc002hrv.3	-	17	4554	c.4342C>G	c.(4342-4344)CCC>GCC	p.P1448A	MED1_uc010wee.1_Missense_Mutation_p.P1276A|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1448	Ser-rich.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		CTATGGCTGGGAGAGCCACGC	0.488										HNSCC(31;0.082)			30	35	---	---	---	---	PASS	C	37564132	C	C	37564132	3	2	132	1	0	0	0	0	1	0	0	0	9425	1174	41	2	407	2	MED1	17	37564132	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	17876931	37564132	43631078	258	47538										
ERBB2	2064	broad.mit.edu	37	chr17	37866733	37866733	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agctgtgtgactgcctgtccCtgtgagtgccagggagaaac	14	10	0	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:37866733C>T	uc002hso.2	+	7	1138	c.900C>T	c.(898-900)CCC>CCT	p.P300P	ERBB2_uc002hsm.2_Silent_p.P270P|ERBB2_uc010cwa.2_Silent_p.P285P|ERBB2_uc002hsp.2_Silent_p.P103P|ERBB2_uc010cwb.2_Silent_p.P300P|ERBB2_uc010wek.1_Intron|ERBB2_uc002hsl.2_Silent_p.P270P|ERBB2_uc002hsn.1_Silent_p.P300P	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	300	Extracellular (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	CTGCCTGTCCCTGTGAGTGCC	0.537		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			29	34	---	---	---	---	PASS	T	37866733	T	T	37866733	2	4	132	1	0	0	0	0	0	0	0	1	5206	695	24	3		3	ERBB2	17	37866733	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	302601	37866733	43328477	259	47539										
LRRC37A2	474170	broad.mit.edu	37	chr17	44626194	44626194	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgagaagttagcgggaaacgCcgtctacaccaagccttcct	10	12	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:44626194C>A	uc002ikn.1	+	9	3692	c.3689C>A	c.(3688-3690)GCC>GAC	p.A1230D	ARL17A_uc002iko.3_Intron|LRRC37A2_uc002ikq.1_Missense_Mutation_p.A191D|LRRC37A2_uc010dax.1_Missense_Mutation_p.A160D	NM_001006607	NP_001006608	A6NM11	L37A2_HUMAN	c114 SLIT-like testicular protein precursor	1230	Extracellular (Potential).					integral to membrane					0		Melanoma(429;0.211)		BRCA - Breast invasive adenocarcinoma(366;0.232)		GCGGGAAACGCCGTCTACACC	0.587													54	266	---	---	---	---	PASS	A	44626194	A	A	44626194	3	1	132	1	0	0	0	0	1	0	0	0	8992	739	26	3	3723	3	LRRC37A2	17	44626194	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	6759461	44626194	36569016	260	47540										
SAMD14	201191	broad.mit.edu	37	chr17	48191655	48191655	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gctggggggcgtggagtcatCactcagagtggattcctaga	16	8	3	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:48191655C>T	uc002iqg.2	-	8	1137	c.838G>A	c.(838-840)GAT>AAT	p.D280N	SAMD14_uc002iqd.2_Missense_Mutation_p.D63N|SAMD14_uc002iqe.2_Missense_Mutation_p.D63N|SAMD14_uc002iqf.2_Missense_Mutation_p.D308N	NM_174920	NP_777580	Q8IZD0	SAM14_HUMAN	sterile alpha motif domain containing 14	280											0						GTGGAGTCATCACTCAGAGTG	0.577													22	41	---	---	---	---	PASS	T	48191655	T	T	48191655	3	4	132	1	0	0	0	0	1	0	0	0	13819	826	29	2	427	2	SAMD14	17	48191655	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	3565461	48191655	33003555	261	47541										
SOX9	6662	broad.mit.edu	37	chr17	70119805	70119805	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggcagacagccccctatcgaCttccgcgacgtggacatcgg	12	15	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:70119805C>A	uc002jiw.2	+	3	1179	c.807C>A	c.(805-807)GAC>GAA	p.D269E	uc002jiv.2_5'Flank	NM_000346	NP_000337	P48436	SOX9_HUMAN	transcription factor SOX9	269					cAMP-mediated signaling|negative regulation of transcription, DNA-dependent|positive regulation of branching involved in ureteric bud morphogenesis|protein complex assembly|renal vesicle induction	nucleus|protein complex	core promoter sequence-specific DNA binding|enhancer binding|protein kinase A catalytic subunit binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription				0		Colorectal(1115;0.245)	STAD - Stomach adenocarcinoma(260;0.119)			CCCCTATCGACTTCCGCGACG	0.652													4	162	---	---	---	---	PASS	A	70119805	A	A	70119805	3	1	132	1	0	0	0	0	1	0	0	0	14958	564	20	3	817	3	SOX9	17	70119805	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	21928150	70119805	11075405	262	47542										
CD300LF	146722	broad.mit.edu	37	chr17	72691910	72691910	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggtcaacctgggcagaggaaAgcttcgtggtagccttttgc	14	9	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:72691910A>T	uc002jlg.2	-	6	774	c.671T>A	c.(670-672)CTT>CAT	p.L224H	RAB37_uc002jlc.2_Intron|RAB37_uc010dfu.2_Intron|RAB37_uc002jld.2_Intron|CD300LF_uc002jlf.2_Missense_Mutation_p.L227H|CD300LF_uc010dfw.2_RNA|CD300LF_uc002jlh.2_Silent_p.A239A|CD300LF_uc002jli.2_Silent_p.A189A|CD300LF_uc010wra.1_Missense_Mutation_p.L239H|CD300LF_uc002jlj.1_Silent_p.A234A	NM_139018	NP_620587	Q8TDQ1	CLM1_HUMAN	NK inhibitory receptor precursor	224	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			upper_aerodigestive_tract(1)	1						GGCAGAGGAAAGCTTCGTGGT	0.637													55	44	---	---	---	---	PASS	T	72691910	T	T	72691910	3	4	132	1	0	0	0	0	1	0	0	0	3001	72	3	5	209	5	CD300LF	17	72691910	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	2572105	72691910	8503300	263	47543										
EVPL	2125	broad.mit.edu	37	chr17	74023265	74023265	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttcccctgggagcctttgctCagccccttgaacatggtcgt	10	14	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr17:74023265C>A	uc002jqi.2	-	1	243	c.15G>T	c.(13-15)CTG>CTT	p.L5L	EVPL_uc010wss.1_Silent_p.L5L|EVPL_uc010wst.1_5'UTR	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	5	Globular 1.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						AGCCTTTGCTCAGCCCCTTGA	0.493													23	22	---	---	---	---	PASS	A	74023265	A	A	74023265	2	1	132	1	0	0	0	0	0	0	0	1	5292	813	29	2		2	EVPL	17	74023265	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	1331355	74023265	7171945	264	47544										
CDH2	1000	broad.mit.edu	37	chr18	25589781	25589781	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cagttggaggctggtcagctCctggcccagttacactgtac	12	12	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr18:25589781C>G	uc002kwg.2	-	5	1061	c.602G>C	c.(601-603)GGA>GCA	p.G201A	CDH2_uc010xbn.1_Missense_Mutation_p.G170A	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	201	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						CTGGTCAGCTCCTGGCCCAGT	0.483													35	100	---	---	---	---	PASS	G	25589781	G	G	25589781	3	3	132	1	0	0	0	0	1	0	0	0	3105	855	30	2	2166	2	CDH2	18	25589781	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08		25589781	52487467	265	47545										
DCC	1630	broad.mit.edu	37	chr18	49867170	49867170	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gctgaaatatggagaatagtCttagatgtgtttgggtaccc	12	5	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr18:49867170C>G	uc002lfe.1	+	1	600	c.13C>G	c.(13-15)CTT>GTT	p.L5V		NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	5					apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		GGAGAATAGTCTTAGATGTGT	0.413													59	156	---	---	---	---	PASS	G	49867170	G	G	49867170	3	3	132	1	0	0	0	0	1	0	0	0	4282	913	32	2	15	2	DCC	18	49867170	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	24277389	49867170	28210078	266	47546										
SHC2	25759	broad.mit.edu	37	chr19	440878	440878	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcacctggtcacctgcgtgcGcgtgttaaagtccagggagc	13	12	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:440878G>A	uc002loq.3	-	2	523	c.523C>T	c.(523-525)CGC>TGC	p.R175C	SHC2_uc002lop.3_5'Flank	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	175	PID.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACCTGCGTGCGCGTGTTAAAG	0.647													45	54	---	---	---	---	PASS	A	440878	A	A	440878	3	1	132	1	0	0	0	0	1	0	0	0	14271	1087	38	1	1269	1	SHC2	19	440878	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08		440878	58688105	267	47547										
TLE6	79816	broad.mit.edu	37	chr19	2989088	2989088	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccctgaggactttgaagatgCatggaagaggccagatgcct	13	9	0	5			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:2989088C>T	uc002lwu.2	+	11	801	c.401C>T	c.(400-402)GCA>GTA	p.A134V	TLE6_uc002lwt.2_Missense_Mutation_p.A257V|TLE6_uc010dtg.2_Missense_Mutation_p.A257V|TLE6_uc002lwv.2_Missense_Mutation_p.A38V	NM_024760	NP_079036	Q9H808	TLE6_HUMAN	transducin-like enhancer of split 6 isoform 2	134					regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTTGAAGATGCATGGAAGAGG	0.592													33	36	---	---	---	---	PASS	T	2989088	T	T	2989088	3	4	132	1	0	0	0	0	1	0	0	0	15939	710	25	3	812	3	TLE6	19	2989088	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	2548210	2989088	56139895	268	47548										
CD209	30835	broad.mit.edu	37	chr19	7812352	7812352	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gcgtcccaacccagcctcacCcaggaggcccagctgctgca	10	19	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:7812352C>A	uc002mht.2	-	1	113	c.46G>T	c.(46-48)GAG>TAG	p.E16*	CD209_uc010xju.1_Nonsense_Mutation_p.E16*|CD209_uc010dvp.2_5'UTR|CD209_uc002mhr.2_5'UTR|CD209_uc002mhs.2_5'UTR|CD209_uc002mhu.2_Nonsense_Mutation_p.E16*|CD209_uc010dvq.2_Nonsense_Mutation_p.E16*|CD209_uc002mhq.2_5'UTR|CD209_uc002mhv.2_Nonsense_Mutation_p.E16*|CD209_uc002mhx.2_Missense_Mutation_p.V16L|CD209_uc002mhw.2_Missense_Mutation_p.V16L|CD209_uc010dvr.2_Nonsense_Mutation_p.E16*	NM_021155	NP_066978	Q9NNX6	CD209_HUMAN	CD209 molecule isoform 1	16	Endocytosis signal (Potential).|Cytoplasmic (Probable).				cell-cell recognition|endocytosis|heterophilic cell-cell adhesion|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to membrane|plasma membrane	mannose binding|metal ion binding|peptide antigen binding|receptor activity|virion binding			skin(1)	1						CCAGCCTCACCCAGGAGGCCC	0.597													97	176	---	---	---	---	PASS	A	7812352	A	A	7812352	4	1	132	1	0	0	0	0	0	1	0	0	2984	637	22	3	1196	3	CD209	19	7812352	Nonsense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	4823264	7812352	51316631	269	47549										
ZNF561	93134	broad.mit.edu	37	chr19	9721953	9721953	+	Missense_Mutation	SNP	C	A	A													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gtcttaaggcaaaactgttcCctgaagacctctccacaatt							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:9721953C>A	uc002mlu.2	-	6	589	c.384G>T	c.(382-384)AGG>AGT	p.R128S	ZNF561_uc010dwu.2_Missense_Mutation_p.R59S|ZNF561_uc010xkr.1_5'UTR	NM_152289	NP_689502	Q8N587	ZN561_HUMAN	zinc finger protein 561	128	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAAACTGTTCCCTGAAGACCT	0.418													43	104	---	---	---	---	PASS	A	9721953	A	A	9721953	3	1	132	1	0	0	0	0	1	0	0	0	17989	622	22	3	1080	3	ZNF561	19	9721953	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	1909601	9721953	49407030	270	47550	874	2								
ZNF561	93134	broad.mit.edu	37	chr19	9721954	9721954	+	Missense_Mutation	SNP	C	A	A													0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcttaaggcaaaactgttccCtgaagacctctccacaattc							TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:9721954C>A	uc002mlu.2	-	6	588	c.383G>T	c.(382-384)AGG>ATG	p.R128M	ZNF561_uc010dwu.2_Missense_Mutation_p.R59M|ZNF561_uc010xkr.1_Translation_Start_Site	NM_152289	NP_689502	Q8N587	ZN561_HUMAN	zinc finger protein 561	128	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAACTGTTCCCTGAAGACCTC	0.413													43	105	---	---	---	---	PASS	A	9721954	A	A	9721954	3	1	132	1	0	0	0	0	1	0	0	0	17989	681	24	3	1081	3	ZNF561	19	9721954	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	1	9721954	49407029	271	47551	874	2								
KEAP1	9817	broad.mit.edu	37	chr19	10602887	10602887	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	caggtcgtcccggctgatgaGggtcaccagttggcagtggg	17	10	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:10602887G>C	uc002moq.1	-	3	847	c.691C>G	c.(691-693)CTC>GTC	p.L231V	KEAP1_uc002mop.1_5'UTR|KEAP1_uc002mor.1_Missense_Mutation_p.L231V	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	231	BACK.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CGGCTGATGAGGGTCACCAGT	0.612													32	49	---	---	---	---	PASS	C	10602887	C	C	10602887	3	2	132	1	0	0	0	0	1	0	0	0	8141	1000	35	4	1199	4	KEAP1	19	10602887	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	880933	10602887	48526096	272	47552										
PIK3R2	5296	broad.mit.edu	37	chr19	18279624	18279624	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agatcaaccgcacgcaggcaGaggagatgctgagtggcaag	15	9	1	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:18279624G>A	uc002nia.1	+	15	2409	c.1897G>A	c.(1897-1899)GAG>AAG	p.E633K	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	633	SH2 2.				fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						CACGCAGGCAGAGGAGATGCT	0.657													12	28	---	---	---	---	PASS	A	18279624	A	A	18279624	3	1	132	1	0	0	0	0	1	0	0	0	11919	943	33	2	1951	2	PIK3R2	19	18279624	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	7676737	18279624	40849359	273	47553										
TM6SF2	53345	broad.mit.edu	37	chr19	19377390	19377390	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aggcagccaggccgcagaaaGgcaggacataaaacatgtac	12	10	0	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:19377390G>T	uc002nmd.1	-	9	883	c.833C>A	c.(832-834)CCT>CAT	p.P278H	HAPLN4_uc002nmc.2_5'UTR	NM_001001524	NP_001001524	Q9BZW4	TM6S2_HUMAN	transmembrane 6 superfamily member 2	278	Helical; (Potential).					integral to membrane					0			Epithelial(12;0.0151)			GCCGCAGAAAGGCAGGACATA	0.612													4	62	---	---	---	---	PASS	T	19377390	T	T	19377390	3	4	132	1	0	0	0	0	1	0	0	0	15970	1000	35	3	308	3	TM6SF2	19	19377390	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	1097766	19377390	39751593	274	47554										
ZNF676	163223	broad.mit.edu	37	chr19	22363828	22363828	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggatcgattaaaagctttgcCacattcttcacatttgtagg	8	8	2	0	rs149990770	by1000genomes	TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:22363828C>A	uc002nqs.1	-	3	1009	c.691G>T	c.(691-693)GGC>TGC	p.G231C		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	231	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				AAAGCTTTGCCACATTCTTCA	0.353													11	169	---	---	---	---	PASS	A	22363828	A	A	22363828	3	1	132	1	0	0	0	0	1	0	0	0	18080	594	21	3	1079	3	ZNF676	19	22363828	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	2986438	22363828	36765155	275	47555										
ZNF99	7652	broad.mit.edu	37	chr19	22942386	22942386	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttttcttaatcgtaaattctTatgtccacatcttgcatatg	4	8	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:22942386T>A	uc010xrh.1	-	4	388	c.388A>T	c.(388-390)AAG>TAG	p.K130*		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)				CGTAAATTCTTATGTCCACAT	0.338													27	55	---	---	---	---	PASS	A	22942386	A	A	22942386	4	1	132	1	0	0	0	0	0	1	0	0	18201	1763	61	5	2740	5	ZNF99	19	22942386	Nonsense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	578558	22942386	36186597	276	47556										
ZNF536	9745	broad.mit.edu	37	chr19	30935603	30935603	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gagcactgctgccagatctgCggccggcgcttcaaggagcc	14	14	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:30935603C>T	uc002nsu.1	+	2	1272	c.1134C>T	c.(1132-1134)TGC>TGT	p.C378C	ZNF536_uc010edd.1_Silent_p.C378C	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	378	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCCAGATCTGCGGCCGGCGCT	0.602													44	92	---	---	---	---	PASS	T	30935603	T	T	30935603	2	4	132	1	0	0	0	0	0	0	0	1	17971	776	27	1		1	ZNF536	19	30935603	Silent	SNP	C	TCGA-60-2723-01A-01D-1522-08	7993217	30935603	28193380	277	47557										
WDR88	126248	broad.mit.edu	37	chr19	33642152	33642152	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gccagagggtggcttctgtcTcattggacaggtgcatcaag	14	9	3	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:33642152T>G	uc002nui.2	+	6	823	c.745T>G	c.(745-747)TCA>GCA	p.S249A		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	249	WD 4.									ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					GGCTTCTGTCTCATTGGACAG	0.552													3	30	---	---	---	---	PASS	G	33642152	G	G	33642152	3	3	132	1	0	0	0	0	1	0	0	0	17332	1551	54	5	767	5	WDR88	19	33642152	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	2706549	33642152	25486831	278	47558										
DMKN	93099	broad.mit.edu	37	chr19	36004081	36004081	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agagcatgggctgcttccccGaccctgttgcccaaagcatc	10	15	0	1	rs61742823	byFrequency	TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:36004081G>T	uc002nzm.3	-	1	480	c.297C>A	c.(295-297)GTC>GTA	p.V99V	DMKN_uc002nzj.2_5'Flank|DMKN_uc002nzk.3_5'Flank|DMKN_uc002nzl.3_5'Flank|DMKN_uc002nzo.3_Silent_p.V99V|DMKN_uc002nzn.3_Silent_p.V99V|DMKN_uc002nzw.2_5'Flank|DMKN_uc002nzr.2_5'Flank|DMKN_uc002nzp.2_5'Flank|DMKN_uc002nzq.2_5'Flank|DMKN_uc002nzt.2_5'Flank|DMKN_uc002nzs.2_5'Flank|DMKN_uc002nzu.2_5'Flank|DMKN_uc002nzv.2_5'Flank|DMKN_uc010xsv.1_5'Flank|DMKN_uc010xsw.1_5'Flank|DMKN_uc002nzx.3_5'Flank|DMKN_uc002nzy.3_5'Flank|DMKN_uc002nzz.2_5'Flank|DMKN_uc002oac.3_Silent_p.V99V|DMKN_uc010eeb.2_Silent_p.V99V|DMKN_uc002oaa.3_Silent_p.V99V|DMKN_uc002oab.3_Silent_p.V99V	NM_033317	NP_201574	Q6E0U4	DMKN_HUMAN	dermokine isoform 2 precursor	99	Gly-rich.					extracellular region				large_intestine(1)|ovary(1)|skin(1)	3	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CTGCTTCCCCGACCCTGTTGC	0.597													7	107	---	---	---	---	PASS	T	36004081	T	T	36004081	2	4	132	1	0	0	0	0	0	0	0	1	4582	1045	37	2		2	DMKN	19	36004081	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	2361929	36004081	23124902	279	47559										
KIRREL2	84063	broad.mit.edu	37	chr19	36351813	36351813	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ctagtctctttcgtccagttGggccgattctgcaggcaaag	11	11	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:36351813G>T	uc002ocb.3	+	8	1143	c.931G>T	c.(931-933)GGG>TGG	p.G311W	KIRREL2_uc002obz.3_Missense_Mutation_p.G311W|KIRREL2_uc002oca.3_Missense_Mutation_p.G261W|KIRREL2_uc002occ.3_Missense_Mutation_p.G258W|KIRREL2_uc002ocd.3_Missense_Mutation_p.G308W	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	311	Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TCGTCCAGTTGGGCCGATTCT	0.652													10	41	---	---	---	---	PASS	T	36351813	T	T	36351813	3	4	132	1	0	0	0	0	1	0	0	0	8325	1348	47	3	961	3	KIRREL2	19	36351813	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	347732	36351813	22777170	280	47560										
ZNF461	92283	broad.mit.edu	37	chr19	37129880	37129880	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaattctctgatgtcttttgAggtgtgaacactgtctaaaa	9	6	3	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:37129880A>G	uc002oem.2	-	6	1595	c.1367T>C	c.(1366-1368)CTC>CCC	p.L456P	ZNF461_uc002oen.2_Missense_Mutation_p.L425P|ZNF461_uc010xtj.1_Missense_Mutation_p.L433P	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	456	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			ATGTCTTTTGAGGTGTGAACA	0.398													3	93	---	---	---	---	PASS	G	37129880	G	G	37129880	3	3	132	1	0	0	0	0	1	0	0	0	17922	304	11	5	328	5	ZNF461	19	37129880	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	778067	37129880	21999103	281	47561										
ZNF780A	284323	broad.mit.edu	37	chr19	40581177	40581177	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aggacttcccacattccttaCattcaaacggtttttcacct	4	13	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:40581177C>T	uc002omy.2	-	6	1397	c.1172G>A	c.(1171-1173)TGT>TAT	p.C391Y	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.C391Y|ZNF780A_uc010xvh.1_Missense_Mutation_p.C392Y	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	391	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					ACATTCCTTACATTCAAACGG	0.408													127	231	---	---	---	---	PASS	T	40581177	T	T	40581177	3	4	132	1	0	0	0	0	1	0	0	0	18149	478	17	3	884	3	ZNF780A	19	40581177	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	3451297	40581177	18547806	282	47562										
EML2	24139	broad.mit.edu	37	chr19	46127984	46127984	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gggtgacactgacctttgccCcaaacatagaggttcccccc	9	15	0	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:46127984C>T	uc002pcn.2	-	9	869	c.834G>A	c.(832-834)TGG>TGA	p.W278*	EML2_uc002pco.2_RNA|EML2_uc002pcp.2_Nonsense_Mutation_p.W162*|EML2_uc010xxl.1_Nonsense_Mutation_p.W425*|EML2_uc010xxm.1_Nonsense_Mutation_p.W479*|EML2_uc010xxn.1_RNA|EML2_uc010xxo.1_Nonsense_Mutation_p.W278*|EML2_uc010ekj.2_Intron|EML2_uc010ekk.1_RNA	NM_012155	NP_036287	O95834	EMAL2_HUMAN	echinoderm microtubule associated protein like	278	WD 4.				sensory perception of sound|visual perception	cytoplasm|intracellular membrane-bounded organelle|microtubule|microtubule associated complex	catalytic activity|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00553)|GBM - Glioblastoma multiforme(486;0.131)|Epithelial(262;0.197)		GACCTTTGCCCCAAACATAGA	0.517													5	41	---	---	---	---	PASS	T	46127984	T	T	46127984	4	4	132	1	0	0	0	0	0	1	0	0	5097	624	22	3	1159	3	EML2	19	46127984	Nonsense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	5546807	46127984	13000999	283	47563										
PRKCG	5582	broad.mit.edu	37	chr19	54386432	54386432	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tccaggggtatcggaaagcaGggcctgcaatgtcaaggtaa	14	8	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:54386432G>T	uc002qcq.1	+	2	468	c.186G>T	c.(184-186)CAG>CAT	p.Q62H	PRKCG_uc010eqz.1_Missense_Mutation_p.Q62H|PRKCG_uc010yef.1_Missense_Mutation_p.Q62H|PRKCG_uc010yeg.1_Missense_Mutation_p.Q62H|PRKCG_uc010yeh.1_5'Flank	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	62	Phorbol-ester/DAG-type 1.				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)		TCGGAAAGCAGGGCCTGCAAT	0.642													38	47	---	---	---	---	PASS	T	54386432	T	T	54386432	3	4	132	1	0	0	0	0	1	0	0	0	12512	991	35	3	192	3	PRKCG	19	54386432	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	8258448	54386432	4742551	284	47564										
PRKCG	5582	broad.mit.edu	37	chr19	54401724	54401724	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ccgagcgcaggggctctgatGagctctacgccatcaagatc	12	13	3	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:54401724G>A	uc002qcq.1	+	11	1405	c.1123G>A	c.(1123-1125)GAG>AAG	p.E375K	PRKCG_uc010yef.1_3'UTR|PRKCG_uc010yeg.1_Missense_Mutation_p.E375K|PRKCG_uc010yeh.1_Missense_Mutation_p.E262K	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	375	Protein kinase.				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)		GGGCTCTGATGAGCTCTACGC	0.602													42	71	---	---	---	---	PASS	A	54401724	A	A	54401724	3	1	132	1	0	0	0	0	1	0	0	0	12512	1291	45	2	1165	2	PRKCG	19	54401724	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	15292	54401724	4727259	285	47565										
KIR3DL1	3811	broad.mit.edu	37	chr19	55341403	55341403	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	atgctgctgtaatggaccaaGagcctgcagggaacagaaca	12	9	0	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr19:55341403G>T	uc002qhk.3	+	8	1189	c.1126G>T	c.(1126-1128)GAG>TAG	p.E376*	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_Nonsense_Mutation_p.E301*|KIR3DL1_uc010esf.2_Nonsense_Mutation_p.E281*|KIR3DL1_uc010yfo.1_Nonsense_Mutation_p.E318*|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_5'Flank|KIR2DS4_uc002qhm.1_5'Flank	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	376	Cytoplasmic (Potential).				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		AATGGACCAAGAGCCTGCAGG	0.532													74	106	---	---	---	---	PASS	T	55341403	T	T	55341403	4	4	132	1	0	0	0	0	0	1	0	0	8320	943	33	2	1156	2	KIR3DL1	19	55341403	Nonsense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	939679	55341403	3787580	286	47566										
JAG1	182	broad.mit.edu	37	chr20	10621761	10621761	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgaatgggtcttatacttacAatggccacatgtatttcatt	7	7	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr20:10621761A>T	uc002wnw.2	-	24	3564	c.3048T>A	c.(3046-3048)ATT>ATA	p.I1016I		NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	1016	Extracellular (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						TTATACTTACAATGGCCACAT	0.408									Alagille_Syndrome				57	134	---	---	---	---	PASS	T	10621761	T	T	10621761	2	4	132	1	0	0	0	0	0	0	0	1	7934	144	5	5		5	JAG1	20	10621761	Silent	SNP	A	TCGA-60-2723-01A-01D-1522-08		10621761	52403759	287	47567										
SEL1L2	80343	broad.mit.edu	37	chr20	13868482	13868482	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgtagaacattgattcccgaCaaatatctgtacccctaaaa	5	10	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr20:13868482C>A	uc010gcf.2	-	8	760	c.678G>T	c.(676-678)TTG>TTT	p.L226F	SEL1L2_uc002woq.3_Missense_Mutation_p.L87F|SEL1L2_uc010zrl.1_Missense_Mutation_p.L226F|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	226	Sel1-like 4.|Extracellular (Potential).					integral to membrane	binding			ovary(2)	2						TGATTCCCGACAAATATCTGT	0.299													39	210	---	---	---	---	PASS	A	13868482	A	A	13868482	3	1	132	1	0	0	0	0	1	0	0	0	14011	477	17	3	1440	3	SEL1L2	20	13868482	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	3246721	13868482	49157038	288	47568										
RALGAPA2	57186	broad.mit.edu	37	chr20	20493357	20493357	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tccttctcttggtcatagttCatgccacatggggttaggga	11	9	3	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr20:20493357C>G	uc002wrz.2	-	32	4799	c.4656G>C	c.(4654-4656)ATG>ATC	p.M1552I	RALGAPA2_uc010gcx.2_Missense_Mutation_p.M1256I|RALGAPA2_uc010zsg.1_Missense_Mutation_p.M1000I|RALGAPA2_uc002wsa.1_Missense_Mutation_p.M324I	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1552					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						GGTCATAGTTCATGCCACATG	0.398													45	151	---	---	---	---	PASS	G	20493357	G	G	20493357	3	3	132	1	0	0	0	0	1	0	0	0	13014	826	29	2	997	2	RALGAPA2	20	20493357	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	6624875	20493357	42532163	289	47569										
MYLK2	85366	broad.mit.edu	37	chr20	30408096	30408096	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cccaaccctcaactagcagcCaaggccccaaaggagagggt	10	15	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr20:30408096C>G	uc002wwq.2	+	3	322	c.220C>G	c.(220-222)CAA>GAA	p.Q74E		NM_033118	NP_149109	Q9H1R3	MYLK2_HUMAN	skeletal myosin light chain kinase	74					cardiac muscle tissue morphogenesis|regulation of muscle filament sliding		ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			lung(2)|skin(2)|ovary(1)|central_nervous_system(1)	6			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			AACTAGCAGCCAAGGCCCCAA	0.662													14	52	---	---	---	---	PASS	G	30408096	G	G	30408096	3	3	132	1	0	0	0	0	1	0	0	0	10057	595	21	4	226	4	MYLK2	20	30408096	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	9914739	30408096	32617424	290	47570										
C20orf160	140706	broad.mit.edu	37	chr20	30616834	30616834	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	acctttgaagcatgttacagCggcacgtccacaccttcttt	7	13	1	1	rs139147006		TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr20:30616834C>G	uc002wxf.2	+	7	1119	c.1106C>G	c.(1105-1107)GCG>GGG	p.A369G	C20orf160_uc002wxg.2_5'UTR	NM_080625	NP_542192	Q9NUG4	CT160_HUMAN	hypothetical protein LOC140706	Error:Variant_position_missing_in_Q9NUG4_after_alignment										central_nervous_system(3)|ovary(1)	4						CATGTTACAGCGGCACGTCCA	0.602													28	84	---	---	---	---	PASS	G	30616834	G	G	30616834	3	3	132	1	0	0	0	0	1	0	0	0	2093	768	27	4	1132	4	C20orf160	20	30616834	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	208738	30616834	32408686	291	47571										
HCK	3055	broad.mit.edu	37	chr20	30689186	30689186	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gatgcctcgcccagagaactGcccagaggagctctacaaca	10	14	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr20:30689186G>T	uc002wxh.2	+	13	1616	c.1445G>T	c.(1444-1446)TGC>TTC	p.C482F	HCK_uc010gdy.2_Missense_Mutation_p.C461F|HCK_uc002wxi.2_Missense_Mutation_p.C460F	NM_002110	NP_002101	P08631	HCK_HUMAN	hemopoietic cell kinase isoform p61HCK	482	Protein kinase.				interspecies interaction between organisms|mesoderm development|regulation of defense response to virus by virus|viral reproduction	caveola|cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|ovary(2)|central_nervous_system(2)|pancreas(1)	9			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CCAGAGAACTGCCCAGAGGAG	0.547													9	52	---	---	---	---	PASS	T	30689186	T	T	30689186	3	4	132	1	0	0	0	0	1	0	0	0	6994	1319	46	3	1501	3	HCK	20	30689186	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	72352	30689186	32336334	292	47572										
C20orf186	149954	broad.mit.edu	37	chr20	31678516	31678516	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cctctcctttgcctgcagctCtgattcctctggggatattg	9	13	3	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr20:31678516C>A	uc010zue.1	+	8	1069	c.1054C>A	c.(1054-1056)CTG>ATG	p.L352M		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	352						cytoplasm|extracellular region	lipid binding				0						GCCTGCAGCTCTGATTCCTCT	0.597													10	59	---	---	---	---	PASS	A	31678516	A	A	31678516	3	1	132	1	0	0	0	0	1	0	0	0	2098	912	32	2	1084	2	C20orf186	20	31678516	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	989330	31678516	31347004	293	47573										
TOP1	7150	broad.mit.edu	37	chr20	39704813	39704813	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgacttaactttttacagtgAacataaagattctgaaaaga	6	5	1	5			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr20:39704813A>G	uc002xjl.2	+	4	404	c.158A>G	c.(157-159)GAA>GGA	p.E53G	TOP1_uc010gge.1_RNA	NM_003286	NP_003277	P11387	TOP1_HUMAN	DNA topoisomerase I	53	Lys-rich.				DNA topological change|interspecies interaction between organisms|phosphorylation|programmed cell death|response to drug	chromosome|nucleolus|nucleoplasm	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity|protein binding			breast(3)|ovary(2)|central_nervous_system(1)|kidney(1)	7		Myeloproliferative disorder(115;0.00878)			Irinotecan(DB00762)|Lucanthone(DB04967)|Topotecan(DB01030)	TTTTACAGTGAACATAAAGAT	0.224			T	NUP98	AML*								32	111	---	---	---	---	PASS	G	39704813	G	G	39704813	3	3	132	1	0	0	0	0	1	0	0	0	16360	246	9	5	172	5	TOP1	20	39704813	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	8026297	39704813	23320707	294	47574										
SPINT4	391253	broad.mit.edu	37	chr20	44351115	44351115	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cggagaagatatgtggagacCtcaaaggtatgaagctaagg	14	5	1	4			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr20:44351115C>A	uc002xpe.1	+	1	128	c.109C>A	c.(109-111)CTC>ATC	p.L37I		NM_178455	NP_848550	Q6UDR6	SPIT4_HUMAN	serine peptidase inhibitor, Kunitz type 4	37						extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2		Myeloproliferative disorder(115;0.028)				ATGTGGAGACCTCAAAGGTAT	0.388													27	88	---	---	---	---	PASS	A	44351115	A	A	44351115	3	1	132	1	0	0	0	0	1	0	0	0	15069	681	24	3	111	3	SPINT4	20	44351115	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	4646302	44351115	18674405	295	47575										
PREX1	57580	broad.mit.edu	37	chr20	47265955	47265955	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gcttgagtaggaagctgaggCcccggtcttcctgaccaagg	14	11	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr20:47265955C>A	uc002xtw.1	-	25	3211	c.3188G>T	c.(3187-3189)GGC>GTC	p.G1063V	PREX1_uc002xtv.1_Missense_Mutation_p.G360V	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1063					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GAAGCTGAGGCCCCGGTCTTC	0.592													15	68	---	---	---	---	PASS	A	47265955	A	A	47265955	3	1	132	1	0	0	0	0	1	0	0	0	12476	739	26	3	1855	3	PREX1	20	47265955	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	2914840	47265955	15759565	296	47576										
SYCP2	10388	broad.mit.edu	37	chr20	58494628	58494628	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ttgactctgaataatgtcctTggatttttcaaaccaggcaa	7	8	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr20:58494628T>C	uc002yaz.2	-	5	461	c.322A>G	c.(322-324)AAG>GAG	p.K108E	SYCP2_uc010gju.1_Missense_Mutation_p.K9E	NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	108					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			ATAATGTCCTTGGATTTTTCA	0.294													23	78	---	---	---	---	PASS	C	58494628	C	C	58494628	3	2	132	1	0	0	0	0	1	0	0	0	15429	1821	63	5	4430	5	SYCP2	20	58494628	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	11228673	58494628	4530892	297	47577										
CECR2	27443	broad.mit.edu	37	chr22	18021972	18021972	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gatccttgcagcttgggcagAtaagtggcccaagtcaggat	13	9	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr22:18021972A>G	uc010gqw.1	+	15	2200	c.2074A>G	c.(2074-2076)ATA>GTA	p.I692V	CECR2_uc010gqv.1_Missense_Mutation_p.I551V|CECR2_uc002zml.2_Missense_Mutation_p.I551V	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	734					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		GCTTGGGCAGATAAGTGGCCC	0.602													9	42	---	---	---	---	PASS	G	18021972	G	G	18021972	3	3	132	1	0	0	0	0	1	0	0	0	3206	333	12	5	2134	5	CECR2	22	18021972	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08		18021972	33282594	298	47578										
ATP6V1E1	529	broad.mit.edu	37	chr22	18077343	18077343	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tccagggtgttggaaaccttTattttacgatctccattata	7	8	1	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr22:18077343T>G	uc002zmr.1	-	8	757	c.570A>C	c.(568-570)ATA>ATC	p.I190I	ATP6V1E1_uc002zms.1_Silent_p.I160I|ATP6V1E1_uc002zmt.1_Silent_p.I168I	NM_001696	NP_001687	P36543	VATE1_HUMAN	vacuolar H+ ATPase E1 isoform a	190					cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	apical plasma membrane|cytosol|endosome|proton-transporting two-sector ATPase complex, catalytic domain	protein binding|proton-transporting ATPase activity, rotational mechanism			large_intestine(1)|central_nervous_system(1)	2		all_epithelial(15;0.206)		Lung(27;0.19)		TGGAAACCTTTATTTTACGAT	0.433													14	16	---	---	---	---	PASS	G	18077343	G	G	18077343	2	3	132	1	0	0	0	0	0	0	0	1	1183	1744	61	5		5	ATP6V1E1	22	18077343	Silent	SNP	T	TCGA-60-2723-01A-01D-1522-08	55371	18077343	33227223	299	47579										
CLTCL1	8218	broad.mit.edu	37	chr22	19203623	19203623	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cccctggcatagcctcacctGtgctcgctgaagacagagtt	10	14	1	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr22:19203623G>A	uc002zpb.2	-	19	3138	c.3063C>T	c.(3061-3063)CAC>CAT	p.H1021H	CLTCL1_uc011agv.1_Silent_p.H1021H|CLTCL1_uc011agw.1_Silent_p.H1021H|CLTCL1_uc002zpe.2_5'Flank|CLTCL1_uc002zpd.1_5'Flank	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	1021	Proximal segment.|Heavy chain arm.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					AGCCTCACCTGTGCTCGCTGA	0.478			T	?	ALCL								17	68	---	---	---	---	PASS	A	19203623	A	A	19203623	2	1	132	1	0	0	0	0	0	0	0	1	3567	1368	48	3		3	CLTCL1	22	19203623	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	1126280	19203623	32100943	300	47580										
RIMBP3	85376	broad.mit.edu	37	chr22	20457269	20457269	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aagtaccctctcaagggcagCcttttcctgacacggttctt	8	13	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr22:20457269C>A	uc002zsd.3	-	1	4518	c.4033G>T	c.(4033-4035)GCT>TCT	p.A1345S		NM_015672	NP_056487			RIMS binding protein 3												0	Colorectal(54;0.0993)|Melanoma(16;0.165)		LUSC - Lung squamous cell carcinoma(15;0.0405)|Lung(15;0.224)			TCAAGGGCAGCCTTTTCCTGA	0.557													3	39	---	---	---	---	PASS	A	20457269	A	A	20457269	3	1	132	1	0	0	0	0	1	0	0	0	13364	739	26	3	890	3	RIMBP3	22	20457269	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	1253646	20457269	30847297	301	47581										
PRAME	23532	broad.mit.edu	37	chr22	22890587	22890587	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ggcactaagccagaccatgcTgggccgccccaactcacaca	9	17	1	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr22:22890587T>A	uc002zwf.2	-	5	1588	c.1432A>T	c.(1432-1434)AGC>TGC	p.S478C	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Missense_Mutation_p.S462C|PRAME_uc010gtr.2_Missense_Mutation_p.S478C|PRAME_uc002zwg.2_Missense_Mutation_p.S478C|PRAME_uc002zwh.2_Missense_Mutation_p.S478C|PRAME_uc002zwi.2_Missense_Mutation_p.S478C|PRAME_uc002zwj.2_Missense_Mutation_p.S478C|PRAME_uc002zwk.2_Missense_Mutation_p.S478C	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	478	Mediates interaction with RARA.				apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		CAGACCATGCTGGGCCGCCCC	0.582													58	224	---	---	---	---	PASS	A	22890587	A	A	22890587	3	1	132	1	0	0	0	0	1	0	0	0	12424	1580	55	5	101	5	PRAME	22	22890587	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	2433318	22890587	28413979	302	47582										
TMEM211	255349	broad.mit.edu	37	chr22	25331525	25331525	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	atgaatggggaggcaaggccGattgggaaaatcagcagacc	15	7	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr22:25331525G>A	uc003abk.1	-	3	190	c.165C>T	c.(163-165)ATC>ATT	p.I55I		NM_001001663	NP_001001663	Q6ICI0	TM211_HUMAN	transmembrane protein 211	126	Helical; (Potential).					integral to membrane					0						AGGCAAGGCCGATTGGGAAAA	0.517													4	177	---	---	---	---	PASS	A	25331525	A	A	25331525	2	1	132	1	0	0	0	0	0	0	0	1	16132	1048	37	2		2	TMEM211	22	25331525	Silent	SNP	G	TCGA-60-2723-01A-01D-1522-08	2440938	25331525	25973041	303	47583										
BPIL2	254240	broad.mit.edu	37	chr22	32838705	32838705	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gcgctttgacttcacttgcaAtaatgggacagagctggcca	11	10	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr22:32838705A>T	uc003amn.2	-	6	608	c.608T>A	c.(607-609)ATT>AAT	p.I203N	BPIL2_uc010gwo.2_Missense_Mutation_p.I17N|BPIL2_uc011amb.1_Translation_Start_Site	NM_174932	NP_777592	Q8NFQ6	BPIL2_HUMAN	bactericidal/permeability-increasing	203						extracellular region	lipopolysaccharide binding|phospholipid binding			ovary(1)|skin(1)	2						TTCACTTGCAATAATGGGACA	0.438													4	96	---	---	---	---	PASS	T	32838705	T	T	32838705	3	4	132	1	0	0	0	0	1	0	0	0	1492	101	4	5	955	5	BPIL2	22	32838705	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	7507180	32838705	18465861	304	47584										
MCM5	4174	broad.mit.edu	37	chr22	35799497	35799497	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	aggacatccaggtcatgctcAagtcggacgccagcccttcc	10	15	2	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr22:35799497A>C	uc003anu.3	+	4	479	c.385A>C	c.(385-387)AAG>CAG	p.K129Q	MCM5_uc010gwr.2_5'UTR|MCM5_uc003anv.3_Intron	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	129					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						GGTCATGCTCAAGTCGGACGC	0.453													80	151	---	---	---	---	PASS	C	35799497	C	C	35799497	3	2	132	1	0	0	0	0	1	0	0	0	9390	131	5	5	395	5	MCM5	22	35799497	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	2960792	35799497	15505069	305	47585										
IL2RB	3560	broad.mit.edu	37	chr22	37539628	37539628	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cccatcttggctccagacacAggagatgttggctctcgagt	11	12	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr22:37539628A>C	uc003aqv.1	-	3	267	c.136T>G	c.(136-138)TGT>GGT	p.C46G		NM_000878	NP_000869	P14784	IL2RB_HUMAN	interleukin 2 receptor beta precursor	46	Extracellular (Potential).				interspecies interaction between organisms|positive regulation of survival gene product expression|protein complex assembly	external side of plasma membrane|integral to plasma membrane	interleukin-2 receptor activity				0					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	CTCCAGACACAGGAGATGTTG	0.592													28	105	---	---	---	---	PASS	C	37539628	C	C	37539628	3	2	132	1	0	0	0	0	1	0	0	0	7687	188	7	5	1551	5	IL2RB	22	37539628	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	1740131	37539628	13764938	306	47586										
PLA2G6	8398	broad.mit.edu	37	chr22	38531000	38531000	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tcaggatccactcacctctgCgttcttggcccagtggaggg	12	13	4	0			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr22:38531000C>A	uc003auy.1	-	6	1025	c.889G>T	c.(889-891)GCA>TCA	p.A297S	PLA2G6_uc003auz.1_Missense_Mutation_p.A297S|PLA2G6_uc003ava.1_Missense_Mutation_p.A297S|PLA2G6_uc003avb.2_Missense_Mutation_p.A297S|PLA2G6_uc010gxk.1_RNA|PLA2G6_uc011ano.1_Missense_Mutation_p.A262S	NM_003560	NP_003551	O60733	PA2G6_HUMAN	phospholipase A2, group VI isoform a	297	ANK 5.				cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)	CTCACCTCTGCGTTCTTGGCC	0.657													43	65	---	---	---	---	PASS	A	38531000	A	A	38531000	3	1	132	1	0	0	0	0	1	0	0	0	12008	768	27	1	1579	1	PLA2G6	22	38531000	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	991372	38531000	12773566	307	47587										
APOBEC3D	140564	broad.mit.edu	37	chr22	39427729	39427729	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	agacccattgtcatgcagaaAggtgcttcctctcttggttc	9	11	2	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chr22:39427729A>G	uc011aoe.1	+	6	847	c.793A>G	c.(793-795)AGG>GGG	p.R265G	APOBEC3D_uc011aof.1_Missense_Mutation_p.R81G|APOBEC3D_uc003awu.3_Missense_Mutation_p.R81G|APOBEC3D_uc003awt.3_Missense_Mutation_p.R265G|APOBEC3D_uc010gxu.2_Missense_Mutation_p.R61G	NM_152426	NP_689639	Q96AK3	ABC3D_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	265					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0	Melanoma(58;0.04)					TCATGCAGAAAGGTGCTTCCT	0.577													162	242	---	---	---	---	PASS	G	39427729	G	G	39427729	3	3	132	1	0	0	0	0	1	0	0	0	792	63	3	5	815	5	APOBEC3D	22	39427729	Missense_Mutation	SNP	A	TCGA-60-2723-01A-01D-1522-08	896729	39427729	11876837	308	47588										
GK	2710	broad.mit.edu	37	chrX	30737553	30737553	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tagaaaaacttgctaaagaaGtaggtacttcttatggctgc	9	6	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chrX:30737553G>A	uc004dch.3	+	15	1251	c.1072G>A	c.(1072-1074)GTA>ATA	p.V358I	GK_uc010ngj.2_Missense_Mutation_p.V352I|GK_uc004dci.3_Missense_Mutation_p.V352I|GK_uc011mjz.1_Missense_Mutation_p.V153I|GK_uc011mka.1_Missense_Mutation_p.V195I|GK_uc010ngk.2_Missense_Mutation_p.V147I	NM_203391	NP_976325	P32189	GLPK_HUMAN	glycerol kinase isoform a	358					glycerol-3-phosphate metabolic process|triglyceride biosynthetic process	cytosol|mitochondrial outer membrane	ATP binding|glycerol kinase activity			central_nervous_system(1)	1						TGCTAAAGAAGTAGGTACTTC	0.328													28	51	---	---	---	---	PASS	A	30737553	A	A	30737553	3	1	132	1	0	0	0	0	1	0	0	0	6420	1029	36	3	1130	3	GK	23	30737553	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08		30737553	124533007	309	47589										
NYX	60506	broad.mit.edu	37	chrX	41307170	41307170	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gccgagggatgttggtcctgCttctgcatggtgagttctcc	14	10	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chrX:41307170C>A	uc004dfh.2	+	1	458	c.28C>A	c.(28-30)CTT>ATT	p.L10I	NYX_uc011mku.1_Missense_Mutation_p.L5I	NM_022567	NP_072089	Q9GZU5	NYX_HUMAN	nyctalopin precursor	10					response to stimulus|visual perception	intracellular|proteinaceous extracellular matrix				lung(2)	2						GTTGGTCCTGCTTCTGCATGG	0.597													3	39	---	---	---	---	PASS	A	41307170	A	A	41307170	3	1	132	1	0	0	0	0	1	0	0	0	10797	797	28	3	30	3	NYX	23	41307170	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	10569617	41307170	113963390	310	47590										
UBA1	7317	broad.mit.edu	37	chrX	47072255	47072255	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgacattccttctgcagaccGgcacaaggtgaggggaatct	12	10	2	3			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chrX:47072255G>A	uc004dhj.3	+	22	2790	c.2639G>A	c.(2638-2640)CGG>CAG	p.R880Q	UBA1_uc004dhk.3_Missense_Mutation_p.R880Q|UBA1_uc004dhm.2_Missense_Mutation_p.R328Q	NM_153280	NP_695012	P22314	UBA1_HUMAN	ubiquitin-activating enzyme E1	880					cell death|protein modification process		ATP binding|ligase activity|protein binding|small protein activating enzyme activity			ovary(1)	1						TCTGCAGACCGGCACAAGGTG	0.493													12	55	---	---	---	---	PASS	A	47072255	A	A	47072255	3	1	132	1	0	0	0	0	1	0	0	0	16824	1116	39	1	2721	1	UBA1	23	47072255	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	5765085	47072255	108198305	311	47591										
USP11	8237	broad.mit.edu	37	chrX	47101681	47101681	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	gaggtcttctttatccccatGgatccgcgccgcaagccaga	10	14	2	1			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chrX:47101681G>T	uc004dhp.2	+	10	1509	c.1509G>T	c.(1507-1509)ATG>ATT	p.M503I	USP11_uc004dhq.2_Missense_Mutation_p.M230I	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	503					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						TTATCCCCATGGATCCGCGCC	0.542													14	22	---	---	---	---	PASS	T	47101681	T	T	47101681	3	4	132	1	0	0	0	0	1	0	0	0	17039	1348	47	3	1547	3	USP11	23	47101681	Missense_Mutation	SNP	G	TCGA-60-2723-01A-01D-1522-08	29426	47101681	108168879	312	47592										
DGKK	139189	broad.mit.edu	37	chrX	50127723	50127723	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	cagaaagatccttacggcgtCgtgggcttgtctggttaata	12	8	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chrX:50127723C>A	uc010njr.1	-	16	2507	c.2447G>T	c.(2446-2448)CGA>CTA	p.R816L		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	816					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					CTTACGGCGTCGTGGGCTTGT	0.398													94	156	---	---	---	---	PASS	A	50127723	A	A	50127723	3	1	132	1	0	0	0	0	1	0	0	0	4472	884	31	2	1419	2	DGKK	23	50127723	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	3026042	50127723	105142837	313	47593										
ATP7A	538	broad.mit.edu	37	chrX	77244009	77244009	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	tgtagcagtgacaataatccCttctatagtgaatgccaatc	7	9	1	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chrX:77244009C>T	uc004ecx.3	+	3	552	c.392C>T	c.(391-393)CCT>CTT	p.P131L	ATP7A_uc004ecw.2_Missense_Mutation_p.P131L	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	131	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						ACAATAATCCCTTCTATAGTG	0.413													195	313	---	---	---	---	PASS	T	77244009	T	T	77244009	3	4	132	1	0	0	0	0	1	0	0	0	1190	681	24	3	398	3	ATP7A	23	77244009	Missense_Mutation	SNP	C	TCGA-60-2723-01A-01D-1522-08	27116286	77244009	78026551	314	47594										
F8	2157	broad.mit.edu	37	chrX	154158967	154158967	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0516129032258065	16	0.540596648774451	1.04510414958176	1.36106586922276	0.848200469225778	1	1	0	ataatgatgggccatcaatgTgagtctttctattagttgct	9	6	3	2			TCGA-60-2723-01A-01D-1522-08	TCGA-60-2723-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	8a6aa45a-ef6d-4005-b7c9-e15240dc6dd4	02d30282-dd1a-4a6a-bcf4-fbe06eb299c7	g.chrX:154158967T>A	uc004fmt.2	-	14	3269	c.3098A>T	c.(3097-3099)CAC>CTC	p.H1033L		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	1033	B.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	GCCATCAATGTGAGTCTTTCT	0.323													80	157	---	---	---	---	PASS	A	154158967	A	A	154158967	3	1	132	1	0	0	0	0	1	0	0	0	5350	1696	59	5	4037	5	F8	23	154158967	Missense_Mutation	SNP	T	TCGA-60-2723-01A-01D-1522-08	76914958	154158967	1111593	315	47595										
C1orf159	54991	broad.mit.edu	37	chr1	1019531	1019531	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggcgggcagggggcgccggcCaaatccagctgagatccaga	17	12	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:1019531C>A	uc001act.2	-	11	1298	c.812G>T	c.(811-813)TGG>TTG	p.W271L	C1orf159_uc001acu.2_Intron|C1orf159_uc001acr.2_Intron|C1orf159_uc001acs.2_Intron|C1orf159_uc010nyd.1_Intron|C1orf159_uc001acm.2_Intron|C1orf159_uc009vju.1_Intron|C1orf159_uc001acn.2_Missense_Mutation_p.W235L|C1orf159_uc001acp.2_Intron	NM_017891	NP_060361	Q96HA4	CA159_HUMAN	hypothetical protein LOC54991	271	Pro-rich.					integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.96e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.77e-22)|Colorectal(212;6.51e-05)|COAD - Colon adenocarcinoma(227;0.000214)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|Kidney(185;0.00254)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		GGGCGCCGGCCAAATCCAGCT	0.672													12	46	---	---	---	---	PASS	A	1019531	A	A	1019531	3	1	133	1	0	0	0	0	1	0	0	0	2008	609	21	3		3	C1orf159	1	1019531	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08		1019531	248231090	1	47596										
NOL9	79707	broad.mit.edu	37	chr1	6592658	6592658	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atgctgcgagtctgaaacgtCgatttctcatcttggtcttg	10	9	4	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:6592658C>G	uc001ans.2	-	8	1419	c.1400G>C	c.(1399-1401)CGA>CCA	p.R467P	NOL9_uc010nzs.1_RNA	NM_024654	NP_078930	Q5SY16	NOL9_HUMAN	nucleolar protein 9	467					maturation of 5.8S rRNA	nucleolus	ATP binding|polynucleotide 5'-hydroxyl-kinase activity|RNA binding			skin(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;2.46e-35)|all_epithelial(116;1.41e-22)|all_lung(118;7.59e-07)|Lung NSC(185;4.28e-06)|Colorectal(325;4.52e-05)|Breast(487;0.000353)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.47e-07)|COAD - Colon adenocarcinoma(227;1.47e-05)|Kidney(185;5.27e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|BRCA - Breast invasive adenocarcinoma(365;0.00113)|STAD - Stomach adenocarcinoma(132;0.0017)|READ - Rectum adenocarcinoma(331;0.0649)		TCTGAAACGTCGATTTCTCAT	0.423													58	217	---	---	---	---	PASS	G	6592658	G	G	6592658	3	3	133	1	0	0	0	0	1	0	0	0	10528	884	31	2	728	2	NOL9	1	6592658	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	5573127	6592658	242657963	2	47597										
KIF1B	23095	broad.mit.edu	37	chr1	10336408	10336408	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctcggactgcaatggttgctGctctgagccccgcggatatc	12	13	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:10336408G>T	uc001aqx.3	+	12	1190	c.988G>T	c.(988-990)GCT>TCT	p.A330S	KIF1B_uc001aqv.3_Missense_Mutation_p.A324S|KIF1B_uc001aqw.3_Missense_Mutation_p.A324S|KIF1B_uc001aqy.2_Missense_Mutation_p.A330S|KIF1B_uc001aqz.2_Missense_Mutation_p.A330S|KIF1B_uc001ara.2_Missense_Mutation_p.A330S|KIF1B_uc001arb.2_Missense_Mutation_p.A330S	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	330	Kinesin-motor.|Interaction with KBP.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		AATGGTTGCTGCTCTGAGCCC	0.398													14	62	---	---	---	---	PASS	T	10336408	T	T	10336408	3	4	133	1	0	0	0	0	1	0	0	0	8284	1319	46	3	1008	3	KIF1B	1	10336408	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	3743750	10336408	238914213	3	47598										
TNFRSF8	943	broad.mit.edu	37	chr1	12175713	12175713	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cctggcatgatctgtgccacAtcagccaccaactcccgtgc	8	17	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:12175713A>G	uc001atq.2	+	8	1095	c.873A>G	c.(871-873)ACA>ACG	p.T291T	TNFRSF8_uc010obc.1_Silent_p.T180T	NM_001243	NP_001234	P28908	TNR8_HUMAN	tumor necrosis factor receptor superfamily,	291	Extracellular (Potential).|TNFR-Cys 6.				cellular response to mechanical stimulus|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of TRAIL biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	cytoplasm|integral to membrane|plasma membrane				skin(2)|ovary(1)|pancreas(1)|central_nervous_system(1)	5	Ovarian(185;0.249)	Lung NSC(185;8.71e-05)|all_lung(284;9.89e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)		TCTGTGCCACATCAGCCACCA	0.592													28	122	---	---	---	---	PASS	G	12175713	G	G	12175713	2	3	133	1	0	0	0	0	0	0	0	1	16296	204	8	5		5	TNFRSF8	1	12175713	Silent	SNP	A	TCGA-60-2724-01A-01D-1522-08	1839305	12175713	237074908	4	47599										
VPS13D	55187	broad.mit.edu	37	chr1	12401886	12401886	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccatttgtcccctttgctctGaggaaccacacggggtgcac	10	14	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:12401886G>C	uc001atv.2	+	41	8817	c.8676G>C	c.(8674-8676)CTG>CTC	p.L2892L	VPS13D_uc001atw.2_Silent_p.L2867L|VPS13D_uc001atx.2_Silent_p.L2079L	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2891					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		CCTTTGCTCTGAGGAACCACA	0.552													38	171	---	---	---	---	PASS	C	12401886	C	C	12401886	2	2	133	1	0	0	0	0	0	0	0	1	17189	1277	45	2		2	VPS13D	1	12401886	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	226173	12401886	236848735	5	47600										
PRAMEF2	65122	broad.mit.edu	37	chr1	12921377	12921377	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	actttggcagcaattgcatgTctattgacgccctgaaggac	10	10	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:12921377T>C	uc001aum.1	+	4	1255	c.1168T>C	c.(1168-1170)TCT>CCT	p.S390P		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	390											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CAATTGCATGTCTATTGACGC	0.562													52	185	---	---	---	---	PASS	C	12921377	C	C	12921377	3	2	133	1	0	0	0	0	1	0	0	0	12435	1667	58	5	1178	5	PRAMEF2	1	12921377	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	519491	12921377	236329244	6	47601										
CNR2	1269	broad.mit.edu	37	chr1	24201704	24201704	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgtaggaaggtggatagcgcAggcagaggtatcggtcaatg	17	5	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:24201704A>T	uc001bif.2	-	2	531	c.404T>A	c.(403-405)CTG>CAG	p.L135Q		NM_001841	NP_001832	P34972	CNR2_HUMAN	cannabinoid receptor 2 (macrophage)	135	Cytoplasmic (Potential).				behavior|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	dendrite|integral to plasma membrane|perikaryon	cannabinoid receptor activity			skin(2)|central_nervous_system(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.00957)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.32e-24)|Colorectal(126;6.09e-08)|COAD - Colon adenocarcinoma(152;3.33e-06)|GBM - Glioblastoma multiforme(114;2.9e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00359)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.146)	Nabilone(DB00486)	TGGATAGCGCAGGCAGAGGTA	0.582													27	112	---	---	---	---	PASS	T	24201704	T	T	24201704	3	4	133	1	0	0	0	0	1	0	0	0	3632	188	7	5	682	5	CNR2	1	24201704	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	11280327	24201704	225048917	7	47602										
CSMD2	114784	broad.mit.edu	37	chr1	34401428	34401428	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccagcgtggcaggtgagcacGgcgtggccctccaggaagaa	16	12	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:34401428G>A	uc001bxn.1	-	4	554	c.525C>T	c.(523-525)GCC>GCT	p.A175A	CSMD2_uc001bxm.1_Silent_p.A215A	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	175	Sushi 1.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AGGTGAGCACGGCGTGGCCCT	0.632													23	69	---	---	---	---	PASS	A	34401428	A	A	34401428	2	1	133	1	0	0	0	0	0	0	0	1	3945	1103	39	1		1	CSMD2	1	34401428	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	10199724	34401428	214849193	8	47603										
GJA4	2701	broad.mit.edu	37	chr1	35260622	35260622	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcttcttctacctccccgtgGgccaggggccctcatcccca	8	19	4	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:35260622G>T	uc001bya.2	+	2	896	c.808G>T	c.(808-810)GGC>TGC	p.G270C	GJA4_uc009vul.2_Missense_Mutation_p.G346C|GJA4_uc009vum.1_Missense_Mutation_p.G270C	NM_002060	NP_002051	P35212	CXA4_HUMAN	connexin 37	270	Cytoplasmic (Potential).				cell-cell junction assembly	integral to plasma membrane				central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				CCTCCCCGTGGGCCAGGGGCC	0.652													12	31	---	---	---	---	PASS	T	35260622	T	T	35260622	3	4	133	1	0	0	0	0	1	0	0	0	6403	1232	43	3	810	3	GJA4	1	35260622	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	859194	35260622	213989999	9	47604										
ZMYM1	79830	broad.mit.edu	37	chr1	35580300	35580300	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cagataatatgttttttcctActtcaacagaagaacaatat	4	7	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:35580300A>T	uc001bym.2	+	11	3017	c.2869A>T	c.(2869-2871)ACT>TCT	p.T957S	ZMYM1_uc001byn.2_Missense_Mutation_p.T957S|ZMYM1_uc010ohu.1_Missense_Mutation_p.T938S|ZMYM1_uc001byo.2_Missense_Mutation_p.T597S|ZMYM1_uc009vut.2_Missense_Mutation_p.T882S	NM_024772	NP_079048	Q5SVZ6	ZMYM1_HUMAN	zinc finger, MYM domain containing 1	957						nucleus	nucleic acid binding|protein dimerization activity|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GTTTTTTCCTACTTCAACAGA	0.259													10	41	---	---	---	---	PASS	T	35580300	T	T	35580300	3	4	133	1	0	0	0	0	1	0	0	0	17696	391	14	5	2903	5	ZMYM1	1	35580300	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	319678	35580300	213670321	10	47605										
KIAA0754	643314	broad.mit.edu	37	chr1	39878642	39878642	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgtcacagctgctgcagtatCagccccagagagggctactg	12	12	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:39878642C>G	uc009vvt.1	+	1	3467	c.2705C>G	c.(2704-2706)TCA>TGA	p.S902*	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc010oiu.1_Intron	NM_015038	NP_055853	O94854	K0754_HUMAN	hypothetical protein LOC643314	766	Ala-rich.										0	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	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)			GCTGCAGTATCAGCCCCAGAG	0.537													3	18	---	---	---	---	PASS	G	39878642	G	G	39878642	4	3	133	1	0	0	0	0	0	1	0	0	8192	838	29	2	2707	2	KIAA0754	1	39878642	Nonsense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	4298342	39878642	209371979	11	47606										
HIVEP3	59269	broad.mit.edu	37	chr1	42048060	42048060	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcagatttctcaaaggagctGgtgtgctggatgacagaaat	12	6	2	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:42048060G>A	uc001cgz.3	-	4	3622	c.2409C>T	c.(2407-2409)ACC>ACT	p.T803T	HIVEP3_uc001cha.3_Silent_p.T803T|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	803	Ser-rich.|No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CAAAGGAGCTGGTGTGCTGGA	0.567													40	95	---	---	---	---	PASS	A	42048060	A	A	42048060	2	1	133	1	0	0	0	0	0	0	0	1	7188	1335	47	3		3	HIVEP3	1	42048060	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	2169418	42048060	207202561	12	47607										
TIE1	7075	broad.mit.edu	37	chr1	43777413	43777413	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agcttgtggtctccccgctgGtctcgttctctggggatgga	14	11	3	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:43777413G>C	uc001ciu.2	+	10	1484	c.1405G>C	c.(1405-1407)GTC>CTC	p.V469L	TIE1_uc010okd.1_Missense_Mutation_p.V469L|TIE1_uc010oke.1_Missense_Mutation_p.V424L|TIE1_uc009vwq.2_Missense_Mutation_p.V425L|TIE1_uc010okf.1_Missense_Mutation_p.V114L|TIE1_uc010okg.1_Missense_Mutation_p.V114L	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	469	Extracellular (Potential).|Fibronectin type-III 1.				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CTCCCCGCTGGTCTCGTTCTC	0.647													16	90	---	---	---	---	PASS	C	43777413	C	C	43777413	3	2	133	1	0	0	0	0	1	0	0	0	15890	1261	44	4	1443	4	TIE1	1	43777413	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1729353	43777413	205473208	13	47608										
FAM159A	348378	broad.mit.edu	37	chr1	53122610	53122610	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gctgtgaactccaaacgcctCctccatcattgcttcatggc	7	15	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:53122610C>T	uc001cuf.2	+	3	571	c.471C>T	c.(469-471)CTC>CTT	p.L157L	FAM159A_uc001cug.1_Intron|FAM159A_uc001cuh.2_Intron	NM_001042693	NP_001036158	Q6UWV7	F159A_HUMAN	hypothetical protein LOC348378	157						integral to membrane					0						CCAAACGCCTCCTCCATCATT	0.572													79	247	---	---	---	---	PASS	T	53122610	T	T	53122610	2	4	133	1	0	0	0	0	0	0	0	1	5468	842	30	2		2	FAM159A	1	53122610	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	9345197	53122610	196128011	14	47609										
SGIP1	84251	broad.mit.edu	37	chr1	67147612	67147612	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	accatccatcaatgacttggAcagcatttttgggccagtat	8	10	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:67147612A>G	uc001dcr.2	+	15	1092	c.875A>G	c.(874-876)GAC>GGC	p.D292G	SGIP1_uc010opd.1_Intron|SGIP1_uc001dcs.2_Intron|SGIP1_uc001dct.2_Intron|SGIP1_uc009wat.2_Missense_Mutation_p.D59G	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	292	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						AATGACTTGGACAGCATTTTT	0.403													50	247	---	---	---	---	PASS	G	67147612	G	G	67147612	3	3	133	1	0	0	0	0	1	0	0	0	14206	275	10	5	933	5	SGIP1	1	67147612	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	14025002	67147612	182103009	15	47610										
C1orf173	127254	broad.mit.edu	37	chr1	75107037	75107037	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtgctaacggactggaatgtCcttcatcaaccagaacacta	8	11	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:75107037C>T	uc001dgg.2	-	5	641	c.422G>A	c.(421-423)GGA>GAA	p.G141E		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	141										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						ACTGGAATGTCCTTCATCAAC	0.423													43	140	---	---	---	---	PASS	T	75107037	T	T	75107037	3	4	133	1	0	0	0	0	1	0	0	0	2014	855	30	2	4210	2	C1orf173	1	75107037	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	7959425	75107037	174143584	16	47611										
TTLL7	79739	broad.mit.edu	37	chr1	84403661	84403661	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcaaaatgctcattatgcttGttcacggagtagtttgtcag	9	7	4	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:84403661G>T	uc001djc.2	-	8	1158	c.762C>A	c.(760-762)AAC>AAA	p.N254K	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_Intron|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	254	TTL.				cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		CATTATGCTTGTTCACGGAGT	0.398													53	166	---	---	---	---	PASS	T	84403661	T	T	84403661	3	4	133	1	0	0	0	0	1	0	0	0	16729	1368	48	3	1957	3	TTLL7	1	84403661	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	9296624	84403661	164846960	17	47612										
SAMD13	148418	broad.mit.edu	37	chr1	84791331	84791331	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gttttgcagttccatggaaaAtgggagaccacctgatcctg	11	9	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:84791331A>G	uc001djr.2	+	3	299	c.107A>G	c.(106-108)AAT>AGT	p.N36S	SAMD13_uc010orw.1_Missense_Mutation_p.N22S|SAMD13_uc010orx.1_Missense_Mutation_p.N22S	NM_001010971	NP_001010971	Q5VXD3	SAM13_HUMAN	sterile alpha motif domain containing 13 isoform	42											0				all cancers(265;0.00667)|Epithelial(280;0.0219)|OV - Ovarian serous cystadenocarcinoma(397;0.136)		TCCATGGAAAATGGGAGACCA	0.517													19	76	---	---	---	---	PASS	G	84791331	G	G	84791331	3	3	133	1	0	0	0	0	1	0	0	0	13818	101	4	5	117	5	SAMD13	1	84791331	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	387670	84791331	164459290	18	47613										
HFM1	164045	broad.mit.edu	37	chr1	91779026	91779026	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gggttctaagtaaaagactgTaagtttctgctgaatatcaa	9	5	3	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:91779026T>C	uc001doa.3	-	30	3371	c.3271A>G	c.(3271-3273)ACA>GCA	p.T1091A	HFM1_uc009wdb.2_RNA|HFM1_uc010osu.1_Missense_Mutation_p.T770A|HFM1_uc001dob.3_Missense_Mutation_p.T279A|HFM1_uc010osv.1_Missense_Mutation_p.T775A	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	1091	SEC63.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		TAAAAGACTGTAAGTTTCTGC	0.308													31	119	---	---	---	---	PASS	C	91779026	C	C	91779026	3	2	133	1	0	0	0	0	1	0	0	0	7083	1638	57	5	1076	5	HFM1	1	91779026	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	6987695	91779026	157471595	19	47614										
ABCA4	24	broad.mit.edu	37	chr1	94490552	94490552	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	acgtttttaccaagaagtcgGagatgttcctgtccgtcagg	11	9	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:94490552G>A	uc001dqh.2	-	31	4696	c.4592C>T	c.(4591-4593)TCC>TTC	p.S1531F		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1531	Extracellular.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CAAGAAGTCGGAGATGTTCCT	0.428													32	131	---	---	---	---	PASS	A	94490552	A	A	94490552	3	1	133	1	0	0	0	0	1	0	0	0	34	1174	41	2	2309	2	ABCA4	1	94490552	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	2711526	94490552	154760069	20	47615										
SARS	6301	broad.mit.edu	37	chr1	109779943	109779943	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gccatcctggagaactaccaGacagagaagggcatcactgt	11	11	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:109779943G>C	uc001dwu.1	+	10	1410	c.1335G>C	c.(1333-1335)CAG>CAC	p.Q445H	SARS_uc001dwv.1_Missense_Mutation_p.Q470H|SARS_uc001dww.1_Missense_Mutation_p.Q378H|SARS_uc001dwx.1_Missense_Mutation_p.Q397H|SARS_uc009wfa.1_Intron|SARS_uc001dwy.1_Missense_Mutation_p.Q270H|SARS_uc001dwz.1_Missense_Mutation_p.Q270H	NM_006513	NP_006504	P49591	SYSC_HUMAN	seryl-tRNA synthetase	445					seryl-tRNA aminoacylation|tRNA processing	cytosol	ATP binding|protein binding|RNA binding|serine-tRNA ligase activity			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0301)|Lung(183;0.0677)|COAD - Colon adenocarcinoma(174;0.116)|Epithelial(280;0.233)	L-Serine(DB00133)	AGAACTACCAGACAGAGAAGG	0.522													28	117	---	---	---	---	PASS	C	109779943	C	C	109779943	3	2	133	1	0	0	0	0	1	0	0	0	13844	933	33	2	1373	2	SARS	1	109779943	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	15289391	109779943	139470678	21	47616										
AHCYL1	10768	broad.mit.edu	37	chr1	110557398	110557398	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tctacaggagttgcagtgttCgcttggaagggcgagtcaga	15	7	2	1	rs144479834	byFrequency	TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:110557398C>T	uc001dyx.2	+	6	961	c.594C>T	c.(592-594)TTC>TTT	p.F198F	AHCYL1_uc010ovw.1_Silent_p.F151F|AHCYL1_uc001dyy.2_Silent_p.F151F|AHCYL1_uc010ovx.1_Silent_p.F151F	NM_006621	NP_006612	O43865	SAHH2_HUMAN	S-adenosylhomocysteine hydrolase-like 1	198					one-carbon metabolic process	endoplasmic reticulum	adenosylhomocysteinase activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0259)|Colorectal(144;0.123)|all cancers(265;0.134)|Epithelial(280;0.141)|LUSC - Lung squamous cell carcinoma(189;0.143)		TTGCAGTGTTCGCTTGGAAGG	0.458													21	82	---	---	---	---	PASS	T	110557398	T	T	110557398	2	4	133	1	0	0	0	0	0	0	0	1	410	883	31	2		2	AHCYL1	1	110557398	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	777455	110557398	138693223	22	47617										
C1orf103	55791	broad.mit.edu	37	chr1	111494237	111494237	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gaaagtgattttgtctccatCtgggaagatttacttttagc	9	6	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:111494237C>G	uc001eaa.2	-	2	1525	c.1269G>C	c.(1267-1269)CAG>CAC	p.Q423H	C1orf103_uc001dzz.2_Intron|C1orf103_uc001eab.2_Intron|C1orf103_uc001eac.1_Intron	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	423					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		TTGTCTCCATCTGGGAAGATT	0.403													106	371	---	---	---	---	PASS	G	111494237	G	G	111494237	3	3	133	1	0	0	0	0	1	0	0	0	1977	912	32	2	1052	2	C1orf103	1	111494237	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	936839	111494237	137756384	23	47618										
HMGCS2	3158	broad.mit.edu	37	chr1	120295926	120295926	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gagcagcatcctgggatactCgaaatgaaaagaaacttgct	10	8	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:120295926C>A	uc001eid.2	-	7	1322	c.1271G>T	c.(1270-1272)CGA>CTA	p.R424L	HMGCS2_uc010oxj.1_Missense_Mutation_p.R382L|HMGCS2_uc001eie.2_Missense_Mutation_p.R332L	NM_005518	NP_005509	P54868	HMCS2_HUMAN	hydroxymethylglutaryl-CoA synthase 2 isoform 1	424					acetoacetic acid biosynthetic process|cholesterol biosynthetic process|isoprenoid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA synthase activity			ovary(2)	2	all_cancers(5;6.38e-10)|all_epithelial(5;1.1e-10)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;1.29e-06)|Lung NSC(69;9.35e-06)|all_epithelial(167;0.00124)		Lung(183;0.0112)|LUSC - Lung squamous cell carcinoma(189;0.0595)		CTGGGATACTCGAAATGAAAA	0.478													10	39	---	---	---	---	PASS	A	120295926	A	A	120295926	3	1	133	1	0	0	0	0	1	0	0	0	7233	884	31	2	267	2	HMGCS2	1	120295926	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	8801689	120295926	128954695	24	47619										
HRNR	388697	broad.mit.edu	37	chr1	152191986	152191986	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtaaccagaggactgccctgAgccagacttgtgaccaaagc	11	12	0	4			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:152191986A>T	uc001ezt.1	-	3	2195	c.2119T>A	c.(2119-2121)TCA>ACA	p.S707T		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	707	7.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GACTGCCCTGAGCCAGACTTG	0.562													51	204	---	---	---	---	PASS	T	152191986	T	T	152191986	3	4	133	1	0	0	0	0	1	0	0	0	7359	304	11	5	6437	5	HRNR	1	152191986	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	31896060	152191986	97058635	25	47620										
FLG	2312	broad.mit.edu	37	chr1	152282838	152282838	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gagtgtccagacctatctacTgattgctcgtggtaggatcc	11	10	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:152282838T>G	uc001ezu.1	-	3	4560	c.4524A>C	c.(4522-4524)TCA>TCC	p.S1508S		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1508	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACCTATCTACTGATTGCTCGT	0.582									Ichthyosis				141	150	---	---	---	---	PASS	G	152282838	G	G	152282838	2	3	133	1	0	0	0	0	0	0	0	1	5922	1567	55	5		5	FLG	1	152282838	Silent	SNP	T	TCGA-60-2724-01A-01D-1522-08	90852	152282838	96967783	26	47621										
FLG	2312	broad.mit.edu	37	chr1	152284000	152284000	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cagactgttcatgagtgctcAcctggtagatgaaagaccct	10	10	2	5			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:152284000A>G	uc001ezu.1	-	3	3398	c.3362T>C	c.(3361-3363)GTG>GCG	p.V1121A	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1121	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATGAGTGCTCACCTGGTAGAT	0.607									Ichthyosis				137	146	---	---	---	---	PASS	G	152284000	G	G	152284000	3	3	133	1	0	0	0	0	1	0	0	0	5922	159	6	5	8827	5	FLG	1	152284000	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	1162	152284000	96966621	27	47622										
FLG2	388698	broad.mit.edu	37	chr1	152325501	152325501	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gagtgtggtctgtgtgagccCcctgagtgcacttcactgtc	13	11	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:152325501C>T	uc001ezw.3	-	3	4834	c.4761G>A	c.(4759-4761)GGG>GGA	p.G1587G	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1587							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTGTGAGCCCCCTGAGTGCA	0.517													117	359	---	---	---	---	PASS	T	152325501	T	T	152325501	2	4	133	1	0	0	0	0	0	0	0	1	5923	610	22	3		3	FLG2	1	152325501	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	41501	152325501	96925120	28	47623										
CHRNB2	1141	broad.mit.edu	37	chr1	154544213	154544213	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	caagtacctcatgttcaccaTggtgcttgtcaccttctcca	6	14	4	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:154544213T>C	uc001ffg.2	+	5	1178	c.914T>C	c.(913-915)ATG>ACG	p.M305T		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	305	Helical; (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	ATGTTCACCATGGTGCTTGTC	0.632													17	95	---	---	---	---	PASS	C	154544213	C	C	154544213	3	2	133	1	0	0	0	0	1	0	0	0	3391	1464	51	5	932	5	CHRNB2	1	154544213	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	2218712	154544213	94706408	29	47624										
FCRL1	115350	broad.mit.edu	37	chr1	157771929	157771929	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gaagctccagcacatcctccActgcagcctgggccctggga	11	16	0	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:157771929A>T	uc001frg.2	-	5	775	c.662T>A	c.(661-663)GTG>GAG	p.V221E	FCRL1_uc001frf.2_RNA|FCRL1_uc001frh.2_Missense_Mutation_p.V221E|FCRL1_uc001fri.2_Missense_Mutation_p.V221E|FCRL1_uc001frj.2_RNA	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	221	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CACATCCTCCACTGCAGCCTG	0.592													22	62	---	---	---	---	PASS	T	157771929	T	T	157771929	3	4	133	1	0	0	0	0	1	0	0	0	5794	159	6	5	721	5	FCRL1	1	157771929	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	3227716	157771929	91478692	30	47625										
PBX1	5087	broad.mit.edu	37	chr1	164769081	164769081	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gatgcagctcaagcagagcaCgtgcgaggcggtgatgatcc	15	10	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:164769081C>T	uc001gct.2	+	4	914	c.656C>T	c.(655-657)ACG>ATG	p.T219M	PBX1_uc010pku.1_Missense_Mutation_p.T219M|PBX1_uc010pkv.1_Missense_Mutation_p.T136M|PBX1_uc001gcs.2_Missense_Mutation_p.T219M|PBX1_uc010pkw.1_Missense_Mutation_p.T109M	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	219					negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						AAGCAGAGCACGTGCGAGGCG	0.607			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								14	38	---	---	---	---	PASS	T	164769081	T	T	164769081	3	4	133	1	0	0	0	0	1	0	0	0	11492	536	19	1	670	1	PBX1	1	164769081	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	6997152	164769081	84481540	31	47626										
F5	2153	broad.mit.edu	37	chr1	169529825	169529825	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aagcaggggcccaatcagccCcgagttgaaatcctcgatca	10	13	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:169529825C>T	uc001ggg.1	-	4	698	c.553G>A	c.(553-555)GGG>AGG	p.G185R	F5_uc010plr.1_RNA	NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	185	F5/8 type A 1.|Plastocyanin-like 1.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	CCAATCAGCCCCGAGTTGAAA	0.468													34	150	---	---	---	---	PASS	T	169529825	T	T	169529825	3	4	133	1	0	0	0	0	1	0	0	0	5348	623	22	3	6209	3	F5	1	169529825	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	4760744	169529825	79720796	32	47627										
CEP350	9857	broad.mit.edu	37	chr1	180063614	180063614	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atcaggagcttcttggtgatGaccaaaagaaagtaacaccc	9	9	2	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:180063614G>C	uc001gnt.2	+	34	8757	c.8374G>C	c.(8374-8376)GAC>CAC	p.D2792H	CEP350_uc009wxl.2_Missense_Mutation_p.D2791H|CEP350_uc001gnv.2_Missense_Mutation_p.D927H|CEP350_uc001gnw.1_Missense_Mutation_p.D549H|CEP350_uc001gnx.1_Missense_Mutation_p.D549H	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	2792						centrosome|nucleus|spindle				ovary(4)	4						TCTTGGTGATGACCAAAAGAA	0.383													15	49	---	---	---	---	PASS	C	180063614	C	C	180063614	3	2	133	1	0	0	0	0	1	0	0	0	3254	1290	45	2	8504	2	CEP350	1	180063614	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	10533789	180063614	69187007	33	47628										
RGS1	5996	broad.mit.edu	37	chr1	192548421	192548421	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agatatttacttaaatcttcTaaatgacctgcaggctaata	5	7	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:192548421T>G	uc001gsi.1	+	5	665	c.599T>G	c.(598-600)CTA>CGA	p.L200R		NM_002922	NP_002913	Q08116	RGS1_HUMAN	regulator of G-protein signalling 1	200	RGS.				immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|negative regulation of signal transduction	cytoplasm|plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity				0		Breast(1374;0.188)				TTAAATCTTCTAAATGACCTG	0.418													17	103	---	---	---	---	PASS	G	192548421	G	G	192548421	3	3	133	1	0	0	0	0	1	0	0	0	13292	1522	53	5	617	5	RGS1	1	192548421	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	12484807	192548421	56702200	34	47629										
B3GALT2	8707	broad.mit.edu	37	chr1	193150016	193150016	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttagtgttttaatggtcaaaTtatagtacgtatctaagtat	7	3	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:193150016T>G	uc001gtc.3	-	2	1392	c.677A>C	c.(676-678)AAT>ACT	p.N226T	CDC73_uc001gtb.2_Intron	NM_003783	NP_003774	O43825	B3GT2_HUMAN	UDP-Gal:betaGlcNAc beta	226	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1						AATGGTCAAATTATAGTACGT	0.343													35	105	---	---	---	---	PASS	G	193150016	G	G	193150016	3	3	133	1	0	0	0	0	1	0	0	0	1248	1493	52	5	595	5	B3GALT2	1	193150016	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	601595	193150016	56100605	35	47630										
CFHR4	10877	broad.mit.edu	37	chr1	196871618	196871618	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aagagtttgcgtagactataCtttccagcagctgcaggaca	10	9	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:196871618C>A	uc001gto.2	+	2	198	c.129C>A	c.(127-129)TAC>TAA	p.Y43*	CFHR4_uc009wyy.2_Nonsense_Mutation_p.Y42*|CFHR4_uc001gtp.2_Nonsense_Mutation_p.Y43*	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	43	Sushi 1.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						GTAGACTATACTTTCCAGCAG	0.338													46	194	---	---	---	---	PASS	A	196871618	A	A	196871618	4	1	133	1	0	0	0	0	0	1	0	0	3287	576	20	3	135	3	CFHR4	1	196871618	Nonsense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	3721602	196871618	52379003	36	47631										
F13B	2165	broad.mit.edu	37	chr1	197021830	197021830	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cacagataattcagacaatgGggttaatggagataagtcat	10	5	2	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:197021830G>A	uc001gtt.1	-	9	1533	c.1489C>T	c.(1489-1491)CCA>TCA	p.P497S		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	497	Sushi 8.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TCAGACAATGGGGTTAATGGA	0.318													33	104	---	---	---	---	PASS	A	197021830	A	A	197021830	3	1	133	1	0	0	0	0	1	0	0	0	5341	1232	43	3	512	3	F13B	1	197021830	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	150212	197021830	52228791	37	47632										
CRB1	23418	broad.mit.edu	37	chr1	197390692	197390692	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtaatatttgcagaggctgtGacccttaccttaatcgacga	9	9	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:197390692G>T	uc001gtz.2	+	6	1869	c.1734G>T	c.(1732-1734)GTG>GTT	p.V578V	CRB1_uc010poz.1_Silent_p.V509V|CRB1_uc010ppa.1_Intron|CRB1_uc009wza.2_Silent_p.V466V|CRB1_uc010ppb.1_Silent_p.V578V|CRB1_uc010ppc.1_Intron|CRB1_uc010ppd.1_Silent_p.V59V|CRB1_uc001gub.1_Silent_p.V227V	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	578	Extracellular (Potential).|Laminin G-like 1.		V -> E (in RP12).		cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						CAGAGGCTGTGACCCTTACCT	0.443													43	181	---	---	---	---	PASS	T	197390692	T	T	197390692	2	4	133	1	0	0	0	0	0	0	0	1	3848	1277	45	2		2	CRB1	1	197390692	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	368862	197390692	51859929	38	47633										
PTPRC	5788	broad.mit.edu	37	chr1	198704329	198704329	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agatgttgttgtaaagatcaAccagcacaaaagatgtccag	9	7	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:198704329A>G	uc001gur.1	+	23	2525	c.2345A>G	c.(2344-2346)AAC>AGC	p.N782S	PTPRC_uc001gus.1_Missense_Mutation_p.N734S|PTPRC_uc001gut.1_Missense_Mutation_p.N621S|PTPRC_uc010ppg.1_Missense_Mutation_p.N718S	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	782	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						GTAAAGATCAACCAGCACAAA	0.308													16	37	---	---	---	---	PASS	G	198704329	G	G	198704329	3	3	133	1	0	0	0	0	1	0	0	0	12797	43	2	5	2442	5	PTPRC	1	198704329	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	1313637	198704329	50546292	39	47634										
DDX59	83479	broad.mit.edu	37	chr1	200635655	200635655	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctcgggacttactgaatgaaCctctgccaactggccacctg	9	14	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:200635655C>G	uc009wzk.2	-	2	457	c.214G>C	c.(214-216)GTT>CTT	p.V72L	DDX59_uc010ppl.1_Missense_Mutation_p.V72L	NM_001031725	NP_001026895	Q5T1V6	DDX59_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 59	72						intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4						ACTGAATGAACCTCTGCCAAC	0.542													33	143	---	---	---	---	PASS	G	200635655	G	G	200635655	3	3	133	1	0	0	0	0	1	0	0	0	4376	507	18	4	1673	4	DDX59	1	200635655	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	1931326	200635655	48614966	40	47635										
MYOG	4656	broad.mit.edu	37	chr1	203054989	203054989	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgagctccgtccgctcgtagCctggtggttcgaagccctgg	14	13	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:203054989C>G	uc001gzd.2	-	1	389	c.101G>C	c.(100-102)GGC>GCC	p.G34A		NM_002479	NP_002470	P15173	MYOG_HUMAN	myogenin	34					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			skin(2)	2						CCGCTCGTAGCCTGGTGGTTC	0.642													30	76	---	---	---	---	PASS	G	203054989	G	G	203054989	3	3	133	1	0	0	0	0	1	0	0	0	10090	739	26	4	585	4	MYOG	1	203054989	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	2419334	203054989	46195632	41	47636										
ADORA1	134	broad.mit.edu	37	chr1	203134447	203134447	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccatagccggctgctggatcCtctccttcgtggtgggactg	13	13	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:203134447C>T	uc001gze.1	+	4	833	c.400C>T	c.(400-402)CTC>TTC	p.L134F	FMOD_uc010pqi.1_Intron|ADORA1_uc001gzf.1_Missense_Mutation_p.L134F|ADORA1_uc010pqg.1_Missense_Mutation_p.L66F|ADORA1_uc009xak.1_Missense_Mutation_p.P59L|ADORA1_uc010pqh.1_Missense_Mutation_p.L167F	NM_000674	NP_000665	P30542	AA1R_HUMAN	adenosine A1 receptor	134	Helical; Name=4; (Potential).				induction of apoptosis by extracellular signals|inflammatory response|nervous system development|phagocytosis	integral to plasma membrane				large_intestine(1)	1					Aminophylline(DB01223)|Caffeine(DB00201)|Defibrotide(DB04932)|Gabapentin(DB00996)|Imipramine(DB00458)|Pegademase bovine(DB00061)|Theophylline(DB00277)	CTGCTGGATCCTCTCCTTCGT	0.657													10	36	---	---	---	---	PASS	T	203134447	T	T	203134447	3	4	133	1	0	0	0	0	1	0	0	0	326	681	24	3	406	3	ADORA1	1	203134447	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	79458	203134447	46116174	42	47637										
USH2A	7399	broad.mit.edu	37	chr1	215813994	215813994	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	acgtactccttcagttggccGttcaggaggaaggtgtcact	12	10	3	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:215813994G>A	uc001hku.1	-	68	15261	c.14874C>T	c.(14872-14874)AAC>AAT	p.N4958N		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4958	Fibronectin type-III 35.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TCAGTTGGCCGTTCAGGAGGA	0.547										HNSCC(13;0.011)			25	64	---	---	---	---	PASS	A	215813994	A	A	215813994	2	1	133	1	0	0	0	0	0	0	0	1	17033	1136	40	1		1	USH2A	1	215813994	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	12679547	215813994	33436627	43	47638										
USH2A	7399	broad.mit.edu	37	chr1	215848658	215848658	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gattgtctgatttccccaagCttttccctcgaagcatctgc	7	13	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:215848658C>G	uc001hku.1	-	63	12982	c.12595G>C	c.(12595-12597)GCT>CCT	p.A4199P		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4199	Extracellular (Potential).|Fibronectin type-III 27.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTTCCCCAAGCTTTTCCCTCG	0.418										HNSCC(13;0.011)			42	160	---	---	---	---	PASS	G	215848658	G	G	215848658	3	3	133	1	0	0	0	0	1	0	0	0	17033	797	28	4	3053	4	USH2A	1	215848658	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	34664	215848658	33401963	44	47639										
OBSCN	84033	broad.mit.edu	37	chr1	228563434	228563434	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcttcgccatgcccggatatCggggaggtgtacgcggatgg	16	10	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:228563434C>A	uc009xez.1	+	98	22739	c.22695C>A	c.(22693-22695)ATC>ATA	p.I7565I	OBSCN_uc001hsr.1_Silent_p.I2194I	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	7565	Fibronectin type-III 4.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCCCGGATATCGGGGAGGTGT	0.617													8	18	---	---	---	---	PASS	A	228563434	A	A	228563434	2	1	133	1	0	0	0	0	0	0	0	1	10812	874	31	2		2	OBSCN	1	228563434	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	12714776	228563434	20687187	45	47640										
EGLN1	54583	broad.mit.edu	37	chr1	231503323	231503323	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aatgacgtttacctgttagaTattttactttagctcgtgct	7	7	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:231503323T>C	uc001huv.2	-	4	4364	c.1208A>G	c.(1207-1209)TAT>TGT	p.Y403C	EGLN1_uc001huu.3_Missense_Mutation_p.Y105C	NM_022051	NP_071334	Q9GZT9	EGLN1_HUMAN	egl nine homolog 1	403					negative regulation of sequence-specific DNA binding transcription factor activity|oxygen homeostasis|response to hypoxia	cytosol	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptidyl-proline dioxygenase activity|protein binding|zinc ion binding				0		Prostate(94;0.194)|Acute lymphoblastic leukemia(190;0.244)			Vitamin C(DB00126)	ACCTGTTAGATATTTTACTTT	0.373													40	173	---	---	---	---	PASS	C	231503323	C	C	231503323	3	2	133	1	0	0	0	0	1	0	0	0	4968	1406	49	5	80	5	EGLN1	1	231503323	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	2939889	231503323	17747298	46	47641										
ACTN2	88	broad.mit.edu	37	chr1	236908036	236908036	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gcgacctggcagcgcaccagGaccgcgtggagcagatcgca	15	14	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:236908036G>T	uc001hyf.2	+	12	1570	c.1366G>T	c.(1366-1368)GAC>TAC	p.D456Y	ACTN2_uc001hyg.2_Missense_Mutation_p.D248Y|ACTN2_uc009xgi.1_Missense_Mutation_p.D456Y|ACTN2_uc010pxu.1_Missense_Mutation_p.D145Y|ACTN2_uc001hyh.2_Missense_Mutation_p.D144Y	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	456	Spectrin 2.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			AGCGCACCAGGACCGCGTGGA	0.647													17	49	---	---	---	---	PASS	T	236908036	T	T	236908036	3	4	133	1	0	0	0	0	1	0	0	0	205	1174	41	2	1412	2	ACTN2	1	236908036	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	5404713	236908036	12342585	47	47642										
ACTN2	88	broad.mit.edu	37	chr1	236920893	236920893	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aagggcatcacccaggagcaGatgaatgagttcagagcctc	12	10	2	4			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:236920893G>A	uc001hyf.2	+	18	2466	c.2262G>A	c.(2260-2262)CAG>CAA	p.Q754Q	ACTN2_uc001hyg.2_Silent_p.Q546Q|ACTN2_uc009xgi.1_Silent_p.Q754Q|ACTN2_uc010pxu.1_Silent_p.Q443Q|ACTN2_uc001hyh.2_Silent_p.Q442Q	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	754	EF-hand 1.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			CCCAGGAGCAGATGAATGAGT	0.483													28	88	---	---	---	---	PASS	A	236920893	A	A	236920893	2	1	133	1	0	0	0	0	0	0	0	1	205	933	33	2		2	ACTN2	1	236920893	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	12857	236920893	12329728	48	47643										
TRIM58	25893	broad.mit.edu	37	chr1	248031147	248031147	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgtttttctttccttttcagGgtgtgagaggagtcctgagc	12	7	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:248031147G>T	uc001ido.2	+	4	796	c.748G>T	c.(748-750)GGT>TGT	p.G250C	OR2W3_uc001idp.1_5'Flank	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	250						intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TCCTTTTCAGGGTGTGAGAGG	0.463													22	82	---	---	---	---	PASS	T	248031147	T	T	248031147	3	4	133	1	0	0	0	0	1	0	0	0	16528	1246	43	3	762	3	TRIM58	1	248031147	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	11110254	248031147	1219474	49	47644										
OR2W3	343171	broad.mit.edu	37	chr1	248059533	248059533	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcccccttggtgtttatcctGctctcttacagctacattgt	6	13	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr1:248059533G>C	uc001idp.1	+	3	914	c.645G>C	c.(643-645)CTG>CTC	p.L215L	OR2W3_uc010pzb.1_Silent_p.L215L	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TGTTTATCCTGCTCTCTTACA	0.582													68	231	---	---	---	---	PASS	C	248059533	C	C	248059533	2	2	133	1	0	0	0	0	0	0	0	1	11033	1306	46	4		4	OR2W3	1	248059533	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	28386	248059533	1191088	50	47645										
WDR35	57539	broad.mit.edu	37	chr2	20174337	20174337	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgtgccatggtaccaatgaaTtccagcaatgctgatagctc	9	10	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:20174337T>G	uc002rdi.2	-	7	736	c.628A>C	c.(628-630)ATT>CTT	p.I210L	WDR35_uc002rdj.2_Missense_Mutation_p.I210L|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_5'UTR	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	210										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TACCAATGAATTCCAGCAATG	0.368													40	38	---	---	---	---	PASS	G	20174337	G	G	20174337	3	3	133	1	0	0	0	0	1	0	0	0	17286	1493	52	5	3005	5	WDR35	2	20174337	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08		20174337	223025036	51	47646										
PUM2	23369	broad.mit.edu	37	chr2	20463042	20463042	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gaagcggttgtttctgaaatCttccaataatctactgcggc	9	9	3	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:20463042C>A	uc002rds.1	-	13	2160	c.2137G>T	c.(2137-2139)GAT>TAT	p.D713Y	PUM2_uc002rdq.1_Missense_Mutation_p.D90Y|PUM2_uc002rdt.1_Missense_Mutation_p.D713Y|PUM2_uc002rdr.2_Missense_Mutation_p.D573Y|PUM2_uc010yjy.1_Missense_Mutation_p.D634Y|PUM2_uc002rdu.1_Missense_Mutation_p.D713Y|PUM2_uc010yjz.1_Missense_Mutation_p.D652Y	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2	713	PUM-HD.				regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTTCTGAAATCTTCCAATAAT	0.438													62	65	---	---	---	---	PASS	A	20463042	A	A	20463042	3	1	133	1	0	0	0	0	1	0	0	0	12826	913	32	2	1089	2	PUM2	2	20463042	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	288705	20463042	222736331	52	47647										
BIRC6	57448	broad.mit.edu	37	chr2	32730095	32730095	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	caatcacatctagcagtcctActgcccaaccagctgaagtg	7	14	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:32730095A>T	uc010ezu.2	+	50	9657	c.9523A>T	c.(9523-9525)ACT>TCT	p.T3175S		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3175					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)					TAGCAGTCCTACTGCCCAACC	0.408													20	33	---	---	---	---	PASS	T	32730095	T	T	32730095	3	4	133	1	0	0	0	0	1	0	0	0	1438	391	14	5	9721	5	BIRC6	2	32730095	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	12267053	32730095	210469278	53	47648										
PLEKHH2	130271	broad.mit.edu	37	chr2	43927520	43927520	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgtttggtacaaatagaaacGctataagcatgatacgacca	8	7	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:43927520G>T	uc010yny.1	+	8	1506	c.1423G>T	c.(1423-1425)GCT>TCT	p.A475S	PLEKHH2_uc002rte.3_Missense_Mutation_p.A475S|PLEKHH2_uc002rtf.3_Missense_Mutation_p.A474S	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	475						cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				AAATAGAAACGCTATAAGCAT	0.408													150	165	---	---	---	---	PASS	T	43927520	T	T	43927520	3	4	133	1	0	0	0	0	1	0	0	0	12077	1087	38	1	1449	1	PLEKHH2	2	43927520	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	11197425	43927520	199271853	54	47649										
REG1A	5967	broad.mit.edu	37	chr2	79350273	79350273	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	actcttctcattgacttataGgattccagaaatggaaggat	8	7	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:79350273G>C	uc002snz.2	+	6	537	c.434_splice	c.e6-1	p.G145_splice	REG1A_uc010ysd.1_Splice_Site_p.G145_splice	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor						positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						TTGACTTATAGGATTCCAGAA	0.413													54	58	---	---	---	---	PASS	C	79350273	C	C	79350273	5	2	133	1	0	0	0	0	0	0	1	0	13210	1014	35	4	451	4	REG1A	2	79350273	Splice_Site	SNP	G	TCGA-60-2724-01A-01D-1522-08	35422753	79350273	163849100	55	47650										
CTNNA2	1496	broad.mit.edu	37	chr2	79971590	79971590	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcaaagaaagcccatgtactAgctgcctctgtagagcaagc	9	11	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:79971590A>G	uc010ysh.1	+	2	185	c.180A>G	c.(178-180)CTA>CTG	p.L60L	CTNNA2_uc010yse.1_Silent_p.L60L|CTNNA2_uc010ysf.1_Silent_p.L60L|CTNNA2_uc010ysg.1_Silent_p.L60L	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	60					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						CCCATGTACTAGCTGCCTCTG	0.438													23	29	---	---	---	---	PASS	G	79971590	G	G	79971590	2	3	133	1	0	0	0	0	0	0	0	1	4013	407	15	5		5	CTNNA2	2	79971590	Silent	SNP	A	TCGA-60-2724-01A-01D-1522-08	621317	79971590	163227783	56	47651										
ADRA2B	151	broad.mit.edu	37	chr2	96781149	96781149	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cagtggacttcgagtgtccgTtgacctctctggcagaagcc	12	12	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:96781149T>C	uc002svi.2	-	1	740	c.740A>G	c.(739-741)AAC>AGC	p.N247S		NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor	247	Cytoplasmic (By similarity).				activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	CGAGTGTCCGTTGACCTCTCT	0.647													6	29	---	---	---	---	PASS	C	96781149	C	C	96781149	3	2	133	1	0	0	0	0	1	0	0	0	338	1725	60	5	607	5	ADRA2B	2	96781149	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	16809559	96781149	146418224	57	47652										
TMEM182	130827	broad.mit.edu	37	chr2	103414439	103414439	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttttctctacaaagctggggGaggctcatatattgctgcag	11	8	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:103414439G>A	uc010fjb.2	+	4	636	c.449G>A	c.(448-450)GGA>GAA	p.G150E	TMEM182_uc002tcc.3_Missense_Mutation_p.G107E|TMEM182_uc002tcd.3_Missense_Mutation_p.G54E|TMEM182_uc010ywe.1_RNA	NM_144632	NP_653233	Q6ZP80	TM182_HUMAN	transmembrane protein 182 precursor	150	Cytoplasmic (Potential).					integral to membrane					0						AAAGCTGGGGGAGGCTCATAT	0.478													22	140	---	---	---	---	PASS	A	103414439	A	A	103414439	3	1	133	1	0	0	0	0	1	0	0	0	16098	1174	41	2	463	2	TMEM182	2	103414439	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	6633290	103414439	139784934	58	47653										
IL1A	3552	broad.mit.edu	37	chr2	113537242	113537242	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gctgacctaggcttgatgatTtctaaaaccatgatcacaag	8	9	2	4			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:113537242T>C	uc002tig.2	-	5	1281	c.321A>G	c.(319-321)GAA>GAG	p.E107E		NM_000575	NP_000566	P01583	IL1A_HUMAN	interleukin 1, alpha proprotein	107					anti-apoptosis|apoptosis|cell proliferation|cellular response to heat|cytokine-mediated signaling pathway|fever generation|immune response|negative regulation of cell proliferation|positive regulation of angiogenesis|positive regulation of cell division|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of mitosis|positive regulation vascular endothelial growth factor production|response to copper ion	cytosol|extracellular space	copper ion binding|cytokine activity|interleukin-1 receptor binding			lung(1)	1						GCTTGATGATTTCTAAAACCA	0.383													25	73	---	---	---	---	PASS	C	113537242	C	C	113537242	2	2	133	1	0	0	0	0	0	0	0	1	7650	1855	64	5		5	IL1A	2	113537242	Silent	SNP	T	TCGA-60-2724-01A-01D-1522-08	10122803	113537242	129662131	59	47654										
IL1F7	27178	broad.mit.edu	37	chr2	113670672	113670672	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	accccagtgctgcttagaagGtaaggttcttgtagaaatct	10	8	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:113670672G>A	uc002tij.2	+	1	124	c.82_splice	c.e1+1	p.D28_splice	IL1F7_uc002tik.2_Splice_Site_p.G28_splice|IL1F7_uc002til.2_Splice_Site_p.D28_splice|IL1F7_uc002tim.2_Splice_Site_p.E28_splice|IL1F7_uc002tin.2_5'Flank	NM_014439	NP_055254	Q9NZH6	IL37_HUMAN	interleukin 1 family, member 7 isoform 1						immune response	cytosol|extracellular space|nucleus	cytokine activity|interleukin-1 receptor antagonist activity|interleukin-1 receptor binding				0						TGCTTAGAAGGTAAGGTTCTT	0.463													17	65	---	---	---	---	PASS	A	113670672	A	A	113670672	5	1	133	1	0	0	0	0	0	0	1	0	7655	1275	44	3	85	3	IL1F7	2	113670672	Splice_Site	SNP	G	TCGA-60-2724-01A-01D-1522-08	133430	113670672	129528701	60	47655										
PAX8	7849	broad.mit.edu	37	chr2	113993138	113993138	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cctcgggggtttcctgctttAtggcgaagggtgagtgagga	17	7	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:113993138A>G	uc010yxt.1	-	9	1086	c.920T>C	c.(919-921)ATA>ACA	p.I307T	PAX8_uc010yxu.1_Intron|PAX8_uc010yxv.1_Intron|PAX8_uc002tjm.2_Intron|PAX8_uc002tjn.2_Intron|uc002tjp.2_RNA|LOC654433_uc002tjq.3_RNA|LOC654433_uc010fks.2_RNA|LOC654433_uc010fkt.2_RNA|LOC654433_uc002tjr.3_5'Flank	NM_003466	NP_003457	Q06710	PAX8_HUMAN	paired box 8 isoform PAX8A	307					branching involved in ureteric bud morphogenesis|cellular response to gonadotropin stimulus|central nervous system development|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|metanephric collecting duct development|metanephric comma-shaped body morphogenesis|metanephric distal convoluted tubule development|metanephric nephron tubule formation|metanephric S-shaped body morphogenesis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|otic vesicle development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric field specification|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of thyroid-stimulating hormone secretion|thyroid gland development|transcription, DNA-dependent	nucleoplasm	protein binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid-stimulating hormone receptor activity			ovary(1)|lung(1)	2						TTCCTGCTTTATGGCGAAGGG	0.602			T	PPARG	follicular thyroid		Thyroid dysgenesis 						9	41	---	---	---	---	PASS	G	113993138	G	G	113993138	3	3	133	1	0	0	0	0	1	0	0	0	11485	449	16	5	448	5	PAX8	2	113993138	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	322466	113993138	129206235	61	47656										
TMEM177	80775	broad.mit.edu	37	chr2	120438821	120438821	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	acatgggcatacagtggactGgcggagcccagcaggcgccc	15	13	0	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:120438821G>T	uc010flg.1	+	2	865	c.392G>T	c.(391-393)TGG>TTG	p.W131L	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Missense_Mutation_p.W131L|TMEM177_uc002tmd.2_Missense_Mutation_p.W131L|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	131						integral to membrane				ovary(1)	1	Colorectal(110;0.196)					ACAGTGGACTGGCGGAGCCCA	0.602													56	417	---	---	---	---	PASS	T	120438821	T	T	120438821	3	4	133	1	0	0	0	0	1	0	0	0	16091	1357	47	3	394	3	TMEM177	2	120438821	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	6445683	120438821	122760552	62	47657										
RND3	390	broad.mit.edu	37	chr2	151328205	151328205	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctaatgtactaacatctgtcCgcagatcagacttgcagccg	8	12	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:151328205C>T	uc002txe.2	-	4	663	c.419G>A	c.(418-420)CGG>CAG	p.R140Q	RND3_uc002txf.2_Missense_Mutation_p.R139Q|RND3_uc002txg.2_Missense_Mutation_p.R140Q|RND3_uc010zbv.1_Intron|RND3_uc010zbw.1_Missense_Mutation_p.R11Q	NM_005168	NP_005159	P61587	RND3_HUMAN	ras homolog gene family, member E precursor	140					actin cytoskeleton organization|cell adhesion|small GTPase mediated signal transduction	Golgi membrane	GTP binding|GTPase activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.106)		AACATCTGTCCGCAGATCAGA	0.403													18	100	---	---	---	---	PASS	T	151328205	T	T	151328205	3	4	133	1	0	0	0	0	1	0	0	0	13421	652	23	1	323	1	RND3	2	151328205	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	30889384	151328205	91871168	63	47658										
DPP4	1803	broad.mit.edu	37	chr2	162851470	162851470	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttgcacaaagtttttctataCcattgcctggaaatccactc	5	11	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:162851470C>T	uc002ubz.2	-	25	2760	c.2199_splice	c.e25+1	p.M733_splice	DPP4_uc010fpb.2_Splice_Site_p.M409_splice	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV						cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	TTTTTCTATACCATTGCCTGG	0.463													15	62	---	---	---	---	PASS	T	162851470	T	T	162851470	5	4	133	1	0	0	0	0	0	0	1	0	4729	521	18	3	108	3	DPP4	2	162851470	Splice_Site	SNP	C	TCGA-60-2724-01A-01D-1522-08	11523265	162851470	80347903	64	47659										
TTC21B	79809	broad.mit.edu	37	chr2	166771833	166771833	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttctgaaggatgcttaaagcCcgttcaatatctccttgggc	9	10	3	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:166771833C>A	uc002udk.2	-	15	2149	c.2016G>T	c.(2014-2016)CGG>CGT	p.R672R		NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	672						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TGCTTAAAGCCCGTTCAATAT	0.398													40	309	---	---	---	---	PASS	A	166771833	A	A	166771833	2	1	133	1	0	0	0	0	0	0	0	1	16685	610	22	3		3	TTC21B	2	166771833	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	3920363	166771833	76427540	65	47660										
SCN7A	6332	broad.mit.edu	37	chr2	167301443	167301443	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aaccaacagggagaacaattCcagatcaagaaagttttagc	8	8	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:167301443C>G	uc002udu.1	-	12	1582	c.1455G>C	c.(1453-1455)TGG>TGC	p.W485C	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	485					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						GAGAACAATTCCAGATCAAGA	0.303													5	59	---	---	---	---	PASS	G	167301443	G	G	167301443	3	3	133	1	0	0	0	0	1	0	0	0	13923	856	30	2	3649	2	SCN7A	2	167301443	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	529610	167301443	75897930	66	47661										
LRP2	4036	broad.mit.edu	37	chr2	170061990	170061990	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agtaaccagagacacctacaGactagcatccacccagtaga	7	13	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:170061990G>C	uc002ues.2	-	41	7927	c.7714C>G	c.(7714-7716)CTG>GTG	p.L2572V		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2572	LDL-receptor class B 28.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GACACCTACAGACTAGCATCC	0.468													24	123	---	---	---	---	PASS	C	170061990	C	C	170061990	3	2	133	1	0	0	0	0	1	0	0	0	8956	956	33	2	6409	2	LRP2	2	170061990	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	2760547	170061990	73137383	67	47662										
LRP2	4036	broad.mit.edu	37	chr2	170070273	170070273	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctttcaatgacctcatactgTtcatcagtataataaaggaa	5	8	4	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:170070273T>A	uc002ues.2	-	36	6147	c.5934A>T	c.(5932-5934)GAA>GAT	p.E1978D		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1978	LDL-receptor class B 19.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CCTCATACTGTTCATCAGTAT	0.433													46	181	---	---	---	---	PASS	A	170070273	A	A	170070273	3	1	133	1	0	0	0	0	1	0	0	0	8956	1722	60	5	8209	5	LRP2	2	170070273	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	8283	170070273	73129100	68	47663										
PDE11A	50940	broad.mit.edu	37	chr2	178576540	178576540	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcccctgtggtcgaggtcatGacacaggcatcccacaatca	9	14	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:178576540G>A	uc002ulq.2	-	13	2428	c.2110C>T	c.(2110-2112)CAT>TAT	p.H704Y	PDE11A_uc002ulp.2_Missense_Mutation_p.H260Y|PDE11A_uc002ulr.2_Missense_Mutation_p.H454Y|PDE11A_uc002uls.1_Missense_Mutation_p.H346Y|PDE11A_uc002ult.1_Missense_Mutation_p.H454Y|PDE11A_uc002ulu.1_Missense_Mutation_p.H346Y	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	704	Catalytic (By similarity).	Divalent metal cation 1 (By similarity).			platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TCGAGGTCATGACACAGGCAT	0.453									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				9	59	---	---	---	---	PASS	A	178576540	A	A	178576540	3	1	133	1	0	0	0	0	1	0	0	0	11631	1290	45	2	723	2	PDE11A	2	178576540	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	8506267	178576540	64622833	69	47664										
TTN	7273	broad.mit.edu	37	chr2	179433541	179433541	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttctccccttttcatttacaGcaacaactctaaaaagatat	2	11	3	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:179433541G>A	uc010zfg.1	-	275	69838	c.69614C>T	c.(69613-69615)GCT>GTT	p.A23205V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A16900V|TTN_uc010zfi.1_Missense_Mutation_p.A16833V|TTN_uc010zfj.1_Missense_Mutation_p.A16708V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24132							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)			TTCATTTACAGCAACAACTCT	0.418													37	93	---	---	---	---	PASS	A	179433541	A	A	179433541	3	1	133	1	0	0	0	0	1	0	0	0	16732	971	34	3	30809	3	TTN	2	179433541	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	857001	179433541	63765832	70	47665										
TTN	7273	broad.mit.edu	37	chr2	179499517	179499517	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aggacttcaccagcttggtcCagtttgactttgtgcaaagt	10	9	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:179499517C>G	uc010zfg.1	-	178	34604	c.34380G>C	c.(34378-34380)CTG>CTC	p.L11460L	TTN_uc010zfh.1_Silent_p.L5155L|TTN_uc010zfi.1_Silent_p.L5088L|TTN_uc010zfj.1_Silent_p.L4963L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12387							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)			CAGCTTGGTCCAGTTTGACTT	0.398													38	173	---	---	---	---	PASS	G	179499517	G	G	179499517	2	3	133	1	0	0	0	0	0	0	0	1	16732	581	21	4		4	TTN	2	179499517	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	65976	179499517	63699856	71	47666										
GLS	2744	broad.mit.edu	37	chr2	191760377	191760377	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tctgatcccaggttgaaagaGtgtatggatatgttaagatt	11	4	1	4			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:191760377G>A	uc002usf.2	+	3	795	c.531G>A	c.(529-531)GAG>GAA	p.E177E	GLS_uc002usd.2_3'UTR|GLS_uc002use.2_Silent_p.E177E	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	177					cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GGTTGAAAGAGTGTATGGATA	0.313													13	98	---	---	---	---	PASS	A	191760377	A	A	191760377	2	1	133	1	0	0	0	0	0	0	0	1	6463	1020	36	3		3	GLS	2	191760377	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	12260860	191760377	51438996	72	47667										
SLC39A10	57181	broad.mit.edu	37	chr2	196545509	196545509	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgaaaattctgaggttattaCaccaggttttccccctaacc	6	11	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:196545509C>G	uc002utg.3	+	2	957	c.743C>G	c.(742-744)ACA>AGA	p.T248R	SLC39A10_uc002uth.3_Missense_Mutation_p.T248R|SLC39A10_uc010zgp.1_Intron	NM_001127257	NP_001120729	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter),	248					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.221)			GAGGTTATTACACCAGGTTTT	0.408													19	72	---	---	---	---	PASS	G	196545509	G	G	196545509	3	3	133	1	0	0	0	0	1	0	0	0	14613	478	17	4	745	4	SLC39A10	2	196545509	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	4785132	196545509	46653864	73	47668										
PLCL1	5334	broad.mit.edu	37	chr2	198950309	198950309	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gctggtttcttcaaaacgggGgatgtggttatgttctaagg	14	5	3	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:198950309G>T	uc010fsp.2	+	2	2359	c.2068G>T	c.(2068-2070)GGA>TGA	p.G690*	PLCL1_uc002uuv.3_Nonsense_Mutation_p.G611*	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	690	PI-PLC Y-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TCAAAACGGGGGATGTGGTTA	0.463													29	203	---	---	---	---	PASS	T	198950309	T	T	198950309	4	4	133	1	0	0	0	0	0	1	0	0	12039	1233	43	3	2074	3	PLCL1	2	198950309	Nonsense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	2404800	198950309	44249064	74	47669										
SATB2	23314	broad.mit.edu	37	chr2	200137379	200137379	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tctccttggctggctgagacTgctgtctatgaagtacctga	11	10	2	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:200137379T>A	uc002uuy.1	-	11	2574	c.1757A>T	c.(1756-1758)CAG>CTG	p.Q586L	SATB2_uc010fsq.1_Missense_Mutation_p.Q468L|SATB2_uc002uuz.1_Missense_Mutation_p.Q586L|SATB2_uc002uva.1_Missense_Mutation_p.Q586L	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	586						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGGCTGAGACTGCTGTCTATG	0.478													13	118	---	---	---	---	PASS	A	200137379	A	A	200137379	3	1	133	1	0	0	0	0	1	0	0	0	13854	1580	55	5	448	5	SATB2	2	200137379	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	1187070	200137379	43061994	75	47670										
SGOL2	151246	broad.mit.edu	37	chr2	201436332	201436332	+	Silent	SNP	A	C	C													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agacagtttaaaaatagttcAgatgtcgatattggggaaaa							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:201436332A>C	uc002uvw.2	+	7	1376	c.1263A>C	c.(1261-1263)TCA>TCC	p.S421S	SGOL2_uc010zhd.1_Silent_p.S421S|SGOL2_uc010zhe.1_Silent_p.S421S	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	421					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						AAAATAGTTCAGATGTCGATA	0.348													11	125	---	---	---	---	PASS	C	201436332	C	C	201436332	2	2	133	1	0	0	0	0	0	0	0	1	14217	175	7	5		5	SGOL2	2	201436332	Silent	SNP	A	TCGA-60-2724-01A-01D-1522-08	1298953	201436332	41763041	76	47671	875	2								
SGOL2	151246	broad.mit.edu	37	chr2	201436333	201436333	+	Missense_Mutation	SNP	G	T	T													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gacagtttaaaaatagttcaGatgtcgatattggggaaaag							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:201436333G>T	uc002uvw.2	+	7	1377	c.1264G>T	c.(1264-1266)GAT>TAT	p.D422Y	SGOL2_uc010zhd.1_Missense_Mutation_p.D422Y|SGOL2_uc010zhe.1_Missense_Mutation_p.D422Y	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	422					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						AAATAGTTCAGATGTCGATAT	0.348													11	124	---	---	---	---	PASS	T	201436333	T	T	201436333	3	4	133	1	0	0	0	0	1	0	0	0	14217	942	33	2	1286	2	SGOL2	2	201436333	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1	201436333	41763040	77	47672	875	2								
SGOL2	151246	broad.mit.edu	37	chr2	201436386	201436386	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	acagaaagatctgatgtcctGgatggcaaaaggggtgcaga	14	6	1	4			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:201436386G>T	uc002uvw.2	+	7	1430	c.1317G>T	c.(1315-1317)CTG>CTT	p.L439L	SGOL2_uc010zhd.1_Silent_p.L439L|SGOL2_uc010zhe.1_Silent_p.L439L	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	439					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						CTGATGTCCTGGATGGCAAAA	0.383													51	128	---	---	---	---	PASS	T	201436386	T	T	201436386	2	4	133	1	0	0	0	0	0	0	0	1	14217	1335	47	3		3	SGOL2	2	201436386	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	53	201436386	41762987	78	47673										
ZDBF2	57683	broad.mit.edu	37	chr2	207170059	207170059	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cgcatgaattcagataagttGgttttgtggaaagatgtaaa	11	3	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:207170059G>T	uc002vbp.2	+	5	1057	c.807G>T	c.(805-807)TTG>TTT	p.L269F		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	269							nucleic acid binding|zinc ion binding			ovary(3)	3						CAGATAAGTTGGTTTTGTGGA	0.363													4	30	---	---	---	---	PASS	T	207170059	T	T	207170059	3	4	133	1	0	0	0	0	1	0	0	0	17596	1339	47	3	817	3	ZDBF2	2	207170059	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	5733673	207170059	36029314	79	47674										
STK16	8576	broad.mit.edu	37	chr2	220110800	220110800	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	acctcttcatccagaaactgGgggaggggtgagtgtttgga	15	7	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:220110800G>T	uc002vko.2	+	2	236	c.79G>T	c.(79-81)GGG>TGG	p.G27W	GLB1L_uc010zkx.1_5'Flank|GLB1L_uc002vkm.2_5'Flank|GLB1L_uc002vkn.2_5'Flank|STK16_uc002vks.2_Missense_Mutation_p.G27W|STK16_uc010zky.1_Missense_Mutation_p.G27W|STK16_uc010fwf.2_Missense_Mutation_p.G27W|STK16_uc002vkp.2_Missense_Mutation_p.G27W|STK16_uc002vkr.2_5'UTR|STK16_uc002vkq.2_Missense_Mutation_p.G27W	NM_001008910	NP_001008910	O75716	STK16_HUMAN	serine/threonine kinase 16	27	Protein kinase.|ATP (By similarity).				protein complex assembly	membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(1)	1		Renal(207;0.0474)		Epithelial(149;1.2e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCAGAAACTGGGGGAGGGGTG	0.493													18	52	---	---	---	---	PASS	T	220110800	T	T	220110800	3	4	133	1	0	0	0	0	1	0	0	0	15288	1232	43	3	81	3	STK16	2	220110800	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	12940741	220110800	23088573	80	47675										
DGKD	8527	broad.mit.edu	37	chr2	234371076	234371076	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccagctccaagtccatggacCgtgtgtatggcaagcccaga	11	13	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:234371076C>T	uc002vui.1	+	25	3076	c.3064C>T	c.(3064-3066)CGT>TGT	p.R1022C	DGKD_uc002vuj.1_Missense_Mutation_p.R978C|DGKD_uc010fyi.1_RNA	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	1022					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	GTCCATGGACCGTGTGTATGG	0.577													14	64	---	---	---	---	PASS	T	234371076	T	T	234371076	3	4	133	1	0	0	0	0	1	0	0	0	4467	652	23	1	3186	1	DGKD	2	234371076	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	14260276	234371076	8828297	81	47676										
UGT1A10	54575	broad.mit.edu	37	chr2	234545877	234545877	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tagcctctgaaattctccaaAcccctgtcacggcatatgat	6	13	3	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:234545877A>G	uc002vur.2	+	1	755	c.709A>G	c.(709-711)ACC>GCC	p.T237A	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Missense_Mutation_p.T237A	NM_019075	NP_061948	Q9HAW8	UD110_HUMAN	UDP glycosyltransferase 1 family, polypeptide	237					flavone metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding			ovary(2)|skin(1)	3		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;1.96e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000468)|Lung(119;0.00381)|LUSC - Lung squamous cell carcinoma(224;0.008)		AATTCTCCAAACCCCTGTCAC	0.438													164	522	---	---	---	---	PASS	G	234545877	G	G	234545877	3	3	133	1	0	0	0	0	1	0	0	0	16942	43	2	5	711	5	UGT1A10	2	234545877	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	174801	234545877	8653496	82	47677										
COL6A3	1293	broad.mit.edu	37	chr2	238277605	238277605	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cctcaggcgccgtatggcgtCcagcaccggggcctgggatc	15	15	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr2:238277605C>T	uc002vwl.2	-	10	4786	c.4501G>A	c.(4501-4503)GAC>AAC	p.D1501N	COL6A3_uc002vwo.2_Missense_Mutation_p.D1295N|COL6A3_uc010znj.1_Missense_Mutation_p.D894N	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1501	VWFA 8.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CGTATGGCGTCCAGCACCGGG	0.557													17	78	---	---	---	---	PASS	T	238277605	T	T	238277605	3	4	133	1	0	0	0	0	1	0	0	0	3701	855	30	2	5172	2	COL6A3	2	238277605	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	3731728	238277605	4921768	83	47678										
C3orf32	51066	broad.mit.edu	37	chr3	8671372	8671372	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgcccgccccgtggcagccgCtgcacttgtaccgcccacgc	11	20	0	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr3:8671372C>T	uc003bqu.2	-	7	746	c.500G>A	c.(499-501)AGC>AAC	p.S167N	C3orf32_uc003bqz.2_Missense_Mutation_p.S167N|C3orf32_uc003bqt.2_Missense_Mutation_p.S116N|C3orf32_uc011atg.1_Missense_Mutation_p.S189N|C3orf32_uc003bqv.2_Missense_Mutation_p.S116N|C3orf32_uc003bqw.2_RNA|C3orf32_uc003bqx.2_RNA|C3orf32_uc003bqy.2_Missense_Mutation_p.S167N	NM_015931	NP_057015	Q9Y2M2	CC032_HUMAN	hypothetical protein LOC51066	167	Cys-rich.									skin(1)	1						GTGGCAGCCGCTGCACTTGTA	0.428													9	56	---	---	---	---	PASS	T	8671372	T	T	8671372	3	4	133	1	0	0	0	0	1	0	0	0	2222	797	28	3	585	3	C3orf32	3	8671372	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08		8671372	189351058	84	47679										
C3orf62	375341	broad.mit.edu	37	chr3	49314221	49314221	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aactccttcaaaggcccggtCaatggctgcagtcagttcct	9	13	3	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr3:49314221C>A	uc003cwn.2	-	1	288	c.85G>T	c.(85-87)GAC>TAC	p.D29Y	C3orf62_uc003cwm.2_5'Flank	NM_198562	NP_940964	Q6ZUJ4	CC062_HUMAN	hypothetical protein LOC375341	29											0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		AAGGCCCGGTCAATGGCTGCA	0.517													32	63	---	---	---	---	PASS	A	49314221	A	A	49314221	3	1	133	1	0	0	0	0	1	0	0	0	2238	826	29	2	730	2	C3orf62	3	49314221	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	40642849	49314221	148708209	85	47680										
PLXNA1	5361	broad.mit.edu	37	chr3	126734135	126734135	+	Missense_Mutation	SNP	G	T	T													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gcagtgatgtggctgtgtcgGtcggtggccggccctgctcc							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr3:126734135G>T	uc003ejg.2	+	14	2921	c.2917G>T	c.(2917-2919)GTC>TTC	p.V973F		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	996	IPT/TIG 2.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GGCTGTGTCGGTCGGTGGCCG	0.657													14	49	---	---	---	---	PASS	T	126734135	T	T	126734135	3	4	133	1	0	0	0	0	1	0	0	0	12119	1261	44	3	3040	3	PLXNA1	3	126734135	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	77419914	126734135	71288295	86	47681	876	2								
PLXNA1	5361	broad.mit.edu	37	chr3	126734145	126734145	+	Missense_Mutation	SNP	G	T	T													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggctgtgtcggtcggtggccGgccctgctccttctcctggt							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr3:126734145G>T	uc003ejg.2	+	14	2931	c.2927G>T	c.(2926-2928)CGG>CTG	p.R976L		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	999	IPT/TIG 2.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GTCGGTGGCCGGCCCTGCTCC	0.667													17	45	---	---	---	---	PASS	T	126734145	T	T	126734145	3	4	133	1	0	0	0	0	1	0	0	0	12119	1116	39	1	3050	1	PLXNA1	3	126734145	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	10	126734145	71288285	87	47682	876	2								
ZIC1	7545	broad.mit.edu	37	chr3	147128840	147128840	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tggctgtggcaaggtcttcgCgcgctccgagaatttaaaga	13	9	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr3:147128840C>G	uc003ewe.2	+	1	1660	c.941C>G	c.(940-942)GCG>GGG	p.A314G		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	314	C2H2-type 3.				behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						AAGGTCTTCGCGCGCTCCGAG	0.562													18	61	---	---	---	---	PASS	G	147128840	G	G	147128840	3	3	133	1	0	0	0	0	1	0	0	0	17675	768	27	4	943	4	ZIC1	3	147128840	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	20394695	147128840	50893590	88	47683										
BCHE	590	broad.mit.edu	37	chr3	165548316	165548316	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccctatagttcattgacactAcaataactctttcaacccga	3	13	3	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr3:165548316A>G	uc003fem.3	-	2	666	c.506T>C	c.(505-507)GTA>GCA	p.V169A	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	169					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	CATTGACACTACAATAACTCT	0.418													31	148	---	---	---	---	PASS	G	165548316	G	G	165548316	3	3	133	1	0	0	0	0	1	0	0	0	1358	391	14	5	1314	5	BCHE	3	165548316	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	18419476	165548316	32474114	89	47684										
PIK3CA	5290	broad.mit.edu	37	chr3	178952079	178952079	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tttcatgaaacaaatgaatgAtgcacatcatggtggctgga	10	6	2	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr3:178952079A>T	uc003fjk.2	+	21	3291	c.3134A>T	c.(3133-3135)GAT>GTT	p.D1045V		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1045	PI3K/PI4K.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.D1045N(2)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			CAAATGAATGATGCACATCAT	0.368		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			19	118	---	---	---	---	PASS	T	178952079	T	T	178952079	3	4	133	1	0	0	0	0	1	0	0	0	11913	333	12	5	3212	5	PIK3CA	3	178952079	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	13403763	178952079	19070351	90	47685										
CCDC39	339829	broad.mit.edu	37	chr3	180334353	180334353	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggatctcagtattttcttctAtgatatcaactaacatttca	4	8	5	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr3:180334353A>G	uc010hxe.2	-	18	2652	c.2537T>C	c.(2536-2538)ATA>ACA	p.I846T	CCDC39_uc003fkn.2_RNA|TTC14_uc003fkm.2_Intron	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	846					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			ATTTTCTTCTATGATATCAAC	0.284													11	48	---	---	---	---	PASS	G	180334353	G	G	180334353	3	3	133	1	0	0	0	0	1	0	0	0	2811	449	16	5	300	5	CCDC39	3	180334353	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	1382274	180334353	17688077	91	47686										
DLG1	1739	broad.mit.edu	37	chr3	196793577	196793577	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcaataggcttcacaaacctTcttgttgattcactggttca	6	10	5	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr3:196793577T>A	uc003fxo.3	-	21	2319	c.2129A>T	c.(2128-2130)GAA>GTA	p.E710V	DLG1_uc011bub.1_Missense_Mutation_p.E606V|DLG1_uc011buc.1_Missense_Mutation_p.E594V|DLG1_uc011bud.1_Missense_Mutation_p.E393V|DLG1_uc003fxn.3_Missense_Mutation_p.E732V|DLG1_uc011bue.1_Missense_Mutation_p.E698V|DLG1_uc010ial.2_Missense_Mutation_p.E710V	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	710					actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		TCACAAACCTTCTTGTTGATT	0.308													12	128	---	---	---	---	PASS	A	196793577	A	A	196793577	3	1	133	1	0	0	0	0	1	0	0	0	4554	1783	62	5	609	5	DLG1	3	196793577	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	16459224	196793577	1228853	92	47687										
ZNF721	170960	broad.mit.edu	37	chr4	437083	437083	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aaggctttgccacactcttcAcatttgtaaggtttctctcc	6	12	3	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:437083A>G	uc003gag.2	-	3	1864	c.1173T>C	c.(1171-1173)TGT>TGC	p.C391C	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Silent_p.C423C|ZNF721_uc010ibe.2_Silent_p.C379C	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	391						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						CACACTCTTCACATTTGTAAG	0.423													9	137	---	---	---	---	PASS	G	437083	G	G	437083	2	3	133	1	0	0	0	0	0	0	0	1	18119	157	6	5		5	ZNF721	4	437083	Silent	SNP	A	TCGA-60-2724-01A-01D-1522-08		437083	190717193	93	47688										
STK32B	55351	broad.mit.edu	37	chr4	5141686	5141686	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tggtaaagggagttttggaaAggtaagaatataaatgtctg	13	1	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:5141686A>T	uc003gih.1	+	2	171	c.107A>T	c.(106-108)AAG>ATG	p.K36M	STK32B_uc010ida.1_Translation_Start_Site	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	36	ATP (By similarity).|Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						AGTTTTGGAAAGGTAAGAATA	0.403													34	217	---	---	---	---	PASS	T	5141686	T	T	5141686	3	4	133	1	0	0	0	0	1	0	0	0	15297	86	3	5	113	5	STK32B	4	5141686	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	4704603	5141686	186012590	94	47689										
FBXL5	26234	broad.mit.edu	37	chr4	15627424	15627424	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tggactgcatggtaatgtctTtatttttccacgcagttgaa	9	7	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:15627424T>C	uc003goc.1	-	9	1404	c.1301A>G	c.(1300-1302)AAA>AGA	p.K434R	FBXL5_uc010idw.1_Missense_Mutation_p.K347R|FBXL5_uc003gob.1_Missense_Mutation_p.K308R|FBXL5_uc010idx.1_Missense_Mutation_p.K433R|FBXL5_uc003god.1_Missense_Mutation_p.K417R|FBXL5_uc010idy.1_Missense_Mutation_p.K434R	NM_012161	NP_036293	Q9UKA1	FBXL5_HUMAN	F-box and leucine-rich repeat protein 5 isoform	434					iron ion homeostasis|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|SCF ubiquitin ligase complex	iron ion binding|protein binding|ubiquitin-protein ligase activity				0						GGTAATGTCTTTATTTTTCCA	0.393													33	197	---	---	---	---	PASS	C	15627424	C	C	15627424	3	2	133	1	0	0	0	0	1	0	0	0	5722	1841	64	5	786	5	FBXL5	4	15627424	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	10485738	15627424	175526852	95	47690										
GRXCR1	389207	broad.mit.edu	37	chr4	42964979	42964979	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccttcgtgtggtccggacaaCctttgaaagatgtgaactgg	12	9	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:42964979C>T	uc003gwt.2	+	2	455	c.455C>T	c.(454-456)ACC>ATC	p.T152I		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	152	Glutaredoxin.				cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						GTCCGGACAACCTTTGAAAGA	0.388													40	281	---	---	---	---	PASS	T	42964979	T	T	42964979	3	4	133	1	0	0	0	0	1	0	0	0	6812	507	18	3	461	3	GRXCR1	4	42964979	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	27337555	42964979	148189297	96	47691										
KCTD8	386617	broad.mit.edu	37	chr4	44177016	44177016	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttcactgtttctgcgtttgtCtggtgggggtatccattgta	12	7	3	0	rs146165410		TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:44177016C>A	uc003gwu.2	-	2	1497	c.1213G>T	c.(1213-1215)GAC>TAC	p.D405Y		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	405						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						CTGCGTTTGTCTGGTGGGGGT	0.478										HNSCC(17;0.042)			108	319	---	---	---	---	PASS	A	44177016	A	A	44177016	3	1	133	1	0	0	0	0	1	0	0	0	8115	913	32	2	212	2	KCTD8	4	44177016	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	1212037	44177016	146977260	97	47692										
KIAA1211	57482	broad.mit.edu	37	chr4	57173815	57173815	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atctgttcctgaccagtcccAtggaaattgtgactcagcag	9	11	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:57173815A>T	uc003hbk.2	+	5	626	c.235A>T	c.(235-237)ATG>TTG	p.M79L	KIAA1211_uc010iha.2_Missense_Mutation_p.M72L|KIAA1211_uc011bzz.1_5'Flank|KIAA1211_uc003hbl.2_5'Flank|KIAA1211_uc003hbm.1_5'Flank	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	79										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					GACCAGTCCCATGGAAATTGT	0.502													7	49	---	---	---	---	PASS	T	57173815	T	T	57173815	3	4	133	1	0	0	0	0	1	0	0	0	8215	217	8	5	241	5	KIAA1211	4	57173815	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	12996799	57173815	133980461	98	47693										
SRP72	6731	broad.mit.edu	37	chr4	57350915	57350915	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cttctaggctgaacaatgccGcaaaatatctgccagtttac	7	11	2	1	rs149517121		TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:57350915G>T	uc003hbv.2	+	10	1011	c.971G>T	c.(970-972)CGC>CTC	p.R324L	SRP72_uc010ihe.2_Missense_Mutation_p.R263L|SRP72_uc003hbw.1_Missense_Mutation_p.R85L	NM_006947	NP_008878	O76094	SRP72_HUMAN	signal recognition particle 72kDa	324					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|nucleolus|plasma membrane|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding			ovary(1)	1	Glioma(25;0.08)|all_neural(26;0.101)					GAACAATGCCGCAAAATATCT	0.418													65	135	---	---	---	---	PASS	T	57350915	T	T	57350915	3	4	133	1	0	0	0	0	1	0	0	0	15156	1087	38	1	1009	1	SRP72	4	57350915	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	177100	57350915	133803361	99	47694										
PPP3CA	5530	broad.mit.edu	37	chr4	101984428	101984428	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aagggaccaagtaaaaacatCcatgaaatttggaagccagt	9	7	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:101984428C>A	uc011cen.1	-	9	1717	c.1042G>T	c.(1042-1044)GAT>TAT	p.D348Y	PPP3CA_uc003hvu.2_Missense_Mutation_p.D348Y|PPP3CA_uc010ilj.2_Intron|PPP3CA_uc003hvt.2_Missense_Mutation_p.D335Y|PPP3CA_uc003hvs.2_Missense_Mutation_p.D281Y|PPP3CA_uc010ilk.2_Missense_Mutation_p.D116Y	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha	348					protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)		GTAAAAACATCCATGAAATTT	0.363													23	47	---	---	---	---	PASS	A	101984428	A	A	101984428	3	1	133	1	0	0	0	0	1	0	0	0	12397	855	30	2	547	2	PPP3CA	4	101984428	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	44633513	101984428	89169848	100	47695										
BANK1	55024	broad.mit.edu	37	chr4	102946403	102946403	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgaaagcaggaagacatacgGgcagagtgcagatggagctg	16	6	0	4			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:102946403G>T	uc003hvy.3	+	9	1605	c.1331G>T	c.(1330-1332)GGG>GTG	p.G444V	BANK1_uc003hvx.3_Missense_Mutation_p.G429V|BANK1_uc010ill.2_Missense_Mutation_p.G311V|BANK1_uc003hvz.3_Missense_Mutation_p.G414V	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	444					B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		AAGACATACGGGCAGAGTGCA	0.453													43	133	---	---	---	---	PASS	T	102946403	T	T	102946403	3	4	133	1	0	0	0	0	1	0	0	0	1309	1232	43	3	1365	3	BANK1	4	102946403	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	961975	102946403	88207873	101	47696										
ELOVL6	79071	broad.mit.edu	37	chr4	110980846	110980846	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	accctggtcacaaactgactGcttcaggcctttggtcatca	8	13	4	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:110980846G>T	uc003hzz.2	-	4	412	c.286C>A	c.(286-288)CAG>AAG	p.Q96K	ELOVL6_uc003iaa.2_Missense_Mutation_p.Q96K	NM_001130721	NP_001124193	Q9H5J4	ELOV6_HUMAN	elongation of very long chain fatty acids-like	96					fatty acid elongation, saturated fatty acid|long-chain fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process		fatty acid elongase activity|protein binding			haematopoietic_and_lymphoid_tissue(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00462)		CAAACTGACTGCTTCAGGCCT	0.413													31	45	---	---	---	---	PASS	T	110980846	T	T	110980846	3	4	133	1	0	0	0	0	1	0	0	0	5078	1328	46	3	519	3	ELOVL6	4	110980846	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	8034443	110980846	80173430	102	47697										
ENPEP	2028	broad.mit.edu	37	chr4	111427862	111427862	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	caaacataactaaaagtgtgTttgattattttgaagaatac	6	4	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:111427862T>A	uc003iab.3	+	4	1330	c.988T>A	c.(988-990)TTT>ATT	p.F330I		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	330	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	TAAAAGTGTGTTTGATTATTT	0.279													9	34	---	---	---	---	PASS	A	111427862	A	A	111427862	3	1	133	1	0	0	0	0	1	0	0	0	5128	1725	60	5	1002	5	ENPEP	4	111427862	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	447016	111427862	79726414	103	47698										
TRAM1L1	133022	broad.mit.edu	37	chr4	118005974	118005974	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tagacaagttgacgagggatGtcttgttttttggttttctg	12	4	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:118005974G>T	uc003ibv.3	-	1	763	c.576C>A	c.(574-576)GAC>GAA	p.D192E		NM_152402	NP_689615	Q8N609	TR1L1_HUMAN	translocation associated membrane protein 1-like	192	Cytoplasmic (Potential).|TLC.				protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane				central_nervous_system(1)	1						GACGAGGGATGTCTTGTTTTT	0.393													43	120	---	---	---	---	PASS	T	118005974	T	T	118005974	3	4	133	1	0	0	0	0	1	0	0	0	16449	1368	48	3	537	3	TRAM1L1	4	118005974	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	6578112	118005974	73148302	104	47699										
FAT4	79633	broad.mit.edu	37	chr4	126238488	126238488	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agacgggacttatcacggtgCgggagcccctggacttcgaa	14	11	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:126238488C>T	uc003ifj.3	+	1	922	c.922C>T	c.(922-924)CGG>TGG	p.R308W		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	308	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TATCACGGTGCGGGAGCCCCT	0.667											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	29	---	---	---	---	PASS	T	126238488	T	T	126238488	3	4	133	1	0	0	0	0	1	0	0	0	5692	759	27	1	924	1	FAT4	4	126238488	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	8232514	126238488	64915788	105	47700										
FHDC1	85462	broad.mit.edu	37	chr4	153897162	153897162	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agagcatgcgcaaggtcatgCccatcaccaagtccagcaga	10	13	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:153897162C>T	uc003inf.2	+	11	2794	c.2719C>T	c.(2719-2721)CCC>TCC	p.P907S		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	907					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					CAAGGTCATGCCCATCACCAA	0.682													3	44	---	---	---	---	PASS	T	153897162	T	T	153897162	3	4	133	1	0	0	0	0	1	0	0	0	5876	739	26	3	2761	3	FHDC1	4	153897162	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	27658674	153897162	37257114	106	47701										
NPY5R	4889	broad.mit.edu	37	chr4	164271888	164271888	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctaataatttaacagcaaacCatggctactttctgatagct	5	9	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:164271888C>G	uc003iqn.2	+	4	645	c.463C>G	c.(463-465)CAT>GAT	p.H155D		NM_006174	NP_006165	Q15761	NPY5R_HUMAN	neuropeptide Y receptor Y5	155	Cytoplasmic (Potential).				cardiac left ventricle morphogenesis|outflow tract morphogenesis	integral to plasma membrane				lung(6)|skin(1)	7	all_hematologic(180;0.166)	Prostate(90;0.109)				AACAGCAAACCATGGCTACTT	0.363													107	219	---	---	---	---	PASS	G	164271888	G	G	164271888	3	3	133	1	0	0	0	0	1	0	0	0	10610	594	21	4	465	4	NPY5R	4	164271888	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	10374726	164271888	26882388	107	47702										
WDR17	116966	broad.mit.edu	37	chr4	177032832	177032832	+	Missense_Mutation	SNP	C	A	A													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	caggtttgcatattgtgcgaCcctggctatctatatttatc							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:177032832C>A	uc003iuj.2	+	3	329	c.173C>A	c.(172-174)ACC>AAC	p.T58N	WDR17_uc003iuk.2_Missense_Mutation_p.T34N|WDR17_uc003ium.3_Missense_Mutation_p.T34N|WDR17_uc003iul.1_Missense_Mutation_p.T34N	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	58										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TATTGTGCGACCCTGGCTATC	0.363													22	60	---	---	---	---	PASS	A	177032832	A	A	177032832	3	1	133	1	0	0	0	0	1	0	0	0	17274	507	18	3	179	3	WDR17	4	177032832	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	12760944	177032832	14121444	108	47703	877	2								
WDR17	116966	broad.mit.edu	37	chr4	177032833	177032833	+	Silent	SNP	C	A	A													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aggtttgcatattgtgcgacCctggctatctatatttatca							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:177032833C>A	uc003iuj.2	+	3	330	c.174C>A	c.(172-174)ACC>ACA	p.T58T	WDR17_uc003iuk.2_Silent_p.T34T|WDR17_uc003ium.3_Silent_p.T34T|WDR17_uc003iul.1_Silent_p.T34T	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	58										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		ATTGTGCGACCCTGGCTATCT	0.363													21	62	---	---	---	---	PASS	A	177032833	A	A	177032833	2	1	133	1	0	0	0	0	0	0	0	1	17274	610	22	3		3	WDR17	4	177032833	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	1	177032833	14121443	109	47704	877	2								
SPATA4	132851	broad.mit.edu	37	chr4	177116559	177116559	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gccaacgcagaacggaacgaGacaagcgggagctcttcggc	14	12	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:177116559G>C	uc003iuo.1	-	1	264	c.155C>G	c.(154-156)TCT>TGT	p.S52C		NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4	52					apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)		AACGGAACGAGACAAGCGGGA	0.592													26	81	---	---	---	---	PASS	C	177116559	C	C	177116559	3	2	133	1	0	0	0	0	1	0	0	0	15009	942	33	2	786	2	SPATA4	4	177116559	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	83726	177116559	14037717	110	47705										
ODZ3	55714	broad.mit.edu	37	chr4	183245314	183245314	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tacagttccagcgagacattGaaagcttttgatcatgattc	8	8	1	4			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:183245314G>T	uc003ivd.1	+	1	178	c.141G>T	c.(139-141)TTG>TTT	p.L47F	ODZ3_uc010irv.1_Missense_Mutation_p.L47F	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	47	Cytoplasmic (Potential).|Teneurin N-terminal.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GCGAGACATTGAAAGCTTTTG	0.507													28	71	---	---	---	---	PASS	T	183245314	T	T	183245314	3	4	133	1	0	0	0	0	1	0	0	0	10836	1281	45	2	143	2	ODZ3	4	183245314	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	6128755	183245314	7908962	111	47706										
FAT1	2195	broad.mit.edu	37	chr4	187628794	187628794	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tacactggaacccacaggctGgttttcctttacctgaatac	7	12	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr4:187628794G>A	uc003izf.2	-	2	2376	c.2188C>T	c.(2188-2190)CAG>TAG	p.Q730*	FAT1_uc010iso.1_Nonsense_Mutation_p.Q730*	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	730	Extracellular (Potential).|Cadherin 6.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CCCACAGGCTGGTTTTCCTTT	0.453										HNSCC(5;0.00058)			26	62	---	---	---	---	PASS	A	187628794	A	A	187628794	4	1	133	1	0	0	0	0	0	1	0	0	5689	1357	47	3	11682	3	FAT1	4	187628794	Nonsense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	4383480	187628794	3525482	112	47707										
ZDHHC11	79844	broad.mit.edu	37	chr5	822005	822005	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gatggacacgggtcttcatcCccttcctgtggggaagtgaa	13	10	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr5:822005C>A	uc011cma.1	-	9	1413	c.1029G>T	c.(1027-1029)GGG>GGT	p.G343G	ZDHHC11_uc010itc.2_RNA|ZDHHC11_uc003jbj.2_RNA	NM_024786	NP_079062	Q9H8X9	ZDH11_HUMAN	zinc finger, DHHC-type containing 11	343						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)|pancreas(1)	2			Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)			GGTCTTCATCCCCTTCCTGTG	0.358													6	65	---	---	---	---	PASS	A	822005	A	A	822005	2	1	133	1	0	0	0	0	0	0	0	1	17598	610	22	3		3	ZDHHC11	5	822005	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08		822005	180093255	113	47708										
NSUN2	54888	broad.mit.edu	37	chr5	6620367	6620367	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cttggcttgatggacgagcaGgtagcagcgcttgttgtcca	14	9	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr5:6620367G>A	uc003jdu.2	-	7	732	c.667C>T	c.(667-669)CTG>TTG	p.L223L	NSUN2_uc003jdt.2_5'UTR|NSUN2_uc011cmk.1_Silent_p.L188L|NSUN2_uc003jdv.2_5'UTR	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	223						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						TGGACGAGCAGGTAGCAGCGC	0.527													156	110	---	---	---	---	PASS	A	6620367	A	A	6620367	2	1	133	1	0	0	0	0	0	0	0	1	10678	991	35	3		3	NSUN2	5	6620367	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	5798362	6620367	174294893	114	47709										
PRDM9	56979	broad.mit.edu	37	chr5	23527441	23527441	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cacacaggggagaagccctaTgtctgcagggagtgtgggcg	17	9	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr5:23527441T>C	uc003jgo.2	+	11	2426	c.2244T>C	c.(2242-2244)TAT>TAC	p.Y748Y		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	748	C2H2-type 10.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AGAAGCCCTATGTCTGCAGGG	0.587										HNSCC(3;0.000094)			43	245	---	---	---	---	PASS	C	23527441	C	C	23527441	2	2	133	1	0	0	0	0	0	0	0	1	12463	1471	51	5		5	PRDM9	5	23527441	Silent	SNP	T	TCGA-60-2724-01A-01D-1522-08	16907074	23527441	157387819	115	47710										
EGFLAM	133584	broad.mit.edu	37	chr5	38425120	38425120	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctcgtgcatccatggtggcaCctgcacagcaatcaaagccg	10	14	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr5:38425120C>T	uc003jlc.1	+	13	2060	c.1736C>T	c.(1735-1737)ACC>ATC	p.T579I	EGFLAM_uc003jlb.1_Missense_Mutation_p.T579I|EGFLAM_uc003jle.1_Missense_Mutation_p.T345I|EGFLAM_uc003jlf.1_5'UTR	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	579	EGF-like 2.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					CATGGTGGCACCTGCACAGCA	0.502													75	477	---	---	---	---	PASS	T	38425120	T	T	38425120	3	4	133	1	0	0	0	0	1	0	0	0	4966	507	18	3	1800	3	EGFLAM	5	38425120	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	14897679	38425120	142490140	116	47711										
SLCO6A1	133482	broad.mit.edu	37	chr5	101735267	101735267	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atatatacataccgcgtcatGgccaagacgattggtacacc	8	11	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr5:101735267G>T	uc003knn.2	-	10	1978	c.1806C>A	c.(1804-1806)GCC>GCA	p.A602A	SLCO6A1_uc003kno.2_Silent_p.A349A|SLCO6A1_uc003knp.2_Silent_p.A602A|SLCO6A1_uc003knq.2_Silent_p.A540A	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	602	Helical; Name=10; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		ACCGCGTCATGGCCAAGACGA	0.279													18	30	---	---	---	---	PASS	T	101735267	T	T	101735267	2	4	133	1	0	0	0	0	0	0	0	1	14732	1335	47	3		3	SLCO6A1	5	101735267	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	63310147	101735267	79179993	117	47712										
PCDHA1	56147	broad.mit.edu	37	chr5	140168155	140168155	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aggcggcagagggtgtgctcTagcgagggcccacccaagac	16	12	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr5:140168155T>C	uc003lhb.2	+	1	2280	c.2280T>C	c.(2278-2280)TCT>TCC	p.S760S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Silent_p.S760S	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	760	Cytoplasmic (Potential).|5 X 4 AA repeats of P-X-X-P.				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGTGTGCTCTAGCGAGGGCC	0.587													6	25	---	---	---	---	PASS	C	140168155	C	C	140168155	2	2	133	1	0	0	0	0	0	0	0	1	11519	1509	53	5		5	PCDHA1	5	140168155	Silent	SNP	T	TCGA-60-2724-01A-01D-1522-08	38432888	140168155	40747105	118	47713										
TSPAN17	26262	broad.mit.edu	37	chr5	176084550	176084550	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atgatgactttgaaaaccacTggcttacgcccaccatttcc	6	13	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr5:176084550T>C	uc003met.2	+	9	1079	c.850T>C	c.(850-852)TGG>CGG	p.W284R	TSPAN17_uc003mes.3_3'UTR|TSPAN17_uc003meu.2_Missense_Mutation_p.W281R|TSPAN17_uc003mev.2_3'UTR|TSPAN17_uc003mew.2_3'UTR	NM_012171	NP_036303	Q96FV3	TSN17_HUMAN	transmembrane 4 superfamily member 17 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0	all_cancers(89;0.00141)|Renal(175;0.000269)|Lung NSC(126;0.00814)|all_lung(126;0.0133)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			tgaaaacCACTGGCTTACGCC	0.169													8	13	---	---	---	---	PASS	C	176084550	C	C	176084550	3	2	133	1	0	0	0	0	1	0	0	0	16638	1580	55	5	884	5	TSPAN17	5	176084550	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	35916395	176084550	4830710	119	47714										
NSD1	64324	broad.mit.edu	37	chr5	176678730	176678730	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atgttttctttctcttaacaGaattgtgaaaaattgggtga	8	4	2	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr5:176678730G>C	uc003mfr.3	+	12	4780	c.4642_splice	c.e12-1	p.N1548_splice	NSD1_uc003mft.3_Splice_Site_p.N1279_splice|NSD1_uc003mfs.1_Splice_Site_p.N1445_splice|NSD1_uc011dfx.1_Splice_Site_p.N1196_splice	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1						negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		TCTCTTAACAGAATTGTGAAA	0.289			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			31	77	---	---	---	---	PASS	C	176678730	C	C	176678730	5	2	133	1	0	0	0	0	0	0	1	0	10669	956	33	2	4683	2	NSD1	5	176678730	Splice_Site	SNP	G	TCGA-60-2724-01A-01D-1522-08	594180	176678730	4236530	120	47715										
FLT4	2324	broad.mit.edu	37	chr5	180049733	180049733	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cctggtctggtcactcactgGtcacatagaagtagatgagc	11	10	4	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr5:180049733G>T	uc003mma.3	-	12	1734	c.1655C>A	c.(1654-1656)ACC>AAC	p.T552N	FLT4_uc003mlz.3_Missense_Mutation_p.T552N|FLT4_uc003mmb.1_Missense_Mutation_p.T85N|FLT4_uc011dgy.1_Missense_Mutation_p.T552N	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	552	Ig-like C2-type 5.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	TCACTCACTGGTCACATAGAA	0.577									Congenital_Hereditary_Lymphedema				14	23	---	---	---	---	PASS	T	180049733	T	T	180049733	3	4	133	1	0	0	0	0	1	0	0	0	5944	1261	44	3	2520	3	FLT4	5	180049733	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	3371003	180049733	865527	121	47716										
SLC17A1	6568	broad.mit.edu	37	chr6	25830752	25830752	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggaacagaataaagtgctacCttttttgggaggcaaccggt	12	7	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:25830752C>G	uc003nfh.3	-	2	150	c.34G>C	c.(34-36)GTT>CTT	p.V12L	SLC17A1_uc011djy.1_RNA|SLC17A1_uc010jqb.1_Missense_Mutation_p.V10L|SLC17A1_uc010jqc.1_Missense_Mutation_p.V10L	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),	12					sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						AAAGTGCTACCTTTTTTGGGA	0.398													41	201	---	---	---	---	PASS	G	25830752	G	G	25830752	3	3	133	1	0	0	0	0	1	0	0	0	14416	695	24	4	1413	4	SLC17A1	6	25830752	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08		25830752	145284315	122	47717										
HIST1H2AD	3013	broad.mit.edu	37	chr6	26199405	26199405	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gcccacagggaactggagtcCggcccgcgaagagcgggtct	16	13	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:26199405C>A	uc003ngw.2	-	1	67	c.67G>T	c.(67-69)GGA>TGA	p.G23*	HIST1H3D_uc003ngv.2_5'UTR|HIST1H2BF_uc003ngx.2_5'Flank	NM_021065	NP_066409	P20671	H2A1D_HUMAN	histone cluster 1, H2ad	23					nucleosome assembly	nucleosome|nucleus	DNA binding				0		all_hematologic(11;0.196)				AACTGGAGTCCGGCCCGCGAA	0.607													17	37	---	---	---	---	PASS	A	26199405	A	A	26199405	4	1	133	1	0	0	0	0	0	1	0	0	7131	661	23	1	329	1	HIST1H2AD	6	26199405	Nonsense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	368653	26199405	144915662	123	47718										
HLA-DMA	3108	broad.mit.edu	37	chr6	32917165	32917165	+	Missense_Mutation	SNP	C	A	A													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cagcagatctgagggcagtgCgttccggggtactggaggaa							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:32917165C>A	uc003ocm.2	-	4	750	c.664G>T	c.(664-666)GCA>TCA	p.A222S		NM_006120	NP_006111	Q31604	Q31604_HUMAN	major histocompatibility complex, class II, DM	222						integral to membrane|MHC class II protein complex					0						GAGGGCAGTGCGTTCCGGGGT	0.587													7	33	---	---	---	---	PASS	A	32917165	A	A	32917165	3	1	133	1	0	0	0	0	1	0	0	0	7198	768	27	1	129	1	HLA-DMA	6	32917165	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	6717760	32917165	138197902	124	47719	878	2								
HLA-DMA	3108	broad.mit.edu	37	chr6	32917166	32917166	+	Silent	SNP	G	A	A													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agcagatctgagggcagtgcGttccggggtactggaggaaa							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:32917166G>A	uc003ocm.2	-	4	749	c.663C>T	c.(661-663)AAC>AAT	p.N221N		NM_006120	NP_006111	Q31604	Q31604_HUMAN	major histocompatibility complex, class II, DM	221						integral to membrane|MHC class II protein complex					0						AGGGCAGTGCGTTCCGGGGTA	0.582													7	33	---	---	---	---	PASS	A	32917166	A	A	32917166	2	1	133	1	0	0	0	0	0	0	0	1	7198	1136	40	1		1	HLA-DMA	6	32917166	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	1	32917166	138197901	125	47720	878	2								
TJAP1	93643	broad.mit.edu	37	chr6	43466779	43466779	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctaagaaaccctaccgtaagGcaccaccagagcatcgggag	10	13	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:43466779G>T	uc003ovd.2	+	4	416	c.40G>T	c.(40-42)GCA>TCA	p.A14S	TJAP1_uc003ovf.2_Missense_Mutation_p.A14S|TJAP1_uc003ove.2_Missense_Mutation_p.A14S|TJAP1_uc003ovc.2_Missense_Mutation_p.A14S|TJAP1_uc010jyp.2_5'UTR|TJAP1_uc011dvh.1_Missense_Mutation_p.A14S|TJAP1_uc003ovg.2_5'UTR|TJAP1_uc010jyq.2_Missense_Mutation_p.A14S|TJAP1_uc011dvi.1_Missense_Mutation_p.A14S|TJAP1_uc011dvj.1_5'Flank	NM_001146016	NP_001139488	Q5JTD0	TJAP1_HUMAN	tight junction associated protein 1 isoform a	14						Golgi apparatus|tight junction	protein binding				0	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0122)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CTACCGTAAGGCACCACCAGA	0.587													7	64	---	---	---	---	PASS	T	43466779	T	T	43466779	3	4	133	1	0	0	0	0	1	0	0	0	15925	1203	42	3	42	3	TJAP1	6	43466779	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	10549613	43466779	127648288	126	47721										
ICK	22858	broad.mit.edu	37	chr6	52874359	52874359	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agagtatgccatttcttataCtgatccctgatagagaagaa	8	7	1	5			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:52874359C>T	uc003pbh.2	-	13	1989	c.1499G>A	c.(1498-1500)AGT>AAT	p.S500N	ICK_uc003pbi.2_Missense_Mutation_p.S500N	NM_016513	NP_057597	Q9UPZ9	ICK_HUMAN	intestinal cell kinase	500					intracellular protein kinase cascade|multicellular organismal development	cytosol|nucleus	ATP binding|cyclin-dependent protein kinase activity|magnesium ion binding			ovary(1)|large_intestine(1)|lung(1)|kidney(1)|central_nervous_system(1)	5	Lung NSC(77;0.103)					atttcttatactgatccctga	0.269													37	130	---	---	---	---	PASS	T	52874359	T	T	52874359	3	4	133	1	0	0	0	0	1	0	0	0	7484	565	20	3	411	3	ICK	6	52874359	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	9407580	52874359	118240708	127	47722										
LCA5	167691	broad.mit.edu	37	chr6	80196890	80196890	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gatctctgctgcctttattcCcagggagaaaatttagaggg	11	8	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:80196890C>A	uc003pix.2	-	8	2360	c.1925G>T	c.(1924-1926)GGG>GTG	p.G642V	LCA5_uc003piy.2_Missense_Mutation_p.G642V	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	642					protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		GCCTTTATTCCCAGGGAGAAA	0.428													48	249	---	---	---	---	PASS	A	80196890	A	A	80196890	3	1	133	1	0	0	0	0	1	0	0	0	8656	623	22	3	172	3	LCA5	6	80196890	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	27322531	80196890	90918177	128	47723										
TBX18	9096	broad.mit.edu	37	chr6	85472389	85472389	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cccgggccgggccagggagcGcgccggagaccccttggggg	20	15	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:85472389G>T	uc003pkl.1	-	2	370	c.370C>A	c.(370-372)CGC>AGC	p.R124S	TBX18_uc010kbq.1_5'UTR	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	124					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		GCCAGGGAGCGCGCCGGAGAC	0.697													10	53	---	---	---	---	PASS	T	85472389	T	T	85472389	3	4	133	1	0	0	0	0	1	0	0	0	15650	1087	38	1	1481	1	TBX18	6	85472389	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	5275499	85472389	85642678	129	47724										
ZNF292	23036	broad.mit.edu	37	chr6	87925771	87925771	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccttggttctggaacgcttgGcattgtgagtagacctttga	12	8	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:87925771G>T	uc003plm.3	+	2	360	c.319G>T	c.(319-321)GCA>TCA	p.A107S	ZNF292_uc003pll.1_Missense_Mutation_p.A107S	NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	107					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		GGAACGCTTGGCATTGTGAGT	0.284													9	79	---	---	---	---	PASS	T	87925771	T	T	87925771	3	4	133	1	0	0	0	0	1	0	0	0	17823	1203	42	3	325	3	ZNF292	6	87925771	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	2453382	87925771	83189296	130	47725										
BVES	11149	broad.mit.edu	37	chr6	105573354	105573354	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctttttcaaggtttggatcaTgcaaaactgtccagttagtc	8	8	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:105573354T>A	uc003pqw.2	-	4	608	c.451A>T	c.(451-453)ATG>TTG	p.M151L	BVES_uc003pqx.2_Missense_Mutation_p.M151L|BVES_uc003pqy.2_Missense_Mutation_p.M151L	NM_147147	NP_671488	Q8NE79	POPD1_HUMAN	blood vessel epicardial substance isoform 5	151	Cytoplasmic (Potential).				epithelial cell-cell adhesion|muscle organ development|positive regulation of locomotion|positive regulation of receptor recycling|regulation of Cdc42 GTPase activity|regulation of cell shape|regulation of Rac GTPase activity|substrate adhesion-dependent cell spreading|vesicle-mediated transport	integral to membrane|lateral plasma membrane|tight junction	structural molecule activity				0		all_cancers(87;2.83e-05)|Acute lymphoblastic leukemia(125;1.95e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0101)|Colorectal(196;0.204)|Lung NSC(302;0.238)				GTTTGGATCATGCAAAACTGT	0.438													71	296	---	---	---	---	PASS	A	105573354	A	A	105573354	3	1	133	1	0	0	0	0	1	0	0	0	1575	1464	51	5	651	5	BVES	6	105573354	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	17647583	105573354	65541713	131	47726										
ROS1	6098	broad.mit.edu	37	chr6	117706942	117706942	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggtaggtgataattctctgaGatatccgtcccattcagcag	10	9	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:117706942G>T	uc003pxp.1	-	15	2407	c.2208C>A	c.(2206-2208)ATC>ATA	p.I736I	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	736	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		AATTCTCTGAGATATCCGTCC	0.463			T	GOPC|ROS1	glioblastoma|NSCLC								43	120	---	---	---	---	PASS	T	117706942	T	T	117706942	2	4	133	1	0	0	0	0	0	0	0	1	13531	932	33	2		2	ROS1	6	117706942	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	12133588	117706942	53408125	132	47727										
ENPP3	5169	broad.mit.edu	37	chr6	131996260	131996260	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcaaggtttaaaagccgctaCctacttttggcccggatcag	9	11	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:131996260C>A	uc003qcu.3	+	10	1150	c.803C>A	c.(802-804)ACC>AAC	p.T268N	ENPP3_uc010kfn.1_RNA|ENPP3_uc011ecc.1_Missense_Mutation_p.T234N|ENPP3_uc010kfo.1_RNA|ENPP3_uc010kfp.1_RNA|ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Missense_Mutation_p.T268N	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	268	Extracellular (Potential).|Phosphodiesterase.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		AAAGCCGCTACCTACTTTTGG	0.423													29	96	---	---	---	---	PASS	A	131996260	A	A	131996260	3	1	133	1	0	0	0	0	1	0	0	0	5131	507	18	3	837	3	ENPP3	6	131996260	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	14289318	131996260	39118807	133	47728										
MAP3K5	4217	broad.mit.edu	37	chr6	136923061	136923061	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aaacatttcagtatgaatgcCttggcctctgcagacatgga	9	9	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:136923061C>T	uc003qhc.2	-	20	3097	c.2736G>A	c.(2734-2736)AAG>AAA	p.K912K	MAP3K5_uc011edj.1_Silent_p.K159K|MAP3K5_uc011edk.1_Silent_p.K757K	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	912	Protein kinase.				activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		GTATGAATGCCTTGGCCTCTG	0.403													17	119	---	---	---	---	PASS	T	136923061	T	T	136923061	2	4	133	1	0	0	0	0	0	0	0	1	9253	680	24	3		3	MAP3K5	6	136923061	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	4926801	136923061	34192006	134	47729										
TNFAIP3	7128	broad.mit.edu	37	chr6	138200446	138200446	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttgggactccagaaaacaagGgcttttgcacactgtgtttc	10	9	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:138200446G>T	uc003qhr.2	+	7	1930	c.1864G>T	c.(1864-1866)GGC>TGC	p.G622C	TNFAIP3_uc003qhs.2_Missense_Mutation_p.G622C	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	622	Interaction with NAF1 (By similarity).|A20-type 4.				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		AGAAAACAAGGGCTTTTGCAC	0.527			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								15	125	---	---	---	---	PASS	T	138200446	T	T	138200446	3	4	133	1	0	0	0	0	1	0	0	0	16271	1232	43	3	1886	3	TNFAIP3	6	138200446	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1277385	138200446	32914621	135	47730										
IYD	389434	broad.mit.edu	37	chr6	150710499	150710499	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tatttgcagatgctgatgaaTggcaagaatcagaagaaaat	10	4	1	6			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:150710499T>A	uc003qnu.1	+	2	330	c.190T>A	c.(190-192)TGG>AGG	p.W64R	IYD_uc003qnv.1_Missense_Mutation_p.W64R|IYD_uc003qnw.1_RNA|IYD_uc003qnx.1_Missense_Mutation_p.W64R|IYD_uc010kik.1_Missense_Mutation_p.N4K	NM_203395	NP_981932	Q6PHW0	IYD1_HUMAN	iodotyrosine dehalogenase 1 isoform 2	64	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process	integral to membrane|plasma membrane				ovary(2)	2		Ovarian(120;0.028)	BRCA - Breast invasive adenocarcinoma(37;0.215)	OV - Ovarian serous cystadenocarcinoma(155;4.16e-12)		TGCTGATGAATGGCAAGAATC	0.383													22	64	---	---	---	---	PASS	A	150710499	A	A	150710499	3	1	133	1	0	0	0	0	1	0	0	0	7932	1464	51	5	196	5	IYD	6	150710499	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	12510053	150710499	20404568	136	47731										
SYNE1	23345	broad.mit.edu	37	chr6	152605113	152605113	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	actttacagttattggttacCtccaaaagctgccgtttccc	6	12	0	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:152605113C>A	uc010kiw.2	-	96	18809	c.18207G>T	c.(18205-18207)GAG>GAT	p.E6069D	SYNE1_uc010kiv.2_Missense_Mutation_p.E593D|SYNE1_uc003qos.3_Missense_Mutation_p.E593D|SYNE1_uc003qot.3_Missense_Mutation_p.E5998D|SYNE1_uc003qou.3_Missense_Mutation_p.E6069D|SYNE1_uc010kiy.1_Missense_Mutation_p.E248D	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6069	Spectrin 20.|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)		TATTGGTTACCTCCAAAAGCT	0.478										HNSCC(10;0.0054)			7	74	---	---	---	---	PASS	A	152605113	A	A	152605113	3	1	133	1	0	0	0	0	1	0	0	0	15442	695	24	3	8463	3	SYNE1	6	152605113	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	1894614	152605113	18509954	137	47732										
SYNE1	23345	broad.mit.edu	37	chr6	152655162	152655162	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cctggccaagttatcccattCtgtagtaaatttttctagga	7	9	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:152655162C>T	uc010kiw.2	-	77	13377	c.12775G>A	c.(12775-12777)GAA>AAA	p.E4259K	SYNE1_uc003qot.3_Missense_Mutation_p.E4188K|SYNE1_uc003qou.3_Missense_Mutation_p.E4259K|SYNE1_uc010kiz.2_Missense_Mutation_p.E14K	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4259	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)		TTATCCCATTCTGTAGTAAAT	0.358										HNSCC(10;0.0054)			42	279	---	---	---	---	PASS	T	152655162	T	T	152655162	3	4	133	1	0	0	0	0	1	0	0	0	15442	922	32	2	13971	2	SYNE1	6	152655162	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	50049	152655162	18459905	138	47733										
SYNE1	23345	broad.mit.edu	37	chr6	152784642	152784642	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gaatccaatgaggtaaatttCgaaaaaaatcctaaacaata	5	6	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:152784642C>A	uc010kiw.2	-	19	2545	c.1943G>T	c.(1942-1944)CGA>CTA	p.R648L	SYNE1_uc003qot.3_Missense_Mutation_p.R655L|SYNE1_uc003qou.3_Missense_Mutation_p.R648L|SYNE1_uc010kjb.1_Missense_Mutation_p.R631L|SYNE1_uc003qpa.1_Missense_Mutation_p.R648L|SYNE1_uc003qow.2_5'Flank|SYNE1_uc003qox.1_Missense_Mutation_p.R164L|SYNE1_uc003qoz.2_Missense_Mutation_p.R80L|SYNE1_uc003qoy.2_Missense_Mutation_p.R215L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	648	Potential.|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)		AGGTAAATTTCGAAAAAAATC	0.343										HNSCC(10;0.0054)			17	39	---	---	---	---	PASS	A	152784642	A	A	152784642	3	1	133	1	0	0	0	0	1	0	0	0	15442	884	31	2	25035	2	SYNE1	6	152784642	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	129480	152784642	18330425	139	47734										
RNASET2	8635	broad.mit.edu	37	chr6	167347621	167347621	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tttatccccaattttagaagCacactaaaatttaaatttaa	2	7	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:167347621C>T	uc003qve.2	-	7	857	c.450G>A	c.(448-450)GTG>GTA	p.V150V	RNASET2_uc003qvh.2_Intron|RNASET2_uc003qvf.2_Silent_p.V58V|RNASET2_uc003qvg.2_Silent_p.V87V|RNASET2_uc003qvi.1_3'UTR	NM_003730	NP_003721	O00584	RNT2_HUMAN	ribonuclease T2 precursor	150					RNA catabolic process	extracellular region	ribonuclease T2 activity|RNA binding				0		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;1.53e-19)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00665)		ATTTTAGAAGCACACTAAAAT	0.358													13	79	---	---	---	---	PASS	T	167347621	T	T	167347621	2	4	133	1	0	0	0	0	0	0	0	1	13418	697	25	3		3	RNASET2	6	167347621	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	14562979	167347621	3767446	140	47735										
MLLT4	4301	broad.mit.edu	37	chr6	168351866	168351866	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aattctttttctttttgcagCgtgttacacgttcccaagaa	6	9	2	1	rs144621028		TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr6:168351866C>T	uc003qwd.2	+	29	3950	c.3808C>T	c.(3808-3810)CGT>TGT	p.R1270C	MLLT4_uc003qwb.1_Missense_Mutation_p.R1255C|MLLT4_uc003qwc.1_Missense_Mutation_p.R1271C|MLLT4_uc003qwg.1_Missense_Mutation_p.R580C	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1271					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		CTTTTTGCAGCGTGTTACACG	0.353			T	MLL	AL								15	54	---	---	---	---	PASS	T	168351866	T	T	168351866	3	4	133	1	0	0	0	0	1	0	0	0	9629	782	27	1	3925	1	MLLT4	6	168351866	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	1004245	168351866	2763201	141	47736										
SLC29A4	222962	broad.mit.edu	37	chr7	5331371	5331371	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tttttatcagcatctgcgacGtgtggctgcagctcttctct	9	11	4	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:5331371G>T	uc003sod.2	+	5	624	c.463G>T	c.(463-465)GTG>TTG	p.V155L	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Missense_Mutation_p.V155L|SLC29A4_uc003soe.2_Silent_p.T142T	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	155	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		CATCTGCGACGTGTGGCTGCA	0.637													12	82	---	---	---	---	PASS	T	5331371	T	T	5331371	3	4	133	1	0	0	0	0	1	0	0	0	14537	1145	40	1	477	1	SLC29A4	7	5331371	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08		5331371	153807292	142	47737										
DNAH11	8701	broad.mit.edu	37	chr7	21654792	21654792	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agatgcaagaatctactcgtCtttttgaagtggctcttcca	8	9	3	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:21654792C>G	uc003svc.2	+	21	3944	c.3913C>G	c.(3913-3915)CTT>GTT	p.L1305V		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1305	Potential.|Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						ATCTACTCGTCTTTTTGAAGT	0.398									Kartagener_syndrome				25	47	---	---	---	---	PASS	G	21654792	G	G	21654792	3	3	133	1	0	0	0	0	1	0	0	0	4599	913	32	2	3995	2	DNAH11	7	21654792	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	16323421	21654792	137483871	143	47738										
DNAH11	8701	broad.mit.edu	37	chr7	21778398	21778398	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aaaaaattgatttattttatCgacgacatgaacatgcctga	6	6	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:21778398C>A	uc003svc.2	+	48	7777	c.7746C>A	c.(7744-7746)ATC>ATA	p.I2582I		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2582	AAA 3 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TTTATTTTATCGACGACATGA	0.383									Kartagener_syndrome				7	18	---	---	---	---	PASS	A	21778398	A	A	21778398	2	1	133	1	0	0	0	0	0	0	0	1	4599	874	31	2		2	DNAH11	7	21778398	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	123606	21778398	137360265	144	47739										
HOXA10	3206	broad.mit.edu	37	chr7	27213855	27213855	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccaaaaaagagttcgcggcgGggctctccgagcatgacatt	12	11	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:27213855G>T	uc011jzm.1	-	1	101	c.71C>A	c.(70-72)CCC>CAC	p.P24H	HOXA10_uc003syw.3_Intron	NM_018951	NP_061824	P31260	HXA10_HUMAN	homeobox A10 isoform a	24					spermatogenesis		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GTTCGCGGCGGGGCTCTCCGA	0.408													21	48	---	---	---	---	PASS	T	27213855	T	T	27213855	3	4	133	1	0	0	0	0	1	0	0	0	7289	1232	43	3	1169	3	HOXA10	7	27213855	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	5435457	27213855	131924808	145	47740										
SEPT14	346288	broad.mit.edu	37	chr7	55914210	55914210	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atgaggtgtttgacacttacCcacacagagaatattaaaag	8	7	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:55914210C>G	uc003tqz.2	-	3	292	c.175G>C	c.(175-177)GGG>CGG	p.G59R		NM_207366	NP_997249	Q6ZU15	SEP14_HUMAN	septin 14	59	GTP (By similarity).				cell cycle|cell division	septin complex	GTP binding|protein binding				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TGACACTTACCCACACAGAGA	0.333													41	171	---	---	---	---	PASS	G	55914210	G	G	55914210	3	3	133	1	0	0	0	0	1	0	0	0	14063	637	22	4	1155	4	SEPT14	7	55914210	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	28700355	55914210	103224453	146	47741										
ELN	2006	broad.mit.edu	37	chr7	73462840	73462840	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttccttcccccaggggttggCccccaggcagcagcagcagc	12	17	0	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:73462840C>A	uc003tzw.2	+	15	844	c.753C>A	c.(751-753)GGC>GGA	p.G251G	RFC2_uc011kfa.1_Intron|ELN_uc003tzm.1_Intron|ELN_uc011kfe.1_Silent_p.G220G|ELN_uc003tzn.2_Silent_p.G251G|ELN_uc003tzz.2_Silent_p.G215G|ELN_uc003tzo.2_Silent_p.G237G|ELN_uc003tzp.2_Silent_p.G207G|ELN_uc003tzq.2_Silent_p.G134G|ELN_uc003tzr.2_RNA|ELN_uc003tzs.2_Silent_p.G251G|ELN_uc003tzt.2_Silent_p.G256G|ELN_uc003tzu.2_Silent_p.G256G|ELN_uc003tzv.2_Silent_p.G241G|ELN_uc003tzx.2_Silent_p.G241G|ELN_uc011kff.1_Silent_p.G251G|ELN_uc003tzy.2_Silent_p.G246G	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	251	Ala-rich.				blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	CAGGGGTTGGCCCCCAGgcag	0.517			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						24	157	---	---	---	---	PASS	A	73462840	A	A	73462840	2	1	133	1	0	0	0	0	0	0	0	1	5071	726	26	3		3	ELN	7	73462840	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	17548630	73462840	85675823	147	47742										
POR	5447	broad.mit.edu	37	chr7	75613147	75613147	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcctgggtgccgacctggacGtcgtcatgtccctgaacaac	11	14	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:75613147G>T	uc003udy.2	+	10	1121	c.1039G>T	c.(1039-1041)GTC>TTC	p.V347F	POR_uc011kgc.1_Missense_Mutation_p.V155F|POR_uc011kgd.1_Missense_Mutation_p.V246F|POR_uc011kge.1_Missense_Mutation_p.V85F|POR_uc003uea.2_5'Flank	NM_000941	NP_000932	P16435	NCPR_HUMAN	cytochrome P450 reductase	344	FAD-binding FR-type.				cellular organofluorine metabolic process|positive regulation of monooxygenase activity	endoplasmic reticulum membrane	iron ion binding|NADPH-hemoprotein reductase activity			central_nervous_system(1)	1					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Lipoic Acid(DB00166)|Menadione(DB00170)|Methoxyflurane(DB01028)|Mitomycin(DB00305)|Nilutamide(DB00665)	CGACCTGGACGTCGTCATGTC	0.632													6	14	---	---	---	---	PASS	T	75613147	T	T	75613147	3	4	133	1	0	0	0	0	1	0	0	0	12257	1145	40	1	1073	1	POR	7	75613147	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	2150307	75613147	83525516	148	47743										
GRM3	2913	broad.mit.edu	37	chr7	86394673	86394673	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agggattcaacgcctggaagCcatgttgtttgctattgatg	12	7	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:86394673C>T	uc003uid.2	+	2	1311	c.212C>T	c.(211-213)GCC>GTC	p.A71V	GRM3_uc010lef.2_Missense_Mutation_p.A69V|GRM3_uc010leg.2_Intron|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	71	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	CGCCTGGAAGCCATGTTGTTT	0.428													57	147	---	---	---	---	PASS	T	86394673	T	T	86394673	3	4	133	1	0	0	0	0	1	0	0	0	6798	739	26	3	214	3	GRM3	7	86394673	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	10781526	86394673	72743990	149	47744										
GRM3	2913	broad.mit.edu	37	chr7	86479772	86479772	+	Silent	SNP	C	T	T													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gcacccaaggttcacatcatCctgtttcaaccccagaagaa							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:86479772C>T	uc003uid.2	+	5	3577	c.2478C>T	c.(2476-2478)ATC>ATT	p.I826I	GRM3_uc010lef.2_Missense_Mutation_p.P469S|GRM3_uc010leg.2_Silent_p.I698I|GRM3_uc010leh.2_Silent_p.I418I	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	826	Helical; Name=7; (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TTCACATCATCCTGTTTCAAC	0.488													29	82	---	---	---	---	PASS	T	86479772	T	T	86479772	2	4	133	1	0	0	0	0	0	0	0	1	6798	845	30	2		2	GRM3	7	86479772	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	85099	86479772	72658891	150	47745	879	2								
GRM3	2913	broad.mit.edu	37	chr7	86479773	86479773	+	Missense_Mutation	SNP	C	G	G													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cacccaaggttcacatcatcCtgtttcaaccccagaagaat							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:86479773C>G	uc003uid.2	+	5	3578	c.2479C>G	c.(2479-2481)CTG>GTG	p.L827V	GRM3_uc010lef.2_Missense_Mutation_p.P469R|GRM3_uc010leg.2_Missense_Mutation_p.L699V|GRM3_uc010leh.2_Missense_Mutation_p.L419V	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	827	Helical; Name=7; (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TCACATCATCCTGTTTCAACC	0.493													29	81	---	---	---	---	PASS	G	86479773	G	G	86479773	3	3	133	1	0	0	0	0	1	0	0	0	6798	680	24	4	2493	4	GRM3	7	86479773	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	1	86479773	72658890	151	47746	879	2								
ANKIB1	54467	broad.mit.edu	37	chr7	92028042	92028042	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtgtgaaggatgtggaactgGtgctgccagaagattcaatg	15	5	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:92028042G>C	uc003ulw.2	+	20	3425	c.3049G>C	c.(3049-3051)GTG>CTG	p.V1017L	ANKIB1_uc010lew.1_Missense_Mutation_p.V286L	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	1017							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TGTGGAACTGGTGCTGCCAGA	0.468													11	50	---	---	---	---	PASS	C	92028042	C	C	92028042	3	2	133	1	0	0	0	0	1	0	0	0	630	1261	44	4	3123	4	ANKIB1	7	92028042	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	5548269	92028042	67110621	152	47747										
PEG10	23089	broad.mit.edu	37	chr7	94293392	94293392	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	acgcaagatcagacgcctgcGccaaggcatggggtctgtca	13	12	3	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:94293392G>C	uc011kie.1	+	2	969	c.752G>C	c.(751-753)CGC>CCC	p.R251P		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	175	Necessary for interaction with ALK1.				apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			AGACGCCTGCGCCAAGGCATG	0.527													32	264	---	---	---	---	PASS	C	94293392	C	C	94293392	3	2	133	1	0	0	0	0	1	0	0	0	11719	1087	38	4	758	4	PEG10	7	94293392	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	2265350	94293392	64845271	153	47748										
RELN	5649	broad.mit.edu	37	chr7	103293160	103293160	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgagacaaaatttggtagcaGgagtctgaagttcaggattg	13	4	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:103293160G>A	uc003vca.2	-	14	1761	c.1601C>T	c.(1600-1602)CCT>CTT	p.P534L	RELN_uc010liz.2_Missense_Mutation_p.P534L	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	534					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TTTGGTAGCAGGAGTCTGAAG	0.428													47	158	---	---	---	---	PASS	A	103293160	A	A	103293160	3	1	133	1	0	0	0	0	1	0	0	0	13220	1000	35	3	8989	3	RELN	7	103293160	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	8999768	103293160	55845503	154	47749										
GPR85	54329	broad.mit.edu	37	chr7	112724772	112724772	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cagctgcatggctatagttcGccatagatggatggaggata	13	7	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:112724772G>C	uc010ljv.2	-	2	522	c.5C>G	c.(4-6)GCG>GGG	p.A2G	GPR85_uc003vgp.1_Missense_Mutation_p.A2G|GPR85_uc003vgq.2_Missense_Mutation_p.A2G|GPR85_uc010ljw.1_Missense_Mutation_p.A2G	NM_001146266	NP_001139738	P60893	GPR85_HUMAN	G protein-coupled receptor 85	2	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)	2						GCTATAGTTCGCCATAGATGG	0.398													15	31	---	---	---	---	PASS	C	112724772	C	C	112724772	3	2	133	1	0	0	0	0	1	0	0	0	6715	1087	38	4	1111	4	GPR85	7	112724772	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	9431612	112724772	46413891	155	47750										
PPP1R3A	5506	broad.mit.edu	37	chr7	113517799	113517799	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tacttctttttgacagactcTttttgtctaccctcttccca	3	13	4	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:113517799T>C	uc010ljy.1	-	4	3379	c.3348A>G	c.(3346-3348)AAA>AAG	p.K1116K		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	1116					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TGACAGACTCTTTTTGTCTAC	0.363													56	134	---	---	---	---	PASS	C	113517799	C	C	113517799	2	2	133	1	0	0	0	0	0	0	0	1	12371	1606	56	5		5	PPP1R3A	7	113517799	Silent	SNP	T	TCGA-60-2724-01A-01D-1522-08	793027	113517799	45620864	156	47751										
SPAM1	6677	broad.mit.edu	37	chr7	123593754	123593754	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atttcagagcacctcctgttAttccaaatgtgcctttcctc	5	13	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:123593754A>T	uc003vld.2	+	4	532	c.130A>T	c.(130-132)ATT>TTT	p.I44F	SPAM1_uc003vle.2_Missense_Mutation_p.I44F|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.I44F|SPAM1_uc010lku.2_Missense_Mutation_p.I44F	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	44					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	ACCTCCTGTTATTCCAAATGT	0.418													21	91	---	---	---	---	PASS	T	123593754	T	T	123593754	3	4	133	1	0	0	0	0	1	0	0	0	14986	449	16	5	132	5	SPAM1	7	123593754	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	10075955	123593754	35544909	157	47752										
PLXNA4	91584	broad.mit.edu	37	chr7	131887566	131887566	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gaggcacagcccgcagctctCacgcatggctccacacttgt	10	16	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:131887566C>A	uc003vra.3	-	12	2654	c.2425G>T	c.(2425-2427)GAG>TAG	p.E809*		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	809	PSI 3.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CCGCAGCTCTCACGCATGGCT	0.647													8	27	---	---	---	---	PASS	A	131887566	A	A	131887566	4	1	133	1	0	0	0	0	0	1	0	0	12122	835	29	2	3343	2	PLXNA4	7	131887566	Nonsense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	8293812	131887566	27251097	158	47753										
KEL	3792	broad.mit.edu	37	chr7	142641733	142641733	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aggacgcctggcctgaccttGtcctgggccatgttctgggt	14	12	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:142641733G>T	uc003wcb.2	-	12	1620	c.1410C>A	c.(1408-1410)GAC>GAA	p.D470E		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	470	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding	p.D470N(1)		ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					GCCTGACCTTGTCCTGGGCCA	0.567													7	38	---	---	---	---	PASS	T	142641733	T	T	142641733	3	4	133	1	0	0	0	0	1	0	0	0	8142	1368	48	3	820	3	KEL	7	142641733	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	10754167	142641733	16496930	159	47754										
CNTNAP2	26047	broad.mit.edu	37	chr7	147092850	147092850	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtttcgcgaatgtcagcattGacatgtgtgcgatcatagac	11	8	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:147092850G>A	uc003weu.1	+	10	2164	c.1648G>A	c.(1648-1650)GAC>AAC	p.D550N		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	550	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TGTCAGCATTGACATGTGTGC	0.428										HNSCC(39;0.1)			58	143	---	---	---	---	PASS	A	147092850	A	A	147092850	3	1	133	1	0	0	0	0	1	0	0	0	3647	1290	45	2	1686	2	CNTNAP2	7	147092850	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	4451117	147092850	12045813	160	47755										
HTR5A	3361	broad.mit.edu	37	chr7	154863283	154863283	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cgtgtactggaagatctacaAggctgccaagttccgcgtgg	13	10	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:154863283A>G	uc003wlu.1	+	1	738	c.674A>G	c.(673-675)AAG>AGG	p.K225R	uc011kvt.1_5'Flank|uc003wlt.2_5'Flank	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	225	Cytoplasmic (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		AAGATCTACAAGGCTGCCAAG	0.557													9	73	---	---	---	---	PASS	G	154863283	G	G	154863283	3	3	133	1	0	0	0	0	1	0	0	0	7450	72	3	5	676	5	HTR5A	7	154863283	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	7770433	154863283	4275380	161	47756										
WDR60	55112	broad.mit.edu	37	chr7	158663842	158663842	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcttgtttcaggccatacagTcaggtggttccaaggaagaa	11	8	3	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr7:158663842T>C	uc003woe.3	+	3	237	c.79T>C	c.(79-81)TCA>CCA	p.S27P		NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	27										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		GGCCATACAGTCAGGTGGTTC	0.488													3	46	---	---	---	---	PASS	C	158663842	C	C	158663842	3	2	133	1	0	0	0	0	1	0	0	0	17308	1667	58	5	89	5	WDR60	7	158663842	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	3800559	158663842	474821	162	47757										
BLK	640	broad.mit.edu	37	chr8	11400774	11400774	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aaagccggacaaggaaaagcCgatcaaagagaaggacaagg	13	7	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:11400774C>T	uc003wty.2	+	2	622	c.41C>T	c.(40-42)CCG>CTG	p.P14L	BLK_uc003wtz.2_Intron	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	14					intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		AAGGAAAAGCCGATCAAAGAG	0.602													17	45	---	---	---	---	PASS	T	11400774	T	T	11400774	3	4	133	1	0	0	0	0	1	0	0	0	1444	652	23	1	43	1	BLK	8	11400774	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08		11400774	134963248	163	47758										
MCM4	4173	broad.mit.edu	37	chr8	48878887	48878887	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	accgcggccgcattgcagagCccagtgtgtgcgggcgctgc	16	14	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:48878887C>G	uc003xqk.1	+	9	1068	c.973C>G	c.(973-975)CCC>GCC	p.P325A	MCM4_uc003xql.1_Missense_Mutation_p.P325A|MCM4_uc011ldi.1_Missense_Mutation_p.P312A	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	325					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				CATTGCAGAGCCCAGTGTGTG	0.642													18	56	---	---	---	---	PASS	G	48878887	G	G	48878887	3	3	133	1	0	0	0	0	1	0	0	0	9389	739	26	4	1003	4	MCM4	8	48878887	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	37478113	48878887	97485135	164	47759										
ST18	9705	broad.mit.edu	37	chr8	53071463	53071463	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cttggactggcctaccttggCatgcagactctgtggcttgt	12	11	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:53071463C>T	uc003xqz.2	-	10	1957	c.1801G>A	c.(1801-1803)GCC>ACC	p.A601T	ST18_uc011ldq.1_Missense_Mutation_p.A248T|ST18_uc011ldr.1_Missense_Mutation_p.A566T|ST18_uc011lds.1_Missense_Mutation_p.A506T|ST18_uc003xra.2_Missense_Mutation_p.A601T|ST18_uc003xrb.2_Missense_Mutation_p.A601T	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	601						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				CCTACCTTGGCATGCAGACTC	0.547													56	171	---	---	---	---	PASS	T	53071463	T	T	53071463	3	4	133	1	0	0	0	0	1	0	0	0	15211	710	25	3	1390	3	ST18	8	53071463	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	4192576	53071463	93292559	165	47760										
ATP6V1H	51606	broad.mit.edu	37	chr8	54684613	54684613	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gatatcttcgctgatatcttCatcatcgtacttctgctgtt	6	10	5	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:54684613C>A	uc003xrl.2	-	10	1137	c.985G>T	c.(985-987)GAA>TAA	p.E329*	ATP6V1H_uc003xrk.2_Nonsense_Mutation_p.E289*|ATP6V1H_uc003xrm.2_Nonsense_Mutation_p.E329*|ATP6V1H_uc003xrn.2_Nonsense_Mutation_p.E311*|ATP6V1H_uc011ldv.1_Nonsense_Mutation_p.E249*|ATP6V1H_uc010lyd.2_Nonsense_Mutation_p.E265*	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	329					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)			CTGATATCTTCATCATCGTAC	0.393													71	141	---	---	---	---	PASS	A	54684613	A	A	54684613	4	1	133	1	0	0	0	0	0	1	0	0	1189	835	29	2	486	2	ATP6V1H	8	54684613	Nonsense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	1613150	54684613	91679409	166	47761										
CHD7	55636	broad.mit.edu	37	chr8	61750802	61750802	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gagtcagaagggaaaggttcCacatttgctaaggtgtgaat	13	5	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:61750802C>T	uc003xue.2	+	19	4998	c.4521C>T	c.(4519-4521)TCC>TCT	p.S1507S		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1507					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)			GGAAAGGTTCCACATTTGCTA	0.418													7	23	---	---	---	---	PASS	T	61750802	T	T	61750802	2	4	133	1	0	0	0	0	0	0	0	1	3330	581	21	3		3	CHD7	8	61750802	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	7066189	61750802	84613220	167	47762										
TRPA1	8989	broad.mit.edu	37	chr8	72967808	72967808	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcacttatgtcttgtaggagCctctgacaggtattgatacg	10	8	3	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:72967808C>A	uc003xza.2	-	12	1567	c.1392G>T	c.(1390-1392)AGG>AGT	p.R464S		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	464	ANK 11.|Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	CTTGTAGGAGCCTCTGACAGG	0.388													36	167	---	---	---	---	PASS	A	72967808	A	A	72967808	3	1	133	1	0	0	0	0	1	0	0	0	16574	738	26	3	2031	3	TRPA1	8	72967808	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	11217006	72967808	73396214	168	47763										
KCNB2	9312	broad.mit.edu	37	chr8	73480336	73480336	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cactttcgtttggccaagaaCttgattactgggggattgat	11	7	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:73480336C>A	uc003xzb.2	+	2	955	c.367C>A	c.(367-369)CTT>ATT	p.L123I		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	123	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			TGGCCAAGAACTTGATTACTG	0.453													75	162	---	---	---	---	PASS	A	73480336	A	A	73480336	3	1	133	1	0	0	0	0	1	0	0	0	8013	565	20	3	369	3	KCNB2	8	73480336	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	512528	73480336	72883686	169	47764										
TERF1	7013	broad.mit.edu	37	chr8	73958325	73958325	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcatgttaaaagacagatggAggaccatgaagaaactaaaa	9	5	1	4			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:73958325A>G	uc003xzd.2	+	10	1298	c.1273A>G	c.(1273-1275)AGG>GGG	p.R425G	TERF1_uc003xze.2_Missense_Mutation_p.R405G	NM_017489	NP_059523	P54274	TERF1_HUMAN	telomeric repeat binding factor 1 isoform 1	425	H-T-H motif.|HTH myb-type.				age-dependent telomere shortening|cell division|G2/M transition of mitotic cell cycle|induction of apoptosis|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of telomere maintenance via semi-conservative replication|negative regulation of telomere maintenance via telomerase|positive regulation of microtubule polymerization|positive regulation of mitosis|positive regulation of mitotic cell cycle|protein homooligomerization|regulation of transcription, DNA-dependent|telomere maintenance via telomerase|telomere maintenance via telomerase|telomere maintenance via telomere shortening	chromosome, telomeric region|cytoplasm|nuclear telomere cap complex|nucleoplasm|nucleus|spindle	caspase activator activity|DNA bending activity|double-stranded telomeric DNA binding|identical protein binding|microtubule binding|protein heterodimerization activity|protein homodimerization activity|telomerase inhibitor activity|telomeric DNA binding			ovary(1)|lung(1)|skin(1)	3	Breast(64;0.218)		Epithelial(68;0.0984)			AGACAGATGGAGGACCATGAA	0.383													25	129	---	---	---	---	PASS	G	73958325	G	G	73958325	3	3	133	1	0	0	0	0	1	0	0	0	15758	295	11	5	1311	5	TERF1	8	73958325	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	477989	73958325	72405697	170	47765										
ZFHX4	79776	broad.mit.edu	37	chr8	77767923	77767923	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agcaatccctttaaatccaaAagtaatgatcggccgggtca	8	10	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:77767923A>G	uc003yav.2	+	10	9018	c.8631A>G	c.(8629-8631)AAA>AAG	p.K2877K	ZFHX4_uc003yau.1_Silent_p.K2922K|ZFHX4_uc003yaw.1_Silent_p.K2877K	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2877						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTAAATCCAAAAGTAATGATC	0.512										HNSCC(33;0.089)			21	87	---	---	---	---	PASS	G	77767923	G	G	77767923	2	3	133	1	0	0	0	0	0	0	0	1	17632	11	1	5		5	ZFHX4	8	77767923	Silent	SNP	A	TCGA-60-2724-01A-01D-1522-08	3809598	77767923	68596099	171	47766										
PMP2	5375	broad.mit.edu	37	chr8	82359589	82359589	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcaaagttctcactagagacAagtttccaggtgcccaggaa	9	10	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:82359589A>T	uc003ycb.1	-	1	131	c.33T>A	c.(31-33)CTT>CTA	p.L11L	PMP2_uc010lzv.1_RNA	NM_002677	NP_002668	P02689	MYP2_HUMAN	peripheral myelin protein 2	11						cytoplasm	cholesterol binding|fatty acid binding|transporter activity				0			Epithelial(68;0.186)			CACTAGAGACAAGTTTCCAGG	0.418													31	188	---	---	---	---	PASS	T	82359589	T	T	82359589	2	4	133	1	0	0	0	0	0	0	0	1	12138	117	5	5		5	PMP2	8	82359589	Silent	SNP	A	TCGA-60-2724-01A-01D-1522-08	4591666	82359589	64004433	172	47767										
RALYL	138046	broad.mit.edu	37	chr8	85441619	85441619	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gaccccaagtccatcaactcCcgtgttttcatcggcaatct	6	15	3	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:85441619C>A	uc003ycq.3	+	3	479	c.63C>A	c.(61-63)TCC>TCA	p.S21S	RALYL_uc003ycr.3_Silent_p.S21S|RALYL_uc003ycs.3_Silent_p.S21S|RALYL_uc010lzy.2_Silent_p.S21S|RALYL_uc003yct.3_Silent_p.S34S	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2	21	RRM.						identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						CCATCAACTCCCGTGTTTTCA	0.383													10	47	---	---	---	---	PASS	A	85441619	A	A	85441619	2	1	133	1	0	0	0	0	0	0	0	1	13020	610	22	3		3	RALYL	8	85441619	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	3082030	85441619	60922403	173	47768										
CNGB3	54714	broad.mit.edu	37	chr8	87738864	87738864	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttgtggtcagatctccagagGaatttttcttggagagtttg	12	5	3	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:87738864G>A	uc003ydx.2	-	3	279	c.233C>T	c.(232-234)TCC>TTC	p.S78F		NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	78	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						ATCTCCAGAGGAATTTTTCTT	0.428													193	458	---	---	---	---	PASS	A	87738864	A	A	87738864	3	1	133	1	0	0	0	0	1	0	0	0	3601	1174	41	2	2260	2	CNGB3	8	87738864	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	2297245	87738864	58625158	174	47769										
SLC26A7	115111	broad.mit.edu	37	chr8	92352656	92352656	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccctcacctagagctcccccGatgaacatcctctctgcggt	7	18	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:92352656G>C	uc003yex.2	+	9	1181	c.903G>C	c.(901-903)CCG>CCC	p.P301P	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Silent_p.P301P|SLC26A7_uc003yfa.2_Silent_p.P301P	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	301	Cytoplasmic (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)			GAGCTCCCCCGATGAACATCC	0.443													26	190	---	---	---	---	PASS	C	92352656	C	C	92352656	2	2	133	1	0	0	0	0	0	0	0	1	14522	1045	37	2		2	SLC26A7	8	92352656	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	4613792	92352656	54011366	175	47770										
RRM2B	50484	broad.mit.edu	37	chr8	103231116	103231116	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cttctttagccagaatatagCagcaaaagatcctgagaaga	8	8	1	4			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:103231116C>A	uc003ykn.2	-	6	854	c.610G>T	c.(610-612)GCT>TCT	p.A204S	RRM2B_uc003yko.2_RNA|RRM2B_uc010mbv.1_Missense_Mutation_p.A152S|RRM2B_uc010mbw.1_Intron|RRM2B_uc010mbx.1_Intron|RRM2B_uc010mby.1_Intron	NM_015713	NP_056528	Q7LG56	RIR2B_HUMAN	ribonucleotide reductase M2 B (TP53 inducible)	204					deoxyribonucleoside diphosphate metabolic process|DNA repair|nucleobase, nucleoside and nucleotide interconversion	nucleoplasm	ribonucleoside-diphosphate reductase activity|transition metal ion binding			ovary(2)	2	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000728)			CAGAATATAGCAGCAAAAGAT	0.398								Direct_reversal_of_damage|Modulation_of_nucleotide_pools					41	268	---	---	---	---	PASS	A	103231116	A	A	103231116	3	1	133	1	0	0	0	0	1	0	0	0	13683	710	25	3	461	3	RRM2B	8	103231116	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	10878460	103231116	43132906	176	47771										
ENPP2	5168	broad.mit.edu	37	chr8	120569785	120569785	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atctcgctctcatatgtatgCaggtatgtcttgagtgtcag	10	8	4	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:120569785C>T	uc003yot.1	-	25	2654	c.2568G>A	c.(2566-2568)CTG>CTA	p.L856L	ENPP2_uc011lic.1_Silent_p.L394L|ENPP2_uc003yor.1_Silent_p.L491L|ENPP2_uc003yos.1_Silent_p.L908L|ENPP2_uc010mdd.1_Silent_p.L881L	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	856					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CATATGTATGCAGGTATGTCT	0.403													39	201	---	---	---	---	PASS	T	120569785	T	T	120569785	2	4	133	1	0	0	0	0	0	0	0	1	5130	697	25	3		3	ENPP2	8	120569785	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	17338669	120569785	25794237	177	47772										
FER1L6	654463	broad.mit.edu	37	chr8	125035683	125035683	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	caactccctctattcccacaGccccagcacactatccctga	3	20	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:125035683G>C	uc003yqw.2	+	18	2340	c.2134_splice	c.e18-1	p.P712_splice	uc003yqx.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6							integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TATTCCCACAGCCCCAGCACA	0.498													59	272	---	---	---	---	PASS	C	125035683	C	C	125035683	5	2	133	1	0	0	0	0	0	0	1	0	5815	985	34	4	2199	4	FER1L6	8	125035683	Splice_Site	SNP	G	TCGA-60-2724-01A-01D-1522-08	4465898	125035683	21328339	178	47773										
ZNF572	137209	broad.mit.edu	37	chr8	125989627	125989627	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtcagaactgcaatgtgataGaagaatgcagaatccagtta	10	6	1	5			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:125989627G>T	uc003yrr.2	+	3	1272	c.1117G>T	c.(1117-1119)GAA>TAA	p.E373*		NM_152412	NP_689625	Q7Z3I7	ZN572_HUMAN	zinc finger protein 572	373					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			CAATGTGATAGAAGAATGCAG	0.393										HNSCC(60;0.17)			12	167	---	---	---	---	PASS	T	125989627	T	T	125989627	4	4	133	1	0	0	0	0	0	1	0	0	18001	943	33	2	1123	2	ZNF572	8	125989627	Nonsense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	953944	125989627	20374395	179	47774										
OC90	729330	broad.mit.edu	37	chr8	133051285	133051285	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gaggtgtccagaaggttcagGgaagagttgaggctggatcg	18	5	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:133051285G>T	uc003ytg.2	-	5	495	c.495C>A	c.(493-495)TCC>TCA	p.S165S	OC90_uc011lix.1_Silent_p.S181S	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	181	Phospholipase A2-like 1.				lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GAAGGTTCAGGGAAGAGTTGA	0.562													17	70	---	---	---	---	PASS	T	133051285	T	T	133051285	2	4	133	1	0	0	0	0	0	0	0	1	10814	1219	43	3		3	OC90	8	133051285	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	7061658	133051285	13312737	180	47775										
SCRIB	23513	broad.mit.edu	37	chr8	144877216	144877216	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctgggcactcaccctctgcaCgctgccagcgctgggcacgg	13	17	2	0	rs144293240		TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:144877216C>T	uc003yzp.1	-	27	3845	c.3838G>A	c.(3838-3840)GTG>ATG	p.V1280M	SCRIB_uc003yzn.1_Translation_Start_Site|SCRIB_uc003yzo.1_Missense_Mutation_p.V1280M	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	1280					activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			ACCCTCTGCACGCTGCCAGCG	0.687													11	35	---	---	---	---	PASS	T	144877216	T	T	144877216	3	4	133	1	0	0	0	0	1	0	0	0	13937	536	19	1	1173	1	SCRIB	8	144877216	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	11825931	144877216	1486806	181	47776										
PLEC	5339	broad.mit.edu	37	chr8	144993255	144993255	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atggtggagccgccgtggctGccgccgccgggaatgtcgat	17	12	0	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:144993255G>T	uc003zaf.1	-	32	11315	c.11145C>A	c.(11143-11145)GGC>GGA	p.G3715G	PLEC_uc003zab.1_Silent_p.G3578G|PLEC_uc003zac.1_Silent_p.G3582G|PLEC_uc003zad.2_Silent_p.G3578G|PLEC_uc003zae.1_Silent_p.G3546G|PLEC_uc003zag.1_Silent_p.G3556G|PLEC_uc003zah.2_Silent_p.G3564G|PLEC_uc003zaj.2_Silent_p.G3605G	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3715	Globular 2.				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						CGCCGTGGCTGCCGCCGCCGG	0.647													58	81	---	---	---	---	PASS	T	144993255	T	T	144993255	2	4	133	1	0	0	0	0	0	0	0	1	12052	1306	46	3		3	PLEC	8	144993255	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	116039	144993255	1370767	182	47777										
RPL8	6132	broad.mit.edu	37	chr8	146015194	146015194	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttgaggccctcagcactagtTctctttctcctgcacagtct	7	14	4	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr8:146015194T>C	uc003zeb.2	-	6	880	c.769A>G	c.(769-771)AAC>GAC	p.N257D	RPL8_uc003zdz.2_RNA|RPL8_uc003zea.2_Missense_Mutation_p.N221D|RPL8_uc003zec.2_Missense_Mutation_p.N257D	NM_033301	NP_150644	P62917	RL8_HUMAN	ribosomal protein L8	257					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	rRNA binding|structural constituent of ribosome				0	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;5.47e-39)|OV - Ovarian serous cystadenocarcinoma(54;6.38e-39)|all cancers(56;5.47e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.191)		CAGCACTAGTTCTCTTTCTCC	0.582													69	431	---	---	---	---	PASS	C	146015194	C	C	146015194	3	2	133	1	0	0	0	0	1	0	0	0	13602	1783	62	5	8	5	RPL8	8	146015194	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	1021939	146015194	348828	183	47778										
SYK	6850	broad.mit.edu	37	chr9	93650155	93650155	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtgggaagcattctcctatgGgcagaagccatatcgagtga	13	8	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr9:93650155G>T	uc004aqz.2	+	12	1911	c.1706G>T	c.(1705-1707)GGG>GTG	p.G569V	SYK_uc004ara.2_Missense_Mutation_p.G546V|SYK_uc004arb.2_Missense_Mutation_p.G546V|SYK_uc004arc.2_Missense_Mutation_p.G569V|SYK_uc011ltr.1_RNA|SYK_uc011lts.1_RNA|SYK_uc011ltt.1_RNA	NM_003177	NP_003168	P43405	KSYK_HUMAN	spleen tyrosine kinase isoform 1	569	Protein kinase.				cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						TTCTCCTATGGGCAGAAGCCA	0.468			T	ETV6|ITK	MDS|peripheral T-cell lymphoma								22	53	---	---	---	---	PASS	T	93650155	T	T	93650155	3	4	133	1	0	0	0	0	1	0	0	0	15435	1232	43	3	1748	3	SYK	9	93650155	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08		93650155	47563276	184	47779										
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112900186	112900186	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	attccccttcctccacgctgGgggactctccgttggttgat	10	14	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr9:112900186G>T	uc004bei.2	+	9	3250	c.3058G>T	c.(3058-3060)GGG>TGG	p.G1020W	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.G788W|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.G788W|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.G598W|AKAP2_uc011lwi.1_Missense_Mutation_p.G646W|AKAP2_uc004bem.2_Missense_Mutation_p.G646W|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.G606W|AKAP2_uc011lwj.1_Missense_Mutation_p.G557W|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.G557W	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	557							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						CTCCACGCTGGGGGACTCTCC	0.552													24	72	---	---	---	---	PASS	T	112900186	T	T	112900186	3	4	133	1	0	0	0	0	1	0	0	0	11410	1232	43	3	2392	3	PALM2-AKAP2	9	112900186	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	19250031	112900186	28313245	185	47780										
CRB2	286204	broad.mit.edu	37	chr9	126128327	126128327	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggggcacccgttgccagctgGacctcgacgagtgccagagc	15	14	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr9:126128327G>T	uc004bnx.1	+	3	642	c.550G>T	c.(550-552)GAC>TAC	p.D184Y	CRB2_uc004bnw.1_Missense_Mutation_p.D184Y	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	184	Extracellular (Potential).|EGF-like 4; calcium-binding (Potential).					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						TTGCCAGCTGGACCTCGACGA	0.751													5	9	---	---	---	---	PASS	T	126128327	T	T	126128327	3	4	133	1	0	0	0	0	1	0	0	0	3849	1174	41	2	560	2	CRB2	9	126128327	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	13228141	126128327	15085104	186	47781										
ITGA8	8516	broad.mit.edu	37	chr10	15655666	15655666	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cggactaactcaccaggcagCagatgtcatagagtctggaa	11	10	3	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr10:15655666C>A	uc001ioc.1	-	15	1546	c.1546G>T	c.(1546-1548)GCT>TCT	p.A516S	ITGA8_uc010qcb.1_Missense_Mutation_p.A501S	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	516	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						CACCAGGCAGCAGATGTCATA	0.274													49	223	---	---	---	---	PASS	A	15655666	A	A	15655666	3	1	133	1	0	0	0	0	1	0	0	0	7882	710	25	3	1709	3	ITGA8	10	15655666	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08		15655666	119879081	187	47782										
ZNF32	7580	broad.mit.edu	37	chr10	44139991	44139991	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tggccctgaagctttttccaCagtgggtgcactcaaaaggc	11	11	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr10:44139991C>A	uc001jbb.2	-	3	518	c.329G>T	c.(328-330)TGT>TTT	p.C110F	uc001jba.2_Intron|ZNF32_uc001jbc.2_Missense_Mutation_p.C110F	NM_001005368	NP_001005368	P17041	ZNF32_HUMAN	zinc finger protein 32	110	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		all_neural(218;0.0182)|Ovarian(717;0.0443)|Renal(717;0.157)		Lung(62;0.179)		GCTTTTTCCACAGTGGGTGCA	0.468													30	112	---	---	---	---	PASS	A	44139991	A	A	44139991	3	1	133	1	0	0	0	0	1	0	0	0	17835	478	17	3	496	3	ZNF32	10	44139991	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	28484325	44139991	91394756	188	47783										
LIPK	643414	broad.mit.edu	37	chr10	90486621	90486621	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	caacaaaagatggttatatcCttggaatttataggattcca	7	6	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr10:90486621C>A	uc010qmv.1	+	2	175	c.175C>A	c.(175-177)CTT>ATT	p.L59I		NM_001080518	NP_001073987	Q5VXJ0	LIPK_HUMAN	lipase, family member K precursor	59					lipid catabolic process	extracellular region	hydrolase activity			ovary(2)	2		Colorectal(252;0.0381)		Colorectal(12;7.03e-05)|COAD - Colon adenocarcinoma(12;8.33e-05)		TGGTTATATCCTTGGAATTTA	0.343													10	19	---	---	---	---	PASS	A	90486621	A	A	90486621	3	1	133	1	0	0	0	0	1	0	0	0	8827	681	24	3	181	3	LIPK	10	90486621	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	46346630	90486621	45048126	189	47784										
HTR7	3363	broad.mit.edu	37	chr10	92509212	92509212	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gatcaagcacaccttatcatCatttacattctgagcccatc	4	13	4	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr10:92509212C>T	uc001kha.2	-	2	922	c.679G>A	c.(679-681)GAT>AAT	p.D227N	HTR7_uc001kgz.2_Missense_Mutation_p.D227N|HTR7_uc001khb.2_Missense_Mutation_p.D227N	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	227	Extracellular (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	ACCTTATCATCATTTACATTC	0.468													27	98	---	---	---	---	PASS	T	92509212	T	T	92509212	3	4	133	1	0	0	0	0	1	0	0	0	7452	826	29	2	776	2	HTR7	10	92509212	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	2022591	92509212	43025535	190	47785										
CYP2C19	1557	broad.mit.edu	37	chr10	96522558	96522558	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agaggaaaactccctcctggCcctactcctctcccagtgat	7	16	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr10:96522558C>A	uc010qnz.1	+	1	96	c.96C>A	c.(94-96)GGC>GGA	p.G32G	CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Intron	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	32					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	TCCCTCCTGGCCCTACTCCTC	0.453													64	178	---	---	---	---	PASS	A	96522558	A	A	96522558	2	1	133	1	0	0	0	0	0	0	0	1	4166	726	26	3		3	CYP2C19	10	96522558	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	4013346	96522558	39012189	191	47786										
DNTT	1791	broad.mit.edu	37	chr10	98092315	98092315	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tagttctgtgcccctacgagCgtcgtgcctttgccctgttg	11	13	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr10:98092315C>A	uc001kmf.2	+	9	1491	c.1321C>A	c.(1321-1323)CGT>AGT	p.R441S	DNTT_uc001kmg.2_Missense_Mutation_p.R441S	NM_004088	NP_004079	P04053	TDT_HUMAN	terminal deoxynucleotidyltransferase isoform 1	441	Mediates interaction with DNTTIP2.				DNA modification	nucleus	DNA binding|DNA nucleotidylexotransferase activity|DNA-directed DNA polymerase activity|metal ion binding			ovary(1)	1		Colorectal(252;0.0815)|all_hematologic(284;0.224)		Epithelial(162;7.97e-08)|all cancers(201;1.89e-06)		CCCCTACGAGCGTCGTGCCTT	0.547													86	303	---	---	---	---	PASS	A	98092315	A	A	98092315	3	1	133	1	0	0	0	0	1	0	0	0	4680	768	27	1	1355	1	DNTT	10	98092315	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	1569757	98092315	37442432	192	47787										
CRTAC1	55118	broad.mit.edu	37	chr10	99683113	99683113	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gctcaggatgtcttcccaccGgttattgcggaacttgaaca	10	11	2	1	rs147289538	byFrequency	TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr10:99683113G>T	uc001kou.1	-	4	822	c.466C>A	c.(466-468)CGG>AGG	p.R156R	CRTAC1_uc001kov.2_Silent_p.R145R|CRTAC1_uc001kot.1_5'UTR	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	156						proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		TCTTCCCACCGGTTATTGCGG	0.592													36	99	---	---	---	---	PASS	T	99683113	T	T	99683113	2	4	133	1	0	0	0	0	0	0	0	1	3896	1115	39	1		1	CRTAC1	10	99683113	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	1590798	99683113	35851634	193	47788										
LBX1	10660	broad.mit.edu	37	chr10	102987419	102987419	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gatttggtcgcgatcggcggGggacaggtacttctggtata	16	7	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr10:102987419G>A	uc001ksx.2	-	2	599	c.454C>T	c.(454-456)CCC>TCC	p.P152S	uc010qpy.1_5'Flank	NM_006562	NP_006553	P52954	LBX1_HUMAN	ladybird homeobox 1	152	Homeobox.				muscle organ development		sequence-specific DNA binding				0		Colorectal(252;0.234)		Epithelial(162;3.22e-09)|all cancers(201;1.79e-07)		CGATCGGCGGGGGACAGGTAC	0.592													31	176	---	---	---	---	PASS	A	102987419	A	A	102987419	3	1	133	1	0	0	0	0	1	0	0	0	8653	1232	43	3	395	3	LBX1	10	102987419	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	3304306	102987419	32547328	194	47789										
C10orf90	118611	broad.mit.edu	37	chr10	128147646	128147646	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atcgtgaactgcttcttgctGgtgcggatgggaaggaggct	16	7	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr10:128147646G>T	uc001ljq.2	-	6	1981	c.1860C>A	c.(1858-1860)ACC>ACA	p.T620T	C10orf90_uc001ljp.2_Silent_p.T476T|C10orf90_uc010qum.1_Silent_p.T717T|C10orf90_uc001ljo.2_RNA	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	620										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		GCTTCTTGCTGGTGCGGATGG	0.572													33	52	---	---	---	---	PASS	T	128147646	T	T	128147646	2	4	133	1	0	0	0	0	0	0	0	1	1623	1335	47	3		3	C10orf90	10	128147646	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	25160227	128147646	7387101	195	47790										
VENTX	27287	broad.mit.edu	37	chr10	135053756	135053756	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccttcgctgggaccagccctGtccacggggccccggggcct	14	18	0	0	rs56130458		TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr10:135053756G>T	uc010quy.1	+	3	734	c.723G>T	c.(721-723)CTG>CTT	p.L241L		NM_014468	NP_055283	O95231	VENTX_HUMAN	VENT homeobox	241					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(35;4.15e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.8e-06)|Epithelial(32;9.31e-06)|all cancers(32;1.19e-05)		GACCAGCCCTGTCCACGGGGC	0.682													13	33	---	---	---	---	PASS	T	135053756	T	T	135053756	2	4	133	1	0	0	0	0	0	0	0	1	17150	1364	48	3		3	VENTX	10	135053756	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	6906110	135053756	480991	196	47791										
PDDC1	347862	broad.mit.edu	37	chr11	771358	771358	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aagcaggcgcccgaatccttCacgaagtcctccaccacgag	9	16	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:771358C>T	uc001lrc.2	-	6	544	c.519G>A	c.(517-519)GTG>GTA	p.V173V	PDDC1_uc010qwm.1_Silent_p.V123V|PDDC1_uc001lrd.2_Silent_p.V173V|PDDC1_uc001lrf.1_Silent_p.*151*|PDDC1_uc001lrg.1_RNA|PDDC1_uc009ycg.2_Silent_p.V123V|PDDC1_uc010qwn.1_RNA|PDDC1_uc010qwo.1_RNA|PDDC1_uc010qwp.1_Silent_p.V137V|PDDC1_uc010qwq.1_Silent_p.V87V|PDDC1_uc010qwr.1_Silent_p.V173V|PDDC1_uc010qws.1_Silent_p.V123V	NM_182612	NP_872418	Q8NB37	PDDC1_HUMAN	Parkinson disease 7 domain containing 1	173						extracellular region					0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;3.66e-26)|Epithelial(43;2.43e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-19)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCGAATCCTTCACGAAGTCCT	0.687													5	13	---	---	---	---	PASS	T	771358	T	T	771358	2	4	133	1	0	0	0	0	0	0	0	1	11629	813	29	2		2	PDDC1	11	771358	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08		771358	134235158	197	47792										
OR4P4	81300	broad.mit.edu	37	chr11	55406221	55406221	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccatttgcaagcccctgcacTacaccattattatgagcagg	7	13	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:55406221T>C	uc010rij.1	+	1	388	c.388T>C	c.(388-390)TAC>CAC	p.Y130H		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						GCCCCTGCACTACACCATTAT	0.428													53	164	---	---	---	---	PASS	C	55406221	C	C	55406221	3	2	133	1	0	0	0	0	1	0	0	0	11080	1522	53	5	390	5	OR4P4	11	55406221	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	54634863	55406221	79600295	198	47793										
OR4P4	81300	broad.mit.edu	37	chr11	55406499	55406499	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tatgtttttatattgtatacCatcagagcatactctgcaga	6	7	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:55406499C>A	uc010rij.1	+	1	666	c.666C>A	c.(664-666)ACC>ACA	p.T222T		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TATTGTATACCATCAGAGCAT	0.373													69	142	---	---	---	---	PASS	A	55406499	A	A	55406499	2	1	133	1	0	0	0	0	0	0	0	1	11080	581	21	3		3	OR4P4	11	55406499	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	278	55406499	79600017	199	47794										
OR5D14	219436	broad.mit.edu	37	chr11	55563225	55563225	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cactcctatgtactttttccTtagtcacctctcttttgttg	4	12	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:55563225T>A	uc010rim.1	+	1	194	c.194T>A	c.(193-195)CTT>CAT	p.L65H		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				TACTTTTTCCTTAGTCACCTC	0.378													67	166	---	---	---	---	PASS	A	55563225	A	A	55563225	3	1	133	1	0	0	0	0	1	0	0	0	11155	1609	56	5	196	5	OR5D14	11	55563225	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	156726	55563225	79443291	200	47795										
OR5F1	338674	broad.mit.edu	37	chr11	55761370	55761370	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aacagaattatggctgtcagGtgagaggcacacgtggagaa	14	6	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:55761370G>T	uc010riv.1	-	1	732	c.732C>A	c.(730-732)CAC>CAA	p.H244Q		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					TGGCTGTCAGGTGAGAGGCAC	0.493													17	86	---	---	---	---	PASS	T	55761370	T	T	55761370	3	4	133	1	0	0	0	0	1	0	0	0	11158	1252	44	3	215	3	OR5F1	11	55761370	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	198145	55761370	79245146	201	47796										
OR5M10	390167	broad.mit.edu	37	chr11	56345080	56345080	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gatcatgcacaggttgcctgCcagtgtgattaggtagatcg	13	8	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:56345080C>A	uc001niz.1	-	1	118	c.118G>T	c.(118-120)GCA>TCA	p.A40S		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGGTTGCCTGCCAGTGTGATT	0.478													45	174	---	---	---	---	PASS	A	56345080	A	A	56345080	3	1	133	1	0	0	0	0	1	0	0	0	11173	739	26	3	833	3	OR5M10	11	56345080	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	583710	56345080	78661436	202	47797										
OR9I1	219954	broad.mit.edu	37	chr11	57886859	57886859	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gggaatctccaatttggggtGgtccataaagcccatgagaa	12	8	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:57886859G>T	uc001nml.1	-	1	58	c.58C>A	c.(58-60)CAC>AAC	p.H20N	OR9Q1_uc001nmj.2_Intron	NM_001005211	NP_001005211	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Breast(21;0.0589)				AATTTGGGGTGGTCCATAAAG	0.423													6	83	---	---	---	---	PASS	T	57886859	T	T	57886859	3	4	133	1	0	0	0	0	1	0	0	0	11253	1348	47	3	890	3	OR9I1	11	57886859	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1541779	57886859	77119657	203	47798										
OR9Q1	219956	broad.mit.edu	37	chr11	57947632	57947632	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccaggccaagaccttctccaCctgcacctcccacctcactg	5	21	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:57947632C>A	uc001nmj.2	+	3	1032	c.716C>A	c.(715-717)ACC>AAC	p.T239N		NM_001005212	NP_001005212	Q8NGQ5	OR9Q1_HUMAN	olfactory receptor, family 9, subfamily Q,	239	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.222)				ACCTTCTCCACCTGCACCTCC	0.522													36	271	---	---	---	---	PASS	A	57947632	A	A	57947632	3	1	133	1	0	0	0	0	1	0	0	0	11255	507	18	3	718	3	OR9Q1	11	57947632	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	60773	57947632	77058884	204	47799										
MS4A12	54860	broad.mit.edu	37	chr11	60268610	60268610	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agagaagtattaggttttgcCtctactgctgttattggtgg	12	5	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:60268610C>A	uc001npr.2	+	3	426	c.369C>A	c.(367-369)GCC>GCA	p.A123A		NM_017716	NP_060186	Q9NXJ0	M4A12_HUMAN	membrane-spanning 4-domains, subfamily A, member	123	Helical; (Potential).					integral to membrane	receptor activity				0						TAGGTTTTGCCTCTACTGCTG	0.393													73	233	---	---	---	---	PASS	A	60268610	A	A	60268610	2	1	133	1	0	0	0	0	0	0	0	1	9856	668	24	3		3	MS4A12	11	60268610	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	2320978	60268610	74737906	205	47800										
TMEM216	51259	broad.mit.edu	37	chr11	61165333	61165333	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgccatgatggcctcctattAcctgctgctgcagacctacg	9	14	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:61165333A>T	uc010rlj.1	+	4	589	c.296A>T	c.(295-297)TAC>TTC	p.Y99F	TMEM216_uc001nrn.1_Missense_Mutation_p.Y45F	NM_016499	NP_057583	Q9P0N5	TM216_HUMAN	transmembrane protein 216	99	Helical; (Potential).					integral to membrane					0						GCCTCCTATTACCTGCTGCTG	0.527													66	176	---	---	---	---	PASS	T	61165333	T	T	61165333	3	4	133	1	0	0	0	0	1	0	0	0	16136	391	14	5	331	5	TMEM216	11	61165333	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	896723	61165333	73841183	206	47801										
SLC3A2	6520	broad.mit.edu	37	chr11	62655847	62655847	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctcctttccttgttccggcgGctgagtgaccagcggagtaa	12	12	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:62655847G>A	uc001nwd.2	+	12	1799	c.1575G>A	c.(1573-1575)CGG>CGA	p.R525R	SLC3A2_uc001nwb.2_Silent_p.R556R|SLC3A2_uc001nwc.2_Silent_p.R526R|SLC3A2_uc001nwe.2_Silent_p.R494R|SLC3A2_uc001nwf.2_Silent_p.R463R|SLC3A2_uc001nwg.2_Silent_p.R424R	NM_002394	NP_002385	P08195	4F2_HUMAN	solute carrier family 3, member 2 isoform c	525	Extracellular (Potential).				blood coagulation|carbohydrate metabolic process|cell growth|cellular nitrogen compound metabolic process|leucine import|leukocyte migration|tryptophan transport	apical plasma membrane|cell surface|integral to membrane|melanosome	calcium:sodium antiporter activity|catalytic activity|cation binding|neutral amino acid transmembrane transporter activity|protein binding				0						TGTTCCGGCGGCTGAGTGACC	0.587													54	83	---	---	---	---	PASS	A	62655847	A	A	62655847	2	1	133	1	0	0	0	0	0	0	0	1	14627	1190	42	3		3	SLC3A2	11	62655847	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	1490514	62655847	72350669	207	47802										
PLCB3	5331	broad.mit.edu	37	chr11	64022421	64022421	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggggtcccgatgcccggctgGaggagaagctgatgacggtg	19	9	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:64022421G>T	uc001nzb.2	+	4	298	c.298G>T	c.(298-300)GAG>TAG	p.E100*	PLCB3_uc009ypg.1_Nonsense_Mutation_p.E100*|PLCB3_uc009yph.1_Intron|PLCB3_uc009ypi.2_Nonsense_Mutation_p.E100*	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	100					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						TGCCCGGCTGGAGGAGAAGCT	0.617													9	52	---	---	---	---	PASS	T	64022421	T	T	64022421	4	4	133	1	0	0	0	0	0	1	0	0	12029	1175	41	2	312	2	PLCB3	11	64022421	Nonsense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1366574	64022421	70984095	208	47803										
PLCB3	5331	broad.mit.edu	37	chr11	64028885	64028885	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cccacagggcacagccagcaGcgaggtgaatgccactgagg	14	13	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:64028885G>T	uc001nzb.2	+	15	1745	c.1745G>T	c.(1744-1746)AGC>ATC	p.S582I	PLCB3_uc009ypg.1_Missense_Mutation_p.S582I|PLCB3_uc009yph.1_Missense_Mutation_p.S515I|PLCB3_uc009ypi.2_Missense_Mutation_p.S582I	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	582					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						ACAGCCAGCAGCGAGGTGAAT	0.607													9	71	---	---	---	---	PASS	T	64028885	T	T	64028885	3	4	133	1	0	0	0	0	1	0	0	0	12029	971	34	3	1803	3	PLCB3	11	64028885	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	6464	64028885	70977631	209	47804										
NRXN2	9379	broad.mit.edu	37	chr11	64418069	64418069	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgtctgagttccccttcatcAaggacgggccattccccagg	10	14	3	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:64418069A>T	uc001oar.2	-	16	3399	c.2960T>A	c.(2959-2961)TTG>TAG	p.L987*	NRXN2_uc001oas.2_Nonsense_Mutation_p.L947*|NRXN2_uc001oaq.2_Nonsense_Mutation_p.L654*	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CCCCTTCATCAAGGACGGGCC	0.587											OREG0021057	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	149	---	---	---	---	PASS	T	64418069	T	T	64418069	4	4	133	1	0	0	0	0	0	1	0	0	10666	131	5	5	2483	5	NRXN2	11	64418069	Nonsense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	389184	64418069	70588447	210	47805										
NADSYN1	55191	broad.mit.edu	37	chr11	71189499	71189499	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gagctacagggcggagatttCatctcgaaacctggcggtga	14	9	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:71189499C>A	uc001oqn.2	+	10	983	c.857C>A	c.(856-858)TCA>TAA	p.S286*	NADSYN1_uc001oqo.2_Nonsense_Mutation_p.S26*|NADSYN1_uc001oqp.2_5'Flank	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	286	CN hydrolase.				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GCGGAGATTTCATCTCGAAAC	0.572													5	21	---	---	---	---	PASS	A	71189499	A	A	71189499	4	1	133	1	0	0	0	0	0	1	0	0	10138	838	29	2	895	2	NADSYN1	11	71189499	Nonsense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	6771430	71189499	63817017	211	47806										
MAP6	4135	broad.mit.edu	37	chr11	75298590	75298590	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tttatgggtgctgtggccatGgcactttcatccttcggatg	12	9	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:75298590G>T	uc001owu.2	-	4	2021	c.1956C>A	c.(1954-1956)GCC>GCA	p.A652A		NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	652	Pro-rich.					Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					CTGTGGCCATGGCACTTTCAT	0.502													22	164	---	---	---	---	PASS	T	75298590	T	T	75298590	2	4	133	1	0	0	0	0	0	0	0	1	9264	1335	47	3		3	MAP6	11	75298590	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	4109091	75298590	59707926	212	47807										
MTNR1B	4544	broad.mit.edu	37	chr11	92714979	92714979	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	caccttcatccagaccgccaGcacccagtacacggcggcag	9	18	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:92714979G>A	uc001pdk.1	+	2	693	c.590G>A	c.(589-591)AGC>AAC	p.S197N		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	197	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	CAGACCGCCAGCACCCAGTAC	0.607													15	44	---	---	---	---	PASS	A	92714979	A	A	92714979	3	1	133	1	0	0	0	0	1	0	0	0	9952	971	34	3	596	3	MTNR1B	11	92714979	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	17416389	92714979	42291537	213	47808										
CWC15	51503	broad.mit.edu	37	chr11	94704172	94704172	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggtcatctgcatcaaggttgGcggcaggaatctggtctaac	13	9	5	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:94704172G>A	uc001pfd.3	-	4	425	c.302C>T	c.(301-303)GCC>GTC	p.A101V	CWC15_uc009ywl.1_3'UTR|KDM4D_uc001pfe.2_5'Flank	NM_016403	NP_057487	Q9P013	CWC15_HUMAN	CWC15 homolog	101					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome	protein binding|RNA binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				ATCAAGGTTGGCGGCAGGAAT	0.368													62	129	---	---	---	---	PASS	A	94704172	A	A	94704172	3	1	133	1	0	0	0	0	1	0	0	0	4067	1203	42	3	402	3	CWC15	11	94704172	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1989193	94704172	40302344	214	47809										
GRIA4	2893	broad.mit.edu	37	chr11	105804490	105804490	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aaaagatgtggacctacatgCgatcagcagagccatcagta	10	9	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:105804490C>A	uc001pix.2	+	14	2535	c.2089C>A	c.(2089-2091)CGA>AGA	p.R697R	GRIA4_uc001piw.2_Silent_p.R697R|GRIA4_uc010rvm.1_RNA|GRIA4_uc009yxl.1_RNA	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	697	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	GACCTACATGCGATCAGCAGA	0.403													9	37	---	---	---	---	PASS	A	105804490	A	A	105804490	2	1	133	1	0	0	0	0	0	0	0	1	6770	760	27	1		1	GRIA4	11	105804490	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	11100318	105804490	29202026	215	47810										
USP28	57646	broad.mit.edu	37	chr11	113679924	113679924	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgaatgtaatgcttgagttcCacagatagggcttccacttc	9	9	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:113679924C>A	uc001poh.2	-	17	2058	c.2025G>T	c.(2023-2025)GTG>GTT	p.V675V	USP28_uc001pog.2_Silent_p.V383V|USP28_uc010rwy.1_Silent_p.V550V|USP28_uc001poi.2_Silent_p.V30V	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	675					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)		GCTTGAGTTCCACAGATAGGG	0.453													80	585	---	---	---	---	PASS	A	113679924	A	A	113679924	2	1	133	1	0	0	0	0	0	0	0	1	17055	581	21	3		3	USP28	11	113679924	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	7875434	113679924	21326592	216	47811										
CCDC15	80071	broad.mit.edu	37	chr11	124875010	124875010	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	acttcttacctttagcgtcaAaagcagtacctgagacatag	7	10	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:124875010A>G	uc001qbm.3	+	13	2572	c.2313A>G	c.(2311-2313)CAA>CAG	p.Q771Q		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	771						centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		tttagcgtcaaaagcagtacc	0.144													4	8	---	---	---	---	PASS	G	124875010	G	G	124875010	2	3	133	1	0	0	0	0	0	0	0	1	2784	11	1	5		5	CCDC15	11	124875010	Silent	SNP	A	TCGA-60-2724-01A-01D-1522-08	11195086	124875010	10131506	217	47812										
DCPS	28960	broad.mit.edu	37	chr11	126176543	126176543	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cgccatttcaggtggaacagGtggctcagctcctgacgggc	14	12	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr11:126176543G>T	uc001qdp.2	+	2	609	c.280G>T	c.(280-282)GTG>TTG	p.V94L		NM_014026	NP_054745	Q96C86	DCPS_HUMAN	mRNA decapping enzyme	94					deadenylation-dependent decapping of nuclear-transcribed mRNA|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	exoribonuclease activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00156)|Lung NSC(97;0.00949)|all_lung(97;0.0101)|Medulloblastoma(222;0.0425)|all_neural(223;0.0604)		BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.08)		GGTGGAACAGGTGGCTCAGCT	0.547													12	44	---	---	---	---	PASS	T	126176543	T	T	126176543	3	4	133	1	0	0	0	0	1	0	0	0	4301	1261	44	3	286	3	DCPS	11	126176543	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1301533	126176543	8829973	218	47813										
ERC1	23085	broad.mit.edu	37	chr12	1292459	1292459	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcttttaggcttcacttttgGatctgaaagagcatgcttct	8	8	4	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:1292459G>A	uc001qjb.2	+	11	2270	c.2029G>A	c.(2029-2031)GAT>AAT	p.D677N	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.D649N|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.D677N|ERC1_uc010sdv.1_Missense_Mutation_p.D425N|ERC1_uc009zdp.2_Missense_Mutation_p.D317N	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	677	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			TTCACTTTTGGATCTGAAAGA	0.343													29	74	---	---	---	---	PASS	A	1292459	A	A	1292459	3	1	133	1	0	0	0	0	1	0	0	0	5210	1174	41	2	2067	2	ERC1	12	1292459	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08		1292459	132559436	219	47814										
AICDA	57379	broad.mit.edu	37	chr12	8757847	8757847	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggctatttgcaccccggcgcGgtgcagccgccgcagcccct	13	18	0	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:8757847G>C	uc001qur.2	-	3	470	c.391C>G	c.(391-393)CGC>GGC	p.R131G	AICDA_uc001qup.1_Missense_Mutation_p.R126G|AICDA_uc001quq.1_Missense_Mutation_p.R126G|AICDA_uc009zgd.1_Intron	NM_020661	NP_065712	Q9GZX7	AICDA_HUMAN	activation-induced cytidine deaminase	131					B cell differentiation|DNA demethylation|mRNA processing|negative regulation of methylation-dependent chromatin silencing	cytoplasm	cytidine deaminase activity|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung SC(5;0.184)					ACCCCGGCGCGGTGCAGCCGC	0.642									Immune_Deficiency_with_Hyper-IgM				8	39	---	---	---	---	PASS	C	8757847	C	C	8757847	3	2	133	1	0	0	0	0	1	0	0	0	422	1116	39	4	217	4	AICDA	12	8757847	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	7465388	8757847	125094048	220	47815										
GUCY2C	2984	broad.mit.edu	37	chr12	14849359	14849359	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aagagcagtgaccacaaagcCaagtccaacagcaacgtctt	8	12	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:14849359C>T	uc001rcd.2	-	1	161	c.24G>A	c.(22-24)TTG>TTA	p.L8L	GUCY2C_uc009zhz.2_Silent_p.L8L	NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	8					intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						ACCACAAAGCCAAGTCCAACA	0.532													16	47	---	---	---	---	PASS	T	14849359	T	T	14849359	2	4	133	1	0	0	0	0	0	0	0	1	6896	593	21	3		3	GUCY2C	12	14849359	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	6091512	14849359	119002536	221	47816										
PLCZ1	89869	broad.mit.edu	37	chr12	18854483	18854483	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggtaacttttttacccctgtTtccttgtcttgattgtctcc	6	11	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:18854483T>A	uc010sid.1	-	9	1160	c.969A>T	c.(967-969)GAA>GAT	p.E323D	PLCZ1_uc001rdv.3_Missense_Mutation_p.E219D|PLCZ1_uc001rdw.3_Missense_Mutation_p.E64D|PLCZ1_uc001rdu.1_Missense_Mutation_p.E105D|PLCZ1_uc009zil.1_RNA	NM_033123	NP_149114	Q86YW0	PLCZ1_HUMAN	phospholipase C, zeta 1	323					intracellular signal transduction|lipid catabolic process|multicellular organismal development	nucleus|perinuclear region of cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)					TTACCCCTGTTTCCTTGTCTT	0.259													27	154	---	---	---	---	PASS	A	18854483	A	A	18854483	3	1	133	1	0	0	0	0	1	0	0	0	12044	1838	64	5	885	5	PLCZ1	12	18854483	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	4005124	18854483	114997412	222	47817										
KCNJ8	3764	broad.mit.edu	37	chr12	21926429	21926429	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tatgcgccaggttgcaggccCcgctcttggcgatgaagcgg	15	12	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:21926429C>T	uc001rff.2	-	2	460	c.122G>A	c.(121-123)GGG>GAG	p.G41E		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	41	Cytoplasmic (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	GTTGCAGGCCCCGCTCTTGGC	0.622											OREG0021704	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	105	---	---	---	---	PASS	T	21926429	T	T	21926429	3	4	133	1	0	0	0	0	1	0	0	0	8056	623	22	3	1160	3	KCNJ8	12	21926429	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	3071946	21926429	111925466	223	47818										
ITPR2	3709	broad.mit.edu	37	chr12	26810795	26810795	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tctgaaaggatggagctctcCatggggttgtctgcttgcat	13	8	3	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:26810795C>A	uc001rhg.2	-	18	2454	c.2037G>T	c.(2035-2037)ATG>ATT	p.M679I		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	679	Cytoplasmic (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)					TGGAGCTCTCCATGGGGTTGT	0.398													36	120	---	---	---	---	PASS	A	26810795	A	A	26810795	3	1	133	1	0	0	0	0	1	0	0	0	7921	594	21	3	6228	3	ITPR2	12	26810795	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	4884366	26810795	107041100	224	47819										
KRT18	3875	broad.mit.edu	37	chr12	53343127	53343127	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctccaccagcttcaggggcgGcatggggtccgggggcctgg	18	13	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:53343127G>A	uc001sbe.2	+	2	239	c.170G>A	c.(169-171)GGC>GAC	p.G57D	KRT18_uc009zmn.1_Missense_Mutation_p.G57D|KRT18_uc001sbf.1_5'UTR|KRT18_uc001sbg.2_Missense_Mutation_p.G57D|KRT18_uc009zmo.2_Missense_Mutation_p.G57D|KRT8_uc009zml.1_Intron|KRT8_uc009zmm.1_Intron	NM_199187	NP_954657	P05783	K1C18_HUMAN	keratin 18	57	Head.				anatomical structure morphogenesis|cell cycle|Golgi to plasma membrane CFTR protein transport|interspecies interaction between organisms|negative regulation of apoptosis	centriolar satellite|keratin filament|perinuclear region of cytoplasm	protein binding|structural molecule activity			skin(1)	1						TTCAGGGGCGGCATGGGGTCC	0.697													3	41	---	---	---	---	PASS	A	53343127	A	A	53343127	3	1	133	1	0	0	0	0	1	0	0	0	8455	1203	42	3	172	3	KRT18	12	53343127	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	26532332	53343127	80508768	225	47820										
LRP1	4035	broad.mit.edu	37	chr12	57592399	57592399	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agcgcatctactgggccgacGcccgcgaggactacattgaa	12	13	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:57592399G>A	uc001snd.2	+	60	10088	c.9622G>A	c.(9622-9624)GCC>ACC	p.A3208T		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3208	LDL-receptor class B 29.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CTGGGCCGACGCCCGCGAGGA	0.602													6	23	---	---	---	---	PASS	A	57592399	A	A	57592399	3	1	133	1	0	0	0	0	1	0	0	0	8951	1087	38	1	9860	1	LRP1	12	57592399	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	4249272	57592399	76259496	226	47821										
DPY19L2	283417	broad.mit.edu	37	chr12	64057611	64057611	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gacgatcattttcaaaaagtGttactaaatgtaacctagaa	6	6	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:64057611G>A	uc001srp.1	-	3	558	c.377C>T	c.(376-378)ACA>ATA	p.T126I	DPY19L2_uc009zqk.1_Intron	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	126	Helical; (Potential).				multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		TTCAAAAAGTGTTACTAAATG	0.303													30	86	---	---	---	---	PASS	A	64057611	A	A	64057611	3	1	133	1	0	0	0	0	1	0	0	0	4741	1377	48	3	1979	3	DPY19L2	12	64057611	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	6465212	64057611	69794284	227	47822										
KCNMB4	27345	broad.mit.edu	37	chr12	70760767	70760767	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gcacctcgcagtacccctgcGtccaggtctacgtgaacaac	9	16	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:70760767G>C	uc001svx.2	+	1	706	c.253G>C	c.(253-255)GTC>CTC	p.V85L		NM_014505	NP_055320	Q86W47	KCMB4_HUMAN	calcium-activated potassium channel beta 4	85	Extracellular (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of neurotransmitter secretion|regulation of vasoconstriction|synaptic transmission	voltage-gated potassium channel complex	calcium-activated potassium channel activity|protein binding				0	Renal(347;0.236)		Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			GTACCCCTGCGTCCAGGTCTA	0.637													21	152	---	---	---	---	PASS	C	70760767	C	C	70760767	3	2	133	1	0	0	0	0	1	0	0	0	8077	1145	40	4	255	4	KCNMB4	12	70760767	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	6703156	70760767	63091128	228	47823										
SYT1	6857	broad.mit.edu	37	chr12	79693310	79693310	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	actgaggaatggcgtgacctGcaaagtgctgagaaggaaga	15	6	0	4			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:79693310G>T	uc001sys.2	+	9	1460	c.789G>T	c.(787-789)CTG>CTT	p.L263L	SYT1_uc001syt.2_Silent_p.L263L|SYT1_uc001syu.2_Silent_p.L260L|SYT1_uc001syv.2_Silent_p.L263L	NM_001135805	NP_001129277	P21579	SYT1_HUMAN	synaptotagmin I	263	Cytoplasmic (Potential).|Phospholipid binding (Probable).				detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6						GGCGTGACCTGCAAAGTGCTG	0.393													40	104	---	---	---	---	PASS	T	79693310	T	T	79693310	2	4	133	1	0	0	0	0	0	0	0	1	15462	1306	46	3		3	SYT1	12	79693310	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	8932543	79693310	54158585	229	47824										
STAB2	55576	broad.mit.edu	37	chr12	104089553	104089553	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gcaattgaggctgccgatgcCtacacagtgtttgctccaaa	10	11	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:104089553C>T	uc001tjw.2	+	33	3699	c.3513C>T	c.(3511-3513)GCC>GCT	p.A1171A		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1171	Extracellular (Potential).|FAS1 4.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTGCCGATGCCTACACAGTGT	0.448													24	65	---	---	---	---	PASS	T	104089553	T	T	104089553	2	4	133	1	0	0	0	0	0	0	0	1	15237	668	24	3		3	STAB2	12	104089553	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	24396243	104089553	29762342	230	47825										
MTERFD3	80298	broad.mit.edu	37	chr12	107372288	107372288	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggtttcatcctctaaaagtaCccatccttttaatctacgaa	4	11	3	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:107372288C>T	uc001tme.1	-	2	2024	c.205G>A	c.(205-207)GTA>ATA	p.V69I	MTERFD3_uc001tmf.1_Missense_Mutation_p.V69I|MTERFD3_uc001tmg.1_Missense_Mutation_p.V69I|MTERFD3_uc001tmh.1_Missense_Mutation_p.V69I	NM_025198	NP_079474	Q49AM1	MTER3_HUMAN	transcription termination factor-like protein	69					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	transcription regulatory region DNA binding				0						TCTAAAAGTACCCATCCTTTT	0.373													67	132	---	---	---	---	PASS	T	107372288	T	T	107372288	3	4	133	1	0	0	0	0	1	0	0	0	9921	507	18	3	956	3	MTERFD3	12	107372288	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	3282735	107372288	26479607	231	47826										
CORO1C	23603	broad.mit.edu	37	chr12	109095058	109095058	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tttcaccgcttgcccaaataCatgccgaaacttgctctgtc	6	14	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:109095058C>A	uc001tnj.2	-	2	133	c.37G>T	c.(37-39)GTA>TTA	p.V13L	CORO1C_uc009zva.2_Missense_Mutation_p.V66L|CORO1C_uc010sxf.1_Missense_Mutation_p.V13L	NM_014325	NP_055140	Q9ULV4	COR1C_HUMAN	coronin, actin binding protein, 1C isoform 1	13					actin cytoskeleton organization|phagocytosis|signal transduction	actin cytoskeleton	actin filament binding			skin(3)	3						TGCCCAAATACATGCCGAAAC	0.443													28	118	---	---	---	---	PASS	A	109095058	A	A	109095058	3	1	133	1	0	0	0	0	1	0	0	0	3755	478	17	3	1427	3	CORO1C	12	109095058	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	1722770	109095058	24756837	232	47827										
RASAL1	8437	broad.mit.edu	37	chr12	113556992	113556992	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccagagctccacccgcagtgGggacggggcacctggcatct	14	15	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:113556992G>T	uc001tum.1	-	8	876	c.583C>A	c.(583-585)CCA>ACA	p.P195T	RASAL1_uc010syp.1_Missense_Mutation_p.P195T|RASAL1_uc001tul.2_Missense_Mutation_p.P195T|RASAL1_uc001tun.1_Missense_Mutation_p.P195T|RASAL1_uc010syq.1_Missense_Mutation_p.P195T|RASAL1_uc001tuo.3_Missense_Mutation_p.P195T|RASAL1_uc010syr.1_Missense_Mutation_p.P195T	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	195	C2 2.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						ACCCGCAGTGGGGACGGGGCA	0.597													63	104	---	---	---	---	PASS	T	113556992	T	T	113556992	3	4	133	1	0	0	0	0	1	0	0	0	13063	1232	43	3	1891	3	RASAL1	12	113556992	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	4461934	113556992	20294903	233	47828										
LRRC43	254050	broad.mit.edu	37	chr12	122669155	122669155	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtgagccccggagaggagacGgtggaggccctgctgggcct	19	11	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:122669155G>T	uc009zxm.2	+	2	265	c.240G>T	c.(238-240)ACG>ACT	p.T80T	LRRC43_uc001ubw.3_5'UTR|LRRC43_uc009zxl.1_RNA	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	80											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		GAGAGGAGACGGTGGAGGCCC	0.597													16	27	---	---	---	---	PASS	T	122669155	T	T	122669155	2	4	133	1	0	0	0	0	0	0	0	1	9001	1103	39	1		1	LRRC43	12	122669155	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	9112163	122669155	11182740	234	47829										
KNTC1	9735	broad.mit.edu	37	chr12	123060176	123060176	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	caactggtgaaacagcacctGgaaatggaccatcccaagta	9	11	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:123060176G>T	uc001ucv.2	+	28	2632	c.2469G>T	c.(2467-2469)CTG>CTT	p.L823L	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	823					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		AACAGCACCTGGAAATGGACC	0.428													5	17	---	---	---	---	PASS	T	123060176	T	T	123060176	2	4	133	1	0	0	0	0	0	0	0	1	8428	1335	47	3		3	KNTC1	12	123060176	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	391021	123060176	10791719	235	47830										
TMEM132D	121256	broad.mit.edu	37	chr12	130184949	130184949	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gggcttttagtttccagttaAgagaaaatttgttggtgaat	11	3	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:130184949A>T	uc009zyl.1	-	2	702	c.374T>A	c.(373-375)CTT>CAT	p.L125H		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	125	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TTTCCAGTTAAGAGAAAATTT	0.512													20	59	---	---	---	---	PASS	T	130184949	T	T	130184949	3	4	133	1	0	0	0	0	1	0	0	0	16044	72	3	5	2957	5	TMEM132D	12	130184949	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	7124773	130184949	3666946	236	47831										
TMEM132D	121256	broad.mit.edu	37	chr12	130185002	130185002	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gaaggtagcattaaatcctgGggcaccacttgctcgatgga	12	9	0	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr12:130185002G>T	uc009zyl.1	-	2	649	c.321C>A	c.(319-321)CCC>CCA	p.P107P		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	107	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TTAAATCCTGGGGCACCACTT	0.498													28	78	---	---	---	---	PASS	T	130185002	T	T	130185002	2	4	133	1	0	0	0	0	0	0	0	1	16044	1219	43	3		3	TMEM132D	12	130185002	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	53	130185002	3666893	237	47832										
XPO4	64328	broad.mit.edu	37	chr13	21361694	21361694	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgcacactgttcagctaacgGtgtcaaggcctccaggcaaa	10	12	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr13:21361694G>A	uc001unq.3	-	21	3127	c.3091C>T	c.(3091-3093)CCG>TCG	p.P1031S		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	1031					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		TCAGCTAACGGTGTCAAGGCC	0.423													36	91	---	---	---	---	PASS	A	21361694	A	A	21361694	3	1	133	1	0	0	0	0	1	0	0	0	17443	1261	44	3	376	3	XPO4	13	21361694	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08		21361694	93808184	238	47833										
OLFM4	10562	broad.mit.edu	37	chr13	53603174	53603174	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cagcggaggttctgtgtcccAggtgaggaggccccagaatc	15	11	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr13:53603174A>T	uc001vhl.2	+	1	203	c.203A>T	c.(202-204)CAG>CTG	p.Q68L	OLFM4_uc001vhk.1_Missense_Mutation_p.Q68L	NM_006418	NP_006409	Q6UX06	OLFM4_HUMAN	olfactomedin 4 precursor	68	Ser-rich.				cell adhesion	extracellular space				skin(1)	1		Breast(56;0.000776)|Lung NSC(96;0.000814)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.13e-08)		TCTGTGTCCCAGGTGAGGAGG	0.368													28	66	---	---	---	---	PASS	T	53603174	T	T	53603174	3	4	133	1	0	0	0	0	1	0	0	0	10855	202	7	5	205	5	OLFM4	13	53603174	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	32241480	53603174	61566704	239	47834										
KLHL1	57626	broad.mit.edu	37	chr13	70456586	70456586	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tggagctcctcagctggaagGagtaaaaactcttgatttct	10	8	3	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr13:70456586G>T	uc001vip.2	-	5	1850	c.1056C>A	c.(1054-1056)CTC>CTA	p.L352L	KLHL1_uc010thm.1_Silent_p.L291L	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	352					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		CAGCTGGAAGGAGTAAAAACT	0.383													32	63	---	---	---	---	PASS	T	70456586	T	T	70456586	2	4	133	1	0	0	0	0	0	0	0	1	8365	1161	41	2		2	KLHL1	13	70456586	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	16853412	70456586	44713292	240	47835										
GPR180	160897	broad.mit.edu	37	chr13	95278296	95278296	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tagcgactaccaaagagacaAggtaagaaatatacatgatc	8	7	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr13:95278296A>T	uc001vly.2	+	8	1241	c.1163A>T	c.(1162-1164)AAG>ATG	p.K388M	GPR180_uc001vlz.2_Missense_Mutation_p.K287M|GPR180_uc010afi.2_Missense_Mutation_p.K149M	NM_180989	NP_851320	Q86V85	GP180_HUMAN	G protein-coupled receptor 180 precursor	388						integral to membrane				breast(1)	1	all_neural(89;0.0684)|Medulloblastoma(90;0.163)					CAAAGAGACAAGGTAAGAAAT	0.313													19	55	---	---	---	---	PASS	T	95278296	T	T	95278296	3	4	133	1	0	0	0	0	1	0	0	0	6676	86	3	5	1193	5	GPR180	13	95278296	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	24821710	95278296	19891582	241	47836										
OR4M1	441670	broad.mit.edu	37	chr14	20248545	20248545	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctggcctatcccagactcggGaggtccaactagtcctattt	9	13	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr14:20248545G>A	uc010tku.1	+	1	64	c.64G>A	c.(64-66)GAG>AAG	p.E22K		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	22	Extracellular (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)		CCAGACTCGGGAGGTCCAACT	0.373													154	275	---	---	---	---	PASS	A	20248545	A	A	20248545	3	1	133	1	0	0	0	0	1	0	0	0	11075	1175	41	2	66	2	OR4M1	14	20248545	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08		20248545	87100995	242	47837										
OR4L1	122742	broad.mit.edu	37	chr14	20529020	20529020	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	caagcaataaaactcttgccGtattttatacagttatcaca	4	9	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr14:20529020G>A	uc001vwn.1	+	1	817	c.817G>A	c.(817-819)GTA>ATA	p.V273I		NM_001004717	NP_001004717	Q8NH43	OR4L1_HUMAN	olfactory receptor, family 4, subfamily L,	273	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		AACTCTTGCCGTATTTTATAC	0.368													114	116	---	---	---	---	PASS	A	20529020	A	A	20529020	3	1	133	1	0	0	0	0	1	0	0	0	11074	1145	40	1	819	1	OR4L1	14	20529020	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	280475	20529020	86820520	243	47838										
MYH6	4624	broad.mit.edu	37	chr14	23855646	23855646	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cttcttcttcaccctcaggaCctcgttgcggctgcgtgtct	9	15	5	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr14:23855646C>A	uc001wjv.2	-	33	4904	c.4837G>T	c.(4837-4839)GTC>TTC	p.V1613F		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1613	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		ACCCTCAGGACCTCGTTGCGG	0.597													100	106	---	---	---	---	PASS	A	23855646	A	A	23855646	3	1	133	1	0	0	0	0	1	0	0	0	10038	507	18	3	1010	3	MYH6	14	23855646	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	3326626	23855646	83493894	244	47839										
NOVA1	4857	broad.mit.edu	37	chr14	27064669	27064669	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tggtggctccagtttcttttTgcaactgaacaattgtctgt	9	8	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr14:27064669T>A	uc001wpy.2	-	2	545	c.227A>T	c.(226-228)CAA>CTA	p.Q76L	NOVA1_uc001wpz.2_Missense_Mutation_p.Q76L|NOVA1_uc001wqa.2_5'UTR|NOVA1_uc001wqb.2_Missense_Mutation_p.Q76L	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	76	KH 1.				locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		AGTTTCTTTTTGCAACTGAAC	0.423													82	97	---	---	---	---	PASS	A	27064669	A	A	27064669	3	1	133	1	0	0	0	0	1	0	0	0	10554	1812	63	5	1343	5	NOVA1	14	27064669	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	3209023	27064669	80284871	245	47840										
PCNX	22990	broad.mit.edu	37	chr14	71568781	71568781	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atagtatctcatgagaagaaCctcgtaatagcccatgaagg	9	8	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr14:71568781C>A	uc001xmo.2	+	31	6110	c.5664C>A	c.(5662-5664)AAC>AAA	p.N1888K	PCNX_uc010are.1_Missense_Mutation_p.N1777K|PCNX_uc010arf.1_Missense_Mutation_p.N676K|PCNX_uc001xmp.2_5'UTR	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1888						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)		ATGAGAAGAACCTCGTAATAG	0.438													77	119	---	---	---	---	PASS	A	71568781	A	A	71568781	3	1	133	1	0	0	0	0	1	0	0	0	11591	506	18	3	5786	3	PCNX	14	71568781	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	44504112	71568781	35780759	246	47841										
RGS6	9628	broad.mit.edu	37	chr14	72431529	72431529	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atggctcaaggatccggggaTcaaagagcagtgggggttgc	17	7	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr14:72431529T>A	uc001xna.3	+	2	544	c.21T>A	c.(19-21)GAT>GAA	p.D7E	RGS6_uc010ttn.1_Missense_Mutation_p.D7E|RGS6_uc001xmx.3_Missense_Mutation_p.D7E|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.D7E	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	7					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		GATCCGGGGATCAAAGAGCAG	0.473													53	88	---	---	---	---	PASS	A	72431529	A	A	72431529	3	1	133	1	0	0	0	0	1	0	0	0	13309	1432	50	5	23	5	RGS6	14	72431529	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	862748	72431529	34918011	247	47842										
SERPINA11	256394	broad.mit.edu	37	chr14	94914513	94914513	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gaaccatgaacgtgtcctggCtgaactccgggaggcagtcc	13	12	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr14:94914513C>T	uc001ydd.1	-	2	659	c.599G>A	c.(598-600)AGC>AAC	p.S200N		NM_001080451	NP_001073920	Q86U17	SPA11_HUMAN	serpin peptidase inhibitor, clade A (alpha-1	200					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			kidney(1)	1				COAD - Colon adenocarcinoma(157;0.211)		CGTGTCCTGGCTGAACTCCGG	0.468													118	131	---	---	---	---	PASS	T	94914513	T	T	94914513	3	4	133	1	0	0	0	0	1	0	0	0	14088	797	28	3	685	3	SERPINA11	14	94914513	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	22482984	94914513	12435027	248	47843										
EVL	51466	broad.mit.edu	37	chr14	100603959	100603959	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggagcaactcggtggagaagCctgtgtcctcgattctgtcc	13	11	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr14:100603959C>G	uc001ygt.2	+	10	1242	c.1003C>G	c.(1003-1005)CCT>GCT	p.P335A	EVL_uc001ygv.2_Missense_Mutation_p.P341A|EVL_uc001ygu.2_Missense_Mutation_p.P337A|EVL_uc010avu.2_Missense_Mutation_p.P194A	NM_016337	NP_057421	Q9UI08	EVL_HUMAN	Enah/Vasp-like	335	EVH2.				actin polymerization or depolymerization|axon guidance|cell surface receptor linked signaling pathway|organ morphogenesis	cytoskeleton|cytosol|focal adhesion|lamellipodium	actin binding|profilin binding|SH3 domain binding			large_intestine(2)|ovary(1)	3		Melanoma(154;0.152)				GGTGGAGAAGCCTGTGTCCTC	0.612													43	44	---	---	---	---	PASS	G	100603959	G	G	100603959	3	3	133	1	0	0	0	0	1	0	0	0	5291	739	26	4	1047	4	EVL	14	100603959	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	5689446	100603959	6745581	249	47844										
NDN	4692	broad.mit.edu	37	chr15	23931648	23931648	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttcaggtaattcatttggacGaactcctcagtgatgagctt	9	8	3	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:23931648G>T	uc001ywk.2	-	1	803	c.717C>A	c.(715-717)TTC>TTA	p.F239L		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	239	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		TCATTTGGACGAACTCCTCAG	0.607									Prader-Willi_syndrome				3	81	---	---	---	---	PASS	T	23931648	T	T	23931648	3	4	133	1	0	0	0	0	1	0	0	0	10247	1049	37	2	252	2	NDN	15	23931648	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08		23931648	78599744	250	47845										
SNRPN	6638	broad.mit.edu	37	chr15	25223422	25223422	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gctcgagggacgccaataggCatgccgcctccgggaatgag	15	12	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:25223422C>A	uc001ywp.1	+	12	1532	c.642C>A	c.(640-642)GGC>GGA	p.G214G	SNRPN_uc001ywq.1_Silent_p.G214G|SNRPN_uc001ywr.1_Silent_p.G214G|SNRPN_uc001yws.1_Silent_p.G214G|SNRPN_uc001ywt.1_Silent_p.G214G|SNRPN_uc001ywv.1_Silent_p.G217G|SNRPN_uc001yww.1_Silent_p.G214G|SNRPN_uc001ywx.1_Silent_p.G214G|SNRPN_uc001ywz.1_RNA|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	214	Repeat-rich region.				RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		CGCCAATAGGCATGCCGCCTC	0.567									Prader-Willi_syndrome				64	218	---	---	---	---	PASS	A	25223422	A	A	25223422	2	1	133	1	0	0	0	0	0	0	0	1	14870	697	25	3		3	SNRPN	15	25223422	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	1291774	25223422	77307970	251	47846										
GABRG3	2567	broad.mit.edu	37	chr15	27271912	27271912	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tctccacagtaaaaccgaccGtaattgacgttgacatttat	6	10	1	2	rs79497756		TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:27271912G>T	uc001zbg.1	+	3	380	c.214G>T	c.(214-216)GTA>TTA	p.V72L	GABRG3_uc001zbf.2_Missense_Mutation_p.V72L	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	72	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		AAAACCGACCGTAATTGACGT	0.398													13	47	---	---	---	---	PASS	T	27271912	T	T	27271912	3	4	133	1	0	0	0	0	1	0	0	0	6173	1145	40	1	224	1	GABRG3	15	27271912	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	2048490	27271912	75259480	252	47847										
ARHGAP11A	9824	broad.mit.edu	37	chr15	32929009	32929009	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gggacttttcaccccttcaaActcaaacatttaatagagaa	5	10	3	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:32929009A>T	uc001zgy.1	+	12	2757	c.2035A>T	c.(2035-2037)ACT>TCT	p.T679S	ARHGAP11A_uc010ubw.1_Missense_Mutation_p.T490S|ARHGAP11A_uc010ubx.1_Missense_Mutation_p.T490S	NM_014783	NP_055598	Q6P4F7	RHGBA_HUMAN	Rho GTPase activating protein 11A isoform 1	679					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			skin(3)|breast(2)|urinary_tract(1)	6		all_lung(180;1.3e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)		ACCCCTTCAAACTCAAACATT	0.303													19	71	---	---	---	---	PASS	T	32929009	T	T	32929009	3	4	133	1	0	0	0	0	1	0	0	0	863	43	2	5	2104	5	ARHGAP11A	15	32929009	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	5657097	32929009	69602383	253	47848										
RYR3	6263	broad.mit.edu	37	chr15	33927899	33927899	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgcagtgagatctggaaagtGgtattttgagtttgaagtgg	15	2	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:33927899G>T	uc001zhi.2	+	26	3330	c.3260G>T	c.(3259-3261)TGG>TTG	p.W1087L	RYR3_uc010bar.2_Missense_Mutation_p.W1087L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1087	B30.2/SPRY 2.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TCTGGAAAGTGGTATTTTGAG	0.532													16	59	---	---	---	---	PASS	T	33927899	T	T	33927899	3	4	133	1	0	0	0	0	1	0	0	0	13770	1357	47	3	3362	3	RYR3	15	33927899	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	998890	33927899	68603493	254	47849										
ACTC1	70	broad.mit.edu	37	chr15	35086886	35086886	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cggcgggaagtttacctggtGccgcgggcggcccacgatgg	18	12	0	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:35086886G>T	uc001ziu.1	-	2	367	c.124C>A	c.(124-126)CAC>AAC	p.H42N	uc001zit.1_Intron	NM_005159	NP_005150	P68032	ACTC_HUMAN	cardiac muscle alpha actin 1 proprotein	42					apoptosis|cardiac muscle tissue morphogenesis|cardiac myofibril assembly|muscle filament sliding|skeletal muscle thin filament assembly	actomyosin, actin part|cytosol|I band	ATP binding|ATPase activity|myosin binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(180;2.3e-08)		all cancers(64;5.83e-19)|GBM - Glioblastoma multiforme(113;1.98e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		TTTACCTGGTGCCGCGGGCGG	0.667													9	24	---	---	---	---	PASS	T	35086886	T	T	35086886	3	4	133	1	0	0	0	0	1	0	0	0	195	1319	46	3	1033	3	ACTC1	15	35086886	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1158987	35086886	67444506	255	47850										
AQR	9716	broad.mit.edu	37	chr15	35198840	35198840	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgctcaataaaaggtctcctCcggtcaaacttagtgccata	7	11	3	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:35198840C>A	uc001ziv.2	-	18	1918	c.1737G>T	c.(1735-1737)CGG>CGT	p.R579R		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	579						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		AAGGTCTCCTCCGGTCAAACT	0.418													41	129	---	---	---	---	PASS	A	35198840	A	A	35198840	2	1	133	1	0	0	0	0	0	0	0	1	835	842	30	2		2	AQR	15	35198840	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	111954	35198840	67332552	256	47851										
TMCO5A	145942	broad.mit.edu	37	chr15	38243320	38243320	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcatgtaagattcataaatcCagatctcctcgtcaatgtac	5	10	4	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:38243320C>A	uc001zjw.2	+	11	855	c.752C>A	c.(751-753)CCA>CAA	p.P251Q	TMCO5A_uc001zjv.1_Intron	NM_152453	NP_689666	Q8N6Q1	TMC5A_HUMAN	transmembrane and coiled-coil domains 5A	251						integral to membrane				central_nervous_system(1)	1						TTCATAAATCCAGATCTCCTC	0.423													49	164	---	---	---	---	PASS	A	38243320	A	A	38243320	3	1	133	1	0	0	0	0	1	0	0	0	15996	594	21	3	790	3	TMCO5A	15	38243320	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	3044480	38243320	64288072	257	47852										
MGA	23269	broad.mit.edu	37	chr15	41961148	41961148	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agatggtggaacagtggcagGagcagcacctaccttctttg	13	9	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:41961148G>C	uc001zog.1	+	2	147	c.56G>C	c.(55-57)GGA>GCA	p.G19A	MGA_uc010ucy.1_Missense_Mutation_p.G19A|MGA_uc010ucz.1_Missense_Mutation_p.G19A	NM_001080541	NP_001074010	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 2	19						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		ACAGTGGCAGGAGCAGCACCT	0.423													27	132	---	---	---	---	PASS	C	41961148	C	C	41961148	3	2	133	1	0	0	0	0	1	0	0	0	9540	1174	41	2	58	2	MGA	15	41961148	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	3717828	41961148	60570244	258	47853										
PLA2G4F	255189	broad.mit.edu	37	chr15	42439900	42439900	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctgcaaccctgccaggctgcCgtacagagaagacatggctc	11	14	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:42439900C>A	uc001zoz.2	-	12	1183	c.1120G>T	c.(1120-1122)GGC>TGC	p.G374C	PLA2G4F_uc010bcq.2_5'Flank|PLA2G4F_uc001zoy.2_Missense_Mutation_p.G6C|PLA2G4F_uc010bcr.2_Missense_Mutation_p.G125C|PLA2G4F_uc001zpa.2_Missense_Mutation_p.G125C|PLA2G4F_uc010bcs.2_Missense_Mutation_p.G161C	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	374	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		GCCAGGCTGCCGTACAGAGAA	0.582													32	84	---	---	---	---	PASS	A	42439900	A	A	42439900	3	1	133	1	0	0	0	0	1	0	0	0	12006	652	23	1	1465	1	PLA2G4F	15	42439900	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	478752	42439900	60091492	259	47854										
SLC12A1	6557	broad.mit.edu	37	chr15	48594977	48594977	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtggcaagaaagggatccatAtcggatttgttgtatatggc	13	5	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:48594977A>T	uc001zwn.3	+	27	3411	c.3195A>T	c.(3193-3195)ATA>ATT	p.I1065I	SLC12A1_uc001zwq.3_Silent_p.I836I|SLC12A1_uc001zwr.3_Silent_p.I792I	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	1065	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	AGGGATCCATATCGGATTTGT	0.368													32	126	---	---	---	---	PASS	T	48594977	T	T	48594977	2	4	133	1	0	0	0	0	0	0	0	1	14382	439	16	5		5	SLC12A1	15	48594977	Silent	SNP	A	TCGA-60-2724-01A-01D-1522-08	6155077	48594977	53936415	260	47855										
CEP152	22995	broad.mit.edu	37	chr15	49061206	49061206	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tttaagcagcagaatatcatCtctgacaacatcagaagtag	7	8	3	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:49061206C>A	uc001zwy.2	-	14	1889	c.1855G>T	c.(1855-1857)GAT>TAT	p.D619Y	CEP152_uc001zwz.2_Missense_Mutation_p.D619Y|CEP152_uc001zxa.1_Missense_Mutation_p.D526Y	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	619	Potential.				centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		AGAATATCATCTCTGACAACA	0.274													13	47	---	---	---	---	PASS	A	49061206	A	A	49061206	3	1	133	1	0	0	0	0	1	0	0	0	3248	913	32	2	3161	2	CEP152	15	49061206	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	466229	49061206	53470186	261	47856										
TRPM7	54822	broad.mit.edu	37	chr15	50866531	50866531	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtaagtccagtggctaaaggCtagcatgatctcttccagag	11	9	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:50866531C>G	uc001zyt.3	-	36	5512	c.5248G>C	c.(5248-5250)GCC>CCC	p.A1750P	TRPM7_uc001zyr.2_Missense_Mutation_p.A187P	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	1750	Cytoplasmic (Potential).|Alpha-type protein kinase.				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		TGGCTAAAGGCTAGCATGATC	0.348													28	132	---	---	---	---	PASS	G	50866531	G	G	50866531	3	3	133	1	0	0	0	0	1	0	0	0	16588	797	28	4	365	4	TRPM7	15	50866531	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	1805325	50866531	51664861	262	47857										
MYO5A	4644	broad.mit.edu	37	chr15	52667601	52667601	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcctgcggaccacatacatgCgccagtacttttgaatgatg	9	11	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:52667601C>G	uc002aby.2	-	20	2721	c.2477G>C	c.(2476-2478)CGC>CCC	p.R826P	MYO5A_uc002abx.3_Missense_Mutation_p.R826P|MYO5A_uc010uge.1_Missense_Mutation_p.R695P	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	826	IQ 3.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		CACATACATGCGCCAGTACTT	0.443													22	84	---	---	---	---	PASS	G	52667601	G	G	52667601	3	3	133	1	0	0	0	0	1	0	0	0	10078	768	27	4	3178	4	MYO5A	15	52667601	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	1801070	52667601	49863791	263	47858										
WDR72	256764	broad.mit.edu	37	chr15	53957876	53957876	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cttaagtgtctctgaggcaaTgggaagtacagacttcacaa	10	8	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:53957876T>A	uc002acj.2	-	14	1897	c.1855A>T	c.(1855-1857)ATT>TTT	p.I619F	WDR72_uc010bfi.1_Missense_Mutation_p.I619F	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	619										lung(1)|skin(1)	2				all cancers(107;0.0511)		TCTGAGGCAATGGGAAGTACA	0.458													42	123	---	---	---	---	PASS	A	53957876	A	A	53957876	3	1	133	1	0	0	0	0	1	0	0	0	17319	1464	51	5	1481	5	WDR72	15	53957876	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	1290275	53957876	48573516	264	47859										
RNF111	54778	broad.mit.edu	37	chr15	59377922	59377922	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctggtgcattgcatcctcacTtggcccattatcacgcacct	7	15	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:59377922T>C	uc002afv.2	+	10	2767	c.2488T>C	c.(2488-2490)TTG>CTG	p.L830L	RNF111_uc002afs.2_Silent_p.L830L|RNF111_uc002aft.2_Silent_p.L839L|RNF111_uc002afu.2_Silent_p.L829L|RNF111_uc002afw.2_Silent_p.L839L|RNF111_uc002afx.2_Silent_p.L356L|RNF111_uc002afy.2_5'UTR	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	830					multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		GCATCCTCACTTGGCCCATTA	0.408													39	119	---	---	---	---	PASS	C	59377922	C	C	59377922	2	2	133	1	0	0	0	0	0	0	0	1	13425	1606	56	5		5	RNF111	15	59377922	Silent	SNP	T	TCGA-60-2724-01A-01D-1522-08	5420046	59377922	43153470	265	47860										
HERC1	8925	broad.mit.edu	37	chr15	63952040	63952040	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aactggttctggtacaatgcGccggtcatttaaaccaagcg	10	10	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:63952040G>C	uc002amp.2	-	47	9467	c.9319C>G	c.(9319-9321)CGC>GGC	p.R3107G		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	3107					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						GGTACAATGCGCCGGTCATTT	0.468													17	78	---	---	---	---	PASS	C	63952040	C	C	63952040	3	2	133	1	0	0	0	0	1	0	0	0	7057	1087	38	4	5394	4	HERC1	15	63952040	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	4574118	63952040	38579352	266	47861										
DENND4A	10260	broad.mit.edu	37	chr15	66030127	66030127	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cctgaatgcatcaaaaaaagGccagtgagaaagaagacaga	10	7	1	5			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:66030127G>A	uc002aph.2	-	7	1336	c.958C>T	c.(958-960)CCT>TCT	p.P320S	DENND4A_uc002api.2_Missense_Mutation_p.P320S|DENND4A_uc002apj.3_Missense_Mutation_p.P320S|DENND4A_uc010ujj.1_Missense_Mutation_p.P320S	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	320	DENN.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						TCAAAAAAAGGCCAGTGAGAA	0.383													3	11	---	---	---	---	PASS	A	66030127	A	A	66030127	3	1	133	1	0	0	0	0	1	0	0	0	4433	1203	42	3	4870	3	DENND4A	15	66030127	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	2078087	66030127	36501265	267	47862										
ACSBG1	23205	broad.mit.edu	37	chr15	78471983	78471983	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atacaagcggatgttgagacCcaggaagaagtgctgtgtct	13	7	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:78471983C>A	uc002bdh.2	-	10	1449	c.1393G>T	c.(1393-1395)GGT>TGT	p.G465C	ACSBG1_uc010umw.1_Missense_Mutation_p.G461C|ACSBG1_uc010umx.1_Missense_Mutation_p.G223C	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	465					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						ATGTTGAGACCCAGGAAGAAG	0.572													25	67	---	---	---	---	PASS	A	78471983	A	A	78471983	3	1	133	1	0	0	0	0	1	0	0	0	173	623	22	3	801	3	ACSBG1	15	78471983	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	12441856	78471983	24059409	268	47863										
MORF4L1	10933	broad.mit.edu	37	chr15	79172853	79172853	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tattttttttttgaatttcaGtgtgtaaaggttgccataaa	7	3	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:79172853G>A	uc002bel.2	+	3	276	c.88_splice	c.e3-1	p.C30_splice	MORF4L1_uc010bli.1_Splice_Site_p.C30_splice|MORF4L1_uc010blj.1_Splice_Site_p.C30_splice|MORF4L1_uc002bem.2_Splice_Site_p.C30_splice|MORF4L1_uc010une.1_Splice_Site	NM_206839	NP_996670	Q9UBU8	MO4L1_HUMAN	MORF-related gene 15 isoform 2						double-strand break repair via homologous recombination|histone deacetylation|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|Sin3 complex	protein N-terminus binding				0						TTGAATTTCAGTGTGTAAAGG	0.289													13	45	---	---	---	---	PASS	A	79172853	A	A	79172853	5	1	133	1	0	0	0	0	0	0	1	0	9706	1043	36	3	97	3	MORF4L1	15	79172853	Splice_Site	SNP	G	TCGA-60-2724-01A-01D-1522-08	700870	79172853	23358539	269	47864										
KLHL25	64410	broad.mit.edu	37	chr15	86311564	86311564	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cacctcccatgatgaagatcTggctgcccaggacggcagcg	12	14	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr15:86311564T>C	uc002bly.2	-	2	1681	c.1478A>G	c.(1477-1479)CAG>CGG	p.Q493R		NM_022480	NP_071925	Q9H0H3	ENC2_HUMAN	BTB/POZ KELCH domain protein	493						cytoplasm				ovary(2)	2						GATGAAGATCTGGCTGCCCAG	0.617													33	90	---	---	---	---	PASS	C	86311564	C	C	86311564	3	2	133	1	0	0	0	0	1	0	0	0	8380	1580	55	5	295	5	KLHL25	15	86311564	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	7138711	86311564	16219828	270	47865										
MSLNL	401827	broad.mit.edu	37	chr16	822922	822922	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctccagggccacgtcggaggCcagcagagccatgaccgtgt	14	14	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr16:822922C>A	uc002cjz.1	-	11	2263	c.2263G>T	c.(2263-2265)GCC>TCC	p.A755S		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	404	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						ACGTCGGAGGCCAGCAGAGCC	0.687													17	34	---	---	---	---	PASS	A	822922	A	A	822922	3	1	133	1	0	0	0	0	1	0	0	0	9882	739	26	3	922	3	MSLNL	16	822922	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08		822922	89531831	271	47866										
CHTF18	63922	broad.mit.edu	37	chr16	841264	841264	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gcccagtgttgagccggcccGggtcagcaaggaggccacag	16	13	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr16:841264G>T	uc002cke.3	+	8	1061	c.998G>T	c.(997-999)CGG>CTG	p.R333L	RPUSD1_uc002ckb.2_5'Flank|RPUSD1_uc002ckc.2_5'Flank|RPUSD1_uc002ckd.2_5'Flank|CHTF18_uc010uus.1_3'UTR|CHTF18_uc010bre.1_RNA|CHTF18_uc002ckf.3_Missense_Mutation_p.R361L|CHTF18_uc010brf.2_5'UTR|CHTF18_uc002ckg.3_5'UTR	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	333					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity			kidney(1)	1		Hepatocellular(780;0.00335)				GAGCCGGCCCGGGTCAGCAAG	0.657													7	7	---	---	---	---	PASS	T	841264	T	T	841264	3	4	133	1	0	0	0	0	1	0	0	0	3414	1116	39	1	1028	1	CHTF18	16	841264	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	18342	841264	89513489	272	47867										
THUMPD1	55623	broad.mit.edu	37	chr16	20748507	20748507	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aaacaacatgtaatctttcaCaacactcaggcaacagacag	5	11	3	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr16:20748507C>T	uc002dho.2	-	4	895	c.757G>A	c.(757-759)GTG>ATG	p.V253M	THUMPD1_uc010vaz.1_Missense_Mutation_p.V106M|THUMPD1_uc002dhp.2_Missense_Mutation_p.V253M	NM_017736	NP_060206	Q9NXG2	THUM1_HUMAN	THUMP domain containing 1	253	THUMP.										0						TAATCTTTCACAACACTCAGG	0.418													64	123	---	---	---	---	PASS	T	20748507	T	T	20748507	3	4	133	1	0	0	0	0	1	0	0	0	15879	478	17	3	308	3	THUMPD1	16	20748507	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	19907243	20748507	69606246	273	47868										
DNAH3	55567	broad.mit.edu	37	chr16	20994170	20994170	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gatcagcgaagggaacatccGcaggcggttcctgaaggcat	14	10	1	1	rs138051514		TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr16:20994170G>T	uc010vbe.1	-	49	7732	c.7732C>A	c.(7732-7734)CGG>AGG	p.R2578R	DNAH3_uc010vbd.1_Silent_p.R13R	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2578	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GGGAACATCCGCAGGCGGTTC	0.498													40	100	---	---	---	---	PASS	T	20994170	T	T	20994170	2	4	133	1	0	0	0	0	0	0	0	1	4603	1086	38	1		1	DNAH3	16	20994170	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	245663	20994170	69360583	274	47869										
ANKS4B	257629	broad.mit.edu	37	chr16	21261440	21261440	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtaccttctccagatcatccCcttcaaatgcttctgctcct	4	16	4	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr16:21261440C>T	uc010bwp.1	+	2	596	c.553C>T	c.(553-555)CCT>TCT	p.P185S	CRYM_uc010bwq.1_Intron	NM_145865	NP_665872	Q8N8V4	ANS4B_HUMAN	harmonin-interacting ankyrin-repeat containing	185										ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0565)		CAGATCATCCCCTTCAAATGC	0.473													22	72	---	---	---	---	PASS	T	21261440	T	T	21261440	3	4	133	1	0	0	0	0	1	0	0	0	691	623	22	3	559	3	ANKS4B	16	21261440	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	267270	21261440	69093313	275	47870										
N4BP1	9683	broad.mit.edu	37	chr16	48594820	48594820	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgatcagaaggtcctgccgaCcttgcatcagtaaccgaagg	11	11	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr16:48594820C>G	uc002efp.2	-	2	1971	c.1734G>C	c.(1732-1734)AGG>AGC	p.R578S		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	578					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				GTCCTGCCGACCTTGCATCAG	0.433													51	179	---	---	---	---	PASS	G	48594820	G	G	48594820	3	3	133	1	0	0	0	0	1	0	0	0	10109	506	18	4	980	4	N4BP1	16	48594820	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	27333380	48594820	41759933	276	47871										
RSPRY1	89970	broad.mit.edu	37	chr16	57261270	57261270	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccaggaaggctacggcattgGggatgatgaatactcctgtg	14	8	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr16:57261270G>A	uc002elb.2	+	11	1456	c.1178G>A	c.(1177-1179)GGG>GAG	p.G393E	RSPRY1_uc002elc.2_Missense_Mutation_p.G393E|RSPRY1_uc002eld.2_Missense_Mutation_p.G393E	NM_133368	NP_588609	Q96DX4	RSPRY_HUMAN	ring finger and SPRY domain containing 1	393	B30.2/SPRY.					extracellular region	zinc ion binding			ovary(1)	1						TACGGCATTGGGGATGATGAA	0.507													8	48	---	---	---	---	PASS	A	57261270	A	A	57261270	3	1	133	1	0	0	0	0	1	0	0	0	13713	1232	43	3	1216	3	RSPRY1	16	57261270	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	8666450	57261270	33093483	277	47872										
CCDC135	84229	broad.mit.edu	37	chr16	57734153	57734153	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttgtctccgacttcctcaccAtggtgcccctgcctgaccct	7	18	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr16:57734153A>G	uc002emi.2	+	4	564	c.475A>G	c.(475-477)ATG>GTG	p.M159V	CCDC135_uc002emj.2_Missense_Mutation_p.M159V|CCDC135_uc002emk.2_Missense_Mutation_p.M159V	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	159						cytoplasm				central_nervous_system(1)	1						CTTCCTCACCATGGTGCCCCT	0.542													26	88	---	---	---	---	PASS	G	57734153	G	G	57734153	3	3	133	1	0	0	0	0	1	0	0	0	2769	217	8	5	485	5	CCDC135	16	57734153	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	472883	57734153	32620600	278	47873										
CDH8	1006	broad.mit.edu	37	chr16	61689508	61689508	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cacagaccctgattgtcaagGtgctagtgctgctcagtgga	12	10	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr16:61689508G>T	uc002eog.1	-	11	2024	c.1772C>A	c.(1771-1773)ACC>AAC	p.T591N		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	591	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.T591T(1)		ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		GATTGTCAAGGTGCTAGTGCT	0.468													34	139	---	---	---	---	PASS	T	61689508	T	T	61689508	3	4	133	1	0	0	0	0	1	0	0	0	3116	1261	44	3	635	3	CDH8	16	61689508	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	3955355	61689508	28665245	279	47874										
PRMT7	54496	broad.mit.edu	37	chr16	68390608	68390608	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cccctctccttgacaggcccGggcagagccacgcagcggtg	13	17	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr16:68390608G>C	uc002evy.1	+	18	2092	c.1816G>C	c.(1816-1818)GGG>CGG	p.G606R	PRMT7_uc010vlg.1_Missense_Mutation_p.G556R|PRMT7_uc002evz.1_Missense_Mutation_p.G378R|PRMT7_uc010cfd.1_Missense_Mutation_p.G98R	NM_019023	NP_061896	Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	606					cell differentiation|DNA methylation involved in gamete generation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	[myelin basic protein]-arginine N-methyltransferase activity|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N monomethyltransferase activity|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		TGACAGGCCCGGGCAGAGCCA	0.647													8	21	---	---	---	---	PASS	C	68390608	C	C	68390608	3	2	133	1	0	0	0	0	1	0	0	0	12541	1116	39	4	1878	4	PRMT7	16	68390608	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	6701100	68390608	21964145	280	47875										
TAT	6898	broad.mit.edu	37	chr16	71609830	71609830	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcaggaggagcttaccgatgGatggggcatagccattatat	13	7	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr16:71609830G>T	uc002fap.2	-	3	434	c.335C>A	c.(334-336)TCC>TAC	p.S112Y	TAT_uc002faq.2_Missense_Mutation_p.S112Y|TAT_uc002far.2_3'UTR	NM_000353	NP_000344	P17735	ATTY_HUMAN	tyrosine aminotransferase	112					2-oxoglutarate metabolic process|glutamate metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	1-aminocyclopropane-1-carboxylate synthase activity|L-tyrosine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(2)	2		Ovarian(137;0.125)		Kidney(780;0.0157)	L-Glutamic Acid(DB00142)|L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Pyridoxal Phosphate(DB00114)	CTTACCGATGGATGGGGCATA	0.488													34	133	---	---	---	---	PASS	T	71609830	T	T	71609830	3	4	133	1	0	0	0	0	1	0	0	0	15587	1174	41	2	1069	2	TAT	16	71609830	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	3219222	71609830	18744923	281	47876										
FBXO31	79791	broad.mit.edu	37	chr16	87393974	87393974	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttttcgcaaacaccatactcTgtaacaagaaacatttgcag	5	10	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr16:87393974T>G	uc002fjw.2	-	2	385	c.341_splice	c.e2-1	p.E114_splice	FBXO31_uc010vot.1_Splice_Site|FBXO31_uc002fjv.2_Silent_p.T5T	NM_024735	NP_079011	Q5XUX0	FBX31_HUMAN	F-box protein 31						cell cycle|cyclin catabolic process|mitotic cell cycle G1/S transition DNA damage checkpoint|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	SCF ubiquitin ligase complex	cyclin binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0272)		CACCATACTCTGTAACAAGAA	0.493													16	61	---	---	---	---	PASS	G	87393974	G	G	87393974	5	3	133	1	0	0	0	0	0	0	1	0	5741	1594	55	5	1312	5	FBXO31	16	87393974	Splice_Site	SNP	T	TCGA-60-2724-01A-01D-1522-08	15784144	87393974	2960779	282	47877										
OR1A2	26189	broad.mit.edu	37	chr17	3101541	3101541	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttctgcacctgtggctcccaCctcacagttgtttttttata	6	12	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:3101541C>G	uc002fvd.1	+	1	729	c.729C>G	c.(727-729)CAC>CAG	p.H243Q		NM_012352	NP_036484	Q9Y585	OR1A2_HUMAN	olfactory receptor, family 1, subfamily A,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GTGGCTCCCACCTCACAGTTG	0.438													88	252	---	---	---	---	PASS	G	3101541	G	G	3101541	3	3	133	1	0	0	0	0	1	0	0	0	10950	506	18	4	731	4	OR1A2	17	3101541	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08		3101541	78093669	283	47878										
TP53	7157	broad.mit.edu	37	chr17	7577551	7577551	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gggcctccggttcatgccgcCcatgcaggaactgttacaca	11	14	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:7577551C>A	uc002gim.2	-	7	924	c.730G>T	c.(730-732)GGC>TGC	p.G244C	TP53_uc002gig.1_Missense_Mutation_p.G244C|TP53_uc002gih.2_Missense_Mutation_p.G244C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G112C|TP53_uc010cng.1_Missense_Mutation_p.G112C|TP53_uc002gii.1_Missense_Mutation_p.G112C|TP53_uc010cnh.1_Missense_Mutation_p.G244C|TP53_uc010cni.1_Missense_Mutation_p.G244C|TP53_uc002gij.2_Missense_Mutation_p.G244C|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.G151C|TP53_uc002gio.2_Missense_Mutation_p.G112C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	244	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		G -> A (in sporadic cancers; somatic mutation).|G -> S (in sporadic cancers; somatic mutation).|G -> R (in sporadic cancers; somatic mutation).|MG -> IC (in a sporadic cancer; somatic mutation).|G -> E (in a sporadic cancer; somatic mutation).|G -> C (in sporadic cancers; somatic mutation).|MG -> IS (in a sporadic cancer; somatic mutation).|G -> V (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G244C(36)|p.G244S(35)|p.G244D(32)|p.G244V(14)|p.G244G(13)|p.G244A(9)|p.0?(7)|p.G244fs*3(5)|p.G244R(3)|p.M243_G244>IC(1)|p.G244E(1)|p.G244fs*19(1)|p.G151C(1)|p.G244fs*17(1)|p.M243fs*18(1)|p.S241_G245delSCMGG(1)|p.C242fs*98(1)|p.C242_M246>L(1)|p.G244del(1)|p.C238_M246delCNSSCMGGM(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)		TTCATGCCGCCCATGCAGGAA	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)			16	74	---	---	---	---	PASS	A	7577551	A	A	7577551	3	1	133	1	0	0	0	0	1	0	0	0	16378	623	22	3	560	3	TP53	17	7577551	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	4476010	7577551	73617659	284	47879										
CHD3	1107	broad.mit.edu	37	chr17	7801302	7801302	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cccacagtgtggataaaaagGggaattaccactatctagta	9	8	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:7801302G>T	uc002gje.2	+	12	2083	c.1933G>T	c.(1933-1935)GGG>TGG	p.G645W	CHD3_uc002gjd.2_Missense_Mutation_p.G704W|CHD3_uc002gjf.2_Missense_Mutation_p.G645W|CHD3_uc002gjg.1_Missense_Mutation_p.G473W	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	645	Chromo 2.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GGATAAAAAGGGGAATTACCA	0.448													60	197	---	---	---	---	PASS	T	7801302	T	T	7801302	3	4	133	1	0	0	0	0	1	0	0	0	3326	1232	43	3	2260	3	CHD3	17	7801302	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	223751	7801302	73393908	285	47880										
NTN1	9423	broad.mit.edu	37	chr17	8926186	8926186	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tggccatctacaagtccatgGactacgggcgcacgtgggtg	14	11	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:8926186G>T	uc002glw.3	+	2	603	c.496G>T	c.(496-498)GAC>TAC	p.D166Y		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	166	Laminin N-terminal.				apoptosis|axon guidance		protein binding				0						CAAGTCCATGGACTACGGGCG	0.622													3	26	---	---	---	---	PASS	T	8926186	T	T	8926186	3	4	133	1	0	0	0	0	1	0	0	0	10700	1174	41	2	498	2	NTN1	17	8926186	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1124884	8926186	72269024	286	47881										
MYH2	4620	broad.mit.edu	37	chr17	10446460	10446460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttttccagtagtgccaaagtGgattctgatgaatttaccct	8	8	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:10446460G>T	uc010coi.2	-	9	888	c.760C>A	c.(760-762)CAC>AAC	p.H254N	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.H254N|MYH2_uc010coj.2_Missense_Mutation_p.H254N	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	254	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GTGCCAAAGTGGATTCTGATG	0.294													42	154	---	---	---	---	PASS	T	10446460	T	T	10446460	3	4	133	1	0	0	0	0	1	0	0	0	10035	1348	47	3	5193	3	MYH2	17	10446460	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1520274	10446460	70748750	287	47882										
TEKT3	64518	broad.mit.edu	37	chr17	15234560	15234560	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcttagtttctccgaattatGtcgggaagtgttggactctt	10	7	3	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:15234560G>T	uc002gon.2	-	3	530	c.343C>A	c.(343-345)CAT>AAT	p.H115N		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	115					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		TCCGAATTATGTCGGGAAGTG	0.418													69	283	---	---	---	---	PASS	T	15234560	T	T	15234560	3	4	133	1	0	0	0	0	1	0	0	0	15751	1377	48	3	1157	3	TEKT3	17	15234560	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	4788100	15234560	65960650	288	47883										
MPP2	4355	broad.mit.edu	37	chr17	41955348	41955348	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cactgtccgtctcaggtccgCctcctgcccaggcacaaggg	11	17	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:41955348C>T	uc010wip.1	-	13	1678	c.1621G>A	c.(1621-1623)GCG>ACG	p.A541T	MPP2_uc002ien.1_Missense_Mutation_p.A513T|MPP2_uc010wim.1_Missense_Mutation_p.A485T|MPP2_uc002ieo.1_Missense_Mutation_p.A496T|MPP2_uc010win.1_Missense_Mutation_p.A357T|MPP2_uc010wio.1_Missense_Mutation_p.A485T	NM_005374	NP_005365	Q14168	MPP2_HUMAN	palmitoylated membrane protein 2	520	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane|membrane fraction	guanylate kinase activity				0		Breast(137;0.00314)		BRCA - Breast invasive adenocarcinoma(366;0.12)		CTCAGGTCCGCCTCCTGCCCA	0.627													19	43	---	---	---	---	PASS	T	41955348	T	T	41955348	3	4	133	1	0	0	0	0	1	0	0	0	9734	739	26	3	176	3	MPP2	17	41955348	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	26720788	41955348	39239862	289	47884										
SNX11	29916	broad.mit.edu	37	chr17	46196335	46196335	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgctacctgtgtttttcccaGggtcctgcagagtgtggttc	12	10	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:46196335G>T	uc002inf.1	+	7	681	c.327_splice	c.e7-1	p.K109_splice	SNX11_uc010wlg.1_Splice_Site_p.K101_splice|SNX11_uc010wlh.1_Splice_Site_p.K101_splice|SNX11_uc010wli.1_Splice_Site_p.K48_splice|SNX11_uc010wlj.1_Splice_Site|SNX11_uc002ing.1_Splice_Site_p.K109_splice|SNX11_uc002inh.1_Splice_Site_p.K109_splice	NM_152244	NP_689450	Q9Y5W9	SNX11_HUMAN	sorting nexin 11						cell communication|protein transport	membrane	phosphatidylinositol binding				0						GTTTTTCCCAGGGTCCTGCAG	0.552													48	149	---	---	---	---	PASS	T	46196335	T	T	46196335	5	4	133	1	0	0	0	0	0	0	1	0	14882	1014	35	3	344	3	SNX11	17	46196335	Splice_Site	SNP	G	TCGA-60-2724-01A-01D-1522-08	4240987	46196335	34998875	290	47885										
CALCOCO2	10241	broad.mit.edu	37	chr17	46925692	46925692	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttgtgttttcagcttactacCtgcccaaggatgatgagtat	9	8	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:46925692C>T	uc002iof.2	+	4	371	c.292C>T	c.(292-294)CTG>TTG	p.L98L	CALCOCO2_uc010wlp.1_Silent_p.L119L|CALCOCO2_uc010wlq.1_Silent_p.L26L|CALCOCO2_uc010wlr.1_Silent_p.L122L|CALCOCO2_uc010wls.1_Silent_p.L98L	NM_005831	NP_005822	Q13137	CACO2_HUMAN	calcium binding and coiled-coil domain 2	98					response to interferon-gamma|viral reproduction	cytoskeleton|Golgi apparatus|nucleus|perinuclear region of cytoplasm|soluble fraction	protein homodimerization activity			ovary(1)	1						AGCTTACTACCTGCCCAAGGA	0.398													32	78	---	---	---	---	PASS	T	46925692	T	T	46925692	2	4	133	1	0	0	0	0	0	0	0	1	2578	680	24	3		3	CALCOCO2	17	46925692	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	729357	46925692	34269518	291	47886										
COL1A1	1277	broad.mit.edu	37	chr17	48262882	48262882	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tttacaggaagcagacagggCcaacgtcgaagccgaattcc	11	11	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:48262882C>A	uc002iqm.2	-	51	4502	c.4376G>T	c.(4375-4377)GGC>GTC	p.G1459V		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	1459	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	GCAGACAGGGCCAACGTCGAA	0.572			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						31	122	---	---	---	---	PASS	A	48262882	A	A	48262882	3	1	133	1	0	0	0	0	1	0	0	0	3677	739	26	3	22	3	COL1A1	17	48262882	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	1337190	48262882	32932328	292	47887										
PSMC5	5705	broad.mit.edu	37	chr17	61908449	61908449	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cacgggaacatgctccatctAtcatcttcatggacgaaatc	7	12	4	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:61908449A>G	uc002jcb.2	+	8	774	c.733A>G	c.(733-735)ATC>GTC	p.I245V	PSMC5_uc010ddy.2_Missense_Mutation_p.I222V|PSMC5_uc010ddz.2_Missense_Mutation_p.I166V|PSMC5_uc002jcc.2_Missense_Mutation_p.I237V|PSMC5_uc002jcd.2_Missense_Mutation_p.I237V	NM_002805	NP_002796	P62195	PRS8_HUMAN	proteasome 26S ATPase subunit 5	245					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of programmed cell death|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of transcription, DNA-dependent|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|transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|thyrotropin-releasing hormone receptor binding|transcription cofactor activity|transcription factor binding			large_intestine(1)	1						TGCTCCATCTATCATCTTCAT	0.557													45	123	---	---	---	---	PASS	G	61908449	G	G	61908449	3	3	133	1	0	0	0	0	1	0	0	0	12690	449	16	5	763	5	PSMC5	17	61908449	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	13645567	61908449	19286761	293	47888										
GPRC5C	55890	broad.mit.edu	37	chr17	72443133	72443133	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gccgaaagacggcaagaactCtcaggtctttagaaacccct	9	12	2	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:72443133C>G	uc002jks.2	+	3	1331	c.1292C>G	c.(1291-1293)TCT>TGT	p.S431C	GPRC5C_uc002jkp.2_Missense_Mutation_p.S476C|GPRC5C_uc002jkq.2_3'UTR|GPRC5C_uc002jkr.2_Missense_Mutation_p.S443C|GPRC5C_uc002jkt.2_Missense_Mutation_p.S431C|GPRC5C_uc002jku.2_Missense_Mutation_p.S186C	NM_018653	NP_061123	Q9NQ84	GPC5C_HUMAN	G protein-coupled receptor family C, group 5,	431	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to plasma membrane	G-protein coupled receptor activity|protein binding			ovary(2)|prostate(1)|central_nervous_system(1)|pancreas(1)	5						GGCAAGAACTCTCAGGTCTTT	0.652													41	108	---	---	---	---	PASS	G	72443133	G	G	72443133	3	3	133	1	0	0	0	0	1	0	0	0	6726	913	32	2	1449	2	GPRC5C	17	72443133	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	10534684	72443133	8752077	294	47889										
CD300LF	146722	broad.mit.edu	37	chr17	72700780	72700780	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	acccggtccctcttcacctcCtgctctgacccactggtttt	6	18	3	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr17:72700780C>T	uc002jlg.2	-	2	322	c.219G>A	c.(217-219)CAG>CAA	p.Q73Q	RAB37_uc002jlc.2_Intron|RAB37_uc010dfu.2_Intron|RAB37_uc002jld.2_Intron|CD300LF_uc002jlf.2_Silent_p.Q76Q|CD300LF_uc010dfw.2_RNA|CD300LF_uc002jlh.2_Silent_p.Q73Q|CD300LF_uc002jli.2_Silent_p.Q76Q|CD300LF_uc010wra.1_Silent_p.Q73Q|CD300LF_uc002jlj.1_Silent_p.Q76Q	NM_139018	NP_620587	Q8TDQ1	CLM1_HUMAN	NK inhibitory receptor precursor	73	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			upper_aerodigestive_tract(1)	1						TCTTCACCTCCTGCTCTGACC	0.498													86	290	---	---	---	---	PASS	T	72700780	T	T	72700780	2	4	133	1	0	0	0	0	0	0	0	1	3001	680	24	3		3	CD300LF	17	72700780	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	257647	72700780	8494430	295	47890										
TMEM200C	645369	broad.mit.edu	37	chr18	5891956	5891956	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcaccaccaccacgtcgttcTtgcgcctcttcttggctttc	6	17	4	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:5891956T>C	uc002kmx.1	-	1	148	c.107A>G	c.(106-108)AAG>AGG	p.K36R		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	36						integral to membrane					0						CACGTCGTTCTTGCGCCTCTT	0.612													16	42	---	---	---	---	PASS	C	5891956	C	C	5891956	3	2	133	1	0	0	0	0	1	0	0	0	16122	1609	56	5	1762	5	TMEM200C	18	5891956	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08		5891956	72185292	296	47891										
L3MBTL4	91133	broad.mit.edu	37	chr18	5956349	5956349	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcatcactttgacaatgtccGtctgtgtcagaagcaggaag	10	9	4	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:5956349G>C	uc002kmz.3	-	20	1902	c.1742C>G	c.(1741-1743)ACG>AGG	p.T581R	L3MBTL4_uc010dkt.2_Missense_Mutation_p.T581R|L3MBTL4_uc002kmy.3_Missense_Mutation_p.T410R	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	581	SAM.				chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				GACAATGTCCGTCTGTGTCAG	0.438													66	310	---	---	---	---	PASS	C	5956349	C	C	5956349	3	2	133	1	0	0	0	0	1	0	0	0	8594	1145	40	4	133	4	L3MBTL4	18	5956349	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	64393	5956349	72120899	297	47892										
L3MBTL4	91133	broad.mit.edu	37	chr18	6243368	6243368	+	Missense_Mutation	SNP	T	A	A													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtcaggggaaccagcattggTccaaaaatcatagcaactta							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:6243368T>A	uc002kmz.3	-	7	545	c.385A>T	c.(385-387)ACC>TCC	p.T129S	L3MBTL4_uc010dkt.2_Missense_Mutation_p.T129S|L3MBTL4_uc002kmy.3_5'Flank	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	129	MBT 1.				chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				CCAGCATTGGTCCAAAAATCA	0.393													30	142	---	---	---	---	PASS	A	6243368	A	A	6243368	3	1	133	1	0	0	0	0	1	0	0	0	8594	1667	58	5	1542	5	L3MBTL4	18	6243368	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	287019	6243368	71833880	298	47893	880	2								
L3MBTL4	91133	broad.mit.edu	37	chr18	6243369	6243369	+	Nonsense_Mutation	SNP	C	T	T													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcaggggaaccagcattggtCcaaaaatcatagcaacttaa							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:6243369C>T	uc002kmz.3	-	7	544	c.384G>A	c.(382-384)TGG>TGA	p.W128*	L3MBTL4_uc010dkt.2_Nonsense_Mutation_p.W128*|L3MBTL4_uc002kmy.3_5'Flank	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	128	MBT 1.				chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				CAGCATTGGTCCAAAAATCAT	0.393													30	142	---	---	---	---	PASS	T	6243369	T	T	6243369	4	4	133	1	0	0	0	0	0	1	0	0	8594	856	30	2	1543	2	L3MBTL4	18	6243369	Nonsense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	1	6243369	71833879	299	47894	880	2								
LAMA1	284217	broad.mit.edu	37	chr18	6986250	6986250	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tttagttcattgttgtgcttTgaaaggacgtggcttgctgc	12	6	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:6986250T>A	uc002knm.2	-	37	5359	c.5265A>T	c.(5263-5265)TCA>TCT	p.S1755S	LAMA1_uc010wzj.1_Silent_p.S1231S	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1755	Domain II and I.|Potential.				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)	TGTTGTGCTTTGAAAGGACGT	0.478													56	221	---	---	---	---	PASS	A	6986250	A	A	6986250	2	1	133	1	0	0	0	0	0	0	0	1	8605	1799	63	5		5	LAMA1	18	6986250	Silent	SNP	T	TCGA-60-2724-01A-01D-1522-08	742881	6986250	71090998	300	47895										
PTPRM	5797	broad.mit.edu	37	chr18	8069965	8069965	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agggccggaaggaaagccaaGaactcatagtgcagacagat	13	8	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:8069965G>T	uc002knn.3	+	8	1917	c.1414G>T	c.(1414-1416)GAA>TAA	p.E472*	PTPRM_uc010dkv.2_Nonsense_Mutation_p.E472*|PTPRM_uc010wzl.1_Nonsense_Mutation_p.E259*	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	472	Fibronectin type-III 2.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				GGAAAGCCAAGAACTCATAGT	0.418													9	40	---	---	---	---	PASS	T	8069965	T	T	8069965	4	4	133	1	0	0	0	0	0	1	0	0	12806	943	33	2	1444	2	PTPRM	18	8069965	Nonsense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1083715	8069965	70007283	301	47896										
AFG3L2	10939	broad.mit.edu	37	chr18	12344181	12344181	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ccagccggcaaccgcatggcCtgcttcgtggtatgccacag	12	15	0	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:12344181C>A	uc002kqz.1	-	14	1842	c.1729G>T	c.(1729-1731)GGC>TGC	p.G577C		NM_006796	NP_006787	Q9Y4W6	AFG32_HUMAN	AFG3 ATPase family gene 3-like 2	577					cell death|protein catabolic process|proteolysis	integral to membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0					Adenosine triphosphate(DB00171)	ACCGCATGGCCTGCTTCGTGG	0.522													36	119	---	---	---	---	PASS	A	12344181	A	A	12344181	3	1	133	1	0	0	0	0	1	0	0	0	360	681	24	3	680	3	AFG3L2	18	12344181	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	4274216	12344181	65733067	302	47897										
CEP192	55125	broad.mit.edu	37	chr18	13104996	13104996	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tttgcagggagttgatgaaaGtggagatgtttttagagcta	14	2	0	4			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:13104996G>C	uc010xac.1	+	40	7045	c.6965G>C	c.(6964-6966)AGT>ACT	p.S2322T	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.S1847T|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Missense_Mutation_p.S744T|CEP192_uc002krw.2_Missense_Mutation_p.S471T|CEP192_uc002krx.2_Missense_Mutation_p.S326T|CEP192_uc002kry.2_RNA	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	2322										ovary(4)|pancreas(1)	5						GTTGATGAAAGTGGAGATGTT	0.388													36	175	---	---	---	---	PASS	C	13104996	C	C	13104996	3	2	133	1	0	0	0	0	1	0	0	0	3251	1029	36	4	7119	4	CEP192	18	13104996	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	760815	13104996	64972252	303	47898										
ZNF521	25925	broad.mit.edu	37	chr18	22804449	22804449	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	actttcagactcaaacttaaCgttgcagctagagcagcgtg	9	10	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:22804449C>A	uc002kvk.2	-	4	3680	c.3433G>T	c.(3433-3435)GTT>TTT	p.V1145F	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.V1145F|ZNF521_uc002kvl.2_Missense_Mutation_p.V925F	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	1145	C2H2-type 26.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TCAAACTTAACGTTGCAGCTA	0.532			T	PAX5	ALL								29	92	---	---	---	---	PASS	A	22804449	A	A	22804449	3	1	133	1	0	0	0	0	1	0	0	0	17962	536	19	1	522	1	ZNF521	18	22804449	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	9699453	22804449	55272799	304	47899										
KLHL14	57565	broad.mit.edu	37	chr18	30350379	30350379	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggtggctggagaagagcgatCggaagtactgcgagcaggag	19	6	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:30350379C>G	uc002kxm.1	-	2	564	c.176G>C	c.(175-177)CGA>CCA	p.R59P		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	59	BTB.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						GAAGAGCGATCGGAAGTACTG	0.592													11	33	---	---	---	---	PASS	G	30350379	G	G	30350379	3	3	133	1	0	0	0	0	1	0	0	0	8370	884	31	2	1742	2	KLHL14	18	30350379	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	7545930	30350379	47726869	305	47900										
KIAA0427	9811	broad.mit.edu	37	chr18	46287933	46287933	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gatgctgggcgagatcgtgcGcacaatctaccagaaggctg	14	10	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:46287933G>C	uc002ldc.2	+	9	1529	c.1244G>C	c.(1243-1245)CGC>CCC	p.R415P	KIAA0427_uc002ldd.2_Missense_Mutation_p.R417P|KIAA0427_uc002lde.3_Missense_Mutation_p.R44P	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	415	MIF4G.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						GAGATCGTGCGCACAATCTAC	0.592													25	78	---	---	---	---	PASS	C	46287933	C	C	46287933	3	2	133	1	0	0	0	0	1	0	0	0	8176	1087	38	4	1280	4	KIAA0427	18	46287933	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	15937554	46287933	31789315	306	47901										
LIPG	9388	broad.mit.edu	37	chr18	47088747	47088747	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tttgctgcggggagccccgtAccttttggtccagagggacg	15	11	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:47088747A>C	uc002ldv.2	+	1	321	c.69A>C	c.(67-69)GTA>GTC	p.V23V	LIPG_uc002ldu.1_Silent_p.V23V|LIPG_uc010xdh.1_Silent_p.V23V	NM_006033	NP_006024	Q9Y5X9	LIPE_HUMAN	endothelial lipase precursor	23					cholesterol homeostasis|high-density lipoprotein particle remodeling|phospholipid catabolic process|phospholipid homeostasis|positive regulation of cholesterol transport|positive regulation of high-density lipoprotein particle clearance|reverse cholesterol transport	extracellular space	heparin binding|lipoprotein lipase activity|phospholipase A1 activity|protein binding|triglyceride lipase activity			ovary(1)|skin(1)	2						GGAGCCCCGTACCTTTTGGTC	0.562													18	66	---	---	---	---	PASS	C	47088747	C	C	47088747	2	2	133	1	0	0	0	0	0	0	0	1	8823	378	14	5		5	LIPG	18	47088747	Silent	SNP	A	TCGA-60-2724-01A-01D-1522-08	800814	47088747	30988501	307	47902										
MAPK4	5596	broad.mit.edu	37	chr18	48255612	48255612	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtacagcgcgacccgcgcgcGggttcggcgccactggctga	16	15	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:48255612G>T	uc002lev.2	+	6	2152	c.1152G>T	c.(1150-1152)GCG>GCT	p.A384A	MAPK4_uc010xdm.1_Silent_p.A173A|MAPK4_uc010doz.2_3'UTR	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	384					cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		ACCCGCGCGCGGGTTCGGCGC	0.682													20	51	---	---	---	---	PASS	T	48255612	T	T	48255612	2	4	133	1	0	0	0	0	0	0	0	1	9280	1103	39	1		1	MAPK4	18	48255612	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	1166865	48255612	29821636	308	47903										
GALR1	2587	broad.mit.edu	37	chr18	74980855	74980855	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcaaccaattgtactcatgtGtgataaaagatagagtatcc	7	7	2	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr18:74980855G>A	uc002lms.3	+	3	1544	c.1047G>A	c.(1045-1047)GTG>GTA	p.V349V		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	349	Cytoplasmic (Potential).				digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		GTACTCATGTGTGATAAAAGA	0.383													26	125	---	---	---	---	PASS	A	74980855	A	A	74980855	2	1	133	1	0	0	0	0	0	0	0	1	6227	1364	48	3		3	GALR1	18	74980855	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	26725243	74980855	3096393	309	47904										
MEX3D	399664	broad.mit.edu	37	chr19	1556842	1556842	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtcctccttccggccggtcaCgatgaagaccggctcctcgc	11	17	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:1556842C>A	uc010dsn.2	-	2	676	c.676G>T	c.(676-678)GTG>TTG	p.V226L		NM_203304	NP_976049	Q86XN8	MEX3D_HUMAN	ring finger and KH domain containing 1	226	KH 1.				mRNA destabilization|posttranscriptional regulation of gene expression by mRNA localization|regulation of anti-apoptosis	nucleus|perinuclear region of cytoplasm	AU-rich element binding|zinc ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGCCGGTCACGATGAAGACC	0.657													10	36	---	---	---	---	PASS	A	1556842	A	A	1556842	3	1	133	1	0	0	0	0	1	0	0	0	9512	536	19	1	1346	1	MEX3D	19	1556842	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08		1556842	57572141	310	47905										
SHD	56961	broad.mit.edu	37	chr19	4282913	4282913	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cccctttgatgctcagcctcAtcctgcacccccggatgatg	8	17	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:4282913A>T	uc002lzw.2	+	2	1807	c.344A>T	c.(343-345)CAT>CTT	p.H115L	SHD_uc010dtu.2_Missense_Mutation_p.H115L	NM_020209	NP_064594	Q96IW2	SHD_HUMAN	Src homology 2 domain containing transforming	115											0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0337)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTCAGCCTCATCCTGCACCC	0.577													36	146	---	---	---	---	PASS	T	4282913	T	T	4282913	3	4	133	1	0	0	0	0	1	0	0	0	14275	217	8	5	350	5	SHD	19	4282913	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	2726071	4282913	54846070	311	47906										
KDM4B	23030	broad.mit.edu	37	chr19	5133937	5133937	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gaagatgtgagtgacccggaCgccttgaggccgctgctgtc	15	11	0	4	rs146435915		TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:5133937C>T	uc002mbq.3	+	14	2176	c.1950C>T	c.(1948-1950)GAC>GAT	p.D650D	KDM4B_uc010xim.1_Silent_p.D684D|KDM4B_uc002mbr.3_Silent_p.D408D	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	650					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						GTGACCCGGACGCCTTGAGGC	0.612													23	87	---	---	---	---	PASS	T	5133937	T	T	5133937	2	4	133	1	0	0	0	0	0	0	0	1	8129	535	19	1		1	KDM4B	19	5133937	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	851024	5133937	53995046	312	47907										
MUC16	94025	broad.mit.edu	37	chr19	8966671	8966671	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atccacaaggacactgctccTgtccagggtgaagttctgca	10	12	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:8966671T>C	uc002mkp.2	-	81	43486	c.43282A>G	c.(43282-43284)AGG>GGG	p.R14428G	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.R1228G|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	14526	SEA 16.|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						ACACTGCTCCTGTCCAGGGTG	0.562													6	13	---	---	---	---	PASS	C	8966671	C	C	8966671	3	2	133	1	0	0	0	0	1	0	0	0	9973	1579	55	5	257	5	MUC16	19	8966671	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	3832734	8966671	50162312	313	47908										
ZNF426	79088	broad.mit.edu	37	chr19	9639140	9639140	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	catttatagggtttctcttcTgtgtgagttttttcatgaat	8	5	3	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:9639140T>C	uc002mlq.2	-	8	1845	c.1581A>G	c.(1579-1581)ACA>ACG	p.T527T	ZNF426_uc010dws.2_Silent_p.T489T	NM_024106	NP_077011	Q9BUY5	ZN426_HUMAN	zinc finger protein 426	527					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GTTTCTCTTCTGTGTGAGTTT	0.428													60	158	---	---	---	---	PASS	C	9639140	C	C	9639140	2	2	133	1	0	0	0	0	0	0	0	1	17897	1567	55	5		5	ZNF426	19	9639140	Silent	SNP	T	TCGA-60-2724-01A-01D-1522-08	672469	9639140	49489843	314	47909										
ANGPTL6	83854	broad.mit.edu	37	chr19	10204093	10204093	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgtgccaggaaagagagtctCcagcatcaccatggtactgg	12	10	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:10204093C>G	uc002mmx.1	-	5	1272	c.1154G>C	c.(1153-1155)GGA>GCA	p.G385A	ANGPTL6_uc002mmy.1_Missense_Mutation_p.G385A	NM_031917	NP_114123	Q8NI99	ANGL6_HUMAN	angiopoietin-like 6 precursor	385	Fibrinogen C-terminal.				angiogenesis|cell differentiation|signal transduction	extracellular space	receptor binding				0			OV - Ovarian serous cystadenocarcinoma(20;3.58e-08)|Epithelial(33;2.5e-05)|all cancers(31;5.96e-05)			AAGAGAGTCTCCAGCATCACC	0.577													34	103	---	---	---	---	PASS	G	10204093	G	G	10204093	3	3	133	1	0	0	0	0	1	0	0	0	618	855	30	2	266	2	ANGPTL6	19	10204093	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	564953	10204093	48924890	315	47910										
ILF3	3609	broad.mit.edu	37	chr19	10798245	10798245	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cagcagcagtcctacaaccaGagcccctacagcaactatgg	8	15	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:10798245G>C	uc002mpn.2	+	18	2600	c.2283G>C	c.(2281-2283)CAG>CAC	p.Q761H	ILF3_uc002mpo.2_Missense_Mutation_p.Q765H|ILF3_uc002mpq.2_Missense_Mutation_p.R64T	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	761	Interaction with PRMT1.				M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			CCTACAACCAGAGCCCCTACA	0.607													6	54	---	---	---	---	PASS	C	10798245	C	C	10798245	3	2	133	1	0	0	0	0	1	0	0	0	7712	933	33	2	2433	2	ILF3	19	10798245	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	594152	10798245	48330738	316	47911										
LDLR	3949	broad.mit.edu	37	chr19	11215997	11215997	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gggactgcttggacggctcaGacgaggcctcctgcccggtg	16	13	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:11215997G>C	uc002mqk.3	+	4	583	c.415G>C	c.(415-417)GAC>CAC	p.D139H	LDLR_uc010xlk.1_Missense_Mutation_p.D139H|LDLR_uc010xll.1_Missense_Mutation_p.D98H|LDLR_uc010xlm.1_Intron|LDLR_uc010xln.1_Intron|LDLR_uc010xlo.1_Intron	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	139	Extracellular (Potential).|LDL-receptor class A 3.				cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		Lung NSC(9;0.000245)|Renal(1328;0.0007)|Hepatocellular(1079;0.0524)		GBM - Glioblastoma multiforme(1328;1.36e-05)|STAD - Stomach adenocarcinoma(1328;0.000766)|Lung(535;0.197)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	GGACGGCTCAGACGAGGCCTC	0.647													65	239	---	---	---	---	PASS	C	11215997	C	C	11215997	3	2	133	1	0	0	0	0	1	0	0	0	8704	942	33	2	429	2	LDLR	19	11215997	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	417752	11215997	47912986	317	47912										
CYP4F3	4051	broad.mit.edu	37	chr19	15770052	15770052	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	actgcatcgggcaggcgttcGcgatggcggagatgaaggtg	18	8	0	2	rs118159249	by1000genomes	TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:15770052G>C	uc002nbj.2	+	13	1470	c.1420G>C	c.(1420-1422)GCG>CCG	p.A474P	CYP4F3_uc010xok.1_Missense_Mutation_p.A474P|CYP4F3_uc010xol.1_Missense_Mutation_p.A474P|CYP4F3_uc010xom.1_Missense_Mutation_p.A325P|CYP4F3_uc002nbk.2_Missense_Mutation_p.A474P|CYP4F3_uc010xon.1_Missense_Mutation_p.A184P	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	474					leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						GCAGGCGTTCGCGATGGCGGA	0.677													5	40	---	---	---	---	PASS	C	15770052	C	C	15770052	3	2	133	1	0	0	0	0	1	0	0	0	4190	1087	38	4	1466	4	CYP4F3	19	15770052	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	4554055	15770052	43358931	318	47913										
CYP4F2	8529	broad.mit.edu	37	chr19	15989724	15989724	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	caccttcatctccgccatcgCgaacgtctgcccgatgcagt	8	17	3	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:15989724C>G	uc002nbs.1	-	13	1470	c.1420G>C	c.(1420-1422)GCG>CCG	p.A474P	CYP4F2_uc010xot.1_Missense_Mutation_p.A325P	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	474					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						TCCGCCATCGCGAACGTCTGC	0.677													6	80	---	---	---	---	PASS	G	15989724	G	G	15989724	3	3	133	1	0	0	0	0	1	0	0	0	4188	768	27	4	146	4	CYP4F2	19	15989724	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	219672	15989724	43139259	319	47914										
FAM125A	93343	broad.mit.edu	37	chr19	17534842	17534842	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tggggttcccttcacactccAcccacgatttgagggcaaga	10	13	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:17534842A>C	uc002ngo.1	+	7	701	c.668A>C	c.(667-669)CAC>CCC	p.H223P	FAM125A_uc002ngp.1_Missense_Mutation_p.H131P|FAM125A_uc002ngq.1_Missense_Mutation_p.H119P	NM_138401	NP_612410	Q96EY5	F125A_HUMAN	family with sequence similarity 125, member A	223	UMA.|Interaction with TSG101, VPS37B and VPS28.				protein transport	late endosome membrane|microtubule organizing center|nucleus	SH3 domain binding				0						TTCACACTCCACCCACGATTT	0.637													18	88	---	---	---	---	PASS	C	17534842	C	C	17534842	3	2	133	1	0	0	0	0	1	0	0	0	5427	159	6	5	694	5	FAM125A	19	17534842	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	1545118	17534842	41594141	320	47915										
ZNF99	7652	broad.mit.edu	37	chr19	22941177	22941177	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aaaagctttgccacattcttCacatttgcaaggtttctctt	5	10	3	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:22941177C>G	uc010xrh.1	-	5	1261	c.1261G>C	c.(1261-1263)GAA>CAA	p.E421Q		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)				CCACATTCTTCACATTTGCAA	0.358													20	74	---	---	---	---	PASS	G	22941177	G	G	22941177	3	3	133	1	0	0	0	0	1	0	0	0	18201	835	29	2	1863	2	ZNF99	19	22941177	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	5406335	22941177	36187806	321	47916										
ZNF91	7644	broad.mit.edu	37	chr19	23543371	23543371	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggaacggctaaaagctttgcCacattcttcacatttgtagg	9	9	2	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:23543371C>A	uc002nre.2	-	4	2523	c.2410G>T	c.(2410-2412)GGC>TGC	p.G804C	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.G772C	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	804	C2H2-type 24.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				AAAGCTTTGCCACATTCTTCA	0.388													37	146	---	---	---	---	PASS	A	23543371	A	A	23543371	3	1	133	1	0	0	0	0	1	0	0	0	18197	594	21	3	1169	3	ZNF91	19	23543371	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	602194	23543371	35585612	322	47917										
C19orf2	8725	broad.mit.edu	37	chr19	30500243	30500243	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	caacaatatatttttcacatActgttgagcctaagagggtt	7	7	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:30500243A>G	uc002nsr.2	+	8	1048	c.1018A>G	c.(1018-1020)ACT>GCT	p.T340A	C19orf2_uc002nsq.2_Missense_Mutation_p.T322A|C19orf2_uc002nss.2_Missense_Mutation_p.T300A|C19orf2_uc002nst.2_Missense_Mutation_p.T264A	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	340					protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		TTTTTCACATACTGTTGAGCC	0.224													14	83	---	---	---	---	PASS	G	30500243	G	G	30500243	3	3	133	1	0	0	0	0	1	0	0	0	1911	391	14	5	1048	5	C19orf2	19	30500243	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	6956872	30500243	28628740	323	47918										
UBA2	10054	broad.mit.edu	37	chr19	34945244	34945244	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cagtatgaatatgaagagtaGatttgatatcaaatgtaagt	9	2	1	5			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:34945244G>C	uc002nvk.2	+	11	1188	c.1118G>C	c.(1117-1119)AGA>ACA	p.R373T	UBA2_uc010xrx.1_Missense_Mutation_p.R246T|UBA2_uc002nvl.2_Missense_Mutation_p.R277T	NM_005499	NP_005490	Q9UBT2	SAE2_HUMAN	SUMO-1 activating enzyme subunit 2	373					protein sumoylation	nucleus	ATP binding|enzyme activator activity|ligase activity|metal ion binding|protein heterodimerization activity|SUMO activating enzyme activity			ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			ATGAAGAGTAGATTTGATATC	0.308													36	132	---	---	---	---	PASS	C	34945244	C	C	34945244	3	2	133	1	0	0	0	0	1	0	0	0	16825	942	33	2	1160	2	UBA2	19	34945244	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	4445001	34945244	24183739	324	47919										
RYR1	6261	broad.mit.edu	37	chr19	38948829	38948829	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cgggtgggctgggccctcacCgagggctacaccccctaccc	13	18	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:38948829C>T	uc002oit.2	+	18	2194	c.2064C>T	c.(2062-2064)ACC>ACT	p.T688T	RYR1_uc002oiu.2_Silent_p.T688T	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	688	Cytoplasmic.|B30.2/SPRY 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GGGCCCTCACCGAGGGCTACA	0.627													34	101	---	---	---	---	PASS	T	38948829	T	T	38948829	2	4	133	1	0	0	0	0	0	0	0	1	13768	639	23	1		1	RYR1	19	38948829	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	4003585	38948829	20180154	325	47920										
PNMAL2	57469	broad.mit.edu	37	chr19	46997151	46997151	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctggatgccctgtcctccggCtccgacgcctcgctctcggt	11	18	1	0			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:46997151C>A	uc002pes.2	-	1	2019	c.1572G>T	c.(1570-1572)GAG>GAT	p.E524D	uc002peu.1_5'Flank	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	524										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		TGTCCTCCGGCTCCGACGCCT	0.741													5	42	---	---	---	---	PASS	A	46997151	A	A	46997151	3	1	133	1	0	0	0	0	1	0	0	0	12158	796	28	3	339	3	PNMAL2	19	46997151	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	8048322	46997151	12131832	326	47921										
CYTH2	9266	broad.mit.edu	37	chr19	48976622	48976622	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agttcaccgacctcaatctgGtgcaggccctcaggtgagtg	12	12	4	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:48976622G>T	uc002pjj.3	+	5	721	c.421G>T	c.(421-423)GTG>TTG	p.V141L	CYTH2_uc002pji.2_RNA	NM_017457	NP_059431	Q99418	CYH2_HUMAN	cytohesin 2 isoform 1	141	SEC7.				actin cytoskeleton organization|endocytosis|regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|membrane fraction|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						CCTCAATCTGGTGCAGGCCCT	0.398													17	87	---	---	---	---	PASS	T	48976622	T	T	48976622	3	4	133	1	0	0	0	0	1	0	0	0	4204	1261	44	3	439	3	CYTH2	19	48976622	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1979471	48976622	10152361	327	47922										
SLC17A7	57030	broad.mit.edu	37	chr19	49937935	49937935	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cagatcccatggcaggcgggGtatgtgaccccctaaagagg	14	11	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:49937935G>C	uc002pnp.2	-	5	733	c.561C>G	c.(559-561)TAC>TAG	p.Y187*	SLC17A7_uc002pnq.1_Nonsense_Mutation_p.Y120*|SLC17A7_uc002pno.2_5'UTR	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	187	Helical; (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		GGCAGGCGGGGTATGTGACCC	0.522													13	62	---	---	---	---	PASS	C	49937935	C	C	49937935	4	2	133	1	0	0	0	0	0	1	0	0	14422	1256	44	4	1153	4	SLC17A7	19	49937935	Nonsense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	961313	49937935	9191048	328	47923										
FAM71E1	112703	broad.mit.edu	37	chr19	50978640	50978640	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggccagaagcaataggtccgGgagctccagggctggactgg	17	10	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:50978640G>A	uc002psh.2	-	3	839	c.481C>T	c.(481-483)CCG>TCG	p.P161S	FAM71E1_uc002psg.2_Missense_Mutation_p.P145S|FAM71E1_uc002psi.2_RNA|C19orf63_uc002psj.2_5'Flank|C19orf63_uc002psk.2_5'Flank|C19orf63_uc002psl.2_5'Flank	NM_138411	NP_612420	Q6IPT2	F71E1_HUMAN	hypothetical protein LOC112703	161										breast(1)	1		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.0077)|GBM - Glioblastoma multiforme(134;0.026)		AATAGGTCCGGGAGCTCCAGG	0.652													8	16	---	---	---	---	PASS	A	50978640	A	A	50978640	3	1	133	1	0	0	0	0	1	0	0	0	5611	1232	43	3	270	3	FAM71E1	19	50978640	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	1040705	50978640	8150343	329	47924										
LRRC4B	94030	broad.mit.edu	37	chr19	51021789	51021789	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cgttgggcgtcagccagttgAcggaggtcatggaggtgccc	17	10	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:51021789A>C	uc002pss.2	-	3	1318	c.1181T>G	c.(1180-1182)GTC>GGC	p.V394G		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	394	Extracellular (Potential).|Ig-like C2-type.					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		CAGCCAGTTGACGGAGGTCAT	0.647													6	30	---	---	---	---	PASS	C	51021789	C	C	51021789	3	2	133	1	0	0	0	0	1	0	0	0	9007	275	10	5	964	5	LRRC4B	19	51021789	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	43149	51021789	8107194	330	47925										
KLK15	55554	broad.mit.edu	37	chr19	51330015	51330015	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	aacgtatctgggagactcacTggggaagacagtggacttgg	15	7	2	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:51330015T>A	uc002ptl.2	-	4	513	c.482_splice	c.e4-1	p.V161_splice	KLK1_uc002ptk.1_5'Flank|KLK1_uc010ycg.1_5'Flank|KLK15_uc002ptm.2_Intron|KLK15_uc002ptn.2_Intron|KLK15_uc002pto.2_Splice_Site_p.V160_splice|KLK15_uc010ych.1_Splice_Site|KLK15_uc010yci.1_Intron|KLK15_uc010eod.2_RNA	NM_017509	NP_059979	Q9H2R5	KLK15_HUMAN	kallikrein-related peptidase 15 isoform 4						proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)|breast(1)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00758)|GBM - Glioblastoma multiforme(134;0.0143)		GGAGACTCACTGGGGAAGACA	0.547													43	99	---	---	---	---	PASS	A	51330015	A	A	51330015	5	1	133	1	0	0	0	0	0	0	1	0	8403	1594	55	5	298	5	KLK15	19	51330015	Splice_Site	SNP	T	TCGA-60-2724-01A-01D-1522-08	308226	51330015	7798968	331	47926										
ZNF665	79788	broad.mit.edu	37	chr19	53669097	53669097	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgttaggtttgaacgaacagTaaaggctttgccacacttat	9	7	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:53669097T>A	uc010eqm.1	-	4	746	c.646A>T	c.(646-648)ACT>TCT	p.T216S		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	151	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		GAACGAACAGTAAAGGCTTTG	0.403													64	173	---	---	---	---	PASS	A	53669097	A	A	53669097	3	1	133	1	0	0	0	0	1	0	0	0	18070	1638	57	5	1394	5	ZNF665	19	53669097	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	2339082	53669097	5459886	332	47927										
PRKCG	5582	broad.mit.edu	37	chr19	54410101	54410101	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtgaaccccgacttcgtgcaCccggatgcccgcagccccac	10	19	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:54410101C>T	uc002qcq.1	+	18	2328	c.2046C>T	c.(2044-2046)CAC>CAT	p.H682H	PRKCG_uc010yeg.1_Silent_p.H682H|PRKCG_uc010yeh.1_Silent_p.H533H	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	682	AGC-kinase C-terminal.				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)		ACTTCGTGCACCCGGATGCCC	0.697											OREG0025667	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	83	---	---	---	---	PASS	T	54410101	T	T	54410101	2	4	133	1	0	0	0	0	0	0	0	1	12512	506	18	3		3	PRKCG	19	54410101	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08	741004	54410101	4718882	333	47928										
CACNG8	59283	broad.mit.edu	37	chr19	54466449	54466449	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gggcctctggtgcgagaaggGggtgcaggtgctgctgacga	20	8	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:54466449G>A	uc002qcs.1	+	1	156	c.50G>A	c.(49-51)GGG>GAG	p.G17E		NM_031895	NP_114101	Q8WXS5	CCG8_HUMAN	voltage-dependent calcium channel gamma-8	18					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic density|postsynaptic membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0	all_cancers(19;0.0385)|all_epithelial(19;0.0207)|all_lung(19;0.145)|Lung NSC(19;0.168)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.162)		TGCGAGAAGGGGGTGCAGGTG	0.672													3	10	---	---	---	---	PASS	A	54466449	A	A	54466449	3	1	133	1	0	0	0	0	1	0	0	0	2563	1232	43	3	55	3	CACNG8	19	54466449	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	56348	54466449	4662534	334	47929										
LILRA6	79168	broad.mit.edu	37	chr19	54745734	54745734	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	agggctgggcagggctgagaGggtgggtttgttgtagaatc	20	4	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:54745734G>A	uc002qeu.1	-	4	500	c.376C>T	c.(376-378)CTC>TTC	p.L126F	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Missense_Mutation_p.L126F|LILRA6_uc002qek.1_Missense_Mutation_p.L126F|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_RNA|LILRA6_uc002qel.1_Missense_Mutation_p.L126F|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Missense_Mutation_p.L126F|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Missense_Mutation_p.L126F|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Missense_Mutation_p.L126F|LILRA6_uc010yep.1_Missense_Mutation_p.L126F|LILRA6_uc010yeq.1_Missense_Mutation_p.L126F|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_5'UTR	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	126	Extracellular (Potential).					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		AGGGCTGAGAGGGTGGGTTTG	0.567													17	82	---	---	---	---	PASS	A	54745734	A	A	54745734	3	1	133	1	0	0	0	0	1	0	0	0	8789	1000	35	3	1089	3	LILRA6	19	54745734	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	279285	54745734	4383249	335	47930										
ZIM2	23619	broad.mit.edu	37	chr19	57286498	57286498	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cattgcagccagaagtcttcCtaccagaatgggtcttctga	9	11	3	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:57286498C>A	uc002qnr.2	-	11	1524	c.1142G>T	c.(1141-1143)AGG>ATG	p.R381M	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Missense_Mutation_p.R177M|ZIM2_uc010ygr.1_Missense_Mutation_p.R177M|ZIM2_uc002qnq.2_Missense_Mutation_p.R381M|ZIM2_uc010etp.2_Missense_Mutation_p.R381M|ZIM2_uc010ygs.1_Missense_Mutation_p.R381M	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	381					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		AGAAGTCTTCCTACCAGAATG	0.463													41	113	---	---	---	---	PASS	A	57286498	A	A	57286498	3	1	133	1	0	0	0	0	1	0	0	0	17681	681	24	3	445	3	ZIM2	19	57286498	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	2540764	57286498	1842485	336	47931										
ZNF417	147687	broad.mit.edu	37	chr19	58420710	58420710	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gtgtgaacacgctgatggctAataaggctgcccttctgact	11	10	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr19:58420710A>C	uc002qqq.2	-	3	1135	c.936T>G	c.(934-936)ATT>ATG	p.I312M	ZNF417_uc010yhm.1_Missense_Mutation_p.I269M|ZNF417_uc002qqr.2_Missense_Mutation_p.I311M	NM_152475	NP_689688	Q8TAU3	ZN417_HUMAN	zinc finger protein 417	312	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0151)		GCTGATGGCTAATAAGGCTGC	0.458													71	297	---	---	---	---	PASS	C	58420710	C	C	58420710	3	2	133	1	0	0	0	0	1	0	0	0	17891	358	13	5	795	5	ZNF417	19	58420710	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	1134212	58420710	708273	337	47932										
PDYN	5173	broad.mit.edu	37	chr20	1961207	1961207	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggtatttgcgcaaaaagcccCcatagcgtttgacctgctcc	9	13	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr20:1961207C>T	uc010gaj.2	-	3	769	c.527G>A	c.(526-528)GGG>GAG	p.G176E	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.G176E|PDYN_uc010zpt.1_Missense_Mutation_p.G21E	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	176					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						CAAAAAGCCCCCATAGCGTTT	0.592													56	160	---	---	---	---	PASS	T	1961207	T	T	1961207	3	4	133	1	0	0	0	0	1	0	0	0	11699	623	22	3	241	3	PDYN	20	1961207	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08		1961207	61064313	338	47933										
SMOX	54498	broad.mit.edu	37	chr20	4162950	4162950	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggcctcagcccgccccagagGccctgagattgagccccggg	14	17	1	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr20:4162950G>T	uc002wkm.1	+	5	1025	c.824G>T	c.(823-825)GGC>GTC	p.G275V	SMOX_uc002wkk.1_Missense_Mutation_p.G275V|SMOX_uc002wkl.1_Missense_Mutation_p.G275V|SMOX_uc002wkn.1_Intron|SMOX_uc002wkp.2_Missense_Mutation_p.G275V|SMOX_uc010zqo.1_Missense_Mutation_p.G252V|SMOX_uc002wko.1_Missense_Mutation_p.G275V	NM_175839	NP_787033	Q9NWM0	SMOX_HUMAN	spermine oxidase isoform 1	275					polyamine biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	polyamine oxidase activity			breast(1)	1					Spermine(DB00127)	CGCCCCAGAGGCCCTGAGATT	0.677													12	36	---	---	---	---	PASS	T	4162950	T	T	4162950	3	4	133	1	0	0	0	0	1	0	0	0	14803	1203	42	3	838	3	SMOX	20	4162950	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	2201743	4162950	58862570	339	47934										
TTLL9	164395	broad.mit.edu	37	chr20	30527060	30527060	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tgggaaactttgtgaccaacAcacatctcggtatgtagggc	11	9	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr20:30527060A>G	uc010gdx.1	+	14	1487	c.1234A>G	c.(1234-1236)ACA>GCA	p.T412A	TTLL9_uc002wwy.1_RNA|TTLL9_uc002wwz.1_Intron|TTLL9_uc002wxa.1_RNA|TTLL9_uc002wxb.1_RNA|TTLL9_uc010zto.1_RNA|TTLL9_uc002wxc.2_Missense_Mutation_p.T314A|TTLL9_uc010ztp.1_Intron|TTLL9_uc010ztq.1_RNA	NM_001008409	NP_001008409	Q3SXZ7	TTLL9_HUMAN	tubulin tyrosine ligase-like family, member 9	412					protein modification process	cilium|microtubule|microtubule basal body	ATP binding|tubulin-tyrosine ligase activity			ovary(2)	2			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			TGTGACCAACACACATCTCGG	0.557													21	61	---	---	---	---	PASS	G	30527060	G	G	30527060	3	3	133	1	0	0	0	0	1	0	0	0	16731	159	6	5	1284	5	TTLL9	20	30527060	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	26364110	30527060	32498460	340	47935										
BPIL1	80341	broad.mit.edu	37	chr20	31600616	31600616	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tactaccctgcaggatccggAttctgaatgtccatgtgccc	9	13	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr20:31600616A>T	uc002wyj.2	+	4	405	c.211A>T	c.(211-213)ATT>TTT	p.I71F		NM_025227	NP_079503	Q8N4F0	BPIL1_HUMAN	bactericidal/permeability-increasing	71						extracellular region	lipid binding			skin(2)|large_intestine(1)|ovary(1)	4						CAGGATCCGGATTCTGAATGT	0.527													102	318	---	---	---	---	PASS	T	31600616	T	T	31600616	3	4	133	1	0	0	0	0	1	0	0	0	1491	333	12	5	221	5	BPIL1	20	31600616	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	1073556	31600616	31424904	341	47936										
LAMA5	3911	broad.mit.edu	37	chr20	60926760	60926760	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	tcacctgaatggggcctcacCtgaacgggtccgtggggtct	14	12	3	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr20:60926760C>A	uc002ycq.2	-	6	1023	c.956G>T	c.(955-957)AGG>ATG	p.R319M		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	319	Laminin EGF-like 1.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGGGCCTCACCTGAACGGGTC	0.562													7	15	---	---	---	---	PASS	A	60926760	A	A	60926760	3	1	133	1	0	0	0	0	1	0	0	0	8609	695	24	3	10431	3	LAMA5	20	60926760	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	29326144	60926760	2098760	342	47937										
USP16	10600	broad.mit.edu	37	chr21	30419000	30419000	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttacccagaaccaacgaagaCaacaaaaaattcaaggaaaa	5	9	1	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr21:30419000C>T	uc002ymy.2	+	14	1571	c.1369C>T	c.(1369-1371)CAA>TAA	p.Q457*	USP16_uc002ymx.2_Nonsense_Mutation_p.Q456*|USP16_uc002ymw.2_Nonsense_Mutation_p.Q457*|USP16_uc011acm.1_Nonsense_Mutation_p.Q442*|USP16_uc011acn.1_Nonsense_Mutation_p.Q123*|USP16_uc011aco.1_Nonsense_Mutation_p.Q147*	NM_006447	NP_006438	Q9Y5T5	UBP16_HUMAN	ubiquitin specific protease 16 isoform a	457					cell division|histone deubiquitination|mitosis|positive regulation of transcription, DNA-dependent|protein homotetramerization|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|histone binding|transcription coactivator activity|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(2)|breast(1)|pancreas(1)	4						CCAACGAAGACAACAAAAAAT	0.239													15	58	---	---	---	---	PASS	T	30419000	T	T	30419000	4	4	133	1	0	0	0	0	0	1	0	0	17044	479	17	3	1419	3	USP16	21	30419000	Nonsense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08		30419000	17710895	343	47938										
DSCAM	1826	broad.mit.edu	37	chr21	41447126	41447126	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttggacaactgacttaatgaGtggaggaattgtacctgaaa	11	5	0	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr21:41447126G>T	uc002yyq.1	-	27	5178	c.4726C>A	c.(4726-4728)CTC>ATC	p.L1576I	DSCAM_uc002yyr.1_Intron	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1576	Extracellular (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				GACTTAATGAGTGGAGGAATT	0.507													28	84	---	---	---	---	PASS	T	41447126	T	T	41447126	3	4	133	1	0	0	0	0	1	0	0	0	4768	1029	36	3	1340	3	DSCAM	21	41447126	Missense_Mutation	SNP	G	TCGA-60-2724-01A-01D-1522-08	11028126	41447126	6682769	344	47939										
MX2	4600	broad.mit.edu	37	chr21	42749718	42749718	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctgttctgccttctccagggGcccgagaacaacctgtacag	10	14	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr21:42749718G>T	uc002yzf.1	+	3	356	c.252G>T	c.(250-252)GGG>GGT	p.G84G	MX2_uc011aer.1_RNA	NM_002463	NP_002454	P20592	MX2_HUMAN	myxovirus resistance protein 2	84					response to virus|type I interferon-mediated signaling pathway	cytoplasm|nucleus	GTP binding|GTPase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0222)				TTCTCCAGGGGCCCGAGAACA	0.597													15	71	---	---	---	---	PASS	T	42749718	T	T	42749718	2	4	133	1	0	0	0	0	0	0	0	1	9998	1190	42	3		3	MX2	21	42749718	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	1302592	42749718	5380177	345	47940										
C21orf29	54084	broad.mit.edu	37	chr21	45945684	45945684	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	atgacagagaactcctgaccCttctcatctggttcaaaatt	6	11	3	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr21:45945684C>A	uc002zfe.1	-	8	1254	c.1188G>T	c.(1186-1188)AAG>AAT	p.K396N	C21orf29_uc010gpv.1_Missense_Mutation_p.K328N	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	396	EAR 2.				cell adhesion	extracellular region	structural molecule activity				0						ACTCCTGACCCTTCTCATCTG	0.527													68	218	---	---	---	---	PASS	A	45945684	A	A	45945684	3	1	133	1	0	0	0	0	1	0	0	0	2124	680	24	3	841	3	C21orf29	21	45945684	Missense_Mutation	SNP	C	TCGA-60-2724-01A-01D-1522-08	3195966	45945684	2184211	346	47941										
ARVCF	421	broad.mit.edu	37	chr22	19968948	19968948	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttcccggtggccaggcagtgTgaagcagccatcaccagggc	14	13	1	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr22:19968948T>G	uc002zqz.2	-	5	953	c.682A>C	c.(682-684)ACA>CCA	p.T228P	ARVCF_uc002zqy.2_5'Flank|ARVCF_uc002zra.2_Missense_Mutation_p.T228P	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	228					cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					CCAGGCAGTGTGAAGCAGCCA	0.721													5	6	---	---	---	---	PASS	G	19968948	G	G	19968948	3	3	133	1	0	0	0	0	1	0	0	0	1003	1696	59	5	2266	5	ARVCF	22	19968948	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08		19968948	31335618	347	47942										
CSF2RB	1439	broad.mit.edu	37	chr22	37333595	37333595	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cgcctcccacacacctgagaAacaggcttccagctttgact	7	16	0	2			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chr22:37333595A>T	uc003aqa.3	+	14	1962	c.1745A>T	c.(1744-1746)AAA>ATA	p.K582I	CSF2RB_uc003aqc.3_Missense_Mutation_p.K588I	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	582	Cytoplasmic (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	ACACCTGAGAAACAGGCTTCC	0.677													6	18	---	---	---	---	PASS	T	37333595	T	T	37333595	3	4	133	1	0	0	0	0	1	0	0	0	3935	14	1	5	1795	5	CSF2RB	22	37333595	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	17364647	37333595	13970971	348	47943										
MAGEB6	158809	broad.mit.edu	37	chrX	26212770	26212770	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	acccttgtcagcaagctaggCctccccagtgaaggaattct	9	13	2	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chrX:26212770C>T	uc004dbr.2	+	2	956	c.807C>T	c.(805-807)GGC>GGT	p.G269G	MAGEB6_uc010ngc.1_Silent_p.G49G	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	269	MAGE.									ovary(3)	3						GCAAGCTAGGCCTCCCCAGTG	0.527													52	61	---	---	---	---	PASS	T	26212770	T	T	26212770	2	4	133	1	0	0	0	0	0	0	0	1	9179	726	26	3		3	MAGEB6	23	26212770	Silent	SNP	C	TCGA-60-2724-01A-01D-1522-08		26212770	129057790	349	47944										
KDM6A	7403	broad.mit.edu	37	chrX	44937643	44937643	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	accacatattttaattttacAgttggaaaataaacgtgatg	6	5	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chrX:44937643A>G	uc004dge.3	+	19	3208	c.2833_splice	c.e19-2	p.L945_splice	KDM6A_uc010nhk.2_Splice_Site_p.L911_splice|KDM6A_uc011mkz.1_Splice_Site_p.L997_splice|KDM6A_uc011mla.1_Splice_Site_p.L900_splice|KDM6A_uc011mlb.1_Splice_Site_p.L952_splice|KDM6A_uc011mlc.1_Splice_Site_p.L649_splice|KDM6A_uc011mld.1_Splice_Site_p.L584_splice	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide						histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						TTAATTTTACAGTTGGAAAAT	0.308			D|N|F|S		renal|oesophageal SCC|MM								33	29	---	---	---	---	PASS	G	44937643	G	G	44937643	5	3	133	1	0	0	0	0	0	0	1	0	8137	202	7	5	2905	5	KDM6A	23	44937643	Splice_Site	SNP	A	TCGA-60-2724-01A-01D-1522-08	18724873	44937643	110332917	350	47945										
KDM5C	8242	broad.mit.edu	37	chrX	53230856	53230856	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	cagccatcttgcagataagcTcctcatgggagaagacgcag	11	11	2	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chrX:53230856T>A	uc004drz.2	-	14	2470	c.1937A>T	c.(1936-1938)GAG>GTG	p.E646V	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.E579V|KDM5C_uc004dsa.2_Missense_Mutation_p.E645V	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	646					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding	p.E645_E646>D*(1)		kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						GCAGATAAGCTCCTCATGGGA	0.582			N|F|S		clear cell renal carcinoma								16	20	---	---	---	---	PASS	A	53230856	A	A	53230856	3	1	133	1	0	0	0	0	1	0	0	0	8135	1551	54	5	2895	5	KDM5C	23	53230856	Missense_Mutation	SNP	T	TCGA-60-2724-01A-01D-1522-08	8293213	53230856	102039704	351	47946										
TBX22	50945	broad.mit.edu	37	chrX	79286183	79286183	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ctacaagatttgtccaactaAtttttggcaacagcaacctc	5	11	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chrX:79286183A>G	uc010nmg.1	+	9	1270	c.1136A>G	c.(1135-1137)AAT>AGT	p.N379S	TBX22_uc004edi.1_Missense_Mutation_p.N259S|TBX22_uc004edj.1_Missense_Mutation_p.N379S	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	379					multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						TGTCCAACTAATTTTTGGCAA	0.468													57	90	---	---	---	---	PASS	G	79286183	G	G	79286183	3	3	133	1	0	0	0	0	1	0	0	0	15655	101	4	5	1166	5	TBX22	23	79286183	Missense_Mutation	SNP	A	TCGA-60-2724-01A-01D-1522-08	26055327	79286183	75984377	352	47947										
ALG13	79868	broad.mit.edu	37	chrX	110967050	110967052	+	In_Frame_Del	DEL	TAT	-	-													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	gcttggaatcagaaggaagaTattataatgctcatatccag							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chrX:110967050_110967052delTAT	uc011msy.1	+	14	1559_1561	c.1525_1527delTAT	c.(1525-1527)TATdel	p.Y510del	ALG13_uc011msx.1_In_Frame_Del_p.Y406del|ALG13_uc011msz.1_In_Frame_Del_p.Y432del|ALG13_uc011mta.1_In_Frame_Del_p.Y406del|ALG13_uc011mtb.1_In_Frame_Del_p.Y406del			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	510	Tudor.				dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						AGAAGGAAGATATTATAATGCTC	0.35													6	4	---	---	---	---		-	110967052	-	-	110967050	7	5	133	1	0	1	0	1	0	0	0	0	515	1406	49	0	1721	0	ALG13	23	110967050	In_Frame_Del	DEL	TAT	TCGA-60-2724-01A-01D-1522-08	31680867	110967050	44303510	353	47948										
MAGEA6	4105	broad.mit.edu	37	chrX	151869721	151869721	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	acaaaggcagaaatgctgggGagtgtcgtcggaaattggca	15	6	0	1			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chrX:151869721G>T	uc004ffq.1	+	3	605	c.411G>T	c.(409-411)GGG>GGT	p.G137G	MAGEA6_uc004ffr.1_Silent_p.G137G|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	137	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					AAATGCTGGGGAGTGTCGTCG	0.517													22	116	---	---	---	---	PASS	T	151869721	T	T	151869721	2	4	133	1	0	0	0	0	0	0	0	1	9170	1161	41	2		2	MAGEA6	23	151869721	Silent	SNP	G	TCGA-60-2724-01A-01D-1522-08	40902671	151869721	3400839	354	47949										
FLNA	2316	broad.mit.edu	37	chrX	153592424	153592425	+	Frame_Shift_Ins	INS	-	A	A													0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ggggatgctgacgcctccccINSaggacaccatggctgtgtgc							TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chrX:153592424_153592425insA	uc004fkk.2	-	15	2494_2495	c.2245_2246insT	c.(2245-2247)TGGfs	p.W749fs	FLNA_uc010nuu.1_Frame_Shift_Ins_p.W749fs	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	749	Filamin 5.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GACGCCTCCCCAGGACACCATG	0.594													88	60	---	---	---	---		A	153592425	A	A	153592424	7	5	133	1	0	1	1	0	0	0	0	0	5933	595	21	0	5833	0	FLNA	23	153592424	Frame_Shift_Ins	INS	-	TCGA-60-2724-01A-01D-1522-08	1722703	153592424	1678136	355	47950										
TSPY1	7258	broad.mit.edu	37	chrY	9305917	9305917	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0571428571428571	20	0.461107569284005	1.08041117970865	1.90526356114006	0.537470371677846	0.0576766630978577	0.309356647524873	0	ttgtcctgacaggtgggagaAgagaagcatcctgttcatct	12	8	2	3			TCGA-60-2724-01A-01D-1522-08	TCGA-60-2724-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	387c6519-6529-4074-a5ab-00f8052a5732	e54d3ecf-0e9e-4718-9038-3c5b78b0fd8c	g.chrY:9305917A>G	uc004frw.3	+	3	619	c.573A>G	c.(571-573)GAA>GAG	p.E191E	TSPY1_uc004frx.3_Silent_p.E191E|TSPY1_uc010nwp.1_Intron	NM_003308	NP_003299	Q01534	TSPY1_HUMAN	testis specific protein, Y-linked 1	191					cell differentiation|cell proliferation|gonadal mesoderm development|nucleosome assembly|spermatogenesis	cytoplasm|nucleus	identical protein binding				0						AGGTGGGAGAAGAGAAGCATC	0.448													62	531	---	---	---	---	PASS	G	9305917	G	G	9305917	2	3	133	1	0	0	0	0	0	0	0	1	16654	69	3	5		5	TSPY1	24	9305917	Silent	SNP	A	TCGA-60-2724-01A-01D-1522-08		9305917	50067649	356	47951										
SPATA21	374955	broad.mit.edu	37	chr1	16736256	16736256	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tggcccaggagctggcagccGggcccacgatgggccgctgg	18	14	0	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:16736256G>A	uc001ayn.2	-	6	910	c.427C>T	c.(427-429)CGG>TGG	p.R143W	SPATA21_uc001ayl.1_RNA|SPATA21_uc010occ.1_Missense_Mutation_p.R120W	NM_198546	NP_940948	Q7Z572	SPT21_HUMAN	spermatogenesis associated 21	143	Pro-rich.						calcium ion binding			ovary(2)|breast(1)	3		Colorectal(325;0.000147)|Renal(390;0.00145)|Lung NSC(340;0.00215)|Breast(348;0.00224)|all_lung(284;0.00351)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(227;1.15e-05)|BRCA - Breast invasive adenocarcinoma(304;4.2e-05)|Kidney(64;0.000183)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.0122)|READ - Rectum adenocarcinoma(331;0.0651)		GCTGGCAGCCGGGCCCACGAT	0.726													5	12	---	---	---	---	PASS	A	16736256	A	A	16736256	3	1	134	1	0	0	0	0	1	0	0	0	15006	1115	39	1	1014	1	SPATA21	1	16736256	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08		16736256	232514365	1	47952										
YTHDF2	51441	broad.mit.edu	37	chr1	29095445	29095445	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tttcttacctctgtaggaacGtcaaggtcgtgggaaataaa	10	7	3	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:29095445G>C	uc001brc.2	+	5	2218	c.1721G>C	c.(1720-1722)CGT>CCT	p.R574P	YTHDF2_uc001brd.2_Missense_Mutation_p.R571P|YTHDF2_uc010ofx.1_Missense_Mutation_p.R524P|YTHDF2_uc001bre.2_Missense_Mutation_p.R524P	NM_016258	NP_057342	Q9Y5A9	YTHD2_HUMAN	high glucose-regulated protein 8	574					humoral immune response					ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000601)|all_lung(284;0.000771)|Breast(348;0.00502)|Renal(390;0.00758)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;5.46e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0221)|KIRC - Kidney renal clear cell carcinoma(1967;0.0296)|READ - Rectum adenocarcinoma(331;0.0649)		CTGTAGGAACGTCAAGGTCGT	0.343													15	75	---	---	---	---	PASS	C	29095445	C	C	29095445	3	2	134	1	0	0	0	0	1	0	0	0	17496	1145	40	4	1739	4	YTHDF2	1	29095445	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	12359189	29095445	220155176	2	47953										
ADC	113451	broad.mit.edu	37	chr1	33585663	33585663	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agggaagcgctgcgaaggcaGctgatggctgcagaacagga	17	8	0	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:33585663G>T	uc001bwr.2	+	12	1850	c.1263G>T	c.(1261-1263)CAG>CAT	p.Q421H	ADC_uc001bws.2_Missense_Mutation_p.Q421H|ADC_uc009vue.2_Missense_Mutation_p.Q421H|ADC_uc001bwt.1_3'UTR|ADC_uc001bwu.2_Missense_Mutation_p.Q326H|ADC_uc001bwv.2_Missense_Mutation_p.Q326H|ADC_uc001bww.2_Missense_Mutation_p.Q326H|ADC_uc001bwx.1_3'UTR|ADC_uc009vug.2_Missense_Mutation_p.Q441H	NM_052998	NP_443724	Q96A70	ADC_HUMAN	ODC antizyme inhibitor-2	421					polyamine biosynthetic process|spermatogenesis	cytosol	arginine decarboxylase activity			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)			L-Arginine(DB00125)|Pyridoxal Phosphate(DB00114)	TGCGAAGGCAGCTGATGGCTG	0.632													4	51	---	---	---	---	PASS	T	33585663	T	T	33585663	3	4	134	1	0	0	0	0	1	0	0	0	287	962	34	3	1297	3	ADC	1	33585663	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	4490218	33585663	215664958	3	47954										
DPH2	1802	broad.mit.edu	37	chr1	44437508	44437508	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	acctgactcaggctgctggcAagcgtagctatgtgttggcc	13	11	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:44437508A>C	uc001ckz.2	+	4	1129	c.934A>C	c.(934-936)AAG>CAG	p.K312Q	DPH2_uc001cla.2_Intron|DPH2_uc010okk.1_Missense_Mutation_p.K177Q|DPH2_uc001clb.2_Missense_Mutation_p.K236Q	NM_001384	NP_001375	Q9BQC3	DPH2_HUMAN	diphthamide biosynthesis protein 2 isoform a	312					peptidyl-diphthamide biosynthetic process from peptidyl-histidine	cytoplasm				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				GGCTGCTGGCAAGCGTAGCTA	0.627													8	73	---	---	---	---	PASS	C	44437508	C	C	44437508	3	2	134	1	0	0	0	0	1	0	0	0	4720	131	5	5	948	5	DPH2	1	44437508	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	10851845	44437508	204813113	4	47955										
ABCA4	24	broad.mit.edu	37	chr1	94526284	94526284	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ccatgccagcaccatgaagaTagggaaacagcggttcagga	12	10	1	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:94526284T>C	uc001dqh.2	-	14	2073	c.1969A>G	c.(1969-1971)ATC>GTC	p.I657V	ABCA4_uc010otn.1_Missense_Mutation_p.I657V	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	657	Helical; (Potential).				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		ACCATGAAGATAGGGAAACAG	0.363													9	43	---	---	---	---	PASS	C	94526284	C	C	94526284	3	2	134	1	0	0	0	0	1	0	0	0	34	1406	49	5	5000	5	ABCA4	1	94526284	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	50088776	94526284	154724337	5	47956										
DPYD	1806	broad.mit.edu	37	chr1	98058805	98058805	+	Missense_Mutation	SNP	C	A	A													0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cagctcttatattaacaaagCcttttctgaagacgatgaac							TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:98058805C>A	uc001drv.2	-	10	1234	c.1097G>T	c.(1096-1098)GGC>GTC	p.G366V		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	366					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	ATTAACAAAGCCTTTTCTGAA	0.438													45	261	---	---	---	---	PASS	A	98058805	A	A	98058805	3	1	134	1	0	0	0	0	1	0	0	0	4745	739	26	3	2036	3	DPYD	1	98058805	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	3532521	98058805	151191816	6	47957	881	2								
DPYD	1806	broad.mit.edu	37	chr1	98058806	98058806	+	Missense_Mutation	SNP	C	T	T													0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agctcttatattaacaaagcCttttctgaagacgatgaaca							TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:98058806C>T	uc001drv.2	-	10	1233	c.1096G>A	c.(1096-1098)GGC>AGC	p.G366S		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	366					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	TTAACAAAGCCTTTTCTGAAG	0.443													42	263	---	---	---	---	PASS	T	98058806	T	T	98058806	3	4	134	1	0	0	0	0	1	0	0	0	4745	681	24	3	2037	3	DPYD	1	98058806	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	1	98058806	151191815	7	47958	881	2								
COL11A1	1301	broad.mit.edu	37	chr1	103491775	103491775	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cactgctttgtttttacctcCgtctgtgctattgtctcctc	6	13	2	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:103491775C>T	uc001dul.2	-	6	1212	c.894G>A	c.(892-894)ACG>ACA	p.T298T	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Intron|COL11A1_uc001dun.2_Intron|COL11A1_uc009weh.2_Silent_p.T298T	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	298	Nonhelical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TTTTTACCTCCGTCTGTGCTA	0.433													5	96	---	---	---	---	PASS	T	103491775	T	T	103491775	2	4	134	1	0	0	0	0	0	0	0	1	3667	639	23	1		1	COL11A1	1	103491775	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	5432969	103491775	145758846	8	47959										
SLC16A1	6566	broad.mit.edu	37	chr1	113460645	113460645	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tcatggtcagagctggattcAagttgaaggcaagcccaaga	12	8	3	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:113460645A>C	uc001ecx.2	-	4	1215	c.383T>G	c.(382-384)TTG>TGG	p.L128W	SLC16A1_uc001ecy.2_Missense_Mutation_p.L128W|SLC16A1_uc001ecz.2_Missense_Mutation_p.L128W	NM_003051	NP_003042	P53985	MOT1_HUMAN	solute carrier family 16, member 1	128	Helical; (Potential).				blood coagulation|leukocyte migration|organic anion transport|pyruvate metabolic process	integral to membrane|membrane fraction|plasma membrane	mevalonate transmembrane transporter activity|protein binding|secondary active monocarboxylate transmembrane transporter activity|symporter activity			central_nervous_system(1)	1	Lung SC(450;0.246)	all_cancers(81;7.6e-08)|all_epithelial(167;3.82e-07)|all_lung(203;3.07e-05)|Lung NSC(69;5.51e-05)|Prostate(1639;0.00232)		Epithelial(280;7.31e-13)|all cancers(265;5.1e-10)|Kidney(133;5.29e-07)|KIRC - Kidney renal clear cell carcinoma(1967;8.63e-06)|OV - Ovarian serous cystadenocarcinoma(397;1.48e-05)|BRCA - Breast invasive adenocarcinoma(282;0.003)|LUSC - Lung squamous cell carcinoma(189;0.008)|Lung(183;0.00948)|Colorectal(144;0.0325)|COAD - Colon adenocarcinoma(174;0.0643)	Pyruvic acid(DB00119)	AGCTGGATTCAAGTTGAAGGC	0.373													15	51	---	---	---	---	PASS	C	113460645	C	C	113460645	3	2	134	1	0	0	0	0	1	0	0	0	14402	131	5	5	1127	5	SLC16A1	1	113460645	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	9968870	113460645	135789976	9	47960										
PHTF1	10745	broad.mit.edu	37	chr1	114253056	114253056	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tctgagtctcttcttgacatGttgaggcttcgagagccacc	10	11	3	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:114253056G>T	uc009wgp.1	-	10	1541	c.1089C>A	c.(1087-1089)AAC>AAA	p.N363K	PHTF1_uc001edn.2_Missense_Mutation_p.N363K|PHTF1_uc001edm.2_Missense_Mutation_p.N120K|PHTF1_uc001edo.1_Missense_Mutation_p.N120K	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	363						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTCTTGACATGTTGAGGCTTC	0.453													5	44	---	---	---	---	PASS	T	114253056	T	T	114253056	3	4	134	1	0	0	0	0	1	0	0	0	11862	1368	48	3	1235	3	PHTF1	1	114253056	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	792411	114253056	134997565	10	47961										
CHD1L	9557	broad.mit.edu	37	chr1	146739123	146739123	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cggcaaagaaagttaaactaCagaacattttgtcccagctt	7	9	0	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:146739123C>T	uc001epm.3	+	9	997	c.934C>T	c.(934-936)CAG>TAG	p.Q312*	uc001epp.2_Intron|CHD1L_uc001epn.3_Nonsense_Mutation_p.Q199*|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Nonsense_Mutation_p.Q312*|CHD1L_uc010ozp.1_Nonsense_Mutation_p.Q31*|CHD1L_uc001epo.3_Nonsense_Mutation_p.Q108*|CHD1L_uc010ozq.1_5'UTR|CHD1L_uc009wji.2_Nonsense_Mutation_p.Q31*	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	312					chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)					AGTTAAACTACAGAACATTTT	0.378													18	77	---	---	---	---	PASS	T	146739123	T	T	146739123	4	4	134	1	0	0	0	0	0	1	0	0	3324	479	17	3	968	3	CHD1L	1	146739123	Nonsense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	32486067	146739123	102511498	11	47962										
SETDB1	9869	broad.mit.edu	37	chr1	150916462	150916462	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tcggaactgtatcccatttgCcggccacgtgagtgtttctc	10	12	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:150916462C>T	uc001evu.2	+	8	1132	c.942C>T	c.(940-942)TGC>TGT	p.C314C	SETDB1_uc009wmf.2_Silent_p.C314C|SETDB1_uc001evv.2_Silent_p.C314C|SETDB1_uc001evw.3_Silent_p.C314C|SETDB1_uc009wmg.1_Silent_p.C314C	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	314	Tudor 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			ATCCCATTTGCCGGCCACGTG	0.428													4	293	---	---	---	---	PASS	T	150916462	T	T	150916462	2	4	134	1	0	0	0	0	0	0	0	1	14138	747	26	3		3	SETDB1	1	150916462	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	4177339	150916462	98334159	12	47963										
FLG	2312	broad.mit.edu	37	chr1	152275778	152275778	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtcactgtcctggctaacacTggatccctggcgcctgcttc	10	15	1	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:152275778T>G	uc001ezu.1	-	3	11620	c.11584A>C	c.(11584-11586)AGT>CGT	p.S3862R		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3862	Filaggrin 23.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGGCTAACACTGGATCCCTGG	0.577									Ichthyosis				10	409	---	---	---	---	PASS	G	152275778	G	G	152275778	3	3	134	1	0	0	0	0	1	0	0	0	5922	1580	55	5	605	5	FLG	1	152275778	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	1359316	152275778	96974843	13	47964										
UBE2Q1	55585	broad.mit.edu	37	chr1	154523919	154523919	+	Missense_Mutation	SNP	G	C	C													0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctttccccttcaccagtgtgGcactgatctgcatgatcact							TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:154523919G>C	uc001fff.1	-	11	1215	c.1124C>G	c.(1123-1125)GCC>GGC	p.A375G		NM_017582	NP_060052	Q7Z7E8	UB2Q1_HUMAN	ubiquitin-conjugating enzyme E2Q	375							ATP binding|protein binding|ubiquitin-protein ligase activity				0	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			CACCAGTGTGGCACTGATCTG	0.567													44	220	---	---	---	---	PASS	C	154523919	C	C	154523919	3	2	134	1	0	0	0	0	1	0	0	0	16866	1203	42	4	156	4	UBE2Q1	1	154523919	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	2248141	154523919	94726702	14	47965	882	2								
UBE2Q1	55585	broad.mit.edu	37	chr1	154523920	154523920	+	Missense_Mutation	SNP	C	A	A													0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tttccccttcaccagtgtggCactgatctgcatgatcactg							TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:154523920C>A	uc001fff.1	-	11	1214	c.1123G>T	c.(1123-1125)GCC>TCC	p.A375S		NM_017582	NP_060052	Q7Z7E8	UB2Q1_HUMAN	ubiquitin-conjugating enzyme E2Q	375							ATP binding|protein binding|ubiquitin-protein ligase activity				0	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			ACCAGTGTGGCACTGATCTGC	0.562													47	222	---	---	---	---	PASS	A	154523920	A	A	154523920	3	1	134	1	0	0	0	0	1	0	0	0	16866	710	25	3	157	3	UBE2Q1	1	154523920	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	1	154523920	94726701	15	47966	882	2								
FAM189B	10712	broad.mit.edu	37	chr1	155223486	155223486	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agagtgtacagattatagcgGcacaaatggtgagcccacag	12	8	0	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:155223486G>A	uc001fjm.2	-	5	1157	c.551C>T	c.(550-552)GCC>GTC	p.A184V	RAG1AP1_uc010pey.1_Intron|FAM189B_uc009wql.2_5'Flank|FAM189B_uc001fjn.2_Missense_Mutation_p.A88V|FAM189B_uc001fjo.2_Missense_Mutation_p.A165V|FAM189B_uc001fjp.2_RNA|FAM189B_uc001fjq.1_Missense_Mutation_p.A184V	NM_006589	NP_006580	P81408	F189B_HUMAN	hypothetical protein LOC10712 isoform a	184	Helical; (Potential).					integral to membrane	WW domain binding			ovary(1)|breast(1)	2						GATTATAGCGGCACAAATGGT	0.552													4	163	---	---	---	---	PASS	A	155223486	A	A	155223486	3	1	134	1	0	0	0	0	1	0	0	0	5517	1203	42	3	1487	3	FAM189B	1	155223486	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	699566	155223486	94027135	16	47967										
SLAMF1	6504	broad.mit.edu	37	chr1	160593937	160593937	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gatgagaatcatgatgacacCccctaacagcccagcataca	7	13	1	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:160593937C>T	uc001fwl.3	-	4	1085	c.739G>A	c.(739-741)GGT>AGT	p.G247S	SLAMF1_uc010pjk.1_RNA|SLAMF1_uc010pjl.1_RNA|SLAMF1_uc010pjm.1_Intron	NM_003037	NP_003028	Q13291	SLAF1_HUMAN	signaling lymphocytic activation molecule family	247	Helical; (Potential).|Ig-like V-type.				interspecies interaction between organisms|lymphocyte activation|positive regulation of cell proliferation	integral to membrane	antigen binding|transmembrane receptor activity			ovary(1)|breast(1)	2	all_cancers(52;4.94e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			ATGATGACACCCCCTAACAGC	0.393													56	316	---	---	---	---	PASS	T	160593937	T	T	160593937	3	4	134	1	0	0	0	0	1	0	0	0	14367	623	22	3	284	3	SLAMF1	1	160593937	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	5370451	160593937	88656684	17	47968										
C1orf112	55732	broad.mit.edu	37	chr1	169801603	169801603	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	atcaactcatcaacctatcaAtactgttgaagcgtctcttt	4	11	5	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:169801603A>G	uc001ggp.2	+	17	1805	c.1495A>G	c.(1495-1497)ATA>GTA	p.I499V	C1orf112_uc001ggj.2_RNA|C1orf112_uc001ggq.2_Missense_Mutation_p.I499V|C1orf112_uc009wvt.2_Missense_Mutation_p.I176V|C1orf112_uc009wvu.1_Missense_Mutation_p.I375V|C1orf112_uc001ggr.2_Missense_Mutation_p.I364V|C1orf112_uc010plv.1_Missense_Mutation_p.I441V	NM_018186	NP_060656	Q9NSG2	CA112_HUMAN	hypothetical protein LOC55732	499											0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CAACCTATCAATACTGTTGAA	0.413													13	249	---	---	---	---	PASS	G	169801603	G	G	169801603	3	3	134	1	0	0	0	0	1	0	0	0	1985	101	4	5	1549	5	C1orf112	1	169801603	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	9207666	169801603	79449018	18	47969										
ABL2	27	broad.mit.edu	37	chr1	179077770	179077770	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cactccagccactcccacccCtggagggtccttctctgtaa	7	18	1	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:179077770C>A	uc001gmj.3	-	12	2919	c.2632G>T	c.(2632-2634)GGG>TGG	p.G878W	ABL2_uc010pnf.1_Missense_Mutation_p.G775W|ABL2_uc010png.1_Missense_Mutation_p.G754W|ABL2_uc010pnh.1_Missense_Mutation_p.G857W|ABL2_uc001gmg.3_Missense_Mutation_p.G760W|ABL2_uc001gmi.3_Missense_Mutation_p.G863W|ABL2_uc001gmh.3_Missense_Mutation_p.G842W|ABL2_uc010pne.1_Missense_Mutation_p.G739W	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	878	F-actin-binding (By similarity).|Pro-rich.				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	ACTCCCACCCCTGGAGGGTCC	0.582			T	ETV6	AML								27	110	---	---	---	---	PASS	A	179077770	A	A	179077770	3	1	134	1	0	0	0	0	1	0	0	0	93	681	24	3	920	3	ABL2	1	179077770	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	9276167	179077770	70172851	19	47970										
ZNF648	127665	broad.mit.edu	37	chr1	182026247	182026247	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agggccgctcgcccgtgtgcAggcgcctgtgctgctggagt	17	13	0	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:182026247A>G	uc001goz.2	-	2	1107	c.899T>C	c.(898-900)CTG>CCG	p.L300P		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	300	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GCCCGTGTGCAGGCGCCTGTG	0.697													3	49	---	---	---	---	PASS	G	182026247	G	G	182026247	3	3	134	1	0	0	0	0	1	0	0	0	18060	188	7	5	811	5	ZNF648	1	182026247	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	2948477	182026247	67224374	20	47971										
DSTYK	25778	broad.mit.edu	37	chr1	205117394	205117394	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctctcaaatgcctcagggagCttgacagagcctgagcagat	11	11	2	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:205117394C>A	uc001hbw.2	-	12	2605	c.2541G>T	c.(2539-2541)AAG>AAT	p.K847N	DSTYK_uc001hbx.2_Intron	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	847	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						CCTCAGGGAGCTTGACAGAGC	0.478													22	151	---	---	---	---	PASS	A	205117394	A	A	205117394	3	1	134	1	0	0	0	0	1	0	0	0	4785	796	28	3	256	3	DSTYK	1	205117394	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	23091147	205117394	44133227	21	47972										
C1orf74	148304	broad.mit.edu	37	chr1	209956791	209956791	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agatagctctggagctctgaTgcccctgcacagttgcaatc	10	12	2	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:209956791T>C	uc001hhp.1	-	2	432	c.189A>G	c.(187-189)GCA>GCG	p.A63A		NM_152485	NP_689698	Q96LT6	CA074_HUMAN	hypothetical protein LOC148304	63										skin(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0328)		GGAGCTCTGATGCCCCTGCAC	0.552													25	95	---	---	---	---	PASS	C	209956791	C	C	209956791	2	2	134	1	0	0	0	0	0	0	0	1	2058	1451	51	5		5	C1orf74	1	209956791	Silent	SNP	T	TCGA-60-2725-01A-01D-1267-08	4839397	209956791	39293830	22	47973										
USH2A	7399	broad.mit.edu	37	chr1	215972468	215972468	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	atctggacagcatacttcacCtgtcaatttaggacaataat	6	9	3	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:215972468C>A	uc001hku.1	-	50	10127	c.9740_splice	c.e50-1	p.G3247_splice		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B						maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CATACTTCACCTGTCAATTTA	0.388										HNSCC(13;0.011)			8	34	---	---	---	---	PASS	A	215972468	A	A	215972468	5	1	134	1	0	0	0	0	0	0	1	0	17033	695	24	3	5961	3	USH2A	1	215972468	Splice_Site	SNP	C	TCGA-60-2725-01A-01D-1267-08	6015677	215972468	33278153	23	47974										
NUP133	55746	broad.mit.edu	37	chr1	229600521	229600521	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ggctaccagctgctcggtcaCgatgtttcggaggttgctgt	14	10	1	0	rs139160684		TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:229600521C>A	uc001htn.2	-	18	2493	c.2401G>T	c.(2401-2403)GTG>TTG	p.V801L		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	801					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				TGCTCGGTCACGATGTTTCGG	0.483													17	92	---	---	---	---	PASS	A	229600521	A	A	229600521	3	1	134	1	0	0	0	0	1	0	0	0	10754	536	19	1	1105	1	NUP133	1	229600521	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	13628053	229600521	19650100	24	47975										
OR1C1	26188	broad.mit.edu	37	chr1	247921246	247921246	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gacagtatgcaggagggcgtGgaggtaagtaacaagccaca	15	7	0	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr1:247921246G>T	uc010pza.1	-	1	463	c.463C>A	c.(463-465)CAC>AAC	p.H155N		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			AGGAGGGCGTGGAGGTAAGTA	0.498													4	41	---	---	---	---	PASS	T	247921246	T	T	247921246	3	4	134	1	0	0	0	0	1	0	0	0	10952	1348	47	3	483	3	OR1C1	1	247921246	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	18320725	247921246	1329375	25	47976										
NCOA1	8648	broad.mit.edu	37	chr2	24985567	24985567	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctttaatagataaatgatccCgcactgagacacacaggcct	7	11	0	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:24985567C>G	uc002rfk.2	+	20	4335	c.4077C>G	c.(4075-4077)CCC>CCG	p.P1359P	NCOA1_uc010eye.2_Silent_p.P1359P|NCOA1_uc002rfi.2_Silent_p.P1208P|NCOA1_uc002rfj.2_Silent_p.P1359P|NCOA1_uc002rfl.2_Silent_p.P1359P|NCOA1_uc010eyf.2_Intron	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	1359									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TAAATGATCCCGCACTGAGAC	0.393			T	PAX3	alveolar rhadomyosarcoma								18	530	---	---	---	---	PASS	G	24985567	G	G	24985567	2	3	134	1	0	0	0	0	0	0	0	1	10228	639	23	4		4	NCOA1	2	24985567	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08		24985567	218213806	26	47977										
OTOF	9381	broad.mit.edu	37	chr2	26689649	26689649	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ggatgccctggaacatgccgTaggtggagtcgtagccggct	16	10	0	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:26689649T>C	uc002rhk.2	-	36	4560	c.4433A>G	c.(4432-4434)TAC>TGC	p.Y1478C	OTOF_uc010yla.1_Missense_Mutation_p.Y208C|OTOF_uc002rhh.2_Missense_Mutation_p.Y711C|OTOF_uc002rhi.2_Missense_Mutation_p.Y788C|OTOF_uc002rhj.2_Missense_Mutation_p.Y711C	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1478	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAACATGCCGTAGGTGGAGTC	0.597													17	142	---	---	---	---	PASS	C	26689649	C	C	26689649	3	2	134	1	0	0	0	0	1	0	0	0	11303	1638	57	5	1789	5	OTOF	2	26689649	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	1704082	26689649	216509724	27	47978										
PREB	10113	broad.mit.edu	37	chr2	27356432	27356432	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ccttgttgccctgctgttgaTgtgcctggaagcgcaggagc	14	11	0	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:27356432T>C	uc002rix.1	-	2	546	c.293A>G	c.(292-294)CAT>CGT	p.H98R	PREB_uc002riy.1_Missense_Mutation_p.H26R|PREB_uc002riz.1_RNA|PREB_uc002rja.1_Missense_Mutation_p.H98R	NM_013388	NP_037520	Q9HCU5	PREB_HUMAN	prolactin regulatory element binding protein	98	Cytoplasmic (Potential).				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|nucleus	DNA binding|guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGCTGTTGATGTGCCTGGAA	0.582													10	58	---	---	---	---	PASS	C	27356432	C	C	27356432	3	2	134	1	0	0	0	0	1	0	0	0	12470	1464	51	5	992	5	PREB	2	27356432	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	666783	27356432	215842941	28	47979										
C2orf71	388939	broad.mit.edu	37	chr2	29287800	29287800	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtcctggatgtggccggtccGaggctccggttgcagcccgt	16	13	0	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:29287800G>T	uc002rmt.1	-	2	3802	c.3802C>A	c.(3802-3804)CGG>AGG	p.R1268R		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	1268					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						TGGCCGGTCCGAGGCTCCGGT	0.682													8	28	---	---	---	---	PASS	T	29287800	T	T	29287800	2	4	134	1	0	0	0	0	0	0	0	1	2191	1057	37	2		2	C2orf71	2	29287800	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	1931368	29287800	213911573	29	47980										
QPCT	25797	broad.mit.edu	37	chr2	37586830	37586830	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tctttctcaaatatcatcagCaccctcaatcccactgctaa	2	15	5	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:37586830C>T	uc002rqg.2	+	3	497	c.375C>T	c.(373-375)AGC>AGT	p.S125S	QPCT_uc002rqh.2_Silent_p.S76S	NM_012413	NP_036545	Q16769	QPCT_HUMAN	glutaminyl-peptide cyclotransferase precursor	125					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	extracellular region	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|zinc ion binding			central_nervous_system(1)	1		Ovarian(717;0.051)|all_hematologic(82;0.21)				ATATCATCAGCACCCTCAATC	0.488													23	95	---	---	---	---	PASS	T	37586830	T	T	37586830	2	4	134	1	0	0	0	0	0	0	0	1	12874	709	25	3		3	QPCT	2	37586830	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	8299030	37586830	205612543	30	47981										
ABCG8	64241	broad.mit.edu	37	chr2	44078862	44078862	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtggcccacgtgcgccagcaCaaccagctgctccccaactt	9	18	0	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:44078862C>A	uc002rtq.2	+	4	552	c.462C>A	c.(460-462)CAC>CAA	p.H154Q	ABCG8_uc010yoa.1_Missense_Mutation_p.H154Q	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	154	ABC transporter.|Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TGCGCCAGCACAACCAGCTGC	0.617													25	162	---	---	---	---	PASS	A	44078862	A	A	44078862	3	1	134	1	0	0	0	0	1	0	0	0	72	477	17	3	476	3	ABCG8	2	44078862	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	6492032	44078862	199120511	31	47982										
C2orf78	388960	broad.mit.edu	37	chr2	74041313	74041313	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tctacttctgggatgtattaCtctgtgtcttctcaacccat	6	11	5	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:74041313C>A	uc002sjr.1	+	2	928	c.807C>A	c.(805-807)TAC>TAA	p.Y269*		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	269										ovary(2)	2						GGATGTATTACTCTGTGTCTT	0.453													32	210	---	---	---	---	PASS	A	74041313	A	A	74041313	4	1	134	1	0	0	0	0	0	1	0	0	2195	576	20	3	813	3	C2orf78	2	74041313	Nonsense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	29962451	74041313	169158060	32	47983										
C2orf89	129293	broad.mit.edu	37	chr2	85097839	85097839	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	aaactcgggtgtacgggacaTggattgtgccaaagaagtaa	13	6	0	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:85097839T>C	uc010ysl.1	-	2	268	c.179A>G	c.(178-180)CAT>CGT	p.H60R	C2orf89_uc002sou.3_Missense_Mutation_p.H60R|C2orf89_uc010fgc.1_Missense_Mutation_p.H60R	NM_001080824	NP_001074293	Q86V40	CB089_HUMAN	hypothetical protein LOC129293 precursor	60	Extracellular (Potential).					integral to membrane				ovary(1)	1						GTACGGGACATGGATTGTGCC	0.478													4	22	---	---	---	---	PASS	C	85097839	C	C	85097839	3	2	134	1	0	0	0	0	1	0	0	0	2203	1464	51	5	1211	5	C2orf89	2	85097839	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	11056526	85097839	158101534	33	47984										
IL1RL1	9173	broad.mit.edu	37	chr2	102968090	102968090	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cacaataaggagtttgcctaCgagcaggaggttgccctgca	12	10	0	0	rs112596146		TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:102968090C>T	uc002tbu.1	+	11	1651	c.1380C>T	c.(1378-1380)TAC>TAT	p.Y460Y	IL18R1_uc002tbw.3_Intron	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	460	TIR.|Cytoplasmic (Potential).				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4						AGTTTGCCTACGAGCAGGAGG	0.527													13	120	---	---	---	---	PASS	T	102968090	T	T	102968090	2	4	134	1	0	0	0	0	0	0	0	1	7663	547	19	1		1	IL1RL1	2	102968090	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	17870251	102968090	140231283	34	47985										
MARCO	8685	broad.mit.edu	37	chr2	119752052	119752052	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agaatagctggggccatcatGactgcagccacgaggaggac	14	10	1	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:119752052G>T	uc002tln.1	+	17	1651	c.1519G>T	c.(1519-1521)GAC>TAC	p.D507Y	MARCO_uc010yyf.1_Missense_Mutation_p.D429Y	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	507	SRCR.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						GGGCCATCATGACTGCAGCCA	0.587													13	64	---	---	---	---	PASS	T	119752052	T	T	119752052	3	4	134	1	0	0	0	0	1	0	0	0	9311	1290	45	2	1585	2	MARCO	2	119752052	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	16783962	119752052	123447321	35	47986										
LCT	3938	broad.mit.edu	37	chr2	136548329	136548329	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctccattctctgtgacataaAttggagggtcattgtattcc	8	9	2	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:136548329A>T	uc002tuu.1	-	15	5245	c.5234T>A	c.(5233-5235)ATT>AAT	p.I1745N		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1745	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TGTGACATAAATTGGAGGGTC	0.498													18	119	---	---	---	---	PASS	T	136548329	T	T	136548329	3	4	134	1	0	0	0	0	1	0	0	0	8693	101	4	5	561	5	LCT	2	136548329	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	16796277	136548329	106651044	36	47987										
LCT	3938	broad.mit.edu	37	chr2	136594716	136594716	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	aaacttagcagggcaataaaGactacatgccaagacagctc	8	10	0	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:136594716G>C	uc002tuu.1	-	1	35	c.24C>G	c.(22-24)GTC>GTG	p.V8V		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	8					carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		GGGCAATAAAGACTACATGCC	0.423													4	137	---	---	---	---	PASS	C	136594716	C	C	136594716	2	2	134	1	0	0	0	0	0	0	0	1	8693	929	33	2		2	LCT	2	136594716	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	46387	136594716	106604657	37	47988										
GALNT3	2591	broad.mit.edu	37	chr2	166616044	166616044	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tgtagttctcagctattctgGccaacagaggttctagccaa	9	10	3	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:166616044G>A	uc010fph.1	-	5	1262	c.875C>T	c.(874-876)GCC>GTC	p.A292V	GALNT3_uc010fpi.1_Missense_Mutation_p.A292V	NM_004482	NP_004473	Q14435	GALT3_HUMAN	polypeptide N-acetylgalactosaminyltransferase 3	292	Catalytic subdomain A.|Lumenal (Potential).				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	Golgi cisterna membrane|integral to membrane|membrane fraction|nucleus|perinuclear region of cytoplasm	calcium ion binding|manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			central_nervous_system(2)|ovary(1)	3						AGCTATTCTGGCCAACAGAGG	0.363													3	30	---	---	---	---	PASS	A	166616044	A	A	166616044	3	1	134	1	0	0	0	0	1	0	0	0	6214	1203	42	3	1054	3	GALNT3	2	166616044	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	30021328	166616044	76583329	38	47989										
GALNT3	2591	broad.mit.edu	37	chr2	166626805	166626805	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ttccttttccttttgctcttCaacacttaaattggttgtct	4	10	3	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:166626805C>G	uc010fph.1	-	2	793	c.406G>C	c.(406-408)GAA>CAA	p.E136Q	GALNT3_uc010fpi.1_Missense_Mutation_p.E136Q|GALNT3_uc002udi.2_Missense_Mutation_p.E136Q	NM_004482	NP_004473	Q14435	GALT3_HUMAN	polypeptide N-acetylgalactosaminyltransferase 3	136	Lumenal (Potential).				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	Golgi cisterna membrane|integral to membrane|membrane fraction|nucleus|perinuclear region of cytoplasm	calcium ion binding|manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			central_nervous_system(2)|ovary(1)	3						TTTTGCTCTTCAACACTTAAA	0.458													25	155	---	---	---	---	PASS	G	166626805	G	G	166626805	3	3	134	1	0	0	0	0	1	0	0	0	6214	835	29	2	1535	2	GALNT3	2	166626805	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	10761	166626805	76572568	39	47990										
WDR75	84128	broad.mit.edu	37	chr2	190331263	190331263	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tggttacagctagcaaagatGgttacttcaaagtatggata	10	5	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:190331263G>A	uc002uql.1	+	13	1462	c.1402G>A	c.(1402-1404)GGT>AGT	p.G468S	WDR75_uc002uqm.1_Missense_Mutation_p.G404S|WDR75_uc002uqn.1_Missense_Mutation_p.G246S|WDR75_uc002uqo.1_Missense_Mutation_p.G246S	NM_032168	NP_115544	Q8IWA0	WDR75_HUMAN	WD repeat domain 75	468	WD 7.					nucleolus				ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00105)|Epithelial(96;0.0129)|all cancers(119;0.0456)			TAGCAAAGATGGTTACTTCAA	0.338													12	91	---	---	---	---	PASS	A	190331263	A	A	190331263	3	1	134	1	0	0	0	0	1	0	0	0	17322	1348	47	3	1452	3	WDR75	2	190331263	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	23704458	190331263	52868110	40	47991										
STAT4	6775	broad.mit.edu	37	chr2	191934419	191934419	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tagaaaaaacaaaaacttacCcattgtctgaattgttttat	4	6	1	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:191934419C>T	uc002usm.1	-	6	798	c.544G>A	c.(544-546)GAT>AAT	p.D182N	STAT4_uc002usn.1_Missense_Mutation_p.D182N|STAT4_uc010zgk.1_Missense_Mutation_p.D27N|STAT4_uc002uso.2_Missense_Mutation_p.D182N	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	182					JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			AAAAACTTACCCATTGTCTGA	0.318													7	68	---	---	---	---	PASS	T	191934419	T	T	191934419	3	4	134	1	0	0	0	0	1	0	0	0	15266	637	22	3	1778	3	STAT4	2	191934419	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	1603156	191934419	51264954	41	47992										
CCDC150	284992	broad.mit.edu	37	chr2	197541455	197541455	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	aaagaaagatttcagagggaGgtaggtagaagcaaatttac	12	3	1	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:197541455G>C	uc002utp.1	+	12	1575	c.1440G>C	c.(1438-1440)GAG>GAC	p.E480D	CCDC150_uc010zgq.1_RNA|CCDC150_uc010zgr.1_RNA|CCDC150_uc010zgs.1_Missense_Mutation_p.E148D	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150	480	Potential.										0						TTCAGAGGGAGGTAGGTAGAA	0.363													8	74	---	---	---	---	PASS	C	197541455	C	C	197541455	3	2	134	1	0	0	0	0	1	0	0	0	2785	1014	35	4	1486	4	CCDC150	2	197541455	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	5607036	197541455	45657918	42	47993										
ALS2CR11	151254	broad.mit.edu	37	chr2	202430541	202430541	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ggagtcccaacagtaacattCaggtctggggataagaatgc	12	8	2	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:202430541C>G	uc002uye.2	-	9	936	c.888G>C	c.(886-888)CTG>CTC	p.L296L	ALS2CR11_uc002uyf.2_Silent_p.L296L|ALS2CR11_uc010fti.2_Silent_p.L296L	NM_152525	NP_689738	Q53TS8	AL2SA_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	296										large_intestine(1)|ovary(1)|skin(1)	3						CAGTAACATTCAGGTCTGGGG	0.383													13	76	---	---	---	---	PASS	G	202430541	G	G	202430541	2	3	134	1	0	0	0	0	0	0	0	1	552	813	29	2		2	ALS2CR11	2	202430541	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	4889086	202430541	40768832	43	47994										
PIKFYVE	200576	broad.mit.edu	37	chr2	209190987	209190987	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tagccagagcttgggtagaaTgctggccgattatcgagcca	13	9	0	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:209190987T>A	uc002vcz.2	+	20	3610	c.3452T>A	c.(3451-3453)ATG>AAG	p.M1151K	PIKFYVE_uc010fun.1_Missense_Mutation_p.M832K|PIKFYVE_uc002vcy.1_Missense_Mutation_p.M1095K	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1151					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						TTGGGTAGAATGCTGGCCGAT	0.468													8	76	---	---	---	---	PASS	A	209190987	A	A	209190987	3	1	134	1	0	0	0	0	1	0	0	0	11924	1464	51	5	3537	5	PIKFYVE	2	209190987	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	6760446	209190987	34008386	44	47995										
FN1	2335	broad.mit.edu	37	chr2	216298158	216298158	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cactcggtaagtgttcccagTgtacttgtcaaagcaagtct	9	10	2	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:216298158T>A	uc002vfa.2	-	3	570	c.304A>T	c.(304-306)ACT>TCT	p.T102S	FN1_uc002vfb.2_Missense_Mutation_p.T102S|FN1_uc002vfc.2_Missense_Mutation_p.T102S|FN1_uc002vfd.2_Missense_Mutation_p.T102S|FN1_uc002vfe.2_Missense_Mutation_p.T102S|FN1_uc002vff.2_Missense_Mutation_p.T102S|FN1_uc002vfg.2_Missense_Mutation_p.T102S|FN1_uc002vfh.2_Missense_Mutation_p.T102S|FN1_uc002vfi.2_Missense_Mutation_p.T102S|FN1_uc002vfj.2_Missense_Mutation_p.T102S|FN1_uc002vfl.2_Missense_Mutation_p.T102S	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	102	Fibronectin type-I 2.|Fibrin- and heparin-binding 1.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTGTTCCCAGTGTACTTGTCA	0.493													15	103	---	---	---	---	PASS	A	216298158	A	A	216298158	3	1	134	1	0	0	0	0	1	0	0	0	5962	1696	59	5	7338	5	FN1	2	216298158	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	7107171	216298158	26901215	45	47996										
SLC4A3	6508	broad.mit.edu	37	chr2	220504424	220504424	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tccaggaggtgcgggagcagCgggtcactggtgtgctcatc	17	10	2	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:220504424C>A	uc002vmp.3	+	20	3513	c.3244C>A	c.(3244-3246)CGG>AGG	p.R1082R	SLC4A3_uc002vmo.3_Silent_p.R1109R|SLC4A3_uc010fwm.2_Silent_p.R632R	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	1082	Membrane (anion exchange).				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCGGGAGCAGCGGGTCACTGG	0.637													6	45	---	---	---	---	PASS	A	220504424	A	A	220504424	2	1	134	1	0	0	0	0	0	0	0	1	14655	759	27	1		1	SLC4A3	2	220504424	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	4206266	220504424	22694949	46	47997										
PAX3	5077	broad.mit.edu	37	chr2	223084939	223084939	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cacaaagctgtctgtatagcTggaaaatccatgcctggtgc	10	10	1	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:223084939T>A	uc010fwo.2	-	7	1459	c.1093A>T	c.(1093-1095)AGC>TGC	p.S365C	PAX3_uc002vmt.1_Missense_Mutation_p.S365C|PAX3_uc002vmy.1_Missense_Mutation_p.S364C|PAX3_uc002vmv.1_Missense_Mutation_p.S365C|PAX3_uc002vmw.1_Missense_Mutation_p.S365C|PAX3_uc002vmx.1_Missense_Mutation_p.S365C	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	365					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)		TCTGTATAGCTGGAAAATCCA	0.567			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						10	63	---	---	---	---	PASS	A	223084939	A	A	223084939	3	1	134	1	0	0	0	0	1	0	0	0	11480	1580	55	5	468	5	PAX3	2	223084939	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	2580515	223084939	20114434	47	47998										
SPHKAP	80309	broad.mit.edu	37	chr2	228892257	228892257	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	acatcaagattcacaaagcaGacctgggaaaagagggcaaa	10	8	2	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr2:228892257G>T	uc002vpq.2	-	4	296	c.249C>A	c.(247-249)GTC>GTA	p.V83V	SPHKAP_uc002vpp.2_Silent_p.V83V|SPHKAP_uc010zlx.1_Silent_p.V83V	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	83						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TCACAAAGCAGACCTGGGAAA	0.428													27	145	---	---	---	---	PASS	T	228892257	T	T	228892257	2	4	134	1	0	0	0	0	0	0	0	1	15047	929	33	2		2	SPHKAP	2	228892257	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	5807318	228892257	14307116	48	47999										
THUMPD3	25917	broad.mit.edu	37	chr3	9424981	9424981	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tattattgtaacagatttgcCatttggaaaaaggtgagaaa	9	3	0	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:9424981C>T	uc003bro.3	+	8	1371	c.1223C>T	c.(1222-1224)CCA>CTA	p.P408L	LOC440944_uc003brm.2_Intron|THUMPD3_uc003brn.3_Missense_Mutation_p.P408L	NM_001114092	NP_001107564	Q9BV44	THUM3_HUMAN	THUMP domain containing 3	408							methyltransferase activity|protein binding|RNA binding			ovary(1)	1	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.101)		ACAGATTTGCCATTTGGAAAA	0.383													24	73	---	---	---	---	PASS	T	9424981	T	T	9424981	3	4	134	1	0	0	0	0	1	0	0	0	15881	594	21	3	1249	3	THUMPD3	3	9424981	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08		9424981	188597449	49	48000										
USP19	10869	broad.mit.edu	37	chr3	49153267	49153267	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cttggatttatccttctccaCagcccgggcctcctcctggc	8	17	1	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:49153267C>A	uc003cwd.1	-	10	1434	c.1273G>T	c.(1273-1275)GTG>TTG	p.V425L	USP19_uc003cwa.2_Missense_Mutation_p.V233L|USP19_uc003cvz.3_Missense_Mutation_p.V528L|USP19_uc011bcg.1_Missense_Mutation_p.V516L|USP19_uc003cwb.2_Missense_Mutation_p.V511L|USP19_uc003cwc.1_Missense_Mutation_p.V183L|USP19_uc011bch.1_Missense_Mutation_p.V526L|USP19_uc011bci.1_Missense_Mutation_p.V513L	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	425	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TCCTTCTCCACAGCCCGGGCC	0.607													5	130	---	---	---	---	PASS	A	49153267	A	A	49153267	3	1	134	1	0	0	0	0	1	0	0	0	17047	478	17	3	2751	3	USP19	3	49153267	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	39728286	49153267	148869163	50	48001										
BSN	8927	broad.mit.edu	37	chr3	49698245	49698245	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	atcacacaacgcaaagagtcTttggccaaagaccggggtgg	12	10	2	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:49698245T>C	uc003cxe.3	+	6	9081	c.8967T>C	c.(8965-8967)TCT>TCC	p.S2989S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2989					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		GCAAAGAGTCTTTGGCCAAAG	0.572													23	62	---	---	---	---	PASS	C	49698245	C	C	49698245	2	2	134	1	0	0	0	0	0	0	0	1	1530	1596	56	5		5	BSN	3	49698245	Silent	SNP	T	TCGA-60-2725-01A-01D-1267-08	544978	49698245	148324185	51	48002										
IFT57	55081	broad.mit.edu	37	chr3	107925521	107925521	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cgttgagatcaataaagtttTcttcattatctgtctcttct	5	8	6	1	rs10704311		TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:107925521T>A	uc003dwx.3	-	5	856	c.608A>T	c.(607-609)GAA>GTA	p.E203V		NM_018010	NP_060480	Q9NWB7	IFT57_HUMAN	estrogen-related receptor beta like 1	203					activation of caspase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cilium|microtubule basal body	DNA binding|protein binding			ovary(1)|skin(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(3;0.0428)|Epithelial(53;0.246)			AATAAAGTTTTCTTCATTATC	0.279													19	130	---	---	---	---	PASS	A	107925521	A	A	107925521	3	1	134	1	0	0	0	0	1	0	0	0	7562	1783	62	5	709	5	IFT57	3	107925521	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	58227276	107925521	90096909	52	48003										
PHLDB2	90102	broad.mit.edu	37	chr3	111637980	111637980	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ggctgcaatggaagaaacccGgatagtcattctgaacaacc	10	10	2	2	rs148898642	by1000genomes	TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:111637980G>A	uc010hqa.2	+	4	2192	c.1781G>A	c.(1780-1782)CGG>CAG	p.R594Q	PHLDB2_uc003dyc.2_Missense_Mutation_p.R621Q|PHLDB2_uc003dyd.2_Missense_Mutation_p.R594Q|PHLDB2_uc003dyg.2_Missense_Mutation_p.R594Q|PHLDB2_uc003dyh.2_Missense_Mutation_p.R594Q|PHLDB2_uc003dyi.2_Missense_Mutation_p.R180Q	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	594	Potential.					cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						GAAGAAACCCGGATAGTCATT	0.408													4	360	---	---	---	---	PASS	A	111637980	A	A	111637980	3	1	134	1	0	0	0	0	1	0	0	0	11852	1116	39	1	1876	1	PHLDB2	3	111637980	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	3712459	111637980	86384450	53	48004										
GAP43	2596	broad.mit.edu	37	chr3	115395053	115395053	+	Missense_Mutation	SNP	C	A	A													0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gaaggatgaagcccctgttgCcgatggggtggagaagaagg							TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:115395053C>A	uc003ebq.2	+	2	610	c.224C>A	c.(223-225)GCC>GAC	p.A75D	GAP43_uc003ebr.2_Missense_Mutation_p.A111D	NM_002045	NP_002036	P17677	NEUM_HUMAN	growth associated protein 43 isoform 2	75					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell differentiation|nervous system development|regulation of filopodium assembly|regulation of growth|response to wounding	cell junction|filopodium membrane|growth cone membrane|synapse	calmodulin binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.164)		GCCCCTGTTGCCGATGGGGTG	0.537													14	115	---	---	---	---	PASS	A	115395053	A	A	115395053	3	1	134	1	0	0	0	0	1	0	0	0	6235	739	26	3	372	3	GAP43	3	115395053	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	3757073	115395053	82627377	54	48005	883	2								
GAP43	2596	broad.mit.edu	37	chr3	115395054	115395054	+	Silent	SNP	C	G	G													0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	aaggatgaagcccctgttgcCgatggggtggagaagaaggg							TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:115395054C>G	uc003ebq.2	+	2	611	c.225C>G	c.(223-225)GCC>GCG	p.A75A	GAP43_uc003ebr.2_Silent_p.A111A	NM_002045	NP_002036	P17677	NEUM_HUMAN	growth associated protein 43 isoform 2	75					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell differentiation|nervous system development|regulation of filopodium assembly|regulation of growth|response to wounding	cell junction|filopodium membrane|growth cone membrane|synapse	calmodulin binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.164)		CCCCTGTTGCCGATGGGGTGG	0.537													15	114	---	---	---	---	PASS	G	115395054	G	G	115395054	2	3	134	1	0	0	0	0	0	0	0	1	6235	639	23	4		4	GAP43	3	115395054	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	1	115395054	82627376	55	48006	883	2								
ADPRH	141	broad.mit.edu	37	chr3	119306408	119306408	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctgagtctttcggtgtgaagGagagggatcagttctacacc	13	8	3	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:119306408G>T	uc003ecs.2	+	5	1055	c.757G>T	c.(757-759)GAG>TAG	p.E253*	ADPRH_uc010hqv.2_Nonsense_Mutation_p.E253*|ADPRH_uc011bjb.1_Nonsense_Mutation_p.E146*|ADPRH_uc003ect.2_Nonsense_Mutation_p.E253*	NM_001125	NP_001116	P54922	ADPRH_HUMAN	ADP-ribosylarginine hydrolase	253					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding			ovary(1)	1		Lung NSC(201;0.0977)		GBM - Glioblastoma multiforme(114;0.23)		CGGTGTGAAGGAGAGGGATCA	0.522													8	186	---	---	---	---	PASS	T	119306408	T	T	119306408	4	4	134	1	0	0	0	0	0	1	0	0	331	1175	41	2	767	2	ADPRH	3	119306408	Nonsense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	3911354	119306408	78716022	56	48007										
CD86	942	broad.mit.edu	37	chr3	121825253	121825253	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tacgacgtttccatcagcttGtctgtttcattccctgatgt	7	11	3	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:121825253G>A	uc003eet.2	+	4	725	c.609G>A	c.(607-609)TTG>TTA	p.L203L	CD86_uc011bjo.1_Silent_p.L121L|CD86_uc011bjp.1_Silent_p.L91L|CD86_uc003eeu.2_Silent_p.L197L	NM_175862	NP_787058	P42081	CD86_HUMAN	CD86 antigen isoform 1	203	Ig-like C2-type.|Extracellular (Potential).				interspecies interaction between organisms|positive regulation of cell proliferation|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of lymphotoxin A biosynthetic process|positive regulation of T-helper 2 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation		coreceptor activity|protein binding			pancreas(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.156)	Abatacept(DB01281)	CCATCAGCTTGTCTGTTTCAT	0.393													70	351	---	---	---	---	PASS	A	121825253	A	A	121825253	2	1	134	1	0	0	0	0	0	0	0	1	3043	1368	48	3		3	CD86	3	121825253	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	2518845	121825253	76197177	57	48008										
PARP14	54625	broad.mit.edu	37	chr3	122436926	122436926	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ttgcttttccaggaaatgccAaacaacacccagataaggtt	7	10	0	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:122436926A>G	uc003efq.3	+	13	4068	c.4009A>G	c.(4009-4011)AAA>GAA	p.K1337E	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Missense_Mutation_p.K1054E|PARP14_uc003efs.1_Missense_Mutation_p.K1054E	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	1337	Macro 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		AGGAAATGCCAAACAACACCC	0.388													6	66	---	---	---	---	PASS	G	122436926	G	G	122436926	3	3	134	1	0	0	0	0	1	0	0	0	11458	131	5	5	4059	5	PARP14	3	122436926	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	611673	122436926	75585504	58	48009										
MCM2	4171	broad.mit.edu	37	chr3	127335787	127335787	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	acagcgaagtcgcagtttctCaagtatattgagaaagtgtc	10	7	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:127335787C>G	uc003ejp.2	+	10	1656	c.1599C>G	c.(1597-1599)CTC>CTG	p.L533L	MCM2_uc011bkm.1_Silent_p.L403L|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Silent_p.L486L	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	533	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						CGCAGTTTCTCAAGTATATTG	0.592													4	273	---	---	---	---	PASS	G	127335787	G	G	127335787	2	3	134	1	0	0	0	0	0	0	0	1	9386	813	29	2		2	MCM2	3	127335787	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	4898861	127335787	70686643	59	48010										
PCCB	5096	broad.mit.edu	37	chr3	136002707	136002707	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tacggcatccggagtcatccCtcagatttctctgatcatgg	9	12	4	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:136002707C>G	uc003eqy.1	+	6	623	c.572C>G	c.(571-573)CCT>CGT	p.P191R	PCCB_uc003eqz.1_Missense_Mutation_p.P191R|PCCB_uc011bmc.1_Missense_Mutation_p.P211R|PCCB_uc011bmd.1_Missense_Mutation_p.P108R	NM_000532	NP_000523	P05166	PCCB_HUMAN	propionyl Coenzyme A carboxylase, beta	191	Carboxyltransferase.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|propionyl-CoA carboxylase activity				0					Biotin(DB00121)|L-Valine(DB00161)	GGAGTCATCCCTCAGATTTCT	0.483													20	115	---	---	---	---	PASS	G	136002707	G	G	136002707	3	3	134	1	0	0	0	0	1	0	0	0	11505	681	24	4	658	4	PCCB	3	136002707	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	8666920	136002707	62019723	60	48011										
RNF13	11342	broad.mit.edu	37	chr3	149677870	149677870	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtatgatgtatgtgccatttGtttggatgagtatgaagatg	13	2	0	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:149677870G>A	uc003exn.3	+	10	1512	c.728G>A	c.(727-729)TGT>TAT	p.C243Y	RNF13_uc003exp.3_Missense_Mutation_p.C243Y|RNF13_uc010hvh.2_Missense_Mutation_p.C124Y	NM_007282	NP_009213	O43567	RNF13_HUMAN	ring finger protein 13	243	Cytoplasmic (Potential).|RING-type; atypical.				protein autoubiquitination	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane|nuclear inner membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		all_neural(597;0.0138)|Myeloproliferative disorder(1037;0.0255)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			TGTGCCATTTGTTTGGATGAG	0.343													20	493	---	---	---	---	PASS	A	149677870	A	A	149677870	3	1	134	1	0	0	0	0	1	0	0	0	13437	1377	48	3	758	3	RNF13	3	149677870	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	13675163	149677870	48344560	61	48012										
MED12L	116931	broad.mit.edu	37	chr3	150876521	150876521	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	atttgacatggatcctggatGttttagaaaagatcagacca	9	6	1	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:150876521G>A	uc003eyp.2	+	6	810	c.772G>A	c.(772-774)GTT>ATT	p.V258I	MED12L_uc011bnz.1_Missense_Mutation_p.V258I|MED12L_uc003eym.1_Missense_Mutation_p.V258I|MED12L_uc003eyn.2_Missense_Mutation_p.V258I|MED12L_uc003eyo.2_Missense_Mutation_p.V258I	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	258					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)			GATCCTGGATGTTTTAGAAAA	0.318													6	142	---	---	---	---	PASS	A	150876521	A	A	150876521	3	1	134	1	0	0	0	0	1	0	0	0	9429	1377	48	3	794	3	MED12L	3	150876521	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	1198651	150876521	47145909	62	48013										
SLITRK3	22865	broad.mit.edu	37	chr3	164907600	164907600	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tggagggtggccttggtgttCgaggctgtttggtgggctta	19	5	0	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:164907600C>A	uc003fej.3	-	2	1463	c.1019G>T	c.(1018-1020)CGA>CTA	p.R340L	SLITRK3_uc003fek.2_Missense_Mutation_p.R340L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	340	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						CCTTGGTGTTCGAGGCTGTTT	0.483										HNSCC(40;0.11)			165	518	---	---	---	---	PASS	A	164907600	A	A	164907600	3	1	134	1	0	0	0	0	1	0	0	0	14744	884	31	2	1918	2	SLITRK3	3	164907600	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	14031079	164907600	33114830	63	48014										
ALG3	10195	broad.mit.edu	37	chr3	183963051	183963051	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ttgatactgaggaagagcagCaccatggccactgggtcatt	12	9	1	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:183963051C>T	uc003fne.2	-	4	571	c.540G>A	c.(538-540)GTG>GTA	p.V180V	ALG3_uc011brc.1_Silent_p.V145V|ALG3_uc011brd.1_Silent_p.V124V|ALG3_uc011bre.1_Silent_p.V132V|ALG3_uc003fnf.1_Silent_p.V140V|ALG3_uc011brf.1_Silent_p.V72V	NM_005787	NP_005778	Q92685	ALG3_HUMAN	alpha-1,3-mannosyltransferase ALG3 isoform a	180	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	alpha-1,3-mannosyltransferase activity				0	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GGAAGAGCAGCACCATGGCCA	0.547													13	31	---	---	---	---	PASS	T	183963051	T	T	183963051	2	4	134	1	0	0	0	0	0	0	0	1	520	697	25	3		3	ALG3	3	183963051	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	19055451	183963051	14059379	64	48015										
MUC4	4585	broad.mit.edu	37	chr3	195517433	195517433	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cggtgtgagggtgttgagggTgttgatttgagatactctgg	18	3	1	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr3:195517433T>A	uc011bto.1	-	2	1478	c.1018A>T	c.(1018-1020)ACC>TCC	p.T340S	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.T222S	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	345					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GTGTTGAGGGTGTTGATTTGA	0.468													14	722	---	---	---	---	PASS	A	195517433	A	A	195517433	3	1	134	1	0	0	0	0	1	0	0	0	9978	1696	59	5		5	MUC4	3	195517433	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	11554382	195517433	2504997	65	48016										
C4orf44	345222	broad.mit.edu	37	chr4	3251171	3251171	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	accaagcgcaacgccaaggtGtacgagaagatggccagcaa	12	11	0	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr4:3251171G>T	uc003ggs.2	+	1	405	c.222G>T	c.(220-222)GTG>GTT	p.V74V	C4orf44_uc003ggt.2_Silent_p.V74V	NM_001042690	NP_001036155	Q6ZTZ1	CD044_HUMAN	hypothetical protein LOC345222 isoform a	74											0						ACGCCAAGGTGTACGAGAAGA	0.607													7	25	---	---	---	---	PASS	T	3251171	T	T	3251171	2	4	134	1	0	0	0	0	0	0	0	1	2272	1364	48	3		3	C4orf44	4	3251171	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08		3251171	187903105	66	48017										
CRMP1	1400	broad.mit.edu	37	chr4	5868448	5868448	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	taaagggattggtcatcgttGatgatccgtccacctttgat	10	8	1	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr4:5868448G>T	uc003gip.2	-	3	176	c.75C>A	c.(73-75)ATC>ATA	p.I25I	CRMP1_uc003gin.1_5'UTR|CRMP1_uc003giq.2_Silent_p.I25I|CRMP1_uc003gir.2_Silent_p.I20I|CRMP1_uc003gis.2_Silent_p.I139I	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	25					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		GGTCATCGTTGATGATCCGTC	0.443													10	156	---	---	---	---	PASS	T	5868448	T	T	5868448	2	4	134	1	0	0	0	0	0	0	0	1	3890	1280	45	2		2	CRMP1	4	5868448	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	2617277	5868448	185285828	67	48018										
KIAA1211	57482	broad.mit.edu	37	chr4	57180943	57180943	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctcagtgagcttctgaacgaCtttgaggagaggctcgaaga	13	8	2	5			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr4:57180943C>A	uc003hbk.2	+	8	1666	c.1275C>A	c.(1273-1275)GAC>GAA	p.D425E	KIAA1211_uc010iha.2_Missense_Mutation_p.D418E|KIAA1211_uc011bzz.1_Missense_Mutation_p.D335E|KIAA1211_uc003hbm.1_Missense_Mutation_p.D311E	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	425	Glu-rich.									ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					TTCTGAACGACTTTGAGGAGA	0.458													3	8	---	---	---	---	PASS	A	57180943	A	A	57180943	3	1	134	1	0	0	0	0	1	0	0	0	8215	564	20	3	1293	3	KIAA1211	4	57180943	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	51312495	57180943	133973333	68	48019										
SEC24B	10427	broad.mit.edu	37	chr4	110415820	110415820	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gctcctgatcccgcccctgaAcctgatcctgcttctgctcc	7	19	1	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr4:110415820A>G	uc003hzk.2	+	6	1351	c.1296A>G	c.(1294-1296)GAA>GAG	p.E432E	SEC24B_uc003hzl.2_Silent_p.E397E|SEC24B_uc011cfp.1_Silent_p.E463E|SEC24B_uc011cfq.1_Silent_p.E432E|SEC24B_uc011cfr.1_Silent_p.E397E	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	432					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		CCGCCCCTGAACCTGATCCTG	0.483													44	139	---	---	---	---	PASS	G	110415820	G	G	110415820	2	3	134	1	0	0	0	0	0	0	0	1	13995	40	2	5		5	SEC24B	4	110415820	Silent	SNP	A	TCGA-60-2725-01A-01D-1267-08	53234877	110415820	80738456	69	48020										
ALPK1	80216	broad.mit.edu	37	chr4	113350351	113350351	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tttgctgtccgctgcagaagCctgcaagctggcagctgcct	12	13	0	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr4:113350351C>G	uc003iap.3	+	10	1121	c.842C>G	c.(841-843)GCC>GGC	p.A281G	ALPK1_uc003ian.3_Missense_Mutation_p.A281G|ALPK1_uc011cfx.1_Missense_Mutation_p.A203G|ALPK1_uc003iao.3_RNA|ALPK1_uc010imo.2_Missense_Mutation_p.A109G	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	281							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		GCTGCAGAAGCCTGCAAGCTG	0.527													60	180	---	---	---	---	PASS	G	113350351	G	G	113350351	3	3	134	1	0	0	0	0	1	0	0	0	544	739	26	4	872	4	ALPK1	4	113350351	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	2934531	113350351	77803925	70	48021										
MAD2L1	4085	broad.mit.edu	37	chr4	120981308	120981308	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	aattttgtaggccaccatgcTatttactttgtggattgtag	9	6	0	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr4:120981308T>C	uc003idl.2	-	5	707	c.583A>G	c.(583-585)AGC>GGC	p.S195G	MAD2L1_uc003idm.2_3'UTR	NM_002358	NP_002349	Q13257	MD2L1_HUMAN	MAD2-like 1	195	HORMA.|Required for assuming the closed conformation and for interaction with CDC20.			S->D: Abolishes interaction with MAD1L1 and reduces interaction with CDC20; when associated with D-170 and D-178.|S->A: Abolishes phosphorylation on serine residues; when associated with A-170 and A-178.	anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of apoptosis|negative regulation of mitotic anaphase-promoting complex activity|positive regulation of mitotic cell cycle spindle assembly checkpoint	condensed chromosome kinetochore|cytosol|nucleus|perinuclear region of cytoplasm	protein homodimerization activity				0						GCCACCATGCTATTTACTTTG	0.383													8	186	---	---	---	---	PASS	C	120981308	C	C	120981308	3	2	134	1	0	0	0	0	1	0	0	0	9148	1522	53	5	38	5	MAD2L1	4	120981308	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	7630957	120981308	70172968	71	48022										
SPATA5	166378	broad.mit.edu	37	chr4	124177257	124177257	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agggaaatatttaagctgcaGtttcactccatgcctgtcag	9	9	2	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr4:124177257G>A	uc003iez.3	+	15	2500	c.2427G>A	c.(2425-2427)CAG>CAA	p.Q809Q		NM_145207	NP_660208	Q8NB90	SPAT5_HUMAN	spermatogenesis associated 5	809					cell differentiation|multicellular organismal development|spermatogenesis	mitochondrion	ATP binding|nucleoside-triphosphatase activity				0						TTAAGCTGCAGTTTCACTCCA	0.423													39	149	---	---	---	---	PASS	A	124177257	A	A	124177257	2	1	134	1	0	0	0	0	0	0	0	1	15010	1020	36	3		3	SPATA5	4	124177257	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	3195949	124177257	66977019	72	48023										
LRBA	987	broad.mit.edu	37	chr4	151770705	151770705	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	atcactgctattcacgaagtCcataactgtctttgttgaat	6	9	3	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr4:151770705C>A	uc010ipj.2	-	25	4501	c.4027G>T	c.(4027-4029)GAC>TAC	p.D1343Y	LRBA_uc003ilt.3_Missense_Mutation_p.D2Y|LRBA_uc003ilu.3_Missense_Mutation_p.D1343Y	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1343	WD 1.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TTCACGAAGTCCATAACTGTC	0.383													16	113	---	---	---	---	PASS	A	151770705	A	A	151770705	3	1	134	1	0	0	0	0	1	0	0	0	8931	855	30	2	4700	2	LRBA	4	151770705	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	27593448	151770705	39383571	73	48024										
DCHS2	54798	broad.mit.edu	37	chr4	155256175	155256175	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cattaatgacagctgtgagcCcaccaccgtcttgagcagag	10	12	1	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr4:155256175C>A	uc003inw.2	-	8	1061	c.1061G>T	c.(1060-1062)GGG>GTG	p.G354V	DCHS2_uc003inx.2_Missense_Mutation_p.G853V	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	354	Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AGCTGTGAGCCCACCACCGTC	0.418													11	139	---	---	---	---	PASS	A	155256175	A	A	155256175	3	1	134	1	0	0	0	0	1	0	0	0	4288	623	22	3	7857	3	DCHS2	4	155256175	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	3485470	155256175	35898101	74	48025										
TLL1	7092	broad.mit.edu	37	chr4	167020662	167020662	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	caacagctgtggggcttggtCgattctgtggatccggggta	16	8	1	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr4:167020662C>A	uc003irh.1	+	20	3537	c.2890C>A	c.(2890-2892)CGA>AGA	p.R964R	TLL1_uc011cjn.1_Silent_p.R987R|TLL1_uc011cjo.1_Silent_p.R788R	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	964	CUB 5.				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		GGGGCTTGGTCGATTCTGTGG	0.423													5	292	---	---	---	---	PASS	A	167020662	A	A	167020662	2	1	134	1	0	0	0	0	0	0	0	1	15942	876	31	2		2	TLL1	4	167020662	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	11764487	167020662	24133614	75	48026										
AGA	175	broad.mit.edu	37	chr4	178360790	178360790	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tactttccgtgccacaccaaTagcatttttaattcgtctga	5	11	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr4:178360790T>C	uc003iuu.1	-	3	396	c.334A>G	c.(334-336)ATT>GTT	p.I112V	AGA_uc003iuv.1_Missense_Mutation_p.I16V|AGA_uc003iuw.2_Missense_Mutation_p.I16V	NM_000027	NP_000018	P20933	ASPG_HUMAN	aspartylglucosaminidase precursor	112					asparagine catabolic process via L-aspartate|protein deglycosylation|protein maturation	endoplasmic reticulum|intermediate filament cytoskeleton|lysosome|microtubule cytoskeleton	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0		all_lung(41;1.27e-09)|Lung NSC(41;1.1e-08)|Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Hepatocellular(41;0.148)|all_neural(102;0.164)|Colorectal(36;0.245)		all cancers(43;1.37e-22)|Epithelial(43;3.86e-20)|OV - Ovarian serous cystadenocarcinoma(60;3.8e-11)|Colorectal(24;6.98e-05)|GBM - Glioblastoma multiforme(59;0.000362)|COAD - Colon adenocarcinoma(29;0.000462)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0328)|READ - Rectum adenocarcinoma(43;0.163)		GCCACACCAATAGCATTTTTA	0.368													83	546	---	---	---	---	PASS	C	178360790	C	C	178360790	3	2	134	1	0	0	0	0	1	0	0	0	365	1406	49	5	734	5	AGA	4	178360790	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	11340128	178360790	12793486	76	48027										
FAM173B	134145	broad.mit.edu	37	chr5	10239279	10239279	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tcgtagttgcaggtacaaacGgcaaacagacttttcgaagg	11	8	0	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr5:10239279G>A	uc003jeo.2	-	2	235	c.206C>T	c.(205-207)CCG>CTG	p.P69L	FAM173B_uc003jep.2_RNA|FAM173B_uc010itr.2_Missense_Mutation_p.P69L	NM_199133	NP_954584	Q6P4H8	F173B_HUMAN	hypothetical protein LOC134145	69						integral to membrane				kidney(1)|central_nervous_system(1)	2						AGGTACAAACGGCAAACAGAC	0.527													71	189	---	---	---	---	PASS	A	10239279	A	A	10239279	3	1	134	1	0	0	0	0	1	0	0	0	5494	1116	39	1	511	1	FAM173B	5	10239279	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08		10239279	170675981	77	48028										
MARCH6	10299	broad.mit.edu	37	chr5	10402650	10402650	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ttattttcacttaaggtctcTttgttagtggtggtagaaat	9	4	2	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr5:10402650T>C	uc003jet.1	+	14	1311	c.1128T>C	c.(1126-1128)TCT>TCC	p.S376S	MARCH6_uc011cmu.1_Silent_p.S328S|MARCH6_uc003jeu.1_Silent_p.S74S|MARCH6_uc011cmv.1_Silent_p.S271S	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	376	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						TTAAGGTCTCTTTGTTAGTGG	0.338													18	524	---	---	---	---	PASS	C	10402650	C	C	10402650	2	2	134	1	0	0	0	0	0	0	0	1	9305	1596	56	5		5	MARCH6	5	10402650	Silent	SNP	T	TCGA-60-2725-01A-01D-1267-08	163371	10402650	170512610	78	48029										
H2AFY	9555	broad.mit.edu	37	chr5	134724756	134724756	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agacctggacgtcttggtggActtcttcttcccaccgcggc	11	14	3	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr5:134724756A>G	uc003lam.1	-	2	238	c.28T>C	c.(28-30)TCC>CCC	p.S10P	H2AFY_uc003lao.1_Missense_Mutation_p.S10P|H2AFY_uc003lan.1_Missense_Mutation_p.S10P|H2AFY_uc003lap.1_RNA|H2AFY_uc003laq.1_RNA|H2AFY_uc003lar.1_RNA|H2AFY_uc011cxz.1_Missense_Mutation_p.S10P|H2AFY_uc003las.1_Missense_Mutation_p.S10P|H2AFY_uc003lat.1_Missense_Mutation_p.S10P	NM_138610	NP_613258	O75367	H2AY_HUMAN	H2A histone family, member Y isoform 3	10	Histone H2A.				chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GTCTTGGTGGACTTCTTCTTC	0.612													7	59	---	---	---	---	PASS	G	134724756	G	G	134724756	3	3	134	1	0	0	0	0	1	0	0	0	6929	275	10	5	1217	5	H2AFY	5	134724756	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	124322106	134724756	46190504	79	48030										
PSD2	84249	broad.mit.edu	37	chr5	139216470	139216470	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gacaggcacgaagaaggtgaCgcgaatcctggatggtggca	16	8	0	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr5:139216470C>T	uc003leu.1	+	10	1683	c.1478C>T	c.(1477-1479)ACG>ATG	p.T493M		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	493					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGAAGGTGACGCGAATCCTG	0.587													9	291	---	---	---	---	PASS	T	139216470	T	T	139216470	3	4	134	1	0	0	0	0	1	0	0	0	12647	536	19	1	1512	1	PSD2	5	139216470	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	4491714	139216470	41698790	80	48031										
PCDHB1	29930	broad.mit.edu	37	chr5	140433228	140433228	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ttaaatatagagaaaagttcAcaattcaagagcatttctat	5	5	3	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr5:140433228A>G	uc003lik.1	+	1	2250	c.2173A>G	c.(2173-2175)ACA>GCA	p.T725A		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	725	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGAAAAGTTCACAATTCAAGA	0.373													40	148	---	---	---	---	PASS	G	140433228	G	G	140433228	3	3	134	1	0	0	0	0	1	0	0	0	11534	159	6	5	2175	5	PCDHB1	5	140433228	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	1216758	140433228	40482032	81	48032										
SLC36A2	153201	broad.mit.edu	37	chr5	150715081	150715081	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctcattggaatagcagttgtTggttgtgctattaacagctt	10	6	1	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr5:150715081T>A	uc003lty.2	-	6	683	c.553A>T	c.(553-555)AAC>TAC	p.N185Y	GM2A_uc011dcs.1_Intron|SLC36A2_uc003ltz.2_RNA|SLC36A2_uc003lua.2_5'UTR|SLC36A2_uc010jhv.2_Missense_Mutation_p.N185Y	NM_181776	NP_861441	Q495M3	S36A2_HUMAN	solute carrier family 36, member 2	185	Extracellular (Potential).				cellular nitrogen compound metabolic process	cytoplasm|integral to membrane|plasma membrane	glycine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TAGCAGTTGTTGGTTGTGCTA	0.517													33	141	---	---	---	---	PASS	A	150715081	A	A	150715081	3	1	134	1	0	0	0	0	1	0	0	0	14594	1812	63	5	918	5	SLC36A2	5	150715081	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	10281853	150715081	30200179	82	48033										
KIAA0319	9856	broad.mit.edu	37	chr6	24569156	24569156	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	catctccactgcactggggcCtctataaaacatagaagtgg	9	11	2	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr6:24569156C>A	uc011djo.1	-	13	2230	c.1993G>T	c.(1993-1995)GGC>TGC	p.G665C	KIAA0319_uc011djp.1_Missense_Mutation_p.G620C|KIAA0319_uc003neh.1_Missense_Mutation_p.G665C|KIAA0319_uc011djq.1_Missense_Mutation_p.G656C|KIAA0319_uc011djr.1_Missense_Mutation_p.G665C|KIAA0319_uc010jpt.1_Missense_Mutation_p.G76C	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	665	PKD 4.|Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						GCACTGGGGCCTCTATAAAAC	0.453													18	64	---	---	---	---	PASS	A	24569156	A	A	24569156	3	1	134	1	0	0	0	0	1	0	0	0	8168	695	24	3	1261	3	KIAA0319	6	24569156	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08		24569156	146545911	83	48034										
SCUBE3	222663	broad.mit.edu	37	chr6	35209433	35209433	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cctccagggcccgatttttgCcaggtacatgggaggagggt	15	10	0	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr6:35209433C>T	uc003okf.1	+	11	1315	c.1309C>T	c.(1309-1311)CCA>TCA	p.P437S	SCUBE3_uc003okg.1_Missense_Mutation_p.P436S|SCUBE3_uc003okh.1_Missense_Mutation_p.P324S	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	437					protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						CCGATTTTTGCCAGGTACATG	0.602											OREG0017372	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	185	---	---	---	---	PASS	T	35209433	T	T	35209433	3	4	134	1	0	0	0	0	1	0	0	0	13946	739	26	3	1351	3	SCUBE3	6	35209433	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	10640277	35209433	135905634	84	48035										
PI16	221476	broad.mit.edu	37	chr6	36930839	36930839	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cttccctagcaacggggattCcggctttcttggtaacagag	11	11	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr6:36930839C>T	uc003ona.2	+	5	1049	c.721C>T	c.(721-723)CCG>TCG	p.P241S	PI16_uc003omz.1_Intron|PI16_uc003onb.2_Intron|PI16_uc011dts.1_Missense_Mutation_p.P12S	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	241	Extracellular (Potential).					extracellular region|integral to membrane	peptidase inhibitor activity				0						AACGGGGATTCCGGCTTTCTT	0.562													8	297	---	---	---	---	PASS	T	36930839	T	T	36930839	3	4	134	1	0	0	0	0	1	0	0	0	11869	855	30	2	739	2	PI16	6	36930839	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	1721406	36930839	134184228	85	48036										
MCHR2	84539	broad.mit.edu	37	chr6	100369022	100369022	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctgttccatctgtaagttcaCcagttgtatcacatgataag	7	9	3	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr6:100369022C>A	uc003pqh.1	-	6	1132	c.817G>T	c.(817-819)GTG>TTG	p.V273L	MCHR2_uc003pqi.1_Missense_Mutation_p.V273L	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	273	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		TGTAAGTTCACCAGTTGTATC	0.468													36	151	---	---	---	---	PASS	A	100369022	A	A	100369022	3	1	134	1	0	0	0	0	1	0	0	0	9383	507	18	3	209	3	MCHR2	6	100369022	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	63438183	100369022	70746045	86	48037										
ASCC3	10973	broad.mit.edu	37	chr6	100957342	100957342	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	actcgcttgtgtaacgttgaGatagatgtcatactgctggt	11	7	1	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr6:100957342G>C	uc003pqk.2	-	42	6858	c.6529C>G	c.(6529-6531)CTC>GTC	p.L2177V		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	2177	SEC63 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		GTAACGTTGAGATAGATGTCA	0.388													5	304	---	---	---	---	PASS	C	100957342	C	C	100957342	3	2	134	1	0	0	0	0	1	0	0	0	1033	942	33	2	83	2	ASCC3	6	100957342	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	588320	100957342	70157725	87	48038										
HACE1	57531	broad.mit.edu	37	chr6	105177550	105177550	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gacttcattatgccattgtgTaaccatagctgccacaatgt	7	10	1	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr6:105177550T>C	uc003pqu.1	-	24	2994	c.2717A>G	c.(2716-2718)TAC>TGC	p.Y906C	HACE1_uc010kcy.1_Missense_Mutation_p.Y388C|HACE1_uc010kcz.1_Missense_Mutation_p.Y691C|HACE1_uc010kcx.1_Missense_Mutation_p.Y315C|HACE1_uc003pqt.1_Missense_Mutation_p.Y559C	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	906	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		TGCCATTGTGTAACCATAGCT	0.388													10	66	---	---	---	---	PASS	C	105177550	C	C	105177550	3	2	134	1	0	0	0	0	1	0	0	0	6940	1638	57	5	16	5	HACE1	6	105177550	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	4220208	105177550	65937517	88	48039										
SAMD3	154075	broad.mit.edu	37	chr6	130475977	130475977	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agaataaagatacctgataaGggcacttcaagaaaggaaac	9	6	1	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr6:130475977G>A	uc003qbv.2	-	10	1342	c.1016C>T	c.(1015-1017)CCT>CTT	p.P339L	SAMD3_uc003qbx.2_Missense_Mutation_p.P339L|SAMD3_uc003qbw.2_Missense_Mutation_p.P339L	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	339										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		TACCTGATAAGGGCACTTCAA	0.234													13	76	---	---	---	---	PASS	A	130475977	A	A	130475977	3	1	134	1	0	0	0	0	1	0	0	0	13820	1000	35	3	562	3	SAMD3	6	130475977	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	25298427	130475977	40639090	89	48040										
VNN2	8875	broad.mit.edu	37	chr6	133077133	133077133	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	catagatagagttgtccttgGccaggcagctgagtcttgct	12	9	1	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr6:133077133G>T	uc003qdt.2	-	3	397	c.386C>A	c.(385-387)GCC>GAC	p.A129D	VNN2_uc003qds.2_5'UTR|VNN2_uc010kgb.2_Missense_Mutation_p.A129D|VNN2_uc003qdv.2_Missense_Mutation_p.A76D	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor	129	CN hydrolase.				cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		GTTGTCCTTGGCCAGGCAGCT	0.348													17	48	---	---	---	---	PASS	T	133077133	T	T	133077133	3	4	134	1	0	0	0	0	1	0	0	0	17180	1203	42	3	1196	3	VNN2	6	133077133	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	2601156	133077133	38037934	90	48041										
SYNE1	23345	broad.mit.edu	37	chr6	152738071	152738071	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ggtggaggtcctcagcacggCccagagaacccaactttgct	12	13	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr6:152738071C>A	uc010kiw.2	-	41	6103	c.5501G>T	c.(5500-5502)GGC>GTC	p.G1834V	SYNE1_uc003qot.3_Missense_Mutation_p.G1841V|SYNE1_uc003qou.3_Missense_Mutation_p.G1834V|SYNE1_uc010kjb.1_Missense_Mutation_p.G1817V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1834	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)		CTCAGCACGGCCCAGAGAACC	0.577										HNSCC(10;0.0054)			9	281	---	---	---	---	PASS	A	152738071	A	A	152738071	3	1	134	1	0	0	0	0	1	0	0	0	15442	739	26	3	21389	3	SYNE1	6	152738071	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	19660938	152738071	18376996	91	48042										
SYNE1	23345	broad.mit.edu	37	chr6	152841636	152841636	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agtgccgtgccaatgttagcCacagcatggattcgcttcat	10	11	1	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr6:152841636C>A	uc010kiw.2	-	6	869	c.267G>T	c.(265-267)GTG>GTT	p.V89V	SYNE1_uc003qot.3_Silent_p.V89V|SYNE1_uc003qou.3_Silent_p.V89V|SYNE1_uc010kjb.1_Silent_p.V89V|SYNE1_uc003qpa.1_Silent_p.V89V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	89	Actin-binding.|Cytoplasmic (Potential).|CH 1.				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)		CAATGTTAGCCACAGCATGGA	0.418										HNSCC(10;0.0054)			51	254	---	---	---	---	PASS	A	152841636	A	A	152841636	2	1	134	1	0	0	0	0	0	0	0	1	15442	581	21	3		3	SYNE1	6	152841636	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	103565	152841636	18273431	92	48043										
PRKAR1B	5575	broad.mit.edu	37	chr7	720268	720268	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cctcgccggcggcgggccttCaccacagggttcgggggggt	18	14	1	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr7:720268C>A	uc003siu.1	-	4	379	c.273G>T	c.(271-273)GTG>GTT	p.V91V	PRKAR1B_uc003siv.2_Silent_p.V91V|PRKAR1B_uc003siw.1_Silent_p.V91V	NM_002735	NP_002726	P31321	KAP1_HUMAN	protein kinase, cAMP-dependent, regulatory, type	91	Dimerization and phosphorylation.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)		GGCGGGCCTTCACCACAGGGT	0.632													16	51	---	---	---	---	PASS	A	720268	A	A	720268	2	1	134	1	0	0	0	0	0	0	0	1	12504	813	29	2		2	PRKAR1B	7	720268	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08		720268	158418395	93	48044										
MRPL32	64983	broad.mit.edu	37	chr7	42972022	42972022	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tggtcttggtggtttcgccgTggtctgcggcccggggagtg	19	9	2	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr7:42972022T>A	uc003tia.2	+	1	84	c.37T>A	c.(37-39)TGG>AGG	p.W13R	C7orf25_uc010kxr.2_5'Flank|PSMA2_uc003thy.2_5'Flank|PSMA2_uc010kxt.2_5'Flank|PSMA2_uc003thz.1_5'Flank|MRPL32_uc003tib.2_RNA|MRPL32_uc003tic.2_5'UTR	NM_031903	NP_114109	Q9BYC8	RM32_HUMAN	mitochondrial ribosomal protein L32 precursor	13				SPWSAARGVLRNYWERLLRKLPQSRPGFPSPPW -> RRGL RPGECFETTGSDCYGSFRRAGRAFPVLRGV (in Ref. 3).	translation	large ribosomal subunit|mitochondrial ribosome	structural constituent of ribosome				0						GGTTTCGCCGTGGTCTGCGGC	0.647													4	108	---	---	---	---	PASS	A	42972022	A	A	42972022	3	1	134	1	0	0	0	0	1	0	0	0	9795	1696	59	5	39	5	MRPL32	7	42972022	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	42251754	42972022	116166641	94	48045										
ZNF107	51427	broad.mit.edu	37	chr7	64167834	64167834	+	Nonsense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	catactgcagagaaatcctaTaaatgtgaagaatgtggcaa	9	6	0	3	rs142998629		TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr7:64167834T>G	uc003ttd.2	+	7	1938	c.1152T>G	c.(1150-1152)TAT>TAG	p.Y384*	ZNF107_uc003tte.2_Nonsense_Mutation_p.Y384*	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	384	C2H2-type 12; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				AGAAATCCTATAAATGTGAAG	0.338													11	75	---	---	---	---	PASS	G	64167834	G	G	64167834	4	3	134	1	0	0	0	0	0	1	0	0	17712	1413	49	5	1158	5	ZNF107	7	64167834	Nonsense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	21195812	64167834	94970829	95	48046										
CTTNBP2	83992	broad.mit.edu	37	chr7	117417585	117417585	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cttaaaacctttggaagcagCaatgtgggcagcagtccagc	11	10	0	0	rs147958874	by1000genomes	TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr7:117417585C>A	uc003vjf.2	-	8	2850	c.2758G>T	c.(2758-2760)GCT>TCT	p.A920S		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	920	ANK 6.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		TTGGAAGCAGCAATGTGGGCA	0.493													17	107	---	---	---	---	PASS	A	117417585	A	A	117417585	3	1	134	1	0	0	0	0	1	0	0	0	4045	710	25	3	2297	3	CTTNBP2	7	117417585	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	53249751	117417585	41721078	96	48047										
TBXAS1	6916	broad.mit.edu	37	chr7	139661861	139661861	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cggcaacaccagcccagcccTatggccaggcctttgactgt	10	16	0	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr7:139661861T>G	uc011kqv.1	+	10	1268	c.1104T>G	c.(1102-1104)CCT>CCG	p.P368P	TBXAS1_uc003vvh.2_Silent_p.P322P|TBXAS1_uc010lne.2_Silent_p.P254P|TBXAS1_uc011kqu.1_Silent_p.P273P|TBXAS1_uc003vvi.2_Silent_p.P322P|TBXAS1_uc003vvj.2_Silent_p.P322P|TBXAS1_uc011kqw.1_Silent_p.P302P	NM_001130966	NP_001124438	P24557	THAS_HUMAN	thromboxane A synthase 1, platelet isoform	321	Lumenal (Potential).				hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|thromboxane-A synthase activity			ovary(2)|breast(1)	3	Melanoma(164;0.0142)					AGCCCAGCCCTATGGCCAGGC	0.542													13	56	---	---	---	---	PASS	G	139661861	G	G	139661861	2	3	134	1	0	0	0	0	0	0	0	1	15661	1509	53	5		5	TBXAS1	7	139661861	Silent	SNP	T	TCGA-60-2725-01A-01D-1267-08	22244276	139661861	19476802	97	48048										
NOBOX	135935	broad.mit.edu	37	chr7	144098541	144098541	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	atcagccccggtggcttctcCagagactgctggcggcttct	12	14	3	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr7:144098541C>T	uc011kue.1	-	4	442	c.442G>A	c.(442-444)GGA>AGA	p.G148R		NM_001080413	NP_001073882	O60393	NOBOX_HUMAN	NOBOX oogenesis homeobox	148					cell differentiation|oogenesis	nucleus	sequence-specific DNA binding			ovary(1)	1	Melanoma(164;0.14)					GTGGCTTCTCCAGAGACTGCT	0.647													4	23	---	---	---	---	PASS	T	144098541	T	T	144098541	3	4	134	1	0	0	0	0	1	0	0	0	10512	603	21	3	1565	3	NOBOX	7	144098541	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	4436680	144098541	15040122	98	48049										
CNTNAP2	26047	broad.mit.edu	37	chr7	147183133	147183133	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtggggccacctgccacaacTgtgagtgccaatttatctca	10	12	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr7:147183133T>A	uc003weu.1	+	11	2293	c.1777T>A	c.(1777-1779)TCT>ACT	p.S593T		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	593	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CTGCCACAACTGTGAGTGCCA	0.448										HNSCC(39;0.1)			5	59	---	---	---	---	PASS	A	147183133	A	A	147183133	3	1	134	1	0	0	0	0	1	0	0	0	3647	1594	55	5	1819	5	CNTNAP2	7	147183133	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	3084592	147183133	11955530	99	48050										
EZH2	2146	broad.mit.edu	37	chr7	148512021	148512021	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cttacactctgaactacattGacaaaacttttcacaaaaat	2	10	2	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr7:148512021G>C	uc003wfd.1	-	14	1808	c.1642C>G	c.(1642-1644)CAA>GAA	p.Q548E	EZH2_uc011kug.1_Intron|EZH2_uc003wfb.1_Missense_Mutation_p.Q553E|EZH2_uc003wfc.1_Missense_Mutation_p.Q509E|EZH2_uc011kuh.1_Missense_Mutation_p.Q539E	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	548	Cys-rich.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			GAACTACATTGACAAAACTTT	0.353			Mis		DLBCL								6	75	---	---	---	---	PASS	C	148512021	C	C	148512021	3	2	134	1	0	0	0	0	1	0	0	0	5334	1299	45	2	626	2	EZH2	7	148512021	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	1328888	148512021	10626642	100	48051										
GALNTL5	168391	broad.mit.edu	37	chr7	151704912	151704912	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tatttatgtcccctttctagGtcacctgcaatgtctggagg	9	10	3	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr7:151704912G>C	uc003wkp.2	+	7	1132	c.909G>C	c.(907-909)CGG>CGC	p.R303R	GALNTL5_uc003wkq.2_Silent_p.R54R|GALNTL5_uc003wkr.2_RNA|GALNTL5_uc003wks.2_RNA|GALNTL5_uc010lqf.2_Silent_p.R192R	NM_145292	NP_660335	Q7Z4T8	GLTL5_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	303	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2	all_neural(206;0.187)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00427)	UCEC - Uterine corpus endometrioid carcinoma (81;0.18)|BRCA - Breast invasive adenocarcinoma(188;0.166)		CCCTTTCTAGGTCACCTGCAA	0.299													37	265	---	---	---	---	PASS	C	151704912	C	C	151704912	2	2	134	1	0	0	0	0	0	0	0	1	6224	1275	44	4		4	GALNTL5	7	151704912	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	3192891	151704912	7433751	101	48052										
MYOM2	9172	broad.mit.edu	37	chr8	2024249	2024250	+	Frame_Shift_Del	DEL	CG	-	-													0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ccgctggtcacaggggccccCggtgcacccatggacttgca					rs145411559		TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr8:2024249_2024250delCG	uc003wpx.3	+	11	1287_1288	c.1149_1150delCG	c.(1147-1152)CCCGGTfs	p.P383fs	MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	383_384	Fibronectin type-III 1.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CAGGGGCCCCCGGTGCACCCAT	0.609													34	16	---	---	---	---		-	2024250	-	-	2024249	7	5	134	1	0	1	0	1	0	0	0	0	10092	639	23	0	1187	0	MYOM2	8	2024249	Frame_Shift_Del	DEL	CG	TCGA-60-2725-01A-01D-1267-08		2024249	144339773	102	48053										
DOCK5	80005	broad.mit.edu	37	chr8	25250371	25250371	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	acctttcctgggattctcaaGtggtttgaagtcaaacagat	9	8	2	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr8:25250371G>A	uc003xeg.2	+	44	4637	c.4500G>A	c.(4498-4500)AAG>AAA	p.K1500K	PPP2R2A_uc003xek.2_Intron|DOCK5_uc003xei.2_Silent_p.K1070K|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1500	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		GGATTCTCAAGTGGTTTGAAG	0.378													4	34	---	---	---	---	PASS	A	25250371	A	A	25250371	2	1	134	1	0	0	0	0	0	0	0	1	4690	1020	36	3		3	DOCK5	8	25250371	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	23226122	25250371	121113651	103	48054										
SNAI2	6591	broad.mit.edu	37	chr8	49832867	49832867	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ccggaaagaggagagaggccAttgggtagctgggcgtggaa	19	6	0	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr8:49832867A>G	uc003xqp.2	-	2	377	c.213T>C	c.(211-213)AAT>AAC	p.N71N		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	71					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				GAGAGAGGCCATTGGGTAGCT	0.577													57	230	---	---	---	---	PASS	G	49832867	G	G	49832867	2	3	134	1	0	0	0	0	0	0	0	1	14827	214	8	5		5	SNAI2	8	49832867	Silent	SNP	A	TCGA-60-2725-01A-01D-1267-08	24582496	49832867	96531155	104	48055										
CA8	767	broad.mit.edu	37	chr8	61135250	61135250	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gggtatcggaataatatccaGgtgacaccttcactgcaagg	11	9	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr8:61135250G>T	uc003xtz.1	-	7	944	c.696C>A	c.(694-696)ACC>ACA	p.T232T	CA8_uc003xua.1_Silent_p.T232T	NM_004056	NP_004047	P35219	CAH8_HUMAN	carbonic anhydrase VIII	232					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0		all_cancers(86;0.172)|all_epithelial(80;0.0383)|all_lung(136;0.0413)|Lung NSC(129;0.0474)				ATAATATCCAGGTGACACCTT	0.458													5	86	---	---	---	---	PASS	T	61135250	T	T	61135250	2	4	134	1	0	0	0	0	0	0	0	1	2523	987	35	3		3	CA8	8	61135250	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	11302383	61135250	85228772	105	48056										
ZFHX4	79776	broad.mit.edu	37	chr8	77767540	77767540	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctgctgaggctgggtatgatCaaaataaaaccgattttgat	10	6	1	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr8:77767540C>A	uc003yav.2	+	10	8635	c.8248C>A	c.(8248-8250)CAA>AAA	p.Q2750K	ZFHX4_uc003yau.1_Missense_Mutation_p.Q2795K|ZFHX4_uc003yaw.1_Missense_Mutation_p.Q2750K	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2750						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TGGGTATGATCAAAATAAAAC	0.448										HNSCC(33;0.089)			16	67	---	---	---	---	PASS	A	77767540	A	A	77767540	3	1	134	1	0	0	0	0	1	0	0	0	17632	827	29	2	8417	2	ZFHX4	8	77767540	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	16632290	77767540	68596482	106	48057										
LYPD2	137797	broad.mit.edu	37	chr8	143831824	143831824	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gacacgggcagggtctggccGatgccatccacatccgaggg	15	13	1	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr8:143831824G>T	uc003ywz.2	-	3	338	c.255C>A	c.(253-255)ATC>ATA	p.I85I		NM_205545	NP_991108	Q6UXB3	LYPD2_HUMAN	LY6/PLAUR domain containing 2 precursor	85	UPAR/Ly6.					anchored to membrane|plasma membrane					0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					GGGTCTGGCCGATGCCATCCA	0.637													3	9	---	---	---	---	PASS	T	143831824	T	T	143831824	2	4	134	1	0	0	0	0	0	0	0	1	9110	1048	37	2		2	LYPD2	8	143831824	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	66064284	143831824	2532198	107	48058										
CDKN2A	1029	broad.mit.edu	37	chr9	21970901	21970901	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctcagatcatcagtcctcacCtgagggaccttccgcggcat	9	15	4	2	rs45476696		TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr9:21970901C>T	uc003zpk.2	-	2	669	c.457G>A	c.(457-459)GAC>AAC	p.D153N	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_3'UTR	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	153					cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(16)|p.D153Y(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CAGTCCTCACCTGAGGGACCT	0.597		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			14	56	---	---	---	---	PASS	T	21970901	T	T	21970901	3	4	134	1	0	0	0	0	1	0	0	0	3161	695	24	3	21	3	CDKN2A	9	21970901	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08		21970901	119242530	108	48059										
DMRTA1	63951	broad.mit.edu	37	chr9	22451294	22451294	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtccttatcatcctctgatcTggaatcaggaaatgaaagtg	9	8	4	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr9:22451294T>C	uc003zpp.1	+	2	1124	c.899T>C	c.(898-900)CTG>CCG	p.L300P		NM_022160	NP_071443	Q5VZB9	DMRTA_HUMAN	DMRT-like family A1	300					cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|skin(1)	2		all_cancers(5;4.09e-243)|Acute lymphoblastic leukemia(3;8.25e-150)|all_hematologic(3;4.25e-147)|Esophageal squamous(3;2.32e-09)|Renal(3;1.71e-07)|Breast(3;2.07e-06)|Hepatocellular(5;0.00563)		GBM - Glioblastoma multiforme(1;5.12e-278)|Lung(24;8.2e-52)|LUSC - Lung squamous cell carcinoma(38;1.46e-37)|OV - Ovarian serous cystadenocarcinoma(39;0.0517)		TCCTCTGATCTGGAATCAGGA	0.468													11	50	---	---	---	---	PASS	C	22451294	C	C	22451294	3	2	134	1	0	0	0	0	1	0	0	0	4588	1580	55	5	905	5	DMRTA1	9	22451294	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	480393	22451294	118762137	109	48060										
DDX58	23586	broad.mit.edu	37	chr9	32488093	32488093	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ggaatcgttccctttttaagGttgttcacaagaatctgtgg	10	7	2	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr9:32488093G>T	uc003zra.2	-	8	1220	c.1062C>A	c.(1060-1062)AAC>AAA	p.N354K	DDX58_uc010mjj.2_RNA|DDX58_uc010mjk.1_Missense_Mutation_p.N309K|DDX58_uc011lnr.1_Missense_Mutation_p.N151K|DDX58_uc010mji.2_Missense_Mutation_p.N283K	NM_014314	NP_055129	O95786	DDX58_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	354	Helicase ATP-binding.				detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		CCTTTTTAAGGTTGTTCACAA	0.378													48	149	---	---	---	---	PASS	T	32488093	T	T	32488093	3	4	134	1	0	0	0	0	1	0	0	0	4375	1252	44	3	1759	3	DDX58	9	32488093	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	10036799	32488093	108725338	110	48061										
OR1L4	254973	broad.mit.edu	37	chr9	125487119	125487119	+	Missense_Mutation	SNP	C	A	A													0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tatgtacacagtagtgacacCcatgctgaaccctttcatct							TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr9:125487119C>A	uc004bmu.1	+	1	851	c.851C>A	c.(850-852)CCC>CAC	p.P284H		NM_001005235	NP_001005235	Q8NGR5	OR1L4_HUMAN	olfactory receptor, family 1, subfamily L,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTAGTGACACCCATGCTGAAC	0.413													17	67	---	---	---	---	PASS	A	125487119	A	A	125487119	3	1	134	1	0	0	0	0	1	0	0	0	10965	623	22	3	853	3	OR1L4	9	125487119	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	92999026	125487119	15726312	111	48062	884	2								
OR1L4	254973	broad.mit.edu	37	chr9	125487120	125487120	+	Silent	SNP	C	A	A													0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	atgtacacagtagtgacaccCatgctgaaccctttcatcta							TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr9:125487120C>A	uc004bmu.1	+	1	852	c.852C>A	c.(850-852)CCC>CCA	p.P284P		NM_001005235	NP_001005235	Q8NGR5	OR1L4_HUMAN	olfactory receptor, family 1, subfamily L,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TAGTGACACCCATGCTGAACC	0.413													16	68	---	---	---	---	PASS	A	125487120	A	A	125487120	2	1	134	1	0	0	0	0	0	0	0	1	10965	581	21	3		3	OR1L4	9	125487120	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	1	125487120	15726311	112	48063	884	2								
DENND1A	57706	broad.mit.edu	37	chr9	126144596	126144596	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gccgggcggggaatgggcggTggaggcacgatgcccagctc	20	11	0	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr9:126144596T>G	uc004bnz.1	-	22	2378	c.2145A>C	c.(2143-2145)CCA>CCC	p.P715P	DENND1A_uc011lzl.1_Silent_p.P533P|DENND1A_uc004bny.1_Silent_p.P497P|DENND1A_uc011lzm.1_Silent_p.P726P|DENND1A_uc010mwh.1_Silent_p.P136P	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	715	Pro-rich.					cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						GAATGGGCGGTGGAGGCACGA	0.692													4	25	---	---	---	---	PASS	G	126144596	G	G	126144596	2	3	134	1	0	0	0	0	0	0	0	1	4426	1683	59	5		5	DENND1A	9	126144596	Silent	SNP	T	TCGA-60-2725-01A-01D-1267-08	657476	126144596	15068835	113	48064										
SOHLH1	402381	broad.mit.edu	37	chr9	138586250	138586250	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cacccggccacgagctgggaCcagcagtcagcaggaaggac	14	14	1	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr9:138586250C>G	uc004cgl.2	-	7	990	c.929G>C	c.(928-930)GGT>GCT	p.G310A	SOHLH1_uc010nbe.2_Missense_Mutation_p.G310A	NM_001012415	NP_001012415	Q5JUK2	SOLH1_HUMAN	spermatogenesis and oogenesis specific basic	310					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			breast(1)|central_nervous_system(1)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.66e-07)|Epithelial(140;1.11e-06)|all cancers(34;6.45e-05)		CGAGCTGGGACCAGCAGTCAG	0.637													14	54	---	---	---	---	PASS	G	138586250	G	G	138586250	3	3	134	1	0	0	0	0	1	0	0	0	14923	507	18	4	283	4	SOHLH1	9	138586250	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	12441654	138586250	2627181	114	48065										
ENTPD2	954	broad.mit.edu	37	chr9	139945972	139945972	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gcacactcacttgagcaggcGcatacccgctgtggctccca	10	16	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr9:139945972G>A	uc004ckw.1	-	3	432	c.376C>T	c.(376-378)CGC>TGC	p.R126C	ENTPD2_uc004ckv.1_5'Flank|ENTPD2_uc004ckx.1_Missense_Mutation_p.R126C	NM_203468	NP_982293	Q9Y5L3	ENTP2_HUMAN	ectonucleoside triphosphate diphosphohydrolase 2	126	Extracellular (Potential).					integral to membrane	ATP binding				0	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		TTGAGCAGGCGCATACCCGCT	0.637													5	95	---	---	---	---	PASS	A	139945972	A	A	139945972	3	1	134	1	0	0	0	0	1	0	0	0	5139	1087	38	1	1139	1	ENTPD2	9	139945972	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	1359722	139945972	1267459	115	48066										
DCLRE1C	64421	broad.mit.edu	37	chr10	14974877	14974877	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ggatgccggcatgcatggatCtgagtgttgcggtctgttgt	16	7	2	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr10:14974877C>G	uc001inn.2	-	9	841	c.756G>C	c.(754-756)CAG>CAC	p.Q252H	DCLRE1C_uc010qbx.1_Missense_Mutation_p.Q252H|DCLRE1C_uc001inl.2_Missense_Mutation_p.Q132H|DCLRE1C_uc009xji.2_Missense_Mutation_p.Q137H|DCLRE1C_uc001inm.2_Missense_Mutation_p.Q132H|DCLRE1C_uc001ino.2_Missense_Mutation_p.Q137H|DCLRE1C_uc009xjh.2_RNA|DCLRE1C_uc001inp.2_Missense_Mutation_p.Q132H|DCLRE1C_uc001inq.2_Missense_Mutation_p.Q132H|DCLRE1C_uc001inr.2_Missense_Mutation_p.Q137H|DCLRE1C_uc009xjj.1_RNA	NM_001033855	NP_001029027	Q96SD1	DCR1C_HUMAN	artemis protein isoform a	252					DNA recombination	nucleus	5'-3' exonuclease activity|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)	1						ATGCATGGATCTGAGTGTTGC	0.418								Involved_in_tolerance_or_repair_of_DNA_crosslinks|NHEJ					55	220	---	---	---	---	PASS	G	14974877	G	G	14974877	3	3	134	1	0	0	0	0	1	0	0	0	4296	912	32	2	1346	2	DCLRE1C	10	14974877	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08		14974877	120559870	116	48067										
ANKRD30A	91074	broad.mit.edu	37	chr10	37425591	37425591	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	atctaaaaatcatcaaaataCcaatccaggtaagacttctg	4	9	4	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr10:37425591C>A	uc001iza.1	+	6	743	c.644C>A	c.(643-645)ACC>AAC	p.T215N		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	271	ANK 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						CATCAAAATACCAATCCAGGT	0.284													3	5	---	---	---	---	PASS	A	37425591	A	A	37425591	3	1	134	1	0	0	0	0	1	0	0	0	658	507	18	3	666	3	ANKRD30A	10	37425591	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	22450714	37425591	98109156	117	48068										
ANKRD30A	91074	broad.mit.edu	37	chr10	37440998	37440998	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ccttttatagatccgatgttCccaccagaatccaaacaaaa	4	12	0	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr10:37440998C>G	uc001iza.1	+	12	1587	c.1488C>G	c.(1486-1488)TTC>TTG	p.F496L		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	552						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						ATCCGATGTTCCCACCAGAAT	0.284													6	31	---	---	---	---	PASS	G	37440998	G	G	37440998	3	3	134	1	0	0	0	0	1	0	0	0	658	854	30	2	1534	2	ANKRD30A	10	37440998	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	15407	37440998	98093749	118	48069										
EIF3A	8661	broad.mit.edu	37	chr10	120795713	120795713	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gaaagagctgggggaggaacTcgacgaggagggtcccgctc	18	9	0	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr10:120795713T>A	uc001ldu.2	-	22	4133	c.3987A>T	c.(3985-3987)CGA>CGT	p.R1329R	EIF3A_uc010qsu.1_Silent_p.R1295R	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	1329					formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		GGGGAGGAACTCGACGAGGAG	0.458													31	115	---	---	---	---	PASS	A	120795713	A	A	120795713	2	1	134	1	0	0	0	0	0	0	0	1	5012	1538	54	5		5	EIF3A	10	120795713	Silent	SNP	T	TCGA-60-2725-01A-01D-1267-08	83354715	120795713	14739034	119	48070										
KCNQ1	3784	broad.mit.edu	37	chr11	2604765	2604765	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctttgccatctccttctttgCgctcccagcggtaggtgccc	9	16	2	0	rs12720459		TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr11:2604765C>T	uc001lwn.2	+	7	1130	c.1022C>T	c.(1021-1023)GCG>GTG	p.A341V	KCNQ1_uc009ydp.1_Missense_Mutation_p.A125V|KCNQ1_uc001lwo.2_Missense_Mutation_p.A214V	NM_000218	NP_000209	P51787	KCNQ1_HUMAN	potassium voltage-gated channel, KQT-like	341	Helical; Name=Segment S6; (Potential).		A -> V (in LQT1).		blood circulation|membrane depolarization|muscle contraction|sensory perception of sound		delayed rectifier potassium channel activity|protein binding			ovary(1)	1		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)	TCCTTCTTTGCGCTCCCAGCG	0.637													5	233	---	---	---	---	PASS	T	2604765	T	T	2604765	3	4	134	1	0	0	0	0	1	0	0	0	8082	768	27	1	1057	1	KCNQ1	11	2604765	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08		2604765	132401751	120	48071										
OR52H1	390067	broad.mit.edu	37	chr11	5566079	5566079	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gcacagaggatgtgtgcgtaGgaaacagcaatgagaatcac	13	7	1	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr11:5566079G>C	uc010qzh.1	-	1	675	c.675C>G	c.(673-675)TCC>TCG	p.S225S	HBG2_uc001mak.1_Intron	NM_001005289	NP_001005289	Q8NGJ2	O52H1_HUMAN	olfactory receptor, family 52, subfamily H,	225	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;5.33e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGTGTGCGTAGGAAACAGCAA	0.507													18	81	---	---	---	---	PASS	C	5566079	C	C	5566079	2	2	134	1	0	0	0	0	0	0	0	1	11119	987	35	4		4	OR52H1	11	5566079	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	2961314	5566079	129440437	121	48072										
OR56A3	390083	broad.mit.edu	37	chr11	5969275	5969275	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cgagctgtgctgagactcaaGgcagagggtgccgtggcaaa	16	9	1	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr11:5969275G>A	uc010qzt.1	+	1	699	c.699G>A	c.(697-699)AAG>AAA	p.K233K		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	233	Cytoplasmic (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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGAGACTCAAGGCAGAGGGTG	0.517													37	331	---	---	---	---	PASS	A	5969275	A	A	5969275	2	1	134	1	0	0	0	0	0	0	0	1	11134	991	35	3		3	OR56A3	11	5969275	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	403196	5969275	129037241	122	48073										
KCNA4	3739	broad.mit.edu	37	chr11	30033616	30033616	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctgagtcctcttttcagggtCtcccaacaaagtctctggaa	8	12	4	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr11:30033616C>G	uc001msk.2	-	2	1762	c.610G>C	c.(610-612)GAC>CAC	p.D204H		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	204						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TTTTCAGGGTCTCCCAACAAA	0.448													20	135	---	---	---	---	PASS	G	30033616	G	G	30033616	3	3	134	1	0	0	0	0	1	0	0	0	8005	913	32	2	1355	2	KCNA4	11	30033616	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	24064341	30033616	104972900	123	48074										
OR5D18	219438	broad.mit.edu	37	chr11	55587239	55587239	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cactgtgctagggaatattgGgttgattgtgatcatcaaaa	11	5	2	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr11:55587239G>T	uc010rin.1	+	1	134	c.134G>T	c.(133-135)GGG>GTG	p.G45V		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				GGGAATATTGGGTTGATTGTG	0.453													64	283	---	---	---	---	PASS	T	55587239	T	T	55587239	3	4	134	1	0	0	0	0	1	0	0	0	11157	1232	43	3	136	3	OR5D18	11	55587239	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	25553623	55587239	79419277	124	48075										
OR5I1	10798	broad.mit.edu	37	chr11	55703110	55703110	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtgagtaaataaagaggagaGtcccttggtagatcgtcact	12	6	1	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr11:55703110G>C	uc010ris.1	-	1	767	c.767C>G	c.(766-768)ACT>AGT	p.T256S		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	256	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AAAGAGGAGAGTCCCTTGGTA	0.443													5	20	---	---	---	---	PASS	C	55703110	C	C	55703110	3	2	134	1	0	0	0	0	1	0	0	0	11164	1029	36	4	180	4	OR5I1	11	55703110	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	115871	55703110	79303406	125	48076										
SF3B2	10992	broad.mit.edu	37	chr11	65835483	65835483	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gccactgttggaggggccatGatgggatcaacccacattta	12	10	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr11:65835483G>T	uc001ogy.1	+	20	2437	c.2397G>T	c.(2395-2397)ATG>ATT	p.M799I	PACS1_uc001ogz.1_5'Flank|PACS1_uc001oha.1_5'Flank	NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	799					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						GAGGGGCCATGATGGGATCAA	0.512											OREG0021094	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	38	188	---	---	---	---	PASS	T	65835483	T	T	65835483	3	4	134	1	0	0	0	0	1	0	0	0	14151	1290	45	2	2475	2	SF3B2	11	65835483	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	10132373	65835483	69171033	126	48077										
MYEOV	26579	broad.mit.edu	37	chr11	69062870	69062870	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ccccagctctcccgataggtCtctgcactcgctgttgcctc	8	18	2	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr11:69062870C>G	uc001oov.2	+	2	499	c.49C>G	c.(49-51)CTC>GTC	p.L17V	MYEOV_uc001oox.2_Intron|MYEOV_uc009ysl.2_Missense_Mutation_p.L17V|MYEOV_uc001oow.2_5'UTR	NM_138768	NP_620123	Q96EZ4	MYEOV_HUMAN	myeloma overexpressed	17											0	all_lung(4;2.21e-19)|Lung NSC(4;6.13e-19)|Melanoma(5;0.00128)		LUSC - Lung squamous cell carcinoma(11;3.33e-11)|STAD - Stomach adenocarcinoma(18;0.00654)|LUAD - Lung adenocarcinoma(13;0.0713)	Kidney(183;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.00361)|LUSC - Lung squamous cell carcinoma(976;0.0153)		cccgataggtctctgcactcg	0.154													199	109	---	---	---	---	PASS	G	69062870	G	G	69062870	3	3	134	1	0	0	0	0	1	0	0	0	10025	913	32	2	51	2	MYEOV	11	69062870	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	3227387	69062870	65943646	127	48078										
PATE1	160065	broad.mit.edu	37	chr11	125618609	125618609	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtgctgcaggagccatgaccTgtgcaatgaagacctttaga	12	9	0	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr11:125618609T>A	uc001qct.2	+	5	374	c.362T>A	c.(361-363)CTG>CAG	p.L121Q	PATE1_uc009zbr.2_Missense_Mutation_p.L109Q	NM_138294	NP_612151	Q8WXA2	PATE1_HUMAN	expressed in prostate and testis precursor	121						extracellular region					0						AGCCATGACCTGTGCAATGAA	0.438													39	141	---	---	---	---	PASS	A	125618609	A	A	125618609	3	1	134	1	0	0	0	0	1	0	0	0	11473	1580	55	5	380	5	PATE1	11	125618609	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	56555739	125618609	9387907	128	48079										
CACNA1C	775	broad.mit.edu	37	chr12	2774140	2774140	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctacttcatcagcttctacaTgctctgtgccttcctggtaa	6	13	4	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr12:2774140T>A	uc009zdu.1	+	37	4839	c.4526T>A	c.(4525-4527)ATG>AAG	p.M1509K	CACNA1C_uc009zdv.1_Missense_Mutation_p.M1458K|CACNA1C_uc001qkb.2_Missense_Mutation_p.M1461K|CACNA1C_uc001qkc.2_Missense_Mutation_p.M1461K|CACNA1C_uc001qke.2_Missense_Mutation_p.M1450K|CACNA1C_uc001qkf.2_Missense_Mutation_p.M1450K|CACNA1C_uc001qjz.2_Missense_Mutation_p.M1461K|CACNA1C_uc001qkd.2_Missense_Mutation_p.M1461K|CACNA1C_uc001qkg.2_Missense_Mutation_p.M1448K|CACNA1C_uc009zdw.1_Missense_Mutation_p.M1483K|CACNA1C_uc001qkh.2_Missense_Mutation_p.M1450K|CACNA1C_uc001qkl.2_Missense_Mutation_p.M1509K|CACNA1C_uc001qkn.2_Missense_Mutation_p.M1461K|CACNA1C_uc001qko.2_Missense_Mutation_p.M1481K|CACNA1C_uc001qkp.2_Missense_Mutation_p.M1461K|CACNA1C_uc001qkr.2_Missense_Mutation_p.M1478K|CACNA1C_uc001qku.2_Missense_Mutation_p.M1461K|CACNA1C_uc001qkq.2_Missense_Mutation_p.M1489K|CACNA1C_uc001qks.2_Missense_Mutation_p.M1461K|CACNA1C_uc001qkt.2_Missense_Mutation_p.M1461K|CACNA1C_uc001qki.1_Missense_Mutation_p.M1197K|CACNA1C_uc001qkj.1_Missense_Mutation_p.M1197K|CACNA1C_uc001qkk.1_Missense_Mutation_p.M1197K|CACNA1C_uc001qkm.1_Missense_Mutation_p.M1186K|CACNA1C_uc010sea.1_Missense_Mutation_p.M152K	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1509	Phenylalkylamine binding (By similarity).|Dihydropyridine binding (By similarity).|Helical; Name=S6 of repeat IV; (Potential).|IV.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	AGCTTCTACATGCTCTGTGCC	0.567													5	60	---	---	---	---	PASS	A	2774140	A	A	2774140	3	1	134	1	0	0	0	0	1	0	0	0	2540	1464	51	5	4846	5	CACNA1C	12	2774140	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08		2774140	131077755	129	48080										
CLEC6A	93978	broad.mit.edu	37	chr12	8610514	8610514	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agaaaagaggctggttgtccCtgagactctggtctgtggct	14	8	2	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr12:8610514C>A	uc001qum.1	+	2	169	c.52C>A	c.(52-54)CTG>ATG	p.L18M		NM_001007033	NP_001007034	Q6EIG7	CLC6A_HUMAN	dectin-2	18	Cytoplasmic (Potential).				defense response to fungus|innate immune response|positive regulation of cytokine secretion|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	sugar binding			breast(1)	1	Lung SC(5;0.184)					CTGGTTGTCCCTGAGACTCTG	0.493													8	57	---	---	---	---	PASS	A	8610514	A	A	8610514	3	1	134	1	0	0	0	0	1	0	0	0	3520	680	24	3	58	3	CLEC6A	12	8610514	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	5836374	8610514	125241381	130	48081										
RIMKLB	57494	broad.mit.edu	37	chr12	8926333	8926333	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agctcccagggggcctgttcAacatgaaccagctgctagcc	11	14	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr12:8926333A>C	uc001quu.2	+	6	1365	c.1114A>C	c.(1114-1116)AAC>CAC	p.N372H	RIMKLB_uc009zgf.1_Intron|RIMKLB_uc001qux.2_Missense_Mutation_p.N372H|RIMKLB_uc010sgl.1_Missense_Mutation_p.N372H|RIMKLB_uc001quw.2_Intron	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	372					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						GGGCCTGTTCAACATGAACCA	0.483													25	104	---	---	---	---	PASS	C	8926333	C	C	8926333	3	2	134	1	0	0	0	0	1	0	0	0	13366	130	5	5	1132	5	RIMKLB	12	8926333	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	315819	8926333	124925562	131	48082										
SOX5	6660	broad.mit.edu	37	chr12	23696294	23696294	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctcgggattccctataaattCttgactctgagactccagca	7	12	2	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr12:23696294C>G	uc001rfw.2	-	13	1724	c.1622G>C	c.(1621-1623)AGA>ACA	p.R541T	SOX5_uc001rfx.2_Missense_Mutation_p.R528T|SOX5_uc001rfy.2_Missense_Mutation_p.R420T|SOX5_uc001rfv.2_Missense_Mutation_p.R155T|SOX5_uc010siv.1_Missense_Mutation_p.R528T|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.R493T	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	541					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						CCTATAAATTCTTGACTCTGA	0.438													8	232	---	---	---	---	PASS	G	23696294	G	G	23696294	3	3	134	1	0	0	0	0	1	0	0	0	14954	913	32	2	681	2	SOX5	12	23696294	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	14769961	23696294	110155601	132	48083										
BCDIN3D	144233	broad.mit.edu	37	chr12	50236666	50236666	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	acaccccacgtcgagccccaGaatcggcccgttctcgggac	10	18	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr12:50236666G>C	uc001rvh.2	-	1	247	c.205C>G	c.(205-207)CTG>GTG	p.L69V		NM_181708	NP_859059	Q7Z5W3	BN3D2_HUMAN	BCDIN3 domain containing	69	Bin3-type SAM.						methyltransferase activity			ovary(1)	1						TCGAGCCCCAGAATCGGCCCG	0.617													12	239	---	---	---	---	PASS	C	50236666	C	C	50236666	3	2	134	1	0	0	0	0	1	0	0	0	1357	933	33	2	681	2	BCDIN3D	12	50236666	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	26540372	50236666	83615229	133	48084										
OS9	10956	broad.mit.edu	37	chr12	58114586	58114586	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ggtgccgggagctgaagaggCccagaaggaacgccagcggc	18	11	0	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr12:58114586C>T	uc001spj.2	+	15	1957	c.1898C>T	c.(1897-1899)GCC>GTC	p.A633V	OS9_uc010srx.1_Missense_Mutation_p.A372V|OS9_uc001spk.2_Missense_Mutation_p.A618V|OS9_uc001spl.2_Missense_Mutation_p.A578V|OS9_uc001spm.2_Missense_Mutation_p.A563V|OS9_uc001spn.2_Missense_Mutation_p.A579V|OS9_uc010sry.1_Missense_Mutation_p.A546V|OS9_uc010srz.1_Missense_Mutation_p.A504V	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	633					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)			GCTGAAGAGGCCCAGAAGGAA	0.657													21	70	---	---	---	---	PASS	T	58114586	T	T	58114586	3	4	134	1	0	0	0	0	1	0	0	0	11272	739	26	3	1956	3	OS9	12	58114586	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	7877920	58114586	75737309	134	48085										
TMTC3	160418	broad.mit.edu	37	chr12	88586608	88586608	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tatagtaatgcaagaatcagGtatgttttctcaaaatattt	6	4	2	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr12:88586608G>T	uc001tau.2	+	13	2153	c.1933_splice	c.e13+1	p.G645_splice		NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat							integral to membrane	binding			skin(1)	1						CAAGAATCAGGTATGTTTTCT	0.279													7	43	---	---	---	---	PASS	T	88586608	T	T	88586608	5	4	134	1	0	0	0	0	0	0	1	0	16259	1275	44	3	1980	3	TMTC3	12	88586608	Splice_Site	SNP	G	TCGA-60-2725-01A-01D-1267-08	30472022	88586608	45265287	135	48086										
NEDD1	121441	broad.mit.edu	37	chr12	97328810	97328810	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tcactactgggcagtgtttcGgataatggaatagtaactct	10	7	2	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr12:97328810G>T	uc001teu.3	+	7	885	c.546G>T	c.(544-546)TCG>TCT	p.S182S	NEDD1_uc001tev.3_Silent_p.S182S|NEDD1_uc010svc.1_Silent_p.S93S|NEDD1_uc001tew.2_Silent_p.S189S|NEDD1_uc001tex.2_Silent_p.S93S	NM_152905	NP_690869	Q8NHV4	NEDD1_HUMAN	neural precursor cell expressed, developmentally	182	WD 5.				cell division|G2/M transition of mitotic cell cycle|mitosis	cytosol					0						GCAGTGTTTCGGATAATGGAA	0.363													4	319	---	---	---	---	PASS	T	97328810	T	T	97328810	2	4	134	1	0	0	0	0	0	0	0	1	10309	1103	39	1		1	NEDD1	12	97328810	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	8742202	97328810	36523085	136	48087										
KIAA0564	23078	broad.mit.edu	37	chr13	42245198	42245198	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tcccatatcaacagtaacaaCaccgcttttgtcccactcag	4	15	2	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr13:42245198C>T	uc001uyj.2	-	37	4565	c.4495G>A	c.(4495-4497)GTT>ATT	p.V1499I		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1499						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		ACAGTAACAACACCGCTTTTG	0.478													55	255	---	---	---	---	PASS	T	42245198	T	T	42245198	3	4	134	1	0	0	0	0	1	0	0	0	8185	478	17	3	1258	3	KIAA0564	13	42245198	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08		42245198	72924680	137	48088										
ERCC5	2073	broad.mit.edu	37	chr13	103513987	103513987	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	catccgaaggcagtatgaagAtgaagggggctttctgaagg	15	6	1	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr13:103513987A>G	uc001vpw.2	+	7	1246	c.803A>G	c.(802-804)GAT>GGT	p.D268G	ERCC5_uc001vpu.1_Missense_Mutation_p.D722G|ERCC5_uc010tjb.1_Missense_Mutation_p.D268G|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Missense_Mutation_p.D100G	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	268					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					CAGTATGAAGATGAAGGGGGC	0.403			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				43	157	---	---	---	---	PASS	G	103513987	G	G	103513987	3	3	134	1	0	0	0	0	1	0	0	0	5216	333	12	5	829	5	ERCC5	13	103513987	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	61268789	103513987	11655891	138	48089										
RALGAPA1	253959	broad.mit.edu	37	chr14	36133969	36133969	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gaacttgtgcttctactcttGgtgcctatgtatcacatttt	7	9	3	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr14:36133969G>A	uc001wti.2	-	26	4080	c.3689C>T	c.(3688-3690)CCA>CTA	p.P1230L	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Missense_Mutation_p.P1230L|RALGAPA1_uc010tpv.1_Missense_Mutation_p.P1243L|RALGAPA1_uc010tpw.1_Missense_Mutation_p.P1277L	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1230					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						TTCTACTCTTGGTGCCTATGT	0.353													8	73	---	---	---	---	PASS	A	36133969	A	A	36133969	3	1	134	1	0	0	0	0	1	0	0	0	13013	1348	47	3	2634	3	RALGAPA1	14	36133969	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08		36133969	71215571	139	48090										
MDGA2	161357	broad.mit.edu	37	chr14	47389251	47389251	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cggtatgcaacaatccgatcCactgcatcaggattcatctg	8	12	3	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr14:47389251C>T	uc001wwj.3	-	10	2191	c.1995G>A	c.(1993-1995)GTG>GTA	p.V665V	MDGA2_uc001wwi.3_Silent_p.V436V|MDGA2_uc010ani.2_Silent_p.V225V	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	665					spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CAATCCGATCCACTGCATCAG	0.428													12	73	---	---	---	---	PASS	T	47389251	T	T	47389251	2	4	134	1	0	0	0	0	0	0	0	1	9407	581	21	3		3	MDGA2	14	47389251	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	11255282	47389251	59960289	140	48091										
DCAF5	8816	broad.mit.edu	37	chr14	69521877	69521877	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gagcagacagacgctgctggCgagaggctgcatcctcacac	13	13	1	3	rs150859516		TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr14:69521877C>A	uc001xkp.2	-	9	1745	c.1526G>T	c.(1525-1527)CGC>CTC	p.R509L	DCAF5_uc001xkq.2_Missense_Mutation_p.R508L	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	509						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						ACGCTGCTGGCGAGAGGCTGC	0.592													15	27	---	---	---	---	PASS	A	69521877	A	A	69521877	3	1	134	1	0	0	0	0	1	0	0	0	4273	768	27	1	1306	1	DCAF5	14	69521877	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	22132626	69521877	37827663	141	48092										
C14orf68	283600	broad.mit.edu	37	chr14	100795213	100795213	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cctgcccagagcccaagtacCgcgggccactgcactgcctg	11	18	0	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr14:100795213C>T	uc001yhc.2	+	5	551	c.478C>T	c.(478-480)CGC>TGC	p.R160C	C14orf68_uc001yhd.2_Missense_Mutation_p.R14C	NM_207117	NP_997000	Q6Q0C1	S2547_HUMAN	chromosome 14 open reading frame 68	160	Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0		Melanoma(154;0.152)				GCCCAAGTACCGCGGGCCACT	0.701													4	31	---	---	---	---	PASS	T	100795213	T	T	100795213	3	4	134	1	0	0	0	0	1	0	0	0	1778	652	23	1	496	1	C14orf68	14	100795213	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	31273336	100795213	6554327	142	48093										
RYR3	6263	broad.mit.edu	37	chr15	34105732	34105732	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gttatcaaagcaacggaaacGggcagtggtggcctgtttca	13	8	2	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr15:34105732G>T	uc001zhi.2	+	74	10524	c.10454G>T	c.(10453-10455)CGG>CTG	p.R3485L	RYR3_uc010bar.2_Missense_Mutation_p.R3480L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3485					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CAACGGAAACGGGCAGTGGTG	0.522													25	190	---	---	---	---	PASS	T	34105732	T	T	34105732	3	4	134	1	0	0	0	0	1	0	0	0	13770	1116	39	1	10748	1	RYR3	15	34105732	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08		34105732	68425660	143	48094										
SHC4	399694	broad.mit.edu	37	chr15	49255141	49255141	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctgtacttggccctgtgcagCatcccggggtgcccgaagag	14	13	0	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr15:49255141C>A	uc001zxb.1	-	1	501	c.72G>T	c.(70-72)ATG>ATT	p.M24I		NM_203349	NP_976224	Q6S5L8	SHC4_HUMAN	rai-like protein	24	CH2.				intracellular signal transduction	cell junction|postsynaptic membrane				ovary(3)|pancreas(2)	5		all_lung(180;0.00466)		all cancers(107;9.4e-08)|GBM - Glioblastoma multiforme(94;5.94e-07)		CCCTGTGCAGCATCCCGGGGT	0.622													26	154	---	---	---	---	PASS	A	49255141	A	A	49255141	3	1	134	1	0	0	0	0	1	0	0	0	14273	710	25	3	1868	3	SHC4	15	49255141	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	15149409	49255141	53276251	144	48095										
LINGO1	84894	broad.mit.edu	37	chr15	77907356	77907356	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agccctcaatggtgctgatgGggttgtaggagaggttgagg	18	5	1	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr15:77907356G>A	uc002bct.1	-	2	945	c.893C>T	c.(892-894)CCC>CTC	p.P298L	LINGO1_uc002bcu.1_Missense_Mutation_p.P292L	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	298	Extracellular (Potential).|LRR 9.			P -> R (in Ref. 5; AAH68558).	negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						GGTGCTGATGGGGTTGTAGGA	0.617													11	82	---	---	---	---	PASS	A	77907356	A	A	77907356	3	1	134	1	0	0	0	0	1	0	0	0	8814	1232	43	3	973	3	LINGO1	15	77907356	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	28652215	77907356	24624036	145	48096										
ACSBG1	23205	broad.mit.edu	37	chr15	78473261	78473261	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtgggctccacctcccgcagCgtgttcaccaggctcccctg	11	18	1	0	rs147846122		TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr15:78473261C>A	uc002bdh.2	-	9	1145	c.1089G>T	c.(1087-1089)ACG>ACT	p.T363T	ACSBG1_uc010umw.1_Silent_p.T359T|ACSBG1_uc010umx.1_Silent_p.T121T|ACSBG1_uc010umy.1_Silent_p.T256T	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	363					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						CCTCCCGCAGCGTGTTCACCA	0.652													3	107	---	---	---	---	PASS	A	78473261	A	A	78473261	2	1	134	1	0	0	0	0	0	0	0	1	173	755	27	1		1	ACSBG1	15	78473261	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	565905	78473261	24058131	146	48097										
ACSBG1	23205	broad.mit.edu	37	chr15	78526837	78526837	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtatccagctccagaattgcGtggcatctgcctcgggcttc	11	13	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr15:78526837G>T	uc002bdh.2	-	1	63	c.7C>A	c.(7-9)CGC>AGC	p.R3S	ACSBG1_uc010umw.1_Missense_Mutation_p.R3S|ACSBG1_uc010umx.1_5'UTR|ACSBG1_uc010umy.1_5'UTR	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	3					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						CCAGAATTGCGTGGCATCTGC	0.632													15	99	---	---	---	---	PASS	T	78526837	T	T	78526837	3	4	134	1	0	0	0	0	1	0	0	0	173	1145	40	1	2223	1	ACSBG1	15	78526837	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	53576	78526837	24004555	147	48098										
OR4F6	390648	broad.mit.edu	37	chr15	102346435	102346435	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gacctgctgttctgtggcccTaatgaattagatagtttctt	9	8	2	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr15:102346435T>C	uc010utr.1	+	1	513	c.513T>C	c.(511-513)CCT>CCC	p.P171P		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	171	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			TCTGTGGCCCTAATGAATTAG	0.383													4	520	---	---	---	---	PASS	C	102346435	C	C	102346435	2	2	134	1	0	0	0	0	0	0	0	1	11066	1509	53	5		5	OR4F6	15	102346435	Silent	SNP	T	TCGA-60-2725-01A-01D-1267-08	23819598	102346435	184957	148	48099										
TSC2	7249	broad.mit.edu	37	chr16	2138231	2138231	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cctgcctacgtccccagatgGcctcacaggtgcatcatagc	9	16	2	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr16:2138231G>C	uc002con.2	+	41	5270	c.5164G>C	c.(5164-5166)GCC>CCC	p.A1722P	TSC2_uc010bsd.2_Missense_Mutation_p.A1699P|TSC2_uc002coo.2_Missense_Mutation_p.A1655P|TSC2_uc010uvv.1_Missense_Mutation_p.A1619P|TSC2_uc010uvw.1_Missense_Mutation_p.A1607P|TSC2_uc002cop.2_Missense_Mutation_p.A1478P|TSC2_uc002coq.2_Missense_Mutation_p.A497P|TSC2_uc002cor.2_Missense_Mutation_p.A423P	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	1722	Rap-GAP.				cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				TCCCCAGATGGCCTCACAGGT	0.647			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				8	135	---	---	---	---	PASS	C	2138231	C	C	2138231	3	2	134	1	0	0	0	0	1	0	0	0	16603	1203	42	4	5322	4	TSC2	16	2138231	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08		2138231	88216522	149	48100										
ABCC12	94160	broad.mit.edu	37	chr16	48158195	48158195	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	acatattcccaagatcttccCctgccagagaaacagagatg	7	12	1	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr16:48158195C>A	uc002efc.1	-	10	1862	c.1516G>T	c.(1516-1518)GGG>TGG	p.G506W	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.G506W	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	506	ABC transporter 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				AAGATCTTCCCCTGCCAGAGA	0.537													66	256	---	---	---	---	PASS	A	48158195	A	A	48158195	3	1	134	1	0	0	0	0	1	0	0	0	52	637	22	3	2643	3	ABCC12	16	48158195	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	46019964	48158195	42196558	150	48101										
CYLD	1540	broad.mit.edu	37	chr16	50825602	50825602	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtaacctgaaatttgcagagGttagtgatactcacctgtgg	11	7	1	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr16:50825602G>T	uc002egp.1	+	15	2656	c.2241_splice	c.e15+1	p.E747_splice	CYLD_uc010cbs.1_Splice_Site_p.E744_splice|CYLD_uc002egq.1_Splice_Site_p.E744_splice|CYLD_uc002egr.1_Splice_Site_p.E744_splice	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD						cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				ATTTGCAGAGGTTAGTGATAC	0.343			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				20	103	---	---	---	---	PASS	T	50825602	T	T	50825602	5	4	134	1	0	0	0	0	0	0	1	0	4143	1275	44	3	2292	3	CYLD	16	50825602	Splice_Site	SNP	G	TCGA-60-2725-01A-01D-1267-08	2667407	50825602	39529151	151	48102										
SALL1	6299	broad.mit.edu	37	chr16	51175941	51175941	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	actaattgatttttagtacaGttcttcttgtggagcagaag	9	5	2	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr16:51175941G>A	uc010vgs.1	-	2	223	c.192C>T	c.(190-192)AAC>AAT	p.N64N	SALL1_uc010vgr.1_5'UTR|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	64					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TTTTAGTACAGTTCTTCTTGT	0.478													70	304	---	---	---	---	PASS	A	51175941	A	A	51175941	2	1	134	1	0	0	0	0	0	0	0	1	13810	1020	36	3		3	SALL1	16	51175941	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	350339	51175941	39178812	152	48103										
OR3A2	4995	broad.mit.edu	37	chr17	3181486	3181486	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtgaggtgggagccacacgtGgagaaggccttctttcggcc	16	10	1	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr17:3181486G>T	uc002fvg.2	-	1	783	c.744C>A	c.(742-744)TCC>TCA	p.S248S		NM_002551	NP_002542	P47893	OR3A2_HUMAN	olfactory receptor, family 3, subfamily A,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						AGCCACACGTGGAGAAGGCCT	0.522													17	69	---	---	---	---	PASS	T	3181486	T	T	3181486	2	4	134	1	0	0	0	0	0	0	0	1	11038	1335	47	3		3	OR3A2	17	3181486	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08		3181486	78013724	153	48104										
UBB	7314	broad.mit.edu	37	chr17	16285542	16285542	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	aatgtgaaggccaagatccaGgataaagaaggcatccctcc	10	10	0	3	rs17052364		TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr17:16285542G>A	uc002gpx.2	+	2	459	c.321G>A	c.(319-321)CAG>CAA	p.Q107Q	UBB_uc010vwe.1_Intron	NM_018955	NP_061828	P0CG47	UBB_HUMAN	ubiquitin B precursor	107	Ubiquitin-like 2.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)		CCAAGATCCAGGATAAAGAAG	0.537													4	174	---	---	---	---	PASS	A	16285542	A	A	16285542	2	1	134	1	0	0	0	0	0	0	0	1	16838	991	35	3		3	UBB	17	16285542	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08	13104056	16285542	64909668	154	48105										
PPP1R1B	84152	broad.mit.edu	37	chr17	37790145	37790145	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctctgtgccagctgtgcagcGcattgctgagtctcacctgc	11	14	2	1	rs139360619		TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr17:37790145G>A	uc002hrz.2	+	5	718	c.251G>A	c.(250-252)CGC>CAC	p.R84H	PPP1R1B_uc002hsa.2_Missense_Mutation_p.R95H|PPP1R1B_uc010cvx.2_Missense_Mutation_p.R51H|PPP1R1B_uc002hsb.2_Missense_Mutation_p.R48H|PPP1R1B_uc002hsc.2_Missense_Mutation_p.R48H	NM_032192	NP_115568	Q9UD71	PPR1B_HUMAN	protein phosphatase 1, regulatory (inhibitor)	84					signal transduction	cytosol	protein kinase inhibitor activity|protein phosphatase inhibitor activity				0	Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;1.04e-44)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GCTGTGCAGCGCATTGCTGAG	0.577													14	377	---	---	---	---	PASS	A	37790145	A	A	37790145	3	1	134	1	0	0	0	0	1	0	0	0	12368	1087	38	1	269	1	PPP1R1B	17	37790145	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	21504603	37790145	43405065	155	48106										
CCR10	2826	broad.mit.edu	37	chr17	40832121	40832121	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cttcccgctgcccatcctggCtgaagagcagcgcaggcagc	12	16	0	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr17:40832121C>G	uc002iax.3	-	2	543	c.539G>C	c.(538-540)AGC>ACC	p.S180T	CNTNAP1_uc002iay.2_5'Flank|CNTNAP1_uc010wgs.1_5'Flank	NM_016602	NP_057686	P46092	CCR10_HUMAN	CC chemokine receptor 10	180	Extracellular (Potential).					integral to plasma membrane					0		Breast(137;0.000153)		BRCA - Breast invasive adenocarcinoma(366;0.14)		CCCATCCTGGCTGAAGAGCAG	0.716													3	19	---	---	---	---	PASS	G	40832121	G	G	40832121	3	3	134	1	0	0	0	0	1	0	0	0	2940	797	28	4	553	4	CCR10	17	40832121	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	3041976	40832121	40363089	156	48107										
MYST2	11143	broad.mit.edu	37	chr17	47904775	47904775	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tccctcaggacctgattgatGagtggatagccaaagaggcc	12	10	1	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr17:47904775G>A	uc002ipm.2	+	15	1873	c.1747G>A	c.(1747-1749)GAG>AAG	p.E583K	MYST2_uc010wma.1_Missense_Mutation_p.E444K|MYST2_uc010wmb.1_Missense_Mutation_p.E473K|MYST2_uc010wmc.1_Missense_Mutation_p.E414K|MYST2_uc010wmd.1_Missense_Mutation_p.E427K|MYST2_uc010wme.1_Missense_Mutation_p.E397K|MYST2_uc010wmf.1_Missense_Mutation_p.E248K|MYST2_uc010wmg.1_Missense_Mutation_p.E138K	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2	583					DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						CCTGATTGATGAGTGGATAGC	0.443													7	61	---	---	---	---	PASS	A	47904775	A	A	47904775	3	1	134	1	0	0	0	0	1	0	0	0	10103	1291	45	2	1805	2	MYST2	17	47904775	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	7072654	47904775	33290435	157	48108										
LUC7L3	51747	broad.mit.edu	37	chr17	48824020	48824020	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	aagtcatataagcacaggagCaaaagtcgggacagagaaca	11	7	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr17:48824020C>T	uc002isr.2	+	9	1212	c.1095C>T	c.(1093-1095)AGC>AGT	p.S365S	LUC7L3_uc010wmw.1_Silent_p.S289S|LUC7L3_uc002isq.2_Silent_p.S365S|LUC7L3_uc002iss.2_Silent_p.S365S	NM_006107	NP_006098	O95232	LC7L3_HUMAN	LUC7-like 3	365	Arg/Ser-rich.				apoptosis|mRNA processing|response to stress|RNA splicing	focal adhesion|nuclear speck	DNA binding|mRNA binding|protein binding				0						AGCACAGGAGCAAAAGTCGGG	0.413													6	120	---	---	---	---	PASS	T	48824020	T	T	48824020	2	4	134	1	0	0	0	0	0	0	0	1	9084	709	25	3		3	LUC7L3	17	48824020	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	919245	48824020	32371190	158	48109										
KIAA0195	9772	broad.mit.edu	37	chr17	73494306	73494306	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctcaagttcagcctcaccatCagctcctgcctcatctgctt	5	17	6	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr17:73494306C>A	uc002jnz.3	+	28	3815	c.3540C>A	c.(3538-3540)ATC>ATA	p.I1180I	KIAA0195_uc010wsa.1_Silent_p.I1190I|KIAA0195_uc010wsb.1_Silent_p.I820I|KIAA0195_uc002job.3_Silent_p.I188I	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	1180	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCCTCACCATCAGCTCCTGCC	0.617													8	169	---	---	---	---	PASS	A	73494306	A	A	73494306	2	1	134	1	0	0	0	0	0	0	0	1	8160	816	29	2		2	KIAA0195	17	73494306	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	24670286	73494306	7700904	159	48110										
EPB41L3	23136	broad.mit.edu	37	chr18	5397278	5397278	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	agcatccccgctgtctcccgCcgagtaagaagcatccccac	8	18	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr18:5397278C>T	uc002kmt.1	-	18	2706	c.2620G>A	c.(2620-2622)GCG>ACG	p.A874T	EPB41L3_uc010wzh.1_Missense_Mutation_p.A705T|EPB41L3_uc002kmu.1_Missense_Mutation_p.A652T|EPB41L3_uc010dkq.1_Missense_Mutation_p.A543T|EPB41L3_uc002kms.1_Missense_Mutation_p.A109T|EPB41L3_uc010wze.1_Missense_Mutation_p.A179T|EPB41L3_uc010wzf.1_Missense_Mutation_p.A171T|EPB41L3_uc010wzg.1_Missense_Mutation_p.A146T|EPB41L3_uc010dkr.2_Missense_Mutation_p.A266T	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	874	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						CTGTCTCCCGCCGAGTAAGAA	0.622													32	121	---	---	---	---	PASS	T	5397278	T	T	5397278	3	4	134	1	0	0	0	0	1	0	0	0	5154	739	26	3	663	3	EPB41L3	18	5397278	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08		5397278	72679970	160	48111										
SETBP1	26040	broad.mit.edu	37	chr18	42532153	42532153	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	aaagcctgcaaaaccgcgatGacctccagtttctggcagac	9	13	1	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr18:42532153G>A	uc010dni.2	+	4	3144	c.2848G>A	c.(2848-2850)GAC>AAC	p.D950N		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	950						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		AAACCGCGATGACCTCCAGTT	0.507									Schinzel-Giedion_syndrome				36	154	---	---	---	---	PASS	A	42532153	A	A	42532153	3	1	134	1	0	0	0	0	1	0	0	0	14129	1290	45	2	3051	2	SETBP1	18	42532153	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	37134875	42532153	35545095	161	48112										
WDR7	23335	broad.mit.edu	37	chr18	54398770	54398770	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tgctgctcttaaaaatatggCccatcataagctacaaaccc	5	12	2	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr18:54398770C>G	uc002lgk.1	+	14	2142	c.1931C>G	c.(1930-1932)GCC>GGC	p.A644G	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.A644G	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	644										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		AAAAATATGGCCCATCATAAG	0.443													28	168	---	---	---	---	PASS	G	54398770	G	G	54398770	3	3	134	1	0	0	0	0	1	0	0	0	17317	739	26	4	1981	4	WDR7	18	54398770	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	11866617	54398770	23678478	162	48113										
ALPK2	115701	broad.mit.edu	37	chr18	56191230	56191230	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gttcttgatgcagcagtaatAgagtccctggtccttcggac	11	10	1	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr18:56191230A>T	uc002lhj.3	-	7	5780	c.5566T>A	c.(5566-5568)TAT>AAT	p.Y1856N		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1856	Ig-like 2.						ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						CAGCAGTAATAGAGTCCCTGG	0.468													11	58	---	---	---	---	PASS	T	56191230	T	T	56191230	3	4	134	1	0	0	0	0	1	0	0	0	545	420	15	5	974	5	ALPK2	18	56191230	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	1792460	56191230	21886018	163	48114										
THEG	51298	broad.mit.edu	37	chr19	371313	371313	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gaccgaggaatgggccagacAggagtcgtcctgggggaggt	19	8	0	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr19:371313A>T	uc002lol.2	-	6	684	c.645T>A	c.(643-645)CCT>CCA	p.P215P	THEG_uc002lom.2_Silent_p.P191P	NM_016585	NP_057669	Q9P2T0	THEG_HUMAN	Theg homolog isoform 1	215					cell differentiation|chaperone-mediated protein complex assembly|multicellular organismal development|spermatogenesis	nucleus	protein binding			ovary(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGGCCAGACAGGAGTCGTCC	0.488													50	235	---	---	---	---	PASS	T	371313	T	T	371313	2	4	134	1	0	0	0	0	0	0	0	1	15854	175	7	5		5	THEG	19	371313	Silent	SNP	A	TCGA-60-2725-01A-01D-1267-08		371313	58757670	164	48115										
OR2Z1	284383	broad.mit.edu	37	chr19	8842130	8842130	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctgctcctcgcacatcacggTagtggggctcttttatggtg	12	11	2	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr19:8842130T>C	uc010xkg.1	+	1	740	c.740T>C	c.(739-741)GTA>GCA	p.V247A		NM_001004699	NP_001004699	Q8NG97	OR2Z1_HUMAN	olfactory receptor, family 2, subfamily Z,	247	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2						CACATCACGGTAGTGGGGCTC	0.567													24	128	---	---	---	---	PASS	C	8842130	C	C	8842130	3	2	134	1	0	0	0	0	1	0	0	0	11036	1638	57	5	742	5	OR2Z1	19	8842130	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	8470817	8842130	50286853	165	48116										
MUC16	94025	broad.mit.edu	37	chr19	9046738	9046738	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gaactagtgacctgtgaggtCactacccctggtatactggg	12	10	1	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr19:9046738C>A	uc002mkp.2	-	5	35097	c.34893G>T	c.(34891-34893)GTG>GTT	p.V11631V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11633	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCTGTGAGGTCACTACCCCTG	0.527													31	208	---	---	---	---	PASS	A	9046738	A	A	9046738	2	1	134	1	0	0	0	0	0	0	0	1	9973	813	29	2		2	MUC16	19	9046738	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	204608	9046738	50082245	166	48117										
OR7E24	26648	broad.mit.edu	37	chr19	9362030	9362030	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	caagatgattgtggacatgcAaactcacagcagagtcatct	9	9	3	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr19:9362030A>C	uc002mlb.1	+	1	311	c.311A>C	c.(310-312)CAA>CCA	p.Q104P		NM_001079935	NP_001073404	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E,	104	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GTGGACATGCAAACTCACAGC	0.507													4	129	---	---	---	---	PASS	C	9362030	C	C	9362030	3	2	134	1	0	0	0	0	1	0	0	0	11221	130	5	5	313	5	OR7E24	19	9362030	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	315292	9362030	49766953	167	48118										
KRI1	65095	broad.mit.edu	37	chr19	10671094	10671094	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ccgctccccttcatccaactCagggtcgttccagtattcct	6	17	2	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr19:10671094C>G	uc002moy.1	-	9	721	c.712G>C	c.(712-714)GAG>CAG	p.E238Q	KRI1_uc002mow.1_5'UTR|KRI1_uc002mox.1_Missense_Mutation_p.E234Q	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	238	Glu-rich.									ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			TCATCCAACTCAGGGTCGTTC	0.423													6	151	---	---	---	---	PASS	G	10671094	G	G	10671094	3	3	134	1	0	0	0	0	1	0	0	0	8444	835	29	2	1461	2	KRI1	19	10671094	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	1309064	10671094	48457889	168	48119										
GCDH	2639	broad.mit.edu	37	chr19	13006857	13006857	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cacagagcccaacagcggaaGtgaccccagcagcatggaga	12	13	0	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr19:13006857G>C	uc002mvq.2	+	7	634	c.557G>C	c.(556-558)AGT>ACT	p.S186T	GCDH_uc010xms.1_Missense_Mutation_p.S153T|GCDH_uc002mvp.2_Missense_Mutation_p.S186T|GCDH_uc010xmt.1_Missense_Mutation_p.V32L|GCDH_uc010xmu.1_Missense_Mutation_p.S142T	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a	186	FAD.	Substrate; via carbonyl oxygen.			lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						AACAGCGGAAGTGACCCCAGC	0.592													20	226	---	---	---	---	PASS	C	13006857	C	C	13006857	3	2	134	1	0	0	0	0	1	0	0	0	6287	1029	36	4	579	4	GCDH	19	13006857	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	2335763	13006857	46122126	169	48120										
ZNF100	163227	broad.mit.edu	37	chr19	21910571	21910571	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtatgaaagacttttgcagaTggatcacattgaaatatgtt	9	4	1	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr19:21910571T>A	uc002nqi.2	-	5	742	c.543A>T	c.(541-543)CCA>CCT	p.P181P	ZNF100_uc002nqh.2_Silent_p.P117P	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	181	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTTTGCAGATGGATCACATT	0.303													38	179	---	---	---	---	PASS	A	21910571	A	A	21910571	2	1	134	1	0	0	0	0	0	0	0	1	17710	1451	51	5		5	ZNF100	19	21910571	Silent	SNP	T	TCGA-60-2725-01A-01D-1267-08	8903714	21910571	37218412	170	48121										
WDR62	284403	broad.mit.edu	37	chr19	36549714	36549714	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	aaggtgcttggcatcacagcCcagaacagcagtggcctaac	11	12	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr19:36549714C>A	uc002odc.2	+	2	301	c.210C>A	c.(208-210)GCC>GCA	p.A70A	WDR62_uc002odd.2_Silent_p.A70A|WDR62_uc010eer.2_Silent_p.A70A|WDR62_uc002odb.2_Silent_p.A70A	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	70					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GCATCACAGCCCAGAACAGCA	0.587													4	70	---	---	---	---	PASS	A	36549714	A	A	36549714	2	1	134	1	0	0	0	0	0	0	0	1	17310	610	22	3		3	WDR62	19	36549714	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	14639143	36549714	22579269	171	48122										
SIGLEC9	27180	broad.mit.edu	37	chr19	51628484	51628484	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	acccagctcgggcagtgtggGaggagactcgggaccgattc	16	11	0	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr19:51628484G>C	uc002pvu.2	+	1	320	c.253G>C	c.(253-255)GAG>CAG	p.E85Q	SIGLEC9_uc010yct.1_Missense_Mutation_p.E85Q	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	85	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		GGCAGTGTGGGAGGAGACTCG	0.567													20	189	---	---	---	---	PASS	C	51628484	C	C	51628484	3	2	134	1	0	0	0	0	1	0	0	0	14315	1175	41	2	255	2	SIGLEC9	19	51628484	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	15078770	51628484	7500499	172	48123										
SIGLEC14	100049587	broad.mit.edu	37	chr19	52148782	52148782	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	atggcgaggttctgtggagcAtctgggatagaaagatacag	15	5	2	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr19:52148782A>G	uc002pxf.3	-	4	822	c.702T>C	c.(700-702)TAT>TAC	p.Y234Y		NM_001098612	NP_001092082	Q08ET2	SIG14_HUMAN	sialic acid binding Ig-like lectin 14 precursor	234	Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane	protein binding|sugar binding			ovary(1)	1		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000965)|OV - Ovarian serous cystadenocarcinoma(262;0.0195)		TCTGTGGAGCATCTGGGATAG	0.567													10	180	---	---	---	---	PASS	G	52148782	G	G	52148782	2	3	134	1	0	0	0	0	0	0	0	1	14309	231	8	5		5	SIGLEC14	19	52148782	Silent	SNP	A	TCGA-60-2725-01A-01D-1267-08	520298	52148782	6980201	173	48124										
ZNF649	65251	broad.mit.edu	37	chr19	52394814	52394814	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ttctcttatgctcagtgagcTgagacttcttgaggaaagct	10	8	3	3			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr19:52394814T>C	uc002pxy.2	-	5	843	c.575A>G	c.(574-576)CAG>CGG	p.Q192R	ZNF577_uc010ydf.1_5'Flank	NM_023074	NP_075562	Q9BS31	ZN649_HUMAN	zinc finger protein 649	192	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00152)|OV - Ovarian serous cystadenocarcinoma(262;0.0185)		CTCAGTGAGCTGAGACTTCTT	0.448													4	510	---	---	---	---	PASS	C	52394814	C	C	52394814	3	2	134	1	0	0	0	0	1	0	0	0	18061	1580	55	5	946	5	ZNF649	19	52394814	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08	246032	52394814	6734169	174	48125										
USP29	57663	broad.mit.edu	37	chr19	57640252	57640252	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	acattgtaaaaaaagacaaaGtcacctgcgtttaactttga	6	7	1	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr19:57640252G>T	uc002qny.2	+	4	565	c.209G>T	c.(208-210)AGT>ATT	p.S70I		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	70					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AAAAGACAAAGTCACCTGCGT	0.338													4	97	---	---	---	---	PASS	T	57640252	T	T	57640252	3	4	134	1	0	0	0	0	1	0	0	0	17056	1029	36	3	211	3	USP29	19	57640252	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	5245438	57640252	1488731	175	48126										
SLC13A3	64849	broad.mit.edu	37	chr20	45192146	45192146	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gcaaaggagcagccgactgtGcccggaatcatcagatacag	12	11	2	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr20:45192146G>C	uc002xsf.1	-	12	1577	c.1539C>G	c.(1537-1539)GGC>GGG	p.G513G	SLC13A3_uc010ghn.1_Silent_p.G482G|SLC13A3_uc010zxw.1_Silent_p.G463G|SLC13A3_uc002xsg.1_Silent_p.G466G|SLC13A3_uc010gho.1_Silent_p.G431G|SLC13A3_uc010zxx.1_Silent_p.G415G|SLC13A3_uc002xse.1_Silent_p.G4G|SLC13A3_uc010ghm.1_Silent_p.G100G|SLC13A3_uc010zxv.1_Silent_p.G98G	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	513	Helical; (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	AGCCGACTGTGCCCGGAATCA	0.607													3	45	---	---	---	---	PASS	C	45192146	C	C	45192146	2	2	134	1	0	0	0	0	0	0	0	1	14393	1306	46	4		4	SLC13A3	20	45192146	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08		45192146	17833374	176	48127										
ZBP1	81030	broad.mit.edu	37	chr20	56190586	56190586	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	accccgttgttggctgaactGagggccaggggtctctggaa	15	10	1	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr20:56190586G>C	uc002xyo.2	-	3	591	c.310C>G	c.(310-312)CAG>GAG	p.Q104E	ZBP1_uc010gjm.2_Missense_Mutation_p.Q104E|ZBP1_uc002xyp.2_Missense_Mutation_p.Q29E|ZBP1_uc010zzn.1_Missense_Mutation_p.Q104E	NM_030776	NP_110403	Q9H171	ZBP1_HUMAN	Z-DNA binding protein 1 isoform a	104	DRADA 2.					cytoplasm|nucleus	double-stranded RNA adenosine deaminase activity|left-handed Z-DNA binding|RNA binding			ovary(2)	2	Lung NSC(12;0.000545)|all_lung(29;0.00195)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;7.87e-13)|Epithelial(14;3.26e-09)|all cancers(14;3.62e-08)			TGGCTGAACTGAGGGCCAGGG	0.582													31	135	---	---	---	---	PASS	C	56190586	C	C	56190586	3	2	134	1	0	0	0	0	1	0	0	0	17518	1299	45	2	1080	2	ZBP1	20	56190586	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	10998440	56190586	6834934	177	48128										
CDH4	1002	broad.mit.edu	37	chr20	60419830	60419830	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	cattgactccatgtccggccGgatgtacgtcacaaggccca	10	14	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr20:60419830G>T	uc002ybn.1	+	5	697	c.683G>T	c.(682-684)CGG>CTG	p.R228L	CDH4_uc002ybp.1_Missense_Mutation_p.R154L	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	228	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			ATGTCCGGCCGGATGTACGTC	0.632													18	60	---	---	---	---	PASS	T	60419830	T	T	60419830	3	4	134	1	0	0	0	0	1	0	0	0	3112	1116	39	1	701	1	CDH4	20	60419830	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	4229244	60419830	2605690	178	48129										
NTSR1	4923	broad.mit.edu	37	chr20	61386218	61386218	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tggcagggtccaggccctgcGgcacggcgtgcgcgtcctac	16	15	0	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr20:61386218G>A	uc002ydf.2	+	2	1267	c.896G>A	c.(895-897)CGG>CAG	p.R299Q		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1	299	Cytoplasmic (Potential).					endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			CAGGCCCTGCGGCACGGCGTG	0.697													7	25	---	---	---	---	PASS	A	61386218	A	A	61386218	3	1	134	1	0	0	0	0	1	0	0	0	10710	1116	39	1	902	1	NTSR1	20	61386218	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	966388	61386218	1639302	179	48130										
BAGE2	85319	broad.mit.edu	37	chr21	11097586	11097586	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctccaacctccagctcaccaCaggggactcctccttcatca	5	19	3	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr21:11097586C>G	uc002yit.1	-	2	284	c.76G>C	c.(76-78)GTG>CTG	p.V26L	BAGE_uc002yix.2_RNA	NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		cagctcaccacaggggactcc	0.124													6	106	---	---	---	---	PASS	G	11097586	G	G	11097586	3	3	134	1	0	0	0	0	1	0	0	0	1292	478	17	4	265	4	BAGE2	21	11097586	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08		11097586	37032309	180	48131										
TRPM2	7226	broad.mit.edu	37	chr21	45821654	45821654	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtcttccacctgaacatcctCtcctacttcgccttcctctg	4	18	3	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr21:45821654C>A	uc002zet.1	+	17	2625	c.2412C>A	c.(2410-2412)CTC>CTA	p.L804L	TRPM2_uc002zeu.1_Silent_p.L804L|TRPM2_uc002zew.1_Silent_p.L804L|TRPM2_uc010gpt.1_Silent_p.L804L|TRPM2_uc002zex.1_Silent_p.L590L|TRPM2_uc002zey.1_Silent_p.L317L	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	804	Helical; (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TGAACATCCTCTCCTACTTCG	0.642													52	737	---	---	---	---	PASS	A	45821654	A	A	45821654	2	1	134	1	0	0	0	0	0	0	0	1	16583	900	32	2		2	TRPM2	21	45821654	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	34724068	45821654	2308241	181	48132										
CECR1	51816	broad.mit.edu	37	chr22	17690370	17690370	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tccttcatctcagcgattttGagcgtcatgagcctctcatt	7	12	4	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr22:17690370G>C	uc002zmk.1	-	1	410	c.198C>G	c.(196-198)CTC>CTG	p.L66L	CECR1_uc010gqu.1_Silent_p.L66L|CECR1_uc011agi.1_Silent_p.L24L|CECR1_uc011agj.1_Silent_p.L24L	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	66	Dimerization.				adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				CAGCGATTTTGAGCGTCATGA	0.532													18	108	---	---	---	---	PASS	C	17690370	C	C	17690370	2	2	134	1	0	0	0	0	0	0	0	1	3205	1277	45	2		2	CECR1	22	17690370	Silent	SNP	G	TCGA-60-2725-01A-01D-1267-08		17690370	33614196	182	48133										
SMCR7L	54471	broad.mit.edu	37	chr22	39908337	39908337	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	ctgcaggagaaacttcttacTtactaccggaaccgggcagc	10	12	1	1			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr22:39908337T>G	uc003axx.2	+	5	921	c.423T>G	c.(421-423)ACT>ACG	p.T141T	SMCR7L_uc003axw.2_Silent_p.T141T|SMCR7L_uc010gxz.1_5'UTR|SMCR7L_uc003axy.2_5'UTR	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	141						integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					AACTTCTTACTTACTACCGGA	0.612													43	78	---	---	---	---	PASS	G	39908337	G	G	39908337	2	3	134	1	0	0	0	0	0	0	0	1	14791	1596	56	5		5	SMCR7L	22	39908337	Silent	SNP	T	TCGA-60-2725-01A-01D-1267-08	22217967	39908337	11396229	183	48134										
ST13	6767	broad.mit.edu	37	chr22	41222545	41222545	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tatttatcagaaggacattaCgcttgacctccaaatttggc	7	9	1	2	rs12373984		TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr22:41222545C>A	uc003aze.2	-	12	1250	c.1107G>T	c.(1105-1107)GCG>GCT	p.A369A	ST13_uc011aow.1_Silent_p.A359A	NM_003932	NP_003923	P50502	F10A1_HUMAN	heat shock 70kD protein binding protein	369							protein binding, bridging				0						AAGGACATTACGCTTGACCTC	0.413													156	469	---	---	---	---	PASS	A	41222545	A	A	41222545	2	1	134	1	0	0	0	0	0	0	0	1	15209	523	19	1		1	ST13	22	41222545	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	1314208	41222545	10082021	184	48135										
PRR5-ARHGAP8	553158	broad.mit.edu	37	chr22	45258351	45258351	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	acctggggagcacggcctggCaccatgggaacaggggagca	17	11	0	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chr22:45258351C>T	uc003bfd.2	+	17	2080	c.1808C>T	c.(1807-1809)GCA>GTA	p.A603V	PRR5-ARHGAP8_uc003bfc.2_Missense_Mutation_p.A524V|PRR5-ARHGAP8_uc011aqi.1_Missense_Mutation_p.A515V|PRR5-ARHGAP8_uc011aqj.1_Missense_Mutation_p.A446V|ARHGAP8_uc010gzv.2_3'UTR|ARHGAP8_uc003bfj.2_Missense_Mutation_p.A424V|ARHGAP8_uc003bfk.2_Missense_Mutation_p.A393V|ARHGAP8_uc003bfl.2_RNA	NM_181335	NP_851852			Rho GTPase activating protein 8 isoform 2											skin(2)	2						CACGGCCTGGCACCATGGGAA	0.617													8	135	---	---	---	---	PASS	T	45258351	T	T	45258351	3	4	134	1	0	0	0	0	1	0	0	0	12601	710	25	3	1602	3	PRR5-ARHGAP8	22	45258351	Missense_Mutation	SNP	C	TCGA-60-2725-01A-01D-1267-08	4035806	45258351	6046215	185	48136										
ARHGAP6	395	broad.mit.edu	37	chrX	11204358	11204358	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	acagacaagtctacttaccaTgtttttctaggtgctgacag	8	9	2	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chrX:11204358T>C	uc004cup.1	-	5	2144	c.1271A>G	c.(1270-1272)CAT>CGT	p.H424R	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cur.1_Missense_Mutation_p.H424R|ARHGAP6_uc004cum.1_Missense_Mutation_p.H221R|ARHGAP6_uc004cun.1_Missense_Mutation_p.H244R|ARHGAP6_uc010neb.1_Missense_Mutation_p.H246R|ARHGAP6_uc011mif.1_Missense_Mutation_p.H221R	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	424	Rho-GAP.				actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						CTACTTACCATGTTTTTCTAG	0.393													61	79	---	---	---	---	PASS	C	11204358	C	C	11204358	3	2	134	1	0	0	0	0	1	0	0	0	887	1464	51	5	1811	5	ARHGAP6	23	11204358	Missense_Mutation	SNP	T	TCGA-60-2725-01A-01D-1267-08		11204358	144066202	186	48137										
KIAA2022	340533	broad.mit.edu	37	chrX	73959296	73959296	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	aaacacaggtaaaacccaaaAggttgtttctgcttttagga	8	7	1	0			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chrX:73959296A>T	uc004eby.2	-	4	5112	c.4495T>A	c.(4495-4497)TTT>ATT	p.F1499I		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1499					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						AAAACCCAAAAGGTTGTTTCT	0.358													18	27	---	---	---	---	PASS	T	73959296	T	T	73959296	3	4	134	1	0	0	0	0	1	0	0	0	8269	72	3	5	59	5	KIAA2022	23	73959296	Missense_Mutation	SNP	A	TCGA-60-2725-01A-01D-1267-08	62754938	73959296	81311264	187	48138										
MAGEE2	139599	broad.mit.edu	37	chrX	75004435	75004435	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	tgactaaattgtaggtgtcaGcctgaggatcaataactctc	9	8	3	2	rs143829521	byFrequency	TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chrX:75004435G>T	uc004ecj.1	-	1	637	c.452C>A	c.(451-453)GCT>GAT	p.A151D		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	151	MAGE 1.									ovary(1)|skin(1)	2						GTAGGTGTCAGCCTGAGGATC	0.517													9	34	---	---	---	---	PASS	T	75004435	T	T	75004435	3	4	134	1	0	0	0	0	1	0	0	0	9186	971	34	3	1123	3	MAGEE2	23	75004435	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	1045139	75004435	80266125	188	48139										
TBX22	50945	broad.mit.edu	37	chrX	79278709	79278709	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gaaaagattccatgacatcgGgactgagatgatcattacta	9	7	1	4			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chrX:79278709G>C	uc010nmg.1	+	3	460	c.326G>C	c.(325-327)GGG>GCG	p.G109A	TBX22_uc004edi.1_5'UTR|TBX22_uc004edj.1_Missense_Mutation_p.G109A	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	109	T-box.				multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						CATGACATCGGGACTGAGATG	0.468													22	54	---	---	---	---	PASS	C	79278709	C	C	79278709	3	2	134	1	0	0	0	0	1	0	0	0	15655	1232	43	4	332	4	TBX22	23	79278709	Missense_Mutation	SNP	G	TCGA-60-2725-01A-01D-1267-08	4274274	79278709	75991851	189	48140										
F9	2158	broad.mit.edu	37	chrX	138643921	138643921	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0860215053763441	16	0.0835546233678799	1.52732405726961	3.17397030651341	0.329763148728666	0.000645543108221572	0.0142826412694023	0	gtaagtggctggggaagagtCttccacaaagggagatcagc	15	7	2	2			TCGA-60-2725-01A-01D-1267-08	TCGA-60-2725-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f3ed705b-e5aa-4756-9794-e4b85303693a	ce952445-af56-4361-b414-5fea59352da2	g.chrX:138643921C>A	uc004fas.1	+	8	1106	c.1077C>A	c.(1075-1077)GTC>GTA	p.V359V	F9_uc004fat.1_Silent_p.V321V	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	359	Peptidase S1.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	GGGGAAGAGTCTTCCACAAAG	0.428													44	67	---	---	---	---	PASS	A	138643921	A	A	138643921	2	1	134	1	0	0	0	0	0	0	0	1	5351	900	32	2		2	F9	23	138643921	Silent	SNP	C	TCGA-60-2725-01A-01D-1267-08	59365212	138643921	16626639	190	48141										
TAS1R1	80835	broad.mit.edu	37	chr1	6639480	6639480	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gcgtctacgacggcaagtacCtgcctgcggccaacatgatg	12	13	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:6639480C>T	uc001ant.2	+	6	2362	c.2362C>T	c.(2362-2364)CTG>TTG	p.L788L	TAS1R1_uc001anu.2_Silent_p.L534L|TAS1R1_uc001anv.2_Silent_p.T319T|TAS1R1_uc001anw.2_3'UTR|ZBTB48_uc009vmc.1_5'Flank|ZBTB48_uc001anx.2_5'Flank|ZBTB48_uc009vmd.1_5'Flank	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	788	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)		CGGCAAGTACCTGCCTGCGGC	0.582													11	55	---	---	---	---	PASS	T	6639480	T	T	6639480	2	4	135	1	0	0	0	0	0	0	0	1	15559	680	24	3		3	TAS1R1	1	6639480	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08		6639480	242611141	1	48142										
UBE4B	10277	broad.mit.edu	37	chr1	10165736	10165736	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aaatctcttgctaaacactgGctccaatccaggaacaagcc	6	13	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:10165736G>A	uc001aqs.3	+	6	1456	c.743G>A	c.(742-744)GGC>GAC	p.G248D	UBE4B_uc001aqr.3_Missense_Mutation_p.G248D|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_5'UTR	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	248					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		CTAAACACTGGCTCCAATCCA	0.507													35	113	---	---	---	---	PASS	A	10165736	A	A	10165736	3	1	135	1	0	0	0	0	1	0	0	0	16880	1203	42	3	765	3	UBE4B	1	10165736	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	3526256	10165736	239084885	2	48143										
EXOSC10	5394	broad.mit.edu	37	chr1	11137693	11137693	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cggtccgctcttcttcactcCggctgcaacttcagactaag	8	15	4	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:11137693C>A	uc001asa.2	-	15	1815	c.1765G>T	c.(1765-1767)GGA>TGA	p.G589*	EXOSC10_uc001asb.2_Nonsense_Mutation_p.G589*	NM_001001998	NP_001001998	Q01780	EXOSX_HUMAN	exosome component 10 isoform 1	589					CUT catabolic process|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear polyadenylation-dependent rRNA catabolic process|nuclear retention of unspliced pre-mRNA at the site of transcription|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasm|nuclear exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5' exonuclease activity|exoribonuclease activity|identical protein binding|nucleotide binding|protein serine/threonine kinase activity|RNA binding			upper_aerodigestive_tract(1)	1	Ovarian(185;0.249)	Lung NSC(185;1.74e-05)|all_lung(284;2.05e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.18e-07)|COAD - Colon adenocarcinoma(227;8.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000315)|Kidney(185;0.000832)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|READ - Rectum adenocarcinoma(331;0.0526)|STAD - Stomach adenocarcinoma(313;0.202)		TTCTTCACTCCGGCTGCAACT	0.507													16	55	---	---	---	---	PASS	A	11137693	A	A	11137693	4	1	135	1	0	0	0	0	0	1	0	0	5314	661	23	1	936	1	EXOSC10	1	11137693	Nonsense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	971957	11137693	238112928	3	48144										
HSPG2	3339	broad.mit.edu	37	chr1	22176642	22176642	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtctgcccctcggccacttgCgaagacgatgactcgatccg	11	15	1	2	rs141160393		TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:22176642C>T	uc001bfj.2	-	57	7378	c.7338G>A	c.(7336-7338)TCG>TCA	p.S2446S	HSPG2_uc009vqd.2_Silent_p.S2447S	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2446	Ig-like C2-type 10.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CGGCCACTTGCGAAGACGATG	0.662													32	96	---	---	---	---	PASS	T	22176642	T	T	22176642	2	4	135	1	0	0	0	0	0	0	0	1	7430	755	27	1		1	HSPG2	1	22176642	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	11038949	22176642	227073979	4	48145										
CLIC4	25932	broad.mit.edu	37	chr1	25124287	25124287	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccttttcccagaggctcttcAtgattctttggctcaaagga	8	11	4	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:25124287A>G	uc001bjo.2	+	2	412	c.127A>G	c.(127-129)ATG>GTG	p.M43V	CLIC4_uc001bjn.2_RNA|CLIC4_uc001bjp.1_Missense_Mutation_p.M23V	NM_013943	NP_039234	Q9Y696	CLIC4_HUMAN	chloride intracellular channel 4	43	Required for insertion into the membrane (Probable).|Helical; Note=After insertion into the membrane; (Potential).				cellular response to calcium ion|establishment or maintenance of apical/basal cell polarity|keratinocyte differentiation|negative regulation of cell migration|regulation of cytoskeleton organization	actin cytoskeleton|apical part of cell|cell surface|cell-cell junction|centrosome|chloride channel complex|cytoplasmic vesicle membrane|cytosol|microvillus|midbody|mitochondrion|nuclear matrix|perinuclear region of cytoplasm|soluble fraction	voltage-gated chloride channel activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000778)|all_lung(284;0.00106)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0479)|OV - Ovarian serous cystadenocarcinoma(117;1.06e-24)|Colorectal(126;1.03e-07)|COAD - Colon adenocarcinoma(152;4.93e-06)|STAD - Stomach adenocarcinoma(196;0.000418)|GBM - Glioblastoma multiforme(114;0.000451)|BRCA - Breast invasive adenocarcinoma(304;0.00215)|KIRC - Kidney renal clear cell carcinoma(1967;0.00216)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.18)		GAGGCTCTTCATGATTCTTTG	0.408													24	84	---	---	---	---	PASS	G	25124287	G	G	25124287	3	3	135	1	0	0	0	0	1	0	0	0	3528	217	8	5	133	5	CLIC4	1	25124287	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	2947645	25124287	224126334	5	48146										
ZSWIM5	57643	broad.mit.edu	37	chr1	45500116	45500116	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtgggatgtgtcgcctgcagAagctgagttttctaaaacag	13	7	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:45500116A>T	uc001cnd.2	-	11	2545	c.2317T>A	c.(2317-2319)TCT>ACT	p.S773T		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	773							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TCGCCTGCAGAAGCTGAGTTT	0.537													34	129	---	---	---	---	PASS	T	45500116	T	T	45500116	3	4	135	1	0	0	0	0	1	0	0	0	18241	246	9	5	1256	5	ZSWIM5	1	45500116	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	20375829	45500116	203750505	6	48147										
LRRC42	115353	broad.mit.edu	37	chr1	54433427	54433427	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agaaactccagttctataaaGagaaagccccagattgccat	7	10	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:54433427G>C	uc001cwj.1	+	8	1302	c.1102G>C	c.(1102-1104)GAG>CAG	p.E368Q	LRRC42_uc001cwl.1_Missense_Mutation_p.E368Q|LRRC42_uc001cwk.1_Missense_Mutation_p.E368Q|LRRC42_uc009vzm.1_Missense_Mutation_p.E364Q	NM_052940	NP_443172	Q9Y546	LRC42_HUMAN	leucine rich repeat containing 42	368											0						GTTCTATAAAGAGAAAGCCCC	0.507													23	65	---	---	---	---	PASS	C	54433427	C	C	54433427	3	2	135	1	0	0	0	0	1	0	0	0	9000	943	33	2	1128	2	LRRC42	1	54433427	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	8933311	54433427	194817194	7	48148										
ELTD1	64123	broad.mit.edu	37	chr1	79383662	79383662	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	caatgagatagagatgtatgCcttcaatgcacatccatgca	8	9	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:79383662C>G	uc001diq.3	-	11	1691	c.1535G>C	c.(1534-1536)GGC>GCC	p.G512A		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	512	Helical; Name=3; (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)		GAGATGTATGCCTTCAATGCA	0.378													42	173	---	---	---	---	PASS	G	79383662	G	G	79383662	3	3	135	1	0	0	0	0	1	0	0	0	5084	739	26	4	557	4	ELTD1	1	79383662	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	24950235	79383662	169866959	8	48149										
BRDT	676	broad.mit.edu	37	chr1	92430225	92430225	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aacccaatggatttaaatacAattaagaagcgcttggagaa	8	6	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:92430225A>T	uc001dok.3	+	3	583	c.234A>T	c.(232-234)ACA>ACT	p.T78T	BRDT_uc001dol.3_Silent_p.T78T|BRDT_uc010osz.1_Silent_p.T78T|BRDT_uc009wdf.2_Silent_p.T5T|BRDT_uc010ota.1_Intron|BRDT_uc010otb.1_Intron|BRDT_uc001dom.3_Silent_p.T78T	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	78	Bromo 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		ATTTAAATACAATTAAGAAGC	0.264													20	59	---	---	---	---	PASS	T	92430225	T	T	92430225	2	4	135	1	0	0	0	0	0	0	0	1	1508	117	5	5		5	BRDT	1	92430225	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	13046563	92430225	156820396	9	48150										
COL11A1	1301	broad.mit.edu	37	chr1	103481245	103481245	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggtaacatcaacatagtaccAggaggaccaggtagaccatc	10	10	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:103481245A>T	uc001dul.2	-	12	1785	c.1467T>A	c.(1465-1467)CCT>CCA	p.P489P	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Silent_p.P501P|COL11A1_uc001dun.2_Silent_p.P450P|COL11A1_uc009weh.2_Silent_p.P373P	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	489	Triple-helical region (interrupted).				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		ACATAGTACCAGGAGGACCAG	0.353													4	20	---	---	---	---	PASS	T	103481245	T	T	103481245	2	4	135	1	0	0	0	0	0	0	0	1	3667	175	7	5		5	COL11A1	1	103481245	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	11051020	103481245	145769376	10	48151										
KCNC4	3749	broad.mit.edu	37	chr1	110765934	110765934	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccaaggcggcccgcgacgtgCtgggcttcctgcgcgtggtg	17	14	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:110765934C>T	uc001dzh.2	+	2	1084	c.1027C>T	c.(1027-1029)CTG>TTG	p.L343L	KCNC4_uc001dzf.2_Silent_p.L343L|KCNC4_uc009wfr.2_Silent_p.L343L|KCNC4_uc001dzg.2_Silent_p.L343L|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	343					synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		all_cancers(81;9.88e-06)|all_epithelial(167;3.23e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0238)|all cancers(265;0.0693)|Epithelial(280;0.0748)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.135)		CCGCGACGTGCTGGGCTTCCT	0.642													9	43	---	---	---	---	PASS	T	110765934	T	T	110765934	2	4	135	1	0	0	0	0	0	0	0	1	8017	796	28	3		3	KCNC4	1	110765934	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	7284689	110765934	138484687	11	48152										
KCND3	3752	broad.mit.edu	37	chr1	112318854	112318854	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggtgatctgggatgttttgcAgtttggtctcagtccgtcgt	14	7	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:112318854A>T	uc001ebu.1	-	8	2293	c.1813T>A	c.(1813-1815)TGC>AGC	p.C605S	KCND3_uc001ebv.1_Missense_Mutation_p.C586S	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	605	Cytoplasmic (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		GATGTTTTGCAGTTTGGTCTC	0.577													18	56	---	---	---	---	PASS	T	112318854	T	T	112318854	3	4	135	1	0	0	0	0	1	0	0	0	8020	188	7	5	158	5	KCND3	1	112318854	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	1552920	112318854	136931767	12	48153										
OR10K2	391107	broad.mit.edu	37	chr1	158390635	158390635	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gaagatgacctctctcaccaCagtctcattgacccgctcca	6	16	3	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:158390635C>G	uc010pii.1	-	1	22	c.22G>C	c.(22-24)GTG>CTG	p.V8L		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TCTCTCACCACAGTCTCATTG	0.502													16	77	---	---	---	---	PASS	G	158390635	G	G	158390635	3	3	135	1	0	0	0	0	1	0	0	0	10914	478	17	4	918	4	OR10K2	1	158390635	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	46071781	158390635	90859986	13	48154										
PYHIN1	149628	broad.mit.edu	37	chr1	158908929	158908929	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aggagtaagatgtccaaagaGcagactcggccttcctgctc	11	11	0	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:158908929G>A	uc001ftb.2	+	4	716	c.471G>A	c.(469-471)GAG>GAA	p.E157E	PYHIN1_uc001fta.3_Silent_p.E157E|PYHIN1_uc001ftc.2_Silent_p.E148E|PYHIN1_uc001ftd.2_Silent_p.E157E|PYHIN1_uc001fte.2_Silent_p.E148E	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	157					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					TGTCCAAAGAGCAGACTCGGC	0.478													26	99	---	---	---	---	PASS	A	158908929	A	A	158908929	2	1	135	1	0	0	0	0	0	0	0	1	12865	962	34	3		3	PYHIN1	1	158908929	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	518294	158908929	90341692	14	48155										
POGK	57645	broad.mit.edu	37	chr1	166818285	166818285	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttggcctccgtctgcctcggGatatcacagagctgcccgag	12	14	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:166818285G>T	uc001gdt.1	+	5	589	c.469G>T	c.(469-471)GAT>TAT	p.D157Y	POGK_uc010ple.1_Missense_Mutation_p.D72Y|POGK_uc010plf.1_Missense_Mutation_p.D39Y	NM_017542	NP_060012	Q9P215	POGK_HUMAN	pogo transposable element with KRAB domain	157					multicellular organismal development|regulation of transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						TCTGCCTCGGGATATCACAGA	0.557													59	83	---	---	---	---	PASS	T	166818285	T	T	166818285	3	4	135	1	0	0	0	0	1	0	0	0	12185	1174	41	2	483	2	POGK	1	166818285	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	7909356	166818285	82432336	15	48156										
LHX4	89884	broad.mit.edu	37	chr1	180199735	180199735	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggagatgctaggtgtgccgaTgcaacgtaagacacccccct	12	12	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:180199735T>G	uc001goe.1	+	1	294	c.71T>G	c.(70-72)ATG>AGG	p.M24R		NM_033343	NP_203129	Q969G2	LHX4_HUMAN	LIM homeobox protein 4	24						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GGTGTGCCGATGCAACGTAAG	0.637													21	37	---	---	---	---	PASS	G	180199735	G	G	180199735	3	3	135	1	0	0	0	0	1	0	0	0	8773	1464	51	5	73	5	LHX4	1	180199735	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	13381450	180199735	69050886	16	48157										
TPR	7175	broad.mit.edu	37	chr1	186330008	186330008	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	atctttggattgctccacctCtagaagatgatcttgtattg	8	8	3	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:186330008C>A	uc001grv.2	-	10	1285	c.988G>T	c.(988-990)GAG>TAG	p.E330*	TPR_uc010pop.1_Nonsense_Mutation_p.E406*	NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	330	Potential.				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)		TGCTCCACCTCTAGAAGATGA	0.323			T	NTRK1	papillary thyroid								32	77	---	---	---	---	PASS	A	186330008	A	A	186330008	4	1	135	1	0	0	0	0	0	1	0	0	16413	922	32	2	6271	2	TPR	1	186330008	Nonsense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	6130273	186330008	62920613	17	48158										
FAM5C	339479	broad.mit.edu	37	chr1	190423959	190423959	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agcaatgaagactcagtgctAtccactcccatagagccatc	7	13	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:190423959A>T	uc001gse.1	-	2	294	c.62T>A	c.(61-63)ATA>AAA	p.I21K	FAM5C_uc010pot.1_5'UTR	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	21						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					ACTCAGTGCTATCCACTCCCA	0.512													38	36	---	---	---	---	PASS	T	190423959	T	T	190423959	3	4	135	1	0	0	0	0	1	0	0	0	5594	449	16	5	2266	5	FAM5C	1	190423959	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	4093951	190423959	58826662	18	48159										
CFHR5	81494	broad.mit.edu	37	chr1	196965150	196965150	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcattttattacattttcttAgaacaagtgaaaacatgtgg	6	5	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:196965150A>T	uc001gts.3	+	6	919	c.791_splice	c.e6-2	p.E264_splice		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor						complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						ACATTTTCTTAGAACAAGTGA	0.343													47	191	---	---	---	---	PASS	T	196965150	T	T	196965150	5	4	135	1	0	0	0	0	0	0	1	0	3288	434	15	5	811	5	CFHR5	1	196965150	Splice_Site	SNP	A	TCGA-60-2726-01A-01D-1522-08	6541191	196965150	52285471	19	48160										
F13B	2165	broad.mit.edu	37	chr1	197021778	197021778	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttttaccttttctagtacatAaaggatatttcacttctcct	3	9	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:197021778A>G	uc001gtt.1	-	9	1585	c.1541T>C	c.(1540-1542)TTA>TCA	p.L514S		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	514	Sushi 8.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TCTAGTACATAAAGGATATTT	0.318													20	107	---	---	---	---	PASS	G	197021778	G	G	197021778	3	3	135	1	0	0	0	0	1	0	0	0	5341	372	13	5	460	5	F13B	1	197021778	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	56628	197021778	52228843	20	48161										
DENND1B	163486	broad.mit.edu	37	chr1	197522157	197522157	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtaacttgtctttacctccaCaaaagccacctgaagtgatc	6	12	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:197522157C>A	uc001guf.3	-	16	1573	c.1235G>T	c.(1234-1236)TGT>TTT	p.C412F	DENND1B_uc010ppe.1_Missense_Mutation_p.C392F|DENND1B_uc010ppf.1_Intron|DENND1B_uc001gue.3_Missense_Mutation_p.C382F	NM_144977	NP_659414	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 2	412						clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						TTTACCTCCACAAAAGCCACC	0.343													41	105	---	---	---	---	PASS	A	197522157	A	A	197522157	3	1	135	1	0	0	0	0	1	0	0	0	4427	478	17	3	1165	3	DENND1B	1	197522157	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	500379	197522157	51728464	21	48162										
LGR6	59352	broad.mit.edu	37	chr1	202273705	202273705	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aggaccctgacccgcgcaggCatccggctgctcccatcggg	13	17	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:202273705C>A	uc001gxu.2	+	11	1017	c.1017C>A	c.(1015-1017)GGC>GGA	p.G339G	LGR6_uc001gxv.2_Silent_p.G287G|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Silent_p.G200G|LGR6_uc009xac.1_RNA	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	339	LRR 11.|Extracellular (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						CCCGCGCAGGCATCCGGCTGC	0.642													14	70	---	---	---	---	PASS	A	202273705	A	A	202273705	2	1	135	1	0	0	0	0	0	0	0	1	8758	697	25	3		3	LGR6	1	202273705	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	4751548	202273705	46976916	22	48163										
SYT14	255928	broad.mit.edu	37	chr1	210273513	210273513	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcacagacatcccaacatatAacaggacaggtggcaactca	7	12	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:210273513A>T	uc009xcv.2	+	6	943	c.871A>T	c.(871-873)AAC>TAC	p.N291Y	SYT14_uc001hhs.3_Missense_Mutation_p.N336Y|SYT14_uc001hht.3_Missense_Mutation_p.N291Y|SYT14_uc001hhu.3_RNA|SYT14_uc010psn.1_Missense_Mutation_p.N336Y|SYT14_uc010pso.1_Missense_Mutation_p.N253Y	NM_153262	NP_694994	Q8NB59	SYT14_HUMAN	synaptotagmin XIV isoform 4	291	Cytoplasmic (Potential).|C2 1.					integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)		CCCAACATATAACAGGACAGG	0.443													32	133	---	---	---	---	PASS	T	210273513	T	T	210273513	3	4	135	1	0	0	0	0	1	0	0	0	15467	362	13	5	1032	5	SYT14	1	210273513	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	7999808	210273513	38977108	23	48164										
NVL	4931	broad.mit.edu	37	chr1	224473776	224473776	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggaggaccagcaaggaggacCccagctggagtcaccaatcc	13	13	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:224473776C>A	uc001hok.2	-	15	1894	c.1851G>T	c.(1849-1851)GGG>GGT	p.G617G	NVL_uc001hol.2_Silent_p.G511G|NVL_uc010pvd.1_Silent_p.G526G|NVL_uc010pve.1_Silent_p.G428G|NVL_uc010pvf.1_RNA	NM_002533	NP_002524	O15381	NVL_HUMAN	nuclear VCP-like isoform 1	617						aggresome|cytoplasm|nucleolus	ATP binding|nucleoside-triphosphatase activity			skin(2)	2				GBM - Glioblastoma multiforme(131;0.00501)		CAAGGAGGACCCCAGCTGGAG	0.453													33	98	---	---	---	---	PASS	A	224473776	A	A	224473776	2	1	135	1	0	0	0	0	0	0	0	1	10780	610	22	3		3	NVL	1	224473776	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	14200263	224473776	24776845	24	48165										
NVL	4931	broad.mit.edu	37	chr1	224475586	224475586	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttttggcagagggttggactGaggatagagcaacaatgaaa	14	4	0	4			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:224475586G>C	uc001hok.2	-	14	1728	c.1685C>G	c.(1684-1686)TCA>TGA	p.S562*	NVL_uc001hol.2_Nonsense_Mutation_p.S456*|NVL_uc010pvd.1_Nonsense_Mutation_p.S471*|NVL_uc010pve.1_Nonsense_Mutation_p.S373*|NVL_uc010pvf.1_RNA	NM_002533	NP_002524	O15381	NVL_HUMAN	nuclear VCP-like isoform 1	562						aggresome|cytoplasm|nucleolus	ATP binding|nucleoside-triphosphatase activity			skin(2)	2				GBM - Glioblastoma multiforme(131;0.00501)		GGGTTGGACTGAGGATAGAGC	0.498													25	114	---	---	---	---	PASS	C	224475586	C	C	224475586	4	2	135	1	0	0	0	0	0	1	0	0	10780	1294	45	2	925	2	NVL	1	224475586	Nonsense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	1810	224475586	24775035	25	48166										
WDR64	128025	broad.mit.edu	37	chr1	241912978	241912978	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agcccaagaaaaacaccagcAgctggtcctggccttggagc	11	13	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:241912978A>T	uc001hzf.1	+	8	1007	c.854A>T	c.(853-855)CAG>CTG	p.Q285L	WDR64_uc001hzg.1_Missense_Mutation_p.Q31L	NM_144625	NP_653226	B1ANS9	WDR64_HUMAN	WD repeat domain 64	565	WD 8.									skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			AAACACCAGCAGCTGGTCCTG	0.522													52	92	---	---	---	---	PASS	T	241912978	T	T	241912978	3	4	135	1	0	0	0	0	1	0	0	0	17312	188	7	5	1744	5	WDR64	1	241912978	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	17437392	241912978	7337643	26	48167										
OR2B11	127623	broad.mit.edu	37	chr1	247614764	247614764	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agttgttcagcacctgccgcCcgcagaatggcaattgcacc	10	14	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:247614764C>A	uc010pyx.1	-	1	521	c.521G>T	c.(520-522)GGG>GTG	p.G174V		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	174	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CACCTGCCGCCCGCAGAATGG	0.597													16	47	---	---	---	---	PASS	A	247614764	A	A	247614764	3	1	135	1	0	0	0	0	1	0	0	0	10988	623	22	3	435	3	OR2B11	1	247614764	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	5701786	247614764	1635857	27	48168										
OR2W5	441932	broad.mit.edu	37	chr1	247655105	247655105	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggcgtgattgcagccgcggtGctgaggatgaagtcagcagc	17	9	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:247655105G>A	uc001icz.1	+	1	676	c.676G>A	c.(676-678)GCT>ACT	p.A226T		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	226					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CAGCCGCGGTGCTGAGGATGA	0.567													37	172	---	---	---	---	PASS	A	247655105	A	A	247655105	3	1	135	1	0	0	0	0	1	0	0	0	11034	1319	46	3	678	3	OR2W5	1	247655105	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	40341	247655105	1595516	28	48169										
OR2W5	441932	broad.mit.edu	37	chr1	247655166	247655166	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	acacctgctcttctcacctcAcagtggtctctctcttctac	4	17	6	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:247655166A>T	uc001icz.1	+	1	737	c.737A>T	c.(736-738)CAC>CTC	p.H246L		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	246					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TTCTCACCTCACAGTGGTCTC	0.542													35	173	---	---	---	---	PASS	T	247655166	T	T	247655166	3	4	135	1	0	0	0	0	1	0	0	0	11034	159	6	5	739	5	OR2W5	1	247655166	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	61	247655166	1595455	29	48170										
OR1C1	26188	broad.mit.edu	37	chr1	247920976	247920976	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aaacaacaccaccactgacaGgtggcagctgcaggtggaaa	11	11	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:247920976G>T	uc010pza.1	-	1	733	c.733C>A	c.(733-735)CTG>ATG	p.L245M		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			ACCACTGACAGGTGGCAGCTG	0.507													22	40	---	---	---	---	PASS	T	247920976	T	T	247920976	3	4	135	1	0	0	0	0	1	0	0	0	10952	991	35	3	213	3	OR1C1	1	247920976	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	265810	247920976	1329645	30	48171										
OR2T4	127074	broad.mit.edu	37	chr1	248525461	248525461	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gatggcttcacattcactccCatcaccatgaccttcccctt	4	17	3	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr1:248525461C>A	uc001ieh.1	+	1	579	c.579C>A	c.(577-579)CCC>CCA	p.P193P		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	193	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CATTCACTCCCATCACCATGA	0.517													81	314	---	---	---	---	PASS	A	248525461	A	A	248525461	2	1	135	1	0	0	0	0	0	0	0	1	11027	581	21	3		3	OR2T4	1	248525461	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	604485	248525461	725160	31	48172										
ASAP2	8853	broad.mit.edu	37	chr2	9474892	9474892	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttcaggatggactcaaagccGtggaaagcctcaaaccttcc	9	12	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:9474892G>T	uc002qzh.2	+	8	1052	c.712G>T	c.(712-714)GTG>TTG	p.V238L	ASAP2_uc002qzi.2_Missense_Mutation_p.V238L	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	238					regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						ACTCAAAGCCGTGGAAAGCCT	0.393													33	98	---	---	---	---	PASS	T	9474892	T	T	9474892	3	4	135	1	0	0	0	0	1	0	0	0	1011	1145	40	1	742	1	ASAP2	2	9474892	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08		9474892	233724481	32	48173										
MYCN	4613	broad.mit.edu	37	chr2	16082411	16082411	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gagcacagctccgagcccccGagctgggtcacggagatgct	14	14	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:16082411G>T	uc002rci.2	+	2	525	c.225G>T	c.(223-225)CCG>CCT	p.P75P	MYCNOS_uc002rch.1_5'Flank|MYCN_uc010yjr.1_Silent_p.P67P	NM_005378	NP_005369	P04198	MYCN_HUMAN	v-myc myelocytomatosis viral related oncogene,	75					regulation of transcription from RNA polymerase II promoter	chromatin|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5	all_cancers(1;1.35e-08)|all_neural(1;2.92e-24)|Lung SC(1;3.26e-07)|Medulloblastoma(1;6.9e-06)|all_lung(1;1.26e-05)|Glioma(3;0.135)|Acute lymphoblastic leukemia(172;0.155)|all_epithelial(1;0.169)|all_hematologic(175;0.197)		GBM - Glioblastoma multiforme(3;0.000332)			CCGAGCCCCCGAGCTGGGTCA	0.711			A		neuroblastoma								3	13	---	---	---	---	PASS	T	16082411	T	T	16082411	2	4	135	1	0	0	0	0	0	0	0	1	10021	1045	37	2		2	MYCN	2	16082411	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	6607519	16082411	227116962	33	48174										
APOB	338	broad.mit.edu	37	chr2	21232599	21232599	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttttatcttaacttgttgtaGgacattgcttagcttctgaa	7	6	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:21232599G>A	uc002red.2	-	26	7269	c.7141C>T	c.(7141-7143)CTA>TTA	p.L2381L		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2381					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ACTTGTTGTAGGACATTGCTT	0.323													16	69	---	---	---	---	PASS	A	21232599	A	A	21232599	2	1	135	1	0	0	0	0	0	0	0	1	785	991	35	3		3	APOB	2	21232599	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	5150188	21232599	221966774	34	48175										
MTA3	57504	broad.mit.edu	37	chr2	42909590	42909590	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cagctatgatttgagcagtgCcattagtgtcttagtaccac	9	9	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:42909590C>A	uc002rso.1	+	10	1254	c.584C>A	c.(583-585)GCC>GAC	p.A195D	MTA3_uc002rsp.1_Missense_Mutation_p.A195D|MTA3_uc002rsq.2_Missense_Mutation_p.A251D|MTA3_uc002rsr.2_Missense_Mutation_p.A251D	NM_020744	NP_065795	Q9BTC8	MTA3_HUMAN	metastasis associated 1 family, member 3	251	ELM2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						TTGAGCAGTGCCATTAGTGTC	0.398													5	26	---	---	---	---	PASS	A	42909590	A	A	42909590	3	1	135	1	0	0	0	0	1	0	0	0	9910	739	26	3	786	3	MTA3	2	42909590	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	21676991	42909590	200289783	35	48176										
PRKCE	5581	broad.mit.edu	37	chr2	46228648	46228648	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggccgacctgggcgttacccCagacaaaatcaccaacagcg	10	15	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:46228648C>T	uc002rut.2	+	7	1126	c.929C>T	c.(928-930)CCA>CTA	p.P310L		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	310					activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			GGCGTTACCCCAGACAAAATC	0.522													24	85	---	---	---	---	PASS	T	46228648	T	T	46228648	3	4	135	1	0	0	0	0	1	0	0	0	12511	594	21	3	955	3	PRKCE	2	46228648	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	3319058	46228648	196970725	36	48177										
NRXN1	9378	broad.mit.edu	37	chr2	50463932	50463932	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gcaaaaagtacttactatatGcagttctaggtagtcaccca	7	9	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:50463932G>T	uc010fbp.2	-	2	1243	c.436C>A	c.(436-438)CAT>AAT	p.H146N	NRXN1_uc002rxb.3_Missense_Mutation_p.H853N|NRXN1_uc010fbq.2_Missense_Mutation_p.H1221N|NRXN1_uc002rxe.3_Missense_Mutation_p.H1181N|NRXN1_uc002rxc.1_RNA	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	146	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding	p.H146L(1)		ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CTTACTATATGCAGTTCTAGG	0.398													17	83	---	---	---	---	PASS	T	50463932	T	T	50463932	3	4	135	1	0	0	0	0	1	0	0	0	10665	1319	46	3	1006	3	NRXN1	2	50463932	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	4235284	50463932	192735441	37	48178										
LRRTM4	80059	broad.mit.edu	37	chr2	77746492	77746492	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttatgggcacagtctttagtGagttagatctcaagtgcaaa	10	6	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:77746492G>A	uc002snr.2	-	3	918	c.503C>T	c.(502-504)TCA>TTA	p.S168L	LRRTM4_uc002snq.2_Missense_Mutation_p.S168L|LRRTM4_uc002sns.2_Missense_Mutation_p.S168L|LRRTM4_uc002snt.2_Missense_Mutation_p.S169L	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	168	LRR 5.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		AGTCTTTAGTGAGTTAGATCT	0.403													20	124	---	---	---	---	PASS	A	77746492	A	A	77746492	3	1	135	1	0	0	0	0	1	0	0	0	9042	1294	45	2	1283	2	LRRTM4	2	77746492	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	27282560	77746492	165452881	38	48179										
UXS1	80146	broad.mit.edu	37	chr2	106739541	106739541	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cctcactttgagggtggactTcaggatctacgatgggagaa	13	8	3	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:106739541T>G	uc002tdm.2	-	9	727	c.629A>C	c.(628-630)GAA>GCA	p.E210A	UXS1_uc002tdl.2_Missense_Mutation_p.E42A|UXS1_uc002tdn.2_Missense_Mutation_p.E215A|UXS1_uc002tdo.2_Missense_Mutation_p.E153A|UXS1_uc010ywh.1_Missense_Mutation_p.E54A	NM_025076	NP_079352	Q8NBZ7	UXS1_HUMAN	UDP-glucuronate decarboxylase 1	210	Lumenal (Potential).				cellular metabolic process	Golgi cisterna membrane|integral to membrane	coenzyme binding|UDP-glucuronate decarboxylase activity			ovary(2)	2						AGGGTGGACTTCAGGATCTAC	0.443													31	148	---	---	---	---	PASS	G	106739541	G	G	106739541	3	3	135	1	0	0	0	0	1	0	0	0	17106	1783	62	5	661	5	UXS1	2	106739541	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	28993049	106739541	136459832	39	48180										
CNTNAP5	129684	broad.mit.edu	37	chr2	125204397	125204397	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggcagcctcctggatgaccaGcactggcactcggtcctcat	11	15	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:125204397G>A	uc002tno.2	+	6	1165	c.801G>A	c.(799-801)CAG>CAA	p.Q267Q	CNTNAP5_uc010flu.2_Silent_p.Q267Q	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	267	Laminin G-like 1.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TGGATGACCAGCACTGGCACT	0.612													23	86	---	---	---	---	PASS	A	125204397	A	A	125204397	2	1	135	1	0	0	0	0	0	0	0	1	3650	962	34	3		3	CNTNAP5	2	125204397	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	18464856	125204397	117994976	40	48181										
CNTNAP5	129684	broad.mit.edu	37	chr2	125671718	125671718	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttctgtatcatcggcatcatGacccggttcctctaccagca	7	14	4	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:125671718G>T	uc002tno.2	+	24	4138	c.3774G>T	c.(3772-3774)ATG>ATT	p.M1258I	CNTNAP5_uc010flu.2_Missense_Mutation_p.M1259I	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	1258	Helical; (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TCGGCATCATGACCCGGTTCC	0.453													34	198	---	---	---	---	PASS	T	125671718	T	T	125671718	3	4	135	1	0	0	0	0	1	0	0	0	3650	1290	45	2	3868	2	CNTNAP5	2	125671718	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	467321	125671718	117527655	41	48182										
CYP27C1	339761	broad.mit.edu	37	chr2	127961052	127961052	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttttaattaagtcagcaataActtggttgacttctccagaa	6	7	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:127961052A>T	uc002tod.2	-	2	205	c.74T>A	c.(73-75)GTT>GAT	p.V25D		NM_001001665	NP_001001665	Q4G0S4	C27C1_HUMAN	cytochrome P450, family 27, subfamily C,	25						membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.071)		GTCAGCAATAACTTGGTTGAC	0.408													85	304	---	---	---	---	PASS	T	127961052	T	T	127961052	3	4	135	1	0	0	0	0	1	0	0	0	4160	43	2	5	1072	5	CYP27C1	2	127961052	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	2289334	127961052	115238321	42	48183										
NCKAP5	344148	broad.mit.edu	37	chr2	133542459	133542459	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aagtctttggcctagtctctGaagggatgggcacttgtttt	12	7	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:133542459G>A	uc002ttp.2	-	14	2299	c.1925C>T	c.(1924-1926)TCA>TTA	p.S642L	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	642							protein binding				0						CCTAGTCTCTGAAGGGATGGG	0.443													22	140	---	---	---	---	PASS	A	133542459	A	A	133542459	3	1	135	1	0	0	0	0	1	0	0	0	10223	1294	45	2	3832	2	NCKAP5	2	133542459	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	5581407	133542459	109656914	43	48184										
LRP1B	53353	broad.mit.edu	37	chr2	141108479	141108479	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	atctctttgataatatacatCcatccctgttattcttgaat	3	9	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:141108479C>A	uc002tvj.1	-	77	12751	c.11779G>T	c.(11779-11781)GAT>TAT	p.D3927Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3927	Extracellular (Potential).				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)		TAATATACATCCATCCCTGTT	0.338										TSP Lung(27;0.18)			60	108	---	---	---	---	PASS	A	141108479	A	A	141108479	3	1	135	1	0	0	0	0	1	0	0	0	8955	855	30	2	2080	2	LRP1B	2	141108479	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	7566020	141108479	102090894	44	48185										
NEB	4703	broad.mit.edu	37	chr2	152422331	152422331	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctccaggtcagctctgtagaCattctgagagcaggaagaga	12	9	3	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:152422331C>T	uc010fnx.2	-	87	13248	c.13057G>A	c.(13057-13059)GTC>ATC	p.V4353I	NEB_uc002txr.2_Missense_Mutation_p.V776I	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	4353	Nebulin 119.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GCTCTGTAGACATTCTGAGAG	0.448													4	22	---	---	---	---	PASS	T	152422331	T	T	152422331	3	4	135	1	0	0	0	0	1	0	0	0	10302	478	17	3	7798	3	NEB	2	152422331	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	11313852	152422331	90777042	45	48186										
FAP	2191	broad.mit.edu	37	chr2	163031404	163031404	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttcccagctggagactggagCcactgctataccacatttga	9	12	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:163031404C>G	uc002ucd.2	-	22	2150	c.1942G>C	c.(1942-1944)GCT>CCT	p.A648P	FAP_uc010fpc.2_Missense_Mutation_p.A197P|FAP_uc010zct.1_Missense_Mutation_p.A623P|FAP_uc010fpd.2_Missense_Mutation_p.A127P	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	648	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						GAGACTGGAGCCACTGCTATA	0.403													22	104	---	---	---	---	PASS	G	163031404	G	G	163031404	3	3	135	1	0	0	0	0	1	0	0	0	5673	739	26	4	360	4	FAP	2	163031404	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	10609073	163031404	80167969	46	48187										
XIRP2	129446	broad.mit.edu	37	chr2	168104375	168104375	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aatattaactgatacacaaaGctccaagcccagtcccaccc	4	15	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:168104375G>A	uc002udx.2	+	8	6491	c.6473G>A	c.(6472-6474)AGC>AAC	p.S2158N	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.S1983N|XIRP2_uc010fpq.2_Missense_Mutation_p.S1936N|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Splice_Site	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1983					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GATACACAAAGCTCCAAGCCC	0.403													34	68	---	---	---	---	PASS	A	168104375	A	A	168104375	3	1	135	1	0	0	0	0	1	0	0	0	17427	971	34	3	6503	3	XIRP2	2	168104375	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	5072971	168104375	75094998	47	48188										
TTN	7273	broad.mit.edu	37	chr2	179406233	179406233	+	Missense_Mutation	SNP	T	A	A													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cttgggagccaccgtcatccTctggtgggtaccaagtaagt							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:179406233T>A	uc010zfg.1	-	299	90091	c.89867A>T	c.(89866-89868)GAG>GTG	p.E29956V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E23651V|TTN_uc010zfi.1_Missense_Mutation_p.E23584V|TTN_uc010zfj.1_Missense_Mutation_p.E23459V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30883							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)			ACCGTCATCCTCTGGTGGGTA	0.473													14	40	---	---	---	---	PASS	A	179406233	A	A	179406233	3	1	135	1	0	0	0	0	1	0	0	0	16732	1551	54	5	10460	5	TTN	2	179406233	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	11301858	179406233	63793140	48	48189	885	2								
TTN	7273	broad.mit.edu	37	chr2	179406234	179406234	+	Missense_Mutation	SNP	C	T	T													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttgggagccaccgtcatcctCtggtgggtaccaagtaagtg							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:179406234C>T	uc010zfg.1	-	299	90090	c.89866G>A	c.(89866-89868)GAG>AAG	p.E29956K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E23651K|TTN_uc010zfi.1_Missense_Mutation_p.E23584K|TTN_uc010zfj.1_Missense_Mutation_p.E23459K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30883							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)			CCGTCATCCTCTGGTGGGTAC	0.473													14	39	---	---	---	---	PASS	T	179406234	T	T	179406234	3	4	135	1	0	0	0	0	1	0	0	0	16732	922	32	2	10461	2	TTN	2	179406234	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	1	179406234	63793139	49	48190	885	2								
ITGA4	3676	broad.mit.edu	37	chr2	182344882	182344882	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aggatttaattgtgatggggGccccaggatcatcttactgg	13	7	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:182344882G>T	uc002unu.2	+	6	1406	c.643G>T	c.(643-645)GCC>TCC	p.A215S	ITGA4_uc010zfl.1_Missense_Mutation_p.A215S	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	215	FG-GAP 3.|Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	TGTGATGGGGGCCCCAGGATC	0.338													41	58	---	---	---	---	PASS	T	182344882	T	T	182344882	3	4	135	1	0	0	0	0	1	0	0	0	7878	1203	42	3	665	3	ITGA4	2	182344882	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	2938648	182344882	60854491	50	48191										
ZC3H15	55854	broad.mit.edu	37	chr2	187368899	187368899	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aaagataaaaagaaagaagaGaaagaagatgaaatttcatt	8	1	1	7			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:187368899G>A	uc002upo.2	+	6	900	c.675G>A	c.(673-675)GAG>GAA	p.E225E		NM_018471	NP_060941	Q8WU90	ZC3HF_HUMAN	erythropoietin 4 immediate early response	225	Potential.					cytoplasm|nucleolus|plasma membrane	nucleic acid binding|zinc ion binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Epithelial(96;0.0922)|all cancers(119;0.233)			AGAAAGAAGAGAAAGAAGATG	0.363													33	154	---	---	---	---	PASS	A	187368899	A	A	187368899	2	1	135	1	0	0	0	0	0	0	0	1	17564	933	33	2		2	ZC3H15	2	187368899	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	5024017	187368899	55830474	51	48192										
ZSWIM2	151112	broad.mit.edu	37	chr2	187702112	187702112	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tttgtccagtctctctttttCtgctgcagctactagtttgc	7	11	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:187702112C>G	uc002upu.1	-	5	704	c.664G>C	c.(664-666)GAA>CAA	p.E222Q		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	222					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			CTCTCTTTTTCTGCTGCAGCT	0.388													32	199	---	---	---	---	PASS	G	187702112	G	G	187702112	3	3	135	1	0	0	0	0	1	0	0	0	18238	922	32	2	1257	2	ZSWIM2	2	187702112	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	333213	187702112	55497261	52	48193										
STK17B	9262	broad.mit.edu	37	chr2	197021277	197021277	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tctcgtgtaaaatttctgctCgacaatcctgtcctcttctt	5	12	4	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:197021277C>T	uc002utk.2	-	3	545	c.221G>A	c.(220-222)CGA>CAA	p.R74Q	STK17B_uc010fsh.2_Missense_Mutation_p.R74Q	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	74	Protein kinase.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			AATTTCTGCTCGACAATCCTG	0.358													7	221	---	---	---	---	PASS	T	197021277	T	T	197021277	3	4	135	1	0	0	0	0	1	0	0	0	15290	884	31	2	921	2	STK17B	2	197021277	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	9319165	197021277	46178096	53	48194										
PGAP1	80055	broad.mit.edu	37	chr2	197757926	197757926	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttgatgggtgtcttataaagTggtgatacaaaactgacagt	11	4	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:197757926T>C	uc002utw.2	-	8	1085	c.971A>G	c.(970-972)CAC>CGC	p.H324R	PGAP1_uc002utx.2_Missense_Mutation_p.H150R|PGAP1_uc002uty.1_Missense_Mutation_p.H324R|PGAP1_uc010zgv.1_RNA|PGAP1_uc010fsj.2_Missense_Mutation_p.H150R	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	324	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						TCTTATAAAGTGGTGATACAA	0.289													15	87	---	---	---	---	PASS	C	197757926	C	C	197757926	3	2	135	1	0	0	0	0	1	0	0	0	11777	1696	59	5	1877	5	PGAP1	2	197757926	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	736649	197757926	45441447	54	48195										
NDUFS1	4719	broad.mit.edu	37	chr2	206988912	206988912	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggatcctagtagaagcttcaGcatatggatggttcctctac	10	9	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:206988912G>C	uc002vbe.2	-	19	2308	c.2181C>G	c.(2179-2181)TGC>TGG	p.C727W	NDUFS1_uc010ziq.1_Missense_Mutation_p.C741W|NDUFS1_uc010zir.1_Missense_Mutation_p.C691W|NDUFS1_uc010zis.1_Missense_Mutation_p.C670W|NDUFS1_uc010zit.1_Missense_Mutation_p.C616W|NDUFS1_uc010ziu.1_Missense_Mutation_p.C611W	NM_005006	NP_004997	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1,	727					apoptosis|ATP metabolic process|mitochondrial electron transport, NADH to ubiquinone|reactive oxygen species metabolic process|regulation of mitochondrial membrane potential|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	AGAAGCTTCAGCATATGGATG	0.403													50	78	---	---	---	---	PASS	C	206988912	C	C	206988912	3	2	135	1	0	0	0	0	1	0	0	0	10291	963	34	4	6	4	NDUFS1	2	206988912	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	9230986	206988912	36210461	55	48196										
ABCA12	26154	broad.mit.edu	37	chr2	215896613	215896613	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cacacatgcgttatattatcGgagtcacctgaagtaataat	7	8	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:215896613G>A	uc002vew.2	-	9	1213	c.993C>T	c.(991-993)TCC>TCT	p.S331S	ABCA12_uc002vev.2_Silent_p.S13S|ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	331					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TTATATTATCGGAGTCACCTG	0.348													22	242	---	---	---	---	PASS	A	215896613	A	A	215896613	2	1	135	1	0	0	0	0	0	0	0	1	30	1103	39	1		1	ABCA12	2	215896613	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	8907701	215896613	27302760	56	48197										
INPP5D	3635	broad.mit.edu	37	chr2	233990506	233990506	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cccaagaaacatcccgctgaCtgccagctcctgtgaggcca	9	16	0	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:233990506C>A	uc010zmo.1	+	4	554	c.401C>A	c.(400-402)ACT>AAT	p.T134N	INPP5D_uc010zmp.1_Missense_Mutation_p.T133N	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	134					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		ATCCCGCTGACTGCCAGCTCC	0.587													10	35	---	---	---	---	PASS	A	233990506	A	A	233990506	3	1	135	1	0	0	0	0	1	0	0	0	7756	565	20	3	415	3	INPP5D	2	233990506	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	18093893	233990506	9208867	57	48198										
UGT1A9	54600	broad.mit.edu	37	chr2	234580890	234580890	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aatggaaagcacaagtacgaAgtatatattctctattaatg	7	5	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:234580890A>C	uc002vus.2	+	1	347	c.310A>C	c.(310-312)AGT>CGT	p.S104R	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Missense_Mutation_p.S104R	NM_021027	NP_066307	O60656	UD19_HUMAN	UDP glycosyltransferase 1 family, polypeptide A9	104					drug metabolic process|flavone metabolic process|negative regulation of fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding			ovary(3)|breast(1)|skin(1)	5		Breast(86;0.000766)|all_lung(227;0.00269)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0331)|Lung NSC(271;0.0459)|Lung SC(224;0.128)		Epithelial(121;1.26e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000436)|Lung(119;0.00347)|LUSC - Lung squamous cell carcinoma(224;0.00757)	Entacapone(DB00494)|Etodolac(DB00749)|Indomethacin(DB00328)|Irinotecan(DB00762)|Mycophenolic acid(DB01024)|Oxyphenonium(DB00219)|Propofol(DB00818)|Sorafenib(DB00398)	ACAAGTACGAAGTATATATTC	0.348													44	178	---	---	---	---	PASS	C	234580890	C	C	234580890	3	2	135	1	0	0	0	0	1	0	0	0	16949	72	3	5	312	5	UGT1A9	2	234580890	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	590384	234580890	8618483	58	48199										
IQCA1	79781	broad.mit.edu	37	chr2	237246993	237246993	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttcaggagtttcaggatttgGggaaggtgttttttcaggcg	15	4	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:237246993G>A	uc002vvz.1	-	17	2171	c.1989C>T	c.(1987-1989)CCC>CCT	p.P663P	IQCA1_uc002vwb.2_Silent_p.P671P|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Silent_p.P622P	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	663							ATP binding			ovary(1)	1						TCAGGATTTGGGGAAGGTGTT	0.403													23	115	---	---	---	---	PASS	A	237246993	A	A	237246993	2	1	135	1	0	0	0	0	0	0	0	1	7802	1219	43	3		3	IQCA1	2	237246993	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	2666103	237246993	5952380	59	48200										
HDAC4	9759	broad.mit.edu	37	chr2	240111549	240111549	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cttgatgtgctcgtggagctGcgcctcgtgctgccgggaga	16	11	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:240111549G>T	uc002vyk.3	-	4	1111	c.319C>A	c.(319-321)CAG>AAG	p.Q107K	HDAC4_uc010fyz.1_Missense_Mutation_p.Q102K|HDAC4_uc010zoa.1_Missense_Mutation_p.Q102K|HDAC4_uc010fza.2_Missense_Mutation_p.Q107K|HDAC4_uc002vyl.1_RNA|HDAC4_uc010fyy.2_Missense_Mutation_p.Q59K	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	107	Potential.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		TCGTGGAGCTGCGCCTCGTGC	0.687													14	31	---	---	---	---	PASS	T	240111549	T	T	240111549	3	4	135	1	0	0	0	0	1	0	0	0	7009	1328	46	3	3031	3	HDAC4	2	240111549	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	2864556	240111549	3087824	60	48201										
KIF1A	547	broad.mit.edu	37	chr2	241715339	241715339	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aatctgtcttcttctttttcTtgttctgtgggggaggaaca	10	7	6	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr2:241715339T>A	uc002vzy.2	-	11	1033	c.887A>T	c.(886-888)AAG>ATG	p.K296M	KIF1A_uc010fzk.2_Missense_Mutation_p.K296M|KIF1A_uc002vzz.1_Missense_Mutation_p.K296M	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	296	Kinesin-motor.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		CTTCTTTTTCTTGTTCTGTGG	0.562													10	52	---	---	---	---	PASS	A	241715339	A	A	241715339	3	1	135	1	0	0	0	0	1	0	0	0	8283	1609	56	5	4333	5	KIF1A	2	241715339	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	1603790	241715339	1484034	61	48202										
KLHL18	23276	broad.mit.edu	37	chr3	47374703	47374703	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cgggagcagaggggtccctaCctgcctgagctgctgtccaa	14	13	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:47374703C>T	uc003crd.2	+	5	783	c.657C>T	c.(655-657)TAC>TAT	p.Y219Y	KLHL18_uc003crc.2_Silent_p.Y219Y|KLHL18_uc011bav.1_Silent_p.Y107Y|KLHL18_uc010hjq.1_Silent_p.Y70Y	NM_025010	NP_079286	O94889	KLH18_HUMAN	kelch-like 18	219	BACK.										0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)		GGGGTCCCTACCTGCCTGAGC	0.577													18	35	---	---	---	---	PASS	T	47374703	T	T	47374703	2	4	135	1	0	0	0	0	0	0	0	1	8373	518	18	3		3	KLHL18	3	47374703	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08		47374703	150647727	62	48203										
MAPKAPK3	7867	broad.mit.edu	37	chr3	50677815	50677815	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agctcctgtatgacagccccAaggcccggcaggaggtagac	13	13	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:50677815A>T	uc003day.1	+	5	834	c.238A>T	c.(238-240)AAG>TAG	p.K80*	MAPKAPK3_uc003daz.1_Nonsense_Mutation_p.K80*|MAPKAPK3_uc003dba.1_Nonsense_Mutation_p.K80*|MAPKAPK3_uc010hlr.1_Nonsense_Mutation_p.K80*	NM_004635	NP_004626	Q16644	MAPK3_HUMAN	mitogen-activated protein kinase-activated	80	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.0188)|Kidney(197;0.0223)		TGACAGCCCCAAGGCCCGGCA	0.468													51	182	---	---	---	---	PASS	T	50677815	T	T	50677815	4	4	135	1	0	0	0	0	0	1	0	0	9290	131	5	5	244	5	MAPKAPK3	3	50677815	Nonsense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	3303112	50677815	147344615	63	48204										
RBM15B	29890	broad.mit.edu	37	chr3	51431014	51431014	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tggaatgggcttctggtgttGaaaaacagctgcttccccac	11	10	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:51431014G>C	uc003dbd.2	+	1	2284	c.2184G>C	c.(2182-2184)TTG>TTC	p.L728F		NM_013286	NP_037418	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	728	Interaction with Epstein-Barr virus BMLF1.|SPOC.				interspecies interaction between organisms|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleoplasm	nucleotide binding|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		TTCTGGTGTTGAAAAACAGCT	0.522													79	76	---	---	---	---	PASS	C	51431014	C	C	51431014	3	2	135	1	0	0	0	0	1	0	0	0	13117	1281	45	2	2186	2	RBM15B	3	51431014	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	753199	51431014	146591416	64	48205										
C3orf63	23272	broad.mit.edu	37	chr3	56680635	56680635	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agatcctcaagcttcctcttCaagacagttttgcttctcat	5	12	4	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:56680635C>T	uc003did.3	-	14	2231	c.2130G>A	c.(2128-2130)TTG>TTA	p.L710L	C3orf63_uc003dic.3_Silent_p.L314L|C3orf63_uc003die.3_Silent_p.L710L	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	710										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		GCTTCCTCTTCAAGACAGTTT	0.358													49	156	---	---	---	---	PASS	T	56680635	T	T	56680635	2	4	135	1	0	0	0	0	0	0	0	1	2239	825	29	2		2	C3orf63	3	56680635	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	5249621	56680635	141341795	65	48206										
OR5K1	26339	broad.mit.edu	37	chr3	98188809	98188809	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgtggccatatgcaacccacTgcagtaccacatcatgatgt	8	12	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:98188809T>G	uc003dsm.2	+	1	389	c.389T>G	c.(388-390)CTG>CGG	p.L130R		NM_001004736	NP_001004736	Q8NHB7	OR5K1_HUMAN	olfactory receptor, family 5, subfamily K,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)	1						TGCAACCCACTGCAGTACCAC	0.468													58	427	---	---	---	---	PASS	G	98188809	G	G	98188809	3	3	135	1	0	0	0	0	1	0	0	0	11166	1580	55	5	391	5	OR5K1	3	98188809	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	41508174	98188809	99833621	66	48207										
C3orf26	84319	broad.mit.edu	37	chr3	99895187	99895187	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcaggtggccttaatttgagCcccttaaaatttctggtttt	8	8	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:99895187C>T	uc003dtl.2	+	9	827	c.684C>T	c.(682-684)AGC>AGT	p.S228S		NM_032359	NP_115735	Q9BQ75	CC026_HUMAN	hypothetical protein LOC84319	228							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(1)	1						TTAATTTGAGCCCCTTAAAAT	0.408													4	157	---	---	---	---	PASS	T	99895187	T	T	99895187	2	4	135	1	0	0	0	0	0	0	0	1	2218	738	26	3		3	C3orf26	3	99895187	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	1706378	99895187	98127243	67	48208										
IMPG2	50939	broad.mit.edu	37	chr3	100976537	100976537	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	catggttttccaccttgttgGagtgaaggctaatgaggtcc	12	8	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:100976537G>C	uc003duq.1	-	10	1192	c.989C>G	c.(988-990)TCC>TGC	p.S330C	IMPG2_uc011bhe.1_Missense_Mutation_p.S193C	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	330	Extracellular (Potential).|SEA 1.				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						CACCTTGTTGGAGTGAAGGCT	0.433													64	300	---	---	---	---	PASS	C	100976537	C	C	100976537	3	2	135	1	0	0	0	0	1	0	0	0	7729	1174	41	2	2776	2	IMPG2	3	100976537	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	1081350	100976537	97045893	68	48209										
MORC1	27136	broad.mit.edu	37	chr3	108698408	108698408	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgtttccttgacaggtgtgcTttgagaagacgctggcgaag	14	7	0	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:108698408T>A	uc003dxl.2	-	24	2518	c.2431A>T	c.(2431-2433)AGC>TGC	p.S811C	MORC1_uc011bhn.1_Missense_Mutation_p.S790C	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	811					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						ACAGGTGTGCTTTGAGAAGAC	0.403													24	289	---	---	---	---	PASS	A	108698408	A	A	108698408	3	1	135	1	0	0	0	0	1	0	0	0	9701	1609	56	5	543	5	MORC1	3	108698408	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	7721871	108698408	89324022	69	48210										
ARHGAP31	57514	broad.mit.edu	37	chr3	119133513	119133513	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agccctgggaggaaccccagTgggtgacgagtccccttcac	13	14	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:119133513T>C	uc003ecj.3	+	12	3269	c.2737T>C	c.(2737-2739)TGG>CGG	p.W913R		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	913					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						GGAACCCCAGTGGGTGACGAG	0.587													32	335	---	---	---	---	PASS	C	119133513	C	C	119133513	3	2	135	1	0	0	0	0	1	0	0	0	880	1696	59	5	2783	5	ARHGAP31	3	119133513	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	10435105	119133513	78888917	70	48211										
ADCY5	111	broad.mit.edu	37	chr3	123036947	123036947	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	acataggcaccaaatcggtcGtctacctgcttggagtactg	10	11	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:123036947G>A	uc003egh.1	-	11	2274	c.2274C>T	c.(2272-2274)GAC>GAT	p.D758D	ADCY5_uc003egg.1_Silent_p.D391D|ADCY5_uc003egi.1_Silent_p.D317D	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	758	Cytoplasmic (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		CAAATCGGTCGTCTACCTGCT	0.602													11	71	---	---	---	---	PASS	A	123036947	A	A	123036947	2	1	135	1	0	0	0	0	0	0	0	1	297	1136	40	1		1	ADCY5	3	123036947	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	3903434	123036947	74985483	71	48212										
ADCY5	111	broad.mit.edu	37	chr3	123049852	123049852	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccaaggatcttaatacgtaaAcagtgattctcctggaaagc	8	9	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:123049852A>G	uc003egh.1	-	5	1530	c.1530T>C	c.(1528-1530)TGT>TGC	p.C510C	ADCY5_uc003egg.1_Silent_p.C143C|ADCY5_uc003egi.1_Silent_p.C69C	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	510	Guanylate cyclase 1.|Cytoplasmic (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		TAATACGTAAACAGTGATTCT	0.453													17	87	---	---	---	---	PASS	G	123049852	G	G	123049852	2	3	135	1	0	0	0	0	0	0	0	1	297	41	2	5		5	ADCY5	3	123049852	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	12905	123049852	74972578	72	48213										
PODXL2	50512	broad.mit.edu	37	chr3	127379640	127379640	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	caactacagtgactccggggGaccaggactccaccagccaa	10	15	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:127379640G>T	uc003ejq.2	+	3	793	c.769G>T	c.(769-771)GAC>TAC	p.D257Y		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	257	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						GACTCCGGGGGACCAGGACTC	0.637													27	78	---	---	---	---	PASS	T	127379640	T	T	127379640	3	4	135	1	0	0	0	0	1	0	0	0	12181	1174	41	2	779	2	PODXL2	3	127379640	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	4329788	127379640	70642790	73	48214										
PLOD2	5352	broad.mit.edu	37	chr3	145806374	145806374	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcatttctcaaatacttactTtgttatgaataaaaagttta	3	5	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:145806374T>A	uc003evs.1	-	9	1510	c.1004A>T	c.(1003-1005)AAA>ATA	p.K335I	PLOD2_uc003evq.1_5'Flank|PLOD2_uc011bnm.1_Missense_Mutation_p.K280I|PLOD2_uc003evr.1_Missense_Mutation_p.K335I	NM_000935	NP_000926	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	335					protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)	AATACTTACTTTGTTATGAAT	0.289													6	58	---	---	---	---	PASS	A	145806374	A	A	145806374	3	1	135	1	0	0	0	0	1	0	0	0	12102	1855	64	5	1320	5	PLOD2	3	145806374	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	18426734	145806374	52216056	74	48215										
ZIC1	7545	broad.mit.edu	37	chr3	147128108	147128108	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cttcacgtcgcaggcgccagGctacgcggctgctgcggccc	14	17	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:147128108G>T	uc003ewe.2	+	1	928	c.209G>T	c.(208-210)GGC>GTC	p.G70V		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	70					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CAGGCGCCAGGCTACGCGGCT	0.677													20	19	---	---	---	---	PASS	T	147128108	T	T	147128108	3	4	135	1	0	0	0	0	1	0	0	0	17675	1203	42	3	211	3	ZIC1	3	147128108	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	1321734	147128108	50894322	75	48216										
ZIC1	7545	broad.mit.edu	37	chr3	147128132	147128132	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cgcggctgctgcggccctggGccatcaccatcacccgggcc	13	19	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:147128132G>T	uc003ewe.2	+	1	952	c.233G>T	c.(232-234)GGC>GTC	p.G78V		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	78					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GCGGCCCTGGGCCATCACCAT	0.687													10	31	---	---	---	---	PASS	T	147128132	T	T	147128132	3	4	135	1	0	0	0	0	1	0	0	0	17675	1203	42	3	235	3	ZIC1	3	147128132	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	24	147128132	50894298	76	48217										
SMC4	10051	broad.mit.edu	37	chr3	160146715	160146715	+	Missense_Mutation	SNP	T	A	A													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tactaaagcccaagtagcaaTcaagactgctgacaggtaga							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:160146715T>A	uc003fdh.2	+	18	2893	c.2780T>A	c.(2779-2781)ATC>AAC	p.I927N	IFT80_uc003fda.2_Intron|SMC4_uc003fdi.2_Missense_Mutation_p.I902N|SMC4_uc003fdj.2_Missense_Mutation_p.I927N|SMC4_uc010hwd.2_Missense_Mutation_p.I927N|SMC4_uc003fdl.2_Missense_Mutation_p.I630N	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	927	Potential.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			CAAGTAGCAATCAAGACTGCT	0.368													47	168	---	---	---	---	PASS	A	160146715	A	A	160146715	3	1	135	1	0	0	0	0	1	0	0	0	14785	1435	50	5	2846	5	SMC4	3	160146715	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	13018583	160146715	37875715	77	48218	886	2								
SMC4	10051	broad.mit.edu	37	chr3	160146716	160146716	+	Silent	SNP	C	A	A													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	actaaagcccaagtagcaatCaagactgctgacaggtagag							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:160146716C>A	uc003fdh.2	+	18	2894	c.2781C>A	c.(2779-2781)ATC>ATA	p.I927I	IFT80_uc003fda.2_Intron|SMC4_uc003fdi.2_Silent_p.I902I|SMC4_uc003fdj.2_Silent_p.I927I|SMC4_uc010hwd.2_Silent_p.I927I|SMC4_uc003fdl.2_Silent_p.I630I	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	927	Potential.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			AAGTAGCAATCAAGACTGCTG	0.368													46	169	---	---	---	---	PASS	A	160146716	A	A	160146716	2	1	135	1	0	0	0	0	0	0	0	1	14785	816	29	2		2	SMC4	3	160146716	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	1	160146716	37875714	78	48219	886	2								
PIK3CA	5290	broad.mit.edu	37	chr3	178936082	178936082	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctacacgagatcctctctctGaaatcactgagcaggagaaa	8	11	3	4	rs121913273		TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:178936082G>A	uc003fjk.2	+	10	1781	c.1624G>A	c.(1624-1626)GAA>AAA	p.E542K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	542	PI3K helical.		E -> V (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation).|E -> Q (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E542K(481)|p.E542V(8)|p.E542Q(6)|p.E542G(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCCTCTCTCTGAAATCACTGA	0.333	E542K(SW948_LARGE_INTESTINE)|E542K(T84_LARGE_INTESTINE)|E542K(CAL51_BREAST)|E542K(JHUEM1_ENDOMETRIUM)|E542K(NCIH1341_LUNG)|E542K(VMCUB1_URINARY_TRACT)|E542K(BT483_BREAST)|E542K(HGC27_STOMACH)|E542K(IM95_STOMACH)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			37	103	---	---	---	---	PASS	A	178936082	A	A	178936082	3	1	135	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1658	2	PIK3CA	3	178936082	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	18789366	178936082	19086348	79	48220										
USP13	8975	broad.mit.edu	37	chr3	179447977	179447977	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tattgcctctcattttctagGtatgtaggaaaccttcccag	7	10	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:179447977G>T	uc003fkh.2	+	9	1170	c.1089G>T	c.(1087-1089)GCG>GCT	p.A363A	USP13_uc003fkf.2_Silent_p.A363A	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	363					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			CATTTTCTAGGTATGTAGGAA	0.363													56	270	---	---	---	---	PASS	T	179447977	T	T	179447977	2	4	135	1	0	0	0	0	0	0	0	1	17041	1275	44	3		3	USP13	3	179447977	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	511895	179447977	18574453	80	48221										
MAP3K13	9175	broad.mit.edu	37	chr3	185146681	185146681	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tctcaggggaacagcaacacGgtggacggagagagcacaag	15	9	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:185146681G>T	uc010hyf.2	+	3	578	c.312G>T	c.(310-312)ACG>ACT	p.T104T	MAP3K13_uc011brt.1_Intron|MAP3K13_uc003fph.3_5'UTR|MAP3K13_uc011bru.1_Intron|MAP3K13_uc003fpi.2_Silent_p.T104T|MAP3K13_uc010hyg.2_5'UTR	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	104					activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			ACAGCAACACGGTGGACGGAG	0.517													67	87	---	---	---	---	PASS	T	185146681	T	T	185146681	2	4	135	1	0	0	0	0	0	0	0	1	9247	1103	39	1		1	MAP3K13	3	185146681	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	5698704	185146681	12875749	81	48222										
TP63	8626	broad.mit.edu	37	chr3	189526287	189526287	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cgacgtgtccttccagcagtCgagcaccgccaagtcggcca	11	16	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr3:189526287C>G	uc003fry.2	+	4	640	c.551C>G	c.(550-552)TCG>TGG	p.S184W	TP63_uc003frx.2_Missense_Mutation_p.S184W|TP63_uc003frz.2_Missense_Mutation_p.S184W|TP63_uc010hzc.1_Missense_Mutation_p.S184W|TP63_uc003fsa.2_Missense_Mutation_p.S90W|TP63_uc003fsb.2_Missense_Mutation_p.S90W|TP63_uc003fsc.2_Missense_Mutation_p.S90W|TP63_uc003fsd.2_Missense_Mutation_p.S90W|TP63_uc010hzd.1_Intron|TP63_uc003fse.1_Missense_Mutation_p.S65W	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	184			S -> L (in head and neck cancer).		anti-apoptosis|cellular response to UV|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|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		TTCCAGCAGTCGAGCACCGCC	0.627									Hay-Wells_syndrome	HNSCC(45;0.13)			47	128	---	---	---	---	PASS	G	189526287	G	G	189526287	3	3	135	1	0	0	0	0	1	0	0	0	16389	893	31	2	611	2	TP63	3	189526287	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	4379606	189526287	8496143	82	48223										
EVC2	132884	broad.mit.edu	37	chr4	5630331	5630331	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcagctgggctgcagcggtgCtcagaaggccctgcacacgg	15	13	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:5630331C>A	uc003gij.2	-	12	1895	c.1841G>T	c.(1840-1842)AGC>ATC	p.S614I	EVC2_uc011bwb.1_Missense_Mutation_p.S54I|EVC2_uc003gik.2_Missense_Mutation_p.S534I	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	614						integral to membrane				large_intestine(3)|ovary(2)	5						TGCAGCGGTGCTCAGAAGGCC	0.468													30	119	---	---	---	---	PASS	A	5630331	A	A	5630331	3	1	135	1	0	0	0	0	1	0	0	0	5286	797	28	3	2129	3	EVC2	4	5630331	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08		5630331	185523945	83	48224										
BOD1L	259282	broad.mit.edu	37	chr4	13603309	13603309	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agttactgagcagatcacaaAgttatcacttctgccttctg	7	10	4	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:13603309A>C	uc003gmz.1	-	10	5332	c.5215T>G	c.(5215-5217)TTT>GTT	p.F1739V	BOD1L_uc010idr.1_Missense_Mutation_p.F1076V	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1739							DNA binding			ovary(5)|breast(1)	6						CAGATCACAAAGTTATCACTT	0.512													66	230	---	---	---	---	PASS	C	13603309	C	C	13603309	3	2	135	1	0	0	0	0	1	0	0	0	1483	72	3	5	4008	5	BOD1L	4	13603309	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	7972978	13603309	177550967	84	48225										
CCKAR	886	broad.mit.edu	37	chr4	26483347	26483347	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccgccttcctcctcctccccCacctctcccctcgcccctgg	4	27	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:26483347C>A	uc003gse.1	-	5	1353	c.1200G>T	c.(1198-1200)GTG>GTT	p.V400V		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	400	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	CCTCCTCCCCCACCTCTCCCC	0.627													30	106	---	---	---	---	PASS	A	26483347	A	A	26483347	2	1	135	1	0	0	0	0	0	0	0	1	2880	581	21	3		3	CCKAR	4	26483347	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	12880038	26483347	164670929	85	48226										
LIMCH1	22998	broad.mit.edu	37	chr4	41684398	41684398	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	atgaaaaacaagacagaagaTggaagaaatcattccaggga	10	5	1	5			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:41684398T>C	uc003gvu.3	+	21	2668	c.2614T>C	c.(2614-2616)TGG>CGG	p.W872R	LIMCH1_uc003gvv.3_Missense_Mutation_p.W872R|LIMCH1_uc003gvw.3_Missense_Mutation_p.W871R|LIMCH1_uc003gvx.3_Missense_Mutation_p.W884R|LIMCH1_uc003gwe.3_Missense_Mutation_p.W795R|LIMCH1_uc003gvy.3_Missense_Mutation_p.W700R|LIMCH1_uc003gwa.3_Missense_Mutation_p.W712R|LIMCH1_uc003gvz.3_Missense_Mutation_p.W1256R|LIMCH1_uc011byu.1_Missense_Mutation_p.W705R|LIMCH1_uc003gwc.3_Missense_Mutation_p.W717R|LIMCH1_uc003gwd.3_Missense_Mutation_p.W705R|LIMCH1_uc011byv.1_Missense_Mutation_p.W622R|LIMCH1_uc011byw.1_Missense_Mutation_p.W171R	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	872					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						AGACAGAAGATGGAAGAAATC	0.388													19	39	---	---	---	---	PASS	C	41684398	C	C	41684398	3	2	135	1	0	0	0	0	1	0	0	0	8797	1464	51	5	2724	5	LIMCH1	4	41684398	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	15201051	41684398	149469878	86	48227										
BEND4	389206	broad.mit.edu	37	chr4	42119669	42119669	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cccctgtcgggcgtgaccgaCagcgtcgctgaacactttgt	12	14	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:42119669C>G	uc003gwn.2	-	6	2051	c.1471G>C	c.(1471-1473)GTC>CTC	p.V491L	BEND4_uc003gwm.2_3'UTR	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	491	BEN.										0						GCGTGACCGACAGCGTCGCTG	0.522													4	13	---	---	---	---	PASS	G	42119669	G	G	42119669	3	3	135	1	0	0	0	0	1	0	0	0	1400	478	17	4	137	4	BEND4	4	42119669	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	435271	42119669	149034607	87	48228										
FRYL	285527	broad.mit.edu	37	chr4	48514564	48514564	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccgtcggtgtcagacagcatCtgattgacgtggcagcgcca	13	12	2	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:48514564C>T	uc003gyh.1	-	57	8684	c.8079G>A	c.(8077-8079)CAG>CAA	p.Q2693Q	FRYL_uc003gyf.1_Silent_p.Q89Q|FRYL_uc003gyg.1_Silent_p.Q1389Q	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	2693					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						CAGACAGCATCTGATTGACGT	0.502													17	90	---	---	---	---	PASS	T	48514564	T	T	48514564	2	4	135	1	0	0	0	0	0	0	0	1	6064	912	32	2		2	FRYL	4	48514564	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	6394895	48514564	142639712	88	48229										
TMPRSS11F	389208	broad.mit.edu	37	chr4	68938072	68938072	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aatgatggtttgtttatggtCaaagacaattgtttggtctt	10	3	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:68938072C>G	uc003hdt.1	-	5	532	c.483G>C	c.(481-483)TTG>TTC	p.L161F	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	161	SEA.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						TGTTTATGGTCAAAGACAATT	0.318													13	163	---	---	---	---	PASS	G	68938072	G	G	68938072	3	3	135	1	0	0	0	0	1	0	0	0	16240	825	29	2	857	2	TMPRSS11F	4	68938072	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	20423508	68938072	122216204	89	48230										
UGT2B28	54490	broad.mit.edu	37	chr4	70155405	70155405	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tctgtggagatttgatgggaAtaaaccagatgccttaggtc	12	6	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:70155405A>G	uc003hej.2	+	4	1027	c.1025A>G	c.(1024-1026)AAT>AGT	p.N342S	UGT2B28_uc010ihr.2_Intron	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	342					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	TTTGATGGGAATAAACCAGAT	0.373													45	170	---	---	---	---	PASS	G	70155405	G	G	70155405	3	3	135	1	0	0	0	0	1	0	0	0	16957	101	4	5	1039	5	UGT2B28	4	70155405	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	1217333	70155405	120998871	90	48231										
ANKRD17	26057	broad.mit.edu	37	chr4	73957392	73957392	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgaacttggactgccatttgTagatgtaccaggcaccgttg	11	9	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:73957392T>C	uc003hgp.2	-	29	6070	c.5953A>G	c.(5953-5955)ACA>GCA	p.T1985A	ANKRD17_uc003hgo.2_Missense_Mutation_p.T1872A|ANKRD17_uc003hgq.2_Missense_Mutation_p.T1734A|ANKRD17_uc003hgr.2_Missense_Mutation_p.T1984A	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1985	Ser-rich.|Thr-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CTGCCATTTGTAGATGTACCA	0.468													85	552	---	---	---	---	PASS	C	73957392	C	C	73957392	3	2	135	1	0	0	0	0	1	0	0	0	646	1638	57	5	1882	5	ANKRD17	4	73957392	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	3801987	73957392	117196884	91	48232										
ARHGAP24	83478	broad.mit.edu	37	chr4	86896082	86896082	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	caggtgaagagtttgccagtGgtaaattacaacctcctcaa	9	9	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:86896082G>T	uc003hpk.2	+	7	1223	c.774G>T	c.(772-774)GTG>GTT	p.V258V	ARHGAP24_uc003hpl.2_Silent_p.V163V|ARHGAP24_uc010ikf.2_Silent_p.V173V|ARHGAP24_uc003hpm.2_Silent_p.V165V	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1	258	Rho-GAP.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		GTTTGCCAGTGGTAAATTACA	0.313													28	76	---	---	---	---	PASS	T	86896082	T	T	86896082	2	4	135	1	0	0	0	0	0	0	0	1	873	1335	47	3		3	ARHGAP24	4	86896082	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	12938690	86896082	104258194	92	48233										
MTTP	4547	broad.mit.edu	37	chr4	100503108	100503108	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aatgaccggctgtacaagctCacgtactccactgaagttct	8	12	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:100503108C>G	uc003hvc.3	+	3	364	c.108C>G	c.(106-108)CTC>CTG	p.L36L	MTTP_uc011cej.1_Silent_p.L63L|MTTP_uc003hvb.2_Silent_p.L36L	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	36	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	TGTACAAGCTCACGTACTCCA	0.458													48	125	---	---	---	---	PASS	G	100503108	G	G	100503108	2	3	135	1	0	0	0	0	0	0	0	1	9964	813	29	2		2	MTTP	4	100503108	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	13607026	100503108	90651168	93	48234										
TACR3	6870	broad.mit.edu	37	chr4	104640781	104640781	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	caggttcacggcgtctgcacCcacgcctccacccccgtcta	8	20	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:104640781C>T	uc003hxe.1	-	1	195	c.52G>A	c.(52-54)GGT>AGT	p.G18S		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	18	Extracellular (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		GCGTCTGCACCCACGCCTCCA	0.687													10	24	---	---	---	---	PASS	T	104640781	T	T	104640781	3	4	135	1	0	0	0	0	1	0	0	0	15504	623	22	3	1365	3	TACR3	4	104640781	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	4137673	104640781	86513495	94	48235										
C4orf21	55345	broad.mit.edu	37	chr4	113540013	113540013	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	acttcctgattccaggatggAtcattattaccgactgactg	8	10	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:113540013A>G	uc003iau.2	-	6	1396	c.1185T>C	c.(1183-1185)GAT>GAC	p.D395D	C4orf21_uc003iaw.2_Silent_p.D395D	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		TCCAGGATGGATCATTATTAC	0.333													42	134	---	---	---	---	PASS	G	113540013	G	G	113540013	2	3	135	1	0	0	0	0	0	0	0	1	2254	330	12	5		5	C4orf21	4	113540013	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	8899232	113540013	77614263	95	48236										
PCDH10	57575	broad.mit.edu	37	chr4	134073364	134073364	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggagccccagggcgggggcgGgagcggaggcggagggtcag	25	9	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:134073364G>T	uc003iha.2	+	1	2895	c.2069G>T	c.(2068-2070)GGG>GTG	p.G690V	PCDH10_uc003igz.2_Missense_Mutation_p.G690V	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	690	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		ggcgggggcgggagcggaggc	0.587													11	29	---	---	---	---	PASS	T	134073364	T	T	134073364	3	4	135	1	0	0	0	0	1	0	0	0	11507	1232	43	3	2071	3	PCDH10	4	134073364	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	20533351	134073364	57080912	96	48237										
PCDH10	57575	broad.mit.edu	37	chr4	134073527	134073527	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtgcgttgccaaaaagagaaGaagctcaacatctatacttg	9	8	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:134073527G>A	uc003iha.2	+	1	3058	c.2232G>A	c.(2230-2232)AAG>AAA	p.K744K	PCDH10_uc003igz.2_Silent_p.K744K	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	744	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AAAAAGAGAAGAAGCTCAACA	0.607													14	66	---	---	---	---	PASS	A	134073527	A	A	134073527	2	1	135	1	0	0	0	0	0	0	0	1	11507	933	33	2		2	PCDH10	4	134073527	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	163	134073527	57080749	97	48238										
SH3D19	152503	broad.mit.edu	37	chr4	152058934	152058934	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gccaatctggtttctacagtTccctctgtaccaatctgtat	6	12	4	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:152058934T>C	uc010ipl.1	-	15	2696	c.1606A>G	c.(1606-1608)AAC>GAC	p.N536D	SH3D19_uc003imb.2_Missense_Mutation_p.N291D|SH3D19_uc003imc.2_Missense_Mutation_p.N477D|SH3D19_uc003ime.2_Missense_Mutation_p.N513D|SH3D19_uc010ipm.2_Missense_Mutation_p.N513D	NM_001009555	NP_001009555	Q5HYK7	SH319_HUMAN	SH3 domain containing 19 isoform a	536	SH3 2.				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)				TTTCTACAGTTCCCTCTGTAC	0.353													29	114	---	---	---	---	PASS	C	152058934	C	C	152058934	3	2	135	1	0	0	0	0	1	0	0	0	14249	1783	62	5	794	5	SH3D19	4	152058934	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	17985407	152058934	39095342	98	48239										
GUCY1A3	2982	broad.mit.edu	37	chr4	156618161	156618161	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aagcaaccgtgcccatctgtCaagacattcctgagaagaac	8	12	2	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:156618161C>G	uc003iov.2	+	4	678	c.142C>G	c.(142-144)CAA>GAA	p.Q48E	GUCY1A3_uc003iou.2_Missense_Mutation_p.Q48E|GUCY1A3_uc010iqc.2_Missense_Mutation_p.Q48E|GUCY1A3_uc003iow.2_Missense_Mutation_p.Q48E|GUCY1A3_uc010iqd.2_Missense_Mutation_p.Q48E|GUCY1A3_uc003iox.2_Missense_Mutation_p.Q48E|GUCY1A3_uc003ioz.2_5'UTR|GUCY1A3_uc003ioy.2_Missense_Mutation_p.Q48E|GUCY1A3_uc010iqe.2_5'UTR|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.Q48E	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	48					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		GCCCATCTGTCAAGACATTCC	0.478													19	93	---	---	---	---	PASS	G	156618161	G	G	156618161	3	3	135	1	0	0	0	0	1	0	0	0	6894	827	29	2	144	2	GUCY1A3	4	156618161	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	4559227	156618161	34536115	99	48240										
GUCY1B3	2983	broad.mit.edu	37	chr4	156723541	156723541	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgttgccaatgagctgcggcAcaagcgtccagtgcctgcca	12	13	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:156723541A>G	uc003ipc.2	+	10	1390	c.1223A>G	c.(1222-1224)CAC>CGC	p.H408R	GUCY1B3_uc011cio.1_Missense_Mutation_p.H430R|GUCY1B3_uc011cip.1_Missense_Mutation_p.H388R|GUCY1B3_uc003ipd.2_Missense_Mutation_p.H336R|GUCY1B3_uc010iqf.2_Intron|GUCY1B3_uc010iqg.2_Missense_Mutation_p.H379R|GUCY1B3_uc011ciq.1_Missense_Mutation_p.H336R	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	408					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		GAGCTGCGGCACAAGCGTCCA	0.478													14	58	---	---	---	---	PASS	G	156723541	G	G	156723541	3	3	135	1	0	0	0	0	1	0	0	0	6895	159	6	5	1261	5	GUCY1B3	4	156723541	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	105380	156723541	34430735	100	48241										
TRIML1	339976	broad.mit.edu	37	chr4	189065247	189065247	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	accacagagctgagtctgtgCcgcatcacgggaatgaagga	13	10	2	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr4:189065247C>A	uc003izm.1	+	5	931	c.816C>A	c.(814-816)TGC>TGA	p.C272*	TRIML1_uc003izn.1_5'UTR	NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	272	B30.2/SPRY.				multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		TGAGTCTGTGCCGCATCACGG	0.537													3	39	---	---	---	---	PASS	A	189065247	A	A	189065247	4	1	135	1	0	0	0	0	0	1	0	0	16547	747	26	3	834	3	TRIML1	4	189065247	Nonsense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	32341706	189065247	2089029	101	48242										
IRX1	79192	broad.mit.edu	37	chr5	3599690	3599690	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gagcgctcttcggcagcgacAccgagggcgacccggagaag	16	13	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:3599690A>G	uc003jde.2	+	2	680	c.628A>G	c.(628-630)ACC>GCC	p.T210A		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	210						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CGGCAGCGACACCGAGGGCGA	0.627													30	50	---	---	---	---	PASS	G	3599690	G	G	3599690	3	3	135	1	0	0	0	0	1	0	0	0	7843	159	6	5	634	5	IRX1	5	3599690	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08		3599690	177315570	102	48243										
ADAMTS16	170690	broad.mit.edu	37	chr5	5186346	5186346	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gaaaatatcaccacctacgtGctcacgatactcaacatggt	6	12	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:5186346G>A	uc003jdl.2	+	5	1083	c.945G>A	c.(943-945)GTG>GTA	p.V315V	ADAMTS16_uc003jdk.1_Silent_p.V315V|ADAMTS16_uc003jdj.1_Silent_p.V315V	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	315	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding	p.V315V(1)		ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CCACCTACGTGCTCACGATAC	0.398													7	98	---	---	---	---	PASS	A	5186346	A	A	5186346	2	1	135	1	0	0	0	0	0	0	0	1	261	1306	46	3		3	ADAMTS16	5	5186346	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	1586656	5186346	175728914	103	48244										
CDH18	1016	broad.mit.edu	37	chr5	19483410	19483410	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tagggtttagaatgacttacCcaggagaatgagaacacaga	11	6	0	5			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:19483410C>A	uc003jgc.2	-	11	2259	c.1882G>T	c.(1882-1884)GCA>TCA	p.A628S	CDH18_uc003jgd.2_Missense_Mutation_p.A628S|CDH18_uc011cnm.1_3'UTR	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	628	Helical; (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					AATGACTTACCCAGGAGAATG	0.458													15	92	---	---	---	---	PASS	A	19483410	A	A	19483410	3	1	135	1	0	0	0	0	1	0	0	0	3103	637	22	3	498	3	CDH18	5	19483410	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	14297064	19483410	161431850	104	48245										
CDH12	1010	broad.mit.edu	37	chr5	21752313	21752313	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cagggtgtcttttttcttctGccttcgcagtgctacataca	8	11	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:21752313G>T	uc010iuc.2	-	12	2376	c.1918C>A	c.(1918-1920)CAG>AAG	p.Q640K	CDH12_uc011cno.1_Missense_Mutation_p.Q600K|CDH12_uc003jgk.2_Missense_Mutation_p.Q640K|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	640	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TTTTTCTTCTGCCTTCGCAGT	0.413										HNSCC(59;0.17)			15	213	---	---	---	---	PASS	T	21752313	T	T	21752313	3	4	135	1	0	0	0	0	1	0	0	0	3098	1328	46	3	470	3	CDH12	5	21752313	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	2268903	21752313	159162947	105	48246										
CDH10	1008	broad.mit.edu	37	chr5	24488107	24488107	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tttttcctcaatggctgcagGattcctcagggtgccgatat	10	10	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:24488107G>A	uc003jgr.1	-	12	2364	c.2032C>T	c.(2032-2034)CCT>TCT	p.P678S	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	678	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		ATGGCTGCAGGATTCCTCAGG	0.483										HNSCC(23;0.051)			35	168	---	---	---	---	PASS	A	24488107	A	A	24488107	3	1	135	1	0	0	0	0	1	0	0	0	3096	1174	41	2	338	2	CDH10	5	24488107	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	2735794	24488107	156427153	106	48247										
CDH10	1008	broad.mit.edu	37	chr5	24498605	24498605	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aattctcacaaaaacagccaCgcgtgttgtctctttgggat	8	10	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:24498605C>T	uc003jgr.1	-	9	1749	c.1417G>A	c.(1417-1419)GTG>ATG	p.V473M	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	473	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AAAACAGCCACGCGTGTTGTC	0.388										HNSCC(23;0.051)			19	196	---	---	---	---	PASS	T	24498605	T	T	24498605	3	4	135	1	0	0	0	0	1	0	0	0	3096	536	19	1	965	1	CDH10	5	24498605	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	10498	24498605	156416655	107	48248										
RAD1	5810	broad.mit.edu	37	chr5	34911720	34911720	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttcactcgtcatatccaattCagaaaatgcttcacggagcc	6	12	4	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:34911720C>T	uc003jix.2	-	4	834	c.505G>A	c.(505-507)GAA>AAA	p.E169K	RAD1_uc003jiw.2_Missense_Mutation_p.E60K|RAD1_uc003jiy.2_Missense_Mutation_p.E169K	NM_002853	NP_002844	O60671	RAD1_HUMAN	RAD1 homolog	169					DNA damage checkpoint|DNA repair|DNA replication|meiotic prophase I	nucleoplasm	3'-5' exonuclease activity|damaged DNA binding|exodeoxyribonuclease III activity|protein binding				0	all_lung(31;0.000107)	Lung NSC(810;5.19e-05)|Ovarian(839;0.0448)|Breast(839;0.198)	COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)			ATATCCAATTCAGAAAATGCT	0.418								Other_conserved_DNA_damage_response_genes					49	276	---	---	---	---	PASS	T	34911720	T	T	34911720	3	4	135	1	0	0	0	0	1	0	0	0	12978	835	29	2	355	2	RAD1	5	34911720	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	10413115	34911720	146003540	108	48249										
IL7R	3575	broad.mit.edu	37	chr5	35876139	35876139	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tggactgccagattcataggGtggatgacattcaagctaga	12	7	2	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:35876139G>A	uc003jjs.2	+	8	1020	c.931G>A	c.(931-933)GTG>ATG	p.V311M	IL7R_uc011cop.1_RNA	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	311	Cytoplasmic (Potential).				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			GATTCATAGGGTGGATGACAT	0.433													99	75	---	---	---	---	PASS	A	35876139	A	A	35876139	3	1	135	1	0	0	0	0	1	0	0	0	7705	1261	44	3	961	3	IL7R	5	35876139	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	964419	35876139	145039121	109	48250										
HEATR7B2	133558	broad.mit.edu	37	chr5	41064647	41064647	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgcatggtgagcagggtcatCatcatgaaaggaatactctg	12	7	4	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:41064647C>A	uc003jmj.3	-	5	877	c.387G>T	c.(385-387)ATG>ATT	p.M129I		NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	129							binding			ovary(6)|central_nervous_system(2)	8						GCAGGGTCATCATCATGAAAG	0.463													7	62	---	---	---	---	PASS	A	41064647	A	A	41064647	3	1	135	1	0	0	0	0	1	0	0	0	7035	826	29	2	4522	2	HEATR7B2	5	41064647	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	5188508	41064647	139850613	110	48251										
C5orf34	375444	broad.mit.edu	37	chr5	43506461	43506461	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtaccatctgtatcaagactGggccatctcacttctgttat	7	11	4	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:43506461G>A	uc003jnz.1	-	5	638	c.321C>T	c.(319-321)CCC>CCT	p.P107P	C5orf34_uc011cpx.1_5'UTR	NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	107										breast(1)	1	Lung NSC(6;2.07e-05)					TATCAAGACTGGGCCATCTCA	0.413													27	177	---	---	---	---	PASS	A	43506461	A	A	43506461	2	1	135	1	0	0	0	0	0	0	0	1	2293	1335	47	3		3	C5orf34	5	43506461	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	2441814	43506461	137408799	111	48252										
NNT	23530	broad.mit.edu	37	chr5	43656767	43656767	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggctctaggtctcctgaaatCtgcccctctcctactgcctg	8	16	4	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:43656767C>T	uc003joe.2	+	16	2561	c.2306C>T	c.(2305-2307)TCT>TTT	p.S769F	NNT_uc003jof.2_Missense_Mutation_p.S769F	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	769					tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	CTCCTGAAATCTGCCCCTCTC	0.443													40	199	---	---	---	---	PASS	T	43656767	T	T	43656767	3	4	135	1	0	0	0	0	1	0	0	0	10510	913	32	2	2364	2	NNT	5	43656767	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	150306	43656767	137258493	112	48253										
CCNB1	891	broad.mit.edu	37	chr5	68473065	68473065	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aacattaacttgttgccttaGacaccaactctacaacatta	3	11	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:68473065G>C	uc003jvm.2	+	8	1261	c.1084_splice	c.e8-1	p.T362_splice	CCNB1_uc011crd.1_Splice_Site_p.T362_splice|CCNB1_uc010ixb.2_Intron	NM_031966	NP_114172	P14635	CCNB1_HUMAN	cyclin B1						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitotic cell cycle spindle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|mitotic spindle stabilization|positive regulation of attachment of spindle microtubules to kinetochore|positive regulation of mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	condensed nuclear chromosome outer kinetochore|cytosol|microtubule organizing center|nucleoplasm|spindle pole					0		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		TGTTGCCTTAGACACCAACTC	0.348													17	66	---	---	---	---	PASS	C	68473065	C	C	68473065	5	2	135	1	0	0	0	0	0	0	1	0	2911	956	33	2	1113	2	CCNB1	5	68473065	Splice_Site	SNP	G	TCGA-60-2726-01A-01D-1522-08	24816298	68473065	112442195	113	48254										
FAM174A	345757	broad.mit.edu	37	chr5	99871237	99871237	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gagagcggtccgggaacgatGaaggcctcgcagtgctgctg	17	10	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:99871237G>A	uc003knj.1	+	1	123	c.3G>A	c.(1-3)ATG>ATA	p.M1I	uc003kni.2_5'Flank	NM_198507	NP_940909	Q8TBP5	F174A_HUMAN	family with sequence similarity 174, member A	1						integral to membrane					0						CGGGAACGATGAAGGCCTCGC	0.657													23	101	---	---	---	---	PASS	A	99871237	A	A	99871237	3	1	135	1	0	0	0	0	1	0	0	0	5495	1290	45	2	5	2	FAM174A	5	99871237	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	31398172	99871237	81044023	114	48255										
FBN2	2201	broad.mit.edu	37	chr5	127686619	127686619	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cgagggtggcacagcattcaGatttcagagtggctccatta	12	9	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:127686619G>T	uc003kuu.2	-	21	3192	c.2753C>A	c.(2752-2754)TCT>TAT	p.S918Y	FBN2_uc003kuv.2_Missense_Mutation_p.S885Y	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	918	TB 4.				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)		ACAGCATTCAGATTTCAGAGT	0.547													27	81	---	---	---	---	PASS	T	127686619	T	T	127686619	3	4	135	1	0	0	0	0	1	0	0	0	5703	942	33	2	6165	2	FBN2	5	127686619	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	27815382	127686619	53228641	115	48256										
SLC22A5	6584	broad.mit.edu	37	chr5	131726406	131726406	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	accatatcagtgggctatttTgggctttcgcttgatactcc	9	10	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:131726406T>G	uc003kww.3	+	7	1341	c.1077T>G	c.(1075-1077)TTT>TTG	p.F359L	SLC22A5_uc003kwx.3_Missense_Mutation_p.F383L|SLC22A5_uc010jdr.1_Intron	NM_003060	NP_003051	O76082	S22A5_HUMAN	solute carrier family 22 member 5	359	Helical; Name=7; (Potential).				positive regulation of intestinal epithelial structure maintenance|quorum sensing involved in interaction with host|sodium ion transport|sodium-dependent organic cation transport	apical plasma membrane|brush border membrane|integral to membrane	ATP binding|carnitine transporter activity|PDZ domain binding|symporter activity				0		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Carnitine(DB00583)	TGGGCTATTTTGGGCTTTCGC	0.458													43	165	---	---	---	---	PASS	G	131726406	G	G	131726406	3	3	135	1	0	0	0	0	1	0	0	0	14457	1809	63	5	1103	5	SLC22A5	5	131726406	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	4039787	131726406	49188854	116	48257										
PCDHA9	9752	broad.mit.edu	37	chr5	140228222	140228222	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	acggcaccttcgtgggccgcAtcgcgcaggacctggggctg	16	14	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:140228222A>G	uc003lhu.2	+	1	866	c.142A>G	c.(142-144)ATC>GTC	p.I48V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.I48V	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	48	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGGGCCGCATCGCGCAGGA	0.647													48	131	---	---	---	---	PASS	G	140228222	G	G	140228222	3	3	135	1	0	0	0	0	1	0	0	0	11531	217	8	5	144	5	PCDHA9	5	140228222	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	8501816	140228222	40687038	117	48258										
PCDHB13	56123	broad.mit.edu	37	chr5	140594731	140594731	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tagatgtgaacgaccatgccCcagaagttaccatgtctgca	9	11	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:140594731C>A	uc003lja.1	+	1	1223	c.1036C>A	c.(1036-1038)CCA>ACA	p.P346T		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	346	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGACCATGCCCCAGAAGTTAC	0.438													71	358	---	---	---	---	PASS	A	140594731	A	A	140594731	3	1	135	1	0	0	0	0	1	0	0	0	11538	623	22	3	1038	3	PCDHB13	5	140594731	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	366509	140594731	40320529	118	48259										
PCDHGA1	56114	broad.mit.edu	37	chr5	140710502	140710502	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gaatcctagaagtggcagctTgatcaccgcgcgcaggatag	13	10	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:140710502T>G	uc003lji.1	+	1	251	c.251T>G	c.(250-252)TTG>TGG	p.L84W	PCDHGA1_uc011dan.1_Missense_Mutation_p.L84W	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	84	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTGGCAGCTTGATCACCGCG	0.547													39	110	---	---	---	---	PASS	G	140710502	G	G	140710502	3	3	135	1	0	0	0	0	1	0	0	0	11550	1821	63	5	253	5	PCDHGA1	5	140710502	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	115771	140710502	40204758	119	48260										
PCDHGB6	56100	broad.mit.edu	37	chr5	140789170	140789170	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtggccgagaacaacccgccAggagcctccattgcgcaagt	12	14	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:140789170A>T	uc003lkj.1	+	1	1401	c.1401A>T	c.(1399-1401)CCA>CCT	p.P467P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Silent_p.P467P	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	467	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAACCCGCCAGGAGCCTCCA	0.587													10	40	---	---	---	---	PASS	T	140789170	T	T	140789170	2	4	135	1	0	0	0	0	0	0	0	1	11567	175	7	5		5	PCDHGB6	5	140789170	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	78668	140789170	40126090	120	48261										
ARSI	340075	broad.mit.edu	37	chr5	149681648	149681648	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gccagtgaggagctggctccGcgaaggcgtgcagatgggct	18	10	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:149681648G>A	uc003lrv.2	-	1	878	c.289C>T	c.(289-291)CGG>TGG	p.R97W		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	97						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGCTGGCTCCGCGAAGGCGTG	0.577													3	11	---	---	---	---	PASS	A	149681648	A	A	149681648	3	1	135	1	0	0	0	0	1	0	0	0	994	1086	38	1	1428	1	ARSI	5	149681648	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	8892478	149681648	31233612	121	48262										
GABRA1	2554	broad.mit.edu	37	chr5	161281237	161281237	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccaggattttggacagactcCtagatggttatgacaatcgc	10	9	0	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:161281237C>T	uc010jiw.2	+	4	616	c.148C>T	c.(148-150)CTA>TTA	p.L50L	GABRA1_uc010jix.2_Silent_p.L50L|GABRA1_uc010jiy.2_Silent_p.L50L|GABRA1_uc003lyx.3_Silent_p.L50L|GABRA1_uc010jiz.2_Silent_p.L50L|GABRA1_uc010jja.2_Silent_p.L50L|GABRA1_uc010jjb.2_Silent_p.L50L	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	50	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|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			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	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;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	GGACAGACTCCTAGATGGTTA	0.378													19	73	---	---	---	---	PASS	T	161281237	T	T	161281237	2	4	135	1	0	0	0	0	0	0	0	1	6160	680	24	3		3	GABRA1	5	161281237	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	11599589	161281237	19634023	122	48263										
CPEB4	80315	broad.mit.edu	37	chr5	173317235	173317235	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctagcgcatcgtctcttactGgtttcagtaactggtcagca	9	11	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:173317235G>T	uc003mcs.3	+	1	1905	c.499G>T	c.(499-501)GGT>TGT	p.G167C	CPEB4_uc010jju.1_Missense_Mutation_p.G167C|CPEB4_uc010jjv.2_Missense_Mutation_p.G167C|CPEB4_uc011dfg.1_Missense_Mutation_p.G167C|CPEB4_uc003mct.3_5'Flank|CPEB4_uc003mcu.3_5'Flank	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	167							nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GTCTCTTACTGGTTTCAGTAA	0.493													37	133	---	---	---	---	PASS	T	173317235	T	T	173317235	3	4	135	1	0	0	0	0	1	0	0	0	3803	1348	47	3	501	3	CPEB4	5	173317235	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	12035998	173317235	7598025	123	48264										
PDLIM7	9260	broad.mit.edu	37	chr5	176915221	176915221	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aaactcctccgggtggtacgCgtggcccagcgccaccaggt	13	15	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr5:176915221C>A	uc003mhc.1	-	10	983	c.898G>T	c.(898-900)GCG>TCG	p.A300S	PDLIM7_uc003mha.1_Missense_Mutation_p.A194S|PDLIM7_uc003mhb.1_Missense_Mutation_p.A266S|PDLIM7_uc003mhd.1_Missense_Mutation_p.A152S|PDLIM7_uc003mhe.1_RNA|PDLIM7_uc003mhf.2_Missense_Mutation_p.R279L	NM_005451	NP_005442	Q9NR12	PDLI7_HUMAN	PDZ and LIM domain 7 isoform 1	300	LIM zinc-binding 1.				cell differentiation|multicellular organismal development|ossification|receptor-mediated endocytosis	cytoplasm|focal adhesion	protein binding|zinc ion binding			breast(1)	1	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGGTGGTACGCGTGGCCCAGC	0.642													3	98	---	---	---	---	PASS	A	176915221	A	A	176915221	3	1	135	1	0	0	0	0	1	0	0	0	11684	768	27	1	491	1	PDLIM7	5	176915221	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	3597986	176915221	4000039	124	48265										
NKAPL	222698	broad.mit.edu	37	chr6	28228142	28228142	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gggttgacaagtgaagagatCggttcttttgaatgctcagg	14	5	2	4	rs140336392	by1000genomes	TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:28228142C>A	uc003nkt.2	+	1	1045	c.993C>A	c.(991-993)ATC>ATA	p.I331I	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	331										upper_aerodigestive_tract(1)|ovary(1)	2						GTGAAGAGATCGGTTCTTTTG	0.483													80	136	---	---	---	---	PASS	A	28228142	A	A	28228142	2	1	135	1	0	0	0	0	0	0	0	1	10440	874	31	2		2	NKAPL	6	28228142	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08		28228142	142886925	125	48266										
TNXB	7148	broad.mit.edu	37	chr6	32036344	32036344	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtactggaccaggaagtggtCaaactgtccctcgggaactg	13	10	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:32036344C>G	uc003nzl.2	-	17	6245	c.6043G>C	c.(6043-6045)GAC>CAC	p.D2015H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2097	Fibronectin type-III 13.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						AGGAAGTGGTCAAACTGTCCC	0.647													8	96	---	---	---	---	PASS	G	32036344	G	G	32036344	3	3	135	1	0	0	0	0	1	0	0	0	16343	826	29	2	8782	2	TNXB	6	32036344	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	3808202	32036344	139078723	126	48267										
TNXB	7148	broad.mit.edu	37	chr6	32036704	32036704	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	caggccagagagggtgatgtCattccggtcacctcctatgc	12	12	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:32036704C>A	uc003nzl.2	-	16	5999	c.5797G>T	c.(5797-5799)GAC>TAC	p.D1933Y		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2015	Fibronectin type-III 12.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						AGGGTGATGTCATTCCGGTCA	0.532													32	261	---	---	---	---	PASS	A	32036704	A	A	32036704	3	1	135	1	0	0	0	0	1	0	0	0	16343	826	29	2	9032	2	TNXB	6	32036704	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	360	32036704	139078363	127	48268										
BRPF3	27154	broad.mit.edu	37	chr6	36182091	36182091	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcgaggaagagcgccactccCggaagcggccaaggagcagg	16	12	0	1	rs148223802	byFrequency	TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:36182091C>T	uc003olv.3	+	8	3141	c.2917C>T	c.(2917-2919)CGG>TGG	p.R973W	BRPF3_uc010jwb.2_Intron|BRPF3_uc011dtj.1_Intron|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Intron	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	973					histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						GCGCCACTCCCGGAAGCGGCC	0.617													16	76	---	---	---	---	PASS	T	36182091	T	T	36182091	3	4	135	1	0	0	0	0	1	0	0	0	1521	643	23	1	2943	1	BRPF3	6	36182091	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	4145387	36182091	134932976	128	48269										
ABCC10	89845	broad.mit.edu	37	chr6	43415558	43415558	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gaagttgggcatcgtgggccGcacaggctccggcaagtctt	15	11	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:43415558G>A	uc003ouy.1	+	18	4057	c.3842G>A	c.(3841-3843)CGC>CAC	p.R1281H	ABCC10_uc003ouz.1_Missense_Mutation_p.R1253H|ABCC10_uc010jyo.1_Missense_Mutation_p.R387H	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	1281	ABC transporter 2.|ATP 2 (Potential).					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			ATCGTGGGCCGCACAGGCTCC	0.642													5	265	---	---	---	---	PASS	A	43415558	A	A	43415558	3	1	135	1	0	0	0	0	1	0	0	0	50	1087	38	1	3820	1	ABCC10	6	43415558	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	7233467	43415558	127699509	129	48270										
TFAP2D	83741	broad.mit.edu	37	chr6	50682991	50682991	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccactaaccaccagtacaccCcgctccaccaccagtccttc	3	22	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:50682991C>A	uc003paf.2	+	2	714	c.202C>A	c.(202-204)CCG>ACG	p.P68T	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	68							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					CCAGTACACCCCGCTCCACCA	0.572													26	112	---	---	---	---	PASS	A	50682991	A	A	50682991	3	1	135	1	0	0	0	0	1	0	0	0	15787	623	22	3	208	3	TFAP2D	6	50682991	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	7267433	50682991	120432076	130	48271										
KLHL31	401265	broad.mit.edu	37	chr6	53519386	53519386	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctggaatgctactatctcagAaggcaactgtaagtcatcat	8	9	3	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:53519386A>C	uc003pcb.3	-	2	826	c.685T>G	c.(685-687)TCT>GCT	p.S229A		NM_001003760	NP_001003760	Q9H511	KLH31_HUMAN	kelch repeat and BTB (POZ) domain containing 1	229	BACK.				regulation of transcription, DNA-dependent|transcription, DNA-dependent					ovary(1)	1	Lung NSC(77;0.0158)					ACTATCTCAGAAGGCAACTGT	0.348													42	179	---	---	---	---	PASS	C	53519386	C	C	53519386	3	2	135	1	0	0	0	0	1	0	0	0	8385	246	9	5	1227	5	KLHL31	6	53519386	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	2836395	53519386	117595681	131	48272										
COL21A1	81578	broad.mit.edu	37	chr6	55922602	55922602	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccagggagacctgggtctccTggaggaccttctttgcttat	12	11	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:55922602T>A	uc003pcs.2	-	30	2959	c.2727A>T	c.(2725-2727)CCA>CCT	p.P909P	COL21A1_uc010jzz.2_Silent_p.P294P|COL21A1_uc011dxg.1_Silent_p.P282P|COL21A1_uc011dxh.1_Silent_p.P260P|COL21A1_uc003pcr.2_Silent_p.P266P	NM_030820	NP_110447	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1 precursor	909					cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(2)	2	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			CTGGGTCTCCTGGAGGACCTT	0.498													13	17	---	---	---	---	PASS	A	55922602	A	A	55922602	2	1	135	1	0	0	0	0	0	0	0	1	3680	1567	55	5		5	COL21A1	6	55922602	Silent	SNP	T	TCGA-60-2726-01A-01D-1522-08	2403216	55922602	115192465	132	48273										
RIMS1	22999	broad.mit.edu	37	chr6	72974742	72974742	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tattacagagcagttctcacTggaatatttacaggtaagag	9	6	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:72974742T>C	uc003pga.2	+	20	3258	c.3181T>C	c.(3181-3183)TGG>CGG	p.W1061R	RIMS1_uc011dyb.1_Intron|RIMS1_uc003pgc.2_Intron|RIMS1_uc010kaq.2_Intron|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Intron|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Missense_Mutation_p.W278R|RIMS1_uc003pge.2_Intron|RIMS1_uc011dye.1_Intron|RIMS1_uc011dyf.1_Intron|RIMS1_uc010kas.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1061					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)				CAGTTCTCACTGGAATATTTA	0.383													10	18	---	---	---	---	PASS	C	72974742	C	C	72974742	3	2	135	1	0	0	0	0	1	0	0	0	13367	1580	55	5	3422	5	RIMS1	6	72974742	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	17052140	72974742	98140325	133	48274										
HTR1B	3351	broad.mit.edu	37	chr6	78172433	78172433	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gcgggcttctacgtagatgcGgccatagagggcgatgagga	17	8	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:78172433G>A	uc003pil.1	-	1	688	c.688C>T	c.(688-690)CGC>TGC	p.R230C		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	230	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	ACGTAGATGCGGCCATAGAGG	0.607													22	96	---	---	---	---	PASS	A	78172433	A	A	78172433	3	1	135	1	0	0	0	0	1	0	0	0	7437	1116	39	1	488	1	HTR1B	6	78172433	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	5197691	78172433	92942634	134	48275										
GJA10	84694	broad.mit.edu	37	chr6	90605323	90605323	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tacggctcctagaaactgtcCatcctttgcagtaggaacct	8	12	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:90605323C>T	uc011eaa.1	+	1	1136	c.1136C>T	c.(1135-1137)CCA>CTA	p.P379L		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	379	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		AGAAACTGTCCATCCTTTGCA	0.522													70	93	---	---	---	---	PASS	T	90605323	T	T	90605323	3	4	135	1	0	0	0	0	1	0	0	0	6401	594	21	3	1138	3	GJA10	6	90605323	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	12432890	90605323	80509744	135	48276										
FRK	2444	broad.mit.edu	37	chr6	116289811	116289811	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tagtggctcacaaattcgttCagtgttgaaaagattcttct	8	7	4	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:116289811C>T	uc003pwi.1	-	3	1005	c.558G>A	c.(556-558)CTG>CTA	p.L186L		NM_002031	NP_002022	P42685	FRK_HUMAN	fyn-related kinase	186	SH2.				negative regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|lung(3)	6		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)		CAAATTCGTTCAGTGTTGAAA	0.418													125	165	---	---	---	---	PASS	T	116289811	T	T	116289811	2	4	135	1	0	0	0	0	0	0	0	1	6048	813	29	2		2	FRK	6	116289811	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	25684488	116289811	54825256	136	48277										
FAM184A	79632	broad.mit.edu	37	chr6	119301350	119301350	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	catagtttgaaatgcaaggaCatgtgcttcttttaatgatt	8	5	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:119301350C>T	uc003pyj.2	-	10	2602	c.2254G>A	c.(2254-2256)GTC>ATC	p.V752I	FAM184A_uc003pyk.3_Missense_Mutation_p.V632I|FAM184A_uc003pyl.3_Missense_Mutation_p.V632I	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	752	Potential.									ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						AATGCAAGGACATGTGCTTCT	0.393													50	101	---	---	---	---	PASS	T	119301350	T	T	119301350	3	4	135	1	0	0	0	0	1	0	0	0	5511	478	17	3	1204	3	FAM184A	6	119301350	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	3011539	119301350	51813717	137	48278										
TAAR8	83551	broad.mit.edu	37	chr6	132874072	132874072	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cctgtgctgacttcttggtaGgtgtgactgtgatgcttttc	12	8	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:132874072G>T	uc011ecj.1	+	1	241	c.241G>T	c.(241-243)GGT>TGT	p.G81C		NM_053278	NP_444508	Q969N4	TAAR8_HUMAN	trace amine associated receptor 8	81	Helical; Name=2; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00412)|GBM - Glioblastoma multiforme(226;0.00792)		CTTCTTGGTAGGTGTGACTGT	0.448													114	142	---	---	---	---	PASS	T	132874072	T	T	132874072	3	4	135	1	0	0	0	0	1	0	0	0	15490	1000	35	3	243	3	TAAR8	6	132874072	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	13572722	132874072	38240995	138	48279										
BCLAF1	9774	broad.mit.edu	37	chr6	136597033	136597033	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tttgagtttgacttcaggacGgtgagaatcactcgctatca	10	8	3	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:136597033G>A	uc003qgx.1	-	5	1883	c.1630C>T	c.(1630-1632)CGT>TGT	p.R544C	BCLAF1_uc003qgw.1_Missense_Mutation_p.R371C|BCLAF1_uc003qgy.1_Missense_Mutation_p.R542C|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.R542C	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	544					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		ACTTCAGGACGGTGAGAATCA	0.428													50	526	---	---	---	---	PASS	A	136597033	A	A	136597033	3	1	135	1	0	0	0	0	1	0	0	0	1383	1116	39	1	1168	1	BCLAF1	6	136597033	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	3722961	136597033	34518034	139	48280										
GRM1	2911	broad.mit.edu	37	chr6	146480698	146480698	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctcctgagcgccatgcggcgCcttggcgtcgtgggcgagtt	16	13	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:146480698C>A	uc010khw.1	+	3	1385	c.915C>A	c.(913-915)CGC>CGA	p.R305R	GRM1_uc010khu.1_Silent_p.R305R|GRM1_uc010khv.1_Silent_p.R305R|GRM1_uc003qll.2_Silent_p.R305R|GRM1_uc011edz.1_Silent_p.R305R|GRM1_uc011eea.1_Silent_p.R305R	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	305	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CCATGCGGCGCCTTGGCGTCG	0.413													12	56	---	---	---	---	PASS	A	146480698	A	A	146480698	2	1	135	1	0	0	0	0	0	0	0	1	6796	726	26	3		3	GRM1	6	146480698	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	9883665	146480698	24634369	140	48281										
SYNE1	23345	broad.mit.edu	37	chr6	152472788	152472788	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gccagaccagaatgctgtccCgcgcagtctcaaactcctca	8	16	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:152472788C>T	uc010kiw.2	-	135	24952	c.24350G>A	c.(24349-24351)CGG>CAG	p.R8117Q	SYNE1_uc010kiv.2_Missense_Mutation_p.R2641Q|SYNE1_uc003qos.3_Missense_Mutation_p.R2641Q|SYNE1_uc003qot.3_Missense_Mutation_p.R8046Q|SYNE1_uc003qou.3_Missense_Mutation_p.R8117Q|SYNE1_uc003qop.3_Missense_Mutation_p.R279Q|SYNE1_uc011eez.1_Missense_Mutation_p.R319Q|SYNE1_uc003qoq.3_Missense_Mutation_p.R319Q|SYNE1_uc003qor.3_Missense_Mutation_p.R1017Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	8117	Spectrin 30.|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)		AATGCTGTCCCGCGCAGTCTC	0.403										HNSCC(10;0.0054)			15	42	---	---	---	---	PASS	T	152472788	T	T	152472788	3	4	135	1	0	0	0	0	1	0	0	0	15442	652	23	1	2164	1	SYNE1	6	152472788	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	5992090	152472788	18642279	141	48282										
SYNE1	23345	broad.mit.edu	37	chr6	152485394	152485394	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcgatgtgagcgagccaggtCctcaggctgctcatgttctt	12	11	3	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:152485394C>A	uc010kiw.2	-	131	24296	c.23694G>T	c.(23692-23694)AGG>AGT	p.R7898S	SYNE1_uc010kiv.2_Missense_Mutation_p.R2422S|SYNE1_uc003qos.3_Missense_Mutation_p.R2422S|SYNE1_uc003qot.3_Missense_Mutation_p.R7827S|SYNE1_uc003qou.3_Missense_Mutation_p.R7898S|SYNE1_uc003qop.3_Missense_Mutation_p.R60S|SYNE1_uc011eez.1_Missense_Mutation_p.R100S|SYNE1_uc003qoq.3_Missense_Mutation_p.R100S|SYNE1_uc003qor.3_Missense_Mutation_p.R798S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7898	Spectrin 28.|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)		CGAGCCAGGTCCTCAGGCTGC	0.522										HNSCC(10;0.0054)			31	89	---	---	---	---	PASS	A	152485394	A	A	152485394	3	1	135	1	0	0	0	0	1	0	0	0	15442	854	30	2	2836	2	SYNE1	6	152485394	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	12606	152485394	18629673	142	48283										
RSPH3	83861	broad.mit.edu	37	chr6	159420467	159420467	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gggctggcttggtcactcacGgctgcgtcaggctgtcccgg	16	13	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:159420467G>T	uc003qrx.2	-	1	732	c.542C>A	c.(541-543)CCA>CAA	p.P181Q	RSPH3_uc010kju.2_Missense_Mutation_p.P181Q|RSPH3_uc003qry.1_Missense_Mutation_p.P181Q	NM_031924	NP_114130	Q86UC2	RSPH3_HUMAN	radial spoke 3 homolog	181										ovary(1)|skin(1)	2		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.36e-16)|BRCA - Breast invasive adenocarcinoma(81;5.92e-06)		GGTCACTCACGGCTGCGTCAG	0.662													8	28	---	---	---	---	PASS	T	159420467	T	T	159420467	3	4	135	1	0	0	0	0	1	0	0	0	13705	1130	39	1	1172	1	RSPH3	6	159420467	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	6935073	159420467	11694600	143	48284										
FAM120B	84498	broad.mit.edu	37	chr6	170627121	170627121	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gagagaagctctgtgagagtCtgggcctctgtgtggccgac	16	9	3	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr6:170627121C>G	uc003qxp.2	+	2	751	c.643C>G	c.(643-645)CTG>GTG	p.L215V	FAM120B_uc003qxo.1_Missense_Mutation_p.L215V|FAM120B_uc011ehd.1_Intron	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	215					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		CTGTGAGAGTCTGGGCCTCTG	0.502													36	127	---	---	---	---	PASS	G	170627121	G	G	170627121	3	3	135	1	0	0	0	0	1	0	0	0	5417	912	32	2	645	2	FAM120B	6	170627121	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	11206654	170627121	487946	144	48285										
LFNG	3955	broad.mit.edu	37	chr7	2565317	2565317	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gacaccttctcccttctcccAgcgtcctgtccacttctggt	6	18	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:2565317A>T	uc003smf.2	+	5	753	c.736_splice	c.e5-2	p.R246_splice	LFNG_uc003smg.2_Splice_Site_p.R246_splice	NM_001040167	NP_001035257	Q8NES3	LFNG_HUMAN	lunatic fringe isoform a						organ morphogenesis	extracellular region|integral to Golgi membrane	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.54e-14)		CCCTTCTCCCAGCGTCCTGTC	0.692													9	22	---	---	---	---	PASS	T	2565317	T	T	2565317	5	4	135	1	0	0	0	0	0	0	1	0	8737	202	7	5	1028	5	LFNG	7	2565317	Splice_Site	SNP	A	TCGA-60-2726-01A-01D-1522-08		2565317	156573346	145	48286										
DNAH11	8701	broad.mit.edu	37	chr7	21751446	21751446	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtttccagagctggtattctGtatgtgaacccacaagatct	9	9	2	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:21751446G>A	uc003svc.2	+	43	7003	c.6972G>A	c.(6970-6972)CTG>CTA	p.L2324L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2324	AAA 2 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTGGTATTCTGTATGTGAACC	0.358									Kartagener_syndrome				19	31	---	---	---	---	PASS	A	21751446	A	A	21751446	2	1	135	1	0	0	0	0	0	0	0	1	4599	1364	48	3		3	DNAH11	7	21751446	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	19186129	21751446	137387217	146	48287										
ADCYAP1R1	117	broad.mit.edu	37	chr7	31124364	31124364	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgcttcaggattattactacCtgtcagtgaaggccctctac	8	11	3	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:31124364C>A	uc003tca.1	+	8	674	c.451C>A	c.(451-453)CTG>ATG	p.L151M	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.L130M|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.L151M|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.L151M|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.L151M|ADCYAP1R1_uc003tcf.1_5'Flank	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	151	Extracellular (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						TTATTACTACCTGTCAGTGAA	0.582													17	117	---	---	---	---	PASS	A	31124364	A	A	31124364	3	1	135	1	0	0	0	0	1	0	0	0	303	680	24	3	477	3	ADCYAP1R1	7	31124364	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	9372918	31124364	128014299	147	48288										
TARP	445347	broad.mit.edu	37	chr7	38299821	38299821	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gaggtgtttgtgagctgcagCagtagtgtatctaagagaaa	14	4	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:38299821C>A	uc003tge.1	-	7	1193	c.816G>T	c.(814-816)CTG>CTT	p.L272L	uc003tfx.1_5'Flank|uc003tfz.1_Intron|TARP_uc003tgb.2_Silent_p.L68L|TARP_uc003tgc.1_Silent_p.L68L|TARP_uc003tgd.1_Silent_p.L68L			A2JGV3	A2JGV3_HUMAN	Homo sapiens TCRgamma alternate reading frame protein (TCRg) mRNA, complete cds.	Error:Variant_position_missing_in_A2JGV3_after_alignment											0						TGAGCTGCAGCAGTAGTGTAT	0.398													17	70	---	---	---	---	PASS	A	38299821	A	A	38299821	2	1	135	1	0	0	0	0	0	0	0	1	15555	697	25	3		3	TARP	7	38299821	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	7175457	38299821	120838842	148	48289										
VPS41	27072	broad.mit.edu	37	chr7	38807137	38807137	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgtgaaaatgtcatcattacCgtgctgctatgtcatagtct	8	8	4	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:38807137C>T	uc003tgy.2	-	15	1273	c.1247G>A	c.(1246-1248)CGC>CAC	p.R416H	VPS41_uc003tgz.2_Missense_Mutation_p.R391H|VPS41_uc010kxn.2_Missense_Mutation_p.R327H	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	416					Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						TCATCATTACCGTGCTGCTAT	0.323													16	90	---	---	---	---	PASS	T	38807137	T	T	38807137	3	4	135	1	0	0	0	0	1	0	0	0	17207	666	23	1	1377	1	VPS41	7	38807137	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	507316	38807137	120331526	149	48290										
ZNF479	90827	broad.mit.edu	37	chr7	57194369	57194369	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttccgctgagcacaatccagGcattgccattcctccagaga	8	14	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:57194369G>A	uc010kzo.2	-	3	367	c.96C>T	c.(94-96)TGC>TGT	p.C32C		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	32	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			CACAATCCAGGCATTGCCATT	0.413													61	137	---	---	---	---	PASS	A	57194369	A	A	57194369	2	1	135	1	0	0	0	0	0	0	0	1	17930	1195	42	3		3	ZNF479	7	57194369	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	18387232	57194369	101944294	150	48291										
PHTF2	57157	broad.mit.edu	37	chr7	77567025	77567025	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctaattttttttttttttatAgagtcatttgccctggctcc	5	8	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:77567025A>G	uc003ugs.3	+	12	1465	c.1339_splice	c.e12-2	p.S447_splice	PHTF2_uc003ugp.2_Splice_Site_p.S409_splice|PHTF2_uc003ugq.3_Splice_Site_p.S409_splice|PHTF2_uc010ldv.2_Splice_Site_p.S409_splice|PHTF2_uc003ugt.3_Splice_Site_p.S413_splice|PHTF2_uc003ugu.3_Splice_Site_p.S409_splice|PHTF2_uc003ugv.2_Splice_Site_p.S272_splice|PHTF2_uc010ldw.1_Intron	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						ttttttttataGAGTCATTTG	0.259													7	15	---	---	---	---	PASS	G	77567025	G	G	77567025	5	3	135	1	0	0	0	0	0	0	1	0	11863	434	15	5	1331	5	PHTF2	7	77567025	Splice_Site	SNP	A	TCGA-60-2726-01A-01D-1522-08	20372656	77567025	81571638	151	48292										
PON3	5446	broad.mit.edu	37	chr7	94992098	94992098	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttgagttaaatcccagttatCatgtttttccattatgtgaa	6	6	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:94992098C>T	uc003unt.2	-	7	776	c.751G>A	c.(751-753)GAT>AAT	p.D251N	PON1_uc011kih.1_Intron	NM_000940	NP_000931	Q15166	PON3_HUMAN	paraoxonase 3	251					aromatic compound catabolic process|carboxylic acid catabolic process|response to external stimulus	extracellular space	aryldialkylphosphatase activity|arylesterase activity|metal ion binding|protein homodimerization activity			ovary(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0151)			TCCCAGTTATCATGTTTTTCC	0.408													5	128	---	---	---	---	PASS	T	94992098	T	T	94992098	3	4	135	1	0	0	0	0	1	0	0	0	12250	826	29	2	325	2	PON3	7	94992098	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	17425073	94992098	64146565	152	48293										
ASB4	51666	broad.mit.edu	37	chr7	95157272	95157272	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgcccacatggagaccccccTggccatcgccgcctactggg	11	18	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:95157272T>C	uc011kij.1	+	3	635	c.635T>C	c.(634-636)CTG>CCG	p.L212P	ASB4_uc003unx.2_Missense_Mutation_p.L212P	NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	212	ANK 5.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			GAGACCCCCCTGGCCATCGCC	0.622											OREG0018172	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	60	---	---	---	---	PASS	C	95157272	C	C	95157272	3	2	135	1	0	0	0	0	1	0	0	0	1025	1580	55	5	645	5	ASB4	7	95157272	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	165174	95157272	63981391	153	48294										
SLC12A9	56996	broad.mit.edu	37	chr7	100451837	100451837	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gccatggccagcgagagctcAcctctgctggcctaccggct	12	16	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:100451837A>T	uc003uwp.2	+	2	160	c.18A>T	c.(16-18)TCA>TCT	p.S6S	SLC12A9_uc003uwo.1_Silent_p.S6S|SLC12A9_uc003uwq.2_Silent_p.S6S|SLC12A9_uc011kki.1_Intron|SLC12A9_uc003uwr.2_5'Flank|SLC12A9_uc003uws.2_5'Flank|SLC12A9_uc003uwt.2_5'Flank	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	6	Cytoplasmic (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					GCGAGAGCTCACCTCTGCTGG	0.627													30	52	---	---	---	---	PASS	T	100451837	T	T	100451837	2	4	135	1	0	0	0	0	0	0	0	1	14390	146	6	5		5	SLC12A9	7	100451837	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	5294565	100451837	58686826	154	48295										
TFEC	22797	broad.mit.edu	37	chr7	115590929	115590929	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aaatgattgttgaactcacgGatcattagactttggaataa	8	5	2	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:115590929G>T	uc003vhj.1	-	6	698	c.514C>A	c.(514-516)CCT>ACT	p.P172T	TFEC_uc003vhk.1_Missense_Mutation_p.P143T|TFEC_uc003vhl.3_Missense_Mutation_p.P143T|TFEC_uc011kmw.1_Missense_Mutation_p.P262T	NM_012252	NP_036384	O14948	TFEC_HUMAN	transcription factor EC isoform a	172	Helix-loop-helix 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)			TGAACTCACGGATCATTAGAC	0.328													12	185	---	---	---	---	PASS	T	115590929	T	T	115590929	3	4	135	1	0	0	0	0	1	0	0	0	15799	1188	41	2	541	2	TFEC	7	115590929	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	15139092	115590929	43547734	155	48296										
SLC13A1	6561	broad.mit.edu	37	chr7	122787311	122787311	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gcaatgcacaaacacgtaagTttacgtgtcacgtggccctt	9	11	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:122787311T>A	uc003vkm.2	-	7	739	c.714A>T	c.(712-714)AAA>AAT	p.K238N	SLC13A1_uc010lks.2_Missense_Mutation_p.K114N	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	238						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	AACACGTAAGTTTACGTGTCA	0.408													39	41	---	---	---	---	PASS	A	122787311	A	A	122787311	3	1	135	1	0	0	0	0	1	0	0	0	14391	1722	60	5	1109	5	SLC13A1	7	122787311	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	7196382	122787311	36351352	156	48297										
GRM8	2918	broad.mit.edu	37	chr7	126173615	126173615	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	acgataggtgtgtcattataGcggacaaaggtcacgatcac	11	8	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:126173615G>A	uc003vlr.2	-	8	2132	c.1821C>T	c.(1819-1821)CGC>CGT	p.R607R	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.R607R|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	607	Helical; Name=1; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TGTCATTATAGCGGACAAAGG	0.458										HNSCC(24;0.065)			11	52	---	---	---	---	PASS	A	126173615	A	A	126173615	2	1	135	1	0	0	0	0	0	0	0	1	6803	958	34	3		3	GRM8	7	126173615	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	3386304	126173615	32965048	157	48298										
EPHB6	2051	broad.mit.edu	37	chr7	142567636	142567636	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	atggaaagcatacaacatccAgtgatgtctggagctttggg	12	7	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:142567636A>T	uc011kst.1	+	17	3311	c.2524A>T	c.(2524-2526)AGT>TGT	p.S842C	EPHB6_uc011ksu.1_Missense_Mutation_p.S842C|EPHB6_uc003wbs.2_Missense_Mutation_p.S550C|EPHB6_uc003wbt.2_Missense_Mutation_p.S316C|EPHB6_uc003wbu.2_Missense_Mutation_p.S550C|EPHB6_uc003wbv.2_Missense_Mutation_p.S226C	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	842	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					TACAACATCCAGTGATGTCTG	0.488													20	65	---	---	---	---	PASS	T	142567636	T	T	142567636	3	4	135	1	0	0	0	0	1	0	0	0	5178	188	7	5	2574	5	EPHB6	7	142567636	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	16394021	142567636	16571027	158	48299										
CNTNAP2	26047	broad.mit.edu	37	chr7	146536904	146536904	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccattgcaacccaaggaaggTatagcagctcagattgggtg	12	9	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:146536904T>A	uc003weu.1	+	3	826	c.310T>A	c.(310-312)TAT>AAT	p.Y104N		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	104	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CCAAGGAAGGTATAGCAGCTC	0.498										HNSCC(39;0.1)			14	85	---	---	---	---	PASS	A	146536904	A	A	146536904	3	1	135	1	0	0	0	0	1	0	0	0	3647	1638	57	5	320	5	CNTNAP2	7	146536904	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	3969268	146536904	12601759	159	48300										
MLL3	58508	broad.mit.edu	37	chr7	151970857	151970857	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgactgaaatcctgaaaggtGccggctcctgcagcacaagg	12	11	0	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr7:151970857G>A	uc003wla.2	-	7	1164	c.945C>T	c.(943-945)GGC>GGT	p.G315G		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	315					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CCTGAAAGGTGCCGGCTCCTG	0.428			N		medulloblastoma								13	444	---	---	---	---	PASS	A	151970857	A	A	151970857	2	1	135	1	0	0	0	0	0	0	0	1	9622	1306	46	3		3	MLL3	7	151970857	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	5433953	151970857	7167806	160	48301										
LZTS1	11178	broad.mit.edu	37	chr8	20107455	20107455	+	Silent	SNP	C	G	G													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agccgctcatgctggaagccCgaggacatctggtcatggcc							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:20107455C>G	uc003wzr.2	-	3	1680	c.1569G>C	c.(1567-1569)TCG>TCC	p.S523S	LZTS1_uc010ltg.1_Intron	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	523					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		GCTGGAAGCCCGAGGACATCT	0.652													16	63	---	---	---	---	PASS	G	20107455	G	G	20107455	2	3	135	1	0	0	0	0	0	0	0	1	9138	639	23	4		4	LZTS1	8	20107455	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08		20107455	126256567	161	48302	887	2								
LZTS1	11178	broad.mit.edu	37	chr8	20107456	20107456	+	Missense_Mutation	SNP	G	A	A													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gccgctcatgctggaagcccGaggacatctggtcatggcct							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:20107456G>A	uc003wzr.2	-	3	1679	c.1568C>T	c.(1567-1569)TCG>TTG	p.S523L	LZTS1_uc010ltg.1_Intron	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	523					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		CTGGAAGCCCGAGGACATCTG	0.657													16	63	---	---	---	---	PASS	A	20107456	A	A	20107456	3	1	135	1	0	0	0	0	1	0	0	0	9138	1059	37	2	226	2	LZTS1	8	20107456	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	1	20107456	126256566	162	48303	887	2								
UNC5D	137970	broad.mit.edu	37	chr8	35425673	35425673	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gcaacaggtggaggacttccAtgggcccgaggactattggt	15	9	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:35425673A>T	uc003xjr.1	+	3	708	c.380A>T	c.(379-381)CAT>CTT	p.H127L	UNC5D_uc003xjs.1_Missense_Mutation_p.H122L	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	127	Extracellular (Potential).|Ig-like.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		GAGGACTTCCATGGGCCCGAG	0.532													74	238	---	---	---	---	PASS	T	35425673	T	T	35425673	3	4	135	1	0	0	0	0	1	0	0	0	16992	217	8	5	390	5	UNC5D	8	35425673	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	15318217	35425673	110938349	163	48304										
LSM1	27257	broad.mit.edu	37	chr8	38027393	38027393	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gaatatcaccgtattttttgCccacatgaatacgctccaca	5	12	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:38027393C>T	uc003xkw.2	-	3	346	c.158G>A	c.(157-159)GGC>GAC	p.G53D	LSM1_uc003xkx.2_RNA	NM_014462	NP_055277	O15116	LSM1_HUMAN	Lsm1 protein	53					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|mRNA processing|RNA splicing, via transesterification reactions	cytosol|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0	Colorectal(12;0.000442)					GTATTTTTTGCCCACATGAAT	0.393													5	306	---	---	---	---	PASS	T	38027393	T	T	38027393	3	4	135	1	0	0	0	0	1	0	0	0	9050	739	26	3	251	3	LSM1	8	38027393	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	2601720	38027393	108336629	164	48305										
WHSC1L1	54904	broad.mit.edu	37	chr8	38162108	38162108	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aaaagtcagacactcacctcTggcacaaacgaaacaaaagc	6	12	3	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:38162108T>A	uc003xli.2	-	14	3126	c.2608A>T	c.(2608-2610)AGA>TGA	p.R870*	WHSC1L1_uc011lbm.1_Nonsense_Mutation_p.R870*|WHSC1L1_uc010lwe.2_Nonsense_Mutation_p.R870*	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	870	PHD-type 3.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			CACTCACCTCTGGCACAAACG	0.303			T	NUP98	AML								58	161	---	---	---	---	PASS	A	38162108	A	A	38162108	4	1	135	1	0	0	0	0	0	1	0	0	17360	1588	55	5	1749	5	WHSC1L1	8	38162108	Nonsense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	134715	38162108	108201914	165	48306										
PLEKHA2	59339	broad.mit.edu	37	chr8	38808484	38808484	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	acggagatcattggaggggtGgtggtccacacacccatcag	14	10	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:38808484G>T	uc003xmi.3	+	6	696	c.462G>T	c.(460-462)GTG>GTT	p.V154V	PLEKHA2_uc011lce.1_Silent_p.V104V	NM_021623	NP_067636	Q9HB19	PKHA2_HUMAN	pleckstrin homology domain containing, family A	154					positive regulation of cell-matrix adhesion	cytoplasm|nucleus|plasma membrane|protein complex	fibronectin binding|laminin binding				0		all_lung(54;0.0413)|Lung NSC(58;0.115)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;4.68e-08)|COAD - Colon adenocarcinoma(9;0.235)			TTGGAGGGGTGGTGGTCCACA	0.612													6	24	---	---	---	---	PASS	T	38808484	T	T	38808484	2	4	135	1	0	0	0	0	0	0	0	1	12056	1335	47	3		3	PLEKHA2	8	38808484	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	646376	38808484	107555538	166	48307										
PXDNL	137902	broad.mit.edu	37	chr8	52320664	52320664	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aatctctgaatctttaatttCattttgaagatcctcaaagt	4	7	4	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:52320664C>G	uc003xqu.3	-	17	3621	c.3520G>C	c.(3520-3522)GAA>CAA	p.E1174Q	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1174					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TCTTTAATTTCATTTTGAAGA	0.358													20	110	---	---	---	---	PASS	G	52320664	G	G	52320664	3	3	135	1	0	0	0	0	1	0	0	0	12848	835	29	2	899	2	PXDNL	8	52320664	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	13512180	52320664	94043358	167	48308										
CLVS1	157807	broad.mit.edu	37	chr8	62212690	62212690	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctcagtatttccagtaccgcCagctaaacctggacatgttc	7	13	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:62212690C>A	uc003xuh.2	+	2	628	c.304C>A	c.(304-306)CAG>AAG	p.Q102K	CLVS1_uc003xug.2_Missense_Mutation_p.Q102K|CLVS1_uc003xui.2_Intron|CLVS1_uc010lyp.2_Missense_Mutation_p.Q102K	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1	102					lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						CCAGTACCGCCAGCTAAACCT	0.507													18	128	---	---	---	---	PASS	A	62212690	A	A	62212690	3	1	135	1	0	0	0	0	1	0	0	0	3571	595	21	3	306	3	CLVS1	8	62212690	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	9892026	62212690	84151332	168	48309										
CLVS1	157807	broad.mit.edu	37	chr8	62366774	62366774	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	attcatgccctctacacactCatcaagccatttcttaaaga	3	13	5	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:62366774C>T	uc003xuh.2	+	4	1029	c.705C>T	c.(703-705)CTC>CTT	p.L235L	CLVS1_uc003xui.2_RNA|CLVS1_uc010lyp.2_Silent_p.L235L	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1	235	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						TCTACACACTCATCAAGCCAT	0.428													48	406	---	---	---	---	PASS	T	62366774	T	T	62366774	2	4	135	1	0	0	0	0	0	0	0	1	3571	813	29	2		2	CLVS1	8	62366774	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	154084	62366774	83997248	169	48310										
CPA6	57094	broad.mit.edu	37	chr8	68397018	68397018	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgggtcactcttatatgttaGaagagcctaaaagacaaagg	10	6	2	3	rs34326072		TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:68397018G>C	uc003xxq.3	-	7	899	c.643C>G	c.(643-645)CTA>GTA	p.L215V	CPA6_uc003xxr.3_Missense_Mutation_p.L67V|CPA6_uc003xxs.2_Missense_Mutation_p.L215V	NM_020361	NP_065094	Q8N4T0	CBPA6_HUMAN	carboxypeptidase A6 isoform 1 precursor	215					proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)			TTATATGTTAGAAGAGCCTAA	0.353													24	158	---	---	---	---	PASS	C	68397018	C	C	68397018	3	2	135	1	0	0	0	0	1	0	0	0	3794	933	33	2	690	2	CPA6	8	68397018	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	6030244	68397018	77967004	170	48311										
SLCO5A1	81796	broad.mit.edu	37	chr8	70594546	70594546	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aattaacgttgcagcttcctGtcagattcctatggggcatg	10	9	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:70594546G>C	uc003xyl.2	-	7	2362	c.1655C>G	c.(1654-1656)ACA>AGA	p.T552R	SLCO5A1_uc010lzb.2_Missense_Mutation_p.T497R|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Missense_Mutation_p.T552R	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	552	Extracellular (Potential).|Kazal-like.					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			GCAGCTTCCTGTCAGATTCCT	0.423													29	242	---	---	---	---	PASS	C	70594546	C	C	70594546	3	2	135	1	0	0	0	0	1	0	0	0	14731	1377	48	4	907	4	SLCO5A1	8	70594546	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	2197528	70594546	75769476	171	48312										
LRRCC1	85444	broad.mit.edu	37	chr8	86027432	86027432	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aatttgacagaaataaattcAtcacagctgcagtgcctaga	7	8	2	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:86027432A>G	uc003ycw.2	+	5	796	c.642A>G	c.(640-642)TCA>TCG	p.S214S	LRRCC1_uc010lzz.1_Intron|LRRCC1_uc010maa.1_Intron|LRRCC1_uc003ycx.2_Silent_p.S121S|LRRCC1_uc003ycy.2_Silent_p.S194S	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	214	LRRCT.				cell division|mitosis	centriole|nucleus					0						AAATAAATTCATCACAGCTGC	0.348													161	141	---	---	---	---	PASS	G	86027432	G	G	86027432	2	3	135	1	0	0	0	0	0	0	0	1	9026	204	8	5		5	LRRCC1	8	86027432	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	15432886	86027432	60336590	172	48313										
CDH17	1015	broad.mit.edu	37	chr8	95164230	95164230	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttcacatctgtcacaataagCgtgaacttggcaaaagaact	7	9	3	2	rs149027046	byFrequency	TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:95164230C>A	uc003ygh.2	-	13	1787	c.1662G>T	c.(1660-1662)ACG>ACT	p.T554T	CDH17_uc011lgo.1_Silent_p.T340T|CDH17_uc011lgp.1_Silent_p.T554T	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	554	Extracellular (Potential).|Cadherin 5.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			TCACAATAAGCGTGAACTTGG	0.423													41	213	---	---	---	---	PASS	A	95164230	A	A	95164230	2	1	135	1	0	0	0	0	0	0	0	1	3102	755	27	1		1	CDH17	8	95164230	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	9136798	95164230	51199792	173	48314										
RIMS2	9699	broad.mit.edu	37	chr8	104709460	104709460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgatggatgtggccataactGttcatattgccaaacaaagt	9	7	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:104709460G>T	uc003ylp.2	+	2	462	c.323G>T	c.(322-324)TGT>TTT	p.C108F		NM_001100117	NP_001093587	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	139	FYVE-type.|RabBD.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GGCCATAACTGTTCATATTGC	0.428										HNSCC(12;0.0054)			146	121	---	---	---	---	PASS	T	104709460	T	T	104709460	3	4	135	1	0	0	0	0	1	0	0	0	13368	1377	48	3	329	3	RIMS2	8	104709460	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	9545230	104709460	41654562	174	48315										
KCNV1	27012	broad.mit.edu	37	chr8	110984732	110984732	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccccggtgaaccagctaatgCacacatactccaggatttcc	7	15	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:110984732C>T	uc003ynr.3	-	2	1088	c.746G>A	c.(745-747)TGC>TAC	p.C249Y	KCNV1_uc010mcw.2_Missense_Mutation_p.C249Y	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	249	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			CCAGCTAATGCACACATACTC	0.527													38	66	---	---	---	---	PASS	T	110984732	T	T	110984732	3	4	135	1	0	0	0	0	1	0	0	0	8094	710	25	3	764	3	KCNV1	8	110984732	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	6275272	110984732	35379290	175	48316										
CSMD3	114788	broad.mit.edu	37	chr8	113657357	113657357	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccttttccatgggttacatcAacagtccatgtacaattcag	6	11	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:113657357A>T	uc003ynu.2	-	20	3450	c.3291T>A	c.(3289-3291)GTT>GTA	p.V1097V	CSMD3_uc003yns.2_Silent_p.V369V|CSMD3_uc003ynt.2_Silent_p.V1057V|CSMD3_uc011lhx.1_Silent_p.V993V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1097	Extracellular (Potential).|CUB 6.					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						GGGTTACATCAACAGTCCATG	0.363										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			37	95	---	---	---	---	PASS	T	113657357	T	T	113657357	2	4	135	1	0	0	0	0	0	0	0	1	3946	117	5	5		5	CSMD3	8	113657357	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	2672625	113657357	32706665	176	48317										
ENPP2	5168	broad.mit.edu	37	chr8	120628618	120628618	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aattccatgtgattctggatAtagcccctttttgtaaaagc	7	8	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:120628618A>G	uc003yot.1	-	8	750	c.664T>C	c.(664-666)TAT>CAT	p.Y222H	ENPP2_uc003yos.1_Missense_Mutation_p.Y222H|ENPP2_uc010mdd.1_Missense_Mutation_p.Y222H	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	222					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GATTCTGGATATAGCCCCTTT	0.318													89	48	---	---	---	---	PASS	G	120628618	G	G	120628618	3	3	135	1	0	0	0	0	1	0	0	0	5130	449	16	5	2238	5	ENPP2	8	120628618	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	6971261	120628618	25735404	177	48318										
MTSS1	9788	broad.mit.edu	37	chr8	125570011	125570011	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aaggtggacagaggtgacccGagggagcaggcgggaggcag	21	7	0	2	rs150097928	byFrequency	TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:125570011G>A	uc003yrk.2	-	11	1675	c.1141C>T	c.(1141-1143)CGG>TGG	p.R381W	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_5'Flank|MTSS1_uc011lin.1_Missense_Mutation_p.R155W|MTSS1_uc011lio.1_Missense_Mutation_p.R271W|MTSS1_uc003yri.2_Intron|MTSS1_uc003yrj.2_Intron|MTSS1_uc003yrl.2_Missense_Mutation_p.R385W	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	381					actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			GAGGTGACCCGAGGGAGCAGG	0.552													4	21	---	---	---	---	PASS	A	125570011	A	A	125570011	3	1	135	1	0	0	0	0	1	0	0	0	9962	1057	37	2	1142	2	MTSS1	8	125570011	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	4941393	125570011	20794011	178	48319										
CYP11B1	1584	broad.mit.edu	37	chr8	143961099	143961099	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcagccacctgttgcctggaCgccggggcatggcttcaaag	13	13	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:143961099C>T	uc003yxi.2	-	1	138	c.131G>A	c.(130-132)CGT>CAT	p.R44H	CYP11B1_uc003yxj.2_Missense_Mutation_p.R44H|CYP11B1_uc010mey.2_Missense_Mutation_p.R44H	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	44					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	GTTGCCTGGACGCCGGGGCAT	0.647									Familial_Hyperaldosteronism_type_I				17	128	---	---	---	---	PASS	T	143961099	T	T	143961099	3	4	135	1	0	0	0	0	1	0	0	0	4145	536	19	1	1416	1	CYP11B1	8	143961099	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	18391088	143961099	2402923	179	48320										
PLEC	5339	broad.mit.edu	37	chr8	145003943	145003943	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccgcaggaaggcctggtagtGcagctccaggctgtgcaggg	17	11	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:145003943G>A	uc003zaf.1	-	23	3375	c.3205C>T	c.(3205-3207)CAC>TAC	p.H1069Y	PLEC_uc003zab.1_Missense_Mutation_p.H932Y|PLEC_uc003zac.1_Missense_Mutation_p.H936Y|PLEC_uc003zad.2_Missense_Mutation_p.H932Y|PLEC_uc003zae.1_Missense_Mutation_p.H900Y|PLEC_uc003zag.1_Missense_Mutation_p.H910Y|PLEC_uc003zah.2_Missense_Mutation_p.H918Y|PLEC_uc003zaj.2_Missense_Mutation_p.H959Y	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	1069	Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GCCTGGTAGTGCAGCTCCAGG	0.706													3	23	---	---	---	---	PASS	A	145003943	A	A	145003943	3	1	135	1	0	0	0	0	1	0	0	0	12052	1319	46	3	10889	3	PLEC	8	145003943	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	1042844	145003943	1360079	180	48321										
NFKBIL2	4796	broad.mit.edu	37	chr8	145661285	145661285	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gggggcggggccggcggctgCgggtcaggggcatgtccagc	23	11	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr8:145661285C>T	uc011llg.1	-	17	2546	c.2531G>A	c.(2530-2532)CGC>CAC	p.R844H	uc011llh.1_Intron	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	844					cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			ccggcggcTGCGGGTCAGGGG	0.617													11	28	---	---	---	---	PASS	T	145661285	T	T	145661285	3	4	135	1	0	0	0	0	1	0	0	0	10382	768	27	1	1645	1	NFKBIL2	8	145661285	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	657342	145661285	702737	181	48322										
CDKN2A	1029	broad.mit.edu	37	chr9	21971186	21971186	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cagcagcagctccgccactcGggcgctgcccatcatcatga	10	17	2	1	rs121913387		TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:21971186G>A	uc003zpk.2	-	2	384	c.172C>T	c.(172-174)CGA>TGA	p.R58*	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.P113L	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	58	ANK 2.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.R58*(68)|p.?(14)|p.M53_R58del(3)|p.R58fs*59(2)|p.M54fs*61(2)|p.R58fs*89(1)|p.R58R(1)|p.V28_V51del(1)|p.A57_R58>V*(1)|p.R58fs*61(1)|p.R58fs*62(1)|p.G55fs*86(1)|p.R58Q(1)|p.P113L(1)|p.A57fs*85(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		TCCGCCACTCGGGCGCTGCCC	0.677		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			3	2	---	---	---	---	PASS	A	21971186	A	A	21971186	4	1	135	1	0	0	0	0	0	1	0	0	3161	1125	39	1	306	1	CDKN2A	9	21971186	Nonsense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08		21971186	119242245	182	48323										
CDKN2B	1030	broad.mit.edu	37	chr9	22006222	22006222	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gagcagcagcagctccgccaCgcgggcgctgcccatcatca	12	17	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:22006222C>T	uc003zpo.2	-	2	541	c.181G>A	c.(181-183)GTG>ATG	p.V61M	MTAP_uc003zpi.1_Intron|CDKN2BAS_uc010miw.1_Intron|CDKN2BAS_uc010mix.1_Intron|CDKN2BAS_uc003zpm.2_Intron|CDKN2B_uc003zpn.2_3'UTR	NM_004936	NP_004927	P42772	CDN2B_HUMAN	cyclin-dependent kinase inhibitor 2B isoform 1	61	ANK 2.				cell cycle arrest|cellular response to nutrient|G1 phase of mitotic cell cycle|G2/M transition of mitotic cell cycle|megakaryocyte differentiation|mitotic cell cycle G1/S transition checkpoint|negative regulation of epithelial cell proliferation|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of cyclin-dependent protein kinase activity	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|protein kinase binding			lung(1)	1		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;1.31e-280)|Lung NSC(2;2.28e-131)|all_lung(2;2.11e-123)|Glioma(2;5.66e-57)|all_neural(2;3.05e-50)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;8.01e-33)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00369)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;3.29e-71)|Epithelial(2;9.08e-60)|LUSC - Lung squamous cell carcinoma(2;5.8e-46)|LUAD - Lung adenocarcinoma(2;1.43e-25)|BRCA - Breast invasive adenocarcinoma(2;5.37e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;6.92e-07)|KIRC - Kidney renal clear cell carcinoma(2;8.63e-07)|OV - Ovarian serous cystadenocarcinoma(39;0.014)|COAD - Colon adenocarcinoma(8;0.143)		AGCTCCGCCACGCGGGCGCTG	0.692									Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System				7	18	---	---	---	---	PASS	T	22006222	T	T	22006222	3	4	135	1	0	0	0	0	1	0	0	0	3164	536	19	1	239	1	CDKN2B	9	22006222	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	35036	22006222	119207209	183	48324										
C9orf72	203228	broad.mit.edu	37	chr9	27558492	27558492	+	Silent	SNP	T	G	G													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ataactagaaactataccttTagcaggccttgtacaaagag							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:27558492T>G	uc003zqq.2	-	7	949	c.852A>C	c.(850-852)CTA>CTC	p.L284L		NM_018325	NP_060795	Q96LT7	CI072_HUMAN	hypothetical protein LOC203228 isoform a	284										ovary(3)|central_nervous_system(1)	4		all_neural(11;7.57e-10)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.00016)		ACTATACCTTTAGCAGGCCTT	0.338													6	81	---	---	---	---	PASS	G	27558492	G	G	27558492	2	3	135	1	0	0	0	0	0	0	0	1	2495	1741	61	5		5	C9orf72	9	27558492	Silent	SNP	T	TCGA-60-2726-01A-01D-1522-08	5552270	27558492	113654939	184	48325	888	3								
C9orf72	203228	broad.mit.edu	37	chr9	27558493	27558493	+	Missense_Mutation	SNP	A	T	T													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	taactagaaactatacctttAgcaggccttgtacaaagagc							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:27558493A>T	uc003zqq.2	-	7	948	c.851T>A	c.(850-852)CTA>CAA	p.L284Q		NM_018325	NP_060795	Q96LT7	CI072_HUMAN	hypothetical protein LOC203228 isoform a	284										ovary(3)|central_nervous_system(1)	4		all_neural(11;7.57e-10)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.00016)		CTATACCTTTAGCAGGCCTTG	0.333													6	81	---	---	---	---	PASS	T	27558493	T	T	27558493	3	4	135	1	0	0	0	0	1	0	0	0	2495	420	15	5	614	5	C9orf72	9	27558493	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	1	27558493	113654938	185	48326	888	3								
C9orf72	203228	broad.mit.edu	37	chr9	27558494	27558494	+	Silent	SNP	G	A	A													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aactagaaactatacctttaGcaggccttgtacaaagagcc							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:27558494G>A	uc003zqq.2	-	7	947	c.850C>T	c.(850-852)CTA>TTA	p.L284L		NM_018325	NP_060795	Q96LT7	CI072_HUMAN	hypothetical protein LOC203228 isoform a	284										ovary(3)|central_nervous_system(1)	4		all_neural(11;7.57e-10)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.00016)		TATACCTTTAGCAGGCCTTGT	0.333													5	81	---	---	---	---	PASS	A	27558494	A	A	27558494	2	1	135	1	0	0	0	0	0	0	0	1	2495	962	34	3		3	C9orf72	9	27558494	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	1	27558494	113654937	186	48327	888	3								
CNTNAP3	79937	broad.mit.edu	37	chr9	39149959	39149959	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttttacatccagagccagagCtgttgtccaggcagcctaaa	9	11	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:39149959C>A	uc004abi.2	-	10	1732	c.1493G>T	c.(1492-1494)AGC>ATC	p.S498I	CNTNAP3_uc004abj.2_Missense_Mutation_p.S498I|CNTNAP3_uc011lqr.1_Intron|CNTNAP3_uc004abk.1_Missense_Mutation_p.S498I|CNTNAP3_uc011lqs.1_Intron|CNTNAP3_uc004abl.1_Intron	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor	498	Extracellular (Potential).|Laminin G-like 2.				cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		AGAGCCAGAGCTGTTGTCCAG	0.463													18	54	---	---	---	---	PASS	A	39149959	A	A	39149959	3	1	135	1	0	0	0	0	1	0	0	0	3648	797	28	3	2433	3	CNTNAP3	9	39149959	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	11591465	39149959	102063472	187	48328										
TRPM3	80036	broad.mit.edu	37	chr9	73151520	73151520	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cgctcaatggtgtggtacatCggaggctctgagtcccaggg	15	10	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:73151520C>G	uc004aid.2	-	25	4717	c.4473G>C	c.(4471-4473)CCG>CCC	p.P1491P	TRPM3_uc004ahu.2_Silent_p.P1333P|TRPM3_uc004ahv.2_Silent_p.P1293P|TRPM3_uc004ahw.2_Silent_p.P1363P|TRPM3_uc004ahx.2_Silent_p.P1350P|TRPM3_uc004ahy.2_Silent_p.P1353P|TRPM3_uc004ahz.2_Silent_p.P1340P|TRPM3_uc004aia.2_Silent_p.P1338P|TRPM3_uc004aib.2_Silent_p.P1328P|TRPM3_uc004aic.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1516	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						TGTGGTACATCGGAGGCTCTG	0.483													41	45	---	---	---	---	PASS	G	73151520	G	G	73151520	2	3	135	1	0	0	0	0	0	0	0	1	16584	871	31	2		2	TRPM3	9	73151520	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	34001561	73151520	68061911	188	48329										
GDA	9615	broad.mit.edu	37	chr9	74856098	74856098	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tggctattcatattccatgcTtgatgcaatcagaagagcag	9	8	2	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:74856098T>C	uc004aiq.2	+	11	1202	c.1019T>C	c.(1018-1020)CTT>CCT	p.L340P	GDA_uc011lse.1_Missense_Mutation_p.L266P|GDA_uc011lsf.1_Missense_Mutation_p.L266P|GDA_uc004air.2_Missense_Mutation_p.L340P|GDA_uc010mow.1_RNA|GDA_uc004ais.2_Missense_Mutation_p.L262P	NM_004293	NP_004284	Q9Y2T3	GUAD_HUMAN	guanine deaminase	340					nervous system development|purine base metabolic process|purine nucleotide catabolic process	cytosol	guanine deaminase activity|zinc ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		TATTCCATGCTTGATGCAATC	0.358													43	76	---	---	---	---	PASS	C	74856098	C	C	74856098	3	2	135	1	0	0	0	0	1	0	0	0	6306	1609	56	5	1061	5	GDA	9	74856098	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	1704578	74856098	66357333	189	48330										
TEX10	54881	broad.mit.edu	37	chr9	103070787	103070787	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ataaaaaataattacctcttTcttagatgttctgcttcccc	3	10	3	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:103070787T>A	uc004bas.2	-	13	2675	c.2460A>T	c.(2458-2460)AGA>AGT	p.R820S	TEX10_uc011lvf.1_Missense_Mutation_p.R659S|TEX10_uc011lvg.1_Missense_Mutation_p.R823S	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	820						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		ATTACCTCTTTCTTAGATGTT	0.348													41	36	---	---	---	---	PASS	A	103070787	A	A	103070787	3	1	135	1	0	0	0	0	1	0	0	0	15769	1780	62	5	341	5	TEX10	9	103070787	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	28214689	103070787	38142644	190	48331										
GRIN3A	116443	broad.mit.edu	37	chr9	104432782	104432782	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gaaatctatcacctggctccGtgcagtattgatgctaaagg	10	9	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:104432782G>T	uc004bbp.1	-	3	2513	c.1912C>A	c.(1912-1914)CGG>AGG	p.R638R	GRIN3A_uc004bbq.1_Silent_p.R638R	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	638	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	ACCTGGCTCCGTGCAGTATTG	0.532													28	92	---	---	---	---	PASS	T	104432782	T	T	104432782	2	4	135	1	0	0	0	0	0	0	0	1	6783	1144	40	1		1	GRIN3A	9	104432782	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	1361995	104432782	36780649	191	48332										
TLR4	7099	broad.mit.edu	37	chr9	120476318	120476318	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agaccatcattggtgtgtcgGtcctcagtgtgcttgtagta	12	8	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:120476318G>C	uc004bjz.2	+	3	2203	c.1912G>C	c.(1912-1914)GTC>CTC	p.V638L	TLR4_uc004bka.2_Missense_Mutation_p.V598L|TLR4_uc004bkb.2_Missense_Mutation_p.V438L	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	638	Helical; (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TGGTGTGTCGGTCCTCAGTGT	0.438													15	54	---	---	---	---	PASS	C	120476318	C	C	120476318	3	2	135	1	0	0	0	0	1	0	0	0	15950	1261	44	4	1922	4	TLR4	9	120476318	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	16043536	120476318	20737113	192	48333										
REXO4	57109	broad.mit.edu	37	chr9	136272165	136272165	+	Missense_Mutation	SNP	T	G	G													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	actccttcttcaccatgacgTacagcctcattgctgcctgg							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:136272165T>G	uc004cdm.2	-	8	1381	c.1181A>C	c.(1180-1182)TAC>TCC	p.Y394S	REXO4_uc011mde.1_Missense_Mutation_p.Y257S|REXO4_uc011mdf.1_Missense_Mutation_p.Y257S|REXO4_uc004cdn.2_Missense_Mutation_p.Y145S|REXO4_uc004cdo.2_Missense_Mutation_p.Y222S	NM_020385	NP_065118	Q9GZR2	REXO4_HUMAN	XPMC2 prevents mitotic catastrophe 2 homolog	394	Exonuclease.					nucleolus	exonuclease activity|nucleic acid binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.58e-08)|Epithelial(140;9.55e-07)|all cancers(34;1.05e-05)		CACCATGACGTACAGCCTCAT	0.597											OREG0019587	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	48	---	---	---	---	PASS	G	136272165	G	G	136272165	3	3	135	1	0	0	0	0	1	0	0	0	13243	1638	57	5	91	5	REXO4	9	136272165	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	15795847	136272165	4941266	193	48334	889	2								
REXO4	57109	broad.mit.edu	37	chr9	136272167	136272167	+	Silent	SNP	C	A	A													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tccttcttcaccatgacgtaCagcctcattgctgcctgggc							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:136272167C>A	uc004cdm.2	-	8	1379	c.1179G>T	c.(1177-1179)CTG>CTT	p.L393L	REXO4_uc011mde.1_Silent_p.L256L|REXO4_uc011mdf.1_Silent_p.L256L|REXO4_uc004cdn.2_Silent_p.L144L|REXO4_uc004cdo.2_Silent_p.L221L	NM_020385	NP_065118	Q9GZR2	REXO4_HUMAN	XPMC2 prevents mitotic catastrophe 2 homolog	393	Exonuclease.					nucleolus	exonuclease activity|nucleic acid binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.58e-08)|Epithelial(140;9.55e-07)|all cancers(34;1.05e-05)		CCATGACGTACAGCCTCATTG	0.597											OREG0019587	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	47	---	---	---	---	PASS	A	136272167	A	A	136272167	2	1	135	1	0	0	0	0	0	0	0	1	13243	465	17	3		3	REXO4	9	136272167	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	2	136272167	4941264	194	48335	889	2								
COL5A1	1289	broad.mit.edu	37	chr9	137717708	137717708	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtttactgcaacttcacagcCggggggtcgacatgcgtctt	12	11	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr9:137717708C>T	uc004cfe.2	+	63	5407	c.5025C>T	c.(5023-5025)GCC>GCT	p.A1675A	uc004cff.2_Intron	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1675	Fibrillar collagen NC1.				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)		ACTTCACAGCCGGGGGGTCGA	0.592													31	39	---	---	---	---	PASS	T	137717708	T	T	137717708	2	4	135	1	0	0	0	0	0	0	0	1	3696	639	23	1		1	COL5A1	9	137717708	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	1445541	137717708	3495723	195	48336										
ITIH5	80760	broad.mit.edu	37	chr10	7618475	7618475	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gttcgggtcccatggcagccGacatgccgtgggcctcctcc	13	16	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:7618475G>T	uc001ijq.2	-	10	1998	c.1919C>A	c.(1918-1920)TCG>TAG	p.S640*	ITIH5_uc001ijp.2_Nonsense_Mutation_p.S426*|ITIH5_uc001ijr.1_Nonsense_Mutation_p.S640*	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	640					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CATGGCAGCCGACATGCCGTG	0.692													13	29	---	---	---	---	PASS	T	7618475	T	T	7618475	4	4	135	1	0	0	0	0	0	1	0	0	7907	1059	37	2	1052	2	ITIH5	10	7618475	Nonsense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08		7618475	127916272	196	48337										
MCM10	55388	broad.mit.edu	37	chr10	13240736	13240736	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aaaaaaggagagaacaacttGcctatctggaatctgaggaa	10	6	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:13240736G>T	uc001ima.2	+	16	2271	c.2170G>T	c.(2170-2172)GCC>TCC	p.A724S	MCM10_uc001imb.2_Missense_Mutation_p.A723S|MCM10_uc001imc.2_Missense_Mutation_p.A723S	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	724					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						AGAACAACTTGCCTATCTGGA	0.433													28	109	---	---	---	---	PASS	T	13240736	T	T	13240736	3	4	135	1	0	0	0	0	1	0	0	0	9385	1319	46	3	2228	3	MCM10	10	13240736	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	5622261	13240736	122294011	197	48338										
C10orf67	256815	broad.mit.edu	37	chr10	23622061	23622061	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cactggaatcagtttgagtgGcatggtctgtgctgaaaaag	13	6	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:23622061G>A	uc010qcx.1	-	2	326	c.260C>T	c.(259-261)GCC>GTC	p.A87V		NM_153714	NP_714925	Q8IYJ2	CJ067_HUMAN	hypothetical protein LOC256815	87											0						AGTTTGAGTGGCATGGTCTGT	0.333													4	89	---	---	---	---	PASS	A	23622061	A	A	23622061	3	1	135	1	0	0	0	0	1	0	0	0	1612	1203	42	3	313	3	C10orf67	10	23622061	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	10381325	23622061	111912686	198	48339										
ARMC4	55130	broad.mit.edu	37	chr10	28233361	28233361	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agtatttttaatgaaccaatCtgtgtgagaaaaaaaaagat	7	3	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:28233361C>A	uc009xky.2	-	12	1632	c.1534_splice	c.e12-1	p.I512_splice	ARMC4_uc010qds.1_Splice_Site_p.I37_splice|ARMC4_uc010qdt.1_Splice_Site_p.I204_splice|ARMC4_uc001itz.2_Splice_Site_p.I512_splice|ARMC4_uc010qdu.1_Splice_Site_p.I204_splice	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4								binding			ovary(4)|skin(2)	6						ATGAACCAATCTGTGTGAGAA	0.338													31	98	---	---	---	---	PASS	A	28233361	A	A	28233361	5	1	135	1	0	0	0	0	0	0	1	0	953	927	32	2	1637	2	ARMC4	10	28233361	Splice_Site	SNP	C	TCGA-60-2726-01A-01D-1522-08	4611300	28233361	107301386	199	48340										
ITGB1	3688	broad.mit.edu	37	chr10	33200848	33200848	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccattggatctatcacagttGaaattatcacactcgcagaa	6	10	3	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:33200848G>A	uc001iws.3	-	12	1810	c.1674C>T	c.(1672-1674)TTC>TTT	p.F558F	ITGB1_uc001iwp.3_Silent_p.F558F|ITGB1_uc001iwq.3_Silent_p.F558F|ITGB1_uc001iwr.3_Silent_p.F558F|ITGB1_uc001iwt.3_Silent_p.F558F|ITGB1_uc001iwu.1_Silent_p.F558F	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	558	Extracellular (Potential).|Cysteine-rich tandem repeats.|II.				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				TATCACAGTTGAAATTATCAC	0.403													66	310	---	---	---	---	PASS	A	33200848	A	A	33200848	2	1	135	1	0	0	0	0	0	0	0	1	7890	1281	45	2		2	ITGB1	10	33200848	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	4967487	33200848	102333899	200	48341										
ANKRD30A	91074	broad.mit.edu	37	chr10	37451602	37451602	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccggggaagccatctgccttCgaggtatttagttttatgat	11	8	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:37451602C>A	uc001iza.1	+	16	1857	c.1758C>A	c.(1756-1758)TTC>TTA	p.F586L		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	642						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						CATCTGCCTTCGAGGTATTTA	0.328													35	207	---	---	---	---	PASS	A	37451602	A	A	37451602	3	1	135	1	0	0	0	0	1	0	0	0	658	883	31	2	1820	2	ANKRD30A	10	37451602	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	4250754	37451602	98083145	201	48342										
ZNF25	219749	broad.mit.edu	37	chr10	38241620	38241620	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtactgtgaggtgtgacttcTgggaaaaggctttcccacac	12	9	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:38241620T>A	uc001ize.1	-	6	911	c.806A>T	c.(805-807)CAG>CTG	p.Q269L	ZNF25_uc001izf.1_Missense_Mutation_p.Q233L	NM_145011	NP_659448	P17030	ZNF25_HUMAN	zinc finger protein 25	269	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|central_nervous_system(1)	4		all_neural(218;0.0218)|Breast(68;0.0389)|Ovarian(717;0.0443)|Renal(717;0.157)				GTGTGACTTCTGGGAAAAGGC	0.443													40	156	---	---	---	---	PASS	A	38241620	A	A	38241620	3	1	135	1	0	0	0	0	1	0	0	0	17791	1580	55	5	568	5	ZNF25	10	38241620	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	790018	38241620	97293127	202	48343										
CSTF2T	23283	broad.mit.edu	37	chr10	53458538	53458538	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agctggaattccaccctggaTaggagtctgcatcagaggag	13	9	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:53458538T>C	uc001jjp.2	-	1	818	c.772A>G	c.(772-774)ATC>GTC	p.I258V	PRKG1_uc001jjm.2_Intron|PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron	NM_015235	NP_056050	Q9H0L4	CSTFT_HUMAN	cleavage stimulation factor, 3' pre-RNA, subunit	258					mRNA processing	nucleus	nucleotide binding|RNA binding			ovary(1)	1				COAD - Colon adenocarcinoma(2;0.00736)|Colorectal(2;0.00898)|all cancers(4;0.0188)|GBM - Glioblastoma multiforme(4;0.0778)|Epithelial(53;0.122)		CCACCCTGGATAGGAGTCTGC	0.547													12	78	---	---	---	---	PASS	C	53458538	C	C	53458538	3	2	135	1	0	0	0	0	1	0	0	0	3985	1406	49	5	1082	5	CSTF2T	10	53458538	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	15216918	53458538	82076209	203	48344										
DKK1	22943	broad.mit.edu	37	chr10	54074314	54074314	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aactcggttctcaattccaaCgctatcaagaacctgccccc	5	16	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:54074314C>A	uc001jjr.2	+	1	274	c.120C>A	c.(118-120)AAC>AAA	p.N40K	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	40					negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						TCAATTCCAACGCTATCAAGA	0.672											OREG0020191	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	104	---	---	---	---	PASS	A	54074314	A	A	54074314	3	1	135	1	0	0	0	0	1	0	0	0	4544	535	19	1	122	1	DKK1	10	54074314	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	615776	54074314	81460433	204	48345										
TFAM	7019	broad.mit.edu	37	chr10	60148479	60148479	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gcaggtatataaagaagagaTaagcagatttaaagaacagc	10	4	0	4			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:60148479T>G	uc001jkf.2	+	4	473	c.341T>G	c.(340-342)ATA>AGA	p.I114R	TFAM_uc001jkg.2_RNA|TFAM_uc001jkh.2_Missense_Mutation_p.I114R	NM_003201	NP_003192	Q00059	TFAM_HUMAN	transcription factor A, mitochondrial precursor	114	HMG box 1.				DNA-dependent DNA replication|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase I promoter|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	mitochondrial light strand promoter sense binding|protein binding|sequence-specific DNA binding transcription factor activity				0						AAAGAAGAGATAAGCAGATTT	0.318													27	144	---	---	---	---	PASS	G	60148479	G	G	60148479	3	3	135	1	0	0	0	0	1	0	0	0	15783	1406	49	5	355	5	TFAM	10	60148479	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	6074165	60148479	75386268	205	48346										
DNA2	1763	broad.mit.edu	37	chr10	70178815	70178815	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccatccttattacttctaacAaaagatactaggacaatact	3	10	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:70178815A>G	uc001jof.2	-	19	3201	c.3201T>C	c.(3199-3201)TTT>TTC	p.F1067F	DNA2_uc001jog.1_Silent_p.F743F|DNA2_uc001joh.1_RNA	NM_001080449	NP_001073918	P51530	DNA2L_HUMAN	DNA replication helicase 2 homolog	981					base-excision repair|DNA replication, removal of RNA primer|mitochondrial DNA repair|mitochondrial DNA replication|positive regulation of DNA replication|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	mitochondrial nucleoid|nucleoplasm	5'-flap endonuclease activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|site-specific endodeoxyribonuclease activity, specific for altered base				0						TACTTCTAACAAAAGATACTA	0.323													23	138	---	---	---	---	PASS	G	70178815	G	G	70178815	2	3	135	1	0	0	0	0	0	0	0	1	4596	127	5	5		5	DNA2	10	70178815	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	10030336	70178815	65355932	206	48347										
TET1	80312	broad.mit.edu	37	chr10	70406034	70406034	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggaaaagttgtcctatatgtAtggcacaatatgcgacattt	9	6	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:70406034A>G	uc001jok.3	+	4	4053	c.3548A>G	c.(3547-3549)TAT>TGT	p.Y1183C		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1183					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						TCCTATATGTATGGCACAATA	0.388													41	161	---	---	---	---	PASS	G	70406034	G	G	70406034	3	3	135	1	0	0	0	0	1	0	0	0	15766	449	16	5	3558	5	TET1	10	70406034	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	227219	70406034	65128713	207	48348										
C10orf28	27291	broad.mit.edu	37	chr10	99995216	99995216	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggtattaaacacaccatggtGaagattcgtcccttgtcaca	8	10	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:99995216G>C	uc001kow.3	+	7	2362	c.2067G>C	c.(2065-2067)GTG>GTC	p.V689V	C10orf28_uc001kox.3_Silent_p.V703V|C10orf28_uc001koy.3_Silent_p.V689V|C10orf28_uc009xvx.2_Silent_p.V689V|C10orf28_uc009xvy.2_Silent_p.V95V|C10orf28_uc001koz.3_RNA	NM_014472	NP_055287	Q4KMY3	Q4KMY3_HUMAN	growth inhibition and differentiation related	689							nucleotide binding			large_intestine(1)|skin(1)	2		Colorectal(252;0.234)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)		ACACCATGGTGAAGATTCGTC	0.448													17	61	---	---	---	---	PASS	C	99995216	C	C	99995216	2	2	135	1	0	0	0	0	0	0	0	1	1601	1277	45	2		2	C10orf28	10	99995216	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	29589182	99995216	35539531	208	48349										
HPSE2	60495	broad.mit.edu	37	chr10	100249878	100249878	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcggccaggccgtggcttccGctggagcccagccacatgca	13	16	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:100249878G>C	uc001kpn.1	-	10	1456	c.1396C>G	c.(1396-1398)CGG>GGG	p.R466G	HPSE2_uc009xwc.1_Missense_Mutation_p.R456G|HPSE2_uc001kpo.1_Missense_Mutation_p.R398G|HPSE2_uc009xwd.1_Missense_Mutation_p.R344G	NM_021828	NP_068600	Q8WWQ2	HPSE2_HUMAN	heparanase 2	466					carbohydrate metabolic process	intracellular|membrane	cation binding|heparanase activity			ovary(1)	1				Epithelial(162;1.8e-09)|all cancers(201;4.72e-07)		CGTGGCTTCCGCTGGAGCCCA	0.562													17	86	---	---	---	---	PASS	C	100249878	C	C	100249878	3	2	135	1	0	0	0	0	1	0	0	0	7345	1086	38	4	432	4	HPSE2	10	100249878	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	254662	100249878	35284869	209	48350										
GBF1	8729	broad.mit.edu	37	chr10	104129061	104129061	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tggcccatcgtcatggtgacAtcctgcgggagggctggaag	16	10	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:104129061A>T	uc001kux.1	+	24	3304	c.3064A>T	c.(3064-3066)ATC>TTC	p.I1022F	GBF1_uc001kuy.1_Missense_Mutation_p.I1022F|GBF1_uc001kuz.1_Missense_Mutation_p.I1023F	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1022					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		TCATGGTGACATCCTGCGGGA	0.498													34	152	---	---	---	---	PASS	T	104129061	T	T	104129061	3	4	135	1	0	0	0	0	1	0	0	0	6271	217	8	5	3154	5	GBF1	10	104129061	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	3879183	104129061	31405686	210	48351										
SUFU	51684	broad.mit.edu	37	chr10	104353466	104353466	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gggcatcctggagctgctgcGgacagtgcctatgtgagtac	15	10	0	1	rs144005604	by1000genomes	TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:104353466G>A	uc001kvy.1	+	5	817	c.671G>A	c.(670-672)CGG>CAG	p.R224Q	SUFU_uc001kvw.1_Missense_Mutation_p.R224Q|SUFU_uc001kvx.2_Missense_Mutation_p.R224Q|SUFU_uc009xxe.1_5'Flank|SUFU_uc009xxf.1_5'Flank	NM_016169	NP_057253	Q9UMX1	SUFU_HUMAN	suppressor of fused	224					negative regulation of transcription from RNA polymerase II promoter|proteolysis|skeletal system development	cytoplasm|nucleus	identical protein binding|protein binding|signal transducer activity|transcription corepressor activity|transcription factor binding			central_nervous_system(4)|skin(2)|breast(1)	7		Colorectal(252;0.207)		Epithelial(162;1.36e-08)|all cancers(201;3.81e-07)|BRCA - Breast invasive adenocarcinoma(275;0.242)		GAGCTGCTGCGGACAGTGCCT	0.627			D|F|S		medulloblastoma	medulloblastoma			Medulloblastoma_associated_with_Germline_SUFU_Mutation				5	62	---	---	---	---	PASS	A	104353466	A	A	104353466	3	1	135	1	0	0	0	0	1	0	0	0	15367	1116	39	1	689	1	SUFU	10	104353466	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	224405	104353466	31181281	211	48352										
NRAP	4892	broad.mit.edu	37	chr10	115392842	115392842	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctccccacattgctctcttaCctcactgaagagtttggcat	6	14	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:115392842C>A	uc001laj.2	-	16	1796	c.1632_splice	c.e16+1	p.E544_splice	NRAP_uc001lak.2_Splice_Site_p.E509_splice|NRAP_uc001lal.3_Splice_Site_p.E544_splice	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S							fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		TGCTCTCTTACCTCACTGAAG	0.473													45	73	---	---	---	---	PASS	A	115392842	A	A	115392842	5	1	135	1	0	0	0	0	0	0	1	0	10638	521	18	3	3667	3	NRAP	10	115392842	Splice_Site	SNP	C	TCGA-60-2726-01A-01D-1522-08	11039376	115392842	20141905	212	48353										
VAX1	11023	broad.mit.edu	37	chr10	118895983	118895983	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gcggcctggtcgccgggtacCtgggtctcggagaggttaag	18	10	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:118895983C>T	uc009xyx.2	-	2	674	c.429G>A	c.(427-429)CAG>CAA	p.Q143Q	VAX1_uc001ldb.1_Silent_p.Q143Q	NM_001112704	NP_001106175	Q5SQQ9	VAX1_HUMAN	ventral anterior homeobox 1 isoform a	143	Homeobox.					nucleus	sequence-specific DNA binding			ovary(2)	2				all cancers(201;0.0108)		CGCCGGGTACCTGGGTCTCGG	0.637													4	35	---	---	---	---	PASS	T	118895983	T	T	118895983	2	4	135	1	0	0	0	0	0	0	0	1	17131	695	24	3		3	VAX1	10	118895983	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	3503141	118895983	16638764	213	48354										
TACC2	10579	broad.mit.edu	37	chr10	123845054	123845054	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	catgaagaagcatgtcaaagGcatccaggagcttctgaagc	11	9	2	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:123845054G>A	uc001lfv.2	+	4	3399	c.3039G>A	c.(3037-3039)AGG>AGA	p.R1013R	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Silent_p.R1013R|TACC2_uc010qtv.1_Silent_p.R1013R	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1013						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				CATGTCAAAGGCATCCAGGAG	0.547													14	46	---	---	---	---	PASS	A	123845054	A	A	123845054	2	1	135	1	0	0	0	0	0	0	0	1	15499	1194	42	3		3	TACC2	10	123845054	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	4949071	123845054	11689693	214	48355										
C10orf88	80007	broad.mit.edu	37	chr10	124708171	124708171	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccatttctacttacccgctgCtgacacctaaccatatccat	3	16	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:124708171C>A	uc001lgw.2	-	4	867	c.642G>T	c.(640-642)CAG>CAT	p.Q214H	C10orf88_uc001lgx.2_Missense_Mutation_p.Q116H	NM_024942	NP_079218	Q9H8K7	CJ088_HUMAN	hypothetical protein LOC80007	214											0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)		TTACCCGCTGCTGACACCTAA	0.378													37	95	---	---	---	---	PASS	A	124708171	A	A	124708171	3	1	135	1	0	0	0	0	1	0	0	0	1622	796	28	3	707	3	C10orf88	10	124708171	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	863117	124708171	10826576	215	48356										
GPR123	84435	broad.mit.edu	37	chr10	134912152	134912152	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cccgtcccacagcgccatccGcatcagccgcaagggccggc	11	20	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr10:134912152G>T	uc001llx.3	+	4	576	c.140G>T	c.(139-141)CGC>CTC	p.R47L	GPR123_uc001llw.2_Missense_Mutation_p.R767L	NM_001083909	NP_001077378	Q86SQ6	GP123_HUMAN	G protein-coupled receptor 123	47	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		AGCGCCATCCGCATCAGCCGC	0.662													33	50	---	---	---	---	PASS	T	134912152	T	T	134912152	3	4	135	1	0	0	0	0	1	0	0	0	6637	1087	38	1	150	1	GPR123	10	134912152	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	10203981	134912152	622595	216	48357										
RIC8A	60626	broad.mit.edu	37	chr11	212501	212501	+	Frame_Shift_Del	DEL	T	-	-													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccgcccagccaggaagttccTgaaggcccaggtataaggct							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:212501delT	uc001log.2	+	6	1380	c.1055delT	c.(1054-1056)CTGfs	p.L352fs	RIC8A_uc001lof.2_Frame_Shift_Del_p.L352fs|RIC8A_uc001loh.2_Frame_Shift_Del_p.L345fs	NM_021932	NP_068751	Q9NPQ8	RIC8A_HUMAN	resistance to inhibitors of cholinesterase 8	352						cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity				0		all_cancers(49;9.23e-07)|all_epithelial(84;0.000315)|Breast(177;0.00122)|Ovarian(85;0.0202)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.45e-27)|Epithelial(43;2.94e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.86e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		AGGAAGTTCCTGAAGGCCCAG	0.587													26	12	---	---	---	---		-	212501	-	-	212501	7	5	135	1	0	1	0	1	0	0	0	0	13355	1580	55	0	1077	0	RIC8A	11	212501	Frame_Shift_Del	DEL	T	TCGA-60-2726-01A-01D-1522-08		212501	134794015	217	48358										
PNPLA2	57104	broad.mit.edu	37	chr11	822507	822507	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	atctgtccgcaggacagctcCaccaacatccacgagctgcg	9	16	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:822507C>A	uc001lrt.2	+	5	799	c.597C>A	c.(595-597)TCC>TCA	p.S199S	PNPLA2_uc009ycl.2_5'Flank	NM_020376	NP_065109	Q96AD5	PLPL2_HUMAN	patatin-like phospholipase domain containing 2	199	Lumenal (Potential).				negative regulation of sequestering of triglyceride|positive regulation of triglyceride catabolic process	integral to membrane|lipid particle|plasma membrane	triglyceride lipase activity				0		all_cancers(49;4.75e-06)|all_epithelial(84;0.00204)|Breast(177;0.00234)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.63e-25)|Epithelial(43;1.28e-24)|OV - Ovarian serous cystadenocarcinoma(40;7.09e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGGACAGCTCCACCAACATCC	0.592													27	111	---	---	---	---	PASS	A	822507	A	A	822507	2	1	135	1	0	0	0	0	0	0	0	1	12165	581	21	3		3	PNPLA2	11	822507	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	610006	822507	134184009	218	48359										
MUC5B	727897	broad.mit.edu	37	chr11	1263975	1263975	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	accagctccaaagccactccCtcctccagtccagggactgc	7	19	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:1263975C>T	uc009ycr.1	+	47	8070	c.7944C>T	c.(7942-7944)CCC>CCT	p.P2648P	MUC5B_uc001ltb.2_Silent_p.P1958P	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1955	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		AAGCCACTCCCTCCTCCAGTC	0.642													22	64	---	---	---	---	PASS	T	1263975	T	T	1263975	2	4	135	1	0	0	0	0	0	0	0	1	9979	668	24	3		3	MUC5B	11	1263975	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	441468	1263975	133742541	219	48360										
OR52K1	390036	broad.mit.edu	37	chr11	4510214	4510214	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttggaacacctgcatgcctgGatctccatccccttctgctt	7	15	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:4510214G>T	uc001lza.1	+	1	84	c.84G>T	c.(82-84)TGG>TGT	p.W28C		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	28	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		TGCATGCCTGGATCTCCATCC	0.498													65	205	---	---	---	---	PASS	T	4510214	T	T	4510214	3	4	135	1	0	0	0	0	1	0	0	0	11123	1183	41	2	86	2	OR52K1	11	4510214	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	3246239	4510214	130496302	220	48361										
OR51E2	81285	broad.mit.edu	37	chr11	4703143	4703143	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aacacgcacaatgggatgaaGgctgtttccaaagcggtgta	12	8	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:4703143G>C	uc001lzk.2	-	2	1043	c.799C>G	c.(799-801)CTT>GTT	p.L267V		NM_030774	NP_110401	Q9H255	O51E2_HUMAN	olfactory receptor, family 51, subfamily E,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(3)|ovary(2)	5		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;3e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00476)|LUSC - Lung squamous cell carcinoma(625;0.2)		ATGGGATGAAGGCTGTTTCCA	0.507													20	70	---	---	---	---	PASS	C	4703143	C	C	4703143	3	2	135	1	0	0	0	0	1	0	0	0	11095	1000	35	4	167	4	OR51E2	11	4703143	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	192929	4703143	130303373	221	48362										
OR52E2	119678	broad.mit.edu	37	chr11	5080646	5080646	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctgttgagagacccacatcaGtggtggccaacatggccagg	13	11	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:5080646G>A	uc010qyw.1	-	1	212	c.212C>T	c.(211-213)ACT>ATT	p.T71I		NM_001005164	NP_001005164	Q8NGJ4	O52E2_HUMAN	olfactory receptor, family 52, subfamily E,	71	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.03e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.191)		ACCCACATCAGTGGTGGCCAA	0.488													13	30	---	---	---	---	PASS	A	5080646	A	A	5080646	3	1	135	1	0	0	0	0	1	0	0	0	11115	1029	36	3	768	3	OR52E2	11	5080646	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	377503	5080646	129925870	222	48363										
OR52A4	390053	broad.mit.edu	37	chr11	5142411	5142411	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	atactatagcacgcctcagaGgataacagatcgctacacag	8	11	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:5142411G>T	uc001lzz.1	-	1	398	c.398C>A	c.(397-399)CCT>CAT	p.P133H	OR52A4_uc001maa.2_RNA	NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		ACGCCTCAGAGGATAACAGAT	0.483													19	50	---	---	---	---	PASS	T	5142411	T	T	5142411	3	4	135	1	0	0	0	0	1	0	0	0	11109	1000	35	3	520	3	OR52A4	11	5142411	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	61765	5142411	129864105	223	48364										
HPX	3263	broad.mit.edu	37	chr11	6462155	6462155	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agagaccagcataggctccaCaaccccagtgcaacgggtgc	11	14	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:6462155C>A	uc001mdg.2	-	1	100	c.39G>T	c.(37-39)TTG>TTT	p.L13F	HPX_uc009yfc.2_RNA|HPX_uc010rai.1_Missense_Mutation_p.L13F	NM_000613	NP_000604	P02790	HEMO_HUMAN	hemopexin precursor	13					cellular iron ion homeostasis|interspecies interaction between organisms	extracellular space	heme transporter activity|metal ion binding|protein binding				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;5.46e-08)|BRCA - Breast invasive adenocarcinoma(625;0.19)		ATAGGCTCCACAACCCCAGTG	0.562													8	18	---	---	---	---	PASS	A	6462155	A	A	6462155	3	1	135	1	0	0	0	0	1	0	0	0	7346	477	17	3	1389	3	HPX	11	6462155	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	1319744	6462155	128544361	224	48365										
KCNA4	3739	broad.mit.edu	37	chr11	30033775	30033775	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cagcagatccgtgtaggaacActcatcaccatggtcatctt	8	12	4	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:30033775A>T	uc001msk.2	-	2	1603	c.451T>A	c.(451-453)TGT>AGT	p.C151S		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	151						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GTGTAGGAACACTCATCACCA	0.398													19	72	---	---	---	---	PASS	T	30033775	T	T	30033775	3	4	135	1	0	0	0	0	1	0	0	0	8005	159	6	5	1514	5	KCNA4	11	30033775	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	23571620	30033775	104972741	225	48366										
PAX6	5080	broad.mit.edu	37	chr11	31812271	31812271	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggctcacctgttgaagtggtGcccgaggtgcccattggctg	15	11	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:31812271G>T	uc001mtd.3	-	11	2060	c.1170C>A	c.(1168-1170)GGC>GGA	p.G390G	PAX6_uc001mte.3_Silent_p.G390G|PAX6_uc001mtg.3_Silent_p.G404G|PAX6_uc001mtf.3_Silent_p.G390G|PAX6_uc001mth.3_Silent_p.G390G|PAX6_uc009yjr.2_Silent_p.G390G	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	390	Pro/Ser/Thr-rich.				blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					TTGAAGTGGTGCCCGAGGTGC	0.542									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				22	88	---	---	---	---	PASS	T	31812271	T	T	31812271	2	4	135	1	0	0	0	0	0	0	0	1	11483	1306	46	3		3	PAX6	11	31812271	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	1778496	31812271	103194245	226	48367										
AMBRA1	55626	broad.mit.edu	37	chr11	46431886	46431886	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agaccgtctcgttcagctggTcccagtagtactcaacacca	8	14	3	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:46431886T>C	uc010rgu.1	-	16	3509	c.3149A>G	c.(3148-3150)GAC>GGC	p.D1050G	AMBRA1_uc010rgt.1_Intron|AMBRA1_uc009ylc.1_Missense_Mutation_p.D1021G|AMBRA1_uc001ncu.1_Missense_Mutation_p.D960G|AMBRA1_uc001ncv.2_Missense_Mutation_p.D1053G|AMBRA1_uc001ncw.2_Missense_Mutation_p.D931G|AMBRA1_uc001ncx.2_Missense_Mutation_p.D990G	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	1050					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		GTTCAGCTGGTCCCAGTAGTA	0.527													38	221	---	---	---	---	PASS	C	46431886	C	C	46431886	3	2	135	1	0	0	0	0	1	0	0	0	565	1667	58	5	759	5	AMBRA1	11	46431886	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	14619615	46431886	88574630	227	48368										
OR4C46	119749	broad.mit.edu	37	chr11	51515299	51515299	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tacatggagaataggaataaCatgacagagtttgttttgct	10	4	0	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:51515299C>T	uc010ric.1	+	1	18	c.18C>T	c.(16-18)AAC>AAT	p.N6N		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ATAGGAATAACATGACAGAGT	0.299													37	132	---	---	---	---	PASS	T	51515299	T	T	51515299	2	4	135	1	0	0	0	0	0	0	0	1	11051	477	17	3		3	OR4C46	11	51515299	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	5083413	51515299	83491217	228	48369										
OR5T2	219464	broad.mit.edu	37	chr11	56000266	56000266	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgtgctacacatccaaggaaTgaaatgactttattctttgt	7	7	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:56000266T>A	uc010rjc.1	-	1	396	c.396A>T	c.(394-396)TCA>TCT	p.S132S		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	132	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					ATCCAAGGAATGAAATGACTT	0.388													28	159	---	---	---	---	PASS	A	56000266	A	A	56000266	2	1	135	1	0	0	0	0	0	0	0	1	11182	1451	51	5		5	OR5T2	11	56000266	Silent	SNP	T	TCGA-60-2726-01A-01D-1522-08	4484967	56000266	79006250	229	48370										
OR5M10	390167	broad.mit.edu	37	chr11	56345037	56345037	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aatacatgggtgtttgcagtTgggaattggtcctgatcagc	13	6	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:56345037T>C	uc001niz.1	-	1	161	c.161A>G	c.(160-162)CAA>CGA	p.Q54R		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGTTTGCAGTTGGGAATTGGT	0.463													27	127	---	---	---	---	PASS	C	56345037	C	C	56345037	3	2	135	1	0	0	0	0	1	0	0	0	11173	1812	63	5	790	5	OR5M10	11	56345037	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	344771	56345037	78661479	230	48371										
MS4A14	84689	broad.mit.edu	37	chr11	60183065	60183065	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tttggaggctatgctttcttCaagttaacactctctaggag	9	8	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:60183065C>G	uc001npj.2	+	5	1189	c.624C>G	c.(622-624)TTC>TTG	p.F208L	MS4A14_uc001npi.2_Missense_Mutation_p.F96L|MS4A14_uc001npn.2_5'UTR|MS4A14_uc001npk.2_Missense_Mutation_p.F191L|MS4A14_uc001npl.2_5'UTR|MS4A14_uc001npm.2_5'UTR	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	208						integral to membrane	receptor activity			breast(1)	1						ATGCTTTCTTCAAGTTAACAC	0.373													35	165	---	---	---	---	PASS	G	60183065	G	G	60183065	3	3	135	1	0	0	0	0	1	0	0	0	9858	825	29	2	642	2	MS4A14	11	60183065	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	3838028	60183065	74823451	231	48372										
GANAB	23193	broad.mit.edu	37	chr11	62394373	62394373	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtacagggtctggggaccatGatgcttctggtagctttgaa	14	7	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:62394373G>A	uc001nub.2	-	20	2389	c.2356C>T	c.(2356-2358)CAT>TAT	p.H786Y	GANAB_uc001ntz.2_5'UTR|GANAB_uc001nua.2_Missense_Mutation_p.H808Y|GANAB_uc001nuc.2_Missense_Mutation_p.H689Y|GANAB_uc010rma.1_Missense_Mutation_p.H694Y|GANAB_uc010rmb.1_Missense_Mutation_p.H672Y	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2	786					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5						TGGGGACCATGATGCTTCTGG	0.527													6	42	---	---	---	---	PASS	A	62394373	A	A	62394373	3	1	135	1	0	0	0	0	1	0	0	0	6233	1290	45	2	498	2	GANAB	11	62394373	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	2211308	62394373	72612143	232	48373										
FGF3	2248	broad.mit.edu	37	chr11	69625434	69625434	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tatagcccagctcgtggatcCgctccacaaactcgcactcg	8	16	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:69625434C>T	uc001oph.2	-	3	850	c.359G>A	c.(358-360)CGG>CAG	p.R120Q		NM_005247	NP_005238	P11487	FGF3_HUMAN	fibroblast growth factor 3 precursor	120					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of cardiac muscle tissue development|positive regulation of cell division|positive regulation of cell proliferation	extracellular region	growth factor activity			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(11;5.05e-15)|STAD - Stomach adenocarcinoma(18;0.0278)			CTCGTGGATCCGCTCCACAAA	0.652													40	696	---	---	---	---	PASS	T	69625434	T	T	69625434	3	4	135	1	0	0	0	0	1	0	0	0	5853	652	23	1	364	1	FGF3	11	69625434	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	7231061	69625434	65381082	233	48374										
MYO7A	4647	broad.mit.edu	37	chr11	76901870	76901870	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctggccgacaagatctctctCaaggaccggttcgggttctc	11	13	3	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:76901870C>G	uc001oyb.2	+	30	4151	c.3879C>G	c.(3877-3879)CTC>CTG	p.L1293L	MYO7A_uc010rsm.1_Silent_p.L1282L|MYO7A_uc001oyc.2_Silent_p.L1293L|MYO7A_uc009yus.1_RNA|MYO7A_uc009yut.1_Silent_p.L504L	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	1293	FERM 1.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						AGATCTCTCTCAAGGACCGGT	0.627													3	125	---	---	---	---	PASS	G	76901870	G	G	76901870	2	3	135	1	0	0	0	0	0	0	0	1	10082	813	29	2		2	MYO7A	11	76901870	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	7276436	76901870	58104646	234	48375										
GRM5	2915	broad.mit.edu	37	chr11	88300889	88300889	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gctgagtagctcatggctggGgagagaccaatgccaattct	13	9	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:88300889G>C	uc001pcq.2	-	7	2162	c.1962C>G	c.(1960-1962)TCC>TCG	p.S654S	GRM5_uc009yvm.2_Silent_p.S654S	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	654	Helical; Name=3; (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	TCATGGCTGGGGAGAGACCAA	0.493													11	36	---	---	---	---	PASS	C	88300889	C	C	88300889	2	2	135	1	0	0	0	0	0	0	0	1	6800	1219	43	4		4	GRM5	11	88300889	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	11399019	88300889	46705627	235	48376										
DDI1	414301	broad.mit.edu	37	chr11	103907666	103907666	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cctctgcgaagcggagtccaGagtccccgtcgaagagatcc	12	14	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:103907666G>A	uc001phr.2	+	1	359	c.116G>A	c.(115-117)AGA>AAA	p.R39K	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	39	Ubiquitin-like.				proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		GCGGAGTCCAGAGTCCCCGTC	0.587													59	167	---	---	---	---	PASS	A	103907666	A	A	103907666	3	1	135	1	0	0	0	0	1	0	0	0	4328	942	33	2	118	2	DDI1	11	103907666	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	15606777	103907666	31098850	236	48377										
HTR3B	9177	broad.mit.edu	37	chr11	113816817	113816817	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttcatgctggggatctacacCatcactctgtgctccctctg	8	14	5	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:113816817C>A	uc001pok.2	+	9	1351	c.1284C>A	c.(1282-1284)ACC>ACA	p.T428T	HTR3B_uc001pol.2_Silent_p.T417T	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	428	Helical; Name=4; (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		GGATCTACACCATCACTCTGT	0.552													42	43	---	---	---	---	PASS	A	113816817	A	A	113816817	2	1	135	1	0	0	0	0	0	0	0	1	7445	581	21	3		3	HTR3B	11	113816817	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	9909151	113816817	21189699	237	48378										
MLL	4297	broad.mit.edu	37	chr11	118372451	118372451	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cctccatcaccagaccgaccTcctcattcacaaacctctgg	4	19	4	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:118372451T>A	uc001pta.2	+	26	6398	c.6375T>A	c.(6373-6375)CCT>CCA	p.P2125P	MLL_uc001ptb.2_Silent_p.P2128P	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2125					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		CAGACCGACCTCCTCATTCAC	0.433			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								62	218	---	---	---	---	PASS	A	118372451	A	A	118372451	2	1	135	1	0	0	0	0	0	0	0	1	9620	1538	54	5		5	MLL	11	118372451	Silent	SNP	T	TCGA-60-2726-01A-01D-1522-08	4555634	118372451	16634065	238	48379										
PDZD3	79849	broad.mit.edu	37	chr11	119059796	119059796	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gaacgggtatcctgttggggGacagaatgacctggagaggc	17	7	0	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:119059796G>A	uc001pwb.2	+	8	2092	c.1568G>A	c.(1567-1569)GGA>GAA	p.G523E	PDZD3_uc001pvy.2_Missense_Mutation_p.G443E|PDZD3_uc001pvz.2_Missense_Mutation_p.G457E|PDZD3_uc010rzd.1_Missense_Mutation_p.G444E|PDZD3_uc001pwa.2_Missense_Mutation_p.G153E			Q86UT5	NHRF4_HUMAN	RecName: Full=Na(+)/H(+) exchange regulatory cofactor NHE-RF4;          Short=NHERF-4; AltName: Full=PDZ domain-containing protein 3; AltName: Full=PDZ domain-containing protein 2; AltName: Full=Intestinal and kidney-enriched PDZ protein; AltName: Full=Sodium-hydrogen exchanger regulatory factor 4;	523	PDZ 4.				cGMP-mediated signaling|ion transport|negative regulation of cGMP biosynthetic process|response to toxin|water transport	apical part of cell|brush border|cytosol|membrane fraction|subapical complex	guanylate cyclase inhibitor activity|ion channel inhibitor activity|protein C-terminus binding			breast(1)	1	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;7.52e-05)		CCTGTTGGGGGACAGAATGAC	0.622													40	45	---	---	---	---	PASS	A	119059796	A	A	119059796	3	1	135	1	0	0	0	0	1	0	0	0	11702	1174	41	2	1408	2	PDZD3	11	119059796	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	687345	119059796	15946720	239	48380										
OR8D4	338662	broad.mit.edu	37	chr11	123777855	123777855	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggcaggtgcaaagcgtttagCacctgtagctcccacctgac	11	13	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:123777855C>T	uc010saa.1	+	1	717	c.717C>T	c.(715-717)AGC>AGT	p.S239S		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	239	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		AAGCGTTTAGCACCTGTAGCT	0.463													52	210	---	---	---	---	PASS	T	123777855	T	T	123777855	2	4	135	1	0	0	0	0	0	0	0	1	11233	709	25	3		3	OR8D4	11	123777855	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	4718059	123777855	11228661	240	48381										
VWA5A	4013	broad.mit.edu	37	chr11	124007350	124007350	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agacttttgaggataaggtgAcatttcctctacaacccaag	8	9	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr11:124007350A>T	uc001pzu.2	+	14	1803	c.1594A>T	c.(1594-1596)ACA>TCA	p.T532S	VWA5A_uc001pzt.2_Missense_Mutation_p.T532S	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	532										upper_aerodigestive_tract(1)|ovary(1)	2						GGATAAGGTGACATTTCCTCT	0.318													49	160	---	---	---	---	PASS	T	124007350	T	T	124007350	3	4	135	1	0	0	0	0	1	0	0	0	17239	275	10	5	1644	5	VWA5A	11	124007350	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	229495	124007350	10999166	241	48382										
CACNA1C	775	broad.mit.edu	37	chr12	2743545	2743545	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tatagcaatcaccgaggtaaAcgtaagtacatggcgtctgt	10	8	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr12:2743545A>G	uc009zdu.1	+	32	4368	c.4055A>G	c.(4054-4056)AAC>AGC	p.N1352S	CACNA1C_uc009zdv.1_Intron|CACNA1C_uc001qkb.2_Missense_Mutation_p.N1304S|CACNA1C_uc001qkc.2_Missense_Mutation_p.N1304S|CACNA1C_uc001qke.2_Missense_Mutation_p.N1304S|CACNA1C_uc001qkf.2_Missense_Mutation_p.N1304S|CACNA1C_uc001qjz.2_Missense_Mutation_p.N1304S|CACNA1C_uc001qkd.2_Missense_Mutation_p.N1304S|CACNA1C_uc001qkg.2_Intron|CACNA1C_uc009zdw.1_Missense_Mutation_p.N1304S|CACNA1C_uc001qkh.2_Missense_Mutation_p.N1304S|CACNA1C_uc001qkl.2_Missense_Mutation_p.N1352S|CACNA1C_uc001qkn.2_Missense_Mutation_p.N1304S|CACNA1C_uc001qko.2_Missense_Mutation_p.N1324S|CACNA1C_uc001qkp.2_Intron|CACNA1C_uc001qkr.2_Missense_Mutation_p.N1332S|CACNA1C_uc001qku.2_Missense_Mutation_p.N1304S|CACNA1C_uc001qkq.2_Missense_Mutation_p.N1332S|CACNA1C_uc001qks.2_Intron|CACNA1C_uc001qkt.2_Intron|CACNA1C_uc001qki.1_Intron|CACNA1C_uc001qkj.1_Intron|CACNA1C_uc001qkk.1_Intron|CACNA1C_uc001qkm.1_Missense_Mutation_p.N1040S	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1352	Extracellular (Potential).|IV.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	ACCGAGGTAAACGTAAGTACA	0.403													12	6	---	---	---	---	PASS	G	2743545	G	G	2743545	3	3	135	1	0	0	0	0	1	0	0	0	2540	57	2	5	4289	5	CACNA1C	12	2743545	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08		2743545	131108350	242	48383										
ANO2	57101	broad.mit.edu	37	chr12	5756937	5756937	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	catcaggtaacctgggaaacGatccttccaggtcagtttat	9	10	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr12:5756937G>A	uc001qnm.2	-	16	1648	c.1576C>T	c.(1576-1578)CGT>TGT	p.R526C		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	531	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						CCTGGGAAACGATCCTTCCAG	0.438													4	40	---	---	---	---	PASS	A	5756937	A	A	5756937	3	1	135	1	0	0	0	0	1	0	0	0	697	1058	37	2	1464	2	ANO2	12	5756937	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	3013392	5756937	128094958	243	48384										
GAPDH	2597	broad.mit.edu	37	chr12	6646779	6646779	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	catgccatcactgccacccaGaagactgtggatggcccctc	9	16	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr12:6646779G>T	uc001qop.1	+	8	657	c.555G>T	c.(553-555)CAG>CAT	p.Q185H	GAPDH_uc009zep.1_Missense_Mutation_p.Q143H|GAPDH_uc001qoq.1_Missense_Mutation_p.Q110H|GAPDH_uc001qor.1_Missense_Mutation_p.Q144H|GAPDH_uc001qos.1_Missense_Mutation_p.Q185H|GAPDH_uc001qot.1_Missense_Mutation_p.Q185H|GAPDH_uc001qou.1_Missense_Mutation_p.Q144H|GAPDH_uc001qov.1_Missense_Mutation_p.Q143H|GAPDH_uc001qow.1_Missense_Mutation_p.Q138H|GAPDH_uc001qox.1_Missense_Mutation_p.Q11H	NM_002046	NP_002037	P04406	G3P_HUMAN	glyceraldehyde-3-phosphate dehydrogenase	185					gluconeogenesis|glycolysis|neuron apoptosis|peptidyl-cysteine S-trans-nitrosylation|protein stabilization	cytosol|membrane|nucleus|perinuclear region of cytoplasm	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity|NAD binding|peptidyl-cysteine S-nitrosylase activity|protein binding				0					NADH(DB00157)	CTGCCACCCAGAAGACTGTGG	0.622											OREG0021628	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	63	---	---	---	---	PASS	T	6646779	T	T	6646779	3	4	135	1	0	0	0	0	1	0	0	0	6236	933	33	2	581	2	GAPDH	12	6646779	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	889842	6646779	127205116	244	48385										
CLEC4A	50856	broad.mit.edu	37	chr12	8278191	8278191	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	actgcccctcacaaaagtaaTaccggattccccaagctgct	6	15	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr12:8278191T>G	uc001qtz.1	+	2	364	c.117T>G	c.(115-117)AAT>AAG	p.N39K	CLEC4A_uc009zga.1_Intron|CLEC4A_uc001qub.1_Missense_Mutation_p.N39K|CLEC4A_uc001quc.1_Intron|CLEC4A_uc009zgb.1_Missense_Mutation_p.N39K	NM_016184	NP_057268	Q9UMR7	CLC4A_HUMAN	C-type lectin domain family 4, member A isoform	39	Cytoplasmic (Potential).				cell adhesion|cell surface receptor linked signaling pathway|innate immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0				Kidney(36;0.0915)		ACAAAAGTAATACCGGATTCC	0.403													31	141	---	---	---	---	PASS	G	8278191	G	G	8278191	3	3	135	1	0	0	0	0	1	0	0	0	3512	1403	49	5	123	5	CLEC4A	12	8278191	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	1631412	8278191	125573704	245	48386										
TAS2R31	259290	broad.mit.edu	37	chr12	11183143	11183143	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tagctgaatctaatagctttGcagaacatgaagacaggttt	9	6	1	4			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr12:11183143G>A	uc001qzo.1	-	1	864	c.792C>T	c.(790-792)TGC>TGT	p.C264C	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176885	NP_795366	P59538	T2R31_HUMAN	taste receptor, type 2, member 31	264	Helical; Name=7; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity				0						TAATAGCTTTGCAGAACATGA	0.393													82	437	---	---	---	---	PASS	A	11183143	A	A	11183143	2	1	135	1	0	0	0	0	0	0	0	1	15571	1311	46	3		3	TAS2R31	12	11183143	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	2904952	11183143	122668752	246	48387										
MLL2	8085	broad.mit.edu	37	chr12	49435239	49435239	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cccctggctgcgggggaatgCggagatgtagggccggtcgg	20	10	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr12:49435239C>T	uc001rta.3	-	31	6314	c.6314G>A	c.(6313-6315)CGC>CAC	p.R2105H		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2105					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CGGGGGAATGCGGAGATGTAG	0.652			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			4	82	---	---	---	---	PASS	T	49435239	T	T	49435239	3	4	135	1	0	0	0	0	1	0	0	0	9621	768	27	1	10395	1	MLL2	12	49435239	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	38252096	49435239	84416656	247	48388										
ITGA7	3679	broad.mit.edu	37	chr12	56082084	56082084	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggacttcacagctgagtactCctaagggaacagggaaggag	14	8	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr12:56082084C>T	uc001shh.2	-	23	3191	c.2971G>A	c.(2971-2973)GAG>AAG	p.E991K	ITGA7_uc001shg.2_Missense_Mutation_p.E987K|ITGA7_uc010sps.1_Missense_Mutation_p.E894K|ITGA7_uc001shf.2_5'Flank|ITGA7_uc009znw.2_Missense_Mutation_p.E234K|ITGA7_uc009znx.2_Missense_Mutation_p.E868K	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	1031	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						GCTGAGTACTCCTAAGGGAAC	0.502													18	74	---	---	---	---	PASS	T	56082084	T	T	56082084	3	4	135	1	0	0	0	0	1	0	0	0	7881	869	30	2	466	2	ITGA7	12	56082084	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	6646845	56082084	77769811	248	48389										
NAV3	89795	broad.mit.edu	37	chr12	78513143	78513143	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gaaaaagcccccctcaggcaTtggaagatcgactgccacca	9	14	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr12:78513143T>G	uc001syp.2	+	15	3340	c.3167T>G	c.(3166-3168)ATT>AGT	p.I1056S	NAV3_uc001syo.2_Missense_Mutation_p.I1056S|NAV3_uc010sub.1_Missense_Mutation_p.I556S|NAV3_uc009zsf.2_Missense_Mutation_p.I64S	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1056	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CCCTCAGGCATTGGAAGATCG	0.488										HNSCC(70;0.22)			27	172	---	---	---	---	PASS	G	78513143	G	G	78513143	3	3	135	1	0	0	0	0	1	0	0	0	10185	1493	52	5	3225	5	NAV3	12	78513143	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	22431059	78513143	55338752	249	48390										
MYF5	4617	broad.mit.edu	37	chr12	81112734	81112734	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gagcaacctgggttgcctctCcaggatctggcttctctctc	10	14	4	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr12:81112734C>A	uc001szg.2	+	3	807	c.672C>A	c.(670-672)CTC>CTA	p.L224L		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	224					muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GGTTGCCTCTCCAGGATCTGG	0.493													39	137	---	---	---	---	PASS	A	81112734	A	A	81112734	2	1	135	1	0	0	0	0	0	0	0	1	10027	842	30	2		2	MYF5	12	81112734	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	2599591	81112734	52739161	250	48391										
C12orf26	84190	broad.mit.edu	37	chr12	82793073	82793073	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgaagccaataaagagagaaGaaaaatgacatcaaagtcaa	8	5	2	5			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr12:82793073G>A	uc001szq.2	+	4	1052	c.1031G>A	c.(1030-1032)AGA>AAA	p.R344K		NM_032230	NP_115606	Q8N6Q8	CL026_HUMAN	hypothetical protein LOC84190	344											0						AAAGAGAGAAGAAAAATGACA	0.338													35	63	---	---	---	---	PASS	A	82793073	A	A	82793073	3	1	135	1	0	0	0	0	1	0	0	0	1679	942	33	2	1045	2	C12orf26	12	82793073	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	1680339	82793073	51058822	251	48392										
SLC17A8	246213	broad.mit.edu	37	chr12	100796511	100796511	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tttgaagaggtctttggattTgcaataagtaaggtaaacac	10	4	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr12:100796511T>G	uc010svi.1	+	8	1354	c.1041T>G	c.(1039-1041)TTT>TTG	p.F347L	SLC17A8_uc009ztx.2_Intron	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	347	Vesicular (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						TCTTTGGATTTGCAATAAGTA	0.328													21	88	---	---	---	---	PASS	G	100796511	G	G	100796511	3	3	135	1	0	0	0	0	1	0	0	0	14423	1809	63	5	1071	5	SLC17A8	12	100796511	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	18003438	100796511	33055384	252	48393										
SRRM4	84530	broad.mit.edu	37	chr12	119583429	119583429	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	actccttcaccacctcctcaCcccagaacaagggggccatg	7	18	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr12:119583429C>A	uc001txa.1	+	9	1307	c.1015C>A	c.(1015-1017)CCC>ACC	p.P339T		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	339	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						CACCTCCTCACCCCAGAACAA	0.627													6	25	---	---	---	---	PASS	A	119583429	A	A	119583429	3	1	135	1	0	0	0	0	1	0	0	0	15170	507	18	3	1049	3	SRRM4	12	119583429	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	18786918	119583429	14268466	253	48394										
FRY	10129	broad.mit.edu	37	chr13	32705840	32705840	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	taaagaagaaatttatggcgGagctaaaagaattacggcac	10	5	0	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr13:32705840G>T	uc001utx.2	+	8	1244	c.748G>T	c.(748-750)GAG>TAG	p.E250*	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	250					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		ATTTATGGCGGAGCTAAAAGA	0.388													50	52	---	---	---	---	PASS	T	32705840	T	T	32705840	4	4	135	1	0	0	0	0	0	1	0	0	6063	1175	41	2	778	2	FRY	13	32705840	Nonsense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08		32705840	82464038	254	48395										
DCLK1	9201	broad.mit.edu	37	chr13	36521584	36521584	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	catcaccaaaaaagtcctgaAggcacatcacctacaagaga	6	12	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr13:36521584A>G	uc001uvf.2	-	4	967	c.734T>C	c.(733-735)CTT>CCT	p.L245P		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	245	Doublecortin 2.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		AAAGTCCTGAAGGCACATCAC	0.443													13	59	---	---	---	---	PASS	G	36521584	G	G	36521584	3	3	135	1	0	0	0	0	1	0	0	0	4291	72	3	5	1515	5	DCLK1	13	36521584	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	3815744	36521584	78648294	255	48396										
RCBTB2	1102	broad.mit.edu	37	chr13	49084844	49084844	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	caactgcccataagaattggCgccccaagcatacacttggc	8	14	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr13:49084844C>T	uc001vch.2	-	10	1218	c.847G>A	c.(847-849)GCC>ACC	p.A283T	RCBTB2_uc010tgg.1_Missense_Mutation_p.A288T|RCBTB2_uc001vci.2_Missense_Mutation_p.A259T|RCBTB2_uc010tgh.1_Intron|RCBTB2_uc001vcj.2_Intron|RCBTB2_uc010acv.1_RNA|RCBTB2_uc010tgi.1_Intron	NM_001268	NP_001259	O95199	RCBT2_HUMAN	regulator of chromosome condensation and BTB	283	RCC1 5.						Ran guanyl-nucleotide exchange factor activity			ovary(2)|lung(2)|skin(1)	5		all_cancers(8;4.86e-71)|all_epithelial(8;2.11e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;2.3e-10)|Lung NSC(96;1.07e-07)|Breast(56;1.53e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.00826)|Myeloproliferative disorder(33;0.0179)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(99;1.8e-09)|LUSC - Lung squamous cell carcinoma(3;0.116)		TAAGAATTGGCGCCCCAAGCA	0.473													4	141	---	---	---	---	PASS	T	49084844	T	T	49084844	3	4	135	1	0	0	0	0	1	0	0	0	13172	768	27	1	832	1	RCBTB2	13	49084844	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	12563260	49084844	66085034	256	48397										
TUBGCP3	10426	broad.mit.edu	37	chr13	113158371	113158371	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agtcactgtccagcaggcagCgggagatgatggtgtctaag	15	8	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr13:113158371C>A	uc001vse.1	-	19	2469	c.2282G>T	c.(2281-2283)CGC>CTC	p.R761L	TUBGCP3_uc010tjq.1_Missense_Mutation_p.R751L|TUBGCP3_uc001vsf.2_Missense_Mutation_p.R761L	NM_006322	NP_006313	Q96CW5	GCP3_HUMAN	tubulin, gamma complex associated protein 3	761					G2/M transition of mitotic cell cycle|microtubule nucleation|single fertilization	centriole|cytosol|polar microtubule	gamma-tubulin binding|structural constituent of cytoskeleton			central_nervous_system(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)					CAGCAGGCAGCGGGAGATGAT	0.488													37	85	---	---	---	---	PASS	A	113158371	A	A	113158371	3	1	135	1	0	0	0	0	1	0	0	0	16764	768	27	1	457	1	TUBGCP3	13	113158371	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	64073527	113158371	2011507	257	48398										
POTEG	404785	broad.mit.edu	37	chr14	19553558	19553558	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gcaacgtgggcacttctggaGaccacgacgattctgctatg	12	11	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr14:19553558G>A	uc001vuz.1	+	1	194	c.142G>A	c.(142-144)GAC>AAC	p.D48N	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	48										ovary(1)	1						CACTTCTGGAGACCACGACGA	0.602													18	503	---	---	---	---	PASS	A	19553558	A	A	19553558	3	1	135	1	0	0	0	0	1	0	0	0	12266	942	33	2	144	2	POTEG	14	19553558	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08		19553558	87795982	258	48399										
KCNH5	27133	broad.mit.edu	37	chr14	63174229	63174229	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	atatatatgtatatatattaAaagtggatttcatctttgtc	5	3	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr14:63174229A>T	uc001xfx.2	-	11	3015	c.2964T>A	c.(2962-2964)TTT>TTA	p.F988L	KCNH5_uc001xfy.2_3'UTR	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	988	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		atatatatTAAAAGTGGATTT	0.254													18	56	---	---	---	---	PASS	T	63174229	T	T	63174229	3	4	135	1	0	0	0	0	1	0	0	0	8035	11	1	5	6	5	KCNH5	14	63174229	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	43620671	63174229	44175311	259	48400										
ZFYVE26	23503	broad.mit.edu	37	chr14	68275998	68275998	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tttctccggaaaacaactggGagtaacttctagaagaatca	8	8	3	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr14:68275998G>T	uc001xka.2	-	4	421	c.282C>A	c.(280-282)CTC>CTA	p.L94L	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Silent_p.L94L|ZFYVE26_uc010tta.1_Silent_p.L94L	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	94					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		AAACAACTGGGAGTAACTTCT	0.358													32	110	---	---	---	---	PASS	T	68275998	T	T	68275998	2	4	135	1	0	0	0	0	0	0	0	1	17665	1161	41	2		2	ZFYVE26	14	68275998	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	5101769	68275998	39073542	260	48401										
ZFYVE1	53349	broad.mit.edu	37	chr14	73442325	73442325	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtcagccaggaagtcacagcCttggtgggtccaaggctaag	14	10	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr14:73442325C>T	uc001xnm.2	-	9	2380	c.1740G>A	c.(1738-1740)AAG>AAA	p.K580K	ZFYVE1_uc001xnl.2_Silent_p.K165K|ZFYVE1_uc010arj.2_Silent_p.K566K	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	580						endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		AAGTCACAGCCTTGGTGGGTC	0.587													21	69	---	---	---	---	PASS	T	73442325	T	T	73442325	2	4	135	1	0	0	0	0	0	0	0	1	17660	680	24	3		3	ZFYVE1	14	73442325	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	5166327	73442325	33907215	261	48402										
ZFYVE1	53349	broad.mit.edu	37	chr14	73442367	73442367	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcggacaccgactgagccatGaagttcatcccgtccaacag	9	14	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr14:73442367G>A	uc001xnm.2	-	9	2338	c.1698C>T	c.(1696-1698)TTC>TTT	p.F566F	ZFYVE1_uc001xnl.2_Silent_p.F151F|ZFYVE1_uc010arj.2_Silent_p.F552F	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	566						endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		ACTGAGCCATGAAGTTCATCC	0.557													17	71	---	---	---	---	PASS	A	73442367	A	A	73442367	2	1	135	1	0	0	0	0	0	0	0	1	17660	1281	45	2		2	ZFYVE1	14	73442367	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	42	73442367	33907173	262	48403										
EML5	161436	broad.mit.edu	37	chr14	89181371	89181371	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cagtccagatgagtgatgaaActaagggatcccaaacactc	9	10	0	4			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr14:89181371A>G	uc001xxg.2	-	10	1542	c.1356T>C	c.(1354-1356)AGT>AGC	p.S452S	EML5_uc001xxh.1_5'UTR	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	452	WD 9.					cytoplasm|microtubule				ovary(3)	3						GAGTGATGAAACTAAGGGATC	0.393													23	65	---	---	---	---	PASS	G	89181371	G	G	89181371	2	3	135	1	0	0	0	0	0	0	0	1	5100	40	2	5		5	EML5	14	89181371	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	15739004	89181371	18168169	263	48404										
CCDC88C	440193	broad.mit.edu	37	chr14	91766287	91766287	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcacctgtccagctcgccccGcagcctctggttctcgccca	8	20	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr14:91766287G>A	uc010aty.2	-	21	3862	c.3763C>T	c.(3763-3765)CGG>TGG	p.R1255W		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	1255	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				AGCTCGCCCCGCAGCCTCTGG	0.637													3	4	---	---	---	---	PASS	A	91766287	A	A	91766287	3	1	135	1	0	0	0	0	1	0	0	0	2865	1086	38	1	2363	1	CCDC88C	14	91766287	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	2584916	91766287	15583253	264	48405										
SLC24A4	123041	broad.mit.edu	37	chr14	92792310	92792310	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggacacagacagccaagaacTgcacagatcctggtaagaaa	10	10	0	4			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr14:92792310T>A	uc001yak.2	+	2	202	c.178T>A	c.(178-180)TGC>AGC	p.C60S	SLC24A4_uc001yai.2_Missense_Mutation_p.C13S|SLC24A4_uc010twm.1_Missense_Mutation_p.C77S|SLC24A4_uc001yaj.2_Missense_Mutation_p.C60S	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	77	Extracellular (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		AGCCAAGAACTGCACAGATCC	0.502													13	33	---	---	---	---	PASS	A	92792310	A	A	92792310	3	1	135	1	0	0	0	0	1	0	0	0	14468	1580	55	5	184	5	SLC24A4	14	92792310	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	1026023	92792310	14557230	265	48406										
KIAA1409	57578	broad.mit.edu	37	chr14	94067100	94067100	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	catttggattgtaacaaggaAtttccttttcctacaagtaa	6	7	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr14:94067100A>G	uc001ybv.1	+	22	3110	c.3027A>G	c.(3025-3027)GAA>GAG	p.E1009E	KIAA1409_uc001ybs.1_Silent_p.E1009E	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1186						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GTAACAAGGAATTTCCTTTTC	0.408													23	79	---	---	---	---	PASS	G	94067100	G	G	94067100	2	3	135	1	0	0	0	0	0	0	0	1	8230	98	4	5		5	KIAA1409	14	94067100	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	1274790	94067100	13282440	266	48407										
ATG2B	55102	broad.mit.edu	37	chr14	96794853	96794853	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctgccttgtgaggaactgaaCtaagtcttgcttgattaccc	9	10	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr14:96794853C>A	uc001yfi.2	-	14	2359	c.1994G>T	c.(1993-1995)AGT>ATT	p.S665I		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	665										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)		AGGAACTGAACTAAGTCTTGC	0.313													24	85	---	---	---	---	PASS	A	96794853	A	A	96794853	3	1	135	1	0	0	0	0	1	0	0	0	1094	565	20	3	4358	3	ATG2B	14	96794853	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	2727753	96794853	10554687	267	48408										
TMEM62	80021	broad.mit.edu	37	chr15	43427721	43427721	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aacctacaggagacctgacaGatgccaaaacaaaggaacag	9	10	0	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr15:43427721G>C	uc001zqr.2	+	3	583	c.304G>C	c.(304-306)GAT>CAT	p.D102H	TMEM62_uc010bda.2_5'UTR	NM_024956	NP_079232	Q0P6H9	TMM62_HUMAN	transmembrane protein 62	102						integral to membrane				ovary(1)|breast(1)	2		all_cancers(109;1.16e-10)|all_epithelial(112;2.01e-09)|Lung NSC(122;8.91e-07)|all_lung(180;8.8e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;4.23e-07)		AGACCTGACAGATGCCAAAAC	0.408													22	26	---	---	---	---	PASS	C	43427721	C	C	43427721	3	2	135	1	0	0	0	0	1	0	0	0	16186	942	33	2	314	2	TMEM62	15	43427721	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08		43427721	59103671	268	48409										
HERC1	8925	broad.mit.edu	37	chr15	63929830	63929830	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gatgacaaaggtacaattctGaccacaaatgacctagtata	7	8	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr15:63929830G>A	uc002amp.2	-	64	12254	c.12106C>T	c.(12106-12108)CAG>TAG	p.Q4036*		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	4036	RCC1 8.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						GTACAATTCTGACCACAAATG	0.358													4	4	---	---	---	---	PASS	A	63929830	A	A	63929830	4	1	135	1	0	0	0	0	0	1	0	0	7057	1299	45	2	2539	2	HERC1	15	63929830	Nonsense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	20502109	63929830	38601562	269	48410										
NTRK3	4916	broad.mit.edu	37	chr15	88679203	88679203	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	atgcacgtcagggtgaagccAttgtcctcactcgtcacatt	9	12	3	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr15:88679203A>G	uc002bme.1	-	8	996	c.834T>C	c.(832-834)AAT>AAC	p.N278N	NTRK3_uc002bmh.2_Silent_p.N278N|NTRK3_uc002bmf.1_Silent_p.N278N|NTRK3_uc010upl.1_Silent_p.N180N|NTRK3_uc010bnh.1_Silent_p.N278N|NTRK3_uc002bmg.2_Silent_p.N278N	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	278	Ig-like C2-type 1.|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)			GGGTGAAGCCATTGTCCTCAC	0.478			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			29	136	---	---	---	---	PASS	G	88679203	G	G	88679203	2	3	135	1	0	0	0	0	0	0	0	1	10708	214	8	5		5	NTRK3	15	88679203	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	24749373	88679203	13852189	270	48411										
CHD2	1106	broad.mit.edu	37	chr15	93470511	93470511	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgatgtttatggggtcaggcGgtcaaaccgaagcagacaag	14	7	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr15:93470511G>T	uc002bsp.2	+	4	907	c.332G>T	c.(331-333)CGG>CTG	p.R111L	CHD2_uc002bsm.1_Missense_Mutation_p.R111L|CHD2_uc002bsn.2_Missense_Mutation_p.R111L|CHD2_uc002bso.1_Missense_Mutation_p.R111L|CHD2_uc010urb.1_Missense_Mutation_p.R124L	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	111					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			GGGGTCAGGCGGTCAAACCGA	0.373													12	78	---	---	---	---	PASS	T	93470511	T	T	93470511	3	4	135	1	0	0	0	0	1	0	0	0	3325	1116	39	1	342	1	CHD2	15	93470511	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	4791308	93470511	9060881	271	48412										
RAB26	25837	broad.mit.edu	37	chr16	2203412	2203412	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gggtcgaggggcctcctgctGccgcccttgaacctggctga	15	14	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr16:2203412G>T	uc002cou.2	+	9	895	c.761G>T	c.(760-762)TGC>TTC	p.C254F	RAB26_uc010bsf.2_Missense_Mutation_p.C188F|TRAF7_uc002cow.2_5'Flank	NM_014353	NP_055168	Q9ULW5	RAB26_HUMAN	RAB26, member RAS oncogene family	254					exocrine system development|protein transport|regulation of exocytosis|small GTPase mediated signal transduction	intrinsic to plasma membrane	GTP binding|protein binding				0						GCCTCCTGCTGCCGCCCTTGA	0.627													3	53	---	---	---	---	PASS	T	2203412	T	T	2203412	3	4	135	1	0	0	0	0	1	0	0	0	12913	1319	46	3	795	3	RAB26	16	2203412	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08		2203412	88151341	272	48413										
UMOD	7369	broad.mit.edu	37	chr16	20348016	20348016	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gacacgggattgatctatgaCactcccacttcggaatctgg	10	11	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr16:20348016C>A	uc002dgz.2	-	9	1903	c.1774G>T	c.(1774-1776)GTC>TTC	p.V592F	UMOD_uc002dha.2_Missense_Mutation_p.V592F|UMOD_uc002dhb.2_Missense_Mutation_p.V625F	NM_003361	NP_003352	P07911	UROM_HUMAN	uromodulin precursor	592					cellular defense response|negative regulation of cell proliferation	anchored to membrane|apical plasma membrane|basolateral plasma membrane|cilium membrane|extrinsic to membrane|primary cilium|spindle pole	calcium ion binding			ovary(1)|skin(1)	2						TGATCTATGACACTCCCACTT	0.527													44	53	---	---	---	---	PASS	A	20348016	A	A	20348016	3	1	135	1	0	0	0	0	1	0	0	0	16976	478	17	3	160	3	UMOD	16	20348016	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	18144604	20348016	70006737	273	48414										
PDILT	204474	broad.mit.edu	37	chr16	20384235	20384235	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctcatgatgtgcaactcggaAatcagatccttattctgaaa	7	9	3	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr16:20384235A>C	uc002dhc.1	-	7	1030	c.807T>G	c.(805-807)ATT>ATG	p.I269M		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	269					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						GCAACTCGGAAATCAGATCCT	0.458													60	70	---	---	---	---	PASS	C	20384235	C	C	20384235	3	2	135	1	0	0	0	0	1	0	0	0	11674	10	1	5	971	5	PDILT	16	20384235	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	36219	20384235	69970518	274	48415										
ACSM2B	348158	broad.mit.edu	37	chr16	20570768	20570768	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggcttgggagtcgcttgccaGcctgaggaaagagaaaccct	14	10	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr16:20570768G>T	uc002dhj.3	-	4	389	c.179C>A	c.(178-180)GCT>GAT	p.A60D	ACSM2B_uc002dhk.3_Missense_Mutation_p.A60D|ACSM2B_uc010bwf.1_Missense_Mutation_p.A60D	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	60					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						TCGCTTGCCAGCCTGAGGAAA	0.502													16	23	---	---	---	---	PASS	T	20570768	T	T	20570768	3	4	135	1	0	0	0	0	1	0	0	0	184	985	34	3	1602	3	ACSM2B	16	20570768	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	186533	20570768	69783985	275	48416										
ITGAL	3683	broad.mit.edu	37	chr16	30525157	30525157	+	Missense_Mutation	SNP	A	T	T													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	caagatccaccaagtcaagcAcatgtaccaggtatgaatcc							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr16:30525157A>T	uc002dyi.3	+	25	3028	c.2852A>T	c.(2851-2853)CAC>CTC	p.H951L	ITGAL_uc002dyj.3_Missense_Mutation_p.H867L|ITGAL_uc010vev.1_Missense_Mutation_p.H185L	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	951	Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	CAAGTCAAGCACATGTACCAG	0.502													17	75	---	---	---	---	PASS	T	30525157	T	T	30525157	3	4	135	1	0	0	0	0	1	0	0	0	7886	159	6	5	2950	5	ITGAL	16	30525157	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	9954389	30525157	59829596	276	48417	890	2								
ITGAL	3683	broad.mit.edu	37	chr16	30525158	30525158	+	Silent	SNP	C	T	T													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aagatccaccaagtcaagcaCatgtaccaggtatgaatccc							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr16:30525158C>T	uc002dyi.3	+	25	3029	c.2853C>T	c.(2851-2853)CAC>CAT	p.H951H	ITGAL_uc002dyj.3_Silent_p.H867H|ITGAL_uc010vev.1_Silent_p.H185H	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	951	Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	AAGTCAAGCACATGTACCAGG	0.507													18	73	---	---	---	---	PASS	T	30525158	T	T	30525158	2	4	135	1	0	0	0	0	0	0	0	1	7886	477	17	3		3	ITGAL	16	30525158	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	1	30525158	59829595	277	48418	890	2								
CDH8	1006	broad.mit.edu	37	chr16	61687975	61687975	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttaatggttcatttttatgcCgccgtagagttacaaacagc	8	8	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr16:61687975C>A	uc002eog.1	-	12	2189	c.1937G>T	c.(1936-1938)CGG>CTG	p.R646L		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	646	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.R646Q(1)		ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		ATTTTTATGCCGCCGTAGAGT	0.393													40	197	---	---	---	---	PASS	A	61687975	A	A	61687975	3	1	135	1	0	0	0	0	1	0	0	0	3116	652	23	1	466	1	CDH8	16	61687975	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	31162817	61687975	28666778	278	48419										
CDH8	1006	broad.mit.edu	37	chr16	62055227	62055227	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgattcatcggagccatgtaAatgcaagggggaagagtaat	13	5	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr16:62055227A>T	uc002eog.1	-	2	333	c.81T>A	c.(79-81)ATT>ATA	p.I27I		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	27					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		GAGCCATGTAAATGCAAGGGG	0.438													30	174	---	---	---	---	PASS	T	62055227	T	T	62055227	2	4	135	1	0	0	0	0	0	0	0	1	3116	10	1	5		5	CDH8	16	62055227	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	367252	62055227	28299526	279	48420										
DYNLRB2	83657	broad.mit.edu	37	chr16	80577174	80577174	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcttcctggtctctttcaggCagaggtggaggaaaccttaa	11	9	3	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr16:80577174C>A	uc002ffo.2	+	4	125	c.5C>A	c.(4-6)GCA>GAA	p.A2E	DYNLRB2_uc002ffp.2_RNA|DYNLRB2_uc002ffq.2_RNA	NM_130897	NP_570967	Q8TF09	DLRB2_HUMAN	dynein, light chain, roadblock-type 2	2					microtubule-based movement|transport	cytoplasmic dynein complex|microtubule	microtubule motor activity				0						CTCTTTCAGGCAGAGGTGGAG	0.413													65	245	---	---	---	---	PASS	A	80577174	A	A	80577174	3	1	135	1	0	0	0	0	1	0	0	0	4851	724	25	3	11	3	DYNLRB2	16	80577174	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	18521947	80577174	9777579	280	48421										
IRF8	3394	broad.mit.edu	37	chr16	85945236	85945236	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tacagagatggagtgcggtcGctctgaaatcgacgagctga	14	8	1	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr16:85945236G>T	uc002fjh.2	+	4	476	c.419G>T	c.(418-420)CGC>CTC	p.R140L	IRF8_uc010chp.2_RNA	NM_002163	NP_002154	Q02556	IRF8_HUMAN	interferon regulatory factor 8	140					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			breast(2)|ovary(1)	3		Prostate(104;0.0771)				GAGTGCGGTCGCTCTGAAATC	0.552													34	31	---	---	---	---	PASS	T	85945236	T	T	85945236	3	4	135	1	0	0	0	0	1	0	0	0	7836	1087	38	1	429	1	IRF8	16	85945236	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	5368062	85945236	4409517	281	48422										
MYH2	4620	broad.mit.edu	37	chr17	10438456	10438456	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tacagatgcggatgccttccAgcacaccgttacacctcagc	8	15	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:10438456A>G	uc010coi.2	-	19	2242	c.2114T>C	c.(2113-2115)CTG>CCG	p.L705P	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.L705P|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	705	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GATGCCTTCCAGCACACCGTT	0.453													81	65	---	---	---	---	PASS	G	10438456	G	G	10438456	3	3	135	1	0	0	0	0	1	0	0	0	10035	188	7	5	3799	5	MYH2	17	10438456	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08		10438456	70756754	282	48423										
UBB	7314	broad.mit.edu	37	chr17	16285604	16285604	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgcaggcaagcagctggaagAtggccgcactctttctgact	12	11	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:16285604A>G	uc002gpx.2	+	2	521	c.383A>G	c.(382-384)GAT>GGT	p.D128G	UBB_uc010vwe.1_Intron	NM_018955	NP_061828	P0CG47	UBB_HUMAN	ubiquitin B precursor	128	Ubiquitin-like 2.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)		CAGCTGGAAGATGGCCGCACT	0.547													21	96	---	---	---	---	PASS	G	16285604	G	G	16285604	3	3	135	1	0	0	0	0	1	0	0	0	16838	333	12	5	385	5	UBB	17	16285604	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	5847148	16285604	64909606	283	48424										
TNFRSF13B	23495	broad.mit.edu	37	chr17	16843026	16843026	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	actgcgctctcctgcgtgggCgccctgcactcagggaagca	13	15	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:16843026C>T	uc002gqs.1	-	5	730	c.717G>A	c.(715-717)GCG>GCA	p.A239A	TNFRSF13B_uc010vwt.1_RNA|TNFRSF13B_uc002gqt.1_Silent_p.A193A	NM_012452	NP_036584	O14836	TR13B_HUMAN	tumor necrosis factor receptor 13B	239	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding|receptor activity			kidney(2)	2						CCTGCGTGGGCGCCCTGCACT	0.672									IgA_Deficiency_Selective				8	31	---	---	---	---	PASS	T	16843026	T	T	16843026	2	4	135	1	0	0	0	0	0	0	0	1	16284	755	27	1		1	TNFRSF13B	17	16843026	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	557422	16843026	64352184	284	48425										
UNC45B	146862	broad.mit.edu	37	chr17	33477133	33477133	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccaggcactggagcacctggGgaagctggaccaggccttca	14	13	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:33477133G>A	uc002hja.2	+	4	369	c.272G>A	c.(271-273)GGG>GAG	p.G91E	UNC45B_uc002hjb.2_Missense_Mutation_p.G91E|UNC45B_uc002hjc.2_Missense_Mutation_p.G91E|UNC45B_uc010cto.2_Missense_Mutation_p.G91E	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	91	TPR 3.				cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				GAGCACCTGGGGAAGCTGGAC	0.587													15	77	---	---	---	---	PASS	A	33477133	A	A	33477133	3	1	135	1	0	0	0	0	1	0	0	0	16986	1232	43	3	282	3	UNC45B	17	33477133	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	16634107	33477133	47718077	285	48426										
EFTUD2	9343	broad.mit.edu	37	chr17	42932010	42932010	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggaacgggcagccagcagatCccaatcgtacttggtctgga	13	11	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:42932010C>T	uc002ihn.2	-	22	2434	c.2173G>A	c.(2173-2175)GAT>AAT	p.D725N	EFTUD2_uc010wje.1_Missense_Mutation_p.D690N|EFTUD2_uc010wjf.1_Missense_Mutation_p.D715N	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	725						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				GCCAGCAGATCCCAATCGTAC	0.567													65	105	---	---	---	---	PASS	T	42932010	T	T	42932010	3	4	135	1	0	0	0	0	1	0	0	0	4961	855	30	2	773	2	EFTUD2	17	42932010	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	9454877	42932010	38263200	286	48427										
CRHR1	1394	broad.mit.edu	37	chr17	43906642	43906642	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctacctgggccactgtatctCcctggtggccctcctggtgg	12	15	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:43906642C>T	uc010dap.2	+	5	654	c.389C>T	c.(388-390)TCC>TTC	p.S130F	CRHR1_uc010wjx.1_5'UTR|CRHR1_uc002ijp.2_Missense_Mutation_p.S29F|CRHR1_uc002ijm.2_Missense_Mutation_p.S130F|CRHR1_uc002ijn.2_Missense_Mutation_p.S90F|CRHR1_uc010dar.2_Missense_Mutation_p.S130F|CRHR1_uc010dao.2_Missense_Mutation_p.S29F|CRHR1_uc010daq.2_5'UTR|CRHR1_uc010das.1_RNA|CRHR1_uc002ijo.1_RNA	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	130	Helical; Name=1; (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		CACTGTATCTCCCTGGTGGCC	0.582													26	42	---	---	---	---	PASS	T	43906642	T	T	43906642	3	4	135	1	0	0	0	0	1	0	0	0	3871	855	30	2	407	2	CRHR1	17	43906642	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	974632	43906642	37288568	287	48428										
KIAA1267	284058	broad.mit.edu	37	chr17	44116482	44116482	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtgggttgagcaagcgctctGcttttggcgctgtcactcgc	14	11	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:44116482G>A	uc002ikb.2	-	8	2388	c.2303C>T	c.(2302-2304)GCA>GTA	p.A768V	KIAA1267_uc002ikc.2_Missense_Mutation_p.A768V|KIAA1267_uc002ikd.2_Missense_Mutation_p.A768V|KIAA1267_uc010dav.2_Missense_Mutation_p.A768V|KIAA1267_uc010wkb.1_Missense_Mutation_p.A99V|KIAA1267_uc010wkc.1_Intron	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	768						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				CAAGCGCTCTGCTTTTGGCGC	0.587													38	168	---	---	---	---	PASS	A	44116482	A	A	44116482	3	1	135	1	0	0	0	0	1	0	0	0	8219	1319	46	3	1042	3	KIAA1267	17	44116482	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	209840	44116482	37078728	288	48429										
HOXB5	3215	broad.mit.edu	37	chr17	46670559	46670559	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggcgcggctgtggaggtggcCatgggctctggctgcgcccg	20	12	1	0	rs139139266	by1000genomes	TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:46670559C>T	uc002inr.2	-	1	545	c.486G>A	c.(484-486)ATG>ATA	p.M162I	HOXB3_uc010wlm.1_5'Flank|HOXB3_uc010dbf.2_5'Flank|HOXB3_uc010dbg.2_5'Flank	NM_002147	NP_002138	P09067	HXB5_HUMAN	homeobox B5	162						nucleus	sequence-specific DNA binding				0						TGGAGGTGGCCATGGGCTCTG	0.597													21	81	---	---	---	---	PASS	T	46670559	T	T	46670559	3	4	135	1	0	0	0	0	1	0	0	0	7304	594	21	3	331	3	HOXB5	17	46670559	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	2554077	46670559	34524651	289	48430										
IGF2BP1	10642	broad.mit.edu	37	chr17	47126782	47126782	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	catcagaagggacagagtaaCcaggcccaggcacggaggaa	14	10	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:47126782C>A	uc002iom.2	+	15	2044	c.1710C>A	c.(1708-1710)AAC>AAA	p.N570K	IGF2BP1_uc010dbj.2_Missense_Mutation_p.N431K	NM_006546	NP_006537	Q9NZI8	IF2B1_HUMAN	insulin-like growth factor 2 mRNA binding	570	Necessary for interaction with ELAVL4 and binding to TAU mRNA (By similarity).				CRD-mediated mRNA stabilization|negative regulation of translation|regulation of mRNA stability involved in response to stress	CRD-mediated mRNA stability complex|cytosol|dendritic spine|lamellipodium|nucleus|plasma membrane|stress granule	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			kidney(1)	1						GACAGAGTAACCAGGCCCAGG	0.597													4	43	---	---	---	---	PASS	A	47126782	A	A	47126782	3	1	135	1	0	0	0	0	1	0	0	0	7573	506	18	3	1768	3	IGF2BP1	17	47126782	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	456223	47126782	34068428	290	48431										
CACNG4	27092	broad.mit.edu	37	chr17	65026669	65026669	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggacgaagacaaaaagaaccAttacaactacggctggtctt	9	9	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:65026669A>G	uc002jft.1	+	4	548	c.533A>G	c.(532-534)CAT>CGT	p.H178R		NM_014405	NP_055220	Q9UBN1	CCG4_HUMAN	voltage-dependent calcium channel gamma-4	178	Extracellular (Potential).				membrane depolarization|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane	voltage-gated calcium channel activity			central_nervous_system(1)	1	all_cancers(12;9.86e-11)		BRCA - Breast invasive adenocarcinoma(6;1.35e-07)			AAAAAGAACCATTACAACTAC	0.458													53	123	---	---	---	---	PASS	G	65026669	G	G	65026669	3	3	135	1	0	0	0	0	1	0	0	0	2559	217	8	5	547	5	CACNG4	17	65026669	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	17899887	65026669	16168541	291	48432										
ABCA6	23460	broad.mit.edu	37	chr17	67081324	67081324	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctgcagcctttcagttccacCtaaaaaaataaaagagcttt	5	10	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:67081324C>G	uc002jhw.1	-	32	4205	c.4030_splice	c.e32-1	p.V1344_splice		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6						transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					TCAGTTCCACCTAAAAAAATA	0.448													6	24	---	---	---	---	PASS	G	67081324	G	G	67081324	5	3	135	1	0	0	0	0	0	0	1	0	36	695	24	4	856	4	ABCA6	17	67081324	Splice_Site	SNP	C	TCGA-60-2726-01A-01D-1522-08	2054655	67081324	14113886	292	48433										
TTYH2	94015	broad.mit.edu	37	chr17	72239531	72239531	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aggtggctctcctacctcctGctctttatcctggacctggt	9	14	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:72239531G>T	uc002jkc.2	+	5	685	c.654G>T	c.(652-654)CTG>CTT	p.L218L	TTYH2_uc010wqw.1_Silent_p.L197L	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	218	Helical; Name=3; (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						CCTACCTCCTGCTCTTTATCC	0.627													20	136	---	---	---	---	PASS	T	72239531	T	T	72239531	2	4	135	1	0	0	0	0	0	0	0	1	16737	1306	46	3		3	TTYH2	17	72239531	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	5158207	72239531	8955679	293	48434										
RPTOR	57521	broad.mit.edu	37	chr17	78866598	78866598	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tcgttctgtgagctcctatgGaaacatccgtgctgtcgcca	10	12	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:78866598G>A	uc002jyt.1	+	19	2976	c.2171G>A	c.(2170-2172)GGA>GAA	p.G724E	RPTOR_uc010wug.1_Missense_Mutation_p.G566E	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	724					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						AGCTCCTATGGAAACATCCGT	0.502													32	158	---	---	---	---	PASS	A	78866598	A	A	78866598	3	1	135	1	0	0	0	0	1	0	0	0	13665	1174	41	2	2245	2	RPTOR	17	78866598	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	6627067	78866598	2328612	294	48435										
NPLOC4	55666	broad.mit.edu	37	chr17	79534552	79534552	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	acaaataggtggccaagctaTggaagtcctagaggaatggg	14	6	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr17:79534552T>C	uc002kat.3	-	15	1639	c.1457A>G	c.(1456-1458)CAT>CGT	p.H486R	NPLOC4_uc002kau.3_Missense_Mutation_p.H486R|NPLOC4_uc010wur.1_Missense_Mutation_p.H325R|NPLOC4_uc010dic.2_5'Flank|NPLOC4_uc002kas.2_Missense_Mutation_p.I10V	NM_017921	NP_060391	Q8TAT6	NPL4_HUMAN	nuclear protein localization 4	486					cellular membrane fusion|ER-associated protein catabolic process|Golgi organization	cytosol|endoplasmic reticulum|nuclear outer membrane-endoplasmic reticulum membrane network|nucleus	zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GGCCAAGCTATGGAAGTCCTA	0.448													8	17	---	---	---	---	PASS	C	79534552	C	C	79534552	3	2	135	1	0	0	0	0	1	0	0	0	10586	1464	51	5	381	5	NPLOC4	17	79534552	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	667954	79534552	1660658	295	48436										
LPIN2	9663	broad.mit.edu	37	chr18	2921625	2921625	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	actcaattttgaacttctctGgtttcttttctatcacttct	3	10	6	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr18:2921625G>A	uc002klo.2	-	18	2587	c.2348C>T	c.(2347-2349)CCA>CTA	p.P783L		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	783	C-LIP.				fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		GAACTTCTCTGGTTTCTTTTC	0.383													45	96	---	---	---	---	PASS	A	2921625	A	A	2921625	3	1	135	1	0	0	0	0	1	0	0	0	8919	1348	47	3	354	3	LPIN2	18	2921625	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08		2921625	75155623	296	48437										
DSG4	147409	broad.mit.edu	37	chr18	28979337	28979337	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctcaattccaaatgcacccaAcccctgtgagaattcaagtt	5	13	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr18:28979337A>G	uc002kwq.2	+	9	1243	c.1108A>G	c.(1108-1110)ACC>GCC	p.T370A	DSG4_uc002kwr.2_Missense_Mutation_p.T370A	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	370	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			AATGCACCCAACCCCTGTGAG	0.418													46	314	---	---	---	---	PASS	G	28979337	G	G	28979337	3	3	135	1	0	0	0	0	1	0	0	0	4779	43	2	5	1142	5	DSG4	18	28979337	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	26057712	28979337	49097911	297	48438										
NOL4	8715	broad.mit.edu	37	chr18	31599452	31599452	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctgttcatcttgctccagccCagttttgccatcactgttgg	8	13	3	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr18:31599452C>A	uc010dmi.2	-	6	1115	c.886G>T	c.(886-888)GGG>TGG	p.G296W	NOL4_uc010xbs.1_Missense_Mutation_p.G11W|NOL4_uc002kxr.3_Missense_Mutation_p.G132W|NOL4_uc010xbt.1_Missense_Mutation_p.G222W|NOL4_uc010dmh.2_Missense_Mutation_p.G222W|NOL4_uc010xbu.1_Missense_Mutation_p.G296W|NOL4_uc002kxt.3_Missense_Mutation_p.G296W|NOL4_uc010xbv.1_Missense_Mutation_p.G45W|NOL4_uc010xbw.1_Missense_Mutation_p.G182W	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	296						nucleolus	RNA binding			ovary(3)	3						TGCTCCAGCCCAGTTTTGCCA	0.498													19	50	---	---	---	---	PASS	A	31599452	A	A	31599452	3	1	135	1	0	0	0	0	1	0	0	0	10524	594	21	3	1054	3	NOL4	18	31599452	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	2620115	31599452	46477796	298	48439										
TCEB3C	162699	broad.mit.edu	37	chr18	44554669	44554669	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tttcgggttttgtccgcgggCgccgcgtgccggttgctgct	16	12	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr18:44554669C>G	uc010xdb.1	-	1	1781	c.1545G>C	c.(1543-1545)GCG>GCC	p.A515A	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	515					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						TGTccgcgggcgccgcgtgcc	0.373													5	186	---	---	---	---	PASS	G	44554669	G	G	44554669	2	3	135	1	0	0	0	0	0	0	0	1	15680	755	27	4		4	TCEB3C	18	44554669	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	12955217	44554669	33522579	299	48440										
NARS	4677	broad.mit.edu	37	chr18	55270146	55270146	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggttcattaatggtgtctgtCatcagtctctcaggagcttc	10	9	6	0	rs145472082		TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr18:55270146C>T	uc002lgs.2	-	12	1509	c.1281G>A	c.(1279-1281)ATG>ATA	p.M427I	NARS_uc002lgt.2_Missense_Mutation_p.M426I|NARS_uc010xea.1_Missense_Mutation_p.M178I	NM_004539	NP_004530	O43776	SYNC_HUMAN	asparaginyl-tRNA synthetase	427					asparaginyl-tRNA aminoacylation	cytosol|soluble fraction	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding				0		Colorectal(73;0.227)			L-Asparagine(DB00174)	TGGTGTCTGTCATCAGTCTCT	0.453													30	81	---	---	---	---	PASS	T	55270146	T	T	55270146	3	4	135	1	0	0	0	0	1	0	0	0	10170	826	29	2	377	2	NARS	18	55270146	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	10715477	55270146	22807102	300	48441										
C19orf6	91304	broad.mit.edu	37	chr19	1014274	1014274	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	caggttgctgcctggttccaCggccaggcccgggaagctcc	14	15	0	0	rs145798599		TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr19:1014274C>A	uc002lqr.1	-	2	570	c.424G>T	c.(424-426)GTG>TTG	p.V142L	C19orf6_uc002lqq.1_5'Flank|C19orf6_uc002lqs.1_Missense_Mutation_p.V142L	NM_001033026	NP_001028198	Q4ZIN3	MBRL_HUMAN	membralin isoform 1	142						cytoplasm|integral to membrane				pancreas(2)|breast(1)	3		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.0252)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTGGTTCCACGGCCAGGCCC	0.642													23	35	---	---	---	---	PASS	A	1014274	A	A	1014274	3	1	135	1	0	0	0	0	1	0	0	0	1941	536	19	1	1478	1	C19orf6	19	1014274	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08		1014274	58114709	301	48442										
PKN1	5585	broad.mit.edu	37	chr19	14574647	14574647	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cccgtccccccagggaaggcGttccagcgtgctaggcagat	13	15	0	1	rs149310057	by1000genomes	TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr19:14574647G>A	uc002myp.2	+	11	1671	c.1503G>A	c.(1501-1503)GCG>GCA	p.A501A	PKN1_uc002myq.2_Silent_p.A507A	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	501					activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						CAGGGAAGGCGTTCCAGCGTG	0.667													19	50	---	---	---	---	PASS	A	14574647	A	A	14574647	2	1	135	1	0	0	0	0	0	0	0	1	11979	1132	40	1		1	PKN1	19	14574647	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	13560373	14574647	44554336	302	48443										
CYP4F8	11283	broad.mit.edu	37	chr19	15734154	15734154	+	Missense_Mutation	SNP	T	C	C													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	caaggccaagtccaagacttTggactttattgatgtgctcc							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr19:15734154T>C	uc002nbi.2	+	9	951	c.887T>C	c.(886-888)TTG>TCG	p.L296S	CYP4F8_uc010xoj.1_Missense_Mutation_p.L108S	NM_007253	NP_009184	P98187	CP4F8_HUMAN	cytochrome P450, family 4, subfamily F,	296					prostaglandin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	alkane 1-monooxygenase activity|aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			large_intestine(1)	1						TCCAAGACTTTGGACTTTATT	0.532													47	44	---	---	---	---	PASS	C	15734154	C	C	15734154	3	2	135	1	0	0	0	0	1	0	0	0	4191	1821	63	5	908	5	CYP4F8	19	15734154	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	1159507	15734154	43394829	303	48444	891	2								
CYP4F8	11283	broad.mit.edu	37	chr19	15734155	15734155	+	Missense_Mutation	SNP	G	T	T													0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	aaggccaagtccaagactttGgactttattgatgtgctcct							TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr19:15734155G>T	uc002nbi.2	+	9	952	c.888G>T	c.(886-888)TTG>TTT	p.L296F	CYP4F8_uc010xoj.1_Missense_Mutation_p.L108F	NM_007253	NP_009184	P98187	CP4F8_HUMAN	cytochrome P450, family 4, subfamily F,	296					prostaglandin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	alkane 1-monooxygenase activity|aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			large_intestine(1)	1						CCAAGACTTTGGACTTTATTG	0.532													48	43	---	---	---	---	PASS	T	15734155	T	T	15734155	3	4	135	1	0	0	0	0	1	0	0	0	4191	1339	47	3	909	3	CYP4F8	19	15734155	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	1	15734155	43394828	304	48445	891	2								
C19orf44	84167	broad.mit.edu	37	chr19	16611923	16611923	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggaaacccggatcatgaatcGgaagctgcagaggaatttgt	13	7	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr19:16611923G>A	uc002neh.1	+	2	393	c.320G>A	c.(319-321)CGG>CAG	p.R107Q	MED26_uc002nee.2_Intron|C19orf44_uc002nef.1_Missense_Mutation_p.R107Q|C19orf44_uc002neg.2_Missense_Mutation_p.R107Q|C19orf44_uc010eai.1_RNA	NM_032207	NP_115583	Q9H6X5	CS044_HUMAN	hypothetical protein LOC84167	107											0						ATCATGAATCGGAAGCTGCAG	0.572													4	171	---	---	---	---	PASS	A	16611923	A	A	16611923	3	1	135	1	0	0	0	0	1	0	0	0	1927	1116	39	1	322	1	C19orf44	19	16611923	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	877768	16611923	42517060	305	48446										
MYO9B	4650	broad.mit.edu	37	chr19	17298786	17298786	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agctggtcctgcagcagctgCgctacaccggcatgctggag	14	13	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr19:17298786C>T	uc010eak.2	+	19	2772	c.2620C>T	c.(2620-2622)CGC>TGC	p.R874C	MYO9B_uc002nfi.2_Missense_Mutation_p.R874C|MYO9B_uc002nfj.1_Missense_Mutation_p.R874C	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	874	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						GCAGCAGCTGCGCTACACCGG	0.582													12	6	---	---	---	---	PASS	T	17298786	T	T	17298786	3	4	135	1	0	0	0	0	1	0	0	0	10085	768	27	1	2690	1	MYO9B	19	17298786	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	686863	17298786	41830197	306	48447										
FAM125A	93343	broad.mit.edu	37	chr19	17534529	17534529	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggcctcctggagcggacagcGtcaaggctgggctctcgggc	17	13	2	0	rs144389449	byFrequency	TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr19:17534529G>A	uc002ngo.1	+	6	594	c.561G>A	c.(559-561)GCG>GCA	p.A187A	FAM125A_uc002ngp.1_Silent_p.A95A|FAM125A_uc002ngq.1_Silent_p.A83A	NM_138401	NP_612410	Q96EY5	F125A_HUMAN	family with sequence similarity 125, member A	187					protein transport	late endosome membrane|microtubule organizing center|nucleus	SH3 domain binding				0						AGCGGACAGCGTCAAGGCTGG	0.622													43	42	---	---	---	---	PASS	A	17534529	A	A	17534529	2	1	135	1	0	0	0	0	0	0	0	1	5427	1132	40	1		1	FAM125A	19	17534529	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	235743	17534529	41594454	307	48448										
LRFN3	79414	broad.mit.edu	37	chr19	36431636	36431636	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gcgtccaggtgactgagcacGgggccacagctgctcttgtc	14	13	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr19:36431636G>T	uc002oco.2	+	2	1761	c.1309G>T	c.(1309-1311)GGG>TGG	p.G437W		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	437	Extracellular (Potential).|Fibronectin type-III.				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GACTGAGCACGGGGCCACAGC	0.642													16	21	---	---	---	---	PASS	T	36431636	T	T	36431636	3	4	135	1	0	0	0	0	1	0	0	0	8939	1116	39	1	1311	1	LRFN3	19	36431636	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	18897107	36431636	22697347	308	48449										
DPRX	503834	broad.mit.edu	37	chr19	54137819	54137819	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	cattcacacaggaaacgaacCatgttcactaagaagcaact	6	11	2	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr19:54137819C>A	uc002qcf.1	+	2	114	c.63C>A	c.(61-63)ACC>ACA	p.T21T		NM_001012728	NP_001012746	A6NFQ7	DPRX_HUMAN	divergent-paired related homeobox	21	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.013)		GGAAACGAACCATGTTCACTA	0.433													45	157	---	---	---	---	PASS	A	54137819	A	A	54137819	2	1	135	1	0	0	0	0	0	0	0	1	4738	581	21	3		3	DPRX	19	54137819	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	17706183	54137819	4991164	309	48450										
NLRP12	91662	broad.mit.edu	37	chr19	54313978	54313978	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gccgtttctcctcccagcagAggcaccagggtccctgagga	12	15	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr19:54313978A>G	uc002qch.3	-	3	1155	c.935T>C	c.(934-936)CTC>CCC	p.L312P	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Missense_Mutation_p.L312P|NLRP12_uc002qcj.3_Missense_Mutation_p.L312P|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.L312P	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	312	NACHT.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		CTCCCAGCAGAGGCACCAGGG	0.572													38	49	---	---	---	---	PASS	G	54313978	G	G	54313978	3	3	135	1	0	0	0	0	1	0	0	0	10474	304	11	5	2378	5	NLRP12	19	54313978	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	176159	54313978	4815005	310	48451										
ZIM3	114026	broad.mit.edu	37	chr19	57646678	57646678	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	attggatttctgggaaaaggCcttctcacatatgctacatt	8	8	2	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr19:57646678C>A	uc002qnz.1	-	5	1413	c.1027G>T	c.(1027-1029)GCC>TCC	p.A343S		NM_052882	NP_443114	Q96PE6	ZIM3_HUMAN	zinc finger, imprinted 3	343	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.243)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGGGAAAAGGCCTTCTCACAT	0.403													51	283	---	---	---	---	PASS	A	57646678	A	A	57646678	3	1	135	1	0	0	0	0	1	0	0	0	17682	739	26	3	395	3	ZIM3	19	57646678	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	3332700	57646678	1482305	311	48452										
ZNF329	79673	broad.mit.edu	37	chr19	58639467	58639467	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctctggtgcttggtcagacaGgagctgtccctgaaggcttt	13	10	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr19:58639467G>T	uc002qrn.2	-	4	1641	c.1404C>A	c.(1402-1404)TCC>TCA	p.S468S	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	468	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		TGGTCAGACAGGAGCTGTCCC	0.498													4	159	---	---	---	---	PASS	T	58639467	T	T	58639467	2	4	135	1	0	0	0	0	0	0	0	1	17844	987	35	3		3	ZNF329	19	58639467	Silent	SNP	G	TCGA-60-2726-01A-01D-1522-08	992789	58639467	489516	312	48453										
KIF16B	55614	broad.mit.edu	37	chr20	16254017	16254017	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gatgtggaggggagatgttgCggactggagcatcacgctga	18	6	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr20:16254017C>G	uc002wpg.1	-	26	3993	c.3835G>C	c.(3835-3837)GCA>CCA	p.A1279P	KIF16B_uc002wpe.1_Missense_Mutation_p.A631P|KIF16B_uc002wpf.1_Missense_Mutation_p.A620P|KIF16B_uc010gch.1_Missense_Mutation_p.A1228P	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	1279	PX.				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			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						GGAGATGTTGCGGACTGGAGC	0.383													39	88	---	---	---	---	PASS	G	16254017	G	G	16254017	3	3	135	1	0	0	0	0	1	0	0	0	8278	768	27	4	122	4	KIF16B	20	16254017	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08		16254017	46771503	313	48454										
SLC32A1	140679	broad.mit.edu	37	chr20	37356472	37356472	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gtgctgctgccttgcgccttCcttaagaacctcaaggccgt	10	14	1	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr20:37356472C>T	uc002xjc.2	+	2	1031	c.768C>T	c.(766-768)TTC>TTT	p.F256F		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	256	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CTTGCGCCTTCCTTAAGAACC	0.582													12	55	---	---	---	---	PASS	T	37356472	T	T	37356472	2	4	135	1	0	0	0	0	0	0	0	1	14565	854	30	2		2	SLC32A1	20	37356472	Silent	SNP	C	TCGA-60-2726-01A-01D-1522-08	21102455	37356472	25669048	314	48455										
SLC32A1	140679	broad.mit.edu	37	chr20	37356623	37356623	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	acatcgacgtcaagaagttcCccatctccattggcatcatc	6	14	3	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr20:37356623C>A	uc002xjc.2	+	2	1182	c.919C>A	c.(919-921)CCC>ACC	p.P307T		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	307	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CAAGAAGTTCCCCATCTCCAT	0.542													20	92	---	---	---	---	PASS	A	37356623	A	A	37356623	3	1	135	1	0	0	0	0	1	0	0	0	14565	623	22	3	925	3	SLC32A1	20	37356623	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	151	37356623	25668897	315	48456										
WFDC8	90199	broad.mit.edu	37	chr20	44181840	44181840	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	atttgtctgtctggggacaaTcgatgtcactgtgacatgaa	11	7	3	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr20:44181840T>A	uc002xow.2	-	5	600	c.521A>T	c.(520-522)GAT>GTT	p.D174V	WFDC8_uc002xox.2_Missense_Mutation_p.D174V	NM_181510	NP_852611	Q8IUA0	WFDC8_HUMAN	WAP four-disulfide core domain 8 precursor	174	WAP 2.					extracellular region	serine-type endopeptidase inhibitor activity				0		Myeloproliferative disorder(115;0.0122)				CTGGGGACAATCGATGTCACT	0.468													56	142	---	---	---	---	PASS	A	44181840	A	A	44181840	3	1	135	1	0	0	0	0	1	0	0	0	17353	1435	50	5	212	5	WFDC8	20	44181840	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08	6825217	44181840	18843680	316	48457										
SLC12A5	57468	broad.mit.edu	37	chr20	44684805	44684805	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ctagatccagagtatcacagAtgagtcacgaggctcaatcc	9	11	3	4			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr20:44684805A>T	uc010zxl.1	+	22	2949	c.2873A>T	c.(2872-2874)GAT>GTT	p.D958V	SLC12A5_uc002xrb.2_Missense_Mutation_p.D935V	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	958	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	AGTATCACAGATGAGTCACGA	0.522													31	78	---	---	---	---	PASS	T	44684805	T	T	44684805	3	4	135	1	0	0	0	0	1	0	0	0	14386	333	12	5	3015	5	SLC12A5	20	44684805	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	502965	44684805	18340715	317	48458										
CASS4	57091	broad.mit.edu	37	chr20	55033756	55033756	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggcacctccaggcggaggctGagaagctggagcaacacacg	15	12	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr20:55033756G>A	uc002xxp.2	+	7	2539	c.2314G>A	c.(2314-2316)GAG>AAG	p.E772K	CASS4_uc002xxr.2_Missense_Mutation_p.E772K|CASS4_uc010zze.1_Missense_Mutation_p.E718K|CASS4_uc010gio.2_Missense_Mutation_p.E335K	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	772					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						GGCGGAGGCTGAGAAGCTGGA	0.622													9	37	---	---	---	---	PASS	A	55033756	A	A	55033756	3	1	135	1	0	0	0	0	1	0	0	0	2683	1291	45	2	2336	2	CASS4	20	55033756	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	10348951	55033756	7991764	318	48459										
PCMTD2	55251	broad.mit.edu	37	chr20	62899256	62899256	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	atagttgactaagataacacGcacaggtccttcagcttggg	10	9	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr20:62899256G>A	uc002yil.3	+	5	799	c.599G>A	c.(598-600)CGC>CAC	p.R200H	PCMTD2_uc002yim.3_Intron	NM_018257	NP_060727	Q9NV79	PCMD2_HUMAN	protein-L-isoaspartate (D-aspartate)	200						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					AAGATAACACGCACAGGTCCT	0.373													18	130	---	---	---	---	PASS	A	62899256	A	A	62899256	3	1	135	1	0	0	0	0	1	0	0	0	11587	1087	38	1	613	1	PCMTD2	20	62899256	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	7865500	62899256	126264	319	48460										
TPTE	7179	broad.mit.edu	37	chr21	10908867	10908867	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tgtgcaaccagaagtaaaatGagcaattgtcatagtatgta	9	5	1	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr21:10908867G>T	uc002yip.1	-	23	1846	c.1478C>A	c.(1477-1479)TCA>TAA	p.S493*	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Nonsense_Mutation_p.S475*|TPTE_uc002yir.1_Nonsense_Mutation_p.S455*|TPTE_uc010gkv.1_Nonsense_Mutation_p.S355*	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	493	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		GAAGTAAAATGAGCAATTGTC	0.289													9	104	---	---	---	---	PASS	T	10908867	T	T	10908867	4	4	135	1	0	0	0	0	0	1	0	0	16427	1294	45	2	185	2	TPTE	21	10908867	Nonsense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08		10908867	37221028	320	48461										
CYYR1	116159	broad.mit.edu	37	chr21	27852619	27852619	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gaggagacggtgttgatgtgAgtcgtcctgaggatgcccac	16	8	0	4			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr21:27852619A>T	uc002ymd.2	-	3	628	c.306T>A	c.(304-306)ACT>ACA	p.T102T	CYYR1_uc011ack.1_RNA|CYYR1_uc002yme.2_Silent_p.T102T	NM_052954	NP_443186	Q96J86	CYYR1_HUMAN	cysteine and tyrosine-rich 1 protein precursor	102	Cytoplasmic (Potential).					integral to membrane					0						TGTTGATGTGAGTCGTCCTGA	0.502													35	126	---	---	---	---	PASS	T	27852619	T	T	27852619	2	4	135	1	0	0	0	0	0	0	0	1	4211	291	11	5		5	CYYR1	21	27852619	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	16943752	27852619	20277276	321	48462										
IGSF5	150084	broad.mit.edu	37	chr21	41151188	41151188	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccgccgtcgttgttgtggctGcaactgctgctgccgttgtt	13	12	0	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr21:41151188G>T	uc002yyo.2	+	5	993	c.890G>T	c.(889-891)TGC>TTC	p.C297F		NM_001080444	NP_001073913	Q9NSI5	IGSF5_HUMAN	immunoglobulin superfamily 5 like	297	Cytoplasmic (Potential).|Cys-rich.					integral to membrane|tight junction					0		Prostate(19;5.35e-06)				tgttgtggctgcaactgctgc	0.274													3	6	---	---	---	---	PASS	T	41151188	T	T	41151188	3	4	135	1	0	0	0	0	1	0	0	0	7602	1319	46	3	908	3	IGSF5	21	41151188	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	13298569	41151188	6978707	322	48463										
SREBF2	6721	broad.mit.edu	37	chr22	42290907	42290907	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ccttggtgaaacctcaggccAagaagaaggctggagaccag	13	10	1	4			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chr22:42290907A>T	uc003bbi.2	+	13	2630	c.2461A>T	c.(2461-2463)AAG>TAG	p.K821*	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|SREBF2_uc003bbj.2_RNA	NM_004599	NP_004590	Q12772	SRBP2_HUMAN	sterol regulatory element-binding transcription	821	Cytoplasmic (Potential).				cholesterol metabolic process	ER to Golgi transport vesicle membrane|Golgi membrane|nucleus|SREBP-SCAP-Insig complex	protein C-terminus binding			breast(2)|ovary(1)|central_nervous_system(1)	4						ACCTCAGGCCAAGAAGAAGGC	0.582													31	125	---	---	---	---	PASS	T	42290907	T	T	42290907	4	4	135	1	0	0	0	0	0	1	0	0	15141	131	5	5	2511	5	SREBF2	22	42290907	Nonsense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08		42290907	9013659	323	48464										
CNKSR2	22866	broad.mit.edu	37	chrX	21519702	21519702	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gattcaagttaatcatcagaCtgtggtatgtataattaact	7	5	3	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chrX:21519702C>T	uc004czx.1	+	8	842	c.806C>T	c.(805-807)ACT>ATT	p.T269I	CNKSR2_uc004czw.2_Missense_Mutation_p.T269I|CNKSR2_uc011mjn.1_Missense_Mutation_p.T269I|CNKSR2_uc011mjo.1_Missense_Mutation_p.T269I	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	269	PDZ.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						AATCATCAGACTGTGGTATGT	0.328													11	27	---	---	---	---	PASS	T	21519702	T	T	21519702	3	4	135	1	0	0	0	0	1	0	0	0	3607	565	20	3	836	3	CNKSR2	23	21519702	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08		21519702	133750858	324	48465										
MAGEB4	4115	broad.mit.edu	37	chrX	30261248	30261248	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggcactacagccatgactagTgcgtattccagggccacatc	10	13	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chrX:30261248T>C	uc004dcb.2	+	1	1080	c.996T>C	c.(994-996)AGT>AGC	p.S332S	MAGEB1_uc004dcc.2_5'Flank|MAGEB1_uc004dcd.2_5'Flank	NM_002367	NP_002358	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	332										ovary(1)	1						CCATGACTAGTGCGTATTCCA	0.512													24	17	---	---	---	---	PASS	C	30261248	C	C	30261248	2	2	135	1	0	0	0	0	0	0	0	1	9178	1693	59	5		5	MAGEB4	23	30261248	Silent	SNP	T	TCGA-60-2726-01A-01D-1522-08	8741546	30261248	125009312	325	48466										
XK	7504	broad.mit.edu	37	chrX	37587107	37587107	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gggtggtggttataatactcAtcaacttcttcagtttcttc	8	8	5	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chrX:37587107A>T	uc004ddq.2	+	3	809	c.727A>T	c.(727-729)ATC>TTC	p.I243F		NM_021083	NP_066569	P51811	XK_HUMAN	membrane transport protein XK	243	Helical; (Potential).				amino acid transport	integral to membrane	protein binding|transporter activity				0		all_lung(315;0.175)				TATAATACTCATCAACTTCTT	0.502													45	23	---	---	---	---	PASS	T	37587107	T	T	37587107	3	4	135	1	0	0	0	0	1	0	0	0	17428	217	8	5	737	5	XK	23	37587107	Missense_Mutation	SNP	A	TCGA-60-2726-01A-01D-1522-08	7325859	37587107	117683453	326	48467										
UBQLN2	29978	broad.mit.edu	37	chrX	56591637	56591637	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gcagaatccagacacactatCagccatgtcaaacccaagag	7	13	2	3			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chrX:56591637C>T	uc004dus.2	+	1	1566	c.1331C>T	c.(1330-1332)TCA>TTA	p.S444L	UBQLN2_uc011moq.1_Missense_Mutation_p.S444L	NM_013444	NP_038472	Q9UHD9	UBQL2_HUMAN	ubiquilin 2	444						cytoplasm|nucleus|plasma membrane	binding			ovary(1)|skin(1)	2						GACACACTATCAGCCATGTCA	0.537													11	36	---	---	---	---	PASS	T	56591637	T	T	56591637	3	4	135	1	0	0	0	0	1	0	0	0	16894	838	29	2	1333	2	UBQLN2	23	56591637	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	19004530	56591637	98678923	327	48468										
HEPH	9843	broad.mit.edu	37	chrX	65486440	65486440	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	gagtggtttggtaccaacatCgacagagaaagctacgacgc	12	9	0	1	rs73217443	by1000genomes	TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chrX:65486440C>G	uc011moz.1	+	21	3472	c.3412C>G	c.(3412-3414)CGA>GGA	p.R1138G	HEPH_uc004dwn.2_Missense_Mutation_p.R1137G|HEPH_uc004dwo.2_Missense_Mutation_p.R868G|HEPH_uc010nkr.2_Missense_Mutation_p.R946G|HEPH_uc011mpa.1_Missense_Mutation_p.R1138G	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	1135	Cytoplasmic (Potential).				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						GTACCAACATCGACAGAGAAA	0.478													21	32	---	---	---	---	PASS	G	65486440	G	G	65486440	3	3	135	1	0	0	0	0	1	0	0	0	7054	876	31	2	3647	2	HEPH	23	65486440	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	8894803	65486440	89784120	328	48469										
DACH2	117154	broad.mit.edu	37	chrX	86069820	86069820	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agccaccactagtgacagtgGcctgaggatgttaaaaggta	12	8	0	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chrX:86069820G>T	uc004eew.2	+	10	1837	c.1667G>T	c.(1666-1668)GGC>GTC	p.G556V	DACH2_uc004eex.2_Missense_Mutation_p.G543V|DACH2_uc010nmq.2_Missense_Mutation_p.G422V|DACH2_uc011mra.1_Missense_Mutation_p.G389V|DACH2_uc010nmr.2_Missense_Mutation_p.G337V|DACH2_uc004eey.2_Missense_Mutation_p.G249V|DACH2_uc004eez.2_Missense_Mutation_p.G239V	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	556					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						AGTGACAGTGGCCTGAGGATG	0.363													4	28	---	---	---	---	PASS	T	86069820	T	T	86069820	3	4	135	1	0	0	0	0	1	0	0	0	4221	1203	42	3	1705	3	DACH2	23	86069820	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	20583380	86069820	69200740	329	48470										
NXF5	55998	broad.mit.edu	37	chrX	101096717	101096717	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggcagcactagcaacctggaCaaagaagcatgcccgatttc	10	12	0	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chrX:101096717C>A	uc011mrk.1	-	5	529	c.169G>T	c.(169-171)GTC>TTC	p.V57F	NXF5_uc004eih.1_RNA|NXF5_uc004eii.1_RNA|NXF5_uc004eij.1_RNA|NXF5_uc004eik.1_Intron|NXF5_uc004eil.1_Intron	NM_032946	NP_116564	Q9H1B4	NXF5_HUMAN	nuclear RNA export factor 5	57	RRM.				mRNA export from nucleus|multicellular organismal development	actin cytoskeleton|cytoplasm|nucleus	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						GCAACCTGGACAAAGAAGCAT	0.498													4	134	---	---	---	---	PASS	A	101096717	A	A	101096717	3	1	135	1	0	0	0	0	1	0	0	0	10786	478	17	3	976	3	NXF5	23	101096717	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	15026897	101096717	54173843	330	48471										
CAPN6	827	broad.mit.edu	37	chrX	110491210	110491210	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ggacattttgggcatgtccaGagtcagttccctagaacatc	10	10	1	2	rs12851568		TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chrX:110491210G>T	uc004epc.1	-	11	1663	c.1495C>A	c.(1495-1497)CTG>ATG	p.L499M	CAPN6_uc011msu.1_Missense_Mutation_p.L244M	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	499					microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						GGCATGTCCAGAGTCAGTTCC	0.428													68	111	---	---	---	---	PASS	T	110491210	T	T	110491210	3	4	135	1	0	0	0	0	1	0	0	0	2630	933	33	2	442	2	CAPN6	23	110491210	Missense_Mutation	SNP	G	TCGA-60-2726-01A-01D-1522-08	9394493	110491210	44779350	331	48472										
THOC2	57187	broad.mit.edu	37	chrX	122757941	122757941	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ttgtaatgccatttatgtacAacatgtcgaaaattttcata	5	6	1	0			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chrX:122757941A>C	uc004etu.2	-	27	3320	c.3288T>G	c.(3286-3288)GTT>GTG	p.V1096V	THOC2_uc010nqt.1_5'Flank|THOC2_uc004etw.1_5'Flank	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1096					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						ATTTATGTACAACATGTCGAA	0.318													24	45	---	---	---	---	PASS	C	122757941	C	C	122757941	2	2	135	1	0	0	0	0	0	0	0	1	15862	117	5	5		5	THOC2	23	122757941	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	12266731	122757941	32512619	332	48473										
OCRL	4952	broad.mit.edu	37	chrX	128722987	128722987	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	tatgatccccggatctgccgAcaggtgggttctactgacct	11	12	2	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chrX:128722987A>G	uc004euq.2	+	22	2631	c.2466A>G	c.(2464-2466)CGA>CGG	p.R822R	OCRL_uc004eur.2_Silent_p.R814R|OCRL_uc010nrb.2_RNA	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	822	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						GGATCTGCCGACAGGTGGGTT	0.522													31	40	---	---	---	---	PASS	G	128722987	G	G	128722987	2	3	135	1	0	0	0	0	0	0	0	1	10823	262	10	5		5	OCRL	23	128722987	Silent	SNP	A	TCGA-60-2726-01A-01D-1522-08	5965046	128722987	26547573	333	48474										
MAGEC3	139081	broad.mit.edu	37	chrX	140953296	140953296	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	ataaggactattctgcctttCatcttgggcatctgagggag	11	8	4	1			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chrX:140953296C>T	uc011mwp.1	+	2	163	c.163C>T	c.(163-165)CAT>TAT	p.H55Y		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	55										skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TTCTGCCTTTCATCTTGGGCA	0.512													31	37	---	---	---	---	PASS	T	140953296	T	T	140953296	3	4	135	1	0	0	0	0	1	0	0	0	9182	826	29	2	169	2	MAGEC3	23	140953296	Missense_Mutation	SNP	C	TCGA-60-2726-01A-01D-1522-08	12230309	140953296	14317264	334	48475										
TSPY2	64591	broad.mit.edu	37	chrY	6115633	6115633	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.122324159021407	40	1.05431469190111e-05	2.10080993945113	3.43768899182912	1.66829024603472	0.149841432488483	0.491146917601139	21	agaagcatcgtgttcatctcTgcaagatcatgttgttcttt	8	8	4	2			TCGA-60-2726-01A-01D-1522-08	TCGA-60-2726-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	a96eddfc-3afb-4bf8-a440-c91778113fbd	f318c548-d5f1-41a6-80f3-db1a98ad8530	g.chrY:6115633T>C	uc004fqr.1	+	3	641	c.595T>C	c.(595-597)TGC>CGC	p.C199R	TSPY2_uc004fqs.1_Missense_Mutation_p.C199R	NM_022573	NP_072095	A6NKD2	TSPY2_HUMAN	testis specific protein, Y-linked 2	199					cell differentiation|gonadal mesoderm development|nucleosome assembly|spermatogenesis	cytoplasm|nucleus					0						TGTTCATCTCTGCAAGATCAT	0.468													77	382	---	---	---	---	PASS	C	6115633	C	C	6115633	3	2	135	1	0	0	0	0	1	0	0	0	16655	1580	55	5	605	5	TSPY2	24	6115633	Missense_Mutation	SNP	T	TCGA-60-2726-01A-01D-1522-08		6115633	53257933	335	48476										
DFFB	1677	broad.mit.edu	37	chr1	3800204	3800204	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	taaaactagtgcacattgtcTgccataagaaaaccacccac	5	12	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:3800204T>A	uc001alc.2	+	7	1239	c.916T>A	c.(916-918)TGC>AGC	p.C306S	DFFB_uc001ale.2_RNA|DFFB_uc009vlp.2_RNA|DFFB_uc001alb.2_RNA|DFFB_uc010nzn.1_Missense_Mutation_p.C330S|DFFB_uc009vlq.2_RNA|DFFB_uc009vlr.2_Missense_Mutation_p.C257S|DFFB_uc001ald.2_Missense_Mutation_p.C242S	NM_004402	NP_004393	O76075	DFFB_HUMAN	DNA fragmentation factor, 40 kD, beta	306					apoptotic chromosome condensation|DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction	cytosol|nucleoplasm	deoxyribonuclease activity|enzyme binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;2.05e-30)|all_epithelial(116;6.22e-21)|all_lung(118;2.65e-08)|Lung NSC(185;6.25e-06)|Breast(487;0.000659)|Renal(390;0.00121)|all_neural(13;0.0019)|Hepatocellular(190;0.00705)|Colorectal(325;0.0113)|all_hematologic(16;0.0194)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0548)|Medulloblastoma(700;0.211)		Epithelial(90;1.18e-39)|OV - Ovarian serous cystadenocarcinoma(86;7.28e-23)|GBM - Glioblastoma multiforme(42;2.95e-17)|Colorectal(212;1.23e-05)|COAD - Colon adenocarcinoma(227;5.94e-05)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00038)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		GCACATTGTCTGCCATAAGAA	0.473													103	34	---	---	---	---	PASS	A	3800204	A	A	3800204	3	1	136	1	0	0	0	0	1	0	0	0	4453	1580	55	5	942	5	DFFB	1	3800204	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08		3800204	245450417	1	48477										
C1orf187	374946	broad.mit.edu	37	chr1	11766322	11766322	+	Frame_Shift_Del	DEL	G	-	-													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcagggaggagccaatggctGggcctgccatccacaccgct							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:11766322delG	uc001asr.1	+	2	147	c.7delG	c.(7-9)GGGfs	p.G3fs		NM_198545	NP_940947	Q8NBI3	DRAXI_HUMAN	chromosome 1 open reading frame 187 precursor	3					axon guidance|commissural neuron differentiation in spinal cord|dorsal spinal cord development|forebrain development|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region					0	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.48e-06)|COAD - Colon adenocarcinoma(227;0.000283)|BRCA - Breast invasive adenocarcinoma(304;0.000316)|Kidney(185;0.000841)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|STAD - Stomach adenocarcinoma(313;0.00754)|READ - Rectum adenocarcinoma(331;0.0651)		GCCAATGGCTGGGCCTGCCAT	0.607													15	7	---	---	---	---		-	11766322	-	-	11766322	7	5	136	1	0	1	0	1	0	0	0	0	2021	1348	47	0	9	0	C1orf187	1	11766322	Frame_Shift_Del	DEL	G	TCGA-63-5128-01A-01D-1441-08	7966118	11766322	237484299	2	48478										
ARID1A	8289	broad.mit.edu	37	chr1	27100389	27100389	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atgtatcaacagcaacagcaGgtgaggagggtagctgggaa	15	6	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:27100389G>A	uc001bmv.1	+	17	4474	c.4101G>A	c.(4099-4101)CAG>CAA	p.Q1367Q	ARID1A_uc001bmt.1_Silent_p.Q1366Q|ARID1A_uc001bmu.1_Silent_p.Q1367Q|ARID1A_uc001bmw.1_Silent_p.Q984Q|ARID1A_uc001bmx.1_Silent_p.Q213Q|ARID1A_uc009vsm.1_5'UTR|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1367	Gln-rich.				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)		AGCAACAGCAGGTGAGGAGGG	0.483			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								98	39	---	---	---	---	PASS	A	27100389	A	A	27100389	2	1	136	1	0	0	0	0	0	0	0	1	913	1014	35	3		3	ARID1A	1	27100389	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	15334067	27100389	222150232	3	48479										
PTPRF	5792	broad.mit.edu	37	chr1	44070953	44070953	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aacacagagtactcgtttgtGctgatgaaccgtggcagcag	12	9	0	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:44070953G>T	uc001cjr.2	+	18	3568	c.3228G>T	c.(3226-3228)GTG>GTT	p.V1076V	PTPRF_uc001cjs.2_Silent_p.V1067V|PTPRF_uc001cju.2_Silent_p.V454V|PTPRF_uc009vwt.2_Silent_p.V636V|PTPRF_uc001cjv.2_Silent_p.V536V|PTPRF_uc001cjw.2_Silent_p.V302V	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1076	Extracellular (Potential).|Fibronectin type-III 8.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ACTCGTTTGTGCTGATGAACC	0.632													57	19	---	---	---	---	PASS	T	44070953	T	T	44070953	2	4	136	1	0	0	0	0	0	0	0	1	12801	1306	46	3		3	PTPRF	1	44070953	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	16970564	44070953	205179668	4	48480										
IL12RB2	3595	broad.mit.edu	37	chr1	67816672	67816672	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cacacctcctggaccacagtCattcctagaaccggaaattg	7	14	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:67816672C>T	uc001ddu.2	+	9	1798	c.1158C>T	c.(1156-1158)GTC>GTT	p.V386V	IL12RB2_uc010oqi.1_Silent_p.V386V|IL12RB2_uc010oqj.1_Silent_p.V386V|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Silent_p.V386V|IL12RB2_uc010oqm.1_Silent_p.V386V|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	386	Fibronectin type-III 3.|Extracellular (Potential).				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						GGACCACAGTCATTCCTAGAA	0.493													86	24	---	---	---	---	PASS	T	67816672	T	T	67816672	2	4	136	1	0	0	0	0	0	0	0	1	7627	813	29	2		2	IL12RB2	1	67816672	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	23745719	67816672	181433949	5	48481										
C1orf173	127254	broad.mit.edu	37	chr1	75038477	75038477	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttcctctcccccaagaattgCctcttcagaaccgtcctctc	4	18	4	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:75038477C>A	uc001dgg.2	-	14	3136	c.2917G>T	c.(2917-2919)GCA>TCA	p.A973S		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	973	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CCAAGAATTGCCTCTTCAGAA	0.517													48	18	---	---	---	---	PASS	A	75038477	A	A	75038477	3	1	136	1	0	0	0	0	1	0	0	0	2014	739	26	3	1679	3	C1orf173	1	75038477	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	7221805	75038477	174212144	6	48482										
CDC7	8317	broad.mit.edu	37	chr1	91979565	91979565	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gagaaagaaatttcaatataCacagctccatttcacatgag	6	8	2	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:91979565C>T	uc001doe.2	+	8	1048	c.883C>T	c.(883-885)CAC>TAC	p.H295Y	CDC7_uc001dof.2_Missense_Mutation_p.H295Y|CDC7_uc010osw.1_Missense_Mutation_p.H267Y|CDC7_uc009wdc.2_Missense_Mutation_p.H295Y|CDC7_uc009wdd.2_5'Flank	NM_003503	NP_003494	O00311	CDC7_HUMAN	cell division cycle 7	295	Protein kinase.				cell cycle checkpoint|cell division|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|positive regulation of cell proliferation|regulation of S phase	cytoplasm|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	5		all_lung(203;0.0165)|Lung NSC(277;0.0562)		all cancers(265;0.00108)|Epithelial(280;0.0184)|KIRC - Kidney renal clear cell carcinoma(1967;0.124)		TTTCAATATACACAGCTCCAT	0.373													36	18	---	---	---	---	PASS	T	91979565	T	T	91979565	3	4	136	1	0	0	0	0	1	0	0	0	3084	478	17	3	909	3	CDC7	1	91979565	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	16941088	91979565	157271056	7	48483										
S1PR1	1901	broad.mit.edu	37	chr1	101704795	101704795	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cccatgtactattttattggCaatctggccctctcagacct	6	13	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:101704795C>A	uc001dud.2	+	2	769	c.255C>A	c.(253-255)GGC>GGA	p.G85G	S1PR1_uc009weg.2_Silent_p.G85G	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	85	Helical; Name=2; (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						ATTTTATTGGCAATCTGGCCC	0.493											OREG0013620	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	50	27	---	---	---	---	PASS	A	101704795	A	A	101704795	2	1	136	1	0	0	0	0	0	0	0	1	13793	697	25	3		3	S1PR1	1	101704795	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	9725230	101704795	147545826	8	48484										
HSD3B2	3284	broad.mit.edu	37	chr1	119964499	119964499	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttcatctacaccagtagcatAgaggtagccgggcccaactc	9	13	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:119964499A>G	uc001ehs.2	+	3	1148	c.375A>G	c.(373-375)ATA>ATG	p.I125M	HSD3B2_uc001eht.2_Missense_Mutation_p.I125M|HSD3B2_uc001ehu.2_Intron	NM_000198	NP_000189	P26439	3BHS2_HUMAN	3 beta-hydroxysteroid dehydrogenase 2	125					androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)	CCAGTAGCATAGAGGTAGCCG	0.537													101	29	---	---	---	---	PASS	G	119964499	G	G	119964499	3	3	136	1	0	0	0	0	1	0	0	0	7391	410	15	5	385	5	HSD3B2	1	119964499	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	18259704	119964499	129286122	9	48485										
TDRKH	11022	broad.mit.edu	37	chr1	151751235	151751235	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	catcactaggtttctcccagGaaccttcctttgacactacc	5	15	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:151751235G>A	uc009wnb.1	-	6	991	c.809C>T	c.(808-810)TCC>TTC	p.S270F	TDRKH_uc001eyy.2_Missense_Mutation_p.S46F|TDRKH_uc001ezb.3_Missense_Mutation_p.S266F|TDRKH_uc001ezc.3_Missense_Mutation_p.S225F|TDRKH_uc001eza.3_Missense_Mutation_p.S270F|TDRKH_uc001ezd.3_Missense_Mutation_p.S270F|TDRKH_uc010pdn.1_Missense_Mutation_p.S46F	NM_006862	NP_006853	Q9Y2W6	TDRKH_HUMAN	tudor and KH domain containing isoform a	270							RNA binding			ovary(1)|pancreas(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			TTTCTCCCAGGAACCTTCCTT	0.517													39	68	---	---	---	---	PASS	A	151751235	A	A	151751235	3	1	136	1	0	0	0	0	1	0	0	0	15734	1174	41	2	908	2	TDRKH	1	151751235	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	31786736	151751235	97499386	10	48486										
ARHGEF2	9181	broad.mit.edu	37	chr1	155931629	155931629	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctccagctgataaataccctCgtccacattggacagcagct	7	14	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:155931629C>A	uc001fmt.2	-	11	1409	c.1291G>T	c.(1291-1293)GAG>TAG	p.E431*	ARHGEF2_uc001fmr.2_Nonsense_Mutation_p.E403*|ARHGEF2_uc001fms.2_Nonsense_Mutation_p.E430*|ARHGEF2_uc001fmu.2_Nonsense_Mutation_p.E475*|ARHGEF2_uc010pgt.1_Nonsense_Mutation_p.E404*|ARHGEF2_uc010pgu.1_Nonsense_Mutation_p.E476*	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	431	DH.				actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					TAAATACCCTCGTCCACATTG	0.632													4	162	---	---	---	---	PASS	A	155931629	A	A	155931629	4	1	136	1	0	0	0	0	0	1	0	0	903	893	31	2	1717	2	ARHGEF2	1	155931629	Nonsense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	4180394	155931629	93318992	11	48487										
SPTA1	6708	broad.mit.edu	37	chr1	158631100	158631100	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cctctaccattttgtttcccCtttctgttatctcttgaatg	4	12	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:158631100C>T	uc001fst.1	-	18	2763	c.2564G>A	c.(2563-2565)AGG>AAG	p.R855K		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	855	Spectrin 9.				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)					TTTGTTTCCCCTTTCTGTTAT	0.418													113	197	---	---	---	---	PASS	T	158631100	T	T	158631100	3	4	136	1	0	0	0	0	1	0	0	0	15115	681	24	3	4835	3	SPTA1	1	158631100	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	2699471	158631100	90619521	12	48488										
AIM2	9447	broad.mit.edu	37	chr1	159043275	159043275	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gttagcaagagtatctccttGtatttactctccatctgaca	6	10	3	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:159043275G>T	uc001ftj.1	-	2	260	c.15C>A	c.(13-15)TAC>TAA	p.Y5*		NM_004833	NP_004824	O14862	AIM2_HUMAN	absent in melanoma 2	5	DAPIN.				cellular response to drug|immune response|interleukin-1 beta secretion	mitochondrion|nucleus				ovary(2)|pancreas(1)	3	all_hematologic(112;0.0429)					GTATCTCCTTGTATTTACTCT	0.378													99	155	---	---	---	---	PASS	T	159043275	T	T	159043275	4	4	136	1	0	0	0	0	0	1	0	0	432	1372	48	3	1036	3	AIM2	1	159043275	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	412175	159043275	90207346	13	48489										
COPA	1314	broad.mit.edu	37	chr1	160261286	160261286	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtgggtgaaataggctgccaTctggtggacagaaaaaggaa	15	5	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:160261286T>C	uc009wti.2	-	31	3653	c.3259A>G	c.(3259-3261)ATG>GTG	p.M1087V	COPA_uc001fvv.3_Missense_Mutation_p.M1096V	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	1087					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TAGGCTGCCATCTGGTGGACA	0.458											OREG0013929	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	44	---	---	---	---	PASS	C	160261286	C	C	160261286	3	2	136	1	0	0	0	0	1	0	0	0	3727	1449	50	5	427	5	COPA	1	160261286	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	1218011	160261286	88989335	14	48490										
DPT	1805	broad.mit.edu	37	chr1	168698149	168698149	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atctcctcccaccagcactcCgtgggttccccgaggctctg	9	18	2	0	rs79594970	byFrequency	TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:168698149C>G	uc001gfp.2	-	1	280	c.264G>C	c.(262-264)ACG>ACC	p.T88T		NM_001937	NP_001928	Q07507	DERM_HUMAN	dermatopontin precursor	88	2 X 53-55 AA tandem repeats.|1-2.|3 X 6 AA repeats of D-R-[EQ]-W-[NQK]- [FY].				cell adhesion	extracellular space|proteinaceous extracellular matrix				ovary(1)	1	all_hematologic(923;0.208)					ACCAGCACTCCGTGGGTTCCC	0.587													47	113	---	---	---	---	PASS	G	168698149	G	G	168698149	2	3	136	1	0	0	0	0	0	0	0	1	4739	639	23	4		4	DPT	1	168698149	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	8436863	168698149	80552472	15	48491										
BAT2L2	23215	broad.mit.edu	37	chr1	171509342	171509342	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tatccgctcctcaagaggagCggatttcagctgtagaaagt	11	9	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:171509342C>T	uc010pmg.1	+	16	2997	c.2731C>T	c.(2731-2733)CGG>TGG	p.R911W	BAT2L2_uc010pmh.1_5'UTR	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	911							protein C-terminus binding				0						TCAAGAGGAGCGGATTTCAGC	0.453													33	54	---	---	---	---	PASS	T	171509342	T	T	171509342	3	4	136	1	0	0	0	0	1	0	0	0	1321	759	27	1	2789	1	BAT2L2	1	171509342	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	2811193	171509342	77741279	16	48492										
KCNT2	343450	broad.mit.edu	37	chr1	196205139	196205139	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	acatcattcagctctattctGgtatctggagatgggttaat	9	7	5	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:196205139G>A	uc001gtd.1	-	27	3333	c.3273C>T	c.(3271-3273)ACC>ACT	p.T1091T	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Silent_p.T1024T|KCNT2_uc001gtf.1_Silent_p.T1067T|KCNT2_uc001gtg.1_RNA	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	1091	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						GCTCTATTCTGGTATCTGGAG	0.313													180	293	---	---	---	---	PASS	A	196205139	A	A	196205139	2	1	136	1	0	0	0	0	0	0	0	1	8092	1335	47	3		3	KCNT2	1	196205139	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	24695797	196205139	53045482	17	48493										
CFHR5	81494	broad.mit.edu	37	chr1	196953257	196953257	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tggtccactcctcccatatgCagcttcactagtaagcaaaa	6	13	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:196953257C>T	uc001gts.3	+	3	548	c.420C>T	c.(418-420)TGC>TGT	p.C140C		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	140	Sushi 2.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						CTCCCATATGCAGCTTCACTA	0.308													52	101	---	---	---	---	PASS	T	196953257	T	T	196953257	2	4	136	1	0	0	0	0	0	0	0	1	3288	718	25	3		3	CFHR5	1	196953257	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	748118	196953257	52297364	18	48494										
IGFN1	91156	broad.mit.edu	37	chr1	201187690	201187690	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cggtggcggacgtgcggcagGgctgtcagtatgagttccgg	19	9	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:201187690G>A	uc001gwc.2	+	7	2054	c.1282G>A	c.(1282-1284)GGC>AGC	p.G428S	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						CGTGCGGCAGGGCTGTCAGTA	0.627													19	25	---	---	---	---	PASS	A	201187690	A	A	201187690	3	1	136	1	0	0	0	0	1	0	0	0	7590	1232	43	3	9868	3	IGFN1	1	201187690	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	4234433	201187690	48062931	19	48495										
RPS6KC1	26750	broad.mit.edu	37	chr1	213415226	213415226	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atcctaagtttcaaggacttGgagtggttgagtcagcagta	12	6	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:213415226G>C	uc010ptr.1	+	11	2566	c.2407G>C	c.(2407-2409)GGA>CGA	p.G803R	RPS6KC1_uc001hkd.2_Missense_Mutation_p.G791R|RPS6KC1_uc010pts.1_Missense_Mutation_p.G591R|RPS6KC1_uc010ptt.1_Missense_Mutation_p.G591R|RPS6KC1_uc010ptu.1_Missense_Mutation_p.G622R|RPS6KC1_uc010ptv.1_Missense_Mutation_p.G338R|RPS6KC1_uc001hke.2_Missense_Mutation_p.G622R	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	803	ATP (By similarity).|Protein kinase 2.				cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		TCAAGGACTTGGAGTGGTTGA	0.418													75	123	---	---	---	---	PASS	C	213415226	C	C	213415226	3	2	136	1	0	0	0	0	1	0	0	0	13658	1349	47	4	2449	4	RPS6KC1	1	213415226	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	12227536	213415226	35835395	20	48496										
CENPF	1063	broad.mit.edu	37	chr1	214830428	214830428	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agttagagaaagctaaagagAtgttagagacacaagtggcc	12	5	0	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:214830428A>G	uc001hkm.2	+	18	8812	c.8638A>G	c.(8638-8640)ATG>GTG	p.M2880V		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2976	Potential.|Sufficient for nuclear localization.|Sufficient for centromere localization.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		AGCTAAAGAGATGTTAGAGAC	0.418													90	138	---	---	---	---	PASS	G	214830428	G	G	214830428	3	3	136	1	0	0	0	0	1	0	0	0	3231	333	12	5	8704	5	CENPF	1	214830428	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	1415202	214830428	34420193	21	48497										
USH2A	7399	broad.mit.edu	37	chr1	215824074	215824074	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gggggctctgagaccttctgGtggggctggcccggttctgc	18	11	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:215824074G>T	uc001hku.1	-	65	14590	c.14203C>A	c.(14203-14205)CCA>ACA	p.P4735T		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4735	Fibronectin type-III 33.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AGACCTTCTGGTGGGGCTGGC	0.547										HNSCC(13;0.011)			127	206	---	---	---	---	PASS	T	215824074	T	T	215824074	3	4	136	1	0	0	0	0	1	0	0	0	17033	1261	44	3	1437	3	USH2A	1	215824074	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	993646	215824074	33426547	22	48498										
C1orf55	163859	broad.mit.edu	37	chr1	226176080	226176080	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tctgcagtctctagtccctcCatgcccaacctgtcagaagc	7	16	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:226176080C>G	uc001hpu.3	-	6	704	c.651G>C	c.(649-651)ATG>ATC	p.M217I	C1orf55_uc001hpv.2_Missense_Mutation_p.M217I	NM_152608	NP_689821	Q6IQ49	CA055_HUMAN	hypothetical protein LOC163859	217										lung(1)	1	Breast(184;0.197)					CTAGTCCCTCCATGCCCAACC	0.378													30	48	---	---	---	---	PASS	G	226176080	G	G	226176080	3	3	136	1	0	0	0	0	1	0	0	0	2047	594	21	4	712	4	C1orf55	1	226176080	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	10352006	226176080	23074541	23	48499										
ACTN2	88	broad.mit.edu	37	chr1	236902788	236902788	+	Missense_Mutation	SNP	A	T	T													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgcagaccaagctgcggatcAgcaaccgtcctgccttcatg							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:236902788A>T	uc001hyf.2	+	10	1267	c.1063A>T	c.(1063-1065)AGC>TGC	p.S355C	ACTN2_uc001hyg.2_Missense_Mutation_p.S147C|ACTN2_uc009xgi.1_Missense_Mutation_p.S355C|ACTN2_uc010pxu.1_Intron|ACTN2_uc001hyh.2_Missense_Mutation_p.S43C	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	355	Spectrin 1.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GCTGCGGATCAGCAACCGTCC	0.607													24	48	---	---	---	---	PASS	T	236902788	T	T	236902788	3	4	136	1	0	0	0	0	1	0	0	0	205	188	7	5	1101	5	ACTN2	1	236902788	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	10726708	236902788	12347833	24	48500	892	2								
ACTN2	88	broad.mit.edu	37	chr1	236902789	236902789	+	Missense_Mutation	SNP	G	T	T													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcagaccaagctgcggatcaGcaaccgtcctgccttcatgc							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:236902789G>T	uc001hyf.2	+	10	1268	c.1064G>T	c.(1063-1065)AGC>ATC	p.S355I	ACTN2_uc001hyg.2_Missense_Mutation_p.S147I|ACTN2_uc009xgi.1_Missense_Mutation_p.S355I|ACTN2_uc010pxu.1_Intron|ACTN2_uc001hyh.2_Missense_Mutation_p.S43I	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	355	Spectrin 1.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			CTGCGGATCAGCAACCGTCCT	0.602													24	46	---	---	---	---	PASS	T	236902789	T	T	236902789	3	4	136	1	0	0	0	0	1	0	0	0	205	971	34	3	1102	3	ACTN2	1	236902789	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1	236902789	12347832	25	48501	892	2								
RYR2	6262	broad.mit.edu	37	chr1	237995872	237995872	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gaatcttatgtctggaagatGtatcaagaaaggtgttggga	13	3	3	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:237995872G>T	uc001hyl.1	+	105	14949	c.14829G>T	c.(14827-14829)ATG>ATT	p.M4943I	RYR2_uc010pyb.1_3'UTR	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4943					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)			TCTGGAAGATGTATCAAGAAA	0.378													23	40	---	---	---	---	PASS	T	237995872	T	T	237995872	3	4	136	1	0	0	0	0	1	0	0	0	13769	1377	48	3	15247	3	RYR2	1	237995872	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1093083	237995872	11254749	26	48502										
OR2G2	81470	broad.mit.edu	37	chr1	247752419	247752419	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ccacctgacagtggtcaccaTcttttatggaaccatcatct	6	13	4	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:247752419T>A	uc010pyy.1	+	1	758	c.758T>A	c.(757-759)ATC>AAC	p.I253N		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			gtggtcaccatcttttatgga	0.408													58	83	---	---	---	---	PASS	A	247752419	A	A	247752419	3	1	136	1	0	0	0	0	1	0	0	0	10998	1435	50	5	760	5	OR2G2	1	247752419	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	9756547	247752419	1498202	27	48503										
OR2L13	284521	broad.mit.edu	37	chr1	248262842	248262842	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cacgtggatcctcgtctccaCacaccgatgtactttcttct	6	15	3	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:248262842C>A	uc001ids.2	+	3	502	c.165C>A	c.(163-165)CAC>CAA	p.H55Q		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			CTCGTCTCCACACACCGATGT	0.517													92	144	---	---	---	---	PASS	A	248262842	A	A	248262842	3	1	136	1	0	0	0	0	1	0	0	0	11006	477	17	3	167	3	OR2L13	1	248262842	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	510423	248262842	987779	28	48504										
OR2T33	391195	broad.mit.edu	37	chr1	248436680	248436680	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cagctgcacccaggagccaaCacgacatggtcatcctcagg	10	15	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr1:248436680C>A	uc010pzi.1	-	1	437	c.437G>T	c.(436-438)TGT>TTT	p.C146F		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CAGGAGCCAACACGACATGGT	0.577													58	229	---	---	---	---	PASS	A	248436680	A	A	248436680	3	1	136	1	0	0	0	0	1	0	0	0	11024	478	17	3	528	3	OR2T33	1	248436680	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	173838	248436680	813941	29	48505										
LTBP1	4052	broad.mit.edu	37	chr2	33623484	33623484	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgtctctctgcaagaatgccAagtgcattaacaccgatggt	9	10	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:33623484A>G	uc002ros.2	+	34	5041	c.5041A>G	c.(5041-5043)AAG>GAG	p.K1681E	LTBP1_uc002rot.2_Missense_Mutation_p.K1355E|LTBP1_uc002rou.2_Missense_Mutation_p.K1354E|LTBP1_uc002rov.2_Missense_Mutation_p.K1301E|LTBP1_uc010ymz.1_Missense_Mutation_p.K1312E|LTBP1_uc010yna.1_Missense_Mutation_p.K1259E|LTBP1_uc010ynb.1_Missense_Mutation_p.K578E	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1680	EGF-like 18; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CAAGAATGCCAAGTGCATTAA	0.443													32	83	---	---	---	---	PASS	G	33623484	G	G	33623484	3	3	136	1	0	0	0	0	1	0	0	0	9073	131	5	5	5227	5	LTBP1	2	33623484	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08		33623484	209575889	30	48506										
LTBP1	4052	broad.mit.edu	37	chr2	33623567	33623567	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aagccaaactactgcactccGttgaataccgccttgaattt	6	12	0	2	rs138835287	byFrequency	TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:33623567G>A	uc002ros.2	+	34	5124	c.5124G>A	c.(5122-5124)CCG>CCA	p.P1708P	LTBP1_uc002rot.2_Silent_p.P1382P|LTBP1_uc002rou.2_Silent_p.P1381P|LTBP1_uc002rov.2_Silent_p.P1328P|LTBP1_uc010ymz.1_Silent_p.P1339P|LTBP1_uc010yna.1_Silent_p.P1286P|LTBP1_uc010ynb.1_Silent_p.P605P	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1707					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				ACTGCACTCCGTTGAATACCG	0.458													35	24	---	---	---	---	PASS	A	33623567	A	A	33623567	2	1	136	1	0	0	0	0	0	0	0	1	9073	1132	40	1		1	LTBP1	2	33623567	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	83	33623567	209575806	31	48507										
VIT	5212	broad.mit.edu	37	chr2	37032769	37032769	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttgaaggtgctgctgaaaatGagaagcagtatgtggtggag	16	3	0	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:37032769G>T	uc002rpl.2	+	14	1572	c.1351G>T	c.(1351-1353)GAG>TAG	p.E451*	VIT_uc002rpm.2_Nonsense_Mutation_p.E429*|VIT_uc010ezv.2_Nonsense_Mutation_p.E407*|VIT_uc010ezw.2_Nonsense_Mutation_p.E408*	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	436	VWFA 1.					proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				TGCTGAAAATGAGAAGCAGTA	0.478													43	26	---	---	---	---	PASS	T	37032769	T	T	37032769	4	4	136	1	0	0	0	0	0	1	0	0	17168	1291	45	2	1526	2	VIT	2	37032769	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	3409202	37032769	206166604	32	48508										
SLC8A1	6546	broad.mit.edu	37	chr2	40405579	40405579	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tctccaatctcaaggaagaaGgtcttgtttttctcatactc	6	10	4	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:40405579G>A	uc002rrx.2	-	2	1887	c.1863C>T	c.(1861-1863)ACC>ACT	p.T621T	uc002rrw.2_Intron|SLC8A1_uc002rry.2_Silent_p.T621T|SLC8A1_uc002rrz.2_Intron|SLC8A1_uc002rsa.2_Intron|SLC8A1_uc002rsd.3_Intron|SLC8A1_uc002rsb.1_Intron	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	621	Calx-beta 2.|Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CAAGGAAGAAGGTCTTGTTTT	0.483													142	159	---	---	---	---	PASS	A	40405579	A	A	40405579	2	1	136	1	0	0	0	0	0	0	0	1	14706	987	35	3		3	SLC8A1	2	40405579	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	3372810	40405579	202793794	33	48509										
COX7A2L	9167	broad.mit.edu	37	chr2	42578481	42578481	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	caggcctcgtttcaggtagaCgggcacaccatcagctttct	10	13	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:42578481C>T	uc002rsk.2	-	3	278	c.223G>A	c.(223-225)GTC>ATC	p.V75I	COX7A2L_uc002rsl.2_RNA	NM_004718	NP_004709	O14548	COX7R_HUMAN	cytochrome c oxidase subunit VIIa polypeptide 2	75					respiratory electron transport chain	mitochondrial respiratory chain	cytochrome-c oxidase activity|electron carrier activity				0						TTCAGGTAGACGGGCACACCA	0.448													20	40	---	---	---	---	PASS	T	42578481	T	T	42578481	3	4	136	1	0	0	0	0	1	0	0	0	3781	536	19	1	125	1	COX7A2L	2	42578481	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	2172902	42578481	200620892	34	48510										
PREPL	9581	broad.mit.edu	37	chr2	44549036	44549036	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gaataatattaggggtctgaTagcctggaagagttaacatg	12	4	1	2	rs142051325		TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:44549036T>C	uc002ruf.2	-	13	2059	c.2024A>G	c.(2023-2025)TAT>TGT	p.Y675C	PREPL_uc002rug.2_Missense_Mutation_p.Y609C|PREPL_uc002ruh.2_Missense_Mutation_p.Y613C|PREPL_uc010fax.2_Missense_Mutation_p.Y675C|PREPL_uc002rui.3_Missense_Mutation_p.Y586C|PREPL_uc002ruj.1_Missense_Mutation_p.Y586C|PREPL_uc002ruk.1_Missense_Mutation_p.Y675C	NM_006036	NP_006027	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like isoform C	675					proteolysis	cytosol	serine-type endopeptidase activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				AGGGGTCTGATAGCCTGGAAG	0.413													19	61	---	---	---	---	PASS	C	44549036	C	C	44549036	3	2	136	1	0	0	0	0	1	0	0	0	12475	1406	49	5	167	5	PREPL	2	44549036	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	1970555	44549036	198650337	35	48511										
C2orf86	51057	broad.mit.edu	37	chr2	63609192	63609192	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cagtgaatgtactggaagatGatgtctatcaggcccagctg	12	8	2	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:63609192G>T	uc002sch.2	-	11	1919	c.1473C>A	c.(1471-1473)ATC>ATA	p.I491I	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Silent_p.I332I|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Silent_p.I299I|C2orf86_uc002sci.1_Silent_p.I467I	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	491					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						ACTGGAAGATGATGTCTATCA	0.418													20	20	---	---	---	---	PASS	T	63609192	T	T	63609192	2	4	136	1	0	0	0	0	0	0	0	1	2201	1280	45	2		2	C2orf86	2	63609192	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	19060156	63609192	179590181	36	48512										
MEIS1	4211	broad.mit.edu	37	chr2	66670133	66670133	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	acgatagagaaggaggatcaAaatcagacagtgaagatata	11	4	2	4			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:66670133A>G	uc002sdu.2	+	6	1040	c.583A>G	c.(583-585)AAA>GAA	p.K195E	MEIS1_uc002sdt.2_Missense_Mutation_p.K195E|MEIS1_uc002sdv.2_Missense_Mutation_p.K193E|MEIS1_uc010yqh.1_RNA|MEIS1_uc010yqi.1_Missense_Mutation_p.K130E|MEIS1_uc002sdw.1_Missense_Mutation_p.K51E	NM_002398	NP_002389	O00470	MEIS1_HUMAN	Meis homeobox 1	195	Ser/Thr-rich.						sequence-specific DNA binding transcription factor activity				0						AGGAGGATCAAAATCAGACAG	0.378													80	82	---	---	---	---	PASS	G	66670133	G	G	66670133	3	3	136	1	0	0	0	0	1	0	0	0	9467	15	1	5	605	5	MEIS1	2	66670133	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	3060941	66670133	176529240	37	48513										
EMX1	2016	broad.mit.edu	37	chr2	73145400	73145400	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcaccagctgggcgcctcccCgctgcagcccccgcactcct	10	22	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:73145400C>T	uc002sin.1	+	1	797	c.419C>T	c.(418-420)CCG>CTG	p.P140L	EMX1_uc002sim.1_Intron	NM_004097	NP_004088	Q04741	EMX1_HUMAN	empty spiracles homolog 1	107						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGCGCCTCCCCGCTGCAGCCC	0.672													14	20	---	---	---	---	PASS	T	73145400	T	T	73145400	3	4	136	1	0	0	0	0	1	0	0	0	5107	652	23	1	421	1	EMX1	2	73145400	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	6475267	73145400	170053973	38	48514										
CCT7	10574	broad.mit.edu	37	chr2	73466917	73466917	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atggacaagcttattgtagaTggcagaggtaagtctacaga	12	5	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:73466917T>C	uc002siz.2	+	2	255	c.153T>C	c.(151-153)GAT>GAC	p.D51D	CCT7_uc002sja.2_Intron|CCT7_uc010yrf.1_Silent_p.D7D|CCT7_uc010feu.2_Silent_p.D51D|CCT7_uc010yrg.1_Missense_Mutation_p.M1T|CCT7_uc010yrh.1_5'UTR|CCT7_uc010yri.1_Intron	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	51					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						TTATTGTAGATGGCAGAGGTA	0.537													15	35	---	---	---	---	PASS	C	73466917	C	C	73466917	2	2	136	1	0	0	0	0	0	0	0	1	2959	1461	51	5		5	CCT7	2	73466917	Silent	SNP	T	TCGA-63-5128-01A-01D-1441-08	321517	73466917	169732456	39	48515										
ALMS1	7840	broad.mit.edu	37	chr2	73678938	73678938	+	Frame_Shift_Del	DEL	A	-	-													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cttcctctttctattcacatAcagagaagcctaatatttct							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:73678938delA	uc002sje.1	+	10	5398	c.5287delA	c.(5287-5289)ACAfs	p.T1763fs	ALMS1_uc002sjf.1_Frame_Shift_Del_p.T1719fs|ALMS1_uc002sjg.2_Frame_Shift_Del_p.T1149fs|ALMS1_uc002sjh.1_Frame_Shift_Del_p.T1149fs	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1761	34 X 47 AA approximate tandem repeat.|26.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CTATTCACATACAGAGAAGCC	0.428													83	98	---	---	---	---		-	73678938	-	-	73678938	7	5	136	1	0	1	0	1	0	0	0	0	535	391	14	0	5311	0	ALMS1	2	73678938	Frame_Shift_Del	DEL	A	TCGA-63-5128-01A-01D-1441-08	212021	73678938	169520435	40	48516										
ACTG2	72	broad.mit.edu	37	chr2	74136206	74136206	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgtttgaaaccttcaatgtcCctgccatgtacgtcgccatt	7	12	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:74136206C>G	uc002sjw.2	+	5	513	c.391C>G	c.(391-393)CCT>GCT	p.P131A	ACTG2_uc010fey.2_Missense_Mutation_p.P131A|ACTG2_uc010yrn.1_Missense_Mutation_p.P88A	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	131					muscle contraction	cytoskeleton|cytosol	ATP binding				0						CTTCAATGTCCCTGCCATGTA	0.433													31	106	---	---	---	---	PASS	G	74136206	G	G	74136206	3	3	136	1	0	0	0	0	1	0	0	0	197	623	22	4	405	4	ACTG2	2	74136206	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	457268	74136206	169063167	41	48517										
IL18R1	8809	broad.mit.edu	37	chr2	103013161	103013161	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttgaatttacacctgttactGacttcacattcttgccccaa	4	12	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:103013161G>A	uc002tbw.3	+	11	1591	c.1441G>A	c.(1441-1443)GAC>AAC	p.D481N	IL18R1_uc010ywc.1_Missense_Mutation_p.D480N|IL18R1_uc010ywd.1_Missense_Mutation_p.D325N|IL18R1_uc010fiy.2_Missense_Mutation_p.D481N	NM_003855	NP_003846	Q13478	IL18R_HUMAN	interleukin 18 receptor 1 precursor	481	TIR.|Cytoplasmic (Potential).				innate immune response	integral to membrane|plasma membrane	interleukin-1 receptor activity			ovary(2)|pancreas(1)	3						ACCTGTTACTGACTTCACATT	0.358													61	106	---	---	---	---	PASS	A	103013161	A	A	103013161	3	1	136	1	0	0	0	0	1	0	0	0	7647	1290	45	2	1479	2	IL18R1	2	103013161	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	28876955	103013161	140186212	42	48518										
CNTNAP5	129684	broad.mit.edu	37	chr2	125281944	125281944	+	Frame_Shift_Del	DEL	G	-	-													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gccaggaggaaccgcatcacGctcactctggatgatgaagc							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:125281944delG	uc002tno.2	+	9	1753	c.1389delG	c.(1387-1389)ACGfs	p.T463fs	CNTNAP5_uc010flu.2_Frame_Shift_Del_p.T464fs	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	463	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		ACCGCATCACGCTCACTCTGG	0.493													71	50	---	---	---	---		-	125281944	-	-	125281944	7	5	136	1	0	1	0	1	0	0	0	0	3650	1074	38	0	1423	0	CNTNAP5	2	125281944	Frame_Shift_Del	DEL	G	TCGA-63-5128-01A-01D-1441-08	22268783	125281944	117917429	43	48519										
UGGT1	56886	broad.mit.edu	37	chr2	128913101	128913101	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	attatgctagatttactatcTtggattcccaaggcaagact	7	8	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:128913101T>G	uc002tps.2	+	20	2354	c.2176T>G	c.(2176-2178)TTG>GTG	p.L726V	UGGT1_uc010fme.1_Missense_Mutation_p.L601V|UGGT1_uc002tpr.2_Missense_Mutation_p.L702V	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	726					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						ATTTACTATCTTGGATTCCCA	0.328													40	79	---	---	---	---	PASS	G	128913101	G	G	128913101	3	3	136	1	0	0	0	0	1	0	0	0	16938	1606	56	5	2254	5	UGGT1	2	128913101	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	3631157	128913101	114286272	44	48520										
POTEF	728378	broad.mit.edu	37	chr2	130872857	130872857	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtctgtccagcaggagttttActacttctgaattcccattg	8	10	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:130872857A>G	uc010fmh.2	-	4	966	c.566T>C	c.(565-567)GTA>GCA	p.V189A		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	189	ANK 1.					cell cortex	ATP binding			skin(3)|ovary(2)	5						CAGGAGTTTTACTACTTCTGA	0.433													22	111	---	---	---	---	PASS	G	130872857	G	G	130872857	3	3	136	1	0	0	0	0	1	0	0	0	12265	391	14	5	2717	5	POTEF	2	130872857	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	1959756	130872857	112326516	45	48521										
ZRANB3	84083	broad.mit.edu	37	chr2	136107557	136107557	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tataaggattgtaatacctcTtcaggccttcctaaagctgg	8	9	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:136107557T>G	uc002tum.2	-	5	705	c.588A>C	c.(586-588)GAA>GAC	p.E196D	ZRANB3_uc002tuk.2_5'UTR|ZRANB3_uc002tul.2_Missense_Mutation_p.E196D|ZRANB3_uc002tun.1_Missense_Mutation_p.E136D	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	196	Helicase ATP-binding.					intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		GTAATACCTCTTCAGGCCTTC	0.403													23	56	---	---	---	---	PASS	G	136107557	G	G	136107557	3	3	136	1	0	0	0	0	1	0	0	0	18221	1606	56	5	2719	5	ZRANB3	2	136107557	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	5234700	136107557	107091816	46	48522										
THSD7B	80731	broad.mit.edu	37	chr2	137814087	137814087	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gggtggacaagtcacctgtcTaactgtggtgagagcaacag	14	8	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:137814087T>A	uc002tva.1	+	2	144	c.144T>A	c.(142-144)TCT>TCA	p.S48S	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_5'UTR	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GTCACCTGTCTAACTGTGGTG	0.542													16	56	---	---	---	---	PASS	A	137814087	A	A	137814087	2	1	136	1	0	0	0	0	0	0	0	1	15877	1509	53	5		5	THSD7B	2	137814087	Silent	SNP	T	TCGA-63-5128-01A-01D-1441-08	1706530	137814087	105385286	47	48523										
NEB	4703	broad.mit.edu	37	chr2	152420154	152420154	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tttggaaatccagacagtgaAccacaccagggaattcaccg	9	11	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:152420154A>G	uc010fnx.2	-	91	13747	c.13556T>C	c.(13555-13557)GTT>GCT	p.V4519A	NEB_uc002txr.2_Missense_Mutation_p.V942A	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	4519					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CAGACAGTGAACCACACCAGG	0.443													169	179	---	---	---	---	PASS	G	152420154	G	G	152420154	3	3	136	1	0	0	0	0	1	0	0	0	10302	43	2	5	7283	5	NEB	2	152420154	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	14606067	152420154	90779219	48	48524										
GALNT3	2591	broad.mit.edu	37	chr2	166606403	166606403	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gttgagcagagtattcaaagTactatggaaggaatagcact	11	5	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:166606403T>C	uc010fph.1	-	10	2015	c.1628A>G	c.(1627-1629)TAC>TGC	p.Y543C		NM_004482	NP_004473	Q14435	GALT3_HUMAN	polypeptide N-acetylgalactosaminyltransferase 3	543	Ricin B-type lectin.|Lumenal (Potential).				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	Golgi cisterna membrane|integral to membrane|membrane fraction|nucleus|perinuclear region of cytoplasm	calcium ion binding|manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			central_nervous_system(2)|ovary(1)	3						GTATTCAAAGTACTATGGAAG	0.378													69	80	---	---	---	---	PASS	C	166606403	C	C	166606403	3	2	136	1	0	0	0	0	1	0	0	0	6214	1652	57	5	281	5	GALNT3	2	166606403	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	14186249	166606403	76592970	49	48525										
FASTKD1	79675	broad.mit.edu	37	chr2	170387868	170387868	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aagaaataaattacctttcaGcccctggtggcagccttgat	8	10	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:170387868G>T	uc002uev.3	-	13	2709	c.2321C>A	c.(2320-2322)GCT>GAT	p.A774D	FASTKD1_uc002uew.3_RNA|FASTKD1_uc002uex.3_Missense_Mutation_p.A717D	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	774					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4						TTACCTTTCAGCCCCTGGTGG	0.378													33	36	---	---	---	---	PASS	T	170387868	T	T	170387868	3	4	136	1	0	0	0	0	1	0	0	0	5685	971	34	3	234	3	FASTKD1	2	170387868	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	3781465	170387868	72811505	50	48526										
C2orf77	129881	broad.mit.edu	37	chr2	170502594	170502594	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	attacctctctggcatagtcCtgaaattctttctccttttc	4	12	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:170502594C>T	uc002ufe.2	-	9	1510	c.1416G>A	c.(1414-1416)CAG>CAA	p.Q472Q		NM_001085447	NP_001078916	Q0VFZ6	CB077_HUMAN	hypothetical protein LOC129881	472	Potential.										0						TGGCATAGTCCTGAAATTCTT	0.388													184	180	---	---	---	---	PASS	T	170502594	T	T	170502594	2	4	136	1	0	0	0	0	0	0	0	1	2194	680	24	3		3	C2orf77	2	170502594	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	114726	170502594	72696779	51	48527										
METTL8	79828	broad.mit.edu	37	chr2	172216976	172216976	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cagctgagttttcttttactTtttttctggctgctgcttct	7	9	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:172216976T>C	uc010zdo.1	-	3	332	c.191A>G	c.(190-192)AAA>AGA	p.K64R	METTL8_uc002ugu.3_Missense_Mutation_p.K64R|METTL8_uc002ugv.3_Missense_Mutation_p.K64R|METTL8_uc002ugt.3_Missense_Mutation_p.K64R|METTL8_uc002ugs.3_Missense_Mutation_p.K14R|METTL8_uc010zdp.1_Missense_Mutation_p.K19R	NM_024770	NP_079046	B3KW44	B3KW44_HUMAN	methyltransferase like 8	64							methyltransferase activity			ovary(1)	1						TTCTTTTACTTTTTTTCTGGC	0.413													24	32	---	---	---	---	PASS	C	172216976	C	C	172216976	3	2	136	1	0	0	0	0	1	0	0	0	9507	1841	64	5	1064	5	METTL8	2	172216976	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	1714382	172216976	70982397	52	48528										
HOXD13	3239	broad.mit.edu	37	chr2	176957927	176957927	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcgcgcccggaggctcccccAgccaaagagtgcccagcacc	12	19	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:176957927A>C	uc002ukf.1	+	1	396	c.309A>C	c.(307-309)CCA>CCC	p.P103P		NM_000523	NP_000514	P35453	HXD13_HUMAN	homeobox D13	103					skeletal system development|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0526)|READ - Rectum adenocarcinoma(9;0.0678)		AGGCTCCCCCAGCCAAAGAGT	0.687			T	NUP98	AML*								4	5	---	---	---	---	PASS	C	176957927	C	C	176957927	2	2	136	1	0	0	0	0	0	0	0	1	7322	175	7	5		5	HOXD13	2	176957927	Silent	SNP	A	TCGA-63-5128-01A-01D-1441-08	4740951	176957927	66241446	53	48529										
TTN	7273	broad.mit.edu	37	chr2	179437986	179437986	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ataatcctgaactcatattcAtgtccttctgtcagtccaga	5	11	4	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:179437986A>G	uc010zfg.1	-	275	65393	c.65169T>C	c.(65167-65169)CAT>CAC	p.H21723H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.H15418H|TTN_uc010zfi.1_Silent_p.H15351H|TTN_uc010zfj.1_Silent_p.H15226H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22650							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)			ACTCATATTCATGTCCTTCTG	0.408													64	48	---	---	---	---	PASS	G	179437986	G	G	179437986	2	3	136	1	0	0	0	0	0	0	0	1	16732	214	8	5		5	TTN	2	179437986	Silent	SNP	A	TCGA-63-5128-01A-01D-1441-08	2480059	179437986	63761387	54	48530										
TTN	7273	broad.mit.edu	37	chr2	179451955	179451955	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cattcccagggacaagattgGttacatggaagcttgttttc	10	8	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:179451955G>C	uc010zfg.1	-	256	56503	c.56279C>G	c.(56278-56280)ACC>AGC	p.T18760S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T12455S|TTN_uc010zfi.1_Missense_Mutation_p.T12388S|TTN_uc010zfj.1_Missense_Mutation_p.T12263S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19687							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)			GACAAGATTGGTTACATGGAA	0.473													43	114	---	---	---	---	PASS	C	179451955	C	C	179451955	3	2	136	1	0	0	0	0	1	0	0	0	16732	1261	44	4	44220	4	TTN	2	179451955	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	13969	179451955	63747418	55	48531										
TTN	7273	broad.mit.edu	37	chr2	179469006	179469006	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gccctgactcggaactcataCtgaccattggggataagttt	10	10	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:179469006C>G	uc010zfg.1	-	231	46928	c.46704G>C	c.(46702-46704)CAG>CAC	p.Q15568H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q9263H|TTN_uc010zfi.1_Missense_Mutation_p.Q9196H|TTN_uc010zfj.1_Missense_Mutation_p.Q9071H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16495							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)			GGAACTCATACTGACCATTGG	0.353													20	34	---	---	---	---	PASS	G	179469006	G	G	179469006	3	3	136	1	0	0	0	0	1	0	0	0	16732	564	20	4	53609	4	TTN	2	179469006	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	17051	179469006	63730367	56	48532										
TTN	7273	broad.mit.edu	37	chr2	179592314	179592314	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggaatcaaatttgcacacctGtcacaagcaacatcgtagta	7	10	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:179592314G>T	uc010zfg.1	-	65	16483	c.16259C>A	c.(16258-16260)ACA>AAA	p.T5420K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T2081K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6347							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)			TTGCACACCTGTCACAAGCAA	0.378													45	168	---	---	---	---	PASS	T	179592314	T	T	179592314	3	4	136	1	0	0	0	0	1	0	0	0	16732	1377	48	3	84718	3	TTN	2	179592314	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	123308	179592314	63607059	57	48533										
PIKFYVE	200576	broad.mit.edu	37	chr2	209189668	209189668	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gaatcagtcgaatgacccaaGgtgatttagtgatgtcaatg	11	6	2	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:209189668G>T	uc002vcz.2	+	19	2523	c.2365G>T	c.(2365-2367)GGT>TGT	p.G789C	PIKFYVE_uc010fun.1_Missense_Mutation_p.G470C|PIKFYVE_uc002vcy.1_Missense_Mutation_p.G733C	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	789					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						AATGACCCAAGGTGATTTAGT	0.358													87	27	---	---	---	---	PASS	T	209189668	T	T	209189668	3	4	136	1	0	0	0	0	1	0	0	0	11924	1000	35	3	2446	3	PIKFYVE	2	209189668	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	29597354	209189668	34009705	58	48534										
SPHKAP	80309	broad.mit.edu	37	chr2	228882367	228882367	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	acctgtcgccactcagtaacCgattccggggatagccctgc	10	15	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:228882367C>A	uc002vpq.2	-	7	3250	c.3203G>T	c.(3202-3204)CGG>CTG	p.R1068L	SPHKAP_uc002vpp.2_Missense_Mutation_p.R1068L|SPHKAP_uc010zlx.1_Missense_Mutation_p.R1068L	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1068						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		ACTCAGTAACCGATTCCGGGG	0.577													50	11	---	---	---	---	PASS	A	228882367	A	A	228882367	3	1	136	1	0	0	0	0	1	0	0	0	15047	652	23	1	1923	1	SPHKAP	2	228882367	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	19692699	228882367	14317006	59	48535										
SP110	3431	broad.mit.edu	37	chr2	231035425	231035425	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tttccgtaatcagcctttccTtaaccaggtccaaccacatt	4	14	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:231035425T>G	uc002vqh.3	-	17	2108	c.1868A>C	c.(1867-1869)AAG>ACG	p.K623T	SP110_uc002vqg.3_Missense_Mutation_p.K647T	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	623	Bromo.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		CAGCCTTTCCTTAACCAGGTC	0.473													46	17	---	---	---	---	PASS	G	231035425	G	G	231035425	3	3	136	1	0	0	0	0	1	0	0	0	14961	1609	56	5	209	5	SP110	2	231035425	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	2153058	231035425	12163948	60	48536										
RNPEPL1	57140	broad.mit.edu	37	chr2	241515987	241515989	+	In_Frame_Del	DEL	CCG	-	-													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gctggctcaatgccacaggcCcgccgctggctgagccggac							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr2:241515987_241515989delCCG	uc002vzi.2	+	9	1446_1448	c.853_855delCCG	c.(853-855)CCGdel	p.P286del	RNPEPL1_uc010fzf.2_In_Frame_Del_p.P192del|RNPEPL1_uc002vzj.2_5'UTR	NM_018226	NP_060696	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like	286					leukotriene biosynthetic process|proteolysis		aminopeptidase activity|metallopeptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)		TGCCACAGGCCCGCCGCTGGCTG	0.665													6	22	---	---	---	---		-	241515989	-	-	241515987	7	5	136	1	0	1	0	1	0	0	0	0	13510	623	22	0	879	0	RNPEPL1	2	241515987	In_Frame_Del	DEL	CCG	TCGA-63-5128-01A-01D-1441-08	10480562	241515987	1683386	61	48537										
SCN5A	6331	broad.mit.edu	37	chr3	38639337	38639337	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtgaggtcagtaaacgggtcCatgaccaccaacttcactcc	9	13	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:38639337C>A	uc003cio.2	-	14	2339	c.2145G>T	c.(2143-2145)ATG>ATT	p.M715I	SCN5A_uc003cin.2_Missense_Mutation_p.M715I|SCN5A_uc003cil.3_Missense_Mutation_p.M715I|SCN5A_uc010hhi.2_Missense_Mutation_p.M715I|SCN5A_uc010hhk.2_Missense_Mutation_p.M715I|SCN5A_uc011ayr.1_Missense_Mutation_p.M715I|SCN5A_uc010hhj.1_Missense_Mutation_p.M326I	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	715	Helical; Name=S1 of repeat II; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	TAAACGGGTCCATGACCACCA	0.542													79	17	---	---	---	---	PASS	A	38639337	A	A	38639337	3	1	136	1	0	0	0	0	1	0	0	0	13922	594	21	3	3965	3	SCN5A	3	38639337	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08		38639337	159383093	62	48538										
XIRP1	165904	broad.mit.edu	37	chr3	39229920	39229920	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgctgctgctgaacatctggAccaggtgggataaggtctgg	15	8	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:39229920A>G	uc003cjk.1	-	2	1238	c.1017T>C	c.(1015-1017)GGT>GGC	p.G339G	XIRP1_uc003cji.2_Silent_p.G339G|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	339							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		GAACATCTGGACCAGGTGGGA	0.582													90	25	---	---	---	---	PASS	G	39229920	G	G	39229920	2	3	136	1	0	0	0	0	0	0	0	1	17426	262	10	5		5	XIRP1	3	39229920	Silent	SNP	A	TCGA-63-5128-01A-01D-1441-08	590583	39229920	158792510	63	48539										
ULK4	54986	broad.mit.edu	37	chr3	41746590	41746590	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	taaaataggatactgtattaTtgcttcaaaagctgacaatg	7	5	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:41746590T>C	uc003ckv.3	-	27	2941	c.2740A>G	c.(2740-2742)ATA>GTA	p.I914V		NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	914							ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		TACTGTATTATTGCTTCAAAA	0.313													58	20	---	---	---	---	PASS	C	41746590	C	C	41746590	3	2	136	1	0	0	0	0	1	0	0	0	16975	1493	52	5	1131	5	ULK4	3	41746590	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	2516670	41746590	156275840	64	48540										
TGM4	7047	broad.mit.edu	37	chr3	44938287	44938287	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aggagggaccccgtgctggtGtgcagggccatgtgtgctat	17	9	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:44938287G>T	uc003coc.3	+	6	709	c.636G>T	c.(634-636)GTG>GTT	p.V212V	TGM4_uc003cob.2_RNA	NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)	212					peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	CCGTGCTGGTGTGCAGGGCCA	0.493													4	99	---	---	---	---	PASS	T	44938287	T	T	44938287	2	4	136	1	0	0	0	0	0	0	0	1	15829	1364	48	3		3	TGM4	3	44938287	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	3191697	44938287	153084143	65	48541										
PTPN23	25930	broad.mit.edu	37	chr3	47449059	47449059	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctgtcccagcattggacactCttcagcctgtaaaaggtcgg	10	12	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:47449059C>A	uc003crf.1	+	12	1084	c.988C>A	c.(988-990)CTT>ATT	p.L330I	PTPN23_uc011baw.1_Missense_Mutation_p.L295I|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.L200I	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	330	BRO1.				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)		ATTGGACACTCTTCAGCCTGT	0.602													4	110	---	---	---	---	PASS	A	47449059	A	A	47449059	3	1	136	1	0	0	0	0	1	0	0	0	12788	913	32	2	1034	2	PTPN23	3	47449059	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	2510772	47449059	150573371	66	48542										
CADPS	8618	broad.mit.edu	37	chr3	62739269	62739269	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cgcgggtcctcttctccacgGtagatggcatcaaatttggc	11	12	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:62739269G>T	uc003dll.2	-	3	1095	c.735C>A	c.(733-735)TAC>TAA	p.Y245*	CADPS_uc003dlm.2_Nonsense_Mutation_p.Y245*|CADPS_uc003dln.2_Nonsense_Mutation_p.Y245*	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	245					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		CTTCTCCACGGTAGATGGCAT	0.567													51	16	---	---	---	---	PASS	T	62739269	T	T	62739269	4	4	136	1	0	0	0	0	0	1	0	0	2570	1256	44	3	3511	3	CADPS	3	62739269	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	15290210	62739269	135283161	67	48543										
MAGI1	9223	broad.mit.edu	37	chr3	65342327	65342327	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ccaggagtctctccagagacCgtctccgccggctgggggag	15	14	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:65342327C>T	uc003dmn.2	-	23	4641	c.4115G>A	c.(4114-4116)CGG>CAG	p.R1372Q	MAGI1_uc003dmm.2_3'UTR	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	1401	Poly-Arg.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		CTCCAGAGACCGTCTCCGCCG	0.711													30	11	---	---	---	---	PASS	T	65342327	T	T	65342327	3	4	136	1	0	0	0	0	1	0	0	0	9190	652	23	1	277	1	MAGI1	3	65342327	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	2603058	65342327	132680103	68	48544										
HTR1F	3355	broad.mit.edu	37	chr3	88040764	88040764	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agatctcaggtacaagagaaCggaaagcagccactaccctg	10	11	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:88040764C>A	uc003dqr.2	+	2	1023	c.865C>A	c.(865-867)CGG>AGG	p.R289R		NM_000866	NP_000857	P30939	5HT1F_HUMAN	5-hydroxytryptamine (serotonin) receptor 1F	289	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	serotonin binding|serotonin receptor activity			ovary(3)	3	all_cancers(8;0.147)	Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00664)	Eletriptan(DB00216)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Zolmitriptan(DB00315)	TACAAGAGAACGGAAAGCAGC	0.378													5	13	---	---	---	---	PASS	A	88040764	A	A	88040764	2	1	136	1	0	0	0	0	0	0	0	1	7440	527	19	1		1	HTR1F	3	88040764	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	22698437	88040764	109981666	69	48545										
OR5K1	26339	broad.mit.edu	37	chr3	98188508	98188508	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgaagactctgctgtttgtgGtgttctttgccatctatctg	10	8	4	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:98188508G>A	uc003dsm.2	+	1	88	c.88G>A	c.(88-90)GTG>ATG	p.V30M		NM_001004736	NP_001004736	Q8NHB7	OR5K1_HUMAN	olfactory receptor, family 5, subfamily K,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)	1						GCTGTTTGTGGTGTTCTTTGC	0.428													226	154	---	---	---	---	PASS	A	98188508	A	A	98188508	3	1	136	1	0	0	0	0	1	0	0	0	11166	1261	44	3	90	3	OR5K1	3	98188508	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	10147744	98188508	99833922	70	48546										
ZBTB11	27107	broad.mit.edu	37	chr3	101370029	101370029	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctcattctcctcctgaaataTgtgctacctctactttaaca	3	13	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:101370029T>C	uc003dve.3	-	11	3373	c.3143A>G	c.(3142-3144)CAT>CGT	p.H1048R		NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	1048					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TCCTGAAATATGTGCTACCTC	0.353													211	170	---	---	---	---	PASS	C	101370029	C	C	101370029	3	2	136	1	0	0	0	0	1	0	0	0	17521	1464	51	5	22	5	ZBTB11	3	101370029	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	3181521	101370029	96652401	71	48547										
FSTL1	11167	broad.mit.edu	37	chr3	120130804	120130804	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtcttgccattactgccacaCacaggcctcttgtgaggttt	9	12	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:120130804C>A	uc003eds.2	-	4	370	c.195G>T	c.(193-195)GTG>GTT	p.V65V	FSTL1_uc011bjh.1_Silent_p.V30V|FSTL1_uc010hrb.2_Silent_p.V65V	NM_007085	NP_009016	Q12841	FSTL1_HUMAN	follistatin-like 1 precursor	65	Kazal-like.				BMP signaling pathway	extracellular space	calcium ion binding|heparin binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.189)		TACTGCCACACACAGGCCTCT	0.408													31	138	---	---	---	---	PASS	A	120130804	A	A	120130804	2	1	136	1	0	0	0	0	0	0	0	1	6077	465	17	3		3	FSTL1	3	120130804	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	18760775	120130804	77891626	72	48548										
CASR	846	broad.mit.edu	37	chr3	122003495	122003495	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agcaacgtctcccgcaagcgGtccagcagccttggaggctc	12	15	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:122003495G>T	uc003eev.3	+	7	3066	c.2694G>T	c.(2692-2694)CGG>CGT	p.R898R	CASR_uc003eew.3_Silent_p.R908R	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	898	Cytoplasmic (Potential).|Interaction with RNF19A.		R -> Q (in IGE8).		anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	CCCGCAAGCGGTCCAGCAGCC	0.662													28	46	---	---	---	---	PASS	T	122003495	T	T	122003495	2	4	136	1	0	0	0	0	0	0	0	1	2682	1248	44	3		3	CASR	3	122003495	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	1872691	122003495	76018935	73	48549										
ABTB1	80325	broad.mit.edu	37	chr3	127399246	127399246	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agcacggtgcagacctacagCgccatagaggaggcgcagca	14	12	0	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:127399246C>T	uc003ejt.2	+	12	1453	c.1365C>T	c.(1363-1365)AGC>AGT	p.S455S	ABTB1_uc003ejr.2_Silent_p.S313S|ABTB1_uc003ejs.2_Silent_p.S430S|ABTB1_uc003eju.2_Silent_p.S313S|ABTB1_uc010hsm.2_Silent_p.S182S	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	455	Potential.					cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						AGACCTACAGCGCCATAGAGG	0.682													7	21	---	---	---	---	PASS	T	127399246	T	T	127399246	2	4	136	1	0	0	0	0	0	0	0	1	102	767	27	1		1	ABTB1	3	127399246	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	5395751	127399246	70623184	74	48550										
AGTR1	185	broad.mit.edu	37	chr3	148459669	148459669	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttgcagatattgtggacacgGccatgcctatcaccatttgt	9	10	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:148459669G>A	uc003ewg.2	+	4	1293	c.847G>A	c.(847-849)GCC>ACC	p.A283T	AGTR1_uc003ewh.2_Missense_Mutation_p.A283T|AGTR1_uc003ewi.2_Missense_Mutation_p.A283T|AGTR1_uc003ewj.2_Missense_Mutation_p.A283T|AGTR1_uc003ewk.2_Missense_Mutation_p.A283T	NM_031850	NP_114038	P30556	AGTR1_HUMAN	angiotensin II receptor, type 1	283	Helical; Name=7; (Potential).				calcium-mediated signaling|cell chemotaxis|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|kidney development|low-density lipoprotein particle remodeling|positive regulation of cellular protein metabolic process|positive regulation of cholesterol esterification|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of phospholipase A2 activity|positive regulation of reactive oxygen species metabolic process|regulation of cell growth|regulation of cell proliferation|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|Rho protein signal transduction		acetyltransferase activator activity|angiotensin type I receptor activity|angiotensin type II receptor activity|bradykinin receptor binding|protein heterodimerization activity				0			LUSC - Lung squamous cell carcinoma(72;0.127)|Lung(72;0.152)		Candesartan(DB00796)|Eprosartan(DB00876)|Forasartan(DB01342)|Irbesartan(DB01029)|Losartan(DB00678)|Olmesartan(DB00275)|Saprisartan(DB01347)|Spironolactone(DB00421)|Tasosartan(DB01349)|Telmisartan(DB00966)|Valsartan(DB00177)	TGTGGACACGGCCATGCCTAT	0.363													5	336	---	---	---	---	PASS	A	148459669	A	A	148459669	3	1	136	1	0	0	0	0	1	0	0	0	401	1203	42	3	849	3	AGTR1	3	148459669	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	21060423	148459669	49562761	75	48551										
SGEF	26084	broad.mit.edu	37	chr3	153870603	153870603	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctgaacattcatatttactcAgcttggagatcttgatacga	7	8	3	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:153870603A>T	uc011bog.1	+	6	1580	c.1369A>T	c.(1369-1371)AGC>TGC	p.S457C	SGEF_uc011boh.1_Missense_Mutation_p.S457C	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	457	DH.				regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			ATATTTACTCAGCTTGGAGAT	0.299													7	13	---	---	---	---	PASS	T	153870603	T	T	153870603	3	4	136	1	0	0	0	0	1	0	0	0	14205	188	7	5	1387	5	SGEF	3	153870603	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	5410934	153870603	44151827	76	48552										
C3orf33	285315	broad.mit.edu	37	chr3	155485402	155485402	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tttttgtaaccatgccttccCagtttcagcgagttctactc	6	12	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:155485402C>G	uc003fal.1	-	5	520	c.250G>C	c.(250-252)GGG>CGG	p.G84R	C3orf33_uc003fam.1_Missense_Mutation_p.G127R	NM_173657	NP_775928	Q96NB5	Q96NB5_HUMAN	hypothetical protein LOC285315	84							hydrolase activity, acting on ester bonds|nucleic acid binding				0			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CATGCCTTCCCAGTTTCAGCG	0.418													18	31	---	---	---	---	PASS	G	155485402	G	G	155485402	3	3	136	1	0	0	0	0	1	0	0	0	2223	594	21	4	513	4	C3orf33	3	155485402	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	1614799	155485402	42537028	77	48553										
SI	6476	broad.mit.edu	37	chr3	164785163	164785163	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cttttcctaataacttggatGctaaatgggttttgggcaac	9	7	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:164785163G>T	uc003fei.2	-	6	662	c.600C>A	c.(598-600)AGC>AGA	p.S200R		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	200	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)	TAACTTGGATGCTAAATGGGT	0.303										HNSCC(35;0.089)			138	98	---	---	---	---	PASS	T	164785163	T	T	164785163	3	4	136	1	0	0	0	0	1	0	0	0	14297	1310	46	3	5055	3	SI	3	164785163	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	9299761	164785163	33237267	78	48554										
LRRC31	79782	broad.mit.edu	37	chr3	169558000	169558000	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tagctctttgaggaaccgcaCgttttggcagaacatggtcc	11	10	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:169558000C>A	uc003fgc.1	-	9	1506	c.1429G>T	c.(1429-1431)GTG>TTG	p.V477L	LRRC31_uc010hwp.1_Missense_Mutation_p.V421L	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	477										ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			AGGAACCGCACGTTTTGGCAG	0.473													111	109	---	---	---	---	PASS	A	169558000	A	A	169558000	3	1	136	1	0	0	0	0	1	0	0	0	8986	536	19	1	233	1	LRRC31	3	169558000	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	4772837	169558000	28464430	79	48555										
ADIPOQ	9370	broad.mit.edu	37	chr3	186572425	186572425	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atggggaaggagagcgtaatGgactctatgctgataatgac	14	5	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:186572425G>T	uc003fra.2	+	3	751	c.667G>T	c.(667-669)GGA>TGA	p.G223*	ADIPOQ_uc010hyy.2_Nonsense_Mutation_p.G223*	NM_004797	NP_004788	Q15848	ADIPO_HUMAN	adiponectin precursor	223	C1q.				brown fat cell differentiation|cellular response to drug|cellular response to insulin stimulus|detection of oxidative stress|fatty acid beta-oxidation|generation of precursor metabolites and energy|glucose homeostasis|glucose metabolic process|low-density lipoprotein particle clearance|negative regulation of blood pressure|negative regulation of DNA biosynthetic process|negative regulation of ERK1 and ERK2 cascade|negative regulation of eukaryotic cell surface binding|negative regulation of fat cell differentiation|negative regulation of gluconeogenesis|negative regulation of granulocyte differentiation|negative regulation of heterotypic cell-cell adhesion|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of intracellular protein transport|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|negative regulation of macrophage differentiation|negative regulation of MAP kinase activity|negative regulation of phagocytosis|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein autophosphorylation|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of synaptic transmission|negative regulation of transcription, DNA-dependent|negative regulation of tumor necrosis factor production|negative regulation of tumor necrosis factor-mediated signaling pathway|positive regulation of cAMP-dependent protein kinase activity|positive regulation of cholesterol efflux|positive regulation of fatty acid metabolic process|positive regulation of glucose import|positive regulation of glycogen (starch) synthase activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of metanephric glomerular visceral epithelial cell development|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myeloid cell apoptosis|positive regulation of protein kinase A signaling cascade|positive regulation of renal albumin absorption|protein homooligomerization|protein localization in plasma membrane|response to glucose stimulus|response to tumor necrosis factor	collagen|endoplasmic reticulum|extracellular space	cytokine activity|eukaryotic cell surface binding|hormone activity|protein homodimerization activity			ovary(1)	1	all_cancers(143;1.2e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.47e-19)	GBM - Glioblastoma multiforme(93;0.0776)		AGAGCGTAATGGACTCTATGC	0.532													82	180	---	---	---	---	PASS	T	186572425	T	T	186572425	4	4	136	1	0	0	0	0	0	1	0	0	317	1349	47	3	673	3	ADIPOQ	3	186572425	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	17014425	186572425	11450005	80	48556										
MASP1	5648	broad.mit.edu	37	chr3	186959278	186959278	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gggtgaggtacctggaaggcAggtgggtaggcttctcccca	17	9	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:186959278A>C	uc003frh.1	-	10	1626	c.1294T>G	c.(1294-1296)TGC>GGC	p.C432G	MASP1_uc003fri.2_Missense_Mutation_p.C432G|MASP1_uc003frj.2_Missense_Mutation_p.C401G	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	432	Sushi 2.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		CCTGGAAGGCAGGTGGGTAGG	0.507													81	237	---	---	---	---	PASS	C	186959278	C	C	186959278	3	2	136	1	0	0	0	0	1	0	0	0	9322	188	7	5	1721	5	MASP1	3	186959278	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	386853	186959278	11063152	81	48557										
PAK2	5062	broad.mit.edu	37	chr3	196547330	196547330	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tactggatggcaccagaggtGgttacacggaaagcttatgg	14	7	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:196547330G>T	uc003fwy.3	+	13	1564	c.1242G>T	c.(1240-1242)GTG>GTT	p.V414V		NM_002577	NP_002568	Q13177	PAK2_HUMAN	p21-activated kinase 2	414	Protein kinase.				axon guidance|cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of apoptosis|regulation of defense response to virus by virus|regulation of growth|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|nucleus|perinuclear region of cytoplasm|plasma membrane	ATP binding|identical protein binding|protein kinase binding|protein serine/threonine kinase activity|protein tyrosine kinase activator activity			ovary(1)|lung(1)	2	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00405)		CACCAGAGGTGGTTACACGGA	0.488													65	200	---	---	---	---	PASS	T	196547330	T	T	196547330	2	4	136	1	0	0	0	0	0	0	0	1	11401	1335	47	3		3	PAK2	3	196547330	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	9588052	196547330	1475100	82	48558										
LMLN	89782	broad.mit.edu	37	chr3	197707242	197707242	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agtggcctcatggagcagtgGgtgtgccagaccaagaaggc	16	9	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr3:197707242G>T	uc011buo.1	+	6	617	c.595G>T	c.(595-597)GGT>TGT	p.G199C	LMLN_uc003fyt.2_Missense_Mutation_p.G147C|LMLN_uc010iar.2_Missense_Mutation_p.G199C|LMLN_uc010ias.2_Missense_Mutation_p.G147C|LMLN_uc003fyu.2_5'UTR	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2	199					cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		TGGAGCAGTGGGTGTGCCAGA	0.527													47	298	---	---	---	---	PASS	T	197707242	T	T	197707242	3	4	136	1	0	0	0	0	1	0	0	0	8847	1232	43	3	617	3	LMLN	3	197707242	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1159912	197707242	315188	83	48559										
FAM193A	8603	broad.mit.edu	37	chr4	2695363	2695363	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	accacagacactcggccccaGccgccccgaggaatagcccc	9	20	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr4:2695363G>C	uc010icl.2	+	14	2332	c.1981G>C	c.(1981-1983)GCC>CCC	p.A661P	FAM193A_uc010ick.2_Missense_Mutation_p.A861P|FAM193A_uc003gfd.2_Missense_Mutation_p.A661P|FAM193A_uc011bvm.1_Missense_Mutation_p.A683P|FAM193A_uc011bvn.1_Missense_Mutation_p.A661P|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Missense_Mutation_p.A515P	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	661										ovary(3)	3						CTCGGCCCCAGCCGCCCCGAG	0.587													63	39	---	---	---	---	PASS	C	2695363	C	C	2695363	3	2	136	1	0	0	0	0	1	0	0	0	5524	971	34	4	2027	4	FAM193A	4	2695363	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08		2695363	188458913	84	48560										
GBA3	57733	broad.mit.edu	37	chr4	22820373	22820373	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttgataaagtcaatcttcaaGtatattgtgcatggtctctt	7	6	4	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr4:22820373G>A	uc003gqp.3	+	5	1328	c.1237G>A	c.(1237-1239)GTA>ATA	p.V413I	GBA3_uc010iep.2_Missense_Mutation_p.V106I|GBA3_uc011bxo.1_Missense_Mutation_p.V414I	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	413					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						CAATCTTCAAGTATATTGTGC	0.393													20	8	---	---	---	---	PASS	A	22820373	A	A	22820373	3	1	136	1	0	0	0	0	1	0	0	0	6268	1029	36	3	1255	3	GBA3	4	22820373	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	20125010	22820373	168333903	85	48561										
KCTD8	386617	broad.mit.edu	37	chr4	44449871	44449871	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ccggaatttggcgtcggcctGgttgtcgcgcacggtggtgt	17	10	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr4:44449871G>A	uc003gwu.2	-	1	954	c.670C>T	c.(670-672)CAG>TAG	p.Q224*		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	224						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						GCGTCGGCCTGGTTGTCGCGC	0.577										HNSCC(17;0.042)			4	13	---	---	---	---	PASS	A	44449871	A	A	44449871	4	1	136	1	0	0	0	0	0	1	0	0	8115	1357	47	3	759	3	KCTD8	4	44449871	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	21629498	44449871	146704405	86	48562										
KDR	3791	broad.mit.edu	37	chr4	55961023	55961023	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctccacaaatccagagctggCtgagctctggctactggtga	11	12	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr4:55961023C>A	uc003has.2	-	21	3219	c.2917G>T	c.(2917-2919)GCC>TCC	p.A973S	KDR_uc003hat.1_Missense_Mutation_p.A973S	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	973	Protein kinase.|Cytoplasmic (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	p.A973S(1)		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)	CCAGAGCTGGCTGAGCTCTGG	0.532			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			95	38	---	---	---	---	PASS	A	55961023	A	A	55961023	3	1	136	1	0	0	0	0	1	0	0	0	8139	797	28	3	1193	3	KDR	4	55961023	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	11511152	55961023	135193253	87	48563										
KDR	3791	broad.mit.edu	37	chr4	55971008	55971008	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcaaacaggtgtgggcaactCtcccacatggattggcagag	13	10	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr4:55971008C>G	uc003has.2	-	13	2091	c.1789G>C	c.(1789-1791)GAG>CAG	p.E597Q	KDR_uc003hat.1_Missense_Mutation_p.E597Q|KDR_uc011bzx.1_Missense_Mutation_p.E597Q	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	597	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)	GTGGGCAACTCTCCCACATGG	0.468			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			44	21	---	---	---	---	PASS	G	55971008	G	G	55971008	3	3	136	1	0	0	0	0	1	0	0	0	8139	922	32	2	2353	2	KDR	4	55971008	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	9985	55971008	135183268	88	48564										
AMBN	258	broad.mit.edu	37	chr4	71472248	71472248	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ccccagcgtcaccccagcagCtgctgacccactgatgaccc	8	20	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr4:71472248C>A	uc003hfl.2	+	13	1220	c.1145C>A	c.(1144-1146)GCT>GAT	p.A382D		NM_016519	NP_057603	Q9NP70	AMBN_HUMAN	ameloblastin precursor	382					bone mineralization|cell adhesion|cell proliferation|odontogenesis of dentine-containing tooth	proteinaceous extracellular matrix	growth factor activity|structural constituent of tooth enamel			ovary(3)|skin(1)	4			Lung(101;0.235)			ACCCCAGCAGCTGCTGACCCA	0.562													3	60	---	---	---	---	PASS	A	71472248	A	A	71472248	3	1	136	1	0	0	0	0	1	0	0	0	563	797	28	3	1195	3	AMBN	4	71472248	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	15501240	71472248	119682028	89	48565										
MMRN1	22915	broad.mit.edu	37	chr4	90856890	90856890	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atctgactagtgctgtcaatAgtctaaattttattatcaaa	5	6	4	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr4:90856890A>G	uc003hst.2	+	6	2130	c.2059A>G	c.(2059-2061)AGT>GGT	p.S687G	MMRN1_uc010iku.2_Intron|MMRN1_uc011cds.1_Missense_Mutation_p.S429G	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	687	Potential.				cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		TGCTGTCAATAGTCTAAATTT	0.348													37	16	---	---	---	---	PASS	G	90856890	G	G	90856890	3	3	136	1	0	0	0	0	1	0	0	0	9670	420	15	5	2081	5	MMRN1	4	90856890	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	19384642	90856890	100297386	90	48566										
CENPE	1062	broad.mit.edu	37	chr4	104095953	104095953	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcatccaaatcattcttttcTtttaatttcaattccatttc	0	10	5	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr4:104095953T>A	uc003hxb.1	-	16	1677	c.1587A>T	c.(1585-1587)AAA>AAT	p.K529N	CENPE_uc003hxc.1_Missense_Mutation_p.K529N	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	529	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		CATTCTTTTCTTTTAATTTCA	0.308													27	5	---	---	---	---	PASS	A	104095953	A	A	104095953	3	1	136	1	0	0	0	0	1	0	0	0	3230	1606	56	5	6654	5	CENPE	4	104095953	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	13239063	104095953	87058323	91	48567										
ANK2	287	broad.mit.edu	37	chr4	114251625	114251625	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cttctggtgctcagttccttGggtaagggtttctgataaac	11	8	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr4:114251625G>C	uc003ibe.3	+	27	3224	c.3124G>C	c.(3124-3126)GGT>CGT	p.G1042R	ANK2_uc003ibd.3_Missense_Mutation_p.G1033R|ANK2_uc003ibf.3_Missense_Mutation_p.G1042R|ANK2_uc011cgc.1_Missense_Mutation_p.G251R|ANK2_uc003ibg.3_Missense_Mutation_p.G70R|ANK2_uc003ibc.2_Missense_Mutation_p.G1018R|ANK2_uc011cgb.1_Missense_Mutation_p.G1057R	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TCAGTTCCTTGGGTAAGGGTT	0.498													28	15	---	---	---	---	PASS	C	114251625	C	C	114251625	3	2	136	1	0	0	0	0	1	0	0	0	621	1362	47	4	3295	4	ANK2	4	114251625	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	10155672	114251625	76902651	92	48568										
PRDM5	11107	broad.mit.edu	37	chr4	121742365	121742365	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttgtcttctagaattttcaaCttccccttctttgatgactg	5	10	4	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr4:121742365C>T	uc003idn.2	-	4	686	c.436G>A	c.(436-438)GTT>ATT	p.V146I	PRDM5_uc003ido.2_Missense_Mutation_p.V146I|PRDM5_uc010ine.2_Missense_Mutation_p.V146I|PRDM5_uc010inf.2_Missense_Mutation_p.V146I	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	146					histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						GAATTTTCAACTTCCCCTTCT	0.398													148	56	---	---	---	---	PASS	T	121742365	T	T	121742365	3	4	136	1	0	0	0	0	1	0	0	0	12460	565	20	3	1508	3	PRDM5	4	121742365	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	7490740	121742365	69411911	93	48569										
PCDH10	57575	broad.mit.edu	37	chr4	134072775	134072775	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ccaccgaccgggatgagggcGccaacgcccagcttgcctac	12	17	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr4:134072775G>T	uc003iha.2	+	1	2306	c.1480G>T	c.(1480-1482)GCC>TCC	p.A494S	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.A494S	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	494	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GGATGAGGGCGCCAACGCCCA	0.587													58	15	---	---	---	---	PASS	T	134072775	T	T	134072775	3	4	136	1	0	0	0	0	1	0	0	0	11507	1087	38	1	1482	1	PCDH10	4	134072775	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	12330410	134072775	57081501	94	48570										
POU4F2	5458	broad.mit.edu	37	chr4	147561309	147561309	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcgctggagggcgagctgctGgagcacctgagtcccgggct	18	12	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr4:147561309G>T	uc003ikv.2	+	2	827	c.579G>T	c.(577-579)CTG>CTT	p.L193L		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	193					estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					GCGAGCTGCTGGAGCACCTGA	0.597													3	3	---	---	---	---	PASS	T	147561309	T	T	147561309	2	4	136	1	0	0	0	0	0	0	0	1	12279	1335	47	3		3	POU4F2	4	147561309	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	13488534	147561309	43592967	95	48571										
PLEKHG4B	153478	broad.mit.edu	37	chr5	143338	143338	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aggtgctggacgtcagtcagGagctgctgcagtccggggtc	17	10	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:143338G>C	uc003jak.2	+	2	636	c.586G>C	c.(586-588)GAG>CAG	p.E196Q		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	196					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		CGTCAGTCAGGAGCTGCTGCA	0.657													35	51	---	---	---	---	PASS	C	143338	C	C	143338	3	2	136	1	0	0	0	0	1	0	0	0	12072	1175	41	2	592	2	PLEKHG4B	5	143338	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08		143338	180771922	96	48572										
SLC9A3	6550	broad.mit.edu	37	chr5	483533	483533	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	catggtgtagcgcacggtggTggccgactgctccgagatgt	16	10	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:483533T>A	uc003jbe.2	-	6	1109	c.997A>T	c.(997-999)ACC>TCC	p.T333S	SLC9A3_uc011clx.1_Missense_Mutation_p.T333S	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	333	Extracellular (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CGCACGGTGGTGGCCGACTGC	0.592													8	8	---	---	---	---	PASS	A	483533	A	A	483533	3	1	136	1	0	0	0	0	1	0	0	0	14713	1696	59	5	1555	5	SLC9A3	5	483533	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	340195	483533	180431727	97	48573										
IRX2	153572	broad.mit.edu	37	chr5	2749065	2749065	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cttgtccttgcactccgagcCcgattcgcacagggggtccc	11	16	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:2749065C>A	uc003jda.2	-	3	999	c.757G>T	c.(757-759)GGC>TGC	p.G253C	IRX2_uc003jdb.2_Missense_Mutation_p.G253C	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	253						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		CACTCCGAGCCCGATTCGCAC	0.692													41	57	---	---	---	---	PASS	A	2749065	A	A	2749065	3	1	136	1	0	0	0	0	1	0	0	0	7844	623	22	3	666	3	IRX2	5	2749065	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	2265532	2749065	178166195	98	48574										
SLC45A2	51151	broad.mit.edu	37	chr5	33964051	33964051	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atgacctggaattctgtaccCaacagtcttcccagctccag	7	14	2	1	rs143611047		TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:33964051C>A	uc003jid.2	-	3	725	c.633G>T	c.(631-633)TTG>TTT	p.L211F	SLC45A2_uc003jie.2_Missense_Mutation_p.L211F|SLC45A2_uc003jif.3_Intron|SLC45A2_uc011coe.1_Intron	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	211	Extracellular (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						ATTCTGTACCCAACAGTCTTC	0.473													37	74	---	---	---	---	PASS	A	33964051	A	A	33964051	3	1	136	1	0	0	0	0	1	0	0	0	14641	593	21	3	994	3	SLC45A2	5	33964051	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	31214986	33964051	146951209	99	48575										
PRLR	5618	broad.mit.edu	37	chr5	35065413	35065413	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttgttatccatgaccccggaCaccttggcatactccttatt	6	13	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:35065413C>A	uc003jjm.2	-	10	2177	c.1647G>T	c.(1645-1647)GTG>GTT	p.V549V	PRLR_uc003jjg.1_Intron|PRLR_uc003jjh.1_Intron|PRLR_uc003jji.1_Intron|PRLR_uc003jjj.1_Intron|PRLR_uc003jjk.1_Intron|PRLR_uc003jjl.3_Silent_p.V448V	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	549	Cytoplasmic (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	TGACCCCGGACACCTTGGCAT	0.498													46	78	---	---	---	---	PASS	A	35065413	A	A	35065413	2	1	136	1	0	0	0	0	0	0	0	1	12531	465	17	3		3	PRLR	5	35065413	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	1101362	35065413	145849847	100	48576										
C7	730	broad.mit.edu	37	chr5	40934464	40934464	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgctgtgtatgggcagtatgGaggccagccttgtgttggaa	16	6	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:40934464G>A	uc003jmh.2	+	4	290	c.176G>A	c.(175-177)GGA>GAA	p.G59E	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	59	TSP type-1 1.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				GGGCAGTATGGAGGCCAGCCT	0.428													49	60	---	---	---	---	PASS	A	40934464	A	A	40934464	3	1	136	1	0	0	0	0	1	0	0	0	2375	1174	41	2	190	2	C7	5	40934464	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	5869051	40934464	139980796	101	48577										
HCN1	348980	broad.mit.edu	37	chr5	45267199	45267199	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aaactagagtacctattcgaTctagtcggtcaatggcaact	8	9	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:45267199T>C	uc003jok.2	-	7	1800	c.1775A>G	c.(1774-1776)GAT>GGT	p.D592G		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	592	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						ACCTATTCGATCTAGTCGGTC	0.383													56	118	---	---	---	---	PASS	C	45267199	C	C	45267199	3	2	136	1	0	0	0	0	1	0	0	0	6996	1435	50	5	905	5	HCN1	5	45267199	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	4332735	45267199	135648061	102	48578										
MAP3K1	4214	broad.mit.edu	37	chr5	56177701	56177701	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgcaggcatctgttcccaacAactatctggaaaccacagag	8	12	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:56177701A>T	uc003jqw.3	+	14	3175	c.2674A>T	c.(2674-2676)AAC>TAC	p.N892Y		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	892				DGQQDSFLQASVPNNYLETTENSSP -> QRQQHNSFCRHL FPTTIWKPQRTVPL (in Ref. 2; AAC97073).	cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		TGTTCCCAACAACTATCTGGA	0.458													34	15	---	---	---	---	PASS	T	56177701	T	T	56177701	3	4	136	1	0	0	0	0	1	0	0	0	9243	130	5	5	2728	5	MAP3K1	5	56177701	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	10910502	56177701	124737559	103	48579										
FAM169A	26049	broad.mit.edu	37	chr5	74135988	74135988	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	caaagcctacatttgacaggCtaataggaatctgaaatgac	8	8	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:74135988C>A	uc003kdm.2	-	3	186	c.143G>T	c.(142-144)AGC>ATC	p.S48I	FAM169A_uc010izm.2_Missense_Mutation_p.S48I|FAM169A_uc003kdl.2_5'UTR	NM_015566	NP_056381	Q9Y6X4	F169A_HUMAN	hypothetical protein LOC26049	48											0						ATTTGACAGGCTAATAGGAAT	0.323													39	13	---	---	---	---	PASS	A	74135988	A	A	74135988	3	1	136	1	0	0	0	0	1	0	0	0	5487	797	28	3	1913	3	FAM169A	5	74135988	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	17958287	74135988	106779272	104	48580										
F2RL1	2150	broad.mit.edu	37	chr5	76129066	76129066	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcaccattcctttgtatgtcGtgaagcagaccatcttcatt	6	11	3	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:76129066G>T	uc003keo.2	+	2	809	c.634G>T	c.(634-636)GTG>TTG	p.V212L		NM_005242	NP_005233	P55085	PAR2_HUMAN	coagulation factor II (thrombin) receptor-like 1	212	Extracellular (Potential).				blood coagulation|elevation of cytosolic calcium ion concentration|positive regulation of leukocyte chemotaxis|positive regulation of positive chemotaxis|regulation of blood coagulation	Golgi apparatus|integral to plasma membrane	receptor binding|thrombin receptor activity			central_nervous_system(1)	1		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;7.7e-51)|Epithelial(54;2.77e-45)|all cancers(79;3.47e-41)		TTTGTATGTCGTGAAGCAGAC	0.502													52	17	---	---	---	---	PASS	T	76129066	T	T	76129066	3	4	136	1	0	0	0	0	1	0	0	0	5344	1145	40	1	640	1	F2RL1	5	76129066	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1993078	76129066	104786194	105	48581										
ACOT12	134526	broad.mit.edu	37	chr5	80626672	80626672	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atagcatggatgagaaatccGgcacatatgatttcacttct	8	8	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:80626672G>A	uc003khl.3	-	14	1534	c.1479C>T	c.(1477-1479)GCC>GCT	p.A493A	RNU5E_uc011cto.1_Intron	NM_130767	NP_570123	Q8WYK0	ACO12_HUMAN	acyl-CoA thioesterase 12	493	START.				acyl-CoA metabolic process|fatty acid metabolic process	cytosol	acetyl-CoA hydrolase activity|carboxylesterase activity			ovary(1)|kidney(1)	2		Lung NSC(167;0.0176)|all_lung(232;0.0205)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;1.37e-45)|Epithelial(54;1.25e-39)|all cancers(79;5.01e-34)		TGAGAAATCCGGCACATATGA	0.423													3	79	---	---	---	---	PASS	A	80626672	A	A	80626672	2	1	136	1	0	0	0	0	0	0	0	1	150	1103	39	1		1	ACOT12	5	80626672	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	4497606	80626672	100288588	106	48582										
VCAN	1462	broad.mit.edu	37	chr5	82817619	82817619	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tacccacattacccagcttaTggaagaaaccactactgaga	6	12	0	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:82817619T>A	uc003kii.3	+	7	3850	c.3494T>A	c.(3493-3495)ATG>AAG	p.M1165K	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.M1165K|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1165	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ACCCAGCTTATGGAAGAAACC	0.378													94	45	---	---	---	---	PASS	A	82817619	A	A	82817619	3	1	136	1	0	0	0	0	1	0	0	0	17135	1464	51	5	3516	5	VCAN	5	82817619	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	2190947	82817619	98097641	107	48583										
AQPEP	206338	broad.mit.edu	37	chr5	115336855	115336855	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gagtggttttccagtgatcaCtttaaatgtgtctactggcg	11	7	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:115336855C>T	uc003kro.2	+	10	1903	c.1739C>T	c.(1738-1740)ACT>ATT	p.T580I	AQPEP_uc003krp.2_RNA|AQPEP_uc003krq.2_RNA|AQPEP_uc003krr.2_RNA|AQPEP_uc003krs.2_RNA	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	580	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						CCAGTGATCACTTTAAATGTG	0.393													98	41	---	---	---	---	PASS	T	115336855	T	T	115336855	3	4	136	1	0	0	0	0	1	0	0	0	834	565	20	3	1777	3	AQPEP	5	115336855	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	32519236	115336855	65578405	108	48584										
RAD50	10111	broad.mit.edu	37	chr5	131953812	131953812	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	caatataaaaagaaatcataAtttggcattagggcgacaga	8	5	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:131953812A>G	uc003kxi.2	+	21	3602	c.3215A>G	c.(3214-3216)AAT>AGT	p.N1072S	RAD50_uc003kxh.2_Missense_Mutation_p.N933S	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	1072	Potential.				DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGAAATCATAATTTGGCATTA	0.313								Homologous_recombination					152	54	---	---	---	---	PASS	G	131953812	G	G	131953812	3	3	136	1	0	0	0	0	1	0	0	0	12984	101	4	5	3297	5	RAD50	5	131953812	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	16616957	131953812	48961448	109	48585										
MYOT	9499	broad.mit.edu	37	chr5	137206683	137206683	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atagcagtaaaatcccttccGctatggattccaagtaagtg	8	9	0	0	rs114194130	byFrequency	TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:137206683G>T	uc011cye.1	+	2	360	c.343G>T	c.(343-345)GCT>TCT	p.A115S	MYOT_uc003lbv.2_Missense_Mutation_p.A115S|MYOT_uc011cyg.1_Intron|MYOT_uc011cyh.1_5'UTR	NM_001135940	NP_001129412	Q9UBF9	MYOTI_HUMAN	myotilin isoform b	115	Necessary for interaction with ACTN1.				muscle contraction	actin cytoskeleton|sarcolemma|sarcomere	actin binding|structural constituent of muscle			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			AATCCCTTCCGCTATGGATTC	0.458													30	5	---	---	---	---	PASS	T	137206683	T	T	137206683	3	4	136	1	0	0	0	0	1	0	0	0	10094	1087	38	1	345	1	MYOT	5	137206683	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	5252871	137206683	43708577	110	48586										
FAM53C	51307	broad.mit.edu	37	chr5	137680742	137680742	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gaggcactgccgctcactctCagtgcccgtggacctgtctc	11	16	3	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr5:137680742C>T	uc003lcv.2	+	4	835	c.365C>T	c.(364-366)TCA>TTA	p.S122L	FAM53C_uc003lcw.2_Missense_Mutation_p.S122L|FAM53C_uc011cyq.1_Intron|FAM53C_uc011cyr.1_Intron	NM_001135647	NP_001129119	Q9NYF3	FA53C_HUMAN	hypothetical protein LOC51307	122										ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CGCTCACTCTCAGTGCCCGTG	0.667													43	12	---	---	---	---	PASS	T	137680742	T	T	137680742	3	4	136	1	0	0	0	0	1	0	0	0	5581	838	29	2	375	2	FAM53C	5	137680742	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	474059	137680742	43234518	111	48587										
KIAA0319	9856	broad.mit.edu	37	chr6	24576630	24576630	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtttgccctcactcccaggaCccagggaccactcatagagg	10	15	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:24576630C>G	uc011djo.1	-	10	1937	c.1700G>C	c.(1699-1701)GGT>GCT	p.G567A	KIAA0319_uc011djp.1_Missense_Mutation_p.G522A|KIAA0319_uc003neh.1_Missense_Mutation_p.G567A|KIAA0319_uc011djq.1_Missense_Mutation_p.G558A|KIAA0319_uc011djr.1_Missense_Mutation_p.G567A|KIAA0319_uc010jpt.1_5'UTR	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	567	PKD 3.|Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						ACTCCCAGGACCCAGGGACCA	0.443													70	202	---	---	---	---	PASS	G	24576630	G	G	24576630	3	3	136	1	0	0	0	0	1	0	0	0	8168	507	18	4	1566	4	KIAA0319	6	24576630	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08		24576630	146538437	112	48588										
BTN2A1	11120	broad.mit.edu	37	chr6	26468571	26468571	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcctggactatgaagctggaGatgtctccttctacaacatg	9	10	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:26468571G>A	uc003nib.1	+	8	1590	c.1378G>A	c.(1378-1380)GAT>AAT	p.D460N	BTN2A1_uc003nic.1_3'UTR|BTN2A1_uc003nid.1_Missense_Mutation_p.D308N|BTN2A1_uc011dko.1_Missense_Mutation_p.D399N|BTN2A1_uc010jqk.1_Missense_Mutation_p.D220N	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1	460	Cytoplasmic (Potential).|B30.2/SPRY.				lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						TGAAGCTGGAGATGTCTCCTT	0.552													51	83	---	---	---	---	PASS	A	26468571	A	A	26468571	3	1	136	1	0	0	0	0	1	0	0	0	1560	942	33	2	1431	2	BTN2A1	6	26468571	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1891941	26468571	144646496	113	48589										
CFB	629	broad.mit.edu	37	chr6	31914294	31914294	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttctggcttctacccgtaccCtgtgcagacacgtacctgca	8	15	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:31914294C>G	uc003nyj.3	+	2	487	c.209C>G	c.(208-210)CCT>CGT	p.P70R	CFB_uc011dor.1_Missense_Mutation_p.P572R|CFB_uc011dos.1_Missense_Mutation_p.P70R|CFB_uc003nyi.2_Missense_Mutation_p.P70R	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	70	Sushi 1.				complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						TACCCGTACCCTGTGCAGACA	0.572													41	51	---	---	---	---	PASS	G	31914294	G	G	31914294	3	3	136	1	0	0	0	0	1	0	0	0	3278	681	24	4	215	4	CFB	6	31914294	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	5445723	31914294	139200773	114	48590										
TNXB	7148	broad.mit.edu	37	chr6	32039771	32039771	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	taggggcccatctcacccgtCtttgcctccacagagactgg	10	15	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:32039771C>G	uc003nzl.2	-	13	5188	c.4986G>C	c.(4984-4986)AAG>AAC	p.K1662N		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1744					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TCTCACCCGTCTTTGCCTCCA	0.582													10	21	---	---	---	---	PASS	G	32039771	G	G	32039771	3	3	136	1	0	0	0	0	1	0	0	0	16343	912	32	2	9855	2	TNXB	6	32039771	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	125477	32039771	139075296	115	48591										
C6orf10	10665	broad.mit.edu	37	chr6	32261409	32261409	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gttacttgggcttcttgtccTtttgggacacctgactcact	9	11	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:32261409T>C	uc011dpy.1	-	12	1214	c.1041A>G	c.(1039-1041)AAA>AAG	p.K347K	C6orf10_uc011dpx.1_Silent_p.K129K	NM_006781	NP_006772	Q5SRN2	CF010_HUMAN	chromosome 6 open reading frame 10	347						integral to membrane				skin(1)	1						CTTCTTGTCCTTTTGGGACAC	0.478													3	178	---	---	---	---	PASS	C	32261409	C	C	32261409	2	2	136	1	0	0	0	0	0	0	0	1	2317	1606	56	5		5	C6orf10	6	32261409	Silent	SNP	T	TCGA-63-5128-01A-01D-1441-08	221638	32261409	138853658	116	48592										
HLA-DQA2	3118	broad.mit.edu	37	chr6	32713677	32713677	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cctgtggtcaacatcacctgGctgagcaatgggcactcagt	11	12	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:32713677G>C	uc003obx.2	+	3	499	c.441G>C	c.(439-441)TGG>TGC	p.W147C		NM_020056	NP_064440	P01906	DQA2_HUMAN	major histocompatibility complex, class II, DQ	147	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)	ACATCACCTGGCTGAGCAATG	0.502													75	185	---	---	---	---	PASS	C	32713677	C	C	32713677	3	2	136	1	0	0	0	0	1	0	0	0	7205	1212	42	4	451	4	HLA-DQA2	6	32713677	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	452268	32713677	138401390	117	48593										
TAP1	6890	broad.mit.edu	37	chr6	32820923	32820923	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttccagagccgccctgaccgCcgggcacccagaggctcccg	12	19	0	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:32820923C>G	uc003ocg.2	-	1	826	c.671G>C	c.(670-672)GGC>GCC	p.G224A	TAP1_uc011dqi.1_5'Flank|PSMB9_uc011dqj.1_5'Flank|PSMB9_uc003sga.2_5'Flank	NM_000593	NP_000584	Q03518	TAP1_HUMAN	transporter 1, ATP-binding cassette, sub-family	224	Cytoplasmic (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|cytosol to ER transport|intracellular transport of viral proteins in host cell|positive regulation of T cell mediated cytotoxicity	cytosol|plasma membrane|TAP complex	ADP binding|ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding			skin(1)	1						GCCCTGACCGCCGGGCACCCA	0.672													11	18	---	---	---	---	PASS	G	32820923	G	G	32820923	3	3	136	1	0	0	0	0	1	0	0	0	15547	739	26	4	1799	4	TAP1	6	32820923	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	107246	32820923	138294144	118	48594										
ZBTB9	221504	broad.mit.edu	37	chr6	33424010	33424010	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gaagctaggggggacaccccCtgcagatggaaaacgctttg	14	10	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:33424010C>T	uc003oeq.2	+	2	1401	c.1133C>T	c.(1132-1134)CCT>CTT	p.P378L		NM_152735	NP_689948	Q96C00	ZBTB9_HUMAN	zinc finger and BTB domain containing 9	378	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGGACACCCCCTGCAGATGGA	0.592													21	45	---	---	---	---	PASS	T	33424010	T	T	33424010	3	4	136	1	0	0	0	0	1	0	0	0	17555	681	24	3	1135	3	ZBTB9	6	33424010	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	603087	33424010	137691057	119	48595										
GRM4	2914	broad.mit.edu	37	chr6	34004042	34004042	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cccgaggccttgacgatgggCgtgtcgttgtagcgcacaaa	14	11	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:34004042C>A	uc003oir.3	-	8	2015	c.1845G>T	c.(1843-1845)ACG>ACT	p.T615T	GRM4_uc011dsn.1_Silent_p.T568T|GRM4_uc010jvh.2_Silent_p.T615T|GRM4_uc010jvi.2_Silent_p.T307T|GRM4_uc003oio.2_Silent_p.T307T|GRM4_uc003oip.2_RNA|GRM4_uc011dsl.1_Silent_p.T475T|GRM4_uc003oiq.2_Silent_p.T482T|GRM4_uc011dsm.1_Silent_p.T446T	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	615	Cytoplasmic (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	TGACGATGGGCGTGTCGTTGT	0.637													13	34	---	---	---	---	PASS	A	34004042	A	A	34004042	2	1	136	1	0	0	0	0	0	0	0	1	6799	755	27	1		1	GRM4	6	34004042	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	580032	34004042	137111025	120	48596										
ANKS1A	23294	broad.mit.edu	37	chr6	34949507	34949507	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cctgcattgtgcagcgcagtAtggccacacagaggtggtga	14	10	0	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:34949507A>G	uc003ojx.3	+	4	618	c.476A>G	c.(475-477)TAT>TGT	p.Y159C	ANKS1A_uc011dss.1_Missense_Mutation_p.Y159C|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR|ANKS1A_uc010jvr.1_RNA	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	159	ANK 3.					cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						GCAGCGCAGTATGGCCACACA	0.537													23	47	---	---	---	---	PASS	G	34949507	G	G	34949507	3	3	136	1	0	0	0	0	1	0	0	0	688	449	16	5	490	5	ANKS1A	6	34949507	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	945465	34949507	136165560	121	48597										
TRERF1	55809	broad.mit.edu	37	chr6	42196313	42196313	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cgtggctgccatctcagctgCaaaagccgccttctgagcct	10	15	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:42196313C>T	uc003osd.2	-	18	3936	c.3373G>A	c.(3373-3375)GCA>ACA	p.A1125T	TRERF1_uc011duq.1_Missense_Mutation_p.A1042T|TRERF1_uc003osb.2_Missense_Mutation_p.A893T|TRERF1_uc003osc.2_Missense_Mutation_p.A881T|TRERF1_uc003ose.2_Missense_Mutation_p.A1145T	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	1125	Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			ATCTCAGCTGCAAAAGCCGCC	0.552													154	300	---	---	---	---	PASS	T	42196313	T	T	42196313	3	4	136	1	0	0	0	0	1	0	0	0	16472	710	25	3	233	3	TRERF1	6	42196313	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	7246806	42196313	128918754	122	48598										
GPR111	222611	broad.mit.edu	37	chr6	47649007	47649007	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttcttcattggcagagttacAgcaccatagccaaccacatt	6	12	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:47649007A>G	uc010jzj.1	+	6	713	c.712A>G	c.(712-714)AGC>GGC	p.S238G	GPR111_uc010jzk.1_Missense_Mutation_p.S170G|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	238	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						GCAGAGTTACAGCACCATAGC	0.393													26	73	---	---	---	---	PASS	G	47649007	G	G	47649007	3	3	136	1	0	0	0	0	1	0	0	0	6628	188	7	5	526	5	GPR111	6	47649007	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	5452694	47649007	123466060	123	48599										
MCM3	4172	broad.mit.edu	37	chr6	52143602	52143602	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctcagcagagaaagagggctGagcatccttgctcatctgct	11	11	3	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:52143602G>A	uc003pan.1	-	6	927	c.817C>T	c.(817-819)CAG>TAG	p.Q273*	MCM3_uc011dwu.1_Nonsense_Mutation_p.Q227*	NM_002388	NP_002379	P25205	MCM3_HUMAN	minichromosome maintenance complex component 3	273					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	alpha DNA polymerase:primase complex|centrosome|MCM complex|perinuclear region of cytoplasm	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)|lung(1)|skin(1)	3	Lung NSC(77;0.0931)					AAAGAGGGCTGAGCATCCTTG	0.438													29	47	---	---	---	---	PASS	A	52143602	A	A	52143602	4	1	136	1	0	0	0	0	0	1	0	0	9387	1299	45	2	1657	2	MCM3	6	52143602	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	4494595	52143602	118971465	124	48600										
GFRAL	389400	broad.mit.edu	37	chr6	55216071	55216071	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gattcaaagggatgtggtccTgtttggaagtggcagaggca	16	5	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:55216071T>A	uc003pcm.1	+	5	477	c.391T>A	c.(391-393)TGT>AGT	p.C131S		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	131	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			GATGTGGTCCTGTTTGGAAGT	0.443													117	101	---	---	---	---	PASS	A	55216071	A	A	55216071	3	1	136	1	0	0	0	0	1	0	0	0	6351	1580	55	5	409	5	GFRAL	6	55216071	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	3072469	55216071	115898996	125	48601										
KIAA1009	22832	broad.mit.edu	37	chr6	84913806	84913806	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctcatcttcaaaatcatcacTgtaattttctgaagaaagta	4	8	6	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:84913806T>C	uc010kbp.2	-	7	677	c.580A>G	c.(580-582)AGT>GGT	p.S194G	KIAA1009_uc003pkj.3_Missense_Mutation_p.S118G|KIAA1009_uc003pkk.2_Missense_Mutation_p.S194G	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	194					cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		AAATCATCACTGTAATTTTCT	0.338													28	86	---	---	---	---	PASS	C	84913806	C	C	84913806	3	2	136	1	0	0	0	0	1	0	0	0	8203	1580	55	5	3715	5	KIAA1009	6	84913806	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	29697735	84913806	86201261	126	48602										
MDN1	23195	broad.mit.edu	37	chr6	90411637	90411637	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcttacttgtcttcataattCatcagaagtcgggggatctg	9	8	6	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:90411637C>T	uc003pnn.1	-	54	8408	c.8292G>A	c.(8290-8292)ATG>ATA	p.M2764I		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2764					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)		CTTCATAATTCATCAGAAGTC	0.413													27	50	---	---	---	---	PASS	T	90411637	T	T	90411637	3	4	136	1	0	0	0	0	1	0	0	0	9415	826	29	2	8694	2	MDN1	6	90411637	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	5497831	90411637	80703430	127	48603										
ASCC3	10973	broad.mit.edu	37	chr6	101054691	101054691	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cttaataattactaaatgagCtggaaagtttacaccccagg	7	8	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:101054691C>A	uc003pqk.2	-	32	5298	c.4969G>T	c.(4969-4971)GCT>TCT	p.A1657S		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1657	Helicase C-terminal 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		ACTAAATGAGCTGGAAAGTTT	0.289													29	59	---	---	---	---	PASS	A	101054691	A	A	101054691	3	1	136	1	0	0	0	0	1	0	0	0	1033	797	28	3	1683	3	ASCC3	6	101054691	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	10643054	101054691	70060376	128	48604										
C6orf186	728464	broad.mit.edu	37	chr6	110620282	110620282	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgtgagctgacttgacactaGgatcaaaacgatgcacttca	9	9	2	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:110620282G>A	uc010kdu.1	-	4	629	c.629C>T	c.(628-630)CCT>CTT	p.P210L	C6orf186_uc003pub.2_Missense_Mutation_p.P13L	NM_001123364	NP_001116836	Q5JXM2	CF186_HUMAN	chromosome 6 open reading frame 186 precursor	210						extracellular region					0						CTTGACACTAGGATCAAAACG	0.473													36	95	---	---	---	---	PASS	A	110620282	A	A	110620282	3	1	136	1	0	0	0	0	1	0	0	0	2347	1000	35	3	479	3	C6orf186	6	110620282	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	9565591	110620282	60494785	129	48605										
LAMA4	3910	broad.mit.edu	37	chr6	112462046	112462046	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gagtcatctcccgaaaattcCccctttttaatgaacttttc	4	12	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:112462046C>A	uc003pvu.2	-	22	3201	c.2892G>T	c.(2890-2892)GGG>GGT	p.G964G	LAMA4_uc003pvv.2_Silent_p.G957G|LAMA4_uc003pvt.2_Silent_p.G957G	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	964	Laminin G-like 1.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding	p.S964S(1)		ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CCGAAAATTCCCCCTTTTTAA	0.438													40	66	---	---	---	---	PASS	A	112462046	A	A	112462046	2	1	136	1	0	0	0	0	0	0	0	1	8608	610	22	3		3	LAMA4	6	112462046	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	1841764	112462046	58653021	130	48606										
THEMIS	387357	broad.mit.edu	37	chr6	128134125	128134125	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggtgtttcggagggcgaggtGggggatgtgaggctgagctt	22	4	0	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:128134125G>T	uc003qbi.2	-	5	1980	c.1661C>A	c.(1660-1662)CCA>CAA	p.P554Q	THEMIS_uc010kfa.2_Missense_Mutation_p.P457Q|THEMIS_uc011ebt.1_Missense_Mutation_p.P554Q|THEMIS_uc010kfb.2_Missense_Mutation_p.P519Q	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	554					negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						AGGGCGAGGTGGGGGATGTGA	0.493													58	91	---	---	---	---	PASS	T	128134125	T	T	128134125	3	4	136	1	0	0	0	0	1	0	0	0	15857	1348	47	3	397	3	THEMIS	6	128134125	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	15672079	128134125	42980942	131	48607										
LAMA2	3908	broad.mit.edu	37	chr6	129635857	129635857	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctggcaaattcggactcgatGccaagaatccacttggctgc	10	12	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:129635857G>T	uc003qbn.2	+	24	3574	c.3469G>T	c.(3469-3471)GCC>TCC	p.A1157S	LAMA2_uc003qbo.2_Missense_Mutation_p.A1157S	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1157	Laminin EGF-like 13.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		CGGACTCGATGCCAAGAATCC	0.522													29	44	---	---	---	---	PASS	T	129635857	T	T	129635857	3	4	136	1	0	0	0	0	1	0	0	0	8606	1319	46	3	3563	3	LAMA2	6	129635857	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1501732	129635857	41479210	132	48608										
EPB41L2	2037	broad.mit.edu	37	chr6	131216113	131216113	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atgtcttggcttacctctgcCggtctgactttaatgtagaa	9	9	3	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:131216113C>T	uc003qch.2	-	9	1565	c.1383G>A	c.(1381-1383)CCG>CCA	p.P461P	EPB41L2_uc003qcg.1_Silent_p.P461P|EPB41L2_uc011eby.1_Silent_p.P461P|EPB41L2_uc003qci.2_Silent_p.P461P|EPB41L2_uc010kfk.2_Silent_p.P461P|EPB41L2_uc010kfl.1_Silent_p.P461P	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	461	FERM.				cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		TTACCTCTGCCGGTCTGACTT	0.313													16	52	---	---	---	---	PASS	T	131216113	T	T	131216113	2	4	136	1	0	0	0	0	0	0	0	1	5153	639	23	1		1	EPB41L2	6	131216113	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	1580256	131216113	39898954	133	48609										
PPIL4	85313	broad.mit.edu	37	chr6	149854712	149854712	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctgctcctattcgaccactcTgttaagacagaagttactca	6	12	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:149854712T>A	uc003qmo.1	-	7	592	c.562_splice	c.e7-1	p.S188_splice	PPIL4_uc010kic.2_Intron|PPIL4_uc003qmp.1_Splice_Site_p.S188_splice	NM_139126	NP_624311	Q8WUA2	PPIL4_HUMAN	peptidylprolyl isomerase-like 4						protein folding	nucleus	nucleotide binding|peptidyl-prolyl cis-trans isomerase activity|RNA binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.11e-11)|GBM - Glioblastoma multiforme(68;0.0885)		TCGACCACTCTGTTAAGACAG	0.313													13	31	---	---	---	---	PASS	A	149854712	A	A	149854712	5	1	136	1	0	0	0	0	0	0	1	0	12329	1594	55	5	946	5	PPIL4	6	149854712	Splice_Site	SNP	T	TCGA-63-5128-01A-01D-1441-08	18638599	149854712	21260355	134	48610										
IYD	389434	broad.mit.edu	37	chr6	150715308	150715308	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcaaacaagtacatggtttcGccgcaaatggcaagaaaaaa	8	8	1	1	rs146905706	byFrequency	TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr6:150715308G>T	uc003qnu.1	+	4	744	c.604G>T	c.(604-606)GCC>TCC	p.A202S	IYD_uc003qnv.1_Missense_Mutation_p.A202S|IYD_uc003qnw.1_RNA|IYD_uc003qnx.1_Missense_Mutation_p.A202S|IYD_uc010kik.1_Missense_Mutation_p.A120S	NM_203395	NP_981932	Q6PHW0	IYD1_HUMAN	iodotyrosine dehalogenase 1 isoform 2	202	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process	integral to membrane|plasma membrane				ovary(2)	2		Ovarian(120;0.028)	BRCA - Breast invasive adenocarcinoma(37;0.215)	OV - Ovarian serous cystadenocarcinoma(155;4.16e-12)		ACATGGTTTCGCCGCAAATGG	0.418													49	65	---	---	---	---	PASS	T	150715308	T	T	150715308	3	4	136	1	0	0	0	0	1	0	0	0	7932	1087	38	1	618	1	IYD	6	150715308	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	860596	150715308	20399759	135	48611										
ZNF12	7559	broad.mit.edu	37	chr7	6737029	6737029	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atggctcttctccttgctccAacttgctgataacatccggt	7	13	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:6737029A>C	uc003sqt.1	-	4	733	c.179T>G	c.(178-180)TTG>TGG	p.L60W	ZNF12_uc011jxa.1_5'UTR|ZNF12_uc003sqs.1_Missense_Mutation_p.L60W	NM_016265	NP_057349	P17014	ZNF12_HUMAN	zinc finger protein 12 isoform a	60	KRAB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0231)		TCCTTGCTCCAACTTGCTGAT	0.473													7	8	---	---	---	---	PASS	C	6737029	C	C	6737029	3	2	136	1	0	0	0	0	1	0	0	0	17715	131	5	5	1922	5	ZNF12	7	6737029	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08		6737029	152401634	136	48612										
ETV1	2115	broad.mit.edu	37	chr7	13950914	13950914	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cttcttgcctcatataaatgGagtggcagctaggcacttct	9	10	3	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:13950914G>A	uc011jxq.1	-	10	1560	c.821C>T	c.(820-822)TCC>TTC	p.S274F	ETV1_uc011jxn.1_Missense_Mutation_p.S234F|ETV1_uc011jxo.1_Missense_Mutation_p.S171F|ETV1_uc011jxp.1_Missense_Mutation_p.S216F|ETV1_uc003ssw.3_Intron|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Missense_Mutation_p.S256F|ETV1_uc011jxs.1_Missense_Mutation_p.S256F|ETV1_uc010ktv.2_Missense_Mutation_p.S143F	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	274				Missing (in Ref. 5; AAC62435).	transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						CATATAAATGGAGTGGCAGCT	0.448			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								15	41	---	---	---	---	PASS	A	13950914	A	A	13950914	3	1	136	1	0	0	0	0	1	0	0	0	5277	1174	41	2	632	2	ETV1	7	13950914	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	7213885	13950914	145187749	137	48613										
MEOX2	4223	broad.mit.edu	37	chr7	15652196	15652196	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cttgctgtccaccctttaccCtcttccacttcatccgcctg	4	19	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:15652196C>A	uc003stc.2	-	3	1012	c.731G>T	c.(730-732)AGG>ATG	p.R244M	MEOX2_uc011jxw.1_Missense_Mutation_p.R244M	NM_005924	NP_005915	P50222	MEOX2_HUMAN	mesenchyme homeobox 2	244	Homeobox.				blood circulation|multicellular organismal development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.0822)		ACCCTTTACCCTCTTCCACTT	0.448													129	82	---	---	---	---	PASS	A	15652196	A	A	15652196	3	1	136	1	0	0	0	0	1	0	0	0	9474	681	24	3	187	3	MEOX2	7	15652196	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	1701282	15652196	143486467	138	48614										
DNAH11	8701	broad.mit.edu	37	chr7	21932154	21932154	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctccagaaagcccggcactgTatggcctccacccaaatgct	8	16	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:21932154T>A	uc003svc.2	+	78	12671	c.12640T>A	c.(12640-12642)TAT>AAT	p.Y4214N		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4214					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CCCGGCACTGTATGGCCTCCA	0.517									Kartagener_syndrome				65	175	---	---	---	---	PASS	A	21932154	A	A	21932154	3	1	136	1	0	0	0	0	1	0	0	0	4599	1638	57	5	12947	5	DNAH11	7	21932154	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	6279958	21932154	137206509	139	48615										
C7orf10	79783	broad.mit.edu	37	chr7	40488957	40488957	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cagtttgccaccgtctgcaaGgtaatctataattattggga	9	8	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:40488957G>T	uc003thn.1	+	10	933	c.888G>T	c.(886-888)AAG>AAT	p.K296N	C7orf10_uc003thm.1_Missense_Mutation_p.K266N|C7orf10_uc003tho.1_Missense_Mutation_p.K248N	NM_024728	NP_079004	Q9HAC7	CG010_HUMAN	dermal papilla derived protein 13	303							transferase activity	p.Q296H(1)		ovary(2)	2						CCGTCTGCAAGGTAATCTATA	0.403													8	70	---	---	---	---	PASS	T	40488957	T	T	40488957	3	4	136	1	0	0	0	0	1	0	0	0	2376	1014	35	3	836	3	C7orf10	7	40488957	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	18556803	40488957	118649706	140	48616										
ABCA13	154664	broad.mit.edu	37	chr7	48315262	48315262	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgttcaaaatattatttcctCaaatttggaaaggacagtac	6	6	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:48315262C>T	uc003toq.2	+	17	6024	c.5999C>T	c.(5998-6000)TCA>TTA	p.S2000L	ABCA13_uc010kyr.2_Missense_Mutation_p.S1503L	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2000					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						ATTATTTCCTCAAATTTGGAA	0.323													4	30	---	---	---	---	PASS	T	48315262	T	T	48315262	3	4	136	1	0	0	0	0	1	0	0	0	31	838	29	2	5894	2	ABCA13	7	48315262	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	7826305	48315262	110823401	141	48617										
ZNF117	51351	broad.mit.edu	37	chr7	64439246	64439246	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	taacttatgttcagtaagctTtgaggcttggttaaaagctc	9	6	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:64439246T>A	uc003ttr.2	-	4	1988	c.703A>T	c.(703-705)AAG>TAG	p.K235*		NM_015852	NP_056936	Q03924	ZN117_HUMAN	zinc finger protein 117	235	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Lung NSC(55;0.0295)|all_lung(88;0.0691)				TCAGTAAGCTTTGAGGCTTGG	0.363													74	120	---	---	---	---	PASS	A	64439246	A	A	64439246	4	1	136	1	0	0	0	0	0	1	0	0	17714	1850	64	5	752	5	ZNF117	7	64439246	Nonsense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	16123984	64439246	94699417	142	48618										
EPO	2056	broad.mit.edu	37	chr7	100320735	100320735	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aagctgtacacaggggaggcCtgcaggacaggggacagatg	17	8	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:100320735C>A	uc003uwi.2	+	5	742	c.561C>A	c.(559-561)GCC>GCA	p.A187A	EPO_uc011kkc.1_Silent_p.A186A	NM_000799	NP_000790	P01588	EPO_HUMAN	erythropoietin precursor	187					blood circulation|cellular hyperosmotic response|erythrocyte maturation|negative regulation of apoptosis|negative regulation of ion transmembrane transporter activity|negative regulation of sodium ion transport|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of Stat5 protein|signal transduction	extracellular space	erythropoietin receptor binding|eukaryotic cell surface binding|hormone activity			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Darbepoetin alfa(DB00012)|Epoetin alfa(DB00016)	CAGGGGAGGCCTGCAGGACAG	0.577													94	132	---	---	---	---	PASS	A	100320735	A	A	100320735	2	1	136	1	0	0	0	0	0	0	0	1	5188	668	24	3		3	EPO	7	100320735	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	35881489	100320735	58817928	143	48619										
MUC17	140453	broad.mit.edu	37	chr7	100677408	100677408	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	caattctactgaagcccgttCgtctcctacaacttctgaag	6	13	3	2	rs139093882		TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:100677408C>A	uc003uxp.1	+	3	2764	c.2711C>A	c.(2710-2712)TCG>TAG	p.S904*	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	904	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|13.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GAAGCCCGTTCGTCTCCTACA	0.532													209	321	---	---	---	---	PASS	A	100677408	A	A	100677408	4	1	136	1	0	0	0	0	0	1	0	0	9974	893	31	2	2721	2	MUC17	7	100677408	Nonsense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	356673	100677408	58461255	144	48620										
RELN	5649	broad.mit.edu	37	chr7	103159907	103159907	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ccatacatgaagtaaaattgGatgaactcagcattagtgag	9	6	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:103159907G>A	uc003vca.2	-	49	7885	c.7725C>T	c.(7723-7725)ATC>ATT	p.I2575I	RELN_uc010liz.2_Silent_p.I2575I	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2575					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		AGTAAAATTGGATGAACTCAG	0.383													56	92	---	---	---	---	PASS	A	103159907	A	A	103159907	2	1	136	1	0	0	0	0	0	0	0	1	13220	1164	41	2		2	RELN	7	103159907	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	2482499	103159907	55978756	145	48621										
RELN	5649	broad.mit.edu	37	chr7	103293015	103293015	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tacctgttaccaggctgatgCgttccacatcccagattgat	8	12	0	3	rs138532222		TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:103293015C>A	uc003vca.2	-	14	1906	c.1746G>T	c.(1744-1746)ACG>ACT	p.T582T	RELN_uc010liz.2_Silent_p.T582T	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	582					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CAGGCTGATGCGTTCCACATC	0.403													49	87	---	---	---	---	PASS	A	103293015	A	A	103293015	2	1	136	1	0	0	0	0	0	0	0	1	13220	755	27	1		1	RELN	7	103293015	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	133108	103293015	55845648	146	48622										
TAS2R16	50833	broad.mit.edu	37	chr7	122635423	122635423	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttaaccagaatgtaaggataTtaaaaaattcccaggtgatt	7	5	0	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:122635423T>C	uc003vkl.1	-	1	332	c.266A>G	c.(265-267)AAT>AGT	p.N89S		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	89	Helical; Name=3; (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						TGTAAGGATATTAAAAAATTC	0.383													48	51	---	---	---	---	PASS	C	122635423	C	C	122635423	3	2	136	1	0	0	0	0	1	0	0	0	15566	1493	52	5	613	5	TAS2R16	7	122635423	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	19342408	122635423	36503240	147	48623										
IQUB	154865	broad.mit.edu	37	chr7	123136930	123136930	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tacgaagattttagcatgccAttgcctgtagtaagtctgta	9	7	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:123136930A>G	uc003vkn.2	-	7	1631	c.1054T>C	c.(1054-1056)TGG>CGG	p.W352R	IQUB_uc003vko.2_Missense_Mutation_p.W352R|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Missense_Mutation_p.W352R	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	352	IQ.									ovary(3)|large_intestine(1)	4						TTAGCATGCCATTGCCTGTAG	0.338													62	80	---	---	---	---	PASS	G	123136930	G	G	123136930	3	3	136	1	0	0	0	0	1	0	0	0	7820	217	8	5	1349	5	IQUB	7	123136930	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	501507	123136930	36001733	148	48624										
HYAL4	23553	broad.mit.edu	37	chr7	123517097	123517097	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcagggatatgaaggagctgAttgcagagaaataaagacgg	14	4	1	4			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:123517097A>C	uc003vlc.2	+	5	1972	c.1334A>C	c.(1333-1335)GAT>GCT	p.D445A	HYAL4_uc011knz.1_3'UTR	NM_012269	NP_036401	Q2M3T9	HYAL4_HUMAN	hyaluronoglucosaminidase 4	445	Extracellular (Potential).				fusion of sperm to egg plasma membrane|glycosaminoglycan catabolic process	integral to membrane	hyalurononglucosaminidase activity			skin(1)	1						GAAGGAGCTGATTGCAGAGAA	0.453													80	124	---	---	---	---	PASS	C	123517097	C	C	123517097	3	2	136	1	0	0	0	0	1	0	0	0	7466	333	12	5	1344	5	HYAL4	7	123517097	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	380167	123517097	35621566	149	48625										
SND1	27044	broad.mit.edu	37	chr7	127338939	127338939	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcctcctcagataccaatggGgaaaacattgcagaatcact	7	11	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:127338939G>T	uc003vmi.2	+	4	586	c.360G>T	c.(358-360)GGG>GGT	p.G120G		NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	120	TNase-like 1.				gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						ATACCAATGGGGAAAACATTG	0.468													31	48	---	---	---	---	PASS	T	127338939	T	T	127338939	2	4	136	1	0	0	0	0	0	0	0	1	14844	1219	43	3		3	SND1	7	127338939	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	3821842	127338939	31799724	150	48626										
DGKI	9162	broad.mit.edu	37	chr7	137082134	137082134	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aacactcacgtttcactgtcTgccatatccaataactcgga	5	13	3	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:137082134T>A	uc003vtt.2	-	32	2971	c.2970A>T	c.(2968-2970)GCA>GCT	p.A990A	DGKI_uc003vtu.2_Silent_p.A659A	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	990	ANK 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						TTTCACTGTCTGCCATATCCA	0.343													72	104	---	---	---	---	PASS	A	137082134	A	A	137082134	2	1	136	1	0	0	0	0	0	0	0	1	4471	1567	55	5		5	DGKI	7	137082134	Silent	SNP	T	TCGA-63-5128-01A-01D-1441-08	9743195	137082134	22056529	151	48627										
ADCK2	90956	broad.mit.edu	37	chr7	140373228	140373228	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cctcctgaggccctccgagtGccctcgcgatgccaggctct	11	18	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:140373228G>A	uc003vvy.1	+	1	276	c.98G>A	c.(97-99)TGC>TAC	p.C33Y	ADCK2_uc003vvz.2_Missense_Mutation_p.C33Y	NM_052853	NP_443085	Q7Z695	ADCK2_HUMAN	aarF domain containing kinase 2	33						integral to membrane	ATP binding|protein serine/threonine kinase activity				0	Melanoma(164;0.00956)					CCCTCCGAGTGCCCTCGCGAT	0.667													16	18	---	---	---	---	PASS	A	140373228	A	A	140373228	3	1	136	1	0	0	0	0	1	0	0	0	289	1319	46	3	100	3	ADCK2	7	140373228	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	3291094	140373228	18765435	152	48628										
BRAF	673	broad.mit.edu	37	chr7	140449164	140449164	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aacaattccaaatgcatataCatctgactgaaagctgtatg	6	8	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:140449164C>T	uc003vwc.3	-	16	1976	c.1915G>A	c.(1915-1917)GTA>ATA	p.V639I		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	639	Protein kinase.				activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	AATGCATATACATCTGACTGA	0.343		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				61	76	---	---	---	---	PASS	T	140449164	T	T	140449164	3	4	136	1	0	0	0	0	1	0	0	0	1496	478	17	3	397	3	BRAF	7	140449164	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	75936	140449164	18689499	153	48629										
MLL3	58508	broad.mit.edu	37	chr7	151962224	151962224	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ccatgatagtgctgaccacaAgtagtacaaaagaactgatc	8	9	0	4			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr7:151962224A>T	uc003wla.2	-	8	1302	c.1083T>A	c.(1081-1083)ACT>ACA	p.T361T		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	361	PHD-type 1.|RING-type.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GCTGACCACAAGTAGTACAAA	0.448			N		medulloblastoma								33	533	---	---	---	---	PASS	T	151962224	T	T	151962224	2	4	136	1	0	0	0	0	0	0	0	1	9622	59	3	5		5	MLL3	7	151962224	Silent	SNP	A	TCGA-63-5128-01A-01D-1441-08	11513060	151962224	7176439	154	48630										
DLGAP2	9228	broad.mit.edu	37	chr8	1626444	1626444	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aagctgacctggagctggagGggttcccaggccacatcacc	13	13	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:1626444G>T	uc003wpl.2	+	9	2210	c.2113G>T	c.(2113-2115)GGG>TGG	p.G705W	DLGAP2_uc003wpm.2_Missense_Mutation_p.G691W	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	784					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		GGAGCTGGAGGGGTTCCCAGG	0.607													39	38	---	---	---	---	PASS	T	1626444	T	T	1626444	3	4	136	1	0	0	0	0	1	0	0	0	4560	1232	43	3	2143	3	DLGAP2	8	1626444	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08		1626444	144737578	155	48631										
SGK223	157285	broad.mit.edu	37	chr8	8176274	8176298	+	Frame_Shift_Del	DEL	TGCTTCTCCCGGGGCCCTTCCGGGG	-	-													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgatgatgagccggggcagcTgcttctcccggggcccttcc							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:8176274_8176298delTGCTTCTCCCGGGGCCCTTCCGGGG	uc003wsh.3	-	5	3587_3611	c.3587_3611delCCCCGGAAGGGCCCCGGGAGAAGCA	c.(3586-3612)TCCCCGGAAGGGCCCCGGGAGAAGCAGfs	p.S1196fs		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	1196_1204	Protein kinase.						ATP binding|non-membrane spanning protein tyrosine kinase activity				0						CCGGGGCAGCTGCTTCTCCCGGGGCCCTTCCGGGGAGGCGGGGCC	0.609													9	4	---	---	---	---		-	8176298	-	-	8176274	7	5	136	1	0	1	0	1	0	0	0	0	14210	1580	55	0	601	0	SGK223	8	8176274	Frame_Shift_Del	DEL	TGCTTCTCCCGGGGCCCTTCCGGGG	TCGA-63-5128-01A-01D-1441-08	6549830	8176274	138187748	156	48632										
MSR1	4481	broad.mit.edu	37	chr8	16026001	16026001	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aggtattctcttggattttgCcattcagattttctatgttg	8	6	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:16026001C>T	uc003wwz.2	-	4	794	c.596G>A	c.(595-597)GGC>GAC	p.G199D	MSR1_uc010lsu.2_Missense_Mutation_p.G217D|MSR1_uc003wxa.2_Missense_Mutation_p.G199D|MSR1_uc003wxb.2_Missense_Mutation_p.G199D|MSR1_uc011kxz.1_Intron	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	199	Potential.|Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		TTGGATTTTGCCATTCAGATT	0.413													32	48	---	---	---	---	PASS	T	16026001	T	T	16026001	3	4	136	1	0	0	0	0	1	0	0	0	9886	739	26	3	835	3	MSR1	8	16026001	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	7849727	16026001	130338021	157	48633										
EFHA2	286097	broad.mit.edu	37	chr8	16942784	16942784	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aatagctttcaacatgtttgAcactgatggcaatgagatgg	10	6	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:16942784A>T	uc003wxd.2	+	6	776	c.734A>T	c.(733-735)GAC>GTC	p.D245V		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	245	EF-hand 1.|1 (Potential).					integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		AACATGTTTGACACTGATGGC	0.318													91	80	---	---	---	---	PASS	T	16942784	T	T	16942784	3	4	136	1	0	0	0	0	1	0	0	0	4944	275	10	5	756	5	EFHA2	8	16942784	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	916783	16942784	129421238	158	48634										
TNFRSF10D	8793	broad.mit.edu	37	chr8	23002047	23002047	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ccttggatttcctgctcagaGacctgggtgggctgcaagta	13	10	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:23002047G>A	uc003xcz.1	-	7	962	c.870C>T	c.(868-870)GTC>GTT	p.V290V		NM_003840	NP_003831	Q9UBN6	TR10D_HUMAN	tumor necrosis factor receptor superfamily,	290	Cytoplasmic (Potential).				anti-apoptosis|apoptosis	integral to membrane	TRAIL binding|transmembrane receptor activity				0		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0147)|COAD - Colon adenocarcinoma(73;0.0612)		CCTGCTCAGAGACCTGGGTGG	0.577													60	54	---	---	---	---	PASS	A	23002047	A	A	23002047	2	1	136	1	0	0	0	0	0	0	0	1	16280	929	33	2		2	TNFRSF10D	8	23002047	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	6059263	23002047	123361975	159	48635										
EBF2	64641	broad.mit.edu	37	chr8	25745433	25745433	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tccccgatgatgatgaccatGgctcctcctgtggtccagcc	10	15	0	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:25745433G>A	uc003xes.1	-	9	824	c.807C>T	c.(805-807)GCC>GCT	p.A269A	PPP2R2A_uc003xek.2_Intron|EBF2_uc010lug.1_RNA	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	269	IPT/TIG.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		TGATGACCATGGCTCCTCCTG	0.478													30	90	---	---	---	---	PASS	A	25745433	A	A	25745433	2	1	136	1	0	0	0	0	0	0	0	1	4881	1335	47	3		3	EBF2	8	25745433	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	2743386	25745433	120618589	160	48636										
C8orf22	492307	broad.mit.edu	37	chr8	49986841	49986841	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtggtttaaatcgtttttccAttctgaacctgtgctttcaa	7	8	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:49986841A>T	uc003xqq.3	+	4	365	c.182A>T	c.(181-183)CAT>CTT	p.H61L		NM_001007176	NP_001007177	Q8WWR9	PDPFL_HUMAN	hypothetical protein LOC492307	61											0		all_cancers(86;0.0452)|all_epithelial(80;0.000863)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				TCGTTTTTCCATTCTGAACCT	0.368													29	69	---	---	---	---	PASS	T	49986841	T	T	49986841	3	4	136	1	0	0	0	0	1	0	0	0	2419	217	8	5	192	5	C8orf22	8	49986841	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	24241408	49986841	96377181	161	48637										
RB1CC1	9821	broad.mit.edu	37	chr8	53568566	53568566	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	acagactaaacttaattcttAcctttttgctatttgattct	3	8	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:53568566A>T	uc003xre.3	-	15	4379	c.3821_splice	c.e15+1	p.S1274_splice	RB1CC1_uc003xrf.3_Splice_Site_p.S1274_splice	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1						autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				CTTAATTCTTACCTTTTTGCT	0.284													30	29	---	---	---	---	PASS	T	53568566	T	T	53568566	5	4	136	1	0	0	0	0	0	0	1	0	13099	405	14	5	1001	5	RB1CC1	8	53568566	Splice_Site	SNP	A	TCGA-63-5128-01A-01D-1441-08	3581725	53568566	92795456	162	48638										
C8orf34	116328	broad.mit.edu	37	chr8	69728119	69728119	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctctgtttcttttgttgtgcAggttccgctgatcttcttct	8	10	5	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:69728119A>G	uc010lyz.2	+	13	1341	c.1292_splice	c.e13-2	p.R431_splice	C8orf34_uc003xyb.2_Splice_Site_p.R406_splice	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328						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)			TTTGTTGTGCAGGTTCCGCTG	0.423													39	180	---	---	---	---	PASS	G	69728119	G	G	69728119	5	3	136	1	0	0	0	0	0	0	1	0	2422	202	7	5	1261	5	C8orf34	8	69728119	Splice_Site	SNP	A	TCGA-63-5128-01A-01D-1441-08	16159553	69728119	76635903	163	48639										
ZFHX4	79776	broad.mit.edu	37	chr8	77616927	77616927	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttcatatcgcttcatccctcGggaaaccatttacagccgat	6	13	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:77616927G>T	uc003yav.2	+	2	991	c.604G>T	c.(604-606)GGG>TGG	p.G202W	ZFHX4_uc003yat.1_Missense_Mutation_p.G202W|ZFHX4_uc003yau.1_Missense_Mutation_p.G202W|ZFHX4_uc003yaw.1_Missense_Mutation_p.G202W	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	202						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTCATCCCTCGGGAAACCATT	0.488										HNSCC(33;0.089)			19	32	---	---	---	---	PASS	T	77616927	T	T	77616927	3	4	136	1	0	0	0	0	1	0	0	0	17632	1116	39	1	606	1	ZFHX4	8	77616927	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	7888808	77616927	68747095	164	48640										
CNBD1	168975	broad.mit.edu	37	chr8	88365891	88365891	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctcaaaaacttgtttatatgGggaaacttaaggagaaggag	11	4	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:88365891G>A	uc003ydy.2	+	10	1228	c.1180G>A	c.(1180-1182)GGG>AGG	p.G394R		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	394	cNMP.									ovary(3)	3						TGTTTATATGGGGAAACTTAA	0.323													35	69	---	---	---	---	PASS	A	88365891	A	A	88365891	3	1	136	1	0	0	0	0	1	0	0	0	3591	1232	43	3	1218	3	CNBD1	8	88365891	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	10748964	88365891	57998131	165	48641										
PDP1	54704	broad.mit.edu	37	chr8	94935592	94935592	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtggttaggattgtgggtgaGtacctaactggcatgcatca	14	6	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:94935592G>T	uc003yge.2	+	2	1574	c.1305G>T	c.(1303-1305)GAG>GAT	p.E435D	PDP1_uc003ygf.2_Missense_Mutation_p.E460D|PDP1_uc010max.2_Missense_Mutation_p.E460D|PDP1_uc011lgm.1_Missense_Mutation_p.E435D|PDP1_uc011lgn.1_Missense_Mutation_p.E494D	NM_018444	NP_060914	Q9P0J1	PDP1_HUMAN	pyruvate dehyrogenase phosphatase catalytic	435					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						TTGTGGGTGAGTACCTAACTG	0.483													43	68	---	---	---	---	PASS	T	94935592	T	T	94935592	3	4	136	1	0	0	0	0	1	0	0	0	11685	1020	36	3	1488	3	PDP1	8	94935592	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	6569701	94935592	51428430	166	48642										
KCNV1	27012	broad.mit.edu	37	chr8	110980823	110980823	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gattgtcatcccaagggagcGtaatcctgcaacagaacaaa	9	10	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:110980823G>T	uc003ynr.3	-	3	1339	c.997C>A	c.(997-999)CGC>AGC	p.R333S	KCNV1_uc010mcw.2_Missense_Mutation_p.R333S	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	333	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			CCAAGGGAGCGTAATCCTGCA	0.318													43	62	---	---	---	---	PASS	T	110980823	T	T	110980823	3	4	136	1	0	0	0	0	1	0	0	0	8094	1145	40	1	509	1	KCNV1	8	110980823	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	16045231	110980823	35383199	167	48643										
COL22A1	169044	broad.mit.edu	37	chr8	139767743	139767743	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	acctgttcccctttcaagccCtcttgctgcacctgagagac	7	16	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:139767743C>A	uc003yvd.2	-	20	2406	c.1959G>T	c.(1957-1959)GAG>GAT	p.E653D	COL22A1_uc011ljo.1_Translation_Start_Site	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	653	Pro-rich.|Gly-rich.				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)			CTTTCAAGCCCTCTTGCTGCA	0.502										HNSCC(7;0.00092)			124	231	---	---	---	---	PASS	A	139767743	A	A	139767743	3	1	136	1	0	0	0	0	1	0	0	0	3681	680	24	3	3105	3	COL22A1	8	139767743	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	28786920	139767743	6596279	168	48644										
KCNK9	51305	broad.mit.edu	37	chr8	140631212	140631212	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttcttaatgcgcttcagcagGtagcgcacgaaggtgttcat	11	9	3	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:140631212G>C	uc003yvf.1	-	2	478	c.414C>G	c.(412-414)TAC>TAG	p.Y138*	KCNK9_uc003yvg.1_Nonsense_Mutation_p.Y138*|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	138	Cytoplasmic (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			GCTTCAGCAGGTAGCGCACGA	0.582													17	23	---	---	---	---	PASS	C	140631212	C	C	140631212	4	2	136	1	0	0	0	0	0	1	0	0	8072	1256	44	4	714	4	KCNK9	8	140631212	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	863469	140631212	5732810	169	48645										
ARHGAP39	80728	broad.mit.edu	37	chr8	145755869	145755869	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agcacccgcaggaaggacatCtccttgcgggtgttctcgaa	12	12	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:145755869C>G	uc003zdt.1	-	12	3744	c.3189G>C	c.(3187-3189)GAG>GAC	p.E1063D	LRRC24_uc003zdn.2_5'Flank|MGC70857_uc003zdp.1_5'Flank|MGC70857_uc003zdq.1_5'Flank|MGC70857_uc003zdr.1_5'Flank|ARHGAP39_uc011llk.1_Missense_Mutation_p.E1063D|ARHGAP39_uc003zds.1_Missense_Mutation_p.E1094D	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	1063	Rho-GAP.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						GGAAGGACATCTCCTTGCGGG	0.647													19	23	---	---	---	---	PASS	G	145755869	G	G	145755869	3	3	136	1	0	0	0	0	1	0	0	0	884	912	32	2	66	2	ARHGAP39	8	145755869	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	5124657	145755869	608153	170	48646										
ZNF16	7564	broad.mit.edu	37	chr8	146157387	146157390	+	Frame_Shift_Del	DEL	CTCA	-	-													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcgctgcactggtaagctttCtcactcatatgagatcgatg							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr8:146157387_146157390delCTCA	uc003zet.2	-	4	970_973	c.783_786delTGAG	c.(781-786)AGTGAGfs	p.S261fs	ZNF16_uc003zeu.2_Frame_Shift_Del_p.S261fs	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	261_262					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		GGTAAGCTTTCTCACTCATATGAG	0.466													204	120	---	---	---	---		-	146157390	-	-	146157387	7	5	136	1	0	1	0	1	0	0	0	0	17735	912	32	0	1266	0	ZNF16	8	146157387	Frame_Shift_Del	DEL	CTCA	TCGA-63-5128-01A-01D-1441-08	401518	146157387	206635	171	48647										
KDM4C	23081	broad.mit.edu	37	chr9	7013902	7013902	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agatgtgttttatttatagtGaagaaaatatagaatattct	7	1	1	4			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr9:7013902G>T	uc003zkh.2	+	14	2663	c.2083G>T	c.(2083-2085)GAA>TAA	p.E695*	KDM4C_uc010mhu.2_Nonsense_Mutation_p.E717*|KDM4C_uc011lmi.1_Nonsense_Mutation_p.E695*|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Nonsense_Mutation_p.E695*|KDM4C_uc011lmk.1_Nonsense_Mutation_p.E440*|KDM4C_uc011lml.1_Nonsense_Mutation_p.E382*	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	695	PHD-type 1.				positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						TATTTATAGTGAAGAAAATAT	0.408													53	24	---	---	---	---	PASS	T	7013902	T	T	7013902	4	4	136	1	0	0	0	0	0	1	0	0	8130	1291	45	2	2203	2	KDM4C	9	7013902	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08		7013902	134199529	172	48648										
CER1	9350	broad.mit.edu	37	chr9	14722619	14722619	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcggccatcctggtgccgtgTggtctttcctagaggcagga	15	11	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr9:14722619T>A	uc003zlj.2	-	1	97	c.52A>T	c.(52-54)ACA>TCA	p.T18S		NM_005454	NP_005445	O95813	CER1_HUMAN	cerberus 1 precursor	18					BMP signaling pathway	extracellular space	cytokine activity				0				GBM - Glioblastoma multiforme(50;3.16e-06)		TGGTGCCGTGTGGTCTTTCCT	0.527													50	29	---	---	---	---	PASS	A	14722619	A	A	14722619	3	1	136	1	0	0	0	0	1	0	0	0	3265	1696	59	5	759	5	CER1	9	14722619	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	7708717	14722619	126490812	173	48649										
UBAP2	55833	broad.mit.edu	37	chr9	33927889	33927889	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttcgcggtgttcatgctactGgacaggctggcgcctgagga	15	10	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr9:33927889G>C	uc003ztq.1	-	20	2390	c.2277C>G	c.(2275-2277)TCC>TCG	p.S759S	UBAP2_uc011loc.1_Silent_p.S668S|UBAP2_uc011lod.1_Silent_p.S492S|UBAP2_uc011loe.1_Silent_p.S514S|UBAP2_uc011lof.1_Silent_p.S684S|UBAP2_uc011log.1_Missense_Mutation_p.P683R|UBAP2_uc003ztn.1_5'UTR|UBAP2_uc003zto.1_5'UTR|UBAP2_uc003ztp.1_5'UTR	NM_018449	NP_060919	Q5T6F2	UBAP2_HUMAN	ubiquitin associated protein 2	759										ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)		TCATGCTACTGGACAGGCTGG	0.632													48	34	---	---	---	---	PASS	C	33927889	C	C	33927889	2	2	136	1	0	0	0	0	0	0	0	1	16834	1335	47	4		4	UBAP2	9	33927889	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	19205270	33927889	107285542	174	48650										
GKAP1	80318	broad.mit.edu	37	chr9	86421392	86421392	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cttgtaacagggcaaaacgaGaagcggtggtgggaacagaa	15	6	0	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr9:86421392G>A	uc004amy.2	-	3	537	c.41C>T	c.(40-42)TCT>TTT	p.S14F	GKAP1_uc004amz.2_Missense_Mutation_p.S14F|GKAP1_uc011lsu.1_RNA	NM_025211	NP_079487	Q5VSY0	GKAP1_HUMAN	G kinase anchoring protein 1 isoform a	14					signal transduction	Golgi apparatus					0						GGCAAAACGAGAAGCGGTGGT	0.428													27	11	---	---	---	---	PASS	A	86421392	A	A	86421392	3	1	136	1	0	0	0	0	1	0	0	0	6423	942	33	2	1103	2	GKAP1	9	86421392	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	52493503	86421392	54792039	175	48651										
IARS	3376	broad.mit.edu	37	chr9	95048047	95048047	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agttggaaagtggagtgttaCatgccgtagagaagggcatg	16	4	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr9:95048047C>A	uc004art.1	-	6	811	c.554G>T	c.(553-555)TGT>TTT	p.C185F	IARS_uc004ars.1_Missense_Mutation_p.C30F|IARS_uc004aru.3_Missense_Mutation_p.C185F|IARS_uc010mqr.2_Missense_Mutation_p.C75F|IARS_uc010mqt.2_Intron	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	185					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	TGGAGTGTTACATGCCGTAGA	0.408													3	82	---	---	---	---	PASS	A	95048047	A	A	95048047	3	1	136	1	0	0	0	0	1	0	0	0	7473	478	17	3	3350	3	IARS	9	95048047	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	8626655	95048047	46165384	176	48652										
ZNF169	169841	broad.mit.edu	37	chr9	97063103	97063103	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtcactctcatcaggcaccaGaggacacacacaggggagaa	11	12	3	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr9:97063103G>T	uc004aum.1	+	5	1368	c.1263G>T	c.(1261-1263)CAG>CAT	p.Q421H		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	421	C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				TCAGGCACCAGAGGACACACA	0.567													19	10	---	---	---	---	PASS	T	97063103	T	T	97063103	3	4	136	1	0	0	0	0	1	0	0	0	17739	933	33	2	1277	2	ZNF169	9	97063103	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	2015056	97063103	44150328	177	48653										
OR13C2	392376	broad.mit.edu	37	chr9	107367215	107367215	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggaagctttgcttctcccctCggaagagctaattttgaaga	10	9	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr9:107367215C>T	uc011lvq.1	-	1	694	c.694G>A	c.(694-696)GAG>AAG	p.E232K		NM_001004481	NP_001004481	Q8NGS9	O13C2_HUMAN	olfactory receptor, family 13, subfamily C,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CTTCTCCCCTCGGAAGAGCTA	0.413													66	22	---	---	---	---	PASS	T	107367215	T	T	107367215	3	4	136	1	0	0	0	0	1	0	0	0	10934	893	31	2	265	2	OR13C2	9	107367215	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	10304112	107367215	33846216	178	48654										
MRRF	92399	broad.mit.edu	37	chr9	125033303	125033303	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aacatggccataggcaatacAtggcctattcagctgtacca	8	11	1	0	rs149753530	byFrequency	TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr9:125033303A>G	uc004bmb.2	+	2	248	c.133A>G	c.(133-135)ATG>GTG	p.M45V	MRRF_uc004bmc.2_Missense_Mutation_p.M45V|MRRF_uc011lyq.1_Missense_Mutation_p.M66V|MRRF_uc010mvz.1_RNA|MRRF_uc010mwa.2_Missense_Mutation_p.M45V|MRRF_uc011lyr.1_Missense_Mutation_p.M45V|MRRF_uc004bmd.2_Missense_Mutation_p.M45V|MRRF_uc004bme.2_RNA	NM_138777	NP_620132	Q96E11	RRFM_HUMAN	mitochondrial ribosome recycling factor isoform	45					ribosome disassembly|translation	mitochondrion	sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						TAGGCAATACATGGCCTATTC	0.463													111	34	---	---	---	---	PASS	G	125033303	G	G	125033303	3	3	136	1	0	0	0	0	1	0	0	0	9850	217	8	5	135	5	MRRF	9	125033303	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	17666088	125033303	16180128	179	48655										
COL5A1	1289	broad.mit.edu	37	chr9	137710517	137710517	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgcagggagaagccggcttgGaaggccctcctgggaagact	16	10	0	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr9:137710517G>A	uc004cfe.2	+	55	4628	c.4246G>A	c.(4246-4248)GAA>AAA	p.E1416K		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1416	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)		AGCCGGCTTGGAAGGCCCTCC	0.697													9	3	---	---	---	---	PASS	A	137710517	A	A	137710517	3	1	136	1	0	0	0	0	1	0	0	0	3696	1175	41	2	4464	2	COL5A1	9	137710517	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	12677214	137710517	3502914	180	48656										
SFMBT2	57713	broad.mit.edu	37	chr10	7326102	7326102	+	Missense_Mutation	SNP	C	A	A													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgaggtctatagggcctttcCctcgcagaggctgtttaaac							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:7326102C>A	uc009xio.1	-	6	627	c.536G>T	c.(535-537)GGG>GTG	p.G179V	SFMBT2_uc001ijn.1_Missense_Mutation_p.G179V|SFMBT2_uc010qay.1_Missense_Mutation_p.G179V	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	179	MBT 2.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						AGGGCCTTTCCCTCGCAGAGG	0.363													33	25	---	---	---	---	PASS	A	7326102	A	A	7326102	3	1	136	1	0	0	0	0	1	0	0	0	14158	623	22	3	2212	3	SFMBT2	10	7326102	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08		7326102	128208645	181	48657	893	2								
SFMBT2	57713	broad.mit.edu	37	chr10	7326103	7326103	+	Missense_Mutation	SNP	C	A	A													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gaggtctatagggcctttccCtcgcagaggctgtttaaaca							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:7326103C>A	uc009xio.1	-	6	626	c.535G>T	c.(535-537)GGG>TGG	p.G179W	SFMBT2_uc001ijn.1_Missense_Mutation_p.G179W|SFMBT2_uc010qay.1_Missense_Mutation_p.G179W	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	179	MBT 2.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GGGCCTTTCCCTCGCAGAGGC	0.363													34	25	---	---	---	---	PASS	A	7326103	A	A	7326103	3	1	136	1	0	0	0	0	1	0	0	0	14158	681	24	3	2213	3	SFMBT2	10	7326103	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	1	7326103	128208644	182	48658	893	2								
OPTN	10133	broad.mit.edu	37	chr10	13168002	13168002	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcttcttcaagaacataataAtgcattgaaaacaattgagg	7	6	2	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:13168002A>C	uc001ilu.1	+	12	1643	c.1205A>C	c.(1204-1206)AAT>ACT	p.N402T	OPTN_uc001ilv.1_Missense_Mutation_p.N402T|OPTN_uc001ilw.1_Missense_Mutation_p.N402T|OPTN_uc001ilx.1_Missense_Mutation_p.N402T|OPTN_uc001ily.1_Missense_Mutation_p.N396T|OPTN_uc010qbr.1_Missense_Mutation_p.N345T|OPTN_uc001ilz.1_Missense_Mutation_p.N396T	NM_001008213	NP_001008214	Q96CV9	OPTN_HUMAN	optineurin	402	Potential.				cell death|Golgi ribbon formation|Golgi to plasma membrane protein transport|protein targeting to Golgi|signal transduction	perinuclear region of cytoplasm|trans-Golgi network	protein C-terminus binding			ovary(2)	2						GAACATAATAATGCATTGAAA	0.313													20	42	---	---	---	---	PASS	C	13168002	C	C	13168002	3	2	136	1	0	0	0	0	1	0	0	0	10889	101	4	5	1239	5	OPTN	10	13168002	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	5841899	13168002	122366745	183	48659										
SUV39H2	79723	broad.mit.edu	37	chr10	14939359	14939359	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcccatctatgaatgcaactCaaggtgtcagtgtggtcctg	10	10	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:14939359C>G	uc001inh.2	+	2	568	c.512C>G	c.(511-513)TCA>TGA	p.S171*	SUV39H2_uc001ing.2_Intron|SUV39H2_uc001ini.2_Nonsense_Mutation_p.S171*|SUV39H2_uc001inj.2_Nonsense_Mutation_p.S171*	NM_024670	NP_078946	Q9H5I1	SUV92_HUMAN	suppressor of variegation 3-9 homolog 2	231	Pre-SET.				cell cycle|cell differentiation|chromatin assembly or disassembly|chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin|chromosome, centromeric region|nucleus	histone methyltransferase activity (H3-K9 specific)|protein binding|zinc ion binding			breast(2)|ovary(1)	3						GAATGCAACTCAAGGTGTCAG	0.418													34	98	---	---	---	---	PASS	G	14939359	G	G	14939359	4	3	136	1	0	0	0	0	0	1	0	0	15410	838	29	2	514	2	SUV39H2	10	14939359	Nonsense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	1771357	14939359	120595388	184	48660										
ST8SIA6	338596	broad.mit.edu	37	chr10	17432598	17432598	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	catttctccgtcagttggagCgacttctcattcagatatgt	8	10	4	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:17432598C>A	uc001ipd.2	-	3	222	c.222G>T	c.(220-222)TCG>TCT	p.S74S	ST8SIA6_uc010qce.1_RNA|uc001ipe.2_Intron|uc001ipf.1_Intron	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	74	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						TCAGTTGGAGCGACTTCTCAT	0.308													55	43	---	---	---	---	PASS	A	17432598	A	A	17432598	2	1	136	1	0	0	0	0	0	0	0	1	15235	755	27	1		1	ST8SIA6	10	17432598	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	2493239	17432598	118102149	185	48661										
STAM	8027	broad.mit.edu	37	chr10	17737147	17737147	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aactaaccaccaacatgaagGccgaaaagttcgtgctatat	7	10	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:17737147G>T	uc001ipj.1	+	7	851	c.635G>T	c.(634-636)GGC>GTC	p.G212V	STAM_uc010qcf.1_Missense_Mutation_p.G101V|STAM_uc009xjw.1_5'UTR	NM_003473	NP_003464	Q92783	STAM1_HUMAN	signal transducing adaptor molecule 1	212	SH3.		G -> D (in a colorectal cancer sample; somatic mutation).		cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	SH3/SH2 adaptor activity	p.G212D(1)		large_intestine(1)|ovary(1)	2						CAACATGAAGGCCGAAAAGTT	0.408													36	70	---	---	---	---	PASS	T	17737147	T	T	17737147	3	4	136	1	0	0	0	0	1	0	0	0	15247	1203	42	3	661	3	STAM	10	17737147	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	304549	17737147	117797600	186	48662										
ARHGAP21	57584	broad.mit.edu	37	chr10	24908835	24908835	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcagtccttacccatgtctgCtgattcaacagactgttctg	7	12	4	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:24908835C>A	uc001isb.2	-	9	2476	c.1989G>T	c.(1987-1989)CAG>CAT	p.Q663H	ARHGAP21_uc010qdb.1_RNA|ARHGAP21_uc009xkl.1_Missense_Mutation_p.Q663H|ARHGAP21_uc010qdc.1_Missense_Mutation_p.Q498H|ARHGAP21_uc001isc.1_Missense_Mutation_p.Q653H	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	662					signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						CCCATGTCTGCTGATTCAACA	0.483													34	24	---	---	---	---	PASS	A	24908835	A	A	24908835	3	1	136	1	0	0	0	0	1	0	0	0	871	796	28	3	3959	3	ARHGAP21	10	24908835	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	7171688	24908835	110625912	187	48663										
ARMC4	55130	broad.mit.edu	37	chr10	28233794	28233794	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aatttatcagcacttccaggCctccaacatctctgatggcc	6	14	2	1	rs138924660		TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:28233794C>A	uc009xky.2	-	11	1582	c.1484G>T	c.(1483-1485)GGC>GTC	p.G495V	ARMC4_uc010qds.1_Missense_Mutation_p.G20V|ARMC4_uc010qdt.1_Missense_Mutation_p.G187V|ARMC4_uc001itz.2_Missense_Mutation_p.G495V|ARMC4_uc010qdu.1_Missense_Mutation_p.G187V	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	495	ARM 1.						binding			ovary(4)|skin(2)	6						CACTTCCAGGCCTCCAACATC	0.478													66	34	---	---	---	---	PASS	A	28233794	A	A	28233794	3	1	136	1	0	0	0	0	1	0	0	0	953	739	26	3	1690	3	ARMC4	10	28233794	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	3324959	28233794	107300953	188	48664										
PCDH15	65217	broad.mit.edu	37	chr10	55582571	55582571	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cagtgtttcaccttgccttaTttcctctttctctgtcaaat	4	12	4	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:55582571T>C	uc001jju.1	-	33	5310	c.4915A>G	c.(4915-4917)ATA>GTA	p.I1639V	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.I1636V|PCDH15_uc010qhw.1_Missense_Mutation_p.I1599V|PCDH15_uc010qhx.1_Missense_Mutation_p.I1570V|PCDH15_uc010qhy.1_Missense_Mutation_p.I1646V|PCDH15_uc010qhz.1_Missense_Mutation_p.I1641V|PCDH15_uc010qia.1_Missense_Mutation_p.I1619V|PCDH15_uc010qib.1_Missense_Mutation_p.I1616V	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1639	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CCTTGCCTTATTTCCTCTTTC	0.398										HNSCC(58;0.16)			63	99	---	---	---	---	PASS	C	55582571	C	C	55582571	3	2	136	1	0	0	0	0	1	0	0	0	11511	1493	52	5	2562	5	PCDH15	10	55582571	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	27348777	55582571	79952176	189	48665										
KIAA0913	23053	broad.mit.edu	37	chr10	75558775	75558775	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tccaggacaacctgatgttgGagaaggcctgcatggcagtg	14	9	0	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:75558775G>T	uc009xrl.2	+	21	4209	c.4177G>T	c.(4177-4179)GAG>TAG	p.E1393*	KIAA0913_uc001jve.2_Nonsense_Mutation_p.E1398*|KIAA0913_uc001jvf.2_Nonsense_Mutation_p.E1393*|KIAA0913_uc001jvh.2_RNA|KIAA0913_uc001jvi.2_Nonsense_Mutation_p.E828*|KIAA0913_uc010qkr.1_Nonsense_Mutation_p.E816*|KIAA0913_uc001jvj.2_Nonsense_Mutation_p.E816*|KIAA0913_uc009xrn.1_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	1393							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					CCTGATGTTGGAGAAGGCCTG	0.532													3	38	---	---	---	---	PASS	T	75558775	T	T	75558775	4	4	136	1	0	0	0	0	0	1	0	0	8200	1175	41	2	4274	2	KIAA0913	10	75558775	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	19976204	75558775	59975972	190	48666										
FAM190B	54462	broad.mit.edu	37	chr10	86131058	86131058	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aaggtgtcgaagagcctaacAatactcaaaattcacatgat	7	8	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:86131058A>G	uc001kdh.1	+	2	444	c.250A>G	c.(250-252)AAT>GAT	p.N84D	FAM190B_uc001kdg.1_Missense_Mutation_p.N84D|FAM190B_uc010qmd.1_Missense_Mutation_p.N84D	NM_018999	NP_061872	Q9H7U1	F190B_HUMAN	granule cell antiserum positive 14	84										ovary(3)|skin(1)	4						AGAGCCTAACAATACTCAAAA	0.338													39	13	---	---	---	---	PASS	G	86131058	G	G	86131058	3	3	136	1	0	0	0	0	1	0	0	0	5522	130	5	5	252	5	FAM190B	10	86131058	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	10572283	86131058	49403689	191	48667										
PLCE1	51196	broad.mit.edu	37	chr10	96066240	96066240	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atgggaagcccgtgcattgaAgtcgacgtcctgggcatgcc	14	11	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:96066240A>T	uc001kjk.2	+	26	6313	c.5679A>T	c.(5677-5679)GAA>GAT	p.E1893D	PLCE1_uc010qnx.1_Missense_Mutation_p.E1877D|PLCE1_uc001kjm.2_Missense_Mutation_p.E1585D|PLCE1_uc001kjp.2_Missense_Mutation_p.E251D	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1893	C2.				activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				CGTGCATTGAAGTCGACGTCC	0.527													97	45	---	---	---	---	PASS	T	96066240	T	T	96066240	3	4	136	1	0	0	0	0	1	0	0	0	12034	69	3	5	6063	5	PLCE1	10	96066240	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	9935182	96066240	39468507	192	48668										
FRAT2	23401	broad.mit.edu	37	chr10	99093814	99093814	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aggagccgatgcgggtcgtcGtcgccggcgcgtgccccggc	18	15	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:99093814G>A	uc001knd.1	-	1	645	c.516C>T	c.(514-516)GAC>GAT	p.D172D		NM_012083	NP_036215	O75474	FRAT2_HUMAN	GSK-3 binding protein FRAT2	172					cell proliferation|multicellular organismal development|Wnt receptor signaling pathway						0		Colorectal(252;0.0846)		Epithelial(162;1.34e-09)|all cancers(201;8.42e-08)		GCGGGTCGTCGTCGCCGGCGC	0.721													7	4	---	---	---	---	PASS	A	99093814	A	A	99093814	2	1	136	1	0	0	0	0	0	0	0	1	6043	1136	40	1		1	FRAT2	10	99093814	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	3027574	99093814	36440933	193	48669										
CRTAC1	55118	broad.mit.edu	37	chr10	99677372	99677372	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcatcagggcccacattaccGtaggcgtaattggcaatgta	11	10	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:99677372G>C	uc001kou.1	-	5	956	c.600C>G	c.(598-600)TAC>TAG	p.Y200*	CRTAC1_uc001kov.2_Nonsense_Mutation_p.Y189*|CRTAC1_uc001kot.1_5'UTR	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	200						proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		CCACATTACCGTAGGCGTAAT	0.592													30	10	---	---	---	---	PASS	C	99677372	C	C	99677372	4	2	136	1	0	0	0	0	0	1	0	0	3896	1140	40	4	1429	4	CRTAC1	10	99677372	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	583558	99677372	35857375	194	48670										
SH3PXD2A	9644	broad.mit.edu	37	chr10	105362464	105362464	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gaggtggctggcccttcccaTtccttcttggtgggacatgg	14	11	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:105362464T>G	uc001kxj.1	-	14	2567	c.2427A>C	c.(2425-2427)GAA>GAC	p.E809D	SH3PXD2A_uc010qqr.1_Intron|SH3PXD2A_uc010qqs.1_Missense_Mutation_p.E644D|SH3PXD2A_uc010qqt.1_Missense_Mutation_p.E686D|SH3PXD2A_uc009xxn.1_Missense_Mutation_p.E644D|SH3PXD2A_uc010qqu.1_Missense_Mutation_p.E752D	NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	837					cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)		GCCCTTCCCATTCCTTCTTGG	0.642													53	21	---	---	---	---	PASS	G	105362464	G	G	105362464	3	3	136	1	0	0	0	0	1	0	0	0	14256	1490	52	5	894	5	SH3PXD2A	10	105362464	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	5685092	105362464	30172283	195	48671										
SH3PXD2A	9644	broad.mit.edu	37	chr10	105362496	105362496	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gggacatgggggagtggtggCtgggagggtgatgaggtcgg	25	3	0	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:105362496C>T	uc001kxj.1	-	14	2535	c.2395G>A	c.(2395-2397)GCC>ACC	p.A799T	SH3PXD2A_uc010qqr.1_Intron|SH3PXD2A_uc010qqs.1_Missense_Mutation_p.A634T|SH3PXD2A_uc010qqt.1_Missense_Mutation_p.A676T|SH3PXD2A_uc009xxn.1_Missense_Mutation_p.A634T|SH3PXD2A_uc010qqu.1_Missense_Mutation_p.A742T	NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	827					cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)		GGAGTGGTGGCTGGGAGGGTG	0.627													60	33	---	---	---	---	PASS	T	105362496	T	T	105362496	3	4	136	1	0	0	0	0	1	0	0	0	14256	797	28	3	926	3	SH3PXD2A	10	105362496	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	32	105362496	30172251	196	48672										
EIF3A	8661	broad.mit.edu	37	chr10	120801779	120801779	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcgcctgggaccccggtcatCatccatgcctcgcctgggac	11	17	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:120801779C>A	uc001ldu.2	-	19	3399	c.3253G>T	c.(3253-3255)GAT>TAT	p.D1085Y	EIF3A_uc010qsu.1_Missense_Mutation_p.D1051Y|EIF3A_uc009xzg.1_Missense_Mutation_p.D124Y	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	1085	17.|Asp-rich.|25 X 10 AA approximate tandem repeats of [DE]-[DE]-[DE]-R-[SEVGFPILV]-[HPSN]- [RSW]-[RL]-[DRGTIHN]-[EPMANLGDT].				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		CCCCGGTCATCATCCATGCCT	0.627													109	53	---	---	---	---	PASS	A	120801779	A	A	120801779	3	1	136	1	0	0	0	0	1	0	0	0	5012	826	29	2	911	2	EIF3A	10	120801779	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	15439283	120801779	14732968	197	48673										
EIF3A	8661	broad.mit.edu	37	chr10	120832423	120832423	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttgctgggcaatatcatggtAcaggcgctctactctagaat	10	9	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr10:120832423A>G	uc001ldu.2	-	4	666	c.520T>C	c.(520-522)TAC>CAC	p.Y174H	EIF3A_uc010qsu.1_Missense_Mutation_p.Y140H	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	174					formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		ATATCATGGTACAGGCGCTCT	0.383													78	25	---	---	---	---	PASS	G	120832423	G	G	120832423	3	3	136	1	0	0	0	0	1	0	0	0	5012	391	14	5	3704	5	EIF3A	10	120832423	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	30644	120832423	14702324	198	48674										
MUC6	4588	broad.mit.edu	37	chr11	1023947	1023947	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgggaggggtggtcactcacGgcagaaggccggggtcctcc	18	11	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:1023947G>T	uc001lsw.2	-	25	3433	c.3382C>A	c.(3382-3384)CCC>ACC	p.P1128T		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1128					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGTCACTCACGGCAGAAGGCC	0.692													6	13	---	---	---	---	PASS	T	1023947	T	T	1023947	3	4	136	1	0	0	0	0	1	0	0	0	9980	1130	39	1	3973	1	MUC6	11	1023947	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08		1023947	133982569	199	48675										
OR51B4	79339	broad.mit.edu	37	chr11	5322673	5322673	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aatgtgtgcaagagggcacgGgaaccacaatatgggtagca	14	7	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:5322673G>T	uc010qza.1	-	1	504	c.504C>A	c.(502-504)TCC>TCA	p.S168S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033179	NP_149419	Q9Y5P0	O51B4_HUMAN	olfactory receptor, family 51, subfamily B,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGAGGGCACGGGAACCACAAT	0.418													44	58	---	---	---	---	PASS	T	5322673	T	T	5322673	2	4	136	1	0	0	0	0	0	0	0	1	11090	1219	43	3		3	OR51B4	11	5322673	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	4298726	5322673	129683843	200	48676										
UBQLNL	143630	broad.mit.edu	37	chr11	5537191	5537191	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gctcacttccaagttttgggTatgcactttgggtgcatcag	11	9	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:5537191T>A	uc001maz.3	-	1	766	c.481A>T	c.(481-483)ACC>TCC	p.T161S	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	161										large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		AAGTTTTGGGTATGCACTTTG	0.517													80	58	---	---	---	---	PASS	A	5537191	A	A	5537191	3	1	136	1	0	0	0	0	1	0	0	0	16897	1638	57	5	950	5	UBQLNL	11	5537191	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	214518	5537191	129469325	201	48677										
OR56A3	390083	broad.mit.edu	37	chr11	5969309	5969309	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tggcaaaggccctaagcacaTgtggctcccacttcatgctc	9	14	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:5969309T>C	uc010qzt.1	+	1	733	c.733T>C	c.(733-735)TGT>CGT	p.C245R		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	245	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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCTAAGCACATGTGGCTCCCA	0.517													55	218	---	---	---	---	PASS	C	5969309	C	C	5969309	3	2	136	1	0	0	0	0	1	0	0	0	11134	1464	51	5	735	5	OR56A3	11	5969309	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	432118	5969309	129037207	202	48678										
OR52B2	255725	broad.mit.edu	37	chr11	6191170	6191170	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gttgtatatctcagtggggcAcaaatggccacaaagcgatc	11	9	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:6191170A>G	uc010qzy.1	-	1	387	c.387T>C	c.(385-387)TGT>TGC	p.C129C		NM_001004052	NP_001004052	Q96RD2	O52B2_HUMAN	olfactory receptor, family 52, subfamily B,	129	Cytoplasmic (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;3.69e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCAGTGGGGCACAAATGGCCA	0.502													18	62	---	---	---	---	PASS	G	6191170	G	G	6191170	2	3	136	1	0	0	0	0	0	0	0	1	11111	157	6	5		5	OR52B2	11	6191170	Silent	SNP	A	TCGA-63-5128-01A-01D-1441-08	221861	6191170	128815346	203	48679										
PIK3C2A	5286	broad.mit.edu	37	chr11	17124270	17124270	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tccaaagtcaatgtgaaacaTgtgtcccgtgcttcgaagca	9	10	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:17124270T>A	uc001mmq.3	-	23	3856	c.3790A>T	c.(3790-3792)ATG>TTG	p.M1264L	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Missense_Mutation_p.M884L|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	1264	PI3K/PI4K.				cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	ATGTGAAACATGTGTCCCGTG	0.408													43	87	---	---	---	---	PASS	A	17124270	A	A	17124270	3	1	136	1	0	0	0	0	1	0	0	0	11909	1464	51	5	1310	5	PIK3C2A	11	17124270	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	10933100	17124270	117882246	204	48680										
LDLRAD3	143458	broad.mit.edu	37	chr11	36057729	36057729	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttcatgtgcagcaatggacgGtgcatcccgggcgcctggca	14	12	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:36057729G>A	uc001mwk.1	+	2	160	c.123G>A	c.(121-123)CGG>CGA	p.R41R	LDLRAD3_uc010rey.1_Intron|LDLRAD3_uc010rez.1_Intron	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	41	LDL-receptor class A 1.|Extracellular (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)				GCAATGGACGGTGCATCCCGG	0.602													24	89	---	---	---	---	PASS	A	36057729	A	A	36057729	2	1	136	1	0	0	0	0	0	0	0	1	8707	1248	44	3		3	LDLRAD3	11	36057729	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	18933459	36057729	98948787	205	48681										
LRRC4C	57689	broad.mit.edu	37	chr11	40137227	40137227	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gatttcccgaaggttgcacaTggcaaggttcaaatacctca	9	10	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:40137227T>A	uc001mxa.1	-	2	2580	c.616A>T	c.(616-618)ATG>TTG	p.M206L	LRRC4C_uc001mxc.1_Missense_Mutation_p.M202L|LRRC4C_uc001mxd.1_Missense_Mutation_p.M202L|LRRC4C_uc001mxb.1_Missense_Mutation_p.M202L	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	206	LRR 6.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				AGGTTGCACATGGCAAGGTTC	0.453													29	106	---	---	---	---	PASS	A	40137227	A	A	40137227	3	1	136	1	0	0	0	0	1	0	0	0	9008	1464	51	5	1310	5	LRRC4C	11	40137227	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	4079498	40137227	94869289	206	48682										
OR4C12	283093	broad.mit.edu	37	chr11	50003789	50003789	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atgattttcttctcttgaaaGgaatccacaatcaacttagg	6	8	3	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:50003789G>T	uc010ria.1	-	1	249	c.249C>A	c.(247-249)TCC>TCA	p.S83S		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	83	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TCTCTTGAAAGGAATCCACAA	0.443													81	64	---	---	---	---	PASS	T	50003789	T	T	50003789	2	4	136	1	0	0	0	0	0	0	0	1	11046	987	35	3		3	OR4C12	11	50003789	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	9866562	50003789	85002727	207	48683										
OR5L1	219437	broad.mit.edu	37	chr11	55579306	55579306	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tggccgtgatggcctatgacCgctttgtggccatctgtaac	12	11	1	2	rs149851583	byFrequency	TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:55579306C>G	uc001nhw.1	+	1	364	c.364C>G	c.(364-366)CGC>GGC	p.R122G		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				GGCCTATGACCGCTTTGTGGC	0.527													70	90	---	---	---	---	PASS	G	55579306	G	G	55579306	3	3	136	1	0	0	0	0	1	0	0	0	11170	652	23	4	366	4	OR5L1	11	55579306	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	5575517	55579306	79427210	208	48684										
OR8H2	390151	broad.mit.edu	37	chr11	55872567	55872567	+	Missense_Mutation	SNP	G	A	A													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tggctgacttcatccttatgGgactgacactttctgaagag							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:55872567G>A	uc010riy.1	+	1	49	c.49G>A	c.(49-51)GGA>AGA	p.G17R		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					CATCCTTATGGGACTGACACT	0.408										HNSCC(53;0.14)			64	211	---	---	---	---	PASS	A	55872567	A	A	55872567	3	1	136	1	0	0	0	0	1	0	0	0	11238	1233	43	3	51	3	OR8H2	11	55872567	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	293261	55872567	79133949	209	48685	894	2								
OR8H2	390151	broad.mit.edu	37	chr11	55872568	55872568	+	Missense_Mutation	SNP	G	T	T													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggctgacttcatccttatggGactgacactttctgaagaga							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:55872568G>T	uc010riy.1	+	1	50	c.50G>T	c.(49-51)GGA>GTA	p.G17V		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					ATCCTTATGGGACTGACACTT	0.413										HNSCC(53;0.14)			65	211	---	---	---	---	PASS	T	55872568	T	T	55872568	3	4	136	1	0	0	0	0	1	0	0	0	11238	1174	41	2	52	2	OR8H2	11	55872568	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1	55872568	79133948	210	48686	894	2								
OR5T1	390155	broad.mit.edu	37	chr11	56043328	56043328	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tctggcttcacagcccaatgTactattttcttggtgtttta	7	9	3	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:56043328T>A	uc001nio.1	+	1	214	c.214T>A	c.(214-216)TAC>AAC	p.Y72N		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	72	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					CAGCCCAATGTACTATTTTCT	0.348													52	47	---	---	---	---	PASS	A	56043328	A	A	56043328	3	1	136	1	0	0	0	0	1	0	0	0	11181	1638	57	5	216	5	OR5T1	11	56043328	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	170760	56043328	78963188	211	48687										
OR5T1	390155	broad.mit.edu	37	chr11	56043399	56043399	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtcactccaaaaatgttggtCaatttcctggcaaaaaataa	6	8	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:56043399C>A	uc001nio.1	+	1	285	c.285C>A	c.(283-285)GTC>GTA	p.V95V		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	95	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					AAATGTTGGTCAATTTCCTGG	0.378													95	77	---	---	---	---	PASS	A	56043399	A	A	56043399	2	1	136	1	0	0	0	0	0	0	0	1	11181	813	29	2		2	OR5T1	11	56043399	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	71	56043399	78963117	212	48688										
OR5M9	390162	broad.mit.edu	37	chr11	56230873	56230873	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctgtcacatccgtgaaattaGgcattgccttagtataggcc	9	10	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:56230873G>T	uc010rjj.1	-	1	5	c.5C>A	c.(4-6)CCT>CAT	p.P2H		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	2	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					CGTGAAATTAGGCATTGCCTT	0.408													5	35	---	---	---	---	PASS	T	56230873	T	T	56230873	3	4	136	1	0	0	0	0	1	0	0	0	11177	1000	35	3	929	3	OR5M9	11	56230873	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	187474	56230873	78775643	213	48689										
OR5B2	390190	broad.mit.edu	37	chr11	58190174	58190174	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcactagtgtgtttatcagaGcaagacagagccatgactgc	10	9	2	4			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:58190174G>A	uc010rkg.1	-	1	561	c.561C>T	c.(559-561)TGC>TGT	p.C187C		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GTTTATCAGAGCAAGACAGAG	0.373													30	34	---	---	---	---	PASS	A	58190174	A	A	58190174	2	1	136	1	0	0	0	0	0	0	0	1	11150	963	34	3		3	OR5B2	11	58190174	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	1959301	58190174	76816342	214	48690										
OR5A2	219981	broad.mit.edu	37	chr11	59189883	59189883	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cagagccaggactggagggaGgtcacagaaaaagtggttga	16	6	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:59189883G>T	uc010rkt.1	-	1	544	c.544C>A	c.(544-546)CTC>ATC	p.L182I		NM_001001954	NP_001001954	Q8NGI9	OR5A2_HUMAN	olfactory receptor, family 5, subfamily A,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACTGGAGGGAGGTCACAGAAA	0.478													25	75	---	---	---	---	PASS	T	59189883	T	T	59189883	3	4	136	1	0	0	0	0	1	0	0	0	11140	1000	35	3	432	3	OR5A2	11	59189883	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	999709	59189883	75816633	215	48691										
OR4D10	390197	broad.mit.edu	37	chr11	59245475	59245475	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctcaaactggcccatacagaCattttcatacttgaactact	4	12	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:59245475C>T	uc001nnz.1	+	1	573	c.573C>T	c.(571-573)GAC>GAT	p.D191D		NM_001004705	NP_001004705	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						CCCATACAGACATTTTCATAC	0.453													55	40	---	---	---	---	PASS	T	59245475	T	T	59245475	2	4	136	1	0	0	0	0	0	0	0	1	11054	477	17	3		3	OR4D10	11	59245475	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	55592	59245475	75761041	216	48692										
DAGLA	747	broad.mit.edu	37	chr11	61511438	61511438	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tggcggcgtcactcctgagcGgccccccagtgctgcggcca	14	17	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:61511438G>C	uc001nsa.2	+	20	2717	c.2606G>C	c.(2605-2607)CGG>CCG	p.R869P		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	869	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		ACTCCTGAGCGGCCCCCCAGT	0.731													24	57	---	---	---	---	PASS	C	61511438	C	C	61511438	3	2	136	1	0	0	0	0	1	0	0	0	4226	1116	39	4	2680	4	DAGLA	11	61511438	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	2265963	61511438	73495078	217	48693										
SLC22A6	9356	broad.mit.edu	37	chr11	62749403	62749403	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcgtaggccacaccagccagGaggaactggcccaggctgta	14	13	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:62749403G>A	uc001nwk.2	-	4	1015	c.708C>T	c.(706-708)CTC>CTT	p.L236L	SLC22A6_uc001nwl.2_Silent_p.L236L|SLC22A6_uc001nwj.2_Silent_p.L236L|SLC22A6_uc001nwm.2_Silent_p.L236L	NM_004790	NP_004781	Q4U2R8	S22A6_HUMAN	solute carrier family 22 member 6 isoform a	236	Helical; (Potential).				alpha-ketoglutarate transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|protein binding				0						CACCAGCCAGGAGGAACTGGC	0.592													25	18	---	---	---	---	PASS	A	62749403	A	A	62749403	2	1	136	1	0	0	0	0	0	0	0	1	14458	1161	41	2		2	SLC22A6	11	62749403	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	1237965	62749403	72257113	218	48694										
LTBP3	4054	broad.mit.edu	37	chr11	65320915	65320915	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cactgcagctggggacacttGtggcacttgctctggcccca	12	14	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:65320915G>T	uc001oej.2	-	4	1220	c.951C>A	c.(949-951)CAC>CAA	p.H317Q	LTBP3_uc010roi.1_Missense_Mutation_p.H200Q|LTBP3_uc001oei.2_Missense_Mutation_p.H317Q|LTBP3_uc010roj.1_Intron|LTBP3_uc010rok.1_Missense_Mutation_p.H228Q	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	317	TB 1.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						GGGGACACTTGTGGCACTTGC	0.667													3	54	---	---	---	---	PASS	T	65320915	T	T	65320915	3	4	136	1	0	0	0	0	1	0	0	0	9075	1368	48	3	3060	3	LTBP3	11	65320915	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	2571512	65320915	69685601	219	48695										
PELI3	246330	broad.mit.edu	37	chr11	66239871	66239871	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ccgtggtcagcacagcatctCgtatacactgtcccggagcc	10	15	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:66239871C>A	uc001oic.3	+	5	550	c.386C>A	c.(385-387)TCG>TAG	p.S129*	PELI3_uc001oib.2_Nonsense_Mutation_p.S129*|PELI3_uc001oid.3_Nonsense_Mutation_p.S105*|PELI3_uc001oie.3_5'UTR|PELI3_uc010rpd.1_5'Flank	NM_145065	NP_659502	Q8N2H9	PELI3_HUMAN	pellino 3 alpha isoform 1	129						cytosol	protein binding			ovary(1)	1						CACAGCATCTCGTATACACTG	0.532													4	148	---	---	---	---	PASS	A	66239871	A	A	66239871	4	1	136	1	0	0	0	0	0	1	0	0	11723	893	31	2	400	2	PELI3	11	66239871	Nonsense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	918956	66239871	68766645	220	48696										
SPTBN2	6712	broad.mit.edu	37	chr11	66472375	66472375	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttcgaatctcctcctccaggGcccgatgctgcctggctaga	10	15	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:66472375G>A	uc001ojd.2	-	14	2444	c.2372C>T	c.(2371-2373)GCC>GTC	p.A791V		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	791	Spectrin 5.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CTCCTCCAGGGCCCGATGCTG	0.682													24	87	---	---	---	---	PASS	A	66472375	A	A	66472375	3	1	136	1	0	0	0	0	1	0	0	0	15119	1203	42	3	4896	3	SPTBN2	11	66472375	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	232504	66472375	68534141	221	48697										
ODZ4	26011	broad.mit.edu	37	chr11	78412887	78412887	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtacaggtgcttgccggtggTatcaaacagatagagctcct	12	9	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:78412887T>A	uc001ozl.3	-	28	5234	c.4771A>T	c.(4771-4773)ACC>TCC	p.T1591S	ODZ4_uc009yvb.1_Missense_Mutation_p.T175S	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1591	Extracellular (Potential).|YD 1.				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						TTGCCGGTGGTATCAAACAGA	0.502													82	72	---	---	---	---	PASS	A	78412887	A	A	78412887	3	1	136	1	0	0	0	0	1	0	0	0	10837	1638	57	5	3566	5	ODZ4	11	78412887	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	11940512	78412887	56593629	222	48698										
CCDC81	60494	broad.mit.edu	37	chr11	86111844	86111844	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aagattatgacccctgaaagGtaatgcattgactttttttt	7	6	0	4			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:86111844G>T	uc001pbx.1	+	7	1309	c.881_splice	c.e7+1	p.S294_splice	CCDC81_uc001pbw.1_Splice_Site_p.S204_splice|CCDC81_uc010rtq.1_Splice_Site_p.S77_splice|CCDC81_uc001pby.1_Splice_Site_p.S77_splice	NM_001156474	NP_001149946	Q6ZN84	CCD81_HUMAN	coiled-coil domain containing 81 isoform 1											skin(1)	1		Acute lymphoblastic leukemia(157;5.51e-06)|all_hematologic(158;0.00535)				CCCCTGAAAGGTAATGCATTG	0.358													72	66	---	---	---	---	PASS	T	86111844	T	T	86111844	5	4	136	1	0	0	0	0	0	0	1	0	2855	1275	44	3	908	3	CCDC81	11	86111844	Splice_Site	SNP	G	TCGA-63-5128-01A-01D-1441-08	7698957	86111844	48894672	223	48699										
GRM5	2915	broad.mit.edu	37	chr11	88242498	88242498	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	acgcccccagcgctcccgccTgcgccagcgccagcgcccag	11	23	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:88242498T>C	uc001pcq.2	-	9	3101	c.2901A>G	c.(2899-2901)GCA>GCG	p.A967A	GRM5_uc009yvm.2_Silent_p.A935A	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	967	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CGCTCCCGCCTGCGCCAGCGC	0.726													23	8	---	---	---	---	PASS	C	88242498	C	C	88242498	2	2	136	1	0	0	0	0	0	0	0	1	6800	1567	55	5		5	GRM5	11	88242498	Silent	SNP	T	TCGA-63-5128-01A-01D-1441-08	2130654	88242498	46764018	224	48700										
FAT3	120114	broad.mit.edu	37	chr11	92526090	92526090	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agctgttctgcaagtgacggCtctggacaaagacaaaggag	13	8	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:92526090C>A	uc001pdj.3	+	8	4786	c.4769C>A	c.(4768-4770)GCT>GAT	p.A1590D		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1590	Cadherin 15.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CAAGTGACGGCTCTGGACAAA	0.448										TCGA Ovarian(4;0.039)			48	37	---	---	---	---	PASS	A	92526090	A	A	92526090	3	1	136	1	0	0	0	0	1	0	0	0	5691	797	28	3	4799	3	FAT3	11	92526090	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	4283592	92526090	42480426	225	48701										
KDM4D	55693	broad.mit.edu	37	chr11	94731217	94731217	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cagcgcctggaacgcctggcCagggagctcttcccaggcag	14	15	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:94731217C>A	uc001pfe.2	+	3	1513	c.681C>A	c.(679-681)GCC>GCA	p.A227A		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	227	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						AACGCCTGGCCAGGGAGCTCT	0.592													25	81	---	---	---	---	PASS	A	94731217	A	A	94731217	2	1	136	1	0	0	0	0	0	0	0	1	8131	581	21	3		3	KDM4D	11	94731217	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	2205127	94731217	40275299	226	48702										
PDGFD	80310	broad.mit.edu	37	chr11	103780489	103780489	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gatccaactggatgtcaactAgagccatggtcttagctcta	9	10	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:103780489A>G	uc001phq.2	-	7	1418	c.1046T>C	c.(1045-1047)CTA>CCA	p.L349P	PDGFD_uc001php.2_Missense_Mutation_p.L343P	NM_025208	NP_079484	Q9GZP0	PDGFD_HUMAN	platelet derived growth factor D isoform 1	349					positive regulation of cell division	endoplasmic reticulum lumen|extracellular region|Golgi membrane	growth factor activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Melanoma(852;0.0563)|all_neural(303;0.165)		BRCA - Breast invasive adenocarcinoma(274;0.00136)|Epithelial(105;0.111)		GATGTCAACTAGAGCCATGGT	0.458													48	121	---	---	---	---	PASS	G	103780489	G	G	103780489	3	3	136	1	0	0	0	0	1	0	0	0	11660	420	15	5	70	5	PDGFD	11	103780489	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	9049272	103780489	31226027	227	48703										
GUCY1A2	2977	broad.mit.edu	37	chr11	106681206	106681206	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtcctttgacttccatcaccTgtgaaattaacatggaattt	6	9	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:106681206T>C	uc001pjg.1	-	5	1597	c.1207_splice	c.e5-1	p.V403_splice	GUCY1A2_uc010rvo.1_Splice_Site_p.V424_splice|GUCY1A2_uc009yxn.1_Splice_Site_p.V403_splice	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2						intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		TTCCATCACCTGTGAAATTAA	0.333													50	55	---	---	---	---	PASS	C	106681206	C	C	106681206	5	2	136	1	0	0	0	0	0	0	1	0	6893	1594	55	5	1009	5	GUCY1A2	11	106681206	Splice_Site	SNP	T	TCGA-63-5128-01A-01D-1441-08	2900717	106681206	28325310	228	48704										
DIXDC1	85458	broad.mit.edu	37	chr11	111844922	111844922	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggagcagctgctgctctggcCgatgtgtgtcatgacatgtc	14	10	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:111844922C>T	uc001pml.2	+	4	789	c.492C>T	c.(490-492)GCC>GCT	p.A164A	DIXDC1_uc001pmj.2_Silent_p.A157A|DIXDC1_uc001pmk.2_Silent_p.A164A	NM_001037954	NP_001033043	Q155Q3	DIXC1_HUMAN	DIX domain containing 1 isoform a	164	Actin-binding.				multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytosol|focal adhesion	actin binding|gamma-tubulin binding|signal transducer activity			ovary(1)	1		all_cancers(61;7.58e-15)|all_epithelial(67;5.42e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;2.99e-07)|BRCA - Breast invasive adenocarcinoma(274;6.72e-07)|all cancers(92;6.25e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0548)		CTGCTCTGGCCGATGTGTGTC	0.572													23	10	---	---	---	---	PASS	T	111844922	T	T	111844922	2	4	136	1	0	0	0	0	0	0	0	1	4541	639	23	1		1	DIXDC1	11	111844922	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	5163716	111844922	23161594	229	48705										
ABCG4	64137	broad.mit.edu	37	chr11	119027673	119027673	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgcgctatggctgagaagaaGagcagccctgagaagaacga	14	8	0	5			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:119027673G>A	uc001pvs.2	+	9	1353	c.1017G>A	c.(1015-1017)AAG>AAA	p.K339K	ABCG4_uc009zar.2_Silent_p.K339K	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	339	Cytoplasmic (Potential).				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		CTGAGAAGAAGAGCAGCCCTG	0.607													52	164	---	---	---	---	PASS	A	119027673	A	A	119027673	2	1	136	1	0	0	0	0	0	0	0	1	70	933	33	2		2	ABCG4	11	119027673	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	7182751	119027673	15978843	230	48706										
CRTAM	56253	broad.mit.edu	37	chr11	122738174	122738174	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aagtggcatcctgctgctcaCgctggtgtccttcctcattt	9	13	2	0	rs141494048		TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:122738174C>G	uc001pyj.2	+	8	875	c.875C>G	c.(874-876)ACG>AGG	p.T292R	CRTAM_uc001pyk.2_Missense_Mutation_p.T93R	NM_019604	NP_062550	O95727	CRTAM_HUMAN	class-I MHC-restricted T cell associated	292	Helical; (Potential).				cell recognition|detection of tumor cell|positive regulation of cytokine secretion|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	integral to membrane|plasma membrane	receptor binding			ovary(1)	1		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.28e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		CTGCTGCTCACGCTGGTGTCC	0.413													13	49	---	---	---	---	PASS	G	122738174	G	G	122738174	3	3	136	1	0	0	0	0	1	0	0	0	3897	536	19	4	905	4	CRTAM	11	122738174	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	3710501	122738174	12268342	231	48707										
PRDM10	56980	broad.mit.edu	37	chr11	129812419	129812419	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctgctccaggtgattctgggCtggccgtacaaacatcatcc	10	13	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr11:129812419C>A	uc001qfm.2	-	7	1100	c.868G>T	c.(868-870)GCC>TCC	p.A290S	PRDM10_uc001qfj.2_Missense_Mutation_p.A204S|PRDM10_uc001qfk.2_Missense_Mutation_p.A204S|PRDM10_uc001qfl.2_Missense_Mutation_p.A204S|PRDM10_uc010sbx.1_Missense_Mutation_p.A204S|PRDM10_uc001qfn.2_Missense_Mutation_p.A290S|PRDM10_uc009zct.1_Missense_Mutation_p.A322S	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	290	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		TGATTCTGGGCTGGCCGTACA	0.453													73	68	---	---	---	---	PASS	A	129812419	A	A	129812419	3	1	136	1	0	0	0	0	1	0	0	0	12451	797	28	3	2678	3	PRDM10	11	129812419	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	7074245	129812419	5194097	232	48708										
CACNA2D4	93589	broad.mit.edu	37	chr12	1969325	1969325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cctcacctgaaaggggtgtcGctgatgtccgtgaagaagta	13	9	1	4			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:1969325G>T	uc001qjp.2	-	19	2157	c.1926C>A	c.(1924-1926)AGC>AGA	p.S642R	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Missense_Mutation_p.S506R	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	642	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		AAGGGGTGTCGCTGATGTCCG	0.483													11	51	---	---	---	---	PASS	T	1969325	T	T	1969325	3	4	136	1	0	0	0	0	1	0	0	0	2551	1078	38	1	1567	1	CACNA2D4	12	1969325	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08		1969325	131882570	233	48709										
CACNA1C	775	broad.mit.edu	37	chr12	2676768	2676768	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggccctgctggccctgttcaCggcagagatgctcctgaaga	13	13	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:2676768C>T	uc009zdu.1	+	13	2016	c.1703C>T	c.(1702-1704)ACG>ATG	p.T568M	CACNA1C_uc009zdv.1_Missense_Mutation_p.T565M|CACNA1C_uc001qkb.2_Missense_Mutation_p.T568M|CACNA1C_uc001qkc.2_Missense_Mutation_p.T568M|CACNA1C_uc001qke.2_Missense_Mutation_p.T568M|CACNA1C_uc001qkf.2_Missense_Mutation_p.T568M|CACNA1C_uc001qjz.2_Missense_Mutation_p.T568M|CACNA1C_uc001qkd.2_Missense_Mutation_p.T568M|CACNA1C_uc001qkg.2_Missense_Mutation_p.T568M|CACNA1C_uc009zdw.1_Missense_Mutation_p.T568M|CACNA1C_uc001qkh.2_Missense_Mutation_p.T568M|CACNA1C_uc001qkl.2_Missense_Mutation_p.T568M|CACNA1C_uc001qkn.2_Missense_Mutation_p.T568M|CACNA1C_uc001qko.2_Missense_Mutation_p.T568M|CACNA1C_uc001qkp.2_Missense_Mutation_p.T568M|CACNA1C_uc001qkr.2_Missense_Mutation_p.T568M|CACNA1C_uc001qku.2_Missense_Mutation_p.T568M|CACNA1C_uc001qkq.2_Missense_Mutation_p.T568M|CACNA1C_uc001qks.2_Missense_Mutation_p.T568M|CACNA1C_uc001qkt.2_Missense_Mutation_p.T568M|CACNA1C_uc001qka.1_Missense_Mutation_p.T103M|CACNA1C_uc001qki.1_Missense_Mutation_p.T304M|CACNA1C_uc001qkj.1_Missense_Mutation_p.T304M|CACNA1C_uc001qkk.1_Missense_Mutation_p.T304M|CACNA1C_uc001qkm.1_Missense_Mutation_p.T304M	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	568	Helical; Name=S2 of repeat II; (Potential).|II.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GCCCTGTTCACGGCAGAGATG	0.617													21	9	---	---	---	---	PASS	T	2676768	T	T	2676768	3	4	136	1	0	0	0	0	1	0	0	0	2540	536	19	1	1861	1	CACNA1C	12	2676768	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	707443	2676768	131175127	234	48710										
SLCO1A2	6579	broad.mit.edu	37	chr12	21445117	21445117	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cctcaagagaaccatatatcCaggtatggcagccaaagaat	8	10	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:21445117C>T	uc001rer.2	-	11	1842	c.1591G>A	c.(1591-1593)GGA>AGA	p.G531R	SLCO1A2_uc001res.2_Missense_Mutation_p.G531R|SLCO1A2_uc010siq.1_Missense_Mutation_p.G399R|SLCO1A2_uc010sio.1_Missense_Mutation_p.G399R|SLCO1A2_uc010sip.1_Missense_Mutation_p.G399R|SLCO1A2_uc001ret.2_Missense_Mutation_p.G529R	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	531	Helical; Name=10; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						ACCATATATCCAGGTATGGCA	0.383													10	8	---	---	---	---	PASS	T	21445117	T	T	21445117	3	4	136	1	0	0	0	0	1	0	0	0	14722	603	21	3	437	3	SLCO1A2	12	21445117	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	18768349	21445117	112406778	235	48711										
RASSF8	11228	broad.mit.edu	37	chr12	26217730	26217730	+	Missense_Mutation	SNP	G	A	A													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aatcactgacatttacaggaGgtgccaaaggattaatggac							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:26217730G>A	uc001rgx.2	+	3	624	c.403G>A	c.(403-405)GGT>AGT	p.G135S	RASSF8_uc001rgy.2_Missense_Mutation_p.G135S|RASSF8_uc001rgz.2_Missense_Mutation_p.G135S|RASSF8_uc009zjd.1_Missense_Mutation_p.G135S|RASSF8_uc009zje.1_Missense_Mutation_p.G135S	NM_007211	NP_009142	Q8NHQ8	RASF8_HUMAN	Ras association (RalGDS/AF-6) domain family	135					signal transduction						0	Colorectal(261;0.0847)					ATTTACAGGAGGTGCCAAAGG	0.408													69	212	---	---	---	---	PASS	A	26217730	A	A	26217730	3	1	136	1	0	0	0	0	1	0	0	0	13092	1000	35	3	409	3	RASSF8	12	26217730	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	4772613	26217730	107634165	236	48712	895	2								
RASSF8	11228	broad.mit.edu	37	chr12	26217731	26217731	+	Missense_Mutation	SNP	G	C	C													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atcactgacatttacaggagGtgccaaaggattaatggaca							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:26217731G>C	uc001rgx.2	+	3	625	c.404G>C	c.(403-405)GGT>GCT	p.G135A	RASSF8_uc001rgy.2_Missense_Mutation_p.G135A|RASSF8_uc001rgz.2_Missense_Mutation_p.G135A|RASSF8_uc009zjd.1_Missense_Mutation_p.G135A|RASSF8_uc009zje.1_Missense_Mutation_p.G135A	NM_007211	NP_009142	Q8NHQ8	RASF8_HUMAN	Ras association (RalGDS/AF-6) domain family	135					signal transduction						0	Colorectal(261;0.0847)					TTTACAGGAGGTGCCAAAGGA	0.413													70	213	---	---	---	---	PASS	C	26217731	C	C	26217731	3	2	136	1	0	0	0	0	1	0	0	0	13092	1261	44	4	410	4	RASSF8	12	26217731	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1	26217731	107634164	237	48713	895	2								
TMTC1	83857	broad.mit.edu	37	chr12	29911675	29911675	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gccaatagaaacagcagacaCgctaacacgtccgctctgcc	8	15	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:29911675C>T	uc001rjb.2	-	3	666	c.192G>A	c.(190-192)GCG>GCA	p.A64A	TMTC1_uc001rjc.1_Silent_p.A64A	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	172	Helical; (Potential).					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					ACAGCAGACACGCTAACACGT	0.428													56	38	---	---	---	---	PASS	T	29911675	T	T	29911675	2	4	136	1	0	0	0	0	0	0	0	1	16257	523	19	1		1	TMTC1	12	29911675	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	3693944	29911675	103940220	238	48714										
PKP2	5318	broad.mit.edu	37	chr12	33031203	33031203	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcctgcttgtggtgccagcaCggctgacccccacgatctcg	12	16	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:33031203C>A	uc001rlj.3	-	3	726	c.611G>T	c.(610-612)CGT>CTT	p.R204L	PKP2_uc001rlk.3_Missense_Mutation_p.R204L|PKP2_uc010skj.1_Missense_Mutation_p.R204L	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	204					cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					GGTGCCAGCACGGCTGACCCC	0.602													93	70	---	---	---	---	PASS	A	33031203	A	A	33031203	3	1	136	1	0	0	0	0	1	0	0	0	11985	536	19	1	2082	1	PKP2	12	33031203	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	3119528	33031203	100820692	239	48715										
CNTN1	1272	broad.mit.edu	37	chr12	41333217	41333217	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gaagggtgataattgaatgcAaacctaaagctgcaccgaaa	10	7	0	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:41333217A>G	uc001rmm.1	+	12	1422	c.1309A>G	c.(1309-1311)AAA>GAA	p.K437E	CNTN1_uc009zjy.1_Missense_Mutation_p.K437E|CNTN1_uc001rmn.1_Missense_Mutation_p.K426E|CNTN1_uc001rmo.2_Missense_Mutation_p.K437E	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	437	Ig-like C2-type 5.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				AATTGAATGCAAACCTAAAGC	0.403													24	47	---	---	---	---	PASS	G	41333217	G	G	41333217	3	3	136	1	0	0	0	0	1	0	0	0	3640	131	5	5	1351	5	CNTN1	12	41333217	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	8302014	41333217	92518678	240	48716										
PDZRN4	29951	broad.mit.edu	37	chr12	41900384	41900384	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtagaccagcctatgggatgGcttcagaagtgcagcttatg	13	8	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:41900384G>T	uc010skn.1	+	4	441	c.373G>T	c.(373-375)GCT>TCT	p.A125S	PDZRN4_uc001rmq.3_Missense_Mutation_p.A66S|PDZRN4_uc009zjz.2_Missense_Mutation_p.A64S|PDZRN4_uc001rmr.2_5'Flank	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	324							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				CTATGGGATGGCTTCAGAAGT	0.537													23	85	---	---	---	---	PASS	T	41900384	T	T	41900384	3	4	136	1	0	0	0	0	1	0	0	0	11710	1203	42	3	1057	3	PDZRN4	12	41900384	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	567167	41900384	91951511	241	48717										
GXYLT1	283464	broad.mit.edu	37	chr12	42491380	42491380	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	catatatacaatgatctggtCgataattccattgacacgga	7	8	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:42491380C>A	uc001rms.3	-	7	1250	c.1025G>T	c.(1024-1026)CGA>CTA	p.R342L	GXYLT1_uc001rmt.3_Missense_Mutation_p.R311L	NM_173601	NP_775872	Q4G148	GXLT1_HUMAN	glycosyltransferase 8 domain containing 3	342	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						ATGATCTGGTCGATAATTCCA	0.368													83	76	---	---	---	---	PASS	A	42491380	A	A	42491380	3	1	136	1	0	0	0	0	1	0	0	0	6903	884	31	2	305	2	GXYLT1	12	42491380	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	590996	42491380	91360515	242	48718										
ARID2	196528	broad.mit.edu	37	chr12	46245335	46245335	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcagggggagtacaaactgtGcccatttcgaacttacaaat	9	9	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:46245335G>A	uc001ros.1	+	15	3429	c.3429G>A	c.(3427-3429)GTG>GTA	p.V1143V	ARID2_uc001ror.2_Silent_p.V1143V|ARID2_uc009zkg.1_Silent_p.V599V|ARID2_uc009zkh.1_Silent_p.V770V|ARID2_uc001rou.1_Silent_p.V477V	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1143					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TACAAACTGTGCCCATTTCGA	0.498													48	120	---	---	---	---	PASS	A	46245335	A	A	46245335	2	1	136	1	0	0	0	0	0	0	0	1	915	1306	46	3		3	ARID2	12	46245335	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	3753955	46245335	87606560	243	48719										
PCBP2	5094	broad.mit.edu	37	chr12	53853162	53853162	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctctctcattggaaaaggtgGatgcaagatcaaggaaatac	10	7	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:53853162G>T	uc001sdl.3	+	6	700	c.350G>T	c.(349-351)GGA>GTA	p.G117V	PCBP2_uc001sdc.3_Missense_Mutation_p.G117V|PCBP2_uc001sdb.3_Missense_Mutation_p.G117V|PCBP2_uc001sde.3_Missense_Mutation_p.G117V|PCBP2_uc001sdi.3_Missense_Mutation_p.G117V|PCBP2_uc001sdd.3_Missense_Mutation_p.G117V|PCBP2_uc001sdf.3_Missense_Mutation_p.G117V|PCBP2_uc009zna.2_Missense_Mutation_p.G78V|PCBP2_uc010soh.1_Missense_Mutation_p.G117V|PCBP2_uc009zmz.1_Missense_Mutation_p.G59V|PCBP2_uc001sdg.1_RNA	NM_001128911	NP_001122383	Q15366	PCBP2_HUMAN	poly(rC) binding protein 2 isoform d	117	KH 2.				innate immune response|negative regulation of defense response to virus|negative regulation of type I interferon production|nuclear mRNA splicing, via spliceosome|proteasomal ubiquitin-dependent protein catabolic process|response to virus	cytosol|nucleoplasm|ribonucleoprotein complex	DNA binding|RNA binding|ubiquitin protein ligase binding				0						GGAAAAGGTGGATGCAAGATC	0.468													56	66	---	---	---	---	PASS	T	53853162	T	T	53853162	3	4	136	1	0	0	0	0	1	0	0	0	11501	1174	41	2	368	2	PCBP2	12	53853162	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	7607827	53853162	79998733	244	48720										
HOXC8	3224	broad.mit.edu	37	chr12	54403503	54403503	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tttccatggatgagaccccaCggtgagaagccttttctctt	9	11	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:54403503C>A	uc001ser.2	+	1	614	c.435C>A	c.(433-435)CAC>CAA	p.H145Q		NM_022658	NP_073149	P31273	HXC8_HUMAN	homeobox C8	145						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGAGACCCCACGGTGAGAAGC	0.552													64	78	---	---	---	---	PASS	A	54403503	A	A	54403503	3	1	136	1	0	0	0	0	1	0	0	0	7316	550	19	1	437	1	HOXC8	12	54403503	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	550341	54403503	79448392	245	48721										
FAM19A2	338811	broad.mit.edu	37	chr12	62147453	62147453	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	acagctccatcctttccgatCcggaagaactttacattctt	5	13	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:62147453C>A	uc001sqw.2	-	4	1847	c.334G>T	c.(334-336)GAT>TAT	p.D112Y	FAM19A2_uc001sqv.2_RNA|FAM19A2_uc001sqx.2_Missense_Mutation_p.D112Y|FAM19A2_uc001sqy.2_RNA	NM_178539	NP_848634	Q8N3H0	F19A2_HUMAN	family with sequence similarity 19 (chemokine	112						cytoplasm				ovary(1)	1			GBM - Glioblastoma multiforme(1;0.00484)	GBM - Glioblastoma multiforme(3;0.02)		CCTTTCCGATCCGGAAGAACT	0.413													35	102	---	---	---	---	PASS	A	62147453	A	A	62147453	3	1	136	1	0	0	0	0	1	0	0	0	5532	855	30	2	69	2	FAM19A2	12	62147453	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	7743950	62147453	71704442	246	48722										
OSBPL8	114882	broad.mit.edu	37	chr12	76767136	76767136	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atacttacccaatgaccttcCaaagtagctaggacttcttt	5	11	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:76767136C>A	uc001sye.1	-	18	2385	c.1905G>T	c.(1903-1905)TTG>TTT	p.L635F	OSBPL8_uc001syf.1_Missense_Mutation_p.L593F|OSBPL8_uc001syg.1_Missense_Mutation_p.L593F|OSBPL8_uc001syh.1_Missense_Mutation_p.L610F	NM_020841	NP_065892	Q9BZF1	OSBL8_HUMAN	oxysterol-binding protein-like protein 8 isoform	635					lipid transport		lipid binding			ovary(1)	1						AATGACCTTCCAAAGTAGCTA	0.303													25	88	---	---	---	---	PASS	A	76767136	A	A	76767136	3	1	136	1	0	0	0	0	1	0	0	0	11283	593	21	3	792	3	OSBPL8	12	76767136	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	14619683	76767136	57084759	247	48723										
NAV3	89795	broad.mit.edu	37	chr12	78444708	78444708	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gggtgctggctatcctcgcaGtggtaccagtcgattcatcc	12	12	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:78444708G>T	uc001syp.2	+	11	2470	c.2297G>T	c.(2296-2298)AGT>ATT	p.S766I	NAV3_uc001syo.2_Missense_Mutation_p.S766I|NAV3_uc010sub.1_Missense_Mutation_p.S266I	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	766						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TATCCTCGCAGTGGTACCAGT	0.587										HNSCC(70;0.22)			10	38	---	---	---	---	PASS	T	78444708	T	T	78444708	3	4	136	1	0	0	0	0	1	0	0	0	10185	1029	36	3	2339	3	NAV3	12	78444708	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1677572	78444708	55407187	248	48724										
LRRIQ1	84125	broad.mit.edu	37	chr12	85517965	85517965	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gatgtaactatcaccaagaaAgatgaatcagaagcccagaa	8	8	2	5			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:85517965A>T	uc001tac.2	+	17	3786	c.3675A>T	c.(3673-3675)AAA>AAT	p.K1225N	LRRIQ1_uc001tab.1_Missense_Mutation_p.K1225N	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1225										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		TCACCAAGAAAGATGAATCAG	0.413													21	75	---	---	---	---	PASS	T	85517965	T	T	85517965	3	4	136	1	0	0	0	0	1	0	0	0	9029	69	3	5	3737	5	LRRIQ1	12	85517965	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	7073257	85517965	48333930	249	48725										
NR1H4	9971	broad.mit.edu	37	chr12	100957235	100957235	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	taaacgaccacaagtttaccCcacttctctgtgaaatctgg	6	12	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:100957235C>A	uc001tht.1	+	9	1457	c.1429C>A	c.(1429-1431)CCA>ACA	p.P477T	NR1H4_uc001thp.1_Missense_Mutation_p.P463T|NR1H4_uc001thq.1_Missense_Mutation_p.P467T|NR1H4_uc010svj.1_RNA|NR1H4_uc001thr.1_Missense_Mutation_p.P467T|NR1H4_uc010svk.1_Missense_Mutation_p.P416T|NR1H4_uc001ths.1_Missense_Mutation_p.P473T	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	477					bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						CAAGTTTACCCCACTTCTCTG	0.468													128	101	---	---	---	---	PASS	A	100957235	A	A	100957235	3	1	136	1	0	0	0	0	1	0	0	0	10619	623	22	3	1421	3	NR1H4	12	100957235	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	15439270	100957235	32894660	250	48726										
STAB2	55576	broad.mit.edu	37	chr12	104056721	104056721	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aggagttctcattcctccctCcattgtcccgattctgcccc	6	17	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:104056721C>T	uc001tjw.2	+	18	2153	c.1967C>T	c.(1966-1968)TCC>TTC	p.S656F		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	656	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						ATTCCTCCCTCCATTGTCCCG	0.453													72	60	---	---	---	---	PASS	T	104056721	T	T	104056721	3	4	136	1	0	0	0	0	1	0	0	0	15237	855	30	2	2037	2	STAB2	12	104056721	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	3099486	104056721	29795174	251	48727										
STAB2	55576	broad.mit.edu	37	chr12	104129294	104129294	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agctgtggatcttcccacatCcactgcctggaagaccctgc	9	15	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:104129294C>G	uc001tjw.2	+	52	5672	c.5486C>G	c.(5485-5487)TCC>TGC	p.S1829C	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1829	Extracellular (Potential).|FAS1 6.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTTCCCACATCCACTGCCTGG	0.552													7	19	---	---	---	---	PASS	G	104129294	G	G	104129294	3	3	136	1	0	0	0	0	1	0	0	0	15237	855	30	2	5692	2	STAB2	12	104129294	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	72573	104129294	29722601	252	48728										
ALDH1L2	160428	broad.mit.edu	37	chr12	105445870	105445870	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aataaaaaatagaaatacctAtacatcaatcttcctctttc	1	9	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:105445870A>G	uc001tlc.2	-	12	1660	c.1533T>C	c.(1531-1533)TAT>TAC	p.Y511Y	ALDH1L2_uc009zuo.2_5'UTR|ALDH1L2_uc009zup.2_RNA	NM_001034173	NP_001029345	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	511	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1						aGAAATACCTATACATCAATC	0.244													17	61	---	---	---	---	PASS	G	105445870	G	G	105445870	2	3	136	1	0	0	0	0	0	0	0	1	495	456	16	5		5	ALDH1L2	12	105445870	Silent	SNP	A	TCGA-63-5128-01A-01D-1441-08	1316576	105445870	28406025	253	48729										
CKAP4	10970	broad.mit.edu	37	chr12	106633568	106633568	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tctccgtgagggcctgcaggGcgagccgctccgtgtcggcc	16	15	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:106633568G>A	uc001tlk.2	-	2	1127	c.1043C>T	c.(1042-1044)GCC>GTC	p.A348V		NM_006825	NP_006816	Q07065	CKAP4_HUMAN	cytoskeleton-associated protein 4	348	Potential.					ER-Golgi intermediate compartment membrane|integral to membrane|membrane fraction					0						GGCCTGCAGGGCGAGCCGCTC	0.642													15	15	---	---	---	---	PASS	A	106633568	A	A	106633568	3	1	136	1	0	0	0	0	1	0	0	0	3444	1203	42	3	769	3	CKAP4	12	106633568	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1187698	106633568	27218327	254	48730										
ASCL4	121549	broad.mit.edu	37	chr12	108169080	108169080	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcgttccggggaccctgcccGgactcccgcggagggacccc	15	18	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:108169080G>A	uc001tmr.2	+	1	919	c.88G>A	c.(88-90)GGA>AGA	p.G30R		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	29					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						GACCCTGCCCGGACTCCCGCG	0.716													31	87	---	---	---	---	PASS	A	108169080	A	A	108169080	3	1	136	1	0	0	0	0	1	0	0	0	1036	1117	39	1	90	1	ASCL4	12	108169080	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1535512	108169080	25682815	255	48731										
DDX54	79039	broad.mit.edu	37	chr12	113612523	113612523	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggccgcaccacgttgtgcagCaggtggagcagcacggcagc	16	13	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:113612523C>A	uc001tup.2	-	10	1018	c.990G>T	c.(988-990)CTG>CTT	p.L330L	DDX54_uc001tuq.3_Silent_p.L330L	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	330	Helicase C-terminal.				estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						CGTTGTGCAGCAGGTGGAGCA	0.647											OREG0022139	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	56	---	---	---	---	PASS	A	113612523	A	A	113612523	2	1	136	1	0	0	0	0	0	0	0	1	4372	697	25	3		3	DDX54	12	113612523	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	5443443	113612523	20239372	256	48732										
VPS33A	65082	broad.mit.edu	37	chr12	122745859	122745859	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agatccccatcgaatggaatGagatctaagctgtactcctc	8	11	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:122745859G>A	uc001ucd.2	-	4	545	c.432C>T	c.(430-432)CTC>CTT	p.L144L	VPS33A_uc001ucc.2_RNA|VPS33A_uc001uce.2_Silent_p.L144L	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	144					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		CGAATGGAATGAGATCTAAGC	0.453													44	84	---	---	---	---	PASS	A	122745859	A	A	122745859	2	1	136	1	0	0	0	0	0	0	0	1	17198	1277	45	2		2	VPS33A	12	122745859	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	9133336	122745859	11106036	257	48733										
P2RX2	22953	broad.mit.edu	37	chr12	133196330	133196330	+	Frame_Shift_Del	DEL	C	-	-													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcccagacccagggaacctgCcccgaggtgaggggatcccg							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr12:133196330delC	uc001ukj.1	+	3	375	c.375delC	c.(373-375)TGCfs	p.C125fs	P2RX2_uc001uki.1_Frame_Shift_Del_p.C125fs|P2RX2_uc001ukk.1_Frame_Shift_Del_p.C125fs|P2RX2_uc001ukl.1_Intron|P2RX2_uc001ukm.1_Intron|P2RX2_uc001ukn.1_Intron|P2RX2_uc009zyt.1_Frame_Shift_Del_p.C125fs|P2RX2_uc001uko.1_Intron	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	125	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		AGGGAACCTGCCCCGAGGTGA	0.721													15	23	---	---	---	---		-	133196330	-	-	133196330	7	5	136	1	0	1	0	1	0	0	0	0	11340	747	26	0	385	0	P2RX2	12	133196330	Frame_Shift_Del	DEL	C	TCGA-63-5128-01A-01D-1441-08	10450471	133196330	655565	258	48734										
CRYL1	51084	broad.mit.edu	37	chr13	20987499	20987499	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cccttctgacatgacaaggtCcaggtcactaggagacacga	10	12	2	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr13:20987499C>A	uc001une.2	-	6	740	c.661G>T	c.(661-663)GAC>TAC	p.D221Y	CRYL1_uc001unf.2_Missense_Mutation_p.D199Y|CRYL1_uc001ung.2_Missense_Mutation_p.D199Y	NM_015974	NP_057058	Q9Y2S2	CRYL1_HUMAN	lambda-crystallin	221					fatty acid metabolic process	cytosol	3-hydroxyacyl-CoA dehydrogenase activity|L-gulonate 3-dehydrogenase activity|NAD+ binding|protein homodimerization activity				0		all_cancers(29;2.27e-23)|all_epithelial(30;1.69e-19)|all_lung(29;8.29e-18)|Lung SC(185;0.0262)|Ovarian(182;0.0827)|Hepatocellular(188;0.244)		all cancers(112;6.6e-05)|Epithelial(112;0.00178)|OV - Ovarian serous cystadenocarcinoma(117;0.0169)|Lung(94;0.0215)|GBM - Glioblastoma multiforme(144;0.0402)|LUSC - Lung squamous cell carcinoma(192;0.061)		ATGACAAGGTCCAGGTCACTA	0.483													30	10	---	---	---	---	PASS	A	20987499	A	A	20987499	3	1	136	1	0	0	0	0	1	0	0	0	3920	855	30	2	310	2	CRYL1	13	20987499	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08		20987499	94182379	259	48735										
AKAP11	11215	broad.mit.edu	37	chr13	42871185	42871185	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgttattattttaaatcaggAtttagctgcagtttctttgg	8	4	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr13:42871185A>G	uc001uys.1	+	6	393	c.218A>G	c.(217-219)GAT>GGT	p.D73G		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	73					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		TTAAATCAGGATTTAGCTGCA	0.303													88	40	---	---	---	---	PASS	G	42871185	G	G	42871185	3	3	136	1	0	0	0	0	1	0	0	0	447	347	12	5	232	5	AKAP11	13	42871185	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	21883686	42871185	72298693	260	48736										
MYCBP2	23077	broad.mit.edu	37	chr13	77644818	77644818	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgaatatgattccaaccataTgttctttcaggtcagcatct	6	9	4	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr13:77644818T>G	uc001vkf.2	-	70	11829	c.11738A>C	c.(11737-11739)CAT>CCT	p.H3913P	MYCBP2_uc010aev.2_Missense_Mutation_p.H3317P|MYCBP2_uc001vke.2_Missense_Mutation_p.H530P	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3913					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TCCAACCATATGTTCTTTCAG	0.289													95	37	---	---	---	---	PASS	G	77644818	G	G	77644818	3	3	136	1	0	0	0	0	1	0	0	0	10018	1464	51	5	2244	5	MYCBP2	13	77644818	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	34773633	77644818	37525060	261	48737										
HS6ST3	266722	broad.mit.edu	37	chr13	97484966	97484966	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aacctggctaacaatcgccaGgtgcgcatgctggctgacct	11	13	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr13:97484966G>C	uc001vmw.2	+	2	954	c.930G>C	c.(928-930)CAG>CAC	p.Q310H		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	310	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					ACAATCGCCAGGTGCGCATGC	0.537													52	14	---	---	---	---	PASS	C	97484966	C	C	97484966	3	2	136	1	0	0	0	0	1	0	0	0	7372	991	35	4	936	4	HS6ST3	13	97484966	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	19840148	97484966	17684912	262	48738										
OR4N2	390429	broad.mit.edu	37	chr14	20295781	20295781	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gaccctgggctcacagccccCctctatttctttctgggcaa	8	16	4	0	rs141509885	byFrequency	TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr14:20295781C>A	uc010tkv.1	+	1	174	c.174C>A	c.(172-174)CCC>CCA	p.P58P		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCACAGCCCCCCTCTATTTCT	0.463													148	291	---	---	---	---	PASS	A	20295781	A	A	20295781	2	1	136	1	0	0	0	0	0	0	0	1	11077	610	22	3		3	OR4N2	14	20295781	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08		20295781	87053759	263	48739										
OR4K2	390431	broad.mit.edu	37	chr14	20345187	20345187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cttcttgttctttgggccatGcatcttcatctacatgtggc	8	11	5	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr14:20345187G>T	uc001vwh.1	+	1	761	c.761G>T	c.(760-762)TGC>TTC	p.C254F		NM_001005501	NP_001005501	Q8NGD2	OR4K2_HUMAN	olfactory receptor, family 4, subfamily K,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TTTGGGCCATGCATCTTCATC	0.418													112	170	---	---	---	---	PASS	T	20345187	T	T	20345187	3	4	136	1	0	0	0	0	1	0	0	0	11072	1319	46	3	763	3	OR4K2	14	20345187	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	49406	20345187	87004353	264	48740										
MYH7	4625	broad.mit.edu	37	chr14	23896042	23896042	+	Frame_Shift_Del	DEL	C	-	-													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	caaagtggggatgggtggagCgcaagttggtcatcagcttg							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr14:23896042delC	uc001wjx.2	-	18	2094	c.1988delG	c.(1987-1989)CGCfs	p.R663fs		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	663	Myosin head-like.|Actin-binding.		R -> C (in CMH1).|R -> H (in CMH1).|R -> S (in CMH1).		adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		ATGGGTGGAGCGCAAGTTGGT	0.448													19	40	---	---	---	---		-	23896042	-	-	23896042	7	5	136	1	0	1	0	1	0	0	0	0	10039	768	27	0	3911	0	MYH7	14	23896042	Frame_Shift_Del	DEL	C	TCGA-63-5128-01A-01D-1441-08	3550855	23896042	83453498	265	48741										
JPH4	84502	broad.mit.edu	37	chr14	24045142	24045142	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcgccctcgtagcgcagcccGttggagcgctggctgacgcc	14	16	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr14:24045142G>T	uc001wkq.2	-	4	1821	c.903C>A	c.(901-903)AAC>AAA	p.N301K	JPH4_uc010tnr.1_5'Flank|JPH4_uc001wkr.2_Missense_Mutation_p.N301K|JPH4_uc001wks.2_Missense_Mutation_p.N301K	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	301	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		AGCGCAGCCCGTTGGAGCGCT	0.677													7	1	---	---	---	---	PASS	T	24045142	T	T	24045142	3	4	136	1	0	0	0	0	1	0	0	0	7963	1136	40	1	999	1	JPH4	14	24045142	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	149100	24045142	83304398	266	48742										
DDHD1	80821	broad.mit.edu	37	chr14	53619450	53619450	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gttcgtcgggaccagcggagGctgctgcggcgggtgcagcg	20	11	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr14:53619450G>A	uc001xai.2	-	1	597	c.367C>T	c.(367-369)CCT>TCT	p.P123S	DDHD1_uc001xaj.2_Missense_Mutation_p.P123S|DDHD1_uc001xah.2_Missense_Mutation_p.P123S	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	123					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					ACCAGCGGAGGCTGCTGCGGC	0.746													9	1	---	---	---	---	PASS	A	53619450	A	A	53619450	3	1	136	1	0	0	0	0	1	0	0	0	4326	1203	42	3	2412	3	DDHD1	14	53619450	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	29574308	53619450	53730090	267	48743										
ZBTB1	22890	broad.mit.edu	37	chr14	64988813	64988813	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gatgtatgtaaaaaaagttcCgtgtccaaattatctactcc	6	8	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr14:64988813C>T	uc001xhh.3	+	4	1022	c.591C>T	c.(589-591)TCC>TCT	p.S197S	ZBTB1_uc010aqg.2_Silent_p.S197S|ZBTB1_uc001xhi.2_Silent_p.S197S	NM_001123329	NP_001116801	Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1 isoform	197					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		all_lung(585;0.000567)|Myeloproliferative disorder(585;0.0255)|all_neural(303;0.0294)		UCEC - Uterine corpus endometrioid carcinoma (185;0.0182)|all cancers(60;3.78e-43)|OV - Ovarian serous cystadenocarcinoma(108;1.22e-20)|BRCA - Breast invasive adenocarcinoma(234;6.75e-06)|KIRC - Kidney renal clear cell carcinoma(182;0.00269)|STAD - Stomach adenocarcinoma(64;0.012)		AAAAAAGTTCCGTGTCCAAAT	0.378													72	29	---	---	---	---	PASS	T	64988813	T	T	64988813	2	4	136	1	0	0	0	0	0	0	0	1	17519	639	23	1		1	ZBTB1	14	64988813	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	11369363	64988813	42360727	268	48744										
KIAA1409	57578	broad.mit.edu	37	chr14	94004430	94004430	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cctgttcggtactgcaagagGtgccactcaaatcatcacag	9	12	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr14:94004430G>T	uc001ybv.1	+	9	770	c.687G>T	c.(685-687)AGG>AGT	p.R229S	KIAA1409_uc001ybs.1_Missense_Mutation_p.R229S|KIAA1409_uc001ybu.1_Missense_Mutation_p.R167S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	406						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		ACTGCAAGAGGTGCCACTCAA	0.567													72	18	---	---	---	---	PASS	T	94004430	T	T	94004430	3	4	136	1	0	0	0	0	1	0	0	0	8230	1252	44	3	721	3	KIAA1409	14	94004430	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	29015617	94004430	13345110	269	48745										
SERPINA4	5267	broad.mit.edu	37	chr14	95033468	95033468	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cggtgctacggatggattacAaaggagacgcaaccgtgttt	13	8	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr14:95033468A>C	uc001ydk.2	+	3	877	c.811A>C	c.(811-813)AAA>CAA	p.K271Q	SERPINA4_uc010avd.2_Missense_Mutation_p.K308Q|SERPINA4_uc001ydl.2_Missense_Mutation_p.K271Q	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	271					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		GATGGATTACAAAGGAGACGC	0.493													69	11	---	---	---	---	PASS	C	95033468	C	C	95033468	3	2	136	1	0	0	0	0	1	0	0	0	14091	131	5	5	817	5	SERPINA4	14	95033468	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	1029038	95033468	12316072	270	48746										
RYR3	6263	broad.mit.edu	37	chr15	34105704	34105704	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggtccaagaaggccgtctggCacaaactgttatcaaagcaa	10	10	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:34105704C>T	uc001zhi.2	+	74	10496	c.10426C>T	c.(10426-10428)CAC>TAC	p.H3476Y	RYR3_uc010bar.2_Missense_Mutation_p.H3471Y	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3476					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGCCGTCTGGCACAAACTGTT	0.512													100	164	---	---	---	---	PASS	T	34105704	T	T	34105704	3	4	136	1	0	0	0	0	1	0	0	0	13770	710	25	3	10720	3	RYR3	15	34105704	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08		34105704	68425688	271	48747										
TTBK2	146057	broad.mit.edu	37	chr15	43044805	43044805	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cactcatgatgtcatcatccTtagatatcttatttttttgc	4	9	4	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:43044805T>A	uc001zqo.2	-	14	3078	c.2639A>T	c.(2638-2640)AAG>ATG	p.K880M	TTBK2_uc010bcy.2_Missense_Mutation_p.K811M	NM_173500	NP_775771	Q6IQ55	TTBK2_HUMAN	tau tubulin kinase 2	880					cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)		GTCATCATCCTTAGATATCTT	0.418													56	98	---	---	---	---	PASS	A	43044805	A	A	43044805	3	1	136	1	0	0	0	0	1	0	0	0	16674	1609	56	5	1103	5	TTBK2	15	43044805	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	8939101	43044805	59486587	272	48748										
GLDN	342035	broad.mit.edu	37	chr15	51689784	51689784	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcagccaagcatgttcaacgGccagtgcccaggtcaccacc	10	16	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:51689784G>T	uc002aba.2	+	6	975	c.806G>T	c.(805-807)GGC>GTC	p.G269V	GLDN_uc002abb.2_Missense_Mutation_p.G145V	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	269	Extracellular (Potential).				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		ATGTTCAACGGCCAGTGCCCA	0.632													27	45	---	---	---	---	PASS	T	51689784	T	T	51689784	3	4	136	1	0	0	0	0	1	0	0	0	6434	1203	42	3	828	3	GLDN	15	51689784	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	8644979	51689784	50841608	273	48749										
TMOD2	29767	broad.mit.edu	37	chr15	52098653	52098653	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aaggatcctcaagtttggatAccagtttaccaagcaagggc	10	9	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:52098653A>G	uc002abk.2	+	9	1177	c.956A>G	c.(955-957)TAC>TGC	p.Y319C	TMOD2_uc002abl.3_Missense_Mutation_p.Y283C|TMOD2_uc010bfb.2_Missense_Mutation_p.Y275C	NM_014548	NP_055363	Q9NZR1	TMOD2_HUMAN	neuronal tropomodulin isoform a	319					nervous system development	cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(2)	2				all cancers(107;0.00435)		AAGTTTGGATACCAGTTTACC	0.468													72	76	---	---	---	---	PASS	G	52098653	G	G	52098653	3	3	136	1	0	0	0	0	1	0	0	0	16231	391	14	5	986	5	TMOD2	15	52098653	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	408869	52098653	50432739	274	48750										
MYO5C	55930	broad.mit.edu	37	chr15	52538196	52538196	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aatgcgaatcgtttctaaaaCgccgcaggctcgcagctgct	10	12	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:52538196C>G	uc010bff.2	-	17	2160	c.2023G>C	c.(2023-2025)GTT>CTT	p.V675L	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	675	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		GTTTCTAAAACGCCGCAGGCT	0.443													46	65	---	---	---	---	PASS	G	52538196	G	G	52538196	3	3	136	1	0	0	0	0	1	0	0	0	10080	536	19	4	3305	4	MYO5C	15	52538196	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	439543	52538196	49993196	275	48751										
RAB27A	5873	broad.mit.edu	37	chr15	55520835	55520835	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tttctgacattgaggaaactTtgctcatttgtcagatcaaa	7	7	4	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:55520835T>C	uc002aco.2	-	5	548	c.315A>G	c.(313-315)CAA>CAG	p.Q105Q	RAB27A_uc002acr.2_Silent_p.Q105Q|RAB27A_uc002acp.2_Silent_p.Q105Q|RAB27A_uc002acq.2_Silent_p.Q105Q	NM_183234	NP_899057	P51159	RB27A_HUMAN	Ras-related protein Rab-27A	105					small GTPase mediated signal transduction	dendrite|exocytic vesicle|late endosome|lysosome|melanosome	GTP binding|GTPase activity			ovary(1)	1				all cancers(107;0.0273)|GBM - Glioblastoma multiforme(80;0.0993)		TGAGGAAACTTTGCTCATTTG	0.403													76	111	---	---	---	---	PASS	C	55520835	C	C	55520835	2	2	136	1	0	0	0	0	0	0	0	1	12914	1838	64	5		5	RAB27A	15	55520835	Silent	SNP	T	TCGA-63-5128-01A-01D-1441-08	2982639	55520835	47010557	276	48752										
NEDD4	4734	broad.mit.edu	37	chr15	56152937	56152937	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtaaatgcacgttgtgcttgCagttgaatgttgccattctc	10	8	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:56152937C>A	uc002adj.2	-	6	2271	c.1971G>T	c.(1969-1971)CTG>CTT	p.L657L	NEDD4_uc002adl.2_Silent_p.L238L|NEDD4_uc002adi.2_Silent_p.L585L|NEDD4_uc010ugj.1_Silent_p.L641L|NEDD4_uc010bfm.2_Silent_p.L640L|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	657	Mediates interaction with TNIK (By similarity).				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		GTTGTGCTTGCAGTTGAATGT	0.413													86	98	---	---	---	---	PASS	A	56152937	A	A	56152937	2	1	136	1	0	0	0	0	0	0	0	1	10310	697	25	3		3	NEDD4	15	56152937	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	632102	56152937	46378455	277	48753										
MAP2K5	5607	broad.mit.edu	37	chr15	67950889	67950889	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	catggcatgtttatctctacAgggggatctttggatgtata	11	6	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:67950889A>T	uc002aqu.2	+	12	1390	c.737_splice	c.e12-2	p.G246_splice	MAP2K5_uc002aqt.1_Splice_Site_p.G246_splice|MAP2K5_uc002aqv.2_Splice_Site_p.G246_splice|MAP2K5_uc002aqw.2_Splice_Site_p.G86_splice|MAP2K5_uc002aqx.2_Splice_Site_p.G56_splice	NM_145160	NP_660143	Q13163	MP2K5_HUMAN	mitogen-activated protein kinase kinase 5						nerve growth factor receptor signaling pathway		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)	2						TTATCTCTACAGGGGGATCTT	0.388													66	100	---	---	---	---	PASS	T	67950889	T	T	67950889	5	4	136	1	0	0	0	0	0	0	1	0	9240	202	7	5	781	5	MAP2K5	15	67950889	Splice_Site	SNP	A	TCGA-63-5128-01A-01D-1441-08	11797952	67950889	34580503	278	48754										
PIAS1	8554	broad.mit.edu	37	chr15	68479904	68479904	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	acaacacctccttgcttgccGctgcagcagcagcagtttca	8	15	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:68479904G>T	uc002aqz.2	+	14	1783	c.1687G>T	c.(1687-1689)GCT>TCT	p.A563S	PIAS1_uc002ara.2_Missense_Mutation_p.A171S	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	563	4 X 4 AA repeats of N-T-S-L.				androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						CTTGCTTGCCGCTGCAGCAGC	0.438													3	126	---	---	---	---	PASS	T	68479904	T	T	68479904	3	4	136	1	0	0	0	0	1	0	0	0	11875	1087	38	1	1741	1	PIAS1	15	68479904	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	529015	68479904	34051488	279	48755										
SPESP1	246777	broad.mit.edu	37	chr15	69238414	69238414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttacctcatacaagtcacctGtcaccactttagataagagc	5	12	3	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:69238414G>T	uc002arn.1	+	2	669	c.541G>T	c.(541-543)GTC>TTC	p.V181F	NOX5_uc002arp.1_Intron|NOX5_uc002arq.1_Intron|NOX5_uc010bid.1_Intron|NOX5_uc002aro.2_Intron	NM_145658	NP_663633	Q6UW49	SPESP_HUMAN	sperm equatorial segment protein 1 precursor	181					multicellular organismal development	acrosomal vesicle					0						CAAGTCACCTGTCACCACTTT	0.448													106	184	---	---	---	---	PASS	T	69238414	T	T	69238414	3	4	136	1	0	0	0	0	1	0	0	0	15039	1377	48	3	547	3	SPESP1	15	69238414	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	758510	69238414	33292978	280	48756										
RASGRF1	5923	broad.mit.edu	37	chr15	79291169	79291169	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctctggtctgggggaaacccTggcagcatgcgtggcagagg	17	10	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:79291169T>A	uc002beq.2	-	19	3170	c.2795_splice	c.e19-1	p.G932_splice	RASGRF1_uc002bep.2_Splice_Site_p.G916_splice|RASGRF1_uc010blm.1_Splice_Site_p.G841_splice|RASGRF1_uc002ber.3_Splice_Site_p.G916_splice|RASGRF1_uc010unh.1_Splice_Site_p.G327_splice|RASGRF1_uc002beo.2_Splice_Site_p.G148_splice	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine						activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						GGGGAAACCCTGGCAGCATGC	0.577													49	59	---	---	---	---	PASS	A	79291169	A	A	79291169	5	1	136	1	0	0	0	0	0	0	1	0	13072	1594	55	5	1068	5	RASGRF1	15	79291169	Splice_Site	SNP	T	TCGA-63-5128-01A-01D-1441-08	10052755	79291169	23240223	281	48757										
AGBL1	123624	broad.mit.edu	37	chr15	86791071	86791071	+	Frame_Shift_Del	DEL	G	-	-													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tccggcagggaggccttcctGgcagcacagggcatggagat							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:86791071delG	uc002blz.1	+	6	638	c.558delG	c.(556-558)CTGfs	p.L186fs		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	186					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						AGGCCTTCCTGGCAGCACAGG	0.627													90	62	---	---	---	---		-	86791071	-	-	86791071	7	5	136	1	0	1	0	1	0	0	0	0	375	1335	47	0	576	0	AGBL1	15	86791071	Frame_Shift_Del	DEL	G	TCGA-63-5128-01A-01D-1441-08	7499902	86791071	15740321	282	48758										
AGBL1	123624	broad.mit.edu	37	chr15	87097716	87097716	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gagagagatgggggtgtccaGaagctacaccatggaaagca	15	7	0	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr15:87097716G>C	uc002blz.1	+	20	2884	c.2804G>C	c.(2803-2805)AGA>ACA	p.R935T		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	935					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						GGGGTGTCCAGAAGCTACACC	0.547													7	10	---	---	---	---	PASS	C	87097716	C	C	87097716	3	2	136	1	0	0	0	0	1	0	0	0	375	942	33	2	2878	2	AGBL1	15	87097716	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	306645	87097716	15433676	283	48759										
ZSCAN10	84891	broad.mit.edu	37	chr16	3139746	3139746	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cgttggtggctgaccagctgCgagctctgcgtgaagctgcg	16	11	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr16:3139746C>T	uc002ctv.1	-	5	1612	c.1524G>A	c.(1522-1524)TCG>TCA	p.S508S	ZSCAN10_uc002cty.1_Silent_p.S169S|ZSCAN10_uc002ctw.1_Silent_p.S426S|ZSCAN10_uc002ctx.1_Silent_p.S436S	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	508	C2H2-type 7.				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						TGACCAGCTGCGAGCTCTGCG	0.721													10	3	---	---	---	---	PASS	T	3139746	T	T	3139746	2	4	136	1	0	0	0	0	0	0	0	1	18224	755	27	1		1	ZSCAN10	16	3139746	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08		3139746	87215007	284	48760										
IL4R	3566	broad.mit.edu	37	chr16	27357843	27357843	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	accaatgtctccgacactctGctgctgacctggagcaaccc	8	16	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr16:27357843G>T	uc002don.2	+	6	659	c.417G>T	c.(415-417)CTG>CTT	p.L139L	IL4R_uc002dom.2_Silent_p.L139L|IL4R_uc002dop.3_Silent_p.L124L|IL4R_uc010bxy.2_Silent_p.L139L|IL4R_uc002doo.2_5'UTR	NM_000418	NP_000409	P24394	IL4RA_HUMAN	interleukin 4 receptor alpha chain isoform a	139	Extracellular (Potential).|Fibronectin type-III.				immune response|production of molecular mediator involved in inflammatory response	integral to plasma membrane	identical protein binding|interleukin-4 receptor activity|receptor signaling protein activity			ovary(1)|skin(1)	2						CCGACACTCTGCTGCTGACCT	0.527													47	18	---	---	---	---	PASS	T	27357843	T	T	27357843	2	4	136	1	0	0	0	0	0	0	0	1	7698	1306	46	3		3	IL4R	16	27357843	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	24218097	27357843	62996910	285	48761										
ITGAM	3684	broad.mit.edu	37	chr16	31341848	31341848	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcgcataaccacctcctgatCgtgagcacagctgagatctt	8	13	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr16:31341848C>A	uc002ebq.2	+	28	3296	c.3198C>A	c.(3196-3198)ATC>ATA	p.I1066I	ITGAM_uc002ebr.2_Silent_p.I1067I|ITGAM_uc010can.2_Silent_p.I472I	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	1066	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						ACCTCCTGATCGTGAGCACAG	0.627													20	5	---	---	---	---	PASS	A	31341848	A	A	31341848	2	1	136	1	0	0	0	0	0	0	0	1	7887	874	31	2		2	ITGAM	16	31341848	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	3984005	31341848	59012905	286	48762										
ZNF267	10308	broad.mit.edu	37	chr16	31926523	31926523	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aaagcagataatccataatgAagagaaaccatacaaatgtg	7	6	0	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr16:31926523A>T	uc002ecs.3	+	4	1162	c.953A>T	c.(952-954)GAA>GTA	p.E318V		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	318					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						ATCCATAATGAAGAGAAACCA	0.343													68	21	---	---	---	---	PASS	T	31926523	T	T	31926523	3	4	136	1	0	0	0	0	1	0	0	0	17803	246	9	5	967	5	ZNF267	16	31926523	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	584675	31926523	58428230	287	48763										
NLRC5	84166	broad.mit.edu	37	chr16	57095391	57095391	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gcagcttccggccagagcacGtgtccaggctggccaccggc	14	16	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr16:57095391G>A	uc002ekk.1	+	31	4243	c.4018G>A	c.(4018-4020)GTG>ATG	p.V1340M	NLRC5_uc002ekn.2_Missense_Mutation_p.V1001M|NLRC5_uc002ekl.2_Missense_Mutation_p.V1144M|NLRC5_uc002ekm.2_Missense_Mutation_p.V1114M|NLRC5_uc010ccr.1_RNA|NLRC5_uc010ccs.1_RNA|NLRC5_uc002eko.1_RNA|NLRC5_uc002ekp.1_Missense_Mutation_p.V255M|NLRC5_uc002ekq.1_Translation_Start_Site|NLRC5_uc002ekr.1_Missense_Mutation_p.V227M	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	1340					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)				GCCAGAGCACGTGTCCAGGCT	0.657													30	24	---	---	---	---	PASS	A	57095391	A	A	57095391	3	1	136	1	0	0	0	0	1	0	0	0	10470	1145	40	1	4132	1	NLRC5	16	57095391	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	25168868	57095391	33259362	288	48764										
PLCG2	5336	broad.mit.edu	37	chr16	81965179	81965179	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agcagggcgatcctccggtgGagtttgccacagacagggtg	16	10	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr16:81965179G>T	uc002fgt.2	+	25	2811	c.2659G>T	c.(2659-2661)GAG>TAG	p.E887*		NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	887					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						TCCTCCGGTGGAGTTTGCCAC	0.532													84	28	---	---	---	---	PASS	T	81965179	T	T	81965179	4	4	136	1	0	0	0	0	0	1	0	0	12036	1175	41	2	2753	2	PLCG2	16	81965179	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	24869788	81965179	8389574	289	48765										
TP53	7157	broad.mit.edu	37	chr17	7576878	7576887	+	Frame_Shift_Del	DEL	AGTGGTTTCT	-	-													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gggtgaaatattctccatccAgtggtttcttctttggctgg							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr17:7576878_7576887delAGTGGTTTCT	uc002gim.2	-	9	1153_1162	c.959_968delAGAAACCACT	c.(958-969)AAGAAACCACTGfs	p.K320fs	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Frame_Shift_Del_p.K320fs|TP53_uc010cne.1_RNA|TP53_uc010cnf.1_Frame_Shift_Del_p.K188fs|TP53_uc010cng.1_Frame_Shift_Del_p.K188fs|TP53_uc002gii.1_Frame_Shift_Del_p.K188fs|TP53_uc010cnh.1_Frame_Shift_Del_p.K320fs|TP53_uc010cni.1_Frame_Shift_Del_p.K320fs|TP53_uc002gij.2_Frame_Shift_Del_p.K320fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	320_323	Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Interaction with HIPK2.		L -> P (in a sporadic cancer; somatic mutation).|L -> R (in a sporadic cancer; somatic mutation).|L -> M (in a sporadic cancer; somatic mutation).|L -> G (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|L -> V (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.K321fs*24(4)|p.K320N(3)|p.K320fs*26(2)|p.K320*(2)|p.P322L(2)|p.P322R(2)|p.K321*(2)|p.S315fs*22(1)|p.L323fs*22(1)|p.K321K(1)|p.P318fs*21(1)|p.K320fs*25(1)|p.P322fs*23(1)|p.L323V(1)|p.L323R(1)|p.?(1)|p.L323P(1)|p.L308fs*15(1)|p.L323G(1)|p.L323M(1)|p.K320K(1)|p.K320fs*18(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)		TTCTCCATCCAGTGGTTTCTTCTTTGGCTG	0.457		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)			37	45	---	---	---	---		-	7576887	-	-	7576878	7	5	136	1	0	1	0	1	0	0	0	0	16378	188	7	0	314	0	TP53	17	7576878	Frame_Shift_Del	DEL	AGTGGTTTCT	TCGA-63-5128-01A-01D-1441-08		7576878	73618332	290	48766										
KDM6B	23135	broad.mit.edu	37	chr17	7752382	7752382	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gggcttgcgagacccttgtgGagcgggtgggccggagtgcc	20	10	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr17:7752382G>A	uc002giw.1	+	11	3152	c.2776G>A	c.(2776-2778)GAG>AAG	p.E926K	KDM6B_uc002gix.2_Missense_Mutation_p.E228K	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	926					inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						GACCCTTGTGGAGCGGGTGGG	0.672													10	54	---	---	---	---	PASS	A	7752382	A	A	7752382	3	1	136	1	0	0	0	0	1	0	0	0	8138	1175	41	2	2806	2	KDM6B	17	7752382	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	175504	7752382	73442828	291	48767										
MYH2	4620	broad.mit.edu	37	chr17	10428555	10428555	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atgtacctctgcttcttctaAagcagcctgaagttcacact	6	12	4	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr17:10428555A>T	uc010coi.2	-	33	4776	c.4648T>A	c.(4648-4650)TTA>ATA	p.L1550I	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.L1550I|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1550	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GCTTCTTCTAAAGCAGCCTGA	0.363													90	143	---	---	---	---	PASS	T	10428555	T	T	10428555	3	4	136	1	0	0	0	0	1	0	0	0	10035	11	1	5	1209	5	MYH2	17	10428555	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	2676173	10428555	70766655	292	48768										
MYH2	4620	broad.mit.edu	37	chr17	10443325	10443325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cataatgcatcacagcccccGtgagcttgtaaatggagacc	9	12	1	2	rs144860788		TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr17:10443325G>T	uc010coi.2	-	12	1195	c.1067C>A	c.(1066-1068)ACG>AAG	p.T356K	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.T356K|MYH2_uc010coj.2_Missense_Mutation_p.T356K	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	356	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CACAGCCCCCGTGAGCTTGTA	0.428													123	190	---	---	---	---	PASS	T	10443325	T	T	10443325	3	4	136	1	0	0	0	0	1	0	0	0	10035	1145	40	1	4874	1	MYH2	17	10443325	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	14770	10443325	70751885	293	48769										
MPRIP	23164	broad.mit.edu	37	chr17	17078674	17078674	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gctgactggggacggcggtgGggaggccactgggtcacccc	19	12	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr17:17078674G>T	uc002gqu.1	+	19	2713	c.2657G>T	c.(2656-2658)GGG>GTG	p.G886V	MPRIP_uc002gqv.1_Missense_Mutation_p.G886V|MPRIP_uc002gqw.1_Missense_Mutation_p.G641V|MPRIP_uc002gqx.1_Missense_Mutation_p.G1115V|MPRIP_uc002gqy.1_Missense_Mutation_p.G1115V|MPRIP_uc010cpl.1_Intron|MPRIP_uc010cpm.1_Intron	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	886	Potential.					cytoplasm|cytoskeleton	actin binding				0						GACGGCGGTGGGGAGGCCACT	0.622													19	34	---	---	---	---	PASS	T	17078674	T	T	17078674	3	4	136	1	0	0	0	0	1	0	0	0	9743	1232	43	3	2731	3	MPRIP	17	17078674	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	6635349	17078674	64116536	294	48770										
TOP3A	7156	broad.mit.edu	37	chr17	18205961	18205961	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctctgatcaggctcggtcagGttttcacaagctgtcctgac	10	12	4	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr17:18205961G>C	uc002gsx.1	-	6	805	c.576C>G	c.(574-576)AAC>AAG	p.N192K	TOP3A_uc002gsw.1_5'UTR|TOP3A_uc010vxs.1_Missense_Mutation_p.N90K|TOP3A_uc010cqa.1_RNA	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	192					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						GCTCGGTCAGGTTTTCACAAG	0.562													19	62	---	---	---	---	PASS	C	18205961	C	C	18205961	3	2	136	1	0	0	0	0	1	0	0	0	16364	1252	44	4	2485	4	TOP3A	17	18205961	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1127287	18205961	62989249	295	48771										
FBXL20	84961	broad.mit.edu	37	chr17	37455251	37455251	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ttatgtttttaccttaatgcAttgtctcccactccaagaca	4	11	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr17:37455251A>T	uc010wed.1	-	5	542	c.321T>A	c.(319-321)AAT>AAA	p.N107K	FBXL20_uc002hrt.2_Missense_Mutation_p.N107K|FBXL20_uc010cvu.2_Missense_Mutation_p.N107K	NM_032875	NP_116264	Q96IG2	FXL20_HUMAN	F-box and leucine-rich repeat protein 20	107	LRR 2.					cytoplasm				ovary(1)	1			LUAD - Lung adenocarcinoma(14;0.146)			ACCTTAATGCATTGTCTCCCA	0.393													19	89	---	---	---	---	PASS	T	37455251	T	T	37455251	3	4	136	1	0	0	0	0	1	0	0	0	5717	214	8	5	1033	5	FBXL20	17	37455251	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	19249290	37455251	43739959	296	48772										
NSF	4905	broad.mit.edu	37	chr17	44770377	44770377	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gagttcatgacactgttgtcAaccagttgctgtccaaaatt	8	9	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr17:44770377A>T	uc002iku.2	+	10	1158	c.1054A>T	c.(1054-1056)AAC>TAC	p.N352Y	NSF_uc010wke.1_Missense_Mutation_p.N258Y|NSF_uc010wkf.1_Missense_Mutation_p.N258Y|NSF_uc010wkg.1_Missense_Mutation_p.N347Y	NM_006178	NP_006169	P46459	NSF_HUMAN	vesicle-fusing ATPase	352					protein transport|synaptic transmission	cytosol	ATP binding|metal ion binding			ovary(1)	1		Melanoma(429;0.203)	BRCA - Breast invasive adenocarcinoma(9;0.0257)	BRCA - Breast invasive adenocarcinoma(366;0.241)		CACTGTTGTCAACCAGTTGCT	0.408													30	61	---	---	---	---	PASS	T	44770377	T	T	44770377	3	4	136	1	0	0	0	0	1	0	0	0	10671	130	5	5	1092	5	NSF	17	44770377	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	7315126	44770377	36424833	297	48773										
COIL	8161	broad.mit.edu	37	chr17	55027261	55027261	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aatacttacctggataatagTagatgaattttttaccacgt	6	6	0	2	rs147998048		TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr17:55027261T>C	uc002iuu.2	-	2	1373	c.1342A>G	c.(1342-1344)ACT>GCT	p.T448A		NM_004645	NP_004636	P38432	COIL_HUMAN	coilin	448	2 X 4 AA repeats of S-L-P-A.					Cajal body|nucleolus	protein C-terminus binding			ovary(1)	1	Breast(9;6.15e-08)					TGGATAATAGTAGATGAATTT	0.403													88	73	---	---	---	---	PASS	C	55027261	C	C	55027261	3	2	136	1	0	0	0	0	1	0	0	0	3665	1638	57	5	412	5	COIL	17	55027261	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	10256884	55027261	26167949	298	48774										
CD300A	11314	broad.mit.edu	37	chr17	72469855	72469855	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agcaggaaaaaggaacggccGagtgtccatcagggacagtc	14	9	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr17:72469855G>A	uc002jkv.2	+	2	542	c.221G>A	c.(220-222)CGA>CAA	p.R74Q	CD300A_uc002jkw.2_Intron|CD300A_uc010dfr.2_Intron|CD300A_uc010dfs.2_Intron	NM_007261	NP_009192	Q9UGN4	CLM8_HUMAN	leukocyte membrane antigen	74	Extracellular (Potential).|Ig-like V-type.				cell adhesion	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2						AGGAACGGCCGAGTGTCCATC	0.522													60	58	---	---	---	---	PASS	A	72469855	A	A	72469855	3	1	136	1	0	0	0	0	1	0	0	0	2996	1058	37	2	227	2	CD300A	17	72469855	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	17442594	72469855	8725355	299	48775										
ZNF521	25925	broad.mit.edu	37	chr18	22805045	22805045	+	Missense_Mutation	SNP	C	G	G													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggtgggtctgcatatgttccCggaggccattttcggagaag							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr18:22805045C>G	uc002kvk.2	-	4	3084	c.2837G>C	c.(2836-2838)CGG>CCG	p.R946P	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.R946P|ZNF521_uc002kvl.2_Missense_Mutation_p.R726P	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	946	C2H2-type 22.				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)					CATATGTTCCCGGAGGCCATT	0.483			T	PAX5	ALL								89	95	---	---	---	---	PASS	G	22805045	G	G	22805045	3	3	136	1	0	0	0	0	1	0	0	0	17962	652	23	4	1118	4	ZNF521	18	22805045	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08		22805045	55272203	300	48776	896	2								
ZNF521	25925	broad.mit.edu	37	chr18	22805047	22805047	+	Silent	SNP	G	A	A													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgggtctgcatatgttcccgGaggccattttcggagaagaa							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr18:22805047G>A	uc002kvk.2	-	4	3082	c.2835C>T	c.(2833-2835)CTC>CTT	p.L945L	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.L945L|ZNF521_uc002kvl.2_Silent_p.L725L	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	945	C2H2-type 22.				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)					TATGTTCCCGGAGGCCATTTT	0.483			T	PAX5	ALL								89	93	---	---	---	---	PASS	A	22805047	A	A	22805047	2	1	136	1	0	0	0	0	0	0	0	1	17962	1161	41	2		2	ZNF521	18	22805047	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	2	22805047	55272201	301	48777	896	2								
SMAD2	4087	broad.mit.edu	37	chr18	45374941	45374941	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aatttgatgggtctgtaaagCcatctacagtgagtgagggc	13	6	2	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr18:45374941C>A	uc002lcy.2	-	8	1150	c.902G>T	c.(901-903)GGC>GTC	p.G301V	SMAD2_uc002lcz.2_Missense_Mutation_p.G301V|SMAD2_uc010xdc.1_Missense_Mutation_p.G271V|SMAD2_uc010xdd.1_Missense_Mutation_p.G271V	NM_005901	NP_005892	Q15796	SMAD2_HUMAN	Sma- and Mad-related protein 2 isoform 1	301	MH2.				anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			large_intestine(3)|lung(1)|central_nervous_system(1)	5						GTCTGTAAAGCCATCTACAGT	0.418													50	99	---	---	---	---	PASS	A	45374941	A	A	45374941	3	1	136	1	0	0	0	0	1	0	0	0	14758	739	26	3	517	3	SMAD2	18	45374941	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	22569894	45374941	32702307	302	48778										
C18orf22	79863	broad.mit.edu	37	chr18	77798604	77798604	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aggctgtcctgcagagaagtGccgcgcacatgaggtgatga	15	9	0	4			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr18:77798604G>A	uc002lns.2	+	4	616	c.478G>A	c.(478-480)GCC>ACC	p.A160T	C18orf22_uc010drh.2_Missense_Mutation_p.A160T|C18orf22_uc010dri.1_Intron|C18orf22_uc002lnt.2_5'Flank	NM_024805	NP_079081	Q8N0V3	RBFA_HUMAN	hypothetical protein LOC79863 precursor	160					rRNA processing	mitochondrion					0		all_cancers(4;3.21e-14)|all_epithelial(4;7.11e-09)|all_lung(4;0.00366)|Lung NSC(4;0.00683)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0545)|all_hematologic(56;0.15)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;6.46e-08)|BRCA - Breast invasive adenocarcinoma(31;0.00376)		GCAGAGAAGTGCCGCGCACAT	0.502													58	22	---	---	---	---	PASS	A	77798604	A	A	77798604	3	1	136	1	0	0	0	0	1	0	0	0	1898	1319	46	3	492	3	C18orf22	18	77798604	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	32423663	77798604	278644	303	48779										
HMHA1	23526	broad.mit.edu	37	chr19	1081695	1081695	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggcgtgcccttcatcgtcaaGaagtgcgtctgcgagatcga	13	11	3	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:1081695G>C	uc002lqz.1	+	18	2568	c.2337G>C	c.(2335-2337)AAG>AAC	p.K779N	HMHA1_uc010xgd.1_Missense_Mutation_p.K795N|HMHA1_uc010xge.1_Missense_Mutation_p.K647N|HMHA1_uc002lra.1_Missense_Mutation_p.K619N|HMHA1_uc002lrb.1_Missense_Mutation_p.K662N|HMHA1_uc002lrc.1_Missense_Mutation_p.K414N|HMHA1_uc002lrd.1_5'Flank|HMHA1_uc010dsd.1_5'Flank	NM_012292	NP_036424	Q92619	HMHA1_HUMAN	minor histocompatibility antigen HA-1	779	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCATCGTCAAGAAGTGCGTCT	0.701													4	9	---	---	---	---	PASS	C	1081695	C	C	1081695	3	2	136	1	0	0	0	0	1	0	0	0	7240	933	33	2	2407	2	HMHA1	19	1081695	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08		1081695	58047288	304	48780										
SLC25A41	284427	broad.mit.edu	37	chr19	6429775	6429775	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tctgggagatggccacagccAgggagccagcaaggagacgc	16	11	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:6429775A>T	uc010dus.2	-	4	670	c.584T>A	c.(583-585)CTG>CAG	p.L195Q	SLC25A41_uc010dut.2_Missense_Mutation_p.L57Q	NM_173637	NP_775908	Q8N5S1	S2541_HUMAN	solute carrier family 25, member 41	195	Solcar 2.|Helical; Name=3; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0						GGCCACAGCCAGGGAGCCAGC	0.577													25	10	---	---	---	---	PASS	T	6429775	T	T	6429775	3	4	136	1	0	0	0	0	1	0	0	0	14506	188	7	5	544	5	SLC25A41	19	6429775	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	5348080	6429775	52699208	305	48781										
FBN3	84467	broad.mit.edu	37	chr19	8174596	8174596	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gccgggggtgttaatgcacaCgccgttgatgcagtttactg	14	9	0	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:8174596C>T	uc002mjf.2	-	34	4396	c.4375G>A	c.(4375-4377)GTG>ATG	p.V1459M		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1459	EGF-like 23; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						TTAATGCACACGCCGTTGATG	0.622													116	39	---	---	---	---	PASS	T	8174596	T	T	8174596	3	4	136	1	0	0	0	0	1	0	0	0	5704	536	19	1	4174	1	FBN3	19	8174596	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	1744821	8174596	50954387	306	48782										
MAST1	22983	broad.mit.edu	37	chr19	12976218	12976218	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ctggtgggctatggggatcaTcctctacgagttcctggtgg	15	9	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:12976218T>C	uc002mvm.2	+	15	1855	c.1727T>C	c.(1726-1728)ATC>ACC	p.I576T		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	576	Protein kinase.				cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						ATGGGGATCATCCTCTACGAG	0.602													163	101	---	---	---	---	PASS	C	12976218	C	C	12976218	3	2	136	1	0	0	0	0	1	0	0	0	9324	1435	50	5	1785	5	MAST1	19	12976218	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	4801622	12976218	46152765	307	48783										
NOTCH3	4854	broad.mit.edu	37	chr19	15273333	15273333	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agcagggccaaagtggcttcCacgttgttcacagccgcagc	12	13	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:15273333C>T	uc002nan.2	-	32	5932	c.5856G>A	c.(5854-5856)GTG>GTA	p.V1952V		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1952	Cytoplasmic (Potential).|ANK 4.				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			AAGTGGCTTCCACGTTGTTCA	0.587													24	21	---	---	---	---	PASS	T	15273333	T	T	15273333	2	4	136	1	0	0	0	0	0	0	0	1	10550	581	21	3		3	NOTCH3	19	15273333	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	2297115	15273333	43855650	308	48784										
CPAMD8	27151	broad.mit.edu	37	chr19	17013536	17013536	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tcatcatcgtcagctgggggCcagtctcctcgggaaccctc	11	15	4	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:17013536C>A	uc002nfb.2	-	35	4781	c.4749G>T	c.(4747-4749)TGG>TGT	p.W1583C	CPAMD8_uc002nfd.1_Missense_Mutation_p.W48C	NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1536						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						CAGCTGGGGGCCAGTCTCCTC	0.657													29	49	---	---	---	---	PASS	A	17013536	A	A	17013536	3	1	136	1	0	0	0	0	1	0	0	0	3795	740	26	3	1081	3	CPAMD8	19	17013536	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	1740203	17013536	42115447	309	48785										
USHBP1	83878	broad.mit.edu	37	chr19	17369130	17369130	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gtcactcatgggggcttcgtCtcctgctcctgagtcggcct	12	14	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:17369130C>T	uc002nfs.1	-	8	1224	c.1111G>A	c.(1111-1113)GAC>AAC	p.D371N	USHBP1_uc002nfr.1_5'UTR|USHBP1_uc002nft.1_RNA|USHBP1_uc010xpk.1_Missense_Mutation_p.D307N	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	371							PDZ domain binding			ovary(1)	1						GGGGCTTCGTCTCCTGCTCCT	0.577													55	86	---	---	---	---	PASS	T	17369130	T	T	17369130	3	4	136	1	0	0	0	0	1	0	0	0	17034	913	32	2	1024	2	USHBP1	19	17369130	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	355594	17369130	41759853	310	48786										
LRRC25	126364	broad.mit.edu	37	chr19	18507223	18507223	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agagtctccaggccagcacaGggccagcgatggcaagtcca	13	13	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:18507223G>C	uc002niw.2	-	1	1193	c.551C>G	c.(550-552)CCT>CGT	p.P184R	LRRC25_uc002nix.2_Missense_Mutation_p.P184R	NM_145256	NP_660299	Q8N386	LRC25_HUMAN	leucine rich repeat containing 25 precursor	184	Helical; (Potential).					integral to membrane					0						GGCCAGCACAGGGCCAGCGAT	0.657													23	29	---	---	---	---	PASS	C	18507223	C	C	18507223	3	2	136	1	0	0	0	0	1	0	0	0	8980	1000	35	4	374	4	LRRC25	19	18507223	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1138093	18507223	40621760	311	48787										
ZNF430	80264	broad.mit.edu	37	chr19	21240178	21240178	+	Missense_Mutation	SNP	A	G	G													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agaatgtggcaaagcttttaAccaatcctcaacccttacta							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:21240178A>G	uc002npj.2	+	5	1174	c.1064A>G	c.(1063-1065)AAC>AGC	p.N355S	ZNF430_uc002npk.2_Missense_Mutation_p.N354S	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	355	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						AAAGCTTTTAACCAATCCTCA	0.388													4	106	---	---	---	---	PASS	G	21240178	G	G	21240178	3	3	136	1	0	0	0	0	1	0	0	0	17901	43	2	5	1082	5	ZNF430	19	21240178	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	2732955	21240178	37888805	312	48788	897	2								
ZNF430	80264	broad.mit.edu	37	chr19	21240182	21240182	+	Silent	SNP	A	G	G													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgtggcaaagcttttaaccaAtcctcaacccttactacaca							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:21240182A>G	uc002npj.2	+	5	1178	c.1068A>G	c.(1066-1068)CAA>CAG	p.Q356Q	ZNF430_uc002npk.2_Silent_p.Q355Q	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	356	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						CTTTTAACCAATCCTCAACCC	0.383													4	107	---	---	---	---	PASS	G	21240182	G	G	21240182	2	3	136	1	0	0	0	0	0	0	0	1	17901	98	4	5		5	ZNF430	19	21240182	Silent	SNP	A	TCGA-63-5128-01A-01D-1441-08	4	21240182	37888801	313	48789	897	2								
ZNF429	353088	broad.mit.edu	37	chr19	21719898	21719898	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	caaatgtgaagaatgtggcaAagcctttaactggtcttcaa	9	7	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:21719898A>C	uc002nqd.1	+	4	1180	c.1043A>C	c.(1042-1044)AAA>ACA	p.K348T	ZNF429_uc010ecu.1_Intron	NM_001001415	NP_001001415	Q86V71	ZN429_HUMAN	zinc finger protein 429	348	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GAATGTGGCAAAGCCTTTAAC	0.398													23	77	---	---	---	---	PASS	C	21719898	C	C	21719898	3	2	136	1	0	0	0	0	1	0	0	0	17899	14	1	5	1057	5	ZNF429	19	21719898	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	479716	21719898	37409085	314	48790										
MLL4	9757	broad.mit.edu	37	chr19	36220127	36220127	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	caactgtgccatctggtcggCggaagtcttcgaggagaacg	14	10	2	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:36220127C>A	uc010eei.2	+	23	4847	c.4847C>A	c.(4846-4848)GCG>GAG	p.A1616E		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1616					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			ATCTGGTCGGCGGAAGTCTTC	0.632													3	25	---	---	---	---	PASS	A	36220127	A	A	36220127	3	1	136	1	0	0	0	0	1	0	0	0	9623	768	27	1	4933	1	MLL4	19	36220127	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	14500229	36220127	22908856	315	48791										
MLL4	9757	broad.mit.edu	37	chr19	36223655	36223655	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	acggcgtggacgacggcactGacagtgaggctgaggcggtg	19	9	0	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:36223655G>C	uc010eei.2	+	29	6205	c.6205G>C	c.(6205-6207)GAC>CAC	p.D2069H		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2069					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CGACGGCACTGACAGTGAGGC	0.706													9	12	---	---	---	---	PASS	C	36223655	C	C	36223655	3	2	136	1	0	0	0	0	1	0	0	0	9623	1290	45	2	6315	2	MLL4	19	36223655	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	3528	36223655	22905328	316	48792										
TMEM145	284339	broad.mit.edu	37	chr19	42819206	42819206	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tggcaagtccttctggacacGacacttctccgctgatgagt	10	12	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:42819206G>T	uc002otk.1	+	6	534	c.482G>T	c.(481-483)CGA>CTA	p.R161L		NM_173633	NP_775904	Q8NBT3	TM145_HUMAN	transmembrane protein 145	161						integral to membrane					0		Prostate(69;0.00682)				TTCTGGACACGACACTTCTCC	0.597													44	94	---	---	---	---	PASS	T	42819206	T	T	42819206	3	4	136	1	0	0	0	0	1	0	0	0	16056	1058	37	2	504	2	TMEM145	19	42819206	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	6595551	42819206	16309777	317	48793										
ZNF283	284349	broad.mit.edu	37	chr19	44341242	44341242	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggatgtggccatcgacttctCtcaggaggagtgggaatgcc	15	9	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:44341242C>A	uc002oxr.3	+	6	516	c.248C>A	c.(247-249)TCT>TAT	p.S83Y	ZNF283_uc002oxp.3_Intron	NM_181845	NP_862828	Q8N7M2	ZN283_HUMAN	zinc finger protein 283	83	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				ATCGACTTCTCTCAGGAGGAG	0.443													4	182	---	---	---	---	PASS	A	44341242	A	A	44341242	3	1	136	1	0	0	0	0	1	0	0	0	17817	913	32	2	258	2	ZNF283	19	44341242	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	1522036	44341242	14787741	318	48794										
SYMPK	8189	broad.mit.edu	37	chr19	46351143	46351143	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tccacaaacttgatggcgtgGgtgcggatgccgtcattgtc	13	10	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:46351143G>A	uc002pdn.2	-	7	788	c.543C>T	c.(541-543)ACC>ACT	p.T181T	SYMPK_uc002pdo.1_Silent_p.T181T|SYMPK_uc002pdp.1_Silent_p.T181T|SYMPK_uc002pdq.1_Silent_p.T181T	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	181					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		TGATGGCGTGGGTGCGGATGC	0.587													30	50	---	---	---	---	PASS	A	46351143	A	A	46351143	2	1	136	1	0	0	0	0	0	0	0	1	15436	1219	43	3		3	SYMPK	19	46351143	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	2009901	46351143	12777840	319	48795										
POLD1	5424	broad.mit.edu	37	chr19	50918710	50918710	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tacagagaccctgagggcgcGgtggctcacgcacaggacgt	15	12	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:50918710G>T	uc002psb.3	+	21	2636	c.2580G>T	c.(2578-2580)GCG>GCT	p.A860A	POLD1_uc002psc.3_Silent_p.A860A|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Silent_p.A886A	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	860					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		CTGAGGGCGCGGTGGCTCACG	0.657								DNA_polymerases_(catalytic_subunits)					34	35	---	---	---	---	PASS	T	50918710	T	T	50918710	2	4	136	1	0	0	0	0	0	0	0	1	12190	1103	39	1		1	POLD1	19	50918710	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	4567567	50918710	8210273	320	48796										
ZNF665	79788	broad.mit.edu	37	chr19	53668521	53668521	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atactgagtgaaaaccttgaCgcattcattacatttgaaag	7	7	1	4			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:53668521C>T	uc010eqm.1	-	4	1322	c.1222G>A	c.(1222-1224)GTC>ATC	p.V408I		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	343	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		AAAACCTTGACGCATTCATTA	0.398													21	100	---	---	---	---	PASS	T	53668521	T	T	53668521	3	4	136	1	0	0	0	0	1	0	0	0	18070	536	19	1	818	1	ZNF665	19	53668521	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	2749811	53668521	5460462	321	48797										
LAIR2	3904	broad.mit.edu	37	chr19	55019392	55019392	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agtgacttcctggagctgctGgtgaaaggtaaggacgtcac	14	8	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:55019392G>C	uc002qgc.2	+	3	479	c.357G>C	c.(355-357)CTG>CTC	p.L119L	LAIR2_uc002qga.1_RNA|LAIR2_uc002qgb.1_RNA|LAIR2_uc002qgd.2_Silent_p.L119L|LAIR2_uc010erl.2_Intron	NM_002288	NP_002279	Q6ISS4	LAIR2_HUMAN	leukocyte-associated immunoglobulin-like	119						extracellular region	receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0967)		TGGAGCTGCTGGTGAAAGGTA	0.577													59	104	---	---	---	---	PASS	C	55019392	C	C	55019392	2	2	136	1	0	0	0	0	0	0	0	1	8603	1335	47	4		4	LAIR2	19	55019392	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	1350871	55019392	4109591	322	48798										
ZNF329	79673	broad.mit.edu	37	chr19	58639614	58639614	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggcttctcgccagtatgaatCctctgatgcctgatgaggta	11	10	2	4			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr19:58639614C>T	uc002qrn.2	-	4	1494	c.1257G>A	c.(1255-1257)AGG>AGA	p.R419R	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	419	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		CAGTATGAATCCTCTGATGCC	0.468													20	76	---	---	---	---	PASS	T	58639614	T	T	58639614	2	4	136	1	0	0	0	0	0	0	0	1	17844	854	30	2		2	ZNF329	19	58639614	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	3620222	58639614	489369	323	48799										
TGM6	343641	broad.mit.edu	37	chr20	2384444	2384444	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	agtgactcccgcgtggacatCactgacctctacaagtatcc	8	14	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr20:2384444C>A	uc002wfy.1	+	9	1372	c.1311C>A	c.(1309-1311)ATC>ATA	p.I437I	TGM6_uc010gal.1_Silent_p.I437I	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	437					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	GCGTGGACATCACTGACCTCT	0.592													88	132	---	---	---	---	PASS	A	2384444	A	A	2384444	2	1	136	1	0	0	0	0	0	0	0	1	15831	816	29	2		2	TGM6	20	2384444	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08		2384444	60641076	324	48800										
LBP	3929	broad.mit.edu	37	chr20	36975018	36975018	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aaccccggcttggtcgccagGatcaccgacaagggactgca	12	14	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr20:36975018G>T	uc002xic.1	+	1	134	c.99G>T	c.(97-99)AGG>AGT	p.R33S		NM_004139	NP_004130	P18428	LBP_HUMAN	lipopolysaccharide-binding protein precursor	33					acute-phase response|cellular defense response|cellular response to lipoteichoic acid|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|detection of molecule of bacterial origin|innate immune response|lipid transport|lipopolysaccharide transport|lipopolysaccharide-mediated signaling pathway|macrophage activation involved in immune response|negative regulation of tumor necrosis factor production|opsonization|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of macrophage activation|positive regulation of respiratory burst involved in inflammatory response|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of tumor necrosis factor production|Toll signaling pathway	extracellular space	Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|lipid binding|lipopolysaccharide binding|lipoteichoic acid binding|receptor binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.00878)				TGGTCGCCAGGATCACCGACA	0.627													36	10	---	---	---	---	PASS	T	36975018	T	T	36975018	3	4	136	1	0	0	0	0	1	0	0	0	8651	1165	41	2	101	2	LBP	20	36975018	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	34590574	36975018	26050502	325	48801										
LBP	3929	broad.mit.edu	37	chr20	36989421	36989421	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cttatctccaaactctgccaGgtaggacaccccatccatcc	5	17	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr20:36989421G>T	uc002xic.1	+	6	687	c.652G>T	c.(652-654)GTT>TTT	p.V218F		NM_004139	NP_004130	P18428	LBP_HUMAN	lipopolysaccharide-binding protein precursor	218					acute-phase response|cellular defense response|cellular response to lipoteichoic acid|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|detection of molecule of bacterial origin|innate immune response|lipid transport|lipopolysaccharide transport|lipopolysaccharide-mediated signaling pathway|macrophage activation involved in immune response|negative regulation of tumor necrosis factor production|opsonization|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of macrophage activation|positive regulation of respiratory burst involved in inflammatory response|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of tumor necrosis factor production|Toll signaling pathway	extracellular space	Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|lipid binding|lipopolysaccharide binding|lipoteichoic acid binding|receptor binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.00878)				AACTCTGCCAGGTAGGACACC	0.388													84	30	---	---	---	---	PASS	T	36989421	T	T	36989421	3	4	136	1	0	0	0	0	1	0	0	0	8651	1014	35	3	674	3	LBP	20	36989421	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	14403	36989421	26036099	326	48802										
ZNFX1	57169	broad.mit.edu	37	chr20	47886767	47886775	+	In_Frame_Del	DEL	CCTCCTGGA	-	-													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	cctctggaagggaacatcttCctcctggacctcctggagtc							TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr20:47886767_47886775delCCTCCTGGA	uc002xui.2	-	3	1821_1829	c.1574_1582delTCCAGGAGG	c.(1573-1584)GTCCAGGAGGAA>GAA	p.VQE525del		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	525_527							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GGAACATCTTCCTCCTGGACCTCCTGGAG	0.522													50	61	---	---	---	---		-	47886775	-	-	47886767	7	5	136	1	0	1	0	1	0	0	0	0	18202	864	30	0	4222	0	ZNFX1	20	47886767	In_Frame_Del	DEL	CCTCCTGGA	TCGA-63-5128-01A-01D-1441-08	10897346	47886767	15138753	327	48803										
GGTLC2	91227	broad.mit.edu	37	chr22	22989255	22989255	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aggtccgctccccggtcagcGagatcctgttcaatgatgaa	11	12	2	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr22:22989255G>T	uc010gtt.2	+	2	242	c.208G>T	c.(208-210)GAG>TAG	p.E70*	LOC96610_uc011aim.1_Intron|POM121L1P_uc011ait.1_5'Flank|GGTLC2_uc010gts.2_Nonsense_Mutation_p.E70*	NM_199127	NP_954578	Q14390	GGTL2_HUMAN	gamma-glutamyltransferase-like 4 isoform 1	70					glutathione biosynthetic process		gamma-glutamyltransferase activity			ovary(1)	1	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.3e-31)|Acute lymphoblastic leukemia(6;5.54e-23)		READ - Rectum adenocarcinoma(21;0.145)		CCCGGTCAGCGAGATCCTGTT	0.582													73	112	---	---	---	---	PASS	T	22989255	T	T	22989255	4	4	136	1	0	0	0	0	0	1	0	0	6366	1059	37	2	214	2	GGTLC2	22	22989255	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08		22989255	28315311	328	48804										
IFT27	11020	broad.mit.edu	37	chr22	37163876	37163876	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	catcactgcggaagatctgtGccagggcggtcttgcccact	12	13	3	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr22:37163876G>C	uc003apv.1	-	2	428	c.65C>G	c.(64-66)GCA>GGA	p.A22G	IFT27_uc003apu.1_Missense_Mutation_p.A21G|IFT27_uc003apw.1_Missense_Mutation_p.A22G|IFT27_uc010gwy.1_Missense_Mutation_p.A22G	NM_006860	NP_006851	Q9BW83	IFT27_HUMAN	RAB, member of RAS oncogene family-like 4	22					small GTPase mediated signal transduction	intraflagellar transport particle B|microtubule-based flagellum	GTP binding				0						GAAGATCTGTGCCAGGGCGGT	0.522													168	334	---	---	---	---	PASS	C	37163876	C	C	37163876	3	2	136	1	0	0	0	0	1	0	0	0	7559	1319	46	4	519	4	IFT27	22	37163876	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	14174621	37163876	14140690	329	48805										
ELFN2	114794	broad.mit.edu	37	chr22	37770143	37770143	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ggcggtgggcagcttctcccCgatcatggaggggatggagg	19	9	2	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr22:37770143C>A	uc003asq.3	-	3	2218	c.1432G>T	c.(1432-1434)GGG>TGG	p.G478W		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	478	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					AGCTTCTCCCCGATCATGGAG	0.667													70	105	---	---	---	---	PASS	A	37770143	A	A	37770143	3	1	136	1	0	0	0	0	1	0	0	0	5058	652	23	1	1034	1	ELFN2	22	37770143	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	606267	37770143	13534423	330	48806										
TRIOBP	11078	broad.mit.edu	37	chr22	38109217	38109217	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gggtctgtctcctctcccagGggcccatccccctcagcagg	11	18	4	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr22:38109217G>C	uc003atr.2	+	5	526	c.255G>C	c.(253-255)AGG>AGC	p.R85S	TRIOBP_uc003atu.2_Intron|TRIOBP_uc003atq.1_Missense_Mutation_p.R85S|TRIOBP_uc003ats.1_Intron	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	85					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CCTCTCCCAGGGGCCCATCCC	0.642													23	25	---	---	---	---	PASS	C	38109217	C	C	38109217	3	2	136	1	0	0	0	0	1	0	0	0	16550	1246	43	4	265	4	TRIOBP	22	38109217	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	339074	38109217	13195349	331	48807										
APOBEC3H	164668	broad.mit.edu	37	chr22	39496312	39496312	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gttaacagccgaaacattccGcttacagtttaacaacaagc	6	11	0	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr22:39496312G>T	uc011aoh.1	+	2	95	c.29G>T	c.(28-30)CGC>CTC	p.R10L	APOBEC3H_uc011aoi.1_5'Flank|APOBEC3H_uc003axa.3_5'Flank	NM_181773	NP_861438	Q6NTF7	ABC3H_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	10					DNA cytosine deamination|negative regulation of retroviral genome replication|negative regulation of transposition	cytoplasm|nucleus	cytidine deaminase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Melanoma(58;0.04)					GAAACATTCCGCTTACAGTTT	0.542													60	104	---	---	---	---	PASS	T	39496312	T	T	39496312	3	4	136	1	0	0	0	0	1	0	0	0	795	1087	38	1	31	1	APOBEC3H	22	39496312	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1387095	39496312	11808254	332	48808										
FAM83F	113828	broad.mit.edu	37	chr22	40415247	40415247	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tggatgctgcctgtaagcgcCgggtcccagtgtacatcatc	12	12	1	0	rs147568761	byFrequency	TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr22:40415247C>A	uc003ayk.1	+	2	659	c.565C>A	c.(565-567)CGG>AGG	p.R189R		NM_138435	NP_612444	Q8NEG4	FA83F_HUMAN	hypothetical protein LOC113828	189										breast(1)	1						CTGTAAGCGCCGGGTCCCAGT	0.532													59	108	---	---	---	---	PASS	A	40415247	A	A	40415247	2	1	136	1	0	0	0	0	0	0	0	1	5638	643	23	1		1	FAM83F	22	40415247	Silent	SNP	C	TCGA-63-5128-01A-01D-1441-08	918935	40415247	10889319	333	48809										
TTLL8	164714	broad.mit.edu	37	chr22	50483723	50483723	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gctgctcccggcctcctcccTctggtccctgggcttgcttc	10	19	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chr22:50483723T>A	uc011ark.1	-	6	604	c.604A>T	c.(604-606)AGG>TGG	p.R202W		NM_001080447	NP_001073916			tubulin tyrosine ligase-like family, member 8											ovary(2)	2		all_cancers(38;3.44e-07)|all_epithelial(38;2.44e-06)|all_lung(38;0.00141)|Breast(42;0.00519)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		READ - Rectum adenocarcinoma(2;0.000882)|Colorectal(2;0.00311)|BRCA - Breast invasive adenocarcinoma(115;0.226)		GCCTCCTCCCTCTGGTCCCTG	0.682													11	15	---	---	---	---	PASS	A	50483723	A	A	50483723	3	1	136	1	0	0	0	0	1	0	0	0	16730	1550	54	5	1935	5	TTLL8	22	50483723	Missense_Mutation	SNP	T	TCGA-63-5128-01A-01D-1441-08	10068476	50483723	820843	334	48810										
CNKSR2	22866	broad.mit.edu	37	chrX	21549999	21549999	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aaaaaggaaaccttccttgtGaagacctcagaggacatatg	9	8	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chrX:21549999G>T	uc004czx.1	+	11	1153	c.1117G>T	c.(1117-1119)GAA>TAA	p.E373*	CNKSR2_uc004czw.2_Nonsense_Mutation_p.E373*|CNKSR2_uc011mjn.1_Nonsense_Mutation_p.E324*|CNKSR2_uc011mjo.1_Nonsense_Mutation_p.E373*|CNKSR2_uc004czy.2_5'UTR	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	373	DUF1170.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						CCTTCCTTGTGAAGACCTCAG	0.393													60	11	---	---	---	---	PASS	T	21549999	T	T	21549999	4	4	136	1	0	0	0	0	0	1	0	0	3607	1291	45	2	1159	2	CNKSR2	23	21549999	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08		21549999	133720561	335	48811										
MAGEB2	4113	broad.mit.edu	37	chrX	30236958	30236958	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tctaaaaaaggtgccaagagCcaccaaggtgagaaaaatgc	10	8	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chrX:30236958C>G	uc004dbz.2	+	2	364	c.261C>G	c.(259-261)AGC>AGG	p.S87R		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	87							protein binding			ovary(1)	1						GTGCCAAGAGCCACCAAGGTG	0.552													9	1	---	---	---	---	PASS	G	30236958	G	G	30236958	3	3	136	1	0	0	0	0	1	0	0	0	9176	738	26	4	263	4	MAGEB2	23	30236958	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	8686959	30236958	125033602	336	48812										
ZC4H2	55906	broad.mit.edu	37	chrX	64141803	64141803	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ccttcaggtgcctttcctctGactcaagtgcctcaaactca	6	15	5	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chrX:64141803G>T	uc004dvu.2	-	2	207	c.119C>A	c.(118-120)TCA>TAA	p.S40*	ZC4H2_uc004dvv.2_Nonsense_Mutation_p.S17*|ZC4H2_uc011mov.1_Nonsense_Mutation_p.S17*|ZC4H2_uc011mow.1_Nonsense_Mutation_p.S40*|ZC4H2_uc004dvw.1_Nonsense_Mutation_p.S40*	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	40	Potential.						metal ion binding|protein binding	p.S40L(1)		ovary(1)	1						CCTTTCCTCTGACTCAAGTGC	0.507													29	4	---	---	---	---	PASS	T	64141803	T	T	64141803	4	4	136	1	0	0	0	0	0	1	0	0	17575	1294	45	2	590	2	ZC4H2	23	64141803	Nonsense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	33904845	64141803	91128757	337	48813										
HEPH	9843	broad.mit.edu	37	chrX	65427994	65427994	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gaagttggtgatatcctgacTgtggtattcaagaataatgc	11	5	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chrX:65427994T>A	uc011moz.1	+	15	2538	c.2478T>A	c.(2476-2478)ACT>ACA	p.T826T	HEPH_uc004dwn.2_Silent_p.T826T|HEPH_uc004dwo.2_Silent_p.T556T|HEPH_uc010nkr.2_Silent_p.T634T|HEPH_uc011mpa.1_Silent_p.T826T|HEPH_uc010nks.2_Silent_p.T115T	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	823	Extracellular (Potential).|Plastocyanin-like 5.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						ATATCCTGACTGTGGTATTCA	0.428													20	4	---	---	---	---	PASS	A	65427994	A	A	65427994	2	1	136	1	0	0	0	0	0	0	0	1	7054	1567	55	5		5	HEPH	23	65427994	Silent	SNP	T	TCGA-63-5128-01A-01D-1441-08	1286191	65427994	89842566	338	48814										
GPR174	84636	broad.mit.edu	37	chrX	78427296	78427296	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tccaatgaaattaaaagctgCctagccagaagggtgattct	9	8	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chrX:78427296C>A	uc004edg.1	+	1	828	c.792C>A	c.(790-792)TGC>TGA	p.C264*		NM_032553	NP_115942	Q9BXC1	GP174_HUMAN	putative purinergic receptor FKSG79	264	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)|central_nervous_system(1)	2						TTAAAAGCTGCCTAGCCAGAA	0.383										HNSCC(63;0.18)			34	58	---	---	---	---	PASS	A	78427296	A	A	78427296	4	1	136	1	0	0	0	0	0	1	0	0	6672	747	26	3	794	3	GPR174	23	78427296	Nonsense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	12999302	78427296	76843264	339	48815										
KLHL4	56062	broad.mit.edu	37	chrX	86888827	86888827	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tctaaatactgtagaaagatGggaccctgagggacgacagt	12	7	1	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chrX:86888827G>T	uc004efb.2	+	8	1810	c.1628G>T	c.(1627-1629)TGG>TTG	p.W543L	KLHL4_uc004efa.2_Missense_Mutation_p.W543L	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	543	Kelch 3.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GTAGAAAGATGGGACCCTGAG	0.403													49	4	---	---	---	---	PASS	T	86888827	T	T	86888827	3	4	136	1	0	0	0	0	1	0	0	0	8391	1357	47	3	1658	3	KLHL4	23	86888827	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	8461531	86888827	68381733	340	48816										
KLHL4	56062	broad.mit.edu	37	chrX	86890576	86890576	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tatctagattatatgctattGgtggacgtgatggaagttcc	11	5	1	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chrX:86890576G>T	uc004efb.2	+	9	1908	c.1726G>T	c.(1726-1728)GGT>TGT	p.G576C	KLHL4_uc004efa.2_Missense_Mutation_p.G576C	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	576	Kelch 4.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						ATATGCTATTGGTGGACGTGA	0.388													31	8	---	---	---	---	PASS	T	86890576	T	T	86890576	3	4	136	1	0	0	0	0	1	0	0	0	8391	1348	47	3	1760	3	KLHL4	23	86890576	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	1749	86890576	68379984	341	48817										
MUM1L1	139221	broad.mit.edu	37	chrX	105451000	105451000	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	aatgaagatgccagggaaccGatggctgtaacttcccagac	11	10	0	3			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chrX:105451000G>T	uc004emf.1	+	4	2224	c.1575G>T	c.(1573-1575)CCG>CCT	p.P525P	MUM1L1_uc004emg.1_Silent_p.P525P	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	525										ovary(2)|pancreas(1)|skin(1)	4						CCAGGGAACCGATGGCTGTAA	0.448													30	6	---	---	---	---	PASS	T	105451000	T	T	105451000	2	4	136	1	0	0	0	0	0	0	0	1	9986	1045	37	2		2	MUM1L1	23	105451000	Silent	SNP	G	TCGA-63-5128-01A-01D-1441-08	18560424	105451000	49819560	342	48818										
DOCK11	139818	broad.mit.edu	37	chrX	117777531	117777531	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	tgtcgctgaaacatgtatttGcctcactgagagctttcatc	8	10	2	2			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chrX:117777531G>A	uc004eqp.2	+	40	4435	c.4372G>A	c.(4372-4374)GCC>ACC	p.A1458T	DOCK11_uc004eqq.2_Missense_Mutation_p.A1237T	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1458					blood coagulation	cytosol	GTP binding			ovary(3)	3						ACATGTATTTGCCTCACTGAG	0.408													213	32	---	---	---	---	PASS	A	117777531	A	A	117777531	3	1	136	1	0	0	0	0	1	0	0	0	4686	1319	46	3	4530	3	DOCK11	23	117777531	Missense_Mutation	SNP	G	TCGA-63-5128-01A-01D-1441-08	12326531	117777531	37493029	343	48819										
XIAP	331	broad.mit.edu	37	chrX	123034381	123034381	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	atcctatggtacaagaagctAtacgaatggggttcagtttc	10	7	1	1			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chrX:123034381A>G	uc010nqu.2	+	6	1264	c.1138A>G	c.(1138-1140)ATA>GTA	p.I380V	XIAP_uc004etx.2_Missense_Mutation_p.I380V|XIAP_uc010nqv.2_Missense_Mutation_p.I6V	NM_001167	NP_001158	P98170	XIAP_HUMAN	baculoviral IAP repeat-containing protein 4	380					anti-apoptosis|apoptosis|induction of apoptosis by intracellular signals|response to DNA damage stimulus	cytosol	caspase inhibitor activity|ligase activity|protein binding|zinc ion binding			ovary(1)|lung(1)	2						ACAAGAAGCTATACGAATGGG	0.323									X-linked_Lymphoproliferative_syndrome				54	4	---	---	---	---	PASS	G	123034381	G	G	123034381	3	3	136	1	0	0	0	0	1	0	0	0	17425	449	16	5	1156	5	XIAP	23	123034381	Missense_Mutation	SNP	A	TCGA-63-5128-01A-01D-1441-08	5256850	123034381	32236179	344	48820										
GABRE	2564	broad.mit.edu	37	chrX	151123842	151123843	+	Frame_Shift_Ins	INS	-	C	C													0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	ccatacccagctcatacatgINSgcggagtttaggagaagcat					rs141069947		TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chrX:151123842_151123843insC	uc004ffi.2	-	8	1188_1189	c.1134_1135insG	c.(1132-1137)CGCCATfs	p.R378fs	GABRE_uc011myd.1_RNA	NM_004961	NP_004952	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor,	378_379	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GCTCATACATGGCGGAGTTTAG	0.52													11	46	---	---	---	---		C	151123843	C	C	151123842	7	5	136	1	0	1	1	0	0	0	0	0	6170	1348	47	0	393	0	GABRE	23	151123842	Frame_Shift_Ins	INS	-	TCGA-63-5128-01A-01D-1441-08	28089461	151123842	4146718	345	48821										
IRAK1	3654	broad.mit.edu	37	chrX	153278532	153278532	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0558823529411765	19	0.288017906990213	1.20618615371482	1.39487316898892	1.11796884787238	0.266835660720813	0.655970999271999	0	gggatcctgggccactccccCagctcgattctcctgccgtg	11	17	1	0			TCGA-63-5128-01A-01D-1441-08	TCGA-63-5128-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	d3b9b51e-eeea-4355-829d-ee35bdd2cf5b	ba850774-da7f-4c60-8977-0371711da3f9	g.chrX:153278532C>A	uc004fjs.1	-	12	1971	c.1892G>T	c.(1891-1893)TGG>TTG	p.W631L	IRAK1_uc004fjr.1_Missense_Mutation_p.W601L|IRAK1_uc004fjt.1_Missense_Mutation_p.W552L|IRAK1_uc010nur.2_Intron	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	631					activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|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|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCCACTCCCCCAGCTCGATTC	0.677													9	16	---	---	---	---	PASS	A	153278532	A	A	153278532	3	1	136	1	0	0	0	0	1	0	0	0	7821	595	21	3	258	3	IRAK1	23	153278532	Missense_Mutation	SNP	C	TCGA-63-5128-01A-01D-1441-08	2154690	153278532	1992028	346	48822										
PLA2G2A	5320	broad.mit.edu	37	chr1	20304528	20304528	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cacaggtgattctgctccccGagttgctaaacttgtagctc	9	12	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:20304528G>A	uc001bcu.2	-	4	490	c.272C>T	c.(271-273)TCG>TTG	p.S91L	PLA2G2A_uc001bcv.2_Missense_Mutation_p.S91L|PLA2G2A_uc010oda.1_Missense_Mutation_p.S91L|PLA2G2A_uc010odb.1_Missense_Mutation_p.S91L	NM_001161729	NP_001155201	P14555	PA2GA_HUMAN	phospholipase A2, group IIA precursor	91					defense response to Gram-positive bacterium|lipid catabolic process|low-density lipoprotein particle remodeling|phosphatidic acid metabolic process|positive regulation of inflammatory response|positive regulation of macrophage derived foam cell differentiation	endoplasmic reticulum|extracellular space|membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|phospholipid binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000138)|Kidney(64;0.000171)|GBM - Glioblastoma multiforme(114;0.00032)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		TCTGCTCCCCGAGTTGCTAAA	0.448													14	69	---	---	---	---	PASS	A	20304528	A	A	20304528	3	1	137	1	0	0	0	0	1	0	0	0	11995	1059	37	2	170	2	PLA2G2A	1	20304528	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08		20304528	228946093	1	48823										
MYOM3	127294	broad.mit.edu	37	chr1	24426202	24426202	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agggacagcagcccgtagttGttggtgattcggtattttcc	13	8	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:24426202G>T	uc001bin.3	-	6	787	c.624C>A	c.(622-624)AAC>AAA	p.N208K	MYOM3_uc001bio.2_Missense_Mutation_p.N208K|MYOM3_uc001bip.1_5'UTR	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	208	Ig-like C2-type 1.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		GCCCGTAGTTGTTGGTGATTC	0.542													34	84	---	---	---	---	PASS	T	24426202	T	T	24426202	3	4	137	1	0	0	0	0	1	0	0	0	10093	1368	48	3	3817	3	MYOM3	1	24426202	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	4121674	24426202	224824419	2	48824										
CSMD2	114784	broad.mit.edu	37	chr1	34209097	34209097	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggccaggtggatgcggctctCaggcctggccaggatgagcc	17	12	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:34209097C>A	uc001bxn.1	-	14	1866	c.1837G>T	c.(1837-1839)GAG>TAG	p.E613*	CSMD2_uc001bxm.1_Nonsense_Mutation_p.E653*	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	613	Extracellular (Potential).|CUB 4.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				ATGCGGCTCTCAGGCCTGGCC	0.607													29	102	---	---	---	---	PASS	A	34209097	A	A	34209097	4	1	137	1	0	0	0	0	0	1	0	0	3945	835	29	2	8850	2	CSMD2	1	34209097	Nonsense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	9782895	34209097	215041524	3	48825										
RIMS3	9783	broad.mit.edu	37	chr1	41107406	41107406	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgcggaagctggagtgtgctCttgctccactgagtcaggcc	14	11	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:41107406C>G	uc001cfu.1	-	3	661	c.192G>C	c.(190-192)AAG>AAC	p.K64N	RIMS3_uc001cfv.1_Missense_Mutation_p.K64N	NM_014747	NP_055562	Q9UJD0	RIMS3_HUMAN	regulating synaptic membrane exocytosis 3	64					neurotransmitter transport	cell junction|synapse					0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.47e-17)			GGAGTGTGCTCTTGCTCCACT	0.662													20	71	---	---	---	---	PASS	G	41107406	G	G	41107406	3	3	137	1	0	0	0	0	1	0	0	0	13369	912	32	2	758	2	RIMS3	1	41107406	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	6898309	41107406	208143215	4	48826										
SLC2A1	6513	broad.mit.edu	37	chr1	43392786	43392786	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	actttggctggctcccccctGccggaagccggaagcgatct	12	15	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:43392786G>A	uc001cik.2	-	10	1930	c.1405C>T	c.(1405-1407)CAG>TAG	p.Q469*		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	469	Cytoplasmic (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	GCTCCCCCCTGCCGGAAGCCG	0.577													58	79	---	---	---	---	PASS	A	43392786	A	A	43392786	4	1	137	1	0	0	0	0	0	1	0	0	14538	1328	46	3	77	3	SLC2A1	1	43392786	Nonsense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	2285380	43392786	205857835	5	48827										
DNAJC6	9829	broad.mit.edu	37	chr1	65851519	65851519	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	acaaacagaggaatggatgtCgcccttactgtgatgtactc	10	9	0	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:65851519C>A	uc001dcd.1	+	7	918	c.754C>A	c.(754-756)CGC>AGC	p.R252S	DNAJC6_uc001dcc.1_Missense_Mutation_p.R283S|DNAJC6_uc010opc.1_Missense_Mutation_p.R239S|DNAJC6_uc001dce.1_Missense_Mutation_p.R309S	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	252	C2 tensin-type.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						GAATGGATGTCGCCCTTACTG	0.418													57	55	---	---	---	---	PASS	A	65851519	A	A	65851519	3	1	137	1	0	0	0	0	1	0	0	0	4653	884	31	2	780	2	DNAJC6	1	65851519	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	22458733	65851519	183399102	6	48828										
PTGFR	5737	broad.mit.edu	37	chr1	79002200	79002200	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tcaaatcttagatccttgggTatatattcttctacgaaagg	7	7	4	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:79002200T>A	uc001din.2	+	3	1174	c.908T>A	c.(907-909)GTA>GAA	p.V303E	PTGFR_uc001dim.2_3'UTR	NM_000959	NP_000950	P43088	PF2R_HUMAN	prostaglandin F receptor isoform a precursor	303	Helical; Name=7; (Potential).				parturition	extracellular region|integral to plasma membrane	prostaglandin F receptor activity			ovary(3)|breast(2)|skin(1)	6				Colorectal(170;0.248)	Bimatoprost(DB00905)|Latanoprost(DB00654)|Travoprost(DB00287)	GATCCTTGGGTATATATTCTT	0.398													39	169	---	---	---	---	PASS	A	79002200	A	A	79002200	3	1	137	1	0	0	0	0	1	0	0	0	12749	1638	57	5	989	5	PTGFR	1	79002200	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	13150681	79002200	170248421	7	48829										
COL11A1	1301	broad.mit.edu	37	chr1	103453275	103453275	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agggccatcttcccctcttgGgccaatttgaccaacttctc	7	15	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:103453275G>A	uc001dul.2	-	30	2734	c.2416C>T	c.(2416-2418)CCA>TCA	p.P806S	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Missense_Mutation_p.P818S|COL11A1_uc001dun.2_Missense_Mutation_p.P767S|COL11A1_uc009weh.2_Missense_Mutation_p.P690S	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	806	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TCCCCTCTTGGGCCAATTTGA	0.388													31	100	---	---	---	---	PASS	A	103453275	A	A	103453275	3	1	137	1	0	0	0	0	1	0	0	0	3667	1232	43	3	3156	3	COL11A1	1	103453275	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	24451075	103453275	145797346	8	48830										
SARS	6301	broad.mit.edu	37	chr1	109779170	109779170	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	accaagaagatgatggacaaGgtagatggcccccagggagg	15	8	0	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:109779170G>A	uc001dwu.1	+	9	1332	c.1257G>A	c.(1255-1257)AAG>AAA	p.K419K	SARS_uc001dwv.1_Silent_p.K419K|SARS_uc001dww.1_Silent_p.K352K|SARS_uc001dwx.1_Silent_p.K371K|SARS_uc009wfa.1_Intron|SARS_uc001dwy.1_Silent_p.K244K|SARS_uc001dwz.1_Silent_p.K244K	NM_006513	NP_006504	P49591	SYSC_HUMAN	seryl-tRNA synthetase	419					seryl-tRNA aminoacylation|tRNA processing	cytosol	ATP binding|protein binding|RNA binding|serine-tRNA ligase activity			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0301)|Lung(183;0.0677)|COAD - Colon adenocarcinoma(174;0.116)|Epithelial(280;0.233)	L-Serine(DB00133)	TGATGGACAAGGTAGATGGCC	0.557													15	69	---	---	---	---	PASS	A	109779170	A	A	109779170	2	1	137	1	0	0	0	0	0	0	0	1	13844	1014	35	3		3	SARS	1	109779170	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	6325895	109779170	139471451	9	48831										
GSTM5	2949	broad.mit.edu	37	chr1	110254936	110254936	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atccgcaccaaccagcaccaTgcccatgactctggggtact	8	16	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:110254936T>A	uc001dyn.2	+	1	73	c.2T>A	c.(1-3)ATG>AAG	p.M1K	GSTM5_uc010ovu.1_5'UTR	NM_000851	NP_000842	P46439	GSTM5_HUMAN	glutathione S-transferase mu 5	1					xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity			central_nervous_system(6)	6		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Colorectal(144;0.0131)|all cancers(265;0.0252)|Epithelial(280;0.0265)|Lung(183;0.0425)|COAD - Colon adenocarcinoma(174;0.0474)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	ACCAGCACCATGCCCATGACT	0.667													82	250	---	---	---	---	PASS	A	110254936	A	A	110254936	3	1	137	1	0	0	0	0	1	0	0	0	6841	1464	51	5	4	5	GSTM5	1	110254936	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	475766	110254936	138995685	10	48832										
CD53	963	broad.mit.edu	37	chr1	111434971	111434971	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggattcttcctttcagatctGtggctgctgcattttgggct	11	9	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:111434971G>T	uc001dzw.2	+	4	239	c.68G>T	c.(67-69)TGT>TTT	p.C23F	CD53_uc001dzx.2_Missense_Mutation_p.C23F|CD53_uc010owa.1_Missense_Mutation_p.C23F|CD53_uc001dzy.2_Missense_Mutation_p.C23F	NM_001040033	NP_001035122	P19397	CD53_HUMAN	CD53 antigen	23	Helical; (Potential).				signal transduction	integral to membrane|plasma membrane					0		all_cancers(81;1.06e-05)|all_epithelial(167;1.95e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0264)|Colorectal(144;0.0375)|all cancers(265;0.11)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.141)|LUSC - Lung squamous cell carcinoma(189;0.144)		TTTCAGATCTGTGGCTGCTGC	0.458													40	48	---	---	---	---	PASS	T	111434971	T	T	111434971	3	4	137	1	0	0	0	0	1	0	0	0	3023	1377	48	3	74	3	CD53	1	111434971	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	1180035	111434971	137815650	11	48833										
BCL9	607	broad.mit.edu	37	chr1	147083634	147083634	+	Translation_Start_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgcaagctcaggatttcaatCaatgcattccagtaacccta	6	11	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:147083634C>G	uc001epq.2	+	4	739	c.-1C>G	c.(-3-1)ATCAA>ATGAA		BCL9_uc010ozr.1_Translation_Start_Site	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9						Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					GGATTTCAATCAATGCATTCC	0.577			T	IGH@|IGL@	B-ALL								35	74	---	---	---	---	PASS	G	147083634	G	G	147083634	1	3	137	1	0	0	0	0	0	0	0	0	1381	841	29	2		2	BCL9	1	147083634	Translation_Start_Site	SNP	C	TCGA-63-5131-01A-01D-1441-08	35648663	147083634	102166987	12	48834										
RPRD2	23248	broad.mit.edu	37	chr1	150443105	150443105	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gtgaagctgcctcacagagcActtcagcctcccctgccaac	8	17	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:150443105A>C	uc009wlr.2	+	11	1882	c.1681A>C	c.(1681-1683)ACT>CCT	p.T561P	RPRD2_uc010pcc.1_Missense_Mutation_p.T535P|RPRD2_uc001eup.3_Missense_Mutation_p.T535P	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	561	Ser-rich.						protein binding			ovary(1)	1						CTCACAGAGCACTTCAGCCTC	0.478													14	27	---	---	---	---	PASS	C	150443105	C	C	150443105	3	2	137	1	0	0	0	0	1	0	0	0	13617	159	6	5	1723	5	RPRD2	1	150443105	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	3359471	150443105	98807516	13	48835										
ZNF687	57592	broad.mit.edu	37	chr1	151260226	151260226	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctgggccaagtacagggggcGgcacagtgatatcacggacc	15	11	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:151260226G>C	uc001exq.2	+	2	1557	c.1459G>C	c.(1459-1461)GGC>CGC	p.G487R	ZNF687_uc001exp.1_Missense_Mutation_p.G496R|ZNF687_uc009wmo.2_Missense_Mutation_p.G487R|ZNF687_uc009wmp.2_Missense_Mutation_p.G487R	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	487					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TACAGGGGGCGGCACAGTGAT	0.607													39	97	---	---	---	---	PASS	C	151260226	C	C	151260226	3	2	137	1	0	0	0	0	1	0	0	0	18089	1116	39	4	1461	4	ZNF687	1	151260226	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	817121	151260226	97990395	14	48836										
INTS3	65123	broad.mit.edu	37	chr1	153745435	153745435	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tctccctggcggaggaatatGaggactcttccaccaagcca	10	13	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:153745435G>A	uc009wom.2	+	30	3150	c.2929G>A	c.(2929-2931)GAG>AAG	p.E977K	INTS3_uc001fct.2_Missense_Mutation_p.E977K|INTS3_uc001fcu.2_Missense_Mutation_p.E669K|INTS3_uc001fcv.2_Missense_Mutation_p.E771K|INTS3_uc010peb.1_Missense_Mutation_p.E837K|INTS3_uc001fcw.2_Missense_Mutation_p.E490K|INTS3_uc010pec.1_Missense_Mutation_p.E490K|INTS3_uc001fcy.2_Missense_Mutation_p.E340K|INTS3_uc001fcx.2_Missense_Mutation_p.E274K	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	978					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GGAGGAATATGAGGACTCTTC	0.562													58	143	---	---	---	---	PASS	A	153745435	A	A	153745435	3	1	137	1	0	0	0	0	1	0	0	0	7779	1291	45	2	3043	2	INTS3	1	153745435	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	2485209	153745435	95505186	15	48837										
GATAD2B	57459	broad.mit.edu	37	chr1	153782741	153782741	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gtcggtctgccaaactggggCctttgtgtcctccgatgcca	12	13	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:153782741C>T	uc001fdb.3	-	11	1938	c.1694G>A	c.(1693-1695)GGC>GAC	p.G565D		NM_020699	NP_065750	Q8WXI9	P66B_HUMAN	GATA zinc finger domain containing 2B	565						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_lung(78;1.34e-32)|Lung NSC(65;1.04e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			CAAACTGGGGCCTTTGTGTCC	0.488													44	64	---	---	---	---	PASS	T	153782741	T	T	153782741	3	4	137	1	0	0	0	0	1	0	0	0	6261	739	26	3	91	3	GATAD2B	1	153782741	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	37306	153782741	95467880	16	48838										
NUP210L	91181	broad.mit.edu	37	chr1	153973458	153973458	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agtgaagttgaccactcttaCagagtaaatggccaggccag	11	9	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:153973458C>T	uc001fdw.2	-	37	5332	c.5260G>A	c.(5260-5262)GTA>ATA	p.V1754I	NUP210L_uc009woq.2_Missense_Mutation_p.V663I|NUP210L_uc010peh.1_Intron	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	1754						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			ACCACTCTTACAGAGTAAATG	0.488													75	150	---	---	---	---	PASS	T	153973458	T	T	153973458	3	4	137	1	0	0	0	0	1	0	0	0	10761	478	17	3	422	3	NUP210L	1	153973458	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	190717	153973458	95277163	17	48839										
SPTA1	6708	broad.mit.edu	37	chr1	158596725	158596725	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agcagctattgccttagccaGagaaggggtcttttcattca	10	9	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:158596725G>A	uc001fst.1	-	41	5936	c.5737C>T	c.(5737-5739)CTG>TTG	p.L1913L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1913	Spectrin 18.				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)					GCCTTAGCCAGAGAAGGGGTC	0.438													87	179	---	---	---	---	PASS	A	158596725	A	A	158596725	2	1	137	1	0	0	0	0	0	0	0	1	15115	933	33	2		2	SPTA1	1	158596725	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	4623267	158596725	90653896	18	48840										
DNM3	26052	broad.mit.edu	37	chr1	172051015	172051015	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agtctcttacatcaacaccaAccatgaagacttcattggct	5	12	3	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:172051015A>G	uc001gie.2	+	12	1642	c.1466A>G	c.(1465-1467)AAC>AGC	p.N489S	DNM3_uc001gid.3_Missense_Mutation_p.N489S|DNM3_uc009wwb.2_Missense_Mutation_p.N489S|DNM3_uc001gif.2_Missense_Mutation_p.N489S	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	489					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						ATCAACACCAACCATGAAGAC	0.363													47	127	---	---	---	---	PASS	G	172051015	G	G	172051015	3	3	137	1	0	0	0	0	1	0	0	0	4673	43	2	5	1512	5	DNM3	1	172051015	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	13454290	172051015	77199606	19	48841										
TDRD5	163589	broad.mit.edu	37	chr1	179561943	179561943	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tggacatgcctgatgttgttCgtgtctgccccggtgcaggt	14	10	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:179561943C>A	uc001gnf.1	+	2	443	c.193C>A	c.(193-195)CGT>AGT	p.R65S	TDRD5_uc010pnp.1_Missense_Mutation_p.R65S|uc010pno.1_5'Flank	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	65	Lotus/OST-HTH 1.				DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						TGATGTTGTTCGTGTCTGCCC	0.423													43	103	---	---	---	---	PASS	A	179561943	A	A	179561943	3	1	137	1	0	0	0	0	1	0	0	0	15730	884	31	2	195	2	TDRD5	1	179561943	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	7510928	179561943	69688678	20	48842										
NAV1	89796	broad.mit.edu	37	chr1	201687762	201687762	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gccccagcaagctcagccatAtctcccgcctggagctggtc	10	17	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:201687762A>G	uc001gwu.2	+	3	1452	c.1105A>G	c.(1105-1107)ATC>GTC	p.I369V		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	369					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						GCTCAGCCATATCTCCCGCCT	0.642													70	111	---	---	---	---	PASS	G	201687762	G	G	201687762	3	3	137	1	0	0	0	0	1	0	0	0	10183	449	16	5	1115	5	NAV1	1	201687762	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	22125819	201687762	47562859	21	48843										
PRELP	5549	broad.mit.edu	37	chr1	203452317	203452317	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gtgcatcacctggatcatgaGgtcacccctctgctggctcc	10	15	4	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:203452317G>A	uc001gzs.2	+	2	205	c.5G>A	c.(4-6)AGG>AAG	p.R2K	PRELP_uc001gzt.2_Missense_Mutation_p.R2K	NM_002725	NP_002716	P51888	PRELP_HUMAN	proline arginine-rich end leucine-rich repeat	2					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent			ovary(1)|central_nervous_system(1)|pancreas(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.109)			TGGATCATGAGGTCACCCCTC	0.572													83	220	---	---	---	---	PASS	A	203452317	A	A	203452317	3	1	137	1	0	0	0	0	1	0	0	0	12473	1000	35	3	7	3	PRELP	1	203452317	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	1764555	203452317	45798304	22	48844										
PM20D1	148811	broad.mit.edu	37	chr1	205801751	205801751	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gcagtaatattgacttccggGaagacggactgtacggtctg	13	8	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:205801751G>A	uc001hdj.2	-	11	1305	c.1260C>T	c.(1258-1260)TTC>TTT	p.F420F	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	420						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			TGACTTCCGGGAAGACGGACT	0.562													40	95	---	---	---	---	PASS	A	205801751	A	A	205801751	2	1	137	1	0	0	0	0	0	0	0	1	12128	1165	41	2		2	PM20D1	1	205801751	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	2349434	205801751	43448870	23	48845										
C1orf107	27042	broad.mit.edu	37	chr1	210012355	210012355	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aagaaaatcattgtgagcaaCaaaaagaggtttcagggaga	11	4	2	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:210012355C>A	uc001hhr.1	+	7	1240	c.1164C>A	c.(1162-1164)AAC>AAA	p.N388K	C1orf107_uc009xcu.1_Missense_Mutation_p.N103K	NM_014388	NP_055203	Q68CQ4	DIEXF_HUMAN	digestive-organ expansion factor homolog	388					multicellular organismal development	nucleus					0				OV - Ovarian serous cystadenocarcinoma(81;0.0367)		TTGTGAGCAACAAAAAGAGGT	0.493													60	138	---	---	---	---	PASS	A	210012355	A	A	210012355	3	1	137	1	0	0	0	0	1	0	0	0	1981	477	17	3	1190	3	C1orf107	1	210012355	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	4210604	210012355	39238266	24	48846										
KCNH1	3756	broad.mit.edu	37	chr1	211192563	211192563	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gtctttggtgcctcttgcttGtactggggaaggatgtctga	14	7	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:211192563G>C	uc001hib.2	-	6	764	c.594C>G	c.(592-594)TAC>TAG	p.Y198*	KCNH1_uc001hic.2_Nonsense_Mutation_p.Y198*	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	198	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		CCTCTTGCTTGTACTGGGGAA	0.428													30	108	---	---	---	---	PASS	C	211192563	C	C	211192563	4	2	137	1	0	0	0	0	0	1	0	0	8031	1372	48	4	2399	4	KCNH1	1	211192563	Nonsense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	1180208	211192563	38058058	25	48847										
MOSC1	64757	broad.mit.edu	37	chr1	220970070	220970070	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tcctgaagtcacagccctacCgcctggtgcacttcgagcct	9	16	1	1	rs144056103		TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:220970070C>T	uc001hms.2	+	3	783	c.535C>T	c.(535-537)CGC>TGC	p.R179C	MOSC1_uc001hmt.2_Missense_Mutation_p.R179C	NM_022746	NP_073583	Q5VT66	MOSC1_HUMAN	MOCO sulphurase C-terminal domain containing 1	179							molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.0358)		ACAGCCCTACCGCCTGGTGCA	0.602													29	37	---	---	---	---	PASS	T	220970070	T	T	220970070	3	4	137	1	0	0	0	0	1	0	0	0	9713	652	23	1	545	1	MOSC1	1	220970070	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	9777507	220970070	28280551	26	48848										
ITPKB	3707	broad.mit.edu	37	chr1	226924191	226924191	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gctctcccagacggctcagtGagggcaagatcctgtggacg	14	12	2	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:226924191G>A	uc010pvo.1	-	2	1309	c.969C>T	c.(967-969)CTC>CTT	p.L323L	ITPKB_uc001hqh.2_Silent_p.L323L	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	323							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				ACGGCTCAGTGAGGGCAAGAT	0.627													48	69	---	---	---	---	PASS	A	226924191	A	A	226924191	2	1	137	1	0	0	0	0	0	0	0	1	7918	1277	45	2		2	ITPKB	1	226924191	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	5954121	226924191	22326430	27	48849										
OBSCN	84033	broad.mit.edu	37	chr1	228529182	228529182	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	caggtggagggggatgaccgCgccttcgaggtgtggcagga	20	8	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:228529182C>T	uc009xez.1	+	74	17945	c.17901C>T	c.(17899-17901)CGC>CGT	p.R5967R	OBSCN_uc001hsn.2_Silent_p.R5967R|OBSCN_uc001hsr.1_Silent_p.R596R	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5967	PH.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGGATGACCGCGCCTTCGAGG	0.637													8	19	---	---	---	---	PASS	T	228529182	T	T	228529182	2	4	137	1	0	0	0	0	0	0	0	1	10812	755	27	1		1	OBSCN	1	228529182	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	1604991	228529182	20721439	28	48850										
RYR2	6262	broad.mit.edu	37	chr1	237777821	237777821	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	catacagatgctgacagaagCtgttaaagagggcagtcttc	11	8	1	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:237777821C>A	uc001hyl.1	+	37	5513	c.5393C>A	c.(5392-5394)GCT>GAT	p.A1798D		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1798	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CTGACAGAAGCTGTTAAAGAG	0.463													118	261	---	---	---	---	PASS	A	237777821	A	A	237777821	3	1	137	1	0	0	0	0	1	0	0	0	13769	797	28	3	5539	3	RYR2	1	237777821	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	9248639	237777821	11472800	29	48851										
OR2M2	391194	broad.mit.edu	37	chr1	248343407	248343407	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atctttttagtggccttcatGggaaactctgtcatggttct	9	8	5	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:248343407G>T	uc010pzf.1	+	1	120	c.120G>T	c.(118-120)ATG>ATT	p.M40I		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TGGCCTTCATGGGAAACTCTG	0.522													39	415	---	---	---	---	PASS	T	248343407	T	T	248343407	3	4	137	1	0	0	0	0	1	0	0	0	11010	1348	47	3	122	3	OR2M2	1	248343407	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	10565586	248343407	907214	30	48852										
OR2T34	127068	broad.mit.edu	37	chr1	248737448	248737448	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgaggatgcagcacaggtacGtgagcatcttatagagggag	15	6	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr1:248737448G>T	uc001iep.1	-	1	611	c.611C>A	c.(610-612)ACG>AAG	p.T204K		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GCACAGGTACGTGAGCATCTT	0.517													64	308	---	---	---	---	PASS	T	248737448	T	T	248737448	3	4	137	1	0	0	0	0	1	0	0	0	11025	1145	40	1	349	1	OR2T34	1	248737448	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	394041	248737448	513173	31	48853										
TPO	7173	broad.mit.edu	37	chr2	1507739	1507739	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gatgtgaacgagtgtgcagaCggtgcccaccccccctgcca	12	15	0	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:1507739C>A	uc002qww.2	+	14	2497	c.2406C>A	c.(2404-2406)GAC>GAA	p.D802E	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.D745E|TPO_uc002qwr.2_Missense_Mutation_p.D802E|TPO_uc002qwx.2_Missense_Mutation_p.D745E|TPO_uc010yio.1_Missense_Mutation_p.D629E|TPO_uc010yip.1_Intron|TPO_uc002qwy.1_Intron|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	802	Extracellular (Potential).|EGF-like; calcium-binding (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	AGTGTGCAGACGGTGCCCACC	0.642													29	41	---	---	---	---	PASS	A	1507739	A	A	1507739	3	1	137	1	0	0	0	0	1	0	0	0	16407	535	19	1	2456	1	TPO	2	1507739	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08		1507739	241691634	32	48854										
ASAP2	8853	broad.mit.edu	37	chr2	9490936	9490936	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttgttttttgcttttaaacaGgctaaccggcctcctgcaaa	7	10	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:9490936G>A	uc002qzh.2	+	12	1364	c.1024_splice	c.e12-1	p.A342_splice	ASAP2_uc002qzi.2_Splice_Site_p.A342_splice	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH						regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						CTTTTAAACAGGCTAACCGGC	0.468													8	58	---	---	---	---	PASS	A	9490936	A	A	9490936	5	1	137	1	0	0	0	0	0	0	1	0	1011	1014	35	3	1069	3	ASAP2	2	9490936	Splice_Site	SNP	G	TCGA-63-5131-01A-01D-1441-08	7983197	9490936	233708437	33	48855										
GREB1	9687	broad.mit.edu	37	chr2	11780490	11780490	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gtccgcctggagctcgaggaCgagtggcagttccggctgcg	17	12	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:11780490C>G	uc002rbk.1	+	33	6060	c.5760C>G	c.(5758-5760)GAC>GAG	p.D1920E	GREB1_uc002rbp.1_Missense_Mutation_p.D918E	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1920						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)		AGCTCGAGGACGAGTGGCAGT	0.627													7	40	---	---	---	---	PASS	G	11780490	G	G	11780490	3	3	137	1	0	0	0	0	1	0	0	0	6760	535	19	4	5994	4	GREB1	2	11780490	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	2289554	11780490	231418883	34	48856										
DDX1	1653	broad.mit.edu	37	chr2	15767206	15767206	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aaaaaaggacaccagttctcAtgtgtttgtcttcatggtga	9	7	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:15767206A>T	uc002rce.2	+	20	1911	c.1623A>T	c.(1621-1623)TCA>TCT	p.S541S	DDX1_uc010yjq.1_Silent_p.S449S	NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	541	Helicase C-terminal.|Necessary for interaction with replicase polyprotein 1ab nsp14 of IBV.|Necessary for interaction with HNRNPK.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		ACCAGTTCTCATGTGTTTGTC	0.343													38	52	---	---	---	---	PASS	T	15767206	T	T	15767206	2	4	137	1	0	0	0	0	0	0	0	1	4341	204	8	5		5	DDX1	2	15767206	Silent	SNP	A	TCGA-63-5131-01A-01D-1441-08	3986716	15767206	227432167	35	48857										
C2orf16	84226	broad.mit.edu	37	chr2	27802598	27802598	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaagaaagtgaggactcacaGagtgattcccagacaaggat	12	7	1	5			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:27802598G>C	uc002rkz.3	+	1	3210	c.3159G>C	c.(3157-3159)CAG>CAC	p.Q1053H		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1053										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					AGGACTCACAGAGTGATTCCC	0.473													90	131	---	---	---	---	PASS	C	27802598	C	C	27802598	3	2	137	1	0	0	0	0	1	0	0	0	2157	933	33	2	3161	2	C2orf16	2	27802598	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	12035392	27802598	215396775	36	48858										
MAP4K3	8491	broad.mit.edu	37	chr2	39485729	39485729	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aacatttgtctgtggggtatCtacaatacaaacaaattttg	7	6	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:39485729C>T	uc002rro.2	-	30	2400	c.2309_splice	c.e30-1	p.D770_splice	MAP4K3_uc002rrp.2_Splice_Site_p.D749_splice|MAP4K3_uc010yns.1_Splice_Site_p.D323_splice	NM_003618	NP_003609	Q8IVH8	M4K3_HUMAN	mitogen-activated protein kinase kinase kinase						JNK cascade		ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(3)|lung(3)|stomach(1)|pancreas(1)	8		all_hematologic(82;0.211)				TGTGGGGTATCTACAATACAA	0.333													10	98	---	---	---	---	PASS	T	39485729	T	T	39485729	5	4	137	1	0	0	0	0	0	0	1	0	9261	927	32	2	396	2	MAP4K3	2	39485729	Splice_Site	SNP	C	TCGA-63-5131-01A-01D-1441-08	11683131	39485729	203713644	37	48859										
ZFP36L2	678	broad.mit.edu	37	chr2	43452461	43452461	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	acgtgccgctctcctcgaagGgccggcacagctcggtcttg	13	15	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:43452461G>C	uc002rsv.3	-	2	773	c.482C>G	c.(481-483)CCC>CGC	p.P161R	LOC100129726_uc010ynx.1_5'Flank	NM_006887	NP_008818	P47974	TISD_HUMAN	zinc finger protein 36, C3H type-like 2	161	C3H1-type 1.				cell proliferation	nucleus	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(82;0.00323)|all_hematologic(82;0.00824)				CTCCTCGAAGGGCCGGCACAG	0.652													21	28	---	---	---	---	PASS	C	43452461	C	C	43452461	3	2	137	1	0	0	0	0	1	0	0	0	17644	1232	43	4	1006	4	ZFP36L2	2	43452461	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	3966732	43452461	199746912	38	48860										
CCDC88A	55704	broad.mit.edu	37	chr2	55601952	55601952	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cttaattttaatacttaccaGaaaagggatttttgccaatg	6	6	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:55601952G>A	uc002ryv.2	-	4	1183	c.341C>T	c.(340-342)TCT>TTT	p.S114F	CCDC88A_uc010yoz.1_Missense_Mutation_p.S114F|CCDC88A_uc010ypa.1_Missense_Mutation_p.S114F|CCDC88A_uc010ypb.1_Missense_Mutation_p.S16F	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	114					activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						ATACTTACCAGAAAAGGGATT	0.194													13	128	---	---	---	---	PASS	A	55601952	A	A	55601952	3	1	137	1	0	0	0	0	1	0	0	0	2863	942	33	2	5390	2	CCDC88A	2	55601952	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	12149491	55601952	187597421	39	48861										
FANCL	55120	broad.mit.edu	37	chr2	58459241	58459241	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cactatcctaaggtggaagtCtcttccctgtggaaaatatt	8	9	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:58459241C>A	uc002rzw.3	-	2	170	c.103G>T	c.(103-105)GAC>TAC	p.D35Y	FANCL_uc002rzx.3_Missense_Mutation_p.D35Y|FANCL_uc010fce.2_Missense_Mutation_p.D35Y|FANCL_uc010fcf.1_Intron	NM_018062	NP_060532	Q9NW38	FANCL_HUMAN	Fanconi anemia, complementation group L isoform	35					DNA repair	cytoplasm|nucleoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						AGGTGGAAGTCTCTTCCCTGT	0.348								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				47	47	---	---	---	---	PASS	A	58459241	A	A	58459241	3	1	137	1	0	0	0	0	1	0	0	0	5670	913	32	2	1091	2	FANCL	2	58459241	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	2857289	58459241	184740132	40	48862										
AFTPH	54812	broad.mit.edu	37	chr2	64780404	64780404	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggctactgaatctcatcatcGaaaggaagcctggcagtcac	10	11	3	1	rs145180972	byFrequency	TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:64780404G>C	uc002sdc.2	+	1	1828	c.1796G>C	c.(1795-1797)CGA>CCA	p.R599P	AFTPH_uc002scz.2_Missense_Mutation_p.R599P|AFTPH_uc002sda.2_Missense_Mutation_p.R599P|AFTPH_uc002sdb.2_Missense_Mutation_p.R599P	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	599					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						TCTCATCATCGAAAGGAAGCC	0.448													29	183	---	---	---	---	PASS	C	64780404	C	C	64780404	3	2	137	1	0	0	0	0	1	0	0	0	364	1058	37	2	1798	2	AFTPH	2	64780404	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	6321163	64780404	178418969	41	48863										
AFTPH	54812	broad.mit.edu	37	chr2	64780445	64780445	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ataggacagatgaaaatattGatactccaggaacccccaaa	7	9	0	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:64780445G>C	uc002sdc.2	+	1	1869	c.1837G>C	c.(1837-1839)GAT>CAT	p.D613H	AFTPH_uc002scz.2_Missense_Mutation_p.D613H|AFTPH_uc002sda.2_Missense_Mutation_p.D613H|AFTPH_uc002sdb.2_Missense_Mutation_p.D613H	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	613					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						TGAAAATATTGATACTCCAGG	0.463													28	163	---	---	---	---	PASS	C	64780445	C	C	64780445	3	2	137	1	0	0	0	0	1	0	0	0	364	1290	45	2	1839	2	AFTPH	2	64780445	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	41	64780445	178418928	42	48864										
TIA1	7072	broad.mit.edu	37	chr2	70457920	70457920	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cttccgtccattcatagcagCtaatgctgcagctgcatgac	8	13	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:70457920C>G	uc002sgj.3	-	3	407	c.190G>C	c.(190-192)GCT>CCT	p.A64P	TIA1_uc002sgk.3_Missense_Mutation_p.A64P|TIA1_uc002sgl.3_RNA|TIA1_uc002sgm.3_Missense_Mutation_p.A64P|TIA1_uc010yqt.1_Missense_Mutation_p.A64P	NM_022173	NP_071505	P31483	TIA1_HUMAN	TIA1 cytotoxic granule-associated RNA binding	64	RRM 1.				apoptosis|induction of apoptosis|regulation of nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|poly(A) RNA binding|protein binding				0						TTCATAGCAGCTAATGCTGCA	0.383													40	111	---	---	---	---	PASS	G	70457920	G	G	70457920	3	3	137	1	0	0	0	0	1	0	0	0	15884	797	28	4	1014	4	TIA1	2	70457920	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	5677475	70457920	172741453	43	48865										
ALMS1	7840	broad.mit.edu	37	chr2	73679497	73679497	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctcacgtagagagaagcccaGtgttatctctcaacaggagt	10	10	3	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:73679497G>T	uc002sje.1	+	10	5957	c.5846G>T	c.(5845-5847)AGT>ATT	p.S1949I	ALMS1_uc002sjf.1_Missense_Mutation_p.S1905I|ALMS1_uc002sjg.2_Missense_Mutation_p.S1335I|ALMS1_uc002sjh.1_Missense_Mutation_p.S1335I	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1947	34 X 47 AA approximate tandem repeat.|30.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GAGAAGCCCAGTGTTATCTCT	0.443													43	69	---	---	---	---	PASS	T	73679497	T	T	73679497	3	4	137	1	0	0	0	0	1	0	0	0	535	1029	36	3	5870	3	ALMS1	2	73679497	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	3221577	73679497	169519876	44	48866										
TACR1	6869	broad.mit.edu	37	chr2	75425883	75425883	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cactgtcctcattcttttgtGggctaagatgatccacatca	7	11	3	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:75425883G>C	uc002sng.2	-	1	763	c.178C>G	c.(178-180)CAC>GAC	p.H60D	TACR1_uc002snh.2_Missense_Mutation_p.H60D	NM_001058	NP_001049	P25103	NK1R_HUMAN	tachykinin receptor 1 isoform long	60	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|detection of abiotic stimulus|mechanosensory behavior	integral to plasma membrane	protein binding			ovary(1)	1					Aprepitant(DB00673)|Ketamine(DB01221)|Vapreotide(DB04894)	ATTCTTTTGTGGGCTAAGATG	0.522													22	36	---	---	---	---	PASS	C	75425883	C	C	75425883	3	2	137	1	0	0	0	0	1	0	0	0	15502	1348	47	4	1069	4	TACR1	2	75425883	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	1746386	75425883	167773490	45	48867										
ASTL	431705	broad.mit.edu	37	chr2	96795863	96795863	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gcatgttgctgctctgagacTtgatgaagttgatttcaaag	11	6	2	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:96795863T>A	uc010yui.1	-	7	659	c.659A>T	c.(658-660)AAG>ATG	p.K220M		NM_001002036	NP_001002036	Q6HA08	ASTL_HUMAN	astacin-like metalloendopeptidase precursor	220					proteolysis		metalloendopeptidase activity|zinc ion binding				0						GCTCTGAGACTTGATGAAGTT	0.483													44	99	---	---	---	---	PASS	A	96795863	A	A	96795863	3	1	137	1	0	0	0	0	1	0	0	0	1063	1609	56	5	647	5	ASTL	2	96795863	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	21369980	96795863	146403510	46	48868										
SEPT10	151011	broad.mit.edu	37	chr2	110350640	110350640	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atactcactatctgttcatcAtctgatccttgtgaagacat	5	10	5	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:110350640A>C	uc002tew.2	-	2	466	c.87T>G	c.(85-87)GAT>GAG	p.D29E	SEPT10_uc010ywu.1_Missense_Mutation_p.D29E|SEPT10_uc002tex.2_Intron|SEPT10_uc002tey.2_Missense_Mutation_p.D29E|SEPT10_uc010ywv.1_5'UTR	NM_144710	NP_653311	Q9P0V9	SEP10_HUMAN	septin 10 isoform 1	29					cell cycle|cell division	septin complex	GTP binding				0						TCTGTTCATCATCTGATCCTT	0.323													24	151	---	---	---	---	PASS	C	110350640	C	C	110350640	3	2	137	1	0	0	0	0	1	0	0	0	14060	214	8	5	1317	5	SEPT10	2	110350640	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	13554777	110350640	132848733	47	48869										
DPP10	57628	broad.mit.edu	37	chr2	116066869	116066869	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggaagggaattgctattgctCtgctggtgattttagttgta	13	4	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:116066869C>A	uc002tla.1	+	2	572	c.115C>A	c.(115-117)CTG>ATG	p.L39M	DPP10_uc002tlb.1_Translation_Start_Site|DPP10_uc002tlc.1_Missense_Mutation_p.L35M|DPP10_uc002tle.2_Missense_Mutation_p.L43M|DPP10_uc002tlf.1_Missense_Mutation_p.L32M	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	39	Mediates effects on KCND2.|Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TGCTATTGCTCTGCTGGTGAT	0.403													46	93	---	---	---	---	PASS	A	116066869	A	A	116066869	3	1	137	1	0	0	0	0	1	0	0	0	4727	912	32	2	292	2	DPP10	2	116066869	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	5716229	116066869	127132504	48	48870										
YSK4	80122	broad.mit.edu	37	chr2	135745727	135745727	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cacaaaagatgtgagacttgGaatgtttctttctttttctt	7	6	3	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:135745727G>C	uc002tue.1	-	7	746	c.715C>G	c.(715-717)CCA>GCA	p.P239A	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Missense_Mutation_p.P126A|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_5'UTR|YSK4_uc002tui.3_Missense_Mutation_p.P256A	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	239							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		GTGAGACTTGGAATGTTTCTT	0.468													102	196	---	---	---	---	PASS	C	135745727	C	C	135745727	3	2	137	1	0	0	0	0	1	0	0	0	17492	1174	41	2	3287	2	YSK4	2	135745727	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	19678858	135745727	107453646	49	48871										
LRP1B	53353	broad.mit.edu	37	chr2	141032062	141032062	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggcaccttacacacttgtcaAcctcacattttggtccttca	5	14	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:141032062A>C	uc002tvj.1	-	85	14045	c.13073T>G	c.(13072-13074)GTT>GGT	p.V4358G		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4358	Extracellular (Potential).				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)		ACACTTGTCAACCTCACATTT	0.413										TSP Lung(27;0.18)			55	131	---	---	---	---	PASS	C	141032062	C	C	141032062	3	2	137	1	0	0	0	0	1	0	0	0	8955	43	2	5	754	5	LRP1B	2	141032062	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	5286335	141032062	102167311	50	48872										
LRP1B	53353	broad.mit.edu	37	chr2	141072664	141072664	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tcacaagttaacttacatgaAtcatctgtttatgagaagaa	6	6	3	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:141072664A>G	uc002tvj.1	-	83	13617	c.12645T>C	c.(12643-12645)GAT>GAC	p.D4215D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4215	Extracellular (Potential).|EGF-like 10.				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)		ACTTACATGAATCATCTGTTT	0.308										TSP Lung(27;0.18)			14	79	---	---	---	---	PASS	G	141072664	G	G	141072664	2	3	137	1	0	0	0	0	0	0	0	1	8955	98	4	5		5	LRP1B	2	141072664	Silent	SNP	A	TCGA-63-5131-01A-01D-1441-08	40602	141072664	102126709	51	48873										
LRP1B	53353	broad.mit.edu	37	chr2	141201916	141201916	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tacgacagtctctttcatctTcctcatcaccacagtcatct	3	15	7	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:141201916T>A	uc002tvj.1	-	65	11249	c.10277A>T	c.(10276-10278)GAA>GTA	p.E3426V		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3426	Extracellular (Potential).|LDL-receptor class A 23.				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)		TCTTTCATCTTCCTCATCACC	0.358										TSP Lung(27;0.18)			19	195	---	---	---	---	PASS	A	141201916	A	A	141201916	3	1	137	1	0	0	0	0	1	0	0	0	8955	1783	62	5	3630	5	LRP1B	2	141201916	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	129252	141201916	101997457	52	48874										
NMI	9111	broad.mit.edu	37	chr2	152139423	152139423	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aaattcatctggcgaatgctCcttaagaatttgttgtgtgt	9	6	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:152139423C>A	uc002txi.2	-	2	370	c.40G>T	c.(40-42)GAG>TAG	p.E14*	NMI_uc010zbx.1_Nonsense_Mutation_p.E14*|NMI_uc002txj.2_Nonsense_Mutation_p.E14*	NM_004688	NP_004679	Q13287	NMI_HUMAN	N-myc and STAT interactor	14					inflammatory response|JAK-STAT cascade|transcription from RNA polymerase II promoter	cytoplasm|nucleus	nucleotide binding|protein binding|transcription cofactor activity				0				BRCA - Breast invasive adenocarcinoma(221;0.0571)		GGCGAATGCTCCTTAAGAATT	0.249													37	68	---	---	---	---	PASS	A	152139423	A	A	152139423	4	1	137	1	0	0	0	0	0	1	0	0	10497	864	30	2	911	2	NMI	2	152139423	Nonsense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	10937507	152139423	91059950	53	48875										
KBTBD10	10324	broad.mit.edu	37	chr2	170374740	170374740	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttatcttcaaccccaaaaaaGgagattggaaagatctggct	8	8	3	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:170374740G>A	uc002ueu.1	+	4	1494	c.1417G>A	c.(1417-1419)GGA>AGA	p.G473R	KBTBD10_uc010zdh.1_Missense_Mutation_p.G411R	NM_006063	NP_006054	O60662	KBTBA_HUMAN	kelch repeat and BTB (POZ) domain containing 10	473	Kelch 3.				striated muscle contraction	centrosome|nucleolus|plasma membrane|pseudopodium|ruffle					0						CCCCAAAAAAGGAGATTGGAA	0.378													42	58	---	---	---	---	PASS	A	170374740	A	A	170374740	3	1	137	1	0	0	0	0	1	0	0	0	7990	1001	35	3	1431	3	KBTBD10	2	170374740	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	18235317	170374740	72824633	54	48876										
AGPS	8540	broad.mit.edu	37	chr2	178346847	178346847	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	accagtccctgaataccaaaAgtatggctcagtagctttcc	7	12	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:178346847A>C	uc002ull.2	+	11	1213	c.1166A>C	c.(1165-1167)AAG>ACG	p.K389T	AGPS_uc010zfb.1_Missense_Mutation_p.K299T	NM_003659	NP_003650	O00116	ADAS_HUMAN	alkyldihydroxyacetone phosphate synthase	389					ether lipid biosynthetic process	peroxisomal matrix|peroxisomal membrane|plasma membrane	alkylglycerone-phosphate synthase activity|flavin adenine dinucleotide binding|oxidoreductase activity			ovary(2)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0018)|Epithelial(96;0.00919)|all cancers(119;0.0358)			GAATACCAAAAGTATGGCTCA	0.323													8	64	---	---	---	---	PASS	C	178346847	C	C	178346847	3	2	137	1	0	0	0	0	1	0	0	0	394	72	3	5	1208	5	AGPS	2	178346847	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	7972107	178346847	64852526	55	48877										
TTN	7273	broad.mit.edu	37	chr2	179667021	179667021	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gccgggcagagtggaagtggAaatcacctggccatccctaa	13	11	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:179667021A>C	uc002und.2	-	3	364	c.139T>G	c.(139-141)TCC>GCC	p.S47A	TTN_uc010zfg.1_Missense_Mutation_p.S47A|TTN_uc010zfh.1_Missense_Mutation_p.S47A|TTN_uc010zfi.1_Missense_Mutation_p.S47A|TTN_uc010zfj.1_Missense_Mutation_p.S47A|TTN_uc002unb.2_Missense_Mutation_p.S47A			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	47							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)			GTGGAAGTGGAAATCACCTGG	0.517													22	55	---	---	---	---	PASS	C	179667021	C	C	179667021	3	2	137	1	0	0	0	0	1	0	0	0	16732	246	9	5	111289	5	TTN	2	179667021	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	1320174	179667021	63532352	56	48878										
SSFA2	6744	broad.mit.edu	37	chr2	182766798	182766798	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aagaaagtggcaataaaaacGatcaaaagtctcaaaaaatt	6	5	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:182766798G>T	uc002uoi.2	+	8	1340	c.1018G>T	c.(1018-1020)GAT>TAT	p.D340Y	SSFA2_uc002uoh.2_Missense_Mutation_p.D340Y|SSFA2_uc002uoj.2_Missense_Mutation_p.D340Y|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Missense_Mutation_p.D187Y|SSFA2_uc002uol.2_Missense_Mutation_p.D187Y	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	340						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			CAATAAAAACGATCAAAAGTC	0.353													12	70	---	---	---	---	PASS	T	182766798	T	T	182766798	3	4	137	1	0	0	0	0	1	0	0	0	15182	1058	37	2	1048	2	SSFA2	2	182766798	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	3099777	182766798	60432575	57	48879										
DNAH7	56171	broad.mit.edu	37	chr2	196741338	196741338	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	attttgacatgacaatattcTgagtttgagctgctgtagtt	9	5	1	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:196741338T>A	uc002utj.3	-	37	6148	c.6047A>T	c.(6046-6048)CAG>CTG	p.Q2016L		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2016	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GACAATATTCTGAGTTTGAGC	0.358													41	111	---	---	---	---	PASS	A	196741338	A	A	196741338	3	1	137	1	0	0	0	0	1	0	0	0	4606	1580	55	5	6143	5	DNAH7	2	196741338	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	13974540	196741338	46458035	58	48880										
DNAH7	56171	broad.mit.edu	37	chr2	196883987	196883987	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aactgcttgcagctaaaaaaGatttcctccaaggttttggc	8	9	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:196883987G>T	uc002utj.3	-	9	877	c.776C>A	c.(775-777)TCT>TAT	p.S259Y		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	259	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AGCTAAAAAAGATTTCCTCCA	0.333													26	110	---	---	---	---	PASS	T	196883987	T	T	196883987	3	4	137	1	0	0	0	0	1	0	0	0	4606	942	33	2	11526	2	DNAH7	2	196883987	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	142649	196883987	46315386	59	48881										
ACCN4	55515	broad.mit.edu	37	chr2	220379559	220379559	+	Frame_Shift_Del	DEL	C	-	-													0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggctgttgcccctggagcagCcccccgagacctggccacct							TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:220379559delC	uc002vma.2	+	1	508	c.494delC	c.(493-495)GCCfs	p.A165fs	ACCN4_uc010fwi.1_Frame_Shift_Del_p.A165fs|ACCN4_uc010fwj.1_Frame_Shift_Del_p.A165fs|ACCN4_uc002vly.1_Frame_Shift_Del_p.A165fs|ACCN4_uc002vlz.2_Frame_Shift_Del_p.A165fs|ACCN4_uc002vmb.2_5'Flank	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	165	Cytoplasmic (Potential).					integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		CCTGGAGCAGCCCCCCGAGAC	0.642													53	29	---	---	---	---		-	220379559	-	-	220379559	7	5	137	1	0	1	0	1	0	0	0	0	131	739	26	0	496	0	ACCN4	2	220379559	Frame_Shift_Del	DEL	C	TCGA-63-5131-01A-01D-1441-08	23495572	220379559	22819814	60	48882										
COL4A4	1286	broad.mit.edu	37	chr2	227924179	227924179	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tttatccctggcactcctgaAagacccctctttcccggggg	9	15	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr2:227924179A>G	uc010zlt.1	-	28	2979	c.2325T>C	c.(2323-2325)CTT>CTC	p.L775L		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	775	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		GCACTCCTGAAAGACCCCTCT	0.602													83	146	---	---	---	---	PASS	G	227924179	G	G	227924179	2	3	137	1	0	0	0	0	0	0	0	1	3693	1	1	5		5	COL4A4	2	227924179	Silent	SNP	A	TCGA-63-5131-01A-01D-1441-08	7544620	227924179	15275194	61	48883										
CNTN6	27255	broad.mit.edu	37	chr3	1320115	1320115	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agatattgaagactttgaaaCtaaaacaagaagcacagtat	7	5	0	5			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:1320115C>G	uc003boz.2	+	5	644	c.377C>G	c.(376-378)ACT>AGT	p.T126S	CNTN6_uc010hbo.2_Missense_Mutation_p.T121S|CNTN6_uc011asj.1_Missense_Mutation_p.T54S|CNTN6_uc003bpa.2_Missense_Mutation_p.T126S	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	126	Ig-like C2-type 2.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		GACTTTGAAACTAAAACAAGA	0.368													51	65	---	---	---	---	PASS	G	1320115	G	G	1320115	3	3	137	1	0	0	0	0	1	0	0	0	3645	565	20	4	391	4	CNTN6	3	1320115	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08		1320115	196702315	62	48884										
HRH1	3269	broad.mit.edu	37	chr3	11301811	11301811	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atccttctctcgaacggactCagataccaccacagagacag	7	14	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:11301811C>T	uc010hdr.2	+	2	1430	c.1088C>T	c.(1087-1089)TCA>TTA	p.S363L	HRH1_uc010hds.2_Missense_Mutation_p.S363L|HRH1_uc010hdt.2_Missense_Mutation_p.S363L|HRH1_uc003bwb.3_Missense_Mutation_p.S363L	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1	363	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	CGAACGGACTCAGATACCACC	0.517													55	50	---	---	---	---	PASS	T	11301811	T	T	11301811	3	4	137	1	0	0	0	0	1	0	0	0	7355	838	29	2	1090	2	HRH1	3	11301811	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	9981696	11301811	186720619	63	48885										
KCNH8	131096	broad.mit.edu	37	chr3	19295285	19295285	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agctgcaagttcttatttggGgttgaaaccaatgagcaact	10	7	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:19295285G>T	uc003cbk.1	+	2	411	c.216G>T	c.(214-216)GGG>GGT	p.G72G	KCNH8_uc011awe.1_Silent_p.G72G|KCNH8_uc010hex.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	72	Cytoplasmic (Potential).|PAS.					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						TCTTATTTGGGGTTGAAACCA	0.423													109	98	---	---	---	---	PASS	T	19295285	T	T	19295285	2	4	137	1	0	0	0	0	0	0	0	1	8038	1219	43	3		3	KCNH8	3	19295285	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	7993474	19295285	178727145	64	48886										
SCN10A	6336	broad.mit.edu	37	chr3	38770244	38770244	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggttgttacggtagttttccCctaggagctgcttgccaacc	11	11	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:38770244C>A	uc003ciq.2	-	15	2429	c.2429G>T	c.(2428-2430)GGG>GTG	p.G810V		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	810	Helical; Name=S5 of repeat II; (Potential).|II.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GTAGTTTTCCCCTAGGAGCTG	0.517													41	54	---	---	---	---	PASS	A	38770244	A	A	38770244	3	1	137	1	0	0	0	0	1	0	0	0	13912	623	22	3	3493	3	SCN10A	3	38770244	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	19474959	38770244	159252186	65	48887										
KBTBD5	131377	broad.mit.edu	37	chr3	42727965	42727965	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggggccaaggaggctgataaGggcacaagcaaagccaaagc	15	9	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:42727965G>A	uc003clv.1	+	1	955	c.855G>A	c.(853-855)AAG>AAA	p.K285K		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	285										ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		AGGCTGATAAGGGCACAAGCA	0.582													91	107	---	---	---	---	PASS	A	42727965	A	A	42727965	2	1	137	1	0	0	0	0	0	0	0	1	7996	991	35	3		3	KBTBD5	3	42727965	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	3957721	42727965	155294465	66	48888										
KBTBD5	131377	broad.mit.edu	37	chr3	42729743	42729743	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctacgtggtcggtggcagagAgatcaaggacggcgagcgct	17	9	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:42729743A>T	uc003clv.1	+	2	1362	c.1262A>T	c.(1261-1263)GAG>GTG	p.E421V		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	421	Kelch 2.									ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		GGTGGCAGAGAGATCAAGGAC	0.652													27	63	---	---	---	---	PASS	T	42729743	T	T	42729743	3	4	137	1	0	0	0	0	1	0	0	0	7996	304	11	5	1268	5	KBTBD5	3	42729743	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	1778	42729743	155292687	67	48889										
STAB1	23166	broad.mit.edu	37	chr3	52538859	52538859	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aggtggtggacgctggccggGcaggagatcaccgtcacctt	16	11	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:52538859G>T	uc003dej.2	+	12	1418	c.1344G>T	c.(1342-1344)GGG>GGT	p.G448G	STAB1_uc003dei.1_Silent_p.G448G	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	448	Extracellular (Potential).|FAS1 1.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CGCTGGCCGGGCAGGAGATCA	0.607													26	19	---	---	---	---	PASS	T	52538859	T	T	52538859	2	4	137	1	0	0	0	0	0	0	0	1	15236	1190	42	3		3	STAB1	3	52538859	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	9809116	52538859	145483571	68	48890										
STAB1	23166	broad.mit.edu	37	chr3	52551966	52551966	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gccagaggacatgtacctgcGacacagcccacaccgtgggg	13	14	0	1	rs147254311	byFrequency	TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:52551966G>A	uc003dej.2	+	45	4782	c.4708G>A	c.(4708-4710)GAC>AAC	p.D1570N	STAB1_uc003dek.1_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1570	Extracellular (Potential).|EGF-like 13.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		ATGTACCTGCGACACAGCCCA	0.607													33	29	---	---	---	---	PASS	A	52551966	A	A	52551966	3	1	137	1	0	0	0	0	1	0	0	0	15236	1058	37	2	4886	2	STAB1	3	52551966	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	13107	52551966	145470464	69	48891										
ADAMTS9	56999	broad.mit.edu	37	chr3	64554154	64554154	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	actttctaaatggcttccatCttttgccatgcagtaaacat	5	10	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:64554154C>G	uc003dmg.2	-	29	4446	c.4414G>C	c.(4414-4416)GAT>CAT	p.D1472H	ADAMTS9_uc011bfo.1_Missense_Mutation_p.D1444H|ADAMTS9_uc003dmh.1_Missense_Mutation_p.D1301H|ADAMTS9_uc011bfp.1_Missense_Mutation_p.D383H|uc003dmi.1_Intron	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1472	TSP type-1 11.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		TGGCTTCCATCTTTTGCCATG	0.443													11	91	---	---	---	---	PASS	G	64554154	G	G	64554154	3	3	137	1	0	0	0	0	1	0	0	0	273	913	32	2	1437	2	ADAMTS9	3	64554154	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	12002188	64554154	133468276	70	48892										
ROBO2	6092	broad.mit.edu	37	chr3	77607259	77607259	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cgggtagagatccaagagcaAcaattcaagagcaaggcaca	11	9	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:77607259A>G	uc003dpy.3	+	9	2039	c.1396A>G	c.(1396-1398)ACA>GCA	p.T466A	ROBO2_uc003dpz.2_Missense_Mutation_p.T470A|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.T470A	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	466	Ig-like C2-type 5.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		TCCAAGAGCAACAATTCAAGA	0.398													20	76	---	---	---	---	PASS	G	77607259	G	G	77607259	3	3	137	1	0	0	0	0	1	0	0	0	13514	43	2	5	1432	5	ROBO2	3	77607259	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	13053105	77607259	120415171	71	48893										
ROBO1	6091	broad.mit.edu	37	chr3	78706414	78706414	+	Missense_Mutation	SNP	C	A	A													0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cgagtttcattgcccagacaCcaaacctgtaagaagcacat							TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:78706414C>A	uc003dqe.2	-	18	2656	c.2448G>T	c.(2446-2448)TGG>TGT	p.W816C	ROBO1_uc003dqb.2_Missense_Mutation_p.W777C|ROBO1_uc003dqc.2_Missense_Mutation_p.W780C|ROBO1_uc003dqd.2_Missense_Mutation_p.W780C|ROBO1_uc010hoh.2_Missense_Mutation_p.W8C|ROBO1_uc011bgl.1_Missense_Mutation_p.W388C	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	816	Extracellular (Potential).|Fibronectin type-III 3.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TGCCCAGACACCAAACCTGTA	0.428													10	23	---	---	---	---	PASS	A	78706414	A	A	78706414	3	1	137	1	0	0	0	0	1	0	0	0	13513	508	18	3	2563	3	ROBO1	3	78706414	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	1099155	78706414	119316016	72	48894	898	2								
ROBO1	6091	broad.mit.edu	37	chr3	78706415	78706415	+	Missense_Mutation	SNP	C	G	G													0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gagtttcattgcccagacacCaaacctgtaagaagcacatc							TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:78706415C>G	uc003dqe.2	-	18	2655	c.2447G>C	c.(2446-2448)TGG>TCG	p.W816S	ROBO1_uc003dqb.2_Missense_Mutation_p.W777S|ROBO1_uc003dqc.2_Missense_Mutation_p.W780S|ROBO1_uc003dqd.2_Missense_Mutation_p.W780S|ROBO1_uc010hoh.2_Missense_Mutation_p.W8S|ROBO1_uc011bgl.1_Missense_Mutation_p.W388S	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	816	Extracellular (Potential).|Fibronectin type-III 3.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		GCCCAGACACCAAACCTGTAA	0.423													10	23	---	---	---	---	PASS	G	78706415	G	G	78706415	3	3	137	1	0	0	0	0	1	0	0	0	13513	595	21	4	2564	4	ROBO1	3	78706415	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	1	78706415	119316015	73	48895	898	2								
EPHB1	2047	broad.mit.edu	37	chr3	134880897	134880897	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctcctccatggccaggagtcAgaccaacacagcaaggattg	10	13	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:134880897A>T	uc003eqt.2	+	7	1680	c.1460A>T	c.(1459-1461)CAG>CTG	p.Q487L	EPHB1_uc003equ.2_Missense_Mutation_p.Q48L	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	487	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GCCAGGAGTCAGACCAACACA	0.547													16	162	---	---	---	---	PASS	T	134880897	T	T	134880897	3	4	137	1	0	0	0	0	1	0	0	0	5174	188	7	5	1486	5	EPHB1	3	134880897	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	56174482	134880897	63141533	74	48896										
NLGN1	22871	broad.mit.edu	37	chr3	173996793	173996793	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gtagagttagtggaatgcctAcagaagaagccttacaaaga	11	6	0	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:173996793A>G	uc003fio.1	+	6	1425	c.1002A>G	c.(1000-1002)CTA>CTG	p.L334L	NLGN1_uc010hww.1_Silent_p.L374L|NLGN1_uc003fip.1_Silent_p.L334L	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	351	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TGGAATGCCTACAGAAGAAGC	0.423													38	500	---	---	---	---	PASS	G	173996793	G	G	173996793	2	3	137	1	0	0	0	0	0	0	0	1	10461	378	14	5		5	NLGN1	3	173996793	Silent	SNP	A	TCGA-63-5131-01A-01D-1441-08	39115896	173996793	24025637	75	48897										
ZNF639	51193	broad.mit.edu	37	chr3	179051541	179051541	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaggatccctacatttgtaaAtactgtgattataagacagt	8	6	0	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr3:179051541A>G	uc003fjq.1	+	6	1132	c.789A>G	c.(787-789)AAA>AAG	p.K263K	ZNF639_uc003fjr.1_Silent_p.K263K	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	263	C2H2-type 3.				initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			ACATTTGTAAATACTGTGATT	0.393													93	207	---	---	---	---	PASS	G	179051541	G	G	179051541	2	3	137	1	0	0	0	0	0	0	0	1	18053	98	4	5		5	ZNF639	3	179051541	Silent	SNP	A	TCGA-63-5131-01A-01D-1441-08	5054748	179051541	18970889	76	48898										
LRPAP1	4043	broad.mit.edu	37	chr4	3521853	3521853	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agcccgtcttcctgggtgccActgagggagttgctggtcac	14	12	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:3521853A>T	uc003ghi.2	-	3	502	c.417T>A	c.(415-417)AGT>AGA	p.S139R		NM_002337	NP_002328	P30533	AMRP_HUMAN	low density lipoprotein receptor-related protein	139					negative regulation of protein binding|negative regulation of very-low-density lipoprotein particle clearance|protein folding|vesicle-mediated transport	cell surface|integral to membrane|plasma membrane	asialoglycoprotein receptor activity|heparin binding|low-density lipoprotein particle receptor binding|receptor antagonist activity|unfolded protein binding|very-low-density lipoprotein particle receptor binding			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.165)		CCTGGGTGCCACTGAGGGAGT	0.537													28	40	---	---	---	---	PASS	T	3521853	T	T	3521853	3	4	137	1	0	0	0	0	1	0	0	0	8964	156	6	5	680	5	LRPAP1	4	3521853	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08		3521853	187632423	77	48899										
COX7B2	170712	broad.mit.edu	37	chr4	46737167	46737167	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gctttgcagaatgctttgaaTcttgagactgcttagtgcat	10	7	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:46737167T>A	uc003gxf.2	-	3	223	c.43A>T	c.(43-45)ATT>TTT	p.I15F	COX7B2_uc010ige.2_RNA	NM_130902	NP_570972	Q8TF08	CX7B2_HUMAN	cytochrome c oxidase subunit VIIb2 precursor	15						integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity				0						ATGCTTTGAATCTTGAGACTG	0.428													11	115	---	---	---	---	PASS	A	46737167	A	A	46737167	3	1	137	1	0	0	0	0	1	0	0	0	3783	1435	50	5	206	5	COX7B2	4	46737167	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	43215314	46737167	144417109	78	48900										
ATP10D	57205	broad.mit.edu	37	chr4	47559926	47559926	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cagtgctccagtagctcagcTtgctgcacagaaacagagaa	10	11	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:47559926T>G	uc003gxk.1	+	12	2234	c.2070T>G	c.(2068-2070)GCT>GCG	p.A690A	ATP10D_uc003gxl.1_Intron	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	690	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						GTAGCTCAGCTTGCTGCACAG	0.552													28	91	---	---	---	---	PASS	G	47559926	G	G	47559926	2	3	137	1	0	0	0	0	0	0	0	1	1118	1596	56	5		5	ATP10D	4	47559926	Silent	SNP	T	TCGA-63-5131-01A-01D-1441-08	822759	47559926	143594350	79	48901										
UGT2B11	10720	broad.mit.edu	37	chr4	70070204	70070204	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aggtctgtactcgacattgtGttgaagtccaatctaacagc	9	9	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:70070204G>C	uc003heh.2	-	5	1263	c.1254C>G	c.(1252-1254)AAC>AAG	p.N418K	uc003hei.1_Intron	NM_001073	NP_001064	O75310	UDB11_HUMAN	UDP glucuronosyltransferase 2 family,	418					estrogen metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3						TCGACATTGTGTTGAAGTCCA	0.428													77	259	---	---	---	---	PASS	C	70070204	C	C	70070204	3	2	137	1	0	0	0	0	1	0	0	0	16954	1368	48	4	343	4	UGT2B11	4	70070204	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	22510278	70070204	121084072	80	48902										
GC	2638	broad.mit.edu	37	chr4	72634150	72634150	+	Silent	SNP	C	A	A													0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctactgtacaggactagtgaCctgaggggaaaataagacaa							TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:72634150C>A	uc003hge.2	-	3	282	c.129G>T	c.(127-129)CTG>CTT	p.L43L	GC_uc003hgd.2_5'UTR|GC_uc010iie.2_Silent_p.L43L|GC_uc010iif.2_Silent_p.L62L	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	43	Albumin 1.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	GGACTAGTGACCTGAGGGGAA	0.323													21	45	---	---	---	---	PASS	A	72634150	A	A	72634150	2	1	137	1	0	0	0	0	0	0	0	1	6282	521	18	3		3	GC	4	72634150	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	2563946	72634150	118520126	81	48903	899	2								
GC	2638	broad.mit.edu	37	chr4	72634151	72634151	+	Splice_Site	SNP	C	A	A													0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tactgtacaggactagtgacCtgaggggaaaataagacaat					rs112961993		TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:72634151C>A	uc003hge.2	-	3	282	c.129_splice	c.e3-1	p.L43_splice	GC_uc003hgd.2_Splice_Site|GC_uc010iie.2_Splice_Site_p.L43_splice|GC_uc010iif.2_Splice_Site_p.L62_splice	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor						hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	GACTAGTGACCTGAGGGGAAA	0.318													21	44	---	---	---	---	PASS	A	72634151	A	A	72634151	5	1	137	1	0	0	0	0	0	0	1	0	6282	695	24	3	1336	3	GC	4	72634151	Splice_Site	SNP	C	TCGA-63-5131-01A-01D-1441-08	1	72634151	118520125	82	48904	899	2								
MRPL1	65008	broad.mit.edu	37	chr4	78870974	78870974	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gatatgtcaagtgaccagatAgctgccaatctgcaagcagt	10	9	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:78870974A>G	uc003hku.2	+	8	999	c.801A>G	c.(799-801)ATA>ATG	p.I267M	MRPL1_uc010iji.1_Intron	NM_020236	NP_064621	Q9BYD6	RM01_HUMAN	mitochondrial ribosomal protein L1 precursor	267							RNA binding				0						GTGACCAGATAGCTGCCAATC	0.358													52	83	---	---	---	---	PASS	G	78870974	G	G	78870974	3	3	137	1	0	0	0	0	1	0	0	0	9774	410	15	5	831	5	MRPL1	4	78870974	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	6236823	78870974	112283302	83	48905										
FRAS1	80144	broad.mit.edu	37	chr4	79322022	79322022	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaaatcatctacaagattacAcaagactacccccagtttgg	6	11	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:79322022A>G	uc003hlb.2	+	30	4550	c.4110A>G	c.(4108-4110)ACA>ACG	p.T1370T	FRAS1_uc003hkw.2_Silent_p.T1370T	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	1369	CSPG 3.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						ACAAGATTACACAAGACTACC	0.483													21	33	---	---	---	---	PASS	G	79322022	G	G	79322022	2	3	137	1	0	0	0	0	0	0	0	1	6042	146	6	5		5	FRAS1	4	79322022	Silent	SNP	A	TCGA-63-5131-01A-01D-1441-08	451048	79322022	111832254	84	48906										
FRAS1	80144	broad.mit.edu	37	chr4	79418102	79418102	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atggccaccatcaccatatcCaatgatgaagatggtaacag	8	10	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:79418102C>A	uc003hlb.2	+	60	9542	c.9102C>A	c.(9100-9102)TCC>TCA	p.S3034S	FRAS1_uc003hlc.1_Silent_p.S36S	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	3029	Calx-beta 5.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TCACCATATCCAATGATGAAG	0.388													25	103	---	---	---	---	PASS	A	79418102	A	A	79418102	2	1	137	1	0	0	0	0	0	0	0	1	6042	581	21	3		3	FRAS1	4	79418102	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	96080	79418102	111736174	85	48907										
ABCG2	9429	broad.mit.edu	37	chr4	89052313	89052313	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttgttgcaagccgaagagctGctgagaactgtaagttttct	11	7	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:89052313G>T	uc003hrg.2	-	5	924	c.431C>A	c.(430-432)GCA>GAA	p.A144E	ABCG2_uc003hrh.2_Missense_Mutation_p.A144E|ABCG2_uc003hrf.2_Missense_Mutation_p.A14E	NM_004827	NP_004818	Q9UNQ0	ABCG2_HUMAN	ATP-binding cassette, sub-family G, member 2	144	ABC transporter.|Cytoplasmic (Potential).				cellular iron ion homeostasis|urate metabolic process	integral to membrane|plasma membrane	ATP binding|heme transporter activity|protein homodimerization activity|xenobiotic-transporting ATPase activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Imatinib(DB00619)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nitrendipine(DB01054)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Topotecan(DB01030)	CCGAAGAGCTGCTGAGAACTG	0.403													53	186	---	---	---	---	PASS	T	89052313	T	T	89052313	3	4	137	1	0	0	0	0	1	0	0	0	69	1319	46	3	1584	3	ABCG2	4	89052313	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	9634211	89052313	102101963	86	48908										
BANK1	55024	broad.mit.edu	37	chr4	102942683	102942683	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tttttcagatccaagaaattGacataaataatgagcaagaa	6	5	1	5			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:102942683G>A	uc003hvy.3	+	8	1493	c.1219G>A	c.(1219-1221)GAC>AAC	p.D407N	BANK1_uc003hvx.3_Missense_Mutation_p.D392N|BANK1_uc010ill.2_Missense_Mutation_p.D274N|BANK1_uc003hvz.3_Missense_Mutation_p.D377N	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	407	ANK 2.				B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		CCAAGAAATTGACATAAATAA	0.239													18	37	---	---	---	---	PASS	A	102942683	A	A	102942683	3	1	137	1	0	0	0	0	1	0	0	0	1309	1290	45	2	1249	2	BANK1	4	102942683	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	13890370	102942683	88211593	87	48909										
TACR3	6870	broad.mit.edu	37	chr4	104577502	104577502	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	taatgacgataatatggtaaCtatgaaaaataagaaaaaca	6	3	0	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:104577502C>G	uc003hxe.1	-	3	881	c.738_splice	c.e3-1	p.T246_splice		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3							integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		AATATGGTAACTATGAAAAAT	0.353													24	93	---	---	---	---	PASS	G	104577502	G	G	104577502	5	3	137	1	0	0	0	0	0	0	1	0	15504	579	20	4	672	4	TACR3	4	104577502	Splice_Site	SNP	C	TCGA-63-5131-01A-01D-1441-08	1634819	104577502	86576774	88	48910										
HSPA4L	22824	broad.mit.edu	37	chr4	128725004	128725004	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgagtgtttcatgaatgaccTtgatgtttctagtaaaatga	9	4	2	5			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:128725004T>C	uc003ifm.2	+	7	1137	c.884T>C	c.(883-885)CTT>CCT	p.L295P	HSPA4L_uc010iny.1_Missense_Mutation_p.L254P|HSPA4L_uc011cgr.1_Missense_Mutation_p.L262P	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	295					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						ATGAATGACCTTGATGTTTCT	0.323													24	81	---	---	---	---	PASS	C	128725004	C	C	128725004	3	2	137	1	0	0	0	0	1	0	0	0	7413	1609	56	5	910	5	HSPA4L	4	128725004	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	24147502	128725004	62429272	89	48911										
GYPE	2996	broad.mit.edu	37	chr4	144797984	144797984	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	caaaaataacacgagccatcGcccaccaattaatgagtgtt	6	11	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr4:144797984G>A	uc003ijj.2	-	3	217	c.161C>T	c.(160-162)GCG>GTG	p.A54V	GYPE_uc010ion.2_Intron|GYPE_uc003ijk.3_Missense_Mutation_p.A54V	NM_198682	NP_941391	P15421	GLPE_HUMAN	glycophorin E precursor	54	Helical; (Potential).					integral to plasma membrane					0	all_hematologic(180;0.158)					ACGAGCCATCGCCCACCAATT	0.348													26	9	---	---	---	---	PASS	A	144797984	A	A	144797984	3	1	137	1	0	0	0	0	1	0	0	0	6911	1087	38	1	79	1	GYPE	4	144797984	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	16072980	144797984	46356292	90	48912										
CDH9	1007	broad.mit.edu	37	chr5	26906871	26906871	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tatggctgtccttgcaatatGctatagaccactttggcact	8	10	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:26906871G>T	uc003jgs.1	-	4	769	c.600C>A	c.(598-600)AGC>AGA	p.S200R	CDH9_uc010iug.2_Missense_Mutation_p.S200R	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	200	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						CTTGCAATATGCTATAGACCA	0.383													16	94	---	---	---	---	PASS	T	26906871	T	T	26906871	3	4	137	1	0	0	0	0	1	0	0	0	3117	1310	46	3	1805	3	CDH9	5	26906871	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08		26906871	154008389	91	48913										
RXFP3	51289	broad.mit.edu	37	chr5	33936966	33936966	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cggccaacacgagtggtaacGcgtcgctgcagcttccggac	13	14	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:33936966G>T	uc003jic.1	+	1	478	c.121G>T	c.(121-123)GCG>TCG	p.A41S		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	41	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						GAGTGGTAACGCGTCGCTGCA	0.667													40	159	---	---	---	---	PASS	T	33936966	T	T	33936966	3	4	137	1	0	0	0	0	1	0	0	0	13761	1087	38	1	123	1	RXFP3	5	33936966	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	7030095	33936966	146978294	92	48914										
UGT3A2	167127	broad.mit.edu	37	chr5	36038083	36038083	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctccattatgctattctgccCgccgtgggtgacaaacagac	9	13	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:36038083C>G	uc003jjz.1	-	6	1204	c.1111G>C	c.(1111-1113)GGG>CGG	p.G371R	UGT3A2_uc011cos.1_Missense_Mutation_p.G337R|UGT3A2_uc011cot.1_Missense_Mutation_p.G69R	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	371	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTATTCTGCCCGCCGTGGGTG	0.502													34	148	---	---	---	---	PASS	G	36038083	G	G	36038083	3	3	137	1	0	0	0	0	1	0	0	0	16961	652	23	4	468	4	UGT3A2	5	36038083	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	2101117	36038083	144877177	93	48915										
UGT3A2	167127	broad.mit.edu	37	chr5	36049408	36049408	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tagtcaaaagtttcaactatCaccatgtcgaagttctcatt	5	9	4	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:36049408C>T	uc003jjz.1	-	4	519	c.426G>A	c.(424-426)GTG>GTA	p.V142V	UGT3A2_uc011cos.1_Silent_p.V108V|UGT3A2_uc011cot.1_Intron	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	142	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TTTCAACTATCACCATGTCGA	0.378													19	198	---	---	---	---	PASS	T	36049408	T	T	36049408	2	4	137	1	0	0	0	0	0	0	0	1	16961	813	29	2		2	UGT3A2	5	36049408	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	11325	36049408	144865852	94	48916										
OSMR	9180	broad.mit.edu	37	chr5	38931986	38931986	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tttctttttcctcgttcagcCtcgatgctgattcatatcct	5	12	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:38931986C>T	uc003jln.1	+	16	2581	c.2214C>T	c.(2212-2214)TCC>TCT	p.S738S	OSMR_uc011cpj.1_Intron	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	738	Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					CTCGTTCAGCCTCGATGCTGA	0.373													49	255	---	---	---	---	PASS	T	38931986	T	T	38931986	2	4	137	1	0	0	0	0	0	0	0	1	11292	695	24	3		3	OSMR	5	38931986	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	2882578	38931986	141983274	95	48917										
ZNF131	7690	broad.mit.edu	37	chr5	43122223	43122223	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tcataaaatgatcctcgaccGattgaatgaacagcgagagc	9	9	1	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:43122223G>T	uc011cpw.1	+	2	104	c.68G>T	c.(67-69)CGA>CTA	p.R23L	ZNF131_uc010ivl.1_Missense_Mutation_p.R23L|ZNF131_uc003jnj.3_5'UTR|ZNF131_uc003jnk.2_Missense_Mutation_p.R23L|ZNF131_uc003jnn.3_5'UTR|ZNF131_uc003jnl.1_RNA|ZNF131_uc010ivm.1_RNA|ZNF131_uc003jnm.2_Missense_Mutation_p.R23L	NM_003432	NP_003423	P52739	ZN131_HUMAN	zinc finger protein 131	23						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ATCCTCGACCGATTGAATGAA	0.512													39	202	---	---	---	---	PASS	T	43122223	T	T	43122223	3	4	137	1	0	0	0	0	1	0	0	0	17718	1058	37	2	70	2	ZNF131	5	43122223	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	4190237	43122223	137793037	96	48918										
F2R	2149	broad.mit.edu	37	chr5	76029116	76029116	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cctactttgcctacctcctcTgtgtctgtgtcagcagcata	7	14	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:76029116T>C	uc003ken.3	+	2	1331	c.1066T>C	c.(1066-1068)TGT>CGT	p.C356R		NM_001992	NP_001983	P25116	PAR1_HUMAN	coagulation factor II receptor precursor	356	Helical; Name=7; (Potential).				activation of caspase activity|anatomical structure morphogenesis|connective tissue replacement involved in inflammatory response wound healing|negative regulation of cell proliferation|platelet activation|positive regulation of blood coagulation|positive regulation of cell migration|positive regulation of collagen biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of JAK-STAT cascade|positive regulation of MAPKKK cascade|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of transcription, DNA-dependent|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	caveola|extracellular region|Golgi apparatus|integral to plasma membrane|platelet dense tubular network	receptor binding|thrombin receptor activity			ovary(3)	3		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Prostate(461;0.00955)|Ovarian(174;0.0129)		all cancers(79;4.43e-43)	Streptokinase(DB00086)	CTACCTCCTCTGTGTCTGTGT	0.493													87	86	---	---	---	---	PASS	C	76029116	C	C	76029116	3	2	137	1	0	0	0	0	1	0	0	0	5343	1580	55	5	1072	5	F2R	5	76029116	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	32906893	76029116	104886144	97	48919										
GPR98	84059	broad.mit.edu	37	chr5	90052867	90052867	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cttcaagttcctgtagtccgGctggctggaagctttggggc	14	10	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:90052867G>T	uc003kju.2	+	57	11925	c.11829G>T	c.(11827-11829)CGG>CGT	p.R3943R	GPR98_uc003kjt.2_Silent_p.R1649R|GPR98_uc003kjv.2_Silent_p.R1543R	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3943	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CTGTAGTCCGGCTGGCTGGAA	0.453													36	49	---	---	---	---	PASS	T	90052867	T	T	90052867	2	4	137	1	0	0	0	0	0	0	0	1	6721	1190	42	3		3	GPR98	5	90052867	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	14023751	90052867	90862393	98	48920										
SLC27A6	28965	broad.mit.edu	37	chr5	128365396	128365396	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttgtccacgatttttaagaaTtcaggtaattttagtggcgg	10	5	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:128365396T>G	uc003kuy.2	+	10	2075	c.1679T>G	c.(1678-1680)ATT>AGT	p.I560S	SLC27A6_uc003kuz.2_Missense_Mutation_p.I560S	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	560					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		TTTTTAAGAATTCAGGTAATT	0.279													41	38	---	---	---	---	PASS	G	128365396	G	G	128365396	3	3	137	1	0	0	0	0	1	0	0	0	14530	1493	52	5	1713	5	SLC27A6	5	128365396	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	38312529	128365396	52549864	99	48921										
C5orf56	441108	broad.mit.edu	37	chr5	131796410	131796410	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agaaatgtctcctttttcctCgtcatcaaccactcatttat	3	12	4	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:131796410C>T	uc003kwy.1	+	4	376	c.245C>T	c.(244-246)TCG>TTG	p.S82L	C5orf56_uc003kwz.1_Intron|C5orf56_uc010jds.1_Intron|IRF1_uc003kxd.2_Intron	NM_001013717	NP_001013739	Q8N8D9	CE056_HUMAN	hypothetical protein LOC441108	82											0						CCTTTTTCCTCGTCATCAACC	0.05													29	36	---	---	---	---	PASS	T	131796410	T	T	131796410	3	4	137	1	0	0	0	0	1	0	0	0	2312	893	31	2	255	2	C5orf56	5	131796410	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	3431014	131796410	49118850	100	48922										
SIL1	64374	broad.mit.edu	37	chr5	138362594	138362594	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ccgtaccatgatctgcatgtCagtctcaatgacaacattca	6	12	4	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:138362594C>T	uc003ldm.2	-	5	558	c.541G>A	c.(541-543)GAC>AAC	p.D181N	SIL1_uc003ldn.2_Missense_Mutation_p.D180N|SIL1_uc003ldo.2_Missense_Mutation_p.D181N|SIL1_uc003ldp.2_Missense_Mutation_p.D181N|SIL1_uc003ldq.1_Intron	NM_022464	NP_071909	Q9H173	SIL1_HUMAN	SIL1 protein precursor	181	Interaction with HSPA5 and localization to the endoplasmic reticulum (By similarity).				intracellular protein transport|protein folding|transmembrane transport	endoplasmic reticulum lumen	unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ATCTGCATGTCAGTCTCAATG	0.463									Marinesco-Sj_gren_syndrome				44	44	---	---	---	---	PASS	T	138362594	T	T	138362594	3	4	137	1	0	0	0	0	1	0	0	0	14321	826	29	2	864	2	SIL1	5	138362594	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	6566184	138362594	42552666	101	48923										
PCDHA5	56143	broad.mit.edu	37	chr5	140201816	140201816	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atgccagattcgcggtttccGctagagggcgcgtcggattt	14	10	0	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:140201816G>A	uc003lhl.2	+	1	456	c.456G>A	c.(454-456)CCG>CCA	p.P152P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.P152P|PCDHA5_uc003lhj.1_Silent_p.P152P	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	152	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGGTTTCCGCTAGAGGGCG	0.413													10	58	---	---	---	---	PASS	A	140201816	A	A	140201816	2	1	137	1	0	0	0	0	0	0	0	1	11527	1074	38	1		1	PCDHA5	5	140201816	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	1839222	140201816	40713444	102	48924										
GABRP	2568	broad.mit.edu	37	chr5	170239249	170239249	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgtattttactgggcatactAcatgtatttttgagtcaatg	8	5	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:170239249A>G	uc003mau.2	+	10	1508	c.1310A>G	c.(1309-1311)TAC>TGC	p.Y437C	GABRP_uc011dev.1_3'UTR	NM_014211	NP_055026	O00591	GBRP_HUMAN	gamma-aminobutyric acid (GABA) A receptor, pi	437	Helical; (Potential).					cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			breast(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0122)|all_lung(126;0.0193)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TGGGCATACTACATGTATTTT	0.348													39	48	---	---	---	---	PASS	G	170239249	G	G	170239249	3	3	137	1	0	0	0	0	1	0	0	0	6174	391	14	5	1344	5	GABRP	5	170239249	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	30037433	170239249	10676011	103	48925										
CDHR2	54825	broad.mit.edu	37	chr5	176002375	176002375	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggaccagcctgaccttgaccCccagtttgtcagggagtttt	11	12	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:176002375C>A	uc003mem.1	+	9	782	c.716C>A	c.(715-717)CCC>CAC	p.P239H	CDHR2_uc003men.1_Missense_Mutation_p.P239H	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	239	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GACCTTGACCCCCAGTTTGTC	0.632													40	26	---	---	---	---	PASS	A	176002375	A	A	176002375	3	1	137	1	0	0	0	0	1	0	0	0	3119	623	22	3	746	3	CDHR2	5	176002375	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	5763126	176002375	4912885	104	48926										
BTNL3	10917	broad.mit.edu	37	chr5	180424256	180424256	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tccatcgtgggatatgttgaCggaggtatccagttactctg	12	8	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr5:180424256C>A	uc003mmr.2	+	3	569	c.441C>A	c.(439-441)GAC>GAA	p.D147E		NM_197975	NP_932079	Q6UXE8	BTNL3_HUMAN	butyrophilin-like 3 precursor	147	Ig-like V-type.|Extracellular (Potential).				lipid metabolic process	integral to membrane					0	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.00336)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)|all_lung(500;0.248)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000272)			GATATGTTGACGGAGGTATCC	0.498													75	31	---	---	---	---	PASS	A	180424256	A	A	180424256	3	1	137	1	0	0	0	0	1	0	0	0	1566	535	19	1	451	1	BTNL3	5	180424256	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	4421881	180424256	491004	105	48927										
RANBP9	10048	broad.mit.edu	37	chr6	13711172	13711172	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	acacacgcccagtacctttgTagtgcacccgcaggttgttc	9	14	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:13711172T>C	uc003nbb.2	-	1	625	c.566A>G	c.(565-567)TAC>TGC	p.Y189C		NM_005493	NP_005484	Q96S59	RANB9_HUMAN	RAN binding protein 9	189	B30.2/SPRY.				axon guidance|microtubule nucleation|protein complex assembly	cytosol|microtubule associated complex|nucleus	Ran GTPase binding			lung(1)|skin(1)	2	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)			AGTACCTTTGTAGTGCACCCG	0.692													10	13	---	---	---	---	PASS	C	13711172	C	C	13711172	3	2	137	1	0	0	0	0	1	0	0	0	13032	1638	57	5	1679	5	RANBP9	6	13711172	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08		13711172	157403895	106	48928										
JARID2	3720	broad.mit.edu	37	chr6	15496958	15496958	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggagaggaatcggccgaagcGggccacggccgggaagagca	19	10	0	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:15496958G>A	uc003nbj.2	+	7	1746	c.1502G>A	c.(1501-1503)CGG>CAG	p.R501Q	JARID2_uc011diu.1_Missense_Mutation_p.R365Q|JARID2_uc011div.1_Missense_Mutation_p.R329Q|JARID2_uc011diw.1_Missense_Mutation_p.R463Q	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	501					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				CGGCCGAAGCGGGCCACGGCC	0.642													25	33	---	---	---	---	PASS	A	15496958	A	A	15496958	3	1	137	1	0	0	0	0	1	0	0	0	7945	1116	39	1	1528	1	JARID2	6	15496958	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	1785786	15496958	155618109	107	48929										
CUTA	51596	broad.mit.edu	37	chr6	33385345	33385345	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cgtagccagagccggaatccGaggccggcgagggctgggtc	18	12	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:33385345G>A	uc003oej.1	-	2	458	c.170C>T	c.(169-171)TCG>TTG	p.S57L	CUTA_uc003oek.1_Missense_Mutation_p.S34L|CUTA_uc003oel.1_Missense_Mutation_p.S34L|CUTA_uc003oem.1_Missense_Mutation_p.S34L|CUTA_uc003oen.1_Missense_Mutation_p.S76L|SYNGAP1_uc003oeo.1_5'Flank|SYNGAP1_uc011dri.1_5'Flank|SYNGAP1_uc010juy.2_5'Flank	NM_001014840	NP_001014840	O60888	CUTA_HUMAN	cutA divalent cation tolerance homolog isoform	57					protein localization|response to metal ion	membrane	enzyme binding				0						GCCGGAATCCGAGGCCGGCGA	0.647													45	150	---	---	---	---	PASS	A	33385345	A	A	33385345	3	1	137	1	0	0	0	0	1	0	0	0	4062	1059	37	2	389	2	CUTA	6	33385345	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	17888387	33385345	137729722	108	48930										
SRPK1	6732	broad.mit.edu	37	chr6	35837429	35837429	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cctcagatgttataggtgtaCaagagtctgtttcttgagat	10	6	3	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:35837429C>T	uc003olj.2	-	11	1364	c.1241G>A	c.(1240-1242)TGT>TAT	p.C414Y	SRPK1_uc011dtg.1_Missense_Mutation_p.C398Y|SRPK1_uc003olh.2_Missense_Mutation_p.C307Y|SRPK1_uc003oli.2_Missense_Mutation_p.C307Y	NM_003137	NP_003128	Q96SB4	SRPK1_HUMAN	SFRS protein kinase 1	414	Protein kinase.				cell differentiation|chromosome segregation|interspecies interaction between organisms|intracellular protein kinase cascade|mRNA processing|negative regulation of viral genome replication|positive regulation of viral genome replication|regulation of mRNA processing|RNA splicing	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						TATAGGTGTACAAGAGTCTGT	0.418													9	79	---	---	---	---	PASS	T	35837429	T	T	35837429	3	4	137	1	0	0	0	0	1	0	0	0	15158	478	17	3	750	3	SRPK1	6	35837429	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	2452084	35837429	135277638	109	48931										
BYSL	705	broad.mit.edu	37	chr6	41899507	41899507	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agtctggcacttgtaccctcCgggaagccatcattgtgggt	12	11	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:41899507C>T	uc003orl.2	+	6	1243	c.907C>T	c.(907-909)CGG>TGG	p.R303W		NM_004053	NP_004044	Q13895	BYST_HUMAN	bystin	303					cell adhesion|female pregnancy|ribosome biogenesis	cytoplasm|nucleolus					0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000473)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TTGTACCCTCCGGGAAGCCAT	0.552													29	159	---	---	---	---	PASS	T	41899507	T	T	41899507	3	4	137	1	0	0	0	0	1	0	0	0	1576	643	23	1	929	1	BYSL	6	41899507	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	6062078	41899507	129215560	110	48932										
HSP90AB1	3326	broad.mit.edu	37	chr6	44221330	44221330	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cgtctcgcatggaagaagtcGattaggttaggagttcatag	13	6	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:44221330G>A	uc003oxa.1	+	12	2254	c.2170G>A	c.(2170-2172)GAT>AAT	p.D724N	HSP90AB1_uc011dvr.1_Missense_Mutation_p.D714N|HSP90AB1_uc003oxb.1_Missense_Mutation_p.D724N|HSP90AB1_uc011dvs.1_Missense_Mutation_p.D544N|HSP90AB1_uc003oxc.1_Missense_Mutation_p.D362N	NM_007355	NP_031381	P08238	HS90B_HUMAN	heat shock 90kDa protein 1, beta	724	TPR repeat-binding.				axon guidance|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of nitric oxide biosynthetic process|protein folding|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to unfolded protein	cytosol|melanosome	ATP binding|nitric-oxide synthase regulator activity|TPR domain binding|unfolded protein binding			lung(3)|breast(1)	4	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GGAAGAAGTCGATTAGGTTAG	0.557											OREG0017471	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	63	---	---	---	---	PASS	A	44221330	A	A	44221330	3	1	137	1	0	0	0	0	1	0	0	0	7402	1058	37	2	2212	2	HSP90AB1	6	44221330	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	2321823	44221330	126893737	111	48933										
C6orf138	442213	broad.mit.edu	37	chr6	47847001	47847001	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gctgctgttccagtactctaGgggctcatagacgtagaatc	11	10	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:47847001G>A	uc011dwm.1	-	3	1613	c.1528C>T	c.(1528-1530)CTA>TTA	p.L510L	C6orf138_uc011dwn.1_Silent_p.L274L	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	527						integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						CAGTACTCTAGGGGCTCATAG	0.478													13	20	---	---	---	---	PASS	A	47847001	A	A	47847001	2	1	137	1	0	0	0	0	0	0	0	1	2332	991	35	3		3	C6orf138	6	47847001	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	3625671	47847001	123268066	112	48934										
BAI3	577	broad.mit.edu	37	chr6	70098745	70098745	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agaagtgtctgaatttgcctCtggatgtgcaagagggtgac	14	6	2	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:70098745C>A	uc003pev.3	+	32	4979	c.4531C>A	c.(4531-4533)CTG>ATG	p.L1511M	BAI3_uc010kak.2_Missense_Mutation_p.L1511M|BAI3_uc011dxx.1_Missense_Mutation_p.L717M	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1511	Cytoplasmic (Potential).				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)				GAATTTGCCTCTGGATGTGCA	0.418													25	58	---	---	---	---	PASS	A	70098745	A	A	70098745	3	1	137	1	0	0	0	0	1	0	0	0	1300	912	32	2	4649	2	BAI3	6	70098745	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	22251744	70098745	101016322	113	48935										
COL19A1	1310	broad.mit.edu	37	chr6	70900022	70900022	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tttttttccttcttcaggctGatgcagtttcatttgaagaa	7	7	3	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:70900022G>A	uc003pfc.1	+	48	3148	c.3031G>A	c.(3031-3033)GAT>AAT	p.D1011N		NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	1011	Triple-helical region 5 (COL5).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TCTTCAGGCTGATGCAGTTTC	0.284													25	87	---	---	---	---	PASS	A	70900022	A	A	70900022	3	1	137	1	0	0	0	0	1	0	0	0	3676	1290	45	2	3217	2	COL19A1	6	70900022	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	801277	70900022	100215045	114	48936										
TTK	7272	broad.mit.edu	37	chr6	80715595	80715595	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tttaagtggcagagaattgaCaattgattccataatgaaca	8	5	0	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:80715595C>G	uc003pjc.2	+	2	109	c.35C>G	c.(34-36)ACA>AGA	p.T12R	TTK_uc003pjb.3_Missense_Mutation_p.T12R	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	12					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		AGAGAATTGACAATTGATTCC	0.303													23	96	---	---	---	---	PASS	G	80715595	G	G	80715595	3	3	137	1	0	0	0	0	1	0	0	0	16717	478	17	4	37	4	TTK	6	80715595	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	9815573	80715595	90399472	115	48937										
KIAA1009	22832	broad.mit.edu	37	chr6	84930778	84930778	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aaatcagcaacatttaccatCatctttaaaatcatcttcag	2	10	6	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:84930778C>T	uc010kbp.2	-	3	266	c.169G>A	c.(169-171)GAT>AAT	p.D57N	KIAA1009_uc003pkj.3_5'UTR|KIAA1009_uc003pkk.2_Missense_Mutation_p.D57N	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	57					cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		CATTTACCATCATCTTTAAAA	0.308													41	111	---	---	---	---	PASS	T	84930778	T	T	84930778	3	4	137	1	0	0	0	0	1	0	0	0	8203	826	29	2	4142	2	KIAA1009	6	84930778	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	4215183	84930778	86184289	116	48938										
SPACA1	81833	broad.mit.edu	37	chr6	88768510	88768510	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tctcccttaaatcgtttcaaAtatatgtggaaacttctaag	5	8	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:88768510A>G	uc003pmn.2	+	4	561	c.444A>G	c.(442-444)AAA>AAG	p.K148K		NM_030960	NP_112222	Q9HBV2	SACA1_HUMAN	sperm acrosome associated 1 precursor	148	Extracellular (Potential).					integral to membrane					0		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.11)		ATCGTTTCAAATATATGTGGA	0.343													11	79	---	---	---	---	PASS	G	88768510	G	G	88768510	2	3	137	1	0	0	0	0	0	0	0	1	14972	98	4	5		5	SPACA1	6	88768510	Silent	SNP	A	TCGA-63-5131-01A-01D-1441-08	3837732	88768510	82346557	117	48939										
ANKRD6	22881	broad.mit.edu	37	chr6	90327746	90327746	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tcttctccttactaaagctcCccaggtaggatttactgccc	6	14	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:90327746C>T	uc003pni.3	+	9	1129	c.788C>T	c.(787-789)CCC>CTC	p.P263L	ANKRD6_uc003pne.3_Missense_Mutation_p.P263L|ANKRD6_uc003pnf.3_Missense_Mutation_p.P263L|ANKRD6_uc011dzy.1_Missense_Mutation_p.P263L|ANKRD6_uc010kcd.2_Intron|LYRM2_uc010kce.1_Intron|LYRM2_uc003png.2_Intron|ANKRD6_uc003pnh.3_5'UTR	NM_014942	NP_055757	Q9Y2G4	ANKR6_HUMAN	ankyrin repeat domain 6	263	ANK 8.						protein binding			ovary(2)|pancreas(1)	3		all_cancers(76;1.22e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;1.83e-05)|Lung NSC(302;0.239)		BRCA - Breast invasive adenocarcinoma(108;0.0209)		ACTAAAGCTCCCCAGGTAGGA	0.517													59	84	---	---	---	---	PASS	T	90327746	T	T	90327746	3	4	137	1	0	0	0	0	1	0	0	0	685	623	22	3	818	3	ANKRD6	6	90327746	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	1559236	90327746	80787321	118	48940										
THEMIS	387357	broad.mit.edu	37	chr6	128176300	128176300	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tcacttctcctgttgaaaaaCagcattcatttccaaacatt	3	11	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:128176300C>A	uc003qbi.2	-	3	444	c.125G>T	c.(124-126)TGT>TTT	p.C42F	THEMIS_uc010kfa.2_5'UTR|THEMIS_uc011ebt.1_Missense_Mutation_p.C42F|THEMIS_uc010kfb.2_Missense_Mutation_p.C7F	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	42	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						TGTTGAAAAACAGCATTCATT	0.318													15	65	---	---	---	---	PASS	A	128176300	A	A	128176300	3	1	137	1	0	0	0	0	1	0	0	0	15857	478	17	3	1941	3	THEMIS	6	128176300	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	37848554	128176300	42938767	119	48941										
MTRF1L	54516	broad.mit.edu	37	chr6	153316325	153316325	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atgccatcttttaaatgcagCatattgctgatacatatcaa	5	8	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:153316325C>G	uc003qpi.3	-	3	574	c.469G>C	c.(469-471)GCT>CCT	p.A157P	MTRF1L_uc003qpl.3_Missense_Mutation_p.A157P|MTRF1L_uc011efa.1_Intron|MTRF1L_uc003qpj.3_Missense_Mutation_p.A15P|MTRF1L_uc003qpk.3_Intron	NM_019041	NP_061914	Q9UGC7	RF1ML_HUMAN	mitochondrial translational release factor	157						mitochondrion	translation release factor activity, codon specific				0		Ovarian(120;0.125)		OV - Ovarian serous cystadenocarcinoma(155;4.24e-10)|BRCA - Breast invasive adenocarcinoma(81;0.0888)		TTAAATGCAGCATATTGCTGA	0.353													18	40	---	---	---	---	PASS	G	153316325	G	G	153316325	3	3	137	1	0	0	0	0	1	0	0	0	9960	710	25	4	693	4	MTRF1L	6	153316325	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	25140025	153316325	17798742	120	48942										
IGF2R	3482	broad.mit.edu	37	chr6	160412337	160412337	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gtatgcacgacttgaagacaCgcacttatcattcagtgggt	10	9	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:160412337C>G	uc003qta.2	+	2	419	c.271C>G	c.(271-273)CGC>GGC	p.R91G		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	91	1.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		CTTGAAGACACGCACTTATCA	0.378													43	86	---	---	---	---	PASS	G	160412337	G	G	160412337	3	3	137	1	0	0	0	0	1	0	0	0	7576	536	19	4	277	4	IGF2R	6	160412337	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	7096012	160412337	10702730	121	48943										
LPA	4018	broad.mit.edu	37	chr6	160999556	160999556	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctaaccacaaatttcttaccTtgttcagaaggagcctctgt	6	11	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:160999556T>A	uc003qtl.2	-	28	4590	c.4470A>T	c.(4468-4470)CAA>CAT	p.Q1490H		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3998	Kringle 35.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	ATTTCTTACCTTGTTCAGAAG	0.483													29	149	---	---	---	---	PASS	A	160999556	A	A	160999556	3	1	137	1	0	0	0	0	1	0	0	0	8903	1623	56	5	1704	5	LPA	6	160999556	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	587219	160999556	10115511	122	48944										
C6orf118	168090	broad.mit.edu	37	chr6	165715563	165715563	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gctcccccttgggccggtggGcattgggccagtgctgtaag	16	12	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr6:165715563G>C	uc003qum.3	-	2	284	c.248C>G	c.(247-249)GCC>GGC	p.A83G	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	83											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		GGGCCGGTGGGCATTGGGCCA	0.637													36	88	---	---	---	---	PASS	C	165715563	C	C	165715563	3	2	137	1	0	0	0	0	1	0	0	0	2323	1203	42	4	1193	4	C6orf118	6	165715563	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	4716007	165715563	5399504	123	48945										
PRKAR1B	5575	broad.mit.edu	37	chr7	720311	720311	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gcgacacctcctcatcatggGagtccgactgtgagtttgac	11	12	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr7:720311G>A	uc003siu.1	-	4	336	c.230C>T	c.(229-231)TCC>TTC	p.S77F	PRKAR1B_uc003siv.2_Missense_Mutation_p.S77F|PRKAR1B_uc003siw.1_Missense_Mutation_p.S77F	NM_002735	NP_002726	P31321	KAP1_HUMAN	protein kinase, cAMP-dependent, regulatory, type	77	Dimerization and phosphorylation.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)		CTCATCATGGGAGTCCGACTG	0.602													22	109	---	---	---	---	PASS	A	720311	A	A	720311	3	1	137	1	0	0	0	0	1	0	0	0	12504	1174	41	2	951	2	PRKAR1B	7	720311	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08		720311	158418352	124	48946										
SDK1	221935	broad.mit.edu	37	chr7	4009032	4009032	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	acacagagggctccctgaatGcatcggccacgctcactgtg	11	14	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr7:4009032G>A	uc003smx.2	+	11	1829	c.1690G>A	c.(1690-1692)GCA>ACA	p.A564T		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	564	Ig-like C2-type 5.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CTCCCTGAATGCATCGGCCAC	0.577													78	98	---	---	---	---	PASS	A	4009032	A	A	4009032	3	1	137	1	0	0	0	0	1	0	0	0	13968	1319	46	3	1732	3	SDK1	7	4009032	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	3288721	4009032	155129631	125	48947										
RADIL	55698	broad.mit.edu	37	chr7	4855864	4855864	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gcacgaggccctcacccctgTcgaggagctggttgagaagc	14	13	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr7:4855864T>C	uc003snj.1	-	8	2134	c.1961A>G	c.(1960-1962)GAC>GGC	p.D654G	RADIL_uc003sng.1_RNA|RADIL_uc003sni.1_Missense_Mutation_p.D159G|RADIL_uc011jwc.1_Missense_Mutation_p.D414G|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	654	Dilute.				cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		CTCACCCCTGTCGAGGAGCTG	0.667													15	54	---	---	---	---	PASS	C	4855864	C	C	4855864	3	2	137	1	0	0	0	0	1	0	0	0	12997	1667	58	5	1298	5	RADIL	7	4855864	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	846832	4855864	154282799	126	48948										
PAPOLB	56903	broad.mit.edu	37	chr7	4901019	4901019	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cttaaatctttcacttcctcCtgtagtttcagtttagcata	4	10	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr7:4901019C>T	uc003snk.2	-	1	607	c.423G>A	c.(421-423)CAG>CAA	p.Q141Q	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	140					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		TCACTTCCTCCTGTAGTTTCA	0.413													28	40	---	---	---	---	PASS	T	4901019	T	T	4901019	2	4	137	1	0	0	0	0	0	0	0	1	11430	680	24	3		3	PAPOLB	7	4901019	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	45155	4901019	154237644	127	48949										
RADIL	55698	broad.mit.edu	37	chr7	4917420	4917420	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgcccagcatcgccggcttgGcccaccacgtcacacagcac	9	19	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr7:4917420G>A	uc003snj.1	-	2	524	c.351C>T	c.(349-351)GGC>GGT	p.G117G	RADIL_uc003sng.1_RNA|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	117	Ras-associating.				cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		CGCCGGCTTGGCCCACCACGT	0.672													37	68	---	---	---	---	PASS	A	4917420	A	A	4917420	2	1	137	1	0	0	0	0	0	0	0	1	12997	1190	42	3		3	RADIL	7	4917420	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	16401	4917420	154221243	128	48950										
RELN	5649	broad.mit.edu	37	chr7	103206771	103206771	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttggcttgcaaatctatagaGccatcaaatttgtcttgaaa	7	7	3	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr7:103206771G>A	uc003vca.2	-	33	4996	c.4836C>T	c.(4834-4836)GGC>GGT	p.G1612G	RELN_uc010liz.2_Silent_p.G1612G	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1612					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		AATCTATAGAGCCATCAAATT	0.408													60	112	---	---	---	---	PASS	A	103206771	A	A	103206771	2	1	137	1	0	0	0	0	0	0	0	1	13220	958	34	3		3	RELN	7	103206771	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	98289351	103206771	55931892	129	48951										
COPG2	26958	broad.mit.edu	37	chr7	130295938	130295938	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	acatcttggaaacagcaagtCgatcattctttctaaggtga	8	8	4	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr7:130295938C>A	uc003vqh.1	-	9	713	c.623G>T	c.(622-624)CGA>CTA	p.R208L		NM_012133	NP_036265	Q9UBF2	COPG2_HUMAN	coatomer protein complex, subunit gamma 2	208					intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat	protein binding|structural molecule activity				0	Melanoma(18;0.0435)					AACAGCAAGTCGATCATTCTT	0.373													9	66	---	---	---	---	PASS	A	130295938	A	A	130295938	3	1	137	1	0	0	0	0	1	0	0	0	3732	884	31	2	603	2	COPG2	7	130295938	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	27089167	130295938	28842725	130	48952										
UBN2	254048	broad.mit.edu	37	chr7	138943252	138943252	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agtatgatgaattagttcccGcttctctaacaacaaaatat	5	8	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr7:138943252G>T	uc011kqr.1	+	4	682	c.682G>T	c.(682-684)GCT>TCT	p.A228S	UBN2_uc003vuv.2_5'UTR	NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	228										ovary(1)|skin(1)	2						ATTAGTTCCCGCTTCTCTAAC	0.353													32	102	---	---	---	---	PASS	T	138943252	T	T	138943252	3	4	137	1	0	0	0	0	1	0	0	0	16890	1087	38	1	696	1	UBN2	7	138943252	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	8647314	138943252	20195411	131	48953										
MGAM	8972	broad.mit.edu	37	chr7	141765165	141765165	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaggtgacgggacagcgaggGgtcgtcatcacccgctccac	15	13	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr7:141765165G>T	uc003vwy.2	+	38	4569	c.4515G>T	c.(4513-4515)GGG>GGT	p.G1505G		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1505	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GACAGCGAGGGGTCGTCATCA	0.592													6	18	---	---	---	---	PASS	T	141765165	T	T	141765165	2	4	137	1	0	0	0	0	0	0	0	1	9541	1219	43	3		3	MGAM	7	141765165	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	2821913	141765165	17373498	132	48954										
OR2A5	393046	broad.mit.edu	37	chr7	143747998	143747998	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctcatcctgaggctgcccttCtgtgggccccatgaaatcaa	9	14	3	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr7:143747998C>T	uc011ktw.1	+	1	504	c.504C>T	c.(502-504)TTC>TTT	p.F168F		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					GGCTGCCCTTCTGTGGGCCCC	0.547													96	254	---	---	---	---	PASS	T	143747998	T	T	143747998	2	4	137	1	0	0	0	0	0	0	0	1	10981	912	32	2		2	OR2A5	7	143747998	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	1982833	143747998	15390665	133	48955										
CNTNAP2	26047	broad.mit.edu	37	chr7	146825877	146825877	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaaagcatcaactacaatggCgtcaacattactgatcttgc	7	10	3	1	rs142122012		TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr7:146825877C>A	uc003weu.1	+	7	1548	c.1032C>A	c.(1030-1032)GGC>GGA	p.G344G		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	344	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ACTACAATGGCGTCAACATTA	0.413										HNSCC(39;0.1)			89	183	---	---	---	---	PASS	A	146825877	A	A	146825877	2	1	137	1	0	0	0	0	0	0	0	1	3647	755	27	1		1	CNTNAP2	7	146825877	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	3077879	146825877	12312786	134	48956										
GIMAP4	55303	broad.mit.edu	37	chr7	150269805	150269805	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ccagcgcgtggtgagggagaAcaaggaaggctgctacacta	15	9	0	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr7:150269805A>G	uc003whl.2	+	3	729	c.647A>G	c.(646-648)AAC>AGC	p.N216S	GIMAP4_uc011kuu.1_Missense_Mutation_p.N77S|GIMAP4_uc011kuv.1_Missense_Mutation_p.N230S	NM_018326	NP_060796	Q9NUV9	GIMA4_HUMAN	GTPase, IMAP family member 4	216	Potential.						GTP binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0179)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GTGAGGGAGAACAAGGAAGGC	0.562													45	112	---	---	---	---	PASS	G	150269805	G	G	150269805	3	3	137	1	0	0	0	0	1	0	0	0	6381	43	2	5	653	5	GIMAP4	7	150269805	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	3443928	150269805	8868858	135	48957										
EPHX2	2053	broad.mit.edu	37	chr8	27361174	27361174	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgctccgagaccgctaaagtCtgcctccccaagaatttctc	7	15	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr8:27361174C>T	uc003xfu.2	+	3	321	c.240C>T	c.(238-240)GTC>GTT	p.V80V	EPHX2_uc010lut.1_Silent_p.V80V|EPHX2_uc010luu.2_Silent_p.V80V|EPHX2_uc010luv.2_Silent_p.V14V|EPHX2_uc003xfv.2_Silent_p.V27V|EPHX2_uc010luw.2_Silent_p.V14V|EPHX2_uc011lam.1_5'Flank	NM_001979	NP_001970	P34913	HYES_HUMAN	epoxide hydrolase 2, cytoplasmic	80	Phosphatase.				aromatic compound catabolic process|cellular calcium ion homeostasis|drug metabolic process|inflammatory response|positive regulation of vasodilation|reactive oxygen species metabolic process|regulation of blood pressure|response to toxin|xenobiotic metabolic process	cytosol|focal adhesion|Golgi apparatus|nucleolus|peroxisome|soluble fraction	epoxide hydrolase activity|metal ion binding|protein homodimerization activity			ovary(1)	1		Ovarian(32;2.61e-05)|all_epithelial(46;0.207)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0226)|Epithelial(17;1.12e-09)|Colorectal(74;0.157)	Tamoxifen(DB00675)	CCGCTAAAGTCTGCCTCCCCA	0.438													11	24	---	---	---	---	PASS	T	27361174	T	T	27361174	2	4	137	1	0	0	0	0	0	0	0	1	5180	900	32	2		2	EPHX2	8	27361174	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08		27361174	119002848	136	48958										
KIF13B	23303	broad.mit.edu	37	chr8	29006249	29006249	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gatcctggtcctcatcctctCgttctgctttctttttcttt	5	13	5	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr8:29006249C>A	uc003xhh.3	-	16	1717	c.1658G>T	c.(1657-1659)CGA>CTA	p.R553L	KIF13B_uc003xhj.2_Missense_Mutation_p.R450L|KIF13B_uc010lvf.1_Missense_Mutation_p.R489L	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	553					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		CTCATCCTCTCGTTCTGCTTT	0.398													77	75	---	---	---	---	PASS	A	29006249	A	A	29006249	3	1	137	1	0	0	0	0	1	0	0	0	8275	884	31	2	3922	2	KIF13B	8	29006249	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	1645075	29006249	117357773	137	48959										
WRN	7486	broad.mit.edu	37	chr8	31015036	31015036	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gatgttatccgaaaccctccCgtcaactcaggtgagaggca	10	12	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr8:31015036C>G	uc003xio.3	+	33	4760	c.3972C>G	c.(3970-3972)CCC>CCG	p.P1324P	WRN_uc010lvk.2_Silent_p.P791P	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	1324					base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		GAAACCCTCCCGTCAACTCAG	0.473			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				21	27	---	---	---	---	PASS	G	31015036	G	G	31015036	2	3	137	1	0	0	0	0	0	0	0	1	17399	639	23	4		4	WRN	8	31015036	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	2008787	31015036	115348986	138	48960										
UNC5D	137970	broad.mit.edu	37	chr8	35542150	35542150	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggtcagcctgcaatgttcgcTgtggtagaggatggcagaaa	15	7	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr8:35542150T>A	uc003xjr.1	+	6	1130	c.802T>A	c.(802-804)TGT>AGT	p.C268S	UNC5D_uc003xjs.1_Missense_Mutation_p.C263S|UNC5D_uc003xjt.1_Missense_Mutation_p.C37S	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	268	TSP type-1 1.|Extracellular (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CAATGTTCGCTGTGGTAGAGG	0.507													70	81	---	---	---	---	PASS	A	35542150	A	A	35542150	3	1	137	1	0	0	0	0	1	0	0	0	16992	1580	55	5	824	5	UNC5D	8	35542150	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	4527114	35542150	110821872	139	48961										
ADAM2	2515	broad.mit.edu	37	chr8	39602390	39602390	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttgtccagactaccctttagGttcactctcactttcaggtt	6	12	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr8:39602390G>C	uc003xnj.2	-	20	2272	c.2197C>G	c.(2197-2199)CCT>GCT	p.P733A	ADAM2_uc003xnk.2_Missense_Mutation_p.P714A|ADAM2_uc011lck.1_Missense_Mutation_p.P670A|ADAM2_uc003xnl.2_Missense_Mutation_p.P577A	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	733	Cytoplasmic (Potential).				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		TACCCTTTAGGTTCACTCTCA	0.264													72	466	---	---	---	---	PASS	C	39602390	C	C	39602390	3	2	137	1	0	0	0	0	1	0	0	0	241	1261	44	4	14	4	ADAM2	8	39602390	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	4060240	39602390	106761632	140	48962										
SLC7A13	157724	broad.mit.edu	37	chr8	87235224	87235224	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aagagagaatttccctgggtGtcagaacagtcagataggaa	12	6	2	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr8:87235224G>C	uc003ydq.1	-	2	892	c.794C>G	c.(793-795)ACA>AGA	p.T265R	SLC7A13_uc003ydr.1_Missense_Mutation_p.T256R	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	265	Extracellular (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						TTCCCTGGGTGTCAGAACAGT	0.393													35	76	---	---	---	---	PASS	C	87235224	C	C	87235224	3	2	137	1	0	0	0	0	1	0	0	0	14695	1377	48	4	630	4	SLC7A13	8	87235224	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	47632834	87235224	59128798	141	48963										
PKHD1L1	93035	broad.mit.edu	37	chr8	110457007	110457007	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gggaaactgtcactttgactGtctacaacctgggcactgct	10	11	2	1	rs116863919	by1000genomes	TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr8:110457007G>A	uc003yne.2	+	38	5013	c.4909G>A	c.(4909-4911)GTC>ATC	p.V1637I		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1637	Extracellular (Potential).|IPT/TIG 8.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CACTTTGACTGTCTACAACCT	0.423										HNSCC(38;0.096)			38	344	---	---	---	---	PASS	A	110457007	A	A	110457007	3	1	137	1	0	0	0	0	1	0	0	0	11972	1377	48	3	5059	3	PKHD1L1	8	110457007	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	23221783	110457007	35907015	142	48964										
ZFAT	57623	broad.mit.edu	37	chr8	135524758	135524758	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aggtcctggagcgcggccacCgctgcctgtgtcccttgaac	13	15	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr8:135524758C>A	uc003yup.2	-	14	3496	c.3321G>T	c.(3319-3321)GCG>GCT	p.A1107A	ZFAT_uc011ljj.1_Silent_p.A226A|ZFAT_uc003yun.2_Silent_p.A1095A|ZFAT_uc003yuo.2_Silent_p.A1095A|ZFAT_uc010meh.2_Intron|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Silent_p.A1095A|ZFAT_uc010mej.2_Silent_p.A1045A	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	1107					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			GCGCGGCCACCGCTGCCTGTG	0.532													65	339	---	---	---	---	PASS	A	135524758	A	A	135524758	2	1	137	1	0	0	0	0	0	0	0	1	17629	639	23	1		1	ZFAT	8	135524758	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	25067751	135524758	10839264	143	48965										
ZNF623	9831	broad.mit.edu	37	chr8	144732380	144732380	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaattcagaccttcttctgcTtcagagagagctcatagagg	10	9	5	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr8:144732380T>G	uc003yzd.2	+	1	427	c.338T>G	c.(337-339)CTT>CGT	p.L113R	ZNF623_uc011lkp.1_Missense_Mutation_p.L73R|ZNF623_uc003yzc.2_Missense_Mutation_p.L73R	NM_014789	NP_055604	O75123	ZN623_HUMAN	zinc finger protein 623 isoform 1	113					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	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;2.46e-41)|Epithelial(56;5.28e-40)|all cancers(56;5.23e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CTTCTTCTGCTTCAGAGAGAG	0.473													29	211	---	---	---	---	PASS	G	144732380	G	G	144732380	3	3	137	1	0	0	0	0	1	0	0	0	18044	1609	56	5	340	5	ZNF623	8	144732380	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	9207622	144732380	1631642	144	48966										
SCRIB	23513	broad.mit.edu	37	chr8	144887289	144887289	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gccccagcctcaccgcatcaCcagccctgtagggtgtggag	12	16	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr8:144887289C>A	uc003yzp.1	-	19	2670	c.2663G>T	c.(2662-2664)GGT>GTT	p.G888V	SCRIB_uc003yzn.1_5'Flank|SCRIB_uc003yzo.1_Missense_Mutation_p.G888V	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	888	PDZ 2.|Interaction with ARHGEF7.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			CACCGCATCACCAGCCCTGTA	0.711													10	26	---	---	---	---	PASS	A	144887289	A	A	144887289	3	1	137	1	0	0	0	0	1	0	0	0	13937	507	18	3	2380	3	SCRIB	8	144887289	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	154909	144887289	1476733	145	48967										
C8orf33	65265	broad.mit.edu	37	chr8	146278499	146278499	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gtgtggagcaactggagctgGgcctcaagaggcagaaaccc	15	10	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr8:146278499G>A	uc003zfc.3	+	3	424	c.370G>A	c.(370-372)GGC>AGC	p.G124S	C8orf33_uc003zfd.2_RNA	NM_023080	NP_075568	Q9H7E9	CH033_HUMAN	hypothetical protein LOC65265	124											0	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;9.1e-38)|all cancers(56;7.37e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.243)		ACTGGAGCTGGGCCTCAAGAG	0.572													22	84	---	---	---	---	PASS	A	146278499	A	A	146278499	3	1	137	1	0	0	0	0	1	0	0	0	2421	1232	43	3	380	3	C8orf33	8	146278499	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	1391210	146278499	85523	146	48968										
RGP1	9827	broad.mit.edu	37	chr9	35752037	35752037	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggggtgtcccctctgtgtcaCatgtgactcacgcccggcac	12	15	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr9:35752037C>T	uc011lpf.1	+	8	988	c.847C>T	c.(847-849)CAT>TAT	p.H283Y	GBA2_uc003zxw.2_5'Flank|GBA2_uc011lpc.1_5'Flank|GBA2_uc011lpd.1_5'Flank|RGP1_uc011lpe.1_Missense_Mutation_p.H323Y	NM_001080496	NP_001073965	Q92546	RGP1_HUMAN	RGP1 retrograde golgi transport homolog	283										ovary(1)	1	all_epithelial(49;0.167)		Lung(28;0.00416)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CTCTGTGTCACATGTGACTCA	0.587													19	19	---	---	---	---	PASS	T	35752037	T	T	35752037	3	4	137	1	0	0	0	0	1	0	0	0	13284	478	17	3	1001	3	RGP1	9	35752037	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08		35752037	105461394	147	48969										
PGM5	5239	broad.mit.edu	37	chr9	71094442	71094442	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aattgtccgagatcactgggCcaaatttggccgccactact	9	12	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr9:71094442C>T	uc004agr.2	+	8	1497	c.1268C>T	c.(1267-1269)GCC>GTC	p.A423V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	423					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						GATCACTGGGCCAAATTTGGC	0.527													44	72	---	---	---	---	PASS	T	71094442	T	T	71094442	3	4	137	1	0	0	0	0	1	0	0	0	11801	739	26	3	1298	3	PGM5	9	71094442	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	35342405	71094442	70118989	148	48970										
NAA35	60560	broad.mit.edu	37	chr9	88633621	88633621	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cccttctttttaggaaatgtCtgacctcaataaatatagcc	5	10	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr9:88633621C>G	uc004aoi.3	+	21	2059	c.1922C>G	c.(1921-1923)TCT>TGT	p.S641C	NAA35_uc004aoj.3_Missense_Mutation_p.S641C	NM_024635	NP_078911	Q5VZE5	NAA35_HUMAN	corneal wound healing-related protein	641					smooth muscle cell proliferation	cytoplasm|nucleus|plasma membrane				skin(2)|central_nervous_system(1)	3						TAGGAAATGTCTGACCTCAAT	0.328													46	158	---	---	---	---	PASS	G	88633621	G	G	88633621	3	3	137	1	0	0	0	0	1	0	0	0	10123	913	32	2	2000	2	NAA35	9	88633621	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	17539179	88633621	52579810	149	48971										
ITGA8	8516	broad.mit.edu	37	chr10	15648376	15648376	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttcgtccaaactgtaattcaAactaatgttgattggagata	7	6	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:15648376A>C	uc001ioc.1	-	18	1810	c.1810T>G	c.(1810-1812)TTG>GTG	p.L604V	ITGA8_uc010qcb.1_Missense_Mutation_p.L589V	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	604	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						CTGTAATTCAAACTAATGTTG	0.363													34	68	---	---	---	---	PASS	C	15648376	C	C	15648376	3	2	137	1	0	0	0	0	1	0	0	0	7882	11	1	5	1433	5	ITGA8	10	15648376	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08		15648376	119886371	150	48972										
GPR158	57512	broad.mit.edu	37	chr10	25886839	25886839	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgagacgcattacggagatcCcagagacagtcagccggcag	13	11	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:25886839C>A	uc001isj.2	+	11	2344	c.2284C>A	c.(2284-2286)CCA>ACA	p.P762T	GPR158_uc001isk.2_Missense_Mutation_p.P137T	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	762	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						TACGGAGATCCCAGAGACAGT	0.547													89	115	---	---	---	---	PASS	A	25886839	A	A	25886839	3	1	137	1	0	0	0	0	1	0	0	0	6663	623	22	3	2326	3	GPR158	10	25886839	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	10238463	25886839	109647908	151	48973										
ZNF33B	7582	broad.mit.edu	37	chr10	43090054	43090054	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttacattaccttgttccttaGtcagcatttcattattgatg	5	8	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:43090054G>A	uc001jaf.1	-	5	459	c.344C>T	c.(343-345)ACT>ATT	p.T115I	ZNF33B_uc009xmg.1_Missense_Mutation_p.T115I|ZNF33B_uc001jae.1_RNA|ZNF33B_uc001jag.1_Missense_Mutation_p.T3I|ZNF33B_uc001jad.2_RNA	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	115						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTGTTCCTTAGTCAGCATTTC	0.368													45	88	---	---	---	---	PASS	A	43090054	A	A	43090054	3	1	137	1	0	0	0	0	1	0	0	0	17852	1029	36	3	1996	3	ZNF33B	10	43090054	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	17203215	43090054	92444693	152	48974										
TMEM72	643236	broad.mit.edu	37	chr10	45430567	45430567	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttcctgtcatctcttacagcCaccggcctgttctgagcgct	8	15	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:45430567C>T	uc001jbn.2	+	5	1010	c.813C>T	c.(811-813)GCC>GCT	p.A271A	uc001jbk.1_Intron|uc001jbl.2_Intron|TMEM72_uc009xmm.1_Silent_p.A153A	NM_001123376	NP_001116848	A0PK05	TMM72_HUMAN	transmembrane protein 72	271						integral to membrane					0						CTCTTACAGCCACCGGCCTGT	0.602													18	37	---	---	---	---	PASS	T	45430567	T	T	45430567	2	4	137	1	0	0	0	0	0	0	0	1	16198	581	21	3		3	TMEM72	10	45430567	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	2340513	45430567	90104180	153	48975										
ERCC6	2074	broad.mit.edu	37	chr10	50732520	50732520	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cctcttttttggacagaactCtggctttcttgtttggtttg	9	8	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:50732520C>G	uc001jhs.3	-	5	1110	c.956G>C	c.(955-957)AGA>ACA	p.R319T	PGBD3_uc001jht.2_5'Flank|PGBD3_uc009xoe.2_Missense_Mutation_p.R319T|PGBD3_uc001jhu.2_Missense_Mutation_p.R319T	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	319					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						GGACAGAACTCTGGCTTTCTT	0.463								Direct_reversal_of_damage|NER					40	186	---	---	---	---	PASS	G	50732520	G	G	50732520	3	3	137	1	0	0	0	0	1	0	0	0	5217	913	32	2	3593	2	ERCC6	10	50732520	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	5301953	50732520	84802227	154	48976										
DKK1	22943	broad.mit.edu	37	chr10	54074381	54074381	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	caggctctgcagtcagcgccGcgccgggaatcctgtacccg	13	16	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:54074381G>T	uc001jjr.2	+	1	341	c.187G>T	c.(187-189)GCG>TCG	p.A63S	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	63					negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						AGTCAGCGCCGCGCCGGGAAT	0.622											OREG0020191	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	56	---	---	---	---	PASS	T	54074381	T	T	54074381	3	4	137	1	0	0	0	0	1	0	0	0	4544	1087	38	1	189	1	DKK1	10	54074381	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	3341861	54074381	81460366	155	48977										
ADO	84890	broad.mit.edu	37	chr10	64565180	64565180	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	acccgggcatgcacggcatgCtcaaggtgctgtacggcacc	13	14	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:64565180C>T	uc001jmg.2	+	1	665	c.361C>T	c.(361-363)CTC>TTC	p.L121F		NM_032804	NP_116193	Q96SZ5	AEDO_HUMAN	2-aminoethanethiol (cysteamine) dioxygenase	121							cysteamine dioxygenase activity|metal ion binding				0	Prostate(12;0.0297)|all_hematologic(501;0.228)					GCACGGCATGCTCAAGGTGCT	0.672													6	7	---	---	---	---	PASS	T	64565180	T	T	64565180	3	4	137	1	0	0	0	0	1	0	0	0	325	797	28	3	363	3	ADO	10	64565180	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	10490799	64565180	70969567	156	48978										
LRRTM3	347731	broad.mit.edu	37	chr10	68686994	68686994	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgacgaaaatgcttttaatgGaatacgcagactcaaagagc	9	7	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:68686994G>T	uc001jmz.1	+	2	870	c.320G>T	c.(319-321)GGA>GTA	p.G107V	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.G107V	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	107	Extracellular (Potential).|LRR 2.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GCTTTTAATGGAATACGCAGA	0.363													96	141	---	---	---	---	PASS	T	68686994	T	T	68686994	3	4	137	1	0	0	0	0	1	0	0	0	9041	1174	41	2	326	2	LRRTM3	10	68686994	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	4121814	68686994	66847753	157	48979										
GHITM	27069	broad.mit.edu	37	chr10	85901279	85901279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gttggctgcaaggctggtgtGtctccggacactaccttcta	12	11	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:85901279G>T	uc001kcs.1	+	2	227	c.23G>T	c.(22-24)TGT>TTT	p.C8F	GHITM_uc010qma.1_5'UTR|GHITM_uc010qmb.1_5'Flank	NM_014394	NP_055209	Q9H3K2	GHITM_HUMAN	growth hormone inducible transmembrane protein	8					apoptosis	integral to membrane|mitochondrial inner membrane					0						AGGCTGGTGTGTCTCCGGACA	0.468													32	115	---	---	---	---	PASS	T	85901279	T	T	85901279	3	4	137	1	0	0	0	0	1	0	0	0	6370	1377	48	3	25	3	GHITM	10	85901279	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	17214285	85901279	49633468	158	48980										
CYP2C19	1557	broad.mit.edu	37	chr10	96602608	96602608	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgtcagctaaagtccaggaaGagattgaacgtgtcgttggc	13	7	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:96602608G>C	uc010qnz.1	+	7	976	c.976G>C	c.(976-978)GAG>CAG	p.E326Q	CYP2C19_uc010qny.1_Missense_Mutation_p.E304Q	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	326					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	AGTCCAGGAAGAGATTGAACG	0.483													56	98	---	---	---	---	PASS	C	96602608	C	C	96602608	3	2	137	1	0	0	0	0	1	0	0	0	4166	943	33	2	1002	2	CYP2C19	10	96602608	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	10701329	96602608	38932139	159	48981										
PPRC1	23082	broad.mit.edu	37	chr10	103898671	103898671	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	actctctctcggacacccccAgaacgtgacctcatcacccc	5	20	4	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:103898671A>G	uc001kum.2	+	4	564	c.525A>G	c.(523-525)CCA>CCG	p.P175P	PPRC1_uc001kun.2_Silent_p.P55P|PPRC1_uc010qqj.1_Silent_p.P175P|PPRC1_uc009xxa.2_5'Flank	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	175					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		GGACACCCCCAGAACGTGACC	0.542													17	65	---	---	---	---	PASS	G	103898671	G	G	103898671	2	3	137	1	0	0	0	0	0	0	0	1	12410	175	7	5		5	PPRC1	10	103898671	Silent	SNP	A	TCGA-63-5131-01A-01D-1441-08	7296063	103898671	31636076	160	48982										
TRIM8	81603	broad.mit.edu	37	chr10	104404661	104404661	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gctgcactgcgtgttctgccGccgcggccccccgctgcccg	13	20	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:104404661G>A	uc001kvz.2	+	1	410	c.287G>A	c.(286-288)CGC>CAC	p.R96H		NM_030912	NP_112174	Q9BZR9	TRIM8_HUMAN	tripartite motif-containing 8	96	B box-type 1.					cytoplasm|PML body	ligase activity|protein homodimerization activity|zinc ion binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		GTGTTCTGCCGCCGCGGCCCC	0.701													3	2	---	---	---	---	PASS	A	104404661	A	A	104404661	3	1	137	1	0	0	0	0	1	0	0	0	16545	1087	38	1	289	1	TRIM8	10	104404661	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	505990	104404661	31130086	161	48983										
C10orf120	399814	broad.mit.edu	37	chr10	124457280	124457280	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aaggagttgctttacgcatgCgctctttccagatactctct	8	11	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr10:124457280C>A	uc001lgn.2	-	3	1009	c.977G>T	c.(976-978)CGC>CTC	p.R326L		NM_001010912	NP_001010912	Q5SQS8	CJ120_HUMAN	hypothetical protein LOC399814	326										kidney(1)	1		all_neural(114;0.169)|Glioma(114;0.222)				TTTACGCATGCGCTCTTTCCA	0.438													49	102	---	---	---	---	PASS	A	124457280	A	A	124457280	3	1	137	1	0	0	0	0	1	0	0	0	1590	768	27	1	34	1	C10orf120	10	124457280	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	20052619	124457280	11077467	162	48984										
OR51A4	401666	broad.mit.edu	37	chr11	4968319	4968319	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atttcaacatatgatgtgttGataatggacatgattcattc	7	5	2	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:4968319G>T	uc010qys.1	-	1	12	c.12C>A	c.(10-12)ATC>ATA	p.I4I		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	4	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATGATGTGTTGATAATGGACA	0.383													37	39	---	---	---	---	PASS	T	4968319	T	T	4968319	2	4	137	1	0	0	0	0	0	0	0	1	11087	1280	45	2		2	OR51A4	11	4968319	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08		4968319	130038197	163	48985										
OR52A5	390054	broad.mit.edu	37	chr11	5153430	5153430	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cagccctgagtgtcaccccaAgtccaatatgagttaagaac	8	12	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:5153430A>C	uc010qyx.1	-	1	443	c.443T>G	c.(442-444)CTT>CGT	p.L148R		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		TGTCACCCCAAGTCCAATATG	0.473													12	60	---	---	---	---	PASS	C	5153430	C	C	5153430	3	2	137	1	0	0	0	0	1	0	0	0	11110	72	3	5	510	5	OR52A5	11	5153430	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	185111	5153430	129853086	164	48986										
OR56A4	120793	broad.mit.edu	37	chr11	6023986	6023986	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gccaggaccttggggatgacGgtgaggcagagcacgatgtc	17	9	0	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:6023986G>C	uc010qzv.1	-	1	393	c.393C>G	c.(391-393)ACC>ACG	p.T131T		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	79	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGGGGATGACGGTGAGGCAGA	0.572													34	46	---	---	---	---	PASS	C	6023986	C	C	6023986	2	2	137	1	0	0	0	0	0	0	0	1	11135	1103	39	4		4	OR56A4	11	6023986	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	870556	6023986	128982530	165	48987										
ST5	6764	broad.mit.edu	37	chr11	8751741	8751741	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctgggagctagggctatttcCaggggtcccgggcttagtgg	17	9	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:8751741C>A	uc001mgt.2	-	3	1282	c.1096G>T	c.(1096-1098)GGA>TGA	p.G366*	ST5_uc009yfr.2_Intron|ST5_uc001mgu.2_Intron|ST5_uc001mgv.2_Nonsense_Mutation_p.G366*|ST5_uc010rbq.1_Intron|ST5_uc001mgw.1_Nonsense_Mutation_p.G366*	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	366	Pro-rich.				positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		GGGCTATTTCCAGGGGTCCCG	0.652													44	56	---	---	---	---	PASS	A	8751741	A	A	8751741	4	1	137	1	0	0	0	0	0	1	0	0	15219	603	21	3	2389	3	ST5	11	8751741	Nonsense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	2727755	8751741	126254775	166	48988										
KIF18A	81930	broad.mit.edu	37	chr11	28080680	28080680	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	taatgtgcaatattgttttcTtagggttggaagtaaagcat	10	3	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:28080680T>C	uc001msc.2	-	13	1923	c.1741A>G	c.(1741-1743)AGA>GGA	p.R581G		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	581					blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						TATTGTTTTCTTAGGGTTGGA	0.328													92	185	---	---	---	---	PASS	C	28080680	C	C	28080680	3	2	137	1	0	0	0	0	1	0	0	0	8280	1617	56	5	975	5	KIF18A	11	28080680	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	19328939	28080680	106925836	167	48989										
KCNA4	3739	broad.mit.edu	37	chr11	30033239	30033239	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctgtcgtccctaaactcaggCaaggtttccaggcaaaagat	9	11	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:30033239C>A	uc001msk.2	-	2	2139	c.987G>T	c.(985-987)TTG>TTT	p.L329F		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	329						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TAAACTCAGGCAAGGTTTCCA	0.512													63	129	---	---	---	---	PASS	A	30033239	A	A	30033239	3	1	137	1	0	0	0	0	1	0	0	0	8005	709	25	3	978	3	KCNA4	11	30033239	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	1952559	30033239	104973277	168	48990										
C1QTNF4	114900	broad.mit.edu	37	chr11	47612180	47612180	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aactggccggtggccacatcGaagtcgcccccgatgttcac	11	15	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:47612180G>T	uc001ngc.2	-	2	450	c.183C>A	c.(181-183)TTC>TTA	p.F61L		NM_031909	NP_114115	Q9BXJ3	C1QT4_HUMAN	C1q and tumor necrosis factor related protein 4	61	C1q 1.					extracellular region					0						TGGCCACATCGAAGTCGCCCC	0.672													8	19	---	---	---	---	PASS	T	47612180	T	T	47612180	3	4	137	1	0	0	0	0	1	0	0	0	1965	1049	37	2	810	2	C1QTNF4	11	47612180	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	17578941	47612180	87394336	169	48991										
OR4A5	81318	broad.mit.edu	37	chr11	51412301	51412301	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ccaccactgtcaccaagtatGtgagtaaaaacatgacaaat	6	10	1	2	rs150350902		TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:51412301G>T	uc001nhi.1	-	1	95	c.95C>A	c.(94-96)ACA>AAA	p.T32K		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				CACCAAGTATGTGAGTAAAAA	0.433													16	56	---	---	---	---	PASS	T	51412301	T	T	51412301	3	4	137	1	0	0	0	0	1	0	0	0	11043	1377	48	3	856	3	OR4A5	11	51412301	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	3800121	51412301	83594215	170	48992										
OR4A15	81328	broad.mit.edu	37	chr11	55135858	55135858	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aattgatcaccatgaatcgtCgagtctgtgttcttatgctg	9	8	3	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:55135858C>A	uc010rif.1	+	1	499	c.499C>A	c.(499-501)CGA>AGA	p.R167R		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	167	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CATGAATCGTCGAGTCTGTGT	0.438													77	241	---	---	---	---	PASS	A	55135858	A	A	55135858	2	1	137	1	0	0	0	0	0	0	0	1	11040	876	31	2		2	OR4A15	11	55135858	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	3723557	55135858	79870658	171	48993										
OR5D13	390142	broad.mit.edu	37	chr11	55541616	55541616	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgaagatgcgatctgcaagtGggcgccagaaaactttctcc	11	10	2	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:55541616G>T	uc010ril.1	+	1	703	c.703G>T	c.(703-705)GGG>TGG	p.G235W		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				ATCTGCAAGTGGGCGCCAGAA	0.408													53	82	---	---	---	---	PASS	T	55541616	T	T	55541616	3	4	137	1	0	0	0	0	1	0	0	0	11154	1348	47	3	705	3	OR5D13	11	55541616	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	405758	55541616	79464900	172	48994										
OR8H3	390152	broad.mit.edu	37	chr11	55890035	55890035	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttcacactcccatgtattttTtccttactcacctgtcattt	2	13	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:55890035T>G	uc001nii.1	+	1	187	c.187T>G	c.(187-189)TTC>GTC	p.F63V		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	63	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CATGTATTTTTTCCTTACTCA	0.423													36	459	---	---	---	---	PASS	G	55890035	G	G	55890035	3	3	137	1	0	0	0	0	1	0	0	0	11239	1841	64	5	189	5	OR8H3	11	55890035	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	348419	55890035	79116481	173	48995										
OR5M11	219487	broad.mit.edu	37	chr11	56310580	56310580	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gggcgtgtgaaggcgagagtCcagtctcattaacattatca	12	8	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:56310580C>A	uc010rjl.1	-	1	154	c.154G>T	c.(154-156)GAC>TAC	p.D52Y		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	52	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGGCGAGAGTCCAGTCTCATT	0.468													54	149	---	---	---	---	PASS	A	56310580	A	A	56310580	3	1	137	1	0	0	0	0	1	0	0	0	11174	855	30	2	766	2	OR5M11	11	56310580	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	420545	56310580	78695936	174	48996										
OR5AP2	338675	broad.mit.edu	37	chr11	56409179	56409179	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ccatgaggtaagaggcacagGtggagaaggctttgtgcctg	16	7	0	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:56409179G>T	uc001njb.1	-	1	737	c.737C>A	c.(736-738)ACC>AAC	p.T246N		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						AGAGGCACAGGTGGAGAAGGC	0.468													40	122	---	---	---	---	PASS	T	56409179	T	T	56409179	3	4	137	1	0	0	0	0	1	0	0	0	11144	1261	44	3	217	3	OR5AP2	11	56409179	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	98599	56409179	78597337	175	48997										
OR1S2	219958	broad.mit.edu	37	chr11	57971013	57971013	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgataactgataaacccacaAtaaacaacacaagctcattg	4	10	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:57971013A>G	uc010rkb.1	-	1	641	c.641T>C	c.(640-642)ATT>ACT	p.I214T		NM_001004459	NP_001004459	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				TAAACCCACAATAAACAACAC	0.448													30	77	---	---	---	---	PASS	G	57971013	G	G	57971013	3	3	137	1	0	0	0	0	1	0	0	0	10973	101	4	5	339	5	OR1S2	11	57971013	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	1561834	57971013	77035503	176	48998										
OR5A2	219981	broad.mit.edu	37	chr11	59190101	59190101	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggagaaagcattcagtcagcCccatcccacagaagacaaag	9	12	2	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:59190101C>A	uc010rkt.1	-	1	326	c.326G>T	c.(325-327)GGG>GTG	p.G109V		NM_001001954	NP_001001954	Q8NGI9	OR5A2_HUMAN	olfactory receptor, family 5, subfamily A,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTCAGTCAGCCCCATCCCACA	0.498													37	48	---	---	---	---	PASS	A	59190101	A	A	59190101	3	1	137	1	0	0	0	0	1	0	0	0	11140	623	22	3	650	3	OR5A2	11	59190101	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	1219088	59190101	75816415	177	48999										
LRP5	4041	broad.mit.edu	37	chr11	68204451	68204451	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cccgactgtatcgacggctcCgacgagctcatgtgtggtga	13	12	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:68204451C>T	uc001ont.2	+	19	4170	c.4095C>T	c.(4093-4095)TCC>TCT	p.S1365S	LRP5_uc009ysg.2_Silent_p.S775S	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1365	LDL-receptor class A 3.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						TCGACGGCTCCGACGAGCTCA	0.627													12	84	---	---	---	---	PASS	T	68204451	T	T	68204451	2	4	137	1	0	0	0	0	0	0	0	1	8960	639	23	1		1	LRP5	11	68204451	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	9014350	68204451	66802065	178	49000										
KRTAP5-8	57830	broad.mit.edu	37	chr11	71249616	71249616	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cagctgctgcaagccctgctGttcccagtccagctgctgtg	11	15	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:71249616G>T	uc001oqr.1	+	1	546	c.515G>T	c.(514-516)TGT>TTT	p.C172F		NM_021046	NP_066384	O75690	KRA58_HUMAN	keratin associated protein 5-8	172	9 X 4 AA repeats of C-C-X-P.					extracellular region|keratin filament	structural constituent of epidermis				0						AAGCCCTGCTGTTCCCAGTCC	0.587													72	144	---	---	---	---	PASS	T	71249616	T	T	71249616	3	4	137	1	0	0	0	0	1	0	0	0	8567	1377	48	3	517	3	KRTAP5-8	11	71249616	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	3045165	71249616	63756900	179	49001										
FAT3	120114	broad.mit.edu	37	chr11	92257851	92257851	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggagacaatggggtcatactGgctaacagtgtatgccacag	13	8	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:92257851G>C	uc001pdj.3	+	2	3361	c.3344G>C	c.(3343-3345)TGG>TCG	p.W1115S		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1115	Cadherin 10.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GGGTCATACTGGCTAACAGTG	0.483										TCGA Ovarian(4;0.039)			8	67	---	---	---	---	PASS	C	92257851	C	C	92257851	3	2	137	1	0	0	0	0	1	0	0	0	5691	1357	47	4	3350	4	FAT3	11	92257851	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	21008235	92257851	42748665	180	49002										
MTNR1B	4544	broad.mit.edu	37	chr11	92715453	92715453	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agctccacccatcattggtgTgcagcaccaggcagatgctc	10	14	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:92715453T>A	uc001pdk.1	+	2	1167	c.1064T>A	c.(1063-1065)GTG>GAG	p.V355E		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	355	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	ATCATTGGTGTGCAGCACCAG	0.582													22	45	---	---	---	---	PASS	A	92715453	A	A	92715453	3	1	137	1	0	0	0	0	1	0	0	0	9952	1696	59	5	1070	5	MTNR1B	11	92715453	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	457602	92715453	42291063	181	49003										
MED17	9440	broad.mit.edu	37	chr11	93529669	93529669	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atgtccggaggaccacctttAtgtcctagagcataatttgc	9	10	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:93529669A>G	uc001pem.3	+	7	1381	c.1106A>G	c.(1105-1107)TAT>TGT	p.Y369C		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	369					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GACCACCTTTATGTCCTAGAG	0.393													40	154	---	---	---	---	PASS	G	93529669	G	G	93529669	3	3	137	1	0	0	0	0	1	0	0	0	9435	449	16	5	1132	5	MED17	11	93529669	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	814216	93529669	41476847	182	49004										
NCAM1	4684	broad.mit.edu	37	chr11	113102895	113102895	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	attgttatttattgcagatgCcccaaagctacagggccctg	9	10	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:113102895C>G	uc009yyq.1	+	12	1662	c.968C>G	c.(967-969)GCC>GGC	p.A323G		NM_001076682	NP_001070150	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1 isoform 3	415	Extracellular (Potential).				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		ATTGCAGATGCCCCAAAGCTA	0.532													11	29	---	---	---	---	PASS	G	113102895	G	G	113102895	3	3	137	1	0	0	0	0	1	0	0	0	10202	739	26	4	1287	4	NCAM1	11	113102895	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	19573226	113102895	21903621	183	49005										
ZBTB16	7704	broad.mit.edu	37	chr11	113934218	113934218	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttgagatcctcttccaccgcAatagtcaacactatactttg	5	12	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:113934218A>G	uc001pop.2	+	2	460	c.196A>G	c.(196-198)AAT>GAT	p.N66D	ZBTB16_uc001poo.1_Missense_Mutation_p.N66D|ZBTB16_uc001poq.2_Missense_Mutation_p.N66D	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	66	BTB.				apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		CTTCCACCGCAATAGTCAACA	0.542													23	56	---	---	---	---	PASS	G	113934218	G	G	113934218	3	3	137	1	0	0	0	0	1	0	0	0	17523	130	5	5	198	5	ZBTB16	11	113934218	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	831323	113934218	21072298	184	49006										
OR4D5	219875	broad.mit.edu	37	chr11	123810646	123810646	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cttcttcttccacttcattgGaggcatcaagatcttcctgc	6	13	5	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:123810646G>A	uc001pzk.1	+	1	323	c.323G>A	c.(322-324)GGA>GAA	p.G108E		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CACTTCATTGGAGGCATCAAG	0.498													32	106	---	---	---	---	PASS	A	123810646	A	A	123810646	3	1	137	1	0	0	0	0	1	0	0	0	11057	1174	41	2	325	2	OR4D5	11	123810646	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	9876428	123810646	11195870	185	49007										
OR8B2	26595	broad.mit.edu	37	chr11	124252379	124252379	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttgttcctcaaactgtagatGaggggattgagcatgggcac	13	7	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:124252379G>A	uc010sai.1	-	1	861	c.861C>T	c.(859-861)CTC>CTT	p.L287L		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	287	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		AACTGTAGATGAGGGGATTGA	0.378													78	126	---	---	---	---	PASS	A	124252379	A	A	124252379	2	1	137	1	0	0	0	0	0	0	0	1	11227	1277	45	2		2	OR8B2	11	124252379	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	441733	124252379	10754137	186	49008										
ROBO3	64221	broad.mit.edu	37	chr11	124749437	124749437	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cgattccggaagaaacccaaGgctcttccctacaggaggga	11	12	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:124749437G>T	uc001qbc.2	+	25	3954	c.3762G>T	c.(3760-3762)AAG>AAT	p.K1254N	ROBO3_uc001qbd.2_Missense_Mutation_p.K179N|ROBO3_uc010sar.1_Missense_Mutation_p.K303N|ROBO3_uc001qbe.2_Missense_Mutation_p.K179N|ROBO3_uc001qbf.1_Missense_Mutation_p.K138N	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	1254	Cytoplasmic (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		AGAAACCCAAGGCTCTTCCCT	0.602													18	25	---	---	---	---	PASS	T	124749437	T	T	124749437	3	4	137	1	0	0	0	0	1	0	0	0	13515	991	35	3	3860	3	ROBO3	11	124749437	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	497058	124749437	10257079	187	49009										
ST3GAL4	6484	broad.mit.edu	37	chr11	126278334	126278334	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gacacactcctcgtcctggtAgctttcaaggcaatggactt	9	12	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:126278334A>C	uc001qds.2	+	8	789	c.570A>C	c.(568-570)GTA>GTC	p.V190V	ST3GAL4_uc001qdt.2_Silent_p.V186V|ST3GAL4_uc009zcc.2_Silent_p.V26V|ST3GAL4_uc009zcd.2_Silent_p.V179V|ST3GAL4_uc001qdu.2_Silent_p.V186V|ST3GAL4_uc001qdv.2_Silent_p.V190V|ST3GAL4_uc009zce.2_Silent_p.V186V|ST3GAL4_uc001qdw.2_Silent_p.V179V|ST3GAL4_uc001qdx.1_Silent_p.V147V|ST3GAL4_uc001qdy.2_Silent_p.V26V|ST3GAL4_uc001qdz.2_Silent_p.V26V	NM_006278	NP_006269	Q11206	SIA4C_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	190	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.138)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0767)		TCGTCCTGGTAGCTTTCAAGG	0.562													26	75	---	---	---	---	PASS	C	126278334	C	C	126278334	2	2	137	1	0	0	0	0	0	0	0	1	15216	407	15	5		5	ST3GAL4	11	126278334	Silent	SNP	A	TCGA-63-5131-01A-01D-1441-08	1528897	126278334	8728182	188	49010										
ZBTB44	29068	broad.mit.edu	37	chr11	130106942	130106942	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgcatctttagcgagtaagcCctggtgaactttttcccaca	8	11	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr11:130106942C>A	uc001qga.2	-	5	1708	c.1314G>T	c.(1312-1314)AGG>AGT	p.R438S	ZBTB44_uc001qgb.3_Missense_Mutation_p.R438S|ZBTB44_uc001qfx.2_RNA|ZBTB44_uc001qfz.2_Missense_Mutation_p.R438S	NM_014155	NP_054874	Q8NCP5	ZBT44_HUMAN	zinc finger and BTB domain containing 44	438	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0192)|Lung(977;0.235)		GCGAGTAAGCCCTGGTGAACT	0.388													46	81	---	---	---	---	PASS	A	130106942	A	A	130106942	3	1	137	1	0	0	0	0	1	0	0	0	17542	622	22	3	55	3	ZBTB44	11	130106942	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	3828608	130106942	4899574	189	49011										
ADIPOR2	79602	broad.mit.edu	37	chr12	1895206	1895206	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aggagtttcgtttcatgatcGgcgggggctgcagtgaagag	17	6	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:1895206G>A	uc001qjm.2	+	8	1326	c.1129G>A	c.(1129-1131)GGC>AGC	p.G377S	ADIPOR2_uc001qjn.2_Missense_Mutation_p.G377S	NM_024551	NP_078827	Q86V24	ADR2_HUMAN	adiponectin receptor 2	377	Extracellular (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane	hormone binding|receptor activity				0	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000382)			TTTCATGATCGGCGGGGGCTG	0.537													149	103	---	---	---	---	PASS	A	1895206	A	A	1895206	3	1	137	1	0	0	0	0	1	0	0	0	319	1116	39	1	1155	1	ADIPOR2	12	1895206	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08		1895206	131956689	190	49012										
EFCAB4B	84766	broad.mit.edu	37	chr12	3782628	3782628	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ccacctttttagggcacactCcagttcattcttctcctcat	4	15	4	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:3782628C>A	uc001qmj.2	-	7	1227	c.655G>T	c.(655-657)GAG>TAG	p.E219*	EFCAB4B_uc010sen.1_Nonsense_Mutation_p.E219*|EFCAB4B_uc010seo.1_Nonsense_Mutation_p.E219*|EFCAB4B_uc001qmi.1_RNA	NM_032680	NP_116069	Q9BSW2	EFC4B_HUMAN	EF-hand calcium binding domain 4B isoform c	219	Potential.				activation of store-operated calcium channel activity|store-operated calcium entry	cytoplasm	calcium ion binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.00287)|COAD - Colon adenocarcinoma(12;0.0264)			AGGGCACACTCCAGTTCATTC	0.478													78	77	---	---	---	---	PASS	A	3782628	A	A	3782628	4	1	137	1	0	0	0	0	0	1	0	0	4937	864	30	2	1788	2	EFCAB4B	12	3782628	Nonsense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	1887422	3782628	130069267	191	49013										
FGF23	8074	broad.mit.edu	37	chr12	4479706	4479706	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cagcacgttcagggggtcccGctccgagtcgtcctcggcgc	14	16	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:4479706G>A	uc001qmq.1	-	3	705	c.559C>T	c.(559-561)CGG>TGG	p.R187W		NM_020638	NP_065689	Q9GZV9	FGF23_HUMAN	fibroblast growth factor 23 precursor	187					cell differentiation|insulin receptor signaling pathway|negative regulation of bone mineralization|negative regulation of hormone secretion|negative regulation of osteoblast differentiation|positive regulation of vitamin D 24-hydroxylase activity|regulation of phosphate transport|vitamin D catabolic process	extracellular space	growth factor activity			ovary(2)|breast(1)|skin(1)	4			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)|STAD - Stomach adenocarcinoma(119;0.206)			AGGGGGTCCCGCTCCGAGTCG	0.682													39	35	---	---	---	---	PASS	A	4479706	A	A	4479706	3	1	137	1	0	0	0	0	1	0	0	0	5852	1086	38	1	200	1	FGF23	12	4479706	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	697078	4479706	129372189	192	49014										
FGF6	2251	broad.mit.edu	37	chr12	4543478	4543478	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tcagggcaatgtaggtccctTggtacaagtctgactcgtag	12	9	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:4543478T>A	uc001qmr.1	-	3	574	c.530A>T	c.(529-531)CAA>CTA	p.Q177L		NM_020996	NP_066276	P10767	FGF6_HUMAN	fibroblast growth factor 6 precursor	177					angiogenesis|cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	growth factor activity			lung(2)|ovary(1)	3			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)			GTAGGTCCCTTGGTACAAGTC	0.512													31	156	---	---	---	---	PASS	A	4543478	A	A	4543478	3	1	137	1	0	0	0	0	1	0	0	0	5856	1812	63	5	100	5	FGF6	12	4543478	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	63772	4543478	129308417	193	49015										
CHD4	1108	broad.mit.edu	37	chr12	6703741	6703741	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaagcgcaaccaattcaggcCctccatttgataggggtgca	11	11	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:6703741C>A	uc001qpo.2	-	15	2361	c.2197G>T	c.(2197-2199)GGC>TGC	p.G733C	CHD4_uc001qpn.2_Missense_Mutation_p.G726C|CHD4_uc001qpp.2_Missense_Mutation_p.G730C	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	733					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						CAATTCAGGCCCTCCATTTGA	0.522													22	123	---	---	---	---	PASS	A	6703741	A	A	6703741	3	1	137	1	0	0	0	0	1	0	0	0	3327	623	22	3	3645	3	CHD4	12	6703741	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	2160263	6703741	127148154	194	49016										
FAM90A1	55138	broad.mit.edu	37	chr12	8374731	8374731	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gtctgctgtgcggaggctgcCggtcgccgctaagcacctgg	16	13	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:8374731C>G	uc001qui.2	-	7	1641	c.1082G>C	c.(1081-1083)CGG>CCG	p.R361P	FAM90A1_uc001quh.2_Missense_Mutation_p.R361P	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	361							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		CGGAGGCTGCCGGTCGCCGCT	0.667													31	29	---	---	---	---	PASS	G	8374731	G	G	8374731	3	3	137	1	0	0	0	0	1	0	0	0	5650	652	23	4	316	4	FAM90A1	12	8374731	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	1670990	8374731	125477164	195	49017										
LST-3TM12	338821	broad.mit.edu	37	chr12	21196275	21196275	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttatttattctaggcactatCaggataactcctaaggactc	6	9	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:21196275C>T	uc010sin.1	+	6	594	c.594C>T	c.(592-594)ATC>ATT	p.I198I	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Silent_p.I245I	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	198						membrane	transporter activity				0						TAGGCACTATCAGGATAACTC	0.373													82	150	---	---	---	---	PASS	T	21196275	T	T	21196275	2	4	137	1	0	0	0	0	0	0	0	1	9066	816	29	2		2	LST-3TM12	12	21196275	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	12821544	21196275	112655620	196	49018										
PDZRN4	29951	broad.mit.edu	37	chr12	41587941	41587941	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttcaaaaattttagaaaatgGacctgctgacagagcagatg	9	6	1	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:41587941G>A	uc010skn.1	+	3	265	c.197G>A	c.(196-198)GGA>GAA	p.G66E		NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	265	PDZ 1.						ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				TTAGAAAATGGACCTGCTGAC	0.338													19	32	---	---	---	---	PASS	A	41587941	A	A	41587941	3	1	137	1	0	0	0	0	1	0	0	0	11710	1174	41	2	804	2	PDZRN4	12	41587941	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	20391666	41587941	92263954	197	49019										
COL2A1	1280	broad.mit.edu	37	chr12	48380194	48380194	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctcttgccttcttcaccagcGggtccaggggctccctgggg	13	15	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:48380194G>A	uc001rqu.2	-	23	1633	c.1452C>T	c.(1450-1452)CCC>CCT	p.P484P	COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Silent_p.P415P	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	484	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CTTCACCAGCGGGTCCAGGGG	0.612													6	6	---	---	---	---	PASS	A	48380194	A	A	48380194	2	1	137	1	0	0	0	0	0	0	0	1	3687	1103	39	1		1	COL2A1	12	48380194	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	6792253	48380194	85471701	198	49020										
TUBA1C	84790	broad.mit.edu	37	chr12	49666042	49666042	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tttttattttgcaggctgacCagtgcaccggtcttcagggc	11	10	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:49666042C>T	uc001rtt.1	+	4	482	c.382C>T	c.(382-384)CAG>TAG	p.Q128*	TUBA1C_uc001rts.2_Nonsense_Mutation_p.Q93*|TUBA1C_uc010smh.1_Nonsense_Mutation_p.Q198*	NM_032704	NP_116093	Q9BQE3	TBA1C_HUMAN	tubulin alpha 6	128					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0						GCAGGCTGACCAGTGCACCGG	0.438													21	99	---	---	---	---	PASS	T	49666042	T	T	49666042	4	4	137	1	0	0	0	0	0	1	0	0	16742	595	21	3	396	3	TUBA1C	12	49666042	Nonsense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	1285848	49666042	84185853	199	49021										
ACCN2	41	broad.mit.edu	37	chr12	50471005	50471005	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gccctcgccaggtcttcacaCgctatggaaagtgctacacg	10	14	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:50471005C>T	uc001rvw.2	+	4	797	c.568C>T	c.(568-570)CGC>TGC	p.R190C	ACCN2_uc001rvv.2_Missense_Mutation_p.R190C|ACCN2_uc009zln.2_Translation_Start_Site|ACCN2_uc009zlo.2_Missense_Mutation_p.R190C	NM_001095	NP_001086	P78348	ACCN2_HUMAN	amiloride-sensitive cation channel 2, neuronal	190	Extracellular (By similarity).				calcium ion transport|response to pH|signal transduction	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(1)	1					Amiloride(DB00594)	GGTCTTCACACGCTATGGAAA	0.597													23	158	---	---	---	---	PASS	T	50471005	T	T	50471005	3	4	137	1	0	0	0	0	1	0	0	0	129	536	19	1	578	1	ACCN2	12	50471005	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	804963	50471005	83380890	200	49022										
SLC4A8	9498	broad.mit.edu	37	chr12	51851168	51851168	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tcagcaagaactgtccagtgAcctgaatgacagcatgaggg	12	9	1	5			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:51851168A>T	uc001rys.1	+	6	786	c.608A>T	c.(607-609)GAC>GTC	p.D203V	SLC4A8_uc010sni.1_Missense_Mutation_p.D150V|SLC4A8_uc001rym.2_Missense_Mutation_p.D150V|SLC4A8_uc001ryn.2_Missense_Mutation_p.D150V|SLC4A8_uc001ryo.2_Missense_Mutation_p.D150V|SLC4A8_uc001ryp.1_Missense_Mutation_p.D150V|SLC4A8_uc010snj.1_Missense_Mutation_p.D230V|SLC4A8_uc001ryq.3_Missense_Mutation_p.D203V|SLC4A8_uc001ryr.2_Missense_Mutation_p.D203V|SLC4A8_uc010snk.1_Missense_Mutation_p.D150V	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	203	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		CTGTCCAGTGACCTGAATGAC	0.463													19	75	---	---	---	---	PASS	T	51851168	T	T	51851168	3	4	137	1	0	0	0	0	1	0	0	0	14659	275	10	5	630	5	SLC4A8	12	51851168	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	1380163	51851168	82000727	201	49023										
TENC1	23371	broad.mit.edu	37	chr12	53449424	53449424	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gctccatctgcaaagccatgGagacatggctcagtgctgac	11	12	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:53449424G>C	uc001sbp.2	+	9	781	c.646G>C	c.(646-648)GAG>CAG	p.E216Q	uc001sbk.1_5'Flank|TENC1_uc001sbl.2_Missense_Mutation_p.E92Q|TENC1_uc001sbm.2_Missense_Mutation_p.E226Q|TENC1_uc001sbn.2_Missense_Mutation_p.E226Q|TENC1_uc001sbo.1_Missense_Mutation_p.E216Q|TENC1_uc001sbq.2_5'Flank|TENC1_uc001sbr.2_5'Flank	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	216	Phosphatase tensin-type.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						CAAAGCCATGGAGACATGGCT	0.607													36	124	---	---	---	---	PASS	C	53449424	C	C	53449424	3	2	137	1	0	0	0	0	1	0	0	0	15755	1175	41	2	789	2	TENC1	12	53449424	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	1598256	53449424	80402471	202	49024										
OR10P1	121130	broad.mit.edu	37	chr12	56030764	56030764	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gcagggccccctgttctgggTggtgcttctggtctacctgg	15	12	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:56030764T>G	uc010spq.1	+	1	89	c.89T>G	c.(88-90)GTG>GGG	p.V30G		NM_206899	NP_996782	Q8NGE3	O10P1_HUMAN	olfactory receptor, family 10, subfamily P,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						CTGTTCTGGGTGGTGCTTCTG	0.577													37	158	---	---	---	---	PASS	G	56030764	G	G	56030764	3	3	137	1	0	0	0	0	1	0	0	0	10915	1696	59	5	91	5	OR10P1	12	56030764	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	2581340	56030764	77821131	203	49025										
ESYT1	23344	broad.mit.edu	37	chr12	56522358	56522358	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggtttcgtgctcttcggcctCgccctctacctgggctggcg	13	15	2	0	rs80169445	by1000genomes	TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:56522358C>T	uc001sjq.2	+	1	305	c.255C>T	c.(253-255)CTC>CTT	p.L85L	ESYT1_uc001sjr.2_Silent_p.L85L	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	85						integral to membrane				ovary(4)|skin(1)	5						TCTTCGGCCTCGCCCTCTACC	0.632													16	14	---	---	---	---	PASS	T	56522358	T	T	56522358	2	4	137	1	0	0	0	0	0	0	0	1	5264	871	31	2		2	ESYT1	12	56522358	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	491594	56522358	77329537	204	49026										
ACAD10	80724	broad.mit.edu	37	chr12	112174718	112174718	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	actgtctccaaatggggctcCctcccactgagaactggaac	9	14	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:112174718C>T	uc001tsq.2	+	12	1824	c.1624C>T	c.(1624-1626)CCT>TCT	p.P542S	ACAD10_uc001tsp.2_Missense_Mutation_p.P542S|ACAD10_uc009zvx.2_Missense_Mutation_p.P573S|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	542							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						AATGGGGCTCCCTCCCACTGA	0.483													25	96	---	---	---	---	PASS	T	112174718	T	T	112174718	3	4	137	1	0	0	0	0	1	0	0	0	108	623	22	3	1763	3	ACAD10	12	112174718	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	55652360	112174718	21677177	205	49027										
ACAD10	80724	broad.mit.edu	37	chr12	112184962	112184962	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tctgctggaggggaaagcccGctcctgttttgctatgaccg	13	11	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:112184962G>A	uc001tsq.2	+	15	2566	c.2366G>A	c.(2365-2367)CGC>CAC	p.R789H	ACAD10_uc001tsp.2_Missense_Mutation_p.R789H|ACAD10_uc009zvx.2_Missense_Mutation_p.R820H|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	789							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						GGGAAAGCCCGCTCCTGTTTT	0.637													18	48	---	---	---	---	PASS	A	112184962	A	A	112184962	3	1	137	1	0	0	0	0	1	0	0	0	108	1087	38	1	2517	1	ACAD10	12	112184962	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	10244	112184962	21666933	206	49028										
HSPB8	26353	broad.mit.edu	37	chr12	119617367	119617367	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ccaggtttggggtgcctgccGagggcaggacccccccaccc	14	17	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:119617367G>C	uc001txb.2	+	1	773	c.250G>C	c.(250-252)GAG>CAG	p.E84Q	HSPB8_uc001txc.2_Missense_Mutation_p.E84Q	NM_014365	NP_055180	Q9UJY1	HSPB8_HUMAN	heat shock 22kDa protein 8	84					cell death|response to heat	cytoplasm|nucleus	identical protein binding|protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GGTGCCTGCCGAGGGCAGGAC	0.657													12	24	---	---	---	---	PASS	C	119617367	C	C	119617367	3	2	137	1	0	0	0	0	1	0	0	0	7423	1059	37	2	252	2	HSPB8	12	119617367	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	7432405	119617367	14234528	207	49029										
CAMKK2	10645	broad.mit.edu	37	chr12	121686468	121686468	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gacctcctcttcagtcacttCgaccagcgtgcagttctcat	7	15	4	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:121686468C>A	uc001tzu.2	-	14	1517	c.1393G>T	c.(1393-1395)GAA>TAA	p.E465*	CAMKK2_uc001tzt.2_Nonsense_Mutation_p.E465*|CAMKK2_uc001tzv.2_Nonsense_Mutation_p.E465*|CAMKK2_uc001tzw.2_Intron|CAMKK2_uc001tzx.2_Nonsense_Mutation_p.E465*|CAMKK2_uc001tzy.2_Intron|CAMKK2_uc001tzz.1_Nonsense_Mutation_p.E252*|CAMKK2_uc001uaa.1_Nonsense_Mutation_p.E465*|CAMKK2_uc001uab.2_Nonsense_Mutation_p.E465*|CAMKK2_uc001uac.2_Intron	NM_006549	NP_006540	Q96RR4	KKCC2_HUMAN	calcium/calmodulin-dependent protein kinase	465					calcium-mediated signaling|MAPKKK cascade|positive regulation of transcription, DNA-dependent|protein autophosphorylation|regulation of protein kinase activity	cytoplasm	ATP binding|calcium ion binding|calmodulin binding|calmodulin-dependent protein kinase activity|protein tyrosine kinase activity			lung(1)|large_intestine(1)|stomach(1)	3	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TCAGTCACTTCGACCAGCGTG	0.612													49	136	---	---	---	---	PASS	A	121686468	A	A	121686468	4	1	137	1	0	0	0	0	0	1	0	0	2607	893	31	2	399	2	CAMKK2	12	121686468	Nonsense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	2069101	121686468	12165427	208	49030										
WDR66	144406	broad.mit.edu	37	chr12	122359576	122359576	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgattcccagtcaatcacatCaggaattttcccagtaagta	6	10	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr12:122359576C>T	uc009zxk.2	+	2	507	c.365C>T	c.(364-366)TCA>TTA	p.S122L		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	122							calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		TCAATCACATCAGGAATTTTC	0.303													37	86	---	---	---	---	PASS	T	122359576	T	T	122359576	3	4	137	1	0	0	0	0	1	0	0	0	17314	838	29	2	367	2	WDR66	12	122359576	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	673108	122359576	11492319	209	49031										
RASL11A	387496	broad.mit.edu	37	chr13	27847445	27847445	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaaatttccactagcgaaaaCtacgaagatgtctgtgatgt	9	7	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr13:27847445C>G	uc001urd.1	+	4	1161	c.543C>G	c.(541-543)AAC>AAG	p.N181K		NM_206827	NP_996563	Q6T310	RSLBA_HUMAN	RAS-like, family 11, member A	181	Small GTPase-like.				positive regulation of transcription from RNA polymerase I promoter|small GTPase mediated signal transduction|transcription, DNA-dependent	membrane|nucleolus	GTP binding|GTPase activity			breast(1)	1		Lung SC(185;0.0161)	Colorectal(13;0.00042)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.0173)|GBM - Glioblastoma multiforme(144;0.0557)|OV - Ovarian serous cystadenocarcinoma(117;0.152)|Epithelial(112;0.164)		CTAGCGAAAACTACGAAGATG	0.527													16	36	---	---	---	---	PASS	G	27847445	G	G	27847445	3	3	137	1	0	0	0	0	1	0	0	0	13081	564	20	4	557	4	RASL11A	13	27847445	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08		27847445	87322433	210	49032										
FLT3	2322	broad.mit.edu	37	chr13	28623578	28623578	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgaagaggaacaagtgtagtAtccggtgtcgtttcttgcca	12	7	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr13:28623578A>G	uc001urw.2	-	8	1061	c.979T>C	c.(979-981)TAC>CAC	p.Y327H	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Missense_Mutation_p.Y327H	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	327	Extracellular (Potential).|Ig-like C2-type.				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	CAAGTGTAGTATCCGGTGTCG	0.408			Mis|O		AML|ALL								171	95	---	---	---	---	PASS	G	28623578	G	G	28623578	3	3	137	1	0	0	0	0	1	0	0	0	5942	449	16	5	2070	5	FLT3	13	28623578	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	776133	28623578	86546300	211	49033										
STARD13	90627	broad.mit.edu	37	chr13	33684169	33684169	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cgcggttcaggaccactgagGggggtgcttccacctccaca	13	14	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr13:33684169G>T	uc001uuw.2	-	12	3014	c.2888C>A	c.(2887-2889)CCC>CAC	p.P963H	STARD13_uc001uuu.2_Missense_Mutation_p.P955H|STARD13_uc001uuv.2_Missense_Mutation_p.P845H|STARD13_uc001uux.2_Missense_Mutation_p.P928H|STARD13_uc010tec.1_RNA	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	963	START.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		GACCACTGAGGGGGGTGCTTC	0.577											OREG0022359	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	62	41	---	---	---	---	PASS	T	33684169	T	T	33684169	3	4	137	1	0	0	0	0	1	0	0	0	15255	1232	43	3	465	3	STARD13	13	33684169	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	5060591	33684169	81485709	212	49034										
AKAP11	11215	broad.mit.edu	37	chr13	42875329	42875329	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tagtaattcaaatggtgattCtgcccaagtgcatattgcca	8	8	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr13:42875329C>G	uc001uys.1	+	8	2622	c.2447C>G	c.(2446-2448)TCT>TGT	p.S816C		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	816					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		AATGGTGATTCTGCCCAAGTG	0.408													41	89	---	---	---	---	PASS	G	42875329	G	G	42875329	3	3	137	1	0	0	0	0	1	0	0	0	447	913	32	2	2469	2	AKAP11	13	42875329	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	9191160	42875329	72294549	213	49035										
ZC3H13	23091	broad.mit.edu	37	chr13	46549424	46549424	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ataattattcttactttgatTttctttcatcatgtccatct	2	8	5	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr13:46549424T>A	uc010tfw.1	-	11	2468	c.2462A>T	c.(2461-2463)AAA>ATA	p.K821I	ZC3H13_uc001vas.1_Missense_Mutation_p.K821I|ZC3H13_uc001vat.1_Missense_Mutation_p.K821I	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	821	Arg/Glu-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		TTACTTTGATTTTCTTTCATC	0.333													185	103	---	---	---	---	PASS	A	46549424	A	A	46549424	3	1	137	1	0	0	0	0	1	0	0	0	17562	1841	64	5	2256	5	ZC3H13	13	46549424	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	3674095	46549424	68620454	214	49036										
KLHL1	57626	broad.mit.edu	37	chr13	70681661	70681661	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ccgcttctctcttggcttttGagcaggcgactctggctggg	13	12	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr13:70681661G>C	uc001vip.2	-	1	965	c.171C>G	c.(169-171)CTC>CTG	p.L57L	KLHL1_uc010thm.1_Silent_p.L57L|ATXN8OS_uc010aej.1_RNA	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	57	Ser-rich.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		CTTGGCTTTTGAGCAGGCGAC	0.473													44	37	---	---	---	---	PASS	C	70681661	C	C	70681661	2	2	137	1	0	0	0	0	0	0	0	1	8365	1277	45	2		2	KLHL1	13	70681661	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	24132237	70681661	44488217	215	49037										
NALCN	259232	broad.mit.edu	37	chr13	101828722	101828722	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agcaacaaacaaactcaggaGgatctataaaatggtgaaat	8	6	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr13:101828722G>T	uc001vox.1	-	15	1957	c.1768C>A	c.(1768-1770)CTC>ATC	p.L590I	NALCN_uc001voy.2_Missense_Mutation_p.L305I	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	590	Helical; Name=S6 of repeat II; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AAACTCAGGAGGATCTATAAA	0.289													65	54	---	---	---	---	PASS	T	101828722	T	T	101828722	3	4	137	1	0	0	0	0	1	0	0	0	10148	1000	35	3	3568	3	NALCN	13	101828722	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	31147061	101828722	13341156	216	49038										
COL4A1	1282	broad.mit.edu	37	chr13	110853789	110853789	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aaggcaagaaagctacctttTgggcctggctctcctcttgg	11	11	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr13:110853789T>A	uc001vqw.3	-	19	1202	c.1080A>T	c.(1078-1080)CCA>CCT	p.P360P	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	360	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			AGCTACCTTTTGGGCCTGGCT	0.343													22	31	---	---	---	---	PASS	A	110853789	A	A	110853789	2	1	137	1	0	0	0	0	0	0	0	1	3689	1799	63	5		5	COL4A1	13	110853789	Silent	SNP	T	TCGA-63-5131-01A-01D-1441-08	9025067	110853789	4316089	217	49039										
HNRNPC	3183	broad.mit.edu	37	chr14	21681153	21681153	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaagatccccgctgtccactCttagaattgaagccactttt	7	12	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:21681153C>G	uc001vzy.2	-	6	772	c.528G>C	c.(526-528)AAG>AAC	p.K176N	HNRNPC_uc001vzw.2_Missense_Mutation_p.K163N|HNRNPC_uc001wad.2_Missense_Mutation_p.K96N|HNRNPC_uc001vzx.2_Intron|HNRNPC_uc001vzz.2_Missense_Mutation_p.K163N|HNRNPC_uc001waa.2_Missense_Mutation_p.K176N|HNRNPC_uc010ail.2_Missense_Mutation_p.K176N|HNRNPC_uc010tlq.1_RNA|HNRNPC_uc001wab.2_Missense_Mutation_p.K163N|HNRNPC_uc001wac.2_Intron|HNRNPC_uc010tlr.1_Missense_Mutation_p.K41N|HNRNPC_uc001waf.2_Missense_Mutation_p.K163N|HNRNPC_uc001wae.2_Missense_Mutation_p.K163N	NM_031314	NP_112604	P07910	HNRPC_HUMAN	heterogeneous nuclear ribonucleoprotein C	176						catalytic step 2 spliceosome|nucleoplasm	identical protein binding|nucleotide binding|RNA binding				0	all_cancers(95;0.00176)		Epithelial(56;1.08e-06)|all cancers(55;8.95e-06)	GBM - Glioblastoma multiforme(265;0.00783)		GCTGTCCACTCTTAGAATTGA	0.453													52	103	---	---	---	---	PASS	G	21681153	G	G	21681153	3	3	137	1	0	0	0	0	1	0	0	0	7262	912	32	2	408	2	HNRNPC	14	21681153	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08		21681153	85668387	218	49040										
MYH6	4624	broad.mit.edu	37	chr14	23855703	23855703	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctgcagcgagtccaccacccGctggtggttgcgcttggcct	13	15	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:23855703G>T	uc001wjv.2	-	33	4847	c.4780C>A	c.(4780-4782)CGG>AGG	p.R1594R		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1594	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TCCACCACCCGCTGGTGGTTG	0.592													37	214	---	---	---	---	PASS	T	23855703	T	T	23855703	2	4	137	1	0	0	0	0	0	0	0	1	10038	1086	38	1		1	MYH6	14	23855703	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	2174550	23855703	83493837	219	49041										
MYH6	4624	broad.mit.edu	37	chr14	23868034	23868035	+	Frame_Shift_Ins	INS	-	T	T													0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tctcgttgagaggatccttgINStttttttccagccagcccag							TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:23868034_23868035insT	uc001wjv.2	-	15	1860_1861	c.1793_1794insA	c.(1792-1794)AACfs	p.N598fs		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	598	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GAGGATCCTTGTTTTTTTCCAG	0.55													88	42	---	---	---	---		T	23868035	T	T	23868034	7	5	137	1	0	1	1	0	0	0	0	0	10038	1368	48	0	4125	0	MYH6	14	23868034	Frame_Shift_Ins	INS	-	TCGA-63-5131-01A-01D-1441-08	12331	23868034	83481506	220	49042										
CPNE6	9362	broad.mit.edu	37	chr14	24544799	24544799	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggtagtgctggcccagtgcaCggtaaatttcacttcctgct	11	11	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:24544799C>A	uc001wll.2	+	9	962	c.863C>A	c.(862-864)ACG>AAG	p.T288K	CPNE6_uc010tnv.1_Missense_Mutation_p.T343K|CPNE6_uc001wlm.2_Missense_Mutation_p.T113K|CPNE6_uc001wln.2_5'UTR	NM_006032	NP_006023	O95741	CPNE6_HUMAN	copine 6	288					lipid metabolic process|nervous system development|synaptic transmission|vesicle-mediated transport		calcium ion binding|transporter activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0184)		GCCCAGTGCACGGTAAATTTC	0.532													6	18	---	---	---	---	PASS	A	24544799	A	A	24544799	3	1	137	1	0	0	0	0	1	0	0	0	3816	550	19	1	893	1	CPNE6	14	24544799	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	676765	24544799	82804741	221	49043										
HECTD1	25831	broad.mit.edu	37	chr14	31602498	31602498	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctgtgggctgccatcctgatCtcgccatttccaatccaggc	9	15	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:31602498C>G	uc001wrc.1	-	24	4357	c.3868G>C	c.(3868-3870)GAT>CAT	p.D1290H	HECTD1_uc001wrd.1_Missense_Mutation_p.D805H	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1290	MIB/HERC2.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		CCATCCTGATCTCGCCATTTC	0.483													10	76	---	---	---	---	PASS	G	31602498	G	G	31602498	3	3	137	1	0	0	0	0	1	0	0	0	7039	913	32	2	4044	2	HECTD1	14	31602498	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	7057699	31602498	75747042	222	49044										
SLC35F4	341880	broad.mit.edu	37	chr14	58060795	58060795	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gatgccactgtgtgaactggGgcagttggctcctggtttac	14	9	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:58060795G>A	uc001xdb.1	-	2	259	c.259C>T	c.(259-261)CCC>TCC	p.P87S	SLC35F4_uc010aoz.1_RNA|SLC35F4_uc010apa.1_5'UTR	NM_001080455	NP_001073924			solute carrier family 35, member F4											ovary(2)	2						TGTGAACTGGGGCAGTTGGCT	0.483													24	38	---	---	---	---	PASS	A	58060795	A	A	58060795	3	1	137	1	0	0	0	0	1	0	0	0	14591	1232	43	3	1334	3	SLC35F4	14	58060795	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	26458297	58060795	49288745	223	49045										
KCNH5	27133	broad.mit.edu	37	chr14	63483642	63483642	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aaactacaggccaatccacaAtctgggcatttcccagtaag	7	12	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:63483642A>T	uc001xfx.2	-	2	155	c.104T>A	c.(103-105)ATT>AAT	p.I35N	KCNH5_uc001xfy.2_Missense_Mutation_p.I35N|KCNH5_uc001xfz.1_Translation_Start_Site|KCNH5_uc001xga.2_Translation_Start_Site	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	35	Cytoplasmic (Potential).|PAS.				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		CCAATCCACAATCTGGGCATT	0.378													40	86	---	---	---	---	PASS	T	63483642	T	T	63483642	3	4	137	1	0	0	0	0	1	0	0	0	8035	101	4	5	2936	5	KCNH5	14	63483642	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	5422847	63483642	43865898	224	49046										
GPHB5	122876	broad.mit.edu	37	chr14	63784564	63784564	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aagaggaatgccagcttcatGctgctcttccggagagggaa	13	9	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:63784564G>T	uc010apu.2	-	1	1	c.1_splice	c.e1-1	p.M1_splice	GPHB5_uc001xgc.2_Splice_Site	NM_145171	NP_660154	Q86YW7	GPHB5_HUMAN	glycoprotein beta 5							extracellular region	hormone activity			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00372)|all cancers(60;0.0226)|BRCA - Breast invasive adenocarcinoma(234;0.0978)		CCAGCTTCATGCTGCTCTTCC	0.562													14	18	---	---	---	---	PASS	T	63784564	T	T	63784564	5	4	137	1	0	0	0	0	0	0	1	0	6609	1334	46	3	283	3	GPHB5	14	63784564	Splice_Site	SNP	G	TCGA-63-5131-01A-01D-1441-08	300922	63784564	43564976	225	49047										
PCNX	22990	broad.mit.edu	37	chr14	71555146	71555146	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctgcatcccatcatatgtccAggtaaagaaggcatttctgt	8	10	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:71555146A>T	uc001xmo.2	+	29	5883	c.5437A>T	c.(5437-5439)AGT>TGT	p.S1813C	PCNX_uc010are.1_Missense_Mutation_p.S1702C|PCNX_uc010arf.1_Missense_Mutation_p.S601C	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1813						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)		TCATATGTCCAGGTAAAGAAG	0.438													18	62	---	---	---	---	PASS	T	71555146	T	T	71555146	3	4	137	1	0	0	0	0	1	0	0	0	11591	202	7	5	5551	5	PCNX	14	71555146	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	7770582	71555146	35794394	226	49048										
ALDH6A1	4329	broad.mit.edu	37	chr14	74539005	74539005	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aaagcacgtttgcaggaagcAatggctgcatccatttctgc	10	10	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:74539005A>T	uc001xpo.2	-	4	348	c.249T>A	c.(247-249)ATT>ATA	p.I83I	C14orf45_uc001xpm.1_Intron|ALDH6A1_uc010asa.2_5'UTR|ALDH6A1_uc010tuq.1_Silent_p.I83I	NM_005589	NP_005580	Q02252	MMSA_HUMAN	aldehyde dehydrogenase 6A1 precursor	83						mitochondrial matrix|nucleus	fatty-acyl-CoA binding|malonate-semialdehyde dehydrogenase (acetylating) activity|methylmalonate-semialdehyde dehydrogenase (acylating) activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00354)	NADH(DB00157)	TGCAGGAAGCAATGGCTGCAT	0.488													25	46	---	---	---	---	PASS	T	74539005	T	T	74539005	2	4	137	1	0	0	0	0	0	0	0	1	503	126	5	5		5	ALDH6A1	14	74539005	Silent	SNP	A	TCGA-63-5131-01A-01D-1441-08	2983859	74539005	32810535	227	49049										
EIF2B2	8892	broad.mit.edu	37	chr14	75471540	75471540	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cgaacagtagaggccttcctCaaagaggctgcccgaaagag	12	11	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:75471540C>G	uc001xrc.1	+	4	616	c.534C>G	c.(532-534)CTC>CTG	p.L178L		NM_014239	NP_055054	P49770	EI2BB_HUMAN	eukaryotic translation initiation factor 2B,	178					cellular response to stimulus|myelination|oligodendrocyte development|ovarian follicle development|regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	ATP binding|GTP binding|protein binding|translation initiation factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00661)		AGGCCTTCCTCAAAGAGGCTG	0.493													47	68	---	---	---	---	PASS	G	75471540	G	G	75471540	2	3	137	1	0	0	0	0	0	0	0	1	5001	813	29	2		2	EIF2B2	14	75471540	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	932535	75471540	31878000	228	49050										
MLH3	27030	broad.mit.edu	37	chr14	75513760	75513760	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tagtgattcagatgacttctCaaggtccaaaggttttctat	8	7	3	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:75513760C>G	uc001xrd.1	-	2	2815	c.2599G>C	c.(2599-2601)GAG>CAG	p.E867Q	MLH3_uc001xre.1_Missense_Mutation_p.E867Q|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	867					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		GATGACTTCTCAAGGTCCAAA	0.393								MMR					42	219	---	---	---	---	PASS	G	75513760	G	G	75513760	3	3	137	1	0	0	0	0	1	0	0	0	9618	835	29	2	1810	2	MLH3	14	75513760	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	42220	75513760	31835780	229	49051										
KIAA1409	57578	broad.mit.edu	37	chr14	94069606	94069606	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	catcactgctgtgaggaccaAtgttgctaacctcagcgatg	10	11	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:94069606A>T	uc001ybv.1	+	23	3148	c.3065A>T	c.(3064-3066)AAT>ATT	p.N1022I	KIAA1409_uc001ybs.1_Missense_Mutation_p.N1022I	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1199						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GTGAGGACCAATGTTGCTAAC	0.463													56	146	---	---	---	---	PASS	T	94069606	T	T	94069606	3	4	137	1	0	0	0	0	1	0	0	0	8230	101	4	5	3155	5	KIAA1409	14	94069606	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	18555846	94069606	13279934	230	49052										
CDC42BPB	9578	broad.mit.edu	37	chr14	103410592	103410592	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tagcaaaggatcagccgtttCacggccacaaacaggcaggt	11	11	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:103410592C>T	uc001ymi.1	-	30	4276	c.4044G>A	c.(4042-4044)GTG>GTA	p.V1348V	CDC42BPB_uc001ymj.1_Silent_p.V450V	NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	1348	CNH.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TCAGCCGTTTCACGGCCACAA	0.557													8	62	---	---	---	---	PASS	T	103410592	T	T	103410592	2	4	137	1	0	0	0	0	0	0	0	1	3073	813	29	2		2	CDC42BPB	14	103410592	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	9340986	103410592	3938948	231	49053										
PPP1R13B	23368	broad.mit.edu	37	chr14	104251219	104251219	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	accccatttctgaagatgttCgtacatcatatgatcaaagg	7	9	3	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr14:104251219C>A	uc001yof.1	-	3	473	c.190G>T	c.(190-192)GAA>TAA	p.E64*	PPP1R13B_uc001yog.1_5'UTR	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	64					apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				TGAAGATGTTCGTACATCATA	0.398													26	93	---	---	---	---	PASS	A	104251219	A	A	104251219	4	1	137	1	0	0	0	0	0	1	0	0	12357	893	31	2	3142	2	PPP1R13B	14	104251219	Nonsense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	840627	104251219	3098321	232	49054										
MKRN3	7681	broad.mit.edu	37	chr15	23811655	23811655	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gctgtgggcagtgggttgcgGttttgctattatgcttccag	15	7	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr15:23811655G>T	uc001ywh.3	+	1	1202	c.726G>T	c.(724-726)CGG>CGT	p.R242R	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Silent_p.R242R	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	242	C3H1-type 2.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		GTGGGTTGCGGTTTTGCTATT	0.587													27	20	---	---	---	---	PASS	T	23811655	T	T	23811655	2	4	137	1	0	0	0	0	0	0	0	1	9608	1248	44	3		3	MKRN3	15	23811655	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08		23811655	78719737	233	49055										
NDN	4692	broad.mit.edu	37	chr15	23931488	23931488	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctccagagcttctctgtatcGggagggccaggcctgggggt	16	11	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr15:23931488G>C	uc001ywk.2	-	1	963	c.877C>G	c.(877-879)CGA>GGA	p.R293G		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	293	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		TCTCTGTATCGGGAGGGCCAG	0.587									Prader-Willi_syndrome				53	39	---	---	---	---	PASS	C	23931488	C	C	23931488	3	2	137	1	0	0	0	0	1	0	0	0	10247	1124	39	4	92	4	NDN	15	23931488	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	119833	23931488	78599904	234	49056										
NDN	4692	broad.mit.edu	37	chr15	23931639	23931639	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cgctggtacttcaggtaattCatttggacgaactcctcagt	9	10	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr15:23931639C>T	uc001ywk.2	-	1	812	c.726G>A	c.(724-726)ATG>ATA	p.M242I		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	242	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		TCAGGTAATTCATTTGGACGA	0.592									Prader-Willi_syndrome				30	30	---	---	---	---	PASS	T	23931639	T	T	23931639	3	4	137	1	0	0	0	0	1	0	0	0	10247	826	29	2	243	2	NDN	15	23931639	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	151	23931639	78599753	235	49057										
GABRB3	2562	broad.mit.edu	37	chr15	26812811	26812811	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttatcagtatagagggcataTaagtctgaagaatgaagtat	10	3	2	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr15:26812811T>C	uc001zaz.2	-	7	894	c.752A>G	c.(751-753)TAT>TGT	p.Y251C	GABRB3_uc010uae.1_Missense_Mutation_p.Y166C|GABRB3_uc001zba.2_Missense_Mutation_p.Y251C|GABRB3_uc001zbb.2_Missense_Mutation_p.Y307C	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	251	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)	AGAGGGCATATAAGTCTGAAG	0.433													37	26	---	---	---	---	PASS	C	26812811	C	C	26812811	3	2	137	1	0	0	0	0	1	0	0	0	6168	1406	49	5	681	5	GABRB3	15	26812811	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	2881172	26812811	75718581	236	49058										
FBXL22	283807	broad.mit.edu	37	chr15	63893515	63893515	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gctttctgctgtgcgctcccCacggaggcgggaggcgcctg	16	14	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr15:63893515C>A	uc002amn.2	+	2	370	c.356C>A	c.(355-357)CCA>CAA	p.P119Q	uc002amj.2_5'Flank|uc002amk.2_5'Flank|uc002aml.2_5'Flank	NM_203373	NP_976307	Q6P050	FXL22_HUMAN	F-box and leucine-rich repeat protein 22	119											0						GTGCGCTCCCCACGGAGGCGG	0.612													30	27	---	---	---	---	PASS	A	63893515	A	A	63893515	3	1	137	1	0	0	0	0	1	0	0	0	5719	594	21	3	362	3	FBXL22	15	63893515	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	37080704	63893515	38637877	237	49059										
MAP2K1	5604	broad.mit.edu	37	chr15	66727571	66727571	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttctggcctggtcatggccaGaaaggtgagtttgccttgat	13	8	2	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr15:66727571G>A	uc010bhq.2	+	2	762	c.287G>A	c.(286-288)AGA>AAA	p.R96K	MAP2K1_uc010ujp.1_Missense_Mutation_p.R74K	NM_002755	NP_002746	Q02750	MP2K1_HUMAN	mitogen-activated protein kinase kinase 1	96	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|Ras protein signal transduction|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|plasma membrane	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						GTCATGGCCAGAAAGGTGAGT	0.493									Cardiofaciocutaneous_syndrome				67	66	---	---	---	---	PASS	A	66727571	A	A	66727571	3	1	137	1	0	0	0	0	1	0	0	0	9236	942	33	2	293	2	MAP2K1	15	66727571	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	2834056	66727571	35803821	238	49060										
LASS3	204219	broad.mit.edu	37	chr15	101009683	101009683	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tccagcataagaaaacatctTagcagactgcaaaaaagaaa	6	8	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr15:101009683T>A	uc002bvz.2	-	11	1247	c.745A>T	c.(745-747)AAG>TAG	p.K249*	LASS3_uc002bwa.2_Nonsense_Mutation_p.K260*|LASS3_uc002bwb.2_Nonsense_Mutation_p.K249*	NM_178842	NP_849164	Q8IU89	CERS3_HUMAN	LAG1 longevity assurance homolog 3	249	TLC.					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4	Lung NSC(78;0.0018)|all_lung(78;0.00278)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000867)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)			GAAAACATCTTAGCAGACTGC	0.308													46	59	---	---	---	---	PASS	A	101009683	A	A	101009683	4	1	137	1	0	0	0	0	0	1	0	0	8640	1763	61	5	418	5	LASS3	15	101009683	Nonsense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	34282112	101009683	1521709	239	49061										
TSC2	7249	broad.mit.edu	37	chr16	2106196	2106196	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgagctcggtgctccctgcaGgatgatctgtctgctgtgcg	14	11	2	2	rs45517117		TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr16:2106196G>T	uc002con.2	+	7	706	c.600_splice	c.e7-1	p.Q200_splice	TSC2_uc010bsd.2_Splice_Site_p.Q200_splice|TSC2_uc002coo.2_Splice_Site_p.Q200_splice|TSC2_uc010uvv.1_Splice_Site_p.Q163_splice|TSC2_uc010uvw.1_Splice_Site_p.Q151_splice|TSC2_uc002cop.2_Splice_Site	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1						cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				GCTCCCTGCAGGATGATCTGT	0.607			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				20	30	---	---	---	---	PASS	T	2106196	T	T	2106196	5	4	137	1	0	0	0	0	0	0	1	0	16603	1014	35	3	621	3	TSC2	16	2106196	Splice_Site	SNP	G	TCGA-63-5131-01A-01D-1441-08		2106196	88248557	240	49062										
CORO7	79585	broad.mit.edu	37	chr16	4391372	4391372	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tggcccagtggcctcaccttCtggacctcctcagggctcag	11	16	4	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr16:4391372C>T	uc002cwf.2	-	29	3434	c.2991G>A	c.(2989-2991)CAG>CAA	p.Q997Q	CORO7_uc002cwe.2_RNA|TIMM16_uc002cwd.2_Silent_p.Q74Q	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	Error:Variant_position_missing_in_P57737_after_alignment						cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						GCCTCACCTTCTGGACCTCCT	0.637													5	5	---	---	---	---	PASS	T	4391372	T	T	4391372	2	4	137	1	0	0	0	0	0	0	0	1	3759	912	32	2		2	CORO7	16	4391372	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	2285176	4391372	85963381	241	49063										
ACSM3	6296	broad.mit.edu	37	chr16	20803421	20803421	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgggtatttctggtttgttgCaagagcagatgatgtcatat	12	4	2	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr16:20803421C>T	uc002dhr.2	+	11	1611	c.1424C>T	c.(1423-1425)GCA>GTA	p.A475V	ACSM3_uc010vba.1_Missense_Mutation_p.A504V|ERI2_uc002dhs.2_Intron	NM_005622	NP_005613	Q53FZ2	ACSM3_HUMAN	SA hypertension-associated homolog isoform 1	475					regulation of blood pressure	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			ovary(1)	1						TGGTTTGTTGCAAGAGCAGAT	0.393													86	123	---	---	---	---	PASS	T	20803421	T	T	20803421	3	4	137	1	0	0	0	0	1	0	0	0	185	710	25	3	1555	3	ACSM3	16	20803421	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	16412049	20803421	69551332	242	49064										
ITFG1	81533	broad.mit.edu	37	chr16	47493054	47493054	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gggtttaaaatagggtgcatTctggtctgccaaaaagacga	12	6	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr16:47493054T>C	uc002eet.2	-	2	303	c.241A>G	c.(241-243)AAT>GAT	p.N81D	ITFG1_uc010vgh.1_5'UTR|PHKB_uc010vgi.1_5'Flank|PHKB_uc002eeu.3_5'Flank|PHKB_uc002eev.3_5'Flank|ITFG1_uc010cbf.1_5'UTR	NM_030790	NP_110417	Q8TB96	TIP_HUMAN	integrin alpha FG-GAP repeat containing 1	81						extracellular region|integral to membrane				ovary(1)|central_nervous_system(1)	2		all_cancers(37;0.0613)|all_lung(18;0.0543)|Lung NSC(13;0.227)				TAGGGTGCATTCTGGTCTGCC	0.269													27	135	---	---	---	---	PASS	C	47493054	C	C	47493054	3	2	137	1	0	0	0	0	1	0	0	0	7869	1783	62	5	1665	5	ITFG1	16	47493054	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	26689633	47493054	42861699	243	49065										
SALL1	6299	broad.mit.edu	37	chr16	51173329	51173329	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gtgacttgtggaactcctgcGtgctgttggacggggacaga	16	8	0	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr16:51173329G>C	uc010vgs.1	-	2	2835	c.2804C>G	c.(2803-2805)ACG>AGG	p.T935R	SALL1_uc010vgr.1_Missense_Mutation_p.T838R|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	935					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GAACTCCTGCGTGCTGTTGGA	0.567													58	77	---	---	---	---	PASS	C	51173329	C	C	51173329	3	2	137	1	0	0	0	0	1	0	0	0	13810	1145	40	4	1178	4	SALL1	16	51173329	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	3680275	51173329	39181424	244	49066										
DUS2L	54920	broad.mit.edu	37	chr16	68090271	68090271	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cttcatccttttccagagaaAatgatgtggctggtattgat	9	7	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr16:68090271A>T	uc002evi.2	+	7	462	c.313A>T	c.(313-315)AAT>TAT	p.N105Y	DUS2L_uc002evj.2_Missense_Mutation_p.N105Y|DUS2L_uc010vkk.1_Intron|DUS2L_uc010cez.2_Missense_Mutation_p.N18Y	NM_017803	NP_060273	Q9NX74	DUS2L_HUMAN	dihydrouridine synthase 2-like, SMM1 homolog	105					tRNA processing	endoplasmic reticulum	double-stranded RNA binding|flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0131)|Epithelial(162;0.0564)		TTCCAGAGAAAATGATGTGGC	0.378													67	84	---	---	---	---	PASS	T	68090271	T	T	68090271	3	4	137	1	0	0	0	0	1	0	0	0	4806	14	1	5	331	5	DUS2L	16	68090271	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	16916942	68090271	22264482	245	49067										
NFATC3	4775	broad.mit.edu	37	chr16	68224873	68224873	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tcatcccatctgccacagttGcagtgtagagatgagagtgt	11	9	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr16:68224873G>T	uc002evo.1	+	9	2511	c.2301G>T	c.(2299-2301)TTG>TTT	p.L767F	NFATC3_uc010vkl.1_Missense_Mutation_p.L288F|NFATC3_uc010vkm.1_Missense_Mutation_p.L288F|NFATC3_uc010vkn.1_Missense_Mutation_p.L288F|NFATC3_uc010vko.1_Missense_Mutation_p.L288F|NFATC3_uc010vkp.1_Missense_Mutation_p.L288F|NFATC3_uc010vkq.1_Missense_Mutation_p.L288F|NFATC3_uc002evl.2_Missense_Mutation_p.L288F|NFATC3_uc002evk.2_Missense_Mutation_p.L767F|NFATC3_uc002evm.1_Missense_Mutation_p.L767F|NFATC3_uc002evn.1_Missense_Mutation_p.L767F|NFATC3_uc010vkr.1_Missense_Mutation_p.L288F|NFATC3_uc010vks.1_Missense_Mutation_p.L288F|NFATC3_uc010vkt.1_Missense_Mutation_p.L288F|NFATC3_uc010vku.1_Missense_Mutation_p.L288F|NFATC3_uc010vkv.1_Missense_Mutation_p.L288F|NFATC3_uc010vkw.1_Missense_Mutation_p.L288F|NFATC3_uc010vkx.1_Missense_Mutation_p.L288F|NFATC3_uc010vky.1_Missense_Mutation_p.L288F|NFATC3_uc010vkz.1_Missense_Mutation_p.L288F|NFATC3_uc010vla.1_Missense_Mutation_p.L288F|NFATC3_uc010vlb.1_Missense_Mutation_p.L288F|NFATC3_uc010vlc.1_Missense_Mutation_p.L288F	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	767					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		TGCCACAGTTGCAGTGTAGAG	0.458													35	183	---	---	---	---	PASS	T	68224873	T	T	68224873	3	4	137	1	0	0	0	0	1	0	0	0	10364	1310	46	3	2335	3	NFATC3	16	68224873	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	134602	68224873	22129880	246	49068										
PRMT7	54496	broad.mit.edu	37	chr16	68373738	68373738	+	Missense_Mutation	SNP	G	T	T													0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctcagcagcctgccatagcaGgcggtttgaacctctgacat							TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr16:68373738G>T	uc002evy.1	+	9	1070	c.794G>T	c.(793-795)AGG>ATG	p.R265M	PRMT7_uc002evx.1_Missense_Mutation_p.R265M|PRMT7_uc010vlg.1_Missense_Mutation_p.R215M|PRMT7_uc002evz.1_Missense_Mutation_p.R111M	NM_019023	NP_061896	Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	265					cell differentiation|DNA methylation involved in gamete generation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	[myelin basic protein]-arginine N-methyltransferase activity|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N monomethyltransferase activity|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		TGCCATAGCAGGCGGTTTGAA	0.507													29	116	---	---	---	---	PASS	T	68373738	T	T	68373738	3	4	137	1	0	0	0	0	1	0	0	0	12541	1000	35	3	820	3	PRMT7	16	68373738	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	148865	68373738	21981015	247	49069	900	2								
PRMT7	54496	broad.mit.edu	37	chr16	68373740	68373740	+	Missense_Mutation	SNP	C	T	T													0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cagcagcctgccatagcaggCggtttgaacctctgacatct							TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr16:68373740C>T	uc002evy.1	+	9	1072	c.796C>T	c.(796-798)CGG>TGG	p.R266W	PRMT7_uc002evx.1_Missense_Mutation_p.R266W|PRMT7_uc010vlg.1_Missense_Mutation_p.R216W|PRMT7_uc002evz.1_Missense_Mutation_p.R112W	NM_019023	NP_061896	Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	266					cell differentiation|DNA methylation involved in gamete generation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	[myelin basic protein]-arginine N-methyltransferase activity|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N monomethyltransferase activity|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		CCATAGCAGGCGGTTTGAACC	0.507													31	116	---	---	---	---	PASS	T	68373740	T	T	68373740	3	4	137	1	0	0	0	0	1	0	0	0	12541	759	27	1	822	1	PRMT7	16	68373740	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	2	68373740	21981013	248	49070	900	2								
C16orf46	123775	broad.mit.edu	37	chr16	81095228	81095228	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	acacacccatccttttccacAtccagcaccttctcttctga	2	18	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr16:81095228A>T	uc002fgc.3	-	4	985	c.726T>A	c.(724-726)GAT>GAA	p.D242E	C16orf46_uc010chf.2_Missense_Mutation_p.D242E|C16orf46_uc010vno.1_5'UTR	NM_152337	NP_689550	Q6P387	CP046_HUMAN	chromosome 16 open reading frame 46 isoform 2	242											0						CCTTTTCCACATCCAGCACCT	0.463													51	274	---	---	---	---	PASS	T	81095228	T	T	81095228	3	4	137	1	0	0	0	0	1	0	0	0	1815	214	8	5	493	5	C16orf46	16	81095228	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	12721488	81095228	9259525	249	49071										
KIAA0182	23199	broad.mit.edu	37	chr16	85682268	85682268	+	Frame_Shift_Del	DEL	G	-	-													0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gccctatcatcgtcccccctGggggccacagcgtgcccagc							TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr16:85682268delG	uc002fix.2	+	3	411	c.337delG	c.(337-339)GGGfs	p.G113fs	KIAA0182_uc002fiw.2_Frame_Shift_Del_p.G9fs|KIAA0182_uc002fiy.2_Frame_Shift_Del_p.G40fs	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	113							protein binding			large_intestine(3)|ovary(1)|skin(1)	5						CGTCCCCCCTGGGGGCCACAG	0.687													105	83	---	---	---	---		-	85682268	-	-	85682268	7	5	137	1	0	1	0	1	0	0	0	0	8159	1348	47	0	347	0	KIAA0182	16	85682268	Frame_Shift_Del	DEL	G	TCGA-63-5131-01A-01D-1441-08	4587040	85682268	4672485	250	49072										
BANP	54971	broad.mit.edu	37	chr16	88066787	88066787	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gcagccgcaggccctgcactAcgcgctggccaacgcacagc	12	18	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr16:88066787A>G	uc002fkr.2	+	9	1333	c.1109A>G	c.(1108-1110)TAC>TGC	p.Y370C	BANP_uc002fkp.2_Missense_Mutation_p.Y340C|BANP_uc002fkq.2_Missense_Mutation_p.Y340C|BANP_uc010vow.1_Missense_Mutation_p.Y378C|BANP_uc002fks.3_Missense_Mutation_p.Y339C|BANP_uc002fko.1_Missense_Mutation_p.Y276C|BANP_uc010vov.1_Missense_Mutation_p.Y345C	NM_079837	NP_524576	Q8N9N5	BANP_HUMAN	BTG3 associated nuclear protein isoform b	371	DNA-binding (By similarity).|Gln-rich.				cell cycle|chromatin modification|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0				BRCA - Breast invasive adenocarcinoma(80;0.00551)		GCCCTGCACTACGCGCTGGCC	0.642													10	10	---	---	---	---	PASS	G	88066787	G	G	88066787	3	3	137	1	0	0	0	0	1	0	0	0	1310	391	14	5	1184	5	BANP	16	88066787	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	2384519	88066787	2287966	251	49073										
TP53	7157	broad.mit.edu	37	chr17	7578457	7578457	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gcttgtagatggccatggcgCggacgcgggtgccgggcggg	21	10	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:7578457C>A	uc002gim.2	-	5	667	c.473G>T	c.(472-474)CGC>CTC	p.R158L	TP53_uc002gig.1_Missense_Mutation_p.R158L|TP53_uc002gih.2_Missense_Mutation_p.R158L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R26L|TP53_uc010cng.1_Missense_Mutation_p.R26L|TP53_uc002gii.1_Missense_Mutation_p.R26L|TP53_uc010cnh.1_Missense_Mutation_p.R158L|TP53_uc010cni.1_Missense_Mutation_p.R158L|TP53_uc002gij.2_Missense_Mutation_p.R158L|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R65L|TP53_uc002gio.2_Missense_Mutation_p.R26L|TP53_uc010vug.1_Missense_Mutation_p.R119L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	158	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> F (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> Y (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.R158H(58)|p.R158L(55)|p.R158C(17)|p.R158G(10)|p.R158P(9)|p.0?(7)|p.R158R(6)|p.R158fs*12(5)|p.R158_A159insX(4)|p.R158_A159delRA(2)|p.R156_I162delRVRAMAI(2)|p.V157fs*9(2)|p.P153fs*22(2)|p.R158fs*11(2)|p.V157fs*22(2)|p.V157_C176del20(1)|p.R156_A161delRVRAMA(1)|p.R158F(1)|p.P151_V173del23(1)|p.R158fs*24(1)|p.R65L(1)|p.R156_R158delRVR(1)|p.R156fs*18(1)|p.R156_A161del(1)|p.R158_A159insXX(1)|p.V157_M160delVRAM(1)|p.V157_R158delVR(1)|p.S149fs*72(1)|p.A159fs*21(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.R156fs*20(1)|p.V157_I162delVRAMAI(1)|p.R26L(1)|p.V157fs*21(1)|p.R158fs*8(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)		GGCCATGGCGCGGACGCGGGT	0.627		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)			37	37	---	---	---	---	PASS	A	7578457	A	A	7578457	3	1	137	1	0	0	0	0	1	0	0	0	16378	768	27	1	825	1	TP53	17	7578457	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08		7578457	73616753	252	49074										
PFAS	5198	broad.mit.edu	37	chr17	8161209	8161209	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggttgccattgaagccagtaAtggagcttctgactatggca	12	8	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:8161209A>G	uc002gkr.2	+	10	1301	c.1160A>G	c.(1159-1161)AAT>AGT	p.N387S	PFAS_uc010vuv.1_5'UTR	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	387					'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GAAGCCAGTAATGGAGCTTCT	0.572													48	33	---	---	---	---	PASS	G	8161209	G	G	8161209	3	3	137	1	0	0	0	0	1	0	0	0	11754	101	4	5	1194	5	PFAS	17	8161209	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	582752	8161209	73034001	253	49075										
PIK3R5	23533	broad.mit.edu	37	chr17	8793402	8793402	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gccagctcctgtgcctctgcGgtctccgtgaagatgtcctc	11	15	2	2	rs150952108	by1000genomes	TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:8793402G>T	uc002glt.2	-	8	766	c.699C>A	c.(697-699)ACC>ACA	p.T233T	PIK3R5_uc010vuz.1_Silent_p.T233T|PIK3R5_uc002glu.3_5'UTR|PIK3R5_uc010coa.1_Intron|PIK3R5_uc010cob.1_5'UTR	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	233				AKTLAELEDIFTETAEAQELASGIGDAAEARRWLRTKLQAV GEKAGFPGVLDTAKPGKLHTIPIPVARCYTYSWSQDS -> TLQNQGSSIPSPSLSPGATPTAGARTALTSCRKSCSRNRSC SSQGSWEMMKRRKRRRRRWRRTWKLMGTVPREIPCSP (in Ref. 6; AAW63122).	platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						GTGCCTCTGCGGTCTCCGTGA	0.627													44	43	---	---	---	---	PASS	T	8793402	T	T	8793402	2	4	137	1	0	0	0	0	0	0	0	1	11922	1103	39	1		1	PIK3R5	17	8793402	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	632193	8793402	72401808	254	49076										
MYH4	4622	broad.mit.edu	37	chr17	10352044	10352044	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agagaacgcgactccttctgGgaggcctcaagttcagcctg	12	12	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:10352044G>T	uc002gmn.2	-	32	4533	c.4422C>A	c.(4420-4422)TCC>TCA	p.S1474S	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1474	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						ACTCCTTCTGGGAGGCCTCAA	0.443													49	46	---	---	---	---	PASS	T	10352044	T	T	10352044	2	4	137	1	0	0	0	0	0	0	0	1	10037	1219	43	3		3	MYH4	17	10352044	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	1558642	10352044	70843166	255	49077										
MYH4	4622	broad.mit.edu	37	chr17	10352088	10352088	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttcctcatacttctgtttccAttctgccagaacctggaagt	6	12	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:10352088A>T	uc002gmn.2	-	32	4489	c.4378T>A	c.(4378-4380)TGG>AGG	p.W1460R	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1460	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TTCTGTTTCCATTCTGCCAGA	0.478													34	40	---	---	---	---	PASS	T	10352088	T	T	10352088	3	4	137	1	0	0	0	0	1	0	0	0	10037	217	8	5	1477	5	MYH4	17	10352088	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	44	10352088	70843122	256	49078										
MYH3	4621	broad.mit.edu	37	chr17	10551951	10551951	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gggattggcactgatgatttGatcttccagagtcccctaat	10	9	1	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:10551951G>C	uc002gmq.1	-	7	735	c.658C>G	c.(658-660)CAA>GAA	p.Q220E		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	220	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CTGATGATTTGATCTTCCAGA	0.353													51	39	---	---	---	---	PASS	C	10551951	C	C	10551951	3	2	137	1	0	0	0	0	1	0	0	0	10036	1299	45	2	5300	2	MYH3	17	10551951	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	199863	10551951	70643259	257	49079										
KCNJ12	3768	broad.mit.edu	37	chr17	21319870	21319870	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaagccgggacggcctcagcCcccaggccaggcatgacttt	13	15	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:21319870C>T	uc002gyv.1	+	3	1921	c.1216C>T	c.(1216-1218)CCC>TCC	p.P406S		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	406	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	CGGCCTCAGCCCCCAGGCCAG	0.662										Prostate(3;0.18)			9	30	---	---	---	---	PASS	T	21319870	T	T	21319870	3	4	137	1	0	0	0	0	1	0	0	0	8046	623	22	3	1218	3	KCNJ12	17	21319870	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	10767919	21319870	59875340	258	49080										
AATF	26574	broad.mit.edu	37	chr17	35343921	35343921	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tcctttatttcccaggtcacAaggcacttaaagcattgttg	7	10	1	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:35343921A>G	uc002hni.2	+	5	1089	c.838A>G	c.(838-840)AAG>GAG	p.K280E	AATF_uc002hnj.2_RNA	NM_012138	NP_036270	Q9NY61	AATF_HUMAN	apoptosis antagonizing transcription factor	280	POLR2J binding.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of superoxide anion generation|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to DNA damage stimulus	centrosome|focal adhesion|nucleolus	leucine zipper domain binding|sequence-specific DNA binding transcription factor activity				0		Breast(25;0.00607)				CCCAGGTCACAAGGCACTTAA	0.423													106	114	---	---	---	---	PASS	G	35343921	G	G	35343921	3	3	137	1	0	0	0	0	1	0	0	0	25	131	5	5	856	5	AATF	17	35343921	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	14024051	35343921	45851289	259	49081										
WNK4	65266	broad.mit.edu	37	chr17	40937114	40937114	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gtcatgcaaccccttccccaGggcagaaagccgaacagctt	9	15	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:40937114G>C	uc002ibj.2	+	5	1192	c.1171_splice	c.e5-1	p.G391_splice	WNK4_uc010wgx.1_Intron|WNK4_uc002ibk.1_Splice_Site_p.G163_splice|WNK4_uc010wgy.1_5'Flank	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4						intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		CCCTTCCCCAGGGCAGAAAGC	0.552													8	18	---	---	---	---	PASS	C	40937114	C	C	40937114	5	2	137	1	0	0	0	0	0	0	1	0	17377	1014	35	4	1188	4	WNK4	17	40937114	Splice_Site	SNP	G	TCGA-63-5131-01A-01D-1441-08	5593193	40937114	40258096	260	49082										
HLF	3131	broad.mit.edu	37	chr17	53342907	53342907	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tatcccgcctccctacggcgTgctcaggtccctgctggaga	11	16	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:53342907T>C	uc002iug.1	+	1	587	c.62T>C	c.(61-63)GTG>GCG	p.V21A	HLF_uc010dce.1_5'Flank|HLF_uc002iuh.2_5'Flank|HLF_uc010wni.1_5'Flank	NM_002126	NP_002117	Q16534	HLF_HUMAN	hepatic leukemia factor	21					multicellular organismal development|rhythmic process|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						CCCTACGGCGTGCTCAGGTCC	0.607			T	TCF3	ALL								7	61	---	---	---	---	PASS	C	53342907	C	C	53342907	3	2	137	1	0	0	0	0	1	0	0	0	7214	1696	59	5	64	5	HLF	17	53342907	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	12405793	53342907	27852303	261	49083										
COIL	8161	broad.mit.edu	37	chr17	55027410	55027410	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tccaagaaaaaaggttctctTctctaccccatcctcttcct	3	15	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:55027410T>C	uc002iuu.2	-	2	1224	c.1193A>G	c.(1192-1194)GAA>GGA	p.E398G		NM_004645	NP_004636	P38432	COIL_HUMAN	coilin	398	2 X 4 AA repeats of S-L-P-A.					Cajal body|nucleolus	protein C-terminus binding			ovary(1)	1	Breast(9;6.15e-08)					AAGGTTCTCTTCTCTACCCCA	0.547													65	163	---	---	---	---	PASS	C	55027410	C	C	55027410	3	2	137	1	0	0	0	0	1	0	0	0	3665	1783	62	5	561	5	COIL	17	55027410	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	1684503	55027410	26167800	262	49084										
TANC2	26115	broad.mit.edu	37	chr17	61396404	61396404	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaagctgcccaggaactccgGaaatgcgcaggcggcaggag	16	11	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:61396404G>A	uc002jal.3	+	9	1329	c.1306G>A	c.(1306-1308)GAA>AAA	p.E436K	TANC2_uc010wpe.1_Missense_Mutation_p.E346K	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	436							binding			ovary(2)	2						AGGAACTCCGGAAATGCGCAG	0.512													18	58	---	---	---	---	PASS	A	61396404	A	A	61396404	3	1	137	1	0	0	0	0	1	0	0	0	15542	1175	41	2	1340	2	TANC2	17	61396404	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	6368994	61396404	19798806	263	49085										
FAM100B	283991	broad.mit.edu	37	chr17	74261643	74261643	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atgatcaaccagttcgtgctGgccgcgggctgcgcggccga	15	13	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:74261643G>A	uc010wsy.1	+	1	358	c.57G>A	c.(55-57)CTG>CTA	p.L19L		NM_182565	NP_872371	Q8IYN6	F100B_HUMAN	hypothetical protein LOC283991	19										central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			AGTTCGTGCTGGCCGCGGGCT	0.448													8	31	---	---	---	---	PASS	A	74261643	A	A	74261643	2	1	137	1	0	0	0	0	0	0	0	1	5379	1335	47	3		3	FAM100B	17	74261643	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	12865239	74261643	6933567	264	49086										
NOTUM	147111	broad.mit.edu	37	chr17	79914950	79914950	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agcaccccggtgccccccgcGctgcaaggagggccagacgt	14	17	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:79914950G>T	uc010wvg.1	-	7	968	c.696C>A	c.(694-696)AGC>AGA	p.S232R		NM_178493	NP_848588	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog precursor	232		Charge relay system (By similarity).				extracellular region	hydrolase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			TGCCCCCCGCGCTGCAAGGAG	0.697													16	14	---	---	---	---	PASS	T	79914950	T	T	79914950	3	4	137	1	0	0	0	0	1	0	0	0	10552	1101	38	1	814	1	NOTUM	17	79914950	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	5653307	79914950	1280260	265	49087										
RAB40B	10966	broad.mit.edu	37	chr17	80618872	80618872	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgctgtgttacctgtgcgccCcgggagtaggagcggaatat	15	9	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr17:80618872C>A	uc002kft.2	-	3	381	c.255G>T	c.(253-255)CGG>CGT	p.R85R	RAB40B_uc002kfs.2_RNA	NM_006822	NP_006813	Q12829	RB40B_HUMAN	RAB40B, member RAS oncogene family	85					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			central_nervous_system(1)	1	Breast(20;0.00132)|all_neural(118;0.0952)	all_cancers(8;0.072)|all_epithelial(8;0.139)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.061)			CCTGTGCGCCCCGGGAGTAGG	0.448													27	36	---	---	---	---	PASS	A	80618872	A	A	80618872	2	1	137	1	0	0	0	0	0	0	0	1	12941	610	22	3		3	RAB40B	17	80618872	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	703922	80618872	576338	266	49088										
CEP192	55125	broad.mit.edu	37	chr18	13048922	13048922	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gctaccagatagtggtgattCtatgcttaggatcagcacca	10	9	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr18:13048922C>G	uc010xac.1	+	16	2212	c.2132C>G	c.(2131-2133)TCT>TGT	p.S711C	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.S236C|CEP192_uc002kru.2_RNA|CEP192_uc002krs.1_Missense_Mutation_p.S452C	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	711										ovary(4)|pancreas(1)	5						AGTGGTGATTCTATGCTTAGG	0.388													26	60	---	---	---	---	PASS	G	13048922	G	G	13048922	3	3	137	1	0	0	0	0	1	0	0	0	3251	913	32	2	2190	2	CEP192	18	13048922	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08		13048922	65028326	267	49089										
ZNF519	162655	broad.mit.edu	37	chr18	14124406	14124406	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atctctatataaattctgttGggcagggtctaggcatttcc	9	8	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr18:14124406G>C	uc002kst.1	-	2	226	c.73C>G	c.(73-75)CAA>GAA	p.Q25E	ZNF519_uc002ksq.1_RNA|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_RNA	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	25	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAATTCTGTTGGGCAGGGTCT	0.423													69	135	---	---	---	---	PASS	C	14124406	C	C	14124406	3	2	137	1	0	0	0	0	1	0	0	0	17961	1357	47	4	1557	4	ZNF519	18	14124406	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	1075484	14124406	63952842	268	49090										
CDH2	1000	broad.mit.edu	37	chr18	25565543	25565543	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aatagtcactggagataaagGaagatcaaaagcaaatggtc	10	5	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr18:25565543G>T	uc002kwg.2	-	12	2383	c.1924C>A	c.(1924-1926)CCT>ACT	p.P642T	CDH2_uc010xbn.1_Missense_Mutation_p.P611T	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	642	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						GGAGATAAAGGAAGATCAAAA	0.368													32	103	---	---	---	---	PASS	T	25565543	T	T	25565543	3	4	137	1	0	0	0	0	1	0	0	0	3105	1174	41	2	816	2	CDH2	18	25565543	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	11441137	25565543	52511705	269	49091										
RNF138	51444	broad.mit.edu	37	chr18	29693742	29693742	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	catgagacatcattacaaatCttgtaagaagtatcaggatg	8	6	3	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr18:29693742C>G	uc002kxg.2	+	4	750	c.311C>G	c.(310-312)TCT>TGT	p.S104C	RNF138_uc002kxh.2_Intron	NM_016271	NP_057355	Q8WVD3	RN138_HUMAN	ring finger protein 138 isoform 1	104					Wnt receptor signaling pathway	intracellular	ligase activity|protein kinase binding|zinc ion binding				0						CATTACAAATCTTGTAAGAAG	0.294													22	73	---	---	---	---	PASS	G	29693742	G	G	29693742	3	3	137	1	0	0	0	0	1	0	0	0	13441	913	32	2	321	2	RNF138	18	29693742	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	4128199	29693742	48383506	270	49092										
SETBP1	26040	broad.mit.edu	37	chr18	42532904	42532904	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agacaaagagctcccgctggTgagtgagaagaacaagcata	12	8	0	5			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr18:42532904T>C	uc010dni.2	+	4	3895	c.3599T>C	c.(3598-3600)GTG>GCG	p.V1200A		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1200						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		CTCCCGCTGGTGAGTGAGAAG	0.532									Schinzel-Giedion_syndrome				37	83	---	---	---	---	PASS	C	42532904	C	C	42532904	3	2	137	1	0	0	0	0	1	0	0	0	14129	1696	59	5	3802	5	SETBP1	18	42532904	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	12839162	42532904	35544344	271	49093										
CXXC1	30827	broad.mit.edu	37	chr18	47813213	47813213	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggcatctggaggctctgggtCtgaaccatctccctcctgca	11	14	4	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr18:47813213C>G	uc002leq.3	-	2	752	c.19G>C	c.(19-21)GAC>CAC	p.D7H	CXXC1_uc002lep.3_5'UTR|CXXC1_uc002ler.3_Missense_Mutation_p.D7H|CXXC1_uc010doy.2_Missense_Mutation_p.D7H|CXXC1_uc002les.2_Missense_Mutation_p.D7H	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	7					histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GGCTCTGGGTCTGAACCATCT	0.597													18	111	---	---	---	---	PASS	G	47813213	G	G	47813213	3	3	137	1	0	0	0	0	1	0	0	0	4097	913	32	2	2019	2	CXXC1	18	47813213	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	5280309	47813213	30264035	272	49094										
CPLX4	339302	broad.mit.edu	37	chr18	56963953	56963953	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	catcacggaacacttctgctCcgctgtctgcttgatttcag	8	13	4	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr18:56963953C>G	uc002lhy.2	-	3	647	c.460G>C	c.(460-462)GAG>CAG	p.E154Q		NM_181654	NP_857637	Q7Z7G2	CPLX4_HUMAN	complexin 4 precursor	154					exocytosis|neurotransmitter transport	cell junction|synapse	syntaxin binding			ovary(1)	1		Colorectal(73;0.175)				CACTTCTGCTCCGCTGTCTGC	0.502													28	19	---	---	---	---	PASS	G	56963953	G	G	56963953	3	3	137	1	0	0	0	0	1	0	0	0	3807	864	30	2	26	2	CPLX4	18	56963953	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	9150740	56963953	21113295	273	49095										
CDH19	28513	broad.mit.edu	37	chr18	64197172	64197172	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atgttaagaacttgcacataCagtgggatcgaagagatctg	11	6	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr18:64197172C>T	uc002lkc.1	-	9	1506	c.1368G>A	c.(1366-1368)CTG>CTA	p.L456L	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Silent_p.L456L	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	456	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				CTTGCACATACAGTGGGATCG	0.318													30	152	---	---	---	---	PASS	T	64197172	T	T	64197172	2	4	137	1	0	0	0	0	0	0	0	1	3104	465	17	3		3	CDH19	18	64197172	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	7233219	64197172	13880076	274	49096										
CCDC102B	79839	broad.mit.edu	37	chr18	66678309	66678309	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	taagattacgagtggaagaaCtaaagcagggactcaatcaa	10	6	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr18:66678309C>A	uc002lkk.2	+	9	1625	c.1402C>A	c.(1402-1404)CTA>ATA	p.L468I	CCDC102B_uc002lki.2_Missense_Mutation_p.L468I	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	468	Potential.									ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				AGTGGAAGAACTAAAGCAGGG	0.373													25	29	---	---	---	---	PASS	A	66678309	A	A	66678309	3	1	137	1	0	0	0	0	1	0	0	0	2737	564	20	3	1424	3	CCDC102B	18	66678309	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	2481137	66678309	11398939	275	49097										
TSHZ1	10194	broad.mit.edu	37	chr18	72999377	72999377	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cctggccaaggctgcgtcccCcatagcaaaagagaataaag	10	12	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr18:72999377C>A	uc002lly.2	+	2	2443	c.1880C>A	c.(1879-1881)CCC>CAC	p.P627H		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	672						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GCTGCGTCCCCCATAGCAAAA	0.557													42	47	---	---	---	---	PASS	A	72999377	A	A	72999377	3	1	137	1	0	0	0	0	1	0	0	0	16620	623	22	3	1882	3	TSHZ1	18	72999377	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	6321068	72999377	5077871	276	49098										
TMPRSS9	360200	broad.mit.edu	37	chr19	2422036	2422036	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ccttcccatgtctcccccctCgaccacaaggatgctggcca	7	19	1	0	rs139183825		TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:2422036C>T	uc010xgx.1	+	13	2237	c.2237C>T	c.(2236-2238)TCG>TTG	p.S746L		NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	746	Extracellular (Potential).				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCTCCCCCCTCGACCACAAGG	0.662													45	68	---	---	---	---	PASS	T	2422036	T	T	2422036	3	4	137	1	0	0	0	0	1	0	0	0	16250	893	31	2	2287	2	TMPRSS9	19	2422036	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08		2422036	56706947	277	49099										
FSD1	79187	broad.mit.edu	37	chr19	4311905	4311905	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	taactgtgtgaccctggtgtGgcgcatgccggatgaggaca	15	9	0	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:4311905G>A	uc002lzy.2	+	7	710	c.557G>A	c.(556-558)TGG>TAG	p.W186*	FSD1_uc002lzz.2_Nonsense_Mutation_p.W186*|FSD1_uc002maa.2_5'UTR	NM_024333	NP_077309	Q9BTV5	FSD1_HUMAN	fibronectin type III and SPRY domain containing	186	Fibronectin type-III.				cell division|mitosis	cleavage furrow|microtubule|microtubule organizing center|nucleus				skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.034)|STAD - Stomach adenocarcinoma(1328;0.18)		ACCCTGGTGTGGCGCATGCCG	0.637													35	72	---	---	---	---	PASS	A	4311905	A	A	4311905	4	1	137	1	0	0	0	0	0	1	0	0	6070	1357	47	3	583	3	FSD1	19	4311905	Nonsense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	1889869	4311905	54817078	278	49100										
COL5A3	50509	broad.mit.edu	37	chr19	10080291	10080291	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaagaccctcaggccccacaCgtccagggggccctctagcc	11	18	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:10080291C>A	uc002mmq.1	-	56	4144	c.4058G>T	c.(4057-4059)CGT>CTT	p.R1353L		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1353	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)			AGGCCCCACACGTCCAGGGGG	0.682													17	23	---	---	---	---	PASS	A	10080291	A	A	10080291	3	1	137	1	0	0	0	0	1	0	0	0	3698	536	19	1	1227	1	COL5A3	19	10080291	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	5768386	10080291	49048692	279	49101										
ZNF763	284390	broad.mit.edu	37	chr19	12089390	12089390	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgtctcagattatatcttatCcatgaaagaactcacactgg	6	9	3	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:12089390C>T	uc002msw.2	+	4	806	c.651C>T	c.(649-651)ATC>ATT	p.I217I	ZNF763_uc010xmf.1_Silent_p.I237I|ZNF763_uc002msv.2_Silent_p.I220I|ZNF763_uc010xmg.1_Silent_p.I95I	NM_001012753	NP_001012771	Q0D2J5	ZN763_HUMAN	zinc finger protein 763	217	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						TATATCTTATCCATGAAAGAA	0.383													9	94	---	---	---	---	PASS	T	12089390	T	T	12089390	2	4	137	1	0	0	0	0	0	0	0	1	18134	845	30	2		2	ZNF763	19	12089390	Silent	SNP	C	TCGA-63-5131-01A-01D-1441-08	2009099	12089390	47039593	280	49102										
TNPO2	30000	broad.mit.edu	37	chr19	12817544	12817544	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gcggaccaaggccttcttatCcgacaggcactggatcaggt	12	12	2	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:12817544C>G	uc002muo.2	-	13	1521	c.1336G>C	c.(1336-1338)GAT>CAT	p.D446H	TNPO2_uc002mup.2_Missense_Mutation_p.D538H|TNPO2_uc002muq.2_Missense_Mutation_p.D446H|TNPO2_uc002mur.2_Missense_Mutation_p.D446H|SNORD41_uc002mut.1_5'Flank	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	446	HEAT 7.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						GCCTTCTTATCCGACAGGCAC	0.617													10	16	---	---	---	---	PASS	G	12817544	G	G	12817544	3	3	137	1	0	0	0	0	1	0	0	0	16333	855	30	2	1405	2	TNPO2	19	12817544	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	728154	12817544	46311439	281	49103										
ZNF486	90649	broad.mit.edu	37	chr19	20296798	20296798	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttatttttaatgaaacaggtAttattgtctctaagccagac	6	6	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:20296798A>T	uc002nou.2	+	3	217	c.160A>T	c.(160-162)ATT>TTT	p.I54F		NM_052852	NP_443084	Q96H40	ZN486_HUMAN	zinc finger protein 486	54	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGAAACAGGTATTATTGTCTC	0.358													16	56	---	---	---	---	PASS	T	20296798	T	T	20296798	3	4	137	1	0	0	0	0	1	0	0	0	17936	449	16	5	170	5	ZNF486	19	20296798	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	7479254	20296798	38832185	282	49104										
ZNF208	7757	broad.mit.edu	37	chr19	22154685	22154685	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gtagggtttttctccagcatGagttgccttatgttcagtaa	10	7	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:22154685G>T	uc002nqp.2	-	6	2916	c.2767C>A	c.(2767-2769)CAT>AAT	p.H923N	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TCTCCAGCATGAGTTGCCTTA	0.458													35	154	---	---	---	---	PASS	T	22154685	T	T	22154685	3	4	137	1	0	0	0	0	1	0	0	0	17763	1290	45	2	695	2	ZNF208	19	22154685	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	1857887	22154685	36974298	283	49105										
ZNF676	163223	broad.mit.edu	37	chr19	22364023	22364023	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttcacatttgtaggaattctCtctagtataaattctttcat	4	7	5	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:22364023C>T	uc002nqs.1	-	3	814	c.496G>A	c.(496-498)GAG>AAG	p.E166K		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	166					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				TAGGAATTCTCTCTAGTATAA	0.343													53	75	---	---	---	---	PASS	T	22364023	T	T	22364023	3	4	137	1	0	0	0	0	1	0	0	0	18080	922	32	2	1274	2	ZNF676	19	22364023	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	209338	22364023	36764960	284	49106										
ZNF675	171392	broad.mit.edu	37	chr19	23836897	23836897	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	acatttgtagggtttctctcCtgtatgaattatcttatgtg	8	6	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:23836897C>G	uc002nri.2	-	4	1020	c.838G>C	c.(838-840)GGA>CGA	p.G280R		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	280					bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				GGTTTCTCTCCTGTATGAATT	0.363													40	61	---	---	---	---	PASS	G	23836897	G	G	23836897	3	3	137	1	0	0	0	0	1	0	0	0	18079	690	24	4	872	4	ZNF675	19	23836897	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	1472874	23836897	35292086	285	49107										
KIAA0355	9710	broad.mit.edu	37	chr19	34791812	34791812	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gatcgccaagatgctaatggAacttagtgctggggctgcaa	13	8	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:34791812A>G	uc002nvd.3	+	2	1293	c.434A>G	c.(433-435)GAA>GGA	p.E145G	KIAA0355_uc010edk.1_Missense_Mutation_p.E135G	NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	145										ovary(1)	1	Esophageal squamous(110;0.162)					ATGCTAATGGAACTTAGTGCT	0.473													32	80	---	---	---	---	PASS	G	34791812	G	G	34791812	3	3	137	1	0	0	0	0	1	0	0	0	8170	246	9	5	436	5	KIAA0355	19	34791812	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	10954915	34791812	24337171	286	49108										
RYR1	6261	broad.mit.edu	37	chr19	38968482	38968482	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gggtcgtgacggtgaccatgGgggatgaacaaggcaacgtc	17	8	0	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:38968482G>T	uc002oit.2	+	30	4556	c.4426G>T	c.(4426-4428)GGG>TGG	p.G1476W	RYR1_uc002oiu.2_Missense_Mutation_p.G1476W	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1476	Cytoplasmic.|B30.2/SPRY 3.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GGTGACCATGGGGGATGAACA	0.672													23	277	---	---	---	---	PASS	T	38968482	T	T	38968482	3	4	137	1	0	0	0	0	1	0	0	0	13768	1232	43	3	4544	3	RYR1	19	38968482	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	4176670	38968482	20160501	287	49109										
FCGBP	8857	broad.mit.edu	37	chr19	40411910	40411910	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ggccacacagcccaagctgcCaccggatggctggcaggcct	13	16	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:40411910C>G	uc002omp.3	-	7	3726	c.3718G>C	c.(3718-3720)GGC>CGC	p.G1240R		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	1240						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CCCAAGCTGCCACCGGATGGC	0.672													24	17	---	---	---	---	PASS	G	40411910	G	G	40411910	3	3	137	1	0	0	0	0	1	0	0	0	5778	594	21	4	12619	4	FCGBP	19	40411910	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	1443428	40411910	18717073	288	49110										
ZNF574	64763	broad.mit.edu	37	chr19	42584936	42584936	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gcccttggaagcactgctacAgcatcccctgcggcccctgc	10	18	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:42584936A>G	uc002osm.3	+	2	2347	c.2178A>G	c.(2176-2178)ACA>ACG	p.T726T	ZNF574_uc002osk.3_Silent_p.T816T	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	726	Ala-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				GCACTGCTACAGCATCCCCTG	0.677													56	54	---	---	---	---	PASS	G	42584936	G	G	42584936	2	3	137	1	0	0	0	0	0	0	0	1	18003	175	7	5		5	ZNF574	19	42584936	Silent	SNP	A	TCGA-63-5131-01A-01D-1441-08	2173026	42584936	16544047	289	49111										
NCR1	9437	broad.mit.edu	37	chr19	55421426	55421426	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgaagaccccacctttcctgGtgagtaactggtccttctaa	8	12	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr19:55421426G>T	uc002qib.2	+	5	720	c.682_splice	c.e5+1	p.A228_splice	NCR1_uc002qic.2_Splice_Site_p.D228_splice|NCR1_uc002qie.2_Splice_Site_p.D228_splice|NCR1_uc002qid.2_Splice_Site_p.A133_splice|NCR1_uc002qif.2_Splice_Site_p.D133_splice|NCR1_uc010esj.2_Splice_Site_p.A121_splice	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1						cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		ACCTTTCCTGGTGAGTAACTG	0.433													110	123	---	---	---	---	PASS	T	55421426	T	T	55421426	5	4	137	1	0	0	0	0	0	0	1	0	10237	1275	44	3	701	3	NCR1	19	55421426	Splice_Site	SNP	G	TCGA-63-5131-01A-01D-1441-08	12836490	55421426	3707557	290	49112										
SNRPB	6628	broad.mit.edu	37	chr20	2444418	2444418	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gggatggcccgccaaccccaCggactggcccagcaagtcct	12	17	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr20:2444418C>A	uc002wfz.1	-	4	558	c.395G>T	c.(394-396)CGT>CTT	p.R132L	SNRPB_uc002wga.1_Missense_Mutation_p.R132L|SNRPB_uc010zpv.1_Missense_Mutation_p.R53L|SNRPB_uc002wgb.2_Missense_Mutation_p.R132L|SNORD119_uc010gam.1_5'Flank	NM_198216	NP_937859	P14678	RSMB_HUMAN	small nuclear ribonucleoprotein polypeptide B/B'	132					histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	protein binding|protein binding|RNA binding			ovary(1)	1						GCCAACCCCACGGACTGGCCC	0.617													111	181	---	---	---	---	PASS	A	2444418	A	A	2444418	3	1	137	1	0	0	0	0	1	0	0	0	14861	536	19	1	358	1	SNRPB	20	2444418	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08		2444418	60581102	291	49113										
TMX4	56255	broad.mit.edu	37	chr20	7980393	7980393	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agttacgttagagaagccggGgatttccagccagtcagagg	14	8	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr20:7980393G>T	uc002wmx.1	-	4	586	c.453C>A	c.(451-453)TCC>TCA	p.S151S		NM_021156	NP_066979	Q9H1E5	TMX4_HUMAN	thioredoxin-related transmembrane protein 4	151					cell redox homeostasis|electron transport chain|transport	integral to membrane					0						GAGAAGCCGGGGATTTCCAGC	0.418													16	57	---	---	---	---	PASS	T	7980393	T	T	7980393	2	4	137	1	0	0	0	0	0	0	0	1	16266	1219	43	3		3	TMX4	20	7980393	Silent	SNP	G	TCGA-63-5131-01A-01D-1441-08	5535975	7980393	55045127	292	49114										
DYNLRB1	83658	broad.mit.edu	37	chr20	33122575	33122575	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tccttcgaattcgctccaagAaaaatgaaattatggttgca	7	8	0	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr20:33122575A>G	uc002xal.2	+	3	283	c.223A>G	c.(223-225)AAA>GAA	p.K75E	DYNLRB1_uc010zuk.1_Missense_Mutation_p.K75E|DYNLRB1_uc002xam.2_RNA|DYNLRB1_uc002xan.2_RNA	NM_014183	NP_054902	Q9NP97	DLRB1_HUMAN	Roadblock-1	75					microtubule-based movement|transport|visual behavior	centrosome|cytoplasmic dynein complex|microtubule	microtubule motor activity				0						TCGCTCCAAGAAAAATGAAAT	0.527													10	65	---	---	---	---	PASS	G	33122575	G	G	33122575	3	3	137	1	0	0	0	0	1	0	0	0	4850	247	9	5	233	5	DYNLRB1	20	33122575	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	25142182	33122575	29902945	293	49115										
MANBAL	63905	broad.mit.edu	37	chr20	35944790	35944790	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tccttctgtgaacaagaggcCcaagaaagagactaagaaga	10	8	1	6			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr20:35944790C>T	uc002xgu.2	+	4	442	c.230C>T	c.(229-231)CCC>CTC	p.P77L	MANBAL_uc002xgv.2_Missense_Mutation_p.P77L|MANBAL_uc002xgw.2_RNA|MANBAL_uc010gfx.2_RNA|MANBAL_uc010gfy.2_RNA	NM_022077	NP_071360	Q9NQG1	MANBL_HUMAN	mannosidase, beta A, lysosomal-like	77						integral to membrane					0		Myeloproliferative disorder(115;0.00878)				AACAAGAGGCCCAAGAAAGAG	0.562													16	86	---	---	---	---	PASS	T	35944790	T	T	35944790	3	4	137	1	0	0	0	0	1	0	0	0	9220	623	22	3	236	3	MANBAL	20	35944790	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	2822215	35944790	27080730	294	49116										
TOP1	7150	broad.mit.edu	37	chr20	39704921	39704921	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agacagagacaaggaaaaacGaaaagaggaaaaggtacaga	12	4	0	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr20:39704921G>A	uc002xjl.2	+	4	512	c.266G>A	c.(265-267)CGA>CAA	p.R89Q	TOP1_uc010gge.1_RNA	NM_003286	NP_003277	P11387	TOP1_HUMAN	DNA topoisomerase I	89	Lys-rich.				DNA topological change|interspecies interaction between organisms|phosphorylation|programmed cell death|response to drug	chromosome|nucleolus|nucleoplasm	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity|protein binding			breast(3)|ovary(2)|central_nervous_system(1)|kidney(1)	7		Myeloproliferative disorder(115;0.00878)			Irinotecan(DB00762)|Lucanthone(DB04967)|Topotecan(DB01030)	aaggaaaaacgaaaaGAGGAA	0.199			T	NUP98	AML*								24	73	---	---	---	---	PASS	A	39704921	A	A	39704921	3	1	137	1	0	0	0	0	1	0	0	0	16360	1058	37	2	280	2	TOP1	20	39704921	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	3760131	39704921	23320599	295	49117										
PRIC285	85441	broad.mit.edu	37	chr20	62195014	62195014	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	caggctgcgcgcccgccgctGatagctctgggcaagtgcgt	15	14	1	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr20:62195014G>A	uc002yfm.2	-	9	6053	c.5161C>T	c.(5161-5163)CAG>TAG	p.Q1721*	PRIC285_uc002yfl.1_Nonsense_Mutation_p.Q1152*	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1721					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			GCCCGCCGCTGATAGCTCTGG	0.692													5	7	---	---	---	---	PASS	A	62195014	A	A	62195014	4	1	137	1	0	0	0	0	0	1	0	0	12485	1299	45	2	2836	2	PRIC285	20	62195014	Nonsense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	22490093	62195014	830506	296	49118										
ZBTB46	140685	broad.mit.edu	37	chr20	62421809	62421809	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctgacatcacctcgatgacgTtcctgctggtgagcgccagg	12	13	1	3			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr20:62421809T>A	uc002ygv.1	-	2	503	c.302A>T	c.(301-303)AAC>ATC	p.N101I	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					CTCGATGACGTTCCTGCTGGT	0.607													15	44	---	---	---	---	PASS	A	62421809	A	A	62421809	3	1	137	1	0	0	0	0	1	0	0	0	17544	1725	60	5	1483	5	ZBTB46	20	62421809	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	226795	62421809	603711	297	49119										
MYT1	4661	broad.mit.edu	37	chr20	62853343	62853343	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gaagtatccgggggaagtcaCcctgaccaactttaagctga	11	10	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr20:62853343C>T	uc002yii.2	+	14	2703	c.2339C>T	c.(2338-2340)ACC>ATC	p.T780I	MYT1_uc002yih.2_Missense_Mutation_p.T482I|MYT1_uc002yij.2_Missense_Mutation_p.T439I	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	780					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					GGGGAAGTCACCCTGACCAAC	0.517													40	73	---	---	---	---	PASS	T	62853343	T	T	62853343	3	4	137	1	0	0	0	0	1	0	0	0	10106	507	18	3	2385	3	MYT1	20	62853343	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	431534	62853343	172177	298	49120										
POTEH	23784	broad.mit.edu	37	chr22	16287519	16287519	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cttcatagcagagtcgtcgtGgtctccagaagtgcccacgt	11	12	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr22:16287519G>C	uc010gqp.2	-	1	419	c.367C>G	c.(367-369)CAC>GAC	p.H123D	POTEH_uc002zlg.1_5'Flank|POTEH_uc002zlh.1_5'Flank|POTEH_uc002zlj.1_Intron	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	123										skin(1)	1						GAGTCGTCGTGGTCTCCAGAA	0.602													96	525	---	---	---	---	PASS	C	16287519	C	C	16287519	3	2	137	1	0	0	0	0	1	0	0	0	12267	1348	47	4	1310	4	POTEH	22	16287519	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08		16287519	35017047	299	49121										
POTEH	23784	broad.mit.edu	37	chr22	16287598	16287598	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cagcaccacttgcccatcttGctcctgagtgtcttcatagc	7	15	3	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr22:16287598G>T	uc010gqp.2	-	1	340	c.288C>A	c.(286-288)AGC>AGA	p.S96R	POTEH_uc002zlg.1_5'Flank|POTEH_uc002zlh.1_5'Flank|POTEH_uc002zlj.1_5'UTR	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	96										skin(1)	1						TGCCCATCTTGCTCCTGAGTG	0.602													68	374	---	---	---	---	PASS	T	16287598	T	T	16287598	3	4	137	1	0	0	0	0	1	0	0	0	12267	1310	46	3	1389	3	POTEH	22	16287598	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	79	16287598	35016968	300	49122										
CECR2	27443	broad.mit.edu	37	chr22	18028483	18028483	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctttcagtctaaccacccacAttctggaggctttccccggt	7	15	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr22:18028483A>T	uc010gqw.1	+	16	3566	c.3440A>T	c.(3439-3441)CAT>CTT	p.H1147L	CECR2_uc010gqv.1_Missense_Mutation_p.H1005L|CECR2_uc002zml.2_Missense_Mutation_p.H1006L|CECR2_uc002zmo.2_RNA	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	1189					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		AACCACCCACATTCTGGAGGC	0.592													23	33	---	---	---	---	PASS	T	18028483	T	T	18028483	3	4	137	1	0	0	0	0	1	0	0	0	3206	217	8	5	3504	5	CECR2	22	18028483	Missense_Mutation	SNP	A	TCGA-63-5131-01A-01D-1441-08	1740885	18028483	33276083	301	49123										
CRKL	1399	broad.mit.edu	37	chr22	21288386	21288386	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ctcatgcatacgctcaacctCagaccacaactcctctacct	3	18	4	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr22:21288386C>G	uc002ztf.2	+	2	1140	c.631C>G	c.(631-633)CAG>GAG	p.Q211E	CRKL_uc002ztg.1_RNA	NM_005207	NP_005198	P46109	CRKL_HUMAN	v-crk sarcoma virus CT10 oncogene homolog	211					JNK cascade|Ras protein signal transduction	cytosol	protein tyrosine kinase activity|SH3/SH2 adaptor activity|signal transducer activity				0	all_cancers(11;1.16e-25)|all_epithelial(7;3.37e-24)|Lung NSC(8;7.25e-16)|all_lung(8;1.37e-14)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.176)			CGCTCAACCTCAGACCACAAC	0.502													55	125	---	---	---	---	PASS	G	21288386	G	G	21288386	3	3	137	1	0	0	0	0	1	0	0	0	3885	827	29	2	637	2	CRKL	22	21288386	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	3259903	21288386	30016180	302	49124										
LZTR1	8216	broad.mit.edu	37	chr22	21350124	21350124	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgttgcttgacgggcacccaCggccagcccacaaggctatc	11	15	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr22:21350124C>T	uc002zto.2	+	17	2135	c.2032C>T	c.(2032-2034)CGG>TGG	p.R678W	LZTR1_uc002ztn.2_Missense_Mutation_p.R637W|LZTR1_uc011ahy.1_Missense_Mutation_p.R659W|LZTR1_uc002ztp.2_5'Flank	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	678	BTB 2.				anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			CGGGCACCCACGGCCAGCCCA	0.647													41	65	---	---	---	---	PASS	T	21350124	T	T	21350124	3	4	137	1	0	0	0	0	1	0	0	0	9137	527	19	1	2098	1	LZTR1	22	21350124	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	61738	21350124	29954442	303	49125										
CHEK2	11200	broad.mit.edu	37	chr22	29091746	29091746	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agcagtccacagcacggttaTacccagcagtcccaacagaa	8	14	0	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr22:29091746T>C	uc003adu.1	-	11	1283	c.1211A>G	c.(1210-1212)TAT>TGT	p.Y404C	CHEK2_uc003ads.1_Missense_Mutation_p.Y183C|CHEK2_uc010gvh.1_Missense_Mutation_p.Y313C|CHEK2_uc010gvi.1_Intron|CHEK2_uc010gvj.1_Intron|CHEK2_uc003adr.1_RNA|CHEK2_uc010gvk.1_RNA|CHEK2_uc003adt.1_Missense_Mutation_p.Y447C|CHEK2_uc003adv.1_Missense_Mutation_p.Y375C|CHEK2_uc003adw.1_Missense_Mutation_p.Y404C|CHEK2_uc003adx.1_Missense_Mutation_p.Y183C|CHEK2_uc003ady.1_Missense_Mutation_p.Y404C|CHEK2_uc003adz.1_Missense_Mutation_p.Y208C	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a	404	Protein kinase.				cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						AGCACGGTTATACCCAGCAGT	0.453			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				31	91	---	---	---	---	PASS	C	29091746	C	C	29091746	3	2	137	1	0	0	0	0	1	0	0	0	3335	1406	49	5	440	5	CHEK2	22	29091746	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	7741622	29091746	22212820	304	49126										
CACNA1I	8911	broad.mit.edu	37	chr22	40061520	40061520	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	cagtgtcatcagccgggcgcCgggcctgaagctggtggtgg	18	11	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr22:40061520C>A	uc003ayc.2	+	22	3869	c.3869C>A	c.(3868-3870)CCG>CAG	p.P1290Q	CACNA1I_uc003ayd.2_Missense_Mutation_p.P1255Q|CACNA1I_uc003aye.2_Missense_Mutation_p.P1205Q|CACNA1I_uc003ayf.2_Missense_Mutation_p.P1170Q	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1290	III.|Helical; Name=S4 of repeat III; (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	AGCCGGGCGCCGGGCCTGAAG	0.617													25	55	---	---	---	---	PASS	A	40061520	A	A	40061520	3	1	137	1	0	0	0	0	1	0	0	0	2546	652	23	1	3955	1	CACNA1I	22	40061520	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	10969774	40061520	11243046	305	49127										
ACO2	50	broad.mit.edu	37	chr22	41907949	41907949	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	atggcgtgggcttctggaagCctggatctggaatcattcac	13	9	4	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr22:41907949C>A	uc003bac.2	+	4	524	c.502C>A	c.(502-504)CCT>ACT	p.P168T	ACO2_uc003bad.2_Missense_Mutation_p.P168T	NM_001098	NP_001089	Q99798	ACON_HUMAN	aconitase 2, mitochondrial precursor	168					citrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron ion binding|isocitrate hydro-lyase (cis-aconitate-forming) activity			breast(2)|ovary(1)|lung(1)	4						CTTCTGGAAGCCTGGATCTGG	0.512													15	45	---	---	---	---	PASS	A	41907949	A	A	41907949	3	1	137	1	0	0	0	0	1	0	0	0	147	739	26	3	516	3	ACO2	22	41907949	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	1846429	41907949	9396617	306	49128										
TTLL1	25809	broad.mit.edu	37	chr22	43435822	43435822	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ccgctctccccgagtctctcGatcggcctgctctgggcccc	10	20	3	0	rs116153895		TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr22:43435822G>A	uc003bdi.2	-	11	1473	c.1232C>T	c.(1231-1233)TCG>TTG	p.S411L	TTLL1_uc010gzh.2_Missense_Mutation_p.S382L|TTLL1_uc003bdj.2_Missense_Mutation_p.S297L|TTLL1_uc003bdh.2_Missense_Mutation_p.S373L	NM_012263	NP_036395	O95922	TTLL1_HUMAN	tubulin tyrosine ligase-like family, member 1	411					protein polyglutamylation	cytoplasm|microtubule	ATP binding|tubulin-glutamic acid ligase activity|tubulin-tyrosine ligase activity			skin(1)	1		Ovarian(80;0.0694)		BRCA - Breast invasive adenocarcinoma(115;0.00461)		CGAGTCTCTCGATCGGCCTGC	0.602													21	203	---	---	---	---	PASS	A	43435822	A	A	43435822	3	1	137	1	0	0	0	0	1	0	0	0	16719	1059	37	2	43	2	TTLL1	22	43435822	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	1527873	43435822	7868744	307	49129										
TUBGCP6	85378	broad.mit.edu	37	chr22	50664511	50664511	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gagcttcagcaggttaatggTctttccgcagacgtatatgt	11	8	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chr22:50664511T>C	uc003bkb.1	-	9	2313	c.1801A>G	c.(1801-1803)ACC>GCC	p.T601A	TUBGCP6_uc010har.1_Missense_Mutation_p.T601A|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hat.1_5'Flank|TUBGCP6_uc003bkd.1_5'UTR	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	601					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		AGGTTAATGGTCTTTCCGCAG	0.582													98	202	---	---	---	---	PASS	C	50664511	C	C	50664511	3	2	137	1	0	0	0	0	1	0	0	0	16767	1667	58	5	3726	5	TUBGCP6	22	50664511	Missense_Mutation	SNP	T	TCGA-63-5131-01A-01D-1441-08	7228689	50664511	640055	308	49130										
DMD	1756	broad.mit.edu	37	chrX	31838129	31838129	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agtccaggagctaggtcaggCtgctttgccctcagctcttg	12	12	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chrX:31838129C>A	uc004dda.1	-	50	7516	c.7272G>T	c.(7270-7272)CAG>CAT	p.Q2424H	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Missense_Mutation_p.Q1080H|DMD_uc004dcx.2_Missense_Mutation_p.Q1083H|DMD_uc004dcz.2_Missense_Mutation_p.Q2301H|DMD_uc004dcy.1_Missense_Mutation_p.Q2420H|DMD_uc004ddb.1_Missense_Mutation_p.Q2416H|DMD_uc004ddd.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2424					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTAGGTCAGGCTGCTTTGCCC	0.438													25	34	---	---	---	---	PASS	A	31838129	A	A	31838129	3	1	137	1	0	0	0	0	1	0	0	0	4580	796	28	3	4053	3	DMD	23	31838129	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08		31838129	123432431	309	49131										
CXorf59	286464	broad.mit.edu	37	chrX	36116911	36116911	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ttttcttttttaattttagtGctcaaggaggatgtatttca	7	4	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chrX:36116911G>T	uc004ddk.1	+	6	829	c.643G>T	c.(643-645)GCT>TCT	p.A215S		NM_173695	NP_775966	Q8N9S7	CX059_HUMAN	hypothetical protein LOC286464	215						integral to membrane				central_nervous_system(1)	1						TAATTTTAGTGCTCAAGGAGG	0.264													16	9	---	---	---	---	PASS	T	36116911	T	T	36116911	3	4	137	1	0	0	0	0	1	0	0	0	4115	1333	46	3	661	3	CXorf59	23	36116911	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	4278782	36116911	119153649	310	49132										
PAGE2B	389860	broad.mit.edu	37	chrX	55103864	55103864	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aagcttttcaacaggaactgGctctgcttaagatagaggat	10	7	2	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chrX:55103864G>T	uc004due.2	+	4	278	c.226G>T	c.(226-228)GCT>TCT	p.A76S		NM_001015038	NP_001015038	Q5JRK9	GGEE3_HUMAN	P antigen family, member 2B	76											0						ACAGGAACTGGCTCTGCTTAA	0.403													85	29	---	---	---	---	PASS	T	55103864	T	T	55103864	3	4	137	1	0	0	0	0	1	0	0	0	11391	1203	42	3	236	3	PAGE2B	23	55103864	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	18986953	55103864	100166696	311	49133										
MAGEE1	57692	broad.mit.edu	37	chrX	75650397	75650397	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	agaaatacaacgaagctctgGaagaagatgctgccagagcc	11	9	1	4			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chrX:75650397G>T	uc004ecm.1	+	1	2281	c.2074G>T	c.(2074-2076)GAA>TAA	p.E692*		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	692						dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						CGAAGCTCTGGAAGAAGATGC	0.473													12	10	---	---	---	---	PASS	T	75650397	T	T	75650397	4	4	137	1	0	0	0	0	0	1	0	0	9185	1175	41	2	2076	2	MAGEE1	23	75650397	Nonsense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	20546533	75650397	79620163	312	49134										
PCDH11X	27328	broad.mit.edu	37	chrX	91132563	91132563	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	aattactggctgcagatgctGgcaaacctcctttgaatcag	9	10	1	2			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chrX:91132563G>C	uc004efk.1	+	2	2169	c.1324G>C	c.(1324-1326)GGC>CGC	p.G442R	PCDH11X_uc004efl.1_Missense_Mutation_p.G442R|PCDH11X_uc004efo.1_Missense_Mutation_p.G442R|PCDH11X_uc010nmv.1_Missense_Mutation_p.G442R|PCDH11X_uc004efm.1_Missense_Mutation_p.G442R|PCDH11X_uc004efn.1_Missense_Mutation_p.G442R|PCDH11X_uc004efh.1_Missense_Mutation_p.G442R|PCDH11X_uc004efj.1_Missense_Mutation_p.G442R	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	442	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TGCAGATGCTGGCAAACCTCC	0.408													44	28	---	---	---	---	PASS	C	91132563	C	C	91132563	3	2	137	1	0	0	0	0	1	0	0	0	11508	1348	47	4	1330	4	PCDH11X	23	91132563	Missense_Mutation	SNP	G	TCGA-63-5131-01A-01D-1441-08	15482166	91132563	64137997	313	49135										
DCAF12L1	139170	broad.mit.edu	37	chrX	125686402	125686402	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	gccctggagcctggcggggcCccacccgcctacctcccgaa	12	20	0	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chrX:125686402C>A	uc004eul.2	-	1	441	c.190G>T	c.(190-192)GGC>TGC	p.G64C		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	64										skin(3)|ovary(1)	4						CTGGCGGGGCCCCACCCGCCT	0.697													35	23	---	---	---	---	PASS	A	125686402	A	A	125686402	3	1	137	1	0	0	0	0	1	0	0	0	4264	623	22	3	1205	3	DCAF12L1	23	125686402	Missense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	34553839	125686402	29584158	314	49136										
XPNPEP2	7512	broad.mit.edu	37	chrX	128887225	128887225	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	ccctcctcaaggccagccacGtaagtccacgttcaggcaga	9	16	2	1			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chrX:128887225G>A	uc004eut.1	+	11	1351	c.1107_splice	c.e11+1	p.H369_splice		NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound						cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						GGCCAGCCACGTAAGTCCACG	0.532													66	29	---	---	---	---	PASS	A	128887225	A	A	128887225	5	1	137	1	0	0	0	0	0	0	1	0	17440	1159	40	1	1150	1	XPNPEP2	23	128887225	Splice_Site	SNP	G	TCGA-63-5131-01A-01D-1441-08	3200823	128887225	26383335	315	49137										
MAGEC1	9947	broad.mit.edu	37	chrX	140994683	140994683	+	Frame_Shift_Del	DEL	C	-	-													0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	attgagtcttttccagagttCccctgagtgtactcaaagta							TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chrX:140994683delC	uc004fbt.2	+	4	1779	c.1493delC	c.(1492-1494)TCCfs	p.S498fs	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	498							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TTCCAGAGTTCCCCTGAGTGT	0.498										HNSCC(15;0.026)			64	140	---	---	---	---		-	140994683	-	-	140994683	7	5	137	1	0	1	0	1	0	0	0	0	9180	855	30	0	1499	0	MAGEC1	23	140994683	Frame_Shift_Del	DEL	C	TCGA-63-5131-01A-01D-1441-08	12107458	140994683	14275877	316	49138										
BRCC3	79184	broad.mit.edu	37	chrX	154299830	154299830	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.130573248407643	41	5.84637137947131e-05	1.93919742081179	2.32015726889145	1.69836073524419	0.680114602059056	0.925645401874291	20	tgcaggtggtgcaggcggtgCaggcggttcatctcgagtct	17	9	3	0			TCGA-63-5131-01A-01D-1441-08	TCGA-63-5131-10A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	b290a86e-22da-4f10-a421-2616bb47bc1b	4000af7a-04bd-4522-9c7d-fd45d63aa81c	g.chrX:154299830C>T	uc004fna.2	+	1	121	c.28C>T	c.(28-30)CAG>TAG	p.Q10*	MTCP1NB_uc004fmy.2_5'Flank|MTCP1_uc004fmz.2_5'Flank|BRCC3_uc011mzy.1_Nonsense_Mutation_p.Q10*|BRCC3_uc011mzz.1_RNA|BRCC3_uc004fnb.2_Nonsense_Mutation_p.Q10*	NM_024332	NP_077308	P46736	BRCC3_HUMAN	BRCA1/BRCA2-containing complex, subunit 3	10					double-strand break repair|G2/M transition DNA damage checkpoint|histone H2A K63-linked deubiquitination|positive regulation of DNA repair|response to X-ray	BRCA1-A complex|BRISC complex|nuclear ubiquitin ligase complex	enzyme regulator activity|metal ion binding|metallopeptidase activity|polyubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(3)|ovary(1)|large_intestine(1)|breast(1)	6	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					gcaggcggtgcaggcggtTCA	0.507													6	2	---	---	---	---	PASS	T	154299830	T	T	154299830	4	4	137	1	0	0	0	0	0	1	0	0	1500	711	25	3	30	3	BRCC3	23	154299830	Nonsense_Mutation	SNP	C	TCGA-63-5131-01A-01D-1441-08	13305147	154299830	970730	317	49139										
CASP9	842	broad.mit.edu	37	chr1	15833532	15833532	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aagttcacattgttgataatGaggcagtggccacagggctc	12	8	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:15833532G>A	uc001awn.2	-	4	587	c.492C>T	c.(490-492)CTC>CTT	p.L164L	CASP9_uc001awm.1_Silent_p.L164L|CASP9_uc001awo.2_Intron|CASP9_uc001awp.2_Silent_p.L8L|CASP9_uc009voi.2_Silent_p.L8L|CASP9_uc010obm.1_Silent_p.L81L|CASP9_uc001awq.2_Silent_p.L81L	NM_001229	NP_001220	P55211	CASP9_HUMAN	caspase 9 isoform alpha preproprotein	164					activation of caspase activity by cytochrome c|induction of apoptosis by intracellular signals|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol	cysteine-type endopeptidase activity|enzyme activator activity|protein binding			central_nervous_system(1)|kidney(1)	2		Breast(348;0.000207)|all_lung(284;0.000211)|Colorectal(325;0.000259)|Lung NSC(340;0.000269)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;8.49e-07)|COAD - Colon adenocarcinoma(227;4.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00013)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00763)|READ - Rectum adenocarcinoma(331;0.0655)		TGTTGATAATGAGGCAGTGGC	0.612													27	111	---	---	---	---	PASS	A	15833532	A	A	15833532	2	1	138	1	0	0	0	0	0	0	0	1	2679	1277	45	2		2	CASP9	1	15833532	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08		15833532	233417089	1	49140										
C1orf144	26099	broad.mit.edu	37	chr1	16721555	16721555	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	caaccaggatctcccaacccGaagacagcaggcagcccaat	8	16	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:16721555G>A	uc001aym.3	+	4	549	c.379G>A	c.(379-381)GAA>AAA	p.E127K	C1orf144_uc010ocb.1_Missense_Mutation_p.E107K|C1orf144_uc001ayi.3_Missense_Mutation_p.E108K|C1orf144_uc001ayk.3_Missense_Mutation_p.E107K	NM_001114600	NP_001108072	Q7Z422	CA144_HUMAN	putative MAPK activating protein PM20,PM21	127											0		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00475)|all_lung(284;0.00671)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(227;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;4.12e-05)|Kidney(64;0.00018)|KIRC - Kidney renal clear cell carcinoma(64;0.00267)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		CTCCCAACCCGAAGACAGCAG	0.448													12	57	---	---	---	---	PASS	A	16721555	A	A	16721555	3	1	138	1	0	0	0	0	1	0	0	0	2002	1059	37	2	393	2	C1orf144	1	16721555	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	888023	16721555	232529066	2	49141										
ARID1A	8289	broad.mit.edu	37	chr1	27092947	27092947	+	Splice_Site	SNP	G	C	C													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gaatttttttctcttttacaGggatggcagccagcccagag							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:27092947G>C	uc001bmv.1	+	10	3252	c.2879_splice	c.e10-1	p.G960_splice	ARID1A_uc001bmt.1_Splice_Site_p.G960_splice|ARID1A_uc001bmu.1_Splice_Site_p.G960_splice|ARID1A_uc001bmw.1_Splice_Site_p.G577_splice	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a						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)		CTCTTTTACAGGGATGGCAGC	0.448			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								20	36	---	---	---	---	PASS	C	27092947	C	C	27092947	5	2	138	1	0	0	0	0	0	0	1	0	913	1014	35	4	2916	4	ARID1A	1	27092947	Splice_Site	SNP	G	TCGA-63-6202-01A-11D-1817-08	10371392	27092947	222157674	3	49142	901	2								
ARID1A	8289	broad.mit.edu	37	chr1	27092948	27092948	+	Missense_Mutation	SNP	G	T	T													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aatttttttctcttttacagGgatggcagccagcccagaga							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:27092948G>T	uc001bmv.1	+	10	3252	c.2879G>T	c.(2878-2880)GGG>GTG	p.G960V	ARID1A_uc001bmt.1_Missense_Mutation_p.G960V|ARID1A_uc001bmu.1_Missense_Mutation_p.G960V|ARID1A_uc001bmw.1_Missense_Mutation_p.G577V	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	960					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)		TCTTTTACAGGGATGGCAGCC	0.448			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								18	36	---	---	---	---	PASS	T	27092948	T	T	27092948	3	4	138	1	0	0	0	0	1	0	0	0	913	1246	43	3	2917	3	ARID1A	1	27092948	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1	27092948	222157673	4	49143	901	2								
MAP3K6	9064	broad.mit.edu	37	chr1	27682928	27682928	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cgggcttcctcattcagccgCtgtagagcccgctgcaccag	11	16	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:27682928C>T	uc001bny.1	-	26	3837	c.3588G>A	c.(3586-3588)CAG>CAA	p.Q1196Q	MAP3K6_uc009vsw.1_Silent_p.Q1188Q	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	1196	Potential.				activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		CATTCAGCCGCTGTAGAGCCC	0.612													19	28	---	---	---	---	PASS	T	27682928	T	T	27682928	2	4	138	1	0	0	0	0	0	0	0	1	9254	796	28	3		3	MAP3K6	1	27682928	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	589980	27682928	221567693	5	49144										
LCK	3932	broad.mit.edu	37	chr1	32740636	32740636	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cagctatgagccctctcacgAcggagatctgggctttgaga	12	11	2	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:32740636A>T	uc001bux.2	+	4	368	c.230A>T	c.(229-231)GAC>GTC	p.D77V	LCK_uc001buy.2_Missense_Mutation_p.D77V|LCK_uc001buz.2_Missense_Mutation_p.D77V|LCK_uc010ohc.1_Missense_Mutation_p.D121V|LCK_uc001bva.2_Missense_Mutation_p.D135V	NM_005356	NP_005347	P06239	LCK_HUMAN	lymphocyte-specific protein tyrosine kinase	77	SH3.				activation of caspase activity|cellular zinc ion homeostasis|induction of apoptosis|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of T cell receptor signaling pathway|regulation of defense response to virus by virus|release of sequestered calcium ion into cytosol|response to drug|T cell costimulation|T cell differentiation|T cell receptor signaling pathway|viral reproduction	cytosol|Golgi apparatus|membrane raft|pericentriolar material|plasma membrane	ATP binding|ATPase binding|CD4 receptor binding|CD8 receptor binding|glycoprotein binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein kinase binding|protein serine/threonine phosphatase activity|SH2 domain binding			lung(3)|central_nervous_system(2)|ovary(1)	6		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)			Dasatinib(DB01254)	CCCTCTCACGACGGAGATCTG	0.597			T	TRB@	T-ALL								19	104	---	---	---	---	PASS	T	32740636	T	T	32740636	3	4	138	1	0	0	0	0	1	0	0	0	8676	275	10	5	240	5	LCK	1	32740636	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	5057708	32740636	216509985	6	49145										
COL9A2	1298	broad.mit.edu	37	chr1	40767500	40767500	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttacctgggatccctgggggCccaggcatcccggggtgccc	15	15	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:40767500C>A	uc001cfh.1	-	31	1924	c.1854G>T	c.(1852-1854)GGG>GGT	p.G618G	COL9A2_uc001cfi.1_Silent_p.G437G	NM_001852	NP_001843	Q14055	CO9A2_HUMAN	alpha 2 type IX collagen precursor	618	Triple-helical region 2 (COL2).				axon guidance|skeletal system development	collagen type IX				ovary(2)	2	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.08e-17)			TCCCTGGGGGCCCAGGCATCC	0.557													14	17	---	---	---	---	PASS	A	40767500	A	A	40767500	2	1	138	1	0	0	0	0	0	0	0	1	3708	726	26	3		3	COL9A2	1	40767500	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	8026864	40767500	208483121	7	49146										
PTPRF	5792	broad.mit.edu	37	chr1	44056825	44056825	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccacccgctacagcattggcGgcctcagccctttctcggaa	9	17	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:44056825G>A	uc001cjr.2	+	9	1472	c.1132G>A	c.(1132-1134)GGC>AGC	p.G378S	PTPRF_uc001cjs.2_Missense_Mutation_p.G378S|PTPRF_uc001cju.2_5'UTR|PTPRF_uc009vwt.2_5'UTR|PTPRF_uc001cjv.2_5'UTR	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	378	Extracellular (Potential).|Fibronectin type-III 1.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CAGCATTGGCGGCCTCAGCCC	0.662													40	55	---	---	---	---	PASS	A	44056825	A	A	44056825	3	1	138	1	0	0	0	0	1	0	0	0	12801	1116	39	1	1158	1	PTPRF	1	44056825	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	3289325	44056825	205193796	8	49147										
PTPRF	5792	broad.mit.edu	37	chr1	44072012	44072012	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gctcaactggatgtgctcccGgagacctttaccttggggga	13	11	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:44072012G>A	uc001cjr.2	+	20	3925	c.3585G>A	c.(3583-3585)CCG>CCA	p.P1195P	PTPRF_uc001cjs.2_Silent_p.P1186P|PTPRF_uc001cju.2_Silent_p.P573P|PTPRF_uc009vwt.2_Silent_p.P755P|PTPRF_uc001cjv.2_Silent_p.P655P|PTPRF_uc001cjw.2_Silent_p.P421P	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1195	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ATGTGCTCCCGGAGACCTTTA	0.597													105	141	---	---	---	---	PASS	A	44072012	A	A	44072012	2	1	138	1	0	0	0	0	0	0	0	1	12801	1103	39	1		1	PTPRF	1	44072012	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	15187	44072012	205178609	9	49148										
L1TD1	54596	broad.mit.edu	37	chr1	62672649	62672649	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tacaaaaaacagggatggtaGggaaaatagaaggagaaaac	12	3	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:62672649G>T	uc001dae.3	+	3	651	c.349G>T	c.(349-351)GGG>TGG	p.G117W		NM_019079	NP_061952	Q5T7N2	LITD1_HUMAN	LINE-1 type transposase domain containing 1	117										ovary(1)|skin(1)	2						agggatggtagggaaaataga	0.05													62	97	---	---	---	---	PASS	T	62672649	T	T	62672649	3	4	138	1	0	0	0	0	1	0	0	0	8589	1000	35	3	351	3	L1TD1	1	62672649	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	18600637	62672649	186577972	10	49149										
KANK4	163782	broad.mit.edu	37	chr1	62740445	62740445	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctggggggcattaccaagcgGtggtgactggttttgctcct	15	9	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:62740445G>C	uc001dah.3	-	3	708	c.331C>G	c.(331-333)CCG>GCG	p.P111A	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	111										ovary(3)|skin(2)|lung(1)	6						TTACCAAGCGGTGGTGACTGG	0.622													8	63	---	---	---	---	PASS	C	62740445	C	C	62740445	3	2	138	1	0	0	0	0	1	0	0	0	7979	1261	44	4	2688	4	KANK4	1	62740445	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	67796	62740445	186510176	11	49150										
DOCK7	85440	broad.mit.edu	37	chr1	63018566	63018566	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcactgatcctcccaaacccCcaggacctagagttgtatat	7	14	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:63018566C>G	uc001daq.2	-	22	2637	c.2603G>C	c.(2602-2604)GGG>GCG	p.G868A	DOCK7_uc001dan.2_Missense_Mutation_p.G760A|DOCK7_uc001dao.2_Missense_Mutation_p.G760A|DOCK7_uc001dap.2_Missense_Mutation_p.G868A|DOCK7_uc001dam.2_Missense_Mutation_p.G48A	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	868					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						TCCCAAACCCCCAGGACCTAG	0.388													14	25	---	---	---	---	PASS	G	63018566	G	G	63018566	3	3	138	1	0	0	0	0	1	0	0	0	4692	623	22	4	3838	4	DOCK7	1	63018566	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	278121	63018566	186232055	12	49151										
LRRC7	57554	broad.mit.edu	37	chr1	70502271	70502271	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggggtccttgcagacaacagCtaaagatgcagtacataatt	10	8	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:70502271C>T	uc001dep.2	+	18	2168	c.2138C>T	c.(2137-2139)GCT>GTT	p.A713V	LRRC7_uc009wbg.2_Intron|LRRC7_uc001deq.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	713						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CAGACAACAGCTAAAGATGCA	0.433													55	108	---	---	---	---	PASS	T	70502271	T	T	70502271	3	4	138	1	0	0	0	0	1	0	0	0	9020	797	28	3	2208	3	LRRC7	1	70502271	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	7483705	70502271	178748350	13	49152										
LRRIQ3	127255	broad.mit.edu	37	chr1	74648482	74648482	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctttgcaaacccattgtcatGaagatagagtagttttaggt	9	6	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:74648482G>A	uc001dfy.3	-	3	505	c.313C>T	c.(313-315)CAT>TAT	p.H105Y	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	105	LRR 3.									ovary(2)	2						CCATTGTCATGAAGATAGAGT	0.308													21	30	---	---	---	---	PASS	A	74648482	A	A	74648482	3	1	138	1	0	0	0	0	1	0	0	0	9030	1290	45	2	1585	2	LRRIQ3	1	74648482	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	4146211	74648482	174602139	14	49153										
PTGFR	5737	broad.mit.edu	37	chr1	79002362	79002362	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	accagttgcagagaaatcagCaagcacctagcttaatagga	9	9	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:79002362C>T	uc001din.2	+	3	1336	c.1070C>T	c.(1069-1071)GCA>GTA	p.A357V	PTGFR_uc001dim.2_3'UTR	NM_000959	NP_000950	P43088	PF2R_HUMAN	prostaglandin F receptor isoform a precursor	357	Cytoplasmic (Potential).				parturition	extracellular region|integral to plasma membrane	prostaglandin F receptor activity			ovary(3)|breast(2)|skin(1)	6				Colorectal(170;0.248)	Bimatoprost(DB00905)|Latanoprost(DB00654)|Travoprost(DB00287)	GAGAAATCAGCAAGCACCTAG	0.383													9	42	---	---	---	---	PASS	T	79002362	T	T	79002362	3	4	138	1	0	0	0	0	1	0	0	0	12749	710	25	3	1151	3	PTGFR	1	79002362	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	4353880	79002362	170248259	15	49154										
GSTM4	2948	broad.mit.edu	37	chr1	110200278	110200278	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccatcctgtgctacattgccCgcaagcacaacctgtgtgag	9	14	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:110200278C>T	uc001dyf.2	+	4	558	c.244C>T	c.(244-246)CGC>TGC	p.R82C	GSTM4_uc001dyg.2_Intron|GSTM4_uc009wfj.2_Intron|GSTM4_uc001dyh.2_Missense_Mutation_p.R82C|GSTM2_uc001dyi.2_Intron	NM_000850	NP_000841	Q03013	GSTM4_HUMAN	glutathione S-transferase mu 4 isoform 1	82	GST N-terminal.				xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity				0		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		all cancers(265;0.0123)|Colorectal(144;0.0129)|Epithelial(280;0.0147)|Lung(183;0.0422)|COAD - Colon adenocarcinoma(174;0.0471)|LUSC - Lung squamous cell carcinoma(189;0.227)	Glutathione(DB00143)	CTACATTGCCCGCAAGCACAA	0.567													52	207	---	---	---	---	PASS	T	110200278	T	T	110200278	3	4	138	1	0	0	0	0	1	0	0	0	6840	652	23	1	258	1	GSTM4	1	110200278	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	31197916	110200278	139050343	16	49155										
DCLRE1B	64858	broad.mit.edu	37	chr1	114454011	114454011	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaaaatccacagctcccaccCtgatatccacgtcatccctt	3	17	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:114454011C>T	uc001eeg.2	+	4	968	c.797C>T	c.(796-798)CCT>CTT	p.P266L	DCLRE1B_uc001eeh.2_Missense_Mutation_p.P140L|DCLRE1B_uc001eei.2_Missense_Mutation_p.P140L	NM_022836	NP_073747	Q9H816	DCR1B_HUMAN	DNA cross-link repair 1B (PSO2 homolog, S.	266					cell cycle checkpoint|DNA repair|protection from non-homologous end joining at telomere|telomeric 3' overhang formation|telomeric loop formation	centrosome|chromosome, telomeric region|nucleus	5'-3' exonuclease activity|protein binding				0	Lung SC(450;0.184)	all_cancers(81;1.46e-05)|all_epithelial(167;2.42e-05)|all_lung(203;0.000353)|Lung NSC(69;0.000518)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGCTCCCACCCTGATATCCAC	0.527								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					61	67	---	---	---	---	PASS	T	114454011	T	T	114454011	3	4	138	1	0	0	0	0	1	0	0	0	4295	681	24	3	811	3	DCLRE1B	1	114454011	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	4253733	114454011	134796610	17	49156										
CHD1L	9557	broad.mit.edu	37	chr1	146765333	146765333	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	catcgtgatcgttccaatgtCctgtctggcattaagatggc	10	10	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:146765333C>G	uc001epm.3	+	21	2496	c.2433C>G	c.(2431-2433)GTC>GTG	p.V811V	uc001epp.2_Intron|CHD1L_uc001epn.3_Silent_p.V698V|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Silent_p.V717V|CHD1L_uc010ozp.1_Silent_p.V530V|CHD1L_uc001epo.3_Silent_p.V607V|CHD1L_uc009wji.2_Silent_p.V530V	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	811	Macro.				chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)					GTTCCAATGTCCTGTCTGGCA	0.463													20	329	---	---	---	---	PASS	G	146765333	G	G	146765333	2	3	138	1	0	0	0	0	0	0	0	1	3324	842	30	2		2	CHD1L	1	146765333	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	32311322	146765333	102485288	18	49157										
HRNR	388697	broad.mit.edu	37	chr1	152187683	152187683	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gttcacccctagatgactgtCctgatctagagccgtgttgt	10	11	2	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:152187683C>T	uc001ezt.1	-	3	6498	c.6422G>A	c.(6421-6423)GGA>GAA	p.G2141E		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2141					keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGATGACTGTCCTGATCTAGA	0.587													24	744	---	---	---	---	PASS	T	152187683	T	T	152187683	3	4	138	1	0	0	0	0	1	0	0	0	7359	855	30	2	2134	2	HRNR	1	152187683	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	5422350	152187683	97062938	19	49158										
FLG	2312	broad.mit.edu	37	chr1	152277980	152277980	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tccagagctatctaccgaatGctcgtggtggtacccctgcc	10	14	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:152277980G>T	uc001ezu.1	-	3	9418	c.9382C>A	c.(9382-9384)CAT>AAT	p.H3128N		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3128	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTACCGAATGCTCGTGGTGG	0.592									Ichthyosis				106	317	---	---	---	---	PASS	T	152277980	T	T	152277980	3	4	138	1	0	0	0	0	1	0	0	0	5922	1319	46	3	2807	3	FLG	1	152277980	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	90297	152277980	96972641	20	49159										
FLG	2312	broad.mit.edu	37	chr1	152284451	152284451	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctgctcctgagcagatccacGatggtttctggaagcagacc	11	12	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:152284451G>A	uc001ezu.1	-	3	2947	c.2911C>T	c.(2911-2913)CGT>TGT	p.R971C	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	971	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCAGATCCACGATGGTTTCTG	0.577									Ichthyosis				19	578	---	---	---	---	PASS	A	152284451	A	A	152284451	3	1	138	1	0	0	0	0	1	0	0	0	5922	1058	37	2	9278	2	FLG	1	152284451	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	6471	152284451	96966170	21	49160										
NES	10763	broad.mit.edu	37	chr1	156640164	156640164	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccttcctcctgggggccctcGgggatctccccagaacccaa	10	18	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:156640164G>T	uc001fpq.2	-	4	3949	c.3816C>A	c.(3814-3816)CCC>CCA	p.P1272P		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	1272	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GGGGGCCCTCGGGGATCTCCC	0.642													76	142	---	---	---	---	PASS	T	156640164	T	T	156640164	2	4	138	1	0	0	0	0	0	0	0	1	10337	1103	39	1		1	NES	1	156640164	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	4355713	156640164	92610457	22	49161										
OR10Z1	128368	broad.mit.edu	37	chr1	158576908	158576908	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	catcttggcagcaatactgaGgatcccctctgctgaggggc	12	12	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:158576908G>T	uc010pio.1	+	1	680	c.680G>T	c.(679-681)AGG>ATG	p.R227M		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					GCAATACTGAGGATCCCCTCT	0.507													111	180	---	---	---	---	PASS	T	158576908	T	T	158576908	3	4	138	1	0	0	0	0	1	0	0	0	10923	1000	35	3	682	3	OR10Z1	1	158576908	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1936744	158576908	90673713	23	49162										
SPTA1	6708	broad.mit.edu	37	chr1	158590127	158590127	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggccaagaagtcctcatggtCtttctgcagctgccgaattt	10	11	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:158590127C>A	uc001fst.1	-	44	6449	c.6250G>T	c.(6250-6252)GAC>TAC	p.D2084Y		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2084	Spectrin 20.				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)					TCCTCATGGTCTTTCTGCAGC	0.488													27	59	---	---	---	---	PASS	A	158590127	A	A	158590127	3	1	138	1	0	0	0	0	1	0	0	0	15115	913	32	2	1045	2	SPTA1	1	158590127	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	13219	158590127	90660494	24	49163										
C1orf125	126859	broad.mit.edu	37	chr1	179452290	179452290	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	caagcgtatatatttaacatGattcaacaatggcttttgaa	6	6	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:179452290G>T	uc001gmo.2	+	18	2152	c.2025G>T	c.(2023-2025)ATG>ATT	p.M675I	C1orf125_uc009wxg.2_RNA|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.M675I	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	675											0						TATTTAACATGATTCAACAAT	0.328													27	55	---	---	---	---	PASS	T	179452290	T	T	179452290	3	4	138	1	0	0	0	0	1	0	0	0	1993	1290	45	2	2091	2	C1orf125	1	179452290	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	20862163	179452290	69798331	25	49164										
CEP350	9857	broad.mit.edu	37	chr1	180013242	180013242	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agggacccttgactcaaagcAtcagaagtattctgcttcat	8	10	4	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:180013242A>T	uc001gnt.2	+	21	4939	c.4556A>T	c.(4555-4557)CAT>CTT	p.H1519L	CEP350_uc009wxl.2_Missense_Mutation_p.H1518L	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1519	Ser-rich.					centrosome|nucleus|spindle				ovary(4)	4						GACTCAAAGCATCAGAAGTAT	0.333													7	5	---	---	---	---	PASS	T	180013242	T	T	180013242	3	4	138	1	0	0	0	0	1	0	0	0	3254	217	8	5	4634	5	CEP350	1	180013242	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	560952	180013242	69237379	26	49165										
PRG4	10216	broad.mit.edu	37	chr1	186270769	186270769	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgagtccttcgagagagggaGggagtgtgactgcgacgccc	17	9	0	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:186270769G>A	uc001gru.3	+	4	296	c.245G>A	c.(244-246)AGG>AAG	p.R82K	PRG4_uc001grt.3_Missense_Mutation_p.R41K|PRG4_uc009wyl.2_Missense_Mutation_p.R82K|PRG4_uc009wym.2_Missense_Mutation_p.R41K|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	82	SMB 2.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GAGAGAGGGAGGGAGTGTGAC	0.488													8	84	---	---	---	---	PASS	A	186270769	A	A	186270769	3	1	138	1	0	0	0	0	1	0	0	0	12481	1000	35	3	255	3	PRG4	1	186270769	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	6257527	186270769	62979852	27	49166										
CRB1	23418	broad.mit.edu	37	chr1	197298053	197298053	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cttggaagtggatgaatgtgCttcagatccctgcaagaacg	12	8	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:197298053C>T	uc001gtz.2	+	2	707	c.572C>T	c.(571-573)GCT>GTT	p.A191V	CRB1_uc010poz.1_Missense_Mutation_p.A122V|CRB1_uc001gty.1_Missense_Mutation_p.A191V|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.A191V|CRB1_uc010ppb.1_Missense_Mutation_p.A191V	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	191	Extracellular (Potential).|EGF-like 5; calcium-binding (Potential).				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						GATGAATGTGCTTCAGATCCC	0.458													19	30	---	---	---	---	PASS	T	197298053	T	T	197298053	3	4	138	1	0	0	0	0	1	0	0	0	3848	797	28	3	578	3	CRB1	1	197298053	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	11027284	197298053	51952568	28	49167										
CHIT1	1118	broad.mit.edu	37	chr1	203192314	203192314	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccacataggtctgcccagctGgaaccgctgcactcagaaga	10	14	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:203192314G>T	uc001gzn.2	-	6	650	c.554C>A	c.(553-555)CCA>CAA	p.P185Q	FMOD_uc010pqi.1_Intron|CHIT1_uc001gzm.1_Intron|CHIT1_uc009xal.1_5'UTR|CHIT1_uc009xam.1_RNA|CHIT1_uc009xan.1_RNA|CHIT1_uc001gzo.2_Missense_Mutation_p.P176Q	NM_003465	NP_003456	Q13231	CHIT1_HUMAN	chitotriosidase precursor	185					chitin catabolic process|immune response|response to bacterium	extracellular space|lysosome	cation binding|chitin binding|endochitinase activity				0						CTGCCCAGCTGGAACCGCTGC	0.572													48	96	---	---	---	---	PASS	T	203192314	T	T	203192314	3	4	138	1	0	0	0	0	1	0	0	0	3346	1348	47	3	870	3	CHIT1	1	203192314	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	5894261	203192314	46058307	29	49168										
CR2	1380	broad.mit.edu	37	chr1	207646467	207646467	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttactttgaagggcagtagtCagattcgttgcaaagctgat	11	6	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:207646467C>G	uc001hfw.2	+	10	2015	c.1921C>G	c.(1921-1923)CAG>GAG	p.Q641E	CR2_uc001hfv.2_Missense_Mutation_p.Q641E|CR2_uc009xch.2_Missense_Mutation_p.Q641E|CR2_uc009xci.1_Missense_Mutation_p.Q126E	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	641	Sushi 10.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						GGGCAGTAGTCAGATTCGTTG	0.383													33	69	---	---	---	---	PASS	G	207646467	G	G	207646467	3	3	138	1	0	0	0	0	1	0	0	0	3842	827	29	2	1959	2	CR2	1	207646467	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	4454153	207646467	41604154	30	49169										
CAMK1G	57172	broad.mit.edu	37	chr1	209768392	209768392	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agaccaccaacatccggaaaAccttcatttttatggaagtg	7	10	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:209768392A>G	uc001hhd.2	+	2	166	c.64A>G	c.(64-66)ACC>GCC	p.T22A	CAMK1G_uc001hhf.3_Missense_Mutation_p.T22A|CAMK1G_uc001hhe.2_Missense_Mutation_p.T22A	NM_020439	NP_065172	Q96NX5	KCC1G_HUMAN	calcium/calmodulin-dependent protein kinase IG	22						Golgi membrane|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0475)		CATCCGGAAAACCTTCATTTT	0.512													4	84	---	---	---	---	PASS	G	209768392	G	G	209768392	3	3	138	1	0	0	0	0	1	0	0	0	2598	43	2	5	66	5	CAMK1G	1	209768392	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	2121925	209768392	39482229	31	49170										
KCNH1	3756	broad.mit.edu	37	chr1	211192568	211192568	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tggtgcctcttgcttgtactGgggaaggatgtctgagccca	14	9	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:211192568G>T	uc001hib.2	-	6	759	c.589C>A	c.(589-591)CAG>AAG	p.Q197K	KCNH1_uc001hic.2_Missense_Mutation_p.Q197K	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	197	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		TGCTTGTACTGGGGAAGGATG	0.428													33	81	---	---	---	---	PASS	T	211192568	T	T	211192568	3	4	138	1	0	0	0	0	1	0	0	0	8031	1357	47	3	2404	3	KCNH1	1	211192568	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1424176	211192568	38058053	32	49171										
C1orf69	200205	broad.mit.edu	37	chr1	228362694	228362694	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgcccgggggccggctcgggGacttgtgggattatcaccag	17	11	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:228362694G>T	uc001hsl.3	+	2	732	c.643G>T	c.(643-645)GAC>TAC	p.D215Y	C1orf69_uc010pvw.1_Missense_Mutation_p.D22Y	NM_001010867	NP_001010867	Q5T440	CAF17_HUMAN	hypothetical protein LOC200205 precursor	215					glycine catabolic process|heme biosynthetic process	mitochondrion	aminomethyltransferase activity				0		Prostate(94;0.0405)				CCGGCTCGGGGACTTGTGGGA	0.657													9	24	---	---	---	---	PASS	T	228362694	T	T	228362694	3	4	138	1	0	0	0	0	1	0	0	0	2057	1174	41	2	649	2	C1orf69	1	228362694	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	17170126	228362694	20887927	33	49172										
TRIM11	81559	broad.mit.edu	37	chr1	228584678	228584678	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccgcagtgtctctaccagtcCcgggaccctgcacacggtcc	10	18	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:228584678C>A	uc001hss.2	-	5	1084	c.829G>T	c.(829-831)GGA>TGA	p.G277*	TRIM11_uc010pvx.1_Nonsense_Mutation_p.G276*|TRIM11_uc001hst.1_Nonsense_Mutation_p.G277*	NM_145214	NP_660215	Q96F44	TRI11_HUMAN	tripartite motif-containing 11	277	B30.2/SPRY.				response to virus	cytoplasm|nucleus	protein binding|zinc ion binding	p.G277*(1)		lung(3)|ovary(1)	4		Prostate(94;0.0724)				TCTACCAGTCCCGGGACCCTG	0.637													18	29	---	---	---	---	PASS	A	228584678	A	A	228584678	4	1	138	1	0	0	0	0	0	1	0	0	16484	632	22	3	585	3	TRIM11	1	228584678	Nonsense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	221984	228584678	20665943	34	49173										
RYR2	6262	broad.mit.edu	37	chr1	237919649	237919649	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccgactccacgatcgtggcgCggctgagatggtgctacaga	14	12	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:237919649C>A	uc001hyl.1	+	81	11327	c.11207C>A	c.(11206-11208)GCG>GAG	p.A3736E	RYR2_uc010pya.1_Missense_Mutation_p.A151E	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3736					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)			GATCGTGGCGCGGCTGAGATG	0.478													18	39	---	---	---	---	PASS	A	237919649	A	A	237919649	3	1	138	1	0	0	0	0	1	0	0	0	13769	768	27	1	11529	1	RYR2	1	237919649	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	9334971	237919649	11330972	35	49174										
FMN2	56776	broad.mit.edu	37	chr1	240255947	240255947	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaaggaccagctcgggctcgGacacggacatctatagcttc	11	12	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:240255947G>T	uc010pyd.1	+	1	763	c.538G>T	c.(538-540)GAC>TAC	p.D180Y	FMN2_uc010pye.1_Missense_Mutation_p.D180Y	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	180					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CTCGGGCTCGGACACGGACAT	0.552													12	48	---	---	---	---	PASS	T	240255947	T	T	240255947	3	4	138	1	0	0	0	0	1	0	0	0	5950	1174	41	2	540	2	FMN2	1	240255947	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	2336298	240255947	8994674	36	49175										
WDR64	128025	broad.mit.edu	37	chr1	241964483	241964483	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tttagtcccacaaataaatcTggcttcttccttcttcccag	4	13	3	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:241964483T>A	uc001hzf.1	+	17	2024	c.1871T>A	c.(1870-1872)CTG>CAG	p.L624Q	WDR64_uc001hzg.1_Missense_Mutation_p.L537Q	NM_144625	NP_653226	B1ANS9	WDR64_HUMAN	WD repeat domain 64	1071										skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			CAAATAAATCTGGCTTCTTCC	0.383													30	103	---	---	---	---	PASS	A	241964483	A	A	241964483	3	1	138	1	0	0	0	0	1	0	0	0	17312	1580	55	5	3318	5	WDR64	1	241964483	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	1708536	241964483	7286138	37	49176										
CEP170	9859	broad.mit.edu	37	chr1	243329005	243329005	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccactgagcctcctccctttGttcttgttgttgaagttttg	8	11	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:243329005G>T	uc001hzs.2	-	13	2665	c.2257C>A	c.(2257-2259)CAA>AAA	p.Q753K	CEP170_uc001hzt.2_Missense_Mutation_p.Q655K|CEP170_uc001hzu.2_Missense_Mutation_p.Q655K|CEP170_uc001hzv.1_Missense_Mutation_p.Q131K	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	753						centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			TCCTCCCTTTGTTCTTGTTGT	0.383													16	226	---	---	---	---	PASS	T	243329005	T	T	243329005	3	4	138	1	0	0	0	0	1	0	0	0	3250	1386	48	3	2559	3	CEP170	1	243329005	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1364522	243329005	5921616	38	49177										
TRIM58	25893	broad.mit.edu	37	chr1	248039277	248039277	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cctgcgcagtgtgcaggatgGagaaccatggagggatgtcc	16	9	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:248039277G>C	uc001ido.2	+	6	995	c.947G>C	c.(946-948)GGA>GCA	p.G316A	OR2W3_uc001idp.1_5'UTR	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	316	B30.2/SPRY.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GTGCAGGATGGAGAACCATGG	0.587													6	61	---	---	---	---	PASS	C	248039277	C	C	248039277	3	2	138	1	0	0	0	0	1	0	0	0	16528	1174	41	2	969	2	TRIM58	1	248039277	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	4710272	248039277	1211344	39	49178										
OR2L8	391190	broad.mit.edu	37	chr1	248112246	248112246	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gaccttttcttcttcattctCattgttttcattttcctgat	3	10	5	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:248112246C>G	uc001idt.1	+	1	87	c.87C>G	c.(85-87)CTC>CTG	p.L29L	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	29	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TCTTCATTCTCATTGTTTTCA	0.388													49	167	---	---	---	---	PASS	G	248112246	G	G	248112246	2	3	138	1	0	0	0	0	0	0	0	1	11009	813	29	2		2	OR2L8	1	248112246	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	72969	248112246	1138375	40	49179										
OR2L13	284521	broad.mit.edu	37	chr1	248263294	248263294	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgtaagtacaagcctctttcTccttttccctttcattggca	5	12	3	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:248263294T>C	uc001ids.2	+	3	954	c.617T>C	c.(616-618)CTC>CCC	p.L206P		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	206	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			AGCCTCTTTCTCCTTTTCCCT	0.443													35	78	---	---	---	---	PASS	C	248263294	C	C	248263294	3	2	138	1	0	0	0	0	1	0	0	0	11006	1551	54	5	619	5	OR2L13	1	248263294	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	151048	248263294	987327	41	49180										
OR2M4	26245	broad.mit.edu	37	chr1	248402623	248402623	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gctatatgtcaccctcttcaGtacaccatcctcatgaatcc	4	15	4	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:248402623G>C	uc010pzh.1	+	1	393	c.393G>C	c.(391-393)CAG>CAC	p.Q131H		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ACCCTCTTCAGTACACCATCC	0.473													35	77	---	---	---	---	PASS	C	248402623	C	C	248402623	3	2	138	1	0	0	0	0	1	0	0	0	11012	1020	36	4	395	4	OR2M4	1	248402623	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	139329	248402623	847998	42	49181										
OR2T33	391195	broad.mit.edu	37	chr1	248436434	248436434	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccttcttgcgggcttctgtaGagcgcatgtgcagaacagca	12	11	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr1:248436434G>T	uc010pzi.1	-	1	683	c.683C>A	c.(682-684)TCT>TAT	p.S228Y		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	228	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GGCTTCTGTAGAGCGCATGTG	0.512													9	45	---	---	---	---	PASS	T	248436434	T	T	248436434	3	4	138	1	0	0	0	0	1	0	0	0	11024	942	33	2	282	2	OR2T33	1	248436434	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	33811	248436434	814187	43	49182										
ROCK2	9475	broad.mit.edu	37	chr2	11426670	11426670	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaaacactttcttaccaactGcacttcaccaaaagcacctc	2	15	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:11426670G>A	uc002rbd.1	-	3	768	c.319C>T	c.(319-321)CAG>TAG	p.Q107*		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	107	Protein kinase.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		CTTACCAACTGCACTTCACCA	0.318													11	187	---	---	---	---	PASS	A	11426670	A	A	11426670	4	1	138	1	0	0	0	0	0	1	0	0	13518	1328	46	3	3971	3	ROCK2	2	11426670	Nonsense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08		11426670	231772703	44	49183										
MSGN1	343930	broad.mit.edu	37	chr2	17997991	17997991	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agctgtggctgggctgccctGtgagcacggcggggccagca	18	12	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:17997991G>T	uc010yjt.1	+	1	206	c.206G>T	c.(205-207)TGT>TTT	p.C69F		NM_001105569	NP_001099039	A6NI15	MSGN1_HUMAN	mesogenin 1	69					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GGGCTGCCCTGTGAGCACGGC	0.617													17	96	---	---	---	---	PASS	T	17997991	T	T	17997991	3	4	138	1	0	0	0	0	1	0	0	0	9869	1377	48	3	208	3	MSGN1	2	17997991	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	6571321	17997991	225201382	45	49184										
NLRC4	58484	broad.mit.edu	37	chr2	32477621	32477621	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcatcctgctccaccttctcGcagcaaatgatgtttacttc	6	14	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:32477621G>T	uc002roi.2	-	3	375	c.129C>A	c.(127-129)TGC>TGA	p.C43*	NLRC4_uc002roj.1_Nonsense_Mutation_p.C43*|NLRC4_uc010ezt.1_Nonsense_Mutation_p.C43*	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	43	CARD.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					CCACCTTCTCGCAGCAAATGA	0.403													18	165	---	---	---	---	PASS	T	32477621	T	T	32477621	4	4	138	1	0	0	0	0	0	1	0	0	10469	1079	38	1	2973	1	NLRC4	2	32477621	Nonsense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	14479630	32477621	210721752	46	49185										
BCL11A	53335	broad.mit.edu	37	chr2	60688573	60688573	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctcctcttcttcctcttcctCgtcgtcctcctcttcctcct	2	21	4	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:60688573C>T	uc002sae.1	-	4	1702	c.1474G>A	c.(1474-1476)GAG>AAG	p.E492K	BCL11A_uc002sab.2_Missense_Mutation_p.E492K|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.E161K|BCL11A_uc010ypj.1_Missense_Mutation_p.E458K|BCL11A_uc002sad.1_Missense_Mutation_p.E340K|BCL11A_uc002saf.1_Missense_Mutation_p.E458K	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	492	Glu-rich.				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			tcctcttcctcgtcgtcctcc	0.428			T	IGH@	B-CLL								4	28	---	---	---	---	PASS	T	60688573	T	T	60688573	3	4	138	1	0	0	0	0	1	0	0	0	1363	893	31	2	1143	2	BCL11A	2	60688573	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	28210952	60688573	182510800	47	49186										
MTHFD2	10797	broad.mit.edu	37	chr2	74425778	74425778	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cggcgcggtctatggctgcgActtctctaatgtctgctttg	12	11	3	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:74425778A>G	uc002skk.2	+	1	89	c.10A>G	c.(10-12)ACT>GCT	p.T4A	MTHFD2_uc002skj.2_5'UTR|MTHFD2_uc010yro.1_5'UTR|MTHFD2_uc010ffb.2_Missense_Mutation_p.T4A|MTHFD2_uc010yrp.1_5'UTR	NM_006636	NP_006627	P13995	MTDC_HUMAN	methylenetetrahydrofolate dehydrogenase 2	4					folic acid-containing compound biosynthetic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	magnesium ion binding|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NAD+) activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|phosphate binding|protein binding				0					NADH(DB00157)|Tetrahydrofolic acid(DB00116)	TATGGCTGCGACTTCTCTAAT	0.701													6	18	---	---	---	---	PASS	G	74425778	G	G	74425778	3	3	138	1	0	0	0	0	1	0	0	0	9929	275	10	5	12	5	MTHFD2	2	74425778	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	13737205	74425778	168773595	48	49187										
REG1B	5968	broad.mit.edu	37	chr2	79312345	79312345	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccatttttcagcttcctctaGtttttgaacttgcaaacaaa	4	10	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:79312345G>T	uc002sny.2	-	6	610	c.498C>A	c.(496-498)AAC>AAA	p.N166K		NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	166					cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						GCTTCCTCTAGTTTTTGAACT	0.378													37	64	---	---	---	---	PASS	T	79312345	T	T	79312345	3	4	138	1	0	0	0	0	1	0	0	0	13211	1020	36	3	6	3	REG1B	2	79312345	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	4886567	79312345	163887028	49	49188										
CTNNA2	1496	broad.mit.edu	37	chr2	80620418	80620418	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aagagatctaaggagacaggTactattttttatttttactt	7	4	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:80620418T>C	uc010ysh.1	+	7	1142	c.1137_splice	c.e7+2	p.Q379_splice	CTNNA2_uc010yse.1_Splice_Site_p.Q379_splice|CTNNA2_uc010ysf.1_Splice_Site_p.Q379_splice|CTNNA2_uc010ysg.1_Splice_Site_p.Q379_splice|CTNNA2_uc010ysi.1_Splice_Site_p.Q11_splice	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1						axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						AGGAGACAGGTACTATTTTTT	0.343													13	157	---	---	---	---	PASS	C	80620418	C	C	80620418	5	2	138	1	0	0	0	0	0	0	1	0	4013	1652	57	5	957	5	CTNNA2	2	80620418	Splice_Site	SNP	T	TCGA-63-6202-01A-11D-1817-08	1308073	80620418	162578955	50	49189										
RPIA	22934	broad.mit.edu	37	chr2	89049497	89049497	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tttctgtcctttgtcctgcaGgtgtggtggacacaggccta	12	10	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:89049497G>T	uc002ste.2	+	9	880	c.839_splice	c.e9-1	p.G280_splice		NM_144563	NP_653164	P49247	RPIA_HUMAN	ribose 5-phosphate isomerase A						pentose-phosphate shunt, non-oxidative branch	cytosol	ribose-5-phosphate isomerase activity			ovary(1)	1		Acute lymphoblastic leukemia(2;0.000456)|all_hematologic(2;0.00287)				TTGTCCTGCAGGTGTGGTGGA	0.478													21	61	---	---	---	---	PASS	T	89049497	T	T	89049497	5	4	138	1	0	0	0	0	0	0	1	0	13553	1014	35	3	872	3	RPIA	2	89049497	Splice_Site	SNP	G	TCGA-63-6202-01A-11D-1817-08	8429079	89049497	154149876	51	49190										
ZAP70	7535	broad.mit.edu	37	chr2	98349354	98349354	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttcccctgccaggctgaggcCgcggaaggagcagggcacat	15	13	0	1	rs56403250		TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:98349354C>T	uc002syd.1	+	5	779	c.572C>T	c.(571-573)CCG>CTG	p.P191L	ZAP70_uc010yvf.1_Missense_Mutation_p.P191L|ZAP70_uc002sye.1_Missense_Mutation_p.P81L|ZAP70_uc002syf.1_5'Flank	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	191	SH2 2.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						AGGCTGAGGCCGCGGAAGGAG	0.637													6	63	---	---	---	---	PASS	T	98349354	T	T	98349354	3	4	138	1	0	0	0	0	1	0	0	0	17511	652	23	1	582	1	ZAP70	2	98349354	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	9299857	98349354	144850019	52	49191										
IL1R2	7850	broad.mit.edu	37	chr2	102625053	102625053	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gagcaatgttgcgcttgtacGtgttggtaatgggagtttct	14	5	1	0	rs148522700		TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:102625053G>T	uc002tbm.2	+	2	245	c.16G>T	c.(16-18)GTG>TTG	p.V6L	IL1R2_uc002tbn.2_Missense_Mutation_p.V6L|IL1R2_uc002tbo.1_Missense_Mutation_p.V6L	NM_004633	NP_004624	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II precursor	6					immune response	integral to membrane|plasma membrane	interleukin-1, Type II, blocking receptor activity			ovary(1)|breast(1)	2					Anakinra(DB00026)	GCGCTTGTACGTGTTGGTAAT	0.532													28	300	---	---	---	---	PASS	T	102625053	T	T	102625053	3	4	138	1	0	0	0	0	1	0	0	0	7659	1145	40	1	18	1	IL1R2	2	102625053	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	4275699	102625053	140574320	53	49192										
SLC9A4	389015	broad.mit.edu	37	chr2	103148810	103148810	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgatgacagcagtgatccagGatccccatccatcacgttca	8	13	2	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:103148810G>T	uc002tbz.3	+	12	2517	c.2060G>T	c.(2059-2061)GGA>GTA	p.G687V		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	687	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						AGTGATCCAGGATCCCCATCC	0.453													6	126	---	---	---	---	PASS	T	103148810	T	T	103148810	3	4	138	1	0	0	0	0	1	0	0	0	14716	1174	41	2	2106	2	SLC9A4	2	103148810	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	523757	103148810	140050563	54	49193										
SCTR	6344	broad.mit.edu	37	chr2	120204407	120204407	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tctggggagaaggcgaagacGatgtagtggatgccaaagag	17	5	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:120204407G>A	uc002tma.2	-	11	1294	c.1068C>T	c.(1066-1068)ATC>ATT	p.I356I	SCTR_uc002tlz.2_Silent_p.I178I	NM_002980	NP_002971	P47872	SCTR_HUMAN	secretin receptor precursor	356	Helical; Name=6; (Potential).				digestion|excretion	integral to plasma membrane	secretin receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3					Secretin(DB00021)	AGGCGAAGACGATGTAGTGGA	0.592													19	133	---	---	---	---	PASS	A	120204407	A	A	120204407	2	1	138	1	0	0	0	0	0	0	0	1	13943	1048	37	2		2	SCTR	2	120204407	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	17055597	120204407	122994966	55	49194										
POTEF	728378	broad.mit.edu	37	chr2	130832686	130832686	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctcgttgtagaaggtgtggtGccagatcttctccatgtcat	11	9	3	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:130832686G>T	uc010fmh.2	-	17	2759	c.2359C>A	c.(2359-2361)CAC>AAC	p.H787N		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	787	Actin-like.					cell cortex	ATP binding			skin(3)|ovary(2)	5						AAGGTGTGGTGCCAGATCTTC	0.592													25	72	---	---	---	---	PASS	T	130832686	T	T	130832686	3	4	138	1	0	0	0	0	1	0	0	0	12265	1319	46	3	872	3	POTEF	2	130832686	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	10628279	130832686	112366687	56	49195										
POTEF	728378	broad.mit.edu	37	chr2	130872836	130872836	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	caaggacattaagttgacatCgtctgtccagcaggagtttt	10	8	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:130872836C>T	uc010fmh.2	-	4	987	c.587G>A	c.(586-588)CGA>CAA	p.R196Q		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	196	ANK 1.					cell cortex	ATP binding			skin(3)|ovary(2)	5						AAGTTGACATCGTCTGTCCAG	0.413													4	123	---	---	---	---	PASS	T	130872836	T	T	130872836	3	4	138	1	0	0	0	0	1	0	0	0	12265	884	31	2	2696	2	POTEF	2	130872836	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	40150	130872836	112326537	57	49196										
CCDC115	84317	broad.mit.edu	37	chr2	131098596	131098596	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tctggggtcttagtggggccCttgcgcctccgcagacctga	14	13	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:131098596C>A	uc002tqy.1	-	4	539	c.315G>T	c.(313-315)AAG>AAT	p.K105N	CCDC115_uc002tqw.1_Missense_Mutation_p.K97N|CCDC115_uc010zaf.1_Missense_Mutation_p.K100N|CCDC115_uc002tqx.2_Missense_Mutation_p.K100N|CCDC115_uc002tqz.1_Missense_Mutation_p.K105N|IMP4_uc002tra.1_5'Flank	NM_032357	NP_115733	Q96NT0	CC115_HUMAN	coiled-coil domain containing 115	105						endosome|lysosome					0	Colorectal(110;0.1)					TAGTGGGGCCCTTGCGCCTCC	0.498													8	15	---	---	---	---	PASS	A	131098596	A	A	131098596	3	1	138	1	0	0	0	0	1	0	0	0	2752	680	24	3	235	3	CCDC115	2	131098596	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	225760	131098596	112100777	58	49197										
LCT	3938	broad.mit.edu	37	chr2	136570498	136570498	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgtagtggtgccaagttctgGcatgagccttgaggaccaag	14	8	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:136570498G>C	uc002tuu.1	-	7	1747	c.1736C>G	c.(1735-1737)GCC>GGC	p.A579G		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	579	Extracellular (Potential).|4 X approximate repeats.|2.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CCAAGTTCTGGCATGAGCCTT	0.478													11	25	---	---	---	---	PASS	C	136570498	C	C	136570498	3	2	138	1	0	0	0	0	1	0	0	0	8693	1203	42	4	4091	4	LCT	2	136570498	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	5471902	136570498	106628875	59	49198										
THSD7B	80731	broad.mit.edu	37	chr2	138400099	138400099	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttatcattatgccaacccaaGgagaaggacggccatgcccc	9	13	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:138400099G>T	uc002tva.1	+	20	3754	c.3754G>T	c.(3754-3756)GGA>TGA	p.G1252*	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GCCAACCCAAGGAGAAGGACG	0.507													8	102	---	---	---	---	PASS	T	138400099	T	T	138400099	4	4	138	1	0	0	0	0	0	1	0	0	15877	1001	35	3	3831	3	THSD7B	2	138400099	Nonsense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1829601	138400099	104799274	60	49199										
LRP1B	53353	broad.mit.edu	37	chr2	141243020	141243020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cttcaatgattcttttttctGtgtcagaccaatagaggttt	7	7	4	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:141243020G>T	uc002tvj.1	-	59	10289	c.9317C>A	c.(9316-9318)ACA>AAA	p.T3106K		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3106	Extracellular (Potential).|LDL-receptor class B 29.				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)		TCTTTTTTCTGTGTCAGACCA	0.388										TSP Lung(27;0.18)			17	45	---	---	---	---	PASS	T	141243020	T	T	141243020	3	4	138	1	0	0	0	0	1	0	0	0	8955	1377	48	3	4614	3	LRP1B	2	141243020	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	2842921	141243020	101956353	61	49200										
ZEB2	9839	broad.mit.edu	37	chr2	145157138	145157138	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cagtagtcaagctctggaggCaagctttggcttcattgact	11	9	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:145157138C>A	uc002tvu.2	-	8	2096	c.1616G>T	c.(1615-1617)TGC>TTC	p.C539F	ZEB2_uc002tvv.2_Missense_Mutation_p.C533F|ZEB2_uc010zbm.1_Missense_Mutation_p.C510F|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.C568F	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	539						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		GCTCTGGAGGCAAGCTTTGGC	0.393													30	66	---	---	---	---	PASS	A	145157138	A	A	145157138	3	1	138	1	0	0	0	0	1	0	0	0	17621	710	25	3	2040	3	ZEB2	2	145157138	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	3914118	145157138	98042235	62	49201										
SCN1A	6323	broad.mit.edu	37	chr2	166892837	166892837	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttgttgtttagatcatcaagTggtttaatttcatctaaaat	6	4	4	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:166892837T>C	uc010zcz.1	-	16	3135	c.3117A>G	c.(3115-3117)CCA>CCG	p.P1039P	SCN1A_uc002udo.3_Silent_p.P919P|SCN1A_uc010fpk.2_Silent_p.P891P	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1050						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GATCATCAAGTGGTTTAATTT	0.303													4	58	---	---	---	---	PASS	C	166892837	C	C	166892837	2	2	138	1	0	0	0	0	0	0	0	1	13914	1683	59	5		5	SCN1A	2	166892837	Silent	SNP	T	TCGA-63-6202-01A-11D-1817-08	21735699	166892837	76306536	63	49202										
XIRP2	129446	broad.mit.edu	37	chr2	168102211	168102211	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttgataagaataactatataCgaacagtaagtgtcaatgaa	7	4	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:168102211C>T	uc002udx.2	+	8	4327	c.4309C>T	c.(4309-4311)CGA>TGA	p.R1437*	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Nonsense_Mutation_p.R1262*|XIRP2_uc010fpq.2_Nonsense_Mutation_p.R1215*|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1262					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TAACTATATACGAACAGTAAG	0.338													4	52	---	---	---	---	PASS	T	168102211	T	T	168102211	4	4	138	1	0	0	0	0	0	1	0	0	17427	528	19	1	4339	1	XIRP2	2	168102211	Nonsense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1209374	168102211	75097162	64	49203										
XIRP2	129446	broad.mit.edu	37	chr2	168106300	168106300	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aggaagataagctcaagatgGttcccaggaagcaaagagaa	12	6	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:168106300G>T	uc002udx.2	+	8	8416	c.8398G>T	c.(8398-8400)GTT>TTT	p.V2800F	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.V2625F|XIRP2_uc010fpq.2_Missense_Mutation_p.V2578F|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.V146F	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2625					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GCTCAAGATGGTTCCCAGGAA	0.413													10	56	---	---	---	---	PASS	T	168106300	T	T	168106300	3	4	138	1	0	0	0	0	1	0	0	0	17427	1261	44	3	8428	3	XIRP2	2	168106300	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	4089	168106300	75093073	65	49204										
ZDBF2	57683	broad.mit.edu	37	chr2	207172970	207172970	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ataggagaaatgaagctaagGgttttgaaattatgtatgat	11	1	0	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:207172970G>A	uc002vbp.2	+	5	3968	c.3718G>A	c.(3718-3720)GGT>AGT	p.G1240S		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1240							nucleic acid binding|zinc ion binding			ovary(3)	3						TGAAGCTAAGGGTTTTGAAAT	0.428													5	46	---	---	---	---	PASS	A	207172970	A	A	207172970	3	1	138	1	0	0	0	0	1	0	0	0	17596	1232	43	3	3728	3	ZDBF2	2	207172970	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	39066670	207172970	36026403	66	49205										
PIKFYVE	200576	broad.mit.edu	37	chr2	209141537	209141537	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	taaaacgcctcaaggaaatcAtggaggggaaaagccaggta	12	7	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:209141537A>G	uc002vcz.2	+	4	582	c.424A>G	c.(424-426)ATG>GTG	p.M142V	PIKFYVE_uc010fun.1_5'UTR|PIKFYVE_uc002vcy.1_Missense_Mutation_p.M142V|PIKFYVE_uc002vcv.2_Intron|PIKFYVE_uc002vcw.2_Missense_Mutation_p.M142V|PIKFYVE_uc002vcx.2_Intron	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	142					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						CAAGGAAATCATGGAGGGGAA	0.458													7	42	---	---	---	---	PASS	G	209141537	G	G	209141537	3	3	138	1	0	0	0	0	1	0	0	0	11924	217	8	5	434	5	PIKFYVE	2	209141537	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	1968567	209141537	34057836	67	49206										
PIKFYVE	200576	broad.mit.edu	37	chr2	209190212	209190212	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	acccttcattccattccctgAttgagggacgagggcatgag	11	11	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:209190212A>T	uc002vcz.2	+	20	2835	c.2677A>T	c.(2677-2679)ATT>TTT	p.I893F	PIKFYVE_uc010fun.1_Missense_Mutation_p.I574F|PIKFYVE_uc002vcy.1_Missense_Mutation_p.I837F	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	893					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						CCATTCCCTGATTGAGGGACG	0.493													17	77	---	---	---	---	PASS	T	209190212	T	T	209190212	3	4	138	1	0	0	0	0	1	0	0	0	11924	333	12	5	2762	5	PIKFYVE	2	209190212	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	48675	209190212	34009161	68	49207										
SPHKAP	80309	broad.mit.edu	37	chr2	228996729	228996729	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtgatggagttccccgggccGcttcctgagctgccacagcc	13	15	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:228996729G>C	uc002vpq.2	-	2	152	c.105C>G	c.(103-105)AGC>AGG	p.S35R	SPHKAP_uc002vpp.2_Missense_Mutation_p.S35R|SPHKAP_uc010zlx.1_Missense_Mutation_p.S35R	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	35						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TCCCCGGGCCGCTTCCTGAGC	0.468													11	144	---	---	---	---	PASS	C	228996729	C	C	228996729	3	2	138	1	0	0	0	0	1	0	0	0	15047	1078	38	4	5041	4	SPHKAP	2	228996729	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	19806517	228996729	14202644	69	49208										
NEU4	129807	broad.mit.edu	37	chr2	242757900	242757900	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gctgtagacccccgtggaggCcaggtgcctggtgggccctt	16	13	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr2:242757900C>A	uc010fzr.2	+	4	1067	c.981C>A	c.(979-981)GGC>GGA	p.G327G	NEU4_uc002wcl.2_RNA|NEU4_uc002wcm.2_Silent_p.G327G|NEU4_uc002wcn.1_Silent_p.G339G|NEU4_uc002wco.1_Silent_p.G327G|NEU4_uc002wcp.1_Silent_p.G339G	NM_080741	NP_542779	Q8WWR8	NEUR4_HUMAN	sialidase 4	327	Pro-rich.					lysosomal lumen|organelle inner membrane	exo-alpha-sialidase activity|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;3.84e-33)|all cancers(36;8.08e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.41e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0825)		CCCGTGGAGGCCAGGTGCCTG	0.706													4	15	---	---	---	---	PASS	A	242757900	A	A	242757900	2	1	138	1	0	0	0	0	0	0	0	1	10344	726	26	3		3	NEU4	2	242757900	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	13761171	242757900	441473	70	49209										
CNTN6	27255	broad.mit.edu	37	chr3	1415727	1415727	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggattggagaaccaagtgaaCcatcagaattgttaagaact	10	6	1	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:1415727C>A	uc003boz.2	+	16	2332	c.2065C>A	c.(2065-2067)CCA>ACA	p.P689T	CNTN6_uc011asj.1_Missense_Mutation_p.P617T|CNTN6_uc003bpa.2_Missense_Mutation_p.P689T	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	689	Fibronectin type-III 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		ACCAAGTGAACCATCAGAATT	0.373													29	41	---	---	---	---	PASS	A	1415727	A	A	1415727	3	1	138	1	0	0	0	0	1	0	0	0	3645	507	18	3	2123	3	CNTN6	3	1415727	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08		1415727	196606703	71	49210										
WNT7A	7476	broad.mit.edu	37	chr3	13860570	13860570	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttgtagccacgcccacagcaCatgaggtcacagccgctggc	11	15	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:13860570C>A	uc003bye.1	-	4	1226	c.921G>T	c.(919-921)ATG>ATT	p.M307I		NM_004625	NP_004616	O00755	WNT7A_HUMAN	wingless-type MMTV integration site family,	307					activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3						GCCCACAGCACATGAGGTCAC	0.647													28	35	---	---	---	---	PASS	A	13860570	A	A	13860570	3	1	138	1	0	0	0	0	1	0	0	0	17391	478	17	3	132	3	WNT7A	3	13860570	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	12444843	13860570	184161860	72	49211										
TGFBR2	7048	broad.mit.edu	37	chr3	30713392	30713392	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aacaacatcaaccacaacacAgagctgctgcccattgagct	6	14	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:30713392A>G	uc003ceo.2	+	4	1099	c.717A>G	c.(715-717)ACA>ACG	p.T239T	TGFBR2_uc003cen.2_Silent_p.T264T	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	239	Cytoplasmic (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						ACCACAACACAGAGCTGCTGC	0.542													34	34	---	---	---	---	PASS	G	30713392	G	G	30713392	2	3	138	1	0	0	0	0	0	0	0	1	15819	175	7	5		5	TGFBR2	3	30713392	Silent	SNP	A	TCGA-63-6202-01A-11D-1817-08	16852822	30713392	167309038	73	49212										
CCDC13	152206	broad.mit.edu	37	chr3	42754710	42754710	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atgccttccctggctccaggCgtatcttctccagatgttgc	9	14	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:42754710C>T	uc003cly.3	-	14	1901	c.1817G>A	c.(1816-1818)CGC>CAC	p.R606H		NM_144719	NP_653320	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13	606	Potential.									ovary(1)	1						TGGCTCCAGGCGTATCTTCTC	0.522													39	77	---	---	---	---	PASS	T	42754710	T	T	42754710	3	4	138	1	0	0	0	0	1	0	0	0	2765	768	27	1	342	1	CCDC13	3	42754710	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	12041318	42754710	155267720	74	49213										
UBA7	7318	broad.mit.edu	37	chr3	49847489	49847489	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcatcctcagaagctgcagcTgaggcaggggctctgtaggc	15	11	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:49847489T>A	uc003cxr.2	-	14	1932	c.1761A>T	c.(1759-1761)TCA>TCT	p.S587S		NM_003335	NP_003326	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7	587					ISG15-protein conjugation|negative regulation of type I interferon production	cytosol	ATP binding|ISG15 activating enzyme activity|ligase activity			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		AAGCTGCAGCTGAGGCAGGGG	0.602													33	43	---	---	---	---	PASS	A	49847489	A	A	49847489	2	1	138	1	0	0	0	0	0	0	0	1	16830	1567	55	5		5	UBA7	3	49847489	Silent	SNP	T	TCGA-63-6202-01A-11D-1817-08	7092779	49847489	148174941	75	49214										
GNAT1	2779	broad.mit.edu	37	chr3	50231970	50231970	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcctgcacctgttcaacagcAtctgcaaccaccgctacttc	6	17	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:50231970A>G	uc003cym.2	+	7	861	c.745A>G	c.(745-747)ATC>GTC	p.I249V	GNAT1_uc003cyl.2_Missense_Mutation_p.I249V	NM_144499	NP_653082	P11488	GNAT1_HUMAN	rod-type transducin alpha subunit	249					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|negative regulation of cyclic-nucleotide phosphodiesterase activity|rhodopsin mediated phototransduction|sensory perception of umami taste	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	acyl binding|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GDP binding|GTP binding|GTPase activity|protein kinase binding|signal transducer activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		GTTCAACAGCATCTGCAACCA	0.592											OREG0015580	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	29	---	---	---	---	PASS	G	50231970	G	G	50231970	3	3	138	1	0	0	0	0	1	0	0	0	6511	217	8	5	771	5	GNAT1	3	50231970	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	384481	50231970	147790460	76	49215										
NEK4	6787	broad.mit.edu	37	chr3	52777368	52777368	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cttaggagtacgtaatgcacCtgagtgacgctgcagtcaga	12	9	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:52777368C>A	uc003dfq.3	-	12	2193	c.2004G>T	c.(2002-2004)CAG>CAT	p.Q668H	NEK4_uc011bej.1_Missense_Mutation_p.Q579H|NEK4_uc003dfr.2_Missense_Mutation_p.Q622H	NM_003157	NP_003148	P51957	NEK4_HUMAN	NIMA-related kinase 4	668					cell division|mitosis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.44e-05)|Kidney(197;0.000711)|KIRC - Kidney renal clear cell carcinoma(197;0.00086)|OV - Ovarian serous cystadenocarcinoma(275;0.0513)		CGTAATGCACCTGAGTGACGC	0.517													68	114	---	---	---	---	PASS	A	52777368	A	A	52777368	3	1	138	1	0	0	0	0	1	0	0	0	10326	695	24	3	541	3	NEK4	3	52777368	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	2545398	52777368	145245062	77	49216										
ITIH1	3697	broad.mit.edu	37	chr3	52818337	52818337	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	acggaccgttcccaaatcctCaagaacgtccgcaacgccat	7	16	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:52818337C>A	uc003dfs.2	+	11	1275	c.1251C>A	c.(1249-1251)CTC>CTA	p.L417L	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Silent_p.L18L|ITIH1_uc010hmo.1_5'UTR	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	417	Hyaluronan-binding.|VWFA.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		CCCAAATCCTCAAGAACGTCC	0.602													7	13	---	---	---	---	PASS	A	52818337	A	A	52818337	2	1	138	1	0	0	0	0	0	0	0	1	7903	813	29	2		2	ITIH1	3	52818337	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	40969	52818337	145204093	78	49217										
PRICKLE2	166336	broad.mit.edu	37	chr3	64085468	64085468	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	actgactctgcgctccggaaCtgcatggacgagttaagagt	12	10	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:64085468C>A	uc003dmf.2	-	8	2380	c.1794G>T	c.(1792-1794)CAG>CAT	p.Q598H		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	598						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)		CGCTCCGGAACTGCATGGACG	0.547													56	191	---	---	---	---	PASS	A	64085468	A	A	64085468	3	1	138	1	0	0	0	0	1	0	0	0	12487	564	20	3	744	3	PRICKLE2	3	64085468	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	11267131	64085468	133936962	79	49218										
ROBO2	6092	broad.mit.edu	37	chr3	77626709	77626709	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	acaatagcacaagtattagtGtttcctgggatcctcctcct	7	11	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:77626709G>T	uc003dpy.3	+	15	2915	c.2272G>T	c.(2272-2274)GTT>TTT	p.V758F	ROBO2_uc003dpz.2_Missense_Mutation_p.V762F|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.V762F	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	758	Fibronectin type-III 3.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		AAGTATTAGTGTTTCCTGGGA	0.463													15	40	---	---	---	---	PASS	T	77626709	T	T	77626709	3	4	138	1	0	0	0	0	1	0	0	0	13514	1377	48	3	2332	3	ROBO2	3	77626709	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	13541241	77626709	120395721	80	49219										
EPHA6	285220	broad.mit.edu	37	chr3	97251212	97251212	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atattttaaggtgaatttggAgaagtctgtagtgggcgttt	13	2	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:97251212A>T	uc010how.1	+	11	2254	c.2211A>T	c.(2209-2211)GGA>GGT	p.G737G	EPHA6_uc011bgo.1_RNA|EPHA6_uc011bgp.1_Silent_p.G103G|EPHA6_uc003drs.3_Silent_p.G129G|EPHA6_uc003drr.3_Silent_p.G129G|EPHA6_uc003drt.2_Silent_p.G129G|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	642	ATP (By similarity).|Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						GTGAATTTGGAGAAGTCTGTA	0.383													52	69	---	---	---	---	PASS	T	97251212	T	T	97251212	2	4	138	1	0	0	0	0	0	0	0	1	5171	291	11	5		5	EPHA6	3	97251212	Silent	SNP	A	TCGA-63-6202-01A-11D-1817-08	19624503	97251212	100771218	81	49220										
CPOX	1371	broad.mit.edu	37	chr3	98309859	98309859	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aagactgtctgatttaccatCtttagtcttcagaacttttc	5	9	4	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:98309859C>A	uc003dsx.2	-	2	790	c.697G>T	c.(697-699)GAT>TAT	p.D233Y	CPOX_uc011bgz.1_Missense_Mutation_p.D233Y	NM_000097	NP_000088	P36551	HEM6_HUMAN	coproporphyrinogen oxidase precursor	233						mitochondrial intermembrane space	coproporphyrinogen oxidase activity|protein homodimerization activity				0						GATTTACCATCTTTAGTCTTC	0.358													13	77	---	---	---	---	PASS	A	98309859	A	A	98309859	3	1	138	1	0	0	0	0	1	0	0	0	3821	913	32	2	691	2	CPOX	3	98309859	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1058647	98309859	99712571	82	49221										
IMPG2	50939	broad.mit.edu	37	chr3	100962939	100962939	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctcagtaatttgttccatatCctcccttaggatggcatctg	7	11	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:100962939C>G	uc003duq.1	-	13	2439	c.2236G>C	c.(2236-2238)GAT>CAT	p.D746H	IMPG2_uc011bhe.1_Missense_Mutation_p.D609H	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	746	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						TGTTCCATATCCTCCCTTAGG	0.403													42	59	---	---	---	---	PASS	G	100962939	G	G	100962939	3	3	138	1	0	0	0	0	1	0	0	0	7729	855	30	2	1517	2	IMPG2	3	100962939	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	2653080	100962939	97059491	83	49222										
POLQ	10721	broad.mit.edu	37	chr3	121206386	121206386	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaagcttgtgtcactaatagGgctgttgtctttgaacccat	9	8	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:121206386G>A	uc003eee.3	-	16	5521	c.5392C>T	c.(5392-5394)CCT>TCT	p.P1798S	POLQ_uc003eed.2_Missense_Mutation_p.P970S	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1798					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TCACTAATAGGGCTGTTGTCT	0.383								DNA_polymerases_(catalytic_subunits)					45	67	---	---	---	---	PASS	A	121206386	A	A	121206386	3	1	138	1	0	0	0	0	1	0	0	0	12208	1232	43	3	2440	3	POLQ	3	121206386	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	20243447	121206386	76816044	84	49223										
POLQ	10721	broad.mit.edu	37	chr3	121208373	121208373	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgagatcctgtgacaatatgCtccacaaaattatcattagt	6	8	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:121208373C>T	uc003eee.3	-	16	3534	c.3405G>A	c.(3403-3405)GAG>GAA	p.E1135E	POLQ_uc003eed.2_Silent_p.E307E	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1135					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TGACAATATGCTCCACAAAAT	0.353								DNA_polymerases_(catalytic_subunits)					4	114	---	---	---	---	PASS	T	121208373	T	T	121208373	2	4	138	1	0	0	0	0	0	0	0	1	12208	796	28	3		3	POLQ	3	121208373	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	1987	121208373	76814057	85	49224										
ADCY5	111	broad.mit.edu	37	chr3	123166600	123166600	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	caggtagggcagctggagcgGgggccgcgccgcgtggaagg	22	10	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:123166600G>T	uc003egh.1	-	1	793	c.793C>A	c.(793-795)CCG>ACG	p.P265T		NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	265					activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		AGCTGGAGCGGGGGCCGCGCC	0.672													21	25	---	---	---	---	PASS	T	123166600	T	T	123166600	3	4	138	1	0	0	0	0	1	0	0	0	297	1232	43	3	3076	3	ADCY5	3	123166600	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1958227	123166600	74855830	86	49225										
COL6A6	131873	broad.mit.edu	37	chr3	130289907	130289907	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tccagaatgaccaagccatgGgtggcagtacttatactgct	10	10	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:130289907G>T	uc010htl.2	+	6	2678	c.2647G>T	c.(2647-2649)GGT>TGT	p.G883C		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	883	VWFA 5.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CCAAGCCATGGGTGGCAGTAC	0.532													16	20	---	---	---	---	PASS	T	130289907	T	T	130289907	3	4	138	1	0	0	0	0	1	0	0	0	3703	1232	43	3	2669	3	COL6A6	3	130289907	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	7123307	130289907	67732523	87	49226										
MRPL3	11222	broad.mit.edu	37	chr3	131208878	131208878	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agattttaactgtctgtttcGgcggcaatccaagttcccgg	10	10	1	1	rs148638602		TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:131208878G>A	uc003eoh.2	-	5	679	c.515C>T	c.(514-516)CCG>CTG	p.P172L	MRPL3_uc011blo.1_Missense_Mutation_p.P67L|MRPL3_uc011blp.1_Missense_Mutation_p.P199L	NM_007208	NP_009139	P09001	RM03_HUMAN	mitochondrial ribosomal protein L3	172					translation	mitochondrial large ribosomal subunit	RNA binding|structural constituent of ribosome				0						TGTCTGTTTCGGCGGCAATCC	0.353													23	32	---	---	---	---	PASS	A	131208878	A	A	131208878	3	1	138	1	0	0	0	0	1	0	0	0	9793	1116	39	1	555	1	MRPL3	3	131208878	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	918971	131208878	66813552	88	49227										
ZIC1	7545	broad.mit.edu	37	chr3	147130324	147130324	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggggagaagcccttcaagtgCgagtttgagggctgtgaccg	17	8	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:147130324C>A	uc003ewe.2	+	2	1721	c.1002C>A	c.(1000-1002)TGC>TGA	p.C334*		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	334	C2H2-type 4.				behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCTTCAAGTGCGAGTTTGAGG	0.493													20	55	---	---	---	---	PASS	A	147130324	A	A	147130324	4	1	138	1	0	0	0	0	0	1	0	0	17675	776	27	1	1008	1	ZIC1	3	147130324	Nonsense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	15921446	147130324	50892106	89	49228										
SCHIP1	29970	broad.mit.edu	37	chr3	159606684	159606684	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccgacctgagagacatgactAttgggcagctacaagtgata	11	9	0	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:159606684A>G	uc003fcs.1	+	6	1336	c.1270A>G	c.(1270-1272)ATT>GTT	p.I424V	SCHIP1_uc003fcq.1_Missense_Mutation_p.I500V|SCHIP1_uc003fcr.1_Missense_Mutation_p.I413V|SCHIP1_uc003fct.1_Missense_Mutation_p.I411V|SCHIP1_uc010hvz.1_Missense_Mutation_p.I384V|SCHIP1_uc003fcu.1_Missense_Mutation_p.I181V|SCHIP1_uc003fcv.1_Missense_Mutation_p.I197V	NM_014575	NP_055390	Q9P0W5	SCHI1_HUMAN	schwannomin interacting protein 1	424	Potential.					cytoplasm	identical protein binding|protein binding			ovary(1)|central_nervous_system(1)	2			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			AGACATGACTATTGGGCAGCT	0.378													33	63	---	---	---	---	PASS	G	159606684	G	G	159606684	3	3	138	1	0	0	0	0	1	0	0	0	13904	449	16	5	1292	5	SCHIP1	3	159606684	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	12476360	159606684	38415746	90	49229										
SI	6476	broad.mit.edu	37	chr3	164757675	164757675	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	attaaacctgtagagcctacCtgttttagaacaggagtaat	8	7	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:164757675C>A	uc003fei.2	-	19	2306	c.2244G>T	c.(2242-2244)CAG>CAT	p.Q748H		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	748	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)	TAGAGCCTACCTGTTTTAGAA	0.368										HNSCC(35;0.089)			57	86	---	---	---	---	PASS	A	164757675	A	A	164757675	3	1	138	1	0	0	0	0	1	0	0	0	14297	695	24	3	3359	3	SI	3	164757675	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	5150991	164757675	33264755	91	49230										
SI	6476	broad.mit.edu	37	chr3	164764763	164764763	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaatgttgagcgggtaagaaTgaagcttctcttattaggaa	11	4	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:164764763T>A	uc003fei.2	-	16	1815	c.1753A>T	c.(1753-1755)ATT>TTT	p.I585F		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	585	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)	CGGGTAAGAATGAAGCTTCTC	0.323										HNSCC(35;0.089)			18	60	---	---	---	---	PASS	A	164764763	A	A	164764763	3	1	138	1	0	0	0	0	1	0	0	0	14297	1464	51	5	3862	5	SI	3	164764763	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	7088	164764763	33257667	92	49231										
WDR49	151790	broad.mit.edu	37	chr3	167248976	167248976	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tttttgccctcagtgtcaatCtcaaagttgcggactcccgt	8	12	3	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:167248976C>T	uc003fev.1	-	9	1395	c.1089G>A	c.(1087-1089)GAG>GAA	p.E363E	WDR49_uc003feu.1_Silent_p.E188E|WDR49_uc011bpd.1_Silent_p.E427E|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	363										large_intestine(1)|ovary(1)|skin(1)	3						CAGTGTCAATCTCAAAGTTGC	0.423													25	72	---	---	---	---	PASS	T	167248976	T	T	167248976	2	4	138	1	0	0	0	0	0	0	0	1	17299	912	32	2		2	WDR49	3	167248976	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	2484213	167248976	30773454	93	49232										
SPATA16	83893	broad.mit.edu	37	chr3	172642054	172642054	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	caagattcgcttccccattgTctccatttgcctcactgtat	5	14	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:172642054T>C	uc003fin.3	-	8	1440	c.1282A>G	c.(1282-1284)ACA>GCA	p.T428A		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	428					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			TTCCCCATTGTCTCCATTTGC	0.338													49	68	---	---	---	---	PASS	C	172642054	C	C	172642054	3	2	138	1	0	0	0	0	1	0	0	0	15000	1667	58	5	443	5	SPATA16	3	172642054	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	5393078	172642054	25380376	94	49233										
NLGN1	22871	broad.mit.edu	37	chr3	173997368	173997368	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccctacagagttatttccttGcaatttctccaaaaatgatg	5	10	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:173997368G>T	uc003fio.1	+	6	2000	c.1577G>T	c.(1576-1578)TGC>TTC	p.C526F	NLGN1_uc010hww.1_Missense_Mutation_p.C566F|NLGN1_uc003fip.1_Missense_Mutation_p.C526F	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	543	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TTATTTCCTTGCAATTTCTCC	0.433													3	51	---	---	---	---	PASS	T	173997368	T	T	173997368	3	4	138	1	0	0	0	0	1	0	0	0	10461	1319	46	3	1591	3	NLGN1	3	173997368	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1355314	173997368	24025062	95	49234										
HTR3E	285242	broad.mit.edu	37	chr3	183822014	183822014	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tggaacccagaggaatgtgaGggcatcacgaagatgagtat	14	6	1	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:183822014G>C	uc010hxq.2	+	4	790	c.324G>C	c.(322-324)GAG>GAC	p.E108D	HTR3E_uc003fml.3_Missense_Mutation_p.E93D|HTR3E_uc003fmm.2_Missense_Mutation_p.E123D|HTR3E_uc010hxr.2_Missense_Mutation_p.E108D|HTR3E_uc003fmn.2_Missense_Mutation_p.E108D	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	108	Extracellular (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			AGGAATGTGAGGGCATCACGA	0.483													3	30	---	---	---	---	PASS	C	183822014	C	C	183822014	3	2	138	1	0	0	0	0	1	0	0	0	7448	991	35	4	379	4	HTR3E	3	183822014	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	9824646	183822014	14200416	96	49235										
MASP1	5648	broad.mit.edu	37	chr3	186947550	186947550	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cttccaccttctccctacctAgaagggagcctccgcagaag	8	16	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:186947550A>G	uc003frh.1	-	11	1771	c.1439T>C	c.(1438-1440)CTA>CCA	p.L480P		NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	480	Peptidase S1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		CTCCCTACCTAGAAGGGAGCC	0.552													13	24	---	---	---	---	PASS	G	186947550	G	G	186947550	3	3	138	1	0	0	0	0	1	0	0	0	9322	420	15	5	684	5	MASP1	3	186947550	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	3125536	186947550	11074880	97	49236										
HRASLS	57110	broad.mit.edu	37	chr3	192980878	192980878	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	acagaataaacaataaatacGatgaaacgtacccccctctc	4	12	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr3:192980878G>T	uc003fta.2	+	3	664	c.259G>T	c.(259-261)GAT>TAT	p.D87Y		NM_020386	NP_065119	Q9HDD0	HRSL1_HUMAN	HRAS-like suppressor	87											0	all_cancers(143;9.1e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000159)		CAATAAATACGATGAAACGTA	0.433													35	81	---	---	---	---	PASS	T	192980878	T	T	192980878	3	4	138	1	0	0	0	0	1	0	0	0	7349	1058	37	2	265	2	HRASLS	3	192980878	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	6033328	192980878	5041552	98	49237										
PDE6B	5158	broad.mit.edu	37	chr4	619461	619461	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggagctttctggaccagaacCccgattttgcccgccagtac	10	14	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:619461C>A	uc003gap.2	+	1	99	c.46C>A	c.(46-48)CCC>ACC	p.P16T	PDE6B_uc003gao.3_Missense_Mutation_p.P16T	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	16					cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						ggaccagaaccccgattttgc	0.498													7	86	---	---	---	---	PASS	A	619461	A	A	619461	3	1	138	1	0	0	0	0	1	0	0	0	11646	623	22	3	48	3	PDE6B	4	619461	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08		619461	190534815	99	49238										
GAK	2580	broad.mit.edu	37	chr4	843832	843832	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cagggcccggatgttccgctCcttgccctcaatccagtcca	9	17	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:843832C>A	uc003gbm.3	-	27	3881	c.3682G>T	c.(3682-3684)GAG>TAG	p.E1228*	GAK_uc003gbn.3_Nonsense_Mutation_p.E1149*|GAK_uc003gbk.3_Nonsense_Mutation_p.E25*|GAK_uc010ibi.2_Nonsense_Mutation_p.E453*|GAK_uc010ibj.2_RNA|GAK_uc003gbl.3_Nonsense_Mutation_p.E1081*	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	1228					cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		ATGTTCCGCTCCTTGCCCTCA	0.692													11	11	---	---	---	---	PASS	A	843832	A	A	843832	4	1	138	1	0	0	0	0	0	1	0	0	6195	864	30	2	261	2	GAK	4	843832	Nonsense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	224371	843832	190310444	100	49239										
EVC2	132884	broad.mit.edu	37	chr4	5699345	5699345	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtcttaaagtgacagcattcCactttgggccaaatcataca	7	10	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:5699345C>A	uc003gij.2	-	2	312	c.258G>T	c.(256-258)GTG>GTT	p.V86V	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Silent_p.V6V	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	86						integral to membrane				large_intestine(3)|ovary(2)	5						GACAGCATTCCACTTTGGGCC	0.398													4	40	---	---	---	---	PASS	A	5699345	A	A	5699345	2	1	138	1	0	0	0	0	0	0	0	1	5286	581	21	3		3	EVC2	4	5699345	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	4855513	5699345	185454931	101	49240										
TADA2B	93624	broad.mit.edu	37	chr4	7056326	7056326	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	accagttcatgtcatgcaagGagtttgatgacctttttgaa	9	7	2	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:7056326G>C	uc003gjw.3	+	2	959	c.808G>C	c.(808-810)GAG>CAG	p.E270Q	TADA2B_uc010idi.2_Missense_Mutation_p.E195Q	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	270					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0						GTCATGCAAGGAGTTTGATGA	0.517													3	46	---	---	---	---	PASS	C	7056326	C	C	7056326	3	2	138	1	0	0	0	0	1	0	0	0	15508	1175	41	2	814	2	TADA2B	4	7056326	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1356981	7056326	184097950	102	49241										
CPZ	8532	broad.mit.edu	37	chr4	8602955	8602955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atgggaggtggtggaggccaGctccgagtacatcctgctga	16	9	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:8602955G>T	uc003glm.2	+	3	353	c.227G>T	c.(226-228)AGC>ATC	p.S76I	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_5'UTR|CPZ_uc003glo.2_Missense_Mutation_p.S65I|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	76	FZ.				proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						GTGGAGGCCAGCTCCGAGTAC	0.647													31	37	---	---	---	---	PASS	T	8602955	T	T	8602955	3	4	138	1	0	0	0	0	1	0	0	0	3839	971	34	3	237	3	CPZ	4	8602955	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1546629	8602955	182551321	103	49242										
GABRA2	2555	broad.mit.edu	37	chr4	46312252	46312252	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aatcctccaagtgcattgggCattcagcttgaactgtaagc	9	10	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:46312252C>T	uc003gxc.3	-	5	1170	c.497G>A	c.(496-498)TGC>TAC	p.C166Y	GABRA2_uc010igc.2_Missense_Mutation_p.C166Y|GABRA2_uc011bzc.1_Missense_Mutation_p.C111Y|GABRA2_uc003gxe.2_Missense_Mutation_p.C166Y	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	166	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GTGCATTGGGCATTCAGCTTG	0.378													22	91	---	---	---	---	PASS	T	46312252	T	T	46312252	3	4	138	1	0	0	0	0	1	0	0	0	6161	710	25	3	878	3	GABRA2	4	46312252	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	37709297	46312252	144842024	104	49243										
COX7B2	170712	broad.mit.edu	37	chr4	46737132	46737132	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tctggtgagtgttttacatgGctatgtcttgccatgctttg	11	7	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:46737132G>C	uc003gxf.2	-	3	258	c.78C>G	c.(76-78)AGC>AGG	p.S26R	COX7B2_uc010ige.2_RNA	NM_130902	NP_570972	Q8TF08	CX7B2_HUMAN	cytochrome c oxidase subunit VIIb2 precursor	26	Mitochondrial matrix (By similarity).					integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity				0						GTTTTACATGGCTATGTCTTG	0.438													6	101	---	---	---	---	PASS	C	46737132	C	C	46737132	3	2	138	1	0	0	0	0	1	0	0	0	3783	1194	42	4	171	4	COX7B2	4	46737132	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	424880	46737132	144417144	105	49244										
COMMD8	54951	broad.mit.edu	37	chr4	47462294	47462294	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gataagctcgaccacaaatgCcatcaattattttgtgaaga	7	8	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:47462294C>T	uc003gxi.2	-	2	97	c.89G>A	c.(88-90)GGC>GAC	p.G30D		NM_017845	NP_060315	Q9NX08	COMD8_HUMAN	COMM domain containing 8	30							protein binding				0						ACCACAAATGCCATCAATTAT	0.313													7	50	---	---	---	---	PASS	T	47462294	T	T	47462294	3	4	138	1	0	0	0	0	1	0	0	0	3722	739	26	3	478	3	COMMD8	4	47462294	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	725162	47462294	143691982	106	49245										
NFXL1	152518	broad.mit.edu	37	chr4	47857075	47857075	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcaataacttaaaatatttaCcttttttattcttttacaag	1	6	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:47857075C>A	uc010igh.2	-	20	2598	c.2421_splice	c.e20+1	p.K807_splice	NFXL1_uc003gxo.2_Splice_Site_p.K132_splice|NFXL1_uc003gxp.2_Splice_Site_p.K807_splice|NFXL1_uc003gxq.3_Splice_Site|NFXL1_uc010igi.2_Splice_Site_p.K807_splice	NM_152995	NP_694540	Q6ZNB6	NFXL1_HUMAN	nuclear transcription factor, X-box binding-like							integral to membrane|nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						AAAATATTTACCTTTTTTATT	0.214													21	57	---	---	---	---	PASS	A	47857075	A	A	47857075	5	1	138	1	0	0	0	0	0	0	1	0	10388	521	18	3	329	3	NFXL1	4	47857075	Splice_Site	SNP	C	TCGA-63-6202-01A-11D-1817-08	394781	47857075	143297201	107	49246										
CNGA1	1259	broad.mit.edu	37	chr4	47939383	47939383	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aggaaatcaaccaccacaaaGacatactcagaatccctcac	4	14	3	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:47939383G>A	uc003gxt.3	-	11	1394	c.1128C>T	c.(1126-1128)GTC>GTT	p.V376V	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Silent_p.V445V	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	376	Helical; Name=H5; (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						CCACCACAAAGACATACTCAG	0.428													12	220	---	---	---	---	PASS	A	47939383	A	A	47939383	2	1	138	1	0	0	0	0	0	0	0	1	3596	929	33	2		2	CNGA1	4	47939383	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	82308	47939383	143214893	108	49247										
SCFD2	152579	broad.mit.edu	37	chr4	54011748	54011748	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	acattgctgactccccaatgCtctaaaataaaaaatgatat	4	9	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:54011748C>A	uc003gzu.2	-	5	1447	c.1313G>T	c.(1312-1314)AGC>ATC	p.S438I	SCFD2_uc010igm.2_Missense_Mutation_p.S438I	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2	438					protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			CTCCCCAATGCTCTAAAATAA	0.373													16	105	---	---	---	---	PASS	A	54011748	A	A	54011748	3	1	138	1	0	0	0	0	1	0	0	0	13890	811	28	3	761	3	SCFD2	4	54011748	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	6072365	54011748	137142528	109	49248										
INTU	27152	broad.mit.edu	37	chr4	128605626	128605626	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccaaaccttaaaatttatgtAtggttctttagataggtaag	7	5	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:128605626A>G	uc003ifk.1	+	7	1314	c.1244A>G	c.(1243-1245)TAT>TGT	p.Y415C	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	415										ovary(1)	1						AAATTTATGTATGGTTCTTTA	0.299													11	50	---	---	---	---	PASS	G	128605626	G	G	128605626	3	3	138	1	0	0	0	0	1	0	0	0	7786	449	16	5	1270	5	INTU	4	128605626	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	74593878	128605626	62548650	110	49249										
SPOCK3	50859	broad.mit.edu	37	chr4	167810281	167810281	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aatatatttttgtcacttacCtctcttaacatttctgcttg	3	9	3	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:167810281C>A	uc003iri.1	-	7	739	c.598G>T	c.(598-600)GCA>TCA	p.A200S	SPOCK3_uc011cjp.1_Nonsense_Mutation_p.G197*|SPOCK3_uc011cjq.1_Missense_Mutation_p.A209S|SPOCK3_uc011cjr.1_Missense_Mutation_p.A80S|SPOCK3_uc003irj.1_Missense_Mutation_p.A197S|SPOCK3_uc011cjs.1_Missense_Mutation_p.A149S|SPOCK3_uc011cjt.1_Missense_Mutation_p.A108S|SPOCK3_uc011cju.1_Missense_Mutation_p.A93S|SPOCK3_uc011cjv.1_Missense_Mutation_p.A102S|SPOCK3_uc003irk.3_Missense_Mutation_p.A197S|SPOCK3_uc011cjw.1_RNA	NM_016950	NP_058646	Q9BQ16	TICN3_HUMAN	testican 3 isoform 2	200					signal transduction	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase inhibitor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)		tGTCACTTACCTCTCTTAACA	0.333													14	72	---	---	---	---	PASS	A	167810281	A	A	167810281	3	1	138	1	0	0	0	0	1	0	0	0	15080	695	24	3	736	3	SPOCK3	4	167810281	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	39204655	167810281	23343995	111	49250										
MORF4	10934	broad.mit.edu	37	chr4	174537110	174537110	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cacagctttccgatggtactCaggaagagccacttcataat	8	11	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:174537110C>T	uc011cke.1	-	1	685	c.685G>A	c.(685-687)GAG>AAG	p.E229K		NM_006792	NP_006783			mortality factor 4												0		Prostate(90;0.00201)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0765)|all_hematologic(60;0.107)		all cancers(43;1.88e-18)|Epithelial(43;1.19e-16)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		CGATGGTACTCAGGAAGAGCC	0.403													7	42	---	---	---	---	PASS	T	174537110	T	T	174537110	3	4	138	1	0	0	0	0	1	0	0	0	9705	835	29	2	25	2	MORF4	4	174537110	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	6726829	174537110	16617166	112	49251										
ODZ3	55714	broad.mit.edu	37	chr4	183601758	183601758	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agggccgctgcctgtgtttcAgcggctggaagggcaccgag	17	11	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr4:183601758A>T	uc003ivd.1	+	9	1739	c.1702A>T	c.(1702-1704)AGC>TGC	p.S568C	ODZ3_uc003ive.1_5'UTR	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	568	Extracellular (Potential).|EGF-like 2.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CCTGTGTTTCAGCGGCTGGAA	0.552													12	72	---	---	---	---	PASS	T	183601758	T	T	183601758	3	4	138	1	0	0	0	0	1	0	0	0	10836	188	7	5	1736	5	ODZ3	4	183601758	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	9064648	183601758	7552518	113	49252										
ZDHHC11	79844	broad.mit.edu	37	chr5	850700	850700	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggggtgacggaacactggctCccggagcgggtgtccatctg	17	11	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:850700C>A	uc011cma.1	-	1	402	c.18G>T	c.(16-18)GGG>GGT	p.G6G	ZDHHC11_uc003jbj.2_5'Flank	NM_024786	NP_079062	Q9H8X9	ZDH11_HUMAN	zinc finger, DHHC-type containing 11	6						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)|pancreas(1)	2			Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)			AACACTGGCTCCCGGAGCGGG	0.627													22	163	---	---	---	---	PASS	A	850700	A	A	850700	2	1	138	1	0	0	0	0	0	0	0	1	17598	842	30	2		2	ZDHHC11	5	850700	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08		850700	180064560	114	49253										
FBXL7	23194	broad.mit.edu	37	chr5	15936724	15936724	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcactgcacgcagctcacccAcctctacctgcgccgctgcg	9	20	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:15936724A>T	uc003jfn.1	+	4	1386	c.905A>T	c.(904-906)CAC>CTC	p.H302L		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	302	LRR 5.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						CAGCTCACCCACCTCTACCTG	0.642													6	70	---	---	---	---	PASS	T	15936724	T	T	15936724	3	4	138	1	0	0	0	0	1	0	0	0	5724	159	6	5	919	5	FBXL7	5	15936724	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	15086024	15936724	164978536	115	49254										
CDH18	1016	broad.mit.edu	37	chr5	19747089	19747089	+	Missense_Mutation	SNP	C	A	A													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcacagtaacaatgtatggtCcatctgtgaattttggagcg							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:19747089C>A	uc003jgc.2	-	3	862	c.485G>T	c.(484-486)GGA>GTA	p.G162V	CDH18_uc003jgd.2_Missense_Mutation_p.G162V|CDH18_uc011cnm.1_Missense_Mutation_p.G162V	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	162	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					AATGTATGGTCCATCTGTGAA	0.348													59	127	---	---	---	---	PASS	A	19747089	A	A	19747089	3	1	138	1	0	0	0	0	1	0	0	0	3103	855	30	2	1927	2	CDH18	5	19747089	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	3810365	19747089	161168171	116	49255	902	2								
CDH18	1016	broad.mit.edu	37	chr5	19747090	19747090	+	Missense_Mutation	SNP	C	T	T													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cacagtaacaatgtatggtcCatctgtgaattttggagcgt							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:19747090C>T	uc003jgc.2	-	3	861	c.484G>A	c.(484-486)GGA>AGA	p.G162R	CDH18_uc003jgd.2_Missense_Mutation_p.G162R|CDH18_uc011cnm.1_Missense_Mutation_p.G162R	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	162	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					ATGTATGGTCCATCTGTGAAT	0.348													59	128	---	---	---	---	PASS	T	19747090	T	T	19747090	3	4	138	1	0	0	0	0	1	0	0	0	3103	603	21	3	1928	3	CDH18	5	19747090	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1	19747090	161168170	117	49256	902	2								
PRDM9	56979	broad.mit.edu	37	chr5	23527405	23527405	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agcaataagtcacacctcctCagacaccagaggacacacac	6	15	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:23527405C>A	uc003jgo.2	+	11	2390	c.2208C>A	c.(2206-2208)CTC>CTA	p.L736L		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	736	C2H2-type 9.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						CACACCTCCTCAGACACCAGA	0.587										HNSCC(3;0.000094)			67	77	---	---	---	---	PASS	A	23527405	A	A	23527405	2	1	138	1	0	0	0	0	0	0	0	1	12463	813	29	2		2	PRDM9	5	23527405	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	3780315	23527405	157387855	118	49257										
C7	730	broad.mit.edu	37	chr5	40955528	40955528	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcgaggagaaccgttcatcaGagggggaggtgcaggcttca	17	8	3	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:40955528G>T	uc003jmh.2	+	10	1247	c.1133G>T	c.(1132-1134)AGA>ATA	p.R378I	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	378	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				CCGTTCATCAGAGGGGGAGGT	0.418													92	189	---	---	---	---	PASS	T	40955528	T	T	40955528	3	4	138	1	0	0	0	0	1	0	0	0	2375	942	33	2	1171	2	C7	5	40955528	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	17428123	40955528	139959732	119	49258										
TRIM23	373	broad.mit.edu	37	chr5	64913946	64913946	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctgttacttgtcgatcaaatGggcaacggattgctcttcca	9	10	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:64913946G>A	uc003jty.2	-	2	304	c.218C>T	c.(217-219)CCA>CTA	p.P73L	TRIM23_uc003jtw.2_Missense_Mutation_p.P73L|TRIM23_uc003jtx.2_Missense_Mutation_p.P73L	NM_001656	NP_001647	P36406	TRI23_HUMAN	ADP-ribosylation factor domain protein 1 isoform	73	RING-type; degenerate.				interspecies interaction between organisms|small GTPase mediated signal transduction	Golgi membrane|lysosomal membrane	enzyme activator activity|GDP binding|GTP binding|GTPase activity|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Breast(144;0.0433)|Ovarian(174;0.0545)|Colorectal(97;0.234)		Lung(70;0.00473)		TCGATCAAATGGGCAACGGAT	0.418													19	28	---	---	---	---	PASS	A	64913946	A	A	64913946	3	1	138	1	0	0	0	0	1	0	0	0	16494	1348	47	3	1613	3	TRIM23	5	64913946	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	23958418	64913946	116001314	120	49259										
MARVELD2	153562	broad.mit.edu	37	chr5	68728477	68728477	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccccaggccacattcctaaaCctatcgtgatgcccgactat	6	16	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:68728477C>A	uc003jwq.2	+	4	1365	c.1306C>A	c.(1306-1308)CCT>ACT	p.P436T	MARVELD2_uc010ixf.2_Missense_Mutation_p.P424T|MARVELD2_uc003jwr.1_Intron|MARVELD2_uc003jws.1_RNA	NM_001038603	NP_001033692	Q8N4S9	MALD2_HUMAN	MARVEL domain containing 2 isoform 1	436	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane|tight junction					0		Lung NSC(167;0.000937)|Prostate(74;0.0187)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;7.31e-57)|Epithelial(20;1.05e-52)|all cancers(19;2.63e-48)|Lung(70;0.0183)		CATTCCTAAACCTATCGTGAT	0.458													3	68	---	---	---	---	PASS	A	68728477	A	A	68728477	3	1	138	1	0	0	0	0	1	0	0	0	9318	507	18	3	1316	3	MARVELD2	5	68728477	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	3814531	68728477	112186783	121	49260										
GPR98	84059	broad.mit.edu	37	chr5	90041472	90041472	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tagcagtaaatatccttgatGatacagttccagaaaaagaa	7	6	0	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:90041472G>A	uc003kju.2	+	52	10930	c.10834G>A	c.(10834-10836)GAT>AAT	p.D3612N	GPR98_uc003kjt.2_Missense_Mutation_p.D1318N|GPR98_uc003kjv.2_Missense_Mutation_p.D1212N	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3612	Calx-beta 23.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TATCCTTGATGATACAGTTCC	0.348													21	64	---	---	---	---	PASS	A	90041472	A	A	90041472	3	1	138	1	0	0	0	0	1	0	0	0	6721	1290	45	2	11040	2	GPR98	5	90041472	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	21312995	90041472	90873788	122	49261										
LOX	4015	broad.mit.edu	37	chr5	121412588	121412588	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcagacatatcagcccgtacCtggccagacagttttcctcc	7	15	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:121412588C>A	uc003ksu.2	-	2	1115	c.740G>T	c.(739-741)AGT>ATT	p.S247I	LOX_uc010jcp.2_5'Flank|LOX_uc010jcq.2_5'Flank|LOX_uc011cwk.1_Missense_Mutation_p.S17I|LOX_uc010jcr.2_Intron	NM_002317	NP_002308	P28300	LYOX_HUMAN	lysyl oxidase preproprotein	247	Lysyl-oxidase like.				protein modification process	extracellular space	copper ion binding|protein-lysine 6-oxidase activity			lung(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)|Ovarian(225;0.0814)|Breast(839;0.143)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;2.14e-11)|OV - Ovarian serous cystadenocarcinoma(64;7.87e-10)|all cancers(49;2.49e-09)|COAD - Colon adenocarcinoma(49;0.02)		CAGCCCGTACCTGGCCAGACA	0.602											OREG0016741	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	59	---	---	---	---	PASS	A	121412588	A	A	121412588	3	1	138	1	0	0	0	0	1	0	0	0	8898	695	24	3	537	3	LOX	5	121412588	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	31371116	121412588	59502672	123	49262										
FBN2	2201	broad.mit.edu	37	chr5	127624178	127624178	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaagccttcattgcaattgcAttcaaaactcccaataacat	3	11	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:127624178A>T	uc003kuu.2	-	53	7148	c.6709T>A	c.(6709-6711)TGC>AGC	p.C2237S		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	2237	EGF-like 37; calcium-binding.				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)		TTGCAATTGCATTCAAAACTC	0.378													5	53	---	---	---	---	PASS	T	127624178	T	T	127624178	3	4	138	1	0	0	0	0	1	0	0	0	5703	217	8	5	2081	5	FBN2	5	127624178	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	6211590	127624178	53291082	124	49263										
GDF9	2661	broad.mit.edu	37	chr5	132200015	132200015	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aggtgacccacctcgcccaaCagatagaactttgaaaagcg	9	12	0	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:132200015C>A	uc003kxz.1	-	1	463	c.211G>T	c.(211-213)GTT>TTT	p.V71F	GDF9_uc011cxj.1_Intron|UQCRQ_uc003kya.1_5'Flank	NM_005260	NP_005251	O60383	GDF9_HUMAN	growth differentiation factor 9 precursor	71					female gamete generation|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			skin(1)	1		all_cancers(142;0.105)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CCTCGCCCAACAGATAGAACT	0.507													38	69	---	---	---	---	PASS	A	132200015	A	A	132200015	3	1	138	1	0	0	0	0	1	0	0	0	6319	478	17	3	1161	3	GDF9	5	132200015	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	4575837	132200015	48715245	125	49264										
PCDHA13	56136	broad.mit.edu	37	chr5	140261956	140261956	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtggccagctccactactccGtccccgaggaagcaaaacac	9	16	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:140261956G>A	uc003lif.2	+	1	103	c.103G>A	c.(103-105)GTC>ATC	p.V35I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.V35I|PCDHA13_uc003lid.2_Missense_Mutation_p.V35I	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	35	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCACTACTCCGTCCCCGAGGA	0.667													54	90	---	---	---	---	PASS	A	140261956	A	A	140261956	3	1	138	1	0	0	0	0	1	0	0	0	11523	1145	40	1	105	1	PCDHA13	5	140261956	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	8061941	140261956	40653304	126	49265										
PCDHGA4	56111	broad.mit.edu	37	chr5	140735556	140735556	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtaggcactcggctactcacCgtaaaagccactgatccaga	9	13	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:140735556C>T	uc003ljq.1	+	1	789	c.789C>T	c.(787-789)ACC>ACT	p.T263T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Silent_p.T263T	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	263	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCTACTCACCGTAAAAGCCA	0.458													8	41	---	---	---	---	PASS	T	140735556	T	T	140735556	2	4	138	1	0	0	0	0	0	0	0	1	11556	639	23	1		1	PCDHGA4	5	140735556	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	473600	140735556	40179704	127	49266										
PCDHGB5	56101	broad.mit.edu	37	chr5	140778312	140778312	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttagaccgggaacaacagagTtaccatcgtttagtcctgac	9	10	0	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:140778312T>G	uc003lkf.1	+	1	618	c.618T>G	c.(616-618)AGT>AGG	p.S206R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.S206R	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	206	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACAACAGAGTTACCATCGTT	0.493													15	130	---	---	---	---	PASS	G	140778312	G	G	140778312	3	3	138	1	0	0	0	0	1	0	0	0	11566	1722	60	5	620	5	PCDHGB5	5	140778312	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	42756	140778312	40136948	128	49267										
PPP2R2B	5521	broad.mit.edu	37	chr5	145979881	145979881	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtctcgatggggcggttttcCatgttgagatcccagacttt	12	9	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:145979881C>A	uc003loe.2	-	7	1458	c.933G>T	c.(931-933)ATG>ATT	p.M311I	PPP2R2B_uc010jgm.2_Missense_Mutation_p.M300I|PPP2R2B_uc003log.3_Missense_Mutation_p.M311I|PPP2R2B_uc003lof.3_Missense_Mutation_p.M311I|PPP2R2B_uc003loi.3_Missense_Mutation_p.M314I|PPP2R2B_uc003loh.3_Missense_Mutation_p.M311I|PPP2R2B_uc003loj.3_Missense_Mutation_p.M291I|PPP2R2B_uc003lok.3_Missense_Mutation_p.M300I|PPP2R2B_uc011dbu.1_Missense_Mutation_p.M317I|PPP2R2B_uc011dbv.1_Missense_Mutation_p.M369I	NM_004576	NP_004567	Q00005	2ABB_HUMAN	beta isoform of regulatory subunit B55, protein	311	WD 5.				apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGCGGTTTTCCATGTTGAGAT	0.473													51	84	---	---	---	---	PASS	A	145979881	A	A	145979881	3	1	138	1	0	0	0	0	1	0	0	0	12385	594	21	3	410	3	PPP2R2B	5	145979881	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	5201569	145979881	34935379	129	49268										
SPINK5	11005	broad.mit.edu	37	chr5	147486684	147486684	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atcctgtccgtggcccagatGgcaaaatgcatggaaacaag	11	10	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:147486684G>T	uc003lox.2	+	17	1637	c.1564G>T	c.(1564-1566)GGC>TGC	p.G522C	SPINK5_uc010jgs.1_Missense_Mutation_p.G494C|SPINK5_uc010jgr.2_Missense_Mutation_p.G503C|SPINK5_uc003low.2_Missense_Mutation_p.G522C|SPINK5_uc003loy.2_Missense_Mutation_p.G522C	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	522	Kazal-like 8.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGCCCAGATGGCAAAATGCA	0.488													31	124	---	---	---	---	PASS	T	147486684	T	T	147486684	3	4	138	1	0	0	0	0	1	0	0	0	15061	1348	47	3	1630	3	SPINK5	5	147486684	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1506803	147486684	33428576	130	49269										
CSF1R	1436	broad.mit.edu	37	chr5	149439324	149439324	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gacgcctccctcggggtcctGgccggggctcaggctgggtc	17	15	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:149439324G>T	uc003lrl.2	-	14	2266	c.2071C>A	c.(2071-2073)CAG>AAG	p.Q691K	CSF1R_uc011dcd.1_Intron|CSF1R_uc010jhc.2_Intron|CSF1R_uc003lrm.2_Missense_Mutation_p.Q691K	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	691	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	TCGGGGTCCTGGCCGGGGCTC	0.582													37	49	---	---	---	---	PASS	T	149439324	T	T	149439324	3	4	138	1	0	0	0	0	1	0	0	0	3932	1357	47	3	879	3	CSF1R	5	149439324	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1952640	149439324	31475936	131	49270										
TCOF1	6949	broad.mit.edu	37	chr5	149772327	149772327	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agaccgcagcagagtccagcGaggatgatgtggtggcgcca	16	10	0	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:149772327G>A	uc003lry.2	+	22	3682	c.3574G>A	c.(3574-3576)GAG>AAG	p.E1192K	TCOF1_uc011dch.1_Missense_Mutation_p.E1155K|TCOF1_uc003lrz.2_Missense_Mutation_p.E1154K|TCOF1_uc003lrx.2_Missense_Mutation_p.E1116K|TCOF1_uc003lsa.2_Missense_Mutation_p.E1115K	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	1192					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGAGTCCAGCGAGGATGATGT	0.637													15	25	---	---	---	---	PASS	A	149772327	A	A	149772327	3	1	138	1	0	0	0	0	1	0	0	0	15705	1059	37	2	3685	2	TCOF1	5	149772327	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	333003	149772327	31142933	132	49271										
FAM71B	153745	broad.mit.edu	37	chr5	156590666	156590666	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cccttctctgtggagctctgCagcctataccaaggggaaga	11	12	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:156590666C>G	uc003lwn.2	-	2	710	c.610G>C	c.(610-612)GCA>CCA	p.A204P		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	204						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TGGAGCTCTGCAGCCTATACC	0.488													26	65	---	---	---	---	PASS	G	156590666	G	G	156590666	3	3	138	1	0	0	0	0	1	0	0	0	5608	710	25	4	1211	4	FAM71B	5	156590666	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	6818339	156590666	24324594	133	49272										
ADAM19	8728	broad.mit.edu	37	chr5	156915440	156915440	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cccaccacgcagataatctgGagggggccggggaggaggct	17	11	1	1	rs150381064		TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:156915440G>T	uc003lwz.2	-	21	2447	c.2383C>A	c.(2383-2385)CCA>ACA	p.P795T	ADAM19_uc003lww.1_Missense_Mutation_p.P528T|ADAM19_uc003lwy.2_Missense_Mutation_p.P394T|ADAM19_uc011ddr.1_Missense_Mutation_p.P726T	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	795	Cytoplasmic (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AGATAATCTGGAGGGGGCCGG	0.602													26	46	---	---	---	---	PASS	T	156915440	T	T	156915440	3	4	138	1	0	0	0	0	1	0	0	0	240	1174	41	2	385	2	ADAM19	5	156915440	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	324774	156915440	23999820	134	49273										
ODZ2	57451	broad.mit.edu	37	chr5	167589657	167589657	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	acggtaacgggagatgcacaCtgggtcagaacagctggcag	15	9	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:167589657C>A	uc010jjd.2	+	13	2437	c.2437C>A	c.(2437-2439)CTG>ATG	p.L813M	ODZ2_uc003lzr.3_Missense_Mutation_p.L590M|ODZ2_uc003lzt.3_Missense_Mutation_p.L186M|ODZ2_uc010jje.2_Missense_Mutation_p.L84M|uc003lzs.1_Intron	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		GAGATGCACACTGGGTCAGAA	0.572													7	30	---	---	---	---	PASS	A	167589657	A	A	167589657	3	1	138	1	0	0	0	0	1	0	0	0	10835	564	20	3	2487	3	ODZ2	5	167589657	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	10674217	167589657	13325603	135	49274										
DOCK2	1794	broad.mit.edu	37	chr5	169461446	169461446	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	acccaaccattgccaagtcgGtggagaacttcgtgaacctg	10	12	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:169461446G>T	uc003maf.2	+	35	3591	c.3511G>T	c.(3511-3513)GTG>TTG	p.V1171L	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.V663L	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1171	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGCCAAGTCGGTGGAGAACTT	0.572													12	45	---	---	---	---	PASS	T	169461446	T	T	169461446	3	4	138	1	0	0	0	0	1	0	0	0	4687	1261	44	3	3649	3	DOCK2	5	169461446	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1871789	169461446	11453814	136	49275										
NKX2-5	1482	broad.mit.edu	37	chr5	172659794	172659794	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cccggataggcggggtaggcGttataaccgtagggattgag	17	7	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:172659794G>T	uc003mcm.1	-	2	929	c.753C>A	c.(751-753)AAC>AAA	p.N251K		NM_004387	NP_004378	P52952	NKX25_HUMAN	NK2 transcription factor related, locus 5	251	Ala/Pro-rich.				adult heart development|atrial cardiac muscle cell development|atrial septum morphogenesis|heart looping|hemopoiesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell apoptosis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|outflow tract septum morphogenesis|pharyngeal system development|positive regulation of calcium ion transport via voltage-gated calcium channel activity|positive regulation of cardioblast differentiation|positive regulation of cell proliferation|positive regulation of heart contraction|positive regulation of neuron differentiation|positive regulation of sodium ion transport|positive regulation of survival gene product expression|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of cardiac muscle contraction|right ventricular cardiac muscle tissue morphogenesis|septum secundum development|spleen development|thyroid gland development|vasculogenesis|ventricular septum morphogenesis		chromatin binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CGGGGTAGGCGTTATAACCGT	0.706													5	15	---	---	---	---	PASS	T	172659794	T	T	172659794	3	4	138	1	0	0	0	0	1	0	0	0	10453	1136	40	1	225	1	NKX2-5	5	172659794	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	3198348	172659794	8255466	137	49276										
LMAN2	10960	broad.mit.edu	37	chr5	176764785	176764785	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tctttgcttccaaacacaggCcctagaattataagcagatg	7	10	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:176764785C>T	uc003mge.2	-	4	672	c.435G>A	c.(433-435)GGG>GGA	p.G145G	LMAN2_uc003mgd.2_Silent_p.G145G	NM_006816	NP_006807	Q12907	LMAN2_HUMAN	lectin, mannose-binding 2 precursor	145	Lumenal (Potential).|L-type lectin-like.				protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	metal ion binding|sugar binding				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	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)			CAAACACAGGCCCTAGAATTA	0.522													3	31	---	---	---	---	PASS	T	176764785	T	T	176764785	2	4	138	1	0	0	0	0	0	0	0	1	8838	753	26	3		3	LMAN2	5	176764785	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	4104991	176764785	4150475	138	49277										
ZNF454	285676	broad.mit.edu	37	chr5	178392666	178392666	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtggcttgtgtgagaaagccTttcgggaccaatcagcacta	12	9	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr5:178392666T>A	uc003mjo.1	+	5	1532	c.1261T>A	c.(1261-1263)TTT>ATT	p.F421I	ZNF454_uc010jkz.1_Missense_Mutation_p.F421I	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	421	C2H2-type 9.				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)		TGAGAAAGCCTTTCGGGACCA	0.428													26	18	---	---	---	---	PASS	A	178392666	A	A	178392666	3	1	138	1	0	0	0	0	1	0	0	0	17920	1609	56	5	1275	5	ZNF454	5	178392666	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	1627881	178392666	2522594	139	49278										
C6orf201	404220	broad.mit.edu	37	chr6	4099236	4099236	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgcttattctattaccaggtGagaatcctgaactctctggc	8	10	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:4099236G>A	uc003mwa.3	+	3	856	c.88G>A	c.(88-90)GAG>AAG	p.E30K	C6orf201_uc003mvz.3_RNA|C6orf201_uc011dhw.1_Missense_Mutation_p.E30K|C6orf201_uc003mwb.3_RNA	NM_001085401	NP_001078870	Q7Z4U5	CF201_HUMAN	hypothetical protein LOC404220	30											0	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				ATTACCAGGTGAGAATCCTGA	0.403													37	38	---	---	---	---	PASS	A	4099236	A	A	4099236	3	1	138	1	0	0	0	0	1	0	0	0	2351	1291	45	2	94	2	C6orf201	6	4099236	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08		4099236	167015831	140	49279										
PECI	10455	broad.mit.edu	37	chr6	4131020	4131020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccttgggcaggctgccaaggGcattccatgcgtcccatttg	12	13	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:4131020G>T	uc003mwf.2	-	3	330	c.293C>A	c.(292-294)GCC>GAC	p.A98D	PECI_uc003mwc.2_5'UTR|PECI_uc003mwd.2_Missense_Mutation_p.A68D|PECI_uc003mwe.2_5'UTR|PECI_uc010jnr.1_RNA	NM_206836	NP_996667	O75521	ECI2_HUMAN	peroxisomal D3,D2-enoyl-CoA isomerase isoform 2	98	ACB.				fatty acid metabolic process	mitochondrion|peroxisomal matrix	dodecenoyl-CoA delta-isomerase activity|fatty-acyl-CoA binding				0	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				GCTGCCAAGGGCATTCCATGC	0.453													78	118	---	---	---	---	PASS	T	4131020	T	T	4131020	3	4	138	1	0	0	0	0	1	0	0	0	11716	1203	42	3	923	3	PECI	6	4131020	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	31784	4131020	166984047	141	49280										
JARID2	3720	broad.mit.edu	37	chr6	15496845	15496845	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cccaagaagatgaaaggggcGgctggccccgccgaaggccc	15	14	0	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:15496845G>T	uc003nbj.2	+	7	1633	c.1389G>T	c.(1387-1389)GCG>GCT	p.A463A	JARID2_uc011diu.1_Silent_p.A327A|JARID2_uc011div.1_Silent_p.A291A|JARID2_uc011diw.1_Silent_p.A425A	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	463					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				TGAAAGGGGCGGCTGGCCCCG	0.667													15	21	---	---	---	---	PASS	T	15496845	T	T	15496845	2	4	138	1	0	0	0	0	0	0	0	1	7945	1103	39	1		1	JARID2	6	15496845	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	11365825	15496845	155618222	142	49281										
SCAND3	114821	broad.mit.edu	37	chr6	28543242	28543242	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agcatgtgcaacttccgtagGccttttagactttaatgacc	8	10	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:28543242G>A	uc003nlo.2	-	3	1858	c.1240C>T	c.(1240-1242)CCT>TCT	p.P414S		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	414	Integrase catalytic.				DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ACTTCCGTAGGCCTTTTAGAC	0.383													13	63	---	---	---	---	PASS	A	28543242	A	A	28543242	3	1	138	1	0	0	0	0	1	0	0	0	13876	1203	42	3	2745	3	SCAND3	6	28543242	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	13046397	28543242	142571825	143	49282										
OR2J3	442186	broad.mit.edu	37	chr6	29080239	29080239	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tccagcacttctgcgattatCgtgtgttgatacccatgtca	8	11	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:29080239C>T	uc011dll.1	+	1	572	c.572C>T	c.(571-573)TCG>TTG	p.S191L		NM_001005216	NP_001005216	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTGCGATTATCGTGTGTTGAT	0.458													11	108	---	---	---	---	PASS	T	29080239	T	T	29080239	3	4	138	1	0	0	0	0	1	0	0	0	11004	893	31	2	574	2	OR2J3	6	29080239	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	536997	29080239	142034828	144	49283										
OR12D2	26529	broad.mit.edu	37	chr6	29365010	29365010	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atccatcattttctctgtgaTattaagccattgctaaagct	5	9	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:29365010T>C	uc003nmf.3	+	1	595	c.534T>C	c.(532-534)GAT>GAC	p.D178D		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	178	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTCTCTGTGATATTAAGCCAT	0.478													20	191	---	---	---	---	PASS	C	29365010	C	C	29365010	2	2	138	1	0	0	0	0	0	0	0	1	10931	1403	49	5		5	OR12D2	6	29365010	Silent	SNP	T	TCGA-63-6202-01A-11D-1817-08	284771	29365010	141750057	145	49284										
ZFP57	346171	broad.mit.edu	37	chr6	29641277	29641277	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	acttcccacactgactgcagCtgttagtcagcttgggattg	10	11	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:29641277C>A	uc011dlw.1	-	4	762	c.611G>T	c.(610-612)AGC>ATC	p.S204I	ZFP57_uc003nnl.3_Missense_Mutation_p.S184I	NM_001109809	NP_001103279	Q9NU63	ZFP57_HUMAN	zinc finger protein 57 homolog	120	C2H2-type 2.				DNA methylation involved in embryo development|regulation of gene expression by genetic imprinting|transcription, DNA-dependent		DNA binding|zinc ion binding			ovary(3)|skin(2)	5						CTGACTGCAGCTGTTAGTCAG	0.537													13	123	---	---	---	---	PASS	A	29641277	A	A	29641277	3	1	138	1	0	0	0	0	1	0	0	0	17648	797	28	3	1003	3	ZFP57	6	29641277	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	276267	29641277	141473790	146	49285										
C6orf15	29113	broad.mit.edu	37	chr6	31079265	31079265	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aggaaatgggttattgatacCtgggtatagatgaatattcc	11	4	0	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:31079265C>A	uc003nsk.1	-	2	871	c.871G>T	c.(871-873)GGT>TGT	p.G291C		NM_014070	NP_054789	Q6UXA7	CF015_HUMAN	STG protein precursor	291	Pro-rich.										0						TTATTGATACCTGGGTATAGA	0.527													36	85	---	---	---	---	PASS	A	31079265	A	A	31079265	3	1	138	1	0	0	0	0	1	0	0	0	2336	681	24	3	110	3	C6orf15	6	31079265	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1437988	31079265	140035802	147	49286										
UHRF1BP1	54887	broad.mit.edu	37	chr6	34826796	34826796	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tctgcttatgcatcctgcacCcggtgctgtcgatgctgact	10	13	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:34826796C>A	uc003oju.3	+	14	2897	c.2663C>A	c.(2662-2664)CCC>CAC	p.P888H	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	888										ovary(3)	3						CATCCTGCACCCGGTGCTGTC	0.522													15	78	---	---	---	---	PASS	A	34826796	A	A	34826796	3	1	138	1	0	0	0	0	1	0	0	0	16965	623	22	3	2717	3	UHRF1BP1	6	34826796	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	3747531	34826796	136288271	148	49287										
TREM1	54210	broad.mit.edu	37	chr6	41243864	41243864	+	Nonstop_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttctcgtgggttcgtgggccTagggtacaaatgacctcagc	13	10	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:41243864T>A	uc003oqf.1	-	4	768	c.704A>T	c.(703-705)TAG>TTG	p.*235L	TREM1_uc003oqg.1_3'UTR	NM_018643	NP_061113	Q9NP99	TREM1_HUMAN	triggering receptor expressed on myeloid cells 1	235					blood coagulation|humoral immune response|intracellular signal transduction|leukocyte migration	extracellular region|integral to membrane|intracellular|plasma membrane	receptor activity			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)				Glutathione(DB00143)	TTCGTGGGCCTAGGGTACAAA	0.527													7	62	---	---	---	---	PASS	A	41243864	A	A	41243864	4	1	138	1	0	0	0	0	0	0	0	0	16467	1535	53	5	4	5	TREM1	6	41243864	Nonstop_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	6417068	41243864	129871203	149	49288										
KLC4	89953	broad.mit.edu	37	chr6	43040989	43040989	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgggaccctgcagaggagtgGctctcttggcaagatccggg	16	10	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:43040989G>T	uc003otv.1	+	14	1735	c.1658G>T	c.(1657-1659)GGC>GTC	p.G553V	KLC4_uc003otr.1_RNA|KLC4_uc011dvd.1_Missense_Mutation_p.G476V|KLC4_uc003otw.1_Missense_Mutation_p.G571V|KLC4_uc003otx.1_Missense_Mutation_p.G553V|KLC4_uc003oty.1_Missense_Mutation_p.G553V|KLC4_uc003otz.1_Missense_Mutation_p.G553V	NM_201521	NP_958929	Q9NSK0	KLC4_HUMAN	kinesin-like 8 isoform a	553						cytoplasm|kinesin complex|microtubule	microtubule motor activity|protein binding			skin(3)|ovary(1)	4			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)			CAGAGGAGTGGCTCTCTTGGC	0.557													14	27	---	---	---	---	PASS	T	43040989	T	T	43040989	3	4	138	1	0	0	0	0	1	0	0	0	8336	1203	42	3	1835	3	KLC4	6	43040989	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1797125	43040989	128074078	150	49289										
TMEM63B	55362	broad.mit.edu	37	chr6	44122607	44122607	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggacagcctcatagagaatgAgattcaccagtaaggggagg	14	7	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:44122607A>G	uc003owr.2	+	24	2550	c.2486A>G	c.(2485-2487)GAG>GGG	p.E829G	TMEM63B_uc003ows.2_Missense_Mutation_p.E732G|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	829						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			ATAGAGAATGAGATTCACCAG	0.562													16	42	---	---	---	---	PASS	G	44122607	G	G	44122607	3	3	138	1	0	0	0	0	1	0	0	0	16188	304	11	5	2576	5	TMEM63B	6	44122607	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	1081618	44122607	126992460	151	49290										
GPR115	221393	broad.mit.edu	37	chr6	47678598	47678598	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcagctgaaacatgtacaagCctttctgtggaaaaactctt	7	9	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:47678598C>A	uc003oza.1	+	4	534	c.276C>A	c.(274-276)AGC>AGA	p.S92R	GPR115_uc003oyz.1_Missense_Mutation_p.S149R|GPR115_uc003ozb.1_Missense_Mutation_p.S90R	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	92	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						CATGTACAAGCCTTTCTGTGG	0.393													28	37	---	---	---	---	PASS	A	47678598	A	A	47678598	3	1	138	1	0	0	0	0	1	0	0	0	6632	738	26	3	286	3	GPR115	6	47678598	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	3555991	47678598	123436469	152	49291										
C6orf138	442213	broad.mit.edu	37	chr6	47846323	47846323	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aatggctgtcccatggtcttGcaaggagctttttatacatt	9	8	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:47846323G>T	uc011dwm.1	-	3	2291	c.2206C>A	c.(2206-2208)CAA>AAA	p.Q736K	C6orf138_uc011dwn.1_Missense_Mutation_p.Q500K	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	753						integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						CCATGGTCTTGCAAGGAGCTT	0.428													3	53	---	---	---	---	PASS	T	47846323	T	T	47846323	3	4	138	1	0	0	0	0	1	0	0	0	2332	1328	46	3	287	3	C6orf138	6	47846323	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	167725	47846323	123268744	153	49292										
COL9A1	1297	broad.mit.edu	37	chr6	70981368	70981368	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tggtactcacaacaggtcctAcacggccaagctctccaggg	10	14	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:70981368A>G	uc003pfg.3	-	14	1292	c.1133T>C	c.(1132-1134)GTA>GCA	p.V378A	COL9A1_uc003pfe.3_5'UTR|COL9A1_uc003pff.3_Missense_Mutation_p.V135A	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	378	Triple-helical region (COL3).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						AACAGGTCCTACACGGCCAAG	0.408													10	38	---	---	---	---	PASS	G	70981368	G	G	70981368	3	3	138	1	0	0	0	0	1	0	0	0	3707	391	14	5	1732	5	COL9A1	6	70981368	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	23135045	70981368	100133699	154	49293										
DSE	29940	broad.mit.edu	37	chr6	116756865	116756865	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cactacctgcagaaatcaatAgatctttcctttccttcaag	4	12	3	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:116756865A>T	uc003pws.2	+	6	1428	c.1234A>T	c.(1234-1236)AGA>TGA	p.R412*	DSE_uc011ebg.1_Nonsense_Mutation_p.R431*|DSE_uc003pwt.2_Nonsense_Mutation_p.R412*|DSE_uc003pwu.2_Nonsense_Mutation_p.R79*	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	412					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		AGAAATCAATAGATCTTTCCT	0.433													7	67	---	---	---	---	PASS	T	116756865	T	T	116756865	4	4	138	1	0	0	0	0	0	1	0	0	4774	412	15	5	1252	5	DSE	6	116756865	Nonsense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	45775497	116756865	54358202	155	49294										
TRDN	10345	broad.mit.edu	37	chr6	123892207	123892207	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tctgtgactgtcctcttcagCacttttccgggggatttggg	12	10	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:123892207C>T	uc003pzj.1	-	2	115	c.93G>A	c.(91-93)GTG>GTA	p.V31V	TRDN_uc003pzk.1_Silent_p.V31V|TRDN_uc003pzl.1_Silent_p.V31V|TRDN_uc010ken.2_Silent_p.V31V|TRDN_uc010keo.1_Silent_p.V31V	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	31	Cytoplasmic.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		TCCTCTTCAGCACTTTTCCGG	0.463													26	66	---	---	---	---	PASS	T	123892207	T	T	123892207	2	4	138	1	0	0	0	0	0	0	0	1	16465	697	25	3		3	TRDN	6	123892207	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	7135342	123892207	47222860	156	49295										
C6orf58	352999	broad.mit.edu	37	chr6	127912763	127912763	+	Missense_Mutation	SNP	C	A	A													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tagaagttatggaaataactCctgaaacatttaacttcaaa							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:127912763C>A	uc003qbh.2	+	6	1001	c.989C>A	c.(988-990)TCC>TAC	p.S330Y		NM_001010905	NP_001010905	Q6P5S2	CF058_HUMAN	hypothetical protein LOC352999 precursor	330						extracellular region					0				GBM - Glioblastoma multiforme(226;0.0405)|all cancers(137;0.156)		GGAAATAACTCCTGAAACATT	0.269													8	22	---	---	---	---	PASS	A	127912763	A	A	127912763	3	1	138	1	0	0	0	0	1	0	0	0	2367	855	30	2	1011	2	C6orf58	6	127912763	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	4020556	127912763	43202304	157	49296	903	2								
C6orf58	352999	broad.mit.edu	37	chr6	127912764	127912764	+	Silent	SNP	C	A	A													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agaagttatggaaataactcCtgaaacatttaacttcaaac							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:127912764C>A	uc003qbh.2	+	6	1002	c.990C>A	c.(988-990)TCC>TCA	p.S330S		NM_001010905	NP_001010905	Q6P5S2	CF058_HUMAN	hypothetical protein LOC352999 precursor	330						extracellular region					0				GBM - Glioblastoma multiforme(226;0.0405)|all cancers(137;0.156)		GAAATAACTCCTGAAACATTT	0.269													9	21	---	---	---	---	PASS	A	127912764	A	A	127912764	2	1	138	1	0	0	0	0	0	0	0	1	2367	668	24	3		3	C6orf58	6	127912764	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	1	127912764	43202303	158	49297	903	2								
TMEM200A	114801	broad.mit.edu	37	chr6	130761578	130761578	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aggccaagctatgatagcaaCtggtggagtgataactggcc	13	8	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:130761578C>A	uc003qca.2	+	3	882	c.11C>A	c.(10-12)ACT>AAT	p.T4N	TMEM200A_uc010kfh.2_Missense_Mutation_p.T4N|TMEM200A_uc010kfi.2_Missense_Mutation_p.T4N|TMEM200A_uc003qcb.2_Missense_Mutation_p.T4N	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	4	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		ATGATAGCAACTGGTGGAGTG	0.448													38	79	---	---	---	---	PASS	A	130761578	A	A	130761578	3	1	138	1	0	0	0	0	1	0	0	0	16120	565	20	3	13	3	TMEM200A	6	130761578	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	2848814	130761578	40353489	159	49298										
ARG1	383	broad.mit.edu	37	chr6	131900371	131900371	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cgagcagctggctggcaaggTggcagaagtcaagaagaacg	16	8	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:131900371T>A	uc003qcp.1	+	3	309	c.251T>A	c.(250-252)GTG>GAG	p.V84E	ARG1_uc003qco.1_Missense_Mutation_p.V84E|ARG1_uc010kfm.1_Missense_Mutation_p.V92E|MED23_uc003qcq.2_Intron	NM_000045	NP_000036	P05089	ARGI1_HUMAN	arginase 1	84					arginine catabolic process|urea cycle	cytosol	arginase activity			ovary(1)	1	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0106)|OV - Ovarian serous cystadenocarcinoma(155;0.0713)	L-Ornithine(DB00129)	GCTGGCAAGGTGGCAGAAGTC	0.512													15	42	---	---	---	---	PASS	A	131900371	A	A	131900371	3	1	138	1	0	0	0	0	1	0	0	0	857	1696	59	5	261	5	ARG1	6	131900371	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	1138793	131900371	39214696	160	49299										
TAAR6	319100	broad.mit.edu	37	chr6	132891689	132891689	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcgttgcctctctggcctgcGctgatttcttggtgggtgtg	14	10	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:132891689G>T	uc011eck.1	+	1	229	c.229G>T	c.(229-231)GCT>TCT	p.A77S		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	77	Helical; Name=2; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		TCTGGCCTGCGCTGATTTCTT	0.512													41	99	---	---	---	---	PASS	T	132891689	T	T	132891689	3	4	138	1	0	0	0	0	1	0	0	0	15489	1087	38	1	231	1	TAAR6	6	132891689	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	991318	132891689	38223378	161	49300										
NMBR	4829	broad.mit.edu	37	chr6	142409428	142409428	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaacccccacggaagtgagcTggatgacagggatcagtttg	13	9	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:142409428T>A	uc003qiu.2	-	1	509	c.368A>T	c.(367-369)CAG>CTG	p.Q123L		NM_002511	NP_002502	P28336	NMBR_HUMAN	neuromedin B receptor	123	Helical; Name=3; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			central_nervous_system(3)|breast(1)	4	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		GGAAGTGAGCTGGATGACAGG	0.587													14	24	---	---	---	---	PASS	A	142409428	A	A	142409428	3	1	138	1	0	0	0	0	1	0	0	0	10487	1580	55	5	816	5	NMBR	6	142409428	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	9517739	142409428	28705639	162	49301										
PDE10A	10846	broad.mit.edu	37	chr6	165848811	165848811	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctgagtgatgggcccagcagGgatgaggcggggttttcctt	17	8	0	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr6:165848811G>T	uc003qun.2	-	7	662	c.421C>A	c.(421-423)CCT>ACT	p.P141T	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.P71T|PDE10A_uc003quo.2_Missense_Mutation_p.P151T	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	141	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	GGCCCAGCAGGGATGAGGCGG	0.493													13	52	---	---	---	---	PASS	T	165848811	T	T	165848811	3	4	138	1	0	0	0	0	1	0	0	0	11630	1232	43	3	1986	3	PDE10A	6	165848811	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	23439383	165848811	5266256	163	49302										
COL28A1	340267	broad.mit.edu	37	chr7	7557459	7557459	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttctccagcttctcctttttGagcgttgccctgtgacaaac	7	13	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:7557459G>C	uc003src.1	-	7	940	c.823C>G	c.(823-825)CAA>GAA	p.Q275E	COL28A1_uc011jxe.1_5'UTR|COL28A1_uc003srd.2_5'UTR	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	275					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		TCTCCTTTTTGAGCGTTGCCC	0.398													39	237	---	---	---	---	PASS	C	7557459	C	C	7557459	3	2	138	1	0	0	0	0	1	0	0	0	3686	1299	45	2	2670	2	COL28A1	7	7557459	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08		7557459	151581204	164	49303										
DNAH11	8701	broad.mit.edu	37	chr7	21940678	21940678	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttgaagcccgtctcaaggagCtggcatgccctatgccggtc	12	13	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:21940678C>G	uc003svc.2	+	83	13409	c.13378C>G	c.(13378-13380)CTG>GTG	p.L4460V	CDCA7L_uc003sve.3_3'UTR|CDCA7L_uc010kuk.2_3'UTR|CDCA7L_uc010kul.2_3'UTR|CDCA7L_uc003svf.3_3'UTR	NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4460					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TCTCAAGGAGCTGGCATGCCC	0.537									Kartagener_syndrome				46	212	---	---	---	---	PASS	G	21940678	G	G	21940678	3	3	138	1	0	0	0	0	1	0	0	0	4599	796	28	4	13705	4	DNAH11	7	21940678	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	14383219	21940678	137197985	165	49304										
KLHL7	55975	broad.mit.edu	37	chr7	23205373	23205373	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaacgaagagatgcagcatgCgtgttttgggacaatgtagt	13	5	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:23205373C>T	uc003svs.3	+	8	1286	c.993C>T	c.(991-993)TGC>TGT	p.C331C	KLHL7_uc003svr.3_Silent_p.C309C|KLHL7_uc011jys.1_Silent_p.C255C|KLHL7_uc011jyt.1_Silent_p.C106C|KLHL7_uc003svt.2_Silent_p.C283C|KLHL7_uc011jyv.1_Silent_p.C106C	NM_001031710	NP_001026880	Q8IXQ5	KLHL7_HUMAN	kelch-like 7 isoform 1	331	Kelch 1.					Golgi apparatus|nucleolus|plasma membrane					0						ATGCAGCATGCGTGTTTTGGG	0.423													28	63	---	---	---	---	PASS	T	23205373	T	T	23205373	2	4	138	1	0	0	0	0	0	0	0	1	8394	776	27	1		1	KLHL7	7	23205373	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	1264695	23205373	135933290	166	49305										
NEUROD6	63974	broad.mit.edu	37	chr7	31378677	31378677	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttctaggcaacccattttcaTcttcctcttccctgtcttcc	3	16	5	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:31378677T>A	uc003tch.2	-	2	559	c.206A>T	c.(205-207)GAT>GTT	p.D69V		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	69					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						CCCAttttcatcttcctcttc	0.358													45	215	---	---	---	---	PASS	A	31378677	A	A	31378677	3	1	138	1	0	0	0	0	1	0	0	0	10351	1435	50	5	811	5	NEUROD6	7	31378677	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	8173304	31378677	127759986	167	49306										
ABCA13	154664	broad.mit.edu	37	chr7	48314352	48314352	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tggatttctttaagaatatcAgtagtgtgggaactggcaat	11	4	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:48314352A>G	uc003toq.2	+	17	5114	c.5089A>G	c.(5089-5091)AGT>GGT	p.S1697G	ABCA13_uc010kyr.2_Missense_Mutation_p.S1200G	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1697					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TAAGAATATCAGTAGTGTGGG	0.388													59	110	---	---	---	---	PASS	G	48314352	G	G	48314352	3	3	138	1	0	0	0	0	1	0	0	0	31	188	7	5	4984	5	ABCA13	7	48314352	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	16935675	48314352	110824311	168	49307										
POM121L12	285877	broad.mit.edu	37	chr7	53103840	53103840	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atcccctggacagagagcccGccccgcaggccgccccgccg	12	21	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:53103840G>A	uc003tpz.2	+	1	492	c.476G>A	c.(475-477)CGC>CAC	p.R159H		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	159											0						CAGAGAgcccgccccgcaggc	0.592													12	18	---	---	---	---	PASS	A	53103840	A	A	53103840	3	1	138	1	0	0	0	0	1	0	0	0	12241	1087	38	1	478	1	POM121L12	7	53103840	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	4789488	53103840	106034823	169	49308										
ZNF479	90827	broad.mit.edu	37	chr7	57187747	57187747	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtagggtctctctccagtatGaattctcttgtggtcagtga	11	8	4	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:57187747G>T	uc010kzo.2	-	5	1646	c.1375C>A	c.(1375-1377)CAT>AAT	p.H459N		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	459	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TCTCCAGTATGAATTCTCTTG	0.428													36	117	---	---	---	---	PASS	T	57187747	T	T	57187747	3	4	138	1	0	0	0	0	1	0	0	0	17930	1290	45	2	203	2	ZNF479	7	57187747	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	4083907	57187747	101950916	170	49309										
ZNF680	340252	broad.mit.edu	37	chr7	63982404	63982404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	attggttaaaggctttgccaCattcctcacatttgtagggt	9	8	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:63982404C>A	uc003tta.2	-	4	901	c.728G>T	c.(727-729)TGT>TTT	p.C243F	ZNF680_uc010kzr.2_Missense_Mutation_p.C170F	NM_178558	NP_848653	Q8NEM1	ZN680_HUMAN	zinc finger protein 680 isoform 1	243	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.118)|all_lung(88;0.243)				GGCTTTGCCACATTCCTCACA	0.363													12	23	---	---	---	---	PASS	A	63982404	A	A	63982404	3	1	138	1	0	0	0	0	1	0	0	0	18084	478	17	3	868	3	ZNF680	7	63982404	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	6794657	63982404	95156259	171	49310										
CCL26	10344	broad.mit.edu	37	chr7	75401209	75401209	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cgtccgagaaatactcacatCacagcccgctgggagcagct	10	14	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:75401209C>A	uc003udt.1	-	3	294	c.186G>T	c.(184-186)GTG>GTT	p.V62V		NM_006072	NP_006063	Q9Y258	CCL26_HUMAN	chemokine (C-C motif) ligand 26 precursor	62					cell-cell signaling|chemotaxis|immune response|inflammatory response|positive regulation of actin filament polymerization|positive regulation of cell migration|positive regulation of endothelial cell proliferation|positive regulation of Rac GTPase activity|signal transduction	extracellular space	chemokine activity				0						ATACTCACATCACAGCCCGCT	0.567													16	67	---	---	---	---	PASS	A	75401209	A	A	75401209	2	1	138	1	0	0	0	0	0	0	0	1	2898	813	29	2		2	CCL26	7	75401209	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	11418805	75401209	83737454	172	49311										
POR	5447	broad.mit.edu	37	chr7	75614954	75614954	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tggagtacgagaccaaggctGgccgcatcaacaagggcgtg	15	10	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:75614954G>A	uc003udy.2	+	13	1538	c.1456G>A	c.(1456-1458)GGC>AGC	p.G486S	POR_uc011kgc.1_Missense_Mutation_p.G294S|POR_uc011kgd.1_Missense_Mutation_p.G385S|POR_uc011kge.1_Missense_Mutation_p.G224S|POR_uc003uea.2_5'UTR	NM_000941	NP_000932	P16435	NCPR_HUMAN	cytochrome P450 reductase	483	FAD-binding FR-type.				cellular organofluorine metabolic process|positive regulation of monooxygenase activity	endoplasmic reticulum membrane	iron ion binding|NADPH-hemoprotein reductase activity			central_nervous_system(1)	1					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Lipoic Acid(DB00166)|Menadione(DB00170)|Methoxyflurane(DB01028)|Mitomycin(DB00305)|Nilutamide(DB00665)	GACCAAGGCTGGCCGCATCAA	0.677													4	17	---	---	---	---	PASS	A	75614954	A	A	75614954	3	1	138	1	0	0	0	0	1	0	0	0	12257	1348	47	3	1502	3	POR	7	75614954	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	213745	75614954	83523709	173	49312										
COL1A2	1278	broad.mit.edu	37	chr7	94047830	94047830	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gggtgaacctggtctcagagGtgaaattggtaaccctggca	14	8	1	3	rs72658154		TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:94047830G>T	uc003ung.1	+	33	2462	c.1991G>T	c.(1990-1992)GGT>GTT	p.G664V	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_RNA	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	664					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GGTCTCAGAGGTGAAATTGGT	0.333										HNSCC(75;0.22)			17	55	---	---	---	---	PASS	T	94047830	T	T	94047830	3	4	138	1	0	0	0	0	1	0	0	0	3678	1261	44	3	2121	3	COL1A2	7	94047830	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	18432876	94047830	65090833	174	49313										
TRRAP	8295	broad.mit.edu	37	chr7	98552895	98552895	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	acaccgtcccgcagctggtcCacattctgcacctgatagtg	9	15	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:98552895C>T	uc003upp.2	+	40	6093	c.5884C>T	c.(5884-5886)CAC>TAC	p.H1962Y	TRRAP_uc011kis.1_Missense_Mutation_p.H1944Y|TRRAP_uc003upr.2_Missense_Mutation_p.H1661Y	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1962					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GCAGCTGGTCCACATTCTGCA	0.617													11	24	---	---	---	---	PASS	T	98552895	T	T	98552895	3	4	138	1	0	0	0	0	1	0	0	0	16598	594	21	3	5980	3	TRRAP	7	98552895	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	4505065	98552895	60585768	175	49314										
STAG3	10734	broad.mit.edu	37	chr7	99798772	99798772	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gccactctgaaacgcctctcTgccttctacaagtgagtggc	9	14	3	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:99798772T>G	uc003utx.1	+	20	2276	c.2121T>G	c.(2119-2121)TCT>TCG	p.S707S	STAG3_uc010lgs.1_Silent_p.S495S|STAG3_uc011kjk.1_Silent_p.S649S|GATS_uc003uty.3_RNA|GATS_uc003utz.3_RNA|GATS_uc003uua.3_3'UTR|GATS_uc010lgt.2_RNA|STAG3_uc003uub.1_5'UTR	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	707					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AACGCCTCTCTGCCTTCTACA	0.478													21	75	---	---	---	---	PASS	G	99798772	G	G	99798772	2	3	138	1	0	0	0	0	0	0	0	1	15243	1567	55	5		5	STAG3	7	99798772	Silent	SNP	T	TCGA-63-6202-01A-11D-1817-08	1245877	99798772	59339891	176	49315										
SLC12A9	56996	broad.mit.edu	37	chr7	100459495	100459495	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	caaccagcttaagaagggggGgctgtatgtgctgggccacg	16	9	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:100459495G>T	uc003uwp.2	+	12	1815	c.1673G>T	c.(1672-1674)GGG>GTG	p.G558V	SLC12A9_uc003uwq.2_Missense_Mutation_p.G469V|SLC12A9_uc011kki.1_Missense_Mutation_p.G89V|SLC12A9_uc003uwr.2_Missense_Mutation_p.G294V|SLC12A9_uc003uws.2_Missense_Mutation_p.G89V|SLC12A9_uc003uwt.2_Missense_Mutation_p.G294V|SLC12A9_uc003uwv.2_Missense_Mutation_p.G89V	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	558	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					AAGAAGGGGGGGCTGTATGTG	0.627													9	35	---	---	---	---	PASS	T	100459495	T	T	100459495	3	4	138	1	0	0	0	0	1	0	0	0	14390	1232	43	3	1715	3	SLC12A9	7	100459495	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	660723	100459495	58679168	177	49316										
GRM8	2918	broad.mit.edu	37	chr7	126173297	126173297	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgggggggatccacaacaaaCcagacaaacactccaaggag	11	11	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:126173297C>A	uc003vlr.2	-	8	2450	c.2139G>T	c.(2137-2139)TGG>TGT	p.W713C	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.W713C|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	713	Helical; Name=4; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	CCACAACAAACCAGACAAACA	0.517										HNSCC(24;0.065)			10	45	---	---	---	---	PASS	A	126173297	A	A	126173297	3	1	138	1	0	0	0	0	1	0	0	0	6803	508	18	3	649	3	GRM8	7	126173297	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	25713802	126173297	32965366	178	49317										
PAX4	5078	broad.mit.edu	37	chr7	127253856	127253856	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggggagaagatagtccgattCcggtggccggtccctgggtg	18	9	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:127253856C>A	uc010lld.1	-	4	698	c.492G>T	c.(490-492)CGG>CGT	p.R164R	PAX4_uc003vmf.2_Silent_p.R162R|PAX4_uc003vmg.1_Silent_p.R164R|PAX4_uc003vmh.2_Silent_p.R162R	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	172	Homeobox.		R -> W (in MODY9; the mutant sequence represses the activity of the insulin and glucagon promoters by only 35% compared to 50% and 57% respectively with wild- type sequence).		cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TAGTCCGATTCCGGTGGCCGG	0.582													25	79	---	---	---	---	PASS	A	127253856	A	A	127253856	2	1	138	1	0	0	0	0	0	0	0	1	11481	842	30	2		2	PAX4	7	127253856	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	1080559	127253856	31884807	179	49318										
TSGA14	95681	broad.mit.edu	37	chr7	130038840	130038840	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcgcttcgggcaccaggcacCttggactctcttccggagga	13	14	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:130038840C>A	uc003vpz.2	-	11	1061	c.1014G>T	c.(1012-1014)AAG>AAT	p.K338N	TSGA14_uc003vpy.2_Missense_Mutation_p.K100N|TSGA14_uc010lmf.2_Missense_Mutation_p.K135N|TSGA14_uc003vqa.2_Missense_Mutation_p.K266N|TSGA14_uc011kpg.1_Missense_Mutation_p.K250N	NM_018718	NP_061188	Q9BYV8	CEP41_HUMAN	testis specific, 14	338					G2/M transition of mitotic cell cycle	centrosome|cytosol					0	Melanoma(18;0.0435)					CACCAGGCACCTTGGACTCTC	0.592													63	221	---	---	---	---	PASS	A	130038840	A	A	130038840	3	1	138	1	0	0	0	0	1	0	0	0	16617	680	24	3	111	3	TSGA14	7	130038840	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	2784984	130038840	29099823	180	49319										
TTC26	79989	broad.mit.edu	37	chr7	138862969	138862969	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctccgtttcagatacaatacCagggaggcagtgcatggctt	11	10	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:138862969C>T	uc003vus.2	+	13	1193	c.1079C>T	c.(1078-1080)CCA>CTA	p.P360L	TTC26_uc011kqn.1_Missense_Mutation_p.P360L|TTC26_uc011kqo.1_Missense_Mutation_p.P329L|TTC26_uc011kqp.1_Missense_Mutation_p.P255L|TTC26_uc003vut.2_Missense_Mutation_p.P220L|TTC26_uc011kqq.1_Missense_Mutation_p.P229L	NM_024926	NP_079202	A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26 isoform 1	360							binding			ovary(1)	1						GATACAATACCAGGGAGGCAG	0.348													13	45	---	---	---	---	PASS	T	138862969	T	T	138862969	3	4	138	1	0	0	0	0	1	0	0	0	16691	594	21	3	1129	3	TTC26	7	138862969	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	8824129	138862969	20275694	181	49320										
OR9A2	135924	broad.mit.edu	37	chr7	142724074	142724074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	actgcagacgtttatccacaCagacaatcacaatgatgacc	6	12	1	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:142724074C>A	uc003wcc.1	-	1	146	c.146G>T	c.(145-147)TGT>TTT	p.C49F		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	49	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					TTTATCCACACAGACAATCAC	0.443													22	145	---	---	---	---	PASS	A	142724074	A	A	142724074	3	1	138	1	0	0	0	0	1	0	0	0	11248	478	17	3	790	3	OR9A2	7	142724074	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	3861105	142724074	16414589	182	49321										
TPK1	27010	broad.mit.edu	37	chr7	144345919	144345919	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccttagtagcatagtattctCtgacttcaggcctaatagaa	7	9	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:144345919C>A	uc003weq.2	-	5	342	c.239G>T	c.(238-240)AGA>ATA	p.R80I	TPK1_uc003weo.2_Missense_Mutation_p.R75I|TPK1_uc003wep.2_RNA|TPK1_uc003wer.2_Missense_Mutation_p.R80I|TPK1_uc003wes.2_RNA	NM_022445	NP_071890	Q9H3S4	TPK1_HUMAN	thiamin pyrophosphokinase 1 isoform a	80					thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)	ATAGTATTCTCTGACTTCAGG	0.308													38	185	---	---	---	---	PASS	A	144345919	A	A	144345919	3	1	138	1	0	0	0	0	1	0	0	0	16401	913	32	2	512	2	TPK1	7	144345919	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1621845	144345919	14792744	183	49322										
CNTNAP2	26047	broad.mit.edu	37	chr7	146825794	146825794	+	Nonsense_Mutation	SNP	G	T	T													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttttctcaaagataacctttGgaggcatccctttctctggc							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:146825794G>T	uc003weu.1	+	7	1465	c.949G>T	c.(949-951)GGA>TGA	p.G317*		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	317	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GATAACCTTTGGAGGCATCCC	0.378										HNSCC(39;0.1)			17	98	---	---	---	---	PASS	T	146825794	T	T	146825794	4	4	138	1	0	0	0	0	0	1	0	0	3647	1349	47	3	975	3	CNTNAP2	7	146825794	Nonsense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	2479875	146825794	12312869	184	49323	904	2								
CNTNAP2	26047	broad.mit.edu	37	chr7	146825795	146825795	+	Missense_Mutation	SNP	G	T	T													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tttctcaaagataacctttgGaggcatccctttctctggca							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:146825795G>T	uc003weu.1	+	7	1466	c.950G>T	c.(949-951)GGA>GTA	p.G317V		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	317	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ATAACCTTTGGAGGCATCCCT	0.378										HNSCC(39;0.1)			18	98	---	---	---	---	PASS	T	146825795	T	T	146825795	3	4	138	1	0	0	0	0	1	0	0	0	3647	1174	41	2	976	2	CNTNAP2	7	146825795	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1	146825795	12312868	185	49324	904	2								
CNTNAP2	26047	broad.mit.edu	37	chr7	146829519	146829519	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcggataatttgggcaatgtGgagattgacctcactgaaag	13	6	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:146829519G>T	uc003weu.1	+	8	1782	c.1266G>T	c.(1264-1266)GTG>GTT	p.V422V		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	422	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TGGGCAATGTGGAGATTGACC	0.458										HNSCC(39;0.1)			14	67	---	---	---	---	PASS	T	146829519	T	T	146829519	2	4	138	1	0	0	0	0	0	0	0	1	3647	1335	47	3		3	CNTNAP2	7	146829519	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	3724	146829519	12309144	186	49325										
C7orf33	202865	broad.mit.edu	37	chr7	148288214	148288214	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cttgtcatatgccacgggaaGacataaggtaagttaatgat	10	6	1	2	rs79069436	by1000genomes	TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:148288214G>A	uc003wew.2	+	1	558	c.197G>A	c.(196-198)AGA>AAA	p.R66K		NM_145304	NP_660347	Q8WU49	CG033_HUMAN	hypothetical protein LOC202865	66										central_nervous_system(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GCCACGGGAAGACATAAGGTA	0.458													29	100	---	---	---	---	PASS	A	148288214	A	A	148288214	3	1	138	1	0	0	0	0	1	0	0	0	2388	942	33	2	199	2	C7orf33	7	148288214	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1458695	148288214	10850449	187	49326										
DPP6	1804	broad.mit.edu	37	chr7	154561142	154561142	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cttagaggagattttgaagaCacacatcgcacactggtggt	11	8	0	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr7:154561142C>A	uc003wlk.2	+	9	1028	c.899C>A	c.(898-900)ACA>AAA	p.T300K	DPP6_uc003wli.2_Missense_Mutation_p.T236K|DPP6_uc003wlm.2_Missense_Mutation_p.T238K|DPP6_uc011kvq.1_Missense_Mutation_p.T193K	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	300	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			ATTTTGAAGACACACATCGCA	0.522													14	79	---	---	---	---	PASS	A	154561142	A	A	154561142	3	1	138	1	0	0	0	0	1	0	0	0	4730	478	17	3	1049	3	DPP6	7	154561142	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	6272928	154561142	4577521	188	49327										
RP1L1	94137	broad.mit.edu	37	chr8	10466484	10466484	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtgtgggtcttgccaggggcCacctctgctgcctccccatc	12	16	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:10466484C>A	uc003wtc.2	-	4	5353	c.5124G>T	c.(5122-5124)GTG>GTT	p.V1708V		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1708					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TGCCAGGGGCCACCTCTGCTG	0.647													33	84	---	---	---	---	PASS	A	10466484	A	A	10466484	2	1	138	1	0	0	0	0	0	0	0	1	13533	581	21	3		3	RP1L1	8	10466484	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08		10466484	135897538	189	49328										
RP1L1	94137	broad.mit.edu	37	chr8	10473979	10473979	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttttgtttcttgaagtcagcCcagataaagtttcagcctcg	8	9	3	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:10473979C>A	uc003wtc.2	-	3	957	c.728G>T	c.(727-729)GGG>GTG	p.G243V		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	243					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TGAAGTCAGCCCAGATAAAGT	0.527													12	72	---	---	---	---	PASS	A	10473979	A	A	10473979	3	1	138	1	0	0	0	0	1	0	0	0	13533	623	22	3	6482	3	RP1L1	8	10473979	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	7495	10473979	135890043	190	49329										
NKX6-3	157848	broad.mit.edu	37	chr8	41504001	41504001	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gctcccaggctgagcaccgaGaaggcggcgcggtgcttgcg	17	13	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:41504001G>A	uc003xoa.2	-	2	379	c.375C>T	c.(373-375)TTC>TTT	p.F125F	NKX6-3_uc010lxa.1_Silent_p.F125F	NM_152568	NP_689781	A6NJ46	NKX63_HUMAN	NK6 homeobox 3	255						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(28;0.00541)|Colorectal(14;0.0202)|Lung SC(25;0.211)	all_lung(54;0.0131)|Lung NSC(58;0.0363)|Esophageal squamous(32;0.0844)|Hepatocellular(245;0.154)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TGAGCACCGAGAAGGCGGCGC	0.701													4	22	---	---	---	---	PASS	A	41504001	A	A	41504001	2	1	138	1	0	0	0	0	0	0	0	1	10459	933	33	2		2	NKX6-3	8	41504001	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	31030022	41504001	104860021	191	49330										
PREX2	80243	broad.mit.edu	37	chr8	69104587	69104587	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cagctaatgaggcctctcaaCgctttggatgaactttaccg	9	11	1	2	rs137974526		TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:69104587C>A	uc003xxv.1	+	37	4458	c.4431C>A	c.(4429-4431)AAC>AAA	p.N1477K		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1477					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GGCCTCTCAACGCTTTGGATG	0.433													10	55	---	---	---	---	PASS	A	69104587	A	A	69104587	3	1	138	1	0	0	0	0	1	0	0	0	12477	535	19	1	4806	1	PREX2	8	69104587	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	27600586	69104587	77259435	192	49331										
SLCO5A1	81796	broad.mit.edu	37	chr8	70744061	70744061	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctaagtaggttggtcccaggGtataaataggtgtggagccc	14	7	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:70744061G>T	uc003xyl.2	-	2	1555	c.848C>A	c.(847-849)ACC>AAC	p.T283N	SLCO5A1_uc010lzb.2_Missense_Mutation_p.T283N|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Missense_Mutation_p.T283N|SLCO5A1_uc010lzc.2_Missense_Mutation_p.T283N	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	283	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			TGGTCCCAGGGTATAAATAGG	0.453													19	137	---	---	---	---	PASS	T	70744061	T	T	70744061	3	4	138	1	0	0	0	0	1	0	0	0	14731	1261	44	3	1734	3	SLCO5A1	8	70744061	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1639474	70744061	75619961	193	49332										
TRPA1	8989	broad.mit.edu	37	chr8	72964988	72964988	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gccttcccttgcagcaaagtGaagtgcagtgttcttttgaa	10	9	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:72964988G>C	uc003xza.2	-	14	1832	c.1657C>G	c.(1657-1659)CAC>GAC	p.H553D	uc011lff.1_RNA|uc003xyy.2_RNA	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	553	Cytoplasmic (Potential).|ANK 14.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GCAGCAAAGTGAAGTGCAGTG	0.458													92	121	---	---	---	---	PASS	C	72964988	C	C	72964988	3	2	138	1	0	0	0	0	1	0	0	0	16574	1290	45	2	1758	2	TRPA1	8	72964988	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	2220927	72964988	73399034	194	49333										
PI15	51050	broad.mit.edu	37	chr8	75757390	75757390	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tctattctccagttggtcaaGccatggtatgatgaagtgaa	10	7	3	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:75757390G>C	uc003yal.2	+	4	599	c.420G>C	c.(418-420)AAG>AAC	p.K140N	uc003yak.1_Intron|PI15_uc003yam.2_Missense_Mutation_p.K140N	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	140						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			AGTTGGTCAAGCCATGGTATG	0.393													24	152	---	---	---	---	PASS	C	75757390	C	C	75757390	3	2	138	1	0	0	0	0	1	0	0	0	11868	962	34	4	430	4	PI15	8	75757390	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	2792402	75757390	70606632	195	49334										
ZFHX4	79776	broad.mit.edu	37	chr8	77616340	77616340	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgccatggaaacctgtgactCccctcctatctcaaggcagg	9	14	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:77616340C>A	uc003yav.2	+	2	404	c.17C>A	c.(16-18)TCC>TAC	p.S6Y	ZFHX4_uc003yat.1_Missense_Mutation_p.S6Y|ZFHX4_uc003yau.1_Missense_Mutation_p.S6Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.S6Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	6						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACCTGTGACTCCCCTCCTATC	0.458										HNSCC(33;0.089)			12	38	---	---	---	---	PASS	A	77616340	A	A	77616340	3	1	138	1	0	0	0	0	1	0	0	0	17632	855	30	2	19	2	ZFHX4	8	77616340	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1858950	77616340	68747682	196	49335										
ZFHX4	79776	broad.mit.edu	37	chr8	77767118	77767118	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggtcgtgcaagtctggttccAgaatacacgagcgcgggaga	15	9	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:77767118A>G	uc003yav.2	+	10	8213	c.7826A>G	c.(7825-7827)CAG>CGG	p.Q2609R	ZFHX4_uc003yau.1_Missense_Mutation_p.Q2654R|ZFHX4_uc003yaw.1_Missense_Mutation_p.Q2609R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2609	Homeobox 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GTCTGGTTCCAGAATACACGA	0.502										HNSCC(33;0.089)			23	129	---	---	---	---	PASS	G	77767118	G	G	77767118	3	3	138	1	0	0	0	0	1	0	0	0	17632	188	7	5	7995	5	ZFHX4	8	77767118	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	150778	77767118	68596904	197	49336										
ZFHX4	79776	broad.mit.edu	37	chr8	77775458	77775458	+	Missense_Mutation	SNP	C	A	A													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cacctccaccacctcctcctCctcctcctccttcatcctct							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:77775458C>A	uc003yav.2	+	11	9760	c.9373C>A	c.(9373-9375)CCT>ACT	p.P3125T		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3121	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			acctcctcctcctcctcctcc	0.363										HNSCC(33;0.089)			4	12	---	---	---	---	PASS	A	77775458	A	A	77775458	3	1	138	1	0	0	0	0	1	0	0	0	17632	855	30	2	9546	2	ZFHX4	8	77775458	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	8340	77775458	68588564	198	49337	905	2								
ZFHX4	79776	broad.mit.edu	37	chr8	77775459	77775459	+	Missense_Mutation	SNP	C	A	A													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	acctccaccacctcctcctcCtcctcctccttcatcctctc							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:77775459C>A	uc003yav.2	+	11	9761	c.9374C>A	c.(9373-9375)CCT>CAT	p.P3125H		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3121	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			cctcctcctcctcctcctcct	0.363										HNSCC(33;0.089)			4	14	---	---	---	---	PASS	A	77775459	A	A	77775459	3	1	138	1	0	0	0	0	1	0	0	0	17632	681	24	3	9547	3	ZFHX4	8	77775459	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1	77775459	68588563	199	49338	905	2								
CNGB3	54714	broad.mit.edu	37	chr8	87638275	87638275	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tggcgagggctaactggaccGtagttggtagggtcttaagc	16	7	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:87638275G>C	uc003ydx.2	-	13	1560	c.1514C>G	c.(1513-1515)ACG>AGG	p.T505R	CNGB3_uc010maj.2_Missense_Mutation_p.T367R	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	505	Helical; Name=H6; (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						TAACTGGACCGTAGTTGGTAG	0.383													25	58	---	---	---	---	PASS	C	87638275	C	C	87638275	3	2	138	1	0	0	0	0	1	0	0	0	3601	1145	40	4	939	4	CNGB3	8	87638275	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	9862816	87638275	58725747	200	49339										
POP1	10940	broad.mit.edu	37	chr8	99168595	99168595	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gatcacagaccaggaggccaGtgaaaaccatgttgctgcca	11	11	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:99168595G>T	uc003yij.3	+	15	2475	c.2375G>T	c.(2374-2376)AGT>ATT	p.S792I	POP1_uc011lgv.1_Missense_Mutation_p.S792I|POP1_uc003yik.2_Missense_Mutation_p.S792I	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	792					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			CAGGAGGCCAGTGAAAACCAT	0.507													72	117	---	---	---	---	PASS	T	99168595	T	T	99168595	3	4	138	1	0	0	0	0	1	0	0	0	12251	1029	36	3	2429	3	POP1	8	99168595	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	11530320	99168595	47195427	201	49340										
RIMS2	9699	broad.mit.edu	37	chr8	105105738	105105738	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctcatagaggggcagataatGtttctactaaatcttcggac	9	8	3	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:105105738G>A	uc003yls.2	+	21	3002	c.2761G>A	c.(2761-2763)GTT>ATT	p.V921I	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Missense_Mutation_p.V994I|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	375					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GGCAGATAATGTTTCTACTAA	0.408										HNSCC(12;0.0054)			11	256	---	---	---	---	PASS	A	105105738	A	A	105105738	3	1	138	1	0	0	0	0	1	0	0	0	13368	1392	48	3		3	RIMS2	8	105105738	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	5937143	105105738	41258284	202	49341										
ANGPT1	284	broad.mit.edu	37	chr8	108334131	108334131	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aagacattcttaccaccttcTttagtgcaaagattgacaag	6	9	2	3	rs138395811		TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:108334131T>C	uc003ymn.2	-	4	1269	c.801A>G	c.(799-801)AAA>AAG	p.K267K	ANGPT1_uc011lhv.1_Silent_p.K67K|ANGPT1_uc003ymo.2_Silent_p.K267K|ANGPT1_uc003ymp.3_Silent_p.K67K	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	267					activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			TACCACCTTCTTTAGTGCAAA	0.378													69	71	---	---	---	---	PASS	C	108334131	C	C	108334131	2	2	138	1	0	0	0	0	0	0	0	1	610	1606	56	5		5	ANGPT1	8	108334131	Silent	SNP	T	TCGA-63-6202-01A-11D-1817-08	3228393	108334131	38029891	203	49342										
PKHD1L1	93035	broad.mit.edu	37	chr8	110376778	110376778	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tattttaatatttttcagatGgctctcaaataatccccaaa	3	8	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:110376778G>A	uc003yne.2	+	2	180	c.76G>A	c.(76-78)GGC>AGC	p.G26S		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	26	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTTTTCAGATGGCTCTCAAAT	0.348										HNSCC(38;0.096)			3	28	---	---	---	---	PASS	A	110376778	A	A	110376778	3	1	138	1	0	0	0	0	1	0	0	0	11972	1348	47	3	82	3	PKHD1L1	8	110376778	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	2042647	110376778	35987244	204	49343										
KCNV1	27012	broad.mit.edu	37	chr8	110986306	110986306	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cggaacgcctgcgagctgcgGtcgaagaagtactcgttgtc	14	11	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:110986306G>A	uc003ynr.3	-	1	654	c.312C>T	c.(310-312)GAC>GAT	p.D104D	KCNV1_uc010mcw.2_Silent_p.D104D	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	104	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			GCGAGCTGCGGTCGAAGAAGT	0.662													16	23	---	---	---	---	PASS	A	110986306	A	A	110986306	2	1	138	1	0	0	0	0	0	0	0	1	8094	1252	44	3		3	KCNV1	8	110986306	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	609528	110986306	35377716	205	49344										
ASAP1	50807	broad.mit.edu	37	chr8	131136348	131136348	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttgtttcctacattcttggcCagctgtaacagaaaaaacaa	6	9	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:131136348C>A	uc003yta.1	-	17	1546	c.1518G>T	c.(1516-1518)CTG>CTT	p.L506L	ASAP1_uc003ysz.1_Silent_p.L317L|ASAP1_uc011liw.1_Silent_p.L499L	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	506	Arf-GAP.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						CATTCTTGGCCAGCTGTAACA	0.328													60	82	---	---	---	---	PASS	A	131136348	A	A	131136348	2	1	138	1	0	0	0	0	0	0	0	1	1010	581	21	3		3	ASAP1	8	131136348	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	20150042	131136348	15227674	206	49345										
TG	7038	broad.mit.edu	37	chr8	133961121	133961121	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgggctaatgctacatgtccTggtgtgacatatgaccagga	12	8	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:133961121T>G	uc003ytw.2	+	27	5375	c.5334T>G	c.(5332-5334)CCT>CCG	p.P1778P	TG_uc010mdw.2_Silent_p.P537P|TG_uc011ljb.1_Silent_p.P147P	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1778	Type IIIB.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CTACATGTCCTGGTGTGACAT	0.483													17	173	---	---	---	---	PASS	G	133961121	G	G	133961121	2	3	138	1	0	0	0	0	0	0	0	1	15810	1567	55	5		5	TG	8	133961121	Silent	SNP	T	TCGA-63-6202-01A-11D-1817-08	2824773	133961121	12402901	207	49346										
PLEC	5339	broad.mit.edu	37	chr8	144993989	144993997	+	In_Frame_Del	DEL	CGTCCTTGA	-	-													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtccttgaccgtcgtcttgcCgtccttgagctgctcaaact							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:144993989_144993997delCGTCCTTGA	uc003zaf.1	-	32	10573_10581	c.10403_10411delTCAAGGACG	c.(10402-10413)CTCAAGGACGGC>CGC	p.3468_3471LKDG>R	PLEC_uc003zab.1_In_Frame_Del_p.3331_3334LKDG>R|PLEC_uc003zac.1_In_Frame_Del_p.3335_3338LKDG>R|PLEC_uc003zad.2_In_Frame_Del_p.3331_3334LKDG>R|PLEC_uc003zae.1_In_Frame_Del_p.3299_3302LKDG>R|PLEC_uc003zag.1_In_Frame_Del_p.3309_3312LKDG>R|PLEC_uc003zah.2_In_Frame_Del_p.3317_3320LKDG>R|PLEC_uc003zaj.2_In_Frame_Del_p.3358_3361LKDG>R	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3468_3471	Globular 2.				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						GTCGTCTTGCCGTCCTTGAGCTGCTCAAA	0.67													59	31	---	---	---	---		-	144993997	-	-	144993989	7	5	138	1	0	1	0	1	0	0	0	0	12052	652	23	0	3647	0	PLEC	8	144993989	In_Frame_Del	DEL	CGTCCTTGA	TCGA-63-6202-01A-11D-1817-08	11032868	144993989	1370033	208	49347										
SPATC1	375686	broad.mit.edu	37	chr8	145094893	145094893	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tggccttggcacccctggccGagatgctaaccagcttgcag	12	14	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:145094893G>A	uc011lkw.1	+	2	397	c.295G>A	c.(295-297)GAG>AAG	p.E99K	SPATC1_uc011lkx.1_Missense_Mutation_p.E99K	NM_198572	NP_940974	Q76KD6	SPERI_HUMAN	spermatogenesis and centriole associated 1	99										ovary(1)|central_nervous_system(1)	2	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;3.67e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ACCCCTGGCCGAGATGCTAAC	0.637													7	124	---	---	---	---	PASS	A	145094893	A	A	145094893	3	1	138	1	0	0	0	0	1	0	0	0	15016	1059	37	2	301	2	SPATC1	8	145094893	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	100904	145094893	1269129	209	49348										
CPSF1	29894	broad.mit.edu	37	chr8	145624025	145624025	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gccctcccccttgggattgtCctcctgtcagggccaaaggg	12	15	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr8:145624025C>G	uc003zcj.2	-	18	1717	c.1642G>C	c.(1642-1644)GAC>CAC	p.D548H		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	548					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	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;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			TTGGGATTGTCCTCCTGTCAG	0.652													4	147	---	---	---	---	PASS	G	145624025	G	G	145624025	3	3	138	1	0	0	0	0	1	0	0	0	3824	855	30	2	2773	2	CPSF1	8	145624025	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	529132	145624025	739997	210	49349										
ADAMTSL1	92949	broad.mit.edu	37	chr9	18574088	18574088	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gctcagctcataatgatgtcAagcaccatggccagttttat	8	10	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr9:18574088A>T	uc003zne.3	+	4	425	c.298A>T	c.(298-300)AAG>TAG	p.K100*	ADAMTSL1_uc003znb.2_Nonsense_Mutation_p.K100*|ADAMTSL1_uc003znc.3_Nonsense_Mutation_p.K100*	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	100						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		TAATGATGTCAAGCACCATGG	0.473													40	86	---	---	---	---	PASS	T	18574088	T	T	18574088	4	4	138	1	0	0	0	0	0	1	0	0	274	131	5	5	312	5	ADAMTSL1	9	18574088	Nonsense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08		18574088	122639343	211	49350										
GALNT12	79695	broad.mit.edu	37	chr9	101585705	101585705	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgtagatgactacagtgataGaggtgagtcccggccagggc	15	8	0	5			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr9:101585705G>T	uc004ayz.2	+	2	539	c.539G>T	c.(538-540)AGA>ATA	p.R180I		NM_024642	NP_078918	Q8IXK2	GLT12_HUMAN	N-acetylgalactosaminyltransferase 12	180	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(62;0.0559)				TACAGTGATAGAGGTGAGTCC	0.537													31	38	---	---	---	---	PASS	T	101585705	T	T	101585705	3	4	138	1	0	0	0	0	1	0	0	0	6210	942	33	2	545	2	GALNT12	9	101585705	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	83011617	101585705	39627726	212	49351										
OR13C8	138802	broad.mit.edu	37	chr9	107332380	107332380	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggctgctgtcaaaaacatacTgtgtaggaaaaacttttctg	9	7	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr9:107332380T>A	uc011lvo.1	+	1	932	c.932T>A	c.(931-933)CTG>CAG	p.L311Q		NM_001004483	NP_001004483	Q8NGS7	O13C8_HUMAN	olfactory receptor, family 13, subfamily C,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AAAAACATACTGTGTAGGAAA	0.358													38	33	---	---	---	---	PASS	A	107332380	A	A	107332380	3	1	138	1	0	0	0	0	1	0	0	0	10938	1580	55	5	934	5	OR13C8	9	107332380	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	5746675	107332380	33881051	213	49352										
IKBKAP	8518	broad.mit.edu	37	chr9	111679827	111679827	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaacaaactcaggcacttacCttaacctcatctttaaggaa	4	11	3	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr9:111679827C>A	uc004bdm.3	-	9	1384	c.864G>T	c.(862-864)AAG>AAT	p.K288N	IKBKAP_uc004bdl.2_Translation_Start_Site|IKBKAP_uc011lwc.1_Missense_Mutation_p.K174N|IKBKAP_uc010mtq.2_Translation_Start_Site	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	288					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						AGGCACTTACCTTAACCTCAT	0.328													24	91	---	---	---	---	PASS	A	111679827	A	A	111679827	3	1	138	1	0	0	0	0	1	0	0	0	7610	695	24	3	3250	3	IKBKAP	9	111679827	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	4347447	111679827	29533604	214	49353										
TLR4	7099	broad.mit.edu	37	chr9	120476737	120476737	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctgcagaaggtggagaagacCctgctcaggcagcaggtgga	16	9	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr9:120476737C>T	uc004bjz.2	+	3	2622	c.2331C>T	c.(2329-2331)ACC>ACT	p.T777T	TLR4_uc004bka.2_Silent_p.T737T|TLR4_uc004bkb.2_Silent_p.T577T	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	777	Cytoplasmic (Potential).|TIR.				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TGGAGAAGACCCTGCTCAGGC	0.552													20	40	---	---	---	---	PASS	T	120476737	T	T	120476737	2	4	138	1	0	0	0	0	0	0	0	1	15950	610	22	3		3	TLR4	9	120476737	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	8796910	120476737	20736694	215	49354										
MORN5	254956	broad.mit.edu	37	chr9	124936896	124936896	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gactataggaaccgctttctAagaaacgcaggtaggtttct	10	8	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr9:124936896A>T	uc004blw.2	+	4	491	c.429A>T	c.(427-429)CTA>CTT	p.L143L	MORN5_uc011lyn.1_Silent_p.L143L|MORN5_uc011lyo.1_3'UTR	NM_198469	NP_940871	Q5VZ52	MORN5_HUMAN	MORN repeat containing 5	143											0						ACCGCTTTCTAAGAAACGCAG	0.458													38	74	---	---	---	---	PASS	T	124936896	T	T	124936896	2	4	138	1	0	0	0	0	0	0	0	1	9711	349	13	5		5	MORN5	9	124936896	Silent	SNP	A	TCGA-63-6202-01A-11D-1817-08	4460159	124936896	16276535	216	49355										
MAPKAP1	79109	broad.mit.edu	37	chr9	128206877	128206877	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgagtttaaatattgcgtgaCctgcagagacagaaaactgt	10	6	0	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr9:128206877C>A	uc004bpv.2	-	11	1679	c.1346G>T	c.(1345-1347)AGT>ATT	p.S449I	MAPKAP1_uc011lzt.1_Missense_Mutation_p.S252I|MAPKAP1_uc010mwz.2_RNA|MAPKAP1_uc011lzu.1_Missense_Mutation_p.S252I|MAPKAP1_uc011lzv.1_Missense_Mutation_p.S157I|MAPKAP1_uc004bpw.2_Missense_Mutation_p.S257I|MAPKAP1_uc004bpx.2_Missense_Mutation_p.S257I|MAPKAP1_uc004bpy.2_Missense_Mutation_p.S413I|MAPKAP1_uc004bpz.2_Missense_Mutation_p.S402I|MAPKAP1_uc010mxa.2_RNA|MAPKAP1_uc004bpu.2_RNA	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	449					nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4						TATTGCGTGACCTGCAGAGAC	0.463													28	40	---	---	---	---	PASS	A	128206877	A	A	128206877	3	1	138	1	0	0	0	0	1	0	0	0	9288	521	18	3	230	3	MAPKAP1	9	128206877	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	3269981	128206877	13006554	217	49356										
ZNF485	220992	broad.mit.edu	37	chr10	44104702	44104702	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atcctttttctttatgaacaGggcttctctcttccaaacca	4	12	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:44104702G>T	uc010qfc.1	+	4	346	c.152_splice	c.e4-1	p.G51_splice	ZNF485_uc010qfd.1_Intron	NM_145312	NP_660355	Q8NCK3	ZN485_HUMAN	zinc finger protein 485						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTATGAACAGGGCTTCTCTC	0.463													14	35	---	---	---	---	PASS	T	44104702	T	T	44104702	5	4	138	1	0	0	0	0	0	0	1	0	17935	1014	35	3	161	3	ZNF485	10	44104702	Splice_Site	SNP	G	TCGA-63-6202-01A-11D-1817-08		44104702	91430045	218	49357										
OGDHL	55753	broad.mit.edu	37	chr10	50953543	50953543	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccacgccggcggtaacagacCtgcaggagcagccagagggg	16	13	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:50953543C>A	uc001jie.2	-	12	1619	c.1477_splice	c.e12-1	p.V493_splice	OGDHL_uc009xog.2_Splice_Site_p.V520_splice|OGDHL_uc010qgt.1_Splice_Site_p.V436_splice|OGDHL_uc010qgu.1_Splice_Site_p.V284_splice|OGDHL_uc009xoh.2_Splice_Site_p.V284_splice	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a						glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						GGTAACAGACCTGCAGGAGCA	0.587													12	86	---	---	---	---	PASS	A	50953543	A	A	50953543	5	1	138	1	0	0	0	0	0	0	1	0	10840	695	24	3	1604	3	OGDHL	10	50953543	Splice_Site	SNP	C	TCGA-63-6202-01A-11D-1817-08	6848841	50953543	84581204	219	49358										
OGDHL	55753	broad.mit.edu	37	chr10	50953930	50953930	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cacagcctctgggtcatcggCattcacatggaagataggcg	12	11	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:50953930C>A	uc001jie.2	-	11	1532	c.1390G>T	c.(1390-1392)GCC>TCC	p.A464S	OGDHL_uc009xog.2_Missense_Mutation_p.A491S|OGDHL_uc010qgt.1_Missense_Mutation_p.A407S|OGDHL_uc010qgu.1_Missense_Mutation_p.A255S|OGDHL_uc009xoh.2_Missense_Mutation_p.A255S	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	464					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						GGGTCATCGGCATTCACATGG	0.562													29	76	---	---	---	---	PASS	A	50953930	A	A	50953930	3	1	138	1	0	0	0	0	1	0	0	0	10840	710	25	3	1694	3	OGDHL	10	50953930	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	387	50953930	84580817	220	49359										
SGMS1	259230	broad.mit.edu	37	chr10	52087052	52087052	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tacaggtacagcgtgccaacTatgcagaaaaatcttctgct	8	10	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:52087052T>C	uc001jje.2	-	8	1608	c.654A>G	c.(652-654)ATA>ATG	p.I218M	SGMS1_uc010qhk.1_Missense_Mutation_p.I49M|SGMS1_uc009xot.1_RNA|SGMS1_uc010qhl.1_RNA	NM_147156	NP_671512	Q86VZ5	SMS1_HUMAN	sphingomyelin synthase 1	224	Helical; (Potential).				apoptosis|cell growth|sphingomyelin biosynthetic process	endoplasmic reticulum|Golgi trans cisterna|integral to Golgi membrane|nucleus|plasma membrane	ceramide cholinephosphotransferase activity|kinase activity|sphingomyelin synthase activity			ovary(1)|kidney(1)	2						GCGTGCCAACTATGCAGAAAA	0.378													14	45	---	---	---	---	PASS	C	52087052	C	C	52087052	3	2	138	1	0	0	0	0	1	0	0	0	14214	1512	53	5	603	5	SGMS1	10	52087052	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	1133122	52087052	83447695	221	49360										
ANK3	288	broad.mit.edu	37	chr10	61832138	61832138	+	Missense_Mutation	SNP	G	A	A													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aatctgaggttatatgacatGccaagtctttagcctgctgc							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:61832138G>A	uc001jky.2	-	37	8693	c.8501C>T	c.(8500-8502)GCA>GTA	p.A2834V	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2834					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TATATGACATGCCAAGTCTTT	0.408													35	101	---	---	---	---	PASS	A	61832138	A	A	61832138	3	1	138	1	0	0	0	0	1	0	0	0	622	1319	46	3	4973	3	ANK3	10	61832138	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	9745086	61832138	73702609	222	49361	906	2								
ANK3	288	broad.mit.edu	37	chr10	61832139	61832139	+	Missense_Mutation	SNP	C	A	A													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atctgaggttatatgacatgCcaagtctttagcctgctgct							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:61832139C>A	uc001jky.2	-	37	8692	c.8500G>T	c.(8500-8502)GCA>TCA	p.A2834S	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2834					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						ATATGACATGCCAAGTCTTTA	0.408													35	102	---	---	---	---	PASS	A	61832139	A	A	61832139	3	1	138	1	0	0	0	0	1	0	0	0	622	739	26	3	4974	3	ANK3	10	61832139	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1	61832139	73702608	223	49362	906	2								
RHOBTB1	9886	broad.mit.edu	37	chr10	62652698	62652698	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tggataccacatgcttttcaCatgatttagggaattgggat	10	6	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:62652698C>A	uc001jli.2	-	6	790	c.352G>T	c.(352-354)GTG>TTG	p.V118L	RHOBTB1_uc001jlh.2_Missense_Mutation_p.V118L|RHOBTB1_uc001jlj.2_Missense_Mutation_p.V118L|RHOBTB1_uc001jlk.2_Missense_Mutation_p.V118L|RHOBTB1_uc009xpe.1_Intron	NM_014836	NP_055651	O94844	RHBT1_HUMAN	Rho-related BTB domain containing 1	118	Rho-like.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)					ATGCTTTTCACATGATTTAGG	0.438													14	96	---	---	---	---	PASS	A	62652698	A	A	62652698	3	1	138	1	0	0	0	0	1	0	0	0	13333	478	17	3	1766	3	RHOBTB1	10	62652698	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	820559	62652698	72882049	224	49363										
CTNNA3	29119	broad.mit.edu	37	chr10	68526159	68526159	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agagtctgacacatgatctaTaatagccttgcggagctgag	11	8	2	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:68526159T>A	uc009xpn.1	-	9	1267	c.1144A>T	c.(1144-1146)ATA>TTA	p.I382L	CTNNA3_uc001jmw.2_Missense_Mutation_p.I382L|CTNNA3_uc001jmx.3_Missense_Mutation_p.I382L	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	382					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						ACATGATCTATAATAGCCTTG	0.383													34	71	---	---	---	---	PASS	A	68526159	A	A	68526159	3	1	138	1	0	0	0	0	1	0	0	0	4014	1406	49	5	1583	5	CTNNA3	10	68526159	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	5873461	68526159	67008588	225	49364										
CDH23	64072	broad.mit.edu	37	chr10	73464789	73464789	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cgtggtggtcaccaccaccgAgctggaccgcgagcgcatcg	14	15	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:73464789A>T	uc001jrx.3	+	24	3232	c.2855A>T	c.(2854-2856)GAG>GTG	p.E952V	CDH23_uc001jry.2_Missense_Mutation_p.E568V|CDH23_uc001jrz.2_Missense_Mutation_p.E568V	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	952	Cadherin 9.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						ACCACCACCGAGCTGGACCGC	0.667													32	88	---	---	---	---	PASS	T	73464789	T	T	73464789	3	4	138	1	0	0	0	0	1	0	0	0	3108	304	11	5	3176	5	CDH23	10	73464789	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	4938630	73464789	62069958	226	49365										
LIPK	643414	broad.mit.edu	37	chr10	90490874	90490874	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgtggttggggaacagccgaGgaaacacttggtccagaaaa	14	7	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:90490874G>A	uc010qmv.1	+	3	358	c.358G>A	c.(358-360)GGA>AGA	p.G120R		NM_001080518	NP_001073987	Q5VXJ0	LIPK_HUMAN	lipase, family member K precursor	120					lipid catabolic process	extracellular region	hydrolase activity			ovary(2)	2		Colorectal(252;0.0381)		Colorectal(12;7.03e-05)|COAD - Colon adenocarcinoma(12;8.33e-05)		GAACAGCCGAGGAAACACTTG	0.438													3	21	---	---	---	---	PASS	A	90490874	A	A	90490874	3	1	138	1	0	0	0	0	1	0	0	0	8827	1001	35	3	368	3	LIPK	10	90490874	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	17026085	90490874	45043873	227	49366										
PDCD11	22984	broad.mit.edu	37	chr10	105200258	105200258	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aggaggaggtggagatgcccAgcaaggagaagcaacagccc	16	9	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:105200258A>T	uc001kwy.1	+	29	4447	c.4360A>T	c.(4360-4362)AGC>TGC	p.S1454C		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1454					mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		ggagATGCCCAGCAAGGAGAA	0.363													5	29	---	---	---	---	PASS	T	105200258	T	T	105200258	3	4	138	1	0	0	0	0	1	0	0	0	11617	188	7	5	4470	5	PDCD11	10	105200258	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	14709384	105200258	30334489	228	49367										
PDZD8	118987	broad.mit.edu	37	chr10	119044590	119044590	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggactgaattttcggtggtaGtgggtgacttcctacagcta	13	7	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:119044590G>C	uc001lde.1	-	5	1853	c.1654C>G	c.(1654-1656)CTA>GTA	p.L552V		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	552	Pro-rich.				intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		TTCGGTGGTAGTGGGTGACTT	0.418													13	153	---	---	---	---	PASS	C	119044590	C	C	119044590	3	2	138	1	0	0	0	0	1	0	0	0	11705	1020	36	4	1814	4	PDZD8	10	119044590	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	13844332	119044590	16490157	229	49368										
CPXM2	119587	broad.mit.edu	37	chr10	125506412	125506412	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttgctaagtgtgaagtcacaCcttgtggcccccatgtcata	9	11	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr10:125506412C>G	uc001lhk.1	-	14	2464	c.2139G>C	c.(2137-2139)AGG>AGC	p.R713S	CPXM2_uc001lhj.2_Intron	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	713					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		TGAAGTCACACCTTGTGGCCC	0.552													30	186	---	---	---	---	PASS	G	125506412	G	G	125506412	3	3	138	1	0	0	0	0	1	0	0	0	3838	506	18	4	135	4	CPXM2	10	125506412	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	6461822	125506412	10028335	230	49369										
SIGIRR	59307	broad.mit.edu	37	chr11	405988	405988	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gacgtccacttcgctgctccGgctctctcccagcgagaccc	9	19	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:405988G>A	uc001lpd.2	-	10	1471	c.1141C>T	c.(1141-1143)CGG>TGG	p.R381W	SIGIRR_uc001lpf.2_Missense_Mutation_p.R381W|SIGIRR_uc001lpe.1_Missense_Mutation_p.R381W|SIGIRR_uc001lpg.2_Missense_Mutation_p.P477L	NM_001135054	NP_001128526	Q6IA17	SIGIR_HUMAN	single Ig IL-1R-related molecule	381	Cytoplasmic (Potential).				acute-phase response|innate immune response|negative regulation of chemokine biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of lipopolysaccharide-mediated signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity	integral to membrane	protein binding|transmembrane receptor activity				0		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TCGCTGCTCCGGCTCTCTCCC	0.632													3	20	---	---	---	---	PASS	A	405988	A	A	405988	3	1	138	1	0	0	0	0	1	0	0	0	14304	1115	39	1	95	1	SIGIRR	11	405988	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08		405988	134600528	231	49370										
TRIM21	6737	broad.mit.edu	37	chr11	4407416	4407416	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcctcagcatcttcttcagcCctggcacatggcacacactc	6	17	4	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:4407416C>T	uc001lyy.1	-	6	943	c.830G>A	c.(829-831)GGG>GAG	p.G277E		NM_003141	NP_003132	P19474	RO52_HUMAN	tripartite motif protein 21	277	B30.2/SPRY.				cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein deubiquitination|positive regulation of cell cycle|protein autoubiquitination|protein destabilization|protein monoubiquitination|protein polyubiquitination|protein trimerization	cytoplasmic mRNA processing body|nucleus	DNA binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;2.08e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0851)|LUSC - Lung squamous cell carcinoma(625;0.194)		CTTCTTCAGCCCTGGCACATG	0.542													13	51	---	---	---	---	PASS	T	4407416	T	T	4407416	3	4	138	1	0	0	0	0	1	0	0	0	16492	623	22	3	605	3	TRIM21	11	4407416	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	4001428	4407416	130599100	232	49371										
OR52A4	390053	broad.mit.edu	37	chr11	5142212	5142212	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aggataccatagaccttattAatgtaaacatcttcagtggc	7	8	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:5142212A>G	uc001lzz.1	-	1	597	c.597T>C	c.(595-597)ATT>ATC	p.I199I		NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		AGACCTTATTAATGTAAACAT	0.388													11	55	---	---	---	---	PASS	G	5142212	G	G	5142212	2	3	138	1	0	0	0	0	0	0	0	1	11109	358	13	5		5	OR52A4	11	5142212	Silent	SNP	A	TCGA-63-6202-01A-11D-1817-08	734796	5142212	129864304	233	49372										
PARVA	55742	broad.mit.edu	37	chr11	12540006	12540006	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgccaggtcttgaatgtctcCtttgcctttgagctcatgca	9	11	3	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:12540006C>T	uc001mki.2	+	12	1033	c.984C>T	c.(982-984)TCC>TCT	p.S328S		NM_018222	NP_060692	Q9NVD7	PARVA_HUMAN	parvin, alpha	328	CH 2.				cell adhesion|cell junction assembly|cilium morphogenesis	actin cytoskeleton|cytosol|focal adhesion	actin binding			breast(3)	3				Epithelial(150;0.00624)		TGAATGTCTCCTTTGCCTTTG	0.542													6	30	---	---	---	---	PASS	T	12540006	T	T	12540006	2	4	138	1	0	0	0	0	0	0	0	1	11468	668	24	3		3	PARVA	11	12540006	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	7397794	12540006	122466510	234	49373										
PIK3C2A	5286	broad.mit.edu	37	chr11	17141433	17141433	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aacccatttccagtttggggCgcttgctaatattttaggaa	9	8	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:17141433C>A	uc001mmq.3	-	15	2812	c.2746G>T	c.(2746-2748)GCC>TCC	p.A916S	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Missense_Mutation_p.A536S|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	916					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity	p.A916T(1)		lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	CAGTTTGGGGCGCTTGCTAAT	0.363													24	62	---	---	---	---	PASS	A	17141433	A	A	17141433	3	1	138	1	0	0	0	0	1	0	0	0	11909	768	27	1	2386	1	PIK3C2A	11	17141433	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	4601427	17141433	117865083	235	49374										
ABCC8	6833	broad.mit.edu	37	chr11	17450120	17450120	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccgggcactcaccaccgcctGgtacttgctggctgggccct	12	17	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:17450120G>C	uc001mnc.2	-	13	2041	c.1915C>G	c.(1915-1917)CAG>GAG	p.Q639E		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	639	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)	ACCACCGCCTGGTACTTGCTG	0.607													14	45	---	---	---	---	PASS	C	17450120	C	C	17450120	3	2	138	1	0	0	0	0	1	0	0	0	58	1357	47	4	2938	4	ABCC8	11	17450120	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	308687	17450120	117556396	236	49375										
RAG1	5896	broad.mit.edu	37	chr11	36596185	36596185	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gttcctgctggctctgagggCgaggaatgagcacaggcaag	16	9	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:36596185C>T	uc001mwu.3	+	2	1455	c.1331C>T	c.(1330-1332)GCG>GTG	p.A444V	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	444	NBD.		A -> V (in OS/T(-)B(-)NK(+) SCID; atypical).		histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				GCTCTGAGGGCGAGGAATGAG	0.562									Familial_Hemophagocytic_Lymphohistiocytosis				9	68	---	---	---	---	PASS	T	36596185	T	T	36596185	3	4	138	1	0	0	0	0	1	0	0	0	13003	768	27	1	1333	1	RAG1	11	36596185	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	19146065	36596185	98410331	237	49376										
TRIM48	79097	broad.mit.edu	37	chr11	55032733	55032733	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgtttgctgtgctccagctcTcaggagcaccggtatcacag	11	12	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:55032733T>A	uc010rid.1	+	2	488	c.402T>A	c.(400-402)TCT>TCA	p.S134S		NM_024114	NP_077019	Q8IWZ4	TRI48_HUMAN	tripartite motif-containing 48	118	B box-type.					intracellular	zinc ion binding				0						GCTCCAGCTCTCAGGAGCACC	0.512													18	59	---	---	---	---	PASS	A	55032733	A	A	55032733	2	1	138	1	0	0	0	0	0	0	0	1	16520	1538	54	5		5	TRIM48	11	55032733	Silent	SNP	T	TCGA-63-6202-01A-11D-1817-08	18436548	55032733	79973783	238	49377										
OR4C6	219432	broad.mit.edu	37	chr11	55433515	55433515	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tatacactgaggaatgcagaGgtgaaaagtgccatgaagaa	12	5	0	5			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:55433515G>T	uc001nht.3	+	3	1138	c.873G>T	c.(871-873)GAG>GAT	p.E291D	OR4C6_uc010rik.1_Missense_Mutation_p.E291D	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	291	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GGAATGCAGAGGTGAAAAGTG	0.458													14	44	---	---	---	---	PASS	T	55433515	T	T	55433515	3	4	138	1	0	0	0	0	1	0	0	0	11052	991	35	3	875	3	OR4C6	11	55433515	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	400782	55433515	79573001	239	49378										
OR5W2	390148	broad.mit.edu	37	chr11	55681351	55681351	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gaagtgcatgtagagagagcTttgaacctcccctcagcaga	11	10	1	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:55681351T>A	uc010rir.1	-	1	708	c.708A>T	c.(706-708)AAA>AAT	p.K236N		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TAGAGAGAGCTTTGAACCTCC	0.408													16	55	---	---	---	---	PASS	A	55681351	A	A	55681351	3	1	138	1	0	0	0	0	1	0	0	0	11185	1606	56	5	226	5	OR5W2	11	55681351	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	247836	55681351	79325165	240	49379										
OR8K1	390157	broad.mit.edu	37	chr11	56113545	56113545	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tggtaaaacacaatcacacgGcagtgaccaaggtgactgaa	10	9	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:56113545G>T	uc010rjg.1	+	1	31	c.31G>T	c.(31-33)GCA>TCA	p.A11S		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					CAATCACACGGCAGTGACCAA	0.378										HNSCC(65;0.19)			10	61	---	---	---	---	PASS	T	56113545	T	T	56113545	3	4	138	1	0	0	0	0	1	0	0	0	11243	1203	42	3	33	3	OR8K1	11	56113545	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	432194	56113545	78892971	241	49380										
MARK2	2011	broad.mit.edu	37	chr11	63672277	63672277	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcacagccccccagcgtgtcCctgttgcctccccatccgcc	8	22	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:63672277C>T	uc001nxw.2	+	16	2275	c.1696C>T	c.(1696-1698)CCT>TCT	p.P566S	MARK2_uc001nxx.2_Missense_Mutation_p.P512S|MARK2_uc001nxy.2_Missense_Mutation_p.P511S|MARK2_uc001nxv.3_Missense_Mutation_p.P511S|MARK2_uc001nxz.3_Missense_Mutation_p.P532S|MARK2_uc009yoy.2_Missense_Mutation_p.P486S	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	566					cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						CCAGCGTGTCCCTGTTGCCTC	0.627													14	59	---	---	---	---	PASS	T	63672277	T	T	63672277	3	4	138	1	0	0	0	0	1	0	0	0	9313	623	22	3	1758	3	MARK2	11	63672277	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	7558732	63672277	71334239	242	49381										
SNX32	254122	broad.mit.edu	37	chr11	65620199	65620199	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaccgggaggtgcggcccgcCgagagccaccagcagctgtg	16	14	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:65620199C>T	uc001ofr.2	+	11	1138	c.1011C>T	c.(1009-1011)GCC>GCT	p.A337A		NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B	337					cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		TGCGGCCCGCCGAGAGCCACC	0.701													4	19	---	---	---	---	PASS	T	65620199	T	T	65620199	2	4	138	1	0	0	0	0	0	0	0	1	14902	639	23	1		1	SNX32	11	65620199	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	1947922	65620199	69386317	243	49382										
PCF11	51585	broad.mit.edu	37	chr11	82868499	82868499	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcaatgtcagagcagacgccGgccgaggccggtgctgcggg	18	12	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:82868499G>T	uc001ozx.3	+	1	363	c.18G>T	c.(16-18)CCG>CCT	p.P6P	PCF11_uc010rsu.1_Silent_p.P6P|PCF11_uc001ozy.2_Silent_p.P6P	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	6					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						AGCAGACGCCGGCCGAGGCCG	0.652													23	58	---	---	---	---	PASS	T	82868499	T	T	82868499	2	4	138	1	0	0	0	0	0	0	0	1	11573	1103	39	1		1	PCF11	11	82868499	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	17248300	82868499	52138017	244	49383										
FAT3	120114	broad.mit.edu	37	chr11	92616492	92616492	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agtgtggcccccaacctcccCgccgtgtcaccctgccgctc	9	21	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:92616492C>T	uc001pdj.3	+	23	12887	c.12870C>T	c.(12868-12870)CCC>CCT	p.P4290P	FAT3_uc001pdi.3_Silent_p.P730P	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4290	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CCAACCTCCCCGCCGTGTCAC	0.652										TCGA Ovarian(4;0.039)			10	23	---	---	---	---	PASS	T	92616492	T	T	92616492	2	4	138	1	0	0	0	0	0	0	0	1	5691	639	23	1		1	FAT3	11	92616492	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	9747993	92616492	42390024	245	49384										
EXPH5	23086	broad.mit.edu	37	chr11	108381393	108381393	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggaagatagtagctacatgtCttctggggcttacatcttta	10	7	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:108381393C>T	uc001pkk.2	-	6	4952	c.4841G>A	c.(4840-4842)AGA>AAA	p.R1614K	EXPH5_uc010rvy.1_Missense_Mutation_p.R1426K|EXPH5_uc010rvz.1_Missense_Mutation_p.R1458K|EXPH5_uc010rwa.1_Missense_Mutation_p.R1538K	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1614					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		AGCTACATGTCTTCTGGGGCT	0.463													12	137	---	---	---	---	PASS	T	108381393	T	T	108381393	3	4	138	1	0	0	0	0	1	0	0	0	5322	913	32	2	1132	2	EXPH5	11	108381393	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	15764901	108381393	26625123	246	49385										
MLL	4297	broad.mit.edu	37	chr11	118374454	118374454	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcaggaggatggctcttttaAaaggaggtatccccgtcgca	12	9	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:118374454A>G	uc001pta.2	+	27	7861	c.7838A>G	c.(7837-7839)AAA>AGA	p.K2613R	MLL_uc001ptb.2_Missense_Mutation_p.K2616R	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2613					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GGCTCTTTTAAAAGGAGGTAT	0.468			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								14	33	---	---	---	---	PASS	G	118374454	G	G	118374454	3	3	138	1	0	0	0	0	1	0	0	0	9620	14	1	5	7944	5	MLL	11	118374454	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	9993061	118374454	16632062	247	49386										
FEZ1	9638	broad.mit.edu	37	chr11	125359548	125359548	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaattctcaagctcggagagGgaggggtcctcgagatggtg	16	7	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:125359548G>T	uc001qbx.2	-	2	278	c.126C>A	c.(124-126)TCC>TCA	p.S42S	FEZ1_uc010sbc.1_Silent_p.S42S|FEZ1_uc001qby.1_Silent_p.S42S	NM_005103	NP_005094	Q99689	FEZ1_HUMAN	zygin 1 isoform 1	42					axon guidance|cell adhesion|transport	microtubule|plasma membrane				central_nervous_system(3)|ovary(1)	4	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0934)		GCTCGGAGAGGGAGGGGTCCT	0.502													19	93	---	---	---	---	PASS	T	125359548	T	T	125359548	2	4	138	1	0	0	0	0	0	0	0	1	5823	1219	43	3		3	FEZ1	11	125359548	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	6985094	125359548	9646968	248	49387										
B3GAT1	27087	broad.mit.edu	37	chr11	134254047	134254047	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtactccctggggtcggcgcCgggcggcgtttcgcgtcggg	19	13	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr11:134254047C>T	uc001qhq.2	-	4	409	c.148G>A	c.(148-150)GGC>AGC	p.G50S	B3GAT1_uc001qhr.2_Missense_Mutation_p.G50S|B3GAT1_uc010scv.1_Missense_Mutation_p.G63S	NM_018644	NP_061114	Q9P2W7	B3GA1_HUMAN	beta-1,3-glucuronyltransferase 1	50	Lumenal (Potential).				carbohydrate metabolic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.39e-23)|all_epithelial(12;7.17e-17)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|Medulloblastoma(222;0.0125)|all_neural(223;0.0137)|Esophageal squamous(93;0.0559)		Epithelial(10;2.58e-11)|all cancers(11;5.75e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.000879)|Lung(977;0.0864)		GGGTCGGCGCCGGGCGGCGTT	0.701													8	21	---	---	---	---	PASS	T	134254047	T	T	134254047	3	4	138	1	0	0	0	0	1	0	0	0	1253	652	23	1	868	1	B3GAT1	11	134254047	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	8894499	134254047	752469	249	49388										
ERC1	23085	broad.mit.edu	37	chr12	1137166	1137166	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gttcccctcgcttgggtcacCgtcgaaccaacagtacggga	11	14	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:1137166C>T	uc001qjb.2	+	2	338	c.97C>T	c.(97-99)CGT>TGT	p.R33C	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.R33C|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.R33C	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	33					I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			CTTGGGTCACCGTCGAACCAA	0.552													33	123	---	---	---	---	PASS	T	1137166	T	T	1137166	3	4	138	1	0	0	0	0	1	0	0	0	5210	652	23	1	99	1	ERC1	12	1137166	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08		1137166	132714729	250	49389										
CACNA2D4	93589	broad.mit.edu	37	chr12	2027512	2027512	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcttctgcacaaaggcccagGccacgggcattggctggagg	14	12	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:2027512G>T	uc001qjp.2	-	1	359	c.128C>A	c.(127-129)GCC>GAC	p.A43D	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Missense_Mutation_p.A43D	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	43	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		AAAGGCCCAGGCCACGGGCAT	0.652													10	11	---	---	---	---	PASS	T	2027512	T	T	2027512	3	4	138	1	0	0	0	0	1	0	0	0	2551	1203	42	3	3437	3	CACNA2D4	12	2027512	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	890346	2027512	131824383	251	49390										
CD27	939	broad.mit.edu	37	chr12	6560174	6560174	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tccatcaacgaaggaaatatAgatcaagtaagagacagaac	8	7	2	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:6560174A>T	uc001qod.2	+	5	863	c.652A>T	c.(652-654)AGA>TGA	p.R218*	LOC678655_uc001qob.2_Intron|LOC678655_uc001qoc.2_Intron|LOC678655_uc009zel.1_RNA|CD27_uc001qoe.2_Nonsense_Mutation_p.R68*|LOC678655_uc009zem.1_Intron|LOC678655_uc001qof.2_Intron|TAPBPL_uc001qog.3_5'Flank|TAPBPL_uc001qoh.3_5'Flank|TAPBPL_uc001qoi.1_5'Flank	NM_001242	NP_001233	P26842	CD27_HUMAN	tumor necrosis factor receptor superfamily,	218	Cytoplasmic (Potential).				anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway|immunoglobulin mediated immune response|induction of apoptosis|positive regulation of B cell differentiation|positive regulation of JNK cascade|release of cytoplasmic sequestered NF-kappaB	extracellular region|integral to plasma membrane	caspase inhibitor activity|protein binding|transmembrane receptor activity				0						AAGGAAATATAGATCAAGTAA	0.542													9	144	---	---	---	---	PASS	T	6560174	T	T	6560174	4	4	138	1	0	0	0	0	0	1	0	0	2990	412	15	5	670	5	CD27	12	6560174	Nonsense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	4532662	6560174	127291721	252	49391										
PLCZ1	89869	broad.mit.edu	37	chr12	18854646	18854646	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cacgcttatcagaaccttttCtttcatgggtttcctttaag	6	10	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:18854646C>A	uc010sid.1	-	8	1120	c.929G>T	c.(928-930)AGA>ATA	p.R310I	PLCZ1_uc001rdv.3_Missense_Mutation_p.R206I|PLCZ1_uc001rdw.3_Missense_Mutation_p.R51I|PLCZ1_uc001rdu.1_Missense_Mutation_p.R51I|PLCZ1_uc009zil.1_RNA	NM_033123	NP_149114	Q86YW0	PLCZ1_HUMAN	phospholipase C, zeta 1	310					intracellular signal transduction|lipid catabolic process|multicellular organismal development	nucleus|perinuclear region of cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)					AGAACCTTTTCTTTCATGGGT	0.269													10	19	---	---	---	---	PASS	A	18854646	A	A	18854646	3	1	138	1	0	0	0	0	1	0	0	0	12044	913	32	2	929	2	PLCZ1	12	18854646	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	12294472	18854646	114997249	253	49392										
GYS2	2998	broad.mit.edu	37	chr12	21711179	21711179	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaaagtccaatccgtctaatGgtgctgaggatggggtcggt	14	7	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:21711179G>A	uc001rfb.2	-	11	1632	c.1377C>T	c.(1375-1377)ACC>ACT	p.T459T		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	459					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						TCCGTCTAATGGTGCTGAGGA	0.428													16	76	---	---	---	---	PASS	A	21711179	A	A	21711179	2	1	138	1	0	0	0	0	0	0	0	1	6913	1335	47	3		3	GYS2	12	21711179	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	2856533	21711179	112140716	254	49393										
ETNK1	55500	broad.mit.edu	37	chr12	22812020	22812020	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tggatccccaaatctaatctTtggctaaagatgggaaagta	9	7	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:22812020T>G	uc001rft.2	+	3	778	c.756T>G	c.(754-756)CTT>CTG	p.L252L	ETNK1_uc009ziz.2_Silent_p.L252L	NM_018638	NP_061108	Q9HBU6	EKI1_HUMAN	ethanolamine kinase 1 isoform A	252				RLIARQLAKIHAIHAHNGWIPKSNLWLKMGK -> SLSSLT LCKGKTTRCFGLTGCRGSRLLLSFF (in Ref. 2; AAH06111).	phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|ethanolamine kinase activity				0						AATCTAATCTTTGGCTAAAGA	0.338													16	69	---	---	---	---	PASS	G	22812020	G	G	22812020	2	3	138	1	0	0	0	0	0	0	0	1	5273	1828	64	5		5	ETNK1	12	22812020	Silent	SNP	T	TCGA-63-6202-01A-11D-1817-08	1100841	22812020	111039875	255	49394										
KRAS	3845	broad.mit.edu	37	chr12	25380275	25380275	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctcattgcactgtactcctcTtgacctgctgtgtcgagaat	8	12	2	2	rs17851045		TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:25380275T>A	uc001rgp.1	-	3	364	c.183A>T	c.(181-183)CAA>CAT	p.Q61H	KRAS_uc001rgq.1_Missense_Mutation_p.Q61H	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	61	GTP.		Q -> R (in a colorectal cancer sample; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.Q61H(140)|p.Q61L(51)|p.Q61R(44)|p.Q61K(24)|p.Q61P(11)|p.Q61E(10)|p.Q61D(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			TGTACTCCTCTTGACCTGCTG	0.423	Q61H(T3M4_PANCREAS)|Q61H(HS766T_PANCREAS)|Q61H(NCIH460_LUNG)|Q61H(NCIH1155_LUNG)|Q61H(CL11_LARGE_INTESTINE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			31	44	---	---	---	---	PASS	A	25380275	A	A	25380275	3	1	138	1	0	0	0	0	1	0	0	0	8438	1606	56	5	519	5	KRAS	12	25380275	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	2568255	25380275	108471620	256	49395										
KIF21A	55605	broad.mit.edu	37	chr12	39735383	39735383	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcttcctcctcctcctcctcCtcttcttcatcctcatgatc	1	20	5	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:39735383C>A	uc001rly.2	-	14	1991	c.1845G>T	c.(1843-1845)GAG>GAT	p.E615D	KIF21A_uc001rlw.2_5'Flank|KIF21A_uc001rlx.2_Missense_Mutation_p.E602D|KIF21A_uc001rlz.2_Missense_Mutation_p.E602D|KIF21A_uc010skl.1_Missense_Mutation_p.E602D	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	615					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				cctcctcctcctcttcttcat	0.303													10	32	---	---	---	---	PASS	A	39735383	A	A	39735383	3	1	138	1	0	0	0	0	1	0	0	0	8288	680	24	3	3279	3	KIF21A	12	39735383	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	14355108	39735383	94116512	257	49396										
SLC2A13	114134	broad.mit.edu	37	chr12	40441918	40441918	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cttgcaaagaactgccctccTgtgatgaagagggtattaat	10	8	0	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:40441918T>C	uc010skm.1	-	2	702	c.651A>G	c.(649-651)ACA>ACG	p.T217T	SLC2A13_uc001rmf.2_Silent_p.T217T	NM_052885	NP_443117	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose	217	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)				ACTGCCCTCCTGTGATGAAGA	0.408										HNSCC(50;0.14)			42	154	---	---	---	---	PASS	C	40441918	C	C	40441918	2	2	138	1	0	0	0	0	0	0	0	1	14542	1567	55	5		5	SLC2A13	12	40441918	Silent	SNP	T	TCGA-63-6202-01A-11D-1817-08	706535	40441918	93409977	258	49397										
MLL2	8085	broad.mit.edu	37	chr12	49431525	49431525	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tttccagcagggaggatcctCctgggccactcagtgggctg	14	12	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:49431525C>A	uc001rta.3	-	34	9614	c.9614G>T	c.(9613-9615)GGA>GTA	p.G3205V		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3205					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GGAGGATCCTCCTGGGCCACT	0.602			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			3	5	---	---	---	---	PASS	A	49431525	A	A	49431525	3	1	138	1	0	0	0	0	1	0	0	0	9621	855	30	2	7083	2	MLL2	12	49431525	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	8989607	49431525	84420370	259	49398										
NCKAP5L	57701	broad.mit.edu	37	chr12	50185658	50185658	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	caagaggacagcgagtcgtaGagtgagtcactgagagactc	14	8	1	5			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:50185658G>C	uc009zlk.2	-	13	4171	c.3969C>G	c.(3967-3969)CTC>CTG	p.L1323L	NCKAP5L_uc001rvc.3_Silent_p.L527L|NCKAP5L_uc001rvb.2_3'UTR	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	1319										central_nervous_system(1)	1						GCGAGTCGTAGAGTGAGTCAC	0.677													4	26	---	---	---	---	PASS	C	50185658	C	C	50185658	2	2	138	1	0	0	0	0	0	0	0	1	10224	929	33	2		2	NCKAP5L	12	50185658	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	754133	50185658	83666237	260	49399										
KRT71	112802	broad.mit.edu	37	chr12	52942093	52942093	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgatgtgggactggatctgaGtgatctcctgcaggggacac	15	8	2	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:52942093G>T	uc001sao.2	-	5	891	c.821C>A	c.(820-822)ACT>AAT	p.T274N		NM_033448	NP_258259	Q3SY84	K2C71_HUMAN	keratin 71	274	Coil 1B.|Rod.						structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.194)		CTGGATCTGAGTGATCTCCTG	0.532													31	54	---	---	---	---	PASS	T	52942093	T	T	52942093	3	4	138	1	0	0	0	0	1	0	0	0	8484	1029	36	3	770	3	KRT71	12	52942093	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	2756435	52942093	80909802	261	49400										
STAT6	6778	broad.mit.edu	37	chr12	57492632	57492632	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	caggggccattccaaggtcaTaagaaggcaccatggtaggc	13	10	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:57492632T>C	uc009zpe.2	-	18	2260	c.2009A>G	c.(2008-2010)TAT>TGT	p.Y670C	STAT6_uc009zpf.2_Missense_Mutation_p.Y670C|STAT6_uc001sna.2_Missense_Mutation_p.Y670C|STAT6_uc010srb.1_Missense_Mutation_p.Y560C|STAT6_uc010src.1_Missense_Mutation_p.Y560C|STAT6_uc010srd.1_Missense_Mutation_p.Y560C|STAT6_uc009zpg.2_Missense_Mutation_p.Y719C	NM_003153	NP_003144	P42226	STAT6_HUMAN	signal transducer and activator of transcription	670					regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(2)|lung(1)|skin(1)	4						TCCAAGGTCATAAGAAGGCAC	0.542													43	154	---	---	---	---	PASS	C	57492632	C	C	57492632	3	2	138	1	0	0	0	0	1	0	0	0	15269	1406	49	5	554	5	STAT6	12	57492632	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	4550539	57492632	76359263	262	49401										
CAND1	55832	broad.mit.edu	37	chr12	67706425	67706425	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agcaggagtttgaaaaacaaGatgaattaaagcgatctgcc	10	6	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:67706425G>A	uc001stn.2	+	15	3945	c.3508G>A	c.(3508-3510)GAT>AAT	p.D1170N	CAND1_uc001sto.2_Missense_Mutation_p.D680N	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	1170	HEAT 27.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		TGAAAAACAAGATGAATTAAA	0.398													14	17	---	---	---	---	PASS	A	67706425	A	A	67706425	3	1	138	1	0	0	0	0	1	0	0	0	2615	942	33	2	3566	2	CAND1	12	67706425	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	10213793	67706425	66145470	263	49402										
NAV3	89795	broad.mit.edu	37	chr12	78225481	78225481	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gccaaggagaaagaagacagCaaggttagttgctgaagtta	13	5	0	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:78225481C>G	uc001syp.2	+	1	413	c.240C>G	c.(238-240)AGC>AGG	p.S80R	NAV3_uc001syo.2_Missense_Mutation_p.S80R	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	80	CH.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AAGAAGACAGCAAGGTTAGTT	0.413										HNSCC(70;0.22)			16	21	---	---	---	---	PASS	G	78225481	G	G	78225481	3	3	138	1	0	0	0	0	1	0	0	0	10185	709	25	4	242	4	NAV3	12	78225481	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	10519056	78225481	55626414	264	49403										
C12orf12	196477	broad.mit.edu	37	chr12	91348137	91348137	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcacccagccagggttccagGacccgctccagcaggagcag	12	16	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:91348137G>C	uc001tbj.2	-	1	817	c.383C>G	c.(382-384)TCC>TGC	p.S128C		NM_152638	NP_689851	Q8TC90	CL012_HUMAN	hypothetical protein LOC196477	128										central_nervous_system(1)|pancreas(1)	2						AGGGTTCCAGGACCCGCTCCA	0.677													3	33	---	---	---	---	PASS	C	91348137	C	C	91348137	3	2	138	1	0	0	0	0	1	0	0	0	1676	1174	41	2	841	2	C12orf12	12	91348137	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	13122656	91348137	42503758	265	49404										
MYO1H	283446	broad.mit.edu	37	chr12	109834222	109834222	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gacaacgcttaccgaatgatGtgtgctgaactaaataacca	8	9	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:109834222G>T	uc010sxn.1	+	3	276	c.276G>T	c.(274-276)ATG>ATT	p.M92I		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						ACCGAATGATGTGTGCTGAAC	0.463													11	41	---	---	---	---	PASS	T	109834222	T	T	109834222	3	4	138	1	0	0	0	0	1	0	0	0	10075	1377	48	3	286	3	MYO1H	12	109834222	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	18486085	109834222	24017673	266	49405										
MVK	4598	broad.mit.edu	37	chr12	110019347	110019347	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccgctgaaggacggggattgCgtcaacaggtaaccatggtc	14	10	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:110019347C>T	uc001toy.3	+	5	703	c.519C>T	c.(517-519)TGC>TGT	p.C173C	MVK_uc009zvk.2_Silent_p.C173C|MVK_uc010sxr.1_Intron|MVK_uc001toz.3_Intron|MVK_uc001tpc.3_RNA	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase	173					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0						ACGGGGATTGCGTCAACAGGT	0.522													8	39	---	---	---	---	PASS	T	110019347	T	T	110019347	2	4	138	1	0	0	0	0	0	0	0	1	9995	776	27	1		1	MVK	12	110019347	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	185125	110019347	23832548	267	49406										
SRRM4	84530	broad.mit.edu	37	chr12	119583443	119583443	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcctcaccccagaacaagggGgccatgttggagaatctctc	10	13	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:119583443G>C	uc001txa.1	+	9	1321	c.1029G>C	c.(1027-1029)GGG>GGC	p.G343G		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	343	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						AGAACAAGGGGGCCATGTTGG	0.617													6	16	---	---	---	---	PASS	C	119583443	C	C	119583443	2	2	138	1	0	0	0	0	0	0	0	1	15170	1219	43	4		4	SRRM4	12	119583443	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	9564096	119583443	14268452	268	49407										
PIWIL1	9271	broad.mit.edu	37	chr12	130845880	130845880	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gctacaaagattgccctacaGatgaactgcaagatgggagg	12	8	0	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr12:130845880G>T	uc001uik.2	+	15	1911	c.1821G>T	c.(1819-1821)CAG>CAT	p.Q607H	PIWIL1_uc001uij.1_Missense_Mutation_p.Q607H	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	607	RNA-binding (By similarity).|Piwi.				gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		TTGCCCTACAGATGAACTGCA	0.473													40	59	---	---	---	---	PASS	T	130845880	T	T	130845880	3	4	138	1	0	0	0	0	1	0	0	0	11957	933	33	2	1875	2	PIWIL1	12	130845880	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	11262437	130845880	3006015	269	49408										
SACS	26278	broad.mit.edu	37	chr13	23905162	23905162	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tttggaagaagtcttgtggcTctctctaccagagaaaagag	11	7	3	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr13:23905162T>A	uc001uon.2	-	10	13442	c.12853A>T	c.(12853-12855)AGC>TGC	p.S4285C	SACS_uc001uoo.2_Missense_Mutation_p.S4138C|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	4285					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GTCTTGTGGCTCTCTCTACCA	0.478													24	76	---	---	---	---	PASS	A	23905162	A	A	23905162	3	1	138	1	0	0	0	0	1	0	0	0	13804	1551	54	5	890	5	SACS	13	23905162	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08		23905162	91264716	270	49409										
AKAP11	11215	broad.mit.edu	37	chr13	42874720	42874720	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	actaaaagaacgtgccattaGtggcctggctaactttttgg	10	8	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr13:42874720G>T	uc001uys.1	+	8	2013	c.1838G>T	c.(1837-1839)AGT>ATT	p.S613I		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	613					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		CGTGCCATTAGTGGCCTGGCT	0.388													12	54	---	---	---	---	PASS	T	42874720	T	T	42874720	3	4	138	1	0	0	0	0	1	0	0	0	447	1029	36	3	1860	3	AKAP11	13	42874720	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	18969558	42874720	72295158	271	49410										
CYSLTR2	57105	broad.mit.edu	37	chr13	49281661	49281661	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaagtggaggtcccagaatcGgggctgcgggtttctcacag	15	9	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr13:49281661G>T	uc010acx.1	+	6	1391	c.708G>T	c.(706-708)TCG>TCT	p.S236S	CYSLTR2_uc010acy.1_Silent_p.S236S|CYSLTR2_uc010acz.1_Silent_p.S236S|CYSLTR2_uc010ada.1_Silent_p.S236S|CYSLTR2_uc010adb.1_Silent_p.S236S|CYSLTR2_uc010adc.1_Silent_p.S236S|CYSLTR2_uc010add.1_Silent_p.S236S|CYSLTR2_uc010acw.1_Silent_p.S236S|CYSLTR2_uc001vck.2_Silent_p.S236S	NM_020377	NP_065110	Q9NS75	CLTR2_HUMAN	cysteinyl leukotriene receptor 2	236	Cytoplasmic (Potential).				immune response	integral to membrane|plasma membrane				lung(2)	2		all_cancers(8;1.66e-53)|all_epithelial(8;1.96e-19)|all_lung(13;9.94e-09)|all_hematologic(8;7.13e-07)|Lung NSC(96;1.72e-06)|Breast(56;1.53e-05)|Acute lymphoblastic leukemia(8;6.86e-05)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0416)|Lung SC(185;0.0787)		GBM - Glioblastoma multiforme(99;1.19e-09)	Nedocromil(DB00716)	TCCCAGAATCGGGGCTGCGGG	0.507													31	79	---	---	---	---	PASS	T	49281661	T	T	49281661	2	4	138	1	0	0	0	0	0	0	0	1	4202	1103	39	1		1	CYSLTR2	13	49281661	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	6406941	49281661	65888217	272	49411										
KLHL1	57626	broad.mit.edu	37	chr13	70314552	70314552	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttcaatgctgctacaccaacTgtgctccgagcaattgacat	7	12	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr13:70314552T>A	uc001vip.2	-	8	2570	c.1776A>T	c.(1774-1776)ACA>ACT	p.T592T	KLHL1_uc010thm.1_Silent_p.T531T	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	592	Kelch 3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		CTACACCAACTGTGCTCCGAG	0.358													11	32	---	---	---	---	PASS	A	70314552	A	A	70314552	2	1	138	1	0	0	0	0	0	0	0	1	8365	1567	55	5		5	KLHL1	13	70314552	Silent	SNP	T	TCGA-63-6202-01A-11D-1817-08	21032891	70314552	44855326	273	49412										
SCEL	8796	broad.mit.edu	37	chr13	78208526	78208526	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttttgcagctctaacactggAgccaagcaggcaggaccaca	10	12	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr13:78208526A>T	uc001vki.2	+	29	1874	c.1704A>T	c.(1702-1704)GGA>GGT	p.G568G	SCEL_uc001vkj.2_Silent_p.G548G|SCEL_uc010thx.1_Silent_p.G526G	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	568					embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		CTAACACTGGAGCCAAGCAGG	0.313													7	23	---	---	---	---	PASS	T	78208526	T	T	78208526	2	4	138	1	0	0	0	0	0	0	0	1	13888	291	11	5		5	SCEL	13	78208526	Silent	SNP	A	TCGA-63-6202-01A-11D-1817-08	7893974	78208526	36961352	274	49413										
SOS2	6655	broad.mit.edu	37	chr14	50585439	50585439	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atcaggaagaggatctcttgGtggtggcggaggtggactat	17	5	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr14:50585439G>T	uc001wxs.3	-	23	3720	c.3622C>A	c.(3622-3624)CCA>ACA	p.P1208T	SOS2_uc010ans.2_Missense_Mutation_p.P43T|SOS2_uc010tql.1_Missense_Mutation_p.P1175T|C14orf138_uc001wxn.1_5'Flank|C14orf138_uc001wxo.1_5'Flank|C14orf138_uc001wxp.1_5'Flank|C14orf138_uc001wxq.1_5'Flank	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	1208	Poly-Pro.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					GGATCTCTTGGTGGTGGCGGA	0.527													28	155	---	---	---	---	PASS	T	50585439	T	T	50585439	3	4	138	1	0	0	0	0	1	0	0	0	14937	1261	44	3	380	3	SOS2	14	50585439	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08		50585439	56764101	275	49414										
NIN	51199	broad.mit.edu	37	chr14	51190286	51190286	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aggaggtaatttttcttctcTgctgttttctgtcgctgttc	9	8	3	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr14:51190286T>A	uc001wyi.2	-	31	6488	c.6297A>T	c.(6295-6297)GCA>GCT	p.A2099A	NIN_uc001wyj.2_RNA	NM_020921	NP_065972	Q8N4C6	NIN_HUMAN	ninein isoform 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					TTTTCTTCTCTGCTGTTTTCT	0.453			T	PDGFRB	MPD								11	89	---	---	---	---	PASS	A	51190286	A	A	51190286	2	1	138	1	0	0	0	0	0	0	0	1	10417	1567	55	5		5	NIN	14	51190286	Silent	SNP	T	TCGA-63-6202-01A-11D-1817-08	604847	51190286	56159254	276	49415										
RTN1	6252	broad.mit.edu	37	chr14	60069953	60069953	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtgcttaacatacactacagGtagagtaaacattgaaacca	7	8	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr14:60069953G>A	uc001xen.1	-	7	2415	c.2206C>T	c.(2206-2208)CCT>TCT	p.P736S	RTN1_uc001xem.1_Missense_Mutation_p.P316S|RTN1_uc001xek.1_Missense_Mutation_p.P168S|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Missense_Mutation_p.P153S	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	736	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		TACACTACAGGTAGAGTAAAC	0.303													7	44	---	---	---	---	PASS	A	60069953	A	A	60069953	3	1	138	1	0	0	0	0	1	0	0	0	13725	1261	44	3	136	3	RTN1	14	60069953	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	8879667	60069953	47279587	277	49416										
SIX4	51804	broad.mit.edu	37	chr14	61180336	61180336	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctaccgattgcagaaccaaaCgatgttcttggacaaaatcc	7	11	1	1	rs112624131	byFrequency	TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr14:61180336C>A	uc001xfc.2	-	3	2135	c.2135G>T	c.(2134-2136)CGT>CTT	p.R712L		NM_017420	NP_059116	Q9UIU6	SIX4_HUMAN	sine oculis homeobox homolog 4	712						nucleus				breast(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0275)		CAGAACCAAACGATGTTCTTG	0.443													11	46	---	---	---	---	PASS	A	61180336	A	A	61180336	3	1	138	1	0	0	0	0	1	0	0	0	14349	536	19	1	214	1	SIX4	14	61180336	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1110383	61180336	46169204	278	49417										
C14orf181	400223	broad.mit.edu	37	chr14	69262628	69262628	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agggcgggagccgacccgccCtcgcccagacgtggtcgaca	15	16	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr14:69262628C>T	uc001xkj.1	-	1	563	c.384G>A	c.(382-384)GAG>GAA	p.E128E	ZFP36L1_uc001xkh.1_5'Flank|ZFP36L1_uc001xki.1_5'Flank	NM_207442	NP_997325			hypothetical protein LOC400223												0				all cancers(60;0.002)|BRCA - Breast invasive adenocarcinoma(234;0.00204)|OV - Ovarian serous cystadenocarcinoma(108;0.0399)		CCGACCCGCCCTCGCCCAGAC	0.751													3	26	---	---	---	---	PASS	T	69262628	T	T	69262628	2	4	138	1	0	0	0	0	0	0	0	1	1764	680	24	3		3	C14orf181	14	69262628	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	8082292	69262628	38086912	279	49418										
SLC8A3	6547	broad.mit.edu	37	chr14	70517727	70517727	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcctgagacacttctcacctGcactgacggtgatggcctcc	10	15	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr14:70517727G>T	uc001xly.2	-	6	2883	c.2129C>A	c.(2128-2130)GCA>GAA	p.A710E	SLC8A3_uc001xlu.2_Missense_Mutation_p.A67E|SLC8A3_uc001xlv.2_Missense_Mutation_p.A81E|SLC8A3_uc001xlw.2_Missense_Mutation_p.A707E|SLC8A3_uc001xlx.2_Missense_Mutation_p.A708E|SLC8A3_uc001xlz.2_Missense_Mutation_p.A704E|SLC8A3_uc010ara.2_RNA|SLC8A3_uc001xma.2_Missense_Mutation_p.A67E	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	710	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		CTTCTCACCTGCACTGACGGT	0.562													7	44	---	---	---	---	PASS	T	70517727	T	T	70517727	3	4	138	1	0	0	0	0	1	0	0	0	14708	1319	46	3	666	3	SLC8A3	14	70517727	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1255099	70517727	36831813	280	49419										
FAM161B	145483	broad.mit.edu	37	chr14	74409390	74409390	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atgtccagggctctcatttgGatgcgaattttcctgaagag	11	8	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr14:74409390G>A	uc001xpd.1	-	4	1060	c.954C>T	c.(952-954)ATC>ATT	p.I318I		NM_152445	NP_689658			hypothetical protein LOC145483											ovary(1)	1						CTCTCATTTGGATGCGAATTT	0.547													9	65	---	---	---	---	PASS	A	74409390	A	A	74409390	2	1	138	1	0	0	0	0	0	0	0	1	5473	1164	41	2		2	FAM161B	14	74409390	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	3891663	74409390	32940150	281	49420										
LTBP2	4053	broad.mit.edu	37	chr14	75017963	75017963	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccactagggcctcctccaccCcgccccgcacctgggccacc	8	24	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr14:75017963C>A	uc001xqa.2	-	7	1877	c.1490G>T	c.(1489-1491)GGG>GTG	p.G497V		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	497					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CTCCTCCACCCCGCCCCGCAC	0.677													10	24	---	---	---	---	PASS	A	75017963	A	A	75017963	3	1	138	1	0	0	0	0	1	0	0	0	9074	623	22	3	4095	3	LTBP2	14	75017963	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	608573	75017963	32331577	282	49421										
DIO2	1734	broad.mit.edu	37	chr14	80677628	80677628	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cgaggaggaagctcttccagAcgcagcgcagtccctctgag	13	13	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr14:80677628A>T	uc010tvq.1	-	2	590	c.188T>A	c.(187-189)GTC>GAC	p.V63D	uc001xuw.1_5'Flank|DIO2_uc010tvp.1_Missense_Mutation_p.V63D|DIO2_uc001xut.2_RNA|DIO2_uc010asx.2_Missense_Mutation_p.V63D|DIO2_uc010tvr.1_Missense_Mutation_p.V63D|DIO2_uc010asy.2_Missense_Mutation_p.V63D	NM_000793	NP_000784	Q92813	IOD2_HUMAN	deiodinase, iodothyronine, type II isoform a	63					hormone biosynthetic process|selenocysteine incorporation|thyroid hormone generation	integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|ubiquitin protein ligase binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0281)		GCTCTTCCAGACGCAGCGCAG	0.607													5	24	---	---	---	---	PASS	T	80677628	T	T	80677628	3	4	138	1	0	0	0	0	1	0	0	0	4525	275	10	5	753	5	DIO2	14	80677628	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	5659665	80677628	26671912	283	49422										
FOXN3	1112	broad.mit.edu	37	chr14	89656795	89656795	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcagcatcaatgtcaggatcTggaaaaatcaaccaataaat	7	8	4	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr14:89656795T>C	uc001xxo.3	-	5	883	c.746_splice	c.e5-1	p.D249_splice	FOXN3_uc001xxn.3_Intron|FOXN3_uc010atk.2_Intron	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1						DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|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			skin(2)|ovary(1)	3						TGTCAGGATCTGGAAAAATCA	0.413													4	19	---	---	---	---	PASS	C	89656795	C	C	89656795	5	2	138	1	0	0	0	0	0	0	1	0	6021	1594	55	5	740	5	FOXN3	14	89656795	Splice_Site	SNP	T	TCGA-63-6202-01A-11D-1817-08	8979167	89656795	17692745	284	49423										
ATG2B	55102	broad.mit.edu	37	chr14	96779691	96779691	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atcaagtgcacagctccaaaGatgaacatgaaaagttgtaa	8	7	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr14:96779691G>A	uc001yfi.2	-	24	4089	c.3724C>T	c.(3724-3726)CTT>TTT	p.L1242F		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1242										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)		CAGCTCCAAAGATGAACATGA	0.264													11	47	---	---	---	---	PASS	A	96779691	A	A	96779691	3	1	138	1	0	0	0	0	1	0	0	0	1094	942	33	2	2588	2	ATG2B	14	96779691	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	7122896	96779691	10569849	285	49424										
OR4M2	390538	broad.mit.edu	37	chr15	22368679	22368679	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgttatatttctatccttctAtttgttcatcctaccaggaa	4	9	3	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:22368679A>G	uc010tzu.1	+	1	104	c.104A>G	c.(103-105)TAT>TGT	p.Y35C	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CTATCCTTCTATTTGTTCATC	0.418													24	343	---	---	---	---	PASS	G	22368679	G	G	22368679	3	3	138	1	0	0	0	0	1	0	0	0	11076	449	16	5	106	5	OR4M2	15	22368679	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08		22368679	80162713	286	49425										
C15orf2	23742	broad.mit.edu	37	chr15	24921383	24921383	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cctcctcccagccgcatgttCactctcctgctgccttcacc	5	21	3	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:24921383C>G	uc001ywo.2	+	1	843	c.369C>G	c.(367-369)TTC>TTG	p.F123L		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	123					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GCCGCATGTTCACTCTCCTGC	0.652													10	40	---	---	---	---	PASS	G	24921383	G	G	24921383	3	3	138	1	0	0	0	0	1	0	0	0	1784	825	29	2	371	2	C15orf2	15	24921383	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	2552704	24921383	77610009	287	49426										
GABRG3	2567	broad.mit.edu	37	chr15	27573988	27573988	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgagtgccagctgcagctgcAcaacttccccatggacgaac	10	14	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:27573988A>T	uc001zbg.1	+	5	693	c.527A>T	c.(526-528)CAC>CTC	p.H176L	GABRG3_uc001zbf.2_Missense_Mutation_p.H176L	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	176	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		CTGCAGCTGCACAACTTCCCC	0.592													9	40	---	---	---	---	PASS	T	27573988	T	T	27573988	3	4	138	1	0	0	0	0	1	0	0	0	6173	159	6	5	545	5	GABRG3	15	27573988	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	2652605	27573988	74957404	288	49427										
RYR3	6263	broad.mit.edu	37	chr15	33922197	33922197	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtggagttttcaaagctcccAgaaactgagaagaactataa	9	7	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:33922197A>T	uc001zhi.2	+	22	2806	c.2736A>T	c.(2734-2736)CCA>CCT	p.P912P	RYR3_uc010bar.2_Silent_p.P912P	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	912	4 X approximate repeats.|1.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CAAAGCTCCCAGAAACTGAGA	0.348													6	17	---	---	---	---	PASS	T	33922197	T	T	33922197	2	4	138	1	0	0	0	0	0	0	0	1	13770	175	7	5		5	RYR3	15	33922197	Silent	SNP	A	TCGA-63-6202-01A-11D-1817-08	6348209	33922197	68609195	289	49428										
RYR3	6263	broad.mit.edu	37	chr15	34064229	34064229	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gaaaacctgaaacttgggaaGttcacccattcccgaacgca	8	12	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:34064229G>T	uc001zhi.2	+	63	8995	c.8925G>T	c.(8923-8925)AAG>AAT	p.K2975N	RYR3_uc010bar.2_Missense_Mutation_p.K2975N	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2975	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AACTTGGGAAGTTCACCCATT	0.468													9	30	---	---	---	---	PASS	T	34064229	T	T	34064229	3	4	138	1	0	0	0	0	1	0	0	0	13770	1020	36	3	9175	3	RYR3	15	34064229	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	142032	34064229	68467163	290	49429										
RPAP1	26015	broad.mit.edu	37	chr15	41827134	41827134	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgtctcacaggtcacggcacCtggaagaaaggtatgatcac	11	10	3	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:41827134C>T	uc001zod.2	-	6	666	c.542_splice	c.e6-1	p.G181_splice		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1							nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GTCACGGCACCTGGAAGAAAG	0.542													7	47	---	---	---	---	PASS	T	41827134	T	T	41827134	5	4	138	1	0	0	0	0	0	0	1	0	13541	695	24	3	3720	3	RPAP1	15	41827134	Splice_Site	SNP	C	TCGA-63-6202-01A-11D-1817-08	7762905	41827134	60704258	291	49430										
MYO5A	4644	broad.mit.edu	37	chr15	52620125	52620125	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gatcatcattcaggtagtcaGcatgtcgaacacacatgaac	8	10	4	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:52620125G>A	uc002aby.2	-	35	4803	c.4559C>T	c.(4558-4560)GCT>GTT	p.A1520V	MYO5A_uc002abx.3_Missense_Mutation_p.A1493V|MYO5A_uc010ugd.1_Missense_Mutation_p.A242V	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	1520					actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		CAGGTAGTCAGCATGTCGAAC	0.358													40	172	---	---	---	---	PASS	A	52620125	A	A	52620125	3	1	138	1	0	0	0	0	1	0	0	0	10078	971	34	3	1036	3	MYO5A	15	52620125	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	10792991	52620125	49911267	292	49431										
MYO5A	4644	broad.mit.edu	37	chr15	52659297	52659297	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttcttgcttcagcaaagtatTttcttccttcagatttgata	5	8	4	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:52659297T>G	uc002aby.2	-	23	3335	c.3091A>C	c.(3091-3093)AAT>CAT	p.N1031H	MYO5A_uc002abx.3_Missense_Mutation_p.N1031H|MYO5A_uc010uge.1_Missense_Mutation_p.N900H	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	1031	Potential.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		AGCAAAGTATTTTCTTCCTTC	0.433													14	53	---	---	---	---	PASS	G	52659297	G	G	52659297	3	3	138	1	0	0	0	0	1	0	0	0	10078	1841	64	5	2552	5	MYO5A	15	52659297	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	39172	52659297	49872095	293	49432										
ZNF280D	54816	broad.mit.edu	37	chr15	56981257	56981257	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	accttcatgtgatttttcaaAggatccaaaagattgaaatg	7	6	2	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:56981257A>G	uc002adu.2	-	9	979	c.762T>C	c.(760-762)CCT>CCC	p.P254P	ZNF280D_uc002adv.2_Silent_p.P241P|ZNF280D_uc010bfq.2_Silent_p.P254P|ZNF280D_uc002adw.1_Silent_p.P282P|ZNF280D_uc010bfr.1_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	254					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		GATTTTTCAAAGGATCCAAAA	0.289													14	66	---	---	---	---	PASS	G	56981257	G	G	56981257	2	3	138	1	0	0	0	0	0	0	0	1	17814	59	3	5		5	ZNF280D	15	56981257	Silent	SNP	A	TCGA-63-6202-01A-11D-1817-08	4321960	56981257	45550135	294	49433										
NARG2	79664	broad.mit.edu	37	chr15	60715913	60715913	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcaactgcttttggtttccaTggaaactggattcctgtggc	11	9	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:60715913T>A	uc002agp.2	-	16	3104	c.2869A>T	c.(2869-2871)ATG>TTG	p.M957L	NARG2_uc002ago.2_Missense_Mutation_p.M820L	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	957						nucleus				ovary(1)|lung(1)	2						TTGGTTTCCATGGAAACTGGA	0.423													7	47	---	---	---	---	PASS	A	60715913	A	A	60715913	3	1	138	1	0	0	0	0	1	0	0	0	10169	1464	51	5	83	5	NARG2	15	60715913	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	3734656	60715913	41815479	295	49434										
HERC1	8925	broad.mit.edu	37	chr15	63904582	63904582	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcttccagcgtgtgccagaaCcactgcaccagctgatgctg	10	14	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:63904582C>G	uc002amp.2	-	77	14416	c.14268G>C	c.(14266-14268)TGG>TGC	p.W4756C	HERC1_uc002amo.2_5'Flank	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	4756	HECT.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TGTGCCAGAACCACTGCACCA	0.532													19	57	---	---	---	---	PASS	G	63904582	G	G	63904582	3	3	138	1	0	0	0	0	1	0	0	0	7057	508	18	4	325	4	HERC1	15	63904582	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	3188669	63904582	38626810	296	49435										
ITGA11	22801	broad.mit.edu	37	chr15	68624760	68624760	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cccaccagcaggacatcagtCacgccgtcgccgtcgatgtc	10	17	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:68624760C>A	uc002ari.2	-	13	1569	c.1482G>T	c.(1480-1482)GTG>GTT	p.V494V	ITGA11_uc010bib.2_Silent_p.V494V	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	494	FG-GAP 5.|Potential.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	GGACATCAGTCACGCCGTCGC	0.607													7	13	---	---	---	---	PASS	A	68624760	A	A	68624760	2	1	138	1	0	0	0	0	0	0	0	1	7874	813	29	2		2	ITGA11	15	68624760	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	4720178	68624760	33906632	297	49436										
NOX5	79400	broad.mit.edu	37	chr15	69328164	69328164	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gctgctcaccacgaggcctgGcattggctgggtacacggtt	14	12	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:69328164G>T	uc002ars.1	+	7	1096	c.1076G>T	c.(1075-1077)GGC>GTC	p.G359V	NOX5_uc002arp.1_Missense_Mutation_p.G341V|NOX5_uc002arq.1_Missense_Mutation_p.G313V|NOX5_uc010bid.1_Missense_Mutation_p.G324V|NOX5_uc002arr.1_Missense_Mutation_p.G331V|NOX5_uc010bie.1_Missense_Mutation_p.G159V|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	359	Extracellular (Potential).|Ferric oxidoreductase.				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						ACGAGGCCTGGCATTGGCTGG	0.602													26	103	---	---	---	---	PASS	T	69328164	T	T	69328164	3	4	138	1	0	0	0	0	1	0	0	0	10559	1203	42	3	1135	3	NOX5	15	69328164	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	703404	69328164	33203228	298	49437										
LOXL1	4016	broad.mit.edu	37	chr15	74239501	74239501	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggccacaaggccagtttctgCctggaggacagcacctgtga	13	12	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:74239501C>T	uc002awc.1	+	4	1779	c.1443C>T	c.(1441-1443)TGC>TGT	p.C481C	LOXL1_uc002awd.1_5'Flank	NM_005576	NP_005567	Q08397	LOXL1_HUMAN	lysyl oxidase-like 1 preproprotein	481	Lysyl-oxidase like.				protein deamination	extracellular space	copper ion binding				0						CCAGTTTCTGCCTGGAGGACA	0.592													9	65	---	---	---	---	PASS	T	74239501	T	T	74239501	2	4	138	1	0	0	0	0	0	0	0	1	8899	747	26	3		3	LOXL1	15	74239501	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	4911337	74239501	28291891	299	49438										
CHRNB4	1143	broad.mit.edu	37	chr15	78923422	78923422	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	caaccctgccactcacttgtTgtaaagcacgatgtcaggca	8	13	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:78923422T>G	uc002bed.1	-	4	467	c.355A>C	c.(355-357)AAC>CAC	p.N119H	CHRNB4_uc002bee.1_Missense_Mutation_p.N119H|CHRNB4_uc010blh.1_5'UTR	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	119	Extracellular (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						ACTCACTTGTTGTAAAGCACG	0.602													14	47	---	---	---	---	PASS	G	78923422	G	G	78923422	3	3	138	1	0	0	0	0	1	0	0	0	3393	1812	63	5	1153	5	CHRNB4	15	78923422	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	4683921	78923422	23607970	300	49439										
EFTUD1	79631	broad.mit.edu	37	chr15	82507156	82507156	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agtatgccatgtgggggactTgggggaggccatctggtgga	19	6	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr15:82507156T>C	uc002bgt.1	-	15	1821	c.1652A>G	c.(1651-1653)CAA>CGA	p.Q551R	EFTUD1_uc002bgu.1_Missense_Mutation_p.Q500R	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	551					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						GTGGGGGACTTGGGGGAGGCC	0.478													15	54	---	---	---	---	PASS	C	82507156	C	C	82507156	3	2	138	1	0	0	0	0	1	0	0	0	4960	1812	63	5	1734	5	EFTUD1	15	82507156	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	3583734	82507156	20024236	301	49440										
MRPL28	10573	broad.mit.edu	37	chr16	419061	419061	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgcactgactcgccccacccCgcttgccttgaggatgtaaa	9	15	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr16:419061C>T	uc002cgr.1	-	2	464	c.448G>A	c.(448-450)GGG>AGG	p.G150R	MRPL28_uc010bqu.1_Missense_Mutation_p.G150R|MRPL28_uc002cgs.1_Intron|MRPL28_uc002cgt.1_Missense_Mutation_p.G150R	NM_006428	NP_006419	Q13084	RM28_HUMAN	mitochondrial ribosomal protein L28 precursor	150				TPK -> ASG (in Ref. 4).	translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0		Hepatocellular(16;0.000105)|Lung NSC(18;0.0324)|all_lung(18;0.064)				CGCCCCACCCCGCTTGCCTTG	0.592													5	32	---	---	---	---	PASS	T	419061	T	T	419061	3	4	138	1	0	0	0	0	1	0	0	0	9792	667	23	1		1	MRPL28	16	419061	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08		419061	89935692	302	49441										
PAQR4	124222	broad.mit.edu	37	chr16	3021660	3021660	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgctcggctccgggcatttgGatggcaggctgctgcccgcc	15	14	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr16:3021660G>A	uc002csj.3	+	3	867	c.533G>A	c.(532-534)GGA>GAA	p.G178E	PAQR4_uc002csk.3_Missense_Mutation_p.G139E|PAQR4_uc002csl.3_Missense_Mutation_p.G104E|PAQR4_uc010uwm.1_Missense_Mutation_p.G109E	NM_152341	NP_689554	Q8N4S7	PAQR4_HUMAN	progestin and adipoQ receptor family member IV	178						integral to membrane	receptor activity				0						CGGGCATTTGGATGGCAGGCT	0.697													19	71	---	---	---	---	PASS	A	3021660	A	A	3021660	3	1	138	1	0	0	0	0	1	0	0	0	11437	1174	41	2	543	2	PAQR4	16	3021660	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	2602599	3021660	87333093	303	49442										
UMOD	7369	broad.mit.edu	37	chr16	20357448	20357448	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccccactggccaggacgtacCgtcaacactgtcccacaggg	10	17	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr16:20357448C>T	uc002dgz.2	-	5	1311	c.1182G>A	c.(1180-1182)ACG>ACA	p.T394T	UMOD_uc002dha.2_Silent_p.T394T|UMOD_uc002dhb.2_Silent_p.T427T	NM_003361	NP_003352	P07911	UROM_HUMAN	uromodulin precursor	394	ZP.				cellular defense response|negative regulation of cell proliferation	anchored to membrane|apical plasma membrane|basolateral plasma membrane|cilium membrane|extrinsic to membrane|primary cilium|spindle pole	calcium ion binding			ovary(1)|skin(1)	2						CAGGACGTACCGTCAACACTG	0.393													9	33	---	---	---	---	PASS	T	20357448	T	T	20357448	2	4	138	1	0	0	0	0	0	0	0	1	16976	666	23	1		1	UMOD	16	20357448	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	17335788	20357448	69997305	304	49443										
NECAB2	54550	broad.mit.edu	37	chr16	84014678	84014678	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gactatgaggatgtcctggcCtccctggagaccttgaatca	11	11	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr16:84014678C>T	uc002fhd.2	+	5	422	c.405C>T	c.(403-405)GCC>GCT	p.A135A	NECAB2_uc002fhe.2_Silent_p.A52A	NM_019065	NP_061938	Q7Z6G3	NECA2_HUMAN	neuronal calcium-binding protein 2	135					antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity|protein binding			ovary(2)	2						ATGTCCTGGCCTCCCTGGAGA	0.587													68	102	---	---	---	---	PASS	T	84014678	T	T	84014678	2	4	138	1	0	0	0	0	0	0	0	1	10305	668	24	3		3	NECAB2	16	84014678	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	63657230	84014678	6340075	305	49444										
ACSF3	197322	broad.mit.edu	37	chr16	89187245	89187245	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	actgcctggagtacaggtgcGcattgtctcagaaaacccac	10	12	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr16:89187245G>C	uc002fmp.2	+	7	1503	c.1163G>C	c.(1162-1164)CGC>CCC	p.R388P	ACSF3_uc010cig.1_Missense_Mutation_p.R388P|ACSF3_uc010cih.1_Missense_Mutation_p.R123P|ACSF3_uc002fmq.1_RNA|ACSF3_uc010cii.1_RNA|ACSF3_uc002fmr.1_Missense_Mutation_p.R123P	NM_174917	NP_777577	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3 precursor	388					fatty acid metabolic process	mitochondrion	acid-thiol ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0281)		GTACAGGTGCGCATTGTCTCA	0.592													35	123	---	---	---	---	PASS	C	89187245	C	C	89187245	3	2	138	1	0	0	0	0	1	0	0	0	176	1087	38	4	1181	4	ACSF3	16	89187245	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	5172567	89187245	1167508	306	49445										
SGSM2	9905	broad.mit.edu	37	chr17	2266300	2266300	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cagtgggaccctgtgccttgGaatacactaagctcaagaca	10	11	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr17:2266300G>T	uc002fun.3	+	6	719	c.544G>T	c.(544-546)GAA>TAA	p.E182*	SGSM2_uc002fum.3_Nonsense_Mutation_p.E182*|SGSM2_uc010vqw.1_Nonsense_Mutation_p.E182*	NM_001098509	NP_001091979	O43147	SGSM2_HUMAN	RUN and TBC1 domain containing 1 isoform 2	182	RUN.					intracellular	Rab GTPase activator activity				0				Colorectal(2;5.15e-05)|READ - Rectum adenocarcinoma(2;0.000115)		CTGTGCCTTGGAATACACTAA	0.617													14	73	---	---	---	---	PASS	T	2266300	T	T	2266300	4	4	138	1	0	0	0	0	0	1	0	0	14223	1175	41	2	566	2	SGSM2	17	2266300	Nonsense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08		2266300	78928910	307	49446										
ALOX15	246	broad.mit.edu	37	chr17	4535513	4535513	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aggcgtgttggccggtgcagGtgaagatacacatggtgaca	16	7	0	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr17:4535513G>T	uc002fyh.2	-	12	1618	c.1604C>A	c.(1603-1605)ACC>AAC	p.T535N	ALOX15_uc010vsd.1_Missense_Mutation_p.T496N|ALOX15_uc010vse.1_Missense_Mutation_p.T557N	NM_001140	NP_001131	P16050	LOX15_HUMAN	arachidonate 15-lipoxygenase	535	Lipoxygenase.				inflammatory response|leukotriene biosynthetic process	nucleus	arachidonate 15-lipoxygenase activity|iron ion binding|lipoxygenase activity			skin(3)|ovary(1)|lung(1)	5				READ - Rectum adenocarcinoma(115;0.0327)	Ciclopirox(DB01188)|Masoprocol(DB00179)|Zileuton(DB00744)	GCCGGTGCAGGTGAAGATACA	0.572													5	48	---	---	---	---	PASS	T	4535513	T	T	4535513	3	4	138	1	0	0	0	0	1	0	0	0	538	1261	44	3	396	3	ALOX15	17	4535513	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	2269213	4535513	76659697	308	49447										
TP53	7157	broad.mit.edu	37	chr17	7578457	7578457	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcttgtagatggccatggcgCggacgcgggtgccgggcggg	21	10	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr17:7578457C>A	uc002gim.2	-	5	667	c.473G>T	c.(472-474)CGC>CTC	p.R158L	TP53_uc002gig.1_Missense_Mutation_p.R158L|TP53_uc002gih.2_Missense_Mutation_p.R158L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R26L|TP53_uc010cng.1_Missense_Mutation_p.R26L|TP53_uc002gii.1_Missense_Mutation_p.R26L|TP53_uc010cnh.1_Missense_Mutation_p.R158L|TP53_uc010cni.1_Missense_Mutation_p.R158L|TP53_uc002gij.2_Missense_Mutation_p.R158L|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R65L|TP53_uc002gio.2_Missense_Mutation_p.R26L|TP53_uc010vug.1_Missense_Mutation_p.R119L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	158	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> F (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> Y (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.R158H(58)|p.R158L(55)|p.R158C(17)|p.R158G(10)|p.R158P(9)|p.0?(7)|p.R158R(6)|p.R158fs*12(5)|p.R158_A159insX(4)|p.R158_A159delRA(2)|p.R156_I162delRVRAMAI(2)|p.V157fs*9(2)|p.P153fs*22(2)|p.R158fs*11(2)|p.V157fs*22(2)|p.V157_C176del20(1)|p.R156_A161delRVRAMA(1)|p.R158F(1)|p.P151_V173del23(1)|p.R158fs*24(1)|p.R65L(1)|p.R156_R158delRVR(1)|p.R156fs*18(1)|p.R156_A161del(1)|p.R158_A159insXX(1)|p.V157_M160delVRAM(1)|p.V157_R158delVR(1)|p.S149fs*72(1)|p.A159fs*21(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.R156fs*20(1)|p.V157_I162delVRAMAI(1)|p.R26L(1)|p.V157fs*21(1)|p.R158fs*8(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)		GGCCATGGCGCGGACGCGGGT	0.627		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)			31	54	---	---	---	---	PASS	A	7578457	A	A	7578457	3	1	138	1	0	0	0	0	1	0	0	0	16378	768	27	1	825	1	TP53	17	7578457	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	3042944	7578457	73616753	309	49448										
MYH4	4622	broad.mit.edu	37	chr17	10348599	10348599	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcctctgcattgcgggcttcCtggacgatgtcctccatctc	9	15	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr17:10348599C>A	uc002gmn.2	-	36	5361	c.5250G>T	c.(5248-5250)CAG>CAT	p.Q1750H	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1750	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TGCGGGCTTCCTGGACGATGT	0.468													60	94	---	---	---	---	PASS	A	10348599	A	A	10348599	3	1	138	1	0	0	0	0	1	0	0	0	10037	680	24	3	589	3	MYH4	17	10348599	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	2770142	10348599	70846611	310	49449										
DHRS7B	25979	broad.mit.edu	37	chr17	21075445	21075445	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cggctgctgcagtgggtgcgCgggaaggcctacctgcggaa	18	11	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr17:21075445C>T	uc002gyo.2	+	2	162	c.135C>T	c.(133-135)CGC>CGT	p.R45R	DHRS7B_uc010crc.1_Silent_p.R30R	NM_015510	NP_056325	Q6IAN0	DRS7B_HUMAN	dehydrogenase/reductase (SDR family) member 7B	45	Peroxisomal (Potential).					integral to membrane|peroxisomal membrane	binding|oxidoreductase activity			pancreas(1)	1						AGTGGGTGCGCGGGAAGGCCT	0.672													12	17	---	---	---	---	PASS	T	21075445	T	T	21075445	2	4	138	1	0	0	0	0	0	0	0	1	4496	755	27	1		1	DHRS7B	17	21075445	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	10726846	21075445	60119765	311	49450										
ANKRD13B	124930	broad.mit.edu	37	chr17	27936294	27936294	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aagaatatctcctttgagagGtgggtggacatggccttggt	14	6	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr17:27936294G>T	uc002hei.2	+	6	868	c.755_splice	c.e6+1	p.R252_splice	ANKRD13B_uc002heh.2_Splice_Site_p.R120_splice|ANKRD13B_uc002hej.2_Splice_Site	NM_152345	NP_689558	Q86YJ7	AN13B_HUMAN	ankyrin repeat domain 13B												0						CCTTTGAGAGGTGGGTGGACA	0.622													3	18	---	---	---	---	PASS	T	27936294	T	T	27936294	5	4	138	1	0	0	0	0	0	0	1	0	642	1275	44	3	778	3	ANKRD13B	17	27936294	Splice_Site	SNP	G	TCGA-63-6202-01A-11D-1817-08	6860849	27936294	53258916	312	49451										
WNK4	65266	broad.mit.edu	37	chr17	40940793	40940793	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgatctggatggggacagccCggaagagattgcagctgcca	15	9	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr17:40940793C>A	uc002ibj.2	+	11	2156	c.2135C>A	c.(2134-2136)CCG>CAG	p.P712Q	WNK4_uc010wgx.1_Missense_Mutation_p.P376Q|WNK4_uc002ibk.1_Missense_Mutation_p.P484Q|WNK4_uc010wgy.1_Missense_Mutation_p.P56Q	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	712					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		GGGGACAGCCCGGAAGAGATT	0.532													51	63	---	---	---	---	PASS	A	40940793	A	A	40940793	3	1	138	1	0	0	0	0	1	0	0	0	17377	652	23	1	2177	1	WNK4	17	40940793	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	13004499	40940793	40254417	313	49452										
WNT3	7473	broad.mit.edu	37	chr17	44895951	44895951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gccgaggagcagcccgagcaGgtggggctccattagaagag	17	10	0	2	rs140453711		TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr17:44895951G>T	uc002ikv.2	-	1	132	c.13C>A	c.(13-15)CTG>ATG	p.L5M		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	5					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			AGCCCGAGCAGGTGGGGCTCC	0.632													15	6	---	---	---	---	PASS	T	44895951	T	T	44895951	3	4	138	1	0	0	0	0	1	0	0	0	17385	991	35	3	1070	3	WNT3	17	44895951	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	3955158	44895951	36299259	314	49453										
KIF2B	84643	broad.mit.edu	37	chr17	51902274	51902274	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggaaaacatccaggagagagCtggtggagtacaccatgata	13	7	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr17:51902274C>A	uc002iua.2	+	1	2036	c.1880C>A	c.(1879-1881)GCT>GAT	p.A627D	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	627					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CAGGAGAGAGCTGGTGGAGTA	0.438													50	69	---	---	---	---	PASS	A	51902274	A	A	51902274	3	1	138	1	0	0	0	0	1	0	0	0	8298	797	28	3	1882	3	KIF2B	17	51902274	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	7006323	51902274	29292936	315	49454										
NOL11	25926	broad.mit.edu	37	chr17	65739606	65739606	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	catcttcagattatggattgGatatgtctacttctggatgc	9	7	4	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr17:65739606G>T	uc002jgd.1	+	17	1950	c.1947G>T	c.(1945-1947)TGG>TGT	p.W649C	NOL11_uc010wql.1_Missense_Mutation_p.W467C|NOL11_uc010deu.1_Missense_Mutation_p.W244C	NM_015462	NP_056277	Q9H8H0	NOL11_HUMAN	nucleolar protein 11	649						nucleolus					0	all_cancers(12;1.54e-10)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0518)|COAD - Colon adenocarcinoma(4;0.0977)|LUSC - Lung squamous cell carcinoma(166;0.24)			TTATGGATTGGATATGTCTAC	0.308													11	134	---	---	---	---	PASS	T	65739606	T	T	65739606	3	4	138	1	0	0	0	0	1	0	0	0	10521	1183	41	2	2013	2	NOL11	17	65739606	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	13837332	65739606	15455604	316	49455										
MAP2K6	5608	broad.mit.edu	37	chr17	67519684	67519684	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cttctaatgtactcatcaatGctctcggtcaagtgaagatg	8	9	5	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr17:67519684G>T	uc002jij.2	+	8	853	c.565G>T	c.(565-567)GCT>TCT	p.A189S		NM_002758	NP_002749	P52564	MP2K6_HUMAN	mitogen-activated protein kinase kinase 6	189	Protein kinase.				activation of MAPK activity|cell cycle arrest|DNA damage induced protein phosphorylation|innate immune response|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of muscle cell differentiation|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|pancreas(1)	5	Breast(10;6.05e-10)					ACTCATCAATGCTCTCGGTCA	0.458													82	172	---	---	---	---	PASS	T	67519684	T	T	67519684	3	4	138	1	0	0	0	0	1	0	0	0	9241	1319	46	3	595	3	MAP2K6	17	67519684	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1780078	67519684	13675526	317	49456										
ITGB4	3691	broad.mit.edu	37	chr17	73723315	73723315	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccagtgaagagctgcacggaGtgtgtccgtgtggataagga	16	7	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr17:73723315G>T	uc002jpg.2	+	3	307	c.120G>T	c.(118-120)GAG>GAT	p.E40D	ITGB4_uc002jph.2_Missense_Mutation_p.E40D|ITGB4_uc010dgo.2_Missense_Mutation_p.E40D|ITGB4_uc002jpi.3_Missense_Mutation_p.E40D|ITGB4_uc010dgp.1_Missense_Mutation_p.E40D|ITGB4_uc002jpj.2_Missense_Mutation_p.E40D	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	40	PSI.|Extracellular (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCTGCACGGAGTGTGTCCGTG	0.602													12	9	---	---	---	---	PASS	T	73723315	T	T	73723315	3	4	138	1	0	0	0	0	1	0	0	0	7897	1020	36	3	126	3	ITGB4	17	73723315	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	6203631	73723315	7471895	318	49457										
CEP192	55125	broad.mit.edu	37	chr18	13104999	13104999	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcagggagttgatgaaagtgGagatgtttttagagctacct	14	4	0	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr18:13104999G>C	uc010xac.1	+	40	7048	c.6968G>C	c.(6967-6969)GGA>GCA	p.G2323A	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.G1848A|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Missense_Mutation_p.G745A|CEP192_uc002krw.2_Missense_Mutation_p.G472A|CEP192_uc002krx.2_Missense_Mutation_p.G327A|CEP192_uc002kry.2_RNA	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	2323										ovary(4)|pancreas(1)	5						GATGAAAGTGGAGATGTTTTT	0.383													6	127	---	---	---	---	PASS	C	13104999	C	C	13104999	3	2	138	1	0	0	0	0	1	0	0	0	3251	1174	41	2	7122	2	CEP192	18	13104999	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08		13104999	64972249	319	49458										
FHOD3	80206	broad.mit.edu	37	chr18	34174837	34174837	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cacctctcctaattcaggctGtcactgctgttgacacgaaa	7	13	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr18:34174837G>T	uc002kzt.1	+	7	791	c.694G>T	c.(694-696)GTC>TTC	p.V232F	FHOD3_uc002kzr.1_Missense_Mutation_p.V232F|FHOD3_uc002kzs.1_Missense_Mutation_p.V232F|FHOD3_uc002kzu.1_Missense_Mutation_p.V57F|FHOD3_uc010dmz.1_5'UTR	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	232	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				AATTCAGGCTGTCACTGCTGT	0.517													3	42	---	---	---	---	PASS	T	34174837	T	T	34174837	3	4	138	1	0	0	0	0	1	0	0	0	5883	1377	48	3	720	3	FHOD3	18	34174837	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	21069838	34174837	43902411	320	49459										
FHOD3	80206	broad.mit.edu	37	chr18	34205705	34205705	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccaaccaagtgcgagatctgCgtgaaaagtaagcattaact	9	9	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr18:34205705C>G	uc002kzt.1	+	10	1286	c.1189C>G	c.(1189-1191)CGT>GGT	p.R397G	FHOD3_uc002kzr.1_Missense_Mutation_p.R397G|FHOD3_uc002kzs.1_Missense_Mutation_p.R397G|FHOD3_uc002kzu.1_Missense_Mutation_p.R222G|FHOD3_uc010dmz.1_Missense_Mutation_p.R150G	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	397	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				GCGAGATCTGCGTGAAAAGTA	0.602													39	115	---	---	---	---	PASS	G	34205705	G	G	34205705	3	3	138	1	0	0	0	0	1	0	0	0	5883	768	27	4	1227	4	FHOD3	18	34205705	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	30868	34205705	43871543	321	49460										
FHOD3	80206	broad.mit.edu	37	chr18	34359421	34359421	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	accactgcagtgcgaagaacCctgaagagcggcctgacccc	11	15	0	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr18:34359421C>A	uc002kzt.1	+	24	4294	c.4197C>A	c.(4195-4197)ACC>ACA	p.T1399T	FHOD3_uc002kzs.1_Silent_p.T1416T|FHOD3_uc010dmz.1_Silent_p.T1131T|FHOD3_uc010dnb.1_Missense_Mutation_p.P337H	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	1399					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				TGCGAAGAACCCTGAAGAGCG	0.577													4	64	---	---	---	---	PASS	A	34359421	A	A	34359421	2	1	138	1	0	0	0	0	0	0	0	1	5883	610	22	3		3	FHOD3	18	34359421	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	153716	34359421	43717827	322	49461										
DCC	1630	broad.mit.edu	37	chr18	50977006	50977006	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atcgtggctgtgatttgcacCcgacgctcttcagcccagca	10	14	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr18:50977006C>A	uc002lfe.1	+	23	3953	c.3366C>A	c.(3364-3366)ACC>ACA	p.T1122T	DCC_uc010dpf.1_Silent_p.T757T	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1122	Helical; (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TGATTTGCACCCGACGCTCTT	0.483													4	58	---	---	---	---	PASS	A	50977006	A	A	50977006	2	1	138	1	0	0	0	0	0	0	0	1	4282	610	22	3		3	DCC	18	50977006	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	16617585	50977006	27100242	323	49462										
SERPINB4	6318	broad.mit.edu	37	chr18	61310651	61310651	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgatgctgatagctaccttgCtaatttgttgtgcagtgttg	11	6	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr18:61310651C>T	uc002ljf.2	-	2	247	c.161G>A	c.(160-162)AGC>AAC	p.S54N	SERPINB4_uc002lje.2_Missense_Mutation_p.S54N|SERPINB4_uc002ljg.2_Intron	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	54					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						AGCTACCTTGCTAATTTGTTG	0.443													13	119	---	---	---	---	PASS	T	61310651	T	T	61310651	3	4	138	1	0	0	0	0	1	0	0	0	14103	797	28	3	1039	3	SERPINB4	18	61310651	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	10333645	61310651	16766597	324	49463										
CNDP2	55748	broad.mit.edu	37	chr18	72183485	72183485	+	Frame_Shift_Del	DEL	G	-	-													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agacatcctcatgcaccgatGgcggtacccgtctctgtccc							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr18:72183485delG	uc002llm.1	+	9	1088	c.926delG	c.(925-927)TGGfs	p.W309fs	CNDP2_uc002lln.1_Frame_Shift_Del_p.W225fs|CNDP2_uc010dqs.2_Intron	NM_018235	NP_060705	Q96KP4	CNDP2_HUMAN	CNDP dipeptidase 2	309						cytoplasm	carboxypeptidase activity|metal ion binding|metallopeptidase activity|protein binding|tripeptidase activity			ovary(2)|skin(1)	3		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.22)		ATGCACCGATGGCGGTACCCG	0.582													175	91	---	---	---	---		-	72183485	-	-	72183485	7	5	138	1	0	1	0	1	0	0	0	0	3594	1357	47	0	956	0	CNDP2	18	72183485	Frame_Shift_Del	DEL	G	TCGA-63-6202-01A-11D-1817-08	10872834	72183485	5893763	325	49464										
GNA11	2767	broad.mit.edu	37	chr19	3113400	3113400	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agcatcagtacgtcagtgccAtcaagaccctgtgggaggac	12	11	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:3113400A>G	uc002lxd.2	+	3	636	c.394A>G	c.(394-396)ATC>GTC	p.I132V		NM_002067	NP_002058	P29992	GNA11_HUMAN	guanine nucleotide binding protein (G protein),	132					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation|regulation of action potential	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			eye(70)|skin(16)	86		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.79e-05)|OV - Ovarian serous cystadenocarcinoma(105;2.68e-113)|Epithelial(107;1.22e-111)|all cancers(105;5.78e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00141)|STAD - Stomach adenocarcinoma(1328;0.181)		CGTCAGTGCCATCAAGACCCT	0.642			Mis		uveal melanoma								17	46	---	---	---	---	PASS	G	3113400	G	G	3113400	3	3	138	1	0	0	0	0	1	0	0	0	6499	217	8	5	404	5	GNA11	19	3113400	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08		3113400	56015583	326	49465										
TMEM146	257062	broad.mit.edu	37	chr19	5733877	5733877	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	taacttttaggtcggcgtacCagaagtgacatcagcacatt	9	9	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:5733877C>G	uc002mda.2	+	5	348	c.287C>G	c.(286-288)CCA>CGA	p.P96R	TMEM146_uc010duj.1_5'UTR	NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	96	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						GTCGGCGTACCAGAAGTGACA	0.343													11	35	---	---	---	---	PASS	G	5733877	G	G	5733877	3	3	138	1	0	0	0	0	1	0	0	0	16057	594	21	4	305	4	TMEM146	19	5733877	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	2620477	5733877	53395106	327	49466										
MUC16	94025	broad.mit.edu	37	chr19	8996331	8996331	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aattgctcaccattgacaaaGaggctgtcgttgtccagggc	11	10	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:8996331G>C	uc002mkp.2	-	61	41445	c.41241C>G	c.(41239-41241)CTC>CTG	p.L13747L	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.L564L|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13749	Extracellular (Potential).|SEA 11.			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						CATTGACAAAGAGGCTGTCGT	0.547													32	150	---	---	---	---	PASS	C	8996331	C	C	8996331	2	2	138	1	0	0	0	0	0	0	0	1	9973	929	33	2		2	MUC16	19	8996331	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	3262454	8996331	50132652	328	49467										
MUC16	94025	broad.mit.edu	37	chr19	9063537	9063537	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aagacatcagagaaaaggaaGgtctagttttttccagaagg	11	5	2	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:9063537G>T	uc002mkp.2	-	3	24113	c.23909C>A	c.(23908-23910)CCT>CAT	p.P7970H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7972	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGAAAAGGAAGGTCTAGTTTT	0.468													4	41	---	---	---	---	PASS	T	9063537	T	T	9063537	3	4	138	1	0	0	0	0	1	0	0	0	9973	1000	35	3	19942	3	MUC16	19	9063537	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	67206	9063537	50065446	329	49468										
MUC16	94025	broad.mit.edu	37	chr19	9069583	9069583	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gagaagggaagtcacagggaGagcagaagtggggctacttc	17	6	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:9069583G>T	uc002mkp.2	-	3	18067	c.17863C>A	c.(17863-17865)CTC>ATC	p.L5955I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5957	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTCACAGGGAGAGCAGAAGTG	0.493													8	69	---	---	---	---	PASS	T	9069583	T	T	9069583	3	4	138	1	0	0	0	0	1	0	0	0	9973	942	33	2	25988	2	MUC16	19	9069583	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	6046	9069583	50059400	330	49469										
MUC16	94025	broad.mit.edu	37	chr19	9070657	9070657	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtgtgggaatccctgagacaCggttgaatgagtccctccct	12	11	0	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:9070657C>A	uc002mkp.2	-	3	16993	c.16789G>T	c.(16789-16791)GTG>TTG	p.V5597L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5599	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCCTGAGACACGGTTGAATGA	0.532													32	89	---	---	---	---	PASS	A	9070657	A	A	9070657	3	1	138	1	0	0	0	0	1	0	0	0	9973	536	19	1	27062	1	MUC16	19	9070657	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1074	9070657	50058326	331	49470										
MUC16	94025	broad.mit.edu	37	chr19	9073626	9073626	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agttcatctcctggagggtgCtgttctcttttcgtccagca	10	11	3	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:9073626C>A	uc002mkp.2	-	3	14024	c.13820G>T	c.(13819-13821)AGC>ATC	p.S4607I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4609	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGGAGGGTGCTGTTCTCTTT	0.493													12	44	---	---	---	---	PASS	A	9073626	A	A	9073626	3	1	138	1	0	0	0	0	1	0	0	0	9973	797	28	3	30031	3	MUC16	19	9073626	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	2969	9073626	50055357	332	49471										
ZNF559	84527	broad.mit.edu	37	chr19	9453161	9453161	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aggtcttataaaacacaggcGaactcacactggagaaaagc	9	9	2	1	rs138021555	byFrequency	TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:9453161G>A	uc002mlg.2	+	7	1681	c.1034G>A	c.(1033-1035)CGA>CAA	p.R345Q	ZNF559_uc002mlf.2_Missense_Mutation_p.R114Q|ZNF559_uc010dwl.1_Missense_Mutation_p.R114Q|ZNF559_uc010xkn.1_Missense_Mutation_p.R337Q|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Missense_Mutation_p.R409Q|ZNF559_uc010dwk.1_Missense_Mutation_p.R114Q|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	345	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAACACAGGCGAACTCACACT	0.413													6	30	---	---	---	---	PASS	A	9453161	A	A	9453161	3	1	138	1	0	0	0	0	1	0	0	0	17987	1058	37	2	1048	2	ZNF559	19	9453161	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	379535	9453161	49675822	333	49472										
COL5A3	50509	broad.mit.edu	37	chr19	10088368	10088368	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcccaaaggaccgcgctcacCaggggagccctgagaacagg	14	14	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:10088368C>T	uc002mmq.1	-	42	3114	c.3028G>A	c.(3028-3030)GGT>AGT	p.G1010S		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1010	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)			CCGCGCTCACCAGGGGAGCCC	0.582													3	26	---	---	---	---	PASS	T	10088368	T	T	10088368	3	4	138	1	0	0	0	0	1	0	0	0	3698	594	21	3	2313	3	COL5A3	19	10088368	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	635207	10088368	49040615	334	49473										
KRI1	65095	broad.mit.edu	37	chr19	10668287	10668287	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcggtacttgaagcgacaggGcaggtcgtcgatgatgtcct	15	9	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:10668287G>C	uc002moy.1	-	16	1585	c.1576C>G	c.(1576-1578)CCC>GCC	p.P526A	KRI1_uc002mow.1_Missense_Mutation_p.P145A|KRI1_uc002mox.1_Missense_Mutation_p.P522A	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	526										ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			AAGCGACAGGGCAGGTCGTCG	0.627													12	74	---	---	---	---	PASS	C	10668287	C	C	10668287	3	2	138	1	0	0	0	0	1	0	0	0	8444	1203	42	4	569	4	KRI1	19	10668287	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	579919	10668287	48460696	335	49474										
PODNL1	79883	broad.mit.edu	37	chr19	14046575	14046575	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaggtgagggggaagatctcCatcacttggttggcagccag	15	8	2	2	rs150464916		TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:14046575C>T	uc002mxr.2	-	5	748	c.474G>A	c.(472-474)ATG>ATA	p.M158I	PODNL1_uc010xni.1_Missense_Mutation_p.M76I|PODNL1_uc010xnj.1_Missense_Mutation_p.M156I|PODNL1_uc002mxs.2_Intron	NM_024825	NP_079101	Q6PEZ8	PONL1_HUMAN	podocan-like 1 isoform 1	158	Leu-rich.|LRR 4.					proteinaceous extracellular matrix				central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(19;5.26e-23)			GGAAGATCTCCATCACTTGGT	0.647													6	12	---	---	---	---	PASS	T	14046575	T	T	14046575	3	4	138	1	0	0	0	0	1	0	0	0	12179	594	21	3	1080	3	PODNL1	19	14046575	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	3378288	14046575	45082408	336	49475										
OR7A10	390892	broad.mit.edu	37	chr19	14952633	14952633	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaggcctgcaattctggttcCtctgaaattcccaggagaag	10	10	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:14952633C>T	uc002mzx.1	-	1	57	c.57G>A	c.(55-57)GAG>GAA	p.E19E		NM_001005190	NP_001005190	O76100	OR7AA_HUMAN	olfactory receptor, family 7, subfamily A,	19	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					ATTCTGGTTCCTCTGAAATTC	0.393													5	48	---	---	---	---	PASS	T	14952633	T	T	14952633	2	4	138	1	0	0	0	0	0	0	0	1	11214	680	24	3		3	OR7A10	19	14952633	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	906058	14952633	44176350	337	49476										
TMEM161A	54929	broad.mit.edu	37	chr19	19243982	19243982	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cggcttccccgccagggcccGaagctcctcctcagacgggt	12	18	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:19243982G>A	uc002nlg.2	-	3	175	c.145C>T	c.(145-147)CGG>TGG	p.R49W	TMEM161A_uc010eca.2_RNA|TMEM161A_uc002nlh.2_Missense_Mutation_p.R49W|TMEM161A_uc002nli.2_Missense_Mutation_p.R49W|TMEM161A_uc002nlj.2_5'UTR	NM_017814	NP_060284	Q9NX61	T161A_HUMAN	transmembrane protein 161A precursor	49	Extracellular (Potential).				cellular response to oxidative stress|cellular response to UV|negative regulation of apoptosis|positive regulation of DNA repair|response to retinoic acid	integral to membrane				breast(2)	2			OV - Ovarian serous cystadenocarcinoma(5;1.19e-05)|Epithelial(12;0.0011)			GCCAGGGCCCGAAGCTCCTCC	0.657													12	47	---	---	---	---	PASS	A	19243982	A	A	19243982	3	1	138	1	0	0	0	0	1	0	0	0	16073	1057	37	2	1334	2	TMEM161A	19	19243982	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	4291349	19243982	39885001	338	49477										
GATAD2A	54815	broad.mit.edu	37	chr19	19612825	19612825	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ttccgctcaggagaggcccgCgactggagtaacggggctgt	16	11	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:19612825C>A	uc010xqt.1	+	10	1860	c.1548C>A	c.(1546-1548)CGC>CGA	p.R516R	GATAD2A_uc010xqu.1_Silent_p.R145R|GATAD2A_uc010xqv.1_Silent_p.R536R|GATAD2A_uc010xqw.1_Intron	NM_017660	NP_060130	Q86YP4	P66A_HUMAN	GATA zinc finger domain containing 2A	516					DNA methylation|negative regulation of transcription, DNA-dependent	nuclear speck|NuRD complex	protein binding, bridging|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GAGAGGCCCGCGACTGGAGTA	0.662													3	64	---	---	---	---	PASS	A	19612825	A	A	19612825	2	1	138	1	0	0	0	0	0	0	0	1	6260	755	27	1		1	GATAD2A	19	19612825	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	368843	19612825	39516158	339	49478										
CILP2	148113	broad.mit.edu	37	chr19	19654652	19654652	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cagcccccgctgcggggacgCcagctcccgctgctgctctg	13	19	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:19654652C>A	uc002nmv.3	+	8	1383	c.1298C>A	c.(1297-1299)GCC>GAC	p.A433D	CILP2_uc002nmw.3_Missense_Mutation_p.A439D	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	433						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						TGCGGGGACGCCAGCTCCCGC	0.682													8	55	---	---	---	---	PASS	A	19654652	A	A	19654652	3	1	138	1	0	0	0	0	1	0	0	0	3430	739	26	3	1328	3	CILP2	19	19654652	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	41827	19654652	39474331	340	49479										
ZNF98	148198	broad.mit.edu	37	chr19	22574571	22574571	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cacattcttcacatttgtagGgcttctctccagtatgaatt	6	10	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:22574571G>T	uc002nqt.2	-	4	1588	c.1466C>A	c.(1465-1467)CCC>CAC	p.P489H		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	489					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				ACATTTGTAGGGCTTCTCTCC	0.393													8	73	---	---	---	---	PASS	T	22574571	T	T	22574571	3	4	138	1	0	0	0	0	1	0	0	0	18200	1232	43	3	256	3	ZNF98	19	22574571	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	2919919	22574571	36554412	341	49480										
ZNF681	148213	broad.mit.edu	37	chr19	23926986	23926986	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gaactggttaaaggctttccCacattcttcacatttgtatg	7	9	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:23926986C>A	uc002nrk.3	-	4	1508	c.1366G>T	c.(1366-1368)GGG>TGG	p.G456W	ZNF681_uc002nrl.3_Missense_Mutation_p.G387W|ZNF681_uc002nrj.3_Missense_Mutation_p.G387W	NM_138286	NP_612143	Q96N22	ZN681_HUMAN	zinc finger protein 681	456	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				AAGGCTTTCCCACATTCTTCA	0.363													9	23	---	---	---	---	PASS	A	23926986	A	A	23926986	3	1	138	1	0	0	0	0	1	0	0	0	18085	594	21	3	575	3	ZNF681	19	23926986	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1352415	23926986	35201997	342	49481										
CCNE1	898	broad.mit.edu	37	chr19	30303902	30303902	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	caggatccagatgaagaaatGgccaaaatcgacaggacggc	12	9	0	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:30303902G>T	uc002nsn.2	+	4	321	c.138G>T	c.(136-138)ATG>ATT	p.M46I	CCNE1_uc002nso.2_Missense_Mutation_p.M31I	NM_001238	NP_001229	P24864	CCNE1_HUMAN	cyclin E1 isoform 1	46					androgen receptor signaling pathway|cell division|positive regulation of transcription, DNA-dependent|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm	androgen receptor binding|protein kinase binding|transcription coactivator activity			lung(2)	2	all_cancers(1;2.19e-31)|all_epithelial(1;1.49e-30)|all_lung(1;1.37e-11)|Lung NSC(1;2.35e-11)|Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|Epithelial(1;6.85e-98)|all cancers(1;1.38e-94)|OV - Ovarian serous cystadenocarcinoma(1;1.38e-90)|STAD - Stomach adenocarcinoma(5;5.8e-07)|GBM - Glioblastoma multiforme(4;0.0394)|Lung(7;0.092)|LUAD - Lung adenocarcinoma(5;0.115)|BRCA - Breast invasive adenocarcinoma(6;0.183)|COAD - Colon adenocarcinoma(1;0.188)|Colorectal(1;0.202)			ATGAAGAAATGGCCAAAATCG	0.552													27	59	---	---	---	---	PASS	T	30303902	T	T	30303902	3	4	138	1	0	0	0	0	1	0	0	0	2920	1348	47	3	148	3	CCNE1	19	30303902	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	6376916	30303902	28825081	343	49482										
TSHZ3	57616	broad.mit.edu	37	chr19	31770449	31770449	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gctttcaaagtcagccattcGgtcactggtctcactgatgt	9	11	4	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:31770449G>C	uc002nsy.3	-	2	315	c.250C>G	c.(250-252)CGA>GGA	p.R84G		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	84					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TCAGCCATTCGGTCACTGGTC	0.587													7	44	---	---	---	---	PASS	C	31770449	C	C	31770449	3	2	138	1	0	0	0	0	1	0	0	0	16622	1124	39	4	2999	4	TSHZ3	19	31770449	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1466547	31770449	27358534	344	49483										
IL28B	282617	broad.mit.edu	37	chr19	39735108	39735108	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aagaggcgggagcggcacttGcagtccttcagcagaagcga	15	10	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:39735108G>C	uc010xut.1	-	2	211	c.207C>G	c.(205-207)TGC>TGG	p.C69W	IL28B_uc010xuu.1_Missense_Mutation_p.C69W	NM_172139	NP_742151	Q8IZI9	IL28B_HUMAN	interleukin 28B	69					response to virus	extracellular space	cytokine activity				0	all_cancers(60;2.81e-07)|all_lung(34;7.81e-08)|Lung NSC(34;9.29e-08)|all_epithelial(25;3.9e-07)|Ovarian(47;0.0315)		Epithelial(26;1.55e-27)|all cancers(26;1.41e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			AGCGGCACTTGCAGTCCTTCA	0.632													8	16	---	---	---	---	PASS	C	39735108	C	C	39735108	3	2	138	1	0	0	0	0	1	0	0	0	7683	1311	46	4	398	4	IL28B	19	39735108	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	7964659	39735108	19393875	345	49484										
DYRK1B	9149	broad.mit.edu	37	chr19	40316498	40316498	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggcagccgggtgctggggggCaggcgctgggtgaggtgggg	26	7	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:40316498C>A	uc002omj.2	-	11	2027	c.1747G>T	c.(1747-1749)GCC>TCC	p.A583S	DYRK1B_uc002omi.2_Missense_Mutation_p.A555S|DYRK1B_uc002omk.2_Missense_Mutation_p.A543S	NM_004714	NP_004705	Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	583					positive regulation of transcription, DNA-dependent	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|transcription coactivator activity			ovary(4)|stomach(1)|central_nervous_system(1)|skin(1)	7	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)		Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)			TGCTGGGGGGCAGGCGCTGGG	0.697													7	30	---	---	---	---	PASS	A	40316498	A	A	40316498	3	1	138	1	0	0	0	0	1	0	0	0	4855	710	25	3	146	3	DYRK1B	19	40316498	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	581390	40316498	18812485	346	49485										
PLD3	23646	broad.mit.edu	37	chr19	40876045	40876045	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtccgcatggtggacatgcaGaagctgacccatggcgtcct	13	12	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:40876045G>A	uc002onm.3	+	8	977	c.579G>A	c.(577-579)CAG>CAA	p.Q193Q	PLD3_uc002onj.3_Silent_p.Q193Q|PLD3_uc002onk.3_Silent_p.Q193Q|PLD3_uc002onl.3_Silent_p.Q193Q|PLD3_uc002onn.2_Silent_p.Q193Q	NM_001031696	NP_001026866	Q8IV08	PLD3_HUMAN	phospholipase D3	193	Lumenal (Potential).				lipid catabolic process	endoplasmic reticulum membrane|integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity|protein binding			skin(2)|ovary(1)	3			Lung(22;0.000636)|LUSC - Lung squamous cell carcinoma(20;0.00248)			TGGACATGCAGAAGCTGACCC	0.642													5	29	---	---	---	---	PASS	A	40876045	A	A	40876045	2	1	138	1	0	0	0	0	0	0	0	1	12047	933	33	2		2	PLD3	19	40876045	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	559547	40876045	18252938	347	49486										
GRIK5	2901	broad.mit.edu	37	chr19	42557753	42557753	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cccccatctagggccactcaCcaggatggttgtgaccacca	9	16	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:42557753C>A	uc002osj.1	-	10	1304	c.1269_splice	c.e10+1	p.L423_splice	GRIK5_uc010eib.1_Splice_Site_p.L342_splice	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor							cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	GGGCCACTCACCAGGATGGTT	0.622													27	30	---	---	---	---	PASS	A	42557753	A	A	42557753	5	1	138	1	0	0	0	0	0	0	1	0	6777	521	18	3	1712	3	GRIK5	19	42557753	Splice_Site	SNP	C	TCGA-63-6202-01A-11D-1817-08	1681708	42557753	16571230	348	49487										
CD177	57126	broad.mit.edu	37	chr19	43865645	43865645	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcctacctgtgtgcagccccTtggaacctgttcaagtggct	10	13	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:43865645T>A	uc002owi.2	+	9	1037	c.995T>A	c.(994-996)CTT>CAT	p.L332H	CD177_uc010eis.2_RNA|CD177_uc002owj.2_RNA	NM_020406	NP_065139	Q8N6Q3	CD177_HUMAN	CD177 molecule precursor	332	UPAR/Ly6 2.				blood coagulation|leukocyte migration	anchored to membrane|plasma membrane				central_nervous_system(1)	1		Prostate(69;0.00682)				GTGCAGCCCCTTGGAACCTGT	0.597													8	37	---	---	---	---	PASS	A	43865645	A	A	43865645	3	1	138	1	0	0	0	0	1	0	0	0	2971	1609	56	5	1025	5	CD177	19	43865645	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	1307892	43865645	15263338	349	49488										
ETHE1	23474	broad.mit.edu	37	chr19	44011035	44011035	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtctgcaccccacagcgcatGttggctggaacagcaaagtc	11	13	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:44011035G>A	uc002owp.2	-	7	799	c.732C>T	c.(730-732)AAC>AAT	p.N244N	PHLDB3_uc002own.3_5'Flank|PHLDB3_uc002owo.2_5'Flank	NM_014297	NP_055112	O95571	ETHE1_HUMAN	ETHE1 protein precursor	244						mitochondrial matrix|nucleus	hydrolase activity|metal ion binding				0		Prostate(69;0.0153)				CACAGCGCATGTTGGCTGGAA	0.522													31	54	---	---	---	---	PASS	A	44011035	A	A	44011035	2	1	138	1	0	0	0	0	0	0	0	1	5272	1368	48	3		3	ETHE1	19	44011035	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	145390	44011035	15117948	350	49489										
RSPH6A	81492	broad.mit.edu	37	chr19	46308014	46308014	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcctcgccgtgcgcctccatGacctcgccaccttccgtcat	7	20	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:46308014G>A	uc002pdm.2	-	3	1292	c.1149C>T	c.(1147-1149)GTC>GTT	p.V383V	RSPH6A_uc002pdl.2_Silent_p.V119V	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	383	Glu-rich.					intracellular				ovary(1)|central_nervous_system(1)	2						gcgcctccATGACCTCGCCAC	0.353													10	8	---	---	---	---	PASS	A	46308014	A	A	46308014	2	1	138	1	0	0	0	0	0	0	0	1	13707	1277	45	2		2	RSPH6A	19	46308014	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	2296979	46308014	12820969	351	49490										
PTGIR	5739	broad.mit.edu	37	chr19	47127253	47127253	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggcccagcagggagctgttgCgcgcataggccacgaacacg	15	13	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:47127253C>G	uc002pex.2	-	2	343	c.230G>C	c.(229-231)CGC>CCC	p.R77P		NM_000960	NP_000951	P43119	PI2R_HUMAN	prostaglandin I2 (prostacyclin) receptor (IP)	77	Extracellular (Potential).				cell-cell signaling|G-protein signaling, coupled to cyclic nucleotide second messenger|platelet activation	integral to plasma membrane	G-protein coupled receptor activity|guanyl-nucleotide exchange factor activity				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000327)|all cancers(93;0.000641)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0331)	Dinoprost Tromethamine(DB01160)|Dinoprostone(DB00917)|Epoprostenol(DB01240)|Iloprost(DB01088)|Misoprostol(DB00929)	GGAGCTGTTGCGCGCATAGGC	0.716													2	1	---	---	---	---	PASS	G	47127253	G	G	47127253	3	3	138	1	0	0	0	0	1	0	0	0	12751	768	27	4	938	4	PTGIR	19	47127253	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	819239	47127253	12001730	352	49491										
LMTK3	114783	broad.mit.edu	37	chr19	49004555	49004555	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctcaccagatgttgctctcgCggctctggtccaccaccatg	9	16	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:49004555C>T	uc002pjk.2	-	10	1073	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H		NM_001080434	NP_001073903			lemur tyrosine kinase 3											lung(5)|central_nervous_system(1)	6		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;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)		GTTGCTCTCGCGGCTCTGGTC	0.657													22	98	---	---	---	---	PASS	T	49004555	T	T	49004555	3	4	138	1	0	0	0	0	1	0	0	0	8860	768	27	1	3424	1	LMTK3	19	49004555	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1877302	49004555	10124428	353	49492										
PIH1D1	55011	broad.mit.edu	37	chr19	49952853	49952853	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcgggaggagggatagagggGgagtggcagatgttgatgaa	22	2	0	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:49952853G>A	uc002pns.2	-	3	500	c.216C>T	c.(214-216)TCC>TCT	p.S72S	PIH1D1_uc010yap.1_Missense_Mutation_p.P103S|PIH1D1_uc010yaq.1_Silent_p.S72S	NM_017916	NP_060386	Q9NWS0	PIHD1_HUMAN	NOP17	72					box C/D snoRNP assembly	pre-snoRNP complex					0		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00152)|GBM - Glioblastoma multiforme(486;0.0244)		GGATAGAGGGGGAGTGGCAGA	0.547													17	56	---	---	---	---	PASS	A	49952853	A	A	49952853	2	1	138	1	0	0	0	0	0	0	0	1	11906	1219	43	3		3	PIH1D1	19	49952853	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	948298	49952853	9176130	354	49493										
SIGLEC12	89858	broad.mit.edu	37	chr19	52004699	52004699	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	atccttgttctgtgggtcccCaaggaggtggaatcggtccc	13	11	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:52004699C>T	uc002pwx.1	-	1	345	c.289G>A	c.(289-291)GGG>AGG	p.G97R	SIGLEC12_uc002pww.1_5'Flank|SIGLEC12_uc010eoy.1_5'UTR	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	97	Ig-like V-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		TGTGGGTCCCCAAGGAGGTGG	0.537													72	145	---	---	---	---	PASS	T	52004699	T	T	52004699	3	4	138	1	0	0	0	0	1	0	0	0	14308	594	21	3	1603	3	SIGLEC12	19	52004699	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	2051846	52004699	7124284	355	49494										
SIGLEC12	89858	broad.mit.edu	37	chr19	52004757	52004757	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gctcgagctgggttgtttgtGgccactggaatgttccggct	15	9	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:52004757G>T	uc002pwx.1	-	1	287	c.231C>A	c.(229-231)GCC>GCA	p.A77A	SIGLEC12_uc002pww.1_5'Flank|SIGLEC12_uc010eoy.1_5'UTR	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	77	Ig-like V-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		GGTTGTTTGTGGCCACTGGAA	0.577													13	99	---	---	---	---	PASS	T	52004757	T	T	52004757	2	4	138	1	0	0	0	0	0	0	0	1	14308	1335	47	3		3	SIGLEC12	19	52004757	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	58	52004757	7124226	356	49495										
ZNF808	388558	broad.mit.edu	37	chr19	53050785	53050785	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggacgcttgactttcagggaTgtggctatagaattctcatt	11	7	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:53050785T>A	uc010epq.1	+	4	261	c.84T>A	c.(82-84)GAT>GAA	p.D28E	ZNF808_uc002pzq.2_Intron	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	28	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		CTTTCAGGGATGTGGCTATAG	0.423													37	178	---	---	---	---	PASS	A	53050785	A	A	53050785	3	1	138	1	0	0	0	0	1	0	0	0	18170	1461	51	5	90	5	ZNF808	19	53050785	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	1046028	53050785	6078198	357	49496										
LILRB1	10859	broad.mit.edu	37	chr19	55144079	55144079	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctggcgcacagccccaggctGggctctcccaggccaacttc	11	18	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:55144079G>T	uc002qgj.2	+	7	1166	c.826G>T	c.(826-828)GGG>TGG	p.G276W	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Missense_Mutation_p.G276W|LILRB1_uc002qgk.2_Missense_Mutation_p.G276W|LILRB1_uc002qgm.2_Missense_Mutation_p.G276W|LILRB1_uc010erq.2_Missense_Mutation_p.G276W|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	276	Ig-like C2-type 3.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		GCCCCAGGCTGGGCTCTCCCA	0.612										HNSCC(37;0.09)			36	52	---	---	---	---	PASS	T	55144079	T	T	55144079	3	4	138	1	0	0	0	0	1	0	0	0	8790	1348	47	3	844	3	LILRB1	19	55144079	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	2093294	55144079	3984904	358	49497										
NLRP5	126206	broad.mit.edu	37	chr19	56539855	56539855	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agagatgagtccgctgaggcAtgtcctgtggtccctctatg	13	10	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:56539855A>G	uc002qmj.2	+	7	2256	c.2256A>G	c.(2254-2256)GCA>GCG	p.A752A	NLRP5_uc002qmi.2_Silent_p.A733A	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	752	LRR 2.					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)		CCGCTGAGGCATGTCCTGTGG	0.517													52	223	---	---	---	---	PASS	G	56539855	G	G	56539855	2	3	138	1	0	0	0	0	0	0	0	1	10480	204	8	5		5	NLRP5	19	56539855	Silent	SNP	A	TCGA-63-6202-01A-11D-1817-08	1395776	56539855	2589128	359	49498										
ZNF460	10794	broad.mit.edu	37	chr19	57802733	57802733	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	acggcaccagcgggttcacaGtggagagaagccttttgtgt	14	9	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:57802733G>A	uc002qog.2	+	3	1146	c.824G>A	c.(823-825)AGT>AAT	p.S275N	ZNF460_uc010ygv.1_Missense_Mutation_p.S234N	NM_006635	NP_006626	Q14592	ZN460_HUMAN	zinc finger protein 460	275					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CGGGTTCACAGTGGAGAGAAG	0.502													41	59	---	---	---	---	PASS	A	57802733	A	A	57802733	3	1	138	1	0	0	0	0	1	0	0	0	17921	1029	36	3	834	3	ZNF460	19	57802733	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1262878	57802733	1326250	360	49499										
ZSCAN1	284312	broad.mit.edu	37	chr19	58564832	58564832	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgcctctgaagccgagtatcTgggacgagcctgaggacctt	13	11	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:58564832T>G	uc002qrc.1	+	6	887	c.640T>G	c.(640-642)TGG>GGG	p.W214G		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	214					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		GCCGAGTATCTGGGACGAGCC	0.632													34	41	---	---	---	---	PASS	G	58564832	G	G	58564832	3	3	138	1	0	0	0	0	1	0	0	0	18223	1580	55	5	654	5	ZSCAN1	19	58564832	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	762099	58564832	564151	361	49500										
ZNF135	7694	broad.mit.edu	37	chr19	58579628	58579628	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tccttcagccacagctcctcGctcagccagcacgaaaggac	8	17	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr19:58579628G>T	uc010yhq.1	+	5	1908	c.1812G>T	c.(1810-1812)TCG>TCT	p.S604S	ZNF135_uc002qre.2_Silent_p.S592S|ZNF135_uc002qrd.1_Intron|ZNF135_uc002qrf.2_Silent_p.S550S|ZNF135_uc002qrg.2_Silent_p.S562S|ZNF135_uc010yhr.1_Silent_p.S413S	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	604					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		ACAGCTCCTCGCTCAGCCAGC	0.552													53	53	---	---	---	---	PASS	T	58579628	T	T	58579628	2	4	138	1	0	0	0	0	0	0	0	1	17722	1074	38	1		1	ZNF135	19	58579628	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	14796	58579628	549355	362	49501										
SIRPB1	10326	broad.mit.edu	37	chr20	1551566	1551566	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	caggtgagcaccacatcgtcCctgtgggcacaggtgttcac	12	13	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr20:1551566C>A	uc010gai.2	-	4	1068	c.969G>T	c.(967-969)AGG>AGT	p.R323S	SIRPB1_uc002wfk.3_Intron	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	323	Ig-like C1-type 2.|Extracellular (Potential).				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						CCACATCGTCCCTGTGGGCAC	0.562													62	77	---	---	---	---	PASS	A	1551566	A	A	1551566	3	1	138	1	0	0	0	0	1	0	0	0	14333	622	22	3	235	3	SIRPB1	20	1551566	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08		1551566	61473954	363	49502										
GFRA4	64096	broad.mit.edu	37	chr20	3640822	3640822	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tacctgcaggaggctgtgctCcgggtctccctgggggttca	15	12	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr20:3640822C>A	uc002wio.2	-	4	802	c.802G>T	c.(802-804)GAG>TAG	p.E268*	GFRA4_uc002win.2_Nonsense_Mutation_p.E238*	NM_145762	NP_665705	Q9GZZ7	GFRA4_HUMAN	GDNF family receptor alpha 4 isoform b	268						anchored to membrane|extracellular region|plasma membrane	receptor activity				0						AGGCTGTGCTCCGGGTCTCCC	0.672													9	18	---	---	---	---	PASS	A	3640822	A	A	3640822	4	1	138	1	0	0	0	0	0	1	0	0	6350	864	30	2	105	2	GFRA4	20	3640822	Nonsense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	2089256	3640822	59384698	364	49503										
ADAM33	80332	broad.mit.edu	37	chr20	3655185	3655185	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	caccaggaaggctggtcatgCccgctttgttcccaggatcc	11	14	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr20:3655185C>G	uc002wit.2	-	6	653	c.566G>C	c.(565-567)GGC>GCC	p.G189A	ADAM33_uc002wir.1_Missense_Mutation_p.G189A|ADAM33_uc002wis.2_5'Flank|ADAM33_uc002wiu.2_Missense_Mutation_p.G189A|ADAM33_uc002wiw.1_Intron|ADAM33_uc010gba.1_Intron|ADAM33_uc010gbb.1_Intron|ADAM33_uc002wix.1_Intron|ADAM33_uc010zqg.1_Missense_Mutation_p.G201A|ADAM33_uc010zqh.1_Missense_Mutation_p.G189A	NM_025220	NP_079496	Q9BZ11	ADA33_HUMAN	ADAM metallopeptidase domain 33 isoform alpha	189	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|ovary(1)|skin(1)	4						GCTGGTCATGCCCGCTTTGTT	0.582													24	81	---	---	---	---	PASS	G	3655185	G	G	3655185	3	3	138	1	0	0	0	0	1	0	0	0	250	739	26	4	1943	4	ADAM33	20	3655185	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	14363	3655185	59370335	365	49504										
PLCB4	5332	broad.mit.edu	37	chr20	9382159	9382159	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gaccaagaggaggaagctcaCcccgaattcaaatttggaaa	10	9	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr20:9382159C>A	uc002wnf.2	+	19	1669	c.1533C>A	c.(1531-1533)CAC>CAA	p.H511Q	PLCB4_uc010gbw.1_Missense_Mutation_p.H511Q|PLCB4_uc010gbx.2_Missense_Mutation_p.H511Q|PLCB4_uc002wne.2_Missense_Mutation_p.H511Q|PLCB4_uc002wnh.2_Missense_Mutation_p.H358Q	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	511					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						AGGAAGCTCACCCCGAATTCA	0.448													20	26	---	---	---	---	PASS	A	9382159	A	A	9382159	3	1	138	1	0	0	0	0	1	0	0	0	12030	506	18	3	1599	3	PLCB4	20	9382159	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	5726974	9382159	53643361	366	49505										
C20orf26	26074	broad.mit.edu	37	chr20	20340853	20340853	+	Splice_Site	SNP	G	T	T													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcctcttactgtgttttacaGgaggaagatcttccttccat							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr20:20340853G>T	uc002wru.2	+	27	3590	c.3514_splice	c.e27-1	p.E1172_splice	C20orf26_uc002wrw.2_Splice_Site	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074											ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GTGTTTTACAGGAGGAAGATC	0.428											OREG0025807	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	131	---	---	---	---	PASS	T	20340853	T	T	20340853	5	4	138	1	0	0	0	0	0	0	1	0	2106	1014	35	3	3647	3	C20orf26	20	20340853	Splice_Site	SNP	G	TCGA-63-6202-01A-11D-1817-08	10958694	20340853	42684667	367	49506	907	2								
C20orf26	26074	broad.mit.edu	37	chr20	20340854	20340854	+	Nonsense_Mutation	SNP	G	T	T													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cctcttactgtgttttacagGaggaagatcttccttccata							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr20:20340854G>T	uc002wru.2	+	27	3590	c.3514G>T	c.(3514-3516)GAG>TAG	p.E1172*	C20orf26_uc002wrw.2_RNA	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	1172										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TGTTTTACAGGAGGAAGATCT	0.428											OREG0025807	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	131	---	---	---	---	PASS	T	20340854	T	T	20340854	4	4	138	1	0	0	0	0	0	1	0	0	2106	1188	41	2	3648	2	C20orf26	20	20340854	Nonsense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1	20340854	42684666	368	49507	907	2								
GSS	2937	broad.mit.edu	37	chr20	33516668	33516668	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgtccaggactgccactcccGctgccacaccaccatctgca	7	19	1	0	rs142494184	by1000genomes	TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr20:33516668G>T	uc002xbg.2	-	13	1468	c.1388C>A	c.(1387-1389)GCG>GAG	p.A463E	GSS_uc010zun.1_Missense_Mutation_p.A335E|GSS_uc010zuo.1_Missense_Mutation_p.A352E|GSS_uc010zup.1_Missense_Mutation_p.A394E|GSS_uc002xbh.2_RNA	NM_000178	NP_000169	P48637	GSHB_HUMAN	glutathione synthetase	463					nervous system development|response to oxidative stress|xenobiotic metabolic process	cytosol	ATP binding|glutathione binding|glutathione synthase activity|magnesium ion binding|protein homodimerization activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(18;0.035)		Glutathione(DB00143)|Glycine(DB00145)|L-Cysteine(DB00151)	TGCCACTCCCGCTGCCACACC	0.542													8	46	---	---	---	---	PASS	T	33516668	T	T	33516668	3	4	138	1	0	0	0	0	1	0	0	0	6829	1087	38	1	40	1	GSS	20	33516668	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	13175814	33516668	29508852	369	49508										
FAM83D	81610	broad.mit.edu	37	chr20	37580988	37580988	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgactcacttagaaacttgaAcaaagagcggcaattccact	7	10	1	4			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr20:37580988A>T	uc002xjg.2	+	4	1714	c.1673A>T	c.(1672-1674)AAC>ATC	p.N558I		NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	528					cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				AGAAACTTGAACAAAGAGCGG	0.512													22	78	---	---	---	---	PASS	T	37580988	T	T	37580988	3	4	138	1	0	0	0	0	1	0	0	0	5636	43	2	5	1687	5	FAM83D	20	37580988	Missense_Mutation	SNP	A	TCGA-63-6202-01A-11D-1817-08	4064320	37580988	25444532	370	49509										
PTPRT	11122	broad.mit.edu	37	chr20	41419868	41419868	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ggccagaaagtgctgatggcGagctctgccttcacccagcc	12	14	2	2	rs140340339		TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr20:41419868G>T	uc002xkg.2	-	3	637	c.453C>A	c.(451-453)CTC>CTA	p.L151L	PTPRT_uc010ggj.2_Silent_p.L151L	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	151	Extracellular (Potential).|MAM.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity	p.L151L(1)		skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TGCTGATGGCGAGCTCTGCCT	0.488													32	126	---	---	---	---	PASS	T	41419868	T	T	41419868	2	4	138	1	0	0	0	0	0	0	0	1	12812	1045	37	2		2	PTPRT	20	41419868	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	3838880	41419868	21605652	371	49510										
TTPAL	79183	broad.mit.edu	37	chr20	43113110	43113110	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcagactacaaaggagtgagTttatcaaaagcatctcactt	8	8	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr20:43113110T>C	uc002xmc.1	+	4	703	c.579T>C	c.(577-579)AGT>AGC	p.S193S	TTPAL_uc002xmd.1_Silent_p.S193S|TTPAL_uc010ggr.1_Intron	NM_024331	NP_077307	Q9BTX7	TTPAL_HUMAN	tocopherol (alpha) transfer protein-like	193	CRAL-TRIO.					intracellular	transporter activity			breast(1)	1						AAGGAGTGAGTTTATCAAAAG	0.428													15	68	---	---	---	---	PASS	C	43113110	C	C	43113110	2	2	138	1	0	0	0	0	0	0	0	1	16734	1722	60	5		5	TTPAL	20	43113110	Silent	SNP	T	TCGA-63-6202-01A-11D-1817-08	1693242	43113110	19912410	372	49511										
KCNJ6	3763	broad.mit.edu	37	chr21	39086791	39086791	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gaattcctaaggtcccctacCcggaacatcaggcacagttt	8	13	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr21:39086791C>G	uc011aej.1	-	3	722	c.669G>C	c.(667-669)CGG>CGC	p.R223R	KCNJ6_uc002ywo.2_Silent_p.R223R	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	223	Cytoplasmic (By similarity).				synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	GGTCCCCTACCCGGAACATCA	0.517													13	76	---	---	---	---	PASS	G	39086791	G	G	39086791	2	3	138	1	0	0	0	0	0	0	0	1	8055	610	22	4		4	KCNJ6	21	39086791	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08		39086791	9043104	373	49512										
MX1	4599	broad.mit.edu	37	chr21	42807802	42807802	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgcagccagtatgaggagaaGgtgcgcccctgcatcgacct	13	12	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr21:42807802G>A	uc002yzh.2	+	8	1091	c.144G>A	c.(142-144)AAG>AAA	p.K48K	MX1_uc002yzi.2_Silent_p.K48K|MX1_uc010goq.2_Silent_p.K48K	NM_001144925	NP_001138397	P20591	MX1_HUMAN	myxovirus resistance protein 1	48					induction of apoptosis|response to virus|type I interferon-mediated signaling pathway	cytosol	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(19;3.18e-07)|all_epithelial(19;0.0277)				ATGAGGAGAAGGTGCGCCCCT	0.547													31	98	---	---	---	---	PASS	A	42807802	A	A	42807802	2	1	138	1	0	0	0	0	0	0	0	1	9997	991	35	3		3	MX1	21	42807802	Silent	SNP	G	TCGA-63-6202-01A-11D-1817-08	3721011	42807802	5322093	374	49513										
DEPDC5	9681	broad.mit.edu	37	chr22	32215144	32215144	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	agagcactgattaaccccttCgctccctctcggatgcccat	7	16	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr22:32215144C>T	uc003als.2	+	22	1945	c.1803C>T	c.(1801-1803)TTC>TTT	p.F601F	DEPDC5_uc011als.1_Silent_p.F601F|DEPDC5_uc011alu.1_Silent_p.F601F|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Silent_p.F601F|DEPDC5_uc003alu.2_Silent_p.F41F|DEPDC5_uc003alv.2_RNA|DEPDC5_uc011alt.1_Silent_p.F573F	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	601					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						TTAACCCCTTCGCTCCCTCTC	0.498													29	89	---	---	---	---	PASS	T	32215144	T	T	32215144	2	4	138	1	0	0	0	0	0	0	0	1	4442	883	31	2		2	DEPDC5	22	32215144	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08		32215144	19089422	375	49514										
TCF20	6942	broad.mit.edu	37	chr22	42605710	42605710	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gccatagagcctgccacaaaCcaggtagattccattggccc	9	14	0	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr22:42605710C>A	uc003bcj.1	-	1	5736	c.5602G>T	c.(5602-5604)GTT>TTT	p.V1868F	TCF20_uc003bck.1_Missense_Mutation_p.V1868F|TCF20_uc003bnt.2_Missense_Mutation_p.V1868F	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	1868					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						CTGCCACAAACCAGGTAGATT	0.468													53	117	---	---	---	---	PASS	A	42605710	A	A	42605710	3	1	138	1	0	0	0	0	1	0	0	0	15687	507	18	3	318	3	TCF20	22	42605710	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	10390566	42605710	8698856	376	49515										
EFCAB6	64800	broad.mit.edu	37	chr22	44031098	44031098	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tcccagtgtcttccagtaccTgacgagggagacaggggagg	15	10	1	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr22:44031098T>C	uc003bdy.1	-	18	2199	c.1984_splice	c.e18-1	p.V662_splice	EFCAB6_uc003bdz.1_Splice_Site_p.V510_splice|EFCAB6_uc010gzi.1_Splice_Site_p.V510_splice|EFCAB6_uc010gzj.1_Intron|EFCAB6_uc010gzk.1_Intron	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				TTCCAGTACCTGACGAGGGAG	0.567													20	51	---	---	---	---	PASS	C	44031098	C	C	44031098	5	2	138	1	0	0	0	0	0	0	1	0	4939	1594	55	5	2583	5	EFCAB6	22	44031098	Splice_Site	SNP	T	TCGA-63-6202-01A-11D-1817-08	1425388	44031098	7273468	377	49516										
MOV10L1	54456	broad.mit.edu	37	chr22	50547272	50547272	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gtatgaccctagtgaagaggCggtaagaaaatgcttttctg	12	6	1	4	rs138868385		TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr22:50547272C>T	uc003bjj.2	+	5	825	c.742C>T	c.(742-744)CGA>TGA	p.R248*	MOV10L1_uc003bjk.3_Nonsense_Mutation_p.R248*|MOV10L1_uc011arp.1_Nonsense_Mutation_p.R228*	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	248					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		AGTGAAGAGGCGGTAAGAAAA	0.313													5	52	---	---	---	---	PASS	T	50547272	T	T	50547272	4	4	138	1	0	0	0	0	0	1	0	0	9719	782	27	1	801	1	MOV10L1	22	50547272	Nonsense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	6516174	50547272	757294	378	49517										
SHANK3	85358	broad.mit.edu	37	chr22	51143492	51143492	+	Missense_Mutation	SNP	G	T	T													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gaaggttgtgtctgtgacaaGgaagccagaagaggacgggg							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr22:51143492G>T	uc003bne.1	+	17	2045	c.2045G>T	c.(2044-2046)AGG>ATG	p.R682M	SHANK3_uc003bnf.1_Missense_Mutation_p.R137M	NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	682										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		TCTGTGACAAGGAAGCCAGAA	0.597													20	44	---	---	---	---	PASS	T	51143492	T	T	51143492	3	4	138	1	0	0	0	0	1	0	0	0	14266	1000	35	3	2111	3	SHANK3	22	51143492	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	596220	51143492	161074	379	49518	908	2								
SHANK3	85358	broad.mit.edu	37	chr22	51143493	51143493	+	Missense_Mutation	SNP	G	T	T													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaggttgtgtctgtgacaagGaagccagaagaggacggggc							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chr22:51143493G>T	uc003bne.1	+	17	2046	c.2046G>T	c.(2044-2046)AGG>AGT	p.R682S	SHANK3_uc003bnf.1_Missense_Mutation_p.R137S	NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	682										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		CTGTGACAAGGAAGCCAGAAG	0.597													19	43	---	---	---	---	PASS	T	51143493	T	T	51143493	3	4	138	1	0	0	0	0	1	0	0	0	14266	1165	41	2	2112	2	SHANK3	22	51143493	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	1	51143493	161073	380	49519	908	2								
FAM48B2	170067	broad.mit.edu	37	chrX	24330733	24330733	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctggaggcactgttccatcgGgtcggtattcatcttttgct	11	10	2	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:24330733G>T	uc011mjw.1	-	1	700	c.700C>A	c.(700-702)CCG>ACG	p.P234T		NM_001136233	NP_001129705	P0C7V6	F48B2_HUMAN	family with sequence similarity 48, member B2	234											0						TGTTCCATCGGGTCGGTATTC	0.527													27	39	---	---	---	---	PASS	T	24330733	T	T	24330733	3	4	138	1	0	0	0	0	1	0	0	0	5574	1232	43	3	1756	3	FAM48B2	23	24330733	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08		24330733	130939827	381	49520										
PCYT1B	9468	broad.mit.edu	37	chrX	24580609	24580609	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcatccggctgctcctctccTggaacatctgcttctaaaga	8	14	3	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:24580609T>A	uc004dbi.2	-	8	1144	c.911A>T	c.(910-912)CAG>CTG	p.Q304L	PCYT1B_uc004dbk.3_Missense_Mutation_p.Q304L|PCYT1B_uc004dbj.2_Missense_Mutation_p.Q286L	NM_004845	NP_004836	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	304						endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)	GCTCCTCTCCTGGAACATCTG	0.567													3	7	---	---	---	---	PASS	A	24580609	A	A	24580609	3	1	138	1	0	0	0	0	1	0	0	0	11611	1580	55	5	239	5	PCYT1B	23	24580609	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	249876	24580609	130689951	382	49521										
MAGEB1	4112	broad.mit.edu	37	chrX	30269093	30269093	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	cgccgcttggagctcgtcttTggccttgatttgaaggaaga	13	9	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:30269093T>G	uc004dcc.2	+	4	803	c.483T>G	c.(481-483)TTT>TTG	p.F161L	MAGEB1_uc004dcd.2_Missense_Mutation_p.F161L|MAGEB1_uc004dce.2_Missense_Mutation_p.F161L	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	161	MAGE.										0						AGCTCGTCTTTGGCCTTGATT	0.478													6	14	---	---	---	---	PASS	G	30269093	G	G	30269093	3	3	138	1	0	0	0	0	1	0	0	0	9172	1809	63	5	485	5	MAGEB1	23	30269093	Missense_Mutation	SNP	T	TCGA-63-6202-01A-11D-1817-08	5688484	30269093	125001467	383	49522										
FAM47B	170062	broad.mit.edu	37	chrX	34961941	34961941	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gaggctggagtgtcccatctCtgcctggaacctcccaacac	10	15	1	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:34961941C>G	uc004ddi.1	+	1	1011	c.993C>G	c.(991-993)CTC>CTG	p.L331L		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	331										ovary(3)|breast(1)	4						TGTCCCATCTCTGCCTGGAAC	0.587													15	29	---	---	---	---	PASS	G	34961941	G	G	34961941	2	3	138	1	0	0	0	0	0	0	0	1	5570	900	32	2		2	FAM47B	23	34961941	Silent	SNP	C	TCGA-63-6202-01A-11D-1817-08	4692848	34961941	120308619	384	49523										
DGKK	139189	broad.mit.edu	37	chrX	50167245	50167245	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tgacaatatgctatacattaCcgcgggatggtgtgcaaagt	11	7	0	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:50167245C>A	uc010njr.1	-	2	816	c.756_splice	c.e2+1	p.A252_splice		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					CTATACATTACCGCGGGATGG	0.418													13	23	---	---	---	---	PASS	A	50167245	A	A	50167245	5	1	138	1	0	0	0	0	0	0	1	0	4472	521	18	3	3165	3	DGKK	23	50167245	Splice_Site	SNP	C	TCGA-63-6202-01A-11D-1817-08	15205304	50167245	105103315	385	49524										
WNK3	65267	broad.mit.edu	37	chrX	54264800	54264800	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	accgaccccgctgaaatgatCcactcatcgctttacatcta	5	15	2	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:54264800C>A	uc004dtd.1	-	19	4287	c.3848G>T	c.(3847-3849)GGA>GTA	p.G1283V	WNK3_uc004dtc.1_Missense_Mutation_p.G1330V	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1283					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						CTGAAATGATCCACTCATCGC	0.443													16	24	---	---	---	---	PASS	A	54264800	A	A	54264800	3	1	138	1	0	0	0	0	1	0	0	0	17376	855	30	2	1437	2	WNK3	23	54264800	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	4097555	54264800	101005760	386	49525										
KIAA2022	340533	broad.mit.edu	37	chrX	73963349	73963349	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gggccccactcttagactctCgcttggggcaggtagtaaag	13	11	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:73963349C>A	uc004eby.2	-	3	1660	c.1043G>T	c.(1042-1044)CGA>CTA	p.R348L		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	348					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						CTTAGACTCTCGCTTGGGGCA	0.473													18	33	---	---	---	---	PASS	A	73963349	A	A	73963349	3	1	138	1	0	0	0	0	1	0	0	0	8269	884	31	2	3515	2	KIAA2022	23	73963349	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	19698549	73963349	81307211	387	49526										
GPR174	84636	broad.mit.edu	37	chrX	78427401	78427401	+	Frame_Shift_Del	DEL	C	-	-													0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	tacttttccactaatgagttCcgaagacggctttcaagaca							TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:78427401delC	uc004edg.1	+	1	933	c.897delC	c.(895-897)TTCfs	p.F299fs		NM_032553	NP_115942	Q9BXC1	GP174_HUMAN	putative purinergic receptor FKSG79	299	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)|central_nervous_system(1)	2						CTAATGAGTTCCGAAGACGGC	0.408										HNSCC(63;0.18)			33	23	---	---	---	---		-	78427401	-	-	78427401	7	5	138	1	0	1	0	1	0	0	0	0	6672	854	30	0	899	0	GPR174	23	78427401	Frame_Shift_Del	DEL	C	TCGA-63-6202-01A-11D-1817-08	4464052	78427401	76843159	388	49527										
ZMAT1	84460	broad.mit.edu	37	chrX	101159199	101159199	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ccattatttttaacctacctCataatgtgaaattctttgtg	4	8	2	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:101159199C>A	uc011mrl.1	-	3	537	c.226G>T	c.(226-228)GAG>TAG	p.E76*	ZMAT1_uc004ein.2_5'UTR|ZMAT1_uc011mrm.1_5'UTR	NM_001011657	NP_001011657	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 1	Error:Variant_position_missing_in_A7MD47_after_alignment						nucleus	zinc ion binding			ovary(1)	1						TAACCTACCTCATAATGTGAA	0.289													6	13	---	---	---	---	PASS	A	101159199	A	A	101159199	4	1	138	1	0	0	0	0	0	1	0	0	17688	835	29	2	1710	2	ZMAT1	23	101159199	Nonsense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	22731798	101159199	54111361	389	49528										
RGAG1	57529	broad.mit.edu	37	chrX	109694561	109694561	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcaaattacagatgaagacaCcgaagcaatgtccaaagtgc	9	9	0	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:109694561C>G	uc004eor.1	+	3	962	c.716C>G	c.(715-717)ACC>AGC	p.T239S	RGAG1_uc011msr.1_Missense_Mutation_p.T239S	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	239										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GATGAAGACACCGAAGCAATG	0.468													38	49	---	---	---	---	PASS	G	109694561	G	G	109694561	3	3	138	1	0	0	0	0	1	0	0	0	13274	507	18	4	718	4	RGAG1	23	109694561	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	8535362	109694561	45575999	390	49529										
WDR44	54521	broad.mit.edu	37	chrX	117566799	117566799	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	aaacgcaccctttcggcaacGgccattttgcaaatataaag	7	11	0	0			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:117566799G>C	uc004eqn.2	+	13	2218	c.1793G>C	c.(1792-1794)CGG>CCG	p.R598P	WDR44_uc004eqo.2_Missense_Mutation_p.R598P|WDR44_uc011mtr.1_Missense_Mutation_p.R573P|WDR44_uc010nqi.2_Missense_Mutation_p.R308P	NM_019045	NP_061918	Q5JSH3	WDR44_HUMAN	WD repeat domain 44 protein	598						cytosol|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm				lung(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5						TTTCGGCAACGGCCATTTTGC	0.343													41	66	---	---	---	---	PASS	C	117566799	C	C	117566799	3	2	138	1	0	0	0	0	1	0	0	0	17293	1116	39	4	1843	4	WDR44	23	117566799	Missense_Mutation	SNP	G	TCGA-63-6202-01A-11D-1817-08	7872238	117566799	37703761	391	49530										
MAGEC2	51438	broad.mit.edu	37	chrX	141290679	141290679	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gaaaaggagacgttgctggaCatgacactgaggctttcact	12	8	1	3			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:141290679C>A	uc004fbu.1	-	3	1443	c.1095G>T	c.(1093-1095)ATG>ATT	p.M365I		NM_016249	NP_057333	Q9UBF1	MAGC2_HUMAN	melanoma antigen family C, 2	365						cytoplasm|nucleus				breast(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CGTTGCTGGACATGACACTGA	0.498										HNSCC(46;0.14)			13	77	---	---	---	---	PASS	A	141290679	A	A	141290679	3	1	138	1	0	0	0	0	1	0	0	0	9181	478	17	3	30	3	MAGEC2	23	141290679	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	23723880	141290679	13979881	392	49531										
GABRQ	55879	broad.mit.edu	37	chrX	151821077	151821077	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	gcaggcccccctggcaagccCggaaagcctcggttctttga	12	15	1	1			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:151821077C>A	uc004ffp.1	+	9	1252	c.1232C>A	c.(1231-1233)CCG>CAG	p.P411Q		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	411						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CTGGCAAGCCCGGAAAGCCTC	0.617													23	24	---	---	---	---	PASS	A	151821077	A	A	151821077	3	1	138	1	0	0	0	0	1	0	0	0	6175	652	23	1	1266	1	GABRQ	23	151821077	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	10530398	151821077	3449483	393	49532										
NAA10	8260	broad.mit.edu	37	chrX	153195481	153195481	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0595854922279793	23	0.181705278277313	1.27186311787072	1.5609229173868	1.1365585308632	0.320691739653879	0.746332413021294	0	ctctgagctgtccttgacatCtgtgctctctgtggtctcgc	10	13	4	2			TCGA-63-6202-01A-11D-1817-08	TCGA-63-6202-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a3c568a6-0c43-47a7-a35a-3225fedeeb44	fd9f3633-3955-4760-8e4f-6fbed792b860	g.chrX:153195481C>G	uc004fjm.1	-	8	778	c.667G>C	c.(667-669)GAT>CAT	p.D223H	NAA10_uc004fjn.1_Missense_Mutation_p.D208H	NM_003491	NP_003482	P41227	NAA10_HUMAN	alpha-N-acetyltransferase 1A	223					DNA packaging|internal protein amino acid acetylation|N-terminal protein amino acid acetylation	cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity|protein binding			ovary(1)	1						TCCTTGACATCTGTGCTCTCT	0.617													7	33	---	---	---	---	PASS	G	153195481	G	G	153195481	3	3	138	1	0	0	0	0	1	0	0	0	10116	913	32	2	44	2	NAA10	23	153195481	Missense_Mutation	SNP	C	TCGA-63-6202-01A-11D-1817-08	1374404	153195481	2075079	394	49533										
KAZ	23254	broad.mit.edu	37	chr1	15428077	15428077	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gctggaccatcactgggtggCcaaggcctggctgaatgaca	14	11	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:15428077C>A	uc001avm.3	+	11	1867	c.1586C>A	c.(1585-1587)GCC>GAC	p.A529D	KAZ_uc001avs.3_5'UTR	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	529	SAM 2.				keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						CACTGGGTGGCCAAGGCCTGG	0.592													3	4	---	---	---	---	PASS	A	15428077	A	A	15428077	3	1	139	1	0	0	0	0	1	0	0	0	7988	739	26	3	1884	3	KAZ	1	15428077	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08		15428077	233822544	1	49534										
EPHB2	2048	broad.mit.edu	37	chr1	23110939	23110939	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	acacgatccgcacgtaccagGtgtgcaacgtgtttgagtca	11	11	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:23110939G>C	uc009vqj.1	+	3	326	c.181G>C	c.(181-183)GTG>CTG	p.V61L	EPHB2_uc001bge.2_Missense_Mutation_p.V61L|EPHB2_uc001bgf.2_Missense_Mutation_p.V61L|EPHB2_uc010odu.1_Missense_Mutation_p.V61L	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	61	Extracellular (Potential).				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		CACGTACCAGGTGTGCAACGT	0.567									Hereditary_Prostate_Cancer				15	34	---	---	---	---	PASS	C	23110939	C	C	23110939	3	2	139	1	0	0	0	0	1	0	0	0	5175	1261	44	4	191	4	EPHB2	1	23110939	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	7682862	23110939	226139682	2	49535										
RAB42	115273	broad.mit.edu	37	chr1	28920446	28920446	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggcatggccttcgtggagacCtcggttaaaaacaactgcaa	11	10	0	1	rs148146932	byFrequency	TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:28920446C>T	uc001bqu.2	+	2	441	c.135C>T	c.(133-135)ACC>ACT	p.T45T	RAB42_uc001bqv.2_Silent_p.T45T	NM_152304	NP_689517	Q8N4Z0	RAB42_HUMAN	RAB42, member RAS oncogene family	45					small GTPase mediated signal transduction	membrane	GTP binding				0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00618)|all_lung(284;0.00909)|Breast(348;0.0249)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0577)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)		Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|STAD - Stomach adenocarcinoma(196;0.00298)|KIRC - Kidney renal clear cell carcinoma(1967;0.00948)|BRCA - Breast invasive adenocarcinoma(304;0.0213)|READ - Rectum adenocarcinoma(331;0.0649)		TCGTGGAGACCTCGGTTAAAA	0.602													9	21	---	---	---	---	PASS	T	28920446	T	T	28920446	2	4	139	1	0	0	0	0	0	0	0	1	12944	668	24	3		3	RAB42	1	28920446	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	5809507	28920446	220330175	3	49536										
EPB41	2035	broad.mit.edu	37	chr1	29385131	29385131	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cccacatcgaggtgacagtaCccacctcaaatggtgaccaa	8	14	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:29385131C>G	uc001brm.1	+	12	1883	c.1876C>G	c.(1876-1878)CCC>GCC	p.P626A	EPB41_uc001brg.1_Missense_Mutation_p.P417A|EPB41_uc001brh.1_Intron|EPB41_uc001bri.1_Intron|EPB41_uc001brj.1_Intron|EPB41_uc001brk.2_Missense_Mutation_p.P626A|EPB41_uc001brl.1_Intron|EPB41_uc009vtl.1_Intron|EPB41_uc009vtm.1_Intron	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1	626	Spectrin--actin-binding.				blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)		GGTGACAGTACCCACCTCAAA	0.403													3	29	---	---	---	---	PASS	G	29385131	G	G	29385131	3	3	139	1	0	0	0	0	1	0	0	0	5151	507	18	4	1922	4	EPB41	1	29385131	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	464685	29385131	219865490	4	49537										
MTF1	4520	broad.mit.edu	37	chr1	38288049	38288049	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ccgctgctgatgcagaagccCcagcaacaacagaaagtcct	9	14	0	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:38288049C>T	uc001cce.1	-	9	1652	c.1511G>A	c.(1510-1512)GGG>GAG	p.G504E	MTF1_uc009vvj.1_Missense_Mutation_p.G195E	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	504						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TGCAGAAGCCCCAGCAACAAC	0.587													6	10	---	---	---	---	PASS	T	38288049	T	T	38288049	3	4	139	1	0	0	0	0	1	0	0	0	9922	623	22	3	762	3	MTF1	1	38288049	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	8902918	38288049	210962572	5	49538										
ZFYVE9	9372	broad.mit.edu	37	chr1	52703869	52703869	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agagacccctccatgtctgcGattacaagtttaacggttga	9	10	1	2	rs149478229		TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:52703869G>A	uc001cto.2	+	4	952	c.780G>A	c.(778-780)GCG>GCA	p.A260A	ZFYVE9_uc001ctn.2_Silent_p.A260A|ZFYVE9_uc001ctp.2_Silent_p.A260A	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	260					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						CCATGTCTGCGATTACAAGTT	0.438													25	181	---	---	---	---	PASS	A	52703869	A	A	52703869	2	1	139	1	0	0	0	0	0	0	0	1	17668	1045	37	2		2	ZFYVE9	1	52703869	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	14415820	52703869	196546752	6	49539										
LEPROT	54741	broad.mit.edu	37	chr1	65897531	65897531	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgttggcaggcaatgcagtcAttttccttacaattcaaggg	10	8	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:65897531A>G	uc001dcf.2	+	4	414	c.325A>G	c.(325-327)ATT>GTT	p.I109V	LEPR_uc001dcg.2_Intron|LEPR_uc001dch.2_Intron|LEPR_uc001dci.2_Intron|LEPR_uc009waq.2_Intron|LEPROT_uc009wap.2_Missense_Mutation_p.I118V	NM_017526	NP_059996	O15243	OBRG_HUMAN	leptin receptor gene-related protein	109	Helical; (Potential).					endosome membrane|Golgi membrane|integral to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		CAATGCAGTCATTTTCCTTAC	0.393													12	25	---	---	---	---	PASS	G	65897531	G	G	65897531	3	3	139	1	0	0	0	0	1	0	0	0	8732	217	8	5	339	5	LEPROT	1	65897531	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	13193662	65897531	183353090	7	49540										
LEPR	3953	broad.mit.edu	37	chr1	66102457	66102457	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tttaggggtcacctcaatcaAaaagagagagagtggtgtgc	13	6	3	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:66102457A>G	uc001dci.2	+	20	3459	c.3257A>G	c.(3256-3258)AAA>AGA	p.K1086R	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	1086	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)		ACCTCAATCAAAAAGAGAGAG	0.413													8	24	---	---	---	---	PASS	G	66102457	G	G	66102457	3	3	139	1	0	0	0	0	1	0	0	0	8728	14	1	5	3557	5	LEPR	1	66102457	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	204926	66102457	183148164	8	49541										
RPAP2	79871	broad.mit.edu	37	chr1	92798948	92798948	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgtttaaaaatgtgattcagCatgattccacctttccactg	6	9	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:92798948C>T	uc001dot.2	+	9	1565	c.1456C>T	c.(1456-1458)CAT>TAT	p.H486Y	RPAP2_uc009wdh.2_RNA	NM_024813	NP_079089	Q8IXW5	RPAP2_HUMAN	RNA polymerase II associated protein 2	486						integral to membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		all_lung(203;0.0565)|Lung NSC(277;0.152)|Glioma(108;0.222)		all cancers(265;0.00647)|GBM - Glioblastoma multiforme(16;0.0234)|Epithelial(280;0.115)		TGTGATTCAGCATGATTCCAC	0.318													9	13	---	---	---	---	PASS	T	92798948	T	T	92798948	3	4	139	1	0	0	0	0	1	0	0	0	13542	724	25	3	1490	3	RPAP2	1	92798948	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	26696491	92798948	156451673	9	49542										
OTUD7B	56957	broad.mit.edu	37	chr1	149916922	149916922	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aggagtggaccggggctcatCtccagctgaggcggtggggg	20	9	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:149916922C>G	uc001etn.2	-	12	1722	c.1366G>C	c.(1366-1368)GAT>CAT	p.D456H		NM_020205	NP_064590	Q6GQQ9	OTU7B_HUMAN	zinc finger protein Cezanne	456					negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)			CGGGGCTCATCTCCAGCTGAG	0.612													17	20	---	---	---	---	PASS	G	149916922	G	G	149916922	3	3	139	1	0	0	0	0	1	0	0	0	11319	913	32	2	1169	2	OTUD7B	1	149916922	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	57117974	149916922	99333699	10	49543										
OR10X1	128367	broad.mit.edu	37	chr1	158548923	158548923	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cggtgaggtgggaggcacagGtggtgaaggccttctgcttg	19	7	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:158548923G>C	uc010pin.1	-	1	767	c.767C>G	c.(766-768)ACC>AGC	p.T256S		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	256	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GGAGGCACAGGTGGTGAAGGC	0.483													25	100	---	---	---	---	PASS	C	158548923	C	C	158548923	3	2	139	1	0	0	0	0	1	0	0	0	10922	1261	44	4	208	4	OR10X1	1	158548923	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	8632001	158548923	90701698	11	49544										
OR6N1	128372	broad.mit.edu	37	chr1	158735980	158735980	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggggccacagaatgggaggcGtgaaatcaaggaaatttcaa	14	6	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:158735980G>A	uc010piq.1	-	1	493	c.493C>T	c.(493-495)CGC>TGC	p.R165C		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AATGGGAGGCGTGAAATCAAG	0.502													23	67	---	---	---	---	PASS	A	158735980	A	A	158735980	3	1	139	1	0	0	0	0	1	0	0	0	11206	1145	40	1	448	1	OR6N1	1	158735980	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	187057	158735980	90514641	12	49545										
RASAL2	9462	broad.mit.edu	37	chr1	178063816	178063816	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtgtgccagcaacagagctgGgtccgggtgtacggtaagga	17	8	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:178063816G>T	uc001glq.2	+	1	953	c.189G>T	c.(187-189)TGG>TGT	p.W63C	RASAL2_uc009wxb.2_Missense_Mutation_p.W63C|LOC100302401_uc001gln.1_5'Flank|LOC100302401_uc001glo.1_5'Flank|RASAL2_uc009wxa.2_RNA	NM_170692	NP_733793	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 2	Error:Variant_position_missing_in_Q9UJF2_after_alignment					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						AACAGAGCTGGGTCCGGGTGT	0.582													15	23	---	---	---	---	PASS	T	178063816	T	T	178063816	3	4	139	1	0	0	0	0	1	0	0	0	13064	1241	43	3	191	3	RASAL2	1	178063816	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	19327836	178063816	71186805	13	49546										
IVNS1ABP	10625	broad.mit.edu	37	chr1	185277948	185277948	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctacctgctttactcgatccAtcttcagcttttttgctgca	5	13	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:185277948A>G	uc001grl.2	-	5	964	c.341T>C	c.(340-342)ATG>ACG	p.M114T	IVNS1ABP_uc001grj.2_5'Flank|IVNS1ABP_uc009wyj.2_5'UTR|IVNS1ABP_uc009wyk.2_RNA	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	114					interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						TACTCGATCCATCTTCAGCTT	0.303													25	39	---	---	---	---	PASS	G	185277948	G	G	185277948	3	3	139	1	0	0	0	0	1	0	0	0	7930	217	8	5	1631	5	IVNS1ABP	1	185277948	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	7214132	185277948	63972673	14	49547										
CFH	3075	broad.mit.edu	37	chr1	196684863	196684863	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ccactggttccatagtgtgtGgttacaatggttggtctgat	12	7	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:196684863G>A	uc001gtj.3	+	11	1900	c.1660G>A	c.(1660-1662)GGT>AGT	p.G554S		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	554	Sushi 9.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						CATAGTGTGTGGTTACAATGG	0.279													8	61	---	---	---	---	PASS	A	196684863	A	A	196684863	3	1	139	1	0	0	0	0	1	0	0	0	3283	1348	47	3	1720	3	CFH	1	196684863	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	11406915	196684863	52565758	15	49548										
CFHR5	81494	broad.mit.edu	37	chr1	196965332	196965332	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agagcttcctatgtgtgttgGtgagaaaacattcctaaact	9	7	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:196965332G>C	uc001gts.3	+	6	1098	c.970_splice	c.e6+1	p.A324_splice		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor						complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						ATGTGTGTTGGTGAGAAAACA	0.224													5	31	---	---	---	---	PASS	C	196965332	C	C	196965332	5	2	139	1	0	0	0	0	0	0	1	0	3288	1275	44	4	993	4	CFHR5	1	196965332	Splice_Site	SNP	G	TCGA-66-2727-01A-01D-0983-08	280469	196965332	52285289	16	49549										
ELK4	2005	broad.mit.edu	37	chr1	205589867	205589867	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtttaaactttcacagtcacCctcaatcctgcccactgtca	4	15	4	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:205589867C>A	uc001hcy.1	-	3	1557	c.307G>T	c.(307-309)GGT>TGT	p.G103C	ELK4_uc001hcz.2_Missense_Mutation_p.G103C	NM_001973	NP_001964	P28324	ELK4_HUMAN	ELK4 protein isoform a	103						cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity				0	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0908)			TCACAGTCACCCTCAATCCTG	0.428			T	SLC45A3	prostate								16	40	---	---	---	---	PASS	A	205589867	A	A	205589867	3	1	139	1	0	0	0	0	1	0	0	0	5061	623	22	3	1138	3	ELK4	1	205589867	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	8624535	205589867	43660754	17	49550										
CDC42BPA	8476	broad.mit.edu	37	chr1	227381487	227381487	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	acaatgaaggactgttttacCtgtgtacataatgtagctga	9	6	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:227381487C>A	uc001hqr.2	-	5	1542	c.599G>T	c.(598-600)AGA>ATA	p.R200I	CDC42BPA_uc001hqs.2_Missense_Mutation_p.R200I|CDC42BPA_uc009xes.2_Missense_Mutation_p.R200I|CDC42BPA_uc010pvs.1_Missense_Mutation_p.R200I	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	200	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				ACTGTTTTACCTGTGTACATA	0.378													17	33	---	---	---	---	PASS	A	227381487	A	A	227381487	3	1	139	1	0	0	0	0	1	0	0	0	3072	695	24	3	4688	3	CDC42BPA	1	227381487	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	21791620	227381487	21869134	18	49551										
TOMM20	9804	broad.mit.edu	37	chr1	235291986	235291986	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	atgcagtacccaatgaaaagGgccccgcatacaccggcggc	11	14	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:235291986G>A	uc001hwl.2	-	1	271	c.45C>T	c.(43-45)GCC>GCT	p.A15A	SNORA14B_uc001hwm.1_5'Flank	NM_014765	NP_055580	Q15388	TOM20_HUMAN	translocase of outer mitochondrial membrane 20	15	Helical; (Potential).				protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane translocase complex	P-P-bond-hydrolysis-driven protein transmembrane transporter activity|unfolded protein binding				0	Ovarian(103;0.0398)	all_cancers(173;0.177)|Prostate(94;0.0166)	OV - Ovarian serous cystadenocarcinoma(106;6.33e-05)|Epithelial(3;8.26e-05)			CAATGAAAAGGGCCCCGCATA	0.607													35	76	---	---	---	---	PASS	A	235291986	A	A	235291986	2	1	139	1	0	0	0	0	0	0	0	1	16351	1219	43	3		3	TOMM20	1	235291986	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	7910499	235291986	13958635	19	49552										
EXO1	9156	broad.mit.edu	37	chr1	242035336	242035336	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aattttgtttttatttagcaGagctgtcagaagatgacctg	9	5	1	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:242035336G>T	uc001hzh.2	+	12	1810	c.1270G>T	c.(1270-1272)GAG>TAG	p.E424*	EXO1_uc001hzi.2_Nonsense_Mutation_p.E424*|EXO1_uc001hzj.2_Nonsense_Mutation_p.E424*|EXO1_uc009xgq.2_Splice_Site_p.E423_splice	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	424	Interaction with MLH1.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			TTATTTAGCAGAGCTGTCAGA	0.333								Direct_reversal_of_damage|Editing_and_processing_nucleases					13	21	---	---	---	---	PASS	T	242035336	T	T	242035336	4	4	139	1	0	0	0	0	0	1	0	0	5300	943	33	2	1304	2	EXO1	1	242035336	Nonsense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	6743350	242035336	7215285	20	49553										
OR6F1	343169	broad.mit.edu	37	chr1	247875736	247875736	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gaggaagtactctgtgcagcCtaatgagaaaacaaagtaca	10	7	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr1:247875736C>A	uc001idj.1	-	1	322	c.322G>T	c.(322-324)GGC>TGC	p.G108C		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TCTGTGCAGCCTAATGAGAAA	0.498													13	65	---	---	---	---	PASS	A	247875736	A	A	247875736	3	1	139	1	0	0	0	0	1	0	0	0	11201	681	24	3	608	3	OR6F1	1	247875736	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	5840400	247875736	1374885	21	49554										
MYT1L	23040	broad.mit.edu	37	chr2	1842979	1842979	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gccgtcgcatcctggcgtggGgcaggacatgccttccgtct	14	14	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:1842979G>T	uc002qxe.2	-	21	3849	c.3022C>A	c.(3022-3024)CCC>ACC	p.P1008T	MYT1L_uc002qxd.2_Missense_Mutation_p.P1006T|MYT1L_uc010ewk.2_Missense_Mutation_p.P4T	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	1008	C2HC-type 6.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CCTGGCGTGGGGCAGGACATG	0.672													7	13	---	---	---	---	PASS	T	1842979	T	T	1842979	3	4	139	1	0	0	0	0	1	0	0	0	10107	1232	43	3	558	3	MYT1L	2	1842979	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08		1842979	241356394	22	49555										
KIDINS220	57498	broad.mit.edu	37	chr2	8871217	8871217	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgcattcggaagggcttttcTtgtcttctgaacaaatggac	10	8	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:8871217T>C	uc002qzc.2	-	30	5131	c.4949A>G	c.(4948-4950)AAG>AGG	p.K1650R	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Missense_Mutation_p.K1551R|KIDINS220_uc002qzb.2_Missense_Mutation_p.K504R	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1650	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					AGGGCTTTTCTTGTCTTCTGA	0.522													16	39	---	---	---	---	PASS	C	8871217	C	C	8871217	3	2	139	1	0	0	0	0	1	0	0	0	8271	1609	56	5	370	5	KIDINS220	2	8871217	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	7028238	8871217	234328156	23	49556										
ASXL2	55252	broad.mit.edu	37	chr2	25965124	25965124	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggatggtagtgacagtcactGaaaatgacatgacatcacct	10	8	2	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:25965124G>A	uc002rgs.2	-	12	4303	c.4082C>T	c.(4081-4083)TCA>TTA	p.S1361L	ASXL2_uc002rgt.1_Missense_Mutation_p.S844L	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1361					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GACAGTCACTGAAAATGACAT	0.493													22	44	---	---	---	---	PASS	A	25965124	A	A	25965124	3	1	139	1	0	0	0	0	1	0	0	0	1067	1294	45	2	229	2	ASXL2	2	25965124	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	17093907	25965124	217234249	24	49557										
ZNF513	130557	broad.mit.edu	37	chr2	27603054	27603054	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aactccagatcctggcctagTagcaaatcactctccaatac	5	14	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:27603054T>C	uc002rkk.2	-	2	317	c.117A>G	c.(115-117)CTA>CTG	p.L39L	ZNF513_uc002rkj.2_5'UTR	NM_144631	NP_653232	Q8N8E2	ZN513_HUMAN	zinc finger protein 513	39					regulation of transcription, DNA-dependent|response to stimulus|retina development in camera-type eye|transcription, DNA-dependent|visual perception	nucleus	transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCTGGCCTAGTAGCAAATCAC	0.572													49	103	---	---	---	---	PASS	C	27603054	C	C	27603054	2	2	139	1	0	0	0	0	0	0	0	1	17955	1625	57	5		5	ZNF513	2	27603054	Silent	SNP	T	TCGA-66-2727-01A-01D-0983-08	1637930	27603054	215596319	25	49558										
ABCG8	64241	broad.mit.edu	37	chr2	44104801	44104801	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ataaaatgcctctcgggaacCtcaccatcgcggtctcagga	9	13	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:44104801C>A	uc002rtq.2	+	12	1948	c.1858C>A	c.(1858-1860)CTC>ATC	p.L620I	ABCG8_uc010yoa.1_Missense_Mutation_p.L619I	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	620	ABC transmembrane type-2.|Extracellular (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TCTCGGGAACCTCACCATCGC	0.517											OREG0014582	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	44	---	---	---	---	PASS	A	44104801	A	A	44104801	3	1	139	1	0	0	0	0	1	0	0	0	72	681	24	3	1904	3	ABCG8	2	44104801	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	16501747	44104801	199094572	26	49559										
TET3	200424	broad.mit.edu	37	chr2	74300734	74300734	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cacttgggatctggccccacGgtcgcctctatccgggaact	11	15	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:74300734G>T	uc002skb.3	+	2	2148	c.2148G>T	c.(2146-2148)ACG>ACT	p.T716T	TET3_uc010fez.1_Silent_p.T716T	NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	716							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CTGGCCCCACGGTCGCCTCTA	0.438													5	10	---	---	---	---	PASS	T	74300734	T	T	74300734	2	4	139	1	0	0	0	0	0	0	0	1	15768	1103	39	1		1	TET3	2	74300734	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	30195933	74300734	168898639	27	49560										
DNAH6	1768	broad.mit.edu	37	chr2	84785056	84785056	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cacacaattatttctcaaatAaaggtatgtttactctgact	4	8	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:84785056A>T	uc010fgb.2	+	11	1937	c.1800A>T	c.(1798-1800)ATA>ATT	p.I600I	DNAH6_uc002soo.2_Silent_p.I179I|DNAH6_uc002sop.2_Silent_p.I179I	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	600	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1						TTTCTCAAATAAAGGTATGTT	0.259													11	27	---	---	---	---	PASS	T	84785056	T	T	84785056	2	4	139	1	0	0	0	0	0	0	0	1	4605	352	13	5		5	DNAH6	2	84785056	Silent	SNP	A	TCGA-66-2727-01A-01D-0983-08	10484322	84785056	158414317	28	49561										
CNTNAP5	129684	broad.mit.edu	37	chr2	125521621	125521621	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cactttcctaccttccatgcGgaattcagtgccgatatttc	6	13	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:125521621G>T	uc002tno.2	+	16	2791	c.2427G>T	c.(2425-2427)GCG>GCT	p.A809A	CNTNAP5_uc010flu.2_Silent_p.A810A	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	809	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		CCTTCCATGCGGAATTCAGTG	0.398													21	45	---	---	---	---	PASS	T	125521621	T	T	125521621	2	4	139	1	0	0	0	0	0	0	0	1	3650	1103	39	1		1	CNTNAP5	2	125521621	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	40736565	125521621	117677752	29	49562										
MBD5	55777	broad.mit.edu	37	chr2	149247363	149247363	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	acatgggaggtgttgatcatGatggtaggctgaggaattca	15	4	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:149247363G>T	uc002twm.3	+	12	4451	c.3463G>T	c.(3463-3465)GAT>TAT	p.D1155Y	MBD5_uc010zbs.1_Intron|MBD5_uc010fns.2_Missense_Mutation_p.D1155Y|MBD5_uc002two.2_Missense_Mutation_p.D413Y|MBD5_uc002twp.2_Missense_Mutation_p.D205Y	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1155						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		TGTTGATCATGATGGTAGGCT	0.488													15	41	---	---	---	---	PASS	T	149247363	T	T	149247363	3	4	139	1	0	0	0	0	1	0	0	0	9347	1290	45	2	3489	2	MBD5	2	149247363	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	23725742	149247363	93952010	30	49563										
STAM2	10254	broad.mit.edu	37	chr2	152977290	152977290	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agttctggttcatataagtaGgattggaaacagtgtcttgt	11	4	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:152977290G>T	uc002tyc.3	-	14	1726	c.1376C>A	c.(1375-1377)CCT>CAT	p.P459H		NM_005843	NP_005834	O75886	STAM2_HUMAN	signal transducing adaptor molecule 2	459					cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.22)		CATATAAGTAGGATTGGAAAC	0.358													5	57	---	---	---	---	PASS	T	152977290	T	T	152977290	3	4	139	1	0	0	0	0	1	0	0	0	15248	1000	35	3	205	3	STAM2	2	152977290	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	3729927	152977290	90222083	31	49564										
NR4A2	4929	broad.mit.edu	37	chr2	157182348	157182348	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtagaaaatgcgctgtagccCctgtgtgcaaagggtacgaa	13	8	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:157182348C>A	uc002tyz.3	-	8	2127	c.1705G>T	c.(1705-1707)GGG>TGG	p.G569W	NR4A2_uc002tyx.3_Missense_Mutation_p.G506W|NR4A2_uc010zcf.1_Missense_Mutation_p.G569W	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	569					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						CGCTGTAGCCCCTGTGTGCAA	0.478													17	48	---	---	---	---	PASS	A	157182348	A	A	157182348	3	1	139	1	0	0	0	0	1	0	0	0	10633	623	22	3	95	3	NR4A2	2	157182348	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	4205058	157182348	86017025	32	49565										
SCN1A	6323	broad.mit.edu	37	chr2	166897952	166897952	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aaaatttataccaacagggtGggcatttctgcctggattct	9	8	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:166897952G>A	uc010zcz.1	-	13	2189	c.2171C>T	c.(2170-2172)CCA>CTA	p.P724L	SCN1A_uc002udo.3_Missense_Mutation_p.P604L|SCN1A_uc010fpk.2_Missense_Mutation_p.P576L	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	735						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CCAACAGGGTGGGCATTTCTG	0.348													17	47	---	---	---	---	PASS	A	166897952	A	A	166897952	3	1	139	1	0	0	0	0	1	0	0	0	13914	1348	47	3	3881	3	SCN1A	2	166897952	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	9715604	166897952	76301421	33	49566										
XIRP2	129446	broad.mit.edu	37	chr2	167760268	167760268	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aacaccagggaatatggtcgGccagaagtgctgaaggagga	15	7	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:167760268G>T	uc002udx.2	+	1	294	c.276G>T	c.(274-276)CGG>CGT	p.R92R	XIRP2_uc010fpn.2_Silent_p.R92R|XIRP2_uc010fpo.2_Silent_p.R92R|XIRP2_uc010fpp.2_Silent_p.R92R	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	Error:Variant_position_missing_in_A4UGR9_after_alignment					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AATATGGTCGGCCAGAAGTGC	0.522													20	28	---	---	---	---	PASS	T	167760268	T	T	167760268	2	4	139	1	0	0	0	0	0	0	0	1	17427	1190	42	3		3	XIRP2	2	167760268	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	862316	167760268	75439105	34	49567										
XIRP2	129446	broad.mit.edu	37	chr2	168103133	168103133	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctctgagagaggaaatgttcAgtttttcacaacctgcatag	9	8	3	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:168103133A>T	uc002udx.2	+	8	5249	c.5231A>T	c.(5230-5232)CAG>CTG	p.Q1744L	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.Q1569L|XIRP2_uc010fpq.2_Missense_Mutation_p.Q1522L|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1569					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GGAAATGTTCAGTTTTTCACA	0.378													17	21	---	---	---	---	PASS	T	168103133	T	T	168103133	3	4	139	1	0	0	0	0	1	0	0	0	17427	188	7	5	5261	5	XIRP2	2	168103133	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	342865	168103133	75096240	35	49568										
XIRP2	129446	broad.mit.edu	37	chr2	168106057	168106057	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ccatcaaacttccaactctaGatcatacattaaatgaaaca	2	11	3	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:168106057G>C	uc002udx.2	+	8	8173	c.8155G>C	c.(8155-8157)GAT>CAT	p.D2719H	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.D2544H|XIRP2_uc010fpq.2_Missense_Mutation_p.D2497H|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.D65H	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2544					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TCCAACTCTAGATCATACATT	0.348													17	83	---	---	---	---	PASS	C	168106057	C	C	168106057	3	2	139	1	0	0	0	0	1	0	0	0	17427	942	33	2	8185	2	XIRP2	2	168106057	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	2924	168106057	75093316	36	49569										
LRP2	4036	broad.mit.edu	37	chr2	170042267	170042267	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctaaaaatgagatagggttcGatgttactgttttgccggca	11	6	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:170042267G>A	uc002ues.2	-	50	9804	c.9591C>T	c.(9589-9591)ATC>ATT	p.I3197I		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3197	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GATAGGGTTCGATGTTACTGT	0.438													36	116	---	---	---	---	PASS	A	170042267	A	A	170042267	2	1	139	1	0	0	0	0	0	0	0	1	8956	1048	37	2		2	LRP2	2	170042267	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	1936210	170042267	73157106	37	49570										
TTN	7273	broad.mit.edu	37	chr2	179636118	179636118	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ccattcgcctttggaatctgGgttggcaacttcacattcaa	8	11	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:179636118G>A	uc010zfg.1	-	34	8160	c.7936C>T	c.(7936-7938)CCA>TCA	p.P2646S	TTN_uc010zfh.1_Missense_Mutation_p.P2600S|TTN_uc010zfi.1_Missense_Mutation_p.P2600S|TTN_uc010zfj.1_Missense_Mutation_p.P2600S|TTN_uc002unb.2_Missense_Mutation_p.P2646S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2646							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)			TTGGAATCTGGGTTGGCAACT	0.483													15	28	---	---	---	---	PASS	A	179636118	A	A	179636118	3	1	139	1	0	0	0	0	1	0	0	0	16732	1232	43	3	103368	3	TTN	2	179636118	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	9593851	179636118	63563255	38	49571										
NDUFS1	4719	broad.mit.edu	37	chr2	207008770	207008770	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctacgcgagagagcgcatccTcccaagaagtataggttaaa	10	10	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:207008770T>A	uc002vbe.2	-	10	1086	c.959A>T	c.(958-960)GAG>GTG	p.E320V	NDUFS1_uc010ziq.1_Missense_Mutation_p.E334V|NDUFS1_uc010zir.1_Missense_Mutation_p.E284V|NDUFS1_uc010zis.1_Missense_Mutation_p.E263V|NDUFS1_uc010zit.1_Missense_Mutation_p.E209V|NDUFS1_uc010ziu.1_Missense_Mutation_p.E204V	NM_005006	NP_004997	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1,	320					apoptosis|ATP metabolic process|mitochondrial electron transport, NADH to ubiquinone|reactive oxygen species metabolic process|regulation of mitochondrial membrane potential|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	GAGCGCATCCTCCCAAGAAGT	0.393													25	23	---	---	---	---	PASS	A	207008770	A	A	207008770	3	1	139	1	0	0	0	0	1	0	0	0	10291	1551	54	5	1264	5	NDUFS1	2	207008770	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	27372652	207008770	36190603	39	49572										
IQCA1	79781	broad.mit.edu	37	chr2	237300976	237300976	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agagaaattccaagactcatCttttttcatccagatttcta	4	9	4	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:237300976C>A	uc002vvz.1	-	10	1410	c.1228G>T	c.(1228-1230)GAT>TAT	p.D410Y	IQCA1_uc002vwb.2_Missense_Mutation_p.D417Y|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Missense_Mutation_p.D369Y	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	410	Lys-rich.						ATP binding			ovary(1)	1						CAAGACTCATCTTTTTTCATC	0.333													3	6	---	---	---	---	PASS	A	237300976	A	A	237300976	3	1	139	1	0	0	0	0	1	0	0	0	7802	913	32	2	1280	2	IQCA1	2	237300976	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	30292206	237300976	5898397	40	49573										
C2orf85	285093	broad.mit.edu	37	chr2	242814655	242814655	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tccctcaacaatggcctcgtCcctgtggggaaacacacgcc	9	16	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr2:242814655C>G	uc010fzu.1	+	2	971	c.948C>G	c.(946-948)GTC>GTG	p.V316V		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	316						integral to membrane				ovary(1)	1						ATGGCCTCGTCCCTGTGGGGA	0.657													7	12	---	---	---	---	PASS	G	242814655	G	G	242814655	2	3	139	1	0	0	0	0	0	0	0	1	2200	842	30	2		2	C2orf85	2	242814655	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	5513679	242814655	384718	41	49574										
CACNA2D2	9254	broad.mit.edu	37	chr3	50402790	50402790	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cgccccactgccagcacctgGagcagtttccgcagtcgatg	11	16	0	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:50402790G>A	uc003daq.2	-	36	3154	c.3116C>T	c.(3115-3117)TCC>TTC	p.S1039F	CACNA2D2_uc003dap.2_Missense_Mutation_p.S1032F|CACNA2D2_uc003dao.2_Silent_p.L77L	NM_006030	NP_006021	Q9NY47	CA2D2_HUMAN	calcium channel, voltage-dependent, alpha	1039	Extracellular (Potential).				energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000365)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)	Gabapentin(DB00996)	CCAGCACCTGGAGCAGTTTCC	0.562													9	9	---	---	---	---	PASS	A	50402790	A	A	50402790	3	1	139	1	0	0	0	0	1	0	0	0	2549	1174	41	2	358	2	CACNA2D2	3	50402790	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08		50402790	147619640	42	49575										
CADPS	8618	broad.mit.edu	37	chr3	62522231	62522231	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gaagagataaattcatccatGccatgtttttgagctctatc	7	8	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:62522231G>A	uc003dll.2	-	12	2352	c.1992C>T	c.(1990-1992)GGC>GGT	p.G664G	CADPS_uc003dlk.1_Silent_p.G168G|CADPS_uc003dlm.2_Silent_p.G664G|CADPS_uc003dln.2_Silent_p.G664G	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	664					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		ATTCATCCATGCCATGTTTTT	0.383													21	33	---	---	---	---	PASS	A	62522231	A	A	62522231	2	1	139	1	0	0	0	0	0	0	0	1	2570	1306	46	3		3	CADPS	3	62522231	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	12119441	62522231	135500199	43	49576										
ABI3BP	25890	broad.mit.edu	37	chr3	100594368	100594368	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tcacctagtatcactcctccCagtggagctttttctgggga	9	12	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:100594368C>G	uc003dun.2	-	8	907	c.822G>C	c.(820-822)CTG>CTC	p.L274L	ABI3BP_uc003duo.2_Silent_p.L267L|ABI3BP_uc003dup.3_Silent_p.L267L	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	274						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						TCACTCCTCCCAGTGGAGCTT	0.438													12	62	---	---	---	---	PASS	G	100594368	G	G	100594368	2	3	139	1	0	0	0	0	0	0	0	1	91	581	21	4		4	ABI3BP	3	100594368	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	38072137	100594368	97428062	44	49577										
MYH15	22989	broad.mit.edu	37	chr3	108211976	108211976	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cttacagatatcaatgtccaCagatgacagcatgcctctgg	8	11	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:108211976C>G	uc003dxa.1	-	9	877	c.820G>C	c.(820-822)GTG>CTG	p.V274L		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	274	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TCAATGTCCACAGATGACAGC	0.318													4	60	---	---	---	---	PASS	G	108211976	G	G	108211976	3	3	139	1	0	0	0	0	1	0	0	0	10034	478	17	4	5156	4	MYH15	3	108211976	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	7617608	108211976	89810454	45	49578										
MORC1	27136	broad.mit.edu	37	chr3	108724127	108724127	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gattcatgcttcaagtcatcGcccaaaagcctgattttctg	7	11	4	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:108724127G>A	uc003dxl.2	-	19	1890	c.1803C>T	c.(1801-1803)GGC>GGT	p.G601G	MORC1_uc011bhn.1_Silent_p.G580G	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	601					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						TCAAGTCATCGCCCAAAAGCC	0.353													7	56	---	---	---	---	PASS	A	108724127	A	A	108724127	2	1	139	1	0	0	0	0	0	0	0	1	9701	1074	38	1		1	MORC1	3	108724127	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	512151	108724127	89298303	46	49579										
RABL3	285282	broad.mit.edu	37	chr3	120408716	120408716	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttcctgccccaaatcttttcCgatcaggaaagcctggaatc	7	13	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:120408716C>T	uc003edx.2	-	8	695	c.665G>A	c.(664-666)CGG>CAG	p.R222Q		NM_173825	NP_776186	Q5HYI8	RABL3_HUMAN	RAB, member of RAS oncogene family-like 3	222	Small GTPase-like.				small GTPase mediated signal transduction		GTP binding				0				GBM - Glioblastoma multiforme(114;0.151)		AAATCTTTTCCGATCAGGAAA	0.378													11	100	---	---	---	---	PASS	T	120408716	T	T	120408716	3	4	139	1	0	0	0	0	1	0	0	0	12972	652	23	1	49	1	RABL3	3	120408716	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	11684589	120408716	77613714	47	49580										
EEFSEC	60678	broad.mit.edu	37	chr3	127965812	127965812	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtgctgaacaaaatagacctCttacctgaaggaaagagaca	9	8	1	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:127965812C>G	uc003eki.2	+	2	488	c.450C>G	c.(448-450)CTC>CTG	p.L150L	EEFSEC_uc003ekj.2_Silent_p.L150L	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,	150	GTP (Potential).					cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						AAATAGACCTCTTACCTGAAG	0.483													86	253	---	---	---	---	PASS	G	127965812	G	G	127965812	2	3	139	1	0	0	0	0	0	0	0	1	4931	900	32	2		2	EEFSEC	3	127965812	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	7557096	127965812	70056618	48	49581										
AGTR1	185	broad.mit.edu	37	chr3	148459456	148459456	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgtttccttttctgatcattCttacaagttatactcttatt	3	8	4	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:148459456C>A	uc003ewg.2	+	4	1080	c.634C>A	c.(634-636)CTT>ATT	p.L212I	AGTR1_uc003ewh.2_Missense_Mutation_p.L212I|AGTR1_uc003ewi.2_Missense_Mutation_p.L212I|AGTR1_uc003ewj.2_Missense_Mutation_p.L212I|AGTR1_uc003ewk.2_Missense_Mutation_p.L212I	NM_031850	NP_114038	P30556	AGTR1_HUMAN	angiotensin II receptor, type 1	212	Helical; Name=5; (Potential).				calcium-mediated signaling|cell chemotaxis|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|kidney development|low-density lipoprotein particle remodeling|positive regulation of cellular protein metabolic process|positive regulation of cholesterol esterification|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of phospholipase A2 activity|positive regulation of reactive oxygen species metabolic process|regulation of cell growth|regulation of cell proliferation|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|Rho protein signal transduction		acetyltransferase activator activity|angiotensin type I receptor activity|angiotensin type II receptor activity|bradykinin receptor binding|protein heterodimerization activity				0			LUSC - Lung squamous cell carcinoma(72;0.127)|Lung(72;0.152)		Candesartan(DB00796)|Eprosartan(DB00876)|Forasartan(DB01342)|Irbesartan(DB01029)|Losartan(DB00678)|Olmesartan(DB00275)|Saprisartan(DB01347)|Spironolactone(DB00421)|Tasosartan(DB01349)|Telmisartan(DB00966)|Valsartan(DB00177)	TCTGATCATTCTTACAAGTTA	0.363													8	56	---	---	---	---	PASS	A	148459456	A	A	148459456	3	1	139	1	0	0	0	0	1	0	0	0	401	913	32	2	636	2	AGTR1	3	148459456	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	20493644	148459456	49562974	49	49582										
IGSF10	285313	broad.mit.edu	37	chr3	151164451	151164451	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agtagtaatagtggattctgGactagagttgtagactcttc	11	5	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:151164451G>T	uc011bod.1	-	4	3318	c.3318C>A	c.(3316-3318)GTC>GTA	p.V1106V		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1106					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GTGGATTCTGGACTAGAGTTG	0.443													31	184	---	---	---	---	PASS	T	151164451	T	T	151164451	2	4	139	1	0	0	0	0	0	0	0	1	7597	1161	41	2		2	IGSF10	3	151164451	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	2704995	151164451	46857979	50	49583										
GPR149	344758	broad.mit.edu	37	chr3	154055904	154055904	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttcatggccaacacttttggAtcgatagacttctattttct	6	9	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:154055904A>T	uc003faa.2	-	4	1880	c.1780T>A	c.(1780-1782)TCC>ACC	p.S594T		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	594	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			ACACTTTTGGATCGATAGACT	0.413													10	177	---	---	---	---	PASS	T	154055904	T	T	154055904	3	4	139	1	0	0	0	0	1	0	0	0	6654	333	12	5	419	5	GPR149	3	154055904	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	2891453	154055904	43966526	51	49584										
PLCH1	23007	broad.mit.edu	37	chr3	155203419	155203419	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tctccaatggatcgcttccgTacataatgggaattgttttc	8	9	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:155203419T>C	uc011bok.1	-	22	3001	c.2724A>G	c.(2722-2724)GTA>GTG	p.V908V	PLCH1_uc011boj.1_Silent_p.V908V|PLCH1_uc011bol.1_Silent_p.V870V	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	908					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			ATCGCTTCCGTACATAATGGG	0.463													38	23	---	---	---	---	PASS	C	155203419	C	C	155203419	2	2	139	1	0	0	0	0	0	0	0	1	12037	1625	57	5		5	PLCH1	3	155203419	Silent	SNP	T	TCGA-66-2727-01A-01D-0983-08	1147515	155203419	42819011	52	49585										
SI	6476	broad.mit.edu	37	chr3	164709160	164709160	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cctgtaaaatgtgttttgagCtggctcttgacatggtagga	12	6	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:164709160C>A	uc003fei.2	-	44	5151	c.5089G>T	c.(5089-5091)GCT>TCT	p.A1697S		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1697	Sucrase.|Lumenal.				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)	GTGTTTTGAGCTGGCTCTTGA	0.333										HNSCC(35;0.089)			18	77	---	---	---	---	PASS	A	164709160	A	A	164709160	3	1	139	1	0	0	0	0	1	0	0	0	14297	797	28	3	414	3	SI	3	164709160	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	9505741	164709160	33313270	53	49586										
PLD1	5337	broad.mit.edu	37	chr3	171320967	171320967	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aaggggaattgcaccaaaaaTccacggatcttcttcagttc	8	10	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:171320967T>C	uc003fhs.2	-	27	3242	c.3126A>G	c.(3124-3126)GGA>GGG	p.G1042G	PLD1_uc003fht.2_Silent_p.G1004G	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	1042					cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	GCACCAAAAATCCACGGATCT	0.433													18	63	---	---	---	---	PASS	C	171320967	C	C	171320967	2	2	139	1	0	0	0	0	0	0	0	1	12045	1422	50	5		5	PLD1	3	171320967	Silent	SNP	T	TCGA-66-2727-01A-01D-0983-08	6611807	171320967	26701463	54	49587										
NDUFB5	4711	broad.mit.edu	37	chr3	179322629	179322629	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggccatgagtttgttgcggcGggtttcggttactgcggtgg	18	7	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:179322629G>C	uc003fkc.2	+	1	55	c.26G>C	c.(25-27)CGG>CCG	p.R9P	MRPL47_uc003fjz.2_5'Flank|MRPL47_uc003fka.2_5'Flank|MRPL47_uc003fkb.2_5'Flank|NDUFB5_uc003fkd.2_RNA|NDUFB5_uc003fke.2_Missense_Mutation_p.R9P	NM_002492	NP_002483	O43674	NDUB5_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	9					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			skin(1)	1	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)		NADH(DB00157)	TTGTTGCGGCGGGTTTCGGTT	0.607													22	36	---	---	---	---	PASS	C	179322629	C	C	179322629	3	2	139	1	0	0	0	0	1	0	0	0	10284	1116	39	4	28	4	NDUFB5	3	179322629	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	8001662	179322629	18699801	55	49588										
IGF2BP2	10644	broad.mit.edu	37	chr3	185407290	185407290	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	caggggcgtggccttgctccCgggaagagtggtccccacgc	16	14	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:185407290C>T	uc003fpo.2	-	6	609	c.530G>A	c.(529-531)CGG>CAG	p.R177Q	IGF2BP2_uc010hyi.2_Missense_Mutation_p.R120Q|IGF2BP2_uc010hyj.2_Missense_Mutation_p.R114Q|IGF2BP2_uc010hyk.2_Missense_Mutation_p.R41Q|IGF2BP2_uc010hyl.2_Missense_Mutation_p.R114Q|IGF2BP2_uc003fpp.2_Missense_Mutation_p.R177Q|IGF2BP2_uc003fpq.2_Missense_Mutation_p.R182Q	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	177					anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			GCCTTGCTCCCGGGAAGAGTG	0.602													13	107	---	---	---	---	PASS	T	185407290	T	T	185407290	3	4	139	1	0	0	0	0	1	0	0	0	7574	652	23	1	1313	1	IGF2BP2	3	185407290	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	6084661	185407290	12615140	56	49589										
ATP13A3	79572	broad.mit.edu	37	chr3	194167745	194167745	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gatttttttcagtcttctctGagcatacacaataccagcag	6	10	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:194167745G>C	uc003fty.3	-	13	1810	c.1408C>G	c.(1408-1410)CAG>GAG	p.Q470E	ATP13A3_uc003ftz.1_Missense_Mutation_p.Q176E	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	470					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		AGTCTTCTCTGAGCATACACA	0.403													7	108	---	---	---	---	PASS	C	194167745	C	C	194167745	3	2	139	1	0	0	0	0	1	0	0	0	1125	1299	45	2	2352	2	ATP13A3	3	194167745	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	8760455	194167745	3854685	57	49590										
BDH1	622	broad.mit.edu	37	chr3	197260416	197260416	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cgggataaaggaagtagaacCaagcaatagtgggcgtctgc	14	7	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr3:197260416C>A	uc003fxr.2	-	4	502	c.100G>T	c.(100-102)GGT>TGT	p.G34C	BDH1_uc003fxs.2_Missense_Mutation_p.G34C|BDH1_uc003fxt.2_5'UTR|BDH1_uc003fxu.2_Missense_Mutation_p.G34C	NM_203314	NP_976059	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1	34					cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			ovary(1)	1	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	GAAGTAGAACCAAGCAATAGT	0.572													6	145	---	---	---	---	PASS	A	197260416	A	A	197260416	3	1	139	1	0	0	0	0	1	0	0	0	1390	594	21	3	951	3	BDH1	3	197260416	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	3092671	197260416	762014	58	49591										
EVC2	132884	broad.mit.edu	37	chr4	5687126	5687126	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gctctgaaaggtgagttgggCaggaagcttgaggctctccc	15	9	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr4:5687126C>A	uc003gij.2	-	6	841	c.787G>T	c.(787-789)GCC>TCC	p.A263S	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Missense_Mutation_p.A183S	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	263						integral to membrane				large_intestine(3)|ovary(2)	5						GTGAGTTGGGCAGGAAGCTTG	0.527													73	52	---	---	---	---	PASS	A	5687126	A	A	5687126	3	1	139	1	0	0	0	0	1	0	0	0	5286	710	25	3	3207	3	EVC2	4	5687126	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08		5687126	185467150	59	49592										
BST1	683	broad.mit.edu	37	chr4	15716916	15716916	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttcttctcgtagtattccaaGgatagttctggggtgatcca	10	8	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr4:15716916G>T	uc003goh.3	+	5	738	c.543G>T	c.(541-543)AAG>AAT	p.K181N	BST1_uc003goi.2_Translation_Start_Site	NM_004334	NP_004325	Q10588	BST1_HUMAN	bone marrow stromal cell antigen 1 precursor	181					humoral immune response|multicellular organismal development	anchored to membrane|extrinsic to membrane|plasma membrane	binding|NAD+ nucleosidase activity			central_nervous_system(1)	1						AGTATTCCAAGGATAGTTCTG	0.323													4	27	---	---	---	---	PASS	T	15716916	T	T	15716916	3	4	139	1	0	0	0	0	1	0	0	0	1533	991	35	3	561	3	BST1	4	15716916	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	10029790	15716916	175437360	60	49593										
PCDH10	57575	broad.mit.edu	37	chr4	134072866	134072866	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tatcaactctgagaacggctActtgtacgccctgcgctcct	8	14	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr4:134072866A>G	uc003iha.2	+	1	2397	c.1571A>G	c.(1570-1572)TAC>TGC	p.Y524C	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.Y524C	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	524	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GAGAACGGCTACTTGTACGCC	0.587													9	39	---	---	---	---	PASS	G	134072866	G	G	134072866	3	3	139	1	0	0	0	0	1	0	0	0	11507	391	14	5	1573	5	PCDH10	4	134072866	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	118355950	134072866	57081410	61	49594										
TBC1D9	23158	broad.mit.edu	37	chr4	141600878	141600878	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctgcaagagtaatagttgacGagtttctcttcctctggcat	9	9	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr4:141600878G>C	uc010ioj.2	-	4	752	c.480C>G	c.(478-480)CTC>CTG	p.L160L		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	160	GRAM 1.					intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				AATAGTTGACGAGTTTCTCTT	0.418													6	26	---	---	---	---	PASS	C	141600878	C	C	141600878	2	2	139	1	0	0	0	0	0	0	0	1	15624	1045	37	2		2	TBC1D9	4	141600878	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	7528012	141600878	49553398	62	49595										
RNF150	57484	broad.mit.edu	37	chr4	141888789	141888789	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctactcacctggttcctatcCctggcatttgcatatcgaaa	6	13	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr4:141888789C>G	uc003iio.1	-	2	1377	c.723G>C	c.(721-723)AGG>AGC	p.R241S	RNF150_uc010iok.1_Intron|RNF150_uc003iip.1_Missense_Mutation_p.R241S	NM_020724	NP_065775	Q9ULK6	RN150_HUMAN	ring finger protein 150 precursor	241	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1	all_hematologic(180;0.162)					GGTTCCTATCCCTGGCATTTG	0.368													14	38	---	---	---	---	PASS	G	141888789	G	G	141888789	3	3	139	1	0	0	0	0	1	0	0	0	13451	622	22	4	617	4	RNF150	4	141888789	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	287911	141888789	49265487	63	49596										
HHIP	64399	broad.mit.edu	37	chr4	145655962	145655962	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctgacttcagagtgctccagGctctgtcgaaacggctactg	11	12	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr4:145655962G>T	uc003ijs.1	+	12	2485	c.1830G>T	c.(1828-1830)AGG>AGT	p.R610S		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	610	EGF-like 1.					cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		AGTGCTCCAGGCTCTGTCGAA	0.502													11	28	---	---	---	---	PASS	T	145655962	T	T	145655962	3	4	139	1	0	0	0	0	1	0	0	0	7092	1194	42	3	1876	3	HHIP	4	145655962	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	3767173	145655962	45498314	64	49597										
ABCE1	6059	broad.mit.edu	37	chr4	146026771	146026771	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	taccaggaaaattatgcataGaggttacaccccagagcaaa	8	9	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr4:146026771G>C	uc003ijx.2	+	3	558	c.118G>C	c.(118-120)GAG>CAG	p.E40Q	ABCE1_uc003ijy.2_Missense_Mutation_p.E40Q|ABCE1_uc010iot.2_RNA	NM_001040876	NP_001035809	P61221	ABCE1_HUMAN	ATP-binding cassette, sub-family E, member 1	40					interspecies interaction between organisms|response to virus|RNA catabolic process	mitochondrion	ATP binding|ATPase activity|electron carrier activity|iron-sulfur cluster binding|ribonuclease inhibitor activity			skin(1)	1	all_hematologic(180;0.151)					ATTATGCATAGAGGTTACACC	0.328													13	36	---	---	---	---	PASS	C	146026771	C	C	146026771	3	2	139	1	0	0	0	0	1	0	0	0	64	943	33	2	124	2	ABCE1	4	146026771	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	370809	146026771	45127505	65	49598										
KIAA0922	23240	broad.mit.edu	37	chr4	154512253	154512253	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gctcacttgaagaaatccaaGgagtcagagtcctttgtttt	9	8	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr4:154512253G>T	uc003inm.3	+	17	1768	c.1716G>T	c.(1714-1716)AAG>AAT	p.K572N	KIAA0922_uc010ipp.2_Missense_Mutation_p.K573N|KIAA0922_uc010ipq.2_Intron	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	572	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				AGAAATCCAAGGAGTCAGAGT	0.378													5	73	---	---	---	---	PASS	T	154512253	T	T	154512253	3	4	139	1	0	0	0	0	1	0	0	0	8201	991	35	3	1785	3	KIAA0922	4	154512253	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	8485482	154512253	36642023	66	49599										
TDO2	6999	broad.mit.edu	37	chr4	156831260	156831260	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aggtgttcttcagaacatgaGagtcccttataacagaagac	9	8	2	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr4:156831260G>C	uc003ipf.1	+	6	579	c.515G>C	c.(514-516)AGA>ACA	p.R172T		NM_005651	NP_005642	P48775	T23O_HUMAN	tryptophan 2,3-dioxygenase	172					tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)	CAGAACATGAGAGTCCCTTAT	0.373													9	39	---	---	---	---	PASS	C	156831260	C	C	156831260	3	2	139	1	0	0	0	0	1	0	0	0	15724	942	33	2	537	2	TDO2	4	156831260	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	2319007	156831260	34323016	67	49600										
DDX60L	91351	broad.mit.edu	37	chr4	169342912	169342912	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aaagtcattcaaacactaccTttgcgggtgcaacgtacaca	7	11	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr4:169342912T>A	uc003irq.3	-	17	2614	c.2393A>T	c.(2392-2394)AAG>ATG	p.K798M	DDX60L_uc003irr.1_Missense_Mutation_p.K798M|DDX60L_uc003irs.1_Missense_Mutation_p.K525M	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	798	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		AAACACTACCTTTGCGGGTGC	0.453													36	76	---	---	---	---	PASS	A	169342912	A	A	169342912	3	1	139	1	0	0	0	0	1	0	0	0	4379	1623	56	5	2815	5	DDX60L	4	169342912	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	12511652	169342912	21811364	68	49601										
SLC6A3	6531	broad.mit.edu	37	chr5	1432761	1432761	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agcgcccaggcgatgatgacGttgtagaagaagccgacata	13	9	0	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:1432761G>A	uc003jck.2	-	4	592	c.471C>T	c.(469-471)AAC>AAT	p.N157N		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	157	Helical; Name=3; (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	CGATGATGACGTTGTAGAAGA	0.597													22	46	---	---	---	---	PASS	A	1432761	A	A	1432761	2	1	139	1	0	0	0	0	0	0	0	1	14685	1136	40	1		1	SLC6A3	5	1432761	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08		1432761	179482499	69	49602										
SEMA5A	9037	broad.mit.edu	37	chr5	9154614	9154614	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ccctacctgcgtgtgcggtaGaactggcacctcttcagggg	13	13	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:9154614G>A	uc003jek.2	-	12	2179	c.1467C>T	c.(1465-1467)TTC>TTT	p.F489F		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	489	Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						GTGTGCGGTAGAACTGGCACC	0.627													12	60	---	---	---	---	PASS	A	9154614	A	A	9154614	2	1	139	1	0	0	0	0	0	0	0	1	14037	933	33	2		2	SEMA5A	5	9154614	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	7721853	9154614	171760646	70	49603										
PRLR	5618	broad.mit.edu	37	chr5	35086375	35086375	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tctgtcccaggcctccaccaGcaggtgaatgtttccttatt	8	13	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:35086375G>T	uc003jjm.2	-	4	668	c.138C>A	c.(136-138)TGC>TGA	p.C46*	PRLR_uc003jjg.1_Nonsense_Mutation_p.C46*|PRLR_uc003jjh.1_Nonsense_Mutation_p.C46*|PRLR_uc003jji.1_Intron|PRLR_uc003jjj.1_Nonsense_Mutation_p.C46*|PRLR_uc003jjk.1_Intron|PRLR_uc003jjl.3_Intron|PRLR_uc010iuw.1_Translation_Start_Site	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	46	Fibronectin type-III 1.|Extracellular (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	GCCTCCACCAGCAGGTGAATG	0.458													49	60	---	---	---	---	PASS	T	35086375	T	T	35086375	4	4	139	1	0	0	0	0	0	1	0	0	12531	963	34	3	1758	3	PRLR	5	35086375	Nonsense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	25931761	35086375	145828885	71	49604										
HTR1A	3350	broad.mit.edu	37	chr5	63256881	63256881	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtcttgcggatgcggaagcgCgcagctcggaatatgcgccc	15	12	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:63256881C>G	uc011cqt.1	-	1	666	c.666G>C	c.(664-666)GCG>GCC	p.A222A		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	222	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TGCGGAAGCGCGCAGCTCGGA	0.562													33	51	---	---	---	---	PASS	G	63256881	G	G	63256881	2	3	139	1	0	0	0	0	0	0	0	1	7436	755	27	4		4	HTR1A	5	63256881	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	28170506	63256881	117658379	72	49605										
BDP1	55814	broad.mit.edu	37	chr5	70840961	70840961	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gccctgcacacttggtttggAtaggggtcttggtgaaaatt	13	7	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:70840961A>T	uc003kbp.1	+	32	6922	c.6659A>T	c.(6658-6660)GAT>GTT	p.D2220V	BDP1_uc003kbo.2_Missense_Mutation_p.D2220V|BDP1_uc003kbq.1_RNA|BDP1_uc003kbr.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	2220					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		CTTGGTTTGGATAGGGGTCTT	0.463													18	60	---	---	---	---	PASS	T	70840961	T	T	70840961	3	4	139	1	0	0	0	0	1	0	0	0	1395	333	12	5	6785	5	BDP1	5	70840961	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	7584080	70840961	110074299	73	49606										
CAMK4	814	broad.mit.edu	37	chr5	110809012	110809012	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tttcactttttctgcagcacCtgaaattcttagaggttgtg	8	8	3	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:110809012C>A	uc011cvj.1	+	9	728	c.629C>A	c.(628-630)CCT>CAT	p.P210H	CAMK4_uc003kpf.2_Missense_Mutation_p.P210H|CAMK4_uc010jbv.2_Missense_Mutation_p.P13H	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	210	Protein kinase.				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		TCTGCAGCACCTGAAATTCTT	0.318													5	69	---	---	---	---	PASS	A	110809012	A	A	110809012	3	1	139	1	0	0	0	0	1	0	0	0	2605	681	24	3	659	3	CAMK4	5	110809012	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	39968051	110809012	70106248	74	49607										
APC	324	broad.mit.edu	37	chr5	112173893	112173893	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gcaactaccatccagcaacaGaaaatccaggaacttcttca	5	13	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:112173893G>C	uc010jby.2	+	16	2982	c.2602G>C	c.(2602-2604)GAA>CAA	p.E868Q	APC_uc011cvt.1_Missense_Mutation_p.E850Q|APC_uc003kpz.3_Missense_Mutation_p.E868Q|APC_uc003kpy.3_Missense_Mutation_p.E868Q|APC_uc010jbz.2_Missense_Mutation_p.E585Q|APC_uc010jca.2_Missense_Mutation_p.E168Q	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	868	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.E868*(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TCCAGCAACAGAAAATCCAGG	0.453		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			25	23	---	---	---	---	PASS	C	112173893	C	C	112173893	3	2	139	1	0	0	0	0	1	0	0	0	763	943	33	2	2660	2	APC	5	112173893	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	1364881	112173893	68741367	75	49608										
DMXL1	1657	broad.mit.edu	37	chr5	118484909	118484909	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gacatgtatttatctagtaaAgagaatatcacatcaaacac	5	7	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:118484909A>G	uc003ksd.2	+	18	3568	c.3387A>G	c.(3385-3387)AAA>AAG	p.K1129K	DMXL1_uc010jcl.1_Silent_p.K1129K	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1129										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		TATCTAGTAAAGAGAATATCA	0.333													10	53	---	---	---	---	PASS	G	118484909	G	G	118484909	2	3	139	1	0	0	0	0	0	0	0	1	4594	69	3	5		5	DMXL1	5	118484909	Silent	SNP	A	TCGA-66-2727-01A-01D-0983-08	6311016	118484909	62430351	76	49609										
TCF7	6932	broad.mit.edu	37	chr5	133478442	133478442	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gcagagtccaaggcagagaaGgaggccaagaagccaaccat	13	10	0	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:133478442G>T	uc003kyt.2	+	7	982	c.786G>T	c.(784-786)AAG>AAT	p.K262N	TCF7_uc003kyu.1_Missense_Mutation_p.K147N|TCF7_uc003kyv.2_Missense_Mutation_p.K147N|TCF7_uc003kyw.2_Missense_Mutation_p.K147N|TCF7_uc003kyx.2_Missense_Mutation_p.K60N|TCF7_uc003kyy.2_Missense_Mutation_p.K147N|TCF7_uc003kyz.2_Missense_Mutation_p.K147N|TCF7_uc003kza.2_Missense_Mutation_p.K147N|TCF7_uc003kzb.2_Missense_Mutation_p.K76N|TCF7_uc010jdu.2_5'Flank	NM_003202	NP_003193	P36402	TCF7_HUMAN	transcription factor 7 (T-cell specific,	262					cellular response to interleukin-4|immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription regulatory region DNA binding				0		Breast(839;0.058)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGGCAGAGAAGGAGGCCAAGA	0.532													5	67	---	---	---	---	PASS	T	133478442	T	T	133478442	3	4	139	1	0	0	0	0	1	0	0	0	15693	991	35	3	812	3	TCF7	5	133478442	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	14993533	133478442	47436818	77	49610										
CATSPER3	347732	broad.mit.edu	37	chr5	134305628	134305628	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tcacattcaactttttgacaGgaggaacgatgatgaatgtc	9	7	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:134305628G>T	uc003lag.2	+	2	167	c.99_splice	c.e2-1	p.K33_splice		NM_178019	NP_821138	Q86XQ3	CTSR3_HUMAN	cation channel, sperm associated 3						cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CTTTTTGACAGGAGGAACGAT	0.393													5	71	---	---	---	---	PASS	T	134305628	T	T	134305628	5	4	139	1	0	0	0	0	0	0	1	0	2689	1014	35	3	104	3	CATSPER3	5	134305628	Splice_Site	SNP	G	TCGA-66-2727-01A-01D-0983-08	827186	134305628	46609632	78	49611										
KDM3B	51780	broad.mit.edu	37	chr5	137762958	137762958	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	caatctggcctctaggctacCtagctactttgtaaggcctg	9	12	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:137762958C>G	uc003lcy.1	+	19	4783	c.4583C>G	c.(4582-4584)CCT>CGT	p.P1528R	KDM3B_uc010jew.1_Missense_Mutation_p.P1184R|KDM3B_uc011cys.1_Missense_Mutation_p.P560R	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	1528	JmjC.				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						TCTAGGCTACCTAGCTACTTT	0.463													24	41	---	---	---	---	PASS	G	137762958	G	G	137762958	3	3	139	1	0	0	0	0	1	0	0	0	8127	681	24	4	4657	4	KDM3B	5	137762958	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	3457330	137762958	43152302	79	49612										
PCDHB6	56130	broad.mit.edu	37	chr5	140531962	140531962	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tcggtgctcctgttcgtggcGgtgcggctgtgcaggaggag	19	9	0	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:140531962G>C	uc003lir.2	+	1	2124	c.2124G>C	c.(2122-2124)GCG>GCC	p.A708A	PCDHB6_uc011dah.1_Silent_p.A572A	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	708	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGTTCGTGGCGGTGCGGCTGT	0.682													16	57	---	---	---	---	PASS	C	140531962	C	C	140531962	2	2	139	1	0	0	0	0	0	0	0	1	11546	1103	39	4		4	PCDHB6	5	140531962	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	2769004	140531962	40383298	80	49613										
PCDHGA5	56110	broad.mit.edu	37	chr5	140744848	140744848	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gaatccagattctacctcatGgaagtggtagctcaggatgg	12	8	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:140744848G>T	uc003lju.1	+	1	951	c.951G>T	c.(949-951)ATG>ATT	p.M317I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.M317I	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	317	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTACCTCATGGAAGTGGTAG	0.478													10	18	---	---	---	---	PASS	T	140744848	T	T	140744848	3	4	139	1	0	0	0	0	1	0	0	0	11557	1348	47	3	953	3	PCDHGA5	5	140744848	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	212886	140744848	40170412	81	49614										
PCDHGA6	56109	broad.mit.edu	37	chr5	140756055	140756055	+	Missense_Mutation	SNP	G	T	T													0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggatttacttgaaacgaaagGagaacccaggcaacttcagg							TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:140756055G>T	uc003ljy.1	+	1	2405	c.2405G>T	c.(2404-2406)GGA>GTA	p.G802V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.G802V	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	802	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAAACGAAAGGAGAACCCAGG	0.478													21	38	---	---	---	---	PASS	T	140756055	T	T	140756055	3	4	139	1	0	0	0	0	1	0	0	0	11558	1174	41	2	2407	2	PCDHGA6	5	140756055	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	11207	140756055	40159205	82	49615	909	2								
PCDHGA6	56109	broad.mit.edu	37	chr5	140756056	140756056	+	Silent	SNP	A	T	T													0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gatttacttgaaacgaaaggAgaacccaggcaacttcaggt							TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:140756056A>T	uc003ljy.1	+	1	2406	c.2406A>T	c.(2404-2406)GGA>GGT	p.G802G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.G802G	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	802	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAACGAAAGGAGAACCCAGGC	0.483													21	38	---	---	---	---	PASS	T	140756056	T	T	140756056	2	4	139	1	0	0	0	0	0	0	0	1	11558	291	11	5		5	PCDHGA6	5	140756056	Silent	SNP	A	TCGA-66-2727-01A-01D-0983-08	1	140756056	40159204	83	49616	909	2								
PCDHGB4	8641	broad.mit.edu	37	chr5	140769650	140769650	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cctggtctctgtgttaaatcCgaatccgtggttccccccaa	8	14	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:140769650C>T	uc003lkc.1	+	1	2199	c.2199C>T	c.(2197-2199)TCC>TCT	p.S733S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Silent_p.S733S	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	733	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGTTAAATCCGAATCCGTGG	0.527													45	114	---	---	---	---	PASS	T	140769650	T	T	140769650	2	4	139	1	0	0	0	0	0	0	0	1	11565	639	23	1		1	PCDHGB4	5	140769650	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	13594	140769650	40145610	84	49617										
PCDHGA10	56106	broad.mit.edu	37	chr5	140794536	140794536	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtgaccaaggtggtggcggtGgacagagactccggccagaa	17	9	0	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:140794536G>A	uc003lkl.1	+	1	1794	c.1794G>A	c.(1792-1794)GTG>GTA	p.V598V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Silent_p.V598V|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	598	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTGGCGGTGGACAGAGACT	0.697													13	60	---	---	---	---	PASS	A	140794536	A	A	140794536	2	1	139	1	0	0	0	0	0	0	0	1	11551	1335	47	3		3	PCDHGA10	5	140794536	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	24886	140794536	40120724	85	49618										
HAVCR2	84868	broad.mit.edu	37	chr5	156533930	156533930	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtgtagaagcagggcagataGgcattctgaccgacctccgc	13	11	1	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr5:156533930G>A	uc003lwk.1	-	2	246	c.102C>T	c.(100-102)GCC>GCT	p.A34A	HAVCR2_uc003lwl.2_Silent_p.A34A	NM_032782	NP_116171	Q8TDQ0	HAVR2_HUMAN	T cell immunoglobulin mucin 3 precursor	34	Ig-like V-type.|Extracellular (Potential).					integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AGGGCAGATAGGCATTCTGAC	0.572													17	68	---	---	---	---	PASS	A	156533930	A	A	156533930	2	1	139	1	0	0	0	0	0	0	0	1	6974	987	35	3		3	HAVCR2	5	156533930	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	15739394	156533930	24381330	86	49619										
KIF13A	63971	broad.mit.edu	37	chr6	17781053	17781053	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aactgtggttttcacaattaGgtaaatcctttcattctgtg	7	7	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr6:17781053G>T	uc003ncg.3	-	31	3859	c.3754C>A	c.(3754-3756)CTA>ATA	p.L1252I	KIF13A_uc003ncf.2_Missense_Mutation_p.L1239I|KIF13A_uc003nch.3_Missense_Mutation_p.L1252I|KIF13A_uc003nci.3_Missense_Mutation_p.L1239I|KIF13A_uc003nce.1_5'Flank	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	1252					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			TTCACAATTAGGTAAATCCTT	0.428													6	82	---	---	---	---	PASS	T	17781053	T	T	17781053	3	4	139	1	0	0	0	0	1	0	0	0	8274	991	35	3	1724	3	KIF13A	6	17781053	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08		17781053	153334014	87	49620										
KIF13A	63971	broad.mit.edu	37	chr6	17817326	17817326	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggcggtcagggccgctactcTgtggctgcctgtcgggggag	19	11	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr6:17817326T>G	uc003ncg.3	-	17	2030	c.1925A>C	c.(1924-1926)CAG>CCG	p.Q642P	KIF13A_uc003ncf.2_Missense_Mutation_p.Q642P|KIF13A_uc003nch.3_Missense_Mutation_p.Q642P|KIF13A_uc003nci.3_Missense_Mutation_p.Q642P|KIF13A_uc003ncj.2_Missense_Mutation_p.Q318P	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	642	Potential.				cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			GCCGCTACTCTGTGGCTGCCT	0.622													6	10	---	---	---	---	PASS	G	17817326	G	G	17817326	3	3	139	1	0	0	0	0	1	0	0	0	8274	1580	55	5	3609	5	KIF13A	6	17817326	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	36273	17817326	153297741	88	49621										
CDKAL1	54901	broad.mit.edu	37	chr6	20955674	20955674	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgtttgtgagatatggttgaCcagtgaagacacgggggctt	15	5	0	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr6:20955674C>G	uc003ndc.1	+	10	941	c.767C>G	c.(766-768)ACC>AGC	p.T256S	CDKAL1_uc003ndd.1_Missense_Mutation_p.T256S|CDKAL1_uc003nde.1_Missense_Mutation_p.T186S	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	256					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)			ATATGGTTGACCAGTGAAGAC	0.458													42	25	---	---	---	---	PASS	G	20955674	G	G	20955674	3	3	139	1	0	0	0	0	1	0	0	0	3152	507	18	4	797	4	CDKAL1	6	20955674	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	3138348	20955674	150159393	89	49622										
GPLD1	2822	broad.mit.edu	37	chr6	24476472	24476472	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cttgcattaagaaacggagtCcagtgagtgctctcagacac	10	10	1	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr6:24476472C>A	uc003ned.1	-	4	378	c.267G>T	c.(265-267)TGG>TGT	p.W89C	GPLD1_uc010jpr.1_5'UTR|GPLD1_uc010jps.1_Missense_Mutation_p.W89C|GPLD1_uc003nee.2_Missense_Mutation_p.W89C	NM_001503	NP_001494	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific	89						extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3						GAAACGGAGTCCAGTGAGTGC	0.433													5	6	---	---	---	---	PASS	A	24476472	A	A	24476472	3	1	139	1	0	0	0	0	1	0	0	0	6614	856	30	2	2384	2	GPLD1	6	24476472	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	3520798	24476472	146638595	90	49623										
HIST1H2BJ	8970	broad.mit.edu	37	chr6	27100230	27100230	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aactccccaggcagcagcagGcgcacggccgtctggatctc	12	16	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr6:27100230G>A	uc003niv.2	-	1	346	c.300C>T	c.(298-300)CGC>CGT	p.R100R	HIST1H2BJ_uc003niu.1_Intron|HIST1H2AG_uc003niw.2_5'Flank	NM_021058	NP_066402	P06899	H2B1J_HUMAN	histone cluster 1, H2bj	100					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						GCAGCAGCAGGCGCACGGCCG	0.592													52	35	---	---	---	---	PASS	A	27100230	A	A	27100230	2	1	139	1	0	0	0	0	0	0	0	1	7149	1190	42	3		3	HIST1H2BJ	6	27100230	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	2623758	27100230	144014837	91	49624										
C6orf222	389384	broad.mit.edu	37	chr6	36298332	36298332	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggtcgtccagtgaagcgcctTcctggagggggcagtgggca	18	10	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr6:36298332T>C	uc003oly.2	-	2	314	c.136A>G	c.(136-138)AAG>GAG	p.K46E		NM_001010903	NP_001010903	P0C671	CF222_HUMAN	hypothetical protein LOC389384	46										skin(2)|ovary(1)|breast(1)	4						TGAAGCGCCTTCCTGGAGGGG	0.652													37	21	---	---	---	---	PASS	C	36298332	C	C	36298332	3	2	139	1	0	0	0	0	1	0	0	0	2356	1792	62	5	1866	5	C6orf222	6	36298332	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	9198102	36298332	134816735	92	49625										
TMEM63B	55362	broad.mit.edu	37	chr6	44119666	44119666	+	Frame_Shift_Del	DEL	T	-	-													0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cggcaacgccatggacctgcTgcgcatcccaggcctgctca							TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr6:44119666delT	uc003owr.2	+	19	1821	c.1757delT	c.(1756-1758)CTGfs	p.L586fs	TMEM63B_uc003ows.2_Frame_Shift_Del_p.L489fs|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	586						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			ATGGACCTGCTGCGCATCCCA	0.657											OREG0017465	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	12	---	---	---	---		-	44119666	-	-	44119666	7	5	139	1	0	1	0	1	0	0	0	0	16188	1580	55	0	1827	0	TMEM63B	6	44119666	Frame_Shift_Del	DEL	T	TCGA-66-2727-01A-01D-0983-08	7821334	44119666	126995401	93	49626										
PRIM2	5558	broad.mit.edu	37	chr6	57512691	57512691	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gactagaggattactttagtGaagattcttaggcagttttg	11	4	1	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr6:57512691G>T	uc003pdx.2	+	15	1606	c.1519G>T	c.(1519-1521)GAA>TAA	p.E507*		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	507					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		TTACTTTAGTGAAGATTCTTA	0.333													39	229	---	---	---	---	PASS	T	57512691	T	T	57512691	4	4	139	1	0	0	0	0	0	1	0	0	12491	1291	45	2	1569	2	PRIM2	6	57512691	Nonsense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	13393025	57512691	113602376	94	49627										
FUT9	10690	broad.mit.edu	37	chr6	96651734	96651734	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ataaaaatttgattcctaccAtatctacttgtaaattttat	2	6	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr6:96651734A>G	uc003pop.3	+	3	1044	c.703A>G	c.(703-705)ATA>GTA	p.I235V		NM_006581	NP_006572	Q9Y231	FUT9_HUMAN	fucosyltransferase 9 (alpha (1,3)	235	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			skin(4)|ovary(1)	5		all_cancers(76;4.77e-07)|Acute lymphoblastic leukemia(125;4.01e-09)|all_hematologic(75;1.25e-06)|all_epithelial(107;0.00279)|Colorectal(196;0.0356)		BRCA - Breast invasive adenocarcinoma(108;0.08)		GATTCCTACCATATCTACTTG	0.353													6	26	---	---	---	---	PASS	G	96651734	G	G	96651734	3	3	139	1	0	0	0	0	1	0	0	0	6111	217	8	5	705	5	FUT9	6	96651734	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	39139043	96651734	74463333	95	49628										
LAMA4	3910	broad.mit.edu	37	chr6	112452259	112452259	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	actttgattccctttacatcCatgatgacagtaccattatc	4	11	0	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr6:112452259C>T	uc003pvu.2	-	29	4188	c.3879G>A	c.(3877-3879)ATG>ATA	p.M1293I	LAMA4_uc003pvv.2_Missense_Mutation_p.M1286I|LAMA4_uc003pvt.2_Missense_Mutation_p.M1286I	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1293	Laminin G-like 3.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding	p.M1286I(1)		ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CCTTTACATCCATGATGACAG	0.453													17	64	---	---	---	---	PASS	T	112452259	T	T	112452259	3	4	139	1	0	0	0	0	1	0	0	0	8608	594	21	3	1636	3	LAMA4	6	112452259	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	15800525	112452259	58662808	96	49629										
VNN2	8875	broad.mit.edu	37	chr6	133065475	133065475	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttttgcaaagctatgatcatTaataatatgaatattagcag	6	4	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr6:133065475T>C	uc003qdt.2	-	7	1538	c.1527A>G	c.(1525-1527)TTA>TTG	p.L509L	VNN2_uc003qds.2_Silent_p.L218L|VNN2_uc010kgb.2_Silent_p.L288L|VNN2_uc003qdv.2_Silent_p.L456L	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor	509					cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		CTATGATCATTAATAATATGA	0.398													13	94	---	---	---	---	PASS	C	133065475	C	C	133065475	2	2	139	1	0	0	0	0	0	0	0	1	17180	1751	61	5		5	VNN2	6	133065475	Silent	SNP	T	TCGA-66-2727-01A-01D-0983-08	20613216	133065475	38049592	97	49630										
ICA1	3382	broad.mit.edu	37	chr7	8167536	8167536	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctgtaagtctttcatattttGgtctaaaagctgcgaaggaa	9	6	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr7:8167536G>T	uc003srm.2	-	13	1364	c.1297C>A	c.(1297-1299)CAA>AAA	p.Q433K	ICA1_uc010ktr.2_Missense_Mutation_p.Q462K|ICA1_uc003srl.2_Missense_Mutation_p.Q421K|ICA1_uc003srn.3_Missense_Mutation_p.Q359K|ICA1_uc003srp.3_Missense_Mutation_p.Q432K|ICA1_uc010kts.2_RNA|ICA1_uc003srq.2_Missense_Mutation_p.Q433K|ICA1_uc003srr.2_Missense_Mutation_p.Q432K|ICA1_uc003sro.3_Missense_Mutation_p.Q433K	NM_022307	NP_071682	Q05084	ICA69_HUMAN	islet cell autoantigen 1	433					neurotransmitter transport	cell junction|cytosol|Golgi membrane|nucleus|secretory granule membrane|synaptic vesicle membrane|transport vesicle membrane				central_nervous_system(1)	1		Ovarian(82;0.0612)		UCEC - Uterine corpus endometrioid carcinoma (126;0.246)		TTCATATTTTGGTCTAAAAGC	0.488													7	157	---	---	---	---	PASS	T	8167536	T	T	8167536	3	4	139	1	0	0	0	0	1	0	0	0	7477	1357	47	3	162	3	ICA1	7	8167536	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08		8167536	150971127	98	49631										
ABCB5	340273	broad.mit.edu	37	chr7	20682900	20682900	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ataactgcagcacgacagacCaagaggattcgaaaacagtt	9	9	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr7:20682900C>A	uc010kuh.2	+	6	645	c.408C>A	c.(406-408)ACC>ACA	p.T136T		NM_001163941	NP_001157413	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	320	Extracellular (Potential).|ABC transmembrane type-1.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						CACGACAGACCAAGAGGATTC	0.423													5	23	---	---	---	---	PASS	A	20682900	A	A	20682900	2	1	139	1	0	0	0	0	0	0	0	1	44	581	21	3		3	ABCB5	7	20682900	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	12515364	20682900	138455763	99	49632										
HIBADH	11112	broad.mit.edu	37	chr7	27582650	27582650	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgcaccccagcaactcttggGcagcagcaaattcatcttca	7	14	4	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr7:27582650G>T	uc003szf.2	-	5	749	c.554C>A	c.(553-555)GCC>GAC	p.A185D	HIBADH_uc003szg.2_Missense_Mutation_p.A136D|HIBADH_uc003szh.2_Missense_Mutation_p.A84D|HIBADH_uc003szi.2_Missense_Mutation_p.A136D	NM_152740	NP_689953	P31937	3HIDH_HUMAN	3-hydroxyisobutyrate dehydrogenase precursor	185					branched chain family amino acid catabolic process|pentose-phosphate shunt|valine metabolic process	mitochondrial matrix	3-hydroxyisobutyrate dehydrogenase activity|NAD binding|phosphogluconate dehydrogenase (decarboxylating) activity			ovary(2)	2			GBM - Glioblastoma multiforme(3;0.0368)		NADH(DB00157)	CAACTCTTGGGCAGCAGCAAA	0.493													11	38	---	---	---	---	PASS	T	27582650	T	T	27582650	3	4	139	1	0	0	0	0	1	0	0	0	7099	1203	42	3	472	3	HIBADH	7	27582650	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	6899750	27582650	131556013	100	49633										
TBX20	57057	broad.mit.edu	37	chr7	35289604	35289604	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	atctcggtgcccagctcatgGaatttgtcccaaagctcctt	8	13	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr7:35289604G>T	uc011kas.1	-	2	350	c.339C>A	c.(337-339)TTC>TTA	p.F113L		NM_001077653	NP_001071121	Q9UMR3	TBX20_HUMAN	T-box transcription factor TBX20	113	T-box.					nucleus	DNA binding			central_nervous_system(1)	1						CCAGCTCATGGAATTTGTCCC	0.582													11	29	---	---	---	---	PASS	T	35289604	T	T	35289604	3	4	139	1	0	0	0	0	1	0	0	0	15653	1165	41	2	1033	2	TBX20	7	35289604	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	7706954	35289604	123849059	101	49634										
POU6F2	11281	broad.mit.edu	37	chr7	39446339	39446339	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gttactaatgcacaaggacaGgtgagtgggagatgggaaca	15	5	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr7:39446339G>T	uc003thb.1	+	6	1068	c.1026G>T	c.(1024-1026)CAG>CAT	p.Q342H		NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1	342	Gln-rich.				central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						CACAAGGACAGGTGAGTGGGA	0.468													15	51	---	---	---	---	PASS	T	39446339	T	T	39446339	3	4	139	1	0	0	0	0	1	0	0	0	12285	1014	35	3	1048	3	POU6F2	7	39446339	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	4156735	39446339	119692324	102	49635										
PKD1L1	168507	broad.mit.edu	37	chr7	47968883	47968883	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tcaaccccagaactgtccccGaaatccatcatcagacagag	6	15	3	3	rs142684649		TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr7:47968883G>A	uc003tny.1	-	7	978	c.978C>T	c.(976-978)TTC>TTT	p.F326F		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	326	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AACTGTCCCCGAAATCCATCA	0.512													63	140	---	---	---	---	PASS	A	47968883	A	A	47968883	2	1	139	1	0	0	0	0	0	0	0	1	11964	1049	37	2		2	PKD1L1	7	47968883	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	8522544	47968883	111169780	103	49636										
ANKIB1	54467	broad.mit.edu	37	chr7	91974291	91974291	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	attgttcttcttcatctccaGtgtgacatttgtatgtgcag	8	8	4	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr7:91974291G>A	uc003ulw.2	+	7	1373	c.997_splice	c.e7-1	p.C333_splice		NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1								protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTCATCTCCAGTGTGACATTT	0.353													52	153	---	---	---	---	PASS	A	91974291	A	A	91974291	5	1	139	1	0	0	0	0	0	0	1	0	630	1043	36	3	1018	3	ANKIB1	7	91974291	Splice_Site	SNP	G	TCGA-66-2727-01A-01D-0983-08	44005408	91974291	67164372	104	49637										
MUC17	140453	broad.mit.edu	37	chr7	100675507	100675507	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agcctgtcaaactcagctccTagtggaggaagcactccatt	9	12	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr7:100675507T>A	uc003uxp.1	+	3	863	c.810T>A	c.(808-810)CCT>CCA	p.P270P	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	270	Extracellular (Potential).|59 X approximate tandem repeats.|2.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ACTCAGCTCCTAGTGGAGGAA	0.507													60	123	---	---	---	---	PASS	A	100675507	A	A	100675507	2	1	139	1	0	0	0	0	0	0	0	1	9974	1509	53	5		5	MUC17	7	100675507	Silent	SNP	T	TCGA-66-2727-01A-01D-0983-08	8701216	100675507	58463156	105	49638										
LHFPL3	375612	broad.mit.edu	37	chr7	103969486	103969486	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tcggcaacggcttctcccggGagctgacctgcaggggcagc	15	14	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr7:103969486G>T	uc003vce.2	+	1	383	c.259G>T	c.(259-261)GAG>TAG	p.E87*	LHFPL3_uc003vcf.2_Nonsense_Mutation_p.E87*	NM_199000	NP_945351	Q86UP9	LHPL3_HUMAN	lipoma HMGIC fusion partner-like 3	73						integral to membrane					0						CTTCTCCCGGGAGCTGACCTG	0.617													4	21	---	---	---	---	PASS	T	103969486	T	T	103969486	4	4	139	1	0	0	0	0	0	1	0	0	8766	1175	41	2	261	2	LHFPL3	7	103969486	Nonsense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	3293979	103969486	55169177	106	49639										
RINT1	60561	broad.mit.edu	37	chr7	105204355	105204355	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tcaagtagaccacgtttttaGagaagttaaagatgctgcaa	9	6	1	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr7:105204355G>T	uc003vda.1	+	12	2078	c.1847G>T	c.(1846-1848)AGA>ATA	p.R616I	RINT1_uc010ljj.1_Missense_Mutation_p.R191I	NM_021930	NP_068749	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1	616	RINT1/TIP20.				cell cycle|G2/M transition DNA damage checkpoint|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane	protein binding			ovary(3)|central_nervous_system(1)	4						CACGTTTTTAGAGAAGTTAAA	0.368													5	43	---	---	---	---	PASS	T	105204355	T	T	105204355	3	4	139	1	0	0	0	0	1	0	0	0	13376	942	33	2	1893	2	RINT1	7	105204355	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	1234869	105204355	53934308	107	49640										
LAMB4	22798	broad.mit.edu	37	chr7	107688550	107688550	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tggcacatttcctggatctcCgcacaccttgcaagagaaat	8	12	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr7:107688550C>G	uc010ljo.1	-	28	4213	c.4129G>C	c.(4129-4131)GGA>CGA	p.G1377R	LAMB4_uc003vey.2_Missense_Mutation_p.G1377R|LAMB4_uc010ljp.1_Missense_Mutation_p.G346R	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	1377	Domain alpha.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						CCTGGATCTCCGCACACCTTG	0.433													10	30	---	---	---	---	PASS	G	107688550	G	G	107688550	3	3	139	1	0	0	0	0	1	0	0	0	8613	661	23	4	1184	4	LAMB4	7	107688550	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	2484195	107688550	51450113	108	49641										
OR2A25	392138	broad.mit.edu	37	chr7	143771754	143771754	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tcactttggcattgacttccTggattttaggagtcttattg	9	7	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr7:143771754T>C	uc011ktx.1	+	1	442	c.442T>C	c.(442-444)TGG>CGG	p.W148R		NM_001004488	NP_001004488	A4D2G3	O2A25_HUMAN	olfactory receptor, family 2, subfamily A,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					ATTGACTTCCTGGATTTTAGG	0.458													30	67	---	---	---	---	PASS	C	143771754	C	C	143771754	3	2	139	1	0	0	0	0	1	0	0	0	10978	1580	55	5	444	5	OR2A25	7	143771754	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	36083204	143771754	15366909	109	49642										
INTS9	55756	broad.mit.edu	37	chr8	28695255	28695255	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	atacagtgatagttagagatGagaatcacatctactgtaga	9	5	2	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr8:28695255G>T	uc003xha.2	-	5	599	c.300C>A	c.(298-300)CTC>CTA	p.L100L	INTS9_uc011lav.1_Silent_p.L76L|INTS9_uc011law.1_Silent_p.L79L|INTS9_uc011lax.1_5'UTR|INTS9_uc010lvc.2_RNA|INTS9_uc003xhb.2_Silent_p.L100L	NM_018250	NP_060720	Q9NV88	INT9_HUMAN	integrator complex subunit 9 isoform 1	100					snRNA processing	integrator complex	protein binding			central_nervous_system(1)|pancreas(1)	2		Ovarian(32;0.0439)		KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.152)		AGTTAGAGATGAGAATCACAT	0.468													4	35	---	---	---	---	PASS	T	28695255	T	T	28695255	2	4	139	1	0	0	0	0	0	0	0	1	7785	1277	45	2		2	INTS9	8	28695255	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08		28695255	117668767	110	49643										
RAB11FIP1	80223	broad.mit.edu	37	chr8	37734976	37734976	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	atagaaaggtcaaacatgctGgcagtcatgttgtttctcat	9	7	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr8:37734976G>T	uc003xkm.1	-	2	509	c.465C>A	c.(463-465)GCC>GCA	p.A155A	RAB11FIP1_uc010lvz.1_Silent_p.A3A|RAB11FIP1_uc003xkn.1_Silent_p.A155A|RAB11FIP1_uc003xkp.1_Silent_p.A3A	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	155					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			CAAACATGCTGGCAGTCATGT	0.438													8	190	---	---	---	---	PASS	T	37734976	T	T	37734976	2	4	139	1	0	0	0	0	0	0	0	1	12893	1335	47	3		3	RAB11FIP1	8	37734976	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	9039721	37734976	108629046	111	49644										
ADAM18	8749	broad.mit.edu	37	chr8	39502981	39502981	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gagagctacatgcatcatgaAtcatgaagcagtgtaagatg	11	6	2	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr8:39502981A>T	uc003xni.2	+	11	1034	c.1034A>T	c.(1033-1035)AAT>ATT	p.N345I	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.N321I	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	345	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TGCATCATGAATCATGAAGCA	0.303													26	16	---	---	---	---	PASS	T	39502981	T	T	39502981	3	4	139	1	0	0	0	0	1	0	0	0	239	101	4	5	1076	5	ADAM18	8	39502981	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	1768005	39502981	106861041	112	49645										
CHRNA6	8973	broad.mit.edu	37	chr8	42608341	42608341	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tttaagattttcctgtgttcCcaagtagtggctgtagaaat	9	6	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr8:42608341C>G	uc003xpj.2	-	6	1512	c.1466G>C	c.(1465-1467)GGG>GCG	p.G489A	CHRNA6_uc011lcw.1_Missense_Mutation_p.G474A	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	489						cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			TCCTGTGTTCCCAAGTAGTGG	0.383													18	188	---	---	---	---	PASS	G	42608341	G	G	42608341	3	3	139	1	0	0	0	0	1	0	0	0	3387	623	22	4	22	4	CHRNA6	8	42608341	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	3105360	42608341	103755681	113	49646										
FNTA	2339	broad.mit.edu	37	chr8	42924714	42924714	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctaggcatttccggagagttCttttgaagtcacttcagaag	10	8	3	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr8:42924714C>G	uc003xps.2	+	4	466	c.418C>G	c.(418-420)CTT>GTT	p.L140V	FNTA_uc003xpt.2_Missense_Mutation_p.L49V|FNTA_uc003xpu.2_Missense_Mutation_p.L73V|FNTA_uc003xpv.2_RNA	NM_002027	NP_002018	P49354	FNTA_HUMAN	farnesyltransferase, CAAX box, alpha isoform a	140	PFTA 1.				cellular component disassembly involved in apoptosis|positive regulation of deacetylase activity|positive regulation of tubulin deacetylation|protein farnesylation|protein geranylgeranylation|transforming growth factor beta receptor signaling pathway	cytosol|microtubule associated complex	alpha-tubulin binding|CAAX-protein geranylgeranyltransferase activity|microtubule binding|protein farnesyltransferase activity			ovary(1)	1	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			CCGGAGAGTTCTTTTGAAGTC	0.373													13	92	---	---	---	---	PASS	G	42924714	G	G	42924714	3	3	139	1	0	0	0	0	1	0	0	0	5977	913	32	2	432	2	FNTA	8	42924714	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	316373	42924714	103439308	114	49647										
PI15	51050	broad.mit.edu	37	chr8	75757649	75757649	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	acttccaatcggataggatgCgcaattcatacttgccaaaa	7	10	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr8:75757649C>T	uc003yal.2	+	5	737	c.558C>T	c.(556-558)TGC>TGT	p.C186C	uc003yak.1_Intron|PI15_uc003yam.2_Silent_p.C186C	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	186						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			GGATAGGATGCGCAATTCATA	0.428													9	34	---	---	---	---	PASS	T	75757649	T	T	75757649	2	4	139	1	0	0	0	0	0	0	0	1	11868	776	27	1		1	PI15	8	75757649	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	32832935	75757649	70606373	115	49648										
ZFHX4	79776	broad.mit.edu	37	chr8	77618662	77618662	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttatgaaaccaatgtcgccaGgaacctccgaattcatatga	7	10	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr8:77618662G>C	uc003yav.2	+	2	2726	c.2339G>C	c.(2338-2340)AGG>ACG	p.R780T	ZFHX4_uc003yat.1_Missense_Mutation_p.R780T|ZFHX4_uc003yau.1_Missense_Mutation_p.R780T|ZFHX4_uc003yaw.1_Missense_Mutation_p.R780T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	780	C2H2-type 4; degenerate.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AATGTCGCCAGGAACCTCCGA	0.493										HNSCC(33;0.089)			13	16	---	---	---	---	PASS	C	77618662	C	C	77618662	3	2	139	1	0	0	0	0	1	0	0	0	17632	1000	35	4	2341	4	ZFHX4	8	77618662	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	1861013	77618662	68745360	116	49649										
PKHD1L1	93035	broad.mit.edu	37	chr8	110457075	110457075	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aggcgatttgtacttttgccAaacattgacctggtgttgcc	10	9	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr8:110457075A>G	uc003yne.2	+	38	5081	c.4977A>G	c.(4975-4977)CCA>CCG	p.P1659P		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1659	IPT/TIG 9.|Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TACTTTTGCCAAACATTGACC	0.433										HNSCC(38;0.096)			18	86	---	---	---	---	PASS	G	110457075	G	G	110457075	2	3	139	1	0	0	0	0	0	0	0	1	11972	117	5	5		5	PKHD1L1	8	110457075	Silent	SNP	A	TCGA-66-2727-01A-01D-0983-08	32838413	110457075	35906947	117	49650										
FAM135B	51059	broad.mit.edu	37	chr8	139268978	139268978	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	atccaccttgagttgaaaatCtacttcactcagtgcgtctt	6	11	4	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr8:139268978C>G	uc003yuy.2	-	5	493	c.322G>C	c.(322-324)GAT>CAT	p.D108H	FAM135B_uc003yux.2_Missense_Mutation_p.D9H|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	108										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)			AGTTGAAAATCTACTTCACTC	0.433										HNSCC(54;0.14)			3	19	---	---	---	---	PASS	G	139268978	G	G	139268978	3	3	139	1	0	0	0	0	1	0	0	0	5449	913	32	2	3962	2	FAM135B	8	139268978	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	28811903	139268978	7095044	118	49651										
TLN1	7094	broad.mit.edu	37	chr9	35710609	35710609	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gcctttgaggctgtggaaatGgcatctccaaactctggcag	12	10	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr9:35710609G>T	uc003zxt.2	-	33	4629	c.4275C>A	c.(4273-4275)GCC>GCA	p.A1425A		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1425	Interaction with SYNM.				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CTGTGGAAATGGCATCTCCAA	0.527													4	24	---	---	---	---	PASS	T	35710609	T	T	35710609	2	4	139	1	0	0	0	0	0	0	0	1	15944	1335	47	3		3	TLN1	9	35710609	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08		35710609	105502822	119	49652										
TLN1	7094	broad.mit.edu	37	chr9	35720146	35720146	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agaggctccagagcgcatgaTggcaggcagggccacagagc	16	11	0	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr9:35720146T>C	uc003zxt.2	-	13	1708	c.1354A>G	c.(1354-1356)ATC>GTC	p.I452V		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	452					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GAGCGCATGATGGCAGGCAGG	0.592													8	25	---	---	---	---	PASS	C	35720146	C	C	35720146	3	2	139	1	0	0	0	0	1	0	0	0	15944	1464	51	5	6451	5	TLN1	9	35720146	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	9537	35720146	105493285	120	49653										
C9orf85	138241	broad.mit.edu	37	chr9	74526735	74526735	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tcaaaaatgacaagttcgatAaaagtgtgcagaccaaggta	9	6	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr9:74526735A>T	uc004ain.2	+	1	313	c.85A>T	c.(85-87)AAA>TAA	p.K29*	C9orf85_uc004aio.2_RNA|C9orf85_uc010mou.2_RNA|C9orf85_uc010mov.2_RNA|FAM108B1_uc004ail.2_5'Flank|FAM108B1_uc004aim.1_5'Flank	NM_182505	NP_872311	Q96MD7	CI085_HUMAN	hypothetical protein LOC138241	29	Lys-rich.										0						CAAGTTCGATAAAAGTGTGCA	0.507													25	58	---	---	---	---	PASS	T	74526735	T	T	74526735	4	4	139	1	0	0	0	0	0	1	0	0	2501	363	13	5	87	5	C9orf85	9	74526735	Nonsense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	38806589	74526735	66686696	121	49654										
PRUNE2	158471	broad.mit.edu	37	chr9	79325136	79325136	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttggcttatgctctttccatGattcagggctctggaaaaca	9	9	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr9:79325136G>C	uc010mpk.2	-	8	2178	c.2054C>G	c.(2053-2055)TCA>TGA	p.S685*		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	685					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CTCTTTCCATGATTCAGGGCT	0.473													7	29	---	---	---	---	PASS	C	79325136	C	C	79325136	4	2	139	1	0	0	0	0	0	1	0	0	12641	1294	45	2	7260	2	PRUNE2	9	79325136	Nonsense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	4798401	79325136	61888295	122	49655										
AGTPBP1	23287	broad.mit.edu	37	chr9	88200380	88200380	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	atcatctgtaataattacccTgtatcccgtatcctccacaa	3	13	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr9:88200380T>A	uc011ltd.1	-	22	3196	c.3163A>T	c.(3163-3165)AGG>TGG	p.R1055W	AGTPBP1_uc004aod.3_Missense_Mutation_p.R681W|AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Missense_Mutation_p.R1015W|AGTPBP1_uc011lte.1_Missense_Mutation_p.R1067W	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	1055					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						ATAATTACCCTGTATCCCGTA	0.313													9	52	---	---	---	---	PASS	A	88200380	A	A	88200380	3	1	139	1	0	0	0	0	1	0	0	0	400	1579	55	5	533	5	AGTPBP1	9	88200380	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	8875244	88200380	53013051	123	49656										
PHF2	5253	broad.mit.edu	37	chr9	96416756	96416756	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	catctccctgtatgagcgctGgcggtctgcctctaaccaca	9	15	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr9:96416756G>T	uc004aub.2	+	7	998	c.851G>T	c.(850-852)TGG>TTG	p.W284L	PHF2_uc011lug.1_Missense_Mutation_p.W167L	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	284	JmjC.				liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		TATGAGCGCTGGCGGTCTGCC	0.582													5	51	---	---	---	---	PASS	T	96416756	T	T	96416756	3	4	139	1	0	0	0	0	1	0	0	0	11830	1357	47	3	877	3	PHF2	9	96416756	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	8216376	96416756	44796675	124	49657										
PHF2	5253	broad.mit.edu	37	chr9	96437969	96437969	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttcttttccacagcaagggtCggcccatcggtgccaagaca	10	13	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr9:96437969C>T	uc004aub.2	+	20	2877	c.2730C>T	c.(2728-2730)GTC>GTT	p.V910V	PHF2_uc011lug.1_Silent_p.V793V|PHF2_uc004auc.2_Silent_p.V330V	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	910					liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		CAGCAAGGGTCGGCCCATCGG	0.657													11	28	---	---	---	---	PASS	T	96437969	T	T	96437969	2	4	139	1	0	0	0	0	0	0	0	1	11830	871	31	2		2	PHF2	9	96437969	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	21213	96437969	44775462	125	49658										
COL15A1	1306	broad.mit.edu	37	chr9	101747997	101747997	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cccagccaggactctcatccCatccaccttcttcagggact	6	18	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr9:101747997C>T	uc004azb.1	+	3	457	c.251C>T	c.(250-252)CCA>CTA	p.P84L	COL15A1_uc004aza.2_Missense_Mutation_p.P84L	NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	84	TSP N-terminal.				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				ACTCTCATCCCATCCACCTTC	0.617													5	37	---	---	---	---	PASS	T	101747997	T	T	101747997	3	4	139	1	0	0	0	0	1	0	0	0	3672	594	21	3	261	3	COL15A1	9	101747997	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	5310028	101747997	39465434	126	49659										
HSPA5	3309	broad.mit.edu	37	chr9	128001220	128001220	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gcagaaaacaaggaacatacCatgttgagctcttcaaattt	7	8	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr9:128001220C>A	uc004bpn.2	-	5	1252	c.996G>T	c.(994-996)ATG>ATT	p.M332I		NM_005347	NP_005338	P11021	GRP78_HUMAN	heat shock 70kDa protein 5	332					anti-apoptosis|cellular response to glucose starvation|ER-associated protein catabolic process|platelet activation|platelet degranulation|regulation of protein folding in endoplasmic reticulum	cell surface|endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|integral to endoplasmic reticulum membrane|melanosome|midbody|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|calcium ion binding|caspase inhibitor activity|chaperone binding|misfolded protein binding|protein binding, bridging|protein domain specific binding|ubiquitin protein ligase binding|unfolded protein binding			ovary(3)|skin(1)	4					Antihemophilic Factor(DB00025)	AGGAACATACCATGTTGAGCT	0.398										Prostate(1;0.17)			5	48	---	---	---	---	PASS	A	128001220	A	A	128001220	3	1	139	1	0	0	0	0	1	0	0	0	7414	608	21	3	984	3	HSPA5	9	128001220	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	26253223	128001220	13212211	127	49660										
ANKRD30A	91074	broad.mit.edu	37	chr10	37508523	37508523	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aacgtgaaacacagtgtcaaAtgaaggaagctgaacacatg	10	7	1	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr10:37508523A>G	uc001iza.1	+	34	3814	c.3715A>G	c.(3715-3717)ATG>GTG	p.M1239V		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1295	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						ACAGTGTCAAATGAAGGAAGC	0.358													7	17	---	---	---	---	PASS	G	37508523	G	G	37508523	3	3	139	1	0	0	0	0	1	0	0	0	658	101	4	5	3849	5	ANKRD30A	10	37508523	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08		37508523	98026224	128	49661										
PGBD3	267004	broad.mit.edu	37	chr10	50723876	50723876	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	actgacaagacacaggggatGgataccagcaccagatgagg	13	9	0	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr10:50723876G>T	uc001jht.2	-	2	1540	c.1285C>A	c.(1285-1287)CAT>AAT	p.H429N	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Missense_Mutation_p.H897N|PGBD3_uc001jhu.2_Missense_Mutation_p.H897N	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	429										pancreas(1)|breast(1)|skin(1)	3						CACAGGGGATGGATACCAGCA	0.428													5	73	---	---	---	---	PASS	T	50723876	T	T	50723876	3	4	139	1	0	0	0	0	1	0	0	0	11782	1348	47	3	500	3	PGBD3	10	50723876	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	13215353	50723876	84810871	129	49662										
PRKG1	5592	broad.mit.edu	37	chr10	54048748	54048748	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggagtaaaagacattcaaaaGcacaagtaagtgttctttct	8	6	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr10:54048748G>A	uc001jjm.2	+	16	2039	c.1845G>A	c.(1843-1845)AAG>AAA	p.K615K	PRKG1_uc001jjo.2_Silent_p.K630K|PRKG1_uc009xow.1_Silent_p.K333K|uc001jjq.1_Intron	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	615	Protein kinase.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		ACATTCAAAAGCACAAGTAAG	0.313													19	51	---	---	---	---	PASS	A	54048748	A	A	54048748	2	1	139	1	0	0	0	0	0	0	0	1	12522	962	34	3		3	PRKG1	10	54048748	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	3324872	54048748	81485999	130	49663										
BICC1	80114	broad.mit.edu	37	chr10	60546717	60546717	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	actgaagatggatgtttcacAtacagaacattcacatgtaa	7	7	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr10:60546717A>T	uc001jki.1	+	5	422	c.422A>T	c.(421-423)CAT>CTT	p.H141L		NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	141	KH 1.				multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						GATGTTTCACATACAGAACAT	0.363													5	16	---	---	---	---	PASS	T	60546717	T	T	60546717	3	4	139	1	0	0	0	0	1	0	0	0	1427	217	8	5	440	5	BICC1	10	60546717	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	6497969	60546717	74988030	131	49664										
ANK3	288	broad.mit.edu	37	chr10	61835211	61835211	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agttacagatgaggtagttgCagatattgacgacccaaggg	13	6	0	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr10:61835211C>A	uc001jky.2	-	37	5620	c.5428G>T	c.(5428-5430)GCA>TCA	p.A1810S	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1810	Ser-rich.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GAGGTAGTTGCAGATATTGAC	0.423													21	91	---	---	---	---	PASS	A	61835211	A	A	61835211	3	1	139	1	0	0	0	0	1	0	0	0	622	710	25	3	8046	3	ANK3	10	61835211	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	1288494	61835211	73699536	132	49665										
LRIT2	340745	broad.mit.edu	37	chr10	85982088	85982088	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ccacagcataagtattgattCcggggccaatgtgaaccacc	9	12	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr10:85982088C>A	uc001kcy.2	-	3	1249	c.1241G>T	c.(1240-1242)GGA>GTA	p.G414V	LRIT2_uc010qmc.1_Missense_Mutation_p.G424V	NM_001017924	NP_001017924	A6NDA9	LRIT2_HUMAN	leucine rich repeat containing 22 precursor	414	Fibronectin type-III.					integral to membrane				ovary(2)	2						AGTATTGATTCCGGGGCCAAT	0.552													29	29	---	---	---	---	PASS	A	85982088	A	A	85982088	3	1	139	1	0	0	0	0	1	0	0	0	8948	855	30	2	415	2	LRIT2	10	85982088	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	24146877	85982088	49552659	133	49666										
SLK	9748	broad.mit.edu	37	chr10	105779491	105779491	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttctatttaaaactttcataGgaaacagagcaaatgcagcg	7	7	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr10:105779491G>T	uc001kxo.1	+	16	3167	c.3133_splice	c.e16-1	p.E1045_splice	SLK_uc001kxp.1_Splice_Site_p.E1014_splice	NM_014720	NP_055535	Q9H2G2	SLK_HUMAN	serine/threonine kinase 2						apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		AACTTTCATAGGAAACAGAGC	0.358													5	74	---	---	---	---	PASS	T	105779491	T	T	105779491	5	4	139	1	0	0	0	0	0	0	1	0	14748	1014	35	3	3194	3	SLK	10	105779491	Splice_Site	SNP	G	TCGA-66-2727-01A-01D-0983-08	19797403	105779491	29755256	134	49667										
AFAP1L2	84632	broad.mit.edu	37	chr10	116060044	116060044	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gggcagctcggtgggaaggaGattctctgctgttccgtctg	16	9	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr10:116060044G>C	uc001lbn.2	-	15	2167	c.1866C>G	c.(1864-1866)ATC>ATG	p.I622M	AFAP1L2_uc001lbo.2_Missense_Mutation_p.I622M|AFAP1L2_uc010qse.1_Missense_Mutation_p.I675M|AFAP1L2_uc001lbp.2_Missense_Mutation_p.I650M|AFAP1L2_uc001lbr.1_Missense_Mutation_p.I621M|AFAP1L2_uc001lbm.2_Missense_Mutation_p.I61M|AFAP1L2_uc010qsd.1_Missense_Mutation_p.I188M|AFAP1L2_uc001lbq.1_Missense_Mutation_p.I144M	NM_001001936	NP_001001936	Q8N4X5	AF1L2_HUMAN	KIAA1914 protein isoform 1	622					inflammatory response|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of transcription, DNA-dependent|regulation of interleukin-6 production|regulation of mitotic cell cycle	cytoplasm	protein tyrosine kinase activator activity|SH2 domain binding|SH3 domain binding			ovary(1)|breast(1)	2		Colorectal(252;0.175)|Breast(234;0.231)		Epithelial(162;0.0219)|all cancers(201;0.0561)		GTGGGAAGGAGATTCTCTGCT	0.597													25	39	---	---	---	---	PASS	C	116060044	C	C	116060044	3	2	139	1	0	0	0	0	1	0	0	0	355	932	33	2	610	2	AFAP1L2	10	116060044	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	10280553	116060044	19474703	135	49668										
DOCK1	1793	broad.mit.edu	37	chr10	129237453	129237453	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tttaaacccaccgacatttcCctgcagcagtctgaggctgt	8	13	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr10:129237453C>T	uc001ljt.2	+	49	5224	c.5160C>T	c.(5158-5160)TCC>TCT	p.S1720S	DOCK1_uc010qun.1_Silent_p.S1741S|DOCK1_uc009yaq.2_Silent_p.S715S	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	1720					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		CCGACATTTCCCTGCAGCAGT	0.403													8	12	---	---	---	---	PASS	T	129237453	T	T	129237453	2	4	139	1	0	0	0	0	0	0	0	1	4684	610	22	3		3	DOCK1	10	129237453	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	13177409	129237453	6297294	136	49669										
KNDC1	85442	broad.mit.edu	37	chr10	135027589	135027589	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cgcagatgacgtcagcacctGggtggctgcagagattgtga	15	9	1	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr10:135027589G>T	uc001llz.1	+	26	4641	c.4640G>T	c.(4639-4641)TGG>TTG	p.W1547L		NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1547	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		GTCAGCACCTGGGTGGCTGCA	0.572													14	11	---	---	---	---	PASS	T	135027589	T	T	135027589	3	4	139	1	0	0	0	0	1	0	0	0	8426	1357	47	3	4742	3	KNDC1	10	135027589	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	5790136	135027589	507158	137	49670										
MUC6	4588	broad.mit.edu	37	chr11	1031985	1031985	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gttgcacgtccccgagaagtCgtacacgtggtggtcgaagg	15	10	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:1031985C>G	uc001lsw.2	-	3	235	c.184G>C	c.(184-186)GAC>CAC	p.D62H		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	62	VWFD 1.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCCGAGAAGTCGTACACGTGG	0.632													19	33	---	---	---	---	PASS	G	1031985	G	G	1031985	3	3	139	1	0	0	0	0	1	0	0	0	9980	884	31	2	7259	2	MUC6	11	1031985	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08		1031985	133974531	138	49671										
OR52K2	119774	broad.mit.edu	37	chr11	4471455	4471455	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tcaatcccataatctatggtGtcaagaccaagcaaatccgt	6	11	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:4471455G>A	uc001lyz.1	+	1	886	c.886G>A	c.(886-888)GTC>ATC	p.V296I		NM_001005172	NP_001005172	Q8NGK3	O52K2_HUMAN	olfactory receptor, family 52, subfamily K,	296	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.48e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0821)|LUSC - Lung squamous cell carcinoma(625;0.19)		AATCTATGGTGTCAAGACCAA	0.507													12	45	---	---	---	---	PASS	A	4471455	A	A	4471455	3	1	139	1	0	0	0	0	1	0	0	0	11124	1377	48	3	888	3	OR52K2	11	4471455	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	3439470	4471455	130535061	139	49672										
OR52J3	119679	broad.mit.edu	37	chr11	5068652	5068652	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tatggggtgaggaccaaacaGattcgagaacgagtgctcta	13	7	1	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:5068652G>T	uc010qyv.1	+	1	897	c.897G>T	c.(895-897)CAG>CAT	p.Q299H		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGACCAAACAGATTCGAGAAC	0.378													20	38	---	---	---	---	PASS	T	5068652	T	T	5068652	3	4	139	1	0	0	0	0	1	0	0	0	11122	933	33	2	899	2	OR52J3	11	5068652	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	597197	5068652	129937864	140	49673										
WT1	7490	broad.mit.edu	37	chr11	32439126	32439126	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aatagagaaaaccttaccccTttaaggtggctcctaagttc	7	10	0	1	rs67297380		TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:32439126T>G	uc001mtn.1	-	4	1143	c.947A>C	c.(946-948)AAG>ACG	p.K316T	WT1_uc001mtl.1_Missense_Mutation_p.K104T|WT1_uc001mtm.1_Missense_Mutation_p.K104T|WT1_uc001mto.1_Missense_Mutation_p.K316T|WT1_uc001mtp.1_Missense_Mutation_p.K316T|WT1_uc001mtq.1_Missense_Mutation_p.K316T|WT1_uc009yjs.1_RNA	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D	248					adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding	p.E316fs*4(1)	EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			ACCTTACCCCTTTAAGGTGGC	0.368			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				5	37	---	---	---	---	PASS	G	32439126	G	G	32439126	3	3	139	1	0	0	0	0	1	0	0	0	17405	1609	56	5	634	5	WT1	11	32439126	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	27370474	32439126	102567390	141	49674										
FOLH1	2346	broad.mit.edu	37	chr11	49175867	49175867	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	atactttcttaaaactacagCataatctcgacaatcaaaag	3	9	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:49175867C>T	uc001ngy.2	-	16	2062	c.1801G>A	c.(1801-1803)GCT>ACT	p.A601T	FOLH1_uc001ngx.2_Missense_Mutation_p.A33T|FOLH1_uc001ngz.2_Missense_Mutation_p.A601T|FOLH1_uc009yly.2_Missense_Mutation_p.A586T|FOLH1_uc009ylz.2_Missense_Mutation_p.A586T|FOLH1_uc009yma.2_Missense_Mutation_p.A293T	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	601	Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	AAAACTACAGCATAATCTCGA	0.393													11	26	---	---	---	---	PASS	T	49175867	T	T	49175867	3	4	139	1	0	0	0	0	1	0	0	0	5979	710	25	3	467	3	FOLH1	11	49175867	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	16736741	49175867	85830649	142	49675										
OR5M3	219482	broad.mit.edu	37	chr11	56237681	56237681	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gagcaatgaagaagaaacacTgtactaaacaaccagcataa	7	8	0	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:56237681T>C	uc010rjk.1	-	1	293	c.293A>G	c.(292-294)CAG>CGG	p.Q98R		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	98	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GAAGAAACACTGTACTAAACA	0.368													23	53	---	---	---	---	PASS	C	56237681	C	C	56237681	3	2	139	1	0	0	0	0	1	0	0	0	11175	1580	55	5	632	5	OR5M3	11	56237681	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	7061814	56237681	78768835	143	49676										
AHNAK	79026	broad.mit.edu	37	chr11	62288412	62288412	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttcaggaccttcaatgtctaCctctggccctttcagatcac	6	14	6	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:62288412C>T	uc001ntl.2	-	5	13777	c.13477G>A	c.(13477-13479)GTA>ATA	p.V4493I	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4493					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TCAATGTCTACCTCTGGCCCT	0.448													25	64	---	---	---	---	PASS	T	62288412	T	T	62288412	3	4	139	1	0	0	0	0	1	0	0	0	414	507	18	3	4315	3	AHNAK	11	62288412	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	6050731	62288412	72718104	144	49677										
CDK2AP2	10263	broad.mit.edu	37	chr11	67275064	67275064	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aggctttggccccactcaccTgcacgtagcccatggaaggc	11	15	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:67275064T>A	uc001oma.2	-	2	728	c.179A>T	c.(178-180)CAG>CTG	p.Q60L	PITPNM1_uc001oly.2_5'Flank|PITPNM1_uc001olz.2_5'Flank|CDK2AP2_uc009yry.2_RNA|CDK2AP2_uc001omb.2_Missense_Mutation_p.Q69L	NM_005851	NP_005842	O75956	CDKA2_HUMAN	cyclin-dependent kinase 2 associated protein 2	60											0						CCCACTCACCTGCACGTAGCC	0.622													12	26	---	---	---	---	PASS	A	67275064	A	A	67275064	3	1	139	1	0	0	0	0	1	0	0	0	3139	1594	55	5	213	5	CDK2AP2	11	67275064	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	4986652	67275064	67731452	145	49678										
TYR	7299	broad.mit.edu	37	chr11	89017960	89017960	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtatttttgagcagtggctcCgaaggcaccgtcctcttcaa	10	11	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:89017960C>T	uc001pcs.2	+	4	1286	c.1204C>T	c.(1204-1206)CGA>TGA	p.R402*		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	402	Lumenal, melanosome (Potential).		R -> L (in OCA1A).|R -> G (in OCA1B).		eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	GCAGTGGCTCCGAAGGCACCG	0.373									Oculocutaneous_Albinism				6	11	---	---	---	---	PASS	T	89017960	T	T	89017960	4	4	139	1	0	0	0	0	0	1	0	0	16810	644	23	1	1218	1	TYR	11	89017960	Nonsense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	21742896	89017960	45988556	146	49679										
ACAT1	38	broad.mit.edu	37	chr11	108004595	108004595	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cacccattggatcttttttaGgcagcctttccttgctgcca	7	13	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:108004595G>T	uc001pjy.2	+	3	245	c.169G>T	c.(169-171)GGC>TGC	p.G57C	ACAT1_uc001pjw.1_Missense_Mutation_p.G57C|ACAT1_uc001pjx.2_Translation_Start_Site	NM_000019	NP_000010	P24752	THIL_HUMAN	acetyl-Coenzyme A acetyltransferase 1 precursor	57					acetoacetic acid biosynthetic process|branched chain family amino acid catabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	acetyl-CoA C-acetyltransferase activity|metal ion binding			ovary(3)	3		all_cancers(61;6.41e-10)|all_epithelial(67;2.83e-06)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;2.96e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.00108)|OV - Ovarian serous cystadenocarcinoma(223;0.192)	Sulfasalazine(DB00795)	ATCTTTTTTAGGCAGCCTTTC	0.418													4	29	---	---	---	---	PASS	T	108004595	T	T	108004595	3	4	139	1	0	0	0	0	1	0	0	0	121	1000	35	3	179	3	ACAT1	11	108004595	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	18986635	108004595	27001921	147	49680										
ALG9	79796	broad.mit.edu	37	chr11	111706942	111706942	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	atgtcagtaggaacaatccgGgtggccagaggtccttctgc	13	10	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:111706942G>T	uc001pmb.2	-	14	1626	c.1527C>A	c.(1525-1527)ACC>ACA	p.T509T	ALG9_uc001ply.2_Silent_p.T338T|ALG9_uc001plz.2_Silent_p.T345T|ALG9_uc010rwm.1_Silent_p.T516T|ALG9_uc010rwn.1_Silent_p.T463T|ALG9_uc010rwo.1_Silent_p.T337T	NM_001077690	NP_001071158	Q9H6U8	ALG9_HUMAN	asparagine-linked glycosylation 9 protein	509	Lumenal (Potential).				dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			large_intestine(1)|ovary(1)	2		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;6.81e-07)|BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|all cancers(92;1.3e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0587)		GAACAATCCGGGTGGCCAGAG	0.438													5	46	---	---	---	---	PASS	T	111706942	T	T	111706942	2	4	139	1	0	0	0	0	0	0	0	1	524	1219	43	3		3	ALG9	11	111706942	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	3702347	111706942	23299574	148	49681										
OR4D5	219875	broad.mit.edu	37	chr11	123811094	123811094	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tttgtgccttgcatctacgtCtatacaaggccttttcggac	8	11	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:123811094C>A	uc001pzk.1	+	1	771	c.771C>A	c.(769-771)GTC>GTA	p.V257V		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	257	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GCATCTACGTCTATACAAGGC	0.532													25	36	---	---	---	---	PASS	A	123811094	A	A	123811094	2	1	139	1	0	0	0	0	0	0	0	1	11057	900	32	2		2	OR4D5	11	123811094	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	12104152	123811094	11195422	149	49682										
TMEM45B	120224	broad.mit.edu	37	chr11	129722407	129722407	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttcaagggccacgcgcttccAgggagtttcttcctgatcat	10	12	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:129722407A>G	uc001qfe.1	+	2	91	c.30A>G	c.(28-30)CCA>CCG	p.P10P	TMEM45B_uc001qff.1_Silent_p.P10P	NM_138788	NP_620143	Q96B21	TM45B_HUMAN	transmembrane protein 45B	10	Helical; (Potential).					integral to membrane					0	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.012)|Lung(977;0.179)|LUSC - Lung squamous cell carcinoma(976;0.189)		ACGCGCTTCCAGGGAGTTTCT	0.468													10	26	---	---	---	---	PASS	G	129722407	G	G	129722407	2	3	139	1	0	0	0	0	0	0	0	1	16167	175	7	5		5	TMEM45B	11	129722407	Silent	SNP	A	TCGA-66-2727-01A-01D-0983-08	5911313	129722407	5284109	150	49683										
ADAMTS15	170689	broad.mit.edu	37	chr11	130343024	130343024	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gcggttacaaagggctgatcGgggatgacaactacctggct	14	9	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:130343024G>T	uc010scd.1	+	8	2161	c.2161G>T	c.(2161-2163)GGG>TGG	p.G721W		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	721	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		AGGGCTGATCGGGGATGACAA	0.622													20	16	---	---	---	---	PASS	T	130343024	T	T	130343024	3	4	139	1	0	0	0	0	1	0	0	0	260	1116	39	1	2191	1	ADAMTS15	11	130343024	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	620617	130343024	4663492	151	49684										
GLB1L2	89944	broad.mit.edu	37	chr11	134239766	134239766	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	atgaagcttcgagacttcttCggctccatctcaggtaccca	8	13	2	2	rs149460505		TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr11:134239766C>A	uc001qhp.2	+	11	1283	c.1095C>A	c.(1093-1095)TTC>TTA	p.F365L	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	365					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		GAGACTTCTTCGGCTCCATCT	0.537													4	53	---	---	---	---	PASS	A	134239766	A	A	134239766	3	1	139	1	0	0	0	0	1	0	0	0	6429	883	31	2	1137	2	GLB1L2	11	134239766	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	3896742	134239766	766750	152	49685										
MFAP5	8076	broad.mit.edu	37	chr12	8813482	8813482	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctcgttgactattgacccccAggggtatccagtctatagca	9	12	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:8813482A>T	uc001qut.1	-	3	284	c.71T>A	c.(70-72)CTG>CAG	p.L24Q	MFAP5_uc001qus.2_Missense_Mutation_p.L24Q|MFAP5_uc009zge.1_Missense_Mutation_p.L24Q	NM_003480	NP_003471	Q13361	MFAP5_HUMAN	microfibrillar associated protein 5 precursor	24						microfibril	extracellular matrix structural constituent			breast(1)	1	Lung SC(5;0.184)					ATTGACCCCCAGGGGTATCCA	0.428													10	61	---	---	---	---	PASS	T	8813482	T	T	8813482	3	4	139	1	0	0	0	0	1	0	0	0	9518	188	7	5	482	5	MFAP5	12	8813482	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08		8813482	125038413	153	49686										
PZP	5858	broad.mit.edu	37	chr12	9305507	9305507	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gcacttttaaagcaaatgggGagtcctctttctctggaaga	10	8	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:9305507G>T	uc001qvl.2	-	31	4063	c.4034C>A	c.(4033-4035)TCC>TAC	p.S1345Y	PZP_uc009zgl.2_Missense_Mutation_p.S1131Y	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						AGCAAATGGGGAGTCCTCTTT	0.443													30	43	---	---	---	---	PASS	T	9305507	T	T	9305507	3	4	139	1	0	0	0	0	1	0	0	0	12869	1174	41	2	438	2	PZP	12	9305507	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	492025	9305507	124546388	154	49687										
PRB1	5542	broad.mit.edu	37	chr12	11506883	11506883	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttgtggctttcctggaggagGtggggggccctggggcttgt	20	7	0	0	rs141106766		TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:11506883G>T	uc001qzw.1	-	3	191	c.154C>A	c.(154-156)CCT>ACT	p.P52T	PRB1_uc001qzu.1_Missense_Mutation_p.P52T|PRB1_uc001qzv.1_Missense_Mutation_p.P52T	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	52						extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			CCTGGAGGAGGTGGGGGGCCC	0.577													41	130	---	---	---	---	PASS	T	11506883	T	T	11506883	3	4	139	1	0	0	0	0	1	0	0	0	12442	1261	44	3	845	3	PRB1	12	11506883	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	2201376	11506883	122345012	155	49688										
PTPRO	5800	broad.mit.edu	37	chr12	15654661	15654661	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aatccttcatgagatcacaaGatacaataggaaaagaaaaa	6	6	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:15654661G>A	uc001rcv.1	+	5	943	c.769G>A	c.(769-771)GAT>AAT	p.D257N	PTPRO_uc001rcw.1_Missense_Mutation_p.D257N|PTPRO_uc001rcu.1_Missense_Mutation_p.D257N	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	257	Fibronectin type-III 3.|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)				GAGATCACAAGATACAATAGG	0.393													11	33	---	---	---	---	PASS	A	15654661	A	A	15654661	3	1	139	1	0	0	0	0	1	0	0	0	12809	942	33	2	787	2	PTPRO	12	15654661	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	4147778	15654661	118197234	156	49689										
MLL2	8085	broad.mit.edu	37	chr12	49427160	49427160	+	Frame_Shift_Del	DEL	A	-	-													0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tggtggctgctgggaggcatAaggccctggggcttgggacc							TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:49427160delA	uc001rta.3	-	39	11328	c.11328delT	c.(11326-11328)CTTfs	p.L3776fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3776	Gln-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TGGGAGGCATAAGGCCCTGGG	0.617			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			4	2	---	---	---	---		-	49427160	-	-	49427160	7	5	139	1	0	1	0	1	0	0	0	0	9621	349	13	0	5349	0	MLL2	12	49427160	Frame_Shift_Del	DEL	A	TCGA-66-2727-01A-01D-0983-08	33772499	49427160	84424735	157	49690										
RPS26	6231	broad.mit.edu	37	chr12	56436328	56436328	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gccattaagaaattcgtcatTcgaaacatagtggaggccgc	10	9	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:56436328T>G	uc001sjf.2	+	2	388	c.123T>G	c.(121-123)ATT>ATG	p.I41M		NM_001029	NP_001020	P62854	RS26_HUMAN	ribosomal protein S26	41					endocrine pancreas development|negative regulation of RNA splicing|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	mRNA binding|protein binding|structural constituent of ribosome			breast(1)	1			OV - Ovarian serous cystadenocarcinoma(18;0.123)			AATTCGTCATTCGAAACATAG	0.557													5	33	---	---	---	---	PASS	G	56436328	G	G	56436328	3	3	139	1	0	0	0	0	1	0	0	0	13637	1771	62	5	129	5	RPS26	12	56436328	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	7009168	56436328	77415567	158	49691										
ATP5B	506	broad.mit.edu	37	chr12	57033843	57033843	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gatccatgatacgagaggtgGagtctagaggatccacagct	13	8	1	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:57033843G>T	uc001slr.2	-	8	1313	c.1208C>A	c.(1207-1209)TCC>TAC	p.S403Y		NM_001686	NP_001677	P06576	ATPB_HUMAN	mitochondrial ATP synthase beta subunit	403					angiogenesis|ATP hydrolysis coupled proton transport|regulation of intracellular pH|respiratory electron transport chain	cell surface|mitochondrial nucleoid|mitochondrial proton-transporting ATP synthase, catalytic core|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|hydrogen-exporting ATPase activity, phosphorylative mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)	1						ACGAGAGGTGGAGTCTAGAGG	0.522													5	62	---	---	---	---	PASS	T	57033843	T	T	57033843	3	4	139	1	0	0	0	0	1	0	0	0	1148	1174	41	2	393	2	ATP5B	12	57033843	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	597515	57033843	76818052	159	49692										
SLC16A7	9194	broad.mit.edu	37	chr12	60169075	60169075	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgtcacctcttgtgcccactGgcacaggactacacaagcct	8	15	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:60169075G>C	uc001sqs.2	+	5	1298	c.999G>C	c.(997-999)CTG>CTC	p.L333L	SLC16A7_uc001sqt.2_Silent_p.L333L|SLC16A7_uc001squ.2_Silent_p.L333L|SLC16A7_uc009zqi.2_Silent_p.L234L|SLC16A7_uc010ssi.1_Silent_p.L234L	NM_004731	NP_004722	O60669	MOT2_HUMAN	solute carrier family 16, member 7	333	Helical; (Potential).					integral to plasma membrane|membrane fraction	pyruvate secondary active transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(3;0.0303)	Pyruvic acid(DB00119)	TGTGCCCACTGGCACAGGACT	0.423													14	81	---	---	---	---	PASS	C	60169075	C	C	60169075	2	2	139	1	0	0	0	0	0	0	0	1	14413	1335	47	4		4	SLC16A7	12	60169075	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	3135232	60169075	73682820	160	49693										
ACSS3	79611	broad.mit.edu	37	chr12	81624881	81624881	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tcaggactctggaagaatcaGgaagcattcaagcatttata	9	7	4	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:81624881G>T	uc001szl.1	+	12	1651	c.1560G>T	c.(1558-1560)CAG>CAT	p.Q520H	ACSS3_uc001szm.1_Missense_Mutation_p.Q519H|ACSS3_uc001szn.1_Missense_Mutation_p.Q202H	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	520						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GGAAGAATCAGGAAGCATTCA	0.303													5	18	---	---	---	---	PASS	T	81624881	T	T	81624881	3	4	139	1	0	0	0	0	1	0	0	0	190	991	35	3	1606	3	ACSS3	12	81624881	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	21455806	81624881	52227014	161	49694										
PPFIA2	8499	broad.mit.edu	37	chr12	81833821	81833821	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aagaaaccctcagtcgctccCttacctagaagaaaaatcaa	5	12	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:81833821C>A	uc001szo.1	-	7	736	c.575G>T	c.(574-576)AGG>ATG	p.R192M	PPFIA2_uc010sue.1_Missense_Mutation_p.R92M|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_Intron|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	118										ovary(3)|lung(2)|pancreas(1)	6						CAGTCGCTCCCTTACCTAGAA	0.398													16	17	---	---	---	---	PASS	A	81833821	A	A	81833821	3	1	139	1	0	0	0	0	1	0	0	0	12310	681	24	3	3302	3	PPFIA2	12	81833821	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	208940	81833821	52018074	162	49695										
LRRIQ1	84125	broad.mit.edu	37	chr12	85547831	85547831	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgctcagcaaatgttgaagaGggcacagaaaatgaaatcga	11	6	1	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:85547831G>T	uc001tac.2	+	23	4790	c.4679G>T	c.(4678-4680)AGG>ATG	p.R1560M		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1560										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		ATGTTGAAGAGGGCACAGAAA	0.294													3	5	---	---	---	---	PASS	T	85547831	T	T	85547831	3	4	139	1	0	0	0	0	1	0	0	0	9029	1000	35	3	4769	3	LRRIQ1	12	85547831	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	3714010	85547831	48304064	163	49696										
RASSF9	9182	broad.mit.edu	37	chr12	86199109	86199109	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	atcctgaacatagttttctcCatcattttctactcgatcaa	3	11	4	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:86199109C>A	uc001taf.1	-	2	1018	c.679G>T	c.(679-681)GGA>TGA	p.G227*		NM_005447	NP_005438	O75901	RASF9_HUMAN	Ras association (RalGDS/AF-6) domain family	227	Potential.				endosome transport|protein targeting|signal transduction	cytosol|endosome|trans-Golgi network transport vesicle membrane	protein binding|transporter activity			ovary(1)	1						TAGTTTTCTCCATCATTTTCT	0.398													51	56	---	---	---	---	PASS	A	86199109	A	A	86199109	4	1	139	1	0	0	0	0	0	1	0	0	13093	603	21	3	632	3	RASSF9	12	86199109	Nonsense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	651278	86199109	47652786	164	49697										
C12orf63	374467	broad.mit.edu	37	chr12	97150340	97150340	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgaaaaatgatcaaaactcaGggtaaaaagatattccattg	7	5	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:97150340G>T	uc001tet.1	+	24	3298	c.3220G>T	c.(3220-3222)GGA>TGA	p.G1074*		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	1074										skin(6)|ovary(1)	7						TCAAAACTCAGGGTAAAAAGA	0.388													9	18	---	---	---	---	PASS	T	97150340	T	T	97150340	4	4	139	1	0	0	0	0	0	1	0	0	1706	1014	35	3	3310	3	C12orf63	12	97150340	Nonsense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	10951231	97150340	36701555	165	49698										
POLR3B	55703	broad.mit.edu	37	chr12	106889912	106889912	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ccggacatcatcatgaacccAcacggcttcccatcacgaat	6	16	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:106889912A>C	uc001tlp.2	+	24	3015	c.2793A>C	c.(2791-2793)CCA>CCC	p.P931P	POLR3B_uc001tlq.2_Silent_p.P873P	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	931					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						TCATGAACCCACACGGCTTCC	0.488													16	98	---	---	---	---	PASS	C	106889912	C	C	106889912	2	2	139	1	0	0	0	0	0	0	0	1	12229	146	6	5		5	POLR3B	12	106889912	Silent	SNP	A	TCGA-66-2727-01A-01D-0983-08	9739572	106889912	26961983	166	49699										
KSR2	283455	broad.mit.edu	37	chr12	118199246	118199246	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gcggatccacggggtgggctCcggggggcacacgggattgt	20	10	0	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:118199246C>A	uc001two.2	-	4	524	c.469G>T	c.(469-471)GAG>TAG	p.E157*		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	186	Pro-rich.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GGGGTGGGCTCCGGGGGGCAC	0.637													9	47	---	---	---	---	PASS	A	118199246	A	A	118199246	4	1	139	1	0	0	0	0	0	1	0	0	8582	864	30	2	2364	2	KSR2	12	118199246	Nonsense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	11309334	118199246	15652649	167	49700										
RIMBP2	23504	broad.mit.edu	37	chr12	130897317	130897317	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	acggtagaatccatcagcgtCtttatcaccataaacctaga	6	11	3	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:130897317C>A	uc001uil.2	-	15	2832	c.2668G>T	c.(2668-2670)GAC>TAC	p.D890Y		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	890	SH3 2.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		CCATCAGCGTCTTTATCACCA	0.448													17	29	---	---	---	---	PASS	A	130897317	A	A	130897317	3	1	139	1	0	0	0	0	1	0	0	0	13363	913	32	2	510	2	RIMBP2	12	130897317	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	12698071	130897317	2954578	168	49701										
EP400	57634	broad.mit.edu	37	chr12	132516566	132516566	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctctccactcacagccgtacCacaggtataaaccttgtaga	6	14	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr12:132516566C>A	uc001ujn.2	+	29	5858	c.5823C>A	c.(5821-5823)ACC>ACA	p.T1941T	EP400_uc001ujl.2_Silent_p.T1940T|EP400_uc001ujm.2_Silent_p.T1860T	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1977	Helicase C-terminal.				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		ACAGCCGTACCACAGGTATAA	0.463													6	126	---	---	---	---	PASS	A	132516566	A	A	132516566	2	1	139	1	0	0	0	0	0	0	0	1	5149	581	21	3		3	EP400	12	132516566	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	1619249	132516566	1335329	169	49702										
KBTBD6	89890	broad.mit.edu	37	chr13	41706151	41706151	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agttggtcaggtcaagacgtCgggctaagaaggaggcacag	16	7	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr13:41706151C>A	uc001uxu.1	-	1	786	c.497G>T	c.(496-498)CGA>CTA	p.R166L	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.R100L|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	166							protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		GTCAAGACGTCGGGCTAAGAA	0.582													25	26	---	---	---	---	PASS	A	41706151	A	A	41706151	3	1	139	1	0	0	0	0	1	0	0	0	7997	884	31	2	1531	2	KBTBD6	13	41706151	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08		41706151	73463727	170	49703										
KCTD4	386618	broad.mit.edu	37	chr13	45768460	45768460	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgcctgaagaggagaccatcCctgtctatgaaataatgacc	9	10	1	5			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr13:45768460C>G	uc001uzx.3	-	2	647	c.243G>C	c.(241-243)AGG>AGC	p.R81S	GTF2F2_uc001uzv.2_Intron|GTF2F2_uc001uzw.2_Intron	NM_198404	NP_940686	Q8WVF5	KCTD4_HUMAN	potassium channel tetramerisation domain	81	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		Lung NSC(96;6.55e-05)|Breast(139;0.00378)|Prostate(109;0.00438)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000249)|BRCA - Breast invasive adenocarcinoma(63;0.207)		GGAGACCATCCCTGTCTATGA	0.428													20	41	---	---	---	---	PASS	G	45768460	G	G	45768460	3	3	139	1	0	0	0	0	1	0	0	0	8111	622	22	4	540	4	KCTD4	13	45768460	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	4062309	45768460	69401418	171	49704										
ERCC5	2073	broad.mit.edu	37	chr13	103515036	103515036	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cagtggttagacatagtgacGcacctgggctcccgaatgga	13	10	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr13:103515036G>A	uc001vpw.2	+	8	1980	c.1537G>A	c.(1537-1539)GCA>ACA	p.A513T	ERCC5_uc001vpu.1_Missense_Mutation_p.A967T|ERCC5_uc010tjb.1_Missense_Mutation_p.A513T|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Missense_Mutation_p.A345T	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	513					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					ACATAGTGACGCACCTGGGCT	0.488			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				5	32	---	---	---	---	PASS	A	103515036	A	A	103515036	3	1	139	1	0	0	0	0	1	0	0	0	5216	1087	38	1	1567	1	ERCC5	13	103515036	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	57746576	103515036	11654842	172	49705										
OR4L1	122742	broad.mit.edu	37	chr14	20528227	20528227	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gatcttaaaaatggatctctAgtgaccgagtttattttact	7	6	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr14:20528227A>G	uc001vwn.1	+	1	24	c.24A>G	c.(22-24)CTA>CTG	p.L8L		NM_001004717	NP_001004717	Q8NH43	OR4L1_HUMAN	olfactory receptor, family 4, subfamily L,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		ATGGATCTCTAGTGACCGAGT	0.338													20	26	---	---	---	---	PASS	G	20528227	G	G	20528227	2	3	139	1	0	0	0	0	0	0	0	1	11074	407	15	5		5	OR4L1	14	20528227	Silent	SNP	A	TCGA-66-2727-01A-01D-0983-08		20528227	86821313	173	49706										
RALGAPA1	253959	broad.mit.edu	37	chr14	36159126	36159126	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctgctcctcattcaaagcacCaaaaacttcatttccagttt	3	13	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr14:36159126C>A	uc001wti.2	-	17	2741	c.2350G>T	c.(2350-2352)GGT>TGT	p.G784C	RALGAPA1_uc001wtj.2_Missense_Mutation_p.G784C|RALGAPA1_uc010tpv.1_Missense_Mutation_p.G784C|RALGAPA1_uc010tpw.1_Missense_Mutation_p.G831C|RALGAPA1_uc001wtk.1_Missense_Mutation_p.G682C	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	784					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						TTCAAAGCACCAAAAACTTCA	0.408													4	35	---	---	---	---	PASS	A	36159126	A	A	36159126	3	1	139	1	0	0	0	0	1	0	0	0	13013	594	21	3	4009	3	RALGAPA1	14	36159126	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	15630899	36159126	71190414	174	49707										
C14orf28	122525	broad.mit.edu	37	chr14	45369749	45369749	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggtgtttttactatcaaagcTggccgcaaagcagtatcctg	10	9	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr14:45369749T>G	uc001wvo.2	+	2	377	c.111T>G	c.(109-111)GCT>GCG	p.A37A	C14orf28_uc001wvp.1_Silent_p.A37A	NM_001017923	NP_001017923	Q4W4Y0	CN028_HUMAN	hypothetical protein LOC122525	37										ovary(1)	1						CTATCAAAGCTGGCCGCAAAG	0.363													12	27	---	---	---	---	PASS	G	45369749	G	G	45369749	2	3	139	1	0	0	0	0	0	0	0	1	1770	1567	55	5		5	C14orf28	14	45369749	Silent	SNP	T	TCGA-66-2727-01A-01D-0983-08	9210623	45369749	61979791	175	49708										
AK7	122481	broad.mit.edu	37	chr14	96864475	96864475	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cagaggaagaggaagaggaaGatgaaaataagtcagctatg	14	3	1	5			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr14:96864475G>A	uc001yfn.2	+	2	213	c.169G>A	c.(169-171)GAT>AAT	p.D57N	AK7_uc001yfm.1_Missense_Mutation_p.D57N	NM_152327	NP_689540	Q96M32	KAD7_HUMAN	adenylate kinase 7	57	Poly-Glu.|Potential.				cell projection organization	cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity			ovary(1)	1		all_cancers(154;0.0482)|all_epithelial(191;0.128)|Melanoma(154;0.155)		Epithelial(152;0.134)|COAD - Colon adenocarcinoma(157;0.228)		GGAAGAGGAAGATGAAAATAA	0.468													16	77	---	---	---	---	PASS	A	96864475	A	A	96864475	3	1	139	1	0	0	0	0	1	0	0	0	444	942	33	2	175	2	AK7	14	96864475	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	51494726	96864475	10485065	176	49709										
C15orf2	23742	broad.mit.edu	37	chr15	24921171	24921171	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctttccgcggcctgttccgcCggaacgcccgtcgcaggcct	12	18	0	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr15:24921171C>A	uc001ywo.2	+	1	631	c.157C>A	c.(157-159)CGG>AGG	p.R53R		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	53					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CCTGTTCCGCCGGAACGCCCG	0.756													8	16	---	---	---	---	PASS	A	24921171	A	A	24921171	2	1	139	1	0	0	0	0	0	0	0	1	1784	643	23	1		1	C15orf2	15	24921171	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08		24921171	77610221	177	49710										
BUB1B	701	broad.mit.edu	37	chr15	40462841	40462841	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cactacaaggagaaaaacgaTattatagtgatcctcgattt	7	7	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr15:40462841T>C	uc001zkx.3	+	4	555	c.343T>C	c.(343-345)TAT>CAT	p.Y115H		NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	115	BUB1 N-terminal.|Nuclear localization signal (Potential).				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		AGAAAAACGATATTATAGTGA	0.363			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				12	32	---	---	---	---	PASS	C	40462841	C	C	40462841	3	2	139	1	0	0	0	0	1	0	0	0	1571	1406	49	5	357	5	BUB1B	15	40462841	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	15541670	40462841	62068551	178	49711										
UNC13C	440279	broad.mit.edu	37	chr15	54305912	54305912	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agggcacgtcaatgctctcaAgcactccatcgatgagatct	9	12	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr15:54305912A>G	uc002ack.2	+	1	812	c.812A>G	c.(811-813)AAG>AGG	p.K271R		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	271					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AATGCTCTCAAGCACTCCATC	0.453													52	71	---	---	---	---	PASS	G	54305912	G	G	54305912	3	3	139	1	0	0	0	0	1	0	0	0	16983	72	3	5	814	5	UNC13C	15	54305912	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	13843071	54305912	48225480	179	49712										
SCAPER	49855	broad.mit.edu	37	chr15	77092589	77092589	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tttttcttagttcatctcacCcaaaatttaagcttcgtcga	4	10	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr15:77092589C>A	uc002bby.2	-	6	670	c.611G>T	c.(610-612)GGA>GTA	p.G204V	SCAPER_uc002bbx.2_5'UTR|SCAPER_uc002bbz.1_Missense_Mutation_p.G69V|SCAPER_uc002bca.1_Missense_Mutation_p.G69V|SCAPER_uc002bcb.1_Missense_Mutation_p.G204V|SCAPER_uc002bcc.1_Missense_Mutation_p.G204V	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	203						endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						TTCATCTCACCCAAAATTTAA	0.318													11	24	---	---	---	---	PASS	A	77092589	A	A	77092589	3	1	139	1	0	0	0	0	1	0	0	0	13878	637	22	3	3733	3	SCAPER	15	77092589	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	22786677	77092589	25438803	180	49713										
PSTPIP1	9051	broad.mit.edu	37	chr15	77328172	77328172	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agaccctgacccccacccccGagcggaatgagggtgtctac	11	16	1	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr15:77328172G>A	uc002bcf.2	+	14	1465	c.1015G>A	c.(1015-1017)GAG>AAG	p.E339K	PSTPIP1_uc010bkt.1_RNA|PSTPIP1_uc010bku.1_Missense_Mutation_p.E330K|PSTPIP1_uc002bcg.2_Missense_Mutation_p.E336K|PSTPIP1_uc010bkw.1_Missense_Mutation_p.E320K|PSTPIP1_uc002bch.1_Missense_Mutation_p.E100K|PSTPIP1_uc002bci.1_RNA	NM_003978	NP_003969	O43586	PPIP1_HUMAN	proline-serine-threonine phosphatase interacting	339					cell adhesion|signal transduction	cleavage furrow|lamellipodium|perinuclear region of cytoplasm	catalytic activity			ovary(1)	1						CCCCACCCCCGAGCGGAATGA	0.607													6	16	---	---	---	---	PASS	A	77328172	A	A	77328172	3	1	139	1	0	0	0	0	1	0	0	0	12721	1059	37	2	1069	2	PSTPIP1	15	77328172	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	235583	77328172	25203220	181	49714										
PCSK6	5046	broad.mit.edu	37	chr15	101933589	101933589	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ccccctctctcccgccattcCcagatgcccagacgaaaatg	6	19	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr15:101933589C>A	uc002bwy.2	-	9	1351	c.1037G>T	c.(1036-1038)GGG>GTG	p.G346V	PCSK6_uc010bpd.2_Missense_Mutation_p.G216V|PCSK6_uc010bpe.2_Missense_Mutation_p.G346V|PCSK6_uc002bxa.2_Missense_Mutation_p.G346V|PCSK6_uc002bxb.2_Missense_Mutation_p.G346V|PCSK6_uc002bxc.1_Missense_Mutation_p.G346V|PCSK6_uc002bxd.1_Missense_Mutation_p.G346V|PCSK6_uc002bxe.2_Missense_Mutation_p.G346V|PCSK6_uc002bxg.1_Missense_Mutation_p.G346V	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	346	Catalytic.				glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CCCGCCATTCCCAGATGCCCA	0.622													14	16	---	---	---	---	PASS	A	101933589	A	A	101933589	3	1	139	1	0	0	0	0	1	0	0	0	11604	623	22	3	2411	3	PCSK6	15	101933589	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	24605417	101933589	597803	182	49715										
MSLNL	401827	broad.mit.edu	37	chr16	825541	825541	+	Frame_Shift_Del	DEL	C	-	-													0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ccctcgtgactctggactcgCcgtggcagcccgtgggcgcc							TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr16:825541delC	uc002cjz.1	-	5	1220	c.1220delG	c.(1219-1221)GGCfs	p.G407fs		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				breast(3)|ovary(1)	4						TCTGGACTCGCCGTGGCAGCC	0.697													10	7	---	---	---	---		-	825541	-	-	825541	7	5	139	1	0	1	0	1	0	0	0	0	9882	739	26	0	1989	0	MSLNL	16	825541	Frame_Shift_Del	DEL	C	TCGA-66-2727-01A-01D-0983-08		825541	89529212	183	49716										
PKD1	5310	broad.mit.edu	37	chr16	2141865	2141865	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aggcccagctcctgcacgtaGcccccgctgtcatacacggc	10	18	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr16:2141865G>A	uc002cos.1	-	41	11663	c.11454C>T	c.(11452-11454)GGC>GGT	p.G3818G	PKD1_uc002cot.1_Silent_p.G3817G|MIR1225_hsa-mir-1225|MI0006311_5'Flank|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	3818	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CCTGCACGTAGCCCCCGCTGT	0.711													3	3	---	---	---	---	PASS	A	2141865	A	A	2141865	2	1	139	1	0	0	0	0	0	0	0	1	11963	958	34	3		3	PKD1	16	2141865	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	1316324	2141865	88212888	184	49717										
SRRM2	23524	broad.mit.edu	37	chr16	2816580	2816580	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tcaccagtgacacgccgccgCtctaggtcccggacacctcc	9	19	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr16:2816580C>T	uc002crk.2	+	11	6600	c.6051C>T	c.(6049-6051)CGC>CGT	p.R2017R	SRRM2_uc002crj.1_Silent_p.R1921R|SRRM2_uc002crl.1_Silent_p.R2017R|SRRM2_uc010bsu.1_Silent_p.R1921R	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2017	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CACGCCGCCGCTCTAGGTCCC	0.582													6	29	---	---	---	---	PASS	T	2816580	T	T	2816580	2	4	139	1	0	0	0	0	0	0	0	1	15168	784	28	3		3	SRRM2	16	2816580	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	674715	2816580	87538173	185	49718										
ACSM5	54988	broad.mit.edu	37	chr16	20430682	20430682	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggatgccatcagtgccgaatGcccctccctccagaccaagc	9	17	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr16:20430682G>A	uc002dhe.2	+	4	695	c.548G>A	c.(547-549)TGC>TAC	p.C183Y	ACSM5_uc002dhd.1_Missense_Mutation_p.C183Y	NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	183					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2						AGTGCCGAATGCCCCTCCCTC	0.592													13	23	---	---	---	---	PASS	A	20430682	A	A	20430682	3	1	139	1	0	0	0	0	1	0	0	0	187	1319	46	3	558	3	ACSM5	16	20430682	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	17614102	20430682	69924071	186	49719										
GTF3C1	2975	broad.mit.edu	37	chr16	27518417	27518417	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ccggcttaggtcgctctcctCtgcaaacacgcaggaaatgt	10	13	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr16:27518417C>A	uc002dov.1	-	9	1343	c.1303G>T	c.(1303-1305)GAG>TAG	p.E435*	GTF3C1_uc002dou.2_Nonsense_Mutation_p.E435*	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	435						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TCGCTCTCCTCTGCAAACACG	0.557													10	27	---	---	---	---	PASS	A	27518417	A	A	27518417	4	1	139	1	0	0	0	0	0	1	0	0	6872	922	32	2	5142	2	GTF3C1	16	27518417	Nonsense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	7087735	27518417	62836336	187	49720										
ABCC12	94160	broad.mit.edu	37	chr16	48142361	48142361	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tatactgaacctccagaagcCttaatgtacgtgtgatatgt	8	8	0	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr16:48142361C>A	uc002efc.1	-	17	2707	c.2361G>T	c.(2359-2361)AAG>AAT	p.K787N	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	787						integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CTCCAGAAGCCTTAATGTACG	0.398													4	31	---	---	---	---	PASS	A	48142361	A	A	48142361	3	1	139	1	0	0	0	0	1	0	0	0	52	680	24	3	1770	3	ABCC12	16	48142361	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	20623944	48142361	42212392	188	49721										
RBL2	5934	broad.mit.edu	37	chr16	53524121	53524121	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aattcttttggaagatggaaGtgaatcacctgcaaaaagaa	9	5	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr16:53524121G>A	uc002ehi.3	+	22	3447	c.3329G>A	c.(3328-3330)AGT>AAT	p.S1110N	RBL2_uc002ehj.2_Missense_Mutation_p.S820N|RBL2_uc010vgw.1_Missense_Mutation_p.S489N	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	1110					cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						GAAGATGGAAGTGAATCACCT	0.403													7	42	---	---	---	---	PASS	A	53524121	A	A	53524121	3	1	139	1	0	0	0	0	1	0	0	0	13110	1029	36	3	3415	3	RBL2	16	53524121	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	5381760	53524121	36830632	189	49722										
DPEP2	64174	broad.mit.edu	37	chr16	68023977	68023977	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agtggacacattggctgatgGgttgcactgtattactccca	11	9	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr16:68023977G>T	uc010cey.2	-	7	1131	c.967C>A	c.(967-969)CCA>ACA	p.P323T	DPEP2_uc002evd.3_Missense_Mutation_p.P323T|DPEP2_uc002eve.2_Missense_Mutation_p.P323T|DPEP2_uc002evf.2_RNA	NM_022355	NP_071750	Q9H4A9	DPEP2_HUMAN	dipeptidase 2 precursor	323					hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|proteolysis	anchored to membrane|plasma membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0489)|all cancers(182;0.239)		TTGGCTGATGGGTTGCACTGT	0.572													6	85	---	---	---	---	PASS	T	68023977	T	T	68023977	3	4	139	1	0	0	0	0	1	0	0	0	4714	1232	43	3	509	3	DPEP2	16	68023977	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	14499856	68023977	22330776	190	49723										
TP53	7157	broad.mit.edu	37	chr17	7577580	7577580	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aactgttacacatgtagttgTagtggatggtggtacagtca	12	5	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr17:7577580T>C	uc002gim.2	-	7	895	c.701A>G	c.(700-702)TAC>TGC	p.Y234C	TP53_uc002gig.1_Missense_Mutation_p.Y234C|TP53_uc002gih.2_Missense_Mutation_p.Y234C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y102C|TP53_uc010cng.1_Missense_Mutation_p.Y102C|TP53_uc002gii.1_Missense_Mutation_p.Y102C|TP53_uc010cnh.1_Missense_Mutation_p.Y234C|TP53_uc010cni.1_Missense_Mutation_p.Y234C|TP53_uc002gij.2_Missense_Mutation_p.Y234C|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.Y141C|TP53_uc002gio.2_Missense_Mutation_p.Y102C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	234	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> F (in a sporadic cancer; somatic mutation).|Y -> K (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|Y -> N (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Y -> S (in sporadic cancers; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).|Y -> Q (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.Y234C(70)|p.Y234H(13)|p.Y234N(11)|p.0?(7)|p.Y234S(6)|p.Y234*(4)|p.Y234D(3)|p.Y234del(3)|p.Y234fs*2(1)|p.V225fs*23(1)|p.Y234fs*6(1)|p.Y234fs*5(1)|p.Y234fs*4(1)|p.Y234R(1)|p.Y234Y(1)|p.H233_C242del10(1)|p.D228fs*12(1)|p.Y234F(1)|p.I232_Y236delIHYNY(1)|p.Y141S(1)|p.T230_Y234delTTIHY(1)|p.H233fs*6(1)|p.Y234_N235insX(1)|p.I232fs*5(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)		CATGTAGTTGTAGTGGATGGT	0.572		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)			23	10	---	---	---	---	PASS	C	7577580	C	C	7577580	3	2	139	1	0	0	0	0	1	0	0	0	16378	1638	57	5	589	5	TP53	17	7577580	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08		7577580	73617630	191	49724										
MAP2K3	5606	broad.mit.edu	37	chr17	21204224	21204224	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aactcacaggagcagaagcgGctgctcatggacctggacat	12	11	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr17:21204224G>A	uc002gys.2	+	5	583	c.318G>A	c.(316-318)CGG>CGA	p.R106R	MAP2K3_uc002gyt.2_Silent_p.R77R|MAP2K3_uc002gyu.2_Silent_p.R77R	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	106	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|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|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		AGCAGAAGCGGCTGCTCATGG	0.582													5	32	---	---	---	---	PASS	A	21204224	A	A	21204224	2	1	139	1	0	0	0	0	0	0	0	1	9238	1190	42	3		3	MAP2K3	17	21204224	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	13626644	21204224	59990986	192	49725										
ACACA	31	broad.mit.edu	37	chr17	35591902	35591902	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtactcacaataagcattgtGaccagaagattcttcttggt	8	8	3	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr17:35591902G>A	uc002hnm.2	-	25	3314	c.3123C>T	c.(3121-3123)GTC>GTT	p.V1041V	ACACA_uc002hnk.2_Silent_p.V963V|ACACA_uc002hnl.2_Silent_p.V983V|ACACA_uc002hnn.2_Silent_p.V1041V|ACACA_uc002hno.2_Silent_p.V1078V|ACACA_uc010cuz.2_Silent_p.V1041V	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1041					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	TAAGCATTGTGACCAGAAGAT	0.378													10	38	---	---	---	---	PASS	A	35591902	A	A	35591902	2	1	139	1	0	0	0	0	0	0	0	1	106	1277	45	2		2	ACACA	17	35591902	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	14387678	35591902	45603308	193	49726										
CACNB1	782	broad.mit.edu	37	chr17	37333659	37333659	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggctgcggtagccatggtgcGgttcagcagcggattgggtg	19	8	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr17:37333659G>T	uc002hrm.1	-	13	1429	c.1276C>A	c.(1276-1278)CGC>AGC	p.R426S	CACNB1_uc002hrl.1_Missense_Mutation_p.R198S|CACNB1_uc002hrn.2_Missense_Mutation_p.R426S|CACNB1_uc002hro.2_Missense_Mutation_p.R471S	NM_000723	NP_000714	Q02641	CACB1_HUMAN	calcium channel, voltage-dependent, beta 1	426					axon guidance	voltage-gated calcium channel complex				large_intestine(1)|ovary(1)	2					Ibutilide(DB00308)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Verapamil(DB00661)	GCCATGGTGCGGTTCAGCAGC	0.637													3	3	---	---	---	---	PASS	T	37333659	T	T	37333659	3	4	139	1	0	0	0	0	1	0	0	0	2552	1116	39	1	633	1	CACNB1	17	37333659	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	1741757	37333659	43861551	194	49727										
ITGB3	3690	broad.mit.edu	37	chr17	45369758	45369758	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtgctcagaggaggactatcGcccttcccagcaggacgaat	12	12	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr17:45369758G>A	uc002ilj.2	+	10	1534	c.1514G>A	c.(1513-1515)CGC>CAC	p.R505H	ITGB3_uc010wkr.1_RNA	NM_000212	NP_000203	P05106	ITB3_HUMAN	integrin beta chain, beta 3 precursor	505	I.|Extracellular (Potential).|Cysteine-rich tandem repeats.				activation of protein kinase activity|angiogenesis involved in wound healing|axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|platelet activation|platelet degranulation|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|regulation of bone resorption|smooth muscle cell migration|tube development	alphav-beta3 integrin-vitronectin complex|integrin complex|platelet alpha granule membrane	cell adhesion molecule binding|identical protein binding|platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			central_nervous_system(5)|large_intestine(1)	6					Abciximab(DB00054)|Tirofiban(DB00775)	GAGGACTATCGCCCTTCCCAG	0.627													20	27	---	---	---	---	PASS	A	45369758	A	A	45369758	3	1	139	1	0	0	0	0	1	0	0	0	7895	1087	38	1	1552	1	ITGB3	17	45369758	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	8036099	45369758	35825452	195	49728										
C17orf57	124989	broad.mit.edu	37	chr17	45447834	45447834	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtggatattggggatattatAtttactttgaatgagctaca	10	3	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr17:45447834A>G	uc002iln.2	+	11	1248	c.837A>G	c.(835-837)ATA>ATG	p.I279M	C17orf57_uc002ilm.2_Missense_Mutation_p.I183M|C17orf57_uc002ill.1_Missense_Mutation_p.I35M|C17orf57_uc010daz.1_Missense_Mutation_p.I231M	NM_152347	NP_689560	Q8IY85	CQ057_HUMAN	hypothetical protein LOC124989	279							calcium ion binding			breast(1)|central_nervous_system(1)|skin(1)	3						GGGATATTATATTTACTTTGA	0.299													13	28	---	---	---	---	PASS	G	45447834	G	G	45447834	3	3	139	1	0	0	0	0	1	0	0	0	1865	439	16	5	867	5	C17orf57	17	45447834	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	78076	45447834	35747376	196	49729										
KCNJ16	3773	broad.mit.edu	37	chr17	68129006	68129006	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttgtccatgaaattgaccatGagagccctctgtatgccctt	8	11	1	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr17:68129006G>T	uc002jin.2	+	5	1264	c.778G>T	c.(778-780)GAG>TAG	p.E260*	KCNJ16_uc002jio.2_Nonsense_Mutation_p.E260*|KCNJ16_uc002jip.2_Nonsense_Mutation_p.E260*|KCNJ16_uc002jiq.2_Nonsense_Mutation_p.E292*	NM_018658	NP_061128	Q9NPI9	IRK16_HUMAN	potassium inwardly-rectifying channel J16	260	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Breast(10;2.96e-09)					AATTGACCATGAGAGCCCTCT	0.438													6	124	---	---	---	---	PASS	T	68129006	T	T	68129006	4	4	139	1	0	0	0	0	0	1	0	0	8050	1291	45	2	780	2	KCNJ16	17	68129006	Nonsense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	22681172	68129006	13066204	197	49730										
ITGB4	3691	broad.mit.edu	37	chr17	73736921	73736921	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggtgtacacaagctccagcaGaccaagttccggtgagtccc	11	13	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr17:73736921G>T	uc002jpg.2	+	22	2785	c.2598G>T	c.(2596-2598)CAG>CAT	p.Q866H	ITGB4_uc002jph.2_Missense_Mutation_p.Q866H|ITGB4_uc010dgo.2_Missense_Mutation_p.Q866H|ITGB4_uc002jpi.3_Missense_Mutation_p.Q866H|ITGB4_uc010dgp.1_Missense_Mutation_p.D879Y|ITGB4_uc002jpj.2_Missense_Mutation_p.Q866H	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	866	Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			AGCTCCAGCAGACCAAGTTCC	0.682													12	45	---	---	---	---	PASS	T	73736921	T	T	73736921	3	4	139	1	0	0	0	0	1	0	0	0	7897	933	33	2	2680	2	ITGB4	17	73736921	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	5607915	73736921	7458289	198	49731										
QRICH2	84074	broad.mit.edu	37	chr17	74287768	74287768	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gccgtattgttctctgccagGaggtaccataccatgttgat	10	10	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr17:74287768G>T	uc002jrd.1	-	4	2722	c.2542C>A	c.(2542-2544)CCT>ACT	p.P848T	QRICH2_uc010wsz.1_Missense_Mutation_p.P774T|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	848							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						TCTCTGCCAGGAGGTACCATA	0.473													5	64	---	---	---	---	PASS	T	74287768	T	T	74287768	3	4	139	1	0	0	0	0	1	0	0	0	12880	1174	41	2	2513	2	QRICH2	17	74287768	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	550847	74287768	6907442	199	49732										
SLC25A10	1468	broad.mit.edu	37	chr17	79671373	79671373	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cccctggataacgcccccaaGgagtacccccccaagataca	7	18	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr17:79671373G>T	uc010wut.1	+	2	299	c.174G>T	c.(172-174)AAG>AAT	p.K58N	MRPL12_uc002kbh.1_Missense_Mutation_p.K58N	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	Error:Variant_position_missing_in_Q9UBX3_after_alignment					gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)	ACGCCCCCAAGGAGTACCCCC	0.602													7	17	---	---	---	---	PASS	T	79671373	T	T	79671373	3	4	139	1	0	0	0	0	1	0	0	0	14472	991	35	3		3	SLC25A10	17	79671373	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	5383605	79671373	1523837	200	49733										
NDC80	10403	broad.mit.edu	37	chr18	2577814	2577814	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tctgagaaaatcaaggacccGagaccacttaatgacaaagc	8	10	2	3	rs148077669		TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr18:2577814G>T	uc002kli.2	+	4	431	c.249G>T	c.(247-249)CCG>CCT	p.P83P		NM_006101	NP_006092	O14777	NDC80_HUMAN	kinetochore associated 2	83	Interaction with the N-terminus of CDCA1.|Nuclear localization.				attachment of spindle microtubules to kinetochore|cell division|establishment of mitotic spindle orientation|mitotic prometaphase|mitotic sister chromatid segregation|mitotic spindle organization|phosphatidylinositol-mediated signaling	condensed nuclear chromosome outer kinetochore|cytosol|Ndc80 complex	protein binding			ovary(1)	1						TCAAGGACCCGAGACCACTTA	0.363													5	76	---	---	---	---	PASS	T	2577814	T	T	2577814	2	4	139	1	0	0	0	0	0	0	0	1	10242	1045	37	2		2	NDC80	18	2577814	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08		2577814	75499434	201	49734										
LAMA3	3909	broad.mit.edu	37	chr18	21422480	21422480	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggtggatggcgggtggccacGggcaggtgagctgcagtgag	22	7	0	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr18:21422480G>T	uc002kuq.2	+	28	3544	c.3458G>T	c.(3457-3459)CGG>CTG	p.R1153L	LAMA3_uc002kur.2_Missense_Mutation_p.R1153L	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1153	Domain IV 1 (domain IV B).				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGGTGGCCACGGGCAGGTGAG	0.607													16	34	---	---	---	---	PASS	T	21422480	T	T	21422480	3	4	139	1	0	0	0	0	1	0	0	0	8607	1116	39	1	3568	1	LAMA3	18	21422480	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	18844666	21422480	56654768	202	49735										
ZCCHC2	54877	broad.mit.edu	37	chr18	60223502	60223502	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtacacagcttctttcagtcCatatcatcagactccctaca	4	14	4	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr18:60223502C>T	uc002lip.3	+	6	1380	c.1380C>T	c.(1378-1380)TCC>TCT	p.S460S	ZCCHC2_uc002lio.2_RNA	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	460					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding			lung(1)|prostate(1)	2						TCTTTCAGTCCATATCATCAG	0.358													9	23	---	---	---	---	PASS	T	60223502	T	T	60223502	2	4	139	1	0	0	0	0	0	0	0	1	17584	581	21	3		3	ZCCHC2	18	60223502	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	38801022	60223502	17853746	203	49736										
LRG1	116844	broad.mit.edu	37	chr19	4538521	4538521	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agctttcaggccgtgtagccAcgagacctccaggacctcca	10	15	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:4538521A>C	uc002mau.2	-	2	486	c.475T>G	c.(475-477)TGG>GGG	p.W159G	PLIN5_uc002mat.1_Intron	NM_052972	NP_443204	P02750	A2GL_HUMAN	leucine-rich alpha-2-glycoprotein 1 precursor	159	LRR 3.					extracellular region|membrane				ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGTGTAGCCACGAGACCTCC	0.652													29	41	---	---	---	---	PASS	C	4538521	C	C	4538521	3	2	139	1	0	0	0	0	1	0	0	0	8942	159	6	5	572	5	LRG1	19	4538521	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08		4538521	54590462	204	49737										
MUC16	94025	broad.mit.edu	37	chr19	9025609	9025609	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	acctgagcaaggtcaatctgCagccagagtacagagggcca	12	11	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:9025609C>A	uc002mkp.2	-	15	37049	c.36845G>T	c.(36844-36846)TGC>TTC	p.C12282F		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12284	SEA 2.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTCAATCTGCAGCCAGAGTA	0.512													24	63	---	---	---	---	PASS	A	9025609	A	A	9025609	3	1	139	1	0	0	0	0	1	0	0	0	9973	710	25	3	6958	3	MUC16	19	9025609	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	4487088	9025609	50103374	205	49738										
CALR	811	broad.mit.edu	37	chr19	13051633	13051633	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	acccagaaattgacaaccccGagtattctcccgatcccagt	6	15	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:13051633G>T	uc002mvu.2	+	7	972	c.892G>T	c.(892-894)GAG>TAG	p.E298*	CALR_uc002mvv.2_5'Flank	NM_004343	NP_004334	P27797	CALR_HUMAN	calreticulin precursor	298	P-domain.				cell cycle arrest|cellular senescence|glucocorticoid receptor signaling pathway|negative regulation of neuron differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of steroid hormone receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of translation|peptide antigen assembly with MHC class I protein complex|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of phagocytosis|post-translational protein modification|protein export from nucleus|protein maturation by protein folding|protein N-linked glycosylation via asparagine|protein stabilization|regulation of apoptosis|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|extracellular space|MHC class I peptide loading complex|nucleus|perinuclear region of cytoplasm|polysome|proteinaceous extracellular matrix	androgen receptor binding|calcium ion binding|chaperone binding|complement component C1q binding|DNA binding|integrin binding|mRNA binding|protein binding involved in protein folding|sugar binding|ubiquitin protein ligase binding|unfolded protein binding|zinc ion binding			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGACAACCCCGAGTATTCTCC	0.542													4	56	---	---	---	---	PASS	T	13051633	T	T	13051633	4	4	139	1	0	0	0	0	0	1	0	0	2592	1059	37	2	918	2	CALR	19	13051633	Nonsense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	4026024	13051633	46077350	206	49739										
INSL3	3640	broad.mit.edu	37	chr19	17927797	17927797	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	caggggctgcaggccaggtcCcagcgtgagattactgtcgg	16	11	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:17927797C>A	uc002nhm.1	-	2	267	c.262G>T	c.(262-264)GGA>TGA	p.G88*	INSL3_uc010ebf.1_Missense_Mutation_p.W119C|INSL3_uc010ebg.1_RNA	NM_005543	NP_005534	P51460	INSL3_HUMAN	insulin-like 3 precursor	88					cell-cell signaling|spermatogenesis	soluble fraction	hormone activity|insulin receptor binding|signal transducer activity				0						AGGCCAGGTCCCAGCGTGAGA	0.622													8	18	---	---	---	---	PASS	A	17927797	A	A	17927797	4	1	139	1	0	0	0	0	0	1	0	0	7767	632	22	3	137	3	INSL3	19	17927797	Nonsense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	4876164	17927797	41201186	207	49740										
SLC5A5	6528	broad.mit.edu	37	chr19	17983413	17983413	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tggatgtgcctgggccagctTctgaactcggtcctcaccgc	12	14	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:17983413T>A	uc002nhr.3	+	1	632	c.285T>A	c.(283-285)CTT>CTA	p.L95L		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	95	Helical; (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						TGGGCCAGCTTCTGAACTCGG	0.652													10	4	---	---	---	---	PASS	A	17983413	A	A	17983413	2	1	139	1	0	0	0	0	0	0	0	1	14668	1770	62	5		5	SLC5A5	19	17983413	Silent	SNP	T	TCGA-66-2727-01A-01D-0983-08	55616	17983413	41145570	208	49741										
NCAN	1463	broad.mit.edu	37	chr19	19337671	19337671	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cctaggagaagggggcgcttCaaagggttgaatgggcgcta	17	7	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:19337671C>T	uc002nlz.2	+	7	1548	c.1449C>T	c.(1447-1449)TTC>TTT	p.F483F	NCAN_uc010ecc.1_Silent_p.F47F	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	483					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GGGGGCGCTTCAAAGGGTTGA	0.672													17	20	---	---	---	---	PASS	T	19337671	T	T	19337671	2	4	139	1	0	0	0	0	0	0	0	1	10204	825	29	2		2	NCAN	19	19337671	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	1354258	19337671	39791312	209	49742										
ZNF14	7561	broad.mit.edu	37	chr19	19823162	19823162	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gaaggcttttccacattcttTacattcatagggtttctctc	6	10	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:19823162T>C	uc002nnk.1	-	4	1082	c.928A>G	c.(928-930)AAA>GAA	p.K310E		NM_021030	NP_066358	P17017	ZNF14_HUMAN	zinc finger protein 14	310	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Renal(1328;0.0474)				CCACATTCTTTACATTCATAG	0.378													10	30	---	---	---	---	PASS	C	19823162	C	C	19823162	3	2	139	1	0	0	0	0	1	0	0	0	17725	1763	61	5	1004	5	ZNF14	19	19823162	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	485491	19823162	39305821	210	49743										
ZNF431	170959	broad.mit.edu	37	chr19	21366712	21366712	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aacataggaaaattcatactAgacagaaaccctacaactgt	5	9	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:21366712A>G	uc002npp.2	+	5	1753	c.1606A>G	c.(1606-1608)AGA>GGA	p.R536G	ZNF431_uc010ecq.2_Missense_Mutation_p.R445G|ZNF431_uc010ecr.2_Missense_Mutation_p.R537G	NM_133473	NP_597730	Q8TF32	ZN431_HUMAN	zinc finger protein 431	536					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2						AATTCATACTAGACAGAAACC	0.318													7	59	---	---	---	---	PASS	G	21366712	G	G	21366712	3	3	139	1	0	0	0	0	1	0	0	0	17902	412	15	5	1624	5	ZNF431	19	21366712	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	1543550	21366712	37762271	211	49744										
ZNF208	7757	broad.mit.edu	37	chr19	22154642	22154642	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gtcttgagggccagctgaagGctttgccacattcttcacat	10	11	3	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:22154642G>T	uc002nqp.2	-	6	2959	c.2810C>A	c.(2809-2811)GCC>GAC	p.A937D	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				CCAGCTGAAGGCTTTGCCACA	0.463													15	61	---	---	---	---	PASS	T	22154642	T	T	22154642	3	4	139	1	0	0	0	0	1	0	0	0	17763	1203	42	3	652	3	ZNF208	19	22154642	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	787930	22154642	36974341	212	49745										
ZNF461	92283	broad.mit.edu	37	chr19	37149214	37149214	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	actttaccaagtgacaccaaGttgctataattctccaacat	4	11	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:37149214G>A	uc002oem.2	-	3	351	c.123C>T	c.(121-123)AAC>AAT	p.N41N	ZNF461_uc002oen.2_Intron|ZNF461_uc010xtj.1_Silent_p.N41N	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	41	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GTGACACCAAGTTGCTATAAT	0.413													5	15	---	---	---	---	PASS	A	37149214	A	A	37149214	2	1	139	1	0	0	0	0	0	0	0	1	17922	1020	36	3		3	ZNF461	19	37149214	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	14994572	37149214	21979769	213	49746										
TTC9B	148014	broad.mit.edu	37	chr19	40722081	40722081	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggattggcctcagccaattaCatcccgagtctgggacccag	11	13	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:40722081C>T	uc002onc.2	-	3	727	c.709G>A	c.(709-711)GTA>ATA	p.V237I		NM_152479	NP_689692	Q8N6N2	TTC9B_HUMAN	tetratricopeptide repeat domain 9B	237							binding				0						CAGCCAATTACATCCCGAGTC	0.557													13	47	---	---	---	---	PASS	T	40722081	T	T	40722081	3	4	139	1	0	0	0	0	1	0	0	0	16713	478	17	3	14	3	TTC9B	19	40722081	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	3572867	40722081	18406902	214	49747										
AKT2	208	broad.mit.edu	37	chr19	40747908	40747908	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tagcggccagtggccttctcCcgcaccaggatgactttgcc	11	15	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:40747908C>A	uc002onf.2	-	6	772	c.510G>T	c.(508-510)CGG>CGT	p.R170R	AKT2_uc010egs.2_Silent_p.R170R|AKT2_uc010egt.2_Silent_p.R108R|AKT2_uc010xvj.1_Silent_p.R108R|AKT2_uc010egu.1_Silent_p.R108R|AKT2_uc010xvk.1_Silent_p.R170R|AKT2_uc002one.2_Silent_p.R66R	NM_001626	NP_001617	P31751	AKT2_HUMAN	AKT2 kinase	170	Protein kinase.				insulin receptor signaling pathway|negative regulation of plasma membrane long-chain fatty acid transport|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2			Lung(22;0.000499)			TGGCCTTCTCCCGCACCAGGA	0.582			A		ovarian|pancreatic 								15	25	---	---	---	---	PASS	A	40747908	A	A	40747908	2	1	139	1	0	0	0	0	0	0	0	1	480	610	22	3		3	AKT2	19	40747908	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	25827	40747908	18381075	215	49748										
CEACAM16	388551	broad.mit.edu	37	chr19	45207358	45207358	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cgtcgagacaccctgcgcctTatgtgcagcagccccagccc	10	18	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:45207358T>A	uc010xxd.1	+	4	659	c.453T>A	c.(451-453)CTT>CTA	p.L151L	CEACAM16_uc002ozq.2_Silent_p.L210L	NM_001039213	NP_001034302	A7LI12	A7LI12_HUMAN	carcinoembryonic antigen-related cell adhesion	151										ovary(1)	1	Lung NSC(12;0.000698)|all_lung(12;0.002)	Prostate(69;0.0376)|Ovarian(192;0.231)				CCCTGCGCCTTATGTGCAGCA	0.697													5	6	---	---	---	---	PASS	A	45207358	A	A	45207358	2	1	139	1	0	0	0	0	0	0	0	1	3188	1741	61	5		5	CEACAM16	19	45207358	Silent	SNP	T	TCGA-66-2727-01A-01D-0983-08	4459450	45207358	13921625	216	49749										
TOMM40	10452	broad.mit.edu	37	chr19	45396132	45396132	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctcagcacaatcggggagtcCaactaccacttcggggtcac	10	14	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:45396132C>A	uc002ozx.3	+	4	482	c.381C>A	c.(379-381)TCC>TCA	p.S127S	TOMM40_uc002ozy.3_Silent_p.S127S|TOMM40_uc002paa.3_Silent_p.S127S|TOMM40_uc002ozz.2_Silent_p.S127S	NM_006114	NP_006105	O96008	TOM40_HUMAN	translocase of outer mitochondrial membrane 40	127					protein targeting to mitochondrion	integral to membrane of membrane fraction|integral to mitochondrial outer membrane|mitochondrial outer membrane translocase complex|pore complex	porin activity|protein transmembrane transporter activity|voltage-gated anion channel activity				0	Lung NSC(12;0.0018)|all_lung(12;0.00481)			OV - Ovarian serous cystadenocarcinoma(262;0.0033)|Epithelial(262;0.176)		TCGGGGAGTCCAACTACCACT	0.502													4	37	---	---	---	---	PASS	A	45396132	A	A	45396132	2	1	139	1	0	0	0	0	0	0	0	1	16355	581	21	3		3	TOMM40	19	45396132	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	188774	45396132	13732851	217	49750										
ZNF611	81856	broad.mit.edu	37	chr19	53209454	53209454	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	actctttacacttgtaaggtTtctcaacagtgtgacatcta	6	9	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:53209454T>C	uc002pzz.2	-	7	1171	c.854A>G	c.(853-855)AAA>AGA	p.K285R	ZNF611_uc010eqc.2_Missense_Mutation_p.K215R|ZNF611_uc010ydo.1_Missense_Mutation_p.K215R|ZNF611_uc010ydr.1_Missense_Mutation_p.K216R|ZNF611_uc010ydp.1_Missense_Mutation_p.K285R|ZNF611_uc010ydq.1_Missense_Mutation_p.K285R|ZNF611_uc002qaa.3_Missense_Mutation_p.K215R	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	285					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		CTTGTAAGGTTTCTCAACAGT	0.408													44	72	---	---	---	---	PASS	C	53209454	C	C	53209454	3	2	139	1	0	0	0	0	1	0	0	0	18034	1841	64	5	1267	5	ZNF611	19	53209454	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	7813322	53209454	5919529	218	49751										
CACNG8	59283	broad.mit.edu	37	chr19	54466592	54466592	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ccggcggcgacgacgggaccCcccaccgcgggggcggcggc	19	18	0	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:54466592C>A	uc002qcs.1	+	1	299	c.193C>A	c.(193-195)CCC>ACC	p.P65T		NM_031895	NP_114101	Q8WXS5	CCG8_HUMAN	voltage-dependent calcium channel gamma-8	66					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic density|postsynaptic membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0	all_cancers(19;0.0385)|all_epithelial(19;0.0207)|all_lung(19;0.145)|Lung NSC(19;0.168)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.162)		CGACGGGACCCCCCACCGCGG	0.706													5	4	---	---	---	---	PASS	A	54466592	A	A	54466592	3	1	139	1	0	0	0	0	1	0	0	0	2563	623	22	3	198	3	CACNG8	19	54466592	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	1257138	54466592	4662391	219	49752										
LILRB5	10990	broad.mit.edu	37	chr19	54760477	54760477	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggaacttggccttggctccaGgctccagtgggttctgtctc	13	12	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr19:54760477G>T	uc002qex.2	-	3	341	c.230C>A	c.(229-231)CCT>CAT	p.P77H	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.P77H|LILRB5_uc002qey.2_Missense_Mutation_p.P77H|LILRB5_uc002qez.2_Missense_Mutation_p.P77H|LILRB5_uc002qfa.1_Missense_Mutation_p.P67H|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	77	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CTTGGCTCCAGGCTCCAGTGG	0.612													38	115	---	---	---	---	PASS	T	54760477	T	T	54760477	3	4	139	1	0	0	0	0	1	0	0	0	8794	1000	35	3	1589	3	LILRB5	19	54760477	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	293885	54760477	4368506	220	49753										
ATRN	8455	broad.mit.edu	37	chr20	3578558	3578558	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tctttctttccatagatactCttcttattgactatcagttc	3	10	5	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr20:3578558C>G	uc002wim.2	+	22	3565	c.3475C>G	c.(3475-3477)CTT>GTT	p.L1159V	ATRN_uc002wil.2_Missense_Mutation_p.L1159V	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	1159	Extracellular (Potential).				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						CATAGATACTCTTCTTATTGA	0.328													23	57	---	---	---	---	PASS	G	3578558	G	G	3578558	3	3	139	1	0	0	0	0	1	0	0	0	1206	913	32	2	3561	2	ATRN	20	3578558	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08		3578558	59446962	221	49754										
C20orf30	29058	broad.mit.edu	37	chr20	5086887	5086887	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gcctataataatgagaaaggCgccaatcaaaaacagcacag	8	9	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr20:5086887C>A	uc002wll.2	-	4	635	c.169G>T	c.(169-171)GCC>TCC	p.A57S	C20orf30_uc010gbi.2_Missense_Mutation_p.A57S|C20orf30_uc002wlk.2_Missense_Mutation_p.A120S|C20orf30_uc002wlm.2_Missense_Mutation_p.A57S|C20orf30_uc002wln.2_Missense_Mutation_p.A57S|C20orf30_uc002wlo.2_Intron	NM_001009924	NP_001009924	Q96A57	CT030_HUMAN	hypothetical protein LOC29058 isoform 2	57	Helical; (Potential).					integral to membrane					0						ATGAGAAAGGCGCCAATCAAA	0.433													21	41	---	---	---	---	PASS	A	5086887	A	A	5086887	3	1	139	1	0	0	0	0	1	0	0	0	2110	768	27	1	201	1	C20orf30	20	5086887	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	1508329	5086887	57938633	222	49755										
ESF1	51575	broad.mit.edu	37	chr20	13763342	13763342	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cttcggacttatgtttgaatCtatcttaaatttacatgagg	7	6	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr20:13763342C>T	uc002woj.2	-	2	553	c.445G>A	c.(445-447)GAT>AAT	p.D149N	ESF1_uc002wok.1_Missense_Mutation_p.D149N|C20orf7_uc002wol.1_5'Flank|C20orf7_uc002wom.2_5'Flank|C20orf7_uc002won.2_5'Flank|C20orf7_uc002woo.2_5'Flank	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	149	Lys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						ATGTTTGAATCTATCTTAAAT	0.284													6	21	---	---	---	---	PASS	T	13763342	T	T	13763342	3	4	139	1	0	0	0	0	1	0	0	0	5251	913	32	2	2162	2	ESF1	20	13763342	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	8676455	13763342	49262178	223	49756										
BFSP1	631	broad.mit.edu	37	chr20	17492636	17492636	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cttacctccctcatcccactCgtcacaatggatgctggagg	8	15	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr20:17492636C>A	uc002wpo.2	-	4	651	c.612G>T	c.(610-612)ACG>ACT	p.T204T	BFSP1_uc002wpp.2_Silent_p.T79T|BFSP1_uc010zrn.1_Silent_p.T65T|BFSP1_uc010zro.1_Silent_p.T65T	NM_001195	NP_001186	Q12934	BFSP1_HUMAN	filensin isoform 1	204	Rod.|Coil 2.					cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens			central_nervous_system(1)	1						TCATCCCACTCGTCACAATGG	0.527													11	33	---	---	---	---	PASS	A	17492636	A	A	17492636	2	1	139	1	0	0	0	0	0	0	0	1	1415	871	31	2		2	BFSP1	20	17492636	Silent	SNP	C	TCGA-66-2727-01A-01D-0983-08	3729294	17492636	45532884	224	49757										
PLCG1	5335	broad.mit.edu	37	chr20	39791871	39791871	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agcggccggagctttgccgaGtgtcccttcctgagttccag	13	13	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr20:39791871G>A	uc002xjp.1	+	8	866	c.745G>A	c.(745-747)GTG>ATG	p.V249M	PLCG1_uc002xjo.1_Missense_Mutation_p.V249M|PLCG1_uc010zwe.1_5'Flank|PLCG1_uc010ggf.2_5'Flank	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	249					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				GCTTTGCCGAGTGTCCCTTCC	0.602													10	28	---	---	---	---	PASS	A	39791871	A	A	39791871	3	1	139	1	0	0	0	0	1	0	0	0	12035	1029	36	3	775	3	PLCG1	20	39791871	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	22299235	39791871	23233649	225	49758										
DIDO1	11083	broad.mit.edu	37	chr20	61511762	61511762	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ggaactccctcttctccccaTggggatccttgcgttcttca	8	15	4	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr20:61511762T>A	uc002ydr.1	-	16	5810	c.5546A>T	c.(5545-5547)CAT>CTT	p.H1849L	DIDO1_uc002yds.1_Missense_Mutation_p.H1849L	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1849	Pro-rich.				apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CTTCTCCCCATGGGGATCCTT	0.607													30	33	---	---	---	---	PASS	A	61511762	A	A	61511762	3	1	139	1	0	0	0	0	1	0	0	0	4522	1464	51	5	1180	5	DIDO1	20	61511762	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	21719891	61511762	1513758	226	49759										
CLIC6	54102	broad.mit.edu	37	chr21	36079604	36079604	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tatgatggtgagagtatcggAaattgcccgttttctcagcg	12	7	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr21:36079604A>T	uc010gmt.1	+	3	1455	c.1455A>T	c.(1453-1455)GGA>GGT	p.G485G	CLIC6_uc002yuf.1_Silent_p.G467G	NM_053277	NP_444507	Q96NY7	CLIC6_HUMAN	chloride intracellular channel 6	485						chloride channel complex|cytoplasm|plasma membrane	voltage-gated chloride channel activity			ovary(1)|central_nervous_system(1)	2						AGAGTATCGGAAATTGCCCGT	0.443													19	29	---	---	---	---	PASS	T	36079604	T	T	36079604	2	4	139	1	0	0	0	0	0	0	0	1	3530	233	9	5		5	CLIC6	21	36079604	Silent	SNP	A	TCGA-66-2727-01A-01D-0983-08		36079604	12050291	227	49760										
PFKL	5211	broad.mit.edu	37	chr21	45732984	45732984	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cacggactcggccctccaccGcatcatggaggtcatcgatg	11	15	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr21:45732984G>T	uc002zel.2	+	5	610	c.551G>T	c.(550-552)CGC>CTC	p.R184L	PFKL_uc002zek.2_Missense_Mutation_p.R231L|PFKL_uc011afd.1_Missense_Mutation_p.R231L	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	184					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)		GCCCTCCACCGCATCATGGAG	0.667													37	21	---	---	---	---	PASS	T	45732984	T	T	45732984	3	4	139	1	0	0	0	0	1	0	0	0	11764	1087	38	1	569	1	PFKL	21	45732984	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	9653380	45732984	2396911	228	49761										
KRTAP10-4	386672	broad.mit.edu	37	chr21	45994758	45994758	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgtgcaggcccgcctgctgcGtgcccgtcccttcctgctgt	12	17	0	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr21:45994758G>T	uc002zfk.1	+	1	1153	c.1123G>T	c.(1123-1125)GTG>TTG	p.V375L	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198687	NP_941960	P60372	KR104_HUMAN	keratin associated protein 10-4	375	36 X 5 AA repeats of C-C-X(3).|35.					keratin filament					0						CGCCTGCTGCGTGCCCGTCCC	0.701													22	28	---	---	---	---	PASS	T	45994758	T	T	45994758	3	4	139	1	0	0	0	0	1	0	0	0	8511	1145	40	1	1125	1	KRTAP10-4	21	45994758	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	261774	45994758	2135137	229	49762										
SLC5A1	6523	broad.mit.edu	37	chr22	32487631	32487631	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgatgctatcagtcatgctgGcctccctcatgagctccctg	9	14	3	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr22:32487631G>T	uc003amc.2	+	11	1394	c.1162G>T	c.(1162-1164)GCC>TCC	p.A388S	SLC5A1_uc011alz.1_Missense_Mutation_p.A261S	NM_000343	NP_000334	P13866	SC5A1_HUMAN	solute carrier family 5 (sodium/glucose	388	Helical; (Potential).				carbohydrate metabolic process	integral to plasma membrane	glucose:sodium symporter activity|protein binding			skin(1)	1						AGTCATGCTGGCCTCCCTCAT	0.498													25	52	---	---	---	---	PASS	T	32487631	T	T	32487631	3	4	139	1	0	0	0	0	1	0	0	0	14661	1203	42	3	1204	3	SLC5A1	22	32487631	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08		32487631	18816935	230	49763										
MCHR1	2847	broad.mit.edu	37	chr22	41077580	41077580	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gatcctgcagcgcatgacgtCctcagtggcccccgcctccc	10	19	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr22:41077580C>T	uc003ayz.2	+	2	1185	c.917C>T	c.(916-918)TCC>TTC	p.S306F	MCHR1_uc003aza.2_Missense_Mutation_p.S195F|uc003azb.1_RNA	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	306	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						CGCATGACGTCCTCAGTGGCC	0.602													17	17	---	---	---	---	PASS	T	41077580	T	T	41077580	3	4	139	1	0	0	0	0	1	0	0	0	9382	855	30	2	923	2	MCHR1	22	41077580	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	8589949	41077580	10226986	231	49764										
WNT7B	7477	broad.mit.edu	37	chr22	46327059	46327059	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cgagcgtccacgaagcgccgGgagaagtcgatgccgtaacg	15	12	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chr22:46327059G>T	uc003bgo.2	-	3	863	c.489C>A	c.(487-489)TCC>TCA	p.S163S	WNT7B_uc010haa.2_Silent_p.S167S	NM_058238	NP_478679	P56706	WNT7B_HUMAN	wingless-type MMTV integration site family,	163					activation of JUN kinase activity|anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|central nervous system vasculogenesis|chorio-allantoic fusion|developmental growth involved in morphogenesis|embryonic placenta morphogenesis|establishment or maintenance of polarity of embryonic epithelium|fibroblast proliferation|forebrain regionalization|inner medullary collecting duct development|lens fiber cell development|lobar bronchus development|lung epithelium development|lung morphogenesis|lung-associated mesenchyme development|mammary gland epithelium development|metanephric collecting duct development|metanephric loop of Henle development|metanephros morphogenesis|negative regulation of smoothened signaling pathway|outer medullary collecting duct development|oxygen homeostasis|positive regulation of JNK cascade|positive regulation of osteoblast differentiation|renal inner medulla development|renal outer medulla development|stem cell proliferation|synapse organization|trachea cartilage morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled binding|signal transducer activity			lung(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|LUAD - Lung adenocarcinoma(64;0.247)		CGAAGCGCCGGGAGAAGTCGA	0.652													4	29	---	---	---	---	PASS	T	46327059	T	T	46327059	2	4	139	1	0	0	0	0	0	0	0	1	17392	1219	43	3		3	WNT7B	22	46327059	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	5249479	46327059	4977507	232	49765										
OFD1	8481	broad.mit.edu	37	chrX	13774698	13774698	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tttcctttttgaattttagcTtgaattagagtctgtcaaag	7	5	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:13774698T>A	uc004cvp.3	+	13	1582	c.1223T>A	c.(1222-1224)CTT>CAT	p.L408H	OFD1_uc004cvr.3_Translation_Start_Site|OFD1_uc011mil.1_Translation_Start_Site|OFD1_uc004cvq.3_Missense_Mutation_p.L268H|OFD1_uc010nen.2_Missense_Mutation_p.L407H|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Missense_Mutation_p.L367H|OFD1_uc004cvv.3_Missense_Mutation_p.L367H	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	408	Potential.				cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0						GAATTTTAGCTTGAATTAGAG	0.323													19	65	---	---	---	---	PASS	A	13774698	A	A	13774698	3	1	139	1	0	0	0	0	1	0	0	0	10838	1623	56	5	1273	5	OFD1	23	13774698	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08		13774698	141495862	233	49766										
MAP3K15	389840	broad.mit.edu	37	chrX	19398285	19398285	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aagctcatggaacggaggctTgctggtggccatctcaatga	13	9	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:19398285T>C	uc004czk.1	-	20	2604	c.967A>G	c.(967-969)AAG>GAG	p.K323E	MAP3K15_uc004czj.1_Missense_Mutation_p.K283E	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	848	Protein kinase.						ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					AACGGAGGCTTGCTGGTGGCC	0.512													3	5	---	---	---	---	PASS	C	19398285	C	C	19398285	3	2	139	1	0	0	0	0	1	0	0	0	9249	1821	63	5	1443	5	MAP3K15	23	19398285	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	5623587	19398285	135872275	234	49767										
ZNF645	158506	broad.mit.edu	37	chrX	22291549	22291549	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gctcgaaaacaagttaccagCgcttcgcttgaaaaagttcg	9	10	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:22291549C>A	uc004dai.1	+	1	490	c.441C>A	c.(439-441)AGC>AGA	p.S147R		NM_152577	NP_689790	Q8N7E2	ZN645_HUMAN	zinc finger protein 645	147						intracellular	zinc ion binding			lung(1)|pancreas(1)	2						AAGTTACCAGCGCTTCGCTTG	0.438													12	46	---	---	---	---	PASS	A	22291549	A	A	22291549	3	1	139	1	0	0	0	0	1	0	0	0	18058	767	27	1	443	1	ZNF645	23	22291549	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	2893264	22291549	132979011	235	49768										
DCAF8L1	139425	broad.mit.edu	37	chrX	27997798	27997798	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tctctgtaacaggtgacgcaCgaagaaccgaagcatgcggt	12	10	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:27997798C>A	uc004dbx.1	-	1	1769	c.1654G>T	c.(1654-1656)GTG>TTG	p.V552L		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	552										ovary(3)|skin(1)	4						AGGTGACGCACGAAGAACCGA	0.478													13	50	---	---	---	---	PASS	A	27997798	A	A	27997798	3	1	139	1	0	0	0	0	1	0	0	0	4277	536	19	1	152	1	DCAF8L1	23	27997798	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	5706249	27997798	127272762	236	49769										
CXorf21	80231	broad.mit.edu	37	chrX	30577646	30577646	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tttcagttgacatcaattgcAataggcggctaaagactata	8	7	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:30577646A>G	uc004dcg.1	-	3	1103	c.827T>C	c.(826-828)TTG>TCG	p.L276S		NM_025159	NP_079435	Q9HAI6	CX021_HUMAN	hypothetical protein LOC80231	276										ovary(1)	1						CATCAATTGCAATAGGCGGCT	0.388													11	42	---	---	---	---	PASS	G	30577646	G	G	30577646	3	3	139	1	0	0	0	0	1	0	0	0	4101	131	5	5	82	5	CXorf21	23	30577646	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	2579848	30577646	124692914	237	49770										
RPGR	6103	broad.mit.edu	37	chrX	38146392	38146392	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gataggatctctgttttctcCtttcttcctccatgcacctt	5	13	3	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:38146392C>G	uc004ded.1	-	15	2028	c.1860G>C	c.(1858-1860)AAG>AAC	p.K620N	RPGR_uc004deb.2_Missense_Mutation_p.K620N|RPGR_uc004dea.2_RNA|RPGR_uc004dec.2_Intron	NM_001034853	NP_001030025	Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator isoform C	620	Glu-rich.				intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						CTGTTttctcctttcttcctc	0.239													18	54	---	---	---	---	PASS	G	38146392	G	G	38146392	3	3	139	1	0	0	0	0	1	0	0	0	13548	680	24	4	2161	4	RPGR	23	38146392	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	7568746	38146392	117124168	238	49771										
EFHC2	80258	broad.mit.edu	37	chrX	44120491	44120491	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aaaatgatacacagtataaaActgatcctcatcaggaggcg	8	8	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:44120491A>G	uc004dgb.3	-	5	526	c.436T>C	c.(436-438)TTT>CTT	p.F146L		NM_025184	NP_079460	Q5JST6	EFHC2_HUMAN	EF-hand domain (C-terminal) containing 2	146	DM10 1.						calcium ion binding			breast(3)|ovary(2)|central_nervous_system(1)	6						ACAGTATAAAACTGATCCTCA	0.408													10	60	---	---	---	---	PASS	G	44120491	G	G	44120491	3	3	139	1	0	0	0	0	1	0	0	0	4947	43	2	5	1861	5	EFHC2	23	44120491	Missense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	5974099	44120491	111150069	239	49772										
ZNF630	57232	broad.mit.edu	37	chrX	47918465	47918465	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agtacacacataaggtttttCtcctgtatgaattctttgat	6	7	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:47918465C>T	uc004div.3	-	5	1618	c.1366G>A	c.(1366-1368)GAA>AAA	p.E456K	ZNF630_uc010nhz.1_Intron|ZNF630_uc004diw.2_Missense_Mutation_p.E332K	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	456					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2						TAAGGTTTTTCTCCTGTATGA	0.448													6	30	---	---	---	---	PASS	T	47918465	T	T	47918465	3	4	139	1	0	0	0	0	1	0	0	0	18051	922	32	2	611	2	ZNF630	23	47918465	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	3797974	47918465	107352095	240	49773										
PAGE1	8712	broad.mit.edu	37	chrX	49459326	49459326	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	attacctcagaagattctacAtagatcattggtctacgccg	7	10	4	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:49459326A>T	uc004dom.2	-	2	181	c.48T>A	c.(46-48)TAT>TAA	p.Y16*		NM_003785	NP_003776	O75459	GAGB1_HUMAN	P antigen family, member 1	16					cellular defense response					skin(1)	1	Ovarian(276;0.236)					AAGATTCTACATAGATCATTG	0.353													7	44	---	---	---	---	PASS	T	49459326	T	T	49459326	4	4	139	1	0	0	0	0	0	1	0	0	11389	224	8	5	412	5	PAGE1	23	49459326	Nonsense_Mutation	SNP	A	TCGA-66-2727-01A-01D-0983-08	1540861	49459326	105811234	241	49774										
CLCN5	1184	broad.mit.edu	37	chrX	49840470	49840470	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gttcgttagctggtttgataGacatctctgctcattggatg	11	7	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:49840470G>A	uc004dos.1	+	4	474	c.226G>A	c.(226-228)GAC>AAC	p.D76N	CLCN5_uc004dor.1_Missense_Mutation_p.D146N|CLCN5_uc004doq.1_Missense_Mutation_p.D146N|CLCN5_uc004dot.1_Missense_Mutation_p.D76N	NM_000084	NP_000075	P51795	CLCN5_HUMAN	chloride channel 5 isoform b	76	Helical; (By similarity).				excretion	apical part of cell|endosome membrane|Golgi membrane|integral to plasma membrane	antiporter activity|ATP binding			ovary(2)|lung(1)|central_nervous_system(1)	4	Ovarian(276;0.236)					TGGTTTGATAGACATCTCTGC	0.433													12	34	---	---	---	---	PASS	A	49840470	A	A	49840470	3	1	139	1	0	0	0	0	1	0	0	0	3466	942	33	2	454	2	CLCN5	23	49840470	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	381144	49840470	105430090	242	49775										
AR	367	broad.mit.edu	37	chrX	66766093	66766093	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gcgactactacaactttccaCtggctctggccggaccgccg	10	16	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:66766093C>G	uc004dwu.1	+	1	2220	c.1105C>G	c.(1105-1107)CTG>GTG	p.L369V	AR_uc011mpd.1_Missense_Mutation_p.L369V|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.L369V	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	367	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	CAACTTTCCACTGGCTCTGGC	0.662									Androgen_Insensitivity_Syndrome				5	11	---	---	---	---	PASS	G	66766093	G	G	66766093	3	3	139	1	0	0	0	0	1	0	0	0	836	564	20	4	1107	4	AR	23	66766093	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	16925623	66766093	88504467	243	49776										
CYSLTR1	10800	broad.mit.edu	37	chrX	77528442	77528442	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctgcattctaaggacagaatCacagggtttagtttcattgt	9	7	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:77528442C>T	uc004edb.2	-	3	1202	c.802G>A	c.(802-804)GAT>AAT	p.D268N	CYSLTR1_uc010nma.2_Missense_Mutation_p.D268N|CYSLTR1_uc010nmb.2_Missense_Mutation_p.D268N	NM_006639	NP_006630	Q9Y271	CLTR1_HUMAN	cysteinyl leukotriene receptor 1	268	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|respiratory gaseous exchange	integral to plasma membrane|membrane fraction	leukotriene receptor activity			ovary(1)	1					Amlexanox(DB01025)|Cinalukast(DB00587)|Montelukast(DB00471)|Nedocromil(DB00716)|Pranlukast(DB01411)|Zafirlukast(DB00549)	AGGACAGAATCACAGGGTTTA	0.418													10	47	---	---	---	---	PASS	T	77528442	T	T	77528442	3	4	139	1	0	0	0	0	1	0	0	0	4201	826	29	2	215	2	CYSLTR1	23	77528442	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	10762349	77528442	77742118	244	49777										
CYLC1	1538	broad.mit.edu	37	chrX	83128189	83128189	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aactaaaagacaaaatgaggCagataaaactcccttaaaat	5	7	0	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:83128189C>A	uc004eei.1	+	4	494	c.473C>A	c.(472-474)GCA>GAA	p.A158E	CYLC1_uc004eeh.1_Missense_Mutation_p.A157E	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	158					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						CAAAATGAGGCAGATAAAACT	0.338													7	11	---	---	---	---	PASS	A	83128189	A	A	83128189	3	1	139	1	0	0	0	0	1	0	0	0	4141	710	25	3	487	3	CYLC1	23	83128189	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	5599747	83128189	72142371	245	49778										
PABPC5	140886	broad.mit.edu	37	chrX	90691646	90691646	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttttgaagaggctaccaaagCagtggatgagatgaatggcc	13	6	0	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:90691646C>T	uc004efg.2	+	2	1510	c.1070C>T	c.(1069-1071)GCA>GTA	p.A357V	PABPC5_uc004eff.1_Missense_Mutation_p.A193V	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	357	RRM 4.					cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						GCTACCAAAGCAGTGGATGAG	0.527													12	21	---	---	---	---	PASS	T	90691646	T	T	90691646	3	4	139	1	0	0	0	0	1	0	0	0	11367	710	25	3	1072	3	PABPC5	23	90691646	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	7563457	90691646	64578914	246	49779										
BTK	695	broad.mit.edu	37	chrX	100630231	100630231	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gatgttttctttttctgttgGgatcgcttcagaaagatgct	10	6	3	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:100630231G>T	uc004ehg.2	-	2	235	c.42C>A	c.(40-42)TCC>TCA	p.S14S	BTK_uc010nnn.2_Silent_p.S14S|BTK_uc010nno.2_Silent_p.S48S|BTK_uc004ehi.2_Silent_p.S14S	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	14	PH.		S -> F (in XLA).		calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						TTTTCTGTTGGGATCGCTTCA	0.458									Agammaglobulinemia_X-linked				12	98	---	---	---	---	PASS	T	100630231	T	T	100630231	2	4	139	1	0	0	0	0	0	0	0	1	1557	1219	43	3		3	BTK	23	100630231	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	9938585	100630231	54640329	247	49780										
GPRASP1	9737	broad.mit.edu	37	chrX	101912635	101912635	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aaggatgattagacatctcaCtactactactgactatcaca	5	10	2	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:101912635C>A	uc004ejj.3	+	5	4595	c.3794C>A	c.(3793-3795)ACT>AAT	p.T1265N	GPRASP1_uc004eji.3_Missense_Mutation_p.T1265N|GPRASP1_uc010nod.2_Missense_Mutation_p.T1265N	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	1265	OPRD1-binding.					cytoplasm	protein binding			ovary(1)|lung(1)	2						AGACATCTCACTACTACTACT	0.398													8	66	---	---	---	---	PASS	A	101912635	A	A	101912635	3	1	139	1	0	0	0	0	1	0	0	0	6722	565	20	3	3796	3	GPRASP1	23	101912635	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	1282404	101912635	53357925	248	49781										
TCEAL3	85012	broad.mit.edu	37	chrX	102864368	102864368	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	acgattcccccaaggactctCaggaggacttacaggaaagg	11	11	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:102864368C>A	uc004ekq.2	+	3	638	c.376C>A	c.(376-378)CAG>AAG	p.Q126K	TCEAL3_uc004ekr.2_Missense_Mutation_p.Q126K	NM_001006933	NP_001006934	Q969E4	TCAL3_HUMAN	transcription elongation factor A (SII)-like 3	126					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						CAAGGACTCTCAGGAGGACTT	0.532													11	82	---	---	---	---	PASS	A	102864368	A	A	102864368	3	1	139	1	0	0	0	0	1	0	0	0	15669	827	29	2	378	2	TCEAL3	23	102864368	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	951733	102864368	52406192	249	49782										
ESX1	80712	broad.mit.edu	37	chrX	103495396	103495396	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	taggtggcacaggcagcacaGgtggtctaggtagttgtggc	17	7	1	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:103495396G>A	uc004ely.2	-	4	792	c.734C>T	c.(733-735)CCT>CTT	p.P245L		NM_153448	NP_703149	Q8N693	ESX1_HUMAN	extraembryonic, spermatogenesis, homeobox	245	15 X 9 AA tandem repeats of P-P-x-x-P-x- P-P-x.|1.				negative regulation of transcription, DNA-dependent|regulation of cell cycle	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGGCAGCACAGGTGGTCTAGG	0.368													19	98	---	---	---	---	PASS	A	103495396	A	A	103495396	3	1	139	1	0	0	0	0	1	0	0	0	5263	1000	35	3	490	3	ESX1	23	103495396	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	631028	103495396	51775164	250	49783										
TBC1D8B	54885	broad.mit.edu	37	chrX	106083927	106083927	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	taatgacatggctactaatcCtgactattatactgaagtgg	8	7	0	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:106083927C>A	uc004emo.2	+	10	1697	c.1532C>A	c.(1531-1533)CCT>CAT	p.P511H	MORC4_uc004emp.3_Intron|TBC1D8B_uc004emn.2_Missense_Mutation_p.P511H	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	511	Rab-GAP TBC.					intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GCTACTAATCCTGACTATTAT	0.388													12	46	---	---	---	---	PASS	A	106083927	A	A	106083927	3	1	139	1	0	0	0	0	1	0	0	0	15623	681	24	3	1570	3	TBC1D8B	23	106083927	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	2588531	106083927	49186633	251	49784										
TBC1D8B	54885	broad.mit.edu	37	chrX	106097494	106097494	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gaaataggttgtatgtgataCagaccctagaggaaacaaca	10	6	0	3			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:106097494C>A	uc004emo.2	+	14	2485	c.2320C>A	c.(2320-2322)CAG>AAG	p.Q774K	MORC4_uc004emp.3_Intron	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	774						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GTATGTGATACAGACCCTAGA	0.343													7	47	---	---	---	---	PASS	A	106097494	A	A	106097494	3	1	139	1	0	0	0	0	1	0	0	0	15623	479	17	3	2440	3	TBC1D8B	23	106097494	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	13567	106097494	49173066	252	49785										
SLC6A14	11254	broad.mit.edu	37	chrX	115577907	115577907	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttggttacttttcttggtagGtggtatattttacagctctt	9	5	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:115577907G>T	uc004eqi.2	+	7	894	c.790G>T	c.(790-792)GTG>TTG	p.V264L	SLC6A14_uc011mtm.1_RNA	NM_007231	NP_009162	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid	264	Helical; Name=5; (Potential).				cellular amino acid metabolic process|response to toxin	integral to membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)|pancreas(1)	3					L-Proline(DB00172)	TTCTTGGTAGGTGGTATATTT	0.323													22	36	---	---	---	---	PASS	T	115577907	T	T	115577907	3	4	139	1	0	0	0	0	1	0	0	0	14677	1275	44	3	816	3	SLC6A14	23	115577907	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	9480413	115577907	39692653	253	49786										
ZCCHC12	170261	broad.mit.edu	37	chrX	117959684	117959684	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gaggtgcagctccagaacgcTattcaggcaggcattatagc	12	10	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:117959684T>A	uc004equ.2	+	4	950	c.477T>A	c.(475-477)GCT>GCA	p.A159A		NM_173798	NP_776159	Q6PEW1	ZCH12_HUMAN	zinc finger, CCHC domain containing 12	159					regulation of transcription, DNA-dependent|transcription, DNA-dependent		nucleic acid binding|zinc ion binding			ovary(1)	1						tccagaacgctattcaggcag	0.124													83	116	---	---	---	---	PASS	A	117959684	A	A	117959684	2	1	139	1	0	0	0	0	0	0	0	1	17578	1509	53	5		5	ZCCHC12	23	117959684	Silent	SNP	T	TCGA-66-2727-01A-01D-0983-08	2381777	117959684	37310876	254	49787										
UPF3B	65109	broad.mit.edu	37	chrX	118972475	118972475	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttctttttcatctcctttttCtggcttcttgagcagcttta	5	10	5	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:118972475C>A	uc004erz.1	-	9	939	c.862G>T	c.(862-864)GAA>TAA	p.E288*	UPF3B_uc004esa.1_Nonsense_Mutation_p.E275*	NM_080632	NP_542199	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B	288	Sufficient for association with EJC core.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|termination of RNA polymerase II transcription	cytosol|exon-exon junction complex|nucleoplasm	mRNA binding|nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(2)|kidney(1)	3						TCTCCTTTTTCTGGCTTCTTG	0.323													42	90	---	---	---	---	PASS	A	118972475	A	A	118972475	4	1	139	1	0	0	0	0	0	1	0	0	17003	922	32	2	601	2	UPF3B	23	118972475	Nonsense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	1012791	118972475	36298085	255	49788										
UPF3B	65109	broad.mit.edu	37	chrX	118975200	118975200	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ttctctcctcctcctttcttCtctcttttcttctctcattc	0	17	7	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:118975200C>T	uc004erz.1	-	7	723	c.646G>A	c.(646-648)GAA>AAA	p.E216K	UPF3B_uc004esa.1_Missense_Mutation_p.E216K	NM_080632	NP_542199	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B	216	Sufficient for association with EJC core.|Necessary for interaction with UPF2.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|termination of RNA polymerase II transcription	cytosol|exon-exon junction complex|nucleoplasm	mRNA binding|nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(2)|kidney(1)	3						ctcctttcttctctcttttct	0.149													12	98	---	---	---	---	PASS	T	118975200	T	T	118975200	3	4	139	1	0	0	0	0	1	0	0	0	17003	922	32	2	825	2	UPF3B	23	118975200	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	2725	118975200	36295360	256	49789										
UPF3B	65109	broad.mit.edu	37	chrX	118977226	118977226	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	agatgtcattttctcattatCtgtggcataactttccaaaa	5	8	3	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:118977226C>T	uc004erz.1	-	5	585	c.508G>A	c.(508-510)GAT>AAT	p.D170N	UPF3B_uc004esa.1_Missense_Mutation_p.D170N	NM_080632	NP_542199	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B	170	Sufficient for association with EJC core.|Necessary for interaction with UPF2.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|termination of RNA polymerase II transcription	cytosol|exon-exon junction complex|nucleoplasm	mRNA binding|nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(2)|kidney(1)	3						TTCTCATTATCTGTGGCATAA	0.308													6	88	---	---	---	---	PASS	T	118977226	T	T	118977226	3	4	139	1	0	0	0	0	1	0	0	0	17003	913	32	2	971	2	UPF3B	23	118977226	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	2026	118977226	36293334	257	49790										
THOC2	57187	broad.mit.edu	37	chrX	122801009	122801009	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gagcttgcaaatagcaagggCtattagcttgtgtgaagctg	13	6	0	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:122801009C>T	uc004etu.2	-	11	1170	c.1138G>A	c.(1138-1140)GCC>ACC	p.A380T	THOC2_uc011muh.1_Missense_Mutation_p.A301T|THOC2_uc011mui.1_Missense_Mutation_p.A265T	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	380					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						ATAGCAAGGGCTATTAGCTTG	0.383													11	55	---	---	---	---	PASS	T	122801009	T	T	122801009	3	4	139	1	0	0	0	0	1	0	0	0	15862	797	28	3	3755	3	THOC2	23	122801009	Missense_Mutation	SNP	C	TCGA-66-2727-01A-01D-0983-08	3823783	122801009	32469551	258	49791										
CCDC160	347475	broad.mit.edu	37	chrX	133379769	133379769	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gcttcttcaatggtaacatcAtcaagtatccttgaccactt	5	11	4	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:133379769A>T	uc011mvj.1	+	2	1260	c.939A>T	c.(937-939)TCA>TCT	p.S313S		NM_001101357	NP_001094827	A6NGH7	CC160_HUMAN	coiled-coil domain containing 160	313										skin(1)	1						TGGTAACATCATCAAGTATCC	0.348													4	22	---	---	---	---	PASS	T	133379769	T	T	133379769	2	4	139	1	0	0	0	0	0	0	0	1	2792	204	8	5		5	CCDC160	23	133379769	Silent	SNP	A	TCGA-66-2727-01A-01D-0983-08	10578760	133379769	21890791	259	49792										
ZNF75D	7626	broad.mit.edu	37	chrX	134421514	134421514	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	attcctgacacttaaaaggtTtctcccctgtggggcctttc	8	12	1	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:134421514T>A	uc004eyp.2	-	7	3743	c.1088A>T	c.(1087-1089)AAA>ATA	p.K363I	ZNF75D_uc004eym.2_Intron|ZNF75D_uc004eyn.2_Missense_Mutation_p.K142I|ZNF75D_uc004eyo.2_Missense_Mutation_p.K268I	NM_007131	NP_009062	P51815	ZN75D_HUMAN	zinc finger protein 75	363					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTTAAAAGGTTTCTCCCCTGT	0.408													9	35	---	---	---	---	PASS	A	134421514	A	A	134421514	3	1	139	1	0	0	0	0	1	0	0	0	18131	1841	64	5	448	5	ZNF75D	23	134421514	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	1041745	134421514	20849046	260	49793										
GPR112	139378	broad.mit.edu	37	chrX	135496475	135496475	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aggcacaccttcagaaataaGctttccaaatggtaagaaaa	7	8	1	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:135496475G>T	uc004ezu.1	+	25	9485	c.9194G>T	c.(9193-9195)AGC>ATC	p.S3065I	GPR112_uc010nsb.1_Missense_Mutation_p.S2860I	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	3065	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TCAGAAATAAGCTTTCCAAAT	0.393													16	102	---	---	---	---	PASS	T	135496475	T	T	135496475	3	4	139	1	0	0	0	0	1	0	0	0	6629	971	34	3	9280	3	GPR112	23	135496475	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	1074961	135496475	19774085	261	49794										
GPR101	83550	broad.mit.edu	37	chrX	136112439	136112439	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	aacttcttcagcatgtcctgGatttccttcttaatggtctt	6	10	4	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:136112439G>T	uc011mwh.1	-	1	1395	c.1395C>A	c.(1393-1395)ATC>ATA	p.I465I		NM_054021	NP_473362	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	465	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					GCATGTCCTGGATTTCCTTCT	0.507													28	38	---	---	---	---	PASS	T	136112439	T	T	136112439	2	4	139	1	0	0	0	0	0	0	0	1	6622	1164	41	2		2	GPR101	23	136112439	Silent	SNP	G	TCGA-66-2727-01A-01D-0983-08	615964	136112439	19158121	262	49795										
MCF2	4168	broad.mit.edu	37	chrX	138708792	138708792	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	gagtactcacttattaatagTttgccagtcaccacttattt	5	9	2	0			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:138708792T>C	uc004fau.2	-	5	856	c.562A>G	c.(562-564)ACT>GCT	p.T188A	MCF2_uc004fav.2_Missense_Mutation_p.T188A|MCF2_uc011mwl.1_Missense_Mutation_p.T149A|MCF2_uc010nsh.1_Missense_Mutation_p.T188A|MCF2_uc011mwm.1_Missense_Mutation_p.T149A|MCF2_uc011mwn.1_Missense_Mutation_p.T333A|MCF2_uc004faw.2_Missense_Mutation_p.T248A|MCF2_uc011mwo.1_Missense_Mutation_p.T248A	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	188					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					TTATTAATAGTTTGCCAGTCA	0.333													13	107	---	---	---	---	PASS	C	138708792	C	C	138708792	3	2	139	1	0	0	0	0	1	0	0	0	9378	1725	60	5	2379	5	MCF2	23	138708792	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	2596353	138708792	16561768	263	49796										
CXorf66	347487	broad.mit.edu	37	chrX	139038261	139038261	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	tgaaacatgtaggttttgagTgtttttctcctttgcctcag	9	7	2	2			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:139038261T>A	uc004fbb.2	-	3	902	c.880A>T	c.(880-882)ACT>TCT	p.T294S		NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor	294	Cytoplasmic (Potential).					integral to membrane					0						AGGTTTTGAGTGTTTTTCTCC	0.388													10	64	---	---	---	---	PASS	A	139038261	A	A	139038261	3	1	139	1	0	0	0	0	1	0	0	0	4118	1696	59	5	209	5	CXorf66	23	139038261	Missense_Mutation	SNP	T	TCGA-66-2727-01A-01D-0983-08	329469	139038261	16232299	264	49797										
MAGEC3	139081	broad.mit.edu	37	chrX	140969303	140969303	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	cctctcacaagagcagagatGcagatgaatgtcatcaacac	8	11	3	4			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:140969303G>A	uc011mwp.1	+	4	630	c.630G>A	c.(628-630)ATG>ATA	p.M210I		NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	210	MAGE 1.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GAGCAGAGATGCAGATGAATG	0.433													21	106	---	---	---	---	PASS	A	140969303	A	A	140969303	3	1	139	1	0	0	0	0	1	0	0	0	9182	1319	46	3	644	3	MAGEC3	23	140969303	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	1931042	140969303	14301257	265	49798										
SLITRK4	139065	broad.mit.edu	37	chrX	142718108	142718108	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	ctgagatggaggcaggatgcGcacgtcaaaatcactgccgg	14	10	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:142718108G>A	uc004fbx.2	-	2	1193	c.817C>T	c.(817-819)CGC>TGC	p.R273C	SLITRK4_uc004fby.2_Missense_Mutation_p.R273C	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	273	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GGCAGGATGCGCACGTCAAAA	0.448													13	56	---	---	---	---	PASS	A	142718108	A	A	142718108	3	1	139	1	0	0	0	0	1	0	0	0	14745	1087	38	1	1700	1	SLITRK4	23	142718108	Missense_Mutation	SNP	G	TCGA-66-2727-01A-01D-0983-08	1748805	142718108	12552452	266	49799										
F8	2157	broad.mit.edu	37	chrX	154185349	154185349	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0902255639097744	24	0.0220660280977258	1.60532837670384	2.26634594358189	1.24283487228684	1	1	9	taatagcgggtcaggcaccgAggatctgatttagttggccc	13	9	2	1			TCGA-66-2727-01A-01D-0983-08	TCGA-66-2727-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c2b2c909-1461-42ce-8fd9-736147dcacd8	d35d0976-dc9b-48c3-bdb0-016480667eb8	g.chrX:154185349A>T	uc004fmt.2	-	11	1806	c.1635T>A	c.(1633-1635)CCT>CCA	p.P545P		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	545	F5/8 type A 2.|Plastocyanin-like 3.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TCAGGCACCGAGGATCTGATT	0.413													8	81	---	---	---	---	PASS	T	154185349	T	T	154185349	2	4	139	1	0	0	0	0	0	0	0	1	5350	291	11	5		5	F8	23	154185349	Silent	SNP	A	TCGA-66-2727-01A-01D-0983-08	11467241	154185349	1085211	267	49800										
ARHGEF16	27237	broad.mit.edu	37	chr1	3390011	3390011	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gagattgagaggcggccggcGtgcgggggcctgcccatgct	19	11	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:3390011G>T	uc001akg.3	+	8	1478	c.1230G>T	c.(1228-1230)GCG>GCT	p.A410A	ARHGEF16_uc001aki.2_Silent_p.A122A|ARHGEF16_uc001akj.2_Silent_p.A122A|ARHGEF16_uc009vli.1_Silent_p.A114A|ARHGEF16_uc010nzh.1_Silent_p.A114A	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	410	DH.|Required for RHOG activation and mediates interaction with EPHA2.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		GGCGGCCGGCGTGCGGGGGCC	0.662													6	30	---	---	---	---	PASS	T	3390011	T	T	3390011	2	4	140	1	0	0	0	0	0	0	0	1	899	1132	40	1		1	ARHGEF16	1	3390011	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08		3390011	245860610	1	49801										
CASZ1	54897	broad.mit.edu	37	chr1	10715789	10715789	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtcgtccagcgggctgaaacGcatgaagccgtgctgcaggg	16	11	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:10715789G>A	uc001aro.2	-	9	1902	c.1582C>T	c.(1582-1584)CGT>TGT	p.R528C	CASZ1_uc001arp.1_Missense_Mutation_p.R528C|CASZ1_uc009vmx.2_Missense_Mutation_p.R552C	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	528					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GGGCTGAAACGCATGAAGCCG	0.607													6	46	---	---	---	---	PASS	A	10715789	A	A	10715789	3	1	140	1	0	0	0	0	1	0	0	0	2685	1087	38	1	3753	1	CASZ1	1	10715789	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	7325778	10715789	238534832	2	49802										
FBLIM1	54751	broad.mit.edu	37	chr1	16101265	16101265	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gccctgggcagccagaacgaGgtgtactgcctggacgactt	14	12	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:16101265G>T	uc001axd.1	+	8	1307	c.864G>T	c.(862-864)GAG>GAT	p.E288D	FBLIM1_uc001axe.1_Missense_Mutation_p.E288D|FBLIM1_uc001axf.2_RNA|FBLIM1_uc001axg.1_Missense_Mutation_p.E288D|FBLIM1_uc001axh.1_Missense_Mutation_p.E191D|FBLIM1_uc001axi.1_Missense_Mutation_p.E191D	NM_017556	NP_060026	Q8WUP2	FBLI1_HUMAN	filamin-binding LIM protein-1 isoform a	288	PLEKHC1-binding.|LIM zinc-binding 2.				cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytoskeleton|cytosol|focal adhesion|intracellular membrane-bounded organelle	zinc ion binding			skin(1)	1		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.56e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|READ - Rectum adenocarcinoma(331;0.0649)|STAD - Stomach adenocarcinoma(313;0.138)		GCCAGAACGAGGTGTACTGCC	0.632													8	108	---	---	---	---	PASS	T	16101265	T	T	16101265	3	4	140	1	0	0	0	0	1	0	0	0	5697	991	35	3	882	3	FBLIM1	1	16101265	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	5385476	16101265	233149356	3	49803										
NBPF1	55672	broad.mit.edu	37	chr1	16907280	16907280	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcctgacattcatcatgagaGgattctctgtctacaaccag	7	11	4	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:16907280G>T	uc009vos.1	-	16	2439	c.1551C>A	c.(1549-1551)TCC>TCA	p.S517S	NBPF1_uc009vot.1_Intron|NBPF1_uc001ayz.1_Intron|NBPF1_uc010oce.1_Silent_p.S246S	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	517	NBPF 2.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		CATCATGAGAGGATTCTCTGT	0.453													15	740	---	---	---	---	PASS	T	16907280	T	T	16907280	2	4	140	1	0	0	0	0	0	0	0	1	10192	987	35	3		3	NBPF1	1	16907280	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	806015	16907280	232343341	4	49804										
PADI1	29943	broad.mit.edu	37	chr1	17566199	17566199	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctgtctttctcttcttgcagGgttaaaacaccaggcaaaaa	7	10	3	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:17566199G>T	uc001bah.1	+	14	1645	c.1553G>T	c.(1552-1554)GGG>GTG	p.G518V	PADI1_uc010oco.1_Missense_Mutation_p.G75V|PADI1_uc010ocp.1_Missense_Mutation_p.G75V|PADI1_uc010ocq.1_5'UTR|PADI1_uc009vpb.1_5'UTR	NM_013358	NP_037490	Q9ULC6	PADI1_HUMAN	peptidylarginine deiminase type I	518					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity				0		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00522)|BRCA - Breast invasive adenocarcinoma(304;1.3e-05)|COAD - Colon adenocarcinoma(227;1.31e-05)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(196;0.0069)|READ - Rectum adenocarcinoma(331;0.0681)|Lung(427;0.197)	L-Citrulline(DB00155)	CTTCTTGCAGGGTTAAAACAC	0.522													6	62	---	---	---	---	PASS	T	17566199	T	T	17566199	3	4	140	1	0	0	0	0	1	0	0	0	11377	1246	43	3	1607	3	PADI1	1	17566199	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	658919	17566199	231684422	5	49805										
ACTL8	81569	broad.mit.edu	37	chr1	18152822	18152822	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gcctgcgggggcaacaccctCtatcccgggttcacaaagcg	12	15	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:18152822C>A	uc001bat.2	+	3	1125	c.909C>A	c.(907-909)CTC>CTA	p.L303L		NM_030812	NP_110439	Q9H568	ACTL8_HUMAN	actin-like 8	303						cytoplasm|cytoskeleton				ovary(4)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00186)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;6.43e-06)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.00652)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)		GCAACACCCTCTATCCCGGGT	0.612											OREG0013157	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	51	---	---	---	---	PASS	A	18152822	A	A	18152822	2	1	140	1	0	0	0	0	0	0	0	1	202	900	32	2		2	ACTL8	1	18152822	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	586623	18152822	231097799	6	49806										
KIF17	57576	broad.mit.edu	37	chr1	21009181	21009181	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctccagcagcttgctcttggCccgcacttcctcctggatgg	10	16	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:21009181C>T	uc001bdr.3	-	11	2546	c.2428G>A	c.(2428-2430)GCC>ACC	p.A810T	KIF17_uc001bdp.3_Missense_Mutation_p.A88T|KIF17_uc001bdq.3_Missense_Mutation_p.A88T|KIF17_uc009vpx.2_Missense_Mutation_p.A180T|KIF17_uc001bds.3_Missense_Mutation_p.A810T	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	810	Potential.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		TTGCTCTTGGCCCGCACTTCC	0.637													6	79	---	---	---	---	PASS	T	21009181	T	T	21009181	3	4	140	1	0	0	0	0	1	0	0	0	8279	739	26	3	681	3	KIF17	1	21009181	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	2856359	21009181	228241440	7	49807										
USP48	84196	broad.mit.edu	37	chr1	22079485	22079485	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aaaaaaaattcagttcttacCtgctgttgtccagtgtccag	7	9	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:22079485C>A	uc001bfb.2	-	4	778	c.540G>T	c.(538-540)CAG>CAT	p.Q180H	USP48_uc010odq.1_Missense_Mutation_p.Q180H|USP48_uc009vqc.2_Missense_Mutation_p.Q180H|USP48_uc001bfc.2_Missense_Mutation_p.Q180H|USP48_uc001bfe.1_Missense_Mutation_p.Q180H|USP48_uc001bff.2_Missense_Mutation_p.Q180H	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	180					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		CAGTTCTTACCTGCTGTTGTC	0.353													9	24	---	---	---	---	PASS	A	22079485	A	A	22079485	3	1	140	1	0	0	0	0	1	0	0	0	17076	695	24	3	2671	3	USP48	1	22079485	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	1070304	22079485	227171136	8	49808										
S100PBP	64766	broad.mit.edu	37	chr1	33291859	33291859	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gatgatggtgatgtaaattaCacagaggaagagattgatgc	13	3	0	5			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:33291859C>T	uc001bvz.2	+	3	436	c.159C>T	c.(157-159)TAC>TAT	p.Y53Y	S100PBP_uc001bwa.1_Silent_p.Y53Y|S100PBP_uc001bwb.1_Silent_p.Y53Y|S100PBP_uc001bwc.2_Silent_p.Y53Y|S100PBP_uc001bwd.2_RNA	NM_022753	NP_073590	Q96BU1	S1PBP_HUMAN	S100P binding protein isoform a	53						nucleus	calcium-dependent protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				ATGTAAATTACACAGAGGAAG	0.473													7	58	---	---	---	---	PASS	T	33291859	T	T	33291859	2	4	140	1	0	0	0	0	0	0	0	1	13791	489	17	3		3	S100PBP	1	33291859	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	11212374	33291859	215958762	9	49809										
THRAP3	9967	broad.mit.edu	37	chr1	36755023	36755023	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aaaccaggaggaggagaagtCaggcaaatgggagggcctgg	18	6	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:36755023C>A	uc001cae.3	+	5	1627	c.1403C>A	c.(1402-1404)TCA>TAA	p.S468*	THRAP3_uc001caf.3_Nonsense_Mutation_p.S468*|THRAP3_uc001cag.1_Nonsense_Mutation_p.S468*	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	468					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GAGGAGAAGTCAGGCAAATGG	0.453			T	USP6	aneurysmal bone cysts								14	61	---	---	---	---	PASS	A	36755023	A	A	36755023	4	1	140	1	0	0	0	0	0	1	0	0	15871	838	29	2	1413	2	THRAP3	1	36755023	Nonsense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	3463164	36755023	212495598	10	49810										
MACF1	23499	broad.mit.edu	37	chr1	39801599	39801599	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccaagacctgaaggattgcaCtaccaggaatcagatggaaa	10	9	1	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:39801599C>A	uc010oiu.1	+	1	4790	c.4659C>A	c.(4657-4659)CAC>CAA	p.H1553Q	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3118					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)			AAGGATTGCACTACCAGGAAT	0.468													4	72	---	---	---	---	PASS	A	39801599	A	A	39801599	3	1	140	1	0	0	0	0	1	0	0	0	9144	564	20	3	9430	3	MACF1	1	39801599	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	3046576	39801599	209449022	11	49811										
HIVEP3	59269	broad.mit.edu	37	chr1	42048104	42048104	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tttggacgttgttctcctctCcttccctgattctgaaccgg	8	13	3	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:42048104C>G	uc001cgz.3	-	4	3578	c.2365G>C	c.(2365-2367)GAG>CAG	p.E789Q	HIVEP3_uc001cha.3_Missense_Mutation_p.E789Q|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	789	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				GTTCTCCTCTCCTTCCCTGAT	0.542													11	43	---	---	---	---	PASS	G	42048104	G	G	42048104	3	3	140	1	0	0	0	0	1	0	0	0	7188	864	30	2	4879	2	HIVEP3	1	42048104	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	2246505	42048104	207202517	12	49812										
TIE1	7075	broad.mit.edu	37	chr1	43782880	43782880	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcctgtgaagggcgaggagaCcatcctgcagttcagctcag	13	11	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:43782880C>T	uc001ciu.2	+	15	2499	c.2420C>T	c.(2419-2421)ACC>ATC	p.T807I	TIE1_uc010oke.1_Missense_Mutation_p.T762I|TIE1_uc009vwq.2_Missense_Mutation_p.T763I|TIE1_uc010okg.1_Missense_Mutation_p.T452I	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	807	Cytoplasmic (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GGCGAGGAGACCATCCTGCAG	0.607													5	48	---	---	---	---	PASS	T	43782880	T	T	43782880	3	4	140	1	0	0	0	0	1	0	0	0	15890	507	18	3	2478	3	TIE1	1	43782880	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	1734776	43782880	205467741	13	49813										
STIL	6491	broad.mit.edu	37	chr1	47717149	47717149	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agaacaattaattatttcatGgtcattcttagaaggctctt	6	6	4	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:47717149G>T	uc001crc.1	-	17	3678	c.3523C>A	c.(3523-3525)CAT>AAT	p.H1175N	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Missense_Mutation_p.H1129N|STIL_uc010omo.1_Missense_Mutation_p.H1158N|STIL_uc001crd.1_Missense_Mutation_p.H1176N|STIL_uc001cre.1_Missense_Mutation_p.H1175N	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	1175					cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				ATTATTTCATGGTCATTCTTA	0.383													6	91	---	---	---	---	PASS	T	47717149	T	T	47717149	3	4	140	1	0	0	0	0	1	0	0	0	15281	1348	47	3	344	3	STIL	1	47717149	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	3934269	47717149	201533472	14	49814										
LRP8	7804	broad.mit.edu	37	chr1	53728158	53728158	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cattcaatattgtctgacacCagtgtttgccggtccacacc	7	13	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:53728158C>A	uc001cvi.1	-	11	1876	c.1734G>T	c.(1732-1734)CTG>CTT	p.L578L	LRP8_uc001cvh.1_Silent_p.L131L|LRP8_uc001cvk.1_Silent_p.L408L|LRP8_uc001cvj.1_Silent_p.L578L|LRP8_uc001cvl.1_Silent_p.L449L|LRP8_uc001cvm.1_Silent_p.L163L	NM_004631	NP_004622	Q14114	LRP8_HUMAN	low density lipoprotein receptor-related protein	578	LDL-receptor class B 3.|Extracellular (Potential).				cytokine-mediated signaling pathway|endocytosis|lipid metabolic process|platelet activation|proteolysis	caveola	calcium ion binding|very-low-density lipoprotein particle receptor activity				0						TGTCTGACACCAGTGTTTGCC	0.512													10	236	---	---	---	---	PASS	A	53728158	A	A	53728158	2	1	140	1	0	0	0	0	0	0	0	1	8963	581	21	3		3	LRP8	1	53728158	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	6011009	53728158	195522463	15	49815										
C8B	732	broad.mit.edu	37	chr1	57409428	57409428	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	acacacccagactgacgtagAcctcttcaatggcaccacca	6	16	2	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:57409428A>T	uc001cyp.2	-	8	1242	c.1175T>A	c.(1174-1176)GTC>GAC	p.V392D	C8B_uc010oon.1_Missense_Mutation_p.V330D|C8B_uc010ooo.1_Missense_Mutation_p.V340D	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	392	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						ACTGACGTAGACCTCTTCAAT	0.408													13	85	---	---	---	---	PASS	T	57409428	T	T	57409428	3	4	140	1	0	0	0	0	1	0	0	0	2417	275	10	5	620	5	C8B	1	57409428	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	3681270	57409428	191841193	16	49816										
PHGDH	26227	broad.mit.edu	37	chr1	120263815	120263815	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctgtgaaggccttattgttcGctctgccaccaaggtgaccg	11	12	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:120263815G>C	uc001ehz.2	+	2	388	c.161G>C	c.(160-162)CGC>CCC	p.R54P	PHGDH_uc009whl.2_5'UTR|PHGDH_uc009whm.2_5'UTR|PHGDH_uc001eia.2_Missense_Mutation_p.R54P|PHGDH_uc009whn.2_Missense_Mutation_p.R54P|PHGDH_uc001eib.2_Missense_Mutation_p.R20P	NM_006623	NP_006614	O43175	SERA_HUMAN	phosphoglycerate dehydrogenase	54					brain development|L-serine biosynthetic process		electron carrier activity|NAD binding|phosphoglycerate dehydrogenase activity			ovary(1)	1	all_cancers(5;1.18e-09)|all_epithelial(5;2.16e-10)|Melanoma(3;1.93e-05)|all_neural(166;0.219)	all_lung(203;3.66e-05)|Lung NSC(69;0.000202)|all_epithelial(167;0.0347)		Lung(183;0.0111)|LUSC - Lung squamous cell carcinoma(189;0.0593)	NADH(DB00157)	CTTATTGTTCGCTCTGCCACC	0.522													22	81	---	---	---	---	PASS	C	120263815	C	C	120263815	3	2	140	1	0	0	0	0	1	0	0	0	11841	1087	38	4	167	4	PHGDH	1	120263815	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	62854387	120263815	128986806	17	49817										
ANKRD35	148741	broad.mit.edu	37	chr1	145561622	145561622	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cccagcgtctgagaccatcaGgaaagccacaggacagcaac	10	14	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:145561622G>T	uc001eob.1	+	10	1418	c.1310G>T	c.(1309-1311)AGG>ATG	p.R437M	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Missense_Mutation_p.R280M	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	437										ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GAGACCATCAGGAAAGCCACA	0.572													6	85	---	---	---	---	PASS	T	145561622	T	T	145561622	3	4	140	1	0	0	0	0	1	0	0	0	664	1000	35	3	1348	3	ANKRD35	1	145561622	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	25297807	145561622	103688999	18	49818										
RPTN	126638	broad.mit.edu	37	chr1	152128552	152128552	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctgtccatttgaccatagtgGgaactctgaccttgtctgtc	9	11	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:152128552G>T	uc001ezs.1	-	3	1088	c.1023C>A	c.(1021-1023)TCC>TCA	p.S341S		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	341	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						GACCATAGTGGGAACTCTGAC	0.498													12	476	---	---	---	---	PASS	T	152128552	T	T	152128552	2	4	140	1	0	0	0	0	0	0	0	1	13664	1219	43	3		3	RPTN	1	152128552	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	6566930	152128552	97122069	19	49819										
FLG	2312	broad.mit.edu	37	chr1	152285911	152285911	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctccagtgctggtcccggtcCgtccatgggcagagtcaggc	14	14	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:152285911C>G	uc001ezu.1	-	3	1487	c.1451G>C	c.(1450-1452)CGG>CCG	p.R484P	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	484	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGTCCCGGTCCGTCCATGGGC	0.607									Ichthyosis				37	201	---	---	---	---	PASS	G	152285911	G	G	152285911	3	3	140	1	0	0	0	0	1	0	0	0	5922	652	23	4	10738	4	FLG	1	152285911	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	157359	152285911	96964710	20	49820										
LCE3D	84648	broad.mit.edu	37	chr1	152552178	152552178	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gccgcagccagagcccccgcCttgctgaccactgcccctgt	10	20	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:152552178C>A	uc001fab.2	-	2	292	c.235G>T	c.(235-237)GGC>TGC	p.G79C		NM_032563	NP_115952	Q9BYE3	LCE3D_HUMAN	late cornified envelope 3D	79					keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)	UCEC - Uterine corpus endometrioid carcinoma (5;0.153)|KIRC - Kidney renal clear cell carcinoma(4;0.0323)|Kidney(5;0.0378)		GAGCCCCCGCCTTGCTGACCA	0.647													9	49	---	---	---	---	PASS	A	152552178	A	A	152552178	3	1	140	1	0	0	0	0	1	0	0	0	8672	681	24	3	47	3	LCE3D	1	152552178	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	266267	152552178	96698443	21	49821										
ASH1L	55870	broad.mit.edu	37	chr1	155448861	155448861	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ttttccgttttcgtttctgcCttttcatcttgtcatagctg	6	10	4	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:155448861C>A	uc009wqq.2	-	3	4280	c.3800G>T	c.(3799-3801)AGG>ATG	p.R1267M	ASH1L_uc001fkt.2_Missense_Mutation_p.R1267M|ASH1L_uc009wqr.1_Missense_Mutation_p.R1267M	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1267					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TCGTTTCTGCCTTTTCATCTT	0.408													27	108	---	---	---	---	PASS	A	155448861	A	A	155448861	3	1	140	1	0	0	0	0	1	0	0	0	1041	681	24	3	5198	3	ASH1L	1	155448861	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	2896683	155448861	93801760	22	49822										
KIRREL	55243	broad.mit.edu	37	chr1	158057651	158057651	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cccgagatcttgggctacagGtgagggggtcagaggctggg	19	8	2	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:158057651G>C	uc001frn.3	+	6	1171	c.767_splice	c.e6+1	p.R256_splice	KIRREL_uc010pib.1_Splice_Site_p.R156_splice|KIRREL_uc009wsq.2_Splice_Site_p.R92_splice|KIRREL_uc001fro.3_Splice_Site_p.R54_splice	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor							integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					TGGGCTACAGGTGAGGGGGTC	0.587											OREG0013906	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	23	---	---	---	---	PASS	C	158057651	C	C	158057651	5	2	140	1	0	0	0	0	0	0	1	0	8324	1275	44	4	790	4	KIRREL	1	158057651	Splice_Site	SNP	G	TCGA-66-2734-01A-01D-0983-08	2608790	158057651	91192970	23	49823										
MNDA	4332	broad.mit.edu	37	chr1	158815425	158815425	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tggatgcaagaagaaatgttCcccaaaacgacccagtgaca	9	10	0	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:158815425C>T	uc001fsz.1	+	5	819	c.619C>T	c.(619-621)CCC>TCC	p.P207S		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	207	HIN-200.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					AAGAAATGTTCCCCAAAACGA	0.443													6	40	---	---	---	---	PASS	T	158815425	T	T	158815425	3	4	140	1	0	0	0	0	1	0	0	0	9676	855	30	2	633	2	MNDA	1	158815425	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	757774	158815425	90435196	24	49824										
MYOC	4653	broad.mit.edu	37	chr1	171621186	171621186	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gcacagcccgagcagtgtctCgggtctggggacactggccc	15	14	2	0	rs144579767		TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:171621186C>A	uc001ghu.2	-	1	588	c.566G>T	c.(565-567)CGA>CTA	p.R189L	MYOC_uc010pmk.1_Missense_Mutation_p.R131L	NM_000261	NP_000252	Q99972	MYOC_HUMAN	myocilin precursor	189			R -> Q.		anatomical structure morphogenesis	cilium|extracellular space|rough endoplasmic reticulum	structural molecule activity			lung(1)	1	all_cancers(6;5.47e-10)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					AGCAGTGTCTCGGGTCTGGGG	0.567													52	164	---	---	---	---	PASS	A	171621186	A	A	171621186	3	1	140	1	0	0	0	0	1	0	0	0	10086	884	31	2	960	2	MYOC	1	171621186	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	12805761	171621186	77629435	25	49825										
MRPS14	63931	broad.mit.edu	37	chr1	174987652	174987652	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ttttcgtctcttcacatcgcGccacattctccagtctacat	4	15	4	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:174987652G>T	uc001gkk.2	-	2	123	c.106C>A	c.(106-108)CGC>AGC	p.R36S	MRPS14_uc009wwr.2_Missense_Mutation_p.R21S	NM_022100	NP_071383	O60783	RT14_HUMAN	mitochondrial ribosomal protein S14	36					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0						TTCACATCGCGCCACATTCTC	0.443													4	61	---	---	---	---	PASS	T	174987652	T	T	174987652	3	4	140	1	0	0	0	0	1	0	0	0	9824	1087	38	1	288	1	MRPS14	1	174987652	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	3366466	174987652	74262969	26	49826										
TNN	63923	broad.mit.edu	37	chr1	175053048	175053048	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgtgcccaagagcagtgaccCcaagagccgatatgacatca	10	12	1	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:175053048C>G	uc001gkl.1	+	5	1324	c.1211C>G	c.(1210-1212)CCC>CGC	p.P404R	TNN_uc010pmx.1_Missense_Mutation_p.P404R	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	404	Fibronectin type-III 2.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		AGCAGTGACCCCAAGAGCCGA	0.542													9	37	---	---	---	---	PASS	G	175053048	G	G	175053048	3	3	140	1	0	0	0	0	1	0	0	0	16320	623	22	4	1225	4	TNN	1	175053048	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	65396	175053048	74197573	27	49827										
ASTN1	460	broad.mit.edu	37	chr1	177001635	177001635	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ttttcattgcagccctgcagGgagtcgagggtgcgcgtgac	15	10	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:177001635G>T	uc001glc.2	-	3	1034	c.822C>A	c.(820-822)TCC>TCA	p.S274S	ASTN1_uc001glb.1_Silent_p.S274S|ASTN1_uc001gld.1_Silent_p.S274S|ASTN1_uc009wwx.1_Silent_p.S274S|ASTN1_uc001gle.3_RNA	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	274					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						AGCCCTGCAGGGAGTCGAGGG	0.587													6	75	---	---	---	---	PASS	T	177001635	T	T	177001635	2	4	140	1	0	0	0	0	0	0	0	1	1064	1219	43	3		3	ASTN1	1	177001635	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	1948587	177001635	72248986	28	49828										
HMCN1	83872	broad.mit.edu	37	chr1	186147831	186147831	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aacagcagaacatctctctcCaggactagaaggactattag	8	10	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:186147831C>A	uc001grq.1	+	104	16456	c.16227C>A	c.(16225-16227)TCC>TCA	p.S5409S	HMCN1_uc001grs.1_Intron	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5409					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CATCTCTCTCCAGGACTAGAA	0.438													6	100	---	---	---	---	PASS	A	186147831	A	A	186147831	2	1	140	1	0	0	0	0	0	0	0	1	7220	581	21	3		3	HMCN1	1	186147831	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	9146196	186147831	63102790	29	49829										
CFHR4	10877	broad.mit.edu	37	chr1	196871656	196871656	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	acaatcttattcctattactGtgatcaaaattttgtgactc	4	8	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:196871656G>T	uc001gto.2	+	2	236	c.167G>T	c.(166-168)TGT>TTT	p.C56F	CFHR4_uc009wyy.2_Missense_Mutation_p.C55F|CFHR4_uc001gtp.2_Missense_Mutation_p.C56F	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	56	Sushi 1.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						TCCTATTACTGTGATCAAAAT	0.403													4	43	---	---	---	---	PASS	T	196871656	T	T	196871656	3	4	140	1	0	0	0	0	1	0	0	0	3287	1377	48	3	173	3	CFHR4	1	196871656	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	10723825	196871656	52378965	30	49830										
PIK3C2B	5287	broad.mit.edu	37	chr1	204433648	204433648	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	accttcaggttgacctcatcCccgaggtgctctgggctagg	12	13	3	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:204433648C>A	uc001haw.2	-	5	1598	c.1119G>T	c.(1117-1119)GGG>GGT	p.G373G	PIK3C2B_uc010pqv.1_Silent_p.G373G|PIK3C2B_uc001hax.1_Silent_p.G373G|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	373					cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			TGACCTCATCCCCGAGGTGCT	0.527													16	77	---	---	---	---	PASS	A	204433648	A	A	204433648	2	1	140	1	0	0	0	0	0	0	0	1	11910	610	22	3		3	PIK3C2B	1	204433648	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	7561992	204433648	44816973	31	49831										
CR2	1380	broad.mit.edu	37	chr1	207643415	207643415	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccgatgcaatgcccaaggcaCatgggagccatctgcaccag	11	14	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:207643415C>A	uc001hfw.2	+	6	1287	c.1193C>A	c.(1192-1194)ACA>AAA	p.T398K	CR2_uc001hfv.2_Missense_Mutation_p.T398K|CR2_uc009xch.2_Missense_Mutation_p.T398K|CR2_uc009xci.1_5'Flank	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	398	Sushi 6.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						GCCCAAGGCACATGGGAGCCA	0.458													8	28	---	---	---	---	PASS	A	207643415	A	A	207643415	3	1	140	1	0	0	0	0	1	0	0	0	3842	478	17	3	1215	3	CR2	1	207643415	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	3209767	207643415	41607206	32	49832										
TATDN3	128387	broad.mit.edu	37	chr1	212988413	212988413	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atatattgcccaggtgaaagGgatctcagtggaagaagtta	12	5	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:212988413G>T	uc001hjo.2	+	10	834	c.740G>T	c.(739-741)GGG>GTG	p.G247V	TATDN3_uc010ptj.1_3'UTR|TATDN3_uc010ptk.1_Missense_Mutation_p.G254V|TATDN3_uc001hjp.2_Missense_Mutation_p.G246V|TATDN3_uc010ptl.1_Missense_Mutation_p.G226V|TATDN3_uc010ptm.1_Missense_Mutation_p.G194V	NM_001042552	NP_001036017	Q17R31	TATD3_HUMAN	TatD DNase domain containing 3 isoform 1	247						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00699)|all cancers(67;0.0118)|GBM - Glioblastoma multiforme(131;0.0801)|Epithelial(68;0.104)		CAGGTGAAAGGGATCTCAGTG	0.423													7	98	---	---	---	---	PASS	T	212988413	T	T	212988413	3	4	140	1	0	0	0	0	1	0	0	0	15590	1232	43	3	799	3	TATDN3	1	212988413	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	5344998	212988413	36262208	33	49833										
RYR2	6262	broad.mit.edu	37	chr1	237666802	237666802	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cccatccctgtggataccagCcaggtaccaagatccactcg	8	16	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:237666802C>A	uc001hyl.1	+	22	2730	c.2610C>A	c.(2608-2610)AGC>AGA	p.S870R		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	870	Cytoplasmic (By similarity).|1.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TGGATACCAGCCAGGTACCAA	0.418													18	66	---	---	---	---	PASS	A	237666802	A	A	237666802	3	1	140	1	0	0	0	0	1	0	0	0	13769	738	26	3	2696	3	RYR2	1	237666802	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	24678389	237666802	11583819	34	49834										
RYR2	6262	broad.mit.edu	37	chr1	237670108	237670108	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	attgagcttggctggcagtaTggtccggtatgtaattttga	13	5	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:237670108T>C	uc001hyl.1	+	23	2832	c.2712T>C	c.(2710-2712)TAT>TAC	p.Y904Y		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	904	Cytoplasmic (By similarity).|1.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GCTGGCAGTATGGTCCGGTAT	0.373													14	48	---	---	---	---	PASS	C	237670108	C	C	237670108	2	2	140	1	0	0	0	0	0	0	0	1	13769	1471	51	5		5	RYR2	1	237670108	Silent	SNP	T	TCGA-66-2734-01A-01D-0983-08	3306	237670108	11580513	35	49835										
RYR2	6262	broad.mit.edu	37	chr1	237813369	237813369	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccaaagctcagcgggattccAtagaagtttgtttactctct	8	10	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:237813369A>T	uc001hyl.1	+	50	7825	c.7705A>T	c.(7705-7707)ATA>TTA	p.I2569L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2569	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GCGGGATTCCATAGAAGTTTG	0.398													16	86	---	---	---	---	PASS	T	237813369	T	T	237813369	3	4	140	1	0	0	0	0	1	0	0	0	13769	217	8	5	7903	5	RYR2	1	237813369	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	143261	237813369	11437252	36	49836										
OR2G3	81469	broad.mit.edu	37	chr1	247768907	247768907	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gatgggattgggcaatgagaGttccctaatggatttcatcc	12	7	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:247768907G>T	uc010pyz.1	+	1	20	c.20G>T	c.(19-21)AGT>ATT	p.S7I		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	7	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			GGCAATGAGAGTTCCCTAATG	0.463													5	27	---	---	---	---	PASS	T	247768907	T	T	247768907	3	4	140	1	0	0	0	0	1	0	0	0	10999	1029	36	3	22	3	OR2G3	1	247768907	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	9955538	247768907	1481714	37	49837										
TRIM58	25893	broad.mit.edu	37	chr1	248039414	248039414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gagcagagtggggtttagggGtctgtcaagacacactgcca	15	8	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr1:248039414G>T	uc001ido.2	+	6	1132	c.1084G>T	c.(1084-1086)GTC>TTC	p.V362F	OR2W3_uc001idp.1_Intron	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	362	B30.2/SPRY.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GGGTTTAGGGGTCTGTCAAGA	0.552													6	26	---	---	---	---	PASS	T	248039414	T	T	248039414	3	4	140	1	0	0	0	0	1	0	0	0	16528	1261	44	3	1106	3	TRIM58	1	248039414	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	270507	248039414	1211207	38	49838										
YIPF4	84272	broad.mit.edu	37	chr2	32526505	32526505	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	attcattacttcctctcattGtaatagcccctgtacttttg	4	11	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:32526505G>C	uc002rok.2	+	5	805	c.538G>C	c.(538-540)GTA>CTA	p.V180L		NM_032312	NP_115688	Q9BSR8	YIPF4_HUMAN	Yip1 domain family, member 4	180	Helical; (Potential).					endoplasmic reticulum|integral to membrane	protein binding				0	Acute lymphoblastic leukemia(172;0.155)					TCCTCTCATTGTAATAGCCCC	0.318													18	57	---	---	---	---	PASS	C	32526505	C	C	32526505	3	2	140	1	0	0	0	0	1	0	0	0	17477	1377	48	4	556	4	YIPF4	2	32526505	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08		32526505	210672868	39	49839										
TTC27	55622	broad.mit.edu	37	chr2	32855589	32855589	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cactaattttttatattacaGagagtggatctttcctacaa	5	7	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:32855589G>T	uc002rom.2	+	2	320	c.89_splice	c.e2-1	p.E30_splice	TTC27_uc010ymx.1_Splice_Site	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27								protein binding			central_nervous_system(1)	1						TTATATTACAGAGAGTGGATC	0.303													8	36	---	---	---	---	PASS	T	32855589	T	T	32855589	5	4	140	1	0	0	0	0	0	0	1	0	16692	956	33	2	94	2	TTC27	2	32855589	Splice_Site	SNP	G	TCGA-66-2734-01A-01D-0983-08	329084	32855589	210343784	40	49840										
C2orf61	285051	broad.mit.edu	37	chr2	47378423	47378423	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tttgtcaactagtgtgctggGgcttggccgtggtttgtctt	14	7	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:47378423G>C	uc002rvs.2	-	3	500	c.373C>G	c.(373-375)CCC>GCC	p.P125A	C2orf61_uc010fbd.2_RNA|C2orf61_uc010yog.1_Missense_Mutation_p.P125A	NM_173649	NP_775920	Q8N801	CB061_HUMAN	hypothetical protein LOC285051 isoform 2	125								p.0?(2)			0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)			AGTGTGCTGGGGCTTGGCCGT	0.453													8	57	---	---	---	---	PASS	C	47378423	C	C	47378423	3	2	140	1	0	0	0	0	1	0	0	0	2180	1232	43	4	408	4	C2orf61	2	47378423	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	14522834	47378423	195820950	41	49841										
LRRTM1	347730	broad.mit.edu	37	chr2	80529786	80529786	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cgtggtggccgagctggcagGgggccccagatcactgcggt	18	12	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:80529786G>A	uc002sok.1	-	2	1429	c.1159C>T	c.(1159-1161)CCT>TCT	p.P387S	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	387	Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GAGCTGGCAGGGGGCCCCAGA	0.726										HNSCC(69;0.2)			7	11	---	---	---	---	PASS	A	80529786	A	A	80529786	3	1	140	1	0	0	0	0	1	0	0	0	9039	1232	43	3	413	3	LRRTM1	2	80529786	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	33151363	80529786	162669587	42	49842										
EIF2AK3	9451	broad.mit.edu	37	chr2	88874860	88874860	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	acctgcttctttgtggtgaaGgagctatgatttcaatatgt	10	6	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:88874860G>T	uc002stc.3	-	13	2343	c.2141C>A	c.(2140-2142)CCT>CAT	p.P714H		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	714	Cytoplasmic (Potential).|Protein kinase.				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						TTGTGGTGAAGGAGCTATGAT	0.453													7	117	---	---	---	---	PASS	T	88874860	T	T	88874860	3	4	140	1	0	0	0	0	1	0	0	0	4998	1000	35	3	1229	3	EIF2AK3	2	88874860	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	8345074	88874860	154324513	43	49843										
BUB1	699	broad.mit.edu	37	chr2	111398613	111398613	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctcactttagttttatacctGgtagttccatggtttgttgc	8	8	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:111398613G>T	uc002tgc.2	-	23	3065	c.2953C>A	c.(2953-2955)CAG>AAG	p.Q985K	BUB1_uc010yxh.1_Missense_Mutation_p.Q965K|BUB1_uc010fkb.2_Missense_Mutation_p.Q928K	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	985	Protein kinase.				apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		TTTTATACCTGGTAGTTCCAT	0.368													5	49	---	---	---	---	PASS	T	111398613	T	T	111398613	3	4	140	1	0	0	0	0	1	0	0	0	1570	1357	47	3	316	3	BUB1	2	111398613	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	22523753	111398613	131800760	44	49844										
INHBB	3625	broad.mit.edu	37	chr2	121106938	121106938	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcacggaggccatccaggccTtgtttgagcggggcgagcgg	17	11	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:121106938T>G	uc002tmn.2	+	2	758	c.712T>G	c.(712-714)TTG>GTG	p.L238V		NM_002193	NP_002184	P09529	INHBB_HUMAN	inhibin beta B subunit preproprotein	238					activin receptor signaling pathway|cellular response to insulin stimulus|cellular response to starvation|defense response|fat cell differentiation|growth|negative regulation of follicle-stimulating hormone secretion|negative regulation of hepatocyte growth factor biosynthetic process|negative regulation of insulin secretion|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation	extracellular region|perinuclear region of cytoplasm	cytokine activity|growth factor activity|hormone activity|host cell surface receptor binding|protein homodimerization activity			pancreas(2)|skin(1)	3		Prostate(154;0.122)				CATCCAGGCCTTGTTTGAGCG	0.647													7	82	---	---	---	---	PASS	G	121106938	G	G	121106938	3	3	140	1	0	0	0	0	1	0	0	0	7742	1606	56	5	718	5	INHBB	2	121106938	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	9708325	121106938	122092435	45	49845										
GLI2	2736	broad.mit.edu	37	chr2	121742113	121742113	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	accccagctctctccggaagCatgtgaaaacggtccacggc	10	15	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:121742113C>A	uc010flp.2	+	11	1780	c.1750C>A	c.(1750-1752)CAT>AAT	p.H584N	GLI2_uc002tmq.1_Missense_Mutation_p.H256N|GLI2_uc002tmr.1_Missense_Mutation_p.H239N|GLI2_uc002tmt.3_Missense_Mutation_p.H256N|GLI2_uc002tmu.3_Missense_Mutation_p.H239N|GLI2_uc002tmw.1_Missense_Mutation_p.H567N	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	584	C2H2-type 5.				axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				TCTCCGGAAGCATGTGAAAAC	0.572													20	199	---	---	---	---	PASS	A	121742113	A	A	121742113	3	1	140	1	0	0	0	0	1	0	0	0	6438	710	25	3	1792	3	GLI2	2	121742113	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	635175	121742113	121457260	46	49846										
GALNT13	114805	broad.mit.edu	37	chr2	155158018	155158018	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	acacttttcctggtggcactGgtcatgtcatcaacaagaac	8	11	3	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:155158018G>T	uc002tyr.3	+	9	1639	c.1072G>T	c.(1072-1074)GGT>TGT	p.G358C	GALNT13_uc002tyt.3_Missense_Mutation_p.G358C|GALNT13_uc010foc.1_Missense_Mutation_p.G177C|GALNT13_uc010fod.2_Missense_Mutation_p.G111C	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	358	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						TGGTGGCACTGGTCATGTCAT	0.438													7	85	---	---	---	---	PASS	T	155158018	T	T	155158018	3	4	140	1	0	0	0	0	1	0	0	0	6211	1348	47	3	1098	3	GALNT13	2	155158018	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	33415905	155158018	88041355	47	49847										
GPD2	2820	broad.mit.edu	37	chr2	157425354	157425354	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cagtgagaagaggggatgtcCtggcagcatggagtggaatc	17	6	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:157425354C>T	uc002tzf.3	+	10	1543	c.1183C>T	c.(1183-1185)CTG>TTG	p.L395L	GPD2_uc010zch.1_Silent_p.L168L|GPD2_uc002tzd.3_Silent_p.L395L|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	395					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						AGGGGATGTCCTGGCAGCATG	0.398													8	34	---	---	---	---	PASS	T	157425354	T	T	157425354	2	4	140	1	0	0	0	0	0	0	0	1	6606	680	24	3		3	GPD2	2	157425354	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	2267336	157425354	85774019	48	49848										
XIRP2	129446	broad.mit.edu	37	chr2	168097247	168097247	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcaatatgttcaagaaactgGtaagagtctggtattattgg	10	4	3	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:168097247G>A	uc002udx.2	+	6	1060	c.1042_splice	c.e6+1	p.V348_splice	XIRP2_uc010fpn.2_Splice_Site_p.V381_splice|XIRP2_uc010fpo.2_Splice_Site_p.V348_splice|XIRP2_uc010fpp.2_Splice_Site_p.V348_splice|XIRP2_uc002udy.2_Splice_Site_p.V173_splice|XIRP2_uc010fpq.2_Splice_Site_p.V126_splice|XIRP2_uc010fpr.2_Splice_Site_p.V126_splice	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1						actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CAAGAAACTGGTAAGAGTCTG	0.373													5	48	---	---	---	---	PASS	A	168097247	A	A	168097247	5	1	140	1	0	0	0	0	0	0	1	0	17427	1275	44	3	1065	3	XIRP2	2	168097247	Splice_Site	SNP	G	TCGA-66-2734-01A-01D-0983-08	10671893	168097247	75102126	49	49849										
LRP2	4036	broad.mit.edu	37	chr2	170030452	170030452	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	attcttcaatgggctcatccGagtggtctccacaatcatta	7	11	5	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:170030452G>T	uc002ues.2	-	56	11204	c.10991C>A	c.(10990-10992)TCG>TAG	p.S3664*		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3664	LDL-receptor class A 29.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GGGCTCATCCGAGTGGTCTCC	0.577													5	69	---	---	---	---	PASS	T	170030452	T	T	170030452	4	4	140	1	0	0	0	0	0	1	0	0	8956	1059	37	2	3072	2	LRP2	2	170030452	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1933205	170030452	73168921	50	49850										
HJURP	55355	broad.mit.edu	37	chr2	234762542	234762542	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgcaccaccggggtgtcctcGaagggctggttgtactgcgg	16	11	0	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:234762542G>C	uc002vvg.2	-	2	198	c.132C>G	c.(130-132)TTC>TTG	p.F44L	HJURP_uc010znd.1_Missense_Mutation_p.F37L|HJURP_uc010zne.1_Missense_Mutation_p.F37L	NM_018410	NP_060880	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	44					cell cycle|CenH3-containing nucleosome assembly at centromere|centromeric core chromatin assembly|chromosome segregation|regulation of DNA binding|regulation of protein complex assembly	condensed chromosome kinetochore|cytoplasm|nucleolus|nucleoplasm	DNA binding|histone binding			ovary(1)	1		Breast(86;0.00204)|all_lung(227;0.00433)|Renal(207;0.00685)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0719)|Lung SC(224;0.128)		Epithelial(121;2.01e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000186)|Lung(119;0.00521)|LUSC - Lung squamous cell carcinoma(224;0.00829)		GGGTGTCCTCGAAGGGCTGGT	0.642													4	69	---	---	---	---	PASS	C	234762542	C	C	234762542	3	2	140	1	0	0	0	0	1	0	0	0	7189	1049	37	2	2146	2	HJURP	2	234762542	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	64732090	234762542	8436831	51	49851										
FARP2	9855	broad.mit.edu	37	chr2	242373648	242373648	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	acttctggaagatttgtgtgGagtatcacaccttttttaga	9	6	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr2:242373648G>T	uc002wbi.1	+	10	1060	c.943G>T	c.(943-945)GAG>TAG	p.E315*	FARP2_uc010zoq.1_Nonsense_Mutation_p.E315*|FARP2_uc010zor.1_Nonsense_Mutation_p.E315*	NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	315	FERM.				axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		GATTTGTGTGGAGTATCACAC	0.428													6	74	---	---	---	---	PASS	T	242373648	T	T	242373648	4	4	140	1	0	0	0	0	0	1	0	0	5677	1175	41	2	977	2	FARP2	2	242373648	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	7611106	242373648	825725	52	49852										
EDEM1	9695	broad.mit.edu	37	chr3	5249922	5249922	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	acccactgagaccagagttaGtggaatccacatatctcctc	7	13	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:5249922G>T	uc003bqi.2	+	8	1615	c.1483G>T	c.(1483-1485)GTG>TTG	p.V495L	EDEM1_uc011asz.1_Missense_Mutation_p.V273L|EDEM1_uc003bqh.2_Missense_Mutation_p.V495L	NM_014674	NP_055489	Q92611	EDEM1_HUMAN	ER degradation enhancer, mannosidase alpha-like	495	Lumenal (Potential).				ER-associated protein catabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	integral to endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			ovary(2)|breast(1)	3				Epithelial(13;0.0588)|OV - Ovarian serous cystadenocarcinoma(96;0.0682)		ACCAGAGTTAGTGGAATCCAC	0.463													17	37	---	---	---	---	PASS	T	5249922	T	T	5249922	3	4	140	1	0	0	0	0	1	0	0	0	4911	1029	36	3	1513	3	EDEM1	3	5249922	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08		5249922	192772508	53	49853										
SH3BP5	9467	broad.mit.edu	37	chr3	15301308	15301308	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ttgccttgagttcaaaataaGgcctgcagaagacaggaagg	12	7	1	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:15301308G>T	uc003bzp.1	-	6	818	c.629C>A	c.(628-630)CCT>CAT	p.P210H	SH3BP5_uc010hem.1_Intron|SH3BP5_uc003bzq.1_Missense_Mutation_p.P53H|SH3BP5_uc003bzr.1_Missense_Mutation_p.P53H|uc003bzo.1_RNA	NM_004844	NP_004835	O60239	3BP5_HUMAN	SH3-domain binding protein 5 (BTK-associated)	210					intracellular signal transduction	mitochondrion	protein kinase inhibitor activity|SH3 domain binding				0						TTCAAAATAAGGCCTGCAGAA	0.448													9	164	---	---	---	---	PASS	T	15301308	T	T	15301308	3	4	140	1	0	0	0	0	1	0	0	0	14247	1000	35	3	754	3	SH3BP5	3	15301308	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	10051386	15301308	182721122	54	49854										
SCN10A	6336	broad.mit.edu	37	chr3	38805039	38805039	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aatgctctaagaactctgaaTgtccgcaggcctgagatccc	9	12	2	3	rs150977149	byFrequency	TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:38805039T>G	uc003ciq.2	-	5	648	c.648A>C	c.(646-648)ACA>ACC	p.T216T		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	216	I.|Helical; Voltage-sensor; Name=S4 of repeat I; (Potential).				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GAACTCTGAATGTCCGCAGGC	0.403													11	54	---	---	---	---	PASS	G	38805039	G	G	38805039	2	3	140	1	0	0	0	0	0	0	0	1	13912	1451	51	5		5	SCN10A	3	38805039	Silent	SNP	T	TCGA-66-2734-01A-01D-0983-08	23503731	38805039	159217391	55	49855										
CELSR3	1951	broad.mit.edu	37	chr3	48664368	48664368	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gagggcacccaggtccaggaTgaggctgtggaagtctggct	17	9	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:48664368T>C	uc003cuf.1	-	53	12172	c.12172A>G	c.(12172-12174)ATC>GTC	p.I4058V	SLC26A6_uc003cug.2_Missense_Mutation_p.I651V|SLC26A6_uc003cuh.2_Missense_Mutation_p.I672V|SLC26A6_uc010hke.2_Missense_Mutation_p.I504V|SLC26A6_uc003cuk.2_Missense_Mutation_p.I564V|SLC26A6_uc003cui.2_Missense_Mutation_p.I671V|SLC26A6_uc003cuj.2_Missense_Mutation_p.I653V|SLC26A6_uc011bbp.1_Missense_Mutation_p.I636V	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	Error:Variant_position_missing_in_Q9NYQ7_after_alignment					homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AGGTCCAGGATGAGGCTGTGG	0.597													10	50	---	---	---	---	PASS	C	48664368	C	C	48664368	3	2	140	1	0	0	0	0	1	0	0	0	3223	1464	51	5		5	CELSR3	3	48664368	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	9859329	48664368	149358062	56	49856										
IQCF2	389123	broad.mit.edu	37	chr3	51895936	51895936	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gaaagcattgaatggaagacAttgcagaagaagaaacagca	11	5	0	5			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:51895936A>C	uc003dbt.1	+	2	119	c.81A>C	c.(79-81)ACA>ACC	p.T27T	IQCF1_uc003dbq.3_Intron|IQCF2_uc003dbu.1_RNA	NM_203424	NP_982248	Q8IXL9	IQCF2_HUMAN	IQ motif containing F2	27											0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		AATGGAAGACATTGCAGAAGA	0.328													10	43	---	---	---	---	PASS	C	51895936	C	C	51895936	2	2	140	1	0	0	0	0	0	0	0	1	7808	204	8	5		5	IQCF2	3	51895936	Silent	SNP	A	TCGA-66-2734-01A-01D-0983-08	3231568	51895936	146126494	57	49857										
GNL3	26354	broad.mit.edu	37	chr3	52724612	52724612	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ttctaattgctatcagatctGgtaccaaaggagaatttgga	9	6	3	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:52724612G>T	uc003dfd.2	+	7	719	c.546G>T	c.(544-546)CTG>CTT	p.L182L	GNL3_uc011beh.1_RNA|GNL3_uc003dfe.2_Silent_p.L170L|GNL3_uc003dff.2_Silent_p.L170L|SNORD19B_uc010hml.1_5'Flank|SNORD69_uc003dfh.1_5'Flank	NM_014366	NP_055181	Q9BVP2	GNL3_HUMAN	guanine nucleotide binding protein-like 3	182					regulation of cell proliferation	nucleolus	GTP binding|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;6.75e-05)|Kidney(197;0.000611)|KIRC - Kidney renal clear cell carcinoma(197;0.000773)|OV - Ovarian serous cystadenocarcinoma(275;0.048)		TATCAGATCTGGTACCAAAGG	0.254													8	284	---	---	---	---	PASS	T	52724612	T	T	52724612	2	4	140	1	0	0	0	0	0	0	0	1	6537	1335	47	3		3	GNL3	3	52724612	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	828676	52724612	145297818	58	49858										
CACNA2D3	55799	broad.mit.edu	37	chr3	54905622	54905622	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agtagcgttgacctctctgaGgtggagtgggaagaccgaga	16	7	1	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:54905622G>T	uc003dhf.2	+	18	1731	c.1683G>T	c.(1681-1683)GAG>GAT	p.E561D	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Missense_Mutation_p.E467D|CACNA2D3_uc003dhh.1_RNA|CACNA2D3_uc010hmv.1_Missense_Mutation_p.E295D	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	561	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		ACCTCTCTGAGGTGGAGTGGG	0.473													6	86	---	---	---	---	PASS	T	54905622	T	T	54905622	3	4	140	1	0	0	0	0	1	0	0	0	2550	991	35	3	1753	3	CACNA2D3	3	54905622	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	2181010	54905622	143116808	59	49859										
C3orf63	23272	broad.mit.edu	37	chr3	56661628	56661628	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	accaactgtgacaacctctgGgtttagaattgattcatcag	8	9	3	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:56661628G>T	uc003did.3	-	19	3930	c.3829C>A	c.(3829-3831)CCA>ACA	p.P1277T	C3orf63_uc003dib.3_Missense_Mutation_p.P396T|C3orf63_uc003dic.3_Missense_Mutation_p.P901T|C3orf63_uc003die.3_Missense_Mutation_p.P1338T	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	1338										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		ACAACCTCTGGGTTTAGAATT	0.353													5	49	---	---	---	---	PASS	T	56661628	T	T	56661628	3	4	140	1	0	0	0	0	1	0	0	0	2239	1232	43	3	1080	3	C3orf63	3	56661628	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1756006	56661628	141360802	60	49860										
DZIP3	9666	broad.mit.edu	37	chr3	108373066	108373066	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctcagtcagtagacttataaAagatgatgcaagtgatgttc	9	6	2	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:108373066A>T	uc003dxd.2	+	19	2530	c.2108A>T	c.(2107-2109)AAA>ATA	p.K703I	DZIP3_uc003dxf.1_Missense_Mutation_p.K703I|DZIP3_uc011bhm.1_Missense_Mutation_p.K154I|DZIP3_uc003dxg.1_Missense_Mutation_p.K426I	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	703					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						AGACTTATAAAAGATGATGCA	0.403													11	37	---	---	---	---	PASS	T	108373066	T	T	108373066	3	4	140	1	0	0	0	0	1	0	0	0	4865	14	1	5	2178	5	DZIP3	3	108373066	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	51711438	108373066	89649364	61	49861										
SLC35A5	55032	broad.mit.edu	37	chr3	112300035	112300035	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tttgacttcaggccctccctGgaatttttcttggaagcccc	8	13	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:112300035G>T	uc003dze.2	+	6	1316	c.1071G>T	c.(1069-1071)CTG>CTT	p.L357L		NM_017945	NP_060415	Q9BS91	S35A5_HUMAN	solute carrier family 35, member A5	357	Helical; (Potential).					Golgi membrane|integral to membrane	nucleotide-sugar transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1						GGCCCTCCCTGGAATTTTTCT	0.458													5	31	---	---	---	---	PASS	T	112300035	T	T	112300035	2	4	140	1	0	0	0	0	0	0	0	1	14574	1335	47	3		3	SLC35A5	3	112300035	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	3926969	112300035	85722395	62	49862										
CCDC80	151887	broad.mit.edu	37	chr3	112357818	112357818	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtgctctccttgggtcctctTtcttcttctcgctgcccagg	9	15	5	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:112357818T>A	uc003dzf.2	-	2	1153	c.935A>T	c.(934-936)AAA>ATA	p.K312I	CCDC80_uc011bhv.1_Missense_Mutation_p.K312I|CCDC80_uc003dzg.2_Missense_Mutation_p.K312I|CCDC80_uc003dzh.1_Missense_Mutation_p.K312I	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	312										ovary(2)	2						TGGGTCCTCTTTCTTCTTCTC	0.607													21	62	---	---	---	---	PASS	A	112357818	A	A	112357818	3	1	140	1	0	0	0	0	1	0	0	0	2854	1841	64	5	1945	5	CCDC80	3	112357818	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	57783	112357818	85664612	63	49863										
POLQ	10721	broad.mit.edu	37	chr3	121206859	121206859	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctaaaatcctttgcagtcctGgacttagatcaaatgatgcc	7	10	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:121206859G>T	uc003eee.3	-	16	5048	c.4919C>A	c.(4918-4920)CCA>CAA	p.P1640Q	POLQ_uc003eed.2_Missense_Mutation_p.P812Q	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1640					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TTGCAGTCCTGGACTTAGATC	0.348								DNA_polymerases_(catalytic_subunits)					6	90	---	---	---	---	PASS	T	121206859	T	T	121206859	3	4	140	1	0	0	0	0	1	0	0	0	12208	1348	47	3	2913	3	POLQ	3	121206859	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	8849041	121206859	76815571	64	49864										
SEMA5B	54437	broad.mit.edu	37	chr3	122641184	122641184	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctgtcctgggtgacacagggCtcgggtgtcaccggctgcac	15	13	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:122641184C>A	uc003efz.1	-	11	1687	c.1383G>T	c.(1381-1383)GAG>GAT	p.E461D	SEMA5B_uc011bju.1_Missense_Mutation_p.E403D|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.E461D|SEMA5B_uc010hro.1_Missense_Mutation_p.E403D|SEMA5B_uc010hrp.1_RNA	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	461	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		TGACACAGGGCTCGGGTGTCA	0.637													7	19	---	---	---	---	PASS	A	122641184	A	A	122641184	3	1	140	1	0	0	0	0	1	0	0	0	14038	796	28	3	2124	3	SEMA5B	3	122641184	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	1434325	122641184	75381246	65	49865										
MYLK	4638	broad.mit.edu	37	chr3	123339143	123339143	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gccctgagatcattgccataGaggacagtcttccaatggct	10	11	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:123339143G>T	uc003ego.2	-	32	5561	c.5279C>A	c.(5278-5280)TCT>TAT	p.S1760Y	uc003egk.2_Intron|MYLK_uc003egl.2_5'UTR|MYLK_uc003egm.2_5'UTR|MYLK_uc010hrr.2_Missense_Mutation_p.S195Y|MYLK_uc011bjv.1_Missense_Mutation_p.S560Y|MYLK_uc011bjw.1_Missense_Mutation_p.S1760Y|MYLK_uc003egp.2_Missense_Mutation_p.S1691Y|MYLK_uc003egq.2_Missense_Mutation_p.S1709Y|MYLK_uc003egr.2_Missense_Mutation_p.S1640Y|MYLK_uc003egs.2_Missense_Mutation_p.S1584Y	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1760	Calmodulin-binding.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CATTGCCATAGAGGACAGTCT	0.522													8	219	---	---	---	---	PASS	T	123339143	T	T	123339143	3	4	140	1	0	0	0	0	1	0	0	0	10056	942	33	2	477	2	MYLK	3	123339143	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	697959	123339143	74683287	66	49866										
KALRN	8997	broad.mit.edu	37	chr3	124380707	124380707	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctttcccacagaaagcagtgGagttaatgtgccttgttccc	9	11	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:124380707G>T	uc003ehg.2	+	45	6401	c.6274G>T	c.(6274-6276)GAG>TAG	p.E2092*	KALRN_uc003ehi.2_Nonsense_Mutation_p.E433*|KALRN_uc003ehk.2_Nonsense_Mutation_p.E395*|KALRN_uc011bjz.1_Nonsense_Mutation_p.E184*	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2091	DH 2.				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						GAAAGCAGTGGAGTTAATGTG	0.483													13	104	---	---	---	---	PASS	T	124380707	T	T	124380707	4	4	140	1	0	0	0	0	0	1	0	0	7975	1175	41	2	6608	2	KALRN	3	124380707	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1041564	124380707	73641723	67	49867										
SEC61A1	29927	broad.mit.edu	37	chr3	127786843	127786843	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	caggttgcaaagcagctgaaGgagcagcagatggtgatgag	16	6	0	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:127786843G>T	uc003ekb.2	+	11	1369	c.1185G>T	c.(1183-1185)AAG>AAT	p.K395N	RUVBL1_uc003eke.2_Intron|RUVBL1_uc003ekf.2_Intron|SEC61A1_uc003ekc.2_Missense_Mutation_p.K342N|SEC61A1_uc003ekd.2_Missense_Mutation_p.K275N|SEC61A1_uc003ekg.2_Missense_Mutation_p.K89N	NM_013336	NP_037468	P61619	S61A1_HUMAN	Sec61 alpha 1 subunit	395	Cytoplasmic (Potential).				protein targeting to ER	integral to endoplasmic reticulum membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity|protein binding|ribosome binding			ovary(1)	1						AGCAGCTGAAGGAGCAGCAGA	0.567											OREG0015775	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	80	---	---	---	---	PASS	T	127786843	T	T	127786843	3	4	140	1	0	0	0	0	1	0	0	0	14000	991	35	3	1227	3	SEC61A1	3	127786843	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	3406136	127786843	70235587	68	49868										
RAB43	339122	broad.mit.edu	37	chr3	128848948	128848948	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	taccccaggagccttctggcTtcttcactttgggcctgcag	10	14	3	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:128848948T>G	uc003elo.1	-	11	1045	c.834A>C	c.(832-834)GAA>GAC	p.E278D	ISY1_uc010hsz.1_Missense_Mutation_p.E98D|ISY1_uc003elp.1_Missense_Mutation_p.E278D|ISY1_uc010hta.1_Missense_Mutation_p.E300D	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						GCCTTCTGGCTTCTTCACTTT	0.552													29	48	---	---	---	---	PASS	G	128848948	G	G	128848948	3	3	140	1	0	0	0	0	1	0	0	0	12945	1606	56	5		5	RAB43	3	128848948	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	1062105	128848948	69173482	69	49869										
MRPL3	11222	broad.mit.edu	37	chr3	131181652	131181652	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gttcctcttcatctccatcaGgaaaatatgtagggaatggt	9	8	4	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:131181652G>T	uc003eoh.2	-	10	1126	c.962C>A	c.(961-963)CCT>CAT	p.P321H	MRPL3_uc011blo.1_Missense_Mutation_p.P216H|MRPL3_uc011blp.1_Missense_Mutation_p.P348H	NM_007208	NP_009139	P09001	RM03_HUMAN	mitochondrial ribosomal protein L3	321					translation	mitochondrial large ribosomal subunit	RNA binding|structural constituent of ribosome				0						ATCTCCATCAGGAAAATATGT	0.413													5	35	---	---	---	---	PASS	T	131181652	T	T	131181652	3	4	140	1	0	0	0	0	1	0	0	0	9793	1000	35	3	88	3	MRPL3	3	131181652	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	2332704	131181652	66840778	70	49870										
SOX14	8403	broad.mit.edu	37	chr3	137484005	137484005	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gcgcgcccgagaaagcccggGccttcttgccgccggcctcg	14	18	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:137484005G>A	uc003erm.1	+	1	427	c.379G>A	c.(379-381)GCC>ACC	p.A127T		NM_004189	NP_004180	O95416	SOX14_HUMAN	SRY-box 14	127					negative regulation of transcription from RNA polymerase II promoter|nervous system development|transcription, DNA-dependent	nucleus	sequence-specific DNA binding				0						GAAAGCCCGGGCCTTCTTGCC	0.716													5	13	---	---	---	---	PASS	A	137484005	A	A	137484005	3	1	140	1	0	0	0	0	1	0	0	0	14945	1203	42	3	381	3	SOX14	3	137484005	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	6302353	137484005	60538425	71	49871										
PHC3	80012	broad.mit.edu	37	chr3	169835124	169835124	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctctatactgggaatgctacTgtgcatagatgtactgttac	9	8	1	1	rs138410529	by1000genomes	TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:169835124T>A	uc010hws.1	-	10	2111	c.2047A>T	c.(2047-2049)AGT>TGT	p.S683C	PHC3_uc003fgl.2_Missense_Mutation_p.S695C|PHC3_uc011bpq.1_Missense_Mutation_p.S642C	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	683					multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			GGAATGCTACTGTGCATAGAT	0.433													23	43	---	---	---	---	PASS	A	169835124	A	A	169835124	3	1	140	1	0	0	0	0	1	0	0	0	11818	1580	55	5	928	5	PHC3	3	169835124	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	32351119	169835124	28187306	72	49872										
ZNF639	51193	broad.mit.edu	37	chr3	179051978	179051978	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcatgtttgtgatgactgtgGgaaaggcttttcaagtatgc	12	5	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr3:179051978G>T	uc003fjq.1	+	6	1569	c.1226G>T	c.(1225-1227)GGG>GTG	p.G409V	ZNF639_uc003fjr.1_Missense_Mutation_p.G409V	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	409	Interaction with CTNNA2.|C2H2-type 6.				initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			GATGACTGTGGGAAAGGCTTT	0.328													6	62	---	---	---	---	PASS	T	179051978	T	T	179051978	3	4	140	1	0	0	0	0	1	0	0	0	18053	1232	43	3	1240	3	ZNF639	3	179051978	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	9216854	179051978	18970452	73	49873										
BEND4	389206	broad.mit.edu	37	chr4	42145654	42145654	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tatgcacaggagaggttgacAgaggatccacgtcggccaga	14	9	0	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr4:42145654A>C	uc003gwn.2	-	3	1425	c.845T>G	c.(844-846)CTG>CGG	p.L282R	BEND4_uc003gwm.2_Missense_Mutation_p.L282R|BEND4_uc011byy.1_Missense_Mutation_p.L282R	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	282											0						AGAGGTTGACAGAGGATCCAC	0.498													10	24	---	---	---	---	PASS	C	42145654	C	C	42145654	3	2	140	1	0	0	0	0	1	0	0	0	1400	188	7	5	775	5	BEND4	4	42145654	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08		42145654	149008622	74	49874										
PDGFRA	5156	broad.mit.edu	37	chr4	55131190	55131190	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ttaacaatgaggtggttgacCttcaatggacttaccctgga	10	8	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr4:55131190C>A	uc003han.3	+	5	1064	c.733C>A	c.(733-735)CTT>ATT	p.L245I	PDGFRA_uc003haa.2_Intron|PDGFRA_uc003hal.2_3'UTR|PDGFRA_uc010igq.1_Missense_Mutation_p.L139I|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	245	Ig-like C2-type 3.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	GGTGGTTGACCTTCAATGGAC	0.333			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			5	48	---	---	---	---	PASS	A	55131190	A	A	55131190	3	1	140	1	0	0	0	0	1	0	0	0	11661	681	24	3	747	3	PDGFRA	4	55131190	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	12985536	55131190	136023086	75	49875										
SMR3A	26952	broad.mit.edu	37	chr4	71232555	71232555	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccaccatcccctcctccaccCtatggtccagggagaattca	6	18	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr4:71232555C>G	uc003hfg.1	+	3	330	c.249C>G	c.(247-249)CCC>CCG	p.P83P	SMR3B_uc011cas.1_Intron	NM_012390	NP_036522	Q99954	SMR3A_HUMAN	submaxillary gland androgen regulated protein 3	83	Pro-rich.|Poly-Pro.					extracellular region					0		all_hematologic(202;0.196)				CTCCTCCACCCTATGGTCCAG	0.567													8	38	---	---	---	---	PASS	G	71232555	G	G	71232555	2	3	140	1	0	0	0	0	0	0	0	1	14811	668	24	4		4	SMR3A	4	71232555	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	16101365	71232555	119921721	76	49876										
CDS1	1040	broad.mit.edu	37	chr4	85525418	85525418	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aacagatattgatgacagatAtggagatttggattccagaa	10	4	0	6			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr4:85525418A>G	uc011ccv.1	+	2	638	c.140A>G	c.(139-141)TAT>TGT	p.Y47C		NM_001263	NP_001254	Q92903	CDS1_HUMAN	CDP-diacylglycerol synthase 1	47					signal transduction|visual perception	endoplasmic reticulum membrane|integral to membrane	diacylglycerol cholinephosphotransferase activity|phosphatidate cytidylyltransferase activity			large_intestine(2)|ovary(1)|breast(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.00101)		GATGACAGATATGGAGATTTG	0.348													15	31	---	---	---	---	PASS	G	85525418	G	G	85525418	3	3	140	1	0	0	0	0	1	0	0	0	3177	449	16	5	146	5	CDS1	4	85525418	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	14292863	85525418	105628858	77	49877										
PDHA2	5161	broad.mit.edu	37	chr4	96761394	96761394	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcccgtaactcctcaaatgaCgctacatttgaaattaagaa	5	10	1	3	rs143281239		TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr4:96761394C>A	uc003htr.3	+	1	156	c.93C>A	c.(91-93)GAC>GAA	p.D31E		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	31					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	CCTCAAATGACGCTACATTTG	0.502													5	15	---	---	---	---	PASS	A	96761394	A	A	96761394	3	1	140	1	0	0	0	0	1	0	0	0	11665	535	19	1	95	1	PDHA2	4	96761394	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	11235976	96761394	94392882	78	49878										
FAT4	79633	broad.mit.edu	37	chr4	126242434	126242434	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	attgaccatcattcttcaggGccttgatggacctgttttta	8	9	3	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr4:126242434G>T	uc003ifj.3	+	1	4868	c.4868G>T	c.(4867-4869)GGC>GTC	p.G1623V		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1623	Cadherin 15.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ATTCTTCAGGGCCTTGATGGA	0.433													16	37	---	---	---	---	PASS	T	126242434	T	T	126242434	3	4	140	1	0	0	0	0	1	0	0	0	5692	1203	42	3	4870	3	FAT4	4	126242434	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	29481040	126242434	64911842	79	49879										
INTU	27152	broad.mit.edu	37	chr4	128564999	128564999	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aggagtcattgtccaacagcGatacaaagatgtgaatgttt	10	6	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr4:128564999G>T	uc003ifk.1	+	2	540	c.470G>T	c.(469-471)CGG>CTG	p.R157L	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	157										ovary(1)	1						GTCCAACAGCGATACAAAGAT	0.393													4	45	---	---	---	---	PASS	T	128564999	T	T	128564999	3	4	140	1	0	0	0	0	1	0	0	0	7786	1058	37	2	476	2	INTU	4	128564999	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	2322565	128564999	62589277	80	49880										
ZFP42	132625	broad.mit.edu	37	chr4	188924324	188924324	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcccttgaatgttctttggaAtacatgaaaaaaggggtaaa	9	5	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr4:188924324A>T	uc003izg.1	+	3	608	c.363A>T	c.(361-363)GAA>GAT	p.E121D	ZFP42_uc003izh.1_Missense_Mutation_p.E121D|ZFP42_uc003izi.1_Missense_Mutation_p.E121D	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	121					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		GTTCTTTGGAATACATGAAAA	0.408													26	74	---	---	---	---	PASS	T	188924324	T	T	188924324	3	4	140	1	0	0	0	0	1	0	0	0	17647	98	4	5	365	5	ZFP42	4	188924324	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	60359325	188924324	2229952	81	49881										
SEMA5A	9037	broad.mit.edu	37	chr5	9202246	9202246	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atatcgttcttgcacacccgGgcagctctggagaacactgt	10	12	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:9202246G>T	uc003jek.2	-	9	1465	c.753C>A	c.(751-753)GCC>GCA	p.A251A		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	251	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						TGCACACCCGGGCAGCTCTGG	0.502													5	31	---	---	---	---	PASS	T	9202246	T	T	9202246	2	4	140	1	0	0	0	0	0	0	0	1	14037	1219	43	3		3	SEMA5A	5	9202246	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08		9202246	171713014	82	49882										
DNAH5	1767	broad.mit.edu	37	chr5	13719032	13719032	+	Missense_Mutation	SNP	G	T	T													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctgcccggagtccttgtggaGgatcgttggcaaatttaatg							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:13719032G>T	uc003jfd.2	-	72	12500	c.12458C>A	c.(12457-12459)CCT>CAT	p.P4153H	DNAH5_uc003jfc.2_Missense_Mutation_p.P321H	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4153	AAA 6 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TCCTTGTGGAGGATCGTTGGC	0.453									Kartagener_syndrome				11	39	---	---	---	---	PASS	T	13719032	T	T	13719032	3	4	140	1	0	0	0	0	1	0	0	0	4604	1000	35	3	1448	3	DNAH5	5	13719032	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	4516786	13719032	167196228	83	49883	910	2								
DNAH5	1767	broad.mit.edu	37	chr5	13719033	13719033	+	Missense_Mutation	SNP	G	T	T													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgcccggagtccttgtggagGatcgttggcaaatttaatgg							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:13719033G>T	uc003jfd.2	-	72	12499	c.12457C>A	c.(12457-12459)CCT>ACT	p.P4153T	DNAH5_uc003jfc.2_Missense_Mutation_p.P321T	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4153	AAA 6 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CCTTGTGGAGGATCGTTGGCA	0.453									Kartagener_syndrome				10	40	---	---	---	---	PASS	T	13719033	T	T	13719033	3	4	140	1	0	0	0	0	1	0	0	0	4604	1174	41	2	1449	2	DNAH5	5	13719033	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1	13719033	167196227	84	49884	910	2								
PRDM9	56979	broad.mit.edu	37	chr5	23523402	23523402	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgtttttctgaaactcagatCaccaaggggagaaactgcta	9	8	3	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:23523402C>A	uc003jgo.2	+	9	1067	c.885C>A	c.(883-885)ATC>ATA	p.I295I		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	295	SET.			I -> VRRACHF (in Ref. 4; AAF87242).	meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AAACTCAGATCACCAAGGGGA	0.443										HNSCC(3;0.000094)			14	47	---	---	---	---	PASS	A	23523402	A	A	23523402	2	1	140	1	0	0	0	0	0	0	0	1	12463	816	29	2		2	PRDM9	5	23523402	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	9804369	23523402	157391858	85	49885										
LMBRD2	92255	broad.mit.edu	37	chr5	36105250	36105250	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tctgcatcttggagaagttcTatccggtccctttcagtcct	8	12	4	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:36105250T>C	uc003jkb.1	-	17	2362	c.1947A>G	c.(1945-1947)ATA>ATG	p.I649M	uc003jka.1_5'Flank	NM_001007527	NP_001007528	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	649	Cytoplasmic (Potential).					integral to membrane					0	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGAGAAGTTCTATCCGGTCCC	0.408													9	31	---	---	---	---	PASS	C	36105250	C	C	36105250	3	2	140	1	0	0	0	0	1	0	0	0	8843	1512	53	5	148	5	LMBRD2	5	36105250	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	12581848	36105250	144810010	86	49886										
NIPBL	25836	broad.mit.edu	37	chr5	37024753	37024753	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	acatttgtattgaacaaccaAcatttccaaaaatcacagaa	3	9	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:37024753A>G	uc003jkl.3	+	30	6140	c.5641A>G	c.(5641-5643)ACA>GCA	p.T1881A	NIPBL_uc003jkk.3_Missense_Mutation_p.T1881A	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1881	HEAT 2.				brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			TGAACAACCAACATTTCCAAA	0.313													11	19	---	---	---	---	PASS	G	37024753	G	G	37024753	3	3	140	1	0	0	0	0	1	0	0	0	10428	43	2	5	5755	5	NIPBL	5	37024753	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	919503	37024753	143890507	87	49887										
GHR	2690	broad.mit.edu	37	chr5	42695076	42695076	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cctgattatgtttctgctggGgaaaacagctgttactttaa	9	7	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:42695076G>T	uc003jmt.2	+	5	367	c.324G>T	c.(322-324)GGG>GGT	p.G108G	GHR_uc011cpq.1_5'UTR	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	108	Extracellular (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	TTTCTGCTGGGGAAAACAGCT	0.308													4	14	---	---	---	---	PASS	T	42695076	T	T	42695076	2	4	140	1	0	0	0	0	0	0	0	1	6371	1219	43	3		3	GHR	5	42695076	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	5670323	42695076	138220184	88	49888										
GZMA	3001	broad.mit.edu	37	chr5	54401310	54401310	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tccattgaacagatgtctgtGaaaaaattattggaggaaat	9	4	1	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:54401310G>A	uc003jpm.2	+	2	116	c.79G>A	c.(79-81)GAA>AAA	p.E27K		NM_006144	NP_006135	P12544	GRAA_HUMAN	granzyme A precursor	27					cleavage of lamin|cytolysis|immune response|negative regulation of DNA binding|negative regulation of endodeoxyribonuclease activity|negative regulation of oxidoreductase activity|positive regulation of apoptosis	extracellular region|immunological synapse|nucleus	protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				AGATGTCTGTGAAAAAATTAT	0.413													9	32	---	---	---	---	PASS	A	54401310	A	A	54401310	3	1	140	1	0	0	0	0	1	0	0	0	6915	1291	45	2	85	2	GZMA	5	54401310	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	11706234	54401310	126513950	89	49889										
DDX4	54514	broad.mit.edu	37	chr5	55075836	55075836	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aagcttcagggccatacagaAgaggtggaagaggtagtttc	14	6	1	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:55075836A>G	uc003jqg.3	+	8	513	c.439A>G	c.(439-441)AGA>GGA	p.R147G	DDX4_uc010ivz.2_Missense_Mutation_p.R127G|DDX4_uc003jqh.3_Intron|DDX4_uc003jqj.2_Intron	NM_001136034	NP_001129506	Q9NQI0	DDX4_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4 isoform	147	Gly-rich.				multicellular organismal development|sperm motility	perinuclear region of cytoplasm|pi-body|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|skin(1)	2		Lung NSC(810;6.93e-05)|all_neural(839;0.00409)|Prostate(74;0.0107)|Breast(144;0.0544)|Ovarian(174;0.223)				GCCATACAGAAGAGGTGGAAG	0.373													4	18	---	---	---	---	PASS	G	55075836	G	G	55075836	3	3	140	1	0	0	0	0	1	0	0	0	4360	64	3	5	506	5	DDX4	5	55075836	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	674526	55075836	125839424	90	49890										
BDP1	55814	broad.mit.edu	37	chr5	70806897	70806897	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gaaaacgagctagaggagacCagtacctcaagacaaactga	10	9	1	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:70806897C>A	uc003kbp.1	+	17	4241	c.3978C>A	c.(3976-3978)ACC>ACA	p.T1326T	BDP1_uc003kbn.1_Silent_p.T1326T|BDP1_uc003kbo.2_Silent_p.T1326T	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1326	9; approximate.|9 X 55 AA repeats of G-R-R-X-I-S-P-X-E-N- G-X-E-E-V-K-P-X-X-E-M-E-T-D-L-K-X-T-G-R- E-X-X-X-R-E-K-T-X-E-X-X-D-A-X-E-E-I-D-X- D-L-E-E-T.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		TAGAGGAGACCAGTACCTCAA	0.423													6	57	---	---	---	---	PASS	A	70806897	A	A	70806897	2	1	140	1	0	0	0	0	0	0	0	1	1395	581	21	3		3	BDP1	5	70806897	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	15731061	70806897	110108363	91	49891										
PDE8B	8622	broad.mit.edu	37	chr5	76646894	76646894	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctctttgtccatgtaggagtGgcagggggtttactatgcca	13	8	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:76646894G>T	uc003kfa.2	+	9	1067	c.1022G>T	c.(1021-1023)TGG>TTG	p.W341L	PDE8B_uc003kfb.2_Missense_Mutation_p.W321L|PDE8B_uc003kfc.2_Missense_Mutation_p.W341L|PDE8B_uc003kfd.2_Missense_Mutation_p.W294L|PDE8B_uc003kfe.2_Intron	NM_003719	NP_003710	O95263	PDE8B_HUMAN	phosphodiesterase 8B isoform 1	341					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity				0		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)		ATGTAGGAGTGGCAGGGGGTT	0.517													9	20	---	---	---	---	PASS	T	76646894	T	T	76646894	3	4	140	1	0	0	0	0	1	0	0	0	11654	1357	47	3	1056	3	PDE8B	5	76646894	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	5839997	76646894	104268366	92	49892										
DDX46	9879	broad.mit.edu	37	chr5	134153324	134153324	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atgtgccgttagagaaacaaGaagaagagagacaggatggt	14	4	0	5			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:134153324G>T	uc003kzw.2	+	20	2917	c.2749G>T	c.(2749-2751)GAA>TAA	p.E917*		NM_014829	NP_055644	Q7L014	DDX46_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46	917					mRNA processing|RNA splicing	Cajal body|nuclear speck	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AGAGAAACAAGAAGAAGAGAG	0.408													7	51	---	---	---	---	PASS	T	134153324	T	T	134153324	4	4	140	1	0	0	0	0	0	1	0	0	4364	943	33	2	2827	2	DDX46	5	134153324	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	57506430	134153324	46761936	93	49893										
PCDHB11	56125	broad.mit.edu	37	chr5	140579904	140579904	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cattaaaatgagagtcattcCagacaataggaaataccccg	7	9	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:140579904C>A	uc003liy.2	+	1	557	c.557C>A	c.(556-558)CCA>CAA	p.P186Q	PCDHB11_uc011daj.1_Intron	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	186	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGAGTCATTCCAGACAATAGG	0.438													5	51	---	---	---	---	PASS	A	140579904	A	A	140579904	3	1	140	1	0	0	0	0	1	0	0	0	11536	594	21	3	559	3	PCDHB11	5	140579904	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	6426580	140579904	40335356	94	49894										
PCDH12	51294	broad.mit.edu	37	chr5	141337102	141337102	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gcaagcacatcaaaggaaacCaggcagggatcccactgtcg	11	12	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:141337102C>A	uc003llx.2	-	1	1526	c.315G>T	c.(313-315)CTG>CTT	p.L105L		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	105	Cadherin 1.|Extracellular (Potential).				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAAAGGAAACCAGGCAGGGAT	0.587													6	83	---	---	---	---	PASS	A	141337102	A	A	141337102	2	1	140	1	0	0	0	0	0	0	0	1	11510	581	21	3		3	PCDH12	5	141337102	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	757198	141337102	39578158	95	49895										
ADRB2	154	broad.mit.edu	37	chr5	148207268	148207268	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gctggctgcccttcttcatcGttaacattgtgcatgtgatc	9	11	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:148207268G>A	uc003lpr.1	+	1	1113	c.874G>A	c.(874-876)GTT>ATT	p.V292I	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	292	Helical; Name=6.|Agonist and antagonist binding.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	CTTCTTCATCGTTAACATTGT	0.463													8	65	---	---	---	---	PASS	A	148207268	A	A	148207268	3	1	140	1	0	0	0	0	1	0	0	0	341	1145	40	1	876	1	ADRB2	5	148207268	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	6870166	148207268	32707992	96	49896										
GFPT2	9945	broad.mit.edu	37	chr5	179757699	179757699	+	Splice_Site	SNP	C	A	A													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cagatgggatttgtaactcaCcaactgctgaatgactctct							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:179757699C>A	uc003mlw.1	-	6	632	c.534_splice	c.e6+1	p.L178_splice		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2						dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	TTGTAACTCACCAACTGCTGA	0.378													15	74	---	---	---	---	PASS	A	179757699	A	A	179757699	5	1	140	1	0	0	0	0	0	0	1	0	6346	521	18	3	1569	3	GFPT2	5	179757699	Splice_Site	SNP	C	TCGA-66-2734-01A-01D-0983-08	31550431	179757699	1157561	97	49897	911	2								
GFPT2	9945	broad.mit.edu	37	chr5	179757700	179757700	+	Missense_Mutation	SNP	C	A	A													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agatgggatttgtaactcacCaactgctgaatgactctctc							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr5:179757700C>A	uc003mlw.1	-	6	632	c.534G>T	c.(532-534)TTG>TTT	p.L178F		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	178	Glutamine amidotransferase type-2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	TGTAACTCACCAACTGCTGAA	0.373													15	74	---	---	---	---	PASS	A	179757700	A	A	179757700	3	1	140	1	0	0	0	0	1	0	0	0	6346	608	21	3	1570	3	GFPT2	5	179757700	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	1	179757700	1157560	98	49898	911	2								
KAAG1	353219	broad.mit.edu	37	chr6	24358065	24358065	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cctcaccgcacccagggcgcGggatcgcctcctgaaacgaa	11	17	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:24358065G>A	uc003ndz.1	+	1	935	c.198G>A	c.(196-198)GCG>GCA	p.A66A	DCDC2_uc003ndx.2_5'UTR|DCDC2_uc003ndy.2_5'UTR	NM_181337	NP_851854	Q9UBP8	KAAG1_HUMAN	kidney associated antigen 1	66					immune response						0						CCCAGGGCGCGGGATCGCCTC	0.662													6	25	---	---	---	---	PASS	A	24358065	A	A	24358065	2	1	140	1	0	0	0	0	0	0	0	1	7973	1103	39	1		1	KAAG1	6	24358065	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08		24358065	146757002	99	49899										
SLC17A1	6568	broad.mit.edu	37	chr6	25819768	25819768	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcatagaagtaagtcggcctCgttccaggggaggagcccat	13	10	1	1	rs146175657	byFrequency	TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:25819768C>A	uc003nfh.3	-	5	616	c.500G>T	c.(499-501)CGA>CTA	p.R167L	SLC17A1_uc011djy.1_RNA|SLC17A1_uc010jqb.1_Missense_Mutation_p.R165L|SLC17A1_uc010jqc.1_Missense_Mutation_p.R165L	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),	167					sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						AAGTCGGCCTCGTTCCAGGGG	0.393													4	50	---	---	---	---	PASS	A	25819768	A	A	25819768	3	1	140	1	0	0	0	0	1	0	0	0	14416	884	31	2	935	2	SLC17A1	6	25819768	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	1461703	25819768	145295299	100	49900										
TRIM38	10475	broad.mit.edu	37	chr6	25967109	25967109	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gcgctgtgagcgggcaccacAgcacaaagggcacaccacag	13	14	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:25967109A>T	uc003nfm.2	+	3	794	c.359A>T	c.(358-360)CAG>CTG	p.Q120L	TRIM38_uc003nfn.2_Missense_Mutation_p.Q120L	NM_006355	NP_006346	O00635	TRI38_HUMAN	tripartite motif-containing 38	120	B box-type.				positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular	signal transducer activity|zinc ion binding				0						CGGGCACCACAGCACAAAGGG	0.557													12	49	---	---	---	---	PASS	T	25967109	T	T	25967109	3	4	140	1	0	0	0	0	1	0	0	0	16509	188	7	5	361	5	TRIM38	6	25967109	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	147341	25967109	145147958	101	49901										
C2	717	broad.mit.edu	37	chr6	31902047	31902047	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aaaatgactttctcatcttcAaggagagcgcctccctcatg	7	12	4	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:31902047A>G	uc003nyf.2	+	6	1084	c.820A>G	c.(820-822)AAG>GAG	p.K274E	C2_uc003nyc.2_Intron|C2_uc011doo.1_Intron|C2_uc011dop.1_Intron|C2_uc003nye.3_Missense_Mutation_p.K274E|C2_uc010jtk.2_Missense_Mutation_p.K142E|C2_uc011doq.1_Missense_Mutation_p.K245E|C2_uc003nyg.2_Intron|CFB_uc011dor.1_Intron|C2_uc003nyh.1_5'Flank	NM_000063	NP_000054	P06681	CO2_HUMAN	complement component 2 isoform 1 preproprotein	274	VWFA.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space	serine-type endopeptidase activity			ovary(1)|skin(1)	2		Ovarian(999;0.00965)		LUAD - Lung adenocarcinoma(999;0.247)		TCTCATCTTCAAGGAGAGCGC	0.547													38	177	---	---	---	---	PASS	G	31902047	G	G	31902047	3	3	140	1	0	0	0	0	1	0	0	0	2074	131	5	5	919	5	C2	6	31902047	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	5934938	31902047	139213020	102	49902										
SPDEF	25803	broad.mit.edu	37	chr6	34507062	34507062	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gccacctaatgaagcggccaTagctgtggggcttgagtagc	14	10	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:34507062T>C	uc003ojq.1	-	5	1209	c.794A>G	c.(793-795)TAT>TGT	p.Y265C	SPDEF_uc011dsq.1_Missense_Mutation_p.Y249C	NM_012391	NP_036523	O95238	SPDEF_HUMAN	SAM pointed domain containing ets transcription	265	ETS.				negative regulation of survival gene product expression|negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(3)|ovary(1)|central_nervous_system(1)	5						GAAGCGGCCATAGCTGTGGGG	0.617													15	114	---	---	---	---	PASS	C	34507062	C	C	34507062	3	2	140	1	0	0	0	0	1	0	0	0	15025	1406	49	5	221	5	SPDEF	6	34507062	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	2605015	34507062	136608005	103	49903										
SCUBE3	222663	broad.mit.edu	37	chr6	35214015	35214015	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agctggtagaagacattgtgCgagatggccggctctatgcc	14	9	1	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:35214015C>T	uc003okf.1	+	21	2791	c.2785C>T	c.(2785-2787)CGA>TGA	p.R929*	SCUBE3_uc003okg.1_Nonsense_Mutation_p.R928*|SCUBE3_uc003okh.1_Nonsense_Mutation_p.R816*	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	929					protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						AGACATTGTGCGAGATGGCCG	0.418													24	151	---	---	---	---	PASS	T	35214015	T	T	35214015	4	4	140	1	0	0	0	0	0	1	0	0	13946	760	27	1	2867	1	SCUBE3	6	35214015	Nonsense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	706953	35214015	135901052	104	49904										
PI16	221476	broad.mit.edu	37	chr6	36931007	36931007	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccattttggcagctcacagcCtgccctccttggatgaggag	11	13	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:36931007C>T	uc003ona.2	+	5	1217	c.889C>T	c.(889-891)CTG>TTG	p.L297L	PI16_uc003omz.1_Intron|PI16_uc003onb.2_Intron|PI16_uc011dts.1_Silent_p.L68L	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	297	Extracellular (Potential).					extracellular region|integral to membrane	peptidase inhibitor activity				0						AGCTCACAGCCTGCCCTCCTT	0.532													22	65	---	---	---	---	PASS	T	36931007	T	T	36931007	2	4	140	1	0	0	0	0	0	0	0	1	11869	680	24	3		3	PI16	6	36931007	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	1716992	36931007	134184060	105	49905										
TREML2	79865	broad.mit.edu	37	chr6	41168703	41168703	+	Missense_Mutation	SNP	C	A	A													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcccctcacctgagacgcaaCcctgtggccacagcagcagc							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:41168703C>A	uc010jxm.1	-	1	223	c.44G>T	c.(43-45)GGT>GTT	p.G15V		NM_024807	NP_079083	Q5T2D2	TRML2_HUMAN	triggering receptor expressed on myeloid	15					T cell activation	cell surface|integral to membrane|plasma membrane	protein binding|receptor activity			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					TGAGACGCAACCCTGTGGCCA	0.622													4	7	---	---	---	---	PASS	A	41168703	A	A	41168703	3	1	140	1	0	0	0	0	1	0	0	0	16470	507	18	3	941	3	TREML2	6	41168703	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	4237696	41168703	129946364	106	49906	912	2								
TREML2	79865	broad.mit.edu	37	chr6	41168707	41168707	+	Missense_Mutation	SNP	G	T	T													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctcacctgagacgcaaccctGtggccacagcagcagcagca							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:41168707G>T	uc010jxm.1	-	1	219	c.40C>A	c.(40-42)CAG>AAG	p.Q14K		NM_024807	NP_079083	Q5T2D2	TRML2_HUMAN	triggering receptor expressed on myeloid	14					T cell activation	cell surface|integral to membrane|plasma membrane	protein binding|receptor activity			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					ACGCAACCCTGTGGCCACAGC	0.622													4	8	---	---	---	---	PASS	T	41168707	T	T	41168707	3	4	140	1	0	0	0	0	1	0	0	0	16470	1386	48	3	945	3	TREML2	6	41168707	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	4	41168707	129946360	107	49907	912	2								
PKHD1	5314	broad.mit.edu	37	chr6	51774224	51774224	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctctggctcccatatccctgGatcctagcatcttctcactc	5	17	3	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:51774224G>T	uc003pah.1	-	40	6815	c.6539C>A	c.(6538-6540)TCC>TAC	p.S2180Y	PKHD1_uc010jzn.1_Missense_Mutation_p.S205Y|PKHD1_uc003pai.2_Missense_Mutation_p.S2180Y	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2180	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CATATCCCTGGATCCTAGCAT	0.483													13	76	---	---	---	---	PASS	T	51774224	T	T	51774224	3	4	140	1	0	0	0	0	1	0	0	0	11971	1174	41	2	5836	2	PKHD1	6	51774224	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	10605517	51774224	119340843	108	49908										
GFRAL	389400	broad.mit.edu	37	chr6	55264165	55264165	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cttaatctttttctttttctAggagaagtaatctatgctgc	6	7	4	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:55264165A>G	uc003pcm.1	+	8	1135	c.1049_splice	c.e8-2	p.G350_splice		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor							integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			TTCTTTTTCTAGGAGAAGTAA	0.313													4	14	---	---	---	---	PASS	G	55264165	G	G	55264165	5	3	140	1	0	0	0	0	0	0	1	0	6351	434	15	5	1077	5	GFRAL	6	55264165	Splice_Site	SNP	A	TCGA-66-2734-01A-01D-0983-08	3489941	55264165	115850902	109	49909										
IBTK	25998	broad.mit.edu	37	chr6	82909856	82909856	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tacatgctcactttccacgaAcctgtagatgatggactctg	8	11	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:82909856A>C	uc003pjl.1	-	21	3552	c.3025_splice	c.e21+1	p.G1009_splice	IBTK_uc011dyu.1_Splice_Site|IBTK_uc011dyv.1_Splice_Site_p.E1009_splice|IBTK_uc011dyw.1_Splice_Site_p.G808_splice|IBTK_uc010kbi.1_Splice_Site_p.G703_splice|IBTK_uc003pjm.2_Splice_Site_p.G1009_splice	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase						negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		CTTTCCACGAACCTGTAGATG	0.378													12	42	---	---	---	---	PASS	C	82909856	C	C	82909856	5	2	140	1	0	0	0	0	0	0	1	0	7476	57	2	5	1070	5	IBTK	6	82909856	Splice_Site	SNP	A	TCGA-66-2734-01A-01D-0983-08	27645691	82909856	88205211	110	49910										
PRSS35	167681	broad.mit.edu	37	chr6	84234230	84234230	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctatctgcgtctgaaagatcCagacaaaaagaattggaagc	9	8	2	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:84234230C>A	uc003pjz.2	+	2	1233	c.1070C>A	c.(1069-1071)CCA>CAA	p.P357Q	PRSS35_uc010kbm.2_Missense_Mutation_p.P357Q	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	357	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		CTGAAAGATCCAGACAAAAAG	0.517													18	52	---	---	---	---	PASS	A	84234230	A	A	84234230	3	1	140	1	0	0	0	0	1	0	0	0	12624	594	21	3	1072	3	PRSS35	6	84234230	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	1324374	84234230	86880837	111	49911										
MDN1	23195	broad.mit.edu	37	chr6	90471376	90471376	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agaaatacctctacaaatgcGaacaataaggtattttcagt	6	7	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:90471376G>T	uc003pnn.1	-	17	2564	c.2448C>A	c.(2446-2448)TTC>TTA	p.F816L	MDN1_uc003pno.1_Missense_Mutation_p.F234L	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	816					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)		CTACAAATGCGAACAATAAGG	0.333													4	31	---	---	---	---	PASS	T	90471376	T	T	90471376	3	4	140	1	0	0	0	0	1	0	0	0	9415	1049	37	2	14686	2	MDN1	6	90471376	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	6237146	90471376	80643691	112	49912										
MDN1	23195	broad.mit.edu	37	chr6	90499528	90499528	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gggggcatagtcaatatcctCcagaaggatccagtggccca	12	11	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:90499528C>A	uc003pnn.1	-	7	1317	c.1201G>T	c.(1201-1203)GAG>TAG	p.E401*	MDN1_uc003pnp.1_Nonsense_Mutation_p.E401*	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	401					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)		TCAATATCCTCCAGAAGGATC	0.468													5	56	---	---	---	---	PASS	A	90499528	A	A	90499528	4	1	140	1	0	0	0	0	0	1	0	0	9415	864	30	2	15973	2	MDN1	6	90499528	Nonsense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	28152	90499528	80615539	113	49913										
BACH2	60468	broad.mit.edu	37	chr6	90718521	90718521	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ggtgcagtggactgtggactCatacacatacatgggggagt	15	7	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:90718521C>G	uc011eab.1	-	6	852	c.43G>C	c.(43-45)GAG>CAG	p.E15Q	BACH2_uc003pnw.2_Missense_Mutation_p.E15Q|BACH2_uc010kch.2_Missense_Mutation_p.E15Q	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	15						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		ACTGTGGACTCATACACATAC	0.423													8	54	---	---	---	---	PASS	G	90718521	G	G	90718521	3	3	140	1	0	0	0	0	1	0	0	0	1284	835	29	2	2498	2	BACH2	6	90718521	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	218993	90718521	80396546	114	49914										
BCLAF1	9774	broad.mit.edu	37	chr6	136597032	136597032	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ttttgagtttgacttcaggaCggtgagaatcactcgctatc	10	8	2	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:136597032C>T	uc003qgx.1	-	5	1884	c.1631G>A	c.(1630-1632)CGT>CAT	p.R544H	BCLAF1_uc003qgw.1_Missense_Mutation_p.R371H|BCLAF1_uc003qgy.1_Missense_Mutation_p.R542H|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.R542H	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	544					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		GACTTCAGGACGGTGAGAATC	0.433													7	67	---	---	---	---	PASS	T	136597032	T	T	136597032	3	4	140	1	0	0	0	0	1	0	0	0	1383	536	19	1	1167	1	BCLAF1	6	136597032	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	45878511	136597032	34518035	115	49915										
TNFAIP3	7128	broad.mit.edu	37	chr6	138200413	138200413	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cgagcaagtgcagaaaagccGgctgcgtgtattttgggact	14	8	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:138200413G>A	uc003qhr.2	+	7	1897	c.1831G>A	c.(1831-1833)GGC>AGC	p.G611S	TNFAIP3_uc003qhs.2_Missense_Mutation_p.G611S	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	611	Interaction with NAF1 (By similarity).|A20-type 4.				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		CAGAAAAGCCGGCTGCGTGTA	0.532			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								13	110	---	---	---	---	PASS	A	138200413	A	A	138200413	3	1	140	1	0	0	0	0	1	0	0	0	16271	1116	39	1	1853	1	TNFAIP3	6	138200413	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1603381	138200413	32914654	116	49916										
TAB2	23118	broad.mit.edu	37	chr6	149700403	149700403	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	caataactctgcaacctctcCtcgagtggtagtcactcagc	7	14	4	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr6:149700403C>A	uc003qmj.2	+	3	1530	c.1352C>A	c.(1351-1353)CCT>CAT	p.P451H	TAB2_uc011eec.1_Missense_Mutation_p.P419H|TAB2_uc010kia.1_Missense_Mutation_p.P451H|TAB2_uc010kib.1_Missense_Mutation_p.P451H|TAB2_uc003qmk.3_RNA	NM_015093	NP_055908	Q9NYJ8	TAB2_HUMAN	mitogen-activated protein kinase kinase kinase 7	451					activation of MAPK activity|heart development|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	K63-linked polyubiquitin binding|zinc ion binding				0						GCAACCTCTCCTCGAGTGGTA	0.507													6	79	---	---	---	---	PASS	A	149700403	A	A	149700403	3	1	140	1	0	0	0	0	1	0	0	0	15493	681	24	3	1358	3	TAB2	6	149700403	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	11499990	149700403	21414664	117	49917										
FTSJ2	29960	broad.mit.edu	37	chr7	2275030	2275030	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cggaaccctgtggcattgggCgccatgtcgctcagaatcac	12	13	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr7:2275030C>A	uc003slm.2	-	3	497	c.468G>T	c.(466-468)GCG>GCT	p.A156A	MAD1L1_uc003slh.1_5'Flank|MAD1L1_uc003slf.1_5'Flank|MAD1L1_uc003slg.1_5'Flank|MAD1L1_uc010ksh.1_5'Flank|MAD1L1_uc003sli.1_5'Flank|MAD1L1_uc010ksi.1_5'Flank|MAD1L1_uc010ksj.2_5'Flank|FTSJ2_uc003slk.2_Silent_p.A2A|FTSJ2_uc003sll.2_Silent_p.A2A|FTSJ2_uc003sln.2_RNA|FTSJ2_uc003slo.2_Silent_p.A2A	NM_013393	NP_037525	Q9UI43	RRMJ2_HUMAN	FtsJ homolog 2	156					cell proliferation	mitochondrion|nucleolus	nucleic acid binding|rRNA (uridine-2'-O-)-methyltransferase activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0822)|OV - Ovarian serous cystadenocarcinoma(56;2.7e-14)		TGGCATTGGGCGCCATGTCGC	0.592													10	46	---	---	---	---	PASS	A	2275030	A	A	2275030	2	1	140	1	0	0	0	0	0	0	0	1	6088	755	27	1		1	FTSJ2	7	2275030	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08		2275030	156863633	118	49918										
STK31	56164	broad.mit.edu	37	chr7	23793980	23793980	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gaaaagacctttcagatgctAtacaagtgttggatgaaggg	12	5	1	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr7:23793980A>C	uc003sws.3	+	10	1247	c.1180A>C	c.(1180-1182)ATA>CTA	p.I394L	STK31_uc003swt.3_Missense_Mutation_p.I371L|STK31_uc011jze.1_Missense_Mutation_p.I394L|STK31_uc010kuq.2_Missense_Mutation_p.I371L	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	394							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						TTCAGATGCTATACAAGTGTT	0.373													16	42	---	---	---	---	PASS	C	23793980	C	C	23793980	3	2	140	1	0	0	0	0	1	0	0	0	15295	449	16	5	1218	5	STK31	7	23793980	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	21518950	23793980	135344683	119	49919										
HOXA3	3200	broad.mit.edu	37	chr7	27150165	27150165	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aagcggcggacgccgggtacGgctgctgattggcattataa	15	9	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr7:27150165G>T	uc011jzl.1	-	2	295	c.95C>A	c.(94-96)CCG>CAG	p.P32Q	HOXA3_uc011jzk.1_Intron|HOXA3_uc003syk.2_Missense_Mutation_p.P32Q	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	32					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						CGCCGGGTACGGCTGCTGATT	0.657													3	6	---	---	---	---	PASS	T	27150165	T	T	27150165	3	4	140	1	0	0	0	0	1	0	0	0	7293	1116	39	1	1244	1	HOXA3	7	27150165	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	3356185	27150165	131988498	120	49920										
HOXA7	3204	broad.mit.edu	37	chr7	27194745	27194745	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cgtgggcgatttcaatgcggCggcgccgcgtcaggtagcgg	18	11	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr7:27194745C>A	uc003sys.2	-	2	608	c.476G>T	c.(475-477)CGC>CTC	p.R159L	HOXA6_uc003syq.1_5'Flank|uc003syr.1_3'UTR	NM_006896	NP_008827	P31268	HXA7_HUMAN	homeobox A7	159	Poly-Arg.|Homeobox.				angiogenesis|negative regulation of cell-matrix adhesion|negative regulation of keratinocyte differentiation|negative regulation of leukocyte migration|negative regulation of monocyte differentiation|negative regulation of transcription from RNA polymerase II promoter		sequence-specific DNA binding|transcription factor binding				0						TTCAATGCGGCGGCGCCGCGT	0.602													29	120	---	---	---	---	PASS	A	27194745	A	A	27194745	3	1	140	1	0	0	0	0	1	0	0	0	7297	768	27	1	220	1	HOXA7	7	27194745	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	44580	27194745	131943918	121	49921										
FAM188B	84182	broad.mit.edu	37	chr7	30831048	30831048	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccaggccgagggatccctccGaggacaccccagcagtggac	13	16	0	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr7:30831048G>T	uc003tbt.2	+	5	1008	c.931G>T	c.(931-933)GAG>TAG	p.E311*	FAM188B_uc010kwe.2_Nonsense_Mutation_p.E282*	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	311											0						GGATCCCTCCGAGGACACCCC	0.622													4	39	---	---	---	---	PASS	T	30831048	T	T	30831048	4	4	140	1	0	0	0	0	0	1	0	0	5515	1059	37	2	949	2	FAM188B	7	30831048	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	3636303	30831048	128307615	122	49922										
ADCY1	107	broad.mit.edu	37	chr7	45725621	45725621	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gttccctggtggtcctttcgTctgggggccagcgcacagcc	14	14	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr7:45725621T>A	uc003tne.3	+	13	2152	c.2134T>A	c.(2134-2136)TCT>ACT	p.S712T		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	712					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GGTCCTTTCGTCTGGGGGCCA	0.652													5	25	---	---	---	---	PASS	A	45725621	A	A	45725621	3	1	140	1	0	0	0	0	1	0	0	0	292	1667	58	5	2184	5	ADCY1	7	45725621	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	14894573	45725621	113413042	123	49923										
GTF2IRD1	9569	broad.mit.edu	37	chr7	74016709	74016709	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tagcaatggccaatgtacatGgtggactatgccggcctgaa	12	9	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr7:74016709G>T	uc003uaq.2	+	27	3222	c.2829G>T	c.(2827-2829)ATG>ATT	p.M943I	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.M960I|GTF2IRD1_uc003uap.2_Missense_Mutation_p.M928I|GTF2IRD1_uc003uar.1_3'UTR	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	943				Missing: Cytoplasmic localization.		nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CAATGTACATGGTGGACTATG	0.478													5	68	---	---	---	---	PASS	T	74016709	T	T	74016709	3	4	140	1	0	0	0	0	1	0	0	0	6868	1348	47	3	2931	3	GTF2IRD1	7	74016709	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	28291088	74016709	85121954	124	49924										
MUC17	140453	broad.mit.edu	37	chr7	100680080	100680080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cgtctcctacaactgctgaaGgtaccagcataccaacctcg	7	15	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr7:100680080G>T	uc003uxp.1	+	3	5436	c.5383G>T	c.(5383-5385)GGT>TGT	p.G1795C	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1795	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|28.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AACTGCTGAAGGTACCAGCAT	0.517													11	318	---	---	---	---	PASS	T	100680080	T	T	100680080	3	4	140	1	0	0	0	0	1	0	0	0	9974	1000	35	3	5393	3	MUC17	7	100680080	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	26663371	100680080	58458583	125	49925										
MUC17	140453	broad.mit.edu	37	chr7	100685234	100685234	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gcatgccaacatcaactgctGgtgaaggaagcactccatta	9	11	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr7:100685234G>T	uc003uxp.1	+	3	10590	c.10537G>T	c.(10537-10539)GGT>TGT	p.G3513C	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3513	Extracellular (Potential).|Ser-rich.|57.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity	p.G3513V(1)		ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ATCAACTGCTGGTGAAGGAAG	0.493													12	418	---	---	---	---	PASS	T	100685234	T	T	100685234	3	4	140	1	0	0	0	0	1	0	0	0	9974	1348	47	3	10547	3	MUC17	7	100685234	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	5154	100685234	58453429	126	49926										
NUP205	23165	broad.mit.edu	37	chr7	135277850	135277850	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccaagtgcagatagtgtccaGtaccgtcaccttccttcccg	8	15	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr7:135277850G>T	uc003vsw.2	+	12	1771	c.1740G>T	c.(1738-1740)CAG>CAT	p.Q580H		NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	580					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						ATAGTGTCCAGTACCGTCACC	0.488													14	70	---	---	---	---	PASS	T	135277850	T	T	135277850	3	4	140	1	0	0	0	0	1	0	0	0	10759	1020	36	3	1786	3	NUP205	7	135277850	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	34592616	135277850	23860813	127	49927										
CNTNAP2	26047	broad.mit.edu	37	chr7	146805264	146805264	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gatgttatcaactttgatggCcatgttgtattaccatatag	8	6	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr7:146805264C>A	uc003weu.1	+	5	1092	c.576C>A	c.(574-576)GGC>GGA	p.G192G		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	192	Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ACTTTGATGGCCATGTTGTAT	0.358										HNSCC(39;0.1)			5	12	---	---	---	---	PASS	A	146805264	A	A	146805264	2	1	140	1	0	0	0	0	0	0	0	1	3647	726	26	3		3	CNTNAP2	7	146805264	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	11527414	146805264	12333399	128	49928										
INTS9	55756	broad.mit.edu	37	chr8	28651468	28651468	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcactccagaagggtagcagGgaaccaacacgtttcctcca	9	13	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr8:28651468G>T	uc003xha.2	-	10	1192	c.893C>A	c.(892-894)CCC>CAC	p.P298H	INTS9_uc011lav.1_Missense_Mutation_p.P274H|INTS9_uc011law.1_Missense_Mutation_p.P277H|INTS9_uc011lax.1_Missense_Mutation_p.P191H|INTS9_uc010lvc.2_RNA|INTS9_uc003xhb.2_Missense_Mutation_p.P298H	NM_018250	NP_060720	Q9NV88	INT9_HUMAN	integrator complex subunit 9 isoform 1	298					snRNA processing	integrator complex	protein binding			central_nervous_system(1)|pancreas(1)	2		Ovarian(32;0.0439)		KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.152)		AGGGTAGCAGGGAACCAACAC	0.483													6	65	---	---	---	---	PASS	T	28651468	T	T	28651468	3	4	140	1	0	0	0	0	1	0	0	0	7785	1232	43	3	1115	3	INTS9	8	28651468	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08		28651468	117712554	129	49929										
RB1CC1	9821	broad.mit.edu	37	chr8	53573532	53573532	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tttgatttttctgcttcataTaatctctttccatctttgac	3	9	4	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr8:53573532T>C	uc003xre.3	-	11	2139	c.1581A>G	c.(1579-1581)TTA>TTG	p.L527L	RB1CC1_uc003xrf.3_Silent_p.L527L	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	527					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				CTGCTTCATATAATCTCTTTC	0.279													6	15	---	---	---	---	PASS	C	53573532	C	C	53573532	2	2	140	1	0	0	0	0	0	0	0	1	13099	1403	49	5		5	RB1CC1	8	53573532	Silent	SNP	T	TCGA-66-2734-01A-01D-0983-08	24922064	53573532	92790490	130	49930										
RB1CC1	9821	broad.mit.edu	37	chr8	53573823	53573823	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccatcttgatcagcatgaagCattacaaagcaacaccacct	5	13	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr8:53573823C>G	uc003xre.3	-	10	1935	c.1377G>C	c.(1375-1377)ATG>ATC	p.M459I	RB1CC1_uc003xrf.3_Missense_Mutation_p.M459I	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	459					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				CAGCATGAAGCATTACAAAGC	0.358													5	22	---	---	---	---	PASS	G	53573823	G	G	53573823	3	3	140	1	0	0	0	0	1	0	0	0	13099	710	25	4	3467	4	RB1CC1	8	53573823	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	291	53573823	92790199	131	49931										
ARFGEF1	10565	broad.mit.edu	37	chr8	68204208	68204208	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atttgtatggaggtcaaggtCcccttcgtgttcttgggata	12	7	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr8:68204208C>A	uc003xxo.1	-	6	1180	c.790G>T	c.(790-792)GAC>TAC	p.D264Y		NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	264					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			AGGTCAAGGTCCCCTTCGTGT	0.423													13	59	---	---	---	---	PASS	A	68204208	A	A	68204208	3	1	140	1	0	0	0	0	1	0	0	0	852	855	30	2	4895	2	ARFGEF1	8	68204208	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	14630385	68204208	78159814	132	49932										
CRISPLD1	83690	broad.mit.edu	37	chr8	75941732	75941732	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	acctacattgcttcttttcaGaatggaatcttctcagaaag	6	9	4	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr8:75941732G>T	uc003yan.2	+	14	1806	c.1431G>T	c.(1429-1431)CAG>CAT	p.Q477H	CRISPLD1_uc011lfk.1_Missense_Mutation_p.Q289H|CRISPLD1_uc011lfl.1_Missense_Mutation_p.Q289H	NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	477	LCCL 2.					extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			CTTCTTTTCAGAATGGAATCT	0.373													5	21	---	---	---	---	PASS	T	75941732	T	T	75941732	3	4	140	1	0	0	0	0	1	0	0	0	3882	933	33	2	1481	2	CRISPLD1	8	75941732	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	7737524	75941732	70422290	133	49933										
ZFHX4	79776	broad.mit.edu	37	chr8	77766784	77766784	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cctacatgatatttgaccccAacaatccgctgatgactgga	7	12	0	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr8:77766784A>C	uc003yav.2	+	10	7879	c.7492A>C	c.(7492-7494)AAC>CAC	p.N2498H	ZFHX4_uc003yau.1_Missense_Mutation_p.N2543H|ZFHX4_uc003yaw.1_Missense_Mutation_p.N2498H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2498						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATTTGACCCCAACAATCCGCT	0.547										HNSCC(33;0.089)			31	153	---	---	---	---	PASS	C	77766784	C	C	77766784	3	2	140	1	0	0	0	0	1	0	0	0	17632	130	5	5	7661	5	ZFHX4	8	77766784	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	1825052	77766784	68597238	134	49934										
PEX2	5828	broad.mit.edu	37	chr8	77895842	77895842	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgccagagaagttccctattCatgtattcaaagccaacttc	6	11	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr8:77895842C>A	uc003yax.2	-	4	1031	c.573G>T	c.(571-573)ATG>ATT	p.M191I	PEX2_uc003yay.2_Missense_Mutation_p.M191I|PEX2_uc003yaz.2_Missense_Mutation_p.M191I	NM_000318	NP_000309	P28328	PEX2_HUMAN	peroxin 2	191					peroxisome organization	integral to peroxisomal membrane	protein binding|zinc ion binding			ovary(1)	1						GTTCCCTATTCATGTATTCAA	0.388													10	78	---	---	---	---	PASS	A	77895842	A	A	77895842	3	1	140	1	0	0	0	0	1	0	0	0	11745	826	29	2	348	2	PEX2	8	77895842	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	129058	77895842	68468180	135	49935										
UBR5	51366	broad.mit.edu	37	chr8	103301779	103301779	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctgctgtggattcctgatgaTgtaggatgactgagactgac	13	7	0	5			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr8:103301779T>C	uc003ykr.1	-	35	4648	c.4615A>G	c.(4615-4617)ATC>GTC	p.I1539V	UBR5_uc003yks.1_Missense_Mutation_p.I1539V	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1539					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TTCCTGATGATGTAGGATGAC	0.468													8	55	---	---	---	---	PASS	C	103301779	C	C	103301779	3	2	140	1	0	0	0	0	1	0	0	0	16902	1464	51	5	3884	5	UBR5	8	103301779	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	25405937	103301779	43062243	136	49936										
SLC30A8	169026	broad.mit.edu	37	chr8	118184797	118184797	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gccagccgggacagccaagtGgttcggagagaaattgctaa	14	9	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr8:118184797G>A	uc003yoh.2	+	8	1217	c.987G>A	c.(985-987)GTG>GTA	p.V329V	SLC30A8_uc010mcz.2_Silent_p.V280V|SLC30A8_uc011lia.1_Silent_p.V280V|SLC30A8_uc003yog.2_Silent_p.V280V	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	329	Cytoplasmic (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			ACAGCCAAGTGGTTCGGAGAG	0.507													12	46	---	---	---	---	PASS	A	118184797	A	A	118184797	2	1	140	1	0	0	0	0	0	0	0	1	14561	1335	47	3		3	SLC30A8	8	118184797	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	14883018	118184797	28179225	137	49937										
FAM135B	51059	broad.mit.edu	37	chr8	139190841	139190841	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gagtgcagagtgactgtgtcCaggaactgggtccacagagt	15	8	0	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr8:139190841C>A	uc003yuy.2	-	10	1137	c.966G>T	c.(964-966)CTG>CTT	p.L322L	FAM135B_uc003yux.2_Silent_p.L223L|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	322										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)			TGACTGTGTCCAGGAACTGGG	0.532										HNSCC(54;0.14)			6	31	---	---	---	---	PASS	A	139190841	A	A	139190841	2	1	140	1	0	0	0	0	0	0	0	1	5449	581	21	3		3	FAM135B	8	139190841	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	21006044	139190841	7173181	138	49938										
COL22A1	169044	broad.mit.edu	37	chr8	139606266	139606266	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aggtcttcactcacctttggGacctatgggtccagagggtc	12	11	3	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr8:139606266G>T	uc003yvd.2	-	63	5056	c.4609C>A	c.(4609-4611)CCC>ACC	p.P1537T	COL22A1_uc011ljo.1_Missense_Mutation_p.P817T	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1537	Pro-rich.|Gly-rich.|Collagen-like 15.				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)			TCACCTTTGGGACCTATGGGT	0.632										HNSCC(7;0.00092)			6	34	---	---	---	---	PASS	T	139606266	T	T	139606266	3	4	140	1	0	0	0	0	1	0	0	0	3681	1174	41	2	283	2	COL22A1	8	139606266	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	415425	139606266	6757756	139	49939										
MPDZ	8777	broad.mit.edu	37	chr9	13176150	13176150	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	attacctttccagctgaatcGggtagcacagaaggaagttc	10	9	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr9:13176150G>T	uc010mia.1	-	19	2973	c.2916C>A	c.(2914-2916)CCC>CCA	p.P972P	MPDZ_uc003zkz.3_5'Flank|MPDZ_uc010mhy.2_Silent_p.P972P|MPDZ_uc010mhz.2_Silent_p.P972P|MPDZ_uc011lmn.1_Silent_p.P972P|MPDZ_uc003zlb.3_Silent_p.P972P	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	972					interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		CAGCTGAATCGGGTAGCACAG	0.348													3	6	---	---	---	---	PASS	T	13176150	T	T	13176150	2	4	140	1	0	0	0	0	0	0	0	1	9722	1103	39	1		1	MPDZ	9	13176150	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08		13176150	128037281	140	49940										
FAM154A	158297	broad.mit.edu	37	chr9	18928305	18928305	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cgagggccagaccaatgaggCttacagcttttggtattgat	12	8	0	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr9:18928305C>A	uc003zni.1	-	4	1448	c.1170G>T	c.(1168-1170)AAG>AAT	p.K390N	FAM154A_uc010mip.1_Missense_Mutation_p.K198N	NM_153707	NP_714918	Q8IYX7	F154A_HUMAN	hypothetical protein LOC158297	390										pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.53e-16)		ACCAATGAGGCTTACAGCTTT	0.577													5	22	---	---	---	---	PASS	A	18928305	A	A	18928305	3	1	140	1	0	0	0	0	1	0	0	0	5463	796	28	3	258	3	FAM154A	9	18928305	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	5752155	18928305	122285126	141	49941										
IFNA16	3449	broad.mit.edu	37	chr9	21217192	21217192	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccatttgtgccaggagtatcAaggccctcctattacccagg	9	13	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr9:21217192A>G	uc003zor.1	-	1	119	c.113T>C	c.(112-114)TTG>TCG	p.L38S	IFNA14_uc003zoo.1_Intron	NM_002173	NP_002164	P05015	IFN16_HUMAN	interferon, alpha 16 precursor	38					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			skin(1)	1				Lung(24;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		CAGGAGTATCAAGGCCCTCCT	0.498													7	25	---	---	---	---	PASS	G	21217192	G	G	21217192	3	3	140	1	0	0	0	0	1	0	0	0	7535	131	5	5	460	5	IFNA16	9	21217192	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	2288887	21217192	119996239	142	49942										
ZNF782	158431	broad.mit.edu	37	chr9	99580443	99580443	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgaaagcttttccacattcaTtacattcatagggcttctcc	5	11	3	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr9:99580443T>C	uc004awp.1	-	6	2143	c.1862A>G	c.(1861-1863)AAT>AGT	p.N621S	ZNF782_uc011lup.1_Missense_Mutation_p.N489S	NM_001001662	NP_001001662	Q6ZMW2	ZN782_HUMAN	zinc finger protein 782	621	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				TCCACATTCATTACATTCATA	0.433													9	22	---	---	---	---	PASS	C	99580443	C	C	99580443	3	2	140	1	0	0	0	0	1	0	0	0	18152	1493	52	5	241	5	ZNF782	9	99580443	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	78363251	99580443	41632988	143	49943										
TMEM38B	55151	broad.mit.edu	37	chr9	108467943	108467943	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctgctatgctccactgttttGgtggaggaattttatcctgt	10	8	0	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr9:108467943G>T	uc004bcu.1	+	2	295	c.178G>T	c.(178-180)GGT>TGT	p.G60C	TMEM38B_uc010mtn.1_Missense_Mutation_p.G60C	NM_018112	NP_060582	Q9NVV0	TM38B_HUMAN	transmembrane protein 38B	60	Helical; (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			ovary(1)|skin(1)	2						CCACTGTTTTGGTGGAGGAAT	0.418													6	64	---	---	---	---	PASS	T	108467943	T	T	108467943	3	4	140	1	0	0	0	0	1	0	0	0	16157	1348	47	3	184	3	TMEM38B	9	108467943	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	8887500	108467943	32745488	144	49944										
GDI2	2665	broad.mit.edu	37	chr10	5836916	5836916	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cacccttatagacaaagctcCcttcagtcactttaaaatcc	3	14	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr10:5836916C>A	uc001iil.3	-	4	611	c.320G>T	c.(319-321)GGG>GTG	p.G107V	GDI2_uc001iim.3_Intron|GDI2_uc009xid.2_Missense_Mutation_p.G111V	NM_001494	NP_001485	P50395	GDIB_HUMAN	GDP dissociation inhibitor 2 isoform 1	107					protein transport|small GTPase mediated signal transduction	cell surface|cytosol|membrane	protein binding|Rab GDP-dissociation inhibitor activity				0						GACAAAGCTCCCTTCAGTCAC	0.373													6	70	---	---	---	---	PASS	A	5836916	A	A	5836916	3	1	140	1	0	0	0	0	1	0	0	0	6321	623	22	3	1049	3	GDI2	10	5836916	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08		5836916	129697831	145	49945										
ZEB1	6935	broad.mit.edu	37	chr10	31809717	31809717	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcttgagcagcctagccaacTtcaagttgttcctcaaaatt	6	11	3	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr10:31809717T>A	uc001ivs.3	+	7	1517	c.1454T>A	c.(1453-1455)CTT>CAT	p.L485H	ZEB1_uc001ivr.3_Missense_Mutation_p.L267H|ZEB1_uc010qee.1_Missense_Mutation_p.L267H|ZEB1_uc010qef.1_Missense_Mutation_p.L267H|ZEB1_uc009xlj.1_Missense_Mutation_p.L411H|ZEB1_uc010qeg.1_Missense_Mutation_p.L344H|ZEB1_uc009xlk.1_Missense_Mutation_p.L267H|ZEB1_uc001ivt.3_Missense_Mutation_p.L267H|ZEB1_uc001ivu.3_Missense_Mutation_p.L486H|ZEB1_uc001ivv.3_Missense_Mutation_p.L465H|ZEB1_uc010qeh.1_Missense_Mutation_p.L418H|ZEB1_uc009xlo.1_Missense_Mutation_p.L468H|ZEB1_uc009xlp.2_Missense_Mutation_p.L469H	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	485					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				CCTAGCCAACTTCAAGTTGTT	0.373													10	51	---	---	---	---	PASS	A	31809717	A	A	31809717	3	1	140	1	0	0	0	0	1	0	0	0	17620	1609	56	5	1494	5	ZEB1	10	31809717	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	25972801	31809717	103725030	146	49946										
GDF10	2662	broad.mit.edu	37	chr10	48429216	48429216	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cctctcctcagaatccagctGggcggagaggagcagctcgc	13	14	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr10:48429216G>C	uc001jfb.2	-	2	1126	c.670C>G	c.(670-672)CAG>GAG	p.Q224E	GDF10_uc009xnp.2_Missense_Mutation_p.Q223E|GDF10_uc009xnq.1_Missense_Mutation_p.Q224E	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	224					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						GAATCCAGCTGGGCGGAGAGG	0.697													3	4	---	---	---	---	PASS	C	48429216	C	C	48429216	3	2	140	1	0	0	0	0	1	0	0	0	6311	1357	47	4	774	4	GDF10	10	48429216	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	16619499	48429216	87105531	147	49947										
ANK3	288	broad.mit.edu	37	chr10	61835767	61835767	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cctgctgtagtcactggagaGgttcgagaggaaaacgtaga	14	7	1	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr10:61835767G>T	uc001jky.2	-	37	5064	c.4872C>A	c.(4870-4872)ACC>ACA	p.T1624T	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1624	Ser-rich.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TCACTGGAGAGGTTCGAGAGG	0.478													5	44	---	---	---	---	PASS	T	61835767	T	T	61835767	2	4	140	1	0	0	0	0	0	0	0	1	622	987	35	3		3	ANK3	10	61835767	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	13406551	61835767	73698980	148	49948										
ZNF365	22891	broad.mit.edu	37	chr10	64159292	64159292	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tccaaccctctgtagaagccGagggcacccgcattcggtat	10	14	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr10:64159292G>T	uc001jly.3	+	5	1075	c.1013G>T	c.(1012-1014)CGA>CTA	p.R338L	ZNF365_uc001jmb.3_Intron|ZNF365_uc001jmc.2_Intron|ZNF365_uc001jlz.3_Missense_Mutation_p.R323L|ZNF365_uc001jma.3_RNA	NM_014951	NP_055766	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform A	Error:Variant_position_missing_in_Q70YC4_after_alignment										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					TGTAGAAGCCGAGGGCACCCG	0.483													4	84	---	---	---	---	PASS	T	64159292	T	T	64159292	3	4	140	1	0	0	0	0	1	0	0	0	17866	1058	37	2	982	2	ZNF365	10	64159292	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	2323525	64159292	71375455	149	49949										
TCF7L2	6934	broad.mit.edu	37	chr10	114911628	114911628	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gaaagcgcggccatcaaccaGatccttgggcggagggtagg	16	10	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr10:114911628G>T	uc001lae.3	+	10	1653	c.1146G>T	c.(1144-1146)CAG>CAT	p.Q382H	TCF7L2_uc001lac.3_Missense_Mutation_p.Q359H|TCF7L2_uc010qrk.1_Missense_Mutation_p.Q359H|TCF7L2_uc010qrl.1_Missense_Mutation_p.Q359H|TCF7L2_uc010qrm.1_Missense_Mutation_p.Q382H|TCF7L2_uc010qrn.1_Missense_Mutation_p.Q325H|TCF7L2_uc001lad.3_Missense_Mutation_p.Q355H|TCF7L2_uc001lag.3_Missense_Mutation_p.Q406H|TCF7L2_uc001laf.3_Missense_Mutation_p.Q359H|TCF7L2_uc010qro.1_Missense_Mutation_p.Q359H|TCF7L2_uc001lah.2_Missense_Mutation_p.Q364H|TCF7L2_uc010qrp.1_Missense_Mutation_p.Q359H|TCF7L2_uc010qrq.1_Missense_Mutation_p.Q355H|TCF7L2_uc010qrr.1_Missense_Mutation_p.Q297H|TCF7L2_uc010qrs.1_Missense_Mutation_p.Q253H|TCF7L2_uc010qrt.1_Missense_Mutation_p.Q253H|TCF7L2_uc010qru.1_Missense_Mutation_p.Q281H|TCF7L2_uc010qrv.1_Missense_Mutation_p.Q199H|TCF7L2_uc010qrw.1_Missense_Mutation_p.Q86H|TCF7L2_uc010qrx.1_Missense_Mutation_p.Q239H	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	382	Mediates interaction with MAD2L2.|HMG box.				anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		CCATCAACCAGATCCTTGGGC	0.532													8	50	---	---	---	---	PASS	T	114911628	T	T	114911628	3	4	140	1	0	0	0	0	1	0	0	0	15695	933	33	2	1329	2	TCF7L2	10	114911628	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	50752336	114911628	20623119	150	49950										
CLRN3	119467	broad.mit.edu	37	chr10	129676511	129676511	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtagaaaatgatgatggttaCagtgactatatttagaagaa	10	2	0	6			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr10:129676511C>A	uc001lka.1	-	3	746	c.583G>T	c.(583-585)GTA>TTA	p.V195L	CLRN3_uc001ljz.1_Missense_Mutation_p.V127L	NM_152311	NP_689524	Q8NCR9	CLRN3_HUMAN	clarin 3	195	Helical; (Potential).					integral to membrane				skin(1)	1		all_epithelial(44;0.00168)|all_lung(145;0.0586)|Lung NSC(174;0.0765)|all_neural(114;0.201)|Glioma(114;0.222)|Colorectal(57;0.235)				ATGATGGTTACAGTGACTATA	0.453													18	99	---	---	---	---	PASS	A	129676511	A	A	129676511	3	1	140	1	0	0	0	0	1	0	0	0	3559	478	17	3	101	3	CLRN3	10	129676511	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	14764883	129676511	5858236	151	49951										
MUC6	4588	broad.mit.edu	37	chr11	1016592	1016592	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agctgtgggtttggctggtcCcactggtggtcactgtcatt	14	9	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:1016592C>A	uc001lsw.2	-	31	6260	c.6209G>T	c.(6208-6210)GGG>GTG	p.G2070V		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2070	Ser-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TTGGCTGGTCCCACTGGTGGT	0.577													9	143	---	---	---	---	PASS	A	1016592	A	A	1016592	3	1	140	1	0	0	0	0	1	0	0	0	9980	623	22	3	1122	3	MUC6	11	1016592	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08		1016592	133989924	152	49952										
KRTAP5-3	387266	broad.mit.edu	37	chr11	1629296	1629296	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gaaatccacagacccccttgGaacccccacaggagccacag	8	17	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:1629296G>A	uc001ltw.1	-	1	398	c.320C>T	c.(319-321)TCC>TTC	p.S107F		NM_001012708	NP_001012726	Q6L8H2	KRA53_HUMAN	keratin associated protein 5-3	107	11 X 4 AA repeats of C-C-X-P.					keratin filament				ovary(2)	2		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000618)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)		GACCCCCTTGGAACCCCCACA	0.662													10	53	---	---	---	---	PASS	A	1629296	A	A	1629296	3	1	140	1	0	0	0	0	1	0	0	0	8562	1174	41	2	400	2	KRTAP5-3	11	1629296	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	612704	1629296	133377220	153	49953										
OR56B4	196335	broad.mit.edu	37	chr11	6129132	6129132	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgcccctgactctgctctacCtcttagctcttggtgccaat	7	15	4	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:6129132C>A	uc010qzx.1	+	1	124	c.124C>A	c.(124-126)CTC>ATC	p.L42I		NM_001005181	NP_001005181	Q8NH76	O56B4_HUMAN	olfactory receptor, family 56, subfamily B,	42	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.31e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCTGCTCTACCTCTTAGCTCT	0.502													6	42	---	---	---	---	PASS	A	6129132	A	A	6129132	3	1	140	1	0	0	0	0	1	0	0	0	11138	681	24	3	126	3	OR56B4	11	6129132	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	4499836	6129132	128877384	154	49954										
OR2AG2	338755	broad.mit.edu	37	chr11	6789336	6789336	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gctgtagatgagtggattcaGggctggagtgacaattgtgt	16	4	1	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:6789336G>C	uc001meq.1	-	1	853	c.853C>G	c.(853-855)CTG>GTG	p.L285V		NM_001004490	NP_001004490	A6NM03	O2AG2_HUMAN	olfactory receptor, family 2, subfamily AG,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		AGTGGATTCAGGGCTGGAGTG	0.502													6	47	---	---	---	---	PASS	C	6789336	C	C	6789336	3	2	140	1	0	0	0	0	1	0	0	0	10985	991	35	4	101	4	OR2AG2	11	6789336	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	660204	6789336	128217180	155	49955										
STK33	65975	broad.mit.edu	37	chr11	8414154	8414154	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	caggggttttctccatttctCccttgatttcagctggaagg	10	10	3	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:8414154C>A	uc001mgi.1	-	12	2367	c.1448G>T	c.(1447-1449)GGA>GTA	p.G483V	STK33_uc001mgj.1_Missense_Mutation_p.G483V|STK33_uc001mgk.1_Missense_Mutation_p.G483V|STK33_uc010rbn.1_Missense_Mutation_p.G442V|STK33_uc001mgl.3_Missense_Mutation_p.G296V	NM_030906	NP_112168	Q9BYT3	STK33_HUMAN	serine/threonine kinase 33	483						Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|pancreas(1)|central_nervous_system(1)|skin(1)	7				Epithelial(150;2.13e-06)|BRCA - Breast invasive adenocarcinoma(625;0.239)		CTCCATTTCTCCCTTGATTTC	0.448													7	89	---	---	---	---	PASS	A	8414154	A	A	8414154	3	1	140	1	0	0	0	0	1	0	0	0	15299	855	30	2	100	2	STK33	11	8414154	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	1624818	8414154	126592362	156	49956										
ASCL3	56676	broad.mit.edu	37	chr11	8959439	8959439	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ttccgggtgaaggctggcccGtaggagtactcgcaccctct	13	13	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:8959439G>T	uc001mhd.1	-	2	330	c.270C>A	c.(268-270)TAC>TAA	p.Y90*		NM_020646	NP_065697	Q9NQ33	ASCL3_HUMAN	ASCL3	89					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleolus	DNA binding				0				Epithelial(150;1.48e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0228)		AGGCTGGCCCGTAGGAGTACT	0.542													18	90	---	---	---	---	PASS	T	8959439	T	T	8959439	4	4	140	1	0	0	0	0	0	1	0	0	1035	1140	40	1	279	1	ASCL3	11	8959439	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	545285	8959439	126047077	157	49957										
MRGPRX1	259249	broad.mit.edu	37	chr11	18956275	18956275	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgcttgtagcaaagagtctcCtcagttccgttgattggtgt	11	8	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:18956275C>A	uc001mpg.2	-	1	275	c.57G>T	c.(55-57)GAG>GAT	p.E19D		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	19	Extracellular (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						AAAGAGTCTCCTCAGTTCCGT	0.527													10	373	---	---	---	---	PASS	A	18956275	A	A	18956275	3	1	140	1	0	0	0	0	1	0	0	0	9766	680	24	3	915	3	MRGPRX1	11	18956275	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	9996836	18956275	116050241	158	49958										
TTC17	55761	broad.mit.edu	37	chr11	43515348	43515348	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atttgaaaaagcactggtgtGgtatgaatccacattgaagc	10	6	0	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:43515348G>T	uc001mxi.2	+	24	3334	c.3320G>T	c.(3319-3321)TGG>TTG	p.W1107L	TTC17_uc010rfj.1_Missense_Mutation_p.W1107L|TTC17_uc001mxl.2_Missense_Mutation_p.W163L|TTC17_uc001mxm.2_Missense_Mutation_p.W88L	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	1107	TPR 6.						binding			ovary(5)	5						GCACTGGTGTGGTATGAATCC	0.478													8	178	---	---	---	---	PASS	T	43515348	T	T	43515348	3	4	140	1	0	0	0	0	1	0	0	0	16681	1357	47	3	3414	3	TTC17	11	43515348	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	24559073	43515348	91491168	159	49959										
MADD	8567	broad.mit.edu	37	chr11	47307069	47307069	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cagatgcagagtcagactctCgggcaagctctcccaactcc	9	15	3	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:47307069C>A	uc001ner.1	+	14	2670	c.2479C>A	c.(2479-2481)CGG>AGG	p.R827R	MADD_uc001neq.2_Silent_p.R827R|MADD_uc001nev.1_Silent_p.R784R|MADD_uc001nes.1_Silent_p.R784R|MADD_uc001net.1_Silent_p.R827R|MADD_uc009yln.1_Silent_p.R784R|MADD_uc001neu.1_Silent_p.R784R|MADD_uc001nex.2_Silent_p.R827R|MADD_uc001nez.2_Silent_p.R784R|MADD_uc001new.2_Silent_p.R827R	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	827					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		GTCAGACTCTCGGGCAAGCTC	0.567													7	204	---	---	---	---	PASS	A	47307069	A	A	47307069	2	1	140	1	0	0	0	0	0	0	0	1	9152	875	31	2		2	MADD	11	47307069	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	3791721	47307069	87699447	160	49960										
OR5AS1	219447	broad.mit.edu	37	chr11	55798388	55798388	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccatgtgtgcctcacattcaGgctgtcattttgtggctcca	9	12	3	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:55798388G>C	uc010riw.1	+	1	494	c.494G>C	c.(493-495)AGG>ACG	p.R165T		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					CTCACATTCAGGCTGTCATTT	0.428													6	65	---	---	---	---	PASS	C	55798388	C	C	55798388	3	2	140	1	0	0	0	0	1	0	0	0	11146	1000	35	4	496	4	OR5AS1	11	55798388	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	8491319	55798388	79208128	161	49961										
OR8I2	120586	broad.mit.edu	37	chr11	55861505	55861505	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gaaggccttctccacctgcgCatcccacctcatggctgtaa	8	16	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:55861505C>A	uc010rix.1	+	1	722	c.722C>A	c.(721-723)GCA>GAA	p.A241E		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					TCCACCTGCGCATCCCACCTC	0.498													4	29	---	---	---	---	PASS	A	55861505	A	A	55861505	3	1	140	1	0	0	0	0	1	0	0	0	11240	710	25	3	724	3	OR8I2	11	55861505	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	63117	55861505	79145011	162	49962										
OR10V1	390201	broad.mit.edu	37	chr11	59481101	59481101	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atggggtgatggaagatgtaTagaagatttctagaactgcc	13	4	1	5			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:59481101T>C	uc001nof.1	-	1	218	c.218A>G	c.(217-219)TAT>TGT	p.Y73C		NM_001005324	NP_001005324	Q8NGI7	O10V1_HUMAN	olfactory receptor, family 10, subfamily V,	73	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGAAGATGTATAGAAGATTTC	0.453													6	36	---	---	---	---	PASS	C	59481101	C	C	59481101	3	2	140	1	0	0	0	0	1	0	0	0	10920	1406	49	5	715	5	OR10V1	11	59481101	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	3619596	59481101	75525415	163	49963										
MS4A7	58475	broad.mit.edu	37	chr11	60160167	60160167	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctgatttgcagggtgtcctaGtggtgatgctcatcttcact	11	9	3	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:60160167G>T	uc001npe.2	+	6	701	c.556G>T	c.(556-558)GTG>TTG	p.V186L	MS4A7_uc001npf.2_Missense_Mutation_p.V186L|MS4A7_uc001npg.2_Missense_Mutation_p.V141L|MS4A7_uc001nph.2_Missense_Mutation_p.V141L|MS4A14_uc001npi.2_Intron	NM_206939	NP_996822	Q9GZW8	MS4A7_HUMAN	membrane-spanning 4-domains, subfamily A, member	186	Helical; (Potential).					integral to membrane	receptor activity			ovary(1)|central_nervous_system(1)	2						GGGTGTCCTAGTGGTGATGCT	0.512													24	83	---	---	---	---	PASS	T	60160167	T	T	60160167	3	4	140	1	0	0	0	0	1	0	0	0	9866	1029	36	3	574	3	MS4A7	11	60160167	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	679066	60160167	74846349	164	49964										
DDB1	1642	broad.mit.edu	37	chr11	61083759	61083759	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccctttctcagttatcacctGgataagctgctgatgagcca	8	12	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:61083759G>T	uc001nrc.3	-	12	1634	c.1408C>A	c.(1408-1410)CAG>AAG	p.Q470K	DDB1_uc010rle.1_Intron|DDB1_uc010rlf.1_Missense_Mutation_p.Q470K|DDB1_uc010rlg.1_RNA|DDB1_uc001nrd.2_Missense_Mutation_p.Q470K	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	470	Interaction with CDT1.|Interaction with CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						GTTATCACCTGGATAAGCTGC	0.438								NER					10	295	---	---	---	---	PASS	T	61083759	T	T	61083759	3	4	140	1	0	0	0	0	1	0	0	0	4323	1357	47	3	2078	3	DDB1	11	61083759	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	923592	61083759	73922757	165	49965										
KDM2A	22992	broad.mit.edu	37	chr11	66947553	66947553	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gttcctttctttcctagcgtGgtaccatgcgacgacgctat	9	12	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:66947553G>T	uc001ojw.2	+	3	910	c.46G>T	c.(46-48)GGT>TGT	p.G16C	KDM2A_uc001ojx.2_RNA	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	16					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	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|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						TTCCTAGCGTGGTACCATGCG	0.398													5	54	---	---	---	---	PASS	T	66947553	T	T	66947553	3	4	140	1	0	0	0	0	1	0	0	0	8124	1348	47	3	52	3	KDM2A	11	66947553	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	5863794	66947553	68058963	166	49966										
DSCAML1	57453	broad.mit.edu	37	chr11	117307860	117307860	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccatcgtagtccagggtggcGaactgggctgtttcattgcc	13	11	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:117307860G>A	uc001prh.1	-	26	4880	c.4878C>T	c.(4876-4878)TTC>TTT	p.F1626F		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1566	Extracellular (Potential).|Fibronectin type-III 6.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CCAGGGTGGCGAACTGGGCTG	0.617													13	58	---	---	---	---	PASS	A	117307860	A	A	117307860	2	1	140	1	0	0	0	0	0	0	0	1	4769	1049	37	2		2	DSCAML1	11	117307860	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	50360307	117307860	17698656	167	49967										
BCL9L	283149	broad.mit.edu	37	chr11	118769284	118769284	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agagcatgtggggcggctggCtgtagacctcgccccccacg	15	14	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:118769284C>A	uc001pug.2	-	8	5305	c.4340G>T	c.(4339-4341)AGC>ATC	p.S1447I	BCL9L_uc009zal.2_Missense_Mutation_p.S1442I	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	1447					negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		GGGCGGCTGGCTGTAGACCTC	0.672													3	9	---	---	---	---	PASS	A	118769284	A	A	118769284	3	1	140	1	0	0	0	0	1	0	0	0	1382	797	28	3	163	3	BCL9L	11	118769284	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	1461424	118769284	16237232	168	49968										
UBASH3B	84959	broad.mit.edu	37	chr11	122653771	122653771	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctttttccagaagtgcatgtGgaacctcataagaagcagct	9	9	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:122653771G>T	uc001pyi.3	+	5	972	c.612G>T	c.(610-612)GTG>GTT	p.V204V		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	204						cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		AAGTGCATGTGGAACCTCATA	0.463													9	280	---	---	---	---	PASS	T	122653771	T	T	122653771	2	4	140	1	0	0	0	0	0	0	0	1	16837	1335	47	3		3	UBASH3B	11	122653771	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	3884487	122653771	12352745	169	49969										
GRAMD1B	57476	broad.mit.edu	37	chr11	123489412	123489412	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccttcctagtctggtgctgcTggtcatccttaacatgatgc	9	12	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:123489412T>C	uc001pyx.2	+	18	2242	c.1913T>C	c.(1912-1914)CTG>CCG	p.L638P	GRAMD1B_uc001pyw.2_Missense_Mutation_p.L645P|GRAMD1B_uc010rzw.1_Missense_Mutation_p.L594P|GRAMD1B_uc010rzx.1_Missense_Mutation_p.L598P|GRAMD1B_uc001pyy.2_Missense_Mutation_p.L325P	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	638	Helical; (Potential).					integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		CTGGTGCTGCTGGTCATCCTT	0.522													5	17	---	---	---	---	PASS	C	123489412	C	C	123489412	3	2	140	1	0	0	0	0	1	0	0	0	6748	1580	55	5	1983	5	GRAMD1B	11	123489412	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	835641	123489412	11517104	170	49970										
OR6M1	390261	broad.mit.edu	37	chr11	123676931	123676931	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aatccatatcagggagatgaTggtgatgtttcctgttgctg	12	6	1	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:123676931T>C	uc010rzz.1	-	1	127	c.127A>G	c.(127-129)ATC>GTC	p.I43V		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		AGGGAGATGATGGTGATGTTT	0.418													10	65	---	---	---	---	PASS	C	123676931	C	C	123676931	3	2	140	1	0	0	0	0	1	0	0	0	11205	1464	51	5	817	5	OR6M1	11	123676931	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	187519	123676931	11329585	171	49971										
OR8B4	283162	broad.mit.edu	37	chr11	124294684	124294684	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tagatccctaagaatagaagGaaaagagggagctggagctc	13	6	0	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:124294684G>T	uc010sak.1	-	1	84	c.84C>A	c.(82-84)TTC>TTA	p.F28L		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	28	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		AGAATAGAAGGAAAAGAGGGA	0.468													14	48	---	---	---	---	PASS	T	124294684	T	T	124294684	3	4	140	1	0	0	0	0	1	0	0	0	11229	1165	41	2	847	2	OR8B4	11	124294684	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	617753	124294684	10711832	172	49972										
OR8B8	26493	broad.mit.edu	37	chr11	124310527	124310527	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gggccatggccccagcaaacCccatcccatagacacccaac	7	19	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:124310527C>T	uc010sal.1	-	1	455	c.455G>A	c.(454-456)GGG>GAG	p.G152E		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		CCCAGCAAACCCCATCCCATA	0.522													10	82	---	---	---	---	PASS	T	124310527	T	T	124310527	3	4	140	1	0	0	0	0	1	0	0	0	11230	623	22	3	483	3	OR8B8	11	124310527	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	15843	124310527	10695989	173	49973										
KIRREL3	84623	broad.mit.edu	37	chr11	126333056	126333056	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gggggtgggtactcacgctgGatgtcaatggtgaccgacgt	17	8	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:126333056G>T	uc001qea.2	-	6	1099	c.738C>A	c.(736-738)ATC>ATA	p.I246I	KIRREL3_uc001qeb.2_Silent_p.I246I|KIRREL3_uc001qec.1_Silent_p.I246I	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	246	Extracellular (Potential).				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		ACTCACGCTGGATGTCAATGG	0.607													6	21	---	---	---	---	PASS	T	126333056	T	T	126333056	2	4	140	1	0	0	0	0	0	0	0	1	8326	1164	41	2		2	KIRREL3	11	126333056	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	2022529	126333056	8673460	174	49974										
NTM	50863	broad.mit.edu	37	chr11	132177606	132177606	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ttggctttgtgagtgaagacGaatacttggaaattcagggc	13	5	1	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr11:132177606G>T	uc001qgp.2	+	4	1214	c.550G>T	c.(550-552)GAA>TAA	p.E184*	NTM_uc001qgm.2_Nonsense_Mutation_p.E184*|NTM_uc010sch.1_Nonsense_Mutation_p.E175*|NTM_uc010sci.1_Nonsense_Mutation_p.E184*|NTM_uc010scj.1_Nonsense_Mutation_p.E143*|NTM_uc001qgo.2_Nonsense_Mutation_p.E184*|NTM_uc001qgq.2_Nonsense_Mutation_p.E184*|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	184	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						GAGTGAAGACGAATACTTGGA	0.493													4	57	---	---	---	---	PASS	T	132177606	T	T	132177606	4	4	140	1	0	0	0	0	0	1	0	0	10699	1059	37	2	650	2	NTM	11	132177606	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	5844550	132177606	2828910	175	49975										
DCP1B	196513	broad.mit.edu	37	chr12	2062441	2062441	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcaaggataagtgttggggtTcagggtctaaggtctggaaa	15	4	4	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:2062441T>G	uc001qjx.1	-	7	745	c.665A>C	c.(664-666)GAA>GCA	p.E222A	DCP1B_uc010sdy.1_Missense_Mutation_p.E120A	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	222					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			GTGTTGGGGTTCAGGGTCTAA	0.398													6	46	---	---	---	---	PASS	G	2062441	G	G	2062441	3	3	140	1	0	0	0	0	1	0	0	0	4299	1783	62	5	1200	5	DCP1B	12	2062441	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08		2062441	131789454	176	49976										
NDUFA9	4704	broad.mit.edu	37	chr12	4791398	4791398	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cggtacctccttttccacctGgtgaagtacatctttgctgt	8	12	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:4791398G>T	uc001qnc.2	+	9	838	c.828G>T	c.(826-828)CTG>CTT	p.L276L	NDUFA9_uc010ses.1_Silent_p.L57L	NM_005002	NP_004993	Q16795	NDUA9_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	276					mitochondrial electron transport, NADH to ubiquinone|sodium ion transport	mitochondrial matrix|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	TTTTCCACCTGGTGAAGTACA	0.418													5	54	---	---	---	---	PASS	T	4791398	T	T	4791398	2	4	140	1	0	0	0	0	0	0	0	1	10272	1335	47	3		3	NDUFA9	12	4791398	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	2728957	4791398	129060497	177	49977										
PRB3	5544	broad.mit.edu	37	chr12	11420857	11420857	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gaggtgggggaccttgggacTggtttcctccttgtgggggt	19	7	0	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:11420857T>A	uc001qzs.2	-	3	364	c.326A>T	c.(325-327)CAG>CTG	p.Q109L	PRB4_uc001qzf.1_Intron	NM_006249	NP_006240	Q04118	PRB3_HUMAN	proline-rich protein BstNI subfamily 3	109	10 X 21 AA tandem repeats of [RH]-P-G-K- P-[EQ]-G-[PQS]-P-[PS]-Q-[GE]-G-N-[QK]- [SP]-[QR]-[GR]-P-P-P.|Pro-rich.|3.					extracellular region	Gram-negative bacterial cell surface binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.201)			ACCTTGGGACTGGTTTCCTCC	0.627													28	160	---	---	---	---	PASS	A	11420857	A	A	11420857	3	1	140	1	0	0	0	0	1	0	0	0	12444	1580	55	5	611	5	PRB3	12	11420857	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	6629459	11420857	122431038	178	49978										
GUCY2C	2984	broad.mit.edu	37	chr12	14766078	14766078	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	taggtgctctccttgtctgtGgtattcagctgcaagtattc	10	9	3	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:14766078G>T	uc001rcd.2	-	27	3332	c.3195C>A	c.(3193-3195)ACC>ACA	p.T1065T		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	1065	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						CCTTGTCTGTGGTATTCAGCT	0.438													5	73	---	---	---	---	PASS	T	14766078	T	T	14766078	2	4	140	1	0	0	0	0	0	0	0	1	6896	1335	47	3		3	GUCY2C	12	14766078	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	3345221	14766078	119085817	179	49979										
PTPRO	5800	broad.mit.edu	37	chr12	15733040	15733040	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gcagactacatcaatgccaaCtatattcctgtaagtagaaa	6	9	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:15733040C>A	uc001rcv.1	+	21	3162	c.2988C>A	c.(2986-2988)AAC>AAA	p.N996K	PTPRO_uc001rcw.1_Missense_Mutation_p.N968K|PTPRO_uc001rcx.1_Missense_Mutation_p.N185K|PTPRO_uc001rcy.1_Missense_Mutation_p.N185K|PTPRO_uc001rcz.1_Missense_Mutation_p.N157K|PTPRO_uc001rda.1_Missense_Mutation_p.N157K	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	996	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					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)				TCAATGCCAACTATATTCCTG	0.378													6	20	---	---	---	---	PASS	A	15733040	A	A	15733040	3	1	140	1	0	0	0	0	1	0	0	0	12809	564	20	3	3070	3	PTPRO	12	15733040	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	966962	15733040	118118855	180	49980										
C12orf35	55196	broad.mit.edu	37	chr12	32138230	32138230	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agtagaattctaactcctaaGgagtatttacaaaggcagaa	8	6	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:32138230G>T	uc001rks.2	+	4	4755	c.4341G>T	c.(4339-4341)AAG>AAT	p.K1447N	C12orf35_uc001rkt.2_5'Flank	NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	1447										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			TAACTCCTAAGGAGTATTTAC	0.353													7	71	---	---	---	---	PASS	T	32138230	T	T	32138230	3	4	140	1	0	0	0	0	1	0	0	0	1682	991	35	3	4343	3	C12orf35	12	32138230	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	16405190	32138230	101713665	181	49981										
PLEKHA9	51054	broad.mit.edu	37	chr12	45568068	45568068	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcaattccctcctcagaattGgacacaccagttgtggtcac	7	13	3	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:45568068G>T	uc001rom.1	-	3	618	c.81C>A	c.(79-81)TCC>TCA	p.S27S	PLEKHA9_uc009zke.2_Silent_p.S27S	NM_015899	NP_056983			pleckstrin homology domain containing, family A												0	Lung SC(27;0.192)|Renal(347;0.236)			GBM - Glioblastoma multiforme(48;0.173)		CCTCAGAATTGGACACACCAG	0.408													7	179	---	---	---	---	PASS	T	45568068	T	T	45568068	2	4	140	1	0	0	0	0	0	0	0	1	12063	1335	47	3		3	PLEKHA9	12	45568068	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	13429838	45568068	88283827	182	49982										
ASB8	140461	broad.mit.edu	37	chr12	48547277	48547277	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atataccacatactggaactCatcaaggctcaaggtgttca	7	10	4	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:48547277C>A	uc001rrh.2	-	2	172	c.3G>T	c.(1-3)ATG>ATT	p.M1I	ASB8_uc010slr.1_5'UTR	NM_024095	NP_077000	Q9H765	ASB8_HUMAN	ankyrin repeat and SOCS box-containing 8	1					intracellular signal transduction	cytoplasm|nucleus				kidney(1)	1						TACTGGAACTCATCAAGGCTC	0.448													5	51	---	---	---	---	PASS	A	48547277	A	A	48547277	3	1	140	1	0	0	0	0	1	0	0	0	1029	826	29	2	875	2	ASB8	12	48547277	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	2979209	48547277	85304618	183	49983										
GRASP	160622	broad.mit.edu	37	chr12	52404685	52404685	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gaaagtgctgacgttggagaAggaggataaccagaccttcg	14	7	0	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:52404685A>T	uc001rzo.1	+	3	373	c.317A>T	c.(316-318)AAG>ATG	p.K106M	GRASP_uc001rzp.1_Translation_Start_Site	NM_181711	NP_859062	Q7Z6J2	GRASP_HUMAN	GRP1 (general receptor for phosphoinositides	106	PDZ.					cell junction|perinuclear region of cytoplasm|postsynaptic membrane				central_nervous_system(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.0967)		ACGTTGGAGAAGGAGGATAAC	0.532													26	161	---	---	---	---	PASS	T	52404685	T	T	52404685	3	4	140	1	0	0	0	0	1	0	0	0	6755	72	3	5	327	5	GRASP	12	52404685	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	3857408	52404685	81447210	184	49984										
DGKA	1606	broad.mit.edu	37	chr12	56330863	56330863	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atggcgagatggctaaatatGtccaaggagatgtgagtggc	15	5	0	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:56330863G>A	uc001sij.2	+	3	391	c.127G>A	c.(127-129)GTC>ATC	p.V43I	DGKA_uc009zoc.1_Missense_Mutation_p.V43I|DGKA_uc001sih.1_5'UTR|DGKA_uc001sii.1_5'UTR|DGKA_uc009zod.1_Intron|DGKA_uc009zoe.1_Missense_Mutation_p.V43I|DGKA_uc001sik.2_Missense_Mutation_p.V43I|DGKA_uc001sil.2_Missense_Mutation_p.V43I|DGKA_uc001sim.2_Missense_Mutation_p.V43I|DGKA_uc001sin.2_Missense_Mutation_p.V43I|DGKA_uc009zof.2_5'UTR|DGKA_uc001sio.2_5'UTR	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	43					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	GGCTAAATATGTCCAAGGAGA	0.448													27	86	---	---	---	---	PASS	A	56330863	A	A	56330863	3	1	140	1	0	0	0	0	1	0	0	0	4465	1377	48	3	133	3	DGKA	12	56330863	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	3926178	56330863	77521032	185	49985										
ATP5B	506	broad.mit.edu	37	chr12	57039026	57039026	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccagggcatttagaattggtGgtagtccctcatcaaactgg	11	9	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:57039026G>T	uc001slr.2	-	2	344	c.239C>A	c.(238-240)CCA>CAA	p.P80Q	SNORD59B_uc001sls.1_5'Flank|SNORD59A_uc001slt.1_5'Flank	NM_001686	NP_001677	P06576	ATPB_HUMAN	mitochondrial ATP synthase beta subunit	80					angiogenesis|ATP hydrolysis coupled proton transport|regulation of intracellular pH|respiratory electron transport chain	cell surface|mitochondrial nucleoid|mitochondrial proton-transporting ATP synthase, catalytic core|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|hydrogen-exporting ATPase activity, phosphorylative mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)	1						TAGAATTGGTGGTAGTCCCTC	0.557													5	72	---	---	---	---	PASS	T	57039026	T	T	57039026	3	4	140	1	0	0	0	0	1	0	0	0	1148	1348	47	3	1386	3	ATP5B	12	57039026	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	708163	57039026	76812869	186	49986										
LRP1	4035	broad.mit.edu	37	chr12	57595586	57595586	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agatgacctgtggtgtggacGagttccgctgcaaggattcg	15	8	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:57595586G>T	uc001snd.2	+	67	10958	c.10492G>T	c.(10492-10494)GAG>TAG	p.E3498*		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3498	Extracellular (Potential).|LDL-receptor class A 25.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TGGTGTGGACGAGTTCCGCTG	0.632													4	78	---	---	---	---	PASS	T	57595586	T	T	57595586	4	4	140	1	0	0	0	0	0	1	0	0	8951	1059	37	2	10758	2	LRP1	12	57595586	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	556560	57595586	76256309	187	49987										
DPY19L2	283417	broad.mit.edu	37	chr12	64061895	64061895	+	Silent	SNP	C	A	A													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgcagttcctgcaccttttcCcggagctgcgccagggaatt							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:64061895C>A	uc001srp.1	-	1	460	c.279G>T	c.(277-279)CGG>CGT	p.R93R	DPY19L2_uc009zqk.1_RNA	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	93					multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		GCACCTTTTCCCGGAGCTGCG	0.607													22	61	---	---	---	---	PASS	A	64061895	A	A	64061895	2	1	140	1	0	0	0	0	0	0	0	1	4741	610	22	3		3	DPY19L2	12	64061895	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	6466309	64061895	69790000	188	49988	913	2								
DPY19L2	283417	broad.mit.edu	37	chr12	64061896	64061896	+	Missense_Mutation	SNP	C	T	T													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gcagttcctgcaccttttccCggagctgcgccagggaatta					rs111719532		TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:64061896C>T	uc001srp.1	-	1	459	c.278G>A	c.(277-279)CGG>CAG	p.R93Q	DPY19L2_uc009zqk.1_RNA	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	93					multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		CACCTTTTCCCGGAGCTGCGC	0.607													20	61	---	---	---	---	PASS	T	64061896	T	T	64061896	3	4	140	1	0	0	0	0	1	0	0	0	4741	652	23	1	2086	1	DPY19L2	12	64061896	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	1	64061896	69789999	189	49989	913	2								
ACTR6	64431	broad.mit.edu	37	chr12	100617613	100617613	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aattgatatcagagaatgatGattttgaagatatggtggta	11	1	1	6			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:100617613G>T	uc001thb.1	+	11	1167	c.1111G>T	c.(1111-1113)GAT>TAT	p.D371Y	ACTR6_uc001thc.1_Missense_Mutation_p.D263Y|ACTR6_uc001thd.1_Missense_Mutation_p.D351Y|ACTR6_uc009ztu.1_Intron|ACTR6_uc001the.1_Missense_Mutation_p.D289Y|ACTR6_uc001thf.1_Missense_Mutation_p.D269Y|uc001thg.1_5'Flank	NM_022496	NP_071941	Q9GZN1	ARP6_HUMAN	ARP6 actin-related protein 6 homolog	371						cytoplasm|cytoskeleton				ovary(1)	1						AGAGAATGATGATTTTGAAGA	0.328													6	63	---	---	---	---	PASS	T	100617613	T	T	100617613	3	4	140	1	0	0	0	0	1	0	0	0	216	1290	45	2	1153	2	ACTR6	12	100617613	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	36555717	100617613	33234282	190	49990										
CMKLR1	1240	broad.mit.edu	37	chr12	108686289	108686289	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtaagccaggcgaacgctgcGgtggttctgggaccagacag	16	10	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:108686289G>A	uc009zuw.2	-	3	642	c.451C>T	c.(451-453)CGC>TGC	p.R151C	CMKLR1_uc001tmw.2_Missense_Mutation_p.R151C|CMKLR1_uc001tmv.2_Missense_Mutation_p.R149C|CMKLR1_uc009zuv.2_Missense_Mutation_p.R151C	NM_001142345	NP_001135817	Q99788	CML1_HUMAN	chemokine-like receptor 1 isoform a	151	Cytoplasmic (Potential).				chemotaxis|immune response|negative regulation of interleukin-12 production|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage chemotaxis|regulation of calcium-mediated signaling|skeletal system development	integral to plasma membrane	chemokine receptor activity			lung(3)|ovary(1)|pancreas(1)	5						CGAACGCTGCGGTGGTTCTGG	0.572													6	65	---	---	---	---	PASS	A	108686289	A	A	108686289	3	1	140	1	0	0	0	0	1	0	0	0	3579	1116	39	1	674	1	CMKLR1	12	108686289	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	8068676	108686289	25165606	191	49991										
NAA25	80018	broad.mit.edu	37	chr12	112486193	112486193	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gttcctaaaagcgataaactCtgggatcttctcaaatgcac	7	10	3	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:112486193C>A	uc001ttm.2	-	16	1803	c.1783G>T	c.(1783-1785)GAG>TAG	p.E595*	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Nonsense_Mutation_p.E567*|NAA25_uc009zwa.1_Nonsense_Mutation_p.E595*	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	595						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						GCGATAAACTCTGGGATCTTC	0.373													9	58	---	---	---	---	PASS	A	112486193	A	A	112486193	4	1	140	1	0	0	0	0	0	1	0	0	10121	922	32	2	1171	2	NAA25	12	112486193	Nonsense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	3799904	112486193	21365702	192	49992										
PTPN11	5781	broad.mit.edu	37	chr12	112926888	112926888	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ggtgcggtctcagaggtcagGgatggtccagacagaagcac	16	9	2	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:112926888G>T	uc001ttx.2	+	13	1888	c.1508G>T	c.(1507-1509)GGG>GTG	p.G503V		NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	507	Tyrosine-protein phosphatase.		G -> A (in JMML).|G -> R (in patients with growth retardation, pulmonic stenosis and juvenile myelomonocytic leukemia).		axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding	p.G503A(14)|p.G503V(8)|p.G503E(2)|p.G503L(1)|p.G503R(1)		haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						CAGAGGTCAGGGATGGTCCAG	0.468			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				31	174	---	---	---	---	PASS	T	112926888	T	T	112926888	3	4	140	1	0	0	0	0	1	0	0	0	12780	1232	43	3	1558	3	PTPN11	12	112926888	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	440695	112926888	20925007	193	49993										
NOS1	4842	broad.mit.edu	37	chr12	117768764	117768764	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gagatgatcacgggcggcttActgacccgctccttcaccag	11	14	2	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr12:117768764A>T	uc001twm.1	-	2	797	c.111T>A	c.(109-111)AGT>AGA	p.S37R		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	37	Interaction with NOSIP (By similarity).|PDZ.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CGGGCGGCTTACTGACCCGCT	0.577													8	41	---	---	---	---	PASS	T	117768764	T	T	117768764	3	4	140	1	0	0	0	0	1	0	0	0	10541	388	14	5	4305	5	NOS1	12	117768764	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	4841876	117768764	16083131	194	49994										
BRCA2	675	broad.mit.edu	37	chr13	32900678	32900678	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tttctgaaagtctaggagctGaggtggatcctgatatgtct	12	6	3	3	rs80358780		TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr13:32900678G>T	uc001uub.1	+	7	786	c.559G>T	c.(559-561)GAG>TAG	p.E187*	BRCA2_uc001uua.1_Nonsense_Mutation_p.E64*	NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	187					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding	p.E187K(1)		ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TCTAGGAGCTGAGGTGGATCC	0.378			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			5	66	---	---	---	---	PASS	T	32900678	T	T	32900678	4	4	140	1	0	0	0	0	0	1	0	0	1499	1291	45	2	581	2	BRCA2	13	32900678	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08		32900678	82269200	195	49995										
LCP1	3936	broad.mit.edu	37	chr13	46730577	46730577	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aagaagtattatttaccaaaGgacaatgccatctccaacag	6	9	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr13:46730577G>T	uc001vaz.3	-	5	613	c.487C>A	c.(487-489)CTT>ATT	p.L163I	LCP1_uc001vba.3_Missense_Mutation_p.L163I	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	163	Actin-binding 1.|CH 1.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		ATTTACCAAAGGACAATGCCA	0.383			T	BCL6	NHL 								6	92	---	---	---	---	PASS	T	46730577	T	T	46730577	3	4	140	1	0	0	0	0	1	0	0	0	8691	1000	35	3	1444	3	LCP1	13	46730577	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	13829899	46730577	68439301	196	49996										
UTP14C	9724	broad.mit.edu	37	chr13	52603078	52603078	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agaaagcatcaaaagcttctGgaagcaatcatttcccttga	7	9	3	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr13:52603078G>T	uc001vgb.2	+	2	673	c.138G>T	c.(136-138)CTG>CTT	p.L46L	UTP14C_uc001vga.2_3'UTR|UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	46					cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)		AAAAGCTTCTGGAAGCAATCA	0.453													8	149	---	---	---	---	PASS	T	52603078	T	T	52603078	2	4	140	1	0	0	0	0	0	0	0	1	17093	1335	47	3		3	UTP14C	13	52603078	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	5872501	52603078	62566800	197	49997										
MYCBP2	23077	broad.mit.edu	37	chr13	77699588	77699588	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atccagttgcacccatgtccCttcagaattggttacctggt	8	12	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr13:77699588C>T	uc001vkf.2	-	55	7877	c.7786G>A	c.(7786-7788)GGG>AGG	p.G2596R	MYCBP2_uc010aev.2_Missense_Mutation_p.G2000R|MYCBP2_uc001vkg.1_Missense_Mutation_p.G59R	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2596					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		ACCCATGTCCCTTCAGAATTG	0.443													8	43	---	---	---	---	PASS	T	77699588	T	T	77699588	3	4	140	1	0	0	0	0	1	0	0	0	10018	681	24	3	6256	3	MYCBP2	13	77699588	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	25096510	77699588	37470290	198	49998										
GPC5	2262	broad.mit.edu	37	chr13	92346109	92346109	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atgctgtgttacaggctcacCtcaatggacaaaaattattg	8	8	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr13:92346109C>A	uc010tif.1	+	3	1360	c.994C>A	c.(994-996)CTC>ATC	p.L332I		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	332						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				ACAGGCTCACCTCAATGGACA	0.393													5	60	---	---	---	---	PASS	A	92346109	A	A	92346109	3	1	140	1	0	0	0	0	1	0	0	0	6601	681	24	3	1004	3	GPC5	13	92346109	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	14646521	92346109	22823769	199	49999										
NALCN	259232	broad.mit.edu	37	chr13	102029299	102029299	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgtaattctggtccttggcaGttcaaatcggaaataaatcc	8	8	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr13:102029299G>T	uc001vox.1	-	5	673	c.484C>A	c.(484-486)CTG>ATG	p.L162M	NALCN_uc001voy.2_Translation_Start_Site|NALCN_uc001voz.2_Missense_Mutation_p.L162M|NALCN_uc001vpa.2_Missense_Mutation_p.L162M	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	162	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GTCCTTGGCAGTTCAAATCGG	0.368													5	34	---	---	---	---	PASS	T	102029299	T	T	102029299	3	4	140	1	0	0	0	0	1	0	0	0	10148	1020	36	3	4892	3	NALCN	13	102029299	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	9683190	102029299	13140579	200	50000										
HECTD1	25831	broad.mit.edu	37	chr14	31585550	31585550	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agatggttgatctgaaattgGtgagtggtaattcaacttca	11	4	3	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr14:31585550G>C	uc001wrc.1	-	30	5999	c.5510C>G	c.(5509-5511)ACC>AGC	p.T1837S	HECTD1_uc001wra.1_5'UTR|HECTD1_uc001wrb.1_5'UTR|HECTD1_uc001wrd.1_Missense_Mutation_p.T1305S	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1837					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		TCTGAAATTGGTGAGTGGTAA	0.408													3	41	---	---	---	---	PASS	C	31585550	C	C	31585550	3	2	140	1	0	0	0	0	1	0	0	0	7039	1261	44	4	2378	4	HECTD1	14	31585550	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08		31585550	75763990	201	50001										
SEC23A	10484	broad.mit.edu	37	chr14	39565184	39565184	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aggtggtaagtcaggtctctCtttcagtggtgtaaacaggg	14	6	4	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr14:39565184C>A	uc001wup.1	-	2	362	c.139G>T	c.(139-141)GAG>TAG	p.E47*	SEC23A_uc010tqa.1_Intron|SEC23A_uc010tqb.1_Nonsense_Mutation_p.E47*	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	47					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		TCAGGTCTCTCTTTCAGTGGT	0.428													8	72	---	---	---	---	PASS	A	39565184	A	A	39565184	4	1	140	1	0	0	0	0	0	1	0	0	13991	922	32	2	2234	2	SEC23A	14	39565184	Nonsense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	7979634	39565184	67784356	202	50002										
RPL10L	140801	broad.mit.edu	37	chr14	47120931	47120931	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cggtaacagcgagctggacgGcgccccatggcgacacagta	14	13	0	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr14:47120931G>T	uc001wwg.2	-	1	98	c.9C>A	c.(7-9)CGC>CGA	p.R3R		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	3					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						GAGCTGGACGGCGCCCCATGG	0.557													5	51	---	---	---	---	PASS	T	47120931	T	T	47120931	2	4	140	1	0	0	0	0	0	0	0	1	13556	1190	42	3		3	RPL10L	14	47120931	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	7555747	47120931	60228609	203	50003										
ATXN3	4287	broad.mit.edu	37	chr14	92548666	92548666	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgcatacttagctgaatagcCctgcggagatctgcttcctc	9	12	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr14:92548666C>A	uc001yac.3	-	8	822	c.753G>T	c.(751-753)AGG>AGT	p.R251S	ATXN3_uc010aug.2_Missense_Mutation_p.R236S|ATXN3_uc001yad.3_Missense_Mutation_p.R196S|ATXN3_uc010auh.2_Missense_Mutation_p.R185S|ATXN3_uc001yae.3_Missense_Mutation_p.R153S|ATXN3_uc010twl.1_RNA	NM_004993	NP_004984	P54252	ATX3_HUMAN	ataxin 3 reference isoform	251	UIM 2.				cell death|nervous system development|nucleotide-excision repair|regulation of transcription, DNA-dependent|synaptic transmission|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleoplasm	cysteine-type peptidase activity|protein binding				0		all_cancers(154;0.0768)		COAD - Colon adenocarcinoma(157;0.224)		GCTGAATAGCCCTGCGGAGAT	0.413													12	49	---	---	---	---	PASS	A	92548666	A	A	92548666	3	1	140	1	0	0	0	0	1	0	0	0	1213	622	22	3	348	3	ATXN3	14	92548666	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	45427735	92548666	14800874	204	50004										
DICER1	23405	broad.mit.edu	37	chr14	95560326	95560326	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gacagctttgaagtacttgtGgtagtcgtactttacagcca	10	8	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr14:95560326G>T	uc001ydw.2	-	25	5445	c.5263C>A	c.(5263-5265)CAC>AAC	p.H1755N	DICER1_uc010avh.1_Missense_Mutation_p.H653N|DICER1_uc001ydv.2_Missense_Mutation_p.H1745N|DICER1_uc001ydx.2_Missense_Mutation_p.H1755N	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1755	RNase III 2.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		AAGTACTTGTGGTAGTCGTAC	0.507			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				6	77	---	---	---	---	PASS	T	95560326	T	T	95560326	3	4	140	1	0	0	0	0	1	0	0	0	4521	1348	47	3	521	3	DICER1	14	95560326	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	3011660	95560326	11789214	205	50005										
CLMN	79789	broad.mit.edu	37	chr14	95669862	95669862	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ttgtgagcagatttaatactCcttttacctagtttttcagc	6	8	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr14:95669862C>A	uc001yef.2	-	9	1940	c.1824G>T	c.(1822-1824)AGG>AGT	p.R608S		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	608						integral to membrane	actin binding				0				Epithelial(152;0.193)		ATTTAATACTCCTTTTACCTA	0.443													18	46	---	---	---	---	PASS	A	95669862	A	A	95669862	3	1	140	1	0	0	0	0	1	0	0	0	3542	854	30	2	1204	2	CLMN	14	95669862	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	109536	95669862	11679678	206	50006										
ATG2B	55102	broad.mit.edu	37	chr14	96771996	96771996	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tccataaagatgccagacaaGagagacctccttcaccacat	6	13	1	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr14:96771996G>T	uc001yfi.2	-	31	5028	c.4663C>A	c.(4663-4665)CTT>ATT	p.L1555I		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1555										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)		TGCCAGACAAGAGAGACCTCC	0.408													5	54	---	---	---	---	PASS	T	96771996	T	T	96771996	3	4	140	1	0	0	0	0	1	0	0	0	1094	942	33	2	1621	2	ATG2B	14	96771996	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1102134	96771996	10577544	207	50007										
TUBGCP5	114791	broad.mit.edu	37	chr15	22853811	22853811	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gacgagtggatcgtgcacggGcacctgtgggatggcgccag	18	10	0	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:22853811G>T	uc001yur.3	+	12	1579	c.1449G>T	c.(1447-1449)GGG>GGT	p.G483G	TUBGCP5_uc001yuq.2_Silent_p.G483G|TUBGCP5_uc010axz.1_Silent_p.G70G	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	483					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		TCGTGCACGGGCACCTGTGGG	0.602													4	18	---	---	---	---	PASS	T	22853811	T	T	22853811	2	4	140	1	0	0	0	0	0	0	0	1	16766	1190	42	3		3	TUBGCP5	15	22853811	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08		22853811	79677581	208	50008										
GABRG3	2567	broad.mit.edu	37	chr15	27222171	27222171	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccagaaaggtggaagaggatGaatatgaagattcatcatca	11	5	3	5			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:27222171G>A	uc001zbg.1	+	2	242	c.76G>A	c.(76-78)GAA>AAA	p.E26K	GABRG3_uc001zbf.2_Missense_Mutation_p.E26K	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	26	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		GGAAGAGGATGAATATGAAGA	0.428													8	52	---	---	---	---	PASS	A	27222171	A	A	27222171	3	1	140	1	0	0	0	0	1	0	0	0	6173	1291	45	2	82	2	GABRG3	15	27222171	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	4368360	27222171	75309221	209	50009										
RYR3	6263	broad.mit.edu	37	chr15	34032134	34032134	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	accagaatcacagccacgttGgagaaacagatctcagtgga	10	10	2	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:34032134G>T	uc001zhi.2	+	51	7828	c.7758G>T	c.(7756-7758)TTG>TTT	p.L2586F	RYR3_uc010bar.2_Missense_Mutation_p.L2586F	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2586	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CAGCCACGTTGGAGAAACAGA	0.463													10	49	---	---	---	---	PASS	T	34032134	T	T	34032134	3	4	140	1	0	0	0	0	1	0	0	0	13770	1339	47	3	7960	3	RYR3	15	34032134	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	6809963	34032134	68499258	210	50010										
TYRO3	7301	broad.mit.edu	37	chr15	41856430	41856430	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgaagctcacaacctaaaagGcctggcctcttctcgcacag	8	14	3	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:41856430G>A	uc001zof.1	+	5	853	c.629G>A	c.(628-630)GGC>GAC	p.G210D		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	210	Ig-like C2-type 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		AACCTAAAAGGCCTGGCCTCT	0.597													12	62	---	---	---	---	PASS	A	41856430	A	A	41856430	3	1	140	1	0	0	0	0	1	0	0	0	16811	1203	42	3	647	3	TYRO3	15	41856430	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	7824296	41856430	60674962	211	50011										
ZFP106	64397	broad.mit.edu	37	chr15	42742724	42742724	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cttgcttttgcatagttcctGgtacttttagaagtgctaag	9	7	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:42742724G>T	uc001zpw.2	-	2	2012	c.1677C>A	c.(1675-1677)ACC>ACA	p.T559T	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Silent_p.T342T|ZFP106_uc001zpy.1_Silent_p.T582T	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	559						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		CATAGTTCCTGGTACTTTTAG	0.368													6	80	---	---	---	---	PASS	T	42742724	T	T	42742724	2	4	140	1	0	0	0	0	0	0	0	1	17634	1335	47	3		3	ZFP106	15	42742724	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	886294	42742724	59788668	212	50012										
WDR76	79968	broad.mit.edu	37	chr15	44143306	44143306	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cccagcaacctaaagaagatGgagtttatgtttttcatccc	7	10	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:44143306G>T	uc001zti.1	+	9	1077	c.1054G>T	c.(1054-1056)GGA>TGA	p.G352*		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	352	WD 1.										0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)		TAAAGAAGATGGAGTTTATGT	0.433													6	87	---	---	---	---	PASS	T	44143306	T	T	44143306	4	4	140	1	0	0	0	0	0	1	0	0	17323	1349	47	3	1088	3	WDR76	15	44143306	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1400582	44143306	58388086	213	50013										
CTDSPL2	51496	broad.mit.edu	37	chr15	44816320	44816320	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cacgcagaatgaagatgttcGaccacacatcagagacagat	9	10	1	5			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:44816320G>T	uc001ztr.2	+	13	1765	c.1349G>T	c.(1348-1350)CGA>CTA	p.R450L	CTDSPL2_uc001zts.2_Missense_Mutation_p.R450L|CTDSPL2_uc001ztt.2_Missense_Mutation_p.R450L|CTDSPL2_uc010bdv.2_Missense_Mutation_p.R378L	NM_016396	NP_057480	Q05D32	CTSL2_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	450							phosphoprotein phosphatase activity				0		all_cancers(109;4.36e-14)|all_epithelial(112;9.8e-12)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.0122)		all cancers(107;1.02e-20)|GBM - Glioblastoma multiforme(94;1.49e-06)|COAD - Colon adenocarcinoma(120;0.0857)|Colorectal(105;0.0905)		GAAGATGTTCGACCACACATC	0.388													4	50	---	---	---	---	PASS	T	44816320	T	T	44816320	3	4	140	1	0	0	0	0	1	0	0	0	4006	1058	37	2	1395	2	CTDSPL2	15	44816320	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	673014	44816320	57715072	214	50014										
DUOX2	50506	broad.mit.edu	37	chr15	45402882	45402882	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agtgttttctgcaggaagctGggcagccactcatacacagc	11	11	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:45402882G>A	uc010bea.2	-	8	1112	c.909C>T	c.(907-909)CCC>CCT	p.P303P	DUOX2_uc001zun.2_Silent_p.P303P	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	303	Extracellular (Potential).|Peroxidase-like; mediates peroxidase activity (By similarity).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		GCAGGAAGCTGGGCAGCCACT	0.612													6	21	---	---	---	---	PASS	A	45402882	A	A	45402882	2	1	140	1	0	0	0	0	0	0	0	1	4801	1335	47	3		3	DUOX2	15	45402882	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	586562	45402882	57128510	215	50015										
UNC13C	440279	broad.mit.edu	37	chr15	54306924	54306924	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aaggaccagcatttgaatggAggtgttcagggtatccaagg	14	6	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:54306924A>C	uc002ack.2	+	1	1824	c.1824A>C	c.(1822-1824)GGA>GGC	p.G608G		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	608					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ATTTGAATGGAGGTGTTCAGG	0.512													15	63	---	---	---	---	PASS	C	54306924	C	C	54306924	2	2	140	1	0	0	0	0	0	0	0	1	16983	291	11	5		5	UNC13C	15	54306924	Silent	SNP	A	TCGA-66-2734-01A-01D-0983-08	8904042	54306924	48224468	216	50016										
TLN2	83660	broad.mit.edu	37	chr15	63014652	63014652	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtgtgccaagaacctggccaCcagcttggcggagctgcgta	14	12	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:63014652C>T	uc002alb.3	+	23	3092	c.3092C>T	c.(3091-3093)ACC>ATC	p.T1031I		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1031	Ala-rich.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						AACCTGGCCACCAGCTTGGCG	0.627													7	25	---	---	---	---	PASS	T	63014652	T	T	63014652	3	4	140	1	0	0	0	0	1	0	0	0	15945	507	18	3	3182	3	TLN2	15	63014652	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	8707728	63014652	39516740	217	50017										
TLN2	83660	broad.mit.edu	37	chr15	63045984	63045984	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctttctaggctgcatacttgGttggcatctctgatccaaac	8	11	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:63045984G>T	uc002alb.3	+	33	4345	c.4345G>T	c.(4345-4347)GTT>TTT	p.V1449F	TLN2_uc002alc.3_5'UTR	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1449					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						TGCATACTTGGTTGGCATCTC	0.577													6	52	---	---	---	---	PASS	T	63045984	T	T	63045984	3	4	140	1	0	0	0	0	1	0	0	0	15945	1261	44	3	4475	3	TLN2	15	63045984	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	31332	63045984	39485408	218	50018										
PML	5371	broad.mit.edu	37	chr15	74326832	74326832	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtttcagaggaacgcgttgtGgtgatcagcagctcggaaga	15	7	2	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:74326832G>T	uc002awv.2	+	7	1811	c.1671G>T	c.(1669-1671)GTG>GTT	p.V557V	PML_uc002awm.2_Silent_p.V557V|PML_uc002awl.2_Missense_Mutation_p.W423L|PML_uc002awj.1_3'UTR|PML_uc002awk.2_Silent_p.V557V|PML_uc002awn.2_Missense_Mutation_p.W560L|PML_uc002awo.2_Silent_p.V509V|PML_uc002awp.2_Intron|PML_uc002awq.2_Missense_Mutation_p.W560L|PML_uc002awr.2_Silent_p.V557V|PML_uc002aws.2_Silent_p.V509V|PML_uc002awt.2_Missense_Mutation_p.W423L|PML_uc002awu.2_Silent_p.V509V|PML_uc010ule.1_Silent_p.V118V|PML_uc002awx.2_Missense_Mutation_p.W270L|PML_uc002awy.2_5'UTR	NM_033238	NP_150241	P29590	PML_HUMAN	promyelocytic leukemia protein isoform 1	557	Interaction with SUMO1 and sumoylated proteins.			VVVI->AAAS: Abolishes SUMO1 binding.	cell cycle arrest|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 resulting in induction of apoptosis|endoplasmic reticulum calcium ion homeostasis|induction of apoptosis|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|maintenance of protein location in nucleus|negative regulation of angiogenesis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of mitotic cell cycle|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of telomerase activity|negative regulation of telomere maintenance via telomerase|negative regulation of transcription, DNA-dependent|negative regulation of translation in response to oxidative stress|PML body organization|PML body organization|positive regulation of defense response to virus by host|positive regulation of histone deacetylation|protein complex assembly|protein stabilization|protein targeting|regulation of calcium ion transport into cytosol|regulation of protein phosphorylation|response to hypoxia|response to virus|transcription, DNA-dependent	cytoplasm|cytosol|early endosome membrane|extrinsic to endoplasmic reticulum membrane|insoluble fraction|nuclear matrix|nuclear membrane|nucleolus|nucleus|PML body	cobalt ion binding|DNA binding|protein binding|protein binding|protein heterodimerization activity|protein homodimerization activity|SUMO binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding|zinc ion binding			central_nervous_system(2)|kidney(2)|breast(1)	5						AACGCGTTGTGGTGATCAGCA	0.582			T	RARA|PAX5	APL|ALL								8	145	---	---	---	---	PASS	T	74326832	T	T	74326832	2	4	140	1	0	0	0	0	0	0	0	1	12135	1357	47	3		3	PML	15	74326832	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	11280848	74326832	28204560	219	50019										
TMED3	23423	broad.mit.edu	37	chr15	79606180	79606180	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tctacagagaaacgaagaagCagtacgacagcttcacgtac	9	10	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:79606180C>T	uc002beu.2	+	2	351	c.250C>T	c.(250-252)CAG>TAG	p.Q84*	TMED3_uc010unj.1_Nonsense_Mutation_p.Q84*|TMED3_uc002bev.2_RNA	NM_007364	NP_031390	Q9Y3Q3	TMED3_HUMAN	transmembrane emp24 domain containing 3	84	Lumenal (Potential).|GOLD.				protein transport	ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane				ovary(1)|skin(1)	2						AACGAAGAAGCAGTACGACAG	0.473													20	74	---	---	---	---	PASS	T	79606180	T	T	79606180	4	4	140	1	0	0	0	0	0	1	0	0	16002	711	25	3	256	3	TMED3	15	79606180	Nonsense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	5279348	79606180	22925212	220	50020										
ARNT2	9915	broad.mit.edu	37	chr15	80872871	80872871	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ggtggcatggacagggagtcGtccgccctttccgggacagg	17	11	0	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:80872871G>T	uc002bfr.2	+	16	1899	c.1733G>T	c.(1732-1734)CGT>CTT	p.R578L	ARNT2_uc010unm.1_Missense_Mutation_p.R567L|ARNT2_uc002bfs.2_Missense_Mutation_p.R567L	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	578					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			ACAGGGAGTCGTCCGCCCTTT	0.562													7	38	---	---	---	---	PASS	T	80872871	T	T	80872871	3	4	140	1	0	0	0	0	1	0	0	0	966	1145	40	1	1795	1	ARNT2	15	80872871	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1266691	80872871	21658521	221	50021										
ISG20	3669	broad.mit.edu	37	chr15	89182735	89182735	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gacaagttcatccggcctgaGggagagatcaccgattacag	12	10	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:89182735G>C	uc002bmv.1	+	2	431	c.138G>C	c.(136-138)GAG>GAC	p.E46D	ISG20_uc002bmu.1_Intron|ISG20_uc002bmw.1_RNA|ISG20_uc010upn.1_RNA	NM_002201	NP_002192	Q96AZ6	ISG20_HUMAN	interferon stimulated exonuclease	46					cell proliferation|DNA catabolic process, exonucleolytic|response to virus|RNA catabolic process|type I interferon-mediated signaling pathway	PML body	3'-5'-exoribonuclease activity|exoribonuclease II activity|metal ion binding|RNA binding|single-stranded DNA specific 3'-5' exodeoxyribonuclease activity				0	Lung NSC(78;0.0554)|all_lung(78;0.103)		BRCA - Breast invasive adenocarcinoma(143;0.12)			TCCGGCCTGAGGGAGAGATCA	0.637													7	46	---	---	---	---	PASS	C	89182735	C	C	89182735	3	2	140	1	0	0	0	0	1	0	0	0	7854	991	35	4	140	4	ISG20	15	89182735	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	8309864	89182735	13348657	222	50022										
LRRK1	79705	broad.mit.edu	37	chr15	101528851	101528851	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cctgccaggtccctgcagtcCccagcggcttctgaactgga	11	16	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr15:101528851C>A	uc002bwr.2	+	5	765	c.446C>A	c.(445-447)CCC>CAC	p.P149H	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bwq.1_Missense_Mutation_p.P149H	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	149					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CCCTGCAGTCCCCAGCGGCTT	0.607													7	130	---	---	---	---	PASS	A	101528851	A	A	101528851	3	1	140	1	0	0	0	0	1	0	0	0	9032	623	22	3	460	3	LRRK1	15	101528851	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	12346116	101528851	1002541	223	50023										
PKD1	5310	broad.mit.edu	37	chr16	2160565	2160565	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	attgagccaggcctcgctgcGgctcacctcattccagccgg	11	16	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr16:2160565G>A	uc002cos.1	-	15	4812	c.4603C>T	c.(4603-4605)CGC>TGC	p.R1535C	PKD1_uc002cot.1_Missense_Mutation_p.R1535C	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1535	Extracellular (Potential).|PKD 10.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GCCTCGCTGCGGCTCACCTCA	0.657													12	18	---	---	---	---	PASS	A	2160565	A	A	2160565	3	1	140	1	0	0	0	0	1	0	0	0	11963	1116	39	1	8436	1	PKD1	16	2160565	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08		2160565	88194188	224	50024										
TMC5	79838	broad.mit.edu	37	chr16	19481080	19481080	+	Missense_Mutation	SNP	G	C	C													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	caccaagctgatcttttgctGggacttcactgtcactcatg							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr16:19481080G>C	uc002dgc.3	+	10	2464	c.1715G>C	c.(1714-1716)TGG>TCG	p.W572S	TMC5_uc010vaq.1_Missense_Mutation_p.W572S|TMC5_uc002dgb.3_Missense_Mutation_p.W572S|TMC5_uc010var.1_Missense_Mutation_p.W572S|TMC5_uc002dgd.1_Missense_Mutation_p.W326S|TMC5_uc002dge.3_Missense_Mutation_p.W326S|TMC5_uc002dgf.3_Missense_Mutation_p.W255S|TMC5_uc002dgg.3_Missense_Mutation_p.W213S	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	572	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						ATCTTTTGCTGGGACTTCACT	0.448													11	67	---	---	---	---	PASS	C	19481080	C	C	19481080	3	2	140	1	0	0	0	0	1	0	0	0	15985	1357	47	4	2059	4	TMC5	16	19481080	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	17320515	19481080	70873673	225	50025	914	2								
TMC5	79838	broad.mit.edu	37	chr16	19481081	19481081	+	Missense_Mutation	SNP	G	T	T													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	accaagctgatcttttgctgGgacttcactgtcactcatga							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr16:19481081G>T	uc002dgc.3	+	10	2465	c.1716G>T	c.(1714-1716)TGG>TGT	p.W572C	TMC5_uc010vaq.1_Missense_Mutation_p.W572C|TMC5_uc002dgb.3_Missense_Mutation_p.W572C|TMC5_uc010var.1_Missense_Mutation_p.W572C|TMC5_uc002dgd.1_Missense_Mutation_p.W326C|TMC5_uc002dge.3_Missense_Mutation_p.W326C|TMC5_uc002dgf.3_Missense_Mutation_p.W255C|TMC5_uc002dgg.3_Missense_Mutation_p.W213C	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	572	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						TCTTTTGCTGGGACTTCACTG	0.448													13	67	---	---	---	---	PASS	T	19481081	T	T	19481081	3	4	140	1	0	0	0	0	1	0	0	0	15985	1241	43	3	2060	3	TMC5	16	19481081	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1	19481081	70873672	226	50026	914	2								
ATXN2L	11273	broad.mit.edu	37	chr16	28841356	28841356	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cagcggcagggctcagggcgGgagagccccagcttggcatc	17	13	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr16:28841356G>C	uc002drc.2	+	8	1179	c.1011G>C	c.(1009-1011)CGG>CGC	p.R337R	uc010vct.1_Intron|ATXN2L_uc010byl.1_Silent_p.R337R|ATXN2L_uc002drb.2_Silent_p.R337R|ATXN2L_uc002dqy.2_Silent_p.R337R|ATXN2L_uc002dra.2_Silent_p.R337R|ATXN2L_uc002dqz.2_Silent_p.R337R|ATXN2L_uc010vdb.1_Silent_p.R337R|ATXN2L_uc002dre.2_Silent_p.R337R|ATXN2L_uc002drf.2_5'UTR	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	337				R -> RG (in Ref. 6; AAB19201).		membrane				upper_aerodigestive_tract(1)|ovary(1)	2						GCTCAGGGCGGGAGAGCCCCA	0.612													4	16	---	---	---	---	PASS	C	28841356	C	C	28841356	2	2	140	1	0	0	0	0	0	0	0	1	1212	1219	43	4		4	ATXN2L	16	28841356	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	9360275	28841356	61513397	227	50027										
STX1B	112755	broad.mit.edu	37	chr16	31012876	31012876	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aaagaactcatccatgaagtGgtcccgatccacgtggacca	9	12	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr16:31012876G>T	uc010cad.2	-	2	191	c.79C>A	c.(79-81)CAC>AAC	p.H27N	STX1B_uc010vfd.1_Missense_Mutation_p.H27N	NM_052874	NP_443106	P61266	STX1B_HUMAN	syntaxin 1B	27	Cytoplasmic (Potential).				intracellular protein transport|neurotransmitter transport|synaptic transmission	integral to plasma membrane	extracellular-glutamate-gated ion channel activity|SNAP receptor activity				0						TCCATGAAGTGGTCCCGATCC	0.408													6	36	---	---	---	---	PASS	T	31012876	T	T	31012876	3	4	140	1	0	0	0	0	1	0	0	0	15343	1348	47	3	823	3	STX1B	16	31012876	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	2171520	31012876	59341877	228	50028										
ATP2A3	489	broad.mit.edu	37	chr17	3850763	3850763	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gaggtgcagcccagggtctcCacggacggcaggcttcgcac	15	14	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:3850763C>A	uc002fxb.1	-	8	1168	c.1017G>T	c.(1015-1017)GTG>GTT	p.V339V	ATP2A3_uc002fwx.1_Silent_p.V339V|ATP2A3_uc002fwy.1_Silent_p.V339V|ATP2A3_uc002fwz.1_Silent_p.V339V|ATP2A3_uc002fxa.1_Silent_p.V339V|ATP2A3_uc002fxc.1_Silent_p.V339V|ATP2A3_uc002fxd.1_Silent_p.V339V	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	339	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		CCAGGGTCTCCACGGACGGCA	0.652													5	59	---	---	---	---	PASS	A	3850763	A	A	3850763	2	1	140	1	0	0	0	0	0	0	0	1	1138	581	21	3		3	ATP2A3	17	3850763	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08		3850763	77344447	229	50029										
PLD2	5338	broad.mit.edu	37	chr17	4712418	4712418	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgccgttgcctattctccagCccgagatgcaggcaacagag	11	13	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:4712418C>T	uc002fzc.2	+	5	508	c.407C>T	c.(406-408)GCC>GTC	p.A136V	PLD2_uc010vsj.1_5'UTR|PLD2_uc002fzd.2_Missense_Mutation_p.A136V	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	136	PX.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	TATTCTCCAGCCCGAGATGCA	0.582													29	76	---	---	---	---	PASS	T	4712418	T	T	4712418	3	4	140	1	0	0	0	0	1	0	0	0	12046	739	26	3	421	3	PLD2	17	4712418	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	861655	4712418	76482792	230	50030										
TP53	7157	broad.mit.edu	37	chr17	7577534	7577534	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtgatgatggtgaggatgggCctccggttcatgccgcccat	15	10	1	3	rs28934571		TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:7577534C>A	uc002gim.2	-	7	941	c.747G>T	c.(745-747)AGG>AGT	p.R249S	TP53_uc002gig.1_Missense_Mutation_p.R249S|TP53_uc002gih.2_Missense_Mutation_p.R249S|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R117S|TP53_uc010cng.1_Missense_Mutation_p.R117S|TP53_uc002gii.1_Missense_Mutation_p.R117S|TP53_uc010cnh.1_Missense_Mutation_p.R249S|TP53_uc010cni.1_Missense_Mutation_p.R249S|TP53_uc002gij.2_Missense_Mutation_p.R249S|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R156S|TP53_uc002gio.2_Missense_Mutation_p.R117S	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	249	|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> W (in sporadic cancers; somatic mutation).|RP -> SA (in a sporadic cancer; somatic mutation).|RP -> SS (in sporadic cancers; somatic mutation).|R -> T (in sporadic cancers; somatic mutation).|R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> I (in a sporadic cancer; somatic mutation).|R -> M (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R249S(303)|p.R249M(25)|p.R249G(24)|p.R249W(23)|p.R249T(16)|p.R249K(14)|p.0?(7)|p.R249R(6)|p.R249fs*96(6)|p.M246_P250delMNRRP(2)|p.R249fs*14(2)|p.N247_P250delNRRP(1)|p.R249fs*19(1)|p.R249fs*15(1)|p.R249_I251delRPI(1)|p.R249_P250delRP(1)|p.R249_P250insR(1)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.R249_T256delRPILTIIT(1)|p.R249_P250>SS(1)|p.P250fs*14(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)		TGAGGATGGGCCTCCGGTTCA	0.572		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)			15	30	---	---	---	---	PASS	A	7577534	A	A	7577534	3	1	140	1	0	0	0	0	1	0	0	0	16378	738	26	3	543	3	TP53	17	7577534	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	2865116	7577534	73617676	231	50031										
CHD3	1107	broad.mit.edu	37	chr17	7806032	7806032	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gccctgaggcaggaggccatCgatcggtttaatggtgaggg	17	8	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:7806032C>A	uc002gje.2	+	21	3507	c.3357C>A	c.(3355-3357)ATC>ATA	p.I1119I	CHD3_uc002gjd.2_Silent_p.I1178I|CHD3_uc002gjf.2_Silent_p.I1119I|CHD3_uc002gjh.2_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1119	Helicase C-terminal.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				AGGAGGCCATCGATCGGTTTA	0.547													4	53	---	---	---	---	PASS	A	7806032	A	A	7806032	2	1	140	1	0	0	0	0	0	0	0	1	3326	874	31	2		2	CHD3	17	7806032	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	228498	7806032	73389178	232	50032										
MYH8	4626	broad.mit.edu	37	chr17	10298626	10298626	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gctctgcattgtctccacgaCtctagtgtggtttctcttca	8	12	5	0	rs61730807	byFrequency	TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:10298626C>G	uc002gmm.2	-	34	4881	c.4786G>C	c.(4786-4788)GTC>CTC	p.V1596L	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1596	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GTCTCCACGACTCTAGTGTGG	0.428									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				11	43	---	---	---	---	PASS	G	10298626	G	G	10298626	3	3	140	1	0	0	0	0	1	0	0	0	10041	565	20	4	1055	4	MYH8	17	10298626	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	2492594	10298626	70896584	233	50033										
DNAH9	1770	broad.mit.edu	37	chr17	11514974	11514974	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	catgatattgcaggtatgaaGatctgaaatacatctataat	7	5	2	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:11514974G>T	uc002gne.2	+	4	849	c.781G>T	c.(781-783)GAT>TAT	p.D261Y	DNAH9_uc002gnd.1_Missense_Mutation_p.D261Y	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	261	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CAGGTATGAAGATCTGAAATA	0.458													12	45	---	---	---	---	PASS	T	11514974	T	T	11514974	3	4	140	1	0	0	0	0	1	0	0	0	4608	942	33	2	795	2	DNAH9	17	11514974	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1216348	11514974	69680236	234	50034										
FLII	2314	broad.mit.edu	37	chr17	18149711	18149711	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ttcctcttgccccggtggatGatgaacttcctcttgaaatg	9	11	2	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:18149711G>A	uc002gsr.1	-	24	3168	c.3117C>T	c.(3115-3117)ATC>ATT	p.I1039I	FLII_uc002gsq.1_Silent_p.I910I|FLII_uc010cpy.1_Silent_p.I1028I|FLII_uc010vxn.1_Silent_p.I1008I|FLII_uc010vxo.1_Silent_p.I984I	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	1039					multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					CCCGGTGGATGATGAACTTCC	0.632													15	106	---	---	---	---	PASS	A	18149711	A	A	18149711	2	1	140	1	0	0	0	0	0	0	0	1	5925	1280	45	2		2	FLII	17	18149711	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	6634737	18149711	63045499	235	50035										
FBXW10	10517	broad.mit.edu	37	chr17	18682490	18682490	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cagggagtccactggagtggTtgatccaggaaaagtcagca	14	8	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:18682490T>C	uc002guk.2	+	14	3270	c.3038T>C	c.(3037-3039)GTT>GCT	p.V1013A	FBXW10_uc002guj.2_Missense_Mutation_p.V1012A|FBXW10_uc002gul.2_Missense_Mutation_p.V1022A|FBXW10_uc010cqh.1_Missense_Mutation_p.V960A|FAM18B_uc002gum.2_5'Flank	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	1013										ovary(1)	1						ACTGGAGTGGTTGATCCAGGA	0.502													9	40	---	---	---	---	PASS	C	18682490	C	C	18682490	3	2	140	1	0	0	0	0	1	0	0	0	5763	1725	60	5	3089	5	FBXW10	17	18682490	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	532779	18682490	62512720	236	50036										
RAB34	83871	broad.mit.edu	37	chr17	27042864	27042864	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cacctcaaatcgttccatctCgaagtccactccaatggtgg	7	14	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:27042864C>A	uc002hce.2	-	4	892	c.268G>T	c.(268-270)GAG>TAG	p.E90*	RAB34_uc002hcg.2_Nonsense_Mutation_p.E90*|RAB34_uc002hcf.2_Nonsense_Mutation_p.E91*|RAB34_uc010was.1_Nonsense_Mutation_p.E147*|RAB34_uc010wat.1_Nonsense_Mutation_p.E147*|RAB34_uc002hch.2_Nonsense_Mutation_p.E90*|RAB34_uc010wau.1_Nonsense_Mutation_p.E68*|RAB34_uc010wav.1_Nonsense_Mutation_p.E148*	NM_031934	NP_114140	Q9BZG1	RAB34_HUMAN	Ras-related protein RAB34 isoform 1	90					protein transport|small GTPase mediated signal transduction	Golgi apparatus	GTP binding				0	Lung NSC(42;0.00431)					CGTTCCATCTCGAAGTCCACT	0.547													5	115	---	---	---	---	PASS	A	27042864	A	A	27042864	4	1	140	1	0	0	0	0	0	1	0	0	12924	893	31	2	603	2	RAB34	17	27042864	Nonsense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	8360374	27042864	54152346	237	50037										
SLFN5	162394	broad.mit.edu	37	chr17	33592328	33592328	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgcagtggcctcccccctccCtcagaccagtatccaagaga	8	17	1	2	rs149671075	by1000genomes	TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:33592328C>T	uc002hjf.3	+	5	2214	c.2097C>T	c.(2095-2097)CCC>CCT	p.P699P	SLFN5_uc010wcg.1_3'UTR	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	699					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		TCCCCCCTCCCTCAGACCAGT	0.493													16	63	---	---	---	---	PASS	T	33592328	T	T	33592328	2	4	140	1	0	0	0	0	0	0	0	1	14737	668	24	3		3	SLFN5	17	33592328	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	6549464	33592328	47602882	238	50038										
TUBG2	27175	broad.mit.edu	37	chr17	40812318	40812318	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aggagctggcaacaactgggCcagcggattctcccaggtgt	14	11	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:40812318C>A	uc010wgr.1	+	3	570	c.314C>A	c.(313-315)GCC>GAC	p.A105D	TUBG2_uc002iaq.2_5'UTR|TUBG2_uc002iar.2_5'UTR|TUBG2_uc002ias.2_5'UTR|TUBG2_uc002iap.2_5'UTR	NM_016437	NP_057521	Q9NRH3	TBG2_HUMAN	tubulin, gamma 2	105					G2/M transition of mitotic cell cycle|microtubule-based process|protein polymerization	cytosol	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.141)		AACAACTGGGCCAGCGGATTC	0.542													4	44	---	---	---	---	PASS	A	40812318	A	A	40812318	3	1	140	1	0	0	0	0	1	0	0	0	16762	739	26	3	324	3	TUBG2	17	40812318	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	7219990	40812318	40382892	239	50039										
C17orf57	124989	broad.mit.edu	37	chr17	45507265	45507265	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cctcaagacattattgatggAcaaggaccttcatacagcta	7	10	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:45507265A>G	uc002iln.2	+	24	2987	c.2576A>G	c.(2575-2577)GAC>GGC	p.D859G	C17orf57_uc002ilm.2_Missense_Mutation_p.D763G	NM_152347	NP_689560	Q8IY85	CQ057_HUMAN	hypothetical protein LOC124989	859							calcium ion binding			breast(1)|central_nervous_system(1)|skin(1)	3						TTATTGATGGACAAGGACCTT	0.383													3	45	---	---	---	---	PASS	G	45507265	G	G	45507265	3	3	140	1	0	0	0	0	1	0	0	0	1865	275	10	5	2658	5	C17orf57	17	45507265	Missense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	4694947	45507265	35687945	240	50040										
HOXB3	3213	broad.mit.edu	37	chr17	46629716	46629716	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtagtcgccctccaggtgcgTggcggcctgaaatgggggtt	17	10	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:46629716T>C	uc002inn.2	-	1	521	c.121A>G	c.(121-123)ACG>GCG	p.T41A	HOXB3_uc010wlm.1_5'UTR|HOXB3_uc010dbf.2_Missense_Mutation_p.T41A|HOXB3_uc010dbg.2_Missense_Mutation_p.T41A|HOXB3_uc002ino.2_Missense_Mutation_p.T41A|HOXB3_uc010wlk.1_Intron|HOXB3_uc010wll.1_5'UTR	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	41					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TCCAGGTGCGTGGCGGCCTGA	0.647													3	25	---	---	---	---	PASS	C	46629716	C	C	46629716	3	2	140	1	0	0	0	0	1	0	0	0	7302	1696	59	5	1182	5	HOXB3	17	46629716	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	1122451	46629716	34565494	241	50041										
CA10	56934	broad.mit.edu	37	chr17	50008357	50008357	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tatggtggcttaccttcctgCcccccgtgttgatgcgaaga	11	12	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:50008357C>A	uc002itw.3	-	3	1258	c.272G>T	c.(271-273)GGC>GTC	p.G91V	CA10_uc002itv.3_Missense_Mutation_p.G97V|CA10_uc002itx.3_Missense_Mutation_p.G91V|CA10_uc002ity.3_Missense_Mutation_p.G91V|CA10_uc002itz.2_Missense_Mutation_p.G91V	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	91					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			TACCTTCCTGCCCCCCGTGTT	0.493													20	117	---	---	---	---	PASS	A	50008357	A	A	50008357	3	1	140	1	0	0	0	0	1	0	0	0	2511	739	26	3	742	3	CA10	17	50008357	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	3378641	50008357	31186853	242	50042										
MED13	9969	broad.mit.edu	37	chr17	60042580	60042580	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atactccactattcaagttgGaggatgatgaagatgaagtt	10	5	1	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:60042580G>T	uc002izo.2	-	20	4708	c.4631C>A	c.(4630-4632)TCC>TAC	p.S1544Y		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	1544	Ser-rich.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						ATTCAAGTTGGAGGATGATGA	0.418													6	72	---	---	---	---	PASS	T	60042580	T	T	60042580	3	4	140	1	0	0	0	0	1	0	0	0	9430	1174	41	2	1937	2	MED13	17	60042580	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	10034223	60042580	21152630	243	50043										
SCN4A	6329	broad.mit.edu	37	chr17	62036742	62036742	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccctgctggaaatactcgtaGgggtccatggcaatcagctt	11	11	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:62036742G>A	uc002jds.1	-	12	1979	c.1902C>T	c.(1900-1902)CCC>CCT	p.P634P		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	634	II.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	AATACTCGTAGGGGTCCATGG	0.572													8	38	---	---	---	---	PASS	A	62036742	A	A	62036742	2	1	140	1	0	0	0	0	0	0	0	1	13920	987	35	3		3	SCN4A	17	62036742	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	1994162	62036742	19158468	244	50044										
ST6GALNAC1	55808	broad.mit.edu	37	chr17	74622817	74622817	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aaggcggtaaagccgtagaaGgatgtccgagtccccacatc	12	11	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr17:74622817G>T	uc002jsh.2	-	5	1401	c.1227C>A	c.(1225-1227)TCC>TCA	p.S409S	ST6GALNAC1_uc002jsi.2_Silent_p.S277S|ST6GALNAC1_uc002jsj.2_RNA	NM_018414	NP_060884	Q9NSC7	SIA7A_HUMAN	sialyltransferase 7A	409	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity				0						AGCCGTAGAAGGATGTCCGAG	0.532													11	323	---	---	---	---	PASS	T	74622817	T	T	74622817	2	4	140	1	0	0	0	0	0	0	0	1	15222	987	35	3		3	ST6GALNAC1	17	74622817	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	12586075	74622817	6572393	245	50045										
EMILIN2	84034	broad.mit.edu	37	chr18	2892094	2892094	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aaaggacagtggacaccctgCcgtccccccagcaccccgtg	10	18	0	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr18:2892094C>A	uc002kln.2	+	4	2128	c.1969C>A	c.(1969-1971)CCG>ACG	p.P657T		NM_032048	NP_114437	Q9BXX0	EMIL2_HUMAN	elastin microfibril interfacer 2 precursor	657					cell adhesion	collagen	extracellular matrix constituent conferring elasticity|protein binding			skin(2)|ovary(1)	3				READ - Rectum adenocarcinoma(2;0.1)		GGACACCCTGCCGTCCCCCCA	0.552													6	46	---	---	---	---	PASS	A	2892094	A	A	2892094	3	1	140	1	0	0	0	0	1	0	0	0	5094	739	26	3	1983	3	EMILIN2	18	2892094	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08		2892094	75185154	246	50046										
CEP192	55125	broad.mit.edu	37	chr18	13073110	13073110	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctgtattatttgcacctactCgattatcttgcatgttggct	7	9	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr18:13073110C>A	uc010xac.1	+	30	5622	c.5542C>A	c.(5542-5544)CGA>AGA	p.R1848R	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Silent_p.R1373R|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Silent_p.R270R|CEP192_uc002krw.2_5'UTR|CEP192_uc002krx.2_5'UTR	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1848										ovary(4)|pancreas(1)	5						TGCACCTACTCGATTATCTTG	0.383													6	87	---	---	---	---	PASS	A	13073110	A	A	13073110	2	1	140	1	0	0	0	0	0	0	0	1	3251	876	31	2		2	CEP192	18	13073110	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	10181016	13073110	65004138	247	50047										
DSG3	1830	broad.mit.edu	37	chr18	29045295	29045295	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aaacagatatgtcatgggacGtaacgatggtggatacctaa	11	6	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr18:29045295G>A	uc002kws.2	+	10	1395	c.1286G>A	c.(1285-1287)CGT>CAT	p.R429H		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	429	Cadherin 4.|Extracellular (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GTCATGGGACGTAACGATGGT	0.269													9	48	---	---	---	---	PASS	A	29045295	A	A	29045295	3	1	140	1	0	0	0	0	1	0	0	0	4778	1145	40	1	1324	1	DSG3	18	29045295	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	15972185	29045295	49031953	248	50048										
CNDP1	84735	broad.mit.edu	37	chr18	72245452	72245452	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctctttctattcatgggatcGagggcgcgtttgatgagcct	12	9	3	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr18:72245452G>T	uc002llq.2	+	9	1268	c.1057G>T	c.(1057-1059)GAG>TAG	p.E353*	CNDP1_uc002lls.2_Nonsense_Mutation_p.E156*	NM_032649	NP_116038	Q96KN2	CNDP1_HUMAN	carnosinase 1 precursor	353					proteolysis	extracellular region	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity|tripeptidase activity				0		Esophageal squamous(42;0.129)|Prostate(75;0.157)|Melanoma(33;0.211)		BRCA - Breast invasive adenocarcinoma(31;0.109)		TCATGGGATCGAGGGCGCGTT	0.423													4	58	---	---	---	---	PASS	T	72245452	T	T	72245452	4	4	140	1	0	0	0	0	0	1	0	0	3593	1059	37	2	1091	2	CNDP1	18	72245452	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	43200157	72245452	5831796	249	50049										
AP3D1	8943	broad.mit.edu	37	chr19	2121290	2121290	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atcagcttcttcacgatctcCatcaggttcttcttggacac	6	13	7	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:2121290C>A	uc002luz.2	-	13	1345	c.1122G>T	c.(1120-1122)ATG>ATT	p.M374I	AP3D1_uc002luy.2_Missense_Mutation_p.M283I|AP3D1_uc002lva.2_Missense_Mutation_p.M374I	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	374					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCACGATCTCCATCAGGTTCT	0.562													6	83	---	---	---	---	PASS	A	2121290	A	A	2121290	3	1	140	1	0	0	0	0	1	0	0	0	746	594	21	3	2569	3	AP3D1	19	2121290	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08		2121290	57007693	250	50050										
PLIN4	729359	broad.mit.edu	37	chr19	4511796	4511796	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ggtgtccttggtaccagttaGgacagtcttggtggtgtcca	14	8	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:4511796G>T	uc002mar.1	-	3	2134	c.2134C>A	c.(2134-2136)CTA>ATA	p.L712I	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	712	19.|27 X 33 AA approximate tandem repeat.					lipid particle|plasma membrane					0						GTACCAGTTAGGACAGTCTTG	0.592													10	344	---	---	---	---	PASS	T	4511796	T	T	4511796	3	4	140	1	0	0	0	0	1	0	0	0	12092	991	35	3	1955	3	PLIN4	19	4511796	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	2390506	4511796	54617187	251	50051										
ARRDC5	645432	broad.mit.edu	37	chr19	4891523	4891523	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tccatctggatttgcaaacaGacagtgccctggcggcagca	11	12	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:4891523G>T	uc002mbm.2	-	3	564	c.564C>A	c.(562-564)GTC>GTA	p.V188V		NM_001080523	NP_001073992	A6NEK1	ARRD5_HUMAN	arrestin domain containing 5	188					signal transduction						0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0257)		TTTGCAAACAGACAGTGCCCT	0.537													6	32	---	---	---	---	PASS	T	4891523	T	T	4891523	2	4	140	1	0	0	0	0	0	0	0	1	986	929	33	2		2	ARRDC5	19	4891523	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	379727	4891523	54237460	252	50052										
MUC16	94025	broad.mit.edu	37	chr19	9048368	9048368	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ataccccaggtgaaacagttGgagttggaacagctgagctg	13	8	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:9048368G>T	uc002mkp.2	-	5	33467	c.33263C>A	c.(33262-33264)CCA>CAA	p.P11088Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11090	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGAAACAGTTGGAGTTGGAAC	0.483													5	70	---	---	---	---	PASS	T	9048368	T	T	9048368	3	4	140	1	0	0	0	0	1	0	0	0	9973	1348	47	3	10580	3	MUC16	19	9048368	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	4156845	9048368	50080615	253	50053										
ELAVL3	1995	broad.mit.edu	37	chr19	11565633	11565633	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cccccgacaggcccacgcccGccaggccgctcataccatcg	9	22	1	0	rs144639070		TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:11565633G>T	uc002mry.1	-	7	1192	c.812C>A	c.(811-813)GCG>GAG	p.A271E	ELAVL3_uc002mrx.1_Missense_Mutation_p.A264E	NM_001420	NP_001411	Q14576	ELAV3_HUMAN	ELAV-like protein 3 isoform 1	271					cell differentiation|nervous system development		AU-rich element binding|nucleotide binding			ovary(1)|breast(1)|skin(1)	3						GCCCACGCCCGCCAGGCCGCT	0.577													20	58	---	---	---	---	PASS	T	11565633	T	T	11565633	3	4	140	1	0	0	0	0	1	0	0	0	5051	1087	38	1	295	1	ELAVL3	19	11565633	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	2517265	11565633	47563350	254	50054										
ZNF491	126069	broad.mit.edu	37	chr19	11917126	11917126	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tttctcctgcaagcattcgaAgatatatggtaacgcacagt	8	9	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:11917126A>T	uc002mso.1	+	3	643	c.358A>T	c.(358-360)AGA>TGA	p.R120*		NM_152356	NP_689569	Q8N8L2	ZN491_HUMAN	zinc finger protein 491	120	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						AAGCATTCGAAGATATATGGT	0.398													16	58	---	---	---	---	PASS	T	11917126	T	T	11917126	4	4	140	1	0	0	0	0	0	1	0	0	17939	64	3	5	360	5	ZNF491	19	11917126	Nonsense_Mutation	SNP	A	TCGA-66-2734-01A-01D-0983-08	351493	11917126	47211857	255	50055										
ZNF20	7568	broad.mit.edu	37	chr19	12244153	12244153	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcccacattgcttacactcaTagggtttttctccagtgtga	7	11	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:12244153T>C	uc002mtf.1	-	4	991	c.848A>G	c.(847-849)TAT>TGT	p.Y283C	ZNF20_uc002mte.1_Missense_Mutation_p.Y248C|ZNF20_uc002mtg.1_Missense_Mutation_p.Y283C	NM_021143	NP_066966	P17024	ZNF20_HUMAN	zinc finger protein 20	283	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTACACTCATAGGGTTTTTC	0.393													4	54	---	---	---	---	PASS	C	12244153	C	C	12244153	3	2	140	1	0	0	0	0	1	0	0	0	17758	1406	49	5	754	5	ZNF20	19	12244153	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	327027	12244153	46884830	256	50056										
CASP14	23581	broad.mit.edu	37	chr19	15164418	15164418	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cagctgagattcgaaagcacCatgaaaagagaccccactgc	9	12	0	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:15164418C>A	uc010dzv.1	+	3	461	c.153C>A	c.(151-153)ACC>ACA	p.T51T	CASP14_uc002naf.2_Silent_p.T51T	NM_012114	NP_036246	P31944	CASPE_HUMAN	caspase 14 precursor	51					apoptosis|cell differentiation|epidermis development|proteolysis	cytoplasm|nucleus	cysteine-type endopeptidase activity			skin(2)|ovary(1)|lung(1)	4						TCGAAAGCACCATGAAAAGAG	0.552													7	135	---	---	---	---	PASS	A	15164418	A	A	15164418	2	1	140	1	0	0	0	0	0	0	0	1	2670	581	21	3		3	CASP14	19	15164418	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	2920265	15164418	43964565	257	50057										
CYP4F12	66002	broad.mit.edu	37	chr19	15794350	15794350	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cttggagctcagtgcccttgTagagaaaagaagccagcata	11	9	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:15794350T>A	uc002nbl.2	+	7	756	c.695T>A	c.(694-696)GTA>GAA	p.V232E		NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					AGTGCCCTTGTAGAGAAAAGA	0.547													15	63	---	---	---	---	PASS	A	15794350	A	A	15794350	3	1	140	1	0	0	0	0	1	0	0	0	4187	1638	57	5	717	5	CYP4F12	19	15794350	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	629932	15794350	43334633	258	50058										
OR10H2	26538	broad.mit.edu	37	chr19	15839195	15839195	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ggcttcacccactccttcctGctcaccgtcatgggctacga	8	17	3	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:15839195G>T	uc002nbm.2	+	1	362	c.342G>T	c.(340-342)CTG>CTT	p.L114L		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	114	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					ACTCCTTCCTGCTCACCGTCA	0.647													5	24	---	---	---	---	PASS	T	15839195	T	T	15839195	2	4	140	1	0	0	0	0	0	0	0	1	10906	1306	46	3		3	OR10H2	19	15839195	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	44845	15839195	43289788	259	50059										
NCAN	1463	broad.mit.edu	37	chr19	19338255	19338255	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gttttggtcccccttggaggCcactgtctcagctcccagcc	10	16	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:19338255C>A	uc002nlz.2	+	8	1925	c.1826C>A	c.(1825-1827)GCC>GAC	p.A609D	NCAN_uc010ecc.1_Missense_Mutation_p.A173D	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	609					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			CCCTTGGAGGCCACTGTCTCA	0.652													5	23	---	---	---	---	PASS	A	19338255	A	A	19338255	3	1	140	1	0	0	0	0	1	0	0	0	10204	739	26	3	1852	3	NCAN	19	19338255	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	3499060	19338255	39790728	260	50060										
ZNF430	80264	broad.mit.edu	37	chr19	21205610	21205610	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cataggagaacctgaagtctGgagtgtatcctctcaaggaa	11	8	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:21205610G>T	uc002npj.2	+	2	129	c.19G>T	c.(19-21)GGA>TGA	p.G7*	ZNF430_uc002npk.2_Nonsense_Mutation_p.G7*	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	7					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						CCTGAAGTCTGGAGTGTATCC	0.443													5	66	---	---	---	---	PASS	T	21205610	T	T	21205610	4	4	140	1	0	0	0	0	0	1	0	0	17901	1349	47	3	25	3	ZNF430	19	21205610	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1867355	21205610	37923373	261	50061										
ZNF254	9534	broad.mit.edu	37	chr19	24309473	24309473	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aacctttaattggtcctcaaCccttactaatcataggaaaa	4	10	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:24309473C>T	uc002nru.2	+	4	805	c.671C>T	c.(670-672)ACC>ATC	p.T224I	ZNF254_uc010xrk.1_Missense_Mutation_p.T139I	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	224	C2H2-type 1; degenerate.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				TGGTCCTCAACCCTTACTAAT	0.328													5	33	---	---	---	---	PASS	T	24309473	T	T	24309473	3	4	140	1	0	0	0	0	1	0	0	0	17795	507	18	3	685	3	ZNF254	19	24309473	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	3103863	24309473	34819510	262	50062										
DPY19L3	147991	broad.mit.edu	37	chr19	32923703	32923703	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agatgctgcaggctccaaccCtcgtgcaaggtaattacaac	9	12	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:32923703C>T	uc002ntg.2	+	4	495	c.319C>T	c.(319-321)CTC>TTC	p.L107F	DPY19L3_uc002nth.1_Missense_Mutation_p.L107F	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	107						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					GGCTCCAACCCTCGTGCAAGG	0.413													5	34	---	---	---	---	PASS	T	32923703	T	T	32923703	3	4	140	1	0	0	0	0	1	0	0	0	4742	681	24	3	329	3	DPY19L3	19	32923703	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	8614230	32923703	26205280	263	50063										
LGALS13	29124	broad.mit.edu	37	chr19	40097949	40097949	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtgcaagtgtcgagagatatCtccctgacctcagtgtgtgt	12	9	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:40097949C>T	uc002omb.2	+	4	430	c.390C>T	c.(388-390)ATC>ATT	p.I130I		NM_013268	NP_037400	Q9UHV8	PP13_HUMAN	galectin-13	130	Galectin.				lipid catabolic process|phospholipid metabolic process		carboxylesterase activity|lysophospholipase activity|sugar binding			ovary(1)	1	all_cancers(60;1.77e-05)|all_lung(34;5.38e-08)|Lung NSC(34;6.37e-08)|Ovarian(47;0.116)		Epithelial(26;3.28e-26)|OV - Ovarian serous cystadenocarcinoma(5;7.31e-25)|all cancers(26;1.15e-23)|LUSC - Lung squamous cell carcinoma(53;0.00281)			CGAGAGATATCTCCCTGACCT	0.468													5	41	---	---	---	---	PASS	T	40097949	T	T	40097949	2	4	140	1	0	0	0	0	0	0	0	1	8740	903	32	2		2	LGALS13	19	40097949	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	7174246	40097949	19031034	264	50064										
ATP1A3	478	broad.mit.edu	37	chr19	42485885	42485885	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgaacccaccttgagcacagGgatgttgtcctgaccaccct	9	14	0	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:42485885G>T	uc002osg.2	-	10	1445	c.1291C>A	c.(1291-1293)CCT>ACT	p.P431T	ATP1A3_uc010xwf.1_Missense_Mutation_p.P442T|ATP1A3_uc010xwg.1_Missense_Mutation_p.P401T|ATP1A3_uc010xwh.1_Missense_Mutation_p.P444T|ATP1A3_uc002osh.2_Missense_Mutation_p.P431T	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	431	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						TTGAGCACAGGGATGTTGTCC	0.592													7	33	---	---	---	---	PASS	T	42485885	T	T	42485885	3	4	140	1	0	0	0	0	1	0	0	0	1130	1232	43	3	1806	3	ATP1A3	19	42485885	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	2387936	42485885	16643098	265	50065										
ZNF284	342909	broad.mit.edu	37	chr19	44590805	44590805	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtctttcaagacatcagcggGtccacaatggagaaacaaca	9	10	3	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:44590805G>T	uc002oyg.1	+	5	1390	c.1174G>T	c.(1174-1176)GTC>TTC	p.V392F	ZNF284_uc010ejd.2_RNA	NM_001037813	NP_001032902	Q2VY69	ZN284_HUMAN	zinc finger protein 284	392	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				ACATCAGCGGGTCCACAATGG	0.433													33	94	---	---	---	---	PASS	T	44590805	T	T	44590805	3	4	140	1	0	0	0	0	1	0	0	0	17818	1261	44	3	1188	3	ZNF284	19	44590805	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	2104920	44590805	14538178	266	50066										
SYT3	84258	broad.mit.edu	37	chr19	51133130	51133130	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ggagtccttggcagggaggtCcagggcctgcaggatcctca	16	11	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:51133130C>A	uc002pst.2	-	3	1607	c.973G>T	c.(973-975)GAC>TAC	p.D325Y	SYT3_uc002psv.2_Missense_Mutation_p.D325Y|SYT3_uc010ycd.1_Missense_Mutation_p.D325Y	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	325	C2 1.|Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		GCAGGGAGGTCCAGGGCCTGC	0.587													11	57	---	---	---	---	PASS	A	51133130	A	A	51133130	3	1	140	1	0	0	0	0	1	0	0	0	15472	855	30	2	823	2	SYT3	19	51133130	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	6542325	51133130	7995853	267	50067										
LILRB4	11006	broad.mit.edu	37	chr19	55179385	55179385	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gctgcacagctttaccctcaGacagaaggcaactgagcctc	9	14	1	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:55179385G>T	uc002qgp.2	+	12	1624	c.1262G>T	c.(1261-1263)AGA>ATA	p.R421I	LILRB4_uc002qgq.2_Missense_Mutation_p.R420I|LILRB4_uc002qgr.2_Missense_Mutation_p.R463I|LILRB4_uc010ert.2_Missense_Mutation_p.R462I|LILRB4_uc010eru.2_Missense_Mutation_p.R451I	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	421	Cytoplasmic (Potential).					integral to membrane|plasma membrane	antigen binding|receptor activity			ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)		TTTACCCTCAGACAGAAGGCA	0.622													9	77	---	---	---	---	PASS	T	55179385	T	T	55179385	3	4	140	1	0	0	0	0	1	0	0	0	8793	942	33	2	1308	2	LILRB4	19	55179385	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	4046255	55179385	3949598	268	50068										
USP29	57663	broad.mit.edu	37	chr19	57642748	57642748	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agagaactctcggctacctaGcacacaggcaggggtgatcc	12	12	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr19:57642748G>C	uc002qny.2	+	4	3061	c.2705G>C	c.(2704-2706)AGC>ACC	p.S902T		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	902					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CGGCTACCTAGCACACAGGCA	0.498													11	55	---	---	---	---	PASS	C	57642748	C	C	57642748	3	2	140	1	0	0	0	0	1	0	0	0	17056	971	34	4	2707	4	USP29	19	57642748	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	2463363	57642748	1486235	269	50069										
RRBP1	6238	broad.mit.edu	37	chr20	17610501	17610501	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctgttgctcctgggccttctCggcatccgcccggaggctgg	14	15	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:17610501C>A	uc002wpv.1	-	10	1771	c.1417G>T	c.(1417-1419)GAG>TAG	p.E473*	RRBP1_uc002wpu.2_Nonsense_Mutation_p.E247*|RRBP1_uc002wpw.1_Nonsense_Mutation_p.E473*|RRBP1_uc010gcl.1_Nonsense_Mutation_p.E247*|RRBP1_uc010gcm.1_Silent_p.P58P	NM_001042576	NP_001036041	Q9P2E9	RRBP1_HUMAN	ribosome binding protein 1	906	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						TGGGCCTTCTCGGCATCCGCC	0.711													8	10	---	---	---	---	PASS	A	17610501	A	A	17610501	4	1	140	1	0	0	0	0	0	1	0	0	13678	893	31	2	1584	2	RRBP1	20	17610501	Nonsense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08		17610501	45415019	270	50070										
RALGAPA2	57186	broad.mit.edu	37	chr20	20505152	20505152	+	Missense_Mutation	SNP	C	A	A													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctcacgggcaatgccatgcaCcagtccaagaggcagagtag							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:20505152C>A	uc002wrz.2	-	30	3941	c.3798G>T	c.(3796-3798)TGG>TGT	p.W1266C	RALGAPA2_uc010gcx.2_Missense_Mutation_p.W970C|RALGAPA2_uc010zsg.1_Missense_Mutation_p.W714C|RALGAPA2_uc002wsa.1_Missense_Mutation_p.W38C	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1266					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						ATGCCATGCACCAGTCCAAGA	0.502													12	49	---	---	---	---	PASS	A	20505152	A	A	20505152	3	1	140	1	0	0	0	0	1	0	0	0	13014	508	18	3	1863	3	RALGAPA2	20	20505152	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	2894651	20505152	42520368	271	50071	915	2								
RALGAPA2	57186	broad.mit.edu	37	chr20	20505153	20505153	+	Missense_Mutation	SNP	C	A	A													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcacgggcaatgccatgcacCagtccaagaggcagagtagc							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:20505153C>A	uc002wrz.2	-	30	3940	c.3797G>T	c.(3796-3798)TGG>TTG	p.W1266L	RALGAPA2_uc010gcx.2_Missense_Mutation_p.W970L|RALGAPA2_uc010zsg.1_Missense_Mutation_p.W714L|RALGAPA2_uc002wsa.1_Missense_Mutation_p.W38L	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1266					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						TGCCATGCACCAGTCCAAGAG	0.502													12	46	---	---	---	---	PASS	A	20505153	A	A	20505153	3	1	140	1	0	0	0	0	1	0	0	0	13014	595	21	3	1864	3	RALGAPA2	20	20505153	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	1	20505153	42520367	272	50072	915	2								
ASXL1	171023	broad.mit.edu	37	chr20	30956834	30956834	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	acagtgggacttcccctctcGcatgcctcaatgctatgcta	8	14	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:30956834G>T	uc002wxs.2	+	3	586	c.160G>T	c.(160-162)GCA>TCA	p.A54S	ASXL1_uc002wxr.1_RNA|ASXL1_uc002wxt.2_RNA|ASXL1_uc010geb.2_5'UTR	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	54					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						TTCCCCTCTCGCATGCCTCAA	0.438			F|N|Mis		MDS|CMML								10	49	---	---	---	---	PASS	T	30956834	T	T	30956834	3	4	140	1	0	0	0	0	1	0	0	0	1066	1087	38	1	170	1	ASXL1	20	30956834	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	10451681	30956834	32068686	273	50073										
NCOA6	23054	broad.mit.edu	37	chr20	33337933	33337933	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	atgtggcgccatcatttgtgGgccctgctgggaaagcatct	13	10	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:33337933G>T	uc002xav.2	-	10	4636	c.2065C>A	c.(2065-2067)CCA>ACA	p.P689T	NCOA6_uc002xaw.2_Missense_Mutation_p.P689T	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	689	TBP/GTF2A-binding region.|NCOA1-binding region.|Gln-rich.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						ATCATTTGTGGGCCCTGCTGG	0.547													5	56	---	---	---	---	PASS	T	33337933	T	T	33337933	3	4	140	1	0	0	0	0	1	0	0	0	10233	1232	43	3	4154	3	NCOA6	20	33337933	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	2381099	33337933	29687587	274	50074										
RBM12	10137	broad.mit.edu	37	chr20	34241817	34241817	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcagcctcatttctgaactcTacaaagccttcgccagttgc	6	14	4	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:34241817T>C	uc002xdq.2	-	3	1660	c.1428A>G	c.(1426-1428)GTA>GTG	p.V476V	CPNE1_uc010zvj.1_5'UTR|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_Silent_p.V476V|RBM12_uc002xds.2_Silent_p.V476V	NM_152838	NP_690051	Q9NTZ6	RBM12_HUMAN	RNA binding motif protein 12	476	RRM 2.					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)			TTCTGAACTCTACAAAGCCTT	0.373											OREG0004044	type=REGULATORY REGION|Gene=CPNE1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	33	107	---	---	---	---	PASS	C	34241817	C	C	34241817	2	2	140	1	0	0	0	0	0	0	0	1	13113	1509	53	5		5	RBM12	20	34241817	Silent	SNP	T	TCGA-66-2734-01A-01D-0983-08	903884	34241817	28783703	275	50075										
ACTR5	79913	broad.mit.edu	37	chr20	37384652	37384652	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctccaagcggaagtcaacctCgaggtggatgtggtagacag	14	9	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:37384652C>A	uc002xjd.2	+	5	1171	c.1146C>A	c.(1144-1146)CTC>CTA	p.L382L		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	382	Potential.				DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)				AAGTCAACCTCGAGGTGGATG	0.532													4	39	---	---	---	---	PASS	A	37384652	A	A	37384652	2	1	140	1	0	0	0	0	0	0	0	1	215	871	31	2		2	ACTR5	20	37384652	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	3142835	37384652	25640868	276	50076										
PTPRT	11122	broad.mit.edu	37	chr20	40735489	40735489	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	acgcagttgaagatgtccacCaccccttcattctcggccat	7	15	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:40735489C>A	uc002xkg.2	-	24	3511	c.3327G>T	c.(3325-3327)GTG>GTT	p.V1109V	PTPRT_uc010ggj.2_Silent_p.V1128V|PTPRT_uc010ggi.2_Silent_p.V312V	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1109	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				AGATGTCCACCACCCCTTCAT	0.572													5	58	---	---	---	---	PASS	A	40735489	A	A	40735489	2	1	140	1	0	0	0	0	0	0	0	1	12812	581	21	3		3	PTPRT	20	40735489	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	3350837	40735489	22290031	277	50077										
R3HDML	140902	broad.mit.edu	37	chr20	42965955	42965955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cctggaggtgcccaggtaccGccggaagcgccacatctctg	13	15	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:42965955G>T	uc002xls.1	+	1	330	c.158G>T	c.(157-159)CGC>CTC	p.R53L		NM_178491	NP_848586	Q9H3Y0	CRSPL_HUMAN	R3H domain containing-like precursor	53						extracellular region	peptidase inhibitor activity				0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			CCCAGGTACCGCCGGAAGCGC	0.597													6	20	---	---	---	---	PASS	T	42965955	T	T	42965955	3	4	140	1	0	0	0	0	1	0	0	0	12889	1087	38	1	160	1	R3HDML	20	42965955	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	2230466	42965955	20059565	278	50078										
PCK1	5105	broad.mit.edu	37	chr20	56137948	56137948	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tctgtggggtgccctctgccTttacaaagtaagtgtattat	10	8	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:56137948T>A	uc002xyn.3	+	4	766	c.603T>A	c.(601-603)CCT>CCA	p.P201P	PCK1_uc010zzm.1_Intron	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	201					gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			GCCCTCTGCCTTTACAAAGTA	0.532													7	28	---	---	---	---	PASS	A	56137948	A	A	56137948	2	1	140	1	0	0	0	0	0	0	0	1	11581	1596	56	5		5	PCK1	20	56137948	Silent	SNP	T	TCGA-66-2734-01A-01D-0983-08	13171993	56137948	6887572	279	50079										
ZNF831	128611	broad.mit.edu	37	chr20	57769790	57769790	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctggacaagccctggagaagGagggccggcgcagatgtcca	16	11	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:57769790G>C	uc002yan.2	+	1	3716	c.3716G>C	c.(3715-3717)GGA>GCA	p.G1239A		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1239						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CCTGGAGAAGGAGGGCCGGCG	0.597													4	10	---	---	---	---	PASS	C	57769790	C	C	57769790	3	2	140	1	0	0	0	0	1	0	0	0	18182	1174	41	2	3718	2	ZNF831	20	57769790	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1631842	57769790	5255730	280	50080										
ZNF831	128611	broad.mit.edu	37	chr20	57829123	57829123	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gagactcagctgctggcctcCcaggattcagtctcaacaga	10	13	3	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:57829123C>A	uc002yan.2	+	5	4359	c.4359C>A	c.(4357-4359)TCC>TCA	p.S1453S		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1453						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					TGCTGGCCTCCCAGGATTCAG	0.522													6	63	---	---	---	---	PASS	A	57829123	A	A	57829123	2	1	140	1	0	0	0	0	0	0	0	1	18182	610	22	3		3	ZNF831	20	57829123	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	59333	57829123	5196397	281	50081										
C20orf11	54994	broad.mit.edu	37	chr20	61576136	61576136	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgctagattatgaaaatcgcGagtcaacacccaaactggca	8	10	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:61576136G>T	uc002ydy.2	+	5	736	c.559G>T	c.(559-561)GAG>TAG	p.E187*		NM_017896	NP_060366	Q9NWU2	CT011_HUMAN	chromosome 20 open reading frame 11	187						nucleus	protein binding				0	Breast(26;5.68e-08)					TGAAAATCGCGAGTCAACACC	0.418													4	71	---	---	---	---	PASS	T	61576136	T	T	61576136	4	4	140	1	0	0	0	0	0	1	0	0	2079	1059	37	2	573	2	C20orf11	20	61576136	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	3747013	61576136	1449384	282	50082										
COL20A1	57642	broad.mit.edu	37	chr20	61959481	61959481	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cagcttgtgagccaggcctgTgagtctgccattcagagtga	13	10	2	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:61959481T>A	uc011aau.1	+	33	3713	c.3613_splice	c.e33+2	p.S1205_splice	COL20A1_uc011aav.1_Nonsense_Mutation_p.C1026*	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1						cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					GCCAGGCCTGTGAGTCTGCCA	0.647													3	14	---	---	---	---	PASS	A	61959481	A	A	61959481	5	1	140	1	0	0	0	0	0	0	1	0	3679	1710	59	5	3683	5	COL20A1	20	61959481	Splice_Site	SNP	T	TCGA-66-2734-01A-01D-0983-08	383345	61959481	1066039	283	50083										
ZNF512B	57473	broad.mit.edu	37	chr20	62595499	62595499	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agctggcaccttcttccgggCgtcctcagggcctggcccct	12	17	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr20:62595499C>G	uc002yhl.1	-	8	1459	c.1405G>C	c.(1405-1407)GCC>CCC	p.A469P		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	469					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					TTCTTCCGGGCGTCCTCAGGG	0.662													9	36	---	---	---	---	PASS	G	62595499	G	G	62595499	3	3	140	1	0	0	0	0	1	0	0	0	17954	768	27	4	1313	4	ZNF512B	20	62595499	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	636018	62595499	430021	284	50084										
PCNT	5116	broad.mit.edu	37	chr21	47847543	47847543	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cttcttcctttaggaagtgcCcaccgcgtgccccgattgga	10	14	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr21:47847543C>A	uc002zji.3	+	34	7435	c.7328C>A	c.(7327-7329)CCC>CAC	p.P2443H	PCNT_uc002zjj.2_Missense_Mutation_p.P2325H	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2443					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TAGGAAGTGCCCACCGCGTGC	0.458													6	47	---	---	---	---	PASS	A	47847543	A	A	47847543	3	1	140	1	0	0	0	0	1	0	0	0	11590	623	22	3	7462	3	PCNT	21	47847543	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08		47847543	282352	285	50085										
ZNF280B	140883	broad.mit.edu	37	chr22	22843151	22843151	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tttccttctataattccatcCctgagtttagcccttttggg	6	11	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr22:22843151C>A	uc002zwc.1	-	4	1349	c.573G>T	c.(571-573)AGG>AGT	p.R191S	LOC96610_uc011aim.1_Intron	NM_080764	NP_542942	Q86YH2	Z280B_HUMAN	zinc finger protein 280B	191					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		TAATTCCATCCCTGAGTTTAG	0.383													10	68	---	---	---	---	PASS	A	22843151	A	A	22843151	3	1	140	1	0	0	0	0	1	0	0	0	17812	622	22	3	1062	3	ZNF280B	22	22843151	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08		22843151	28461415	286	50086										
CHCHD10	400916	broad.mit.edu	37	chr22	24108318	24108318	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ggggtccactcactcaccatGgtagtacttgcactgcttca	9	13	3	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr22:24108318G>T	uc002zxw.2	-	3	486	c.406C>A	c.(406-408)CAT>AAT	p.H136N		NM_213720	NP_998885	Q8WYQ3	CHC10_HUMAN	coiled-coil-helix-coiled-coil-helix domain	136						mitochondrion					0						CACTCACCATGGTAGTACTTG	0.627													5	29	---	---	---	---	PASS	T	24108318	T	T	24108318	3	4	140	1	0	0	0	0	1	0	0	0	3315	1348	47	3	30	3	CHCHD10	22	24108318	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1265167	24108318	27196248	287	50087										
RFPL1	5988	broad.mit.edu	37	chr22	29837623	29837623	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtgggtgcatcacacagaatCggcaagaccttgccgagaga	13	10	1	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr22:29837623C>T	uc003afn.2	+	2	675	c.466C>T	c.(466-468)CGG>TGG	p.R156W	RFPL1S_uc003afm.1_RNA	NM_021026	NP_066306	O75677	RFPL1_HUMAN	ret finger protein-like 1	156	B30.2/SPRY.						zinc ion binding				0						CACACAGAATCGGCAAGACCT	0.552													21	64	---	---	---	---	PASS	T	29837623	T	T	29837623	3	4	140	1	0	0	0	0	1	0	0	0	13253	875	31	2	472	2	RFPL1	22	29837623	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	5729305	29837623	21466943	288	50088										
PATZ1	23598	broad.mit.edu	37	chr22	31741322	31741322	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ccgcctggtgctgccgtcgcGccccctacatcagccggacc	11	20	1	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr22:31741322G>A	uc003akq.2	-	1	928	c.267C>T	c.(265-267)GGC>GGT	p.G89G	PATZ1_uc003akp.2_Silent_p.G89G|PATZ1_uc003akr.2_Silent_p.G89G|PATZ1_uc003aks.2_Silent_p.G89G|uc003akt.2_5'Flank	NM_014323	NP_055138	Q9HBE1	PATZ1_HUMAN	POZ (BTB) and AT hook containing zinc finger 1	89	BTB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/PATZ1(2)	soft_tissue(2)	2						CTGCCGTCGCGCCCCCTACAT	0.682													5	9	---	---	---	---	PASS	A	31741322	A	A	31741322	2	1	140	1	0	0	0	0	0	0	0	1	11476	1074	38	1		1	PATZ1	22	31741322	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	1903699	31741322	19563244	289	50089										
LARGE	9215	broad.mit.edu	37	chr22	34000433	34000433	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gcccataccttgagctcgtcTgcattgtagaagtccacacg	9	13	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr22:34000433T>C	uc003and.3	-	6	1182	c.603A>G	c.(601-603)GCA>GCG	p.A201A	LARGE_uc003ane.3_Silent_p.A201A|LARGE_uc010gwp.2_Silent_p.A201A|LARGE_uc011ame.1_Silent_p.A133A|LARGE_uc011amf.1_Silent_p.A201A	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	201	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				TGAGCTCGTCTGCATTGTAGA	0.547													8	71	---	---	---	---	PASS	C	34000433	C	C	34000433	2	2	140	1	0	0	0	0	0	0	0	1	8627	1567	55	5		5	LARGE	22	34000433	Silent	SNP	T	TCGA-66-2734-01A-01D-0983-08	2259111	34000433	17304133	290	50090										
TOM1	10043	broad.mit.edu	37	chr22	35723368	35723368	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	caggccgagcccgcagacctGgagctgctgcaggtgagcag	16	13	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr22:35723368G>T	uc003ann.2	+	7	878	c.753G>T	c.(751-753)CTG>CTT	p.L251L	TOM1_uc011ami.1_Silent_p.L218L|TOM1_uc011amj.1_Silent_p.L94L|TOM1_uc003ans.2_Silent_p.L94L|TOM1_uc011amk.1_Silent_p.L213L|TOM1_uc003anp.2_Silent_p.L251L|TOM1_uc011aml.1_Silent_p.L206L|TOM1_uc003ano.2_RNA|TOM1_uc003anq.2_Silent_p.L245L|TOM1_uc003anr.2_Silent_p.L94L	NM_005488	NP_005479	O60784	TOM1_HUMAN	target of myb1 isoform 1	251	GAT.				endocytosis|endosome transport|intracellular protein transport	cytosol|early endosome|membrane	protein binding			ovary(1)	1						CCGCAGACCTGGAGCTGCTGC	0.627													9	20	---	---	---	---	PASS	T	35723368	T	T	35723368	2	4	140	1	0	0	0	0	0	0	0	1	16348	1335	47	3		3	TOM1	22	35723368	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	1722935	35723368	15581198	291	50091										
MB	4151	broad.mit.edu	37	chr22	36003352	36003352	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agcggcaggggcctagccctGgaagcccagctccttgtagt	14	13	0	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr22:36003352G>A	uc003anz.2	-	3	537	c.457C>T	c.(457-459)CAG>TAG	p.Q153*	MB_uc003aoa.2_Nonsense_Mutation_p.Q153*|MB_uc003aob.2_Nonsense_Mutation_p.Q153*	NM_005368	NP_005359	P02144	MYG_HUMAN	myoglobin	153							heme binding|oxygen transporter activity				0						GCCTAGCCCTGGAAGCCCAGC	0.622													6	42	---	---	---	---	PASS	A	36003352	A	A	36003352	4	1	140	1	0	0	0	0	0	1	0	0	9341	1357	47	3	11	3	MB	22	36003352	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	279984	36003352	15301214	292	50092										
CACNA1I	8911	broad.mit.edu	37	chr22	40045840	40045840	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gagacgcgagccaagctgcgCggcatcgtggacagcaagta	15	11	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr22:40045840C>A	uc003ayc.2	+	10	1902	c.1902C>A	c.(1900-1902)CGC>CGA	p.R634R	CACNA1I_uc003ayd.2_Silent_p.R599R|CACNA1I_uc003aye.2_Silent_p.R549R|CACNA1I_uc003ayf.2_Silent_p.R514R	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	634	II.|Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CCAAGCTGCGCGGCATCGTGG	0.532													8	30	---	---	---	---	PASS	A	40045840	A	A	40045840	2	1	140	1	0	0	0	0	0	0	0	1	2546	755	27	1		1	CACNA1I	22	40045840	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	4042488	40045840	11258726	293	50093										
ENTHD1	150350	broad.mit.edu	37	chr22	40217076	40217076	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aatggaaggaggtgttgctaGtaaaggcagctctggatcat	14	5	2	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr22:40217076G>T	uc003ayg.2	-	5	1005	c.754C>A	c.(754-756)CTA>ATA	p.L252I		NM_152512	NP_689725	Q8IYW4	ENTD1_HUMAN	ENTH domain containing 1	252										ovary(2)|skin(1)	3	Melanoma(58;0.0749)					GGTGTTGCTAGTAAAGGCAGC	0.398													5	25	---	---	---	---	PASS	T	40217076	T	T	40217076	3	4	140	1	0	0	0	0	1	0	0	0	5137	1020	36	3	1081	3	ENTHD1	22	40217076	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	171236	40217076	11087490	294	50094										
RANGAP1	5905	broad.mit.edu	37	chr22	41647034	41647034	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctgcatcctgcactgccatcCtcacagtagcttcgtccttg	7	16	1	0	rs139565299		TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr22:41647034C>A	uc003azs.2	-	12	2930	c.1460G>T	c.(1459-1461)AGG>ATG	p.R487M	RANGAP1_uc003azt.2_Missense_Mutation_p.R487M|RANGAP1_uc003azu.2_Missense_Mutation_p.R487M|RANGAP1_uc003azr.2_Translation_Start_Site|RANGAP1_uc010gyk.2_Translation_Start_Site|RANGAP1_uc011aoz.1_Missense_Mutation_p.R432M	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	487					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						CACTGCCATCCTCACAGTAGC	0.557													6	75	---	---	---	---	PASS	A	41647034	A	A	41647034	3	1	140	1	0	0	0	0	1	0	0	0	13033	681	24	3	319	3	RANGAP1	22	41647034	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	1429958	41647034	9657532	295	50095										
TCF20	6942	broad.mit.edu	37	chr22	42609031	42609031	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tctcctgtcagggtggtggtGgtaaccctgaagcacttcct	12	11	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chr22:42609031G>T	uc003bcj.1	-	1	2415	c.2281C>A	c.(2281-2283)CAC>AAC	p.H761N	TCF20_uc003bck.1_Missense_Mutation_p.H761N|TCF20_uc003bnt.2_Missense_Mutation_p.H761N	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	761					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						GGGTGGTGGTGGTAACCCTGA	0.502													5	66	---	---	---	---	PASS	T	42609031	T	T	42609031	3	4	140	1	0	0	0	0	1	0	0	0	15687	1348	47	3	3639	3	TCF20	22	42609031	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	961997	42609031	8695535	296	50096										
GYG2	8908	broad.mit.edu	37	chrX	2795308	2795308	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	accaagccaggaactccctgCtgaggctctcagggacccca	10	16	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:2795308C>A	uc004cqs.1	+	11	1586	c.1304C>A	c.(1303-1305)GCT>GAT	p.A435D	GYG2_uc004cqt.1_Missense_Mutation_p.A404D|GYG2_uc004cqu.1_Missense_Mutation_p.A403D|GYG2_uc004cqv.1_Intron|GYG2_uc004cqw.1_Missense_Mutation_p.A395D|GYG2_uc004cqx.1_Intron|GYG2_uc010ndc.1_Intron	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b	435					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GAACTCCCTGCTGAGGCTCTC	0.547													8	56	---	---	---	---	PASS	A	2795308	A	A	2795308	3	1	140	1	0	0	0	0	1	0	0	0	6906	797	28	3	1342	3	GYG2	23	2795308	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08		2795308	152475252	297	50097										
NLGN4X	57502	broad.mit.edu	37	chrX	5821666	5821666	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tccatcaggatctgggggtcGtctgggatgacgtcgccgtc	15	11	3	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:5821666G>T	uc010ndh.2	-	5	1554	c.1053C>A	c.(1051-1053)GAC>GAA	p.D351E	NLGN4X_uc004crp.2_Missense_Mutation_p.D371E|NLGN4X_uc004crq.2_Missense_Mutation_p.D351E|NLGN4X_uc010ndi.2_Missense_Mutation_p.D388E|NLGN4X_uc004crr.2_Missense_Mutation_p.D351E|NLGN4X_uc010ndj.2_Missense_Mutation_p.D351E	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	351	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TCTGGGGGTCGTCTGGGATGA	0.597													11	62	---	---	---	---	PASS	T	5821666	T	T	5821666	3	4	140	1	0	0	0	0	1	0	0	0	10464	1136	40	1	1405	1	NLGN4X	23	5821666	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	3026358	5821666	149448894	298	50098										
NHS	4810	broad.mit.edu	37	chrX	17743832	17743832	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aagagggagagtcttttgtgGgtgaccatgaaagaacccct	13	7	1	5			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:17743832G>T	uc004cxx.2	+	6	1881	c.1543G>T	c.(1543-1545)GGT>TGT	p.G515C	NHS_uc011mix.1_Missense_Mutation_p.G536C|NHS_uc004cxy.2_Missense_Mutation_p.G359C|NHS_uc004cxz.2_Missense_Mutation_p.G338C|NHS_uc004cya.2_Missense_Mutation_p.G238C	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	515						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					GTCTTTTGTGGGTGACCATGA	0.547													7	107	---	---	---	---	PASS	T	17743832	T	T	17743832	3	4	140	1	0	0	0	0	1	0	0	0	10411	1232	43	3	1670	3	NHS	23	17743832	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	11922166	17743832	137526728	299	50099										
GPR64	10149	broad.mit.edu	37	chrX	19013118	19013118	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ttgaagagctggacactcctTggtttacagtctgcttcttt	9	9	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:19013118T>A	uc004cyx.2	-	28	2929	c.2765A>T	c.(2764-2766)CAA>CTA	p.Q922L	GPR64_uc004cyy.2_Missense_Mutation_p.Q919L|GPR64_uc004cyz.2_Missense_Mutation_p.Q908L|GPR64_uc004czb.2_Intron|GPR64_uc004czc.2_Missense_Mutation_p.Q906L|GPR64_uc004czd.2_Missense_Mutation_p.Q898L|GPR64_uc004cze.2_Missense_Mutation_p.Q892L|GPR64_uc004czf.2_Missense_Mutation_p.Q884L|GPR64_uc004cza.2_Missense_Mutation_p.Q900L|GPR64_uc004cyw.2_Intron|GPR64_uc010nfj.2_Missense_Mutation_p.Q803L	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	922	Cytoplasmic (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					GGACACTCCTTGGTTTACAGT	0.423													15	70	---	---	---	---	PASS	A	19013118	A	A	19013118	3	1	140	1	0	0	0	0	1	0	0	0	6705	1812	63	5	296	5	GPR64	23	19013118	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	1269286	19013118	136257442	300	50100										
GPR64	10149	broad.mit.edu	37	chrX	19018072	19018072	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgatggtcacaaccacagctGgtacccctggaagatgggaa	12	10	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:19018072G>T	uc004cyx.2	-	25	2401	c.2237C>A	c.(2236-2238)CCA>CAA	p.P746Q	GPR64_uc004cyy.2_Missense_Mutation_p.P743Q|GPR64_uc004cyz.2_Missense_Mutation_p.P732Q|GPR64_uc004czb.2_Missense_Mutation_p.P746Q|GPR64_uc004czc.2_Missense_Mutation_p.P730Q|GPR64_uc004czd.2_Missense_Mutation_p.P722Q|GPR64_uc004cze.2_Missense_Mutation_p.P716Q|GPR64_uc004czf.2_Missense_Mutation_p.P708Q|GPR64_uc004cza.2_Missense_Mutation_p.P724Q|GPR64_uc004cyw.2_Missense_Mutation_p.P730Q|GPR64_uc010nfj.2_Missense_Mutation_p.P627Q	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	746	Helical; Name=4; (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					AACCACAGCTGGTACCCCTGG	0.328													20	104	---	---	---	---	PASS	T	19018072	T	T	19018072	3	4	140	1	0	0	0	0	1	0	0	0	6705	1348	47	3	836	3	GPR64	23	19018072	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	4954	19018072	136252488	301	50101										
PDHA1	5160	broad.mit.edu	37	chrX	19373469	19373469	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tttcgtaactacttccagggCcagatattcgaagcttacaa	7	10	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:19373469C>A	uc004czg.3	+	7	751	c.606C>A	c.(604-606)GGC>GGA	p.G202G	PDHA1_uc004czh.3_Silent_p.G237G|PDHA1_uc011mjc.1_Silent_p.G206G|PDHA1_uc011mjd.1_Silent_p.G168G|PDHA1_uc010nfk.2_Silent_p.G199G|PDHA1_uc010nfl.2_5'UTR	NM_000284	NP_000275	P08559	ODPA_HUMAN	pyruvate dehydrogenase E1 alpha 1 precursor	202					glycolysis|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	protein binding|pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)	1	Hepatocellular(33;0.183)				NADH(DB00157)	ACTTCCAGGGCCAGATATTCG	0.438													22	135	---	---	---	---	PASS	A	19373469	A	A	19373469	2	1	140	1	0	0	0	0	0	0	0	1	11664	726	26	3		3	PDHA1	23	19373469	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	355397	19373469	135897091	302	50102										
TAB3	257397	broad.mit.edu	37	chrX	30873249	30873249	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tgtatgaaggaggtggcggtGgtggtgaaggcccttgcata	18	5	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:30873249G>T	uc004dcj.2	-	6	1196	c.533C>A	c.(532-534)CCA>CAA	p.P178Q	TAB3_uc004dck.2_Missense_Mutation_p.P178Q|TAB3_uc010ngl.2_Missense_Mutation_p.P178Q	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	178	Pro-rich.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|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|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						AGGTGGCGGTGGTGGTGAAGG	0.488													19	81	---	---	---	---	PASS	T	30873249	T	T	30873249	3	4	140	1	0	0	0	0	1	0	0	0	15494	1348	47	3	1629	3	TAB3	23	30873249	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	11499780	30873249	124397311	303	50103										
USP9X	8239	broad.mit.edu	37	chrX	40994071	40994071	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tacagatgaagcagtgagtgGctggaagtttgaaattcatg	13	4	1	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:40994071G>T	uc004dfb.2	+	5	1049	c.416G>T	c.(415-417)GGC>GTC	p.G139V	USP9X_uc004dfc.2_Missense_Mutation_p.G139V	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	139					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						GCAGTGAGTGGCTGGAAGTTT	0.393													5	59	---	---	---	---	PASS	T	40994071	T	T	40994071	3	4	140	1	0	0	0	0	1	0	0	0	17087	1203	42	3	430	3	USP9X	23	40994071	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	10120822	40994071	114276489	304	50104										
WAS	7454	broad.mit.edu	37	chrX	48545326	48545326	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gatcagcaaagctgatattgGtgcacccagtggattcaagt	11	8	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:48545326G>T	uc004dkm.3	+	7	773	c.716G>T	c.(715-717)GGT>GTT	p.G239V		NM_000377	NP_000368	P42768	WASP_HUMAN	Wiskott-Aldrich syndrome protein	239	CRIB.				blood coagulation|defense response|epidermis development|immune response|T cell receptor signaling pathway	actin cytoskeleton|cytosol	identical protein binding|small GTPase regulator activity			ovary(1)	1		all_lung(315;1.27e-10)				GCTGATATTGGTGCACCCAGT	0.542			Mis|N|F|S			lymphoma			Wiskott-Aldrich_syndrome				5	23	---	---	---	---	PASS	T	48545326	T	T	48545326	3	4	140	1	0	0	0	0	1	0	0	0	17248	1261	44	3	742	3	WAS	23	48545326	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	7551255	48545326	106725234	305	50105										
AKAP4	8852	broad.mit.edu	37	chrX	49958015	49958015	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	catgggacccagcttttaaaGatgcatatgacagactctga	9	9	1	4			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:49958015G>T	uc004dow.1	-	5	1473	c.1349C>A	c.(1348-1350)TCT>TAT	p.S450Y	AKAP4_uc004dov.1_Intron|AKAP4_uc010njp.1_Missense_Mutation_p.S272Y|AKAP4_uc004dou.1_Missense_Mutation_p.S441Y	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	450					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					AGCTTTTAAAGATGCATATGA	0.448													19	77	---	---	---	---	PASS	T	49958015	T	T	49958015	3	4	140	1	0	0	0	0	1	0	0	0	453	942	33	2	1223	2	AKAP4	23	49958015	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1412689	49958015	105312545	306	50106										
HUWE1	10075	broad.mit.edu	37	chrX	53610791	53610791	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtcaccatatcttctgtcaaGccctggatcaggatctcccc	7	15	6	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:53610791G>T	uc004dsp.2	-	42	5649	c.5247C>A	c.(5245-5247)GGC>GGA	p.G1749G	HUWE1_uc004dsn.2_Silent_p.G574G	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	1749					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CTTCTGTCAAGCCCTGGATCA	0.498													11	38	---	---	---	---	PASS	T	53610791	T	T	53610791	2	4	140	1	0	0	0	0	0	0	0	1	7461	958	34	3		3	HUWE1	23	53610791	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	3652776	53610791	101659769	307	50107										
KLF8	11279	broad.mit.edu	37	chrX	56296637	56296637	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cagcagcaatggcccaaatgCagggagaagagtcgcttgac	13	10	0	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:56296637C>A	uc004dur.2	+	5	1727	c.781C>A	c.(781-783)CAG>AAG	p.Q261K	KLF8_uc011mop.1_Intron|KLF8_uc010nkh.2_RNA	NM_007250	NP_009181	O95600	KLF8_HUMAN	Kruppel-like factor 8 isoform 1	261					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGCCCAAATGCAGGGAGAAGA	0.418													13	46	---	---	---	---	PASS	A	56296637	A	A	56296637	3	1	140	1	0	0	0	0	1	0	0	0	8352	711	25	3	799	3	KLF8	23	56296637	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	2685846	56296637	98973923	308	50108										
MSN	4478	broad.mit.edu	37	chrX	64957195	64957195	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	accagaaaaagactcaggaaCagctggtaaagctgtagggt	12	7	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:64957195C>G	uc004dwf.2	+	10	1444	c.1246C>G	c.(1246-1248)CAG>GAG	p.Q416E		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	416					leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						GACTCAGGAACAGCTGGTAAA	0.517			T	ALK	ALCL								7	23	---	---	---	---	PASS	G	64957195	G	G	64957195	3	3	140	1	0	0	0	0	1	0	0	0	9885	479	17	4	1284	4	MSN	23	64957195	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	8660558	64957195	90313365	309	50109										
KIF4A	24137	broad.mit.edu	37	chrX	69510564	69510564	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gtggttggtacagataaatcCttcacctacgattttgtatt	8	7	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:69510564C>G	uc004dyg.2	+	3	271	c.144C>G	c.(142-144)TCC>TCG	p.S48S	KIF4A_uc010nkw.2_Silent_p.S48S|PDZD11_uc004dyd.1_5'Flank|PDZD11_uc004dye.1_5'Flank|KIF4A_uc004dyf.1_Silent_p.S48S	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	48	Kinesin-motor.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						CAGATAAATCCTTCACCTACG	0.453													13	55	---	---	---	---	PASS	G	69510564	G	G	69510564	2	3	140	1	0	0	0	0	0	0	0	1	8303	668	24	4		4	KIF4A	23	69510564	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	4553369	69510564	85759996	310	50110										
MAGEE2	139599	broad.mit.edu	37	chrX	75003990	75003990	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cagaactctaagccagcagtCaggcttctttctttggtttt	8	10	4	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:75003990C>A	uc004ecj.1	-	1	1082	c.897G>T	c.(895-897)CTG>CTT	p.L299L		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	299										ovary(1)|skin(1)	2						AGCCAGCAGTCAGGCTTCTTT	0.468													8	76	---	---	---	---	PASS	A	75003990	A	A	75003990	2	1	140	1	0	0	0	0	0	0	0	1	9186	813	29	2		2	MAGEE2	23	75003990	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	5493426	75003990	80266570	311	50111										
BRWD3	254065	broad.mit.edu	37	chrX	79999630	79999630	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	accttatcacagctgcctgcAgcaataagagtgttttcata	7	10	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:79999630A>G	uc004edt.2	-	8	977	c.714T>C	c.(712-714)GCT>GCC	p.A238A	BRWD3_uc004edo.2_5'UTR|BRWD3_uc004edp.2_Silent_p.A67A|BRWD3_uc004edq.2_5'UTR|BRWD3_uc010nmj.1_5'UTR|BRWD3_uc004edr.2_5'UTR|BRWD3_uc004eds.2_5'UTR|BRWD3_uc004edu.2_5'UTR|BRWD3_uc004edv.2_5'UTR|BRWD3_uc004edw.2_5'UTR|BRWD3_uc004edx.2_5'UTR|BRWD3_uc004edy.2_5'UTR|BRWD3_uc004edz.2_5'UTR|BRWD3_uc004eea.2_5'UTR|BRWD3_uc004eeb.2_Intron	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	238	WD 3.									ovary(4)	4						AGCTGCCTGCAGCAATAAGAG	0.453													8	43	---	---	---	---	PASS	G	79999630	G	G	79999630	2	3	140	1	0	0	0	0	0	0	0	1	1526	175	7	5		5	BRWD3	23	79999630	Silent	SNP	A	TCGA-66-2734-01A-01D-0983-08	4995640	79999630	75270930	312	50112										
ZNF711	7552	broad.mit.edu	37	chrX	84502603	84502603	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	attcaggcggtggaagtcttGgattgcacacgccagactct	12	10	3	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:84502603G>T	uc004eeo.2	+	3	372	c.25G>T	c.(25-27)GGA>TGA	p.G9*	ZNF711_uc004eep.2_Nonsense_Mutation_p.G9*|ZNF711_uc004eeq.2_Nonsense_Mutation_p.G9*	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	9					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						TGGAAGTCTTGGATTGCACAC	0.338													6	83	---	---	---	---	PASS	T	84502603	T	T	84502603	4	4	140	1	0	0	0	0	0	1	0	0	18113	1349	47	3	27	3	ZNF711	23	84502603	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	4502973	84502603	70767957	313	50113										
CHM	1121	broad.mit.edu	37	chrX	85218784	85218784	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gctataggcacattttcactCatgtcttctgctgaagttga	8	9	4	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:85218784C>A	uc004eet.2	-	5	618	c.588G>T	c.(586-588)ATG>ATT	p.M196I	CHM_uc011mqz.1_Missense_Mutation_p.M48I	NM_000390	NP_000381	P24386	RAE1_HUMAN	choroideremia isoform a	196					intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)				CATTTTCACTCATGTCTTCTG	0.373													6	37	---	---	---	---	PASS	A	85218784	A	A	85218784	3	1	140	1	0	0	0	0	1	0	0	0	3350	826	29	2	1417	2	CHM	23	85218784	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	716181	85218784	70051776	314	50114										
SYTL4	94121	broad.mit.edu	37	chrX	99955935	99955935	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gaatgatctttcttcctggcCagatgtcacccatctgtgtc	8	12	4	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:99955935C>A	uc004egd.3	-	7	853	c.497G>T	c.(496-498)TGG>TTG	p.W166L	SYTL4_uc010nnc.2_Missense_Mutation_p.W166L|SYTL4_uc004ege.3_Missense_Mutation_p.W166L|SYTL4_uc004egf.3_Missense_Mutation_p.W166L|SYTL4_uc004egg.3_Missense_Mutation_p.W166L	NM_080737	NP_542775	Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	166					exocytosis|intracellular protein transport	extrinsic to membrane|plasma membrane|synaptic vesicle|transport vesicle membrane	neurexin binding|phospholipid binding|Rab GTPase binding|transporter activity|zinc ion binding			ovary(2)	2					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TCTTCCTGGCCAGATGTCACC	0.423													15	71	---	---	---	---	PASS	A	99955935	A	A	99955935	3	1	140	1	0	0	0	0	1	0	0	0	15482	595	21	3	1570	3	SYTL4	23	99955935	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	14737151	99955935	55314625	315	50115										
SERPINA7	6906	broad.mit.edu	37	chrX	105280734	105280734	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gaagccatgctggatctctaCcattggagtgtctgtgaggt	13	8	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:105280734C>G	uc004eme.1	-	1	332	c.316G>C	c.(316-318)GTA>CTA	p.V106L	SERPINA7_uc010npd.2_Missense_Mutation_p.V106L|SERPINA7_uc010npe.1_Missense_Mutation_p.V106L	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	106					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	TGGATCTCTACCATTGGAGTG	0.478													15	51	---	---	---	---	PASS	G	105280734	G	G	105280734	3	3	140	1	0	0	0	0	1	0	0	0	14094	507	18	4	947	4	SERPINA7	23	105280734	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	5324799	105280734	49989826	316	50116										
ACSL4	2182	broad.mit.edu	37	chrX	108926550	108926550	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gacagagcgatatggacttcCaggtttgtctgaagtgggct	14	7	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:108926550C>A	uc004eoi.2	-	4	671	c.166G>T	c.(166-168)GGA>TGA	p.G56*	ACSL4_uc004eoj.2_Nonsense_Mutation_p.G15*|ACSL4_uc004eok.2_Nonsense_Mutation_p.G15*|ACSL4_uc010npp.1_Nonsense_Mutation_p.G56*	NM_022977	NP_075266	O60488	ACSL4_HUMAN	acyl-CoA synthetase long-chain family member 4	56	Cytoplasmic (Potential).				fatty acid metabolic process|learning or memory|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(1)|lung(1)|ovary(1)	3					Icosapent(DB00159)|Troglitazone(DB00197)	TATGGACTTCCAGGTTTGTCT	0.408													6	92	---	---	---	---	PASS	A	108926550	A	A	108926550	4	1	140	1	0	0	0	0	0	1	0	0	179	603	21	3	2025	3	ACSL4	23	108926550	Nonsense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	3645816	108926550	46344010	317	50117										
ODZ1	10178	broad.mit.edu	37	chrX	123554415	123554415	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aagtcaccttcagaattgtaGgtgaagttataaacatagtc	8	6	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:123554415G>T	uc004euj.2	-	24	4771	c.4707C>A	c.(4705-4707)ACC>ACA	p.T1569T	ODZ1_uc011muj.1_Silent_p.T1575T|ODZ1_uc010nqy.2_Silent_p.T1576T	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1569	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CAGAATTGTAGGTGAAGTTAT	0.493													9	47	---	---	---	---	PASS	T	123554415	T	T	123554415	2	4	140	1	0	0	0	0	0	0	0	1	10834	987	35	3		3	ODZ1	23	123554415	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	14627865	123554415	31716145	318	50118										
OCRL	4952	broad.mit.edu	37	chrX	128724198	128724198	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gactccaagtgaccgccagcGtgctattcagttccttctgg	10	13	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:128724198G>C	uc004euq.2	+	24	2822	c.2657G>C	c.(2656-2658)CGT>CCT	p.R886P	OCRL_uc004eur.2_Missense_Mutation_p.R878P|OCRL_uc010nrb.2_RNA	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	886	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						GACCGCCAGCGTGCTATTCAG	0.502													36	161	---	---	---	---	PASS	C	128724198	C	C	128724198	3	2	140	1	0	0	0	0	1	0	0	0	10823	1145	40	4	2751	4	OCRL	23	128724198	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	5169783	128724198	26546362	319	50119										
ZDHHC9	51114	broad.mit.edu	37	chrX	128957775	128957775	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gaaattcttgatacgaggcgGtggtcgctggccctggggca	16	9	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:128957775G>T	uc004euv.2	-	4	736	c.367C>A	c.(367-369)CCG>ACG	p.P123T	ZDHHC9_uc004euw.2_Missense_Mutation_p.P123T|ZDHHC9_uc004eux.1_Missense_Mutation_p.P123T|ZDHHC9_uc004euy.1_Missense_Mutation_p.P50T	NM_001008222	NP_001008223	Q9Y397	ZDHC9_HUMAN	zinc finger, DHHC domain containing 9	123	Cytoplasmic (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1						ATACGAGGCGGTGGTCGCTGG	0.488													12	81	---	---	---	---	PASS	T	128957775	T	T	128957775	3	4	140	1	0	0	0	0	1	0	0	0	17619	1261	44	3	755	3	ZDHHC9	23	128957775	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	233577	128957775	26312785	320	50120										
RBMX	27316	broad.mit.edu	37	chrX	135961564	135961564	+	Missense_Mutation	SNP	C	A	A													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gcccaccaatgaagagctttCctgggcgatctgcttcaacc							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:135961564C>A	uc004fae.1	-	2	233	c.23G>T	c.(22-24)GGA>GTA	p.G8V	RBMX_uc011mwf.1_Missense_Mutation_p.G8V|RBMX_uc004fad.1_Missense_Mutation_p.G8V|RBMX_uc011mwg.1_5'UTR|RBMX_uc004faf.1_5'UTR|RBMX_uc010nsf.1_Intron|RBMX_uc004fag.1_Intron|SNORD61_uc004fah.1_5'Flank	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	8	RRM.					catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					GAAGAGCTTTCCTGGGCGATC	0.408													21	112	---	---	---	---	PASS	A	135961564	A	A	135961564	3	1	140	1	0	0	0	0	1	0	0	0	13151	855	30	2	1239	2	RBMX	23	135961564	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	7003789	135961564	19308996	321	50121	916	2								
RBMX	27316	broad.mit.edu	37	chrX	135961565	135961565	+	Nonsense_Mutation	SNP	C	A	A													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cccaccaatgaagagctttcCtgggcgatctgcttcaacca							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:135961565C>A	uc004fae.1	-	2	232	c.22G>T	c.(22-24)GGA>TGA	p.G8*	RBMX_uc011mwf.1_Nonsense_Mutation_p.G8*|RBMX_uc004fad.1_Nonsense_Mutation_p.G8*|RBMX_uc011mwg.1_Translation_Start_Site|RBMX_uc004faf.1_Translation_Start_Site|RBMX_uc010nsf.1_Intron|RBMX_uc004fag.1_Intron|SNORD61_uc004fah.1_5'Flank	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	8	RRM.					catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					AAGAGCTTTCCTGGGCGATCT	0.408													21	113	---	---	---	---	PASS	A	135961565	A	A	135961565	4	1	140	1	0	0	0	0	0	1	0	0	13151	690	24	3	1240	3	RBMX	23	135961565	Nonsense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	1	135961565	19308995	322	50122	916	2								
MAGEC2	51438	broad.mit.edu	37	chrX	141291217	141291217	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	aaagaagctccatgaactcaCgggctctcttgagtatcaca	8	11	3	3			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:141291217C>A	uc004fbu.1	-	3	905	c.557G>T	c.(556-558)CGT>CTT	p.R186L		NM_016249	NP_057333	Q9UBF1	MAGC2_HUMAN	melanoma antigen family C, 2	186	MAGE.					cytoplasm|nucleus				breast(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CATGAACTCACGGGCTCTCTT	0.483										HNSCC(46;0.14)			30	201	---	---	---	---	PASS	A	141291217	A	A	141291217	3	1	140	1	0	0	0	0	1	0	0	0	9181	536	19	1	568	1	MAGEC2	23	141291217	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	5329652	141291217	13979343	323	50123										
AFF2	2334	broad.mit.edu	37	chrX	148037578	148037578	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ggagcttcatgacccaccaaGaggccgcaacaaagccactg	10	14	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:148037578G>C	uc004fcp.2	+	11	2482	c.2003G>C	c.(2002-2004)AGA>ACA	p.R668T	AFF2_uc004fcq.2_Missense_Mutation_p.R658T|AFF2_uc004fcr.2_Missense_Mutation_p.R629T|AFF2_uc011mxb.1_Missense_Mutation_p.R633T|AFF2_uc004fcs.2_Missense_Mutation_p.R635T|AFF2_uc011mxc.1_Missense_Mutation_p.R309T	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	668					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					GACCCACCAAGAGGCCGCAAC	0.517													34	163	---	---	---	---	PASS	C	148037578	C	C	148037578	3	2	140	1	0	0	0	0	1	0	0	0	357	942	33	2	2100	2	AFF2	23	148037578	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	6746361	148037578	7232982	324	50124										
MTM1	4534	broad.mit.edu	37	chrX	149814185	149814185	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tggattcatccagaaaataaGacggtcattgtgcgttgcag	11	7	2	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:149814185G>T	uc004fef.3	+	9	784	c.708G>T	c.(706-708)AAG>AAT	p.K236N	MTM1_uc011mxx.1_RNA|MTM1_uc011mxy.1_Missense_Mutation_p.K199N|MTM1_uc011mxz.1_Missense_Mutation_p.K121N|MTM1_uc010nte.2_Missense_Mutation_p.K104N	NM_000252	NP_000243	Q13496	MTM1_HUMAN	myotubularin	236	Myotubularin phosphatase.				endosome to lysosome transport|intermediate filament organization|mitochondrion distribution|mitochondrion morphogenesis|phosphatidylinositol dephosphorylation|protein transport|regulation of vacuole organization	filopodium|late endosome|plasma membrane|ruffle	intermediate filament binding|phosphatidylinositol binding|phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CAGAAAATAAGACGGTCATTG	0.378													9	45	---	---	---	---	PASS	T	149814185	T	T	149814185	3	4	140	1	0	0	0	0	1	0	0	0	9937	933	33	2	738	2	MTM1	23	149814185	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1776607	149814185	5456375	325	50125										
GPR50	9248	broad.mit.edu	37	chrX	150345263	150345263	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	agctaccccagccagaatacCcaccggctctaatcatcttt	5	16	3	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:150345263C>A	uc010ntg.1	+	1	205	c.70C>A	c.(70-72)CCA>ACA	p.P24T	uc004fes.1_Intron|GPR50_uc011myc.1_Missense_Mutation_p.P24T	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	24	Extracellular (Potential).				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GCCAGAATACCCACCGGCTCT	0.522													14	70	---	---	---	---	PASS	A	150345263	A	A	150345263	3	1	140	1	0	0	0	0	1	0	0	0	6697	623	22	3	72	3	GPR50	23	150345263	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	531078	150345263	4925297	326	50126										
GPR50	9248	broad.mit.edu	37	chrX	150349094	150349094	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cccatgctcgcgaccaagctCgtgaacaagaccgtgcccat	9	16	0	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:150349094C>A	uc010ntg.1	+	2	1174	c.1039C>A	c.(1039-1041)CGT>AGT	p.R347S	uc004fes.1_5'Flank|GPR50_uc011myc.1_3'UTR	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	347	Cytoplasmic (Potential).|Pro-rich.				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CGACCAAGCTCGTGAACAAGA	0.592													5	85	---	---	---	---	PASS	A	150349094	A	A	150349094	3	1	140	1	0	0	0	0	1	0	0	0	6697	884	31	2	1045	2	GPR50	23	150349094	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	3831	150349094	4921466	327	50127										
CNGA2	1260	broad.mit.edu	37	chrX	150911903	150911903	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	gggtcgacacctgggtttacCcaaacatcactgaccctgag	10	13	1	2			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:150911903C>A	uc004fey.1	+	7	1152	c.928C>A	c.(928-930)CCA>ACA	p.P310T		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	310	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CTGGGTTTACCCAAACATCAC	0.493													8	175	---	---	---	---	PASS	A	150911903	A	A	150911903	3	1	140	1	0	0	0	0	1	0	0	0	3597	623	22	3	950	3	CNGA2	23	150911903	Missense_Mutation	SNP	C	TCGA-66-2734-01A-01D-0983-08	562809	150911903	4358657	328	50128										
CNGA2	1260	broad.mit.edu	37	chrX	150912080	150912080	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcatctttgccaccatcgtgGgaaatgtgggctccatgatc	10	11	2	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:150912080G>T	uc004fey.1	+	7	1329	c.1105G>T	c.(1105-1107)GGA>TGA	p.G369*		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	369	Helical; Name=H5; (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CACCATCGTGGGAAATGTGGG	0.512													19	103	---	---	---	---	PASS	T	150912080	T	T	150912080	4	4	140	1	0	0	0	0	0	1	0	0	3597	1233	43	3	1127	3	CNGA2	23	150912080	Nonsense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	177	150912080	4358480	329	50129										
MAGEA6	4105	broad.mit.edu	37	chrX	151870096	151870096	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctggagtaccggcaggtcccCggcagtgatcctgcatgcta	13	13	0	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:151870096C>T	uc004ffq.1	+	3	980	c.786C>T	c.(784-786)CCC>CCT	p.P262P	MAGEA6_uc004ffr.1_Silent_p.P262P|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	262	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					GGCAGGTCCCCGGCAGTGATC	0.527													22	120	---	---	---	---	PASS	T	151870096	T	T	151870096	2	4	140	1	0	0	0	0	0	0	0	1	9170	639	23	1		1	MAGEA6	23	151870096	Silent	SNP	C	TCGA-66-2734-01A-01D-0983-08	958016	151870096	3400464	330	50130										
PLXNB3	5365	broad.mit.edu	37	chrX	153043055	153043055	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	accggcccatccccatcgccGtcaagtacctgtttgacctt	7	17	1	1			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:153043055G>T	uc004fii.2	+	31	5347	c.5173G>T	c.(5173-5175)GTC>TTC	p.V1725F	PLXNB3_uc010nuk.2_Missense_Mutation_p.V1748F|PLXNB3_uc011mzd.1_Missense_Mutation_p.V1364F|SRPK3_uc004fik.2_5'UTR	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1725	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CCCCATCGCCGTCAAGTACCT	0.592													5	184	---	---	---	---	PASS	T	153043055	T	T	153043055	3	4	140	1	0	0	0	0	1	0	0	0	12125	1145	40	1	5409	1	PLXNB3	23	153043055	Missense_Mutation	SNP	G	TCGA-66-2734-01A-01D-0983-08	1172959	153043055	2227505	331	50131										
FLNA	2316	broad.mit.edu	37	chrX	153588595	153588595	+	Missense_Mutation	SNP	T	C	C													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	ctcaatggtcagctccgcgcTgcccgcgctcgagcagtcca							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:153588595T>C	uc004fkk.2	-	22	3817	c.3568A>G	c.(3568-3570)AGC>GGC	p.S1190G	FLNA_uc011mzn.1_5'Flank|FLNA_uc010nuu.1_Missense_Mutation_p.S1190G	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1190	Filamin 10.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AGCTCCGCGCTGCCCGCGCTC	0.642											OREG0003593	type=REGULATORY REGION|Gene=FLNA|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	5	36	---	---	---	---	PASS	C	153588595	C	C	153588595	3	2	140	1	0	0	0	0	1	0	0	0	5933	1580	55	5	4483	5	FLNA	23	153588595	Missense_Mutation	SNP	T	TCGA-66-2734-01A-01D-0983-08	545540	153588595	1681965	332	50132	917	2								
FLNA	2316	broad.mit.edu	37	chrX	153588596	153588596	+	Silent	SNP	G	T	T													0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	tcaatggtcagctccgcgctGcccgcgctcgagcagtccac							TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:153588596G>T	uc004fkk.2	-	22	3816	c.3567C>A	c.(3565-3567)GGC>GGA	p.G1189G	FLNA_uc011mzn.1_5'Flank|FLNA_uc010nuu.1_Silent_p.G1189G	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1189	Filamin 10.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GCTCCGCGCTGCCCGCGCTCG	0.642											OREG0003593	type=REGULATORY REGION|Gene=FLNA|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	5	36	---	---	---	---	PASS	T	153588596	T	T	153588596	2	4	140	1	0	0	0	0	0	0	0	1	5933	1306	46	3		3	FLNA	23	153588596	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	1	153588596	1681964	333	50133	917	2								
PLXNA3	55558	broad.mit.edu	37	chrX	153689015	153689015	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0184049079754601	6	0.961150398101648	0.60258029592205	0.525326411829479	0.650404128931736	0.669458177782262	0.925645401874291	0	cagggccaggggcccagcaaGctgtttgtgggcactgctgt	16	11	0	0			TCGA-66-2734-01A-01D-0983-08	TCGA-66-2734-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f7a24a2-10e2-4039-ad27-13d7ec28ff36	e18d5713-e75d-49ca-857e-0d974b3a0282	g.chrX:153689015G>A	uc004flm.2	+	2	665	c.492G>A	c.(490-492)AAG>AAA	p.K164K		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	164	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGCCCAGCAAGCTGTTTGTGG	0.627													26	90	---	---	---	---	PASS	A	153689015	A	A	153689015	2	1	140	1	0	0	0	0	0	0	0	1	12121	962	34	3		3	PLXNA3	23	153689015	Silent	SNP	G	TCGA-66-2734-01A-01D-0983-08	100419	153689015	1581545	334	50134										
VPS13D	55187	broad.mit.edu	37	chr1	12318100	12318100	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	caccgcgctcgtgatgctgtAtcttacactgacaaatattt	7	11	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:12318100A>G	uc001atv.2	+	10	1191	c.1050A>G	c.(1048-1050)GTA>GTG	p.V350V	VPS13D_uc001atw.2_Silent_p.V350V	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	350					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		GTGATGCTGTATCTTACACTG	0.428													39	36	---	---	---	---	PASS	G	12318100	G	G	12318100	2	3	141	1	0	0	0	0	0	0	0	1	17189	436	16	5		5	VPS13D	1	12318100	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08		12318100	236932521	1	50135										
LAPTM5	7805	broad.mit.edu	37	chr1	31212756	31212756	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agtccatgatttgcagggacAggaagggcagcaggtacttc	14	8	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:31212756A>G	uc001bsc.2	-	4	378	c.287T>C	c.(286-288)CTG>CCG	p.L96P		NM_006762	NP_006753	Q13571	LAPM5_HUMAN	lysosomal protein transmembrane 5	96	Helical; (Potential).				transport	integral to plasma membrane|lysosomal membrane					0		Colorectal(325;0.0199)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0966)|Medulloblastoma(700;0.151)|Ovarian(437;0.192)		STAD - Stomach adenocarcinoma(196;0.0196)|READ - Rectum adenocarcinoma(331;0.0649)		TTGCAGGGACAGGAAGGGCAG	0.607													8	13	---	---	---	---	PASS	G	31212756	G	G	31212756	3	3	141	1	0	0	0	0	1	0	0	0	8626	188	7	5	521	5	LAPTM5	1	31212756	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	18894656	31212756	218037865	2	50136										
ZSCAN20	7579	broad.mit.edu	37	chr1	33945088	33945088	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gggatgcagctggaccccacGaggccttcagccagctctgg	14	14	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:33945088G>T	uc001bxj.3	+	2	366	c.199G>T	c.(199-201)GAG>TAG	p.E67*	ZSCAN20_uc001bxk.2_Nonsense_Mutation_p.E67*|ZSCAN20_uc009vui.2_Nonsense_Mutation_p.E67*	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	67	SCAN box.				viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				TGGACCCCACGAGGCCTTCAG	0.612													18	36	---	---	---	---	PASS	T	33945088	T	T	33945088	4	4	141	1	0	0	0	0	0	1	0	0	18229	1059	37	2	201	2	ZSCAN20	1	33945088	Nonsense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	2732332	33945088	215305533	3	50137										
TNNI3K	51086	broad.mit.edu	37	chr1	74801765	74801765	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agttggagatagacccctccAcctagcatctgcaaaaggat	9	11	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:74801765A>G	uc001dgf.1	+	7	665	c.614A>G	c.(613-615)CAC>CGC	p.H205R	TNNI3K_uc001dgc.1_Missense_Mutation_p.H306R|TNNI3K_uc001dgd.2_Missense_Mutation_p.H306R|TNNI3K_uc001dge.1_Missense_Mutation_p.H306R	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	205	ANK 5.					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						AGACCCCTCCACCTAGCATCT	0.358													17	31	---	---	---	---	PASS	G	74801765	G	G	74801765	3	3	141	1	0	0	0	0	1	0	0	0	16326	159	6	5	995	5	TNNI3K	1	74801765	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	40856677	74801765	174448856	4	50138										
EVI5	7813	broad.mit.edu	37	chr1	93160930	93160930	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggaaaagttgtaagaaagatAgtcagaaaccaggatgatgc	12	4	1	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:93160930A>C	uc001dox.2	-	7	988	c.978T>G	c.(976-978)ACT>ACG	p.T326T	EVI5_uc010otf.1_Silent_p.T326T|EVI5_uc001doy.1_5'Flank	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	326	Dimerization.|Interaction with alpha-tubulin, gamma- tubulin, BIRC5 and FBXO5.|Rab-GAP TBC.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		TAAGAAAGATAGTCAGAAACC	0.373													23	66	---	---	---	---	PASS	C	93160930	C	C	93160930	2	2	141	1	0	0	0	0	0	0	0	1	5289	407	15	5		5	EVI5	1	93160930	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08	18359165	93160930	156089691	5	50139										
CCDC18	343099	broad.mit.edu	37	chr1	93730454	93730454	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgcaaatgaagcattacttaCtaaagtaagtaaacatataa	5	5	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:93730454C>A	uc001dpq.2	+	27	4403	c.4235C>A	c.(4234-4236)ACT>AAT	p.T1412N	CCDC18_uc001dpr.1_Missense_Mutation_p.T207N|uc001dps.2_Intron	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	1293	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		GCATTACTTACTAAAGTAAGT	0.303													6	32	---	---	---	---	PASS	A	93730454	A	A	93730454	3	1	141	1	0	0	0	0	1	0	0	0	2794	565	20	3	4341	3	CCDC18	1	93730454	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	569524	93730454	155520167	6	50140										
ABCA4	24	broad.mit.edu	37	chr1	94473855	94473855	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tggaggtgcctggataaatcTgcaagatacgaagaaaccgg	13	7	1	2	rs61750637		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:94473855T>C	uc001dqh.2	-	42	5940	c.5836_splice	c.e42-1	p.I1946_splice	ABCA4_uc001dqi.1_Splice_Site_p.I65_splice	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4						phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		TGGATAAATCTGCAAGATACG	0.542													9	25	---	---	---	---	PASS	C	94473855	C	C	94473855	5	2	141	1	0	0	0	0	0	0	1	0	34	1594	55	5	1023	5	ABCA4	1	94473855	Splice_Site	SNP	T	TCGA-66-2742-01A-01D-0983-08	743401	94473855	154776766	7	50141										
PRPF38B	55119	broad.mit.edu	37	chr1	109242502	109242502	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aagaaaaatctagaaagcgtAgtagaagcaaagaacgttcc	9	6	1	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:109242502A>T	uc001dvv.3	+	6	1783	c.1501A>T	c.(1501-1503)AGT>TGT	p.S501C	PRPF38B_uc001dvw.3_Missense_Mutation_p.S390C|PRPF38B_uc010ouz.1_Missense_Mutation_p.S304C	NM_018061	NP_060531	Q5VTL8	PR38B_HUMAN	PRP38 pre-mRNA processing factor 38 (yeast)	501					mRNA processing|RNA splicing	spliceosomal complex					0		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0149)|Lung(183;0.0888)|COAD - Colon adenocarcinoma(174;0.113)|Epithelial(280;0.161)		TAGAAAGCGTAGTAGAAGCAA	0.408													47	187	---	---	---	---	PASS	T	109242502	T	T	109242502	3	4	141	1	0	0	0	0	1	0	0	0	12568	420	15	5	1523	5	PRPF38B	1	109242502	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	14768647	109242502	140008119	8	50142										
CD101	9398	broad.mit.edu	37	chr1	117576499	117576499	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cagagcccacgcttccttccAggatctgctcctcggcccct	8	19	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:117576499A>G	uc010oxb.1	+	9	2900	c.2842A>G	c.(2842-2844)AGG>GGG	p.R948G	CD101_uc009whd.2_Missense_Mutation_p.R948G|CD101_uc010oxc.1_Missense_Mutation_p.R948G|CD101_uc010oxd.1_Missense_Mutation_p.R886G	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	948	Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GCTTCCTTCCAGGATCTGCTC	0.478													6	50	---	---	---	---	PASS	G	117576499	G	G	117576499	3	3	141	1	0	0	0	0	1	0	0	0	2962	179	7	5	2876	5	CD101	1	117576499	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	8333997	117576499	131674122	9	50143										
TTF2	8458	broad.mit.edu	37	chr1	117631571	117631571	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgtcactggaacccccattcAaaacaacttattggatatgt	6	10	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:117631571A>G	uc001egy.2	+	13	2329	c.2309A>G	c.(2308-2310)CAA>CGA	p.Q770R		NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	770	Helicase ATP-binding.				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		ACCCCCATTCAAAACAACTTA	0.438													43	63	---	---	---	---	PASS	G	117631571	G	G	117631571	3	3	141	1	0	0	0	0	1	0	0	0	16716	130	5	5	2359	5	TTF2	1	117631571	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	55072	117631571	131619050	10	50144										
ITGA10	8515	broad.mit.edu	37	chr1	145537199	145537199	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cccttctcaaaggattgtggCcctgacaatgaatgtgtcac	9	11	2	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:145537199C>T	uc001eoa.2	+	19	2446	c.2370C>T	c.(2368-2370)GGC>GGT	p.G790G	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Silent_p.G659G|ITGA10_uc009wiw.2_Silent_p.G647G|ITGA10_uc010oyw.1_Silent_p.G735G	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	790	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					AGGATTGTGGCCCTGACAATG	0.493													11	87	---	---	---	---	PASS	T	145537199	T	T	145537199	2	4	141	1	0	0	0	0	0	0	0	1	7873	726	26	3		3	ITGA10	1	145537199	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	27905628	145537199	103713422	11	50145										
TPM3	7170	broad.mit.edu	37	chr1	154145418	154145418	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agctcgttcctctgtgcgttCcaagtctccttcaatgatca	7	13	4	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:154145418C>A	uc001fec.1	-	5	647	c.532G>T	c.(532-534)GAA>TAA	p.E178*	TPM3_uc001fdx.1_5'Flank|TPM3_uc010pei.1_Nonsense_Mutation_p.E51*|TPM3_uc001fdy.1_Nonsense_Mutation_p.E141*|TPM3_uc001fdz.1_Nonsense_Mutation_p.E141*|TPM3_uc001fea.1_Nonsense_Mutation_p.E141*|TPM3_uc001feb.1_Nonsense_Mutation_p.E141*|TPM3_uc010pej.1_Nonsense_Mutation_p.E74*|TPM3_uc009wor.2_Intron|TPM3_uc001fed.1_Nonsense_Mutation_p.E141*	NM_152263	NP_689476	P06753	TPM3_HUMAN	tropomyosin 3 isoform 1	177	By similarity.				cellular component movement|muscle filament sliding|regulation of muscle contraction	cytosol|muscle thin filament tropomyosin|stress fiber	actin binding		TPM3/ALK(33)	haematopoietic_and_lymphoid_tissue(22)|soft_tissue(11)|skin(1)	34	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)					TCTGTGCGTTCCAAGTCTCCT	0.473			T	NTRK1|ALK	papillary thyroid|ALCL								38	131	---	---	---	---	PASS	A	154145418	A	A	154145418	4	1	141	1	0	0	0	0	0	1	0	0	16404	864	30	2	600	2	TPM3	1	154145418	Nonsense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	8608219	154145418	95105203	12	50146										
CD5L	922	broad.mit.edu	37	chr1	157805945	157805945	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gccgcactccagatggagacGctgcaaagagacgggttgtt	14	10	0	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:157805945G>T	uc001frk.3	-	3	199	c.56C>A	c.(55-57)GCG>GAG	p.A19E		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	19					apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			AGATGGAGACGCTGCAAAGAG	0.592													9	33	---	---	---	---	PASS	T	157805945	T	T	157805945	3	4	141	1	0	0	0	0	1	0	0	0	3027	1101	38	1	1003	1	CD5L	1	157805945	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	3660527	157805945	91444676	13	50147										
OR10T2	128360	broad.mit.edu	37	chr1	158368446	158368446	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggtcactgccaccaactgatCcttgtctgaggcagacttgg	11	12	2	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:158368446C>G	uc010pih.1	-	1	811	c.811G>C	c.(811-813)GAT>CAT	p.D271H		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	271	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					ACCAACTGATCCTTGTCTGAG	0.473													15	46	---	---	---	---	PASS	G	158368446	G	G	158368446	3	3	141	1	0	0	0	0	1	0	0	0	10919	855	30	2	135	2	OR10T2	1	158368446	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	562501	158368446	90882175	14	50148										
OR10K1	391109	broad.mit.edu	37	chr1	158435542	158435542	+	Frame_Shift_Del	DEL	C	-	-													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tcccatgtacttcttccttgCcatcctttcttgctctgaga							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:158435542delC	uc010pij.1	+	1	191	c.191delC	c.(190-192)GCCfs	p.A64fs		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TTCTTCCTTGCCATCCTTTCT	0.478													106	93	---	---	---	---		-	158435542	-	-	158435542	7	5	141	1	0	1	0	1	0	0	0	0	10913	739	26	0	193	0	OR10K1	1	158435542	Frame_Shift_Del	DEL	C	TCGA-66-2742-01A-01D-0983-08	67096	158435542	90815079	15	50149										
DARC	2532	broad.mit.edu	37	chr1	159175948	159175948	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggcattgggtatggggccagGcccctggatgaatatcctgt	15	9	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:159175948G>A	uc001fto.2	+	2	959	c.719G>A	c.(718-720)GGC>GAC	p.G240D	DARC_uc001ftp.3_Missense_Mutation_p.G242D	NM_002036	NP_002027	Q16570	DUFFY_HUMAN	Duffy blood group antigen isoform b	240	Cytoplasmic (Potential).				defense response	integral to membrane|plasma membrane	C-C chemokine binding|chemokine receptor activity			ovary(1)|lung(1)	2	all_hematologic(112;0.0429)					ATGGGGCCAGGCCCCTGGATG	0.537													30	104	---	---	---	---	PASS	A	159175948	A	A	159175948	3	1	141	1	0	0	0	0	1	0	0	0	4240	1203	42	3	752	3	DARC	1	159175948	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	740406	159175948	90074673	16	50150										
IGSF8	93185	broad.mit.edu	37	chr1	160062403	160062403	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cctggggggccaccccgcacAgagatgttgcacagcaggga	15	13	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:160062403A>T	uc001fva.2	-	5	1440	c.1395T>A	c.(1393-1395)TCT>TCA	p.S465S	IGSF8_uc001fuz.2_Silent_p.S465S|IGSF8_uc009wtf.2_Silent_p.S465S	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	465	Ig-like C2-type 4.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CACCCCGCACAGAGATGTTGC	0.662													22	7	---	---	---	---	PASS	T	160062403	T	T	160062403	2	4	141	1	0	0	0	0	0	0	0	1	7604	175	7	5		5	IGSF8	1	160062403	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08	886455	160062403	89188218	17	50151										
SELP	6403	broad.mit.edu	37	chr1	169581631	169581631	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	caggaatcttcaggggtgggCactgggcagctaaaaccaac	13	10	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:169581631C>T	uc001ggi.3	-	6	850	c.785G>A	c.(784-786)TGC>TAC	p.C262Y	SELP_uc001ggh.2_Missense_Mutation_p.C97Y|SELP_uc009wvr.2_Missense_Mutation_p.C262Y	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	262	Extracellular (Potential).|Sushi 2.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	CAGGGGTGGGCACTGGGCAGC	0.473													19	65	---	---	---	---	PASS	T	169581631	T	T	169581631	3	4	141	1	0	0	0	0	1	0	0	0	14019	710	25	3	1751	3	SELP	1	169581631	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	9519228	169581631	79668990	18	50152										
C1orf9	51430	broad.mit.edu	37	chr1	172520726	172520726	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	atattactctcaagatgacaActgcgcactagaaaatgaag	7	8	1	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:172520726A>G	uc001giq.3	+	2	453	c.137A>G	c.(136-138)AAC>AGC	p.N46S	C1orf9_uc010pmm.1_Missense_Mutation_p.N46S|C1orf9_uc009wwd.2_Missense_Mutation_p.N46S|C1orf9_uc010pmn.1_Missense_Mutation_p.N46S|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	46					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		CAAGATGACAACTGCGCACTA	0.398													6	46	---	---	---	---	PASS	G	172520726	G	G	172520726	3	3	141	1	0	0	0	0	1	0	0	0	2067	43	2	5	143	5	C1orf9	1	172520726	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	2939095	172520726	76729895	19	50153										
ASPM	259266	broad.mit.edu	37	chr1	197056045	197056045	+	Missense_Mutation	SNP	C	A	A													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	attcattttatgtttatgagCtgtaagtttgtagagactgt							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:197056045C>A	uc001gtu.2	-	27	10476	c.10219G>T	c.(10219-10221)GCT>TCT	p.A3407S	ASPM_uc001gtv.2_Missense_Mutation_p.A1822S	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	3407					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TGTTTATGAGCTGTAAGTTTG	0.318													7	25	---	---	---	---	PASS	A	197056045	A	A	197056045	3	1	141	1	0	0	0	0	1	0	0	0	1056	797	28	3	222	3	ASPM	1	197056045	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	24535319	197056045	52194576	20	50154	918	2								
ASPM	259266	broad.mit.edu	37	chr1	197056046	197056046	+	Silent	SNP	T	A	A													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttcattttatgtttatgagcTgtaagtttgtagagactgta							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:197056046T>A	uc001gtu.2	-	27	10475	c.10218A>T	c.(10216-10218)ACA>ACT	p.T3406T	ASPM_uc001gtv.2_Silent_p.T1821T	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	3406					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GTTTATGAGCTGTAAGTTTGT	0.313													7	25	---	---	---	---	PASS	A	197056046	A	A	197056046	2	1	141	1	0	0	0	0	0	0	0	1	1056	1567	55	5		5	ASPM	1	197056046	Silent	SNP	T	TCGA-66-2742-01A-01D-0983-08	1	197056046	52194575	21	50155	918	2								
C1orf106	55765	broad.mit.edu	37	chr1	200869268	200869268	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgccagcggagtatcccctcAaaccaggggaaaaggccccc	11	15	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:200869268A>G	uc001gvo.2	+	4	502	c.472A>G	c.(472-474)AAA>GAA	p.K158E	C1orf106_uc010ppm.1_Missense_Mutation_p.K73E	NM_018265	NP_060735	Q3KP66	CA106_HUMAN	hypothetical protein LOC55765 isoform 1	158										skin(2)|ovary(1)	3						GTATCCCCTCAAACCAGGGGA	0.622													4	25	---	---	---	---	PASS	G	200869268	G	G	200869268	3	3	141	1	0	0	0	0	1	0	0	0	1980	131	5	5	486	5	C1orf106	1	200869268	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	3813222	200869268	48381353	22	50156										
NFASC	23114	broad.mit.edu	37	chr1	204971757	204971757	+	Missense_Mutation	SNP	C	A	A													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aaaaactgtcccagttaaggCccaggctcagcctatacagc							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:204971757C>A	uc001hbj.2	+	27	3498	c.3170C>A	c.(3169-3171)GCC>GAC	p.A1057D	NFASC_uc010pra.1_Intron|NFASC_uc001hbi.2_Intron|NFASC_uc010prb.1_Intron|NFASC_uc010prc.1_Intron|NFASC_uc001hbl.1_Intron|NFASC_uc001hbm.1_Missense_Mutation_p.A80D|NFASC_uc009xbh.1_Intron	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	1164	Extracellular (Potential).|Fibronectin type-III 5.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			CCAGTTAAGGCCCAGGCTCAG	0.547													4	18	---	---	---	---	PASS	A	204971757	A	A	204971757	3	1	141	1	0	0	0	0	1	0	0	0	10359	739	26	3	3681	3	NFASC	1	204971757	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	4102489	204971757	44278864	23	50157	919	2								
NFASC	23114	broad.mit.edu	37	chr1	204971758	204971758	+	Silent	SNP	C	A	A													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aaaactgtcccagttaaggcCcaggctcagcctatacagct							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:204971758C>A	uc001hbj.2	+	27	3499	c.3171C>A	c.(3169-3171)GCC>GCA	p.A1057A	NFASC_uc010pra.1_Intron|NFASC_uc001hbi.2_Intron|NFASC_uc010prb.1_Intron|NFASC_uc010prc.1_Intron|NFASC_uc001hbl.1_Intron|NFASC_uc001hbm.1_Silent_p.A80A|NFASC_uc009xbh.1_Intron	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	1164	Extracellular (Potential).|Fibronectin type-III 5.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			CAGTTAAGGCCCAGGCTCAGC	0.542													4	18	---	---	---	---	PASS	A	204971758	A	A	204971758	2	1	141	1	0	0	0	0	0	0	0	1	10359	610	22	3		3	NFASC	1	204971758	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	1	204971758	44278863	24	50158	919	2								
CR2	1380	broad.mit.edu	37	chr1	207641891	207641891	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gttttccctctcgagtgtccAgcacttcctatgatccacaa	6	14	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:207641891A>T	uc001hfw.2	+	3	559	c.465A>T	c.(463-465)CCA>CCT	p.P155P	CR2_uc001hfv.2_Silent_p.P155P|CR2_uc009xch.2_Silent_p.P155P|CR2_uc009xci.1_5'Flank	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	155	Sushi 3.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TCGAGTGTCCAGCACTTCCTA	0.398													10	38	---	---	---	---	PASS	T	207641891	T	T	207641891	2	4	141	1	0	0	0	0	0	0	0	1	3842	175	7	5		5	CR2	1	207641891	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08	2670133	207641891	41608730	25	50159										
KCNH1	3756	broad.mit.edu	37	chr1	210948803	210948803	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cttgatcacatgcagatcacAgtaggtcaaggccctaacat	8	11	3	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:210948803A>G	uc001hib.2	-	10	2169	c.1999T>C	c.(1999-2001)TGT>CGT	p.C667R	KCNH1_uc001hic.2_Missense_Mutation_p.C640R	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	667	Cytoplasmic (Potential).|cNMP.				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		TGCAGATCACAGTAGGTCAAG	0.517													11	49	---	---	---	---	PASS	G	210948803	G	G	210948803	3	3	141	1	0	0	0	0	1	0	0	0	8031	188	7	5	978	5	KCNH1	1	210948803	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	3306912	210948803	38301818	26	50160										
GALNT2	2590	broad.mit.edu	37	chr1	230401027	230401027	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tagcttttggggccttgcagCagggaactaactgcctcgac	12	11	0	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:230401027C>G	uc010pwa.1	+	14	1426	c.1354C>G	c.(1354-1356)CAG>GAG	p.Q452E	GALNT2_uc010pvy.1_Missense_Mutation_p.Q414E|GALNT2_uc010pvz.1_RNA|GALNT2_uc001htu.2_Missense_Mutation_p.Q64E	NM_004481	NP_004472	Q10471	GALT2_HUMAN	polypeptide N-acetylgalactosaminyltransferase 2	452	Lumenal (Potential).|Ricin B-type lectin.				immunoglobulin biosynthetic process|protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2	Breast(184;0.193)|Ovarian(103;0.249)	all_cancers(173;0.156)|Prostate(94;0.179)				GGCCTTGCAGCAGGGAACTAA	0.517													54	135	---	---	---	---	PASS	G	230401027	G	G	230401027	3	3	141	1	0	0	0	0	1	0	0	0	6213	711	25	4	1408	4	GALNT2	1	230401027	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	19452224	230401027	18849594	27	50161										
CAPN9	10753	broad.mit.edu	37	chr1	230914830	230914830	+	Missense_Mutation	SNP	G	T	T													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgggaggtgacggtccatcaGggaagctgggttcgcggctc							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:230914830G>T	uc001htz.1	+	9	1178	c.1065G>T	c.(1063-1065)CAG>CAT	p.Q355H	CAPN9_uc009xfg.1_Missense_Mutation_p.Q292H|CAPN9_uc001hua.1_Missense_Mutation_p.Q329H	NM_006615	NP_006606	O14815	CAN9_HUMAN	calpain 9 isoform 1	355	Domain III.				digestion|proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)				CGGTCCATCAGGGAAGCTGGG	0.587													11	24	---	---	---	---	PASS	T	230914830	T	T	230914830	3	4	141	1	0	0	0	0	1	0	0	0	2632	991	35	3	1099	3	CAPN9	1	230914830	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	513803	230914830	18335791	28	50162	920	2								
CAPN9	10753	broad.mit.edu	37	chr1	230914831	230914831	+	Nonsense_Mutation	SNP	G	T	T													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gggaggtgacggtccatcagGgaagctgggttcgcggctcc							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:230914831G>T	uc001htz.1	+	9	1179	c.1066G>T	c.(1066-1068)GGA>TGA	p.G356*	CAPN9_uc009xfg.1_Nonsense_Mutation_p.G293*|CAPN9_uc001hua.1_Nonsense_Mutation_p.G330*	NM_006615	NP_006606	O14815	CAN9_HUMAN	calpain 9 isoform 1	356	Domain III.				digestion|proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)				GGTCCATCAGGGAAGCTGGGT	0.592													10	24	---	---	---	---	PASS	T	230914831	T	T	230914831	4	4	141	1	0	0	0	0	0	1	0	0	2632	1233	43	3	1100	3	CAPN9	1	230914831	Nonsense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	1	230914831	18335790	29	50163	920	2								
LYST	1130	broad.mit.edu	37	chr1	235860456	235860456	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	attgctctggtgggcagagcCtggagagagccaaatctttc	13	9	2	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:235860456C>A	uc001hxj.2	-	46	10666	c.10491G>T	c.(10489-10491)CAG>CAT	p.Q3497H	LYST_uc001hxi.2_Missense_Mutation_p.Q721H	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3497					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TGGGCAGAGCCTGGAGAGAGC	0.478									Chediak-Higashi_syndrome				21	38	---	---	---	---	PASS	A	235860456	A	A	235860456	3	1	141	1	0	0	0	0	1	0	0	0	9128	680	24	3	946	3	LYST	1	235860456	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	4945625	235860456	13390165	30	50164										
ERO1LB	56605	broad.mit.edu	37	chr1	236389765	236389765	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggtttccacagggtcaaagcGgtgtttgaattctttaatat	10	6	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:236389765G>T	uc001hxt.2	-	12	1112	c.856C>A	c.(856-858)CGC>AGC	p.R286S		NM_019891	NP_063944	Q86YB8	ERO1B_HUMAN	endoplasmic reticulum oxidoreductin 1-Lbeta	286		FAD (By similarity).			electron transport chain|protein thiol-disulfide exchange|transport	endoplasmic reticulum membrane	flavin adenine dinucleotide binding|oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor|unfolded protein binding				0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.123)|Acute lymphoblastic leukemia(190;0.205)|Prostate(94;0.219)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			GGGTCAAAGCGGTGTTTGAAT	0.393													14	34	---	---	---	---	PASS	T	236389765	T	T	236389765	3	4	141	1	0	0	0	0	1	0	0	0	5240	1116	39	1	567	1	ERO1LB	1	236389765	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	529309	236389765	12860856	31	50165										
OR2T33	391195	broad.mit.edu	37	chr1	248436713	248436713	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tcctcaggcacagctgccagCtcatgagagtgggatatcgg	13	11	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:248436713C>T	uc010pzi.1	-	1	404	c.404G>A	c.(403-405)AGC>AAC	p.S135N		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CAGCTGCCAGCTCATGAGAGT	0.592													10	76	---	---	---	---	PASS	T	248436713	T	T	248436713	3	4	141	1	0	0	0	0	1	0	0	0	11024	797	28	3	561	3	OR2T33	1	248436713	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	12046948	248436713	813908	32	50166										
SNTG2	54221	broad.mit.edu	37	chr2	1204904	1204904	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctcaaggtacaaagccggaaCggaaaaattaaggtgtgtga	12	6	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:1204904C>T	uc002qwq.2	+	9	835	c.707C>T	c.(706-708)ACG>ATG	p.T236M	SNTG2_uc010ewi.2_Missense_Mutation_p.T109M	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	236					central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		AAAGCCGGAACGGAAAAATTA	0.542													8	122	---	---	---	---	PASS	T	1204904	T	T	1204904	3	4	141	1	0	0	0	0	1	0	0	0	14875	536	19	1	741	1	SNTG2	2	1204904	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08		1204904	241994469	33	50167										
PXDN	7837	broad.mit.edu	37	chr2	1652584	1652584	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gttgtgctcgcggaaccacaGcgtgtgcatgctggtcaggc	15	11	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:1652584G>T	uc002qxa.2	-	17	3032	c.2968C>A	c.(2968-2970)CTG>ATG	p.L990M		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	990					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CGGAACCACAGCGTGTGCATG	0.647													3	8	---	---	---	---	PASS	T	1652584	T	T	1652584	3	4	141	1	0	0	0	0	1	0	0	0	12847	962	34	3	1499	3	PXDN	2	1652584	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	447680	1652584	241546789	34	50168										
APOB	338	broad.mit.edu	37	chr2	21231683	21231683	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gatatatatctggaacgggcCactgcagctcactgttcagc	10	11	3	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:21231683C>T	uc002red.2	-	26	8185	c.8057G>A	c.(8056-8058)TGG>TAG	p.W2686*		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2686					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TGGAACGGGCCACTGCAGCTC	0.443													19	92	---	---	---	---	PASS	T	21231683	T	T	21231683	4	4	141	1	0	0	0	0	0	1	0	0	785	595	21	3	5650	3	APOB	2	21231683	Nonsense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	19579099	21231683	221967690	35	50169										
MPV17	4358	broad.mit.edu	37	chr2	27535960	27535960	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgctgtgagataatgtcaccCaggcccatcagggaccctat	10	12	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:27535960C>A	uc002rjr.2	-	2	134	c.87G>T	c.(85-87)CTG>CTT	p.L29L	MPV17_uc002rjq.2_Silent_p.L29L|MPV17_uc002rjs.2_Silent_p.L29L|MPV17_uc002rjt.2_Intron	NM_002437	NP_002428	P39210	MPV17_HUMAN	Mpv17 protein	29	Helical; (Potential).				cellular response to reactive oxygen species|glomerular basement membrane development|homeostatic process|inner ear development|mitochondrial genome maintenance|regulation of reactive oxygen species metabolic process	integral to peroxisomal membrane|mitochondrial inner membrane					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TAATGTCACCCAGGCCCATCA	0.602													21	34	---	---	---	---	PASS	A	27535960	A	A	27535960	2	1	141	1	0	0	0	0	0	0	0	1	9745	581	21	3		3	MPV17	2	27535960	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	6304277	27535960	215663413	36	50170										
ALK	238	broad.mit.edu	37	chr2	29917817	29917817	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gccaggaccagctctggttcCtgaggtcatgcagtggaggg	16	10	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:29917817C>T	uc002rmy.2	-	3	1758	c.851G>A	c.(850-852)AGG>AAG	p.R284K		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	284	MAM 1.|Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	GCTCTGGTTCCTGAGGTCATG	0.572			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				13	63	---	---	---	---	PASS	T	29917817	T	T	29917817	3	4	141	1	0	0	0	0	1	0	0	0	525	681	24	3	4119	3	ALK	2	29917817	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	2381857	29917817	213281556	37	50171										
ZNF638	27332	broad.mit.edu	37	chr2	71654035	71654035	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agatctcctcaaacaggaacGcttggtaactgtggatgaaa	10	8	2	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:71654035G>A	uc002shx.2	+	24	5355	c.5036G>A	c.(5035-5037)CGC>CAC	p.R1679H	ZNF638_uc002shy.2_Missense_Mutation_p.R1679H|ZNF638_uc002shz.2_Missense_Mutation_p.R1679H|ZNF638_uc002sia.2_Missense_Mutation_p.R1679H|ZNF638_uc002sib.1_3'UTR|ZNF638_uc010fed.2_Intron|ZNF638_uc002sic.2_Missense_Mutation_p.R776H|ZNF638_uc002sid.2_Missense_Mutation_p.R48H	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1679					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AAACAGGAACGCTTGGTAACT	0.393													22	49	---	---	---	---	PASS	A	71654035	A	A	71654035	3	1	141	1	0	0	0	0	1	0	0	0	18052	1087	38	1	5126	1	ZNF638	2	71654035	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	41736218	71654035	171545338	38	50172										
C2orf78	388960	broad.mit.edu	37	chr2	74043169	74043169	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aaaccattcccaatatgaaaCggaagaaaaatcaacctgag	6	9	1	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:74043169C>A	uc002sjr.1	+	3	1940	c.1819C>A	c.(1819-1821)CGG>AGG	p.R607R		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	607	Lys-rich.									ovary(2)	2						CAATATGAAACGGAAGAAAAA	0.443													12	89	---	---	---	---	PASS	A	74043169	A	A	74043169	2	1	141	1	0	0	0	0	0	0	0	1	2195	527	19	1		1	C2orf78	2	74043169	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	2389134	74043169	169156204	39	50173										
HK2	3099	broad.mit.edu	37	chr2	75101429	75101429	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctgctacatggaagagatgcGccacatcgacatggtggaag	13	9	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:75101429G>T	uc002snd.2	+	7	2654	c.728G>T	c.(727-729)CGC>CTC	p.R243L		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	243	Regulatory.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						GAAGAGATGCGCCACATCGAC	0.612													5	25	---	---	---	---	PASS	T	75101429	T	T	75101429	3	4	141	1	0	0	0	0	1	0	0	0	7191	1087	38	1	754	1	HK2	2	75101429	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	1058260	75101429	168097944	40	50174										
LRRTM1	347730	broad.mit.edu	37	chr2	80530229	80530229	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ccaccttgttcctccgcaggCagagcgagtgcagggagatg	14	12	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:80530229C>A	uc002sok.1	-	2	986	c.716G>T	c.(715-717)TGC>TTC	p.C239F	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	239	LRR 7.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						CCTCCGCAGGCAGAGCGAGTG	0.582										HNSCC(69;0.2)			14	67	---	---	---	---	PASS	A	80530229	A	A	80530229	3	1	141	1	0	0	0	0	1	0	0	0	9039	710	25	3	856	3	LRRTM1	2	80530229	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	5428800	80530229	162669144	41	50175										
CD8A	925	broad.mit.edu	37	chr2	87017709	87017709	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cgagcagcccgacgtcgggtTggacagcagcacctggcact	14	14	0	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:87017709T>C	uc002srt.2	-	2	1034	c.145A>G	c.(145-147)AAC>GAC	p.N49D	RMND5A_uc002srs.3_Intron|CD8A_uc002srv.2_Missense_Mutation_p.N49D|CD8A_uc010ytn.1_Missense_Mutation_p.N90D|CD8A_uc002sru.2_Missense_Mutation_p.N49D	NM_001768	NP_001759	P01732	CD8A_HUMAN	CD8 antigen alpha polypeptide isoform 1	49	Ig-like V-type.|Extracellular (Potential).				antigen processing and presentation|regulation of immune response|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			ovary(1)	1						GACGTCGGGTTGGACAGCAGC	0.682													6	42	---	---	---	---	PASS	C	87017709	C	C	87017709	3	2	141	1	0	0	0	0	1	0	0	0	3044	1812	63	5	582	5	CD8A	2	87017709	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	6487480	87017709	156181664	42	50176										
TEKT4	150483	broad.mit.edu	37	chr2	95542358	95542358	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gcactgcgagagaagcttctAgaagcggagcagtccctgcg	14	11	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:95542358A>G	uc002stw.1	+	6	1245	c.1152A>G	c.(1150-1152)CTA>CTG	p.L384L	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	384	Potential.				cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						AGAAGCTTCTAGAAGCGGAGC	0.602													9	16	---	---	---	---	PASS	G	95542358	G	G	95542358	2	3	141	1	0	0	0	0	0	0	0	1	15752	407	15	5		5	TEKT4	2	95542358	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08	8524649	95542358	147657015	43	50177										
CNTNAP5	129684	broad.mit.edu	37	chr2	125367414	125367414	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctgcgaggtgtacaggcaccAggggaatacagccggcttct	14	11	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:125367414A>C	uc002tno.2	+	12	2154	c.1790A>C	c.(1789-1791)CAG>CCG	p.Q597P	CNTNAP5_uc010flu.2_Missense_Mutation_p.Q598P	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	597	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TACAGGCACCAGGGGAATACA	0.532													20	46	---	---	---	---	PASS	C	125367414	C	C	125367414	3	2	141	1	0	0	0	0	1	0	0	0	3650	188	7	5	1836	5	CNTNAP5	2	125367414	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	29825056	125367414	117831959	44	50178										
YSK4	80122	broad.mit.edu	37	chr2	135744864	135744864	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gaattcatcttatgcttgtcAttttcttggtgtacaggtat	8	6	4	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:135744864A>G	uc002tue.1	-	7	1609	c.1578T>C	c.(1576-1578)AAT>AAC	p.N526N	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Silent_p.N413N|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Silent_p.N254N|YSK4_uc002tui.3_Silent_p.N543N	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	526							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TATGCTTGTCATTTTCTTGGT	0.413													21	40	---	---	---	---	PASS	G	135744864	G	G	135744864	2	3	141	1	0	0	0	0	0	0	0	1	17492	214	8	5		5	YSK4	2	135744864	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08	10377450	135744864	107454509	45	50179										
LY75	4065	broad.mit.edu	37	chr2	160755282	160755282	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttgagattgctgtgccatgtCcatccttcagagccagccgg	11	12	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:160755282C>A	uc002ubc.3	-	2	452	c.383G>T	c.(382-384)GGA>GTA	p.G128V	LY75_uc002ubb.3_Missense_Mutation_p.G128V|LY75_uc010fos.2_Missense_Mutation_p.G128V|LY75_uc010fot.1_Missense_Mutation_p.G128V	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	128	Extracellular (Potential).|Ricin B-type lectin.				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		TGTGCCATGTCCATCCTTCAG	0.522													6	29	---	---	---	---	PASS	A	160755282	A	A	160755282	3	1	141	1	0	0	0	0	1	0	0	0	9099	855	30	2	4921	2	LY75	2	160755282	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	25010418	160755282	82444091	46	50180										
SLC4A10	57282	broad.mit.edu	37	chr2	162833288	162833288	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agagatgatccatctgtgatCaatatatctgatgaaatgtc	8	6	3	5			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:162833288C>A	uc002ubx.3	+	25	3430	c.3246C>A	c.(3244-3246)ATC>ATA	p.I1082I	SLC4A10_uc002uby.3_Silent_p.I1052I|SLC4A10_uc010zcs.1_Silent_p.I1063I	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	1082	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						CATCTGTGATCAATATATCTG	0.363													6	15	---	---	---	---	PASS	A	162833288	A	A	162833288	2	1	141	1	0	0	0	0	0	0	0	1	14651	816	29	2		2	SLC4A10	2	162833288	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	2078006	162833288	80366085	47	50181										
KBTBD10	10324	broad.mit.edu	37	chr2	170366615	170366615	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gtgcaagatatttttgcattGgccagccgctttcagatccc	9	11	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:170366615G>A	uc002ueu.1	+	1	404	c.327G>A	c.(325-327)TTG>TTA	p.L109L	KBTBD10_uc010zdh.1_Intron	NM_006063	NP_006054	O60662	KBTBA_HUMAN	kelch repeat and BTB (POZ) domain containing 10	109					striated muscle contraction	centrosome|nucleolus|plasma membrane|pseudopodium|ruffle					0						TTTTTGCATTGGCCAGCCGCT	0.413													13	64	---	---	---	---	PASS	A	170366615	A	A	170366615	2	1	141	1	0	0	0	0	0	0	0	1	7990	1339	47	3		3	KBTBD10	2	170366615	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	7533327	170366615	72832758	48	50182										
TTN	7273	broad.mit.edu	37	chr2	179593012	179593012	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tcttttccatccttaaaccaCtgagcactaatgggaagtga	7	10	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:179593012C>A	uc010zfg.1	-	64	16031	c.15807G>T	c.(15805-15807)CAG>CAT	p.Q5269H	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.Q1930H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6196							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)			CCTTAAACCACTGAGCACTAA	0.383													13	29	---	---	---	---	PASS	A	179593012	A	A	179593012	3	1	141	1	0	0	0	0	1	0	0	0	16732	564	20	3	85174	3	TTN	2	179593012	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	9226397	179593012	63606361	49	50183										
MOBKL3	25843	broad.mit.edu	37	chr2	198380840	198380840	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gcggaggggacggcagtgctGaggcggaacaggccgggcac	21	10	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:198380840G>C	uc002uun.3	+	1	70	c.30G>C	c.(28-30)CTG>CTC	p.L10L	MOBKL3_uc002uum.3_Intron|MOBKL3_uc010fsn.2_Silent_p.L10L|MOBKL3_uc010fso.2_5'UTR|MOBKL3_uc010zgz.1_5'UTR	NM_015387	NP_056202	Q9Y3A3	MOBL3_HUMAN	Mps One Binder kinase activator-like 3 isoform	10					transport	Golgi cisterna membrane|perinuclear region of cytoplasm	metal ion binding|protein binding				0			Epithelial(96;0.225)			CGGCAGTGCTGAGGCGGAACA	0.687													3	3	---	---	---	---	PASS	C	198380840	C	C	198380840	2	2	141	1	0	0	0	0	0	0	0	1	9687	1277	45	2		2	MOBKL3	2	198380840	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	18787828	198380840	44818533	50	50184										
SPATS2L	26010	broad.mit.edu	37	chr2	201337764	201337764	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cctctcaccagaccatgccgGccaacaagcaggtaagccga	9	16	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:201337764G>T	uc002uvn.3	+	12	1622	c.1270G>T	c.(1270-1272)GCC>TCC	p.A424S	SPATS2L_uc010fst.2_Missense_Mutation_p.A424S|SPATS2L_uc002uvo.3_Missense_Mutation_p.A364S|SPATS2L_uc002uvp.3_Missense_Mutation_p.A424S|SPATS2L_uc002uvq.3_Missense_Mutation_p.A355S|SPATS2L_uc002uvr.3_Missense_Mutation_p.A424S|SPATS2L_uc010zhc.1_Missense_Mutation_p.A454S	NM_015535	NP_056350	Q9NUQ6	SPS2L_HUMAN	SPATS2-like protein isoform a	424						cytoplasm|nucleolus				ovary(2)|pancreas(1)	3						GACCATGCCGGCCAACAAGCA	0.522													6	11	---	---	---	---	PASS	T	201337764	T	T	201337764	3	4	141	1	0	0	0	0	1	0	0	0	15019	1203	42	3	1308	3	SPATS2L	2	201337764	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	2956924	201337764	41861609	51	50185										
CFLAR	8837	broad.mit.edu	37	chr2	202005138	202005138	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gcagcaatccaaaagagtctCaaggatccttcaaataactt	6	10	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:202005138C>T	uc002uxb.3	+	5	1034	c.582C>T	c.(580-582)CTC>CTT	p.L194L	CFLAR_uc002uwz.2_Silent_p.L194L|CFLAR_uc002uxa.3_Silent_p.L194L|CFLAR_uc010zhk.1_Silent_p.L98L|CFLAR_uc002uxc.3_Silent_p.L194L|CFLAR_uc010zhl.1_Silent_p.L98L|CFLAR_uc010fsw.1_RNA|CFLAR_uc002uxd.3_Silent_p.L194L|CFLAR_uc002uxe.2_Silent_p.L194L|CFLAR_uc002uxf.2_Silent_p.L194L|CFLAR_uc010fsy.2_RNA|CFLAR_uc010fsx.2_Silent_p.L194L|CFLAR_uc010zhm.1_Silent_p.L98L|CFLAR_uc010fsz.2_5'UTR|CFLAR_uc002uxg.2_5'UTR|uc002uxh.1_RNA	NM_003879	NP_003870	O15519	CFLAR_HUMAN	CASP8 and FADD-like apoptosis regulator isoform	194	Interaction with caspase-8 propeptide.|Interaction with FADD.|Interaction with caspase-3.|Not proteolytically processed and involved in apoptosis inhibition.|Interaction with TRAF1 and TRAF2.|Interaction with caspase-8.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis		cysteine-type endopeptidase activity|protein binding				0						AAAAGAGTCTCAAGGATCCTT	0.388													9	82	---	---	---	---	PASS	T	202005138	T	T	202005138	2	4	141	1	0	0	0	0	0	0	0	1	3292	813	29	2		2	CFLAR	2	202005138	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	667374	202005138	41194235	52	50186										
FN1	2335	broad.mit.edu	37	chr2	216289955	216289955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gccatagggaggaggctgggGgtgaggctgcggttggtaaa	21	5	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:216289955G>T	uc002vfa.2	-	7	1164	c.898C>A	c.(898-900)CCC>ACC	p.P300T	FN1_uc002vfb.2_Missense_Mutation_p.P300T|FN1_uc002vfc.2_Missense_Mutation_p.P300T|FN1_uc002vfd.2_Missense_Mutation_p.P300T|FN1_uc002vfe.2_Missense_Mutation_p.P300T|FN1_uc002vff.2_Missense_Mutation_p.P300T|FN1_uc002vfg.2_Missense_Mutation_p.P300T|FN1_uc002vfh.2_Missense_Mutation_p.P300T|FN1_uc002vfi.2_Missense_Mutation_p.P300T|FN1_uc002vfj.2_Missense_Mutation_p.P300T|FN1_uc002vfl.2_Missense_Mutation_p.P300T	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	300					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding	p.P300S(1)		central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGAGGCTGGGGGTGAGGCTGC	0.522													12	97	---	---	---	---	PASS	T	216289955	T	T	216289955	3	4	141	1	0	0	0	0	1	0	0	0	5962	1232	43	3	6728	3	FN1	2	216289955	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	14284817	216289955	26909418	53	50187										
TMPPE	643853	broad.mit.edu	37	chr3	33134425	33134425	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cctgggctgacatacacgaaTgtagcctgggccacctggta	12	12	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:33134425T>C	uc003cfk.2	-	2	1454	c.1263A>G	c.(1261-1263)ACA>ACG	p.T421T	GLB1_uc003cfh.1_Intron|GLB1_uc003cfi.1_Intron|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Intron|TMPPE_uc011axl.1_Silent_p.T284T	NM_001039770	NP_001034859	Q6ZT21	TMPPE_HUMAN	transmembrane protein with	421						integral to membrane	metal ion binding				0						CATACACGAATGTAGCCTGGG	0.567													10	11	---	---	---	---	PASS	C	33134425	C	C	33134425	2	2	141	1	0	0	0	0	0	0	0	1	16235	1451	51	5		5	TMPPE	3	33134425	Silent	SNP	T	TCGA-66-2742-01A-01D-0983-08		33134425	164888005	54	50188										
EXOG	9941	broad.mit.edu	37	chr3	38539221	38539221	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgtcttatgatcaggcaaagCgggtgcctagatgggttctt	13	7	3	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:38539221C>T	uc003cih.2	+	2	361	c.265C>T	c.(265-267)CGG>TGG	p.R89W	EXOG_uc010hhg.2_Intron|EXOG_uc011ayq.1_Intron|EXOG_uc003cij.2_5'UTR|EXOG_uc010hhd.2_Intron|EXOG_uc010hhe.2_Intron|EXOG_uc003cik.2_5'UTR|EXOG_uc010hhf.2_5'UTR|EXOG_uc003cii.2_Intron	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	89						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						TCAGGCAAAGCGGGTGCCTAG	0.398													12	28	---	---	---	---	PASS	T	38539221	T	T	38539221	3	4	141	1	0	0	0	0	1	0	0	0	5312	759	27	1	271	1	EXOG	3	38539221	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	5404796	38539221	159483209	55	50189										
MON1A	84315	broad.mit.edu	37	chr3	49947570	49947570	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	acctggtgaagagtcccgagCtctttgacttatagaggaag	12	8	1	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:49947570C>T	uc003cxz.2	-	4	1778	c.1652G>A	c.(1651-1653)AGC>AAC	p.S551N	MON1A_uc003cya.2_Missense_Mutation_p.S389N|MON1A_uc003cyb.2_Missense_Mutation_p.S389N	NM_032355	NP_115731	Q86VX9	MON1A_HUMAN	MON1 homolog A isoform a	454							protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		GAGTCCCGAGCTCTTTGACTT	0.612													18	57	---	---	---	---	PASS	T	49947570	T	T	49947570	3	4	141	1	0	0	0	0	1	0	0	0	9698	797	28	3	318	3	MON1A	3	49947570	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	11408349	49947570	148074860	56	50190										
OR5AC2	81050	broad.mit.edu	37	chr3	97806723	97806723	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aaaaaagtctgaaaagggcaGaagcaaagccttctccacat	8	9	2	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:97806723G>A	uc011bgs.1	+	1	707	c.707G>A	c.(706-708)AGA>AAA	p.R236K		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GAAAAGGGCAGAAGCAAAGCC	0.408													6	40	---	---	---	---	PASS	A	97806723	A	A	97806723	3	1	141	1	0	0	0	0	1	0	0	0	11141	942	33	2	709	2	OR5AC2	3	97806723	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	47859153	97806723	100215707	57	50191										
PHLDB2	90102	broad.mit.edu	37	chr3	111632221	111632221	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgctgaatacacaaagcctgAcagtcgcttatctactggga	9	10	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:111632221A>T	uc010hqa.2	+	3	1802	c.1391A>T	c.(1390-1392)GAC>GTC	p.D464V	PHLDB2_uc003dyc.2_Missense_Mutation_p.D491V|PHLDB2_uc003dyd.2_Missense_Mutation_p.D464V|PHLDB2_uc003dyg.2_Missense_Mutation_p.D464V|PHLDB2_uc003dyh.2_Missense_Mutation_p.D464V|PHLDB2_uc003dyi.2_Missense_Mutation_p.D50V|PHLDB2_uc003dyf.3_Missense_Mutation_p.D464V	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	464						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						ACAAAGCCTGACAGTCGCTTA	0.517													66	81	---	---	---	---	PASS	T	111632221	T	T	111632221	3	4	141	1	0	0	0	0	1	0	0	0	11852	275	10	5	1482	5	PHLDB2	3	111632221	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	13825498	111632221	86390209	58	50192										
CCDC14	64770	broad.mit.edu	37	chr3	123650002	123650002	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tcacgctgacgtaatgttatCcccaatatctggttttcctt	6	11	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:123650002C>A	uc011bjx.1	-	12	1960	c.1869G>T	c.(1867-1869)GGG>GGT	p.G623G	CCDC14_uc003egv.3_Silent_p.G264G|CCDC14_uc003egx.3_Silent_p.G423G|CCDC14_uc010hrt.2_Silent_p.G582G|CCDC14_uc003egy.3_Silent_p.G423G|CCDC14_uc003egz.2_Silent_p.G423G	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	623						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		GTAATGTTATCCCCAATATCT	0.368													11	39	---	---	---	---	PASS	A	123650002	A	A	123650002	2	1	141	1	0	0	0	0	0	0	0	1	2773	842	30	2		2	CCDC14	3	123650002	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	12017781	123650002	74372428	59	50193										
ASTE1	28990	broad.mit.edu	37	chr3	130743391	130743391	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cagaagtcccaggattcggtGgtgtctcctccctttagaac	10	12	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:130743391G>A	uc003env.1	-	3	1202	c.760C>T	c.(760-762)CAC>TAC	p.H254Y	NEK11_uc003enx.2_5'Flank|NEK11_uc003eny.2_5'Flank|NEK11_uc003eoa.2_5'Flank|NEK11_uc003enz.2_5'Flank|NEK11_uc010htn.2_5'Flank|NEK11_uc011blk.1_5'Flank|NEK11_uc011bll.1_5'Flank|NEK11_uc003enw.1_5'Flank|NEK11_uc011blm.1_5'Flank|ASTE1_uc010htm.1_Missense_Mutation_p.H254Y|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	254					DNA repair		nuclease activity				0						AGGATTCGGTGGTGTCTCCTC	0.438													28	25	---	---	---	---	PASS	A	130743391	A	A	130743391	3	1	141	1	0	0	0	0	1	0	0	0	1062	1348	47	3	1295	3	ASTE1	3	130743391	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	7093389	130743391	67279039	60	50194										
TFDP2	7029	broad.mit.edu	37	chr3	141697362	141697362	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	caggttcatgatttacatacCgaatcagcagccaaatggtt	8	9	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:141697362C>T	uc003eun.3	-	7	898	c.519G>A	c.(517-519)TCG>TCA	p.S173S	TFDP2_uc003euk.3_Silent_p.S86S|TFDP2_uc010hur.2_Silent_p.S112S|TFDP2_uc003eul.3_Silent_p.S112S|TFDP2_uc011bnf.1_Silent_p.S76S|TFDP2_uc011bng.1_Silent_p.S37S|TFDP2_uc003eum.3_Silent_p.S112S	NM_006286	NP_006277	Q14188	TFDP2_HUMAN	transcription factor Dp-2 (E2F dimerization	173	Potential.				cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1						ATTTACATACCGAATCAGCAG	0.383													12	151	---	---	---	---	PASS	T	141697362	T	T	141697362	2	4	141	1	0	0	0	0	0	0	0	1	15795	666	23	1		1	TFDP2	3	141697362	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	10953971	141697362	56325068	61	50195										
ZIC4	84107	broad.mit.edu	37	chr3	147108988	147108988	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tacggtcgctgctgttggcgAagcgccgctcgcagccctcg	14	15	0	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:147108988A>C	uc003ewd.1	-	4	1007	c.734T>G	c.(733-735)TTC>TGC	p.F245C	ZIC4_uc003ewc.1_Missense_Mutation_p.F175C|ZIC4_uc011bno.1_Missense_Mutation_p.F295C	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	245	C2H2-type 4.					nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						GCTGTTGGCGAAGCGCCGCTC	0.617													35	19	---	---	---	---	PASS	C	147108988	C	C	147108988	3	2	141	1	0	0	0	0	1	0	0	0	17678	246	9	5	278	5	ZIC4	3	147108988	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	5411626	147108988	50913442	62	50196										
CP	1356	broad.mit.edu	37	chr3	148917542	148917542	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggggaatagtatgtgccctcGttgttcttattgaatctcac	10	8	2	1	rs144537170	byFrequency	TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:148917542G>A	uc003ewy.3	-	8	1711	c.1458C>T	c.(1456-1458)AAC>AAT	p.N486N	CP_uc011bnr.1_RNA|CP_uc003ewx.3_Silent_p.N267N|CP_uc003ewz.2_Silent_p.N486N|CP_uc010hvf.1_Silent_p.N212N	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	486	Plastocyanin-like 3.|F5/8 type A 2.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	ATGTGCCCTCGTTGTTCTTAT	0.443													32	218	---	---	---	---	PASS	A	148917542	A	A	148917542	2	1	141	1	0	0	0	0	0	0	0	1	3787	1136	40	1		1	CP	3	148917542	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	1808554	148917542	49104888	63	50197										
MED12L	116931	broad.mit.edu	37	chr3	151148142	151148142	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gcagcagacggccgccttggTgcggcagctccagaagcagc	15	14	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:151148142T>C	uc003eyp.2	+	42	6397	c.6359T>C	c.(6358-6360)GTG>GCG	p.V2120A	MED12L_uc011bnz.1_Missense_Mutation_p.V1784A	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	2120	Gln-rich.				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)			GCCGCCTTGGTGCGGCAGCTC	0.537													7	65	---	---	---	---	PASS	C	151148142	C	C	151148142	3	2	141	1	0	0	0	0	1	0	0	0	9429	1696	59	5	6525	5	MED12L	3	151148142	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	2230600	151148142	46874288	64	50198										
MBNL1	4154	broad.mit.edu	37	chr3	152174130	152174130	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ccacaagtgttcccttcgctGcaacagccacagccaaccag	7	17	0	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:152174130G>T	uc003ezm.2	+	7	1879	c.1090G>T	c.(1090-1092)GCA>TCA	p.A364S	MBNL1_uc003ezh.2_Missense_Mutation_p.A358S|MBNL1_uc003ezi.2_Missense_Mutation_p.A346S|MBNL1_uc003ezj.2_Missense_Mutation_p.A319S|MBNL1_uc003ezl.2_Intron|MBNL1_uc003ezp.2_Silent_p.L294L|MBNL1_uc003ezn.2_Missense_Mutation_p.A290S|MBNL1_uc003ezo.2_Missense_Mutation_p.A278S|MBNL1_uc010hvp.2_Intron	NM_207293	NP_997176	Q9NR56	MBNL1_HUMAN	muscleblind-like 1 isoform c	364					embryonic limb morphogenesis|in utero embryonic development|myoblast differentiation|nervous system development	nucleus|stress granule	double-stranded RNA binding|protein binding|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			TCCCTTCGCTGCAACAGCCAC	0.428													17	103	---	---	---	---	PASS	T	152174130	T	T	152174130	3	4	141	1	0	0	0	0	1	0	0	0	9353	1319	46	3	1156	3	MBNL1	3	152174130	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	1025988	152174130	45848300	65	50199										
LRRC31	79782	broad.mit.edu	37	chr3	169569470	169569470	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aactaatgacttcaatgctgGtaaaaatcggagcctgctga	9	8	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:169569470G>T	uc003fgc.1	-	7	1173	c.1096C>A	c.(1096-1098)CCA>ACA	p.P366T	LRRC31_uc010hwp.1_Missense_Mutation_p.P310T	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	366										ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			TTCAATGCTGGTAAAAATCGG	0.403													28	97	---	---	---	---	PASS	T	169569470	T	T	169569470	3	4	141	1	0	0	0	0	1	0	0	0	8986	1261	44	3	574	3	LRRC31	3	169569470	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	17395340	169569470	28452960	66	50200										
GHSR	2693	broad.mit.edu	37	chr3	172165779	172165779	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gtgggaagcagatggcgaagTagcgctcgacgctcagcgct	16	10	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:172165779T>A	uc003fib.1	-	1	425	c.425A>T	c.(424-426)TAC>TTC	p.Y142F	GHSR_uc011bpv.1_Missense_Mutation_p.Y142F	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	142	Cytoplasmic (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)			GATGGCGAAGTAGCGCTCGAC	0.617													29	13	---	---	---	---	PASS	A	172165779	A	A	172165779	3	1	141	1	0	0	0	0	1	0	0	0	6375	1638	57	5	757	5	GHSR	3	172165779	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	2596309	172165779	25856651	67	50201										
HTR3E	285242	broad.mit.edu	37	chr3	183823602	183823602	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgtcataaaccttctcgtgcCcagtggctttctggttgcca	9	12	3	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:183823602C>A	uc010hxq.2	+	7	1236	c.770C>A	c.(769-771)CCC>CAC	p.P257H	HTR3E_uc003fml.3_Missense_Mutation_p.P242H|HTR3E_uc003fmm.2_Missense_Mutation_p.P272H|HTR3E_uc010hxr.2_Missense_Mutation_p.P283H|HTR3E_uc003fmn.2_Missense_Mutation_p.P257H	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	257	Helical; Name=1; (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			CTTCTCGTGCCCAGTGGCTTT	0.552													19	143	---	---	---	---	PASS	A	183823602	A	A	183823602	3	1	141	1	0	0	0	0	1	0	0	0	7448	623	22	3	837	3	HTR3E	3	183823602	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	11657823	183823602	14198828	68	50202										
RTP2	344892	broad.mit.edu	37	chr3	187416621	187416621	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gaggttgtccaccaggccctCgatgttctcctccagcatgc	10	15	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:187416621C>A	uc003fro.1	-	2	772	c.343G>T	c.(343-345)GAG>TAG	p.E115*		NM_001004312	NP_001004312	Q5QGT7	RTP2_HUMAN	receptor transporting protein 2	115	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding				0	all_cancers(143;4.06e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0515)		ACCAGGCCCTCGATGTTCTCC	0.677													19	22	---	---	---	---	PASS	A	187416621	A	A	187416621	4	1	141	1	0	0	0	0	0	1	0	0	13734	893	31	2	338	2	RTP2	3	187416621	Nonsense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	3593019	187416621	10605809	69	50203										
ATP13A5	344905	broad.mit.edu	37	chr3	193061839	193061839	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gagacgggattccagctcctCcaaacctacaccaaagcaaa	7	14	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:193061839C>G	uc011bsq.1	-	9	820	c.820G>C	c.(820-822)GAG>CAG	p.E274Q		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	274					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		TCCAGCTCCTCCAAACCTACA	0.418													17	58	---	---	---	---	PASS	G	193061839	G	G	193061839	3	3	141	1	0	0	0	0	1	0	0	0	1127	864	30	2	2922	2	ATP13A5	3	193061839	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	5645218	193061839	4960591	70	50204										
ZFYVE28	57732	broad.mit.edu	37	chr4	2343208	2343208	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gggtggccacccgctacctcGgcaccgaaccacagctggcc	12	18	0	0	rs74965159		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:2343208G>A	uc003gex.1	-	3	634	c.315C>T	c.(313-315)GCC>GCT	p.A105A	ZFYVE28_uc011bvk.1_Silent_p.A35A|ZFYVE28_uc011bvl.1_Silent_p.A105A|ZFYVE28_uc003gey.3_Silent_p.A35A|ZFYVE28_uc003gez.2_Silent_p.A58A|ZFYVE28_uc003gew.1_5'Flank	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	105					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						CCGCTACCTCGGCACCGAACC	0.662													5	11	---	---	---	---	PASS	A	2343208	A	A	2343208	2	1	141	1	0	0	0	0	0	0	0	1	17667	1103	39	1		1	ZFYVE28	4	2343208	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08		2343208	188811068	71	50205										
CPZ	8532	broad.mit.edu	37	chr4	8613866	8613866	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggggagcatcatcaacggggCggactggtacagcttcacgg	16	10	3	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:8613866C>A	uc003glm.2	+	8	1466	c.1340C>A	c.(1339-1341)GCG>GAG	p.A447E	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Missense_Mutation_p.A310E|CPZ_uc003glo.2_Missense_Mutation_p.A436E|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	447					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						ATCAACGGGGCGGACTGGTAC	0.403													11	3	---	---	---	---	PASS	A	8613866	A	A	8613866	3	1	141	1	0	0	0	0	1	0	0	0	3839	768	27	1	1370	1	CPZ	4	8613866	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	6270658	8613866	182540410	72	50206										
LPHN3	23284	broad.mit.edu	37	chr4	62801650	62801650	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gatattaacagaattggaagTtgcaagactgagcacagaag	11	5	0	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:62801650T>A	uc010ihh.2	+	12	2275	c.2102T>A	c.(2101-2103)GTT>GAT	p.V701D	LPHN3_uc003hcq.3_Missense_Mutation_p.V701D|LPHN3_uc003hct.2_Missense_Mutation_p.V94D	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	688	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GAATTGGAAGTTGCAAGACTG	0.363													3	4	---	---	---	---	PASS	A	62801650	A	A	62801650	3	1	141	1	0	0	0	0	1	0	0	0	8917	1725	60	5	2148	5	LPHN3	4	62801650	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	54187784	62801650	128352626	73	50207										
AREG	374	broad.mit.edu	37	chr4	75312287	75312287	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	attggacctcaatgacacctActctgggaagcgtgaaccat	9	11	2	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:75312287A>G	uc011cbl.1	+	2	308	c.98A>G	c.(97-99)TAC>TGC	p.Y33C		NM_001657	NP_001648	P15514	AREG_HUMAN	amphiregulin preproprotein	33					cell proliferation|cell-cell signaling|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|positive regulation of DNA replication	cell surface|extracellular space|integral to membrane	cytokine activity|growth factor activity				0			Lung(101;0.196)			AATGACACCTACTCTGGGAAG	0.488													48	39	---	---	---	---	PASS	G	75312287	G	G	75312287	3	3	141	1	0	0	0	0	1	0	0	0	843	391	14	5	104	5	AREG	4	75312287	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	12510637	75312287	115841989	74	50208										
ANK2	287	broad.mit.edu	37	chr4	114163341	114163341	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aagctcttactggatcgaggCggtcagatcgatgccaaaac	11	10	2	1	rs113692517	byFrequency	TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:114163341C>A	uc003ibe.3	+	9	967	c.867C>A	c.(865-867)GGC>GGA	p.G289G	ANK2_uc003ibd.3_Silent_p.G268G|ANK2_uc003ibf.3_Silent_p.G289G|ANK2_uc003ibc.2_Silent_p.G265G|ANK2_uc011cgb.1_Silent_p.G304G	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	289	ANK 8.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TGGATCGAGGCGGTCAGATCG	0.428													26	26	---	---	---	---	PASS	A	114163341	A	A	114163341	2	1	141	1	0	0	0	0	0	0	0	1	621	755	27	1		1	ANK2	4	114163341	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	38851054	114163341	76990935	75	50209										
DDX60L	91351	broad.mit.edu	37	chr4	169305933	169305933	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	atacacatttccaagcaggtCttgacctcttcttccagcac	5	14	3	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:169305933C>T	uc003irq.3	-	30	4167	c.3946G>A	c.(3946-3948)GAC>AAC	p.D1316N		NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	1316	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		CCAAGCAGGTCTTGACCTCTT	0.423													11	19	---	---	---	---	PASS	T	169305933	T	T	169305933	3	4	141	1	0	0	0	0	1	0	0	0	4379	913	32	2	1210	2	DDX60L	4	169305933	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	55142592	169305933	21848343	76	50210										
ODZ3	55714	broad.mit.edu	37	chr4	183575036	183575036	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aacactgtgtcattaccttcTggagacaatggtaagcgaaa	9	8	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:183575036T>C	uc003ivd.1	+	5	1138	c.1101T>C	c.(1099-1101)TCT>TCC	p.S367S		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	367	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CATTACCTTCTGGAGACAATG	0.368													12	17	---	---	---	---	PASS	C	183575036	C	C	183575036	2	2	141	1	0	0	0	0	0	0	0	1	10836	1567	55	5		5	ODZ3	4	183575036	Silent	SNP	T	TCGA-66-2742-01A-01D-0983-08	14269103	183575036	7579240	77	50211										
SLC6A3	6531	broad.mit.edu	37	chr5	1420684	1420684	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agtgagcagactgtactcacAgacgcctcgcagagccggta	12	12	1	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:1420684A>G	uc003jck.2	-	6	1048	c.927T>C	c.(925-927)TCT>TCC	p.S309S		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	309					cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	CTGTACTCACAGACGCCTCGC	0.592													29	117	---	---	---	---	PASS	G	1420684	G	G	1420684	2	3	141	1	0	0	0	0	0	0	0	1	14685	202	7	5		5	SLC6A3	5	1420684	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08		1420684	179494576	78	50212										
PRLR	5618	broad.mit.edu	37	chr5	35065607	35065607	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gggcgtatcctggtcagtctCagaatggaagctttctacct	11	10	3	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:35065607C>A	uc003jjm.2	-	10	1983	c.1453G>T	c.(1453-1455)GAG>TAG	p.E485*	PRLR_uc003jjg.1_Intron|PRLR_uc003jjh.1_Intron|PRLR_uc003jji.1_Intron|PRLR_uc003jjj.1_Intron|PRLR_uc003jjk.1_Intron|PRLR_uc003jjl.3_Nonsense_Mutation_p.E384*	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	485	Cytoplasmic (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	TGGTCAGTCTCAGAATGGAAG	0.483													27	58	---	---	---	---	PASS	A	35065607	A	A	35065607	4	1	141	1	0	0	0	0	0	1	0	0	12531	835	29	2	419	2	PRLR	5	35065607	Nonsense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	33644923	35065607	145849653	79	50213										
DAB2	1601	broad.mit.edu	37	chr5	39383066	39383066	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	caccattcaggggcccattaCtcagcggagtagacgagcta	11	12	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:39383066C>A	uc003jlx.2	-	10	1526	c.995G>T	c.(994-996)AGT>ATT	p.S332I	DAB2_uc003jlw.2_Missense_Mutation_p.S311I	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	332					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			GGGCCCATTACTCAGCGGAGT	0.498													25	73	---	---	---	---	PASS	A	39383066	A	A	39383066	3	1	141	1	0	0	0	0	1	0	0	0	4218	565	20	3	1337	3	DAB2	5	39383066	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	4317459	39383066	141532194	80	50214										
GPR98	84059	broad.mit.edu	37	chr5	90049535	90049535	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	actcatacaaaggtgctactAttgatcaggacagaagcaag	9	8	2	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:90049535A>G	uc003kju.2	+	54	11362	c.11266A>G	c.(11266-11268)ATT>GTT	p.I3756V	GPR98_uc003kjt.2_Missense_Mutation_p.I1462V|GPR98_uc003kjv.2_Missense_Mutation_p.I1356V	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3756	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AGGTGCTACTATTGATCAGGA	0.453													21	24	---	---	---	---	PASS	G	90049535	G	G	90049535	3	3	141	1	0	0	0	0	1	0	0	0	6721	449	16	5	11480	5	GPR98	5	90049535	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	50666469	90049535	90865725	81	50215										
FBN2	2201	broad.mit.edu	37	chr5	127648412	127648412	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aagagcgactgacgcccaccCcgatctcggtgttgcaagac	11	14	1	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:127648412C>T	uc003kuu.2	-	37	5232	c.4793G>A	c.(4792-4794)GGG>GAG	p.G1598E		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1598	TB 6.				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)		GACGCCCACCCCGATCTCGGT	0.552													105	149	---	---	---	---	PASS	T	127648412	T	T	127648412	3	4	141	1	0	0	0	0	1	0	0	0	5703	623	22	3	4061	3	FBN2	5	127648412	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	37598877	127648412	53266848	82	50216										
KDM3B	51780	broad.mit.edu	37	chr5	137727932	137727932	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aggcccccaagggccggcctCggactgcccccctgaaaggt	13	17	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:137727932C>A	uc003lcy.1	+	8	2811	c.2611C>A	c.(2611-2613)CGG>AGG	p.R871R	KDM3B_uc010jew.1_Silent_p.R527R|KDM3B_uc011cys.1_Intron	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	871					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						GGGCCGGCCTCGGACTGCCCC	0.612													3	21	---	---	---	---	PASS	A	137727932	A	A	137727932	2	1	141	1	0	0	0	0	0	0	0	1	8127	875	31	2		2	KDM3B	5	137727932	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	10079520	137727932	43187328	83	50217										
PCDHA6	56142	broad.mit.edu	37	chr5	140209961	140209961	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gcagagggtgtgctccggggAgggcccacccaagatggatc	17	11	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:140209961A>T	uc003lho.2	+	1	2312	c.2285A>T	c.(2284-2286)GAG>GTG	p.E762V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Missense_Mutation_p.E762V	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	762	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTCCGGGGAGGGCCCACCC	0.597													6	35	---	---	---	---	PASS	T	140209961	T	T	140209961	3	4	141	1	0	0	0	0	1	0	0	0	11528	304	11	5	2287	5	PCDHA6	5	140209961	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	2482029	140209961	40705299	84	50218										
PCDHGA4	56111	broad.mit.edu	37	chr5	140736606	140736606	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agcctactcaagtccagcgaGccgggactatttgcagtggg	13	11	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:140736606G>T	uc003ljq.1	+	1	1839	c.1839G>T	c.(1837-1839)GAG>GAT	p.E613D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.E613D	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	613	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTCCAGCGAGCCGGGACTAT	0.622													21	26	---	---	---	---	PASS	T	140736606	T	T	140736606	3	4	141	1	0	0	0	0	1	0	0	0	11556	962	34	3	1841	3	PCDHGA4	5	140736606	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	526645	140736606	40178654	85	50219										
KIAA0141	9812	broad.mit.edu	37	chr5	141316862	141316862	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gatgttaccagcagtcagccGctctgggaaatgaggccgcc	13	12	2	1	rs137962377		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:141316862G>T	uc003lls.2	+	11	1371	c.1249G>T	c.(1249-1251)GCT>TCT	p.A417S	KIAA0141_uc003llt.2_Missense_Mutation_p.A417S|KIAA0141_uc003llu.1_RNA	NM_001142603	NP_001136075	Q14154	DELE_HUMAN	hypothetical protein LOC9812 precursor	417	TPR 6.				apoptosis|regulation of caspase activity	mitochondrion	protein binding			skin(1)	1		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAGTCAGCCGCTCTGGGAAA	0.567													26	51	---	---	---	---	PASS	T	141316862	T	T	141316862	3	4	141	1	0	0	0	0	1	0	0	0	8156	1087	38	1	1291	1	KIAA0141	5	141316862	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	580256	141316862	39598398	86	50220										
KIAA0319	9856	broad.mit.edu	37	chr6	24596213	24596213	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gaagcaacacacttctctcaGggagttttggggcaggggtt	14	8	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:24596213G>T	uc011djo.1	-	3	926	c.689C>A	c.(688-690)CCT>CAT	p.P230H	KIAA0319_uc011djp.1_Missense_Mutation_p.P185H|KIAA0319_uc003neh.1_Missense_Mutation_p.P230H|KIAA0319_uc011djq.1_Missense_Mutation_p.P221H|KIAA0319_uc011djr.1_Missense_Mutation_p.P230H	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	230	Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						ACTTCTCTCAGGGAGTTTTGG	0.552													27	27	---	---	---	---	PASS	T	24596213	T	T	24596213	3	4	141	1	0	0	0	0	1	0	0	0	8168	1000	35	3	2605	3	KIAA0319	6	24596213	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08		24596213	146518854	87	50221										
ZNF76	7629	broad.mit.edu	37	chr6	35260412	35260412	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cttgtataagcaccacgtggTgcacacacactgcaagccct	8	14	0	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:35260412T>C	uc003oki.1	+	10	1218	c.1013T>C	c.(1012-1014)GTG>GCG	p.V338A	ZNF76_uc011dsz.1_Missense_Mutation_p.V338A|ZNF76_uc003okj.1_Missense_Mutation_p.V338A	NM_003427	NP_003418	P36508	ZNF76_HUMAN	zinc finger protein 76 (expressed in testis)	338	C2H2-type 6.				regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACCACGTGGTGCACACACAC	0.617													25	23	---	---	---	---	PASS	C	35260412	C	C	35260412	3	2	141	1	0	0	0	0	1	0	0	0	18132	1696	59	5	1047	5	ZNF76	6	35260412	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	10664199	35260412	135854655	88	50222										
FGD2	221472	broad.mit.edu	37	chr6	36981871	36981871	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggccccagaccaggccgatgCccagagtgaggacaccccca	12	17	0	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:36981871C>G	uc010jwp.1	+	6	989	c.818C>G	c.(817-819)GCC>GGC	p.A273G	FGD2_uc003ong.2_5'UTR|FGD2_uc011dtv.1_5'UTR|FGD2_uc003oni.1_Missense_Mutation_p.A79G	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	273	DH.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3						CAGGCCGATGCCCAGAGTGAG	0.577													21	14	---	---	---	---	PASS	G	36981871	G	G	36981871	3	3	141	1	0	0	0	0	1	0	0	0	5833	739	26	4	840	4	FGD2	6	36981871	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	1721459	36981871	134133196	89	50223										
PKHD1	5314	broad.mit.edu	37	chr6	51618098	51618098	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tatatttcgggtcaacagtcCaacctcagcagccaaacgaa	7	12	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:51618098C>T	uc003pah.1	-	57	9127	c.8851G>A	c.(8851-8853)GGA>AGA	p.G2951R	PKHD1_uc010jzn.1_Missense_Mutation_p.G934R|PKHD1_uc003pai.2_Missense_Mutation_p.G2951R	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2951	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GTCAACAGTCCAACCTCAGCA	0.468													15	22	---	---	---	---	PASS	T	51618098	T	T	51618098	3	4	141	1	0	0	0	0	1	0	0	0	11971	603	21	3	3456	3	PKHD1	6	51618098	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	14636227	51618098	119496969	90	50224										
KLHL32	114792	broad.mit.edu	37	chr6	97424046	97424046	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cctagcagcatgcagtgactAtttccgggtaagtcagcatt	10	10	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:97424046A>G	uc010kcm.1	+	3	669	c.197A>G	c.(196-198)TAT>TGT	p.Y66C	KLHL32_uc003poy.2_Missense_Mutation_p.Y66C|KLHL32_uc011ead.1_Missense_Mutation_p.Y66C|KLHL32_uc003poz.2_5'UTR|KLHL32_uc011eae.1_Missense_Mutation_p.Y66C	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	66	BTB.									ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		TGCAGTGACTATTTCCGGGTA	0.448													6	43	---	---	---	---	PASS	G	97424046	G	G	97424046	3	3	141	1	0	0	0	0	1	0	0	0	8386	449	16	5	203	5	KLHL32	6	97424046	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	45805948	97424046	73691021	91	50225										
CDC40	51362	broad.mit.edu	37	chr6	110540601	110540601	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agatttacaaaccgaaaagtAccttattgtgtcaaattcaa	5	7	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:110540601A>T	uc003pua.2	+	11	1149	c.1125A>T	c.(1123-1125)GTA>GTT	p.V375V		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	375	WD 3.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		ACCGAAAAGTACCTTATTGTG	0.323													21	17	---	---	---	---	PASS	T	110540601	T	T	110540601	2	4	141	1	0	0	0	0	0	0	0	1	3070	378	14	5		5	CDC40	6	110540601	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08	13116555	110540601	60574466	92	50226										
DSE	29940	broad.mit.edu	37	chr6	116747880	116747880	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gattgccaatgcctcagggtAtatgtatgaaacttcataca	8	8	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:116747880A>G	uc003pws.2	+	3	754	c.560A>G	c.(559-561)TAT>TGT	p.Y187C	DSE_uc011ebf.1_Missense_Mutation_p.Y187C|DSE_uc011ebg.1_Missense_Mutation_p.Y206C|DSE_uc003pwt.2_Missense_Mutation_p.Y187C	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	187					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		GCCTCAGGGTATATGTATGAA	0.463													21	26	---	---	---	---	PASS	G	116747880	G	G	116747880	3	3	141	1	0	0	0	0	1	0	0	0	4774	449	16	5	566	5	DSE	6	116747880	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	6207279	116747880	54367187	93	50227										
LAMA2	3908	broad.mit.edu	37	chr6	129649434	129649434	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttctttcaggcatgcttgccGggattttatcgactgcgttc	10	10	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:129649434G>T	uc003qbn.2	+	29	4293	c.4188G>T	c.(4186-4188)CCG>CCT	p.P1396P	LAMA2_uc003qbo.2_Silent_p.P1396P	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1396	Laminin EGF-like 14; second part.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		CATGCTTGCCGGGATTTTATC	0.507													26	23	---	---	---	---	PASS	T	129649434	T	T	129649434	2	4	141	1	0	0	0	0	0	0	0	1	8606	1103	39	1		1	LAMA2	6	129649434	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	12901554	129649434	41465633	94	50228										
HDAC9	9734	broad.mit.edu	37	chr7	18975451	18975451	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggttttggtcatttgacgaaGcaattgatgacattggctga	12	5	1	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:18975451G>T	uc003suh.2	+	22	2855	c.2814G>T	c.(2812-2814)AAG>AAT	p.K938N	HDAC9_uc003sue.2_Missense_Mutation_p.K938N|HDAC9_uc003sui.2_Missense_Mutation_p.K941N|HDAC9_uc003suj.2_Missense_Mutation_p.K897N|HDAC9_uc003suk.2_Missense_Mutation_p.K186N	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	938	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	ATTTGACGAAGCAATTGATGA	0.378													38	113	---	---	---	---	PASS	T	18975451	T	T	18975451	3	4	141	1	0	0	0	0	1	0	0	0	7014	962	34	3	3022	3	HDAC9	7	18975451	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08		18975451	140163212	95	50229										
STK31	56164	broad.mit.edu	37	chr7	23776540	23776540	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tagggaaagtttggctgttgGtgactttaatttagggtcta	13	3	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:23776540G>A	uc003sws.3	+	8	927	c.860G>A	c.(859-861)GGT>GAT	p.G287D	STK31_uc003swt.3_Missense_Mutation_p.G264D|STK31_uc011jze.1_Missense_Mutation_p.G287D|STK31_uc010kuq.2_Missense_Mutation_p.G264D	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	287							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						TTGGCTGTTGGTGACTTTAAT	0.338													16	33	---	---	---	---	PASS	A	23776540	A	A	23776540	3	1	141	1	0	0	0	0	1	0	0	0	15295	1261	44	3	890	3	STK31	7	23776540	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	4801089	23776540	135362123	96	50230										
PLEKHA8	84725	broad.mit.edu	37	chr7	30102343	30102343	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgaaaaatggggagaaggatAtccagacagccctaagtaag	12	6	0	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:30102343A>T	uc003tam.1	+	12	1376	c.1285A>T	c.(1285-1287)ATC>TTC	p.I429F	PLEKHA8_uc003tao.2_Missense_Mutation_p.I313F|PLEKHA8_uc003tap.1_Missense_Mutation_p.I429F|PLEKHA8_uc003tan.2_Missense_Mutation_p.I429F	NM_032639	NP_116028	Q96JA3	PKHA8_HUMAN	pleckstrin homology domain containing, family A	429					protein transport	cytoplasm	glycolipid binding|glycolipid transporter activity			breast(3)|ovary(1)	4						GGAGAAGGATATCCAGACAGC	0.358													19	47	---	---	---	---	PASS	T	30102343	T	T	30102343	3	4	141	1	0	0	0	0	1	0	0	0	12062	449	16	5	1331	5	PLEKHA8	7	30102343	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	6325803	30102343	129036320	97	50231										
EGFR	1956	broad.mit.edu	37	chr7	55259524	55259524	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agattttgggctggccaaacTgctgggtgcggaagagaaag	16	6	0	2	rs121913444		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:55259524T>A	uc003tqk.2	+	21	2828	c.2582T>A	c.(2581-2583)CTG>CAG	p.L861Q	EGFR_uc010kzg.1_Missense_Mutation_p.L816Q|EGFR_uc011kco.1_Missense_Mutation_p.L808Q|uc003tqo.2_5'Flank	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	861	Cytoplasmic (Potential).|Protein kinase.		L -> Q (found in a lung cancer sample).		activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.L861Q(96)|p.L861R(10)|p.A859_L883>V(2)|p.L861F(1)|p.L861V(1)|p.L861P(1)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	CTGGCCAAACTGCTGGGTGCG	0.557		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			45	121	---	---	---	---	PASS	A	55259524	A	A	55259524	3	1	141	1	0	0	0	0	1	0	0	0	4967	1580	55	5	2928	5	EGFR	7	55259524	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	25157181	55259524	103879139	98	50232										
DOCK4	9732	broad.mit.edu	37	chr7	111629078	111629078	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctcaatactcactcattgccCcagtcaagccgggcagtaat	7	14	4	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:111629078C>A	uc003vfx.2	-	6	725	c.456G>T	c.(454-456)TGG>TGT	p.W152C	DOCK4_uc003vfy.2_Missense_Mutation_p.W152C|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Missense_Mutation_p.W152C|DOCK4_uc003vgb.1_Missense_Mutation_p.W76C	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	152					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				ACTCATTGCCCCAGTCAAGCC	0.562													7	15	---	---	---	---	PASS	A	111629078	A	A	111629078	3	1	141	1	0	0	0	0	1	0	0	0	4689	624	22	3	5632	3	DOCK4	7	111629078	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	56369554	111629078	47509585	99	50233										
SLC13A1	6561	broad.mit.edu	37	chr7	122755604	122755604	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctcattactcatagcaggagCccacgaagggtaagtgtaga	11	9	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:122755604C>G	uc003vkm.2	-	15	1781	c.1756G>C	c.(1756-1758)GCT>CCT	p.A586P	SLC13A1_uc010lks.2_Missense_Mutation_p.A462P	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	586						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	ATAGCAGGAGCCCACGAAGGG	0.413													14	40	---	---	---	---	PASS	G	122755604	G	G	122755604	3	3	141	1	0	0	0	0	1	0	0	0	14391	739	26	4	35	4	SLC13A1	7	122755604	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	11126526	122755604	36383059	100	50234										
OPN1SW	611	broad.mit.edu	37	chr7	128415130	128415130	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gtgcatgcttggagctgaagCggaagttgccgaagggctta	16	7	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:128415130C>T	uc003vnt.3	-	2	431	c.431G>A	c.(430-432)CGC>CAC	p.R144H		NM_001708	NP_001699	P03999	OPSB_HUMAN	opsin 1 (cone pigments), short-wave-sensitive	144	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0						GGAGCTGAAGCGGAAGTTGCC	0.552													15	30	---	---	---	---	PASS	T	128415130	T	T	128415130	3	4	141	1	0	0	0	0	1	0	0	0	10880	768	27	1	631	1	OPN1SW	7	128415130	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	5659526	128415130	30723533	101	50235										
OR6B1	135946	broad.mit.edu	37	chr7	143701479	143701479	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gtggccatctgtcgcccactCcactacccaaccataatgag	7	16	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:143701479C>A	uc003wdt.1	+	1	390	c.390C>A	c.(388-390)CTC>CTA	p.L130L		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					GTCGCCCACTCCACTACCCAA	0.532													21	47	---	---	---	---	PASS	A	143701479	A	A	143701479	2	1	141	1	0	0	0	0	0	0	0	1	11187	842	30	2		2	OR6B1	7	143701479	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	15286349	143701479	15437184	102	50236										
CNTNAP2	26047	broad.mit.edu	37	chr7	147336265	147336265	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cctgtggtcggctacaacccAgaaaaatactcagtgacaca	8	12	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:147336265A>T	uc003weu.1	+	13	2481	c.1965A>T	c.(1963-1965)CCA>CCT	p.P655P		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	655	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GCTACAACCCAGAAAAATACT	0.512										HNSCC(39;0.1)			21	71	---	---	---	---	PASS	T	147336265	T	T	147336265	2	4	141	1	0	0	0	0	0	0	0	1	3647	175	7	5		5	CNTNAP2	7	147336265	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08	3634786	147336265	11802398	103	50237										
C7orf33	202865	broad.mit.edu	37	chr7	148312428	148312428	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tccacatgtaggtacgtgggCatgaagtaagaaagctccag	12	8	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:148312428C>T	uc003wew.2	+	3	830	c.469C>T	c.(469-471)CAT>TAT	p.H157Y		NM_145304	NP_660347	Q8WU49	CG033_HUMAN	hypothetical protein LOC202865	157										central_nervous_system(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GGTACGTGGGCATGAAGTAAG	0.388													30	59	---	---	---	---	PASS	T	148312428	T	T	148312428	3	4	141	1	0	0	0	0	1	0	0	0	2388	710	25	3	479	3	C7orf33	7	148312428	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	976163	148312428	10826235	104	50238										
CLN8	2055	broad.mit.edu	37	chr8	1728421	1728421	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cttctctccatgcaggcgggCtggtccgagtctctgttttg	12	12	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:1728421C>G	uc003wpo.3	+	3	854	c.549C>G	c.(547-549)GGC>GGG	p.G183G		NM_018941	NP_061764	Q9UBY8	CLN8_HUMAN	ceroid-lipofuscinosis, neuronal 8	183	TLC.				cell death|ceramide biosynthetic process|cholesterol metabolic process|lipid transport|negative regulation of proteolysis|phospholipid metabolic process	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(12;0.0563)|Colorectal(14;0.0815)|Hepatocellular(245;0.0831)		BRCA - Breast invasive adenocarcinoma(11;7.67e-05)|READ - Rectum adenocarcinoma(644;0.0913)		TGCAGGCGGGCTGGTCCGAGT	0.453													9	25	---	---	---	---	PASS	G	1728421	G	G	1728421	2	3	141	1	0	0	0	0	0	0	0	1	3546	784	28	4		4	CLN8	8	1728421	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08		1728421	144635601	105	50239										
RP1L1	94137	broad.mit.edu	37	chr8	10470689	10470689	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gaccttcttcttcatgtcatCgccagccaccagcgggcccg	9	17	4	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:10470689C>T	uc003wtc.2	-	4	1148	c.919G>A	c.(919-921)GAT>AAT	p.D307N		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	307					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TTCATGTCATCGCCAGCCACC	0.647													14	43	---	---	---	---	PASS	T	10470689	T	T	10470689	3	4	141	1	0	0	0	0	1	0	0	0	13533	884	31	2	6287	2	RP1L1	8	10470689	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	8742268	10470689	135893333	106	50240										
DLC1	10395	broad.mit.edu	37	chr8	13357058	13357058	+	Missense_Mutation	SNP	C	T	T													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tctctccccactttcttttaCcagtgctaattcagtttcac							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:13357058C>T	uc003wwm.2	-	2	967	c.523G>A	c.(523-525)GTA>ATA	p.V175I	DLC1_uc003wwn.2_Missense_Mutation_p.V175I|DLC1_uc011kxy.1_Missense_Mutation_p.V175I	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	175					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CTTTCTTTTACCAGTGCTAAT	0.408													12	82	---	---	---	---	PASS	T	13357058	T	T	13357058	3	4	141	1	0	0	0	0	1	0	0	0	4550	507	18	3	4216	3	DLC1	8	13357058	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	2886369	13357058	133006964	107	50241	921	2								
DLC1	10395	broad.mit.edu	37	chr8	13357059	13357059	+	Silent	SNP	C	A	A													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctctccccactttcttttacCagtgctaattcagtttcacc					rs147848228		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:13357059C>A	uc003wwm.2	-	2	966	c.522G>T	c.(520-522)CTG>CTT	p.L174L	DLC1_uc003wwn.2_Silent_p.L174L|DLC1_uc011kxy.1_Silent_p.L174L	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	174					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TTTCTTTTACCAGTGCTAATT	0.408													12	81	---	---	---	---	PASS	A	13357059	A	A	13357059	2	1	141	1	0	0	0	0	0	0	0	1	4550	581	21	3		3	DLC1	8	13357059	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	1	13357059	133006963	108	50242	921	2								
SLC20A2	6575	broad.mit.edu	37	chr8	42294928	42294928	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttcctgggctggcttctcctCggggcccctgtcgatgtgga	14	13	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:42294928C>A	uc010lxl.2	-	8	1796	c.1102G>T	c.(1102-1104)GAG>TAG	p.E368*	SLC20A2_uc010lxm.2_Nonsense_Mutation_p.E368*|SLC20A2_uc003xpe.2_Nonsense_Mutation_p.E368*|SLC20A2_uc011lcu.1_Nonsense_Mutation_p.E170*	NM_006749	NP_006740	Q08357	S20A2_HUMAN	solute carrier family 20, member 2	368	Cytoplasmic (Potential).				interspecies interaction between organisms	integral to plasma membrane|membrane fraction	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			ovary(2)	2	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;5.73e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00419)|Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GGCTTCTCCTCGGGGCCCCTG	0.597													25	63	---	---	---	---	PASS	A	42294928	A	A	42294928	4	1	141	1	0	0	0	0	0	1	0	0	14439	893	31	2	872	2	SLC20A2	8	42294928	Nonsense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	28937869	42294928	104069094	109	50243										
TOX	9760	broad.mit.edu	37	chr8	59728236	59728236	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	accgacggcttcgaattgatCagctgaggaggttgagatgt	14	7	1	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:59728236C>G	uc003xtw.1	-	7	1274	c.1053G>C	c.(1051-1053)CTG>CTC	p.L351L		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	351						nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				TCGAATTGATCAGCTGAGGAG	0.512													15	34	---	---	---	---	PASS	G	59728236	G	G	59728236	2	3	141	1	0	0	0	0	0	0	0	1	16374	813	29	2		2	TOX	8	59728236	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	17433308	59728236	86635786	110	50244										
GGH	8836	broad.mit.edu	37	chr8	63938734	63938734	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tacctccagtgaagttcagcGgcattgccacgtcaacagta	9	12	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:63938734G>A	uc003xuw.2	-	5	765	c.482C>T	c.(481-483)CCG>CTG	p.P161L		NM_003878	NP_003869	Q92820	GGH_HUMAN	gamma-glutamyl hydrolase precursor	161	Gamma-glutamyl hydrolase.				glutamine metabolic process	extracellular space|lysosome|melanosome	gamma-glutamyl-peptidase activity				0	Breast(64;0.0716)	all_cancers(86;0.189)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.131)			Folic Acid(DB00158)|L-Glutamic Acid(DB00142)	GAAGTTCAGCGGCATTGCCAC	0.418													10	37	---	---	---	---	PASS	A	63938734	A	A	63938734	3	1	141	1	0	0	0	0	1	0	0	0	6357	1116	39	1	494	1	GGH	8	63938734	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	4210498	63938734	82425288	111	50245										
CYP7B1	9420	broad.mit.edu	37	chr8	65509278	65509278	+	Missense_Mutation	SNP	C	A	A													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	acaagcggctgtagtttagtCctatgggcttatcatcaatt							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:65509278C>A	uc003xvj.2	-	6	1646	c.1442G>T	c.(1441-1443)GGA>GTA	p.G481V		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	481					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				GTAGTTTAGTCCTATGGGCTT	0.303													10	27	---	---	---	---	PASS	A	65509278	A	A	65509278	3	1	141	1	0	0	0	0	1	0	0	0	4197	855	30	2	82	2	CYP7B1	8	65509278	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	1570544	65509278	80854744	112	50246	922	2								
CYP7B1	9420	broad.mit.edu	37	chr8	65509282	65509282	+	Missense_Mutation	SNP	T	A	A													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gcggctgtagtttagtcctaTgggcttatcatcaattattt							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:65509282T>A	uc003xvj.2	-	6	1642	c.1438A>T	c.(1438-1440)ATA>TTA	p.I480L		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	480					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				TTTAGTCCTATGGGCTTATCA	0.318													9	27	---	---	---	---	PASS	A	65509282	A	A	65509282	3	1	141	1	0	0	0	0	1	0	0	0	4197	1464	51	5	86	5	CYP7B1	8	65509282	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	4	65509282	80854740	113	50247	922	2								
PI15	51050	broad.mit.edu	37	chr8	75737654	75737654	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agcggatatccccaaagccaGgcggaagcgctacatttcgc	11	13	0	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:75737654G>C	uc003yal.2	+	2	349	c.170G>C	c.(169-171)AGG>ACG	p.R57T	uc003yak.1_Intron|PI15_uc003yam.2_Missense_Mutation_p.R57T	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	57						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			CCCAAAGCCAGGCGGAAGCGC	0.448													10	68	---	---	---	---	PASS	C	75737654	C	C	75737654	3	2	141	1	0	0	0	0	1	0	0	0	11868	1000	35	4	172	4	PI15	8	75737654	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	10228372	75737654	70626368	114	50248										
STMN2	11075	broad.mit.edu	37	chr8	80553671	80553671	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	caggcttttgagctgatcttGaagccaccatctcctatctc	7	13	3	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:80553671G>C	uc003ybj.2	+	3	225	c.174G>C	c.(172-174)TTG>TTC	p.L58F	STMN2_uc010lzp.2_RNA|STMN2_uc011lfn.1_Missense_Mutation_p.L58F	NM_007029	NP_008960	Q93045	STMN2_HUMAN	superiorcervical ganglia, neural specific 10	58	Regulatory/phosphorylation domain (Potential).				intracellular signal transduction|negative regulation of microtubule depolymerization|negative regulation of microtubule polymerization|negative regulation of neuron projection development|neuron differentiation|positive regulation of microtubule depolymerization|positive regulation of neuron projection development	axon|growth cone|membrane|membrane fraction|perinuclear region of cytoplasm|soluble fraction	protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(9;8.34e-05)		Epithelial(68;0.0229)|all cancers(69;0.0874)			AGCTGATCTTGAAGCCACCAT	0.458													27	34	---	---	---	---	PASS	C	80553671	C	C	80553671	3	2	141	1	0	0	0	0	1	0	0	0	15308	1281	45	2	184	2	STMN2	8	80553671	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	4816017	80553671	65810351	115	50249										
PKHD1L1	93035	broad.mit.edu	37	chr8	110476886	110476886	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gtcaaaaaagagttccccttGgcgaattttttaacaatact	6	8	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:110476886G>T	uc003yne.2	+	49	7929	c.7825G>T	c.(7825-7827)GGC>TGC	p.G2609C		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2609	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			AGTTCCCCTTGGCGAATTTTT	0.433										HNSCC(38;0.096)			25	76	---	---	---	---	PASS	T	110476886	T	T	110476886	3	4	141	1	0	0	0	0	1	0	0	0	11972	1348	47	3	8019	3	PKHD1L1	8	110476886	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	29923215	110476886	35887136	116	50250										
CSMD3	114788	broad.mit.edu	37	chr8	113697704	113697704	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aaattccaatcgcagtatgtGactattactagtaagatggg	9	6	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:113697704G>A	uc003ynu.2	-	15	2572	c.2413C>T	c.(2413-2415)CAC>TAC	p.H805Y	CSMD3_uc003yns.2_Missense_Mutation_p.H77Y|CSMD3_uc003ynt.2_Missense_Mutation_p.H765Y|CSMD3_uc011lhx.1_Missense_Mutation_p.H701Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	805	Extracellular (Potential).|CUB 4.					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						CGCAGTATGTGACTATTACTA	0.418										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			22	41	---	---	---	---	PASS	A	113697704	A	A	113697704	3	1	141	1	0	0	0	0	1	0	0	0	3946	1290	45	2	8938	2	CSMD3	8	113697704	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	3220818	113697704	32666318	117	50251										
ZFAT	57623	broad.mit.edu	37	chr8	135533199	135533199	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tcaagtgcctattgaactccCatttggtgccatatacaaag	7	10	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:135533199C>A	uc003yup.2	-	13	3336	c.3161G>T	c.(3160-3162)TGG>TTG	p.W1054L	ZFAT_uc011ljj.1_Missense_Mutation_p.W173L|ZFAT_uc003yun.2_Missense_Mutation_p.W1042L|ZFAT_uc003yuo.2_Missense_Mutation_p.W1042L|ZFAT_uc010meh.2_Missense_Mutation_p.W1042L|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.W1042L|ZFAT_uc010mej.2_Missense_Mutation_p.W992L	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	1054	C2H2-type 19.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			ATTGAACTCCCATTTGGTGCC	0.388													17	35	---	---	---	---	PASS	A	135533199	A	A	135533199	3	1	141	1	0	0	0	0	1	0	0	0	17629	595	21	3	586	3	ZFAT	8	135533199	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	21835495	135533199	10830823	118	50252										
COL22A1	169044	broad.mit.edu	37	chr8	139611003	139611003	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctggcctggaggccctggggGtccaactggtccattctccc	13	15	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:139611003G>C	uc003yvd.2	-	61	4771	c.4324C>G	c.(4324-4326)CCC>GCC	p.P1442A	COL22A1_uc011ljo.1_Missense_Mutation_p.P722A	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1442	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)			GGCCCTGGGGGTCCAACTGGT	0.622										HNSCC(7;0.00092)			19	25	---	---	---	---	PASS	C	139611003	C	C	139611003	3	2	141	1	0	0	0	0	1	0	0	0	3681	1261	44	4	576	4	COL22A1	8	139611003	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	4077804	139611003	6753019	119	50253										
ASB6	140459	broad.mit.edu	37	chr9	132400573	132400573	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gactcgtgggctgggcactcGctggggtcggccccgtgtgc	18	13	0	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr9:132400573G>C	uc004byf.1	-	6	928	c.762C>G	c.(760-762)AGC>AGG	p.S254R	ASB6_uc004bye.1_Missense_Mutation_p.S179R|ASB6_uc004byg.1_3'UTR|ASB6_uc011mbt.1_Missense_Mutation_p.S175R|ASB6_uc010myx.1_Missense_Mutation_p.S225R	NM_017873	NP_060343	Q9NWX5	ASB6_HUMAN	ankyrin repeat and SOCS box-containing 6 isoform	254	ANK 5.				intracellular signal transduction	cytoplasm					0		Ovarian(14;0.00556)				CTGGGCACTCGCTGGGGTCGG	0.622													11	14	---	---	---	---	PASS	C	132400573	C	C	132400573	3	2	141	1	0	0	0	0	1	0	0	0	1027	1078	38	4	507	4	ASB6	9	132400573	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08		132400573	8812858	120	50254										
VAV2	7410	broad.mit.edu	37	chr9	136662858	136662858	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tttctgcctgaagtcctcccGgctggccaggagctggttca	12	13	2	1	rs150680379		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr9:136662858G>C	uc004ces.2	-	10	956	c.910C>G	c.(910-912)CGG>GGG	p.R304G	VAV2_uc004cer.2_Missense_Mutation_p.R299G	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	304	DH.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		AAGTCCTCCCGGCTGGCCAGG	0.617													5	9	---	---	---	---	PASS	C	136662858	C	C	136662858	3	2	141	1	0	0	0	0	1	0	0	0	17129	1115	39	4	1810	4	VAV2	9	136662858	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	4262285	136662858	4550573	121	50255										
VAV2	7410	broad.mit.edu	37	chr9	136726513	136726513	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cacctgatccctttgttctgCgcgatgctgtgcagggagag	13	11	1	2	rs145591299	byFrequency	TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr9:136726513C>A	uc004ces.2	-	3	409	c.363G>T	c.(361-363)GCG>GCT	p.A121A	VAV2_uc004cer.2_Silent_p.A121A	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	121					angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		CTTTGTTCTGCGCGATGCTGT	0.567													3	7	---	---	---	---	PASS	A	136726513	A	A	136726513	2	1	141	1	0	0	0	0	0	0	0	1	17129	755	27	1		1	VAV2	9	136726513	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	63655	136726513	4486918	122	50256										
NSUN6	221078	broad.mit.edu	37	chr10	18835047	18835047	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	acatgagagcccagctccccTcattccttctcctccaatct	4	18	3	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:18835047T>A	uc010qcp.1	-	11	1643	c.1225A>T	c.(1225-1227)AGG>TGG	p.R409W	NSUN6_uc001iqb.2_5'Flank	NM_182543	NP_872349	Q8TEA1	NSUN6_HUMAN	NOL1/NOP2/Sun domain family, member 6	409							methyltransferase activity|RNA binding			ovary(2)	2						CCAGCTCCCCTCATTCCTTCT	0.463													15	86	---	---	---	---	PASS	A	18835047	A	A	18835047	3	1	141	1	0	0	0	0	1	0	0	0	10682	1550	54	5	188	5	NSUN6	10	18835047	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08		18835047	116699700	123	50257										
GAD2	2572	broad.mit.edu	37	chr10	26518595	26518595	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttgctgtgcactttaggtggCgccatatctaacatgtatgc	10	9	1	0	rs149136572	by1000genomes	TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:26518595C>A	uc001isp.2	+	7	1232	c.729C>A	c.(727-729)GGC>GGA	p.G243G	GAD2_uc001isq.2_Silent_p.G243G	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	243					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	CTTTAGGTGGCGCCATATCTA	0.443													12	18	---	---	---	---	PASS	A	26518595	A	A	26518595	2	1	141	1	0	0	0	0	0	0	0	1	6180	755	27	1		1	GAD2	10	26518595	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	7683548	26518595	109016152	124	50258										
APBB1IP	54518	broad.mit.edu	37	chr10	26789824	26789824	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gcagacataagtgaggctgaGcagaggacaatccaggcaca	13	9	0	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:26789824G>T	uc001iss.2	+	5	558	c.237G>T	c.(235-237)GAG>GAT	p.E79D	APBB1IP_uc001isr.2_Missense_Mutation_p.E79D|APBB1IP_uc009xks.1_Missense_Mutation_p.E79D	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	79					blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						GTGAGGCTGAGCAGAGGACAA	0.438													21	46	---	---	---	---	PASS	T	26789824	T	T	26789824	3	4	141	1	0	0	0	0	1	0	0	0	760	962	34	3	247	3	APBB1IP	10	26789824	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	271229	26789824	108744923	125	50259										
SVIL	6840	broad.mit.edu	37	chr10	29812615	29812615	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctggctcggttcaggatgggGtaggatgcttctgcttcctc	14	10	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:29812615G>T	uc001iut.1	-	15	3681	c.2928C>A	c.(2926-2928)TAC>TAA	p.Y976*	SVIL_uc010qdw.1_5'Flank|SVIL_uc001iuu.1_Nonsense_Mutation_p.Y550*	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	976					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TCAGGATGGGGTAGGATGCTT	0.517													6	47	---	---	---	---	PASS	T	29812615	T	T	29812615	4	4	141	1	0	0	0	0	0	1	0	0	15418	1256	44	3	3812	3	SVIL	10	29812615	Nonsense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	3022791	29812615	105722132	126	50260										
ANKRD30A	91074	broad.mit.edu	37	chr10	37430680	37430680	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggaacacctgatgaggctgcAcccttggcggaaagaacacc	12	12	0	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:37430680A>G	uc001iza.1	+	7	786	c.687A>G	c.(685-687)GCA>GCG	p.A229A		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	285						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						ATGAGGCTGCACCCTTGGCGG	0.398													9	21	---	---	---	---	PASS	G	37430680	G	G	37430680	2	3	141	1	0	0	0	0	0	0	0	1	658	146	6	5		5	ANKRD30A	10	37430680	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08	7618065	37430680	98104067	127	50261										
ZNF37A	7587	broad.mit.edu	37	chr10	38407647	38407647	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	acacacaggggagaaaccctAtgaatgtaatgtttgtggaa	11	6	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:38407647A>G	uc001izk.2	+	8	2387	c.1568A>G	c.(1567-1569)TAT>TGT	p.Y523C	ZNF37A_uc001izl.2_Missense_Mutation_p.Y523C|ZNF37A_uc001izm.2_Missense_Mutation_p.Y523C	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	523	C2H2-type 12.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						GAGAAACCCTATGAATGTAAT	0.358													4	26	---	---	---	---	PASS	G	38407647	G	G	38407647	3	3	141	1	0	0	0	0	1	0	0	0	17869	449	16	5	1582	5	ZNF37A	10	38407647	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	976967	38407647	97127100	128	50262										
RBP3	5949	broad.mit.edu	37	chr10	48389413	48389413	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gtaggacaggagcaggggcaCagcagaggatggccctccag	17	10	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:48389413C>G	uc001jez.2	-	1	1579	c.1465G>C	c.(1465-1467)GTG>CTG	p.V489L		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	489	4 X approximate tandem repeats.|2.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	AGCAGGGGCACAGCAGAGGAT	0.642													7	6	---	---	---	---	PASS	G	48389413	G	G	48389413	3	3	141	1	0	0	0	0	1	0	0	0	13157	478	17	4	2294	4	RBP3	10	48389413	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	9981766	48389413	87145334	129	50263										
SLC18A3	6572	broad.mit.edu	37	chr10	50820165	50820165	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tggcatgggactggccaaccTgctctatgctcccgtcttgc	11	14	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:50820165T>A	uc001jhw.2	+	1	1819	c.1379T>A	c.(1378-1380)CTG>CAG	p.L460Q	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	460	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CTGGCCAACCTGCTCTATGCT	0.637													3	13	---	---	---	---	PASS	A	50820165	A	A	50820165	3	1	141	1	0	0	0	0	1	0	0	0	14427	1580	55	5	1381	5	SLC18A3	10	50820165	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	2430752	50820165	84714582	130	50264										
CHAT	1103	broad.mit.edu	37	chr10	50856551	50856551	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cactccctctttcctgttgcAgtttgtggtgggccgagacg	12	12	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:50856551A>G	uc001jhz.2	+	9	1435	c.1282_splice	c.e9-2	p.F428_splice	CHAT_uc001jhv.1_Splice_Site_p.F310_splice|CHAT_uc001jhx.1_Splice_Site_p.F310_splice|CHAT_uc001jhy.1_Splice_Site_p.F310_splice|CHAT_uc001jia.2_Splice_Site_p.F310_splice|CHAT_uc010qgs.1_Splice_Site_p.F310_splice	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2						neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	TTCCTGTTGCAGTTTGTGGTG	0.607													3	9	---	---	---	---	PASS	G	50856551	G	G	50856551	5	3	141	1	0	0	0	0	0	0	1	0	3313	202	7	5	1358	5	CHAT	10	50856551	Splice_Site	SNP	A	TCGA-66-2742-01A-01D-0983-08	36386	50856551	84678196	131	50265										
PDLIM1	9124	broad.mit.edu	37	chr10	97007015	97007015	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tcctgcaaaaccaagaaagaCgtggactgtttcgggggctc	12	10	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:97007015C>T	uc001kkh.2	-	5	751	c.642G>A	c.(640-642)ACG>ACA	p.T214T	PDLIM1_uc001kki.2_Silent_p.T214T|PDLIM1_uc009xuv.2_Silent_p.T214T|PDLIM1_uc001kkj.1_Silent_p.T214T	NM_020992	NP_066272	O00151	PDLI1_HUMAN	PDZ and LIM domain 1	214					response to oxidative stress	cytoplasm|cytoskeleton	zinc ion binding				0		Colorectal(252;0.083)		Epithelial(162;1.64e-06)|all cancers(201;3.71e-05)		CCAAGAAAGACGTGGACTGTT	0.468													19	95	---	---	---	---	PASS	T	97007015	T	T	97007015	2	4	141	1	0	0	0	0	0	0	0	1	11679	523	19	1		1	PDLIM1	10	97007015	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	46150464	97007015	38527732	132	50266										
C10orf62	414157	broad.mit.edu	37	chr10	99350269	99350269	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttctatggccacagtcaccaCagtcaccatggccacccaag	7	16	3	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:99350269C>T	uc001koa.2	+	1	786	c.615C>T	c.(613-615)CAC>CAT	p.H205H	DHDPSL_uc001knx.2_Intron|DHDPSL_uc001kny.2_Intron|DHDPSL_uc001knz.2_Intron|PI4K2A_uc010qoy.1_Intron	NM_001009997	NP_001009997	Q5T681	CJ062_HUMAN	hypothetical protein LOC414157	205	His-rich.						protein binding				0		Colorectal(252;0.162)		Epithelial(162;9.58e-11)|all cancers(201;8.62e-09)		ACAGTCACCACAGTCACCATG	0.532													10	38	---	---	---	---	PASS	T	99350269	T	T	99350269	2	4	141	1	0	0	0	0	0	0	0	1	1611	477	17	3		3	C10orf62	10	99350269	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	2343254	99350269	36184478	133	50267										
PSD	5662	broad.mit.edu	37	chr10	104176612	104176612	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgtacagggtgctgtcacacGtcccagttcccggcctcgag	12	14	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:104176612G>A	uc001kvg.1	-	2	711	c.184C>T	c.(184-186)CGT>TGT	p.R62C	PSD_uc001kvh.1_Intron|PSD_uc009xxd.1_Missense_Mutation_p.R62C|PSD_uc001kvi.1_Missense_Mutation_p.R62C|FBXL15_uc001kvj.1_5'Flank|FBXL15_uc001kvk.2_5'Flank	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	62	Pro-rich.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		GCTGTCACACGTCCCAGTTCC	0.697													13	23	---	---	---	---	PASS	A	104176612	A	A	104176612	3	1	141	1	0	0	0	0	1	0	0	0	12646	1145	40	1	2954	1	PSD	10	104176612	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	4826343	104176612	31358135	134	50268										
COL17A1	1308	broad.mit.edu	37	chr10	105814742	105814742	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gcccatgttataattaccttTagggcctggacttcccatgt	8	11	0	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:105814742T>A	uc001kxr.2	-	20	1910	c.1741A>T	c.(1741-1743)AAA>TAA	p.K581*	COL17A1_uc010qqv.1_Nonsense_Mutation_p.K565*	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	581	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TAATTACCTTTAGGGCCTGGA	0.398													6	31	---	---	---	---	PASS	A	105814742	A	A	105814742	4	1	141	1	0	0	0	0	0	1	0	0	3674	1763	61	5	2900	5	COL17A1	10	105814742	Nonsense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	1638130	105814742	29720005	135	50269										
FAM53B	9679	broad.mit.edu	37	chr10	126311970	126311970	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tcctcacaggacaggtcctcCtggcaggcgaggtggtcgtc	14	13	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:126311970C>A	uc001lhv.1	-	5	1633	c.1110G>T	c.(1108-1110)CAG>CAT	p.Q370H	FAM53B_uc001lhu.1_Intron	NM_014661	NP_055476	Q14153	FA53B_HUMAN	hypothetical protein LOC9679	370										ovary(1)|pancreas(1)	2		all_lung(145;0.0191)|Lung NSC(174;0.0301)|Colorectal(57;0.106)|all_neural(114;0.117)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.15)		ACAGGTCCTCCTGGCAGGCGA	0.726													8	12	---	---	---	---	PASS	A	126311970	A	A	126311970	3	1	141	1	0	0	0	0	1	0	0	0	5580	680	24	3	162	3	FAM53B	10	126311970	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	20497228	126311970	9222777	136	50270										
OR51V1	283111	broad.mit.edu	37	chr11	5221861	5221861	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctccatgccagaaaatccagTgagaagaaaggaagaattcg	10	8	0	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:5221861T>G	uc010qyz.1	-	1	70	c.70A>C	c.(70-72)ACT>CCT	p.T24P		NM_001004760	NP_001004760	Q9H2C8	O51V1_HUMAN	olfactory receptor, family 51, subfamily V,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.83e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAAAATCCAGTGAGAAGAAAG	0.438													21	37	---	---	---	---	PASS	G	5221861	G	G	5221861	3	3	141	1	0	0	0	0	1	0	0	0	11107	1696	59	5	898	5	OR51V1	11	5221861	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08		5221861	129784655	137	50271										
OR51B6	390058	broad.mit.edu	37	chr11	5373352	5373352	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gtagttttatttgcaatggtCttgttggactttctcatcat	8	6	3	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:5373352C>G	uc010qzb.1	+	1	615	c.615C>G	c.(613-615)GTC>GTG	p.V205V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	205	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTGCAATGGTCTTGTTGGACT	0.443													13	33	---	---	---	---	PASS	G	5373352	G	G	5373352	2	3	141	1	0	0	0	0	0	0	0	1	11092	900	32	2		2	OR51B6	11	5373352	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	151491	5373352	129633164	138	50272										
MYOD1	4654	broad.mit.edu	37	chr11	17741491	17741491	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ccgcgcctgatgcacgtgggCgcgctcctgaaacccgaaga	13	15	0	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:17741491C>A	uc001mni.2	+	1	382	c.162C>A	c.(160-162)GGC>GGA	p.G54G		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	54					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						TGCACGTGGGCGCGCTCCTGA	0.687													11	4	---	---	---	---	PASS	A	17741491	A	A	17741491	2	1	141	1	0	0	0	0	0	0	0	1	10088	755	27	1		1	MYOD1	11	17741491	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	12368139	17741491	117265025	139	50273										
MRGPRX1	259249	broad.mit.edu	37	chr11	18955986	18955986	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	caggcagcgctcggtgctcaCggcactcagaaagctcaggc	13	14	3	1	rs145122494		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:18955986C>G	uc001mpg.2	-	1	564	c.346G>C	c.(346-348)GTG>CTG	p.V116L		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	116	Helical; Name=3; (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						TCGGTGCTCACGGCACTCAGA	0.567													25	31	---	---	---	---	PASS	G	18955986	G	G	18955986	3	3	141	1	0	0	0	0	1	0	0	0	9766	536	19	4	626	4	MRGPRX1	11	18955986	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	1214495	18955986	116050530	140	50274										
OR4C11	219429	broad.mit.edu	37	chr11	55371721	55371721	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctggacttgatggtcacaatAatgagcatattccccaccac	7	12	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:55371721A>T	uc010rii.1	-	1	129	c.129T>A	c.(127-129)ATT>ATA	p.I43I		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TGGTCACAATAATGAGCATAT	0.403													27	30	---	---	---	---	PASS	T	55371721	T	T	55371721	2	4	141	1	0	0	0	0	0	0	0	1	11045	358	13	5		5	OR4C11	11	55371721	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08	36415735	55371721	79634795	141	50275										
OR5M9	390162	broad.mit.edu	37	chr11	56230073	56230073	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aaacacagccaccattttgcCctgctctacggattcctcag	6	15	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:56230073C>A	uc010rjj.1	-	1	805	c.805G>T	c.(805-807)GGC>TGC	p.G269C		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					ACCATTTTGCCCTGCTCTACG	0.458													19	19	---	---	---	---	PASS	A	56230073	A	A	56230073	3	1	141	1	0	0	0	0	1	0	0	0	11177	623	22	3	129	3	OR5M9	11	56230073	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	858352	56230073	78776443	142	50276										
NXF1	10482	broad.mit.edu	37	chr11	62569222	62569222	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctgcctcacctttagctgttCtacttgttctggcttcagtt	7	12	4	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:62569222C>T	uc001nvf.1	-	6	764	c.628G>A	c.(628-630)GAA>AAA	p.E210K	NXF1_uc001nvg.1_Missense_Mutation_p.E210K|NXF1_uc009yog.1_Missense_Mutation_p.E253K|NXF1_uc010rmh.1_Missense_Mutation_p.E73K	NM_006362	NP_006353	Q9UBU9	NXF1_HUMAN	nuclear RNA export factor 1 isoform 1	210	Interaction with THOC4.				gene expression|interspecies interaction between organisms	cytosol|nuclear speck	nucleotide binding|protein binding			skin(3)	3						TTTAGCTGTTCTACTTGTTCT	0.473													101	58	---	---	---	---	PASS	T	62569222	T	T	62569222	3	4	141	1	0	0	0	0	1	0	0	0	10782	922	32	2	1350	2	NXF1	11	62569222	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	6339149	62569222	72437294	143	50277										
SLCO2B1	11309	broad.mit.edu	37	chr11	74883491	74883491	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tggctgggtttcctcatcgcTgccggtgcagtggccctggc	15	13	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:74883491T>A	uc001owb.2	+	7	1236	c.849T>A	c.(847-849)GCT>GCA	p.A283A	SLCO2B1_uc010rrq.1_Silent_p.A28A|SLCO2B1_uc010rrr.1_Silent_p.A139A|SLCO2B1_uc010rrs.1_Silent_p.A167A|SLCO2B1_uc001owc.2_Silent_p.A56A|SLCO2B1_uc001owd.2_Silent_p.A261A	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	283	Helical; Name=6; (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	TCCTCATCGCTGCCGGTGCAG	0.562													25	25	---	---	---	---	PASS	A	74883491	A	A	74883491	2	1	141	1	0	0	0	0	0	0	0	1	14727	1567	55	5		5	SLCO2B1	11	74883491	Silent	SNP	T	TCGA-66-2742-01A-01D-0983-08	12314269	74883491	60123025	144	50278										
FAT3	120114	broad.mit.edu	37	chr11	92495111	92495111	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gaaaatgacaacaagccccaGttcccagagaaggtctacca	8	12	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:92495111G>A	uc001pdj.3	+	4	3776	c.3759G>A	c.(3757-3759)CAG>CAA	p.Q1253Q		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1253	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACAAGCCCCAGTTCCCAGAGA	0.483										TCGA Ovarian(4;0.039)			109	91	---	---	---	---	PASS	A	92495111	A	A	92495111	2	1	141	1	0	0	0	0	0	0	0	1	5691	1020	36	3		3	FAT3	11	92495111	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	17611620	92495111	42511405	145	50279										
CASP4	837	broad.mit.edu	37	chr11	104822634	104822635	+	Frame_Shift_Del	DEL	TT	-	-													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gcatagcacctcttcagctcTttctttacatagtctcagga							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:104822634_104822635delTT	uc001pid.1	-	3	433_434	c.360_361delAA	c.(358-363)GAAAGAfs	p.E120fs	CASP4_uc001pib.1_Frame_Shift_Del_p.E64fs|CASP4_uc009yxg.1_Frame_Shift_Del_p.E29fs|CASP4_uc010rux.1_Frame_Shift_Del_p.E120fs|CASP4_uc010ruy.1_Frame_Shift_Del_p.E120fs	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor	120_121					apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		TCTTCAGCTCTTTCTTTACATA	0.406													24	12	---	---	---	---		-	104822635	-	-	104822634	7	5	141	1	0	1	0	1	0	0	0	0	2673	1617	56	0	796	0	CASP4	11	104822634	Frame_Shift_Del	DEL	TT	TCGA-66-2742-01A-01D-0983-08	12327523	104822634	30183882	146	50280										
CD3D	915	broad.mit.edu	37	chr11	118211200	118211200	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttcccaggtccagtcttgtaAtgtctgagagcagtgttccc	10	11	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:118211200A>T	uc001pss.1	-	2	301	c.164T>A	c.(163-165)ATT>AAT	p.I55N	CD3D_uc001pst.1_Missense_Mutation_p.I55N	NM_000732	NP_000723	P04234	CD3D_HUMAN	CD3 antigen, delta subunit isoform A precursor	55	Extracellular (Potential).				positive thymic T cell selection|T cell costimulation|T cell receptor signaling pathway	cytoplasm|integral to membrane	protein heterodimerization activity			ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.04e-05)		CAGTCTTGTAATGTCTGAGAG	0.448													13	25	---	---	---	---	PASS	T	118211200	T	T	118211200	3	4	141	1	0	0	0	0	1	0	0	0	3010	101	4	5	367	5	CD3D	11	118211200	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	13388566	118211200	16795316	147	50281										
OR8B2	26595	broad.mit.edu	37	chr11	124252427	124252427	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gtgtagaaaacagaagaaacTtttccctgctccatagatcc	7	10	0	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:124252427T>G	uc010sai.1	-	1	813	c.813A>C	c.(811-813)AAA>AAC	p.K271N		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	271	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		CAGAAGAAACTTTTCCCTGCT	0.418													13	73	---	---	---	---	PASS	G	124252427	G	G	124252427	3	3	141	1	0	0	0	0	1	0	0	0	11227	1606	56	5	131	5	OR8B2	11	124252427	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	6041227	124252427	10754089	148	50282										
OR8B2	26595	broad.mit.edu	37	chr11	124252924	124252924	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	acattcagagatgacgaaaaAgagaaagaaaaacagccgag	10	6	1	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:124252924A>G	uc010sai.1	-	1	316	c.316T>C	c.(316-318)TTT>CTT	p.F106L		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	106	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		ATGACGAAAAAGAGAAAGAAA	0.388													61	48	---	---	---	---	PASS	G	124252924	G	G	124252924	3	3	141	1	0	0	0	0	1	0	0	0	11227	72	3	5	628	5	OR8B2	11	124252924	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	497	124252924	10753592	149	50283										
LST-3TM12	338821	broad.mit.edu	37	chr12	21175876	21175876	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aaacccccatagtaccattgGggatttcttacattgatgat	7	9	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:21175876G>T	uc010sin.1	+	4	433	c.433G>T	c.(433-435)GGG>TGG	p.G145W	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Missense_Mutation_p.G192W	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	145						membrane	transporter activity				0						AGTACCATTGGGGATTTCTTA	0.383													10	21	---	---	---	---	PASS	T	21175876	T	T	21175876	3	4	141	1	0	0	0	0	1	0	0	0	9066	1232	43	3	447	3	LST-3TM12	12	21175876	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08		21175876	112676019	150	50284										
ADAMTS20	80070	broad.mit.edu	37	chr12	43858395	43858395	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aggaattttcttttcttactAtatggggacacatttgtgac	8	6	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:43858395A>G	uc010skx.1	-	10	1508	c.1508T>C	c.(1507-1509)ATA>ACA	p.I503T		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	503	Disintegrin.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TTTTCTTACTATATGGGGACA	0.338													16	37	---	---	---	---	PASS	G	43858395	G	G	43858395	3	3	141	1	0	0	0	0	1	0	0	0	266	463	16	5	4343	5	ADAMTS20	12	43858395	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	22682519	43858395	89993500	151	50285										
ERBB3	2065	broad.mit.edu	37	chr12	56495001	56495001	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	caatgtgtaggagccggagcAggagccggagcccacggcca	16	12	0	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:56495001A>G	uc001sjh.2	+	27	3551	c.3358A>G	c.(3358-3360)AGG>GGG	p.R1120G	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Missense_Mutation_p.R477G|ERBB3_uc010sqc.1_Missense_Mutation_p.R1061G|ERBB3_uc009zok.2_Missense_Mutation_p.R385G|ERBB3_uc001sjk.2_Missense_Mutation_p.R361G|ERBB3_uc001sjl.2_Missense_Mutation_p.R240G	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	1120	Cytoplasmic (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			GAGCCGGAGCAGGAGCCGGAG	0.612													13	17	---	---	---	---	PASS	G	56495001	G	G	56495001	3	3	141	1	0	0	0	0	1	0	0	0	5208	179	7	5	3595	5	ERBB3	12	56495001	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	12636606	56495001	77356894	152	50286										
GEFT	115557	broad.mit.edu	37	chr12	58006770	58006770	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggcttctgctgcctccggtcTggctgccccctctggcccca	11	19	3	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:58006770T>G	uc001spb.2	+	2	615	c.155T>G	c.(154-156)CTG>CGG	p.L52R	GEFT_uc009zpy.2_Missense_Mutation_p.L91R|GEFT_uc001soz.1_Intron|GEFT_uc001spa.2_Intron|uc001spc.2_RNA|GEFT_uc001spd.2_5'Flank	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	52					regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					GCCTCCGGTCTGGCTGCCCCc	0.493													14	44	---	---	---	---	PASS	G	58006770	G	G	58006770	3	3	141	1	0	0	0	0	1	0	0	0	6328	1580	55	5	383	5	GEFT	12	58006770	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	1511769	58006770	75845125	153	50287										
DYRK2	8445	broad.mit.edu	37	chr12	68051334	68051334	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	atatgtgcaggtgccccacgAtcacgtggcttacaggtatg	12	10	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:68051334A>T	uc001str.3	+	3	1049	c.647A>T	c.(646-648)GAT>GTT	p.D216V	DYRK2_uc001sts.3_Missense_Mutation_p.D143V	NM_006482	NP_006473	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	216					apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|positive regulation of glycogen biosynthetic process|smoothened signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|manganese ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(1)|central_nervous_system(1)	4			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		GTGCCCCACGATCACGTGGCT	0.552													4	25	---	---	---	---	PASS	T	68051334	T	T	68051334	3	4	141	1	0	0	0	0	1	0	0	0	4856	333	12	5	657	5	DYRK2	12	68051334	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	10044564	68051334	65800561	154	50288										
MGAT4C	25834	broad.mit.edu	37	chr12	86374058	86374058	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tatcctggaccatggcatcaCgccaggaagaattaaagtct	9	10	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:86374058C>T	uc001tai.3	-	8	1696	c.446G>A	c.(445-447)CGT>CAT	p.R149H	MGAT4C_uc001tal.3_Missense_Mutation_p.R149H|MGAT4C_uc001taj.3_Missense_Mutation_p.R149H|MGAT4C_uc001tak.3_Missense_Mutation_p.R149H|MGAT4C_uc010sum.1_Missense_Mutation_p.R173H|MGAT4C_uc001tah.3_Missense_Mutation_p.R149H	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	149	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						CATGGCATCACGCCAGGAAGA	0.398													5	34	---	---	---	---	PASS	T	86374058	T	T	86374058	3	4	141	1	0	0	0	0	1	0	0	0	9547	536	19	1	994	1	MGAT4C	12	86374058	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	18322724	86374058	47477837	155	50289										
IKBIP	121457	broad.mit.edu	37	chr12	99007962	99007962	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gtctacttttgtaatgtcttGagaaagcgtcgtcagactgt	10	7	3	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:99007962G>C	uc001tfv.2	-	3	564	c.454C>G	c.(454-456)CAA>GAA	p.Q152E	IKBIP_uc001tfw.2_3'UTR	NM_201612	NP_963906	Q70UQ0	IKIP_HUMAN	IKK interacting protein isoform 2	152					induction of apoptosis|response to X-ray	endoplasmic reticulum membrane|integral to membrane	protein binding				0						GTAATGTCTTGAGAAAGCGTC	0.363													6	54	---	---	---	---	PASS	C	99007962	C	C	99007962	3	2	141	1	0	0	0	0	1	0	0	0	7609	1299	45	2	602	2	IKBIP	12	99007962	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	12633904	99007962	34843933	156	50290										
SCYL2	55681	broad.mit.edu	37	chr12	100709335	100709335	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aaaaacatttttgcctttcaGcgtgtcattgtgcagagaat	8	7	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:100709335G>T	uc001thn.2	+	9	1146	c.1096_splice	c.e9-1	p.R366_splice	SCYL2_uc009ztw.1_Splice_Site_p.R193_splice|SCYL2_uc001thm.1_Splice_Site_p.R366_splice	NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein						endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						TTGCCTTTCAGCGTGTCATTG	0.318													12	22	---	---	---	---	PASS	T	100709335	T	T	100709335	5	4	141	1	0	0	0	0	0	0	1	0	13948	985	34	3	1125	3	SCYL2	12	100709335	Splice_Site	SNP	G	TCGA-66-2742-01A-01D-0983-08	1701373	100709335	33142560	157	50291										
NR1H4	9971	broad.mit.edu	37	chr12	100897258	100897258	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tttttcatggaaatgatgagTatgaagcccgcgaaaggtag	12	5	1	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:100897258T>A	uc001tht.1	+	1	121	c.93T>A	c.(91-93)AGT>AGA	p.S31R	NR1H4_uc001thp.1_Intron|NR1H4_uc001thq.1_Intron|NR1H4_uc010svj.1_Intron|NR1H4_uc001thr.1_Intron|NR1H4_uc010svk.1_Intron|NR1H4_uc001ths.1_Missense_Mutation_p.S31R	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	31					bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						AAATGATGAGTATGAAGCCCG	0.463													4	23	---	---	---	---	PASS	A	100897258	A	A	100897258	3	1	141	1	0	0	0	0	1	0	0	0	10619	1653	57	5		5	NR1H4	12	100897258	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	187923	100897258	32954637	158	50292										
STAB2	55576	broad.mit.edu	37	chr12	104133214	104133214	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agtgtgggagctgtgtcaatActcccagctgcccaaggtgg	14	10	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:104133214A>G	uc001tjw.2	+	54	5908	c.5722A>G	c.(5722-5724)ACT>GCT	p.T1908A	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1908	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTGTGTCAATACTCCCAGCTG	0.398													4	34	---	---	---	---	PASS	G	104133214	G	G	104133214	3	3	141	1	0	0	0	0	1	0	0	0	15237	391	14	5	5936	5	STAB2	12	104133214	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	3235956	104133214	29718681	159	50293										
NAA25	80018	broad.mit.edu	37	chr12	112481660	112481660	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aaggaaagtttcttatgttcTtcagaaacgtcccttaaaca	6	8	3	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:112481660T>C	uc001ttm.2	-	18	2039	c.2019A>G	c.(2017-2019)GAA>GAG	p.E673E	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Silent_p.E645E|NAA25_uc009zwa.1_Silent_p.E673E	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	673						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						TCTTATGTTCTTCAGAAACGT	0.333													8	49	---	---	---	---	PASS	C	112481660	C	C	112481660	2	2	141	1	0	0	0	0	0	0	0	1	10121	1606	56	5		5	NAA25	12	112481660	Silent	SNP	T	TCGA-66-2742-01A-01D-0983-08	8348446	112481660	21370235	160	50294										
ZNF268	10795	broad.mit.edu	37	chr12	133780828	133780829	+	Frame_Shift_Ins	INS	-	C	C													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gtgggaaattacgccttcttINSgtacaccagagaatgcacac							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:133780828_133780829insC	uc010tcf.1	+	6	2886_2887	c.2556_2557insC	c.(2554-2559)CTTGTAfs	p.L852fs	ZNF268_uc010tbv.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tbw.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tbx.1_Frame_Shift_Ins_p.L712fs|ZNF268_uc010tby.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tbz.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tca.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tcb.1_Frame_Shift_Ins_p.L712fs|ZNF268_uc010tcc.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tcd.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tce.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tcg.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tch.1_Frame_Shift_Ins_p.L852fs	NM_003415	NP_003406	Q14587	ZN268_HUMAN	zinc finger protein 268 isoform a	852_853	C2H2-type 21.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.000215)|all_epithelial(31;0.096)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		TACGCCTTCTTGTACACCAGAG	0.411													4	2	---	---	---	---		C	133780829	C	C	133780828	7	5	141	1	0	1	1	0	0	0	0	0	17804	1799	63	0		0	ZNF268	12	133780828	Frame_Shift_Ins	INS	-	TCGA-66-2742-01A-01D-0983-08	21299168	133780828	71067	161	50295										
GPR12	2835	broad.mit.edu	37	chr13	27333507	27333507	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgacataggtaaacgtgaccGtcctctccgaatggtacgtc	10	11	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr13:27333507G>A	uc010aal.2	-	2	680	c.458C>T	c.(457-459)ACG>ATG	p.T153M	GPR12_uc010tdl.1_Translation_Start_Site	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	153	Cytoplasmic (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		AAACGTGACCGTCCTCTCCGA	0.577													8	52	---	---	---	---	PASS	A	27333507	A	A	27333507	3	1	141	1	0	0	0	0	1	0	0	0	6635	1145	40	1	550	1	GPR12	13	27333507	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08		27333507	87836371	162	50296										
NUFIP1	26747	broad.mit.edu	37	chr13	45517626	45517626	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttggttcgaataacgtttgaTagttgtgataatcttttttc	8	4	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr13:45517626T>A	uc001uzp.2	-	9	1364	c.1322A>T	c.(1321-1323)TAT>TTT	p.Y441F		NM_012345	NP_036477	Q9UHK0	NUFP1_HUMAN	nuclear fragile X mental retardation protein	441					box C/D snoRNP assembly|positive regulation of transcription from RNA polymerase II promoter|RNA processing	actin cytoskeleton|cytosolic ribosome|nuclear matrix|nucleolus|perichromatin fibrils|pre-snoRNP complex|presynaptic active zone|transcription elongation factor complex	DNA binding|identical protein binding|protein binding, bridging|RNA binding|zinc ion binding				0		Lung NSC(96;8.23e-05)|Breast(139;0.00378)|Prostate(109;0.0107)|all_hematologic(4;0.014)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)|Acute lymphoblastic leukemia(4;0.143)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000306)|BRCA - Breast invasive adenocarcinoma(63;0.125)		TAACGTTTGATAGTTGTGATA	0.323													29	33	---	---	---	---	PASS	A	45517626	A	A	45517626	3	1	141	1	0	0	0	0	1	0	0	0	10748	1406	49	5	173	5	NUFIP1	13	45517626	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	18184119	45517626	69652252	163	50297										
EDNRB	1910	broad.mit.edu	37	chr13	78492558	78492558	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	acccttgggccataaggtctTagtgggtggcgtcattatct	12	9	3	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr13:78492558T>C	uc001vko.2	-	1	409	c.151A>G	c.(151-153)AAG>GAG	p.K51E	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.K51E|EDNRB_uc010aez.1_Missense_Mutation_p.K51E|EDNRB_uc001vkp.1_Missense_Mutation_p.K134E|EDNRB_uc010afa.1_Missense_Mutation_p.K51E	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	51	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	CATAAGGTCTTAGTGGGTGGC	0.632													22	23	---	---	---	---	PASS	C	78492558	C	C	78492558	3	2	141	1	0	0	0	0	1	0	0	0	4920	1763	61	5	1326	5	EDNRB	13	78492558	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	32974932	78492558	36677320	164	50298										
GPC5	2262	broad.mit.edu	37	chr13	92345764	92345764	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gagtaatgggacagatggggAggtccctgctgcccagccgc	16	11	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr13:92345764A>T	uc010tif.1	+	3	1015	c.649A>T	c.(649-651)AGG>TGG	p.R217W		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	217						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				ACAGATGGGGAGGTCCCTGCT	0.522													11	13	---	---	---	---	PASS	T	92345764	T	T	92345764	3	4	141	1	0	0	0	0	1	0	0	0	6601	295	11	5	659	5	GPC5	13	92345764	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	13853206	92345764	22824114	165	50299										
SLC10A2	6555	broad.mit.edu	37	chr13	103705015	103705015	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggccatttgtgattaacaaaCattccaatggaaacaggaac	8	8	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr13:103705015C>T	uc001vpy.3	-	3	1137	c.540G>A	c.(538-540)ATG>ATA	p.M180I		NM_000452	NP_000443	Q12908	NTCP2_HUMAN	solute carrier family 10 (sodium/bile acid	180	Extracellular (Potential).				bile acid metabolic process|organic anion transport	integral to plasma membrane	bile acid:sodium symporter activity			ovary(3)|skin(1)	4	all_neural(89;0.0662)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					GATTAACAAACATTCCAATGG	0.388													32	30	---	---	---	---	PASS	T	103705015	T	T	103705015	3	4	141	1	0	0	0	0	1	0	0	0	14374	478	17	3	522	3	SLC10A2	13	103705015	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	11359251	103705015	11464863	166	50300										
OR4K5	79317	broad.mit.edu	37	chr14	20388876	20388876	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttctctgtgttgtatacagtCattgtgctgggaaatcttct	9	7	4	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:20388876C>A	uc010tkw.1	+	1	111	c.111C>A	c.(109-111)GTC>GTA	p.V37V		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	37	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGTATACAGTCATTGTGCTGG	0.408													10	88	---	---	---	---	PASS	A	20388876	A	A	20388876	2	1	141	1	0	0	0	0	0	0	0	1	11073	813	29	2		2	OR4K5	14	20388876	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08		20388876	86960664	167	50301										
KCNH5	27133	broad.mit.edu	37	chr14	63246548	63246548	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aaggcttcccgcttgatgatGtgtaggtcacagtacgtcag	12	9	2	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:63246548G>T	uc001xfx.2	-	10	1968	c.1917C>A	c.(1915-1917)CAC>CAA	p.H639Q	KCNH5_uc001xfy.2_Intron|KCNH5_uc001xfz.1_Missense_Mutation_p.H581Q	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	639	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		GCTTGATGATGTGTAGGTCAC	0.478													28	40	---	---	---	---	PASS	T	63246548	T	T	63246548	3	4	141	1	0	0	0	0	1	0	0	0	8035	1368	48	3	1091	3	KCNH5	14	63246548	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	42857672	63246548	44102992	168	50302										
SNW1	22938	broad.mit.edu	37	chr14	78187074	78187074	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cttggattggttgaagagccTttggtcatactgaacttcat	10	7	2	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:78187074T>C	uc001xuf.2	-	12	1255	c.1228A>G	c.(1228-1230)AGG>GGG	p.R410G	SNW1_uc010tvm.1_Missense_Mutation_p.R335G|SNW1_uc010asu.2_Missense_Mutation_p.R248G|SNW1_uc010tvn.1_Missense_Mutation_p.R410G	NM_012245	NP_036377	Q13573	SNW1_HUMAN	SKI-interacting protein	410					negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|regulation of transcription from RNA polymerase II promoter	catalytic step 2 spliceosome|nucleoplasm	Notch binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		TTGAAGAGCCTTTGGTCATAC	0.393													29	66	---	---	---	---	PASS	C	78187074	C	C	78187074	3	2	141	1	0	0	0	0	1	0	0	0	14879	1608	56	5	394	5	SNW1	14	78187074	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	14940526	78187074	29162466	169	50303										
SNW1	22938	broad.mit.edu	37	chr14	78187123	78187123	+	Silent	SNP	A	G	G													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cgaggattaggaacaccgagAgcaataacttcactgatatc							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:78187123A>G	uc001xuf.2	-	12	1206	c.1179T>C	c.(1177-1179)GCT>GCC	p.A393A	SNW1_uc010tvm.1_Silent_p.A318A|SNW1_uc010asu.2_Silent_p.A231A|SNW1_uc010tvn.1_Silent_p.A393A	NM_012245	NP_036377	Q13573	SNW1_HUMAN	SKI-interacting protein	393					negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|regulation of transcription from RNA polymerase II promoter	catalytic step 2 spliceosome|nucleoplasm	Notch binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		GAACACCGAGAGCAATAACTT	0.388													24	55	---	---	---	---	PASS	G	78187123	G	G	78187123	2	3	141	1	0	0	0	0	0	0	0	1	14879	291	11	5		5	SNW1	14	78187123	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08	49	78187123	29162417	170	50304	923	2								
SNW1	22938	broad.mit.edu	37	chr14	78187124	78187124	+	Missense_Mutation	SNP	G	T	T													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gaggattaggaacaccgagaGcaataacttcactgatatcc							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:78187124G>T	uc001xuf.2	-	12	1205	c.1178C>A	c.(1177-1179)GCT>GAT	p.A393D	SNW1_uc010tvm.1_Missense_Mutation_p.A318D|SNW1_uc010asu.2_Missense_Mutation_p.A231D|SNW1_uc010tvn.1_Missense_Mutation_p.A393D	NM_012245	NP_036377	Q13573	SNW1_HUMAN	SKI-interacting protein	393					negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|regulation of transcription from RNA polymerase II promoter	catalytic step 2 spliceosome|nucleoplasm	Notch binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		AACACCGAGAGCAATAACTTC	0.383													24	54	---	---	---	---	PASS	T	78187124	T	T	78187124	3	4	141	1	0	0	0	0	1	0	0	0	14879	971	34	3	444	3	SNW1	14	78187124	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	1	78187124	29162416	171	50305	923	2								
NRXN3	9369	broad.mit.edu	37	chr14	79432744	79432744	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttcattgcagtcgagcttgtCaaggggtaagtagaagggat	14	5	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:79432744C>A	uc001xun.2	+	9	2144	c.1653C>A	c.(1651-1653)GTC>GTA	p.V551V	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Silent_p.V676V	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	924	Extracellular (Potential).|Laminin G-like 5.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		TCGAGCTTGTCAAGGGGTAAG	0.423													12	77	---	---	---	---	PASS	A	79432744	A	A	79432744	2	1	141	1	0	0	0	0	0	0	0	1	10667	813	29	2		2	NRXN3	14	79432744	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	1245620	79432744	27916796	172	50306										
JAG2	3714	broad.mit.edu	37	chr14	105615534	105615534	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggccccgccagggcacggctCgcggggcacggagcagttct	17	15	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:105615534C>T	uc001yqg.2	-	13	2130	c.1726G>A	c.(1726-1728)GAG>AAG	p.E576K	JAG2_uc010axf.2_5'Flank|JAG2_uc001yqf.2_5'UTR|JAG2_uc001yqh.2_Missense_Mutation_p.E538K	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	576	Extracellular (Potential).|EGF-like 10; atypical.				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding			lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		GGGCACGGCTCGCGGGGCACG	0.677													8	37	---	---	---	---	PASS	T	105615534	T	T	105615534	3	4	141	1	0	0	0	0	1	0	0	0	7935	893	31	2	2046	2	JAG2	14	105615534	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	26182790	105615534	1734006	173	50307										
GABRA5	2558	broad.mit.edu	37	chr15	27185220	27185220	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tcagtcccagccaggacagtTtttggtgagtgtccccaagc	11	12	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:27185220T>G	uc001zbd.1	+	10	1212	c.873T>G	c.(871-873)GTT>GTG	p.V291V	GABRB3_uc001zbb.2_5'Flank	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	291	Helical; (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CCAGGACAGTTTTTGGTGAGT	0.522													3	16	---	---	---	---	PASS	G	27185220	G	G	27185220	2	3	141	1	0	0	0	0	0	0	0	1	6164	1828	64	5		5	GABRA5	15	27185220	Silent	SNP	T	TCGA-66-2742-01A-01D-0983-08		27185220	75346172	174	50308										
CHRM5	1133	broad.mit.edu	37	chr15	34355670	34355670	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agctcatagggctctgttcaGatcctgcttgcgctgtcctc	10	13	3	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:34355670G>A	uc001zhk.1	+	3	1422	c.752G>A	c.(751-753)AGA>AAA	p.R251K	CHRM5_uc001zhl.1_Missense_Mutation_p.R251K	NM_012125	NP_036257	P08912	ACM5_HUMAN	cholinergic receptor, muscarinic 5	251	Cytoplasmic (By similarity).				cell proliferation|inhibition of adenylate cyclase activity by muscarinic acetylcholine receptor signaling pathway	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;1.76e-08)		all cancers(64;4.82e-17)|GBM - Glioblastoma multiforme(113;2.58e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0262)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)	GCTCTGTTCAGATCCTGCTTG	0.602													14	66	---	---	---	---	PASS	A	34355670	A	A	34355670	3	1	141	1	0	0	0	0	1	0	0	0	3380	942	33	2	754	2	CHRM5	15	34355670	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	7170450	34355670	68175722	175	50309										
SLC12A6	9990	broad.mit.edu	37	chr15	34553129	34553129	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttttctccaaaatattacctCaaagagtgccaaatttttat	3	8	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:34553129C>G	uc001zhw.2	-	3	573	c.409G>C	c.(409-411)GAG>CAG	p.E137Q	SLC12A6_uc001zhv.2_Missense_Mutation_p.E86Q|SLC12A6_uc001zhx.2_Missense_Mutation_p.E122Q|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.E78Q|SLC12A6_uc001zib.2_Missense_Mutation_p.E128Q|SLC12A6_uc001zic.2_Missense_Mutation_p.E137Q|SLC12A6_uc010bau.2_Missense_Mutation_p.E137Q|SLC12A6_uc001zid.2_Missense_Mutation_p.E78Q|SLC12A6_uc001zhu.2_5'UTR	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	137	Cytoplasmic (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	AATATTACCTCAAAGAGTGCC	0.333													5	18	---	---	---	---	PASS	G	34553129	G	G	34553129	3	3	141	1	0	0	0	0	1	0	0	0	14387	835	29	2	3135	2	SLC12A6	15	34553129	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	197459	34553129	67978263	176	50310										
TYRO3	7301	broad.mit.edu	37	chr15	41857334	41857334	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctctgctacagtcctgtacaGttcaggtaggctctccgggc	11	13	3	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:41857334G>C	uc001zof.1	+	6	1002	c.778G>C	c.(778-780)GTT>CTT	p.V260L		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	260	Fibronectin type-III 1.|Extracellular (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GTCCTGTACAGTTCAGGTAGG	0.587													4	29	---	---	---	---	PASS	C	41857334	C	C	41857334	3	2	141	1	0	0	0	0	1	0	0	0	16811	1029	36	4	800	4	TYRO3	15	41857334	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	7304205	41857334	60674058	177	50311										
ZFP106	64397	broad.mit.edu	37	chr15	42720257	42720257	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agtgccatttgccagtcccgCatagaggattcgccatctac	9	13	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:42720257C>A	uc001zpw.2	-	12	5223	c.4888G>T	c.(4888-4890)GCG>TCG	p.A1630S	ZFP106_uc001zpu.2_Missense_Mutation_p.A728S|ZFP106_uc001zpv.2_Missense_Mutation_p.A815S|ZFP106_uc001zpx.2_Missense_Mutation_p.A858S	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1630						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GCCAGTCCCGCATAGAGGATT	0.493													10	63	---	---	---	---	PASS	A	42720257	A	A	42720257	3	1	141	1	0	0	0	0	1	0	0	0	17634	710	25	3	795	3	ZFP106	15	42720257	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	862923	42720257	59811135	178	50312										
SEMA6D	80031	broad.mit.edu	37	chr15	48063828	48063828	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agtgagtgttcatctgcagcCttccctctccagacagagca	9	13	3	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:48063828C>G	uc010bek.2	+	19	3428	c.3068C>G	c.(3067-3069)CCT>CGT	p.P1023R	SEMA6D_uc001zvw.2_Missense_Mutation_p.P961R|SEMA6D_uc001zvy.2_Missense_Mutation_p.P1023R|SEMA6D_uc001zvz.2_Missense_Mutation_p.P967R|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Missense_Mutation_p.P961R|SEMA6D_uc001zwc.2_Missense_Mutation_p.P948R	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	1023	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		CATCTGCAGCCTTCCCTCTCC	0.542													18	111	---	---	---	---	PASS	G	48063828	G	G	48063828	3	3	141	1	0	0	0	0	1	0	0	0	14042	681	24	4	3181	4	SEMA6D	15	48063828	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	5343571	48063828	54467564	179	50313										
HDC	3067	broad.mit.edu	37	chr15	50534871	50534871	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ccggctcccacacgctgaggCtgcttgatgatcttcctggc	11	15	1	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:50534871C>G	uc001zxz.2	-	12	1681	c.1575G>C	c.(1573-1575)CAG>CAC	p.Q525H	HDC_uc001zxy.2_Missense_Mutation_p.Q268H|HDC_uc010uff.1_Missense_Mutation_p.Q492H	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	525					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	CACGCTGAGGCTGCTTGATGA	0.577													8	18	---	---	---	---	PASS	G	50534871	G	G	50534871	3	3	141	1	0	0	0	0	1	0	0	0	7015	796	28	4	417	4	HDC	15	50534871	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	2471043	50534871	51996521	180	50314										
LMAN1L	79748	broad.mit.edu	37	chr15	75108845	75108845	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tcgtgggacggcatcgggatCttctttgactctccggcaga	13	11	3	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:75108845C>A	uc002ayt.1	+	3	410	c.408C>A	c.(406-408)ATC>ATA	p.I136I	LMAN1L_uc010bkd.2_Silent_p.I64I|LMAN1L_uc010ulo.1_Intron|LMAN1L_uc010bke.1_Silent_p.I136I	NM_021819	NP_068591	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like precursor	136	Lumenal (Potential).|L-type lectin-like.					ER-Golgi intermediate compartment membrane|integral to membrane	sugar binding				0						GCATCGGGATCTTCTTTGACT	0.502													6	32	---	---	---	---	PASS	A	75108845	A	A	75108845	2	1	141	1	0	0	0	0	0	0	0	1	8837	903	32	2		2	LMAN1L	15	75108845	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	24573974	75108845	27422547	181	50315										
RASGRF1	5923	broad.mit.edu	37	chr15	79296437	79296437	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gtggcggcgaggagaacttgCgggtggcgcgcggggacttg	22	8	0	1	rs150222693		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:79296437C>T	uc002beq.2	-	16	2579	c.2204G>A	c.(2203-2205)CGC>CAC	p.R735H	RASGRF1_uc002bep.2_Missense_Mutation_p.R719H|RASGRF1_uc010blm.1_Missense_Mutation_p.R644H|RASGRF1_uc002ber.3_Missense_Mutation_p.R719H|RASGRF1_uc010unh.1_Missense_Mutation_p.R130H|RASGRF1_uc002beo.2_5'UTR	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	735	N-terminal Ras-GEF.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						GGAGAACTTGCGGGTGGCGCG	0.647													8	27	---	---	---	---	PASS	T	79296437	T	T	79296437	3	4	141	1	0	0	0	0	1	0	0	0	13072	768	27	1	1669	1	RASGRF1	15	79296437	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	4187592	79296437	23234955	182	50316										
BCL2A1	597	broad.mit.edu	37	chr15	80253456	80253456	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	catttcacagatctttcctgTaacttctagaaaagtcatcc	4	11	4	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:80253456T>A	uc002bfc.3	-	2	663	c.481A>T	c.(481-483)ACA>TCA	p.T161S	BCL2A1_uc002bfd.3_3'UTR	NM_004049	NP_004040	Q16548	B2LA1_HUMAN	BCL2-related protein A1 isoform 1	161					anti-apoptosis|apoptosis	cytoplasm	protein binding			pancreas(1)	1						ATCTTTCCTGTAACTTCTAGA	0.353													11	28	---	---	---	---	PASS	A	80253456	A	A	80253456	3	1	141	1	0	0	0	0	1	0	0	0	1366	1638	57	5	50	5	BCL2A1	15	80253456	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	957019	80253456	22277936	183	50317										
SOLH	6650	broad.mit.edu	37	chr16	603410	603410	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cacccaccgcctggcacatcGcaaggcagcccaggccttcc	9	20	0	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:603410G>A	uc002chi.2	+	14	3518	c.3155G>A	c.(3154-3156)CGC>CAC	p.R1052H	SOLH_uc002chj.2_Missense_Mutation_p.R112H	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	1052					proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				CTGGCACATCGCAAGGCAGCC	0.677													14	35	---	---	---	---	PASS	A	603410	A	A	603410	3	1	141	1	0	0	0	0	1	0	0	0	14925	1087	38	1	3197	1	SOLH	16	603410	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08		603410	89751343	184	50318										
SSTR5	6755	broad.mit.edu	37	chr16	1129327	1129327	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tcggcccgctggcgccgcccGcgtgtggccaagctggcgag	17	16	0	0	rs141899937		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:1129327G>T	uc002ckq.2	+	1	547	c.459G>T	c.(457-459)CCG>CCT	p.P153P	LOC146336_uc002cko.2_5'Flank|LOC146336_uc002ckp.1_5'Flank	NM_001053	NP_001044	P35346	SSR5_HUMAN	somatostatin receptor 5	153	Cytoplasmic (Potential).				negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			lung(1)	1		Hepatocellular(780;0.00369)			Octreotide(DB00104)	GGCGCCGCCCGCGTGTGGCCA	0.687													7	5	---	---	---	---	PASS	T	1129327	T	T	1129327	2	4	141	1	0	0	0	0	0	0	0	1	15200	1074	38	1		1	SSTR5	16	1129327	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	525917	1129327	89225426	185	50319										
MAPK8IP3	23162	broad.mit.edu	37	chr16	1798307	1798307	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttgactccacgccagagctgGacatgtgtccagagacccgc	11	14	0	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:1798307G>T	uc002cmk.2	+	7	1174	c.1054G>T	c.(1054-1056)GAC>TAC	p.D352Y	MAPK8IP3_uc002cml.2_Missense_Mutation_p.D352Y|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.D353Y	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	352					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						GCCAGAGCTGGACATGTGTCC	0.607													17	20	---	---	---	---	PASS	T	1798307	T	T	1798307	3	4	141	1	0	0	0	0	1	0	0	0	9286	1174	41	2	1080	2	MAPK8IP3	16	1798307	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	668980	1798307	88556446	186	50320										
MEFV	4210	broad.mit.edu	37	chr16	3306572	3306572	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggtggacagcagatggtcacTaggggtcttagccatggtgc	16	8	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:3306572T>C	uc002cun.1	-	1	56	c.16A>G	c.(16-18)AGT>GGT	p.S6G		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	6	DAPIN.				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)	AGATGGTCACTAGGGGTCTTA	0.552													12	41	---	---	---	---	PASS	C	3306572	C	C	3306572	3	2	141	1	0	0	0	0	1	0	0	0	9459	1522	53	5	2369	5	MEFV	16	3306572	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	1508265	3306572	87048181	187	50321										
CREBBP	1387	broad.mit.edu	37	chr16	3823884	3823884	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	atcatgttgttggtgtgtgcAcccatcatgttcggaggctg	13	8	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:3823884A>G	uc002cvv.2	-	13	2535	c.2331T>C	c.(2329-2331)GGT>GGC	p.G777G	CREBBP_uc002cvw.2_Silent_p.G739G	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	777					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)		TGGTGTGTGCACCCATCATGT	0.587			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				24	52	---	---	---	---	PASS	G	3823884	G	G	3823884	2	3	141	1	0	0	0	0	0	0	0	1	3861	146	6	5		5	CREBBP	16	3823884	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08	517312	3823884	86530869	188	50322										
PARN	5073	broad.mit.edu	37	chr16	14576629	14576629	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tcttcctgttttctccccatAtattcagcataggtttggat	6	10	3	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:14576629A>G	uc010uzd.1	-	22	1678	c.1536T>C	c.(1534-1536)TAT>TAC	p.Y512Y	PARN_uc010uzc.1_Silent_p.Y451Y|PARN_uc010uze.1_Silent_p.Y466Y|PARN_uc010uzf.1_Silent_p.Y337Y	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation	512					female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2						TTCTCCCCATATATTCAGCAT	0.413													8	25	---	---	---	---	PASS	G	14576629	G	G	14576629	2	3	141	1	0	0	0	0	0	0	0	1	11453	456	16	5		5	PARN	16	14576629	Silent	SNP	A	TCGA-66-2742-01A-01D-0983-08	10752745	14576629	75778124	189	50323										
GP2	2813	broad.mit.edu	37	chr16	20335162	20335162	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gcagtatctcagattacaccAgggagtgccttccaaccggt	10	12	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:20335162A>G	uc002dgv.2	-	3	594	c.511T>C	c.(511-513)TGG>CGG	p.W171R	GP2_uc002dgw.2_Missense_Mutation_p.W171R|GP2_uc002dgx.2_Intron|GP2_uc002dgy.2_Intron	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	171						anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						AGATTACACCAGGGAGTGCCT	0.577													5	11	---	---	---	---	PASS	G	20335162	G	G	20335162	3	3	141	1	0	0	0	0	1	0	0	0	6582	188	7	5	1142	5	GP2	16	20335162	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	5758533	20335162	70019591	190	50324										
PDILT	204474	broad.mit.edu	37	chr16	20370844	20370844	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aggcacctccttttcctcagCtagcacttcctcttctatca	4	16	4	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:20370844C>G	uc002dhc.1	-	12	1775	c.1552G>C	c.(1552-1554)GCT>CCT	p.A518P		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	518					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						TTTTCCTCAGCTAGCACTTCC	0.383													25	54	---	---	---	---	PASS	G	20370844	G	G	20370844	3	3	141	1	0	0	0	0	1	0	0	0	11674	797	28	4	206	4	PDILT	16	20370844	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	35682	20370844	69983909	191	50325										
LOC81691	81691	broad.mit.edu	37	chr16	20839834	20839834	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aatccttgaattggctcggtAtttccttaagcatggcccaa	8	10	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:20839834A>G	uc002dhv.2	+	11	1396	c.1133A>G	c.(1132-1134)TAT>TGT	p.Y378C	ERI2_uc002dht.3_Intron|LOC81691_uc002dhx.2_Missense_Mutation_p.Y378C|LOC81691_uc002dhw.2_Missense_Mutation_p.Y121C|LOC81691_uc002dhy.3_Missense_Mutation_p.Y378C	NM_030941	NP_112203	Q96IC2	REXON_HUMAN	exonuclease NEF-sp isoform 1	378						nucleolus	exonuclease activity|nucleotide binding|RNA binding			ovary(1)|kidney(1)	2						TTGGCTCGGTATTTCCTTAAG	0.398													23	28	---	---	---	---	PASS	G	20839834	G	G	20839834	3	3	141	1	0	0	0	0	1	0	0	0	8890	449	16	5	1171	5	LOC81691	16	20839834	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	468990	20839834	69514919	192	50326										
AQP8	343	broad.mit.edu	37	chr16	25238511	25238511	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cctggctggcctgcttgttgGactgctcattaggtaggagt	14	9	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:25238511G>T	uc002doc.2	+	5	807	c.725G>T	c.(724-726)GGA>GTA	p.G242V		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	242	Helical; (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		CTGCTTGTTGGACTGCTCATT	0.597													5	27	---	---	---	---	PASS	T	25238511	T	T	25238511	3	4	141	1	0	0	0	0	1	0	0	0	832	1174	41	2	743	2	AQP8	16	25238511	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	4398677	25238511	65116242	193	50327										
MAZ	4150	broad.mit.edu	37	chr16	29818992	29818992	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gcgacgtctaccacctgaacCgacacaagctgtcgcactcg	9	16	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:29818992C>T	uc002dty.2	+	2	1054	c.886C>T	c.(886-888)CGA>TGA	p.R296*	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAZ_uc002dtv.1_Intron|MAZ_uc010vdx.1_Nonsense_Mutation_p.R273*|MAZ_uc002dtw.2_Intron|MAZ_uc002dtx.2_Nonsense_Mutation_p.R296*|MAZ_uc010bzg.2_Intron|MAZ_uc002dtz.1_Nonsense_Mutation_p.R14*|MAZ_uc002dua.2_5'Flank|MAZ_uc010vdy.1_5'Flank	NM_002383	NP_002374	P56270	MAZ_HUMAN	MYC-associated zinc finger protein isoform 1	296	C2H2-type 2.				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						CCACCTGAACCGACACAAGCT	0.642													5	20	---	---	---	---	PASS	T	29818992	T	T	29818992	4	4	141	1	0	0	0	0	0	1	0	0	9340	644	23	1	892	1	MAZ	16	29818992	Nonsense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	4580481	29818992	60535761	194	50328										
ABCC11	85320	broad.mit.edu	37	chr16	48209318	48209318	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cggaagagagccatgcccaaGgaggacttccctgtggggca	15	11	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:48209318G>A	uc002eff.1	-	25	3899	c.3549C>T	c.(3547-3549)TCC>TCT	p.S1183S	ABCC11_uc002efg.1_Silent_p.S1183S|ABCC11_uc002efh.1_Silent_p.S1183S|ABCC11_uc010cbg.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	1183	ABC transporter 2.|Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				CCATGCCCAAGGAGGACTTCC	0.612									Cerumen_Type				8	12	---	---	---	---	PASS	A	48209318	A	A	48209318	2	1	141	1	0	0	0	0	0	0	0	1	51	987	35	3		3	ABCC11	16	48209318	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	18390326	48209318	42145435	195	50329										
LDHD	197257	broad.mit.edu	37	chr16	75147555	75147555	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggctccgttctgctggactaTctcctctgcagttggggaag	13	11	3	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:75147555T>C	uc002fdm.2	-	8	1080	c.1033A>G	c.(1033-1035)ATA>GTA	p.I345V	LDHD_uc002fdn.2_Missense_Mutation_p.I322V	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	345							D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						TGCTGGACTATCTCCTCTGCA	0.667													4	13	---	---	---	---	PASS	C	75147555	C	C	75147555	3	2	141	1	0	0	0	0	1	0	0	0	8703	1435	50	5	506	5	LDHD	16	75147555	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	26938237	75147555	15207198	196	50330										
CLEC3A	10143	broad.mit.edu	37	chr16	78064611	78064611	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctccttcctcaactgggaccGtgcacagcctaacggtggca	10	15	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:78064611G>A	uc002ffh.3	+	3	548	c.467G>A	c.(466-468)CGT>CAT	p.R156H		NM_005752	NP_005743	O75596	CLC3A_HUMAN	C-type lectin domain family 3 member A	156	C-type lectin.				skeletal system development	extracellular region	sugar binding				0						AACTGGGACCGTGCACAGCCT	0.532													17	44	---	---	---	---	PASS	A	78064611	A	A	78064611	3	1	141	1	0	0	0	0	1	0	0	0	3510	1145	40	1	477	1	CLEC3A	16	78064611	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	2917056	78064611	12290142	197	50331										
CTU2	348180	broad.mit.edu	37	chr16	88781041	88781041	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	acctcctcgcgtctctcccaGatgcagtcacccatccccct	5	21	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:88781041G>A	uc002flm.2	+	12	1296	c.1248G>A	c.(1246-1248)CAG>CAA	p.Q416Q	CTU2_uc002fln.2_Silent_p.Q416Q|CTU2_uc010chz.2_Silent_p.Q487Q|CTU2_uc010cia.2_Silent_p.Q329Q	NM_001012759	NP_001012777	Q2VPK5	CTU2_HUMAN	cytoplasmic tRNA 2-thiolation protein 2 isoform	416					tRNA thio-modification|tRNA wobble uridine modification	cytoplasm|protein complex|soluble fraction	protein binding			skin(1)	1						GTCTCTCCCAGATGCAGTCAC	0.697													15	27	---	---	---	---	PASS	A	88781041	A	A	88781041	2	1	141	1	0	0	0	0	0	0	0	1	4048	933	33	2		2	CTU2	16	88781041	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	10716430	88781041	1573712	198	50332										
TP53	7157	broad.mit.edu	37	chr17	7573982	7573982	+	Nonsense_Mutation	SNP	C	A	A													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agcctgggcatccttgagttCcaaggcctcattcagctctc							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:7573982C>A	uc002gim.2	-	10	1239	c.1045G>T	c.(1045-1047)GAA>TAA	p.E349*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_Nonsense_Mutation_p.E217*|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_Nonsense_Mutation_p.E349*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	349	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Nuclear export signal.|Interaction with HIPK2.		E -> D (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.E349*(5)|p.E349fs*21(2)|p.I332fs*5(1)|p.?(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)		TCCTTGAGTTCCAAGGCCTCA	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			12	11	---	---	---	---	PASS	A	7573982	A	A	7573982	4	1	141	1	0	0	0	0	0	1	0	0	16378	864	30	2	144	2	TP53	17	7573982	Nonsense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08		7573982	73621228	199	50333	924	2								
TP53	7157	broad.mit.edu	37	chr17	7573983	7573983	+	Missense_Mutation	SNP	C	A	A													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gcctgggcatccttgagttcCaaggcctcattcagctctcg							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:7573983C>A	uc002gim.2	-	10	1238	c.1044G>T	c.(1042-1044)TTG>TTT	p.L348F	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_Missense_Mutation_p.L216F|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_Missense_Mutation_p.L348F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	348	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Nuclear export signal.|Interaction with HIPK2.		L -> S (in a sporadic cancer; somatic mutation).|L -> F (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.L348F(2)|p.L348*(2)|p.L348fs*22(1)|p.L348fs*0(1)|p.?(1)|p.I332fs*5(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)		CCTTGAGTTCCAAGGCCTCAT	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			12	11	---	---	---	---	PASS	A	7573983	A	A	7573983	3	1	141	1	0	0	0	0	1	0	0	0	16378	593	21	3	145	3	TP53	17	7573983	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	1	7573983	73621227	200	50334	924	2								
MYH4	4622	broad.mit.edu	37	chr17	10352030	10352030	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	acagctcagtgctgagagaaCgcgactccttctgggaggcc	13	12	2	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:10352030C>T	uc002gmn.2	-	32	4547	c.4436G>A	c.(4435-4437)CGT>CAT	p.R1479H	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1479	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						GCTGAGAGAACGCGACTCCTT	0.448													6	38	---	---	---	---	PASS	T	10352030	T	T	10352030	3	4	141	1	0	0	0	0	1	0	0	0	10037	536	19	1	1419	1	MYH4	17	10352030	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	2778047	10352030	70843180	201	50335										
MYH2	4620	broad.mit.edu	37	chr17	10442558	10442558	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ccagcaatgtccaagaccccGatgaagtactgcctgggctg	11	13	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:10442558G>C	uc010coi.2	-	14	1508	c.1380C>G	c.(1378-1380)ATC>ATG	p.I460M	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.I460M|MYH2_uc010coj.2_Missense_Mutation_p.I460M	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	460	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CCAAGACCCCGATGAAGTACT	0.478													49	71	---	---	---	---	PASS	C	10442558	C	C	10442558	3	2	141	1	0	0	0	0	1	0	0	0	10035	1048	37	2	4553	2	MYH2	17	10442558	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	90528	10442558	70752652	202	50336										
ULK2	9706	broad.mit.edu	37	chr17	19744820	19744820	+	Frame_Shift_Del	DEL	T	-	-													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	acctaggcattaagctcctgTttttttcataaaacatcctt							TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:19744820delT	uc002gwm.3	-	9	1195	c.686delA	c.(685-687)AACfs	p.N229fs	ULK2_uc002gwn.2_Frame_Shift_Del_p.N229fs	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	229	Protein kinase.				signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					TAAGCTCCTGTTTTTTTCATA	0.308													16	10	---	---	---	---		-	19744820	-	-	19744820	7	5	141	1	0	1	0	1	0	0	0	0	16973	1725	60	0	2500	0	ULK2	17	19744820	Frame_Shift_Del	DEL	T	TCGA-66-2742-01A-01D-0983-08	9302262	19744820	61450390	203	50337										
SEZ6	124925	broad.mit.edu	37	chr17	27285076	27285076	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctggtaagtgaccacggtgcCgtgcactagctcaggctgcg	14	12	1	1	rs139179377	by1000genomes	TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:27285076C>T	uc002hdp.2	-	11	2385	c.2191G>A	c.(2191-2193)GGC>AGC	p.G731S	SEZ6_uc010crx.1_5'Flank|SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Missense_Mutation_p.G731S|SEZ6_uc002hdq.1_Missense_Mutation_p.G606S	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	731	Extracellular (Potential).|Sushi 3.					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			ACCACGGTGCCGTGCACTAGC	0.612													11	62	---	---	---	---	PASS	T	27285076	T	T	27285076	3	4	141	1	0	0	0	0	1	0	0	0	14142	652	23	1	834	1	SEZ6	17	27285076	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	7540256	27285076	53910134	204	50338										
ADAM11	4185	broad.mit.edu	37	chr17	42848951	42848951	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctcactgttctgctccttcaGggggctggagaccactgcta	11	13	3	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:42848951G>A	uc002ihh.2	+	5	382	c.382_splice	c.e5-1	p.G128_splice	ADAM11_uc010wjd.1_Splice_Site	NM_002390	NP_002381	O75078	ADA11_HUMAN	ADAM metallopeptidase domain 11 preproprotein						integrin-mediated signaling pathway|proteolysis	integral to membrane|plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			pancreas(1)	1		Prostate(33;0.0959)				TGCTCCTTCAGGGGGCTGGAG	0.647													27	61	---	---	---	---	PASS	A	42848951	A	A	42848951	5	1	141	1	0	0	0	0	0	0	1	0	235	1014	35	3	399	3	ADAM11	17	42848951	Splice_Site	SNP	G	TCGA-66-2742-01A-01D-0983-08	15563875	42848951	38346259	205	50339										
MPO	4353	broad.mit.edu	37	chr17	56355373	56355373	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cctcgctgccgtacaccatgCtggcgtccacgaaggaagtg	12	14	0	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:56355373C>G	uc002ivu.1	-	7	1196	c.1019G>C	c.(1018-1020)AGC>ACC	p.S340T		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	340		Calcium.			anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	GTACACCATGCTGGCGTCCAC	0.647													6	80	---	---	---	---	PASS	G	56355373	G	G	56355373	3	3	141	1	0	0	0	0	1	0	0	0	9732	797	28	4	1242	4	MPO	17	56355373	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	13506422	56355373	24839837	206	50340										
TRIM37	4591	broad.mit.edu	37	chr17	57158532	57158532	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctcttcattcactttagtgaCgtgttgctcataaatttctg	6	9	5	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:57158532C>A	uc002iwy.3	-	6	862	c.418G>T	c.(418-420)GTC>TTC	p.V140F	TRIM37_uc002iwz.3_Missense_Mutation_p.V140F|TRIM37_uc002ixa.3_Missense_Mutation_p.V18F|TRIM37_uc010woc.1_Missense_Mutation_p.V106F	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	140	Potential.					perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					ACTTTAGTGACGTGTTGCTCA	0.368									Mulibrey_Nanism				24	71	---	---	---	---	PASS	A	57158532	A	A	57158532	3	1	141	1	0	0	0	0	1	0	0	0	16508	536	19	1	2560	1	TRIM37	17	57158532	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	803159	57158532	24036678	207	50341										
USP36	57602	broad.mit.edu	37	chr17	76795011	76795011	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttccctcggtcaaactcttcGtcccagtcatcaaccacggt	6	16	4	0	rs148007252		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:76795011G>A	uc002jvz.1	-	19	3544	c.3219C>T	c.(3217-3219)GAC>GAT	p.D1073D	USP36_uc002jwa.1_Silent_p.D1073D|USP36_uc002jvy.1_Silent_p.D133D	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	1071					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			CAAACTCTTCGTCCCAGTCAT	0.587													16	130	---	---	---	---	PASS	A	76795011	A	A	76795011	2	1	141	1	0	0	0	0	0	0	0	1	17064	1136	40	1		1	USP36	17	76795011	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	19636479	76795011	4400199	208	50342										
C17orf55	284185	broad.mit.edu	37	chr17	79279081	79279081	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gaggtggtgggatgagctgcCctgtaccatggctgcgtgtg	18	8	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:79279081C>T	uc002kac.1	-	4	513	c.84G>A	c.(82-84)AGG>AGA	p.R28R		NM_178519	NP_848614			hypothetical protein LOC284185												0	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			GATGAGCTGCCCTGTACCATG	0.672													3	9	---	---	---	---	PASS	T	79279081	T	T	79279081	2	4	141	1	0	0	0	0	0	0	0	1	1863	622	22	3		3	C17orf55	17	79279081	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	2484070	79279081	1916129	209	50343										
EPB41L3	23136	broad.mit.edu	37	chr18	5397253	5397253	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgcctgtgaatgcgggctgtGctgcagcatccccgctgtct	13	13	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:5397253G>T	uc002kmt.1	-	18	2731	c.2645C>A	c.(2644-2646)GCA>GAA	p.A882E	EPB41L3_uc010wzh.1_Missense_Mutation_p.A713E|EPB41L3_uc002kmu.1_Missense_Mutation_p.A660E|EPB41L3_uc010dkq.1_Missense_Mutation_p.A551E|EPB41L3_uc002kms.1_Missense_Mutation_p.A117E|EPB41L3_uc010wze.1_Missense_Mutation_p.A187E|EPB41L3_uc010wzf.1_Missense_Mutation_p.A179E|EPB41L3_uc010wzg.1_Missense_Mutation_p.A154E|EPB41L3_uc010dkr.2_Missense_Mutation_p.A274E	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	882	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TGCGGGCTGTGCTGCAGCATC	0.612													20	60	---	---	---	---	PASS	T	5397253	T	T	5397253	3	4	141	1	0	0	0	0	1	0	0	0	5154	1319	46	3	638	3	EPB41L3	18	5397253	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08		5397253	72679995	210	50344										
NPC1	4864	broad.mit.edu	37	chr18	21115532	21115532	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	atggcgatggtggcacacatGatgactgcagaccagagctc	13	10	0	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:21115532G>C	uc002kum.3	-	22	3652	c.3378C>G	c.(3376-3378)ATC>ATG	p.I1126M	NPC1_uc010dlu.1_5'Flank|NPC1_uc010xaz.1_Missense_Mutation_p.I859M	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	1126	Helical; (Potential).				autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					TGGCACACATGATGACTGCAG	0.537													17	20	---	---	---	---	PASS	C	21115532	C	C	21115532	3	2	141	1	0	0	0	0	1	0	0	0	10570	1280	45	2	474	2	NPC1	18	21115532	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	15718279	21115532	56961716	211	50345										
FAM59A	64762	broad.mit.edu	37	chr18	29848546	29848546	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttggatccagcaggaagtcaCtcctggtctggctttctgat	11	10	3	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:29848546C>A	uc002kxl.2	-	6	1975	c.1919G>T	c.(1918-1920)AGT>ATT	p.S640I	FAM59A_uc002kxk.1_Missense_Mutation_p.S639I	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	640										ovary(1)|skin(1)	2						CAGGAAGTCACTCCTGGTCTG	0.502													12	23	---	---	---	---	PASS	A	29848546	A	A	29848546	3	1	141	1	0	0	0	0	1	0	0	0	5592	565	20	3	715	3	FAM59A	18	29848546	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	8733014	29848546	48228702	212	50346										
LIPG	9388	broad.mit.edu	37	chr18	47107969	47107969	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggctacaatgccaagaaaatGaggaacaagaggaacagcaa	11	7	0	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:47107969G>T	uc002ldv.2	+	6	1230	c.978G>T	c.(976-978)ATG>ATT	p.M326I	LIPG_uc002ldu.1_Missense_Mutation_p.M326I|LIPG_uc010xdh.1_Missense_Mutation_p.M252I	NM_006033	NP_006024	Q9Y5X9	LIPE_HUMAN	endothelial lipase precursor	326	Heparin-binding (By similarity).				cholesterol homeostasis|high-density lipoprotein particle remodeling|phospholipid catabolic process|phospholipid homeostasis|positive regulation of cholesterol transport|positive regulation of high-density lipoprotein particle clearance|reverse cholesterol transport	extracellular space	heparin binding|lipoprotein lipase activity|phospholipase A1 activity|protein binding|triglyceride lipase activity			ovary(1)|skin(1)	2						CCAAGAAAATGAGGAACAAGA	0.493													50	81	---	---	---	---	PASS	T	47107969	T	T	47107969	3	4	141	1	0	0	0	0	1	0	0	0	8823	1290	45	2	1000	2	LIPG	18	47107969	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	17259423	47107969	30969279	213	50347										
ALPK2	115701	broad.mit.edu	37	chr18	56246130	56246130	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tctcccttgcaatttgtgttGccttctttggagactgagtc	9	10	2	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:56246130G>A	uc002lhj.3	-	4	2092	c.1878C>T	c.(1876-1878)GGC>GGT	p.G626G		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	626							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						AATTTGTGTTGCCTTCTTTGG	0.438											OREG0025011	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	76	---	---	---	---	PASS	A	56246130	A	A	56246130	2	1	141	1	0	0	0	0	0	0	0	1	545	1306	46	3		3	ALPK2	18	56246130	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	9138161	56246130	21831118	214	50348										
CCDC102B	79839	broad.mit.edu	37	chr18	66504606	66504606	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aaggaggacacaaataataaGgtaagaaaaaaatccagaga	9	4	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:66504606G>A	uc002lkk.2	+	4	829	c.606G>A	c.(604-606)AAG>AAA	p.K202K	CCDC102B_uc002lki.2_Silent_p.K202K|CCDC102B_uc002lkj.1_Silent_p.K202K	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	202										ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				CAAATAATAAGGTAAGAAAAA	0.323													10	80	---	---	---	---	PASS	A	66504606	A	A	66504606	2	1	141	1	0	0	0	0	0	0	0	1	2737	1014	35	3		3	CCDC102B	18	66504606	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	10258476	66504606	11572642	215	50349										
ZNF407	55628	broad.mit.edu	37	chr18	72346027	72346027	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttacaggcacaggtgagaatAagtgtttgcactgtgagttt	12	5	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:72346027A>T	uc002llw.2	+	1	3109	c.3052A>T	c.(3052-3054)AAG>TAG	p.K1018*	ZNF407_uc010xfc.1_Nonsense_Mutation_p.K1018*|ZNF407_uc010dqu.1_Nonsense_Mutation_p.K1018*|ZNF407_uc002llu.2_Nonsense_Mutation_p.K1017*	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1018	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		AGGTGAGAATAAGTGTTTGCA	0.448													39	74	---	---	---	---	PASS	T	72346027	T	T	72346027	4	4	141	1	0	0	0	0	0	1	0	0	17884	363	13	5	3054	5	ZNF407	18	72346027	Nonsense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	5841421	72346027	5731221	216	50350										
TMEM146	257062	broad.mit.edu	37	chr19	5776198	5776198	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gtgagctgccacgaccccaaCaacaatgcccctttgaggtg	10	14	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:5776198C>A	uc002mda.2	+	21	2029	c.1968C>A	c.(1966-1968)AAC>AAA	p.N656K		NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	656	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						ACGACCCCAACAACAATGCCC	0.592													10	36	---	---	---	---	PASS	A	5776198	A	A	5776198	3	1	141	1	0	0	0	0	1	0	0	0	16057	477	17	3	2050	3	TMEM146	19	5776198	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08		5776198	53352785	217	50351										
MUC16	94025	broad.mit.edu	37	chr19	9046849	9046849	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tctgatcccctatgggaaaaGttgggaattgtcccagaaac	10	9	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:9046849G>T	uc002mkp.2	-	5	34986	c.34782C>A	c.(34780-34782)AAC>AAA	p.N11594K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11596	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TATGGGAAAAGTTGGGAATTG	0.517													6	49	---	---	---	---	PASS	T	9046849	T	T	9046849	3	4	141	1	0	0	0	0	1	0	0	0	9973	1020	36	3	9061	3	MUC16	19	9046849	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	3270651	9046849	50082134	218	50352										
MUC16	94025	broad.mit.edu	37	chr19	9075949	9075949	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gatcacatccagagttgttgCtgctgatctgggcacctgcc	11	12	2	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:9075949C>G	uc002mkp.2	-	3	11701	c.11497G>C	c.(11497-11499)GCA>CCA	p.A3833P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3834	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGAGTTGTTGCTGCTGATCTG	0.502													15	94	---	---	---	---	PASS	G	9075949	G	G	9075949	3	3	141	1	0	0	0	0	1	0	0	0	9973	797	28	4	32354	4	MUC16	19	9075949	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	29100	9075949	50053034	219	50353										
MUC16	94025	broad.mit.edu	37	chr19	9084683	9084683	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	atccatagttgaagaagctaTggaggtgttgatcagatcag	12	5	2	4			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:9084683T>C	uc002mkp.2	-	1	7336	c.7132A>G	c.(7132-7134)ATA>GTA	p.I2378V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2378	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAAGAAGCTATGGAGGTGTTG	0.438													18	38	---	---	---	---	PASS	C	9084683	C	C	9084683	3	2	141	1	0	0	0	0	1	0	0	0	9973	1464	51	5	36727	5	MUC16	19	9084683	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	8734	9084683	50044300	220	50354										
OR7D2	162998	broad.mit.edu	37	chr19	9297245	9297245	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tggggtccacttcacttctgCggtgactcactcttcccaga	9	14	4	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:9297245C>T	uc002mkz.1	+	1	976	c.788C>T	c.(787-789)GCG>GTG	p.A263V		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	263	Extracellular (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						TTCACTTCTGCGGTGACTCAC	0.507													7	67	---	---	---	---	PASS	T	9297245	T	T	9297245	3	4	141	1	0	0	0	0	1	0	0	0	11219	768	27	1	790	1	OR7D2	19	9297245	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	212562	9297245	49831738	221	50355										
COL5A3	50509	broad.mit.edu	37	chr19	10071197	10071197	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aaatcccgctcgagaagagcTgaattcgaaaagggtcttcg	11	9	1	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:10071197T>A	uc002mmq.1	-	67	5214	c.5128A>T	c.(5128-5130)AGC>TGC	p.S1710C		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1710	Fibrillar collagen NC1.				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)			CGAGAAGAGCTGAATTCGAAA	0.572													24	57	---	---	---	---	PASS	A	10071197	A	A	10071197	3	1	141	1	0	0	0	0	1	0	0	0	3698	1580	55	5	113	5	COL5A3	19	10071197	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	773952	10071197	49057786	222	50356										
RGL3	57139	broad.mit.edu	37	chr19	11527293	11527293	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggatgaaggacccacctcagGttcttgttgaagctcagatc	11	10	3	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:11527293G>A	uc002mrp.2	-	4	484	c.420C>T	c.(418-420)AAC>AAT	p.N140N	RGL3_uc002mrn.2_5'UTR|RGL3_uc002mrm.2_5'UTR|RGL3_uc002mro.2_Silent_p.N140N|RGL3_uc002mrq.2_3'UTR	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	140	N-terminal Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						CCCACCTCAGGTTCTTGTTGA	0.542													24	85	---	---	---	---	PASS	A	11527293	A	A	11527293	2	1	141	1	0	0	0	0	0	0	0	1	13278	1252	44	3		3	RGL3	19	11527293	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	1456096	11527293	47601690	223	50357										
SLC1A6	6511	broad.mit.edu	37	chr19	15061032	15061032	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tagcactctcgttgcctcccCgtccccgggatgcccccttc	8	20	1	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:15061032C>T	uc002naa.1	-	9	1678	c.1670G>A	c.(1669-1671)CGG>CAG	p.R557Q	SLC1A6_uc010dzu.1_Missense_Mutation_p.R479Q|SLC1A6_uc010xod.1_Missense_Mutation_p.R493Q	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	557					synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	GTTGCCTCCCCGTCCCCGGGA	0.652													21	20	---	---	---	---	PASS	T	15061032	T	T	15061032	3	4	141	1	0	0	0	0	1	0	0	0	14436	652	23	1	28	1	SLC1A6	19	15061032	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	3533739	15061032	44067951	224	50358										
MRPL34	64981	broad.mit.edu	37	chr19	17417103	17417103	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	caaacgcaagaacaagcacgGctgggtccggcgcctgagca	13	13	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:17417103G>C	uc002ngc.1	+	2	419	c.194G>C	c.(193-195)GGC>GCC	p.G65A	ABHD8_uc002ngb.3_5'Flank	NM_023937	NP_076426	Q9BQ48	RM34_HUMAN	mitochondrial ribosomal protein L34 precursor	65					translation		structural constituent of ribosome				0						AACAAGCACGGCTGGGTCCGG	0.667													2	2	---	---	---	---	PASS	C	17417103	C	C	17417103	3	2	141	1	0	0	0	0	1	0	0	0	9797	1203	42	4	200	4	MRPL34	19	17417103	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	2356071	17417103	41711880	225	50359										
C19orf50	79036	broad.mit.edu	37	chr19	18672950	18672950	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gatgatgtcaacgccatcatCctggcccagaagaacatgtg	10	11	2	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:18672950C>G	uc002njo.2	+	2	226	c.84C>G	c.(82-84)ATC>ATG	p.I28M	C19orf50_uc002njp.2_RNA|C19orf50_uc002njq.2_Missense_Mutation_p.I28M	NM_024069	NP_076974	Q9BQD3	CS050_HUMAN	hypothetical protein LOC79036	28							protein binding				0						ACGCCATCATCCTGGCCCAGA	0.617													4	19	---	---	---	---	PASS	G	18672950	G	G	18672950	3	3	141	1	0	0	0	0	1	0	0	0	1932	845	30	2	86	2	C19orf50	19	18672950	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	1255847	18672950	40456033	226	50360										
KLHL26	55295	broad.mit.edu	37	chr19	18778681	18778681	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tgcgaggagttcctgaaggcGgccatgagcgtggagacctg	17	9	0	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:18778681G>A	uc002njz.1	+	3	501	c.474G>A	c.(472-474)GCG>GCA	p.A158A		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	158										ovary(1)	1						TCCTGAAGGCGGCCATGAGCG	0.647													7	36	---	---	---	---	PASS	A	18778681	A	A	18778681	2	1	141	1	0	0	0	0	0	0	0	1	8381	1103	39	1		1	KLHL26	19	18778681	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	105731	18778681	40350302	227	50361										
NCAN	1463	broad.mit.edu	37	chr19	19345811	19345811	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gacattgatgactgcctctgCagcccctgtgagaatggagg	13	10	1	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:19345811C>A	uc002nlz.2	+	10	3255	c.3156C>A	c.(3154-3156)TGC>TGA	p.C1052*	NCAN_uc010ecc.1_Nonsense_Mutation_p.C616*	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	1052	EGF-like 2; calcium-binding (Potential).				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			ACTGCCTCTGCAGCCCCTGTG	0.537													8	74	---	---	---	---	PASS	A	19345811	A	A	19345811	4	1	141	1	0	0	0	0	0	1	0	0	10204	718	25	3	3190	3	NCAN	19	19345811	Nonsense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	567130	19345811	39783172	228	50362										
MLL4	9757	broad.mit.edu	37	chr19	36212435	36212435	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cggggctccagctctgagcaAcgggccacagacacaggctc	13	15	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:36212435A>G	uc010eei.2	+	3	2186	c.2186A>G	c.(2185-2187)AAC>AGC	p.N729S		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	729	Pro-rich.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GCTCTGAGCAACGGGCCACAG	0.662													10	37	---	---	---	---	PASS	G	36212435	G	G	36212435	3	3	141	1	0	0	0	0	1	0	0	0	9623	43	2	5	2196	5	MLL4	19	36212435	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	16866624	36212435	22916548	229	50363										
ZNF260	339324	broad.mit.edu	37	chr19	37005980	37005980	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cacattcagtgcattcatgaGatttctctccagtatgcatt	6	10	3	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:37005980G>A	uc002oee.1	-	4	1005	c.161C>T	c.(160-162)TCT>TTT	p.S54F	ZNF260_uc002oed.1_Missense_Mutation_p.S51F|ZNF260_uc010eey.1_Missense_Mutation_p.S51F|ZNF260_uc002oef.1_Missense_Mutation_p.S51F	NM_001012756	NP_001012774	Q3ZCT1	ZN260_HUMAN	zinc finger protein 260	54					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					GCATTCATGAGATTTCTCTCC	0.363													28	61	---	---	---	---	PASS	A	37005980	A	A	37005980	3	1	141	1	0	0	0	0	1	0	0	0	17799	942	33	2	1081	2	ZNF260	19	37005980	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	793545	37005980	22123003	230	50364										
NUMBL	9253	broad.mit.edu	37	chr19	41186909	41186909	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gagaaagccttgtccaggttGcggtcaggagcacaaaagga	14	8	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:41186909G>A	uc002oon.2	-	6	621	c.453C>T	c.(451-453)CGC>CGT	p.R151R	NUMBL_uc010xvq.1_Silent_p.R110R|NUMBL_uc002ooo.2_Silent_p.R151R|NUMBL_uc010xvr.1_Silent_p.R110R	NM_004756	NP_004747	Q9Y6R0	NUMBL_HUMAN	numb homolog (Drosophila)-like	151	PID.				cytokine-mediated signaling pathway|lateral ventricle development|neuroblast division in subventricular zone|protein metabolic process	cytoplasm	protein binding			lung(3)|ovary(1)|breast(1)	5			Lung(22;0.000393)|LUSC - Lung squamous cell carcinoma(20;0.00105)			TGTCCAGGTTGCGGTCAGGAG	0.547													42	93	---	---	---	---	PASS	A	41186909	A	A	41186909	2	1	141	1	0	0	0	0	0	0	0	1	10752	1306	46	3		3	NUMBL	19	41186909	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	4180929	41186909	17942074	231	50365										
ZNF229	7772	broad.mit.edu	37	chr19	44934577	44934577	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gaactggaagtcttttccttGcagatttactctacagtctt	7	9	3	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:44934577G>T	uc002oze.1	-	6	813	c.379C>A	c.(379-381)CAA>AAA	p.Q127K	ZNF229_uc010ejk.1_5'UTR|ZNF229_uc010ejl.1_Missense_Mutation_p.Q121K	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	127					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				TCTTTTCCTTGCAGATTTACT	0.468													18	66	---	---	---	---	PASS	T	44934577	T	T	44934577	3	4	141	1	0	0	0	0	1	0	0	0	17779	1328	46	3	2102	3	ZNF229	19	44934577	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	3747668	44934577	14194406	232	50366										
VASP	7408	broad.mit.edu	37	chr19	46021024	46021024	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cccaggccttcagccgcgtcCagatctaccacaaccccacg	7	20	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:46021024C>A	uc002pcg.2	+	2	451	c.109C>A	c.(109-111)CAG>AAG	p.Q37K	VASP_uc010eki.2_Silent_p.S20S|VASP_uc002pci.2_Missense_Mutation_p.Q24K	NM_003370	NP_003361	P50552	VASP_HUMAN	vasodilator-stimulated phosphoprotein	37	WH1.				axon guidance|cell junction assembly|T cell receptor signaling pathway	actin cytoskeleton|cytosol|filopodium membrane|focal adhesion|lamellipodium membrane	actin binding|profilin binding|SH3 domain binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0145)|GBM - Glioblastoma multiforme(486;0.154)		CAGCCGCGTCCAGATCTACCA	0.642													27	63	---	---	---	---	PASS	A	46021024	A	A	46021024	3	1	141	1	0	0	0	0	1	0	0	0	17125	595	21	3	115	3	VASP	19	46021024	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	1086447	46021024	13107959	233	50367										
VASP	7408	broad.mit.edu	37	chr19	46021195	46021195	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ccctcccaccaggtggtcatCaactgtgccatcgtccgggg	11	16	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:46021195C>T	uc002pcg.2	+	3	528	c.186C>T	c.(184-186)ATC>ATT	p.I62I	VASP_uc010eki.2_Missense_Mutation_p.S46L|VASP_uc002pci.2_Silent_p.I49I	NM_003370	NP_003361	P50552	VASP_HUMAN	vasodilator-stimulated phosphoprotein	62	WH1.				axon guidance|cell junction assembly|T cell receptor signaling pathway	actin cytoskeleton|cytosol|filopodium membrane|focal adhesion|lamellipodium membrane	actin binding|profilin binding|SH3 domain binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0145)|GBM - Glioblastoma multiforme(486;0.154)		AGGTGGTCATCAACTGTGCCA	0.468													9	21	---	---	---	---	PASS	T	46021195	T	T	46021195	2	4	141	1	0	0	0	0	0	0	0	1	17125	816	29	2		2	VASP	19	46021195	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	171	46021195	13107788	234	50368										
LILRB1	10859	broad.mit.edu	37	chr19	55144519	55144519	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cagccgggccccacggtggcCtcaggagagaacgtgaccct	14	15	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:55144519C>A	uc002qgj.2	+	8	1351	c.1011C>A	c.(1009-1011)GCC>GCA	p.A337A	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Silent_p.A337A|LILRB1_uc002qgk.2_Silent_p.A337A|LILRB1_uc002qgm.2_Silent_p.A337A|LILRB1_uc010erq.2_Silent_p.A337A|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	337	Ig-like C2-type 4.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		CCACGGTGGCCTCAGGAGAGA	0.597										HNSCC(37;0.09)			22	24	---	---	---	---	PASS	A	55144519	A	A	55144519	2	1	141	1	0	0	0	0	0	0	0	1	8790	668	24	3		3	LILRB1	19	55144519	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	9123324	55144519	3984464	235	50369										
NLRP7	199713	broad.mit.edu	37	chr19	55441986	55441986	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctgcaggcttcttggagcgcCtctgagagatatctacagcc	11	12	3	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:55441986C>A	uc002qih.3	-	9	2767	c.2691G>T	c.(2689-2691)GAG>GAT	p.E897D	NLRP7_uc002qig.3_Missense_Mutation_p.E869D|NLRP7_uc002qii.3_Missense_Mutation_p.E897D|NLRP7_uc010esk.2_Missense_Mutation_p.E897D|NLRP7_uc010esl.2_Missense_Mutation_p.E925D	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	897	LRR 7.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CTTGGAGCGCCTCTGAGAGAT	0.478													18	51	---	---	---	---	PASS	A	55441986	A	A	55441986	3	1	141	1	0	0	0	0	1	0	0	0	10482	680	24	3	434	3	NLRP7	19	55441986	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	297467	55441986	3686997	236	50370										
PLCB4	5332	broad.mit.edu	37	chr20	9371211	9371211	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tacaagatgtccaaatattgCgaagatctatttggggatct	9	6	2	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:9371211C>A	uc002wnf.2	+	16	1408	c.1272C>A	c.(1270-1272)TGC>TGA	p.C424*	PLCB4_uc010gbw.1_Nonsense_Mutation_p.C424*|PLCB4_uc010gbx.2_Nonsense_Mutation_p.C424*|PLCB4_uc002wne.2_Nonsense_Mutation_p.C424*|PLCB4_uc002wnh.2_Nonsense_Mutation_p.C271*	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	424	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						CCAAATATTGCGAAGATCTAT	0.353													12	22	---	---	---	---	PASS	A	9371211	A	A	9371211	4	1	141	1	0	0	0	0	0	1	0	0	12030	776	27	1	1326	1	PLCB4	20	9371211	Nonsense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08		9371211	53654309	237	50371										
C20orf71	128861	broad.mit.edu	37	chr20	31814784	31814784	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggcagctggatgtgaaactgTtgaaaagcctcataggtgag	14	6	1	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:31814784T>C	uc002wyr.2	+	6	878	c.670T>C	c.(670-672)TTG>CTG	p.L224L	C20orf71_uc002wys.2_Silent_p.L188L	NM_178466	NP_848561	Q9BQP9	SPLC3_HUMAN	short long palate, lung and nasal epithelium	224						extracellular region	lipid binding			ovary(1)|skin(1)	2						TGTGAAACTGTTGAAAAGCCT	0.552													21	75	---	---	---	---	PASS	C	31814784	C	C	31814784	2	2	141	1	0	0	0	0	0	0	0	1	2117	1722	60	5		5	C20orf71	20	31814784	Silent	SNP	T	TCGA-66-2742-01A-01D-0983-08	22443573	31814784	31210736	238	50372										
FAM83C	128876	broad.mit.edu	37	chr20	33875512	33875512	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cgaggtaggaggagcgacccAtaagcggtgactgcttgatg	16	8	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:33875512A>T	uc010zux.1	-	4	1188	c.1070T>A	c.(1069-1071)ATG>AAG	p.M357K	EIF6_uc002xbx.1_5'Flank|EIF6_uc002xbz.1_5'Flank|EIF6_uc002xby.1_5'Flank|FAM83C_uc002xcb.1_Intron	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	357										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			GGAGCGACCCATAAGCGGTGA	0.652													14	25	---	---	---	---	PASS	T	33875512	T	T	33875512	3	4	141	1	0	0	0	0	1	0	0	0	5635	217	8	5	1177	5	FAM83C	20	33875512	Missense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	2060728	33875512	29150008	239	50373										
RALGAPB	57148	broad.mit.edu	37	chr20	37179733	37179733	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gctttttgtacctgaacctcGcccagttcctaaaaatgacg	7	12	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:37179733G>A	uc002xiw.2	+	21	3286	c.3029G>A	c.(3028-3030)CGC>CAC	p.R1010H	RALGAPB_uc002xix.2_Missense_Mutation_p.R1006H|RALGAPB_uc002xiy.1_Intron|RALGAPB_uc002xiz.2_Missense_Mutation_p.R788H	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	1010					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						CCTGAACCTCGCCCAGTTCCT	0.393													27	128	---	---	---	---	PASS	A	37179733	A	A	37179733	3	1	141	1	0	0	0	0	1	0	0	0	13015	1087	38	1	3107	1	RALGAPB	20	37179733	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	3304221	37179733	25845787	240	50374										
SLC32A1	140679	broad.mit.edu	37	chr20	37353631	37353631	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gacatccattatcagcgaggCagcggagctcctctgccgcc	11	15	2	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:37353631C>A	uc002xjc.2	+	1	527	c.264C>A	c.(262-264)GGC>GGA	p.G88G		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	88	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	ATCAGCGAGGCAGCGGAGCTC	0.672													24	37	---	---	---	---	PASS	A	37353631	A	A	37353631	2	1	141	1	0	0	0	0	0	0	0	1	14565	697	25	3		3	SLC32A1	20	37353631	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	173898	37353631	25671889	241	50375										
PTPRT	11122	broad.mit.edu	37	chr20	40713432	40713432	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gaggggggcgtgtcccggtaGgcaggccagccaatgtactg	18	10	0	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:40713432G>T	uc002xkg.2	-	29	4210	c.4026C>A	c.(4024-4026)GCC>GCA	p.A1342A	PTPRT_uc010ggj.2_Silent_p.A1361A|PTPRT_uc010ggi.2_Silent_p.A545A	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1342	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TGTCCCGGTAGGCAGGCCAGC	0.597													5	23	---	---	---	---	PASS	T	40713432	T	T	40713432	2	4	141	1	0	0	0	0	0	0	0	1	12812	987	35	3		3	PTPRT	20	40713432	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	3359801	40713432	22312088	242	50376										
ZFP64	55734	broad.mit.edu	37	chr20	50769544	50769544	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gagcctcagtcttaaccatgTccccatggaacttcttcatg	7	13	4	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:50769544T>A	uc002xwl.2	-	6	1536	c.1187A>T	c.(1186-1188)GAC>GTC	p.D396V	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.D394V|ZFP64_uc002xwn.2_Missense_Mutation_p.D342V	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	396					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTTAACCATGTCCCCATGGAA	0.552													21	66	---	---	---	---	PASS	A	50769544	A	A	50769544	3	1	141	1	0	0	0	0	1	0	0	0	17649	1667	58	5	2053	5	ZFP64	20	50769544	Missense_Mutation	SNP	T	TCGA-66-2742-01A-01D-0983-08	10056112	50769544	12255976	243	50377										
TPTE	7179	broad.mit.edu	37	chr21	10921941	10921941	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	acatctttcatacctttgcaGttgaacatatttcagaggca	6	9	3	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr21:10921941G>T	uc002yip.1	-	18	1450	c.1082C>A	c.(1081-1083)ACT>AAT	p.T361N	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.T343N|TPTE_uc002yir.1_Missense_Mutation_p.T323N|TPTE_uc010gkv.1_Missense_Mutation_p.T223N	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	361	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TACCTTTGCAGTTGAACATAT	0.338													7	79	---	---	---	---	PASS	T	10921941	T	T	10921941	3	4	141	1	0	0	0	0	1	0	0	0	16427	1029	36	3	601	3	TPTE	21	10921941	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08		10921941	37207954	244	50378										
ADAMTS5	11096	broad.mit.edu	37	chr21	28296372	28296372	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	cataagatcataaccacaggCtaacatttcttcaacaagca	4	11	3	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr21:28296372C>T	uc002ymg.2	-	8	3522	c.2793G>A	c.(2791-2793)TAG>TAA	p.*931*		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	931					proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						TAACCACAGGCTAACATTTCT	0.468													6	10	---	---	---	---	PASS	T	28296372	T	T	28296372	2	4	141	1	0	0	0	0	0	0	0	1	269	808	28	3		3	ADAMTS5	21	28296372	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	17374431	28296372	19833523	245	50379										
TSSK2	23617	broad.mit.edu	37	chr22	19119776	19119776	+	Frame_Shift_Del	DEL	G	-	-													0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	tctgcctccttcaagagggaGggggagggcaagtaccgcgc					rs139504972		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr22:19119776delG	uc002zow.2	+	1	1456	c.864delG	c.(862-864)GAGfs	p.E288fs	DGCR14_uc002zot.2_3'UTR|DGCR14_uc002zou.2_3'UTR|DGCR14_uc002zov.2_RNA	NM_053006	NP_443732	Q96PF2	TSSK2_HUMAN	testis-specific serine kinase 2	288					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1	Colorectal(54;0.0993)					TCAAGAGGGAGGGGGAGGGCA	0.637													42	21	---	---	---	---		-	19119776	-	-	19119776	7	5	141	1	0	1	0	1	0	0	0	0	16666	991	35	0	866	0	TSSK2	22	19119776	Frame_Shift_Del	DEL	G	TCGA-66-2742-01A-01D-0983-08		19119776	32184790	246	50380										
HSCB	150274	broad.mit.edu	37	chr22	29139937	29139937	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	agcaactgcagcgtcttgtcCacccagatttcttcagccag	8	14	3	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr22:29139937C>G	uc003aea.2	+	2	345	c.304C>G	c.(304-306)CAC>GAC	p.H102D	CHEK2_uc003adt.1_5'Flank|CHEK2_uc003adu.1_5'Flank|CHEK2_uc003adv.1_5'Flank|CHEK2_uc003adw.1_5'Flank|CHEK2_uc003adx.1_5'Flank|CHEK2_uc003ady.1_5'Flank|CHEK2_uc003adz.1_5'Flank	NM_172002	NP_741999	Q8IWL3	HSC20_HUMAN	J-type co-chaperone HSC20 precursor	102	J.			HPD->AAA: Does not interact with HSPA9. Does not inhibit interaction with ISCU.	iron-sulfur cluster assembly|protein folding	mitochondrion	chaperone binding|heat shock protein binding|metal ion binding			kidney(1)	1						GCGTCTTGTCCACCCAGATTT	0.478													19	63	---	---	---	---	PASS	G	29139937	G	G	29139937	3	3	141	1	0	0	0	0	1	0	0	0	7374	594	21	4	310	4	HSCB	22	29139937	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	10020161	29139937	22164629	247	50381										
SMTN	6525	broad.mit.edu	37	chr22	31484072	31484072	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	caagcgtttccgtgccgagcGgcaggacaacaaggagaact	13	11	0	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr22:31484072G>T	uc003ajl.1	+	3	391	c.173G>T	c.(172-174)CGG>CTG	p.R58L	SMTN_uc003ajk.1_Missense_Mutation_p.R58L|SMTN_uc003ajm.1_Missense_Mutation_p.R58L|SMTN_uc011ale.1_Missense_Mutation_p.R112L|SMTN_uc011alf.1_Missense_Mutation_p.R114L|SMTN_uc003ajn.1_Missense_Mutation_p.R50L|SMTN_uc011alg.1_5'Flank	NM_006932	NP_008863	P53814	SMTN_HUMAN	smoothelin isoform c	58	Potential.				muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3						CGTGCCGAGCGGCAGGACAAC	0.657													3	5	---	---	---	---	PASS	T	31484072	T	T	31484072	3	4	141	1	0	0	0	0	1	0	0	0	14814	1116	39	1	179	1	SMTN	22	31484072	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	2344135	31484072	19820494	248	50382										
LARGE	9215	broad.mit.edu	37	chr22	34157438	34157438	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	acgaggcagccaagaatttcCgtctccccctgcagattccc	8	16	1	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr22:34157438C>T	uc003and.3	-	3	605	c.26G>A	c.(25-27)CGG>CAG	p.R9Q	LARGE_uc003ane.3_Missense_Mutation_p.R9Q|LARGE_uc010gwp.2_Missense_Mutation_p.R9Q|LARGE_uc011ame.1_Intron|LARGE_uc011amf.1_Missense_Mutation_p.R9Q	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	9	Cytoplasmic (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				CAAGAATTTCCGTCTCCCCCT	0.532													9	73	---	---	---	---	PASS	T	34157438	T	T	34157438	3	4	141	1	0	0	0	0	1	0	0	0	8627	652	23	1	2300	1	LARGE	22	34157438	Missense_Mutation	SNP	C	TCGA-66-2742-01A-01D-0983-08	2673366	34157438	17147128	249	50383										
FAM47C	442444	broad.mit.edu	37	chrX	37027907	37027907	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gactggagtgtcccatctctGcccggagcctccagagaagg	13	13	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:37027907G>A	uc004ddl.1	+	1	1438	c.1424G>A	c.(1423-1425)TGC>TAC	p.C475Y		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	475										ovary(3)	3						TCCCATCTCTGCCCGGAGCCT	0.627													31	32	---	---	---	---	PASS	A	37027907	A	A	37027907	3	1	141	1	0	0	0	0	1	0	0	0	5571	1319	46	3	1426	3	FAM47C	23	37027907	Missense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08		37027907	118242653	250	50384										
TSPAN7	7102	broad.mit.edu	37	chrX	38546888	38546888	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ctggcctgctgtctgtcccgGttcatcacggccaatcagta	10	14	4	0			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:38546888G>T	uc004deg.3	+	7	786	c.717G>T	c.(715-717)CGG>CGT	p.R239R	TSPAN7_uc011mkj.1_Silent_p.R265R|TSPAN7_uc011mkk.1_Silent_p.R256R|TSPAN7_uc004deh.2_Silent_p.R147R	NM_004615	NP_004606	P41732	TSN7_HUMAN	tetraspanin 7	239	Cytoplasmic (Potential).				interspecies interaction between organisms	integral to plasma membrane				ovary(1)	1						GTCTGTCCCGGTTCATCACGG	0.473													13	7	---	---	---	---	PASS	T	38546888	T	T	38546888	2	4	141	1	0	0	0	0	0	0	0	1	16649	1248	44	3		3	TSPAN7	23	38546888	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	1518981	38546888	116723672	251	50385										
KDM6A	7403	broad.mit.edu	37	chrX	44941830	44941830	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ttaatctataggaagaaaatGaaaaaagaagtcatcataaa	6	3	3	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:44941830G>T	uc004dge.3	+	21	3529	c.3154G>T	c.(3154-3156)GAA>TAA	p.E1052*	KDM6A_uc011mkz.1_Nonsense_Mutation_p.E1104*|KDM6A_uc011mla.1_Nonsense_Mutation_p.E1007*|KDM6A_uc011mlb.1_Nonsense_Mutation_p.E1059*|KDM6A_uc011mlc.1_Nonsense_Mutation_p.E756*|KDM6A_uc011mld.1_Nonsense_Mutation_p.E691*	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	1052					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						GGAAGAAAATGAAAAAAGAAG	0.313			D|N|F|S		renal|oesophageal SCC|MM								20	10	---	---	---	---	PASS	T	44941830	T	T	44941830	4	4	141	1	0	0	0	0	0	1	0	0	8137	1291	45	2	3236	2	KDM6A	23	44941830	Nonsense_Mutation	SNP	G	TCGA-66-2742-01A-01D-0983-08	6394942	44941830	110328730	252	50386										
PSMD10	5716	broad.mit.edu	37	chrX	107334727	107334727	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	taggccaggttgcagaccatTaggttagacacacacccctc	9	13	0	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:107334727T>A	uc004enp.1	-	1	122	c.24A>T	c.(22-24)CTA>CTT	p.L8L	ATG4A_uc004enr.2_5'Flank|ATG4A_uc004ent.2_5'Flank|ATG4A_uc004ens.2_5'Flank|ATG4A_uc011msl.1_5'Flank|ATG4A_uc010npi.2_5'Flank|PSMD10_uc004enq.1_Silent_p.L8L|PSMD10_uc010nph.1_Silent_p.L8L	NM_002814	NP_002805	O75832	PSD10_HUMAN	proteasome 26S non-ATPase subunit 10 isoform 1	8	ANK 1.|Interaction with RB1.|Required for nuclear localization.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cytoplasmic sequestering of NF-kappaB|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of MAPKKK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of release of cytochrome c from mitochondria|negative regulation of transcription from RNA polymerase II promoter|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|proteasome regulatory particle assembly|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus|proteasome regulatory particle	transcription factor binding			ovary(1)	1						TGCAGACCATTAGGTTAGACA	0.562													45	25	---	---	---	---	PASS	A	107334727	A	A	107334727	2	1	141	1	0	0	0	0	0	0	0	1	12693	1741	61	5		5	PSMD10	23	107334727	Silent	SNP	T	TCGA-66-2742-01A-01D-0983-08	62392897	107334727	47935833	253	50387										
DCAF12L1	139170	broad.mit.edu	37	chrX	125686112	125686112	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ccggtggccagaagcgtcttGgagggattcagctcgatggc	16	10	2	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:125686112G>A	uc004eul.2	-	1	731	c.480C>T	c.(478-480)TCC>TCT	p.S160S		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	160	WD 1.									skin(3)|ovary(1)	4						GAAGCGTCTTGGAGGGATTCA	0.667													10	13	---	---	---	---	PASS	A	125686112	A	A	125686112	2	1	141	1	0	0	0	0	0	0	0	1	4264	1335	47	3		3	DCAF12L1	23	125686112	Silent	SNP	G	TCGA-66-2742-01A-01D-0983-08	18351385	125686112	29584448	254	50388										
BRS3	680	broad.mit.edu	37	chrX	135570420	135570420	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	ggaatagaagcattgtgtgcCatctatattacttatgctgt	9	6	1	1			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:135570420C>A	uc004ezv.1	+	1	296	c.147C>A	c.(145-147)GCC>GCA	p.A49A		NM_001727	NP_001718	P32247	BRS3_HUMAN	bombesin-like receptor 3	49	Helical; Name=1; (Potential).				adult feeding behavior|glucose metabolic process|regulation of blood pressure	integral to membrane|plasma membrane	bombesin receptor activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					CATTGTGTGCCATCTATATTA	0.398													34	25	---	---	---	---	PASS	A	135570420	A	A	135570420	2	1	141	1	0	0	0	0	0	0	0	1	1522	581	21	3		3	BRS3	23	135570420	Silent	SNP	C	TCGA-66-2742-01A-01D-0983-08	9884308	135570420	19700140	255	50389										
MCF2	4168	broad.mit.edu	37	chrX	138692464	138692464	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	aattaatgatatttacttttAagttgctctgattttgtctc	5	5	2	2			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:138692464A>T	uc004fau.2	-	11	1691	c.1397T>A	c.(1396-1398)TTA>TAA	p.L466*	MCF2_uc004fav.2_Nonsense_Mutation_p.L482*|MCF2_uc011mwl.1_Nonsense_Mutation_p.L443*|MCF2_uc010nsh.1_Nonsense_Mutation_p.L466*|MCF2_uc011mwm.1_Nonsense_Mutation_p.L427*|MCF2_uc011mwn.1_Nonsense_Mutation_p.L611*|MCF2_uc004faw.2_Nonsense_Mutation_p.L526*|MCF2_uc011mwo.1_Nonsense_Mutation_p.L542*	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	466					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					ATTTACTTTTAAGTTGCTCTG	0.299													3	5	---	---	---	---	PASS	T	138692464	T	T	138692464	4	4	141	1	0	0	0	0	0	1	0	0	9378	372	13	5	1468	5	MCF2	23	138692464	Nonsense_Mutation	SNP	A	TCGA-66-2742-01A-01D-0983-08	3122044	138692464	16578096	256	50390										
MAGEA8	4107	broad.mit.edu	37	chrX	149013145	149013145	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	16	0.153476659400455	1.38478114478114	1.88019853709509	1.14925484351714	0.757529692245078	1	0	gatgtgcagattcccacagcTgaggagcagaaggctgcatc	13	10	0	3			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:149013145T>C	uc004fdw.1	+	3	314	c.99T>C	c.(97-99)GCT>GCC	p.A33A		NM_005364	NP_005355	P43361	MAGA8_HUMAN	melanoma antigen family A, 8	33											0	Acute lymphoblastic leukemia(192;6.56e-05)					TTCCCACAGCTGAGGAGCAGA	0.567													4	12	---	---	---	---	PASS	C	149013145	C	C	149013145	2	2	141	1	0	0	0	0	0	0	0	1	9171	1567	55	5		5	MAGEA8	23	149013145	Silent	SNP	T	TCGA-66-2742-01A-01D-0983-08	10320681	149013145	6257415	257	50391										
ACAP3	116983	broad.mit.edu	37	chr1	1233244	1233244	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctctcgcggtaggcggaggcGatgctggcctgcacagcctg	16	13	1	0	rs144855997		TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:1233244G>A	uc001aeb.2	-	14	1160	c.1086C>T	c.(1084-1086)ATC>ATT	p.I362I	ACAP3_uc001ady.2_Silent_p.I92I|ACAP3_uc001aea.2_Silent_p.I320I	NM_030649	NP_085152	Q96P50	ACAP3_HUMAN	ArfGAP with coiled-coil, ankyrin repeat and PH	362	PH.				filopodium assembly|regulation of ARF GTPase activity|signal transduction		ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding				0						AGGCGGAGGCGATGCTGGCCT	0.682													10	5	---	---	---	---	PASS	A	1233244	A	A	1233244	2	1	142	1	0	0	0	0	0	0	0	1	120	1048	37	2		2	ACAP3	1	1233244	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08		1233244	248017377	1	50392										
CSMD2	114784	broad.mit.edu	37	chr1	34052159	34052159	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	taggttccaagtttgcaggtCagaatttcattccccactaa	7	10	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:34052159C>G	uc001bxn.1	-	47	7031	c.7002G>C	c.(7000-7002)CTG>CTC	p.L2334L	CSMD2_uc001bxm.1_Silent_p.L2332L	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2334	Sushi 13.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GTTTGCAGGTCAGAATTTCAT	0.493													13	25	---	---	---	---	PASS	G	34052159	G	G	34052159	2	3	142	1	0	0	0	0	0	0	0	1	3945	813	29	2		2	CSMD2	1	34052159	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	32818915	34052159	215198462	2	50393										
EPHA10	284656	broad.mit.edu	37	chr1	38187350	38187350	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acctcgggtaacaacgccctCcagccgcacgatgtggctat	10	15	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:38187350C>A	uc009vvi.2	-	11	2214	c.2128G>T	c.(2128-2130)GAG>TAG	p.E710*	EPHA10_uc001cbt.2_5'Flank|EPHA10_uc009vvh.1_RNA|EPHA10_uc001cbu.2_RNA|EPHA10_uc001cbv.1_RNA	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	710	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity	p.L710M(1)		breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				ACAACGCCCTCCAGCCGCACG	0.652													8	10	---	---	---	---	PASS	A	38187350	A	A	38187350	4	1	142	1	0	0	0	0	0	1	0	0	5166	864	30	2	926	2	EPHA10	1	38187350	Nonsense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	4135191	38187350	211063271	3	50394										
ZNF684	127396	broad.mit.edu	37	chr1	41006273	41006273	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tacaggaatcagtgacattcCaggatgtggctgtggatttc	12	7	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:41006273C>A	uc001cft.1	+	3	282	c.31C>A	c.(31-33)CAG>AAG	p.Q11K		NM_152373	NP_689586	Q5T5D7	ZN684_HUMAN	zinc finger protein 684	11	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	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;5.42e-18)			AGTGACATTCCAGGATGTGGC	0.428													5	55	---	---	---	---	PASS	A	41006273	A	A	41006273	3	1	142	1	0	0	0	0	1	0	0	0	18088	595	21	3	37	3	ZNF684	1	41006273	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	2818923	41006273	208244348	4	50395										
EPS15	2060	broad.mit.edu	37	chr1	51871588	51871588	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tagactcactggagattcctGgtgtatgggctcagactcta	11	9	3	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:51871588G>T	uc001csq.1	-	16	1758	c.1666C>A	c.(1666-1668)CAG>AAG	p.Q556K	EPS15_uc009vyz.1_Intron|EPS15_uc001csp.3_Missense_Mutation_p.Q242K	NM_001981	NP_001972	P42566	EPS15_HUMAN	epidermal growth factor receptor pathway	556					cell proliferation|clathrin coat assembly|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|protein transport	cytosol|early endosome membrane	calcium ion binding|SH3 domain binding			lung(1)|kidney(1)	2						GGAGATTCCTGGTGTATGGGC	0.423			T	MLL	ALL								5	69	---	---	---	---	PASS	T	51871588	T	T	51871588	3	4	142	1	0	0	0	0	1	0	0	0	5192	1357	47	3	1064	3	EPS15	1	51871588	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	10865315	51871588	197379033	5	50396										
PARS2	25973	broad.mit.edu	37	chr1	55224198	55224198	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggcagcctctggggaggagtCaaaggtgtacatatccttca	13	9	3	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:55224198C>G	uc001cxy.2	-	2	720	c.637G>C	c.(637-639)GAC>CAC	p.D213H		NM_152268	NP_689481	Q7L3T8	SYPM_HUMAN	prolyl-tRNA synthetase (mitochondrial)(putative)	213					prolyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|proline-tRNA ligase activity			ovary(2)	2					L-Proline(DB00172)	GGGGAGGAGTCAAAGGTGTAC	0.557													21	28	---	---	---	---	PASS	G	55224198	G	G	55224198	3	3	142	1	0	0	0	0	1	0	0	0	11467	826	29	2	794	2	PARS2	1	55224198	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	3352610	55224198	194026423	6	50397										
LEPROT	54741	broad.mit.edu	37	chr1	65895678	65895678	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tggcatatttcttcactactGgaattgttgtttctgccttt	7	8	3	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:65895678G>T	uc001dcf.2	+	3	315	c.226G>T	c.(226-228)GGA>TGA	p.G76*	LEPR_uc001dcg.2_Intron|LEPR_uc001dch.2_Intron|LEPR_uc001dci.2_Intron|LEPR_uc009waq.2_Intron|LEPROT_uc009wap.2_Nonsense_Mutation_p.G85*	NM_017526	NP_059996	O15243	OBRG_HUMAN	leptin receptor gene-related protein	76	Helical; (Potential).					endosome membrane|Golgi membrane|integral to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		CTTCACTACTGGAATTGTTGT	0.448													6	147	---	---	---	---	PASS	T	65895678	T	T	65895678	4	4	142	1	0	0	0	0	0	1	0	0	8732	1349	47	3	236	3	LEPROT	1	65895678	Nonsense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	10671480	65895678	183354943	7	50398										
DPYD	1806	broad.mit.edu	37	chr1	97547958	97547958	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atttcttcatcaatcatagcCacaacttgctctacgttgct	4	12	5	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:97547958C>A	uc001drv.2	-	22	2972	c.2835G>T	c.(2833-2835)GTG>GTT	p.V945V		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	945	4Fe-4S ferredoxin-type 2.				'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	CAATCATAGCCACAACTTGCT	0.393													5	48	---	---	---	---	PASS	A	97547958	A	A	97547958	2	1	142	1	0	0	0	0	0	0	0	1	4745	581	21	3		3	DPYD	1	97547958	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	31652280	97547958	151702663	8	50399										
SPAG17	200162	broad.mit.edu	37	chr1	118548056	118548056	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cctgaaaagtgtttccctcaGgatccagaacctcacagata	7	12	2	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:118548056G>T	uc001ehk.2	-	32	4825	c.4757C>A	c.(4756-4758)CCT>CAT	p.P1586H		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1586						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GTTTCCCTCAGGATCCAGAAC	0.438													5	80	---	---	---	---	PASS	T	118548056	T	T	118548056	3	4	142	1	0	0	0	0	1	0	0	0	14979	1000	35	3	1982	3	SPAG17	1	118548056	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	21000098	118548056	130702565	9	50400										
SPAG17	200162	broad.mit.edu	37	chr1	118635898	118635898	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ccaatccaggatgtcatacaTcaagcaggcaatattttcaa	6	10	3	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:118635898T>A	uc001ehk.2	-	8	1122	c.1054A>T	c.(1054-1056)ATG>TTG	p.M352L		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	352						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		ATGTCATACATCAAGCAGGCA	0.373													10	13	---	---	---	---	PASS	A	118635898	A	A	118635898	3	1	142	1	0	0	0	0	1	0	0	0	14979	1435	50	5	5781	5	SPAG17	1	118635898	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	87842	118635898	130614723	10	50401										
PPIAL4G	644591	broad.mit.edu	37	chr1	143767766	143767766	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tttctgctgtctttggaatcTtgtctgcaaactgtttgatg	9	7	4	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:143767766T>A	uc001ejt.2	-	1	116	c.83A>T	c.(82-84)AAG>ATG	p.K28M		NM_001123068	NP_001116540	A2BFH1	PAL4G_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	28	PPIase cyclophilin-type.				protein folding	cytoplasm	peptidyl-prolyl cis-trans isomerase activity				0						CTTTGGAATCTTGTCTGCAAA	0.468													29	199	---	---	---	---	PASS	A	143767766	A	A	143767766	3	1	142	1	0	0	0	0	1	0	0	0	12318	1609	56	5	415	5	PPIAL4G	1	143767766	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	25131868	143767766	105482855	11	50402										
ITGA10	8515	broad.mit.edu	37	chr1	145532206	145532206	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gagagtcccatgatggagagGagcttcctgcagcactaaag	13	9	0	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:145532206G>A	uc001eoa.2	+	8	926	c.850G>A	c.(850-852)GAG>AAG	p.E284K	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.E153K|ITGA10_uc009wiw.2_Missense_Mutation_p.E141K|ITGA10_uc010oyw.1_Missense_Mutation_p.E229K	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	284	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TGATGGAGAGGAGCTTCCTGC	0.567													12	49	---	---	---	---	PASS	A	145532206	A	A	145532206	3	1	142	1	0	0	0	0	1	0	0	0	7873	1175	41	2	880	2	ITGA10	1	145532206	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	1764440	145532206	103718415	12	50403										
FLG	2312	broad.mit.edu	37	chr1	152281652	152281652	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgtcctgggccctgatgattGtccctggcccacctgcgagt	12	14	0	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:152281652G>T	uc001ezu.1	-	3	5746	c.5710C>A	c.(5710-5712)CAA>AAA	p.Q1904K		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1904	Ser-rich.|Filaggrin 11.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGATGATTGTCCCTGGCCC	0.587									Ichthyosis				51	174	---	---	---	---	PASS	T	152281652	T	T	152281652	3	4	142	1	0	0	0	0	1	0	0	0	5922	1386	48	3	6479	3	FLG	1	152281652	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	6749446	152281652	96968969	13	50404										
INSRR	3645	broad.mit.edu	37	chr1	156823678	156823678	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cctcgcccagcttgttgcccAcgatgtggttggcgccaggt	13	14	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:156823678A>G	uc010pht.1	-	2	757	c.503T>C	c.(502-504)GTG>GCG	p.V168A	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron|INSRR_uc009wsj.1_Missense_Mutation_p.V168A	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	168					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CTTGTTGCCCACGATGTGGTT	0.642													5	20	---	---	---	---	PASS	G	156823678	G	G	156823678	3	3	142	1	0	0	0	0	1	0	0	0	7774	159	6	5	3473	5	INSRR	1	156823678	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	4542026	156823678	92426943	14	50405										
C1orf92	149499	broad.mit.edu	37	chr1	156899076	156899076	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ccatttgtgagcacagccctCctcctctcgacacggggact	9	16	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:156899076C>T	uc001fqm.2	+	10	1173	c.1001C>T	c.(1000-1002)TCC>TTC	p.S334F	C1orf92_uc001fql.2_Missense_Mutation_p.S119F	NM_144702	NP_653303	Q8N4P6	LRC71_HUMAN	hypothetical protein LOC149499	334											0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GCACAGCCCTCCTCCTCTCGA	0.552													4	19	---	---	---	---	PASS	T	156899076	T	T	156899076	3	4	142	1	0	0	0	0	1	0	0	0	2069	855	30	2	1039	2	C1orf92	1	156899076	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	75398	156899076	92351545	15	50406										
ARHGAP30	257106	broad.mit.edu	37	chr1	161039355	161039355	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgcaggtgctcctgcaagtcGcacccaaaaacccgctcctt	8	16	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:161039355G>A	uc001fxl.2	-	1	406	c.60C>T	c.(58-60)TGC>TGT	p.C20C	ARHGAP30_uc001fxk.2_Silent_p.C20C|ARHGAP30_uc001fxm.2_5'UTR|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_5'UTR	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	20	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			CCTGCAAGTCGCACCCAAAAA	0.637													22	43	---	---	---	---	PASS	A	161039355	A	A	161039355	2	1	142	1	0	0	0	0	0	0	0	1	879	1079	38	1		1	ARHGAP30	1	161039355	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	4140279	161039355	88211266	16	50407										
FAM5B	57795	broad.mit.edu	37	chr1	177199026	177199026	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gagaagcatgaggtggcagtGtggcactcggtttagagggc	18	6	0	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:177199026G>A	uc001glf.2	+	2	326	c.14G>A	c.(13-15)TGT>TAT	p.C5Y		NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	5						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						AGGTGGCAGTGTGGCACTCGG	0.652													6	17	---	---	---	---	PASS	A	177199026	A	A	177199026	3	1	142	1	0	0	0	0	1	0	0	0	5593	1377	48	3	16	3	FAM5B	1	177199026	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	16159671	177199026	72051595	17	50408										
TDRD5	163589	broad.mit.edu	37	chr1	179659920	179659920	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acaagcgtcaagaatctgtaGaccagctgtctttgattttg	9	8	3	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:179659920G>T	uc001gnf.1	+	17	3038	c.2788G>T	c.(2788-2790)GAC>TAC	p.D930Y	TDRD5_uc010pnp.1_Missense_Mutation_p.D984Y|TDRD5_uc001gnh.1_Missense_Mutation_p.D485Y	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	930					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						AGAATCTGTAGACCAGCTGTC	0.443													8	41	---	---	---	---	PASS	T	179659920	T	T	179659920	3	4	142	1	0	0	0	0	1	0	0	0	15730	942	33	2	2850	2	TDRD5	1	179659920	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	2460894	179659920	69590701	18	50409										
CDC73	79577	broad.mit.edu	37	chr1	193121513	193121513	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cctcttttttttcgtagaaaCggaaggcttcaaaattgaca	7	8	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:193121513C>A	uc001gtb.2	+	10	1154	c.911C>A	c.(910-912)ACG>AAG	p.T304K		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	304					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						TTCGTAGAAACGGAAGGCTTC	0.338									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				3	13	---	---	---	---	PASS	A	193121513	A	A	193121513	3	1	142	1	0	0	0	0	1	0	0	0	3085	536	19	1	949	1	CDC73	1	193121513	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	13461593	193121513	56129108	19	50410										
PTPRC	5788	broad.mit.edu	37	chr1	198678943	198678943	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gcaagtaaaattattaaaacAgattttgggagtgagtatgt	10	2	0	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:198678943A>C	uc001gur.1	+	11	1335	c.1155A>C	c.(1153-1155)ACA>ACC	p.T385T	PTPRC_uc001gus.1_Silent_p.T337T|PTPRC_uc001gut.1_Silent_p.T224T|PTPRC_uc009wzf.1_Silent_p.T273T|PTPRC_uc010ppg.1_Silent_p.T321T	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	385	Extracellular (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TTATTAAAACAGATTTTGGGA	0.269													18	39	---	---	---	---	PASS	C	198678943	C	C	198678943	2	2	142	1	0	0	0	0	0	0	0	1	12797	175	7	5		5	PTPRC	1	198678943	Silent	SNP	A	TCGA-66-2744-01A-01D-0983-08	5557430	198678943	50571678	20	50411										
ZNF281	23528	broad.mit.edu	37	chr1	200377463	200377463	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tttggcaccctcttctgcagTtcatctattccagtgccaat	6	13	4	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:200377463T>C	uc001gve.2	-	2	1478	c.1371A>G	c.(1369-1371)GAA>GAG	p.E457E	ZNF281_uc001gvf.1_Silent_p.E457E|ZNF281_uc001gvg.1_Silent_p.E421E	NM_012482	NP_036614	Q9Y2X9	ZN281_HUMAN	zinc finger protein 281	457					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)	2						TCTTCTGCAGTTCATCTATTC	0.373													19	56	---	---	---	---	PASS	C	200377463	C	C	200377463	2	2	142	1	0	0	0	0	0	0	0	1	17815	1722	60	5		5	ZNF281	1	200377463	Silent	SNP	T	TCGA-66-2744-01A-01D-0983-08	1698520	200377463	48873158	21	50412										
KCNH1	3756	broad.mit.edu	37	chr1	210856671	210856671	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gattctggggactgtggcctCgatatttcaaacaactcctg	10	10	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:210856671C>A	uc001hib.2	-	11	3092	c.2922G>T	c.(2920-2922)TCG>TCT	p.S974S	KCNH1_uc001hic.2_Silent_p.S947S	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	974	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		ACTGTGGCCTCGATATTTCAA	0.438													5	123	---	---	---	---	PASS	A	210856671	A	A	210856671	2	1	142	1	0	0	0	0	0	0	0	1	8031	871	31	2		2	KCNH1	1	210856671	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	10479208	210856671	38393950	22	50413										
OR2L2	26246	broad.mit.edu	37	chr1	248202064	248202064	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acagtatatgcactctgtatCccatattgcaagtccagagc	7	11	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr1:248202064C>A	uc001idw.2	+	1	591	c.495C>A	c.(493-495)ATC>ATA	p.I165I	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			CACTCTGTATCCCATATTGCA	0.433													33	65	---	---	---	---	PASS	A	248202064	A	A	248202064	2	1	142	1	0	0	0	0	0	0	0	1	11007	845	30	2		2	OR2L2	1	248202064	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	37345393	248202064	1048557	23	50414										
THUMPD2	80745	broad.mit.edu	37	chr2	39963957	39963957	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	taactttgtagcattccactGgtaccaaggagccaaatggt	9	9	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:39963957G>T	uc002rru.2	-	10	1467	c.1430C>A	c.(1429-1431)CCA>CAA	p.P477Q	THUMPD2_uc002rrv.2_RNA|THUMPD2_uc010ynt.1_Missense_Mutation_p.P368Q	NM_025264	NP_079540	Q9BTF0	THUM2_HUMAN	THUMP domain containing 2	477							methyltransferase activity			skin(1)	1		all_hematologic(82;0.248)				GCATTCCACTGGTACCAAGGA	0.438													5	72	---	---	---	---	PASS	T	39963957	T	T	39963957	3	4	142	1	0	0	0	0	1	0	0	0	15880	1348	47	3	85	3	THUMPD2	2	39963957	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08		39963957	203235416	24	50415										
USP34	9736	broad.mit.edu	37	chr2	61441365	61441365	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	caccacatcctgatcatcatGgtcagcaaggatgtaattga	8	10	3	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:61441365G>T	uc002sbe.2	-	68	8534	c.8512C>A	c.(8512-8514)CAT>AAT	p.H2838N		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2838					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TGATCATCATGGTCAGCAAGG	0.478													6	69	---	---	---	---	PASS	T	61441365	T	T	61441365	3	4	142	1	0	0	0	0	1	0	0	0	17062	1348	47	3	2180	3	USP34	2	61441365	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	21477408	61441365	181758008	25	50416										
REG1A	5967	broad.mit.edu	37	chr2	79350303	79350303	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aatggaaggatgtgccttgtGaagacaagttctcctttgtc	11	7	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:79350303G>A	uc002snz.2	+	6	566	c.463G>A	c.(463-465)GAA>AAA	p.E155K	REG1A_uc010ysd.1_Missense_Mutation_p.E155K	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	155	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						TGTGCCTTGTGAAGACAAGTT	0.413													6	51	---	---	---	---	PASS	A	79350303	A	A	79350303	3	1	142	1	0	0	0	0	1	0	0	0	13210	1291	45	2	481	2	REG1A	2	79350303	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	17908938	79350303	163849070	26	50417										
LRP1B	53353	broad.mit.edu	37	chr2	141291599	141291599	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	caagtatttacctttacaatCtaattcatcagagttgtctc	4	9	4	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:141291599C>A	uc002tvj.1	-	47	8725	c.7753G>T	c.(7753-7755)GAT>TAT	p.D2585Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2585	Extracellular (Potential).|LDL-receptor class A 12.				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)		CCTTTACAATCTAATTCATCA	0.418										TSP Lung(27;0.18)			8	33	---	---	---	---	PASS	A	141291599	A	A	141291599	3	1	142	1	0	0	0	0	1	0	0	0	8955	913	32	2	6226	2	LRP1B	2	141291599	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	61941296	141291599	101907774	27	50418										
RBMS1	5937	broad.mit.edu	37	chr2	161141535	161141535	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atagcagctgtagttgggtcGtaagtaagtgtcattccagc	12	7	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:161141535G>T	uc002ubo.2	-	8	1221	c.777C>A	c.(775-777)TAC>TAA	p.Y259*	RBMS1_uc002ubj.2_Nonsense_Mutation_p.Y223*|RBMS1_uc002ubk.2_Nonsense_Mutation_p.Y223*|RBMS1_uc002ubl.2_Nonsense_Mutation_p.Y254*|RBMS1_uc002ubn.2_Nonsense_Mutation_p.Y256*|RBMS1_uc002ubi.3_Nonsense_Mutation_p.Y256*|RBMS1_uc002ubm.2_Nonsense_Mutation_p.Y226*|RBMS1_uc002ubp.2_Nonsense_Mutation_p.Y259*|RBMS1_uc010fox.2_Nonsense_Mutation_p.Y259*	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	259					DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						TAGTTGGGTCGTAAGTAAGTG	0.318													26	29	---	---	---	---	PASS	T	161141535	T	T	161141535	4	4	142	1	0	0	0	0	0	1	0	0	13148	1140	40	1	467	1	RBMS1	2	161141535	Nonsense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	19849936	161141535	82057838	28	50419										
XIRP2	129446	broad.mit.edu	37	chr2	168108054	168108054	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttaacatctttaggaaacacGagttttacagacttttcttg	6	7	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:168108054G>T	uc002udx.2	+	8	10170	c.10152G>T	c.(10150-10152)ACG>ACT	p.T3384T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.T3209T|XIRP2_uc010fpq.2_Silent_p.T3162T|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3209					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TAGGAAACACGAGTTTTACAG	0.383													21	80	---	---	---	---	PASS	T	168108054	T	T	168108054	2	4	142	1	0	0	0	0	0	0	0	1	17427	1045	37	2		2	XIRP2	2	168108054	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	6966519	168108054	75091319	29	50420										
ABCB11	8647	broad.mit.edu	37	chr2	169780238	169780238	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ccaccccctgtgccatgacaGcaatgatatccgcgttctgg	9	15	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:169780238G>T	uc002ueo.1	-	28	3986	c.3860C>A	c.(3859-3861)GCT>GAT	p.A1287D	ABCB11_uc010zda.1_Missense_Mutation_p.A705D|ABCB11_uc010zdb.1_Missense_Mutation_p.A763D	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	1287	Cytoplasmic (Potential).|ABC transporter 2.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	TGCCATGACAGCAATGATATC	0.532													10	61	---	---	---	---	PASS	T	169780238	T	T	169780238	3	4	142	1	0	0	0	0	1	0	0	0	42	971	34	3	109	3	ABCB11	2	169780238	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	1672184	169780238	73419135	30	50421										
CDCA7	83879	broad.mit.edu	37	chr2	174230295	174230295	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gaacgtctgcagcaattctcGagagaagatatataaccgtt	9	8	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:174230295G>A	uc002uid.1	+	6	904	c.773G>A	c.(772-774)CGA>CAA	p.R258Q	CDCA7_uc002uic.1_Missense_Mutation_p.R337Q|CDCA7_uc010zej.1_Missense_Mutation_p.R293Q|CDCA7_uc010zek.1_Missense_Mutation_p.R216Q	NM_145810	NP_665809	Q9BWT1	CDCA7_HUMAN	cell division cycle associated 7 isoform 2	258	Mediates transcriptional activity.				regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.116)			AGCAATTCTCGAGAGAAGATA	0.478													7	33	---	---	---	---	PASS	A	174230295	A	A	174230295	3	1	142	1	0	0	0	0	1	0	0	0	3090	1058	37	2	1036	2	CDCA7	2	174230295	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	4450057	174230295	68969078	31	50422										
TTC30A	92104	broad.mit.edu	37	chr2	178482680	178482680	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttaaggttgaaggcttccacCagagcagtctgatggagaac	12	8	1	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:178482680C>A	uc002ulo.2	-	1	1015	c.750G>T	c.(748-750)CTG>CTT	p.L250L		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	250					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			AGGCTTCCACCAGAGCAGTCT	0.537													5	73	---	---	---	---	PASS	A	178482680	A	A	178482680	2	1	142	1	0	0	0	0	0	0	0	1	16695	581	21	3		3	TTC30A	2	178482680	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	4252385	178482680	64716693	32	50423										
TTN	7273	broad.mit.edu	37	chr2	179411391	179411391	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttgctaattacgcctgctgcAttcttggctaacacacggaa	8	11	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:179411391A>T	uc010zfg.1	-	290	87284	c.87060T>A	c.(87058-87060)AAT>AAA	p.N29020K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.N22715K|TTN_uc010zfi.1_Missense_Mutation_p.N22648K|TTN_uc010zfj.1_Missense_Mutation_p.N22523K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29947							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)			CGCCTGCTGCATTCTTGGCTA	0.438													11	36	---	---	---	---	PASS	T	179411391	T	T	179411391	3	4	142	1	0	0	0	0	1	0	0	0	16732	214	8	5	13303	5	TTN	2	179411391	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	928711	179411391	63787982	33	50424										
TTN	7273	broad.mit.edu	37	chr2	179457260	179457260	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gctttagttggagcatctctGtcttcttttttccaagttac	7	9	3	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:179457260G>A	uc010zfg.1	-	250	51992	c.51768C>T	c.(51766-51768)GAC>GAT	p.D17256D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.D10951D|TTN_uc010zfi.1_Silent_p.D10884D|TTN_uc010zfj.1_Silent_p.D10759D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	18183							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)			GAGCATCTCTGTCTTCTTTTT	0.388													19	130	---	---	---	---	PASS	A	179457260	A	A	179457260	2	1	142	1	0	0	0	0	0	0	0	1	16732	1368	48	3		3	TTN	2	179457260	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	45869	179457260	63742113	34	50425										
HECW2	57520	broad.mit.edu	37	chr2	197090571	197090571	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggtgtattagtgcaagaccaAggatcctaccactgaatcgg	11	9	0	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:197090571A>T	uc002utm.1	-	23	4124	c.3941T>A	c.(3940-3942)CTT>CAT	p.L1314H	HECW2_uc002utl.1_Missense_Mutation_p.L958H	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	1314	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						TGCAAGACCAAGGATCCTACC	0.423													5	33	---	---	---	---	PASS	T	197090571	T	T	197090571	3	4	142	1	0	0	0	0	1	0	0	0	7043	72	3	5	805	5	HECW2	2	197090571	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	17633311	197090571	46108802	35	50426										
NRP2	8828	broad.mit.edu	37	chr2	206562429	206562429	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tcaaccctcactttgaaatcGagaagcacgactgcaagtaa	7	11	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:206562429G>T	uc002vaw.2	+	2	1026	c.235G>T	c.(235-237)GAG>TAG	p.E79*	NRP2_uc002vat.2_Nonsense_Mutation_p.E79*|NRP2_uc002vau.2_Nonsense_Mutation_p.E79*|NRP2_uc002vav.2_Nonsense_Mutation_p.E79*|NRP2_uc002vax.2_Nonsense_Mutation_p.E79*|NRP2_uc002vay.2_Nonsense_Mutation_p.E79*|NRP2_uc010fud.2_Nonsense_Mutation_p.E79*	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	79	Extracellular (Potential).|CUB 1.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						CTTTGAAATCGAGAAGCACGA	0.552													9	289	---	---	---	---	PASS	T	206562429	T	T	206562429	4	4	142	1	0	0	0	0	0	1	0	0	10661	1059	37	2	241	2	NRP2	2	206562429	Nonsense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	9471858	206562429	36636944	36	50427										
CCDC108	255101	broad.mit.edu	37	chr2	219869012	219869012	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggctgcttgcccttcccatcCtcccagctgctggagggtac	11	16	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:219869012C>A	uc002vjl.1	-	33	5301	c.5217G>T	c.(5215-5217)GAG>GAT	p.E1739D	uc010fvz.1_5'Flank|MIR375_hsa-mir-375|MI0000783_5'Flank	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	1739						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCTTCCCATCCTCCCAGCTGC	0.413													19	61	---	---	---	---	PASS	A	219869012	A	A	219869012	3	1	142	1	0	0	0	0	1	0	0	0	2743	680	24	3	572	3	CCDC108	2	219869012	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	13306583	219869012	23330361	37	50428										
SPEG	10290	broad.mit.edu	37	chr2	220309423	220309423	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cgatgtgcagggaacccagcGcctggagcttcgggatgacg	16	11	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:220309423G>A	uc010fwg.2	+	2	437	c.437G>A	c.(436-438)CGC>CAC	p.R146H	SPEG_uc002vlm.2_RNA|SPEG_uc010fwh.1_5'UTR|SPEG_uc002vln.1_5'UTR	NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	146					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GGAACCCAGCGCCTGGAGCTT	0.632													9	37	---	---	---	---	PASS	A	220309423	A	A	220309423	3	1	142	1	0	0	0	0	1	0	0	0	15035	1087	38	1	443	1	SPEG	2	220309423	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	440411	220309423	22889950	38	50429										
COL4A4	1286	broad.mit.edu	37	chr2	227924170	227924170	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctgggtccttttatccctggCactcctgaaagacccctctt	7	15	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:227924170C>A	uc010zlt.1	-	28	2988	c.2334G>T	c.(2332-2334)GTG>GTT	p.V778V		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	778	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		TTATCCCTGGCACTCCTGAAA	0.577													25	119	---	---	---	---	PASS	A	227924170	A	A	227924170	2	1	142	1	0	0	0	0	0	0	0	1	3693	697	25	3		3	COL4A4	2	227924170	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	7614747	227924170	15275203	39	50430										
ATG16L1	55054	broad.mit.edu	37	chr2	234202917	234202917	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttgaagctcatccatcaatgCggtggcgtggtcgccctctg	12	12	3	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:234202917C>A	uc002vty.2	+	18	2002	c.1745C>A	c.(1744-1746)GCG>GAG	p.A582E	ATG16L1_uc002vtx.1_Missense_Mutation_p.A419E|ATG16L1_uc002vua.2_Missense_Mutation_p.A563E|ATG16L1_uc002vub.2_Missense_Mutation_p.A440E|ATG16L1_uc002vtz.2_Missense_Mutation_p.A403E|ATG16L1_uc002vud.3_Missense_Mutation_p.A498E	NM_030803	NP_110430	Q676U5	A16L1_HUMAN	APG16 autophagy 16-like isoform 1	582	WD 7.				autophagic vacuole assembly|protein homooligomerization|protein transport	autophagic vacuole|pre-autophagosomal structure membrane	protein binding				0		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0539)		Epithelial(121;1.53e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000379)|LUSC - Lung squamous cell carcinoma(224;0.00619)|Lung(119;0.00732)|GBM - Glioblastoma multiforme(43;0.11)		TCCATCAATGCGGTGGCGTGG	0.522													10	43	---	---	---	---	PASS	A	234202917	A	A	234202917	3	1	142	1	0	0	0	0	1	0	0	0	1091	768	27	1	1815	1	ATG16L1	2	234202917	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	6278747	234202917	8996456	40	50431										
UGT1A9	54600	broad.mit.edu	37	chr2	234580705	234580705	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gagccactggttcaccatgaGgtcggtggtggagaaactca	14	9	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr2:234580705G>T	uc002vus.2	+	1	162	c.125G>T	c.(124-126)AGG>ATG	p.R42M	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Missense_Mutation_p.R42M	NM_021027	NP_066307	O60656	UD19_HUMAN	UDP glycosyltransferase 1 family, polypeptide A9	42					drug metabolic process|flavone metabolic process|negative regulation of fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding			ovary(3)|breast(1)|skin(1)	5		Breast(86;0.000766)|all_lung(227;0.00269)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0331)|Lung NSC(271;0.0459)|Lung SC(224;0.128)		Epithelial(121;1.26e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000436)|Lung(119;0.00347)|LUSC - Lung squamous cell carcinoma(224;0.00757)	Entacapone(DB00494)|Etodolac(DB00749)|Indomethacin(DB00328)|Irinotecan(DB00762)|Mycophenolic acid(DB01024)|Oxyphenonium(DB00219)|Propofol(DB00818)|Sorafenib(DB00398)	TTCACCATGAGGTCGGTGGTG	0.552													14	38	---	---	---	---	PASS	T	234580705	T	T	234580705	3	4	142	1	0	0	0	0	1	0	0	0	16949	1000	35	3	127	3	UGT1A9	2	234580705	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	377788	234580705	8618668	41	50432										
HRH1	3269	broad.mit.edu	37	chr3	11301422	11301422	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atcaataggtccctcccttcCttctcagaaattaagctgag	6	12	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:11301422C>A	uc010hdr.2	+	2	1041	c.699C>A	c.(697-699)TCC>TCA	p.S233S	HRH1_uc010hds.2_Silent_p.S233S|HRH1_uc010hdt.2_Silent_p.S233S|HRH1_uc003bwb.3_Silent_p.S233S	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1	233	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	CCCTCCCTTCCTTCTCAGAAA	0.537													5	74	---	---	---	---	PASS	A	11301422	A	A	11301422	2	1	142	1	0	0	0	0	0	0	0	1	7355	668	24	3		3	HRH1	3	11301422	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08		11301422	186721008	42	50433										
TIMP4	7079	broad.mit.edu	37	chr3	12195893	12195893	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgcaccaaggacaggtcctcCcagggctcgatgtagttgca	12	12	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:12195893C>A	uc003bwo.2	-	4	718	c.411G>T	c.(409-411)TGG>TGT	p.W137C	SYN2_uc003bwl.1_Intron|SYN2_uc003bwm.2_Intron|SYN2_uc003bwn.2_Intron	NM_003256	NP_003247	Q99727	TIMP4_HUMAN	tissue inhibitor of metalloproteinase 4	137	NTR.						metal ion binding|metalloendopeptidase inhibitor activity				0						ACAGGTCCTCCCAGGGCTCGA	0.493													39	46	---	---	---	---	PASS	A	12195893	A	A	12195893	3	1	142	1	0	0	0	0	1	0	0	0	15917	624	22	3	271	3	TIMP4	3	12195893	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	894471	12195893	185826537	43	50434										
NEK10	152110	broad.mit.edu	37	chr3	27332856	27332856	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gattaatgctttcaatatttTcagcaatttgcttcagttca	5	7	4	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:27332856T>A	uc003cdt.1	-	19	1776	c.1502A>T	c.(1501-1503)GAA>GTA	p.E501V	NEK10_uc003cds.1_5'UTR	NM_199347	NP_955379	Q6ZWH5	NEK10_HUMAN	NIMA-related kinase 10 isoform 3	501	Potential.						ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						TTCAATATTTTCAGCAATTTG	0.343													18	25	---	---	---	---	PASS	A	27332856	A	A	27332856	3	1	142	1	0	0	0	0	1	0	0	0	10322	1783	62	5	664	5	NEK10	3	27332856	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	15136963	27332856	170689574	44	50435										
GOLGA4	2803	broad.mit.edu	37	chr3	37292888	37292888	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aataatttttaaatctaggcGtcctccaattcttcaacacc	3	11	3	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:37292888G>T	uc003cgv.2	+	2	379	c.75G>T	c.(73-75)GCG>GCT	p.A25A	GOLGA4_uc010hgr.1_Silent_p.A25A|GOLGA4_uc003cgw.2_Silent_p.A25A|GOLGA4_uc010hgs.2_Silent_p.A25A|GOLGA4_uc003cgu.1_Silent_p.A25A	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	25					Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						AAATCTAGGCGTCCTCCAATT	0.388													15	19	---	---	---	---	PASS	T	37292888	T	T	37292888	2	4	142	1	0	0	0	0	0	0	0	1	6555	1132	40	1		1	GOLGA4	3	37292888	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	9960032	37292888	160729542	45	50436										
SMARCC1	6599	broad.mit.edu	37	chr3	47734751	47734751	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctagatccgctacagttcctCctttaacaggtgtattttca	6	11	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:47734751C>A	uc003crq.2	-	12	1323	c.1205G>T	c.(1204-1206)GGA>GTA	p.G402V	SMARCC1_uc011bbd.1_Missense_Mutation_p.G293V	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	402					chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		TACAGTTCCTCCTTTAACAGG	0.333													5	59	---	---	---	---	PASS	A	47734751	A	A	47734751	3	1	142	1	0	0	0	0	1	0	0	0	14775	855	30	2	2180	2	SMARCC1	3	47734751	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	10441863	47734751	150287679	46	50437										
RBM5	10181	broad.mit.edu	37	chr3	50151525	50151525	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cgctggctttgctctctttgAgaagaaggtaatagcaggaa	12	7	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:50151525A>G	uc003cyg.2	+	19	1908	c.1760A>G	c.(1759-1761)GAG>GGG	p.E587G	RBM5_uc011bdj.1_Missense_Mutation_p.E531G|RBM5_uc011bdk.1_Missense_Mutation_p.E415G|RBM5_uc003cyh.2_Missense_Mutation_p.E44G	NM_005778	NP_005769	P52756	RBM5_HUMAN	RNA binding motif protein 5	587	Required for interaction with U2AF2.				apoptosis|negative regulation of cell proliferation|positive regulation of apoptosis|regulation of alternative nuclear mRNA splicing, via spliceosome|spliceosome assembly	nucleoplasm|spliceosomal complex	DNA binding|mRNA binding|nucleotide binding|protein binding|zinc ion binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000121)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCTCTCTTTGAGAAGAAGGTA	0.448													5	52	---	---	---	---	PASS	G	50151525	G	G	50151525	3	3	142	1	0	0	0	0	1	0	0	0	13143	304	11	5	1830	5	RBM5	3	50151525	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	2416774	50151525	147870905	47	50438										
WNT5A	7474	broad.mit.edu	37	chr3	55513523	55513523	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgagaaagtcctgccagttgGctgcagagaggctgtgctcc	14	10	0	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:55513523G>T	uc003dhn.2	-	3	528	c.210C>A	c.(208-210)AGC>AGA	p.S70R	WNT5A_uc003dhm.2_Missense_Mutation_p.S55R|WNT5A_uc010hmw.2_Missense_Mutation_p.S55R|WNT5A_uc010hmx.2_Intron	NM_003392	NP_003383	P41221	WNT5A_HUMAN	wingless-type MMTV integration site family,	70					activation of JUN kinase activity|activation of protein kinase B activity|axon guidance|cartilage development|cellular protein localization|cellular response to calcium ion|cellular response to interferon-gamma|cellular response to lipopolysaccharide|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|cervix development|cochlea morphogenesis|convergent extension involved in organogenesis|dopaminergic neuron differentiation|dorsal/ventral axis specification|embryonic digit morphogenesis|embryonic skeletal system development|epithelial cell proliferation involved in mammary gland duct elongation|epithelial to mesenchymal transition|face development|genitalia development|heart looping|hemopoietic stem cell proliferation|keratinocyte differentiation|lateral sprouting involved in mammary gland duct morphogenesis|lens development in camera-type eye|male gonad development|mammary gland branching involved in thelarche|negative regulation of apoptosis|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of mesenchymal cell proliferation|negative regulation of transcription, DNA-dependent|neural tube closure|olfactory bulb interneuron development|optic cup formation involved in camera-type eye development|palate development|positive regulation of angiogenesis|positive regulation of cartilage development|positive regulation of cGMP metabolic process|positive regulation of chemokine biosynthetic process|positive regulation of cytokine secretion involved in immune response|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of macrophage activation|positive regulation of macrophage cytokine production|positive regulation of mesenchymal cell proliferation|positive regulation of neuron projection development|positive regulation of NF-kappaB transcription factor activity|positive regulation of ossification|positive regulation of protein catabolic process|positive regulation of protein kinase C signaling cascade|positive regulation of T cell chemotaxis|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|primitive streak formation|regulation of branching involved in mammary gland duct morphogenesis|somitogenesis|tail morphogenesis|type B pancreatic cell development|urinary bladder development|uterus development|vagina development|Wnt receptor signaling pathway, calcium modulating pathway|wound healing	extracellular space|membrane fraction|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|receptor tyrosine kinase-like orphan receptor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.00377)|Kidney(284;0.00408)|OV - Ovarian serous cystadenocarcinoma(275;0.204)		CTGCCAGTTGGCTGCAGAGAG	0.478													17	106	---	---	---	---	PASS	T	55513523	T	T	55513523	3	4	142	1	0	0	0	0	1	0	0	0	17388	1194	42	3	944	3	WNT5A	3	55513523	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	5361998	55513523	142508907	48	50439										
FLNB	2317	broad.mit.edu	37	chr3	58127599	58127599	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gaccaggccacagatggggaAgtcacagccgtggaggaggc	17	10	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:58127599A>C	uc003djj.2	+	30	5289	c.5124A>C	c.(5122-5124)GAA>GAC	p.E1708D	FLNB_uc010hne.2_Missense_Mutation_p.E1739D|FLNB_uc003djk.2_Missense_Mutation_p.E1708D|FLNB_uc010hnf.2_Intron|FLNB_uc003djl.2_Missense_Mutation_p.E1539D|FLNB_uc003djm.2_Intron	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1708	Hinge 1 (By similarity).				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		CAGATGGGGAAGTCACAGCCG	0.507													24	33	---	---	---	---	PASS	C	58127599	C	C	58127599	3	2	142	1	0	0	0	0	1	0	0	0	5934	69	3	5	5339	5	FLNB	3	58127599	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	2614076	58127599	139894831	49	50440										
PDZRN3	23024	broad.mit.edu	37	chr3	73433190	73433190	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggggctccggctcccgtcgcTggctctccgctctttgcttt	12	16	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:73433190T>C	uc003dpl.1	-	10	2623	c.2527A>G	c.(2527-2529)AGC>GGC	p.S843G	PDZRN3_uc011bgh.1_Missense_Mutation_p.S500G|PDZRN3_uc010hoe.1_Missense_Mutation_p.S541G|PDZRN3_uc011bgf.1_Missense_Mutation_p.S560G|PDZRN3_uc011bgg.1_Missense_Mutation_p.S563G	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	843							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		CTCCCGTCGCTGGCTCTCCGC	0.657													11	20	---	---	---	---	PASS	C	73433190	C	C	73433190	3	2	142	1	0	0	0	0	1	0	0	0	11709	1580	55	5	677	5	PDZRN3	3	73433190	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	15305591	73433190	124589240	50	50441										
NSUN3	63899	broad.mit.edu	37	chr3	93813893	93813893	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctaggtgttagtggatgctcCgtgttcaaatgatcgaagct	12	7	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:93813893C>T	uc003drl.1	+	5	754	c.638C>T	c.(637-639)CCG>CTG	p.P213L		NM_022072	NP_071355	Q9H649	NSUN3_HUMAN	NOL1/NOP2/Sun domain family, member 3	213							methyltransferase activity			skin(1)	1						GTGGATGCTCCGTGTTCAAAT	0.408													12	34	---	---	---	---	PASS	T	93813893	T	T	93813893	3	4	142	1	0	0	0	0	1	0	0	0	10679	652	23	1	656	1	NSUN3	3	93813893	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	20380703	93813893	104208537	51	50442										
OR5H15	403274	broad.mit.edu	37	chr3	97887996	97887996	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttaatcttgtcatatatagcTggtattcttcatgctttaat	5	6	4	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:97887996T>G	uc011bgu.1	+	1	453	c.453T>G	c.(451-453)GCT>GCG	p.A151A		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	151	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CATATATAGCTGGTATTCTTC	0.373													23	22	---	---	---	---	PASS	G	97887996	G	G	97887996	2	3	142	1	0	0	0	0	0	0	0	1	11161	1567	55	5		5	OR5H15	3	97887996	Silent	SNP	T	TCGA-66-2744-01A-01D-0983-08	4074103	97887996	100134434	52	50443										
ALCAM	214	broad.mit.edu	37	chr3	105250889	105250889	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gtaagcaaagcactgtttctCgaaacagagcagctaaaaaa	8	8	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:105250889C>A	uc003dvx.2	+	4	978	c.438C>A	c.(436-438)CTC>CTA	p.L146L	ALCAM_uc003dvw.1_Silent_p.L146L|ALCAM_uc003dvy.2_Silent_p.L146L|ALCAM_uc011bhh.1_Silent_p.L95L|ALCAM_uc010hpp.2_5'Flank	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	146	Extracellular (Potential).|Ig-like V-type 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						CACTGTTTCTCGAAACAGAGC	0.348													6	128	---	---	---	---	PASS	A	105250889	A	A	105250889	2	1	142	1	0	0	0	0	0	0	0	1	487	871	31	2		2	ALCAM	3	105250889	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	7362893	105250889	92771541	53	50444										
LRRC58	116064	broad.mit.edu	37	chr3	120054684	120054684	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctactcactgtgaaagttgaGgaggtatgctttggattttg	12	5	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:120054684G>T	uc003edr.2	-	2	713	c.617C>A	c.(616-618)CCT>CAT	p.P206H		NM_001099678	NP_001093148	Q96CX6	LRC58_HUMAN	leucine rich repeat containing 58	206	LRR 7.										0				GBM - Glioblastoma multiforme(114;0.147)		TGAAAGTTGAGGAGGTATGCT	0.343													6	72	---	---	---	---	PASS	T	120054684	T	T	120054684	3	4	142	1	0	0	0	0	1	0	0	0	9014	1000	35	3	510	3	LRRC58	3	120054684	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	14803795	120054684	77967746	54	50445										
SLC15A2	6565	broad.mit.edu	37	chr3	121649761	121649761	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tctcaatgttggtgaagactAtggtgtgtctgcttatagaa	11	5	2	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:121649761A>G	uc003eep.2	+	18	1781	c.1628A>G	c.(1627-1629)TAT>TGT	p.Y543C	SLC15A2_uc011bjn.1_Missense_Mutation_p.Y512C	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a	543					protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	GGTGAAGACTATGGTGTGTCT	0.368													16	41	---	---	---	---	PASS	G	121649761	G	G	121649761	3	3	142	1	0	0	0	0	1	0	0	0	14399	449	16	5	1698	5	SLC15A2	3	121649761	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	1595077	121649761	76372669	55	50446										
PARP15	165631	broad.mit.edu	37	chr3	122353965	122353965	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aagaataatgagagactcctCttccatgggacagatgcaga	10	8	1	5			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:122353965C>G	uc003efm.2	+	11	1737	c.1671C>G	c.(1669-1671)CTC>CTG	p.L557L	PARP15_uc003efn.2_Silent_p.L362L|PARP15_uc003efo.1_Silent_p.L304L|PARP15_uc003efp.1_Silent_p.L323L|PARP15_uc011bjt.1_Silent_p.L254L	NM_001113523	NP_001106995	Q460N3	PAR15_HUMAN	poly (ADP-ribose) polymerase family, member 15	535	PARP catalytic.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	NAD+ ADP-ribosyltransferase activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)	5				GBM - Glioblastoma multiforme(114;0.0531)		AGAGACTCCTCTTCCATGGGA	0.418													24	37	---	---	---	---	PASS	G	122353965	G	G	122353965	2	3	142	1	0	0	0	0	0	0	0	1	11459	900	32	2		2	PARP15	3	122353965	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	704204	122353965	75668465	56	50447										
C3orf58	205428	broad.mit.edu	37	chr3	143708453	143708453	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aaattctttgtgctcgtgccActgtggaccacaattactat	7	10	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:143708453A>G	uc003evo.2	+	3	1598	c.1063A>G	c.(1063-1065)ACT>GCT	p.T355A	C3orf58_uc011bnl.1_Missense_Mutation_p.T146A	NM_173552	NP_775823	Q8NDZ4	CC058_HUMAN	hypothetical protein LOC205428 isoform a	355						COPI vesicle coat|extracellular region				ovary(1)	1						TGCTCGTGCCACTGTGGACCA	0.433													11	57	---	---	---	---	PASS	G	143708453	G	G	143708453	3	3	142	1	0	0	0	0	1	0	0	0	2236	159	6	5	1107	5	C3orf58	3	143708453	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	21354488	143708453	54313977	57	50448										
SELT	51714	broad.mit.edu	37	chr3	150340184	150340184	+	Frame_Shift_Del	DEL	T	-	-													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttctgcagtgtttcctgaggTtataggcgggtgtttgagga							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:150340184delT	uc011bnx.1	+	3	234	c.150delT	c.(148-150)GGTfs	p.G50fs		NM_016275	NP_057359	P62341	SELT_HUMAN	selenoprotein T precursor	50					cell redox homeostasis|selenocysteine incorporation		selenium binding				0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			TTTCCTGAGGTTATAGGCGGG	0.383													4	2	---	---	---	---		-	150340184	-	-	150340184	7	5	142	1	0	1	0	1	0	0	0	0	14022	1712	60	0	156	0	SELT	3	150340184	Frame_Shift_Del	DEL	T	TCGA-66-2744-01A-01D-0983-08	6631731	150340184	47682246	58	50449										
GPR171	29909	broad.mit.edu	37	chr3	150916412	150916412	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atcctggttgagcaatcagtTatgacttctgtctggctgag	11	8	3	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:150916412T>C	uc003eyq.3	-	3	1002	c.762A>G	c.(760-762)ATA>ATG	p.I254M	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_013308	NP_037440	O14626	GP171_HUMAN	G protein-coupled receptor 171	254	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AGCAATCAGTTATGACTTCTG	0.463													16	51	---	---	---	---	PASS	C	150916412	C	C	150916412	3	2	142	1	0	0	0	0	1	0	0	0	6668	1744	61	5	201	5	GPR171	3	150916412	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	576228	150916412	47106018	59	50450										
SCHIP1	29970	broad.mit.edu	37	chr3	159606697	159606697	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	catgactattgggcagctacAagtgatagtcaatgatctcc	9	9	2	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:159606697A>T	uc003fcs.1	+	6	1349	c.1283A>T	c.(1282-1284)CAA>CTA	p.Q428L	SCHIP1_uc003fcq.1_Missense_Mutation_p.Q504L|SCHIP1_uc003fcr.1_Missense_Mutation_p.Q417L|SCHIP1_uc003fct.1_Missense_Mutation_p.Q415L|SCHIP1_uc010hvz.1_Missense_Mutation_p.Q388L|SCHIP1_uc003fcu.1_Missense_Mutation_p.Q185L|SCHIP1_uc003fcv.1_Missense_Mutation_p.Q201L	NM_014575	NP_055390	Q9P0W5	SCHI1_HUMAN	schwannomin interacting protein 1	428	Potential.					cytoplasm	identical protein binding|protein binding			ovary(1)|central_nervous_system(1)	2			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			GGGCAGCTACAAGTGATAGTC	0.378													6	58	---	---	---	---	PASS	T	159606697	T	T	159606697	3	4	142	1	0	0	0	0	1	0	0	0	13904	130	5	5	1305	5	SCHIP1	3	159606697	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	8690285	159606697	38415733	60	50451										
BDH1	622	broad.mit.edu	37	chr3	197238877	197238877	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cgggtgtagggggtggtggcGgtcagggcgtgtgtgacagc	23	6	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr3:197238877G>A	uc003fxr.2	-	8	1323	c.921C>T	c.(919-921)ACC>ACT	p.T307T	BDH1_uc003fxs.2_Silent_p.T307T|BDH1_uc003fxt.2_Silent_p.T220T|BDH1_uc003fxu.2_Silent_p.T307T	NM_203314	NP_976059	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1	307					cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			ovary(1)	1	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	GGGTGGTGGCGGTCAGGGCGT	0.562													15	69	---	---	---	---	PASS	A	197238877	A	A	197238877	2	1	142	1	0	0	0	0	0	0	0	1	1390	1103	39	1		1	BDH1	3	197238877	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	37632180	197238877	783553	61	50452										
TAPT1	202018	broad.mit.edu	37	chr4	16189952	16189952	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gcatctaatatgtcttgtccAaaagatgaaaacagacgatc	7	8	2	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:16189952A>G	uc010ied.1	-	5	720	c.639T>C	c.(637-639)TTT>TTC	p.F213F	TAPT1_uc011bxd.1_RNA|TAPT1_uc011bxe.1_Silent_p.F102F	NM_153365	NP_699196	Q6NXT6	TAPT1_HUMAN	transmembrane anterior posterior transformation	213						integral to membrane	growth hormone-releasing hormone receptor activity				0						TGTCTTGTCCAAAAGATGAAA	0.323													9	17	---	---	---	---	PASS	G	16189952	G	G	16189952	2	3	142	1	0	0	0	0	0	0	0	1	15551	127	5	5		5	TAPT1	4	16189952	Silent	SNP	A	TCGA-66-2744-01A-01D-0983-08		16189952	174964324	62	50453										
MED28	80306	broad.mit.edu	37	chr4	17623209	17623209	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttttgttcctttttttttaaGgtgttgatcagtgtatccag	8	5	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:17623209G>T	uc003gpi.1	+	3	239	c.227_splice	c.e3-1	p.G76_splice	MED28_uc003gpj.2_Splice_Site	NM_025205	NP_079481	Q9H204	MED28_HUMAN	mediator complex subunit 28						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|membrane|nucleus	actin binding				0						TTTTTTTTAAGGTGTTGATCA	0.313													6	17	---	---	---	---	PASS	T	17623209	T	T	17623209	5	4	142	1	0	0	0	0	0	0	1	0	9446	1014	35	3	236	3	MED28	4	17623209	Splice_Site	SNP	G	TCGA-66-2744-01A-01D-0983-08	1433257	17623209	173531067	63	50454										
TBC1D1	23216	broad.mit.edu	37	chr4	38138765	38138765	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttattctccaggtggcaaatGgtaggatccaaagccttgag	11	8	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:38138765G>T	uc003gtb.2	+	20	3659	c.3316G>T	c.(3316-3318)GGT>TGT	p.G1106C	TBC1D1_uc011byd.1_Missense_Mutation_p.G1097C|TBC1D1_uc010ifd.2_Missense_Mutation_p.G893C|TBC1D1_uc003gtd.2_Missense_Mutation_p.G118C	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	1106						nucleus	Rab GTPase activator activity			ovary(1)	1						GGTGGCAAATGGTAGGATCCA	0.527													6	181	---	---	---	---	PASS	T	38138765	T	T	38138765	3	4	142	1	0	0	0	0	1	0	0	0	15594	1348	47	3	3390	3	TBC1D1	4	38138765	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	20515556	38138765	153015511	64	50455										
PHOX2B	8929	broad.mit.edu	37	chr4	41750460	41750460	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cccggcgtgagggaagggcaGccggacgtggccccaaaagt	17	12	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:41750460G>T	uc003gwf.3	-	1	528	c.168C>A	c.(166-168)GGC>GGA	p.G56G		NM_003924	NP_003915	Q99453	PHX2B_HUMAN	paired-like homeobox 2b	56					positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			autonomic_ganglia(7)|lung(2)|ovary(2)|central_nervous_system(1)	12						GGGAAGGGCAGCCGGACGTGG	0.622			Mis|F		neuroblastoma	neuroblastoma	congenital central hypoventilation syndrome		Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				6	44	---	---	---	---	PASS	T	41750460	T	T	41750460	2	4	142	1	0	0	0	0	0	0	0	1	11859	958	34	3		3	PHOX2B	4	41750460	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	3611695	41750460	149403816	65	50456										
GABRA2	2555	broad.mit.edu	37	chr4	46305516	46305516	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cacagattctctgttaagccAgaatgaaacttgggagagaa	10	7	1	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:46305516A>G	uc003gxc.3	-	7	1490	c.817T>C	c.(817-819)TGG>CGG	p.W273R	GABRA2_uc010igc.2_Missense_Mutation_p.W273R|GABRA2_uc011bzc.1_Missense_Mutation_p.W218R|GABRA2_uc003gxe.2_Missense_Mutation_p.W273R	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	273	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CTGTTAAGCCAGAATGAAACT	0.299													30	47	---	---	---	---	PASS	G	46305516	G	G	46305516	3	3	142	1	0	0	0	0	1	0	0	0	6161	188	7	5	550	5	GABRA2	4	46305516	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	4555056	46305516	144848760	66	50457										
FIP1L1	81608	broad.mit.edu	37	chr4	54319142	54319142	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tggcctagtcttgtggacacCagcaagcagtgggactatta	12	9	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:54319142C>A	uc003gzy.2	+	16	1527	c.1341C>A	c.(1339-1341)ACC>ACA	p.T447T	PDGFRA_uc003haa.2_Intron|FIP1L1_uc011bzu.1_Silent_p.T441T|FIP1L1_uc003gzz.2_Silent_p.T373T|FIP1L1_uc003hab.2_Silent_p.T412T|FIP1L1_uc003hac.2_Silent_p.T201T|FIP1L1_uc010ign.2_RNA|FIP1L1_uc003had.2_Missense_Mutation_p.P32Q|FIP1L1_uc003hae.2_Missense_Mutation_p.P32Q	NM_030917	NP_112179	Q6UN15	FIP1_HUMAN	FIP1 like 1 isoform 1	447	Sufficient for interaction with CPSF1 and CSTF3.				mRNA processing	nucleus	RNA binding			ovary(1)|skin(1)	2			GBM - Glioblastoma multiforme(3;3.31e-36)|LUSC - Lung squamous cell carcinoma(32;0.0134)			TTGTGGACACCAGCAAGCAGT	0.279			T	PDGFRA	idiopathic hypereosinophilic syndrome								5	94	---	---	---	---	PASS	A	54319142	A	A	54319142	2	1	142	1	0	0	0	0	0	0	0	1	5896	581	21	3		3	FIP1L1	4	54319142	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	8013626	54319142	136835134	67	50458										
LPHN3	23284	broad.mit.edu	37	chr4	62453133	62453133	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atatccgatgttatctgccaGatgcctataagattatgtct	7	8	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:62453133G>C	uc010ihh.2	+	2	417	c.244G>C	c.(244-246)GAT>CAT	p.D82H	LPHN3_uc003hcq.3_Missense_Mutation_p.D82H|LPHN3_uc010ihg.1_Missense_Mutation_p.D150H	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	82	SUEL-type lectin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						TTATCTGCCAGATGCCTATAA	0.373													8	11	---	---	---	---	PASS	C	62453133	C	C	62453133	3	2	142	1	0	0	0	0	1	0	0	0	8917	942	33	2	250	2	LPHN3	4	62453133	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	8133991	62453133	128701143	68	50459										
LPHN3	23284	broad.mit.edu	37	chr4	62845347	62845347	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttggaattttgctgtcccttGtttgtctcctgatttgcatc	8	9	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:62845347G>A	uc010ihh.2	+	15	2841	c.2668G>A	c.(2668-2670)GTT>ATT	p.V890I	LPHN3_uc003hcq.3_Missense_Mutation_p.V890I|LPHN3_uc003hct.2_Missense_Mutation_p.V283I	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	877	Helical; Name=1; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GCTGTCCCTTGTTTGTCTCCT	0.478													45	147	---	---	---	---	PASS	A	62845347	A	A	62845347	3	1	142	1	0	0	0	0	1	0	0	0	8917	1377	48	3	2726	3	LPHN3	4	62845347	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	392214	62845347	128308929	69	50460										
PPM1K	152926	broad.mit.edu	37	chr4	89189398	89189398	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	actggtcttaaggtccaaatCtccaatacttcttgtcattg	6	10	4	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:89189398C>A	uc003hrm.3	-	5	1186	c.796G>T	c.(796-798)GAT>TAT	p.D266Y		NM_152542	NP_689755	Q8N3J5	PPM1K_HUMAN	protein phosphatase 1K (PP2C domain containing)	266	PP2C-like.				protein dephosphorylation	mitochondrial matrix|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000192)		AGGTCCAAATCTCCAATACTT	0.428													16	63	---	---	---	---	PASS	A	89189398	A	A	89189398	3	1	142	1	0	0	0	0	1	0	0	0	12343	913	32	2	334	2	PPM1K	4	89189398	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	26344051	89189398	101964878	70	50461										
QRFPR	84109	broad.mit.edu	37	chr4	122254088	122254088	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	actgtacagaataagcatcaCcataagaggcaggaggaaga	11	7	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:122254088C>A	uc010inj.1	-	4	1064	c.685G>T	c.(685-687)GTG>TTG	p.V229L	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Splice_Site_p.M228_splice	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	229	Helical; Name=5; (Potential).			VILFLLPLMVMLILYSKIGYELWIKKRVGDGSVLRTIHGKE MSKIAR -> SSSSSCLLW (in Ref. 1; AAL26488).		plasma membrane	neuropeptide Y receptor activity				0						ATAAGCATCACCATAAGAGGC	0.428													13	38	---	---	---	---	PASS	A	122254088	A	A	122254088	3	1	142	1	0	0	0	0	1	0	0	0	12878	507	18	3	622	3	QRFPR	4	122254088	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	33064690	122254088	68900188	71	50462										
FBXW7	55294	broad.mit.edu	37	chr4	153249410	153249410	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gtggaagtatgcccatataaGgtgtgtatacattctccagt	10	7	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:153249410G>T	uc003ims.2	-	9	1517	c.1368C>A	c.(1366-1368)ACC>ACA	p.T456T	FBXW7_uc011cii.1_Silent_p.T456T|FBXW7_uc003imt.2_Silent_p.T456T|FBXW7_uc011cih.1_Silent_p.T280T|FBXW7_uc003imq.2_Silent_p.T376T|FBXW7_uc003imr.2_Silent_p.T338T	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	456	WD 2.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				GCCCATATAAGGTGTGTATAC	0.408			Mis|N|D|F		colorectal|endometrial|T-ALL								5	73	---	---	---	---	PASS	T	153249410	T	T	153249410	2	4	142	1	0	0	0	0	0	0	0	1	5769	987	35	3		3	FBXW7	4	153249410	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	30995322	153249410	37904866	72	50463										
PDGFC	56034	broad.mit.edu	37	chr4	157693940	157693940	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tctctctggttcaagatatcGaataaggtcttccaaggtac	8	9	4	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:157693940G>C	uc003iph.1	-	4	1092	c.601C>G	c.(601-603)CGA>GGA	p.R201G	PDGFC_uc003ipi.1_Missense_Mutation_p.R38G|PDGFC_uc011cis.1_Missense_Mutation_p.R38G|PDGFC_uc011cir.1_Missense_Mutation_p.R45G	NM_016205	NP_057289	Q9NRA1	PDGFC_HUMAN	platelet-derived growth factor C precursor	201					central nervous system development|platelet-derived growth factor receptor signaling pathway|positive regulation of cell division|positive regulation of DNA replication|positive regulation of fibroblast proliferation|vascular endothelial growth factor receptor signaling pathway	endoplasmic reticulum lumen|extracellular space|Golgi membrane|nucleus	cell surface binding|growth factor activity|platelet-derived growth factor receptor binding|protein homodimerization activity			ovary(1)|lung(1)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.08)|Kidney(143;0.0977)|COAD - Colon adenocarcinoma(41;0.212)		TCAAGATATCGAATAAGGTCT	0.438													4	17	---	---	---	---	PASS	C	157693940	C	C	157693940	3	2	142	1	0	0	0	0	1	0	0	0	11659	1066	37	2	448	2	PDGFC	4	157693940	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	4444530	157693940	33460336	73	50464										
FAM198B	51313	broad.mit.edu	37	chr4	159092200	159092200	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gctgcgcttggagcgtagggTaatgtacaccacattgggct	14	9	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:159092200T>C	uc003ipp.3	-	2	780	c.328A>G	c.(328-330)ACC>GCC	p.T110A	uc003ipu.1_5'Flank|FAM198B_uc003ipq.3_Missense_Mutation_p.T110A|FAM198B_uc003ipr.3_Missense_Mutation_p.T110A|FAM198B_uc003ips.2_Missense_Mutation_p.T110A|uc003ipt.1_RNA	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	110	Extracellular (Potential).					Golgi membrane|integral to membrane					0						GAGCGTAGGGTAATGTACACC	0.622													5	51	---	---	---	---	PASS	C	159092200	C	C	159092200	3	2	142	1	0	0	0	0	1	0	0	0	5529	1638	57	5	1352	5	FAM198B	4	159092200	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	1398260	159092200	32062076	74	50465										
ADAM29	11086	broad.mit.edu	37	chr4	175897024	175897024	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ccagaatccctggtttccctCagtacctgttttgggggttt	10	11	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:175897024C>A	uc003iuc.2	+	5	1018	c.348C>A	c.(346-348)CTC>CTA	p.L116L	ADAM29_uc003iud.2_Silent_p.L116L|ADAM29_uc010irr.2_Silent_p.L116L|ADAM29_uc011cki.1_Silent_p.L116L	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	116					proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		TGGTTTCCCTCAGTACCTGTT	0.438													6	31	---	---	---	---	PASS	A	175897024	A	A	175897024	2	1	142	1	0	0	0	0	0	0	0	1	247	813	29	2		2	ADAM29	4	175897024	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	16804824	175897024	15257252	75	50466										
ODZ3	55714	broad.mit.edu	37	chr4	183676047	183676047	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cctttacttaactctatgaaCttctatgaagttgcgtctcc	5	11	3	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr4:183676047C>T	uc003ivd.1	+	21	4564	c.4527C>T	c.(4525-4527)AAC>AAT	p.N1509N	ODZ3_uc003ive.1_Silent_p.N922N	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1509	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		ACTCTATGAACTTCTATGAAG	0.413													11	49	---	---	---	---	PASS	T	183676047	T	T	183676047	2	4	142	1	0	0	0	0	0	0	0	1	10836	564	20	3		3	ODZ3	4	183676047	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	7779023	183676047	7478229	76	50467										
MRPL36	64979	broad.mit.edu	37	chr5	1799040	1799040	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	caccattttccttataaaaaGatttgccatgttgtggtgaa	7	7	0	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:1799040G>A	uc003jcx.3	-	2	73	c.10C>T	c.(10-12)CTT>TTT	p.L4F	NDUFS6_uc003jcy.2_5'Flank	NM_032479	NP_115868	Q9P0J6	RM36_HUMAN	mitochondrial ribosomal protein L36 precursor	4					translation	mitochondrial large ribosomal subunit	structural constituent of ribosome				0				GBM - Glioblastoma multiforme(108;0.241)		CTTATAAAAAGATTTGCCATG	0.448													5	91	---	---	---	---	PASS	A	1799040	A	A	1799040	3	1	142	1	0	0	0	0	1	0	0	0	9799	942	33	2	305	2	MRPL36	5	1799040	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08		1799040	179116220	77	50468										
ADCY2	108	broad.mit.edu	37	chr5	7789771	7789771	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acagaatgaatattactgtaGgttagacttcttatggaaga	9	4	1	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:7789771G>T	uc003jdz.1	+	20	2553	c.2486G>T	c.(2485-2487)AGG>ATG	p.R829M	ADCY2_uc011cmo.1_Missense_Mutation_p.R649M|ADCY2_uc010itm.1_Missense_Mutation_p.R25M	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	829	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						TATTACTGTAGGTTAGACTTC	0.438													6	137	---	---	---	---	PASS	T	7789771	T	T	7789771	3	4	142	1	0	0	0	0	1	0	0	0	294	1000	35	3	2564	3	ADCY2	5	7789771	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	5990731	7789771	173125489	78	50469										
CDH10	1008	broad.mit.edu	37	chr5	24593512	24593512	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aattctttgctgtggcacagGcgtccttctgaacattattt	8	9	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:24593512G>T	uc003jgr.1	-	2	420	c.88C>A	c.(88-90)CCT>ACT	p.P30T	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	30					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TGTGGCACAGGCGTCCTTCTG	0.398										HNSCC(23;0.051)			26	41	---	---	---	---	PASS	T	24593512	T	T	24593512	3	4	142	1	0	0	0	0	1	0	0	0	3096	1203	42	3	2322	3	CDH10	5	24593512	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	16803741	24593512	156321748	79	50470										
CDH9	1007	broad.mit.edu	37	chr5	26915806	26915806	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	attttggctcattgtcattgAtatcatgtattttaatgata	6	4	3	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:26915806A>C	uc003jgs.1	-	3	624	c.455T>G	c.(454-456)ATC>AGC	p.I152S	CDH9_uc010iug.2_Missense_Mutation_p.I152S	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	152	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						ATTGTCATTGATATCATGTAT	0.378													16	50	---	---	---	---	PASS	C	26915806	C	C	26915806	3	2	142	1	0	0	0	0	1	0	0	0	3117	333	12	5	1954	5	CDH9	5	26915806	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	2322294	26915806	153999454	80	50471										
LMBRD2	92255	broad.mit.edu	37	chr5	36137453	36137453	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agcaaataggtgccatagtaGattgcattctcaattagtgc	9	7	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:36137453G>C	uc003jkb.1	-	5	874	c.459C>G	c.(457-459)ATC>ATG	p.I153M		NM_001007527	NP_001007528	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	153	Helical; (Potential).					integral to membrane					0	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGCCATAGTAGATTGCATTCT	0.348													3	29	---	---	---	---	PASS	C	36137453	C	C	36137453	3	2	142	1	0	0	0	0	1	0	0	0	8843	932	33	2	1684	2	LMBRD2	5	36137453	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	9221647	36137453	144777807	81	50472										
C5orf42	65250	broad.mit.edu	37	chr5	37120354	37120354	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gccttgaggttgcccaaaagActtcctcttatggatataac	8	10	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:37120354A>C	uc011cpa.1	-	49	9343	c.9112T>G	c.(9112-9114)TCT>GCT	p.S3038A	C5orf42_uc003jko.1_Missense_Mutation_p.S69A|C5orf42_uc003jkp.1_RNA|C5orf42_uc011coy.1_Missense_Mutation_p.S1556A|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.S2131A	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	3038										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			TGCCCAAAAGACTTCCTCTTA	0.368													10	46	---	---	---	---	PASS	C	37120354	C	C	37120354	3	2	142	1	0	0	0	0	1	0	0	0	2301	275	10	5	497	5	C5orf42	5	37120354	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	982901	37120354	143794906	82	50473										
C6	729	broad.mit.edu	37	chr5	41142975	41142975	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atttccatcttcctgtttgcAcatcttatagttcccacttc	3	13	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:41142975A>T	uc003jmk.2	-	18	2967	c.2757T>A	c.(2755-2757)TGT>TGA	p.C919*	C6_uc003jml.1_Nonsense_Mutation_p.C919*	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	919	Complement control factor I module 2.|C5b-binding domain.|Kazal-like 2.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TCCTGTTTGCACATCTTATAG	0.433													20	116	---	---	---	---	PASS	T	41142975	T	T	41142975	4	4	142	1	0	0	0	0	0	1	0	0	2315	157	6	5	51	5	C6	5	41142975	Nonsense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	4022621	41142975	139772285	83	50474										
CDC20B	166979	broad.mit.edu	37	chr5	54442562	54442562	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aaggaatcagaggacagagcCctagtttgactttgctgcca	11	9	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:54442562C>A	uc003jpo.1	-	3	424	c.249G>T	c.(247-249)AGG>AGT	p.R83S	CDC20B_uc003jpn.1_Missense_Mutation_p.R83S|CDC20B_uc010ivu.1_Missense_Mutation_p.R83S|CDC20B_uc010ivv.1_Missense_Mutation_p.R83S|CDC20B_uc003jpp.2_RNA	NM_152623	NP_689836	Q86Y33	CD20B_HUMAN	CDC20 cell division cycle 20 homolog B isoform	83											0		Lung NSC(810;0.000744)|Breast(144;0.159)|Prostate(74;0.194)	LUSC - Lung squamous cell carcinoma(15;0.225)			AGGACAGAGCCCTAGTTTGAC	0.522											OREG0016610	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	54	---	---	---	---	PASS	A	54442562	A	A	54442562	3	1	142	1	0	0	0	0	1	0	0	0	3060	622	22	3	1350	3	CDC20B	5	54442562	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	13299587	54442562	126472698	84	50475										
DEPDC1B	55789	broad.mit.edu	37	chr5	59982955	59982955	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cagctcatgcagccaatccaCagcttcggccgctgtgaaac	9	15	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:59982955C>A	uc003jsh.2	-	2	221	c.148G>T	c.(148-150)GTG>TTG	p.V50L	DEPDC1B_uc011cqm.1_Missense_Mutation_p.V50L|DEPDC1B_uc011cqn.1_Missense_Mutation_p.V23L	NM_018369	NP_060839	Q8WUY9	DEP1B_HUMAN	DEP domain containing 1B isoform 1	50	DEP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)	1		Lung NSC(810;0.000214)|Prostate(74;0.0147)|Breast(144;0.0991)|Ovarian(174;0.17)				AGCCAATCCACAGCTTCGGCC	0.498													18	17	---	---	---	---	PASS	A	59982955	A	A	59982955	3	1	142	1	0	0	0	0	1	0	0	0	4440	478	17	3	1481	3	DEPDC1B	5	59982955	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	5540393	59982955	120932305	85	50476										
KIF2A	3796	broad.mit.edu	37	chr5	61643888	61643888	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgaacagattgacctggagaGcatcttttcacttaaccctg	8	10	2	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:61643888G>A	uc003jsy.3	+	3	484	c.173G>A	c.(172-174)AGC>AAC	p.S58N	KIF2A_uc003jsz.3_Missense_Mutation_p.S58N|KIF2A_uc010iwp.2_Missense_Mutation_p.S58N|KIF2A_uc003jsx.3_Missense_Mutation_p.S38N|KIF2A_uc010iwq.2_5'UTR	NM_004520	NP_004511	O00139	KIF2A_HUMAN	kinesin heavy chain member 2 isoform 1	58	Globular (Potential).				blood coagulation|cell differentiation|cell division|microtubule-based movement|mitotic prometaphase|mitotic spindle organization|nervous system development	centrosome|cytosol|microtubule|spindle pole	ATP binding|microtubule motor activity|protein binding				0		Lung NSC(810;8.94e-06)|Prostate(74;0.0132)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.14)		GACCTGGAGAGCATCTTTTCA	0.363													45	82	---	---	---	---	PASS	A	61643888	A	A	61643888	3	1	142	1	0	0	0	0	1	0	0	0	8297	971	34	3	183	3	KIF2A	5	61643888	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	1660933	61643888	119271372	86	50477										
BDP1	55814	broad.mit.edu	37	chr5	70798568	70798568	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttctcatatcacaggaagaaAttggggccaatgtagagaag	11	6	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:70798568A>G	uc003kbp.1	+	15	2454	c.2191A>G	c.(2191-2193)ATT>GTT	p.I731V	BDP1_uc003kbn.1_Missense_Mutation_p.I731V|BDP1_uc003kbo.2_Missense_Mutation_p.I731V	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	731					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		ACAGGAAGAAATTGGGGCCAA	0.418													19	31	---	---	---	---	PASS	G	70798568	G	G	70798568	3	3	142	1	0	0	0	0	1	0	0	0	1395	101	4	5	2249	5	BDP1	5	70798568	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	9154680	70798568	110116692	87	50478										
AGGF1	55109	broad.mit.edu	37	chr5	76331382	76331382	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acagattatttttatcagacGtactacaatgacgttagtct	6	7	2	3	rs146897885	by1000genomes	TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:76331382G>T	uc003ket.2	+	3	690	c.330G>T	c.(328-330)ACG>ACT	p.T110T	AGGF1_uc003kes.2_Silent_p.T110T|AGGF1_uc003keu.1_RNA	NM_018046	NP_060516	Q8N302	AGGF1_HUMAN	angiogenic factor VG5Q	110					angiogenesis|cell adhesion|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|RNA processing|vasculogenesis	extracellular region|perinuclear region of cytoplasm	eukaryotic cell surface binding|nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;4.51e-51)|Epithelial(54;2.2e-45)|all cancers(79;6.68e-41)		TTTATCAGACGTACTACAATG	0.294													3	15	---	---	---	---	PASS	T	76331382	T	T	76331382	2	4	142	1	0	0	0	0	0	0	0	1	382	1132	40	1		1	AGGF1	5	76331382	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	5532814	76331382	104583878	88	50479										
ARSB	411	broad.mit.edu	37	chr5	78181566	78181566	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggcttgccacaaagcccaccCctcggacgcctccttcccac	7	21	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:78181566C>A	uc003kfq.2	-	5	2269	c.983G>T	c.(982-984)GGG>GTG	p.G328V	ARSB_uc003kfr.3_Missense_Mutation_p.G328V	NM_000046	NP_000037	P15848	ARSB_HUMAN	arylsulfatase B isoform 1 precursor	328					lysosomal transport|lysosome organization	lysosome	arylsulfatase activity|metal ion binding|N-acetylgalactosamine-4-sulfatase activity			upper_aerodigestive_tract(1)	1		all_lung(232;0.000637)|Lung NSC(167;0.00173)|Ovarian(174;0.0105)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;4.24e-44)|Epithelial(54;3.12e-39)|all cancers(79;3.02e-34)		AAAGCCCACCCCTCGGACGCC	0.577													35	63	---	---	---	---	PASS	A	78181566	A	A	78181566	3	1	142	1	0	0	0	0	1	0	0	0	988	623	22	3	667	3	ARSB	5	78181566	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	1850184	78181566	102733694	89	50480										
RASA1	5921	broad.mit.edu	37	chr5	86679568	86679570	+	In_Frame_Del	DEL	TGA	-	-													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	actcatctgtcctgccatccTgaatccacggatgttcaata							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:86679568_86679570delTGA	uc003kiw.2	+	21	2847_2849	c.2729_2731delTGA	c.(2728-2733)CTGAAT>CAT	p.910_911LN>H	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_In_Frame_Del_p.733_734LN>H|RASA1_uc011ctv.1_In_Frame_Del_p.743_744LN>H|RASA1_uc011ctw.1_In_Frame_Del_p.744_745LN>H|RASA1_uc010jaw.2_In_Frame_Del_p.732_733LN>H	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	910_911	Ras-GAP.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		CCTGCCATCCTGAATCCACGGAT	0.296													16	9	---	---	---	---		-	86679570	-	-	86679568	7	5	142	1	0	1	0	1	0	0	0	0	13060	1580	55	0	2823	0	RASA1	5	86679568	In_Frame_Del	DEL	TGA	TCGA-66-2744-01A-01D-0983-08	8498002	86679568	94235692	90	50481										
STARD4	134429	broad.mit.edu	37	chr5	110843086	110843086	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atggtactggatgagagtgtTtttaagtttagttgcaaaag	12	2	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:110843086T>C	uc003kph.1	-	2	130	c.46A>G	c.(46-48)AAC>GAC	p.N16D	STARD4_uc010jbw.1_5'UTR|STARD4_uc010jbx.1_Intron|STARD4_uc003kpi.1_RNA|STARD4_uc003kpj.2_Missense_Mutation_p.N16D	NM_139164	NP_631903	Q96DR4	STAR4_HUMAN	StAR-related lipid transfer (START) domain	16	START.				lipid transport		lipid binding			ovary(1)	1		all_cancers(142;0.00259)|all_epithelial(76;8.32e-05)|Prostate(80;0.0115)|Colorectal(10;0.0959)|Ovarian(225;0.156)|all_lung(232;0.18)|Lung NSC(167;0.248)		OV - Ovarian serous cystadenocarcinoma(64;4.91e-09)|Epithelial(69;1.39e-08)|all cancers(49;2.34e-06)|COAD - Colon adenocarcinoma(37;0.049)|Colorectal(14;0.138)		ATGAGAGTGTTTTTAAGTTTA	0.368													15	22	---	---	---	---	PASS	C	110843086	C	C	110843086	3	2	142	1	0	0	0	0	1	0	0	0	15258	1841	64	5	591	5	STARD4	5	110843086	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	24163518	110843086	70072174	91	50482										
PCDHGA11	56105	broad.mit.edu	37	chr5	140802848	140802848	+	Missense_Mutation	SNP	C	G	G													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cctcgagtctctggctaactCtgaaacctcagacctctcgc							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:140802848C>G	uc003lkq.1	+	1	2312	c.2054C>G	c.(2053-2055)TCT>TGT	p.S685C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.S685C|PCDHGA11_uc003lkp.1_Intron	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	685	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGCTAACTCTGAAACCTCA	0.637													19	39	---	---	---	---	PASS	G	140802848	G	G	140802848	3	3	142	1	0	0	0	0	1	0	0	0	11552	913	32	2	2056	2	PCDHGA11	5	140802848	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	29959762	140802848	40112412	92	50483	925	2								
PCDHGA11	56105	broad.mit.edu	37	chr5	140802857	140802857	+	Nonsense_Mutation	SNP	C	G	G													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tctggctaactctgaaacctCagacctctcgctgtacttgg							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:140802857C>G	uc003lkq.1	+	1	2321	c.2063C>G	c.(2062-2064)TCA>TGA	p.S688*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Nonsense_Mutation_p.S688*|PCDHGA11_uc003lkp.1_Intron|PCDHGB8P_uc011daz.1_5'Flank	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	688	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTGAAACCTCAGACCTCTCG	0.632													19	43	---	---	---	---	PASS	G	140802857	G	G	140802857	4	3	142	1	0	0	0	0	0	1	0	0	11552	838	29	2	2065	2	PCDHGA11	5	140802857	Nonsense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	9	140802857	40112403	93	50484	925	2								
GABRG2	2566	broad.mit.edu	37	chr5	161580278	161580278	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agacatgggaggatacatatCcgcattgccaaaatggactc	10	9	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:161580278C>G	uc003lyz.3	+	9	1666	c.1308C>G	c.(1306-1308)ATC>ATG	p.I436M	GABRG2_uc010jjc.2_Missense_Mutation_p.I484M|GABRG2_uc003lyy.3_Missense_Mutation_p.I444M|GABRG2_uc011dej.1_Missense_Mutation_p.I341M	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	436	Cytoplasmic (Probable).|Interaction with GABARAP (Potential).				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)		GGATACATATCCGCATTGCCA	0.493													36	48	---	---	---	---	PASS	G	161580278	G	G	161580278	3	3	142	1	0	0	0	0	1	0	0	0	6172	845	30	2	1494	2	GABRG2	5	161580278	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	20777421	161580278	19334982	94	50485										
RANBP17	64901	broad.mit.edu	37	chr5	170380642	170380642	+	Nonsense_Mutation	SNP	G	T	T													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acttagttgggacagttgtaGgaggaagattaacatatacc							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:170380642G>T	uc003mba.2	+	13	1526	c.1510G>T	c.(1510-1512)GGA>TGA	p.G504*	RANBP17_uc003max.1_RNA|RANBP17_uc003may.1_RNA|RANBP17_uc003maz.1_RNA|RANBP17_uc010jjr.1_RNA	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	504					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)			GACAGTTGTAGGAGGAAGATT	0.353			T	TRD@	ALL								11	20	---	---	---	---	PASS	T	170380642	T	T	170380642	4	4	142	1	0	0	0	0	0	1	0	0	13027	1001	35	3	1560	3	RANBP17	5	170380642	Nonsense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	8800364	170380642	10534618	95	50486	926	2								
RANBP17	64901	broad.mit.edu	37	chr5	170380643	170380643	+	Missense_Mutation	SNP	G	T	T													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cttagttgggacagttgtagGaggaagattaacatatacca							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:170380643G>T	uc003mba.2	+	13	1527	c.1511G>T	c.(1510-1512)GGA>GTA	p.G504V	RANBP17_uc003max.1_RNA|RANBP17_uc003may.1_RNA|RANBP17_uc003maz.1_RNA|RANBP17_uc010jjr.1_RNA	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	504					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)			ACAGTTGTAGGAGGAAGATTA	0.353			T	TRD@	ALL								11	20	---	---	---	---	PASS	T	170380643	T	T	170380643	3	4	142	1	0	0	0	0	1	0	0	0	13027	1174	41	2	1561	2	RANBP17	5	170380643	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	1	170380643	10534617	96	50487	926	2								
F12	2161	broad.mit.edu	37	chr5	176833016	176833016	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	catttgtggtacagctgccgGtggtactggaaggggaagtg	17	6	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr5:176833016G>A	uc003mgo.3	-	3	211	c.162C>T	c.(160-162)CAC>CAT	p.H54H	F12_uc011dfy.1_5'Flank|F12_uc003mgn.3_5'Flank|F12_uc010jkl.2_RNA	NM_000505	NP_000496	P00748	FA12_HUMAN	coagulation factor XII precursor	54	Fibronectin type-II.				Factor XII activation|fibrinolysis|innate immune response|positive regulation of blood coagulation|positive regulation of fibrinolysis|positive regulation of plasminogen activation|protein autoprocessing|response to misfolded protein|zymogen activation	extracellular space|plasma membrane	serine-type endopeptidase activity				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACAGCTGCCGGTGGTACTGGA	0.602									Hereditary_Angioedema				17	42	---	---	---	---	PASS	A	176833016	A	A	176833016	2	1	142	1	0	0	0	0	0	0	0	1	5339	1252	44	3		3	F12	5	176833016	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	6452373	176833016	4082244	97	50488										
TMEM170B	100113407	broad.mit.edu	37	chr6	11566033	11566033	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctgtcattgcagtcagcattGgatttctggcttctgtaact	9	9	4	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:11566033G>C	uc010jpa.2	+	2	232	c.232G>C	c.(232-234)GGA>CGA	p.G78R		NM_001100829	NP_001094299	Q5T4T1	T170B_HUMAN	transmembrane protein 170B	78	Helical; (Potential).					integral to membrane					0						AGTCAGCATTGGATTTCTGGC	0.438													19	87	---	---	---	---	PASS	C	11566033	C	C	11566033	3	2	142	1	0	0	0	0	1	0	0	0	16084	1349	47	4	238	4	TMEM170B	6	11566033	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08		11566033	159549034	98	50489										
HIST1H2AA	221613	broad.mit.edu	37	chr6	25726578	25726578	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cagctcaaggatttctgctgTgagatactctaacactgccg	9	11	3	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:25726578T>C	uc003nfc.2	-	1	213	c.178A>G	c.(178-180)ACA>GCA	p.T60A	HIST1H2BA_uc003nfd.2_5'Flank	NM_170745	NP_734466	Q96QV6	H2A1A_HUMAN	histone cluster 1, H2aa	60					nucleosome assembly	nucleosome|nucleus	DNA binding				0						ATTTCTGCTGTGAGATACTCT	0.537													28	24	---	---	---	---	PASS	C	25726578	C	C	25726578	3	2	142	1	0	0	0	0	1	0	0	0	7128	1696	59	5	221	5	HIST1H2AA	6	25726578	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	14160545	25726578	145388489	99	50490										
OR2J3	442186	broad.mit.edu	37	chr6	29080440	29080440	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atctctctttttcattccggCcatgtgcatgtatctccagc	6	13	4	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:29080440C>A	uc011dll.1	+	1	773	c.773C>A	c.(772-774)GCC>GAC	p.A258D		NM_001005216	NP_001005216	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J,	258	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTCATTCCGGCCATGTGCATG	0.453													26	42	---	---	---	---	PASS	A	29080440	A	A	29080440	3	1	142	1	0	0	0	0	1	0	0	0	11004	739	26	3	775	3	OR2J3	6	29080440	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	3353862	29080440	142034627	100	50491										
TRIM39	56658	broad.mit.edu	37	chr6	30310025	30310025	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttaccatcaggcccccaacaGattgggagtgacaggttggg	13	10	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:30310025G>C	uc010jrz.2	+	9	1858	c.1546G>C	c.(1546-1548)GAT>CAT	p.D516H	TRIM39_uc003npz.2_Missense_Mutation_p.D486H|TRIM39_uc003nqb.2_Missense_Mutation_p.D486H|TRIM39_uc003nqc.2_Missense_Mutation_p.D486H|TRIM39_uc010jsa.1_Intron|RPP21_uc003nqd.1_5'Flank|RPP21_uc003nqe.1_5'Flank|RPP21_uc003nqf.1_5'Flank	NM_021253	NP_067076	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 1	516					apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						GCCCCCAACAGATTGGGAGTG	0.562													15	23	---	---	---	---	PASS	C	30310025	C	C	30310025	3	2	142	1	0	0	0	0	1	0	0	0	16510	942	33	2	1572	2	TRIM39	6	30310025	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	1229585	30310025	140805042	101	50492										
PSORS1C1	170679	broad.mit.edu	37	chr6	31107683	31107683	+	Frame_Shift_Del	DEL	C	-	-													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cgtctcctccctcccattctCcttttggtctcagctccttg							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:31107683delC	uc003nsl.1	+	6	707	c.433delC	c.(433-435)CCTfs	p.P145fs	PSORS1C1_uc010jsj.1_Frame_Shift_Del_p.P94fs|PSORS1C1_uc003nsn.1_RNA|PSORS1C2_uc003nso.3_5'Flank	NM_014068	NP_054787	Q9UIG5	PS1C1_HUMAN	SEEK1 protein	145										ovary(1)	1						CTCCCATTCTCCTTTTGGTCT	0.448													68	38	---	---	---	---		-	31107683	-	-	31107683	7	5	142	1	0	1	0	1	0	0	0	0	12714	855	30	0	447	0	PSORS1C1	6	31107683	Frame_Shift_Del	DEL	C	TCGA-66-2744-01A-01D-0983-08	797658	31107683	140007384	102	50493										
ITPR3	3710	broad.mit.edu	37	chr6	33634988	33634988	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggaggagctgtcagaccagaAgaacgccccctaccagcaca	11	14	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:33634988A>G	uc011drk.1	+	15	1853	c.1634A>G	c.(1633-1635)AAG>AGG	p.K545R		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	545	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						TCAGACCAGAAGAACGCCCCC	0.637													9	22	---	---	---	---	PASS	G	33634988	G	G	33634988	3	3	142	1	0	0	0	0	1	0	0	0	7922	72	3	5	1692	5	ITPR3	6	33634988	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	2527305	33634988	137480079	103	50494										
DNAH8	1769	broad.mit.edu	37	chr6	38851775	38851775	+	Splice_Site	SNP	G	T	T													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttaatgagtggggagatcagGtatggctgaaatatctcata							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:38851775G>T	uc003ooe.1	+	54	8208	c.7608_splice	c.e54+1	p.Q2536_splice		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GGGAGATCAGGTATGGCTGAA	0.294													9	28	---	---	---	---	PASS	T	38851775	T	T	38851775	5	4	142	1	0	0	0	0	0	0	1	0	4607	1275	44	3	7815	3	DNAH8	6	38851775	Splice_Site	SNP	G	TCGA-66-2744-01A-01D-0983-08	5216787	38851775	132263292	104	50495	927	2								
DNAH8	1769	broad.mit.edu	37	chr6	38851776	38851776	+	Splice_Site	SNP	T	A	A													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	taatgagtggggagatcaggTatggctgaaatatctcatat							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:38851776T>A	uc003ooe.1	+	54	8208	c.7608_splice	c.e54+2	p.Q2536_splice		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GGAGATCAGGTATGGCTGAAA	0.294													9	27	---	---	---	---	PASS	A	38851776	A	A	38851776	5	1	142	1	0	0	0	0	0	0	1	0	4607	1652	57	5	7816	5	DNAH8	6	38851776	Splice_Site	SNP	T	TCGA-66-2744-01A-01D-0983-08	1	38851776	132263291	105	50496	927	2								
SRF	6722	broad.mit.edu	37	chr6	43146615	43146615	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctgtttcagcagttcagctcCaccaggtaggtagggatatc	11	10	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:43146615C>A	uc003oui.2	+	6	1901	c.1426C>A	c.(1426-1428)CAC>AAC	p.H476N	SRF_uc011dvf.1_Missense_Mutation_p.H272N	NM_003131	NP_003122	P11831	SRF_HUMAN	serum response factor (c-fos serum response	476					angiogenesis involved in wound healing|cell migration involved in sprouting angiogenesis|cellular senescence|heart looping|muscle cell homeostasis|neuron development|positive regulation of cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of smooth muscle cell differentiation|response to cytokine stimulus|response to hormone stimulus|response to toxin|transcription from RNA polymerase II promoter|trophectodermal cell differentiation	endoplasmic reticulum	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			ovary(1)|breast(1)|central_nervous_system(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.011)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			AGTTCAGCTCCACCAGGTAGG	0.502													6	191	---	---	---	---	PASS	A	43146615	A	A	43146615	3	1	142	1	0	0	0	0	1	0	0	0	15142	594	21	3	1448	3	SRF	6	43146615	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	4294839	43146615	127968452	106	50497										
FAM83B	222584	broad.mit.edu	37	chr6	54805755	54805755	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	actgagaatctacttaaaagGcgaagtttcccgttatttga	8	7	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:54805755G>T	uc003pck.2	+	5	2102	c.1986G>T	c.(1984-1986)AGG>AGT	p.R662S		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	662										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					TACTTAAAAGGCGAAGTTTCC	0.338													8	62	---	---	---	---	PASS	T	54805755	T	T	54805755	3	4	142	1	0	0	0	0	1	0	0	0	5634	1194	42	3	2000	3	FAM83B	6	54805755	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	11659140	54805755	116309312	107	50498										
PHF3	23469	broad.mit.edu	37	chr6	64389923	64389923	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gttggtcttgacgatattatGgatgaaggagttgttaaaga	13	2	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:64389923G>T	uc003pep.1	+	2	293	c.267G>T	c.(265-267)ATG>ATT	p.M89I	PHF3_uc010kaf.1_Missense_Mutation_p.M89I|PHF3_uc003pem.2_Missense_Mutation_p.M42I|PHF3_uc010kag.1_Missense_Mutation_p.M1I|PHF3_uc010kah.1_Intron|PHF3_uc003pen.2_Missense_Mutation_p.M1I|PHF3_uc011dxs.1_5'UTR|PHF3_uc003peo.2_Missense_Mutation_p.M89I	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	89					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			ACGATATTATGGATGAAGGAG	0.318													5	61	---	---	---	---	PASS	T	64389923	T	T	64389923	3	4	142	1	0	0	0	0	1	0	0	0	11836	1348	47	3	273	3	PHF3	6	64389923	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	9584168	64389923	106725144	108	50499										
BAI3	577	broad.mit.edu	37	chr6	69945025	69945025	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gttgtctatgcagcattatgGaggtaagtaatcaattgata	10	4	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:69945025G>C	uc003pev.3	+	19	3157	c.2709G>C	c.(2707-2709)TGG>TGC	p.W903C	BAI3_uc010kak.2_Missense_Mutation_p.W903C|BAI3_uc011dxx.1_Missense_Mutation_p.W109C|BAI3_uc003pex.1_Missense_Mutation_p.W33C	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	903	Cytoplasmic (Potential).				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)				CAGCATTATGGAGGTAAGTAA	0.378													5	20	---	---	---	---	PASS	C	69945025	C	C	69945025	3	2	142	1	0	0	0	0	1	0	0	0	1300	1183	41	2	2775	2	BAI3	6	69945025	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	5555102	69945025	101170042	109	50500										
SENP6	26054	broad.mit.edu	37	chr6	76333641	76333641	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	caaatctgctcagtgtggatGaagatgaggattctgaaacc	11	7	3	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:76333641G>A	uc003pid.3	+	3	791	c.172G>A	c.(172-174)GAA>AAA	p.E58K	SENP6_uc003pie.3_Missense_Mutation_p.E58K|SENP6_uc003pic.2_Missense_Mutation_p.E58K	NM_015571	NP_056386	Q9GZR1	SENP6_HUMAN	SUMO1/sentrin specific peptidase 6 isoform 1	58					proteolysis	cytoplasm|nucleus	cysteine-type peptidase activity			breast(2)|urinary_tract(1)|ovary(1)|lung(1)|skin(1)	6		all_hematologic(105;0.189)				CAGTGTGGATGAAGATGAGGA	0.313													4	29	---	---	---	---	PASS	A	76333641	A	A	76333641	3	1	142	1	0	0	0	0	1	0	0	0	14050	1291	45	2	182	2	SENP6	6	76333641	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	6388616	76333641	94781426	110	50501										
PHIP	55023	broad.mit.edu	37	chr6	79688325	79688325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gtacctcatcacccatctgtGgcacaaatggacatcttcgg	8	13	4	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:79688325G>T	uc003pir.2	-	24	3099	c.2873C>A	c.(2872-2874)CCA>CAA	p.P958Q	PHIP_uc003piq.2_5'UTR|PHIP_uc011dyp.1_Missense_Mutation_p.P957Q	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	958	Mediates interaction with IRS1 (By similarity).				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)		ACCCATCTGTGGCACAAATGG	0.358													4	28	---	---	---	---	PASS	T	79688325	T	T	79688325	3	4	142	1	0	0	0	0	1	0	0	0	11842	1348	47	3	2660	3	PHIP	6	79688325	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	3354684	79688325	91426742	111	50502										
MDN1	23195	broad.mit.edu	37	chr6	90442427	90442427	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tctctgatactgaccacacaCtttctgccaaactcttggtg	6	13	3	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:90442427C>G	uc003pnn.1	-	34	4907	c.4791G>C	c.(4789-4791)AAG>AAC	p.K1597N		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1597					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)		TGACCACACACTTTCTGCCAA	0.443													15	56	---	---	---	---	PASS	G	90442427	G	G	90442427	3	3	142	1	0	0	0	0	1	0	0	0	9415	564	20	4	12275	4	MDN1	6	90442427	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	10754102	90442427	80672640	112	50503										
TRAF3IP2	10758	broad.mit.edu	37	chr6	111887689	111887689	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgtaagccatgctcatcctcGtccagctgcgactcagcgcc	9	16	2	0	rs144166946	by1000genomes	TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:111887689G>A	uc011ebc.1	-	8	2049	c.1434C>T	c.(1432-1434)GAC>GAT	p.D478D	TRAF3IP2_uc011ebb.1_Silent_p.D22D|TRAF3IP2_uc003pvd.2_Silent_p.D70D|TRAF3IP2_uc003pvg.2_Silent_p.D477D|TRAF3IP2_uc003pvf.2_Silent_p.D478D	NM_147686	NP_679211	O43734	CIKS_HUMAN	TRAF3 interacting protein 2 isoform 2	487	SEFIR.				intracellular signal transduction|positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular				ovary(2)|central_nervous_system(1)	3		all_cancers(87;7.87e-06)|Acute lymphoblastic leukemia(125;3.61e-09)|all_hematologic(75;2.63e-07)|all_epithelial(87;0.0024)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.033)|all cancers(137;0.0412)|Epithelial(106;0.0732)		GCTCATCCTCGTCCAGCTGCG	0.507													19	62	---	---	---	---	PASS	A	111887689	A	A	111887689	2	1	142	1	0	0	0	0	0	0	0	1	16438	1136	40	1		1	TRAF3IP2	6	111887689	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	21445262	111887689	59227378	113	50504										
TRDN	10345	broad.mit.edu	37	chr6	123698878	123698878	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cacctgagtgttctttctttGgtgactttgctgtatcaaaa	8	8	3	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:123698878G>C	uc003pzj.1	-	18	1251	c.1229C>G	c.(1228-1230)CCA>CGA	p.P410R	TRDN_uc003pzk.1_Missense_Mutation_p.P411R|TRDN_uc003pzl.1_Missense_Mutation_p.P411R|TRDN_uc010kem.1_5'UTR	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	410	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		TTCTTTCTTTGGTGACTTTGC	0.343													10	46	---	---	---	---	PASS	C	123698878	C	C	123698878	3	2	142	1	0	0	0	0	1	0	0	0	16465	1348	47	4	1056	4	TRDN	6	123698878	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	11811189	123698878	47416189	114	50505										
ENPP3	5169	broad.mit.edu	37	chr6	132014720	132014720	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tatgccaagaacgtcagaatCgacaaagttcatctctttgt	7	9	3	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:132014720C>A	uc003qcu.3	+	16	1715	c.1368C>A	c.(1366-1368)ATC>ATA	p.I456I	ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Silent_p.I456I	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	456	Extracellular (Potential).|Phosphodiesterase.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		ACGTCAGAATCGACAAAGTTC	0.398													4	49	---	---	---	---	PASS	A	132014720	A	A	132014720	2	1	142	1	0	0	0	0	0	0	0	1	5131	874	31	2		2	ENPP3	6	132014720	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	8315842	132014720	39100347	115	50506										
TAAR2	9287	broad.mit.edu	37	chr6	132939037	132939037	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	accagcagttctccaccgatCtgatcatactatatggcatg	7	12	3	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:132939037C>G	uc003qdl.1	-	2	308	c.308G>C	c.(307-309)AGA>ACA	p.R103T	TAAR2_uc010kfr.1_Missense_Mutation_p.R58T	NM_001033080	NP_001028252	Q9P1P5	TAAR2_HUMAN	trace amine associated receptor 2 isoform 1	103	Extracellular (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00608)|GBM - Glioblastoma multiforme(226;0.0151)		CTCCACCGATCTGATCATACT	0.413													12	45	---	---	---	---	PASS	G	132939037	G	G	132939037	3	3	142	1	0	0	0	0	1	0	0	0	15487	913	32	2	751	2	TAAR2	6	132939037	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	924317	132939037	38176030	116	50507										
EYA4	2070	broad.mit.edu	37	chr6	133827274	133827274	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tggctgtaacccttggactcCgcatggaagaaatgattttt	10	8	0	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:133827274C>G	uc003qec.3	+	14	1680	c.1222C>G	c.(1222-1224)CGC>GGC	p.R408G	EYA4_uc011ecq.1_Missense_Mutation_p.R354G|EYA4_uc011ecr.1_Missense_Mutation_p.R360G|EYA4_uc003qed.3_Missense_Mutation_p.R408G|EYA4_uc003qee.3_Missense_Mutation_p.R385G|EYA4_uc011ecs.1_Missense_Mutation_p.R414G|uc003qef.1_RNA|uc003qeg.1_RNA	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	408					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		CCTTGGACTCCGCATGGAAGA	0.323													6	22	---	---	---	---	PASS	G	133827274	G	G	133827274	3	3	142	1	0	0	0	0	1	0	0	0	5331	652	23	4	1272	4	EYA4	6	133827274	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	888237	133827274	37287793	117	50508										
HIVEP2	3097	broad.mit.edu	37	chr6	143094585	143094585	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgcatttctcggactaagccGacagtattttccaaagatga	8	9	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:143094585G>A	uc003qjd.2	-	5	2034	c.1291C>T	c.(1291-1293)CGG>TGG	p.R431W		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	431					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GGACTAAGCCGACAGTATTTT	0.448													21	74	---	---	---	---	PASS	A	143094585	A	A	143094585	3	1	142	1	0	0	0	0	1	0	0	0	7187	1057	37	2	6073	2	HIVEP2	6	143094585	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	9267311	143094585	28020482	118	50509										
UTRN	7402	broad.mit.edu	37	chr6	144808798	144808798	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	taatcagtgagaaactggagGctttcaacagccgatatgaa	10	7	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:144808798G>A	uc003qkt.2	+	28	4029	c.3937G>A	c.(3937-3939)GCT>ACT	p.A1313T		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1313	Spectrin 9.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GAAACTGGAGGCTTTCAACAG	0.498													6	48	---	---	---	---	PASS	A	144808798	A	A	144808798	3	1	142	1	0	0	0	0	1	0	0	0	17100	1203	42	3	4047	3	UTRN	6	144808798	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	1714213	144808798	26306269	119	50510										
SHPRH	257218	broad.mit.edu	37	chr6	146256083	146256083	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctctccacgaacagcctgtgGgtgacagcaggcctgtctga	12	13	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:146256083G>T	uc003qlf.2	-	13	3349	c.2950C>A	c.(2950-2952)CCA>ACA	p.P984T	SHPRH_uc003qld.2_Missense_Mutation_p.P984T|SHPRH_uc003qle.2_Missense_Mutation_p.P984T|SHPRH_uc003qlg.1_Missense_Mutation_p.P540T|SHPRH_uc003qlj.1_Missense_Mutation_p.P873T|SHPRH_uc003qlh.2_5'Flank	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	984					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		ACAGCCTGTGGGTGACAGCAG	0.438													23	40	---	---	---	---	PASS	T	146256083	T	T	146256083	3	4	142	1	0	0	0	0	1	0	0	0	14291	1232	43	3	2217	3	SHPRH	6	146256083	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	1447285	146256083	24858984	120	50511										
ARID1B	57492	broad.mit.edu	37	chr6	157502211	157502211	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gatacctcaccttcatggaaGagagaggctctcctgtctca	9	12	4	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:157502211G>A	uc003qqn.2	+	12	3342	c.3190G>A	c.(3190-3192)GAG>AAG	p.E1064K	ARID1B_uc003qqo.2_Missense_Mutation_p.E1024K|ARID1B_uc003qqp.2_Missense_Mutation_p.E1011K|ARID1B_uc010kjl.2_Missense_Mutation_p.E209K	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1069	ARID.				chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		CTTCATGGAAGAGAGAGGCTC	0.577													6	33	---	---	---	---	PASS	A	157502211	A	A	157502211	3	1	142	1	0	0	0	0	1	0	0	0	914	943	33	2	3290	2	ARID1B	6	157502211	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	11246128	157502211	13612856	121	50512										
WTAP	9589	broad.mit.edu	37	chr6	160164807	160164807	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gactagcaaccaaggaacaaGagatgcaagagtgtactgta	11	7	0	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr6:160164807G>A	uc003qsl.2	+	5	478	c.256G>A	c.(256-258)GAG>AAG	p.E86K	WTAP_uc010kjx.2_Missense_Mutation_p.E86K|WTAP_uc003qsk.2_Missense_Mutation_p.E86K|WTAP_uc003qsm.1_RNA|WTAP_uc003qsn.2_Missense_Mutation_p.E86K	NM_004906	NP_004897	Q15007	FL2D_HUMAN	Wilms' tumour 1-associating protein isoform 1	86					cell cycle|mRNA processing|RNA splicing	nuclear membrane|nucleolus					0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.75e-18)|BRCA - Breast invasive adenocarcinoma(81;5.93e-06)		CAAGGAACAAGAGATGCAAGA	0.358													6	33	---	---	---	---	PASS	A	160164807	A	A	160164807	3	1	142	1	0	0	0	0	1	0	0	0	17406	943	33	2	270	2	WTAP	6	160164807	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	2662596	160164807	10950260	122	50513										
KDELR2	11014	broad.mit.edu	37	chr7	6505702	6505702	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gcaggtcgcacccaacatacCttttgtaatgtacaagtaga	8	10	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:6505702C>A	uc003sqe.3	-	4	765	c.604G>T	c.(604-606)GTA>TTA	p.V202L	DAGLB_uc003sqd.3_Intron|KDELR2_uc003sqf.3_Intron	NM_006854	NP_006845	P33947	ERD22_HUMAN	KDEL receptor 2 isoform 1	202	Cytoplasmic (Potential).				intracellular protein transport|protein retention in ER lumen|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	KDEL sequence binding|protein binding|receptor activity			ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)		CCCAACATACCTTTTGTAATG	0.488													6	150	---	---	---	---	PASS	A	6505702	A	A	6505702	3	1	142	1	0	0	0	0	1	0	0	0	8120	695	24	3	217	3	KDELR2	7	6505702	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08		6505702	152632961	123	50514										
TMEM195	392636	broad.mit.edu	37	chr7	15430477	15430477	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttacttaccaaaaattttatCccaaataataagaacaccag	2	9	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:15430477C>A	uc003stb.1	-	7	900	c.730G>T	c.(730-732)GAT>TAT	p.D244Y		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	244					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						AAAATTTTATCCCAAATAATA	0.254													4	7	---	---	---	---	PASS	A	15430477	A	A	15430477	3	1	142	1	0	0	0	0	1	0	0	0	16114	855	30	2	635	2	TMEM195	7	15430477	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	8924775	15430477	143708186	124	50515										
C7orf16	10842	broad.mit.edu	37	chr7	31746859	31746859	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agagacccaaagcaatcgtgGaagatgacgaaaaggatggt	13	6	0	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:31746859G>T	uc003tcl.2	+	5	588	c.430G>T	c.(430-432)GAA>TAA	p.E144*	C7orf16_uc011kaf.1_Nonsense_Mutation_p.E93*	NM_006658	NP_006649	O96001	GSUB_HUMAN	G-substrate isoform 1	144					behavior|central nervous system development|intracellular protein kinase cascade|protein phosphorylation	soluble fraction				ovary(2)|central_nervous_system(1)	3			GBM - Glioblastoma multiforme(11;0.216)			AGCAATCGTGGAAGATGACGA	0.428													16	37	---	---	---	---	PASS	T	31746859	T	T	31746859	4	4	142	1	0	0	0	0	0	1	0	0	2378	1175	41	2	444	2	C7orf16	7	31746859	Nonsense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	16316382	31746859	127391804	125	50516										
TARP	445347	broad.mit.edu	37	chr7	38299746	38299746	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctaagcagacagcaggtgatGatggcaaaatagaccacact	10	9	0	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:38299746G>T	uc003tge.1	-	7	1268	c.891C>A	c.(889-891)ATC>ATA	p.I297I	uc003tfx.1_5'Flank|uc003tfz.1_Intron|TARP_uc003tgb.2_Silent_p.I93I|TARP_uc003tgc.1_Silent_p.I93I|TARP_uc003tgd.1_Silent_p.I93I			A2JGV3	A2JGV3_HUMAN	Homo sapiens TCRgamma alternate reading frame protein (TCRg) mRNA, complete cds.	Error:Variant_position_missing_in_A2JGV3_after_alignment											0						AGCAGGTGATGATGGCAAAAT	0.458													6	58	---	---	---	---	PASS	T	38299746	T	T	38299746	2	4	142	1	0	0	0	0	0	0	0	1	15555	1280	45	2		2	TARP	7	38299746	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	6552887	38299746	120838917	126	50517										
UPP1	7378	broad.mit.edu	37	chr7	48147012	48147012	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cacggagaaggacaagcaggCgtatctggaggcagcctatg	15	9	1	1	rs138630287		TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:48147012C>T	uc003toj.2	+	9	1230	c.701C>T	c.(700-702)GCG>GTG	p.A234V	UPP1_uc003tok.2_Missense_Mutation_p.A234V|UPP1_uc003tol.2_Missense_Mutation_p.A234V|UPP1_uc011kch.1_Missense_Mutation_p.A27V|UPP1_uc003ton.2_Missense_Mutation_p.A97V|UPP1_uc003too.2_Missense_Mutation_p.A97V	NM_181597	NP_853628	Q16831	UPP1_HUMAN	uridine phosphorylase 1	234					nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage	cytosol	uridine phosphorylase activity				0						GACAAGCAGGCGTATCTGGAG	0.602													8	30	---	---	---	---	PASS	T	48147012	T	T	48147012	3	4	142	1	0	0	0	0	1	0	0	0	17009	768	27	1	723	1	UPP1	7	48147012	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	9847266	48147012	110991651	127	50518										
WBSCR28	135886	broad.mit.edu	37	chr7	73279346	73279346	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gttcagaaccgagatcacctCtataatttcctgctcctcaa	5	13	4	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:73279346C>A	uc003tzk.2	+	2	132	c.96C>A	c.(94-96)CTC>CTA	p.L32L	RFC2_uc011kfa.1_Intron|WBSCR28_uc003tzl.2_5'UTR	NM_182504	NP_872310	Q6UE05	WBS28_HUMAN	hypothetical protein LOC135886	32						integral to membrane				breast(1)	1		Lung NSC(55;0.159)				GAGATCACCTCTATAATTTCC	0.537													8	401	---	---	---	---	PASS	A	73279346	A	A	73279346	2	1	142	1	0	0	0	0	0	0	0	1	17264	900	32	2		2	WBSCR28	7	73279346	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	25132334	73279346	85859317	128	50519										
RSBN1L	222194	broad.mit.edu	37	chr7	77325946	77325946	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctgaggagaagaaggcaccgCggagagtgaacggagaaggg	19	6	0	6			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:77325946C>A	uc010ldt.1	+	1	204	c.160C>A	c.(160-162)CGG>AGG	p.R54R	RSBN1L_uc003ugm.2_5'Flank|uc003ugj.1_RNA	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	54						nucleus				ovary(1)	1						GAAGGCACCGCGGAGAGTGAA	0.652													6	22	---	---	---	---	PASS	A	77325946	A	A	77325946	2	1	142	1	0	0	0	0	0	0	0	1	13697	759	27	1		1	RSBN1L	7	77325946	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	4046600	77325946	81812717	129	50520										
MAGI2	9863	broad.mit.edu	37	chr7	77756572	77756572	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgtcgggggagtgctgcctgTagtccagtaggggaggctgc	19	8	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:77756572T>C	uc003ugx.2	-	19	3619	c.3365A>G	c.(3364-3366)TAC>TGC	p.Y1122C	MAGI2_uc003ugy.2_Missense_Mutation_p.Y1108C|MAGI2_uc010ldx.1_Missense_Mutation_p.Y715C	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	1122						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				GTGCTGCCTGTAGTCCAGTAG	0.637													14	55	---	---	---	---	PASS	C	77756572	C	C	77756572	3	2	142	1	0	0	0	0	1	0	0	0	9191	1638	57	5	1018	5	MAGI2	7	77756572	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	430626	77756572	81382091	130	50521										
SEMA3E	9723	broad.mit.edu	37	chr7	83014748	83014748	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tcagtcttatccaaagcatcCcctacaacaggaacattaat	4	12	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:83014748C>A	uc003uhy.1	-	16	2203	c.1737G>T	c.(1735-1737)GGG>GGT	p.G579G		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	579					axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				CCAAAGCATCCCCTACAACAG	0.358													58	39	---	---	---	---	PASS	A	83014748	A	A	83014748	2	1	142	1	0	0	0	0	0	0	0	1	14028	637	22	3		3	SEMA3E	7	83014748	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	5258176	83014748	76123915	131	50522										
AKAP9	10142	broad.mit.edu	37	chr7	91709280	91709280	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	accttgagaatatcagaattAgaaagccaggttgttgaaat	9	5	1	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:91709280A>G	uc003ulg.2	+	31	8058	c.7833A>G	c.(7831-7833)TTA>TTG	p.L2611L	AKAP9_uc003ulf.2_Silent_p.L2603L|AKAP9_uc003uli.2_Silent_p.L2234L|AKAP9_uc003ulj.2_Silent_p.L381L	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	2623	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TATCAGAATTAGAAAGCCAGG	0.308			T	BRAF	papillary thyroid								5	61	---	---	---	---	PASS	G	91709280	G	G	91709280	2	3	142	1	0	0	0	0	0	0	0	1	459	417	15	5		5	AKAP9	7	91709280	Silent	SNP	A	TCGA-66-2744-01A-01D-0983-08	8694532	91709280	67429383	132	50523										
RELN	5649	broad.mit.edu	37	chr7	103214585	103214585	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cgtccgggcttcccttttccCagggccattgaagtagagag	12	12	0	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:103214585C>G	uc003vca.2	-	30	4625	c.4465G>C	c.(4465-4467)GGG>CGG	p.G1489R	RELN_uc010liz.2_Missense_Mutation_p.G1489R	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1489					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TCCCTTTTCCCAGGGCCATTG	0.473													16	67	---	---	---	---	PASS	G	103214585	G	G	103214585	3	3	142	1	0	0	0	0	1	0	0	0	13220	594	21	4	6061	4	RELN	7	103214585	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	11505305	103214585	55924078	133	50524										
LRRN3	54674	broad.mit.edu	37	chr7	110763735	110763735	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agctgatttccatcgatagtCttgctgtggataacctgcca	9	10	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:110763735C>T	uc003vft.3	+	4	1953	c.907C>T	c.(907-909)CTT>TTT	p.L303F	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.L303F|LRRN3_uc003vfs.3_Missense_Mutation_p.L303F	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	303	Extracellular (Potential).|LRR 10.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		CATCGATAGTCTTGCTGTGGA	0.373													13	35	---	---	---	---	PASS	T	110763735	T	T	110763735	3	4	142	1	0	0	0	0	1	0	0	0	9036	913	32	2	909	2	LRRN3	7	110763735	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	7549150	110763735	48374928	134	50525										
LRRN3	54674	broad.mit.edu	37	chr7	110763895	110763895	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gtaccatggtaccattgagtCtctgccaaacctcaaggaaa	8	11	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:110763895C>G	uc003vft.3	+	4	2113	c.1067C>G	c.(1066-1068)TCT>TGT	p.S356C	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.S356C|LRRN3_uc003vfs.3_Missense_Mutation_p.S356C	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	356	Extracellular (Potential).|LRR 12.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		ACCATTGAGTCTCTGCCAAAC	0.458													6	38	---	---	---	---	PASS	G	110763895	G	G	110763895	3	3	142	1	0	0	0	0	1	0	0	0	9036	913	32	2	1069	2	LRRN3	7	110763895	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	160	110763895	48374768	135	50526										
PAX4	5078	broad.mit.edu	37	chr7	127255120	127255120	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cctgtgcggtagtaacgcccTaggatcttgctcacacagcc	10	14	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:127255120T>C	uc010lld.1	-	2	356	c.150A>G	c.(148-150)CTA>CTG	p.L50L	PAX4_uc003vmf.2_Silent_p.L48L|PAX4_uc003vmg.1_Silent_p.L50L|PAX4_uc003vmh.2_Silent_p.L48L	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	58	Paired.				cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGTAACGCCCTAGGATCTTGC	0.582													14	72	---	---	---	---	PASS	C	127255120	C	C	127255120	2	2	142	1	0	0	0	0	0	0	0	1	11481	1509	53	5		5	PAX4	7	127255120	Silent	SNP	T	TCGA-66-2744-01A-01D-0983-08	16491225	127255120	31883543	136	50527										
OR2A5	393046	broad.mit.edu	37	chr7	143748242	143748242	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cccacctttgcatggtgggaCtcttctttggcagcgccatt	10	13	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:143748242C>A	uc011ktw.1	+	1	748	c.748C>A	c.(748-750)CTC>ATC	p.L250I		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	250	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					CATGGTGGGACTCTTCTTTGG	0.592													28	87	---	---	---	---	PASS	A	143748242	A	A	143748242	3	1	142	1	0	0	0	0	1	0	0	0	10981	565	20	3	750	3	OR2A5	7	143748242	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	16493122	143748242	15390421	137	50528										
GIMAP8	155038	broad.mit.edu	37	chr7	150164145	150164145	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agccaagggcatccaacaagTgtttggagctgaagccagga	13	9	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:150164145T>G	uc003whj.2	+	2	689	c.359T>G	c.(358-360)GTG>GGG	p.V120G		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	120						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		ATCCAACAAGTGTTTGGAGCT	0.483													9	45	---	---	---	---	PASS	G	150164145	G	G	150164145	3	3	142	1	0	0	0	0	1	0	0	0	6385	1696	59	5	361	5	GIMAP8	7	150164145	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	6415903	150164145	8974518	138	50529										
AGAP3	116988	broad.mit.edu	37	chr7	150840947	150840947	+	Missense_Mutation	SNP	G	T	T													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gctgccctggggagggctgtGgcttagcgcctacccccaac							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:150840947G>T	uc003wjg.1	+	18	2656	c.2653G>T	c.(2653-2655)GGC>TGC	p.G885C	AGAP3_uc003wje.1_Missense_Mutation_p.G554C|AGAP3_uc003wjj.1_Missense_Mutation_p.G384C|AGAP3_uc003wjk.1_Missense_Mutation_p.G303C	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	849					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3						GGAGGGCTGTGGCTTAGCGCC	0.647													11	33	---	---	---	---	PASS	T	150840947	T	T	150840947	3	4	142	1	0	0	0	0	1	0	0	0	369	1348	47	3	2790	3	AGAP3	7	150840947	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	676802	150840947	8297716	139	50530	928	2								
AGAP3	116988	broad.mit.edu	37	chr7	150840948	150840948	+	Missense_Mutation	SNP	G	T	T													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctgccctggggagggctgtgGcttagcgcctacccccaaca							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr7:150840948G>T	uc003wjg.1	+	18	2657	c.2654G>T	c.(2653-2655)GGC>GTC	p.G885V	AGAP3_uc003wje.1_Missense_Mutation_p.G554V|AGAP3_uc003wjj.1_Missense_Mutation_p.G384V|AGAP3_uc003wjk.1_Missense_Mutation_p.G303V	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	849					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3						GAGGGCTGTGGCTTAGCGCCT	0.647													12	32	---	---	---	---	PASS	T	150840948	T	T	150840948	3	4	142	1	0	0	0	0	1	0	0	0	369	1203	42	3	2791	3	AGAP3	7	150840948	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	1	150840948	8297715	140	50531	928	2								
GSR	2936	broad.mit.edu	37	chr8	30539494	30539494	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gggggtggctgaagaccacaGttgggatgttgttataatct	15	5	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:30539494G>A	uc003xih.1	-	11	1329	c.1238C>T	c.(1237-1239)ACT>ATT	p.T413I		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	413					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)	GAAGACCACAGTTGGGATGTT	0.428													8	33	---	---	---	---	PASS	A	30539494	A	A	30539494	3	1	142	1	0	0	0	0	1	0	0	0	6828	1029	36	3	342	3	GSR	8	30539494	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08		30539494	115824528	141	50532										
ADAM18	8749	broad.mit.edu	37	chr8	39525607	39525607	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gaacctctagtaattgtgttCctgacacttatgcattgaat	7	8	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:39525607C>G	uc003xni.2	+	14	1417	c.1417C>G	c.(1417-1419)CCT>GCT	p.P473A	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.P449A	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	473	Disintegrin.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TAATTGTGTTCCTGACACTTA	0.418													29	38	---	---	---	---	PASS	G	39525607	G	G	39525607	3	3	142	1	0	0	0	0	1	0	0	0	239	855	30	2	1471	2	ADAM18	8	39525607	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	8986113	39525607	106838415	142	50533										
HGSNAT	138050	broad.mit.edu	37	chr8	43037324	43037324	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gcgcattcctggtgtgctgcAgcgattgggagtgacatact	14	9	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:43037324A>T	uc003xpx.3	+	11	1097	c.1049A>T	c.(1048-1050)CAG>CTG	p.Q350L		NM_152419	NP_689632	Q68CP4	HGNAT_HUMAN	heparan-alpha-glucosaminide N-acetyltransferase	378	Helical; (Potential).				lysosomal transport|protein oligomerization	integral to membrane|lysosomal membrane	heparan-alpha-glucosaminide N-acetyltransferase activity				0	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			GGTGTGCTGCAGCGATTGGGA	0.483													110	504	---	---	---	---	PASS	T	43037324	T	T	43037324	3	4	142	1	0	0	0	0	1	0	0	0	7088	188	7	5	1091	5	HGSNAT	8	43037324	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	3511717	43037324	103326698	143	50534										
SNTG1	54212	broad.mit.edu	37	chr8	51664659	51664659	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cagaatccagatactaaacaGattgaagcaaaggtaaaccc	7	9	0	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:51664659G>C	uc010lxy.1	+	19	1754	c.1383G>C	c.(1381-1383)CAG>CAC	p.Q461H	SNTG1_uc003xqs.1_Missense_Mutation_p.Q461H|SNTG1_uc010lxz.1_Intron|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	461					cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				ATACTAAACAGATTGAAGCAA	0.373													3	21	---	---	---	---	PASS	C	51664659	C	C	51664659	3	2	142	1	0	0	0	0	1	0	0	0	14874	933	33	2	1445	2	SNTG1	8	51664659	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	8627335	51664659	94699363	144	50535										
CYP7A1	1581	broad.mit.edu	37	chr8	59404141	59404141	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acatttagcttggccctctaTaagctccaattcaaaataag	5	10	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:59404141T>A	uc003xtm.3	-	6	1471	c.1408A>T	c.(1408-1410)ATA>TTA	p.I470L		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	470					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				TGGCCCTCTATAAGCTCCAAT	0.408									Neonatal_Giant_Cell_Hepatitis				11	48	---	---	---	---	PASS	A	59404141	A	A	59404141	3	1	142	1	0	0	0	0	1	0	0	0	4196	1406	49	5	110	5	CYP7A1	8	59404141	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	7739482	59404141	86959881	145	50536										
NCOA2	10499	broad.mit.edu	37	chr8	71082563	71082563	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctgtgtcacattctctgacaCaaacacaacgttgccttcca	5	14	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:71082563C>A	uc003xyn.1	-	6	577	c.415G>T	c.(415-417)GTG>TTG	p.V139L		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	139	PAS.				cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TTCTCTGACACAAACACAACG	0.408			T	RUNXBP2	AML								11	25	---	---	---	---	PASS	A	71082563	A	A	71082563	3	1	142	1	0	0	0	0	1	0	0	0	10229	478	17	3	4051	3	NCOA2	8	71082563	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	11678422	71082563	75281459	146	50537										
ZFHX4	79776	broad.mit.edu	37	chr8	77763640	77763640	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agagagagtatgaggtggacCacgaagggaaagcaagtcct	15	6	0	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:77763640C>A	uc003yav.2	+	10	4735	c.4348C>A	c.(4348-4350)CAC>AAC	p.H1450N	ZFHX4_uc003yau.1_Missense_Mutation_p.H1495N|ZFHX4_uc003yaw.1_Missense_Mutation_p.H1450N	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1450						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TGAGGTGGACCACGAAGGGAA	0.507										HNSCC(33;0.089)			5	55	---	---	---	---	PASS	A	77763640	A	A	77763640	3	1	142	1	0	0	0	0	1	0	0	0	17632	594	21	3	4517	3	ZFHX4	8	77763640	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	6681077	77763640	68600382	147	50538										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885863	88885863	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggttttgtgcgggtatacccGgagctcaggggtcgtcaggc	17	9	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:88885863G>A	uc003ydz.2	-	1	434	c.337C>T	c.(337-339)CGG>TGG	p.R113W		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	113										ovary(1)	1						GGGTATACCCGGAGCTCAGGG	0.537													28	64	---	---	---	---	PASS	A	88885863	A	A	88885863	3	1	142	1	0	0	0	0	1	0	0	0	4272	1115	39	1	854	1	DCAF4L2	8	88885863	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	11122223	88885863	57478159	148	50539										
RBM12B	389677	broad.mit.edu	37	chr8	94746211	94746211	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atcaggagggcccctgaagtCttcatctggtgggtgcctga	14	10	4	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:94746211C>A	uc003yfz.2	-	3	2621	c.2428G>T	c.(2428-2430)GAC>TAC	p.D810Y		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	810							nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			CCCCTGAAGTCTTCATCTGGT	0.577													16	85	---	---	---	---	PASS	A	94746211	A	A	94746211	3	1	142	1	0	0	0	0	1	0	0	0	13114	913	32	2	581	2	RBM12B	8	94746211	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	5860348	94746211	51617811	149	50540										
VPS13B	157680	broad.mit.edu	37	chr8	100513915	100513915	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tttttttctcctcatcccagGgagattctatacaagcaggt	7	10	3	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:100513915G>C	uc003yiv.2	+	26	3982	c.3871G>C	c.(3871-3873)GGA>CGA	p.G1291R	VPS13B_uc003yiw.2_Missense_Mutation_p.G1291R|VPS13B_uc003yiu.1_Missense_Mutation_p.G1291R|VPS13B_uc003yix.1_Missense_Mutation_p.G761R	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1291					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CTCATCCCAGGGAGATTCTAT	0.308													6	63	---	---	---	---	PASS	C	100513915	C	C	100513915	3	2	142	1	0	0	0	0	1	0	0	0	17187	1246	43	4	4092	4	VPS13B	8	100513915	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	5767704	100513915	45850107	150	50541										
CSMD3	114788	broad.mit.edu	37	chr8	113668571	113668571	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aattcagttcagtctgaaatCtaagattaaaagacacatgt	6	6	4	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:113668571C>A	uc003ynu.2	-	18	2976	c.2817_splice	c.e18-1	p.R939_splice	CSMD3_uc003yns.2_Splice_Site_p.R211_splice|CSMD3_uc003ynt.2_Splice_Site_p.R899_splice|CSMD3_uc011lhx.1_Splice_Site_p.R835_splice	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1							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						AGTCTGAAATCTAAGATTAAA	0.338										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			4	15	---	---	---	---	PASS	A	113668571	A	A	113668571	5	1	142	1	0	0	0	0	0	0	1	0	3946	927	32	2	8523	2	CSMD3	8	113668571	Splice_Site	SNP	C	TCGA-66-2744-01A-01D-0983-08	13154656	113668571	32695451	151	50542										
CSMD3	114788	broad.mit.edu	37	chr8	114111088	114111088	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgtgtccccaggctctgctaCaatggtccaagtgcaatcag	10	12	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:114111088C>A	uc003ynu.2	-	5	973	c.814G>T	c.(814-816)GTA>TTA	p.V272L	CSMD3_uc003ynt.2_Missense_Mutation_p.V232L|CSMD3_uc011lhx.1_Missense_Mutation_p.V272L|CSMD3_uc010mcx.1_Missense_Mutation_p.V272L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	272	Extracellular (Potential).|CUB 2.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GGCTCTGCTACAATGGTCCAA	0.408										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			5	13	---	---	---	---	PASS	A	114111088	A	A	114111088	3	1	142	1	0	0	0	0	1	0	0	0	3946	478	17	3	10577	3	CSMD3	8	114111088	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	442517	114111088	32252934	152	50543										
NOV	4856	broad.mit.edu	37	chr8	120431549	120431549	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	actcggctctgcatggtgcgGccctgtgaacaagagccaga	13	12	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:120431549G>T	uc003yoq.2	+	4	962	c.741G>T	c.(739-741)CGG>CGT	p.R247R		NM_002514	NP_002505	P48745	NOV_HUMAN	nephroblastoma overexpressed precursor	247	TSP type-1.				regulation of cell growth		growth factor activity|insulin-like growth factor binding			ovary(2)|skin(2)|kidney(1)	5	all_cancers(13;3.84e-26)|Lung NSC(37;1.19e-08)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000507)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GCATGGTGCGGCCCTGTGAAC	0.562													26	110	---	---	---	---	PASS	T	120431549	T	T	120431549	2	4	142	1	0	0	0	0	0	0	0	1	10553	1190	42	3		3	NOV	8	120431549	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	6320461	120431549	25932473	153	50544										
ZHX2	22882	broad.mit.edu	37	chr8	123964442	123964442	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gatcctctcgagactcggcgGggtggagctcctccaagaca	13	13	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:123964442G>T	uc003ypk.1	+	3	1259	c.692G>T	c.(691-693)GGG>GTG	p.G231V		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	231	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			AGACTCGGCGGGGTGGAGCTC	0.577													37	105	---	---	---	---	PASS	T	123964442	T	T	123964442	3	4	142	1	0	0	0	0	1	0	0	0	17673	1232	43	3	694	3	ZHX2	8	123964442	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	3532893	123964442	22399580	154	50545										
KHDRBS3	10656	broad.mit.edu	37	chr8	136594138	136594138	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	caggggaaggggaggagttaCagcccggccagttggagttg	19	7	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr8:136594138C>A	uc003yuv.2	+	6	1023	c.629C>A	c.(628-630)ACA>AAA	p.T210K	KHDRBS3_uc003yuw.2_Missense_Mutation_p.T210K|KHDRBS3_uc010mek.2_RNA	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal	210					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			GGAGGAGTTACAGCCCGGCCA	0.493													24	43	---	---	---	---	PASS	A	136594138	A	A	136594138	3	1	142	1	0	0	0	0	1	0	0	0	8148	478	17	3	651	3	KHDRBS3	8	136594138	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	12629696	136594138	9769884	155	50546										
SLC1A1	6505	broad.mit.edu	37	chr9	4576030	4576030	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ccactccattgtaattctccCgctgatatatttcatagtcg	5	12	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr9:4576030C>T	uc003zij.1	+	9	1141	c.905C>T	c.(904-906)CCG>CTG	p.P302L	C9orf68_uc003zik.2_Intron	NM_004170	NP_004161	P43005	EAA3_HUMAN	solute carrier family 1, member 1	302	Helical; (Potential).				D-aspartate import|L-glutamate import|synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0		Acute lymphoblastic leukemia(2;0.0359)|Breast(48;0.0457)		GBM - Glioblastoma multiforme(50;0.0124)|Lung(218;0.183)	L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)	GTAATTCTCCCGCTGATATAT	0.413													25	31	---	---	---	---	PASS	T	4576030	T	T	4576030	3	4	142	1	0	0	0	0	1	0	0	0	14431	652	23	1	939	1	SLC1A1	9	4576030	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08		4576030	136637401	156	50547										
GLDC	2731	broad.mit.edu	37	chr9	6550883	6550883	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	catttaatatcgcagtttccGtggcttgtttaagacccttg	8	9	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr9:6550883G>T	uc003zkc.2	-	21	2682	c.2489C>A	c.(2488-2490)ACG>AAG	p.T830K		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	830					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	CGCAGTTTCCGTGGCTTGTTT	0.423													98	59	---	---	---	---	PASS	T	6550883	T	T	6550883	3	4	142	1	0	0	0	0	1	0	0	0	6433	1145	40	1	593	1	GLDC	9	6550883	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	1974853	6550883	134662548	157	50548										
PTPRD	5789	broad.mit.edu	37	chr9	8486189	8486189	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gtagctgtaaagtgatcttcTttttcagagaactcaagagt	9	6	4	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr9:8486189T>C	uc003zkk.2	-	27	3339	c.2628A>G	c.(2626-2628)AAA>AAG	p.K876K	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Silent_p.K867K|PTPRD_uc003zkm.2_Silent_p.K863K|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	876	Fibronectin type-III 6.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		AGTGATCTTCTTTTTCAGAGA	0.498										TSP Lung(15;0.13)			158	33	---	---	---	---	PASS	C	8486189	C	C	8486189	2	2	142	1	0	0	0	0	0	0	0	1	12799	1606	56	5		5	PTPRD	9	8486189	Silent	SNP	T	TCGA-66-2744-01A-01D-0983-08	1935306	8486189	132727242	158	50549										
CER1	9350	broad.mit.edu	37	chr9	14720184	14720184	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	accttgcactggcactcctcCaccagcatcaccaccttgat	5	18	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr9:14720184C>A	uc003zlj.2	-	2	753	c.708G>T	c.(706-708)GTG>GTT	p.V236V		NM_005454	NP_005445	O95813	CER1_HUMAN	cerberus 1 precursor	236	CTCK.				BMP signaling pathway	extracellular space	cytokine activity				0				GBM - Glioblastoma multiforme(50;3.16e-06)		GGCACTCCTCCACCAGCATCA	0.522													6	97	---	---	---	---	PASS	A	14720184	A	A	14720184	2	1	142	1	0	0	0	0	0	0	0	1	3265	581	21	3		3	CER1	9	14720184	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	6233995	14720184	126493247	159	50550										
FANCG	2189	broad.mit.edu	37	chr9	35079502	35079502	+	Missense_Mutation	SNP	G	A	A													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ccaggcagctggagcccacaGaggtggtctggcgggacatg					rs35984312	byFrequency	TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr9:35079502G>A	uc003zwb.1	-	1	512	c.20C>T	c.(19-21)TCT>TTT	p.S7F	FANCG_uc003zwa.1_5'Flank|FANCG_uc010mkj.1_5'UTR|FANCG_uc011lot.1_Missense_Mutation_p.S7F	NM_004629	NP_004620	O15287	FANCG_HUMAN	Fanconi anemia, complementation group G	7					cell cycle checkpoint|DNA repair|mitochondrion organization	mitochondrion|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|large_intestine(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GGAGCCCACAGAGGTGGTCTG	0.647			Mis|N|F|S			AML|leukemia		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				8	46	---	---	---	---	PASS	A	35079502	A	A	35079502	3	1	142	1	0	0	0	0	1	0	0	0	5668	942	33	2	1904	2	FANCG	9	35079502	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	20359318	35079502	106133929	160	50551	929	2								
FANCG	2189	broad.mit.edu	37	chr9	35079503	35079503	+	Missense_Mutation	SNP	A	T	T													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	caggcagctggagcccacagAggtggtctggcgggacatgg							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr9:35079503A>T	uc003zwb.1	-	1	511	c.19T>A	c.(19-21)TCT>ACT	p.S7T	FANCG_uc003zwa.1_5'Flank|FANCG_uc010mkj.1_5'UTR|FANCG_uc011lot.1_Missense_Mutation_p.S7T	NM_004629	NP_004620	O15287	FANCG_HUMAN	Fanconi anemia, complementation group G	7					cell cycle checkpoint|DNA repair|mitochondrion organization	mitochondrion|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|large_intestine(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GAGCCCACAGAGGTGGTCTGG	0.647			Mis|N|F|S			AML|leukemia		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				8	45	---	---	---	---	PASS	T	35079503	T	T	35079503	3	4	142	1	0	0	0	0	1	0	0	0	5668	304	11	5	1905	5	FANCG	9	35079503	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	1	35079503	106133928	161	50552	929	2								
TLN1	7094	broad.mit.edu	37	chr9	35720477	35720477	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atagtagactcctcatctccTtccagcccaaagtgatcctt	5	14	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr9:35720477T>A	uc003zxt.2	-	12	1590	c.1236A>T	c.(1234-1236)GAA>GAT	p.E412D		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	412	Interaction with LAYN (By similarity).				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CCTCATCTCCTTCCAGCCCAA	0.488													87	113	---	---	---	---	PASS	A	35720477	A	A	35720477	3	1	142	1	0	0	0	0	1	0	0	0	15944	1606	56	5	6573	5	TLN1	9	35720477	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	640974	35720477	105492954	162	50553										
ZCCHC7	84186	broad.mit.edu	37	chr9	37126431	37126431	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gatagtgaggtggaatttcaActctatagccaaattcatta	8	6	3	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr9:37126431A>T	uc003zzq.2	+	2	275	c.102A>T	c.(100-102)CAA>CAT	p.Q34H	ZCCHC7_uc011lqh.1_Intron|ZCCHC7_uc011lqi.1_Missense_Mutation_p.Q33H|ZCCHC7_uc010mlt.2_Missense_Mutation_p.Q33H|ZCCHC7_uc003zzs.1_Missense_Mutation_p.Q33H	NM_032226	NP_115602	Q8N3Z6	ZCHC7_HUMAN	zinc finger, CCHC domain containing 7	34							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.0137)		TGGAATTTCAACTCTATAGCC	0.398													10	72	---	---	---	---	PASS	T	37126431	T	T	37126431	3	4	142	1	0	0	0	0	1	0	0	0	17590	40	2	5	104	5	ZCCHC7	9	37126431	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	1405954	37126431	104087000	163	50554										
VPS13A	23230	broad.mit.edu	37	chr9	79968365	79968365	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tttgggggaaaagacaatatAtttagtttcattctttgaag	9	3	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr9:79968365A>G	uc004akr.2	+	54	7720	c.7460A>G	c.(7459-7461)TAT>TGT	p.Y2487C	VPS13A_uc004akp.3_Missense_Mutation_p.Y2487C|VPS13A_uc004akq.3_Missense_Mutation_p.Y2487C|VPS13A_uc004aks.2_Missense_Mutation_p.Y2448C	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2487					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						AAGACAATATATTTAGTTTCA	0.299													4	25	---	---	---	---	PASS	G	79968365	G	G	79968365	3	3	142	1	0	0	0	0	1	0	0	0	17186	449	16	5	7674	5	VPS13A	9	79968365	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	42841934	79968365	61245066	164	50555										
ABCA1	19	broad.mit.edu	37	chr9	107645435	107645435	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gcatctgagaacaggcgagcCacactgtaaagggtgcaaga	13	9	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr9:107645435C>A	uc004bcl.2	-	5	619	c.306G>T	c.(304-306)GTG>GTT	p.V102V	ABCA1_uc004bcm.2_Silent_p.V42V	NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	102	Extracellular.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ACAGGCGAGCCACACTGTAAA	0.493													17	73	---	---	---	---	PASS	A	107645435	A	A	107645435	2	1	142	1	0	0	0	0	0	0	0	1	28	581	21	3		3	ABCA1	9	107645435	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	27677070	107645435	33567996	165	50556										
TLR4	7099	broad.mit.edu	37	chr9	120476154	120476154	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tactcagaatgactttgcttGtacttgtgaacaccagagtt	8	8	1	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr9:120476154G>T	uc004bjz.2	+	3	2039	c.1748G>T	c.(1747-1749)TGT>TTT	p.C583F	TLR4_uc004bka.2_Missense_Mutation_p.C543F|TLR4_uc004bkb.2_Missense_Mutation_p.C383F	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	583	LRRCT.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						GACTTTGCTTGTACTTGTGAA	0.408													15	29	---	---	---	---	PASS	T	120476154	T	T	120476154	3	4	142	1	0	0	0	0	1	0	0	0	15950	1377	48	3	1758	3	TLR4	9	120476154	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	12830719	120476154	20737277	166	50557										
NELF	26012	broad.mit.edu	37	chr9	140347593	140347593	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cccagtccaggtcctcgaagGcctcgtccagcgtgcagtgg	13	15	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr9:140347593G>T	uc004cna.2	-	9	1194	c.962C>A	c.(961-963)GCC>GAC	p.A321D	C9orf167_uc011mew.1_Intron|NELF_uc011mex.1_Missense_Mutation_p.A118D|NELF_uc010nci.2_Missense_Mutation_p.A65D|NELF_uc011mey.1_RNA|NELF_uc011mez.1_Missense_Mutation_p.A298D|NELF_uc004cmz.2_Missense_Mutation_p.A319D|NELF_uc004cnc.2_Missense_Mutation_p.A296D|NELF_uc004cnb.2_Missense_Mutation_p.A291D	NM_001130969	NP_001124441	Q6X4W1	NELF_HUMAN	nasal embryonic LHRH factor isoform a	321						nucleus|plasma membrane					0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000222)|Epithelial(140;0.000888)		GTCCTCGAAGGCCTCGTCCAG	0.657													4	34	---	---	---	---	PASS	T	140347593	T	T	140347593	3	4	142	1	0	0	0	0	1	0	0	0	10332	1203	42	3	662	3	NELF	9	140347593	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	19871439	140347593	865838	167	50558										
C10orf18	54906	broad.mit.edu	37	chr10	5789240	5789240	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	attctgacattgacttagctCtaacaatatcaccacctaca	3	12	3	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr10:5789240C>T	uc001iij.2	+	15	4481	c.3856C>T	c.(3856-3858)CTA>TTA	p.L1286L	C10orf18_uc001iik.2_Silent_p.L130L	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	1286										ovary(1)|central_nervous_system(1)	2						TGACTTAGCTCTAACAATATC	0.418													26	124	---	---	---	---	PASS	T	5789240	T	T	5789240	2	4	142	1	0	0	0	0	0	0	0	1	1596	912	32	2		2	C10orf18	10	5789240	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08		5789240	129745507	168	50559										
PCDH15	65217	broad.mit.edu	37	chr10	55582261	55582261	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggggaaggggacaggcagaaGgagagatgtttggtggatgg	22	2	0	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr10:55582261G>A	uc001jju.1	-	33	5620	c.5225C>T	c.(5224-5226)CCT>CTT	p.P1742L	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.P1739L|PCDH15_uc010qhw.1_Missense_Mutation_p.P1702L|PCDH15_uc010qhx.1_Missense_Mutation_p.P1673L|PCDH15_uc010qhy.1_Missense_Mutation_p.P1749L|PCDH15_uc010qhz.1_Missense_Mutation_p.P1744L|PCDH15_uc010qia.1_Missense_Mutation_p.P1722L|PCDH15_uc010qib.1_Missense_Mutation_p.P1719L	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1742	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				aCAGGCAGAAGGAGAGATGTT	0.209										HNSCC(58;0.16)			3	17	---	---	---	---	PASS	A	55582261	A	A	55582261	3	1	142	1	0	0	0	0	1	0	0	0	11511	1000	35	3	2252	3	PCDH15	10	55582261	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	49793021	55582261	79952486	169	50560										
TET1	80312	broad.mit.edu	37	chr10	70451506	70451506	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cattaacattaacccatgacAatgttgtcaccgtgtcccct	5	13	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr10:70451506A>G	uc001jok.3	+	12	6851	c.6346A>G	c.(6346-6348)AAT>GAT	p.N2116D		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	2116					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						AACCCATGACAATGTTGTCAC	0.453													20	64	---	---	---	---	PASS	G	70451506	G	G	70451506	3	3	142	1	0	0	0	0	1	0	0	0	15766	130	5	5	6388	5	TET1	10	70451506	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	14869245	70451506	65083241	170	50561										
COL13A1	1305	broad.mit.edu	37	chr10	71690217	71690217	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ccaaggccccccaggaaaggAtggacctccaggagtgaagg	14	12	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr10:71690217A>G	uc001jpr.1	+	28	2095	c.1559A>G	c.(1558-1560)GAT>GGT	p.D520G	COL13A1_uc001jqj.1_Missense_Mutation_p.D520G|COL13A1_uc001jps.1_Missense_Mutation_p.D491G|COL13A1_uc001jpt.1_Missense_Mutation_p.D479G|COL13A1_uc001jpu.1_Missense_Mutation_p.D501G|COL13A1_uc001jpv.1_Missense_Mutation_p.D520G|COL13A1_uc001jpx.1_Missense_Mutation_p.D498G|COL13A1_uc001jpw.1_Missense_Mutation_p.D467G|COL13A1_uc001jpy.1_Missense_Mutation_p.D458G|COL13A1_uc001jpz.1_Missense_Mutation_p.D463G|COL13A1_uc001jqa.1_Missense_Mutation_p.D460G|COL13A1_uc001jqc.1_Missense_Mutation_p.D520G|COL13A1_uc001jqb.1_Missense_Mutation_p.D469G|COL13A1_uc001jql.2_Missense_Mutation_p.D520G|COL13A1_uc001jqd.1_Missense_Mutation_p.D508G|COL13A1_uc001jqe.1_Missense_Mutation_p.D503G|COL13A1_uc001jqf.1_Missense_Mutation_p.D501G|COL13A1_uc001jqg.1_Missense_Mutation_p.D498G|COL13A1_uc001jqh.1_Missense_Mutation_p.D520G|COL13A1_uc001jqi.1_Missense_Mutation_p.D520G|COL13A1_uc010qjf.1_Missense_Mutation_p.D310G	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	520	Extracellular (Potential).|Triple-helical region 3 (COL3).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	CCAGGAAAGGATGGACCTCCA	0.567													5	9	---	---	---	---	PASS	G	71690217	G	G	71690217	3	3	142	1	0	0	0	0	1	0	0	0	3670	333	12	5	1673	5	COL13A1	10	71690217	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	1238711	71690217	63844530	171	50562										
LRRC20	55222	broad.mit.edu	37	chr10	72100443	72100443	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	caatgggaaaggagaccagcTtgcactcggccaggtctgca	13	11	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr10:72100443T>A	uc001jqx.1	-	3	320	c.98A>T	c.(97-99)AAG>ATG	p.K33M	LRRC20_uc001jqy.1_Missense_Mutation_p.K33M|LRRC20_uc001jqz.1_Intron	NM_207119	NP_997002	Q8TCA0	LRC20_HUMAN	leucine rich repeat containing 20 isoform 1	33											0						GGAGACCAGCTTGCACTCGGC	0.547													8	36	---	---	---	---	PASS	A	72100443	A	A	72100443	3	1	142	1	0	0	0	0	1	0	0	0	8977	1609	56	5	468	5	LRRC20	10	72100443	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	410226	72100443	63434304	172	50563										
LRIT1	26103	broad.mit.edu	37	chr10	85993948	85993948	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gggacctgatgctggccactCctggatggagctctgggccc	15	13	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr10:85993948C>A	uc001kcz.1	-	3	798	c.776G>T	c.(775-777)GGA>GTA	p.G259V		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	259	Lumenal (Potential).					integral to endoplasmic reticulum membrane					0						GCTGGCCACTCCTGGATGGAG	0.617													19	62	---	---	---	---	PASS	A	85993948	A	A	85993948	3	1	142	1	0	0	0	0	1	0	0	0	8947	855	30	2	1103	2	LRIT1	10	85993948	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	13893505	85993948	49540799	173	50564										
SORBS1	10580	broad.mit.edu	37	chr10	97098986	97098986	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agtggtcgcttgatcacatcCacgtaggtgatggggaagat	14	7	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr10:97098986C>A	uc001kkp.2	-	27	2814	c.2769G>T	c.(2767-2769)GTG>GTT	p.V923V	SORBS1_uc001kkk.2_Silent_p.V417V|SORBS1_uc001kkl.2_Silent_p.V525V|SORBS1_uc001kkn.2_Silent_p.V688V|SORBS1_uc001kkm.2_Silent_p.V723V|SORBS1_uc001kko.2_Silent_p.V945V|SORBS1_uc001kkq.2_Silent_p.V774V|SORBS1_uc001kkr.2_Silent_p.V629V|SORBS1_uc001kks.2_Silent_p.V573V|SORBS1_uc001kkt.2_RNA|SORBS1_uc001kku.2_Silent_p.V670V|SORBS1_uc001kkv.2_Silent_p.V705V|SORBS1_uc001kkw.2_Silent_p.V877V|SORBS1_uc010qoe.1_Silent_p.V638V	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	923	SH3 2.				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)		TGATCACATCCACGTAGGTGA	0.562													5	68	---	---	---	---	PASS	A	97098986	A	A	97098986	2	1	142	1	0	0	0	0	0	0	0	1	14927	581	21	3		3	SORBS1	10	97098986	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	11105038	97098986	38435761	174	50565										
NRAP	4892	broad.mit.edu	37	chr10	115365986	115365986	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctcggatgaactcgggcagaCccagggtcattgtatactcg	12	11	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr10:115365986C>G	uc001laj.2	-	33	3922	c.3758G>C	c.(3757-3759)GGT>GCT	p.G1253A	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Missense_Mutation_p.G1218A|NRAP_uc001lal.3_Missense_Mutation_p.G1253A	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	1253	Nebulin 33.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		CTCGGGCAGACCCAGGGTCAT	0.438													9	33	---	---	---	---	PASS	G	115365986	G	G	115365986	3	3	142	1	0	0	0	0	1	0	0	0	10638	507	18	4	1474	4	NRAP	10	115365986	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	18267000	115365986	20168761	175	50566										
CASP7	840	broad.mit.edu	37	chr10	115486137	115486137	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	caatgacacagatgctaatcCtcgatacaagatcccagtgg	8	11	0	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr10:115486137C>A	uc001lan.2	+	6	800	c.626C>A	c.(625-627)CCT>CAT	p.P209H	CASP7_uc001lam.2_Missense_Mutation_p.L198I|CASP7_uc001lao.2_Missense_Mutation_p.P242H|CASP7_uc001lap.2_Missense_Mutation_p.P209H|CASP7_uc001laq.2_Missense_Mutation_p.P209H|CASP7_uc010qsa.1_Missense_Mutation_p.P294H|CASP7_uc010qsb.1_Missense_Mutation_p.P184H	NM_033339	NP_203125	P55210	CASP7_HUMAN	caspase 7 isoform alpha	209					activation of caspase activity by cytochrome c|cellular component disassembly involved in apoptosis|induction of apoptosis by intracellular signals|proteolysis	cytosol|endoplasmic reticulum membrane|mitochondrial membrane|nucleoplasm	cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Colorectal(252;0.0946)|Breast(234;0.188)		Epithelial(162;0.012)|all cancers(201;0.014)		GATGCTAATCCTCGATACAAG	0.498													5	66	---	---	---	---	PASS	A	115486137	A	A	115486137	3	1	142	1	0	0	0	0	1	0	0	0	2676	681	24	3	825	3	CASP7	10	115486137	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	120151	115486137	20048610	176	50567										
KCNK18	338567	broad.mit.edu	37	chr10	118960727	118960727	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gcagaaggtgaagcctcagtGgtttaacaggaccacacact	11	10	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr10:118960727G>T	uc010qsr.1	+	2	281	c.281G>T	c.(280-282)TGG>TTG	p.W94L		NM_181840	NP_862823	Q7Z418	KCNKI_HUMAN	potassium channel, subfamily K, member 18	94						integral to membrane|plasma membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;0.19)		all cancers(201;0.0211)		AAGCCTCAGTGGTTTAACAGG	0.527													41	105	---	---	---	---	PASS	T	118960727	T	T	118960727	3	4	142	1	0	0	0	0	1	0	0	0	8065	1357	47	3	287	3	KCNK18	10	118960727	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	3474590	118960727	16574020	177	50568										
CUZD1	50624	broad.mit.edu	37	chr10	124597003	124597003	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	taagccagctcaggatgcggCtttgggtaattggggctggt	16	7	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr10:124597003C>G	uc001lgq.2	-	4	848	c.516G>C	c.(514-516)AAG>AAC	p.K172N	CUZD1_uc001lgp.2_5'UTR|CUZD1_uc009yad.2_5'UTR|CUZD1_uc009yaf.2_Intron|CUZD1_uc001lgr.2_5'UTR|CUZD1_uc010qty.1_5'UTR|CUZD1_uc009yae.2_5'UTR|CUZD1_uc001lgs.2_Missense_Mutation_p.K172N|CUZD1_uc010qtz.1_Missense_Mutation_p.K172N	NM_022034	NP_071317	Q86UP6	CUZD1_HUMAN	CUB and zona pellucida-like domains 1 precursor	172	Extracellular (Potential).|CUB 2.				cell cycle|cell division|cell proliferation|substrate-dependent cell migration, cell attachment to substrate|trypsinogen activation	integral to membrane|transport vesicle membrane|zymogen granule membrane				ovary(1)|skin(1)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.126)|COAD - Colon adenocarcinoma(40;0.141)		CAGGATGCGGCTTTGGGTAAT	0.443													24	59	---	---	---	---	PASS	G	124597003	G	G	124597003	3	3	142	1	0	0	0	0	1	0	0	0	4066	796	28	4	1331	4	CUZD1	10	124597003	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	5636276	124597003	10937744	178	50569										
IKZF5	64376	broad.mit.edu	37	chr10	124758038	124758038	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gagcctctgcttctttgtccCcactaactgatccagaaatc	6	14	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr10:124758038C>T	uc001lha.2	-	3	403	c.104G>A	c.(103-105)GGG>GAG	p.G35E		NM_022466	NP_071911	Q9H5V7	IKZF5_HUMAN	zinc finger protein, subfamily 1A, 5	35					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_neural(114;0.169)|Colorectal(57;0.178)|Glioma(114;0.222)		Colorectal(40;0.0701)|COAD - Colon adenocarcinoma(40;0.0754)		TTCTTTGTCCCCACTAACTGA	0.408													5	45	---	---	---	---	PASS	T	124758038	T	T	124758038	3	4	142	1	0	0	0	0	1	0	0	0	7618	623	22	3	1167	3	IKZF5	10	124758038	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	161035	124758038	10776709	179	50570										
MUC5B	727897	broad.mit.edu	37	chr11	1157747	1157747	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tctgtgaggagctcctgcacGgccagctgttctctggctgc	13	13	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:1157747G>T	uc009ycr.1	+	9	940	c.814G>T	c.(814-816)GGC>TGC	p.G272C		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	268	VWFD 1.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GCTCCTGCACGGCCAGCTGTT	0.637													9	18	---	---	---	---	PASS	T	1157747	T	T	1157747	3	4	142	1	0	0	0	0	1	0	0	0	9979	1131	39	1		1	MUC5B	11	1157747	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08		1157747	133848769	180	50571										
MUC5B	727897	broad.mit.edu	37	chr11	1271174	1271174	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gtccacaatccacccctcctCcactccggagaccacccaca	4	22	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:1271174C>G	uc009ycr.1	+	51	14609	c.14483C>G	c.(14482-14484)TCC>TGC	p.S4828C	MUC5B_uc001ltb.2_Missense_Mutation_p.S4358C	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4355	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CACCCCTCCTCCACTCCGGAG	0.657													26	51	---	---	---	---	PASS	G	1271174	G	G	1271174	3	3	142	1	0	0	0	0	1	0	0	0	9979	855	30	2	13195	2	MUC5B	11	1271174	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	113427	1271174	133735342	181	50572										
TRIM21	6737	broad.mit.edu	37	chr11	4408217	4408217	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cctttccaggacaattatcaCctcctgaggagaaaagagac	8	11	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:4408217C>A	uc001lyy.1	-	5	852	c.739G>T	c.(739-741)GTG>TTG	p.V247L		NM_003141	NP_003132	P19474	RO52_HUMAN	tripartite motif protein 21	247					cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein deubiquitination|positive regulation of cell cycle|protein autoubiquitination|protein destabilization|protein monoubiquitination|protein polyubiquitination|protein trimerization	cytoplasmic mRNA processing body|nucleus	DNA binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;2.08e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0851)|LUSC - Lung squamous cell carcinoma(625;0.194)		ACAATTATCACCTCCTGAGGA	0.458													4	8	---	---	---	---	PASS	A	4408217	A	A	4408217	3	1	142	1	0	0	0	0	1	0	0	0	16492	507	18	3	700	3	TRIM21	11	4408217	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	3137043	4408217	130598299	182	50573										
OR52B2	255725	broad.mit.edu	37	chr11	6190909	6190909	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atcagtgagtaagacacagcGatgaggataacatccaagat	10	7	1	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:6190909G>T	uc010qzy.1	-	1	648	c.648C>A	c.(646-648)ATC>ATA	p.I216I		NM_001004052	NP_001004052	Q96RD2	O52B2_HUMAN	olfactory receptor, family 52, subfamily B,	216	Helical; Name=5; (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;3.69e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAGACACAGCGATGAGGATAA	0.512													20	37	---	---	---	---	PASS	T	6190909	T	T	6190909	2	4	142	1	0	0	0	0	0	0	0	1	11111	1048	37	2		2	OR52B2	11	6190909	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	1782692	6190909	128815607	183	50574										
CTR9	9646	broad.mit.edu	37	chr11	10776627	10776627	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atgacttgcttggatacattGgcagcgtattatgtacaaca	9	7	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:10776627G>T	uc001mja.2	+	3	416	c.267G>T	c.(265-267)TTG>TTT	p.L89F		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	89					histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		TGGATACATTGGCAGCGTATT	0.378													7	153	---	---	---	---	PASS	T	10776627	T	T	10776627	3	4	142	1	0	0	0	0	1	0	0	0	4024	1339	47	3	277	3	CTR9	11	10776627	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	4585718	10776627	124229889	184	50575										
HPS5	11234	broad.mit.edu	37	chr11	18303747	18303747	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aaggagaagcttccattcctCcacggtctctgggatccaac	9	13	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:18303747C>A	uc001mod.1	-	22	3357	c.3079G>T	c.(3079-3081)GAG>TAG	p.E1027*	HPS5_uc001moe.1_Nonsense_Mutation_p.E913*|HPS5_uc001mof.1_Nonsense_Mutation_p.E913*	NM_181507	NP_852608	Q9UPZ3	HPS5_HUMAN	Hermansky-Pudlak syndrome 5 isoform a	1027						cytosol				ovary(1)|pancreas(1)|skin(1)	3						TTCCATTCCTCCACGGTCTCT	0.517									Hermansky-Pudlak_syndrome				5	53	---	---	---	---	PASS	A	18303747	A	A	18303747	4	1	142	1	0	0	0	0	0	1	0	0	7342	864	30	2	318	2	HPS5	11	18303747	Nonsense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	7527120	18303747	116702769	185	50576										
COMMD9	29099	broad.mit.edu	37	chr11	36296266	36296266	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agtgtttctttgctcagctcCacggtgacagctgagatgga	12	9	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:36296266C>A	uc001mwn.3	-	6	550	c.513G>T	c.(511-513)GTG>GTT	p.V171V	COMMD9_uc009ykj.2_Silent_p.V129V|COMMD9_uc009yki.1_5'Flank	NM_014186	NP_054905	Q9P000	COMD9_HUMAN	COMM domain containing 9 isoform 1	171	COMM.									ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				TGCTCAGCTCCACGGTGACAG	0.542													5	97	---	---	---	---	PASS	A	36296266	A	A	36296266	2	1	142	1	0	0	0	0	0	0	0	1	3723	581	21	3		3	COMMD9	11	36296266	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	17992519	36296266	98710250	186	50577										
LRP4	4038	broad.mit.edu	37	chr11	46900684	46900684	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aagggctgctcacctgggggCcggcggcggtggaagacatg	19	10	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:46900684C>T	uc001ndn.3	-	21	3143	c.2997G>A	c.(2995-2997)CGG>CGA	p.R999R		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	999	Extracellular (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		CACCTGGGGGCCGGCGGCGGT	0.607													28	95	---	---	---	---	PASS	T	46900684	T	T	46900684	2	4	142	1	0	0	0	0	0	0	0	1	8959	726	26	3		3	LRP4	11	46900684	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	10604418	46900684	88105832	187	50578										
OR4C13	283092	broad.mit.edu	37	chr11	49974260	49974260	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctatcttattcaatggatgtAtgactcaagtctttggagaa	8	6	4	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:49974260A>T	uc010rhz.1	+	1	286	c.286A>T	c.(286-288)ATG>TTG	p.M96L		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						CAATGGATGTATGACTCAAGT	0.413													25	49	---	---	---	---	PASS	T	49974260	T	T	49974260	3	4	142	1	0	0	0	0	1	0	0	0	11047	449	16	5	288	5	OR4C13	11	49974260	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	3073576	49974260	85032256	188	50579										
OR4A15	81328	broad.mit.edu	37	chr11	55135552	55135552	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cattcttactaatctacatgGtgacgataatgggcaacctg	8	9	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:55135552G>A	uc010rif.1	+	1	193	c.193G>A	c.(193-195)GTG>ATG	p.V65M		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	65	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AATCTACATGGTGACGATAAT	0.418													8	36	---	---	---	---	PASS	A	55135552	A	A	55135552	3	1	142	1	0	0	0	0	1	0	0	0	11040	1261	44	3	195	3	OR4A15	11	55135552	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	5161292	55135552	79870964	189	50580										
OR4A15	81328	broad.mit.edu	37	chr11	55136373	55136373	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aaaaaagtaagcttagctggGaaatggctgtatcactcatg	10	6	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:55136373G>A	uc010rif.1	+	1	1014	c.1014G>A	c.(1012-1014)GGG>GGA	p.G338G		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	338	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCTTAGCTGGGAAATGGCTGT	0.368													10	45	---	---	---	---	PASS	A	55136373	A	A	55136373	2	1	142	1	0	0	0	0	0	0	0	1	11040	1161	41	2		2	OR4A15	11	55136373	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	821	55136373	79870143	190	50581										
OR5D18	219438	broad.mit.edu	37	chr11	55587161	55587161	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gttcaccctcttgggcttctCagattacccagaactgcaag	8	13	3	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:55587161C>A	uc010rin.1	+	1	56	c.56C>A	c.(55-57)TCA>TAA	p.S19*		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	19	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				TTGGGCTTCTCAGATTACCCA	0.428													21	27	---	---	---	---	PASS	A	55587161	A	A	55587161	4	1	142	1	0	0	0	0	0	1	0	0	11157	838	29	2	58	2	OR5D18	11	55587161	Nonsense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	450788	55587161	79419355	191	50582										
OR8H3	390152	broad.mit.edu	37	chr11	55890170	55890170	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgttctgttttgtcttcttgGgtactgctgaatgttatctt	9	6	4	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:55890170G>T	uc001nii.1	+	1	322	c.322G>T	c.(322-324)GGT>TGT	p.G108C		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					TGTCTTCTTGGGTACTGCTGA	0.453													9	238	---	---	---	---	PASS	T	55890170	T	T	55890170	3	4	142	1	0	0	0	0	1	0	0	0	11239	1232	43	3	324	3	OR8H3	11	55890170	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	303009	55890170	79116346	192	50583										
OR8H3	390152	broad.mit.edu	37	chr11	55890505	55890505	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acaatatctgcatcctatgtGtccattctctctaccatcct	3	14	3	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:55890505G>A	uc001nii.1	+	1	657	c.657G>A	c.(655-657)GTG>GTA	p.V219V		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	219	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CATCCTATGTGTCCATTCTCT	0.438													13	68	---	---	---	---	PASS	A	55890505	A	A	55890505	2	1	142	1	0	0	0	0	0	0	0	1	11239	1364	48	3		3	OR8H3	11	55890505	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	335	55890505	79116011	193	50584										
OR5J2	282775	broad.mit.edu	37	chr11	55944289	55944289	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgtactttttactcagctgtCtttcatttgtggatgcctgc	8	9	3	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:55944289C>G	uc010rjb.1	+	1	196	c.196C>G	c.(196-198)CTT>GTT	p.L66V		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					ACTCAGCTGTCTTTCATTTGT	0.443													23	87	---	---	---	---	PASS	G	55944289	G	G	55944289	3	3	142	1	0	0	0	0	1	0	0	0	11165	913	32	2	198	2	OR5J2	11	55944289	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	53784	55944289	79062227	194	50585										
OR5T1	390155	broad.mit.edu	37	chr11	56043645	56043645	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	catacagtggctacatttagCctgtccttctgtggatccaa	8	11	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:56043645C>A	uc001nio.1	+	1	531	c.531C>A	c.(529-531)AGC>AGA	p.S177R		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	177	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					CTACATTTAGCCTGTCCTTCT	0.418													8	116	---	---	---	---	PASS	A	56043645	A	A	56043645	3	1	142	1	0	0	0	0	1	0	0	0	11181	738	26	3	533	3	OR5T1	11	56043645	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	99356	56043645	78962871	195	50586										
OR4D6	219983	broad.mit.edu	37	chr11	59224488	59224488	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttttcttcctggaacttacaCgttcccgagagctggagttt	9	10	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:59224488C>A	uc010rku.1	+	1	55	c.55C>A	c.(55-57)CGT>AGT	p.R19S		NM_001004708	NP_001004708	Q8NGJ1	OR4D6_HUMAN	olfactory receptor, family 4, subfamily D,	19	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GGAACTTACACGTTCCCGAGA	0.443													34	93	---	---	---	---	PASS	A	59224488	A	A	59224488	3	1	142	1	0	0	0	0	1	0	0	0	11058	536	19	1	57	1	OR4D6	11	59224488	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	3180843	59224488	75782028	196	50587										
TM7SF2	7108	broad.mit.edu	37	chr11	64880868	64880868	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tagccccagtttcggccctgGcacctggggggaactcaggt	14	13	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:64880868G>C	uc001oct.2	+	4	628	c.481G>C	c.(481-483)GCA>CCA	p.A161P	TM7SF2_uc010rny.1_Missense_Mutation_p.A45P|TM7SF2_uc001ocu.2_Missense_Mutation_p.A161P|TM7SF2_uc001ocv.2_Missense_Mutation_p.A182P	NM_003273	NP_003264	O76062	ERG24_HUMAN	transmembrane 7 superfamily member 2	161					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane	delta14-sterol reductase activity			ovary(1)	1						TTCGGCCCTGGCACCTGGGGG	0.587											OREG0021072	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	81	---	---	---	---	PASS	C	64880868	C	C	64880868	3	2	142	1	0	0	0	0	1	0	0	0	15971	1203	42	4	495	4	TM7SF2	11	64880868	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	5656380	64880868	70125648	197	50588										
DPP3	10072	broad.mit.edu	37	chr11	66254031	66254031	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gaaaagctggaacgggtgatCctagggagtgaggctgctca	16	7	1	2	rs76983925	by1000genomes	TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:66254031C>T	uc001oig.1	+	4	443	c.381C>T	c.(379-381)ATC>ATT	p.I127I	DPP3_uc001oif.1_Silent_p.I127I|DPP3_uc010rpe.1_Silent_p.I116I	NM_005700	NP_005691	Q9NY33	DPP3_HUMAN	dipeptidyl peptidase III	127					proteolysis	cytoplasm	aminopeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity			ovary(1)|skin(1)	2						AACGGGTGATCCTAGGGAGTG	0.602													21	114	---	---	---	---	PASS	T	66254031	T	T	66254031	2	4	142	1	0	0	0	0	0	0	0	1	4728	845	30	2		2	DPP3	11	66254031	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	1373163	66254031	68752485	198	50589										
RBM4	5936	broad.mit.edu	37	chr11	66411414	66411414	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gttactgcagcttccacttcAtattacgggcgggatcggag	12	10	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:66411414A>T	uc009yrj.2	+	3	1394	c.906A>T	c.(904-906)TCA>TCT	p.S302S	RBM4_uc009yrk.2_Silent_p.S277S|RBM4_uc001oiw.1_Silent_p.S302S|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Silent_p.S302S|RBM4_uc001oiz.1_Silent_p.S302S	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	302	Interaction with TNPO3.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		ctTCCACTTCATATTACGGGC	0.438													8	28	---	---	---	---	PASS	T	66411414	T	T	66411414	2	4	142	1	0	0	0	0	0	0	0	1	13134	204	8	5		5	RBM4	11	66411414	Silent	SNP	A	TCGA-66-2744-01A-01D-0983-08	157383	66411414	68595102	199	50590										
AIP	9049	broad.mit.edu	37	chr11	67258318	67258318	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cggccgtgtggaatgcccagGaggcccaggctgactttgcc	15	13	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:67258318G>C	uc001olv.2	+	6	972	c.847G>C	c.(847-849)GAG>CAG	p.E283Q		NM_003977	NP_003968	O00170	AIP_HUMAN	aryl hydrocarbon receptor interacting protein	283	TPR 2.				protein maturation by protein folding|protein targeting to mitochondrion	nucleus	signal transducer activity|transcription coactivator activity|transcription factor binding|unfolded protein binding				0						GAATGCCCAGGAGGCCCAGGC	0.667									Familial_Isolated_Pituitary_Adenoma_				4	25	---	---	---	---	PASS	C	67258318	C	C	67258318	3	2	142	1	0	0	0	0	1	0	0	0	435	1175	41	2	869	2	AIP	11	67258318	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	846904	67258318	67748198	200	50591										
GAL	51083	broad.mit.edu	37	chr11	68453099	68453099	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctggaccctgaacagcgcggGctacctgctgggcccacgta	13	15	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:68453099G>T	uc001oob.2	+	3	337	c.119G>T	c.(118-120)GGC>GTC	p.G40V		NM_015973	NP_057057	P22466	GALA_HUMAN	galanin preproprotein	40					growth hormone secretion|insulin secretion|neuropeptide signaling pathway|smooth muscle contraction	extracellular region	neuropeptide hormone activity				0	Esophageal squamous(3;7.33e-10)	Melanoma(852;0.0749)	LUAD - Lung adenocarcinoma(13;0.0514)	Kidney(183;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.000152)|LUSC - Lung squamous cell carcinoma(976;0.00154)		AACAGCGCGGGCTACCTGCTG	0.632													6	60	---	---	---	---	PASS	T	68453099	T	T	68453099	3	4	142	1	0	0	0	0	1	0	0	0	6196	1203	42	3	125	3	GAL	11	68453099	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	1194781	68453099	66553417	201	50592										
CPT1A	1374	broad.mit.edu	37	chr11	68574951	68574951	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttaccatccagatcttggtgGcacgactcatcttgccgtgc	9	13	3	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:68574951G>A	uc001oog.3	-	4	607	c.437C>T	c.(436-438)GCC>GTC	p.A146V	CPT1A_uc001oof.3_Missense_Mutation_p.A146V|CPT1A_uc009ysj.2_Missense_Mutation_p.A146V	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	146	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	GATCTTGGTGGCACGACTCAT	0.597													5	93	---	---	---	---	PASS	A	68574951	A	A	68574951	3	1	142	1	0	0	0	0	1	0	0	0	3831	1203	42	3	1988	3	CPT1A	11	68574951	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	121852	68574951	66431565	202	50593										
ANO1	55107	broad.mit.edu	37	chr11	70007429	70007429	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tggtcatcatcctcctggacGaggtgtatggctgcatagcc	12	11	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:70007429G>A	uc001opj.2	+	17	2046	c.1741G>A	c.(1741-1743)GAG>AAG	p.E581K	ANO1_uc001opk.1_Missense_Mutation_p.E523K|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.E290K	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	581	Helical; (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						CCTCCTGGACGAGGTGTATGG	0.463													19	245	---	---	---	---	PASS	A	70007429	A	A	70007429	3	1	142	1	0	0	0	0	1	0	0	0	695	1059	37	2	1807	2	ANO1	11	70007429	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	1432478	70007429	64999087	203	50594										
CTTN	2017	broad.mit.edu	37	chr11	70255985	70255985	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	caagagcatcagacccttaaGgagaaggaacttgaaacagg	11	8	1	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:70255985G>T	uc001opv.3	+	5	416	c.210G>T	c.(208-210)AAG>AAT	p.K70N	CTTN_uc001opu.2_Missense_Mutation_p.K70N|CTTN_uc001opw.3_Missense_Mutation_p.K70N	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	70						cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		AGACCCTTAAGGAGAAGGAAC	0.463													12	925	---	---	---	---	PASS	T	70255985	T	T	70255985	3	4	142	1	0	0	0	0	1	0	0	0	4044	991	35	3	220	3	CTTN	11	70255985	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	248556	70255985	64750531	204	50595										
ARRB1	408	broad.mit.edu	37	chr11	74994459	74994459	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggccacaaacaggtccttgcGaaaggtcaggcccaggacat	12	12	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:74994459G>A	uc001owe.1	-	5	448	c.226C>T	c.(226-228)CGC>TGC	p.R76C	ARRB1_uc001owf.1_Missense_Mutation_p.R76C	NM_004041	NP_004032	P49407	ARRB1_HUMAN	arrestin beta 1 isoform A	76	Interaction with CHRM2 (By similarity).|Interaction with SRC (By similarity).				G-protein coupled receptor internalization|histone H4 acetylation|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|platelet activation|positive regulation of ERK1 and ERK2 cascade|positive regulation of histone acetylation|positive regulation of Rho protein signal transduction|positive regulation of transcription from RNA polymerase II promoter|post-Golgi vesicle-mediated transport|proteasomal ubiquitin-dependent protein catabolic process|protein transport|protein ubiquitination|signal transduction|stress fiber assembly|transcription from RNA polymerase II promoter	chromatin|coated pit|cytoplasmic vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|membrane fraction|nucleus|plasma membrane|pseudopodium|soluble fraction	angiotensin receptor binding|enzyme inhibitor activity|GTPase activator activity|insulin-like growth factor receptor binding|transcription factor binding|transcription regulatory region DNA binding|ubiquitin protein ligase binding			breast(2)	2						AGGTCCTTGCGAAAGGTCAGG	0.642													39	32	---	---	---	---	PASS	A	74994459	A	A	74994459	3	1	142	1	0	0	0	0	1	0	0	0	980	1058	37	2	1078	2	ARRB1	11	74994459	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	4738474	74994459	60012057	205	50596										
ATM	472	broad.mit.edu	37	chr11	108224510	108224510	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	taggtgttgcttttgaacagGgcaaaatccttcctactcct	8	10	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:108224510G>A	uc001pkb.1	+	60	9074	c.8689G>A	c.(8689-8691)GGC>AGC	p.G2897S	ATM_uc009yxr.1_Missense_Mutation_p.G2897S|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.G1549S	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2897	PI3K/PI4K.				cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TTTTGAACAGGGCAAAATCCT	0.408			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			29	52	---	---	---	---	PASS	A	108224510	A	A	108224510	3	1	142	1	0	0	0	0	1	0	0	0	1109	1232	43	3	8923	3	ATM	11	108224510	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	33230051	108224510	26782006	206	50597										
CBL	867	broad.mit.edu	37	chr11	119155953	119155953	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgccagtacctcccacacttCgagatcttccaccaccaccg	5	19	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:119155953C>A	uc001pwe.2	+	11	1756	c.1618C>A	c.(1618-1620)CGA>AGA	p.R540R		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral	540	Pro-rich.				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		TCCCACACTTCGAGATCTTCC	0.532									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome		OREG0021401	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	68	---	---	---	---	PASS	A	119155953	A	A	119155953	2	1	142	1	0	0	0	0	0	0	0	1	2700	876	31	2		2	CBL	11	119155953	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	10931443	119155953	15850563	207	50598										
IGSF9B	22997	broad.mit.edu	37	chr11	133805642	133805642	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ccatcgattaggatgcgcacCctcagcttcaggtcgctgca	10	14	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:133805642C>G	uc001qgx.3	-	7	1068	c.837G>C	c.(835-837)AGG>AGC	p.R279S	IGSF9B_uc001qgy.1_Missense_Mutation_p.R121S	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	279	Extracellular (Potential).|Ig-like 3.					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		GGATGCGCACCCTCAGCTTCA	0.632													5	7	---	---	---	---	PASS	G	133805642	G	G	133805642	3	3	142	1	0	0	0	0	1	0	0	0	7606	622	22	4	3264	4	IGSF9B	11	133805642	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	14649689	133805642	1200874	208	50599										
GLB1L2	89944	broad.mit.edu	37	chr11	134228991	134228991	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cattgtggaactgctcctgaCttcagacaacaaggatgggc	11	10	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr11:134228991C>A	uc001qhp.2	+	7	877	c.689C>A	c.(688-690)ACT>AAT	p.T230N	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	230					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		CTGCTCCTGACTTCAGACAAC	0.612													4	78	---	---	---	---	PASS	A	134228991	A	A	134228991	3	1	142	1	0	0	0	0	1	0	0	0	6429	565	20	3	715	3	GLB1L2	11	134228991	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	423349	134228991	777525	209	50600										
C12orf5	57103	broad.mit.edu	37	chr12	4461510	4461510	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aaaaagaacagttttcccaaGgatctccaagcaactgtctg	7	10	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:4461510G>T	uc001qmp.2	+	6	545	c.466G>T	c.(466-468)GGA>TGA	p.G156*		NM_020375	NP_065108	Q9NQ88	TIGAR_HUMAN	TP53-induced glycolysis and apoptosis regulator	156						intracellular	fructose-2,6-bisphosphate 2-phosphatase activity			skin(1)	1			all cancers(3;1.15e-07)|Colorectal(7;0.00165)|OV - Ovarian serous cystadenocarcinoma(31;0.00596)|COAD - Colon adenocarcinoma(12;0.0229)|GBM - Glioblastoma multiforme(3;0.0266)|STAD - Stomach adenocarcinoma(119;0.206)			GTTTTCCCAAGGATCTCCAAG	0.363													10	33	---	---	---	---	PASS	T	4461510	T	T	4461510	4	4	142	1	0	0	0	0	0	1	0	0	1694	1001	35	3	488	3	C12orf5	12	4461510	Nonsense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08		4461510	129390385	210	50601										
ZNF705A	440077	broad.mit.edu	37	chr12	8329842	8329842	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	taattgctttcgccttagacGgcacaagatgactcacactg	8	11	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:8329842G>T	uc001qud.1	+	5	638	c.566G>T	c.(565-567)CGG>CTG	p.R189L	FAM66C_uc001que.3_5'Flank|FAM66C_uc001quf.3_5'Flank|FAM66C_uc009zgc.2_5'Flank|FAM66C_uc001qug.3_5'Flank	NM_001004328	NP_001004328	Q6ZN79	Z705A_HUMAN	zinc finger protein 705A	189	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				Kidney(36;0.0877)		CGCCTTAGACGGCACAAGATG	0.393													37	74	---	---	---	---	PASS	T	8329842	T	T	8329842	3	4	142	1	0	0	0	0	1	0	0	0	18105	1116	39	1	584	1	ZNF705A	12	8329842	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	3868332	8329842	125522053	211	50602										
GUCY2C	2984	broad.mit.edu	37	chr12	14832636	14832636	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	caatgtcttcagccactgctCggtcacccttcagcttgtag	8	14	4	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:14832636C>A	uc001rcd.2	-	6	922	c.785G>T	c.(784-786)CGA>CTA	p.R262L	GUCY2C_uc009zhz.2_Missense_Mutation_p.R262L	NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	262	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						AGCCACTGCTCGGTCACCCTT	0.418													4	63	---	---	---	---	PASS	A	14832636	A	A	14832636	3	1	142	1	0	0	0	0	1	0	0	0	6896	884	31	2	2524	2	GUCY2C	12	14832636	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	6502794	14832636	119019259	212	50603										
WBP11	51729	broad.mit.edu	37	chr12	14947584	14947584	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gaggaggaggtggaccagggGgagggccaggaggttttctg	22	5	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:14947584G>T	uc001rci.2	-	7	769	c.608C>A	c.(607-609)CCC>CAC	p.P203H		NM_016312	NP_057396	Q9Y2W2	WBP11_HUMAN	WW domain binding protein 11	203	Pro-rich.				mRNA processing|RNA splicing|rRNA processing	cytoplasm	single-stranded DNA binding|WW domain binding			ovary(1)|lung(1)	2						TGGACCAGGGGGAGGGCCAGG	0.512													7	162	---	---	---	---	PASS	T	14947584	T	T	14947584	3	4	142	1	0	0	0	0	1	0	0	0	17255	1232	43	3	1341	3	WBP11	12	14947584	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	114948	14947584	118904311	213	50604										
STK38L	23012	broad.mit.edu	37	chr12	27450705	27450705	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttcctatgagcaaccataccCgggaaagagtgactgtagcc	10	11	0	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:27450705C>T	uc001rhr.2	+	2	251	c.52C>T	c.(52-54)CGG>TGG	p.R18W	STK38L_uc001rhs.2_RNA|STK38L_uc010sjm.1_Intron	NM_015000	NP_055815	Q9Y2H1	ST38L_HUMAN	serine/threonine kinase 38 like	18					intracellular protein kinase cascade|regulation of cellular component organization	actin cytoskeleton|cytoplasm	actin binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|kidney(1)	5	Colorectal(261;0.0847)					CAACCATACCCGGGAAAGAGT	0.403													11	53	---	---	---	---	PASS	T	27450705	T	T	27450705	3	4	142	1	0	0	0	0	1	0	0	0	15303	643	23	1	54	1	STK38L	12	27450705	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	12503121	27450705	106401190	214	50605										
NELL2	4753	broad.mit.edu	37	chr12	45173639	45173639	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acactacacttacttattgcAgtcaatgtgtaaaatcaaat	4	8	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:45173639A>T	uc001rog.2	-	4	1097	c.502T>A	c.(502-504)TGC>AGC	p.C168S	NELL2_uc001rof.3_Missense_Mutation_p.C167S|NELL2_uc001roh.2_Missense_Mutation_p.C168S|NELL2_uc009zkd.2_Missense_Mutation_p.C167S|NELL2_uc010skz.1_Missense_Mutation_p.C218S|NELL2_uc010sla.1_Missense_Mutation_p.C191S|NELL2_uc001roi.1_Missense_Mutation_p.C168S|NELL2_uc010slb.1_Missense_Mutation_p.C167S|NELL2_uc001roj.2_Missense_Mutation_p.C168S	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	168	TSP N-terminal.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		TACTTATTGCAGTCAATGTGT	0.398													13	61	---	---	---	---	PASS	T	45173639	T	T	45173639	3	4	142	1	0	0	0	0	1	0	0	0	10334	188	7	5	2016	5	NELL2	12	45173639	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	17722934	45173639	88678256	215	50606										
MLL2	8085	broad.mit.edu	37	chr12	49443771	49443771	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tcgttaacgatgtcggatttGatgagagtgggtggtgtggg	18	3	0	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:49443771G>C	uc001rta.3	-	11	3600	c.3600C>G	c.(3598-3600)ATC>ATG	p.I1200M		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1200					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TGTCGGATTTGATGAGAGTGG	0.592			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			16	41	---	---	---	---	PASS	C	49443771	C	C	49443771	3	2	142	1	0	0	0	0	1	0	0	0	9621	1280	45	2	13189	2	MLL2	12	49443771	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	4270132	49443771	84408124	216	50607										
BIN2	51411	broad.mit.edu	37	chr12	51685860	51685860	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aggagagggctgggcctgggCggggccattgcaggctggta	21	8	0	1	rs150210505		TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:51685860C>A	uc001ryg.2	-	10	1082	c.1030G>T	c.(1030-1032)GCC>TCC	p.A344S	BIN2_uc009zlz.2_Missense_Mutation_p.A312S|BIN2_uc001ryh.2_Missense_Mutation_p.A220S|BIN2_uc010sng.1_Missense_Mutation_p.A318S	NM_016293	NP_057377	Q9UBW5	BIN2_HUMAN	bridging integrator 2	344						cytoplasm	protein binding			ovary(1)	1						TGGGCCTGGGCGGGGCCATTG	0.577													3	22	---	---	---	---	PASS	A	51685860	A	A	51685860	3	1	142	1	0	0	0	0	1	0	0	0	1433	768	27	1	683	1	BIN2	12	51685860	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	2242089	51685860	82166035	217	50608										
DTX3	196403	broad.mit.edu	37	chr12	58001040	58001040	+	Frame_Shift_Del	DEL	C	-	-													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tccgagcagccccacttctgCccccaggagctcgggggctc							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:58001040delC	uc001sow.1	+	5	731	c.394delC	c.(394-396)CCCfs	p.P132fs	DTX3_uc001sov.1_Frame_Shift_Del_p.P125fs|DTX3_uc001sox.1_Frame_Shift_Del_p.P125fs|DTX3_uc001soy.1_Frame_Shift_Del_p.P125fs|GEFT_uc009zpy.2_5'Flank	NM_178502	NP_848597	Q8N9I9	DTX3_HUMAN	deltex homolog 3	132	Pro-rich.				Notch signaling pathway	cytoplasm	zinc ion binding			breast(1)|central_nervous_system(1)	2	Melanoma(17;0.122)					CCCACTTCTGCCCCCAGGAGC	0.547													5	5	---	---	---	---		-	58001040	-	-	58001040	7	5	142	1	0	1	0	1	0	0	0	0	4795	739	26	0	400	0	DTX3	12	58001040	Frame_Shift_Del	DEL	C	TCGA-66-2744-01A-01D-0983-08	6315180	58001040	75850855	218	50609										
FRS2	10818	broad.mit.edu	37	chr12	69968637	69968637	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgtatgccgtgatagacatcGagagaactgctgctatgtca	11	8	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:69968637G>T	uc001suy.2	+	10	1939	c.1429G>T	c.(1429-1431)GAG>TAG	p.E477*	FRS2_uc001suz.2_Nonsense_Mutation_p.E477*|FRS2_uc009zrj.2_Nonsense_Mutation_p.E477*|FRS2_uc009zrk.2_Nonsense_Mutation_p.E477*	NM_006654	NP_006645	Q8WU20	FRS2_HUMAN	fibroblast growth factor receptor substrate 2	477					activation of MAPKK activity|activation of phospholipase C activity|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|transmembrane receptor protein tyrosine phosphatase signaling pathway	endomembrane system|endosome|integral to plasma membrane|membrane fraction	fibroblast growth factor receptor binding|insulin receptor binding|phosphatase activator activity|transmembrane receptor protein tyrosine kinase adaptor activity			prostate(1)|kidney(1)	2	Breast(13;2.15e-06)|Esophageal squamous(21;0.187)		Epithelial(6;2.94e-18)|Lung(24;9.68e-05)|OV - Ovarian serous cystadenocarcinoma(12;0.000984)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			GATAGACATCGAGAGAACTGC	0.493													5	113	---	---	---	---	PASS	T	69968637	T	T	69968637	4	4	142	1	0	0	0	0	0	1	0	0	6061	1059	37	2	1447	2	FRS2	12	69968637	Nonsense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	11967597	69968637	63883258	219	50610										
SLC41A2	84102	broad.mit.edu	37	chr12	105282956	105282956	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cccactactgttgcctgaacCtaaaatttttttcataaatc	3	11	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:105282956C>A	uc001tla.2	-	4	903	c.736_splice	c.e4-1	p.V246_splice		NM_032148	NP_115524	Q96JW4	S41A2_HUMAN	solute carrier family 41, member 2							integral to membrane|plasma membrane	magnesium ion transmembrane transporter activity			ovary(1)|skin(1)	2						TTGCCTGAACCTAAAATTTTT	0.299													6	14	---	---	---	---	PASS	A	105282956	A	A	105282956	5	1	142	1	0	0	0	0	0	0	1	0	14630	695	24	3	1014	3	SLC41A2	12	105282956	Splice_Site	SNP	C	TCGA-66-2744-01A-01D-0983-08	35314319	105282956	28568939	220	50611										
IFT81	28981	broad.mit.edu	37	chr12	110656005	110656005	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttggtcaggtaattcaggagGgtggggaggaccggctaata	17	5	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:110656005G>T	uc001tqi.2	+	19	2135	c.2005G>T	c.(2005-2007)GGT>TGT	p.G669C	IFT81_uc001tqh.2_Missense_Mutation_p.G669C|IFT81_uc001tqj.2_RNA	NM_001143779	NP_001137251	Q8WYA0	IFT81_HUMAN	intraflagellar transport 81-like isoform 1	669					cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1						AATTCAGGAGGGTGGGGAGGA	0.388													18	56	---	---	---	---	PASS	T	110656005	T	T	110656005	3	4	142	1	0	0	0	0	1	0	0	0	7565	1232	43	3	2187	3	IFT81	12	110656005	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	5373049	110656005	23195890	221	50612										
NOS1	4842	broad.mit.edu	37	chr12	117672370	117672370	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agggtccccgggaatgttacCtaaagccgtgttccgctcct	11	13	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr12:117672370C>A	uc001twm.1	-	21	3921	c.3235G>T	c.(3235-3237)GGT>TGT	p.G1079C		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1079	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GGAATGTTACCTAAAGCCGTG	0.592													5	29	---	---	---	---	PASS	A	117672370	A	A	117672370	3	1	142	1	0	0	0	0	1	0	0	0	10541	695	24	3	1105	3	NOS1	12	117672370	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	7016365	117672370	16179525	222	50613										
MPHOSPH8	54737	broad.mit.edu	37	chr13	20240600	20240600	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aattcagacatcgtacgactCgtaattgaatgtggagctga	10	7	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr13:20240600C>A	uc001umh.2	+	10	2064	c.2055C>A	c.(2053-2055)CTC>CTA	p.L685L	MPHOSPH8_uc001umg.2_Silent_p.L685L	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	685	ANK 3.				cell cycle	cytoplasm|nucleus					0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		TCGTACGACTCGTAATTGAAT	0.443													6	259	---	---	---	---	PASS	A	20240600	A	A	20240600	2	1	142	1	0	0	0	0	0	0	0	1	9727	871	31	2		2	MPHOSPH8	13	20240600	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08		20240600	94929278	223	50614										
SOHLH2	54937	broad.mit.edu	37	chr13	36747888	36747888	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tggagcacccattccagcacGtattagtcaggaattggagc	11	10	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr13:36747888G>A	uc001uvj.2	-	9	1030	c.941C>T	c.(940-942)ACG>ATG	p.T314M	SOHLH2_uc010tei.1_Missense_Mutation_p.T391M	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	314					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;4.63e-08)|Epithelial(112;2.67e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|BRCA - Breast invasive adenocarcinoma(63;0.00685)|GBM - Glioblastoma multiforme(144;0.0273)		ATTCCAGCACGTATTAGTCAG	0.483													7	72	---	---	---	---	PASS	A	36747888	A	A	36747888	3	1	142	1	0	0	0	0	1	0	0	0	14924	1145	40	1	348	1	SOHLH2	13	36747888	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	16507288	36747888	78421990	224	50615										
COG3	83548	broad.mit.edu	37	chr13	46077414	46077414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttgaaagatgaacagaagaaGgtaccttcagaagcttcatt	9	6	2	6			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr13:46077414G>T	uc001vak.2	+	14	1625	c.1524G>T	c.(1522-1524)AAG>AAT	p.K508N	COG3_uc001vaj.1_Missense_Mutation_p.K508N|COG3_uc010tfv.1_Missense_Mutation_p.K345N|COG3_uc010aci.2_Missense_Mutation_p.K284N	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3	508					ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)		AACAGAAGAAGGTACCTTCAG	0.378													5	50	---	---	---	---	PASS	T	46077414	T	T	46077414	3	4	142	1	0	0	0	0	1	0	0	0	3659	991	35	3	1578	3	COG3	13	46077414	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	9329526	46077414	69092464	225	50616										
PHF11	51131	broad.mit.edu	37	chr13	50102723	50102723	+	Frame_Shift_Del	DEL	A	-	-													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	attgagctacttcaggacttAaaacaaaccttgtgctcttt							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr13:50102723delA	uc001vdb.2	+	10	1255	c.918delA	c.(916-918)TTAfs	p.L306fs	PHF11_uc001vdc.2_Frame_Shift_Del_p.L267fs|PHF11_uc001vdd.2_RNA	NM_001040443	NP_001035533	Q9UIL8	PHF11_HUMAN	PHD finger protein 11 isoform a	306					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding				0		Lung NSC(96;2.1e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.38e-09)		TTCAGGACTTAAAACAAACCT	0.343													32	23	---	---	---	---		-	50102723	-	-	50102723	7	5	142	1	0	1	0	1	0	0	0	0	11822	359	13	0	956	0	PHF11	13	50102723	Frame_Shift_Del	DEL	A	TCGA-66-2744-01A-01D-0983-08	4025309	50102723	65067155	226	50617										
SLAIN1	122060	broad.mit.edu	37	chr13	78335084	78335084	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gttcaaggcagcagtaacatGcctttatcaaacggcttaca	8	10	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr13:78335084G>T	uc010thy.1	+	6	1087	c.1044G>T	c.(1042-1044)ATG>ATT	p.M348I	SLAIN1_uc001vkk.1_Missense_Mutation_p.M271I|SLAIN1_uc001vkl.1_Missense_Mutation_p.M227I|SLAIN1_uc010thz.1_Missense_Mutation_p.M226I|SLAIN1_uc010aex.1_Missense_Mutation_p.M113I|SLAIN1_uc010aey.1_Missense_Mutation_p.M113I|SLAIN1_uc001vkm.2_Missense_Mutation_p.M227I	NM_144595	NP_653196	Q8ND83	SLAI1_HUMAN	SLAIN motif family, member 1 B	490										ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0853)		GCAGTAACATGCCTTTATCAA	0.522													16	43	---	---	---	---	PASS	T	78335084	T	T	78335084	3	4	142	1	0	0	0	0	1	0	0	0	14365	1319	46	3	831	3	SLAIN1	13	78335084	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	28232361	78335084	36834794	227	50618										
OXGR1	27199	broad.mit.edu	37	chr13	97639814	97639815	+	Frame_Shift_Ins	INS	-	T	T													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cagcataatgatggtgctgcINStcttccaaggtctcattttg							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr13:97639814_97639815insT	uc001vmx.1	-	4	443_444	c.199_200insA	c.(199-201)AGCfs	p.S67fs	OXGR1_uc010afr.1_Frame_Shift_Ins_p.S67fs	NM_080818	NP_543008	Q96P68	OXGR1_HUMAN	oxoglutarate (alpha-ketoglutarate) receptor 1	67	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.186)			GATGGTGCTGCTCTTCCAAGGT	0.47													13	13	---	---	---	---		T	97639815	T	T	97639814	7	5	142	1	0	1	1	0	0	0	0	0	11332	797	28	0	817	0	OXGR1	13	97639814	Frame_Shift_Ins	INS	-	TCGA-66-2744-01A-01D-0983-08	19304730	97639814	17530064	228	50619										
LIG4	3981	broad.mit.edu	37	chr13	108863508	108863508	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	taaaaattccctgaagtgtcTgattttttctgcacgtcctt	6	9	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr13:108863508T>A	uc001vqn.2	-	2	382	c.109A>T	c.(109-111)AGA>TGA	p.R37*	LIG4_uc001vqo.2_Nonsense_Mutation_p.R37*|LIG4_uc010agg.1_5'UTR|LIG4_uc010agf.2_Nonsense_Mutation_p.R37*|LIG4_uc001vqp.2_Nonsense_Mutation_p.R37*	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	37					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					CTGAAGTGTCTGATTTTTTCT	0.363								NHEJ					10	17	---	---	---	---	PASS	A	108863508	A	A	108863508	4	1	142	1	0	0	0	0	0	1	0	0	8783	1588	55	5	2630	5	LIG4	13	108863508	Nonsense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	11223694	108863508	6306370	229	50620										
MYO16	23026	broad.mit.edu	37	chr13	109859134	109859134	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gccttctgaagaagccggaaGgggcctcctgcaacaggctg	14	12	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr13:109859134G>T	uc001vqt.1	+	35	5653	c.5527G>T	c.(5527-5529)GGG>TGG	p.G1843W	MYO16_uc010agk.1_Missense_Mutation_p.G1865W	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1843					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			GAAGCCGGAAGGGGCCTCCTG	0.582													21	14	---	---	---	---	PASS	T	109859134	T	T	109859134	3	4	142	1	0	0	0	0	1	0	0	0	10064	1000	35	3	5661	3	MYO16	13	109859134	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	995626	109859134	5310744	230	50621										
OR4M1	441670	broad.mit.edu	37	chr14	20248579	20248579	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cctatttgttatatttctatCcttctatttgttcatcctac	2	10	3	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr14:20248579C>A	uc010tku.1	+	1	98	c.98C>A	c.(97-99)TCC>TAC	p.S33Y		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	33	Helical; Name=1; (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)		ATATTTCTATCCTTCTATTTG	0.413													61	81	---	---	---	---	PASS	A	20248579	A	A	20248579	3	1	142	1	0	0	0	0	1	0	0	0	11075	855	30	2	100	2	OR4M1	14	20248579	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08		20248579	87100961	231	50622										
RNASE12	493901	broad.mit.edu	37	chr14	21058511	21058511	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agaacaaacccctctgtgggGgaatagtggtacctgcaggc	13	10	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr14:21058511G>T	uc001vxt.2	-	1	472	c.372C>A	c.(370-372)TCC>TCA	p.S124S	RNASE11_uc010ahv.2_5'Flank|RNASE11_uc010ahx.2_5'Flank|RNASE11_uc010ahw.2_5'Flank|RNASE11_uc001vxs.2_5'Flank|uc001vxu.1_5'Flank	NM_001024822	NP_001019993	Q5GAN4	RNS12_HUMAN	ribonuclease, RNase A family, 12 (non-active)	124						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(95;0.00238)		Epithelial(56;1.85e-06)|all cancers(55;1.46e-05)	GBM - Glioblastoma multiforme(265;0.013)		CCTCTGTGGGGGAATAGTGGT	0.458													7	98	---	---	---	---	PASS	T	21058511	T	T	21058511	2	4	142	1	0	0	0	0	0	0	0	1	13402	1219	43	3		3	RNASE12	14	21058511	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	809932	21058511	86291029	232	50623										
CDH24	64403	broad.mit.edu	37	chr14	23519129	23519129	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggtctggatggccacttgcaCgcgcgaggcctgtgcagaac	15	12	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr14:23519129C>T	uc001wil.2	-	10	1761	c.1501G>A	c.(1501-1503)GTG>ATG	p.V501M	CDH24_uc001wik.3_RNA|CDH24_uc010akf.2_Missense_Mutation_p.V463M	NM_022478	NP_071923	Q86UP0	CAD24_HUMAN	cadherin-like 24 isoform 1	501	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|cell-cell adhesion|homophilic cell adhesion	cell-cell junction|cell-cell junction|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|delta-catenin binding			central_nervous_system(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		GCCACTTGCACGCGCGAGGCC	0.542													41	38	---	---	---	---	PASS	T	23519129	T	T	23519129	3	4	142	1	0	0	0	0	1	0	0	0	3109	536	19	1	974	1	CDH24	14	23519129	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	2460618	23519129	83830411	233	50624										
PRKD1	5587	broad.mit.edu	37	chr14	30068938	30068938	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agatcatttccagcatgtctCcatggagtttttccataaca	6	10	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr14:30068938C>G	uc001wqh.2	-	14	2172	c.1991G>C	c.(1990-1992)GGA>GCA	p.G664A		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	664	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		CAGCATGTCTCCATGGAGTTT	0.378													9	39	---	---	---	---	PASS	G	30068938	G	G	30068938	3	3	142	1	0	0	0	0	1	0	0	0	12518	855	30	2	767	2	PRKD1	14	30068938	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	6549809	30068938	77280602	234	50625										
LRFN5	145581	broad.mit.edu	37	chr14	42357069	42357069	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aagcagtagtaatggtgataCtaaattgagtcaagataaaa	9	3	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr14:42357069C>A	uc001wvm.2	+	3	2439	c.1241C>A	c.(1240-1242)ACT>AAT	p.T414N	LRFN5_uc010ana.2_Missense_Mutation_p.T414N	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	414	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AATGGTGATACTAAATTGAGT	0.353										HNSCC(30;0.082)			9	16	---	---	---	---	PASS	A	42357069	A	A	42357069	3	1	142	1	0	0	0	0	1	0	0	0	8941	565	20	3	1243	3	LRFN5	14	42357069	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	12288131	42357069	64992471	235	50626										
GPR132	29933	broad.mit.edu	37	chr14	105518036	105518036	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cggccccgactctccagcgcGtacaccacggccacgaagcg	11	19	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr14:105518036G>T	uc001yqd.2	-	4	1337	c.438C>A	c.(436-438)TAC>TAA	p.Y146*	GPR132_uc001yqc.2_5'UTR|GPR132_uc001yqe.2_Nonsense_Mutation_p.Y137*	NM_013345	NP_037477	Q9UNW8	GP132_HUMAN	G protein-coupled receptor 132	146	Cytoplasmic (Potential).				response to stress	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.0953)|Melanoma(154;0.155)|all_epithelial(191;0.219)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.02)|all cancers(159;0.0419)|OV - Ovarian serous cystadenocarcinoma(161;0.0521)		TCTCCAGCGCGTACACCACGG	0.622													19	28	---	---	---	---	PASS	T	105518036	T	T	105518036	4	4	142	1	0	0	0	0	0	1	0	0	6642	1140	40	1	708	1	GPR132	14	105518036	Nonsense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	63160967	105518036	1831504	236	50627										
PYGO1	26108	broad.mit.edu	37	chr15	55838299	55838299	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acatctttgtcagccatacaGgtatcacagccccatactgc	6	14	3	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr15:55838299G>T	uc010bfl.1	-	3	1238	c.1182C>A	c.(1180-1182)ACC>ACA	p.T394T	PYGO1_uc002adf.1_Silent_p.T394T	NM_015617	NP_056432	Q9Y3Y4	PYGO1_HUMAN	pygopus homolog 1	394	PHD-type.				Wnt receptor signaling pathway	nucleus	zinc ion binding			ovary(1)|skin(1)	2				all cancers(107;0.0131)|GBM - Glioblastoma multiforme(80;0.18)		CAGCCATACAGGTATCACAGC	0.443													13	51	---	---	---	---	PASS	T	55838299	T	T	55838299	2	4	142	1	0	0	0	0	0	0	0	1	12863	987	35	3		3	PYGO1	15	55838299	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08		55838299	46693093	237	50628										
ALDH1A2	8854	broad.mit.edu	37	chr15	58256106	58256106	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gggaccctgctcagtggtggGgtcaaagggactccccacta	14	12	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr15:58256106G>T	uc002aex.2	-	9	1121	c.1063C>A	c.(1063-1065)CCC>ACC	p.P355T	ALDH1A2_uc002aey.2_Missense_Mutation_p.P317T|ALDH1A2_uc010ugv.1_Missense_Mutation_p.P334T|ALDH1A2_uc010ugw.1_Missense_Mutation_p.P326T|ALDH1A2_uc002aew.2_Missense_Mutation_p.P259T	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	355					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	TCAGTGGTGGGGTCAAAGGGA	0.527													21	32	---	---	---	---	PASS	T	58256106	T	T	58256106	3	4	142	1	0	0	0	0	1	0	0	0	491	1232	43	3	513	3	ALDH1A2	15	58256106	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	2417807	58256106	44275286	238	50629										
CILP	8483	broad.mit.edu	37	chr15	65489533	65489533	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	actggctcgacggcagctgcCctgggggatgaccttcacca	13	14	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr15:65489533C>A	uc002aon.2	-	9	3272	c.3091G>T	c.(3091-3093)GGC>TGC	p.G1031C		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	1031					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						CGGCAGCTGCCCTGGGGGATG	0.577													13	32	---	---	---	---	PASS	A	65489533	A	A	65489533	3	1	142	1	0	0	0	0	1	0	0	0	3429	623	22	3	467	3	CILP	15	65489533	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	7233427	65489533	37041859	239	50630										
TLE3	7090	broad.mit.edu	37	chr15	70347520	70347520	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acggcacacaccacctccccGtggctgagtgtgttgatctg	11	14	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr15:70347520G>A	uc002asm.2	-	15	2574	c.1455C>T	c.(1453-1455)CAC>CAT	p.H485H	TLE3_uc002ask.2_Silent_p.H412H|TLE3_uc002asl.2_Silent_p.H485H|TLE3_uc010ukd.1_Silent_p.H475H|TLE3_uc010bik.1_Silent_p.H66H|TLE3_uc010bil.1_Silent_p.H482H|TLE3_uc002asn.2_Silent_p.H473H|TLE3_uc002asp.2_Silent_p.H477H|TLE3_uc002aso.2_Silent_p.H480H	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	485	WD 1.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						CCACCTCCCCGTGGCTGAGTG	0.662													16	37	---	---	---	---	PASS	A	70347520	A	A	70347520	2	1	142	1	0	0	0	0	0	0	0	1	15937	1136	40	1		1	TLE3	15	70347520	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	4857987	70347520	32183872	240	50631										
FLYWCH2	114984	broad.mit.edu	37	chr16	2946558	2946558	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ccggcagcccccaggaagccCagaaagttctccaaactggt	10	15	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr16:2946558C>T	uc002csa.2	+	3	479	c.108C>T	c.(106-108)CCC>CCT	p.P36P	FLYWCH2_uc010uwj.1_Silent_p.P36P|FLYWCH2_uc010uwk.1_Silent_p.P36P	NM_138439	NP_612448	Q96CP2	FWCH2_HUMAN	FLYWCH family member 2	36											0						CCAGGAAGCCCAGAAAGTTCT	0.642													15	75	---	---	---	---	PASS	T	2946558	T	T	2946558	2	4	142	1	0	0	0	0	0	0	0	1	5948	581	21	3		3	FLYWCH2	16	2946558	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08		2946558	87408195	241	50632										
CIITA	4261	broad.mit.edu	37	chr16	10996609	10996609	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	actctgccccatgggctctgGcaaatctctgaggctggaac	11	13	3	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr16:10996609G>A	uc002dai.3	+	8	856	c.723G>A	c.(721-723)TGG>TGA	p.W241*	CIITA_uc002daj.3_Nonsense_Mutation_p.W242*|CIITA_uc002dak.3_Nonsense_Mutation_p.W192*|CIITA_uc002dag.2_Nonsense_Mutation_p.W241*|CIITA_uc002dah.2_Nonsense_Mutation_p.W193*|CIITA_uc010bup.1_Nonsense_Mutation_p.W241*	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	241					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						ATGGGCTCTGGCAAATCTCTG	0.582			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								10	51	---	---	---	---	PASS	A	10996609	A	A	10996609	4	1	142	1	0	0	0	0	0	1	0	0	3428	1212	42	3	753	3	CIITA	16	10996609	Nonsense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	8050051	10996609	79358144	242	50633										
RRN3	54700	broad.mit.edu	37	chr16	15180227	15180227	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aaatggtgaacttactaataTaatactgataagttgctcaa	6	5	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr16:15180227T>C	uc002dde.2	-	4	405	c.337A>G	c.(337-339)ATA>GTA	p.I113V	PDXDC1_uc002ddc.2_Intron|RRN3_uc010uzp.1_Missense_Mutation_p.I14V|RRN3_uc010uzq.1_Intron|RRN3_uc002ddf.1_Missense_Mutation_p.I113V	NM_018427	NP_060897	Q9NYV6	RRN3_HUMAN	RRN3 RNA polymerase I transcription factor	113					regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm				ovary(1)	1						CTTACTAATATAATACTGATA	0.299													12	40	---	---	---	---	PASS	C	15180227	C	C	15180227	3	2	142	1	0	0	0	0	1	0	0	0	13684	1406	49	5	1678	5	RRN3	16	15180227	Missense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	4183618	15180227	75174526	243	50634										
ANKS4B	257629	broad.mit.edu	37	chr16	21245162	21245162	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggatgaagacggcatgactcCtactctcttggcagcctacc	10	13	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr16:21245162C>A	uc010bwp.1	+	1	147	c.104C>A	c.(103-105)CCT>CAT	p.P35H		NM_145865	NP_665872	Q8N8V4	ANS4B_HUMAN	harmonin-interacting ankyrin-repeat containing	35	ANK 1.									ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0565)		GGCATGACTCCTACTCTCTTG	0.463													7	168	---	---	---	---	PASS	A	21245162	A	A	21245162	3	1	142	1	0	0	0	0	1	0	0	0	691	681	24	3	106	3	ANKS4B	16	21245162	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	6064935	21245162	69109591	244	50635										
PLK1	5347	broad.mit.edu	37	chr16	23695281	23695281	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttaacgagctgcttaatgacGagttctttacttctggctat	8	8	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr16:23695281G>T	uc002dlz.1	+	5	960	c.907G>T	c.(907-909)GAG>TAG	p.E303*		NM_005030	NP_005021	P53350	PLK1_HUMAN	polo-like kinase 1	303	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G2/M transition DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic prophase|negative regulation of cyclin-dependent protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|protein localization to chromatin|protein ubiquitination|regulation of mitotic anaphase|regulation of protein binding	centrosome|condensed nuclear chromosome outer kinetochore|cytosol|nucleoplasm|spindle microtubule|spindle midzone|spindle pole	anaphase-promoting complex binding|ATP binding|polo kinase kinase activity|protein kinase binding			lung(1)|skin(1)	2				GBM - Glioblastoma multiforme(48;0.0156)		GCTTAATGACGAGTTCTTTAC	0.567													6	280	---	---	---	---	PASS	T	23695281	T	T	23695281	4	4	142	1	0	0	0	0	0	1	0	0	12094	1059	37	2	925	2	PLK1	16	23695281	Nonsense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	2450119	23695281	66659472	245	50636										
SRCAP	10847	broad.mit.edu	37	chr16	30745064	30745064	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggaatcccaccatggatgctCaggcccaggaccgctgtcac	11	15	2	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr16:30745064C>A	uc002dze.1	+	29	6824	c.6439C>A	c.(6439-6441)CAG>AAG	p.Q2147K	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.Q1942K	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2147	Helicase C-terminal.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CATGGATGCTCAGGCCCAGGA	0.527													15	50	---	---	---	---	PASS	A	30745064	A	A	30745064	3	1	142	1	0	0	0	0	1	0	0	0	15134	827	29	2	6545	2	SRCAP	16	30745064	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	7049783	30745064	59609689	246	50637										
FAM192A	80011	broad.mit.edu	37	chr16	57207687	57207687	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tctcccattcttcttgcctcCttttgcgccgttcatctagt	5	15	5	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr16:57207687C>A	uc010vhk.1	-	2	339	c.80G>T	c.(79-81)AGG>ATG	p.R27M	FAM192A_uc002ekz.3_Missense_Mutation_p.R27M|FAM192A_uc002ekv.3_Translation_Start_Site|FAM192A_uc002ekw.3_Missense_Mutation_p.R27M|FAM192A_uc002ekx.3_Missense_Mutation_p.R27M|FAM192A_uc002eky.3_Missense_Mutation_p.R27M|FAM192A_uc010ccx.2_Missense_Mutation_p.R27M	NM_024946	NP_079222	Q9GZU8	F192A_HUMAN	NEFA-interacting nuclear protein NIP30	27						nucleus					0						TTCTTGCCTCCTTTTGCGCCG	0.363													7	80	---	---	---	---	PASS	A	57207687	A	A	57207687	3	1	142	1	0	0	0	0	1	0	0	0	5523	681	24	3	708	3	FAM192A	16	57207687	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	26462623	57207687	33147066	247	50638										
JPH3	57338	broad.mit.edu	37	chr16	87723839	87723839	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgctgaggatggagacgcatCcccagaaaagacgctacagc	12	11	0	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr16:87723839C>T	uc002fkd.2	+	4	2127	c.1873C>T	c.(1873-1875)CCC>TCC	p.P625S	JPH3_uc010vou.1_RNA	NM_020655	NP_065706	Q8WXH2	JPH3_HUMAN	junctophilin 3	625	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane	protein binding			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0287)		GGAGACGCATCCCCAGAAAAG	0.657													4	8	---	---	---	---	PASS	T	87723839	T	T	87723839	3	4	142	1	0	0	0	0	1	0	0	0	7962	855	30	2	1887	2	JPH3	16	87723839	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	30516152	87723839	2630914	248	50639										
NLRP1	22861	broad.mit.edu	37	chr17	5421068	5421068	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gaattgtcctggatttacctGgtttcaccaaggcctcccac	8	13	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:5421068G>T	uc002gci.2	-	15	4610	c.4055C>A	c.(4054-4056)CCA>CAA	p.P1352Q	NLRP1_uc002gcg.1_Missense_Mutation_p.P1356Q|NLRP1_uc002gck.2_Missense_Mutation_p.P1308Q|NLRP1_uc002gcj.2_Missense_Mutation_p.P1322Q|NLRP1_uc002gcl.2_Missense_Mutation_p.P1278Q|NLRP1_uc002gch.3_Missense_Mutation_p.P1308Q	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1352					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				GGATTTACCTGGTTTCACCAA	0.398													5	69	---	---	---	---	PASS	T	5421068	T	T	5421068	3	4	142	1	0	0	0	0	1	0	0	0	10471	1348	47	3	441	3	NLRP1	17	5421068	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08		5421068	75774142	249	50640										
NEURL4	84461	broad.mit.edu	37	chr17	7224163	7224163	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cccgtgtggccgtacggttcCcattagacaaaaggatattc	10	11	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:7224163C>A	uc002gga.1	-	21	3447	c.3440G>T	c.(3439-3441)GGG>GTG	p.G1147V	NEURL4_uc002gfy.1_5'Flank|GPS2_uc002gfz.1_5'Flank|NEURL4_uc002ggb.1_Missense_Mutation_p.G1145V	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	1147	NHR 6.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						CGTACGGTTCCCATTAGACAA	0.562													7	150	---	---	---	---	PASS	A	7224163	A	A	7224163	3	1	142	1	0	0	0	0	1	0	0	0	10347	623	22	3	1284	3	NEURL4	17	7224163	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	1803095	7224163	73971047	250	50641										
EIF4A1	1973	broad.mit.edu	37	chr17	7480801	7480801	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gttctacatcaacgtggaacGagaggtggggcccagtgcag	15	9	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:7480801G>T	uc002gho.1	+	15	2089	c.764G>T	c.(763-765)CGA>CTA	p.R255L	EIF4A1_uc002ghr.1_Missense_Mutation_p.R255L|EIF4A1_uc002ghq.1_Missense_Mutation_p.R255L|EIF4A1_uc002ghp.1_Missense_Mutation_p.R255L|SNORA67_uc010cml.1_5'Flank|CD68_uc002ghv.2_5'Flank|CD68_uc002ghu.2_5'Flank	NM_001416	NP_001407	P60842	IF4A1_HUMAN	eukaryotic translation initiation factor 4A	255	Helicase C-terminal.				nuclear-transcribed mRNA poly(A) tail shortening	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA cap binding|translation initiation factor activity			ovary(1)	1						AACGTGGAACGAGAGGTGGGG	0.557													4	39	---	---	---	---	PASS	T	7480801	T	T	7480801	3	4	142	1	0	0	0	0	1	0	0	0	5024	1058	37	2	790	2	EIF4A1	17	7480801	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	256638	7480801	73714409	251	50642										
TP53	7157	broad.mit.edu	37	chr17	7578407	7578407	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gcgctcatggtgggggcagcGcctcacaacctccgtcatgt	13	14	3	0	rs138729528		TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:7578407G>C	uc002gim.2	-	5	717	c.523C>G	c.(523-525)CGC>GGC	p.R175G	TP53_uc002gig.1_Missense_Mutation_p.R175G|TP53_uc002gih.2_Missense_Mutation_p.R175G|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R43G|TP53_uc010cng.1_Missense_Mutation_p.R43G|TP53_uc002gii.1_Missense_Mutation_p.R43G|TP53_uc010cnh.1_Missense_Mutation_p.R175G|TP53_uc010cni.1_Missense_Mutation_p.R175G|TP53_uc002gij.2_Missense_Mutation_p.R175G|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R82G|TP53_uc002gio.2_Missense_Mutation_p.R43G|TP53_uc010vug.1_Missense_Mutation_p.R136G	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	175	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R175H(721)|p.R175L(19)|p.R175C(12)|p.R175G(11)|p.0?(7)|p.R175P(5)|p.R175S(5)|p.R175R(4)|p.R174fs*24(3)|p.R175_E180delRCPHHE(3)|p.R175fs*5(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V173fs*69(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R174_H178>S(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R175fs*6(1)|p.R42fs*24(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R175fs*72(1)|p.R174fs*70(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.S149fs*72(1)|p.R174_E180>K(1)|p.R174fs*3(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)		TGGGGGCAGCGCCTCACAACC	0.657		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)			10	25	---	---	---	---	PASS	C	7578407	C	C	7578407	3	2	142	1	0	0	0	0	1	0	0	0	16378	1087	38	4	775	4	TP53	17	7578407	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	97606	7578407	73616803	252	50643										
SCO1	6341	broad.mit.edu	37	chr17	10596167	10596167	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agccaaaataaatcaataacCactgacccaagtagtccttg	5	11	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:10596167C>A	uc002gmr.3	-	3	537	c.476G>T	c.(475-477)TGG>TTG	p.W159L	SCO1_uc002gms.3_Intron	NM_004589	NP_004580	O75880	SCO1_HUMAN	cytochrome oxidase deficient homolog 1	159					cellular copper ion homeostasis|copper ion transport|generation of precursor metabolites and energy|respiratory chain complex IV assembly	mitochondrial inner membrane	copper ion binding				0						AATCAATAACCACTGACCCAA	0.458													5	56	---	---	---	---	PASS	A	10596167	A	A	10596167	3	1	142	1	0	0	0	0	1	0	0	0	13931	595	21	3	445	3	SCO1	17	10596167	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	3017760	10596167	70599043	253	50644										
MYO15A	51168	broad.mit.edu	37	chr17	18023401	18023401	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aacccgtatgcccacgccatGgatgacatcgccgagctgga	11	14	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:18023401G>A	uc010vxh.1	+	2	1625	c.1287G>A	c.(1285-1287)ATG>ATA	p.M429I		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	429	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCCACGCCATGGATGACATCG	0.652													17	21	---	---	---	---	PASS	A	18023401	A	A	18023401	3	1	142	1	0	0	0	0	1	0	0	0	10063	1348	47	3	1289	3	MYO15A	17	18023401	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	7427234	18023401	63171809	254	50645										
CCDC144NL	339184	broad.mit.edu	37	chr17	20799191	20799191	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tccaccagctgtaggagaagCccaaggaccactggtccccc	10	16	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:20799191C>A	uc002gyf.2	-	1	263	c.143G>T	c.(142-144)GGC>GTC	p.G48V	uc002gyg.1_Intron|uc002gyh.1_Intron	NM_001004306	NP_001004306	Q6NUI1	C144L_HUMAN	coiled-coil domain containing 144 family,	48											0						GTAGGAGAAGCCCAAGGACCA	0.617													19	64	---	---	---	---	PASS	A	20799191	A	A	20799191	3	1	142	1	0	0	0	0	1	0	0	0	2779	739	26	3	538	3	CCDC144NL	17	20799191	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	2775790	20799191	60396019	255	50646										
MMP28	79148	broad.mit.edu	37	chr17	34100371	34100371	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agatgctcaggccagttcacCaggcggtaggagaggtgctg	16	9	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:34100371C>A	uc002hjy.1	-	4	676	c.417G>T	c.(415-417)CTG>CTT	p.L139L	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	139					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GCCAGTTCACCAGGCGGTAGG	0.637													5	2	---	---	---	---	PASS	A	34100371	A	A	34100371	2	1	142	1	0	0	0	0	0	0	0	1	9665	581	21	3		3	MMP28	17	34100371	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	13301180	34100371	47094839	256	50647										
GGNBP2	79893	broad.mit.edu	37	chr17	34937844	34937844	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggaattttcagaagaggaacGagtaagagaactcaagcaag	12	5	2	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:34937844G>T	uc002hnb.2	+	9	1340	c.1091G>T	c.(1090-1092)CGA>CTA	p.R364L	GGNBP2_uc002hna.2_Missense_Mutation_p.R364L|GGNBP2_uc002hnc.1_Missense_Mutation_p.R193L	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	364					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		GAAGAGGAACGAGTAAGAGAA	0.368													4	83	---	---	---	---	PASS	T	34937844	T	T	34937844	3	4	142	1	0	0	0	0	1	0	0	0	6359	1058	37	2	1121	2	GGNBP2	17	34937844	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	837473	34937844	46257366	257	50648										
KRT9	3857	broad.mit.edu	37	chr17	39724766	39724766	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gcagaactaccaaccttgctGagctgagactgcagctcaat	9	12	1	3	rs139934315		TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:39724766G>T	uc002hxe.3	-	5	1230	c.1164C>A	c.(1162-1164)CTC>CTA	p.L388L	JUP_uc010wfs.1_Intron	NM_000226	NP_000217	P35527	K1C9_HUMAN	keratin 9	388	Rod.|Coil 2.				intermediate filament organization|skin development		protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Breast(137;0.000307)				CAACCTTGCTGAGCTGAGACT	0.552													7	239	---	---	---	---	PASS	T	39724766	T	T	39724766	2	4	142	1	0	0	0	0	0	0	0	1	8501	1277	45	2		2	KRT9	17	39724766	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	4786922	39724766	41470444	258	50649										
AARSD1	80755	broad.mit.edu	37	chr17	41103875	41103875	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cagtaagaagagtccaccacCtttctcatcgcccacagtta	6	14	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:41103875C>G	uc002icc.2	-	11	1048	c.1045G>C	c.(1045-1047)GGT>CGT	p.G349R	AARSD1_uc002icd.2_Missense_Mutation_p.G462R|AARSD1_uc002ice.2_Missense_Mutation_p.G432R|AARSD1_uc002icf.2_Missense_Mutation_p.G523R|AARSD1_uc010whg.1_Missense_Mutation_p.G523R	NM_025267	NP_079543	Q9BTE6	AASD1_HUMAN	alanyl-tRNA synthetase domain containing 1	349					alanyl-tRNA aminoacylation	cytoplasm	alanine-tRNA ligase activity|ATP binding|metal ion binding|nucleic acid binding				0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		AGTCCACCACCTTTCTCATCG	0.522													15	19	---	---	---	---	PASS	G	41103875	G	G	41103875	3	3	142	1	0	0	0	0	1	0	0	0	21	681	24	4	201	4	AARSD1	17	41103875	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	1379109	41103875	40091335	259	50650										
OR4D2	124538	broad.mit.edu	37	chr17	56247485	56247485	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgggaggctttgtccactctAttgtccagctggctctgatg	12	10	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:56247485A>C	uc010wnp.1	+	1	469	c.469A>C	c.(469-471)ATT>CTT	p.I157L		NM_001004707	NP_001004707	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						TGTCCACTCTATTGTCCAGCT	0.567													14	54	---	---	---	---	PASS	C	56247485	C	C	56247485	3	2	142	1	0	0	0	0	1	0	0	0	11056	449	16	5	471	5	OR4D2	17	56247485	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	15143610	56247485	24947725	260	50651										
TBC1D16	125058	broad.mit.edu	37	chr17	77925290	77925290	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggtgcagtatttccactgctGgaacacgtcagacagcttgt	11	10	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:77925290G>T	uc002jxj.2	-	5	1164	c.1048C>A	c.(1048-1050)CAG>AAG	p.Q350K	TBC1D16_uc002jxh.2_5'Flank|TBC1D16_uc002jxi.2_5'Flank|TBC1D16_uc002jxk.1_5'Flank	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	350						intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			TTCCACTGCTGGAACACGTCA	0.632													5	79	---	---	---	---	PASS	T	77925290	T	T	77925290	3	4	142	1	0	0	0	0	1	0	0	0	15602	1357	47	3	1287	3	TBC1D16	17	77925290	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	21677805	77925290	3269920	261	50652										
CCDC57	284001	broad.mit.edu	37	chr17	80091962	80091963	+	Frame_Shift_Ins	INS	-	A	A													0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgttacctgagatgtaaaatINSggggctgcacctgtcccaaa							TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr17:80091962_80091963insA	uc002kdy.2	-	2	162_163	c.148_149insT	c.(148-150)CATfs	p.H50fs	CCDC57_uc002kdx.1_Intron			Q2TAC2	CCD57_HUMAN	SubName: Full=cDNA FLJ23754 fis, clone HEP17288;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			AGATGTAAAATGGGGCTGCACC	0.5													4	2	---	---	---	---		A	80091963	A	A	80091962	7	5	142	1	0	1	1	0	0	0	0	0	2827	1479	51	0		0	CCDC57	17	80091962	Frame_Shift_Ins	INS	-	TCGA-66-2744-01A-01D-0983-08	2166672	80091962	1103248	262	50653										
METTL4	64863	broad.mit.edu	37	chr18	2539011	2539011	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gatcatagtcagcttccagaCtccacagcaataaaataatc	5	11	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr18:2539011C>A	uc002klh.3	-	9	2187	c.1407G>T	c.(1405-1407)GAG>GAT	p.E469D	METTL4_uc010dkj.2_3'UTR	NM_022840	NP_073751	Q8N3J2	METL4_HUMAN	methyltransferase like 4	469					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		methyltransferase activity|nucleic acid binding			kidney(1)|skin(1)	2						AGCTTCCAGACTCCACAGCAA	0.353													14	40	---	---	---	---	PASS	A	2539011	A	A	2539011	3	1	142	1	0	0	0	0	1	0	0	0	9502	564	20	3	15	3	METTL4	18	2539011	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08		2539011	75538237	263	50654										
KLHL14	57565	broad.mit.edu	37	chr18	30350180	30350180	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gacgagcagccctgcagcacCaggttgttgatggcccgggg	16	12	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr18:30350180C>A	uc002kxm.1	-	2	763	c.375G>T	c.(373-375)CTG>CTT	p.L125L		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	125	BTB.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						CCTGCAGCACCAGGTTGTTGA	0.567													5	64	---	---	---	---	PASS	A	30350180	A	A	30350180	2	1	142	1	0	0	0	0	0	0	0	1	8370	581	21	3		3	KLHL14	18	30350180	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08	27811169	30350180	47727068	264	50655										
DTNA	1837	broad.mit.edu	37	chr18	32438301	32438301	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tagagcatgaacaagcttctCagcccacgccagagaaggca	10	12	1	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr18:32438301C>G	uc010dmn.1	+	15	1505	c.1504C>G	c.(1504-1506)CAG>GAG	p.Q502E	DTNA_uc010xbx.1_Missense_Mutation_p.Q252E|DTNA_uc002kxv.3_Missense_Mutation_p.Q445E|DTNA_uc002kxw.2_Missense_Mutation_p.Q445E|DTNA_uc010dmj.2_Missense_Mutation_p.Q442E|DTNA_uc002kxz.2_Missense_Mutation_p.Q442E|DTNA_uc002kxy.2_Missense_Mutation_p.Q442E|DTNA_uc010dml.2_Missense_Mutation_p.Q442E|DTNA_uc002kyb.3_Missense_Mutation_p.Q499E|DTNA_uc010dmm.2_Missense_Mutation_p.Q502E|DTNA_uc010xby.1_Missense_Mutation_p.Q192E|DTNA_uc010dmo.2_Missense_Mutation_p.Q124E|DTNA_uc002kyd.3_Missense_Mutation_p.Q124E|DTNA_uc010xbz.1_Missense_Mutation_p.Q211E|DTNA_uc010xca.1_Missense_Mutation_p.Q154E|DTNA_uc002kye.2_Missense_Mutation_p.Q150E	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	502	Potential.				neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						ACAAGCTTCTCAGCCCACGCC	0.512													20	22	---	---	---	---	PASS	G	32438301	G	G	32438301	3	3	142	1	0	0	0	0	1	0	0	0	4788	827	29	2	1597	2	DTNA	18	32438301	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	2088121	32438301	45638947	265	50656										
ALPK2	115701	broad.mit.edu	37	chr18	56149153	56149153	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aatgctcggctgcttctgttTctggttgttgttttgaaggg	13	6	2	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr18:56149153T>A	uc002lhj.3	-	13	6629	c.6415A>T	c.(6415-6417)AAA>TAA	p.K2139*		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	2139							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						TGCTTCTGTTTCTGGTTGTTG	0.428													15	41	---	---	---	---	PASS	A	56149153	A	A	56149153	4	1	142	1	0	0	0	0	0	1	0	0	545	1792	62	5	101	5	ALPK2	18	56149153	Nonsense_Mutation	SNP	T	TCGA-66-2744-01A-01D-0983-08	23710852	56149153	21928095	266	50657										
CDH20	28316	broad.mit.edu	37	chr18	59174738	59174738	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ggatggagatggtgcagatgCctttgacattagcacagatc	13	7	0	4	rs148517362		TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr18:59174738C>A	uc010dps.1	+	5	974	c.962C>A	c.(961-963)GCC>GAC	p.A321D	CDH20_uc002lif.2_Missense_Mutation_p.A315D	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	321	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				GGTGCAGATGCCTTTGACATT	0.423													12	33	---	---	---	---	PASS	A	59174738	A	A	59174738	3	1	142	1	0	0	0	0	1	0	0	0	3106	739	26	3	980	3	CDH20	18	59174738	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	3025585	59174738	18902510	267	50658										
SAFB2	9667	broad.mit.edu	37	chr19	5621405	5621405	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tcttgcccctcttctttaacCgcctattagggagagatgag	9	11	3	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:5621405C>T	uc002mcd.2	-	2	401	c.189G>A	c.(187-189)GCG>GCA	p.A63A	SAFB_uc010xiq.1_5'Flank|SAFB_uc002mcf.2_5'Flank|SAFB_uc002mcg.2_5'Flank|SAFB_uc002mce.3_5'Flank|SAFB_uc010xir.1_5'Flank|SAFB_uc010xis.1_5'Flank|SAFB_uc010xit.1_5'Flank|SAFB_uc010xiu.1_5'Flank|SAFB2_uc010xio.1_Silent_p.A63A|SAFB2_uc010xip.1_RNA	NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	63	SAP.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		CTTCTTTAACCGCCTATTAGG	0.443													13	397	---	---	---	---	PASS	T	5621405	T	T	5621405	2	4	142	1	0	0	0	0	0	0	0	1	13807	639	23	1		1	SAFB2	19	5621405	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08		5621405	53507578	268	50659										
MUC16	94025	broad.mit.edu	37	chr19	9026256	9026256	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	agtgcgacgcatgtcctcctCgtactgcaggttggtgatgg	14	10	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:9026256C>A	uc002mkp.2	-	14	36934	c.36730G>T	c.(36730-36732)GAG>TAG	p.E12244*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12246	SEA 2.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATGTCCTCCTCGTACTGCAGG	0.532													6	180	---	---	---	---	PASS	A	9026256	A	A	9026256	4	1	142	1	0	0	0	0	0	1	0	0	9973	893	31	2	7077	2	MUC16	19	9026256	Nonsense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	3404851	9026256	50102727	269	50660										
MUC16	94025	broad.mit.edu	37	chr19	9072230	9072230	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atcttcactaggccagaggtGagaagtgaagtcataggaga	13	6	3	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:9072230G>C	uc002mkp.2	-	3	15420	c.15216C>G	c.(15214-15216)CTC>CTG	p.L5072L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5074	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGCCAGAGGTGAGAAGTGAAG	0.478													28	98	---	---	---	---	PASS	C	9072230	C	C	9072230	2	2	142	1	0	0	0	0	0	0	0	1	9973	1277	45	2		2	MUC16	19	9072230	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	45974	9072230	50056753	270	50661										
ZNF625	90589	broad.mit.edu	37	chr19	12256633	12256633	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atacaaactgagacacatcaAggctttcccacaaaagttac	5	11	1	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:12256633A>C	uc002mth.2	-	4	750	c.400T>G	c.(400-402)TTG>GTG	p.L134V	ZNF20_uc002mtg.1_Intron|ZNF625_uc010dyn.1_RNA|ZNF625_uc010dyo.1_Missense_Mutation_p.L168V	NM_145233	NP_660276	Q96I27	ZN625_HUMAN	zinc finger protein 625	134	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGACACATCAAGGCTTTCCCA	0.408													39	41	---	---	---	---	PASS	C	12256633	C	C	12256633	3	2	142	1	0	0	0	0	1	0	0	0	18046	69	3	5	524	5	ZNF625	19	12256633	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	3184403	12256633	46872350	271	50662										
FBXW9	84261	broad.mit.edu	37	chr19	12800824	12800824	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cggcggtccaccaccaccagGgtgtggtcctcgctgcctga	13	16	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:12800824G>A	uc010dyx.2	-	6	1044	c.1044C>T	c.(1042-1044)ACC>ACT	p.T348T	FBXW9_uc010xmp.1_RNA|uc002mul.1_3'UTR|FBXW9_uc002mum.1_Silent_p.T328T|FBXW9_uc002mun.1_Silent_p.T165T	NM_032301	NP_115677	Q5XUX1	FBXW9_HUMAN	F-box and WD-40 domain protein 9	358	WD 4.						protein binding			ovary(1)	1						CCACCACCAGGGTGTGGTCCT	0.682													9	18	---	---	---	---	PASS	A	12800824	A	A	12800824	2	1	142	1	0	0	0	0	0	0	0	1	5771	1219	43	3		3	FBXW9	19	12800824	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	544191	12800824	46328159	272	50663										
OR7A17	26333	broad.mit.edu	37	chr19	14991543	14991543	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aaggatccccacaaggggacCaccagccagcagccctgctg	11	16	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:14991543C>G	uc010xob.1	-	1	625	c.625G>C	c.(625-627)GGT>CGT	p.G209R		NM_030901	NP_112163	O14581	OR7AH_HUMAN	olfactory receptor, family 7, subfamily A,	209	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					ACAAGGGGACCACCAGCCAGC	0.483													14	50	---	---	---	---	PASS	G	14991543	G	G	14991543	3	3	142	1	0	0	0	0	1	0	0	0	11215	594	21	4	306	4	OR7A17	19	14991543	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	2190719	14991543	44137440	273	50664										
LPAR2	9170	broad.mit.edu	37	chr19	19735130	19735130	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gatgcgagtgctggcacctcCctgggcagaggatgtatagt	15	9	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:19735130C>A	uc002nnb.3	-	3	1130	c.991G>T	c.(991-993)GGA>TGA	p.G331*	LPAR2_uc002nna.3_Nonsense_Mutation_p.G331*|LPAR2_uc002nnc.3_Nonsense_Mutation_p.G331*	NM_004720	NP_004711	Q9HBW0	LPAR2_HUMAN	lysophosphatidic acid receptor 2	331	Cytoplasmic (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration	cell surface|integral to plasma membrane	LIM domain binding|lipid binding			ovary(1)|breast(1)	2						CTGGCACCTCCCTGGGCAGAG	0.622													6	106	---	---	---	---	PASS	A	19735130	A	A	19735130	4	1	142	1	0	0	0	0	0	1	0	0	8905	632	22	3	68	3	LPAR2	19	19735130	Nonsense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	4743587	19735130	39393853	274	50665										
ZNF536	9745	broad.mit.edu	37	chr19	30935742	30935742	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tgtcccaggaggcccacgccAacctgtactccaggtacctc	9	17	0	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:30935742A>T	uc002nsu.1	+	2	1411	c.1273A>T	c.(1273-1275)AAC>TAC	p.N425Y	ZNF536_uc010edd.1_Missense_Mutation_p.N425Y	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	425					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GGCCCACGCCAACCTGTACTC	0.637													8	21	---	---	---	---	PASS	T	30935742	T	T	30935742	3	4	142	1	0	0	0	0	1	0	0	0	17971	130	5	5	1275	5	ZNF536	19	30935742	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	11200612	30935742	28193241	275	50666										
SPTBN4	57731	broad.mit.edu	37	chr19	41071430	41071430	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cacctgccaggagctggggcGatctctgctgctcaacaaaa	11	13	2	0	rs139699793	byFrequency	TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:41071430G>C	uc002ony.2	+	28	6103	c.6017G>C	c.(6016-6018)CGA>CCA	p.R2006P	SPTBN4_uc002onz.2_Missense_Mutation_p.R2006P|SPTBN4_uc010egx.2_Missense_Mutation_p.R749P	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	2006	Spectrin 17.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GAGCTGGGGCGATCTCTGCTG	0.632													10	8	---	---	---	---	PASS	C	41071430	C	C	41071430	3	2	142	1	0	0	0	0	1	0	0	0	15120	1058	37	2	6217	2	SPTBN4	19	41071430	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	10135688	41071430	18057553	276	50667										
ZNF234	10780	broad.mit.edu	37	chr19	44660428	44660428	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acaagatccaaagtgaggtgGagactgttccagaagcagga	13	7	0	4			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:44660428G>T	uc002oym.2	+	6	566	c.259G>T	c.(259-261)GAG>TAG	p.E87*	ZNF234_uc002oyl.3_Nonsense_Mutation_p.E87*	NM_006630	NP_006621	Q14588	ZN234_HUMAN	zinc finger protein 234	87	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				AAGTGAGGTGGAGACTGTTCC	0.428													6	116	---	---	---	---	PASS	T	44660428	T	T	44660428	4	4	142	1	0	0	0	0	0	1	0	0	17784	1175	41	2	273	2	ZNF234	19	44660428	Nonsense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	3588998	44660428	14468555	277	50668										
POLD1	5424	broad.mit.edu	37	chr19	50909578	50909578	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cgtgcagatggacatgctgcAggtatgggcgggaggtgggg	21	6	0	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:50909578A>T	uc002psb.3	+	11	1438	c.1382A>T	c.(1381-1383)CAG>CTG	p.Q461L	POLD1_uc002psc.3_Missense_Mutation_p.Q461L|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Missense_Mutation_p.Q461L	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	461					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		GACATGCTGCAGGTATGGGCG	0.662								DNA_polymerases_(catalytic_subunits)					5	18	---	---	---	---	PASS	T	50909578	T	T	50909578	3	4	142	1	0	0	0	0	1	0	0	0	12190	202	7	5	1420	5	POLD1	19	50909578	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08	6249150	50909578	8219405	278	50669										
SIGLEC6	946	broad.mit.edu	37	chr19	52023372	52023372	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	atttctgagtactcagtgtcGgtgacctttggttcctgagg	12	8	2	3			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:52023372G>T	uc002pwy.2	-	8	1488	c.1326C>A	c.(1324-1326)ACC>ACA	p.T442T	SIGLEC6_uc002pwz.2_Silent_p.T426T|SIGLEC6_uc002pxa.2_3'UTR|SIGLEC6_uc010ydb.1_Silent_p.T379T|SIGLEC6_uc010ydc.1_3'UTR|SIGLEC6_uc010eoz.1_3'UTR	NM_001245	NP_001236	O43699	SIGL6_HUMAN	sialic acid binding Ig-like lectin 6 isoform 1	442	Cytoplasmic (Potential).				cell adhesion|cell-cell signaling	cytoplasm|extracellular region|integral to plasma membrane|membrane fraction|nucleus				ovary(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00115)|OV - Ovarian serous cystadenocarcinoma(262;0.0165)		ACTCAGTGTCGGTGACCTTTG	0.473													38	65	---	---	---	---	PASS	T	52023372	T	T	52023372	2	4	142	1	0	0	0	0	0	0	0	1	14312	1103	39	1		1	SIGLEC6	19	52023372	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	1113794	52023372	7105611	279	50670										
GP6	51206	broad.mit.edu	37	chr19	55539070	55539070	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gtgatgatgggaaaactagcCctgtaccatctctcgggatt	11	9	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr19:55539070C>A	uc002qik.2	-	4	514	c.486G>T	c.(484-486)AGG>AGT	p.R162S	GP6_uc002qil.2_Missense_Mutation_p.R162S|GP6_uc010esq.2_Missense_Mutation_p.R162S|RDH13_uc010esr.1_RNA	NM_016363	NP_057447	Q9HCN6	GPVI_HUMAN	glycoprotein VI (platelet) isoform 2	162	Ig-like C2-type 2.|Extracellular (Potential).				enzyme linked receptor protein signaling pathway|leukocyte migration|platelet activation	integral to plasma membrane	collagen binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.156)	GBM - Glioblastoma multiforme(193;0.0515)		GAAAACTAGCCCTGTACCATC	0.572													16	44	---	---	---	---	PASS	A	55539070	A	A	55539070	3	1	142	1	0	0	0	0	1	0	0	0	6584	622	22	3	1396	3	GP6	19	55539070	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	3515698	55539070	3589913	280	50671										
NRSN2	80023	broad.mit.edu	37	chr20	333854	333854	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gtctgtctgcttctccctagAtcagcctgtcctcggggacc	10	15	4	1			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr20:333854A>G	uc002wdi.3	+	4	728	c.190A>G	c.(190-192)ATC>GTC	p.I64V	NRSN2_uc002wdj.2_RNA|NRSN2_uc002wdl.2_Intron	NM_024958	NP_079234	Q9GZP1	NRSN2_HUMAN	neurensin 2	64						integral to membrane|plasma membrane|transport vesicle					0		all_cancers(10;0.0834)				TTCTCCCTAGATCAGCCTGTC	0.622													8	44	---	---	---	---	PASS	G	333854	G	G	333854	3	3	142	1	0	0	0	0	1	0	0	0	10663	347	12	5	196	5	NRSN2	20	333854	Missense_Mutation	SNP	A	TCGA-66-2744-01A-01D-0983-08		333854	62691666	281	50672										
XRN2	22803	broad.mit.edu	37	chr20	21367572	21367572	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	acccagaatgcagccttccaGccaaaccagtaccagatgct	7	15	0	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr20:21367572G>T	uc002wsf.1	+	29	2810	c.2715G>T	c.(2713-2715)CAG>CAT	p.Q905H	XRN2_uc002wsg.1_Missense_Mutation_p.Q829H|XRN2_uc010zsk.1_Missense_Mutation_p.Q851H|XRN2_uc002wsh.1_Missense_Mutation_p.Q43H	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	905					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						CAGCCTTCCAGCCAAACCAGT	0.527													4	49	---	---	---	---	PASS	T	21367572	T	T	21367572	3	4	142	1	0	0	0	0	1	0	0	0	17457	962	34	3	2829	3	XRN2	20	21367572	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	21033718	21367572	41657948	282	50673										
PREX1	57580	broad.mit.edu	37	chr20	47269940	47269940	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ccggaatgcctggaagtgctCcaggacctcaggggcaccat	13	13	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr20:47269940C>G	uc002xtw.1	-	20	2328	c.2305G>C	c.(2305-2307)GAG>CAG	p.E769Q	PREX1_uc002xtv.1_Missense_Mutation_p.E66Q	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	769					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			TGGAAGTGCTCCAGGACCTCA	0.597													49	94	---	---	---	---	PASS	G	47269940	G	G	47269940	3	3	142	1	0	0	0	0	1	0	0	0	12476	864	30	2	2758	2	PREX1	20	47269940	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	25902368	47269940	15755580	283	50674										
ZNF512B	57473	broad.mit.edu	37	chr20	62595205	62595205	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ttccgggtgaccacgttgcaGgtggggcagacggcttcccc	15	13	0	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr20:62595205G>T	uc002yhl.1	-	9	1596	c.1542C>A	c.(1540-1542)ACC>ACA	p.T514T		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	514					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CCACGTTGCAGGTGGGGCAGA	0.652													6	86	---	---	---	---	PASS	T	62595205	T	T	62595205	2	4	142	1	0	0	0	0	0	0	0	1	17954	987	35	3		3	ZNF512B	20	62595205	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	15325265	62595205	430315	284	50675										
TUBA8	51807	broad.mit.edu	37	chr22	18609318	18609318	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tacaactccatcctgaccacCcacaccacactggaacattc	3	18	0	1	rs150232320		TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr22:18609318C>A	uc002znv.1	+	4	646	c.573C>A	c.(571-573)ACC>ACA	p.T191T	TUBA8_uc002znr.2_Silent_p.T125T|TUBA8_uc002znw.1_Silent_p.T215T|TUBA8_uc002znx.1_Silent_p.T38T	NM_018943	NP_061816	Q9NY65	TBA8_HUMAN	tubulin, alpha 8	191					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0						TCCTGACCACCCACACCACAC	0.527													6	108	---	---	---	---	PASS	A	18609318	A	A	18609318	2	1	142	1	0	0	0	0	0	0	0	1	16747	610	22	3		3	TUBA8	22	18609318	Silent	SNP	C	TCGA-66-2744-01A-01D-0983-08		18609318	32695248	285	50676										
CLDN5	7122	broad.mit.edu	37	chr22	19511188	19511188	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cgcggcgctgagtacttcacGgggaagctgaggtcgggacg	18	10	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr22:19511188G>T	uc002zpu.2	-	2	1061	c.846C>A	c.(844-846)CCC>CCA	p.P282P	CLDN5_uc010grr.2_Silent_p.P282P	NM_003277	NP_003268	O00501	CLD5_HUMAN	claudin 5	197	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity				0	Colorectal(54;0.0993)					AGTACTTCACGGGGAAGCTGA	0.711													3	5	---	---	---	---	PASS	T	19511188	T	T	19511188	2	4	142	1	0	0	0	0	0	0	0	1	3488	1103	39	1		1	CLDN5	22	19511188	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	901870	19511188	31793378	286	50677										
MYH9	4627	broad.mit.edu	37	chr22	36681312	36681312	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ctggcgttccagctgctgccGagcattctcgttcttctggg	12	13	3	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr22:36681312G>T	uc003apg.2	-	38	5569	c.5338C>A	c.(5338-5340)CGG>AGG	p.R1780R		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1780	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						AGCTGCTGCCGAGCATTCTCG	0.592			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				4	87	---	---	---	---	PASS	T	36681312	T	T	36681312	2	4	142	1	0	0	0	0	0	0	0	1	10042	1057	37	2		2	MYH9	22	36681312	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	17170124	36681312	14623254	287	50678										
SSTR3	6753	broad.mit.edu	37	chr22	37603528	37603528	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	ccgaagggccagtaggacagGgcgttctgggcggccaggaa	18	10	1	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr22:37603528G>T	uc003ara.2	-	2	377	c.315C>A	c.(313-315)GCC>GCA	p.A105A	SSTR3_uc003arb.2_Silent_p.A105A	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	105	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						AGTAGGACAGGGCGTTCTGGG	0.622													8	46	---	---	---	---	PASS	T	37603528	T	T	37603528	2	4	142	1	0	0	0	0	0	0	0	1	15198	1219	43	3		3	SSTR3	22	37603528	Silent	SNP	G	TCGA-66-2744-01A-01D-0983-08	922216	37603528	13701038	288	50679										
RANGAP1	5905	broad.mit.edu	37	chr22	41652071	41652071	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	gttgaagccctccagcacctCctgaagctgttcacagcctt	8	15	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr22:41652071C>T	uc003azs.2	-	9	2497	c.1027G>A	c.(1027-1029)GAG>AAG	p.E343K	RANGAP1_uc003azt.2_Missense_Mutation_p.E343K|RANGAP1_uc003azu.2_Missense_Mutation_p.E343K|RANGAP1_uc011aoz.1_Missense_Mutation_p.E288K	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	343	LRR 6.				mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						TCCAGCACCTCCTGAAGCTGT	0.607													9	38	---	---	---	---	PASS	T	41652071	T	T	41652071	3	4	142	1	0	0	0	0	1	0	0	0	13033	864	30	2	764	2	RANGAP1	22	41652071	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	4048543	41652071	9652495	289	50680										
SMC1B	27127	broad.mit.edu	37	chr22	45795000	45795000	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tggcttccagttcaatgtctCgctttttatgtaaaatttct	6	8	3	0			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chr22:45795000C>A	uc003bgc.2	-	6	1140	c.1088G>T	c.(1087-1089)CGA>CTA	p.R363L	SMC1B_uc003bgd.2_Missense_Mutation_p.R363L|SMC1B_uc003bge.1_Missense_Mutation_p.R146L	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	363	Potential.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TTCAATGTCTCGCTTTTTATG	0.353													4	81	---	---	---	---	PASS	A	45795000	A	A	45795000	3	1	142	1	0	0	0	0	1	0	0	0	14782	884	31	2	2699	2	SMC1B	22	45795000	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	4142929	45795000	5509566	290	50681										
EDA2R	60401	broad.mit.edu	37	chrX	65824983	65824983	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	cacaggtgatgcaactctgaCatctgtggtggccccagctg	12	12	2	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chrX:65824983C>A	uc004dwq.2	-	2	184	c.173G>T	c.(172-174)TGT>TTT	p.C58F	EDA2R_uc004dwr.2_Missense_Mutation_p.C58F|EDA2R_uc004dws.2_Missense_Mutation_p.C58F|EDA2R_uc011mpb.1_RNA|EDA2R_uc011mpc.1_Intron|EDA2R_uc010nkt.1_Missense_Mutation_p.C58F|EDA2R_uc004dwt.1_Missense_Mutation_p.C58F	NM_021783	NP_068555	Q9HAV5	TNR27_HUMAN	X-linked ectodysplasin receptor	58	Extracellular (Potential).|TNFR-Cys 2.				cell differentiation|embryo development|epidermis development|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity	integral to plasma membrane	tumor necrosis factor receptor activity			upper_aerodigestive_tract(1)	1						GCAACTCTGACATCTGTGGTG	0.542													3	9	---	---	---	---	PASS	A	65824983	A	A	65824983	3	1	142	1	0	0	0	0	1	0	0	0	4904	478	17	3	736	3	EDA2R	23	65824983	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08		65824983	89445577	291	50682										
IL1RAPL2	26280	broad.mit.edu	37	chrX	104440271	104440271	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	tattcgtaccaactatagcaCggcccagagcactgggctca	9	13	1	1	rs146735893		TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chrX:104440271C>A	uc004elz.1	+	3	953	c.197C>A	c.(196-198)ACG>AAG	p.T66K		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	66	Ig-like C2-type 1.|Extracellular (Potential).				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						AACTATAGCACGGCCCAGAGC	0.468													9	17	---	---	---	---	PASS	A	104440271	A	A	104440271	3	1	142	1	0	0	0	0	1	0	0	0	7662	536	19	1	203	1	IL1RAPL2	23	104440271	Missense_Mutation	SNP	C	TCGA-66-2744-01A-01D-0983-08	38615288	104440271	50830289	292	50683										
HTR2C	3358	broad.mit.edu	37	chrX	114141492	114141492	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	20	0.0267659408127019	1.65860155382908	2.61822102425876	0.986867924528302	0.173664823538192	0.512311229437666	8	aagaaggagagacgtcctagGggcaccatgcaggctatcaa	13	9	1	2			TCGA-66-2744-01A-01D-0983-08	TCGA-66-2744-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	43be1a37-b18e-4e96-89e6-ed6ee1d8e65a	701bf715-e029-45b5-9c93-4f4a6c8e564d	g.chrX:114141492G>T	uc004epu.1	+	6	1619	c.891G>T	c.(889-891)AGG>AGT	p.R297S	HTR2C_uc010nqc.1_Missense_Mutation_p.R297S|HTR2C_uc004epv.1_3'UTR	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	297	Cytoplasmic (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	GACGTCCTAGGGGCACCATGC	0.468													46	50	---	---	---	---	PASS	T	114141492	T	T	114141492	3	4	142	1	0	0	0	0	1	0	0	0	7443	1223	43	3	905	3	HTR2C	23	114141492	Missense_Mutation	SNP	G	TCGA-66-2744-01A-01D-0983-08	9701221	114141492	41129068	293	50684										
PRAMEF2	65122	broad.mit.edu	37	chr1	12920019	12920019	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcagataatgaactcgagggAtggttagtcaccagattcac	10	8	3	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:12920019A>T	uc001aum.1	+	3	846	c.759A>T	c.(757-759)GGA>GGT	p.G253G		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	253											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AACTCGAGGGATGGTTAGTCA	0.438													19	58	---	---	---	---	PASS	T	12920019	T	T	12920019	2	4	143	1	0	0	0	0	0	0	0	1	12435	320	12	5		5	PRAMEF2	1	12920019	Silent	SNP	A	TCGA-66-2754-01A-01D-0983-08		12920019	236330602	1	50685										
CASP9	842	broad.mit.edu	37	chr1	15844829	15844829	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aaggaagagcctgactccctCgagtctccagatctatgatc	9	12	2	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:15844829C>A	uc001awn.2	-	2	289	c.194G>T	c.(193-195)CGA>CTA	p.R65L	CASP9_uc001awm.1_Missense_Mutation_p.R65L|CASP9_uc001awo.2_Missense_Mutation_p.R65L|CASP9_uc001awp.2_5'UTR|CASP9_uc009voi.2_5'UTR|CASP9_uc010obm.1_5'UTR|CASP9_uc001awq.2_5'UTR	NM_001229	NP_001220	P55211	CASP9_HUMAN	caspase 9 isoform alpha preproprotein	65	CARD.				activation of caspase activity by cytochrome c|induction of apoptosis by intracellular signals|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol	cysteine-type endopeptidase activity|enzyme activator activity|protein binding			central_nervous_system(1)|kidney(1)	2		Breast(348;0.000207)|all_lung(284;0.000211)|Colorectal(325;0.000259)|Lung NSC(340;0.000269)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;8.49e-07)|COAD - Colon adenocarcinoma(227;4.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00013)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00763)|READ - Rectum adenocarcinoma(331;0.0655)		CTGACTCCCTCGAGTCTCCAG	0.527													4	83	---	---	---	---	PASS	A	15844829	A	A	15844829	3	1	143	1	0	0	0	0	1	0	0	0	2679	884	31	2	1088	2	CASP9	1	15844829	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2924810	15844829	233405792	2	50686										
SDC3	9672	broad.mit.edu	37	chr1	31349950	31349950	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caccgcaggtgtggtggacaCcgccagggctacatctgggc	15	13	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:31349950C>A	uc001bse.2	-	3	366	c.319G>T	c.(319-321)GTG>TTG	p.V107L	SDC3_uc001bsd.2_Missense_Mutation_p.V49L	NM_014654	NP_055469	O75056	SDC3_HUMAN	syndecan 3	107	Extracellular (Potential).					integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)|Colorectal(325;0.0466)|all_neural(195;0.0966)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)		STAD - Stomach adenocarcinoma(196;0.0197)|READ - Rectum adenocarcinoma(331;0.0649)		GTGGTGGACACCGCCAGGGCT	0.647													5	11	---	---	---	---	PASS	A	31349950	A	A	31349950	3	1	143	1	0	0	0	0	1	0	0	0	13953	507	18	3	1021	3	SDC3	1	31349950	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	15505121	31349950	217900671	3	50687										
BAI2	576	broad.mit.edu	37	chr1	32198745	32198745	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aggagctccagagtgaggccCtgaggggacagtggcagagc	18	9	0	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:32198745C>A	uc001btn.2	-	26	3807	c.3453_splice	c.e26-1	p.M1151_splice	BAI2_uc001btm.2_Splice_Site_p.M145_splice|BAI2_uc001btp.1_Splice_Site_p.M145_splice|BAI2_uc010ogn.1_Splice_Site_p.G121_splice|BAI2_uc010ogo.1_Splice_Site_p.G760_splice|BAI2_uc010ogp.1_Splice_Site_p.M1084_splice|BAI2_uc010ogq.1_Splice_Site_p.G1118_splice|BAI2_uc001bto.2_Splice_Site_p.M1151_splice	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2						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)		GAGTGAGGCCCTGAGGGGACA	0.642													3	3	---	---	---	---	PASS	A	32198745	A	A	32198745	5	1	143	1	0	0	0	0	0	0	1	0	1299	695	24	3	1337	3	BAI2	1	32198745	Splice_Site	SNP	C	TCGA-66-2754-01A-01D-0983-08	848795	32198745	217051876	4	50688										
HIVEP3	59269	broad.mit.edu	37	chr1	42045717	42045717	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttctttgagtccgtaccttcTtgtgacttggctggtctgga	11	9	3	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:42045717T>G	uc001cgz.3	-	4	5965	c.4752A>C	c.(4750-4752)CAA>CAC	p.Q1584H	HIVEP3_uc001cha.3_Missense_Mutation_p.Q1584H|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1584					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CCGTACCTTCTTGTGACTTGG	0.488													43	31	---	---	---	---	PASS	G	42045717	G	G	42045717	3	3	143	1	0	0	0	0	1	0	0	0	7188	1606	56	5	2492	5	HIVEP3	1	42045717	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	9846972	42045717	207204904	5	50689										
LEPRE1	64175	broad.mit.edu	37	chr1	43218306	43218306	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gagtttggagttcatggtgaGactgatgccttcatacagca	12	7	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:43218306G>A	uc001chv.2	-	9	1488	c.1375C>T	c.(1375-1377)CTC>TTC	p.L459F	LEPRE1_uc001chw.2_Missense_Mutation_p.L459F|LEPRE1_uc001chx.3_Missense_Mutation_p.L459F	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	459					negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	TTCATGGTGAGACTGATGCCT	0.507													19	30	---	---	---	---	PASS	A	43218306	A	A	43218306	3	1	143	1	0	0	0	0	1	0	0	0	8729	942	33	2	882	2	LEPRE1	1	43218306	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1172589	43218306	206032315	6	50690										
HECTD3	79654	broad.mit.edu	37	chr1	45469399	45469399	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggaagactcgggcagcgcgtCtgtggtctcgtagctggggg	19	9	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:45469399C>T	uc009vxk.2	-	20	2541	c.2443G>A	c.(2443-2445)GAC>AAC	p.D815N	HECTD3_uc001cmx.3_Missense_Mutation_p.D164N|HECTD3_uc001cmy.3_Missense_Mutation_p.D425N|HECTD3_uc010olh.1_Missense_Mutation_p.D531N	NM_024602	NP_078878	Q5T447	HECD3_HUMAN	HECT domain containing 3	815	HECT.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	ubiquitin-protein ligase activity				0	Acute lymphoblastic leukemia(166;0.155)					GGCAGCGCGTCTGTGGTCTCG	0.612													11	32	---	---	---	---	PASS	T	45469399	T	T	45469399	3	4	143	1	0	0	0	0	1	0	0	0	7041	913	32	2	150	2	HECTD3	1	45469399	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2251093	45469399	203781222	7	50691										
PDZK1IP1	10158	broad.mit.edu	37	chr1	47653062	47653062	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	accaggaacacggccaccgcGataaggccctgcatccaggg	12	15	0	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:47653062G>A	uc001cqw.2	-	2	272	c.105C>T	c.(103-105)ATC>ATT	p.I35I		NM_005764	NP_005755	Q13113	PDZ1I_HUMAN	PDZK1 interacting protein 1	35	Helical; (Potential).					integral to membrane					0						CGGCCACCGCGATAAGGCCCT	0.632													9	22	---	---	---	---	PASS	A	47653062	A	A	47653062	2	1	143	1	0	0	0	0	0	0	0	1	11708	1048	37	2		2	PDZK1IP1	1	47653062	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	2183663	47653062	201597559	8	50692										
RAB3B	5865	broad.mit.edu	37	chr1	52442657	52442657	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaaggctggggtgaacgtgtCatcagcatagcggaagagga	17	6	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:52442657C>T	uc001cth.2	-	2	258	c.133G>A	c.(133-135)GAC>AAC	p.D45N		NM_002867	NP_002858	P20337	RAB3B_HUMAN	RAB3B, member RAS oncogene family	45					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(1)	1						GTGAACGTGTCATCAGCATAG	0.502													23	64	---	---	---	---	PASS	T	52442657	T	T	52442657	3	4	143	1	0	0	0	0	1	0	0	0	12932	826	29	2	542	2	RAB3B	1	52442657	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	4789595	52442657	196807964	9	50693										
ATG4C	84938	broad.mit.edu	37	chr1	63270862	63270862	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggttgggtgttgaaaacaaaGacgtattttagtagaaattc	11	3	0	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:63270862G>C	uc001dat.2	+	3	258	c.96G>C	c.(94-96)AAG>AAC	p.K32N	ATG4C_uc001dau.2_Missense_Mutation_p.K32N	NM_178221	NP_835739	Q96DT6	ATG4C_HUMAN	APG4 autophagy 4 homolog C isoform 8	32					autophagic vacuole assembly|protein targeting to membrane|proteolysis	cytosol|extracellular region	cysteine-type endopeptidase activity			ovary(1)	1						TGAAAACAAAGACGTATTTTA	0.254													3	11	---	---	---	---	PASS	C	63270862	C	C	63270862	3	2	143	1	0	0	0	0	1	0	0	0	1098	933	33	2	102	2	ATG4C	1	63270862	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	10828205	63270862	185979759	10	50694										
SLC35D1	23169	broad.mit.edu	37	chr1	67518532	67518532	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	acccagagaactgccactgtGgccaccatctgtaaacaaga	8	13	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:67518532G>T	uc001ddk.2	-	3	630	c.246C>A	c.(244-246)GCC>GCA	p.A82A	SLC35D1_uc010oph.1_Silent_p.A3A	NM_015139	NP_055954	Q9NTN3	S35D1_HUMAN	solute carrier family 35 (UDP-glucuronic	82	Helical; (Potential).				chondroitin sulfate biosynthetic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	integral to endoplasmic reticulum membrane	UDP-glucuronic acid transmembrane transporter activity|UDP-N-acetylgalactosamine transmembrane transporter activity				0					Lorazepam(DB00186)	CTGCCACTGTGGCCACCATCT	0.433													5	78	---	---	---	---	PASS	T	67518532	T	T	67518532	2	4	143	1	0	0	0	0	0	0	0	1	14581	1335	47	3		3	SLC35D1	1	67518532	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	4247670	67518532	181732089	11	50695										
OLFM3	118427	broad.mit.edu	37	chr1	102270309	102270309	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tttgatgatgatattactctGatacttgttaaaatagagtg	8	3	1	5			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:102270309G>A	uc001duf.2	-	6	993	c.922C>T	c.(922-924)CAG>TAG	p.Q308*	OLFM3_uc001dug.2_Nonsense_Mutation_p.Q288*|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_Nonsense_Mutation_p.Q213*|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	308	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)		ATATTACTCTGATACTTGTTA	0.423													17	12	---	---	---	---	PASS	A	102270309	A	A	102270309	4	1	143	1	0	0	0	0	0	1	0	0	10854	1299	45	2	518	2	OLFM3	1	102270309	Nonsense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	34751777	102270309	146980312	12	50696										
NOTCH2	4853	broad.mit.edu	37	chr1	120464395	120464395	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtgttcacttgttccagtacCaattaggttagcttctgaga	9	8	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:120464395C>A	uc001eik.2	-	29	5507	c.5251G>T	c.(5251-5253)GGT>TGT	p.G1751C		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1751	Cytoplasmic (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTTCCAGTACCAATTAGGTTA	0.398			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				4	44	---	---	---	---	PASS	A	120464395	A	A	120464395	3	1	143	1	0	0	0	0	1	0	0	0	10548	594	21	3	2188	3	NOTCH2	1	120464395	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	18194086	120464395	128786226	13	50697										
PDE4DIP	9659	broad.mit.edu	37	chr1	144921868	144921868	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caagaagcctctttctgctgTtcactctcgtgtgctgcagc	9	13	4	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:144921868T>C	uc001elw.3	-	9	1452	c.1161A>G	c.(1159-1161)GAA>GAG	p.E387E	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Silent_p.E453E|PDE4DIP_uc001emc.1_Silent_p.E387E|PDE4DIP_uc001emd.1_Silent_p.E387E|PDE4DIP_uc001emb.1_Silent_p.E550E|PDE4DIP_uc001eme.1_5'UTR|PDE4DIP_uc001emf.1_Silent_p.E174E	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	387	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CTTTCTGCTGTTCACTCTCGT	0.438			T	PDGFRB	MPD								34	233	---	---	---	---	PASS	C	144921868	C	C	144921868	2	2	143	1	0	0	0	0	0	0	0	1	11643	1722	60	5		5	PDE4DIP	1	144921868	Silent	SNP	T	TCGA-66-2754-01A-01D-0983-08	24457473	144921868	104328753	14	50698										
OTUD7B	56957	broad.mit.edu	37	chr1	149916189	149916189	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggactccgcccccagacggcCgagggatagtaaagtcccca	12	15	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:149916189C>T	uc001etn.2	-	12	2455	c.2099G>A	c.(2098-2100)CGG>CAG	p.R700Q		NM_020205	NP_064590	Q6GQQ9	OTU7B_HUMAN	zinc finger protein Cezanne	700					negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)			CCCAGACGGCCGAGGGATAGT	0.642													21	16	---	---	---	---	PASS	T	149916189	T	T	149916189	3	4	143	1	0	0	0	0	1	0	0	0	11319	652	23	1	436	1	OTUD7B	1	149916189	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	4994321	149916189	99334432	15	50699										
CGN	57530	broad.mit.edu	37	chr1	151508751	151508751	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtctaccaatcgaaaactggAgcggaaagttaaagaactat	9	7	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:151508751A>T	uc009wmw.2	+	19	3380	c.3236A>T	c.(3235-3237)GAG>GTG	p.E1079V	CGN_uc010pde.1_Missense_Mutation_p.E73V	NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	1073	Potential.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			CGAAAACTGGAGCGGAAAGTT	0.483													23	69	---	---	---	---	PASS	T	151508751	T	T	151508751	3	4	143	1	0	0	0	0	1	0	0	0	3303	304	11	5	3306	5	CGN	1	151508751	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	1592562	151508751	97741870	16	50700										
LCE1C	353133	broad.mit.edu	37	chr1	152777718	152777718	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgggacctacggcgcctgtgGtggctcaggcagcagccacc	15	14	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:152777718G>T	uc001fap.1	-	2	288	c.237C>A	c.(235-237)CAC>CAA	p.H79Q		NM_178351	NP_848128	Q5T751	LCE1C_HUMAN	late cornified envelope 1C	79	Gly-rich.				keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGCGCCTGTGGTGGCTCAGGC	0.706													23	21	---	---	---	---	PASS	T	152777718	T	T	152777718	3	4	143	1	0	0	0	0	1	0	0	0	8661	1252	44	3	123	3	LCE1C	1	152777718	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1268967	152777718	96472903	17	50701										
NUP210L	91181	broad.mit.edu	37	chr1	154026870	154026870	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tggattggggctgggggccaCcttcagacattacctggaat	14	9	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:154026870C>G	uc001fdw.2	-	25	3389	c.3317G>C	c.(3316-3318)GGT>GCT	p.G1106A	NUP210L_uc009woq.2_Missense_Mutation_p.G15A|NUP210L_uc010peh.1_Missense_Mutation_p.G1106A	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	1106						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			CTGGGGGCCACCTTCAGACAT	0.448													17	29	---	---	---	---	PASS	G	154026870	G	G	154026870	3	3	143	1	0	0	0	0	1	0	0	0	10761	507	18	4	2413	4	NUP210L	1	154026870	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	1249152	154026870	95223751	18	50702										
OR6N1	128372	broad.mit.edu	37	chr1	158736433	158736433	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gagatgggggaagcccaagaTgatgaattctgctacctggc	14	8	1	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:158736433T>C	uc010piq.1	-	1	40	c.40A>G	c.(40-42)ATC>GTC	p.I14V		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AAGCCCAAGATGATGAATTCT	0.458													15	19	---	---	---	---	PASS	C	158736433	C	C	158736433	3	2	143	1	0	0	0	0	1	0	0	0	11206	1464	51	5	901	5	OR6N1	1	158736433	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	4709563	158736433	90514188	19	50703										
KCNJ10	3766	broad.mit.edu	37	chr1	160011200	160011200	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcatcagacattgctgatgcGcacactaagggcactgccct	9	13	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:160011200G>T	uc001fuw.1	-	2	1273	c.1123C>A	c.(1123-1125)CGC>AGC	p.R375S		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	375	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TTGCTGATGCGCACACTAAGG	0.532													9	5	---	---	---	---	PASS	T	160011200	T	T	160011200	3	4	143	1	0	0	0	0	1	0	0	0	8044	1087	38	1	20	1	KCNJ10	1	160011200	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1274767	160011200	89239421	20	50704										
LMX1A	4009	broad.mit.edu	37	chr1	165177302	165177302	+	Missense_Mutation	SNP	G	T	T													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaggaggcaccagcttaccaGagctcagcctctgggtgttc							TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:165177302G>T	uc001gcy.1	-	6	1036	c.815C>A	c.(814-816)TCT>TAT	p.S272Y	LMX1A_uc001gcz.1_Missense_Mutation_p.S272Y|LMX1A_uc001gcw.1_Translation_Start_Site|LMX1A_uc001gcx.1_Missense_Mutation_p.S23Y	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	272	Gln-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					CAGCTTACCAGAGCTCAGCCT	0.552													7	17	---	---	---	---	PASS	T	165177302	T	T	165177302	3	4	143	1	0	0	0	0	1	0	0	0	8861	942	33	2	345	2	LMX1A	1	165177302	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	5166102	165177302	84073319	21	50705	930	2								
LMX1A	4009	broad.mit.edu	37	chr1	165177303	165177303	+	Missense_Mutation	SNP	A	C	C													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aggaggcaccagcttaccagAgctcagcctctgggtgttct							TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:165177303A>C	uc001gcy.1	-	6	1035	c.814T>G	c.(814-816)TCT>GCT	p.S272A	LMX1A_uc001gcz.1_Missense_Mutation_p.S272A|LMX1A_uc001gcw.1_5'UTR|LMX1A_uc001gcx.1_Missense_Mutation_p.S23A	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	272	Gln-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					AGCTTACCAGAGCTCAGCCTC	0.552													7	17	---	---	---	---	PASS	C	165177303	C	C	165177303	3	2	143	1	0	0	0	0	1	0	0	0	8861	304	11	5	346	5	LMX1A	1	165177303	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	1	165177303	84073318	22	50706	930	2								
PRRX1	5396	broad.mit.edu	37	chr1	170689004	170689004	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	atgcttttgtgcgagaagacCttgcccgccgggtgaacctc	12	12	0	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:170689004C>G	uc001ghf.2	+	2	426	c.379C>G	c.(379-381)CTT>GTT	p.L127V	PRRX1_uc001ghe.2_Missense_Mutation_p.L127V	NM_022716	NP_073207	P54821	PRRX1_HUMAN	paired mesoderm homeobox 1 isoform pmx-1b	127	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GCGAGAAGACCTTGCCCGCCG	0.552													13	39	---	---	---	---	PASS	G	170689004	G	G	170689004	3	3	143	1	0	0	0	0	1	0	0	0	12612	681	24	4	385	4	PRRX1	1	170689004	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	5511701	170689004	78561617	23	50707										
FMO4	2329	broad.mit.edu	37	chr1	171310617	171310617	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctacatggatgatatcgctgCctgcataggcacaaagccca	9	12	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:171310617C>T	uc001gho.2	+	10	1533	c.1316C>T	c.(1315-1317)GCC>GTC	p.A439V		NM_002022	NP_002013	P31512	FMO4_HUMAN	flavin containing monooxygenase 4	439					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			kidney(2)|skin(1)	3	all_cancers(6;3.9e-08)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					GATATCGCTGCCTGCATAGGC	0.458													8	24	---	---	---	---	PASS	T	171310617	T	T	171310617	3	4	143	1	0	0	0	0	1	0	0	0	5957	739	26	3	1346	3	FMO4	1	171310617	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	621613	171310617	77940004	24	50708										
RFWD2	64326	broad.mit.edu	37	chr1	175958605	175958605	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttacgaagatcatagtagtgGacacagtgatctaaaacaaa	8	6	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:175958605G>C	uc001gku.1	-	16	1996	c.1740C>G	c.(1738-1740)GTC>GTG	p.V580V	RFWD2_uc001gkv.1_Silent_p.V556V|RFWD2_uc001gkw.1_Silent_p.V340V|RFWD2_uc009wwv.2_Silent_p.V379V|RFWD2_uc001gkt.1_Silent_p.V419V	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	580	WD 4.				DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						CATAGTAGTGGACACAGTGAT	0.328													10	33	---	---	---	---	PASS	C	175958605	C	C	175958605	2	2	143	1	0	0	0	0	0	0	0	1	13260	1161	41	2		2	RFWD2	1	175958605	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	4647988	175958605	73292016	25	50709										
KIAA1614	57710	broad.mit.edu	37	chr1	180886140	180886140	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctgatcgggtggagagaaacCgcctgttgctgcaggagatg	16	8	0	3	rs79485039	byFrequency	TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:180886140C>A	uc001gok.2	+	2	968	c.901C>A	c.(901-903)CGC>AGC	p.R301S		NM_020950	NP_066001	Q5VZ46	K1614_HUMAN	hypothetical protein LOC57710	301										ovary(3)|skin(1)	4						GGAGAGAAACCGCCTGTTGCT	0.642													12	25	---	---	---	---	PASS	A	180886140	A	A	180886140	3	1	143	1	0	0	0	0	1	0	0	0	8248	652	23	1	907	1	KIAA1614	1	180886140	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	4927535	180886140	68364481	26	50710										
NCF2	4688	broad.mit.edu	37	chr1	183532587	183532587	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	acctcagcttagtgtgttccAgccggagctccagtttctta	9	12	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:183532587A>C	uc001gqj.3	-	12	1435	c.1160T>G	c.(1159-1161)CTG>CGG	p.L387R	NCF2_uc010pod.1_Missense_Mutation_p.L342R|NCF2_uc010poe.1_Missense_Mutation_p.L306R|NCF2_uc001gqk.3_Missense_Mutation_p.L387R	NM_000433	NP_000424	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	387	OPR.				cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3						AGTGTGTTCCAGCCGGAGCTC	0.572													52	127	---	---	---	---	PASS	C	183532587	C	C	183532587	3	2	143	1	0	0	0	0	1	0	0	0	10217	188	7	5	436	5	NCF2	1	183532587	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	2646447	183532587	65718034	27	50711										
FAM5C	339479	broad.mit.edu	37	chr1	190250825	190250825	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggcaagaggcagaggagagcCaaggaaatttcttctctcaa	12	8	3	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:190250825C>A	uc001gse.1	-	3	524	c.292G>T	c.(292-294)GGC>TGC	p.G98C	FAM5C_uc010pot.1_Intron	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	98						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					AGAGGAGAGCCAAGGAAATTT	0.398													9	27	---	---	---	---	PASS	A	190250825	A	A	190250825	3	1	143	1	0	0	0	0	1	0	0	0	5594	594	21	3	2032	3	FAM5C	1	190250825	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	6718238	190250825	58999796	28	50712										
CSRP1	1465	broad.mit.edu	37	chr1	201458112	201458112	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtgggcctgtggccaggggcTctgcatggagaagggcatgg	20	8	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:201458112T>A	uc001gws.2	-	4	473	c.282A>T	c.(280-282)GAA>GAT	p.E94D	CSRP1_uc001gwr.1_RNA|CSRP1_uc010ppr.1_Missense_Mutation_p.E94D|CSRP1_uc010pps.1_Missense_Mutation_p.E94D	NM_004078	NP_004069	P21291	CSRP1_HUMAN	cysteine and glycine-rich protein 1 isoform 1	94						nucleus	zinc ion binding			ovary(1)	1						GGCCAGGGGCTCTGCATGGAG	0.592													6	23	---	---	---	---	PASS	A	201458112	A	A	201458112	3	1	143	1	0	0	0	0	1	0	0	0	3966	1565	54	5	327	5	CSRP1	1	201458112	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	11207287	201458112	47792509	29	50713										
IL19	29949	broad.mit.edu	37	chr1	207013247	207013247	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cctggcgttctacgtggacaGggtgttcaaggatcatcagg	14	9	4	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:207013247G>C	uc001hep.2	+	5	1202	c.263G>C	c.(262-264)AGG>ACG	p.R88T	IL19_uc001heo.2_Missense_Mutation_p.R126T|IL19_uc010prx.1_Missense_Mutation_p.R88T	NM_013371	NP_037503	Q9UHD0	IL19_HUMAN	interleukin 19 isoform 2 precursor	88					apoptosis|immune response|signal transduction	extracellular space	cytokine activity			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(75;0.211)			TACGTGGACAGGGTGTTCAAG	0.468													104	210	---	---	---	---	PASS	C	207013247	C	C	207013247	3	2	143	1	0	0	0	0	1	0	0	0	7649	1000	35	4	391	4	IL19	1	207013247	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	5555135	207013247	42237374	30	50714										
C1orf107	27042	broad.mit.edu	37	chr1	210024662	210024662	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caacagaggagaagaggccaCgtggacctgcactgttctct	12	11	1	3	rs140967197	byFrequency	TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:210024662C>T	uc001hhr.1	+	12	2217	c.2141C>T	c.(2140-2142)ACG>ATG	p.T714M	C1orf107_uc009xcu.1_Missense_Mutation_p.T429M	NM_014388	NP_055203	Q68CQ4	DIEXF_HUMAN	digestive-organ expansion factor homolog	714					multicellular organismal development	nucleus					0				OV - Ovarian serous cystadenocarcinoma(81;0.0367)		GAAGAGGCCACGTGGACCTGC	0.498													7	20	---	---	---	---	PASS	T	210024662	T	T	210024662	3	4	143	1	0	0	0	0	1	0	0	0	1981	536	19	1	2187	1	C1orf107	1	210024662	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	3011415	210024662	39225959	31	50715										
RYR2	6262	broad.mit.edu	37	chr1	237948022	237948022	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gttagccaacatgccagaccCcactcaggatgaggttagag	11	11	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:237948022C>A	uc001hyl.1	+	90	13130	c.13010C>A	c.(13009-13011)CCC>CAC	p.P4337H	RYR2_uc010pya.1_Missense_Mutation_p.P752H	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4337					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)			ATGCCAGACCCCACTCAGGAT	0.552													20	51	---	---	---	---	PASS	A	237948022	A	A	237948022	3	1	143	1	0	0	0	0	1	0	0	0	13769	623	22	3	13368	3	RYR2	1	237948022	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	27923360	237948022	11302599	32	50716										
FMN2	56776	broad.mit.edu	37	chr1	240370853	240370853	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gctgccaccccctccccctcCtcttcccggagcgggcatac	8	22	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:240370853C>T	uc010pyd.1	+	5	2966	c.2741C>T	c.(2740-2742)CCT>CTT	p.P914L	FMN2_uc010pye.1_Missense_Mutation_p.P918L	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	914	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CCTCCCCCTCCTCTTCCCGGA	0.662													15	31	---	---	---	---	PASS	T	240370853	T	T	240370853	3	4	143	1	0	0	0	0	1	0	0	0	5950	681	24	3	2759	3	FMN2	1	240370853	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2422831	240370853	8879768	33	50717										
NLRP3	114548	broad.mit.edu	37	chr1	247587725	247587725	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgactggcagaaggccgagcGgggagacattctcctgagca	15	10	1	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:247587725G>C	uc001icr.2	+	5	1118	c.980G>C	c.(979-981)CGG>CCG	p.R327P	NLRP3_uc001ics.2_Missense_Mutation_p.R327P|NLRP3_uc001icu.2_Missense_Mutation_p.R327P|NLRP3_uc001icw.2_Missense_Mutation_p.R327P|NLRP3_uc001icv.2_Missense_Mutation_p.R327P|NLRP3_uc010pyw.1_Missense_Mutation_p.R325P|NLRP3_uc001ict.1_Missense_Mutation_p.R325P	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	327	NACHT.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding	p.R327G(1)		lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			AAGGCCGAGCGGGGAGACATT	0.587													19	37	---	---	---	---	PASS	C	247587725	C	C	247587725	3	2	143	1	0	0	0	0	1	0	0	0	10478	1116	39	4	990	4	NLRP3	1	247587725	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	7216872	247587725	1662896	34	50718										
OR14A16	284532	broad.mit.edu	37	chr1	247978715	247978715	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggaggagcagctctgcagatGctgaagaaagcaacaaaaag	13	7	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr1:247978715G>A	uc001idm.1	-	1	317	c.317C>T	c.(316-318)GCA>GTA	p.A106V		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	106	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTCTGCAGATGCTGAAGAAAG	0.473													36	76	---	---	---	---	PASS	A	247978715	A	A	247978715	3	1	143	1	0	0	0	0	1	0	0	0	10945	1319	46	3	616	3	OR14A16	1	247978715	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	390990	247978715	1271906	35	50719										
GRHL1	29841	broad.mit.edu	37	chr2	10101464	10101464	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tggtggttttcgatcggaatCtcaatactgaccagttcagc	10	9	2	1	rs150933141		TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:10101464C>G	uc002raa.2	+	4	739	c.568C>G	c.(568-570)CTC>GTC	p.L190V	GRHL1_uc002rab.2_RNA|GRHL1_uc002rad.2_Missense_Mutation_p.I26M|GRHL1_uc010yjb.1_Missense_Mutation_p.L39V	NM_198182	NP_937825	Q9NZI5	GRHL1_HUMAN	grainyhead-like 1	190					cellular lipid metabolic process|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding			pancreas(1)|skin(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.246)		CGATCGGAATCTCAATACTGA	0.542													37	100	---	---	---	---	PASS	G	10101464	G	G	10101464	3	3	143	1	0	0	0	0	1	0	0	0	6763	913	32	2	582	2	GRHL1	2	10101464	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08		10101464	233097909	36	50720										
BIRC6	57448	broad.mit.edu	37	chr2	32692709	32692709	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	acatttggacattaggagaaGaggtggatggaaggcggttg	17	3	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:32692709G>C	uc010ezu.2	+	27	5607	c.5473G>C	c.(5473-5475)GAG>CAG	p.E1825Q		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1825					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)					ATTAGGAGAAGAGGTGGATGG	0.438													16	61	---	---	---	---	PASS	C	32692709	C	C	32692709	3	2	143	1	0	0	0	0	1	0	0	0	1438	943	33	2	5579	2	BIRC6	2	32692709	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	22591245	32692709	210506664	37	50721										
MAP4K3	8491	broad.mit.edu	37	chr2	39552894	39552894	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	taataatttttcagcagtagGtctttttttcggatttttgg	8	4	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:39552894G>T	uc002rro.2	-	11	875	c.784C>A	c.(784-786)CCT>ACT	p.P262T	MAP4K3_uc002rrp.2_Missense_Mutation_p.P262T|MAP4K3_uc010yns.1_5'UTR	NM_003618	NP_003609	Q8IVH8	M4K3_HUMAN	mitogen-activated protein kinase kinase kinase	262	Protein kinase.				JNK cascade		ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(3)|lung(3)|stomach(1)|pancreas(1)	8		all_hematologic(82;0.211)				TCAGCAGTAGGTCTTTTTTTC	0.249													13	44	---	---	---	---	PASS	T	39552894	T	T	39552894	3	4	143	1	0	0	0	0	1	0	0	0	9261	1261	44	3	1996	3	MAP4K3	2	39552894	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	6860185	39552894	203646479	38	50722										
SLC8A1	6546	broad.mit.edu	37	chr2	40656873	40656873	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccacataaacacagagtgcaAtaatgatgaacatattgaat	6	7	0	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:40656873A>G	uc002rrx.2	-	1	572	c.548T>C	c.(547-549)ATT>ACT	p.I183T	SLC8A1_uc002rry.2_Missense_Mutation_p.I183T|SLC8A1_uc002rrz.2_Missense_Mutation_p.I183T|SLC8A1_uc002rsa.2_Missense_Mutation_p.I183T|SLC8A1_uc002rsd.3_Missense_Mutation_p.I183T|SLC8A1_uc002rsb.1_Missense_Mutation_p.I183T|SLC8A1_uc010fan.1_Missense_Mutation_p.I183T|SLC8A1_uc002rsc.1_Missense_Mutation_p.I183T	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	183	Helical; (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	ACAGAGTGCAATAATGATGAA	0.473													9	21	---	---	---	---	PASS	G	40656873	G	G	40656873	3	3	143	1	0	0	0	0	1	0	0	0	14706	101	4	5	2521	5	SLC8A1	2	40656873	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	1103979	40656873	202542500	39	50723										
UGP2	7360	broad.mit.edu	37	chr2	64109731	64109731	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgcaaaggccctaaaagtctGattggtgtgaggaatgagaa	13	5	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:64109731G>A	uc002scm.2	+	4	693	c.387G>A	c.(385-387)CTG>CTA	p.L129L	UGP2_uc002scl.2_Silent_p.L118L|UGP2_uc010ypx.1_Silent_p.L138L	NM_006759	NP_006750	Q16851	UGPA_HUMAN	UDP-glucose pyrophosphorylase 2 isoform a	129					glycogen biosynthetic process|phosphorylation|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	metal ion binding|protein binding|UTP:glucose-1-phosphate uridylyltransferase activity				0						CTAAAAGTCTGATTGGTGTGA	0.403													28	59	---	---	---	---	PASS	A	64109731	A	A	64109731	2	1	143	1	0	0	0	0	0	0	0	1	16940	1277	45	2		2	UGP2	2	64109731	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	23452858	64109731	179089642	40	50724										
ALMS1	7840	broad.mit.edu	37	chr2	73717648	73717648	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggcagaccaagttccaccctAggagtaaacagatcgagttc	10	11	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:73717648A>G	uc002sje.1	+	12	8676	c.8565A>G	c.(8563-8565)CTA>CTG	p.L2855L	ALMS1_uc002sjf.1_Silent_p.L2811L|ALMS1_uc002sjg.2_Silent_p.L2241L|ALMS1_uc002sjh.1_Silent_p.L2241L	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2853					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GTTCCACCCTAGGAGTAAACA	0.408													30	33	---	---	---	---	PASS	G	73717648	G	G	73717648	2	3	143	1	0	0	0	0	0	0	0	1	535	407	15	5		5	ALMS1	2	73717648	Silent	SNP	A	TCGA-66-2754-01A-01D-0983-08	9607917	73717648	169481725	41	50725										
C2orf78	388960	broad.mit.edu	37	chr2	74041054	74041054	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tctgtatccatcactatctgCcagccttgttcaggggacac	8	13	4	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:74041054C>A	uc002sjr.1	+	2	669	c.548C>A	c.(547-549)GCC>GAC	p.A183D		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	183										ovary(2)	2						TCACTATCTGCCAGCCTTGTT	0.433													15	38	---	---	---	---	PASS	A	74041054	A	A	74041054	3	1	143	1	0	0	0	0	1	0	0	0	2195	739	26	3	554	3	C2orf78	2	74041054	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	323406	74041054	169158319	42	50726										
SNRNP200	23020	broad.mit.edu	37	chr2	96952118	96952118	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctcaaaggcactgtttctcaGagcagacacgggcaagggct	12	11	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:96952118G>C	uc002svu.2	-	29	4020	c.3934C>G	c.(3934-3936)CTG>GTG	p.L1312V	SNRNP200_uc002svt.2_5'Flank|SNRNP200_uc010yuj.1_5'Flank|SNRNP200_uc002svv.1_5'Flank|SNRNP200_uc002svw.1_Missense_Mutation_p.L384V	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1312						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						CTGTTTCTCAGAGCAGACACG	0.532													32	90	---	---	---	---	PASS	C	96952118	C	C	96952118	3	2	143	1	0	0	0	0	1	0	0	0	14852	933	33	2	2544	2	SNRNP200	2	96952118	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	22911064	96952118	146247255	43	50727										
NPHP1	4867	broad.mit.edu	37	chr2	110886762	110886762	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	attgcaatgcatgctacccaCcctgagagcatccatcacat	6	14	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:110886762C>T	uc002tfn.3	-	18	1975	c.1881_splice	c.e18+1	p.R627_splice	NPHP1_uc002tfm.3_Splice_Site_p.R572_splice|NPHP1_uc002tfl.3_Splice_Site_p.R628_splice|NPHP1_uc002tfo.3_Splice_Site_p.R509_splice|NPHP1_uc010ywx.1_Splice_Site_p.R571_splice|NPHP1_uc010fjv.1_Splice_Site_p.R571_splice	NM_207181	NP_997064	O15259	NPHP1_HUMAN	nephrocystin 1 isoform 2						actin cytoskeleton organization|cell projection organization|cell-cell adhesion|excretion|retina development in camera-type eye|signal transduction|spermatid differentiation|visual behavior	adherens junction|cell-cell junction|cilium axoneme|cytoplasm|cytoskeleton|motile cilium|photoreceptor connecting cilium	protein binding|structural molecule activity			ovary(2)	2						ATGCTACCCACCCTGAGAGCA	0.443													9	9	---	---	---	---	PASS	T	110886762	T	T	110886762	5	4	143	1	0	0	0	0	0	0	1	0	10579	521	18	3	328	3	NPHP1	2	110886762	Splice_Site	SNP	C	TCGA-66-2754-01A-01D-0983-08	13934644	110886762	132312611	44	50728										
MERTK	10461	broad.mit.edu	37	chr2	112786239	112786239	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aggacggtacatcctgaatgGgggcagtgaggaatgggaag	18	5	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:112786239G>C	uc002thk.1	+	19	2920	c.2798G>C	c.(2797-2799)GGG>GCG	p.G933A	MERTK_uc002thl.1_Missense_Mutation_p.G757A	NM_006343	NP_006334	Q12866	MERTK_HUMAN	MER receptor tyrosine kinase precursor	933	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|cell-cell signaling|leukocyte migration	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|upper_aerodigestive_tract(1)|stomach(1)|kidney(1)	9						ATCCTGAATGGGGGCAGTGAG	0.527													21	45	---	---	---	---	PASS	C	112786239	C	C	112786239	3	2	143	1	0	0	0	0	1	0	0	0	9479	1232	43	4	2872	4	MERTK	2	112786239	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1899477	112786239	130413134	45	50729										
DDX18	8886	broad.mit.edu	37	chr2	118582248	118582248	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttgtatgttggcgttgatgaTgataaagcgaatgcaacagt	12	4	0	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:118582248T>A	uc002tlh.1	+	8	1269	c.1170T>A	c.(1168-1170)GAT>GAA	p.D390E		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	390							ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4						GCGTTGATGATGATAAAGCGA	0.393													30	89	---	---	---	---	PASS	A	118582248	A	A	118582248	3	1	143	1	0	0	0	0	1	0	0	0	4345	1461	51	5	1200	5	DDX18	2	118582248	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	5796009	118582248	124617125	46	50730										
CNTNAP5	129684	broad.mit.edu	37	chr2	125261958	125261958	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tatttgctgctgcccggcacCccccaaattgatgggctctc	9	15	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:125261958C>A	uc002tno.2	+	8	1513	c.1149C>A	c.(1147-1149)ACC>ACA	p.T383T	CNTNAP5_uc010flu.2_Silent_p.T384T	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	383	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TGCCCGGCACCCCCCAAATTG	0.532													18	43	---	---	---	---	PASS	A	125261958	A	A	125261958	2	1	143	1	0	0	0	0	0	0	0	1	3650	610	22	3		3	CNTNAP5	2	125261958	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	6679710	125261958	117937415	47	50731										
PKP4	8502	broad.mit.edu	37	chr2	159488331	159488331	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccttcgttctgccgtgtctcCcgacttgcacattactccta	6	16	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:159488331C>A	uc002tzv.2	+	8	1480	c.1220C>A	c.(1219-1221)CCC>CAC	p.P407H	PKP4_uc002tzt.1_Missense_Mutation_p.P259H|PKP4_uc002tzu.2_Missense_Mutation_p.P407H|PKP4_uc002tzw.2_Missense_Mutation_p.P407H|PKP4_uc002tzx.2_Missense_Mutation_p.P65H|PKP4_uc002tzy.1_Missense_Mutation_p.P65H|PKP4_uc002tzz.1_Missense_Mutation_p.P405H|PKP4_uc002uaa.2_Missense_Mutation_p.P259H	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	407					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						GCCGTGTCTCCCGACTTGCAC	0.502										HNSCC(62;0.18)			6	100	---	---	---	---	PASS	A	159488331	A	A	159488331	3	1	143	1	0	0	0	0	1	0	0	0	11987	623	22	3	1246	3	PKP4	2	159488331	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	34226373	159488331	83711042	48	50732										
BAZ2B	29994	broad.mit.edu	37	chr2	160304825	160304825	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agaagaatcatgattctgggCtgggggagcaaatagtggtg	16	4	2	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:160304825C>A	uc002uao.2	-	5	782	c.430G>T	c.(430-432)GCC>TCC	p.A144S	BAZ2B_uc002uap.2_Missense_Mutation_p.A142S|BAZ2B_uc002uas.1_Missense_Mutation_p.A81S|BAZ2B_uc002uau.1_Missense_Mutation_p.A142S|BAZ2B_uc002uaq.1_Missense_Mutation_p.A72S|BAZ2B_uc002uat.3_Missense_Mutation_p.A81S|BAZ2B_uc010fop.1_Missense_Mutation_p.A142S	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	144					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TGATTCTGGGCTGGGGGAGCA	0.438													28	84	---	---	---	---	PASS	A	160304825	A	A	160304825	3	1	143	1	0	0	0	0	1	0	0	0	1332	797	28	3	6208	3	BAZ2B	2	160304825	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	816494	160304825	82894548	49	50733										
SCN2A	6326	broad.mit.edu	37	chr2	166231463	166231463	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cgtaggacttggatatctgtCtctacttcaagtagtaagta	9	7	3	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:166231463C>T	uc002udc.2	+	22	4531	c.4241C>T	c.(4240-4242)TCT>TTT	p.S1414F	SCN2A_uc002udd.2_Missense_Mutation_p.S1414F|SCN2A_uc002ude.2_Missense_Mutation_p.S1414F	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1414	III.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	GGATATCTGTCTCTACTTCAA	0.299													8	24	---	---	---	---	PASS	T	166231463	T	T	166231463	3	4	143	1	0	0	0	0	1	0	0	0	13916	913	32	2	4419	2	SCN2A	2	166231463	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	5926638	166231463	76967910	50	50734										
PPIG	9360	broad.mit.edu	37	chr2	170493060	170493060	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaaagttaaagaccataaatCtaacagcaaagagagagaca	8	6	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:170493060C>G	uc002uez.2	+	14	1512	c.1292C>G	c.(1291-1293)TCT>TGT	p.S431C	PPIG_uc010fpx.2_Missense_Mutation_p.S416C|PPIG_uc010fpy.2_Missense_Mutation_p.S424C|PPIG_uc002ufb.2_Missense_Mutation_p.S431C|PPIG_uc002ufd.2_Missense_Mutation_p.S428C	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G	431					protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	GACCATAAATCTAACAGCAAA	0.333													8	35	---	---	---	---	PASS	G	170493060	G	G	170493060	3	3	143	1	0	0	0	0	1	0	0	0	12324	913	32	2	1338	2	PPIG	2	170493060	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	4261597	170493060	72706313	51	50735										
HOXD11	3237	broad.mit.edu	37	chr2	176973689	176973689	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctataccaagtaccagatccGcgaactggaacgcgagtttt	9	11	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:176973689G>A	uc002uki.2	+	2	836	c.836G>A	c.(835-837)CGC>CAC	p.R279H	HOXD11_uc010fqx.2_RNA	NM_021192	NP_067015	P31277	HXD11_HUMAN	homeobox D11	279	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0521)|READ - Rectum adenocarcinoma(9;0.0678)		TACCAGATCCGCGAACTGGAA	0.522			T	NUP98	AML								34	70	---	---	---	---	PASS	A	176973689	A	A	176973689	3	1	143	1	0	0	0	0	1	0	0	0	7320	1087	38	1	842	1	HOXD11	2	176973689	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	6480629	176973689	66225684	52	50736										
OSBPL6	114880	broad.mit.edu	37	chr2	179236961	179236961	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttattcctagccctgatgagGtaagactcattttaaataga	7	7	1	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:179236961G>T	uc002ulx.2	+	14	1773	c.1395_splice	c.e14+1	p.E465_splice	OSBPL6_uc002ulw.2_Intron|OSBPL6_uc002uly.2_Splice_Site_p.E490_splice|OSBPL6_uc010zfe.1_Splice_Site_p.E434_splice|OSBPL6_uc002ulz.2_Intron|OSBPL6_uc002uma.2_Splice_Site_p.E469_splice	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform						lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			CCCTGATGAGGTAAGACTCAT	0.323													19	13	---	---	---	---	PASS	T	179236961	T	T	179236961	5	4	143	1	0	0	0	0	0	0	1	0	11281	1275	44	3	1564	3	OSBPL6	2	179236961	Splice_Site	SNP	G	TCGA-66-2754-01A-01D-0983-08	2263272	179236961	63962412	53	50737										
TTN	7273	broad.mit.edu	37	chr2	179437048	179437048	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cagattctgcggtttcagcaGgcagcccaatgccatattca	9	12	3	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:179437048G>T	uc010zfg.1	-	275	66331	c.66107C>A	c.(66106-66108)CCT>CAT	p.P22036H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P15731H|TTN_uc010zfi.1_Missense_Mutation_p.P15664H|TTN_uc010zfj.1_Missense_Mutation_p.P15539H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22963							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)			GGTTTCAGCAGGCAGCCCAAT	0.453													12	31	---	---	---	---	PASS	T	179437048	T	T	179437048	3	4	143	1	0	0	0	0	1	0	0	0	16732	1000	35	3	34316	3	TTN	2	179437048	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	200087	179437048	63762325	54	50738										
TTN	7273	broad.mit.edu	37	chr2	179458090	179458090	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gacatagtttctctcttttcCaggatgtagtttgtgatggg	11	6	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:179458090C>A	uc010zfg.1	-	248	51365	c.51141G>T	c.(51139-51141)CTG>CTT	p.L17047L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.L10742L|TTN_uc010zfi.1_Silent_p.L10675L|TTN_uc010zfj.1_Silent_p.L10550L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17974							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)			CTCTCTTTTCCAGGATGTAGT	0.403													5	84	---	---	---	---	PASS	A	179458090	A	A	179458090	2	1	143	1	0	0	0	0	0	0	0	1	16732	581	21	3		3	TTN	2	179458090	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	21042	179458090	63741283	55	50739										
TTN	7273	broad.mit.edu	37	chr2	179650444	179650444	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccacatggactaatctttccGttgttagatctgtagttttc	7	9	2	1	rs149061352	by1000genomes	TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:179650444G>A	uc010zfg.1	-	15	2620	c.2396C>T	c.(2395-2397)ACG>ATG	p.T799M	TTN_uc010zfh.1_Missense_Mutation_p.T753M|TTN_uc010zfi.1_Missense_Mutation_p.T753M|TTN_uc010zfj.1_Missense_Mutation_p.T753M|TTN_uc002unb.2_Missense_Mutation_p.T799M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	799							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.T753M(1)		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)			TAATCTTTCCGTTGTTAGATC	0.418													22	58	---	---	---	---	PASS	A	179650444	A	A	179650444	3	1	143	1	0	0	0	0	1	0	0	0	16732	1145	40	1	108984	1	TTN	2	179650444	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	192354	179650444	63548929	56	50740										
COL5A2	1290	broad.mit.edu	37	chr2	189927941	189927941	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggcccatgctcccgggctgcCctctgattcctatggagcct	11	16	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:189927941C>T	uc002uqk.2	-	27	2101	c.1826G>A	c.(1825-1827)GGG>GAG	p.G609E	COL5A2_uc010frx.2_Missense_Mutation_p.G185E	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	609					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			CCCGGGCTGCCCTCTGATTCC	0.527													17	48	---	---	---	---	PASS	T	189927941	T	T	189927941	3	4	143	1	0	0	0	0	1	0	0	0	3697	623	22	3	2785	3	COL5A2	2	189927941	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	10277497	189927941	53271432	57	50741										
AOX1	316	broad.mit.edu	37	chr2	201501692	201501692	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggtcatgtgccatgtaaggcGtgttggtggagcgtttggag	18	5	1	0	rs113582006	by1000genomes	TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:201501692G>A	uc002uvx.2	+	22	2506	c.2405G>A	c.(2404-2406)CGT>CAT	p.R802H	AOX1_uc010zhf.1_Missense_Mutation_p.R358H|AOX1_uc010fsu.2_Missense_Mutation_p.R168H	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	802					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	CATGTAAGGCGTGTTGGTGGA	0.443													20	42	---	---	---	---	PASS	A	201501692	A	A	201501692	3	1	143	1	0	0	0	0	1	0	0	0	729	1145	40	1	2491	1	AOX1	2	201501692	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	11573751	201501692	41697681	58	50742										
ALS2CR8	79800	broad.mit.edu	37	chr2	203820411	203820411	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcccagaatgctggaagaacCccttctggggcctcttcagc	10	14	3	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:203820411C>T	uc002uzo.2	+	7	852	c.572C>T	c.(571-573)CCC>CTC	p.P191L	ALS2CR8_uc002uzn.2_Missense_Mutation_p.P89L|ALS2CR8_uc002uzm.2_Missense_Mutation_p.P191L|ALS2CR8_uc010zhy.1_Missense_Mutation_p.P191L|ALS2CR8_uc010zhz.1_RNA|ALS2CR8_uc010ftu.1_RNA|ALS2CR8_uc010zia.1_Missense_Mutation_p.P115L|ALS2CR8_uc010zib.1_Missense_Mutation_p.P115L|ALS2CR8_uc010zic.1_Missense_Mutation_p.P103L|ALS2CR8_uc002uzp.2_Missense_Mutation_p.P191L	NM_001104586	NP_001098056	Q8N187	AL2S8_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	191										large_intestine(1)|ovary(1)	2						CTGGAAGAACCCCTTCTGGGG	0.398													7	21	---	---	---	---	PASS	T	203820411	T	T	203820411	3	4	143	1	0	0	0	0	1	0	0	0	555	623	22	3	590	3	ALS2CR8	2	203820411	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2318719	203820411	39378962	59	50743										
C2orf24	27013	broad.mit.edu	37	chr2	220037441	220037441	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccaggccataggtatggtacCaggggctggacagcgcagtg	16	10	0	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:220037441C>A	uc002vju.3	-	8	1252	c.1100G>T	c.(1099-1101)TGG>TTG	p.W367L	NHEJ1_uc002vjq.3_5'Flank|SLC23A3_uc010zkr.1_5'Flank|SLC23A3_uc010zks.1_5'Flank|SLC23A3_uc010fwb.2_5'Flank|C2orf24_uc002vjv.2_Missense_Mutation_p.W367L	NM_015680	NP_056495	Q9BV87	CNPD1_HUMAN	hypothetical protein LOC27013	367	Pro-rich.				regulation of cyclin-dependent protein kinase activity	integral to membrane	protein kinase binding				0		Renal(207;0.0915)		Epithelial(149;8.92e-07)|all cancers(144;0.000151)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGTATGGTACCAGGGGCTGGA	0.602													7	29	---	---	---	---	PASS	A	220037441	A	A	220037441	3	1	143	1	0	0	0	0	1	0	0	0	2159	595	21	3	136	3	C2orf24	2	220037441	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	16217030	220037441	23161932	60	50744										
ABCB6	10058	broad.mit.edu	37	chr2	220077986	220077986	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcggcatagctgaagtgcacGttctcaaactcaatacggcc	9	12	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:220077986G>A	uc002vkc.1	-	12	2059	c.1782C>T	c.(1780-1782)AAC>AAT	p.N594N	ABCB6_uc010fwe.1_Silent_p.N548N	NM_005689	NP_005680	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B, member 6	594	ABC transporter.				cadmium ion transmembrane transport|cellular iron ion homeostasis|detoxification of cadmium ion|porphyrin biosynthetic process	ATP-binding cassette (ABC) transporter complex|Golgi apparatus|integral to mitochondrial outer membrane|plasma membrane|vacuolar membrane	ATP binding|efflux transmembrane transporter activity|heme binding|heme-transporting ATPase activity			breast(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;1.22e-06)|all cancers(144;0.000201)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGAAGTGCACGTTCTCAAACT	0.542													13	39	---	---	---	---	PASS	A	220077986	A	A	220077986	2	1	143	1	0	0	0	0	0	0	0	1	45	1136	40	1		1	ABCB6	2	220077986	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	40545	220077986	23121387	61	50745										
PTPRN	5798	broad.mit.edu	37	chr2	220161200	220161200	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtatgggacagcgggccctgCgtggctatgtaggctggcat	17	9	0	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:220161200C>T	uc002vkz.2	-	17	2438	c.2349G>A	c.(2347-2349)ACG>ACA	p.T783T	PTPRN_uc010zlc.1_Silent_p.T693T|PTPRN_uc002vla.2_Silent_p.T754T|uc010zld.1_5'Flank|MIR153-1_hsa-mir-153-1|MI0000463_5'Flank	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	783	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		GCGGGCCCTGCGTGGCTATGT	0.602													16	42	---	---	---	---	PASS	T	220161200	T	T	220161200	2	4	143	1	0	0	0	0	0	0	0	1	12807	755	27	1		1	PTPRN	2	220161200	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	83214	220161200	23038173	62	50746										
NEU2	4759	broad.mit.edu	37	chr2	233899524	233899524	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctctacactcaccccacacaCtcctggcagagggccgacct	7	19	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:233899524C>A	uc010zmn.1	+	2	900	c.900C>A	c.(898-900)CAC>CAA	p.H300Q		NM_005383	NP_005374	Q9Y3R4	NEUR2_HUMAN	neuraminidase 2	300							exo-alpha-sialidase activity				0		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0271)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0839)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0488)		ACCCCACACACTCCTGGCAGA	0.711													6	19	---	---	---	---	PASS	A	233899524	A	A	233899524	3	1	143	1	0	0	0	0	1	0	0	0	10342	564	20	3	906	3	NEU2	2	233899524	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	13738324	233899524	9299849	63	50747										
COL6A3	1293	broad.mit.edu	37	chr2	238289580	238289580	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcaggggttccagagagggtCctgagaggtgccagcaagcc	16	10	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:238289580C>T	uc002vwl.2	-	5	2160	c.1875G>A	c.(1873-1875)AGG>AGA	p.R625R	COL6A3_uc002vwo.2_Silent_p.R419R|COL6A3_uc010znj.1_Silent_p.R218R|COL6A3_uc002vwq.2_Silent_p.R419R|COL6A3_uc002vwr.2_Silent_p.R218R|COL6A3_uc010znk.1_Silent_p.R625R	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	625	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CAGAGAGGGTCCTGAGAGGTG	0.552													6	17	---	---	---	---	PASS	T	238289580	T	T	238289580	2	4	143	1	0	0	0	0	0	0	0	1	3701	854	30	2		2	COL6A3	2	238289580	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	4390056	238289580	4909793	64	50748										
OR6B2	389090	broad.mit.edu	37	chr2	240969639	240969639	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtcagacacgtaccagatctCcaggaaagacatggagctca	10	11	3	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:240969639C>A	uc002vyr.2	-	2	254	c.208G>T	c.(208-210)GAG>TAG	p.E70*	OR6B2_uc010zoc.1_Nonsense_Mutation_p.E70*	NM_001005853	NP_001005853	Q6IFH4	OR6B2_HUMAN	olfactory receptor, family 6, subfamily B,	70	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.4e-29)|all cancers(36;2.08e-27)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)		TACCAGATCTCCAGGAAAGAC	0.552													5	87	---	---	---	---	PASS	A	240969639	A	A	240969639	4	1	143	1	0	0	0	0	0	1	0	0	11188	864	30	2	732	2	OR6B2	2	240969639	Nonsense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2680059	240969639	2229734	65	50749										
AQP12A	375318	broad.mit.edu	37	chr2	241631490	241631490	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctcgggccctgctgcctggaGatgaggacgctggtcgagct	16	12	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr2:241631490G>C	uc002vzu.2	+	2	193	c.124_splice	c.e2-1	p.M42_splice	AQP12A_uc002vzv.2_Intron	NM_198998	NP_945349	Q8IXF9	AQ12A_HUMAN	aquaporin 12A							integral to membrane	transporter activity				0		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;2.2e-31)|all cancers(36;1.08e-28)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.52e-06)|Lung(119;0.00163)|LUSC - Lung squamous cell carcinoma(224;0.008)|Colorectal(34;0.0124)|COAD - Colon adenocarcinoma(134;0.0757)		GCTGCCTGGAGATGAGGACGC	0.706													5	10	---	---	---	---	PASS	C	241631490	C	C	241631490	5	2	143	1	0	0	0	0	0	0	1	0	824	956	33	2	129	2	AQP12A	2	241631490	Splice_Site	SNP	G	TCGA-66-2754-01A-01D-0983-08	661851	241631490	1567883	66	50750										
CELSR3	1951	broad.mit.edu	37	chr3	48670977	48670977	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccccagctcctccaaatgctCctggttcagcagcggccgtt	9	17	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:48670977C>A	uc003cuf.1	-	37	10297	c.10297G>T	c.(10297-10299)GAG>TAG	p.E3433*	SLC26A6_uc003cug.2_Nonsense_Mutation_p.E18*|SLC26A6_uc003cuh.2_Nonsense_Mutation_p.E39*|SLC26A6_uc010hke.2_5'UTR|SLC26A6_uc003cuk.2_Nonsense_Mutation_p.E39*|SLC26A6_uc003cui.2_Nonsense_Mutation_p.E39*|SLC26A6_uc003cuj.2_Nonsense_Mutation_p.E39*|SLC26A6_uc011bbp.1_Nonsense_Mutation_p.E39*	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	Error:Variant_position_missing_in_Q9NYQ7_after_alignment					homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TCCAAATGCTCCTGGTTCAGC	0.647													21	44	---	---	---	---	PASS	A	48670977	A	A	48670977	4	1	143	1	0	0	0	0	0	1	0	0	3223	864	30	2		2	CELSR3	3	48670977	Nonsense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08		48670977	149351453	67	50751										
DNAH1	25981	broad.mit.edu	37	chr3	52430701	52430701	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaacgccctggagcgccataAgtttgggcccctgggcttca	13	13	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:52430701A>C	uc011bef.1	+	72	11759	c.11498A>C	c.(11497-11499)AAG>ACG	p.K3833T	DNAH1_uc003ddv.2_Missense_Mutation_p.K691T	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3898	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GAGCGCCATAAGTTTGGGCCC	0.567													27	26	---	---	---	---	PASS	C	52430701	C	C	52430701	3	2	143	1	0	0	0	0	1	0	0	0	4597	72	3	5	11780	5	DNAH1	3	52430701	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	3759724	52430701	145591729	68	50752										
PBRM1	55193	broad.mit.edu	37	chr3	52623085	52623085	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tttgatttaaaacaaacttaCcagctgaatcctcccacagt	4	11	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:52623085C>G	uc003des.2	-	18	2977	c.2965_splice	c.e18+1	p.G989_splice	PBRM1_uc003dex.2_Splice_Site|PBRM1_uc003deq.2_Splice_Site_p.G989_splice|PBRM1_uc003der.2_Splice_Site_p.G957_splice|PBRM1_uc003det.2_Splice_Site_p.G1004_splice|PBRM1_uc003deu.2_Splice_Site_p.G1004_splice|PBRM1_uc003dev.2_Splice_Site|PBRM1_uc003dew.2_Splice_Site_p.G989_splice|PBRM1_uc010hmk.1_Splice_Site_p.E989_splice|PBRM1_uc003dey.2_Splice_Site_p.E989_splice|PBRM1_uc003dez.1_Splice_Site_p.G988_splice|PBRM1_uc003dfb.1_Splice_Site_p.G901_splice|PBRM1_uc003dfa.1_Splice_Site_p.G335_splice	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4						chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		AACAAACTTACCAGCTGAATC	0.413			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								26	38	---	---	---	---	PASS	G	52623085	G	G	52623085	5	3	143	1	0	0	0	0	0	0	1	0	11491	521	18	4	1986	4	PBRM1	3	52623085	Splice_Site	SNP	C	TCGA-66-2754-01A-01D-0983-08	192384	52623085	145399345	69	50753										
CACNA1D	776	broad.mit.edu	37	chr3	53842704	53842704	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agatcctccttcaactttgaGtgcctgcgccggcagagcag	11	13	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:53842704G>A	uc003dgv.3	+	46	5941	c.5778G>A	c.(5776-5778)GAG>GAA	p.E1926E	CACNA1D_uc003dgu.3_Silent_p.E1946E|CACNA1D_uc003dgy.3_Silent_p.E1902E|CACNA1D_uc003dgw.3_Silent_p.E1593E|CACNA1D_uc011bes.1_RNA	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1926	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	TCAACTTTGAGTGCCTGCGCC	0.602													31	8	---	---	---	---	PASS	A	53842704	A	A	53842704	2	1	143	1	0	0	0	0	0	0	0	1	2541	1020	36	3		3	CACNA1D	3	53842704	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	1219619	53842704	144179726	70	50754										
FAM116A	201627	broad.mit.edu	37	chr3	57657985	57657985	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgtatgaaaaacagttacctGaatttgaatctggaaaagac	8	5	1	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:57657985G>A	uc003dja.2	-	3	388	c.317C>T	c.(316-318)TCA>TTA	p.S106L		NM_152678	NP_689891	Q8IWF6	F116A_HUMAN	hypothetical protein LOC201627	106										pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000621)|KIRC - Kidney renal clear cell carcinoma(284;0.0485)|Kidney(284;0.0607)		ACAGTTACCTGAATTTGAATC	0.259													13	10	---	---	---	---	PASS	A	57657985	A	A	57657985	3	1	143	1	0	0	0	0	1	0	0	0	5407	1294	45	2	1581	2	FAM116A	3	57657985	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	3815281	57657985	140364445	71	50755										
PRICKLE2	166336	broad.mit.edu	37	chr3	64133179	64133179	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cgccgggactccttggccctGgcgttctggaaggcggaatc	15	13	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:64133179G>T	uc003dmf.2	-	7	1573	c.987C>A	c.(985-987)GCC>GCA	p.A329A		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	329						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)		CCTTGGCCCTGGCGTTCTGGA	0.587													5	80	---	---	---	---	PASS	T	64133179	T	T	64133179	2	4	143	1	0	0	0	0	0	0	0	1	12487	1335	47	3		3	PRICKLE2	3	64133179	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	6475194	64133179	133889251	72	50756										
EPHA6	285220	broad.mit.edu	37	chr3	97356918	97356920	+	In_Frame_Del	DEL	ACA	-	-													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	atgatccagaagctgcttatAcaacaactgtaagtttatat							TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:97356918_97356920delACA	uc010how.1	+	14	2819_2821	c.2776_2778delACA	c.(2776-2778)ACAdel	p.T928del	EPHA6_uc011bgp.1_3'UTR|EPHA6_uc003drs.3_In_Frame_Del_p.T320del|EPHA6_uc003drr.3_In_Frame_Del_p.T320del|EPHA6_uc003drt.2_In_Frame_Del_p.T320del|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	833	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						AGCTGCTTATACAACAACTGTAA	0.365													13	7	---	---	---	---		-	97356920	-	-	97356918	7	5	143	1	0	1	0	1	0	0	0	0	5171	391	14	0	2898	0	EPHA6	3	97356918	In_Frame_Del	DEL	ACA	TCGA-66-2754-01A-01D-0983-08	33223739	97356918	100665512	73	50757										
LSAMP	4045	broad.mit.edu	37	chr3	116163861	116163861	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggcaactgtttccgatccggCtgaactctcctgaccatggt	10	13	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:116163861C>A	uc003ebt.2	-	1	518	c.18G>T	c.(16-18)CAG>CAT	p.Q6H	LSAMP_uc011bis.1_Missense_Mutation_p.Q6H|LSAMP_uc010hqq.1_RNA	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein	6					cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)		TCCGATCCGGCTGAACTCTCC	0.632													4	12	---	---	---	---	PASS	A	116163861	A	A	116163861	3	1	143	1	0	0	0	0	1	0	0	0	9048	796	28	3	1026	3	LSAMP	3	116163861	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	18806943	116163861	81858569	74	50758										
DTX3L	151636	broad.mit.edu	37	chr3	122288791	122288791	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agggaagcatggttttcactGtttcaagagactcacttcca	9	9	3	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:122288791G>A	uc003efk.2	+	3	1944	c.1855G>A	c.(1855-1857)GTT>ATT	p.V619I	DTX3L_uc010hrj.2_Intron	NM_138287	NP_612144	Q8TDB6	DTX3L_HUMAN	deltex 3-like	619					histone monoubiquitination|response to DNA damage stimulus	cytoplasm|nucleus	histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)	4				GBM - Glioblastoma multiforme(114;0.0459)		GGTTTTCACTGTTTCAAGAGA	0.408													36	80	---	---	---	---	PASS	A	122288791	A	A	122288791	3	1	143	1	0	0	0	0	1	0	0	0	4796	1377	48	3	1865	3	DTX3L	3	122288791	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	6124930	122288791	75733639	75	50759										
PARP14	54625	broad.mit.edu	37	chr3	122437429	122437429	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gagtatcaggagttgaatgaGctgcagaagaagttaaatat	12	3	1	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:122437429G>C	uc003efq.3	+	14	4490	c.4431G>C	c.(4429-4431)GAG>GAC	p.E1477D	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Missense_Mutation_p.E1194D|PARP14_uc003efs.1_Missense_Mutation_p.E1194D	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	1477					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		AGTTGAATGAGCTGCAGAAGA	0.398													74	51	---	---	---	---	PASS	C	122437429	C	C	122437429	3	2	143	1	0	0	0	0	1	0	0	0	11458	962	34	4	4485	4	PARP14	3	122437429	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	148638	122437429	75585001	76	50760										
COPB2	9276	broad.mit.edu	37	chr3	139086994	139086994	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctgatgcaattacctcaaagGcatcttcaatgccatcttca	5	12	5	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:139086994G>A	uc003etf.3	-	13	1668	c.1538C>T	c.(1537-1539)GCC>GTC	p.A513V	COPB2_uc011bmv.1_Missense_Mutation_p.A484V|COPB2_uc010hui.2_Missense_Mutation_p.A484V	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	513					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						TACCTCAAAGGCATCTTCAAT	0.348													20	36	---	---	---	---	PASS	A	139086994	A	A	139086994	3	1	143	1	0	0	0	0	1	0	0	0	3729	1203	42	3	1222	3	COPB2	3	139086994	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	16649565	139086994	58935436	77	50761										
CLSTN2	64084	broad.mit.edu	37	chr3	140251226	140251226	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agtttcctgtggtaaccttaTacatggatggagcaacatat	9	7	0	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:140251226T>C	uc003etn.2	+	9	1595	c.1405T>C	c.(1405-1407)TAC>CAC	p.Y469H	CLSTN2_uc003etm.2_Missense_Mutation_p.Y469H	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	469	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						GGTAACCTTATACATGGATGG	0.423										HNSCC(16;0.037)			62	7	---	---	---	---	PASS	C	140251226	C	C	140251226	3	2	143	1	0	0	0	0	1	0	0	0	3562	1406	49	5	1439	5	CLSTN2	3	140251226	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	1164232	140251226	57771204	78	50762										
HLTF	6596	broad.mit.edu	37	chr3	148789184	148789184	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tattttcccgtgacaccatcCaagctagagcttgtttttga	7	10	0	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:148789184C>T	uc003ewq.1	-	7	967	c.749G>A	c.(748-750)TGG>TAG	p.W250*	HLTF_uc003ewr.1_Nonsense_Mutation_p.W250*|HLTF_uc003ews.1_Nonsense_Mutation_p.W250*|HLTF_uc010hve.1_Nonsense_Mutation_p.W250*	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	250					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			TGACACCATCCAAGCTAGAGC	0.368													15	24	---	---	---	---	PASS	T	148789184	T	T	148789184	4	4	143	1	0	0	0	0	0	1	0	0	7215	595	21	3	2356	3	HLTF	3	148789184	Nonsense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	8537958	148789184	49233246	79	50763										
USP13	8975	broad.mit.edu	37	chr3	179399768	179399768	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctggacagagtgtatacatgCacctgaaaagacatgtgcga	11	8	0	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:179399768C>T	uc003fkh.2	+	2	352	c.271C>T	c.(271-273)CAC>TAC	p.H91Y	USP13_uc003fkf.2_Missense_Mutation_p.H91Y	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	91					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			TGTATACATGCACCTGAAAAG	0.443													62	55	---	---	---	---	PASS	T	179399768	T	T	179399768	3	4	143	1	0	0	0	0	1	0	0	0	17041	710	25	3	277	3	USP13	3	179399768	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	30610584	179399768	18622662	80	50764										
TFRC	7037	broad.mit.edu	37	chr3	195800873	195800873	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcaggtcatcccaatataagCgacgtgctgcagggaagtcc	11	11	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr3:195800873C>T	uc003fvz.3	-	4	645	c.362G>A	c.(361-363)CGC>CAC	p.R121H	TFRC_uc003fwa.3_Missense_Mutation_p.R121H|TFRC_uc010hzy.2_Missense_Mutation_p.R40H|TFRC_uc011btr.1_Intron	NM_003234	NP_003225	P02786	TFR1_HUMAN	transferrin receptor	121	Extracellular (Potential).				cellular iron ion homeostasis|endocytosis|interspecies interaction between organisms|proteolysis|transferrin transport|transmembrane transport	coated pit|endosome|integral to plasma membrane|melanosome	peptidase activity|transferrin receptor activity			ovary(3)	3	all_cancers(143;1.94e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.36e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.17e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00233)		CCAATATAAGCGACGTGCTGC	0.517			T	BCL6	NHL						OREG0016005	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	27	---	---	---	---	PASS	T	195800873	T	T	195800873	3	4	143	1	0	0	0	0	1	0	0	0	15809	768	27	1	1984	1	TFRC	3	195800873	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	16401105	195800873	2221557	81	50765										
ARAP2	116984	broad.mit.edu	37	chr4	36115803	36115803	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	atcacttacctagctcttcaTtttcaatgacttcaaatgtg	4	10	5	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr4:36115803T>C	uc003gsq.1	-	26	4483	c.4145A>G	c.(4144-4146)AAT>AGT	p.N1382S		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1382	Ras-associating.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TAGCTCTTCATTTTCAATGAC	0.289													38	38	---	---	---	---	PASS	C	36115803	C	C	36115803	3	2	143	1	0	0	0	0	1	0	0	0	839	1493	52	5	1001	5	ARAP2	4	36115803	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08		36115803	155038473	82	50766										
BEND4	389206	broad.mit.edu	37	chr4	42145670	42145670	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgacagaggatccacgtcggCcagatggccatattcactgg	12	11	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr4:42145670C>T	uc003gwn.2	-	3	1409	c.829G>A	c.(829-831)GCC>ACC	p.A277T	BEND4_uc003gwm.2_Missense_Mutation_p.A277T|BEND4_uc011byy.1_Missense_Mutation_p.A277T	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	277											0						TCCACGTCGGCCAGATGGCCA	0.517													16	13	---	---	---	---	PASS	T	42145670	T	T	42145670	3	4	143	1	0	0	0	0	1	0	0	0	1400	739	26	3	791	3	BEND4	4	42145670	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	6029867	42145670	149008606	83	50767										
GABRA4	2557	broad.mit.edu	37	chr4	46930488	46930488	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccaaacacgtgacgagtagaAgcagatccaactgaagcctt	9	11	0	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr4:46930488A>G	uc003gxg.2	-	9	1558	c.1419T>C	c.(1417-1419)GCT>GCC	p.A473A		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	473	Cytoplasmic (Probable).				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			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GACGAGTAGAAGCAGATCCAA	0.478													15	24	---	---	---	---	PASS	G	46930488	G	G	46930488	2	3	143	1	0	0	0	0	0	0	0	1	6163	59	3	5		5	GABRA4	4	46930488	Silent	SNP	A	TCGA-66-2754-01A-01D-0983-08	4784818	46930488	144223788	84	50768										
HERC6	55008	broad.mit.edu	37	chr4	89363429	89363429	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctgcatgcaagaggcatacaGaaaatggaaatagtatttcg	10	6	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr4:89363429G>C	uc011cdi.1	+	23	3069	c.2886G>C	c.(2884-2886)CAG>CAC	p.Q962H	HERC6_uc011cdj.1_Missense_Mutation_p.Q926H|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	962	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		GAGGCATACAGAAAATGGAAA	0.343													8	9	---	---	---	---	PASS	C	89363429	C	C	89363429	3	2	143	1	0	0	0	0	1	0	0	0	7062	933	33	2	2773	2	HERC6	4	89363429	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	42432941	89363429	101790847	85	50769										
TNIP3	79931	broad.mit.edu	37	chr4	122079902	122079902	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcccattgctggttaacttcCaggagctgaaatcattaaaa	7	9	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr4:122079902C>A	uc010ing.2	-	3	349	c.153G>T	c.(151-153)CTG>CTT	p.L51L	TNIP3_uc010inh.2_Silent_p.L51L|TNIP3_uc011cgj.1_Silent_p.L109L|TNIP3_uc010ini.2_Silent_p.L51L	NM_024873	NP_079149	Q96KP6	TNIP3_HUMAN	TNFAIP3 interacting protein 3	51	Potential.									ovary(1)	1						GGTTAACTTCCAGGAGCTGAA	0.323													20	9	---	---	---	---	PASS	A	122079902	A	A	122079902	2	1	143	1	0	0	0	0	0	0	0	1	16313	581	21	3		3	TNIP3	4	122079902	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	32716473	122079902	69074374	86	50770										
CYP4V2	285440	broad.mit.edu	37	chr4	187118688	187118688	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tctcacccatattttatagaAacagctatggggaagaatat	7	7	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr4:187118688A>T	uc003iyw.3	+	5	910	c.606A>T	c.(604-606)GAA>GAT	p.E202D		NM_207352	NP_997235	Q6ZWL3	CP4V2_HUMAN	cytochrome P450, family 4, subfamily v,	202					response to stimulus|visual perception	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.33e-10)|BRCA - Breast invasive adenocarcinoma(30;3.84e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000293)|LUSC - Lung squamous cell carcinoma(40;0.00242)|READ - Rectum adenocarcinoma(43;0.17)		ATTTTATAGAAACAGCTATGG	0.383													11	20	---	---	---	---	PASS	T	187118688	T	T	187118688	3	4	143	1	0	0	0	0	1	0	0	0	4192	28	1	5	624	5	CYP4V2	4	187118688	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	65038786	187118688	4035588	87	50771										
FAT1	2195	broad.mit.edu	37	chr4	187539652	187539652	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aattttggaagctgcatttcCggtggaaggattttaacata	10	5	0	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr4:187539652C>T	uc003izf.2	-	10	8276	c.8088G>A	c.(8086-8088)CCG>CCA	p.P2696P		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2696	Extracellular (Potential).|Cadherin 24.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GCTGCATTTCCGGTGGAAGGA	0.393										HNSCC(5;0.00058)			38	59	---	---	---	---	PASS	T	187539652	T	T	187539652	2	4	143	1	0	0	0	0	0	0	0	1	5689	639	23	1		1	FAT1	4	187539652	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	420964	187539652	3614624	88	50772										
SLC6A19	340024	broad.mit.edu	37	chr5	1221346	1221346	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtggcgcgtggtcagcccccTgctcatgctgatcatcttcc	11	15	4	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:1221346T>C	uc003jbw.3	+	11	1675	c.1619T>C	c.(1618-1620)CTG>CCG	p.L540P		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	540	Helical; Name=11; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GTCAGCCCCCTGCTCATGCTG	0.557													8	32	---	---	---	---	PASS	C	1221346	C	C	1221346	3	2	143	1	0	0	0	0	1	0	0	0	14682	1580	55	5	1661	5	SLC6A19	5	1221346	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08		1221346	179693914	89	50773										
IRX1	79192	broad.mit.edu	37	chr5	3599450	3599450	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tccaatacggggaccccgggCggcccaagaacgccacccgc	12	18	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:3599450C>A	uc003jde.2	+	2	440	c.388C>A	c.(388-390)CGG>AGG	p.R130R		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	130	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GGACCCCGGGCGGCCCAAGAA	0.647													20	20	---	---	---	---	PASS	A	3599450	A	A	3599450	2	1	143	1	0	0	0	0	0	0	0	1	7843	759	27	1		1	IRX1	5	3599450	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	2378104	3599450	177315810	90	50774										
ADCY2	108	broad.mit.edu	37	chr5	7707871	7707871	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	acttgaatggcgcttataaaGtggaggagggagatggtgac	16	4	0	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:7707871G>C	uc003jdz.1	+	9	1388	c.1321G>C	c.(1321-1323)GTG>CTG	p.V441L	ADCY2_uc011cmo.1_Missense_Mutation_p.V261L	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	441	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CGCTTATAAAGTGGAGGAGGG	0.408													22	75	---	---	---	---	PASS	C	7707871	C	C	7707871	3	2	143	1	0	0	0	0	1	0	0	0	294	1029	36	4	1355	4	ADCY2	5	7707871	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	4108421	7707871	173207389	91	50775										
DNAH5	1767	broad.mit.edu	37	chr5	13862706	13862706	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caagctgtcctccatgttggCgatgatttccgaggtactgt	11	10	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:13862706C>T	uc003jfd.2	-	29	4789	c.4747G>A	c.(4747-4749)GCC>ACC	p.A1583T		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1583	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TCCATGTTGGCGATGATTTCC	0.453									Kartagener_syndrome				9	56	---	---	---	---	PASS	T	13862706	T	T	13862706	3	4	143	1	0	0	0	0	1	0	0	0	4604	768	27	1	9331	1	DNAH5	5	13862706	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	6154835	13862706	167052554	92	50776										
CDH12	1010	broad.mit.edu	37	chr5	21752268	21752268	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	atcgtaatggatgacgttgtCtctgatgtcttctttagagg	11	6	3	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:21752268C>A	uc010iuc.2	-	12	2421	c.1963G>T	c.(1963-1965)GAC>TAC	p.D655Y	CDH12_uc011cno.1_Missense_Mutation_p.D615Y|CDH12_uc003jgk.2_Missense_Mutation_p.D655Y|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	655	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						ATGACGTTGTCTCTGATGTCT	0.453										HNSCC(59;0.17)			35	43	---	---	---	---	PASS	A	21752268	A	A	21752268	3	1	143	1	0	0	0	0	1	0	0	0	3098	913	32	2	425	2	CDH12	5	21752268	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	7889562	21752268	159162992	93	50777										
PRDM9	56979	broad.mit.edu	37	chr5	23521148	23521148	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aaagggaatgcccaaggcgtCattcagtaatgaatctagtt	10	7	3	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:23521148C>A	uc003jgo.2	+	6	550	c.368C>A	c.(367-369)TCA>TAA	p.S123*		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	123					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						CCCAAGGCGTCATTCAGTAAT	0.398										HNSCC(3;0.000094)			20	36	---	---	---	---	PASS	A	23521148	A	A	23521148	4	1	143	1	0	0	0	0	0	1	0	0	12463	838	29	2	386	2	PRDM9	5	23521148	Nonsense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	1768880	23521148	157394112	94	50778										
ADAMTS12	81792	broad.mit.edu	37	chr5	33624402	33624402	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agagccatctcccaggcacaCaccgcagcgatcctcggtgg	11	16	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:33624402C>G	uc003jia.1	-	14	2240	c.2077G>C	c.(2077-2079)GTG>CTG	p.V693L	ADAMTS12_uc010iuq.1_Intron	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	693	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CCCAGGCACACACCGCAGCGA	0.517										HNSCC(64;0.19)			17	52	---	---	---	---	PASS	G	33624402	G	G	33624402	3	3	143	1	0	0	0	0	1	0	0	0	257	478	17	4	2751	4	ADAMTS12	5	33624402	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	10103254	33624402	147290858	95	50779										
ELOVL7	79993	broad.mit.edu	37	chr5	60062459	60062459	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gccagcaggtacgtgccatcTgcagaagcacaaataaatct	9	11	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:60062459T>A	uc003jsi.3	-	6	537	c.337_splice	c.e6-1	p.M113_splice	ELOVL7_uc011cqo.1_Splice_Site_p.M26_splice|ELOVL7_uc010iwk.2_Splice_Site_p.M113_splice|ELOVL7_uc003jsj.3_Splice_Site_p.M100_splice	NM_024930	NP_079206	A1L3X0	ELOV7_HUMAN	elongation of very long chain fatty acids-like						fatty acid elongation, polyunsaturated fatty acid|fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding				0		Lung NSC(810;2.56e-06)|Prostate(74;0.0115)|Breast(144;0.0244)|Ovarian(174;0.0481)				ACGTGCCATCTGCAGAAGCAC	0.254													45	2	---	---	---	---	PASS	A	60062459	A	A	60062459	5	1	143	1	0	0	0	0	0	0	1	0	5079	1594	55	5	526	5	ELOVL7	5	60062459	Splice_Site	SNP	T	TCGA-66-2754-01A-01D-0983-08	26438057	60062459	120852801	96	50780										
MAST4	375449	broad.mit.edu	37	chr5	66461703	66461703	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gagcctgccactcagtccctCggtggctctagcagagaggg	14	13	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:66461703C>T	uc003jut.1	+	28	6197	c.6129C>T	c.(6127-6129)CTC>CTT	p.L2043L	MAST4_uc003juw.2_Silent_p.L1971L|MAST4_uc003jux.2_Intron	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	2235						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)		CTCAGTCCCTCGGTGGCTCTA	0.617													13	19	---	---	---	---	PASS	T	66461703	T	T	66461703	2	4	143	1	0	0	0	0	0	0	0	1	9327	871	31	2		2	MAST4	5	66461703	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	6399244	66461703	114453557	97	50781										
PDE8B	8622	broad.mit.edu	37	chr5	76640754	76640754	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caagcgatgaccacgtgattCaggtatggaaagaaaccacc	10	10	1	3	rs144671246		TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:76640754C>T	uc003kfa.2	+	7	919	c.874C>T	c.(874-876)CAG>TAG	p.Q292*	PDE8B_uc003kfb.2_Nonsense_Mutation_p.Q272*|PDE8B_uc003kfc.2_Nonsense_Mutation_p.Q292*|PDE8B_uc003kfd.2_Nonsense_Mutation_p.Q292*|PDE8B_uc003kfe.2_Nonsense_Mutation_p.Q292*	NM_003719	NP_003710	O95263	PDE8B_HUMAN	phosphodiesterase 8B isoform 1	292	PAS.				cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity				0		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)		CCACGTGATTCAGGTATGGAA	0.363													20	23	---	---	---	---	PASS	T	76640754	T	T	76640754	4	4	143	1	0	0	0	0	0	1	0	0	11654	827	29	2	900	2	PDE8B	5	76640754	Nonsense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	10179051	76640754	104274506	98	50782										
HSPA9	3313	broad.mit.edu	37	chr5	137906809	137906809	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aactgaaggggtggttctggCaccttcggcattctccagca	12	11	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:137906809C>A	uc003ldf.2	-	4	358	c.250G>T	c.(250-252)GCC>TCC	p.A84S	HSPA9_uc011cyw.1_Missense_Mutation_p.A15S	NM_004134	NP_004125	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 precursor	84					anti-apoptosis|protein folding	cell surface|mitochondrial nucleoid	ATP binding|unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GTGGTTCTGGCACCTTCGGCA	0.418													14	27	---	---	---	---	PASS	A	137906809	A	A	137906809	3	1	143	1	0	0	0	0	1	0	0	0	7417	710	25	3	1845	3	HSPA9	5	137906809	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	61266055	137906809	43008451	99	50783										
PURA	5813	broad.mit.edu	37	chr5	139494223	139494223	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agttcctggtgcgcgagaacCgcaagtactacatggatctc	11	11	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:139494223C>T	uc003lfa.2	+	1	516	c.457C>T	c.(457-459)CGC>TGC	p.R153C		NM_005859	NP_005850	Q00577	PURA_HUMAN	purine-rich element binding protein A	153					DNA unwinding involved in replication|DNA-dependent DNA replication initiation	DNA replication factor A complex	double-stranded telomeric DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|single-stranded DNA binding|transcription factor binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGCGAGAACCGCAAGTACTA	0.706													4	14	---	---	---	---	PASS	T	139494223	T	T	139494223	3	4	143	1	0	0	0	0	1	0	0	0	12827	652	23	1	459	1	PURA	5	139494223	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	1587414	139494223	41421037	100	50784										
PCDHB9	56127	broad.mit.edu	37	chr5	140568338	140568338	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cagacagagactcaggcaccAacgcccaggtcacctactcg	9	16	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:140568338A>C	uc003liw.1	+	3	1447	c.1447A>C	c.(1447-1449)AAC>CAC	p.N483H		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	483	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTCAGGCACCAACGCCCAGGT	0.647													100	13	---	---	---	---	PASS	C	140568338	C	C	140568338	3	2	143	1	0	0	0	0	1	0	0	0	11549	117	5	5	1448	5	PCDHB9	5	140568338	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	1074115	140568338	40346922	101	50785										
FCHSD1	89848	broad.mit.edu	37	chr5	141026213	141026213	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgtagtcacgggcagctcggCtggtcaagcgctgaacctct	13	12	3	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:141026213C>A	uc003llk.2	-	11	1052	c.1001G>T	c.(1000-1002)AGC>ATC	p.S334I	FCHSD1_uc010jgg.2_5'UTR|FCHSD1_uc003llj.2_RNA	NM_033449	NP_258260	Q86WN1	FCSD1_HUMAN	FCH and double SH3 domains 1	334									FCHSD1/BRAF(2)	skin(2)|ovary(1)|central_nervous_system(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCAGCTCGGCTGGTCAAGCG	0.602													3	14	---	---	---	---	PASS	A	141026213	A	A	141026213	3	1	143	1	0	0	0	0	1	0	0	0	5789	797	28	3	1111	3	FCHSD1	5	141026213	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	457875	141026213	39889047	102	50786										
ADRB2	154	broad.mit.edu	37	chr5	148207577	148207577	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgggccatcaaggtactgtgCctagcgataacattgattca	10	9	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:148207577C>G	uc003lpr.1	+	1	1422	c.1183C>G	c.(1183-1185)CCT>GCT	p.P395A	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	395	Cytoplasmic.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	AGGTACTGTGCCTAGCGATAA	0.463													19	46	---	---	---	---	PASS	G	148207577	G	G	148207577	3	3	143	1	0	0	0	0	1	0	0	0	341	739	26	4	1185	4	ADRB2	5	148207577	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	7181364	148207577	32707683	103	50787										
ARSI	340075	broad.mit.edu	37	chr5	149676856	149676856	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aaatcttgcattttttcttgCgacgaccccgggagaagctt	9	10	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:149676856C>T	uc003lrv.2	-	2	2220	c.1631G>A	c.(1630-1632)CGC>CAC	p.R544H		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	544						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTTTTTCTTGCGACGACCCCG	0.537													64	35	---	---	---	---	PASS	T	149676856	T	T	149676856	3	4	143	1	0	0	0	0	1	0	0	0	994	768	27	1	82	1	ARSI	5	149676856	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	1469279	149676856	31238404	104	50788										
RNF145	153830	broad.mit.edu	37	chr5	158621750	158621750	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	atttgatgtccagcatagagGagcagagcagtcaaaaaata	10	6	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:158621750G>A	uc003lxp.2	-	3	580	c.267C>T	c.(265-267)CTC>CTT	p.L89L	RNF145_uc011ddy.1_Silent_p.L103L|RNF145_uc003lxo.1_Silent_p.L117L|RNF145_uc011ddz.1_Silent_p.L106L|RNF145_uc010jiq.1_Silent_p.L119L|RNF145_uc011dea.1_Silent_p.L105L	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	89	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAGCATAGAGGAGCAGAGCAG	0.348													44	112	---	---	---	---	PASS	A	158621750	A	A	158621750	2	1	143	1	0	0	0	0	0	0	0	1	13447	1161	41	2		2	RNF145	5	158621750	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	8944894	158621750	22293510	105	50789										
STK10	6793	broad.mit.edu	37	chr5	171488197	171488197	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gcgctccttgtcacagatctCccgcctgttgtcggtggtga	12	13	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:171488197C>T	uc003mbo.1	-	14	2458	c.2158G>A	c.(2158-2160)GAG>AAG	p.E720K		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	720	Potential.						ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TCACAGATCTCCCGCCTGTTG	0.617													42	56	---	---	---	---	PASS	T	171488197	T	T	171488197	3	4	143	1	0	0	0	0	1	0	0	0	15285	864	30	2	772	2	STK10	5	171488197	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	12866447	171488197	9427063	106	50790										
DRD1	1812	broad.mit.edu	37	chr5	174869482	174869482	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	taggtgacaatcatgatggcCacagggatgtaaaagcttat	11	6	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr5:174869482C>A	uc003mcz.2	-	2	1566	c.621G>T	c.(619-621)GTG>GTT	p.V207V		NM_000794	NP_000785	P21728	DRD1_HUMAN	dopamine receptor D1	207	Helical; Name=5; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|adult walking behavior|cerebral cortex GABAergic interneuron migration|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|mating behavior|positive regulation of cAMP biosynthetic process|positive regulation of cell migration|positive regulation of potassium ion transport|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of synaptic transmission, glutamatergic|prepulse inhibition|response to drug|synapse assembly|visual learning	endoplasmic reticulum membrane|membrane fraction	protein binding			ovary(2)|skin(1)	3	all_cancers(89;0.00895)|Renal(175;0.000159)|Lung NSC(126;0.00625)|all_lung(126;0.0104)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)		Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Carphenazine(DB01038)|Chlorprothixene(DB01239)|Clozapine(DB00363)|Cocaine(DB00907)|Dopamine(DB00988)|Fenoldopam(DB00800)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Methylergonovine(DB00353)|Minaprine(DB00805)|Olanzapine(DB00334)|Pegademase bovine(DB00061)|Pergolide(DB01186)|Perphenazine(DB00850)|Prochlorperazine(DB00433)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Triflupromazine(DB00508)|Zuclopenthixol(DB01624)	TCATGATGGCCACAGGGATGT	0.502													64	10	---	---	---	---	PASS	A	174869482	A	A	174869482	2	1	143	1	0	0	0	0	0	0	0	1	4756	581	21	3		3	DRD1	5	174869482	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	3381285	174869482	6045778	107	50791										
FOXC1	2296	broad.mit.edu	37	chr6	1611183	1611183	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gttcgagaacggcagcttccTgcggcggcggcggcgcttca	16	13	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:1611183T>A	uc003mtp.2	+	1	503	c.503T>A	c.(502-504)CTG>CAG	p.L168Q		NM_001453	NP_001444	Q12948	FOXC1_HUMAN	forkhead box C1	168	Fork-head.				anti-apoptosis|artery morphogenesis|blood vessel remodeling|brain development|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|germ cell migration|glycosaminoglycan metabolic process|lacrimal gland development|lymphangiogenesis|metanephros development|negative regulation of mitotic cell cycle|neural crest cell fate commitment|Notch signaling pathway|odontogenesis of dentine-containing tooth|ossification|ovarian follicle development|paraxial mesodermal cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	nuclear heterochromatin|transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|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|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(93;0.0733)	all_cancers(2;4.45e-07)|all_epithelial(2;4.33e-05)|all_lung(73;0.0713)|all_hematologic(90;0.0895)		Epithelial(2;0.0904)|OV - Ovarian serous cystadenocarcinoma(45;0.095)|all cancers(2;0.168)		GGCAGCTTCCTGCGGCGGCGG	0.547													49	26	---	---	---	---	PASS	A	1611183	A	A	1611183	3	1	143	1	0	0	0	0	1	0	0	0	5994	1580	55	5	505	5	FOXC1	6	1611183	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08		1611183	169503884	108	50792										
CAGE1	285782	broad.mit.edu	37	chr6	7373571	7373571	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cttccaggttttccttttcaAgtttctggaattcctcctgt	6	11	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:7373571A>C	uc003mxi.2	-	4	1794	c.1073T>G	c.(1072-1074)CTT>CGT	p.L358R	CAGE1_uc003mxh.2_RNA|CAGE1_uc003mxj.2_Missense_Mutation_p.L249R|CAGE1_uc003mxk.1_Missense_Mutation_p.L249R	NM_205864	NP_995586	Q8TC20	CAGE1_HUMAN	cancer antigen 1	494	Potential.										0	Ovarian(93;0.0418)					TTCCTTTTCAAGTTTCTGGAA	0.383													8	29	---	---	---	---	PASS	C	7373571	C	C	7373571	3	2	143	1	0	0	0	0	1	0	0	0	2572	72	3	5	1184	5	CAGE1	6	7373571	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	5762388	7373571	163741496	109	50793										
CCDC90A	63933	broad.mit.edu	37	chr6	13802567	13802567	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cacaatgatttctgcttgttGagtagcaaaccctaagcaag	8	9	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:13802567G>A	uc003nbd.2	-	3	675	c.547C>T	c.(547-549)CAA>TAA	p.Q183*	CCDC90A_uc010jpf.2_RNA	NM_001031713	NP_001026883	Q96AQ8	CC90A_HUMAN	coiled-coil domain containing 90A precursor	183						integral to membrane|mitochondrion					0	Breast(50;0.0027)|Ovarian(93;0.0964)	all_hematologic(90;0.117)				TCTGCTTGTTGAGTAGCAAAC	0.438													22	84	---	---	---	---	PASS	A	13802567	A	A	13802567	4	1	143	1	0	0	0	0	0	1	0	0	2868	1299	45	2	560	2	CCDC90A	6	13802567	Nonsense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	6428996	13802567	157312500	110	50794										
SCAND3	114821	broad.mit.edu	37	chr6	28543271	28543271	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	actttaatgaccgcaaaaaaGttaactttgtacagagatct	6	7	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:28543271G>T	uc003nlo.2	-	3	1829	c.1211C>A	c.(1210-1212)ACT>AAT	p.T404N		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	404	Integrase catalytic.				DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCGCAAAAAAGTTAACTTTGT	0.368													12	55	---	---	---	---	PASS	T	28543271	T	T	28543271	3	4	143	1	0	0	0	0	1	0	0	0	13876	1029	36	3	2774	3	SCAND3	6	28543271	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	14740704	28543271	142571796	111	50795										
ZNF311	282890	broad.mit.edu	37	chr6	28963923	28963923	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	catagaaagctgatttctggTcttgaatgctttcccacact	7	10	2	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:28963923T>C	uc003nlu.2	-	7	1369	c.856A>G	c.(856-858)ACC>GCC	p.T286A	ZNF311_uc011dlk.1_Missense_Mutation_p.T194A|ZNF311_uc003nlv.2_Missense_Mutation_p.T194A	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	286	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						TGATTTCTGGTCTTGAATGCT	0.438													11	62	---	---	---	---	PASS	C	28963923	C	C	28963923	3	2	143	1	0	0	0	0	1	0	0	0	17831	1667	58	5	1148	5	ZNF311	6	28963923	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	420652	28963923	142151144	112	50796										
HLA-E	3133	broad.mit.edu	37	chr6	30459173	30459173	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	catgaggggctacccgagccCgtcaccctgagatggagtaa	13	12	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:30459173C>T	uc003nqg.2	+	4	908	c.870C>T	c.(868-870)CCC>CCT	p.P290P	HLA-E_uc011dmg.1_RNA|HLA-E_uc011dmh.1_Silent_p.P331P	NM_005516	NP_005507	P13747	HLAE_HUMAN	major histocompatibility complex, class I, E	290	Ig-like C1-type.|Alpha-3.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			central_nervous_system(4)|ovary(1)	5						TACCCGAGCCCGTCACCCTGA	0.617													12	74	---	---	---	---	PASS	T	30459173	T	T	30459173	2	4	143	1	0	0	0	0	0	0	0	1	7210	639	23	1		1	HLA-E	6	30459173	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	1495250	30459173	140655894	113	50797										
FGD2	221472	broad.mit.edu	37	chr6	36976741	36976741	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cgtggggtctgagcccaggaCagtcagcaggaggtacctga	16	10	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:36976741C>G	uc010jwp.1	+	2	371	c.200C>G	c.(199-201)ACA>AGA	p.T67R	FGD2_uc003onf.2_Missense_Mutation_p.T67R|FGD2_uc011dtu.1_Missense_Mutation_p.T67R|FGD2_uc003ong.2_5'UTR|FGD2_uc011dtv.1_5'UTR	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	67					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3						GAGCCCAGGACAGTCAGCAGG	0.627													15	62	---	---	---	---	PASS	G	36976741	G	G	36976741	3	3	143	1	0	0	0	0	1	0	0	0	5833	478	17	4	206	4	FGD2	6	36976741	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	6517568	36976741	134138326	114	50798										
UBR2	23304	broad.mit.edu	37	chr6	42603239	42603239	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gccttcacactacaaatgaaAttaacacatgtcatttcaat	3	10	3	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:42603239A>G	uc011dur.1	+	14	1629	c.1629A>G	c.(1627-1629)AAA>AAG	p.K543K	UBR2_uc011dus.1_Silent_p.K188K|UBR2_uc010jxv.1_Silent_p.K47K|UBR2_uc003osh.2_RNA	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	543					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			TACAAATGAAATTAACACATG	0.433													12	60	---	---	---	---	PASS	G	42603239	G	G	42603239	2	3	143	1	0	0	0	0	0	0	0	1	16899	98	4	5		5	UBR2	6	42603239	Silent	SNP	A	TCGA-66-2754-01A-01D-0983-08	5626498	42603239	128511828	115	50799										
KIAA0240	23506	broad.mit.edu	37	chr6	42796618	42796618	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cgtttgcaagcaatacagtgGgtgtacaacatggctttatg	11	7	0	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:42796618G>T	uc003osn.1	+	6	698	c.547G>T	c.(547-549)GGT>TGT	p.G183C	KIAA0240_uc003osm.1_Missense_Mutation_p.G183C|KIAA0240_uc011duw.1_Missense_Mutation_p.G183C|KIAA0240_uc003oso.1_Missense_Mutation_p.G183C|KIAA0240_uc003osp.1_Missense_Mutation_p.G183C	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	183										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			CAATACAGTGGGTGTACAACA	0.453													6	104	---	---	---	---	PASS	T	42796618	T	T	42796618	3	4	143	1	0	0	0	0	1	0	0	0	8164	1232	43	3	561	3	KIAA0240	6	42796618	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	193379	42796618	128318449	116	50800										
MEA1	4201	broad.mit.edu	37	chr6	42981026	42981026	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gctccaatccccagtgccttCtgaagggccctgatgtccca	9	16	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:42981026C>G	uc003otk.2	-	2	197	c.130G>C	c.(130-132)GAA>CAA	p.E44Q	MEA1_uc010jyc.1_Missense_Mutation_p.E31Q|KLHDC3_uc003otl.2_5'Flank|KLHDC3_uc003otm.2_5'Flank|KLHDC3_uc010jyf.2_5'Flank|KLHDC3_uc003otn.2_5'Flank	NM_014623	NP_055438	Q16626	MEA1_HUMAN	male-enhanced antigen	44					cell differentiation|male gonad development|spermatogenesis		protein binding			central_nervous_system(1)|skin(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)			CCAGTGCCTTCTGAAGGGCCC	0.602													38	88	---	---	---	---	PASS	G	42981026	G	G	42981026	3	3	143	1	0	0	0	0	1	0	0	0	9420	922	32	2	439	2	MEA1	6	42981026	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	184408	42981026	128134041	117	50801										
PKHD1	5314	broad.mit.edu	37	chr6	51900450	51900450	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tagcgacattgatggcacacGagtaagatccaaataatatc	8	8	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:51900450G>C	uc003pah.1	-	28	3443	c.3167C>G	c.(3166-3168)TCG>TGG	p.S1056W	PKHD1_uc003pai.2_Missense_Mutation_p.S1056W	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1056	IPT/TIG 5.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GATGGCACACGAGTAAGATCC	0.448													21	87	---	---	---	---	PASS	C	51900450	C	C	51900450	3	2	143	1	0	0	0	0	1	0	0	0	11971	1059	37	2	9256	2	PKHD1	6	51900450	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	8919424	51900450	119214617	118	50802										
KLHL31	401265	broad.mit.edu	37	chr6	53517046	53517046	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gcccgcggcgtacacgagccCgttgaacacgctcaggctga	13	15	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:53517046C>G	uc003pcb.3	-	3	1396	c.1255G>C	c.(1255-1257)GGG>CGG	p.G419R	uc003pcc.1_Silent_p.P146P	NM_001003760	NP_001003760	Q9H511	KLH31_HUMAN	kelch repeat and BTB (POZ) domain containing 1	419	Kelch 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent					ovary(1)	1	Lung NSC(77;0.0158)					TACACGAGCCCGTTGAACACG	0.612													19	62	---	---	---	---	PASS	G	53517046	G	G	53517046	3	3	143	1	0	0	0	0	1	0	0	0	8385	652	23	4	653	4	KLHL31	6	53517046	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	1616596	53517046	117598021	119	50803										
COL12A1	1303	broad.mit.edu	37	chr6	75899527	75899527	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcagtccaggcactgacagaGcattctgaaatacatttgat	8	9	2	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:75899527G>C	uc003phs.2	-	6	565	c.399C>G	c.(397-399)TGC>TGG	p.C133W	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_5'Flank	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	133					cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CACTGACAGAGCATTCTGAAA	0.348													5	58	---	---	---	---	PASS	C	75899527	C	C	75899527	3	2	143	1	0	0	0	0	1	0	0	0	3669	963	34	4	9036	4	COL12A1	6	75899527	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	22382481	75899527	95215540	120	50804										
MDN1	23195	broad.mit.edu	37	chr6	90382276	90382276	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcagacataccataatcttcTtgtgggcttgcttggtcagt	9	9	4	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:90382276T>C	uc003pnn.1	-	81	13736	c.13620A>G	c.(13618-13620)CAA>CAG	p.Q4540Q		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4540					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)		CATAATCTTCTTGTGGGCTTG	0.373													3	49	---	---	---	---	PASS	C	90382276	C	C	90382276	2	2	143	1	0	0	0	0	0	0	0	1	9415	1606	56	5		5	MDN1	6	90382276	Silent	SNP	T	TCGA-66-2754-01A-01D-0983-08	14482749	90382276	80732791	121	50805										
RTN4IP1	84816	broad.mit.edu	37	chr6	107035607	107035607	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctgcaacatgccatctgctaTgcccaatcggtccatgttca	7	14	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:107035607T>A	uc003prj.2	-	7	1414	c.937A>T	c.(937-939)ATA>TTA	p.I313L	RTN4IP1_uc010kdd.2_Intron|RTN4IP1_uc003prk.2_Missense_Mutation_p.I213L	NM_032730	NP_116119	Q8WWV3	RT4I1_HUMAN	reticulon 4 interacting protein 1 precursor	313						mitochondrion	oxidoreductase activity|zinc ion binding				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;9.45e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.0144)	Epithelial(6;0.000873)|all cancers(7;0.00363)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0394)	all cancers(137;0.113)|BRCA - Breast invasive adenocarcinoma(108;0.127)|Epithelial(106;0.144)		CCATCTGCTATGCCCAATCGG	0.502													47	39	---	---	---	---	PASS	A	107035607	A	A	107035607	3	1	143	1	0	0	0	0	1	0	0	0	13729	1464	51	5	265	5	RTN4IP1	6	107035607	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	16653331	107035607	64079460	122	50806										
SLC35F1	222553	broad.mit.edu	37	chr6	118635213	118635213	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttcaggactttatctcctgtCtttcttcaccatcctcattg	4	13	6	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:118635213C>G	uc003pxx.3	+	8	1226	c.1025C>G	c.(1024-1026)TCT>TGT	p.S342C	SLC35F1_uc003pxy.1_Missense_Mutation_p.S147C	NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	342	Helical; (Potential).				transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		TATCTCCTGTCTTTCTTCACC	0.473													22	44	---	---	---	---	PASS	G	118635213	G	G	118635213	3	3	143	1	0	0	0	0	1	0	0	0	14588	913	32	2	1055	2	SLC35F1	6	118635213	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	11599606	118635213	52479854	123	50807										
TAAR2	9287	broad.mit.edu	37	chr6	132938493	132938493	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gagaagttcaaaaagggatcCaataaaattgtgaagaaaca	9	4	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:132938493C>A	uc003qdl.1	-	2	852	c.852G>T	c.(850-852)TTG>TTT	p.L284F	TAAR2_uc010kfr.1_Missense_Mutation_p.L239F	NM_001033080	NP_001028252	Q9P1P5	TAAR2_HUMAN	trace amine associated receptor 2 isoform 1	284	Helical; Name=6; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00608)|GBM - Glioblastoma multiforme(226;0.0151)		AAAAGGGATCCAATAAAATTG	0.328													4	40	---	---	---	---	PASS	A	132938493	A	A	132938493	3	1	143	1	0	0	0	0	1	0	0	0	15487	593	21	3	207	3	TAAR2	6	132938493	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	14303280	132938493	38176574	124	50808										
ARID1B	57492	broad.mit.edu	37	chr6	157527589	157527589	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgactgccccggacgccgctGcagacccaaaggagaagccc	12	16	0	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:157527589G>A	uc003qqn.2	+	20	5412	c.5260G>A	c.(5260-5262)GCA>ACA	p.A1754T	ARID1B_uc003qqo.2_Missense_Mutation_p.A1714T|ARID1B_uc003qqp.2_Missense_Mutation_p.A1701T	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1759					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		GGACGCCGCTGCAGACCCAAA	0.507													20	47	---	---	---	---	PASS	A	157527589	A	A	157527589	3	1	143	1	0	0	0	0	1	0	0	0	914	1319	46	3	5392	3	ARID1B	6	157527589	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	24589096	157527589	13587478	125	50809										
SNX9	51429	broad.mit.edu	37	chr6	158357063	158357063	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaagaaattgccagtctcgtGgcagaacaggtactaacata	10	8	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:158357063G>T	uc003qqv.1	+	14	1607	c.1434G>T	c.(1432-1434)GTG>GTT	p.V478V		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	478	BAR.				cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)		CCAGTCTCGTGGCAGAACAGG	0.348													7	25	---	---	---	---	PASS	T	158357063	T	T	158357063	2	4	143	1	0	0	0	0	0	0	0	1	14909	1335	47	3		3	SNX9	6	158357063	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	829474	158357063	12758004	126	50810										
RSPH3	83861	broad.mit.edu	37	chr6	159414882	159414882	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgaacttaccagtggccctgTctggagtgcataagtgttac	11	9	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:159414882T>A	uc003qrx.2	-	2	809	c.619A>T	c.(619-621)ACA>TCA	p.T207S	RSPH3_uc010kju.2_Missense_Mutation_p.T207S|RSPH3_uc003qry.1_Missense_Mutation_p.T207S	NM_031924	NP_114130	Q86UC2	RSPH3_HUMAN	radial spoke 3 homolog	207										ovary(1)|skin(1)	2		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.36e-16)|BRCA - Breast invasive adenocarcinoma(81;5.92e-06)		AGTGGCCCTGTCTGGAGTGCA	0.274													33	17	---	---	---	---	PASS	A	159414882	A	A	159414882	3	1	143	1	0	0	0	0	1	0	0	0	13705	1667	58	5	1091	5	RSPH3	6	159414882	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	1057819	159414882	11700185	127	50811										
PARK2	5071	broad.mit.edu	37	chr6	161990421	161990421	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaatcctgaagtgatggagcTctttaatcaaggagttggga	13	5	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr6:161990421T>C	uc003qtx.3	-	8	1033	c.899A>G	c.(898-900)GAG>GGG	p.E300G	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Missense_Mutation_p.E109G|PARK2_uc003qtw.3_Missense_Mutation_p.E109G|PARK2_uc003qty.3_Missense_Mutation_p.E272G|PARK2_uc003qtz.3_Missense_Mutation_p.E151G|PARK2_uc010kke.1_Missense_Mutation_p.E319G|PARK2_uc011egf.1_5'UTR	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	300					aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GTGATGGAGCTCTTTAATCAA	0.428													14	25	---	---	---	---	PASS	C	161990421	C	C	161990421	3	2	143	1	0	0	0	0	1	0	0	0	11449	1551	54	5	518	5	PARK2	6	161990421	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	2575539	161990421	9124646	128	50812										
TMEM106B	54664	broad.mit.edu	37	chr7	12254526	12254526	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaaaacatgaggaatggactGgttaatagtgaagtccataa	11	4	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr7:12254526G>T	uc011jxk.1	+	3	490	c.90G>T	c.(88-90)CTG>CTT	p.L30L	TMEM106B_uc003ssh.2_Silent_p.L30L	NM_018374	NP_060844	Q9NUM4	T106B_HUMAN	transmembrane protein 106B	30						integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (126;0.185)		GGAATGGACTGGTTAATAGTG	0.388													4	41	---	---	---	---	PASS	T	12254526	T	T	12254526	2	4	143	1	0	0	0	0	0	0	0	1	16018	1335	47	3		3	TMEM106B	7	12254526	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08		12254526	146884137	129	50813										
BBS9	27241	broad.mit.edu	37	chr7	33380528	33380528	+	Silent	SNP	G	A	A													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggtgtttggcccatgactgaGagagaagatgacttgaacgt							TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr7:33380528G>A	uc003tdn.1	+	11	1731	c.1218G>A	c.(1216-1218)GAG>GAA	p.E406E	BBS9_uc003tdo.1_Silent_p.E406E|BBS9_uc003tdp.1_Silent_p.E406E|BBS9_uc003tdq.1_Silent_p.E406E|BBS9_uc010kwn.1_RNA|BBS9_uc011kao.1_Silent_p.E284E	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	406					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			CCATGACTGAGAGAGAAGATG	0.313									Bardet-Biedl_syndrome				3	24	---	---	---	---	PASS	A	33380528	A	A	33380528	2	1	143	1	0	0	0	0	0	0	0	1	1342	933	33	2		2	BBS9	7	33380528	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	21126002	33380528	125758135	130	50814	931	2								
BBS9	27241	broad.mit.edu	37	chr7	33380529	33380529	+	Missense_Mutation	SNP	A	G	G													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtgtttggcccatgactgagAgagaagatgacttgaacgtt							TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr7:33380529A>G	uc003tdn.1	+	11	1732	c.1219A>G	c.(1219-1221)AGA>GGA	p.R407G	BBS9_uc003tdo.1_Missense_Mutation_p.R407G|BBS9_uc003tdp.1_Missense_Mutation_p.R407G|BBS9_uc003tdq.1_Missense_Mutation_p.R407G|BBS9_uc010kwn.1_RNA|BBS9_uc011kao.1_Missense_Mutation_p.R285G	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	407					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			CATGACTGAGAGAGAAGATGA	0.313									Bardet-Biedl_syndrome				3	24	---	---	---	---	PASS	G	33380529	G	G	33380529	3	3	143	1	0	0	0	0	1	0	0	0	1342	296	11	5	1257	5	BBS9	7	33380529	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	1	33380529	125758134	131	50815	931	2								
HECW1	23072	broad.mit.edu	37	chr7	43485093	43485093	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccgtggcaagacgagctggcCgcccctagcgggcacgtgga	16	14	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr7:43485093C>A	uc003tid.1	+	11	2927	c.2322C>A	c.(2320-2322)GCC>GCA	p.A774A	HECW1_uc011kbi.1_Silent_p.A774A	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	774					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						ACGAGCTGGCCGCCCCTAGCG	0.632													6	3	---	---	---	---	PASS	A	43485093	A	A	43485093	2	1	143	1	0	0	0	0	0	0	0	1	7042	639	23	1		1	HECW1	7	43485093	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	10104564	43485093	115653570	132	50816										
DDC	1644	broad.mit.edu	37	chr7	50537776	50537776	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	taaaaacaaagtcaccttgcGgatataagcctgcagtcctt	7	10	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr7:50537776G>T	uc003tpf.3	-	12	1221	c.1135C>A	c.(1135-1137)CGC>AGC	p.R379S	DDC_uc010kza.2_Missense_Mutation_p.R294S|DDC_uc003tpg.3_Missense_Mutation_p.R379S	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	379					cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	GTCACCTTGCGGATATAAGCC	0.333													31	55	---	---	---	---	PASS	T	50537776	T	T	50537776	3	4	143	1	0	0	0	0	1	0	0	0	4325	1116	39	1	319	1	DDC	7	50537776	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	7052683	50537776	108600887	133	50817										
GRM3	2913	broad.mit.edu	37	chr7	86468590	86468590	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agtcaccattgcctgtctggGttttatgtgtacatgcatgg	11	8	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr7:86468590G>T	uc003uid.2	+	4	2859	c.1760G>T	c.(1759-1761)GGT>GTT	p.G587V	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Missense_Mutation_p.G459V|GRM3_uc010leh.2_Missense_Mutation_p.G179V	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	587	Helical; Name=1; (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GCCTGTCTGGGTTTTATGTGT	0.493													8	23	---	---	---	---	PASS	T	86468590	T	T	86468590	3	4	143	1	0	0	0	0	1	0	0	0	6798	1261	44	3	1770	3	GRM3	7	86468590	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	35930814	86468590	72670073	134	50818										
CTTNBP2	83992	broad.mit.edu	37	chr7	117431717	117431717	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	acatcccctgttgggggcacTccaggccttgagggagcacc	13	14	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr7:117431717T>C	uc003vjf.2	-	4	1625	c.1533A>G	c.(1531-1533)GGA>GGG	p.G511G		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	511	Pro-rich.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		TTGGGGGCACTCCAGGCCTTG	0.537													32	35	---	---	---	---	PASS	C	117431717	C	C	117431717	2	2	143	1	0	0	0	0	0	0	0	1	4045	1538	54	5		5	CTTNBP2	7	117431717	Silent	SNP	T	TCGA-66-2754-01A-01D-0983-08	30963127	117431717	41706946	135	50819										
PTPRZ1	5803	broad.mit.edu	37	chr7	121650911	121650911	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	attcatctctgagaacatatCccaagggtatatattttcct	5	9	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr7:121650911C>T	uc003vjy.2	+	12	2206	c.1811C>T	c.(1810-1812)TCC>TTC	p.S604F	PTPRZ1_uc003vjz.2_Missense_Mutation_p.S604F|PTPRZ1_uc011knt.1_Missense_Mutation_p.S54F	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	604	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						GAGAACATATCCCAAGGGTAT	0.413													21	3	---	---	---	---	PASS	T	121650911	T	T	121650911	3	4	143	1	0	0	0	0	1	0	0	0	12814	855	30	2	1857	2	PTPRZ1	7	121650911	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	4219194	121650911	37487752	136	50820										
PTPRZ1	5803	broad.mit.edu	37	chr7	121674395	121674395	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gacagctccaaccacccagaCaacaagcacaagaatcgata	6	14	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr7:121674395C>A	uc003vjy.2	+	17	5642	c.5247C>A	c.(5245-5247)GAC>GAA	p.D1749E	PTPRZ1_uc003vjz.2_Missense_Mutation_p.D882E|PTPRZ1_uc011knt.1_Missense_Mutation_p.D339E	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1749	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						ACCACCCAGACAACAAGCACA	0.353													18	5	---	---	---	---	PASS	A	121674395	A	A	121674395	3	1	143	1	0	0	0	0	1	0	0	0	12814	477	17	3	5313	3	PTPRZ1	7	121674395	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	23484	121674395	37464268	137	50821										
BRAF	673	broad.mit.edu	37	chr7	140534646	140534646	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tctctttgttggagtgcatcTagcttgctggtgtattcttc	10	8	3	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr7:140534646T>C	uc003vwc.3	-	3	328	c.267A>G	c.(265-267)CTA>CTG	p.L89L		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	89					activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	GGAGTGCATCTAGCTTGCTGG	0.363		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				38	8	---	---	---	---	PASS	C	140534646	C	C	140534646	2	2	143	1	0	0	0	0	0	0	0	1	1496	1509	53	5		5	BRAF	7	140534646	Silent	SNP	T	TCGA-66-2754-01A-01D-0983-08	18860251	140534646	18604017	138	50822										
EPHB6	2051	broad.mit.edu	37	chr7	142568305	142568305	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cttcccaggcccttctgaccCctgtggccctggactttcct	8	18	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr7:142568305C>A	uc011kst.1	+	19	3611	c.2824C>A	c.(2824-2826)CCT>ACT	p.P942T	EPHB6_uc011ksu.1_Missense_Mutation_p.P942T|EPHB6_uc003wbs.2_Missense_Mutation_p.P650T|EPHB6_uc003wbt.2_Missense_Mutation_p.P416T|EPHB6_uc003wbu.2_Missense_Mutation_p.P650T|EPHB6_uc003wbv.2_Missense_Mutation_p.P326T	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	942	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					CCTTCTGACCCCTGTGGCCCT	0.562													19	28	---	---	---	---	PASS	A	142568305	A	A	142568305	3	1	143	1	0	0	0	0	1	0	0	0	5178	623	22	3	2882	3	EPHB6	7	142568305	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2033659	142568305	16570358	139	50823										
TPK1	27010	broad.mit.edu	37	chr7	144320288	144320288	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tttttcttctatcttcttttGgagcattttaaggcacttag	6	7	4	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr7:144320288G>T	uc003weq.2	-	6	428	c.325C>A	c.(325-327)CAA>AAA	p.Q109K	TPK1_uc003weo.2_Missense_Mutation_p.Q104K|TPK1_uc003wep.2_RNA|TPK1_uc003wer.2_Missense_Mutation_p.Q109K|TPK1_uc003wes.2_RNA	NM_022445	NP_071890	Q9H3S4	TPK1_HUMAN	thiamin pyrophosphokinase 1 isoform a	109					thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)	ATCTTCTTTTGGAGCATTTTA	0.318													5	86	---	---	---	---	PASS	T	144320288	T	T	144320288	3	4	143	1	0	0	0	0	1	0	0	0	16401	1357	47	3	422	3	TPK1	7	144320288	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1751983	144320288	14818375	140	50824										
NEIL2	252969	broad.mit.edu	37	chr8	11637323	11637323	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aggatgattctgagtatttgGagagagacgcccctgcagga	14	7	1	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:11637323G>T	uc003wug.2	+	3	1030	c.355G>T	c.(355-357)GAG>TAG	p.E119*	NEIL2_uc003wue.2_Nonsense_Mutation_p.E119*|NEIL2_uc003wuf.2_Nonsense_Mutation_p.E58*|NEIL2_uc011kxd.1_Intron	NM_145043	NP_659480	Q969S2	NEIL2_HUMAN	nei like 2 isoform a	119					base-excision repair|nucleotide-excision repair	nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|hydrolase activity, hydrolyzing N-glycosyl compounds|zinc ion binding				0	all_epithelial(15;0.103)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.166)		TGAGTATTTGGAGAGAGACGC	0.587								BER_DNA_glycosylases					4	32	---	---	---	---	PASS	T	11637323	T	T	11637323	4	4	143	1	0	0	0	0	0	1	0	0	10319	1175	41	2	366	2	NEIL2	8	11637323	Nonsense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08		11637323	134726699	141	50825										
PSD3	23362	broad.mit.edu	37	chr8	18725364	18725364	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	actgaccaccttctttaatgCgctgttgtatcattggagtg	9	9	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:18725364C>T	uc003wza.2	-	4	1557	c.1454G>A	c.(1453-1455)CGC>CAC	p.R485H		NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	485					regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		TTCTTTAATGCGCTGTTGTAT	0.463													37	51	---	---	---	---	PASS	T	18725364	T	T	18725364	3	4	143	1	0	0	0	0	1	0	0	0	12648	768	27	1	1777	1	PSD3	8	18725364	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	7088041	18725364	127638658	142	50826										
PIWIL2	55124	broad.mit.edu	37	chr8	22212891	22212891	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caaactgtgccacatgtactGgaattggcctggcaccatca	9	12	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:22212891G>T	uc003xbn.2	+	23	2943	c.2795G>T	c.(2794-2796)TGG>TTG	p.W932L	PIWIL2_uc011kzf.1_Missense_Mutation_p.W896L|PIWIL2_uc010ltv.2_Missense_Mutation_p.W932L|PIWIL2_uc003xbo.2_Missense_Mutation_p.W86L	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2	932	Piwi.				DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		CACATGTACTGGAATTGGCCT	0.463													4	26	---	---	---	---	PASS	T	22212891	T	T	22212891	3	4	143	1	0	0	0	0	1	0	0	0	11958	1357	47	3	2881	3	PIWIL2	8	22212891	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	3487527	22212891	124151131	143	50827										
DDHD2	23259	broad.mit.edu	37	chr8	38095096	38095096	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aactttggatgaatggaaaaAgaaactggaatctcccaaca	8	7	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:38095096A>G	uc003xlb.2	+	4	829	c.452A>G	c.(451-453)AAG>AGG	p.K151R	DDHD2_uc003xla.2_Missense_Mutation_p.K151R|DDHD2_uc003xlc.2_Missense_Mutation_p.K151R|DDHD2_uc011lbl.1_Silent_p.K3K	NM_015214	NP_056029	O94830	DDHD2_HUMAN	DDHD domain containing 2 isoform 1	151					lipid catabolic process	centrosome	hydrolase activity|metal ion binding			large_intestine(1)|ovary(1)	2	Colorectal(12;0.000442)	all_lung(54;0.0657)|Lung NSC(58;0.175)	BRCA - Breast invasive adenocarcinoma(5;3.76e-25)|COAD - Colon adenocarcinoma(9;0.0977)			GAATGGAAAAAGAAACTGGAA	0.323													6	8	---	---	---	---	PASS	G	38095096	G	G	38095096	3	3	143	1	0	0	0	0	1	0	0	0	4327	72	3	5	462	5	DDHD2	8	38095096	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	15882205	38095096	108268926	144	50828										
PXDNL	137902	broad.mit.edu	37	chr8	52366225	52366225	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tggatccatccagctccaatCcattgtccctggtccaagtg	8	14	0	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:52366225C>T	uc003xqu.3	-	10	1204	c.1103G>A	c.(1102-1104)GGA>GAA	p.G368E		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	368	Ig-like C2-type 2.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CAGCTCCAATCCATTGTCCCT	0.512													15	30	---	---	---	---	PASS	T	52366225	T	T	52366225	3	4	143	1	0	0	0	0	1	0	0	0	12848	855	30	2	3344	2	PXDNL	8	52366225	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	14271129	52366225	93997797	145	50829										
LYN	4067	broad.mit.edu	37	chr8	56879273	56879273	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cgccttcttttttcttcctaGgttactataacaacagtacc	4	12	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:56879273G>T	uc003xsk.3	+	9	1073	c.791_splice	c.e9-1	p.G264_splice	LYN_uc003xsl.3_Splice_Site_p.G243_splice	NM_002350	NP_002341	P07948	LYN_HUMAN	Yamaguchi sarcoma viral (v-yes-1) oncogene						erythrocyte differentiation|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of cellular component movement|positive regulation of stress-activated protein kinase signaling cascade|positive regulation of tyrosine phosphorylation of STAT protein|response to DNA damage stimulus|T cell costimulation	cytosol|Golgi apparatus|membrane raft|nucleus|perinuclear region of cytoplasm	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|receptor signaling protein tyrosine kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_lung(136;0.0555)|Lung NSC(129;0.0726)|all_epithelial(80;0.0772)	Epithelial(17;0.000834)|all cancers(17;0.00598)			TTTCTTCCTAGGTTACTATAA	0.323													4	36	---	---	---	---	PASS	T	56879273	T	T	56879273	5	4	143	1	0	0	0	0	0	0	1	0	9107	1014	35	3	820	3	LYN	8	56879273	Splice_Site	SNP	G	TCGA-66-2754-01A-01D-0983-08	4513048	56879273	89484749	146	50830										
CHD7	55636	broad.mit.edu	37	chr8	61741222	61741222	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctttccttgtgttacctcagGaacacaaagtgctgctgacg	9	11	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:61741222G>A	uc003xue.2	+	14	3856	c.3379G>A	c.(3379-3381)GAA>AAA	p.E1127K		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1127	Helicase ATP-binding.				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)			GTTACCTCAGGAACACAAAGT	0.448													9	18	---	---	---	---	PASS	A	61741222	A	A	61741222	3	1	143	1	0	0	0	0	1	0	0	0	3330	1188	41	2	3429	2	CHD7	8	61741222	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	4861949	61741222	84622800	147	50831										
GGH	8836	broad.mit.edu	37	chr8	63936743	63936743	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaacattctgctgtgcaattGacctgaaataatttaagtac	7	7	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:63936743G>C	uc003xuw.2	-	6	785	c.502C>G	c.(502-504)CAA>GAA	p.Q168E		NM_003878	NP_003869	Q92820	GGH_HUMAN	gamma-glutamyl hydrolase precursor	168	Gamma-glutamyl hydrolase.				glutamine metabolic process	extracellular space|lysosome|melanosome	gamma-glutamyl-peptidase activity				0	Breast(64;0.0716)	all_cancers(86;0.189)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.131)			Folic Acid(DB00158)|L-Glutamic Acid(DB00142)	CTGTGCAATTGACCTGAAATA	0.373													9	23	---	---	---	---	PASS	C	63936743	C	C	63936743	3	2	143	1	0	0	0	0	1	0	0	0	6357	1299	45	2	470	2	GGH	8	63936743	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	2195521	63936743	82427279	148	50832										
CNGB3	54714	broad.mit.edu	37	chr8	87755766	87755766	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gactgattacttgggtgagaGccttcttcattccgacgaga	11	9	2	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:87755766G>C	uc003ydx.2	-	1	136	c.90C>G	c.(88-90)GGC>GGG	p.G30G		NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	30	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						TTGGGTGAGAGCCTTCTTCAT	0.413													20	33	---	---	---	---	PASS	C	87755766	C	C	87755766	2	2	143	1	0	0	0	0	0	0	0	1	3601	958	34	4		4	CNGB3	8	87755766	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	23819023	87755766	58608256	149	50833										
SLC26A7	115111	broad.mit.edu	37	chr8	92364054	92364054	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	acaggtggcttgtctaatatCttgcattttcgtccttatag	8	8	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:92364054C>T	uc003yex.2	+	11	1435	c.1157C>T	c.(1156-1158)TCT>TTT	p.S386F	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Missense_Mutation_p.S386F|SLC26A7_uc003yfa.2_Missense_Mutation_p.S386F	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	386	Helical; (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)			TGTCTAATATCTTGCATTTTC	0.363													15	47	---	---	---	---	PASS	T	92364054	T	T	92364054	3	4	143	1	0	0	0	0	1	0	0	0	14522	913	32	2	1191	2	SLC26A7	8	92364054	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	4608288	92364054	53999968	150	50834										
VPS13B	157680	broad.mit.edu	37	chr8	100523350	100523350	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agacaactacaaaacttctaGatggcactcatcagcagcat	6	11	3	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:100523350G>C	uc003yiv.2	+	29	4429	c.4318G>C	c.(4318-4320)GAT>CAT	p.D1440H	VPS13B_uc003yiw.2_Missense_Mutation_p.D1415H|VPS13B_uc003yix.1_Missense_Mutation_p.D910H	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1440					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AAAACTTCTAGATGGCACTCA	0.348													51	5	---	---	---	---	PASS	C	100523350	C	C	100523350	3	2	143	1	0	0	0	0	1	0	0	0	17187	942	33	2	4622	2	VPS13B	8	100523350	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	8159296	100523350	45840672	151	50835										
UBR5	51366	broad.mit.edu	37	chr8	103297515	103297515	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttgagcttcagtagaatccaTaatactgaccatccagttcc	6	11	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:103297515T>C	uc003ykr.1	-	40	5569	c.5536A>G	c.(5536-5538)ATG>GTG	p.M1846V	UBR5_uc003yks.1_Missense_Mutation_p.M1846V	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1846					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			GTAGAATCCATAATACTGACC	0.378													34	23	---	---	---	---	PASS	C	103297515	C	C	103297515	3	2	143	1	0	0	0	0	1	0	0	0	16902	1406	49	5	2943	5	UBR5	8	103297515	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	2774165	103297515	43066507	152	50836										
DCAF13	25879	broad.mit.edu	37	chr8	104427542	104427542	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gcgcaggatccagttgagccAgcaggccgccgctccgcgag	15	15	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:104427542A>T	uc003yln.2	+	1	601	c.324A>T	c.(322-324)CCA>CCT	p.P108P	SLC25A32_uc003yll.2_5'Flank|SLC25A32_uc011lhr.1_5'Flank|DCAF13_uc003ylm.1_5'UTR|DCAF13_uc003ylo.2_5'UTR	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	Error:Variant_position_missing_in_Q9NV06_after_alignment					rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						CAGTTGAGCCAGCAGGCCGCC	0.637													15	25	---	---	---	---	PASS	T	104427542	T	T	104427542	2	4	143	1	0	0	0	0	0	0	0	1	4266	175	7	5		5	DCAF13	8	104427542	Silent	SNP	A	TCGA-66-2754-01A-01D-0983-08	1130027	104427542	41936480	153	50837										
TRPS1	7227	broad.mit.edu	37	chr8	116616594	116616594	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cagaactgacaattatagctCgttaccatattatcctcggc	6	11	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:116616594C>A	uc003ynz.2	-	3	2022	c.1563G>T	c.(1561-1563)ACG>ACT	p.T521T	TRPS1_uc011lhy.1_Silent_p.T525T|TRPS1_uc003yny.2_Silent_p.T534T|TRPS1_uc010mcy.2_Silent_p.T521T	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	521					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			AATTATAGCTCGTTACCATAT	0.458									Langer-Giedion_syndrome				5	62	---	---	---	---	PASS	A	116616594	A	A	116616594	2	1	143	1	0	0	0	0	0	0	0	1	16590	871	31	2		2	TRPS1	8	116616594	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	12189052	116616594	29747428	154	50838										
ZHX2	22882	broad.mit.edu	37	chr8	123964395	123964395	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gagaaccacgtggaagggacCgcccgcctggtgacagacac	14	13	0	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:123964395C>T	uc003ypk.1	+	3	1212	c.645C>T	c.(643-645)ACC>ACT	p.T215T		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	215	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			TGGAAGGGACCGCCCGCCTGG	0.582													27	75	---	---	---	---	PASS	T	123964395	T	T	123964395	2	4	143	1	0	0	0	0	0	0	0	1	17673	639	23	1		1	ZHX2	8	123964395	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	7347801	123964395	22399627	155	50839										
TG	7038	broad.mit.edu	37	chr8	134145777	134145777	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tttgcaaccccctggcctgaCtttgtaccccgtgctggtgg	11	14	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:134145777C>A	uc003ytw.2	+	47	8102	c.8061C>A	c.(8059-8061)GAC>GAA	p.D2687E	TG_uc010mdw.2_Missense_Mutation_p.D1446E|TG_uc011ljb.1_Missense_Mutation_p.D1056E|TG_uc011ljc.1_Missense_Mutation_p.D820E	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2687					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CCTGGCCTGACTTTGTACCCC	0.507													16	41	---	---	---	---	PASS	A	134145777	A	A	134145777	3	1	143	1	0	0	0	0	1	0	0	0	15810	564	20	3	8247	3	TG	8	134145777	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	10181382	134145777	12218245	156	50840										
TG	7038	broad.mit.edu	37	chr8	134146939	134146939	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gatggagccaagggcgggcaGtcagcagagagtgaagagga	19	6	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:134146939G>A	uc003ytw.2	+	48	8249	c.8208G>A	c.(8206-8208)CAG>CAA	p.Q2736Q	TG_uc010mdw.2_Silent_p.Q1495Q|TG_uc011ljb.1_Silent_p.Q1105Q|TG_uc011ljc.1_Silent_p.Q869Q	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2736					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AGGGCGGGCAGTCAGCAGAGA	0.537													40	22	---	---	---	---	PASS	A	134146939	A	A	134146939	2	1	143	1	0	0	0	0	0	0	0	1	15810	1020	36	3		3	TG	8	134146939	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	1162	134146939	12217083	157	50841										
RECQL4	9401	broad.mit.edu	37	chr8	145742508	145742508	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gccctggcggctccgccctgGcgtagactgtggactcttgg	15	14	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr8:145742508G>A	uc003zdj.2	-	4	312	c.280C>T	c.(280-282)CCA>TCA	p.P94S	LRRC14_uc003zdk.1_5'Flank|LRRC14_uc003zdl.1_5'Flank	NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	94					DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CTCCGCCCTGGCGTAGACTGT	0.672			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				8	9	---	---	---	---	PASS	A	145742508	A	A	145742508	3	1	143	1	0	0	0	0	1	0	0	0	13202	1203	42	3	3419	3	RECQL4	8	145742508	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	11595569	145742508	621514	158	50842										
NDUFB6	4712	broad.mit.edu	37	chr9	32573013	32573013	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccatcgccttctcagctctcGcagctgctgcagccgcagtt	9	17	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr9:32573013G>C	uc003zre.1	-	1	170	c.46C>G	c.(46-48)CGA>GGA	p.R16G	NDUFB6_uc003zrf.1_Missense_Mutation_p.R16G	NM_002493	NP_002484	O95139	NDUB6_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	16					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00199)	NADH(DB00157)	CTCAGCTCTCGCAGCTGCTGC	0.602											OREG0019131	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	17	---	---	---	---	PASS	C	32573013	C	C	32573013	3	2	143	1	0	0	0	0	1	0	0	0	10285	1095	38	4	356	4	NDUFB6	9	32573013	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08		32573013	108640418	159	50843										
C9orf131	138724	broad.mit.edu	37	chr9	35045209	35045209	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cctcagcctgtccagtcctcCcactgtcatcacttccaatc	4	19	3	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr9:35045209C>A	uc003zvw.2	+	2	2612	c.2583C>A	c.(2581-2583)TCC>TCA	p.S861S	C9orf131_uc003zvu.2_Silent_p.S813S|C9orf131_uc003zvv.2_Silent_p.S788S|C9orf131_uc003zvx.2_Silent_p.S826S	NM_203299	NP_976044	Q5VYM1	CI131_HUMAN	hypothetical protein LOC138724 isoform A	861											0	all_epithelial(49;0.22)		LUSC - Lung squamous cell carcinoma(32;0.00117)|Lung(28;0.00309)			TCCAGTCCTCCCACTGTCATC	0.552													8	234	---	---	---	---	PASS	A	35045209	A	A	35045209	2	1	143	1	0	0	0	0	0	0	0	1	2457	610	22	3		3	C9orf131	9	35045209	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	2472196	35045209	106168222	160	50844										
DAPK1	1612	broad.mit.edu	37	chr9	90313662	90313662	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cctcgaccggctggaggcgaGtttggatatgacaaagacac	13	10	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr9:90313662G>A	uc004apc.2	+	23	2841	c.2703G>A	c.(2701-2703)GAG>GAA	p.E901E	DAPK1_uc004apd.2_Silent_p.E901E|DAPK1_uc011ltg.1_Silent_p.E835E|DAPK1_uc011lth.1_Silent_p.E638E	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	901	ANK 9.				apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						CTGGAGGCGAGTTTGGATATG	0.562									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				16	24	---	---	---	---	PASS	A	90313662	A	A	90313662	2	1	143	1	0	0	0	0	0	0	0	1	4235	1020	36	3		3	DAPK1	9	90313662	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	55268453	90313662	50899769	161	50845										
TSTD2	158427	broad.mit.edu	37	chr9	100364999	100364999	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aacgagctggcggcactgggGagtagagcagagtttatact	15	7	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr9:100364999G>A	uc004axn.2	-	10	1791	c.1303C>T	c.(1303-1305)CCC>TCC	p.P435S	TSTD2_uc004axo.2_Missense_Mutation_p.P209S	NM_139246	NP_640339	Q5T7W7	TSTD2_HUMAN	thiosulfate sulfurtransferase (rhodanese)-like	435										ovary(2)	2						CGGCACTGGGGAGTAGAGCAG	0.507													15	36	---	---	---	---	PASS	A	100364999	A	A	100364999	3	1	143	1	0	0	0	0	1	0	0	0	16672	1174	41	2	251	2	TSTD2	9	100364999	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	10051337	100364999	40848432	162	50846										
KIAA1958	158405	broad.mit.edu	37	chr9	115337069	115337069	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgacacagatggcaaaacccAagcctcagactcacgctggt	9	13	2	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr9:115337069A>T	uc004bgf.1	+	2	884	c.709A>T	c.(709-711)AAG>TAG	p.K237*	KIAA1958_uc011lwx.1_Nonsense_Mutation_p.K237*	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	237										skin(1)	1						GGCAAAACCCAAGCCTCAGAC	0.512													20	93	---	---	---	---	PASS	T	115337069	T	T	115337069	4	4	143	1	0	0	0	0	0	1	0	0	8264	131	5	5	711	5	KIAA1958	9	115337069	Nonsense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	14972070	115337069	25876362	163	50847										
ZNF618	114991	broad.mit.edu	37	chr9	116811778	116811778	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agcctcaacaagcacctgctCagcaacctggcggccatcct	8	17	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr9:116811778C>T	uc004bid.2	+	15	2295	c.2196C>T	c.(2194-2196)CTC>CTT	p.L732L	ZNF618_uc004bic.2_Silent_p.L639L|ZNF618_uc011lxi.1_Silent_p.L699L|ZNF618_uc011lxj.1_Silent_p.L700L|ZNF618_uc010mvb.2_Silent_p.L322L	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	732					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGCACCTGCTCAGCAACCTGG	0.597													9	17	---	---	---	---	PASS	T	116811778	T	T	116811778	2	4	143	1	0	0	0	0	0	0	0	1	18039	813	29	2		2	ZNF618	9	116811778	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	1474709	116811778	24401653	164	50848										
ZNF618	114991	broad.mit.edu	37	chr9	116811801	116811801	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caacctggcggccatcctgaCgccggtgaagcaggcagtca	13	14	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr9:116811801C>T	uc004bid.2	+	15	2318	c.2219C>T	c.(2218-2220)ACG>ATG	p.T740M	ZNF618_uc004bic.2_Missense_Mutation_p.T647M|ZNF618_uc011lxi.1_Missense_Mutation_p.T707M|ZNF618_uc011lxj.1_Missense_Mutation_p.T708M|ZNF618_uc010mvb.2_Missense_Mutation_p.T330M	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	740					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCCATCCTGACGCCGGTGAAG	0.612													7	21	---	---	---	---	PASS	T	116811801	T	T	116811801	3	4	143	1	0	0	0	0	1	0	0	0	18039	536	19	1	1994	1	ZNF618	9	116811801	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	23	116811801	24401630	165	50849										
TNC	3371	broad.mit.edu	37	chr9	117808912	117808912	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtccaggacagacggaaaccGtctggggtggcatctgaaac	14	10	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr9:117808912G>C	uc004bjj.3	-	17	5264	c.4902C>G	c.(4900-4902)GAC>GAG	p.D1634E	TNC_uc010mvf.2_Intron	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1634	Fibronectin type-III 12.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GACGGAAACCGTCTGGGGTGG	0.478													19	37	---	---	---	---	PASS	C	117808912	C	C	117808912	3	2	143	1	0	0	0	0	1	0	0	0	16267	1136	40	4	1751	4	TNC	9	117808912	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	997111	117808912	23404519	166	50850										
ABL1	25	broad.mit.edu	37	chr9	133760965	133760965	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctggagaataatctccgggaGcttcagatctgcccggcgac	12	12	3	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr9:133760965G>A	uc004bzw.2	+	11	3291	c.3288G>A	c.(3286-3288)GAG>GAA	p.E1096E	ABL1_uc004bzv.2_Silent_p.E1115E	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	1096	Nuclear export signal (By similarity).|F-actin-binding.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	ATCTCCGGGAGCTTCAGATCT	0.527			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								11	19	---	---	---	---	PASS	A	133760965	A	A	133760965	2	1	143	1	0	0	0	0	0	0	0	1	92	962	34	3		3	ABL1	9	133760965	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	15952053	133760965	7452466	167	50851										
CACNA1B	774	broad.mit.edu	37	chr9	140907687	140907687	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cgcgaacatctccatcgccgCgtaaggctcctaggagtgga	12	13	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr9:140907687C>A	uc004cog.2	+	18	2412	c.2267C>A	c.(2266-2268)GCC>GAC	p.A756D	CACNA1B_uc011mfd.1_Missense_Mutation_p.A287E	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	756	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TCCATCGCCGCGTAAGGCTCC	0.607													14	14	---	---	---	---	PASS	A	140907687	A	A	140907687	3	1	143	1	0	0	0	0	1	0	0	0	2539	782	27	1	2337	1	CACNA1B	9	140907687	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	7146722	140907687	305744	168	50852										
GPR158	57512	broad.mit.edu	37	chr10	25877958	25877958	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaatttttattcctcttgtgGggtgtttatctctgctatgc	9	7	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr10:25877958G>A	uc001isj.2	+	8	1836	c.1776G>A	c.(1774-1776)TGG>TGA	p.W592*		NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	592	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						TCCTCTTGTGGGGTGTTTATC	0.393													7	15	---	---	---	---	PASS	A	25877958	A	A	25877958	4	1	143	1	0	0	0	0	0	1	0	0	6663	1241	43	3	1806	3	GPR158	10	25877958	Nonsense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08		25877958	109656789	169	50853										
SVIL	6840	broad.mit.edu	37	chr10	29754670	29754670	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggcggggcgcgaagttaaaaCttccaggatctttgaaagaa	13	7	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr10:29754670C>T	uc001iut.1	-	34	6740	c.5987G>A	c.(5986-5988)AGT>AAT	p.S1996N	LOC387647_uc001iuo.1_Intron|LOC387647_uc001iup.2_Intron|LOC387647_uc001iuq.1_Intron|SVIL_uc010qdw.1_Missense_Mutation_p.S910N|SVIL_uc001iuu.1_Missense_Mutation_p.S1570N	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1996					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				GAAGTTAAAACTTCCAGGATC	0.363													3	6	---	---	---	---	PASS	T	29754670	T	T	29754670	3	4	143	1	0	0	0	0	1	0	0	0	15418	565	20	3	677	3	SVIL	10	29754670	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	3876712	29754670	105780077	170	50854										
CDH23	64072	broad.mit.edu	37	chr10	73494018	73494018	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtgtgatcacagtccagggcCtggtggaccgtgagaagggc	17	9	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr10:73494018C>G	uc001jrx.3	+	32	4503	c.4126C>G	c.(4126-4128)CTG>GTG	p.L1376V	C10orf105_uc001jsb.1_Intron|CDH23_uc001jsc.1_Missense_Mutation_p.L184V	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1376	Cadherin 13.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						AGTCCAGGGCCTGGTGGACCG	0.597													8	11	---	---	---	---	PASS	G	73494018	G	G	73494018	3	3	143	1	0	0	0	0	1	0	0	0	3108	680	24	4	4601	4	CDH23	10	73494018	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	43739348	73494018	62040729	171	50855										
GLUD1	2746	broad.mit.edu	37	chr10	88820739	88820739	+	Frame_Shift_Del	DEL	C	-	-													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	atatactcccatcagactcaCcaacagcaatacatttagca							TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr10:88820739delC	uc001keh.2	-	7	1089	c.992delG	c.(991-993)GGTfs	p.G331fs	GLUD1_uc001keg.2_Frame_Shift_Del_p.G164fs|GLUD1_uc010qmp.1_Frame_Shift_Del_p.G198fs	NM_005271	NP_005262	P00367	DHE3_HUMAN	glutamate dehydrogenase 1 precursor	331					glutamate biosynthetic process|glutamate catabolic process|positive regulation of insulin secretion	mitochondrial matrix	ADP binding|ATP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|identical protein binding|leucine binding|NAD+ binding				0					L-Glutamic Acid(DB00142)|NADH(DB00157)	ATCAGACTCACCAACAGCAAT	0.363													58	40	---	---	---	---		-	88820739	-	-	88820739	7	5	143	1	0	1	0	1	0	0	0	0	6476	507	18	0	712	0	GLUD1	10	88820739	Frame_Shift_Del	DEL	C	TCGA-66-2754-01A-01D-0983-08	15326721	88820739	46714008	172	50856										
GSTO1	9446	broad.mit.edu	37	chr10	106022748	106022748	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tctgtctaggtgccatccttGgtaggaagctttattagaag	11	7	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr10:106022748G>C	uc001kya.2	+	4	387	c.378G>C	c.(376-378)TTG>TTC	p.L126F		NM_004832	NP_004823	P78417	GSTO1_HUMAN	glutathione-S-transferase omega 1	126	GST C-terminal.				xenobiotic metabolic process	cytosol	glutathione transferase activity|monodehydroascorbate reductase (NADH) activity				0		Colorectal(252;0.102)|Breast(234;0.122)		Epithelial(162;8.07e-10)|all cancers(201;2.72e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0147)	Glutathione(DB00143)	TGCCATCCTTGGTAGGAAGCT	0.373													15	13	---	---	---	---	PASS	C	106022748	C	C	106022748	3	2	143	1	0	0	0	0	1	0	0	0	6842	1339	47	4	392	4	GSTO1	10	106022748	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	17202009	106022748	29511999	173	50857										
SORCS1	114815	broad.mit.edu	37	chr10	108448089	108448089	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccaagaacattccctttatcCctgctacctgggaaaaattg	6	12	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr10:108448089C>T	uc001kym.2	-	10	1429	c.1421G>A	c.(1420-1422)GGG>GAG	p.G474E	SORCS1_uc001kyl.2_Missense_Mutation_p.G474E|SORCS1_uc009xxs.2_Missense_Mutation_p.G474E|SORCS1_uc001kyn.1_Missense_Mutation_p.G474E|SORCS1_uc001kyo.2_Missense_Mutation_p.G474E	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	474	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TCCCTTTATCCCTGCTACCTG	0.398													5	14	---	---	---	---	PASS	T	108448089	T	T	108448089	3	4	143	1	0	0	0	0	1	0	0	0	14930	623	22	3	2387	3	SORCS1	10	108448089	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2425341	108448089	27086658	174	50858										
C10orf96	374355	broad.mit.edu	37	chr10	118101585	118101585	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aatgatagaggaggaagacaAatttattaaggaaattacag	10	2	0	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr10:118101585A>T	uc001lck.2	+	5	571	c.320A>T	c.(319-321)AAA>ATA	p.K107I		NM_198515	NP_940917	P0C7W6	CJ096_HUMAN	hypothetical protein LOC374355	107										ovary(2)	2		Lung NSC(174;0.204)|all_lung(145;0.248)		all cancers(201;0.014)		GAGGAAGACAAATTTATTAAG	0.249													10	18	---	---	---	---	PASS	T	118101585	T	T	118101585	3	4	143	1	0	0	0	0	1	0	0	0	1627	14	1	5	334	5	C10orf96	10	118101585	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	9653496	118101585	17433162	175	50859										
MUC2	4583	broad.mit.edu	37	chr11	1099773	1099773	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cctcttcctaggctgtgtggGacctgacaatgtgcccagag	12	12	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:1099773G>A	uc001lsx.1	+	43	14483	c.14456G>A	c.(14455-14457)GGA>GAA	p.G4819E		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4819	VWFC 1.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	GGCTGTGTGGGACCTGACAAT	0.572													31	61	---	---	---	---	PASS	A	1099773	A	A	1099773	3	1	143	1	0	0	0	0	1	0	0	0	9975	1174	41	2	7520	2	MUC2	11	1099773	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08		1099773	133906743	176	50860										
MUC5B	727897	broad.mit.edu	37	chr11	1263589	1263589	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agatgtgctgggcaccaaagAgcatagagtgccgggcggag	17	8	0	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:1263589A>G	uc009ycr.1	+	47	7684	c.7558A>G	c.(7558-7560)AGC>GGC	p.S2520G	MUC5B_uc001ltb.2_Missense_Mutation_p.S1830G	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1827	7 X Cys-rich subdomain repeats.|Thr-rich.|Cys-rich subdomain 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GGCACCAAAGAGCATAGAGTG	0.597													25	17	---	---	---	---	PASS	G	1263589	G	G	1263589	3	3	143	1	0	0	0	0	1	0	0	0	9979	304	11	5	5610	5	MUC5B	11	1263589	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	163816	1263589	133742927	177	50861										
CHRNA10	57053	broad.mit.edu	37	chr11	3691059	3691059	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgggacagtgtcacctccagGgtcacattcagagtctggtc	12	11	4	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:3691059G>A	uc001lyf.2	-	2	246	c.174C>T	c.(172-174)ACC>ACT	p.T58T	CHRNA10_uc010qxt.1_5'UTR|CHRNA10_uc010qxu.1_5'UTR	NM_020402	NP_065135	Q9GZZ6	ACH10_HUMAN	cholinergic receptor, nicotinic, alpha 10	58	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|regulation of cell proliferation|synaptic transmission, cholinergic	cell junction|postsynaptic membrane	calcium channel activity|receptor activity|receptor binding			ovary(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0164)|all_neural(188;0.0577)		BRCA - Breast invasive adenocarcinoma(625;0.0344)|LUSC - Lung squamous cell carcinoma(625;0.192)	Chloroprocaine(DB01161)|Methadone(DB00333)|Nicotine(DB00184)|Pentolinium(DB01090)|Procaine(DB00721)|Trimethaphan(DB01116)	TCACCTCCAGGGTCACATTCA	0.552													15	48	---	---	---	---	PASS	A	3691059	A	A	3691059	2	1	143	1	0	0	0	0	0	0	0	1	3382	1219	43	3		3	CHRNA10	11	3691059	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	2427470	3691059	131315457	178	50862										
OR52K2	119774	broad.mit.edu	37	chr11	4471324	4471324	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcatataggtgccatcttagCcttctacacaactgtggtca	7	11	4	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:4471324C>G	uc001lyz.1	+	1	755	c.755C>G	c.(754-756)GCC>GGC	p.A252G		NM_001005172	NP_001005172	Q8NGK3	O52K2_HUMAN	olfactory receptor, family 52, subfamily K,	252	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.48e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0821)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCCATCTTAGCCTTCTACACA	0.493													34	99	---	---	---	---	PASS	G	4471324	G	G	4471324	3	3	143	1	0	0	0	0	1	0	0	0	11124	739	26	4	757	4	OR52K2	11	4471324	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	780265	4471324	130535192	179	50863										
OR51T1	401665	broad.mit.edu	37	chr11	4903114	4903114	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttttctttcctcatagttcaGtgtcttcaaccaaccatggc	5	12	5	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:4903114G>A	uc010qyp.1	+	1	66	c.66G>A	c.(64-66)CAG>CAA	p.Q22Q		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	Error:Variant_position_missing_in_Q8NGJ9_after_alignment					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCATAGTTCAGTGTCTTCAAC	0.308													24	18	---	---	---	---	PASS	A	4903114	A	A	4903114	2	1	143	1	0	0	0	0	0	0	0	1	11106	1020	36	3		3	OR51T1	11	4903114	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	431790	4903114	130103402	180	50864										
NLRP10	338322	broad.mit.edu	37	chr11	7981729	7981729	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggtcctctttcaccaggtaaGacatggcatgaaaaaagtcc	9	10	2	2	rs77351963		TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:7981729G>C	uc001mfv.1	-	2	1447	c.1430C>G	c.(1429-1431)TCT>TGT	p.S477C		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	477	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CACCAGGTAAGACATGGCATG	0.517													30	62	---	---	---	---	PASS	C	7981729	C	C	7981729	3	2	143	1	0	0	0	0	1	0	0	0	10472	942	33	2	541	2	NLRP10	11	7981729	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	3078615	7981729	127024787	181	50865										
SBF2	81846	broad.mit.edu	37	chr11	9875089	9875089	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tatctgcagagtgattacctGgtatcatgcaatgaaggctc	10	8	2	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:9875089G>T	uc001mib.2	-	20	2672	c.2534C>A	c.(2533-2535)CCA>CAA	p.P845Q	SBF2_uc001mif.3_Missense_Mutation_p.P601Q|uc001mig.2_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	845					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		GTGATTACCTGGTATCATGCA	0.388													4	47	---	---	---	---	PASS	T	9875089	T	T	9875089	3	4	143	1	0	0	0	0	1	0	0	0	13859	1348	47	3	3099	3	SBF2	11	9875089	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1893360	9875089	125131427	182	50866										
USP47	55031	broad.mit.edu	37	chr11	11977671	11977671	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcacctcgtaaagagaaagcActaaaaatatatctggatgg	8	7	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:11977671A>G	uc001mjs.2	+	28	4780	c.4017A>G	c.(4015-4017)GCA>GCG	p.A1339A	USP47_uc001mjr.2_Silent_p.A1271A|USP47_uc009ygi.2_Silent_p.A141A	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	1359					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		AAGAGAAAGCACTAAAAATAT	0.383													30	51	---	---	---	---	PASS	G	11977671	G	G	11977671	2	3	143	1	0	0	0	0	0	0	0	1	17075	146	6	5		5	USP47	11	11977671	Silent	SNP	A	TCGA-66-2754-01A-01D-0983-08	2102582	11977671	123028845	183	50867										
NELL1	4745	broad.mit.edu	37	chr11	21596535	21596535	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cagaatggaagagtctgttgTtctgtggattttgagtgtct	13	4	3	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:21596535T>C	uc001mqe.2	+	20	2553	c.2400T>C	c.(2398-2400)TGT>TGC	p.C800C	NELL1_uc001mqf.2_Silent_p.C753C|NELL1_uc009yid.2_Silent_p.C828C|NELL1_uc010rdo.1_Silent_p.C743C|NELL1_uc010rdp.1_Silent_p.C513C|NELL1_uc001mqh.2_Silent_p.C345C	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	800	VWFC 5.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						GAGTCTGTTGTTCTGTGGATT	0.358													11	19	---	---	---	---	PASS	C	21596535	C	C	21596535	2	2	143	1	0	0	0	0	0	0	0	1	10333	1731	60	5		5	NELL1	11	21596535	Silent	SNP	T	TCGA-66-2754-01A-01D-0983-08	9618864	21596535	113409981	184	50868										
QSER1	79832	broad.mit.edu	37	chr11	32955081	32955081	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gttgctctgcaagcatcaaaAaaagaagaaagtgttgttgg	11	5	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:32955081A>C	uc001mty.2	+	4	2157	c.1890A>C	c.(1888-1890)AAA>AAC	p.K630N	QSER1_uc001mtz.1_Missense_Mutation_p.K391N|QSER1_uc001mua.2_Missense_Mutation_p.K135N	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	630										ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					AAGCATCAAAAAAAGAAGAAA	0.373													17	43	---	---	---	---	PASS	C	32955081	C	C	32955081	3	2	143	1	0	0	0	0	1	0	0	0	12882	11	1	5	1896	5	QSER1	11	32955081	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	11358546	32955081	102051435	185	50869										
C11orf41	25758	broad.mit.edu	37	chr11	33565884	33565884	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caccccaagaaatggacaggTgcagccactaatgcaggtag	11	11	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:33565884T>A	uc001mup.3	+	1	2008	c.1884T>A	c.(1882-1884)GGT>GGA	p.G628G	C11orf41_uc001mun.1_Silent_p.G628G	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane				ovary(2)	2						AATGGACAGGTGCAGCCACTA	0.507													14	20	---	---	---	---	PASS	A	33565884	A	A	33565884	2	1	143	1	0	0	0	0	0	0	0	1	1640	1683	59	5		5	C11orf41	11	33565884	Silent	SNP	T	TCGA-66-2754-01A-01D-0983-08	610803	33565884	101440632	186	50870										
RAG2	5897	broad.mit.edu	37	chr11	36615574	36615574	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gacatggttatgctttacatCcagatggaaaactccagtgg	10	8	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:36615574C>G	uc001mwv.3	-	2	333	c.145G>C	c.(145-147)GAT>CAT	p.D49H	C11orf74_uc010rfd.1_5'Flank|C11orf74_uc001mww.1_5'Flank|C11orf74_uc001mwx.1_5'Flank|C11orf74_uc001mwy.1_5'Flank|C11orf74_uc001mwz.1_5'Flank|C11orf74_uc010rfe.1_5'Flank	NM_000536	NP_000527	P55895	RAG2_HUMAN	recombination activating gene 2	49					chromatin modification|pre-B cell allelic exclusion|somatic diversification of immunoglobulins|T cell differentiation in thymus|V(D)J recombination	nucleus	chromatin binding|DNA binding|endonuclease activity|methylated histone residue binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|zinc ion binding			skin(3)|ovary(1)|pancreas(1)	5	all_lung(20;0.226)	all_hematologic(20;0.00756)				TGCTTTACATCCAGATGGAAA	0.458									Familial_Hemophagocytic_Lymphohistiocytosis				16	36	---	---	---	---	PASS	G	36615574	G	G	36615574	3	3	143	1	0	0	0	0	1	0	0	0	13005	855	30	2	1442	2	RAG2	11	36615574	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	3049690	36615574	98390942	187	50871										
ACCS	84680	broad.mit.edu	37	chr11	44102744	44102744	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgcaggacttcgggatgtctGggctccgctttggcacgctg	15	11	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:44102744G>T	uc009yks.1	+	12	1129	c.985G>T	c.(985-987)GGG>TGG	p.G329W	EXT2_uc010rfo.1_Intron|ACCS_uc001mxx.2_Missense_Mutation_p.G329W	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	329							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						CGGGATGTCTGGGCTCCGCTT	0.627													20	51	---	---	---	---	PASS	T	44102744	T	T	44102744	3	4	143	1	0	0	0	0	1	0	0	0	133	1348	47	3	1027	3	ACCS	11	44102744	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	7487170	44102744	90903772	188	50872										
OR4S1	256148	broad.mit.edu	37	chr11	48328449	48328449	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	atcttactgaacctaagaagCcagtcatctgaggaccggcg	10	11	3	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:48328449C>T	uc010rhu.1	+	1	675	c.675C>T	c.(673-675)AGC>AGT	p.S225S		NM_001004725	NP_001004725	Q8NGB4	OR4S1_HUMAN	olfactory receptor, family 4, subfamily S,	225	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACCTAAGAAGCCAGTCATCTG	0.458													66	30	---	---	---	---	PASS	T	48328449	T	T	48328449	2	4	143	1	0	0	0	0	0	0	0	1	11082	738	26	3		3	OR4S1	11	48328449	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	4225705	48328449	86678067	189	50873										
OR4A16	81327	broad.mit.edu	37	chr11	55111277	55111277	+	Missense_Mutation	SNP	G	T	T													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gactcactgtggttgccaatGgtggaataatttgtatggtc					rs141072345		TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:55111277G>T	uc010rie.1	+	1	601	c.601G>T	c.(601-603)GGT>TGT	p.G201C		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	201	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						GGTTGCCAATGGTGGAATAAT	0.428													19	81	---	---	---	---	PASS	T	55111277	T	T	55111277	3	4	143	1	0	0	0	0	1	0	0	0	11041	1348	47	3	603	3	OR4A16	11	55111277	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	6782828	55111277	79895239	190	50874	932	2								
OR4A16	81327	broad.mit.edu	37	chr11	55111278	55111278	+	Missense_Mutation	SNP	G	T	T													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	actcactgtggttgccaatgGtggaataatttgtatggtca							TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:55111278G>T	uc010rie.1	+	1	602	c.602G>T	c.(601-603)GGT>GTT	p.G201V		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	201	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						GTTGCCAATGGTGGAATAATT	0.433													19	80	---	---	---	---	PASS	T	55111278	T	T	55111278	3	4	143	1	0	0	0	0	1	0	0	0	11041	1261	44	3	604	3	OR4A16	11	55111278	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1	55111278	79895238	191	50875	932	2								
OR4C15	81309	broad.mit.edu	37	chr11	55322667	55322667	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gctctctccacctgtggatcTcacattgctgttgtgatttt	8	11	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:55322667T>A	uc010rig.1	+	1	885	c.885T>A	c.(883-885)TCT>TCA	p.S295S		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CCTGTGGATCTCACATTGCTG	0.428										HNSCC(20;0.049)			37	78	---	---	---	---	PASS	A	55322667	A	A	55322667	2	1	143	1	0	0	0	0	0	0	0	1	11048	1538	54	5		5	OR4C15	11	55322667	Silent	SNP	T	TCGA-66-2754-01A-01D-0983-08	211389	55322667	79683849	192	50876										
AHNAK	79026	broad.mit.edu	37	chr11	62259292	62259292	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttgcattccagtgctgatggCtgtggtgtgttctaacaagg	13	7	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:62259292C>T	uc001ntk.1	-	5	654	c.354G>A	c.(352-354)CAG>CAA	p.Q118Q		NM_024060	NP_076965	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 2	Error:Variant_position_missing_in_Q09666_after_alignment					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GTGCTGATGGCTGTGGTGTGT	0.453													4	14	---	---	---	---	PASS	T	62259292	T	T	62259292	2	4	143	1	0	0	0	0	0	0	0	1	414	796	28	3		3	AHNAK	11	62259292	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	6936625	62259292	72747224	193	50877										
TUT1	64852	broad.mit.edu	37	chr11	62349016	62349016	+	Missense_Mutation	SNP	G	A	A													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tggccagctggtgactgtcgGgggccgctcctttgggggat							TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:62349016G>A	uc001nto.2	-	3	583	c.545C>T	c.(544-546)CCC>CTC	p.P182L		NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	144					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						GTGACTGTCGGGGGCCGCTCC	0.652													28	10	---	---	---	---	PASS	A	62349016	A	A	62349016	3	1	143	1	0	0	0	0	1	0	0	0	16777	1232	43	3	2221	3	TUT1	11	62349016	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	89724	62349016	72657500	194	50878	933	2								
TUT1	64852	broad.mit.edu	37	chr11	62349017	62349017	+	Missense_Mutation	SNP	G	A	A													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggccagctggtgactgtcggGggccgctcctttgggggatt							TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:62349017G>A	uc001nto.2	-	3	582	c.544C>T	c.(544-546)CCC>TCC	p.P182S		NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	144					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						TGACTGTCGGGGGCCGCTCCT	0.647													28	10	---	---	---	---	PASS	A	62349017	A	A	62349017	3	1	143	1	0	0	0	0	1	0	0	0	16777	1232	43	3	2222	3	TUT1	11	62349017	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1	62349017	72657499	195	50879	933	2								
NXF1	10482	broad.mit.edu	37	chr11	62568576	62568576	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caattctcacttcatttccaGaaaggtttaggatcttcagg	7	9	4	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:62568576G>C	uc001nvf.1	-	9	1032	c.896C>G	c.(895-897)TCT>TGT	p.S299C	NXF1_uc001nvg.1_Missense_Mutation_p.S299C|NXF1_uc009yog.1_Missense_Mutation_p.S342C|NXF1_uc010rmh.1_Missense_Mutation_p.S162C	NM_006362	NP_006353	Q9UBU9	NXF1_HUMAN	nuclear RNA export factor 1 isoform 1	299	LRR 2.|Interaction with THOC4.				gene expression|interspecies interaction between organisms	cytosol|nuclear speck	nucleotide binding|protein binding			skin(3)	3						TTCATTTCCAGAAAGGTTTAG	0.458													19	12	---	---	---	---	PASS	C	62568576	C	C	62568576	3	2	143	1	0	0	0	0	1	0	0	0	10782	942	33	2	1070	2	NXF1	11	62568576	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	219559	62568576	72437940	196	50880										
KCNK4	50801	broad.mit.edu	37	chr11	64064613	64064613	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tatggcaatgtggccctgcgCacagatgccgggcgcctctt	13	13	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:64064613C>A	uc001nzj.1	+	4	659	c.336C>A	c.(334-336)CGC>CGA	p.R112R	KCNK4_uc009ypl.1_Missense_Mutation_p.A85E|KCNK4_uc001nzk.1_Missense_Mutation_p.A46E|KCNK4_uc010rnk.1_5'UTR|KCNK4_uc001nzl.1_Missense_Mutation_p.A46E|KCNK4_uc001nzm.3_RNA|KCNK4_uc001nzn.1_Silent_p.R112R|KCNK4_uc001nzo.2_Silent_p.R112R|KCNK4_uc001nzp.1_5'UTR	NM_033310	NP_201567	Q9NYG8	KCNK4_HUMAN	TRAAK	112						integral to membrane	potassium channel activity|voltage-gated ion channel activity				0						TGGCCCTGCGCACAGATGCCG	0.652													15	11	---	---	---	---	PASS	A	64064613	A	A	64064613	2	1	143	1	0	0	0	0	0	0	0	1	8068	697	25	3		3	KCNK4	11	64064613	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	1496037	64064613	70941903	197	50881										
FCHSD2	9873	broad.mit.edu	37	chr11	72598570	72598570	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttttctgttctagctctgctCggctttgttctgatacagca	8	10	4	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:72598570C>A	uc009ytl.2	-	12	1312	c.1091G>T	c.(1090-1092)CGA>CTA	p.R364L	FCHSD2_uc010rrg.1_Missense_Mutation_p.R228L|FCHSD2_uc001oth.3_Missense_Mutation_p.R308L|FCHSD2_uc001oti.2_Missense_Mutation_p.R323L	NM_014824	NP_055639	O94868	FCSD2_HUMAN	FCH and double SH3 domains 2	364	Potential.						protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(5;3.3e-05)			TAGCTCTGCTCGGCTTTGTTC	0.383													26	72	---	---	---	---	PASS	A	72598570	A	A	72598570	3	1	143	1	0	0	0	0	1	0	0	0	5790	884	31	2	1167	2	FCHSD2	11	72598570	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	8533957	72598570	62407946	198	50882										
CCDC83	220047	broad.mit.edu	37	chr11	85576208	85576208	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aataaaaaggatacacatgaCgggccaccaaaagaaattaa	7	7	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:85576208C>A	uc001pbh.1	+	2	554	c.42C>A	c.(40-42)GAC>GAA	p.D14E	CCDC83_uc001pbg.1_Missense_Mutation_p.D14E	NM_173556	NP_775827	Q8IWF9	CCD83_HUMAN	coiled-coil domain containing 83	14										skin(1)	1		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				ATACACATGACGGGCCACCAA	0.368													50	160	---	---	---	---	PASS	A	85576208	A	A	85576208	3	1	143	1	0	0	0	0	1	0	0	0	2857	535	19	1	44	1	CCDC83	11	85576208	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	12977638	85576208	49430308	199	50883										
GRM5	2915	broad.mit.edu	37	chr11	88780921	88780921	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggctggtgatgaacagaaaaGagagctccaataatgatgtc	12	6	0	5			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:88780921G>C	uc001pcq.2	-	1	320	c.120C>G	c.(118-120)CTC>CTG	p.L40L	GRM5_uc009yvm.2_Silent_p.L40L|GRM5_uc009yvn.1_Silent_p.L40L	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	40	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	GAACAGAAAAGAGAGCTCCAA	0.517													11	20	---	---	---	---	PASS	C	88780921	C	C	88780921	2	2	143	1	0	0	0	0	0	0	0	1	6800	929	33	2		2	GRM5	11	88780921	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	3204713	88780921	46225595	200	50884										
FAT3	120114	broad.mit.edu	37	chr11	92087130	92087130	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	taaagtacaaaatcatttctGgaaatgaacttggcttcttt	6	6	3	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:92087130G>T	uc001pdj.3	+	1	1869	c.1852G>T	c.(1852-1854)GGA>TGA	p.G618*		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	618	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AATCATTTCTGGAAATGAACT	0.363										TCGA Ovarian(4;0.039)			11	13	---	---	---	---	PASS	T	92087130	T	T	92087130	4	4	143	1	0	0	0	0	0	1	0	0	5691	1349	47	3	1854	3	FAT3	11	92087130	Nonsense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	3306209	92087130	42919386	201	50885										
PANX1	24145	broad.mit.edu	37	chr11	93911564	93911564	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tacatcctgctgctctttgcGatcctcctgtacctgccccc	6	18	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:93911564G>A	uc001per.2	+	3	736	c.351G>A	c.(349-351)GCG>GCA	p.A117A	PANX1_uc001peq.2_Silent_p.A117A	NM_015368	NP_056183	Q96RD7	PANX1_HUMAN	pannexin 1	117	Helical; (Potential).				positive regulation of interleukin-1 beta secretion|protein hexamerization|synaptic transmission	bleb|endoplasmic reticulum membrane|gap junction|integral to membrane	calcium channel activity|gap junction hemi-channel activity|leak channel activity|receptor binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TGCTCTTTGCGATCCTCCTGT	0.473													27	14	---	---	---	---	PASS	A	93911564	A	A	93911564	2	1	143	1	0	0	0	0	0	0	0	1	11420	1045	37	2		2	PANX1	11	93911564	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	1824434	93911564	41094952	202	50886										
AASDHPPT	60496	broad.mit.edu	37	chr11	105948587	105948587	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gagaaggagcgcattggccaGttcgtctttgcccgggacgc	15	11	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:105948587G>A	uc001pjc.1	+	1	296	c.150G>A	c.(148-150)CAG>CAA	p.Q50Q	KBTBD3_uc001pja.2_5'Flank|KBTBD3_uc001pjb.2_5'Flank|KBTBD3_uc009yxm.2_5'Flank|AASDHPPT_uc010rvn.1_RNA	NM_015423	NP_056238	Q9NRN7	ADPPT_HUMAN	aminoadipate-semialdehyde	50					macromolecule biosynthetic process|pantothenate metabolic process	cytosol	holo-[acyl-carrier-protein] synthase activity|magnesium ion binding|protein binding				0		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.78e-05)|Epithelial(105;0.00622)|all cancers(92;0.041)		GCATTGGCCAGTTCGTCTTTG	0.607													12	24	---	---	---	---	PASS	A	105948587	A	A	105948587	2	1	143	1	0	0	0	0	0	0	0	1	23	1020	36	3		3	AASDHPPT	11	105948587	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	12037023	105948587	29057929	203	50887										
CUL5	8065	broad.mit.edu	37	chr11	107959295	107959295	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgaatcaaaatgccctgagcTgcttgccaattactgtgaca	8	10	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:107959295T>A	uc001pjv.2	+	12	1887	c.1220T>A	c.(1219-1221)CTG>CAG	p.L407Q	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	407					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		TGCCCTGAGCTGCTTGCCAAT	0.333													13	38	---	---	---	---	PASS	A	107959295	A	A	107959295	3	1	143	1	0	0	0	0	1	0	0	0	4059	1580	55	5	1266	5	CUL5	11	107959295	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	2010708	107959295	27047221	204	50888										
RNF214	257160	broad.mit.edu	37	chr11	117150919	117150919	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gagagccggaaagagttactGgtactgaaactagaagaagc	13	6	0	5			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:117150919G>T	uc001pqt.2	+	8	1134	c.1089G>T	c.(1087-1089)CTG>CTT	p.L363L	RNF214_uc001pqu.2_Silent_p.L363L|RNF214_uc010rxf.1_Silent_p.L208L	NM_207343	NP_997226	Q8ND24	RN214_HUMAN	ring finger protein 214	363	Potential.						zinc ion binding				0	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;1.88e-05)|Epithelial(105;0.000397)|all cancers(92;0.00258)		AAGAGTTACTGGTACTGAAAC	0.358													7	156	---	---	---	---	PASS	T	117150919	T	T	117150919	2	4	143	1	0	0	0	0	0	0	0	1	13478	1335	47	3		3	RNF214	11	117150919	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	9191624	117150919	17855597	205	50889										
IL10RA	3587	broad.mit.edu	37	chr11	117869931	117869931	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aggtgcctggggaagaagacCcagctgctgtggcattccag	15	10	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:117869931C>T	uc001prv.2	+	7	1389	c.1312C>T	c.(1312-1314)CCA>TCA	p.P438S	IL10RA_uc010rxl.1_Missense_Mutation_p.P418S|IL10RA_uc010rxm.1_Missense_Mutation_p.P418S|IL10RA_uc010rxn.1_Missense_Mutation_p.P289S|IL10RA_uc001prw.2_Missense_Mutation_p.P289S	NM_001558	NP_001549	Q13651	I10R1_HUMAN	interleukin 10 receptor, alpha precursor	438	Cytoplasmic (Potential).					integral to membrane|plasma membrane	interleukin-10 receptor activity			ovary(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)|Epithelial(105;0.00108)		GGAAGAAGACCCAGCTGCTGT	0.607													21	42	---	---	---	---	PASS	T	117869931	T	T	117869931	3	4	143	1	0	0	0	0	1	0	0	0	7620	623	22	3	1338	3	IL10RA	11	117869931	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	719012	117869931	17136585	206	50890										
BCL9L	283149	broad.mit.edu	37	chr11	118772641	118772641	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cccgttgtatctggttgcctGggaaacggggcccaggaaag	15	10	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:118772641G>C	uc001pug.2	-	6	2776	c.1811C>G	c.(1810-1812)CCA>CGA	p.P604R	BCL9L_uc009zal.2_Missense_Mutation_p.P599R	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	604					negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		CTGGTTGCCTGGGAAACGGGG	0.632													7	11	---	---	---	---	PASS	C	118772641	C	C	118772641	3	2	143	1	0	0	0	0	1	0	0	0	1382	1348	47	4	2700	4	BCL9L	11	118772641	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	902710	118772641	16233875	207	50891										
OR4D5	219875	broad.mit.edu	37	chr11	123810819	123810819	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agattgcattgactatccagCtgccattctgtgggcctgac	10	11	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:123810819C>G	uc001pzk.1	+	1	496	c.496C>G	c.(496-498)CTG>GTG	p.L166V		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	166	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GACTATCCAGCTGCCATTCTG	0.478													13	27	---	---	---	---	PASS	G	123810819	G	G	123810819	3	3	143	1	0	0	0	0	1	0	0	0	11057	796	28	4	498	4	OR4D5	11	123810819	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	5038178	123810819	11195697	208	50892										
OR8B2	26595	broad.mit.edu	37	chr11	124252313	124252313	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tctaattagaatatatttctCctctgaattttaatcagagc	4	7	4	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr11:124252313C>T	uc010sai.1	-	1	927	c.927G>A	c.(925-927)AGG>AGA	p.R309R		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	309	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		ATATATTTCTCCTCTGAATTT	0.343													6	34	---	---	---	---	PASS	T	124252313	T	T	124252313	2	4	143	1	0	0	0	0	0	0	0	1	11227	854	30	2		2	OR8B2	11	124252313	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	441494	124252313	10754203	209	50893										
ENO2	2026	broad.mit.edu	37	chr12	7025668	7025668	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tggagacaaacagcgttactTaggcaaaggtgaggtccctt	12	8	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:7025668T>C	uc001qru.1	+	3	395	c.173T>C	c.(172-174)TTA>TCA	p.L58S	ENO2_uc009zfi.1_Missense_Mutation_p.L58S|ENO2_uc010sfq.1_Missense_Mutation_p.L58S|ENO2_uc001qrv.1_Missense_Mutation_p.L58S	NM_001975	NP_001966	P09104	ENOG_HUMAN	enolase 2	58					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex|plasma membrane	magnesium ion binding|phosphopyruvate hydratase activity				0						CAGCGTTACTTAGGCAAAGGT	0.572													11	20	---	---	---	---	PASS	C	7025668	C	C	7025668	3	2	143	1	0	0	0	0	1	0	0	0	5122	1764	61	5	179	5	ENO2	12	7025668	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08		7025668	126826227	210	50894										
A2ML1	144568	broad.mit.edu	37	chr12	9007400	9007400	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agggagtcctggtggagaagAcacacagctcattgctgtgc	14	9	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:9007400A>T	uc001quz.3	+	22	2835	c.2737A>T	c.(2737-2739)ACA>TCA	p.T913S	A2ML1_uc001qva.1_Missense_Mutation_p.T493S|A2ML1_uc010sgm.1_Missense_Mutation_p.T413S	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	757						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						GGTGGAGAAGACACACAGCTC	0.463													11	28	---	---	---	---	PASS	T	9007400	T	T	9007400	3	4	143	1	0	0	0	0	1	0	0	0	5	275	10	5	2823	5	A2ML1	12	9007400	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	1981732	9007400	124844495	211	50895										
PHC1	1911	broad.mit.edu	37	chr12	9083501	9083501	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cggacagccacacctgcgccCagccagacacttattagctc	8	17	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:9083501C>G	uc001qvd.2	+	7	1239	c.1083C>G	c.(1081-1083)CCC>CCG	p.P361P	PHC1_uc001qvc.1_Silent_p.P316P|PHC1_uc010sgn.1_Silent_p.P361P|PHC1_uc001qve.2_Silent_p.P361P	NM_004426	NP_004417	P78364	PHC1_HUMAN	polyhomeotic 1-like	361					multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						CACCTGCGCCCAGCCAGACAC	0.423													4	11	---	---	---	---	PASS	G	9083501	G	G	9083501	2	3	143	1	0	0	0	0	0	0	0	1	11816	581	21	4		4	PHC1	12	9083501	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	76101	9083501	124768394	212	50896										
A2M	2	broad.mit.edu	37	chr12	9227227	9227227	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cacgatgttggttgcagaggTcaggtcctccgaggttgggg	17	8	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:9227227T>A	uc001qvk.1	-	29	3798	c.3685A>T	c.(3685-3687)ACC>TCC	p.T1229S	A2M_uc001qvj.1_Missense_Mutation_p.T271S|A2M_uc009zgk.1_Missense_Mutation_p.T1079S	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1229					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GTTGCAGAGGTCAGGTCCTCC	0.547													5	14	---	---	---	---	PASS	A	9227227	A	A	9227227	3	1	143	1	0	0	0	0	1	0	0	0	4	1667	58	5	771	5	A2M	12	9227227	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	143726	9227227	124624668	213	50897										
PZP	5858	broad.mit.edu	37	chr12	9309771	9309771	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccacttataagtgctctcacCttctttcacagcttccttat	3	14	3	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:9309771C>G	uc001qvl.2	-	28	3579	c.3550G>C	c.(3550-3552)GAC>CAC	p.D1184H	PZP_uc009zgl.2_Missense_Mutation_p.D970H	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						gtgCTCTCACCTTCTTTCACA	0.229													14	17	---	---	---	---	PASS	G	9309771	G	G	9309771	3	3	143	1	0	0	0	0	1	0	0	0	12869	695	24	4	934	4	PZP	12	9309771	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	82544	9309771	124542124	214	50898										
TMTC1	83857	broad.mit.edu	37	chr12	29709822	29709822	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cccagattgaaaagagcccgGttatgctgtggatggagctg	14	8	0	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:29709822G>T	uc001rjb.2	-	10	1794	c.1320C>A	c.(1318-1320)AAC>AAA	p.N440K	TMTC1_uc001riz.2_Missense_Mutation_p.N197K|TMTC1_uc001rja.2_Missense_Mutation_p.N284K|TMTC1_uc001rjc.1_Missense_Mutation_p.N502K	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	548	TPR 3.					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					AAAGAGCCCGGTTATGCTGTG	0.502													20	50	---	---	---	---	PASS	T	29709822	T	T	29709822	3	4	143	1	0	0	0	0	1	0	0	0	16257	1252	44	3	1040	3	TMTC1	12	29709822	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	20400051	29709822	104142073	215	50899										
ADAMTS20	80070	broad.mit.edu	37	chr12	43822241	43822241	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctgttccatcaaagggcgaaCttcaggatcacagtaattct	8	10	4	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:43822241C>T	uc010skx.1	-	26	3748	c.3748G>A	c.(3748-3750)GTT>ATT	p.V1250I	ADAMTS20_uc001rno.1_Missense_Mutation_p.V368I|ADAMTS20_uc001rnp.1_Missense_Mutation_p.V404I	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1250	TSP type-1 8.					proteinaceous extracellular matrix	zinc ion binding	p.P1250P(1)|p.P1250T(1)		central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		AAAGGGCGAACTTCAGGATCA	0.478													9	43	---	---	---	---	PASS	T	43822241	T	T	43822241	3	4	143	1	0	0	0	0	1	0	0	0	266	565	20	3	2039	3	ADAMTS20	12	43822241	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	14112419	43822241	90029654	216	50900										
TROAP	10024	broad.mit.edu	37	chr12	49724003	49724003	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gccagtgtgtccctcttaatGgaggctcttctctggatatg	11	10	3	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:49724003G>A	uc001rtx.3	+	13	1542	c.1375G>A	c.(1375-1377)GGA>AGA	p.G459R	TROAP_uc009zlh.2_Missense_Mutation_p.G459R|TROAP_uc001rty.2_Missense_Mutation_p.G167R	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	459					cell adhesion	cytoplasm				ovary(1)	1						CCCTCTTAATGGAGGCTCTTC	0.542													29	94	---	---	---	---	PASS	A	49724003	A	A	49724003	3	1	143	1	0	0	0	0	1	0	0	0	16572	1349	47	3	1523	3	TROAP	12	49724003	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	5901762	49724003	84127892	217	50901										
KCNH3	23416	broad.mit.edu	37	chr12	49936562	49936562	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cggcggcggagccgggccgtGctctaccacctgtccgggca	16	16	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:49936562G>T	uc001ruh.1	+	4	779	c.519G>T	c.(517-519)GTG>GTT	p.V173V	KCNH3_uc010smj.1_Silent_p.V113V	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	173	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						GCCGGGCCGTGCTCTACCACC	0.652													5	6	---	---	---	---	PASS	T	49936562	T	T	49936562	2	4	143	1	0	0	0	0	0	0	0	1	8033	1306	46	3		3	KCNH3	12	49936562	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	212559	49936562	83915333	218	50902										
DIP2B	57609	broad.mit.edu	37	chr12	51090901	51090901	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccaaagtcatggactgaagcCtgaggccatctgtccgtgcg	12	12	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:51090901C>A	uc001rwv.2	+	17	2147	c.1991C>A	c.(1990-1992)CCT>CAT	p.P664H	DIP2B_uc009zlt.2_Missense_Mutation_p.P94H	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	664						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						GGACTGAAGCCTGAGGCCATC	0.493													5	57	---	---	---	---	PASS	A	51090901	A	A	51090901	3	1	143	1	0	0	0	0	1	0	0	0	4528	681	24	3	2057	3	DIP2B	12	51090901	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	1154339	51090901	82760994	219	50903										
CD63	967	broad.mit.edu	37	chr12	56119959	56119959	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccacagcccacagtaacattAatgcagcaggagtcggggac	11	12	0	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:56119959A>G	uc001shm.2	-	5	609	c.513T>C	c.(511-513)ATT>ATC	p.I171I	CD63_uc009znz.2_Silent_p.I148I|CD63_uc001shn.2_Silent_p.I171I|CD63_uc001sho.2_Silent_p.I171I|CD63_uc001shp.2_Silent_p.I171I	NM_001780	NP_001771	P08962	CD63_HUMAN	CD63 antigen isoform A	171	Extracellular (Potential).				platelet activation|platelet degranulation	integral to plasma membrane|late endosome membrane|lysosomal membrane|platelet dense granule membrane					0						CAGTAACATTAATGCAGCAGG	0.502													24	37	---	---	---	---	PASS	G	56119959	G	G	56119959	2	3	143	1	0	0	0	0	0	0	0	1	3029	358	13	5		5	CD63	12	56119959	Silent	SNP	A	TCGA-66-2754-01A-01D-0983-08	5029058	56119959	77731936	220	50904										
DTX3	196403	broad.mit.edu	37	chr12	58000741	58000741	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtgggacttcctgagcaaagAgaccccagcccggctggccc	13	15	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:58000741A>T	uc001sow.1	+	5	432	c.95A>T	c.(94-96)GAG>GTG	p.E32V	DTX3_uc001sov.1_Missense_Mutation_p.E25V|DTX3_uc001sox.1_Missense_Mutation_p.E25V|DTX3_uc001soy.1_Missense_Mutation_p.E25V	NM_178502	NP_848597	Q8N9I9	DTX3_HUMAN	deltex homolog 3	32					Notch signaling pathway	cytoplasm	zinc ion binding			breast(1)|central_nervous_system(1)	2	Melanoma(17;0.122)					CTGAGCAAAGAGACCCCAGCC	0.592													61	85	---	---	---	---	PASS	T	58000741	T	T	58000741	3	4	143	1	0	0	0	0	1	0	0	0	4795	304	11	5	101	5	DTX3	12	58000741	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	1880782	58000741	75851154	221	50905										
TSPAN31	6302	broad.mit.edu	37	chr12	58140912	58140912	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gactcttctttagctttacaGaggtaacattctccagttcc	6	11	3	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:58140912G>T	uc001spt.2	+	5	710	c.556G>T	c.(556-558)GAG>TAG	p.E186*	TSPAN31_uc009zqb.2_Nonsense_Mutation_p.E102*|TSPAN31_uc010ssa.1_Nonsense_Mutation_p.E108*	NM_005981	NP_005972	Q12999	TSN31_HUMAN	sarcoma amplified sequence	186	Helical; (Potential).				positive regulation of cell proliferation	integral to plasma membrane|membrane fraction					0	all_cancers(7;4.96e-69)|Lung NSC(6;5.5e-25)|all_lung(6;3.87e-23)|all_epithelial(6;1.66e-15)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)		GBM - Glioblastoma multiforme(5;4.21e-120)|all cancers(5;3.75e-83)|BRCA - Breast invasive adenocarcinoma(9;0.0294)			TAGCTTTACAGAGGTAACATT	0.438													8	124	---	---	---	---	PASS	T	58140912	T	T	58140912	4	4	143	1	0	0	0	0	0	1	0	0	16643	943	33	2	574	2	TSPAN31	12	58140912	Nonsense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	140171	58140912	75710983	222	50906										
CPSF6	11052	broad.mit.edu	37	chr12	69650536	69650536	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aaagttaatggatctgttacCtaaaagagaacttcatggtc	8	6	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:69650536C>A	uc001sut.3	+	4	544	c.434C>A	c.(433-435)CCT>CAT	p.P145H	CPSF6_uc001suu.3_Missense_Mutation_p.P145H|CPSF6_uc010stk.1_5'Flank	NM_007007	NP_008938	Q16630	CPSF6_HUMAN	cleavage and polyadenylation specific factor 6,	145	RRM.|Necessary for interaction with NUDT21/CPSF5.				mRNA polyadenylation|protein tetramerization	mRNA cleavage factor complex|paraspeckles|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding				0	all_epithelial(5;2.47e-36)|Lung NSC(4;1.1e-32)|all_lung(4;6.26e-31)|Breast(13;1.59e-06)|Esophageal squamous(21;0.187)		Epithelial(6;4.89e-17)|BRCA - Breast invasive adenocarcinoma(5;8.5e-10)|Lung(24;6.04e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|LUSC - Lung squamous cell carcinoma(43;0.171)|Kidney(9;0.241)			GATCTGTTACCTAAAAGAGAA	0.383													6	96	---	---	---	---	PASS	A	69650536	A	A	69650536	3	1	143	1	0	0	0	0	1	0	0	0	3829	681	24	3	448	3	CPSF6	12	69650536	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	11509624	69650536	64201359	223	50907										
TRHDE	29953	broad.mit.edu	37	chr12	72666957	72666957	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaggaggagcgggagccgtgGgagccgtggacgcagctgcg	22	9	0	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:72666957G>C	uc001sxa.2	+	1	429	c.399G>C	c.(397-399)TGG>TGC	p.W133C	LOC283392_uc010stv.1_5'UTR	NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	133	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						GGGAGCCGTGGGAGCCGTGGA	0.706													6	13	---	---	---	---	PASS	C	72666957	C	C	72666957	3	2	143	1	0	0	0	0	1	0	0	0	16476	1241	43	4	401	4	TRHDE	12	72666957	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	3016421	72666957	61184938	224	50908										
ACSS3	79611	broad.mit.edu	37	chr12	81472035	81472035	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcccgggcccgcggggcggtCtcgggggccggggatgcagg	22	13	1	0	rs12824208		TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:81472035C>T	uc001szl.1	+	1	227	c.136C>T	c.(136-138)CTC>TTC	p.L46F	ACSS3_uc001szm.1_Missense_Mutation_p.L46F	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	46						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GCGGGGCGGTCTCGGGGGCCG	0.741													6	4	---	---	---	---	PASS	T	81472035	T	T	81472035	3	4	143	1	0	0	0	0	1	0	0	0	190	913	32	2	138	2	ACSS3	12	81472035	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	8805078	81472035	52379860	225	50909										
METAP2	10988	broad.mit.edu	37	chr12	95907481	95907481	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caatgaaaactttggaacccTtgccttctgccgcagatggc	9	12	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:95907481T>C	uc001tec.2	+	11	1372	c.1238T>C	c.(1237-1239)CTT>CCT	p.L413P	METAP2_uc010suv.1_Missense_Mutation_p.L390P|METAP2_uc009ztd.2_Missense_Mutation_p.L377P|METAP2_uc001ted.2_Missense_Mutation_p.L412P|METAP2_uc001tef.2_Missense_Mutation_p.L390P|METAP2_uc001tee.2_RNA	NM_006838	NP_006829	P50579	AMPM2_HUMAN	methionyl aminopeptidase 2	413					N-terminal protein amino acid modification|peptidyl-methionine modification|protein processing|proteolysis	cytoplasm	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0					L-Methionine(DB00134)	TTTGGAACCCTTGCCTTCTGC	0.413													28	83	---	---	---	---	PASS	C	95907481	C	C	95907481	3	2	143	1	0	0	0	0	1	0	0	0	9487	1609	56	5	1280	5	METAP2	12	95907481	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	14435446	95907481	37944414	226	50910										
ALDH1L2	160428	broad.mit.edu	37	chr12	105459074	105459074	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tatctctgtccaagctccagGgactttatcatgacctcgaa	7	12	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:105459074G>T	uc001tlc.2	-	6	884	c.757C>A	c.(757-759)CCT>ACT	p.P253T	ALDH1L2_uc009zuo.2_5'UTR|ALDH1L2_uc009zup.2_RNA	NM_001034173	NP_001029345	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	253					10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1						CAAGCTCCAGGGACTTTATCA	0.463													5	78	---	---	---	---	PASS	T	105459074	T	T	105459074	3	4	143	1	0	0	0	0	1	0	0	0	495	1232	43	3	2086	3	ALDH1L2	12	105459074	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	9551593	105459074	28392821	227	50911										
KDM2B	84678	broad.mit.edu	37	chr12	121877660	121877660	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gatgggggcccctgactcacCagacaggttgatctcggtta	13	11	2	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:121877660C>T	uc001uat.2	-	22	3933	c.3829G>A	c.(3829-3831)GAC>AAC	p.D1277N	KDM2B_uc001uaq.2_Missense_Mutation_p.D717N|KDM2B_uc010szy.1_Missense_Mutation_p.D717N|KDM2B_uc001uar.2_Missense_Mutation_p.D868N|KDM2B_uc001uas.2_Missense_Mutation_p.D1208N|KDM2B_uc001uau.2_Intron|KDM2B_uc001uao.2_Missense_Mutation_p.D525N|KDM2B_uc010szx.1_Missense_Mutation_p.D525N|KDM2B_uc001uap.2_RNA	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	1277	LRR 5.				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						CCTGACTCACCAGACAGGTTG	0.547													8	12	---	---	---	---	PASS	T	121877660	T	T	121877660	3	4	143	1	0	0	0	0	1	0	0	0	8125	608	21	3	241	3	KDM2B	12	121877660	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	16418586	121877660	11974235	228	50912										
TMEM132D	121256	broad.mit.edu	37	chr12	129566492	129566492	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agccacaaactgcgtcaggaCccgcaccatggcgtgctggt	12	14	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:129566492C>G	uc009zyl.1	-	7	2063	c.1735G>C	c.(1735-1737)GTC>CTC	p.V579L	TMEM132D_uc001uia.2_Missense_Mutation_p.V117L	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	579	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TGCGTCAGGACCCGCACCATG	0.647													5	23	---	---	---	---	PASS	G	129566492	G	G	129566492	3	3	143	1	0	0	0	0	1	0	0	0	16044	507	18	4	1576	4	TMEM132D	12	129566492	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	7688832	129566492	4285403	229	50913										
TMEM132D	121256	broad.mit.edu	37	chr12	129822210	129822210	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gcacaactccaatcaagtccTttgggctcacatagatcttg	7	12	3	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr12:129822210T>C	uc009zyl.1	-	4	1596	c.1268A>G	c.(1267-1269)AAG>AGG	p.K423R		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	423	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		AATCAAGTCCTTTGGGCTCAC	0.612													33	131	---	---	---	---	PASS	C	129822210	C	C	129822210	3	2	143	1	0	0	0	0	1	0	0	0	16044	1609	56	5	2055	5	TMEM132D	12	129822210	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	255718	129822210	4029685	230	50914										
C13orf15	28984	broad.mit.edu	37	chr13	42032568	42032568	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	catgaagcggcgcagcagcgCcagtgtcagcgacagcagcg	15	13	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr13:42032568C>G	uc001uyi.2	+	2	499	c.197C>G	c.(196-198)GCC>GGC	p.A66G		NM_014059	NP_054778	Q9H4X1	RGC32_HUMAN	response gene to complement 32	66	Ser/Thr-rich.				cell cycle|regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus					0		Lung NSC(96;7.5e-06)|Prostate(109;0.0181)|Breast(139;0.0204)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;8.62e-09)|Epithelial(112;8.99e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000504)|GBM - Glioblastoma multiforme(144;0.000909)|BRCA - Breast invasive adenocarcinoma(63;0.0679)		CGCAGCAGCGCCAGTGTCAGC	0.682													5	0	---	---	---	---	PASS	G	42032568	G	G	42032568	3	3	143	1	0	0	0	0	1	0	0	0	1718	739	26	4	203	4	C13orf15	13	42032568	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08		42032568	73137310	231	50915										
RB1	5925	broad.mit.edu	37	chr13	49030452	49030452	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tccagacccagaagccattgAaatctacctctctttcactg	5	14	3	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr13:49030452A>T	uc001vcb.2	+	19	2093	c.1927A>T	c.(1927-1929)AAA>TAA	p.K643*		NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	643	Pocket; binds T and E1A.|Domain B.				androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(6)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GAAGCCATTGAAATCTACCTC	0.284		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			13	7	---	---	---	---	PASS	T	49030452	T	T	49030452	4	4	143	1	0	0	0	0	0	1	0	0	13098	247	9	5	2001	5	RB1	13	49030452	Nonsense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	6997884	49030452	66139426	232	50916										
RCBTB2	1102	broad.mit.edu	37	chr13	49096059	49096059	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cactgtctccagagaaaagaGgaagttcttcttccatatgg	9	9	3	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr13:49096059G>T	uc001vch.2	-	4	388	c.17C>A	c.(16-18)CCT>CAT	p.P6H	RCBTB2_uc010tgg.1_Intron|RCBTB2_uc001vci.2_Intron|RCBTB2_uc010tgh.1_Intron|RCBTB2_uc001vcj.2_Intron|RCBTB2_uc010acv.1_Intron|RCBTB2_uc010tgi.1_Intron	NM_001268	NP_001259	O95199	RCBT2_HUMAN	regulator of chromosome condensation and BTB	6							Ran guanyl-nucleotide exchange factor activity			ovary(2)|lung(2)|skin(1)	5		all_cancers(8;4.86e-71)|all_epithelial(8;2.11e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;2.3e-10)|Lung NSC(96;1.07e-07)|Breast(56;1.53e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.00826)|Myeloproliferative disorder(33;0.0179)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(99;1.8e-09)|LUSC - Lung squamous cell carcinoma(3;0.116)		AGAGAAAAGAGGAAGTTCTTC	0.443													5	56	---	---	---	---	PASS	T	49096059	T	T	49096059	3	4	143	1	0	0	0	0	1	0	0	0	13172	1000	35	3	1686	3	RCBTB2	13	49096059	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	65607	49096059	66073819	233	50917										
TDRD3	81550	broad.mit.edu	37	chr13	61083927	61083927	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aagctctgaagcacataacgGaaatgggcttcagtaaggaa	11	7	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr13:61083927G>T	uc001via.2	+	9	1398	c.610G>T	c.(610-612)GAA>TAA	p.E204*	TDRD3_uc010aef.2_Nonsense_Mutation_p.E29*|TDRD3_uc001vhz.3_Nonsense_Mutation_p.E204*|TDRD3_uc010aeg.2_Nonsense_Mutation_p.E297*|TDRD3_uc001vib.3_Nonsense_Mutation_p.E203*	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	204	UBA.				chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		GCACATAACGGAAATGGGCTT	0.413													37	12	---	---	---	---	PASS	T	61083927	T	T	61083927	4	4	143	1	0	0	0	0	0	1	0	0	15729	1175	41	2	923	2	TDRD3	13	61083927	Nonsense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	11987868	61083927	54085951	234	50918										
UGGT2	55757	broad.mit.edu	37	chr13	96513122	96513122	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcctttttgttttctttatgCaagcttactgtgaaacttgg	7	7	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr13:96513122C>T	uc001vmt.2	-	32	3830	c.3660G>A	c.(3658-3660)TTG>TTA	p.L1220L		NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	1220	Glucosyltransferase.				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						TTTCTTTATGCAAGCTTACTG	0.264													4	6	---	---	---	---	PASS	T	96513122	T	T	96513122	2	4	143	1	0	0	0	0	0	0	0	1	16939	709	25	3		3	UGGT2	13	96513122	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	35429195	96513122	18656756	235	50919										
SLC10A2	6555	broad.mit.edu	37	chr13	103703676	103703676	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aacccgccacaggaaatattGttcctataatccacagtttg	6	11	0	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr13:103703676G>T	uc001vpy.3	-	4	1289	c.692C>A	c.(691-693)ACA>AAA	p.T231K		NM_000452	NP_000443	Q12908	NTCP2_HUMAN	solute carrier family 10 (sodium/bile acid	231	Helical; (Potential).				bile acid metabolic process|organic anion transport	integral to plasma membrane	bile acid:sodium symporter activity			ovary(3)|skin(1)	4	all_neural(89;0.0662)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AGGAAATATTGTTCCTATAAT	0.478													31	2	---	---	---	---	PASS	T	103703676	T	T	103703676	3	4	143	1	0	0	0	0	1	0	0	0	14374	1377	48	3	366	3	SLC10A2	13	103703676	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	7190554	103703676	11466202	236	50920										
OR4N5	390437	broad.mit.edu	37	chr14	20612464	20612464	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtcatcaagctggcctgcacCaatacctttgtggtggagct	11	11	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:20612464C>A	uc010tla.1	+	1	570	c.570C>A	c.(568-570)ACC>ACA	p.T190T		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	190	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)		TGGCCTGCACCAATACCTTTG	0.532													15	25	---	---	---	---	PASS	A	20612464	A	A	20612464	2	1	143	1	0	0	0	0	0	0	0	1	11079	581	21	3		3	OR4N5	14	20612464	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08		20612464	86737076	237	50921										
CTSG	1511	broad.mit.edu	37	chr14	25042980	25042980	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ataggagacgatgccgtgggCcacattgttacacagcaggg	14	9	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:25042980C>T	uc001wpq.2	-	5	668	c.631G>A	c.(631-633)GCC>ACC	p.A211T		NM_001911	NP_001902	P08311	CATG_HUMAN	cathepsin G preproprotein	211	Peptidase S1.				immune response|proteolysis	cell surface|extracellular space|plasma membrane|stored secretory granule	heparin binding|serine-type endopeptidase activity			ovary(2)	2				GBM - Glioblastoma multiforme(265;0.0269)		ATGCCGTGGGCCACATTGTTA	0.572													22	32	---	---	---	---	PASS	T	25042980	T	T	25042980	3	4	143	1	0	0	0	0	1	0	0	0	4035	739	26	3	140	3	CTSG	14	25042980	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	4430516	25042980	82306560	238	50922										
BAZ1A	11177	broad.mit.edu	37	chr14	35264907	35264907	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cacattccatatcttctctaGgtttactccactgttttaag	4	11	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:35264907G>T	uc001wsk.2	-	10	1761	c.1193C>A	c.(1192-1194)CCT>CAT	p.P398H	BAZ1A_uc001wsl.2_Missense_Mutation_p.P398H	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	398					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		ATCTTCTCTAGGTTTACTCCA	0.323													5	50	---	---	---	---	PASS	T	35264907	T	T	35264907	3	4	143	1	0	0	0	0	1	0	0	0	1329	1000	35	3	3549	3	BAZ1A	14	35264907	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	10221927	35264907	72084633	239	50923										
RPL10L	140801	broad.mit.edu	37	chr14	47120763	47120763	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tccagggcttcagaagacagCtgctcatattcatcagacac	8	12	4	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:47120763C>A	uc001wwg.2	-	1	266	c.177G>T	c.(175-177)CAG>CAT	p.Q59H		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	59					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						CAGAAGACAGCTGCTCATATT	0.512													20	24	---	---	---	---	PASS	A	47120763	A	A	47120763	3	1	143	1	0	0	0	0	1	0	0	0	13556	796	28	3	471	3	RPL10L	14	47120763	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	11855856	47120763	60228777	240	50924										
RTN1	6252	broad.mit.edu	37	chr14	60213061	60213061	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cgtggccattttccttctgaAgaattccagtaaaatatgta	7	8	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:60213061A>G	uc001xen.1	-	2	589	c.380T>C	c.(379-381)CTT>CCT	p.L127P		NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	127					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		TTCCTTCTGAAGAATTCCAGT	0.488													11	16	---	---	---	---	PASS	G	60213061	G	G	60213061	3	3	143	1	0	0	0	0	1	0	0	0	13725	72	3	5	2047	5	RTN1	14	60213061	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	13092298	60213061	47136479	241	50925										
RTN1	6252	broad.mit.edu	37	chr14	60213190	60213190	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggtccatggcactggaaacaCctgccacacctatgaatcaa	8	13	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:60213190C>T	uc001xen.1	-	2	460	c.251G>A	c.(250-252)GGT>GAT	p.G84D		NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	84					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		ACTGGAAACACCTGCCACACC	0.517													12	9	---	---	---	---	PASS	T	60213190	T	T	60213190	3	4	143	1	0	0	0	0	1	0	0	0	13725	507	18	3	2176	3	RTN1	14	60213190	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	129	60213190	47136350	242	50926										
KCNH5	27133	broad.mit.edu	37	chr14	63416964	63416964	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	taaagtagagagaggacacgTacaatgaatccttgctgggt	12	6	0	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:63416964T>C	uc001xfx.2	-	7	1307	c.1256A>G	c.(1255-1257)TAC>TGC	p.Y419C	KCNH5_uc001xfy.2_Missense_Mutation_p.Y419C|KCNH5_uc001xfz.1_Missense_Mutation_p.Y361C|KCNH5_uc001xga.2_Missense_Mutation_p.Y361C	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	419	Extracellular (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		AGAGGACACGTACAATGAATC	0.478													11	23	---	---	---	---	PASS	C	63416964	C	C	63416964	3	2	143	1	0	0	0	0	1	0	0	0	8035	1638	57	5	1764	5	KCNH5	14	63416964	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	3203774	63416964	43932576	243	50927										
RAD51L1	5890	broad.mit.edu	37	chr14	68292250	68292250	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gttatcgaggtgtccatgaaCttctatgtatggtcagcagg	12	7	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:68292250C>G	uc001xkf.1	+	3	218	c.154C>G	c.(154-156)CTT>GTT	p.L52V	RAD51L1_uc010aqq.2_Missense_Mutation_p.L52V|RAD51L1_uc001xkd.2_Missense_Mutation_p.L52V|RAD51L1_uc010aqr.2_5'UTR|RAD51L1_uc001xke.2_Missense_Mutation_p.L52V|RAD51L1_uc010aqs.1_Missense_Mutation_p.L52V|RAD51L1_uc001xkg.1_Missense_Mutation_p.L52V	NM_133509	NP_598193	O15315	RA51B_HUMAN	RAD51-like 1 isoform 3	52					blood coagulation|DNA repair|reciprocal meiotic recombination	nucleoplasm	ATP binding|DNA binding|DNA-dependent ATPase activity				0				UCEC - Uterine corpus endometrioid carcinoma (185;0.163)|all cancers(60;3.9e-06)|OV - Ovarian serous cystadenocarcinoma(108;0.000103)|BRCA - Breast invasive adenocarcinoma(234;0.000421)		TGTCCATGAACTTCTATGTAT	0.363			T	HMGA2	lipoma|uterine leiomyoma			Direct_reversal_of_damage|Homologous_recombination					18	23	---	---	---	---	PASS	G	68292250	G	G	68292250	3	3	143	1	0	0	0	0	1	0	0	0	12989	565	20	4	160	4	RAD51L1	14	68292250	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	4875286	68292250	39057290	244	50928										
PSEN1	5663	broad.mit.edu	37	chr14	73659572	73659572	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tggctgtgatttcagtatatGgtaaaacccaagactgataa	9	6	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:73659572G>A	uc001xnr.2	+	7	1053	c.769G>A	c.(769-771)GAT>AAT	p.D257N	PSEN1_uc001xnv.2_Missense_Mutation_p.D253N|PSEN1_uc010ark.2_Missense_Mutation_p.D253N|PSEN1_uc001xnt.1_RNA|PSEN1_uc001xnu.2_RNA	NM_000021	NP_000012	P49768	PSN1_HUMAN	presenilin 1 isoform I-467	257	Helical; (Potential).	Probable.		D->E: Abolishes gamma-secretase activity. Reduces production of amyloid beta in APP processing. Accumulation of full-length PS1. Loss of binding of transition state analog gamma-secretase inhibitor.|D->A: Loss of endoproteolytic cleavage; reduces production of amyloid beta in APP processing and of NICD in NOTCH1 processing.	amyloid precursor protein catabolic process|anti-apoptosis|beta-amyloid metabolic process|cell-cell adhesion|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|smooth endoplasmic reticulum calcium ion homeostasis	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|gamma-secretase complex|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum|smooth endoplasmic reticulum|Z disc	aspartic-type endopeptidase activity|beta-catenin binding|cadherin binding|calcium channel activity|PDZ domain binding			breast(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.075)		TTCAGTATATGGTAAAACCCA	0.423													19	32	---	---	---	---	PASS	A	73659572	A	A	73659572	3	1	143	1	0	0	0	0	1	0	0	0	12650	1362	47	3	787	3	PSEN1	14	73659572	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	5367322	73659572	33689968	245	50929										
YLPM1	56252	broad.mit.edu	37	chr14	75264286	75264286	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttttgttttacttgtagattTgatggtcctcgaagatttga	9	4	0	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:75264286T>G	uc001xqj.3	+	5	2410	c.2286T>G	c.(2284-2286)TTT>TTG	p.F762L	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	567					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		CTTGTAGATTTGATGGTCCTC	0.408													6	1	---	---	---	---	PASS	G	75264286	G	G	75264286	3	3	143	1	0	0	0	0	1	0	0	0	17483	1809	63	5	2304	5	YLPM1	14	75264286	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	1604714	75264286	32085254	246	50930										
EML5	161436	broad.mit.edu	37	chr14	89087225	89087225	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtccccttcagggctgtaacAcacagtacgagcagcatgtc	10	13	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:89087225A>G	uc001xxg.2	-	39	5434	c.5248T>C	c.(5248-5250)TGT>CGT	p.C1750R	EML5_uc001xxf.2_Missense_Mutation_p.C537R|EML5_uc001xxd.2_5'Flank|EML5_uc001xxe.2_Missense_Mutation_p.C99R	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	1742	WD 26.					cytoplasm|microtubule				ovary(3)	3						GGGCTGTAACACACAGTACGA	0.343													9	11	---	---	---	---	PASS	G	89087225	G	G	89087225	3	3	143	1	0	0	0	0	1	0	0	0	5100	159	6	5	709	5	EML5	14	89087225	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	13822939	89087225	18262315	247	50931										
SERPINA10	51156	broad.mit.edu	37	chr14	94752583	94752583	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agcttgaacttcggaaagaaAacttccatgtttctgtggta	9	7	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:94752583A>G	uc001yct.2	-	4	1471	c.1005T>C	c.(1003-1005)GTT>GTC	p.V335V	SERPINA10_uc001ycu.3_Silent_p.V335V	NM_016186	NP_057270	Q9UK55	ZPI_HUMAN	serine (or cysteine) proteinase inhibitor, clade	335					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_cancers(154;0.105)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)		TCGGAAAGAAAACTTCCATGT	0.408													10	21	---	---	---	---	PASS	G	94752583	G	G	94752583	2	3	143	1	0	0	0	0	0	0	0	1	14087	1	1	5		5	SERPINA10	14	94752583	Silent	SNP	A	TCGA-66-2754-01A-01D-0983-08	5665358	94752583	12596957	248	50932										
SERPINA4	5267	broad.mit.edu	37	chr14	95030166	95030166	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caccgagctgtctgagtccgAtgtccataggggcttccagc	12	13	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:95030166A>C	uc001ydk.2	+	2	413	c.347A>C	c.(346-348)GAT>GCT	p.D116A	SERPINA4_uc010avd.2_Missense_Mutation_p.D153A|SERPINA4_uc001ydl.2_Missense_Mutation_p.D116A	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	116					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		TCTGAGTCCGATGTCCATAGG	0.637													8	28	---	---	---	---	PASS	C	95030166	C	C	95030166	3	2	143	1	0	0	0	0	1	0	0	0	14091	333	12	5	349	5	SERPINA4	14	95030166	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	277583	95030166	12319374	249	50933										
C14orf73	91828	broad.mit.edu	37	chr14	103574849	103574849	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cttatccggagctaccccgaCatcaggtgtgtaccccacct	8	16	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:103574849C>T	uc001ymk.2	+	10	2047	c.1971C>T	c.(1969-1971)GAC>GAT	p.D657D		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	hypothetical protein LOC91828	657											0		Melanoma(154;0.155)	Epithelial(46;0.221)			GCTACCCCGACATCAGGTGTG	0.597													37	61	---	---	---	---	PASS	T	103574849	T	T	103574849	2	4	143	1	0	0	0	0	0	0	0	1	1779	477	17	3		3	C14orf73	14	103574849	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	8544683	103574849	3774691	250	50934										
AHNAK2	113146	broad.mit.edu	37	chr14	105406088	105406088	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgacccagaaacaaggaactCtttgactttagctgctgctt	8	10	1	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:105406088C>T	uc010axc.1	-	7	15820	c.15700G>A	c.(15700-15702)GAG>AAG	p.E5234K	AHNAK2_uc001ypx.2_Missense_Mutation_p.E5134K	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5234						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)			ACAAGGAACTCTTTGACTTTA	0.552													19	217	---	---	---	---	PASS	T	105406088	T	T	105406088	3	4	143	1	0	0	0	0	1	0	0	0	415	922	32	2	1691	2	AHNAK2	14	105406088	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	1831239	105406088	1943452	251	50935										
AHNAK2	113146	broad.mit.edu	37	chr14	105410247	105410247	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgaatgctgaggtcagtggtCttgaggtccccctgcatgga	14	9	2	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr14:105410247C>G	uc010axc.1	-	7	11661	c.11541G>C	c.(11539-11541)AAG>AAC	p.K3847N	AHNAK2_uc001ypx.2_Missense_Mutation_p.K3747N	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3847						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)			GGTCAGTGGTCTTGAGGTCCC	0.637													7	151	---	---	---	---	PASS	G	105410247	G	G	105410247	3	3	143	1	0	0	0	0	1	0	0	0	415	912	32	2	5850	2	AHNAK2	14	105410247	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	4159	105410247	1939293	252	50936										
TJP1	7082	broad.mit.edu	37	chr15	30024886	30024886	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aaactttgtttgaacaggctGagcggacaaatcctctctgc	9	10	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr15:30024886G>A	uc001zcr.2	-	14	2345	c.1870C>T	c.(1870-1872)CAG>TAG	p.Q624*	TJP1_uc010azl.2_Nonsense_Mutation_p.Q612*|TJP1_uc001zcq.2_Nonsense_Mutation_p.Q628*|TJP1_uc001zcs.2_Nonsense_Mutation_p.Q624*	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	624	Guanylate kinase-like.				cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		TGAACAGGCTGAGCGGACAAA	0.433													36	9	---	---	---	---	PASS	A	30024886	A	A	30024886	4	1	143	1	0	0	0	0	0	1	0	0	15926	1299	45	2	3436	2	TJP1	15	30024886	Nonsense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08		30024886	72506506	253	50937										
SPINT1	6692	broad.mit.edu	37	chr15	41145767	41145767	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctgacagtgactagctcagaCcacccagaggacacggccaa	10	14	1	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr15:41145767C>A	uc001zna.2	+	4	888	c.684C>A	c.(682-684)GAC>GAA	p.D228E	SPINT1_uc001znb.2_Missense_Mutation_p.D228E|SPINT1_uc001znc.2_Missense_Mutation_p.D228E|SPINT1_uc010ucs.1_Missense_Mutation_p.D228E	NM_181642	NP_857593	O43278	SPIT1_HUMAN	serine peptidase inhibitor, Kunitz type 1	228						extracellular region|membrane fraction	protein binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;2.91e-05)|COAD - Colon adenocarcinoma(120;0.153)|BRCA - Breast invasive adenocarcinoma(123;0.166)		CTAGCTCAGACCACCCAGAGG	0.592													11	10	---	---	---	---	PASS	A	41145767	A	A	41145767	3	1	143	1	0	0	0	0	1	0	0	0	15067	506	18	3	694	3	SPINT1	15	41145767	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	11120881	41145767	61385625	254	50938										
TP53BP1	7158	broad.mit.edu	37	chr15	43769871	43769871	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	acttctgaatctgcagtccaCtttccataagttcttgtgca	6	11	3	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr15:43769871C>A	uc001zrs.2	-	8	1008	c.860G>T	c.(859-861)AGT>ATT	p.S287I	TP53BP1_uc010udp.1_Missense_Mutation_p.S287I|TP53BP1_uc001zrq.3_Missense_Mutation_p.S292I|TP53BP1_uc001zrr.3_Missense_Mutation_p.S292I|TP53BP1_uc010udq.1_Missense_Mutation_p.S292I	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	287					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		CTGCAGTCCACTTTCCATAAG	0.438								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					28	28	---	---	---	---	PASS	A	43769871	A	A	43769871	3	1	143	1	0	0	0	0	1	0	0	0	16380	565	20	3	5142	3	TP53BP1	15	43769871	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2624104	43769871	58761521	255	50939										
SEMA7A	8482	broad.mit.edu	37	chr15	74704328	74704328	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgctcctgctcccccggttcCaccaccttgtggatagtgcc	9	17	0	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr15:74704328C>T	uc002axv.2	-	11	1360	c.1320G>A	c.(1318-1320)GTG>GTA	p.V440V	SEMA7A_uc010ulk.1_Silent_p.V275V|SEMA7A_uc010ull.1_Silent_p.V426V	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	440	Sema.				axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						CCCCCGGTTCCACCACCTTGT	0.637													9	38	---	---	---	---	PASS	T	74704328	T	T	74704328	2	4	143	1	0	0	0	0	0	0	0	1	14043	581	21	3		3	SEMA7A	15	74704328	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	30934457	74704328	27827064	256	50940										
MAN2C1	4123	broad.mit.edu	37	chr15	75656914	75656914	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctagctcagcccggctcagcTggaacatcttctcagggtca	10	14	5	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr15:75656914T>A	uc002baf.2	-	5	532	c.515A>T	c.(514-516)CAG>CTG	p.Q172L	MAN2C1_uc002bag.2_Missense_Mutation_p.Q172L|MAN2C1_uc002bah.2_Missense_Mutation_p.Q172L|MAN2C1_uc010bkk.2_Missense_Mutation_p.Q172L|MAN2C1_uc010umi.1_Intron|MAN2C1_uc010umj.1_RNA|MAN2C1_uc010umk.1_RNA	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	172					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						CCGGCTCAGCTGGAACATCTT	0.592													11	13	---	---	---	---	PASS	A	75656914	A	A	75656914	3	1	143	1	0	0	0	0	1	0	0	0	9218	1580	55	5	2695	5	MAN2C1	15	75656914	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	952586	75656914	26874478	257	50941										
FBXO22	26263	broad.mit.edu	37	chr15	76205551	76205551	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tttttctttgcagaatgttcGcatcttaccacatacagttc	5	10	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr15:76205551G>A	uc002bbk.2	+	3	392	c.287G>A	c.(286-288)CGC>CAC	p.R96H	FBXO22_uc002bbj.1_Missense_Mutation_p.R96H|FBXO22_uc002bbl.2_5'UTR	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	96					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0						CAGAATGTTCGCATCTTACCA	0.338													14	40	---	---	---	---	PASS	A	76205551	A	A	76205551	3	1	143	1	0	0	0	0	1	0	0	0	5734	1087	38	1	297	1	FBXO22	15	76205551	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	548637	76205551	26325841	258	50942										
TMED3	23423	broad.mit.edu	37	chr15	79606172	79606172	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaacaccatctacagagaaaCgaagaagcagtacgacagct	9	10	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr15:79606172C>T	uc002beu.2	+	2	343	c.242C>T	c.(241-243)ACG>ATG	p.T81M	TMED3_uc010unj.1_Missense_Mutation_p.T81M|TMED3_uc002bev.2_RNA	NM_007364	NP_031390	Q9Y3Q3	TMED3_HUMAN	transmembrane emp24 domain containing 3	81	Lumenal (Potential).|GOLD.				protein transport	ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane				ovary(1)|skin(1)	2						TACAGAGAAACGAAGAAGCAG	0.478													26	70	---	---	---	---	PASS	T	79606172	T	T	79606172	3	4	143	1	0	0	0	0	1	0	0	0	16002	536	19	1	248	1	TMED3	15	79606172	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	3400621	79606172	22925220	259	50943										
AKAP13	11214	broad.mit.edu	37	chr15	86198831	86198831	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gccatgggatgggagctgagGgtcgagaaagtgagagtgag	20	4	0	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr15:86198831G>A	uc002blv.1	+	11	4728	c.4558G>A	c.(4558-4560)GGT>AGT	p.G1520S	AKAP13_uc002blt.1_Missense_Mutation_p.G1520S|AKAP13_uc002blu.1_Missense_Mutation_p.G1520S|AKAP13_uc010bnf.1_Missense_Mutation_p.G160S|AKAP13_uc002blw.1_Missense_Mutation_p.G5S|AKAP13_uc010bne.1_Missense_Mutation_p.G173S	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1520					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						GGGAGCTGAGGGTCGAGAAAG	0.527													6	54	---	---	---	---	PASS	A	86198831	A	A	86198831	3	1	143	1	0	0	0	0	1	0	0	0	449	1232	43	3	4596	3	AKAP13	15	86198831	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	6592659	86198831	16332561	260	50944										
PCSK6	5046	broad.mit.edu	37	chr15	101872090	101872090	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctcatcttcaggaacttccaCctgggagggtgacagggcag	13	11	3	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr15:101872090C>T	uc002bwy.2	-	15	2319	c.2005G>A	c.(2005-2007)GTG>ATG	p.V669M	PCSK6_uc010bpd.2_Missense_Mutation_p.V465M|PCSK6_uc010bpe.2_Missense_Mutation_p.V669M|PCSK6_uc002bxa.2_Missense_Mutation_p.V669M|PCSK6_uc002bxb.2_Missense_Mutation_p.V669M	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	669					glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GGAACTTCCACCTGGGAGGGT	0.572													5	18	---	---	---	---	PASS	T	101872090	T	T	101872090	3	4	143	1	0	0	0	0	1	0	0	0	11604	507	18	3	1169	3	PCSK6	15	101872090	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	15673259	101872090	659302	261	50945										
GLIS2	84662	broad.mit.edu	37	chr16	4385313	4385313	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	acatccgcacacacaccaacGagaagccacaccgctgtccg	7	18	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr16:4385313G>T	uc002cwc.1	+	5	751	c.694G>T	c.(694-696)GAG>TAG	p.E232*		NM_032575	NP_115964	Q9BZE0	GLIS2_HUMAN	GLIS family zinc finger 2	232					cell differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development	cytoplasm|nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|transcription regulatory region DNA binding|zinc ion binding				0						ACACACCAACGAGAAGCCACA	0.642													3	31	---	---	---	---	PASS	T	4385313	T	T	4385313	4	4	143	1	0	0	0	0	0	1	0	0	6446	1059	37	2	712	2	GLIS2	16	4385313	Nonsense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08		4385313	85969440	262	50946										
PPL	5493	broad.mit.edu	37	chr16	4934563	4934563	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aaaggcgctcgcctcggcccGcaggcctggctcctcctcat	11	18	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr16:4934563G>T	uc002cyd.1	-	22	4183	c.4093C>A	c.(4093-4095)CGG>AGG	p.R1365R		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1365	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						GCCTCGGCCCGCAGGCCTGGC	0.672													6	120	---	---	---	---	PASS	T	4934563	T	T	4934563	2	4	143	1	0	0	0	0	0	0	0	1	12334	1086	38	1		1	PPL	16	4934563	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	549250	4934563	85420190	263	50947										
ACSM2B	348158	broad.mit.edu	37	chr16	20565107	20565107	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agctcagcttacccagcatcCatcttggccttgaggcccag	9	15	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr16:20565107C>T	uc002dhj.3	-	6	942	c.732G>A	c.(730-732)ATG>ATA	p.M244I	ACSM2B_uc002dhk.3_Missense_Mutation_p.M244I|ACSM2B_uc010bwf.1_Missense_Mutation_p.M244I	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	244					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						ACCCAGCATCCATCTTGGCCT	0.517													23	46	---	---	---	---	PASS	T	20565107	T	T	20565107	3	4	143	1	0	0	0	0	1	0	0	0	184	594	21	3	1041	3	ACSM2B	16	20565107	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	15630544	20565107	69789646	264	50948										
SRCAP	10847	broad.mit.edu	37	chr16	30735282	30735282	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctctaggtttggccacagctCcatccctgtcttcatctcag	7	15	4	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr16:30735282C>A	uc002dze.1	+	25	4922	c.4537C>A	c.(4537-4539)CCA>ACA	p.P1513T	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.P1308T|SRCAP_uc010bzz.1_Missense_Mutation_p.P1083T	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1513	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			GGCCACAGCTCCATCCCTGTC	0.582													14	42	---	---	---	---	PASS	A	30735282	A	A	30735282	3	1	143	1	0	0	0	0	1	0	0	0	15134	855	30	2	4627	2	SRCAP	16	30735282	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	10170175	30735282	59619471	265	50949										
SETD1A	9739	broad.mit.edu	37	chr16	30990990	30990990	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gccctaggcccctgctcagcCacatcctcctggagcacaac	8	19	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr16:30990990C>T	uc002ead.1	+	14	4569	c.3883C>T	c.(3883-3885)CAC>TAC	p.H1295Y		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1295					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						CCTGCTCAGCCACATCCTCCT	0.721													8	10	---	---	---	---	PASS	T	30990990	T	T	30990990	3	4	143	1	0	0	0	0	1	0	0	0	14130	594	21	3	3933	3	SETD1A	16	30990990	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	255708	30990990	59363763	266	50950										
ITGAX	3687	broad.mit.edu	37	chr16	31382733	31382733	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aggtctgcgtttgagtgtcgGgagcaggtggtctctgagca	17	7	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr16:31382733G>A	uc002ebu.1	+	16	1987	c.1920G>A	c.(1918-1920)CGG>CGA	p.R640R	ITGAX_uc002ebt.2_Silent_p.R640R	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	640	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TTGAGTGTCGGGAGCAGGTGG	0.592													5	24	---	---	---	---	PASS	A	31382733	A	A	31382733	2	1	143	1	0	0	0	0	0	0	0	1	7889	1219	43	3		3	ITGAX	16	31382733	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	391743	31382733	58972020	267	50951										
N4BP1	9683	broad.mit.edu	37	chr16	48594834	48594834	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgccgaccttgcatcagtaaCcgaaggtaacagctggggca	12	11	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr16:48594834C>A	uc002efp.2	-	2	1957	c.1720G>T	c.(1720-1722)GTT>TTT	p.V574F		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	574					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				GCATCAGTAACCGAAGGTAAC	0.453													74	51	---	---	---	---	PASS	A	48594834	A	A	48594834	3	1	143	1	0	0	0	0	1	0	0	0	10109	507	18	3	994	3	N4BP1	16	48594834	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	17212101	48594834	41759919	268	50952										
SLC9A5	6553	broad.mit.edu	37	chr16	67293564	67293564	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aacttctgtcaccaacctgcTgtgagtccttgagccccttc	7	15	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr16:67293564T>G	uc002esm.2	+	11	1778	c.1715T>G	c.(1714-1716)CTG>CGG	p.L572R	SLC9A5_uc010cee.2_Missense_Mutation_p.L277R|SLC9A5_uc010vji.1_Missense_Mutation_p.L76R|uc002esn.1_5'Flank	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	572					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		ACCAACCTGCTGTGAGTCCTT	0.552													9	27	---	---	---	---	PASS	G	67293564	G	G	67293564	3	3	143	1	0	0	0	0	1	0	0	0	14717	1594	55	5	1757	5	SLC9A5	16	67293564	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	18698730	67293564	23061189	269	50953										
SMPD3	55512	broad.mit.edu	37	chr16	68405203	68405203	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gactcccgggaggccgagggGctgcccaggctccctgaatc	15	15	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr16:68405203G>T	uc002ewa.2	-	3	1304	c.882C>A	c.(880-882)AGC>AGA	p.S294R	SMPD3_uc010cfe.2_Missense_Mutation_p.S294R|SMPD3_uc010vlh.1_Missense_Mutation_p.S294R	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	294	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	AGGCCGAGGGGCTGCCCAGGC	0.697													5	15	---	---	---	---	PASS	T	68405203	T	T	68405203	3	4	143	1	0	0	0	0	1	0	0	0	14806	1194	42	3	1113	3	SMPD3	16	68405203	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1111639	68405203	21949550	270	50954										
CDH13	1012	broad.mit.edu	37	chr16	83251007	83251007	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggctcactggaaagggagtgGatcaagagcctaaaggaatt	14	6	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr16:83251007G>A	uc002fgx.2	+	5	661	c.541G>A	c.(541-543)GAT>AAT	p.D181N	CDH13_uc010vns.1_Missense_Mutation_p.D228N|CDH13_uc010vnt.1_5'UTR|CDH13_uc010vnu.1_Missense_Mutation_p.D142N	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	181	Cadherin 1.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		AAAGGGAGTGGATCAAGAGCC	0.463													15	76	---	---	---	---	PASS	A	83251007	A	A	83251007	3	1	143	1	0	0	0	0	1	0	0	0	3099	1174	41	2	559	2	CDH13	16	83251007	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	14845804	83251007	7103746	271	50955										
KCNG4	93107	broad.mit.edu	37	chr16	84256194	84256194	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggtgaactccagcacccgccCggactccttctcggccacgt	10	18	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr16:84256194C>T	uc010voc.1	-	3	1310	c.1189G>A	c.(1189-1191)GGG>AGG	p.G397R		NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	397						voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						AGCACCCGCCCGGACTCCTTC	0.642													5	32	---	---	---	---	PASS	T	84256194	T	T	84256194	3	4	143	1	0	0	0	0	1	0	0	0	8030	652	23	1	372	1	KCNG4	16	84256194	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	1005187	84256194	6098559	272	50956										
TM4SF5	9032	broad.mit.edu	37	chr17	4675353	4675353	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	acaccaaccatctcagcttgCaagtctggctcatgggcggc	10	14	3	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:4675353C>G	uc002fyw.1	+	1	167	c.136C>G	c.(136-138)CAA>GAA	p.Q46E		NM_003963	NP_003954	O14894	T4S5_HUMAN	transmembrane 4 superfamily member 5	46	Extracellular (Potential).					integral to plasma membrane				ovary(1)	1						TCTCAGCTTGCAAGTCTGGCT	0.622													19	23	---	---	---	---	PASS	G	4675353	G	G	4675353	3	3	143	1	0	0	0	0	1	0	0	0	15968	711	25	4	138	4	TM4SF5	17	4675353	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08		4675353	76519857	273	50957										
CHRNB1	1140	broad.mit.edu	37	chr17	7359243	7359243	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tcgctcgacagctgcaggaaCaggaggaccacgatgcggta	14	11	0	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:7359243C>A	uc002ghb.2	+	10	1389	c.1348C>A	c.(1348-1350)CAG>AAG	p.Q450K	CHRNB1_uc010vty.1_Missense_Mutation_p.Q378K	NM_000747	NP_000738	P11230	ACHB_HUMAN	nicotinic acetylcholine receptor beta 1 subunit	450	Cytoplasmic (Potential).		Missing (in CMS-ACHRD; impairs AChR assembly by disrupting a specific interaction between beta and delta subunits).		behavioral response to nicotine|muscle contraction|muscle fiber development|neuromuscular synaptic transmission|postsynaptic membrane organization|regulation of membrane potential|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine binding|receptor activity			ovary(2)	2		Prostate(122;0.157)				GCTGCAGGAACAGGAGGACCA	0.612													3	22	---	---	---	---	PASS	A	7359243	A	A	7359243	3	1	143	1	0	0	0	0	1	0	0	0	3390	479	17	3	1386	3	CHRNB1	17	7359243	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2683890	7359243	73835967	274	50958										
TP53	7157	broad.mit.edu	37	chr17	7576853	7576853	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaggtcccaagacttagtacCtgaagggtgaaatattctcc	10	9	1	3	rs11575996		TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:7576853C>G	uc002gim.2	-	9	1187	c.993G>C	c.(991-993)CAG>CAC	p.Q331H	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.Q331H|TP53_uc010cne.1_RNA|TP53_uc010cnf.1_Missense_Mutation_p.Q199H|TP53_uc010cng.1_Missense_Mutation_p.Q199H|TP53_uc002gii.1_Missense_Mutation_p.Q199H|TP53_uc010cnh.1_Missense_Mutation_p.Q331H|TP53_uc010cni.1_Missense_Mutation_p.Q331H|TP53_uc002gij.2_Missense_Mutation_p.Q331H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	331	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Interaction with HIPK2.		Q -> R (in sporadic cancers; somatic mutation).|Q -> P (in sporadic cancers; somatic mutation).|Q -> H (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Q331*(14)|p.0?(7)|p.Q331P(3)|p.Q331fs*6(1)|p.I332fs*49(1)|p.?(1)|p.Q331Q(1)|p.Q331R(1)|p.Q331H(1)|p.Q331fs*14(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)		GACTTAGTACCTGAAGGGTGA	0.453		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)			31	3	---	---	---	---	PASS	G	7576853	G	G	7576853	3	3	143	1	0	0	0	0	1	0	0	0	16378	695	24	4	289	4	TP53	17	7576853	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	217610	7576853	73618357	275	50959										
DHRS7C	201140	broad.mit.edu	37	chr17	9674965	9674965	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gcacggtgcgcatcacctccTccgccacctctactgggtgc	10	18	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:9674965T>A	uc010vvb.1	-	6	779	c.779A>T	c.(778-780)GAG>GTG	p.E260V	DHRS7C_uc010cof.2_Missense_Mutation_p.E259V	NM_001105571	NP_001099041	A6NNS2	DRS7C_HUMAN	dehydrogenase/reductase (SDR family) member 7C	260						extracellular region	binding|oxidoreductase activity				0						CATCACCTCCTCCGCCACCTC	0.627													13	0	---	---	---	---	PASS	A	9674965	A	A	9674965	3	1	143	1	0	0	0	0	1	0	0	0	4497	1551	54	5	163	5	DHRS7C	17	9674965	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	2098112	9674965	71520245	276	50960										
LIG3	3980	broad.mit.edu	37	chr17	33326404	33326404	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cacagtcaccaagtgtgcagGaggccatgatgatgccacgc	12	12	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:33326404G>A	uc002hik.1	+	15	2300	c.2192G>A	c.(2191-2193)GGA>GAA	p.G731E	LIG3_uc002hij.2_Missense_Mutation_p.G731E	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	731					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	AAGTGTGCAGGAGGCCATGAT	0.577								Other_BER_factors					9	31	---	---	---	---	PASS	A	33326404	A	A	33326404	3	1	143	1	0	0	0	0	1	0	0	0	8782	1174	41	2	2246	2	LIG3	17	33326404	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	23651439	33326404	47868806	277	50961										
PIGW	284098	broad.mit.edu	37	chr17	34893620	34893620	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tagccattataaaatcaataGgctatcaggaacatttaaca	5	7	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:34893620G>T	uc002hmy.1	+	2	713	c.670G>T	c.(670-672)GGC>TGC	p.G224C	MYO19_uc002hmw.2_5'Flank|MYO19_uc010cuu.2_5'Flank|MYO19_uc010wcy.1_5'Flank|MYO19_uc010wcz.1_5'Flank|MYO19_uc010wda.1_5'Flank|MYO19_uc002hmx.2_5'Flank|PIGW_uc002hmz.1_Missense_Mutation_p.G224C	NM_178517	NP_848612	Q7Z7B1	PIGW_HUMAN	phosphatidylinositol glycan, class W	224					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	O-acyltransferase activity				0		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		AAAATCAATAGGCTATCAGGA	0.353													12	37	---	---	---	---	PASS	T	34893620	T	T	34893620	3	4	143	1	0	0	0	0	1	0	0	0	11902	1000	35	3	672	3	PIGW	17	34893620	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1567216	34893620	46301590	278	50962										
RAPGEFL1	51195	broad.mit.edu	37	chr17	38340578	38340578	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aggggctgcttcaagaggaaGagggggccggccacatcatc	16	10	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:38340578G>A	uc010cwu.1	+	3	584	c.94G>A	c.(94-96)GAG>AAG	p.E32K		NM_016339	NP_057423	Q9UHV5	RPGFL_HUMAN	Rap guanine nucleotide exchange factor	238					G-protein coupled receptor protein signaling pathway|nervous system development|small GTPase mediated signal transduction	intracellular|membrane fraction	guanyl-nucleotide exchange factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						TCAAGAGGAAGAGGGGGCCGG	0.597													22	45	---	---	---	---	PASS	A	38340578	A	A	38340578	3	1	143	1	0	0	0	0	1	0	0	0	13049	943	33	2	96	2	RAPGEFL1	17	38340578	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	3446958	38340578	42854632	279	50963										
TOP2A	7153	broad.mit.edu	37	chr17	38573130	38573130	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttctttattttgttgacttgCatattttcatttacaggcta	5	6	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:38573130C>T	uc002huq.2	-	2	165	c.39G>A	c.(37-39)ATG>ATA	p.M13I		NM_001067	NP_001058	P11388	TOP2A_HUMAN	DNA topoisomerase II, alpha isozyme	13					apoptotic chromosome condensation|DNA ligation|DNA repair|DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|phosphatidylinositol-mediated signaling|positive regulation of apoptosis|positive regulation of retroviral genome replication|resolution of meiotic recombination intermediates|sister chromatid segregation	cytoplasm|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|drug binding|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity|ubiquitin binding			ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00183)		Amsacrine(DB00276)|Ciprofloxacin(DB00537)|Dexrazoxane(DB00380)|Doxorubicin(DB00997)|Enoxacin(DB00467)|Epirubicin(DB00445)|Etoposide(DB00773)|Fleroxacin(DB04576)|Gatifloxacin(DB01044)|Idarubicin(DB01177)|Levofloxacin(DB01137)|Lomefloxacin(DB00978)|Lucanthone(DB04967)|Mitoxantrone(DB01204)|Moxifloxacin(DB00218)|Norfloxacin(DB01059)|Ofloxacin(DB01165)|Pefloxacin(DB00487)|Podofilox(DB01179)|Sparfloxacin(DB01208)|Teniposide(DB00444)|Trovafloxacin(DB00685)|Valrubicin(DB00385)	TGTTGACTTGCATATTTTCAT	0.308													36	19	---	---	---	---	PASS	T	38573130	T	T	38573130	3	4	143	1	0	0	0	0	1	0	0	0	16362	710	25	3	4692	3	TOP2A	17	38573130	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	232552	38573130	42622080	280	50964										
ATP6V0A1	535	broad.mit.edu	37	chr17	40635067	40635067	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	atattccaggttccgagcctCactctatccctgtcctgaga	7	14	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:40635067C>T	uc002hzr.2	+	9	895	c.728C>T	c.(727-729)TCA>TTA	p.S243L	ATP6V0A1_uc002hzq.2_Missense_Mutation_p.S243L|ATP6V0A1_uc002hzs.2_Missense_Mutation_p.S250L|ATP6V0A1_uc010wgj.1_Missense_Mutation_p.S200L|ATP6V0A1_uc010wgk.1_Missense_Mutation_p.S200L|ATP6V0A1_uc010cyg.2_Intron|ATP6V0A1_uc010wgl.1_Missense_Mutation_p.S102L	NM_001130021	NP_001123493	Q93050	VPP1_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a1	243	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytoplasmic vesicle membrane|endosome membrane|Golgi apparatus|integral to membrane|melanosome|nucleus|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1		all_cancers(22;1.18e-05)|Breast(137;0.000105)|all_epithelial(22;0.000254)		BRCA - Breast invasive adenocarcinoma(366;0.137)		TTCCGAGCCTCACTCTATCCC	0.418													9	28	---	---	---	---	PASS	T	40635067	T	T	40635067	3	4	143	1	0	0	0	0	1	0	0	0	1168	838	29	2	779	2	ATP6V0A1	17	40635067	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2061937	40635067	40560143	281	50965										
ATP6V0A1	535	broad.mit.edu	37	chr17	40673107	40673107	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gttcttacccttctccttcgAgcatattcgggaagggaagt	10	10	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:40673107A>G	uc002hzr.2	+	22	2650	c.2483A>G	c.(2482-2484)GAG>GGG	p.E828G	ATP6V0A1_uc002hzq.2_Missense_Mutation_p.E822G|ATP6V0A1_uc002hzs.2_Missense_Mutation_p.E829G|ATP6V0A1_uc010wgj.1_Missense_Mutation_p.E785G|ATP6V0A1_uc010wgk.1_Missense_Mutation_p.E779G|ATP6V0A1_uc010cyg.2_Missense_Mutation_p.E474G|ATP6V0A1_uc010wgl.1_Missense_Mutation_p.E687G|ATP6V0A1_uc002hzt.2_Missense_Mutation_p.E112G|ATP6V0A1_uc002hzu.2_Missense_Mutation_p.S113G	NM_001130021	NP_001123493	Q93050	VPP1_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a1	828	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytoplasmic vesicle membrane|endosome membrane|Golgi apparatus|integral to membrane|melanosome|nucleus|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1		all_cancers(22;1.18e-05)|Breast(137;0.000105)|all_epithelial(22;0.000254)		BRCA - Breast invasive adenocarcinoma(366;0.137)		TTCTCCTTCGAGCATATTCGG	0.512													66	48	---	---	---	---	PASS	G	40673107	G	G	40673107	3	3	143	1	0	0	0	0	1	0	0	0	1168	304	11	5	2586	5	ATP6V0A1	17	40673107	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	38040	40673107	40522103	282	50966										
PSME3	10197	broad.mit.edu	37	chr17	40990190	40990190	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttattgagaaagtgaaacctGagatccggctgttgattgag	12	5	0	5			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:40990190G>A	uc002ibr.2	+	6	599	c.373G>A	c.(373-375)GAG>AAG	p.E125K	PSME3_uc002ibp.2_Missense_Mutation_p.E64K|PSME3_uc002ibq.2_Missense_Mutation_p.E125K|PSME3_uc002ibs.2_Missense_Mutation_p.E136K|PSME3_uc010whd.1_Intron	NM_005789	NP_005780	P61289	PSME3_HUMAN	proteasome activator subunit 3 isoform 1	125					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of proteasomal protein catabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome activator complex	endopeptidase activator activity|identical protein binding|MDM2 binding|p53 binding				0		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		AGTGAAACCTGAGATCCGGCT	0.512													17	41	---	---	---	---	PASS	A	40990190	A	A	40990190	3	1	143	1	0	0	0	0	1	0	0	0	12708	1291	45	2	395	2	PSME3	17	40990190	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	317083	40990190	40205020	283	50967										
AARSD1	80755	broad.mit.edu	37	chr17	41108544	41108544	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gcagtcatagagggggtgtcCagctcaatcgcactccgaaa	12	11	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:41108544C>T	uc002icc.2	-	5	426	c.423G>A	c.(421-423)CTG>CTA	p.L141L	AARSD1_uc002icd.2_Silent_p.L254L|AARSD1_uc002ice.2_Silent_p.L224L|AARSD1_uc002icf.2_Silent_p.L315L|AARSD1_uc010whg.1_Silent_p.L315L|AARSD1_uc010cyu.1_Silent_p.L141L	NM_025267	NP_079543	Q9BTE6	AASD1_HUMAN	alanyl-tRNA synthetase domain containing 1	141					alanyl-tRNA aminoacylation	cytoplasm	alanine-tRNA ligase activity|ATP binding|metal ion binding|nucleic acid binding				0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		AGGGGGTGTCCAGCTCAATCG	0.393													9	32	---	---	---	---	PASS	T	41108544	T	T	41108544	2	4	143	1	0	0	0	0	0	0	0	1	21	581	21	3		3	AARSD1	17	41108544	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	118354	41108544	40086666	284	50968										
PRAC	84366	broad.mit.edu	37	chr17	46799684	46799684	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccaccgatcagtttaccttaTtagagagaaaagcactcttg	7	10	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:46799684T>C	uc002iny.2	-	1	199	c.71A>G	c.(70-72)AAT>AGT	p.N24S	C17orf93_uc002inz.1_5'Flank	NM_032391	NP_115767	Q96KF2	PRAC_HUMAN	prostate cancer susceptibility candidate	24						nucleus					0						GTTTACCTTATTAGAGAGAAA	0.542													21	40	---	---	---	---	PASS	C	46799684	C	C	46799684	3	2	143	1	0	0	0	0	1	0	0	0	12421	1493	52	5	110	5	PRAC	17	46799684	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	5691140	46799684	34395526	285	50969										
SFRS1	6426	broad.mit.edu	37	chr17	56082957	56082958	+	Frame_Shift_Del	DEL	TC	-	-													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	taacccggatgtaggcagttTctccctattggatagacaga							TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:56082957_56082958delTC	uc002ivi.2	-	4	765_766	c.556_557delGA	c.(556-558)GAAfs	p.E186fs	SFRS1_uc002ivj.2_3'UTR	NM_006924	NP_008855	Q07955	SRSF1_HUMAN	splicing factor, arginine/serine-rich 1 isoform	186	RRM 2.			Missing: In MR-E; loss of ability to activate splicing.|Missing: In MR-B; strongly inhibits splicing.	mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA 5'-splice site recognition|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytoplasm|nuclear speck	nucleotide binding|RNA binding				0		Colorectal(1115;0.0691)		LUAD - Lung adenocarcinoma(1115;0.247)		GTAGGCAGTTTCTCCCTATTGG	0.431													39	29	---	---	---	---		-	56082958	-	-	56082957	7	5	143	1	0	1	0	1	0	0	0	0	14165	1783	62	0	193	0	SFRS1	17	56082957	Frame_Shift_Del	DEL	TC	TCGA-66-2754-01A-01D-0983-08	9283273	56082957	25112253	286	50970										
TEX14	56155	broad.mit.edu	37	chr17	56661932	56661932	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttcactatgctctggttgctCcttttgtctgggagatgggt	12	8	3	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:56661932C>T	uc010dcz.1	-	19	3236	c.3118G>A	c.(3118-3120)GAG>AAG	p.E1040K	TEX14_uc002iwr.1_Missense_Mutation_p.E1034K|TEX14_uc002iws.1_Missense_Mutation_p.E1034K|TEX14_uc010dda.1_Missense_Mutation_p.E814K	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	1040						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TCTGGTTGCTCCTTTTGTCTG	0.433													16	34	---	---	---	---	PASS	T	56661932	T	T	56661932	3	4	143	1	0	0	0	0	1	0	0	0	15775	864	30	2	1435	2	TEX14	17	56661932	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	578975	56661932	24533278	287	50971										
KCNJ2	3759	broad.mit.edu	37	chr17	68171453	68171453	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctggttatcttctgcctggcTttcgtcctgtcatggctgtt	10	11	3	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:68171453T>G	uc010dfg.2	+	2	674	c.273T>G	c.(271-273)GCT>GCG	p.A91A	KCNJ2_uc002jir.2_Silent_p.A91A	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	91	Helical; Name=M1; (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					TCTGCCTGGCTTTCGTCCTGT	0.532													15	58	---	---	---	---	PASS	G	68171453	G	G	68171453	2	3	143	1	0	0	0	0	0	0	0	1	8051	1596	56	5		5	KCNJ2	17	68171453	Silent	SNP	T	TCGA-66-2754-01A-01D-0983-08	11509521	68171453	13023757	288	50972										
KCNJ2	3759	broad.mit.edu	37	chr17	68171795	68171795	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gccgtgattgccatgagagaCggcaagctgtgtttgatgtg	15	7	0	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:68171795C>G	uc010dfg.2	+	2	1016	c.615C>G	c.(613-615)GAC>GAG	p.D205E	KCNJ2_uc002jir.2_Missense_Mutation_p.D205E	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	205	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					CCATGAGAGACGGCAAGCTGT	0.488													21	61	---	---	---	---	PASS	G	68171795	G	G	68171795	3	3	143	1	0	0	0	0	1	0	0	0	8051	535	19	4	617	4	KCNJ2	17	68171795	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	342	68171795	13023415	289	50973										
KIAA0195	9772	broad.mit.edu	37	chr17	73487781	73487781	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	attctcttcagccccatgaaCgagacgccctcctggctggc	9	16	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:73487781C>A	uc002jnz.3	+	14	1671	c.1396C>A	c.(1396-1398)CGA>AGA	p.R466R	KIAA0195_uc010wsa.1_Silent_p.R476R|KIAA0195_uc010wsb.1_Silent_p.R122R	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	466					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCCCCATGAACGAGACGCCCT	0.642													18	77	---	---	---	---	PASS	A	73487781	A	A	73487781	2	1	143	1	0	0	0	0	0	0	0	1	8160	528	19	1		1	KIAA0195	17	73487781	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	5315986	73487781	7707429	290	50974										
FASN	2194	broad.mit.edu	37	chr17	80039490	80039490	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgctcacccaggatgtgtgcCacggcctccaccaggtcccg	11	17	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:80039490C>A	uc002kdu.2	-	37	6510	c.6393G>T	c.(6391-6393)GTG>GTT	p.V2131V	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2131	Acyl carrier.				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)	GGATGTGTGCCACGGCCTCCA	0.642													4	35	---	---	---	---	PASS	A	80039490	A	A	80039490	2	1	143	1	0	0	0	0	0	0	0	1	5683	581	21	3		3	FASN	17	80039490	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	6551709	80039490	1155720	291	50975										
TEX19	400629	broad.mit.edu	37	chr17	80320050	80320050	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgccctccggtcagcatgcgGtatgaggaagagggcatgtc	15	10	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr17:80320050G>A	uc002keq.2	+	2	333	c.24G>A	c.(22-24)CGG>CGA	p.R8R		NM_207459	NP_997342	Q8NA77	TEX19_HUMAN	testis expressed 19	8						nucleus					0						TCAGCATGCGGTATGAGGAAG	0.582													79	37	---	---	---	---	PASS	A	80320050	A	A	80320050	2	1	143	1	0	0	0	0	0	0	0	1	15777	1248	44	3		3	TEX19	17	80320050	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	280560	80320050	875160	292	50976										
THOC1	9984	broad.mit.edu	37	chr18	215489	215489	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttcatcctcacctgtttttaTttcttcagaaggaggctaaa	6	9	4	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr18:215489T>C	uc002kkj.3	-	20	1658	c.1618A>G	c.(1618-1620)ATA>GTA	p.I540V	THOC1_uc002kkk.3_RNA|THOC1_uc002kkh.3_Missense_Mutation_p.I164V	NM_005131	NP_005122	Q96FV9	THOC1_HUMAN	THO complex 1	540					apoptosis|intronless viral mRNA export from host nucleus|mRNA processing|regulation of transcription elongation, DNA-dependent|RNA splicing|signal transduction|transcription, DNA-dependent	cytoplasm|nuclear matrix|nuclear speck|THO complex part of transcription export complex	DNA binding|protein binding|RNA binding			ovary(1)	1		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				CCTGTTTTTATTTCTTCAGAA	0.343													22	6	---	---	---	---	PASS	C	215489	C	C	215489	3	2	143	1	0	0	0	0	1	0	0	0	15861	1493	52	5	363	5	THOC1	18	215489	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08		215489	77861759	293	50977										
SMCHD1	23347	broad.mit.edu	37	chr18	2688397	2688397	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aatgttttattttagtgatcAttcaggatatgttcgtccag	8	5	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr18:2688397A>T	uc002klm.3	+	6	833	c.644A>T	c.(643-645)CAT>CTT	p.H215L		NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	215					chromosome organization		ATP binding				0						TTTAGTGATCATTCAGGATAT	0.348													28	25	---	---	---	---	PASS	T	2688397	T	T	2688397	3	4	143	1	0	0	0	0	1	0	0	0	14788	217	8	5	666	5	SMCHD1	18	2688397	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	2472908	2688397	75388851	294	50978										
SMCHD1	23347	broad.mit.edu	37	chr18	2747616	2747616	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caccggtacaacatgttaaaAtaagtcttacaaaagctagc	6	9	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr18:2747616A>G	uc002klm.3	+	30	4087	c.3898A>G	c.(3898-3900)ATA>GTA	p.I1300V	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	1300					chromosome organization		ATP binding				0						ACATGTTAAAATAAGTCTTAC	0.323													3	16	---	---	---	---	PASS	G	2747616	G	G	2747616	3	3	143	1	0	0	0	0	1	0	0	0	14788	101	4	5	4016	5	SMCHD1	18	2747616	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	59219	2747616	75329632	295	50979										
KIAA0802	23255	broad.mit.edu	37	chr18	8783967	8783967	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtttgtagaagaggaagcggAgttgctccggaggtccatct	15	7	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr18:8783967A>C	uc002knr.2	+	6	999	c.857A>C	c.(856-858)GAG>GCG	p.E286A	KIAA0802_uc002knq.2_Missense_Mutation_p.E286A|KIAA0802_uc010dkw.1_Missense_Mutation_p.E124A	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	637	Potential.										0						GAGGAAGCGGAGTTGCTCCGG	0.617													56	40	---	---	---	---	PASS	C	8783967	C	C	8783967	3	2	143	1	0	0	0	0	1	0	0	0	8194	304	11	5	871	5	KIAA0802	18	8783967	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	6036351	8783967	69293281	296	50980										
GNAL	2774	broad.mit.edu	37	chr18	11864603	11864603	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	caagtggacaaagtaaacttCcagtgagtatgttgttaaga	10	5	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr18:11864603C>G	uc010dkz.2	+	8	864	c.618C>G	c.(616-618)TTC>TTG	p.F206L	GNAL_uc002kqc.2_Missense_Mutation_p.F283L|GNAL_uc002kqd.2_Missense_Mutation_p.F206L|GNAL_uc010wzt.1_5'UTR	NM_001142339	NP_001135811	P38405	GNAL_HUMAN	guanine nucleotide binding protein (G protein),	206					activation of adenylate cyclase activity by dopamine receptor signaling pathway|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception of smell|synaptic transmission	heterotrimeric G-protein complex	adenylate cyclase activity|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						AAGTAAACTTCCAGTGAGTAT	0.493													35	87	---	---	---	---	PASS	G	11864603	G	G	11864603	3	3	143	1	0	0	0	0	1	0	0	0	6507	854	30	2	1024	2	GNAL	18	11864603	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	3080636	11864603	66212645	297	50981										
NEDD4L	23327	broad.mit.edu	37	chr18	56009014	56009014	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agctcgccaacagtaactttAtctgccccgctggaggtgag	11	12	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr18:56009014A>G	uc002lgy.2	+	15	1636	c.1362A>G	c.(1360-1362)TTA>TTG	p.L454L	NEDD4L_uc002lgz.2_Silent_p.L390L|NEDD4L_uc002lgx.2_Silent_p.L434L|NEDD4L_uc010xee.1_Silent_p.L333L|NEDD4L_uc002lhc.2_Silent_p.L446L|NEDD4L_uc002lhd.2_Silent_p.L333L|NEDD4L_uc002lhb.2_Silent_p.L313L|NEDD4L_uc002lhe.2_Silent_p.L426L|NEDD4L_uc002lhf.2_Silent_p.L313L|NEDD4L_uc002lhg.2_Silent_p.L333L|NEDD4L_uc002lhh.2_Intron|NEDD4L_uc010dpm.1_Intron	NM_001144967	NP_001138439	Q96PU5	NED4L_HUMAN	neural precursor cell expressed, developmentally	454					cellular sodium ion homeostasis|excretion|interspecies interaction between organisms|positive regulation of endocytosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of protein catabolic process|response to metal ion|sodium ion transport|water homeostasis	cytoplasm	protein binding|sodium channel regulator activity|ubiquitin-protein ligase activity			lung(4)	4						CAGTAACTTTATCTGCCCCGC	0.527													14	13	---	---	---	---	PASS	G	56009014	G	G	56009014	2	3	143	1	0	0	0	0	0	0	0	1	10311	446	16	5		5	NEDD4L	18	56009014	Silent	SNP	A	TCGA-66-2754-01A-01D-0983-08	44144411	56009014	22068234	298	50982										
CDH20	28316	broad.mit.edu	37	chr18	59217223	59217223	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tctttcagataacacagcacGgattctaaccaggaggtctg	9	10	4	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr18:59217223G>A	uc010dps.1	+	10	1673	c.1661G>A	c.(1660-1662)CGG>CAG	p.R554Q	CDH20_uc002lif.2_Missense_Mutation_p.R548Q	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	554	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				AACACAGCACGGATTCTAACC	0.532													10	28	---	---	---	---	PASS	A	59217223	A	A	59217223	3	1	143	1	0	0	0	0	1	0	0	0	3106	1116	39	1	1699	1	CDH20	18	59217223	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	3208209	59217223	18860025	299	50983										
STK11	6794	broad.mit.edu	37	chr19	1221314	1221314	+	Frame_Shift_Del	DEL	C	-	-													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gccatcccgggcgactgtggCcccccgctctctgacctgct					rs67873004		TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:1221314delC	uc002lrl.1	+	6	1952	c.837delC	c.(835-837)GGCfs	p.G279fs		NM_000455	NP_000446	Q15831	STK11_HUMAN	serine/threonine protein kinase 11	279	Protein kinase.				anoikis|cell cycle arrest|energy reserve metabolic process|insulin receptor signaling pathway|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.0?(19)|p.P281fs*6(2)|p.?(2)|p.Y246fs*3(1)|p.G279F(1)		lung(174)|cervix(35)|skin(15)|large_intestine(12)|pancreas(6)|gastrointestinal_tract_(site_indeterminate)(5)|stomach(4)|ovary(4)|breast(2)|upper_aerodigestive_tract(1)|testis(1)|liver(1)|biliary_tract(1)|small_intestine(1)|urinary_tract(1)|oesophagus(1)|prostate(1)|kidney(1)	266		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Renal(1328;0.0183)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.00942)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGACTGTGGCCCCCCGCTCT	0.607		14	D|Mis|N|F|S		NSCLC|pancreatic	jejunal harmartoma|ovarian|testicular|pancreatic			Peutz-Jeghers_syndrome	TSP Lung(3;<1E-08)			3	15	---	---	---	---		-	1221314	-	-	1221314	7	5	143	1	0	1	0	1	0	0	0	0	15286	726	26	0	859	0	STK11	19	1221314	Frame_Shift_Del	DEL	C	TCGA-66-2754-01A-01D-0983-08		1221314	57907669	300	50984										
TMPRSS9	360200	broad.mit.edu	37	chr19	2422218	2422218	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cgccatttccagacgccccgGaggccaccacacacacccag	8	20	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:2422218G>T	uc010xgx.1	+	13	2419	c.2419G>T	c.(2419-2421)GAG>TAG	p.E807*		NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	807	Extracellular (Potential).				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGACGCCCCGGAGGCCACCAC	0.632													21	71	---	---	---	---	PASS	T	2422218	T	T	2422218	4	4	143	1	0	0	0	0	0	1	0	0	16250	1175	41	2	2469	2	TMPRSS9	19	2422218	Nonsense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1200904	2422218	56706765	301	50985										
MUC16	94025	broad.mit.edu	37	chr19	9058439	9058439	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtaacctgggatgtagccagAgaataacctgtttgggtggt	14	6	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:9058439A>C	uc002mkp.2	-	3	29211	c.29007T>G	c.(29005-29007)TCT>TCG	p.S9669S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9671	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATGTAGCCAGAGAATAACCTG	0.478													26	23	---	---	---	---	PASS	C	9058439	C	C	9058439	2	2	143	1	0	0	0	0	0	0	0	1	9973	291	11	5		5	MUC16	19	9058439	Silent	SNP	A	TCGA-66-2754-01A-01D-0983-08	6636221	9058439	50070544	302	50986										
KEAP1	9817	broad.mit.edu	37	chr19	10599944	10599944	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ttcatgggggctacgaaagtCcacgtctctgtttccacatc	9	12	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:10599944C>A	uc002moq.1	-	5	1788	c.1632G>T	c.(1630-1632)TGG>TGT	p.W544C	KEAP1_uc002mop.1_Intron|KEAP1_uc002mor.1_Missense_Mutation_p.W544C	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	544	Kelch 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CTACGAAAGTCCACGTCTCTG	0.602													33	4	---	---	---	---	PASS	A	10599944	A	A	10599944	3	1	143	1	0	0	0	0	1	0	0	0	8141	856	30	2	250	2	KEAP1	19	10599944	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	1541505	10599944	48529039	303	50987										
OR7A17	26333	broad.mit.edu	37	chr19	14991871	14991871	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agtacaaaaaagcacatctgGgtgatgcagcctgcataggt	11	8	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:14991871G>T	uc010xob.1	-	1	297	c.297C>A	c.(295-297)ACC>ACA	p.T99T		NM_030901	NP_112163	O14581	OR7AH_HUMAN	olfactory receptor, family 7, subfamily A,	99	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					AGCACATCTGGGTGATGCAGC	0.468													71	31	---	---	---	---	PASS	T	14991871	T	T	14991871	2	4	143	1	0	0	0	0	0	0	0	1	11215	1219	43	3		3	OR7A17	19	14991871	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	4391927	14991871	44137112	304	50988										
CPAMD8	27151	broad.mit.edu	37	chr19	17017851	17017851	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gcgcgtaggtagtcagggcaCagctataagggtccatggcc	15	10	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:17017851C>A	uc002nfb.2	-	30	4111	c.4079G>T	c.(4078-4080)TGT>TTT	p.C1360F		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1313						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						AGTCAGGGCACAGCTATAAGG	0.652													15	0	---	---	---	---	PASS	A	17017851	A	A	17017851	3	1	143	1	0	0	0	0	1	0	0	0	3795	478	17	3	1771	3	CPAMD8	19	17017851	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2025980	17017851	42111132	305	50989										
IL12RB1	3594	broad.mit.edu	37	chr19	18180373	18180373	+	Frame_Shift_Del	DEL	G	-	-													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tacccattccagccggatccGggtcttgcggcgcagtcagg					rs140254802		TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:18180373delG	uc002nhw.1	-	10	1236	c.1172delC	c.(1171-1173)CCGfs	p.P391fs	IL12RB1_uc010xqb.1_Frame_Shift_Del_p.P391fs|IL12RB1_uc002nhx.1_Frame_Shift_Del_p.P431fs	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1	391	Extracellular (Potential).|Fibronectin type-III 4.				cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1						AGCCGGATCCGGGTCTTGCGG	0.637													1	30	---	---	---	---		-	18180373	-	-	18180373	7	5	143	1	0	1	0	1	0	0	0	0	7626	1116	39	0	848	0	IL12RB1	19	18180373	Frame_Shift_Del	DEL	G	TCGA-66-2754-01A-01D-0983-08	1162522	18180373	40948610	306	50990										
ZNF98	148198	broad.mit.edu	37	chr19	22575389	22575389	+	Frame_Shift_Del	DEL	C	-	-													0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaggcctcattataggctttCccacattctttacatttgta							TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:22575389delC	uc002nqt.2	-	4	770	c.648delG	c.(646-648)GGGfs	p.G216fs		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	216	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				TATAGGCTTTCCCACATTCTT	0.373													0	6	---	---	---	---		-	22575389	-	-	22575389	7	5	143	1	0	1	0	1	0	0	0	0	18200	842	30	0	1074	0	ZNF98	19	22575389	Frame_Shift_Del	DEL	C	TCGA-66-2754-01A-01D-0983-08	4395016	22575389	36553594	307	50991										
RYR1	6261	broad.mit.edu	37	chr19	38935234	38935234	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tggcccccagcacctgtcgaCcgccagtggggagctccagg	14	16	0	0	rs150038701		TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:38935234C>A	uc002oit.2	+	7	678	c.548C>A	c.(547-549)ACC>AAC	p.T183N	RYR1_uc002oiu.2_Missense_Mutation_p.T183N	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	183	Cytoplasmic.|MIR 2.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CACCTGTCGACCGCCAGTGGG	0.622													3	9	---	---	---	---	PASS	A	38935234	A	A	38935234	3	1	143	1	0	0	0	0	1	0	0	0	13768	507	18	3	574	3	RYR1	19	38935234	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	16359845	38935234	20193749	308	50992										
SUPT5H	6829	broad.mit.edu	37	chr19	39960853	39960853	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccgattcgagggcgacacagGcctcattgtgcgggtggagg	17	10	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:39960853G>C	uc002olo.3	+	17	1648	c.1469G>C	c.(1468-1470)GGC>GCC	p.G490A	SUPT5H_uc002olp.3_Missense_Mutation_p.G490A|SUPT5H_uc002olq.3_Missense_Mutation_p.G486A|SUPT5H_uc002oln.3_Missense_Mutation_p.G490A|SUPT5H_uc002olr.3_Missense_Mutation_p.G490A|SUPT5H_uc002ols.1_Missense_Mutation_p.G113A|SUPT5H_uc010egp.1_5'Flank	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	490	KOW 3.				cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GGCGACACAGGCCTCATTGTG	0.552													10	138	---	---	---	---	PASS	C	39960853	C	C	39960853	3	2	143	1	0	0	0	0	1	0	0	0	15396	1203	42	4	1531	4	SUPT5H	19	39960853	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1025619	39960853	19168130	309	50993										
TIMM50	92609	broad.mit.edu	37	chr19	39978732	39978732	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tctgaatcgggacccagctcGagtagtagttgtggactgca	13	9	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:39978732G>T	uc002olu.1	+	9	1170	c.1037G>T	c.(1036-1038)CGA>CTA	p.R346L	TIMM50_uc002olt.1_RNA|TIMM50_uc002olv.1_Missense_Mutation_p.R45L	NM_001001563	NP_001001563	Q3ZCQ8	TIM50_HUMAN	translocase of inner mitochondrial membrane 50	243	Mitochondrial intermembrane (Potential).|FCP1 homology.				mitochondrial membrane organization|protein transport|release of cytochrome c from mitochondria|transmembrane transport	integral to membrane|mitochondrial inner membrane presequence translocase complex|nuclear speck	interleukin-2 receptor binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|ribonucleoprotein binding|RNA binding			ovary(1)	1	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GACCCAGCTCGAGTAGTAGTT	0.552													5	141	---	---	---	---	PASS	T	39978732	T	T	39978732	3	4	143	1	0	0	0	0	1	0	0	0	15910	1058	37	2	1071	2	TIMM50	19	39978732	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	17879	39978732	19150251	310	50994										
BCAM	4059	broad.mit.edu	37	chr19	45321844	45321844	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctctaaacagcagtgcagtcGtgaactgctccgtgcacggc	11	13	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:45321844G>A	uc002ozu.2	+	9	1188	c.1144G>A	c.(1144-1146)GTG>ATG	p.V382M	BCAM_uc002ozt.1_Missense_Mutation_p.V382M	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	382	Extracellular (Potential).|Ig-like C2-type 2.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				CAGTGCAGTCGTGAACTGCTC	0.642													15	3	---	---	---	---	PASS	A	45321844	A	A	45321844	3	1	143	1	0	0	0	0	1	0	0	0	1344	1145	40	1	1178	1	BCAM	19	45321844	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	5343112	45321844	13807139	311	50995										
PNMAL2	57469	broad.mit.edu	37	chr19	46998324	46998324	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaatcctgggcctgcgtctcCgaagcgggaggggtgggtgc	19	10	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:46998324C>T	uc002pes.2	-	1	846	c.399G>A	c.(397-399)TCG>TCA	p.S133S	uc002peu.1_Silent_p.S145S	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	133										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		CCTGCGTCTCCGAAGCGGGAG	0.701													22	26	---	---	---	---	PASS	T	46998324	T	T	46998324	2	4	143	1	0	0	0	0	0	0	0	1	12158	639	23	1		1	PNMAL2	19	46998324	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	1676480	46998324	12130659	312	50996										
EHD2	30846	broad.mit.edu	37	chr19	48221846	48221846	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gggtatcctgtcgggtgccaAgcagagagtgagccgcggtg	18	9	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:48221846A>T	uc002phj.3	+	3	735	c.485A>T	c.(484-486)AAG>ATG	p.K162M	EHD2_uc010xyu.1_Missense_Mutation_p.K26M	NM_014601	NP_055416	Q9NZN4	EHD2_HUMAN	EH-domain containing 2	162					blood coagulation|endocytic recycling	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding			ovary(1)|skin(1)	2		all_cancers(25;6.74e-07)|all_lung(116;2.02e-05)|Lung NSC(112;3.77e-05)|all_epithelial(76;4.89e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		OV - Ovarian serous cystadenocarcinoma(262;0.000336)|all cancers(93;0.000415)|Epithelial(262;0.0132)|GBM - Glioblastoma multiforme(486;0.0537)		TCGGGTGCCAAGCAGAGAGTG	0.383													15	0	---	---	---	---	PASS	T	48221846	T	T	48221846	3	4	143	1	0	0	0	0	1	0	0	0	4978	72	3	5	491	5	EHD2	19	48221846	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	1223522	48221846	10907137	313	50997										
GRIN2D	2906	broad.mit.edu	37	chr19	48922942	48922942	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gagaacccccggggaaccacCagcaaaatcatggtgctggt	12	12	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:48922942C>G	uc002pjc.3	+	9	2050	c.1962C>G	c.(1960-1962)ACC>ACG	p.T654T	GRIN2D_uc010elx.2_5'UTR	NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	654	Cytoplasmic (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		all_epithelial(76;1.11e-06)|all_lung(116;5.79e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		all cancers(93;0.00014)|OV - Ovarian serous cystadenocarcinoma(262;0.000233)|Epithelial(262;0.0112)|GBM - Glioblastoma multiforme(486;0.0161)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	GGGGAACCACCAGCAAAATCA	0.592													5	130	---	---	---	---	PASS	G	48922942	G	G	48922942	2	3	143	1	0	0	0	0	0	0	0	1	6782	581	21	4		4	GRIN2D	19	48922942	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	701096	48922942	10206041	314	50998										
TEAD2	8463	broad.mit.edu	37	chr19	49845759	49845759	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gctcaggcagctgccgcaacTtgtgcaagaaattcaccagg	11	12	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:49845759T>G	uc002pnj.2	-	11	1257	c.1166A>C	c.(1165-1167)AAG>ACG	p.K389T	uc002pnb.1_5'Flank|TEAD2_uc002png.2_Missense_Mutation_p.K392T|TEAD2_uc002pnh.2_Missense_Mutation_p.K393T|TEAD2_uc002pni.2_Missense_Mutation_p.K392T|TEAD2_uc010yao.1_Missense_Mutation_p.K261T|TEAD2_uc010emw.2_Missense_Mutation_p.K392T	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	389	Transcriptional activation (Potential).				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		CTGCCGCAACTTGTGCAAGAA	0.607													31	15	---	---	---	---	PASS	G	49845759	G	G	49845759	3	3	143	1	0	0	0	0	1	0	0	0	15736	1609	56	5	185	5	TEAD2	19	49845759	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	922817	49845759	9283224	315	50999										
FPR3	2359	broad.mit.edu	37	chr19	52327627	52327627	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gatcctccacttcattattgGcttcagcgtgcctatgtcca	7	13	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:52327627G>C	uc002pxt.1	+	2	810	c.626G>C	c.(625-627)GGC>GCC	p.G209A		NM_002030	NP_002021	P25089	FPR3_HUMAN	formyl peptide receptor-like 2	209	Helical; Name=5; (Potential).				cellular component movement|chemotaxis	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(4)|breast(1)|skin(1)	6						TTCATTATTGGCTTCAGCGTG	0.458													36	5	---	---	---	---	PASS	C	52327627	C	C	52327627	3	2	143	1	0	0	0	0	1	0	0	0	6040	1203	42	4	628	4	FPR3	19	52327627	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	2481868	52327627	6801356	316	51000										
ZNF320	162967	broad.mit.edu	37	chr19	53384241	53384241	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgtgtaaggtctctctccagTatgaactctctgatgttctg	9	9	4	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:53384241T>G	uc002qag.2	-	4	1329	c.1138A>C	c.(1138-1140)ACT>CCT	p.T380P	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.T326P|ZNF320_uc002qai.2_Missense_Mutation_p.T380P	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	380					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		CTCTCTCCAGTATGAACTCTC	0.403													29	41	---	---	---	---	PASS	G	53384241	G	G	53384241	3	3	143	1	0	0	0	0	1	0	0	0	17836	1638	57	5	395	5	ZNF320	19	53384241	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	1056614	53384241	5744742	317	51001										
LILRA5	353514	broad.mit.edu	37	chr19	54818729	54818729	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctgcagcttgggggcttctcTggctgtgccaatcctgaaat	12	11	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:54818729T>C	uc002qfe.2	-	7	989	c.869A>G	c.(868-870)CAG>CGG	p.Q290R	LILRA5_uc002qff.2_Missense_Mutation_p.Q278R	NM_021250	NP_067073	A6NI73	LIRA5_HUMAN	leukocyte immunoglobulin-like receptor subfamily	290	Cytoplasmic (Potential).				innate immune response	extracellular region|integral to membrane	receptor activity			upper_aerodigestive_tract(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GGGGCTTCTCTGGCTGTGCCA	0.522													22	42	---	---	---	---	PASS	C	54818729	C	C	54818729	3	2	143	1	0	0	0	0	1	0	0	0	8788	1580	55	5	34	5	LILRA5	19	54818729	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	1434488	54818729	4310254	318	51002										
LILRB1	10859	broad.mit.edu	37	chr19	55144596	55144596	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tctgaccaaggagggggcagCtgatgacccatggcgtctaa	14	10	2	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:55144596C>A	uc002qgj.2	+	8	1428	c.1088C>A	c.(1087-1089)GCT>GAT	p.A363D	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Missense_Mutation_p.A363D|LILRB1_uc002qgk.2_Missense_Mutation_p.A363D|LILRB1_uc002qgm.2_Missense_Mutation_p.A363D|LILRB1_uc010erq.2_Missense_Mutation_p.A363D|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	363	Ig-like C2-type 4.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		GAGGGGGCAGCTGATGACCCA	0.577										HNSCC(37;0.09)			33	41	---	---	---	---	PASS	A	55144596	A	A	55144596	3	1	143	1	0	0	0	0	1	0	0	0	8790	797	28	3	1110	3	LILRB1	19	55144596	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	325867	55144596	3984387	319	51003										
ZNF416	55659	broad.mit.edu	37	chr19	58087182	58087182	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agggccttacccagcgcagtTataagtgcaaagttctccag	10	11	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:58087182T>A	uc002qpf.2	-	3	363	c.192A>T	c.(190-192)ATA>ATT	p.I64I	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	64	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		CCAGCGCAGTTATAAGTGCAA	0.557													71	39	---	---	---	---	PASS	A	58087182	A	A	58087182	2	1	143	1	0	0	0	0	0	0	0	1	17890	1744	61	5		5	ZNF416	19	58087182	Silent	SNP	T	TCGA-66-2754-01A-01D-0983-08	2942586	58087182	1041801	320	51004										
ZSCAN22	342945	broad.mit.edu	37	chr19	58850392	58850392	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gggaaagccttcagccagagCacgcacctgactcaacacca	9	15	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr19:58850392C>G	uc002qsc.2	+	3	1323	c.1176C>G	c.(1174-1176)AGC>AGG	p.S392R	ZSCAN22_uc010yhz.1_3'UTR	NM_181846	NP_862829	P10073	ZSC22_HUMAN	zinc finger and SCAN domain containing 22	392	C2H2-type 5.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0289)		TCAGCCAGAGCACGCACCTGA	0.642													35	33	---	---	---	---	PASS	G	58850392	G	G	58850392	3	3	143	1	0	0	0	0	1	0	0	0	18231	709	25	4	1182	4	ZSCAN22	19	58850392	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	763210	58850392	278591	321	51005										
C20orf46	55321	broad.mit.edu	37	chr20	1161744	1161744	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cctgcgatgatgcacctgtcCaggtgggagcctaggcgggc	16	12	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr20:1161744C>T	uc010gaa.1	-	3	738	c.519G>A	c.(517-519)CTG>CTA	p.L173L	C20orf46_uc002weq.1_Silent_p.L173L	NM_018354	NP_060824	Q9NUR3	CT046_HUMAN	hypothetical protein LOC55321	173						integral to membrane	protein binding			ovary(1)	1						TGCACCTGTCCAGGTGGGAGC	0.642													9	15	---	---	---	---	PASS	T	1161744	T	T	1161744	2	4	143	1	0	0	0	0	0	0	0	1	2113	581	21	3		3	C20orf46	20	1161744	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08		1161744	61863776	322	51006										
CPXM1	56265	broad.mit.edu	37	chr20	2779185	2779185	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agacccaaaggaggacagccTggggcggggatagaacagtg	17	8	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr20:2779185T>A	uc002wgu.2	-	3	405	c.341_splice	c.e3-1	p.G114_splice	CPXM1_uc010gas.2_Splice_Site_p.G114_splice	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor						cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						GAGGACAGCCTGGGGCGGGGA	0.622													11	22	---	---	---	---	PASS	A	2779185	A	A	2779185	5	1	143	1	0	0	0	0	0	0	1	0	3837	1594	55	5	1913	5	CPXM1	20	2779185	Splice_Site	SNP	T	TCGA-66-2754-01A-01D-0983-08	1617441	2779185	60246335	323	51007										
PLCB1	23236	broad.mit.edu	37	chr20	8713943	8713943	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aacgggaagagtggctacagAttgaagccagagttcatgag	14	6	1	5			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr20:8713943A>T	uc002wnb.2	+	19	1950	c.1947A>T	c.(1945-1947)AGA>AGT	p.R649S	PLCB1_uc010zrb.1_Missense_Mutation_p.R548S|PLCB1_uc002wna.2_Missense_Mutation_p.R649S|PLCB1_uc002wnc.1_Missense_Mutation_p.R548S|PLCB1_uc002wnd.1_Missense_Mutation_p.R226S	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	649	PI-PLC Y-box.				activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						GTGGCTACAGATTGAAGCCAG	0.408													27	38	---	---	---	---	PASS	T	8713943	T	T	8713943	3	4	143	1	0	0	0	0	1	0	0	0	12027	330	12	5	2021	5	PLCB1	20	8713943	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	5934758	8713943	54311577	324	51008										
C20orf26	26074	broad.mit.edu	37	chr20	20079442	20079442	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gaatcaccacaagacctaagTgtccgaagaagtcaaggtac	9	10	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr20:20079442T>A	uc002wru.2	+	8	919	c.843T>A	c.(841-843)AGT>AGA	p.S281R	C20orf26_uc010gcw.1_Missense_Mutation_p.S235R|C20orf26_uc010zse.1_Missense_Mutation_p.S281R|C20orf26_uc010zsf.1_Missense_Mutation_p.S281R	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	281										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		AAGACCTAAGTGTCCGAAGAA	0.468													16	25	---	---	---	---	PASS	A	20079442	A	A	20079442	3	1	143	1	0	0	0	0	1	0	0	0	2106	1693	59	5	869	5	C20orf26	20	20079442	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	11365499	20079442	42946078	325	51009										
NFS1	9054	broad.mit.edu	37	chr20	34285673	34285673	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtgtccgggagtgtgggttcCcatagtagttgattaggtaa	15	5	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr20:34285673C>T	uc002xdw.1	-	3	321	c.257G>A	c.(256-258)GGG>GAG	p.G86E	NFS1_uc002xdt.1_Missense_Mutation_p.G26E|NFS1_uc002xdu.1_Missense_Mutation_p.G26E|NFS1_uc002xdv.1_RNA|NFS1_uc010zvk.1_5'UTR|NFS1_uc010zvl.1_Missense_Mutation_p.G86E|NFS1_uc002xdx.2_Missense_Mutation_p.G86E|ROMO1_uc002xdy.2_5'Flank|ROMO1_uc010gfm.2_5'Flank	NM_021100	NP_066923	Q9Y697	NFS1_HUMAN	NFS1 nitrogen fixation 1 precursor	86					cysteine metabolic process|iron incorporation into metallo-sulfur cluster|Mo-molybdopterin cofactor biosynthetic process|protein complex assembly|water-soluble vitamin metabolic process	cytosol|mitochondrial matrix|nucleus	cysteine desulfurase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.0886)		L-Alanine(DB00160)|L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	GTGTGGGTTCCCATAGTAGTT	0.517													8	30	---	---	---	---	PASS	T	34285673	T	T	34285673	3	4	143	1	0	0	0	0	1	0	0	0	10385	623	22	3	1160	3	NFS1	20	34285673	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	14206231	34285673	28739847	326	51010										
MYL9	10398	broad.mit.edu	37	chr20	35177601	35177601	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aagaaaggcaacttcaactaCgtggagttcacccgcatcct	8	12	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr20:35177601C>T	uc002xfl.1	+	4	562	c.468C>T	c.(466-468)TAC>TAT	p.Y156Y	uc002xfk.3_Intron|MYL9_uc002xfm.1_Silent_p.Y102Y	NM_006097	NP_006088	P24844	MYL9_HUMAN	myosin regulatory light chain 9 isoform a	156	EF-hand 3.				axon guidance|muscle contraction|regulation of muscle contraction	cytosol|muscle myosin complex	calcium ion binding|structural constituent of muscle				0	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				ACTTCAACTACGTGGAGTTCA	0.602													16	38	---	---	---	---	PASS	T	35177601	T	T	35177601	2	4	143	1	0	0	0	0	0	0	0	1	10054	547	19	1		1	MYL9	20	35177601	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	891928	35177601	27847919	327	51011										
DHX35	60625	broad.mit.edu	37	chr20	37657130	37657130	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgcagcgaggtttcattctaCtggagcttataggtaacatg	11	7	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr20:37657130C>G	uc002xjh.2	+	19	1882	c.1871C>G	c.(1870-1872)ACT>AGT	p.T624S	DHX35_uc010zwa.1_Missense_Mutation_p.T469S|DHX35_uc010zwb.1_Missense_Mutation_p.T469S|DHX35_uc010zwc.1_Missense_Mutation_p.T593S	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	624						catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				TTTCATTCTACTGGAGCTTAT	0.468													22	50	---	---	---	---	PASS	G	37657130	G	G	37657130	3	3	143	1	0	0	0	0	1	0	0	0	4508	565	20	4	1945	4	DHX35	20	37657130	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2479529	37657130	25368390	328	51012										
PLCG1	5335	broad.mit.edu	37	chr20	39802790	39802790	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aatggtgacctcagtcccttCagtggtacgtccctgcggga	12	12	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr20:39802790C>T	uc002xjp.1	+	31	3790	c.3669C>T	c.(3667-3669)TTC>TTT	p.F1223F	PLCG1_uc002xjo.1_Silent_p.F1224F|PLCG1_uc010zwe.1_Silent_p.F889F	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	1223					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				TCAGTCCCTTCAGTGGTACGT	0.607													37	29	---	---	---	---	PASS	T	39802790	T	T	39802790	2	4	143	1	0	0	0	0	0	0	0	1	12035	825	29	2		2	PLCG1	20	39802790	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	2145660	39802790	23222730	329	51013										
ZBP1	81030	broad.mit.edu	37	chr20	56185336	56185336	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	agcacgatttcatgtggattCtctgggcggcttccccctca	10	13	3	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr20:56185336C>T	uc002xyo.2	-	7	1243	c.962G>A	c.(961-963)AGA>AAA	p.R321K	ZBP1_uc010gjm.2_Missense_Mutation_p.R320K|ZBP1_uc002xyp.2_Missense_Mutation_p.R246K	NM_030776	NP_110403	Q9H171	ZBP1_HUMAN	Z-DNA binding protein 1 isoform a	321						cytoplasm|nucleus	double-stranded RNA adenosine deaminase activity|left-handed Z-DNA binding|RNA binding			ovary(2)	2	Lung NSC(12;0.000545)|all_lung(29;0.00195)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;7.87e-13)|Epithelial(14;3.26e-09)|all cancers(14;3.62e-08)			CATGTGGATTCTCTGGGCGGC	0.582													108	78	---	---	---	---	PASS	T	56185336	T	T	56185336	3	4	143	1	0	0	0	0	1	0	0	0	17518	913	32	2	335	2	ZBP1	20	56185336	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	16382546	56185336	6840184	330	51014										
GNAS	2778	broad.mit.edu	37	chr20	57415527	57415527	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gagtccgaaatcgagtccgaGaccgacttcgagaccgagcc	12	13	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr20:57415527G>C	uc002xzt.2	+	1	733	c.366G>C	c.(364-366)GAG>GAC	p.E122D	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			TCGAGTCCGAGACCGACTTCG	0.637			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			15	43	---	---	---	---	PASS	C	57415527	C	C	57415527	3	2	143	1	0	0	0	0	1	0	0	0	6510	933	33	2	368	2	GNAS	20	57415527	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1230191	57415527	5609993	331	51015										
ERG	2078	broad.mit.edu	37	chr21	39795353	39795353	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgctggcacgataactctgcGctcgttcgtggtcatgtttg	12	10	2	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr21:39795353G>A	uc010gnw.2	-	5	683	c.388C>T	c.(388-390)CGC>TGC	p.R130C	ERG_uc002yxa.2_Missense_Mutation_p.R123C|ERG_uc011aek.1_Missense_Mutation_p.R31C|ERG_uc010gnv.2_Missense_Mutation_p.R31C|ERG_uc010gnx.2_Missense_Mutation_p.R130C|ERG_uc011ael.1_Missense_Mutation_p.R130C|ERG_uc002yxb.2_Missense_Mutation_p.R130C|ERG_uc011aem.1_Missense_Mutation_p.R123C|ERG_uc002yxc.3_Missense_Mutation_p.R130C	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	130	PNT.				cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				ATAACTCTGCGCTCGTTCGTG	0.602													9	17	---	---	---	---	PASS	A	39795353	A	A	39795353	3	1	143	1	0	0	0	0	1	0	0	0	5222	1087	38	1	1104	1	ERG	21	39795353	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08		39795353	8334542	332	51016										
DSCAM	1826	broad.mit.edu	37	chr21	41551009	41551009	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	catctttggttctctgagcaGaatcccaggagtcttttggg	11	9	3	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr21:41551009G>C	uc002yyq.1	-	15	3244	c.2792C>G	c.(2791-2793)TCT>TGT	p.S931C	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	931	Extracellular (Potential).|Fibronectin type-III 1.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TCTCTGAGCAGAATCCCAGGA	0.433													33	4	---	---	---	---	PASS	C	41551009	C	C	41551009	3	2	143	1	0	0	0	0	1	0	0	0	4768	942	33	2	3322	2	DSCAM	21	41551009	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1755656	41551009	6578886	333	51017										
BACE2	25825	broad.mit.edu	37	chr21	42609440	42609440	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	cttttcttttctttctccagGtctagcacataccgctccaa	4	14	4	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr21:42609440G>T	uc002yyw.2	+	3	865	c.402G>T	c.(400-402)AGG>AGT	p.R134S	BACE2_uc002yyx.2_Missense_Mutation_p.R134S|BACE2_uc002yyy.2_Missense_Mutation_p.R134S	NM_012105	NP_036237	Q9Y5Z0	BACE2_HUMAN	beta-site APP-cleaving enzyme 2 isoform A	134	Extracellular (Potential).				membrane protein ectodomain proteolysis|negative regulation of amyloid precursor protein biosynthetic process|peptide hormone processing	cell surface|endoplasmic reticulum|endosome|Golgi apparatus|integral to membrane	aspartic-type endopeptidase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0251)				CTTTCTCCAGGTCTAGCACAT	0.328													18	2	---	---	---	---	PASS	T	42609440	T	T	42609440	3	4	143	1	0	0	0	0	1	0	0	0	1282	1275	44	3	412	3	BACE2	21	42609440	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	1058431	42609440	5520455	334	51018										
COL6A1	1291	broad.mit.edu	37	chr21	47422159	47422159	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aagagcctgcagtggatggcGggcggcaccttcacggggga	18	10	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr21:47422159G>C	uc002zhu.1	+	32	2196	c.2094G>C	c.(2092-2094)GCG>GCC	p.A698A	COL6A1_uc010gqd.1_Silent_p.A29A|COL6A1_uc002zhv.1_Silent_p.A29A|COL6A1_uc002zhw.1_5'Flank	NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	698	VWFA 2.|C-terminal globular domain.				axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	AGTGGATGGCGGGCGGCACCT	0.701													3	6	---	---	---	---	PASS	C	47422159	C	C	47422159	2	2	143	1	0	0	0	0	0	0	0	1	3699	1103	39	4		4	COL6A1	21	47422159	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	4812719	47422159	707736	335	51019										
SLC5A1	6523	broad.mit.edu	37	chr22	32487724	32487724	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	aggtccgcaagagagcatctGagaaagagctcatgattgcc	12	9	2	4			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr22:32487724G>T	uc003amc.2	+	11	1487	c.1255G>T	c.(1255-1257)GAG>TAG	p.E419*	SLC5A1_uc011alz.1_Nonsense_Mutation_p.E292*	NM_000343	NP_000334	P13866	SC5A1_HUMAN	solute carrier family 5 (sodium/glucose	419	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to plasma membrane	glucose:sodium symporter activity|protein binding			skin(1)	1						GAGAGCATCTGAGAAAGAGCT	0.532													33	28	---	---	---	---	PASS	T	32487724	T	T	32487724	4	4	143	1	0	0	0	0	0	1	0	0	14661	1291	45	2	1297	2	SLC5A1	22	32487724	Nonsense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08		32487724	18816842	336	51020										
UPK3A	7380	broad.mit.edu	37	chr22	45689169	45689169	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tctttctacttgtgggttttGctggcgccattgccctcagc	10	12	3	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr22:45689169G>T	uc003bfy.2	+	5	685	c.679G>T	c.(679-681)GCT>TCT	p.A227S	UPK3A_uc010gzy.2_Missense_Mutation_p.A106S	NM_006953	NP_008884	O75631	UPK3A_HUMAN	uroplakin 3A precursor	227	Helical; (Potential).				epithelial cell differentiation	endoplasmic reticulum membrane|integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		TGTGGGTTTTGCTGGCGCCAT	0.602													12	14	---	---	---	---	PASS	T	45689169	T	T	45689169	3	4	143	1	0	0	0	0	1	0	0	0	17007	1319	46	3	697	3	UPK3A	22	45689169	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	13201445	45689169	5615397	337	51021										
CELSR1	9620	broad.mit.edu	37	chr22	46785336	46785336	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgtagcactgcgcagcgcccTcaccagctgcagggccctgg	13	16	1	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chr22:46785336T>A	uc003bhw.1	-	18	6406	c.6406A>T	c.(6406-6408)AGG>TGG	p.R2136W	CELSR1_uc011arc.1_Missense_Mutation_p.R457W	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2136	Extracellular (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CGCAGCGCCCTCACCAGCTGC	0.632													4	15	---	---	---	---	PASS	A	46785336	A	A	46785336	3	1	143	1	0	0	0	0	1	0	0	0	3221	1550	54	5	2710	5	CELSR1	22	46785336	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	1096167	46785336	4519230	338	51022										
TMEM27	57393	broad.mit.edu	37	chrX	15677138	15677138	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gatttctcattatttgcttaCtctgttgcttctctgttggg	8	8	3	0			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:15677138C>G	uc004cxc.1	-	3	459	c.203_splice	c.e3+1	p.E68_splice		NM_020665	NP_065716	Q9HBJ8	TMM27_HUMAN	transmembrane protein 27 precursor						proteolysis	integral to membrane	metallopeptidase activity|peptidyl-dipeptidase activity			ovary(1)	1	Hepatocellular(33;0.183)					TATTTGCTTACTCTGTTGCTT	0.318													6	8	---	---	---	---	PASS	G	15677138	G	G	15677138	5	3	143	1	0	0	0	0	0	0	1	0	16149	579	20	4	480	4	TMEM27	23	15677138	Splice_Site	SNP	C	TCGA-66-2754-01A-01D-0983-08		15677138	139593422	339	51023										
FAM47A	158724	broad.mit.edu	37	chrX	34148516	34148516	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tgggggtaaagtcaaacagaTtcctgatggattcttcatca	10	7	4	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:34148516T>A	uc004ddg.2	-	1	1913	c.1880A>T	c.(1879-1881)AAT>ATT	p.N627I		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	627										ovary(4)|central_nervous_system(1)	5						GTCAAACAGATTCCTGATGGA	0.443													26	36	---	---	---	---	PASS	A	34148516	A	A	34148516	3	1	143	1	0	0	0	0	1	0	0	0	5569	1493	52	5	499	5	FAM47A	23	34148516	Missense_Mutation	SNP	T	TCGA-66-2754-01A-01D-0983-08	18471378	34148516	121122044	340	51024										
FAM47B	170062	broad.mit.edu	37	chrX	34962426	34962426	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccctgagtgcagaacaaccgAtcaagaccaaaagattaaga	8	10	1	5			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:34962426A>C	uc004ddi.1	+	1	1496	c.1478A>C	c.(1477-1479)GAT>GCT	p.D493A		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	493										ovary(3)|breast(1)	4						AGAACAACCGATCAAGACCAA	0.458													30	47	---	---	---	---	PASS	C	34962426	C	C	34962426	3	2	143	1	0	0	0	0	1	0	0	0	5570	333	12	5	1480	5	FAM47B	23	34962426	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	813910	34962426	120308134	341	51025										
USP11	8237	broad.mit.edu	37	chrX	47102051	47102051	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gtggctgatgtcttcagtcaCcgcttctataagctctatca	8	11	6	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:47102051C>T	uc004dhp.2	+	12	1644	c.1644C>T	c.(1642-1644)CAC>CAT	p.H548H	USP11_uc004dhq.2_Silent_p.H275H	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	548					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						TCTTCAGTCACCGCTTCTATA	0.552													22	0	---	---	---	---	PASS	T	47102051	T	T	47102051	2	4	143	1	0	0	0	0	0	0	0	1	17039	506	18	3		3	USP11	23	47102051	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	12139625	47102051	108168509	342	51026										
STARD8	9754	broad.mit.edu	37	chrX	67938340	67938340	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	tctgacactgtggcctcctcCagcgaacttgacagtagtgg	11	12	1	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:67938340C>T	uc004dxa.2	+	5	1716	c.1344C>T	c.(1342-1344)TCC>TCT	p.S448S	STARD8_uc004dxb.2_Silent_p.S528S|STARD8_uc004dxc.3_Silent_p.S448S	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	448					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						TGGCCTCCTCCAGCGAACTTG	0.592													7	8	---	---	---	---	PASS	T	67938340	T	T	67938340	2	4	143	1	0	0	0	0	0	0	0	1	15262	581	21	3		3	STARD8	23	67938340	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	20836289	67938340	87332220	343	51027										
PCDH19	57526	broad.mit.edu	37	chrX	99551290	99551290	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctggtttagagaacgatatcCttcagacgcttcacaccagg	9	11	2	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:99551290C>T	uc010nmz.2	-	6	5108	c.3432G>A	c.(3430-3432)AAG>AAA	p.K1144K	PCDH19_uc004efw.3_Silent_p.K1096K|PCDH19_uc004efx.3_Silent_p.K1097K	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	1144	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						GAACGATATCCTTCAGACGCT	0.493													48	2	---	---	---	---	PASS	T	99551290	T	T	99551290	2	4	143	1	0	0	0	0	0	0	0	1	11514	680	24	3		3	PCDH19	23	99551290	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	31612950	99551290	55719270	344	51028										
CXorf57	55086	broad.mit.edu	37	chrX	105855370	105855370	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	catgcagggctagattggccGaaccctgagaggaatcgggc	15	10	0	2			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:105855370G>T	uc004emi.3	+	1	211	c.60G>T	c.(58-60)CCG>CCT	p.P20P	CXorf57_uc004emj.3_Silent_p.P20P|CXorf57_uc004emh.2_Silent_p.P20P	NM_018015	NP_060485	Q6NSI4	CX057_HUMAN	hypothetical protein LOC55086	20										ovary(1)|lung(1)|breast(1)	3						TAGATTGGCCGAACCCTGAGA	0.572													27	3	---	---	---	---	PASS	T	105855370	T	T	105855370	2	4	143	1	0	0	0	0	0	0	0	1	4113	1045	37	2		2	CXorf57	23	105855370	Silent	SNP	G	TCGA-66-2754-01A-01D-0983-08	6304080	105855370	49415190	345	51029										
TBC1D8B	54885	broad.mit.edu	37	chrX	106111678	106111678	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ggagatgaactttccaaggaAgaattactttatttcagtca	8	6	2	3			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:106111678A>T	uc004emo.2	+	18	2949	c.2784A>T	c.(2782-2784)GAA>GAT	p.E928D	MORC4_uc004emp.3_Intron	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	928						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						TTTCCAAGGAAGAATTACTTT	0.323													4	1	---	---	---	---	PASS	T	106111678	T	T	106111678	3	4	143	1	0	0	0	0	1	0	0	0	15623	69	3	5	2920	5	TBC1D8B	23	106111678	Missense_Mutation	SNP	A	TCGA-66-2754-01A-01D-0983-08	256308	106111678	49158882	346	51030										
GUCY2F	2986	broad.mit.edu	37	chrX	108684580	108684580	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	acagctgttgaatatcttacCtcataaatcgctatgttgga	7	8	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:108684580C>A	uc004eod.3	-	7	1977	c.1701G>T	c.(1699-1701)GAG>GAT	p.E567D	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	567	Protein kinase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						AATATCTTACCTCATAAATCG	0.403													5	73	---	---	---	---	PASS	A	108684580	A	A	108684580	3	1	143	1	0	0	0	0	1	0	0	0	6898	695	24	3	1677	3	GUCY2F	23	108684580	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2572902	108684580	46585980	347	51031										
AGTR2	186	broad.mit.edu	37	chrX	115304403	115304403	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	atgggtgtcattaatagctgCgaagttatagcagtcattga	11	5	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:115304403C>T	uc004eqh.3	+	3	1077	c.870C>T	c.(868-870)TGC>TGT	p.C290C		NM_000686	NP_000677	P50052	AGTR2_HUMAN	angiotensin II receptor, type 2	290	Extracellular (Potential).				behavior|blood vessel remodeling|brain development|G-protein signaling, coupled to cGMP nucleotide second messenger|intracellular protein kinase cascade|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of heart rate|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of nitric-oxide synthase activity|positive regulation of phosphoprotein phosphatase activity|positive regulation of vasodilation|regulation of systemic arterial blood pressure by circulatory renin-angiotensin		angiotensin type II receptor activity|receptor antagonist activity			ovary(2)|lung(1)	3						TTAATAGCTGCGAAGTTATAG	0.483													38	50	---	---	---	---	PASS	T	115304403	T	T	115304403	2	4	143	1	0	0	0	0	0	0	0	1	402	776	27	1		1	AGTR2	23	115304403	Silent	SNP	C	TCGA-66-2754-01A-01D-0983-08	6619823	115304403	39966157	348	51032										
MAGEA4	4103	broad.mit.edu	37	chrX	151092292	151092292	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ctggtccctggcaccctggaGgaagtgcctgctgctgagtc	14	13	0	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:151092292G>T	uc004fez.2	+	3	312	c.156G>T	c.(154-156)GAG>GAT	p.E52D	MAGEA4_uc004ffa.2_Missense_Mutation_p.E52D|MAGEA4_uc004ffb.2_Missense_Mutation_p.E52D|MAGEA4_uc004ffc.2_Missense_Mutation_p.E52D|MAGEA4_uc004ffd.2_Missense_Mutation_p.E52D	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	52							protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GCACCCTGGAGGAAGTGCCTG	0.617													5	44	---	---	---	---	PASS	T	151092292	T	T	151092292	3	4	143	1	0	0	0	0	1	0	0	0	9168	991	35	3	158	3	MAGEA4	23	151092292	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	35787889	151092292	4178268	349	51033										
GABRA3	2556	broad.mit.edu	37	chrX	151358288	151358288	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	gacagtggcaaattcaatcaGtgcagaaaatacaaaggcat	9	7	2	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:151358288G>T	uc010ntk.1	-	9	1297	c.1057C>A	c.(1057-1059)CTG>ATG	p.L353M		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	353	Helical; (Probable).				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(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	AATTCAATCAGTGCAGAAAAT	0.478													19	27	---	---	---	---	PASS	T	151358288	T	T	151358288	3	4	143	1	0	0	0	0	1	0	0	0	6162	1020	36	3	429	3	GABRA3	23	151358288	Missense_Mutation	SNP	G	TCGA-66-2754-01A-01D-0983-08	265996	151358288	3912272	350	51034										
FLNA	2316	broad.mit.edu	37	chrX	153581949	153581949	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.103746397694524	36	0.0102429380664961	1.54889434889435	2.08077042559801	1.26058769049423	0.822384163766055	1	13	ccgagcagtgaaggggctgcCtgggacgtgctgttcattgt	16	9	1	1			TCGA-66-2754-01A-01D-0983-08	TCGA-66-2754-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c34a64c8-3746-44f8-a7ee-77f502b6256c	de244b96-3214-45d1-bb11-a802818eafb4	g.chrX:153581949C>A	uc004fkk.2	-	36	6082	c.5833G>T	c.(5833-5835)GGC>TGC	p.G1945C	FLNA_uc004fki.2_Translation_Start_Site|FLNA_uc011mzn.1_Intron|FLNA_uc010nuu.1_Missense_Mutation_p.G1937C	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1945	Filamin 17.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AAGGGGCTGCCTGGGACGTGC	0.607													5	34	---	---	---	---	PASS	A	153581949	A	A	153581949	3	1	143	1	0	0	0	0	1	0	0	0	5933	681	24	3	2162	3	FLNA	23	153581949	Missense_Mutation	SNP	C	TCGA-66-2754-01A-01D-0983-08	2223661	153581949	1688611	351	51035										
AJAP1	55966	broad.mit.edu	37	chr1	4772135	4772135	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ggctgtggagttttaggagtGgacagccagcgcgggtcccg	18	9	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:4772135G>T	uc001alm.1	+	2	586	c.205G>T	c.(205-207)GGA>TGA	p.G69*	AJAP1_uc001aln.2_Nonsense_Mutation_p.G69*	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	69	Extracellular (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		TTTTAGGAGTGGACAGCCAGC	0.622													10	20	---	---	---	---	PASS	T	4772135	T	T	4772135	4	4	144	1	0	0	0	0	0	1	0	0	438	1349	47	3	211	3	AJAP1	1	4772135	Nonsense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08		4772135	244478486	1	51036										
PRAMEF2	65122	broad.mit.edu	37	chr1	12918947	12918947	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ggccttgtccatctctgccaTggaggagctgcccagggtgc	14	13	1	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:12918947T>A	uc001aum.1	+	2	170	c.83T>A	c.(82-84)ATG>AAG	p.M28K		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	28											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		ATCTCTGCCATGGAGGAGCTG	0.607													45	167	---	---	---	---	PASS	A	12918947	A	A	12918947	3	1	144	1	0	0	0	0	1	0	0	0	12435	1464	51	5	85	5	PRAMEF2	1	12918947	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	8146812	12918947	236331674	2	51037										
EPB41	2035	broad.mit.edu	37	chr1	29438932	29438932	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgaaaagagaattgtgatcaCaggagatgctgatattgacc	11	5	1	6			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:29438932C>T	uc001brm.1	+	18	2475	c.2468C>T	c.(2467-2469)ACA>ATA	p.T823I	EPB41_uc001brg.1_Missense_Mutation_p.T600I|EPB41_uc001brh.1_Missense_Mutation_p.T547I|EPB41_uc001bri.1_Missense_Mutation_p.T734I|EPB41_uc001brj.1_Missense_Mutation_p.T560I|EPB41_uc001brl.1_Missense_Mutation_p.T790I|EPB41_uc009vtl.1_Missense_Mutation_p.T517I|EPB41_uc009vtm.1_Missense_Mutation_p.T402I|EPB41_uc009vtn.1_RNA	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1	823	Carboxyl-terminal (CTD).				blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)		ATTGTGATCACAGGAGATGCT	0.448													35	97	---	---	---	---	PASS	T	29438932	T	T	29438932	3	4	144	1	0	0	0	0	1	0	0	0	5151	478	17	3	2559	3	EPB41	1	29438932	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	16519985	29438932	219811689	3	51038										
GBP4	115361	broad.mit.edu	37	chr1	89652777	89652777	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgcaggaagttctggaggacCtcgtttgcctgaggaaccaa	13	9	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:89652777C>A	uc001dnb.2	-	9	1535	c.1419G>T	c.(1417-1419)GAG>GAT	p.E473D		NM_052941	NP_443173	Q96PP9	GBP4_HUMAN	guanylate binding protein 4	473						cytoplasm	GTP binding|GTPase activity				0				all cancers(265;0.00723)|Epithelial(280;0.0291)		TCTGGAGGACCTCGTTTGCCT	0.473													20	92	---	---	---	---	PASS	A	89652777	A	A	89652777	3	1	144	1	0	0	0	0	1	0	0	0	6276	680	24	3	515	3	GBP4	1	89652777	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	60213845	89652777	159597844	4	51039										
SPAG17	200162	broad.mit.edu	37	chr1	118534064	118534064	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cagcttgaggagatcagcagCattgcctctctcctcctcag	9	14	3	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:118534064C>T	uc001ehk.2	-	37	5517	c.5449G>A	c.(5449-5451)GCT>ACT	p.A1817T		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1817						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		AGATCAGCAGCATTGCCTCTC	0.363													31	86	---	---	---	---	PASS	T	118534064	T	T	118534064	3	4	144	1	0	0	0	0	1	0	0	0	14979	710	25	3	1270	3	SPAG17	1	118534064	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	28881287	118534064	130716557	5	51040										
NOTCH2	4853	broad.mit.edu	37	chr1	120506351	120506351	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	atgcaggtgtaggaatcaatAccatcctgacactgaccatg	9	10	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:120506351A>G	uc001eik.2	-	11	2017	c.1761T>C	c.(1759-1761)GGT>GGC	p.G587G	NOTCH2_uc001eil.2_Silent_p.G587G|NOTCH2_uc001eim.3_Silent_p.G504G	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	587	Extracellular (Potential).|EGF-like 15; calcium-binding (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGGAATCAATACCATCCTGAC	0.488			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				27	288	---	---	---	---	PASS	G	120506351	G	G	120506351	2	3	144	1	0	0	0	0	0	0	0	1	10548	378	14	5		5	NOTCH2	1	120506351	Silent	SNP	A	TCGA-66-2755-01A-01D-1522-08	1972287	120506351	128744270	6	51041										
DCST1	149095	broad.mit.edu	37	chr1	155007172	155007172	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cccatgaacatctacgaagaAcagaagattatgttcttgta	7	8	2	4			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:155007172A>G	uc001fgn.1	+	4	327	c.231A>G	c.(229-231)GAA>GAG	p.E77E	DCST2_uc001fgm.2_5'Flank|DCST2_uc009wpb.2_5'Flank|DCST1_uc010per.1_Silent_p.E102E|DCST1_uc010pes.1_Intron	NM_152494	NP_689707	Q5T197	DCST1_HUMAN	DC-STAMP domain containing 1 isoform 1	77	Extracellular (Potential).					integral to membrane	zinc ion binding			ovary(1)|skin(1)	2	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			TCTACGAAGAACAGAAGATTA	0.542													130	123	---	---	---	---	PASS	G	155007172	G	G	155007172	2	3	144	1	0	0	0	0	0	0	0	1	4302	40	2	5		5	DCST1	1	155007172	Silent	SNP	A	TCGA-66-2755-01A-01D-1522-08	34500821	155007172	94243449	7	51042										
SCAMP3	10067	broad.mit.edu	37	chr1	155231452	155231452	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ctctccagtagctcacctccCgggtctcaaaagggttgtag	10	13	3	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:155231452C>T	uc001fjs.2	-	2	393	c.140G>A	c.(139-141)CGG>CAG	p.R47Q	RAG1AP1_uc010pey.1_Intron|SCAMP3_uc001fjr.2_5'Flank|SCAMP3_uc001fju.2_Missense_Mutation_p.R47Q|SCAMP3_uc001fjv.2_Missense_Mutation_p.R47Q|SCAMP3_uc001fjt.2_Intron	NM_005698	NP_005689	O14828	SCAM3_HUMAN	secretory carrier membrane protein 3 isoform 1	47	Cytoplasmic (Potential).				post-Golgi vesicle-mediated transport|protein transport	integral to membrane				ovary(3)	3	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)			GCTCACCTCCCGGGTCTCAAA	0.572													135	121	---	---	---	---	PASS	T	155231452	T	T	155231452	3	4	144	1	0	0	0	0	1	0	0	0	13872	652	23	1	935	1	SCAMP3	1	155231452	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	224280	155231452	94019169	8	51043										
SPTA1	6708	broad.mit.edu	37	chr1	158632626	158632626	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tggccagtggctctttcagaGcttcaaatcggcataccaag	10	11	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:158632626G>A	uc001fst.1	-	17	2529	c.2330C>T	c.(2329-2331)GCT>GTT	p.A777V		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	777	Spectrin 8.				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)					CTCTTTCAGAGCTTCAAATCG	0.473													86	69	---	---	---	---	PASS	A	158632626	A	A	158632626	3	1	144	1	0	0	0	0	1	0	0	0	15115	971	34	3	5073	3	SPTA1	1	158632626	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	3401174	158632626	90617995	9	51044										
ATF6	22926	broad.mit.edu	37	chr1	161790926	161790926	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgatgatagtattggcatttAtaatactgaactatggacct	8	5	0	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:161790926A>G	uc001gbr.2	+	9	1229	c.1162A>G	c.(1162-1164)ATA>GTA	p.I388V	ATF6_uc001gbq.1_Missense_Mutation_p.I388V	NM_007348	NP_031374	P18850	ATF6A_HUMAN	activating transcription factor 6	388	Helical; Signal-anchor for type II membrane protein; (Potential).				positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response|protein folding	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|skin(1)	3	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.00953)			ATTGGCATTTATAATACTGAA	0.318													6	229	---	---	---	---	PASS	G	161790926	G	G	161790926	3	3	144	1	0	0	0	0	1	0	0	0	1084	449	16	5	1196	5	ATF6	1	161790926	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	3158300	161790926	87459695	10	51045										
PAPPA2	60676	broad.mit.edu	37	chr1	176525526	176525526	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtgggcactctgttctgccaActctgagctgggctggacac	13	12	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:176525526A>T	uc001gkz.2	+	2	1232	c.68A>T	c.(67-69)AAC>ATC	p.N23I	PAPPA2_uc001gky.1_Missense_Mutation_p.N23I|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	23					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TGTTCTGCCAACTCTGAGCTG	0.512													155	162	---	---	---	---	PASS	T	176525526	T	T	176525526	3	4	144	1	0	0	0	0	1	0	0	0	11433	43	2	5	70	5	PAPPA2	1	176525526	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	14734600	176525526	72725095	11	51046										
PAPPA2	60676	broad.mit.edu	37	chr1	176564569	176564569	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	actcacaggctatgatggggGtgactgccgcctgcagggcc	15	12	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:176564569G>T	uc001gkz.2	+	3	2993	c.1829G>T	c.(1828-1830)GGT>GTT	p.G610V	PAPPA2_uc001gky.1_Missense_Mutation_p.G610V|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	610	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TATGATGGGGGTGACTGCCGC	0.587													73	55	---	---	---	---	PASS	T	176564569	T	T	176564569	3	4	144	1	0	0	0	0	1	0	0	0	11433	1261	44	3	1835	3	PAPPA2	1	176564569	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	39043	176564569	72686052	12	51047										
PRG4	10216	broad.mit.edu	37	chr1	186277633	186277633	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aaagagacttacgtactacaCctgaaactacaactgctgca	6	11	0	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:186277633C>A	uc001gru.3	+	7	2833	c.2782C>A	c.(2782-2784)CCT>ACT	p.P928T	PRG4_uc001grt.3_Missense_Mutation_p.P887T|PRG4_uc009wyl.2_Missense_Mutation_p.P835T|PRG4_uc009wym.2_Missense_Mutation_p.P794T|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	928					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						ACGTACTACACCTGAAACTAC	0.413													5	282	---	---	---	---	PASS	A	186277633	A	A	186277633	3	1	144	1	0	0	0	0	1	0	0	0	12481	507	18	3	2804	3	PRG4	1	186277633	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	9713064	186277633	62972988	13	51048										
IGFN1	91156	broad.mit.edu	37	chr1	201196167	201196167	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cggccccacgtcacctggttCaagaatgaccgcagcctgga	11	15	2	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:201196167C>A	uc001gwc.2	+	12	3196	c.2424C>A	c.(2422-2424)TTC>TTA	p.F808L	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						TCACCTGGTTCAAGAATGACC	0.677													78	66	---	---	---	---	PASS	A	201196167	A	A	201196167	3	1	144	1	0	0	0	0	1	0	0	0	7590	825	29	2	11030	2	IGFN1	1	201196167	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	14918534	201196167	48054454	14	51049										
DTL	51514	broad.mit.edu	37	chr1	212273761	212273761	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aaacctctcctgccaaggccCggtctcccatcaacagaaga	7	16	3	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:212273761C>T	uc009xdc.2	+	14	1743	c.1429C>T	c.(1429-1431)CGG>TGG	p.R477W	DTL_uc010ptb.1_Missense_Mutation_p.R435W|DTL_uc001hiz.3_Missense_Mutation_p.R206W	NM_016448	NP_057532	Q9NZJ0	DTL_HUMAN	denticleless homolog	477					DNA replication|G2/M transition DNA damage checkpoint|protein monoubiquitination|protein polyubiquitination|response to UV|translesion synthesis|ubiquitin-dependent protein catabolic process	centrosome|Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|nuclear membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00796)|all cancers(67;0.0385)|Epithelial(68;0.102)		TGCCAAGGCCCGGTCTCCCAT	0.532													22	168	---	---	---	---	PASS	T	212273761	T	T	212273761	3	4	144	1	0	0	0	0	1	0	0	0	4787	643	23	1	1483	1	DTL	1	212273761	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	11077594	212273761	36976860	15	51050										
ESRRG	2104	broad.mit.edu	37	chr1	216737608	216737608	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	taaccaccaactctcggtcgGccaagtcacacagtgtagtg	9	13	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:216737608G>A	uc001hkw.1	-	5	981	c.815C>T	c.(814-816)GCC>GTC	p.A272V	ESRRG_uc001hky.1_Missense_Mutation_p.A249V|ESRRG_uc009xdp.1_Missense_Mutation_p.A249V|ESRRG_uc001hkz.1_Missense_Mutation_p.A210V|ESRRG_uc010puc.1_Missense_Mutation_p.A249V|ESRRG_uc001hla.1_Missense_Mutation_p.A249V|ESRRG_uc001hlb.1_Missense_Mutation_p.A249V|ESRRG_uc010pud.1_Missense_Mutation_p.A80V|ESRRG_uc001hlc.1_Missense_Mutation_p.A249V|ESRRG_uc001hld.1_Missense_Mutation_p.A249V|ESRRG_uc001hkx.1_Missense_Mutation_p.A284V|ESRRG_uc009xdo.1_Missense_Mutation_p.A249V|ESRRG_uc001hle.1_Missense_Mutation_p.A249V	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	272					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	CTCTCGGTCGGCCAAGTCACA	0.463													4	210	---	---	---	---	PASS	A	216737608	A	A	216737608	3	1	144	1	0	0	0	0	1	0	0	0	5262	1203	42	3	573	3	ESRRG	1	216737608	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	4463847	216737608	32513013	16	51051										
SIPA1L2	57568	broad.mit.edu	37	chr1	232575068	232575068	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gccgaggatggtggcaggcaTgcagggggccgtgtcgatgc	20	9	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:232575068T>C	uc001hvg.2	-	13	3975	c.3817A>G	c.(3817-3819)ATG>GTG	p.M1273V	SIPA1L2_uc001hvf.2_Missense_Mutation_p.M347V	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1273					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GTGGCAGGCATGCAGGGGGCC	0.657													9	107	---	---	---	---	PASS	C	232575068	C	C	232575068	3	2	144	1	0	0	0	0	1	0	0	0	14330	1464	51	5	1387	5	SIPA1L2	1	232575068	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	15837460	232575068	16675553	17	51052										
RYR2	6262	broad.mit.edu	37	chr1	237777577	237777577	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	acctgagctcctatgccactGccaggctcatgatgaacaac	8	14	1	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr1:237777577G>T	uc001hyl.1	+	37	5269	c.5149G>T	c.(5149-5151)GCC>TCC	p.A1717S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1717	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CTATGCCACTGCCAGGCTCAT	0.517													41	39	---	---	---	---	PASS	T	237777577	T	T	237777577	3	4	144	1	0	0	0	0	1	0	0	0	13769	1319	46	3	5295	3	RYR2	1	237777577	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	5202509	237777577	11473044	18	51053										
APOB	338	broad.mit.edu	37	chr2	21228401	21228401	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ggagtgttggtaggttgaggGcaaatgatgaagttctcagc	16	4	1	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:21228401G>T	uc002red.2	-	26	11467	c.11339C>A	c.(11338-11340)GCC>GAC	p.A3780D		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3780					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TAGGTTGAGGGCAAATGATGA	0.398													92	215	---	---	---	---	PASS	T	21228401	T	T	21228401	3	4	144	1	0	0	0	0	1	0	0	0	785	1203	42	3	2368	3	APOB	2	21228401	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08		21228401	221970972	19	51054										
DPYSL5	56896	broad.mit.edu	37	chr2	27164897	27164897	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gcttctgaacctgtatccccGcaagggccgcattattcccg	9	15	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:27164897G>A	uc002rhu.3	+	10	1327	c.1169G>A	c.(1168-1170)CGC>CAC	p.R390H	DPYSL5_uc002rhv.3_Missense_Mutation_p.R390H	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	390					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGTATCCCCGCAAGGGCCGC	0.532											OREG0014510	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	218	---	---	---	---	PASS	A	27164897	A	A	27164897	3	1	144	1	0	0	0	0	1	0	0	0	4750	1087	38	1	1203	1	DPYSL5	2	27164897	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	5936496	27164897	216034476	20	51055										
SPAST	6683	broad.mit.edu	37	chr2	32289075	32289075	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	atttctcctacccgctgtttGtaggcttcgcgctgctgcgt	10	13	1	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:32289075G>C	uc002roc.2	+	1	396	c.175G>C	c.(175-177)GTA>CTA	p.V59L	SPAST_uc002rod.2_Missense_Mutation_p.V59L	NM_014946	NP_055761	Q9UBP0	SPAST_HUMAN	spastin isoform 1	59	Required for interaction with SSNA1 and microtubules.|Required for interaction with RTN1.|Nuclear export signal.|Required for interaction with ATL1.|Helical; (Potential).|Required for midbody localization.				cell cycle|cell death|cell differentiation|cytokinesis, completion of separation|ER to Golgi vesicle-mediated transport|microtubule bundle formation|microtubule severing|nervous system development|protein hexamerization|protein homooligomerization	endoplasmic reticulum|endosome|integral to membrane|microtubule|microtubule organizing center|nucleus|perinuclear region of cytoplasm|spindle	alpha-tubulin binding|ATP binding|beta-tubulin binding|microtubule binding|microtubule-severing ATPase activity			breast(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					CCCGCTGTTTGTAGGCTTCGC	0.498													14	24	---	---	---	---	PASS	C	32289075	C	C	32289075	3	2	144	1	0	0	0	0	1	0	0	0	14996	1377	48	4	177	4	SPAST	2	32289075	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	5124178	32289075	210910298	21	51056										
LTBP1	4052	broad.mit.edu	37	chr2	33411958	33411958	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	catgtatgaatggtggccagTgcagttcaagggacaaatgt	13	6	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:33411958T>A	uc002ros.2	+	6	1237	c.1237T>A	c.(1237-1239)TGC>AGC	p.C413S	LTBP1_uc002rot.2_Missense_Mutation_p.C87S|LTBP1_uc002rou.2_Missense_Mutation_p.C87S|LTBP1_uc002rov.2_Missense_Mutation_p.C87S|LTBP1_uc010ymz.1_Missense_Mutation_p.C87S|LTBP1_uc010yna.1_Missense_Mutation_p.C87S	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	413	EGF-like 2.				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				TGGTGGCCAGTGCAGTTCAAG	0.438													7	73	---	---	---	---	PASS	A	33411958	A	A	33411958	3	1	144	1	0	0	0	0	1	0	0	0	9073	1696	59	5	1314	5	LTBP1	2	33411958	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	1122883	33411958	209787415	22	51057										
CDKL4	344387	broad.mit.edu	37	chr2	39406320	39406320	+	Missense_Mutation	SNP	G	T	T													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tagcactttaacttttgagcGgaagtacctgttggcgtctt					rs143704348	by1000genomes	TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:39406320G>T	uc002rrm.2	-	8	935	c.935C>A	c.(934-936)CCG>CAG	p.P312Q	CDKL4_uc010fal.1_Intron	NM_001009565	NP_001009565	Q5MAI5	CDKL4_HUMAN	cyclin-dependent kinase-like 4	312						cytoplasm	ATP binding|cyclin-dependent protein kinase activity			ovary(1)	1		all_hematologic(82;0.248)				ACTTTTGAGCGGAAGTACCTG	0.383													69	221	---	---	---	---	PASS	T	39406320	T	T	39406320	3	4	144	1	0	0	0	0	1	0	0	0	3156	1116	39	1	16	1	CDKL4	2	39406320	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	5994362	39406320	203793053	23	51058	934	2								
CDKL4	344387	broad.mit.edu	37	chr2	39406321	39406321	+	Missense_Mutation	SNP	G	T	T													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	agcactttaacttttgagcgGaagtacctgttggcgtcttc							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:39406321G>T	uc002rrm.2	-	8	934	c.934C>A	c.(934-936)CCG>ACG	p.P312T	CDKL4_uc010fal.1_Intron	NM_001009565	NP_001009565	Q5MAI5	CDKL4_HUMAN	cyclin-dependent kinase-like 4	312						cytoplasm	ATP binding|cyclin-dependent protein kinase activity			ovary(1)	1		all_hematologic(82;0.248)				CTTTTGAGCGGAAGTACCTGT	0.383													70	219	---	---	---	---	PASS	T	39406321	T	T	39406321	3	4	144	1	0	0	0	0	1	0	0	0	3156	1174	41	2	17	2	CDKL4	2	39406321	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	1	39406321	203793052	24	51059	934	2								
FSHR	2492	broad.mit.edu	37	chr2	49244674	49244674	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gaaggcctcagggttgatgtAgagcaggttgttggcctttt	15	6	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:49244674A>G	uc002rww.2	-	4	402	c.328T>C	c.(328-330)TAC>CAC	p.Y110H	FSHR_uc002rwx.2_Missense_Mutation_p.Y110H|FSHR_uc010fbn.2_Missense_Mutation_p.Y110H|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	110	Extracellular (Potential).|LRR 3.				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	GGGTTGATGTAGAGCAGGTTG	0.388									Gonadal_Dysgenesis_46_XX				8	84	---	---	---	---	PASS	G	49244674	G	G	49244674	3	3	144	1	0	0	0	0	1	0	0	0	6073	420	15	5	1787	5	FSHR	2	49244674	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	9838353	49244674	193954699	25	51060										
DYSF	8291	broad.mit.edu	37	chr2	71740979	71740979	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tcacgtcctccgccccactaCcccgggatcaaaagaaagcg	8	17	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:71740979C>T	uc002sie.2	+	6	967	c.591C>T	c.(589-591)TAC>TAT	p.Y197Y	DYSF_uc010feg.2_Silent_p.Y228Y|DYSF_uc010feh.2_Silent_p.Y197Y|DYSF_uc002sig.3_Silent_p.Y197Y|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.Y197Y|DYSF_uc010fef.2_Silent_p.Y228Y|DYSF_uc010fei.2_Silent_p.Y228Y|DYSF_uc010fek.2_Silent_p.Y229Y|DYSF_uc010fej.2_Silent_p.Y198Y|DYSF_uc010fel.2_Silent_p.Y198Y|DYSF_uc010feo.2_Silent_p.Y229Y|DYSF_uc010fem.2_Silent_p.Y198Y|DYSF_uc010fen.2_Silent_p.Y229Y|DYSF_uc002sif.2_Silent_p.Y198Y	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	197	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CGCCCCACTACCCCGGGATCA	0.582													9	67	---	---	---	---	PASS	T	71740979	T	T	71740979	2	4	144	1	0	0	0	0	0	0	0	1	4859	518	18	3		3	DYSF	2	71740979	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	22496305	71740979	171458394	26	51061										
CTNNA2	1496	broad.mit.edu	37	chr2	80136875	80136875	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aggatcgtggcggagtgcaaCgccgtgcggcaggcgctcca	17	12	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:80136875C>A	uc010ysh.1	+	6	1013	c.1008C>A	c.(1006-1008)AAC>AAA	p.N336K	CTNNA2_uc010yse.1_Missense_Mutation_p.N336K|CTNNA2_uc010ysf.1_Missense_Mutation_p.N336K|CTNNA2_uc010ysg.1_Missense_Mutation_p.N336K	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	336					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						CGGAGTGCAACGCCGTGCGGC	0.597													34	74	---	---	---	---	PASS	A	80136875	A	A	80136875	3	1	144	1	0	0	0	0	1	0	0	0	4013	535	19	1		1	CTNNA2	2	80136875	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	8395896	80136875	163062498	27	51062										
CTNNA2	1496	broad.mit.edu	37	chr2	80816542	80816542	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtggccaaatgggacgacagCggcaatgatatcattgtact	12	8	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:80816542C>A	uc010ysh.1	+	14	2126	c.2121C>A	c.(2119-2121)AGC>AGA	p.S707R	CTNNA2_uc010yse.1_Missense_Mutation_p.S707R|CTNNA2_uc010ysf.1_Missense_Mutation_p.S707R|CTNNA2_uc010ysg.1_Missense_Mutation_p.S707R|CTNNA2_uc010ysi.1_Missense_Mutation_p.S339R|CTNNA2_uc010ysj.1_Missense_Mutation_p.S36R	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	707					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GGGACGACAGCGGCAATGATA	0.478													39	95	---	---	---	---	PASS	A	80816542	A	A	80816542	3	1	144	1	0	0	0	0	1	0	0	0	4013	767	27	1	1967	1	CTNNA2	2	80816542	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	679667	80816542	162382831	28	51063										
ELMOD3	84173	broad.mit.edu	37	chr2	85617334	85617334	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccacattcctccacctcgcaCatgtctggaggacacagcgg	9	16	1	0	rs143405971		TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:85617334C>T	uc002spf.3	+	14	1554	c.889C>T	c.(889-891)CAT>TAT	p.H297Y	ELMOD3_uc002spg.3_Missense_Mutation_p.H297Y|ELMOD3_uc002sph.3_Missense_Mutation_p.H297Y|ELMOD3_uc010ysn.1_Missense_Mutation_p.H297Y|ELMOD3_uc010yso.1_RNA|ELMOD3_uc010ysp.1_RNA	NM_001135021	NP_001128493	Q96FG2	ELMD3_HUMAN	ELMO/CED-12 domain containing 3 isoform b	297	ELMO.				phagocytosis	cytoskeleton				ovary(2)	2						CCACCTCGCACATGTCTGGAG	0.557													17	90	---	---	---	---	PASS	T	85617334	T	T	85617334	3	4	144	1	0	0	0	0	1	0	0	0	5070	478	17	3	927	3	ELMOD3	2	85617334	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	4800792	85617334	157582039	29	51064										
POTEF	728378	broad.mit.edu	37	chr2	130832537	130832537	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tacagggacagcacagcctgGatggccacgtacatggctgg	14	11	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:130832537G>C	uc010fmh.2	-	17	2908	c.2508C>G	c.(2506-2508)ATC>ATG	p.I836M		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	836	Actin-like.					cell cortex	ATP binding			skin(3)|ovary(2)	5						GCACAGCCTGGATGGCCACGT	0.582													51	378	---	---	---	---	PASS	C	130832537	C	C	130832537	3	2	144	1	0	0	0	0	1	0	0	0	12265	1164	41	2	723	2	POTEF	2	130832537	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	45215203	130832537	112366836	30	51065										
POTEE	445582	broad.mit.edu	37	chr2	132021756	132021756	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tggccgagcgggaaatcgtgCgtgacatcaaagagaagctg	15	8	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:132021756C>G	uc002tsn.2	+	15	2780	c.2728C>G	c.(2728-2730)CGT>GGT	p.R910G	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.R510G|POTEE_uc002tsl.2_Missense_Mutation_p.R492G|POTEE_uc010fmy.1_Missense_Mutation_p.R374G	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	910	Actin-like.						ATP binding				0						GGAAATCGTGCGTGACATCAA	0.602													40	163	---	---	---	---	PASS	G	132021756	G	G	132021756	3	3	144	1	0	0	0	0	1	0	0	0	12264	768	27	4	2786	4	POTEE	2	132021756	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	1189219	132021756	111177617	31	51066										
LRP1B	53353	broad.mit.edu	37	chr2	141130622	141130622	+	Missense_Mutation	SNP	G	T	T													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cccatatttgcagtcttcatGgccatcacatttccattttg							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:141130622G>T	uc002tvj.1	-	69	11695	c.10723C>A	c.(10723-10725)CAT>AAT	p.H3575N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3575	Extracellular (Potential).|LDL-receptor class A 27.				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)		CAGTCTTCATGGCCATCACAT	0.363										TSP Lung(27;0.18)			76	235	---	---	---	---	PASS	T	141130622	T	T	141130622	3	4	144	1	0	0	0	0	1	0	0	0	8955	1348	47	3	3168	3	LRP1B	2	141130622	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	9108866	141130622	102068751	32	51067	935	2								
LRP1B	53353	broad.mit.edu	37	chr2	141130623	141130623	+	Silent	SNP	G	T	T													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccatatttgcagtcttcatgGccatcacatttccattttgc							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:141130623G>T	uc002tvj.1	-	69	11694	c.10722C>A	c.(10720-10722)GGC>GGA	p.G3574G		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3574	Extracellular (Potential).|LDL-receptor class A 27.				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)		AGTCTTCATGGCCATCACATT	0.363										TSP Lung(27;0.18)			74	232	---	---	---	---	PASS	T	141130623	T	T	141130623	2	4	144	1	0	0	0	0	0	0	0	1	8955	1190	42	3		3	LRP1B	2	141130623	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	1	141130623	102068750	33	51068	935	2								
LRP1B	53353	broad.mit.edu	37	chr2	141242925	141242925	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tacaaacccagcttgaggatCtaaagacaagtctctgggaa	9	9	2	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:141242925C>T	uc002tvj.1	-	59	10384	c.9412G>A	c.(9412-9414)GAT>AAT	p.D3138N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3138	Extracellular (Potential).|LDL-receptor class B 29.				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)		GCTTGAGGATCTAAAGACAAG	0.338										TSP Lung(27;0.18)			13	137	---	---	---	---	PASS	T	141242925	T	T	141242925	3	4	144	1	0	0	0	0	1	0	0	0	8955	913	32	2	4519	2	LRP1B	2	141242925	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	112302	141242925	101956448	34	51069										
GRB14	2888	broad.mit.edu	37	chr2	165383553	165383553	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tttaaagaactcatatttggCataattttttctaaagtata	4	4	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:165383553C>T	uc002ucl.2	-	4	1115	c.574G>A	c.(574-576)GCC>ACC	p.A192T	GRB14_uc010zcv.1_Missense_Mutation_p.A105T|GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	192	Ras-associating.				blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						TCATATTTGGCATAATTTTTT	0.333													55	126	---	---	---	---	PASS	T	165383553	T	T	165383553	3	4	144	1	0	0	0	0	1	0	0	0	6757	710	25	3	1092	3	GRB14	2	165383553	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	24140628	165383553	77815820	35	51070										
TTC21B	79809	broad.mit.edu	37	chr2	166732682	166732682	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tttaagtgtttacctggtgaCatatgtcaattgaatccaca	7	7	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:166732682C>G	uc002udk.2	-	28	3999	c.3866G>C	c.(3865-3867)TGT>TCT	p.C1289S	TTC21B_uc002udj.1_RNA	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	1289	TPR 19.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TACCTGGTGACATATGTCAAT	0.289													25	72	---	---	---	---	PASS	G	166732682	G	G	166732682	3	3	144	1	0	0	0	0	1	0	0	0	16685	478	17	4	92	4	TTC21B	2	166732682	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	1349129	166732682	76466691	36	51071										
SCN1A	6323	broad.mit.edu	37	chr2	166848275	166848275	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gttgtggcagattgagaggcGgttcaagcgcagctgcaaac	15	8	1	2	rs149225252		TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:166848275G>T	uc010zcz.1	-	26	5495	c.5477C>A	c.(5476-5478)CCG>CAG	p.P1826Q		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1837						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	ATTGAGAGGCGGTTCAAGCGC	0.448													69	159	---	---	---	---	PASS	T	166848275	T	T	166848275	3	4	144	1	0	0	0	0	1	0	0	0	13914	1116	39	1	523	1	SCN1A	2	166848275	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	115593	166848275	76351098	37	51072										
LRP2	4036	broad.mit.edu	37	chr2	169985205	169985205	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtcttctttaacaagatttgCggtgtctttaaaagtgtctt	8	6	4	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:169985205C>T	uc002ues.2	-	79	14149	c.13936G>A	c.(13936-13938)GCA>ACA	p.A4646T		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4646	Cytoplasmic (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ACAAGATTTGCGGTGTCTTTA	0.398													83	261	---	---	---	---	PASS	T	169985205	T	T	169985205	3	4	144	1	0	0	0	0	1	0	0	0	8956	768	27	1	35	1	LRP2	2	169985205	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	3136930	169985205	73214168	38	51073										
TTN	7273	broad.mit.edu	37	chr2	179546138	179546138	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtttgagtttcttaggaatgGgcactggtactttttcttca	10	6	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:179546138G>T	uc010zfg.1	-	134	29704	c.29480C>A	c.(29479-29481)CCC>CAC	p.P9827H	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P6488H|TTN_uc010fre.1_Intron|TTN_uc002una.1_5'Flank|TTN_uc010frf.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10754							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)			CTTAGGAATGGGCACTGGTAC	0.353													4	47	---	---	---	---	PASS	T	179546138	T	T	179546138	3	4	144	1	0	0	0	0	1	0	0	0	16732	1232	43	3	71221	3	TTN	2	179546138	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	9560933	179546138	63653235	39	51074										
TTN	7273	broad.mit.edu	37	chr2	179572473	179572473	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tggacatggcagctgagctgCacgtattctccttcactcac	9	13	3	1	rs2742338		TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:179572473C>T	uc010zfg.1	-	97	25313	c.25089G>A	c.(25087-25089)GTG>GTA	p.V8363V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.V5024V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9290							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)			AGCTGAGCTGCACGTATTCTC	0.463													21	124	---	---	---	---	PASS	T	179572473	T	T	179572473	2	4	144	1	0	0	0	0	0	0	0	1	16732	697	25	3		3	TTN	2	179572473	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	26335	179572473	63626900	40	51075										
TTN	7273	broad.mit.edu	37	chr2	179596699	179596699	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cttggtaaaataaggtgactCtacagtaaaaaaggaatgat	9	4	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:179596699C>A	uc010zfg.1	-	55	13396	c.13172_splice	c.e55-1	p.E4391_splice	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Splice_Site_p.E1052_splice	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A								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)			TAAGGTGACTCTACAGTAAAA	0.443													26	162	---	---	---	---	PASS	A	179596699	A	A	179596699	5	1	144	1	0	0	0	0	0	0	1	0	16732	927	32	2	87846	2	TTN	2	179596699	Splice_Site	SNP	C	TCGA-66-2755-01A-01D-1522-08	24226	179596699	63602674	41	51076										
TTN	7273	broad.mit.edu	37	chr2	179610753	179610753	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cgacagatagcctctcctacAcaattcacagctctgcacct	5	16	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:179610753A>G	uc002unb.2	-	46	16598	c.16374T>C	c.(16372-16374)TGT>TGC	p.C5458C	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CCTCTCCTACACAATTCACAG	0.408													43	323	---	---	---	---	PASS	G	179610753	G	G	179610753	2	3	144	1	0	0	0	0	0	0	0	1	16732	157	6	5		5	TTN	2	179610753	Silent	SNP	A	TCGA-66-2755-01A-01D-1522-08	14054	179610753	63588620	42	51077										
DNAH7	56171	broad.mit.edu	37	chr2	196673406	196673406	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtgagagggttaaaacatacCaaactatcatatactttctt	6	7	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:196673406C>A	uc002utj.3	-	53	10184	c.10083G>T	c.(10081-10083)TTG>TTT	p.L3361F		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3361					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TAAAACATACCAAACTATCAT	0.318													21	117	---	---	---	---	PASS	A	196673406	A	A	196673406	3	1	144	1	0	0	0	0	1	0	0	0	4606	608	21	3	2043	3	DNAH7	2	196673406	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	17062653	196673406	46525967	43	51078										
COQ10B	80219	broad.mit.edu	37	chr2	198338507	198338507	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tttgaatttcgatcacttctAcattcccagcttgccacact	4	13	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:198338507A>G	uc002uuh.1	+	5	630	c.576A>G	c.(574-576)CTA>CTG	p.L192L	COQ10B_uc010fsl.1_Silent_p.L164L	NM_025147	NP_079423	Q9H8M1	CQ10B_HUMAN	coenzyme Q10 homolog B precursor	192						mitochondrial inner membrane					0			Epithelial(96;0.231)|OV - Ovarian serous cystadenocarcinoma(117;0.246)			GATCACTTCTACATTCCCAGC	0.274													18	77	---	---	---	---	PASS	G	198338507	G	G	198338507	2	3	144	1	0	0	0	0	0	0	0	1	3744	378	14	5		5	COQ10B	2	198338507	Silent	SNP	A	TCGA-66-2755-01A-01D-1522-08	1665101	198338507	44860866	44	51079										
DYTN	391475	broad.mit.edu	37	chr2	207572048	207572048	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gttgtacattgtcgtgagaaGgctcagagtgagttccggag	15	6	1	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:207572048G>T	uc002vbr.1	-	3	391	c.274C>A	c.(274-276)CTT>ATT	p.L92I		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	92						plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		GTCGTGAGAAGGCTCAGAGTG	0.522													3	26	---	---	---	---	PASS	T	207572048	T	T	207572048	3	4	144	1	0	0	0	0	1	0	0	0	4861	1000	35	3	1502	3	DYTN	2	207572048	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	9233541	207572048	35627325	45	51080										
SGPP2	130367	broad.mit.edu	37	chr2	223386573	223386573	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttgtaaaactggaaaagagaCtgatcgctgaatatggaatg	11	4	0	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr2:223386573C>T	uc010zlo.1	+	3	466	c.466C>T	c.(466-468)CTG>TTG	p.L156L	SGPP2_uc010zlp.1_Silent_p.L28L	NM_152386	NP_689599	Q8IWX5	SGPP2_HUMAN	sphingosine-1-phosphate phosphotase 2	156					sphingosine metabolic process	endoplasmic reticulum membrane|integral to membrane	dihydrosphingosine-1-phosphate phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)|skin(1)	2		Renal(207;0.0376)		Epithelial(121;2.08e-09)|all cancers(144;9.25e-07)|LUSC - Lung squamous cell carcinoma(224;0.011)|Lung(261;0.0143)		GGAAAAGAGACTGATCGCTGA	0.512													20	104	---	---	---	---	PASS	T	223386573	T	T	223386573	2	4	144	1	0	0	0	0	0	0	0	1	14220	564	20	3		3	SGPP2	2	223386573	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	15814525	223386573	19812800	46	51081										
ATP2B2	491	broad.mit.edu	37	chr3	10452492	10452492	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tccaggtctggagcggtgccCggcaaacctgtggacagaga	15	11	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:10452492C>T	uc003bvt.2	-	3	646	c.207G>A	c.(205-207)CCG>CCA	p.P69P	ATP2B2_uc003bvv.2_Silent_p.P69P|ATP2B2_uc003bvw.2_Silent_p.P69P|ATP2B2_uc010hdp.2_Silent_p.P69P|ATP2B2_uc010hdo.2_5'UTR	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	69	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						GAGCGGTGCCCGGCAAACCTG	0.527													41	310	---	---	---	---	PASS	T	10452492	T	T	10452492	2	4	144	1	0	0	0	0	0	0	0	1	1140	639	23	1		1	ATP2B2	3	10452492	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08		10452492	187569938	47	51082										
PLCL2	23228	broad.mit.edu	37	chr3	17052614	17052614	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gaagatgaaggagcagaaatGtctcagaggatgggaaaaga	15	3	1	5			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:17052614G>T	uc011awc.1	+	5	1857	c.1752G>T	c.(1750-1752)ATG>ATT	p.M584I	PLCL2_uc011awd.1_Missense_Mutation_p.M466I	NM_001144382	NP_001137854	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2 isoform 1	592					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(2)|ovary(1)|lung(1)	4						GAGCAGAAATGTCTCAGAGGA	0.428													51	71	---	---	---	---	PASS	T	17052614	T	T	17052614	3	4	144	1	0	0	0	0	1	0	0	0	12040	1377	48	3	1776	3	PLCL2	3	17052614	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	6600122	17052614	180969816	48	51083										
COL7A1	1294	broad.mit.edu	37	chr3	48629339	48629339	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccccgcactgaccagtctcaCgccgccattccaaccggtag	8	19	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:48629339C>A	uc003ctz.2	-	10	1350	c.1349G>T	c.(1348-1350)CGT>CTT	p.R450L		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	450	Nonhelical region (NC1).|Fibronectin type-III 3.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		ACCAGTCTCACGCCGCCATTC	0.637													37	61	---	---	---	---	PASS	A	48629339	A	A	48629339	3	1	144	1	0	0	0	0	1	0	0	0	3704	536	19	1	7921	1	COL7A1	3	48629339	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	31576725	48629339	149393091	49	51084										
OR5H1	26341	broad.mit.edu	37	chr3	97852251	97852251	+	Missense_Mutation	SNP	C	A	A													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgataaaggtgtaaggaaagCcttttccacctgtggagccc							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:97852251C>A	uc011bgt.1	+	1	710	c.710C>A	c.(709-711)GCC>GAC	p.A237D		NM_001005338	NP_001005338	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H,	237	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						GTAAGGAAAGCCTTTTCCACC	0.403													30	193	---	---	---	---	PASS	A	97852251	A	A	97852251	3	1	144	1	0	0	0	0	1	0	0	0	11159	739	26	3	712	3	OR5H1	3	97852251	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	49222912	97852251	100170179	50	51085	936	2								
OR5H1	26341	broad.mit.edu	37	chr3	97852252	97852252	+	Silent	SNP	C	A	A													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gataaaggtgtaaggaaagcCttttccacctgtggagccca							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:97852252C>A	uc011bgt.1	+	1	711	c.711C>A	c.(709-711)GCC>GCA	p.A237A		NM_001005338	NP_001005338	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H,	237	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						TAAGGAAAGCCTTTTCCACCT	0.403													31	196	---	---	---	---	PASS	A	97852252	A	A	97852252	2	1	144	1	0	0	0	0	0	0	0	1	11159	668	24	3		3	OR5H1	3	97852252	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	1	97852252	100170178	51	51086	936	2								
BBX	56987	broad.mit.edu	37	chr3	107492320	107492320	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	acccctatggaagatgcactAccacccagcctatcaggaca	7	15	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:107492320A>G	uc010hpr.2	+	11	2079	c.1752A>G	c.(1750-1752)CTA>CTG	p.L584L	BBX_uc003dwk.3_Silent_p.L584L|BBX_uc003dwl.3_Intron|BBX_uc010hps.1_Silent_p.L605L|BBX_uc003dwm.3_Silent_p.L584L|BBX_uc003dwo.3_5'Flank	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	584					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			AAGATGCACTACCACCCAGCC	0.468													11	119	---	---	---	---	PASS	G	107492320	G	G	107492320	2	3	144	1	0	0	0	0	0	0	0	1	1343	378	14	5		5	BBX	3	107492320	Silent	SNP	A	TCGA-66-2755-01A-01D-1522-08	9640068	107492320	90530110	52	51087										
PRR23B	389151	broad.mit.edu	37	chr3	138739004	138739004	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	agccggttggggagtccatcCggagctccgggaactcgggg	18	11	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:138739004C>T	uc003esy.1	-	1	765	c.500G>A	c.(499-501)CGG>CAG	p.R167Q		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	167										breast(1)	1						GGAGTCCATCCGGAGCTCCGG	0.647													14	112	---	---	---	---	PASS	T	138739004	T	T	138739004	3	4	144	1	0	0	0	0	1	0	0	0	12595	652	23	1	301	1	PRR23B	3	138739004	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	31246684	138739004	59283426	53	51088										
PLS1	5357	broad.mit.edu	37	chr3	142388315	142388315	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttcctctgcctggctacaagGtgcgcgagattgtggagaaa	13	9	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:142388315G>C	uc010huv.2	+	3	313	c.154G>C	c.(154-156)GTG>CTG	p.V52L	PLS1_uc003euz.2_Missense_Mutation_p.V52L|PLS1_uc003eva.2_Missense_Mutation_p.V52L	NM_001145319	NP_001138791	Q14651	PLSI_HUMAN	plastin 1	52	EF-hand 2.					cytoplasm	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(1)	1						TGGCTACAAGGTGCGCGAGAT	0.388													38	405	---	---	---	---	PASS	C	142388315	C	C	142388315	3	2	144	1	0	0	0	0	1	0	0	0	12107	1261	44	4	160	4	PLS1	3	142388315	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	3649311	142388315	55634115	54	51089										
SLITRK3	22865	broad.mit.edu	37	chr3	164905833	164905833	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gaagggtttctttgagcctgGcatcctgctgtaagtctggg	14	8	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:164905833G>T	uc003fej.3	-	2	3230	c.2786C>A	c.(2785-2787)GCC>GAC	p.A929D	SLITRK3_uc003fek.2_Missense_Mutation_p.A929D	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	929	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						TTTGAGCCTGGCATCCTGCTG	0.493										HNSCC(40;0.11)			157	321	---	---	---	---	PASS	T	164905833	T	T	164905833	3	4	144	1	0	0	0	0	1	0	0	0	14744	1203	42	3	151	3	SLITRK3	3	164905833	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	22517518	164905833	33116597	55	51090										
PIK3CA	5290	broad.mit.edu	37	chr3	178916936	178916936	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aattgaaccagtaggcaaccGtgaagaaaagatcctcaatc	8	9	1	4			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:178916936G>T	uc003fjk.2	+	2	480	c.323G>T	c.(322-324)CGT>CTT	p.R108L		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	108	PI3K-ABD.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.R108H(5)|p.G106_R108del(2)|p.R108P(1)|p.R108del(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GTAGGCAACCGTGAAGAAAAG	0.338		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			40	246	---	---	---	---	PASS	T	178916936	T	T	178916936	3	4	144	1	0	0	0	0	1	0	0	0	11913	1145	40	1	325	1	PIK3CA	3	178916936	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	14011103	178916936	19105494	56	51091										
USP13	8975	broad.mit.edu	37	chr3	179478921	179478921	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	atcagacatcgatgagtcatCagtgatgcagctggccgaga	12	9	3	4			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:179478921C>T	uc003fkh.2	+	17	2051	c.1970C>T	c.(1969-1971)TCA>TTA	p.S657L		NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	657	UBA 1.				ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			GATGAGTCATCAGTGATGCAG	0.507													23	272	---	---	---	---	PASS	T	179478921	T	T	179478921	3	4	144	1	0	0	0	0	1	0	0	0	17041	838	29	2	2036	2	USP13	3	179478921	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	561985	179478921	18543509	57	51092										
IL1RAP	3556	broad.mit.edu	37	chr3	190366465	190366465	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ctagcagtgatgagcagggcCtctcgtattcatctttgaaa	10	9	3	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:190366465C>T	uc003fsm.1	+	12	1890	c.1684C>T	c.(1684-1686)CTC>TTC	p.L562F	IL1RAP_uc010hzg.1_Missense_Mutation_p.L562F|IL1RAP_uc003fsn.1_RNA|IL1RAP_uc003fso.1_Missense_Mutation_p.L562F|IL1RAP_uc003fsp.1_RNA|IL1RAP_uc003fsq.2_Intron	NM_002182	NP_002173	Q9NPH3	IL1AP_HUMAN	interleukin 1 receptor accessory protein isoform	562	Cytoplasmic (Potential).				inflammatory response|innate immune response|protein complex assembly	extracellular region|integral to plasma membrane				ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0733)|Breast(254;0.21)		Lung(62;1.95e-06)|LUSC - Lung squamous cell carcinoma(58;2.05e-06)	GBM - Glioblastoma multiforme(93;0.00851)		TGAGCAGGGCCTCTCGTATTC	0.483													13	95	---	---	---	---	PASS	T	190366465	T	T	190366465	3	4	144	1	0	0	0	0	1	0	0	0	7660	681	24	3	1742	3	IL1RAP	3	190366465	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	10887544	190366465	7655965	58	51093										
MUC20	200958	broad.mit.edu	37	chr3	195452920	195452920	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gcctctgccgagaccctgtcCacagccggcaccacagagtc	10	18	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr3:195452920C>A	uc010hzo.2	+	3	1059	c.933C>A	c.(931-933)TCC>TCA	p.S311S	MUC20_uc010hzp.2_Silent_p.S276S|MUC20_uc011bte.1_RNA	NM_152673	NP_689886	Q8N307	MUC20_HUMAN	mucin 20 isoform L	482	Involved in oligomerization.				protein homooligomerization	apical plasma membrane|basal plasma membrane|extracellular region|microvillus membrane					0	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.191)	Epithelial(36;1e-21)|all cancers(36;9.02e-20)|OV - Ovarian serous cystadenocarcinoma(49;1.6e-18)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;1.66e-05)		AGACCCTGTCCACAGCCGGCA	0.617													4	33	---	---	---	---	PASS	A	195452920	A	A	195452920	2	1	144	1	0	0	0	0	0	0	0	1	9976	581	21	3		3	MUC20	3	195452920	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	5086455	195452920	2569510	59	51094										
PDE6B	5158	broad.mit.edu	37	chr4	658691	658691	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gccatgatgatgacagcctgCgacctgtctgccatcaccaa	9	14	2	3	rs149031864	by1000genomes	TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:658691C>T	uc003gap.2	+	18	2204	c.2151C>T	c.(2149-2151)TGC>TGT	p.C717C	PDE6B_uc003gao.3_Silent_p.C717C|PDE6B_uc011buy.1_Silent_p.C438C|PDE6B_uc011buz.1_Silent_p.C149C	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	717					cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						TGACAGCCTGCGACCTGTCTG	0.547													25	157	---	---	---	---	PASS	T	658691	T	T	658691	2	4	144	1	0	0	0	0	0	0	0	1	11646	776	27	1		1	PDE6B	4	658691	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08		658691	190495585	60	51095										
ARAP2	116984	broad.mit.edu	37	chr4	36214041	36214041	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gatttgatgataaaagagttTgttgcagtagctgcttcccc	10	7	0	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:36214041T>G	uc003gsq.1	-	5	1448	c.1110A>C	c.(1108-1110)ACA>ACC	p.T370T	ARAP2_uc003gsr.1_Silent_p.T370T	NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	370					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TAAAAGAGTTTGTTGCAGTAG	0.313													16	66	---	---	---	---	PASS	G	36214041	G	G	36214041	2	3	144	1	0	0	0	0	0	0	0	1	839	1799	63	5		5	ARAP2	4	36214041	Silent	SNP	T	TCGA-66-2755-01A-01D-1522-08	35555350	36214041	154940235	61	51096										
N4BP2	55728	broad.mit.edu	37	chr4	40099026	40099026	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	actgcaaaccctaaggaagtTgtcgtatccagtgttgctag	10	9	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:40099026T>G	uc003guy.3	+	3	404	c.66T>G	c.(64-66)GTT>GTG	p.V22V	N4BP2_uc010ifq.2_5'UTR	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	22						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						CTAAGGAAGTTGTCGTATCCA	0.438													68	181	---	---	---	---	PASS	G	40099026	G	G	40099026	2	3	144	1	0	0	0	0	0	0	0	1	10110	1799	63	5		5	N4BP2	4	40099026	Silent	SNP	T	TCGA-66-2755-01A-01D-1522-08	3884985	40099026	151055250	62	51097										
CHRNA9	55584	broad.mit.edu	37	chr4	40350899	40350899	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tttccttatctgaccttcagGgctgatgatgaatcttcaga	8	9	4	5			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:40350899G>T	uc003gva.1	+	4	382	c.366G>T	c.(364-366)AAG>AAT	p.K122N		NM_017581	NP_060051	Q9UGM1	ACHA9_HUMAN	cholinergic receptor, nicotinic, alpha 9	122	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|synaptic transmission	cell junction|postsynaptic membrane	calcium channel activity|receptor activity			breast(3)|skin(3)|central_nervous_system(1)	7					Nicotine(DB00184)	TGACCTTCAGGGCTGATGATG	0.522													45	178	---	---	---	---	PASS	T	40350899	T	T	40350899	3	4	144	1	0	0	0	0	1	0	0	0	3389	1246	43	3	380	3	CHRNA9	4	40350899	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	251873	40350899	150803377	63	51098										
C4orf14	84273	broad.mit.edu	37	chr4	57843150	57843150	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cggcgctcaccagctccaggTactgctcgcggctcacctgc	11	18	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:57843150T>A	uc003hck.2	-	1	677	c.602A>T	c.(601-603)TAC>TTC	p.Y201F	POLR2B_uc003hcl.1_5'Flank|POLR2B_uc011cae.1_5'Flank|POLR2B_uc011caf.1_5'Flank	NM_032313	NP_115689	Q8NC60	CD014_HUMAN	hypothetical protein LOC84273	201							GTP binding			ovary(1)|breast(1)	2	Glioma(25;0.08)|all_neural(26;0.181)					CAGCTCCAGGTACTGCTCGCG	0.731													8	23	---	---	---	---	PASS	A	57843150	A	A	57843150	3	1	144	1	0	0	0	0	1	0	0	0	2251	1638	57	5	1522	5	C4orf14	4	57843150	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	17492251	57843150	133311126	64	51099										
TMPRSS11F	389208	broad.mit.edu	37	chr4	68938144	68938144	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttcttgatttgttcagcactAtcagtagatgggtatcgaaa	9	6	3	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:68938144A>G	uc003hdt.1	-	5	460	c.411T>C	c.(409-411)GAT>GAC	p.D137D	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	137	SEA.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						GTTCAGCACTATCAGTAGATG	0.318													38	131	---	---	---	---	PASS	G	68938144	G	G	68938144	2	3	144	1	0	0	0	0	0	0	0	1	16240	446	16	5		5	TMPRSS11F	4	68938144	Silent	SNP	A	TCGA-66-2755-01A-01D-1522-08	11094994	68938144	122216132	65	51100										
RUFY3	22902	broad.mit.edu	37	chr4	71650542	71650542	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	caagacagaactgcagaaggGcaagcactaagtgaagcaag	12	8	0	4			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:71650542G>T	uc003hfq.2	+	10	1612	c.1017G>T	c.(1015-1017)GGG>GGT	p.G339G	RUFY3_uc003hfp.3_Silent_p.G399G|RUFY3_uc011cax.1_Silent_p.G357G|RUFY3_uc003hfr.2_Silent_p.G339G|RUFY3_uc011cay.1_Silent_p.G275G	NM_014961	NP_055776	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 2	339	Potential.				negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			CTGCAGAAGGGCAAGCACTAA	0.323													6	22	---	---	---	---	PASS	T	71650542	T	T	71650542	2	4	144	1	0	0	0	0	0	0	0	1	13740	1190	42	3		3	RUFY3	4	71650542	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	2712398	71650542	119503734	66	51101										
MMRN1	22915	broad.mit.edu	37	chr4	90830530	90830530	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gaccttgtggctggaccggtGgatcctgtcctcagaggtat	14	10	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:90830530G>T	uc003hst.2	+	2	798	c.727G>T	c.(727-729)GGA>TGA	p.G243*	MMRN1_uc010iku.2_Nonsense_Mutation_p.G209*|MMRN1_uc011cds.1_5'UTR	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	243	EMI.				cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		CTGGACCGGTGGATCCTGTCC	0.423													19	81	---	---	---	---	PASS	T	90830530	T	T	90830530	4	4	144	1	0	0	0	0	0	1	0	0	9670	1349	47	3	733	3	MMRN1	4	90830530	Nonsense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	19179988	90830530	100323746	67	51102										
NHEDC1	150159	broad.mit.edu	37	chr4	103866467	103866467	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgaaacaaacgaccttcaaaTgcctcaaagcctgaaacaca	5	12	2	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:103866467T>A	uc003hww.2	-	6	658	c.536A>T	c.(535-537)CAT>CTT	p.H179L	NHEDC1_uc003hwu.2_Missense_Mutation_p.H179L|NHEDC1_uc010ilm.2_Intron|NHEDC1_uc003hwv.2_Intron|NHEDC1_uc011cev.1_Intron	NM_139173	NP_631912	Q4ZJI4	NHDC1_HUMAN	Na+/H+ exchanger domain containing 1 isoform 1	179						integral to membrane	solute:hydrogen antiporter activity			ovary(1)|skin(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;1.5e-08)		GACCTTCAAATGCCTCAAAGC	0.368													53	170	---	---	---	---	PASS	A	103866467	A	A	103866467	3	1	144	1	0	0	0	0	1	0	0	0	10400	1464	51	5	1139	5	NHEDC1	4	103866467	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	13035937	103866467	87287809	68	51103										
SGMS2	166929	broad.mit.edu	37	chr4	108816990	108816990	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tttcaacctcgtcttgacaaCcgtcatgatcacagttgtac	6	12	4	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:108816990C>G	uc003hyl.3	+	3	836	c.281C>G	c.(280-282)ACC>AGC	p.T94S	uc003hym.1_Intron|SGMS2_uc003hyn.2_Missense_Mutation_p.T94S|SGMS2_uc003hyo.2_Missense_Mutation_p.T94S	NM_001136258	NP_001129730	Q8NHU3	SMS2_HUMAN	sphingomyelin synthase 2	94	Helical; (Potential).				sphingomyelin biosynthetic process	integral to Golgi membrane|integral to plasma membrane	ceramide cholinephosphotransferase activity|kinase activity|sphingomyelin synthase activity			lung(1)	1				OV - Ovarian serous cystadenocarcinoma(123;2.95e-05)	Choline(DB00122)	GTCTTGACAACCGTCATGATC	0.453													38	184	---	---	---	---	PASS	G	108816990	G	G	108816990	3	3	144	1	0	0	0	0	1	0	0	0	14215	507	18	4	283	4	SGMS2	4	108816990	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	4950523	108816990	82337286	69	51104										
SEC24D	9871	broad.mit.edu	37	chr4	119652646	119652646	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cagcaggtaacattgtactcTtgacatctaacgtgtgctgg	10	9	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:119652646T>C	uc003ici.3	-	21	2965	c.2693A>G	c.(2692-2694)AAG>AGG	p.K898R	SEC24D_uc003ich.3_RNA|SEC24D_uc003icj.3_Missense_Mutation_p.K899R|SEC24D_uc003ick.2_Missense_Mutation_p.K60R	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D	898					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0						CATTGTACTCTTGACATCTAA	0.338													34	145	---	---	---	---	PASS	C	119652646	C	C	119652646	3	2	144	1	0	0	0	0	1	0	0	0	13997	1609	56	5	417	5	SEC24D	4	119652646	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	10835656	119652646	71501630	70	51105										
WDR17	116966	broad.mit.edu	37	chr4	177098242	177098242	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cgtcgggaggtgtcagtaccTttaaaaattgaatatctttc	9	7	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:177098242T>A	uc003iuj.2	+	29	3756	c.3600T>A	c.(3598-3600)CCT>CCA	p.P1200P	WDR17_uc003iuk.2_Silent_p.P1176P|WDR17_uc003ium.3_Silent_p.P1161P|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Silent_p.P411P	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	1200										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TGTCAGTACCTTTAAAAATTG	0.363													26	72	---	---	---	---	PASS	A	177098242	A	A	177098242	2	1	144	1	0	0	0	0	0	0	0	1	17274	1596	56	5		5	WDR17	4	177098242	Silent	SNP	T	TCGA-66-2755-01A-01D-1522-08	57445596	177098242	14056034	71	51106										
ASB5	140458	broad.mit.edu	37	chr4	177138061	177138061	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tatttttggcattgatatctGctccaaattctagcagtaag	7	7	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:177138061G>T	uc003iuq.1	-	6	786	c.770C>A	c.(769-771)GCA>GAA	p.A257E	ASB5_uc003iup.1_Missense_Mutation_p.A204E	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	257	ANK 6.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		ATTGATATCTGCTCCAAATTC	0.408													73	240	---	---	---	---	PASS	T	177138061	T	T	177138061	3	4	144	1	0	0	0	0	1	0	0	0	1026	1319	46	3	227	3	ASB5	4	177138061	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	39819	177138061	14016215	72	51107										
TLR3	7098	broad.mit.edu	37	chr4	187004704	187004704	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgaaccttcagaagaatctcAtaacatccgttgagaagaag	8	8	2	5			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr4:187004704A>G	uc003iyq.2	+	4	1965	c.1864A>G	c.(1864-1866)ATA>GTA	p.I622V	TLR3_uc011ckz.1_Missense_Mutation_p.I345V|TLR3_uc003iyr.2_Missense_Mutation_p.I345V	NM_003265	NP_003256	O15455	TLR3_HUMAN	toll-like receptor 3 precursor	622	LRR 22.|Lumenal (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|defense response to bacterium|defense response to virus|detection of virus|hyperosmotic response|I-kappaB phosphorylation|inflammatory response|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of osteoclast differentiation|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|toll-like receptor 3 signaling pathway	endoplasmic reticulum membrane|endosome membrane|integral to plasma membrane	double-stranded RNA binding|transmembrane receptor activity			ovary(2)|prostate(1)|lung(1)|breast(1)	5		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		GAAGAATCTCATAACATCCGT	0.383													54	174	---	---	---	---	PASS	G	187004704	G	G	187004704	3	3	144	1	0	0	0	0	1	0	0	0	15949	217	8	5	1874	5	TLR3	4	187004704	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	9866643	187004704	4149572	73	51108										
AHRR	57491	broad.mit.edu	37	chr5	427954	427954	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	caaggaaaactaaaattcctGtttggacagaagaagaaggc	10	6	0	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:427954G>T	uc003jav.2	+	9	851	c.807G>T	c.(805-807)CTG>CTT	p.L269L	AHRR_uc003jaw.2_Silent_p.L247L|AHRR_uc010isy.2_Silent_p.L97L|AHRR_uc010isz.2_Silent_p.L247L|AHRR_uc003jax.2_Silent_p.L10L|AHRR_uc003jay.2_Silent_p.L107L	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	251					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			TAAAATTCCTGTTTGGACAGA	0.562													30	73	---	---	---	---	PASS	T	427954	T	T	427954	2	4	144	1	0	0	0	0	0	0	0	1	417	1364	48	3		3	AHRR	5	427954	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08		427954	180487306	74	51109										
CLPTM1L	81037	broad.mit.edu	37	chr5	1339043	1339043	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	acaaagttgtccgccatcacGttcagcgccagccgcggtcg	11	15	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:1339043G>A	uc003jch.2	-	4	577	c.531C>T	c.(529-531)AAC>AAT	p.N177N	CLPTM1L_uc003jcg.2_Silent_p.N44N	NM_030782	NP_110409	Q96KA5	CLP1L_HUMAN	CLPTM1-like	177	Extracellular (Potential).				apoptosis	integral to membrane				breast(1)|central_nervous_system(1)	2	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		CCGCCATCACGTTCAGCGCCA	0.612													23	37	---	---	---	---	PASS	A	1339043	A	A	1339043	2	1	144	1	0	0	0	0	0	0	0	1	3555	1136	40	1		1	CLPTM1L	5	1339043	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	911089	1339043	179576217	75	51110										
ADCY2	108	broad.mit.edu	37	chr5	7804743	7804744	+	Frame_Shift_Ins	INS	-	T	T													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	agttgaaaagattaagaccaINSttggcagcacatacatggca							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:7804743_7804744insT	uc003jdz.1	+	22	2888_2889	c.2821_2822insT	c.(2821-2823)ATTfs	p.I941fs	ADCY2_uc011cmo.1_Frame_Shift_Ins_p.I761fs|ADCY2_uc010itm.1_Frame_Shift_Ins_p.I137fs	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	941	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						GATTAAGACCATTGGCAGCACA	0.525													85	46	---	---	---	---		T	7804744	T	T	7804743	7	5	144	1	0	1	1	0	0	0	0	0	294	217	8	0	2907	0	ADCY2	5	7804743	Frame_Shift_Ins	INS	-	TCGA-66-2755-01A-01D-1522-08	6465700	7804743	173110517	76	51111										
CDH9	1007	broad.mit.edu	37	chr5	26890631	26890631	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gaaccattttctgagtgaatAccaaaaatacggtccatatc	6	9	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:26890631A>G	uc003jgs.1	-	8	1465	c.1296T>C	c.(1294-1296)GGT>GGC	p.G432G	CDH9_uc011cnv.1_Silent_p.G25G	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	432	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						CTGAGTGAATACCAAAAATAC	0.398													19	256	---	---	---	---	PASS	G	26890631	G	G	26890631	2	3	144	1	0	0	0	0	0	0	0	1	3117	378	14	5		5	CDH9	5	26890631	Silent	SNP	A	TCGA-66-2755-01A-01D-1522-08	19085888	26890631	154024629	77	51112										
SPEF2	79925	broad.mit.edu	37	chr5	35727898	35727898	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aagccaggatcagaagaatgGgtctatgtgaatgaaccagt	12	6	2	4			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:35727898G>T	uc003jjo.2	+	21	3147	c.3036G>T	c.(3034-3036)TGG>TGT	p.W1012C	SPEF2_uc003jjp.1_Missense_Mutation_p.W498C	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1012					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CAGAAGAATGGGTCTATGTGA	0.428													33	226	---	---	---	---	PASS	T	35727898	T	T	35727898	3	4	144	1	0	0	0	0	1	0	0	0	15034	1241	43	3	3139	3	SPEF2	5	35727898	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	8837267	35727898	145187362	78	51113										
ESM1	11082	broad.mit.edu	37	chr5	54281101	54281101	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccccattagaaggctgacacCtcagccccgggccacacttc	8	18	1	2	rs139399038		TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:54281101C>G	uc003jpk.2	-	1	314	c.245G>C	c.(244-246)AGG>ACG	p.R82T	ESM1_uc010ivt.2_Missense_Mutation_p.R82T	NM_007036	NP_008967	Q9NQ30	ESM1_HUMAN	endothelial cell-specific molecule 1 isoform a	82	IGFBP N-terminal.				angiogenesis|regulation of cell growth	extracellular region	growth factor activity|insulin-like growth factor binding				0		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.116)	Lung(15;0.23)			AGGCTGACACCTCAGCCCCGG	0.587													262	648	---	---	---	---	PASS	G	54281101	G	G	54281101	3	3	144	1	0	0	0	0	1	0	0	0	5252	681	24	4	321	4	ESM1	5	54281101	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	18553203	54281101	126634159	79	51114										
GZMK	3003	broad.mit.edu	37	chr5	54320153	54320153	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	taaatctaaatctttaaaatGactaagttttcttccttttc	2	7	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:54320153G>C	uc003jpl.1	+	1	47	c.3G>C	c.(1-3)ATG>ATC	p.M1I		NM_002104	NP_002095	P49863	GRAK_HUMAN	granzyme K precursor	1					proteolysis	extracellular region	serine-type endopeptidase activity				0		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				TCTTTAAAATGACTAAGTTTT	0.318													150	329	---	---	---	---	PASS	C	54320153	C	C	54320153	3	2	144	1	0	0	0	0	1	0	0	0	6918	1290	45	2	5	2	GZMK	5	54320153	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	39052	54320153	126595107	80	51115										
IQGAP2	10788	broad.mit.edu	37	chr5	75858347	75858347	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aaaatggtatcagagaaaaaGatctatgatgtggaacaaac	9	4	2	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:75858347G>T	uc003kek.2	+	3	495	c.273G>T	c.(271-273)AAG>AAT	p.K91N		NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	91	CH.				small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		CAGAGAAAAAGATCTATGATG	0.403													36	102	---	---	---	---	PASS	T	75858347	T	T	75858347	3	4	144	1	0	0	0	0	1	0	0	0	7815	933	33	2	283	2	IQGAP2	5	75858347	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	21538194	75858347	105056913	81	51116										
CTNNA1	1495	broad.mit.edu	37	chr5	138260946	138260946	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgtgcctctttctccacagtCatgccacgttttactgagca	7	13	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:138260946C>T	uc003ldh.2	+	13	1844	c.1749C>T	c.(1747-1749)GTC>GTT	p.V583V	CTNNA1_uc011cyx.1_Silent_p.V480V|CTNNA1_uc011cyy.1_Silent_p.V460V|CTNNA1_uc003ldi.2_Silent_p.V281V|CTNNA1_uc003ldj.2_Silent_p.V583V|CTNNA1_uc003ldl.2_Silent_p.V213V	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	583					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TCTCCACAGTCATGCCACGTT	0.552													19	38	---	---	---	---	PASS	T	138260946	T	T	138260946	2	4	144	1	0	0	0	0	0	0	0	1	4012	840	29	2		2	CTNNA1	5	138260946	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	62402599	138260946	42654314	82	51117										
SPINK5	11005	broad.mit.edu	37	chr5	147466029	147466029	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttttatctgtcctgattattAtgaagctgtttgtggcacag	9	6	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:147466029A>G	uc003lox.2	+	5	417	c.344A>G	c.(343-345)TAT>TGT	p.Y115C	SPINK5_uc010jgq.1_RNA|SPINK5_uc010jgs.1_Missense_Mutation_p.Y87C|SPINK5_uc010jgr.2_Missense_Mutation_p.Y96C|SPINK5_uc003low.2_Missense_Mutation_p.Y115C|SPINK5_uc003loy.2_Missense_Mutation_p.Y115C	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	115	Kazal-like 2.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGATTATTATGAAGCTGTT	0.383													71	152	---	---	---	---	PASS	G	147466029	G	G	147466029	3	3	144	1	0	0	0	0	1	0	0	0	15061	449	16	5	362	5	SPINK5	5	147466029	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	9205083	147466029	33449231	83	51118										
SPINK5	11005	broad.mit.edu	37	chr5	147481344	147481344	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttcctgcctcaatttcacagGagttgtgtagtgaataccgc	9	10	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:147481344G>T	uc003lox.2	+	15	1376	c.1303G>T	c.(1303-1305)GAG>TAG	p.E435*	SPINK5_uc010jgs.1_Nonsense_Mutation_p.E407*|SPINK5_uc010jgr.2_Nonsense_Mutation_p.E416*|SPINK5_uc003low.2_Nonsense_Mutation_p.E435*|SPINK5_uc003loy.2_Nonsense_Mutation_p.E435*	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	435	Kazal-like 7.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATTTCACAGGAGTTGTGTAG	0.423													38	77	---	---	---	---	PASS	T	147481344	T	T	147481344	4	4	144	1	0	0	0	0	0	1	0	0	15061	1188	41	2	1361	2	SPINK5	5	147481344	Nonsense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	15315	147481344	33433916	84	51119										
NIPAL4	348938	broad.mit.edu	37	chr5	156899445	156899445	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cctcatctacatcatcatctGctctgtgatcggggccttct	7	14	7	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:156899445G>A	uc003lwx.3	+	6	994	c.878G>A	c.(877-879)TGC>TAC	p.C293Y	ADAM19_uc003lww.1_Intron|NIPAL4_uc011ddq.1_Missense_Mutation_p.C274Y	NM_001099287	NP_001092757	Q0D2K0	NIPA4_HUMAN	ichthyin protein	293	Helical; (Potential).					integral to membrane	receptor activity				0						ATCATCATCTGCTCTGTGATC	0.552											OREG0016979	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	69	193	---	---	---	---	PASS	A	156899445	A	A	156899445	3	1	144	1	0	0	0	0	1	0	0	0	10427	1319	46	3	900	3	NIPAL4	5	156899445	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	9418101	156899445	24015815	85	51120										
FAM153B	202134	broad.mit.edu	37	chr5	175530260	175530260	+	Missense_Mutation	SNP	C	A	A													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ggatgtacttcaggagctgtCcagttacaacggcgaggagg							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:175530260C>A	uc003mdk.2	+	13	752	c.695C>A	c.(694-696)TCC>TAC	p.S232Y		NM_001079529	NP_001072997	P0C7A2	F153B_HUMAN	hypothetical protein LOC202134	232										ovary(1)	1	all_cancers(89;0.00406)|Renal(175;0.000269)|Lung NSC(126;0.0103)|all_lung(126;0.0164)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Kidney(146;0.0965)		CAGGAGCTGTCCAGTTACAAC	0.468													35	328	---	---	---	---	PASS	A	175530260	A	A	175530260	3	1	144	1	0	0	0	0	1	0	0	0	5461	855	30	2	745	2	FAM153B	5	175530260	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	18630815	175530260	5385000	86	51121	937	2								
FAM153B	202134	broad.mit.edu	37	chr5	175530261	175530261	+	Silent	SNP	C	G	G													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gatgtacttcaggagctgtcCagttacaacggcgaggagga							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:175530261C>G	uc003mdk.2	+	13	753	c.696C>G	c.(694-696)TCC>TCG	p.S232S		NM_001079529	NP_001072997	P0C7A2	F153B_HUMAN	hypothetical protein LOC202134	232										ovary(1)	1	all_cancers(89;0.00406)|Renal(175;0.000269)|Lung NSC(126;0.0103)|all_lung(126;0.0164)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Kidney(146;0.0965)		AGGAGCTGTCCAGTTACAACG	0.468													35	336	---	---	---	---	PASS	G	175530261	G	G	175530261	2	3	144	1	0	0	0	0	0	0	0	1	5461	581	21	4		4	FAM153B	5	175530261	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	1	175530261	5384999	87	51122	937	2								
FAM153A	285596	broad.mit.edu	37	chr5	177161904	177161904	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cctcctcaccgttgtaactgGacagctcctgaagtacatcc	7	15	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr5:177161904G>T	uc010jkp.1	-	14	885	c.464C>A	c.(463-465)TCC>TAC	p.S155Y	FAM153A_uc011dgd.1_Intron|FAM153A_uc003mib.1_RNA|FAM153A_uc003mic.2_Missense_Mutation_p.S155Y	NM_173663	NP_775934	Q9UHL3	F153A_HUMAN	hypothetical protein LOC285596	155										skin(1)	1	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	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)			GTTGTAACTGGACAGCTCCTG	0.463													3	32	---	---	---	---	PASS	T	177161904	T	T	177161904	3	4	144	1	0	0	0	0	1	0	0	0	5460	1174	41	2	504	2	FAM153A	5	177161904	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	1631643	177161904	3753356	88	51123										
F13A1	2162	broad.mit.edu	37	chr6	6182228	6182228	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ggtagtaaattaccttcttgGaatttgtaagtatcagtaat	8	4	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:6182228G>A	uc003mwv.2	-	11	1575	c.1452C>T	c.(1450-1452)TTC>TTT	p.F484F	F13A1_uc011dib.1_Silent_p.F421F	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	484					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	TACCTTCTTGGAATTTGTAAG	0.383													36	106	---	---	---	---	PASS	A	6182228	A	A	6182228	2	1	144	1	0	0	0	0	0	0	0	1	5340	1165	41	2		2	F13A1	6	6182228	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08		6182228	164932839	89	51124										
TBC1D7	51256	broad.mit.edu	37	chr6	13305333	13305333	+	Nonstop_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tccacaaccagcgggtgcgtTcagcttgaatggaccggggt	14	11	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:13305333T>C	uc003naj.2	-	8	973	c.882A>G	c.(880-882)TGA>TGG	p.*294W	TBC1D7_uc011dis.1_Intron|TBC1D7_uc003nan.2_Nonstop_Mutation_p.*294W|TBC1D7_uc003nal.2_Nonstop_Mutation_p.*294W|TBC1D7_uc003nam.2_Nonstop_Mutation_p.*294W|TBC1D7_uc003nao.2_Nonstop_Mutation_p.*267W|TBC1D7_uc010jpd.2_Nonstop_Mutation_p.*248W	NM_016495	NP_057579	Q9P0N9	TBCD7_HUMAN	TBC1 domain family, member 7 isoform a	294					positive regulation of protein ubiquitination	cytoplasmic membrane-bounded vesicle	protein binding|Rab GTPase activator activity			ovary(1)	1	Breast(50;0.0296)|Ovarian(93;0.0339)	all_hematologic(90;0.135)	Epithelial(50;0.0784)|BRCA - Breast invasive adenocarcinoma(129;0.13)|all cancers(50;0.21)			GCGGGTGCGTTCAGCTTGAAT	0.532													25	92	---	---	---	---	PASS	C	13305333	C	C	13305333	4	2	144	1	0	0	0	0	0	0	0	0	15621	1796	62	5	3	5	TBC1D7	6	13305333	Nonstop_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	7123105	13305333	157809734	90	51125										
KDM1B	221656	broad.mit.edu	37	chr6	18212751	18212751	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtaccactggctttactacaGaaaggtgccattcagtttaa	8	9	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:18212751G>T	uc003nco.1	+	11	1365	c.1290G>T	c.(1288-1290)CAG>CAT	p.Q430H	KDM1B_uc003ncn.1_Missense_Mutation_p.Q401H|KDM1B_uc003ncp.1_5'UTR|KDM1B_uc003ncq.1_5'UTR	NM_153042	NP_694587	Q8NB78	KDM1B_HUMAN	amine oxidase (flavin containing) domain 1	633					multicellular organismal development|regulation of DNA methylation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-monomethyl-K4 specific)|oxidoreductase activity|zinc ion binding			skin(1)	1						CTTTACTACAGAAAGGTGCCA	0.413													31	311	---	---	---	---	PASS	T	18212751	T	T	18212751	3	4	144	1	0	0	0	0	1	0	0	0	8123	933	33	2	1249	2	KDM1B	6	18212751	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	4907418	18212751	152902316	91	51126										
ZNF184	7738	broad.mit.edu	37	chr6	27420101	27420101	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttcgtacggtttttcaccagTatgaatcatatgatgacgga	9	7	2	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:27420101T>C	uc003njj.2	-	5	2048	c.1237A>G	c.(1237-1239)ACT>GCT	p.T413A	ZNF184_uc010jqv.2_Missense_Mutation_p.T413A|ZNF184_uc003nji.2_Missense_Mutation_p.T413A	NM_007149	NP_009080	Q99676	ZN184_HUMAN	zinc finger protein 184	413					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTTTCACCAGTATGAATCATA	0.403													51	194	---	---	---	---	PASS	C	27420101	C	C	27420101	3	2	144	1	0	0	0	0	1	0	0	0	17748	1638	57	5	1022	5	ZNF184	6	27420101	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	9207350	27420101	143694966	92	51127										
DAAM2	23500	broad.mit.edu	37	chr6	39847149	39847149	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gcctcggcatgggcctgcccCtccctcaggacccctacccc	9	22	1	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:39847149C>T	uc003oow.2	+	14	1897	c.1741C>T	c.(1741-1743)CTC>TTC	p.L581F	DAAM2_uc010jxc.2_Missense_Mutation_p.L581F|DAAM2_uc003oox.2_Missense_Mutation_p.L581F	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	581	FH1.|Pro-rich.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GGGCCTGCCCCTCCCTCAGGA	0.507													19	65	---	---	---	---	PASS	T	39847149	T	T	39847149	3	4	144	1	0	0	0	0	1	0	0	0	4216	681	24	3	1791	3	DAAM2	6	39847149	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	12427048	39847149	131267918	93	51128										
POU3F2	5454	broad.mit.edu	37	chr6	99284000	99284000	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aggatgacccctcccggaggGactctgccgggcgccgagga	16	14	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:99284000G>T	uc003ppe.2	+	1	1421	c.1251G>T	c.(1249-1251)GGG>GGT	p.G417G		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	417					positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)		CTCCCGGAGGGACTCTGCCGG	0.617													26	80	---	---	---	---	PASS	T	99284000	T	T	99284000	2	4	144	1	0	0	0	0	0	0	0	1	12275	1161	41	2		2	POU3F2	6	99284000	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	59436851	99284000	71831067	94	51129										
POPDC3	64208	broad.mit.edu	37	chr6	105606478	105606478	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tttttcctatatataccctgTcattcaaggcatagagttta	5	8	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:105606478T>A	uc003prb.2	-	4	1145	c.743A>T	c.(742-744)GAC>GTC	p.D248V	uc003pqz.2_Intron|POPDC3_uc003pra.2_RNA	NM_022361	NP_071756	Q9HBV1	POPD3_HUMAN	popeye protein 3	248						integral to membrane				skin(3)|ovary(2)	5		all_cancers(87;4.87e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0157)|Colorectal(196;0.202)|Lung NSC(302;0.238)				ATATACCCTGTCATTCAAGGC	0.398													57	219	---	---	---	---	PASS	A	105606478	A	A	105606478	3	1	144	1	0	0	0	0	1	0	0	0	12256	1667	58	5	136	5	POPDC3	6	105606478	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	6322478	105606478	65508589	95	51130										
NR2E1	7101	broad.mit.edu	37	chr6	108501625	108501625	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	actctactggctgtatctggTaagaattgcacaatttaatg	8	7	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:108501625T>A	uc003psg.2	+	6	1494	c.739_splice	c.e6+2	p.G247_splice		NM_003269	NP_003260	Q9Y466	NR2E1_HUMAN	nuclear receptor subfamily 2, group E, member 1						regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(87;8.13e-05)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00866)|Colorectal(196;0.0637)		BRCA - Breast invasive adenocarcinoma(108;0.013)|Epithelial(106;0.0521)|all cancers(137;0.068)|OV - Ovarian serous cystadenocarcinoma(136;0.0689)		CTGTATCTGGTAAGAATTGCA	0.358													32	154	---	---	---	---	PASS	A	108501625	A	A	108501625	5	1	144	1	0	0	0	0	0	0	1	0	10625	1652	57	5	763	5	NR2E1	6	108501625	Splice_Site	SNP	T	TCGA-66-2755-01A-01D-1522-08	2895147	108501625	62613442	96	51131										
C6orf170	221322	broad.mit.edu	37	chr6	121577239	121577239	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aaaatacttacctttttccaTgcctttgctatagattcatg	4	9	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:121577239T>C	uc003pyo.1	-	16	1994	c.1926A>G	c.(1924-1926)GCA>GCG	p.A642A	C6orf170_uc003pyq.1_RNA|C6orf170_uc003pyp.1_Silent_p.A161A	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	642					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		CCTTTTTCCATGCCTTTGCTA	0.313													27	96	---	---	---	---	PASS	C	121577239	C	C	121577239	2	2	144	1	0	0	0	0	0	0	0	1	2344	1451	51	5		5	C6orf170	6	121577239	Silent	SNP	T	TCGA-66-2755-01A-01D-1522-08	13075614	121577239	49537828	97	51132										
HSF2	3298	broad.mit.edu	37	chr6	122737378	122737378	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	taacatagtgagaatgagtcCctttggaaggaggtgtcaga	13	5	1	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:122737378C>G	uc003pyu.2	+	5	655	c.468C>G	c.(466-468)TCC>TCG	p.S156S	HSF2_uc003pyt.3_Silent_p.S156S|HSF2_uc003pyv.2_Silent_p.S156S	NM_004506	NP_004497	Q03933	HSF2_HUMAN	heat shock transcription factor 2 isoform a	156	Hydrophobic repeat HR-A/B.				response to stress|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0				OV - Ovarian serous cystadenocarcinoma(136;0.00371)|all cancers(137;0.0299)|GBM - Glioblastoma multiforme(226;0.0586)		AGAATGAGTCCCTTTGGAAGG	0.338													20	64	---	---	---	---	PASS	G	122737378	G	G	122737378	2	3	144	1	0	0	0	0	0	0	0	1	7396	610	22	4		4	HSF2	6	122737378	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	1160139	122737378	48377689	98	51133										
ENPP3	5169	broad.mit.edu	37	chr6	131971206	131971206	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ctttgatgcatcatttagagGactggagaactgccggtgtg	13	7	1	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:131971206G>T	uc003qcu.3	+	4	541	c.194G>T	c.(193-195)GGA>GTA	p.G65V	ENPP3_uc010kfn.1_RNA|ENPP3_uc011ecc.1_Missense_Mutation_p.G31V|ENPP3_uc010kfo.1_RNA|ENPP3_uc010kfp.1_RNA|ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Missense_Mutation_p.G65V	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	65	Extracellular (Potential).|SMB 1.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		TCATTTAGAGGACTGGAGAAC	0.443													56	199	---	---	---	---	PASS	T	131971206	T	T	131971206	3	4	144	1	0	0	0	0	1	0	0	0	5131	1174	41	2	204	2	ENPP3	6	131971206	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	9233828	131971206	39143861	99	51134										
STX7	8417	broad.mit.edu	37	chr6	132785134	132785134	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgatcacagttaaattacctGataatctgctgcccttgaca	6	10	2	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:132785134G>A	uc003qdg.2	-	9	941	c.691C>T	c.(691-693)CAG>TAG	p.Q231*	STX7_uc011ecg.1_RNA|STX7_uc011ech.1_Nonsense_Mutation_p.Q56*	NM_003569	NP_003560	O15400	STX7_HUMAN	syntaxin 7	231	Cytoplasmic (Potential).				intracellular protein transport|post-Golgi vesicle-mediated transport	early endosome membrane|integral to membrane	SNAP receptor activity				0	Breast(56;0.0615)			OV - Ovarian serous cystadenocarcinoma(155;0.00532)|GBM - Glioblastoma multiforme(226;0.0114)		TAAATTACCTGATAATCTGCT	0.388													61	220	---	---	---	---	PASS	A	132785134	A	A	132785134	4	1	144	1	0	0	0	0	0	1	0	0	15349	1299	45	2	102	2	STX7	6	132785134	Nonsense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	813928	132785134	38329933	100	51135										
MAP7	9053	broad.mit.edu	37	chr6	136682314	136682314	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgagccaattcctctctcttTtgtctggaaaaagacagaac	7	10	3	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:136682314T>G	uc003qgz.2	-	12	1776	c.1530A>C	c.(1528-1530)CAA>CAC	p.Q510H	MAP7_uc011edf.1_Missense_Mutation_p.Q495H|MAP7_uc011edg.1_Missense_Mutation_p.Q540H|MAP7_uc010kgu.2_Missense_Mutation_p.Q532H|MAP7_uc011edh.1_Missense_Mutation_p.Q495H|MAP7_uc010kgv.2_Missense_Mutation_p.Q532H|MAP7_uc010kgs.2_Missense_Mutation_p.Q364H|MAP7_uc011edi.1_Missense_Mutation_p.Q364H|MAP7_uc010kgq.1_Missense_Mutation_p.Q416H|MAP7_uc003qha.1_Missense_Mutation_p.Q473H	NM_003980	NP_003971	Q14244	MAP7_HUMAN	microtubule-associated protein 7	510	Potential.				establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)		CCTCTCTCTTTTGTCTGGAAA	0.547													17	57	---	---	---	---	PASS	G	136682314	G	G	136682314	3	3	144	1	0	0	0	0	1	0	0	0	9266	1838	64	5	747	5	MAP7	6	136682314	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	3897180	136682314	34432753	101	51136										
NMBR	4829	broad.mit.edu	37	chr6	142400042	142400042	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gttaacgatggctctgtaccTgggaaaatgatacatctcaa	9	8	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:142400042T>C	uc003qiu.2	-	2	564	c.423_splice	c.e2-1	p.R141_splice		NM_002511	NP_002502	P28336	NMBR_HUMAN	neuromedin B receptor						activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			central_nervous_system(3)|breast(1)	4	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		GCTCTGTACCTGGGAAAATGA	0.338													8	92	---	---	---	---	PASS	C	142400042	C	C	142400042	5	2	144	1	0	0	0	0	0	0	1	0	10487	1594	55	5	759	5	NMBR	6	142400042	Splice_Site	SNP	T	TCGA-66-2755-01A-01D-1522-08	5717728	142400042	28715025	102	51137										
SLC22A2	6582	broad.mit.edu	37	chr6	160662610	160662610	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttgaggaacagatgtggacgCcaagattcctagaatgcagg	13	7	0	4			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr6:160662610C>G	uc003qtf.2	-	9	1567	c.1397G>C	c.(1396-1398)GGC>GCC	p.G466A	SLC22A2_uc003qte.1_Missense_Mutation_p.G466A	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	466	Helical; (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		GATGTGGACGCCAAGATTCCT	0.453													32	92	---	---	---	---	PASS	G	160662610	G	G	160662610	3	3	144	1	0	0	0	0	1	0	0	0	14450	739	26	4	282	4	SLC22A2	6	160662610	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	18262568	160662610	10452457	103	51138										
C7orf28A	51622	broad.mit.edu	37	chr7	5965287	5965287	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ggtcaagaaactttgtgcaaCgcagttcaacaacatcttct	7	10	4	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:5965287C>T	uc003spf.2	+	15	1508	c.1418C>T	c.(1417-1419)ACG>ATG	p.T473M		NM_015622	NP_056437	P86791	CCZ1_HUMAN	hypothetical protein LOC51622	473						lysosomal membrane					0		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0974)|OV - Ovarian serous cystadenocarcinoma(56;7.91e-15)		CTTTGTGCAACGCAGTTCAAC	0.403													39	247	---	---	---	---	PASS	T	5965287	T	T	5965287	3	4	144	1	0	0	0	0	1	0	0	0	2383	536	19	1	1476	1	C7orf28A	7	5965287	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08		5965287	153173376	104	51139										
DAGLB	221955	broad.mit.edu	37	chr7	6474584	6474584	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gccggcagaggaatatggagCcattttccccccaagagggt	13	11	0	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:6474584C>A	uc003sqa.2	-	4	657	c.487G>T	c.(487-489)GCT>TCT	p.A163S	DAGLB_uc011jwt.1_5'UTR|DAGLB_uc011jwu.1_Intron|DAGLB_uc003sqb.2_Intron|DAGLB_uc003sqc.2_Intron|DAGLB_uc011jwv.1_RNA|DAGLB_uc003sqd.3_Missense_Mutation_p.A122S|DAGLB_uc011jww.1_Intron	NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1	163	Cytoplasmic (Potential).				lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		GAATATGGAGCCATTTTCCCC	0.512													58	129	---	---	---	---	PASS	A	6474584	A	A	6474584	3	1	144	1	0	0	0	0	1	0	0	0	4227	739	26	3	1579	3	DAGLB	7	6474584	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	509297	6474584	152664079	105	51140										
PRPS1L1	221823	broad.mit.edu	37	chr7	18067168	18067168	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	agtaactcggctagctgaagCaatcttgcaggcattaatca	9	9	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:18067168C>A	uc003stz.2	-	1	319	c.238G>T	c.(238-240)GCT>TCT	p.A80S		NM_175886	NP_787082	P21108	PRPS3_HUMAN	phosphoribosyl pyrophosphate synthetase 1-like	80					nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			ovary(1)	1	Lung NSC(10;0.0385)|all_lung(11;0.0736)					CTAGCTGAAGCAATCTTGCAG	0.493													148	369	---	---	---	---	PASS	A	18067168	A	A	18067168	3	1	144	1	0	0	0	0	1	0	0	0	12579	710	25	3	722	3	PRPS1L1	7	18067168	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	11592584	18067168	141071495	106	51141										
CCDC129	223075	broad.mit.edu	37	chr7	31692223	31692223	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aagcaatgggcagacttcatGttctaaaatccacccaggca	8	11	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:31692223G>A	uc003tcj.1	+	14	3908	c.2915G>A	c.(2914-2916)TGT>TAT	p.C972Y	CCDC129_uc011kad.1_Missense_Mutation_p.C982Y|CCDC129_uc003tci.1_Missense_Mutation_p.C823Y|CCDC129_uc011kae.1_Missense_Mutation_p.C998Y|CCDC129_uc003tck.1_Missense_Mutation_p.C880Y	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	972											0						CAGACTTCATGTTCTAAAATC	0.512													17	46	---	---	---	---	PASS	A	31692223	A	A	31692223	3	1	144	1	0	0	0	0	1	0	0	0	2764	1377	48	3	2965	3	CCDC129	7	31692223	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	13625055	31692223	127446440	107	51142										
SFRP4	6424	broad.mit.edu	37	chr7	37951816	37951816	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtaatgagcgggacttgagtTcgagggatgggtgatgagga	19	3	0	4			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:37951816T>C	uc003tfo.3	-	4	1082	c.696A>G	c.(694-696)CGA>CGG	p.R232R		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	232	NTR.				brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1						GGACTTGAGTTCGAGGGATGG	0.483													52	142	---	---	---	---	PASS	C	37951816	C	C	37951816	2	2	144	1	0	0	0	0	0	0	0	1	14163	1770	62	5		5	SFRP4	7	37951816	Silent	SNP	T	TCGA-66-2755-01A-01D-1522-08	6259593	37951816	121186847	108	51143										
ABCA13	154664	broad.mit.edu	37	chr7	48335404	48335404	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	agcagcttggaaaatgccacTggccaggactgcacaagcca	11	12	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:48335404T>G	uc003toq.2	+	21	9088	c.9063T>G	c.(9061-9063)ACT>ACG	p.T3021T	ABCA13_uc010kys.1_Silent_p.T95T	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3021					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AAAATGCCACTGGCCAGGACT	0.488													96	195	---	---	---	---	PASS	G	48335404	G	G	48335404	2	3	144	1	0	0	0	0	0	0	0	1	31	1567	55	5		5	ABCA13	7	48335404	Silent	SNP	T	TCGA-66-2755-01A-01D-1522-08	10383588	48335404	110803259	109	51144										
PSPH	5723	broad.mit.edu	37	chr7	56087413	56087413	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgaaaggcactgccccgcccAtggctcgccgtgtcctagga	12	15	0	1	rs104894036		TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:56087413A>G	uc003trg.2	-	4	518	c.155T>C	c.(154-156)ATG>ACG	p.M52T	PSPH_uc003trh.2_Missense_Mutation_p.M52T|PSPH_uc003tri.2_Missense_Mutation_p.M52T|PSPH_uc003trj.2_Missense_Mutation_p.M81T	NM_004577	NP_004568	P78330	SERB_HUMAN	phosphoserine phosphatase	52			M -> T (in PSPHD).		L-serine biosynthetic process	cytoplasm	calcium ion binding|magnesium ion binding|phosphoserine phosphatase activity|protein homodimerization activity			ovary(1)|skin(1)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TGCCCCGCCCATGGCTCGCCG	0.612													9	62	---	---	---	---	PASS	G	56087413	G	G	56087413	3	3	144	1	0	0	0	0	1	0	0	0	12717	217	8	5	538	5	PSPH	7	56087413	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	7752009	56087413	103051250	110	51145										
MAGI2	9863	broad.mit.edu	37	chr7	77764482	77764482	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tagttttgcacagcgatctgCaggactcccatcaatgatgc	9	11	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:77764482C>G	uc003ugx.2	-	17	3141	c.2887G>C	c.(2887-2889)GCA>CCA	p.A963P	MAGI2_uc003ugy.2_Missense_Mutation_p.A949P|MAGI2_uc010ldx.1_Missense_Mutation_p.A556P	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	963	PDZ 5.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				CAGCGATCTGCAGGACTCCCA	0.463													72	104	---	---	---	---	PASS	G	77764482	G	G	77764482	3	3	144	1	0	0	0	0	1	0	0	0	9191	710	25	4	1504	4	MAGI2	7	77764482	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	21677069	77764482	81374181	111	51146										
ZNF804B	219578	broad.mit.edu	37	chr7	88966071	88966071	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ctccaaccattatccctgcaCaccccactttcttagcaggt	4	17	1	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:88966071C>A	uc011khi.1	+	4	4313	c.3775C>A	c.(3775-3777)CAC>AAC	p.H1259N		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1259						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TATCCCTGCACACCCCACTTT	0.478										HNSCC(36;0.09)			137	309	---	---	---	---	PASS	A	88966071	A	A	88966071	3	1	144	1	0	0	0	0	1	0	0	0	18168	478	17	3	3789	3	ZNF804B	7	88966071	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	11201589	88966071	70172592	112	51147										
C7orf58	79974	broad.mit.edu	37	chr7	120911349	120911349	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tccaatcagagtgaagtacaGaacttatggaaagaaaattt	8	5	1	4			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:120911349G>A	uc003vjq.3	+	22	3180	c.2733G>A	c.(2731-2733)CAG>CAA	p.Q911Q		NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	911						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					GTGAAGTACAGAACTTATGGA	0.318													35	126	---	---	---	---	PASS	A	120911349	A	A	120911349	2	1	144	1	0	0	0	0	0	0	0	1	2405	933	33	2		2	C7orf58	7	120911349	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	31945278	120911349	38227314	113	51148										
PTPRZ1	5803	broad.mit.edu	37	chr7	121612615	121612615	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tggaaattaatctcactaatGactaccgtgtcagcggagga	10	8	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:121612615G>T	uc003vjy.2	+	4	720	c.325G>T	c.(325-327)GAC>TAC	p.D109Y	PTPRZ1_uc003vjz.2_Missense_Mutation_p.D109Y	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	109	Extracellular (Potential).|Alpha-carbonic anhydrase.				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						TCTCACTAATGACTACCGTGT	0.338													37	190	---	---	---	---	PASS	T	121612615	T	T	121612615	3	4	144	1	0	0	0	0	1	0	0	0	12814	1290	45	2	339	2	PTPRZ1	7	121612615	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	701266	121612615	37526048	114	51149										
FEZF1	389549	broad.mit.edu	37	chr7	121942911	121942911	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aacggtttgtagcccgcgtgTattcgggtatgagtgtttaa	13	6	0	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:121942911T>A	uc003vkd.2	-	3	1085	c.1011A>T	c.(1009-1011)ATA>ATT	p.I337I	FEZF1_uc003vkc.2_Silent_p.I287I|uc010lko.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	337	C2H2-type 3.				cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						AGCCCGCGTGTATTCGGGTAT	0.408													72	266	---	---	---	---	PASS	A	121942911	A	A	121942911	2	1	144	1	0	0	0	0	0	0	0	1	5825	1628	57	5		5	FEZF1	7	121942911	Silent	SNP	T	TCGA-66-2755-01A-01D-1522-08	330296	121942911	37195752	115	51150										
IQUB	154865	broad.mit.edu	37	chr7	123136839	123136839	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	attttatccattcttcttttTctcttatcttccttagttct	1	10	5	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:123136839T>A	uc003vkn.2	-	7	1722	c.1145A>T	c.(1144-1146)GAA>GTA	p.E382V	IQUB_uc003vko.2_Missense_Mutation_p.E382V|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Missense_Mutation_p.E382V	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	382										ovary(3)|large_intestine(1)	4						TTCTTCTTTTTCTCTTATCTT	0.338													70	110	---	---	---	---	PASS	A	123136839	A	A	123136839	3	1	144	1	0	0	0	0	1	0	0	0	7820	1783	62	5	1258	5	IQUB	7	123136839	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	1193928	123136839	36001824	116	51151										
GRM8	2918	broad.mit.edu	37	chr7	126544700	126544700	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aattctccaggtcttggttcAcgtgggattttctgtgactg	11	8	4	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:126544700A>G	uc003vlr.2	-	3	1076	c.765T>C	c.(763-765)CGT>CGC	p.R255R	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.R255R|GRM8_uc010lkz.1_RNA|GRM8_uc003vlu.1_5'UTR	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	255	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	GTCTTGGTTCACGTGGGATTT	0.393										HNSCC(24;0.065)			47	215	---	---	---	---	PASS	G	126544700	G	G	126544700	2	3	144	1	0	0	0	0	0	0	0	1	6803	146	6	5		5	GRM8	7	126544700	Silent	SNP	A	TCGA-66-2755-01A-01D-1522-08	3407861	126544700	32593963	117	51152										
CHRM2	1129	broad.mit.edu	37	chr7	136700864	136700864	+	Missense_Mutation	SNP	C	A	A													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccttttgtgcaccttgcatcCccaacactgtgtggacaatt							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:136700864C>A	uc003vtf.1	+	4	1875	c.1252C>A	c.(1252-1254)CCC>ACC	p.P418T	CHRM2_uc003vtg.1_Missense_Mutation_p.P418T|CHRM2_uc003vtj.1_Missense_Mutation_p.P418T|CHRM2_uc003vtk.1_Missense_Mutation_p.P418T|CHRM2_uc003vtl.1_Missense_Mutation_p.P418T|CHRM2_uc003vtm.1_Missense_Mutation_p.P418T|CHRM2_uc003vti.1_Missense_Mutation_p.P418T|CHRM2_uc003vto.1_Missense_Mutation_p.P418T|CHRM2_uc003vtn.1_Missense_Mutation_p.P418T|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	418	Extracellular (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	ACCTTGCATCCCCAACACTGT	0.463													116	280	---	---	---	---	PASS	A	136700864	A	A	136700864	3	1	144	1	0	0	0	0	1	0	0	0	3377	623	22	3	1254	3	CHRM2	7	136700864	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	10156164	136700864	22437799	118	51153	938	2								
CHRM2	1129	broad.mit.edu	37	chr7	136700865	136700865	+	Missense_Mutation	SNP	C	A	A													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cttttgtgcaccttgcatccCcaacactgtgtggacaattg							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:136700865C>A	uc003vtf.1	+	4	1876	c.1253C>A	c.(1252-1254)CCC>CAC	p.P418H	CHRM2_uc003vtg.1_Missense_Mutation_p.P418H|CHRM2_uc003vtj.1_Missense_Mutation_p.P418H|CHRM2_uc003vtk.1_Missense_Mutation_p.P418H|CHRM2_uc003vtl.1_Missense_Mutation_p.P418H|CHRM2_uc003vtm.1_Missense_Mutation_p.P418H|CHRM2_uc003vti.1_Missense_Mutation_p.P418H|CHRM2_uc003vto.1_Missense_Mutation_p.P418H|CHRM2_uc003vtn.1_Missense_Mutation_p.P418H|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	418	Extracellular (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	CCTTGCATCCCCAACACTGTG	0.463													116	280	---	---	---	---	PASS	A	136700865	A	A	136700865	3	1	144	1	0	0	0	0	1	0	0	0	3377	623	22	3	1255	3	CHRM2	7	136700865	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	1	136700865	22437798	119	51154	938	2								
PRSS37	136242	broad.mit.edu	37	chr7	141536980	141536980	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cctgtggctttttccttgttCtgttttttggcattctcgat	8	9	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr7:141536980C>G	uc003vws.1	-	4	871	c.499G>C	c.(499-501)GAA>CAA	p.E167Q	PRSS37_uc011krk.1_Missense_Mutation_p.E154Q|PRSS37_uc011krl.1_Missense_Mutation_p.E166Q|PRSS37_uc003vwt.1_Missense_Mutation_p.E154Q	NM_001008270	NP_001008271	A4D1T9	PRS37_HUMAN	protease, serine, 37 precursor	167	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			skin(1)	1						TTTCCTTGTTCTGTTTTTTGG	0.433													47	182	---	---	---	---	PASS	G	141536980	G	G	141536980	3	3	144	1	0	0	0	0	1	0	0	0	12626	922	32	2	216	2	PRSS37	7	141536980	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	4836115	141536980	17601683	120	51155										
ADAM32	203102	broad.mit.edu	37	chr8	39089565	39089565	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ggttcaagaaatgctccattTgcctgctatgaagaaataca	8	8	1	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr8:39089565T>A	uc003xmt.3	+	15	1790	c.1545T>A	c.(1543-1545)TTT>TTA	p.F515L	ADAM32_uc011lch.1_Missense_Mutation_p.F416L|ADAM32_uc003xmu.3_Missense_Mutation_p.F409L|ADAM32_uc003xmv.2_Intron	NM_145004	NP_659441	Q8TC27	ADA32_HUMAN	a disintegrin and metalloprotease domain 32	515	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)			ATGCTCCATTTGCCTGCTATG	0.338													45	113	---	---	---	---	PASS	A	39089565	A	A	39089565	3	1	144	1	0	0	0	0	1	0	0	0	249	1809	63	5	1603	5	ADAM32	8	39089565	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08		39089565	107274457	121	51156										
PRKDC	5591	broad.mit.edu	37	chr8	48772318	48772318	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ggaagacatataggaaggacCatctgaaatataaaaaagga	10	4	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr8:48772318C>A	uc003xqi.2	-	47	6118	c.6061G>T	c.(6061-6063)GGT>TGT	p.G2021C	PRKDC_uc003xqj.2_Missense_Mutation_p.G2021C|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2021		Cleavage; by caspase-3 (Probable).			cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TAGGAAGGACCATCTGAAATA	0.313								NHEJ					36	93	---	---	---	---	PASS	A	48772318	A	A	48772318	3	1	144	1	0	0	0	0	1	0	0	0	12521	594	21	3	6489	3	PRKDC	8	48772318	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	9682753	48772318	97591704	122	51157										
CHD7	55636	broad.mit.edu	37	chr8	61765230	61765230	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttgttttgtggccatgtgtaGgcgagtatgtcgaatgcccg	14	7	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr8:61765230G>T	uc003xue.2	+	30	6545	c.6068G>T	c.(6067-6069)AGG>ATG	p.R2023M		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2023					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)			GCCATGTGTAGGCGAGTATGT	0.393													26	69	---	---	---	---	PASS	T	61765230	T	T	61765230	3	4	144	1	0	0	0	0	1	0	0	0	3330	1000	35	3	6182	3	CHD7	8	61765230	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	12992912	61765230	84598792	123	51158										
SLCO5A1	81796	broad.mit.edu	37	chr8	70585503	70585503	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgcacaccacattcctgttgCcagagcatgcaggtggtgtc	11	12	0	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr8:70585503C>A	uc003xyl.2	-	10	2855	c.2148G>T	c.(2146-2148)TGG>TGT	p.W716C	SLCO5A1_uc010lzb.2_Missense_Mutation_p.W661C|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_3'UTR	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	716	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			ATTCCTGTTGCCAGAGCATGC	0.478													30	331	---	---	---	---	PASS	A	70585503	A	A	70585503	3	1	144	1	0	0	0	0	1	0	0	0	14731	740	26	3	402	3	SLCO5A1	8	70585503	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	8820273	70585503	75778519	124	51159										
ZFHX4	79776	broad.mit.edu	37	chr8	77763271	77763271	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtaaggatgtgaaaatccccGacacactgcaagatcaatta	8	9	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr8:77763271G>T	uc003yav.2	+	10	4366	c.3979G>T	c.(3979-3981)GAC>TAC	p.D1327Y	ZFHX4_uc003yau.1_Missense_Mutation_p.D1372Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.D1327Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1327						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GAAAATCCCCGACACACTGCA	0.423										HNSCC(33;0.089)			16	78	---	---	---	---	PASS	T	77763271	T	T	77763271	3	4	144	1	0	0	0	0	1	0	0	0	17632	1058	37	2	4148	2	ZFHX4	8	77763271	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	7177768	77763271	68600751	125	51160										
ZFHX4	79776	broad.mit.edu	37	chr8	77768135	77768135	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	atttaaaattaacatagggaAgcctttcatgatcaatcaag	6	6	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr8:77768135A>C	uc003yav.2	+	10	9230	c.8843A>C	c.(8842-8844)AAG>ACG	p.K2948T	ZFHX4_uc003yau.1_Missense_Mutation_p.K2993T|ZFHX4_uc003yaw.1_Missense_Mutation_p.K2948T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2948						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AACATAGGGAAGCCTTTCATG	0.468										HNSCC(33;0.089)			9	48	---	---	---	---	PASS	C	77768135	C	C	77768135	3	2	144	1	0	0	0	0	1	0	0	0	17632	72	3	5	9012	5	ZFHX4	8	77768135	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	4864	77768135	68595887	126	51161										
AGTPBP1	23287	broad.mit.edu	37	chr9	88203244	88203244	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gacaccatctggatttaacaTagggacaattttaaaaatat	6	6	1	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr9:88203244T>C	uc011ltd.1	-	20	2905	c.2872A>G	c.(2872-2874)ATG>GTG	p.M958V	AGTPBP1_uc004aod.3_Missense_Mutation_p.M584V|AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Missense_Mutation_p.M918V|AGTPBP1_uc011lte.1_Missense_Mutation_p.M970V	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	958					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						GGATTTAACATAGGGACAATT	0.343													27	86	---	---	---	---	PASS	C	88203244	C	C	88203244	3	2	144	1	0	0	0	0	1	0	0	0	400	1406	49	5	832	5	AGTPBP1	9	88203244	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08		88203244	53010187	127	51162										
PTGR1	22949	broad.mit.edu	37	chr9	114325433	114325433	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tattgtcttccccaaattatCtcctttcagcattcccataa	2	13	3	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr9:114325433C>A	uc004bfh.2	-	10	1061	c.958G>T	c.(958-960)GAT>TAT	p.D320Y	ZNF483_uc004bfg.2_Intron|PTGR1_uc011lwr.1_Intron|PTGR1_uc004bfi.3_Missense_Mutation_p.D320Y|PTGR1_uc004bfj.3_3'UTR	NM_012212	NP_036344	Q14914	PTGR1_HUMAN	prostaglandin reductase 1 isoform 1	320					leukotriene metabolic process	cytoplasm	15-oxoprostaglandin 13-oxidase activity|2-alkenal reductase activity|alcohol dehydrogenase (NAD) activity|zinc ion binding				0						CCCAAATTATCTCCTTTCAGC	0.353													35	105	---	---	---	---	PASS	A	114325433	A	A	114325433	3	1	144	1	0	0	0	0	1	0	0	0	12753	913	32	2	66	2	PTGR1	9	114325433	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	26122189	114325433	26887998	128	51163										
TRAF1	7185	broad.mit.edu	37	chr9	123675887	123675887	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	caggtctgacaggttctgctCcagggccatgggcccagact	13	13	2	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr9:123675887C>A	uc004bku.1	-	5	996	c.424G>T	c.(424-426)GAG>TAG	p.E142*	TRAF1_uc011lyg.1_Nonsense_Mutation_p.E20*|TRAF1_uc010mvl.1_Nonsense_Mutation_p.E142*	NM_005658	NP_005649	Q13077	TRAF1_HUMAN	TNF receptor-associated factor 1	142					apoptosis|positive regulation of NF-kappaB transcription factor activity|protein complex assembly|regulation of apoptosis|signal transduction	cytoplasm	protein binding|zinc ion binding			skin(2)|ovary(1)	3						AGGTTCTGCTCCAGGGCCATG	0.652											OREG0005350	type=TRANSCRIPTION FACTOR BINDING SITE|Gene=TRAF1|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	21	72	---	---	---	---	PASS	A	123675887	A	A	123675887	4	1	144	1	0	0	0	0	0	1	0	0	16434	864	30	2	842	2	TRAF1	9	123675887	Nonsense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	9350454	123675887	17537544	129	51164										
OR1J4	26219	broad.mit.edu	37	chr9	125282113	125282113	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tcctcaaggctccatctactAagggcatcttcaaagctttg	7	12	4	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr9:125282113A>G	uc011lyw.1	+	1	694	c.694A>G	c.(694-696)AAG>GAG	p.K232E		NM_001004452	NP_001004452	Q8NGS1	OR1J4_HUMAN	olfactory receptor, family 1, subfamily J,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCCATCTACTAAGGGCATCTT	0.463													49	143	---	---	---	---	PASS	G	125282113	G	G	125282113	3	3	144	1	0	0	0	0	1	0	0	0	10961	363	13	5	696	5	OR1J4	9	125282113	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	1606226	125282113	15931318	130	51165										
PTGES2	80142	broad.mit.edu	37	chr9	130889721	130889721	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gccgggccaggccttacctgCgcggctgagcgctctgcgtg	16	15	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr9:130889721C>A	uc004bti.2	-	1	754	c.276G>T	c.(274-276)GCG>GCT	p.A92A	PTGES2_uc004btj.2_RNA|PTGES2_uc004btk.2_Intron|PTGES2_uc004btl.2_Intron|PTGES2_uc004btm.2_Intron|LOC389791_uc004btn.2_5'Flank	NM_025072	NP_079348	Q9H7Z7	PGES2_HUMAN	prostaglandin E synthase 2	92	Glutaredoxin.|Cytoplasmic (Potential).				cell redox homeostasis|prostaglandin biosynthetic process	Golgi membrane|integral to membrane|mitochondrion|perinuclear region of cytoplasm	electron carrier activity|prostaglandin-E synthase activity|protein binding|protein disulfide oxidoreductase activity				0						GCCTTACCTGCGCGGCTGAGC	0.527													3	15	---	---	---	---	PASS	A	130889721	A	A	130889721	2	1	144	1	0	0	0	0	0	0	0	1	12747	755	27	1		1	PTGES2	9	130889721	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	5607608	130889721	10323710	131	51166										
COL5A1	1289	broad.mit.edu	37	chr9	137717724	137717724	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cagccggggggtcgacatgcGtcttccctgacaagaagtcc	13	13	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr9:137717724G>T	uc004cfe.2	+	63	5423	c.5041G>T	c.(5041-5043)GTC>TTC	p.V1681F	uc004cff.2_Intron	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1681	Fibrillar collagen NC1.				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)		GTCGACATGCGTCTTCCCTGA	0.577													12	51	---	---	---	---	PASS	T	137717724	T	T	137717724	3	4	144	1	0	0	0	0	1	0	0	0	3696	1145	40	1	5291	1	COL5A1	9	137717724	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	6828003	137717724	3495707	132	51167										
APBB1IP	54518	broad.mit.edu	37	chr10	26830517	26830517	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tccctgtctttcagacatctCgagatctggcgtgttttata	8	10	4	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr10:26830517C>A	uc001iss.2	+	11	1372	c.1051C>A	c.(1051-1053)CGA>AGA	p.R351R	APBB1IP_uc009xks.1_Silent_p.R351R	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	351	PH.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						TCAGACATCTCGAGATCTGGC	0.338													14	46	---	---	---	---	PASS	A	26830517	A	A	26830517	2	1	144	1	0	0	0	0	0	0	0	1	760	876	31	2		2	APBB1IP	10	26830517	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08		26830517	108704230	133	51168										
ANKRD26	22852	broad.mit.edu	37	chr10	27382415	27382415	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	atcagcaccatgttctagcaGaatagttgcacatttctctt	6	10	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr10:27382415G>C	uc001ith.2	-	3	566	c.394C>G	c.(394-396)CTG>GTG	p.L132V	ANKRD26_uc009xku.1_Missense_Mutation_p.L132V	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	132	ANK 3.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TGTTCTAGCAGAATAGTTGCA	0.418													13	131	---	---	---	---	PASS	C	27382415	C	C	27382415	3	2	144	1	0	0	0	0	1	0	0	0	654	933	33	2	4866	2	ANKRD26	10	27382415	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	551898	27382415	108152332	134	51169										
OGDHL	55753	broad.mit.edu	37	chr10	50952155	50952155	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	atgctcttgggctccccatcTacgttgaagaagcctgagag	11	11	2	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr10:50952155T>A	uc001jie.2	-	14	1888	c.1746A>T	c.(1744-1746)GTA>GTT	p.V582V	OGDHL_uc009xog.2_Silent_p.V609V|OGDHL_uc010qgt.1_Silent_p.V525V|OGDHL_uc010qgu.1_Silent_p.V373V|OGDHL_uc009xoh.2_Silent_p.V373V	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	582					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						GCTCCCCATCTACGTTGAAGA	0.627													16	37	---	---	---	---	PASS	A	50952155	A	A	50952155	2	1	144	1	0	0	0	0	0	0	0	1	10840	1509	53	5		5	OGDHL	10	50952155	Silent	SNP	T	TCGA-66-2755-01A-01D-1522-08	23569740	50952155	84582592	135	51170										
ANXA7	310	broad.mit.edu	37	chr10	75147502	75147502	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tttgcctctgatcattggaaCggttggccaccacatccaca	8	13	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr10:75147502C>T	uc001jtz.2	-	8	717	c.644G>A	c.(643-645)CGT>CAT	p.R215H	ANXA7_uc001jua.2_Missense_Mutation_p.R193H|ANXA7_uc001jub.2_Missense_Mutation_p.R153H|ANXA7_uc010qki.1_Missense_Mutation_p.R103H|ANXA7_uc009xre.2_Missense_Mutation_p.R122H|ANXA7_uc009xrf.1_Missense_Mutation_p.R135H	NM_004034	NP_004025	P20073	ANXA7_HUMAN	annexin VII isoform 2	215	Annexin 1.						calcium ion binding|calcium-dependent phospholipid binding|calcium-dependent protein binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					ATCATTGGAACGGTTGGCCAC	0.458													32	178	---	---	---	---	PASS	T	75147502	T	T	75147502	3	4	144	1	0	0	0	0	1	0	0	0	723	536	19	1	850	1	ANXA7	10	75147502	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	24195347	75147502	60387245	136	51171										
GRID1	2894	broad.mit.edu	37	chr10	87966375	87966375	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	agccagtggacgtgaccaagGccaaaatcccctgggtcatg	12	12	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr10:87966375G>A	uc001kdl.1	-	3	367	c.266C>T	c.(265-267)GCC>GTC	p.A89V	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	89	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CGTGACCAAGGCCAAAATCCC	0.592										Multiple Myeloma(13;0.14)			10	46	---	---	---	---	PASS	A	87966375	A	A	87966375	3	1	144	1	0	0	0	0	1	0	0	0	6771	1203	42	3	2819	3	GRID1	10	87966375	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	12818873	87966375	47568372	137	51172										
ALDH18A1	5832	broad.mit.edu	37	chr10	97376254	97376254	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cagttgcacggcctccttgaCtccatggattgagagagcct	11	12	0	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr10:97376254C>G	uc001kkz.2	-	13	1827	c.1585G>C	c.(1585-1587)GTC>CTC	p.V529L	ALDH18A1_uc001kky.2_Missense_Mutation_p.V527L|ALDH18A1_uc010qog.1_Missense_Mutation_p.V418L|ALDH18A1_uc010qoh.1_Missense_Mutation_p.V317L	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	529	Gamma-glutamyl phosphate reductase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)	GCCTCCTTGACTCCATGGATT	0.552													4	11	---	---	---	---	PASS	G	97376254	G	G	97376254	3	3	144	1	0	0	0	0	1	0	0	0	489	565	20	4	826	4	ALDH18A1	10	97376254	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	9409879	97376254	38158493	138	51173										
SORCS1	114815	broad.mit.edu	37	chr10	108924028	108924028	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gagcccgctccagggatagcGctcggtccccgggggccact	15	16	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr10:108924028G>T	uc001kym.2	-	1	265	c.257C>A	c.(256-258)GCG>GAG	p.A86E	SORCS1_uc001kyl.2_Missense_Mutation_p.A86E|SORCS1_uc009xxs.2_Missense_Mutation_p.A86E|SORCS1_uc001kyn.1_Missense_Mutation_p.A86E|SORCS1_uc001kyo.2_Missense_Mutation_p.A86E	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	86	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CAGGGATAGCGCTCGGTCCCC	0.711													9	11	---	---	---	---	PASS	T	108924028	T	T	108924028	3	4	144	1	0	0	0	0	1	0	0	0	14930	1087	38	1	3587	1	SORCS1	10	108924028	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	11547774	108924028	26610719	139	51174										
ATRNL1	26033	broad.mit.edu	37	chr10	116930885	116930885	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttaacatacatagtcagtcaTggagtacaaaaactcctact	5	9	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr10:116930885T>C	uc001lcg.2	+	8	1569	c.1183T>C	c.(1183-1185)TGG>CGG	p.W395R	ATRNL1_uc001lce.2_RNA|ATRNL1_uc001lcf.2_Missense_Mutation_p.W395R|ATRNL1_uc009xyq.2_Silent_p.H365H	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	395	Kelch 2.|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)		TAGTCAGTCATGGAGTACAAA	0.373													84	234	---	---	---	---	PASS	C	116930885	C	C	116930885	3	2	144	1	0	0	0	0	1	0	0	0	1207	1464	51	5	1213	5	ATRNL1	10	116930885	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	8006857	116930885	18603862	140	51175										
MMP21	118856	broad.mit.edu	37	chr10	127464327	127464327	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gaagagactctcgggctgggTgggccagggagcagccagcc	18	11	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr10:127464327T>G	uc001liu.2	-	1	64	c.64A>C	c.(64-66)ACC>CCC	p.T22P		NM_147191	NP_671724	Q8N119	MMP21_HUMAN	matrix metalloproteinase 21 preproprotein	22					proteolysis	extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TCGGGCTGGGTGGGCCAGGGA	0.682													6	33	---	---	---	---	PASS	G	127464327	G	G	127464327	3	3	144	1	0	0	0	0	1	0	0	0	9660	1696	59	5	1673	5	MMP21	10	127464327	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	10533442	127464327	8070420	141	51176										
SYT9	143425	broad.mit.edu	37	chr11	7334800	7334800	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	agcaaggcttgtgggaaactGaacttcattttaaaatatga	9	5	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:7334800G>A	uc001mfe.2	+	3	909	c.672G>A	c.(670-672)CTG>CTA	p.L224L	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_Intron	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	224	Cytoplasmic (Potential).|C2 1.					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		GTGGGAAACTGAACTTCATTT	0.413													28	143	---	---	---	---	PASS	A	7334800	A	A	7334800	2	1	144	1	0	0	0	0	0	0	0	1	15478	1277	45	2		2	SYT9	11	7334800	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08		7334800	127671716	142	51177										
MYBPC3	4607	broad.mit.edu	37	chr11	47361293	47361293	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tatttccagctacaaccacaAtggtgtctggtatgcggcct	9	11	1	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:47361293A>G	uc001nfa.3	-	20	2031	c.1976T>C	c.(1975-1977)ATT>ACT	p.I659T	MYBPC3_uc010rhl.1_RNA	NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	658	Ig-like C2-type 5.				cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		TACAACCACAATGGTGTCTGG	0.552													18	43	---	---	---	---	PASS	G	47361293	G	G	47361293	3	3	144	1	0	0	0	0	1	0	0	0	10013	101	4	5	1904	5	MYBPC3	11	47361293	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	40026493	47361293	87645223	143	51178										
OR4C6	219432	broad.mit.edu	37	chr11	55432897	55432897	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtgattgtagacaccctctcCaagagcactaccatctctct	6	14	3	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:55432897C>G	uc001nht.3	+	3	520	c.255C>G	c.(253-255)TCC>TCG	p.S85S	OR4C6_uc010rik.1_Silent_p.S85S	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						ACACCCTCTCCAAGAGCACTA	0.488													59	204	---	---	---	---	PASS	G	55432897	G	G	55432897	2	3	144	1	0	0	0	0	0	0	0	1	11052	581	21	4		4	OR4C6	11	55432897	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	8071604	55432897	79573619	144	51179										
OR10AG1	282770	broad.mit.edu	37	chr11	55735331	55735331	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccataagagacaacaatcaaCagaaatggcaccgtgataaa	7	9	1	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:55735331C>T	uc010rit.1	-	1	609	c.609G>A	c.(607-609)CTG>CTA	p.L203L		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	203	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					CAACAATCAACAGAAATGGCA	0.423													23	62	---	---	---	---	PASS	T	55735331	T	T	55735331	2	4	144	1	0	0	0	0	0	0	0	1	10897	465	17	3		3	OR10AG1	11	55735331	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	302434	55735331	79271185	145	51180										
TNKS1BP1	85456	broad.mit.edu	37	chr11	57077504	57077504	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cttggctggcataagcacccAgagaatctctcttcccaaat	7	13	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:57077504A>C	uc001njr.2	-	5	2993	c.2681T>G	c.(2680-2682)CTG>CGG	p.L894R	TNKS1BP1_uc001njs.2_Missense_Mutation_p.L894R|TNKS1BP1_uc009ymd.1_Missense_Mutation_p.L345R	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	894	Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				ATAAGCACCCAGAGAATCTCT	0.537													108	315	---	---	---	---	PASS	C	57077504	C	C	57077504	3	2	144	1	0	0	0	0	1	0	0	0	16317	188	7	5	2532	5	TNKS1BP1	11	57077504	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	1342173	57077504	77929012	146	51181										
OR4D9	390199	broad.mit.edu	37	chr11	59283148	59283148	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccctgcatttcgtgccctgcAtctatgtctatgcccggccc	8	17	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:59283148A>T	uc010rkv.1	+	1	763	c.763A>T	c.(763-765)ATC>TTC	p.I255F		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CGTGCCCTGCATCTATGTCTA	0.547													100	347	---	---	---	---	PASS	T	59283148	T	T	59283148	3	4	144	1	0	0	0	0	1	0	0	0	11059	217	8	5	765	5	OR4D9	11	59283148	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	2205644	59283148	75723368	147	51182										
SLC22A9	114571	broad.mit.edu	37	chr11	63176158	63176158	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccactcaaagggcaagagctAtggggatcaatgcaaccttt	10	10	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:63176158A>G	uc001nww.2	+	9	1676	c.1408A>G	c.(1408-1410)ATG>GTG	p.M470V	SLC22A9_uc001nwx.2_Intron	NM_080866	NP_543142	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion/cation	470	Helical; (Potential).				transmembrane transport	integral to membrane				breast(2)|large_intestine(1)	3						GGCAAGAGCTATGGGGATCAA	0.438													37	85	---	---	---	---	PASS	G	63176158	G	G	63176158	3	3	144	1	0	0	0	0	1	0	0	0	14461	449	16	5	1442	5	SLC22A9	11	63176158	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	3893010	63176158	71830358	148	51183										
SNX15	29907	broad.mit.edu	37	chr11	64806067	64806067	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gcgcagcccccagccccaccCatgtggctgagctggcaacg	12	18	0	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:64806067C>G	uc001oci.3	+	10	1341	c.688C>G	c.(688-690)CAT>GAT	p.H230D	SNX15_uc009ypy.2_Missense_Mutation_p.H230D|SNX15_uc001ocj.2_Missense_Mutation_p.H230D|SNX15_uc001ock.2_Intron|SAC3D1_uc010rnv.1_5'Flank|SAC3D1_uc001ocm.2_5'Flank	NM_013306	NP_037438	Q9NRS6	SNX15_HUMAN	sorting nexin 15 isoform A	230					cell communication|intracellular protein transport	cytoplasmic vesicle membrane|cytosol	phosphatidylinositol binding|protein transporter activity			ovary(1)	1						CAGCCCCACCCATGTGGCTGA	0.632													8	34	---	---	---	---	PASS	G	64806067	G	G	64806067	3	3	144	1	0	0	0	0	1	0	0	0	14886	594	21	4	714	4	SNX15	11	64806067	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	1629909	64806067	70200449	149	51184										
GAL3ST3	89792	broad.mit.edu	37	chr11	65812855	65812855	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ggcggctcatcatcttggtgGcctgctgcaggcgctggagg	17	11	3	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:65812855G>T	uc001ogv.2	-	1	192	c.32C>A	c.(31-33)GCC>GAC	p.A11D	GAL3ST3_uc001ogw.2_Missense_Mutation_p.A11D	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	11	Cytoplasmic (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						CATCTTGGTGGCCTGCTGCAG	0.637											OREG0021093	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	46	---	---	---	---	PASS	T	65812855	T	T	65812855	3	4	144	1	0	0	0	0	1	0	0	0	6199	1203	42	3	1271	3	GAL3ST3	11	65812855	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	1006788	65812855	69193661	150	51185										
CHORDC1	26973	broad.mit.edu	37	chr11	89944446	89944446	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aagtgcttgttttagggaggCagatatttttaattccaaat	9	4	0	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:89944446C>A	uc001pdg.2	-	5	780	c.370G>T	c.(370-372)GCC>TCC	p.A124S	CHORDC1_uc009yvz.2_Missense_Mutation_p.A105S	NM_012124	NP_036256	Q9UHD1	CHRD1_HUMAN	cysteine and histidine-rich domain-containing	124	Interaction with HSP90AA1 and HSP90AB1 (By similarity).				chaperone-mediated protein folding|regulation of response to stress|response to stress		Hsp90 protein binding|identical protein binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.00915)				TTTAGGGAGGCAGATATTTTT	0.279													28	196	---	---	---	---	PASS	A	89944446	A	A	89944446	3	1	144	1	0	0	0	0	1	0	0	0	3365	710	25	3	656	3	CHORDC1	11	89944446	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	24131591	89944446	45062070	151	51186										
HTR3B	9177	broad.mit.edu	37	chr11	113780125	113780125	+	Missense_Mutation	SNP	C	A	A													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gagacctgtttacaactggaCcaaggccaccacagtctacc							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:113780125C>A	uc001pok.2	+	2	228	c.161C>A	c.(160-162)ACC>AAC	p.T54N	HTR3B_uc001pol.2_Missense_Mutation_p.T43N	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	54	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		TACAACTGGACCAAGGCCACC	0.448													35	148	---	---	---	---	PASS	A	113780125	A	A	113780125	3	1	144	1	0	0	0	0	1	0	0	0	7445	507	18	3	167	3	HTR3B	11	113780125	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	23835679	113780125	21226391	152	51187	939	2								
HTR3B	9177	broad.mit.edu	37	chr11	113780126	113780126	+	Silent	SNP	C	A	A													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	agacctgtttacaactggacCaaggccaccacagtctacct							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:113780126C>A	uc001pok.2	+	2	229	c.162C>A	c.(160-162)ACC>ACA	p.T54T	HTR3B_uc001pol.2_Silent_p.T43T	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	54	Extracellular (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		ACAACTGGACCAAGGCCACCA	0.443													36	149	---	---	---	---	PASS	A	113780126	A	A	113780126	2	1	144	1	0	0	0	0	0	0	0	1	7445	581	21	3		3	HTR3B	11	113780126	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	1	113780126	21226390	153	51188	939	2								
GRAMD1B	57476	broad.mit.edu	37	chr11	123476080	123476080	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgaagtgaatgacagctcatCcaagagcagcatagagacca	10	9	1	5			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:123476080C>G	uc001pyx.2	+	9	1117	c.788C>G	c.(787-789)TCC>TGC	p.S263C	GRAMD1B_uc001pyw.2_Missense_Mutation_p.S270C|GRAMD1B_uc010rzw.1_Missense_Mutation_p.S223C|GRAMD1B_uc010rzx.1_Missense_Mutation_p.S223C|GRAMD1B_uc009zbe.1_Missense_Mutation_p.S259C|GRAMD1B_uc001pyy.2_5'Flank	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	263						integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		GACAGCTCATCCAAGAGCAGC	0.517													7	80	---	---	---	---	PASS	G	123476080	G	G	123476080	3	3	144	1	0	0	0	0	1	0	0	0	6748	855	30	2	822	2	GRAMD1B	11	123476080	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	9695954	123476080	11530436	154	51189										
OR8B4	283162	broad.mit.edu	37	chr11	124294351	124294351	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccaaacatcagcagaaagcaGacccttggggacatggtgac	11	11	1	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:124294351G>T	uc010sak.1	-	1	417	c.417C>A	c.(415-417)GTC>GTA	p.V139V		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	139	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		GCAGAAAGCAGACCCTTGGGG	0.517													30	104	---	---	---	---	PASS	T	124294351	T	T	124294351	2	4	144	1	0	0	0	0	0	0	0	1	11229	929	33	2		2	OR8B4	11	124294351	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	818271	124294351	10712165	155	51190										
KCNJ5	3762	broad.mit.edu	37	chr11	128786380	128786380	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cgattcacaccagtcctcacCttggaaaagggcttctatga	8	12	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr11:128786380C>T	uc001qet.2	+	3	1328	c.1014C>T	c.(1012-1014)ACC>ACT	p.T338T	KCNJ5_uc009zck.2_Silent_p.T338T|KCNJ5_uc001qew.2_Silent_p.T338T	NM_000890	NP_000881	P48544	IRK5_HUMAN	potassium inwardly-rectifying channel J5	338	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1	all_hematologic(175;0.0641)	Lung NSC(97;0.00038)|all_lung(97;0.000817)|Breast(109;0.00123)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0059)|LUSC - Lung squamous cell carcinoma(976;0.021)|Lung(977;0.0215)	Glibenclamide(DB01016)	CAGTCCTCACCTTGGAAAAGG	0.537													54	165	---	---	---	---	PASS	T	128786380	T	T	128786380	2	4	144	1	0	0	0	0	0	0	0	1	8054	668	24	3		3	KCNJ5	11	128786380	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	4492029	128786380	6220136	156	51191										
LDHB	3945	broad.mit.edu	37	chr12	21796970	21796970	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttctctgcaccagattgagcCgactctccccttcttgctga	7	15	3	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr12:21796970C>G	uc001rfc.2	-	3	338	c.320G>C	c.(319-321)CGG>CCG	p.R107P	LDHB_uc001rfd.2_Missense_Mutation_p.R107P|LDHB_uc001rfe.2_Missense_Mutation_p.R107P	NM_002300	NP_002291	P07195	LDHB_HUMAN	L-lactate dehydrogenase B	107		Substrate.	R -> W (in GUA1; LDHB deficiency; inactive).		glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity			breast(2)|ovary(1)	3					NADH(DB00157)	CAGATTGAGCCGACTCTCCCC	0.403													33	99	---	---	---	---	PASS	G	21796970	G	G	21796970	3	3	144	1	0	0	0	0	1	0	0	0	8701	652	23	4	704	4	LDHB	12	21796970	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08		21796970	112054925	157	51192										
RASSF8	11228	broad.mit.edu	37	chr12	26217646	26217646	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ctttatacaggcagagtctgCcccccttagctaaactgagg	9	12	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr12:26217646C>T	uc001rgx.2	+	3	540	c.319C>T	c.(319-321)CCC>TCC	p.P107S	RASSF8_uc001rgy.2_Missense_Mutation_p.P107S|RASSF8_uc001rgz.2_Missense_Mutation_p.P107S|RASSF8_uc009zjd.1_Missense_Mutation_p.P107S|RASSF8_uc009zje.1_Missense_Mutation_p.P107S	NM_007211	NP_009142	Q8NHQ8	RASF8_HUMAN	Ras association (RalGDS/AF-6) domain family	107					signal transduction						0	Colorectal(261;0.0847)					GCAGAGTCTGCCCCCCTTAGC	0.478													6	226	---	---	---	---	PASS	T	26217646	T	T	26217646	3	4	144	1	0	0	0	0	1	0	0	0	13092	739	26	3	325	3	RASSF8	12	26217646	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	4420676	26217646	107634249	158	51193										
SLC11A2	4891	broad.mit.edu	37	chr12	51386099	51386099	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	agaaccactcgggcaaagcgTgaccactttaggttcaggaa	11	10	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr12:51386099T>C	uc001rxe.3	-	13	1318	c.1221A>G	c.(1219-1221)TCA>TCG	p.S407S	SLC11A2_uc001rxd.3_Silent_p.S256S|SLC11A2_uc001rxc.3_Silent_p.S407S|SLC11A2_uc001rxf.2_RNA|SLC11A2_uc001rxg.1_Silent_p.S20S|SLC11A2_uc010smx.1_Silent_p.S403S|SLC11A2_uc001rxh.1_Silent_p.S407S|SLC11A2_uc001rxj.1_Silent_p.S407S|SLC11A2_uc001rxi.2_Silent_p.S407S|SLC11A2_uc001rxk.1_Silent_p.S436S|SLC11A2_uc010smy.1_Silent_p.S370S	NM_000617	NP_000608	P49281	NRAM2_HUMAN	solute carrier family 11 (proton-coupled	407	Cytoplasmic (Potential).				activation of caspase activity|cellular iron ion homeostasis|cellular response to oxidative stress|detection of oxygen|ferrous iron import|multicellular organismal iron ion homeostasis|response to hypoxia|response to iron ion	apical plasma membrane|basal part of cell|cell surface|cytoplasmic vesicle|early endosome|late endosome|late endosome membrane|lysosomal membrane|lysosome|nucleus|paraferritin complex|perinuclear region of cytoplasm|perinuclear region of cytoplasm|plasma membrane|recycling endosome|trans-Golgi network	cadmium ion transmembrane transporter activity|cadmium ion transmembrane transporter activity|cobalt ion transmembrane transporter activity|copper ion transmembrane transporter activity|ferrous iron transmembrane transporter activity|ferrous iron transmembrane transporter activity|lead ion transmembrane transporter activity|lead ion transmembrane transporter activity|manganese ion transmembrane transporter activity|manganese ion transmembrane transporter activity|nickel ion transmembrane transporter activity|protein binding|solute:hydrogen symporter activity|vanadium ion transmembrane transporter activity|zinc ion transmembrane transporter activity			large_intestine(1)	1						GGGCAAAGCGTGACCACTTTA	0.473													25	101	---	---	---	---	PASS	C	51386099	C	C	51386099	2	2	144	1	0	0	0	0	0	0	0	1	14381	1683	59	5		5	SLC11A2	12	51386099	Silent	SNP	T	TCGA-66-2755-01A-01D-1522-08	25168453	51386099	82465796	159	51194										
KRT71	112802	broad.mit.edu	37	chr12	52946483	52946483	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ctgctctcgctcctgggcacGcactttctggatctcggggt	12	14	3	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr12:52946483G>A	uc001sao.2	-	1	449	c.379C>T	c.(379-381)CGT>TGT	p.R127C		NM_033448	NP_258259	Q3SY84	K2C71_HUMAN	keratin 71	127	Head.						structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.194)		TCCTGGGCACGCACTTTCTGG	0.592													26	123	---	---	---	---	PASS	A	52946483	A	A	52946483	3	1	144	1	0	0	0	0	1	0	0	0	8484	1087	38	1	1228	1	KRT71	12	52946483	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	1560384	52946483	80905412	160	51195										
CALCOCO1	57658	broad.mit.edu	37	chr12	54118511	54118511	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cacacaaatgtgtggtaatcCcgaacacaggcagcctccac	8	14	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr12:54118511C>A	uc001sef.2	-	3	321	c.177G>T	c.(175-177)CGG>CGT	p.R59R	CALCOCO1_uc010som.1_Silent_p.R59R|CALCOCO1_uc010son.1_Intron|CALCOCO1_uc001seh.2_Silent_p.R59R|CALCOCO1_uc009znd.2_Silent_p.R59R|CALCOCO1_uc001seg.2_5'UTR|CALCOCO1_uc010soo.1_Silent_p.R59R	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	59	N-terminal AD (CTNNB1 binding site) (By similarity).				steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						TGTGGTAATCCCGAACACAGG	0.498													7	42	---	---	---	---	PASS	A	54118511	A	A	54118511	2	1	144	1	0	0	0	0	0	0	0	1	2577	610	22	3		3	CALCOCO1	12	54118511	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	1172028	54118511	79733384	161	51196										
GLI1	2735	broad.mit.edu	37	chr12	57864530	57864530	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtccataccccacccactgtGgcagggggaggacagaactt	12	13	0	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr12:57864530G>T	uc001snx.2	+	12	2085	c.2007G>T	c.(2005-2007)GTG>GTT	p.V669V	GLI1_uc009zpq.2_Silent_p.V541V	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	669					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			CACCCACTGTGGCAGGGGGAG	0.612													26	57	---	---	---	---	PASS	T	57864530	T	T	57864530	2	4	144	1	0	0	0	0	0	0	0	1	6437	1335	47	3		3	GLI1	12	57864530	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	3746019	57864530	75987365	162	51197										
MBD6	114785	broad.mit.edu	37	chr12	57921292	57921292	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	atcattcttttttcttagccCtgtgtcctgagtgcccccca	6	14	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr12:57921292C>T	uc001soj.1	+	8	2309	c.2085C>T	c.(2083-2085)CCC>CCT	p.P695P	MBD6_uc001sok.1_Silent_p.P562P|MBD6_uc001sol.1_RNA	NM_052897	NP_443129	Q96DN6	MBD6_HUMAN	methyl-CpG binding domain protein 6	695	Pro-rich.					chromosome|nucleus	chromatin binding|DNA binding			central_nervous_system(3)|ovary(1)	4						TTTCTTAGCCCTGTGTCCTGA	0.353													51	147	---	---	---	---	PASS	T	57921292	T	T	57921292	2	4	144	1	0	0	0	0	0	0	0	1	9348	668	24	3		3	MBD6	12	57921292	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	56762	57921292	75930603	163	51198										
NAV3	89795	broad.mit.edu	37	chr12	78225350	78225350	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gcactactgggtcacagcacTgttcttcaagacctttggaa	9	11	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr12:78225350T>G	uc001syp.2	+	1	282	c.109T>G	c.(109-111)TGT>GGT	p.C37G	NAV3_uc001syo.2_Missense_Mutation_p.C37G	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	37						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GTCACAGCACTGTTCTTCAAG	0.473										HNSCC(70;0.22)			67	227	---	---	---	---	PASS	G	78225350	G	G	78225350	3	3	144	1	0	0	0	0	1	0	0	0	10185	1580	55	5	111	5	NAV3	12	78225350	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	20304058	78225350	55626545	164	51199										
NR1H4	9971	broad.mit.edu	37	chr12	100887129	100887129	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	caaaaatgaatctcattgaaCattcccatttacctaccaca	2	12	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr12:100887129C>A	uc001thq.1	+	4	543	c.28C>A	c.(28-30)CAT>AAT	p.H10N	NR1H4_uc001thp.1_Missense_Mutation_p.H10N|NR1H4_uc010svj.1_RNA|NR1H4_uc001thr.1_Missense_Mutation_p.H10N|NR1H4_uc010svk.1_Missense_Mutation_p.H10N	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	Error:Variant_position_missing_in_Q96RI1_after_alignment					bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						TCTCATTGAACATTCCCATTT	0.289													4	31	---	---	---	---	PASS	A	100887129	A	A	100887129	3	1	144	1	0	0	0	0	1	0	0	0	10619	478	17	3	30	3	NR1H4	12	100887129	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	22661779	100887129	32964766	165	51200										
ASCL4	121549	broad.mit.edu	37	chr12	108169075	108169075	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cctgggcgttccggggacccTgcccggactcccgcggaggg	17	16	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr12:108169075T>C	uc001tmr.2	+	1	914	c.83T>C	c.(82-84)CTG>CCG	p.L28P		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	27					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						CCGGGGACCCTGCCCGGACTC	0.711													30	108	---	---	---	---	PASS	C	108169075	C	C	108169075	3	2	144	1	0	0	0	0	1	0	0	0	1036	1580	55	5	85	5	ASCL4	12	108169075	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	7281946	108169075	25682820	166	51201										
ACACB	32	broad.mit.edu	37	chr12	109696835	109696835	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cagcctacaaaaccgcccagGccgtcaaggacttcaaccgg	9	16	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr12:109696835G>T	uc001tob.2	+	47	6537	c.6418G>T	c.(6418-6420)GCC>TCC	p.A2140S	ACACB_uc001toc.2_Missense_Mutation_p.A2140S|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.A806S	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	2140	Carboxyltransferase.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	AACCGCCCAGGCCGTCAAGGA	0.562													65	280	---	---	---	---	PASS	T	109696835	T	T	109696835	3	4	144	1	0	0	0	0	1	0	0	0	107	1203	42	3	6600	3	ACACB	12	109696835	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	1527760	109696835	24155060	167	51202										
SACS	26278	broad.mit.edu	37	chr13	23914497	23914497	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gattacagagatctcctttcCagaccaaagagcctggataa	8	10	1	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr13:23914497C>G	uc001uon.2	-	10	4107	c.3518G>C	c.(3517-3519)TGG>TCG	p.W1173S	SACS_uc001uoo.2_Missense_Mutation_p.W1026S|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1173					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		ATCTCCTTTCCAGACCAAAGA	0.408													15	81	---	---	---	---	PASS	G	23914497	G	G	23914497	3	3	144	1	0	0	0	0	1	0	0	0	13804	595	21	4	10225	4	SACS	13	23914497	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08		23914497	91255381	168	51203										
SLC7A1	6541	broad.mit.edu	37	chr13	30091895	30091895	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cgtcggaagtactggccatcTggtataccaggttaggctgc	13	10	1	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr13:30091895T>C	uc001uso.2	-	10	1712	c.1325A>G	c.(1324-1326)CAG>CGG	p.Q442R		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	442	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	ACTGGCCATCTGGTATACCAG	0.502													15	135	---	---	---	---	PASS	C	30091895	C	C	30091895	3	2	144	1	0	0	0	0	1	0	0	0	14692	1580	55	5	580	5	SLC7A1	13	30091895	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	6177398	30091895	85077983	169	51204										
FSCB	84075	broad.mit.edu	37	chr14	44975752	44975752	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cttgtccactttttctacagGggggatgttcatcatggtcc	10	10	3	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr14:44975752G>A	uc001wvn.2	-	1	748	c.439C>T	c.(439-441)CCT>TCT	p.P147S		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	147						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		TTTTCTACAGGGGGGATGTTC	0.413													97	276	---	---	---	---	PASS	A	44975752	A	A	44975752	3	1	144	1	0	0	0	0	1	0	0	0	6066	1232	43	3	2042	3	FSCB	14	44975752	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08		44975752	62373788	170	51205										
KIAA0831	22863	broad.mit.edu	37	chr14	55848689	55848689	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ctgcttctcaccaggcccctGggttgttttcttctcctcca	7	16	3	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr14:55848689G>A	uc001xbx.1	-	6	904	c.868C>T	c.(868-870)CAG>TAG	p.Q290*	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbw.1_Nonsense_Mutation_p.Q177*	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	290					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0						CCAGGCCCCTGGGTTGTTTTC	0.373													45	90	---	---	---	---	PASS	A	55848689	A	A	55848689	4	1	144	1	0	0	0	0	0	1	0	0	8195	1357	47	3	630	3	KIAA0831	14	55848689	Nonsense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	10872937	55848689	51500851	171	51206										
SYNE2	23224	broad.mit.edu	37	chr14	64430698	64430698	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	taaaggattcagagaatgatAcctactttaaaaagtataat	6	4	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr14:64430698A>T	uc001xgm.2	+	10	1200	c.970A>T	c.(970-972)ACC>TCC	p.T324S	SYNE2_uc001xgl.2_Missense_Mutation_p.T324S	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	324	Cytoplasmic (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)		AGAGAATGATACCTACTTTAA	0.323													7	23	---	---	---	---	PASS	T	64430698	T	T	64430698	3	4	144	1	0	0	0	0	1	0	0	0	15443	391	14	5	1004	5	SYNE2	14	64430698	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	8582009	64430698	42918842	172	51207										
FAM161B	145483	broad.mit.edu	37	chr14	74409247	74409247	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ggaccacaggattcacccgaGgctggaatctgaagttagtg	13	9	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr14:74409247G>A	uc001xpd.1	-	4	1203	c.1097C>T	c.(1096-1098)CCT>CTT	p.P366L		NM_152445	NP_689658			hypothetical protein LOC145483											ovary(1)	1						ATTCACCCGAGGCTGGAATCT	0.552													41	226	---	---	---	---	PASS	A	74409247	A	A	74409247	3	1	144	1	0	0	0	0	1	0	0	0	5473	1000	35	3	870	3	FAM161B	14	74409247	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	9978549	74409247	32940293	173	51208										
AHNAK2	113146	broad.mit.edu	37	chr14	105412026	105412026	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tccatcttcgggcctttcagGtccagcttggggcccttgat	11	13	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr14:105412026G>A	uc010axc.1	-	7	9882	c.9762C>T	c.(9760-9762)GAC>GAT	p.D3254D	AHNAK2_uc001ypx.2_Silent_p.D3154D	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3254						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)			GGCCTTTCAGGTCCAGCTTGG	0.607													9	139	---	---	---	---	PASS	A	105412026	A	A	105412026	2	1	144	1	0	0	0	0	0	0	0	1	415	1252	44	3		3	AHNAK2	14	105412026	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	31002779	105412026	1937514	174	51209										
AHNAK2	113146	broad.mit.edu	37	chr14	105412521	105412521	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tccgtcttcgggcctttcagGtccagcttggggcccttgac	12	14	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr14:105412521G>A	uc010axc.1	-	7	9387	c.9267C>T	c.(9265-9267)GAC>GAT	p.D3089D	AHNAK2_uc001ypx.2_Silent_p.D2989D	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3089						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)			GGCCTTTCAGGTCCAGCTTGG	0.612													5	68	---	---	---	---	PASS	A	105412521	A	A	105412521	2	1	144	1	0	0	0	0	0	0	0	1	415	1252	44	3		3	AHNAK2	14	105412521	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	495	105412521	1937019	175	51210										
RYR3	6263	broad.mit.edu	37	chr15	33922213	33922213	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tcccagaaactgagaagaacTataacctgcaaatgtcaact	6	10	1	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr15:33922213T>A	uc001zhi.2	+	22	2822	c.2752T>A	c.(2752-2754)TAT>AAT	p.Y918N	RYR3_uc010bar.2_Missense_Mutation_p.Y918N	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	918	4 X approximate repeats.|1.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGAGAAGAACTATAACCTGCA	0.343													11	23	---	---	---	---	PASS	A	33922213	A	A	33922213	3	1	144	1	0	0	0	0	1	0	0	0	13770	1522	53	5	2838	5	RYR3	15	33922213	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08		33922213	68609179	176	51211										
SCG3	29106	broad.mit.edu	37	chr15	51973965	51973965	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtggaagaatggggttcctcGggaccggcacttggattctg	16	8	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr15:51973965G>C	uc002abh.2	+	1	421	c.13G>C	c.(13-15)GGG>CGG	p.G5R	SCG3_uc010ufz.1_5'UTR	NM_013243	NP_037375	Q8WXD2	SCG3_HUMAN	secretogranin III isoform 1 precursor	5					platelet activation|platelet degranulation	extracellular region|stored secretory granule				ovary(1)	1				all cancers(107;0.00488)		GGGGTTCCTCGGGACCGGCAC	0.522													14	56	---	---	---	---	PASS	C	51973965	C	C	51973965	3	2	144	1	0	0	0	0	1	0	0	0	13892	1116	39	4	15	4	SCG3	15	51973965	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	18051752	51973965	50557427	177	51212										
DPP8	54878	broad.mit.edu	37	chr15	65759121	65759121	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	acagtgtggattcttctggtTactatacttacttataaaga	7	6	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr15:65759121T>A	uc002aov.2	-	14	3346	c.1768A>T	c.(1768-1770)AAC>TAC	p.N590Y	DPP8_uc002aow.2_Missense_Mutation_p.N590Y|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.N574Y|DPP8_uc002aoy.2_Missense_Mutation_p.N590Y|DPP8_uc002aoz.2_Missense_Mutation_p.N574Y|DPP8_uc010bhj.2_Missense_Mutation_p.N590Y|DPP8_uc002apa.2_Missense_Mutation_p.N487Y|DPP8_uc010bhi.2_5'UTR|DPP8_uc010bhk.1_Missense_Mutation_p.N159Y	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	590					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						TTCTTCTGGTTACTATACTTA	0.383													27	96	---	---	---	---	PASS	A	65759121	A	A	65759121	3	1	144	1	0	0	0	0	1	0	0	0	4732	1754	61	5	956	5	DPP8	15	65759121	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	13785156	65759121	36772271	178	51213										
UACA	55075	broad.mit.edu	37	chr15	70961109	70961109	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tcattcacttcatttgataaTgagctcttcatgttttcaaa	4	8	6	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr15:70961109T>C	uc002asr.2	-	16	2018	c.1914A>G	c.(1912-1914)TCA>TCG	p.S638S	UACA_uc010uke.1_Silent_p.S529S|UACA_uc002asq.2_Silent_p.S625S|UACA_uc010bin.1_Silent_p.S613S	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	638	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						CATTTGATAATGAGCTCTTCA	0.358													47	164	---	---	---	---	PASS	C	70961109	C	C	70961109	2	2	144	1	0	0	0	0	0	0	0	1	16821	1451	51	5		5	UACA	15	70961109	Silent	SNP	T	TCGA-66-2755-01A-01D-1522-08	5201988	70961109	31570283	179	51214										
AKAP13	11214	broad.mit.edu	37	chr15	86124328	86124328	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	acaagtctcactgctgactcAaggtggggctgcccagagcc	12	13	2	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr15:86124328A>C	uc002blv.1	+	7	3199	c.3029A>C	c.(3028-3030)CAA>CCA	p.Q1010P	AKAP13_uc002blt.1_Missense_Mutation_p.Q1010P|AKAP13_uc002blu.1_Missense_Mutation_p.Q1010P|AKAP13_uc010bne.1_5'Flank	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1010					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CTGCTGACTCAAGGTGGGGCT	0.562													35	109	---	---	---	---	PASS	C	86124328	C	C	86124328	3	2	144	1	0	0	0	0	1	0	0	0	449	130	5	5	3051	5	AKAP13	15	86124328	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	15163219	86124328	16407064	180	51215										
SV2B	9899	broad.mit.edu	37	chr15	91824968	91824968	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cttcccacaggttcacaagaAtgtactttaaacatgtactc	5	11	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr15:91824968A>T	uc002bqv.2	+	9	1775	c.1384A>T	c.(1384-1386)ATG>TTG	p.M462L	SV2B_uc010uqv.1_Missense_Mutation_p.M311L|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	462	Extracellular (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			GTTCACAAGAATGTACTTTAA	0.373													27	159	---	---	---	---	PASS	T	91824968	T	T	91824968	3	4	144	1	0	0	0	0	1	0	0	0	15415	101	4	5	1418	5	SV2B	15	91824968	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	5700640	91824968	10706424	181	51216										
OR4F6	390648	broad.mit.edu	37	chr15	102346591	102346591	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tcttacatctttattttggtGactgttcagaaaaaatcttc	5	7	4	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr15:102346591G>T	uc010utr.1	+	1	669	c.669G>T	c.(667-669)GTG>GTT	p.V223V		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	223	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			TTATTTTGGTGACTGTTCAGA	0.363													71	291	---	---	---	---	PASS	T	102346591	T	T	102346591	2	4	144	1	0	0	0	0	0	0	0	1	11066	1277	45	2		2	OR4F6	15	102346591	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	10521623	102346591	184801	182	51217										
SLC5A11	115584	broad.mit.edu	37	chr16	24902389	24902389	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tccctctggtactggtgcacGgatcaggtacaggacagtgg	14	10	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr16:24902389G>A	uc002dmu.2	+	9	1096	c.864G>A	c.(862-864)ACG>ACA	p.T288T	SLC5A11_uc002dms.2_Silent_p.T224T|SLC5A11_uc010vcd.1_Silent_p.T253T|SLC5A11_uc002dmt.2_Intron|SLC5A11_uc010vce.1_Silent_p.T218T|SLC5A11_uc010bxt.2_Silent_p.T224T	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	288	Helical; (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		ACTGGTGCACGGATCAGGTAC	0.507													46	188	---	---	---	---	PASS	A	24902389	A	A	24902389	2	1	144	1	0	0	0	0	0	0	0	1	14663	1103	39	1		1	SLC5A11	16	24902389	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08		24902389	65452364	183	51218										
ABCC12	94160	broad.mit.edu	37	chr16	48134806	48134806	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtgatgcagctctccttcttGccataggcgtgaatgatgcc	11	11	2	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr16:48134806G>C	uc002efc.1	-	21	3361	c.3015C>G	c.(3013-3015)GGC>GGG	p.G1005G	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1005	ABC transmembrane type-1 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TCTCCTTCTTGCCATAGGCGT	0.612													21	42	---	---	---	---	PASS	C	48134806	C	C	48134806	2	2	144	1	0	0	0	0	0	0	0	1	52	1306	46	4		4	ABCC12	16	48134806	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	23232417	48134806	42219947	184	51219										
KIAA0174	9798	broad.mit.edu	37	chr16	71958710	71958710	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gataagaatatctcttctgcAcagattgttggtgagtagta	10	5	2	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr16:71958710A>T	uc002fbj.1	+	11	1213	c.930A>T	c.(928-930)GCA>GCT	p.A310A	KIAA0174_uc010cgh.1_Silent_p.A310A|KIAA0174_uc002fbk.1_Missense_Mutation_p.H296L|KIAA0174_uc002fbm.1_Silent_p.A297A|KIAA0174_uc002fbl.1_Silent_p.A266A|KIAA0174_uc002fbn.1_Silent_p.A149A|KIAA0174_uc010cgi.1_Silent_p.A68A|KIAA0174_uc010cgj.1_Intron|KIAA0174_uc010vml.1_RNA			P53990	IST1_HUMAN	SubName: Full=cDNA FLJ32696 fis, clone TESTI2000358; SubName: Full=cDNA FLJ77725;	295	Interaction with VTA1.				cell cycle|cell division	cytoplasmic membrane-bounded vesicle|ER-Golgi intermediate compartment	protein binding			ovary(1)	1						TCTCTTCTGCACAGATTGTTG	0.418													26	82	---	---	---	---	PASS	T	71958710	T	T	71958710	2	4	144	1	0	0	0	0	0	0	0	1	8158	159	6	5		5	KIAA0174	16	71958710	Silent	SNP	A	TCGA-66-2755-01A-01D-1522-08	23823904	71958710	18396043	185	51220										
TP53	7157	broad.mit.edu	37	chr17	7577120	7577120	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tcccaggacaggcacaaacaCgcacctcaaagctgttccgt	8	15	1	0	rs28934576	by1000genomes	TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr17:7577120C>G	uc002gim.2	-	8	1012	c.818G>C	c.(817-819)CGT>CCT	p.R273P	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273P|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141P|TP53_uc010cng.1_Missense_Mutation_p.R141P|TP53_uc002gii.1_Missense_Mutation_p.R141P|TP53_uc010cnh.1_Missense_Mutation_p.R273P|TP53_uc010cni.1_Missense_Mutation_p.R273P|TP53_uc002gij.2_Missense_Mutation_p.R273P	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(469)|p.R273C(394)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(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)		GGCACAAACACGCACCTCAAA	0.542	R273H(NCIH1793_LUNG)|R273H(MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PANC1_PANCREAS)|R273H(NCIH508_LARGE_INTESTINE)|R273H(NCIH1975_LUNG)|R273H(U251MG_CENTRAL_NERVOUS_SYSTEM)|R273H(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273H(NCIH2405_LUNG)|R273H(HEC59_ENDOMETRIUM)|R273H(NCIH1155_LUNG)|R273H(HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(EN_ENDOMETRIUM)|R273H(SNB19_CENTRAL_NERVOUS_SYSTEM)|R273H(MDAMB468_BREAST)|R273H(SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW620_LARGE_INTESTINE)|R273H(SUIT2_PANCREAS)|R273H(SW480_LARGE_INTESTINE)|R273H(SKMEL30_SKIN)|R273H(OC314_OVARY)|R273H(HEC6_ENDOMETRIUM)|R273H(HT29_LARGE_INTESTINE)	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)			39	24	---	---	---	---	PASS	G	7577120	G	G	7577120	3	3	144	1	0	0	0	0	1	0	0	0	16378	536	19	4	468	4	TP53	17	7577120	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08		7577120	73618090	186	51221										
C17orf68	80169	broad.mit.edu	37	chr17	8141724	8141724	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	acttacctcacagctcaggaCgccagtgttatctctcacat	6	14	4	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr17:8141724C>T	uc002gkq.3	-	3	480	c.421G>A	c.(421-423)GTC>ATC	p.V141I	C17orf68_uc010cnv.2_RNA	NM_025099	NP_079375	Q2NKJ3	CTC1_HUMAN	alpha accessory factor 132	141					positive regulation of DNA replication|telomere maintenance	Stn1-Ten1 complex	protein binding|single-stranded DNA binding				0						CAGCTCAGGACGCCAGTGTTA	0.488													108	134	---	---	---	---	PASS	T	8141724	T	T	8141724	3	4	144	1	0	0	0	0	1	0	0	0	1876	536	19	1	3316	1	C17orf68	17	8141724	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	564604	8141724	73053486	187	51222										
TNFRSF13B	23495	broad.mit.edu	37	chr17	16855826	16855826	+	Missense_Mutation	SNP	C	A	A													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tttgcaggacatgcaggtacCcagcagaggatcccagtact							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr17:16855826C>A	uc002gqs.1	-	2	146	c.133G>T	c.(133-135)GGT>TGT	p.G45C	TNFRSF13B_uc010vwt.1_Intron|TNFRSF13B_uc002gqt.1_Intron|TNFRSF13B_uc010vwu.1_Missense_Mutation_p.G45C	NM_012452	NP_036584	O14836	TR13B_HUMAN	tumor necrosis factor receptor 13B	45	TNFR-Cys 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding|receptor activity			kidney(2)	2						ATGCAGGTACCCAGCAGAGGA	0.602									IgA_Deficiency_Selective				41	41	---	---	---	---	PASS	A	16855826	A	A	16855826	3	1	144	1	0	0	0	0	1	0	0	0	16284	623	22	3	764	3	TNFRSF13B	17	16855826	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	8714102	16855826	64339384	188	51223	940	2								
TNFRSF13B	23495	broad.mit.edu	37	chr17	16855827	16855827	+	Silent	SNP	C	A	A													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttgcaggacatgcaggtaccCagcagaggatcccagtactg							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr17:16855827C>A	uc002gqs.1	-	2	145	c.132G>T	c.(130-132)CTG>CTT	p.L44L	TNFRSF13B_uc010vwt.1_Intron|TNFRSF13B_uc002gqt.1_Intron|TNFRSF13B_uc010vwu.1_Silent_p.L44L	NM_012452	NP_036584	O14836	TR13B_HUMAN	tumor necrosis factor receptor 13B	44	TNFR-Cys 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding|receptor activity			kidney(2)	2						TGCAGGTACCCAGCAGAGGAT	0.607									IgA_Deficiency_Selective				41	41	---	---	---	---	PASS	A	16855827	A	A	16855827	2	1	144	1	0	0	0	0	0	0	0	1	16284	581	21	3		3	TNFRSF13B	17	16855827	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	1	16855827	64339383	189	51224	940	2								
C17orf66	256957	broad.mit.edu	37	chr17	34186068	34186068	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cttgccctcatccccgacttGagtcctctgtgagggagaca	10	14	2	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr17:34186068G>C	uc002hke.1	-	9	912	c.763C>G	c.(763-765)CAA>GAA	p.Q255E	C17orf66_uc010wck.1_RNA|C17orf66_uc010wcl.1_Missense_Mutation_p.Q215E|C17orf66_uc010wcm.1_Missense_Mutation_p.Q221E	NM_152781	NP_689994	A2RTY3	CQ066_HUMAN	hypothetical protein LOC256957	255							binding			breast(2)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		TCCCCGACTTGAGTCCTCTGT	0.443													55	63	---	---	---	---	PASS	C	34186068	C	C	34186068	3	2	144	1	0	0	0	0	1	0	0	0	1874	1299	45	2	977	2	C17orf66	17	34186068	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	17330241	34186068	47009142	190	51225										
MED24	9862	broad.mit.edu	37	chr17	38192031	38192031	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aatgcctggacacacaggtcCcgagaaaagtcatcaaactg	9	11	2	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr17:38192031C>T	uc002htt.2	-	5	583	c.270G>A	c.(268-270)CGG>CGA	p.R90R	MED24_uc010wes.1_5'Flank|MED24_uc010wet.1_RNA|MED24_uc002hts.2_Silent_p.R115R|MED24_uc002htu.2_Silent_p.R77R|MED24_uc010cwn.2_Silent_p.R77R|MED24_uc010weu.1_Intron|MED24_uc010wev.1_Silent_p.R40R|MED24_uc010wew.1_Silent_p.R19R|MED24_uc010wex.1_Intron|MED24_uc010wez.1_5'Flank|MED24_uc010wfa.1_Silent_p.R40R|MED24_uc010wfb.1_Silent_p.R102R|MED24_uc010wfc.1_Silent_p.R27R	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	90					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)					CACACAGGTCCCGAGAAAAGT	0.532													34	48	---	---	---	---	PASS	T	38192031	T	T	38192031	2	4	144	1	0	0	0	0	0	0	0	1	9442	610	22	3		3	MED24	17	38192031	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	4005963	38192031	43003179	191	51226										
GPR142	350383	broad.mit.edu	37	chr17	72363714	72363714	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cttccctgcaggacatcactGctgtcctgggtacagaagca	10	13	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr17:72363714G>T	uc010wqy.1	+	1	70	c.70G>T	c.(70-72)GCT>TCT	p.A24S	GPR142_uc010wqx.1_5'UTR	NM_181790	NP_861455	Q7Z601	GP142_HUMAN	G protein-coupled receptor 142	24	Extracellular (Potential).					cell junction|cytoplasm|integral to membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GGACATCACTGCTGTCCTGGG	0.493													57	79	---	---	---	---	PASS	T	72363714	T	T	72363714	3	4	144	1	0	0	0	0	1	0	0	0	6650	1319	46	3	72	3	GPR142	17	72363714	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	34171683	72363714	8831496	192	51227										
LRRC30	339291	broad.mit.edu	37	chr18	7231835	7231835	+	Missense_Mutation	SNP	C	A	A													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tcgctttgcctggtcaccagCctggagctgctgaacctcaa							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr18:7231835C>A	uc010wzk.1	+	1	699	c.699C>A	c.(697-699)AGC>AGA	p.S233R		NM_001105581	NP_001099051	A6NM36	LRC30_HUMAN	leucine rich repeat containing 30	233	LRR 8.									ovary(1)|liver(1)	2						TGGTCACCAGCCTGGAGCTGC	0.577													46	92	---	---	---	---	PASS	A	7231835	A	A	7231835	3	1	144	1	0	0	0	0	1	0	0	0	8985	738	26	3	701	3	LRRC30	18	7231835	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08		7231835	70845413	193	51228	941	2								
LRRC30	339291	broad.mit.edu	37	chr18	7231836	7231836	+	Missense_Mutation	SNP	C	A	A													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cgctttgcctggtcaccagcCtggagctgctgaacctcaac							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr18:7231836C>A	uc010wzk.1	+	1	700	c.700C>A	c.(700-702)CTG>ATG	p.L234M		NM_001105581	NP_001099051	A6NM36	LRC30_HUMAN	leucine rich repeat containing 30	234	LRR 8.									ovary(1)|liver(1)	2						GGTCACCAGCCTGGAGCTGCT	0.577													45	93	---	---	---	---	PASS	A	7231836	A	A	7231836	3	1	144	1	0	0	0	0	1	0	0	0	8985	680	24	3	702	3	LRRC30	18	7231836	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	1	7231836	70845412	194	51229	941	2								
RALBP1	10928	broad.mit.edu	37	chr18	9535926	9535926	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	agcagggataggaaggagacGtccatctgagcagcctgcgt	15	9	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr18:9535926G>A	uc002kob.2	+	10	2182	c.1959G>A	c.(1957-1959)ACG>ACA	p.T653T	RALBP1_uc002koc.2_Silent_p.T653T	NM_006788	NP_006779	Q15311	RBP1_HUMAN	ralA binding protein 1	653					chemotaxis|positive regulation of Cdc42 GTPase activity|small GTPase mediated signal transduction|transport	cytosol|membrane	ATPase activity, coupled to movement of substances|Rac GTPase activator activity|Rac GTPase binding|Ral GTPase binding			central_nervous_system(1)	1						GGAAGGAGACGTCCATCTGAG	0.622													9	17	---	---	---	---	PASS	A	9535926	A	A	9535926	2	1	144	1	0	0	0	0	0	0	0	1	13012	1132	40	1		1	RALBP1	18	9535926	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	2304090	9535926	68541322	195	51230										
DCC	1630	broad.mit.edu	37	chr18	50278510	50278510	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ggggaggaaatgtcctcctcGactgctccgcggagtccgac	14	13	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr18:50278510G>T	uc002lfe.1	+	2	765	c.178G>T	c.(178-180)GAC>TAC	p.D60Y	DCC_uc010xdr.1_5'UTR	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	60	Extracellular (Potential).|Ig-like C2-type 1.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TGTCCTCCTCGACTGCTCCGC	0.507													3	87	---	---	---	---	PASS	T	50278510	T	T	50278510	3	4	144	1	0	0	0	0	1	0	0	0	4282	1058	37	2	184	2	DCC	18	50278510	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	40742584	50278510	27798738	196	51231										
SERPINB12	89777	broad.mit.edu	37	chr18	61232707	61232707	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aagagtgtgaagatgatgacGcaaaaaggcctctacagaat	11	6	1	6			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr18:61232707G>C	uc010xen.1	+	6	675	c.675G>C	c.(673-675)ACG>ACC	p.T225T	SERPINB12_uc010xeo.1_Silent_p.T245T	NM_080474	NP_536722	Q96P63	SPB12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	225					negative regulation of protein catabolic process|regulation of proteolysis	cytoplasm	enzyme binding|serine-type endopeptidase inhibitor activity				0						AGATGATGACGCAAAAAGGCC	0.488													47	161	---	---	---	---	PASS	C	61232707	C	C	61232707	2	2	144	1	0	0	0	0	0	0	0	1	14099	1074	38	4		4	SERPINB12	18	61232707	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	10954197	61232707	16844541	197	51232										
TMX3	54495	broad.mit.edu	37	chr18	66344201	66344201	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tcttttctaatacatccttgGgctcctgcactgtaggcact	7	12	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr18:66344201G>A	uc002lkf.2	-	16	1469	c.1334C>T	c.(1333-1335)CCC>CTC	p.P445L	TMX3_uc010xez.1_Missense_Mutation_p.P304L	NM_019022	NP_061895	Q96JJ7	TMX3_HUMAN	thioredoxin domain containing 10 precursor	445	Cytoplasmic (Potential).				cell redox homeostasis|glycerol ether metabolic process	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			skin(1)	1						TACATCCTTGGGCTCCTGCAC	0.363													26	192	---	---	---	---	PASS	A	66344201	A	A	66344201	3	1	144	1	0	0	0	0	1	0	0	0	16265	1232	43	3	34	3	TMX3	18	66344201	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	5111494	66344201	11733047	198	51233										
ZNF407	55628	broad.mit.edu	37	chr18	72345210	72345210	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tgtaatctttattcattgagCaaagaaggaatggagaaaca	9	4	2	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr18:72345210C>A	uc002llw.2	+	1	2292	c.2235C>A	c.(2233-2235)AGC>AGA	p.S745R	ZNF407_uc010xfc.1_Missense_Mutation_p.S745R|ZNF407_uc010dqu.1_Missense_Mutation_p.S745R|ZNF407_uc002llu.2_Missense_Mutation_p.S744R	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	745					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		ATTCATTGAGCAAAGAAGGAA	0.318													12	76	---	---	---	---	PASS	A	72345210	A	A	72345210	3	1	144	1	0	0	0	0	1	0	0	0	17884	709	25	3	2237	3	ZNF407	18	72345210	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	6001009	72345210	5732038	199	51234										
MIER2	54531	broad.mit.edu	37	chr19	326584	326584	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gccaggctctctgtcttcatCagccaggaaacgagctttgg	11	12	4	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:326584C>G	uc002lok.1	-	6	517	c.508G>C	c.(508-510)GAT>CAT	p.D170H		NM_017550	NP_060020	Q8N344	MIER2_HUMAN	mesoderm induction early response 1, family	170					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		all_cancers(10;1.05e-30)|all_epithelial(18;3.04e-19)|Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;2.49e-05)|all_lung(49;4.36e-05)|Breast(49;0.000304)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGTCTTCATCAGCCAGGAAA	0.562													3	152	---	---	---	---	PASS	G	326584	G	G	326584	3	3	144	1	0	0	0	0	1	0	0	0	9581	826	29	2	1165	2	MIER2	19	326584	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08		326584	58802399	200	51235										
C19orf35	374872	broad.mit.edu	37	chr19	2278808	2278808	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtgtgcacagcctccgggctGtgcagatcgcggagggagag	18	10	0	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:2278808G>T	uc002lvn.2	-	3	487	c.387C>A	c.(385-387)CAC>CAA	p.H129Q	SPPL2B_uc010dsw.1_Intron	NM_198532	NP_940934	Q6ZS72	CS035_HUMAN	hypothetical protein LOC374872	129										pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCCGGGCTGTGCAGATCGC	0.701													7	13	---	---	---	---	PASS	T	2278808	T	T	2278808	3	4	144	1	0	0	0	0	1	0	0	0	1920	1368	48	3	1042	3	C19orf35	19	2278808	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	1952224	2278808	56850175	201	51236										
SAFB2	9667	broad.mit.edu	37	chr19	5587258	5587258	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tcgcagcgagtgggacttagTagcggcgggtgaagtggggg	21	6	0	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:5587258T>A	uc002mcd.2	-	21	3070	c.2858A>T	c.(2857-2859)TAC>TTC	p.Y953F		NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	953	Interacts with SAFB1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		TGGGACTTAGTAGCGGCGGGT	0.483													12	57	---	---	---	---	PASS	A	5587258	A	A	5587258	3	1	144	1	0	0	0	0	1	0	0	0	13807	1638	57	5	7	5	SAFB2	19	5587258	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	3308450	5587258	53541725	202	51237										
MUC16	94025	broad.mit.edu	37	chr19	9067655	9067655	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttttcagaagtggtggtcccCacattggttactgctatgtt	10	8	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:9067655C>A	uc002mkp.2	-	3	19995	c.19791G>T	c.(19789-19791)GTG>GTT	p.V6597V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6599	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGGTGGTCCCCACATTGGTTA	0.438													77	253	---	---	---	---	PASS	A	9067655	A	A	9067655	2	1	144	1	0	0	0	0	0	0	0	1	9973	581	21	3		3	MUC16	19	9067655	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	3480397	9067655	50061328	203	51238										
ASNA1	439	broad.mit.edu	37	chr19	12858298	12858298	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	caggagctggccaagtgcaaGattgacacacacaatataat	9	9	0	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:12858298G>T	uc002muv.2	+	6	821	c.807G>T	c.(805-807)AAG>AAT	p.K269N	ASNA1_uc002muw.2_Missense_Mutation_p.K268N	NM_004317	NP_004308	O43681	ASNA_HUMAN	arsA arsenite transporter, ATP-binding, homolog	269					response to arsenic-containing substance	endoplasmic reticulum|nucleolus|soluble fraction	arsenite-transporting ATPase activity|ATP binding|metal ion binding			ovary(2)	2					Adenosine triphosphate(DB00171)	CCAAGTGCAAGATTGACACAC	0.527													14	71	---	---	---	---	PASS	T	12858298	T	T	12858298	3	4	144	1	0	0	0	0	1	0	0	0	1047	933	33	2	829	2	ASNA1	19	12858298	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	3790643	12858298	46270685	204	51239										
GCDH	2639	broad.mit.edu	37	chr19	13004297	13004297	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tcccctcctactaccaccagGatatggctgtgctggggttt	10	13	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:13004297G>A	uc002mvq.2	+	6	412	c.335G>A	c.(334-336)GGA>GAA	p.G112E	GCDH_uc010xms.1_Missense_Mutation_p.G79E|GCDH_uc002mvp.2_Missense_Mutation_p.G112E|GCDH_uc010xmt.1_5'UTR|GCDH_uc010xmu.1_Missense_Mutation_p.G68E	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a	112					lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						CTACCACCAGGATATGGCTGT	0.597													16	67	---	---	---	---	PASS	A	13004297	A	A	13004297	3	1	144	1	0	0	0	0	1	0	0	0	6287	1188	41	2	353	2	GCDH	19	13004297	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	145999	13004297	46124686	205	51240										
CILP2	148113	broad.mit.edu	37	chr19	19656165	19656165	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cccaacccgcaggagttccgGgcctgcttcctcaaggtgaa	11	15	1	1	rs149585848	byFrequency	TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:19656165G>T	uc002nmv.3	+	8	2896	c.2811G>T	c.(2809-2811)CGG>CGT	p.R937R	CILP2_uc002nmw.3_Silent_p.R943R	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	937						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						AGGAGTTCCGGGCCTGCTTCC	0.657													7	23	---	---	---	---	PASS	T	19656165	T	T	19656165	2	4	144	1	0	0	0	0	0	0	0	1	3430	1219	43	3		3	CILP2	19	19656165	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	6651868	19656165	39472818	206	51241										
ZNF536	9745	broad.mit.edu	37	chr19	31039383	31039383	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccatgaaagtccacggagtgGatggtggtgaggagaaaccc	15	8	0	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:31039383G>T	uc002nsu.1	+	4	2995	c.2857G>T	c.(2857-2859)GAT>TAT	p.D953Y	ZNF536_uc010edd.1_Missense_Mutation_p.D953Y	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	953					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CCACGGAGTGGATGGTGGTGA	0.542													73	268	---	---	---	---	PASS	T	31039383	T	T	31039383	3	4	144	1	0	0	0	0	1	0	0	0	17971	1174	41	2	2867	2	ZNF536	19	31039383	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	11383218	31039383	28089600	207	51242										
LRP3	4037	broad.mit.edu	37	chr19	33697590	33697590	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ctatggtcagctcatcgcccAgggcctcattccacccgtgg	10	16	3	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:33697590A>T	uc010edh.2	+	6	1769	c.1676A>T	c.(1675-1677)CAG>CTG	p.Q559L	LRP3_uc010xrp.1_3'UTR|LRP3_uc002nuk.3_Missense_Mutation_p.Q433L	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	559	Cytoplasmic (Potential).				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					CTCATCGCCCAGGGCCTCATT	0.672													33	131	---	---	---	---	PASS	T	33697590	T	T	33697590	3	4	144	1	0	0	0	0	1	0	0	0	8958	188	7	5	1698	5	LRP3	19	33697590	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	2658207	33697590	25431393	208	51243										
LGI4	163175	broad.mit.edu	37	chr19	35616357	35616357	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tggctggaagacgtgggcacCgcgcgagggaagttgctgca	18	9	0	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:35616357C>A	uc002nxx.2	-	9	1948	c.1354G>T	c.(1354-1356)GGT>TGT	p.G452C	LGI4_uc002nxy.1_Missense_Mutation_p.G280C|LGI4_uc002nxz.1_3'UTR	NM_139284	NP_644813	Q8N135	LGI4_HUMAN	leucine-rich repeat LGI family, member 4	452	EAR 4.					extracellular region				pancreas(1)	1	all_lung(56;7.56e-09)|Lung NSC(56;1.1e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.54e-20)|OV - Ovarian serous cystadenocarcinoma(14;1.33e-18)|all cancers(14;4.27e-17)|LUSC - Lung squamous cell carcinoma(66;0.0849)			ACGTGGGCACCGCGCGAGGGA	0.662													4	8	---	---	---	---	PASS	A	35616357	A	A	35616357	3	1	144	1	0	0	0	0	1	0	0	0	8754	652	23	1	263	1	LGI4	19	35616357	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	1918767	35616357	23512626	209	51244										
MAG	4099	broad.mit.edu	37	chr19	35802819	35802819	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tctgacgagtcctgccctgcAgaaagaacgtgacagagagc	12	11	1	5			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:35802819A>G	uc002nyy.1	+	10	1766	c.1617_splice	c.e10-2	p.K539_splice	MAG_uc002nyx.1_Splice_Site_p.K539_splice|MAG_uc010eds.1_Splice_Site_p.K514_splice|MAG_uc002nyz.1_Splice_Site_p.K539_splice	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a						blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			CCTGCCCTGCAGAAAGAACGT	0.597													5	17	---	---	---	---	PASS	G	35802819	G	G	35802819	5	3	144	1	0	0	0	0	0	0	1	0	9162	202	7	5	1645	5	MAG	19	35802819	Splice_Site	SNP	A	TCGA-66-2755-01A-01D-1522-08	186462	35802819	23326164	210	51245										
ZFP30	22835	broad.mit.edu	37	chr19	38125950	38125950	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tctaaatgcctttttacattCcttacatttgtatggtttct	4	8	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:38125950C>T	uc002ogv.1	-	6	2008	c.1492G>A	c.(1492-1494)GAA>AAA	p.E498K	ZFP30_uc002ogw.1_Missense_Mutation_p.E498K|ZFP30_uc002ogx.1_Missense_Mutation_p.E498K|ZFP30_uc010xtt.1_Missense_Mutation_p.E497K	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog	498	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTTTTACATTCCTTACATTTG	0.338													26	120	---	---	---	---	PASS	T	38125950	T	T	38125950	3	4	144	1	0	0	0	0	1	0	0	0	17641	864	30	2	71	2	ZFP30	19	38125950	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	2323131	38125950	21003033	211	51246										
FBXO46	23403	broad.mit.edu	37	chr19	46215710	46215710	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gggggcggagggggcgccggGggagtgtcctcaggcctggc	24	10	1	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:46215710G>T	uc002pcy.2	-	2	1169	c.1044C>A	c.(1042-1044)CCC>CCA	p.P348P	FBXO46_uc002pcz.2_Silent_p.P348P	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	348							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		GGGGCGCCGGGGGAGTGTCCT	0.701													7	10	---	---	---	---	PASS	T	46215710	T	T	46215710	2	4	144	1	0	0	0	0	0	0	0	1	5755	1219	43	3		3	FBXO46	19	46215710	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	8089760	46215710	12913273	212	51247										
PLA2G4C	8605	broad.mit.edu	37	chr19	48607849	48607849	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	catgagtgatgcttaccaagTggatccagagacccctgcga	11	11	0	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:48607849T>C	uc002phx.2	-	4	651	c.253A>G	c.(253-255)ACT>GCT	p.T85A	PLA2G4C_uc002phw.2_Missense_Mutation_p.T20A|PLA2G4C_uc010elr.2_Missense_Mutation_p.T85A|PLA2G4C_uc010xzd.1_Missense_Mutation_p.T95A|PLA2G4C_uc002phy.3_Missense_Mutation_p.T85A	NM_003706	NP_003697	Q9UP65	PA24C_HUMAN	phospholipase A2, group IVC isoform 1 precursor	85	PLA2c.				arachidonic acid metabolic process|glycerophospholipid catabolic process|inflammatory response|intracellular signal transduction|parturition	cytosol|membrane	calcium-independent phospholipase A2 activity|phospholipid binding			ovary(1)|skin(1)	2		all_cancers(25;2.84e-05)|all_lung(116;4.62e-05)|Lung NSC(112;7.61e-05)|all_epithelial(76;0.000192)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;8.09e-05)|all cancers(93;0.000517)|Epithelial(262;0.0135)|GBM - Glioblastoma multiforme(486;0.0717)		GCTTACCAAGTGGATCCAGAG	0.403													41	140	---	---	---	---	PASS	C	48607849	C	C	48607849	3	2	144	1	0	0	0	0	1	0	0	0	12003	1696	59	5	1432	5	PLA2G4C	19	48607849	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	2392139	48607849	10521134	213	51248										
IGLON5	402665	broad.mit.edu	37	chr19	51827045	51827045	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aacacccccgaggagttctcCatcctcatcaccgaggtggg	10	15	3	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:51827045C>A	uc002pwc.2	+	3	288	c.288C>A	c.(286-288)TCC>TCA	p.S96S		NM_001101372	NP_001094842	A6NGN9	IGLO5_HUMAN	IgLON family member 5 precursor	96	Ig-like C2-type 1.					extracellular region					0						AGGAGTTCTCCATCCTCATCA	0.642													7	39	---	---	---	---	PASS	A	51827045	A	A	51827045	2	1	144	1	0	0	0	0	0	0	0	1	7595	581	21	3		3	IGLON5	19	51827045	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	3219196	51827045	7301938	214	51249										
VN1R2	317701	broad.mit.edu	37	chr19	53762509	53762509	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cttgtacaggcacaaacagcAggtacaacacatctgtagga	9	10	1	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:53762509A>C	uc002qbi.2	+	1	965	c.881A>C	c.(880-882)CAG>CCG	p.Q294P		NM_173856	NP_776255	Q8NFZ6	VN1R2_HUMAN	vomeronasal 1 receptor 2	294	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0				GBM - Glioblastoma multiforme(134;0.00301)		CACAAACAGCAGGTACAACAC	0.483													44	211	---	---	---	---	PASS	C	53762509	C	C	53762509	3	2	144	1	0	0	0	0	1	0	0	0	17176	188	7	5	883	5	VN1R2	19	53762509	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	1935464	53762509	5366474	215	51250										
NLRP5	126206	broad.mit.edu	37	chr19	56538777	56538777	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	tccgttcaccctcatacgcaGtctgctgaggaaggtcctgc	10	14	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr19:56538777G>T	uc002qmj.2	+	7	1178	c.1178G>T	c.(1177-1179)AGT>ATT	p.S393I	NLRP5_uc002qmi.2_Missense_Mutation_p.S374I	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	393	NACHT.					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)		CTCATACGCAGTCTGCTGAGG	0.552													13	31	---	---	---	---	PASS	T	56538777	T	T	56538777	3	4	144	1	0	0	0	0	1	0	0	0	10480	1029	36	3	1204	3	NLRP5	19	56538777	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	2776268	56538777	2590206	216	51251										
CHGB	1114	broad.mit.edu	37	chr20	5903744	5903744	+	Missense_Mutation	SNP	G	A	A													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gaggagtcaaacgtcagcatGgccagtttaggggaaaagag							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr20:5903744G>A	uc002wmg.2	+	4	1260	c.954G>A	c.(952-954)ATG>ATA	p.M318I	CHGB_uc010zqz.1_Missense_Mutation_p.M1I	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	318						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						ACGTCAGCATGGCCAGTTTAG	0.542													19	79	---	---	---	---	PASS	A	5903744	A	A	5903744	3	1	144	1	0	0	0	0	1	0	0	0	3339	1348	47	3	968	3	CHGB	20	5903744	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08		5903744	57121776	217	51252	942	2								
CHGB	1114	broad.mit.edu	37	chr20	5903745	5903745	+	Missense_Mutation	SNP	G	T	T													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aggagtcaaacgtcagcatgGccagtttaggggaaaagagg							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr20:5903745G>T	uc002wmg.2	+	4	1261	c.955G>T	c.(955-957)GCC>TCC	p.A319S	CHGB_uc010zqz.1_Missense_Mutation_p.A2S	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	319						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						CGTCAGCATGGCCAGTTTAGG	0.542													19	78	---	---	---	---	PASS	T	5903745	T	T	5903745	3	4	144	1	0	0	0	0	1	0	0	0	3339	1203	42	3	969	3	CHGB	20	5903745	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	1	5903745	57121775	218	51253	942	2								
HAO1	54363	broad.mit.edu	37	chr20	7894954	7894954	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttggtgacttctcggtccttGtagatatacagttgcagcca	10	9	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr20:7894954G>T	uc002wmw.1	-	3	426	c.402C>A	c.(400-402)TAC>TAA	p.Y134*	HAO1_uc010gbu.2_Nonsense_Mutation_p.Y134*	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	134	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						CTCGGTCCTTGTAGATATACA	0.537													21	74	---	---	---	---	PASS	T	7894954	T	T	7894954	4	4	144	1	0	0	0	0	0	1	0	0	6951	1372	48	3	734	3	HAO1	20	7894954	Nonsense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	1991209	7894954	55130566	219	51254										
TM9SF4	9777	broad.mit.edu	37	chr20	30729590	30729590	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	attgctgacaacctgcctgtGgccacccggctggagctcta	11	14	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr20:30729590G>T	uc002wxj.2	+	5	655	c.420G>T	c.(418-420)GTG>GTT	p.V140V	TM9SF4_uc010ztr.1_Silent_p.V66V|TM9SF4_uc010zts.1_Silent_p.V47V|TM9SF4_uc002wxk.2_Silent_p.V123V|TM9SF4_uc010gdz.2_Silent_p.V47V	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	140						integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			ACCTGCCTGTGGCCACCCGGC	0.587													31	154	---	---	---	---	PASS	T	30729590	T	T	30729590	2	4	144	1	0	0	0	0	0	0	0	1	15977	1335	47	3		3	TM9SF4	20	30729590	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	22834636	30729590	32295930	220	51255										
KIAA0406	9675	broad.mit.edu	37	chr20	36640671	36640671	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gcagcttgcttccggtaaacCacagattgatggtaaagttc	10	9	0	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr20:36640671C>G	uc002xhl.2	-	3	1757	c.1548G>C	c.(1546-1548)GTG>GTC	p.V516V	KIAA0406_uc002xhm.2_Silent_p.V516V	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	516							binding				0		Myeloproliferative disorder(115;0.00874)				TCCGGTAAACCACAGATTGAT	0.423													37	107	---	---	---	---	PASS	G	36640671	G	G	36640671	2	3	144	1	0	0	0	0	0	0	0	1	8173	581	21	4		4	KIAA0406	20	36640671	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	5911081	36640671	26384849	221	51256										
PPP1R16B	26051	broad.mit.edu	37	chr20	37531435	37531435	+	Silent	SNP	G	T	T													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gatgcccagggtgccacactGgtgaggagatgggccagtac							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr20:37531435G>T	uc002xje.2	+	6	885	c.696G>T	c.(694-696)CTG>CTT	p.L232L	PPP1R16B_uc010ggc.2_Silent_p.L232L	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	232	ANK 3.				regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GTGCCACACTGGTGAGGAGAT	0.612													18	107	---	---	---	---	PASS	T	37531435	T	T	37531435	2	4	144	1	0	0	0	0	0	0	0	1	12366	1362	47	3		3	PPP1R16B	20	37531435	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	890764	37531435	25494085	222	51257	943	2								
PPP1R16B	26051	broad.mit.edu	37	chr20	37531436	37531436	+	Splice_Site	SNP	G	T	T													0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	atgcccagggtgccacactgGtgaggagatgggccagtacc							TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr20:37531436G>T	uc002xje.2	+	6	885	c.696_splice	c.e6+1	p.L232_splice	PPP1R16B_uc010ggc.2_Splice_Site_p.L232_splice	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor						regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				TGCCACACTGGTGAGGAGATG	0.617													17	105	---	---	---	---	PASS	T	37531436	T	T	37531436	5	4	144	1	0	0	0	0	0	0	1	0	12366	1275	44	3	715	3	PPP1R16B	20	37531436	Splice_Site	SNP	G	TCGA-66-2755-01A-01D-1522-08	1	37531436	25494084	223	51258	943	2								
C21orf91	54149	broad.mit.edu	37	chr21	19165739	19165739	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aagtctgtttaggtcagttgTttatgggtaggtgcgacttc	13	5	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr21:19165739T>A	uc002yko.3	-	5	978	c.887A>T	c.(886-888)AAC>ATC	p.N296I	C21orf91_uc002ykm.2_5'Flank|C21orf91_uc002ykn.2_5'Flank|C21orf91_uc002ykq.3_Missense_Mutation_p.N295I|C21orf91_uc002ykp.3_3'UTR	NM_001100420	NP_001093890	Q9NYK6	EURL_HUMAN	early undifferentiated retina and lens isoform	296										ovary(1)	1				Epithelial(23;8.76e-05)|all cancers(11;0.000422)|OV - Ovarian serous cystadenocarcinoma(11;0.0107)|Lung(58;0.0129)|COAD - Colon adenocarcinoma(22;0.0303)|LUSC - Lung squamous cell carcinoma(23;0.0381)|Colorectal(24;0.0929)		AGGTCAGTTGTTTATGGGTAG	0.453													13	28	---	---	---	---	PASS	A	19165739	A	A	19165739	3	1	144	1	0	0	0	0	1	0	0	0	2134	1725	60	5	10	5	C21orf91	21	19165739	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08		19165739	28964156	224	51259										
RNF160	26046	broad.mit.edu	37	chr21	30357092	30357092	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccgcttcaaatgcatcttttGctgcaaacgcagctggtgtg	10	11	2	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr21:30357092G>T	uc002ymr.2	-	4	648	c.635C>A	c.(634-636)GCA>GAA	p.A212E	RNF160_uc010gll.1_RNA	NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	166							ligase activity|zinc ion binding				0						TGCATCTTTTGCTGCAAACGC	0.398													5	140	---	---	---	---	PASS	T	30357092	T	T	30357092	3	4	144	1	0	0	0	0	1	0	0	0	13455	1319	46	3	4911	3	RNF160	21	30357092	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	11191353	30357092	17772803	225	51260										
KRTAP21-2	337978	broad.mit.edu	37	chr21	32119451	32119451	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gccatagccacaaccatatcCacagccggaactccagccag	7	17	0	0			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr21:32119451C>A	uc011adh.1	-	1	70	c.70G>T	c.(70-72)GGA>TGA	p.G24*		NM_181617	NP_853648	Q3LI59	KR212_HUMAN	keratin associated protein 21-2	24						intermediate filament					0						caaccatatccacagccggaa	0.129													41	61	---	---	---	---	PASS	A	32119451	A	A	32119451	4	1	144	1	0	0	0	0	0	1	0	0	8539	603	21	3	183	3	KRTAP21-2	21	32119451	Nonsense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	1762359	32119451	16010444	226	51261										
CECR2	27443	broad.mit.edu	37	chr22	17978494	17978494	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	attgggtgaagacaattctgGggcactatattggtatttct	11	5	2	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr22:17978494G>T	uc010gqw.1	+	3	458	c.332G>T	c.(331-333)GGG>GTG	p.G111V	CECR2_uc010gqv.1_5'UTR|CECR2_uc002zml.2_5'UTR|CECR2_uc002zmm.1_5'UTR	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	153					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		GACAATTCTGGGGCACTATAT	0.488													25	66	---	---	---	---	PASS	T	17978494	T	T	17978494	3	4	144	1	0	0	0	0	1	0	0	0	3206	1232	43	3	344	3	CECR2	22	17978494	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08		17978494	33326072	227	51262										
SEZ6L	23544	broad.mit.edu	37	chr22	26736444	26736444	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	atcttgaccatctacgatggCgacgaggtcatgccccacat	9	13	3	1	rs141142000		TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr22:26736444C>T	uc003acb.2	+	10	2214	c.2058C>T	c.(2056-2058)GGC>GGT	p.G686G	SEZ6L_uc003acc.2_Silent_p.G686G|SEZ6L_uc011akc.1_Silent_p.G686G|SEZ6L_uc003acd.2_Silent_p.G686G|SEZ6L_uc011akd.1_Silent_p.G686G|SEZ6L_uc003ace.2_Silent_p.G686G|SEZ6L_uc003acf.1_Silent_p.G459G|SEZ6L_uc010gvc.1_Silent_p.G459G	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	686	CUB 3.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						TCTACGATGGCGACGAGGTCA	0.517													80	335	---	---	---	---	PASS	T	26736444	T	T	26736444	2	4	144	1	0	0	0	0	0	0	0	1	14143	755	27	1		1	SEZ6L	22	26736444	Silent	SNP	C	TCGA-66-2755-01A-01D-1522-08	8757950	26736444	24568122	228	51263										
CACNA1I	8911	broad.mit.edu	37	chr22	40078600	40078600	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	cgccggatccagagaacttcCtgtgtgagatggaggagatc	14	9	0	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chr22:40078600C>G	uc003ayc.2	+	35	5764	c.5764C>G	c.(5764-5766)CTG>GTG	p.L1922V	CACNA1I_uc003ayd.2_Missense_Mutation_p.L1887V|CACNA1I_uc003aye.2_Missense_Mutation_p.L1837V|CACNA1I_uc003ayf.2_Missense_Mutation_p.L1802V	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1922	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	AGAGAACTTCCTGTGTGAGAT	0.617													38	61	---	---	---	---	PASS	G	40078600	G	G	40078600	3	3	144	1	0	0	0	0	1	0	0	0	2546	680	24	4	5902	4	CACNA1I	22	40078600	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	13342156	40078600	11225966	229	51264										
MAGEB2	4113	broad.mit.edu	37	chrX	30237233	30237233	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccccaacggccacacttacaCcttcatcgacaaggtagacc	6	17	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chrX:30237233C>A	uc004dbz.2	+	2	639	c.536C>A	c.(535-537)ACC>AAC	p.T179N		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	179	MAGE.						protein binding			ovary(1)	1						CACACTTACACCTTCATCGAC	0.522													18	23	---	---	---	---	PASS	A	30237233	A	A	30237233	3	1	144	1	0	0	0	0	1	0	0	0	9176	507	18	3	538	3	MAGEB2	23	30237233	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08		30237233	125033327	230	51265										
DMD	1756	broad.mit.edu	37	chrX	32481678	32481678	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ttcattgacactgtttagacTgggctgaattgtctgaatat	9	6	2	4			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chrX:32481678T>A	uc004dda.1	-	25	3554	c.3310A>T	c.(3310-3312)AGT>TGT	p.S1104C	DMD_uc004dcz.2_Missense_Mutation_p.S981C|DMD_uc004dcy.1_Missense_Mutation_p.S1100C|DMD_uc004ddb.1_Missense_Mutation_p.S1096C|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1104	Spectrin 7.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding	p.L1104I(1)		ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTGTTTAGACTGGGCTGAATT	0.363													3	10	---	---	---	---	PASS	A	32481678	A	A	32481678	3	1	144	1	0	0	0	0	1	0	0	0	4580	1580	55	5	8210	5	DMD	23	32481678	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	2244445	32481678	122788882	231	51266										
FAM47A	158724	broad.mit.edu	37	chrX	34148939	34148939	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	agtggagactggacctccgaCgtgtcttgggatgttccggg	16	9	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chrX:34148939C>A	uc004ddg.2	-	1	1490	c.1457G>T	c.(1456-1458)CGT>CTT	p.R486L		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	486										ovary(4)|central_nervous_system(1)	5						GGACCTCCGACGTGTCTTGGG	0.637													24	51	---	---	---	---	PASS	A	34148939	A	A	34148939	3	1	144	1	0	0	0	0	1	0	0	0	5569	536	19	1	922	1	FAM47A	23	34148939	Missense_Mutation	SNP	C	TCGA-66-2755-01A-01D-1522-08	1667261	34148939	121121621	232	51267										
CCNB3	85417	broad.mit.edu	37	chrX	50051889	50051889	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aagatgtgtgcaagtcagcgGaagcagtcctgccaggaaga	14	8	1	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chrX:50051889G>C	uc004dox.3	+	6	1018	c.720G>C	c.(718-720)CGG>CGC	p.R240R	CCNB3_uc004doy.2_Silent_p.R240R|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	240					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					CAAGTCAGCGGAAGCAGTCCT	0.418													29	40	---	---	---	---	PASS	C	50051889	C	C	50051889	2	2	144	1	0	0	0	0	0	0	0	1	2914	1161	41	2		2	CCNB3	23	50051889	Silent	SNP	G	TCGA-66-2755-01A-01D-1522-08	15902950	50051889	105218671	233	51268										
KDM5C	8242	broad.mit.edu	37	chrX	53246997	53246997	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	ccacaaggttggctccagacTggtacatttcatagggataa	10	9	1	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chrX:53246997T>A	uc004drz.2	-	4	1036	c.503A>T	c.(502-504)CAG>CTG	p.Q168L	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.Q101L|KDM5C_uc004dsa.2_Missense_Mutation_p.Q168L	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	168	ARID.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						GGCTCCAGACTGGTACATTTC	0.502			N|F|S		clear cell renal carcinoma								24	30	---	---	---	---	PASS	A	53246997	A	A	53246997	3	1	144	1	0	0	0	0	1	0	0	0	8135	1580	55	5	4369	5	KDM5C	23	53246997	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	3195108	53246997	102023563	234	51269										
ACRC	93953	broad.mit.edu	37	chrX	70832780	70832780	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	caaatgcaaggggtctctggTcatggtgccattaactcaga	11	9	3	1			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chrX:70832780T>G	uc004eae.2	+	13	2525	c.2024T>G	c.(2023-2025)GTC>GGC	p.V675G	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	675						nucleus				ovary(3)	3	Renal(35;0.156)					GGGTCTCTGGTCATGGTGCCA	0.473													26	30	---	---	---	---	PASS	G	70832780	G	G	70832780	3	3	144	1	0	0	0	0	1	0	0	0	171	1667	58	5	2070	5	ACRC	23	70832780	Missense_Mutation	SNP	T	TCGA-66-2755-01A-01D-1522-08	17585783	70832780	84437780	235	51270										
FAM133A	286499	broad.mit.edu	37	chrX	92964597	92964597	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	aggttcaaaagcattagctgAatttgaagaaaaaatgaatg	9	3	1	4			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chrX:92964597A>T	uc004efr.1	+	4	492	c.179A>T	c.(178-180)GAA>GTA	p.E60V		NM_173698	NP_775969	Q8N9E0	F133A_HUMAN	hypothetical protein LOC286499	60	Lys-rich.										0						GCATTAGCTGAATTTGAAGAA	0.303													25	26	---	---	---	---	PASS	T	92964597	T	T	92964597	3	4	144	1	0	0	0	0	1	0	0	0	5443	246	9	5	181	5	FAM133A	23	92964597	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	22131817	92964597	62305963	236	51271										
SERPINA7	6906	broad.mit.edu	37	chrX	105280897	105280897	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	gtgaacctccggtacagattGaatgcaaagtcagcattaat	9	8	1	3			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chrX:105280897G>C	uc004eme.1	-	1	169	c.153C>G	c.(151-153)TTC>TTG	p.F51L	SERPINA7_uc010npd.2_Missense_Mutation_p.F51L|SERPINA7_uc010npe.1_Missense_Mutation_p.F51L	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	51					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	GGTACAGATTGAATGCAAAGT	0.468													81	118	---	---	---	---	PASS	C	105280897	C	C	105280897	3	2	144	1	0	0	0	0	1	0	0	0	14094	1281	45	2	1110	2	SERPINA7	23	105280897	Missense_Mutation	SNP	G	TCGA-66-2755-01A-01D-1522-08	12316300	105280897	49989663	237	51272										
ALG13	79868	broad.mit.edu	37	chrX	110979954	110979954	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0526315789473684	12	0.601911962246907	1.01027162748231	1.35864115420035	0.804093744322655	1	1	0	acttacagatgatgggaaatAttgcagcagttgcagcttcc	10	8	0	2			TCGA-66-2755-01A-01D-1522-08	TCGA-66-2755-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	177d64a9-65dc-4aa1-8774-bd8208e40f04	4b5f3ccc-2a5b-4e9a-96ab-08f7224ab332	g.chrX:110979954A>G	uc011msy.1	+	23	2576	c.2542A>G	c.(2542-2544)ATT>GTT	p.I848V	ALG13_uc011msx.1_Missense_Mutation_p.I744V|ALG13_uc011msz.1_Missense_Mutation_p.I770V|ALG13_uc011mta.1_Missense_Mutation_p.I744V|ALG13_uc011mtb.1_Missense_Mutation_p.I744V			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	848					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						GATGGGAAATATTGCAGCAGT	0.383													76	102	---	---	---	---	PASS	G	110979954	G	G	110979954	3	3	144	1	0	0	0	0	1	0	0	0	515	449	16	5	2774	5	ALG13	23	110979954	Missense_Mutation	SNP	A	TCGA-66-2755-01A-01D-1522-08	5699057	110979954	44290606	238	51273										
PRKCZ	5590	broad.mit.edu	37	chr1	2116079	2116079	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agatcacagacgactacggtCtggacaactttgacacacag	9	11	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:2116079C>A	uc001aiq.2	+	17	1794	c.1633C>A	c.(1633-1635)CTG>ATG	p.L545M	PRKCZ_uc001air.2_Missense_Mutation_p.L362M|PRKCZ_uc010nyw.1_Missense_Mutation_p.L441M|PRKCZ_uc001ais.2_Missense_Mutation_p.L362M|PRKCZ_uc009vla.2_Missense_Mutation_p.L369M|PRKCZ_uc010nyx.1_RNA|PRKCZ_uc001ait.2_Missense_Mutation_p.L393M|uc009vlc.1_5'Flank|C1orf86_uc001aiv.1_RNA|C1orf86_uc001aiw.1_RNA|C1orf86_uc001aix.1_3'UTR	NM_002744	NP_002735	Q05513	KPCZ_HUMAN	protein kinase C, zeta isoform 1	545	AGC-kinase C-terminal.				anti-apoptosis|intracellular signal transduction|negative regulation of insulin receptor signaling pathway|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein complex assembly|peptidyl-serine phosphorylation|platelet activation	endosome	ATP binding|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(2)	6	all_cancers(77;0.000177)|all_epithelial(69;6.41e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;1.14e-19)|all_lung(118;1.22e-08)|Lung NSC(185;1.24e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;2.96e-37)|OV - Ovarian serous cystadenocarcinoma(86;3.3e-23)|GBM - Glioblastoma multiforme(42;2.85e-08)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.00294)|BRCA - Breast invasive adenocarcinoma(365;0.00493)|STAD - Stomach adenocarcinoma(132;0.00669)|KIRC - Kidney renal clear cell carcinoma(229;0.0411)|Lung(427;0.213)		CGACTACGGTCTGGACAACTT	0.607													16	14	---	---	---	---	PASS	A	2116079	A	A	2116079	3	1	145	1	0	0	0	0	1	0	0	0	12517	912	32	2	1699	2	PRKCZ	1	2116079	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08		2116079	247134542	1	51274										
ACTRT2	140625	broad.mit.edu	37	chr1	2939247	2939247	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acacccccatcaagatcacgGctccccccgaccggtggttc	8	19	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:2939247G>C	uc001ajz.2	+	1	1202	c.997G>C	c.(997-999)GCT>CCT	p.A333P		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	333						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		CAAGATCACGGCTCCCCCCGA	0.617													23	48	---	---	---	---	PASS	C	2939247	C	C	2939247	3	2	145	1	0	0	0	0	1	0	0	0	219	1203	42	4	999	4	ACTRT2	1	2939247	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	823168	2939247	246311374	2	51275										
CCDC27	148870	broad.mit.edu	37	chr1	3679954	3679954	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cgtttgaggaggagctgctgGcccagctggaggagtacgag	18	8	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:3679954G>A	uc001akv.2	+	7	1318	c.1237G>A	c.(1237-1239)GCC>ACC	p.A413T		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	413	Glu-rich.									skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		GGAGCTGCTGGCCCAGCTGGA	0.488													15	43	---	---	---	---	PASS	A	3679954	A	A	3679954	3	1	145	1	0	0	0	0	1	0	0	0	2801	1203	42	3	1263	3	CCDC27	1	3679954	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	740707	3679954	245570667	3	51276										
CHD5	26038	broad.mit.edu	37	chr1	6206386	6206386	+	Frame_Shift_Del	DEL	C	-	-													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcttcctcttctcgctcttgCcgtcttcatccccagagccg							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:6206386delC	uc001amb.1	-	11	1788	c.1688delG	c.(1687-1689)GGCfs	p.G563fs	CHD5_uc001ama.1_5'Flank|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	563					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		CTCGCTCTTGCCGTCTTCATC	0.542													71	76	---	---	---	---		-	6206386	-	-	6206386	7	5	145	1	0	1	0	1	0	0	0	0	3328	739	26	0	4300	0	CHD5	1	6206386	Frame_Shift_Del	DEL	C	TCGA-66-2756-01A-01D-1522-08	2526432	6206386	243044235	4	51277										
GPR153	387509	broad.mit.edu	37	chr1	6314950	6314950	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cactgcactgccaggcagccGccgctcatcactcatggtgc	10	17	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:6314950G>A	uc001amp.1	-	2	276	c.16C>T	c.(16-18)CGG>TGG	p.R6W		NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	6	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		CCAGGCAGCCGCCGCTCATCA	0.662													10	8	---	---	---	---	PASS	A	6314950	A	A	6314950	3	1	145	1	0	0	0	0	1	0	0	0	6659	1086	38	1	1833	1	GPR153	1	6314950	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	108564	6314950	242935671	5	51278										
CAMTA1	23261	broad.mit.edu	37	chr1	7725091	7725091	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccctgctgtagcccccagcaGggtagcctgcagctgagcag	13	15	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:7725091G>C	uc001aoi.2	+	9	2691	c.2484G>C	c.(2482-2484)CAG>CAC	p.Q828H		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	828					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		GCCCCCAGCAGGGTAGCCTGC	0.711													8	96	---	---	---	---	PASS	C	7725091	C	C	7725091	3	2	145	1	0	0	0	0	1	0	0	0	2613	991	35	4	2518	4	CAMTA1	1	7725091	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1410141	7725091	241525530	6	51279										
H6PD	9563	broad.mit.edu	37	chr1	9305264	9305264	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tctcctgccccaaggacatgGcacccagtcactgtgcagag	10	15	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:9305264G>T	uc001apt.2	+	2	544	c.271G>T	c.(271-273)GCA>TCA	p.A91S		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	91	Glucose 1-dehydrogenase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	CAAGGACATGGCACCCAGTCA	0.577													13	49	---	---	---	---	PASS	T	9305264	T	T	9305264	3	4	145	1	0	0	0	0	1	0	0	0	6936	1203	42	3	273	3	H6PD	1	9305264	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1580173	9305264	239945357	7	51280										
CROCC	9696	broad.mit.edu	37	chr1	17264204	17264204	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggagaaggatcaggtcaacaAggacctcactgagaagcttg	13	8	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:17264204A>C	uc001azt.2	+	10	1331	c.1262A>C	c.(1261-1263)AAG>ACG	p.K421T	CROCC_uc009voy.1_Missense_Mutation_p.K124T|CROCC_uc009voz.1_Missense_Mutation_p.K184T|CROCC_uc001azu.2_5'Flank	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	421	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		CAGGTCAACAAGGACCTCACT	0.582													7	57	---	---	---	---	PASS	C	17264204	C	C	17264204	3	2	145	1	0	0	0	0	1	0	0	0	3893	72	3	5	1300	5	CROCC	1	17264204	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	7958940	17264204	231986417	8	51281										
PADI1	29943	broad.mit.edu	37	chr1	17531716	17531716	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gggagccaggtgacaggatgGccccaaagagagttgtgcag	17	8	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:17531716G>T	uc001bah.1	+	1	96	c.4G>T	c.(4-6)GCC>TCC	p.A2S		NM_013358	NP_037490	Q9ULC6	PADI1_HUMAN	peptidylarginine deiminase type I	2					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity				0		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00522)|BRCA - Breast invasive adenocarcinoma(304;1.3e-05)|COAD - Colon adenocarcinoma(227;1.31e-05)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(196;0.0069)|READ - Rectum adenocarcinoma(331;0.0681)|Lung(427;0.197)	L-Citrulline(DB00155)	TGACAGGATGGCCCCAAAGAG	0.587													6	25	---	---	---	---	PASS	T	17531716	T	T	17531716	3	4	145	1	0	0	0	0	1	0	0	0	11377	1203	42	3	6	3	PADI1	1	17531716	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	267512	17531716	231718905	9	51282										
PAX7	5081	broad.mit.edu	37	chr1	19062357	19062357	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccgtggccggctatcagtacGgccagtacggccagagtgag	15	12	1	2	rs140323790	by1000genomes	TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:19062357G>T	uc001bay.2	+	8	1985	c.1387G>T	c.(1387-1389)GGC>TGC	p.G463C	PAX7_uc001baz.2_Missense_Mutation_p.G461C|PAX7_uc010oct.1_Missense_Mutation_p.G463C	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	463					anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		CTATCAGTACGGCCAGTACGG	0.642			T	FOXO1A	alveolar rhabdomyosarcoma								13	36	---	---	---	---	PASS	T	19062357	T	T	19062357	3	4	145	1	0	0	0	0	1	0	0	0	11484	1116	39	1	1417	1	PAX7	1	19062357	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1530641	19062357	230188264	10	51283										
C1QB	713	broad.mit.edu	37	chr1	22987627	22987627	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtgcccggtctctactacttCacctaccacgccagctctcg	7	18	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:22987627C>T	uc001bgd.2	+	3	642	c.510C>T	c.(508-510)TTC>TTT	p.F170F		NM_000491	NP_000482	P02746	C1QB_HUMAN	complement component 1, q subcomponent, B chain	170	C1q.				complement activation, classical pathway|innate immune response	collagen|complement component C1 complex				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.06e-27)|Colorectal(126;1.58e-07)|GBM - Glioblastoma multiforme(114;6.72e-06)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000551)|KIRC - Kidney renal clear cell carcinoma(1967;0.0027)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TCTACTACTTCACCTACCACG	0.562													11	39	---	---	---	---	PASS	T	22987627	T	T	22987627	2	4	145	1	0	0	0	0	0	0	0	1	1955	825	29	2		2	C1QB	1	22987627	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	3925270	22987627	226262994	11	51284										
ARID1A	8289	broad.mit.edu	37	chr1	27106961	27106961	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cattgcagtgcagaagggcaGtatcggcaacctcctgggct	13	11	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:27106961G>T	uc001bmv.1	+	20	6945	c.6572G>T	c.(6571-6573)AGT>ATT	p.S2191I	ARID1A_uc001bmu.1_Missense_Mutation_p.S1974I|ARID1A_uc001bmx.1_Missense_Mutation_p.S1037I|ARID1A_uc009vsm.1_Missense_Mutation_p.S519I|ARID1A_uc009vsn.1_Missense_Mutation_p.S433I	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2191					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)		CAGAAGGGCAGTATCGGCAAC	0.627			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								48	38	---	---	---	---	PASS	T	27106961	T	T	27106961	3	4	145	1	0	0	0	0	1	0	0	0	913	1029	36	3	6650	3	ARID1A	1	27106961	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4119334	27106961	222143660	12	51285										
PTPRU	10076	broad.mit.edu	37	chr1	29587223	29587223	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcattggcgacgggccgatcGtgcgcaaggagattgagtac	15	9	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:29587223G>T	uc001bru.2	+	7	1062	c.952G>T	c.(952-954)GTG>TTG	p.V318L	PTPRU_uc001brv.2_Missense_Mutation_p.V318L|PTPRU_uc001brw.2_Missense_Mutation_p.V318L|PTPRU_uc009vtq.2_Missense_Mutation_p.V318L|PTPRU_uc009vtr.2_Missense_Mutation_p.V318L	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	318	Fibronectin type-III 1.|Extracellular (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		CGGGCCGATCGTGCGCAAGGA	0.662													15	53	---	---	---	---	PASS	T	29587223	T	T	29587223	3	4	145	1	0	0	0	0	1	0	0	0	12813	1145	40	1	978	1	PTPRU	1	29587223	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2480262	29587223	219663398	13	51286										
DCDC2B	149069	broad.mit.edu	37	chr1	32674705	32674705	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aggatacactatggcaggtgGcagtccagcagccaagaggg	15	9	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:32674705G>A	uc001bun.2	+	1	11	c.11G>A	c.(10-12)GGC>GAC	p.G4D		NM_001099434	NP_001092904	A2VCK2	DCD2B_HUMAN	doublecortin domain containing 2B	4					intracellular signal transduction						0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				ATGGCAGGTGGCAGTCCAGCA	0.587													13	42	---	---	---	---	PASS	A	32674705	A	A	32674705	3	1	145	1	0	0	0	0	1	0	0	0	4286	1203	42	3	13	3	DCDC2B	1	32674705	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	3087482	32674705	216575916	14	51287										
FAM167B	84734	broad.mit.edu	37	chr1	32713219	32713219	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agccaaacctggaccaggggGacctggggacatctgtggtt	15	10	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:32713219G>T	uc001buw.2	+	1	402	c.197G>T	c.(196-198)GGA>GTA	p.G66V		NM_032648	NP_116037	Q9BTA0	F167B_HUMAN	hypothetical protein LOC84734	66										ovary(1)	1						GGACCAGGGGGACCTGGGGAC	0.657													33	65	---	---	---	---	PASS	T	32713219	T	T	32713219	3	4	145	1	0	0	0	0	1	0	0	0	5484	1174	41	2	199	2	FAM167B	1	32713219	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	38514	32713219	216537402	15	51288										
MACF1	23499	broad.mit.edu	37	chr1	39924766	39924766	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttttccttttagggaaatccCtaagtcagccaacccctcct	5	14	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:39924766C>G	uc010oiu.1	+	56	16665	c.16534C>G	c.(16534-16536)CTA>GTA	p.L5512V	MACF1_uc010ois.1_Missense_Mutation_p.L5010V|MACF1_uc001cde.1_5'Flank|MACF1_uc001cdf.1_5'Flank	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	6968					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)			AGGGAAATCCCTAAGTCAGCC	0.423													23	131	---	---	---	---	PASS	G	39924766	G	G	39924766	3	3	145	1	0	0	0	0	1	0	0	0	9144	680	24	4	21525	4	MACF1	1	39924766	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	7211547	39924766	209325855	16	51289										
PRKAA2	5563	broad.mit.edu	37	chr1	57157066	57157066	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttttttaattaacaaaaaaGataccaggtgatcagcactc	5	7	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:57157066G>A	uc001cyk.3	+	3	308	c.237_splice	c.e3-1	p.L79_splice		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic						carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						TAACAAAAAAGATACCAGGTG	0.303													19	65	---	---	---	---	PASS	A	57157066	A	A	57157066	5	1	145	1	0	0	0	0	0	0	1	0	12494	956	33	2	246	2	PRKAA2	1	57157066	Splice_Site	SNP	G	TCGA-66-2756-01A-01D-1522-08	17232300	57157066	192093555	17	51290										
DAB1	1600	broad.mit.edu	37	chr1	57476449	57476449	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggatcactgttggatgaggcCtgtgatccatcaggctagaa	13	8	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:57476449C>T	uc001cys.1	-	16	2261	c.1587G>A	c.(1585-1587)CAG>CAA	p.Q529Q	DAB1_uc001cyt.1_Silent_p.Q527Q|DAB1_uc001cyq.1_Silent_p.Q527Q|DAB1_uc001cyr.1_Silent_p.Q443Q|DAB1_uc009vzw.1_Silent_p.Q511Q|DAB1_uc009vzx.1_Silent_p.Q529Q	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	562					cell differentiation|nervous system development					skin(2)|ovary(1)	3						TGGATGAGGCCTGTGATCCAT	0.443													33	94	---	---	---	---	PASS	T	57476449	T	T	57476449	2	4	145	1	0	0	0	0	0	0	0	1	4217	680	24	3		3	DAB1	1	57476449	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	319383	57476449	191774172	18	51291										
LEPR	3953	broad.mit.edu	37	chr1	66036187	66036187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtgataactgcgtttaacttGtcatatccaattactccttg	6	9	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:66036187G>T	uc001dci.2	+	4	274	c.72G>T	c.(70-72)TTG>TTT	p.L24F	LEPR_uc001dcg.2_Missense_Mutation_p.L24F|LEPR_uc001dch.2_Missense_Mutation_p.L24F|LEPR_uc009waq.2_Missense_Mutation_p.L24F|LEPR_uc001dcj.2_Missense_Mutation_p.L24F|LEPR_uc001dck.2_Missense_Mutation_p.L24F	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	24	Extracellular (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)		CGTTTAACTTGTCATATCCAA	0.323													58	69	---	---	---	---	PASS	T	66036187	T	T	66036187	3	4	145	1	0	0	0	0	1	0	0	0	8728	1368	48	3	78	3	LEPR	1	66036187	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	8559738	66036187	183214434	19	51292										
LRRC7	57554	broad.mit.edu	37	chr1	70486774	70486774	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctgttgcctttgaatttgaaGacaaaaaagaagatgacgaa	9	5	0	6			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:70486774G>C	uc001dep.2	+	14	1423	c.1393G>C	c.(1393-1395)GAC>CAC	p.D465H	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	465						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TGAATTTGAAGACAAAAAAGA	0.388													13	57	---	---	---	---	PASS	C	70486774	C	C	70486774	3	2	145	1	0	0	0	0	1	0	0	0	9020	942	33	2	1447	2	LRRC7	1	70486774	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4450587	70486774	178763847	20	51293										
IFI44	10561	broad.mit.edu	37	chr1	79121152	79121152	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaggcggcctgtgcagggatGacatattctatatcttgaac	11	8	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:79121152G>A	uc001dip.3	+	5	920	c.796G>A	c.(796-798)GAC>AAC	p.D266N	IFI44_uc010orr.1_Missense_Mutation_p.D266N|IFI44_uc010ors.1_5'UTR	NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	266					response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2						GTGCAGGGATGACATATTCTA	0.383													19	187	---	---	---	---	PASS	A	79121152	A	A	79121152	3	1	145	1	0	0	0	0	1	0	0	0	7517	1290	45	2	810	2	IFI44	1	79121152	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	8634378	79121152	170129469	21	51294										
COL24A1	255631	broad.mit.edu	37	chr1	86591544	86591544	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgagtgccattgctcatcatGaacactgtagttgaaaactg	9	8	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:86591544G>A	uc001dlj.2	-	3	517	c.475C>T	c.(475-477)CAT>TAT	p.H159Y	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.H159Y	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	159	TSP N-terminal.|Laminin G-like.				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)		TGCTCATCATGAACACTGTAG	0.343													19	43	---	---	---	---	PASS	A	86591544	A	A	86591544	3	1	145	1	0	0	0	0	1	0	0	0	3683	1290	45	2	4901	2	COL24A1	1	86591544	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	7470392	86591544	162659077	22	51295										
TGFBR3	7049	broad.mit.edu	37	chr1	92149357	92149357	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgccgatgctgtgggcagcaCtgctgttttccgaggctggc	15	11	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:92149357C>T	uc001doh.2	-	17	2961	c.2495G>A	c.(2494-2496)AGT>AAT	p.S832N	TGFBR3_uc009wde.2_Missense_Mutation_p.S527N|TGFBR3_uc010osy.1_Missense_Mutation_p.S790N|TGFBR3_uc001doi.2_Missense_Mutation_p.S831N|TGFBR3_uc001doj.2_Missense_Mutation_p.S831N	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	832	Cytoplasmic (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		GTGGGCAGCACTGCTGTTTTC	0.433													8	8	---	---	---	---	PASS	T	92149357	T	T	92149357	3	4	145	1	0	0	0	0	1	0	0	0	15820	565	20	3	64	3	TGFBR3	1	92149357	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	5557813	92149357	157101264	23	51296										
EVI5	7813	broad.mit.edu	37	chr1	92979246	92979246	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gaatacgactctcttcttctCgggggccgctccttttgaac	9	13	3	1	rs138799860		TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:92979246C>A	uc001dox.2	-	18	2410	c.2400G>T	c.(2398-2400)CCG>CCT	p.P800P	EVI5_uc010otf.1_Silent_p.P811P	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	800	Targeting to the centrosomes.|Interaction with AURKB and INCENP.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		CTCTTCTTCTCGGGGGCCGCT	0.483													60	122	---	---	---	---	PASS	A	92979246	A	A	92979246	2	1	145	1	0	0	0	0	0	0	0	1	5289	871	31	2		2	EVI5	1	92979246	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	829889	92979246	156271375	24	51297										
COL11A1	1301	broad.mit.edu	37	chr1	103388930	103388930	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	attttcacctttttcaccagGtgggcctggcagaccctaag	9	12	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:103388930G>C	uc001dul.2	-	47	3934	c.3616C>G	c.(3616-3618)CCT>GCT	p.P1206A	COL11A1_uc001duk.2_Missense_Mutation_p.P402A|COL11A1_uc001dum.2_Missense_Mutation_p.P1218A|COL11A1_uc001dun.2_Missense_Mutation_p.P1167A|COL11A1_uc009weh.2_Missense_Mutation_p.P1090A	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1206	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TTTTCACCAGGTGGGCCTGGC	0.343													8	14	---	---	---	---	PASS	C	103388930	C	C	103388930	3	2	145	1	0	0	0	0	1	0	0	0	3667	1261	44	4	1888	4	COL11A1	1	103388930	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	10409684	103388930	145861691	25	51298										
SLC25A24	29957	broad.mit.edu	37	chr1	108703861	108703861	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tctgtaacaggattaaataaGaagtagtctctccattcatt	6	7	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:108703861G>T	uc001dvn.3	-	4	667	c.453C>A	c.(451-453)TTC>TTA	p.F151L	SLC25A24_uc001dvm.2_Missense_Mutation_p.F132L	NM_013386	NP_037518	Q6NUK1	SCMC1_HUMAN	solute carrier family 25 member 24 isoform 1	151	EF-hand 4.|Mitochondrial intermembrane (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)	1		all_epithelial(167;3.72e-05)|all_lung(203;0.000567)|Lung NSC(277;0.0011)|Melanoma(281;0.211)		Colorectal(144;0.0345)|Lung(183;0.0971)|COAD - Colon adenocarcinoma(174;0.127)|Epithelial(280;0.134)		GATTAAATAAGAAGTAGTCTC	0.303													35	78	---	---	---	---	PASS	T	108703861	T	T	108703861	3	4	145	1	0	0	0	0	1	0	0	0	14487	933	33	2	1008	2	SLC25A24	1	108703861	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	5314931	108703861	140546760	26	51299										
VPS72	6944	broad.mit.edu	37	chr1	151156932	151156932	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acccgaaggaacgtttgtcgTgtatgctcagctgtagactg	12	9	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:151156932T>C	uc001exe.1	-	4	466	c.423A>G	c.(421-423)ACA>ACG	p.T141T	VPS72_uc001exf.1_Silent_p.T141T	NM_005997	NP_005988	Q15906	VPS72_HUMAN	transcription factor-like 1	141					chromatin modification|negative regulation of transcription from RNA polymerase II promoter	nucleus|protein complex	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|pancreas(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			ACGTTTGTCGTGTATGCTCAG	0.498													23	137	---	---	---	---	PASS	C	151156932	C	C	151156932	2	2	145	1	0	0	0	0	0	0	0	1	17214	1683	59	5		5	VPS72	1	151156932	Silent	SNP	T	TCGA-66-2756-01A-01D-1522-08	42453071	151156932	98093689	27	51300										
TCHHL1	126637	broad.mit.edu	37	chr1	152057685	152057685	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcctgatgcctgggctatctGaacttgcttttgatgctcct	10	11	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:152057685G>A	uc001ezo.1	-	3	2538	c.2473C>T	c.(2473-2475)CAG>TAG	p.Q825*		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	825							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			TGGGCTATCTGAACTTGCTTT	0.478													196	103	---	---	---	---	PASS	A	152057685	A	A	152057685	4	1	145	1	0	0	0	0	0	1	0	0	15698	1299	45	2	245	2	TCHHL1	1	152057685	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	900753	152057685	97192936	28	51301										
FLG	2312	broad.mit.edu	37	chr1	152276658	152276658	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gagccatctcttgactgctcCtgagcagatccacgatggtt	10	12	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:152276658C>A	uc001ezu.1	-	3	10740	c.10704G>T	c.(10702-10704)CAG>CAT	p.Q3568H		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3568	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTGACTGCTCCTGAGCAGATC	0.567									Ichthyosis				259	371	---	---	---	---	PASS	A	152276658	A	A	152276658	3	1	145	1	0	0	0	0	1	0	0	0	5922	680	24	3	1485	3	FLG	1	152276658	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	218973	152276658	96973963	29	51302										
ADAR	103	broad.mit.edu	37	chr1	154575070	154575070	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctgtgctcatagccttgaaaTggatgggtgtagtatccgct	12	8	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:154575070T>C	uc001ffh.2	-	2	248	c.48A>G	c.(46-48)CCA>CCG	p.P16P	ADAR_uc001ffj.2_Silent_p.P16P|ADAR_uc001ffi.2_Silent_p.P16P|ADAR_uc001ffk.2_5'UTR|ADAR_uc001ffl.1_5'UTR|ADAR_uc001ffm.1_RNA|ADAR_uc001ffn.1_Silent_p.P16P	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	16					adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		AGCCTTGAAATGGATGGGTGT	0.507													66	42	---	---	---	---	PASS	C	154575070	C	C	154575070	2	2	145	1	0	0	0	0	0	0	0	1	281	1451	51	5		5	ADAR	1	154575070	Silent	SNP	T	TCGA-66-2756-01A-01D-1522-08	2298412	154575070	94675551	30	51303										
ZBTB7B	51043	broad.mit.edu	37	chr1	154987802	154987802	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcaaaccacctagtccctgaGgtgcccacagtgcccgccca	9	18	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:154987802G>T	uc001fgk.3	+	3	824	c.666G>T	c.(664-666)GAG>GAT	p.E222D	ZBTB7B_uc009wpa.2_Missense_Mutation_p.E222D|ZBTB7B_uc001fgj.3_Missense_Mutation_p.E256D|ZBTB7B_uc010peq.1_Missense_Mutation_p.E256D|ZBTB7B_uc001fgl.3_Missense_Mutation_p.E222D	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	222					cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TAGTCCCTGAGGTGCCCACAG	0.687													15	75	---	---	---	---	PASS	T	154987802	T	T	154987802	3	4	145	1	0	0	0	0	1	0	0	0	17551	991	35	3	668	3	ZBTB7B	1	154987802	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	412732	154987802	94262819	31	51304										
BCAN	63827	broad.mit.edu	37	chr1	156617450	156617450	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctatgagcaatgtgatgctgGctggctgtcggatcagaccg	14	9	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:156617450G>T	uc001fpp.2	+	4	953	c.617G>T	c.(616-618)GGC>GTC	p.G206V	BCAN_uc001fpo.2_Missense_Mutation_p.G206V	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	206	Link 1.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGTGATGCTGGCTGGCTGTCG	0.657													28	170	---	---	---	---	PASS	T	156617450	T	T	156617450	3	4	145	1	0	0	0	0	1	0	0	0	1345	1203	42	3	627	3	BCAN	1	156617450	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1629648	156617450	92633171	32	51305										
BCAN	63827	broad.mit.edu	37	chr1	156626883	156626883	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acccgaggaacaggacttcaTcaacagtgggctgggagaca	13	10	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:156626883T>G	uc001fpp.2	+	10	2540	c.2204T>G	c.(2203-2205)ATC>AGC	p.I735S		NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	735	C-type lectin.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CAGGACTTCATCAACAGTGGG	0.463													47	19	---	---	---	---	PASS	G	156626883	G	G	156626883	3	3	145	1	0	0	0	0	1	0	0	0	1345	1435	50	5	2312	5	BCAN	1	156626883	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	9433	156626883	92623738	33	51306										
PEAR1	375033	broad.mit.edu	37	chr1	156883542	156883542	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agcaatggcccaggcccattCtacaataaaggtatgggcac	10	11	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:156883542C>G	uc001fqj.1	+	21	2819	c.2703C>G	c.(2701-2703)TTC>TTG	p.F901L	PEAR1_uc001fqk.1_Missense_Mutation_p.F526L	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	901	Pro-rich.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CAGGCCCATTCTACAATAAAG	0.577													69	46	---	---	---	---	PASS	G	156883542	G	G	156883542	3	3	145	1	0	0	0	0	1	0	0	0	11712	912	32	2	2781	2	PEAR1	1	156883542	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	256659	156883542	92367079	34	51307										
C1orf92	149499	broad.mit.edu	37	chr1	156902245	156902245	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcacagaggtggggctggagGgcttcctcgccacggtgcag	17	11	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:156902245G>A	uc001fqm.2	+	14	1643	c.1471G>A	c.(1471-1473)GGC>AGC	p.G491S	C1orf92_uc001fql.2_Missense_Mutation_p.G277S	NM_144702	NP_653303	Q8N4P6	LRC71_HUMAN	hypothetical protein LOC149499	491											0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GGGGCTGGAGGGCTTCCTCGC	0.602													8	56	---	---	---	---	PASS	A	156902245	A	A	156902245	3	1	145	1	0	0	0	0	1	0	0	0	2069	1232	43	3	1525	3	C1orf92	1	156902245	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	18703	156902245	92348376	35	51308										
FCRL5	83416	broad.mit.edu	37	chr1	157491042	157491042	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcccccaccgcagcatgggtCccgggagccctgagggtgag	15	15	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:157491042C>A	uc001fqu.2	-	11	2438	c.2280G>T	c.(2278-2280)GGG>GGT	p.G760G	FCRL5_uc009wsm.2_Silent_p.G760G	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	760	Extracellular (Potential).|Ig-like C2-type 8.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				CAGCATGGGTCCCGGGAGCCC	0.537													19	82	---	---	---	---	PASS	A	157491042	A	A	157491042	2	1	145	1	0	0	0	0	0	0	0	1	5798	842	30	2		2	FCRL5	1	157491042	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	588797	157491042	91759579	36	51309										
OR10K1	391109	broad.mit.edu	37	chr1	158435624	158435624	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctgctgtcccagaagaagacCatttctttcctgggctgtgc	10	12	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:158435624C>A	uc010pij.1	+	1	273	c.273C>A	c.(271-273)ACC>ACA	p.T91T		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AGAAGAAGACCATTTCTTTCC	0.483													60	339	---	---	---	---	PASS	A	158435624	A	A	158435624	2	1	145	1	0	0	0	0	0	0	0	1	10913	581	21	3		3	OR10K1	1	158435624	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	944582	158435624	90814997	37	51310										
OR6N1	128372	broad.mit.edu	37	chr1	158736095	158736095	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gggtagtggaggggccggcaGatggctaaatacctatcgta	16	7	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:158736095G>A	uc010piq.1	-	1	378	c.378C>T	c.(376-378)ATC>ATT	p.I126I		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GGGGCCGGCAGATGGCTAAAT	0.527													12	49	---	---	---	---	PASS	A	158736095	A	A	158736095	2	1	145	1	0	0	0	0	0	0	0	1	11206	932	33	2		2	OR6N1	1	158736095	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	300471	158736095	90514526	38	51311										
CD84	8832	broad.mit.edu	37	chr1	160535366	160535366	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctgtgggtcacagtaactacGggtgctgtttctgagtctcc	12	10	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:160535366G>C	uc001fwh.3	-	2	240	c.216C>G	c.(214-216)CCC>CCG	p.P72P	CD84_uc001fwf.3_Silent_p.P72P|CD84_uc001fwg.3_Silent_p.P72P|CD84_uc009wtn.2_Silent_p.P72P|CD84_uc001fwi.3_Intron|CD84_uc001fwj.2_Silent_p.P72P|CD84_uc001fwk.2_Silent_p.P72P	NM_003874	NP_003865	Q9UIB8	SLAF5_HUMAN	CD84 molecule	72	Extracellular (Potential).				blood coagulation|defense response|homophilic cell adhesion|leukocyte migration	integral to plasma membrane	receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(52;3.62e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			CAGTAACTACGGGTGCTGTTT	0.433													278	176	---	---	---	---	PASS	C	160535366	C	C	160535366	2	2	145	1	0	0	0	0	0	0	0	1	3042	1103	39	4		4	CD84	1	160535366	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	1799271	160535366	88715255	39	51312										
C1orf192	257177	broad.mit.edu	37	chr1	161336228	161336228	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggtgcactgaacatggaataCctcttttgttggcttagtgg	12	7	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:161336228C>A	uc001gal.2	-	2	96	c.90_splice	c.e2+1	p.E30_splice		NM_001013625	NP_001013647	Q5VTH2	CA192_HUMAN	hypothetical protein LOC257177												0	all_cancers(52;4.64e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			ACATGGAATACCTCTTTTGTT	0.433													13	422	---	---	---	---	PASS	A	161336228	A	A	161336228	5	1	145	1	0	0	0	0	0	0	1	0	2024	521	18	3	458	3	C1orf192	1	161336228	Splice_Site	SNP	C	TCGA-66-2756-01A-01D-1522-08	800862	161336228	87914393	40	51313										
POU2F1	5451	broad.mit.edu	37	chr1	167370723	167370723	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agccttgtgactagcagtgcAgcaactaccctcacagtcag	9	13	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:167370723A>G	uc001gec.2	+	14	1578	c.1416A>G	c.(1414-1416)GCA>GCG	p.A472A	POU2F1_uc001ged.2_Silent_p.A470A|POU2F1_uc001gee.2_Silent_p.A472A|POU2F1_uc010plh.1_Silent_p.A409A|POU2F1_uc001gef.2_Silent_p.A484A|POU2F1_uc001geg.2_Silent_p.A370A|POU2F1_uc009wvg.1_Intron	NM_002697	NP_002688	P14859	PO2F1_HUMAN	POU class 2 homeobox 1	472					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|skin(2)|breast(1)	5						CTAGCAGTGCAGCAACTACCC	0.488											OREG0013970	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	49	---	---	---	---	PASS	G	167370723	G	G	167370723	2	3	145	1	0	0	0	0	0	0	0	1	12271	175	7	5		5	POU2F1	1	167370723	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	6034495	167370723	81879898	41	51314										
XCL1	6375	broad.mit.edu	37	chr1	168549299	168549299	+	Splice_Site	SNP	A	T	T													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gttgtttttttttcctcaccAggtgtagggagtgaagtctc							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:168549299A>T	uc001gfo.1	+	2	82	c.62_splice	c.e2-2	p.G21_splice		NM_002995	NP_002986	P47992	XCL1_HUMAN	chemokine (C motif) ligand 1						CD4-positive, alpha-beta T cell proliferation|CD8-positive, alpha-beta T cell proliferation|cell-cell signaling|cellular response to interleukin-4|cellular response to transforming growth factor beta stimulus|immunoglobulin production in mucosal tissue|lymphocyte chemotaxis|negative regulation of interferon-gamma production|negative regulation of interleukin-2 production|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell cytokine production|negative regulation of T-helper 1 cell activation|negative regulation of transcription, DNA-dependent|neutrophil chemotaxis|positive regulation of activated T cell proliferation|positive regulation of B cell chemotaxis|positive regulation of granzyme A production|positive regulation of granzyme B production|positive regulation of interleukin-10 production|positive regulation of natural killer cell chemotaxis|positive regulation of neutrophil chemotaxis|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of T cell chemotaxis|positive regulation of T cell cytokine production|positive regulation of T cell mediated cytotoxicity|positive regulation of thymocyte migration|positive regulation of transforming growth factor-beta production|regulation of inflammatory response|release of sequestered calcium ion into cytosol|response to virus|T-helper 1 cell cytokine production|T-helper 2 cell cytokine production	extracellular space	chemokine activity|protein homodimerization activity				0	all_hematologic(923;0.208)					TTTCCTCACCAGGTGTAGGGA	0.418													99	46	---	---	---	---	PASS	T	168549299	T	T	168549299	5	4	145	1	0	0	0	0	0	0	1	0	17420	202	7	5	66	5	XCL1	1	168549299	Splice_Site	SNP	A	TCGA-66-2756-01A-01D-1522-08	1178576	168549299	80701322	42	51315	944	2								
XCL1	6375	broad.mit.edu	37	chr1	168549300	168549300	+	Splice_Site	SNP	G	T	T													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgtttttttttcctcaccaGgtgtagggagtgaagtctca							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:168549300G>T	uc001gfo.1	+	2	82	c.62_splice	c.e2-1	p.G21_splice		NM_002995	NP_002986	P47992	XCL1_HUMAN	chemokine (C motif) ligand 1						CD4-positive, alpha-beta T cell proliferation|CD8-positive, alpha-beta T cell proliferation|cell-cell signaling|cellular response to interleukin-4|cellular response to transforming growth factor beta stimulus|immunoglobulin production in mucosal tissue|lymphocyte chemotaxis|negative regulation of interferon-gamma production|negative regulation of interleukin-2 production|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell cytokine production|negative regulation of T-helper 1 cell activation|negative regulation of transcription, DNA-dependent|neutrophil chemotaxis|positive regulation of activated T cell proliferation|positive regulation of B cell chemotaxis|positive regulation of granzyme A production|positive regulation of granzyme B production|positive regulation of interleukin-10 production|positive regulation of natural killer cell chemotaxis|positive regulation of neutrophil chemotaxis|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of T cell chemotaxis|positive regulation of T cell cytokine production|positive regulation of T cell mediated cytotoxicity|positive regulation of thymocyte migration|positive regulation of transforming growth factor-beta production|regulation of inflammatory response|release of sequestered calcium ion into cytosol|response to virus|T-helper 1 cell cytokine production|T-helper 2 cell cytokine production	extracellular space	chemokine activity|protein homodimerization activity				0	all_hematologic(923;0.208)					TTCCTCACCAGGTGTAGGGAG	0.423													99	46	---	---	---	---	PASS	T	168549300	T	T	168549300	5	4	145	1	0	0	0	0	0	0	1	0	17420	1014	35	3	67	3	XCL1	1	168549300	Splice_Site	SNP	G	TCGA-66-2756-01A-01D-1522-08	1	168549300	80701321	43	51316	944	2								
PAPPA2	60676	broad.mit.edu	37	chr1	176525531	176525531	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cactctgttctgccaactctGagctgggctggacacgcaag	11	13	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:176525531G>T	uc001gkz.2	+	2	1237	c.73G>T	c.(73-75)GAG>TAG	p.E25*	PAPPA2_uc001gky.1_Nonsense_Mutation_p.E25*|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	25					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TGCCAACTCTGAGCTGGGCTG	0.517													183	90	---	---	---	---	PASS	T	176525531	T	T	176525531	4	4	145	1	0	0	0	0	0	1	0	0	11433	1291	45	2	75	2	PAPPA2	1	176525531	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	7976231	176525531	72725090	44	51317										
PAPPA2	60676	broad.mit.edu	37	chr1	176661310	176661310	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	taaccaagtggcccgaatgcAttgctatttggacctagtct	9	10	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:176661310A>T	uc001gkz.2	+	6	3644	c.2480A>T	c.(2479-2481)CAT>CTT	p.H827L	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	827					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GCCCGAATGCATTGCTATTTG	0.483											OREG0014001	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	49	290	---	---	---	---	PASS	T	176661310	T	T	176661310	3	4	145	1	0	0	0	0	1	0	0	0	11433	217	8	5	2551	5	PAPPA2	1	176661310	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	135779	176661310	72589311	45	51318										
KIAA1614	57710	broad.mit.edu	37	chr1	180904462	180904462	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agcggctgcagcagcgccagCgccaggtgctgagcaccgtg	16	14	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:180904462C>T	uc001gok.2	+	5	1484	c.1417C>T	c.(1417-1419)CGC>TGC	p.R473C	KIAA1614_uc001gol.1_Missense_Mutation_p.R94C|KIAA1614_uc001gom.1_Intron	NM_020950	NP_066001	Q5VZ46	K1614_HUMAN	hypothetical protein LOC57710	473										ovary(3)|skin(1)	4						GCAGCGCCAGCGCCAGGTGCT	0.731													5	5	---	---	---	---	PASS	T	180904462	T	T	180904462	3	4	145	1	0	0	0	0	1	0	0	0	8248	768	27	1	1435	1	KIAA1614	1	180904462	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	4243152	180904462	68346159	46	51319										
CACNA1E	777	broad.mit.edu	37	chr1	181701923	181701923	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cgactcagcaggaggcagggGgaggagaggctgtggtgacc	20	8	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:181701923G>A	uc001gow.2	+	20	2866	c.2701G>A	c.(2701-2703)GGA>AGA	p.G901R	CACNA1E_uc009wxs.2_Missense_Mutation_p.G789R|CACNA1E_uc001gox.1_Missense_Mutation_p.G127R|CACNA1E_uc009wxt.2_Missense_Mutation_p.G127R	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	901	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GGAGGCAGGGGGAGGAGAGGC	0.667													24	52	---	---	---	---	PASS	A	181701923	A	A	181701923	3	1	145	1	0	0	0	0	1	0	0	0	2542	1233	43	3	2779	3	CACNA1E	1	181701923	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	797461	181701923	67548698	47	51320										
LAMC1	3915	broad.mit.edu	37	chr1	183106930	183106930	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agctaaagagaaaacaagatGacgctgaccaggacatgatg	11	7	0	5			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:183106930G>T	uc001gpy.3	+	26	4698	c.4441G>T	c.(4441-4443)GAC>TAC	p.D1481Y		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	1481	Potential.|Domain II and I.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAAACAAGATGACGCTGACCA	0.398													75	38	---	---	---	---	PASS	T	183106930	T	T	183106930	3	4	145	1	0	0	0	0	1	0	0	0	8614	1290	45	2	4543	2	LAMC1	1	183106930	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1405007	183106930	66143691	48	51321										
CRB1	23418	broad.mit.edu	37	chr1	197390270	197390270	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctttttatggaggaagggacTgttctgatattctcctgggc	12	7	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:197390270T>A	uc001gtz.2	+	6	1447	c.1312T>A	c.(1312-1314)TGT>AGT	p.C438S	CRB1_uc010poz.1_Missense_Mutation_p.C369S|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.C326S|CRB1_uc010ppb.1_Missense_Mutation_p.C438S|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_5'UTR|CRB1_uc001gub.1_Missense_Mutation_p.C87S	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	438	Extracellular (Potential).|EGF-like 10; calcium-binding (Potential).				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						AGGAAGGGACTGTTCTGATAT	0.448													136	90	---	---	---	---	PASS	A	197390270	A	A	197390270	3	1	145	1	0	0	0	0	1	0	0	0	3848	1580	55	5	1334	5	CRB1	1	197390270	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	14283340	197390270	51860351	49	51322										
CACNA1S	779	broad.mit.edu	37	chr1	201044687	201044687	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atgccagggtaggacggcccGccgtaggccatgatcccatt	13	13	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:201044687G>T	uc001gvv.2	-	13	2111	c.1884C>A	c.(1882-1884)GGC>GGA	p.G628G		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	628	II.|Extracellular (Potential).			YG -> SS (in Ref. 1; AAA51902).|G -> R (in Ref. 2; AAB37235).	axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	AGGACGGCCCGCCGTAGGCCA	0.542													82	218	---	---	---	---	PASS	T	201044687	T	T	201044687	2	4	145	1	0	0	0	0	0	0	0	1	2547	1074	38	1		1	CACNA1S	1	201044687	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	3654417	201044687	48205934	50	51323										
IPO9	55705	broad.mit.edu	37	chr1	201837922	201837922	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agattcctgcagggctttgtGcggtaagtggccgtgtgtgt	16	7	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:201837922G>A	uc001gwz.2	+	16	2052	c.2002G>A	c.(2002-2004)GCG>ACG	p.A668T		NM_018085	NP_060555	Q96P70	IPO9_HUMAN	importin 9	668					protein import into nucleus	cytoplasm|nucleus	histone binding|protein transporter activity			ovary(2)	2						AGGGCTTTGTGCGGTAAGTGG	0.458													22	17	---	---	---	---	PASS	A	201837922	A	A	201837922	3	1	145	1	0	0	0	0	1	0	0	0	7799	1319	46	3	2064	3	IPO9	1	201837922	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	793235	201837922	47412699	51	51324										
TMEM206	55248	broad.mit.edu	37	chr1	212583782	212583782	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctcacctggtaagatacccgGaccttggactctgaccgtct	9	14	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:212583782G>A	uc001hjc.3	-	2	286	c.118C>T	c.(118-120)CCG>TCG	p.P40S	TMEM206_uc010pte.1_Missense_Mutation_p.P101S	NM_018252	NP_060722	Q9H813	TM206_HUMAN	transmembrane protein 206	40	Cytoplasmic (Potential).					integral to membrane				breast(1)	1				all cancers(67;0.012)|OV - Ovarian serous cystadenocarcinoma(81;0.0121)|GBM - Glioblastoma multiforme(131;0.0377)|Epithelial(68;0.148)		AAGATACCCGGACCTTGGACT	0.567													407	305	---	---	---	---	PASS	A	212583782	A	A	212583782	3	1	145	1	0	0	0	0	1	0	0	0	16128	1174	41	2	962	2	TMEM206	1	212583782	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	10745860	212583782	36666839	52	51325										
VASH2	79805	broad.mit.edu	37	chr1	213146147	213146147	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcttacaagaaatacctgcaCacagtcaagaaggtcaagat	7	9	3	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:213146147C>A	uc001hjy.2	+	5	927	c.723C>A	c.(721-723)CAC>CAA	p.H241Q	VASH2_uc001hjv.2_RNA|VASH2_uc001hjx.2_Missense_Mutation_p.H176Q|VASH2_uc010ptn.1_Missense_Mutation_p.H137Q|VASH2_uc001hjw.2_Missense_Mutation_p.H197Q	NM_001136475	NP_001129947	Q86V25	VASH2_HUMAN	vasohibin 2 isoform 3	241					positive regulation of angiogenesis|positive regulation of endothelial cell proliferation	cytoplasm					0				OV - Ovarian serous cystadenocarcinoma(81;0.00479)|all cancers(67;0.00844)|GBM - Glioblastoma multiforme(131;0.0496)|Epithelial(68;0.0986)		AATACCTGCACACAGTCAAGA	0.512													66	59	---	---	---	---	PASS	A	213146147	A	A	213146147	3	1	145	1	0	0	0	0	1	0	0	0	17123	477	17	3	741	3	VASH2	1	213146147	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	562365	213146147	36104474	53	51326										
USH2A	7399	broad.mit.edu	37	chr1	216061815	216061815	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	caccacaggtggctgcacccCagcaggtcgtgagggtcttg	14	13	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:216061815C>A	uc001hku.1	-	41	8563	c.8176G>T	c.(8176-8178)GGG>TGG	p.G2726W		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2726	Fibronectin type-III 14.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GGCTGCACCCCAGCAGGTCGT	0.498										HNSCC(13;0.011)			74	42	---	---	---	---	PASS	A	216061815	A	A	216061815	3	1	145	1	0	0	0	0	1	0	0	0	17033	594	21	3	7560	3	USH2A	1	216061815	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2915668	216061815	33188806	54	51327										
USH2A	7399	broad.mit.edu	37	chr1	216373149	216373149	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atcgtacttggcaaatggaaCcagattccagatggtagctg	11	8	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:216373149C>A	uc001hku.1	-	17	4018	c.3631G>T	c.(3631-3633)GTT>TTT	p.V1211F	USH2A_uc001hkv.2_Missense_Mutation_p.V1211F	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1211	Extracellular (Potential).|Fibronectin type-III 2.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GCAAATGGAACCAGATTCCAG	0.507										HNSCC(13;0.011)			76	175	---	---	---	---	PASS	A	216373149	A	A	216373149	3	1	145	1	0	0	0	0	1	0	0	0	17033	507	18	3	12215	3	USH2A	1	216373149	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	311334	216373149	32877472	55	51328										
SPATA17	128153	broad.mit.edu	37	chr1	217915365	217915365	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaagaaagagaagagaagaaGgctaacctcgaaagggaaga	13	4	0	5			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:217915365G>T	uc001hlh.1	+	6	470	c.444G>T	c.(442-444)AAG>AAT	p.K148N	SPATA17_uc009xdr.1_RNA|SPATA17_uc001hli.2_Missense_Mutation_p.K148N	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	148						cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		AAGAGAAGAAGGCTAACCTCG	0.418													109	52	---	---	---	---	PASS	T	217915365	T	T	217915365	3	4	145	1	0	0	0	0	1	0	0	0	15001	991	35	3	466	3	SPATA17	1	217915365	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1542216	217915365	31335256	56	51329										
RAB3GAP2	25782	broad.mit.edu	37	chr1	220325052	220325052	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atgagccagcctttgccccgTgagcaccagcagctgagagg	13	13	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:220325052T>G	uc010puk.1	-	34	4086	c.3922A>C	c.(3922-3924)ACG>CCG	p.T1308P	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Missense_Mutation_p.T888P|RAB3GAP2_uc001hmh.2_Missense_Mutation_p.T252P	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	1308					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		CTTTGCCCCGTGAGCACCAGC	0.512													42	175	---	---	---	---	PASS	G	220325052	G	G	220325052	3	3	145	1	0	0	0	0	1	0	0	0	12936	1696	59	5	267	5	RAB3GAP2	1	220325052	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	2409687	220325052	28925569	57	51330										
DISP1	84976	broad.mit.edu	37	chr1	223176741	223176741	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggtatcttcttaatatattcActtgcttcaaaaagccccag	5	10	4	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:223176741A>T	uc001hnu.1	+	8	2149	c.2002A>T	c.(2002-2004)ACT>TCT	p.T668S		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	668					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TAATATATTCACTTGCTTCAA	0.438													14	212	---	---	---	---	PASS	T	223176741	T	T	223176741	3	4	145	1	0	0	0	0	1	0	0	0	4539	159	6	5	2028	5	DISP1	1	223176741	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	2851689	223176741	26073880	58	51331										
PARP1	142	broad.mit.edu	37	chr1	226567665	226567665	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gctttttttggagagcgcagCccctgacttccctcttgggg	12	12	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:226567665C>T	uc001hqd.3	-	10	1672	c.1501G>A	c.(1501-1503)GCT>ACT	p.A501T		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	501	Automodification domain.				cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		GAGAGCGCAGCCCCTGACTTC	0.602								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					10	244	---	---	---	---	PASS	T	226567665	T	T	226567665	3	4	145	1	0	0	0	0	1	0	0	0	11454	739	26	3	1599	3	PARP1	1	226567665	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	3390924	226567665	22682956	59	51332										
ACTA1	58	broad.mit.edu	37	chr1	229568451	229568451	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcggtgagcagggtggggtgCtcctcgggagccacgcgaag	19	10	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:229568451C>A	uc001htm.2	-	3	411	c.306G>T	c.(304-306)GAG>GAT	p.E102D		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	102					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	GGGTGGGGTGCTCCTCGGGAG	0.582													156	61	---	---	---	---	PASS	A	229568451	A	A	229568451	3	1	145	1	0	0	0	0	1	0	0	0	191	796	28	3	847	3	ACTA1	1	229568451	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	3000786	229568451	19682170	60	51333										
DISC1	27185	broad.mit.edu	37	chr1	232144658	232144658	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aagatgagaggcagatggatGacttagagggagctgctcct	15	6	0	5			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:232144658G>T	uc001huz.2	+	11	2223	c.2170G>T	c.(2170-2172)GAC>TAC	p.D724Y	TSNAX-DISC1_uc010pwl.1_RNA|DISC1_uc010pxd.1_Missense_Mutation_p.D369Y|DISC1_uc010pxe.1_Missense_Mutation_p.D724Y|DISC1_uc009xfr.2_Missense_Mutation_p.D679Y|DISC1_uc010pxf.1_3'UTR|DISC1_uc010pxg.1_3'UTR|DISC1_uc010pxh.1_Missense_Mutation_p.D756Y|DISC1_uc010pxi.1_RNA|DISC1_uc010pxj.1_Missense_Mutation_p.D369Y|DISC1_uc010pxk.1_RNA|DISC1_uc010pxl.1_RNA|DISC1_uc010pxm.1_Missense_Mutation_p.D602Y|DISC1_uc010pxn.1_Missense_Mutation_p.D369Y|DISC1_uc001hva.2_Missense_Mutation_p.D724Y	NM_018662	NP_061132	Q9NRI5	DISC1_HUMAN	disrupted in schizophrenia 1 isoform L	724	Necessary and sufficient for interaction with PCNT and localization at the centrosome.|Interaction with ATF4 and ATF5.				microtubule cytoskeleton organization|neuron migration|positive regulation of neuroblast proliferation|positive regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	centrosome|microtubule	protein binding			skin(1)	1		all_cancers(173;0.0208)|Prostate(94;0.0975)				GCAGATGGATGACTTAGAGGG	0.522													49	14	---	---	---	---	PASS	T	232144658	T	T	232144658	3	4	145	1	0	0	0	0	1	0	0	0	4538	1290	45	2	2948	2	DISC1	1	232144658	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2576207	232144658	17105963	61	51334										
PCNXL2	80003	broad.mit.edu	37	chr1	233270786	233270786	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aataaaatggacaccatgaaGaaatccagtaagaagctctc	7	8	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:233270786G>A	uc001hvl.2	-	21	4045	c.3810C>T	c.(3808-3810)TTC>TTT	p.F1270F	PCNXL2_uc001hvm.1_RNA|PCNXL2_uc009xfu.2_RNA|PCNXL2_uc001hvp.1_RNA|PCNXL2_uc009xfv.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1270	Helical; (Potential).					integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				ACACCATGAAGAAATCCAGTA	0.338													23	149	---	---	---	---	PASS	A	233270786	A	A	233270786	2	1	145	1	0	0	0	0	0	0	0	1	11592	933	33	2		2	PCNXL2	1	233270786	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	1126128	233270786	15979835	62	51335										
GNG4	2786	broad.mit.edu	37	chr1	235747064	235747064	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	accctgtccatacaggcttcCatctttagctgctccacagc	6	16	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:235747064C>A	uc001hxe.3	-	3	529	c.75G>T	c.(73-75)ATG>ATT	p.M25I	GNG4_uc009xfz.2_Missense_Mutation_p.M25I|GNG4_uc001hxh.3_Missense_Mutation_p.M25I	NM_001098722	NP_001092192	P50150	GBG4_HUMAN	guanine nucleotide binding protein (G protein),	25					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|negative regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	signal transducer activity				0	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00168)|Prostate(94;0.0776)|Acute lymphoblastic leukemia(190;0.23)	OV - Ovarian serous cystadenocarcinoma(106;0.000882)			TACAGGCTTCCATCTTTAGCT	0.517													192	103	---	---	---	---	PASS	A	235747064	A	A	235747064	3	1	145	1	0	0	0	0	1	0	0	0	6529	594	21	3	160	3	GNG4	1	235747064	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2476278	235747064	13503557	63	51336										
RYR2	6262	broad.mit.edu	37	chr1	237955441	237955441	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tggttgaaggaaaggagctcCccacgagaagttcaagtgaa	13	7	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr1:237955441C>A	uc001hyl.1	+	94	13720	c.13600C>A	c.(13600-13602)CCC>ACC	p.P4534T	RYR2_uc010pyb.1_5'UTR	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4534					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)			AAAGGAGCTCCCCACGAGAAG	0.453													6	32	---	---	---	---	PASS	A	237955441	A	A	237955441	3	1	145	1	0	0	0	0	1	0	0	0	13769	623	22	3	13974	3	RYR2	1	237955441	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2208377	237955441	11295180	64	51337										
RNF144A	9781	broad.mit.edu	37	chr2	7154903	7154903	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaaagctacaatttgaaagaGgtaggtgcctggtatatctg	11	5	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:7154903G>C	uc002qys.2	+	5	743	c.301G>C	c.(301-303)GAG>CAG	p.E101Q	RNF144A_uc002qyt.2_Intron	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	101	IBR-type.					Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		ATTTGAAAGAGGTAGGTGCCT	0.363													16	130	---	---	---	---	PASS	C	7154903	C	C	7154903	3	2	145	1	0	0	0	0	1	0	0	0	13445	1014	35	4	311	4	RNF144A	2	7154903	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08		7154903	236044470	65	51338										
GEN1	348654	broad.mit.edu	37	chr2	17941244	17941244	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acttgtggcaaattttggagCctgttaagcaacacatcccc	8	11	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:17941244C>A	uc002rct.2	+	2	107	c.34C>A	c.(34-36)CCT>ACT	p.P12T	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Missense_Mutation_p.P12T|GEN1_uc002rcu.2_Missense_Mutation_p.P12T	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease	12	N-domain.				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)					AATTTTGGAGCCTGTTAAGCA	0.403								Homologous_recombination					215	164	---	---	---	---	PASS	A	17941244	A	A	17941244	3	1	145	1	0	0	0	0	1	0	0	0	6335	739	26	3	36	3	GEN1	2	17941244	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	10786341	17941244	225258129	66	51339										
GCKR	2646	broad.mit.edu	37	chr2	27728609	27728609	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agggtctcagcggctcctccCggatgaaaggtggaagtgcc	15	11	1	1	rs138410297	byFrequency	TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:27728609C>T	uc002rky.2	+	10	841	c.775C>T	c.(775-777)CGG>TGG	p.R259W	GCKR_uc010ezd.2_Missense_Mutation_p.R259W|GCKR_uc010ylu.1_Missense_Mutation_p.R69W	NM_001486	NP_001477	Q14397	GCKR_HUMAN	glucokinase regulatory protein	259	SIS 1.				carbohydrate metabolic process|glucose transport|negative regulation of glucokinase activity|positive regulation of gene expression|protein import into nucleus, translocation|regulation of glucose transport|response to fructose stimulus|transmembrane transport|triglyceride homeostasis|urate metabolic process	cytosol|nucleoplasm	fructose-6-phosphate binding|protein binding			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)					CGGCTCCTCCCGGATGAAAGG	0.552													21	46	---	---	---	---	PASS	T	27728609	T	T	27728609	3	4	145	1	0	0	0	0	1	0	0	0	6294	643	23	1	813	1	GCKR	2	27728609	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	9787365	27728609	215470764	67	51340										
SLC4A1AP	22950	broad.mit.edu	37	chr2	27890251	27890251	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctctccaaggcttttttgacCgagaaggtatgtaaacagat	9	8	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:27890251C>T	uc002rlk.3	+	3	1420	c.1138C>T	c.(1138-1140)CGA>TGA	p.R380*		NM_018158	NP_060628	Q9BWU0	NADAP_HUMAN	solute carrier family 4 (anion exchanger),	380						cytoplasm|nucleus	double-stranded RNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)					CTTTTTTGACCGAGAAGGTAT	0.408													37	73	---	---	---	---	PASS	T	27890251	T	T	27890251	4	4	145	1	0	0	0	0	0	1	0	0	14653	644	23	1	1148	1	SLC4A1AP	2	27890251	Nonsense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	161642	27890251	215309122	68	51341										
WDR43	23160	broad.mit.edu	37	chr2	29152529	29152529	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tccagacgaatagctttccaGttcttcttacccagggctta	7	12	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:29152529G>T	uc002rmo.2	+	11	1422	c.1390G>T	c.(1390-1392)GTT>TTT	p.V464F		NM_015131	NP_055946	Q15061	WDR43_HUMAN	WD repeat domain 43	464						nucleolus				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TAGCTTTCCAGTTCTTCTTAC	0.348													12	114	---	---	---	---	PASS	T	29152529	T	T	29152529	3	4	145	1	0	0	0	0	1	0	0	0	17292	1029	36	3	1432	3	WDR43	2	29152529	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1262278	29152529	214046844	69	51342										
CLIP4	79745	broad.mit.edu	37	chr2	29404720	29404720	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccgagcagagtgacctatcgGggaattaatgggtcaaaact	12	8	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:29404720G>T	uc002rmv.2	+	16	2318	c.2079G>T	c.(2077-2079)CGG>CGT	p.R693R	CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	693										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TGACCTATCGGGGAATTAATG	0.403													181	107	---	---	---	---	PASS	T	29404720	T	T	29404720	2	4	145	1	0	0	0	0	0	0	0	1	3535	1219	43	3		3	CLIP4	2	29404720	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	252191	29404720	213794653	70	51343										
XDH	7498	broad.mit.edu	37	chr2	31587050	31587050	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agagagatcctgggtgttccCcacattgctgaagtggtcca	12	10	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:31587050C>A	uc002rnv.1	-	24	2684	c.2605G>T	c.(2605-2607)GGG>TGG	p.G869W		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	869					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	TGGGTGTTCCCCACATTGCTG	0.552													16	45	---	---	---	---	PASS	A	31587050	A	A	31587050	3	1	145	1	0	0	0	0	1	0	0	0	17423	623	22	3	1448	3	XDH	2	31587050	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2182330	31587050	211612323	71	51344										
BIRC6	57448	broad.mit.edu	37	chr2	32750665	32750665	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acaaaataattactgtcccaGtgtttcacctgtttcacaaa	4	10	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:32750665G>T	uc010ezu.2	+	59	12024	c.11890G>T	c.(11890-11892)GTG>TTG	p.V3964L		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3964					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)					TACTGTCCCAGTGTTTCACCT	0.418													86	31	---	---	---	---	PASS	T	32750665	T	T	32750665	3	4	145	1	0	0	0	0	1	0	0	0	1438	1029	36	3	12124	3	BIRC6	2	32750665	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1163615	32750665	210448708	72	51345										
STRN	6801	broad.mit.edu	37	chr2	37143248	37143248	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atagcttggaggcttcatatCtccctgattcaattctgtcc	7	11	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:37143248C>A	uc002rpn.2	-	3	394	c.385G>T	c.(385-387)GAT>TAT	p.D129Y	STRN_uc010ezx.2_Missense_Mutation_p.D129Y	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	129					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)				GGCTTCATATCTCCCTGATTC	0.308													25	33	---	---	---	---	PASS	A	37143248	A	A	37143248	3	1	145	1	0	0	0	0	1	0	0	0	15328	913	32	2	2021	2	STRN	2	37143248	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	4392583	37143248	206056125	73	51346										
SLC8A1	6546	broad.mit.edu	37	chr2	40657159	40657159	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gatagagactccaagaaacaTgtagaccatggccacaaaat	8	9	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:40657159T>G	uc002rrx.2	-	1	286	c.262A>C	c.(262-264)ATG>CTG	p.M88L	SLC8A1_uc002rry.2_Missense_Mutation_p.M88L|SLC8A1_uc002rrz.2_Missense_Mutation_p.M88L|SLC8A1_uc002rsa.2_Missense_Mutation_p.M88L|SLC8A1_uc002rsd.3_Missense_Mutation_p.M88L|SLC8A1_uc002rsb.1_Missense_Mutation_p.M88L|SLC8A1_uc010fan.1_Missense_Mutation_p.M88L|SLC8A1_uc002rsc.1_Missense_Mutation_p.M88L	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	88	Helical; (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CCAAGAAACATGTAGACCATG	0.413													60	92	---	---	---	---	PASS	G	40657159	G	G	40657159	3	3	145	1	0	0	0	0	1	0	0	0	14706	1464	51	5	2807	5	SLC8A1	2	40657159	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	3513911	40657159	202542214	74	51347										
THADA	63892	broad.mit.edu	37	chr2	43804383	43804383	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gaagcagcacactgctaatcTggaaaaatatagcagagcta	9	8	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:43804383T>C	uc002rsw.3	-	10	1169	c.817_splice	c.e10-1	p.I273_splice	THADA_uc002rsx.3_Splice_Site_p.I273_splice|THADA_uc002rsy.3_Intron|THADA_uc010fas.1_5'Flank|THADA_uc002rsz.2_Intron|THADA_uc002rta.2_Intron|THADA_uc002rtb.1_Splice_Site_p.I273_splice|THADA_uc002rtc.3_Splice_Site_p.I273_splice|THADA_uc002rtd.2_Splice_Site_p.I273_splice	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated								binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				ACTGCTAATCTGGAAAAATAT	0.428											OREG0014580	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	13	---	---	---	---	PASS	C	43804383	C	C	43804383	5	2	145	1	0	0	0	0	0	0	1	0	15837	1594	55	5	5162	5	THADA	2	43804383	Splice_Site	SNP	T	TCGA-66-2756-01A-01D-1522-08	3147224	43804383	199394990	75	51348										
FSHR	2492	broad.mit.edu	37	chr2	49189894	49189894	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agttttgggctaaatgacttAgagggacaagtatgtaagtg	13	3	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:49189894A>G	uc002rww.2	-	10	2140	c.2066T>C	c.(2065-2067)CTA>CCA	p.L689P	FSHR_uc002rwx.2_Missense_Mutation_p.L627P|FSHR_uc010fbn.2_Missense_Mutation_p.L663P	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	689	Cytoplasmic (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	TAAATGACTTAGAGGGACAAG	0.333									Gonadal_Dysgenesis_46_XX				43	178	---	---	---	---	PASS	G	49189894	G	G	49189894	3	3	145	1	0	0	0	0	1	0	0	0	6073	420	15	5	25	5	FSHR	2	49189894	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	5385511	49189894	194009479	76	51349										
CCDC88A	55704	broad.mit.edu	37	chr2	55522967	55522967	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tccttgagtgcctggtgtagGttttcccgcagaactaatga	11	9	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:55522967G>T	uc002ryv.2	-	31	6156	c.5314C>A	c.(5314-5316)CCT>ACT	p.P1772T	CCDC88A_uc010yoz.1_Missense_Mutation_p.P1745T|CCDC88A_uc010ypa.1_Intron|CCDC88A_uc002ryt.2_Missense_Mutation_p.P63T|CCDC88A_uc010fbw.2_Missense_Mutation_p.P274T|CCDC88A_uc002ryu.2_Missense_Mutation_p.P1027T|CCDC88A_uc002rys.2_Missense_Mutation_p.P730T|CCDC88A_uc002ryw.2_Missense_Mutation_p.P1056T|CCDC88A_uc010fby.1_Missense_Mutation_p.P624T	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	1773					activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						CCTGGTGTAGGTTTTCCCGCA	0.413													27	143	---	---	---	---	PASS	T	55522967	T	T	55522967	3	4	145	1	0	0	0	0	1	0	0	0	2863	1261	44	3	306	3	CCDC88A	2	55522967	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	6333073	55522967	187676406	77	51350										
CCDC88A	55704	broad.mit.edu	37	chr2	55544718	55544718	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	accggtcttcaaggtctctaTgttccacctcaagatttttg	7	11	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:55544718T>C	uc002ryv.2	-	20	4423	c.3581A>G	c.(3580-3582)CAT>CGT	p.H1194R	CCDC88A_uc010yoz.1_Missense_Mutation_p.H1195R|CCDC88A_uc010ypa.1_Missense_Mutation_p.H1194R|CCDC88A_uc002ryu.2_Missense_Mutation_p.H477R|CCDC88A_uc002rys.2_Missense_Mutation_p.H180R|CCDC88A_uc002ryw.2_Missense_Mutation_p.H478R|CCDC88A_uc010fby.1_Missense_Mutation_p.H74R	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	1195	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						AAGGTCTCTATGTTCCACCTC	0.318													80	74	---	---	---	---	PASS	C	55544718	C	C	55544718	3	2	145	1	0	0	0	0	1	0	0	0	2863	1464	51	5	2083	5	CCDC88A	2	55544718	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	21751	55544718	187654655	78	51351										
BCL11A	53335	broad.mit.edu	37	chr2	60688134	60688134	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcaggtcgaactccttctcgAgcttgatgcgcttagagaag	12	10	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:60688134A>T	uc002sae.1	-	4	2141	c.1913T>A	c.(1912-1914)CTC>CAC	p.L638H	BCL11A_uc002sab.2_Missense_Mutation_p.L638H|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.L307H|BCL11A_uc010ypj.1_Missense_Mutation_p.L604H|BCL11A_uc002sad.1_Missense_Mutation_p.L486H|BCL11A_uc002saf.1_Missense_Mutation_p.L604H	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	638					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			CTCCTTCTCGAGCTTGATGCG	0.677			T	IGH@	B-CLL								30	18	---	---	---	---	PASS	T	60688134	T	T	60688134	3	4	145	1	0	0	0	0	1	0	0	0	1363	304	11	5	704	5	BCL11A	2	60688134	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	5143416	60688134	182511239	79	51352										
VPS54	51542	broad.mit.edu	37	chr2	64160937	64160937	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atttggagatgcatttctttGagaggtagtgtcaactgcta	11	5	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:64160937G>A	uc002scq.2	-	12	1772	c.1609C>T	c.(1609-1611)CAA>TAA	p.Q537*	VPS54_uc002scp.2_Nonsense_Mutation_p.Q525*|VPS54_uc002sco.2_Nonsense_Mutation_p.Q22*|VPS54_uc010fct.2_Nonsense_Mutation_p.Q384*	NM_016516	NP_057600	Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 isoform 1	537					protein transport|retrograde transport, endosome to Golgi						0						GCATTTCTTTGAGAGGTAGTG	0.443													38	83	---	---	---	---	PASS	A	64160937	A	A	64160937	4	1	145	1	0	0	0	0	0	1	0	0	17213	1299	45	2	1372	2	VPS54	2	64160937	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	3472803	64160937	179038436	80	51353										
ARHGAP25	9938	broad.mit.edu	37	chr2	69002433	69002433	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccaacccgctggagaggcccAtcaagatgggctggctgaag	14	12	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:69002433A>G	uc002seu.2	+	2	506	c.142A>G	c.(142-144)ATC>GTC	p.I48V	ARHGAP25_uc010yqk.1_Missense_Mutation_p.I22V|ARHGAP25_uc010fdg.2_Missense_Mutation_p.I48V|ARHGAP25_uc010yql.1_Missense_Mutation_p.I48V|ARHGAP25_uc002sev.2_Missense_Mutation_p.I41V|ARHGAP25_uc002sew.2_Missense_Mutation_p.I41V|ARHGAP25_uc002sex.2_Missense_Mutation_p.I41V|ARHGAP25_uc010fdh.1_RNA	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	48	PH.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						GGAGAGGCCCATCAAGATGGG	0.562													60	168	---	---	---	---	PASS	G	69002433	G	G	69002433	3	3	145	1	0	0	0	0	1	0	0	0	874	217	8	5	188	5	ARHGAP25	2	69002433	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	4841496	69002433	174196940	81	51354										
ZNF638	27332	broad.mit.edu	37	chr2	71607696	71607696	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgttacttcaacttctgctgGtaagttgttacttttaatat	6	6	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:71607696G>T	uc002shx.2	+	10	2696	c.2377_splice	c.e10+1	p.A793_splice	ZNF638_uc010fec.2_Splice_Site_p.E899_splice|ZNF638_uc010yqw.1_Splice_Site_p.A372_splice|ZNF638_uc002shw.2_Splice_Site_p.G793_splice|ZNF638_uc002shy.2_Splice_Site_p.A793_splice|ZNF638_uc002shz.2_Splice_Site_p.A793_splice|ZNF638_uc002sia.2_Splice_Site_p.A793_splice|ZNF638_uc002sib.1_Splice_Site_p.A793_splice|ZNF638_uc010fed.2_Splice_Site	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638						RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						ACTTCTGCTGGTAAGTTGTTA	0.308													14	45	---	---	---	---	PASS	T	71607696	T	T	71607696	5	4	145	1	0	0	0	0	0	0	1	0	18052	1275	44	3	2412	3	ZNF638	2	71607696	Splice_Site	SNP	G	TCGA-66-2756-01A-01D-1522-08	2605263	71607696	171591677	82	51355										
C2orf65	130951	broad.mit.edu	37	chr2	74802644	74802644	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccagctgccaacagcttgtaGgtctgaggatgaacgggagt	14	9	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:74802644G>A	uc002smy.2	-	7	1112	c.995C>T	c.(994-996)CCT>CTT	p.P332L	C2orf65_uc010ysa.1_Missense_Mutation_p.P332L|C2orf65_uc002smz.2_Missense_Mutation_p.P332L|C2orf65_uc010ffp.2_Missense_Mutation_p.P50L|C2orf65_uc002smx.2_Missense_Mutation_p.P88L	NM_138804	NP_620159	Q8TC57	CB065_HUMAN	hypothetical protein LOC130951	332					chromatin assembly|female gamete generation|RNA processing|spermatogenesis	integral to membrane				ovary(1)|pancreas(1)	2						ACAGCTTGTAGGTCTGAGGAT	0.493													64	129	---	---	---	---	PASS	A	74802644	A	A	74802644	3	1	145	1	0	0	0	0	1	0	0	0	2184	1000	35	3	617	3	C2orf65	2	74802644	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	3194948	74802644	168396729	83	51356										
REG3A	5068	broad.mit.edu	37	chr2	79385853	79385853	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aggccttggagcctttgggaCagcggatccgtgcagagggc	17	10	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:79385853C>A	uc002sod.1	-	2	374	c.119G>T	c.(118-120)TGT>TTT	p.C40F	REG3A_uc002soe.1_Missense_Mutation_p.C40F|REG3A_uc002sof.1_Missense_Mutation_p.C40F	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	40	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						GCCTTTGGGACAGCGGATCCG	0.547													48	27	---	---	---	---	PASS	A	79385853	A	A	79385853	3	1	145	1	0	0	0	0	1	0	0	0	13212	478	17	3	424	3	REG3A	2	79385853	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	4583209	79385853	163813520	84	51357										
POLR1A	25885	broad.mit.edu	37	chr2	86258514	86258514	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctatgaacgggtggatctcaCgcacagcctggacccggcgc	13	14	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:86258514C>A	uc002sqs.2	-	30	4896	c.4517G>T	c.(4516-4518)CGT>CTT	p.R1506L	POLR1A_uc010ytb.1_Missense_Mutation_p.R872L	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	1506					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						GTGGATCTCACGCACAGCCTG	0.677													82	160	---	---	---	---	PASS	A	86258514	A	A	86258514	3	1	145	1	0	0	0	0	1	0	0	0	12209	536	19	1	665	1	POLR1A	2	86258514	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	6872661	86258514	156940859	85	51358										
ACTR1B	10120	broad.mit.edu	37	chr2	98274445	98274445	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acctgagagcacgatgttggCgaacagcgtccggcgcaggt	15	11	0	1	rs138142670	byFrequency	TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:98274445C>T	uc002syb.2	-	8	1094	c.886G>A	c.(886-888)GCC>ACC	p.A296T		NM_005735	NP_005726	P42025	ACTY_HUMAN	ARP1 actin-related protein 1 homolog B,	296						centrosome|dynactin complex	ATP binding|protein binding			skin(1)	1						ACGATGTTGGCGAACAGCGTC	0.607													39	200	---	---	---	---	PASS	T	98274445	T	T	98274445	3	4	145	1	0	0	0	0	1	0	0	0	210	768	27	1	260	1	ACTR1B	2	98274445	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	12015931	98274445	144924928	86	51359										
CNGA3	1261	broad.mit.edu	37	chr2	99013001	99013001	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acggtggatgagaaggaggtGctcaagagcctcccagacaa	14	9	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:99013001G>C	uc002syt.2	+	8	1785	c.1368G>C	c.(1366-1368)GTG>GTC	p.V456V	CNGA3_uc002syu.2_Silent_p.V438V|CNGA3_uc010fij.2_Silent_p.V460V	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	456					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						AGAAGGAGGTGCTCAAGAGCC	0.567													58	27	---	---	---	---	PASS	C	99013001	C	C	99013001	2	2	145	1	0	0	0	0	0	0	0	1	3598	1306	46	4		4	CNGA3	2	99013001	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	738556	99013001	144186372	87	51360										
MFSD9	84804	broad.mit.edu	37	chr2	103335075	103335075	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	actgccccacgccaataaggGtgccgctggcctgggccccg	13	17	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:103335075G>T	uc002tcb.2	-	6	1297	c.1229C>A	c.(1228-1230)ACC>AAC	p.T410N	MFSD9_uc010fja.2_RNA	NM_032718	NP_116107	Q8NBP5	MFSD9_HUMAN	major facilitator superfamily domain containing	410					transmembrane transport	integral to membrane|plasma membrane	transporter activity			ovary(2)|breast(2)	4						GCCAATAAGGGTGCCGCTGGC	0.672													11	21	---	---	---	---	PASS	T	103335075	T	T	103335075	3	4	145	1	0	0	0	0	1	0	0	0	9539	1261	44	3	199	3	MFSD9	2	103335075	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4322074	103335075	139864298	88	51361										
C2orf40	84417	broad.mit.edu	37	chr2	106690371	106690371	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	caactaagactaaagtggccGttgatgagaataaagccaaa	9	7	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:106690371G>A	uc010fjf.2	+	3	265	c.157G>A	c.(157-159)GTT>ATT	p.V53I		NM_032411	NP_115787	Q9H1Z8	AUGN_HUMAN	esophageal cancer related gene 4 protein	53						extracellular region|transport vesicle					0						TAAAGTGGCCGTTGATGAGAA	0.527													76	103	---	---	---	---	PASS	A	106690371	A	A	106690371	3	1	145	1	0	0	0	0	1	0	0	0	2165	1145	40	1	167	1	C2orf40	2	106690371	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	3355296	106690371	136509002	89	51362										
STEAP3	55240	broad.mit.edu	37	chr2	120005289	120005289	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgaccagccagaagccaagcGtgctgtctcggagatggcgc	14	12	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:120005289G>T	uc002tlp.2	+	4	684	c.527G>T	c.(526-528)CGT>CTT	p.R176L	STEAP3_uc002tlq.2_Missense_Mutation_p.R186L|STEAP3_uc002tlr.2_Missense_Mutation_p.R176L|STEAP3_uc010fle.2_Missense_Mutation_p.R176L	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	176	Cytoplasmic (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						GAAGCCAAGCGTGCTGTCTCG	0.642													5	36	---	---	---	---	PASS	T	120005289	T	T	120005289	3	4	145	1	0	0	0	0	1	0	0	0	15278	1145	40	1	567	1	STEAP3	2	120005289	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	13314918	120005289	123194084	90	51363										
HS6ST1	9394	broad.mit.edu	37	chr2	129026314	129026314	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctcgtagcagggcggcagctCctcaggcgtgggcgtgcgcc	17	14	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:129026314C>A	uc002tpt.3	-	2	692	c.658G>T	c.(658-660)GAG>TAG	p.E220*		NM_004807	NP_004798	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	220	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	integral to plasma membrane	sulfotransferase activity			pancreas(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		GGCGGCAGCTCCTCAGGCGTG	0.657													4	73	---	---	---	---	PASS	A	129026314	A	A	129026314	4	1	145	1	0	0	0	0	0	1	0	0	7370	864	30	2	581	2	HS6ST1	2	129026314	Nonsense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	9021025	129026314	114173059	91	51364										
FAM123C	205147	broad.mit.edu	37	chr2	131520279	131520279	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtgaggggccggggctggacGgcctgtgccaggacctgttg	20	10	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:131520279G>A	uc002trw.2	+	2	824	c.634G>A	c.(634-636)GGC>AGC	p.G212S	FAM123C_uc010fmv.2_Missense_Mutation_p.G212S|FAM123C_uc010fms.1_Missense_Mutation_p.G212S|FAM123C_uc010fmt.1_Missense_Mutation_p.G212S|FAM123C_uc010fmu.1_Missense_Mutation_p.G212S	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	212										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GGGGCTGGACGGCCTGTGCCA	0.692													20	45	---	---	---	---	PASS	A	131520279	A	A	131520279	3	1	145	1	0	0	0	0	1	0	0	0	5424	1116	39	1	636	1	FAM123C	2	131520279	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2493965	131520279	111679094	92	51365										
POTEE	445582	broad.mit.edu	37	chr2	132021849	132021849	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctccctagagaagagctacGagctgcccgatggccaggtc	12	14	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:132021849G>C	uc002tsn.2	+	15	2873	c.2821G>C	c.(2821-2823)GAG>CAG	p.E941Q	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.E541Q|POTEE_uc002tsl.2_Missense_Mutation_p.E523Q|POTEE_uc010fmy.1_Missense_Mutation_p.E405Q	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	941	Actin-like.						ATP binding				0						GAAGAGCTACGAGCTGCCCGA	0.607													7	156	---	---	---	---	PASS	C	132021849	C	C	132021849	3	2	145	1	0	0	0	0	1	0	0	0	12264	1059	37	2	2879	2	POTEE	2	132021849	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	501570	132021849	111177524	93	51366										
CCDC74A	90557	broad.mit.edu	37	chr2	132289288	132289288	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	caagcaagattcaaaagctgAcgtctcccagaaggcggacc	10	12	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:132289288A>T	uc002tta.2	+	4	648	c.596A>T	c.(595-597)GAC>GTC	p.D199V	CCDC74A_uc002ttb.2_Missense_Mutation_p.D133V	NM_138770	NP_620125	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	199										skin(1)	1						TCAAAAGCTGACGTCTCCCAG	0.587													44	77	---	---	---	---	PASS	T	132289288	T	T	132289288	3	4	145	1	0	0	0	0	1	0	0	0	2847	275	10	5	610	5	CCDC74A	2	132289288	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	267439	132289288	110910085	94	51367										
LRP1B	53353	broad.mit.edu	37	chr2	141128330	141128330	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cacacagtcatgaattccatCacacagccatctaattggaa	5	12	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:141128330C>T	uc002tvj.1	-	71	11929	c.10957G>A	c.(10957-10959)GAT>AAT	p.D3653N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3653	Extracellular (Potential).|LDL-receptor class A 29.				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)		TGAATTCCATCACACAGCCAT	0.393										TSP Lung(27;0.18)			405	171	---	---	---	---	PASS	T	141128330	T	T	141128330	3	4	145	1	0	0	0	0	1	0	0	0	8955	826	29	2	2926	2	LRP1B	2	141128330	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	8839042	141128330	102071043	95	51368										
LRP1B	53353	broad.mit.edu	37	chr2	141214043	141214043	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctggctggctgtgcagttgGataagcaagtcctattatca	11	9	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:141214043G>C	uc002tvj.1	-	62	10916	c.9944C>G	c.(9943-9945)TCC>TGC	p.S3315C		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3315	Extracellular (Potential).				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)		TGTGCAGTTGGATAAGCAAGT	0.443										TSP Lung(27;0.18)			219	66	---	---	---	---	PASS	C	141214043	C	C	141214043	3	2	145	1	0	0	0	0	1	0	0	0	8955	1174	41	2	3975	2	LRP1B	2	141214043	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	85713	141214043	101985330	96	51369										
KIF5C	3800	broad.mit.edu	37	chr2	149840148	149840148	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttcagactacattgacaacCacacagagagagctgagcca	8	11	1	5			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:149840148C>A	uc010zbu.1	+	15	1952	c.1584C>A	c.(1582-1584)ACC>ACA	p.T528T	KIF5C_uc002tws.1_RNA|KIF5C_uc002twt.2_Silent_p.T80T	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	528					microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		CATTGACAACCACACAGAGAG	0.408													10	55	---	---	---	---	PASS	A	149840148	A	A	149840148	2	1	145	1	0	0	0	0	0	0	0	1	8307	581	21	3		3	KIF5C	2	149840148	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	8626105	149840148	93359225	97	51370										
RPRM	56475	broad.mit.edu	37	chr2	154334943	154334943	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgtacaggctacgctcgtccGggcctccctccgcgaagccg	12	17	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:154334943G>T	uc002tyq.1	-	1	380	c.137C>A	c.(136-138)CCG>CAG	p.P46Q		NM_019845	NP_062819	Q9NS64	RPRM_HUMAN	reprimo, TP53 dependant G2 arrest mediator	46					cell cycle arrest	cytoplasm|integral to membrane	protein binding				0						ACGCTCGTCCGGGCCTCCCTC	0.657													19	20	---	---	---	---	PASS	T	154334943	T	T	154334943	3	4	145	1	0	0	0	0	1	0	0	0	13618	1116	39	1	196	1	RPRM	2	154334943	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4494795	154334943	88864430	98	51371										
BAZ2B	29994	broad.mit.edu	37	chr2	160242947	160242947	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgtacttcacccatgctgtCccctatatttagcaatccct	4	14	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:160242947C>A	uc002uao.2	-	22	3740	c.3388G>T	c.(3388-3390)GAC>TAC	p.D1130Y	BAZ2B_uc002uap.2_Missense_Mutation_p.D1094Y	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	1130	DDT.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CCCATGCTGTCCCCTATATTT	0.403													40	275	---	---	---	---	PASS	A	160242947	A	A	160242947	3	1	145	1	0	0	0	0	1	0	0	0	1332	855	30	2	3182	2	BAZ2B	2	160242947	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	5908004	160242947	82956426	99	51372										
RBMS1	5937	broad.mit.edu	37	chr2	161133862	161133862	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgtgcatactgtggcaagtaGgctccttgcatagctgacgt	12	9	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:161133862G>A	uc002ubo.2	-	12	1539	c.1095C>T	c.(1093-1095)GCC>GCT	p.A365A	RBMS1_uc002ubj.2_Silent_p.A345A|RBMS1_uc002ubk.2_Silent_p.A329A|RBMS1_uc002ubl.2_Silent_p.A360A|RBMS1_uc002ubn.2_Silent_p.A362A|RBMS1_uc002ubi.3_Silent_p.A378A|RBMS1_uc002ubm.2_Silent_p.A348A|RBMS1_uc002ubp.2_Silent_p.A381A	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	365					DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						GTGGCAAGTAGGCTCCTTGCA	0.468													163	120	---	---	---	---	PASS	A	161133862	A	A	161133862	2	1	145	1	0	0	0	0	0	0	0	1	13148	987	35	3		3	RBMS1	2	161133862	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	890915	161133862	82065511	100	51373										
TBR1	10716	broad.mit.edu	37	chr2	162274732	162274732	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gaaatcgggtctatatgcatCcggattcccccaacactggg	10	12	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:162274732C>T	uc002ubw.1	+	3	1170	c.868C>T	c.(868-870)CCG>TCG	p.P290S	TBR1_uc010foy.2_Missense_Mutation_p.P3S	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	290	T-box.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CTATATGCATCCGGATTCCCC	0.438													26	134	---	---	---	---	PASS	T	162274732	T	T	162274732	3	4	145	1	0	0	0	0	1	0	0	0	15644	855	30	2	878	2	TBR1	2	162274732	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1140870	162274732	80924641	101	51374										
SLC4A10	57282	broad.mit.edu	37	chr2	162804144	162804144	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gatcacccatatgttccagaTgttctattttggtctgtgat	8	8	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:162804144T>C	uc002ubx.3	+	17	2356	c.2172T>C	c.(2170-2172)GAT>GAC	p.D724D	SLC4A10_uc002uby.3_Silent_p.D694D|SLC4A10_uc010zcs.1_Silent_p.D705D	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	724	Helical; (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						ATGTTCCAGATGTTCTATTTT	0.443													12	331	---	---	---	---	PASS	C	162804144	C	C	162804144	2	2	145	1	0	0	0	0	0	0	0	1	14651	1461	51	5		5	SLC4A10	2	162804144	Silent	SNP	T	TCGA-66-2756-01A-01D-1522-08	529412	162804144	80395229	102	51375										
KCNH7	90134	broad.mit.edu	37	chr2	163291984	163291984	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cagccagtgagcaatcagggCaaagatgcacattaagagca	11	9	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:163291984C>A	uc002uch.1	-	8	1890	c.1678G>T	c.(1678-1680)GCC>TCC	p.A560S	KCNH7_uc002uci.2_Missense_Mutation_p.A553S	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	560	Helical; Name=Segment S5; (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	GCAATCAGGGCAAAGATGCAC	0.493													104	46	---	---	---	---	PASS	A	163291984	A	A	163291984	3	1	145	1	0	0	0	0	1	0	0	0	8037	710	25	3	2014	3	KCNH7	2	163291984	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	487840	163291984	79907389	103	51376										
FASTKD1	79675	broad.mit.edu	37	chr2	170417051	170417051	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgtagaaatttgtatacacTaagtattttactgatggaat	7	3	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:170417051T>A	uc002uev.3	-	5	1205	c.817A>T	c.(817-819)AGT>TGT	p.S273C	FASTKD1_uc002uew.3_RNA|FASTKD1_uc002uex.3_Missense_Mutation_p.S259C|FASTKD1_uc002uey.2_Missense_Mutation_p.S236C	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	273					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4						TTGTATACACTAAGTATTTTA	0.284													49	57	---	---	---	---	PASS	A	170417051	A	A	170417051	3	1	145	1	0	0	0	0	1	0	0	0	5685	1522	53	5	1770	5	FASTKD1	2	170417051	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	7125067	170417051	72782322	104	51377										
MYO3B	140469	broad.mit.edu	37	chr2	171225765	171225765	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gattttgaaaggcgaccttcCgtcacacatctccttgacca	7	13	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:171225765C>G	uc002ufy.2	+	9	992	c.849C>G	c.(847-849)TCC>TCG	p.S283S	MYO3B_uc002ufv.2_Silent_p.S270S|MYO3B_uc010fqb.1_Silent_p.S270S|MYO3B_uc002ufz.2_Silent_p.S283S|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002uga.2_Silent_p.S270S|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	283	Protein kinase.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						GGCGACCTTCCGTCACACATC	0.418													53	82	---	---	---	---	PASS	G	171225765	G	G	171225765	2	3	145	1	0	0	0	0	0	0	0	1	10077	639	23	4		4	MYO3B	2	171225765	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	808714	171225765	71973608	105	51378										
GAD1	2571	broad.mit.edu	37	chr2	171686061	171686061	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaggagaggcaatcctccaaGaacctgctttcctgtgaaaa	9	10	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:171686061G>C	uc002ugi.2	+	4	644	c.222G>C	c.(220-222)AAG>AAC	p.K74N	GAD1_uc002ugh.2_Missense_Mutation_p.K74N	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	74					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AATCCTCCAAGAACCTGCTTT	0.547													54	100	---	---	---	---	PASS	C	171686061	C	C	171686061	3	2	145	1	0	0	0	0	1	0	0	0	6179	933	33	2	232	2	GAD1	2	171686061	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	460296	171686061	71513312	106	51379										
PDE11A	50940	broad.mit.edu	37	chr2	178592440	178592440	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaggcatgtctccagttgtgGtatagaaccatccgatagtt	10	8	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:178592440G>T	uc002ulq.2	-	12	2307	c.1989C>A	c.(1987-1989)TAC>TAA	p.Y663*	PDE11A_uc002ulp.2_Nonsense_Mutation_p.Y219*|PDE11A_uc002ulr.2_Nonsense_Mutation_p.Y413*|PDE11A_uc002uls.1_Nonsense_Mutation_p.Y305*|PDE11A_uc002ult.1_Nonsense_Mutation_p.Y413*|PDE11A_uc002ulu.1_Nonsense_Mutation_p.Y305*	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	663	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TCCAGTTGTGGTATAGAACCA	0.463									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				25	67	---	---	---	---	PASS	T	178592440	T	T	178592440	4	4	145	1	0	0	0	0	0	1	0	0	11631	1256	44	3	848	3	PDE11A	2	178592440	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	6906379	178592440	64606933	107	51380										
TTN	7273	broad.mit.edu	37	chr2	179446298	179446299	+	Frame_Shift_Del	DEL	AC	-	-													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tccaatcttattaacggcatAcacacggaattgatattgtg							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:179446298_179446299delAC	uc010zfg.1	-	265	59216_59217	c.58992_58993delGT	c.(58990-58995)GTGTATfs	p.V19664fs	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Frame_Shift_Del_p.V13359fs|TTN_uc010zfi.1_Frame_Shift_Del_p.V13292fs|TTN_uc010zfj.1_Frame_Shift_Del_p.V13167fs	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20591_20592							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)			TTAACGGCATACACACGGAATT	0.441													71	33	---	---	---	---		-	179446299	-	-	179446298	7	5	145	1	0	1	0	1	0	0	0	0	16732	391	14	0	41470	0	TTN	2	179446298	Frame_Shift_Del	DEL	AC	TCGA-66-2756-01A-01D-1522-08	853858	179446298	63753075	108	51381										
TTN	7273	broad.mit.edu	37	chr2	179447926	179447926	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acagtaagcaaagatttcatAgccacactcaggtctatcct	6	11	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:179447926A>G	uc010zfg.1	-	262	58124	c.57900T>C	c.(57898-57900)GCT>GCC	p.A19300A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.A12995A|TTN_uc010zfi.1_Silent_p.A12928A|TTN_uc010zfj.1_Silent_p.A12803A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20227							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)			AAGATTTCATAGCCACACTCA	0.378													18	27	---	---	---	---	PASS	G	179447926	G	G	179447926	2	3	145	1	0	0	0	0	0	0	0	1	16732	407	15	5		5	TTN	2	179447926	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	1628	179447926	63751447	109	51382										
CDK15	65061	broad.mit.edu	37	chr2	202700416	202700416	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agacatactcttcagaagtcGtgaccctctggtaccggccc	9	14	3	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:202700416G>T	uc002uyt.2	+	8	830	c.781G>T	c.(781-783)GTG>TTG	p.V261L	CDK15_uc010ftm.2_Missense_Mutation_p.V126L|CDK15_uc002uys.2_Missense_Mutation_p.V210L|CDK15_uc010ftn.1_Missense_Mutation_p.V210L|CDK15_uc010fto.1_Missense_Mutation_p.V240L	NM_139158	NP_631897	Q96Q40	CDK15_HUMAN	PFTAIRE protein kinase 2	261	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|metal ion binding|protein binding	p.V210M(1)		breast(2)|ovary(1)|lung(1)|kidney(1)	5					Adenosine triphosphate(DB00171)	TTCAGAAGTCGTGACCCTCTG	0.527													29	35	---	---	---	---	PASS	T	202700416	T	T	202700416	3	4	145	1	0	0	0	0	1	0	0	0	3131	1145	40	1	654	1	CDK15	2	202700416	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	23252490	202700416	40498957	110	51383										
FAM117B	150864	broad.mit.edu	37	chr2	203624028	203624028	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	caacagttatatgttcaaaaGggaacctcctgagggctgtg	11	8	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:203624028G>T	uc010zhx.1	+	7	1413	c.1403G>T	c.(1402-1404)AGG>ATG	p.R468M		NM_173511	NP_775782	Q6P1L5	F117B_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	468										ovary(1)	1						ATGTTCAAAAGGGAACCTCCT	0.393													45	67	---	---	---	---	PASS	T	203624028	T	T	203624028	3	4	145	1	0	0	0	0	1	0	0	0	5410	1000	35	3	1429	3	FAM117B	2	203624028	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	923612	203624028	39575345	111	51384										
ICOS	29851	broad.mit.edu	37	chr2	204822597	204822597	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgaacacagccaaaaaatctAgactcacaggtatgactcca	6	11	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:204822597A>G	uc002vam.2	+	4	644	c.577A>G	c.(577-579)AGA>GGA	p.R193G	ICOS_uc010zip.1_Missense_Mutation_p.R193G|ICOS_uc010fua.2_Intron	NM_012092	NP_036224	Q9Y6W8	ICOS_HUMAN	inducible T-cell co-stimulator precursor	193	Cytoplasmic (Potential).				immune response|T cell costimulation	extracellular region					0						CAAAAAATCTAGACTCACAGG	0.388													31	59	---	---	---	---	PASS	G	204822597	G	G	204822597	3	3	145	1	0	0	0	0	1	0	0	0	7486	412	15	5	591	5	ICOS	2	204822597	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	1198569	204822597	38376776	112	51385										
SPEG	10290	broad.mit.edu	37	chr2	220346141	220346141	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgagcctgagcagggaggccCggggcttcctcatcaaagtg	15	11	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:220346141C>A	uc010fwg.2	+	27	5485	c.5485C>A	c.(5485-5487)CGG>AGG	p.R1829R		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1829	Protein kinase 1.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CAGGGAGGCCCGGGGCTTCCT	0.582													25	38	---	---	---	---	PASS	A	220346141	A	A	220346141	2	1	145	1	0	0	0	0	0	0	0	1	15035	643	23	1		1	SPEG	2	220346141	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	15523544	220346141	22853232	113	51386										
PAX3	5077	broad.mit.edu	37	chr2	223066851	223066851	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccccggtgagaggggagagcGcgtaatcagtctggggctga	18	9	2	3	rs1042051		TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:223066851G>T	uc010fwo.2	-	8	1598	c.1232C>A	c.(1231-1233)GCG>GAG	p.A411E	PAX3_uc002vmt.1_Missense_Mutation_p.A411E|PAX3_uc002vmy.1_Missense_Mutation_p.A410E|PAX3_uc002vmv.1_Missense_Mutation_p.A411E|PAX3_uc002vmw.1_Intron|PAX3_uc002vmx.1_Intron	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	411					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)		AGGGGAGAGCGCGTAATCAGT	0.542			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						15	24	---	---	---	---	PASS	T	223066851	T	T	223066851	3	4	145	1	0	0	0	0	1	0	0	0	11480	1087	38	1	325	1	PAX3	2	223066851	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2720710	223066851	20132522	114	51387										
SCG2	7857	broad.mit.edu	37	chr2	224462367	224462367	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcaaatgctctttgatggccTgctcaatttgttcctcttcc	6	12	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:224462367T>A	uc002vnm.2	-	2	1767	c.1634A>T	c.(1633-1635)CAG>CTG	p.Q545L		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	545					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		TTTGATGGCCTGCTCAATTTG	0.488													42	75	---	---	---	---	PASS	A	224462367	A	A	224462367	3	1	145	1	0	0	0	0	1	0	0	0	13891	1580	55	5	223	5	SCG2	2	224462367	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	1395516	224462367	18737006	115	51388										
DOCK10	55619	broad.mit.edu	37	chr2	225657779	225657779	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gctgtgcaaatcttttccacTttccagtaacctatggtagt	7	10	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:225657779T>G	uc010fwz.1	-	47	5462	c.5223A>C	c.(5221-5223)AAA>AAC	p.K1741N	DOCK10_uc002vob.2_Missense_Mutation_p.K1735N|DOCK10_uc002voa.2_Missense_Mutation_p.K397N|DOCK10_uc002voc.2_Intron	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1741	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		TCTTTTCCACTTTCCAGTAAC	0.433													82	192	---	---	---	---	PASS	G	225657779	G	G	225657779	3	3	145	1	0	0	0	0	1	0	0	0	4685	1606	56	5	1377	5	DOCK10	2	225657779	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	1195412	225657779	17541594	116	51389										
DNER	92737	broad.mit.edu	37	chr2	230456334	230456334	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	catttctacaactttctgccCtgttttcggctgccaggtag	8	12	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:230456334C>A	uc002vpv.2	-	2	694	c.547G>T	c.(547-549)GGG>TGG	p.G183W		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	183	Extracellular (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		ACTTTCTGCCCTGTTTTCGGC	0.478													24	45	---	---	---	---	PASS	A	230456334	A	A	230456334	3	1	145	1	0	0	0	0	1	0	0	0	4667	681	24	3	1714	3	DNER	2	230456334	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	4798555	230456334	12743039	117	51390										
ECEL1	9427	broad.mit.edu	37	chr2	233348877	233348877	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtgcctcacggaatggcgggGacaggtgttcactcaggacc	15	11	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr2:233348877G>T	uc002vsv.2	-	7	1446	c.1241C>A	c.(1240-1242)TCC>TAC	p.S414Y	ECEL1_uc010fya.1_Missense_Mutation_p.S414Y|ECEL1_uc010fyb.1_Missense_Mutation_p.S121Y	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	414	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		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;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GAATGGCGGGGACAGGTGTTC	0.647													10	36	---	---	---	---	PASS	T	233348877	T	T	233348877	3	4	145	1	0	0	0	0	1	0	0	0	4891	1174	41	2	1134	2	ECEL1	2	233348877	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2892543	233348877	9850496	118	51391										
OXTR	5021	broad.mit.edu	37	chr3	8809113	8809113	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgacacgcgccagggccacgCgccccccatcgccagccgcc	11	22	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:8809113C>A	uc003brc.2	-	3	1383	c.761G>T	c.(760-762)CGC>CTC	p.R254L		NM_000916	NP_000907	P30559	OXYR_HUMAN	oxytocin receptor	254	Cytoplasmic (Potential).				female pregnancy|lactation|muscle contraction	integral to plasma membrane	oxytocin receptor activity|vasopressin receptor activity				0				OV - Ovarian serous cystadenocarcinoma(96;0.15)	Carbetocin(DB01282)	CAGGGCCACGCGCCCCCCATC	0.652													5	5	---	---	---	---	PASS	A	8809113	A	A	8809113	3	1	145	1	0	0	0	0	1	0	0	0	11338	768	27	1	416	1	OXTR	3	8809113	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08		8809113	189213317	119	51392										
C3orf20	84077	broad.mit.edu	37	chr3	14801436	14801436	+	Silent	SNP	G	C	C													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cgcctgctgcagtatgacctGgacagccccctgcaggagga							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:14801436G>C	uc003byy.2	+	14	2687	c.2283G>C	c.(2281-2283)CTG>CTC	p.L761L	C3orf20_uc003byz.2_Silent_p.L639L|C3orf20_uc003bza.2_Silent_p.L639L|C3orf20_uc003bzb.1_Silent_p.L262L|C3orf20_uc011avj.1_Silent_p.L88L	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	761						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						AGTATGACCTGGACAGCCCCC	0.562													5	35	---	---	---	---	PASS	C	14801436	C	C	14801436	2	2	145	1	0	0	0	0	0	0	0	1	2213	1335	47	4		4	C3orf20	3	14801436	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	5992323	14801436	183220994	120	51393	945	2								
C3orf20	84077	broad.mit.edu	37	chr3	14801437	14801437	+	Missense_Mutation	SNP	G	T	T													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcctgctgcagtatgacctgGacagccccctgcaggaggac							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:14801437G>T	uc003byy.2	+	14	2688	c.2284G>T	c.(2284-2286)GAC>TAC	p.D762Y	C3orf20_uc003byz.2_Missense_Mutation_p.D640Y|C3orf20_uc003bza.2_Missense_Mutation_p.D640Y|C3orf20_uc003bzb.1_Missense_Mutation_p.D263Y|C3orf20_uc011avj.1_Missense_Mutation_p.D89Y	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	762						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						GTATGACCTGGACAGCCCCCT	0.557													5	35	---	---	---	---	PASS	T	14801437	T	T	14801437	3	4	145	1	0	0	0	0	1	0	0	0	2213	1174	41	2	2330	2	C3orf20	3	14801437	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1	14801437	183220993	121	51394	945	2								
KCNH8	131096	broad.mit.edu	37	chr3	19389265	19389265	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cggagtataaagtttctgatGcaaaaaagtccaaattcata	7	6	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:19389265G>T	uc003cbk.1	+	5	814	c.619G>T	c.(619-621)GCA>TCA	p.A207S	KCNH8_uc011awe.1_Missense_Mutation_p.A207S|KCNH8_uc010hex.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	207	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						AGTTTCTGATGCAAAAAAGTC	0.368													60	94	---	---	---	---	PASS	T	19389265	T	T	19389265	3	4	145	1	0	0	0	0	1	0	0	0	8038	1319	46	3	637	3	KCNH8	3	19389265	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4587828	19389265	178633165	122	51395										
TOP2B	7155	broad.mit.edu	37	chr3	25686809	25686809	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acctgcgtcaatggctccacTgacccaatatatgtatcagg	8	12	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:25686809T>C	uc011awn.1	-	2	265	c.222A>G	c.(220-222)TCA>TCG	p.S74S	TOP2B_uc003cdj.2_Silent_p.S69S	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	74					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						ATGGCTCCACTGACCCAATAT	0.313													33	115	---	---	---	---	PASS	C	25686809	C	C	25686809	2	2	145	1	0	0	0	0	0	0	0	1	16363	1567	55	5		5	TOP2B	3	25686809	Silent	SNP	T	TCGA-66-2756-01A-01D-1522-08	6297544	25686809	172335621	123	51396										
UBP1	7342	broad.mit.edu	37	chr3	33481291	33481291	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agaggctggcgtcgaagtcgTgcaccagcccggactcgatc	14	13	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:33481291T>A	uc003cfq.3	-	1	580	c.50A>T	c.(49-51)CAC>CTC	p.H17L	UBP1_uc003cfr.3_Missense_Mutation_p.H17L|UBP1_uc010hga.2_Missense_Mutation_p.H17L	NM_014517	NP_055332	Q9NZI7	UBIP1_HUMAN	upstream binding protein 1 (LBP-1a) isoform a	17					negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|viral genome replication	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			kidney(2)	2						GTCGAAGTCGTGCACCAGCCC	0.697													13	36	---	---	---	---	PASS	A	33481291	A	A	33481291	3	1	145	1	0	0	0	0	1	0	0	0	16892	1696	59	5	1636	5	UBP1	3	33481291	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	7794482	33481291	164541139	124	51397										
SLC22A13	9390	broad.mit.edu	37	chr3	38318955	38318955	+	Nonstop_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgtgagcagcacatacttctGattgaggtctctaagagctg	11	8	2	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:38318955G>C	uc003chz.3	+	10	1709	c.1655G>C	c.(1654-1656)TGA>TCA	p.*552S		NM_004256	NP_004247	Q9Y226	S22AD_HUMAN	solute carrier family 22 (organic anion	552						integral to plasma membrane	organic cation transmembrane transporter activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0533)|Kidney(284;0.067)		ACATACTTCTGATTGAGGTCT	0.567													26	45	---	---	---	---	PASS	C	38318955	C	C	38318955	4	2	145	1	0	0	0	0	0	0	0	0	14444	1285	45	2	1693	2	SLC22A13	3	38318955	Nonstop_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4837664	38318955	159703475	125	51398										
SCN10A	6336	broad.mit.edu	37	chr3	38830446	38830446	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aatgatagcaaatctactcaCtcaattttctctggaaggtc	6	9	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:38830446C>T	uc003ciq.2	-	3	470	c.470_splice	c.e3+1	p.E157_splice		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha						sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	AATCTACTCACTCAATTTTCT	0.383													22	42	---	---	---	---	PASS	T	38830446	T	T	38830446	5	4	145	1	0	0	0	0	0	0	1	0	13912	579	20	3	5499	3	SCN10A	3	38830446	Splice_Site	SNP	C	TCGA-66-2756-01A-01D-1522-08	511491	38830446	159191984	126	51399										
KBTBD5	131377	broad.mit.edu	37	chr3	42728173	42728173	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccaagaaccacgtcagcctgGttaccaaggagaaccaggtc	10	13	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:42728173G>T	uc003clv.1	+	1	1163	c.1063G>T	c.(1063-1065)GTT>TTT	p.V355F		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	355										ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		CGTCAGCCTGGTTACCAAGGA	0.572													14	46	---	---	---	---	PASS	T	42728173	T	T	42728173	3	4	145	1	0	0	0	0	1	0	0	0	7996	1261	44	3	1065	3	KBTBD5	3	42728173	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	3897727	42728173	155294257	127	51400										
SEMA3F	6405	broad.mit.edu	37	chr3	50224169	50224169	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccagcgagatcctggtgaccGgcgccgagaggtgagttcct	15	12	0	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:50224169G>A	uc003cyj.2	+	18	2135	c.1937G>A	c.(1936-1938)CGG>CAG	p.R646Q	SEMA3F_uc003cyk.2_Missense_Mutation_p.R615Q	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	646	Ig-like C2-type.				axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		CCTGGTGACCGGCGCCGAGAG	0.612													5	15	---	---	---	---	PASS	A	50224169	A	A	50224169	3	1	145	1	0	0	0	0	1	0	0	0	14029	1116	39	1	2003	1	SEMA3F	3	50224169	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	7495996	50224169	147798261	128	51401										
CACNA1D	776	broad.mit.edu	37	chr3	53815622	53815622	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agcaagctaatgaagaacttCgggctgtgataaagaaaatt	10	5	0	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:53815622C>T	uc003dgv.3	+	39	4883	c.4720C>T	c.(4720-4722)CGG>TGG	p.R1574W	CACNA1D_uc003dgu.3_Missense_Mutation_p.R1594W|CACNA1D_uc003dgy.3_Missense_Mutation_p.R1559W|CACNA1D_uc003dgw.3_Missense_Mutation_p.R1241W|CACNA1D_uc003dgx.1_Missense_Mutation_p.R750W	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1574	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	TGAAGAACTTCGGGCTGTGAT	0.453													16	39	---	---	---	---	PASS	T	53815622	T	T	53815622	3	4	145	1	0	0	0	0	1	0	0	0	2541	875	31	2	5046	2	CACNA1D	3	53815622	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	3591453	53815622	144206808	129	51402										
PTPRG	5793	broad.mit.edu	37	chr3	62187209	62187209	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcgaatattccaagggaccaGaatagtgaaaacaggagtgg	12	6	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:62187209G>T	uc003dlb.2	+	11	2077	c.1358G>T	c.(1357-1359)AGA>ATA	p.R453I	PTPRG_uc003dlc.2_Missense_Mutation_p.R453I	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	453	Extracellular (Potential).				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)		CAAGGGACCAGAATAGTGAAA	0.333													15	29	---	---	---	---	PASS	T	62187209	T	T	62187209	3	4	145	1	0	0	0	0	1	0	0	0	12802	942	33	2	1400	2	PTPRG	3	62187209	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	8371587	62187209	135835221	130	51403										
C3orf64	285203	broad.mit.edu	37	chr3	69028822	69028822	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgcctcccaacacttacagtTcaaatacagcagcccagtct	5	15	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:69028822T>A	uc003dnl.2	-	16	1736	c.1331A>T	c.(1330-1332)GAA>GTA	p.E444V	C3orf64_uc003dnj.2_Missense_Mutation_p.E123V|C3orf64_uc003dnk.2_Missense_Mutation_p.E360V|C3orf64_uc011bfw.1_RNA	NM_173654	NP_775925	Q5NDL2	AER61_HUMAN	AER61 glycosyltransferase	444						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)	1		Lung NSC(201;0.126)		BRCA - Breast invasive adenocarcinoma(55;4.61e-05)|Epithelial(33;0.000291)|LUSC - Lung squamous cell carcinoma(21;0.0127)|KIRC - Kidney renal clear cell carcinoma(39;0.216)		CACTTACAGTTCAAATACAGC	0.393													16	51	---	---	---	---	PASS	A	69028822	A	A	69028822	3	1	145	1	0	0	0	0	1	0	0	0	2240	1783	62	5	264	5	C3orf64	3	69028822	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	6841613	69028822	128993608	131	51404										
LMOD3	56203	broad.mit.edu	37	chr3	69168128	69168128	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	actgcgttgactaaaggggaCattttgggggttgggaggcc	17	6	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:69168128C>T	uc003dns.2	-	2	1587	c.1378G>A	c.(1378-1380)GTC>ATC	p.V460I	LMOD3_uc003dnt.2_Missense_Mutation_p.V460I	NM_198271	NP_938012	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	460						cytoplasm|cytoskeleton	tropomyosin binding			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		CTAAAGGGGACATTTTGGGGG	0.567													14	38	---	---	---	---	PASS	T	69168128	T	T	69168128	3	4	145	1	0	0	0	0	1	0	0	0	8858	478	17	3	312	3	LMOD3	3	69168128	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	139306	69168128	128854302	132	51405										
MITF	4286	broad.mit.edu	37	chr3	70008496	70008496	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cgaaagttgcaacgagaacaGcaacgcgcaaaagaacttga	10	9	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:70008496G>A	uc003dnz.2	+	9	1202	c.1086G>A	c.(1084-1086)CAG>CAA	p.Q362Q	MITF_uc011bgb.1_Silent_p.Q310Q|MITF_uc003doa.2_Silent_p.Q361Q|MITF_uc003dob.2_Silent_p.Q346Q|MITF_uc003dod.2_Silent_p.Q337Q|MITF_uc003doe.2_Silent_p.Q255Q|MITF_uc003dof.2_Silent_p.Q261Q	NM_198159	NP_937802	O75030	MITF_HUMAN	microphthalmia-associated transcription factor	368					melanocyte differentiation|multicellular organismal development|protein complex assembly	nucleus|protein complex	DNA binding|protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			ovary(2)	2		Lung NSC(201;0.0384)|Prostate(884;0.0526)		BRCA - Breast invasive adenocarcinoma(55;3.07e-05)|Epithelial(33;0.000138)|LUSC - Lung squamous cell carcinoma(21;0.008)|Lung(16;0.0107)|KIRC - Kidney renal clear cell carcinoma(39;0.204)|Kidney(39;0.239)		AACGAGAACAGCAACGCGCAA	0.463			A		melanoma 		Waardenburg syndrome type 2|Tietz syndrome						16	21	---	---	---	---	PASS	A	70008496	A	A	70008496	2	1	145	1	0	0	0	0	0	0	0	1	9596	962	34	3		3	MITF	3	70008496	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	840368	70008496	128013934	133	51406										
ROBO1	6091	broad.mit.edu	37	chr3	79174626	79174626	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctgtatagcccagcgaattgTcatcgttatcagaggtgggg	13	8	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:79174626T>A	uc003dqe.2	-	3	360	c.152A>T	c.(151-153)GAC>GTC	p.D51V		NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	51	Extracellular (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		CAGCGAATTGTCATCGTTATC	0.502													9	23	---	---	---	---	PASS	A	79174626	A	A	79174626	3	1	145	1	0	0	0	0	1	0	0	0	13513	1667	58	5	4991	5	ROBO1	3	79174626	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	9166130	79174626	118847804	134	51407										
ARL13B	200894	broad.mit.edu	37	chr3	93722670	93722670	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tatttgttgtggattccagtGatgaagagagaatggaagag	14	2	0	5			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:93722670G>T	uc003drc.2	+	3	584	c.298G>T	c.(298-300)GAT>TAT	p.D100Y	ARL13B_uc010hop.2_Intron|ARL13B_uc003drd.2_Intron|ARL13B_uc003dre.2_Missense_Mutation_p.D85Y|ARL13B_uc003drf.2_Missense_Mutation_p.D100Y|ARL13B_uc003drg.2_5'UTR	NM_182896	NP_878899	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 2-like 1 isoform 1	100							GTP binding				0						GGATTCCAGTGATGAAGAGAG	0.403													6	162	---	---	---	---	PASS	T	93722670	T	T	93722670	3	4	145	1	0	0	0	0	1	0	0	0	929	1290	45	2	308	2	ARL13B	3	93722670	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	14548044	93722670	104299760	135	51408										
SENP7	57337	broad.mit.edu	37	chr3	101062529	101062529	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttatattaatgatatgctaaCctgagatactgatttcagct	6	6	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:101062529C>A	uc003dut.2	-	14	2217	c.2106_splice	c.e14+1	p.Q702_splice	SENP7_uc003duu.2_Splice_Site_p.Q637_splice|SENP7_uc003duv.2_Splice_Site_p.Q669_splice|SENP7_uc003duw.2_Splice_Site_p.Q636_splice|SENP7_uc003dux.2_Splice_Site_p.Q538_splice	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1						proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						GATATGCTAACCTGAGATACT	0.323													27	145	---	---	---	---	PASS	A	101062529	A	A	101062529	5	1	145	1	0	0	0	0	0	0	1	0	14051	521	18	3	1089	3	SENP7	3	101062529	Splice_Site	SNP	C	TCGA-66-2756-01A-01D-1522-08	7339859	101062529	96959901	136	51409										
DIRC2	84925	broad.mit.edu	37	chr3	122591354	122591354	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgtggaaactgtctacccaGttccagaaggaattacttgt	9	8	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:122591354G>T	uc003efw.3	+	8	1370	c.1231G>T	c.(1231-1233)GTT>TTT	p.V411F	DIRC2_uc010hrl.2_RNA|DIRC2_uc010hrm.2_Missense_Mutation_p.V249F	NM_032839	NP_116228	Q96SL1	DIRC2_HUMAN	disrupted in renal carcinoma 2	411					transport	integral to membrane					0				GBM - Glioblastoma multiforme(114;0.0614)		TGTCTACCCAGTTCCAGAAGG	0.343													58	355	---	---	---	---	PASS	T	122591354	T	T	122591354	3	4	145	1	0	0	0	0	1	0	0	0	4534	1029	36	3	1261	3	DIRC2	3	122591354	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	21528825	122591354	75431076	137	51410										
SEMA5B	54437	broad.mit.edu	37	chr3	122632822	122632822	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acgtgctgcacagcgcccacGatgaccacggggtccacgcc	12	17	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:122632822G>T	uc003efz.1	-	15	2319	c.2015C>A	c.(2014-2016)TCG>TAG	p.S672*	SEMA5B_uc011bju.1_Nonsense_Mutation_p.S614*|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Nonsense_Mutation_p.S672*|SEMA5B_uc010hro.1_Nonsense_Mutation_p.S614*|SEMA5B_uc003efy.1_5'Flank	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	672	Extracellular (Potential).|TSP type-1 1.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		CAGCGCCCACGATGACCACGG	0.667													13	82	---	---	---	---	PASS	T	122632822	T	T	122632822	4	4	145	1	0	0	0	0	0	1	0	0	14038	1059	37	2	1476	2	SEMA5B	3	122632822	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	41468	122632822	75389608	138	51411										
CHCHD6	84303	broad.mit.edu	37	chr3	126571494	126571494	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gttctcttccaagcaggccaGggagctggagagcagagagg	16	9	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:126571494G>T	uc003ejf.1	+	5	454	c.416G>T	c.(415-417)AGG>ATG	p.R139M	CHCHD6_uc010hsj.1_Missense_Mutation_p.R140M	NM_032343	NP_115719	Q9BRQ6	CHCH6_HUMAN	coiled-coil-helix-coiled-coil-helix domain	139											0						AAGCAGGCCAGGGAGCTGGAG	0.567													50	45	---	---	---	---	PASS	T	126571494	T	T	126571494	3	4	145	1	0	0	0	0	1	0	0	0	3320	1000	35	3	434	3	CHCHD6	3	126571494	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	3938672	126571494	71450936	139	51412										
ZBTB38	253461	broad.mit.edu	37	chr3	141161800	141161800	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gacttgagggcaagtttcaaAaaggtctccgactccatgag	11	9	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:141161800A>G	uc003etw.2	+	8	1552	c.570A>G	c.(568-570)AAA>AAG	p.K190K	ZBTB38_uc010hun.2_Silent_p.K187K|ZBTB38_uc010huo.2_Silent_p.K190K|ZBTB38_uc003ety.2_Silent_p.K190K|ZBTB38_uc010hup.2_Silent_p.K191K	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	190					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CAAGTTTCAAAAAGGTCTCCG	0.502													192	67	---	---	---	---	PASS	G	141161800	G	G	141161800	2	3	145	1	0	0	0	0	0	0	0	1	17536	11	1	5		5	ZBTB38	3	141161800	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	14590306	141161800	56860630	140	51413										
ATP1B3	483	broad.mit.edu	37	chr3	141626098	141626098	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atgcagggtacattgaagacCttaagaagtttctaaaacgt	9	6	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:141626098C>A	uc003eug.1	+	3	502	c.328C>A	c.(328-330)CTT>ATT	p.L110I	ATP1B3_uc011bne.1_RNA|ATP1B3_uc003euh.1_Missense_Mutation_p.L96I	NM_001679	NP_001670	P54709	AT1B3_HUMAN	Na+/K+ -ATPase beta 3 subunit	110	Extracellular (Potential).				ATP biosynthetic process|blood coagulation|leukocyte migration	melanosome|sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity				0						CATTGAAGACCTTAAGAAGTT	0.323													43	166	---	---	---	---	PASS	A	141626098	A	A	141626098	3	1	145	1	0	0	0	0	1	0	0	0	1134	681	24	3	338	3	ATP1B3	3	141626098	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	464298	141626098	56396332	141	51414										
SI	6476	broad.mit.edu	37	chr3	164781244	164781244	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcttacccattgcattgctaTtcattaaaaaaacaccgaat	3	10	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr3:164781244T>C	uc003fei.2	-	8	955	c.893A>G	c.(892-894)AAT>AGT	p.N298S		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	298	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)	TGCATTGCTATTCATTAAAAA	0.259										HNSCC(35;0.089)			6	151	---	---	---	---	PASS	C	164781244	C	C	164781244	3	2	145	1	0	0	0	0	1	0	0	0	14297	1493	52	5	4754	5	SI	3	164781244	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	23155146	164781244	33241186	142	51415										
ZFYVE28	57732	broad.mit.edu	37	chr4	2343282	2343282	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cttgacgcagaaatctctggGggcgcggtcctgggggatgc	17	10	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:2343282G>A	uc003gex.1	-	3	560	c.241C>T	c.(241-243)CCC>TCC	p.P81S	ZFYVE28_uc011bvk.1_Missense_Mutation_p.P11S|ZFYVE28_uc011bvl.1_Missense_Mutation_p.P81S|ZFYVE28_uc003gey.3_Missense_Mutation_p.P11S|ZFYVE28_uc003gez.2_Missense_Mutation_p.P34S|ZFYVE28_uc003gew.1_5'Flank	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	81					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						AAATCTCTGGGGGCGCGGTCC	0.582													29	42	---	---	---	---	PASS	A	2343282	A	A	2343282	3	1	145	1	0	0	0	0	1	0	0	0	17667	1232	43	3	2686	3	ZFYVE28	4	2343282	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08		2343282	188810994	143	51416										
LDB2	9079	broad.mit.edu	37	chr4	16510279	16510279	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tggaatttttcctttttctcCgtttggttgttggttgcctt	9	7	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:16510279C>T	uc003goz.2	-	7	1086	c.770G>A	c.(769-771)CGG>CAG	p.R257Q	LDB2_uc003gpa.2_Missense_Mutation_p.R257Q|LDB2_uc003gpb.2_Missense_Mutation_p.R257Q|LDB2_uc011bxh.1_Missense_Mutation_p.R229Q|LDB2_uc010iee.2_Missense_Mutation_p.R257Q|LDB2_uc003goy.2_Missense_Mutation_p.R132Q|LDB2_uc011bxi.1_Missense_Mutation_p.R133Q	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	257							LIM domain binding|transcription cofactor activity				0						CCTTTTTCTCCGTTTGGTTGT	0.478													45	54	---	---	---	---	PASS	T	16510279	T	T	16510279	3	4	145	1	0	0	0	0	1	0	0	0	8696	652	23	1	468	1	LDB2	4	16510279	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	14166997	16510279	174643997	144	51417										
LGI2	55203	broad.mit.edu	37	chr4	25014047	25014047	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gctgggctgcgcgatggccaCgtacacatcgttcttggagt	14	11	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:25014047C>A	uc003grf.2	-	7	829	c.730G>T	c.(730-732)GTG>TTG	p.V244L		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	244	EAR 1.					extracellular region					0		Breast(46;0.173)				GCGATGGCCACGTACACATCG	0.468													81	76	---	---	---	---	PASS	A	25014047	A	A	25014047	3	1	145	1	0	0	0	0	1	0	0	0	8752	536	19	1	915	1	LGI2	4	25014047	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	8503768	25014047	166140229	145	51418										
PCDH7	5099	broad.mit.edu	37	chr4	30724143	30724143	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgacgagacgtccggctggCtcagcgtcctgcaccggatc	13	14	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:30724143C>A	uc003gsk.1	+	1	2107	c.1099C>A	c.(1099-1101)CTC>ATC	p.L367I	PCDH7_uc011bxw.1_Missense_Mutation_p.L320I|PCDH7_uc011bxx.1_Missense_Mutation_p.L367I	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	367	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GTCCGGCTGGCTCAGCGTCCT	0.692													21	15	---	---	---	---	PASS	A	30724143	A	A	30724143	3	1	145	1	0	0	0	0	1	0	0	0	11516	797	28	3	1101	3	PCDH7	4	30724143	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	5710096	30724143	160430133	146	51419										
PCDH7	5099	broad.mit.edu	37	chr4	30725461	30725461	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgtggtttccttagtgggaaAactcacccaaaagcattatg	9	8	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:30725461A>C	uc003gsk.1	+	1	3425	c.2417A>C	c.(2416-2418)AAA>ACA	p.K806T	PCDH7_uc011bxw.1_Missense_Mutation_p.K759T|PCDH7_uc011bxx.1_Missense_Mutation_p.K806T	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	806	Extracellular (Potential).|Cadherin 7.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						TTAGTGGGAAAACTCACCCAA	0.498													11	26	---	---	---	---	PASS	C	30725461	C	C	30725461	3	2	145	1	0	0	0	0	1	0	0	0	11516	14	1	5	2419	5	PCDH7	4	30725461	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	1318	30725461	160428815	147	51420										
ARAP2	116984	broad.mit.edu	37	chr4	36160997	36160997	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	attccatttgcagactttgcCcagctttcttggctagcaga	8	11	1	2	rs112661490		TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:36160997C>A	uc003gsq.1	-	14	2911	c.2573G>T	c.(2572-2574)GGG>GTG	p.G858V		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	858					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						CAGACTTTGCCCAGCTTTCTT	0.468													32	114	---	---	---	---	PASS	A	36160997	A	A	36160997	3	1	145	1	0	0	0	0	1	0	0	0	839	623	22	3	2621	3	ARAP2	4	36160997	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	5435536	36160997	154993279	148	51421										
FRYL	285527	broad.mit.edu	37	chr4	48584729	48584729	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gaaagccagagcacgcagttCttcatccatatgaattgtga	9	9	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:48584729C>A	uc003gyh.1	-	20	2376	c.1771G>T	c.(1771-1773)GAA>TAA	p.E591*	FRYL_uc003gyk.2_Nonsense_Mutation_p.E591*	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	591					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						GCACGCAGTTCTTCATCCATA	0.368													30	118	---	---	---	---	PASS	A	48584729	A	A	48584729	4	1	145	1	0	0	0	0	0	1	0	0	6064	922	32	2	7450	2	FRYL	4	48584729	Nonsense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	12423732	48584729	142569547	149	51422										
NMU	10874	broad.mit.edu	37	chr4	56465343	56465343	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctgctgaccttcttccattCcgtggctgaaaaataataga	7	11	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:56465343C>T	uc003hbc.2	-	9	601	c.495G>A	c.(493-495)CGG>CGA	p.R165R	NMU_uc003hbd.1_RNA|NMU_uc010igv.1_RNA|NMU_uc010igw.1_Silent_p.R80R|NMU_uc010igx.1_RNA	NM_006681	NP_006672	P48645	NMU_HUMAN	neuromedin U precursor	165					neuropeptide signaling pathway	extracellular region					0	Lung NSC(11;0.00256)|all_epithelial(27;0.075)|Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.103)	LUSC - Lung squamous cell carcinoma(4;6.72e-08)|Lung(4;6.22e-07)|Epithelial(7;0.00559)	LUSC - Lung squamous cell carcinoma(721;0.0115)		TTCTTCCATTCCGTGGCTGAA	0.289													4	33	---	---	---	---	PASS	T	56465343	T	T	56465343	2	4	145	1	0	0	0	0	0	0	0	1	10505	842	30	2		2	NMU	4	56465343	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	7880614	56465343	134688933	150	51423										
KIAA1211	57482	broad.mit.edu	37	chr4	57181602	57181602	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tccccgaggccccggcgacgCgagggcgggcagcgggaagg	20	14	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:57181602C>T	uc003hbk.2	+	8	2325	c.1934C>T	c.(1933-1935)GCG>GTG	p.A645V	KIAA1211_uc010iha.2_Missense_Mutation_p.A638V|KIAA1211_uc011bzz.1_Missense_Mutation_p.A555V|KIAA1211_uc003hbm.1_Missense_Mutation_p.A531V	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	645										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					CCCGGCGACGCGAGGGCGGGC	0.667													6	11	---	---	---	---	PASS	T	57181602	T	T	57181602	3	4	145	1	0	0	0	0	1	0	0	0	8215	768	27	1	1952	1	KIAA1211	4	57181602	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	716259	57181602	133972674	151	51424										
LPHN3	23284	broad.mit.edu	37	chr4	62812663	62812663	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtggcctttgtcctgtataaCaacttgggtccttatttatc	8	9	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:62812663C>A	uc010ihh.2	+	13	2420	c.2247C>A	c.(2245-2247)AAC>AAA	p.N749K	LPHN3_uc003hcq.3_Missense_Mutation_p.N749K|LPHN3_uc003hct.2_Missense_Mutation_p.N142K	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	736	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						TCCTGTATAACAACTTGGGTC	0.373													59	202	---	---	---	---	PASS	A	62812663	A	A	62812663	3	1	145	1	0	0	0	0	1	0	0	0	8917	477	17	3	2297	3	LPHN3	4	62812663	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	5631061	62812663	128341613	152	51425										
TECRL	253017	broad.mit.edu	37	chr4	65175635	65175635	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggatgtagtgtatacaatgaCagaagcaagccaagctggaa	12	6	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:65175635C>A	uc003hcv.2	-	6	675	c.566G>T	c.(565-567)TGT>TTT	p.C189F	TECRL_uc003hcw.2_Missense_Mutation_p.C189F	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	189					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						TATACAATGACAGAAGCAAGC	0.333													39	55	---	---	---	---	PASS	A	65175635	A	A	65175635	3	1	145	1	0	0	0	0	1	0	0	0	15743	478	17	3	553	3	TECRL	4	65175635	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2362972	65175635	125978641	153	51426										
UGT2B4	7363	broad.mit.edu	37	chr4	70351093	70351093	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	attccatggtagattgcctcAtagatgccattggctccacc	8	12	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:70351093A>G	uc003hek.3	-	5	1190	c.1143T>C	c.(1141-1143)TAT>TAC	p.Y381Y	UGT2B4_uc011cap.1_Silent_p.Y245Y|UGT2B4_uc003hel.3_Intron	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	381					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						AGATTGCCTCATAGATGCCAT	0.418													74	208	---	---	---	---	PASS	G	70351093	G	G	70351093	2	3	145	1	0	0	0	0	0	0	0	1	16958	224	8	5		5	UGT2B4	4	70351093	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	5175458	70351093	120803183	154	51427										
UGT2B4	7363	broad.mit.edu	37	chr4	70361501	70361501	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gaattctgtgggccacaccaGcacctttccacaactcccag	7	16	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:70361501G>T	uc003hek.3	-	1	126	c.79C>A	c.(79-81)CTG>ATG	p.L27M	UGT2B4_uc011cap.1_Intron|UGT2B4_uc003hel.3_Missense_Mutation_p.L27M	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	27					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						GGCCACACCAGCACCTTTCCA	0.463													47	184	---	---	---	---	PASS	T	70361501	T	T	70361501	3	4	145	1	0	0	0	0	1	0	0	0	16958	962	34	3	1531	3	UGT2B4	4	70361501	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	10408	70361501	120792775	155	51428										
CDKL2	8999	broad.mit.edu	37	chr4	76522207	76522207	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	attgtgtgtaagtgggggaaTtgccacgcttggattccttg	14	6	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:76522207T>C	uc003hiq.2	-	9	1759	c.1234A>G	c.(1234-1236)ATT>GTT	p.I412V	CDKL2_uc011cbp.1_Missense_Mutation_p.I412V	NM_003948	NP_003939	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2	412					sex differentiation|signal transduction	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(2)|stomach(2)|breast(2)|skin(1)	7			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			AGTGGGGGAATTGCCACGCTT	0.463													108	133	---	---	---	---	PASS	C	76522207	C	C	76522207	3	2	145	1	0	0	0	0	1	0	0	0	3154	1493	52	5	259	5	CDKL2	4	76522207	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	6160706	76522207	114632069	156	51429										
PPEF2	5470	broad.mit.edu	37	chr4	76811182	76811182	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gggaaggagaggcgtggcccCgtgtaactgtcgggtacctc	17	10	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:76811182C>A	uc003hix.2	-	5	702	c.345G>T	c.(343-345)ACG>ACT	p.T115T	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Silent_p.T115T	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	115					detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			GGCGTGGCCCCGTGTAACTGT	0.537													63	143	---	---	---	---	PASS	A	76811182	A	A	76811182	2	1	145	1	0	0	0	0	0	0	0	1	12308	639	23	1		1	PPEF2	4	76811182	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	288975	76811182	114343094	157	51430										
FGF5	2250	broad.mit.edu	37	chr4	81207620	81207620	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaagaggaaaagccaaacgaGggtgcagcccccgggttaaa	13	9	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:81207620G>T	uc003hmd.2	+	3	838	c.601G>T	c.(601-603)GGG>TGG	p.G201W	FGF5_uc003hme.2_3'UTR	NM_004464	NP_004455	P12034	FGF5_HUMAN	fibroblast growth factor 5 isoform 1 precursor	201					cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	fibroblast growth factor receptor binding|growth factor activity			ovary(1)|breast(1)	2						AGCCAAACGAGGGTGCAGCCC	0.468													71	93	---	---	---	---	PASS	T	81207620	T	T	81207620	3	4	145	1	0	0	0	0	1	0	0	0	5855	1000	35	3	611	3	FGF5	4	81207620	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4396438	81207620	109946656	158	51431										
RASGEF1B	153020	broad.mit.edu	37	chr4	82369222	82369222	+	Splice_Site	SNP	C	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	caatgatgataacggccttaCcagctctatatgagtcagct							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:82369222C>A	uc003hmi.1	-	5	798	c.654_splice	c.e5+1	p.L218_splice	RASGEF1B_uc003hmj.1_Splice_Site_p.L217_splice|RASGEF1B_uc010ijq.1_Splice_Site_p.L176_splice	NM_152545	NP_689758	Q0VAM2	RGF1B_HUMAN	RasGEF domain family, member 1B						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						AACGGCCTTACCAGCTCTATA	0.463													59	56	---	---	---	---	PASS	A	82369222	A	A	82369222	5	1	145	1	0	0	0	0	0	0	1	0	13070	521	18	3	806	3	RASGEF1B	4	82369222	Splice_Site	SNP	C	TCGA-66-2756-01A-01D-1522-08	1161602	82369222	108785054	159	51432	946	2								
RASGEF1B	153020	broad.mit.edu	37	chr4	82369223	82369223	+	Silent	SNP	C	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aatgatgataacggccttacCagctctatatgagtcagctg							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:82369223C>A	uc003hmi.1	-	5	798	c.654G>T	c.(652-654)CTG>CTT	p.L218L	RASGEF1B_uc003hmj.1_Silent_p.L217L|RASGEF1B_uc010ijq.1_Silent_p.L176L	NM_152545	NP_689758	Q0VAM2	RGF1B_HUMAN	RasGEF domain family, member 1B	218	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						ACGGCCTTACCAGCTCTATAT	0.463													59	56	---	---	---	---	PASS	A	82369223	A	A	82369223	2	1	145	1	0	0	0	0	0	0	0	1	13070	608	21	3		3	RASGEF1B	4	82369223	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	1	82369223	108785053	160	51433	946	2								
ENOPH1	58478	broad.mit.edu	37	chr4	83369094	83369094	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acattttatttccttacatcGaagaaaatgttaaagagtat	5	5	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:83369094G>C	uc003hmv.2	+	2	363	c.106G>C	c.(106-108)GAA>CAA	p.E36Q	ENOPH1_uc003hmw.2_5'UTR|ENOPH1_uc003hmx.2_5'UTR	NM_021204	NP_067027	Q9UHY7	ENOPH_HUMAN	enolase-phosphatase 1	36					L-methionine salvage from methylthioadenosine	cytoplasm|nucleus	2,3-diketo-5-methylthiopentyl-1-phosphate enolase activity|2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase activity|acireductone synthase activity|magnesium ion binding|phosphoglycolate phosphatase activity				0						TCCTTACATCGAAGAAAATGT	0.368													20	22	---	---	---	---	PASS	C	83369094	C	C	83369094	3	2	145	1	0	0	0	0	1	0	0	0	5124	1059	37	2	112	2	ENOPH1	4	83369094	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	999871	83369094	107785182	161	51434										
PTPN13	5783	broad.mit.edu	37	chr4	87671973	87671973	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaaccgttgcagagttggtgGgaaaaccttctcaccagatg	11	9	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:87671973G>T	uc003hpz.2	+	18	3481	c.3001G>T	c.(3001-3003)GGA>TGA	p.G1001*	PTPN13_uc003hpy.2_Nonsense_Mutation_p.G1001*|PTPN13_uc003hqa.2_Nonsense_Mutation_p.G1001*|PTPN13_uc003hqb.2_Intron	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1001						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		AGAGTTGGTGGGAAAACCTTC	0.398													13	29	---	---	---	---	PASS	T	87671973	T	T	87671973	4	4	145	1	0	0	0	0	0	1	0	0	12782	1233	43	3	3067	3	PTPN13	4	87671973	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4302879	87671973	103482303	162	51435										
PDLIM5	10611	broad.mit.edu	37	chr4	95583637	95583637	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cccatagaagctggtgacatGttcctggaagctctgggcta	12	10	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:95583637G>T	uc003hti.2	+	12	1801	c.1650G>T	c.(1648-1650)ATG>ATT	p.M550I	PDLIM5_uc011cdx.1_Missense_Mutation_p.M447I|PDLIM5_uc003hth.2_Missense_Mutation_p.M441I|PDLIM5_uc003htj.2_Missense_Mutation_p.M225I|PDLIM5_uc003htk.2_Missense_Mutation_p.M579I|PDLIM5_uc011cdy.1_Missense_Mutation_p.M428I|PDLIM5_uc003htl.2_Missense_Mutation_p.M225I	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	550	LIM zinc-binding 3.				regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		CTGGTGACATGTTCCTGGAAG	0.413													72	89	---	---	---	---	PASS	T	95583637	T	T	95583637	3	4	145	1	0	0	0	0	1	0	0	0	11683	1377	48	3	1852	3	PDLIM5	4	95583637	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	7911664	95583637	95570639	163	51436										
MTTP	4547	broad.mit.edu	37	chr4	100542253	100542253	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaccactgacatcacagtggActcctcttttgtgaaagctg	8	11	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:100542253A>T	uc003hvc.3	+	18	2634	c.2378A>T	c.(2377-2379)GAC>GTC	p.D793V	MTTP_uc011cej.1_Missense_Mutation_p.D820V	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	793					lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	ATCACAGTGGACTCCTCTTTT	0.388													62	70	---	---	---	---	PASS	T	100542253	T	T	100542253	3	4	145	1	0	0	0	0	1	0	0	0	9964	275	10	5	2444	5	MTTP	4	100542253	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	4958616	100542253	90612023	164	51437										
CFI	3426	broad.mit.edu	37	chr4	110663664	110663664	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tacctgcacattccatttctTtttcatagaaacgatttccg	4	11	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:110663664T>G	uc003hzr.3	-	12	1725	c.1517A>C	c.(1516-1518)AAA>ACA	p.K506T	CFI_uc003hzq.2_Missense_Mutation_p.K303T|CFI_uc011cft.1_Missense_Mutation_p.K514T|CFI_uc003hzs.3_Missense_Mutation_p.K499T	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	506	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		TTCCATTTCTTTTTCATAGAA	0.393													56	40	---	---	---	---	PASS	G	110663664	G	G	110663664	3	3	145	1	0	0	0	0	1	0	0	0	3289	1841	64	5	242	5	CFI	4	110663664	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	10121411	110663664	80490612	165	51438										
ENPEP	2028	broad.mit.edu	37	chr4	111482577	111482577	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tctagatggagagcttttttGcaaaatatccacaagctgga	9	7	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:111482577G>T	uc003iab.3	+	20	3079	c.2737G>T	c.(2737-2739)GCA>TCA	p.A913S		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	913	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	GAGCTTTTTTGCAAAATATCC	0.363													15	34	---	---	---	---	PASS	T	111482577	T	T	111482577	3	4	145	1	0	0	0	0	1	0	0	0	5128	1319	46	3	2815	3	ENPEP	4	111482577	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	818913	111482577	79671699	166	51439										
PRSS12	8492	broad.mit.edu	37	chr4	119219991	119219991	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccaatatcttgcttgatacaGtcagccaaggacctctcatt	6	12	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:119219991G>T	uc003ica.1	-	9	1781	c.1734C>A	c.(1732-1734)GAC>GAA	p.D578E		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	578	SRCR 4.					membrane	scavenger receptor activity			skin(1)	1						GCTTGATACAGTCAGCCAAGG	0.453													58	67	---	---	---	---	PASS	T	119219991	T	T	119219991	3	4	145	1	0	0	0	0	1	0	0	0	12615	1020	36	3	913	3	PRSS12	4	119219991	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	7737414	119219991	71934285	167	51440										
PRDM5	11107	broad.mit.edu	37	chr4	121774680	121774680	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	caaaatgtacaaaacttctcCcttactcccacgaacctgaa	3	14	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:121774680C>A	uc003idn.2	-	3	443	c.193G>T	c.(193-195)GGA>TGA	p.G65*	PRDM5_uc003ido.2_Nonsense_Mutation_p.G65*|PRDM5_uc010ine.2_Nonsense_Mutation_p.G65*|PRDM5_uc010inf.2_Nonsense_Mutation_p.G65*|PRDM5_uc003idp.1_Nonsense_Mutation_p.G65*	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	65	SET.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						AAAACTTCTCCCTTACTCCCA	0.448													97	238	---	---	---	---	PASS	A	121774680	A	A	121774680	4	1	145	1	0	0	0	0	0	1	0	0	12460	632	22	3	1755	3	PRDM5	4	121774680	Nonsense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2554689	121774680	69379596	168	51441										
FAT4	79633	broad.mit.edu	37	chr4	126242174	126242174	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atatcacaaaacgcccttgcTgcagacccatcagctgtgat	7	13	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:126242174T>A	uc003ifj.3	+	1	4608	c.4608T>A	c.(4606-4608)GCT>GCA	p.A1536A		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1536	Cadherin 15.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACGCCCTTGCTGCAGACCCAT	0.428													56	205	---	---	---	---	PASS	A	126242174	A	A	126242174	2	1	145	1	0	0	0	0	0	0	0	1	5692	1567	55	5		5	FAT4	4	126242174	Silent	SNP	T	TCGA-66-2756-01A-01D-1522-08	4467494	126242174	64912102	169	51442										
FAT4	79633	broad.mit.edu	37	chr4	126369706	126369706	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttcgggtagaaattctgaaaAatttcacattgacccactga	7	8	2	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:126369706A>T	uc003ifj.3	+	9	7535	c.7535A>T	c.(7534-7536)AAA>ATA	p.K2512I	FAT4_uc011cgp.1_Missense_Mutation_p.K810I|FAT4_uc003ifi.1_5'UTR	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2512	Extracellular (Potential).|Cadherin 24.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AATTCTGAAAAATTTCACATT	0.428													25	83	---	---	---	---	PASS	T	126369706	T	T	126369706	3	4	145	1	0	0	0	0	1	0	0	0	5692	14	1	5	7569	5	FAT4	4	126369706	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	127532	126369706	64784570	170	51443										
TRIM2	23321	broad.mit.edu	37	chr4	154197105	154197105	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcctgcccagtgtgccgccaGacctccatcctgcccgagaa	9	18	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:154197105G>T	uc003ing.2	+	3	396	c.195G>T	c.(193-195)CAG>CAT	p.Q65H	TRIM2_uc003inh.2_Missense_Mutation_p.Q92H|TRIM2_uc003ini.1_Missense_Mutation_p.Q83H	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	65						cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		TGTGCCGCCAGACCTCCATCC	0.577													15	87	---	---	---	---	PASS	T	154197105	T	T	154197105	3	4	145	1	0	0	0	0	1	0	0	0	16491	933	33	2	286	2	TRIM2	4	154197105	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	27827399	154197105	36957171	171	51444										
DCHS2	54798	broad.mit.edu	37	chr4	155156620	155156620	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agtggcatccacagggaccaCctcgttactgcagtcgtcag	11	13	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:155156620C>T	uc003inw.2	-	25	7819	c.7819G>A	c.(7819-7821)GTG>ATG	p.V2607M		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2607					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		ACAGGGACCACCTCGTTACTG	0.483													39	123	---	---	---	---	PASS	T	155156620	T	T	155156620	3	4	145	1	0	0	0	0	1	0	0	0	4288	507	18	3	935	3	DCHS2	4	155156620	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	959515	155156620	35997656	172	51445										
NPY2R	4887	broad.mit.edu	37	chr4	156135540	156135540	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aattgccctggaccggcacaGgtgcatcgtctaccacctag	10	14	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:156135540G>T	uc003ioq.2	+	2	944	c.449G>T	c.(448-450)AGG>ATG	p.R150M	NPY2R_uc003ior.2_Missense_Mutation_p.R150M	NM_000910	NP_000901	P49146	NPY2R_HUMAN	neuropeptide Y receptor Y2	150	Cytoplasmic (Potential).				cardiac left ventricle morphogenesis|inhibition of adenylate cyclase activity by G-protein signaling pathway|locomotory behavior|outflow tract morphogenesis	integral to plasma membrane	calcium channel regulator activity			lung(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0854)				GACCGGCACAGGTGCATCGTC	0.562													34	26	---	---	---	---	PASS	T	156135540	T	T	156135540	3	4	145	1	0	0	0	0	1	0	0	0	10609	1000	35	3	451	3	NPY2R	4	156135540	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	978920	156135540	35018736	173	51446										
FSTL5	56884	broad.mit.edu	37	chr4	162402218	162402218	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	caacaataaggactctgtccAaagttggctgtgcaacataa	8	9	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr4:162402218A>T	uc003iqh.2	-	13	1998	c.1562T>A	c.(1561-1563)TTG>TAG	p.L521*	FSTL5_uc003iqi.2_Nonsense_Mutation_p.L520*|FSTL5_uc010iqv.2_Nonsense_Mutation_p.L511*	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	521						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		GACTCTGTCCAAAGTTGGCTG	0.348													53	206	---	---	---	---	PASS	T	162402218	T	T	162402218	4	4	145	1	0	0	0	0	0	1	0	0	6080	131	5	5	997	5	FSTL5	4	162402218	Nonsense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	6266678	162402218	28752058	174	51447										
ZDHHC11	79844	broad.mit.edu	37	chr5	801262	801262	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgtcagttttcatgggctctGttgtttcttgttgcagcctg	11	8	4	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:801262G>T	uc011cma.1	-	12	1583	c.1199C>A	c.(1198-1200)ACA>AAA	p.T400K	ZDHHC11_uc010itc.2_RNA|ZDHHC11_uc003jbj.2_RNA	NM_024786	NP_079062	Q9H8X9	ZDH11_HUMAN	zinc finger, DHHC-type containing 11	400						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)|pancreas(1)	2			Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)			CATGGGCTCTGTTGTTTCTTG	0.403													31	358	---	---	---	---	PASS	T	801262	T	T	801262	3	4	145	1	0	0	0	0	1	0	0	0	17598	1377	48	3	43	3	ZDHHC11	5	801262	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08		801262	180113998	175	51448										
TAS2R1	50834	broad.mit.edu	37	chr5	9629530	9629530	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	actgtgtttctcatttgccgGgtgtgcctccccagagagaa	11	11	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:9629530G>A	uc003jem.1	-	1	934	c.615C>T	c.(613-615)ACC>ACT	p.T205T		NM_019599	NP_062545	Q9NYW7	TA2R1_HUMAN	taste receptor T2R1	205	Cytoplasmic (Potential).				chemosensory behavior|sensory perception of taste	integral to membrane	taste receptor activity			ovary(3)	3						TCATTTGCCGGGTGTGCCTCC	0.502													5	171	---	---	---	---	PASS	A	9629530	A	A	9629530	2	1	145	1	0	0	0	0	0	0	0	1	15562	1219	43	3		3	TAS2R1	5	9629530	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	8828268	9629530	171285730	176	51449										
MARCH6	10299	broad.mit.edu	37	chr5	10414598	10414598	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttactgattgccagcctcatCtgccttactttaccaggtat	6	12	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:10414598C>T	uc003jet.1	+	20	2133	c.1950C>T	c.(1948-1950)ATC>ATT	p.I650I	MARCH6_uc011cmu.1_Silent_p.I602I|MARCH6_uc003jeu.1_Silent_p.I348I|MARCH6_uc011cmv.1_Silent_p.I545I	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	650	Helical; (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						CCAGCCTCATCTGCCTTACTT	0.318													288	121	---	---	---	---	PASS	T	10414598	T	T	10414598	2	4	145	1	0	0	0	0	0	0	0	1	9305	903	32	2		2	MARCH6	5	10414598	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	785068	10414598	170500662	177	51450										
CTNND2	1501	broad.mit.edu	37	chr5	11384928	11384928	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agctggtggatgggcgaggaGgagatggtggactgcacggt	21	5	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:11384928G>A	uc003jfa.1	-	7	1171	c.1026C>T	c.(1024-1026)TCC>TCT	p.S342S	CTNND2_uc010itt.2_Silent_p.S251S|CTNND2_uc011cmy.1_Intron|CTNND2_uc011cmz.1_Intron|CTNND2_uc010itu.1_Intron|CTNND2_uc011cmx.1_5'UTR	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	342					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						TGGGCGAGGAGGAGATGGTGG	0.667													74	24	---	---	---	---	PASS	A	11384928	A	A	11384928	2	1	145	1	0	0	0	0	0	0	0	1	4020	987	35	3		3	CTNND2	5	11384928	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	970330	11384928	169530332	178	51451										
DNAH5	1767	broad.mit.edu	37	chr5	13811766	13811766	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agcaatttaccttcagaggaAtcaggccttgaagcatgtta	9	8	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:13811766A>C	uc003jfd.2	-	44	7439	c.7397T>G	c.(7396-7398)ATT>AGT	p.I2466S		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2466					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CTTCAGAGGAATCAGGCCTTG	0.403									Kartagener_syndrome				7	468	---	---	---	---	PASS	C	13811766	C	C	13811766	3	2	145	1	0	0	0	0	1	0	0	0	4604	101	4	5	6621	5	DNAH5	5	13811766	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	2426838	13811766	167103494	179	51452										
TRIO	7204	broad.mit.edu	37	chr5	14465677	14465677	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcttctcggttattagtccgCcccaccagctccgaaacacc	6	17	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:14465677C>T	uc003jff.2	+	37	5697	c.5691C>T	c.(5689-5691)CGC>CGT	p.R1897R	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Silent_p.R1546R|TRIO_uc003jfi.1_Silent_p.R200R	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1897					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					TATTAGTCCGCCCCACCAGCT	0.517													14	223	---	---	---	---	PASS	T	14465677	T	T	14465677	2	4	145	1	0	0	0	0	0	0	0	1	16549	726	26	3		3	TRIO	5	14465677	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	653911	14465677	166449583	180	51453										
ZNF622	90441	broad.mit.edu	37	chr5	16465700	16465700	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aggttgtagcggtgccagtcCgtcttatagtgggcccgctg	15	10	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:16465700C>G	uc003jfq.2	-	1	195	c.75G>C	c.(73-75)ACG>ACC	p.T25T		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	25	U1-type 1.					cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						GGTGCCAGTCCGTCTTATAGT	0.672													18	147	---	---	---	---	PASS	G	16465700	G	G	16465700	2	3	145	1	0	0	0	0	0	0	0	1	18043	639	23	4		4	ZNF622	5	16465700	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	2000023	16465700	164449560	181	51454										
CDH12	1010	broad.mit.edu	37	chr5	21975465	21975465	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gagagggtgtatttcacagtGccctctcccttgtctaagtc	10	11	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:21975465G>A	uc010iuc.2	-	3	719	c.261C>T	c.(259-261)GGC>GGT	p.G87G	CDH12_uc011cno.1_Silent_p.G87G|CDH12_uc003jgk.2_Silent_p.G87G	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	87	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						ATTTCACAGTGCCCTCTCCCT	0.368										HNSCC(59;0.17)			318	142	---	---	---	---	PASS	A	21975465	A	A	21975465	2	1	145	1	0	0	0	0	0	0	0	1	3098	1306	46	3		3	CDH12	5	21975465	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	5509765	21975465	158939795	182	51455										
PDZD2	23037	broad.mit.edu	37	chr5	32087950	32087950	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acccaccagccggggctggaGgtgggagctcctgccgtgcc	16	15	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:32087950G>C	uc003jhl.2	+	20	4784	c.4396G>C	c.(4396-4398)GGT>CGT	p.G1466R	PDZD2_uc003jhm.2_Missense_Mutation_p.G1466R	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1466					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CGGGGCTGGAGGTGGGAGCTC	0.706													31	14	---	---	---	---	PASS	C	32087950	C	C	32087950	3	2	145	1	0	0	0	0	1	0	0	0	11701	1000	35	4	4470	4	PDZD2	5	32087950	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	10112485	32087950	148827310	183	51456										
NPR3	4883	broad.mit.edu	37	chr5	32774933	32774933	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaaattatacagcagacttgGaacagaacatttgaaggtgg	10	5	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:32774933G>T	uc003jhv.2	+	4	1397	c.1179G>T	c.(1177-1179)TGG>TGT	p.W393C	NPR3_uc010iuo.2_Missense_Mutation_p.W177C|NPR3_uc011cnz.1_Missense_Mutation_p.W177C|NPR3_uc003jhu.2_Missense_Mutation_p.W393C	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	393	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	AGCAGACTTGGAACAGAACAT	0.453													58	350	---	---	---	---	PASS	T	32774933	T	T	32774933	3	4	145	1	0	0	0	0	1	0	0	0	10596	1183	41	2	1193	2	NPR3	5	32774933	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	686983	32774933	148140327	184	51457										
TARS	6897	broad.mit.edu	37	chr5	33461108	33461108	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gctgtctggagcactcacagGactcacccgggtacgaagat	12	12	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:33461108G>C	uc003jhy.2	+	12	1647	c.1352G>C	c.(1351-1353)GGA>GCA	p.G451A	TARS_uc011cob.1_Missense_Mutation_p.G439A|TARS_uc010iup.1_Missense_Mutation_p.G392A|TARS_uc011coc.1_Missense_Mutation_p.G472A|TARS_uc003jhz.2_Missense_Mutation_p.G347A|TARS_uc011cod.1_Missense_Mutation_p.G330A	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	451					threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)	GCACTCACAGGACTCACCCGG	0.493													46	286	---	---	---	---	PASS	C	33461108	C	C	33461108	3	2	145	1	0	0	0	0	1	0	0	0	15556	1174	41	2	1398	2	TARS	5	33461108	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	686175	33461108	147454152	185	51458										
IL7R	3575	broad.mit.edu	37	chr5	35873682	35873682	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atccatccctgatcactattTtaaaggcttctggagtgaat	7	9	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:35873682T>G	uc003jjs.2	+	5	727	c.638T>G	c.(637-639)TTT>TGT	p.F213C	IL7R_uc011coo.1_Missense_Mutation_p.F213C|IL7R_uc011cop.1_Intron	NM_002185	NP_002176	P16871	IL7RA_HUMAN	interleukin 7 receptor precursor	213	Extracellular (Potential).|Fibronectin type-III.				immune response|regulation of DNA recombination	extracellular region|integral to membrane	antigen binding|interleukin-7 receptor activity			ovary(3)|breast(1)|skin(1)	5	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			GATCACTATTTTAAAGGCTTC	0.423													9	310	---	---	---	---	PASS	G	35873682	G	G	35873682	3	3	145	1	0	0	0	0	1	0	0	0	7705	1841	64	5	656	5	IL7R	5	35873682	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	2412574	35873682	145041578	186	51459										
C5orf51	285636	broad.mit.edu	37	chr5	41909865	41909865	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	taggctattttggacatgacAtattttgaggagaacaagct	10	5	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:41909865A>T	uc003jmo.2	+	3	225	c.225A>T	c.(223-225)ACA>ACT	p.T75T		NM_175921	NP_787117	A6NDU8	CE051_HUMAN	hypothetical protein LOC285636	75											0						TGGACATGACATATTTTGAGG	0.294													25	129	---	---	---	---	PASS	T	41909865	T	T	41909865	2	4	145	1	0	0	0	0	0	0	0	1	2308	204	8	5		5	C5orf51	5	41909865	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	6036183	41909865	139005395	187	51460										
HTR1A	3350	broad.mit.edu	37	chr5	63257019	63257019	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tccgagcggtcttccggggtGcgccagcccagcatgggcgg	17	14	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:63257019G>T	uc011cqt.1	-	1	528	c.528C>A	c.(526-528)CGC>CGA	p.R176R		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	176	Helical; Name=4; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	CTTCCGGGGTGCGCCAGCCCA	0.597													59	58	---	---	---	---	PASS	T	63257019	T	T	63257019	2	4	145	1	0	0	0	0	0	0	0	1	7436	1306	46	3		3	HTR1A	5	63257019	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	21347154	63257019	117658241	188	51461										
IQGAP2	10788	broad.mit.edu	37	chr5	75954376	75954376	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tccaggaggaactagaggttGcacgattaagggaagaagta	14	5	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:75954376G>T	uc003kek.2	+	21	2635	c.2413G>T	c.(2413-2415)GCA>TCA	p.A805S	IQGAP2_uc010izv.2_Missense_Mutation_p.A358S|IQGAP2_uc011csv.1_Missense_Mutation_p.A301S|IQGAP2_uc003kel.2_Missense_Mutation_p.A301S	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	805					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		ACTAGAGGTTGCACGATTAAG	0.448													78	28	---	---	---	---	PASS	T	75954376	T	T	75954376	3	4	145	1	0	0	0	0	1	0	0	0	7815	1319	46	3	2495	3	IQGAP2	5	75954376	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	12697357	75954376	104960884	189	51462										
YTHDC2	64848	broad.mit.edu	37	chr5	112915353	112915353	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acagctaatttggcagccttGaaacttgatgagtggctcca	10	9	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:112915353G>T	uc003kqn.2	+	24	3498	c.3315G>T	c.(3313-3315)TTG>TTT	p.L1105F		NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	1105							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)		TGGCAGCCTTGAAACTTGATG	0.368													90	45	---	---	---	---	PASS	T	112915353	T	T	112915353	3	4	145	1	0	0	0	0	1	0	0	0	17494	1281	45	2	3409	2	YTHDC2	5	112915353	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	36960977	112915353	67999907	190	51463										
PCDHA1	56147	broad.mit.edu	37	chr5	140166631	140166631	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtatacagagtccacttgttAgagactacagcaaatggaac	9	8	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:140166631A>G	uc003lhb.2	+	1	756	c.756A>G	c.(754-756)TTA>TTG	p.L252L	PCDHA1_uc003lha.2_Silent_p.L252L|PCDHA1_uc003lgz.2_Silent_p.L252L	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	252	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCACTTGTTAGAGACTACAG	0.463													49	64	---	---	---	---	PASS	G	140166631	G	G	140166631	2	3	145	1	0	0	0	0	0	0	0	1	11519	417	15	5		5	PCDHA1	5	140166631	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	27251278	140166631	40748629	191	51464										
PCDHA1	56147	broad.mit.edu	37	chr5	140167155	140167155	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctatgagctggtggtgaccgCgcgggacgggggctcgcctt	18	11	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:140167155C>A	uc003lhb.2	+	1	1280	c.1280C>A	c.(1279-1281)GCG>GAG	p.A427E	PCDHA1_uc003lha.2_Missense_Mutation_p.A427E|PCDHA1_uc003lgz.2_Missense_Mutation_p.A427E	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	427	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGTGACCGCGCGGGACGGG	0.647													50	30	---	---	---	---	PASS	A	140167155	A	A	140167155	3	1	145	1	0	0	0	0	1	0	0	0	11519	768	27	1	1282	1	PCDHA1	5	140167155	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	524	140167155	40748105	192	51465										
PCDHA8	56140	broad.mit.edu	37	chr5	140223247	140223247	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctgccttcctcctgatctgGgatcagttgatgtaggcgaa	11	11	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:140223247G>A	uc003lhs.2	+	1	2341	c.2341G>A	c.(2341-2343)GGA>AGA	p.G781R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.G781R	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	781	Cytoplasmic (Potential).|5 X 4 AA repeats of P-X-X-P.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCTGATCTGGGATCAGTTGA	0.473													39	26	---	---	---	---	PASS	A	140223247	A	A	140223247	3	1	145	1	0	0	0	0	1	0	0	0	11530	1233	43	3	2343	3	PCDHA8	5	140223247	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	56092	140223247	40692013	193	51466										
PCDHB5	26167	broad.mit.edu	37	chr5	140515490	140515490	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttcccttaaaaatagcccaGgactttgacataggtagcaa	7	9	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:140515490G>T	uc003liq.2	+	1	691	c.474G>T	c.(472-474)CAG>CAT	p.Q158H		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	158	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAATAGCCCAGGACTTTGACA	0.453													77	36	---	---	---	---	PASS	T	140515490	T	T	140515490	3	4	145	1	0	0	0	0	1	0	0	0	11545	991	35	3	476	3	PCDHB5	5	140515490	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	292243	140515490	40399770	194	51467										
PCDHB7	56129	broad.mit.edu	37	chr5	140553340	140553340	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	catcttaaagcgcaattggaCtatgaggcaattcaaactta	7	8	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:140553340C>A	uc003lit.2	+	1	1098	c.924C>A	c.(922-924)GAC>GAA	p.D308E		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	308	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCAATTGGACTATGAGGCAA	0.408													63	24	---	---	---	---	PASS	A	140553340	A	A	140553340	3	1	145	1	0	0	0	0	1	0	0	0	11547	564	20	3	926	3	PCDHB7	5	140553340	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	37850	140553340	40361920	195	51468										
PCDHB11	56125	broad.mit.edu	37	chr5	140580788	140580788	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcgctacagacagagactcaGgcaccaacgcccaggtcaac	10	15	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:140580788G>T	uc003liy.2	+	1	1441	c.1441G>T	c.(1441-1443)GGC>TGC	p.G481C	PCDHB11_uc011daj.1_Missense_Mutation_p.G116C	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	481	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGAGACTCAGGCACCAACGC	0.632													83	37	---	---	---	---	PASS	T	140580788	T	T	140580788	3	4	145	1	0	0	0	0	1	0	0	0	11536	1000	35	3	1443	3	PCDHB11	5	140580788	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	27448	140580788	40334472	196	51469										
PCDHGA2	56113	broad.mit.edu	37	chr5	140720359	140720359	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aacgcctggctgtcttaccaCctgctcaaggccagcgagcc	10	16	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:140720359C>T	uc003ljk.1	+	1	2006	c.1821C>T	c.(1819-1821)CAC>CAT	p.H607H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Silent_p.H607H	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	607	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCTTACCACCTGCTCAAGG	0.692													19	55	---	---	---	---	PASS	T	140720359	T	T	140720359	2	4	145	1	0	0	0	0	0	0	0	1	11554	506	18	3		3	PCDHGA2	5	140720359	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	139571	140720359	40194901	197	51470										
PDGFRB	5159	broad.mit.edu	37	chr5	149503824	149503824	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gctcggtacctcctttggtgCaggcccccaacaggttgacc	11	15	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:149503824C>T	uc003lro.2	-	14	2481	c.2012G>A	c.(2011-2013)TGC>TAC	p.C671Y	PDGFRB_uc010jhd.2_Missense_Mutation_p.C510Y	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	671	Cytoplasmic (Potential).|Protein kinase.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TCCTTTGGTGCAGGCCCCCAA	0.642			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								20	12	---	---	---	---	PASS	T	149503824	T	T	149503824	3	4	145	1	0	0	0	0	1	0	0	0	11662	710	25	3	1348	3	PDGFRB	5	149503824	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	8783465	149503824	31411436	198	51471										
ZNF300	91975	broad.mit.edu	37	chr5	150277688	150277688	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gatatgtctccctttatgatCcatggctcttctccttgttc	6	12	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:150277688C>A	uc003lsy.1	-	5	468	c.201G>T	c.(199-201)TGG>TGT	p.W67C	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	67	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCTTTATGATCCATGGCTCTT	0.373													77	42	---	---	---	---	PASS	A	150277688	A	A	150277688	3	1	145	1	0	0	0	0	1	0	0	0	17828	856	30	2	1621	2	ZNF300	5	150277688	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	773864	150277688	30637572	199	51472										
TRIM7	81786	broad.mit.edu	37	chr5	180625213	180625213	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttctccagctctccccgaaGgtcctctgaggaggagaaac	10	13	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr5:180625213G>T	uc003mmz.1	-	6	1061	c.994C>A	c.(994-996)CTT>ATT	p.L332I	TRIM7_uc003mmv.1_Missense_Mutation_p.L150I|TRIM7_uc003mmw.1_Missense_Mutation_p.L124I|TRIM7_uc003mmx.1_Missense_Mutation_p.L124I|TRIM7_uc003mmy.1_Missense_Mutation_p.L124I	NM_203293	NP_976038	Q9C029	TRIM7_HUMAN	tripartite motif-containing 7 isoform 1	332	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;6.03e-06)|all_epithelial(37;7.1e-07)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000172)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;2e-06)|Epithelial(171;1.35e-05)|OV - Ovarian serous cystadenocarcinoma(192;0.000128)|Kidney(146;0.0674)|GBM - Glioblastoma multiforme(465;0.0802)		TCTCCCCGAAGGTCCTCTGAG	0.522													23	7	---	---	---	---	PASS	T	180625213	T	T	180625213	3	4	145	1	0	0	0	0	1	0	0	0	16540	1000	35	3	549	3	TRIM7	5	180625213	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	30347525	180625213	290047	200	51473										
KIAA0319	9856	broad.mit.edu	37	chr6	24564511	24564511	+	Missense_Mutation	SNP	C	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	caagtggaaagtgtacacccCctccaccagattcgtaagct							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:24564511C>A	uc011djo.1	-	15	2587	c.2350G>T	c.(2350-2352)GGG>TGG	p.G784W	KIAA0319_uc011djp.1_Missense_Mutation_p.G739W|KIAA0319_uc003neh.1_Missense_Mutation_p.G784W|KIAA0319_uc011djq.1_Missense_Mutation_p.G775W|KIAA0319_uc011djr.1_Missense_Mutation_p.G784W|KIAA0319_uc010jpt.1_Missense_Mutation_p.G195W	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	784	PKD 5.|Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						GTGTACACCCCCTCCACCAGA	0.587													29	18	---	---	---	---	PASS	A	24564511	A	A	24564511	3	1	145	1	0	0	0	0	1	0	0	0	8168	623	22	3	896	3	KIAA0319	6	24564511	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08		24564511	146550556	201	51474	947	2								
KIAA0319	9856	broad.mit.edu	37	chr6	24564512	24564512	+	Missense_Mutation	SNP	C	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aagtggaaagtgtacaccccCtccaccagattcgtaagctg							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:24564512C>A	uc011djo.1	-	15	2586	c.2349G>T	c.(2347-2349)GAG>GAT	p.E783D	KIAA0319_uc011djp.1_Missense_Mutation_p.E738D|KIAA0319_uc003neh.1_Missense_Mutation_p.E783D|KIAA0319_uc011djq.1_Missense_Mutation_p.E774D|KIAA0319_uc011djr.1_Missense_Mutation_p.E783D|KIAA0319_uc010jpt.1_Missense_Mutation_p.E194D	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	783	PKD 5.|Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						TGTACACCCCCTCCACCAGAT	0.582													29	18	---	---	---	---	PASS	A	24564512	A	A	24564512	3	1	145	1	0	0	0	0	1	0	0	0	8168	680	24	3	897	3	KIAA0319	6	24564512	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1	24564512	146550555	202	51475	947	2								
SLC17A1	6568	broad.mit.edu	37	chr6	25820133	25820133	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggatatctgggctccaattaTacatagggttctaaaagaca	9	7	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:25820133T>C	uc003nfh.3	-	4	334	c.218A>G	c.(217-219)TAT>TGT	p.Y73C	SLC17A1_uc011djy.1_RNA|SLC17A1_uc010jqb.1_Missense_Mutation_p.Y71C|SLC17A1_uc010jqc.1_Missense_Mutation_p.Y71C	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),	73					sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						GCTCCAATTATACATAGGGTT	0.423													68	25	---	---	---	---	PASS	C	25820133	C	C	25820133	3	2	145	1	0	0	0	0	1	0	0	0	14416	1406	49	5	1221	5	SLC17A1	6	25820133	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	1255621	25820133	145294934	203	51476										
SCAND3	114821	broad.mit.edu	37	chr6	28543354	28543354	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgcatgtctataagatctacTtggcatcttgaactaacttc	6	9	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:28543354T>C	uc003nlo.2	-	3	1746	c.1128A>G	c.(1126-1128)CAA>CAG	p.Q376Q		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	376	Integrase catalytic.				DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TAAGATCTACTTGGCATCTTG	0.348													166	48	---	---	---	---	PASS	C	28543354	C	C	28543354	2	2	145	1	0	0	0	0	0	0	0	1	13876	1606	56	5		5	SCAND3	6	28543354	Silent	SNP	T	TCGA-66-2756-01A-01D-1522-08	2723221	28543354	142571713	204	51477										
ZNF311	282890	broad.mit.edu	37	chr6	28962925	28962925	+	Missense_Mutation	SNP	T	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttgagctcactctaaaagcTtttccacattcctcacattc							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:28962925T>A	uc003nlu.2	-	7	2367	c.1854A>T	c.(1852-1854)AAA>AAT	p.K618N	ZNF311_uc011dlk.1_Missense_Mutation_p.K526N|ZNF311_uc003nlv.2_Missense_Mutation_p.K526N	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	618	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						CTCTAAAAGCTTTTCCACATT	0.453													94	29	---	---	---	---	PASS	A	28962925	A	A	28962925	3	1	145	1	0	0	0	0	1	0	0	0	17831	1606	56	5	150	5	ZNF311	6	28962925	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	419571	28962925	142152142	205	51478	948	2								
ZNF311	282890	broad.mit.edu	37	chr6	28962926	28962926	+	Missense_Mutation	SNP	T	G	G													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgagctcactctaaaagctTttccacattcctcacattca							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:28962926T>G	uc003nlu.2	-	7	2366	c.1853A>C	c.(1852-1854)AAA>ACA	p.K618T	ZNF311_uc011dlk.1_Missense_Mutation_p.K526T|ZNF311_uc003nlv.2_Missense_Mutation_p.K526T	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	618	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						TCTAAAAGCTTTTCCACATTC	0.448													94	30	---	---	---	---	PASS	G	28962926	G	G	28962926	3	3	145	1	0	0	0	0	1	0	0	0	17831	1841	64	5	151	5	ZNF311	6	28962926	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	1	28962926	142152141	206	51479	948	2								
MDC1	9656	broad.mit.edu	37	chr6	30672713	30672713	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gttggtctgtggaagtggaaGgctcgagcttaggggctgtg	19	5	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:30672713G>A	uc003nrg.3	-	10	4687	c.4247C>T	c.(4246-4248)CCT>CTT	p.P1416L	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Missense_Mutation_p.P1023L	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1416	Pro-rich.|Interaction with the PRKDC complex.				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						GGAAGTGGAAGGCTCGAGCTT	0.557								Other_conserved_DNA_damage_response_genes					153	28	---	---	---	---	PASS	A	30672713	A	A	30672713	3	1	145	1	0	0	0	0	1	0	0	0	9403	1000	35	3	2046	3	MDC1	6	30672713	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1709787	30672713	140442354	207	51480										
ZNF318	24149	broad.mit.edu	37	chr6	43322911	43322911	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cacctctggtcctgaaatatGacccactggatggtcagact	9	12	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:43322911G>A	uc003oux.2	-	4	2239	c.2161C>T	c.(2161-2163)CAT>TAT	p.H721Y	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	721					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			CCTGAAATATGACCCACTGGA	0.517													57	16	---	---	---	---	PASS	A	43322911	A	A	43322911	3	1	145	1	0	0	0	0	1	0	0	0	17833	1290	45	2	4706	2	ZNF318	6	43322911	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	12650198	43322911	127792156	208	51481										
BMP5	653	broad.mit.edu	37	chr6	55638864	55638864	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tacctccaacactggacattCtggaggagtcctgatgagag	11	10	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:55638864C>G	uc003pcq.2	-	4	1722	c.1010G>C	c.(1009-1011)AGA>ACA	p.R337T	BMP5_uc011dxf.1_Missense_Mutation_p.R337T	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	337					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			ACTGGACATTCTGGAGGAGTC	0.448													18	161	---	---	---	---	PASS	G	55638864	G	G	55638864	3	3	145	1	0	0	0	0	1	0	0	0	1463	913	32	2	370	2	BMP5	6	55638864	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	12315953	55638864	115476203	209	51482										
COL9A1	1297	broad.mit.edu	37	chr6	71004007	71004007	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agtagcactactcctctccaCgccaatcatgatcttatgcc	5	15	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:71004007C>A	uc003pfg.3	-	5	718	c.559G>T	c.(559-561)GTG>TTG	p.V187L		NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	187	Nonhelical region (NC4).|TSP N-terminal.				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						CTCCTCTCCACGCCAATCATG	0.433													90	112	---	---	---	---	PASS	A	71004007	A	A	71004007	3	1	145	1	0	0	0	0	1	0	0	0	3707	536	19	1	2418	1	COL9A1	6	71004007	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	15365143	71004007	100111060	210	51483										
TTK	7272	broad.mit.edu	37	chr6	80737728	80737728	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	actccacttcaaaatttacaGgttcgataagctttatatat	4	8	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:80737728G>T	uc003pjc.2	+	13	1595	c.1521G>T	c.(1519-1521)CAG>CAT	p.Q507H	TTK_uc003pjb.3_Missense_Mutation_p.Q506H	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	507					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		AAAATTTACAGGTTCGATAAG	0.373													34	33	---	---	---	---	PASS	T	80737728	T	T	80737728	3	4	145	1	0	0	0	0	1	0	0	0	16717	1014	35	3	1567	3	TTK	6	80737728	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	9733721	80737728	90377339	211	51484										
FAM46A	55603	broad.mit.edu	37	chr6	82461468	82461468	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtagcccaggccgctgtcctGgtgcaggacatggctggctg	16	12	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:82461468G>A	uc003pjg.2	-	2	709	c.391C>T	c.(391-393)CAG>TAG	p.Q131*	FAM46A_uc003pjf.2_Nonsense_Mutation_p.Q150*|FAM46A_uc003pjh.1_Nonsense_Mutation_p.Q131*	NM_017633	NP_060103	Q96IP4	FA46A_HUMAN	hypothetical protein LOC55603	131											0		all_cancers(76;6.74e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000282)|all_epithelial(107;0.0104)		BRCA - Breast invasive adenocarcinoma(397;0.0428)		CCGCTGTCCTGGTGCAGGACA	0.667													26	25	---	---	---	---	PASS	A	82461468	A	A	82461468	4	1	145	1	0	0	0	0	0	1	0	0	5565	1357	47	3	945	3	FAM46A	6	82461468	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1723740	82461468	88653599	212	51485										
MDN1	23195	broad.mit.edu	37	chr6	90415838	90415838	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgtacccagagcaggactagTgcatcacaaagttcaaaaaa	8	9	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:90415838T>A	uc003pnn.1	-	53	8204	c.8088A>T	c.(8086-8088)GCA>GCT	p.A2696A		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2696					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)		GCAGGACTAGTGCATCACAAA	0.408													39	39	---	---	---	---	PASS	A	90415838	A	A	90415838	2	1	145	1	0	0	0	0	0	0	0	1	9415	1683	59	5		5	MDN1	6	90415838	Silent	SNP	T	TCGA-66-2756-01A-01D-1522-08	7954370	90415838	80699229	213	51486										
FUT9	10690	broad.mit.edu	37	chr6	96652006	96652006	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aggaaggatttcactgtaaaTcttccacgattttgggaatc	9	7	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:96652006T>A	uc003pop.3	+	3	1316	c.975T>A	c.(973-975)AAT>AAA	p.N325K		NM_006581	NP_006572	Q9Y231	FUT9_HUMAN	fucosyltransferase 9 (alpha (1,3)	325	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			skin(4)|ovary(1)	5		all_cancers(76;4.77e-07)|Acute lymphoblastic leukemia(125;4.01e-09)|all_hematologic(75;1.25e-06)|all_epithelial(107;0.00279)|Colorectal(196;0.0356)		BRCA - Breast invasive adenocarcinoma(108;0.08)		TCACTGTAAATCTTCCACGAT	0.368													30	102	---	---	---	---	PASS	A	96652006	A	A	96652006	3	1	145	1	0	0	0	0	1	0	0	0	6111	1432	50	5	977	5	FUT9	6	96652006	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	6236168	96652006	74463061	214	51487										
BEND3	57673	broad.mit.edu	37	chr6	107391664	107391664	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cggctgtgagctggtactcaGggggcggctggaatttggcc	18	9	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:107391664G>A	uc003prs.2	-	5	1381	c.731C>T	c.(730-732)CCT>CTT	p.P244L		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	244	BEN 1.									ovary(3)	3						CTGGTACTCAGGGGGCGGCTG	0.637													9	33	---	---	---	---	PASS	A	107391664	A	A	107391664	3	1	145	1	0	0	0	0	1	0	0	0	1399	1000	35	3	1759	3	BEND3	6	107391664	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	10739658	107391664	63723403	215	51488										
GPRC6A	222545	broad.mit.edu	37	chr6	117130548	117130548	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgagtacccagaacctatgaCagccttaactcttggcatgt	8	11	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:117130548C>A	uc003pxj.1	-	2	449	c.427G>T	c.(427-429)GTC>TTC	p.V143F	GPRC6A_uc003pxk.1_Missense_Mutation_p.V143F|GPRC6A_uc003pxl.1_Missense_Mutation_p.V143F	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	143	Extracellular (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		GAACCTATGACAGCCTTAACT	0.438													43	59	---	---	---	---	PASS	A	117130548	A	A	117130548	3	1	145	1	0	0	0	0	1	0	0	0	6728	478	17	3	2373	3	GPRC6A	6	117130548	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	9738884	117130548	53984519	216	51489										
RFX6	222546	broad.mit.edu	37	chr6	117240430	117240430	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gatttgtatcttctctgaaaCgacaaacatctttcttacat	4	9	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:117240430C>T	uc003pxm.2	+	11	1216	c.1153C>T	c.(1153-1155)CGA>TGA	p.R385*		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	385					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TTCTCTGAAACGACAAACATC	0.363													14	88	---	---	---	---	PASS	T	117240430	T	T	117240430	4	4	145	1	0	0	0	0	0	1	0	0	13267	528	19	1	1195	1	RFX6	6	117240430	Nonsense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	109882	117240430	53874637	217	51490										
ROS1	6098	broad.mit.edu	37	chr6	117681563	117681563	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggccccttagatgtaaaggcCctaacctaaagaaaaggaaa	9	9	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:117681563C>A	uc003pxp.1	-	22	3586	c.3387G>T	c.(3385-3387)AGG>AGT	p.R1129S	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1129	Fibronectin type-III 5.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		ATGTAAAGGCCCTAACCTAAA	0.358			T	GOPC|ROS1	glioblastoma|NSCLC								37	34	---	---	---	---	PASS	A	117681563	A	A	117681563	3	1	145	1	0	0	0	0	1	0	0	0	13531	622	22	3	3744	3	ROS1	6	117681563	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	441133	117681563	53433504	218	51491										
MCM9	254394	broad.mit.edu	37	chr6	119252620	119252620	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gaagattctgtttcatggaaAcagcctcaggctgagaaagg	12	7	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:119252620A>C	uc003pyh.2	-	2	532	c.269T>G	c.(268-270)GTT>GGT	p.V90G		NM_153255	NP_694987	Q9NXL9	MCM9_HUMAN	minichromosome maintenance complex component 9	90					DNA replication		ATP binding|DNA binding|nucleoside-triphosphatase activity			ovary(1)	1		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0676)|OV - Ovarian serous cystadenocarcinoma(136;0.194)		TTTCATGGAAACAGCCTCAGG	0.393													40	32	---	---	---	---	PASS	C	119252620	C	C	119252620	3	2	145	1	0	0	0	0	1	0	0	0	9394	43	2	5	930	5	MCM9	6	119252620	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	1571057	119252620	51862447	219	51492										
TRDN	10345	broad.mit.edu	37	chr6	123892145	123892145	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgattatcagggcaatgaccAgaagccaggctgcaggggag	15	8	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:123892145A>T	uc003pzj.1	-	2	177	c.155T>A	c.(154-156)CTG>CAG	p.L52Q	TRDN_uc003pzk.1_Missense_Mutation_p.L52Q|TRDN_uc003pzl.1_Missense_Mutation_p.L52Q|TRDN_uc010ken.2_Missense_Mutation_p.L52Q|TRDN_uc010keo.1_Missense_Mutation_p.L52Q	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	52	Helical; (Potential).				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		GGCAATGACCAGAAGCCAGGC	0.453													14	84	---	---	---	---	PASS	T	123892145	T	T	123892145	3	4	145	1	0	0	0	0	1	0	0	0	16465	188	7	5	2194	5	TRDN	6	123892145	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	4639525	123892145	47222922	220	51493										
L3MBTL3	84456	broad.mit.edu	37	chr6	130378584	130378584	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aggaaagaaagcgtggtgctGggcatcctacctggaagagg	16	7	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:130378584G>T	uc003qbt.2	+	9	871	c.701G>T	c.(700-702)TGG>TTG	p.W234L	L3MBTL3_uc003qbu.2_Missense_Mutation_p.W209L	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	234	MBT 1.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		GCGTGGTGCTGGGCATCCTAC	0.527													7	14	---	---	---	---	PASS	T	130378584	T	T	130378584	3	4	145	1	0	0	0	0	1	0	0	0	8593	1357	47	3	727	3	L3MBTL3	6	130378584	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	6486439	130378584	40736483	221	51494										
TAAR5	9038	broad.mit.edu	37	chr6	132910476	132910476	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggaagatggaggtgaggcagAagagggtgtccaggtaggtg	21	3	0	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:132910476A>T	uc003qdk.2	-	1	402	c.350T>A	c.(349-351)TTC>TAC	p.F117Y		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	117	Helical; Name=3; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		GGTGAGGCAGAAGAGGGTGTC	0.582													21	80	---	---	---	---	PASS	T	132910476	T	T	132910476	3	4	145	1	0	0	0	0	1	0	0	0	15488	246	9	5	667	5	TAAR5	6	132910476	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	2531892	132910476	38204591	222	51495										
VNN2	8875	broad.mit.edu	37	chr6	133077158	133077158	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcagctgagtcttgcttgtaCtggtgtgtgaccaaatctaa	11	8	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:133077158C>A	uc003qdt.2	-	3	372	c.361G>T	c.(361-363)GTA>TTA	p.V121L	VNN2_uc003qds.2_5'UTR|VNN2_uc010kgb.2_Missense_Mutation_p.V121L|VNN2_uc003qdv.2_Missense_Mutation_p.V68L	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor	121	CN hydrolase.				cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		CTTGCTTGTACTGGTGTGTGA	0.363													7	32	---	---	---	---	PASS	A	133077158	A	A	133077158	3	1	145	1	0	0	0	0	1	0	0	0	17180	565	20	3	1221	3	VNN2	6	133077158	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	166682	133077158	38037909	223	51496										
PHACTR2	9749	broad.mit.edu	37	chr6	144098473	144098473	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgtcatcataggaggctgaGccagaggcccacaactgaag	12	10	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:144098473G>T	uc003qjq.3	+	9	1695	c.1565G>T	c.(1564-1566)AGC>ATC	p.S522I	PHACTR2_uc010khh.2_Missense_Mutation_p.S442I|PHACTR2_uc010khi.2_Missense_Mutation_p.S533I|PHACTR2_uc003qjr.3_Missense_Mutation_p.S453I	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3	522	RPEL 3.						actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		AGGAGGCTGAGCCAGAGGCCC	0.373													11	33	---	---	---	---	PASS	T	144098473	T	T	144098473	3	4	145	1	0	0	0	0	1	0	0	0	11810	971	34	3	1649	3	PHACTR2	6	144098473	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	11021315	144098473	27016594	224	51497										
SASH1	23328	broad.mit.edu	37	chr6	148864899	148864899	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttagcagaaaccagttgggcAattacccaacattgccttta	7	10	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:148864899A>G	uc003qme.1	+	18	2768	c.2293A>G	c.(2293-2295)AAT>GAT	p.N765D	SASH1_uc011eeb.1_Missense_Mutation_p.N526D|SASH1_uc003qmf.1_Missense_Mutation_p.N175D	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	765							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CCAGTTGGGCAATTACCCAAC	0.537													85	74	---	---	---	---	PASS	G	148864899	G	G	148864899	3	3	145	1	0	0	0	0	1	0	0	0	13848	130	5	5	2363	5	SASH1	6	148864899	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	4766426	148864899	22250168	225	51498										
PDE10A	10846	broad.mit.edu	37	chr6	165792838	165792838	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctggagctcagagtggagaaGatattgtgcccttccaacta	11	9	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr6:165792838G>T	uc003qun.2	-	19	2041	c.1800C>A	c.(1798-1800)ATC>ATA	p.I600I	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Silent_p.I530I|PDE10A_uc003quo.2_Silent_p.I610I	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	600					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	GAGTGGAGAAGATATTGTGCC	0.383													14	64	---	---	---	---	PASS	T	165792838	T	T	165792838	2	4	145	1	0	0	0	0	0	0	0	1	11630	932	33	2		2	PDE10A	6	165792838	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	16927939	165792838	5322229	226	51499										
SNX8	29886	broad.mit.edu	37	chr7	2302977	2302977	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cggcccaggagggcagcgggGtcgtgtcagaccctattgca	16	12	1	1	rs10229132	byFrequency	TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:2302977G>T	uc003slw.2	-	7	846	c.803C>A	c.(802-804)ACC>AAC	p.T268N		NM_013321	NP_037453	Q9Y5X2	SNX8_HUMAN	sorting nexin 8	268					cell communication|early endosome to Golgi transport|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0853)|OV - Ovarian serous cystadenocarcinoma(56;3.79e-14)		GGGCAGCGGGGTCGTGTCAGA	0.632													7	14	---	---	---	---	PASS	T	2302977	T	T	2302977	3	4	145	1	0	0	0	0	1	0	0	0	14908	1261	44	3	614	3	SNX8	7	2302977	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08		2302977	156835686	227	51500										
SDK1	221935	broad.mit.edu	37	chr7	4249700	4249700	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcgttctcagaaataacctcCaccacgctcaacgtgtcctg	7	15	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:4249700C>T	uc003smx.2	+	38	5584	c.5445C>T	c.(5443-5445)TCC>TCT	p.S1815S	SDK1_uc010kso.2_Silent_p.S1071S|SDK1_uc003smy.2_Silent_p.S302S	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1815	Fibronectin type-III 12.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		AAATAACCTCCACCACGCTCA	0.572													58	64	---	---	---	---	PASS	T	4249700	T	T	4249700	2	4	145	1	0	0	0	0	0	0	0	1	13968	581	21	3		3	SDK1	7	4249700	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	1946723	4249700	154888963	228	51501										
FBXL18	80028	broad.mit.edu	37	chr7	5540380	5540380	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgcagggtgggagcgagttgCggatggcgggctcgttgcgg	22	7	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:5540380C>A	uc003soo.2	-	3	1614	c.1520G>T	c.(1519-1521)CGC>CTC	p.R507L	FBXL18_uc003son.3_Missense_Mutation_p.R507L	NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	507										central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)		GAGCGAGTTGCGGATGGCGGG	0.662													20	8	---	---	---	---	PASS	A	5540380	A	A	5540380	3	1	145	1	0	0	0	0	1	0	0	0	5714	768	27	1	648	1	FBXL18	7	5540380	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1290680	5540380	153598283	229	51502										
ZNF12	7559	broad.mit.edu	37	chr7	6730591	6730591	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttccacattcagtacactcaTagggtttctctcctgaatga	6	11	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:6730591T>C	uc003sqt.1	-	5	2536	c.1982A>G	c.(1981-1983)TAT>TGT	p.Y661C	ZNF12_uc011jxa.1_Missense_Mutation_p.Y499C|ZNF12_uc003sqs.1_Missense_Mutation_p.Y623C	NM_016265	NP_057349	P17014	ZNF12_HUMAN	zinc finger protein 12 isoform a	661	C2H2-type 15.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0231)		AGTACACTCATAGGGTTTCTC	0.393													18	91	---	---	---	---	PASS	C	6730591	C	C	6730591	3	2	145	1	0	0	0	0	1	0	0	0	17715	1406	49	5	115	5	ZNF12	7	6730591	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	1190211	6730591	152408072	230	51503										
ICA1	3382	broad.mit.edu	37	chr7	8167591	8167591	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtctgggccttggggtctggCtctcccagggccatagtggg	17	11	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:8167591C>A	uc003srm.2	-	13	1309	c.1242G>T	c.(1240-1242)GAG>GAT	p.E414D	ICA1_uc010ktr.2_Missense_Mutation_p.E443D|ICA1_uc003srl.2_Missense_Mutation_p.E402D|ICA1_uc003srn.3_Missense_Mutation_p.E340D|ICA1_uc003srp.3_Missense_Mutation_p.E413D|ICA1_uc010kts.2_RNA|ICA1_uc003srq.2_Missense_Mutation_p.E414D|ICA1_uc003srr.2_Missense_Mutation_p.E413D|ICA1_uc003sro.3_Missense_Mutation_p.E414D	NM_022307	NP_071682	Q05084	ICA69_HUMAN	islet cell autoantigen 1	414					neurotransmitter transport	cell junction|cytosol|Golgi membrane|nucleus|secretory granule membrane|synaptic vesicle membrane|transport vesicle membrane				central_nervous_system(1)	1		Ovarian(82;0.0612)		UCEC - Uterine corpus endometrioid carcinoma (126;0.246)		TGGGGTCTGGCTCTCCCAGGG	0.552													157	153	---	---	---	---	PASS	A	8167591	A	A	8167591	3	1	145	1	0	0	0	0	1	0	0	0	7477	796	28	3	217	3	ICA1	7	8167591	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1437000	8167591	150971072	231	51504										
OSBPL3	26031	broad.mit.edu	37	chr7	24874224	24874224	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cagctccaccggcatggccaCcttggacaggtccttcccga	10	17	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:24874224C>A	uc003sxf.2	-	15	2032	c.1627G>T	c.(1627-1629)GTG>TTG	p.V543L	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Missense_Mutation_p.V507L|OSBPL3_uc003sxh.2_Missense_Mutation_p.V512L|OSBPL3_uc003sxi.2_Missense_Mutation_p.V476L|OSBPL3_uc003sxj.1_Missense_Mutation_p.V272L|OSBPL3_uc003sxk.1_Missense_Mutation_p.V241L	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	543					lipid transport		lipid binding|protein binding			skin(1)	1						GGCATGGCCACCTTGGACAGG	0.632													51	50	---	---	---	---	PASS	A	24874224	A	A	24874224	3	1	145	1	0	0	0	0	1	0	0	0	11279	507	18	3	1072	3	OSBPL3	7	24874224	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	16706633	24874224	134264439	232	51505										
NOD1	10392	broad.mit.edu	37	chr7	30475671	30475671	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcgcaaggctctttcctcctTctgtggagatgccgttggac	11	12	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:30475671T>C	uc003tav.2	-	11	3087	c.2564A>G	c.(2563-2565)GAA>GGA	p.E855G		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	855	LRR 6.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						CTTTCCTCCTTCTGTGGAGAT	0.408													14	50	---	---	---	---	PASS	C	30475671	C	C	30475671	3	2	145	1	0	0	0	0	1	0	0	0	10516	1783	62	5	313	5	NOD1	7	30475671	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	5601447	30475671	128662992	233	51506										
SFRP4	6424	broad.mit.edu	37	chr7	37955994	37955994	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggatggcgttctcctgcgtgCtgtggtgcaggtggttgggc	19	8	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:37955994C>T	uc003tfo.3	-	1	532	c.146G>A	c.(145-147)AGC>AAC	p.S49N		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	49	FZ.				brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1						CTCCTGCGTGCTGTGGTGCAG	0.672													55	49	---	---	---	---	PASS	T	37955994	T	T	37955994	3	4	145	1	0	0	0	0	1	0	0	0	14163	797	28	3	918	3	SFRP4	7	37955994	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	7480323	37955994	121182669	234	51507										
SFRP4	6424	broad.mit.edu	37	chr7	37956126	37956126	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acaggcacagcgccactaggAtggagaggaacatggcactg	14	10	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:37956126A>T	uc003tfo.3	-	1	400	c.14T>A	c.(13-15)ATC>AAC	p.I5N		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	5					brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1						CGCCACTAGGATGGAGAGGAA	0.677													14	13	---	---	---	---	PASS	T	37956126	T	T	37956126	3	4	145	1	0	0	0	0	1	0	0	0	14163	333	12	5	1050	5	SFRP4	7	37956126	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	132	37956126	121182537	235	51508										
C7orf57	136288	broad.mit.edu	37	chr7	48086126	48086126	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cccgatcaagccaatggtagCtatgcatccagaagagggcc	11	12	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:48086126C>T	uc003toh.3	+	5	632	c.420C>T	c.(418-420)AGC>AGT	p.S140S	C7orf57_uc003toi.3_Silent_p.S14S	NM_001100159	NP_001093629	Q8NEG2	CG057_HUMAN	hypothetical protein LOC136288	140										ovary(1)	1						CCAATGGTAGCTATGCATCCA	0.498													6	16	---	---	---	---	PASS	T	48086126	T	T	48086126	2	4	145	1	0	0	0	0	0	0	0	1	2404	796	28	3		3	C7orf57	7	48086126	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	10130000	48086126	111052537	236	51509										
DDC	1644	broad.mit.edu	37	chr7	50531071	50531071	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgaggtgacatggaaccaagTggatttttttggcactgttt	12	5	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:50531071T>A	uc003tpf.3	-	14	1387	c.1301A>T	c.(1300-1302)CAC>CTC	p.H434L	DDC_uc010kza.2_Missense_Mutation_p.H349L|DDC_uc003tpg.3_Missense_Mutation_p.H434L	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	434					cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	TGGAACCAAGTGGATTTTTTT	0.502													18	55	---	---	---	---	PASS	A	50531071	A	A	50531071	3	1	145	1	0	0	0	0	1	0	0	0	4325	1696	59	5	145	5	DDC	7	50531071	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	2444945	50531071	108607592	237	51510										
VSTM2A	222008	broad.mit.edu	37	chr7	54636708	54636708	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aacttcttccgcaggtgcgaGgatagctacaagccatggac	11	11	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:54636708G>T	uc010kzf.2	+	5	1046	c.641G>T	c.(640-642)AGG>ATG	p.R214M	VSTM2A_uc003tqc.3_Intron|uc003tqd.2_5'Flank	NM_182546	NP_872352	Q8TAG5	VTM2A_HUMAN	V-set and transmembrane domain containing 2	214						extracellular region					0			STAD - Stomach adenocarcinoma(5;0.0525)			GCAGGTGCGAGGATAGCTACA	0.368													3	8	---	---	---	---	PASS	T	54636708	T	T	54636708	3	4	145	1	0	0	0	0	1	0	0	0	17226	1000	35	3	659	3	VSTM2A	7	54636708	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4105637	54636708	104501955	238	51511										
SEPT14	346288	broad.mit.edu	37	chr7	55910723	55910723	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agtaaagacacacgtggacgCgagaatcatggtactcaaac	10	9	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:55910723C>A	uc003tqz.2	-	5	587	c.470G>T	c.(469-471)CGC>CTC	p.R157L		NM_207366	NP_997249	Q6ZU15	SEP14_HUMAN	septin 14	157					cell cycle|cell division	septin complex	GTP binding|protein binding				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CACGTGGACGCGAGAATCATG	0.398													11	12	---	---	---	---	PASS	A	55910723	A	A	55910723	3	1	145	1	0	0	0	0	1	0	0	0	14063	768	27	1	852	1	SEPT14	7	55910723	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1274015	55910723	103227940	239	51512										
HGF	3082	broad.mit.edu	37	chr7	81331912	81331912	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttcagctatgactgtggtacCttatatgttaaaataatttt	6	5	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:81331912C>A	uc003uhl.2	-	18	2337	c.2172G>T	c.(2170-2172)AAG>AAT	p.K724N	HGF_uc003uhm.2_Missense_Mutation_p.K719N	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	724					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						ACTGTGGTACCTTATATGTTA	0.368													39	55	---	---	---	---	PASS	A	81331912	A	A	81331912	3	1	145	1	0	0	0	0	1	0	0	0	7085	680	24	3	18	3	HGF	7	81331912	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	25421189	81331912	77806751	240	51513										
COL1A2	1278	broad.mit.edu	37	chr7	94039044	94039044	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttccttcacagggccttcccGgcgttgctggggctcccggc	13	16	1	0	rs72656392		TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:94039044G>T	uc003ung.1	+	19	1417	c.946G>T	c.(946-948)GGC>TGC	p.G316C	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	316					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GGGCCTTCCCGGCGTTGCTGG	0.567										HNSCC(75;0.22)			51	68	---	---	---	---	PASS	T	94039044	T	T	94039044	3	4	145	1	0	0	0	0	1	0	0	0	3678	1116	39	1	1020	1	COL1A2	7	94039044	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	12707132	94039044	65099619	241	51514										
C7orf43	55262	broad.mit.edu	37	chr7	99754531	99754531	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aacaggaagttgtgttcctcCagggcattcagcgggcaggg	15	9	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:99754531C>T	uc003utr.2	-	6	1110	c.930G>A	c.(928-930)CTG>CTA	p.L310L	C7orf43_uc010lgo.2_5'Flank|C7orf43_uc010lgp.2_5'UTR|C7orf43_uc011kjj.1_Silent_p.L78L|C7orf43_uc003uts.2_Silent_p.L41L	NM_018275	NP_060745	Q8WVR3	CG043_HUMAN	hypothetical protein LOC55262	310											0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TGTGTTCCTCCAGGGCATTCA	0.592													29	159	---	---	---	---	PASS	T	99754531	T	T	99754531	2	4	145	1	0	0	0	0	0	0	0	1	2393	581	21	3		3	C7orf43	7	99754531	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	5715487	99754531	59384132	242	51515										
ARMC10	83787	broad.mit.edu	37	chr7	102738950	102738950	+	Missense_Mutation	SNP	C	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	taagagctttagttgatcacCatgatgcagaggtgaaggaa							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:102738950C>A	uc003vaw.1	+	7	1374	c.982C>A	c.(982-984)CAT>AAT	p.H328N	ARMC10_uc003vay.1_Missense_Mutation_p.H269N|ARMC10_uc003vax.1_Missense_Mutation_p.H293N|ARMC10_uc003vbb.1_Missense_Mutation_p.H234N|ARMC10_uc011kli.1_Missense_Mutation_p.H269N|ARMC10_uc010lis.1_Missense_Mutation_p.H210N|ARMC10_uc003vba.1_RNA|ARMC10_uc003vaz.1_Missense_Mutation_p.H206N	NM_031905	NP_114111	Q8N2F6	ARM10_HUMAN	SVH protein isoform a	328					regulation of growth	endoplasmic reticulum membrane|integral to membrane	binding			ovary(1)	1						AGTTGATCACCATGATGCAGA	0.373													59	145	---	---	---	---	PASS	A	102738950	A	A	102738950	3	1	145	1	0	0	0	0	1	0	0	0	950	594	21	3	1008	3	ARMC10	7	102738950	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2984419	102738950	56399713	243	51516	949	2								
ARMC10	83787	broad.mit.edu	37	chr7	102738951	102738951	+	Missense_Mutation	SNP	A	T	T													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aagagctttagttgatcaccAtgatgcagaggtgaaggaaa							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:102738951A>T	uc003vaw.1	+	7	1375	c.983A>T	c.(982-984)CAT>CTT	p.H328L	ARMC10_uc003vay.1_Missense_Mutation_p.H269L|ARMC10_uc003vax.1_Missense_Mutation_p.H293L|ARMC10_uc003vbb.1_Missense_Mutation_p.H234L|ARMC10_uc011kli.1_Missense_Mutation_p.H269L|ARMC10_uc010lis.1_Missense_Mutation_p.H210L|ARMC10_uc003vba.1_RNA|ARMC10_uc003vaz.1_Missense_Mutation_p.H206L	NM_031905	NP_114111	Q8N2F6	ARM10_HUMAN	SVH protein isoform a	328					regulation of growth	endoplasmic reticulum membrane|integral to membrane	binding			ovary(1)	1						GTTGATCACCATGATGCAGAG	0.378													59	150	---	---	---	---	PASS	T	102738951	T	T	102738951	3	4	145	1	0	0	0	0	1	0	0	0	950	217	8	5	1009	5	ARMC10	7	102738951	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	1	102738951	56399712	244	51517	949	2								
LAMB1	3912	broad.mit.edu	37	chr7	107603475	107603475	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agtccaggagggaatccggtCctggatatattgccgctcca	12	11	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:107603475C>A	uc003vew.2	-	15	2067	c.1732G>T	c.(1732-1734)GAC>TAC	p.D578Y	LAMB1_uc003vev.2_Missense_Mutation_p.D602Y|LAMB1_uc003vex.2_Missense_Mutation_p.D578Y|LAMB1_uc010ljn.1_Missense_Mutation_p.D664Y	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	578	Laminin IV type B.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGAATCCGGTCCTGGATATAT	0.448													66	116	---	---	---	---	PASS	A	107603475	A	A	107603475	3	1	145	1	0	0	0	0	1	0	0	0	8610	855	30	2	3708	2	LAMB1	7	107603475	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	4864524	107603475	51535188	245	51518										
PAX4	5078	broad.mit.edu	37	chr7	127254600	127254600	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aatgcccgcaggactcggttGatggaggagacctgggagtg	17	8	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:127254600G>A	uc010lld.1	-	3	554	c.348C>T	c.(346-348)ATC>ATT	p.I116I	PAX4_uc003vmf.2_Silent_p.I114I|PAX4_uc003vmg.1_Silent_p.I116I|PAX4_uc003vmh.2_Silent_p.I114I	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	124	Paired.				cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGACTCGGTTGATGGAGGAGA	0.562													11	4	---	---	---	---	PASS	A	127254600	A	A	127254600	2	1	145	1	0	0	0	0	0	0	0	1	11481	1280	45	2		2	PAX4	7	127254600	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	19651125	127254600	31884063	246	51519										
FAM40B	57464	broad.mit.edu	37	chr7	129094344	129094344	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctgtgggtggagaacagccCgggagaccttccgcactgaa	14	12	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:129094344C>T	uc011koy.1	+	7	722	c.682C>T	c.(682-684)CGG>TGG	p.R228W	FAM40B_uc003vow.2_Missense_Mutation_p.R228W	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	228											0						GAGAACAGCCCGGGAGACCTT	0.532													26	128	---	---	---	---	PASS	T	129094344	T	T	129094344	3	4	145	1	0	0	0	0	1	0	0	0	5561	643	23	1	708	1	FAM40B	7	129094344	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1839744	129094344	30044319	247	51520										
PODXL	5420	broad.mit.edu	37	chr7	131195746	131195746	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggggctaagtggacttgtagGgtgaggggtcgtcagatgtt	19	4	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:131195746G>A	uc003vqw.3	-	2	805	c.547C>T	c.(547-549)CCT>TCT	p.P183S	PODXL_uc003vqx.3_Missense_Mutation_p.P183S	NM_001018111	NP_001018121	O00592	PODXL_HUMAN	podocalyxin-like isoform 1 precursor	183	Thr-rich.|Extracellular (Potential).				cell adhesion|epithelial tube formation|negative regulation of cell-cell adhesion|positive regulation of cell migration|positive regulation of cell-cell adhesion mediated by integrin|regulation of microvillus assembly	actin cytoskeleton|apical plasma membrane|centrosome|filopodium|integral to plasma membrane|lamellipodium|membrane raft|microvillus membrane|nucleolus|ruffle				breast(2)|pancreas(1)	3	Melanoma(18;0.162)					GGACTTGTAGGGTGAGGGGTC	0.522													65	294	---	---	---	---	PASS	A	131195746	A	A	131195746	3	1	145	1	0	0	0	0	1	0	0	0	12180	1232	43	3	1161	3	PODXL	7	131195746	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2101402	131195746	27942917	248	51521										
JHDM1D	80853	broad.mit.edu	37	chr7	139826529	139826529	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cattaagcaatatttctgaaCaaatggcttgggaaagactg	9	6	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:139826529C>T	uc003vvm.2	-	6	800	c.796G>A	c.(796-798)GTT>ATT	p.V266I		NM_030647	NP_085150	Q6ZMT4	KDM7_HUMAN	jumonji C domain containing histone demethylase	266	JmjC.				midbrain development|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1	Melanoma(164;0.0142)					TATTTCTGAACAAATGGCTTG	0.418													106	213	---	---	---	---	PASS	T	139826529	T	T	139826529	3	4	145	1	0	0	0	0	1	0	0	0	7948	478	17	3	2089	3	JHDM1D	7	139826529	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	8630783	139826529	19312134	249	51522										
TRPV5	56302	broad.mit.edu	37	chr7	142605694	142605694	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgttaatcaaaaatggtagaCctcctctccatccccctcac	4	15	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:142605694C>T	uc003wby.1	-	15	2440	c.2176G>A	c.(2176-2178)GTC>ATC	p.V726I		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	726	Cytoplasmic (Potential).|Involved in Ca(2+)-dependent inactivation (By similarity).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					AAATGGTAGACCTCCTCTCCA	0.547													79	138	---	---	---	---	PASS	T	142605694	T	T	142605694	3	4	145	1	0	0	0	0	1	0	0	0	16596	507	18	3	17	3	TRPV5	7	142605694	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2779165	142605694	16532969	250	51523										
KEL	3792	broad.mit.edu	37	chr7	142654955	142654955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agaggcaggatgaggtcctaGgtaggctctgaagaaaggga	17	5	1	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr7:142654955G>T	uc003wcb.2	-	6	841	c.631C>A	c.(631-633)CTA>ATA	p.L211I		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	211	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					TGAGGTCCTAGGTAGGCTCTG	0.522													83	77	---	---	---	---	PASS	T	142654955	T	T	142654955	3	4	145	1	0	0	0	0	1	0	0	0	8142	991	35	3	1623	3	KEL	7	142654955	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	49261	142654955	16483708	251	51524										
ERICH1	157697	broad.mit.edu	37	chr8	623391	623391	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctcgctggcgtctgcaccgtCctcctccccggagtctgcac	10	19	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:623391C>A	uc003wph.2	-	4	1026	c.961G>T	c.(961-963)GAC>TAC	p.D321Y	ERICH1_uc011kwh.1_Missense_Mutation_p.D321Y|ERICH1_uc003wpe.1_Missense_Mutation_p.D227Y|ERICH1_uc003wpi.2_Missense_Mutation_p.D133Y	NM_207332	NP_997215	Q86X53	ERIC1_HUMAN	glutamate-rich 1	321	Glu-rich.									large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		TCTGCACCGTCCTCCTCCCCG	0.517													96	52	---	---	---	---	PASS	A	623391	A	A	623391	3	1	145	1	0	0	0	0	1	0	0	0	5230	855	30	2	382	2	ERICH1	8	623391	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08		623391	145740631	252	51525										
CSMD1	64478	broad.mit.edu	37	chr8	3008929	3008929	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttcacttaccatagccgatGggtaatgagatcctccaggt	9	10	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:3008929G>T	uc011kwk.1	-	40	6414	c.6024C>A	c.(6022-6024)CCC>CCA	p.P2008P	CSMD1_uc011kwj.1_Silent_p.P1400P|CSMD1_uc003wqe.2_Silent_p.P1164P|CSMD1_uc010lrg.2_Silent_p.P76P	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2008	Extracellular (Potential).|CUB 12.					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)		CATAGCCGATGGGTAATGAGA	0.443													22	12	---	---	---	---	PASS	T	3008929	T	T	3008929	2	4	145	1	0	0	0	0	0	0	0	1	3944	1335	47	3		3	CSMD1	8	3008929	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	2385538	3008929	143355093	253	51526										
C8orf80	389643	broad.mit.edu	37	chr8	27918117	27918117	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcactgagcacttgtcaatgGtctgcaaaacatgaccacgg	9	11	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:27918117G>C	uc003xgm.3	-	8	1066	c.923C>G	c.(922-924)ACC>AGC	p.T308S		NM_001010906	NP_001010906	Q68CJ6	SLIP_HUMAN	speckled-like pattern in the germinal center	308						nucleus	GTP binding|GTPase activity			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.126)|Kidney(114;0.15)|Colorectal(74;0.181)		CTTGTCAATGGTCTGCAAAAC	0.532											OREG0018675	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	10	---	---	---	---	PASS	C	27918117	C	C	27918117	3	2	145	1	0	0	0	0	1	0	0	0	2439	1275	44	4	1515	4	C8orf80	8	27918117	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	24909188	27918117	118445905	254	51527										
DKK4	27121	broad.mit.edu	37	chr8	42233278	42233278	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cacgacatgtagcacagaacGgcttctcatcgcggggctgg	13	12	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:42233278G>T	uc003xpb.2	-	2	293	c.182C>A	c.(181-183)CCG>CAG	p.P61Q		NM_014420	NP_055235	Q9UBT3	DKK4_HUMAN	dickkopf homolog 4 precursor	61	DKK-type Cys-1.				multicellular organismal development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region				ovary(1)	1	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;2.58e-12)|Lung NSC(13;4.24e-11)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.1)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;3.48e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00523)|Lung(22;0.00597)|LUSC - Lung squamous cell carcinoma(45;0.024)			AGCACAGAACGGCTTCTCATC	0.572													67	53	---	---	---	---	PASS	T	42233278	T	T	42233278	3	4	145	1	0	0	0	0	1	0	0	0	4547	1116	39	1	504	1	DKK4	8	42233278	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	14315161	42233278	104130744	255	51528										
PXDNL	137902	broad.mit.edu	37	chr8	52321974	52321974	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cgccccacgtgggctgctgcAggttgttgcacgtgccgtcg	15	14	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:52321974A>T	uc003xqu.3	-	17	2311	c.2210T>A	c.(2209-2211)CTG>CAG	p.L737Q	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	737					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GGGCTGCTGCAGGTTGTTGCA	0.687													6	57	---	---	---	---	PASS	T	52321974	T	T	52321974	3	4	145	1	0	0	0	0	1	0	0	0	12848	188	7	5	2209	5	PXDNL	8	52321974	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	10088696	52321974	94042048	256	51529										
TRIM55	84675	broad.mit.edu	37	chr8	67040550	67040550	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	caagaacaggcctctaacccGtatttgcccacaagaggagg	10	12	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:67040550G>A	uc003xvv.2	+	2	406	c.180G>A	c.(178-180)CCG>CCA	p.P60P	TRIM55_uc003xvu.2_Silent_p.P60P|TRIM55_uc003xvw.2_Silent_p.P60P|TRIM55_uc003xvx.2_Silent_p.P60P	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	60	RING-type.					cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			CCTCTAACCCGTATTTGCCCA	0.473													79	367	---	---	---	---	PASS	A	67040550	A	A	67040550	2	1	145	1	0	0	0	0	0	0	0	1	16526	1132	40	1		1	TRIM55	8	67040550	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	14718576	67040550	79323472	257	51530										
C8orf45	157777	broad.mit.edu	37	chr8	67791064	67791064	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttaagataaacaaatagttGaaataattgccacaaaggca	6	5	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:67791064G>C	uc003xwz.3	+	7	790	c.619G>C	c.(619-621)GAA>CAA	p.E207Q	C8orf45_uc003xwv.2_Missense_Mutation_p.E207Q|C8orf45_uc011lev.1_Missense_Mutation_p.E207Q|C8orf45_uc011lew.1_Missense_Mutation_p.E138Q|C8orf45_uc011lex.1_5'UTR|C8orf45_uc003xwy.3_Missense_Mutation_p.E207Q	NM_173518	NP_775789	Q4G0Z9	CH045_HUMAN	minichromosome maintenance complex	207					DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)			ACAAATAGTTGAAATAATTGC	0.269													10	186	---	---	---	---	PASS	C	67791064	C	C	67791064	3	2	145	1	0	0	0	0	1	0	0	0	2430	1291	45	2	641	2	C8orf45	8	67791064	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	750514	67791064	78572958	258	51531										
XKR9	389668	broad.mit.edu	37	chr8	71646107	71646107	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtagctttaagaaaatccttGcctgacaaaaagcttcttaa	6	8	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:71646107G>C	uc003xyq.2	+	5	1104	c.570G>C	c.(568-570)TTG>TTC	p.L190F	XKR9_uc010lze.2_Missense_Mutation_p.L190F|XKR9_uc010lzd.2_Missense_Mutation_p.L58F	NM_001011720	NP_001011720	Q5GH70	XKR9_HUMAN	XK, Kell blood group complex subunit-related	190						integral to membrane				ovary(1)|skin(1)	2	Breast(64;0.0716)		Epithelial(68;0.00301)|all cancers(69;0.0165)|OV - Ovarian serous cystadenocarcinoma(28;0.0524)|BRCA - Breast invasive adenocarcinoma(89;0.166)			GAAAATCCTTGCCTGACAAAA	0.338													30	177	---	---	---	---	PASS	C	71646107	C	C	71646107	3	2	145	1	0	0	0	0	1	0	0	0	17435	1310	46	4	580	4	XKR9	8	71646107	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	3855043	71646107	74717915	259	51532										
EYA1	2138	broad.mit.edu	37	chr8	72128977	72128977	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tctcttttacccgtctgtagCggaaggccaactttctcatc	7	13	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:72128977C>G	uc003xys.3	-	13	1597	c.1310G>C	c.(1309-1311)CGC>CCC	p.R437P	EYA1_uc003xyr.3_Missense_Mutation_p.R402P|EYA1_uc003xyt.3_Missense_Mutation_p.R404P|EYA1_uc010lzf.2_Missense_Mutation_p.R364P|EYA1_uc003xyu.2_Missense_Mutation_p.R437P|EYA1_uc011lfe.1_Missense_Mutation_p.R431P|EYA1_uc003xyv.2_Missense_Mutation_p.R315P	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b	437					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			CCGTCTGTAGCGGAAGGCCAA	0.468													85	371	---	---	---	---	PASS	G	72128977	G	G	72128977	3	3	145	1	0	0	0	0	1	0	0	0	5328	768	27	4	488	4	EYA1	8	72128977	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	482870	72128977	74235045	260	51533										
ZFHX4	79776	broad.mit.edu	37	chr8	77617652	77617652	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gagagcaaagaccaagagaaCaactgtgaaaggccaaaaga	11	7	0	5			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:77617652C>T	uc003yav.2	+	2	1716	c.1329C>T	c.(1327-1329)AAC>AAT	p.N443N	ZFHX4_uc003yat.1_Silent_p.N443N|ZFHX4_uc003yau.1_Silent_p.N443N|ZFHX4_uc003yaw.1_Silent_p.N443N	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	443						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACCAAGAGAACAACTGTGAAA	0.483										HNSCC(33;0.089)			10	65	---	---	---	---	PASS	T	77617652	T	T	77617652	2	4	145	1	0	0	0	0	0	0	0	1	17632	477	17	3		3	ZFHX4	8	77617652	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	5488675	77617652	68746370	261	51534										
CDH17	1015	broad.mit.edu	37	chr8	95178149	95178149	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atcctgtagtttagaaaactGttggcagtattttcttcatc	7	7	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:95178149G>T	uc003ygh.2	-	10	1247	c.1122C>A	c.(1120-1122)AAC>AAA	p.N374K	CDH17_uc011lgo.1_Missense_Mutation_p.N160K|CDH17_uc011lgp.1_Missense_Mutation_p.N374K	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	374	Extracellular (Potential).|Cadherin 4.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			TTAGAAAACTGTTGGCAGTAT	0.438													21	169	---	---	---	---	PASS	T	95178149	T	T	95178149	3	4	145	1	0	0	0	0	1	0	0	0	3102	1368	48	3	1412	3	CDH17	8	95178149	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	17560497	95178149	51185873	262	51535										
KCNS2	3788	broad.mit.edu	37	chr8	99440455	99440455	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gctcttcccctacgtgctgcAtttctatcacaccggcaagc	7	16	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:99440455A>G	uc003yin.2	+	2	598	c.248A>G	c.(247-249)CAT>CGT	p.H83R		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	83	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			TACGTGCTGCATTTCTATCAC	0.557													37	331	---	---	---	---	PASS	G	99440455	G	G	99440455	3	3	145	1	0	0	0	0	1	0	0	0	8089	217	8	5	250	5	KCNS2	8	99440455	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	4262306	99440455	46923567	263	51536										
RGS22	26166	broad.mit.edu	37	chr8	101092427	101092427	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	attcatttgaacaggtttaaCctcattctttcctttcctta	3	10	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:101092427C>A	uc003yjb.1	-	4	469	c.274G>T	c.(274-276)GTT>TTT	p.V92F	RGS22_uc003yja.1_5'UTR|RGS22_uc003yjc.1_Missense_Mutation_p.V92F|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	92					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			ACAGGTTTAACCTCATTCTTT	0.338													44	415	---	---	---	---	PASS	A	101092427	A	A	101092427	3	1	145	1	0	0	0	0	1	0	0	0	13305	507	18	3	3616	3	RGS22	8	101092427	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1651972	101092427	45271595	264	51537										
ANKRD46	157567	broad.mit.edu	37	chr8	101541821	101541821	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atggccacagaggtgaagagCtgtgtttccttgataatctg	12	7	1	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:101541821C>T	uc003yjm.2	-	3	445	c.241G>A	c.(241-243)GCT>ACT	p.A81T	ANKRD46_uc003yjn.1_Missense_Mutation_p.A81T|ANKRD46_uc003yjo.1_Missense_Mutation_p.A81T|ANKRD46_uc003yjp.1_Missense_Mutation_p.A81T	NM_198401	NP_940683	Q86W74	ANR46_HUMAN	ankyrin repeat domain 46	81	ANK 3.					integral to membrane					0	all_cancers(14;5.07e-05)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000353)|all_lung(17;0.000998)		Epithelial(11;2.61e-11)|all cancers(13;5.03e-09)|OV - Ovarian serous cystadenocarcinoma(57;4.49e-06)|STAD - Stomach adenocarcinoma(118;0.0957)			AGGTGAAGAGCTGTGTTTCCT	0.433													22	240	---	---	---	---	PASS	T	101541821	T	T	101541821	3	4	145	1	0	0	0	0	1	0	0	0	674	797	28	3	457	3	ANKRD46	8	101541821	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	449394	101541821	44822201	265	51538										
RIMS2	9699	broad.mit.edu	37	chr8	104898440	104898440	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgagattgaaagtgagagtgTaagtgaaaaaggtaagcttt	13	1	0	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:104898440T>C	uc003yls.2	+	2	1188	c.947T>C	c.(946-948)GTA>GCA	p.V316A	RIMS2_uc003ylp.2_Missense_Mutation_p.V538A|RIMS2_uc003ylw.2_Missense_Mutation_p.V346A|RIMS2_uc003ylq.2_Missense_Mutation_p.V346A|RIMS2_uc003ylr.2_Missense_Mutation_p.V346A	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	569					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGTGAGAGTGTAAGTGAAAAA	0.348										HNSCC(12;0.0054)			14	158	---	---	---	---	PASS	C	104898440	C	C	104898440	3	2	145	1	0	0	0	0	1	0	0	0	13368	1638	57	5	1753	5	RIMS2	8	104898440	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	3356619	104898440	41465582	266	51539										
ZFPM2	23414	broad.mit.edu	37	chr8	106815488	106815488	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gacctgctgccaacccacagCaagagaacatttcccagaat	7	14	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:106815488C>A	uc003ymd.2	+	8	3201	c.3178C>A	c.(3178-3180)CAA>AAA	p.Q1060K	ZFPM2_uc011lhs.1_Missense_Mutation_p.Q791K	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	1060					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			CAACCCACAGCAAGAGAACAT	0.478													39	72	---	---	---	---	PASS	A	106815488	A	A	106815488	3	1	145	1	0	0	0	0	1	0	0	0	17655	711	25	3	3208	3	ZFPM2	8	106815488	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1917048	106815488	39548534	267	51540										
PKHD1L1	93035	broad.mit.edu	37	chr8	110451189	110451189	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	actcacacaaaacatggcggTgtatgttggaggaaaaacct	10	8	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:110451189T>C	uc003yne.2	+	32	3928	c.3824T>C	c.(3823-3825)GTG>GCG	p.V1275A		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1275	Extracellular (Potential).|IPT/TIG 6.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			AACATGGCGGTGTATGTTGGA	0.333										HNSCC(38;0.096)			18	186	---	---	---	---	PASS	C	110451189	C	C	110451189	3	2	145	1	0	0	0	0	1	0	0	0	11972	1696	59	5	3950	5	PKHD1L1	8	110451189	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	3635701	110451189	35912833	268	51541										
PKHD1L1	93035	broad.mit.edu	37	chr8	110539082	110539082	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atccagaactttcagcctgcTggcagagtctgtctctagca	9	12	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:110539082T>C	uc003yne.2	+	77	12658	c.12554T>C	c.(12553-12555)CTG>CCG	p.L4185P		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	4185	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTCAGCCTGCTGGCAGAGTCT	0.308										HNSCC(38;0.096)			4	20	---	---	---	---	PASS	C	110539082	C	C	110539082	3	2	145	1	0	0	0	0	1	0	0	0	11972	1580	55	5	12860	5	PKHD1L1	8	110539082	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	87893	110539082	35824940	269	51542										
CSMD3	114788	broad.mit.edu	37	chr8	113299427	113299427	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgaaattgctttcctgtctaGagccatggccgggagtacct	11	10	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:113299427G>T	uc003ynu.2	-	58	9356	c.9197C>A	c.(9196-9198)TCT>TAT	p.S3066Y	CSMD3_uc003yns.2_Missense_Mutation_p.S2268Y|CSMD3_uc003ynt.2_Missense_Mutation_p.S3026Y|CSMD3_uc011lhx.1_Missense_Mutation_p.S2897Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3066	Extracellular (Potential).|Sushi 22.					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						TTCCTGTCTAGAGCCATGGCC	0.413										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			30	273	---	---	---	---	PASS	T	113299427	T	T	113299427	3	4	145	1	0	0	0	0	1	0	0	0	3946	942	33	2	1982	2	CSMD3	8	113299427	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2760345	113299427	33064595	270	51543										
CSMD3	114788	broad.mit.edu	37	chr8	113314025	113314025	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaattaaaaatctgtacctaGgcatctggtttcagattcac	6	8	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:113314025G>T	uc003ynu.2	-	53	8596	c.8437C>A	c.(8437-8439)CTA>ATA	p.L2813I	CSMD3_uc003yns.2_Missense_Mutation_p.L2015I|CSMD3_uc003ynt.2_Missense_Mutation_p.L2773I|CSMD3_uc011lhx.1_Missense_Mutation_p.L2644I	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2813	Extracellular (Potential).|Sushi 17.					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						TCTGTACCTAGGCATCTGGTT	0.418										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			12	176	---	---	---	---	PASS	T	113314025	T	T	113314025	3	4	145	1	0	0	0	0	1	0	0	0	3946	991	35	3	2762	3	CSMD3	8	113314025	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	14598	113314025	33049997	271	51544										
CSMD3	114788	broad.mit.edu	37	chr8	113353775	113353775	+	Frame_Shift_Del	DEL	G	-	-													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaaatataagctggtttcatGggtggtgctgaataaggaag							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:113353775delG	uc003ynu.2	-	42	6742	c.6583delC	c.(6583-6585)CATfs	p.H2195fs	CSMD3_uc003yns.2_Frame_Shift_Del_p.H1397fs|CSMD3_uc003ynt.2_Frame_Shift_Del_p.H2155fs|CSMD3_uc011lhx.1_Frame_Shift_Del_p.H2091fs	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2195	Extracellular (Potential).|CUB 12.					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						CTGGTTTCATGGGTGGTGCTG	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			73	137	---	---	---	---		-	113353775	-	-	113353775	7	5	145	1	0	1	0	1	0	0	0	0	3946	1348	47	0	4660	0	CSMD3	8	113353775	Frame_Shift_Del	DEL	G	TCGA-66-2756-01A-01D-1522-08	39750	113353775	33010247	272	51545										
SLC30A8	169026	broad.mit.edu	37	chr8	118165221	118165221	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtcttgctgttgtcacagatGctgcccacctcttaattgac	8	12	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:118165221G>A	uc003yoh.2	+	3	540	c.310G>A	c.(310-312)GCT>ACT	p.A104T	SLC30A8_uc010mcz.2_Missense_Mutation_p.A55T|SLC30A8_uc011lia.1_Missense_Mutation_p.A55T|SLC30A8_uc003yog.2_Missense_Mutation_p.A55T	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	104	Helical; (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			TGTCACAGATGCTGCCCACCT	0.493													22	291	---	---	---	---	PASS	A	118165221	A	A	118165221	3	1	145	1	0	0	0	0	1	0	0	0	14561	1319	46	3	320	3	SLC30A8	8	118165221	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4811446	118165221	28198801	273	51546										
MAL2	114569	broad.mit.edu	37	chr8	120233905	120233905	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tacaaggatgggtcatgtttGtgtccgtgacagcgtttttc	12	7	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:120233905G>T	uc003yop.2	+	3	313	c.211G>T	c.(211-213)GTG>TTG	p.V71L		NM_052886	NP_443118	Q969L2	MAL2_HUMAN	MAL2 proteolipid protein	71	MARVEL.|Helical; (Potential).					apical plasma membrane|endomembrane system|integral to membrane|perinuclear region of cytoplasm	protein binding				0	all_cancers(13;1.91e-26)|Lung NSC(37;8.61e-08)|Ovarian(258;0.018)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000967)			GGTCATGTTTGTGTCCGTGAC	0.478													98	719	---	---	---	---	PASS	T	120233905	T	T	120233905	3	4	145	1	0	0	0	0	1	0	0	0	9200	1377	48	3	218	3	MAL2	8	120233905	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2068684	120233905	26130117	274	51547										
ANXA13	312	broad.mit.edu	37	chr8	124714890	124714890	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccctggaatcaccttgccgtAcgttgccttgtacttttgct	8	13	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:124714890A>G	uc003yqu.2	-	3	251	c.178T>C	c.(178-180)TAC>CAC	p.Y60H	ANXA13_uc003yqt.2_Missense_Mutation_p.Y101H	NM_004306	NP_004297	P27216	ANX13_HUMAN	annexin A13 isoform a	60	Annexin 1.				cell differentiation	plasma membrane	calcium ion binding|calcium-dependent phospholipid binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(37;2.06e-11)|Ovarian(258;0.00579)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00288)			ACCTTGCCGTACGTTGCCTTG	0.512													20	321	---	---	---	---	PASS	G	124714890	G	G	124714890	3	3	145	1	0	0	0	0	1	0	0	0	717	391	14	5	808	5	ANXA13	8	124714890	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	4480985	124714890	21649132	275	51548										
ST3GAL1	6482	broad.mit.edu	37	chr8	134488264	134488264	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggtcctcttccgcagggtcaCcatcttcgcagtcctgatgg	11	14	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:134488264C>T	uc003yuk.2	-	5	833	c.4G>A	c.(4-6)GTG>ATG	p.V2M	ST3GAL1_uc003yum.2_Missense_Mutation_p.V2M	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	2	Cytoplasmic (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			CGCAGGGTCACCATCTTCGCA	0.547													19	154	---	---	---	---	PASS	T	134488264	T	T	134488264	3	4	145	1	0	0	0	0	1	0	0	0	15213	507	18	3	1042	3	ST3GAL1	8	134488264	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	9773374	134488264	11875758	276	51549										
BAI1	575	broad.mit.edu	37	chr8	143545865	143545865	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cccggccgcgtgcgcacctaCcagttcgactccttcctcga	9	19	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:143545865C>A	uc003ywm.2	+	1	489	c.306C>A	c.(304-306)TAC>TAA	p.Y102*		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	102	Extracellular (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					TGCGCACCTACCAGTTCGACT	0.701													12	4	---	---	---	---	PASS	A	143545865	A	A	143545865	4	1	145	1	0	0	0	0	0	1	0	0	1298	518	18	3	308	3	BAI1	8	143545865	Nonsense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	9057601	143545865	2818157	277	51550										
PLEC	5339	broad.mit.edu	37	chr8	144991188	144991188	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtggggtctgaccaggaggcCagctgggtcctggagacggc	19	10	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:144991188C>A	uc003zaf.1	-	32	13382	c.13212G>T	c.(13210-13212)CTG>CTT	p.L4404L	PLEC_uc003zab.1_Silent_p.L4267L|PLEC_uc003zac.1_Silent_p.L4271L|PLEC_uc003zad.2_Silent_p.L4267L|PLEC_uc003zae.1_Silent_p.L4235L|PLEC_uc003zag.1_Silent_p.L4245L|PLEC_uc003zah.2_Silent_p.L4253L|PLEC_uc003zaj.2_Silent_p.L4294L	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4404	Globular 2.				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						ACCAGGAGGCCAGCTGGGTCC	0.672													23	84	---	---	---	---	PASS	A	144991188	A	A	144991188	2	1	145	1	0	0	0	0	0	0	0	1	12052	581	21	3		3	PLEC	8	144991188	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	1445323	144991188	1372834	278	51551										
SPATC1	375686	broad.mit.edu	37	chr8	145101592	145101592	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccagaggctcacacagcgctAtgtgagcgtcatgaacaggc	12	12	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr8:145101592A>G	uc011lkw.1	+	5	1613	c.1511A>G	c.(1510-1512)TAT>TGT	p.Y504C	SPATC1_uc011lkx.1_3'UTR	NM_198572	NP_940974	Q76KD6	SPERI_HUMAN	spermatogenesis and centriole associated 1	504										ovary(1)|central_nervous_system(1)	2	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;3.67e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ACACAGCGCTATGTGAGCGTC	0.622													24	96	---	---	---	---	PASS	G	145101592	G	G	145101592	3	3	145	1	0	0	0	0	1	0	0	0	15016	449	16	5	1529	5	SPATC1	8	145101592	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	110404	145101592	1262430	279	51552										
KCNV2	169522	broad.mit.edu	37	chr9	2718879	2718879	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	caggtgttgcgcgtcatgcgCctcatgcgcatcttccgcat	11	14	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:2718879C>A	uc003zho.1	+	1	1354	c.1140C>A	c.(1138-1140)CGC>CGA	p.R380R		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	380	Helical; Voltage-sensor; Name=Segment S4; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		GCGTCATGCGCCTCATGCGCA	0.672													28	41	---	---	---	---	PASS	A	2718879	A	A	2718879	2	1	145	1	0	0	0	0	0	0	0	1	8095	726	26	3		3	KCNV2	9	2718879	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08		2718879	138494552	280	51553										
FREM1	158326	broad.mit.edu	37	chr9	14746970	14746970	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cgatcccattgcactgatacAgcttctggatgccttcttca	7	13	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:14746970A>G	uc003zlm.2	-	34	6679	c.6089T>C	c.(6088-6090)CTG>CCG	p.L2030P	FREM1_uc010mic.2_RNA|FREM1_uc003zlk.2_RNA|FREM1_uc003zll.2_Missense_Mutation_p.L566P	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	2030					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GCACTGATACAGCTTCTGGAT	0.493													6	34	---	---	---	---	PASS	G	14746970	G	G	14746970	3	3	145	1	0	0	0	0	1	0	0	0	6044	188	7	5	466	5	FREM1	9	14746970	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	12028091	14746970	126466461	281	51554										
FREM1	158326	broad.mit.edu	37	chr9	14846058	14846058	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgaaactgttcccaagtgatGgctcgagactgcccctcaag	10	12	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:14846058G>T	uc003zlm.2	-	8	1883	c.1293C>A	c.(1291-1293)GCC>GCA	p.A431A	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	431	CSPG 2.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		CCCAAGTGATGGCTCGAGACT	0.418													5	14	---	---	---	---	PASS	T	14846058	T	T	14846058	2	4	145	1	0	0	0	0	0	0	0	1	6044	1335	47	3		3	FREM1	9	14846058	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	99088	14846058	126367373	282	51555										
TEK	7010	broad.mit.edu	37	chr9	27213551	27213551	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atgtggcaaaaatagcagatTttggattgtcccgaggtcaa	11	6	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:27213551T>A	uc003zqi.3	+	18	3389	c.2947T>A	c.(2947-2949)TTT>ATT	p.F983I	TEK_uc011lno.1_Missense_Mutation_p.F940I|TEK_uc011lnp.1_Missense_Mutation_p.F835I	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	983	Protein kinase.|Cytoplasmic (Potential).				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		AATAGCAGATTTTGGATTGTC	0.413													20	881	---	---	---	---	PASS	A	27213551	A	A	27213551	3	1	145	1	0	0	0	0	1	0	0	0	15748	1841	64	5	3017	5	TEK	9	27213551	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	12367493	27213551	113999880	283	51556										
C9orf131	138724	broad.mit.edu	37	chr9	35043619	35043619	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gaaaccacaggacacaaaaaGatgccccaagcttttgagcc	8	12	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:35043619G>C	uc003zvw.2	+	2	1022	c.993G>C	c.(991-993)AAG>AAC	p.K331N	C9orf131_uc003zvu.2_Missense_Mutation_p.K283N|C9orf131_uc003zvv.2_Missense_Mutation_p.K258N|C9orf131_uc003zvx.2_Missense_Mutation_p.K296N	NM_203299	NP_976044	Q5VYM1	CI131_HUMAN	hypothetical protein LOC138724 isoform A	331											0	all_epithelial(49;0.22)		LUSC - Lung squamous cell carcinoma(32;0.00117)|Lung(28;0.00309)			GACACAAAAAGATGCCCCAAG	0.527													91	730	---	---	---	---	PASS	C	35043619	C	C	35043619	3	2	145	1	0	0	0	0	1	0	0	0	2457	933	33	2	1015	2	C9orf131	9	35043619	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	7830068	35043619	106169812	284	51557										
OR13J1	392309	broad.mit.edu	37	chr9	35870133	35870133	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cagcaaaggagatggtcttcCgggatgacaggaggtggacc	16	8	1	2	rs140653664	byFrequency	TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:35870133C>T	uc011lph.1	-	1	266	c.266G>A	c.(265-267)CGG>CAG	p.R89Q		NM_001004487	NP_001004487	Q8NGT2	O13J1_HUMAN	olfactory receptor, family 13, subfamily J,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_epithelial(49;0.169)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00494)|STAD - Stomach adenocarcinoma(86;0.194)			GATGGTCTTCCGGGATGACAG	0.597													25	51	---	---	---	---	PASS	T	35870133	T	T	35870133	3	4	145	1	0	0	0	0	1	0	0	0	10944	652	23	1	675	1	OR13J1	9	35870133	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	826514	35870133	105343298	285	51558										
GRHPR	9380	broad.mit.edu	37	chr9	37436733	37436733	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gttggcagctaacaacttgcTggctggcctgagaggggagc	16	9	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:37436733T>A	uc003zzu.1	+	9	982	c.941T>A	c.(940-942)CTG>CAG	p.L314Q	GRHPR_uc003zzt.1_Missense_Mutation_p.L234Q|GRHPR_uc003zzw.1_Missense_Mutation_p.L171Q	NM_012203	NP_036335	Q9UBQ7	GRHPR_HUMAN	glyoxylate reductase/hydroxypyruvate reductase	314					cellular nitrogen compound metabolic process|excretion|glyoxylate metabolic process	peroxisomal matrix	glycerate dehydrogenase activity|glyoxylate reductase (NADP) activity|hydroxypyruvate reductase activity|NAD binding|protein binding				0				GBM - Glioblastoma multiforme(29;0.00687)		AACAACTTGCTGGCTGGCCTG	0.557													64	134	---	---	---	---	PASS	A	37436733	A	A	37436733	3	1	145	1	0	0	0	0	1	0	0	0	6766	1580	55	5	975	5	GRHPR	9	37436733	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	1566600	37436733	103776698	286	51559										
TMC1	117531	broad.mit.edu	37	chr9	75407227	75407227	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccttttttgttcaccctgcaGatgtacctcgaggaccttgc	8	13	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:75407227G>A	uc004aiz.1	+	17	2065	c.1525G>A	c.(1525-1527)GAT>AAT	p.D509N	TMC1_uc010moz.1_Missense_Mutation_p.D467N|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Missense_Mutation_p.D363N|TMC1_uc010mpa.1_Missense_Mutation_p.D363N	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	509	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						TCACCCTGCAGATGTACCTCG	0.428													95	198	---	---	---	---	PASS	A	75407227	A	A	75407227	3	1	145	1	0	0	0	0	1	0	0	0	15981	942	33	2	1575	2	TMC1	9	75407227	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	37970494	75407227	65806204	287	51560										
HEMGN	55363	broad.mit.edu	37	chr9	100693291	100693291	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttcagaaaagtgttcctcaGgcacaactttttgcggggag	11	8	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:100693291G>C	uc004axy.2	-	3	494	c.386C>G	c.(385-387)CCT>CGT	p.P129R	HEMGN_uc004axz.2_Missense_Mutation_p.P129R	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	129					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				GTGTTCCTCAGGCACAACTTT	0.393													59	165	---	---	---	---	PASS	C	100693291	C	C	100693291	3	2	145	1	0	0	0	0	1	0	0	0	7050	1000	35	4	1076	4	HEMGN	9	100693291	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	25286064	100693291	40520140	288	51561										
SMC2	10592	broad.mit.edu	37	chr9	106889588	106889588	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agtcagtaaataaagctcaaGaagaggtgaccaagcaaaaa	9	6	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:106889588G>A	uc004bbv.2	+	20	2905	c.2617G>A	c.(2617-2619)GAA>AAA	p.E873K	SMC2_uc004bbw.2_Missense_Mutation_p.E873K|SMC2_uc011lvl.1_Missense_Mutation_p.E873K|SMC2_uc004bbx.2_Missense_Mutation_p.E873K|SMC2_uc004bby.2_RNA	NM_001042551	NP_001036016	O95347	SMC2_HUMAN	structural maintenance of chromosomes 2	873	Potential.				cell division|mitotic chromosome condensation|symbiosis, encompassing mutualism through parasitism	condensin complex|cytoplasm|nuclear chromosome	ATP binding|protein heterodimerization activity			ovary(4)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|breast(1)	9						TAAAGCTCAAGAAGAGGTGAC	0.318													24	78	---	---	---	---	PASS	A	106889588	A	A	106889588	3	1	145	1	0	0	0	0	1	0	0	0	14783	943	33	2	2691	2	SMC2	9	106889588	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	6196297	106889588	34323843	289	51562										
OR13F1	138805	broad.mit.edu	37	chr9	107267220	107267220	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atttatcctcgccagtatccTgagaatcagctcagtggaag	9	10	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:107267220T>A	uc011lvm.1	+	1	677	c.677T>A	c.(676-678)CTG>CAG	p.L226Q		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	226	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						GCCAGTATCCTGAGAATCAGC	0.478													71	220	---	---	---	---	PASS	A	107267220	A	A	107267220	3	1	145	1	0	0	0	0	1	0	0	0	10941	1580	55	5	679	5	OR13F1	9	107267220	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	377632	107267220	33946211	290	51563										
CTNNAL1	8727	broad.mit.edu	37	chr9	111732694	111732694	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tatcatacctgttggccagtCacctgaaatgtctcctctgc	7	13	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:111732694C>A	uc004bdo.1	-	10	1470	c.1428G>T	c.(1426-1428)GTG>GTT	p.V476V	CTNNAL1_uc010mts.1_Intron|CTNNAL1_uc010mtt.1_Silent_p.V476V|CTNNAL1_uc004bdp.1_Silent_p.V476V|CTNNAL1_uc004bdq.1_5'UTR	NM_003798	NP_003789	Q9UBT7	CTNL1_HUMAN	catenin, alpha-like 1	476					cell adhesion|Rho protein signal transduction	actin cytoskeleton|cytosol|plasma membrane	cadherin binding|structural molecule activity			ovary(1)	1				STAD - Stomach adenocarcinoma(157;0.0768)		GTTGGCCAGTCACCTGAAATG	0.403													16	35	---	---	---	---	PASS	A	111732694	A	A	111732694	2	1	145	1	0	0	0	0	0	0	0	1	4015	813	29	2		2	CTNNAL1	9	111732694	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	4465474	111732694	29480737	291	51564										
AKNA	80709	broad.mit.edu	37	chr9	117120444	117120444	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gataccatcttctccgtggcCtccctggcatgggaagagaa	11	12	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:117120444C>A	uc004biq.3	-	11	2631	c.2496G>T	c.(2494-2496)GAG>GAT	p.E832D	AKNA_uc004bin.3_Missense_Mutation_p.E79D|AKNA_uc004bio.3_Missense_Mutation_p.E292D|AKNA_uc004bip.3_Missense_Mutation_p.E751D|AKNA_uc004bir.3_Missense_Mutation_p.E832D|AKNA_uc004bis.3_Missense_Mutation_p.E832D|AKNA_uc010mve.2_Missense_Mutation_p.E713D	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	832					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(2)	6						TCTCCGTGGCCTCCCTGGCAT	0.587													18	41	---	---	---	---	PASS	A	117120444	A	A	117120444	3	1	145	1	0	0	0	0	1	0	0	0	463	680	24	3	1867	3	AKNA	9	117120444	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	5387750	117120444	24092987	292	51565										
OR1J4	26219	broad.mit.edu	37	chr9	125281568	125281568	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gctcatcatcctgctcatccGgctggactctcaccttcaca	6	17	5	0	rs146642294		TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:125281568G>T	uc011lyw.1	+	1	149	c.149G>T	c.(148-150)CGG>CTG	p.R50L		NM_001004452	NP_001004452	Q8NGS1	OR1J4_HUMAN	olfactory receptor, family 1, subfamily J,	50	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTGCTCATCCGGCTGGACTCT	0.537													122	237	---	---	---	---	PASS	T	125281568	T	T	125281568	3	4	145	1	0	0	0	0	1	0	0	0	10961	1116	39	1	151	1	OR1J4	9	125281568	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	8161124	125281568	15931863	293	51566										
OR1L8	138881	broad.mit.edu	37	chr9	125330162	125330162	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aggtgcttctgtcatctgcaCaatttcattgacaaatatgg	8	8	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:125330162C>A	uc004bmp.1	-	1	595	c.595G>T	c.(595-597)GTG>TTG	p.V199L		NM_001004454	NP_001004454	Q8NGR8	OR1L8_HUMAN	olfactory receptor, family 1, subfamily L,	199	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3						GTCATCTGCACAATTTCATTG	0.428													18	22	---	---	---	---	PASS	A	125330162	A	A	125330162	3	1	145	1	0	0	0	0	1	0	0	0	10967	478	17	3	338	3	OR1L8	9	125330162	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	48594	125330162	15883269	294	51567										
DENND1A	57706	broad.mit.edu	37	chr9	126392755	126392755	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cccgtggatgcaggcagtcaGctggaacagagcaaagcaga	14	10	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:126392755G>A	uc004bnz.1	-	10	852	c.619C>T	c.(619-621)CTG>TTG	p.L207L	DENND1A_uc011lzl.1_Silent_p.L24L|DENND1A_uc004bny.1_Silent_p.L24L|DENND1A_uc011lzm.1_Silent_p.L175L|DENND1A_uc004boa.1_Silent_p.L207L|DENND1A_uc004bob.1_Silent_p.L177L|DENND1A_uc004boc.2_Silent_p.L175L	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	207	DENN.					cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						CAGGCAGTCAGCTGGAACAGA	0.507													4	1	---	---	---	---	PASS	A	126392755	A	A	126392755	2	1	145	1	0	0	0	0	0	0	0	1	4426	985	34	3		3	DENND1A	9	126392755	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	1062593	126392755	14820676	295	51568										
DENND1A	57706	broad.mit.edu	37	chr9	126520021	126520021	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcttcgctcctgaagataagCggcagaacccgaatctctgt	9	12	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:126520021C>T	uc004bnz.1	-	5	496	c.263G>A	c.(262-264)CGC>CAC	p.R88H	DENND1A_uc004bny.1_5'UTR|DENND1A_uc011lzm.1_Missense_Mutation_p.R56H|DENND1A_uc004boa.1_Missense_Mutation_p.R88H|DENND1A_uc004bob.1_Missense_Mutation_p.R58H|DENND1A_uc004boc.2_Missense_Mutation_p.R56H	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	88	UDENN.					cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						TGAAGATAAGCGGCAGAACCC	0.493													24	60	---	---	---	---	PASS	T	126520021	T	T	126520021	3	4	145	1	0	0	0	0	1	0	0	0	4426	768	27	1	2945	1	DENND1A	9	126520021	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	127266	126520021	14693410	296	51569										
LHX2	9355	broad.mit.edu	37	chr9	126794783	126794783	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tggacaagtcgacagacgcgGcgctgcagacagggacgcca	15	12	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:126794783G>A	uc004boe.1	+	5	1757	c.1018G>A	c.(1018-1020)GCG>ACG	p.A340T	LHX2_uc010mwi.1_Missense_Mutation_p.A348T	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	340						nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GACAGACGCGGCGCTGCAGAC	0.667													25	32	---	---	---	---	PASS	A	126794783	A	A	126794783	3	1	145	1	0	0	0	0	1	0	0	0	8771	1203	42	3	1036	3	LHX2	9	126794783	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	274762	126794783	14418648	297	51570										
ST6GALNAC4	27090	broad.mit.edu	37	chr9	130672250	130672250	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctgcagtagctgtcgctgacCatcccatagaccacgatctc	8	15	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:130672250C>A	uc004bss.2	-	5	975	c.699G>T	c.(697-699)ATG>ATT	p.M233I	ST6GALNAC4_uc004bst.2_Missense_Mutation_p.M149I	NM_175039	NP_778204	Q9H4F1	SIA7D_HUMAN	sialyltransferase 7D isoform a	233	Lumenal (Potential).				glycolipid metabolic process|protein glycosylation	integral to Golgi membrane|nucleus|soluble fraction	(alpha-N-acetylneuraminyl-2,3-beta-galactosyl-1,3)-N-acetyl-galactosaminide 6-alpha-sialyltransferase activity				0						TGTCGCTGACCATCCCATAGA	0.652													22	13	---	---	---	---	PASS	A	130672250	A	A	130672250	3	1	145	1	0	0	0	0	1	0	0	0	15225	594	21	3	217	3	ST6GALNAC4	9	130672250	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	3877467	130672250	10541181	298	51571										
C9orf78	51759	broad.mit.edu	37	chr9	132595737	132595737	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgaacttacttatctttgccCctttccttcagtttcttcat	3	12	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:132595737C>A	uc004byp.2	-	4	327	c.255G>T	c.(253-255)AGG>AGT	p.R85S	C9orf78_uc004byo.2_Missense_Mutation_p.R10S|C9orf78_uc004byq.1_Missense_Mutation_p.R31S|USP20_uc004bys.2_5'Flank|USP20_uc004byr.2_5'Flank|USP20_uc004byt.1_5'Flank	NM_016520	NP_057604	Q9NZ63	CI078_HUMAN	chromosome 9 open reading frame 78	85											0		Ovarian(14;0.00556)				TATCTTTGCCCCTTTCCTTCA	0.468													48	67	---	---	---	---	PASS	A	132595737	A	A	132595737	3	1	145	1	0	0	0	0	1	0	0	0	2496	622	22	3	638	3	C9orf78	9	132595737	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1923487	132595737	8617694	299	51572										
SETX	23064	broad.mit.edu	37	chr9	135204637	135204637	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgcacagatttcatctttcTgtaccttagtttttcgtttt	5	8	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:135204637T>A	uc004cbk.2	-	10	2531	c.2348A>T	c.(2347-2349)CAG>CTG	p.Q783L	SETX_uc004cbj.2_Missense_Mutation_p.Q402L|SETX_uc010mzt.2_Missense_Mutation_p.Q402L	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	783					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		TTCATCTTTCTGTACCTTAGT	0.338													37	67	---	---	---	---	PASS	A	135204637	A	A	135204637	3	1	145	1	0	0	0	0	1	0	0	0	14141	1580	55	5	5753	5	SETX	9	135204637	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	2608900	135204637	6008794	300	51573										
KCNT1	57582	broad.mit.edu	37	chr9	138645808	138645808	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gctgcccaaagcagaactacTccttcaatgactcgtcctcc	6	16	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr9:138645808T>C	uc011mdq.1	+	5	534	c.460T>C	c.(460-462)TCC>CCC	p.S154P	KCNT1_uc011mdr.1_5'UTR|KCNT1_uc010nbf.2_Missense_Mutation_p.S106P|KCNT1_uc004cgo.1_5'UTR	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	154						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		GCAGAACTACTCCTTCAATGA	0.632													20	36	---	---	---	---	PASS	C	138645808	C	C	138645808	3	2	145	1	0	0	0	0	1	0	0	0	8091	1551	54	5	478	5	KCNT1	9	138645808	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	3441171	138645808	2567623	301	51574										
CUBN	8029	broad.mit.edu	37	chr10	16916418	16916418	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	taacggtgatggtatacagaCagtgcatatcatttgggtag	12	5	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:16916418C>T	uc001ioo.2	-	58	9243	c.9191G>A	c.(9190-9192)TGT>TAT	p.C3064Y	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Missense_Mutation_p.C420Y	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3064	CUB 23.				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)	GGTATACAGACAGTGCATATC	0.408													92	94	---	---	---	---	PASS	T	16916418	T	T	16916418	3	4	145	1	0	0	0	0	1	0	0	0	4051	478	17	3	1720	3	CUBN	10	16916418	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08		16916418	118618329	302	51575										
SLC39A12	221074	broad.mit.edu	37	chr10	18289742	18289742	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctatcttgtgtcatgaaatcCcacatgaaatgggtaagttc	8	8	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:18289742C>A	uc001ipo.2	+	11	2020	c.1747C>A	c.(1747-1749)CCA>ACA	p.P583T	SLC39A12_uc001ipn.2_Missense_Mutation_p.P546T|SLC39A12_uc001ipp.2_Missense_Mutation_p.P582T|SLC39A12_uc010qck.1_Missense_Mutation_p.P449T	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	583	XEXPHE-motif.|Cytoplasmic (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						TCATGAAATCCCACATGAAAT	0.413													20	54	---	---	---	---	PASS	A	18289742	A	A	18289742	3	1	145	1	0	0	0	0	1	0	0	0	14615	623	22	3	1785	3	SLC39A12	10	18289742	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1373324	18289742	117245005	303	51576										
SPAG6	9576	broad.mit.edu	37	chr10	22634681	22634681	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aataccagaaggccaggaccCagttcgtgcagatggtggcg	14	10	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:22634681C>G	uc001iri.2	+	2	197	c.55C>G	c.(55-57)CAG>GAG	p.Q19E	SPAG6_uc001irj.2_Missense_Mutation_p.Q19E|SPAG6_uc010qct.1_5'UTR|SPAG6_uc009xkh.2_5'UTR	NM_012443	NP_036575	O75602	SPAG6_HUMAN	sperm associated antigen 6 isoform 1	19					cell projection organization|spermatid development	axoneme|cilium|cytoplasm|flagellum|microtubule	binding			breast(1)	1						GGCCAGGACCCAGTTCGTGCA	0.672													6	10	---	---	---	---	PASS	G	22634681	G	G	22634681	3	3	145	1	0	0	0	0	1	0	0	0	14982	595	21	4	61	4	SPAG6	10	22634681	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	4344939	22634681	112900066	304	51577										
MYO3A	53904	broad.mit.edu	37	chr10	26359100	26359100	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctcctcacatttttgcaatgGctgacttaggatatcaatct	6	10	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:26359100G>C	uc001isn.2	+	13	1591	c.1231G>C	c.(1231-1233)GCT>CCT	p.A411P	MYO3A_uc009xko.1_Missense_Mutation_p.A411P|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Missense_Mutation_p.A411P	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	411	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						TTTTGCAATGGCTGACTTAGG	0.328													47	46	---	---	---	---	PASS	C	26359100	C	C	26359100	3	2	145	1	0	0	0	0	1	0	0	0	10076	1203	42	4	1273	4	MYO3A	10	26359100	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	3724419	26359100	109175647	305	51578										
PTCHD3	374308	broad.mit.edu	37	chr10	27702174	27702174	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccactgcttgctctgcacgtCgtactcagggtcctcggtct	10	15	3	0	rs143991061	byFrequency	TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:27702174C>A	uc001itu.2	-	1	1124	c.1006G>T	c.(1006-1008)GAC>TAC	p.D336Y		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	336					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CTCTGCACGTCGTACTCAGGG	0.527													71	216	---	---	---	---	PASS	A	27702174	A	A	27702174	3	1	145	1	0	0	0	0	1	0	0	0	12734	884	31	2	1313	2	PTCHD3	10	27702174	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1343074	27702174	107832573	306	51579										
ARMC4	55130	broad.mit.edu	37	chr10	28233220	28233220	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aacttggcaacattcgcgatAgtctcggctgccaaacattt	8	11	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:28233220A>G	uc009xky.2	-	12	1772	c.1674T>C	c.(1672-1674)ACT>ACC	p.T558T	ARMC4_uc010qds.1_Silent_p.T83T|ARMC4_uc010qdt.1_Silent_p.T250T|ARMC4_uc001itz.2_Silent_p.T558T|ARMC4_uc010qdu.1_Silent_p.T250T	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	558	ARM 2.						binding			ovary(4)|skin(2)	6						CATTCGCGATAGTCTCGGCTG	0.468													13	34	---	---	---	---	PASS	G	28233220	G	G	28233220	2	3	145	1	0	0	0	0	0	0	0	1	953	407	15	5		5	ARMC4	10	28233220	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	531046	28233220	107301527	307	51580										
ZNF33A	7581	broad.mit.edu	37	chr10	38344866	38344866	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acataatagaacacatacagGggagaaaccctatgaatgta	8	7	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:38344866G>T	uc001izh.2	+	5	1989	c.1811G>T	c.(1810-1812)GGG>GTG	p.G604V	ZNF33A_uc001izg.2_Missense_Mutation_p.G605V|ZNF33A_uc010qev.1_Missense_Mutation_p.G611V|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	604						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						ACACATACAGGGGAGAAACCC	0.373													64	64	---	---	---	---	PASS	T	38344866	T	T	38344866	3	4	145	1	0	0	0	0	1	0	0	0	17851	1232	43	3	1828	3	ZNF33A	10	38344866	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	10111646	38344866	97189881	308	51581										
ARHGAP22	58504	broad.mit.edu	37	chr10	49791061	49791061	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tccccacgcagcacaaaccaGcgctgctgccagttcttcat	7	17	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:49791061G>C	uc001jgt.2	-	2	468	c.171C>G	c.(169-171)CGC>CGG	p.R57R	ARHGAP22_uc001jgu.2_Silent_p.R57R|ARHGAP22_uc010qgl.1_Silent_p.R57R|ARHGAP22_uc010qgm.1_Silent_p.R63R|ARHGAP22_uc001jgv.2_5'UTR	NM_021226	NP_067049	Q7Z5H3	RHG22_HUMAN	Rho GTPase activating protein 2	57	PH.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol|nucleus	GTPase activator activity			ovary(1)	1						GCACAAACCAGCGCTGCTGCC	0.607													48	151	---	---	---	---	PASS	C	49791061	C	C	49791061	2	2	145	1	0	0	0	0	0	0	0	1	872	958	34	4		4	ARHGAP22	10	49791061	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	11446195	49791061	85743686	309	51582										
CHAT	1103	broad.mit.edu	37	chr10	50835662	50835662	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttaccccacagttctttgtCttggatgttgtcattaattt	6	8	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:50835662C>G	uc001jhz.2	+	7	1095	c.942C>G	c.(940-942)GTC>GTG	p.V314V	CHAT_uc001jhv.1_Silent_p.V196V|CHAT_uc001jhx.1_Silent_p.V196V|CHAT_uc001jhy.1_Silent_p.V196V|CHAT_uc001jia.2_Silent_p.V196V|CHAT_uc010qgs.1_Silent_p.V196V	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	314					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	AGTTCTTTGTCTTGGATGTTG	0.512													56	147	---	---	---	---	PASS	G	50835662	G	G	50835662	2	3	145	1	0	0	0	0	0	0	0	1	3313	900	32	2		2	CHAT	10	50835662	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	1044601	50835662	84699085	310	51583										
RHOBTB1	9886	broad.mit.edu	37	chr10	62648482	62648482	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctggaaatctctgctctgcTtctctttctcacaggctcct	6	15	4	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:62648482T>A	uc001jli.2	-	7	1382	c.944A>T	c.(943-945)AAG>ATG	p.K315M	RHOBTB1_uc001jlh.2_Missense_Mutation_p.K315M|RHOBTB1_uc001jlj.2_Missense_Mutation_p.K315M|RHOBTB1_uc001jlk.2_Missense_Mutation_p.K315M|RHOBTB1_uc009xpe.1_Missense_Mutation_p.K253M|RHOBTB1_uc001jll.2_Missense_Mutation_p.K65M	NM_014836	NP_055651	O94844	RHBT1_HUMAN	Rho-related BTB domain containing 1	315	BTB 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)					TCTGCTCTGCTTCTCTTTCTC	0.493													35	143	---	---	---	---	PASS	A	62648482	A	A	62648482	3	1	145	1	0	0	0	0	1	0	0	0	13333	1609	56	5	1170	5	RHOBTB1	10	62648482	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	11812820	62648482	72886265	311	51584										
ZCCHC24	219654	broad.mit.edu	37	chr10	81154191	81154191	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtcaggccctcgcctttgggGcgtgcctacagggcaggaag	16	12	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:81154191G>C	uc001kak.2	-	3	640	c.453C>G	c.(451-453)CGC>CGG	p.R151R	ZCCHC24_uc010qlr.1_Missense_Mutation_p.P92A|ZCCHC24_uc009xrw.2_RNA	NM_153367	NP_699198	Q8N2G6	ZCH24_HUMAN	zinc finger, CCHC domain containing 24	151							nucleic acid binding|zinc ion binding			breast(1)	1						CGCCTTTGGGGCGTGCCTACA	0.582													15	100	---	---	---	---	PASS	C	81154191	C	C	81154191	2	2	145	1	0	0	0	0	0	0	0	1	17585	1190	42	4		4	ZCCHC24	10	81154191	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	18505709	81154191	54380556	312	51585										
WAPAL	23063	broad.mit.edu	37	chr10	88227065	88227065	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttctagatcaagatgcttgtTgtgtacagtttcacagagcc	9	8	3	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:88227065T>C	uc001kdo.2	-	9	2783	c.2341A>G	c.(2341-2343)AAC>GAC	p.N781D	WAPAL_uc009xsv.2_Missense_Mutation_p.N95D|WAPAL_uc001kdn.2_Missense_Mutation_p.N818D|WAPAL_uc009xsw.2_Missense_Mutation_p.N775D	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	781	Potential.|WAPL.				cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						AGATGCTTGTTGTGTACAGTT	0.358													32	70	---	---	---	---	PASS	C	88227065	C	C	88227065	3	2	145	1	0	0	0	0	1	0	0	0	17245	1812	63	5	1275	5	WAPAL	10	88227065	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	7072874	88227065	47307682	313	51586										
PI4K2A	55361	broad.mit.edu	37	chr10	99361612	99361612	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttctgcgtcttacttcgtgcAggagctgtggggggcgtctg	16	9	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:99361612A>C	uc010qoy.1	+	2	571	c.212_splice	c.e2-2	p.G71_splice	DHDPSL_uc001kny.2_Splice_Site_p.G234_splice|DHDPSL_uc001knz.2_Splice_Site_p.G71_splice	NM_018425	NP_060895	Q9BTU6	P4K2A_HUMAN	phosphatidylinositol 4-kinase type 2 alpha						phosphatidylinositol biosynthetic process	cytoplasm|integral to plasma membrane|membrane raft	1-phosphatidylinositol 4-kinase activity|ATP binding|magnesium ion binding			lung(1)|skin(1)	2		Colorectal(252;0.162)		Epithelial(162;1.24e-10)|all cancers(201;1.2e-08)		TACTTCGTGCAGGAGCTGTGG	0.627													5	23	---	---	---	---	PASS	C	99361612	C	C	99361612	5	2	145	1	0	0	0	0	0	0	1	0	11871	202	7	5		5	PI4K2A	10	99361612	Splice_Site	SNP	A	TCGA-66-2756-01A-01D-1522-08	11134547	99361612	36173135	314	51587										
HPS1	3257	broad.mit.edu	37	chr10	100195396	100195396	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agagctatagactcaccaggTgaaggacatacaggaagttg	12	7	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:100195396T>A	uc010qpf.1	-	4	497	c.251A>T	c.(250-252)CAC>CTC	p.H84L	HPS1_uc001kpi.1_Missense_Mutation_p.H84L|HPS1_uc001kpj.1_Missense_Mutation_p.H24L|HPS1_uc001kpk.1_Missense_Mutation_p.H84L|HPS1_uc009xwb.2_RNA|HPS1_uc010qph.1_Missense_Mutation_p.H84L|HPS1_uc001kpl.2_Missense_Mutation_p.H84L	NM_000195	NP_000186	Q92902	HPS1_HUMAN	Hermansky-Pudlak syndrome 1 protein isoform a	84					lysosome organization|response to stimulus|visual perception	cytoplasmic membrane-bounded vesicle|integral to plasma membrane|lysosome|membrane fraction|soluble fraction	protein dimerization activity			skin(1)	1		Colorectal(252;0.234)		Epithelial(162;3.87e-12)|all cancers(201;5.63e-10)		ACTCACCAGGTGAAGGACATA	0.522									Hermansky-Pudlak_syndrome				39	95	---	---	---	---	PASS	A	100195396	A	A	100195396	3	1	145	1	0	0	0	0	1	0	0	0	7339	1696	59	5	1957	5	HPS1	10	100195396	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	833784	100195396	35339351	315	51588										
DNMBP	23268	broad.mit.edu	37	chr10	101715737	101715737	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	taacttgctaggttgtggagCtgaggacttgattgtctggg	15	5	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:101715737C>A	uc001kqj.2	-	4	1586	c.1494G>T	c.(1492-1494)CAG>CAT	p.Q498H	NCRNA00093_uc001kqk.1_Intron	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	498					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		GGTTGTGGAGCTGAGGACTTG	0.488													61	116	---	---	---	---	PASS	A	101715737	A	A	101715737	3	1	145	1	0	0	0	0	1	0	0	0	4674	796	28	3	3295	3	DNMBP	10	101715737	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1520341	101715737	33819010	316	51589										
MGEA5	10724	broad.mit.edu	37	chr10	103559213	103559213	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	actgtgtgcaacttgcctacCtacaaaaataaataaatgta	5	8	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:103559213C>T	uc001ktv.2	-	9	1639	c.1196_splice	c.e9-1	p.S399_splice	MGEA5_uc001ktu.2_Splice_Site|MGEA5_uc010qqe.1_Splice_Site_p.S346_splice|MGEA5_uc009xws.2_Splice_Site_p.S346_splice|MGEA5_uc001ktw.2_Splice_Site_p.S399_splice|MGEA5_uc009xwt.2_Intron	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)						glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		ACTTGCCTACCTACAAAAATA	0.348													39	69	---	---	---	---	PASS	T	103559213	T	T	103559213	5	4	145	1	0	0	0	0	0	0	1	0	9555	695	24	3	1587	3	MGEA5	10	103559213	Splice_Site	SNP	C	TCGA-66-2756-01A-01D-1522-08	1843476	103559213	31975534	317	51590										
PPRC1	23082	broad.mit.edu	37	chr10	103909051	103909051	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgatctctgctttgggggccGaaggcagttctgcaagagga	15	8	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:103909051G>T	uc001kum.2	+	13	4895	c.4856G>T	c.(4855-4857)CGA>CTA	p.R1619L	PPRC1_uc001kun.2_Missense_Mutation_p.R1497L|PPRC1_uc010qqj.1_Missense_Mutation_p.R1355L|PPRC1_uc009xxa.2_RNA|NOLC1_uc001kuo.2_5'Flank|NOLC1_uc001kup.2_5'Flank|NOLC1_uc001kuq.2_5'Flank|NOLC1_uc009xxb.1_5'Flank|NOLC1_uc001kur.2_5'Flank	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	1619	RRM.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		TTTGGGGGCCGAAGGCAGTTC	0.552													17	43	---	---	---	---	PASS	T	103909051	T	T	103909051	3	4	145	1	0	0	0	0	1	0	0	0	12410	1058	37	2	4906	2	PPRC1	10	103909051	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	349838	103909051	31625696	318	51591										
ABLIM1	3983	broad.mit.edu	37	chr10	116331078	116331078	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctggagaaggtggtttctttCggactggacgacatcggctg	15	8	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:116331078C>A	uc010qsg.1	-	4	750	c.651G>T	c.(649-651)CCG>CCT	p.P217P	ABLIM1_uc010qsh.1_Silent_p.P157P|ABLIM1_uc010qsi.1_Silent_p.P157P|ABLIM1_uc010qsk.1_Silent_p.P141P|ABLIM1_uc009xyp.2_Silent_p.P151P|ABLIM1_uc009xyo.2_Silent_p.P65P	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	217					axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		TGGTTTCTTTCGGACTGGACG	0.552													3	43	---	---	---	---	PASS	A	116331078	A	A	116331078	2	1	145	1	0	0	0	0	0	0	0	1	94	871	31	2		2	ABLIM1	10	116331078	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	12422027	116331078	19203669	319	51592										
C10orf46	143384	broad.mit.edu	37	chr10	120460919	120460919	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tggtttcgatgtaaaacttaTtctgaaaaataaaataaaat	5	3	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:120460919T>C	uc001lds.1	-	5	1179	c.695A>G	c.(694-696)AAT>AGT	p.N232S	C10orf46_uc010qst.1_RNA	NM_153810	NP_722517	Q86Y37	CJ046_HUMAN	chromosome 10 open reading frame 46	232					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding				0		Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0131)		GTAAAACTTATTCTGAAAAAT	0.299													19	46	---	---	---	---	PASS	C	120460919	C	C	120460919	3	2	145	1	0	0	0	0	1	0	0	0	1604	1507	52	5	434	5	C10orf46	10	120460919	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	4129841	120460919	15073828	320	51593										
HTRA1	5654	broad.mit.edu	37	chr10	124271486	124271486	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtgctttttctctggagcagCaaagccaaagagctgaagga	12	8	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:124271486C>A	uc001lgj.2	+	8	1307	c.1179C>A	c.(1177-1179)AGC>AGA	p.S393R		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	393	PDZ.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				TCTGGAGCAGCAAAGCCAAAG	0.512													23	53	---	---	---	---	PASS	A	124271486	A	A	124271486	3	1	145	1	0	0	0	0	1	0	0	0	7453	724	25	3	1209	3	HTRA1	10	124271486	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	3810567	124271486	11263261	321	51594										
C10orf90	118611	broad.mit.edu	37	chr10	128153489	128153489	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcttctgttccactggaggaGcagacacagtcatacatact	9	11	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:128153489G>T	uc001ljq.2	-	4	1431	c.1310C>A	c.(1309-1311)GCT>GAT	p.A437D	C10orf90_uc001ljp.2_Intron|C10orf90_uc010qum.1_Missense_Mutation_p.A534D|C10orf90_uc009yao.2_3'UTR|C10orf90_uc001ljo.2_5'Flank	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	437										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		CACTGGAGGAGCAGACACAGT	0.453													34	61	---	---	---	---	PASS	T	128153489	T	T	128153489	3	4	145	1	0	0	0	0	1	0	0	0	1623	971	34	3	813	3	C10orf90	10	128153489	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	3882003	128153489	7381258	322	51595										
TUBGCP2	10844	broad.mit.edu	37	chr10	135112994	135112994	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctcagttcctcaagctcctgCatggagatcttggaggccgc	11	13	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:135112994C>A	uc001lmg.1	-	4	750	c.393G>T	c.(391-393)ATG>ATT	p.M131I	TUBGCP2_uc010qvc.1_Missense_Mutation_p.M131I|TUBGCP2_uc009ybk.1_Missense_Mutation_p.M131I|TUBGCP2_uc010qvd.1_Missense_Mutation_p.M1I|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	131					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		CAAGCTCCTGCATGGAGATCT	0.597													29	28	---	---	---	---	PASS	A	135112994	A	A	135112994	3	1	145	1	0	0	0	0	1	0	0	0	16763	710	25	3	2375	3	TUBGCP2	10	135112994	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	6959505	135112994	421753	323	51596										
FRG2B	441581	broad.mit.edu	37	chr10	135440163	135440163	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tctgagcccttttctgtaaaGgagatctgttggaaaggggg	14	6	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr10:135440163G>T	uc010qvg.1	-	1	137	c.84C>A	c.(82-84)TCC>TCA	p.S28S		NM_001080998	NP_001074467	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	28						nucleus					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		TTTCTGTAAAGGAGATCTGTT	0.488													9	241	---	---	---	---	PASS	T	135440163	T	T	135440163	2	4	145	1	0	0	0	0	0	0	0	1	6047	987	35	3		3	FRG2B	10	135440163	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	327169	135440163	94584	324	51597										
RASSF7	8045	broad.mit.edu	37	chr11	562207	562207	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcgatgtccagtttgtcctgAggcgcacagggcccagccta	13	13	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:562207A>G	uc001lqc.2	+	3	288	c.253A>G	c.(253-255)AGG>GGG	p.R85G	C11orf35_uc001lpx.2_5'Flank|RASSF7_uc001lqa.2_Missense_Mutation_p.R85G|RASSF7_uc001lqb.2_Missense_Mutation_p.R85G|RASSF7_uc001lqd.2_Missense_Mutation_p.R85G	NM_003475	NP_003466	Q02833	RASF7_HUMAN	Ras association (RalGDS/AF-6) domain family	85	Ras-associating.				regulation of transcription, DNA-dependent|signal transduction	nucleus	DNA binding|protein binding			skin(1)	1		all_cancers(49;2.16e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;7.18e-28)|Epithelial(43;6.93e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.97e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GTTTGTCCTGAGGCGCACAGG	0.657													21	38	---	---	---	---	PASS	G	562207	G	G	562207	3	3	145	1	0	0	0	0	1	0	0	0	13091	295	11	5	259	5	RASSF7	11	562207	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08		562207	134444309	325	51598										
MUC6	4588	broad.mit.edu	37	chr11	1016849	1016849	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtctggaaggatgttgcagtCataggacctgtggaagagaa	15	5	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:1016849C>A	uc001lsw.2	-	31	6003	c.5952G>T	c.(5950-5952)ATG>ATT	p.M1984I		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1984	Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		ATGTTGCAGTCATAGGACCTG	0.582													17	670	---	---	---	---	PASS	A	1016849	A	A	1016849	3	1	145	1	0	0	0	0	1	0	0	0	9980	826	29	2	1379	2	MUC6	11	1016849	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	454642	1016849	133989667	326	51599										
MUC5B	727897	broad.mit.edu	37	chr11	1268797	1268797	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcagccccacatcggcccccAtaaccacggtggtgaccacg	10	18	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:1268797A>G	uc009ycr.1	+	50	12397	c.12271A>G	c.(12271-12273)ATA>GTA	p.I4091V	MUC5B_uc001ltb.2_Missense_Mutation_p.I3566V	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3563	7 X Cys-rich subdomain repeats.|Thr-rich.|HAT 2.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ATCGGCCCCCATAACCACGGT	0.687													3	48	---	---	---	---	PASS	G	1268797	G	G	1268797	3	3	145	1	0	0	0	0	1	0	0	0	9979	217	8	5	10818	5	MUC5B	11	1268797	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	251948	1268797	133737719	327	51600										
TH	7054	broad.mit.edu	37	chr11	2189848	2189848	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgggggcccccagctcgcggCctctgggcgggccgggtctc	18	16	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:2189848C>T	uc001lvq.2	-	4	472	c.453G>A	c.(451-453)AGG>AGA	p.R151R	TH_uc001lvp.2_Silent_p.R147R|TH_uc001lvr.2_Silent_p.R120R|TH_uc010qxj.1_Silent_p.R124R|TH_uc001lvs.2_Silent_p.R120R|TH_uc001lvt.2_Silent_p.R124R|TH_uc009ydh.1_5'Flank	NM_199292	NP_954986	P07101	TY3H_HUMAN	tyrosine hydroxylase isoform a	151					dopamine biosynthetic process from tyrosine|embryonic camera-type eye morphogenesis|epinephrine biosynthetic process|eye photoreceptor cell development|heart morphogenesis|hormone biosynthetic process|learning|locomotory behavior|memory|neurotransmitter biosynthetic process|neurotransmitter secretion|norepinephrine biosynthetic process|pigmentation|regulation of heart contraction|response to ethanol|response to hypoxia|synaptic transmission, dopaminergic|visual perception	cytosol|internal side of plasma membrane|melanosome membrane|nucleus|perikaryon|smooth endoplasmic reticulum	protein binding|tyrosine 3-monooxygenase activity				0		all_epithelial(84;1.46e-23)|Lung NSC(207;4.44e-11)|all_lung(207;1.11e-09)|Ovarian(85;1.78e-06)|Breast(177;1.78e-05)|Medulloblastoma(188;0.0208)|all_neural(188;0.0416)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;8.45e-09)|Lung(200;0.000152)|LUSC - Lung squamous cell carcinoma(625;0.00154)	L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Metyrosine(DB00765)|Tetrahydrobiopterin(DB00360)	CAGCTCGCGGCCTCTGGGCGG	0.552													14	20	---	---	---	---	PASS	T	2189848	T	T	2189848	2	4	145	1	0	0	0	0	0	0	0	1	15835	738	26	3		3	TH	11	2189848	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	921051	2189848	132816668	328	51601										
OR52K1	390036	broad.mit.edu	37	chr11	4510178	4510178	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	catccagctgtctttttgttGgtaggaattcctggtttgga	11	7	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:4510178G>T	uc001lza.1	+	1	48	c.48G>T	c.(46-48)TTG>TTT	p.L16F		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		TCTTTTTGTTGGTAGGAATTC	0.463													96	147	---	---	---	---	PASS	T	4510178	T	T	4510178	3	4	145	1	0	0	0	0	1	0	0	0	11123	1339	47	3	50	3	OR52K1	11	4510178	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2320330	4510178	130496338	329	51602										
OR56A1	120796	broad.mit.edu	37	chr11	6048656	6048656	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctgatcgacctaagatcataCcagaagatggccaggacctt	9	11	1	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:6048656C>G	uc010qzw.1	-	1	279	c.279G>C	c.(277-279)TGG>TGC	p.W93C		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	93	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TAAGATCATACCAGAAGATGG	0.562													41	90	---	---	---	---	PASS	G	6048656	G	G	6048656	3	3	145	1	0	0	0	0	1	0	0	0	11133	508	18	4	681	4	OR56A1	11	6048656	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1538478	6048656	128957860	330	51603										
WEE1	7465	broad.mit.edu	37	chr11	9608047	9608047	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgcgcttgccctcacagtgGtatgtgctgctggtgctgaa	13	10	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:9608047G>T	uc001mhs.2	+	9	1775	c.1522G>T	c.(1522-1524)GTA>TTA	p.V508L	WEE1_uc001mht.2_Missense_Mutation_p.V294L	NM_003390	NP_003381	P30291	WEE1_HUMAN	WEE1 tyrosine kinase isoform 1	508	Protein kinase.				blood coagulation|cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|S phase of mitotic cell cycle	nucleoplasm	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	5				all cancers(16;4.59e-09)|Epithelial(150;3.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0484)		CCTCACAGTGGTATGTGCTGC	0.393													81	101	---	---	---	---	PASS	T	9608047	T	T	9608047	3	4	145	1	0	0	0	0	1	0	0	0	17341	1261	44	3	1556	3	WEE1	11	9608047	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	3559391	9608047	125398469	331	51604										
SPON1	10418	broad.mit.edu	37	chr11	14157086	14157086	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgcagaattgggctcacccgTgaaaatggaggaagaaattc	12	7	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:14157086T>A	uc001mle.2	+	7	1335	c.797T>A	c.(796-798)GTG>GAG	p.V266E		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	266	Spondin.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		GGCTCACCCGTGAAAATGGAG	0.433													48	58	---	---	---	---	PASS	A	14157086	A	A	14157086	3	1	145	1	0	0	0	0	1	0	0	0	15081	1696	59	5	818	5	SPON1	11	14157086	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	4549039	14157086	120849430	332	51605										
MRGPRX4	117196	broad.mit.edu	37	chr11	18194982	18194982	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctaccgcatgcgcaggaacgCtgtctccatctacatcctca	7	16	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:18194982C>A	uc001mnv.1	+	1	599	c.179C>A	c.(178-180)GCT>GAT	p.A60D		NM_054032	NP_473373	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	60	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						CGCAGGAACGCTGTCTCCATC	0.547													70	73	---	---	---	---	PASS	A	18194982	A	A	18194982	3	1	145	1	0	0	0	0	1	0	0	0	9769	797	28	3	181	3	MRGPRX4	11	18194982	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	4037896	18194982	116811534	333	51606										
ANO3	63982	broad.mit.edu	37	chr11	26463486	26463486	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tatgaatataagcaagagtgAgataacaaaagaaacttcgt	8	4	0	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:26463486A>C	uc001mqt.3	+	2	213	c.68A>C	c.(67-69)GAG>GCG	p.E23A	ANO3_uc010rdr.1_Missense_Mutation_p.E7A	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	23	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						AGCAAGAGTGAGATAACAAAA	0.388													45	153	---	---	---	---	PASS	C	26463486	C	C	26463486	3	2	145	1	0	0	0	0	1	0	0	0	698	304	11	5	74	5	ANO3	11	26463486	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	8268504	26463486	108543030	334	51607										
EHF	26298	broad.mit.edu	37	chr11	34668094	34668094	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctggacaccaaccagctggAtgccaattgtatccctttcc	7	15	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:34668094A>T	uc001mvr.1	+	3	317	c.206A>T	c.(205-207)GAT>GTT	p.D69V	EHF_uc009yke.1_Missense_Mutation_p.D69V|EHF_uc009ykf.1_Missense_Mutation_p.D72V	NM_012153	NP_036285	Q9NZC4	EHF_HUMAN	ets homologous factor	69	PNT.				cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)			AACCAGCTGGATGCCAATTGT	0.577													99	171	---	---	---	---	PASS	T	34668094	T	T	34668094	3	4	145	1	0	0	0	0	1	0	0	0	4981	333	12	5	212	5	EHF	11	34668094	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	8204608	34668094	100338422	335	51608										
SYT13	57586	broad.mit.edu	37	chr11	45277321	45277321	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgggctcctccgtagacctcAgtgaatagtctgcatagttg	11	10	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:45277321A>C	uc001myq.2	-	2	431	c.305T>G	c.(304-306)CTG>CGG	p.L102R	SYT13_uc009yku.1_5'UTR	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	102	Cytoplasmic (Potential).					transport vesicle				ovary(1)	1						CGTAGACCTCAGTGAATAGTC	0.592													21	71	---	---	---	---	PASS	C	45277321	C	C	45277321	3	2	145	1	0	0	0	0	1	0	0	0	15466	188	7	5	995	5	SYT13	11	45277321	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	10609227	45277321	89729195	336	51609										
CRY2	1408	broad.mit.edu	37	chr11	45893667	45893667	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aagaccactacccagtggccCagcatcccccaaacgcaagc	7	18	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:45893667C>G	uc010rgn.1	+	11	1752	c.1730C>G	c.(1729-1731)CCA>CGA	p.P577R	CRY2_uc009ykw.2_Missense_Mutation_p.P495R|CRY2_uc010rgo.1_Missense_Mutation_p.P299R	NM_021117	NP_066940	Q49AN0	CRY2_HUMAN	cryptochrome 2 (photolyase-like) isoform 1	556					DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	blue light photoreceptor activity|damaged DNA binding|DNA photolyase activity|nucleotide binding|protein binding|single-stranded DNA binding			central_nervous_system(1)	1						CCCAGTGGCCCAGCATCCCCC	0.597													21	65	---	---	---	---	PASS	G	45893667	G	G	45893667	3	3	145	1	0	0	0	0	1	0	0	0	3904	594	21	4	1808	4	CRY2	11	45893667	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	616346	45893667	89112849	337	51610										
LRP4	4038	broad.mit.edu	37	chr11	46897450	46897450	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gttgttgatgagcaccgcgcGgtctgagccatccattccgg	13	12	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:46897450G>A	uc001ndn.3	-	26	3750	c.3604C>T	c.(3604-3606)CGC>TGC	p.R1202C		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1202	Extracellular (Potential).|LDL-receptor class B 13.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		AGCACCGCGCGGTCTGAGCCA	0.537													32	39	---	---	---	---	PASS	A	46897450	A	A	46897450	3	1	145	1	0	0	0	0	1	0	0	0	8959	1116	39	1	2165	1	LRP4	11	46897450	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1003783	46897450	88109066	338	51611										
AGBL2	79841	broad.mit.edu	37	chr11	47703571	47703571	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tggtgtagctgtttaggattCccatccgccacataacaact	8	11	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:47703571C>A	uc001ngg.2	-	11	1965	c.1865G>T	c.(1864-1866)GGA>GTA	p.G622V	AGBL2_uc001ngf.2_RNA|AGBL2_uc010rhq.1_Missense_Mutation_p.G584V|AGBL2_uc001ngh.1_Missense_Mutation_p.G566V	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	622					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						GTTTAGGATTCCCATCCGCCA	0.418													14	71	---	---	---	---	PASS	A	47703571	A	A	47703571	3	1	145	1	0	0	0	0	1	0	0	0	376	855	30	2	875	2	AGBL2	11	47703571	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	806121	47703571	87302945	339	51612										
NUP160	23279	broad.mit.edu	37	chr11	47825022	47825022	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcctgtaactaggtaacaccTtcccagcataaatcgacagg	7	12	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:47825022T>A	uc001ngm.2	-	22	2828	c.2743A>T	c.(2743-2745)AGG>TGG	p.R915W	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	915					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						AGGTAACACCTTCCCAGCATA	0.373													76	119	---	---	---	---	PASS	A	47825022	A	A	47825022	3	1	145	1	0	0	0	0	1	0	0	0	10757	1608	56	5	1627	5	NUP160	11	47825022	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	121451	47825022	87181494	340	51613										
OR4A15	81328	broad.mit.edu	37	chr11	55135929	55135929	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcattggttcaatttctcttTatttatcagctccctttctg	4	10	5	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:55135929T>G	uc010rif.1	+	1	570	c.570T>G	c.(568-570)TTT>TTG	p.F190L		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	190	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AATTTCTCTTTATTTATCAGC	0.423													87	304	---	---	---	---	PASS	G	55135929	G	G	55135929	3	3	145	1	0	0	0	0	1	0	0	0	11040	1751	61	5	572	5	OR4A15	11	55135929	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	7310907	55135929	79870587	341	51614										
OR8H1	219469	broad.mit.edu	37	chr11	56058536	56058536	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttgtgttatttcttctaccCatgatgttcaattgctttaa	5	7	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:56058536C>A	uc010rje.1	-	1	3	c.3G>T	c.(1-3)ATG>ATT	p.M1I		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					TTCTTCTACCCATGATGTTCA	0.353													62	115	---	---	---	---	PASS	A	56058536	A	A	56058536	3	1	145	1	0	0	0	0	1	0	0	0	11237	594	21	3	934	3	OR8H1	11	56058536	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	922607	56058536	78947980	342	51615										
OR6Q1	219952	broad.mit.edu	37	chr11	57799186	57799186	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cacctgactgtggtgagcctCttctatggcactcttttctt	8	12	4	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:57799186C>A	uc010rjz.1	+	1	762	c.762C>A	c.(760-762)CTC>CTA	p.L254L	OR9Q1_uc001nmj.2_Intron	NM_001005186	NP_001005186	Q8NGQ2	OR6Q1_HUMAN	olfactory receptor, family 6, subfamily Q,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(1)	1		Breast(21;0.0707)|all_epithelial(135;0.142)				TGGTGAGCCTCTTCTATGGCA	0.522													95	153	---	---	---	---	PASS	A	57799186	A	A	57799186	2	1	145	1	0	0	0	0	0	0	0	1	11208	900	32	2		2	OR6Q1	11	57799186	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	1740650	57799186	77207330	343	51616										
ZFP91	80829	broad.mit.edu	37	chr11	58377407	58377407	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggcgtagtagtaggacatctGtttctcgccatcgtgataca	11	9	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:58377407G>T	uc001nmx.3	+	3	643	c.475G>T	c.(475-477)GTT>TTT	p.V159F	ZFP91_uc001nmy.3_Missense_Mutation_p.V159F|ZFP91-CNTF_uc010rkm.1_RNA	NM_053023	NP_444251	Q96JP5	ZFP91_HUMAN	zinc finger protein 91	159					activation of NF-kappaB-inducing kinase activity|protein K63-linked ubiquitination	nucleus	nucleic acid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				TAGGACATCTGTTTCTCGCCA	0.498													68	86	---	---	---	---	PASS	T	58377407	T	T	58377407	3	4	145	1	0	0	0	0	1	0	0	0	17652	1377	48	3	485	3	ZFP91	11	58377407	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	578221	58377407	76629109	344	51617										
MPEG1	219972	broad.mit.edu	37	chr11	58979095	58979095	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acaggtgcaccggggagtagCcagaggggcaggagaaatca	17	8	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:58979095C>G	uc001nnu.3	-	1	1400	c.1244G>C	c.(1243-1245)GGC>GCC	p.G415A		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	415	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				CGGGGAGTAGCCAGAGGGGCA	0.537													34	54	---	---	---	---	PASS	G	58979095	G	G	58979095	3	3	145	1	0	0	0	0	1	0	0	0	9723	739	26	4	910	4	MPEG1	11	58979095	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	601688	58979095	76027421	345	51618										
OSBP	5007	broad.mit.edu	37	chr11	59361714	59361714	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cgctgaagcatggacaagggCtcattaaagtttacctgtaa	10	8	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:59361714C>A	uc001noc.1	-	8	1806	c.1326G>T	c.(1324-1326)GAG>GAT	p.E442D	OSBP_uc009ymr.1_RNA	NM_002556	NP_002547	P22059	OSBP1_HUMAN	oxysterol binding protein	442	Sterol binding (By similarity).				lipid transport	Golgi membrane	oxysterol binding			large_intestine(1)	1		all_epithelial(135;0.000236)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		TGGACAAGGGCTCATTAAAGT	0.373													31	63	---	---	---	---	PASS	A	59361714	A	A	59361714	3	1	145	1	0	0	0	0	1	0	0	0	11273	796	28	3	1125	3	OSBP	11	59361714	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	382619	59361714	75644802	346	51619										
VWCE	220001	broad.mit.edu	37	chr11	61049333	61049333	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gaagctgcccacggtgttgtGgcaggaatggtgacagactc	15	9	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:61049333G>A	uc001nra.2	-	7	991	c.712C>T	c.(712-714)CAC>TAC	p.H238Y	VWCE_uc001nrb.2_RNA	NM_152718	NP_689931	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains	238	EGF-like 4; calcium-binding (Potential).					extracellular region	calcium ion binding			ovary(1)	1						ACGGTGTTGTGGCAGGAATGG	0.622													5	38	---	---	---	---	PASS	A	61049333	A	A	61049333	3	1	145	1	0	0	0	0	1	0	0	0	17242	1348	47	3	2211	3	VWCE	11	61049333	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1687619	61049333	73957183	347	51620										
TUT1	64852	broad.mit.edu	37	chr11	62344195	62344195	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggggaaactgcagtcccagcCatcgacttccacctgttccc	9	16	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:62344195C>A	uc001nto.2	-	8	1560	c.1522G>T	c.(1522-1524)GGC>TGC	p.G508C	EEF1G_uc001ntm.1_5'Flank|EEF1G_uc010rlw.1_5'Flank|TUT1_uc001ntp.1_5'UTR	NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	470					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						CAGTCCCAGCCATCGACTTCC	0.527													37	72	---	---	---	---	PASS	A	62344195	A	A	62344195	3	1	145	1	0	0	0	0	1	0	0	0	16777	594	21	3	1224	3	TUT1	11	62344195	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1294862	62344195	72662321	348	51621										
EML3	256364	broad.mit.edu	37	chr11	62373335	62373335	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttaacccccaacctggattaCaggggagaagccctgggcca	11	13	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:62373335C>T	uc001ntu.1	-	14	2082	c.1774G>A	c.(1774-1776)GTA>ATA	p.V592I	EML3_uc001ntr.1_Missense_Mutation_p.V564I|EML3_uc001nts.1_Missense_Mutation_p.V564I|EML3_uc001ntt.1_Missense_Mutation_p.V476I|EML3_uc010rly.1_Missense_Mutation_p.V592I	NM_153265	NP_694997	Q32P44	EMAL3_HUMAN	echinoderm microtubule associated protein like	592						cytoplasm|microtubule	protein binding			ovary(1)	1						ACCTGGATTACAGGGGAGAAG	0.612													26	82	---	---	---	---	PASS	T	62373335	T	T	62373335	3	4	145	1	0	0	0	0	1	0	0	0	5098	478	17	3	952	3	EML3	11	62373335	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	29140	62373335	72633181	349	51622										
INTS5	80789	broad.mit.edu	37	chr11	62415076	62415076	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gggccaggccagctctgcacCagctgcatcgggacacacac	12	16	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:62415076C>T	uc001nud.2	-	2	2529	c.2476G>A	c.(2476-2478)GGT>AGT	p.G826S	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	826					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						AGCTCTGCACCAGCTGCATCG	0.652													49	102	---	---	---	---	PASS	T	62415076	T	T	62415076	3	4	145	1	0	0	0	0	1	0	0	0	7781	594	21	3	587	3	INTS5	11	62415076	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	41741	62415076	72591440	350	51623										
SLC22A8	9376	broad.mit.edu	37	chr11	62760744	62760744	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcctggtccgtgaggctgtaGagggatcctctgggaggcct	17	10	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:62760744G>T	uc001nwo.2	-	11	1730	c.1594C>A	c.(1594-1596)CTA>ATA	p.L532I	SLC22A8_uc001nwn.1_3'UTR|SLC22A8_uc001nwp.2_3'UTR|SLC22A8_uc009yom.2_Missense_Mutation_p.L409I|SLC22A8_uc010rmm.1_Missense_Mutation_p.L441I|SLC22A8_uc009yon.2_Missense_Mutation_p.L532I	NM_004254	NP_004245	Q8TCC7	S22A8_HUMAN	solute carrier family 22 member 8	532	Extracellular (Potential).				response to toxin	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|organic anion transmembrane transporter activity			skin(2)|ovary(1)	3						TGAGGCTGTAGAGGGATCCTC	0.602													7	35	---	---	---	---	PASS	T	62760744	T	T	62760744	3	4	145	1	0	0	0	0	1	0	0	0	14460	933	33	2	38	2	SLC22A8	11	62760744	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	345668	62760744	72245772	351	51624										
NRXN2	9379	broad.mit.edu	37	chr11	64419624	64419624	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaacagcgtttcggggccttTacctgcggcaccaagggggg	15	11	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:64419624T>C	uc001oar.2	-	14	2858	c.2419A>G	c.(2419-2421)AAA>GAA	p.K807E	NRXN2_uc001oas.2_Missense_Mutation_p.K767E|NRXN2_uc001oaq.2_Missense_Mutation_p.K474E	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						TCGGGGCCTTTACCTGCGGCA	0.582													9	31	---	---	---	---	PASS	C	64419624	C	C	64419624	3	2	145	1	0	0	0	0	1	0	0	0	10666	1763	61	5	3032	5	NRXN2	11	64419624	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	1658880	64419624	70586892	352	51625										
NPAS4	266743	broad.mit.edu	37	chr11	66191304	66191304	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctgcctcttctctcctctccAgtgacatggaagcctggagc	9	15	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:66191304A>T	uc001ohx.1	+	7	1121	c.945_splice	c.e7-2	p.S315_splice	NPAS4_uc010rpc.1_Splice_Site_p.S105_splice	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4						transcription, DNA-dependent		DNA binding|signal transducer activity				0						TCTCCTCTCCAGTGACATGGA	0.577													71	62	---	---	---	---	PASS	T	66191304	T	T	66191304	5	4	145	1	0	0	0	0	0	0	1	0	10565	202	7	5	969	5	NPAS4	11	66191304	Splice_Site	SNP	A	TCGA-66-2756-01A-01D-1522-08	1771680	66191304	68815212	353	51626										
NPAS4	266743	broad.mit.edu	37	chr11	66192136	66192136	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctgcacgctcttggccctagCccagctccggggccccctct	10	20	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:66192136C>G	uc001ohx.1	+	7	1951	c.1775C>G	c.(1774-1776)GCC>GGC	p.A592G	NPAS4_uc010rpc.1_Missense_Mutation_p.A382G	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	592					transcription, DNA-dependent		DNA binding|signal transducer activity				0						TTGGCCCTAGCCCAGCTCCGG	0.587													73	103	---	---	---	---	PASS	G	66192136	G	G	66192136	3	3	145	1	0	0	0	0	1	0	0	0	10565	739	26	4	1801	4	NPAS4	11	66192136	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	832	66192136	68814380	354	51627										
MRPL11	65003	broad.mit.edu	37	chr11	66206131	66206131	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcactgggcctagtgggggcCcgggcatggccaggcctgcc	18	14	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:66206131C>A	uc001ohz.3	-	1	180	c.95G>T	c.(94-96)GGG>GTG	p.G32V	MRPL11_uc001ohy.3_Missense_Mutation_p.G32V|MRPL11_uc001oia.3_Intron	NM_016050	NP_057134	Q9Y3B7	RM11_HUMAN	mitochondrial ribosomal protein L11 isoform a	32					translation		structural constituent of ribosome				0						TAGTGGGGGCCCGGGCATGGC	0.692													14	18	---	---	---	---	PASS	A	66206131	A	A	66206131	3	1	145	1	0	0	0	0	1	0	0	0	9776	623	22	3	580	3	MRPL11	11	66206131	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	13995	66206131	68800385	355	51628										
CARNS1	57571	broad.mit.edu	37	chr11	67191123	67191123	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctcacccagctgcacctgtTgcaccaccatggcccaccct	6	21	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:67191123T>A	uc009yrp.2	+	9	1987	c.1535T>A	c.(1534-1536)TTG>TAG	p.L512*	PPP1CA_uc001okx.1_5'Flank|CARNS1_uc001olc.3_Nonsense_Mutation_p.L651*	NM_020811	NP_065862	A5YM72	CRNS1_HUMAN	ATP-grasp domain containing 1	512					carnosine biosynthetic process		ATP binding|carnosine synthase activity|metal ion binding				0						CTGCACCTGTTGCACCACCAT	0.662													5	7	---	---	---	---	PASS	A	67191123	A	A	67191123	4	1	145	1	0	0	0	0	0	1	0	0	2656	1821	63	5	1938	5	CARNS1	11	67191123	Nonsense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	984992	67191123	67815393	356	51629										
PRCP	5547	broad.mit.edu	37	chr11	82536067	82536067	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggcattcttggtgcggagatCtaagtggtgggccccctctg	15	10	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:82536067C>G	uc001ozs.2	-	9	1485	c.1372G>C	c.(1372-1374)GAT>CAT	p.D458H	PRCP_uc001ozr.2_Missense_Mutation_p.D479H	NM_005040	NP_005031	P42785	PCP_HUMAN	prolylcarboxypeptidase isoform 1 preproprotein	458					blood coagulation, intrinsic pathway|proteolysis	lysosome|plasma membrane	protein binding|serine-type carboxypeptidase activity			skin(1)	1						GTGCGGAGATCTAAGTGGTGG	0.493													7	45	---	---	---	---	PASS	G	82536067	G	G	82536067	3	3	145	1	0	0	0	0	1	0	0	0	12449	913	32	2	122	2	PRCP	11	82536067	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	15344944	82536067	52470449	357	51630										
FAT3	120114	broad.mit.edu	37	chr11	92543101	92543101	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acgggggtggcaggttctgcCagtccaacatccacctaatc	11	13	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:92543101C>A	uc001pdj.3	+	12	9357	c.9340C>A	c.(9340-9342)CAG>AAG	p.Q3114K		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3114	Cadherin 28.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CAGGTTCTGCCAGTCCAACAT	0.532										TCGA Ovarian(4;0.039)			58	59	---	---	---	---	PASS	A	92543101	A	A	92543101	3	1	145	1	0	0	0	0	1	0	0	0	5691	595	21	3	9386	3	FAT3	11	92543101	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	10007034	92543101	42463415	358	51631										
FAT3	120114	broad.mit.edu	37	chr11	92616285	92616285	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agtggggacggccgcaacgtCtaccaggaggtggggccccc	17	13	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:92616285C>G	uc001pdj.3	+	23	12680	c.12663C>G	c.(12661-12663)GTC>GTG	p.V4221V	FAT3_uc001pdi.3_Silent_p.V661V	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4221	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GCCGCAACGTCTACCAGGAGG	0.657										TCGA Ovarian(4;0.039)			47	76	---	---	---	---	PASS	G	92616285	G	G	92616285	2	3	145	1	0	0	0	0	0	0	0	1	5691	900	32	2		2	FAT3	11	92616285	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	73184	92616285	42390231	359	51632										
MTNR1B	4544	broad.mit.edu	37	chr11	92715461	92715461	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccatcattggtgtgcagcacCaggcagatgctctctagcct	10	13	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:92715461C>G	uc001pdk.1	+	2	1175	c.1072C>G	c.(1072-1074)CAG>GAG	p.Q358E		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	358	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	TGTGCAGCACCAGGCAGATGC	0.597													39	68	---	---	---	---	PASS	G	92715461	G	G	92715461	3	3	145	1	0	0	0	0	1	0	0	0	9952	595	21	4	1078	4	MTNR1B	11	92715461	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	99176	92715461	42291055	360	51633										
FOXR1	283150	broad.mit.edu	37	chr11	118849876	118849876	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctccagcaagcggtctcccCctcggaagcggtttgccttt	10	16	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:118849876C>A	uc001pui.2	+	3	571	c.346C>A	c.(346-348)CCT>ACT	p.P116T	FOXR1_uc001puj.2_RNA|FOXR1_uc001puk.2_Silent_p.P22P	NM_181721	NP_859072	Q6PIV2	FOXR1_HUMAN	forkhead box R1	116					embryo development|organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			skin(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.62e-05)		GCGGTCTCCCCCTCGGAAGCG	0.627													121	33	---	---	---	---	PASS	A	118849876	A	A	118849876	3	1	145	1	0	0	0	0	1	0	0	0	6031	623	22	3	356	3	FOXR1	11	118849876	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	26134415	118849876	16156640	361	51634										
TECTA	7007	broad.mit.edu	37	chr11	121060483	121060483	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcttttgtagggctggactgGtgtgaggacaatggagggtg	18	4	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr11:121060483G>C	uc010rzo.1	+	22	6261	c.6261G>C	c.(6259-6261)TGG>TGC	p.W2087C		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	2087					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GGCTGGACTGGTGTGAGGACA	0.522													45	34	---	---	---	---	PASS	C	121060483	C	C	121060483	3	2	145	1	0	0	0	0	1	0	0	0	15744	1270	44	4	6347	4	TECTA	11	121060483	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2210607	121060483	13946033	362	51635										
GNB3	2784	broad.mit.edu	37	chr12	6952794	6952794	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctgtccttctaaccgcctccAggttatctctcctgctgccg	7	17	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:6952794A>T	uc001qrd.2	+	8	836	c.431_splice	c.e8-2	p.G144_splice	GNB3_uc001qrc.2_Splice_Site_p.G100_splice|GNB3_uc009zfe.2_Splice_Site_p.G144_splice	NM_002075	NP_002066	P16520	GBB3_HUMAN	guanine nucleotide-binding protein, beta-3						cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of blood pressure|synaptic transmission	plasma membrane	GTPase activity|GTPase binding|signal transducer activity				0						AACCGCCTCCAGGTTATCTCT	0.612													56	21	---	---	---	---	PASS	T	6952794	T	T	6952794	5	4	145	1	0	0	0	0	0	0	1	0	6519	202	7	5	451	5	GNB3	12	6952794	Splice_Site	SNP	A	TCGA-66-2756-01A-01D-1522-08		6952794	126899101	363	51636										
NANOG	79923	broad.mit.edu	37	chr12	7942241	7942241	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atccagcttgtccccaaagcTtgccttgctttgaagcatcc	7	14	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:7942241T>A	uc009zfy.1	+	1	247	c.31T>A	c.(31-33)TTG>ATG	p.L11M		NM_024865	NP_079141	Q9H9S0	NANOG_HUMAN	Nanog homeobox	11					cell proliferation|embryo development|somatic stem cell maintenance	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				Kidney(36;0.0872)		TCCCCAAAGCTTGCCTTGCTT	0.428													97	103	---	---	---	---	PASS	A	7942241	A	A	7942241	3	1	145	1	0	0	0	0	1	0	0	0	10150	1606	56	5	33	5	NANOG	12	7942241	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	989447	7942241	125909654	364	51637										
A2ML1	144568	broad.mit.edu	37	chr12	9001331	9001331	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cccaggtctatgggatgtttCcattctggtatggtcactac	10	10	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:9001331C>A	uc001quz.3	+	16	1947	c.1849C>A	c.(1849-1851)CCA>ACA	p.P617T	A2ML1_uc001qva.1_Missense_Mutation_p.P197T|A2ML1_uc010sgm.1_Missense_Mutation_p.P117T	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	461						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TGGGATGTTTCCATTCTGGTA	0.478													55	221	---	---	---	---	PASS	A	9001331	A	A	9001331	3	1	145	1	0	0	0	0	1	0	0	0	5	855	30	2	1911	2	A2ML1	12	9001331	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1059090	9001331	124850564	365	51638										
A2M	2	broad.mit.edu	37	chr12	9227156	9227156	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggttttggcaaatcaccaacCtgggtggaggagaaaccgcc	13	10	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:9227156C>A	uc001qvk.1	-	29	3869	c.3756G>T	c.(3754-3756)CAG>CAT	p.Q1252H	A2M_uc001qvj.1_Missense_Mutation_p.Q294H|A2M_uc009zgk.1_Missense_Mutation_p.Q1102H	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1252					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	AATCACCAACCTGGGTGGAGG	0.468													12	11	---	---	---	---	PASS	A	9227156	A	A	9227156	3	1	145	1	0	0	0	0	1	0	0	0	4	695	24	3	700	3	A2M	12	9227156	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	225825	9227156	124624739	366	51639										
GRIN2B	2904	broad.mit.edu	37	chr12	13716971	13716971	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcgatgttcccataggtgacGgtgtgggttgagatgtcaga	15	6	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:13716971G>A	uc001rbt.2	-	13	3380	c.3201C>T	c.(3199-3201)ACC>ACT	p.T1067T		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1067	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CATAGGTGACGGTGTGGGTTG	0.577													41	24	---	---	---	---	PASS	A	13716971	A	A	13716971	2	1	145	1	0	0	0	0	0	0	0	1	6780	1103	39	1		1	GRIN2B	12	13716971	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	4489815	13716971	120134924	367	51640										
PTPRO	5800	broad.mit.edu	37	chr12	15722408	15722408	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gatatggccaaagactctgaCtataaattttctcttcagtt	6	8	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:15722408C>A	uc001rcv.1	+	19	2979	c.2805C>A	c.(2803-2805)GAC>GAA	p.D935E	PTPRO_uc001rcw.1_Missense_Mutation_p.D907E|PTPRO_uc001rcx.1_Missense_Mutation_p.D124E|PTPRO_uc001rcy.1_Missense_Mutation_p.D124E|PTPRO_uc001rcz.1_Missense_Mutation_p.D96E|PTPRO_uc001rda.1_Missense_Mutation_p.D96E	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	935	Cytoplasmic (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)				AAGACTCTGACTATAAATTTT	0.393													31	144	---	---	---	---	PASS	A	15722408	A	A	15722408	3	1	145	1	0	0	0	0	1	0	0	0	12809	564	20	3	2879	3	PTPRO	12	15722408	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2005437	15722408	118129487	368	51641										
SLCO1B3	28234	broad.mit.edu	37	chr12	21069122	21069122	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtgaacattttgtaccttctGctggaacagatagtaaaaca	8	7	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:21069122G>A	uc001rek.2	+	15	2176	c.2050G>A	c.(2050-2052)GCT>ACT	p.A684T	SLCO1B3_uc001rel.2_Missense_Mutation_p.A684T|SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Intron	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	684	Cytoplasmic (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TGTACCTTCTGCTGGAACAGA	0.343													17	79	---	---	---	---	PASS	A	21069122	A	A	21069122	3	1	145	1	0	0	0	0	1	0	0	0	14724	1319	46	3	2104	3	SLCO1B3	12	21069122	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	5346714	21069122	112782773	369	51642										
ARID2	196528	broad.mit.edu	37	chr12	46245498	46245498	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atgcaactcagctcattgctCcagcaggaattaccatgagc	8	12	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:46245498C>G	uc001ros.1	+	15	3592	c.3592C>G	c.(3592-3594)CCA>GCA	p.P1198A	ARID2_uc001ror.2_Missense_Mutation_p.P1198A|ARID2_uc009zkg.1_Missense_Mutation_p.P654A|ARID2_uc009zkh.1_Missense_Mutation_p.P825A|ARID2_uc001rou.1_Missense_Mutation_p.P532A	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1198					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		GCTCATTGCTCCAGCAGGAAT	0.498													55	45	---	---	---	---	PASS	G	46245498	G	G	46245498	3	3	145	1	0	0	0	0	1	0	0	0	915	855	30	2	3650	2	ARID2	12	46245498	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	25176376	46245498	87606397	370	51643										
COL2A1	1280	broad.mit.edu	37	chr12	48387259	48387259	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	accattgggcccggagatccGttctcacccggggaaccact	11	15	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:48387259G>A	uc001rqu.2	-	15	1132	c.951C>T	c.(949-951)AAC>AAT	p.N317N	COL2A1_uc001rqv.2_Silent_p.N248N	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	317	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CCGGAGATCCGTTCTCACCCG	0.532													16	74	---	---	---	---	PASS	A	48387259	A	A	48387259	2	1	145	1	0	0	0	0	0	0	0	1	3687	1136	40	1		1	COL2A1	12	48387259	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	2141761	48387259	85464636	371	51644										
FMNL3	91010	broad.mit.edu	37	chr12	50050949	50050949	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aggcgggagttcttcagggcCctgcgcccagggagagtgct	17	11	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:50050949C>A	uc001ruv.1	-	7	864	c.630G>T	c.(628-630)AGG>AGT	p.R210S	FMNL3_uc001ruw.1_Missense_Mutation_p.R159S|FMNL3_uc001ruu.1_Missense_Mutation_p.R60S	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1	210	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						TCTTCAGGGCCCTGCGCCCAG	0.582													9	154	---	---	---	---	PASS	A	50050949	A	A	50050949	3	1	145	1	0	0	0	0	1	0	0	0	5953	622	22	3	2533	3	FMNL3	12	50050949	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1663690	50050949	83800946	372	51645										
AQP5	362	broad.mit.edu	37	chr12	50357895	50357895	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atctacttcactggctgctcCatgaacccagcccgctcttt	6	16	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:50357895C>A	uc001rvo.2	+	3	1071	c.549C>A	c.(547-549)TCC>TCA	p.S183S		NM_001651	NP_001642	P55064	AQP5_HUMAN	aquaporin 5	183	Extracellular (Potential).				carbon dioxide transport|excretion|odontogenesis|pancreatic juice secretion	apical plasma membrane|integral to plasma membrane	protein binding|water channel activity				0						CTGGCTGCTCCATGAACCCAG	0.532													41	27	---	---	---	---	PASS	A	50357895	A	A	50357895	2	1	145	1	0	0	0	0	0	0	0	1	829	581	21	3		3	AQP5	12	50357895	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	306946	50357895	83494000	373	51646										
OR6C74	254783	broad.mit.edu	37	chr12	55641480	55641480	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acaccaccatcatgagcagcAgagtttgcagcttgctggtc	10	12	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:55641480A>T	uc010spg.1	+	1	409	c.409A>T	c.(409-411)AGA>TGA	p.R137*		NM_001005490	NP_001005490	A6NCV1	O6C74_HUMAN	olfactory receptor, family 6, subfamily C,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						CATGAGCAGCAGAGTTTGCAG	0.498													49	167	---	---	---	---	PASS	T	55641480	T	T	55641480	4	4	145	1	0	0	0	0	0	1	0	0	11198	180	7	5	411	5	OR6C74	12	55641480	Nonsense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	5283585	55641480	78210415	374	51647										
MMP19	4327	broad.mit.edu	37	chr12	56231417	56231417	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tctaccctattcagcttcttGgggaagccaggagacatctt	9	11	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:56231417G>C	uc001sib.2	-	8	1231	c.1110C>G	c.(1108-1110)CCC>CCG	p.P370P	MMP19_uc001sia.2_Silent_p.P84P|MMP19_uc001sid.2_RNA|MMP19_uc010spw.1_Intron	NM_002429	NP_002420	Q99542	MMP19_HUMAN	matrix metalloproteinase 19 isoform rasi-1	370	Hemopexin-like 2.				angiogenesis|cell differentiation|collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)	1						TCAGCTTCTTGGGGAAGCCAG	0.468													24	143	---	---	---	---	PASS	C	56231417	C	C	56231417	2	2	145	1	0	0	0	0	0	0	0	1	9657	1335	47	4		4	MMP19	12	56231417	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	589937	56231417	77620478	375	51648										
IL23A	51561	broad.mit.edu	37	chr12	56733876	56733876	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttgcccatggagcagcaacCctgagtccctaaaggcagca	10	13	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:56733876C>T	uc001sla.2	+	4	724	c.558C>T	c.(556-558)ACC>ACT	p.T186T		NM_016584	NP_057668	Q9NPF7	IL23A_HUMAN	interleukin 23, alpha subunit p19 precursor	186					defense response to Gram-negative bacterium|inflammatory response|innate immune response|negative regulation of interleukin-10 production|positive regulation of activated T cell proliferation|positive regulation of activation of JAK2 kinase activity|positive regulation of defense response to virus by host|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-17 production|positive regulation of memory T cell differentiation|positive regulation of natural killer cell proliferation|positive regulation of NF-kappaB import into nucleus|positive regulation of NK T cell activation|positive regulation of NK T cell proliferation|positive regulation of osteoclast differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat4 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|regulation of tyrosine phosphorylation of Stat1 protein|response to virus|tissue remodeling	interleukin-23 complex	cytokine activity				0						GAGCAGCAACCCTGAGTCCCT	0.592													20	115	---	---	---	---	PASS	T	56733876	T	T	56733876	2	4	145	1	0	0	0	0	0	0	0	1	7675	610	22	3		3	IL23A	12	56733876	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	502459	56733876	77118019	376	51649										
USP15	9958	broad.mit.edu	37	chr12	62749201	62749201	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aagaaacaatgaacagccagGcctctgtggcctaagtaact	9	10	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:62749201G>T	uc001src.1	+	8	869	c.860G>T	c.(859-861)GGC>GTC	p.G287V	USP15_uc001srb.1_Missense_Mutation_p.G258V	NM_006313	NP_006304	Q9Y4E8	UBP15_HUMAN	ubiquitin specific peptidase 15	287					protein deubiquitination|ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)	3			GBM - Glioblastoma multiforme(1;0.000276)	GBM - Glioblastoma multiforme(28;0.0622)		GAACAGCCAGGCCTCTGTGGC	0.373													26	34	---	---	---	---	PASS	T	62749201	T	T	62749201	3	4	145	1	0	0	0	0	1	0	0	0	17043	1203	42	3	799	3	USP15	12	62749201	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	6015325	62749201	71102694	377	51650										
CLLU1OS	574016	broad.mit.edu	37	chr12	92821879	92821879	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctgttacttaccagtggcaGtcttaaggcattccttaagt	8	10	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:92821879G>T	uc001tcb.1	-	1	46	c.44C>A	c.(43-45)ACT>AAT	p.T15N	CLLU1_uc001tcc.2_Intron|CLLU1_uc001tcd.2_Intron|CLLU1_uc001tce.1_Intron|CLLU1_uc001tcf.2_Intron	NM_001025232	NP_001020403	Q5K130	CLU1O_HUMAN	chronic lymphocytic leukemia up-regulated 1	15											0						accagtggcagtcttaaggca	0.065													114	61	---	---	---	---	PASS	T	92821879	T	T	92821879	3	4	145	1	0	0	0	0	1	0	0	0	3541	1029	36	3	273	3	CLLU1OS	12	92821879	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	30072678	92821879	41030016	378	51651										
ANKS1B	56899	broad.mit.edu	37	chr12	99793515	99793515	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtgcaccctgtagatgtgttGatttcaaaatattcttggtt	9	6	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:99793515G>T	uc001tge.1	-	12	2067	c.1650C>A	c.(1648-1650)ATC>ATA	p.I550I	ANKS1B_uc001tgf.1_Silent_p.I130I|ANKS1B_uc009ztt.1_Silent_p.I516I	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	550						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		TAGATGTGTTGATTTCAAAAT	0.438													44	176	---	---	---	---	PASS	T	99793515	T	T	99793515	2	4	145	1	0	0	0	0	0	0	0	1	689	1280	45	2		2	ANKS1B	12	99793515	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	6971636	99793515	34058380	379	51652										
TCTN1	79600	broad.mit.edu	37	chr12	111057646	111057646	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctcttttttctgcagttgctGttctctgtgtctgtgactta	8	9	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr12:111057646G>C	uc009zvs.2	+	2	334	c.226G>C	c.(226-228)GTT>CTT	p.V76L	TCTN1_uc010syb.1_Missense_Mutation_p.V76L|TCTN1_uc009zvr.1_RNA|TCTN1_uc001trl.2_RNA|TCTN1_uc001trm.2_Missense_Mutation_p.V16L|TCTN1_uc010syc.1_RNA|TCTN1_uc001tro.2_RNA|TCTN1_uc001trp.3_Missense_Mutation_p.V76L|TCTN1_uc001trn.3_Missense_Mutation_p.V76L|TCTN1_uc001tri.2_Missense_Mutation_p.V20L|TCTN1_uc001trj.1_Missense_Mutation_p.V20L|TCTN1_uc001trk.3_RNA	NM_001082537	NP_001076006	Q2MV58	TECT1_HUMAN	tectonic family member 1 isoform 2	76					multicellular organismal development	extracellular region					0						TGCAGTTGCTGTTCTCTGTGT	0.502													139	57	---	---	---	---	PASS	C	111057646	C	C	111057646	3	2	145	1	0	0	0	0	1	0	0	0	15719	1377	48	4	332	4	TCTN1	12	111057646	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	11264131	111057646	22794249	380	51653										
EDNRB	1910	broad.mit.edu	37	chr13	78474025	78474025	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttttgaatcttttgctcaccAaatacagagcaattgggtta	7	7	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr13:78474025A>T	uc001vko.2	-	6	1421	c.1163T>A	c.(1162-1164)TTG>TAG	p.L388*	EDNRB_uc001vkq.1_Nonsense_Mutation_p.L388*|uc001vkn.1_Intron|EDNRB_uc010aez.1_Nonsense_Mutation_p.L388*|EDNRB_uc001vkp.1_Nonsense_Mutation_p.L471*	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	388	Helical; Name=7; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	TTTGCTCACCAAATACAGAGC	0.343													41	22	---	---	---	---	PASS	T	78474025	T	T	78474025	4	4	145	1	0	0	0	0	0	1	0	0	4920	131	5	5	294	5	EDNRB	13	78474025	Nonsense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08		78474025	36695853	381	51654										
UBAC2	337867	broad.mit.edu	37	chr13	100020152	100020152	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cgccccctctagaagtttctGaggaacaggtaattaatcag	9	10	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr13:100020152G>A	uc001voa.3	+	8	1403	c.919G>A	c.(919-921)GAG>AAG	p.E307K	UBAC2_uc010tiu.1_Missense_Mutation_p.E329K|UBAC2_uc001vob.3_Missense_Mutation_p.E280K|UBAC2_uc010tiv.1_RNA|UBAC2_uc001vod.2_Missense_Mutation_p.E194K|UBAC2_uc001voc.2_Missense_Mutation_p.E272K|UBAC2_uc010tiw.1_RNA|UBAC2_uc001voh.2_Missense_Mutation_p.E111K	NM_001144072	NP_001137544	Q8NBM4	UBAC2_HUMAN	UBA domain containing 2 isoform 1	307	UBA.|Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					AGAAGTTTCTGAGGAACAGGT	0.443													37	16	---	---	---	---	PASS	A	100020152	A	A	100020152	3	1	145	1	0	0	0	0	1	0	0	0	16832	1291	45	2	1109	2	UBAC2	13	100020152	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	21546127	100020152	15149726	382	51655										
POTEG	404785	broad.mit.edu	37	chr14	19563501	19563501	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cttctcaagatctatctggaCagacggccagagagtatgct	10	10	3	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:19563501C>A	uc001vuz.1	+	5	1067	c.1015C>A	c.(1015-1017)CAG>AAG	p.Q339K	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA|uc001vvb.2_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	339										ovary(1)	1						TCTATCTGGACAGACGGCCAG	0.358													156	511	---	---	---	---	PASS	A	19563501	A	A	19563501	3	1	145	1	0	0	0	0	1	0	0	0	12266	479	17	3	1033	3	POTEG	14	19563501	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08		19563501	87786039	383	51656										
MYH7	4625	broad.mit.edu	37	chr14	23886518	23886518	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctcatacttctgcttccactCggccaggatctgcccgggga	10	15	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:23886518C>A	uc001wjx.2	-	32	4469	c.4363G>T	c.(4363-4365)GAG>TAG	p.E1455*		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1455	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TGCTTCCACTCGGCCAGGATC	0.622													47	33	---	---	---	---	PASS	A	23886518	A	A	23886518	4	1	145	1	0	0	0	0	0	1	0	0	10039	893	31	2	1480	2	MYH7	14	23886518	Nonsense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	4323017	23886518	83463022	384	51657										
ADCY4	196883	broad.mit.edu	37	chr14	24787706	24787706	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agctgccctttgcctttcacCttgatgacaccccggctgta	8	15	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:24787706C>A	uc001wov.2	-	25	3156	c.3150G>T	c.(3148-3150)AAG>AAT	p.K1050N	ADCY4_uc001wow.2_Missense_Mutation_p.K1050N|ADCY4_uc010toh.1_Missense_Mutation_p.K736N|ADCY4_uc001wox.2_Missense_Mutation_p.K1050N|ADCY4_uc001woy.2_Missense_Mutation_p.K1050N	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	1050	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		TGCCTTTCACCTTGATGACAC	0.567													63	49	---	---	---	---	PASS	A	24787706	A	A	24787706	3	1	145	1	0	0	0	0	1	0	0	0	296	680	24	3	87	3	ADCY4	14	24787706	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	901188	24787706	82561834	385	51658										
NFATC4	4776	broad.mit.edu	37	chr14	24842951	24842951	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gaattcagacattgagcttcGgaagggtgagacggacatcg	14	7	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:24842951G>A	uc001wpc.2	+	5	1931	c.1610G>A	c.(1609-1611)CGG>CAG	p.R537Q	NFATC4_uc010tok.1_Missense_Mutation_p.R600Q|NFATC4_uc010tol.1_Missense_Mutation_p.R600Q|NFATC4_uc010alr.2_Missense_Mutation_p.R600Q|NFATC4_uc010als.2_Missense_Mutation_p.R550Q|NFATC4_uc010tom.1_Missense_Mutation_p.R550Q|NFATC4_uc010ton.1_Missense_Mutation_p.R550Q|NFATC4_uc010too.1_Missense_Mutation_p.R550Q|NFATC4_uc010alt.2_Missense_Mutation_p.R569Q|NFATC4_uc010top.1_Missense_Mutation_p.R569Q|NFATC4_uc010toq.1_Missense_Mutation_p.R569Q|NFATC4_uc010alu.2_Missense_Mutation_p.R229Q|NFATC4_uc010tor.1_Missense_Mutation_p.R537Q|NFATC4_uc010tos.1_Missense_Mutation_p.R467Q|NFATC4_uc010tot.1_Missense_Mutation_p.R525Q|NFATC4_uc010tou.1_Missense_Mutation_p.R467Q|NFATC4_uc010tov.1_Missense_Mutation_p.R525Q|NFATC4_uc010tow.1_Missense_Mutation_p.R467Q|NFATC4_uc010alv.2_Missense_Mutation_p.R525Q|NFATC4_uc010tox.1_Missense_Mutation_p.R467Q|NFATC4_uc001wpd.2_Missense_Mutation_p.R72Q|NFATC4_uc010toy.1_Missense_Mutation_p.R72Q|NFATC4_uc010toz.1_Missense_Mutation_p.R72Q|NFATC4_uc010tpa.1_5'UTR|NFATC4_uc010tpb.1_5'UTR	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	537	RHD.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		ATTGAGCTTCGGAAGGGTGAG	0.577													26	190	---	---	---	---	PASS	A	24842951	A	A	24842951	3	1	145	1	0	0	0	0	1	0	0	0	10365	1116	39	1	1821	1	NFATC4	14	24842951	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	55245	24842951	82506589	386	51659										
MBIP	51562	broad.mit.edu	37	chr14	36786011	36786011	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttttcaccacatcatctctgAggtcaagcttcaaaggggca	8	11	5	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:36786011A>C	uc001wtm.2	-	2	225	c.137T>G	c.(136-138)CTC>CGC	p.L46R	MBIP_uc001wto.2_Missense_Mutation_p.L46R|MBIP_uc010tpy.1_5'UTR|MBIP_uc001wtn.2_Missense_Mutation_p.L46R	NM_016586	NP_057670	Q9NS73	MBIP1_HUMAN	MAP3K12 binding inhibitory protein 1 isoform 1	46					histone H3 acetylation|inactivation of MAPK activity involved in osmosensory signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm|nucleolus	identical protein binding|protein kinase inhibitor activity				0	all_cancers(3;1.55e-52)|all_epithelial(1;2.69e-62)|Breast(36;0.0505)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)		Lung(8;1.28e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.0303)|all cancers(34;0.0781)	GBM - Glioblastoma multiforme(112;0.0191)		ATCATCTCTGAGGTCAAGCTT	0.413													18	91	---	---	---	---	PASS	C	36786011	C	C	36786011	3	2	145	1	0	0	0	0	1	0	0	0	9349	304	11	5	929	5	MBIP	14	36786011	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	11943060	36786011	70563529	387	51660										
WDHD1	11169	broad.mit.edu	37	chr14	55493433	55493433	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tctcaaagaaccttacctccCagaatcatcaaaacagacct	3	14	3	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:55493433C>A	uc001xbm.1	-	2	151	c.73G>T	c.(73-75)GGG>TGG	p.G25W	WDHD1_uc001xbn.1_Intron|SOCS4_uc001xbo.2_5'Flank|SOCS4_uc001xbp.2_5'Flank	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	25	WD 1.					cytoplasm|nucleoplasm	DNA binding			skin(1)	1						CCTTACCTCCCAGAATCATCA	0.398													91	73	---	---	---	---	PASS	A	55493433	A	A	55493433	3	1	145	1	0	0	0	0	1	0	0	0	17268	594	21	3	3416	3	WDHD1	14	55493433	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	18707422	55493433	51856107	388	51661										
C14orf39	317761	broad.mit.edu	37	chr14	60928127	60928127	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gattgtttctgtggggttaaCaatctaaaatggaataaata	9	3	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:60928127C>A	uc001xez.3	-	13	1172	c.1062G>T	c.(1060-1062)TTG>TTT	p.L354F	C14orf39_uc010apo.2_Missense_Mutation_p.L65F	NM_174978	NP_777638	Q08AQ4	Q08AQ4_HUMAN	hypothetical protein LOC317761	354										ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)		GTGGGGTTAACAATCTAAAAT	0.279													12	47	---	---	---	---	PASS	A	60928127	A	A	60928127	3	1	145	1	0	0	0	0	1	0	0	0	1772	477	17	3	725	3	C14orf39	14	60928127	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	5434694	60928127	46421413	389	51662										
RHOJ	57381	broad.mit.edu	37	chr14	63671679	63671679	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgtggtggtgggggacggtgCcgtggggaaaacctgcctgc	20	8	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:63671679C>A	uc001xgb.1	+	1	535	c.92C>A	c.(91-93)GCC>GAC	p.A31D		NM_020663	NP_065714	Q9H4E5	RHOJ_HUMAN	ras homolog gene family, member J precursor	31	GTP (By similarity).				actin cytoskeleton organization|regulation of cell shape|regulation of small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.00326)|all cancers(60;0.031)|BRCA - Breast invasive adenocarcinoma(234;0.119)		GGGGACGGTGCCGTGGGGAAA	0.562													8	39	---	---	---	---	PASS	A	63671679	A	A	63671679	3	1	145	1	0	0	0	0	1	0	0	0	13341	739	26	3	94	3	RHOJ	14	63671679	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2743552	63671679	43677861	390	51663										
SYNE2	23224	broad.mit.edu	37	chr14	64610582	64610582	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acctgtgatgtagaaagcaaGcgctatgaaagaacggagtt	12	6	0	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:64610582G>A	uc001xgm.2	+	83	15629	c.15399G>A	c.(15397-15399)AAG>AAA	p.K5133K	SYNE2_uc001xgl.2_Silent_p.K5133K|SYNE2_uc010apy.2_Silent_p.K1518K|SYNE2_uc001xgn.2_Silent_p.K95K|SYNE2_uc001xgo.2_RNA	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5133	Spectrin 2.|Cytoplasmic (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)		TAGAAAGCAAGCGCTATGAAA	0.448													206	164	---	---	---	---	PASS	A	64610582	A	A	64610582	2	1	145	1	0	0	0	0	0	0	0	1	15443	962	34	3		3	SYNE2	14	64610582	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	938903	64610582	42738958	391	51664										
DCAF5	8816	broad.mit.edu	37	chr14	69584943	69584943	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gttgtcattcactgggctcaCagacaagccatatactgcat	8	11	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:69584943C>A	uc001xkp.2	-	4	667	c.448G>T	c.(448-450)GTG>TTG	p.V150L	DCAF5_uc001xkq.2_Missense_Mutation_p.V149L|DCAF5_uc001xkr.3_Missense_Mutation_p.V150L|DCAF5_uc001xks.2_3'UTR	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	150	WD 3.					CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						ACTGGGCTCACAGACAAGCCA	0.493													31	36	---	---	---	---	PASS	A	69584943	A	A	69584943	3	1	145	1	0	0	0	0	1	0	0	0	4273	478	17	3	2404	3	DCAF5	14	69584943	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	4974361	69584943	37764597	392	51665										
SLC8A3	6547	broad.mit.edu	37	chr14	70634927	70634927	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atgaccctggcaatcttgtcCccaagggaagggttctccgg	12	12	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:70634927C>A	uc001xly.2	-	2	967	c.213G>T	c.(211-213)GGG>GGT	p.G71G	SLC8A3_uc001xlw.2_Silent_p.G71G|SLC8A3_uc001xlx.2_Silent_p.G71G|SLC8A3_uc001xlz.2_Silent_p.G71G|SLC8A3_uc010ara.2_RNA	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	71	Extracellular (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		CAATCTTGTCCCCAAGGGAAG	0.517													12	54	---	---	---	---	PASS	A	70634927	A	A	70634927	2	1	145	1	0	0	0	0	0	0	0	1	14708	610	22	3		3	SLC8A3	14	70634927	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	1049984	70634927	36714613	393	51666										
RBM25	58517	broad.mit.edu	37	chr14	73550249	73550249	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agagtacaaggtgcttccggAaagcttcaaggtatgtcatt	11	7	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:73550249A>T	uc001xno.2	+	5	580	c.372A>T	c.(370-372)GGA>GGT	p.G124G	RBM25_uc001xnn.3_Silent_p.G124G|RBM25_uc010ttu.1_Silent_p.G124G|RBM25_uc001xnp.2_Intron	NM_021239	NP_067062	P49756	RBM25_HUMAN	RNA binding motif protein 25	124	RRM.				apoptosis|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|RNA splicing	cytoplasm|nuclear speck	mRNA binding|nucleotide binding|protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)		GTGCTTCCGGAAAGCTTCAAG	0.323													13	54	---	---	---	---	PASS	T	73550249	T	T	73550249	2	4	145	1	0	0	0	0	0	0	0	1	13125	233	9	5		5	RBM25	14	73550249	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	2915322	73550249	33799291	394	51667										
LTBP2	4053	broad.mit.edu	37	chr14	74969447	74969447	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tccgctgagtgaccggctgtGttggggaaggcaggctcagg	18	9	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:74969447G>T	uc001xqa.2	-	34	5466	c.5079C>A	c.(5077-5079)AAC>AAA	p.N1693K		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1693					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GACCGGCTGTGTTGGGGAAGG	0.627													102	53	---	---	---	---	PASS	T	74969447	T	T	74969447	3	4	145	1	0	0	0	0	1	0	0	0	9074	1368	48	3	398	3	LTBP2	14	74969447	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1419198	74969447	32380093	395	51668										
SPTLC2	9517	broad.mit.edu	37	chr14	78063612	78063612	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcgaagatatccaaagagggTgagtacgccataccccacat	9	11	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:78063612T>C	uc001xub.2	-	2	432	c.244A>G	c.(244-246)ACC>GCC	p.T82A		NM_004863	NP_004854	O15270	SPTC2_HUMAN	serine palmitoyltransferase, long chain base	82	Helical; (Potential).					integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups			upper_aerodigestive_tract(1)|ovary(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0346)	L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	CCAAAGAGGGTGAGTACGCCA	0.398													67	56	---	---	---	---	PASS	C	78063612	C	C	78063612	3	2	145	1	0	0	0	0	1	0	0	0	15123	1696	59	5	1488	5	SPTLC2	14	78063612	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	3094165	78063612	29285928	396	51669										
GALC	2581	broad.mit.edu	37	chr14	88454509	88454509	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgttgtctgcccatcaccacCtatttccacttttaaaatat	3	12	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:88454509C>A	uc001xvt.2	-	3	706	c.307G>T	c.(307-309)GGT>TGT	p.G103C	GALC_uc010tvx.1_Missense_Mutation_p.G77C|GALC_uc010tvy.1_Missense_Mutation_p.G80C|GALC_uc010tvz.1_Missense_Mutation_p.G47C|GALC_uc001xvu.1_Missense_Mutation_p.G103C	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	103					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0						CCATCACCACCTATTTCCACT	0.368													15	90	---	---	---	---	PASS	A	88454509	A	A	88454509	3	1	145	1	0	0	0	0	1	0	0	0	6201	681	24	3	1873	3	GALC	14	88454509	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	10390897	88454509	18895031	397	51670										
RIN3	79890	broad.mit.edu	37	chr14	93043795	93043795	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaagctcggccgaggtgctcGaatacaccattaaggaagaa	11	9	0	1	rs139542247		TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:93043795G>T	uc001yap.2	+	3	492	c.340G>T	c.(340-342)GAA>TAA	p.E114*	RIN3_uc010auk.2_5'UTR|RIN3_uc001yaq.2_Nonsense_Mutation_p.E39*	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	114	SH2.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				CGAGGTGCTCGAATACACCAT	0.522													39	151	---	---	---	---	PASS	T	93043795	T	T	93043795	4	4	145	1	0	0	0	0	0	1	0	0	13373	1059	37	2	350	2	RIN3	14	93043795	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4589286	93043795	14305745	398	51671										
MOAP1	64112	broad.mit.edu	37	chr14	93650150	93650150	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agagcctctaatgcctgtgcCaacataggggcccacatttc	9	13	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:93650150C>T	uc001ybj.2	-	3	808	c.438G>A	c.(436-438)TTG>TTA	p.L146L	C14orf109_uc001ybk.3_5'Flank|C14orf109_uc010auo.2_5'Flank	NM_022151	NP_071434	Q96BY2	MOAP1_HUMAN	modulator of apoptosis 1	146					activation of caspase activity|apoptotic nuclear change	cytoplasm	protein homodimerization activity			skin(2)|ovary(1)	3		all_cancers(154;0.00528)|Acute lymphoblastic leukemia(33;0.0497)|all_epithelial(191;0.125)|all_neural(303;0.13)		Epithelial(152;0.178)|all cancers(159;0.2)|COAD - Colon adenocarcinoma(157;0.204)		atgcctgtgccaacatagggg	0													16	229	---	---	---	---	PASS	T	93650150	T	T	93650150	2	4	145	1	0	0	0	0	0	0	0	1	9680	593	21	3		3	MOAP1	14	93650150	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	606355	93650150	13699390	399	51672										
KIAA1409	57578	broad.mit.edu	37	chr14	94129013	94129013	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agaatgccgtcttcactctgGcctacctggtggagctgtgt	12	11	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr14:94129013G>A	uc001ybv.1	+	39	6324	c.6241G>A	c.(6241-6243)GCC>ACC	p.A2081T	KIAA1409_uc001ybs.1_Missense_Mutation_p.A2059T	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2236	Helical; (Potential).					integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CTTCACTCTGGCCTACCTGGT	0.433													12	54	---	---	---	---	PASS	A	94129013	A	A	94129013	3	1	145	1	0	0	0	0	1	0	0	0	8230	1203	42	3	6325	3	KIAA1409	14	94129013	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	478863	94129013	13220527	400	51673										
GABRB3	2562	broad.mit.edu	37	chr15	26792999	26792999	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agaaaaagtgaatggaaacaCgatcctggaccatctgtcta	9	8	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr15:26792999C>G	uc001zaz.2	-	9	1505	c.1363G>C	c.(1363-1365)GTG>CTG	p.V455L	GABRB3_uc010uae.1_Missense_Mutation_p.V370L|GABRB3_uc001zba.2_Missense_Mutation_p.V455L|GABRB3_uc001zbb.2_Missense_Mutation_p.V511L	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	455	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)	AATGGAAACACGATCCTGGAC	0.398													44	79	---	---	---	---	PASS	G	26792999	G	G	26792999	3	3	145	1	0	0	0	0	1	0	0	0	6168	536	19	4	62	4	GABRB3	15	26792999	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08		26792999	75738393	401	51674										
CHRM5	1133	broad.mit.edu	37	chr15	34355547	34355547	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	catccctgtttctgtcatgaCcatcctctactgtcgaatct	5	14	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr15:34355547C>T	uc001zhk.1	+	3	1299	c.629C>T	c.(628-630)ACC>ATC	p.T210I	CHRM5_uc001zhl.1_Missense_Mutation_p.T210I	NM_012125	NP_036257	P08912	ACM5_HUMAN	cholinergic receptor, muscarinic 5	210	Helical; Name=5; (By similarity).				cell proliferation|inhibition of adenylate cyclase activity by muscarinic acetylcholine receptor signaling pathway	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;1.76e-08)		all cancers(64;4.82e-17)|GBM - Glioblastoma multiforme(113;2.58e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0262)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)	TCTGTCATGACCATCCTCTAC	0.512													178	100	---	---	---	---	PASS	T	34355547	T	T	34355547	3	4	145	1	0	0	0	0	1	0	0	0	3380	507	18	3	631	3	CHRM5	15	34355547	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	7562548	34355547	68175845	402	51675										
SLC12A1	6557	broad.mit.edu	37	chr15	48548064	48548064	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acgtgagtgctttagacaatGctctggaattaaccacagtg	10	8	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr15:48548064G>A	uc001zwn.3	+	16	2215	c.1999G>A	c.(1999-2001)GCT>ACT	p.A667T	SLC12A1_uc010uew.1_Missense_Mutation_p.A473T|SLC12A1_uc010bem.2_Missense_Mutation_p.A667T|SLC12A1_uc001zwq.3_Missense_Mutation_p.A438T|SLC12A1_uc001zwr.3_Missense_Mutation_p.A394T	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	667					potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	TTTAGACAATGCTCTGGAATT	0.463													7	6	---	---	---	---	PASS	A	48548064	A	A	48548064	3	1	145	1	0	0	0	0	1	0	0	0	14382	1319	46	3	2157	3	SLC12A1	15	48548064	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	14192517	48548064	53983328	403	51676										
FBN1	2200	broad.mit.edu	37	chr15	48826374	48826374	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	caatttcctccctgacagagCccggggatggcctggcattc	11	14	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr15:48826374C>A	uc001zwx.1	-	8	1093	c.765G>T	c.(763-765)GGG>GGT	p.G255G		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	255	EGF-like 4; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CCTGACAGAGCCCGGGGATGG	0.393													162	104	---	---	---	---	PASS	A	48826374	A	A	48826374	2	1	145	1	0	0	0	0	0	0	0	1	5702	726	26	3		3	FBN1	15	48826374	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	278310	48826374	53705018	404	51677										
CILP	8483	broad.mit.edu	37	chr15	65491427	65491427	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggaactgggttgcaaggagtCtcatcagatgctgtgtaggg	16	6	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr15:65491427C>A	uc002aon.2	-	9	1378	c.1197G>T	c.(1195-1197)GAG>GAT	p.E399D		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	399					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						TGCAAGGAGTCTCATCAGATG	0.408													35	21	---	---	---	---	PASS	A	65491427	A	A	65491427	3	1	145	1	0	0	0	0	1	0	0	0	3429	912	32	2	2361	2	CILP	15	65491427	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	16665053	65491427	37039965	405	51678										
UACA	55075	broad.mit.edu	37	chr15	70959875	70959875	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttcatgagacttctcaatgaGaactgtcttatctctcaaat	5	9	5	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr15:70959875G>C	uc002asr.2	-	16	3252	c.3148C>G	c.(3148-3150)CTC>GTC	p.L1050V	UACA_uc010uke.1_Missense_Mutation_p.L941V|UACA_uc002asq.2_Missense_Mutation_p.L1037V|UACA_uc010bin.1_Missense_Mutation_p.L1025V	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	1050	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						TTCTCAATGAGAACTGTCTTA	0.348													68	32	---	---	---	---	PASS	C	70959875	C	C	70959875	3	2	145	1	0	0	0	0	1	0	0	0	16821	942	33	2	1118	2	UACA	15	70959875	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	5468448	70959875	31571517	406	51679										
TMEM202	338949	broad.mit.edu	37	chr15	72690670	72690670	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agagaactaactgccaagatGgagcgaagggaacatttaac	11	7	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr15:72690670G>A	uc002auq.2	+	1	3	c.3G>A	c.(1-3)ATG>ATA	p.M1I	TMEM202_uc002aur.2_RNA	NM_001080462	NP_001073931	A6NGA9	TM202_HUMAN	transmembrane protein 202	1						integral to membrane				central_nervous_system(1)|skin(1)	2						CTGCCAAGATGGAGCGAAGGG	0.473													6	8	---	---	---	---	PASS	A	72690670	A	A	72690670	3	1	145	1	0	0	0	0	1	0	0	0	16124	1348	47	3	5	3	TMEM202	15	72690670	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1730795	72690670	29840722	407	51680										
ISLR2	57611	broad.mit.edu	37	chr15	74426101	74426101	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	caccgcgcttcctggccctcGcaaatggctccctgttggtg	11	16	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr15:74426101G>C	uc002axd.2	+	4	1775	c.1006G>C	c.(1006-1008)GCA>CCA	p.A336P	ISLR2_uc002axe.2_Missense_Mutation_p.A336P|ISLR2_uc010bjg.2_Missense_Mutation_p.A336P|ISLR2_uc010bjf.2_Missense_Mutation_p.A336P	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	336	Ig-like.|Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CCTGGCCCTCGCAAATGGCTC	0.602													6	4	---	---	---	---	PASS	C	74426101	C	C	74426101	3	2	145	1	0	0	0	0	1	0	0	0	7859	1087	38	4	1008	4	ISLR2	15	74426101	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1735431	74426101	28105291	408	51681										
BCL2A1	597	broad.mit.edu	37	chr15	80263171	80263171	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agaagtttcttgatgagaatAccttcaaatgcaaatatggt	8	5	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr15:80263171A>G	uc002bfc.3	-	1	473	c.291T>C	c.(289-291)GGT>GGC	p.G97G	BCL2A1_uc002bfd.3_Silent_p.G97G	NM_004049	NP_004040	Q16548	B2LA1_HUMAN	BCL2-related protein A1 isoform 1	97	BH1.				anti-apoptosis|apoptosis	cytoplasm	protein binding			pancreas(1)	1						TGATGAGAATACCTTCAAATG	0.388													130	87	---	---	---	---	PASS	G	80263171	G	G	80263171	2	3	145	1	0	0	0	0	0	0	0	1	1366	378	14	5		5	BCL2A1	15	80263171	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	5837070	80263171	22268221	409	51682										
KCTD5	54442	broad.mit.edu	37	chr16	2749842	2749842	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtgcctgtgaagcatgtgtaCcgtgtgctgcagtgccagga	15	9	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:2749842C>T	uc002crd.2	+	4	529	c.474C>T	c.(472-474)TAC>TAT	p.Y158Y		NM_018992	NP_061865	Q9NXV2	KCTD5_HUMAN	potassium channel tetramerisation domain	158					interspecies interaction between organisms	cytosol|nucleus|voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity				0						AGCATGTGTACCGTGTGCTGC	0.652													42	61	---	---	---	---	PASS	T	2749842	T	T	2749842	2	4	145	1	0	0	0	0	0	0	0	1	8112	518	18	3		3	KCTD5	16	2749842	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08		2749842	87604911	410	51683										
C16orf68	79091	broad.mit.edu	37	chr16	8722823	8722823	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atgaggatggggatttggacGtggtgagaagaccacgagcc	17	6	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:8722823G>T	uc002cyz.2	+	3	646	c.370G>T	c.(370-372)GTG>TTG	p.V124L	C16orf68_uc002cza.2_Intron	NM_024109	NP_077014	Q9BUU2	MET22_HUMAN	hypothetical protein LOC79091	124							methyltransferase activity				0						GGATTTGGACGTGGTGAGAAG	0.567													75	67	---	---	---	---	PASS	T	8722823	T	T	8722823	3	4	145	1	0	0	0	0	1	0	0	0	1827	1145	40	1	376	1	C16orf68	16	8722823	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	5972981	8722823	81631930	411	51684										
GRIN2A	2903	broad.mit.edu	37	chr16	9857766	9857766	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaaggcagcttctgcagtgcGtggagttctgccggtatcgc	14	10	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:9857766G>T	uc002czo.3	-	13	4183	c.3635C>A	c.(3634-3636)ACG>AAG	p.T1212K	GRIN2A_uc010uym.1_Missense_Mutation_p.T1212K|GRIN2A_uc010uyn.1_Missense_Mutation_p.T1055K|GRIN2A_uc002czr.3_Missense_Mutation_p.T1212K	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1212	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TCTGCAGTGCGTGGAGTTCTG	0.557													184	206	---	---	---	---	PASS	T	9857766	T	T	9857766	3	4	145	1	0	0	0	0	1	0	0	0	6779	1145	40	1	763	1	GRIN2A	16	9857766	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1134943	9857766	80496987	412	51685										
GTF3C1	2975	broad.mit.edu	37	chr16	27509984	27509984	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgaattggagatccggaagCggacctgctcgatggcactt	13	9	0	2	rs143838885	by1000genomes	TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:27509984C>A	uc002dov.1	-	13	2172	c.2132G>T	c.(2131-2133)CGC>CTC	p.R711L	GTF3C1_uc002dou.2_Missense_Mutation_p.R711L	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	711						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						GATCCGGAAGCGGACCTGCTC	0.582													118	137	---	---	---	---	PASS	A	27509984	A	A	27509984	3	1	145	1	0	0	0	0	1	0	0	0	6872	768	27	1	4297	1	GTF3C1	16	27509984	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	17652218	27509984	62844769	413	51686										
KIAA0556	23247	broad.mit.edu	37	chr16	27752197	27752197	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gaggaggggctcaaggaaggAtgctggcagcagtagtcatg	18	6	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:27752197A>C	uc002dow.2	+	15	2603	c.2579A>C	c.(2578-2580)GAT>GCT	p.D860A		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	860										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						TCAAGGAAGGATGCTGGCAGC	0.582													3	11	---	---	---	---	PASS	C	27752197	C	C	27752197	3	2	145	1	0	0	0	0	1	0	0	0	8183	333	12	5	2637	5	KIAA0556	16	27752197	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	242213	27752197	62602556	414	51687										
SRCAP	10847	broad.mit.edu	37	chr16	30719027	30719027	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aggcagttctggagcaatgtGgagaaggtagacagtgggga	18	4	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:30719027G>T	uc002dze.1	+	6	1012	c.627G>T	c.(625-627)GTG>GTT	p.V209V	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Silent_p.V66V|SRCAP_uc010bzz.1_5'Flank|SNORA30_uc002dzh.1_5'Flank	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	209					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			GGAGCAATGTGGAGAAGGTAG	0.522													26	35	---	---	---	---	PASS	T	30719027	T	T	30719027	2	4	145	1	0	0	0	0	0	0	0	1	15134	1335	47	3		3	SRCAP	16	30719027	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	2966830	30719027	59635726	415	51688										
ITGAM	3684	broad.mit.edu	37	chr16	31309148	31309148	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tggggcagccctaacagtgcTgggggacgtaaatggggaca	17	8	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:31309148T>A	uc002ebq.2	+	14	1678	c.1580T>A	c.(1579-1581)CTG>CAG	p.L527Q	ITGAM_uc002ebr.2_Missense_Mutation_p.L528Q|ITGAM_uc010cam.1_Intron|ITGAM_uc010can.2_Intron	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	527	FG-GAP 6.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						CTAACAGTGCTGGGGGACGTA	0.607													18	55	---	---	---	---	PASS	A	31309148	A	A	31309148	3	1	145	1	0	0	0	0	1	0	0	0	7887	1580	55	5	1637	5	ITGAM	16	31309148	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	590121	31309148	59045605	416	51689										
VPS35	55737	broad.mit.edu	37	chr16	46714640	46714640	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tacactgaagaaggtaatttCgaagaaacagacccctcaag	8	9	1	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:46714640C>T	uc002eef.3	-	5	548	c.449G>A	c.(448-450)CGA>CAA	p.R150Q	VPS35_uc002eed.2_5'Flank|VPS35_uc002eee.2_Missense_Mutation_p.R111Q	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	150					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				AAGGTAATTTCGAAGAAACAG	0.378													25	85	---	---	---	---	PASS	T	46714640	T	T	46714640	3	4	145	1	0	0	0	0	1	0	0	0	17200	884	31	2	1993	2	VPS35	16	46714640	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	15405492	46714640	43640113	417	51690										
ABCC12	94160	broad.mit.edu	37	chr16	48138185	48138185	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agttctctgcgtgaaacggcAgcctcacatccagctcgtcc	9	15	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:48138185A>T	uc002efc.1	-	20	3114	c.2768T>A	c.(2767-2769)CTG>CAG	p.L923Q	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_Intron|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	923	ABC transmembrane type-1 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				GTGAAACGGCAGCCTCACATC	0.483													82	77	---	---	---	---	PASS	T	48138185	T	T	48138185	3	4	145	1	0	0	0	0	1	0	0	0	52	188	7	5	1351	5	ABCC12	16	48138185	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	1423545	48138185	42216568	418	51691										
N4BP1	9683	broad.mit.edu	37	chr16	48594716	48594716	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgtgtttcaaatccgttctcCctggttcattttttaattcc	5	10	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:48594716C>T	uc002efp.2	-	2	2075	c.1838G>A	c.(1837-1839)GGG>GAG	p.G613E		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	613					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				ATCCGTTCTCCCTGGTTCATT	0.368													58	256	---	---	---	---	PASS	T	48594716	T	T	48594716	3	4	145	1	0	0	0	0	1	0	0	0	10109	623	22	3	876	3	N4BP1	16	48594716	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	456531	48594716	41760037	419	51692										
C16orf78	123970	broad.mit.edu	37	chr16	49433126	49433126	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aatgtggatatccacccccaCatggtcgaagaggacataga	10	10	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:49433126C>T	uc002efr.2	+	5	778	c.735C>T	c.(733-735)CAC>CAT	p.H245H		NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970	245										central_nervous_system(1)	1						TCCACCCCCACATGGTCGAAG	0.498													32	112	---	---	---	---	PASS	T	49433126	T	T	49433126	2	4	145	1	0	0	0	0	0	0	0	1	1835	477	17	3		3	C16orf78	16	49433126	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	838410	49433126	40921627	420	51693										
FTO	79068	broad.mit.edu	37	chr16	53913764	53913764	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctgtctcaacagtgctcaacAggaaccttggattatatttt	7	9	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:53913764A>G	uc002ehr.2	+	6	1206	c.984A>G	c.(982-984)ACA>ACG	p.T328T	FTO_uc010vha.1_Silent_p.T32T	NM_001080432	NP_001073901	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	328					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						AGTGCTCAACAGGAACCTTGG	0.423													142	100	---	---	---	---	PASS	G	53913764	G	G	53913764	2	3	145	1	0	0	0	0	0	0	0	1	6086	175	7	5		5	FTO	16	53913764	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	4480638	53913764	36440989	421	51694										
CNOT1	23019	broad.mit.edu	37	chr16	58622794	58622794	+	Frame_Shift_Del	DEL	C	-	-													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aatgcctgtctgcctcaggaCcgtgccgattcacaatctaa							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:58622794delC	uc002env.2	-	3	412	c.119delG	c.(118-120)GGTfs	p.G40fs	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Frame_Shift_Del_p.G40fs|CNOT1_uc002enx.2_Frame_Shift_Del_p.G40fs|CNOT1_uc002enz.1_5'UTR	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	40					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TGCCTCAGGACCGTGCCGATT	0.373													18	32	---	---	---	---		-	58622794	-	-	58622794	7	5	145	1	0	1	0	1	0	0	0	0	3617	507	18	0	7421	0	CNOT1	16	58622794	Frame_Shift_Del	DEL	C	TCGA-66-2756-01A-01D-1522-08	4709030	58622794	31731959	422	51695										
CDH11	1009	broad.mit.edu	37	chr16	65038625	65038625	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gacccagccacgcttggagcGctgtagcacctgcccctcct	10	18	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:65038625G>A	uc002eoi.2	-	3	582	c.148C>T	c.(148-150)CGC>TGC	p.R50C	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Missense_Mutation_p.R50C|CDH11_uc010vin.1_Intron|CDH11_uc010vio.1_Missense_Mutation_p.R50C	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	50					adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		CGCTTGGAGCGCTGTAGCACC	0.647			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			3	26	---	---	---	---	PASS	A	65038625	A	A	65038625	3	1	145	1	0	0	0	0	1	0	0	0	3097	1087	38	1	2286	1	CDH11	16	65038625	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	6415831	65038625	25316128	423	51696										
LCAT	3931	broad.mit.edu	37	chr16	67976608	67976608	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cagtcatagggggcggcgcgCacagtctcgtcccgcacgta	14	14	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:67976608C>T	uc002euy.1	-	4	500	c.489G>A	c.(487-489)GTG>GTA	p.V163V		NM_000229	NP_000220	P04180	LCAT_HUMAN	lecithin-cholesterol acyltransferase precursor	163					cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|high-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|reverse cholesterol transport|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein A-I binding|phosphatidylcholine-sterol O-acyltransferase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00418)|Epithelial(162;0.0183)|all cancers(182;0.12)		GGGCGGCGCGCACAGTCTCGT	0.687													13	145	---	---	---	---	PASS	T	67976608	T	T	67976608	2	4	145	1	0	0	0	0	0	0	0	1	8658	697	25	3		3	LCAT	16	67976608	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	2937983	67976608	22378145	424	51697										
HYDIN	54768	broad.mit.edu	37	chr16	70902623	70902624	+	Frame_Shift_Ins	INS	-	T	T													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgatccgcatattctttaggINSttgatgggtacatctgactt							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:70902623_70902624insT	uc002ezr.2	-	66	11284_11285	c.11156_11157insA	c.(11155-11157)AACfs	p.N3719fs	HYDIN_uc010cfy.2_5'Flank	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3720										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TATTCTTTAGGTTGATGGGTAC	0.51													29	74	---	---	---	---		T	70902624	T	T	70902623	7	5	145	1	0	1	1	0	0	0	0	0	7467	1252	44	0	4289	0	HYDIN	16	70902623	Frame_Shift_Ins	INS	-	TCGA-66-2756-01A-01D-1522-08	2926015	70902623	19452130	425	51698										
DHX38	9785	broad.mit.edu	37	chr16	72142741	72142741	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tccgcacagggatgccctgcCacttgcaccccaccagctcc	8	20	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:72142741C>T	uc002fcb.2	+	24	3653	c.3298C>T	c.(3298-3300)CAC>TAC	p.H1100Y	DHX38_uc010vmp.1_Missense_Mutation_p.H412Y	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	1100					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				GATGCCCTGCCACTTGCACCC	0.542													87	10	---	---	---	---	PASS	T	72142741	T	T	72142741	3	4	145	1	0	0	0	0	1	0	0	0	4511	594	21	3	3388	3	DHX38	16	72142741	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1240118	72142741	18212012	426	51699										
RFWD3	55159	broad.mit.edu	37	chr16	74678506	74678506	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tatacccaaagagatgcccaCagcgtaatgctgagagccgg	11	11	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:74678506C>A	uc002fda.2	-	5	1018	c.920G>T	c.(919-921)TGT>TTT	p.C307F	RFWD3_uc010cgq.2_Missense_Mutation_p.C307F	NM_018124	NP_060594	Q6PCD5	RFWD3_HUMAN	ring finger and WD repeat domain 3	307	RING-type; degenerate.				DNA repair|mitotic cell cycle G1/S transition DNA damage checkpoint|response to ionizing radiation	nucleus	MDM2 binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|breast(1)	3						GAGATGCCCACAGCGTAATGC	0.483													20	185	---	---	---	---	PASS	A	74678506	A	A	74678506	3	1	145	1	0	0	0	0	1	0	0	0	13261	478	17	3	1440	3	RFWD3	16	74678506	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2535765	74678506	15676247	427	51700										
FAM92B	339145	broad.mit.edu	37	chr16	85132794	85132794	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcacttaccctacgtcgttaGagagaatgtcctggaagcat	10	10	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:85132794G>C	uc010vok.1	-	8	1068	c.912C>G	c.(910-912)CTC>CTG	p.L304L		NM_198491	NP_940893	Q6ZTR7	FA92B_HUMAN	hypothetical protein LOC339145	304										central_nervous_system(1)	1						TACGTCGTTAGAGAGAATGTC	0.318													5	142	---	---	---	---	PASS	C	85132794	C	C	85132794	2	2	145	1	0	0	0	0	0	0	0	1	5653	929	33	2		2	FAM92B	16	85132794	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	10454288	85132794	5221959	428	51701										
SLC7A5	8140	broad.mit.edu	37	chr16	87874694	87874694	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aggccgctgtataatgccagCacaatgttccccacatccag	8	14	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:87874694C>G	uc002fkm.2	-	3	804	c.732G>C	c.(730-732)GTG>GTC	p.V244V		NM_003486	NP_003477	Q01650	LAT1_HUMAN	solute carrier family 7 (cationic amino acid	244	Helical; (Potential).				blood coagulation|cell differentiation|cellular amino acid metabolic process|ion transport|leukocyte migration|nervous system development	apical plasma membrane|cytosol|integral to membrane	neutral amino acid transmembrane transporter activity|peptide antigen binding				0				BRCA - Breast invasive adenocarcinoma(80;0.049)		ATAATGCCAGCACAATGTTCC	0.517													41	77	---	---	---	---	PASS	G	87874694	G	G	87874694	2	3	145	1	0	0	0	0	0	0	0	1	14700	697	25	4		4	SLC7A5	16	87874694	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	2741900	87874694	2480059	429	51702										
CA5A	763	broad.mit.edu	37	chr16	87960508	87960508	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atgttaataggagactgccgGgtgccccctggcacggagac	14	11	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:87960508G>A	uc002fkn.1	-	2	242	c.186C>T	c.(184-186)ACC>ACT	p.T62T		NM_001739	NP_001730	P35218	CAH5A_HUMAN	carbonic anhydrase VA, mitochondrial precursor	62					one-carbon metabolic process	mitochondrial matrix	carbonate dehydratase activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0513)		GAGACTGCCGGGTGCCCCCTG	0.602													6	9	---	---	---	---	PASS	A	87960508	A	A	87960508	2	1	145	1	0	0	0	0	0	0	0	1	2519	1219	43	3		3	CA5A	16	87960508	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	85814	87960508	2394245	430	51703										
ACSF3	197322	broad.mit.edu	37	chr16	89169102	89169102	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acgtccatggtgtggtcaacGcgctgctctgtcctctctgg	12	13	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr16:89169102G>T	uc002fmp.2	+	4	1097	c.757G>T	c.(757-759)GCG>TCG	p.A253S	ACSF3_uc010cig.1_Missense_Mutation_p.A253S|ACSF3_uc010cih.1_5'UTR|ACSF3_uc002fmq.1_RNA|ACSF3_uc010cii.1_RNA|ACSF3_uc002fmr.1_5'UTR	NM_174917	NP_777577	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3 precursor	253					fatty acid metabolic process	mitochondrion	acid-thiol ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0281)		TGTGGTCAACGCGCTGCTCTG	0.627													10	67	---	---	---	---	PASS	T	89169102	T	T	89169102	3	4	145	1	0	0	0	0	1	0	0	0	176	1087	38	1	763	1	ACSF3	16	89169102	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1208594	89169102	1185651	431	51704										
OR1D2	4991	broad.mit.edu	37	chr17	2996172	2996172	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggatgatgagcacatttcccAccaccgtgaccaggtacatg	10	12	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:2996172A>T	uc010vrb.1	-	1	119	c.119T>A	c.(118-120)GTG>GAG	p.V40E		NM_002548	NP_002539	P34982	OR1D2_HUMAN	olfactory receptor, family 1, subfamily D,	40	Helical; Name=1; (Potential).				cellular component movement|chemotaxis|protein import into nucleus, translocation|sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						CACATTTCCCACCACCGTGAC	0.542													58	189	---	---	---	---	PASS	T	2996172	T	T	2996172	3	4	145	1	0	0	0	0	1	0	0	0	10953	159	6	5	822	5	OR1D2	17	2996172	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08		2996172	78199038	432	51705										
ZZEF1	23140	broad.mit.edu	37	chr17	3967877	3967877	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cagcaggaaggccactgctgGatggcagctttggctgggtg	17	9	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:3967877G>A	uc002fxe.2	-	29	4560	c.4496C>T	c.(4495-4497)TCC>TTC	p.S1499F	ZZEF1_uc002fxh.2_5'Flank|ZZEF1_uc002fxi.2_5'UTR|ZZEF1_uc002fxj.1_Missense_Mutation_p.S112F	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	1499							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCCACTGCTGGATGGCAGCTT	0.642													6	60	---	---	---	---	PASS	A	3967877	A	A	3967877	3	1	145	1	0	0	0	0	1	0	0	0	18252	1174	41	2	4497	2	ZZEF1	17	3967877	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	971705	3967877	77227333	433	51706										
ASGR2	433	broad.mit.edu	37	chr17	7011806	7011806	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtgctgattgcctggacctcCgtcagggtgctcgaggagaa	15	10	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:7011806C>A	uc002gep.3	-	4	592	c.327G>T	c.(325-327)ACG>ACT	p.T109T	ASGR2_uc010vtk.1_5'Flank|ASGR2_uc002gem.1_Silent_p.T49T|ASGR2_uc002gen.1_Silent_p.T90T|ASGR2_uc002geo.1_Silent_p.T104T|ASGR2_uc002ger.3_Silent_p.T109T|ASGR2_uc002geq.3_Silent_p.T85T|ASGR2_uc010clw.2_Silent_p.T85T|ASGR2_uc010vtl.1_RNA	NM_001181	NP_001172	P07307	ASGR2_HUMAN	asialoglycoprotein receptor 2 isoform a	109	Extracellular (Potential).				cell surface receptor linked signaling pathway|endocytosis	focal adhesion|integral to membrane|nucleolus	asialoglycoprotein receptor activity|protein binding|sugar binding			ovary(1)	1					Antihemophilic Factor(DB00025)	CCTGGACCTCCGTCAGGGTGC	0.612													11	7	---	---	---	---	PASS	A	7011806	A	A	7011806	2	1	145	1	0	0	0	0	0	0	0	1	1040	639	23	1		1	ASGR2	17	7011806	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	3043929	7011806	74183404	434	51707										
TP53	7157	broad.mit.edu	37	chr17	7578407	7578407	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcgctcatggtgggggcagcGcctcacaacctccgtcatgt	13	14	3	0	rs138729528		TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:7578407G>C	uc002gim.2	-	5	717	c.523C>G	c.(523-525)CGC>GGC	p.R175G	TP53_uc002gig.1_Missense_Mutation_p.R175G|TP53_uc002gih.2_Missense_Mutation_p.R175G|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R43G|TP53_uc010cng.1_Missense_Mutation_p.R43G|TP53_uc002gii.1_Missense_Mutation_p.R43G|TP53_uc010cnh.1_Missense_Mutation_p.R175G|TP53_uc010cni.1_Missense_Mutation_p.R175G|TP53_uc002gij.2_Missense_Mutation_p.R175G|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R82G|TP53_uc002gio.2_Missense_Mutation_p.R43G|TP53_uc010vug.1_Missense_Mutation_p.R136G	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	175	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R175H(721)|p.R175L(19)|p.R175C(12)|p.R175G(11)|p.0?(7)|p.R175P(5)|p.R175S(5)|p.R175R(4)|p.R174fs*24(3)|p.R175_E180delRCPHHE(3)|p.R175fs*5(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V173fs*69(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R174_H178>S(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R175fs*6(1)|p.R42fs*24(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R175fs*72(1)|p.R174fs*70(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.S149fs*72(1)|p.R174_E180>K(1)|p.R174fs*3(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)		TGGGGGCAGCGCCTCACAACC	0.657		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)			42	12	---	---	---	---	PASS	C	7578407	C	C	7578407	3	2	145	1	0	0	0	0	1	0	0	0	16378	1087	38	4	775	4	TP53	17	7578407	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	566601	7578407	73616803	435	51708										
KDM6B	23135	broad.mit.edu	37	chr17	7750033	7750033	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctcagccctggaggcaagcGaaggagaggctgcaactctg	14	12	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:7750033G>A	uc002giw.1	+	8	1062	c.686G>A	c.(685-687)CGA>CAA	p.R229Q	KDM6B_uc002gix.2_5'Flank	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	229	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						GGAGGCAAGCGAAGGAGAGGC	0.622													81	18	---	---	---	---	PASS	A	7750033	A	A	7750033	3	1	145	1	0	0	0	0	1	0	0	0	8138	1058	37	2	704	2	KDM6B	17	7750033	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	171626	7750033	73445177	436	51709										
DNAH9	1770	broad.mit.edu	37	chr17	11837289	11837289	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agaagactctgcagaacctaCctgggggaattcattcgacc	10	11	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:11837289C>A	uc002gne.2	+	65	12458	c.12390C>A	c.(12388-12390)TAC>TAA	p.Y4130*	DNAH9_uc010coo.2_Nonsense_Mutation_p.Y3348*|DNAH9_uc002gnf.2_Nonsense_Mutation_p.Y442*	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	4130					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GCAGAACCTACCTGGGGGAAT	0.493													83	33	---	---	---	---	PASS	A	11837289	A	A	11837289	4	1	145	1	0	0	0	0	0	1	0	0	4608	518	18	3	12648	3	DNAH9	17	11837289	Nonsense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	4087256	11837289	69357921	437	51710										
SEBOX	645832	broad.mit.edu	37	chr17	26691546	26691546	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gaggttggcctggcatttggGgatcccagggctgctggagg	19	8	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:26691546G>A	uc010wai.1	-	3	409	c.395C>T	c.(394-396)CCC>CTC	p.P132L	SARM1_uc010wah.1_Intron|SEBOX_uc010crk.1_Missense_Mutation_p.P131L|SARM1_uc010waj.1_Intron	NM_001080837	NP_001074306	Q9HB31	SEBOX_HUMAN	SEBOX homeobox isoform 1	132					cell differentiation|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_lung(13;0.000354)|Lung NSC(42;0.00115)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		TGGCATTTGGGGATCCCAGGG	0.582													31	25	---	---	---	---	PASS	A	26691546	A	A	26691546	3	1	145	1	0	0	0	0	1	0	0	0	13977	1232	43	3	259	3	SEBOX	17	26691546	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	14854257	26691546	54503664	438	51711										
KIAA0100	9703	broad.mit.edu	37	chr17	26970223	26970223	+	Nonsense_Mutation	SNP	C	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggatgggctgaaggacagttCcttttgatccaccccagcgc							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:26970223C>A	uc002hbu.2	-	4	454	c.355G>T	c.(355-357)GAA>TAA	p.E119*	KIAA0100_uc002hbv.2_Nonsense_Mutation_p.E119*|KIAA0100_uc010crr.1_5'UTR	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	119						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					AAGGACAGTTCCTTTTGATCC	0.493													96	134	---	---	---	---	PASS	A	26970223	A	A	26970223	4	1	145	1	0	0	0	0	0	1	0	0	8154	864	30	2	6496	2	KIAA0100	17	26970223	Nonsense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	278677	26970223	54224987	439	51712	950	2								
KIAA0100	9703	broad.mit.edu	37	chr17	26970224	26970224	+	Missense_Mutation	SNP	C	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gatgggctgaaggacagttcCttttgatccaccccagcgct							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:26970224C>A	uc002hbu.2	-	4	453	c.354G>T	c.(352-354)AAG>AAT	p.K118N	KIAA0100_uc002hbv.2_Missense_Mutation_p.K118N|KIAA0100_uc010crr.1_Translation_Start_Site	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	118						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					AGGACAGTTCCTTTTGATCCA	0.493													96	137	---	---	---	---	PASS	A	26970224	A	A	26970224	3	1	145	1	0	0	0	0	1	0	0	0	8154	680	24	3	6497	3	KIAA0100	17	26970224	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1	26970224	54224986	440	51713	950	2								
NF1	4763	broad.mit.edu	37	chr17	29541520	29541520	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttaaatttaaagaaaaacctAcagacctggagacaagaagc	7	7	0	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:29541520A>G	uc002hgg.2	+	13	1777	c.1444A>G	c.(1444-1446)ACA>GCA	p.T482A	NF1_uc002hge.1_Missense_Mutation_p.T482A|NF1_uc002hgf.1_Missense_Mutation_p.T482A|NF1_uc002hgh.2_Missense_Mutation_p.T482A|NF1_uc010csn.1_Missense_Mutation_p.T342A	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	482					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		AGAAAAACCTACAGACCTGGA	0.313			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			28	56	---	---	---	---	PASS	G	29541520	G	G	29541520	3	3	145	1	0	0	0	0	1	0	0	0	10356	391	14	5	1494	5	NF1	17	29541520	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	2571296	29541520	51653690	441	51714										
NF1	4763	broad.mit.edu	37	chr17	29676265	29676265	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acacagagcgtggcctacttAgcaggtaaaaacacaaaata	8	9	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:29676265A>T	uc002hgg.2	+	49	7650	c.7317A>T	c.(7315-7317)TTA>TTT	p.L2439F	NF1_uc002hgh.2_Missense_Mutation_p.L2418F|NF1_uc010cso.2_Missense_Mutation_p.L627F|NF1_uc010wbt.1_5'UTR|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2439					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TGGCCTACTTAGCAGGTAAAA	0.338			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			19	28	---	---	---	---	PASS	T	29676265	T	T	29676265	3	4	145	1	0	0	0	0	1	0	0	0	10356	417	15	5	7572	5	NF1	17	29676265	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	134745	29676265	51518945	442	51715										
RHOT1	55288	broad.mit.edu	37	chr17	30526045	30526045	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaagcacctttgacaagcatGatttggtaagcctttagctg	9	8	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:30526045G>T	uc002hgz.2	+	12	1188	c.949G>T	c.(949-951)GAT>TAT	p.D317Y	RHOT1_uc002hgw.2_Missense_Mutation_p.D317Y|RHOT1_uc002hgy.2_Missense_Mutation_p.D317Y|RHOT1_uc002hha.2_Missense_Mutation_p.D190Y|RHOT1_uc010csv.2_RNA|RHOT1_uc002hgx.2_Missense_Mutation_p.D190Y|RHOT1_uc010wby.1_Missense_Mutation_p.D317Y|RHOT1_uc002hhb.2_Missense_Mutation_p.D296Y|RHOT1_uc002hgv.2_Missense_Mutation_p.D317Y	NM_018307	NP_060777	Q8IXI2	MIRO1_HUMAN	ras homolog gene family, member T1 isoform 3	317	EF-hand 2.|2 (Probable).|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(56;0.0255)|Breast(31;0.116)|Ovarian(249;0.182)				TGACAAGCATGATTTGGTAAG	0.328													117	92	---	---	---	---	PASS	T	30526045	T	T	30526045	3	4	145	1	0	0	0	0	1	0	0	0	13343	1290	45	2	995	2	RHOT1	17	30526045	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	849780	30526045	50669165	443	51716										
AMAC1	146861	broad.mit.edu	37	chr17	33520727	33520727	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agcctcagggacagcgccagGcctcccaggaaagcctccac	11	17	1	0	rs147862619		TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:33520727G>T	uc002hjd.2	-	1	686	c.600C>A	c.(598-600)GGC>GGA	p.G200G		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	200	Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		ACAGCGCCAGGCCTCCCAGGA	0.602													65	119	---	---	---	---	PASS	T	33520727	T	T	33520727	2	4	145	1	0	0	0	0	0	0	0	1	559	1190	42	3		3	AMAC1	17	33520727	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	2994682	33520727	47674483	444	51717										
KRTAP3-3	85293	broad.mit.edu	37	chr17	39150267	39150267	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgctgggcaggcagactccaCagcggcaggatttgtcagag	15	10	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:39150267C>A	uc002hvr.1	-	1	119	c.83G>T	c.(82-84)TGT>TTT	p.C28F		NM_033185	NP_149441	Q9BYR6	KRA33_HUMAN	keratin associated protein 3-3	28	3 X 5 AA repeats of C-C-X(3).					keratin filament	structural molecule activity				0		Breast(137;0.00043)				GCAGACTCCACAGCGGCAGGA	0.612													79	77	---	---	---	---	PASS	A	39150267	A	A	39150267	3	1	145	1	0	0	0	0	1	0	0	0	8547	478	17	3	217	3	KRTAP3-3	17	39150267	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	5629540	39150267	42044943	445	51718										
SC65	10609	broad.mit.edu	37	chr17	39959557	39959557	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	accagcctcggcctcgtcacCcttggcatccggctcctgcc	9	20	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:39959557C>G	uc002hxt.2	-	7	1557	c.1273G>C	c.(1273-1275)GGT>CGT	p.G425R	SC65_uc002hxu.2_Missense_Mutation_p.G516R	NM_006455	NP_006446	Q92791	SC65_HUMAN	synaptonemal complex protein SC65	425	Asp/Glu-rich (acidic).				synaptonemal complex assembly	nucleolus|synaptonemal complex	binding				0		Breast(137;0.000162)		BRCA - Breast invasive adenocarcinoma(366;0.149)		GCCTCGTCACCCTTGGCATCC	0.642													18	85	---	---	---	---	PASS	G	39959557	G	G	39959557	3	3	145	1	0	0	0	0	1	0	0	0	13867	623	22	4	48	4	SC65	17	39959557	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	809290	39959557	41235653	446	51719										
KCNH4	23415	broad.mit.edu	37	chr17	40330849	40330849	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agatttcagcccggtgctccTggtggccctccagggctttg	13	13	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:40330849T>C	uc002hzb.2	-	2	605	c.272A>G	c.(271-273)CAG>CGG	p.Q91R		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	91	Cytoplasmic (Potential).				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)		CCGGTGCTCCTGGTGGCCCTC	0.597													29	82	---	---	---	---	PASS	C	40330849	C	C	40330849	3	2	145	1	0	0	0	0	1	0	0	0	8034	1580	55	5	2841	5	KCNH4	17	40330849	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	371292	40330849	40864361	447	51720										
RAMP2	10266	broad.mit.edu	37	chr17	40913878	40913878	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgaatccccacgaggccctgGctcagcctcttcccaccaca	7	19	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:40913878G>T	uc002ibg.2	+	2	192	c.124G>T	c.(124-126)GCT>TCT	p.A42S	LOC100190938_uc002ibd.1_5'Flank|LOC100190938_uc002ibe.3_5'Flank|LOC100190938_uc002ibf.3_5'Flank|RAMP2_uc010cyt.2_Missense_Mutation_p.A42S|RAMP2_uc002ibh.2_Missense_Mutation_p.A42S	NM_005854	NP_005845	O60895	RAMP2_HUMAN	receptor activity modifying protein 2 precursor	42					intracellular protein transport|receptor-mediated endocytosis|regulation of G-protein coupled receptor protein signaling pathway	coated pit|integral to plasma membrane|lysosome	protein transporter activity				0		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0741)	Pramlintide(DB01278)	CGAGGCCCTGGCTCAGCCTCT	0.647													12	27	---	---	---	---	PASS	T	40913878	T	T	40913878	3	4	145	1	0	0	0	0	1	0	0	0	13022	1203	42	3	130	3	RAMP2	17	40913878	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	583029	40913878	40281332	448	51721										
BRCA1	672	broad.mit.edu	37	chr17	41246004	41246004	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctgctttcttgataaaatccTcaggatgaaggcctgatgta	9	8	2	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:41246004T>A	uc002icq.2	-	10	1776	c.1544A>T	c.(1543-1545)GAG>GTG	p.E515V	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.E444V|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.E468V|BRCA1_uc002ict.2_Missense_Mutation_p.E515V|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.E515V|BRCA1_uc002ide.1_Missense_Mutation_p.E346V|BRCA1_uc010cyy.1_Missense_Mutation_p.E515V|BRCA1_uc010whs.1_Missense_Mutation_p.E515V|BRCA1_uc010cyz.2_Missense_Mutation_p.E468V|BRCA1_uc010cza.2_Missense_Mutation_p.E489V|BRCA1_uc010wht.1_Missense_Mutation_p.E219V	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	515					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		GATAAAATCCTCAGGATGAAG	0.388			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			60	135	---	---	---	---	PASS	A	41246004	A	A	41246004	3	1	145	1	0	0	0	0	1	0	0	0	1498	1551	54	5	4173	5	BRCA1	17	41246004	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	332126	41246004	39949206	449	51722										
CRHR1	1394	broad.mit.edu	37	chr17	43893944	43893944	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tatggtgtccgctacaatacCacaagtaaggaagaagtgga	11	7	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:43893944C>T	uc010dap.2	+	3	502	c.237C>T	c.(235-237)ACC>ACT	p.T79T	CRHR1_uc010wjx.1_5'UTR|CRHR1_uc002ijp.2_Missense_Mutation_p.P7L|CRHR1_uc002ijm.2_Silent_p.T79T|CRHR1_uc002ijn.2_Intron|CRHR1_uc010dar.2_Silent_p.T79T|CRHR1_uc010dao.2_Missense_Mutation_p.P7L|CRHR1_uc010daq.2_5'UTR|CRHR1_uc010das.1_RNA|CRHR1_uc002ijo.1_Intron	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	79	Extracellular (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		GCTACAATACCACAAGTAAGG	0.582													20	42	---	---	---	---	PASS	T	43893944	T	T	43893944	2	4	145	1	0	0	0	0	0	0	0	1	3871	581	21	3		3	CRHR1	17	43893944	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	2647940	43893944	37301266	450	51723										
MAPT	4137	broad.mit.edu	37	chr17	44039763	44039763	+	Frame_Shift_Del	DEL	G	-	-													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cacgctgggacgtacgggttGggggacaggaaagatcaggg							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:44039763delG	uc002ijr.3	+	2	380	c.60delG	c.(58-60)TTGfs	p.L20fs	MAPT_uc010dau.2_Frame_Shift_Del_p.L20fs|MAPT_uc002ijs.3_Frame_Shift_Del_p.L20fs|MAPT_uc002ijx.3_Frame_Shift_Del_p.L20fs|MAPT_uc002ijt.3_Frame_Shift_Del_p.L20fs|MAPT_uc002iju.3_Frame_Shift_Del_p.L20fs|MAPT_uc002ijv.3_Frame_Shift_Del_p.L20fs	NM_016835	NP_058519	P10636	TAU_HUMAN	microtubule-associated protein tau isoform 1	20					cellular component disassembly involved in apoptosis|microtubule cytoskeleton organization|negative regulation of microtubule depolymerization|positive regulation of axon extension|positive regulation of microtubule polymerization|regulation of autophagy	axon|cytosol|growth cone|microtubule|microtubule associated complex|nuclear periphery|plasma membrane|tubulin complex	apolipoprotein E binding|enzyme binding|identical protein binding|lipoprotein particle binding|microtubule binding|protein binding|SH3 domain binding|structural constituent of cytoskeleton			pancreas(1)	1		Melanoma(429;0.216)				CGTACGGGTTGGGGGACAGGA	0.577													37	27	---	---	---	---		-	44039763	-	-	44039763	7	5	145	1	0	1	0	1	0	0	0	0	9297	1339	47	0	62	0	MAPT	17	44039763	Frame_Shift_Del	DEL	G	TCGA-66-2756-01A-01D-1522-08	145819	44039763	37155447	451	51724										
HOXB1	3211	broad.mit.edu	37	chr17	46608014	46608014	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggggctgcaggcggcaggagCataccccgagggcgcggagc	20	12	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:46608014C>T	uc002ink.1	-	1	259	c.253G>A	c.(253-255)GCT>ACT	p.A85T		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	85						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCGGCAGGAGCATACCCCGAG	0.657													40	78	---	---	---	---	PASS	T	46608014	T	T	46608014	3	4	145	1	0	0	0	0	1	0	0	0	7299	710	25	3	660	3	HOXB1	17	46608014	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2568251	46608014	34587196	452	51725										
TSEN54	283989	broad.mit.edu	37	chr17	73517538	73517538	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cttaacctggatgccagcgtGcagcacttggaggatggaga	14	9	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:73517538G>T	uc002jof.1	+	7	603	c.570G>T	c.(568-570)GTG>GTT	p.V190V	TSEN54_uc002joe.1_3'UTR	NM_207346	NP_997229	Q7Z6J9	SEN54_HUMAN	tRNA splicing endonuclease 54 homolog	190					mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	nucleolus				ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			ATGCCAGCGTGCAGCACTTGG	0.632													20	57	---	---	---	---	PASS	T	73517538	T	T	73517538	2	4	145	1	0	0	0	0	0	0	0	1	16611	1306	46	3		3	TSEN54	17	73517538	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	26909524	73517538	7677672	453	51726										
DNAH17	8632	broad.mit.edu	37	chr17	76558032	76558032	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctcggcaagaatcaggggccGctccatgaggcccccacaca	11	16	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:76558032G>C	uc002jvv.1	-	8	812	c.706C>G	c.(706-708)CGG>GGG	p.R236G						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			ATCAGGGGCCGCTCCATGAGG	0.577													35	26	---	---	---	---	PASS	C	76558032	C	C	76558032	3	2	145	1	0	0	0	0	1	0	0	0	4601	1086	38	4	12068	4	DNAH17	17	76558032	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	3040494	76558032	4637178	454	51727										
BAHCC1	57597	broad.mit.edu	37	chr17	79409552	79409552	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acctaaaggccagcgggcccAccttcgtgccttctgtggga	12	14	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:79409552A>G	uc002kaf.2	+	3	1177	c.1177A>G	c.(1177-1179)ACC>GCC	p.T393A	BAHCC1_uc002kae.2_5'Flank	NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	393							DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			CAGCGGGCCCACCTTCGTGCC	0.731													9	10	---	---	---	---	PASS	G	79409552	G	G	79409552	3	3	145	1	0	0	0	0	1	0	0	0	1296	159	6	5	1026	5	BAHCC1	17	79409552	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	2851520	79409552	1785658	455	51728										
WDR45L	56270	broad.mit.edu	37	chr17	80575231	80575231	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atatgcactgtgccgtggtcGctggatacgcagatgaggga	15	8	0	2	rs145253791	byFrequency	TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr17:80575231G>A	uc002kfq.2	-	8	942	c.747C>T	c.(745-747)AGC>AGT	p.S249S	WDR45L_uc002kfr.2_RNA	NM_019613	NP_062559	Q5MNZ6	WIPI3_HUMAN	WDR45-like	249	WD 2.				autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1	Breast(20;0.00106)|all_neural(118;0.0952)	all_cancers(8;0.101)|all_epithelial(8;0.198)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.0835)			TGCCGTGGTCGCTGGATACGC	0.517													14	50	---	---	---	---	PASS	A	80575231	A	A	80575231	2	1	145	1	0	0	0	0	0	0	0	1	17295	1078	38	1		1	WDR45L	17	80575231	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	1165679	80575231	619979	456	51729										
LAMA1	284217	broad.mit.edu	37	chr18	6943296	6943296	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agtgatacggtgtttgctttTgttagcttgaagagtgtgcc	13	5	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr18:6943296T>C	uc002knm.2	-	62	9044	c.8950A>G	c.(8950-8952)AAA>GAA	p.K2984E	LAMA1_uc002knk.2_Missense_Mutation_p.K314E|LAMA1_uc002knl.2_Missense_Mutation_p.K437E|LAMA1_uc010wzj.1_Missense_Mutation_p.K2460E	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2984	Laminin G-like 5.				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)	TGTTTGCTTTTGTTAGCTTGA	0.488													46	154	---	---	---	---	PASS	C	6943296	C	C	6943296	3	2	145	1	0	0	0	0	1	0	0	0	8605	1821	63	5	285	5	LAMA1	18	6943296	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08		6943296	71133952	457	51730										
PPP4R1	9989	broad.mit.edu	37	chr18	9557338	9557338	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgatctccaagaataactgCaagctcgtggatggagaatg	11	7	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr18:9557338C>A	uc002koe.1	-	15	2189	c.2071G>T	c.(2071-2073)GCA>TCA	p.A691S	PPP4R1_uc002kof.2_Missense_Mutation_p.A108S|PPP4R1_uc010wzo.1_Missense_Mutation_p.A537S|PPP4R1_uc002kod.1_Missense_Mutation_p.A674S	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	691					protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						AGAATAACTGCAAGCTCGTGG	0.388													208	55	---	---	---	---	PASS	A	9557338	A	A	9557338	3	1	145	1	0	0	0	0	1	0	0	0	12403	710	25	3	805	3	PPP4R1	18	9557338	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2614042	9557338	68519910	458	51731										
ASXL3	80816	broad.mit.edu	37	chr18	31323871	31323871	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggaaacaatttgccaaacctCtccactagctctgtcttgat	6	12	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr18:31323871C>T	uc010dmg.1	+	12	4114	c.4059C>T	c.(4057-4059)CTC>CTT	p.L1353L	ASXL3_uc002kxq.2_Silent_p.L1060L	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1353	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TGCCAAACCTCTCCACTAGCT	0.453											OREG0024911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	218	78	---	---	---	---	PASS	T	31323871	T	T	31323871	2	4	145	1	0	0	0	0	0	0	0	1	1068	900	32	2		2	ASXL3	18	31323871	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	21766533	31323871	46753377	459	51732										
CDH20	28316	broad.mit.edu	37	chr18	59206307	59206307	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcacaatcaaagtcttagatGtgaatgacaatgctccagag	8	8	3	4			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr18:59206307G>T	uc010dps.1	+	8	1471	c.1459G>T	c.(1459-1461)GTG>TTG	p.V487L	CDH20_uc002lif.2_Missense_Mutation_p.V481L	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	487	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				AGTCTTAGATGTGAATGACAA	0.463													154	48	---	---	---	---	PASS	T	59206307	T	T	59206307	3	4	145	1	0	0	0	0	1	0	0	0	3106	1377	48	3	1489	3	CDH20	18	59206307	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	27882436	59206307	18870941	460	51733										
SERPINB13	5275	broad.mit.edu	37	chr18	61256064	61256064	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccaccgcttcccagttggagGaggttgggcgcagtcagggg	17	11	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr18:61256064G>T	uc002ljc.2	+	2	331	c.163G>T	c.(163-165)GAG>TAG	p.E55*	SERPINB13_uc002ljd.2_5'UTR|SERPINB13_uc010xep.1_Nonsense_Mutation_p.E55*|SERPINB13_uc010xeq.1_5'UTR|SERPINB13_uc010xer.1_5'UTR	NM_012397	NP_036529	Q9UIV8	SPB13_HUMAN	serine (or cysteine) proteinase inhibitor, clade	55					regulation of proteolysis|response to UV	cytoplasm|extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)	1						CCAGTTGGAGGAGGTTGGGCG	0.527													4	78	---	---	---	---	PASS	T	61256064	T	T	61256064	4	4	145	1	0	0	0	0	0	1	0	0	14100	1175	41	2	165	2	SERPINB13	18	61256064	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2049757	61256064	16821184	461	51734										
ZNF560	147741	broad.mit.edu	37	chr19	9578078	9578078	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccacatttgtaacacttaaaGggcttctcaccagtgtgagt	8	10	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:9578078G>A	uc002mlp.1	-	10	1755	c.1545C>T	c.(1543-1545)CCC>CCT	p.P515P	ZNF560_uc010dwr.1_Silent_p.P409P	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	515					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						AACACTTAAAGGGCTTCTCAC	0.408													128	41	---	---	---	---	PASS	A	9578078	A	A	9578078	2	1	145	1	0	0	0	0	0	0	0	1	17988	987	35	3		3	ZNF560	19	9578078	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08		9578078	49550905	462	51735										
ZNF121	7675	broad.mit.edu	37	chr19	9677376	9677376	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cgtagggtttttctacagtaTgcattttaacagacacagca	8	8	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:9677376T>G	uc010xkp.1	-	4	645	c.413A>C	c.(412-414)CAT>CCT	p.H138P	ZNF121_uc010dwt.2_Missense_Mutation_p.H138P|ZNF121_uc010xkq.1_Missense_Mutation_p.H138P	NM_001008727	NP_001008727	P58317	ZN121_HUMAN	zinc finger protein 121	138	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTCTACAGTATGCATTTTAAC	0.388													31	17	---	---	---	---	PASS	G	9677376	G	G	9677376	3	3	145	1	0	0	0	0	1	0	0	0	17716	1464	51	5	763	5	ZNF121	19	9677376	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	99298	9677376	49451607	463	51736										
KEAP1	9817	broad.mit.edu	37	chr19	10602473	10602473	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtacaacagcccgcccaccaCgcagccggccaggccgctcc	10	21	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:10602473C>G	uc002moq.1	-	3	1261	c.1105G>C	c.(1105-1107)GTG>CTG	p.V369L	KEAP1_uc002mop.1_Missense_Mutation_p.V87L|KEAP1_uc002mor.1_Missense_Mutation_p.V369L	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	369	Kelch 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CCGCCCACCACGCAGCCGGCC	0.677													6	2	---	---	---	---	PASS	G	10602473	G	G	10602473	3	3	145	1	0	0	0	0	1	0	0	0	8141	536	19	4	785	4	KEAP1	19	10602473	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	925097	10602473	48526510	464	51737										
KANK2	25959	broad.mit.edu	37	chr19	11280921	11280921	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cagcatcagggccgtctgtcCtgcctggggagggcaaggaa	16	11	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:11280921C>G	uc010dxv.2	-	13	2773	c.2215G>C	c.(2215-2217)GGA>CGA	p.G739R	KANK2_uc002mqm.2_Missense_Mutation_p.G747R|KANK2_uc002mqo.3_Missense_Mutation_p.G739R|KANK2_uc002mqp.1_Missense_Mutation_p.G548R	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	739	ANK 3.										0						GCCGTCTGTCCTGCCTGGGGA	0.612													22	10	---	---	---	---	PASS	G	11280921	G	G	11280921	3	3	145	1	0	0	0	0	1	0	0	0	7977	690	24	4	352	4	KANK2	19	11280921	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	678448	11280921	47848062	465	51738										
PRKCSH	5589	broad.mit.edu	37	chr19	11547248	11547248	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agtccaagcctttcacctgcCtggacggttcggccaccatc	9	16	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:11547248C>G	uc002mrt.2	+	3	454	c.118C>G	c.(118-120)CTG>GTG	p.L40V	CCDC151_uc002mrs.2_5'Flank|CCDC151_uc010dxz.2_5'Flank|PRKCSH_uc002mru.2_Missense_Mutation_p.L40V|PRKCSH_uc010xlz.1_Missense_Mutation_p.L40V|PRKCSH_uc010dya.2_Silent_p.A8A|PRKCSH_uc002mrv.1_Missense_Mutation_p.L40V|PRKCSH_uc010dyb.2_Missense_Mutation_p.L40V	NM_002743	NP_002734	P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H isoform 1	40					innate immune response|intracellular protein kinase cascade|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen	calcium ion binding|protein kinase C binding				0						TTTCACCTGCCTGGACGGTTC	0.532													43	14	---	---	---	---	PASS	G	11547248	G	G	11547248	3	3	145	1	0	0	0	0	1	0	0	0	12516	680	24	4	124	4	PRKCSH	19	11547248	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	266327	11547248	47581735	466	51739										
ZNF443	10224	broad.mit.edu	37	chr19	12542492	12542492	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tacaatcatatggtttctttCcagtgtgaagcctctcatgt	7	9	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:12542492C>A	uc002mtu.2	-	4	692	c.494G>T	c.(493-495)GGA>GTA	p.G165V		NM_005815	NP_005806	Q9Y2A4	ZN443_HUMAN	zinc finger protein 443	165					induction of apoptosis|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						TGGTTTCTTTCCAGTGTGAAG	0.428													100	46	---	---	---	---	PASS	A	12542492	A	A	12542492	3	1	145	1	0	0	0	0	1	0	0	0	17913	855	30	2	1525	2	ZNF443	19	12542492	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	995244	12542492	46586491	467	51740										
MAST1	22983	broad.mit.edu	37	chr19	12963060	12963060	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctcacccgtgacccctttccAggtgccggctggtgggcgca	13	16	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:12963060A>T	uc002mvm.2	+	9	1136	c.1008A>T	c.(1006-1008)CCA>CCT	p.P336P	MAST1_uc002mvk.2_Silent_p.P332P	NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	336					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						ACCCCTTTCCAGGTGCCGGCT	0.662													26	13	---	---	---	---	PASS	T	12963060	T	T	12963060	2	4	145	1	0	0	0	0	0	0	0	1	9324	202	7	5		5	MAST1	19	12963060	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	420568	12963060	46165923	468	51741										
KLHL26	55295	broad.mit.edu	37	chr19	18778777	18778777	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtggatgccttcaccttccgGcacttcctgcagatcgccga	10	15	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:18778777G>C	uc002njz.1	+	3	597	c.570G>C	c.(568-570)CGG>CGC	p.R190R		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	190	BACK.									ovary(1)	1						TCACCTTCCGGCACTTCCTGC	0.642													24	14	---	---	---	---	PASS	C	18778777	C	C	18778777	2	2	145	1	0	0	0	0	0	0	0	1	8381	1190	42	4		4	KLHL26	19	18778777	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	5815717	18778777	40350206	469	51742										
ZNF100	163227	broad.mit.edu	37	chr19	21910245	21910245	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctttcccacattcttcacatCtgtatggtttctctccagta	4	13	4	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:21910245C>G	uc002nqi.2	-	5	1068	c.869G>C	c.(868-870)AGA>ACA	p.R290T	ZNF100_uc002nqh.2_Missense_Mutation_p.R226T	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	290	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTCTTCACATCTGTATGGTTT	0.398													42	20	---	---	---	---	PASS	G	21910245	G	G	21910245	3	3	145	1	0	0	0	0	1	0	0	0	17710	913	32	2	763	2	ZNF100	19	21910245	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	3131468	21910245	37218738	470	51743										
ZNF536	9745	broad.mit.edu	37	chr19	30935660	30935660	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cacatgaaggtccacctcaaCaagctgtcggtgaagaacaa	9	11	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:30935660C>A	uc002nsu.1	+	2	1329	c.1191C>A	c.(1189-1191)AAC>AAA	p.N397K	ZNF536_uc010edd.1_Missense_Mutation_p.N397K	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	397					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TCCACCTCAACAAGCTGTCGG	0.612													47	70	---	---	---	---	PASS	A	30935660	A	A	30935660	3	1	145	1	0	0	0	0	1	0	0	0	17971	477	17	3	1193	3	ZNF536	19	30935660	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	9025415	30935660	28193323	471	51744										
ZNF382	84911	broad.mit.edu	37	chr19	37118176	37118176	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctccaccagagaattcacacGggggaaaaaccctatatttg	8	11	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:37118176G>T	uc002oek.2	+	5	1490	c.1377G>T	c.(1375-1377)ACG>ACT	p.T459T	ZNF382_uc010efa.2_Silent_p.T410T|ZNF382_uc010efb.2_Silent_p.T458T|ZNF382_uc002oel.2_Silent_p.T458T	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	459	Required for transcriptional repression activity; probably mediates sequence- specific DNA-binding (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GAATTCACACGGGGGAAAAAC	0.438													32	65	---	---	---	---	PASS	T	37118176	T	T	37118176	2	4	145	1	0	0	0	0	0	0	0	1	17870	1103	39	1		1	ZNF382	19	37118176	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	6182516	37118176	22010807	472	51745										
ZNF461	92283	broad.mit.edu	37	chr19	37130209	37130209	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccagtatggagtcgcaggtgTtcagtaagttgaaagccacg	13	8	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:37130209T>G	uc002oem.2	-	6	1266	c.1038A>C	c.(1036-1038)GAA>GAC	p.E346D	ZNF461_uc002oen.2_Missense_Mutation_p.E315D|ZNF461_uc010xtj.1_Missense_Mutation_p.E323D	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	346	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GTCGCAGGTGTTCAGTAAGTT	0.393													8	78	---	---	---	---	PASS	G	37130209	G	G	37130209	3	3	145	1	0	0	0	0	1	0	0	0	17922	1722	60	5	657	5	ZNF461	19	37130209	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	12033	37130209	21998774	473	51746										
CATSPERG	57828	broad.mit.edu	37	chr19	38860826	38860826	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gacacgagcacctactgcaaCtaccagctcaccttcctgct	6	17	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:38860826C>G	uc002oih.3	+	28	3228	c.3141C>G	c.(3139-3141)AAC>AAG	p.N1047K	CATSPERG_uc002oig.3_Missense_Mutation_p.N1007K|CATSPERG_uc002oif.3_Missense_Mutation_p.N687K|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	1047	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						CCTACTGCAACTACCAGCTCA	0.617													5	59	---	---	---	---	PASS	G	38860826	G	G	38860826	3	3	145	1	0	0	0	0	1	0	0	0	2692	564	20	4	3247	4	CATSPERG	19	38860826	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1730617	38860826	20268157	474	51747										
PAPL	390928	broad.mit.edu	37	chr19	39589135	39589135	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	actgtaacttggaccacatgGgtcccaacccgctctgaagt	9	13	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:39589135G>A	uc002oki.2	+	3	433	c.159G>A	c.(157-159)TGG>TGA	p.W53*	PAPL_uc010egl.2_Nonsense_Mutation_p.W53*	NM_001004318	NP_001004318	Q6ZNF0	PAPL_HUMAN	iron/zinc purple acid phosphatase-like protein	53						extracellular region	acid phosphatase activity|metal ion binding				0						GGACCACATGGGTCCCAACCC	0.647													17	64	---	---	---	---	PASS	A	39589135	A	A	39589135	4	1	145	1	0	0	0	0	0	1	0	0	11427	1241	43	3	165	3	PAPL	19	39589135	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	728309	39589135	19539848	475	51748										
FCGBP	8857	broad.mit.edu	37	chr19	40357380	40357380	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctactcacaaacttacccaCacacccttgtttggagtcaa	4	15	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:40357380C>A	uc002omp.3	-	34	15941	c.15933G>T	c.(15931-15933)GTG>GTT	p.V5311V		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	5311	VWFD 13.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			AACTTACCCACACACCCTTGT	0.527													30	52	---	---	---	---	PASS	A	40357380	A	A	40357380	2	1	145	1	0	0	0	0	0	0	0	1	5778	465	17	3		3	FCGBP	19	40357380	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	768245	40357380	18771603	476	51749										
FCGBP	8857	broad.mit.edu	37	chr19	40368654	40368654	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggagggagccagtgtgccatTagggaagacctggtcattgt	16	7	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:40368654T>C	uc002omp.3	-	28	12702	c.12694A>G	c.(12694-12696)AAT>GAT	p.N4232D		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4232	VWFD 10.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			AGTGTGCCATTAGGGAAGACC	0.642													28	245	---	---	---	---	PASS	C	40368654	C	C	40368654	3	2	145	1	0	0	0	0	1	0	0	0	5778	1754	61	5	3559	5	FCGBP	19	40368654	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	11274	40368654	18760329	477	51750										
CYP2F1	1572	broad.mit.edu	37	chr19	41630695	41630695	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cgctgaaggaccgcgcggccAtgccttacacagacgcggtg	14	14	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:41630695A>T	uc002opu.1	+	8	1092	c.1036A>T	c.(1036-1038)ATG>TTG	p.M346L	CYP2F1_uc010xvw.1_Intron|CYP2F1_uc010xvv.1_3'UTR|CYP2F1_uc002opv.1_RNA	NM_000774	NP_000765	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F,	346					naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0						CCGCGCGGCCATGCCTTACAC	0.677													7	17	---	---	---	---	PASS	T	41630695	T	T	41630695	3	4	145	1	0	0	0	0	1	0	0	0	4171	217	8	5	1062	5	CYP2F1	19	41630695	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	1262041	41630695	17498288	478	51751										
PSG7	5676	broad.mit.edu	37	chr19	43439811	43439811	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtggccagtaagattctgggGcaaattgtggacaagtagaa	14	5	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:43439811G>C	uc002ovl.3	-	2	277	c.175C>G	c.(175-177)CCC>GCC	p.P59A	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Intron	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	59	Ig-like V-type.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				AGATTCTGGGGCAAATTGTGG	0.448													109	204	---	---	---	---	PASS	C	43439811	C	C	43439811	3	2	145	1	0	0	0	0	1	0	0	0	12660	1203	42	4	1104	4	PSG7	19	43439811	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1809116	43439811	15689172	479	51752										
PSG6	5675	broad.mit.edu	37	chr19	43585288	43585288	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtagccagtaagattctgggGcaaattgtggacaagtagaa	13	5	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:43585288G>C	uc002ovi.2	-	2	268	c.175C>G	c.(175-177)CCC>GCC	p.P59A	PSG6_uc010xwk.1_Intron|PSG2_uc002ovr.2_Missense_Mutation_p.P59A|PSG2_uc002ovq.3_Missense_Mutation_p.P59A|PSG2_uc010eiq.1_Missense_Mutation_p.P59A|PSG2_uc002ovs.3_Missense_Mutation_p.P59A|PSG2_uc002ovt.3_Missense_Mutation_p.P59A			Q00889	PSG6_HUMAN	SubName: Full=Putative uncharacterized protein PSG6;	59	Ig-like V-type.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				AGATTCTGGGGCAAATTGTGG	0.448													7	308	---	---	---	---	PASS	C	43585288	C	C	43585288	3	2	145	1	0	0	0	0	1	0	0	0	12659	1203	42	4		4	PSG6	19	43585288	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	145477	43585288	15543695	480	51753										
ZNF230	7773	broad.mit.edu	37	chr19	44514667	44514667	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgccatctttgatcctcctcAgcagttccactcaggagaga	8	13	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:44514667A>T	uc002oyb.1	+	5	727	c.476A>T	c.(475-477)CAG>CTG	p.Q159L		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	159	KRNB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				GATCCTCCTCAGCAGTTCCAC	0.433													95	154	---	---	---	---	PASS	T	44514667	T	T	44514667	3	4	145	1	0	0	0	0	1	0	0	0	17781	188	7	5	490	5	ZNF230	19	44514667	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	929379	44514667	14614316	481	51754										
PNMAL2	57469	broad.mit.edu	37	chr19	46998642	46998642	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tctgcctgctccaggccctcCgggatgccggtgaccagcag	13	16	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:46998642C>A	uc002pes.2	-	1	528	c.81G>T	c.(79-81)CCG>CCT	p.P27P	uc002peu.1_3'UTR	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	27										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		ccaggccctccgggatgccgg	0.065													29	35	---	---	---	---	PASS	A	46998642	A	A	46998642	2	1	145	1	0	0	0	0	0	0	0	1	12158	639	23	1		1	PNMAL2	19	46998642	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	2483975	46998642	12130341	482	51755										
PRKD2	25865	broad.mit.edu	37	chr19	47207526	47207526	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tggatgaggaaggtgtgcggCaccttgaccttggagagcag	17	7	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:47207526C>A	uc002pfh.2	-	6	1131	c.789G>T	c.(787-789)GTG>GTT	p.V263V	PRKD2_uc002pfg.2_Silent_p.V106V|PRKD2_uc002pfi.2_Silent_p.V263V|PRKD2_uc002pfj.2_Silent_p.V263V|PRKD2_uc010xye.1_Silent_p.V263V|PRKD2_uc002pfk.2_Silent_p.V106V	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	263					cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		AGGTGTGCGGCACCTTGACCT	0.597											OREG0025578	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	38	48	---	---	---	---	PASS	A	47207526	A	A	47207526	2	1	145	1	0	0	0	0	0	0	0	1	12519	697	25	3		3	PRKD2	19	47207526	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	208884	47207526	11921457	483	51756										
GRIN2D	2906	broad.mit.edu	37	chr19	48908234	48908234	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccgtgctcagtgcccagctcCgcagtgtcagcgcgcagatc	12	16	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:48908234C>A	uc002pjc.3	+	3	797	c.709C>A	c.(709-711)CGC>AGC	p.R237S		NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	237	Extracellular (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		all_epithelial(76;1.11e-06)|all_lung(116;5.79e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		all cancers(93;0.00014)|OV - Ovarian serous cystadenocarcinoma(262;0.000233)|Epithelial(262;0.0112)|GBM - Glioblastoma multiforme(486;0.0161)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	TGCCCAGCTCCGCAGTGTCAG	0.692													32	49	---	---	---	---	PASS	A	48908234	A	A	48908234	3	1	145	1	0	0	0	0	1	0	0	0	6782	652	23	1	715	1	GRIN2D	19	48908234	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1700708	48908234	10220749	484	51757										
GRIN2D	2906	broad.mit.edu	37	chr19	48922880	48922880	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tcaccattgggaaatccatcTggctgctctgggccctggtg	12	12	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:48922880T>C	uc002pjc.3	+	9	1988	c.1900T>C	c.(1900-1902)TGG>CGG	p.W634R	GRIN2D_uc010elx.2_5'UTR	NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	634	Cytoplasmic (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		all_epithelial(76;1.11e-06)|all_lung(116;5.79e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		all cancers(93;0.00014)|OV - Ovarian serous cystadenocarcinoma(262;0.000233)|Epithelial(262;0.0112)|GBM - Glioblastoma multiforme(486;0.0161)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	GAAATCCATCTGGCTGCTCTG	0.572													39	64	---	---	---	---	PASS	C	48922880	C	C	48922880	3	2	145	1	0	0	0	0	1	0	0	0	6782	1580	55	5	1930	5	GRIN2D	19	48922880	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	14646	48922880	10206103	485	51758										
DBP	1628	broad.mit.edu	37	chr19	49136751	49136751	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgccttcttcatgattggctGgggcttaagttcctcttctg	10	10	4	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:49136751G>C	uc002pjx.3	-	3	1100	c.712C>G	c.(712-714)CAG>GAG	p.Q238E	DBP_uc002pjy.2_3'UTR|DBP_uc010elz.1_Missense_Mutation_p.Q238E	NM_001352	NP_001343	Q10586	DBP_HUMAN	D site of albumin promoter (albumin D-box)	238	Pro-rich (proline/acidic region (PAR)).				regulation of transcription from RNA polymerase II promoter|rhythmic process	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_lung(116;0.000125)|Lung NSC(112;0.000202)|all_epithelial(76;0.000283)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;9.98e-05)|all cancers(93;0.000112)|GBM - Glioblastoma multiforme(486;0.00615)|Epithelial(262;0.0155)		ATGATTGGCTGGGGCTTAAGT	0.537													100	494	---	---	---	---	PASS	C	49136751	C	C	49136751	3	2	145	1	0	0	0	0	1	0	0	0	4256	1357	47	4	273	4	DBP	19	49136751	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	213871	49136751	9992232	486	51759										
TEAD2	8463	broad.mit.edu	37	chr19	49863137	49863137	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atcagacaaaattattttccGgcggccgcagggtggataga	12	8	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:49863137G>A	uc002pnj.2	-	2	287	c.196C>T	c.(196-198)CGG>TGG	p.R66W	TEAD2_uc002png.2_Missense_Mutation_p.R66W|TEAD2_uc002pnh.2_Missense_Mutation_p.R66W|TEAD2_uc002pni.2_Missense_Mutation_p.R66W|TEAD2_uc010yao.1_Intron|TEAD2_uc010emw.2_Missense_Mutation_p.R66W	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	66	TEA.				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		ATTATTTTCCGGCGGCCGCAG	0.557													38	119	---	---	---	---	PASS	A	49863137	A	A	49863137	3	1	145	1	0	0	0	0	1	0	0	0	15736	1115	39	1	1191	1	TEAD2	19	49863137	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	726386	49863137	9265846	487	51760										
IL4I1	259307	broad.mit.edu	37	chr19	50393834	50393834	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcgcgcgcggcagcaggtccCagccacccacgatgcggctg	15	17	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:50393834C>A	uc002pqt.1	-	8	875	c.797G>T	c.(796-798)TGG>TTG	p.W266L	IL4I1_uc002pqv.1_Missense_Mutation_p.W275L|IL4I1_uc010eno.1_Missense_Mutation_p.W274L|IL4I1_uc002pqw.1_Missense_Mutation_p.W274L|IL4I1_uc002pqu.1_Missense_Mutation_p.W288L	NM_152899	NP_690863	Q96RQ9	OXLA_HUMAN	interleukin 4 induced 1 isoform 1 precursor	266						lysosome	L-amino-acid oxidase activity			lung(1)|ovary(1)|prostate(1)	3		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00245)|OV - Ovarian serous cystadenocarcinoma(262;0.0169)		CAGCAGGTCCCAGCCACCCAC	0.736													4	3	---	---	---	---	PASS	A	50393834	A	A	50393834	3	1	145	1	0	0	0	0	1	0	0	0	7697	595	21	3	910	3	IL4I1	19	50393834	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	530697	50393834	8735149	488	51761										
LRRC4B	94030	broad.mit.edu	37	chr19	51021381	51021381	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aagacgaggcagggccggccGcgtccccaggccggccccca	15	18	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:51021381G>A	uc002pss.2	-	3	1726	c.1589C>T	c.(1588-1590)GCG>GTG	p.A530V		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	530	Gly-rich.|Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		AGGGCCGGCCGCGTCCCCAGG	0.736													5	5	---	---	---	---	PASS	A	51021381	A	A	51021381	3	1	145	1	0	0	0	0	1	0	0	0	9007	1087	38	1	556	1	LRRC4B	19	51021381	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	627547	51021381	8107602	489	51762										
CLEC11A	6320	broad.mit.edu	37	chr19	51226814	51226814	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ctggcttttgggggctttggTggtcccccagctcttgggct	15	11	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:51226814T>A	uc002psy.2	+	1	210	c.32T>A	c.(31-33)GTG>GAG	p.V11E		NM_002975	NP_002966	Q9Y240	CLC11_HUMAN	stem cell growth factor precursor	11					positive regulation of cell proliferation	cytoplasm|extracellular region	growth factor activity|sugar binding			ovary(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		GGGGCTTTGGTGGTCCCCCAG	0.418													51	60	---	---	---	---	PASS	A	51226814	A	A	51226814	3	1	145	1	0	0	0	0	1	0	0	0	3496	1696	59	5	34	5	CLEC11A	19	51226814	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	205433	51226814	7902169	490	51763										
KLK13	26085	broad.mit.edu	37	chr19	51559890	51559890	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gctgctgggtttcatattttCggattgtttcacggatccac	10	9	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:51559890C>A	uc002pvn.2	-	5	831	c.788G>T	c.(787-789)CGA>CTA	p.R263L	KLK13_uc002pvl.2_RNA|KLK13_uc002pvm.2_RNA|KLK13_uc002pvo.2_RNA|KLK13_uc002pvp.2_RNA|KLK13_uc010eon.2_Missense_Mutation_p.R190L|KLK13_uc002pvq.2_RNA|KLK13_uc010eoo.2_Missense_Mutation_p.R111L	NM_015596	NP_056411	Q9UKR3	KLK13_HUMAN	kallikrein 13 precursor	263	Peptidase S1.				proteolysis		protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00432)		TTCATATTTTCGGATTGTTTC	0.512													148	228	---	---	---	---	PASS	A	51559890	A	A	51559890	3	1	145	1	0	0	0	0	1	0	0	0	8401	884	31	2	49	2	KLK13	19	51559890	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	333076	51559890	7569093	491	51764										
SIGLEC9	27180	broad.mit.edu	37	chr19	51628465	51628465	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gctccagtggccacaaacaaCccagctcgggcagtgtggga	13	13	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:51628465C>G	uc002pvu.2	+	1	301	c.234C>G	c.(232-234)AAC>AAG	p.N78K	SIGLEC9_uc010yct.1_Missense_Mutation_p.N78K	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	78	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		CCACAAACAACCCAGCTCGGG	0.577													28	68	---	---	---	---	PASS	G	51628465	G	G	51628465	3	3	145	1	0	0	0	0	1	0	0	0	14315	506	18	4	236	4	SIGLEC9	19	51628465	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	68575	51628465	7500518	492	51765										
SIGLEC10	89790	broad.mit.edu	37	chr19	51918132	51918132	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atggacgttccaggcctcacAgcggagcctgaggccggagc	15	13	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:51918132A>T	uc002pwo.2	-	8	2177	c.1561T>A	c.(1561-1563)TGT>AGT	p.C521S	SIGLEC10_uc002pwp.2_Missense_Mutation_p.C463S|SIGLEC10_uc002pwq.2_Intron|SIGLEC10_uc002pwr.2_Intron|SIGLEC10_uc010ycy.1_Intron|SIGLEC10_uc010ycz.1_Intron|SIGLEC10_uc010eow.2_Intron|SIGLEC10_uc002pws.1_Intron	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	521	Extracellular (Potential).				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		CAGGCCTCACAGCGGAGCCTG	0.667													36	119	---	---	---	---	PASS	T	51918132	T	T	51918132	3	4	145	1	0	0	0	0	1	0	0	0	14306	188	7	5	548	5	SIGLEC10	19	51918132	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	289667	51918132	7210851	493	51766										
ZNF320	162967	broad.mit.edu	37	chr19	53385123	53385123	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttctcaatttcctgggagcAaaatgctccaatgtgataac	7	9	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:53385123A>T	uc002qag.2	-	4	447	c.256T>A	c.(256-258)TGC>AGC	p.C86S	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.C32S|ZNF320_uc002qai.2_Missense_Mutation_p.C86S	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	86					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		TCCTGGGAGCAAAATGCTCCA	0.398													128	200	---	---	---	---	PASS	T	53385123	T	T	53385123	3	4	145	1	0	0	0	0	1	0	0	0	17836	130	5	5	1277	5	ZNF320	19	53385123	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	1466991	53385123	5743860	494	51767										
ZNF331	55422	broad.mit.edu	37	chr19	54080616	54080616	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acaagagaattcatagtgggGagaagccttacgagtgtaaa	12	5	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:54080616G>T	uc002qbx.1	+	7	2236	c.802G>T	c.(802-804)GAG>TAG	p.E268*	ZNF331_uc002qby.1_Nonsense_Mutation_p.E268*|ZNF331_uc002qbz.1_Nonsense_Mutation_p.E268*|ZNF331_uc002qca.1_Nonsense_Mutation_p.E268*|ZNF331_uc010eqr.1_Nonsense_Mutation_p.E268*|ZNF331_uc002qcb.1_Nonsense_Mutation_p.E268*|ZNF331_uc002qcc.1_Nonsense_Mutation_p.E268*|ZNF331_uc002qcd.1_Nonsense_Mutation_p.E268*	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	268					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		TCATAGTGGGGAGAAGCCTTA	0.428			T	?	follicular thyroid adenoma								50	93	---	---	---	---	PASS	T	54080616	T	T	54080616	4	4	145	1	0	0	0	0	0	1	0	0	17846	1175	41	2	812	2	ZNF331	19	54080616	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	695493	54080616	5048367	495	51768										
LILRB2	10288	broad.mit.edu	37	chr19	54780770	54780770	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	atgccgatcacaacccccagGtgccttcccagaccttgagc	8	17	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:54780770G>A	uc002qfb.2	-	10	1640	c.1374C>T	c.(1372-1374)CAC>CAT	p.H458H	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Silent_p.H458H|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Silent_p.H457H|LILRB2_uc010yet.1_Silent_p.H342H	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	458	Extracellular (Potential).				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CAACCCCCAGGTGCCTTCCCA	0.323													23	34	---	---	---	---	PASS	A	54780770	A	A	54780770	2	1	145	1	0	0	0	0	0	0	0	1	8791	1252	44	3		3	LILRB2	19	54780770	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	700154	54780770	4348213	496	51769										
LILRA5	353514	broad.mit.edu	37	chr19	54823222	54823222	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tatctccctgcatggtgctcTgtcatggatgggatggagaa	13	8	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:54823222T>C	uc002qfe.2	-	4	441	c.321A>G	c.(319-321)ACA>ACG	p.T107T	LILRA5_uc002qff.2_Silent_p.T95T|LILRA5_uc010yev.1_Silent_p.T107T|LILRA5_uc010yew.1_Silent_p.T95T|LILRA5_uc002qfh.1_Silent_p.T95T|LILRA5_uc002qfg.1_Silent_p.T107T	NM_021250	NP_067073	A6NI73	LIRA5_HUMAN	leukocyte immunoglobulin-like receptor subfamily	107	Extracellular (Potential).|Ig-like C2-type 1.				innate immune response	extracellular region|integral to membrane	receptor activity			upper_aerodigestive_tract(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CATGGTGCTCTGTCATGGATG	0.577													134	220	---	---	---	---	PASS	C	54823222	C	C	54823222	2	2	145	1	0	0	0	0	0	0	0	1	8788	1567	55	5		5	LILRA5	19	54823222	Silent	SNP	T	TCGA-66-2756-01A-01D-1522-08	42452	54823222	4305761	497	51770										
KIR3DL1	3811	broad.mit.edu	37	chr19	55341617	55341617	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tggatcactgcgttttcacaCagagaaaaatcactcgccct	7	12	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:55341617C>A	uc002qhk.3	+	9	1285	c.1222C>A	c.(1222-1224)CAG>AAG	p.Q408K	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_Missense_Mutation_p.Q333K|KIR3DL1_uc010esf.2_Missense_Mutation_p.Q313K|KIR3DL1_uc010yfo.1_Missense_Mutation_p.Q350K|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_5'Flank|KIR2DS4_uc002qhm.1_5'Flank	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	408	Cytoplasmic (Potential).				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		CGTTTTCACACAGAGAAAAAT	0.498													193	327	---	---	---	---	PASS	A	55341617	A	A	55341617	3	1	145	1	0	0	0	0	1	0	0	0	8320	479	17	3	1256	3	KIR3DL1	19	55341617	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	518395	55341617	3787366	498	51771										
NCR1	9437	broad.mit.edu	37	chr19	55418142	55418142	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gctctggtcagagcccagcaActtgctggatctggtggtaa	13	10	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:55418142A>G	uc002qib.2	+	3	370	c.332A>G	c.(331-333)AAC>AGC	p.N111S	NCR1_uc002qic.2_Missense_Mutation_p.N111S|NCR1_uc002qie.2_Missense_Mutation_p.N111S|NCR1_uc002qid.2_Intron|NCR1_uc002qif.2_Intron|NCR1_uc010esj.2_Intron	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1	111	Ig-like 1.|Extracellular (Potential).				cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		GAGCCCAGCAACTTGCTGGAT	0.502													50	79	---	---	---	---	PASS	G	55418142	G	G	55418142	3	3	145	1	0	0	0	0	1	0	0	0	10237	43	2	5	342	5	NCR1	19	55418142	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	76525	55418142	3710841	499	51772										
PTPRH	5794	broad.mit.edu	37	chr19	55715298	55715298	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tctgttctgccaccatctccAgtgcactgaacgcagtaggt	9	13	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:55715298A>T	uc002qjq.2	-	5	811	c.738T>A	c.(736-738)ACT>ACA	p.T246T	PTPRH_uc010esv.2_Intron|PTPRH_uc002qjs.2_Silent_p.T253T	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	246	Extracellular (Potential).|Fibronectin type-III 3.				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)		CACCATCTCCAGTGCACTGAA	0.577													65	92	---	---	---	---	PASS	T	55715298	T	T	55715298	2	4	145	1	0	0	0	0	0	0	0	1	12803	175	7	5		5	PTPRH	19	55715298	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	297156	55715298	3413685	500	51773										
BRSK1	84446	broad.mit.edu	37	chr19	55815127	55815127	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tggaagtcctgagcatcaccGatgccgggggtggtggctcc	16	11	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:55815127G>A	uc002qkg.2	+	12	1496	c.1219G>A	c.(1219-1221)GAT>AAT	p.D407N	BRSK1_uc002qkf.2_Missense_Mutation_p.D423N|BRSK1_uc002qkh.2_Missense_Mutation_p.D102N	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	407					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)		GAGCATCACCGATGCCGGGGG	0.667													29	116	---	---	---	---	PASS	A	55815127	A	A	55815127	3	1	145	1	0	0	0	0	1	0	0	0	1523	1058	37	2	1265	2	BRSK1	19	55815127	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	99829	55815127	3313856	501	51774										
ZNF579	163033	broad.mit.edu	37	chr19	56089943	56089943	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cgaggcacccccgcactccgCcccctcgcccccctccggcc	8	27	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:56089943C>A	uc002qlh.2	-	2	1116	c.1063G>T	c.(1063-1065)GCG>TCG	p.A355S		NM_152600	NP_689813	Q8NAF0	ZN579_HUMAN	zinc finger protein 579	355	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.106)		CCGCACTCCGCCCCCTCGCCC	0.597													2	1	---	---	---	---	PASS	A	56089943	A	A	56089943	3	1	145	1	0	0	0	0	1	0	0	0	18008	739	26	3	629	3	ZNF579	19	56089943	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	274816	56089943	3039040	502	51775										
PEG3	5178	broad.mit.edu	37	chr19	57325172	57325172	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtgctggtgctggcacgttcGatgtagcctgagcactcccc	13	13	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:57325172G>C	uc002qnu.2	-	7	4989	c.4638C>G	c.(4636-4638)ATC>ATG	p.I1546M	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.I1517M|PEG3_uc002qnv.2_Missense_Mutation_p.I1546M|PEG3_uc002qnw.2_Missense_Mutation_p.I1422M|PEG3_uc002qnx.2_Missense_Mutation_p.I1420M|PEG3_uc010etr.2_Missense_Mutation_p.I1546M	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1546					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TGGCACGTTCGATGTAGCCTG	0.517													70	104	---	---	---	---	PASS	C	57325172	C	C	57325172	3	2	145	1	0	0	0	0	1	0	0	0	11720	1048	37	2	132	2	PEG3	19	57325172	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1235229	57325172	1803811	503	51776										
USP29	57663	broad.mit.edu	37	chr19	57641313	57641313	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccaaagtgtttgtttgccctGttgttgctaattttgagttt	9	6	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:57641313G>T	uc002qny.2	+	4	1626	c.1270G>T	c.(1270-1272)GTT>TTT	p.V424F		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	424					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGTTTGCCCTGTTGTTGCTAA	0.388													92	154	---	---	---	---	PASS	T	57641313	T	T	57641313	3	4	145	1	0	0	0	0	1	0	0	0	17056	1377	48	3	1272	3	USP29	19	57641313	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	316141	57641313	1487670	504	51777										
ZIK1	284307	broad.mit.edu	37	chr19	58101882	58101882	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	accatccaagagtctacactGgaaaaaagctttatgagtgt	8	8	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:58101882G>T	uc002qpg.2	+	4	800	c.703G>T	c.(703-705)GGA>TGA	p.G235*	ZNF547_uc002qpm.3_Intron|ZIK1_uc002qph.2_Nonsense_Mutation_p.G180*|ZIK1_uc002qpi.2_Nonsense_Mutation_p.G222*|ZIK1_uc002qpj.2_Nonsense_Mutation_p.G132*	NM_001010879	NP_001010879	Q3SY52	ZIK1_HUMAN	zinc finger protein interacting with K protein	235					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		AGTCTACACTGGAAAAAAGCT	0.468													35	70	---	---	---	---	PASS	T	58101882	T	T	58101882	4	4	145	1	0	0	0	0	0	1	0	0	17680	1349	47	3	717	3	ZIK1	19	58101882	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	460569	58101882	1027101	505	51778										
ZSCAN4	201516	broad.mit.edu	37	chr19	58189414	58189414	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acatggggacaccctcccagActtcccaagatacttcctta	6	15	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr19:58189414A>G	uc002qpu.2	+	4	1226	c.529A>G	c.(529-531)ACT>GCT	p.T177A		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	177					telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ACCCTCCCAGACTTCCCAAGA	0.438													51	70	---	---	---	---	PASS	G	58189414	G	G	58189414	3	3	145	1	0	0	0	0	1	0	0	0	18234	275	10	5	535	5	ZSCAN4	19	58189414	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	87532	58189414	939569	506	51779										
C20orf141	128653	broad.mit.edu	37	chr20	2796245	2796245	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggggccagagtcagggggccGgtgaaggtcctggacagcag	20	9	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr20:2796245G>C	uc010gat.2	+	3	405	c.322G>C	c.(322-324)GGT>CGT	p.G108R	C20orf141_uc002wgv.1_Intron|C20orf141_uc002wgw.2_Missense_Mutation_p.G108R|uc002wgx.1_5'Flank|uc002wgy.1_5'Flank	NM_080739	NP_542777	Q9NUB4	CT141_HUMAN	hypothetical protein LOC128653	108	Leu-rich.					integral to membrane					0						TCAGGGGGCCGGTGAAGGTCC	0.607													29	18	---	---	---	---	PASS	C	2796245	C	C	2796245	3	2	145	1	0	0	0	0	1	0	0	0	2089	1116	39	4	328	4	C20orf141	20	2796245	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08		2796245	60229275	507	51780										
C20orf26	26074	broad.mit.edu	37	chr20	20232368	20232368	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tccacggacgagatcgtgccCtacgaccacctcatcctctg	8	17	2	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr20:20232368C>A	uc002wru.2	+	20	2365	c.2289C>A	c.(2287-2289)CCC>CCA	p.P763P	C20orf26_uc010zse.1_Silent_p.P743P|C20orf26_uc002wrw.2_RNA|C20orf26_uc002wrv.2_Silent_p.P119P	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	763										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		AGATCGTGCCCTACGACCACC	0.587													121	79	---	---	---	---	PASS	A	20232368	A	A	20232368	2	1	145	1	0	0	0	0	0	0	0	1	2106	668	24	3		3	C20orf26	20	20232368	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	17436123	20232368	42793152	508	51781										
ASXL1	171023	broad.mit.edu	37	chr20	31024449	31024449	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttggctctgggaatgtggctGcaacccttcagcgccccagg	13	13	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr20:31024449G>T	uc002wxs.2	+	12	4360	c.3934G>T	c.(3934-3936)GCA>TCA	p.A1312S	ASXL1_uc010geb.2_Missense_Mutation_p.A1203S	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	1312					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding	p.A1312V(1)		haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						GAATGTGGCTGCAACCCTTCA	0.567			F|N|Mis		MDS|CMML								30	81	---	---	---	---	PASS	T	31024449	T	T	31024449	3	4	145	1	0	0	0	0	1	0	0	0	1066	1319	46	3	3990	3	ASXL1	20	31024449	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	10792081	31024449	32001071	509	51782										
GDF5	8200	broad.mit.edu	37	chr20	34021838	34021838	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcaggtgggtggtgtggactCggggtccatggagttcatca	18	7	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr20:34021838C>A	uc002xck.1	-	2	1694	c.1375G>T	c.(1375-1377)GAG>TAG	p.E459*	GDF5_uc010gfc.1_Nonsense_Mutation_p.E459*|uc002xcj.2_Silent_p.L83L|GDF5_uc010zvc.1_Nonsense_Mutation_p.E459*	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	459					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			GGTGTGGACTCGGGGTCCATG	0.582													42	35	---	---	---	---	PASS	A	34021838	A	A	34021838	4	1	145	1	0	0	0	0	0	1	0	0	6316	893	31	2	134	2	GDF5	20	34021838	Nonsense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	2997389	34021838	29003682	510	51783										
ZNF335	63925	broad.mit.edu	37	chr20	44592562	44592562	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gggcctgaggagctgggagcCtcgggatcctgtggctctgg	19	10	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr20:44592562C>A	uc002xqw.2	-	8	1293	c.1170G>T	c.(1168-1170)GAG>GAT	p.E390D	ZNF335_uc010zxk.1_Missense_Mutation_p.E235D	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	390					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				AGCTGGGAGCCTCGGGATCCT	0.627													52	30	---	---	---	---	PASS	A	44592562	A	A	44592562	3	1	145	1	0	0	0	0	1	0	0	0	17849	680	24	3	2942	3	ZNF335	20	44592562	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	10570724	44592562	18432958	511	51784										
RBM38	55544	broad.mit.edu	37	chr20	55966871	55966871	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggcaagtcccgcggctacggCttcgtaagtggcccccgcgc	14	16	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr20:55966871C>T	uc010zzj.1	+	1	409	c.234C>T	c.(232-234)GGC>GGT	p.G78G	RBM38_uc010zzk.1_Silent_p.G78G	NM_017495	NP_059965	Q9H0Z9	RBM38_HUMAN	RNA-binding region containing protein 1 isoform	78	RRM.				3'-UTR-mediated mRNA stabilization|cell cycle|cell cycle arrest|cell differentiation|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 transcription of p21 class mediator|mRNA processing|negative regulation of cell proliferation|regulation of RNA splicing|RNA splicing	cytosol|cytosol|nucleus|nucleus	mRNA 3'-UTR binding|mRNA binding|nucleotide binding|RNA binding				0	Lung NSC(12;0.00242)|all_lung(29;0.00767)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;1.55e-12)|Epithelial(14;9.49e-09)|all cancers(14;5.01e-08)			GCGGCTACGGCTTCGTAAGTg	0.552													5	3	---	---	---	---	PASS	T	55966871	T	T	55966871	2	4	145	1	0	0	0	0	0	0	0	1	13132	784	28	3		3	RBM38	20	55966871	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	11374309	55966871	7058649	512	51785										
KCNQ2	3785	broad.mit.edu	37	chr20	62065179	62065179	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tacctgtacatgggcacggtGaccgttcgctcgtagtactg	12	11	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr20:62065179G>T	uc002yey.1	-	8	1278	c.1101C>A	c.(1099-1101)GTC>GTA	p.V367V	KCNQ2_uc002yez.1_Silent_p.V367V|KCNQ2_uc002yfa.1_Silent_p.V367V|KCNQ2_uc002yfb.1_Silent_p.V367V|KCNQ2_uc011aax.1_Silent_p.V367V|KCNQ2_uc002yfc.1_Silent_p.V367V	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	367	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	TGGGCACGGTGACCGTTCGCT	0.542													113	61	---	---	---	---	PASS	T	62065179	T	T	62065179	2	4	145	1	0	0	0	0	0	0	0	1	8083	1277	45	2		2	KCNQ2	20	62065179	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	6098308	62065179	960341	513	51786										
PCMTD2	55251	broad.mit.edu	37	chr20	62896781	62896781	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgtcatgccactggaagagaAggtcagattcccttcataac	9	10	3	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr20:62896781A>T	uc002yil.3	+	4	781	c.581A>T	c.(580-582)AAG>ATG	p.K194M	PCMTD2_uc002yim.3_Missense_Mutation_p.K194M	NM_018257	NP_060727	Q9NV79	PCMD2_HUMAN	protein-L-isoaspartate (D-aspartate)	194						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					CTGGAAGAGAAGGTCAGATTC	0.284													54	38	---	---	---	---	PASS	T	62896781	T	T	62896781	3	4	145	1	0	0	0	0	1	0	0	0	11587	86	3	5	591	5	PCMTD2	20	62896781	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	831602	62896781	128739	514	51787										
LIPI	149998	broad.mit.edu	37	chr21	15554143	15554143	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	taatctaatctgctatatggTggttttctggagaaccttgg	10	6	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr21:15554143T>A	uc002yjm.2	-	4	652	c.642A>T	c.(640-642)CCA>CCT	p.P214P	LIPI_uc010gkw.1_Silent_p.P147P	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	193					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		TGCTATATGGTGGTTTTCTGG	0.398													41	29	---	---	---	---	PASS	A	15554143	A	A	15554143	2	1	145	1	0	0	0	0	0	0	0	1	8825	1683	59	5		5	LIPI	21	15554143	Silent	SNP	T	TCGA-66-2756-01A-01D-1522-08		15554143	32575752	515	51788										
CLDN17	26285	broad.mit.edu	37	chr21	31538288	31538288	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	taactggtggaggtcttactAagcattgtcgtatttcttcg	10	7	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr21:31538288A>T	uc011acv.1	-	1	648	c.648T>A	c.(646-648)CTT>CTA	p.L216L		NM_012131	NP_036263	P56750	CLD17_HUMAN	claudin 17	216	Cytoplasmic (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						AGGTCTTACTAAGCATTGTCG	0.433													50	130	---	---	---	---	PASS	T	31538288	T	T	31538288	2	4	145	1	0	0	0	0	0	0	0	1	3478	349	13	5		5	CLDN17	21	31538288	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	15984145	31538288	16591607	516	51789										
KRTAP13-1	140258	broad.mit.edu	37	chr21	31768854	31768854	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gttggattctgccgcccaacCtacttggcttctaggagctg	11	12	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr21:31768854C>T	uc002yoa.2	+	1	463	c.450C>T	c.(448-450)ACC>ACT	p.T150T		NM_181599	NP_853630	Q8IUC0	KR131_HUMAN	keratin associated protein 13-1	150						intermediate filament				ovary(1)	1						GCCGCCCAACCTACTTGGCTT	0.517													15	34	---	---	---	---	PASS	T	31768854	T	T	31768854	2	4	145	1	0	0	0	0	0	0	0	1	8522	668	24	3		3	KRTAP13-1	21	31768854	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	230566	31768854	16361041	517	51790										
KRTAP19-5	337972	broad.mit.edu	37	chr21	31874249	31874249	+	Nonsense_Mutation	SNP	C	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tggacggcagctgcggtatcCatagcctccgaagccagagc							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr21:31874249C>A	uc011ada.1	-	1	160	c.160G>T	c.(160-162)GGA>TGA	p.G54*		NM_181611	NP_853642	Q3LI72	KR195_HUMAN	keratin associated protein 19-5	54						intermediate filament	protein binding				0						CTGCGGTATCCATAGCCTCCG	0.537													64	78	---	---	---	---	PASS	A	31874249	A	A	31874249	4	1	145	1	0	0	0	0	0	1	0	0	8532	603	21	3	61	3	KRTAP19-5	21	31874249	Nonsense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	105395	31874249	16255646	518	51791	951	2								
KRTAP19-5	337972	broad.mit.edu	37	chr21	31874250	31874250	+	Nonsense_Mutation	SNP	A	T	T													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggacggcagctgcggtatccAtagcctccgaagccagagcc							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr21:31874250A>T	uc011ada.1	-	1	159	c.159T>A	c.(157-159)TAT>TAA	p.Y53*		NM_181611	NP_853642	Q3LI72	KR195_HUMAN	keratin associated protein 19-5	53						intermediate filament	protein binding				0						TGCGGTATCCATAGCCTCCGA	0.537													64	80	---	---	---	---	PASS	T	31874250	T	T	31874250	4	4	145	1	0	0	0	0	0	1	0	0	8532	224	8	5	62	5	KRTAP19-5	21	31874250	Nonsense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	1	31874250	16255645	519	51792	951	2								
RIPK4	54101	broad.mit.edu	37	chr21	43161307	43161307	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agcagcttgacagtggccagGtgtccgttgcgggcagccag	16	11	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr21:43161307G>A	uc002yzn.1	-	8	2094	c.2046C>T	c.(2044-2046)CAC>CAT	p.H682H		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	682						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						CAGTGGCCAGGTGTCCGTTGC	0.682													40	118	---	---	---	---	PASS	A	43161307	A	A	43161307	2	1	145	1	0	0	0	0	0	0	0	1	13383	1252	44	3		3	RIPK4	21	43161307	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	11287057	43161307	4968588	520	51793										
C21orf29	54084	broad.mit.edu	37	chr21	45987776	45987776	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgggaagctcatggtgcgggGggcggctactgagagctgga	20	7	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr21:45987776G>T	uc002zfe.1	-	2	262	c.196C>A	c.(196-198)CCC>ACC	p.P66T	C21orf29_uc010gpv.1_5'UTR	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	66					cell adhesion	extracellular region	structural molecule activity				0						ATGGTGCGGGGGGCGGCTACT	0.562													46	63	---	---	---	---	PASS	T	45987776	T	T	45987776	3	4	145	1	0	0	0	0	1	0	0	0	2124	1232	43	3	1857	3	C21orf29	21	45987776	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2826469	45987776	2142119	521	51794										
MCM3AP	8888	broad.mit.edu	37	chr21	47676828	47676828	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agccggtcgctcacgtccacGcagcagggcgcagcagggaa	15	14	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr21:47676828G>T	uc002zir.1	-	17	3843	c.3807C>A	c.(3805-3807)TGC>TGA	p.C1269*	MCM3AP_uc002zip.1_Nonsense_Mutation_p.C10*|MCM3AP_uc002ziq.1_Nonsense_Mutation_p.C196*	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1269					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					TCACGTCCACGCAGCAGGGCG	0.642													11	15	---	---	---	---	PASS	T	47676828	T	T	47676828	4	4	145	1	0	0	0	0	0	1	0	0	9388	1079	38	1	2183	1	MCM3AP	21	47676828	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	1689052	47676828	453067	522	51795										
CDC45	8318	broad.mit.edu	37	chr22	19483537	19483537	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tttgactacgagcagtatgaAtatcatgggacatcggtaag	11	6	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr22:19483537A>G	uc002zpr.2	+	7	652	c.576A>G	c.(574-576)GAA>GAG	p.E192E	CDC45_uc011agz.1_Silent_p.E187E|CDC45_uc011aha.1_Silent_p.E224E|CDC45_uc002zps.2_Silent_p.E192E|CDC45_uc002zpt.2_Silent_p.E146E	NM_003504	NP_003495	O75419	CDC45_HUMAN	CDC45-like	192					DNA replication checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	centrosome|nucleoplasm	protein binding			lung(1)	1						AGCAGTATGAATATCATGGGA	0.368													450	126	---	---	---	---	PASS	G	19483537	G	G	19483537	2	3	145	1	0	0	0	0	0	0	0	1	3081	98	4	5		5	CDC45	22	19483537	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08		19483537	31821029	523	51796										
GGT1	2678	broad.mit.edu	37	chr22	25010801	25010801	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccattgcagccctgttgtgtGtggggctcatgaatgcccac	12	12	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr22:25010801G>T	uc003aan.1	+	6	710	c.223G>T	c.(223-225)GTG>TTG	p.V75L	GGT1_uc003aas.1_Missense_Mutation_p.V75L|GGT1_uc003aat.1_Missense_Mutation_p.V75L|GGT1_uc003aau.1_Missense_Mutation_p.V75L|GGT1_uc003aav.1_Missense_Mutation_p.V75L|GGT1_uc003aaw.1_Missense_Mutation_p.V75L|GGT1_uc003aax.1_Missense_Mutation_p.V75L	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor	75	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	CCTGTTGTGTGTGGGGCTCAT	0.607													44	25	---	---	---	---	PASS	T	25010801	T	T	25010801	3	4	145	1	0	0	0	0	1	0	0	0	6361	1377	48	3	229	3	GGT1	22	25010801	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	5527264	25010801	26293765	524	51797										
MYO18B	84700	broad.mit.edu	37	chr22	26342180	26342180	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gcggacctggagagcatgcaCagcgagctggagaacatgac	15	10	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr22:26342180C>G	uc003abz.1	+	35	5845	c.5595C>G	c.(5593-5595)CAC>CAG	p.H1865Q	MYO18B_uc003aca.1_Missense_Mutation_p.H1746Q|MYO18B_uc010guy.1_Missense_Mutation_p.H1747Q|MYO18B_uc010guz.1_Missense_Mutation_p.H1745Q|MYO18B_uc011aka.1_Missense_Mutation_p.H1019Q|MYO18B_uc011akb.1_Missense_Mutation_p.H1378Q	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1865	Tail.|Potential.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						AGAGCATGCACAGCGAGCTGG	0.597													2	4	---	---	---	---	PASS	G	26342180	G	G	26342180	3	3	145	1	0	0	0	0	1	0	0	0	10066	477	17	4	5729	4	MYO18B	22	26342180	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1331379	26342180	24962386	525	51798										
CRYBA4	1413	broad.mit.edu	37	chr22	27024391	27024391	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtccttccacgtccactctgGggcgtaagtgtattcaaggc	11	12	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr22:27024391G>T	uc003acz.3	+	5	475	c.440G>T	c.(439-441)GGG>GTG	p.G147V		NM_001886	NP_001877	P53673	CRBA4_HUMAN	crystallin, beta A4	147	Beta/gamma crystallin 'Greek key' 4.				camera-type eye development|visual perception	soluble fraction	structural constituent of eye lens				0						GTCCACTCTGGGGCGTAAGTG	0.557													34	45	---	---	---	---	PASS	T	27024391	T	T	27024391	3	4	145	1	0	0	0	0	1	0	0	0	3909	1232	43	3	454	3	CRYBA4	22	27024391	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	682211	27024391	24280175	526	51799										
EMID1	129080	broad.mit.edu	37	chr22	29628307	29628307	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tgggcacccctggagagaggGgacctcctgggccaccaggg	17	13	0	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr22:29628307G>T	uc003aen.2	+	8	808	c.733G>T	c.(733-735)GGA>TGA	p.G245*	EMID1_uc003aem.2_Nonsense_Mutation_p.G247*|EMID1_uc003aeo.2_Nonsense_Mutation_p.G247*|EMID1_uc003aep.2_Nonsense_Mutation_p.G247*	NM_133455	NP_597712	Q96A84	EMID1_HUMAN	EMI domain containing 1	245	Collagen-like.					collagen					0						TGGAGAGAGGGGACCTCCTGG	0.697													24	18	---	---	---	---	PASS	T	29628307	T	T	29628307	4	4	145	1	0	0	0	0	0	1	0	0	5091	1233	43	3	769	3	EMID1	22	29628307	Nonsense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	2603916	29628307	21676259	527	51800										
THOC5	8563	broad.mit.edu	37	chr22	29917005	29917005	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	acccaactttatcaaactgaTactgattggctggattcgga	8	9	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr22:29917005T>G	uc003afr.2	-	14	1594	c.1259A>C	c.(1258-1260)TAT>TCT	p.Y420S	THOC5_uc003afq.2_Missense_Mutation_p.Y81S|THOC5_uc003afs.2_Missense_Mutation_p.Y420S|THOC5_uc003aft.2_Missense_Mutation_p.Y420S|THOC5_uc003afu.2_Missense_Mutation_p.Y420S|THOC5_uc010gvo.2_Missense_Mutation_p.Y164S	NM_001002878	NP_001002878	Q13769	THOC5_HUMAN	THO complex 5	420					intronless viral mRNA export from host nucleus|monocyte differentiation|mRNA processing|primitive hemopoiesis|RNA splicing	cytoplasm|intermediate filament cytoskeleton|THO complex part of transcription export complex	protein binding|RNA binding			breast(3)	3						ATCAAACTGATACTGATTGGC	0.458													52	178	---	---	---	---	PASS	G	29917005	G	G	29917005	3	3	145	1	0	0	0	0	1	0	0	0	15865	1406	49	5	824	5	THOC5	22	29917005	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	288698	29917005	21387561	528	51801										
ISX	91464	broad.mit.edu	37	chr22	35478551	35478551	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agggttcgtaccaccttcacCactgagcagctgcatgagct	10	13	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr22:35478551C>A	uc003anj.2	+	2	1221	c.270C>A	c.(268-270)ACC>ACA	p.T90T	ISX_uc011amg.1_Silent_p.T78T	NM_001008494	NP_001008494	Q2M1V0	ISX_HUMAN	intestine-specific homeobox	90	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)	5						CCACCTTCACCACTGAGCAGC	0.567													18	98	---	---	---	---	PASS	A	35478551	A	A	35478551	2	1	145	1	0	0	0	0	0	0	0	1	7865	581	21	3		3	ISX	22	35478551	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	5561546	35478551	15826015	529	51802										
CACNA1I	8911	broad.mit.edu	37	chr22	40080410	40080410	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	agccagaaaggcccagaaaaGggcactggcactggaaccct	12	12	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr22:40080410G>T	uc003ayc.2	+	36	5934	c.5934G>T	c.(5932-5934)AAG>AAT	p.K1978N	CACNA1I_uc003ayd.2_Missense_Mutation_p.K1943N|CACNA1I_uc003aye.2_Missense_Mutation_p.K1893N|CACNA1I_uc003ayf.2_Missense_Mutation_p.K1858N	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1978	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	GCCCAGAAAAGGGCACTGGCA	0.637													7	12	---	---	---	---	PASS	T	40080410	T	T	40080410	3	4	145	1	0	0	0	0	1	0	0	0	2546	991	35	3	6076	3	CACNA1I	22	40080410	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4601859	40080410	11224156	530	51803										
ENTHD1	150350	broad.mit.edu	37	chr22	40139939	40139939	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gaacaggacagagggatgaaCtggtctacattttgggtgga	15	5	1	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr22:40139939C>G	uc003ayg.2	-	7	1820	c.1569G>C	c.(1567-1569)CAG>CAC	p.Q523H		NM_152512	NP_689725	Q8IYW4	ENTD1_HUMAN	ENTH domain containing 1	523										ovary(2)|skin(1)	3	Melanoma(58;0.0749)					GAGGGATGAACTGGTCTACAT	0.408													19	50	---	---	---	---	PASS	G	40139939	G	G	40139939	3	3	145	1	0	0	0	0	1	0	0	0	5137	564	20	4	258	4	ENTHD1	22	40139939	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	59529	40139939	11164627	531	51804										
BRD1	23774	broad.mit.edu	37	chr22	50216868	50216868	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccgccagtcagttccttcacGggctccattttcatgtacag	8	14	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chr22:50216868G>T	uc003biv.2	-	1	1585	c.1098C>A	c.(1096-1098)CCC>CCA	p.P366P	BRD1_uc011arf.1_5'UTR|BRD1_uc011arg.1_Silent_p.P366P|BRD1_uc011arh.1_Silent_p.P366P|BRD1_uc003biu.3_Silent_p.P366P	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	366					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GTTCCTTCACGGGCTCCATTT	0.577													67	86	---	---	---	---	PASS	T	50216868	T	T	50216868	2	4	145	1	0	0	0	0	0	0	0	1	1501	1103	39	1		1	BRD1	22	50216868	Silent	SNP	G	TCGA-66-2756-01A-01D-1522-08	10076929	50216868	1087698	532	51805										
MXRA5	25878	broad.mit.edu	37	chrX	3235239	3235239	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cagtccagcttgagggttccTccgtacctgacgtccgtcct	10	15	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:3235239T>C	uc004crg.3	-	6	6640	c.6483A>G	c.(6481-6483)GGA>GGG	p.G2161G		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2161	Ig-like C2-type 6.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TGAGGGTTCCTCCGTACCTGA	0.687													5	2	---	---	---	---	PASS	C	3235239	C	C	3235239	2	2	145	1	0	0	0	0	0	0	0	1	10003	1538	54	5		5	MXRA5	23	3235239	Silent	SNP	T	TCGA-66-2756-01A-01D-1522-08		3235239	152035321	533	51806										
MXRA5	25878	broad.mit.edu	37	chrX	3238595	3238595	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aggctttccaactgggtttcTtgcctcagggatgttgttat	11	8	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:3238595T>C	uc004crg.3	-	5	5288	c.5131A>G	c.(5131-5133)AGA>GGA	p.R1711G		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1711						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				ACTGGGTTTCTTGCCTCAGGG	0.433													18	106	---	---	---	---	PASS	C	3238595	C	C	3238595	3	2	145	1	0	0	0	0	1	0	0	0	10003	1617	56	5	3367	5	MXRA5	23	3238595	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	3356	3238595	152031965	534	51807										
MAGEB6	158809	broad.mit.edu	37	chrX	26212413	26212413	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gttcctcaggagtctcagggAgcttcacccactggctcgcc	11	15	3	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:26212413A>T	uc004dbr.2	+	2	599	c.450A>T	c.(448-450)GGA>GGT	p.G150G	MAGEB6_uc010ngc.1_5'UTR	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	150	Ser-rich.									ovary(3)	3						AGTCTCAGGGAGCTTCACCCA	0.517													18	9	---	---	---	---	PASS	T	26212413	T	T	26212413	2	4	145	1	0	0	0	0	0	0	0	1	9179	291	11	5		5	MAGEB6	23	26212413	Silent	SNP	A	TCGA-66-2756-01A-01D-1522-08	22973818	26212413	129058147	535	51808										
IL1RAPL1	11141	broad.mit.edu	37	chrX	29972727	29972727	+	Silent	SNP	C	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ggggaagaagaacgttttgcCcttgaaatcctacctgatat							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:29972727C>A	uc004dby.2	+	10	1798	c.1290C>A	c.(1288-1290)GCC>GCA	p.A430A		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	430	Cytoplasmic (Potential).|TIR.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						AACGTTTTGCCCTTGAAATCC	0.348													28	16	---	---	---	---	PASS	A	29972727	A	A	29972727	2	1	145	1	0	0	0	0	0	0	0	1	7661	610	22	3		3	IL1RAPL1	23	29972727	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	3760314	29972727	125297833	536	51809	952	2								
IL1RAPL1	11141	broad.mit.edu	37	chrX	29972728	29972728	+	Missense_Mutation	SNP	C	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gggaagaagaacgttttgccCttgaaatcctacctgatatg							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:29972728C>A	uc004dby.2	+	10	1799	c.1291C>A	c.(1291-1293)CTT>ATT	p.L431I		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	431	Cytoplasmic (Potential).|TIR.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						ACGTTTTGCCCTTGAAATCCT	0.348													29	16	---	---	---	---	PASS	A	29972728	A	A	29972728	3	1	145	1	0	0	0	0	1	0	0	0	7661	681	24	3	1325	3	IL1RAPL1	23	29972728	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1	29972728	125297832	537	51810	952	2								
MAGEB1	4112	broad.mit.edu	37	chrX	30269642	30269642	+	Silent	SNP	C	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gccccattcagcaggtcctcCcaccccatgtgagaactcag							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:30269642C>A	uc004dcc.2	+	4	1352	c.1032C>A	c.(1030-1032)TCC>TCA	p.S344S	MAGEB1_uc004dcd.2_Silent_p.S344S|MAGEB1_uc004dce.2_Silent_p.S344S	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	344											0						GCAGGTCCTCCCACCCCATGT	0.512													12	8	---	---	---	---	PASS	A	30269642	A	A	30269642	2	1	145	1	0	0	0	0	0	0	0	1	9172	610	22	3		3	MAGEB1	23	30269642	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	296914	30269642	125000918	538	51811	953	2								
MAGEB1	4112	broad.mit.edu	37	chrX	30269643	30269643	+	Missense_Mutation	SNP	C	A	A													0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ccccattcagcaggtcctccCaccccatgtgagaactcagg							TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:30269643C>A	uc004dcc.2	+	4	1353	c.1033C>A	c.(1033-1035)CAC>AAC	p.H345N	MAGEB1_uc004dcd.2_Missense_Mutation_p.H345N|MAGEB1_uc004dce.2_Missense_Mutation_p.H345N	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	345											0						CAGGTCCTCCCACCCCATGTG	0.512													13	8	---	---	---	---	PASS	A	30269643	A	A	30269643	3	1	145	1	0	0	0	0	1	0	0	0	9172	594	21	3	1035	3	MAGEB1	23	30269643	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1	30269643	125000917	539	51812	953	2								
FAM47C	442444	broad.mit.edu	37	chrX	37026573	37026573	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aaaccgccttccaagtacttCgcgaagcgcaagcacaggcg	10	14	0	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:37026573C>T	uc004ddl.1	+	1	104	c.90C>T	c.(88-90)TTC>TTT	p.F30F		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	30										ovary(3)	3						CCAAGTACTTCGCGAAGCGCA	0.642													11	19	---	---	---	---	PASS	T	37026573	T	T	37026573	2	4	145	1	0	0	0	0	0	0	0	1	5571	883	31	2		2	FAM47C	23	37026573	Silent	SNP	C	TCGA-66-2756-01A-01D-1522-08	6756930	37026573	118243987	540	51813										
WDR13	64743	broad.mit.edu	37	chrX	48463413	48463413	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	catcgtctggaggcgggagcAgaagtagggtcctgtcggcc	17	10	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:48463413A>T	uc004dkh.1	+	10	1598	c.1451A>T	c.(1450-1452)CAG>CTG	p.Q484L	WDR13_uc004dki.1_Missense_Mutation_p.Q392L|WDR13_uc004dkj.1_Missense_Mutation_p.Q484L|WDR13_uc004dkk.1_Missense_Mutation_p.Q392L|WDR13_uc004dkl.3_Missense_Mutation_p.Q392L	NM_017883	NP_060353	Q9H1Z4	WDR13_HUMAN	WD repeat domain 13 protein	484	WD 5.					cytoplasm|nucleus				ovary(2)	2						AGGCGGGAGCAGAAGTAGGGT	0.602													15	7	---	---	---	---	PASS	T	48463413	T	T	48463413	3	4	145	1	0	0	0	0	1	0	0	0	17272	188	7	5	1485	5	WDR13	23	48463413	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	11436840	48463413	106807147	541	51814										
KIAA2022	340533	broad.mit.edu	37	chrX	73963708	73963708	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tagcttttctgagccggatcCtccaagtcaatgtcaggttt	9	10	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:73963708C>A	uc004eby.2	-	3	1301	c.684G>T	c.(682-684)GAG>GAT	p.E228D		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	228					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GAGCCGGATCCTCCAAGTCAA	0.478													116	45	---	---	---	---	PASS	A	73963708	A	A	73963708	3	1	145	1	0	0	0	0	1	0	0	0	8269	680	24	3	3874	3	KIAA2022	23	73963708	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	25500295	73963708	81306852	542	51815										
P2RY10	27334	broad.mit.edu	37	chrX	78216657	78216657	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgtgatcccagtgatcatcAtcgcatggtgtacctggaaa	10	9	2	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:78216657A>T	uc004ede.2	+	4	1009	c.640A>T	c.(640-642)ATC>TTC	p.I214F	P2RY10_uc004edf.2_Missense_Mutation_p.I214F	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	214	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						AGTGATCATCATCGCATGGTG	0.473													40	24	---	---	---	---	PASS	T	78216657	T	T	78216657	3	4	145	1	0	0	0	0	1	0	0	0	11347	217	8	5	642	5	P2RY10	23	78216657	Missense_Mutation	SNP	A	TCGA-66-2756-01A-01D-1522-08	4252949	78216657	77053903	543	51816										
TBX22	50945	broad.mit.edu	37	chrX	79286062	79286062	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cctctcctttgaactccttaCtttctccactttgcttttca	2	15	3	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:79286062C>A	uc010nmg.1	+	9	1149	c.1015C>A	c.(1015-1017)CTT>ATT	p.L339I	TBX22_uc004edi.1_Missense_Mutation_p.L219I|TBX22_uc004edj.1_Missense_Mutation_p.L339I	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	339					multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						GAACTCCTTACTTTCTCCACT	0.483													106	27	---	---	---	---	PASS	A	79286062	A	A	79286062	3	1	145	1	0	0	0	0	1	0	0	0	15655	565	20	3	1045	3	TBX22	23	79286062	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	1069405	79286062	75984498	544	51817										
PCDH11X	27328	broad.mit.edu	37	chrX	91066259	91066259	+	Translation_Start_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	attgcagagcactatgaggaCtgaacgacagtgggttttaa	12	6	0	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:91066259C>A	uc004efh.1	+	3	510	c.-79C>A	c.(-81--77)GACTG>GAATG			NM_032967	NP_116749	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform b precursor						homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ACTATGAGGACTGAACGACAG	0.388													43	15	---	---	---	---	PASS	A	91066259	A	A	91066259	1	1	145	1	0	0	0	0	0	0	0	0	11508	580	20	3		3	PCDH11X	23	91066259	Translation_Start_Site	SNP	C	TCGA-66-2756-01A-01D-1522-08	11780197	91066259	64204301	545	51818										
TNMD	64102	broad.mit.edu	37	chrX	99854605	99854605	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttgccgccgcgtctgtgaacCtttactaggctactacccat	8	14	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:99854605C>A	uc004efy.3	+	7	1071	c.845C>A	c.(844-846)CCT>CAT	p.P282H	TNMD_uc004efz.2_3'UTR	NM_022144	NP_071427	Q9H2S6	TNMD_HUMAN	tenomodulin	282	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						GTCTGTGAACCTTTACTAGGC	0.502													23	9	---	---	---	---	PASS	A	99854605	A	A	99854605	3	1	145	1	0	0	0	0	1	0	0	0	16319	681	24	3	871	3	TNMD	23	99854605	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	8788346	99854605	55415955	546	51819										
SRPX2	27286	broad.mit.edu	37	chrX	99917334	99917334	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	cggtgcaatgcctgccaagcCgtcgttggtctggaactgcc	13	13	1	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:99917334C>T	uc004egb.2	+	4	805	c.325C>T	c.(325-327)CGT>TGT	p.R109C		NM_014467	NP_055282	O60687	SRPX2_HUMAN	sushi-repeat-containing protein, X-linked 2	109	Sushi 1.				angiogenesis|cell motility|cell-cell adhesion|positive regulation of cell migration involved in sprouting angiogenesis|regulation of phosphorylation	cytoplasm|extracellular region	receptor binding			ovary(2)	2						CCTGCCAAGCCGTCGTTGGTC	0.557													35	42	---	---	---	---	PASS	T	99917334	T	T	99917334	3	4	145	1	0	0	0	0	1	0	0	0	15164	652	23	1	335	1	SRPX2	23	99917334	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	62729	99917334	55353226	547	51820										
GLA	2717	broad.mit.edu	37	chrX	100656649	100656649	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aattttccaaactgtcacagTaacaaccatcaaattttagc	3	10	2	0			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:100656649T>C	uc004ehl.1	-	3	628	c.518A>G	c.(517-519)TAC>TGC	p.Y173C	GLA_uc011mrj.1_Missense_Mutation_p.Y173C	NM_000169	NP_000160	P06280	AGAL_HUMAN	alpha-galactosidase A precursor	173					glycoside catabolic process|glycosphingolipid catabolic process|glycosylceramide catabolic process|negative regulation of nitric oxide biosynthetic process|negative regulation of nitric-oxide synthase activity|oligosaccharide metabolic process	extracellular region|Golgi apparatus|lysosome	cation binding|protein homodimerization activity|raffinose alpha-galactosidase activity|receptor binding				0					Agalsidase beta(DB00103)	ACTGTCACAGTAACAACCATC	0.443													55	94	---	---	---	---	PASS	C	100656649	C	C	100656649	3	2	145	1	0	0	0	0	1	0	0	0	6426	1638	57	5	791	5	GLA	23	100656649	Missense_Mutation	SNP	T	TCGA-66-2756-01A-01D-1522-08	739315	100656649	54613911	548	51821										
ODZ1	10178	broad.mit.edu	37	chrX	123654451	123654451	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	gtagacaagattaattgcggCgggaaaccacttctgtgtga	12	7	1	3			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:123654451C>A	uc004euj.2	-	18	3281	c.3217G>T	c.(3217-3219)GCC>TCC	p.A1073S	ODZ1_uc011muj.1_Missense_Mutation_p.A1072S|ODZ1_uc010nqy.2_Missense_Mutation_p.A1073S	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1073	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TTAATTGCGGCGGGAAACCAC	0.473													119	14	---	---	---	---	PASS	A	123654451	A	A	123654451	3	1	145	1	0	0	0	0	1	0	0	0	10834	768	27	1	5041	1	ODZ1	23	123654451	Missense_Mutation	SNP	C	TCGA-66-2756-01A-01D-1522-08	22997802	123654451	31616109	549	51822										
MAGEA11	4110	broad.mit.edu	37	chrX	148797279	148797279	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	ttcaggtttttagagaacagGccaacctggaggacaggagt	13	7	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:148797279G>T	uc004fdq.2	+	4	310	c.208G>T	c.(208-210)GCC>TCC	p.A70S	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Missense_Mutation_p.A41S	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	70						cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					TAGAGAACAGGCCAACCTGGA	0.507													82	23	---	---	---	---	PASS	T	148797279	T	T	148797279	3	4	145	1	0	0	0	0	1	0	0	0	9165	1203	42	3	231	3	MAGEA11	23	148797279	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	25142828	148797279	6473281	550	51823										
TKTL1	8277	broad.mit.edu	37	chrX	153556267	153556267	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	tccagtgcaaaagccacagaGggccggatcattacagtgga	12	10	1	1			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrX:153556267G>T	uc004fkg.2	+	12	1767	c.1581G>T	c.(1579-1581)GAG>GAT	p.E527D	TKTL1_uc011mzl.1_Missense_Mutation_p.E521D|TKTL1_uc011mzm.1_Missense_Mutation_p.E323D|TKTL1_uc004fkh.2_Missense_Mutation_p.E471D	NM_012253	NP_036385	P51854	TKTL1_HUMAN	transketolase-like 1 isoform a	527					glucose catabolic process|thiamine metabolic process	cytoplasm|nucleus	metal ion binding|transketolase activity			ovary(3)|skin(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.82e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AAGCCACAGAGGGCCGGATCA	0.473													176	34	---	---	---	---	PASS	T	153556267	T	T	153556267	3	4	145	1	0	0	0	0	1	0	0	0	15932	991	35	3	1627	3	TKTL1	23	153556267	Missense_Mutation	SNP	G	TCGA-66-2756-01A-01D-1522-08	4758988	153556267	1714293	551	51824										
RPS4Y2	140032	broad.mit.edu	37	chrY	22918696	22918696	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535055350553506	29	0.127044383017098	1.29231902671951	1.64599144782502	1.10023831525704	0.65982489317682	0.925645401874291	0	aagaagcacttgaagcgtgtTgcagcgccgaagcattggat	13	8	0	2			TCGA-66-2756-01A-01D-1522-08	TCGA-66-2756-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	472c95e6-eccb-4988-be16-fdace73b2ed8	ff4f5936-f847-42ad-aedf-6a6a7fff6002	g.chrY:22918696T>G	uc011nbb.1	+	2	132	c.36T>G	c.(34-36)GTT>GTG	p.V12V		NM_001039567	NP_001034656	Q8TD47	RS4Y2_HUMAN	ribosomal protein S4, Y-linked 2	12					translation	ribosome	rRNA binding|structural constituent of ribosome				0						TGAAGCGTGTTGCAGCGCCGA	0.433													45	6	---	---	---	---	PASS	G	22918696	G	G	22918696	2	3	145	1	0	0	0	0	0	0	0	1	13647	1799	63	5		5	RPS4Y2	24	22918696	Silent	SNP	T	TCGA-66-2756-01A-01D-1522-08		22918696	36454870	552	51825										
KIF1B	23095	broad.mit.edu	37	chr1	10425162	10425162	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tttcctcttgtcttaggtatGcagagaaggagaagaaaaat	10	5	2	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:10425162G>A	uc001aqx.3	+	42	4573	c.4371G>A	c.(4369-4371)ATG>ATA	p.M1457I	KIF1B_uc001aqw.3_Missense_Mutation_p.M1411I|KIF1B_uc001aqy.2_Missense_Mutation_p.M1431I|KIF1B_uc001aqz.2_Missense_Mutation_p.M1457I|KIF1B_uc001ara.2_Missense_Mutation_p.M1417I|KIF1B_uc001arb.2_Missense_Mutation_p.M1443I	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1457					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		TCTTAGGTATGCAGAGAAGGA	0.373													26	39	---	---	---	---	PASS	A	10425162	A	A	10425162	3	1	146	1	0	0	0	0	1	0	0	0	8284	1319	46	3	5876	3	KIF1B	1	10425162	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08		10425162	238825459	1	51826										
CASZ1	54897	broad.mit.edu	37	chr1	10716794	10716794	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agtgctggctgcccgagaacCtggagggaggaggggtgggg	22	7	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:10716794C>G	uc001aro.2	-	8	1730	c.1410_splice	c.e8-1	p.R470_splice	CASZ1_uc001arp.1_Splice_Site_p.R470_splice|CASZ1_uc009vmx.2_Splice_Site_p.R494_splice	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GCCCGAGAACCTGGAGGGAGG	0.532													3	4	---	---	---	---	PASS	G	10716794	G	G	10716794	5	3	146	1	0	0	0	0	0	0	1	0	2685	695	24	4	3930	4	CASZ1	1	10716794	Splice_Site	SNP	C	TCGA-66-2757-01A-01D-1522-08	291632	10716794	238533827	2	51827										
MTOR	2475	broad.mit.edu	37	chr1	11297936	11297936	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cgcaggaaaggcatgacaaaGgcagggttcatgctactgag	14	8	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:11297936G>A	uc001asd.2	-	13	2293	c.2172C>T	c.(2170-2172)GCC>GCT	p.A724A		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	724					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GCATGACAAAGGCAGGGTTCA	0.557													27	44	---	---	---	---	PASS	A	11297936	A	A	11297936	2	1	146	1	0	0	0	0	0	0	0	1	9954	987	35	3		3	MTOR	1	11297936	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	581142	11297936	237952685	3	51828										
CLCN6	1185	broad.mit.edu	37	chr1	11898493	11898493	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acgctgctcaacccgcgcatGatcgtggtgagaagggctgc	14	12	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:11898493G>A	uc001ate.3	+	21	2510	c.2397G>A	c.(2395-2397)ATG>ATA	p.M799I	CLCN6_uc010oat.1_Missense_Mutation_p.M515I|CLCN6_uc010oau.1_Missense_Mutation_p.M777I|CLCN6_uc010oav.1_5'Flank|CLCN6_uc010oaw.1_5'Flank|CLCN6_uc010oax.1_5'Flank|CLCN6_uc010oay.1_5'Flank|CLCN6_uc010oaz.1_5'Flank|CLCN6_uc010oba.1_5'Flank	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	799	Cytoplasmic (By similarity).				cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		ACCCGCGCATGATCGTGGTGA	0.657											OREG0013104	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	25	---	---	---	---	PASS	A	11898493	A	A	11898493	3	1	146	1	0	0	0	0	1	0	0	0	3467	1290	45	2	2489	2	CLCN6	1	11898493	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	600557	11898493	237352128	4	51829										
PRAMEF10	343071	broad.mit.edu	37	chr1	12955401	12955401	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agtcacctcacctggggcgaAccttctgggccaccagtgta	11	14	3	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:12955401A>G	uc001auo.2	-	2	351	c.278T>C	c.(277-279)GTT>GCT	p.V93A		NM_001039361	NP_001034450	O60809	PRA10_HUMAN	PRAME family member 10	93											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCTGGGGCGAACCTTCTGGGC	0.607													12	6	---	---	---	---	PASS	G	12955401	G	G	12955401	3	3	146	1	0	0	0	0	1	0	0	0	12426	43	2	5	1158	5	PRAMEF10	1	12955401	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	1056908	12955401	236295220	5	51830										
SLC25A34	284723	broad.mit.edu	37	chr1	16065173	16065173	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttgtcgtcatgactcccttcGatgtggtcagcacgcggcta	11	12	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:16065173G>T	uc001axb.1	+	4	854	c.682G>T	c.(682-684)GAT>TAT	p.D228Y	SLC25A34_uc009vok.1_5'Flank	NM_207348	NP_997231	Q6PIV7	S2534_HUMAN	solute carrier family 25, member 34	228	Solcar 3.				transport	integral to membrane|mitochondrial inner membrane					0		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.56e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GACTCCCTTCGATGTGGTCAG	0.652													16	39	---	---	---	---	PASS	T	16065173	T	T	16065173	3	4	146	1	0	0	0	0	1	0	0	0	14498	1058	37	2	696	2	SLC25A34	1	16065173	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	3109772	16065173	233185448	6	51831										
RUNX3	864	broad.mit.edu	37	chr1	25229099	25229099	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctctccgtgagggttggcagCgtggggaaggagcggtcaaa	18	8	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:25229099C>A	uc001bjq.2	-	5	1173	c.762G>T	c.(760-762)ACG>ACT	p.T254T	RUNX3_uc010oen.1_Silent_p.T201T|RUNX3_uc009vrj.2_Silent_p.T268T|RUNX3_uc001bjr.2_Silent_p.T268T|RUNX3_uc001bjs.2_RNA	NM_004350	NP_004341	Q13761	RUNX3_HUMAN	runt-related transcription factor 3 isoform 2	254	Pro/Ser/Thr-rich.				cell proliferation|induction of apoptosis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|protein phosphorylation|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00131)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;2.85e-26)|Colorectal(126;4.35e-08)|COAD - Colon adenocarcinoma(152;1.92e-06)|GBM - Glioblastoma multiforme(114;0.000102)|STAD - Stomach adenocarcinoma(196;0.000766)|KIRC - Kidney renal clear cell carcinoma(1967;0.00148)|BRCA - Breast invasive adenocarcinoma(304;0.00173)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.136)		GGGTTGGCAGCGTGGGGAAGG	0.642													3	125	---	---	---	---	PASS	A	25229099	A	A	25229099	2	1	146	1	0	0	0	0	0	0	0	1	13749	755	27	1		1	RUNX3	1	25229099	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	9163926	25229099	224021522	7	51832										
CSMD2	114784	broad.mit.edu	37	chr1	34076683	34076683	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tggccgattctgggagtggtCgctgtggaaatacacggtgg	17	7	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:34076683C>T	uc001bxn.1	-	41	6210	c.6181G>A	c.(6181-6183)GAC>AAC	p.D2061N	CSMD2_uc001bxm.1_Missense_Mutation_p.D2101N|CSMD2_uc001bxo.1_Missense_Mutation_p.D974N	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2061	CUB 12.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TGGGAGTGGTCGCTGTGGAAA	0.567													16	14	---	---	---	---	PASS	T	34076683	T	T	34076683	3	4	146	1	0	0	0	0	1	0	0	0	3945	884	31	2	4398	2	CSMD2	1	34076683	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	8847584	34076683	215173938	8	51833										
SLC1A7	6512	broad.mit.edu	37	chr1	53555558	53555558	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atgaccatggtgacgaggccGgcctgggggatgccagctgc	17	11	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:53555558G>C	uc001cuy.2	-	9	1443	c.1275C>G	c.(1273-1275)GCC>GCG	p.A425A	SLC1A7_uc001cux.2_Silent_p.A78A	NM_006671	NP_006662	O00341	EAA5_HUMAN	solute carrier family 1 (glutamate transporter),	425	Helical; (Potential).					integral to membrane|plasma membrane	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|large_intestine(1)	3				Colorectal(1306;0.234)	L-Glutamic Acid(DB00142)	TGACGAGGCCGGCCTGGGGGA	0.627													28	49	---	---	---	---	PASS	C	53555558	C	C	53555558	2	2	146	1	0	0	0	0	0	0	0	1	14437	1103	39	4		4	SLC1A7	1	53555558	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	19478875	53555558	195695063	9	51834										
C1orf173	127254	broad.mit.edu	37	chr1	75037105	75037105	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gggctcctggagtgcccaccCcagcctctgttgtatatgtc	11	14	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:75037105C>A	uc001dgg.2	-	14	4508	c.4289G>T	c.(4288-4290)GGG>GTG	p.G1430V		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1430	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						AGTGCCCACCCCAGCCTCTGT	0.607													50	145	---	---	---	---	PASS	A	75037105	A	A	75037105	3	1	146	1	0	0	0	0	1	0	0	0	2014	623	22	3	307	3	C1orf173	1	75037105	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	21481547	75037105	174213516	10	51835										
FAM73A	374986	broad.mit.edu	37	chr1	78268972	78268972	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	taggttcaagttgttccagtAgcagacagaatttgacatta	9	6	1	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:78268972A>G	uc001dhx.2	+	4	423	c.391A>G	c.(391-393)AGC>GGC	p.S131G	FAM73A_uc010ork.1_Missense_Mutation_p.S131G|FAM73A_uc010orl.1_Missense_Mutation_p.S93G|FAM73A_uc001dhy.1_5'UTR	NM_198549	NP_940951	Q8NAN2	FA73A_HUMAN	hypothetical protein LOC374986	131						integral to membrane				ovary(1)	1				Colorectal(170;0.226)		TTGTTCCAGTAGCAGACAGAA	0.284													6	101	---	---	---	---	PASS	G	78268972	G	G	78268972	3	3	146	1	0	0	0	0	1	0	0	0	5617	420	15	5	405	5	FAM73A	1	78268972	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	3231867	78268972	170981649	11	51836										
CD53	963	broad.mit.edu	37	chr1	111435128	111435128	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctgggctgcatgggctctatCaaggaaaacaagtgtctgct	12	9	3	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:111435128C>A	uc001dzw.2	+	4	396	c.225C>A	c.(223-225)ATC>ATA	p.I75I	CD53_uc001dzx.2_Silent_p.I75I|CD53_uc010owa.1_Silent_p.I75I|CD53_uc001dzy.2_Silent_p.I75I	NM_001040033	NP_001035122	P19397	CD53_HUMAN	CD53 antigen	75	Cytoplasmic (Potential).				signal transduction	integral to membrane|plasma membrane					0		all_cancers(81;1.06e-05)|all_epithelial(167;1.95e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0264)|Colorectal(144;0.0375)|all cancers(265;0.11)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.141)|LUSC - Lung squamous cell carcinoma(189;0.144)		TGGGCTCTATCAAGGAAAACA	0.517													5	243	---	---	---	---	PASS	A	111435128	A	A	111435128	2	1	146	1	0	0	0	0	0	0	0	1	3023	816	29	2		2	CD53	1	111435128	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	33166156	111435128	137815493	12	51837										
GJA8	2703	broad.mit.edu	37	chr1	147380119	147380119	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tcctggggaacatcttggagGaggtgaatgagcactccacc	13	10	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:147380119G>T	uc001epu.1	+	2	100	c.37G>T	c.(37-39)GAG>TAG	p.E13*		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	13	Cytoplasmic (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					CATCTTGGAGGAGGTGAATGA	0.577													34	111	---	---	---	---	PASS	T	147380119	T	T	147380119	4	4	146	1	0	0	0	0	0	1	0	0	6405	1175	41	2	39	2	GJA8	1	147380119	Nonsense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	35944991	147380119	101870502	13	51838										
NES	10763	broad.mit.edu	37	chr1	156639573	156639573	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcacccctcaagctgtcatcCcaggggacactgacactcac	8	17	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:156639573C>G	uc001fpq.2	-	4	4540	c.4407G>C	c.(4405-4407)TGG>TGC	p.W1469C		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	1469	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGCTGTCATCCCAGGGGACAC	0.612													30	35	---	---	---	---	PASS	G	156639573	G	G	156639573	3	3	146	1	0	0	0	0	1	0	0	0	10337	624	22	4	462	4	NES	1	156639573	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	9259454	156639573	92611048	14	51839										
OR6K3	391114	broad.mit.edu	37	chr1	158687756	158687756	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttgtggagatgggtgtccagCcttacagcagagaagattaa	13	6	0	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:158687756C>G	uc010pip.1	-	1	198	c.198G>C	c.(196-198)AGG>AGC	p.R66S		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	66	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					GGGTGTCCAGCCTTACAGCAG	0.398													114	200	---	---	---	---	PASS	G	158687756	G	G	158687756	3	3	146	1	0	0	0	0	1	0	0	0	11203	738	26	4	799	4	OR6K3	1	158687756	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	2048183	158687756	90562865	15	51840										
SLAMF6	114836	broad.mit.edu	37	chr1	160466051	160466051	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggggtactatgaaggcaagaGatgtttcattgaaaagccaa	12	5	1	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:160466051G>T	uc001fwe.1	-	2	242	c.182C>A	c.(181-183)TCT>TAT	p.S61Y	SLAMF6_uc001fwd.1_Missense_Mutation_p.S61Y|SLAMF6_uc010pjh.1_Intron|SLAMF6_uc010pji.1_Intron|SLAMF6_uc010pjj.1_Intron|SLAMF6_uc009wtm.1_Intron	NM_052931	NP_443163	Q96DU3	SLAF6_HUMAN	activating NK receptor precursor	61	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	all_cancers(52;1.05e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0923)			GAAGGCAAGAGATGTTTCATT	0.478													145	220	---	---	---	---	PASS	T	160466051	T	T	160466051	3	4	146	1	0	0	0	0	1	0	0	0	14368	942	33	2	844	2	SLAMF6	1	160466051	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	1778295	160466051	88784570	16	51841										
NOS1AP	9722	broad.mit.edu	37	chr1	162302887	162302887	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tggtgccagcaatatcttcaGgtgtaacgtctttaaatcca	8	9	3	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:162302887G>C	uc001gbv.2	+	5	812	c.425G>C	c.(424-426)AGG>ACG	p.R142T	NOS1AP_uc010pkr.1_Missense_Mutation_p.R137T|NOS1AP_uc010pks.1_RNA|NOS1AP_uc001gbw.2_Missense_Mutation_p.R137T	NM_014697	NP_055512	O75052	CAPON_HUMAN	nitric oxide synthase 1 (neuronal) adaptor	142	PID.				regulation of apoptosis|regulation of nitric oxide biosynthetic process|regulation of nitric-oxide synthase activity		nitric-oxide synthase binding|PDZ domain binding			lung(2)|upper_aerodigestive_tract(1)	3	all_hematologic(112;0.203)		BRCA - Breast invasive adenocarcinoma(70;0.0537)			AATATCTTCAGGTGTAACGTC	0.448													49	74	---	---	---	---	PASS	C	162302887	C	C	162302887	3	2	146	1	0	0	0	0	1	0	0	0	10542	1000	35	4	443	4	NOS1AP	1	162302887	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	1836836	162302887	86947734	17	51842										
SELP	6403	broad.mit.edu	37	chr1	169586442	169586442	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cctttttggttcccacccatGtccatgtcttattgttcttt	5	12	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:169586442G>A	uc001ggi.3	-	3	370	c.305C>T	c.(304-306)ACA>ATA	p.T102I	SELP_uc001ggh.2_5'UTR|SELP_uc009wvr.2_Missense_Mutation_p.T102I	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	102	Extracellular (Potential).|C-type lectin.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	TCCCACCCATGTCCATGTCTT	0.443													172	228	---	---	---	---	PASS	A	169586442	A	A	169586442	3	1	146	1	0	0	0	0	1	0	0	0	14019	1377	48	3	2243	3	SELP	1	169586442	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	7283555	169586442	79664179	18	51843										
TNR	7143	broad.mit.edu	37	chr1	175375773	175375773	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agctgacactctgaaggcttGatcatggagcccagaaggat	12	9	2	4			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:175375773G>C	uc001gkp.1	-	1	159	c.78C>G	c.(76-78)ATC>ATG	p.I26M	TNR_uc009wwu.1_Missense_Mutation_p.I26M|TNR_uc010pmz.1_Missense_Mutation_p.I26M	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	26					axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CTGAAGGCTTGATCATGGAGC	0.532													116	166	---	---	---	---	PASS	C	175375773	C	C	175375773	3	2	146	1	0	0	0	0	1	0	0	0	16335	1280	45	2	4082	2	TNR	1	175375773	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	5789331	175375773	73874848	19	51844										
RNASEL	6041	broad.mit.edu	37	chr1	182544550	182544550	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcacccagggctggccaaccCactggccccaccagctccat	9	20	0	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:182544550C>A	uc001gpj.1	-	6	2370	c.2203G>T	c.(2203-2205)GGG>TGG	p.G735W	RNASEL_uc009wxz.1_Missense_Mutation_p.G735W	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	735					mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						CTGGCCAACCCACTGGCCCCA	0.383									Hereditary_Prostate_Cancer				63	141	---	---	---	---	PASS	A	182544550	A	A	182544550	3	1	146	1	0	0	0	0	1	0	0	0	13416	594	21	3	26	3	RNASEL	1	182544550	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	7168777	182544550	66706071	20	51845										
SMG7	9887	broad.mit.edu	37	chr1	183498558	183498558	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atgaggtgaaaaccaagtggGgtgtttctgacttcatcaag	12	6	3	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:183498558G>C	uc001gqg.2	+	8	855	c.733G>C	c.(733-735)GGT>CGT	p.G245R	SMG7_uc010pob.1_Missense_Mutation_p.G274R|SMG7_uc001gqf.2_Missense_Mutation_p.G245R|SMG7_uc001gqh.2_Missense_Mutation_p.G245R|SMG7_uc001gqi.2_Missense_Mutation_p.G203R|SMG7_uc010poc.1_Missense_Mutation_p.G203R	NM_173156	NP_775179	Q92540	SMG7_HUMAN	SMG-7 homolog isoform 1	245					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|intermediate filament cytoskeleton|nucleus	protein phosphatase 2A binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						AACCAAGTGGGGTGTTTCTGA	0.418													9	201	---	---	---	---	PASS	C	183498558	C	C	183498558	3	2	146	1	0	0	0	0	1	0	0	0	14798	1232	43	4	763	4	SMG7	1	183498558	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	954008	183498558	65752063	21	51846										
UCHL5	51377	broad.mit.edu	37	chr1	193018982	193018982	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aaattaacccatgaactggcCtacaaaataaaatacaaatt	3	8	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:193018982C>A	uc001gsm.2	-	3	272	c.141_splice	c.e3-1	p.K47_splice	UCHL5_uc001gsn.2_Splice_Site|UCHL5_uc001gso.2_Splice_Site_p.K47_splice|UCHL5_uc010pov.1_Splice_Site|UCHL5_uc001gsp.2_Splice_Site_p.K47_splice|UCHL5_uc001gsq.2_Splice_Site_p.K47_splice|UCHL5_uc010pow.1_Splice_Site|UCHL5_uc010pox.1_Intron	NM_015984	NP_057068	Q9Y5K5	UCHL5_HUMAN	ubiquitin carboxyl-terminal hydrolase L5						DNA recombination|DNA repair|protein deubiquitination|regulation of proteasomal protein catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytosol|Ino80 complex|proteasome complex	endopeptidase inhibitor activity|omega peptidase activity|proteasome binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|ovary(1)	3						ATGAACTGGCCTACAAAATAA	0.343													23	49	---	---	---	---	PASS	A	193018982	A	A	193018982	5	1	146	1	0	0	0	0	0	0	1	0	16919	695	24	3	885	3	UCHL5	1	193018982	Splice_Site	SNP	C	TCGA-66-2757-01A-01D-1522-08	9520424	193018982	56231639	22	51847										
CAMK1G	57172	broad.mit.edu	37	chr1	209786165	209786165	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggtcatggtaccagttaaagCcagtggcagctcccactgcc	11	13	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:209786165C>G	uc001hhd.2	+	12	1478	c.1376C>G	c.(1375-1377)GCC>GGC	p.A459G	CAMK1G_uc001hhe.2_Missense_Mutation_p.A459G	NM_020439	NP_065172	Q96NX5	KCC1G_HUMAN	calcium/calmodulin-dependent protein kinase IG	459						Golgi membrane|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0475)		CCAGTTAAAGCCAGTGGCAGC	0.507													23	64	---	---	---	---	PASS	G	209786165	G	G	209786165	3	3	146	1	0	0	0	0	1	0	0	0	2598	739	26	4	1418	4	CAMK1G	1	209786165	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	16767183	209786165	39464456	23	51848										
SYT14	255928	broad.mit.edu	37	chr1	210126103	210126103	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cttatctgtattagaaaaggTaagtcattgctctgcatggc	9	7	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:210126103T>A	uc009xcv.2	+	2	133	c.61_splice	c.e2+2	p.V21_splice	SYT14_uc001hhs.3_Splice_Site_p.K25_splice|SYT14_uc001hht.3_Splice_Site_p.V21_splice|SYT14_uc001hhu.3_Splice_Site|SYT14_uc010psn.1_Splice_Site_p.K25_splice|SYT14_uc010pso.1_Splice_Site	NM_153262	NP_694994	Q8NB59	SYT14_HUMAN	synaptotagmin XIV isoform 4							integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)		TTAGAAAAGGTAAGTCATTGC	0.318													9	108	---	---	---	---	PASS	A	210126103	A	A	210126103	5	1	146	1	0	0	0	0	0	0	1	0	15467	1652	57	5	83	5	SYT14	1	210126103	Splice_Site	SNP	T	TCGA-66-2757-01A-01D-1522-08	339938	210126103	39124518	24	51849										
EPRS	2058	broad.mit.edu	37	chr1	220153444	220153444	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tacctggatagctcttccacTagcagatataaatgcttcta	6	10	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:220153444T>G	uc001hly.1	-	26	3964	c.3694A>C	c.(3694-3696)AGT>CGT	p.S1232R		NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	1232	Prolyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	GCTCTTCCACTAGCAGATATA	0.408													22	357	---	---	---	---	PASS	G	220153444	G	G	220153444	3	3	146	1	0	0	0	0	1	0	0	0	5191	1522	53	5	872	5	EPRS	1	220153444	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	10027341	220153444	29097177	25	51850										
C1orf65	164127	broad.mit.edu	37	chr1	223568525	223568525	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aggccattaagaaaaaggagCagagggtgcagcacatttcc	12	8	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:223568525C>A	uc001hoa.2	+	1	1811	c.1708C>A	c.(1708-1710)CAG>AAG	p.Q570K		NM_152610	NP_689823	Q8N715	CA065_HUMAN	hypothetical protein LOC164127	570	Potential.									central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0704)		GAAAAAGGAGCAGAGGGTGCA	0.532													19	51	---	---	---	---	PASS	A	223568525	A	A	223568525	3	1	146	1	0	0	0	0	1	0	0	0	2055	711	25	3	1710	3	C1orf65	1	223568525	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	3415081	223568525	25682096	26	51851										
SDCCAG8	10806	broad.mit.edu	37	chr1	243504391	243504391	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctggaggcccaggtggaaaaGgttacaaaggaaaagatttc	13	6	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr1:243504391G>A	uc001hzw.2	+	11	1428	c.1272G>A	c.(1270-1272)AAG>AAA	p.K424K	SDCCAG8_uc010pyk.1_Silent_p.K279K|SDCCAG8_uc010pyl.1_Silent_p.K236K|SDCCAG8_uc001hzx.2_Silent_p.K236K	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	424	Potential.|Sufficient for homodimerization (By similarity).				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		AGGTGGAAAAGGTTACAAAGG	0.383													65	101	---	---	---	---	PASS	A	243504391	A	A	243504391	2	1	146	1	0	0	0	0	0	0	0	1	13959	991	35	3		3	SDCCAG8	1	243504391	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	19935866	243504391	5746230	27	51852										
ALLC	55821	broad.mit.edu	37	chr2	3743381	3743381	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	caactgaccccaaagaacctGcagacctagtggccatcgct	8	15	0	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:3743381G>T	uc010ewt.2	+	8	747	c.586G>T	c.(586-588)GCA>TCA	p.A196S	ALLC_uc002qyf.2_5'UTR	NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	215							allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)		CAAAGAACCTGCAGACCTAGT	0.433										HNSCC(21;0.051)			25	36	---	---	---	---	PASS	T	3743381	T	T	3743381	3	4	146	1	0	0	0	0	1	0	0	0	534	1319	46	3	612	3	ALLC	2	3743381	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08		3743381	239455992	28	51853										
PPM1G	5496	broad.mit.edu	37	chr2	27607803	27607803	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gtcctcaggtcctgcctcccCattgaggccctgggaccctg	11	17	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:27607803C>A	uc002rkl.2	-	6	669	c.562G>T	c.(562-564)GGG>TGG	p.G188W	PPM1G_uc002rkm.2_Intron	NM_002707	NP_002698	O15355	PPM1G_HUMAN	protein phosphatase 1G	188					cell cycle arrest|protein dephosphorylation	cytoplasm|nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					CCTGCCTCCCCATTGAGGCCC	0.592													81	130	---	---	---	---	PASS	A	27607803	A	A	27607803	3	1	146	1	0	0	0	0	1	0	0	0	12340	594	21	3	1102	3	PPM1G	2	27607803	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	23864422	27607803	215591570	29	51854										
C2orf71	388939	broad.mit.edu	37	chr2	29296801	29296801	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aacggaatatccttagccatGtggctttgtgatttgttcag	10	7	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:29296801G>T	uc002rmt.1	-	1	327	c.327C>A	c.(325-327)CAC>CAA	p.H109Q		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	109					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						CCTTAGCCATGTGGCTTTGTG	0.468													117	163	---	---	---	---	PASS	T	29296801	T	T	29296801	3	4	146	1	0	0	0	0	1	0	0	0	2191	1368	48	3	3547	3	C2orf71	2	29296801	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	1688998	29296801	213902572	30	51855										
MSH6	2956	broad.mit.edu	37	chr2	48026011	48026011	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgaacagccctgtcaaagttGctcgaaagcggaagagaatg	12	8	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:48026011G>A	uc002rwd.3	+	4	1041	c.889G>A	c.(889-891)GCT>ACT	p.A297T	MSH6_uc002rwc.2_Missense_Mutation_p.A297T|MSH6_uc010fbj.2_5'UTR|MSH6_uc010yoi.1_Missense_Mutation_p.A167T|MSH6_uc010yoj.1_5'UTR	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	297					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TGTCAAAGTTGCTCGAAAGCG	0.478			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				105	160	---	---	---	---	PASS	A	48026011	A	A	48026011	3	1	146	1	0	0	0	0	1	0	0	0	9874	1319	46	3	903	3	MSH6	2	48026011	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	18729210	48026011	195173362	31	51856										
LHCGR	3973	broad.mit.edu	37	chr2	48915454	48915454	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggcaacatagcaattagagaAgaaaagagccatcctccaag	9	9	0	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:48915454A>G	uc002rwu.3	-	11	1552	c.1482T>C	c.(1480-1482)TCT>TCC	p.S494S	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	494	Helical; Name=4; (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	CAATTAGAGAAGAAAAGAGCC	0.443									Familial_Male-Limited_Precocious_Puberty				53	79	---	---	---	---	PASS	G	48915454	G	G	48915454	2	3	146	1	0	0	0	0	0	0	0	1	8762	59	3	5		5	LHCGR	2	48915454	Silent	SNP	A	TCGA-66-2757-01A-01D-1522-08	889443	48915454	194283919	32	51857										
RTN4	57142	broad.mit.edu	37	chr2	55253585	55253585	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tcctgtactaaatctggagtCaggccttcaggcatgtttgc	10	10	3	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:55253585C>G	uc002rye.2	-	3	1948	c.1650G>C	c.(1648-1650)CTG>CTC	p.L550L	RTN4_uc002ryd.2_Silent_p.L344L|RTN4_uc002ryf.2_Intron|RTN4_uc002ryg.2_Intron	NM_020532	NP_065393	Q9NQC3	RTN4_HUMAN	reticulon 4 isoform A	550	Cytoplasmic (Potential).				apoptosis|axonal fasciculation|cerebral cortex radial glia guided migration|endoplasmic reticulum tubular network organization|negative regulation of anti-apoptosis|negative regulation of axon extension|nerve growth factor receptor signaling pathway|regulation of apoptosis|regulation of branching morphogenesis of a nerve|regulation of cell migration	integral to endoplasmic reticulum membrane|nuclear envelope|plasma membrane	protein binding			ovary(2)|large_intestine(1)	3						AATCTGGAGTCAGGCCTTCAG	0.393													80	124	---	---	---	---	PASS	G	55253585	G	G	55253585	2	3	146	1	0	0	0	0	0	0	0	1	13728	813	29	2		2	RTN4	2	55253585	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	6338131	55253585	187945788	33	51858										
LRRTM4	80059	broad.mit.edu	37	chr2	77746748	77746748	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccatataagctggttaaggcCggcaaactgattggatttga	11	7	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:77746748C>A	uc002snr.2	-	3	662	c.247G>T	c.(247-249)GGC>TGC	p.G83C	LRRTM4_uc002snq.2_Missense_Mutation_p.G83C|LRRTM4_uc002sns.2_Missense_Mutation_p.G83C|LRRTM4_uc002snt.2_Missense_Mutation_p.G84C	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	83	LRR 1.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TGGTTAAGGCCGGCAAACTGA	0.403													50	98	---	---	---	---	PASS	A	77746748	A	A	77746748	3	1	146	1	0	0	0	0	1	0	0	0	9042	652	23	1	1539	1	LRRTM4	2	77746748	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	22493163	77746748	165452625	34	51859										
LRRTM1	347730	broad.mit.edu	37	chr2	80530767	80530767	+	Frame_Shift_Del	DEL	C	-	-													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gccggacaggttgtggggcgCctcggtgaggttgagcgcct							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:80530767delC	uc002sok.1	-	2	448	c.178delG	c.(178-180)GCGfs	p.A60fs	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	60	LRRNT.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						TTGTGGGGCGCCTCGGTGAGG	0.701										HNSCC(69;0.2)			50	26	---	---	---	---		-	80530767	-	-	80530767	7	5	146	1	0	1	0	1	0	0	0	0	9039	739	26	0	1394	0	LRRTM1	2	80530767	Frame_Shift_Del	DEL	C	TCGA-66-2757-01A-01D-1522-08	2784019	80530767	162668606	35	51860										
IMMT	10989	broad.mit.edu	37	chr2	86378604	86378604	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	caatacgacgatgtgcatgaGcaatgagggagttcagatca	12	7	2	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:86378604G>C	uc002sqz.3	-	12	1605	c.1217C>G	c.(1216-1218)GCT>GGT	p.A406G	IMMT_uc002sqy.3_Missense_Mutation_p.A147G|IMMT_uc002srb.3_Missense_Mutation_p.A395G|IMMT_uc002sra.3_Missense_Mutation_p.A405G|IMMT_uc010ytd.1_Missense_Mutation_p.A394G|IMMT_uc010yte.1_Missense_Mutation_p.A359G|IMMT_uc002src.1_Missense_Mutation_p.A142G	NM_006839	NP_006830	Q16891	IMMT_HUMAN	inner membrane protein, mitochondrial isoform 1	406	Mitochondrial intermembrane (Potential).					integral to mitochondrial inner membrane	protein binding			skin(1)	1						ATGTGCATGAGCAATGAGGGA	0.428													6	105	---	---	---	---	PASS	C	86378604	C	C	86378604	3	2	146	1	0	0	0	0	1	0	0	0	7718	971	34	4	1075	4	IMMT	2	86378604	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	5847837	86378604	156820769	36	51861										
GPR17	2840	broad.mit.edu	37	chr2	128408686	128408686	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctacttcctcacctgcatcaGcgccgaccgtttcctggcca	7	18	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:128408686G>A	uc010yzn.1	+	4	1072	c.461G>A	c.(460-462)AGC>AAC	p.S154N	LIMS2_uc002tow.2_5'Flank|LIMS2_uc002tox.2_Intron|LIMS2_uc010fmb.2_Intron|LIMS2_uc002toy.2_Intron|LIMS2_uc010yzm.1_Intron|LIMS2_uc002tpa.2_Intron|LIMS2_uc002toz.2_Intron|LIMS2_uc002tpb.2_Intron|GPR17_uc002tpc.2_Missense_Mutation_p.S154N|GPR17_uc010yzo.1_Missense_Mutation_p.S126N|GPR17_uc002tpd.2_Missense_Mutation_p.S126N	NM_001161415	NP_001154887	Q13304	GPR17_HUMAN	G protein-coupled receptor 17 isoform a	154	Helical; Name=3; (Potential).					integral to plasma membrane	chemokine receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	Colorectal(110;0.1)	Ovarian(717;0.15)		BRCA - Breast invasive adenocarcinoma(221;0.0677)		ACCTGCATCAGCGCCGACCGT	0.602													50	81	---	---	---	---	PASS	A	128408686	A	A	128408686	3	1	146	1	0	0	0	0	1	0	0	0	6667	971	34	3	467	3	GPR17	2	128408686	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	42030082	128408686	114790687	37	51862										
ARHGEF4	50649	broad.mit.edu	37	chr2	131688620	131688620	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cctgcccagaagccctgcttCaccactgacatggtgacatg	9	15	1	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:131688620C>A	uc002tsa.1	+	3	610	c.90C>A	c.(88-90)TTC>TTA	p.F30L	ARHGEF4_uc010fmw.1_Missense_Mutation_p.F676L|ARHGEF4_uc002tsb.1_Missense_Mutation_p.F30L|ARHGEF4_uc010fmx.1_Missense_Mutation_p.F30L|ARHGEF4_uc002trz.1_Missense_Mutation_p.F676L	NM_015320	NP_056135	Q9NR80	ARHG4_HUMAN	Rho guanine nucleotide exchange factor 4 isoform	30					apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|lamellipodium assembly|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|ruffle membrane	protein domain specific binding|Rac guanyl-nucleotide exchange factor activity			breast(3)|ovary(2)|skin(1)	6		Prostate(154;0.055)		BRCA - Breast invasive adenocarcinoma(221;0.097)		AGCCCTGCTTCACCACTGACA	0.612													35	54	---	---	---	---	PASS	A	131688620	A	A	131688620	3	1	146	1	0	0	0	0	1	0	0	0	908	825	29	2	92	2	ARHGEF4	2	131688620	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	3279934	131688620	111510753	38	51863										
THSD7B	80731	broad.mit.edu	37	chr2	138163301	138163301	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccatgtcgagaagactgcacCttcactgcttggtccaagtt	9	12	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:138163301C>G	uc002tva.1	+	12	2526	c.2526C>G	c.(2524-2526)ACC>ACG	p.T842T	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Silent_p.T732T	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AAGACTGCACCTTCACTGCTT	0.498													10	31	---	---	---	---	PASS	G	138163301	G	G	138163301	2	3	146	1	0	0	0	0	0	0	0	1	15877	668	24	4		4	THSD7B	2	138163301	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	6474681	138163301	105036072	39	51864										
NEB	4703	broad.mit.edu	37	chr2	152529031	152529031	+	Frame_Shift_Del	DEL	G	-	-													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgatgctaaccatgtccccaGgggtatggtagctggttttg							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:152529031delG	uc010fnx.2	-	37	4342	c.4151delC	c.(4150-4152)CCTfs	p.P1384fs		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1384	Nebulin 35.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CATGTCCCCAGGGGTATGGTA	0.468													128	78	---	---	---	---		-	152529031	-	-	152529031	7	5	146	1	0	1	0	1	0	0	0	0	10302	1000	35	0	22119	0	NEB	2	152529031	Frame_Shift_Del	DEL	G	TCGA-66-2757-01A-01D-1522-08	14365730	152529031	90670342	40	51865										
SCN3A	6328	broad.mit.edu	37	chr2	165994574	165994574	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcagtcccagatcaagaacaCattggcaaatctataccagc	7	12	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:165994574C>T	uc002ucx.2	-	15	2698	c.2206G>A	c.(2206-2208)GTG>ATG	p.V736M	SCN3A_uc002ucy.2_Missense_Mutation_p.V687M|SCN3A_uc002ucz.2_Missense_Mutation_p.V687M|SCN3A_uc002uda.1_Missense_Mutation_p.V556M|SCN3A_uc002udb.1_Missense_Mutation_p.V556M	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	736						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	ATCAAGAACACATTGGCAAAT	0.363													37	72	---	---	---	---	PASS	T	165994574	T	T	165994574	3	4	146	1	0	0	0	0	1	0	0	0	13918	478	17	3	3852	3	SCN3A	2	165994574	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	13465543	165994574	77204799	41	51866										
CHRNA1	1134	broad.mit.edu	37	chr2	175624353	175624353	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctcatgttcggagcccaggaCgaggccagctgagacagcag	14	12	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:175624353C>A	uc002ujd.2	-	2	130	c.52G>T	c.(52-54)GTC>TTC	p.V18F	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Missense_Mutation_p.V18F|CHRNA1_uc002ujf.3_Missense_Mutation_p.V18F	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	18					muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GAGCCCAGGACGAGGCCAGCT	0.557													68	75	---	---	---	---	PASS	A	175624353	A	A	175624353	3	1	146	1	0	0	0	0	1	0	0	0	3381	536	19	1	1432	1	CHRNA1	2	175624353	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	9629779	175624353	67575020	42	51867										
HOXD3	3232	broad.mit.edu	37	chr2	177036984	177036984	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggacgactgccggaggctccCaaactgacgcatctgtagcg	13	13	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:177036984C>G	uc002ukt.1	+	3	1457	c.1281C>G	c.(1279-1281)CCC>CCG	p.P427P		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	427					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		CGGAGGCTCCCAAACTGACGC	0.632													9	20	---	---	---	---	PASS	G	177036984	G	G	177036984	2	3	146	1	0	0	0	0	0	0	0	1	7323	581	21	4		4	HOXD3	2	177036984	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	1412631	177036984	66162389	43	51868										
TTN	7273	broad.mit.edu	37	chr2	179604027	179604027	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cttgaacttttcatctgaagGcaccagtttattctcaaaat	5	9	3	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:179604027G>T	uc010zfh.1	-	46	13644	c.13420C>A	c.(13420-13422)CCT>ACT	p.P4474T	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.P4407T|TTN_uc010zfj.1_Missense_Mutation_p.P4282T|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TCATCTGAAGGCACCAGTTTA	0.368													38	55	---	---	---	---	PASS	T	179604027	T	T	179604027	3	4	146	1	0	0	0	0	1	0	0	0	16732	1203	42	3	90856	3	TTN	2	179604027	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	2567043	179604027	63595346	44	51869										
TTN	7273	broad.mit.edu	37	chr2	179621084	179621084	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atttccattttgtgattgttTcagtctctcggattcctcta	6	9	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:179621084T>A	uc010zfh.1	-	44	10830	c.10606A>T	c.(10606-10608)AAA>TAA	p.K3536*	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	3550							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)			TGTGATTGTTTCAGTCTCTCG	0.403													56	105	---	---	---	---	PASS	A	179621084	A	A	179621084	4	1	146	1	0	0	0	0	0	1	0	0	16732	1792	62	5	100137	5	TTN	2	179621084	Nonsense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	17057	179621084	63578289	45	51870										
MYL1	4632	broad.mit.edu	37	chr2	211159113	211159113	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttgcatcataggcagaaattGttcaaactcaattttcttgg	7	7	4	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:211159113G>T	uc002vec.2	-	4	463	c.334C>A	c.(334-336)CAA>AAA	p.Q112K	MYL1_uc002veb.2_Missense_Mutation_p.Q68K	NM_079420	NP_524144	P05976	MYL1_HUMAN	fast skeletal myosin alkali light chain 1	112					muscle filament sliding|muscle organ development	cytosol|muscle myosin complex|sarcomere	calcium ion binding|structural constituent of muscle			ovary(1)	1				Epithelial(149;0.00573)|Lung(261;0.0422)|LUSC - Lung squamous cell carcinoma(261;0.0444)|all cancers(144;0.057)		GGCAGAAATTGTTCAAACTCA	0.398													48	65	---	---	---	---	PASS	T	211159113	T	T	211159113	3	4	146	1	0	0	0	0	1	0	0	0	10043	1386	48	3	262	3	MYL1	2	211159113	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	31538029	211159113	32040260	46	51871										
CPS1	1373	broad.mit.edu	37	chr2	211447371	211447371	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttgggaagattgaatttgaaGgtcagcctgtggattttgtg	14	3	1	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:211447371G>T	uc002vee.3	+	6	691	c.559G>T	c.(559-561)GGT>TGT	p.G187C	CPS1_uc010fur.2_Missense_Mutation_p.G193C	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	187	Anthranilate phosphoribosyltransferase homolog.				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)		TGAATTTGAAGGTCAGCCTGT	0.348													56	142	---	---	---	---	PASS	T	211447371	T	T	211447371	3	4	146	1	0	0	0	0	1	0	0	0	3823	1000	35	3	603	3	CPS1	2	211447371	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	288258	211447371	31752002	47	51872										
FN1	2335	broad.mit.edu	37	chr2	216257885	216257885	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cctcaggccgatgcttgaatCggttatatcaacaaagctta	8	10	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:216257885C>T	uc002vfa.2	-	25	4104	c.3838G>A	c.(3838-3840)GAT>AAT	p.D1280N	FN1_uc002vfb.2_Intron|FN1_uc002vfc.2_Intron|FN1_uc002vfd.2_Missense_Mutation_p.D1280N|FN1_uc002vfe.2_Intron|FN1_uc002vff.2_Intron|FN1_uc002vfg.2_Intron|FN1_uc002vfh.2_Intron|FN1_uc002vfi.2_Missense_Mutation_p.D1280N|FN1_uc002vfj.2_Missense_Mutation_p.D1280N|FN1_uc002vez.2_5'Flank|FN1_uc010zjp.1_5'UTR	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1280	Fibronectin type-III 8.|Cell-attachment.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATGCTTGAATCGGTTATATCA	0.468													30	79	---	---	---	---	PASS	T	216257885	T	T	216257885	3	4	146	1	0	0	0	0	1	0	0	0	5962	884	31	2	3683	2	FN1	2	216257885	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	4810514	216257885	26941488	48	51873										
SPHKAP	80309	broad.mit.edu	37	chr2	228881925	228881925	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccggctgtccaatcctggctGctccgtctggaggaggcact	13	14	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:228881925G>C	uc002vpq.2	-	7	3692	c.3645C>G	c.(3643-3645)AGC>AGG	p.S1215R	SPHKAP_uc002vpp.2_Missense_Mutation_p.S1215R|SPHKAP_uc010zlx.1_Missense_Mutation_p.S1215R	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1215						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		AATCCTGGCTGCTCCGTCTGG	0.577													61	74	---	---	---	---	PASS	C	228881925	C	C	228881925	3	2	146	1	0	0	0	0	1	0	0	0	15047	1310	46	4	1481	4	SPHKAP	2	228881925	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	12624040	228881925	14317448	49	51874										
TRIP12	9320	broad.mit.edu	37	chr2	230643658	230643658	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gtcagctctctgtagttcctGagatacaagcgcataaaact	8	10	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:230643658G>C	uc002vpw.1	-	34	5027	c.4918C>G	c.(4918-4920)CAG>GAG	p.Q1640E	TRIP12_uc002vpx.1_Missense_Mutation_p.Q1688E|TRIP12_uc002vpy.1_Missense_Mutation_p.Q1370E	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1640					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)		TGTAGTTCCTGAGATACAAGC	0.393													17	313	---	---	---	---	PASS	C	230643658	C	C	230643658	3	2	146	1	0	0	0	0	1	0	0	0	16553	1299	45	2	1092	2	TRIP12	2	230643658	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	1761733	230643658	12555715	50	51875										
AQP12A	375318	broad.mit.edu	37	chr2	241631533	241631533	+	Missense_Mutation	SNP	G	T	T													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggccctgggctggggactttGggcctgacctgctgctcacc							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:241631533G>T	uc002vzu.2	+	2	235	c.166G>T	c.(166-168)GGG>TGG	p.G56W	AQP12A_uc002vzv.2_Intron	NM_198998	NP_945349	Q8IXF9	AQ12A_HUMAN	aquaporin 12A	56	Helical; Name=2; (Potential).					integral to membrane	transporter activity				0		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;2.2e-31)|all cancers(36;1.08e-28)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.52e-06)|Lung(119;0.00163)|LUSC - Lung squamous cell carcinoma(224;0.008)|Colorectal(34;0.0124)|COAD - Colon adenocarcinoma(134;0.0757)		TGGGGACTTTGGGCCTGACCT	0.692													22	9	---	---	---	---	PASS	T	241631533	T	T	241631533	3	4	146	1	0	0	0	0	1	0	0	0	824	1348	47	3	172	3	AQP12A	2	241631533	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	10987875	241631533	1567840	51	51876	954	2								
AQP12A	375318	broad.mit.edu	37	chr2	241631534	241631534	+	Missense_Mutation	SNP	G	T	T													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gccctgggctggggactttgGgcctgacctgctgctcaccc							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr2:241631534G>T	uc002vzu.2	+	2	236	c.167G>T	c.(166-168)GGG>GTG	p.G56V	AQP12A_uc002vzv.2_Intron	NM_198998	NP_945349	Q8IXF9	AQ12A_HUMAN	aquaporin 12A	56	Helical; Name=2; (Potential).					integral to membrane	transporter activity				0		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;2.2e-31)|all cancers(36;1.08e-28)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.52e-06)|Lung(119;0.00163)|LUSC - Lung squamous cell carcinoma(224;0.008)|Colorectal(34;0.0124)|COAD - Colon adenocarcinoma(134;0.0757)		GGGGACTTTGGGCCTGACCTG	0.692													22	9	---	---	---	---	PASS	T	241631534	T	T	241631534	3	4	146	1	0	0	0	0	1	0	0	0	824	1232	43	3	173	3	AQP12A	2	241631534	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	1	241631534	1567839	52	51877	954	2								
ATG7	10533	broad.mit.edu	37	chr3	11468349	11468349	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aattcttcacattccttcttAgaagacttgactggtcttac	5	10	4	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:11468349A>T	uc003bwc.2	+	18	2145	c.2028A>T	c.(2026-2028)TTA>TTT	p.L676F	ATG7_uc003bwd.2_Missense_Mutation_p.L649F|ATG7_uc011aum.1_Intron	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	676					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						ATTCCTTCTTAGAAGACTTGA	0.358													35	30	---	---	---	---	PASS	T	11468349	T	T	11468349	3	4	146	1	0	0	0	0	1	0	0	0	1101	417	15	5	2094	5	ATG7	3	11468349	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08		11468349	186554081	53	51878										
SLC22A14	9389	broad.mit.edu	37	chr3	38357879	38357879	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccatcttgtccctgacaatcAtcagccagaccccctccctc	4	20	3	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:38357879A>G	uc010hhc.1	+	10	1639	c.1597A>G	c.(1597-1599)ATC>GTC	p.I533V	SLC22A14_uc003cib.2_Missense_Mutation_p.I533V|SLC22A14_uc011ayo.1_RNA	NM_004803	NP_004794	Q9Y267	S22AE_HUMAN	organic cation transporter like 4	533	Helical; (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0554)|Kidney(284;0.0696)		CCTGACAATCATCAGCCAGAC	0.617													27	11	---	---	---	---	PASS	G	38357879	G	G	38357879	3	3	146	1	0	0	0	0	1	0	0	0	14445	217	8	5	1631	5	SLC22A14	3	38357879	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	26889530	38357879	159664551	54	51879										
PLXNB1	5364	broad.mit.edu	37	chr3	48450817	48450817	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gagcaccgcatccatgttatCagatgtttgcacgtcgaaca	9	11	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:48450817C>G	uc003csw.2	-	34	6277	c.6007G>C	c.(6007-6009)GAT>CAT	p.D2003H	PLXNB1_uc003cst.2_Missense_Mutation_p.D453H|PLXNB1_uc003csu.2_Missense_Mutation_p.D1820H|PLXNB1_uc003csx.2_Missense_Mutation_p.D2003H	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	2003	Cytoplasmic (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TCCATGTTATCAGATGTTTGC	0.552													79	33	---	---	---	---	PASS	G	48450817	G	G	48450817	3	3	146	1	0	0	0	0	1	0	0	0	12123	826	29	2	420	2	PLXNB1	3	48450817	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	10092938	48450817	149571613	55	51880										
EPHA6	285220	broad.mit.edu	37	chr3	97467485	97467485	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	caccagagacgaatagtcagCagcatacagactttacgttt	8	10	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:97467485C>G	uc010how.1	+	18	3376	c.3333C>G	c.(3331-3333)AGC>AGG	p.S1111R		NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	1016	SAM.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						GAATAGTCAGCAGCATACAGA	0.333													14	47	---	---	---	---	PASS	G	97467485	G	G	97467485	3	3	146	1	0	0	0	0	1	0	0	0	5171	709	25	4	3520	4	EPHA6	3	97467485	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	49016668	97467485	100554945	56	51881										
ABI3BP	25890	broad.mit.edu	37	chr3	100472662	100472662	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctcattgagacaggtacttaCcagaaactggctcactcact	7	12	3	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:100472662C>A	uc003dun.2	-	32	2912	c.2827_splice	c.e32+1	p.A943_splice	ABI3BP_uc003duj.2_Splice_Site_p.A523_splice|ABI3BP_uc003duk.2_Splice_Site_p.A652_splice|ABI3BP_uc003dul.2_Splice_Site_p.A773_splice|ABI3BP_uc011bhd.1_Splice_Site_p.A897_splice|ABI3BP_uc003dum.2_Splice_Site_p.A354_splice	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein							extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						CAGGTACTTACCAGAAACTGG	0.423													14	32	---	---	---	---	PASS	A	100472662	A	A	100472662	5	1	146	1	0	0	0	0	0	0	1	0	91	521	18	3	415	3	ABI3BP	3	100472662	Splice_Site	SNP	C	TCGA-66-2757-01A-01D-1522-08	3005177	100472662	97549768	57	51882										
IMPG2	50939	broad.mit.edu	37	chr3	100962934	100962934	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gatgactcagtaatttgttcCatatcctcccttaggatggc	8	10	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:100962934C>A	uc003duq.1	-	13	2444	c.2241G>T	c.(2239-2241)ATG>ATT	p.M747I	IMPG2_uc011bhe.1_Missense_Mutation_p.M610I	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	747	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						TAATTTGTTCCATATCCTCCC	0.403													14	295	---	---	---	---	PASS	A	100962934	A	A	100962934	3	1	146	1	0	0	0	0	1	0	0	0	7729	594	21	3	1512	3	IMPG2	3	100962934	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	490272	100962934	97059496	58	51883										
MYH15	22989	broad.mit.edu	37	chr3	108224623	108224623	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atcatcttcactcccttttaCctcagcctcgatataagcat	3	14	4	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:108224623C>A	uc003dxa.1	-	3	259	c.202G>T	c.(202-204)GTA>TTA	p.V68L		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	68	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CTCCCTTTTACCTCAGCCTCG	0.358													87	287	---	---	---	---	PASS	A	108224623	A	A	108224623	3	1	146	1	0	0	0	0	1	0	0	0	10034	507	18	3	5798	3	MYH15	3	108224623	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	7261689	108224623	89797807	59	51884										
HSPBAP1	79663	broad.mit.edu	37	chr3	122487665	122487665	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gaaatactagactggtcacaGttccaggtcagaaactcttc	8	10	3	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:122487665G>A	uc003efu.1	-	3	438	c.315C>T	c.(313-315)AAC>AAT	p.N105N	HSPBAP1_uc003efv.1_Silent_p.N105N	NM_024610	NP_078886	Q96EW2	HBAP1_HUMAN	Hspb associated protein 1	105	Interaction with HSPB1 (By similarity).					cytoplasm				ovary(1)|lung(1)	2				GBM - Glioblastoma multiforme(114;0.0531)		ACTGGTCACAGTTCCAGGTCA	0.363													3	115	---	---	---	---	PASS	A	122487665	A	A	122487665	2	1	146	1	0	0	0	0	0	0	0	1	7425	1020	36	3		3	HSPBAP1	3	122487665	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	14263042	122487665	75534765	60	51885										
OSBPL11	114885	broad.mit.edu	37	chr3	125313525	125313525	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccaccgcggctgctgctgctGctactgattccacctccaca	8	18	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:125313525G>T	uc003eic.2	-	1	857	c.120C>A	c.(118-120)AGC>AGA	p.S40R		NM_022776	NP_073613	Q9BXB4	OSB11_HUMAN	oxysterol binding protein-like 11	40					lipid transport		lipid binding			ovary(3)|breast(1)|kidney(1)	5						tgctgctgctgctactgattc	0.388													63	32	---	---	---	---	PASS	T	125313525	T	T	125313525	3	4	146	1	0	0	0	0	1	0	0	0	11276	1310	46	3	2175	3	OSBPL11	3	125313525	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	2825860	125313525	72708905	61	51886										
GATA2	2624	broad.mit.edu	37	chr3	128205181	128205181	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccgggctgtgcaacaagtgtGggcggcacatctggcctccg	15	13	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:128205181G>C	uc003ekm.3	-	4	695	c.260C>G	c.(259-261)CCA>CGA	p.P87R	GATA2_uc003ekn.3_Missense_Mutation_p.P87R|GATA2_uc003eko.2_Missense_Mutation_p.P87R|uc003ekp.2_5'Flank	NM_001145661	NP_001139133	P23769	GATA2_HUMAN	GATA binding protein 2 isoform 1	87					blood coagulation|negative regulation of fat cell differentiation|negative regulation of fat cell proliferation|negative regulation of neural precursor cell proliferation|negative regulation of Notch signaling pathway|phagocytosis|positive regulation of angiogenesis|positive regulation of phagocytosis|positive regulation of transcription from RNA polymerase II promoter	nucleoplasm	C2H2 zinc finger domain binding|chromatin binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(13)|lung(1)|skin(1)	15				GBM - Glioblastoma multiforme(114;0.173)		CAACAAGTGTGGGCGGCACAT	0.677			Mis		AML(CML blast transformation)								2	6	---	---	---	---	PASS	C	128205181	C	C	128205181	3	2	146	1	0	0	0	0	1	0	0	0	6254	1348	47	4	1198	4	GATA2	3	128205181	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	2891656	128205181	69817249	62	51887										
IFT122	55764	broad.mit.edu	37	chr3	129238477	129238477	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgcgctccatgagccgccggGatgtcctcatcaagcgatgg	13	13	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:129238477G>C	uc003emm.2	+	29	3744	c.3538G>C	c.(3538-3540)GAT>CAT	p.D1180H	IFT122_uc003eml.2_Missense_Mutation_p.D1231H|IFT122_uc003emn.2_Missense_Mutation_p.D1121H|IFT122_uc003emo.2_Missense_Mutation_p.D1070H|IFT122_uc003emp.2_Missense_Mutation_p.D1030H|IFT122_uc010htc.2_Missense_Mutation_p.D1173H|IFT122_uc011bky.1_Missense_Mutation_p.D971H|IFT122_uc003emq.2_Missense_Mutation_p.D1020H|IFT122_uc003emr.2_Missense_Mutation_p.D933H|IFT122_uc011bla.1_Missense_Mutation_p.D954H|IFT122_uc010hte.2_Missense_Mutation_p.D506H|IFT122_uc003ems.2_Missense_Mutation_p.D562H	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	1180					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						GAGCCGCCGGGATGTCCTCAT	0.642													17	91	---	---	---	---	PASS	C	129238477	C	C	129238477	3	2	146	1	0	0	0	0	1	0	0	0	7555	1174	41	2	3812	2	IFT122	3	129238477	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	1033296	129238477	68783953	63	51888										
PIK3CB	5291	broad.mit.edu	37	chr3	138382872	138382872	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tggctcggtccaggtcatccCtgaacaagagaaaagaacag	11	10	1	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:138382872C>T	uc011bmq.1	-	19	2673	c.2673_splice	c.e19-1	p.G891_splice	PIK3CB_uc011bmn.1_Splice_Site_p.G403_splice|PIK3CB_uc011bmo.1_Splice_Site_p.G342_splice|PIK3CB_uc011bmp.1_Splice_Site_p.G478_splice	NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta						activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						CAGGTCATCCCTGAACAAGAG	0.453													4	101	---	---	---	---	PASS	T	138382872	T	T	138382872	5	4	146	1	0	0	0	0	0	0	1	0	11914	695	24	3	554	3	PIK3CB	3	138382872	Splice_Site	SNP	C	TCGA-66-2757-01A-01D-1522-08	9144395	138382872	59639558	64	51889										
CLSTN2	64084	broad.mit.edu	37	chr3	139894792	139894792	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tttttcccccttattttctaGtcaataagcacaagccatgg	5	11	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:139894792G>T	uc003etn.2	+	2	300	c.110_splice	c.e2-1	p.V37_splice	CLSTN2_uc003etm.2_Splice_Site_p.V37_splice	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor						homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						TTATTTTCTAGTCAATAAGCA	0.333										HNSCC(16;0.037)			44	121	---	---	---	---	PASS	T	139894792	T	T	139894792	5	4	146	1	0	0	0	0	0	0	1	0	3562	1043	36	3	115	3	CLSTN2	3	139894792	Splice_Site	SNP	G	TCGA-66-2757-01A-01D-1522-08	1511920	139894792	58127638	65	51890										
C3orf58	205428	broad.mit.edu	37	chr3	143691762	143691762	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggcagcttcctgcttcgcaaCctcaaggactcggagcgcat	11	14	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:143691762C>T	uc003evo.2	+	1	1123	c.588C>T	c.(586-588)AAC>AAT	p.N196N	C3orf58_uc011bnl.1_5'Flank	NM_173552	NP_775823	Q8NDZ4	CC058_HUMAN	hypothetical protein LOC205428 isoform a	196						COPI vesicle coat|extracellular region				ovary(1)	1						TGCTTCGCAACCTCAAGGACT	0.692													6	3	---	---	---	---	PASS	T	143691762	T	T	143691762	2	4	146	1	0	0	0	0	0	0	0	1	2236	506	18	3		3	C3orf58	3	143691762	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	3796970	143691762	54330668	66	51891										
DHX36	170506	broad.mit.edu	37	chr3	154024045	154024045	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tccagtactattaccactgcCacaagattctgccctttctg	5	14	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:154024045C>A	uc003ezy.3	-	6	934	c.853G>T	c.(853-855)GGC>TGC	p.G285C	DHX36_uc010hvq.2_Missense_Mutation_p.G285C|DHX36_uc003ezz.3_Missense_Mutation_p.G285C	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	285	Helicase ATP-binding.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TTACCACTGCCACAAGATTCT	0.348													49	162	---	---	---	---	PASS	A	154024045	A	A	154024045	3	1	146	1	0	0	0	0	1	0	0	0	4509	594	21	3	2253	3	DHX36	3	154024045	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	10332283	154024045	43998385	67	51892										
ZBBX	79740	broad.mit.edu	37	chr3	167045879	167045879	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttcttggttttgtacgttgtGctcttttcatcgttgtaatt	8	6	3	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:167045879G>T	uc003fep.2	-	11	1036	c.713C>A	c.(712-714)GCA>GAA	p.A238E	ZBBX_uc011bpc.1_Missense_Mutation_p.A238E|ZBBX_uc003feq.2_Missense_Mutation_p.A209E	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	238						intracellular	zinc ion binding			ovary(2)	2						TGTACGTTGTGCTCTTTTCAT	0.338													7	306	---	---	---	---	PASS	T	167045879	T	T	167045879	3	4	146	1	0	0	0	0	1	0	0	0	17513	1319	46	3	1733	3	ZBBX	3	167045879	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	13021834	167045879	30976551	68	51893										
RTP2	344892	broad.mit.edu	37	chr3	187416661	187416661	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctggactcgtccagccgcgcCgtgccgcactcatagcacag	11	17	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:187416661C>A	uc003fro.1	-	2	732	c.303G>T	c.(301-303)ACG>ACT	p.T101T		NM_001004312	NP_001004312	Q5QGT7	RTP2_HUMAN	receptor transporting protein 2	101	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding				0	all_cancers(143;4.06e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0515)		CCAGCCGCGCCGTGCCGCACT	0.647													16	33	---	---	---	---	PASS	A	187416661	A	A	187416661	2	1	146	1	0	0	0	0	0	0	0	1	13734	639	23	1		1	RTP2	3	187416661	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	20370782	187416661	10605769	69	51894										
ATP13A5	344905	broad.mit.edu	37	chr3	193039528	193039528	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcacctttcatgtagacatgGaaatgattctccccagctag	8	11	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr3:193039528G>C	uc011bsq.1	-	16	1857	c.1857C>G	c.(1855-1857)TTC>TTG	p.F619L		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	619					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		TGTAGACATGGAAATGATTCT	0.458													4	186	---	---	---	---	PASS	C	193039528	C	C	193039528	3	2	146	1	0	0	0	0	1	0	0	0	1127	1165	41	2	1857	2	ATP13A5	3	193039528	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	5622867	193039528	4982902	70	51895										
GBA3	57733	broad.mit.edu	37	chr4	22749311	22749311	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgtctctatcactttttgcgGtctggttggaaccagcagat	10	9	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr4:22749311G>C	uc003gqp.3	+	3	770	c.679G>C	c.(679-681)GTC>CTC	p.V227L	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Missense_Mutation_p.V228L	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	227					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						ACTTTTTGCGGTCTGGTTGGA	0.423													9	285	---	---	---	---	PASS	C	22749311	C	C	22749311	3	2	146	1	0	0	0	0	1	0	0	0	6268	1261	44	4	689	4	GBA3	4	22749311	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08		22749311	168404965	71	51896										
TMEM156	80008	broad.mit.edu	37	chr4	38972693	38972693	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgcactgtggaagtaacttaTagttctggaattgggggaag	14	4	1	0	rs148909241	byFrequency	TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr4:38972693T>C	uc003gto.2	-	6	996	c.888A>G	c.(886-888)CTA>CTG	p.L296L	TMEM156_uc010ifj.2_Silent_p.L295L	NM_024943	NP_079219	Q8N614	TM156_HUMAN	transmembrane protein 156	296	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						AAGTAACTTATAGTTCTGGAA	0.403													6	105	---	---	---	---	PASS	C	38972693	C	C	38972693	2	2	146	1	0	0	0	0	0	0	0	1	16070	1393	49	5		5	TMEM156	4	38972693	Silent	SNP	T	TCGA-66-2757-01A-01D-1522-08	16223382	38972693	152181583	72	51897										
RBM47	54502	broad.mit.edu	37	chr4	40440165	40440165	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cgatcatgaggttgcgcacgTagaggatcttcacggtctcc	12	11	4	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr4:40440165T>C	uc003gvc.2	-	4	1456	c.746A>G	c.(745-747)TAC>TGC	p.Y249C	RBM47_uc003gvd.2_Missense_Mutation_p.Y249C|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Missense_Mutation_p.Y211C|RBM47_uc003gvg.1_Missense_Mutation_p.Y249C	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	249	RRM 3.					nucleus	nucleotide binding|RNA binding			breast(3)	3						GTTGCGCACGTAGAGGATCTT	0.622													59	110	---	---	---	---	PASS	C	40440165	C	C	40440165	3	2	146	1	0	0	0	0	1	0	0	0	13141	1638	57	5	1051	5	RBM47	4	40440165	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	1467472	40440165	150714111	73	51898										
KCTD8	386617	broad.mit.edu	37	chr4	44177019	44177019	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	actgtttctgcgtttgtctgGtgggggtatccattgtacag	13	7	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr4:44177019G>T	uc003gwu.2	-	2	1494	c.1210C>A	c.(1210-1212)CCA>ACA	p.P404T		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	404						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						CGTTTGTCTGGTGGGGGTATC	0.483										HNSCC(17;0.042)			159	259	---	---	---	---	PASS	T	44177019	T	T	44177019	3	4	146	1	0	0	0	0	1	0	0	0	8115	1261	44	3	215	3	KCTD8	4	44177019	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	3736854	44177019	146977257	74	51899										
GABRA2	2555	broad.mit.edu	37	chr4	46388199	46388199	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atcttcttggatgttagccaGcaccaacctaaacagataat	6	10	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr4:46388199G>T	uc003gxc.3	-	2	752	c.79C>A	c.(79-81)CTG>ATG	p.L27M	GABRA2_uc010igc.2_Missense_Mutation_p.L27M|GABRA2_uc011bzc.1_Translation_Start_Site|GABRA2_uc003gxe.2_Missense_Mutation_p.L27M|GABRA2_uc010igd.1_Missense_Mutation_p.L27M	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	27					gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ATGTTAGCCAGCACCAACCTA	0.343													20	39	---	---	---	---	PASS	T	46388199	T	T	46388199	3	4	146	1	0	0	0	0	1	0	0	0	6161	962	34	3	1308	3	GABRA2	4	46388199	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	2211180	46388199	144766077	75	51900										
KDR	3791	broad.mit.edu	37	chr4	55962494	55962494	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acatgagagctcgatgctcaCtgtgtgttgctccttctaca	9	11	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr4:55962494C>A	uc003has.2	-	19	2932	c.2630G>T	c.(2629-2631)AGT>ATT	p.S877I	KDR_uc003hat.1_Missense_Mutation_p.S877I	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	877	Protein kinase.|Cytoplasmic (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)	TCGATGCTCACTGTGTGTTGC	0.463			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			58	103	---	---	---	---	PASS	A	55962494	A	A	55962494	3	1	146	1	0	0	0	0	1	0	0	0	8139	565	20	3	1488	3	KDR	4	55962494	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	9574295	55962494	135191782	76	51901										
FAM190A	401145	broad.mit.edu	37	chr4	91229477	91229477	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cgatctaccctggtctcccgGttgccaatattcagaagaag	9	12	3	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr4:91229477G>T	uc003hsv.3	+	2	382	c.42G>T	c.(40-42)CGG>CGT	p.R14R	FAM190A_uc003hsu.3_Silent_p.R14R|FAM190A_uc010ikv.2_RNA|FAM190A_uc003hsw.2_Silent_p.R14R	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1	14	Ser-rich.									large_intestine(1)|ovary(1)	2						TGGTCTCCCGGTTGCCAATAT	0.453													18	6	---	---	---	---	PASS	T	91229477	T	T	91229477	2	4	146	1	0	0	0	0	0	0	0	1	5521	1248	44	3		3	FAM190A	4	91229477	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	35266983	91229477	99924799	77	51902										
GRID2	2895	broad.mit.edu	37	chr4	94690580	94690580	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tggtggaacaagaggaaaggCtcccgggttccatcaaaaga	13	8	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr4:94690580C>A	uc011cdt.1	+	15	2838	c.2580C>A	c.(2578-2580)GGC>GGA	p.G860G	GRID2_uc011cdu.1_Silent_p.G765G	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	860	Cytoplasmic (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	AGAGGAAAGGCTCCCGGGTTC	0.488													38	22	---	---	---	---	PASS	A	94690580	A	A	94690580	2	1	146	1	0	0	0	0	0	0	0	1	6772	784	28	3		3	GRID2	4	94690580	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	3461103	94690580	96463696	78	51903										
LPCAT1	79888	broad.mit.edu	37	chr5	1463865	1463865	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	attggcgcaggtgaggtctcTgcacagctttcgaaatgtgt	13	8	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:1463865T>C	uc003jcm.2	-	14	1623	c.1506A>G	c.(1504-1506)GCA>GCG	p.A502A	LPCAT1_uc003jcl.2_Silent_p.A76A	NM_024830	NP_079106	Q8NF37	PCAT1_HUMAN	lysophosphatidylcholine acyltransferase 1	502	Lumenal (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(19;0.0274)|all cancers(22;0.0534)	GBM - Glioblastoma multiforme(108;0.156)		GTGAGGTCTCTGCACAGCTTT	0.537													45	198	---	---	---	---	PASS	C	1463865	C	C	1463865	2	2	146	1	0	0	0	0	0	0	0	1	8910	1567	55	5		5	LPCAT1	5	1463865	Silent	SNP	T	TCGA-66-2757-01A-01D-1522-08		1463865	179451395	79	51904										
CDH18	1016	broad.mit.edu	37	chr5	19747261	19747261	+	Missense_Mutation	SNP	C	A	A													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gtggatatcacccgtggtatCgtcaatgataaatatagtcc							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:19747261C>A	uc003jgc.2	-	3	690	c.313G>T	c.(313-315)GAT>TAT	p.D105Y	CDH18_uc003jgd.2_Missense_Mutation_p.D105Y|CDH18_uc011cnm.1_Missense_Mutation_p.D105Y	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	105	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CCCGTGGTATCGTCAATGATA	0.438													66	140	---	---	---	---	PASS	A	19747261	A	A	19747261	3	1	146	1	0	0	0	0	1	0	0	0	3103	884	31	2	2099	2	CDH18	5	19747261	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	18283396	19747261	161167999	80	51905	955	2								
CDH18	1016	broad.mit.edu	37	chr5	19747262	19747262	+	Missense_Mutation	SNP	G	C	C													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tggatatcacccgtggtatcGtcaatgataaatatagtccc							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:19747262G>C	uc003jgc.2	-	3	689	c.312C>G	c.(310-312)GAC>GAG	p.D104E	CDH18_uc003jgd.2_Missense_Mutation_p.D104E|CDH18_uc011cnm.1_Missense_Mutation_p.D104E	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	104	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CCGTGGTATCGTCAATGATAA	0.438													68	141	---	---	---	---	PASS	C	19747262	C	C	19747262	3	2	146	1	0	0	0	0	1	0	0	0	3103	1136	40	4	2100	4	CDH18	5	19747262	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	1	19747262	161167998	81	51906	955	2								
CDH10	1008	broad.mit.edu	37	chr5	24593426	24593426	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tcaagtaagaaaaattgattCcacatccaaccacgtttttg	5	9	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:24593426C>A	uc003jgr.1	-	2	506	c.174G>T	c.(172-174)TGG>TGT	p.W58C	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	58	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AAAATTGATTCCACATCCAAC	0.388										HNSCC(23;0.051)			69	240	---	---	---	---	PASS	A	24593426	A	A	24593426	3	1	146	1	0	0	0	0	1	0	0	0	3096	856	30	2	2236	2	CDH10	5	24593426	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	4846164	24593426	156321834	82	51907										
PCSK1	5122	broad.mit.edu	37	chr5	95751805	95751805	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttgcttgcatggcaatttctCctgcacatctggtcccgtgt	9	12	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:95751805C>G	uc003kls.1	-	6	847	c.641G>C	c.(640-642)GGA>GCA	p.G214A		NM_000439	NP_000430	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	214	Catalytic.				cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity			ovary(2)	2		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GGCAATTTCTCCTGCACATCT	0.383													7	87	---	---	---	---	PASS	G	95751805	G	G	95751805	3	3	146	1	0	0	0	0	1	0	0	0	11600	855	30	2	1656	2	PCSK1	5	95751805	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	71158379	95751805	85163455	83	51908										
FBN2	2201	broad.mit.edu	37	chr5	127680126	127680126	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcaaagccactattgcaacgGcatttgaagcttccgattgt	9	10	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:127680126G>C	uc003kuu.2	-	25	3733	c.3294C>G	c.(3292-3294)TGC>TGG	p.C1098W	FBN2_uc003kuv.2_Missense_Mutation_p.C1065W	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1098	EGF-like 15; calcium-binding.				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)		TATTGCAACGGCATTTGAAGC	0.413													81	37	---	---	---	---	PASS	C	127680126	C	C	127680126	3	2	146	1	0	0	0	0	1	0	0	0	5703	1195	42	4	5608	4	FBN2	5	127680126	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	31928321	127680126	53235134	84	51909										
PCDHA1	56147	broad.mit.edu	37	chr5	140167445	140167445	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgtacgcactgcagcccctgGaccacgaggagctggagctg	14	13	0	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:140167445G>T	uc003lhb.2	+	1	1570	c.1570G>T	c.(1570-1572)GAC>TAC	p.D524Y	PCDHA1_uc003lha.2_Missense_Mutation_p.D524Y|PCDHA1_uc003lgz.2_Missense_Mutation_p.D524Y	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	524	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAGCCCCTGGACCACGAGGA	0.677													39	8	---	---	---	---	PASS	T	140167445	T	T	140167445	3	4	146	1	0	0	0	0	1	0	0	0	11519	1174	41	2	1572	2	PCDHA1	5	140167445	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	12487319	140167445	40747815	85	51910										
PCDHB8	56128	broad.mit.edu	37	chr5	140558611	140558611	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggaggcttttctggaaaatgCaccgttctgattcaagtgat	11	7	3	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:140558611C>A	uc011dai.1	+	1	1182	c.996C>A	c.(994-996)TGC>TGA	p.C332*	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	332	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGGAAAATGCACCGTTCTGA	0.438													8	161	---	---	---	---	PASS	A	140558611	A	A	140558611	4	1	146	1	0	0	0	0	0	1	0	0	11548	718	25	3	998	3	PCDHB8	5	140558611	Nonsense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	391166	140558611	40356649	86	51911										
PCDHGA3	56112	broad.mit.edu	37	chr5	140725487	140725487	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acgggcgaggtgcgcacggcGcgagccctgctggacagaga	18	12	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:140725487G>A	uc003ljm.1	+	1	1887	c.1887G>A	c.(1885-1887)GCG>GCA	p.A629A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.A389A|PCDHGA3_uc011dap.1_Silent_p.A629A	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	629	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCGCACGGCGCGAGCCCTGC	0.701													21	14	---	---	---	---	PASS	A	140725487	A	A	140725487	2	1	146	1	0	0	0	0	0	0	0	1	11555	1074	38	1		1	PCDHGA3	5	140725487	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	166876	140725487	40189773	87	51912										
PCDHGB2	56103	broad.mit.edu	37	chr5	140741626	140741626	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gggacgcggcccgccagcgcCtgctggtcgctgtgcgtgat	17	14	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:140741626C>A	uc003ljs.1	+	1	1924	c.1924C>A	c.(1924-1926)CTG>ATG	p.L642M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Missense_Mutation_p.L642M|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	642	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGCCAGCGCCTGCTGGTCGC	0.687													11	1	---	---	---	---	PASS	A	140741626	A	A	140741626	3	1	146	1	0	0	0	0	1	0	0	0	11563	680	24	3	1926	3	PCDHGB2	5	140741626	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	16139	140741626	40173634	88	51913										
PCDHGB5	56101	broad.mit.edu	37	chr5	140779598	140779598	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gggcgacagggacgcggcccGccagcgcctgctggttgctg	18	14	0	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:140779598G>C	uc003lkf.1	+	1	1904	c.1904G>C	c.(1903-1905)CGC>CCC	p.R635P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.R635P|PCDHGA9_uc011dax.1_5'Flank|PCDHGA9_uc003lkh.1_5'Flank	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	635	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGCGGCCCGCCAGCGCCTG	0.687													26	8	---	---	---	---	PASS	C	140779598	C	C	140779598	3	2	146	1	0	0	0	0	1	0	0	0	11566	1087	38	4	1906	4	PCDHGB5	5	140779598	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	37972	140779598	40135662	89	51914										
FBXO38	81545	broad.mit.edu	37	chr5	147821650	147821650	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggtgtatttcagcgagtagtGgcaatttttatccactattg	10	6	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:147821650G>T	uc003lpf.1	+	22	3627	c.3507G>T	c.(3505-3507)GTG>GTT	p.V1169V	FBXO38_uc003lpg.1_Silent_p.V1094V|FBXO38_uc003lph.2_Silent_p.V924V	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	1169						cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCGAGTAGTGGCAATTTTTA	0.418													13	132	---	---	---	---	PASS	T	147821650	T	T	147821650	2	4	146	1	0	0	0	0	0	0	0	1	5746	1335	47	3		3	FBXO38	5	147821650	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	7042052	147821650	33093610	90	51915										
ADRB2	154	broad.mit.edu	37	chr5	148207106	148207106	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agaagattgacaaatctgagGgccgcttccatgtccagaac	10	10	1	5			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:148207106G>A	uc003lpr.1	+	1	951	c.712G>A	c.(712-714)GGC>AGC	p.G238S	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	238	Cytoplasmic.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	CAAATCTGAGGGCCGCTTCCA	0.552													35	21	---	---	---	---	PASS	A	148207106	A	A	148207106	3	1	146	1	0	0	0	0	1	0	0	0	341	1232	43	3	714	3	ADRB2	5	148207106	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	385456	148207106	32708154	91	51916										
CSF1R	1436	broad.mit.edu	37	chr5	149465950	149465950	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttctgctcttaccatgccaaGctgtggccaccagcaggagc	10	14	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:149465950G>T	uc003lrl.2	-	1	236	c.41C>A	c.(40-42)GCT>GAT	p.A14D	CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Missense_Mutation_p.A14D|CSF1R_uc011dce.1_Missense_Mutation_p.A14D|CSF1R_uc011dcf.1_Missense_Mutation_p.A14D	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	14					cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	ACCATGCCAAGCTGTGGCCAC	0.627													6	2	---	---	---	---	PASS	T	149465950	T	T	149465950	3	4	146	1	0	0	0	0	1	0	0	0	3932	971	34	3	2961	3	CSF1R	5	149465950	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	1258844	149465950	31449310	92	51917										
ADAM19	8728	broad.mit.edu	37	chr5	156947033	156947033	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aggttgctgctcaccgtaatCagtcctctgttgagaggaga	12	9	3	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:156947033C>T	uc003lwz.2	-	6	478	c.414G>A	c.(412-414)CTG>CTA	p.L138L	ADAM19_uc003lww.1_5'UTR|ADAM19_uc011ddr.1_Silent_p.L69L	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	138					proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TCACCGTAATCAGTCCTCTGT	0.473													7	78	---	---	---	---	PASS	T	156947033	T	T	156947033	2	4	146	1	0	0	0	0	0	0	0	1	240	813	29	2		2	ADAM19	5	156947033	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	7481083	156947033	23968227	93	51918										
FGF18	8817	broad.mit.edu	37	chr5	170883546	170883546	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccctctctcccctgcagcccGatggcaccagcaaggagtgt	10	17	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:170883546G>T	uc003mbk.2	+	5	898	c.361G>T	c.(361-363)GAT>TAT	p.D121Y		NM_003862	NP_003853	O76093	FGF18_HUMAN	fibroblast growth factor 18 precursor	121					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell proliferation	extracellular space|nucleolus	growth factor activity|type 1 fibroblast growth factor receptor binding|type 2 fibroblast growth factor receptor binding				0	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CCTGCAGCCCGATGGCACCAG	0.368													53	20	---	---	---	---	PASS	T	170883546	T	T	170883546	3	4	146	1	0	0	0	0	1	0	0	0	5846	1058	37	2	379	2	FGF18	5	170883546	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	13936513	170883546	10031714	94	51919										
HRH2	3274	broad.mit.edu	37	chr5	175110623	175110623	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccactgcggtaccctgtgctGgtcaccccagttcgggtcgc	12	16	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:175110623G>T	uc003mdd.2	+	1	2160	c.387G>T	c.(385-387)CTG>CTT	p.L129L	HRH2_uc003mdc.3_Silent_p.L129L	NM_022304	NP_071640	P25021	HRH2_HUMAN	histamine receptor H2 isoform 2	129	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|immune response	integral to plasma membrane	histamine receptor activity			ovary(1)	1	all_cancers(89;0.00805)|Renal(175;0.000269)|Lung NSC(126;0.00419)|all_lung(126;0.00711)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Colorectal(1;0.0154)|COAD - Colon adenocarcinoma(1;0.149)	Betazole(DB00272)|Cimetidine(DB00501)|Doxepin(DB01142)|Epinastine(DB00751)|Famotidine(DB00927)|Histamine Phosphate(DB00667)|Nizatidine(DB00585)|Ranitidine(DB00863)	ACCCTGTGCTGGTCACCCCAG	0.557													31	15	---	---	---	---	PASS	T	175110623	T	T	175110623	2	4	146	1	0	0	0	0	0	0	0	1	7356	1335	47	3		3	HRH2	5	175110623	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	4227077	175110623	5804637	95	51920										
ZNF454	285676	broad.mit.edu	37	chr5	178392042	178392042	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atcagaaaattcatattaagGagaaaagatatgaatgtaga	8	2	2	5			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:178392042G>T	uc003mjo.1	+	5	908	c.637G>T	c.(637-639)GAG>TAG	p.E213*	ZNF454_uc010jkz.1_Nonsense_Mutation_p.E213*	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	213					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)		TCATATTAAGGAGAAAAGATA	0.353													50	30	---	---	---	---	PASS	T	178392042	T	T	178392042	4	4	146	1	0	0	0	0	0	1	0	0	17920	1175	41	2	651	2	ZNF454	5	178392042	Nonsense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	3281419	178392042	2523218	96	51921										
BTNL9	153579	broad.mit.edu	37	chr5	180477308	180477308	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcgggagccctcagcaatgtGtccgtctccatccagaatct	10	14	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr5:180477308G>A	uc003mmt.2	+	4	906	c.675G>A	c.(673-675)GTG>GTA	p.V225V	BTNL9_uc011dhi.1_Silent_p.V156V	NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	225	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCAGCAATGTGTCCGTCTCCA	0.547													52	25	---	---	---	---	PASS	A	180477308	A	A	180477308	2	1	146	1	0	0	0	0	0	0	0	1	1568	1364	48	3		3	BTNL9	5	180477308	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	2085266	180477308	437952	97	51922										
PSMB8	5696	broad.mit.edu	37	chr6	32810867	32810867	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gactggaagaattctgtgggCtgataagagaaaagaggttg	15	3	1	4			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:32810867C>A	uc003oce.2	-	2	191	c.148_splice	c.e2-1	p.P50_splice	PSMB8_uc003ocf.2_Splice_Site_p.P46_splice|PSMB8_uc011dqh.1_Intron	NM_148919	NP_683720	P28062	PSB8_HUMAN	proteasome beta 8 subunit isoform E2 proprotein						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						ATTCTGTGGGCTGATAAGAGA	0.488													25	60	---	---	---	---	PASS	A	32810867	A	A	32810867	5	1	146	1	0	0	0	0	0	0	1	0	12683	811	28	3	703	3	PSMB8	6	32810867	Splice_Site	SNP	C	TCGA-66-2757-01A-01D-1522-08		32810867	138304200	98	51923										
MDGA1	266727	broad.mit.edu	37	chr6	37614074	37614074	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tggggcacacggagatcggtCaggatgtactccagcagctg	15	10	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:37614074C>T	uc003onu.1	-	11	3303	c.2124G>A	c.(2122-2124)CTG>CTA	p.L708L	MDGA1_uc003onv.1_5'UTR	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	708	Fibronectin type-III.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						GGAGATCGGTCAGGATGTACT	0.592													6	12	---	---	---	---	PASS	T	37614074	T	T	37614074	2	4	146	1	0	0	0	0	0	0	0	1	9406	813	29	2		2	MDGA1	6	37614074	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	4803207	37614074	133500993	99	51924										
LRFN2	57497	broad.mit.edu	37	chr6	40400339	40400339	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cagctggtggaggttgaccaTgcgtcgcacggagtcccacg	15	12	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:40400339T>G	uc003oph.1	-	2	979	c.514A>C	c.(514-516)ATG>CTG	p.M172L		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	172	Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					AGGTTGACCATGCGTCGCACG	0.592													5	114	---	---	---	---	PASS	G	40400339	G	G	40400339	3	3	146	1	0	0	0	0	1	0	0	0	8938	1464	51	5	1863	5	LRFN2	6	40400339	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	2786265	40400339	130714728	100	51925										
LRFN2	57497	broad.mit.edu	37	chr6	40400484	40400484	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ataaggtgctgcaggttgacCaggccccggagggtgtcctc	15	11	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:40400484C>A	uc003oph.1	-	2	834	c.369G>T	c.(367-369)CTG>CTT	p.L123L		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	123	Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GCAGGTTGACCAGGCCCCGGA	0.582													21	45	---	---	---	---	PASS	A	40400484	A	A	40400484	2	1	146	1	0	0	0	0	0	0	0	1	8938	581	21	3		3	LRFN2	6	40400484	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	145	40400484	130714583	101	51926										
CUL7	9820	broad.mit.edu	37	chr6	43020080	43020080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	actccagtgaggggctcaatGctggcataggcgctgagcac	14	11	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:43020080G>T	uc003otq.2	-	2	750	c.447C>A	c.(445-447)AGC>AGA	p.S149R	CUL7_uc011dvb.1_Missense_Mutation_p.S201R|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	149					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GGGGCTCAATGCTGGCATAGG	0.562													5	98	---	---	---	---	PASS	T	43020080	T	T	43020080	3	4	146	1	0	0	0	0	1	0	0	0	4060	1310	46	3	4845	3	CUL7	6	43020080	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	2619596	43020080	128094987	102	51927										
MEP1A	4224	broad.mit.edu	37	chr6	46803046	46803046	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	caaaagactgagcccccaagGcctcattctccaaggccagg	9	15	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:46803046G>T	uc010jzh.1	+	13	1886	c.1844G>T	c.(1843-1845)GGC>GTC	p.G615V	MEP1A_uc011dwg.1_Missense_Mutation_p.G337V|MEP1A_uc011dwh.1_Missense_Mutation_p.G643V|MEP1A_uc011dwi.1_Missense_Mutation_p.G515V	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	615	Extracellular (Potential).				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			AGCCCCCAAGGCCTCATTCTC	0.547													19	8	---	---	---	---	PASS	T	46803046	T	T	46803046	3	4	146	1	0	0	0	0	1	0	0	0	9475	1203	42	3	1894	3	MEP1A	6	46803046	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	3782966	46803046	124312021	103	51928										
GSTA1	2938	broad.mit.edu	37	chr6	52658956	52658956	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gggaagtagcgattttttatTttctctttgatcaaggcaag	10	5	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:52658956T>G	uc003paz.2	-	5	493	c.381A>C	c.(379-381)AAA>AAC	p.K127N		NM_145740	NP_665683	P08263	GSTA1_HUMAN	glutathione S-transferase alpha 1	127	GST C-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.118)				Amsacrine(DB00276)|Busulfan(DB01008)|Glutathione(DB00143)	GATTTTTTATTTTCTCTTTGA	0.418													15	648	---	---	---	---	PASS	G	52658956	G	G	52658956	3	3	146	1	0	0	0	0	1	0	0	0	6830	1838	64	5	299	5	GSTA1	6	52658956	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	5855910	52658956	118456111	104	51929										
TPBG	7162	broad.mit.edu	37	chr6	83075380	83075380	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gatgtgctggcccaactgccCagcctcaggcacctggactt	11	15	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:83075380C>T	uc003pjn.3	+	3	1638	c.702C>T	c.(700-702)CCC>CCT	p.P234P	TPBG_uc010kbj.2_Silent_p.P234P|TPBG_uc003pjo.2_Silent_p.P234P	NM_006670	NP_006661	Q13641	TPBG_HUMAN	trophoblast glycoprotein precursor	234	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(1)	1		all_cancers(76;0.000805)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0897)		BRCA - Breast invasive adenocarcinoma(397;0.107)		CCCAACTGCCCAGCCTCAGGC	0.622													38	107	---	---	---	---	PASS	T	83075380	T	T	83075380	2	4	146	1	0	0	0	0	0	0	0	1	16391	581	21	3		3	TPBG	6	83075380	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	30416424	83075380	88039687	105	51930										
KIAA1009	22832	broad.mit.edu	37	chr6	84895046	84895046	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcctgagctcctaactgacgCatataatccactctggggtt	9	12	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:84895046C>T	uc010kbp.2	-	13	1619	c.1522G>A	c.(1522-1524)GCG>ACG	p.A508T	KIAA1009_uc003pkj.3_Missense_Mutation_p.A432T|KIAA1009_uc003pkk.2_Missense_Mutation_p.A508T|KIAA1009_uc003pki.3_5'UTR	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	508					cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		CTAACTGACGCATATAATCCA	0.413													82	228	---	---	---	---	PASS	T	84895046	T	T	84895046	3	4	146	1	0	0	0	0	1	0	0	0	8203	710	25	3	2749	3	KIAA1009	6	84895046	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	1819666	84895046	86220021	106	51931										
GRIK2	2898	broad.mit.edu	37	chr6	102124587	102124587	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tacctgctgatacaaaggatGcaaaacccttactaaaagaa	6	9	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:102124587G>A	uc003pqp.3	+	4	880	c.631G>A	c.(631-633)GCA>ACA	p.A211T	GRIK2_uc003pqn.2_Missense_Mutation_p.A211T|GRIK2_uc003pqo.3_Missense_Mutation_p.A211T|GRIK2_uc010kcw.2_Missense_Mutation_p.A211T	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	211	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	TACAAAGGATGCAAAACCCTT	0.368													36	66	---	---	---	---	PASS	A	102124587	A	A	102124587	3	1	146	1	0	0	0	0	1	0	0	0	6774	1319	46	3	645	3	GRIK2	6	102124587	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	17229541	102124587	68990480	107	51932										
LATS1	9113	broad.mit.edu	37	chr6	150004707	150004707	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gctaaagcagtctgtagctcTggttttaatacacgcatact	8	9	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:150004707T>C	uc003qmu.1	-	4	2066	c.1518A>G	c.(1516-1518)CCA>CCG	p.P506P	LATS1_uc010kif.1_Silent_p.P401P|LATS1_uc003qmv.1_Silent_p.P506P|LATS1_uc003qmw.2_Silent_p.P506P|LATS1_uc010kig.1_Silent_p.P401P	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	506					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		TCTGTAGCTCTGGTTTTAATA	0.453													81	197	---	---	---	---	PASS	C	150004707	C	C	150004707	2	2	146	1	0	0	0	0	0	0	0	1	8646	1567	55	5		5	LATS1	6	150004707	Silent	SNP	T	TCGA-66-2757-01A-01D-1522-08	47880120	150004707	21110360	108	51933										
SYNE1	23345	broad.mit.edu	37	chr6	152451874	152451874	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cctgctatgtggactgctgaCagagggtccaggctgtgaga	15	9	0	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:152451874C>T	uc010kiw.2	-	145	26736	c.26134G>A	c.(26134-26136)GTC>ATC	p.V8712I	SYNE1_uc010kiv.2_Missense_Mutation_p.V3236I|SYNE1_uc003qos.3_Missense_Mutation_p.V3236I|SYNE1_uc003qot.3_Missense_Mutation_p.V8664I|SYNE1_uc003qou.3_Missense_Mutation_p.V8712I|SYNE1_uc003qop.3_Missense_Mutation_p.V897I|SYNE1_uc011eez.1_Intron|SYNE1_uc003qoq.3_Intron|SYNE1_uc003qor.3_Intron	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	8712	Ser-rich.|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)		GGACTGCTGACAGAGGGTCCA	0.468										HNSCC(10;0.0054)			7	40	---	---	---	---	PASS	T	152451874	T	T	152451874	3	4	146	1	0	0	0	0	1	0	0	0	15442	478	17	3	267	3	SYNE1	6	152451874	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	2447167	152451874	18663193	109	51934										
SYNE1	23345	broad.mit.edu	37	chr6	152737884	152737884	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tcagactcgttcttattcatActgttggttgcttccactgt	7	10	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:152737884A>G	uc010kiw.2	-	41	6290	c.5688T>C	c.(5686-5688)AGT>AGC	p.S1896S	SYNE1_uc003qot.3_Silent_p.S1903S|SYNE1_uc003qou.3_Silent_p.S1896S|SYNE1_uc010kjb.1_Silent_p.S1879S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1896	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)		TCTTATTCATACTGTTGGTTG	0.488										HNSCC(10;0.0054)			67	66	---	---	---	---	PASS	G	152737884	G	G	152737884	2	3	146	1	0	0	0	0	0	0	0	1	15442	388	14	5		5	SYNE1	6	152737884	Silent	SNP	A	TCGA-66-2757-01A-01D-1522-08	286010	152737884	18377183	110	51935										
PARK2	5071	broad.mit.edu	37	chr6	161969928	161969928	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccttcgcaggtgactttcctCtggtcaggctccggcagcag	12	14	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr6:161969928C>A	uc003qtx.3	-	9	1175	c.1041G>T	c.(1039-1041)CAG>CAT	p.Q347H	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Missense_Mutation_p.Q156H|PARK2_uc003qtw.3_Missense_Mutation_p.Q156H|PARK2_uc003qty.3_Missense_Mutation_p.Q319H|PARK2_uc003qtz.3_Missense_Mutation_p.Q198H|PARK2_uc010kke.1_Missense_Mutation_p.Q366H|PARK2_uc011egf.1_Missense_Mutation_p.Q21H	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	347	IBR-type.				aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		TGACTTTCCTCTGGTCAGGCT	0.632													103	94	---	---	---	---	PASS	A	161969928	A	A	161969928	3	1	146	1	0	0	0	0	1	0	0	0	11449	912	32	2	372	2	PARK2	6	161969928	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	9232044	161969928	9145139	111	51936										
GPNMB	10457	broad.mit.edu	37	chr7	23296615	23296615	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gccatcataacgtcttccctGatgggaaaccttttcctcac	6	14	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:23296615G>C	uc003swc.2	+	4	633	c.472G>C	c.(472-474)GAT>CAT	p.D158H	GPNMB_uc003swa.2_Missense_Mutation_p.D158H|GPNMB_uc003swb.2_Missense_Mutation_p.D158H|GPNMB_uc011jyy.1_Intron|GPNMB_uc011jyz.1_Missense_Mutation_p.D59H	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	158	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			CGTCTTCCCTGATGGGAAACC	0.483													64	43	---	---	---	---	PASS	C	23296615	C	C	23296615	3	2	146	1	0	0	0	0	1	0	0	0	6620	1290	45	2	486	2	GPNMB	7	23296615	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08		23296615	135842048	112	51937										
HOXA3	3200	broad.mit.edu	37	chr7	27147774	27147774	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tagctgccccccacgaagacGgggcttccctgtatgtgtgg	13	13	0	1	rs140908739		TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:27147774G>A	uc011jzl.1	-	3	1292	c.1092C>T	c.(1090-1092)CCC>CCT	p.P364P	HOXA3_uc011jzk.1_Silent_p.P206P|HOXA3_uc003syk.2_Silent_p.P364P	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	364					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						CCACGAAGACGGGGCTTCCCT	0.682													9	4	---	---	---	---	PASS	A	27147774	A	A	27147774	2	1	146	1	0	0	0	0	0	0	0	1	7293	1103	39	1		1	HOXA3	7	27147774	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	3851159	27147774	131990889	113	51938										
C7orf10	79783	broad.mit.edu	37	chr7	40220565	40220565	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gatatgaacaatataaagccAttggaaggggtaaaaattct	9	4	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:40220565A>G	uc003thn.1	+	2	165	c.120A>G	c.(118-120)CCA>CCG	p.P40P	C7orf10_uc003thm.1_Silent_p.P47P|C7orf10_uc003tho.1_Silent_p.P40P	NM_024728	NP_079004	Q9HAC7	CG010_HUMAN	dermal papilla derived protein 13	47							transferase activity			ovary(2)	2						ATATAAAGCCATTGGAAGGGG	0.294													14	188	---	---	---	---	PASS	G	40220565	G	G	40220565	2	3	146	1	0	0	0	0	0	0	0	1	2376	204	8	5		5	C7orf10	7	40220565	Silent	SNP	A	TCGA-66-2757-01A-01D-1522-08	13072791	40220565	118918098	114	51939										
HECW1	23072	broad.mit.edu	37	chr7	43484986	43484986	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tcttctcctcgcaagacgacGaggaggaggagaacagcgcg	14	11	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:43484986G>T	uc003tid.1	+	11	2820	c.2215G>T	c.(2215-2217)GAG>TAG	p.E739*	HECW1_uc011kbi.1_Nonsense_Mutation_p.E739*	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	739					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GCAAGACGACGAGGAGGAGGA	0.642													6	66	---	---	---	---	PASS	T	43484986	T	T	43484986	4	4	146	1	0	0	0	0	0	1	0	0	7042	1059	37	2	2249	2	HECW1	7	43484986	Nonsense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	3264421	43484986	115653677	115	51940										
ABCA13	154664	broad.mit.edu	37	chr7	48684351	48684351	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	accaaaccactttggagcagGtatagtatcttgaatgattc	8	8	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:48684351G>A	uc003toq.2	+	61	15106	c.15081_splice	c.e61+1	p.Q5027_splice	ABCA13_uc010kys.1_Splice_Site_p.Q2102_splice|ABCA13_uc010kyu.1_Splice_Site_p.Q757_splice	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),						transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TTTGGAGCAGGTATAGTATCT	0.343													9	143	---	---	---	---	PASS	A	48684351	A	A	48684351	5	1	146	1	0	0	0	0	0	0	1	0	31	1275	44	3	15153	3	ABCA13	7	48684351	Splice_Site	SNP	G	TCGA-66-2757-01A-01D-1522-08	5199365	48684351	110454312	116	51941										
ZNF479	90827	broad.mit.edu	37	chr7	57187718	57187718	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttaaaggctttgccacattcTtcacatgtgtagggtctctc	8	10	3	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:57187718T>A	uc010kzo.2	-	5	1675	c.1404A>T	c.(1402-1404)GAA>GAT	p.E468D		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	468	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TGCCACATTCTTCACATGTGT	0.423													7	97	---	---	---	---	PASS	A	57187718	A	A	57187718	3	1	146	1	0	0	0	0	1	0	0	0	17930	1606	56	5	174	5	ZNF479	7	57187718	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	8503367	57187718	101950945	117	51942										
TRRAP	8295	broad.mit.edu	37	chr7	98506430	98506430	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tcagcgacctctccctcgccGtccagctcttcgccaagaac	7	19	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:98506430G>A	uc003upp.2	+	14	1404	c.1195G>A	c.(1195-1197)GTC>ATC	p.V399I	TRRAP_uc011kis.1_Missense_Mutation_p.V399I|TRRAP_uc003upr.2_Missense_Mutation_p.V91I	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	399					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CTCCCTCGCCGTCCAGCTCTT	0.647													7	11	---	---	---	---	PASS	A	98506430	A	A	98506430	3	1	146	1	0	0	0	0	1	0	0	0	16598	1145	40	1	1245	1	TRRAP	7	98506430	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	41318712	98506430	60632233	118	51943										
MUC17	140453	broad.mit.edu	37	chr7	100676069	100676069	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcactccattaacaagtatgCctgtcagcaccactccagtg	7	14	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:100676069C>A	uc003uxp.1	+	3	1425	c.1372C>A	c.(1372-1374)CCT>ACT	p.P458T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	458	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|5.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AACAAGTATGCCTGTCAGCAC	0.498													169	213	---	---	---	---	PASS	A	100676069	A	A	100676069	3	1	146	1	0	0	0	0	1	0	0	0	9974	739	26	3	1382	3	MUC17	7	100676069	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	2169639	100676069	58462594	119	51944										
MOGAT3	346606	broad.mit.edu	37	chr7	100839548	100839548	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cgcgaccccagaagatgcaaGgagagaagcccatgagcttc	12	12	0	4			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:100839548G>T	uc003uyc.2	-	6	958	c.791C>A	c.(790-792)CCT>CAT	p.P264H	MOGAT3_uc010lhr.2_Intron	NM_178176	NP_835470	Q86VF5	MOGT3_HUMAN	monoacylglycerol O-acyltransferase 3	264					glycerol metabolic process|lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity|diacylglycerol O-acyltransferase activity			ovary(2)	2	Lung NSC(181;0.168)|all_lung(186;0.215)					GAAGATGCAAGGAGAGAAGCC	0.582													11	16	---	---	---	---	PASS	T	100839548	T	T	100839548	3	4	146	1	0	0	0	0	1	0	0	0	9696	1000	35	3	242	3	MOGAT3	7	100839548	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	163479	100839548	58299115	120	51945										
NAMPT	10135	broad.mit.edu	37	chr7	105893560	105893560	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atcggccctttttggaccttTtgttgggatcagcaactggg	12	9	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:105893560T>C	uc003vdq.2	-	10	1576	c.1268A>G	c.(1267-1269)AAA>AGA	p.K423R		NM_005746	NP_005737	P43490	NAMPT_HUMAN	nicotinamide phosphoribosyltransferase	423					cell-cell signaling|NAD biosynthetic process|nicotinamide metabolic process|positive regulation of cell proliferation|positive regulation of nitric-oxide synthase biosynthetic process|signal transduction|water-soluble vitamin metabolic process	cytosol	cytokine activity|nicotinamide phosphoribosyltransferase activity|nicotinate phosphoribosyltransferase activity|nicotinate-nucleotide diphosphorylase (carboxylating) activity			large_intestine(1)	1						TTTGGACCTTTTGTTGGGATC	0.403													37	72	---	---	---	---	PASS	C	105893560	C	C	105893560	3	2	146	1	0	0	0	0	1	0	0	0	10149	1841	64	5	215	5	NAMPT	7	105893560	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	5054012	105893560	53245103	121	51946										
MET	4233	broad.mit.edu	37	chr7	116411551	116411551	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttctttatttgtcatttttaGtggaagcaagcaatttcttc	6	6	3	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:116411551G>C	uc003vij.2	+	13	2918	c.2731_splice	c.e13-1	p.W911_splice	MET_uc010lkh.2_Splice_Site_p.W929_splice|MET_uc011knj.1_Splice_Site_p.W481_splice	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor						axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			GTCATTTTTAGTGGAAGCAAG	0.368			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				84	159	---	---	---	---	PASS	C	116411551	C	C	116411551	5	2	146	1	0	0	0	0	0	0	1	0	9485	1043	36	4	2830	4	MET	7	116411551	Splice_Site	SNP	G	TCGA-66-2757-01A-01D-1522-08	10517991	116411551	42727112	122	51947										
LMOD2	442721	broad.mit.edu	37	chr7	123296224	123296224	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acattcagcagagaggcactGatggcctattgggaaaagga	13	7	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:123296224G>T	uc003vky.2	+	1	364	c.207G>T	c.(205-207)CTG>CTT	p.L69L		NM_207163	NP_997046	Q6P5Q4	LMOD2_HUMAN	leiomodin 2 (cardiac)	69	Glu-rich.					cytoskeleton	actin binding|tropomyosin binding				0						GAGAGGCACTGATGGCCTATT	0.532													12	12	---	---	---	---	PASS	T	123296224	T	T	123296224	2	4	146	1	0	0	0	0	0	0	0	1	8857	1277	45	2		2	LMOD2	7	123296224	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	6884673	123296224	35842439	123	51948										
MGAM	8972	broad.mit.edu	37	chr7	141765143	141765143	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccttccaagcagagccgtgcAggaggtgacgggacagcgag	16	11	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:141765143A>T	uc003vwy.2	+	38	4547	c.4493A>T	c.(4492-4494)CAG>CTG	p.Q1498L		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1498	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	AGAGCCGTGCAGGAGGTGACG	0.607													5	9	---	---	---	---	PASS	T	141765143	T	T	141765143	3	4	146	1	0	0	0	0	1	0	0	0	9541	188	7	5	4639	5	MGAM	7	141765143	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	18468919	141765143	17373520	124	51949										
OR2A5	393046	broad.mit.edu	37	chr7	143747699	143747699	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tctcacacctggccatcattGatatttcgtatgcttccaac	5	13	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:143747699G>C	uc011ktw.1	+	1	205	c.205G>C	c.(205-207)GAT>CAT	p.D69H		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					GGCCATCATTGATATTTCGTA	0.498													84	120	---	---	---	---	PASS	C	143747699	C	C	143747699	3	2	146	1	0	0	0	0	1	0	0	0	10981	1290	45	2	207	2	OR2A5	7	143747699	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	1982556	143747699	15390964	125	51950										
KRBA1	84626	broad.mit.edu	37	chr7	149418508	149418508	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccctgccctctccgaggcctGctcagctgccttccagacgg	10	19	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:149418508G>T	uc003wfz.2	+	5	747	c.348G>T	c.(346-348)CTG>CTT	p.L116L	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_5'Flank	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	116										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TCCGAGGCCTGCTCAGCTGCC	0.627													4	15	---	---	---	---	PASS	T	149418508	T	T	149418508	2	4	146	1	0	0	0	0	0	0	0	1	8439	1306	46	3		3	KRBA1	7	149418508	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	5670809	149418508	9720155	126	51951										
GALNTL5	168391	broad.mit.edu	37	chr7	151711789	151711789	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctcgagtaggacatatcagtAagaaacaaactggaaaacct	8	8	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr7:151711789A>G	uc003wkp.2	+	8	1310	c.1087A>G	c.(1087-1089)AAG>GAG	p.K363E	GALNTL5_uc003wkq.2_Missense_Mutation_p.K114E|GALNTL5_uc003wkr.2_RNA|GALNTL5_uc003wks.2_RNA|GALNTL5_uc010lqf.2_Missense_Mutation_p.K252E	NM_145292	NP_660335	Q7Z4T8	GLTL5_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	363	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2	all_neural(206;0.187)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00427)	UCEC - Uterine corpus endometrioid carcinoma (81;0.18)|BRCA - Breast invasive adenocarcinoma(188;0.166)		ACATATCAGTAAGAAACAAAC	0.408													66	115	---	---	---	---	PASS	G	151711789	G	G	151711789	3	3	146	1	0	0	0	0	1	0	0	0	6224	363	13	5	1113	5	GALNTL5	7	151711789	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	2293281	151711789	7426874	127	51952										
DLC1	10395	broad.mit.edu	37	chr8	12947973	12947973	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acgacatcggctcatttcctCgggaacctgtgcggaacatg	11	12	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr8:12947973C>T	uc003wwm.2	-	15	4306	c.3862G>A	c.(3862-3864)GAG>AAG	p.E1288K	DLC1_uc003wwk.1_Missense_Mutation_p.E851K|DLC1_uc003wwl.1_Missense_Mutation_p.E885K|DLC1_uc011kxx.1_Missense_Mutation_p.E777K	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1288					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CTCATTTCCTCGGGAACCTGT	0.512													42	8	---	---	---	---	PASS	T	12947973	T	T	12947973	3	4	146	1	0	0	0	0	1	0	0	0	4550	893	31	2	740	2	DLC1	8	12947973	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08		12947973	133416049	128	51953										
XPO7	23039	broad.mit.edu	37	chr8	21856802	21856802	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agctgctcctctctattcctCacagtgatctcttggtaagc	7	13	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr8:21856802C>T	uc003xaa.3	+	23	2731	c.2629C>T	c.(2629-2631)CAC>TAC	p.H877Y	XPO7_uc010lti.2_Missense_Mutation_p.H886Y|XPO7_uc010ltk.2_Missense_Mutation_p.H878Y	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	877					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		CTCTATTCCTCACAGTGATCT	0.478													166	70	---	---	---	---	PASS	T	21856802	T	T	21856802	3	4	146	1	0	0	0	0	1	0	0	0	17446	826	29	2	2771	2	XPO7	8	21856802	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	8908829	21856802	124507220	129	51954										
PHYHIP	9796	broad.mit.edu	37	chr8	22084393	22084393	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agaactccaccgtctcgctcCagccggacaccaggtactcc	8	18	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr8:22084393C>A	uc003xbk.3	-	4	1005	c.311G>T	c.(310-312)TGG>TTG	p.W104L	PHYHIP_uc003xbj.3_Missense_Mutation_p.W104L	NM_001099335	NP_001092805	Q92561	PHYIP_HUMAN	phytanoyl-CoA 2-hydroxylase interacting protein	104	Fibronectin type-III.										0				Colorectal(74;0.0152)|COAD - Colon adenocarcinoma(73;0.0629)		CGTCTCGCTCCAGCCGGACAC	0.647													28	5	---	---	---	---	PASS	A	22084393	A	A	22084393	3	1	146	1	0	0	0	0	1	0	0	0	11866	595	21	3	693	3	PHYHIP	8	22084393	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	227591	22084393	124279629	130	51955										
FZD3	7976	broad.mit.edu	37	chr8	28420380	28420380	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tggcagcatgtcacgactaaCagatcactccaggcatagta	9	11	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr8:28420380C>A	uc003xgx.2	+	8	2331	c.1853C>A	c.(1852-1854)ACA>AAA	p.T618K	FZD3_uc010lvb.2_Missense_Mutation_p.T618K	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	618	Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		TCACGACTAACAGATCACTCC	0.453													31	8	---	---	---	---	PASS	A	28420380	A	A	28420380	3	1	146	1	0	0	0	0	1	0	0	0	6131	478	17	3	1875	3	FZD3	8	28420380	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	6335987	28420380	117943642	131	51956										
TMEM66	51669	broad.mit.edu	37	chr8	29927553	29927553	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttccaaatttgtatgcaataTctaagtccgtcttacattcc	4	10	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr8:29927553T>C	uc003xhs.2	-	3	489	c.305A>G	c.(304-306)GAT>GGT	p.D102G	TMEM66_uc003xht.2_Missense_Mutation_p.D102G|TMEM66_uc003xhu.2_Missense_Mutation_p.D66G|TMEM66_uc003xhv.2_5'UTR	NM_016127	NP_057211	Q96BY9	TMM66_HUMAN	transmembrane protein 66 precursor	102						integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(542;0.0993)|Kidney(114;0.119)		GTATGCAATATCTAAGTCCGT	0.333													4	227	---	---	---	---	PASS	C	29927553	C	C	29927553	3	2	146	1	0	0	0	0	1	0	0	0	16192	1435	50	5	730	5	TMEM66	8	29927553	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	1507173	29927553	116436469	132	51957										
UNC5D	137970	broad.mit.edu	37	chr8	35606132	35606132	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gtcaccactccctttgcattGaccatcccgcactgtgcaga	7	16	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr8:35606132G>T	uc003xjr.1	+	12	2182	c.1854G>T	c.(1852-1854)TTG>TTT	p.L618F	UNC5D_uc003xjs.1_Missense_Mutation_p.L613F|UNC5D_uc003xju.1_Missense_Mutation_p.L194F	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	618	ZU5.|Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CCTTTGCATTGACCATCCCGC	0.507													133	135	---	---	---	---	PASS	T	35606132	T	T	35606132	3	4	146	1	0	0	0	0	1	0	0	0	16992	1281	45	2	1900	2	UNC5D	8	35606132	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	5678579	35606132	110757890	133	51958										
SGK3	23678	broad.mit.edu	37	chr8	67755686	67755686	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atattttattgttttctataGtatcttgcacctgaagtaat	5	5	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr8:67755686G>C	uc003xwr.2	+	14	1278	c.979_splice	c.e14-1	p.Y327_splice	SGK3_uc003xwp.2_Splice_Site_p.Y321_splice|SGK3_uc003xwt.2_Splice_Site_p.Y327_splice|SGK3_uc003xwu.2_Intron	NM_001033578	NP_001028750	Q96BR1	SGK3_HUMAN	serum/glucocorticoid regulated kinase 3 isoform						cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GTTTTCTATAGTATCTTGCAC	0.308													4	152	---	---	---	---	PASS	C	67755686	C	C	67755686	5	2	146	1	0	0	0	0	0	0	1	0	14212	1043	36	4	1028	4	SGK3	8	67755686	Splice_Site	SNP	G	TCGA-66-2757-01A-01D-1522-08	32149554	67755686	78608336	134	51959										
CSMD3	114788	broad.mit.edu	37	chr8	113649187	113649187	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aaagttgaacccgattcgacTaccatattgaggaatgccag	9	9	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr8:113649187T>A	uc003ynu.2	-	22	3733	c.3574A>T	c.(3574-3576)AGT>TGT	p.S1192C	CSMD3_uc003yns.2_Missense_Mutation_p.S464C|CSMD3_uc003ynt.2_Missense_Mutation_p.S1152C|CSMD3_uc011lhx.1_Missense_Mutation_p.S1088C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1192	Sushi 6.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCGATTCGACTACCATATTGA	0.443										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			5	179	---	---	---	---	PASS	A	113649187	A	A	113649187	3	1	146	1	0	0	0	0	1	0	0	0	3946	1522	53	5	7749	5	CSMD3	8	113649187	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	45893501	113649187	32714835	135	51960										
COL22A1	169044	broad.mit.edu	37	chr8	139838952	139838952	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cagatataccagtcttccttCcgagaggttttcctgaaccg	8	12	1	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr8:139838952C>T	uc003yvd.2	-	6	1365	c.918G>A	c.(916-918)CGG>CGA	p.R306R		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	306	TSP N-terminal.				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)			AGTCTTCCTTCCGAGAGGTTT	0.507										HNSCC(7;0.00092)			95	22	---	---	---	---	PASS	T	139838952	T	T	139838952	2	4	146	1	0	0	0	0	0	0	0	1	3681	842	30	2		2	COL22A1	8	139838952	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	26189765	139838952	6525070	136	51961										
PTK2	5747	broad.mit.edu	37	chr8	141810641	141810641	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttaggtcagccatattctccGcaatggttagggatggtgcc	12	9	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr8:141810641G>A	uc003yvu.2	-	12	1240	c.1010C>T	c.(1009-1011)GCG>GTG	p.A337V	PTK2_uc011ljq.1_5'UTR|PTK2_uc003yvp.2_5'UTR|PTK2_uc003yvq.2_5'UTR|PTK2_uc003yvr.2_Missense_Mutation_p.A236V|PTK2_uc003yvs.2_Missense_Mutation_p.A337V|PTK2_uc003yvt.2_Missense_Mutation_p.A359V|PTK2_uc003yvv.2_Missense_Mutation_p.A224V|PTK2_uc011ljr.1_Missense_Mutation_p.A337V	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	337	FERM.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			CATATTCTCCGCAATGGTTAG	0.483													4	134	---	---	---	---	PASS	A	141810641	A	A	141810641	3	1	146	1	0	0	0	0	1	0	0	0	12762	1087	38	1	2232	1	PTK2	8	141810641	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	1971689	141810641	4553381	137	51962										
FRMPD1	22844	broad.mit.edu	37	chr9	37740726	37740726	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttcccggcaagggggagcccCgccagcctggggtcagcagg	17	14	1	0	rs147406379	byFrequency	TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr9:37740726C>T	uc004aag.1	+	15	2245	c.2201C>T	c.(2200-2202)CCG>CTG	p.P734L	FRMPD1_uc004aah.1_Missense_Mutation_p.P734L|FRMPD1_uc011lqm.1_Missense_Mutation_p.P556L|FRMPD1_uc011lqn.1_Missense_Mutation_p.P603L	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	734						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		GGGGGAGCCCCGCCAGCCTGG	0.652													24	16	---	---	---	---	PASS	T	37740726	T	T	37740726	3	4	146	1	0	0	0	0	1	0	0	0	6057	652	23	1	2255	1	FRMPD1	9	37740726	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08		37740726	103472705	138	51963										
PRUNE2	158471	broad.mit.edu	37	chr9	79318347	79318347	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gtttttctgaacaggctgtgGtgaaagcatttcccattcat	9	8	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr9:79318347G>T	uc010mpk.2	-	9	8306	c.8182C>A	c.(8182-8184)CCA>ACA	p.P2728T	PRUNE2_uc004akj.3_Missense_Mutation_p.P181T|PRUNE2_uc010mpl.1_Missense_Mutation_p.P181T	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	2728					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						ACAGGCTGTGGTGAAAGCATT	0.512													75	60	---	---	---	---	PASS	T	79318347	T	T	79318347	3	4	146	1	0	0	0	0	1	0	0	0	12641	1261	44	3	1128	3	PRUNE2	9	79318347	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	41577621	79318347	61895084	139	51964										
BAAT	570	broad.mit.edu	37	chr9	104125029	104125029	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	attgcccctgggcctcttcaAtaggaaacaaatattgactg	8	10	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr9:104125029A>G	uc010mtd.2	-	4	1047	c.938T>C	c.(937-939)ATT>ACT	p.I313T	BAAT_uc004bbd.3_Missense_Mutation_p.I313T	NM_001127610	NP_001121082	Q14032	BAAT_HUMAN	bile acid Coenzyme A: amino acid	313					acyl-CoA metabolic process|bile acid and bile salt transport|bile acid biosynthetic process|digestion|fatty acid metabolic process|glycine metabolic process	cytosol|peroxisomal matrix	carboxylesterase activity|glycine N-choloyltransferase activity|N-acyltransferase activity|palmitoyl-CoA hydrolase activity			ovary(1)|lung(1)|skin(1)	3		Acute lymphoblastic leukemia(62;0.0559)			Glycine(DB00145)	GGCCTCTTCAATAGGAAACAA	0.448													91	101	---	---	---	---	PASS	G	104125029	G	G	104125029	3	3	146	1	0	0	0	0	1	0	0	0	1280	101	4	5	322	5	BAAT	9	104125029	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	24806682	104125029	37088402	140	51965										
ZFP37	7539	broad.mit.edu	37	chr9	115818962	115818962	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aatctggacgccgctggagaCcgacatggcggctacccgga	14	13	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr9:115818962C>G	uc004bgm.1	-	1	35	c.7G>C	c.(7-9)GTC>CTC	p.V3L	ZFP37_uc011lwz.1_Missense_Mutation_p.V3L|ZFP37_uc011lxa.1_Missense_Mutation_p.V3L	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	3						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CCGCTGGAGACCGACATGGCG	0.662													27	37	---	---	---	---	PASS	G	115818962	G	G	115818962	3	3	146	1	0	0	0	0	1	0	0	0	17645	507	18	4	1901	4	ZFP37	9	115818962	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	11693933	115818962	25394469	141	51966										
OLFML2A	169611	broad.mit.edu	37	chr9	127572392	127572392	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgatcgtcctgagtcgcttgGaccccggcgatctctccgtg	12	14	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr9:127572392G>A	uc004bov.2	+	8	1773	c.1660G>A	c.(1660-1662)GAC>AAC	p.D554N	OLFML2A_uc004bow.2_Missense_Mutation_p.D340N	NM_182487	NP_872293	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A precursor	554	Olfactomedin-like.										0						GAGTCGCTTGGACCCCGGCGA	0.652													31	46	---	---	---	---	PASS	A	127572392	A	A	127572392	3	1	146	1	0	0	0	0	1	0	0	0	10857	1174	41	2	1690	2	OLFML2A	9	127572392	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	11753430	127572392	13641039	142	51967										
NCS1	23413	broad.mit.edu	37	chr9	132984952	132984952	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccttcaagctctacgacttgGacaatgatggctacatcacc	7	13	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr9:132984952G>A	uc004bzi.2	+	5	417	c.331G>A	c.(331-333)GAC>AAC	p.D111N	NCS1_uc010myz.1_Missense_Mutation_p.D93N	NM_014286	NP_055101	P62166	NCS1_HUMAN	frequenin homolog isoform 1	111	EF-hand 3.|2.				negative regulation of calcium ion transport via voltage-gated calcium channel activity|regulation of neuron projection development	cell junction|Golgi cisterna membrane|perinuclear region of cytoplasm|postsynaptic density|postsynaptic membrane	calcium ion binding|protein binding				0						CTACGACTTGGACAATGATGG	0.567													28	40	---	---	---	---	PASS	A	132984952	A	A	132984952	3	1	146	1	0	0	0	0	1	0	0	0	10240	1174	41	2	363	2	NCS1	9	132984952	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	5412560	132984952	8228479	143	51968										
KCNT1	57582	broad.mit.edu	37	chr9	138669314	138669314	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	actgcgggcctactacagatCccgcaaggagctgaacccca	10	15	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr9:138669314C>G	uc011mdq.1	+	21	2554	c.2480C>G	c.(2479-2481)TCC>TGC	p.S827C	KCNT1_uc011mdr.1_Missense_Mutation_p.S654C|KCNT1_uc010nbf.2_Missense_Mutation_p.S782C|KCNT1_uc004cgo.1_Missense_Mutation_p.S576C	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	827						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		TACTACAGATCCCGCAAGGAG	0.627													28	41	---	---	---	---	PASS	G	138669314	G	G	138669314	3	3	146	1	0	0	0	0	1	0	0	0	8091	855	30	2	2562	2	KCNT1	9	138669314	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	5684362	138669314	2544117	144	51969										
UBAC1	10422	broad.mit.edu	37	chr9	138838190	138838190	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cgccacctcgatgagagacaCcagtatcttccggagttctg	10	13	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr9:138838190C>T	uc004cgt.2	-	5	687	c.469G>A	c.(469-471)GTG>ATG	p.V157M	UBAC1_uc004cgs.1_Missense_Mutation_p.V157M|UBAC1_uc004cgu.2_RNA	NM_016172	NP_057256	Q9BSL1	UBAC1_HUMAN	ubiquitin associated domain containing 1	157						Golgi apparatus|plasma membrane	protein binding			skin(2)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.1e-06)|Epithelial(140;7.79e-06)		ATGAGAGACACCAGTATCTTC	0.473													49	54	---	---	---	---	PASS	T	138838190	T	T	138838190	3	4	146	1	0	0	0	0	1	0	0	0	16831	507	18	3	772	3	UBAC1	9	138838190	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	168876	138838190	2375241	145	51970										
INPP5E	56623	broad.mit.edu	37	chr9	139327487	139327487	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aaggcccccttggtcttgatCtgagacacgatgcgtgtggt	13	10	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr9:139327487C>G	uc004cho.2	-	5	1585	c.1200G>C	c.(1198-1200)CAG>CAC	p.Q400H	INPP5E_uc010nbm.2_Missense_Mutation_p.Q400H	NM_019892	NP_063945	Q9NRR6	INP5E_HUMAN	inositol polyphosphate-5-phosphatase E	400						cilium axoneme|cytoskeleton|Golgi cisterna membrane	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity			skin(1)	1		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.36e-06)|Epithelial(140;1.4e-05)		TGGTCTTGATCTGAGACACGA	0.602													21	30	---	---	---	---	PASS	G	139327487	G	G	139327487	3	3	146	1	0	0	0	0	1	0	0	0	7757	912	32	2	758	2	INPP5E	9	139327487	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	489297	139327487	1885944	146	51971										
SEC16A	9919	broad.mit.edu	37	chr9	139366443	139366443	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcacctgggaggtggccgttCcgaggagtggctggctcggg	20	10	0	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr9:139366443C>T	uc004chx.2	-	4	3997	c.3688G>A	c.(3688-3690)GAA>AAA	p.E1230K	SEC16A_uc004chv.3_Missense_Mutation_p.E620K|SEC16A_uc004chw.2_Missense_Mutation_p.E1230K|SEC16A_uc010nbn.2_Missense_Mutation_p.E1230K	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1052	Required for endoplasmic reticulum localization.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GGTGGCCGTTCCGAGGAGTGG	0.632													24	18	---	---	---	---	PASS	T	139366443	T	T	139366443	3	4	146	1	0	0	0	0	1	0	0	0	13986	864	30	2	3501	2	SEC16A	9	139366443	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	38956	139366443	1846988	147	51972										
FAM21A	387680	broad.mit.edu	37	chr10	51892656	51892656	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgaaccaagatttgaacacaAggtgtccaacatctttgatg	8	8	1	4			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr10:51892656A>T	uc001jjb.2	+	31	4059	c.3977A>T	c.(3976-3978)AAG>ATG	p.K1326M	FAM21A_uc001jja.1_Intron|FAM21A_uc010qhi.1_Missense_Mutation_p.K1305M|FAM21A_uc010qhj.1_Missense_Mutation_p.K1264M|FAM21B_uc009xoq.2_Missense_Mutation_p.K1238M	NM_001005751	NP_001005751	Q641Q2	FA21A_HUMAN	hypothetical protein LOC387680	1326					retrograde transport, endosome to Golgi	early endosome membrane|WASH complex				ovary(1)	1						TTTGAACACAAGGTGTCCAAC	0.473													32	15	---	---	---	---	PASS	T	51892656	T	T	51892656	3	4	146	1	0	0	0	0	1	0	0	0	5540	72	3	5	4099	5	FAM21A	10	51892656	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08		51892656	83642091	148	51973										
ZMIZ1	57178	broad.mit.edu	37	chr10	81061960	81061960	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tcctgcccgcagagcactgtAtcacgaaaagtgagtcaggg	12	11	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr10:81061960A>G	uc001kaf.2	+	18	2688	c.2116A>G	c.(2116-2118)ATC>GTC	p.I706V	ZMIZ1_uc001kag.2_Missense_Mutation_p.I582V	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	706					transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			AGAGCACTGTATCACGAAAAG	0.617													9	68	---	---	---	---	PASS	G	81061960	G	G	81061960	3	3	146	1	0	0	0	0	1	0	0	0	17693	449	16	5	2170	5	ZMIZ1	10	81061960	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	29169304	81061960	54472787	149	51974										
DNTT	1791	broad.mit.edu	37	chr10	98078223	98078223	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gagctcctcgatgtctcctgGctgatcgaatgcataagagc	11	11	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr10:98078223G>A	uc001kmf.2	+	2	488	c.318G>A	c.(316-318)TGG>TGA	p.W106*	DNTT_uc001kmg.2_Nonsense_Mutation_p.W106*	NM_004088	NP_004079	P04053	TDT_HUMAN	terminal deoxynucleotidyltransferase isoform 1	106	BRCT.				DNA modification	nucleus	DNA binding|DNA nucleotidylexotransferase activity|DNA-directed DNA polymerase activity|metal ion binding			ovary(1)	1		Colorectal(252;0.0815)|all_hematologic(284;0.224)		Epithelial(162;7.97e-08)|all cancers(201;1.89e-06)		ATGTCTCCTGGCTGATCGAAT	0.478													70	30	---	---	---	---	PASS	A	98078223	A	A	98078223	4	1	146	1	0	0	0	0	0	1	0	0	4680	1212	42	3	324	3	DNTT	10	98078223	Nonsense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	17016263	98078223	37456524	150	51975										
NRAP	4892	broad.mit.edu	37	chr10	115423110	115423110	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gtgggggcatcaaacacttaCgcgtgacagtacggcttttt	12	9	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr10:115423110C>A	uc001laj.2	-	2	331	c.167_splice	c.e2+1	p.A56_splice	NRAP_uc001lak.2_Splice_Site_p.A56_splice|NRAP_uc001lal.3_Splice_Site_p.A56_splice	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S							fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		CAAACACTTACGCGTGACAGT	0.398													26	12	---	---	---	---	PASS	A	115423110	A	A	115423110	5	1	146	1	0	0	0	0	0	0	1	0	10638	550	19	1	5188	1	NRAP	10	115423110	Splice_Site	SNP	C	TCGA-66-2757-01A-01D-1522-08	17344887	115423110	20111637	151	51976										
OR51B2	79345	broad.mit.edu	37	chr11	5345298	5345298	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ataggatgcccattacagtaGgcatcgtggtcaatgtcacc	10	10	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:5345298G>C	uc001mao.1	-	1	285	c.230C>G	c.(229-231)CCT>CGT	p.P77R	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	77	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CATTACAGTAGGCATCGTGGT	0.493													43	58	---	---	---	---	PASS	C	5345298	C	C	5345298	3	2	146	1	0	0	0	0	1	0	0	0	11089	1000	35	4	712	4	OR51B2	11	5345298	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08		5345298	129661218	152	51977										
OR52B2	255725	broad.mit.edu	37	chr11	6191107	6191107	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atgcagaagcttcgggtgatGacggccagagcaatcctccc	12	12	0	4			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:6191107G>A	uc010qzy.1	-	1	450	c.450C>T	c.(448-450)GTC>GTT	p.V150V		NM_001004052	NP_001004052	Q96RD2	O52B2_HUMAN	olfactory receptor, family 52, subfamily B,	150	Helical; Name=4; (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;3.69e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTCGGGTGATGACGGCCAGAG	0.507													17	35	---	---	---	---	PASS	A	6191107	A	A	6191107	2	1	146	1	0	0	0	0	0	0	0	1	11111	1277	45	2		2	OR52B2	11	6191107	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	845809	6191107	128815409	153	51978										
HPS5	11234	broad.mit.edu	37	chr11	18320386	18320386	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aagacagcatgtacgagcagCcaagttccataggcctcttc	9	12	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:18320386C>A	uc001mod.1	-	10	1395	c.1117G>T	c.(1117-1119)GCT>TCT	p.A373S	HPS5_uc001moe.1_Missense_Mutation_p.A259S|HPS5_uc001mof.1_Missense_Mutation_p.A259S	NM_181507	NP_852608	Q9UPZ3	HPS5_HUMAN	Hermansky-Pudlak syndrome 5 isoform a	373						cytosol				ovary(1)|pancreas(1)|skin(1)	3						GTACGAGCAGCCAAGTTCCAT	0.463									Hermansky-Pudlak_syndrome				81	137	---	---	---	---	PASS	A	18320386	A	A	18320386	3	1	146	1	0	0	0	0	1	0	0	0	7342	739	26	3	2328	3	HPS5	11	18320386	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	12129279	18320386	116686130	154	51979										
NELL1	4745	broad.mit.edu	37	chr11	20805279	20805279	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgagtgagaaattaattcagCtgttccggaacaagagtgaa	11	5	1	4			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:20805279C>G	uc001mqe.2	+	3	391	c.238C>G	c.(238-240)CTG>GTG	p.L80V	NELL1_uc001mqf.2_Missense_Mutation_p.L80V|NELL1_uc009yid.2_Missense_Mutation_p.L108V|NELL1_uc010rdo.1_Missense_Mutation_p.L80V|NELL1_uc010rdp.1_5'UTR	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	80					cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						ATTAATTCAGCTGTTCCGGAA	0.368													39	63	---	---	---	---	PASS	G	20805279	G	G	20805279	3	3	146	1	0	0	0	0	1	0	0	0	10333	796	28	4	248	4	NELL1	11	20805279	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	2484893	20805279	114201237	155	51980										
OR4X2	119764	broad.mit.edu	37	chr11	48266819	48266819	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttcccccatgtacttcttccTcagctacctctccttcatgg	4	17	4	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:48266819T>C	uc001ngs.1	+	1	164	c.164T>C	c.(163-165)CTC>CCC	p.L55P		NM_001004727	NP_001004727	Q8NGF9	OR4X2_HUMAN	olfactory receptor, family 4, subfamily X,	55	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TACTTCTTCCTCAGCTACCTC	0.493													13	195	---	---	---	---	PASS	C	48266819	C	C	48266819	3	2	146	1	0	0	0	0	1	0	0	0	11085	1551	54	5	166	5	OR4X2	11	48266819	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	27461540	48266819	86739697	156	51981										
OR8H3	390152	broad.mit.edu	37	chr11	55890765	55890765	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgctctcattagagtcatgcAgagaagacaggactccaggt	11	9	2	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:55890765A>T	uc001nii.1	+	1	917	c.917A>T	c.(916-918)CAG>CTG	p.Q306L		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	306	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					AGAGTCATGCAGAGAAGACAG	0.353													29	134	---	---	---	---	PASS	T	55890765	T	T	55890765	3	4	146	1	0	0	0	0	1	0	0	0	11239	188	7	5	919	5	OR8H3	11	55890765	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	7623946	55890765	79115751	157	51982										
OR4D6	219983	broad.mit.edu	37	chr11	59224643	59224643	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cggaacaaatcagtcctggaCatcgttttttcatctatcac	6	11	4	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:59224643C>T	uc010rku.1	+	1	210	c.210C>T	c.(208-210)GAC>GAT	p.D70D		NM_001004708	NP_001004708	Q8NGJ1	OR4D6_HUMAN	olfactory receptor, family 4, subfamily D,	70	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CAGTCCTGGACATCGTTTTTT	0.458													58	101	---	---	---	---	PASS	T	59224643	T	T	59224643	2	4	146	1	0	0	0	0	0	0	0	1	11058	477	17	3		3	OR4D6	11	59224643	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	3333878	59224643	75781873	158	51983										
HNRNPUL2	221092	broad.mit.edu	37	chr11	62490111	62490111	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atcattctccccaaaagtctGgccaaattcctcaaattgtc	4	13	4	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:62490111G>A	uc001nuw.2	-	6	1250	c.1057C>T	c.(1057-1059)CAG>TAG	p.Q353*	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	353	B30.2/SPRY.				cell killing	nucleus	ATP binding|nucleic acid binding				0						CCAAAAGTCTGGCCAAATTCC	0.438													80	96	---	---	---	---	PASS	A	62490111	A	A	62490111	4	1	146	1	0	0	0	0	0	1	0	0	7275	1357	47	3	1222	3	HNRNPUL2	11	62490111	Nonsense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	3265468	62490111	72516405	159	51984										
MACROD1	28992	broad.mit.edu	37	chr11	63767113	63767113	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cccccgcgggccgtccctcaCcaccgagcggagccggtgct	13	20	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:63767113C>A	uc001nyh.2	-	6	905	c.786_splice	c.e6+1	p.V262_splice		NM_014067	NP_054786	Q9BQ69	MACD1_HUMAN	MACRO domain containing 1												0						CCGTCCCTCACCACCGAGCGG	0.716													4	6	---	---	---	---	PASS	A	63767113	A	A	63767113	5	1	146	1	0	0	0	0	0	0	1	0	9145	521	18	3	210	3	MACROD1	11	63767113	Splice_Site	SNP	C	TCGA-66-2757-01A-01D-1522-08	1277002	63767113	71239403	160	51985										
NUMA1	4926	broad.mit.edu	37	chr11	71725724	71725724	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gctgtctgtctcctgccctcGcaggctccttgactaactcc	8	17	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:71725724G>A	uc001orl.1	-	15	2997	c.2825C>T	c.(2824-2826)GCG>GTG	p.A942V	NUMA1_uc009ysw.1_Missense_Mutation_p.A505V|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.A942V|NUMA1_uc001orn.2_Missense_Mutation_p.A505V|NUMA1_uc009ysx.1_Missense_Mutation_p.A942V|NUMA1_uc001oro.1_Missense_Mutation_p.A942V	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	942	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						TCCTGCCCTCGCAGGCTCCTT	0.637			T	RARA	APL								4	105	---	---	---	---	PASS	A	71725724	A	A	71725724	3	1	146	1	0	0	0	0	1	0	0	0	10750	1087	38	1	3574	1	NUMA1	11	71725724	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	7958611	71725724	63280792	161	51986										
PICALM	8301	broad.mit.edu	37	chr11	85707960	85707960	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aaatcaagcagatcattgggCagctttgatgtgctagaaag	11	6	2	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:85707960C>T	uc001pbm.2	-	12	1453	c.1167G>A	c.(1165-1167)CTG>CTA	p.L389L	PICALM_uc001pbl.2_Silent_p.L389L|PICALM_uc001pbn.2_Silent_p.L389L|PICALM_uc010rtl.1_Silent_p.L338L|PICALM_uc010rtk.1_Silent_p.L21L|PICALM_uc001pbo.1_Silent_p.L21L	NM_007166	NP_009097	Q13492	PICAL_HUMAN	phosphatidylinositol-binding clathrin assembly	389					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)				GATCATTGGGCAGCTTTGATG	0.413			T	MLLT10|MLL	TALL|AML|								54	49	---	---	---	---	PASS	T	85707960	T	T	85707960	2	4	146	1	0	0	0	0	0	0	0	1	11880	697	25	3		3	PICALM	11	85707960	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	13982236	85707960	49298556	162	51987										
FAT3	120114	broad.mit.edu	37	chr11	92523317	92523317	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	attccggattgaccctagcaCtggcgtgctctatactgccg	10	13	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:92523317C>T	uc001pdj.3	+	7	4561	c.4544C>T	c.(4543-4545)ACT>ATT	p.T1515I		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1515	Cadherin 14.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GACCCTAGCACTGGCGTGCTC	0.483										TCGA Ovarian(4;0.039)			80	227	---	---	---	---	PASS	T	92523317	T	T	92523317	3	4	146	1	0	0	0	0	1	0	0	0	5691	565	20	3	4570	3	FAT3	11	92523317	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	6815357	92523317	42483199	163	51988										
GPR83	10888	broad.mit.edu	37	chr11	94113620	94113620	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggcaaagtagagggcattgtTggtgcggatgaccttgctgg	17	6	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:94113620T>C	uc001pet.2	-	4	1139	c.967A>G	c.(967-969)AAC>GAC	p.N323D		NM_016540	NP_057624	Q9NYM4	GPR83_HUMAN	G protein-coupled receptor 83 precursor	323	Extracellular (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			central_nervous_system(2)|ovary(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				AGGGCATTGTTGGTGCGGATG	0.527													160	86	---	---	---	---	PASS	C	94113620	C	C	94113620	3	2	146	1	0	0	0	0	1	0	0	0	6713	1812	63	5	308	5	GPR83	11	94113620	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	1590303	94113620	40892896	164	51989										
ANGPTL5	253935	broad.mit.edu	37	chr11	101765763	101765763	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atttttctgatttactatatAaaaaatctttttcagtccta	2	6	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:101765763A>G	uc001pgl.2	-	8	1290	c.694T>C	c.(694-696)TAT>CAT	p.Y232H		NM_178127	NP_835228	Q86XS5	ANGL5_HUMAN	angiopoietin-like 5 precursor	232	Fibrinogen C-terminal.				signal transduction	extracellular space	receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.043)		BRCA - Breast invasive adenocarcinoma(274;0.0328)		TTTACTATATAAAAAATCTTT	0.264													61	51	---	---	---	---	PASS	G	101765763	G	G	101765763	3	3	146	1	0	0	0	0	1	0	0	0	617	362	13	5	480	5	ANGPTL5	11	101765763	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	7652143	101765763	33240753	165	51990										
C11orf63	79864	broad.mit.edu	37	chr11	122795604	122795604	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gtatgtgttttacctacctaGatctcctaccccgtcagagt	7	12	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr11:122795604G>T	uc001pym.2	+	4	1162	c.865_splice	c.e4-1	p.I289_splice		NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1											ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		tACCTACCTAGATCTCCTACC	0.333													7	83	---	---	---	---	PASS	T	122795604	T	T	122795604	5	4	146	1	0	0	0	0	0	0	1	0	1654	956	33	2	938	2	C11orf63	11	122795604	Splice_Site	SNP	G	TCGA-66-2757-01A-01D-1522-08	21029841	122795604	12210912	166	51991										
KDM5A	5927	broad.mit.edu	37	chr12	406233	406233	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aacaactcttagaagcagaaGaataagcatgctctgcacaa	7	9	2	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:406233G>A	uc001qif.1	-	25	4571	c.4208C>T	c.(4207-4209)TCT>TTT	p.S1403F	KDM5A_uc001qie.1_Missense_Mutation_p.S1403F	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	1403					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						AGAAGCAGAAGAATAAGCATG	0.398			T 	NUP98	AML								17	40	---	---	---	---	PASS	A	406233	A	A	406233	3	1	146	1	0	0	0	0	1	0	0	0	8133	942	33	2	880	2	KDM5A	12	406233	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08		406233	133445662	167	51992										
FOXJ2	55810	broad.mit.edu	37	chr12	8197386	8197386	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctgtggatggtggagcagtgGcagcaggggcttcaggccga	19	8	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:8197386G>A	uc001qtu.2	+	6	1734	c.649G>A	c.(649-651)GCA>ACA	p.A217T	FOXJ2_uc001qtt.1_Missense_Mutation_p.A217T	NM_018416	NP_060886	Q9P0K8	FOXJ2_HUMAN	forkhead box J2	217					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	nucleolus|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|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 factor binding			upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				Kidney(36;0.0944)		TGGAGCAGTGGCAGCAGGGGC	0.502													66	60	---	---	---	---	PASS	A	8197386	A	A	8197386	3	1	146	1	0	0	0	0	1	0	0	0	6012	1203	42	3	667	3	FOXJ2	12	8197386	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	7791153	8197386	125654509	168	51993										
A2M	2	broad.mit.edu	37	chr12	9230374	9230374	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cctctgggagagccatatgaGggcttgggtaatgtgtgctt	15	7	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:9230374G>T	uc001qvk.1	-	26	3312	c.3199C>A	c.(3199-3201)CTC>ATC	p.L1067I	A2M_uc001qvj.1_Missense_Mutation_p.L109I|A2M_uc009zgk.1_Missense_Mutation_p.L917I	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1067					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	AGCCATATGAGGGCTTGGGTA	0.498													38	62	---	---	---	---	PASS	T	9230374	T	T	9230374	3	4	146	1	0	0	0	0	1	0	0	0	4	1000	35	3	1269	3	A2M	12	9230374	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	1032988	9230374	124621521	169	51994										
SLCO1B3	28234	broad.mit.edu	37	chr12	21015494	21015494	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cattcttccttgtatttaggTaacgtacagaatatattaaa	5	6	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:21015494T>A	uc001rek.2	+	6	754	c.628_splice	c.e6+2	p.G210_splice	SLCO1B3_uc001rel.2_Splice_Site_p.G210_splice|SLCO1B3_uc010sil.1_Splice_Site_p.G210_splice|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Splice_Site_p.G35_splice	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,						bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TGTATTTAGGTAACGTACAGA	0.318													40	95	---	---	---	---	PASS	A	21015494	A	A	21015494	5	1	146	1	0	0	0	0	0	0	1	0	14724	1652	57	5	648	5	SLCO1B3	12	21015494	Splice_Site	SNP	T	TCGA-66-2757-01A-01D-1522-08	11785120	21015494	112836401	170	51995										
FAR2	55711	broad.mit.edu	37	chr12	29423457	29423457	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acaggctttctgggcaaagtGctgatggagaagctgtttcg	14	7	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:29423457G>T	uc001ris.3	+	2	222	c.75G>T	c.(73-75)GTG>GTT	p.V25V	FAR2_uc001rit.2_Silent_p.V25V|FAR2_uc009zjm.2_Intron	NM_018099	NP_060569	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	25					ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0						TGGGCAAAGTGCTGATGGAGA	0.522													34	47	---	---	---	---	PASS	T	29423457	T	T	29423457	2	4	146	1	0	0	0	0	0	0	0	1	5675	1306	46	3		3	FAR2	12	29423457	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	8407963	29423457	104428438	171	51996										
DDX11	1663	broad.mit.edu	37	chr12	31237560	31237560	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcgagaagaacgcctgcagcAgctgcagcacagggtgcagc	15	12	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:31237560A>G	uc001rjt.1	+	4	688	c.437A>G	c.(436-438)CAG>CGG	p.Q146R	DDX11_uc010sjw.1_Missense_Mutation_p.Q146R|DDX11_uc010sjx.1_RNA|DDX11_uc001rjr.1_Missense_Mutation_p.Q146R|DDX11_uc001rjs.1_Missense_Mutation_p.Q146R|DDX11_uc001rju.1_5'UTR|DDX11_uc001rjv.1_Missense_Mutation_p.Q146R|DDX11_uc001rjw.1_Missense_Mutation_p.Q120R	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	146	Helicase ATP-binding.				G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					CGCCTGCAGCAGCTGCAGCAC	0.587										Multiple Myeloma(12;0.14)			8	9	---	---	---	---	PASS	G	31237560	G	G	31237560	3	3	146	1	0	0	0	0	1	0	0	0	4343	188	7	5	447	5	DDX11	12	31237560	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	1814103	31237560	102614335	172	51997										
SYT10	341359	broad.mit.edu	37	chr12	33579334	33579334	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tcacaggtttgcttttccagCatggccaacacagcttccag	8	13	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:33579334C>A	uc001rll.1	-	2	545	c.248G>T	c.(247-249)TGC>TTC	p.C83F	SYT10_uc009zju.1_5'UTR	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	83	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					GCTTTTCCAGCATGGCCAACA	0.438													43	57	---	---	---	---	PASS	A	33579334	A	A	33579334	3	1	146	1	0	0	0	0	1	0	0	0	15463	710	25	3	1347	3	SYT10	12	33579334	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	2341774	33579334	100272561	173	51998										
PDZRN4	29951	broad.mit.edu	37	chr12	41966881	41966881	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tccaagggtgatcaacctcaCcaataagaaaaacctgagaa	7	10	2	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:41966881C>A	uc010skn.1	+	10	1771	c.1703C>A	c.(1702-1704)ACC>AAC	p.T568N	PDZRN4_uc001rmq.3_Missense_Mutation_p.T509N|PDZRN4_uc009zjz.2_Missense_Mutation_p.T507N|PDZRN4_uc001rmr.2_Missense_Mutation_p.T394N	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	767							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				ATCAACCTCACCAATAAGAAA	0.512													70	111	---	---	---	---	PASS	A	41966881	A	A	41966881	3	1	146	1	0	0	0	0	1	0	0	0	11710	507	18	3	2411	3	PDZRN4	12	41966881	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	8387547	41966881	91885014	174	51999										
NR4A1	3164	broad.mit.edu	37	chr12	52449850	52449850	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acgccaagtacatctgcctgGctaacaaggactgccctgtg	10	13	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:52449850G>T	uc001rzs.2	+	4	1227	c.913G>T	c.(913-915)GCT>TCT	p.A305S	NR4A1_uc010sno.1_Missense_Mutation_p.A318S|NR4A1_uc001rzt.2_Missense_Mutation_p.A305S|NR4A1_uc009zmc.2_5'Flank	NM_002135	NP_002126	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	305	NR C4-type.|Nuclear receptor.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0967)		CATCTGCCTGGCTAACAAGGA	0.612													38	54	---	---	---	---	PASS	T	52449850	T	T	52449850	3	4	146	1	0	0	0	0	1	0	0	0	10632	1203	42	3	919	3	NR4A1	12	52449850	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	10482969	52449850	81402045	175	52000										
KRT85	3891	broad.mit.edu	37	chr12	52760914	52760914	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gacacggtagtgatgcatggGgggctgggtccgcacacgcc	17	11	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:52760914G>T	uc001sag.2	-	1	396	c.276C>A	c.(274-276)CCC>CCA	p.P92P		NM_002283	NP_002274	P78386	KRT85_HUMAN	keratin 85	92	Head.				epidermis development	keratin filament	protein binding|structural molecule activity			ovary(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		TGATGCATGGGGGGCTGGGTC	0.677													33	82	---	---	---	---	PASS	T	52760914	T	T	52760914	2	4	146	1	0	0	0	0	0	0	0	1	8499	1219	43	3		3	KRT85	12	52760914	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	311064	52760914	81090981	176	52001										
KRT6A	3853	broad.mit.edu	37	chr12	52882246	52882246	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gccttctgcagggcatcctcCagcccttccagcttgttctt	8	16	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:52882246C>A	uc001sam.2	-	7	1499	c.1290G>T	c.(1288-1290)CTG>CTT	p.L430L		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	430	Rod.|Coil 2.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		GGGCATCCTCCAGCCCTTCCA	0.612													55	69	---	---	---	---	PASS	A	52882246	A	A	52882246	2	1	146	1	0	0	0	0	0	0	0	1	8480	581	21	3		3	KRT6A	12	52882246	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	121332	52882246	80969649	177	52002										
SMARCC2	6601	broad.mit.edu	37	chr12	56565666	56565666	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agatgcactcgtcctgtgtgCggcttcccacatgctcggac	11	14	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:56565666C>T	uc001skb.2	-	20	1995	c.1889G>A	c.(1888-1890)CGC>CAC	p.R630H	SMARCC2_uc001skd.2_Missense_Mutation_p.R661H|SMARCC2_uc001ska.2_Missense_Mutation_p.R661H|SMARCC2_uc001skc.2_Missense_Mutation_p.R660H|SMARCC2_uc010sqf.1_Missense_Mutation_p.R550H	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	630	SANT.				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)			GTCCTGTGTGCGGCTTCCCAC	0.532													3	75	---	---	---	---	PASS	T	56565666	T	T	56565666	3	4	146	1	0	0	0	0	1	0	0	0	14776	768	27	1	1791	1	SMARCC2	12	56565666	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	3683420	56565666	77286229	178	52003										
NR1H4	9971	broad.mit.edu	37	chr12	100904587	100904587	+	Frame_Shift_Del	DEL	G	-	-													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gaacaagtggcaggtcctctGggacagaacctggaagtgga							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:100904587delG	uc001tht.1	+	2	169	c.141delG	c.(139-141)CTGfs	p.L47fs	NR1H4_uc001thp.1_Frame_Shift_Del_p.L37fs|NR1H4_uc001thq.1_Frame_Shift_Del_p.L37fs|NR1H4_uc010svj.1_RNA|NR1H4_uc001thr.1_Frame_Shift_Del_p.L37fs|NR1H4_uc010svk.1_Frame_Shift_Del_p.L37fs|NR1H4_uc001ths.1_Frame_Shift_Del_p.L47fs	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	47					bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						CAGGTCCTCTGGGACAGAACC	0.438													53	31	---	---	---	---		-	100904587	-	-	100904587	7	5	146	1	0	1	0	1	0	0	0	0	10619	1335	47	0	117	0	NR1H4	12	100904587	Frame_Shift_Del	DEL	G	TCGA-66-2757-01A-01D-1522-08	44338921	100904587	32947308	179	52004										
SLC5A8	160728	broad.mit.edu	37	chr12	101584285	101584285	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttttacaagaaatatatctcTgcacctgggattggttgaca	8	7	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:101584285T>C	uc001thz.3	-	6	1184	c.794A>G	c.(793-795)CAG>CGG	p.Q265R		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	265	Cytoplasmic (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						AATATATCTCTGCACCTGGGA	0.398													84	119	---	---	---	---	PASS	C	101584285	C	C	101584285	3	2	146	1	0	0	0	0	1	0	0	0	14671	1580	55	5	1078	5	SLC5A8	12	101584285	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	679698	101584285	32267610	180	52005										
STAB2	55576	broad.mit.edu	37	chr12	104107464	104107464	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aatggaggttgctctgccaaGgctgactgtaagagaaccac	12	9	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:104107464G>T	uc001tjw.2	+	42	4641	c.4455G>T	c.(4453-4455)AAG>AAT	p.K1485N	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1485	Extracellular (Potential).|EGF-like 12.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GCTCTGCCAAGGCTGACTGTA	0.532													140	194	---	---	---	---	PASS	T	104107464	T	T	104107464	3	4	146	1	0	0	0	0	1	0	0	0	15237	991	35	3	4621	3	STAB2	12	104107464	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	2523179	104107464	29744431	181	52006										
RNF34	80196	broad.mit.edu	37	chr12	121855404	121855404	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttgtcacttattacaagagaCagcatttcagcgccctcagt	7	11	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:121855404C>T	uc001ual.1	+	3	437	c.323C>T	c.(322-324)ACA>ATA	p.T108I	RNF34_uc010szw.1_Missense_Mutation_p.T109I|RNF34_uc001uak.1_Missense_Mutation_p.T109I|RNF34_uc001uam.1_Missense_Mutation_p.T108I	NM_025126	NP_079402	Q969K3	RNF34_HUMAN	ring finger protein 34 isoform 2	108					apoptosis	endomembrane system|membrane|nuclear speck	ligase activity|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000432)|Epithelial(86;0.00233)		TTACAAGAGACAGCATTTCAG	0.423													55	83	---	---	---	---	PASS	T	121855404	T	T	121855404	3	4	146	1	0	0	0	0	1	0	0	0	13489	478	17	3	346	3	RNF34	12	121855404	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	17747940	121855404	11996491	182	52007										
EP400	57634	broad.mit.edu	37	chr12	132561094	132561094	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctcaagttgttcaacagcaaAcacccgtggccagcatccag	8	14	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr12:132561094A>T	uc001ujn.2	+	51	9090	c.9055A>T	c.(9055-9057)ACA>TCA	p.T3019S	EP400_uc001ujl.2_Missense_Mutation_p.T3018S|EP400_uc001ujm.2_Missense_Mutation_p.T2938S|EP400_uc001ujp.2_Missense_Mutation_p.T229S|EP400_uc010tbo.1_Missense_Mutation_p.N85I	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	3055					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		TCAACAGCAAACACCCGTGGC	0.443													12	39	---	---	---	---	PASS	T	132561094	T	T	132561094	3	4	146	1	0	0	0	0	1	0	0	0	5149	43	2	5	9254	5	EP400	12	132561094	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	10705690	132561094	1290801	183	52008										
STARD13	90627	broad.mit.edu	37	chr13	33684944	33684944	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggtaagtgtggaaagttgccCcactctcctccagctgtgtc	11	12	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr13:33684944C>A	uc001uuw.2	-	11	2834	c.2708G>T	c.(2707-2709)GGG>GTG	p.G903V	STARD13_uc001uuu.2_Missense_Mutation_p.G895V|STARD13_uc001uuv.2_Missense_Mutation_p.G785V|STARD13_uc001uux.2_Missense_Mutation_p.G868V|STARD13_uc010tec.1_RNA	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	903	START.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		GAAAGTTGCCCCACTCTCCTC	0.547													104	37	---	---	---	---	PASS	A	33684944	A	A	33684944	3	1	146	1	0	0	0	0	1	0	0	0	15255	623	22	3	649	3	STARD13	13	33684944	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08		33684944	81484934	184	52009										
SPG20	23111	broad.mit.edu	37	chr13	36878767	36878767	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cttctcctgcattatatccgTatctttaaaagaaagattag	5	8	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr13:36878767T>G	uc001uvn.2	-	10	2006	c.1736A>C	c.(1735-1737)TAC>TCC	p.Y579S	SPG20_uc010ten.1_Missense_Mutation_p.Y569S|SPG20_uc001uvm.2_Missense_Mutation_p.Y579S|SPG20_uc001uvo.2_Missense_Mutation_p.Y579S|SPG20_uc001uvq.2_Missense_Mutation_p.Y579S	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	579					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		ATTATATCCGTATCTTTAAAA	0.343													66	12	---	---	---	---	PASS	G	36878767	G	G	36878767	3	3	146	1	0	0	0	0	1	0	0	0	15041	1638	57	5	268	5	SPG20	13	36878767	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	3193823	36878767	78291111	185	52010										
TMTC4	84899	broad.mit.edu	37	chr13	101287433	101287433	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgggataacgagaaatcccaGgcccagagtaaggatcctgg	13	9	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr13:101287433G>T	uc001vou.2	-	10	1322	c.1162C>A	c.(1162-1164)CTG>ATG	p.L388M	TMTC4_uc001vot.2_Missense_Mutation_p.L407M|TMTC4_uc010tja.1_Missense_Mutation_p.L277M|TMTC4_uc001vov.1_Missense_Mutation_p.L133M|TMTC4_uc001vow.1_Missense_Mutation_p.L171M	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	388	Helical; (Potential).					integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					AGAAATCCCAGGCCCAGAGTA	0.458													22	4	---	---	---	---	PASS	T	101287433	T	T	101287433	3	4	146	1	0	0	0	0	1	0	0	0	16260	991	35	3	1099	3	TMTC4	13	101287433	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	64408666	101287433	13882445	186	52011										
OR4K5	79317	broad.mit.edu	37	chr14	20389649	20389649	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	actaaggaatagggatatgaAggctgccgtaaggaaaattg	13	4	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr14:20389649A>T	uc010tkw.1	+	1	884	c.884A>T	c.(883-885)AAG>ATG	p.K295M		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	295	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AGGGATATGAAGGCTGCCGTA	0.383													65	183	---	---	---	---	PASS	T	20389649	T	T	20389649	3	4	146	1	0	0	0	0	1	0	0	0	11073	72	3	5	886	5	OR4K5	14	20389649	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08		20389649	86959891	187	52012										
OR4K1	79544	broad.mit.edu	37	chr14	20404281	20404281	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tctatttcctgggcggtgggCgttcttcattctgtgagcca	12	10	4	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr14:20404281C>T	uc001vwj.1	+	1	456	c.456C>T	c.(454-456)GGC>GGT	p.G152G		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		GGGCGGTGGGCGTTCTTCATT	0.458													40	163	---	---	---	---	PASS	T	20404281	T	T	20404281	2	4	146	1	0	0	0	0	0	0	0	1	11067	755	27	1		1	OR4K1	14	20404281	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	14632	20404281	86945259	188	52013										
IPO4	79711	broad.mit.edu	37	chr14	24655080	24655080	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tacatacctctgcctgatgtGgtcgccagctccgtcagaca	9	14	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr14:24655080G>C	uc001wmv.1	-	12	1287	c.1156C>G	c.(1156-1158)CAC>GAC	p.H386D	IPO4_uc001wmt.1_5'Flank|IPO4_uc001wmu.2_Missense_Mutation_p.H48D|IPO4_uc001wmx.1_Missense_Mutation_p.H250D|IPO4_uc001wmy.1_Missense_Mutation_p.H250D|IPO4_uc010tnz.1_RNA|IPO4_uc001wmw.1_RNA|IPO4_uc001wmz.1_Missense_Mutation_p.H386D	NM_024658	NP_078934	Q8TEX9	IPO4_HUMAN	importin 4	386					intracellular protein transport	cytoplasm|nucleus	protein binding|protein transporter activity			kidney(1)	1				GBM - Glioblastoma multiforme(265;0.0087)		TGCCTGATGTGGTCGCCAGCT	0.507													29	52	---	---	---	---	PASS	C	24655080	C	C	24655080	3	2	146	1	0	0	0	0	1	0	0	0	7795	1348	47	4	2165	4	IPO4	14	24655080	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	4250799	24655080	82694460	189	52014										
KHNYN	23351	broad.mit.edu	37	chr14	24900891	24900891	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tagaagagctggcagagcggCtgagctgggacttcacgcca	15	10	1	4			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr14:24900891C>T	uc001wph.3	+	3	626	c.424C>T	c.(424-426)CTG>TTG	p.L142L	KHNYN_uc010tpc.1_Silent_p.L183L|KHNYN_uc010alw.2_Silent_p.L142L|CBLN3_uc001wpg.3_5'Flank	NM_015299	NP_056114	O15037	KHNYN_HUMAN	hypothetical protein LOC23351	142										ovary(2)|liver(1)	3						GGCAGAGCGGCTGAGCTGGGA	0.622											OREG0022627	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	51	53	---	---	---	---	PASS	T	24900891	T	T	24900891	2	4	146	1	0	0	0	0	0	0	0	1	8150	796	28	3		3	KHNYN	14	24900891	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	245811	24900891	82448649	190	52015										
NOVA1	4857	broad.mit.edu	37	chr14	26949315	26949315	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	actgcattcagtgcttcaacCgttccctggatcaagcacac	7	14	3	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr14:26949315C>A	uc001wpy.2	-	3	633	c.315G>T	c.(313-315)ACG>ACT	p.T105T	NOVA1_uc001wpz.2_Silent_p.T105T|NOVA1_uc001wqa.2_5'UTR|NOVA1_uc001wqb.2_Silent_p.T105T	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	108	KH 1.				locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		GTGCTTCAACCGTTCCCTGGA	0.398													131	79	---	---	---	---	PASS	A	26949315	A	A	26949315	2	1	146	1	0	0	0	0	0	0	0	1	10554	639	23	1		1	NOVA1	14	26949315	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	2048424	26949315	80400225	191	52016										
NPAS3	64067	broad.mit.edu	37	chr14	33684419	33684419	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgagaaaggagaaatcccgaGatgctgctcgctcccgccgg	13	12	0	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr14:33684419G>A	uc001wru.2	+	3	236	c.172G>A	c.(172-174)GAT>AAT	p.D58N	NPAS3_uc001wrs.2_Missense_Mutation_p.D28N|NPAS3_uc001wrt.2_Missense_Mutation_p.D28N|NPAS3_uc001wrv.2_Missense_Mutation_p.D28N|NPAS3_uc001wrw.2_5'UTR	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	58	Basic motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity	p.L58L(1)		ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		GAAATCCCGAGATGCTGCTCG	0.453													47	35	---	---	---	---	PASS	A	33684419	A	A	33684419	3	1	146	1	0	0	0	0	1	0	0	0	10564	942	33	2	182	2	NPAS3	14	33684419	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	6735104	33684419	73665121	192	52017										
PAPLN	89932	broad.mit.edu	37	chr14	73717712	73717712	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctgctaccccgtcgcaggcaCctttgacgctaatgacctca	8	16	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr14:73717712C>T	uc010ttx.1	+	6	726	c.563C>T	c.(562-564)ACC>ATC	p.T188I	PAPLN_uc001xnw.3_Missense_Mutation_p.T188I|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.T188I	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	188						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GTCGCAGGCACCTTTGACGCT	0.632													4	83	---	---	---	---	PASS	T	73717712	T	T	73717712	3	4	146	1	0	0	0	0	1	0	0	0	11428	507	18	3	585	3	PAPLN	14	73717712	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	40033293	73717712	33631828	193	52018										
TSHR	7253	broad.mit.edu	37	chr14	81609743	81609743	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	accagccactacaaactgaaCgtcccccgctttctcatgtg	6	16	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr14:81609743C>A	uc001xvd.1	+	10	1497	c.1341C>A	c.(1339-1341)AAC>AAA	p.N447K		NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	447	Cytoplasmic (Potential).				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	ACAAACTGAACGTCCCCCGCT	0.517			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						81	39	---	---	---	---	PASS	A	81609743	A	A	81609743	3	1	146	1	0	0	0	0	1	0	0	0	16619	535	19	1	1516	1	TSHR	14	81609743	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	7892031	81609743	25739797	194	52019										
PTPN21	11099	broad.mit.edu	37	chr14	88940130	88940130	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	caattttttttgcatctactCgagtctttttcattccctgt	4	10	3	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr14:88940130C>A	uc001xwv.3	-	14	2859	c.2528G>T	c.(2527-2529)CGA>CTA	p.R843L	PTPN21_uc010twc.1_Missense_Mutation_p.R639L	NM_007039	NP_008970	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type	843						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			ovary(3)|skin(1)	4						TGCATCTACTCGAGTCTTTTT	0.403													8	90	---	---	---	---	PASS	A	88940130	A	A	88940130	3	1	146	1	0	0	0	0	1	0	0	0	12786	884	31	2	1020	2	PTPN21	14	88940130	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	7330387	88940130	18409410	195	52020										
OR4M2	390538	broad.mit.edu	37	chr15	22369104	22369104	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggcccaatgagttagacagtTacttctgtgacatcacacag	9	10	2	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr15:22369104T>C	uc010tzu.1	+	1	529	c.529T>C	c.(529-531)TAC>CAC	p.Y177H	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	177	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GTTAGACAGTTACTTCTGTGA	0.507													121	356	---	---	---	---	PASS	C	22369104	C	C	22369104	3	2	146	1	0	0	0	0	1	0	0	0	11076	1754	61	5	531	5	OR4M2	15	22369104	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08		22369104	80162288	196	52021										
UBE3A	7337	broad.mit.edu	37	chr15	25585248	25585248	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctacctttctgtgtctgggcCatttttggctataatcatct	7	10	4	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr15:25585248C>A	uc001zaq.2	-	10	2491	c.2491G>T	c.(2491-2493)GGC>TGC	p.G831C	uc001zae.2_Intron|UBE3A_uc001zar.2_Missense_Mutation_p.G808C|UBE3A_uc001zas.2_Missense_Mutation_p.G828C|UBE3A_uc001zat.2_Missense_Mutation_p.G808C	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	831	HECT.				brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		GTGTCTGGGCCATTTTTGGCT	0.393													59	97	---	---	---	---	PASS	A	25585248	A	A	25585248	3	1	146	1	0	0	0	0	1	0	0	0	16876	594	21	3	144	3	UBE3A	15	25585248	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	3216144	25585248	76946144	197	52022										
SEMA6D	80031	broad.mit.edu	37	chr15	48063935	48063935	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgccaccaaagccttcctttGttcctcaaaccccatctgtc	4	17	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr15:48063935G>C	uc010bek.2	+	19	3535	c.3175G>C	c.(3175-3177)GTT>CTT	p.V1059L	SEMA6D_uc001zvw.2_Missense_Mutation_p.V997L|SEMA6D_uc001zvy.2_Missense_Mutation_p.V1059L|SEMA6D_uc001zvz.2_Missense_Mutation_p.V1003L|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Missense_Mutation_p.V997L|SEMA6D_uc001zwc.2_Missense_Mutation_p.V984L	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	1059	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		GCCTTCCTTTGTTCCTCAAAC	0.502													143	214	---	---	---	---	PASS	C	48063935	C	C	48063935	3	2	146	1	0	0	0	0	1	0	0	0	14042	1377	48	4	3288	4	SEMA6D	15	48063935	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	22478687	48063935	54467457	198	52023										
ATP8B4	79895	broad.mit.edu	37	chr15	50158605	50158605	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tactgtgcattgtaaataaaAtggagaaataaatggcaatg	9	3	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr15:50158605A>G	uc001zxu.2	-	26	3246	c.3104T>C	c.(3103-3105)ATT>ACT	p.I1035T	ATP8B4_uc010ber.2_Missense_Mutation_p.I908T|ATP8B4_uc010ufd.1_Missense_Mutation_p.I845T|ATP8B4_uc010ufe.1_RNA|ATP8B4_uc001zxt.2_Missense_Mutation_p.I38T	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	1035	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		TGTAAATAAAATGGAGAAATA	0.388													40	83	---	---	---	---	PASS	G	50158605	G	G	50158605	3	3	146	1	0	0	0	0	1	0	0	0	1197	101	4	5	486	5	ATP8B4	15	50158605	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	2094670	50158605	52372787	199	52024										
RFX7	64864	broad.mit.edu	37	chr15	56387143	56387143	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agaagtgggtgctggaagtgTgagatgacattggagctcct	16	5	0	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr15:56387143T>A	uc010bfn.2	-	9	2783	c.2783A>T	c.(2782-2784)CAC>CTC	p.H928L	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Missense_Mutation_p.H742L	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	831					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						GCTGGAAGTGTGAGATGACAT	0.368													20	19	---	---	---	---	PASS	A	56387143	A	A	56387143	3	1	146	1	0	0	0	0	1	0	0	0	13268	1696	59	5	1603	5	RFX7	15	56387143	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	6228538	56387143	46144249	200	52025										
C15orf27	123591	broad.mit.edu	37	chr15	76430135	76430135	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agcattgctcctgtgcagctGgtgaactttgcctatcggga	12	10	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr15:76430135G>A	uc002bbq.2	+	3	281	c.126G>A	c.(124-126)CTG>CTA	p.L42L	C15orf27_uc010bkp.2_5'UTR|C15orf27_uc002bbr.2_5'UTR	NM_152335	NP_689548	Q2M3C6	CO027_HUMAN	hypothetical protein LOC123591	42						integral to membrane					0						CTGTGCAGCTGGTGAACTTTG	0.527													76	104	---	---	---	---	PASS	A	76430135	A	A	76430135	2	1	146	1	0	0	0	0	0	0	0	1	1788	1335	47	3		3	C15orf27	15	76430135	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	20042992	76430135	26101257	201	52026										
SGK269	79834	broad.mit.edu	37	chr15	77425758	77425758	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gggacaggtctctccttgcgCaaaggcctttccaaggagtc	12	12	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr15:77425758C>T	uc002bcm.2	-	5	3974	c.3666G>A	c.(3664-3666)TTG>TTA	p.L1222L		NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	1222					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		TCTCCTTGCGCAAAGGCCTTT	0.483													40	66	---	---	---	---	PASS	T	77425758	T	T	77425758	2	4	146	1	0	0	0	0	0	0	0	1	14211	709	25	3		3	SGK269	15	77425758	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	995623	77425758	25105634	202	52027										
DEXI	28955	broad.mit.edu	37	chr16	11035742	11035742	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	catgaggaaggcgtagtacaGgatcagcacattgacgaaga	13	7	1	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr16:11035742G>A	uc002dal.2	-	1	516	c.121C>T	c.(121-123)CTG>TTG	p.L41L	CLEC16A_uc002dan.3_5'Flank|CLEC16A_uc002dao.2_5'Flank	NM_014015	NP_054734	O95424	DEXI_HUMAN	dexamethasone-induced protein	41											0						GCGTAGTACAGGATCAGCACA	0.642													14	4	---	---	---	---	PASS	A	11035742	A	A	11035742	2	1	146	1	0	0	0	0	0	0	0	1	4451	991	35	3		3	DEXI	16	11035742	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08		11035742	79319011	203	52028										
SEZ6L2	26470	broad.mit.edu	37	chr16	29884939	29884939	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgagcatggctgccccctcgAggctgtaccctggcaggcag	14	14	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr16:29884939A>G	uc002duq.3	-	13	2456	c.2216T>C	c.(2215-2217)CTC>CCC	p.L739P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.L669P|SEZ6L2_uc002dur.3_Missense_Mutation_p.L669P|SEZ6L2_uc002dus.3_Missense_Mutation_p.L625P|SEZ6L2_uc010vec.1_Missense_Mutation_p.L739P|SEZ6L2_uc010ved.1_Missense_Mutation_p.L695P	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	739	Sushi 4.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						TGCCCCCTCGAGGCTGTACCC	0.677													14	17	---	---	---	---	PASS	G	29884939	G	G	29884939	3	3	146	1	0	0	0	0	1	0	0	0	14144	304	11	5	579	5	SEZ6L2	16	29884939	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	18849197	29884939	60469814	204	52029										
SERPINF1	5176	broad.mit.edu	37	chr17	1673345	1673346	+	Splice_Site	INS	-	TC	TC													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctctcggccctctcgctgggINStgagtgctcagatgcaggaa							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr17:1673345_1673346insTC	uc002ftl.2	+	3	440	c.283_splice	c.e3+1	p.G95_splice	SERPINF1_uc010cjw.2_Intron	NM_002615	NP_002606	P36955	PEDF_HUMAN	serine (or cysteine) proteinase inhibitor, clade						cell proliferation|negative regulation of angiogenesis|positive regulation of neurogenesis|regulation of proteolysis	extracellular space|melanosome	serine-type endopeptidase inhibitor activity			ovary(1)	1						CTCTCGCTGGGTGAGTGCTCAG	0.624													15	14	---	---	---	---		TC	1673346	TC	TC	1673345	8	5	146	1	0	1	1	0	0	0	1	0	14114	1275	44	0	290	0	SERPINF1	17	1673345	Splice_Site	INS	-	TCGA-66-2757-01A-01D-1522-08		1673345	79521865	205	52030										
TP53	7157	broad.mit.edu	37	chr17	7579355	7579355	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tcccagaatgcaagaagcccAgacggaaaccgtagctgccc	10	14	0	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr17:7579355A>C	uc002gim.2	-	4	526	c.332T>G	c.(331-333)CTG>CGG	p.L111R	TP53_uc002gig.1_Missense_Mutation_p.L111R|TP53_uc002gih.2_Missense_Mutation_p.L111R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Missense_Mutation_p.L111R|TP53_uc010cni.1_Missense_Mutation_p.L111R|TP53_uc002gij.2_Missense_Mutation_p.L111R|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Missense_Mutation_p.L72R|TP53_uc010cnk.1_Missense_Mutation_p.L126R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	111	|Interaction with HIPK1 (By similarity).		L -> Q (in sporadic cancers; somatic mutation).|L -> P (in sporadic cancers; somatic mutation).|L -> M (in a sporadic cancer; somatic mutation).|L -> R (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.L111P(6)|p.L111Q(4)|p.L111R(4)|p.G59fs*23(3)|p.V73fs*9(1)|p.G105_T125del21(1)|p.G112_V122delGFLHSGTAKSV(1)|p.Y107fs*44(1)|p.L111L(1)|p.L111M(1)|p.L111fs*10(1)|p.Y103_G112>C(1)|p.P13fs*18(1)|p.S33fs*23(1)|p.Y103_L111>L(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)		CAAGAAGCCCAGACGGAAACC	0.617		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)			38	13	---	---	---	---	PASS	C	7579355	C	C	7579355	3	2	146	1	0	0	0	0	1	0	0	0	16378	188	7	5	970	5	TP53	17	7579355	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	5906010	7579355	73615855	206	52031										
HS3ST3A1	9955	broad.mit.edu	37	chr17	13400066	13400066	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gagatgcgcgcgggggcctcCcgcgtgacgaagtaactggg	18	11	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr17:13400066C>A	uc002gob.1	-	2	1467	c.669G>T	c.(667-669)CGG>CGT	p.R223R		NM_006042	NP_006033	Q9Y663	HS3SA_HUMAN	heparan sulfate D-glucosaminyl	223	Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 3 activity			ovary(1)|central_nervous_system(1)	2		all_lung(20;0.114)		UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CGGGGGCCTCCCGCGTGACGA	0.622													28	17	---	---	---	---	PASS	A	13400066	A	A	13400066	2	1	146	1	0	0	0	0	0	0	0	1	7365	610	22	3		3	HS3ST3A1	17	13400066	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	5820711	13400066	67795144	207	52032										
LYZL6	57151	broad.mit.edu	37	chr17	34266340	34266340	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agaaagctgctgaccaaataGatgagtagcgcctttgtcat	10	8	1	4	rs141105239		TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr17:34266340G>C	uc002hkj.1	-	1	171	c.21C>G	c.(19-21)ATC>ATG	p.I7M	LYZL6_uc002hkk.1_Missense_Mutation_p.I7M	NM_020426	NP_065159	O75951	LYZL6_HUMAN	lysozyme-like 6 precursor	7					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TGACCAAATAGATGAGTAGCG	0.547													60	136	---	---	---	---	PASS	C	34266340	C	C	34266340	3	2	146	1	0	0	0	0	1	0	0	0	9134	932	33	2	441	2	LYZL6	17	34266340	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	20866274	34266340	46928870	208	52033										
FBXL20	84961	broad.mit.edu	37	chr17	37420578	37420578	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acctccagctggtcatgggcGcaggccccattccccaggtg	12	16	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr17:37420578G>T	uc010wed.1	-	14	1274	c.1053C>A	c.(1051-1053)TGC>TGA	p.C351*	FBXL20_uc002hrt.2_Nonsense_Mutation_p.C351*|FBXL20_uc010cvu.2_Nonsense_Mutation_p.C319*	NM_032875	NP_116264	Q96IG2	FXL20_HUMAN	F-box and leucine-rich repeat protein 20	351	LRR 11.					cytoplasm				ovary(1)	1			LUAD - Lung adenocarcinoma(14;0.146)			GGTCATGGGCGCAGGCCCCAT	0.517													59	79	---	---	---	---	PASS	T	37420578	T	T	37420578	4	4	146	1	0	0	0	0	0	1	0	0	5717	1079	38	1	265	1	FBXL20	17	37420578	Nonsense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	3154238	37420578	43774632	209	52034										
KRT17	3872	broad.mit.edu	37	chr17	39778625	39778625	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acctcctcgtggttcttcttCaggtaggccagctcctcctt	8	15	3	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr17:39778625C>A	uc002hxh.2	-	3	775	c.654G>T	c.(652-654)CTG>CTT	p.L218L	JUP_uc010wfs.1_Intron	NM_000422	NP_000413	Q04695	K1C17_HUMAN	keratin 17	218	Coil 1B.|Rod.				epidermis development	cytoplasm|intermediate filament	protein binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2		Breast(137;0.000307)				GGTTCTTCTTCAGGTAGGCCA	0.622									Steatocystoma_Multiplex				8	114	---	---	---	---	PASS	A	39778625	A	A	39778625	2	1	146	1	0	0	0	0	0	0	0	1	8454	813	29	2		2	KRT17	17	39778625	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	2358047	39778625	41416585	210	52035										
AOC3	8639	broad.mit.edu	37	chr17	41007479	41007479	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aggtaccagctggctgtgacCcagcggaaggaggaggagcc	17	10	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr17:41007479C>A	uc002ibv.2	+	3	2065	c.1905C>A	c.(1903-1905)ACC>ACA	p.T635T		NM_003734	NP_003725	Q16853	AOC3_HUMAN	amine oxidase, copper containing 3 precursor	635	Extracellular (Potential).				amine metabolic process|cell adhesion|inflammatory response	cell surface|integral to membrane|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|protein homodimerization activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)	Hydralazine(DB01275)|Phenelzine(DB00780)	TGGCTGTGACCCAGCGGAAGG	0.552													7	16	---	---	---	---	PASS	A	41007479	A	A	41007479	2	1	146	1	0	0	0	0	0	0	0	1	728	610	22	3		3	AOC3	17	41007479	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	1228854	41007479	40187731	211	52036										
MPP3	4356	broad.mit.edu	37	chr17	41891393	41891393	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tcttacgtggaacagcgacgCcaaagtgctgtgggttctca	12	10	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr17:41891393C>A	uc002iei.3	-	16	1407	c.1241G>T	c.(1240-1242)GGC>GTC	p.G414V	MPP3_uc002ieh.2_Missense_Mutation_p.G439V|MPP3_uc002iej.2_RNA	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	414	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		AACAGCGACGCCAAAGTGCTG	0.542													62	117	---	---	---	---	PASS	A	41891393	A	A	41891393	3	1	146	1	0	0	0	0	1	0	0	0	9735	739	26	3	536	3	MPP3	17	41891393	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	883914	41891393	39303817	212	52037										
DCAKD	79877	broad.mit.edu	37	chr17	43107538	43107538	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gggggatatccagaatcacgTagcggtatcctggggagagg	17	7	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr17:43107538T>C	uc002ihx.2	-	3	582	c.326A>G	c.(325-327)TAC>TGC	p.Y109C	DCAKD_uc010daa.1_Missense_Mutation_p.Y109C|DCAKD_uc010dab.1_Missense_Mutation_p.Y109C	NM_024819	NP_079095	Q8WVC6	DCAKD_HUMAN	dephospho-CoA kinase domain containing	109	DPCK.				coenzyme A biosynthetic process		ATP binding|dephospho-CoA kinase activity				0		Prostate(33;0.155)				CAGAATCACGTAGCGGTATCC	0.537													86	135	---	---	---	---	PASS	C	43107538	C	C	43107538	3	2	146	1	0	0	0	0	1	0	0	0	4279	1638	57	5	377	5	DCAKD	17	43107538	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	1216145	43107538	38087672	213	52038										
SCN4A	6329	broad.mit.edu	37	chr17	62018584	62018584	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tccccagagtcacccaggacCtctttggtcagggcaaagag	11	13	3	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr17:62018584C>A	uc002jds.1	-	24	5135	c.5058G>T	c.(5056-5058)GAG>GAT	p.E1686D		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1686					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	CACCCAGGACCTCTTTGGTCA	0.567													56	177	---	---	---	---	PASS	A	62018584	A	A	62018584	3	1	146	1	0	0	0	0	1	0	0	0	13920	680	24	3	456	3	SCN4A	17	62018584	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	18911046	62018584	19176626	214	52039										
BAHCC1	57597	broad.mit.edu	37	chr17	79414562	79414562	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acgagggggagcagccggccCctgaggaggacgagctggag	20	10	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr17:79414562C>T	uc002kaf.2	+	9	3664	c.3664C>T	c.(3664-3666)CCT>TCT	p.P1222S	BAHCC1_uc002kae.2_Missense_Mutation_p.P452S	NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	1222							DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			GCAGCCGGCCCCTGAGGAGGA	0.697													3	7	---	---	---	---	PASS	T	79414562	T	T	79414562	3	4	146	1	0	0	0	0	1	0	0	0	1296	623	22	3	3537	3	BAHCC1	17	79414562	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	17395978	79414562	1780648	215	52040										
P4HB	5034	broad.mit.edu	37	chr17	79813047	79813047	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gaggacaaccccatctttgtCgagctggtatttggagaaca	11	9	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr17:79813047C>G	uc002kbn.1	-	4	792	c.595G>C	c.(595-597)GAC>CAC	p.D199H	P4HB_uc002kbm.1_5'UTR	NM_000918	NP_000909	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta subunit precursor	199					cell redox homeostasis|glycerol ether metabolic process|lipid metabolic process|lipoprotein metabolic process|peptidyl-proline hydroxylation to 4-hydroxy-L-proline	cell surface|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|extracellular region|melanosome|plasma membrane	electron carrier activity|procollagen-proline 4-dioxygenase activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			CCATCTTTGTCGAGCTGGTAT	0.542													10	585	---	---	---	---	PASS	G	79813047	G	G	79813047	3	3	146	1	0	0	0	0	1	0	0	0	11359	884	31	2	963	2	P4HB	17	79813047	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	398485	79813047	1382163	216	52041										
COLEC12	81035	broad.mit.edu	37	chr18	334876	334876	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcaagcctggcagtccccgaGgtccaggcaccccaggctcc	12	18	0	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr18:334876G>C	uc002kkm.2	-	6	1897	c.1682C>G	c.(1681-1683)CCT>CGT	p.P561R		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	561	Collagen-like 3.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				CAGTCCCCGAGGTCCAGGCAC	0.741													10	9	---	---	---	---	PASS	C	334876	C	C	334876	3	2	146	1	0	0	0	0	1	0	0	0	3712	1000	35	4	566	4	COLEC12	18	334876	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08		334876	77742372	217	52042										
MYL12B	103910	broad.mit.edu	37	chr18	3277383	3277383	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgaagatgtcatcagaaacgCctttgcttgctttgatgaag	10	7	2	5			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr18:3277383C>T	uc010dkl.2	+	3	476	c.317C>T	c.(316-318)GCC>GTC	p.A106V	MYL12B_uc002klt.3_Missense_Mutation_p.A84V|MYL12B_uc010wyv.1_Missense_Mutation_p.A106V	NM_001144944	NP_001138416	O14950	ML12B_HUMAN	myosin regulatory light chain MRCL2 isoform A	106	EF-hand 2.				axon guidance|muscle contraction	cytosol|myosin complex	calcium ion binding				0						ATCAGAAACGCCTTTGCTTGC	0.433													102	135	---	---	---	---	PASS	T	3277383	T	T	3277383	3	4	146	1	0	0	0	0	1	0	0	0	10046	739	26	3	323	3	MYL12B	18	3277383	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	2942507	3277383	74799865	218	52043										
LAMA3	3909	broad.mit.edu	37	chr18	21390438	21390438	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcggtgtgacaggtgtctctCaggagcttatgatttccccc	12	11	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr18:21390438C>T	uc002kuq.2	+	13	1798	c.1712C>T	c.(1711-1713)TCA>TTA	p.S571L	LAMA3_uc002kur.2_Missense_Mutation_p.S571L	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	571	Domain V.|Laminin EGF-like 5.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGGTGTCTCTCAGGAGCTTAT	0.552													41	75	---	---	---	---	PASS	T	21390438	T	T	21390438	3	4	146	1	0	0	0	0	1	0	0	0	8607	838	29	2	1762	2	LAMA3	18	21390438	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	18113055	21390438	56686810	219	52044										
ZNF521	25925	broad.mit.edu	37	chr18	22806383	22806383	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctgcagggtttgcaaatccaTgagaacatcggatgtgttcc	11	9	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr18:22806383T>A	uc002kvk.2	-	4	1746	c.1499A>T	c.(1498-1500)CAT>CTT	p.H500L	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.H500L|ZNF521_uc002kvl.2_Missense_Mutation_p.H280L	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	500	C2H2-type 11.				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)					TGCAAATCCATGAGAACATCG	0.443			T	PAX5	ALL								58	113	---	---	---	---	PASS	A	22806383	A	A	22806383	3	1	146	1	0	0	0	0	1	0	0	0	17962	1464	51	5	2456	5	ZNF521	18	22806383	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	1415945	22806383	55270865	220	52045										
DSG4	147409	broad.mit.edu	37	chr18	28989767	28989767	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acccaggatcggatggattcCtctggtcagtagacaccaaa	10	11	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr18:28989767C>T	uc002kwq.2	+	14	2268	c.2133C>T	c.(2131-2133)TCC>TCT	p.S711S	DSG4_uc002kwr.2_Intron	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	711	Cytoplasmic (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GGATGGATTCCTCTGGTCAGT	0.343													34	65	---	---	---	---	PASS	T	28989767	T	T	28989767	2	4	146	1	0	0	0	0	0	0	0	1	4779	668	24	3		3	DSG4	18	28989767	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	6183384	28989767	49087481	221	52046										
DSEL	92126	broad.mit.edu	37	chr18	65180602	65180602	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccccataagtaaccacacccCagttagggaatgtgtgtatt	8	11	0	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr18:65180602C>T	uc002lke.1	-	2	2498	c.1274G>A	c.(1273-1275)TGG>TAG	p.W425*		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	415						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				AACCACACCCCAGTTAGGGAA	0.478													6	100	---	---	---	---	PASS	T	65180602	T	T	65180602	4	4	146	1	0	0	0	0	0	1	0	0	4775	595	21	3	2398	3	DSEL	18	65180602	Nonsense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	36190835	65180602	12896646	222	52047										
SALL3	27164	broad.mit.edu	37	chr18	76753665	76753665	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tccccgcagaggccctcgccCgcctccagcgagtgcgcctc	11	21	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr18:76753665C>A	uc002lmt.2	+	2	1674	c.1674C>A	c.(1672-1674)CCC>CCA	p.P558P	SALL3_uc010dra.2_Silent_p.P165P	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	558					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		GGCCCTCGCCCGCCTCCAGCG	0.756													4	1	---	---	---	---	PASS	A	76753665	A	A	76753665	2	1	146	1	0	0	0	0	0	0	0	1	13812	639	23	1		1	SALL3	18	76753665	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	11573063	76753665	1323583	223	52048										
MUC16	94025	broad.mit.edu	37	chr19	9065840	9065840	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gtggctttggatgtctctgaGtcagctaaggcagaggaagg	16	6	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:9065840G>C	uc002mkp.2	-	3	21810	c.21606C>G	c.(21604-21606)GAC>GAG	p.D7202E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7204	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATGTCTCTGAGTCAGCTAAGG	0.488													110	141	---	---	---	---	PASS	C	9065840	C	C	9065840	3	2	146	1	0	0	0	0	1	0	0	0	9973	1020	36	4	22245	4	MUC16	19	9065840	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08		9065840	50063143	224	52049										
OR7D2	162998	broad.mit.edu	37	chr19	9297382	9297382	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggagtctcctcagcagggcaGcctcttgtttgtgatggatc	13	10	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:9297382G>T	uc002mkz.1	+	1	1113	c.925G>T	c.(925-927)GCC>TCC	p.A309S		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	309	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						CAGCAGGGCAGCCTCTTGTTT	0.468													32	42	---	---	---	---	PASS	T	9297382	T	T	9297382	3	4	146	1	0	0	0	0	1	0	0	0	11219	971	34	3	927	3	OR7D2	19	9297382	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	231542	9297382	49831601	225	52050										
OLFM2	93145	broad.mit.edu	37	chr19	9968144	9968144	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aggggcaacagttccgtcatCctgtccttcagctcctgtgc	10	14	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:9968144C>A	uc002mmp.2	-	4	403	c.375G>T	c.(373-375)AGG>AGT	p.R125S	OLFM2_uc002mmo.2_Missense_Mutation_p.R47S	NM_058164	NP_477512	O95897	NOE2_HUMAN	olfactomedin 2 precursor	125						extracellular region				large_intestine(1)|skin(1)	2						GTTCCGTCATCCTGTCCTTCA	0.572													16	34	---	---	---	---	PASS	A	9968144	A	A	9968144	3	1	146	1	0	0	0	0	1	0	0	0	10853	854	30	2	1001	2	OLFM2	19	9968144	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	670762	9968144	49160839	226	52051										
S1PR2	9294	broad.mit.edu	37	chr19	10334967	10334967	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atgcgcacgtacagggccacGatggccaacaggatgatgga	14	10	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:10334967G>A	uc002mnl.2	-	2	726	c.615C>T	c.(613-615)ATC>ATT	p.I205I		NM_004230	NP_004221	O95136	S1PR2_HUMAN	endothelial differentiation, sphingolipid	205	Helical; Name=5; (By similarity).				activation of MAPK activity|positive regulation of cell proliferation	integral to membrane|plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			lung(1)|central_nervous_system(1)	2						ACAGGGCCACGATGGCCAACA	0.627													7	53	---	---	---	---	PASS	A	10334967	A	A	10334967	2	1	146	1	0	0	0	0	0	0	0	1	13794	1048	37	2		2	S1PR2	19	10334967	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	366823	10334967	48794016	227	52052										
ICAM4	3386	broad.mit.edu	37	chr19	10398376	10398376	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tggagcgcttcaccggcctgGatctggccaacgtgaccttg	13	13	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:10398376G>T	uc002mns.1	+	2	598	c.559G>T	c.(559-561)GAT>TAT	p.D187Y	ICAM4_uc002mnr.1_Missense_Mutation_p.G161V|ICAM4_uc002mnt.1_Missense_Mutation_p.D187Y|ICAM5_uc002mnu.3_5'Flank	NM_001544	NP_001535	Q14773	ICAM4_HUMAN	intercellular adhesion molecule 4 isoform 1	187	Ig-like C2-type 2.|Extracellular (Potential).				cell-cell adhesion|regulation of immune response	extracellular region|integral to membrane|plasma membrane	integrin binding			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			CACCGGCCTGGATCTGGCCAA	0.632													31	43	---	---	---	---	PASS	T	10398376	T	T	10398376	3	4	146	1	0	0	0	0	1	0	0	0	7482	1174	41	2	565	2	ICAM4	19	10398376	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	63409	10398376	48730607	228	52053										
ZNF442	79973	broad.mit.edu	37	chr19	12461833	12461833	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggtttcccgaagaactgaagGttttcccacattccttacaa	7	11	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:12461833G>A	uc002mtr.1	-	6	1177	c.566C>T	c.(565-567)ACC>ATC	p.T189I	ZNF442_uc010xmk.1_Missense_Mutation_p.T120I	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	189	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						AGAACTGAAGGTTTTCCCACA	0.418													4	234	---	---	---	---	PASS	A	12461833	A	A	12461833	3	1	146	1	0	0	0	0	1	0	0	0	17912	1261	44	3	1321	3	ZNF442	19	12461833	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	2063457	12461833	46667150	229	52054										
MAN2B1	4125	broad.mit.edu	37	chr19	12768935	12768935	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttggccgccaggcccaccagCgcctccagctggttgcacac	11	18	0	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:12768935C>A	uc002mub.2	-	10	1327	c.1251G>T	c.(1249-1251)GCG>GCT	p.A417A	MAN2B1_uc010dyv.1_Silent_p.A416A	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	417					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						GGCCCACCAGCGCCTCCAGCT	0.682													21	18	---	---	---	---	PASS	A	12768935	A	A	12768935	2	1	146	1	0	0	0	0	0	0	0	1	9216	755	27	1		1	MAN2B1	19	12768935	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	307102	12768935	46360048	230	52055										
C19orf44	84167	broad.mit.edu	37	chr19	16614123	16614123	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcatgtcaagcttgtgtcctCcccgggaaggagtgaggctg	15	10	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:16614123C>G	uc002neh.1	+	3	1080	c.1007C>G	c.(1006-1008)TCC>TGC	p.S336C	MED26_uc002nee.2_Intron|C19orf44_uc002nef.1_Missense_Mutation_p.S336C|C19orf44_uc002neg.2_Missense_Mutation_p.S336C|C19orf44_uc010eai.1_RNA	NM_032207	NP_115583	Q9H6X5	CS044_HUMAN	hypothetical protein LOC84167	336											0						CTTGTGTCCTCCCCGGGAAGG	0.562													28	56	---	---	---	---	PASS	G	16614123	G	G	16614123	3	3	146	1	0	0	0	0	1	0	0	0	1927	855	30	2	1013	2	C19orf44	19	16614123	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	3845188	16614123	42514860	231	52056										
MAG	4099	broad.mit.edu	37	chr19	35804240	35804240	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	aggctgctgggccttcggggTgagcccccagagctggacct	16	13	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:35804240T>G	uc002nyy.1	+	11	1913	c.1764T>G	c.(1762-1764)GGT>GGG	p.G588G	MAG_uc002nyx.1_3'UTR|MAG_uc010eds.1_Silent_p.G563G|MAG_uc002nyz.1_Silent_p.G588G	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	588	Cytoplasmic (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GCCTTCGGGGTGAGCCCCCAG	0.617													41	63	---	---	---	---	PASS	G	35804240	G	G	35804240	2	3	146	1	0	0	0	0	0	0	0	1	9162	1683	59	5		5	MAG	19	35804240	Silent	SNP	T	TCGA-66-2757-01A-01D-1522-08	19190117	35804240	23324743	232	52057										
RYR1	6261	broad.mit.edu	37	chr19	38937345	38937345	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgtccccagacttgtctactAtgaggggggagctgtgtgca	14	9	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:38937345A>G	uc002oit.2	+	9	867	c.737A>G	c.(736-738)TAT>TGT	p.Y246C	RYR1_uc002oiu.2_Missense_Mutation_p.Y246C	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	246	MIR 3.|Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CTTGTCTACTATGAGGGGGGA	0.597													44	64	---	---	---	---	PASS	G	38937345	G	G	38937345	3	3	146	1	0	0	0	0	1	0	0	0	13768	449	16	5	771	5	RYR1	19	38937345	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	3133105	38937345	20191638	233	52058										
SPTBN4	57731	broad.mit.edu	37	chr19	41063166	41063166	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttcataagttcttcagtgacGcccgagagcttcagggacag	11	10	4	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:41063166G>T	uc002ony.2	+	26	5613	c.5527G>T	c.(5527-5529)GCC>TCC	p.A1843S	SPTBN4_uc002onx.2_Missense_Mutation_p.A1843S|SPTBN4_uc002onz.2_Missense_Mutation_p.A1843S|SPTBN4_uc010egx.2_Missense_Mutation_p.A586S|SPTBN4_uc002ooa.2_Missense_Mutation_p.A519S	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1843	Spectrin 16.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CTTCAGTGACGCCCGAGAGCT	0.662													15	36	---	---	---	---	PASS	T	41063166	T	T	41063166	3	4	146	1	0	0	0	0	1	0	0	0	15120	1087	38	1	5625	1	SPTBN4	19	41063166	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	2125821	41063166	18065817	234	52059										
CPT1C	126129	broad.mit.edu	37	chr19	50195642	50195642	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cctggaaaaggcatctctcaCgtttctgggtgaggagcggt	14	9	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:50195642C>T	uc002ppj.2	+	2	338	c.133C>T	c.(133-135)CGT>TGT	p.R45C	CPT1C_uc002ppl.3_Missense_Mutation_p.R45C|CPT1C_uc002ppi.2_Translation_Start_Site|CPT1C_uc002ppk.2_Missense_Mutation_p.R45C|CPT1C_uc010eng.2_Missense_Mutation_p.R45C|CPT1C_uc010enh.2_Missense_Mutation_p.R45C|CPT1C_uc010ybc.1_Translation_Start_Site	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	45	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		GCATCTCTCACGTTTCTGGGT	0.597													12	29	---	---	---	---	PASS	T	50195642	T	T	50195642	3	4	146	1	0	0	0	0	1	0	0	0	3833	536	19	1	135	1	CPT1C	19	50195642	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	9132476	50195642	8933341	235	52060										
SIGLEC7	27036	broad.mit.edu	37	chr19	51647859	51647859	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctcatcccacagccccagcaCcacggcaccagcctcacctg	6	22	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:51647859C>A	uc002pvv.1	+	2	699	c.630C>A	c.(628-630)CAC>CAA	p.H210Q	SIGLEC7_uc002pvw.1_Intron|SIGLEC7_uc010eoq.1_Intron|SIGLEC7_uc010eor.1_Intron	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	210	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		AGCCCCAGCACCACGGCACCA	0.647													27	35	---	---	---	---	PASS	A	51647859	A	A	51647859	3	1	146	1	0	0	0	0	1	0	0	0	14313	506	18	3	636	3	SIGLEC7	19	51647859	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	1452217	51647859	7481124	236	52061										
NLRP13	126204	broad.mit.edu	37	chr19	56423270	56423270	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	actcgtgtaggcagtgaaaaAgtcgtagaatgtgaaattgg	13	4	0	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:56423270A>G	uc010ygg.1	-	5	1938	c.1913T>C	c.(1912-1914)CTT>CCT	p.L638P		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	638							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)		GCAGTGAAAAAGTCGTAGAAT	0.418													62	118	---	---	---	---	PASS	G	56423270	G	G	56423270	3	3	146	1	0	0	0	0	1	0	0	0	10475	72	3	5	1244	5	NLRP13	19	56423270	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	4775411	56423270	2705713	237	52062										
ZNF211	10520	broad.mit.edu	37	chr19	58153213	58153214	+	Frame_Shift_Del	DEL	TG	-	-													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cacacaggggaaaggccttaTgtgtgtggggaatgtgggaa							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:58153213_58153214delTG	uc002qpq.2	+	3	1539_1540	c.1359_1360delTG	c.(1357-1362)TATGTGfs	p.Y453fs	ZNF211_uc010yhb.1_Frame_Shift_Del_p.Y457fs|ZNF211_uc002qpp.2_Frame_Shift_Del_p.Y466fs|ZNF211_uc002qpr.2_Frame_Shift_Del_p.Y517fs|ZNF211_uc002qps.2_Frame_Shift_Del_p.Y518fs|ZNF211_uc002qpt.2_Frame_Shift_Del_p.Y465fs|ZNF211_uc010yhc.1_Frame_Shift_Del_p.Y465fs|ZNF211_uc010yhd.1_Frame_Shift_Del_p.Y392fs|ZNF211_uc010yhe.1_Frame_Shift_Del_p.Y444fs	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	453_454	C2H2-type 9.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AAAGGCCTTATGTGTGTGGGGA	0.47													86	53	---	---	---	---		-	58153214	-	-	58153213	7	5	146	1	0	1	0	1	0	0	0	0	17764	1471	51	0	1412	0	ZNF211	19	58153213	Frame_Shift_Del	DEL	TG	TCGA-66-2757-01A-01D-1522-08	1729943	58153213	975770	238	52063										
ZNF135	7694	broad.mit.edu	37	chr19	58573067	58573067	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gacaccttcaggcttctggtCtctgtgggtaaggccacacc	11	13	3	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr19:58573067C>A	uc010yhq.1	+	3	249	c.153C>A	c.(151-153)GTC>GTA	p.V51V	ZNF135_uc002qre.2_Silent_p.V51V|ZNF135_uc002qrd.1_Silent_p.V9V|ZNF135_uc002qrf.2_Silent_p.V9V|ZNF135_uc002qrg.2_Silent_p.V9V|ZNF135_uc010yhr.1_Intron	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	51					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		GGCTTCTGGTCTCTGTGGGTA	0.517													89	119	---	---	---	---	PASS	A	58573067	A	A	58573067	2	1	146	1	0	0	0	0	0	0	0	1	17722	900	32	2		2	ZNF135	19	58573067	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	419854	58573067	555916	239	52064										
PLCB1	23236	broad.mit.edu	37	chr20	8709735	8709735	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tagcaggatatatccaaaagGaacacgtgtggattcatcca	9	8	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr20:8709735G>T	uc002wnb.2	+	18	1805	c.1802G>T	c.(1801-1803)GGA>GTA	p.G601V	PLCB1_uc010zrb.1_Missense_Mutation_p.G500V|PLCB1_uc002wna.2_Missense_Mutation_p.G601V|PLCB1_uc002wnc.1_Missense_Mutation_p.G500V|PLCB1_uc002wnd.1_Missense_Mutation_p.G178V	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	601	PI-PLC Y-box.				activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TATCCAAAAGGAACACGTGTG	0.358													40	75	---	---	---	---	PASS	T	8709735	T	T	8709735	3	4	146	1	0	0	0	0	1	0	0	0	12027	1174	41	2	1872	2	PLCB1	20	8709735	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08		8709735	54315785	240	52065										
BTBD3	22903	broad.mit.edu	37	chr20	11903423	11903423	+	Silent	SNP	T	C	C													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctgagtgccaagaatgcctgTgtgctcctctcccagagctg							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr20:11903423T>C	uc002wnz.2	+	4	1037	c.678T>C	c.(676-678)TGT>TGC	p.C226C	BTBD3_uc002wny.2_Silent_p.C165C|BTBD3_uc002woa.2_Silent_p.C165C|BTBD3_uc010zrf.1_Silent_p.C75C|BTBD3_uc010zrg.1_Silent_p.C75C|BTBD3_uc010zrh.1_Silent_p.C75C	NM_014962	NP_055777	Q9Y2F9	BTBD3_HUMAN	BTB/POZ domain containing protein 3 isoform a	226										ovary(2)|central_nervous_system(1)	3						AGAATGCCTGTGTGCTCCTCT	0.552													42	76	---	---	---	---	PASS	C	11903423	C	C	11903423	2	2	146	1	0	0	0	0	0	0	0	1	1544	1702	59	5		5	BTBD3	20	11903423	Silent	SNP	T	TCGA-66-2757-01A-01D-1522-08	3193688	11903423	51122097	241	52066	956	2								
BTBD3	22903	broad.mit.edu	37	chr20	11903424	11903424	+	Missense_Mutation	SNP	G	T	T													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgagtgccaagaatgcctgtGtgctcctctcccagagctgc							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr20:11903424G>T	uc002wnz.2	+	4	1038	c.679G>T	c.(679-681)GTG>TTG	p.V227L	BTBD3_uc002wny.2_Missense_Mutation_p.V166L|BTBD3_uc002woa.2_Missense_Mutation_p.V166L|BTBD3_uc010zrf.1_Missense_Mutation_p.V76L|BTBD3_uc010zrg.1_Missense_Mutation_p.V76L|BTBD3_uc010zrh.1_Missense_Mutation_p.V76L	NM_014962	NP_055777	Q9Y2F9	BTBD3_HUMAN	BTB/POZ domain containing protein 3 isoform a	227										ovary(2)|central_nervous_system(1)	3						GAATGCCTGTGTGCTCCTCTC	0.557													42	74	---	---	---	---	PASS	T	11903424	T	T	11903424	3	4	146	1	0	0	0	0	1	0	0	0	1544	1377	48	3	693	3	BTBD3	20	11903424	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	1	11903424	51122096	242	52067	956	2								
TRPC4AP	26133	broad.mit.edu	37	chr20	33637788	33637788	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttctgccaaacgctttgtaaCtccctctgtctgtcacaaga	6	13	4	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr20:33637788C>A	uc002xbk.2	-	6	572	c.538G>T	c.(538-540)GTT>TTT	p.V180F	TRPC4AP_uc002xbl.2_Missense_Mutation_p.V180F|TRPC4AP_uc010zur.1_Missense_Mutation_p.V141F|TRPC4AP_uc002xbm.1_Missense_Mutation_p.V180F	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	180	Interaction with TNFRSF1A (By similarity).				protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			CGCTTTGTAACTCCCTCTGTC	0.363													53	142	---	---	---	---	PASS	A	33637788	A	A	33637788	3	1	146	1	0	0	0	0	1	0	0	0	16578	565	20	3	1911	3	TRPC4AP	20	33637788	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	21734364	33637788	29387732	243	52068										
JPH2	57158	broad.mit.edu	37	chr20	42815135	42815135	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cttggtctctatgcccagccCatgccgtttgccctggctcc	9	17	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr20:42815135C>A	uc002xli.1	-	1	1084	c.211G>T	c.(211-213)GGG>TGG	p.G71W	JPH2_uc002xlj.2_Missense_Mutation_p.G71W	NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	71	Gly-rich.|MORN 3.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			ATGCCCAGCCCATGCCGTTTG	0.597													21	62	---	---	---	---	PASS	A	42815135	A	A	42815135	3	1	146	1	0	0	0	0	1	0	0	0	7961	594	21	3	1914	3	JPH2	20	42815135	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	9177347	42815135	20210385	244	52069										
RIMS4	140730	broad.mit.edu	37	chr20	43438895	43438895	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gaggcggacagactgaggcgGctctgcgagcgctccatgcc	16	13	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr20:43438895G>T	uc002xms.2	-	1	18	c.18C>A	c.(16-18)AGC>AGA	p.S6R	RIMS4_uc010ggu.2_Missense_Mutation_p.S6R	NM_182970	NP_892015	Q9H426	RIMS4_HUMAN	regulating synaptic membrane exocytosis 4	6					exocytosis|neurotransmitter transport	cell junction|synapse				ovary(4)|central_nervous_system(1)	5		Myeloproliferative disorder(115;0.0122)				GACTGAGGCGGCTCTGCGAGC	0.507													6	4	---	---	---	---	PASS	T	43438895	T	T	43438895	3	4	146	1	0	0	0	0	1	0	0	0	13370	1194	42	3	815	3	RIMS4	20	43438895	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	623760	43438895	19586625	245	52070										
TPTE	7179	broad.mit.edu	37	chr21	10914395	10914395	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	taatgaaatagtggaaaagaCaacctttttctccatttcta	5	7	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr21:10914395C>A	uc002yip.1	-	21	1692	c.1324G>T	c.(1324-1326)GTC>TTC	p.V442F	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.V424F|TPTE_uc002yir.1_Missense_Mutation_p.V404F|TPTE_uc010gkv.1_Missense_Mutation_p.V304F	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	442	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		GTGGAAAAGACAACCTTTTTC	0.323													6	51	---	---	---	---	PASS	A	10914395	A	A	10914395	3	1	146	1	0	0	0	0	1	0	0	0	16427	478	17	3	347	3	TPTE	21	10914395	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08		10914395	37215500	246	52071										
USP25	29761	broad.mit.edu	37	chr21	17197357	17197357	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agactgaaagattacctcacGgtattacaacaaaggctaga	8	8	1	4			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr21:17197357G>A	uc002yjy.1	+	12	1498	c.1281G>A	c.(1279-1281)ACG>ACA	p.T427T	USP25_uc011aby.1_Silent_p.T427T|USP25_uc002yjz.1_Silent_p.T427T|USP25_uc010gla.1_Intron	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	427					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity	p.T427M(1)		ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		ATTACCTCACGGTATTACAAC	0.299													29	39	---	---	---	---	PASS	A	17197357	A	A	17197357	2	1	146	1	0	0	0	0	0	0	0	1	17053	1103	39	1		1	USP25	21	17197357	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	6282962	17197357	30932538	247	52072										
ABCG1	9619	broad.mit.edu	37	chr21	43645932	43645932	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	taacctcacggaagcccagcGcttctcctccttgcctcgga	8	17	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr21:43645932G>T	uc002zaq.2	+	2	300	c.194G>T	c.(193-195)CGC>CTC	p.R65L	ABCG1_uc002zan.2_Missense_Mutation_p.R67L|ABCG1_uc002zam.2_Missense_Mutation_p.R43L|ABCG1_uc002zao.2_Missense_Mutation_p.R62L|ABCG1_uc002zap.2_Missense_Mutation_p.R65L|ABCG1_uc002zar.2_Missense_Mutation_p.R76L|ABCG1_uc011aev.1_Missense_Mutation_p.R76L	NM_004915	NP_004906	P45844	ABCG1_HUMAN	ATP-binding cassette sub-family G member 1	65	Cytoplasmic (Potential).				amyloid precursor protein catabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|detection of hormone stimulus|high-density lipoprotein particle remodeling|intracellular cholesterol transport|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|positive regulation of cholesterol biosynthetic process|regulation of cholesterol esterification|regulation of transcription, DNA-dependent|response to lipid|reverse cholesterol transport	endoplasmic reticulum membrane|external side of plasma membrane|Golgi membrane|recycling endosome	ADP binding|ATP binding|cholesterol transporter activity|glycoprotein transporter activity|phospholipid transporter activity|protein heterodimerization activity|protein homodimerization activity|sterol-transporting ATPase activity|toxin transporter activity			ovary(2)|central_nervous_system(1)	3					Adenosine triphosphate(DB00171)	GAAGCCCAGCGCTTCTCCTCC	0.532													137	14	---	---	---	---	PASS	T	43645932	T	T	43645932	3	4	146	1	0	0	0	0	1	0	0	0	68	1087	38	1	368	1	ABCG1	21	43645932	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	26448575	43645932	4483963	248	52073										
IL17RA	23765	broad.mit.edu	37	chr22	17589252	17589252	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctgaagcccaggaaggtctgGatcatctactcagccgacca	10	13	4	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr22:17589252G>C	uc002zly.2	+	13	1276	c.1143G>C	c.(1141-1143)TGG>TGC	p.W381C	IL17RA_uc010gqt.2_Missense_Mutation_p.W329C	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	381	Cytoplasmic (Potential).|SEFIR.				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		GGAAGGTCTGGATCATCTACT	0.632													7	26	---	---	---	---	PASS	C	17589252	C	C	17589252	3	2	146	1	0	0	0	0	1	0	0	0	7639	1183	41	2	1193	2	IL17RA	22	17589252	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08		17589252	33715314	249	52074										
AIFM3	150209	broad.mit.edu	37	chr22	21329007	21329007	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cctcaggtgcagctggcctgGtgtgtgcagagacactgcgg	16	11	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr22:21329007G>C	uc002ztj.2	+	8	840	c.622G>C	c.(622-624)GTG>CTG	p.V208L	AIFM3_uc002ztk.2_Missense_Mutation_p.V208L|AIFM3_uc002ztl.2_Missense_Mutation_p.V214L|AIFM3_uc011ahx.1_Missense_Mutation_p.V196L|AIFM3_uc002ztm.1_Intron	NM_144704	NP_653305	Q96NN9	AIFM3_HUMAN	apoptosis-inducing factor,	208					activation of caspase activity by cytochrome c|cell redox homeostasis|electron transport chain|induction of apoptosis|mitochondrial depolarization|transport	endoplasmic reticulum|mitochondrial inner membrane	2 iron, 2 sulfur cluster binding|caspase activator activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity|protein binding			ovary(2)|lung(2)	4	all_cancers(11;3.71e-26)|all_epithelial(7;1.59e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0367)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			AGCTGGCCTGGTGTGTGCAGA	0.647													4	5	---	---	---	---	PASS	C	21329007	C	C	21329007	3	2	146	1	0	0	0	0	1	0	0	0	428	1261	44	4	666	4	AIFM3	22	21329007	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	3739755	21329007	29975559	250	52075										
LZTR1	8216	broad.mit.edu	37	chr22	21345987	21345987	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cgcagcggcgctacgggcatAccatggtggcctttgaccgc	14	14	0	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chr22:21345987A>G	uc002zto.2	+	9	965	c.862A>G	c.(862-864)ACC>GCC	p.T288A	LZTR1_uc002ztn.2_Missense_Mutation_p.T247A|LZTR1_uc011ahy.1_Missense_Mutation_p.T269A|LZTR1_uc010gsr.1_Missense_Mutation_p.T159A	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	288					anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			CTACGGGCATACCATGGTGGC	0.622													5	3	---	---	---	---	PASS	G	21345987	G	G	21345987	3	3	146	1	0	0	0	0	1	0	0	0	9137	391	14	5	896	5	LZTR1	22	21345987	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	16980	21345987	29958579	251	52076										
SCML2	10389	broad.mit.edu	37	chrX	18259411	18259411	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	taagcttttcaatgtagtaaCacagctttaatgctggcccc	7	10	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:18259411C>A	uc004cyl.2	-	15	2220	c.2063G>T	c.(2062-2064)TGT>TTT	p.C688F	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_3'UTR|SCML2_uc011miz.1_3'UTR|SCML2_uc010nfc.2_3'UTR	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	688	SAM.				anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					AATGTAGTAACACAGCTTTAA	0.358													106	135	---	---	---	---	PASS	A	18259411	A	A	18259411	3	1	146	1	0	0	0	0	1	0	0	0	13910	478	17	3	43	3	SCML2	23	18259411	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08		18259411	137011149	252	52077										
POLA1	5422	broad.mit.edu	37	chrX	24741271	24741271	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gattttcacttattctttcaGgtgtggtatttctgtttggg	10	5	4	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:24741271G>T	uc004dbl.2	+	11	1093	c.1070_splice	c.e11-1	p.G357_splice	POLA1_uc004dbm.2_Splice_Site_p.G363_splice|POLA1_uc004dbn.2_Splice_Site_p.G221_splice	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1						cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	TATTCTTTCAGGTGTGGTATT	0.383													82	120	---	---	---	---	PASS	T	24741271	T	T	24741271	5	4	146	1	0	0	0	0	0	0	1	0	12187	1014	35	3	1111	3	POLA1	23	24741271	Splice_Site	SNP	G	TCGA-66-2757-01A-01D-1522-08	6481860	24741271	130529289	253	52078										
MAGEB6	158809	broad.mit.edu	37	chrX	26212431	26212431	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggagcttcacccactggctcGcctgatgcaggtgtttcagg	13	12	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:26212431G>T	uc004dbr.2	+	2	617	c.468G>T	c.(466-468)TCG>TCT	p.S156S	MAGEB6_uc010ngc.1_5'UTR	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	156	Ser-rich.									ovary(3)	3						CCACTGGCTCGCCTGATGCAG	0.507													3	69	---	---	---	---	PASS	T	26212431	T	T	26212431	2	4	146	1	0	0	0	0	0	0	0	1	9179	1074	38	1		1	MAGEB6	23	26212431	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	1471160	26212431	129058129	254	52079										
IL1RAPL1	11141	broad.mit.edu	37	chrX	29973704	29973704	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acacgtaccattcacaaatgCgtcagaaacactactaccga	5	13	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:29973704C>A	uc004dby.2	+	11	2366	c.1858C>A	c.(1858-1860)CGT>AGT	p.R620S		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	620	Cytoplasmic (Potential).|Interaction with NCS1.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						TTCACAAATGCGTCAGAAACA	0.532													13	19	---	---	---	---	PASS	A	29973704	A	A	29973704	3	1	146	1	0	0	0	0	1	0	0	0	7661	768	27	1	1896	1	IL1RAPL1	23	29973704	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	3761273	29973704	125296856	255	52080										
MAGEB2	4113	broad.mit.edu	37	chrX	30236736	30236736	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agtaagctccgtgcccgtgaGaaacgccgcaaggcccgaga	13	13	0	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:30236736G>C	uc004dbz.2	+	2	142	c.39G>C	c.(37-39)GAG>GAC	p.E13D		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	13							protein binding			ovary(1)	1						GTGCCCGTGAGAAACGCCGCA	0.537													16	33	---	---	---	---	PASS	C	30236736	C	C	30236736	3	2	146	1	0	0	0	0	1	0	0	0	9176	933	33	2	41	2	MAGEB2	23	30236736	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	263032	30236736	125033824	256	52081										
MAGEB3	4114	broad.mit.edu	37	chrX	30254995	30254995	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agagatgaggaagaaagagtCcaagctgcagctatgctcaa	12	7	1	4			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:30254995C>A	uc004dca.1	+	5	1691	c.954C>A	c.(952-954)GTC>GTA	p.V318V		NM_002365	NP_002356	O15480	MAGB3_HUMAN	melanoma antigen family B, 3	318											0						AAGAAAGAGTCCAAGCTGCAG	0.502													19	36	---	---	---	---	PASS	A	30254995	A	A	30254995	2	1	146	1	0	0	0	0	0	0	0	1	9177	842	30	2		2	MAGEB3	23	30254995	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	18259	30254995	125015565	257	52082										
FAM47A	158724	broad.mit.edu	37	chrX	34148685	34148685	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgctcgaatcttgggaggctCcgagaattgatgggactctg	14	8	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:34148685C>A	uc004ddg.2	-	1	1744	c.1711G>T	c.(1711-1713)GAG>TAG	p.E571*		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	571										ovary(4)|central_nervous_system(1)	5						TTGGGAGGCTCCGAGAATTGA	0.522													42	46	---	---	---	---	PASS	A	34148685	A	A	34148685	4	1	146	1	0	0	0	0	0	1	0	0	5569	864	30	2	668	2	FAM47A	23	34148685	Nonsense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	3893690	34148685	121121875	258	52083										
SSX1	6756	broad.mit.edu	37	chrX	48123281	48123281	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	agtgtcagaagcatctggccCacaaaacgatgggaaacaac	10	10	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:48123281C>A	uc004djb.1	+	6	486	c.395C>A	c.(394-396)CCA>CAA	p.P132Q		NM_005635	NP_005626	Q16384	SSX1_HUMAN	synovial sarcoma, X breakpoint 1	132					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|transcription corepressor activity		SS18/SSX1(1169)	soft_tissue(1169)	1169						GCATCTGGCCCACAAAACGAT	0.418													153	218	---	---	---	---	PASS	A	48123281	A	A	48123281	3	1	146	1	0	0	0	0	1	0	0	0	15202	594	21	3	413	3	SSX1	23	48123281	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	13974596	48123281	107147279	259	52084										
CCDC22	28952	broad.mit.edu	37	chrX	49104772	49104772	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ccaaccttgccaagctgcagGtggggttggggctgtagctg	16	10	0	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:49104772G>T	uc004dnd.1	+	10	1368	c.1212_splice	c.e10+1	p.Q404_splice	CCDC22_uc004dnc.1_Splice_Site	NM_014008	NP_054727	O60826	CCD22_HUMAN	coiled-coil domain containing 22											central_nervous_system(1)	1						CAAGCTGCAGGTGGGGTTGGG	0.537													7	12	---	---	---	---	PASS	T	49104772	T	T	49104772	5	4	146	1	0	0	0	0	0	0	1	0	2797	1275	44	3	1251	3	CCDC22	23	49104772	Splice_Site	SNP	G	TCGA-66-2757-01A-01D-1522-08	981491	49104772	106165788	260	52085										
WNK3	65267	broad.mit.edu	37	chrX	54265524	54265524	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cctggaagtgaagcatctgaGgacatctcctaatggagaca	11	9	2	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:54265524G>A	uc004dtd.1	-	18	4099	c.3660C>T	c.(3658-3660)TCC>TCT	p.S1220S	WNK3_uc004dtc.1_Silent_p.S1220S	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1220					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						AAGCATCTGAGGACATCTCCT	0.363													22	49	---	---	---	---	PASS	A	54265524	A	A	54265524	2	1	146	1	0	0	0	0	0	0	0	1	17376	987	35	3		3	WNK3	23	54265524	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	5160752	54265524	101005036	261	52086										
GNL3L	54552	broad.mit.edu	37	chrX	54581038	54581038	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gatgagctgttgggtgacacGgacccacttgaaatggagat	14	7	0	4			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:54581038G>A	uc004dth.1	+	14	1498	c.1359G>A	c.(1357-1359)ACG>ACA	p.T453T	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	453					ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						TGGGTGACACGGACCCACTTG	0.512													36	55	---	---	---	---	PASS	A	54581038	A	A	54581038	2	1	146	1	0	0	0	0	0	0	0	1	6538	1103	39	1		1	GNL3L	23	54581038	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	315514	54581038	100689522	262	52087										
USP51	158880	broad.mit.edu	37	chrX	55514393	55514393	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	attgcttgtcttcaaaccctGatgtcataaactgttgatga	7	8	3	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:55514393G>A	uc004dun.1	-	2	1059	c.980C>T	c.(979-981)TCA>TTA	p.S327L	USP51_uc011moo.1_Missense_Mutation_p.S31L	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	327					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						TTCAAACCCTGATGTCATAAA	0.353													11	287	---	---	---	---	PASS	A	55514393	A	A	55514393	3	1	146	1	0	0	0	0	1	0	0	0	17080	1294	45	2	1159	2	USP51	23	55514393	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	933355	55514393	99756167	263	52088										
ITGB1BP2	26548	broad.mit.edu	37	chrX	70524083	70524083	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcaccagacagattccttagTagtggtgactgtatatggcc	11	9	0	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:70524083T>C	uc004dzr.1	+	9	715	c.686T>C	c.(685-687)GTA>GCA	p.V229A	BCYRN1_uc011mpt.1_Intron|ITGB1BP2_uc004dzs.1_Missense_Mutation_p.V211A	NM_012278	NP_036410	Q9UKP3	ITBP2_HUMAN	integrin beta 1 binding protein 2	229	CS.				muscle organ development|signal transduction		SH3 domain binding			ovary(1)	1	Renal(35;0.156)					GATTCCTTAGTAGTGGTGACT	0.463													27	77	---	---	---	---	PASS	C	70524083	C	C	70524083	3	2	146	1	0	0	0	0	1	0	0	0	7892	1638	57	5	720	5	ITGB1BP2	23	70524083	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	15009690	70524083	84746477	264	52089										
RLIM	51132	broad.mit.edu	37	chrX	73812559	73812559	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggtgggacctctgttaacgcTtcagttgaatttcgttctga	11	8	3	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:73812559T>A	uc004ebu.2	-	5	881	c.591A>T	c.(589-591)GAA>GAT	p.E197D	RLIM_uc004ebw.2_Missense_Mutation_p.E197D	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	197					random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CTGTTAACGCTTCAGTTGAAT	0.493													125	202	---	---	---	---	PASS	A	73812559	A	A	73812559	3	1	146	1	0	0	0	0	1	0	0	0	13390	1606	56	5	1287	5	RLIM	23	73812559	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	3288476	73812559	81458001	265	52090										
PGAM4	441531	broad.mit.edu	37	chrX	77224391	77224391	+	Frame_Shift_Del	DEL	G	-	-													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tcacttcttggccttgccctGggcagccacagcttctatgg							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:77224391delG	uc004ecy.1	-	1	745	c.745delC	c.(745-747)CAGfs	p.Q249fs	ATP7A_uc004ecw.2_Intron|ATP7A_uc004ecx.3_Intron	NM_001029891	NP_001025062	Q8N0Y7	PGAM4_HUMAN	bisphosphoglycerate mutase 4	249					glycolysis		2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity|phosphoglycerate mutase activity				0						GCCTTGCCCTGGGCAGCCACA	0.572													95	46	---	---	---	---		-	77224391	-	-	77224391	7	5	146	1	0	1	0	1	0	0	0	0	11775	1357	47	0	23	0	PGAM4	23	77224391	Frame_Shift_Del	DEL	G	TCGA-66-2757-01A-01D-1522-08	3411832	77224391	78046169	266	52091										
DIAPH2	1730	broad.mit.edu	37	chrX	96171548	96171548	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tagtaaaaatactttctgctAtttgcattgttggagaagag	9	4	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:96171548A>G	uc004efu.3	+	8	1240	c.844A>G	c.(844-846)ATT>GTT	p.I282V	DIAPH2_uc004eft.3_Missense_Mutation_p.I282V|DIAPH2_uc004efs.2_Missense_Mutation_p.I289V	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	282	GBD/FH3.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						ACTTTCTGCTATTTGCATTGT	0.323													3	75	---	---	---	---	PASS	G	96171548	G	G	96171548	3	3	146	1	0	0	0	0	1	0	0	0	4519	449	16	5	874	5	DIAPH2	23	96171548	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	18947157	96171548	59099012	267	52092										
RAB40A	142684	broad.mit.edu	37	chrX	102755198	102755198	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ctccgtgaaagactctatgaTgttgaaattgcacagagggc	11	8	1	5			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:102755198T>C	uc004ekk.2	-	3	829	c.487A>G	c.(487-489)ATC>GTC	p.I163V		NM_080879	NP_543155	Q8WXH6	RB40A_HUMAN	RAB40A, member RAS oncogene family	163					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0						GACTCTATGATGTTGAAATTG	0.587													6	72	---	---	---	---	PASS	C	102755198	C	C	102755198	3	2	146	1	0	0	0	0	1	0	0	0	12939	1464	51	5	350	5	RAB40A	23	102755198	Missense_Mutation	SNP	T	TCGA-66-2757-01A-01D-1522-08	6583650	102755198	52515362	268	52093										
HTR2C	3358	broad.mit.edu	37	chrX	114082670	114082670	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tctgcgctatatcgctggatCggtatgtagcaatacgtaat	10	8	1	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:114082670C>T	uc004epu.1	+	5	1182	c.454C>T	c.(454-456)CGG>TGG	p.R152W	HTR2C_uc010nqc.1_Missense_Mutation_p.R152W|HTR2C_uc004epv.1_Missense_Mutation_p.R152W	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	152	Cytoplasmic (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	ATCGCTGGATCGGTATGTAGC	0.428													100	198	---	---	---	---	PASS	T	114082670	T	T	114082670	3	4	146	1	0	0	0	0	1	0	0	0	7443	875	31	2	464	2	HTR2C	23	114082670	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	11327472	114082670	41187890	269	52094										
CXorf56	63932	broad.mit.edu	37	chrX	118699258	118699258	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gaggggcttctcgccgtcgtCatattcctcccggtcccgag	12	15	2	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:118699258C>A	uc004erk.1	-	1	107	c.61G>T	c.(61-63)GAC>TAC	p.D21Y	CXorf56_uc004erj.1_5'UTR|CXorf56_uc011mtu.1_Missense_Mutation_p.D21Y	NM_022101	NP_071384	Q9H5V9	CX056_HUMAN	hypothetical protein LOC63932	21							protein binding				0						TCGCCGTCGTCATATTCCTCC	0.557													42	94	---	---	---	---	PASS	A	118699258	A	A	118699258	3	1	146	1	0	0	0	0	1	0	0	0	4112	826	29	2	635	2	CXorf56	23	118699258	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	4616588	118699258	36571302	270	52095										
NKAP	79576	broad.mit.edu	37	chrX	119070583	119070583	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttttaaaaataccttctgaaGtagaagctgaagtagtgctt	8	5	1	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:119070583G>C	uc004esh.2	-	3	697	c.530C>G	c.(529-531)ACT>AGT	p.T177S	NKAP_uc004esg.2_Missense_Mutation_p.T64S	NM_024528	NP_078804	Q8N5F7	NKAP_HUMAN	NFKB activating protein	177					negative regulation of transcription, DNA-dependent|Notch signaling pathway|positive regulation of alpha-beta T cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	chromatin binding|protein binding			ovary(2)	2						ACCTTCTGAAGTAGAAGCTGA	0.279													76	110	---	---	---	---	PASS	C	119070583	C	C	119070583	3	2	146	1	0	0	0	0	1	0	0	0	10439	1029	36	4	745	4	NKAP	23	119070583	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	371325	119070583	36199977	271	52096										
THOC2	57187	broad.mit.edu	37	chrX	122754763	122754763	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tcaggctatactaacctttaCtgtggaggaatgtgatggag	12	6	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:122754763C>A	uc004etu.2	-	32	4302	c.4270G>T	c.(4270-4272)GTA>TTA	p.V1424L	THOC2_uc010nqt.1_RNA|THOC2_uc004etw.1_Missense_Mutation_p.V245L	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1424	Lys-rich.				intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						CTAACCTTTACTGTGGAGGAA	0.413													159	250	---	---	---	---	PASS	A	122754763	A	A	122754763	3	1	146	1	0	0	0	0	1	0	0	0	15862	565	20	3	539	3	THOC2	23	122754763	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	3684180	122754763	32515797	272	52097										
THOC2	57187	broad.mit.edu	37	chrX	122757771	122757771	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tatttttgttagcacaatcaAgatattcctgatgtgagtat	7	5	1	3			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:122757771A>T	uc004etu.2	-	28	3402	c.3370T>A	c.(3370-3372)TTG>ATG	p.L1124M	THOC2_uc010nqt.1_5'Flank|THOC2_uc004etw.1_5'Flank	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1124					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						AGCACAATCAAGATATTCCTG	0.358													94	133	---	---	---	---	PASS	T	122757771	T	T	122757771	3	4	146	1	0	0	0	0	1	0	0	0	15862	69	3	5	1455	5	THOC2	23	122757771	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	3008	122757771	32512789	273	52098										
SASH3	54440	broad.mit.edu	37	chrX	128927642	128927642	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cagtgaggaggctgaagaggGcgccgagagcagccaggagc	19	9	0	4			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:128927642G>A	uc011mun.1	+	8	1159	c.977G>A	c.(976-978)GGC>GAC	p.G326D	SASH3_uc004euu.2_Missense_Mutation_p.G326D|SASH3_uc011muo.1_Missense_Mutation_p.G293D	NM_018990	NP_061863	O75995	SASH3_HUMAN	SAM and SH3 domain containing 3	326										ovary(2)|pancreas(1)	3						GCTGAAGAGGGCGCCGAGAGC	0.632													15	27	---	---	---	---	PASS	A	128927642	A	A	128927642	3	1	146	1	0	0	0	0	1	0	0	0	13849	1203	42	3	1007	3	SASH3	23	128927642	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	6169871	128927642	26342918	274	52099										
ZNF449	203523	broad.mit.edu	37	chrX	134481156	134481156	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcgcttcaggcagttccagtAcagagaagcagctgggcctc	13	12	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:134481156A>G	uc004eys.2	+	2	278	c.113A>G	c.(112-114)TAC>TGC	p.Y38C	ZNF449_uc004eyq.1_Missense_Mutation_p.Y38C|ZNF449_uc004eyr.3_Missense_Mutation_p.Y38C|ZNF449_uc004eyt.2_5'UTR	NM_152695	NP_689908	Q6P9G9	ZN449_HUMAN	zinc finger protein 449	38	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CAGTTCCAGTACAGAGAAGCA	0.478													55	128	---	---	---	---	PASS	G	134481156	G	G	134481156	3	3	146	1	0	0	0	0	1	0	0	0	17917	391	14	5	115	5	ZNF449	23	134481156	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	5553514	134481156	20789404	275	52100										
GPR112	139378	broad.mit.edu	37	chrX	135429072	135429072	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttggtaccacctttggatcaGactgcttccacaaccattgt	7	12	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:135429072G>T	uc004ezu.1	+	6	3498	c.3207G>T	c.(3205-3207)CAG>CAT	p.Q1069H	GPR112_uc010nsb.1_Missense_Mutation_p.Q864H|GPR112_uc010nsc.1_Missense_Mutation_p.Q836H	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1069	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					CTTTGGATCAGACTGCTTCCA	0.473													199	319	---	---	---	---	PASS	T	135429072	T	T	135429072	3	4	146	1	0	0	0	0	1	0	0	0	6629	933	33	2	3217	2	GPR112	23	135429072	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	947916	135429072	19841488	276	52101										
MCF2	4168	broad.mit.edu	37	chrX	138679676	138679676	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttaactgacttcagtaaatcCagcattgcatcgagtgcctt	7	10	1	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:138679676C>G	uc004fau.2	-	18	2292	c.1998G>C	c.(1996-1998)CTG>CTC	p.L666L	MCF2_uc004fav.2_Silent_p.L682L|MCF2_uc011mwl.1_Silent_p.L643L|MCF2_uc010nsh.1_Silent_p.L666L|MCF2_uc011mwm.1_Silent_p.L627L|MCF2_uc011mwn.1_Silent_p.L811L|MCF2_uc004faw.2_Silent_p.L726L|MCF2_uc011mwo.1_Silent_p.L742L	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	666	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					TCAGTAAATCCAGCATTGCAT	0.294													44	123	---	---	---	---	PASS	G	138679676	G	G	138679676	2	3	146	1	0	0	0	0	0	0	0	1	9378	581	21	4		4	MCF2	23	138679676	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	3250604	138679676	16590884	277	52102										
MCF2	4168	broad.mit.edu	37	chrX	138679723	138679723	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cagagcagatccttcacagtCtttgctatattttaatagct	6	9	2	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:138679723C>A	uc004fau.2	-	18	2245	c.1951G>T	c.(1951-1953)GAC>TAC	p.D651Y	MCF2_uc004fav.2_Missense_Mutation_p.D667Y|MCF2_uc011mwl.1_Missense_Mutation_p.D628Y|MCF2_uc010nsh.1_Missense_Mutation_p.D651Y|MCF2_uc011mwm.1_Missense_Mutation_p.D612Y|MCF2_uc011mwn.1_Missense_Mutation_p.D796Y|MCF2_uc004faw.2_Missense_Mutation_p.D711Y|MCF2_uc011mwo.1_Missense_Mutation_p.D727Y	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	651	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					CCTTCACAGTCTTTGCTATAT	0.338													34	83	---	---	---	---	PASS	A	138679723	A	A	138679723	3	1	146	1	0	0	0	0	1	0	0	0	9378	913	32	2	886	2	MCF2	23	138679723	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	47	138679723	16590837	278	52103										
MAGEA10	4109	broad.mit.edu	37	chrX	151303347	151303347	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	acagccccatcatattcagtGcttcccagatgacctcctca	5	16	3	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:151303347G>T	uc004ffk.2	-	5	1154	c.746C>A	c.(745-747)GCA>GAA	p.A249E	MAGEA10_uc004ffl.2_Missense_Mutation_p.A249E	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	249	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					CATATTCAGTGCTTCCCAGAT	0.512													67	98	---	---	---	---	PASS	T	151303347	T	T	151303347	3	4	146	1	0	0	0	0	1	0	0	0	9164	1319	46	3	367	3	MAGEA10	23	151303347	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	12623624	151303347	3967213	279	52104										
GABRA3	2556	broad.mit.edu	37	chrX	151424346	151424346	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	atttcttgccattgtggaagAaggtgtccggtgtccagatc	12	8	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:151424346A>T	uc010ntk.1	-	5	695	c.455T>A	c.(454-456)TTC>TAC	p.F152Y		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	152	Extracellular (Probable).				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(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ATTGTGGAAGAAGGTGTCCGG	0.488													110	153	---	---	---	---	PASS	T	151424346	T	T	151424346	3	4	146	1	0	0	0	0	1	0	0	0	6162	246	9	5	1047	5	GABRA3	23	151424346	Missense_Mutation	SNP	A	TCGA-66-2757-01A-01D-1522-08	120999	151424346	3846214	280	52105										
GABRQ	55879	broad.mit.edu	37	chrX	151818344	151818344	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gaggtgtatttctacacaggTgggtctgaccccttccttct	10	11	3	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:151818344T>A	uc004ffp.1	+	6	768	c.748_splice	c.e6+2	p.G250_splice		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta							cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TCTACACAGGTGGGTCTGACC	0.512													73	130	---	---	---	---	PASS	A	151818344	A	A	151818344	5	1	146	1	0	0	0	0	0	0	1	0	6175	1710	59	5	772	5	GABRQ	23	151818344	Splice_Site	SNP	T	TCGA-66-2757-01A-01D-1522-08	393998	151818344	3452216	281	52106										
PNMA5	114824	broad.mit.edu	37	chrX	152159576	152159576	+	Frame_Shift_Del	DEL	C	-	-													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ttctccacctcagacacttgCcatatgggcattatctcagt							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:152159576delC	uc010ntw.2	-	3	906	c.567delG	c.(565-567)TGGfs	p.W189fs	PNMA5_uc004fha.3_Frame_Shift_Del_p.W189fs|PNMA5_uc010ntx.2_Frame_Shift_Del_p.W189fs|PNMA5_uc004fgy.3_Frame_Shift_Del_p.W189fs	NM_001103151	NP_001096621	Q96PV4	PNMA5_HUMAN	paraneoplastic antigen like 5	189					apoptosis					ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CAGACACTTGCCATATGGGCA	0.532													101	66	---	---	---	---		-	152159576	-	-	152159576	7	5	146	1	0	1	0	1	0	0	0	0	12156	740	26	0	783	0	PNMA5	23	152159576	Frame_Shift_Del	DEL	C	TCGA-66-2757-01A-01D-1522-08	341232	152159576	3110984	282	52107										
TREX2	11219	broad.mit.edu	37	chrX	152710223	152710223	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	ggcggcaagtacatgggctcGatgtgggcccacccacgggc	16	13	0	0			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:152710223G>A	uc010nue.1	-	3	908	c.792C>T	c.(790-792)ATC>ATT	p.I264I	TREX2_uc010nud.1_Silent_p.I222I|TREX2_uc011myp.1_Silent_p.I222I|HAUS7_uc004fhl.2_RNA|HAUS7_uc004fhm.2_RNA	NM_080701	NP_542432	Q9BQ50	TREX2_HUMAN	three prime repair exonuclease 2	265					DNA repair	nucleus	3'-5'-exodeoxyribonuclease activity|exodeoxyribonuclease III activity|nucleic acid binding			large_intestine(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACATGGGCTCGATGTGGGCCC	0.687								Editing_and_processing_nucleases					3	3	---	---	---	---	PASS	A	152710223	A	A	152710223	2	1	146	1	0	0	0	0	0	0	0	1	16474	1048	37	2		2	TREX2	23	152710223	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	550647	152710223	2560337	283	52108										
ABCD1	215	broad.mit.edu	37	chrX	153001941	153001941	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cataggccggtctggtgtccGtgtggagggccccctgaaga	16	11	1	2			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:153001941G>A	uc004fif.2	+	4	1766	c.1367G>A	c.(1366-1368)CGT>CAT	p.R456H	ABCD1_uc004fig.2_5'Flank	NM_000033	NP_000024	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member	456					fatty acid beta-oxidation using acyl-CoA oxidase|peroxisomal membrane transport|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|identical protein binding|peroxisomal fatty-acyl-CoA transporter activity				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TCTGGTGTCCGTGTGGAGGGC	0.632													22	34	---	---	---	---	PASS	A	153001941	A	A	153001941	3	1	146	1	0	0	0	0	1	0	0	0	60	1145	40	1	1381	1	ABCD1	23	153001941	Missense_Mutation	SNP	G	TCGA-66-2757-01A-01D-1522-08	291718	153001941	2268619	284	52109										
FLNA	2316	broad.mit.edu	37	chrX	153582818	153582818	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cctcaggctggtcacatccaGcccattgacacccaccaggg	9	17	2	1			TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:153582818G>A	uc004fkk.2	-	33	5596	c.5347C>T	c.(5347-5349)CTG>TTG	p.L1783L	FLNA_uc004fki.2_5'Flank|FLNA_uc011mzn.1_5'UTR|FLNA_uc010nuu.1_Silent_p.L1775L	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1783	Filamin 16.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GTCACATCCAGCCCATTGACA	0.622													26	33	---	---	---	---	PASS	A	153582818	A	A	153582818	2	1	146	1	0	0	0	0	0	0	0	1	5933	962	34	3		3	FLNA	23	153582818	Silent	SNP	G	TCGA-66-2757-01A-01D-1522-08	580877	153582818	1687742	285	52110										
PLXNA3	55558	broad.mit.edu	37	chrX	153697756	153697756	+	Silent	SNP	C	A	A													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	cgcatgactcgcatcatcctCcaggatgaggatgtcaccac							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:153697756C>A	uc004flm.2	+	27	4802	c.4629C>A	c.(4627-4629)CTC>CTA	p.L1543L		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1543	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GCATCATCCTCCAGGATGAGG	0.607													58	72	---	---	---	---	PASS	A	153697756	A	A	153697756	2	1	146	1	0	0	0	0	0	0	0	1	12121	842	30	2		2	PLXNA3	23	153697756	Silent	SNP	C	TCGA-66-2757-01A-01D-1522-08	114938	153697756	1572804	286	52111	957	2								
PLXNA3	55558	broad.mit.edu	37	chrX	153697757	153697757	+	Missense_Mutation	SNP	C	A	A													0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	gcatgactcgcatcatcctcCaggatgaggatgtcaccacc							TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:153697757C>A	uc004flm.2	+	27	4803	c.4630C>A	c.(4630-4632)CAG>AAG	p.Q1544K		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1544	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CATCATCCTCCAGGATGAGGA	0.612													55	71	---	---	---	---	PASS	A	153697757	A	A	153697757	3	1	146	1	0	0	0	0	1	0	0	0	12121	595	21	3	4732	3	PLXNA3	23	153697757	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	1	153697757	1572803	287	52112	957	2								
F8	2157	broad.mit.edu	37	chrX	154250707	154250707	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0633802816901408	18	0.3166434279871	1.19070285253388	1.52897070836737	0.974995814031367	1	1	0	tgcgtccacaggcagctcacCgagatcactttgcatatagt	9	12	2	1	rs137852379		TCGA-66-2757-01A-01D-1522-08	TCGA-66-2757-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	1886dba0-4662-4342-84ac-96af0beb2393	17ef241d-f6fa-4663-8d60-c0bd5931ac96	g.chrX:154250707C>A	uc004fmt.2	-	1	292	c.121G>T	c.(121-123)GGT>TGT	p.G41C	F8_uc011mzx.1_Intron	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	41	Plastocyanin-like 1.|F5/8 type A 1.		G -> C (in HEMA; severe/moderate).		acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	GGCAGCTCACCGAGATCACTT	0.517													128	193	---	---	---	---	PASS	A	154250707	A	A	154250707	3	1	146	1	0	0	0	0	1	0	0	0	5350	652	23	1	7066	1	F8	23	154250707	Missense_Mutation	SNP	C	TCGA-66-2757-01A-01D-1522-08	552950	154250707	1019853	288	52113										
PLEKHN1	84069	broad.mit.edu	37	chr1	909828	909828	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gccttccctaccagatggtcGgtcccccaggaggagccggg	14	15	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:909828G>A	uc001ace.2	+	15	1900	c.1865G>A	c.(1864-1866)CGG>CAG	p.R622Q	PLEKHN1_uc001acd.2_Missense_Mutation_p.R570Q|PLEKHN1_uc001acf.2_Missense_Mutation_p.R535Q	NM_032129	NP_115505	Q494U1	PKHN1_HUMAN	pleckstrin homology domain containing, family N	622											0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.93e-23)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.00095)|Kidney(185;0.0023)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.199)		CCAGATGGTCGGTCCCCCAGG	0.637													24	61	---	---	---	---	PASS	A	909828	A	A	909828	3	1	147	1	0	0	0	0	1	0	0	0	12083	1116	39	1	1807	1	PLEKHN1	1	909828	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08		909828	248340793	1	52114										
SPEN	23013	broad.mit.edu	37	chr1	16256434	16256434	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aagaaaaggatggatcatgtCgattttgatatctgcaccaa	9	6	2	2	rs111615156		TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:16256434C>A	uc001axk.1	+	11	3903	c.3699C>A	c.(3697-3699)GTC>GTA	p.V1233V	SPEN_uc010obp.1_Silent_p.V1192V	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1233					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		TGGATCATGTCGATTTTGATA	0.463													39	77	---	---	---	---	PASS	A	16256434	A	A	16256434	2	1	147	1	0	0	0	0	0	0	0	1	15037	871	31	2		2	SPEN	1	16256434	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	15346606	16256434	232994187	2	52115										
BAI2	576	broad.mit.edu	37	chr1	32196749	32196749	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tagtctccctcagagcctggCtcagtgggccgcagccatgt	12	14	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:32196749C>A	uc001btn.2	-	29	4386	c.4032G>T	c.(4030-4032)GAG>GAT	p.E1344D	BAI2_uc001btm.2_Missense_Mutation_p.E338D|BAI2_uc001btp.1_Missense_Mutation_p.E338D|BAI2_uc010ogn.1_Missense_Mutation_p.E314D|BAI2_uc010ogo.1_Missense_Mutation_p.E953D|BAI2_uc010ogp.1_Missense_Mutation_p.E1277D|BAI2_uc010ogq.1_Missense_Mutation_p.E1311D|BAI2_uc001bto.2_Missense_Mutation_p.E1344D	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	1344	Cytoplasmic (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)		CAGAGCCTGGCTCAGTGGGCC	0.701													7	6	---	---	---	---	PASS	A	32196749	A	A	32196749	3	1	147	1	0	0	0	0	1	0	0	0	1299	796	28	3	745	3	BAI2	1	32196749	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	15940315	32196749	217053872	3	52116										
EPHA10	284656	broad.mit.edu	37	chr1	38197148	38197148	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cctcccaggatggccccgggGaagcggcccggatctgaaag	15	14	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:38197148G>T	uc009vvi.2	-	7	1684	c.1598C>A	c.(1597-1599)TCC>TAC	p.S533Y	EPHA10_uc009vvh.1_RNA|EPHA10_uc001cbu.2_RNA|EPHA10_uc001cbv.1_RNA	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	533	Fibronectin type-III 2.|Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TGGCCCCGGGGAAGCGGCCCG	0.597													36	93	---	---	---	---	PASS	T	38197148	T	T	38197148	3	4	147	1	0	0	0	0	1	0	0	0	5166	1174	41	2	1472	2	EPHA10	1	38197148	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	6000399	38197148	211053473	4	52117										
MACF1	23499	broad.mit.edu	37	chr1	39851393	39851393	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctgagtgtccagtcagctatCagcacccaaccagaggctgt	10	13	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:39851393C>G	uc010oiu.1	+	21	9587	c.9456C>G	c.(9454-9456)ATC>ATG	p.I3152M	MACF1_uc010ois.1_Missense_Mutation_p.I2650M|MACF1_uc001cda.1_Missense_Mutation_p.I2537M|MACF1_uc001cdc.1_Missense_Mutation_p.I1716M	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	4717					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)			AGTCAGCTATCAGCACCCAAC	0.507													32	27	---	---	---	---	PASS	G	39851393	G	G	39851393	3	3	147	1	0	0	0	0	1	0	0	0	9144	816	29	2	14307	2	MACF1	1	39851393	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1654245	39851393	209399228	5	52118										
TAL1	6886	broad.mit.edu	37	chr1	47689737	47689737	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	actcgattgttggtggtgaaCatagggaaggcatccggctc	14	8	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:47689737C>G	uc001cqx.2	-	3	1057	c.480G>C	c.(478-480)ATG>ATC	p.M160I	TAL1_uc009vyq.2_5'UTR|TAL1_uc001cqy.2_Missense_Mutation_p.M160I|TAL1_uc001cra.1_RNA|TAL1_uc001cqz.1_RNA	NM_003189	NP_003180	P17542	TAL1_HUMAN	T-cell acute lymphocytic leukemia 1	160					basophil differentiation|cell fate commitment|cell proliferation|embryonic hemopoiesis|erythrocyte differentiation|megakaryocyte differentiation|positive regulation of cell division|positive regulation of chromatin assembly or disassembly|positive regulation of erythrocyte differentiation|positive regulation of mitotic cell cycle|positive regulation of protein complex assembly|positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	E-box binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity			lung(1)	1						TGGTGGTGAACATAGGGAAGG	0.567			T	TRD@|SIL	lymphoblastic leukemia/biphasic								43	143	---	---	---	---	PASS	G	47689737	G	G	47689737	3	3	147	1	0	0	0	0	1	0	0	0	15538	478	17	4	523	4	TAL1	1	47689737	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	7838344	47689737	201560884	6	52119										
ZZZ3	26009	broad.mit.edu	37	chr1	78098555	78098555	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtataagacatcgacaagctCgtttagtcccttgaaaatct	7	9	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:78098555C>T	uc001dhq.2	-	5	961	c.485G>A	c.(484-486)CGA>CAA	p.R162Q	ZZZ3_uc001dhr.2_Intron|ZZZ3_uc009wbz.1_Missense_Mutation_p.R162Q|ZZZ3_uc001dhp.2_Missense_Mutation_p.R162Q	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	162					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						TCGACAAGCTCGTTTAGTCCC	0.393													76	288	---	---	---	---	PASS	T	78098555	T	T	78098555	3	4	147	1	0	0	0	0	1	0	0	0	18253	884	31	2	2270	2	ZZZ3	1	78098555	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	30408818	78098555	171152066	7	52120										
FUBP1	8880	broad.mit.edu	37	chr1	78435678	78435678	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	attcagtgatgtccctgcatCacctccaatttttgctgcaa	6	12	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:78435678C>G	uc001dii.2	-	2	231	c.142G>C	c.(142-144)GAT>CAT	p.D48H	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Missense_Mutation_p.D48H	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	48					transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						GTCCCTGCATCACCTCCAATT	0.303													41	26	---	---	---	---	PASS	G	78435678	G	G	78435678	3	3	147	1	0	0	0	0	1	0	0	0	6092	826	29	2	1868	2	FUBP1	1	78435678	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	337123	78435678	170814943	8	52121										
CLCA4	22802	broad.mit.edu	37	chr1	87031644	87031644	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctcctccacctgtcttctcaTtgctgaagatcagtcaaaga	6	13	4	3	rs79822589	byFrequency	TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:87031644T>C	uc009wcs.2	+	6	939	c.895T>C	c.(895-897)TTG>CTG	p.L299L	CLCA4_uc009wct.2_Silent_p.L62L|CLCA4_uc009wcu.2_Silent_p.L119L	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	299						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		TGTCTTCTCATTGCTGAAGAT	0.403													82	82	---	---	---	---	PASS	C	87031644	C	C	87031644	2	2	147	1	0	0	0	0	0	0	0	1	3459	1490	52	5		5	CLCA4	1	87031644	Silent	SNP	T	TCGA-66-2758-01A-02D-1522-08	8595966	87031644	162218977	9	52122										
POLR3GL	84265	broad.mit.edu	37	chr1	145460115	145460115	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acagggaagagtggagaaggCtgcagggtgggtgggggcaa	22	4	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:145460115C>T	uc001enp.1	-	2	215	c.108G>A	c.(106-108)CAG>CAA	p.Q36Q	NBPF10_uc001emp.3_Intron	NM_032305	NP_115681	Q9BT43	RPC7L_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	36											0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GTGGAGAAGGCTGCAGGGTGG	0.622													10	22	---	---	---	---	PASS	T	145460115	T	T	145460115	2	4	147	1	0	0	0	0	0	0	0	1	12235	796	28	3		3	POLR3GL	1	145460115	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	58428471	145460115	103790506	10	52123										
ANKRD35	148741	broad.mit.edu	37	chr1	145562897	145562897	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctgttggaaaagtataataCggcctgccgggaagtgggtc	14	7	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:145562897C>A	uc001eob.1	+	10	2693	c.2585C>A	c.(2584-2586)ACG>AAG	p.T862K	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Missense_Mutation_p.T705K	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	862	Potential.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					AAGTATAATACGGCCTGCCGG	0.677													13	10	---	---	---	---	PASS	A	145562897	A	A	145562897	3	1	147	1	0	0	0	0	1	0	0	0	664	536	19	1	2623	1	ANKRD35	1	145562897	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	102782	145562897	103687724	11	52124										
FMO5	2330	broad.mit.edu	37	chr1	146680526	146680526	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cttccatataaaatgtgtaaGtcgagaagagaacaacacat	7	7	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:146680526G>C	uc001epi.2	-	6	1107	c.718C>G	c.(718-720)CTT>GTT	p.L240V	FMO5_uc001eph.3_Missense_Mutation_p.L240V|FMO5_uc001epj.2_Missense_Mutation_p.L240V|FMO5_uc001epk.3_Missense_Mutation_p.L240V	NM_001461	NP_001452	P49326	FMO5_HUMAN	flavin containing monooxygenase 5 isoform 1	240						integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			ovary(3)	3	all_hematologic(923;0.0487)					AAATGTGTAAGTCGAGAAGAG	0.428													19	184	---	---	---	---	PASS	C	146680526	C	C	146680526	3	2	147	1	0	0	0	0	1	0	0	0	5958	1029	36	4	1042	4	FMO5	1	146680526	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	1117629	146680526	102570095	12	52125										
CRNN	49860	broad.mit.edu	37	chr1	152382780	152382780	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctgttctggtcattggtggCctcctgtgtctgcttgctgg	13	10	4	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:152382780C>T	uc001ezx.2	-	3	852	c.778G>A	c.(778-780)GCC>ACC	p.A260T		NM_016190	NP_057274	Q9UBG3	CRNN_HUMAN	cornulin	260	Gln-rich.				cell-cell adhesion|response to heat	cytoplasm|membrane	calcium ion binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCATTGGTGGCCTCCTGTGTC	0.597													99	759	---	---	---	---	PASS	T	152382780	T	T	152382780	3	4	147	1	0	0	0	0	1	0	0	0	3892	739	26	3	713	3	CRNN	1	152382780	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	5702254	152382780	96867841	13	52126										
PGLYRP4	57115	broad.mit.edu	37	chr1	153317794	153317794	+	Silent	SNP	G	A	A													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggcgtggtcagctgaatactGcagccaacagcttctgcccc							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:153317794G>A	uc001fbo.2	-	4	269	c.204C>T	c.(202-204)TGC>TGT	p.C68C	PGLYRP4_uc001fbp.2_Silent_p.C64C	NM_020393	NP_065126	Q96LB8	PGRP4_HUMAN	peptidoglycan recognition protein-I-beta	68					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(3)|skin(1)	4	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			GCTGAATACTGCAGCCAACAG	0.587													115	159	---	---	---	---	PASS	A	153317794	A	A	153317794	2	1	147	1	0	0	0	0	0	0	0	1	11796	1311	46	3		3	PGLYRP4	1	153317794	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	935014	153317794	95932827	14	52127	958	2								
PGLYRP4	57115	broad.mit.edu	37	chr1	153317795	153317795	+	Missense_Mutation	SNP	C	G	G													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcgtggtcagctgaatactgCagccaacagcttctgccccc							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:153317795C>G	uc001fbo.2	-	4	268	c.203G>C	c.(202-204)TGC>TCC	p.C68S	PGLYRP4_uc001fbp.2_Missense_Mutation_p.C64S	NM_020393	NP_065126	Q96LB8	PGRP4_HUMAN	peptidoglycan recognition protein-I-beta	68					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(3)|skin(1)	4	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			CTGAATACTGCAGCCAACAGC	0.582													116	161	---	---	---	---	PASS	G	153317795	G	G	153317795	3	3	147	1	0	0	0	0	1	0	0	0	11796	710	25	4	942	4	PGLYRP4	1	153317795	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1	153317795	95932826	15	52128	958	2								
CKS1B	1163	broad.mit.edu	37	chr1	154947241	154947241	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	catgtcgcacaaacaaatttActattcggacaaatacgacg	6	10	0	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:154947241A>G	uc001fgb.2	+	1	124	c.20A>G	c.(19-21)TAC>TGC	p.Y7C	SHC1_uc001ffx.2_5'Flank|SHC1_uc001ffy.2_5'Flank|CKS1B_uc001fga.2_RNA|hsa-mir-4258|MI0015857_5'Flank	NM_001826	NP_001817	P61024	CKS1_HUMAN	CDC28 protein kinase 1B	7					cell division|cell proliferation|G1/S transition of mitotic cell cycle|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle	nucleoplasm	cyclin-dependent protein kinase regulator activity|protein binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			AAACAAATTTACTATTCGGAC	0.572													17	30	---	---	---	---	PASS	G	154947241	G	G	154947241	3	3	147	1	0	0	0	0	1	0	0	0	3452	391	14	5	22	5	CKS1B	1	154947241	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	1629446	154947241	94303380	16	52129										
GON4L	54856	broad.mit.edu	37	chr1	155823139	155823139	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggtaagatgatcacatctgtCttcttgggtaactggcccag	11	9	4	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:155823139C>T	uc001flz.2	-	2	530	c.433G>A	c.(433-435)GAC>AAC	p.D145N	GON4L_uc001fly.1_Missense_Mutation_p.D145N|GON4L_uc009wrh.1_Missense_Mutation_p.D145N|GON4L_uc001fma.1_Missense_Mutation_p.D145N|GON4L_uc001fmc.2_Missense_Mutation_p.D145N|GON4L_uc001fmd.3_Missense_Mutation_p.D145N|GON4L_uc009wri.2_5'UTR	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	145					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TCACATCTGTCTTCTTGGGTA	0.448													60	372	---	---	---	---	PASS	T	155823139	T	T	155823139	3	4	147	1	0	0	0	0	1	0	0	0	6572	913	32	2	6530	2	GON4L	1	155823139	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	875898	155823139	93427482	17	52130										
CD1E	913	broad.mit.edu	37	chr1	158326363	158326363	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	catattggttgtagttgactCacggttaaaaaaacagaggt	10	5	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:158326363C>G	uc001fse.2	+	5	1219	c.980C>G	c.(979-981)TCA>TGA	p.S327*	CD1E_uc010pid.1_3'UTR|CD1E_uc010pie.1_3'UTR|CD1E_uc010pif.1_3'UTR|CD1E_uc001fsd.2_3'UTR|CD1E_uc001fsk.2_Nonsense_Mutation_p.S237*|CD1E_uc001fsj.2_Nonsense_Mutation_p.S182*|CD1E_uc001fsc.2_Nonsense_Mutation_p.S138*|CD1E_uc010pig.1_RNA|CD1E_uc001fsa.2_Nonsense_Mutation_p.S83*|CD1E_uc001fsf.2_Nonsense_Mutation_p.S327*|CD1E_uc001fry.2_Nonsense_Mutation_p.S272*|CD1E_uc001fsg.2_3'UTR|CD1E_uc001fsh.2_Nonsense_Mutation_p.S138*|CD1E_uc001fsi.2_3'UTR|CD1E_uc009wsv.2_Nonsense_Mutation_p.S228*|CD1E_uc001frz.2_Nonsense_Mutation_p.S237*|CD1E_uc009wsw.2_Intron	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	327					antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					GTAGTTGACTCACGGTTAAAA	0.308													38	47	---	---	---	---	PASS	G	158326363	G	G	158326363	4	3	147	1	0	0	0	0	0	1	0	0	2978	838	29	2	998	2	CD1E	1	158326363	Nonsense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	2503224	158326363	90924258	18	52131										
ADAMTS4	9507	broad.mit.edu	37	chr1	161163501	161163501	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggccctcacagtacttgccaCcattccgggggacaggcctc	11	16	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:161163501C>A	uc001fyt.3	-	6	2092	c.1664G>T	c.(1663-1665)GGT>GTT	p.G555V		NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	555	TSP type-1.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GTACTTGCCACCATTCCGGGG	0.657													53	312	---	---	---	---	PASS	A	161163501	A	A	161163501	3	1	147	1	0	0	0	0	1	0	0	0	268	507	18	3	865	3	ADAMTS4	1	161163501	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	2837138	161163501	88087120	19	52132										
RXRG	6258	broad.mit.edu	37	chr1	165380257	165380257	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aagttcagcttctagaatccTctccacaggcatgtcttcat	6	12	5	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:165380257T>C	uc001gda.2	-	5	1012	c.712A>G	c.(712-714)AGG>GGG	p.R238G		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	238	Hinge.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	TCTAGAATCCTCTCCACAGGC	0.478													59	128	---	---	---	---	PASS	C	165380257	C	C	165380257	3	2	147	1	0	0	0	0	1	0	0	0	13765	1550	54	5	703	5	RXRG	1	165380257	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	4216756	165380257	83870364	20	52133										
ADCY10	55811	broad.mit.edu	37	chr1	167847818	167847818	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtgacagagtcgcaggtcacAattcctgggtagtacatcat	11	9	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:167847818A>T	uc001ger.2	-	12	1570	c.1272T>A	c.(1270-1272)ATT>ATA	p.I424I	ADCY10_uc009wvk.2_Silent_p.I332I|ADCY10_uc010plj.1_Silent_p.I271I|ADCY10_uc009wvl.2_Silent_p.I423I	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	424					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						CGCAGGTCACAATTCCTGGGT	0.423													47	118	---	---	---	---	PASS	T	167847818	T	T	167847818	2	4	147	1	0	0	0	0	0	0	0	1	293	126	5	5		5	ADCY10	1	167847818	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08	2467561	167847818	81402803	21	52134										
F5	2153	broad.mit.edu	37	chr1	169489835	169489835	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttggagagatcctaatatatCtagccacaataggtgggtca	10	7	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:169489835C>G	uc001ggg.1	-	22	6261	c.6116G>C	c.(6115-6117)AGA>ACA	p.R2039T		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	2039	F5/8 type C 1.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	CCTAATATATCTAGCCACAAT	0.373													21	47	---	---	---	---	PASS	G	169489835	G	G	169489835	3	3	147	1	0	0	0	0	1	0	0	0	5348	913	32	2	574	2	F5	1	169489835	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1642017	169489835	79760786	22	52135										
SLC9A11	284525	broad.mit.edu	37	chr1	173478803	173478803	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gatggccagaaggcatcaaaGccttcatataaatcctccag	8	11	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:173478803G>C	uc001giz.2	-	24	3366	c.2943C>G	c.(2941-2943)GGC>GGG	p.G981G	SLC9A11_uc009wwe.2_Silent_p.G539G	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	981	cNMP.				sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						AGGCATCAAAGCCTTCATATA	0.393													10	57	---	---	---	---	PASS	C	173478803	C	C	173478803	2	2	147	1	0	0	0	0	0	0	0	1	14711	958	34	4		4	SLC9A11	1	173478803	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	3988968	173478803	75771818	23	52136										
TNR	7143	broad.mit.edu	37	chr1	175299318	175299318	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctcttggccatcccgcatgtCcacgcgcagctcatagcggc	10	17	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:175299318C>A	uc001gkp.1	-	19	3766	c.3685G>T	c.(3685-3687)GAC>TAC	p.D1229Y	TNR_uc009wwu.1_Missense_Mutation_p.D1229Y	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1229	Fibrinogen C-terminal.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TCCCGCATGTCCACGCGCAGC	0.572													47	88	---	---	---	---	PASS	A	175299318	A	A	175299318	3	1	147	1	0	0	0	0	1	0	0	0	16335	855	30	2	403	2	TNR	1	175299318	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1820515	175299318	73951303	24	52137										
TOR1AIP2	163590	broad.mit.edu	37	chr1	179815248	179815248	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctatgctactcactggctgGactggcagtaccaggtgtga	12	10	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:179815248G>C	uc001gnk.2	-	6	1759	c.1371C>G	c.(1369-1371)GTC>GTG	p.V457V	TOR1AIP2_uc001gnl.2_Silent_p.V457V	NM_145034	NP_659471	Q8NFQ8	TOIP2_HUMAN	torsin A interacting protein 2	457						endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1						TCACTGGCTGGACTGGCAGTA	0.448													35	160	---	---	---	---	PASS	C	179815248	C	C	179815248	2	2	147	1	0	0	0	0	0	0	0	1	16370	1161	41	2		2	TOR1AIP2	1	179815248	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	4515930	179815248	69435373	25	52138										
CACNA1S	779	broad.mit.edu	37	chr1	201009468	201009468	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	accctggtgtggagctctttCtgtcctcaggcatggaggac	13	11	3	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:201009468C>G	uc001gvv.2	-	43	5488	c.5261G>C	c.(5260-5262)AGA>ACA	p.R1754T		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1754	Cytoplasmic (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GGAGCTCTTTCTGTCCTCAGG	0.572													23	66	---	---	---	---	PASS	G	201009468	G	G	201009468	3	3	147	1	0	0	0	0	1	0	0	0	2547	913	32	2	368	2	CACNA1S	1	201009468	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	21194220	201009468	48241153	26	52139										
NAV1	89796	broad.mit.edu	37	chr1	201757714	201757714	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agcaccctgtccctggccgaGagacccaagggaatgattcg	12	13	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:201757714G>A	uc001gwu.2	+	10	3461	c.3114G>A	c.(3112-3114)GAG>GAA	p.E1038E	NAV1_uc001gwv.1_Silent_p.E546E|NAV1_uc001gww.1_Silent_p.E647E|NAV1_uc001gwx.2_Silent_p.E647E|NAV1_uc001gwy.1_Silent_p.E419E	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	1038					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						CCCTGGCCGAGAGACCCAAGG	0.622													65	172	---	---	---	---	PASS	A	201757714	A	A	201757714	2	1	147	1	0	0	0	0	0	0	0	1	10183	933	33	2		2	NAV1	1	201757714	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	748246	201757714	47492907	27	52140										
LMOD1	25802	broad.mit.edu	37	chr1	201868841	201868841	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cagcttggcgatctccatctCcgtcttgcctccacagatgt	8	15	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:201868841C>T	uc001gxb.2	-	2	1548	c.1300G>A	c.(1300-1302)GAG>AAG	p.E434K	LMOD1_uc010ppu.1_Missense_Mutation_p.E383K	NM_012134	NP_036266	P29536	LMOD1_HUMAN	leiomodin 1 (smooth muscle)	434					muscle contraction	cytoskeleton|cytosol|membrane fraction	tropomyosin binding			ovary(1)|pancreas(1)|skin(1)	3						ATCTCCATCTCCGTCTTGCCT	0.582													31	50	---	---	---	---	PASS	T	201868841	T	T	201868841	3	4	147	1	0	0	0	0	1	0	0	0	8856	864	30	2	510	2	LMOD1	1	201868841	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	111127	201868841	47381780	28	52141										
PPP1R12B	4660	broad.mit.edu	37	chr1	202538294	202538294	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggagaggcgagccttggagcGcaaaatgtcagaaatggagg	17	6	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:202538294G>A	uc001gya.1	+	23	2975	c.2831G>A	c.(2830-2832)CGC>CAC	p.R944H	PPP1R12B_uc001gxz.1_Missense_Mutation_p.R944H|PPP1R12B_uc001gyb.1_Missense_Mutation_p.R170H|PPP1R12B_uc001gyc.1_Missense_Mutation_p.R170H	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	944					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			GCCTTGGAGCGCAAAATGTCA	0.433													4	118	---	---	---	---	PASS	A	202538294	A	A	202538294	3	1	147	1	0	0	0	0	1	0	0	0	12355	1087	38	1	3011	1	PPP1R12B	1	202538294	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	669453	202538294	46712327	29	52142										
SLC45A3	85414	broad.mit.edu	37	chr1	205632421	205632421	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cagcccccaagactgatcatGaaggcatagacagagtaggc	11	11	1	5			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:205632421G>A	uc001hda.1	-	3	837	c.498C>T	c.(496-498)TTC>TTT	p.F166F	SLC45A3_uc010prn.1_5'Flank|SLC45A3_uc010pro.1_5'UTR|SLC45A3_uc010prp.1_Intron|ELK4_uc010prq.1_Intron	NM_033102	NP_149093	Q96JT2	S45A3_HUMAN	prostein	166	Helical; Name=5; (Potential).				transmembrane transport	integral to membrane			SLC45A3/BRAF(2)	ovary(2)|prostate(2)	4	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			GACTGATCATGAAGGCATAGA	0.632			T	ETV1|ETV5|ELK4|ERG	prostate 								5	88	---	---	---	---	PASS	A	205632421	A	A	205632421	2	1	147	1	0	0	0	0	0	0	0	1	14642	1281	45	2		2	SLC45A3	1	205632421	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	3094127	205632421	43618200	30	52143										
DYRK3	8444	broad.mit.edu	37	chr1	206821586	206821586	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctcctgaaacaccacgggcGcagttcaaccaaggtcattg	9	13	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:206821586G>A	uc001hej.2	+	3	1211	c.1043G>A	c.(1042-1044)CGC>CAC	p.R348H	DYRK3_uc001hek.2_Intron|DYRK3_uc001hei.2_Missense_Mutation_p.R328H	NM_003582	NP_003573	O43781	DYRK3_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	348	Protein kinase.				erythrocyte differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|central_nervous_system(1)	3	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			CACCACGGGCGCAGTTCAACC	0.458													5	292	---	---	---	---	PASS	A	206821586	A	A	206821586	3	1	147	1	0	0	0	0	1	0	0	0	4857	1087	38	1	1074	1	DYRK3	1	206821586	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	1189165	206821586	42429035	31	52144										
IL19	29949	broad.mit.edu	37	chr1	207010317	207010317	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ccacagcaagctaaggacacCttcccaaatgtcactatcct	5	15	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:207010317C>T	uc001hep.2	+	4	1098	c.159C>T	c.(157-159)ACC>ACT	p.T53T	IL19_uc001heo.2_Silent_p.T91T|IL19_uc010prx.1_Silent_p.T53T	NM_013371	NP_037503	Q9UHD0	IL19_HUMAN	interleukin 19 isoform 2 precursor	53					apoptosis|immune response|signal transduction	extracellular space	cytokine activity			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(75;0.211)			CTAAGGACACCTTCCCAAATG	0.408													64	137	---	---	---	---	PASS	T	207010317	T	T	207010317	2	4	147	1	0	0	0	0	0	0	0	1	7649	668	24	3		3	IL19	1	207010317	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	188731	207010317	42240304	32	52145										
CR1	1378	broad.mit.edu	37	chr1	207803911	207803911	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tggctatccatttacattctCaaggaggcagcagcgttcat	9	10	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:207803911C>G	uc001hfy.2	+	38	6192	c.6052C>G	c.(6052-6054)CAA>GAA	p.Q2018E	CR1_uc001hfx.2_Missense_Mutation_p.Q2468E	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	2018	Cytoplasmic (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TTTACATTCTCAAGGAGGCAG	0.343													9	26	---	---	---	---	PASS	G	207803911	G	G	207803911	3	3	147	1	0	0	0	0	1	0	0	0	3840	827	29	2	7584	2	CR1	1	207803911	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	793594	207803911	41446710	33	52146										
CD34	947	broad.mit.edu	37	chr1	208073314	208073314	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtaggtaactctggggtagcAgtaccgttgttgtcaagact	13	7	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:208073314A>T	uc001hgw.1	-	2	372	c.114T>A	c.(112-114)ACT>ACA	p.T38T	CD34_uc001hgx.1_Silent_p.T38T|CD34_uc010psj.1_5'UTR	NM_001025109	NP_001020280	P28906	CD34_HUMAN	CD34 antigen isoform a	38	Extracellular (Potential).				cell-cell adhesion|leukocyte migration|regulation of immune response	integral to membrane	carbohydrate binding			ovary(1)	1						CTGGGGTAGCAGTACCGTTGT	0.443													22	134	---	---	---	---	PASS	T	208073314	T	T	208073314	2	4	147	1	0	0	0	0	0	0	0	1	3006	175	7	5		5	CD34	1	208073314	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08	269403	208073314	41177307	34	52147										
USH2A	7399	broad.mit.edu	37	chr1	215844357	215844357	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcaatagttcggaatctataAaagatgttgagcttccgtta	9	6	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:215844357A>G	uc001hku.1	-	64	14477	c.14090T>C	c.(14089-14091)TTT>TCT	p.F4697S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4697	Fibronectin type-III 32.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GGAATCTATAAAAGATGTTGA	0.363										HNSCC(13;0.011)			132	241	---	---	---	---	PASS	G	215844357	G	G	215844357	3	3	147	1	0	0	0	0	1	0	0	0	17033	14	1	5	1554	5	USH2A	1	215844357	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	7771043	215844357	33406264	35	52148										
C1orf131	128061	broad.mit.edu	37	chr1	231364912	231364912	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	atactttttctaggttaaatTcttgtgtatccacatctctc	4	9	3	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr1:231364912T>C	uc001hun.1	-	3	531	c.494A>G	c.(493-495)GAA>GGA	p.E165G	C1orf131_uc001hul.2_Missense_Mutation_p.E165G|C1orf131_uc001hum.2_Missense_Mutation_p.E164G|C1orf131_uc010pwd.1_Missense_Mutation_p.E164G	NM_152379	NP_689592	Q8NDD1	CA131_HUMAN	hypothetical protein LOC128061	165										central_nervous_system(1)|skin(1)	2	Breast(184;0.0871)	all_cancers(173;0.2)|Prostate(94;0.183)				TAGGTTAAATTCTTGTGTATC	0.209													23	47	---	---	---	---	PASS	C	231364912	C	C	231364912	3	2	147	1	0	0	0	0	1	0	0	0	1998	1783	62	5	407	5	C1orf131	1	231364912	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	15520555	231364912	17885709	36	52149										
MYT1L	23040	broad.mit.edu	37	chr2	1921039	1921039	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgcggtgatgtgggtacagcCcagttacgtggccggttcca	15	10	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:1921039C>A	uc002qxe.2	-	11	2383	c.1556G>T	c.(1555-1557)GGG>GTG	p.G519V	MYT1L_uc002qxd.2_Missense_Mutation_p.G517V|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	519	C2HC-type 2.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		TGGGTACAGCCCAGTTACGTG	0.552													107	164	---	---	---	---	PASS	A	1921039	A	A	1921039	3	1	147	1	0	0	0	0	1	0	0	0	10107	623	22	3	2064	3	MYT1L	2	1921039	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08		1921039	241278334	37	52150										
NCOA1	8648	broad.mit.edu	37	chr2	24930643	24930643	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcaactccaaacctgagcctGgatgatgtaaaggtgaaagt	10	8	1	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:24930643G>T	uc002rfk.2	+	11	2562	c.2304G>T	c.(2302-2304)CTG>CTT	p.L768L	NCOA1_uc010eye.2_Silent_p.L768L|NCOA1_uc002rfi.2_Silent_p.L617L|NCOA1_uc002rfj.2_Silent_p.L768L|NCOA1_uc002rfl.2_Silent_p.L768L	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	768									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACCTGAGCCTGGATGATGTAA	0.388			T	PAX3	alveolar rhadomyosarcoma								35	62	---	---	---	---	PASS	T	24930643	T	T	24930643	2	4	147	1	0	0	0	0	0	0	0	1	10228	1335	47	3		3	NCOA1	2	24930643	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	23009604	24930643	218268730	38	52151										
DNAJC27	51277	broad.mit.edu	37	chr2	25170608	25170608	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agtttccgatacgctttattGacttcatccctgggaaaaga	8	9	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:25170608G>C	uc002rft.1	-	7	750	c.699C>G	c.(697-699)GTC>GTG	p.V233V	DNAJC27_uc010ykn.1_Silent_p.V162V|DNAJC27_uc002rfu.1_RNA|DNAJC27_uc010eyg.1_3'UTR	NM_016544	NP_057628	Q9NZQ0	DJC27_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 27	233	J.				protein folding|small GTPase mediated signal transduction		GTP binding|heat shock protein binding|unfolded protein binding			skin(1)	1						ACGCTTTATTGACTTCATCCC	0.458													24	121	---	---	---	---	PASS	C	25170608	C	C	25170608	2	2	147	1	0	0	0	0	0	0	0	1	4645	1277	45	2		2	DNAJC27	2	25170608	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	239965	25170608	218028765	39	52152										
SLC30A3	7781	broad.mit.edu	37	chr2	27480121	27480121	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cggacgctggtgttccccagGggcaggggctcttcaggccc	16	14	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:27480121G>T	uc002rjk.2	-	5	864	c.678C>A	c.(676-678)CCC>CCA	p.P226P	SLC30A3_uc002rjj.2_Missense_Mutation_p.P72H|SLC30A3_uc010ylh.1_Silent_p.P221P	NM_003459	NP_003450	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter),	226	Cytoplasmic (Potential).				regulation of sequestering of zinc ion	cell junction|integral to plasma membrane|late endosome|membrane fraction|synaptic vesicle membrane	zinc transporting ATPase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGTTCCCCAGGGGCAGGGGCT	0.652													22	58	---	---	---	---	PASS	T	27480121	T	T	27480121	2	4	147	1	0	0	0	0	0	0	0	1	14556	1219	43	3		3	SLC30A3	2	27480121	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	2309513	27480121	215719252	40	52153										
BIRC6	57448	broad.mit.edu	37	chr2	32703827	32703827	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cttcaatagaggagatatatCttggggtggtgcttgggctc	14	6	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:32703827C>A	uc010ezu.2	+	36	7327	c.7193C>A	c.(7192-7194)TCT>TAT	p.S2398Y		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	2398					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)					GGAGATATATCTTGGGGTGGT	0.413													28	156	---	---	---	---	PASS	A	32703827	A	A	32703827	3	1	147	1	0	0	0	0	1	0	0	0	1438	913	32	2	7335	2	BIRC6	2	32703827	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	5223706	32703827	210495546	41	52154										
RTN4	57142	broad.mit.edu	37	chr2	55254534	55254534	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gaggagacagagaaggaagaGaagcagcagtttcaagcagg	16	5	1	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:55254534G>C	uc002rye.2	-	3	999	c.701C>G	c.(700-702)TCT>TGT	p.S234C	RTN4_uc002ryd.2_Missense_Mutation_p.S28C|RTN4_uc002ryf.2_Intron|RTN4_uc002ryg.2_Intron	NM_020532	NP_065393	Q9NQC3	RTN4_HUMAN	reticulon 4 isoform A	234	Cytoplasmic (Potential).				apoptosis|axonal fasciculation|cerebral cortex radial glia guided migration|endoplasmic reticulum tubular network organization|negative regulation of anti-apoptosis|negative regulation of axon extension|nerve growth factor receptor signaling pathway|regulation of apoptosis|regulation of branching morphogenesis of a nerve|regulation of cell migration	integral to endoplasmic reticulum membrane|nuclear envelope|plasma membrane	protein binding			ovary(2)|large_intestine(1)	3						AGAAGGAAGAGAAGCAGCAGT	0.443													25	121	---	---	---	---	PASS	C	55254534	C	C	55254534	3	2	147	1	0	0	0	0	1	0	0	0	13728	942	33	2	2943	2	RTN4	2	55254534	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	22550707	55254534	187944839	42	52155										
DGUOK	1716	broad.mit.edu	37	chr2	74154148	74154148	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggcctgcacgcggggcgcggGccccgaaggctctccatcga	16	16	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:74154148G>T	uc002sjx.2	+	1	196	c.111G>T	c.(109-111)GGG>GGT	p.G37G	DGUOK_uc002sjy.2_Silent_p.G37G|DGUOK_uc002sjz.2_RNA	NM_080916	NP_550438	Q16854	DGUOK_HUMAN	deoxyguanosine kinase isoform a precursor	37					guanosine metabolic process|purine base metabolic process|purine deoxyribonucleoside metabolic process|purine-containing compound salvage	mitochondrial matrix	ATP binding|deoxyguanosine kinase activity|phosphotransferase activity, alcohol group as acceptor				0						CGGGGCGCGGGCCCCGAAGGC	0.657													55	91	---	---	---	---	PASS	T	74154148	T	T	74154148	2	4	147	1	0	0	0	0	0	0	0	1	4475	1190	42	3		3	DGUOK	2	74154148	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	18899614	74154148	169045225	43	52156										
TET3	200424	broad.mit.edu	37	chr2	74273535	74273535	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tggtgctagagagcccgctgGacccagtctgctggggactg	16	11	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:74273535G>C	uc002skb.3	+	1	86	c.86G>C	c.(85-87)GGA>GCA	p.G29A	TET3_uc010fez.1_Missense_Mutation_p.G29A	NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	29							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GAGCCCGCTGGACCCAGTCTG	0.647													23	85	---	---	---	---	PASS	C	74273535	C	C	74273535	3	2	147	1	0	0	0	0	1	0	0	0	15768	1174	41	2	88	2	TET3	2	74273535	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	119387	74273535	168925838	44	52157										
PROM2	150696	broad.mit.edu	37	chr2	95943153	95943153	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acctgcaaaccttgaatgctAcagtggtagagctgcaggcc	11	11	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:95943153A>G	uc002suh.1	+	7	947	c.814A>G	c.(814-816)ACA>GCA	p.T272A	PROM2_uc002sui.2_Missense_Mutation_p.T272A|PROM2_uc002suj.2_5'UTR|PROM2_uc002suk.2_Missense_Mutation_p.T272A|PROM2_uc002sul.2_5'UTR	NM_144707	NP_653308	Q8N271	PROM2_HUMAN	prominin 2 precursor	272	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|cilium membrane|integral to membrane|microvillus membrane				ovary(1)	1						CTTGAATGCTACAGTGGTAGA	0.647													26	61	---	---	---	---	PASS	G	95943153	G	G	95943153	3	3	147	1	0	0	0	0	1	0	0	0	12556	391	14	5	840	5	PROM2	2	95943153	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	21669618	95943153	147256220	45	52158										
SEMA4C	54910	broad.mit.edu	37	chr2	97527051	97527051	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gggcctggagccgggcatcgTagaggaaggacccgggctgt	19	10	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:97527051T>C	uc002sxh.3	-	15	1974	c.1814A>G	c.(1813-1815)TAC>TGC	p.Y605C	SEMA4C_uc002sxf.3_Missense_Mutation_p.Y105C|SEMA4C_uc002sxe.2_Missense_Mutation_p.Y146C|SEMA4C_uc002sxg.3_Missense_Mutation_p.Y658C	NM_017789	NP_060259	Q9C0C4	SEM4C_HUMAN	semaphorin 4C precursor	605	Extracellular (Potential).|Ig-like C2-type.				muscle cell differentiation|nervous system development|positive regulation of stress-activated MAPK cascade	cell junction|integral to membrane|postsynaptic density|postsynaptic membrane|synaptic vesicle membrane	receptor activity			skin(2)	2						CCGGGCATCGTAGAGGAAGGA	0.697													17	32	---	---	---	---	PASS	C	97527051	C	C	97527051	3	2	147	1	0	0	0	0	1	0	0	0	14033	1638	57	5	691	5	SEMA4C	2	97527051	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	1583898	97527051	145672322	46	52159										
TSGA10	80705	broad.mit.edu	37	chr2	99636926	99636926	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gttcaatttcagaatgagcaGaatctaactcattctccctc	5	11	5	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:99636926G>T	uc002szg.3	-	16	2262	c.1634C>A	c.(1633-1635)TCT>TAT	p.S545Y	TSGA10_uc002szh.3_Missense_Mutation_p.S545Y|TSGA10_uc002szi.3_Missense_Mutation_p.S545Y|TSGA10_uc010fin.1_Missense_Mutation_p.S545Y	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	545					spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						AGAATGAGCAGAATCTAACTC	0.368													21	92	---	---	---	---	PASS	T	99636926	T	T	99636926	3	4	147	1	0	0	0	0	1	0	0	0	16614	942	33	2	478	2	TSGA10	2	99636926	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	2109875	99636926	143562447	47	52160										
SEPT10	151011	broad.mit.edu	37	chr2	110323374	110323374	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	caagggtactggcgagctttGaccatcttgtttccgacttt	10	10	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:110323374G>C	uc002tew.2	-	7	1204	c.825C>G	c.(823-825)GTC>GTG	p.V275V	SEPT10_uc010ywu.1_Silent_p.V108V|SEPT10_uc002tex.2_Silent_p.V252V|SEPT10_uc002tey.2_Silent_p.V275V|SEPT10_uc010ywv.1_Silent_p.V141V|SEPT10_uc002tev.1_Silent_p.V82V|SEPT10_uc010fjo.2_RNA|SEPT10_uc002tez.1_Silent_p.V50V	NM_144710	NP_653311	Q9P0V9	SEP10_HUMAN	septin 10 isoform 1	275					cell cycle|cell division	septin complex	GTP binding				0						GGCGAGCTTTGACCATCTTGT	0.428													84	377	---	---	---	---	PASS	C	110323374	C	C	110323374	2	2	147	1	0	0	0	0	0	0	0	1	14060	1277	45	2		2	SEPT10	2	110323374	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	10686448	110323374	132875999	48	52161										
ACOXL	55289	broad.mit.edu	37	chr2	111806850	111806850	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgtcctgaccaagaggaccaGactttgttaatgaaggtagg	12	7	0	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:111806850G>C	uc002tgr.3	+	17	1739	c.1515G>C	c.(1513-1515)CAG>CAC	p.Q505H	ACOXL_uc010fkc.2_Missense_Mutation_p.Q475H|ACOXL_uc010yxk.1_Missense_Mutation_p.Q475H	NM_001105516	NP_001098986	Q9NUZ1	ACOXL_HUMAN	acyl-Coenzyme A oxidase-like 2	505					fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0						AAGAGGACCAGACTTTGTTAA	0.428													11	73	---	---	---	---	PASS	C	111806850	C	C	111806850	3	2	147	1	0	0	0	0	1	0	0	0	161	933	33	2	1483	2	ACOXL	2	111806850	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	1483476	111806850	131392523	49	52162										
PSD4	23550	broad.mit.edu	37	chr2	113943490	113943490	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acacccccaggaatctcttcCctgcaccttggccccctgcc	6	21	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:113943490C>T	uc002tjc.2	+	5	1469	c.1286C>T	c.(1285-1287)CCC>CTC	p.P429L	PSD4_uc002tjd.2_Missense_Mutation_p.P50L|PSD4_uc002tje.2_Intron|PSD4_uc002tjf.2_Missense_Mutation_p.P50L	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	429					regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						GAATCTCTTCCCTGCACCTTG	0.647													17	35	---	---	---	---	PASS	T	113943490	T	T	113943490	3	4	147	1	0	0	0	0	1	0	0	0	12649	623	22	3	1300	3	PSD4	2	113943490	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	2136640	113943490	129255883	50	52163										
SMPD4	55627	broad.mit.edu	37	chr2	130912742	130912742	+	Frame_Shift_Del	DEL	G	-	-													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aacaccatgagcgcgtgcttGgggctgaccaggtctgtgcg							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:130912742delG	uc002tqq.1	-	15	2017	c.1497delC	c.(1495-1497)CCCfs	p.P499fs	SMPD4_uc002tqo.1_5'UTR|SMPD4_uc002tqp.1_Frame_Shift_Del_p.P238fs|SMPD4_uc010yzy.1_Frame_Shift_Del_p.P248fs|SMPD4_uc010yzz.1_Frame_Shift_Del_p.P163fs|SMPD4_uc002tqr.1_Frame_Shift_Del_p.P470fs|SMPD4_uc002tqs.1_Frame_Shift_Del_p.P367fs|SMPD4_uc002tqt.1_Frame_Shift_Del_p.P348fs|SMPD4_uc010zaa.1_Frame_Shift_Del_p.P357fs|SMPD4_uc010zab.1_Frame_Shift_Del_p.P397fs|SMPD4_uc010zac.1_Frame_Shift_Del_p.P240fs|SMPD4_uc010zad.1_Frame_Shift_Del_p.P135fs	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	460					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	GCGCGTGCTTGGGGCTGACCA	0.602													92	49	---	---	---	---		-	130912742	-	-	130912742	7	5	147	1	0	1	0	1	0	0	0	0	14807	1335	47	0	1127	0	SMPD4	2	130912742	Frame_Shift_Del	DEL	G	TCGA-66-2758-01A-02D-1522-08	16969252	130912742	112286631	51	52164										
CFC1B	653275	broad.mit.edu	37	chr2	131356222	131356222	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cgctgcaacttaccctctccGaaagcccgggagtaggggag	13	13	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:131356222G>T	uc002tro.1	-	3	631	c.240C>A	c.(238-240)TTC>TTA	p.F80L		NM_001079530	NP_001072998	P0CG36	CFC1B_HUMAN	cripto, FRL-1, cryptic family 1B	80					gastrulation	extracellular region					0	Colorectal(110;0.1)					TACCCTCTCCGAAAGCCCGGG	0.592													20	126	---	---	---	---	PASS	T	131356222	T	T	131356222	3	4	147	1	0	0	0	0	1	0	0	0	3280	1049	37	2	1143	2	CFC1B	2	131356222	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	443480	131356222	111843151	52	52165										
LRP1B	53353	broad.mit.edu	37	chr2	141128305	141128305	+	Missense_Mutation	SNP	C	A	A													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cacagttctcttcatcactgCcatccacacagtcatgaatt							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:141128305C>A	uc002tvj.1	-	71	11954	c.10982G>T	c.(10981-10983)GGC>GTC	p.G3661V		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3661	Extracellular (Potential).|LDL-receptor class A 29.				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)		TTCATCACTGCCATCCACACA	0.398										TSP Lung(27;0.18)			58	320	---	---	---	---	PASS	A	141128305	A	A	141128305	3	1	147	1	0	0	0	0	1	0	0	0	8955	739	26	3	2901	3	LRP1B	2	141128305	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	9772083	141128305	102071068	53	52166	959	2								
LRP1B	53353	broad.mit.edu	37	chr2	141128306	141128306	+	Missense_Mutation	SNP	C	G	G													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acagttctcttcatcactgcCatccacacagtcatgaattc							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:141128306C>G	uc002tvj.1	-	71	11953	c.10981G>C	c.(10981-10983)GGC>CGC	p.G3661R		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3661	Extracellular (Potential).|LDL-receptor class A 29.				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)		TCATCACTGCCATCCACACAG	0.403										TSP Lung(27;0.18)			57	318	---	---	---	---	PASS	G	141128306	G	G	141128306	3	3	147	1	0	0	0	0	1	0	0	0	8955	594	21	4	2902	4	LRP1B	2	141128306	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1	141128306	102071067	54	52167	959	2								
LRP1B	53353	broad.mit.edu	37	chr2	141250190	141250190	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtcatacctgttttaaaagtGtgtagttggagccatcagtg	11	6	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:141250190G>T	uc002tvj.1	-	57	10079	c.9107C>A	c.(9106-9108)ACA>AAA	p.T3036K		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3036	Extracellular (Potential).				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)		TTTTAAAAGTGTGTAGTTGGA	0.363										TSP Lung(27;0.18)			29	198	---	---	---	---	PASS	T	141250190	T	T	141250190	3	4	147	1	0	0	0	0	1	0	0	0	8955	1377	48	3	4832	3	LRP1B	2	141250190	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	121884	141250190	101949183	55	52168										
ACVR1C	130399	broad.mit.edu	37	chr2	158406748	158406748	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctggtaaatttctgcctcaCgaaaccaagatctttcatct	5	11	6	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:158406748C>G	uc002tzk.3	-	4	944	c.701G>C	c.(700-702)CGT>CCT	p.R234P	ACVR1C_uc002tzl.3_Missense_Mutation_p.R154P|ACVR1C_uc010fof.2_Intron|ACVR1C_uc010foe.2_Missense_Mutation_p.R184P	NM_145259	NP_660302	Q8NER5	ACV1C_HUMAN	activin A receptor, type IC isoform 1	234	Protein kinase.|Cytoplasmic (Potential).				apoptosis|cell differentiation|regulation of apoptosis	activin receptor complex	activin receptor activity, type I|ATP binding|transforming growth factor beta receptor activity			lung(3)|ovary(2)|skin(2)	7						TTCTGCCTCACGAAACCAAGA	0.433													21	199	---	---	---	---	PASS	G	158406748	G	G	158406748	3	3	147	1	0	0	0	0	1	0	0	0	222	536	19	4	804	4	ACVR1C	2	158406748	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	17156558	158406748	84792625	56	52169										
ACVR1C	130399	broad.mit.edu	37	chr2	158406867	158406867	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	actatttcctgaagcacaatCgtccttgcaattgtcctttg	6	11	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:158406867C>A	uc002tzk.3	-	4	825	c.582G>T	c.(580-582)ACG>ACT	p.T194T	ACVR1C_uc002tzl.3_Silent_p.T114T|ACVR1C_uc010fof.2_Intron|ACVR1C_uc010foe.2_Silent_p.T144T	NM_145259	NP_660302	Q8NER5	ACV1C_HUMAN	activin A receptor, type IC isoform 1	194	Cytoplasmic (Potential).|GS.			T->D: Pro-apoptotic.	apoptosis|cell differentiation|regulation of apoptosis	activin receptor complex	activin receptor activity, type I|ATP binding|transforming growth factor beta receptor activity			lung(3)|ovary(2)|skin(2)	7						GAAGCACAATCGTCCTTGCAA	0.398													36	139	---	---	---	---	PASS	A	158406867	A	A	158406867	2	1	147	1	0	0	0	0	0	0	0	1	222	871	31	2		2	ACVR1C	2	158406867	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	119	158406867	84792506	57	52170										
LY75	4065	broad.mit.edu	37	chr2	160755237	160755237	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aaaggctttcctctgagcctCctttcttccagacatcagat	6	13	3	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:160755237C>T	uc002ubc.3	-	2	497	c.428G>A	c.(427-429)GGA>GAA	p.G143E	LY75_uc002ubb.3_Missense_Mutation_p.G143E|LY75_uc010fos.2_Missense_Mutation_p.G143E|LY75_uc010fot.1_Missense_Mutation_p.G143E	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	143	Extracellular (Potential).|Ricin B-type lectin.				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		CTCTGAGCCTCCTTTCTTCCA	0.502													28	112	---	---	---	---	PASS	T	160755237	T	T	160755237	3	4	147	1	0	0	0	0	1	0	0	0	9099	855	30	2	4876	2	LY75	2	160755237	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	2348370	160755237	82444136	58	52171										
LY75	4065	broad.mit.edu	37	chr2	160755382	160755382	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtcacagctgaacattctcaGctcatttaccgatttggtaa	7	10	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:160755382G>T	uc002ubc.3	-	2	352	c.283C>A	c.(283-285)CTG>ATG	p.L95M	LY75_uc002ubb.3_Missense_Mutation_p.L95M|LY75_uc010fos.2_Missense_Mutation_p.L95M|LY75_uc010fot.1_Missense_Mutation_p.L95M	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	95	Extracellular (Potential).|Ricin B-type lectin.				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		AACATTCTCAGCTCATTTACC	0.522													66	79	---	---	---	---	PASS	T	160755382	T	T	160755382	3	4	147	1	0	0	0	0	1	0	0	0	9099	962	34	3	5021	3	LY75	2	160755382	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	145	160755382	82443991	59	52172										
XIRP2	129446	broad.mit.edu	37	chr2	168107682	168107682	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gaatctgtggacgctcaagaGgaaatcaggaaagtggagaa	14	5	3	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:168107682G>A	uc002udx.2	+	8	9798	c.9780G>A	c.(9778-9780)GAG>GAA	p.E3260E	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.E3085E|XIRP2_uc010fpq.2_Silent_p.E3038E|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3085					actin cytoskeleton organization	cell junction	actin binding	p.E3260G(1)		skin(7)|ovary(6)|pancreas(1)	14						ACGCTCAAGAGGAAATCAGGA	0.423													25	101	---	---	---	---	PASS	A	168107682	A	A	168107682	2	1	147	1	0	0	0	0	0	0	0	1	17427	991	35	3		3	XIRP2	2	168107682	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	7352300	168107682	75091691	60	52173										
G6PC2	57818	broad.mit.edu	37	chr2	169764111	169764111	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agaggcctttgaacacactcCaggcatccaaacggccagtc	9	14	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:169764111C>G	uc002uem.2	+	5	682	c.590C>G	c.(589-591)CCA>CGA	p.P197R	G6PC2_uc002uen.2_3'UTR|G6PC2_uc010fpv.2_Missense_Mutation_p.P81R	NM_021176	NP_066999	Q9NQR9	G6PC2_HUMAN	islet-specific glucose-6-phosphatase-related	197	Cytoplasmic (Potential).				gluconeogenesis|glucose homeostasis|glucose transport|regulation of insulin secretion|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	glucose-6-phosphatase activity			pancreas(1)	1						GAACACACTCCAGGCATCCAA	0.517													25	169	---	---	---	---	PASS	G	169764111	G	G	169764111	3	3	147	1	0	0	0	0	1	0	0	0	6144	594	21	4	608	4	G6PC2	2	169764111	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1656429	169764111	73435262	61	52174										
TTN	7273	broad.mit.edu	37	chr2	179441933	179441933	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctgatttcaacaggacctggGggaccaggtacatcaaggac	12	10	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:179441933G>A	uc010zfg.1	-	273	61649	c.61425C>T	c.(61423-61425)CCC>CCT	p.P20475P	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.P14170P|TTN_uc010zfi.1_Silent_p.P14103P|TTN_uc010zfj.1_Silent_p.P13978P|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21402							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)			CAGGACCTGGGGGACCAGGTA	0.458													20	69	---	---	---	---	PASS	A	179441933	A	A	179441933	2	1	147	1	0	0	0	0	0	0	0	1	16732	1219	43	3		3	TTN	2	179441933	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	9677822	179441933	63757440	62	52175										
TTN	7273	broad.mit.edu	37	chr2	179453427	179453427	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cttgttgacagggacccatcGtgttgaatgcttttcctttt	9	9	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:179453427G>A	uc010zfg.1	-	253	55545	c.55321C>T	c.(55321-55323)CGA>TGA	p.R18441*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.R12136*|TTN_uc010zfi.1_Nonsense_Mutation_p.R12069*|TTN_uc010zfj.1_Nonsense_Mutation_p.R11944*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19368							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)			GGGACCCATCGTGTTGAATGC	0.423													112	142	---	---	---	---	PASS	A	179453427	A	A	179453427	4	1	147	1	0	0	0	0	0	1	0	0	16732	1153	40	1	45190	1	TTN	2	179453427	Nonsense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	11494	179453427	63745946	63	52176										
TTN	7273	broad.mit.edu	37	chr2	179613541	179613541	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aaagcagctttaaatttattGcaatgttagatgaatctgat	7	4	1	3	rs138927584		TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:179613541G>A	uc002unb.2	-	46	13810	c.13586C>T	c.(13585-13587)GCA>GTA	p.A4529V	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	660							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)			TAAATTTATTGCAATGTTAGA	0.318													43	138	---	---	---	---	PASS	A	179613541	A	A	179613541	3	1	147	1	0	0	0	0	1	0	0	0	16732	1319	46	3	96711	3	TTN	2	179613541	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	160114	179613541	63585832	64	52177										
TTN	7273	broad.mit.edu	37	chr2	179613794	179613794	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtagtgtatctcttcaccaaGggattcttcatatacaatgg	8	8	4	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:179613794G>A	uc002unb.2	-	46	13557	c.13333C>T	c.(13333-13335)CTT>TTT	p.L4445F	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TCTTCACCAAGGGATTCTTCA	0.348													26	128	---	---	---	---	PASS	A	179613794	A	A	179613794	3	1	147	1	0	0	0	0	1	0	0	0	16732	1000	35	3	96964	3	TTN	2	179613794	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	253	179613794	63585579	65	52178										
TTN	7273	broad.mit.edu	37	chr2	179631292	179631292	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	taccagtgggcatcaacatcGtcttcattgacctcaaattc	6	12	4	1	rs151129843	by1000genomes	TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:179631292G>A	uc010zfg.1	-	41	9743	c.9519C>T	c.(9517-9519)GAC>GAT	p.D3173D	TTN_uc010zfh.1_Silent_p.D3127D|TTN_uc010zfi.1_Silent_p.D3127D|TTN_uc010zfj.1_Silent_p.D3127D|TTN_uc002umz.1_5'Flank|TTN_uc002unb.2_Silent_p.D3173D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3173							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)			CATCAACATCGTCTTCATTGA	0.368													64	87	---	---	---	---	PASS	A	179631292	A	A	179631292	2	1	147	1	0	0	0	0	0	0	0	1	16732	1136	40	1		1	TTN	2	179631292	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	17498	179631292	63568081	66	52179										
TTN	7273	broad.mit.edu	37	chr2	179649052	179649052	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gacaactctttttgtaatgtGgcaatagcactaccggctat	8	9	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:179649052G>T	uc010zfg.1	-	16	2744	c.2520C>A	c.(2518-2520)GCC>GCA	p.A840A	TTN_uc010zfh.1_Silent_p.A794A|TTN_uc010zfi.1_Silent_p.A794A|TTN_uc010zfj.1_Silent_p.A794A|TTN_uc002unb.2_Silent_p.A840A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	840							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)			TTTGTAATGTGGCAATAGCAC	0.468													67	79	---	---	---	---	PASS	T	179649052	T	T	179649052	2	4	147	1	0	0	0	0	0	0	0	1	16732	1335	47	3		3	TTN	2	179649052	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	17760	179649052	63550321	67	52180										
OBSL1	23363	broad.mit.edu	37	chr2	220435043	220435043	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcctggcagtaaagcaccttGagcacgaagccgccgtcgcg	13	14	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:220435043G>C	uc010fwk.2	-	1	969	c.912C>G	c.(910-912)CTC>CTG	p.L304L	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Silent_p.L304L|OBSL1_uc002vmj.2_Intron|INHA_uc002vmk.1_5'Flank	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	304	Ig-like 3.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		AAAGCACCTTGAGCACGAAGC	0.697													6	23	---	---	---	---	PASS	C	220435043	C	C	220435043	2	2	147	1	0	0	0	0	0	0	0	1	10813	1277	45	2		2	OBSL1	2	220435043	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	40785991	220435043	22764330	68	52181										
ACSL3	2181	broad.mit.edu	37	chr2	223791784	223791784	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tagggggaaatattcgtctcCtgttgtgtggtggcgctcca	14	8	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr2:223791784C>G	uc002vni.2	+	12	1793	c.1342C>G	c.(1342-1344)CTG>GTG	p.L448V	ACSL3_uc002vnj.2_Missense_Mutation_p.L448V	NM_004457	NP_004448	O95573	ACSL3_HUMAN	acyl-CoA synthetase long-chain family member 3	448	Cytoplasmic (Potential).				long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|fatty-acyl-CoA synthase activity|long-chain fatty acid-CoA ligase activity|protein binding			ovary(2)	2		Renal(207;0.0183)		Epithelial(121;1.28e-10)|all cancers(144;8.06e-08)|Lung(261;0.00834)|LUSC - Lung squamous cell carcinoma(224;0.00864)	Icosapent(DB00159)	TATTCGTCTCCTGTTGTGTGG	0.388			T	ETV1	prostate								81	59	---	---	---	---	PASS	G	223791784	G	G	223791784	3	3	147	1	0	0	0	0	1	0	0	0	178	680	24	4	1376	4	ACSL3	2	223791784	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	3356741	223791784	19407589	69	52182										
CRTAP	10491	broad.mit.edu	37	chr3	33156012	33156012	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cttccagcgccgcgagccctAcaagttcctgcagttcgctt	9	16	0	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:33156012A>G	uc003cfl.3	+	1	563	c.443A>G	c.(442-444)TAC>TGC	p.Y148C	CRTAP_uc010hfz.2_Missense_Mutation_p.Y148C|CRTAP_uc003cfm.2_5'UTR|CRTAP_uc003cfn.2_5'UTR	NM_006371	NP_006362	O75718	CRTAP_HUMAN	cartilage associated protein precursor	148						proteinaceous extracellular matrix	binding				0						CGCGAGCCCTACAAGTTCCTG	0.483													3	2	---	---	---	---	PASS	G	33156012	G	G	33156012	3	3	147	1	0	0	0	0	1	0	0	0	3898	391	14	5	445	5	CRTAP	3	33156012	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08		33156012	164866418	70	52183										
CLASP2	23122	broad.mit.edu	37	chr3	33580423	33580423	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agttcatattttctgtgtcaTaatcaaatgcactatgaaaa	5	6	4	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:33580423T>C	uc003cfu.2	-	32	3770	c.3416A>G	c.(3415-3417)TAT>TGT	p.Y1139C	CLASP2_uc003cfs.2_Missense_Mutation_p.Y346C|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Missense_Mutation_p.Y739C	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	1148										ovary(3)|central_nervous_system(1)	4						TTCTGTGTCATAATCAAATGC	0.313													15	9	---	---	---	---	PASS	C	33580423	C	C	33580423	3	2	147	1	0	0	0	0	1	0	0	0	3455	1406	49	5	1132	5	CLASP2	3	33580423	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	424411	33580423	164442007	71	52184										
SCN5A	6331	broad.mit.edu	37	chr3	38622756	38622756	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agcgcaggcccctctggatgCgggccagggccagctggagg	18	13	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:38622756C>T	uc003cio.2	-	17	3088	c.2894G>A	c.(2893-2895)CGC>CAC	p.R965H	SCN5A_uc003cin.2_Missense_Mutation_p.R965H|SCN5A_uc003cil.3_Missense_Mutation_p.R965H|SCN5A_uc010hhi.2_Missense_Mutation_p.R965H|SCN5A_uc010hhk.2_Missense_Mutation_p.R965H|SCN5A_uc011ayr.1_Missense_Mutation_p.R965H|SCN5A_uc010hhj.1_Missense_Mutation_p.R576H	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	965			R -> C (in BRS1; steady state inactivation shifted to a more negative potential; slower recovery from inactivation).		blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	CCTCTGGATGCGGGCCAGGGC	0.627													10	19	---	---	---	---	PASS	T	38622756	T	T	38622756	3	4	147	1	0	0	0	0	1	0	0	0	13922	768	27	1	3204	1	SCN5A	3	38622756	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	5042333	38622756	159399674	72	52185										
DNAH12	201625	broad.mit.edu	37	chr3	57493430	57493430	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tccaatttttcaggtttaacAccttctagtgcctccttctt	4	12	3	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:57493430A>C	uc003dit.2	-	8	1018	c.837T>G	c.(835-837)GGT>GGG	p.G279G	DNAH12_uc003diu.2_Silent_p.G279G	NM_178504	NP_848599	Q6ZR08	DYH12_HUMAN	dynein heavy chain domain 2 isoform 1	279	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			pancreas(1)|skin(1)	2						CAGGTTTAACACCTTCTAGTG	0.299													55	152	---	---	---	---	PASS	C	57493430	C	C	57493430	2	2	147	1	0	0	0	0	0	0	0	1	4600	146	6	5		5	DNAH12	3	57493430	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08	18870674	57493430	140529000	73	52186										
MORC1	27136	broad.mit.edu	37	chr3	108812288	108812288	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	caaacacacacatactcctcCagagctccagccatcagtat	4	16	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:108812288C>T	uc003dxl.2	-	8	771	c.684G>A	c.(682-684)CTG>CTA	p.L228L	MORC1_uc011bhn.1_Silent_p.L228L	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	228					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						CATACTCCTCCAGAGCTCCAG	0.438													45	88	---	---	---	---	PASS	T	108812288	T	T	108812288	2	4	147	1	0	0	0	0	0	0	0	1	9701	581	21	3		3	MORC1	3	108812288	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	51318858	108812288	89210142	74	52187										
PODXL2	50512	broad.mit.edu	37	chr3	127379588	127379588	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtggaggtggagagcagcatGgggcccagcttgctgctgcc	18	10	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:127379588G>T	uc003ejq.2	+	3	741	c.717G>T	c.(715-717)ATG>ATT	p.M239I		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	239	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						AGAGCAGCATGGGGCCCAGCT	0.632													56	103	---	---	---	---	PASS	T	127379588	T	T	127379588	3	4	147	1	0	0	0	0	1	0	0	0	12181	1348	47	3	727	3	PODXL2	3	127379588	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	18567300	127379588	70642842	75	52188										
DNAJC13	23317	broad.mit.edu	37	chr3	132221231	132221231	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tttcaggctggaattttgtgGtatctccttggttttctgtt	10	6	3	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:132221231G>T	uc003eor.2	+	40	4700	c.4635G>T	c.(4633-4635)TGG>TGT	p.W1545C		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1545							heat shock protein binding			ovary(1)|breast(1)	2						GAATTTTGTGGTATCTCCTTG	0.413													38	241	---	---	---	---	PASS	T	132221231	T	T	132221231	3	4	147	1	0	0	0	0	1	0	0	0	4632	1270	44	3	4789	3	DNAJC13	3	132221231	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	4841643	132221231	65801199	76	52189										
ACPL2	92370	broad.mit.edu	37	chr3	141006283	141006283	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cattgtgtgagatgggagagCtcacacagacaggtatgtgt	14	6	1	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:141006283C>G	uc003etu.2	+	7	792	c.493C>G	c.(493-495)CTC>GTC	p.L165V	ACPL2_uc003etv.2_Missense_Mutation_p.L165V|ACPL2_uc011bna.1_Missense_Mutation_p.L127V|ACPL2_uc011bnb.1_Missense_Mutation_p.L148V	NM_152282	NP_689495	Q8TE99	ACPL2_HUMAN	acid phosphatase-like 2 precursor	165						extracellular region	acid phosphatase activity			skin(1)	1						GATGGGAGAGCTCACACAGAC	0.547													81	397	---	---	---	---	PASS	G	141006283	G	G	141006283	3	3	147	1	0	0	0	0	1	0	0	0	166	797	28	4	507	4	ACPL2	3	141006283	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	8785052	141006283	57016147	77	52190										
SLC9A9	285195	broad.mit.edu	37	chr3	142985589	142985589	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtttgctcaagcttgagttcAtagcctcccaggccgaggtc	11	12	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:142985589A>T	uc003evn.2	-	16	2075	c.1893T>A	c.(1891-1893)TAT>TAA	p.Y631*		NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	631					regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						GCTTGAGTTCATAGCCTCCCA	0.483													67	129	---	---	---	---	PASS	T	142985589	T	T	142985589	4	4	147	1	0	0	0	0	0	1	0	0	14721	224	8	5	48	5	SLC9A9	3	142985589	Nonsense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	1979306	142985589	55036841	78	52191										
WWTR1	25937	broad.mit.edu	37	chr3	149374962	149374962	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gactccggcaggatcttcttCcgccacgagctaggcttcgg	12	14	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:149374962C>A	uc003exe.2	-	1	148	c.132G>T	c.(130-132)CGG>CGT	p.R44R	WWTR1_uc003exf.2_Silent_p.R44R|WWTR1_uc011bns.1_Silent_p.R44R|WWTR1_uc003exh.2_Silent_p.R44R|uc010hvg.1_RNA|uc003exi.1_5'Flank	NM_015472	NP_056287	Q9GZV5	WWTR1_HUMAN	WW domain containing transcription regulator 1	44					hippo signaling cascade|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of protein kinase activity|negative regulation of protein phosphorylation|positive regulation of cell proliferation|positive regulation of epithelial to mesenchymal transition|regulation of SMAD protein import into nucleus|stem cell division|transcription, DNA-dependent	cytoplasm	transcription coactivator activity			breast(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			GGATCTTCTTCCGCCACGAGC	0.627													26	13	---	---	---	---	PASS	A	149374962	A	A	149374962	2	1	147	1	0	0	0	0	0	0	0	1	17414	842	30	2		2	WWTR1	3	149374962	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	6389373	149374962	48647468	79	52192										
VEPH1	79674	broad.mit.edu	37	chr3	157031515	157031515	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aggaattgcacagaatgactCtgaatggacaggggttcagg	14	6	2	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:157031515C>G	uc003fbj.1	-	11	2222	c.1905G>C	c.(1903-1905)CAG>CAC	p.Q635H	VEPH1_uc003fbk.1_Missense_Mutation_p.Q635H|VEPH1_uc010hvu.1_Intron	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	635						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			CAGAATGACTCTGAATGGACA	0.463													57	210	---	---	---	---	PASS	G	157031515	G	G	157031515	3	3	147	1	0	0	0	0	1	0	0	0	17151	912	32	2	612	2	VEPH1	3	157031515	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	7656553	157031515	40990915	80	52193										
SI	6476	broad.mit.edu	37	chr3	164757683	164757683	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgtagagcctacctgttttaGaacaggagtaataagtaatg	10	5	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:164757683G>C	uc003fei.2	-	19	2298	c.2236C>G	c.(2236-2238)CTA>GTA	p.L746V		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	746	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)	ACCTGTTTTAGAACAGGAGTA	0.348										HNSCC(35;0.089)			82	278	---	---	---	---	PASS	C	164757683	C	C	164757683	3	2	147	1	0	0	0	0	1	0	0	0	14297	933	33	2	3367	2	SI	3	164757683	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	7726168	164757683	33264747	81	52194										
SLITRK3	22865	broad.mit.edu	37	chr3	164905998	164905998	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cactaccacagcctcccccaGgaggaaacagcaccacccca	6	20	0	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:164905998G>C	uc003fej.3	-	2	3065	c.2621C>G	c.(2620-2622)CCT>CGT	p.P874R	SLITRK3_uc003fek.2_Missense_Mutation_p.P874R	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	874	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GCCTCCCCCAGGAGGAAACAG	0.577										HNSCC(40;0.11)			67	211	---	---	---	---	PASS	C	164905998	C	C	164905998	3	2	147	1	0	0	0	0	1	0	0	0	14744	1000	35	4	316	4	SLITRK3	3	164905998	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	148315	164905998	33116432	82	52195										
EIF2B5	8893	broad.mit.edu	37	chr3	183855722	183855722	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gaaaaaaatgtttctgtgatGacgatgatcttcaaggagtc	10	5	3	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:183855722G>A	uc003fmp.2	+	4	907	c.543G>A	c.(541-543)ATG>ATA	p.M181I	EIF2B5_uc003fmq.2_5'UTR	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	181					astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			TTTCTGTGATGACGATGATCT	0.478													24	186	---	---	---	---	PASS	A	183855722	A	A	183855722	3	1	147	1	0	0	0	0	1	0	0	0	5004	1290	45	2	557	2	EIF2B5	3	183855722	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	18949724	183855722	14166708	83	52196										
EIF4G1	1981	broad.mit.edu	37	chr3	184038451	184038451	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	atccaaaccaaggaggaaagGatatcacagaggagatcatg	11	7	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:184038451G>T	uc003fnp.2	+	8	769	c.571G>T	c.(571-573)GAT>TAT	p.D191Y	EIF4G1_uc003fno.1_Missense_Mutation_p.D132Y|EIF4G1_uc010hxw.1_Missense_Mutation_p.D27Y|EIF4G1_uc003fnt.2_5'UTR|EIF4G1_uc003fnq.2_Missense_Mutation_p.D104Y|EIF4G1_uc003fnr.2_Missense_Mutation_p.D27Y|EIF4G1_uc010hxx.2_Missense_Mutation_p.D198Y|EIF4G1_uc003fns.2_Missense_Mutation_p.D151Y|EIF4G1_uc010hxy.2_Missense_Mutation_p.D198Y|EIF4G1_uc010hxz.1_Missense_Mutation_p.D104Y|EIF4G1_uc003fnv.3_Missense_Mutation_p.D191Y|EIF4G1_uc003fnu.3_Missense_Mutation_p.D191Y|EIF4G1_uc003fnw.2_Missense_Mutation_p.D198Y|EIF4G1_uc003fnx.2_5'UTR|EIF4G1_uc003fny.3_5'UTR	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	191	PABPC1-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGGAGGAAAGGATATCACAGA	0.552													12	211	---	---	---	---	PASS	T	184038451	T	T	184038451	3	4	147	1	0	0	0	0	1	0	0	0	5036	1174	41	2	593	2	EIF4G1	3	184038451	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	182729	184038451	13983979	84	52197										
ST6GAL1	6480	broad.mit.edu	37	chr3	186760650	186760650	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtgttaaagagtctggggaaAttggccatggggtctgattc	15	5	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:186760650A>T	uc003frb.2	+	4	591	c.159A>T	c.(157-159)AAA>AAT	p.K53N	ST6GAL1_uc003frc.2_Intron|ST6GAL1_uc003frd.2_Missense_Mutation_p.K53N	NM_173216	NP_775323	P15907	SIAT1_HUMAN	ST6 beta-galactosamide	53	Lumenal (Potential).				humoral immune response|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			central_nervous_system(1)	1	all_cancers(143;2.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;8.53e-19)	GBM - Glioblastoma multiforme(93;0.0939)		GTCTGGGGAAATTGGCCATGG	0.517													58	486	---	---	---	---	PASS	T	186760650	T	T	186760650	3	4	147	1	0	0	0	0	1	0	0	0	15220	98	4	5	161	5	ST6GAL1	3	186760650	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	2722199	186760650	11261780	85	52198										
MASP1	5648	broad.mit.edu	37	chr3	186943130	186943130	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	accttcctgctggggtccctCaggcagacagatgggcatca	12	13	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:186943130C>G	uc003frh.1	-	13	2055	c.1723G>C	c.(1723-1725)GAG>CAG	p.E575Q		NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	575	Peptidase S1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		TGGGGTCCCTCAGGCAGACAG	0.587													78	335	---	---	---	---	PASS	G	186943130	G	G	186943130	3	3	147	1	0	0	0	0	1	0	0	0	9322	835	29	2	392	2	MASP1	3	186943130	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	182480	186943130	11079300	86	52199										
C3orf21	152002	broad.mit.edu	37	chr3	194877186	194877186	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtcatgacgcacctgtaaacTggctgcatctcccgggctat	10	13	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:194877186T>A	uc003fum.3	-	3	885	c.777A>T	c.(775-777)CCA>CCT	p.P259P	C3orf21_uc003ful.2_Silent_p.P56P|C3orf21_uc011bsw.1_Silent_p.P113P	NM_152531	NP_689744	Q8NBI6	CC021_HUMAN	hypothetical protein LOC152002	259						integral to membrane	transferase activity, transferring glycosyl groups				0	all_cancers(143;9.33e-09)|Ovarian(172;0.0634)		Epithelial(36;1.73e-20)|all cancers(36;1.42e-18)|OV - Ovarian serous cystadenocarcinoma(49;1.56e-17)|Lung(62;0.000117)|LUSC - Lung squamous cell carcinoma(58;0.000146)	GBM - Glioblastoma multiforme(46;1.36e-05)		ACCTGTAAACTGGCTGCATCT	0.567													52	143	---	---	---	---	PASS	A	194877186	A	A	194877186	2	1	147	1	0	0	0	0	0	0	0	1	2214	1567	55	5		5	C3orf21	3	194877186	Silent	SNP	T	TCGA-66-2758-01A-02D-1522-08	7934056	194877186	3145244	87	52200										
MUC4	4585	broad.mit.edu	37	chr3	195486098	195486098	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgccccttgtaggcttcaatCacacgaccaccattgatgga	8	13	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:195486098C>T	uc011bto.1	-	18	14959	c.14499G>A	c.(14497-14499)GTG>GTA	p.V4833V	MUC4_uc003fuz.2_Silent_p.V559V|MUC4_uc003fva.2_Silent_p.V441V|MUC4_uc003fvb.2_Silent_p.V477V|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Silent_p.V477V|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Silent_p.V441V|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Silent_p.V525V|MUC4_uc011bti.1_Silent_p.V525V|MUC4_uc011btj.1_Silent_p.V702V|MUC4_uc011btk.1_Silent_p.V441V|MUC4_uc011btl.1_Silent_p.V470V|MUC4_uc011btm.1_Silent_p.V650V|MUC4_uc011btn.1_Silent_p.V441V|MUC4_uc003fvo.2_Silent_p.V725V|MUC4_uc003fvp.2_Silent_p.V674V	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1718					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGGCTTCAATCACACGACCAC	0.547													112	714	---	---	---	---	PASS	T	195486098	T	T	195486098	2	4	147	1	0	0	0	0	0	0	0	1	9978	813	29	2		2	MUC4	3	195486098	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	608912	195486098	2536332	88	52201										
KIAA0226	9711	broad.mit.edu	37	chr3	197423861	197423861	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agagctgggtgtgctgacttCactgctttgaccagagtagg	14	8	1	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr3:197423861C>T	uc003fyc.2	-	8	1504	c.1321G>A	c.(1321-1323)GAA>AAA	p.E441K	KIAA0226_uc003fyd.3_Missense_Mutation_p.E396K|KIAA0226_uc003fye.1_Missense_Mutation_p.E148K|KIAA0226_uc003fyf.2_Missense_Mutation_p.E289K	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	441	Ser-rich.				autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		GTGCTGACTTCACTGCTTTGA	0.468													38	139	---	---	---	---	PASS	T	197423861	T	T	197423861	3	4	147	1	0	0	0	0	1	0	0	0	8162	835	29	2	1649	2	KIAA0226	3	197423861	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1937763	197423861	598569	89	52202										
NOP14	8602	broad.mit.edu	37	chr4	2951675	2951675	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcccacctgcgaacgtgtagGgcagctcgtctctggtagct	13	13	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:2951675G>C	uc003ggj.1	-	8	1340	c.1268C>G	c.(1267-1269)CCC>CGC	p.P423R	C4orf10_uc003ggh.2_Intron|C4orf10_uc003ggi.1_Intron|NOP14_uc010icp.2_Missense_Mutation_p.P169R|NOP14_uc003ggk.3_Missense_Mutation_p.P423R|NOP14_uc003ggl.2_Missense_Mutation_p.P423R	NM_003703	NP_003694	P78316	NOP14_HUMAN	probable nucleolar complex protein 14	423					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	mitochondrion|Noc4p-Nop14p complex|small-subunit processome	snoRNA binding			pancreas(1)	1						GAACGTGTAGGGCAGCTCGTC	0.552													101	212	---	---	---	---	PASS	C	2951675	C	C	2951675	3	2	147	1	0	0	0	0	1	0	0	0	10536	1232	43	4	1349	4	NOP14	4	2951675	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08		2951675	188202601	90	52203										
CPZ	8532	broad.mit.edu	37	chr4	8602926	8602926	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	accttccccaacctgcttcaGcaccggtcatgggaggtggt	11	14	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:8602926G>T	uc003glm.2	+	3	324	c.198G>T	c.(196-198)CAG>CAT	p.Q66H	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_5'UTR|CPZ_uc003glo.2_Missense_Mutation_p.Q55H|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	66	FZ.				proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						ACCTGCTTCAGCACCGGTCAT	0.652													56	25	---	---	---	---	PASS	T	8602926	T	T	8602926	3	4	147	1	0	0	0	0	1	0	0	0	3839	962	34	3	208	3	CPZ	4	8602926	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	5651251	8602926	182551350	91	52204										
PHOX2B	8929	broad.mit.edu	37	chr4	41750405	41750405	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acctgcggcgtacggactgcTctggtggtccctgagggtgc	16	12	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:41750405T>A	uc003gwf.3	-	1	583	c.223A>T	c.(223-225)AGC>TGC	p.S75C		NM_003924	NP_003915	Q99453	PHX2B_HUMAN	paired-like homeobox 2b	75					positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			autonomic_ganglia(7)|lung(2)|ovary(2)|central_nervous_system(1)	12						TACGGACTGCTCTGGTGGTCC	0.582			Mis|F		neuroblastoma	neuroblastoma	congenital central hypoventilation syndrome		Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				28	63	---	---	---	---	PASS	A	41750405	A	A	41750405	3	1	147	1	0	0	0	0	1	0	0	0	11859	1551	54	5	733	5	PHOX2B	4	41750405	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	33147479	41750405	149403871	92	52205										
GABRG1	2565	broad.mit.edu	37	chr4	46060612	46060612	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cggagggctttttccacttaTactcaatttcatttttaggg	8	8	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:46060612T>C	uc003gxb.2	-	6	805	c.653A>G	c.(652-654)TAT>TGT	p.Y218C		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	218	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		TTTCCACTTATACTCAATTTC	0.358													18	87	---	---	---	---	PASS	C	46060612	C	C	46060612	3	2	147	1	0	0	0	0	1	0	0	0	6171	1406	49	5	760	5	GABRG1	4	46060612	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	4310207	46060612	145093664	93	52206										
GABRA4	2557	broad.mit.edu	37	chr4	46930261	46930261	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	attacattagactttctgatTtctccatagtgtccttagat	5	8	2	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:46930261T>A	uc003gxg.2	-	9	1785	c.1646A>T	c.(1645-1647)AAA>ATA	p.K549I		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	549					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			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ACTTTCTGATTTCTCCATAGT	0.279													52	85	---	---	---	---	PASS	A	46930261	A	A	46930261	3	1	147	1	0	0	0	0	1	0	0	0	6163	1841	64	5	22	5	GABRA4	4	46930261	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	869649	46930261	144224015	94	52207										
CNGA1	1259	broad.mit.edu	37	chr4	47939169	47939169	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	taagacttctttctcatcaaCtgtttttttgttggtccaca	5	9	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:47939169C>A	uc003gxt.3	-	11	1608	c.1342G>T	c.(1342-1344)GTT>TTT	p.V448F	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.V517F	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	448	Extracellular (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						TTCTCATCAACTGTTTTTTTG	0.338													76	367	---	---	---	---	PASS	A	47939169	A	A	47939169	3	1	147	1	0	0	0	0	1	0	0	0	3596	565	20	3	734	3	CNGA1	4	47939169	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1008908	47939169	143215107	95	52208										
ART3	419	broad.mit.edu	37	chr4	77003475	77003475	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttaccttggcatattcagccAaacctcaggctgctaatgac	7	12	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:77003475A>G	uc003hjo.2	+	3	687	c.568A>G	c.(568-570)AAA>GAA	p.K190E	ART3_uc003hji.2_Missense_Mutation_p.K190E|ART3_uc003hjj.2_Missense_Mutation_p.K190E|ART3_uc003hjk.2_Missense_Mutation_p.K190E|ART3_uc010ija.1_Missense_Mutation_p.K190E|ART3_uc003hjn.2_Missense_Mutation_p.K190E|ART3_uc003hjp.2_Intron|ART3_uc010ijb.2_Intron|ART3_uc003hjq.2_Intron|ART3_uc003hjr.2_Missense_Mutation_p.K160E|ART3_uc010ijc.2_Missense_Mutation_p.K160E|ART3_uc010ijd.2_Missense_Mutation_p.K160E	NM_001130016	NP_001123488	Q13508	NAR3_HUMAN	ADP-ribosyltransferase 3 isoform a	190					protein ADP-ribosylation	anchored to membrane|integral to plasma membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity			ovary(2)	2			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			ATATTCAGCCAAACCTCAGGC	0.408													5	116	---	---	---	---	PASS	G	77003475	G	G	77003475	3	3	147	1	0	0	0	0	1	0	0	0	998	131	5	5	574	5	ART3	4	77003475	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	29064306	77003475	114150801	96	52209										
SHROOM3	57619	broad.mit.edu	37	chr4	77677699	77677699	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cactggcttccagactccaaActtctatcaagggttcagag	8	12	3	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:77677699A>T	uc011cbx.1	+	8	5760	c.4807A>T	c.(4807-4809)ACT>TCT	p.T1603S	SHROOM3_uc003hkg.2_Missense_Mutation_p.T1381S	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	1603					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			CAGACTCCAAACTTCTATCAA	0.532													8	77	---	---	---	---	PASS	T	77677699	T	T	77677699	3	4	147	1	0	0	0	0	1	0	0	0	14295	43	2	5	4837	5	SHROOM3	4	77677699	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	674224	77677699	113476577	97	52210										
ANKRD56	345079	broad.mit.edu	37	chr4	77817078	77817078	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cctgaagggccctgaggtcaCcatgtttggctatccagtgc	12	12	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:77817078C>A	uc003hki.2	-	1	1925	c.1925G>T	c.(1924-1926)GGT>GTT	p.G642V		NM_001029870	NP_001025041	A6NEL2	ANR56_HUMAN	ankyrin repeat domain 56	642	ANK 1.										0						CCTGAGGTCACCATGTTTGGC	0.522													78	138	---	---	---	---	PASS	A	77817078	A	A	77817078	3	1	147	1	0	0	0	0	1	0	0	0	682	507	18	3	460	3	ANKRD56	4	77817078	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	139379	77817078	113337198	98	52211										
MRPL1	65008	broad.mit.edu	37	chr4	78792917	78792917	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gccttgatacatcatcaaagGcatagcctttccaagatggt	8	10	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:78792917G>T	uc003hku.2	+	2	249	c.51G>T	c.(49-51)AGG>AGT	p.R17S		NM_020236	NP_064621	Q9BYD6	RM01_HUMAN	mitochondrial ribosomal protein L1 precursor	17							RNA binding				0						ATCATCAAAGGCATAGCCTTT	0.289													54	148	---	---	---	---	PASS	T	78792917	T	T	78792917	3	4	147	1	0	0	0	0	1	0	0	0	9774	1194	42	3	57	3	MRPL1	4	78792917	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	975839	78792917	112361359	99	52212										
HERC3	8916	broad.mit.edu	37	chr4	89574024	89574024	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tatcctgttatttcagatggCcagttcttcacctggggaaa	9	9	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:89574024C>G	uc003hrw.1	+	6	634	c.468C>G	c.(466-468)GGC>GGG	p.G156G	HERC3_uc003hrv.2_Silent_p.G156G|HERC3_uc011cdn.1_Silent_p.G38G	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	156	RCC1 4.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		TTTCAGATGGCCAGTTCTTCA	0.498													28	31	---	---	---	---	PASS	G	89574024	G	G	89574024	2	3	147	1	0	0	0	0	0	0	0	1	7059	726	26	4		4	HERC3	4	89574024	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	10781107	89574024	101580252	100	52213										
FAM190A	401145	broad.mit.edu	37	chr4	91230459	91230459	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	attcattaccggaaacctctGctgctaatcagaaggaagtg	9	9	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:91230459G>A	uc003hsv.3	+	2	1364	c.1024G>A	c.(1024-1026)GCT>ACT	p.A342T	FAM190A_uc003hsu.3_Missense_Mutation_p.A342T|FAM190A_uc010ikv.2_RNA|FAM190A_uc003hsw.2_Missense_Mutation_p.A342T	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1	342										large_intestine(1)|ovary(1)	2						GGAAACCTCTGCTGCTAATCA	0.423													53	54	---	---	---	---	PASS	A	91230459	A	A	91230459	3	1	147	1	0	0	0	0	1	0	0	0	5521	1319	46	3	1026	3	FAM190A	4	91230459	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	1656435	91230459	99923817	101	52214										
TET2	54790	broad.mit.edu	37	chr4	106155423	106155423	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctctctctgggctccttcaGatcaagaaattgaaacaaga	7	10	4	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:106155423G>A	uc003hxk.2	+	3	710	c.324G>A	c.(322-324)CAG>CAA	p.Q108Q	TET2_uc011cez.1_Silent_p.Q129Q|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Silent_p.Q108Q|TET2_uc003hxi.1_Silent_p.Q108Q	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	108					cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen	p.Q108*(1)		haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		GGCTCCTTCAGATCAAGAAAT	0.418			Mis N|F		MDS								25	66	---	---	---	---	PASS	A	106155423	A	A	106155423	2	1	147	1	0	0	0	0	0	0	0	1	15767	933	33	2		2	TET2	4	106155423	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	14924964	106155423	84998853	102	52215										
LARP7	51574	broad.mit.edu	37	chr4	113568940	113568940	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aaacataagaaaaaacataaAgagagacataaaatgggaga	8	3	0	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:113568940A>G	uc003iay.2	+	8	1370	c.1092A>G	c.(1090-1092)AAA>AAG	p.K364K	LARP7_uc003iaz.2_Silent_p.K371K|LARP7_uc003iba.2_Silent_p.K285K|LARP7_uc003ibb.2_Silent_p.K364K	NM_016648	NP_057732	Q4G0J3	LARP7_HUMAN	La ribonucleoprotein domain family, member 7	364	Lys-rich.				RNA processing	nucleoplasm|ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(3)	3		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		AAAAACATAAAGAGAGACATA	0.323													24	20	---	---	---	---	PASS	G	113568940	G	G	113568940	2	3	147	1	0	0	0	0	0	0	0	1	8633	69	3	5		5	LARP7	4	113568940	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08	7413517	113568940	77585336	103	52216										
GAB1	2549	broad.mit.edu	37	chr4	144390336	144390336	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gaaacgccagcgaagagtgtGaaatgaaaatattgccttgc	11	7	0	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:144390336G>C	uc003ije.2	+	10	2438	c.2079G>C	c.(2077-2079)GTG>GTC	p.V693V	GAB1_uc003ijd.2_Silent_p.V723V|GAB1_uc011chq.1_Silent_p.V590V	NM_002039	NP_002030	Q13480	GAB1_HUMAN	GRB2-associated binding protein 1 isoform b	693					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)					CGAAGAGTGTGAAATGAAAAT	0.418													22	48	---	---	---	---	PASS	C	144390336	C	C	144390336	2	2	147	1	0	0	0	0	0	0	0	1	6148	1277	45	2		2	GAB1	4	144390336	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	30821396	144390336	46763940	104	52217										
MMAA	166785	broad.mit.edu	37	chr4	146576521	146576521	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttctggaacaaaaggttctcAttggggccctgtccccagga	11	11	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:146576521A>C	uc003ikh.3	+	7	1277	c.1192A>C	c.(1192-1194)ATT>CTT	p.I398L	MMAA_uc010iow.2_RNA	NM_172250	NP_758454	Q8IVH4	MMAA_HUMAN	methylmalonic aciduria type A precursor	398						mitochondrion	GTP binding|nucleoside-triphosphatase activity			ovary(1)	1	all_hematologic(180;0.151)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AAAGGTTCTCATTGGGGCCCT	0.413													34	116	---	---	---	---	PASS	C	146576521	C	C	146576521	3	2	147	1	0	0	0	0	1	0	0	0	9639	217	8	5	1214	5	MMAA	4	146576521	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	2186185	146576521	44577755	105	52218										
ADAM29	11086	broad.mit.edu	37	chr4	175898418	175898418	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcgcttcaatgacataatgtGctggagtactgattaccatt	8	8	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:175898418G>T	uc003iuc.2	+	5	2412	c.1742G>T	c.(1741-1743)TGC>TTC	p.C581F	ADAM29_uc003iud.2_Missense_Mutation_p.C581F|ADAM29_uc010irr.2_Missense_Mutation_p.C581F|ADAM29_uc011cki.1_Missense_Mutation_p.C581F	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	581	Cys-rich.|Extracellular (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		GACATAATGTGCTGGAGTACT	0.433													80	143	---	---	---	---	PASS	T	175898418	T	T	175898418	3	4	147	1	0	0	0	0	1	0	0	0	247	1319	46	3	1744	3	ADAM29	4	175898418	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	29321897	175898418	15255858	106	52219										
WDR17	116966	broad.mit.edu	37	chr4	177032792	177032792	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtcagccatggaacaaggatGtatgtgctgccagtggagac	14	8	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:177032792G>A	uc003iuj.2	+	3	289	c.133G>A	c.(133-135)GTA>ATA	p.V45I	WDR17_uc003iuk.2_Missense_Mutation_p.V21I|WDR17_uc003ium.3_Missense_Mutation_p.V21I|WDR17_uc003iul.1_Missense_Mutation_p.V21I	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	45										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		GAACAAGGATGTATGTGCTGC	0.398													19	41	---	---	---	---	PASS	A	177032792	A	A	177032792	3	1	147	1	0	0	0	0	1	0	0	0	17274	1377	48	3	139	3	WDR17	4	177032792	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	1134374	177032792	14121484	107	52220										
WWC2	80014	broad.mit.edu	37	chr4	184182512	184182512	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttctcatgatgcctctctccAtcagttcactgctgactttg	6	13	4	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr4:184182512A>G	uc010irx.2	+	11	1918	c.1736A>G	c.(1735-1737)CAT>CGT	p.H579R	WWC2_uc003ivk.3_Missense_Mutation_p.H374R|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_Missense_Mutation_p.H261R|WWC2_uc003ivn.3_Missense_Mutation_p.H143R	NM_024949	NP_079225	Q6AWC2	WWC2_HUMAN	WW and C2 domain containing 2	579										ovary(2)|lung(1)	3		all_lung(41;5.28e-14)|Lung NSC(41;1.35e-13)|Colorectal(36;0.00681)|Hepatocellular(41;0.00886)|Renal(120;0.00992)|Prostate(90;0.0237)|all_hematologic(60;0.0592)|Esophageal squamous(56;0.179)|all_neural(102;0.202)		all cancers(43;3.38e-24)|Epithelial(43;1.4e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.09e-09)|GBM - Glioblastoma multiforme(59;3.33e-05)|Colorectal(24;3.58e-05)|STAD - Stomach adenocarcinoma(60;4.21e-05)|COAD - Colon adenocarcinoma(29;0.000171)|LUSC - Lung squamous cell carcinoma(40;0.0145)|READ - Rectum adenocarcinoma(43;0.242)		GCCTCTCTCCATCAGTTCACT	0.483													3	14	---	---	---	---	PASS	G	184182512	G	G	184182512	3	3	147	1	0	0	0	0	1	0	0	0	17409	217	8	5	1778	5	WWC2	4	184182512	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	7149720	184182512	6971764	108	52221										
SLC6A3	6531	broad.mit.edu	37	chr5	1432617	1432617	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggtgtggtcccaaaagtgtcGttgaggcccgagctgtctcc	14	11	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:1432617G>A	uc003jck.2	-	4	736	c.615C>T	c.(613-615)AAC>AAT	p.N205N		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	205	Extracellular (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	CAAAAGTGTCGTTGAGGCCCG	0.617													19	190	---	---	---	---	PASS	A	1432617	A	A	1432617	2	1	147	1	0	0	0	0	0	0	0	1	14685	1136	40	1		1	SLC6A3	5	1432617	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08		1432617	179482643	109	52222										
LPCAT1	79888	broad.mit.edu	37	chr5	1479781	1479781	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgacacagcgtgagccacagGatttccagccttaaaaacag	9	11	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:1479781G>A	uc003jcm.2	-	8	888	c.771C>T	c.(769-771)ATC>ATT	p.I257I		NM_024830	NP_079106	Q8NF37	PCAT1_HUMAN	lysophosphatidylcholine acyltransferase 1	257	Lumenal (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(19;0.0274)|all cancers(22;0.0534)	GBM - Glioblastoma multiforme(108;0.156)		TGAGCCACAGGATTTCCAGCC	0.463											OREG0016481	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	129	---	---	---	---	PASS	A	1479781	A	A	1479781	2	1	147	1	0	0	0	0	0	0	0	1	8910	1164	41	2		2	LPCAT1	5	1479781	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	47164	1479781	179435479	110	52223										
MRPL36	64979	broad.mit.edu	37	chr5	1798922	1798922	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agcgcactgctgccccgggtTccacagccacgggggctgca	14	16	0	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:1798922T>C	uc003jcx.3	-	2	191	c.128A>G	c.(127-129)GAA>GGA	p.E43G	NDUFS6_uc003jcy.2_5'Flank	NM_032479	NP_115868	Q9P0J6	RM36_HUMAN	mitochondrial ribosomal protein L36 precursor	43					translation	mitochondrial large ribosomal subunit	structural constituent of ribosome				0				GBM - Glioblastoma multiforme(108;0.241)		TGCCCCGGGTTCCACAGCCAC	0.592													58	117	---	---	---	---	PASS	C	1798922	C	C	1798922	3	2	147	1	0	0	0	0	1	0	0	0	9799	1783	62	5	187	5	MRPL36	5	1798922	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	319141	1798922	179116338	111	52224										
RAI14	26064	broad.mit.edu	37	chr5	34824081	34824081	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agtattcaaaagtgttgaatGagttgacccagctcaaacaa	8	7	2	3	rs138949061		TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:34824081G>C	uc003jir.2	+	15	2330	c.2134G>C	c.(2134-2136)GAG>CAG	p.E712Q	RAI14_uc010iur.2_Missense_Mutation_p.E683Q|RAI14_uc011coj.1_Missense_Mutation_p.E712Q|RAI14_uc003jis.2_Missense_Mutation_p.E715Q|RAI14_uc003jit.2_Missense_Mutation_p.E712Q|RAI14_uc011cok.1_Missense_Mutation_p.E704Q	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	712	Potential.					cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					AGTGTTGAATGAGTTGACCCA	0.438													47	100	---	---	---	---	PASS	C	34824081	C	C	34824081	3	2	147	1	0	0	0	0	1	0	0	0	13008	1291	45	2	2253	2	RAI14	5	34824081	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	33025159	34824081	146091179	112	52225										
AGXT2	64902	broad.mit.edu	37	chr5	35035343	35035343	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttacctgaaagaaatgatgtCtatgttgtttgagtgcgccc	10	7	1	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:35035343C>G	uc003jjf.2	-	5	644	c.565G>C	c.(565-567)GAC>CAC	p.D189H	AGXT2_uc011com.1_Missense_Mutation_p.D189H|AGXT2_uc011con.1_Missense_Mutation_p.D97H	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	189					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	GAAATGATGTCTATGTTGTTT	0.443													45	318	---	---	---	---	PASS	G	35035343	G	G	35035343	3	3	147	1	0	0	0	0	1	0	0	0	405	913	32	2	1019	2	AGXT2	5	35035343	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	211262	35035343	145879917	113	52226										
KIF2A	3796	broad.mit.edu	37	chr5	61681323	61681323	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tttccaagataaagtgaaatCtttccgtgcagctctacaag	7	9	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:61681323C>G	uc003jsy.3	+	20	2359	c.2048C>G	c.(2047-2049)TCT>TGT	p.S683C	KIF2A_uc003jsz.3_Missense_Mutation_p.S721C|KIF2A_uc010iwp.2_Missense_Mutation_p.S664C|KIF2A_uc003jsx.3_Missense_Mutation_p.S663C|KIF2A_uc010iwq.2_Missense_Mutation_p.S486C	NM_004520	NP_004511	O00139	KIF2A_HUMAN	kinesin heavy chain member 2 isoform 1	683	Potential.				blood coagulation|cell differentiation|cell division|microtubule-based movement|mitotic prometaphase|mitotic spindle organization|nervous system development	centrosome|cytosol|microtubule|spindle pole	ATP binding|microtubule motor activity|protein binding				0		Lung NSC(810;8.94e-06)|Prostate(74;0.0132)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.14)		AAAGTGAAATCTTTCCGTGCA	0.428													3	6	---	---	---	---	PASS	G	61681323	G	G	61681323	3	3	147	1	0	0	0	0	1	0	0	0	8297	913	32	2	2244	2	KIF2A	5	61681323	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	26645980	61681323	119233937	114	52227										
MAP1B	4131	broad.mit.edu	37	chr5	71489755	71489755	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agcttaaccctgttctgtccTgaagaaggggactggaagaa	12	8	1	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:71489755T>C	uc003kbw.3	+	5	814	c.573T>C	c.(571-573)CCT>CCC	p.P191P	MAP1B_uc010iyw.1_Silent_p.P208P|MAP1B_uc010iyx.1_Silent_p.P65P|MAP1B_uc010iyy.1_Silent_p.P65P	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	191						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		TGTTCTGTCCTGAAGAAGGGG	0.398													4	126	---	---	---	---	PASS	C	71489755	C	C	71489755	2	2	147	1	0	0	0	0	0	0	0	1	9228	1567	55	5		5	MAP1B	5	71489755	Silent	SNP	T	TCGA-66-2758-01A-02D-1522-08	9808432	71489755	109425505	115	52228										
AP3B1	8546	broad.mit.edu	37	chr5	77334898	77334898	+	Silent	SNP	T	A	A													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aaaacatgcattttcatgccTataggaagttttttttcccc							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:77334898T>A	uc003kfj.2	-	23	2903	c.2778A>T	c.(2776-2778)ATA>ATT	p.I926I		NM_003664	NP_003655	O00203	AP3B1_HUMAN	adaptor-related protein complex 3, beta 1	926					endocytosis|melanosome organization	clathrin coated vesicle membrane|Golgi apparatus|membrane coat	protein phosphatase binding|protein transporter activity			central_nervous_system(1)	1		all_lung(232;0.000397)|Lung NSC(167;0.00106)|Ovarian(174;0.0105)|Prostate(461;0.215)		OV - Ovarian serous cystadenocarcinoma(54;8.23e-47)|Epithelial(54;2.74e-41)|all cancers(79;4.8e-36)		TTTTCATGCCTATAGGAAGTT	0.269									Hermansky-Pudlak_syndrome				25	39	---	---	---	---	PASS	A	77334898	A	A	77334898	2	1	147	1	0	0	0	0	0	0	0	1	744	1512	53	5		5	AP3B1	5	77334898	Silent	SNP	T	TCGA-66-2758-01A-02D-1522-08	5845143	77334898	103580362	116	52229	960	2								
AP3B1	8546	broad.mit.edu	37	chr5	77334899	77334899	+	Missense_Mutation	SNP	A	T	T													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aaacatgcattttcatgcctAtaggaagttttttttcccct							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:77334899A>T	uc003kfj.2	-	23	2902	c.2777T>A	c.(2776-2778)ATA>AAA	p.I926K		NM_003664	NP_003655	O00203	AP3B1_HUMAN	adaptor-related protein complex 3, beta 1	926					endocytosis|melanosome organization	clathrin coated vesicle membrane|Golgi apparatus|membrane coat	protein phosphatase binding|protein transporter activity			central_nervous_system(1)	1		all_lung(232;0.000397)|Lung NSC(167;0.00106)|Ovarian(174;0.0105)|Prostate(461;0.215)		OV - Ovarian serous cystadenocarcinoma(54;8.23e-47)|Epithelial(54;2.74e-41)|all cancers(79;4.8e-36)		TTTCATGCCTATAGGAAGTTT	0.269									Hermansky-Pudlak_syndrome				26	39	---	---	---	---	PASS	T	77334899	T	T	77334899	3	4	147	1	0	0	0	0	1	0	0	0	744	449	16	5	527	5	AP3B1	5	77334899	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	1	77334899	103580361	117	52230	960	2								
PCSK1	5122	broad.mit.edu	37	chr5	95728914	95728914	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgcacttggggacttctttgGtgattgctttggcggtgagt	15	6	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:95728914G>A	uc003kls.1	-	14	2259	c.2053C>T	c.(2053-2055)CCA>TCA	p.P685S	PCSK1_uc010jbi.1_Missense_Mutation_p.P375S	NM_000439	NP_000430	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	685					cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity			ovary(2)	2		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GACTTCTTTGGTGATTGCTTT	0.512													6	233	---	---	---	---	PASS	A	95728914	A	A	95728914	3	1	147	1	0	0	0	0	1	0	0	0	11600	1261	44	3	212	3	PCSK1	5	95728914	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	18394015	95728914	85186346	118	52231										
SLC12A2	6558	broad.mit.edu	37	chr5	127420339	127420339	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gatcactaccggcacacagcCgcgcagctgggcgagaagct	13	14	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:127420339C>A	uc003kus.2	+	1	857	c.693C>A	c.(691-693)GCC>GCA	p.A231A	FLJ33630_uc003kun.2_5'Flank|FLJ33630_uc003kuo.2_5'Flank|FLJ33630_uc003kup.1_5'Flank|FLJ33630_uc003kuq.1_5'Flank|FLJ33630_uc003kur.2_5'Flank|SLC12A2_uc010jdf.2_RNA|SLC12A2_uc010jdg.2_Silent_p.A231A	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12	231	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	GGCACACAGCCGCGCAGCTGG	0.622													8	28	---	---	---	---	PASS	A	127420339	A	A	127420339	2	1	147	1	0	0	0	0	0	0	0	1	14383	639	23	1		1	SLC12A2	5	127420339	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	31691425	127420339	53494921	119	52232										
SEC24A	10802	broad.mit.edu	37	chr5	134018131	134018131	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctcacagaagaccagaagttCaaaatgctactattgagttt	7	8	2	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:134018131C>G	uc003kzs.2	+	9	1738	c.1450C>G	c.(1450-1452)CAA>GAA	p.Q484E	SEC24A_uc011cxu.1_Missense_Mutation_p.Q248E	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A	484					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ACCAGAAGTTCAAAATGCTAC	0.308													93	51	---	---	---	---	PASS	G	134018131	G	G	134018131	3	3	147	1	0	0	0	0	1	0	0	0	13994	827	29	2	1484	2	SEC24A	5	134018131	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	6597792	134018131	46897129	120	52233										
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139886511	139886511	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctagctgcgtctggaggatAtgttaatatcattaagattc	9	6	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:139886511A>T	uc003lfs.1	+	19	3624	c.3500A>T	c.(3499-3501)TAT>TTT	p.Y1167F	ANKHD1_uc003lfq.1_Missense_Mutation_p.Y1186F|ANKHD1_uc003lfr.2_Missense_Mutation_p.Y1167F|ANKHD1_uc003lft.1_Missense_Mutation_p.Y378F|ANKHD1_uc003lfu.1_Missense_Mutation_p.Y647F|ANKHD1_uc003lfv.1_Missense_Mutation_p.Y244F|ANKHD1-EIF4EBP3_uc011czh.1_5'Flank	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1167						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTGGAGGATATGTTAATATC	0.383													133	81	---	---	---	---	PASS	T	139886511	T	T	139886511	3	4	147	1	0	0	0	0	1	0	0	0	629	449	16	5	3574	5	ANKHD1-EIF4EBP3	5	139886511	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	5868380	139886511	41028749	121	52234										
PCDHA8	56140	broad.mit.edu	37	chr5	140221129	140221129	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ccaaaagacaccgggaccttCtggaggtaagtctgcagaat	11	10	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:140221129C>T	uc003lhs.2	+	1	223	c.223C>T	c.(223-225)CTG>TTG	p.L75L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.L75L	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	75	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGGGACCTTCTGGAGGTAAG	0.647													86	299	---	---	---	---	PASS	T	140221129	T	T	140221129	2	4	147	1	0	0	0	0	0	0	0	1	11530	912	32	2		2	PCDHA8	5	140221129	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	334618	140221129	40694131	122	52235										
PCDHB7	56129	broad.mit.edu	37	chr5	140554031	140554031	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcgccacagaccgcggctccCccgcgctgagcagcgaggcg	15	18	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:140554031C>A	uc003lit.2	+	1	1789	c.1615C>A	c.(1615-1617)CCC>ACC	p.P539T		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	539	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCGCGGCTCCCCCGCGCTGAG	0.692													59	36	---	---	---	---	PASS	A	140554031	A	A	140554031	3	1	147	1	0	0	0	0	1	0	0	0	11547	623	22	3	1617	3	PCDHB7	5	140554031	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	332902	140554031	40361229	123	52236			1	55		4	4	5324	C		4.599105e-05
PCDHB7	56129	broad.mit.edu	37	chr5	140554309	140554309	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cgtaccgccaggctgctgagCgagcgcgacgcagccaagca	14	15	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:140554309C>T	uc003lit.2	+	1	2067	c.1893C>T	c.(1891-1893)AGC>AGT	p.S631S		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	631	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCTGCTGAGCGAGCGCGACG	0.687													39	292	---	---	---	---	PASS	T	140554309	T	T	140554309	2	4	147	1	0	0	0	0	0	0	0	1	11547	767	27	1		1	PCDHB7	5	140554309	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	278	140554309	40360951	124	52237			1	55		4	4	5324	C		4.599105e-05
PCDHB8	56128	broad.mit.edu	37	chr5	140559155	140559155	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcaacacagacaacggccacCtgttcgccctcaggtcgctg	9	16	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:140559155C>G	uc011dai.1	+	1	1726	c.1540C>G	c.(1540-1542)CTG>GTG	p.L514V	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	514	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAACGGCCACCTGTTCGCCCT	0.687													70	400	---	---	---	---	PASS	G	140559155	G	G	140559155	3	3	147	1	0	0	0	0	1	0	0	0	11548	680	24	4	1542	4	PCDHB8	5	140559155	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	4846	140559155	40356105	125	52238			1	55		4	4	5324	C		4.599105e-05
PCDHB8	56128	broad.mit.edu	37	chr5	140559354	140559354	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	caccgagctggtgccccgggCggccgagccgggctacctgg	17	16	0	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:140559354C>T	uc011dai.1	+	1	1925	c.1739C>T	c.(1738-1740)GCG>GTG	p.A580V	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	580	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTGCCCCGGGCGGCCGAGCCG	0.706													25	110	---	---	---	---	PASS	T	140559354	T	T	140559354	3	4	147	1	0	0	0	0	1	0	0	0	11548	768	27	1	1741	1	PCDHB8	5	140559354	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	199	140559354	40355906	126	52239			1	55		4	4	5324	C		4.599105e-05
PCDHGC4	56098	broad.mit.edu	37	chr5	140865571	140865571	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctgggtcccagtggtaacgtCaccttttatttcagtggtca	10	10	3	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:140865571C>T	uc003lky.1	+	1	831	c.831C>T	c.(829-831)GTC>GTT	p.V277V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Silent_p.V277V	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	277	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGTAACGTCACCTTTTATT	0.527													34	138	---	---	---	---	PASS	T	140865571	T	T	140865571	2	4	147	1	0	0	0	0	0	0	0	1	11570	813	29	2		2	PCDHGC4	5	140865571	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	306217	140865571	40049689	127	52240										
AFAP1L1	134265	broad.mit.edu	37	chr5	148712284	148712284	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aattaaaggctctggaagaaGccgtggccaccctggaagct	12	10	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:148712284G>T	uc003lqh.2	+	17	2133	c.2002G>T	c.(2002-2004)GCC>TCC	p.A668S	AFAP1L1_uc010jgy.2_Missense_Mutation_p.A668S|AFAP1L1_uc003lqi.1_Missense_Mutation_p.A283S	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	668	Potential.						protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTGGAAGAAGCCGTGGCCAC	0.547													6	45	---	---	---	---	PASS	T	148712284	T	T	148712284	3	4	147	1	0	0	0	0	1	0	0	0	354	971	34	3	2068	3	AFAP1L1	5	148712284	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	7846713	148712284	32202976	128	52241										
ANXA6	309	broad.mit.edu	37	chr5	150488040	150488040	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggccacaaatgcatccctgaCatccccagacatctccttct	5	17	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:150488040C>T	uc003ltl.1	-	23	1908	c.1756G>A	c.(1756-1758)GTC>ATC	p.V586I	ANXA6_uc011dcp.1_Missense_Mutation_p.V554I|ANXA6_uc003ltm.1_Missense_Mutation_p.V580I|ANXA6_uc003ltn.1_Missense_Mutation_p.V373I|ANXA6_uc003lto.1_Missense_Mutation_p.V173I	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	586	Annexin 7.					melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCATCCCTGACATCCCCAGAC	0.527													11	266	---	---	---	---	PASS	T	150488040	T	T	150488040	3	4	147	1	0	0	0	0	1	0	0	0	722	478	17	3	281	3	ANXA6	5	150488040	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1775756	150488040	30427220	129	52242										
MED7	9443	broad.mit.edu	37	chr5	156566273	156566273	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgccctgactttccaaagggCggatgataagatcatcacat	9	10	2	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:156566273C>G	uc010jik.2	-	2	562	c.170G>C	c.(169-171)CGC>CCC	p.R57P	MED7_uc003lwm.3_Missense_Mutation_p.R57P	NM_001100816	NP_001094286	O43513	MED7_HUMAN	mediator complex subunit 7	57					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	protein binding|transcription coactivator activity				0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TTCCAAAGGGCGGATGATAAG	0.398													26	131	---	---	---	---	PASS	G	156566273	G	G	156566273	3	3	147	1	0	0	0	0	1	0	0	0	9452	768	27	4	535	4	MED7	5	156566273	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	6078233	156566273	24348987	130	52243										
GABRG2	2566	broad.mit.edu	37	chr5	161580227	161580227	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gactgtgccagttttttctgCtgttttgaagattgtcgaac	10	7	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:161580227C>T	uc003lyz.3	+	9	1615	c.1257C>T	c.(1255-1257)TGC>TGT	p.C419C	GABRG2_uc010jjc.2_Silent_p.C467C|GABRG2_uc003lyy.3_Silent_p.C427C|GABRG2_uc011dej.1_Silent_p.C324C	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	419	Cytoplasmic (Probable).				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)		GTTTTTTCTGCTGTTTTGAAG	0.468													129	76	---	---	---	---	PASS	T	161580227	T	T	161580227	2	4	147	1	0	0	0	0	0	0	0	1	6172	805	28	3		3	GABRG2	5	161580227	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	5013954	161580227	19335033	131	52244										
RARS	5917	broad.mit.edu	37	chr5	167943953	167943953	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttgtatgccttcactagaatCaggtaattgtgggtaggcat	11	6	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:167943953C>G	uc003lzx.2	+	13	1664	c.1623C>G	c.(1621-1623)ATC>ATG	p.I541M	RARS_uc011deo.1_Missense_Mutation_p.I335M	NM_002887	NP_002878	P54136	SYRC_HUMAN	arginyl-tRNA synthetase	541					arginyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|skin(1)	3	Renal(175;0.000159)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0208)|all_neural(177;0.0227)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0693)|Epithelial(171;0.131)|OV - Ovarian serous cystadenocarcinoma(192;0.156)		TCACTAGAATCAGGTAATTGT	0.338													58	277	---	---	---	---	PASS	G	167943953	G	G	167943953	3	3	147	1	0	0	0	0	1	0	0	0	13058	816	29	2	1673	2	RARS	5	167943953	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	6363726	167943953	12971307	132	52245										
SH3PXD2B	285590	broad.mit.edu	37	chr5	171766306	171766306	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttcacttccttggccaagacCttgtggccacactccagccc	7	17	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:171766306C>A	uc003mbr.2	-	13	1974	c.1803G>T	c.(1801-1803)AAG>AAT	p.K601N		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	601					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TGGCCAAGACCTTGTGGCCAC	0.567													77	51	---	---	---	---	PASS	A	171766306	A	A	171766306	3	1	147	1	0	0	0	0	1	0	0	0	14257	680	24	3	936	3	SH3PXD2B	5	171766306	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	3822353	171766306	9148954	133	52246										
STC2	8614	broad.mit.edu	37	chr5	172755103	172755103	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gctcctgtcttggggaccctCgggtgggttggtggcgtcgg	19	10	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:172755103C>G	uc003mco.1	-	1	1404	c.94G>C	c.(94-96)GAG>CAG	p.E32Q	STC2_uc003mcn.1_5'Flank	NM_003714	NP_003705	O76061	STC2_HUMAN	stanniocalcin 2 precursor	32					cell surface receptor linked signaling pathway|cell-cell signaling	extracellular region	hormone activity			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.223)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TGGGGACCCTCGGGTGGGTTG	0.647													29	124	---	---	---	---	PASS	G	172755103	G	G	172755103	3	3	147	1	0	0	0	0	1	0	0	0	15275	893	31	2	830	2	STC2	5	172755103	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	988797	172755103	8160157	134	52247										
KIAA1191	57179	broad.mit.edu	37	chr5	175782611	175782611	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acttgcgctctggaatcactGgcttccaagggacgctgccc	11	14	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:175782611G>A	uc003mdw.2	-	4	542	c.170C>T	c.(169-171)CCA>CTA	p.P57L	KIAA1191_uc003mdx.2_Missense_Mutation_p.P38L|KIAA1191_uc003mdy.2_Missense_Mutation_p.P57L|KIAA1191_uc003mea.2_Intron|KIAA1191_uc003mdz.2_Intron	NM_020444	NP_065177	Q96A73	K1191_HUMAN	hypothetical protein LOC57179 isoform a	57							protein binding			ovary(1)	1	all_cancers(89;0.00575)|Renal(175;0.000269)|Lung NSC(126;0.0105)|all_lung(126;0.0168)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.101)		TGGAATCACTGGCTTCCAAGG	0.577													44	134	---	---	---	---	PASS	A	175782611	A	A	175782611	3	1	147	1	0	0	0	0	1	0	0	0	8212	1348	47	3	771	3	KIAA1191	5	175782611	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	3027508	175782611	5132649	135	52248										
RMND5B	64777	broad.mit.edu	37	chr5	177573150	177573150	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgggcagcctggtgtacctgCggctgggcttggagaagtca	17	9	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr5:177573150C>A	uc003mim.2	+	8	910	c.730C>A	c.(730-732)CGG>AGG	p.R244R	RMND5B_uc003min.2_Silent_p.R244R|RMND5B_uc003mio.2_Silent_p.R231R|RMND5B_uc003mip.2_Silent_p.R244R|RMND5B_uc011dgf.1_Silent_p.R285R|RMND5B_uc003miq.2_Silent_p.R184R	NM_022762	NP_073599	Q96G75	RMD5B_HUMAN	required for meiotic nuclear division 5 homolog	244										ovary(1)|skin(1)	2	all_cancers(89;0.00294)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	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)			GGTGTACCTGCGGCTGGGCTT	0.642											OREG0017097	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	17	---	---	---	---	PASS	A	177573150	A	A	177573150	2	1	147	1	0	0	0	0	0	0	0	1	13398	759	27	1		1	RMND5B	5	177573150	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	1790539	177573150	3342110	136	52249										
IRF4	3662	broad.mit.edu	37	chr6	401482	401482	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctcgtgaaggagctgaccacGtccagccccgagggctgccg	14	15	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr6:401482G>A	uc003msz.3	+	7	917	c.804G>A	c.(802-804)ACG>ACA	p.T268T	IRF4_uc010jne.1_Silent_p.T268T|IRF4_uc003mta.3_RNA|IRF4_uc003mtb.3_Silent_p.T267T|IRF4_uc003mtc.1_Silent_p.T98T	NM_002460	NP_002451	Q15306	IRF4_HUMAN	interferon regulatory factor 4	268					interferon-gamma-mediated signaling pathway|positive regulation of interleukin-10 biosynthetic process|positive regulation of interleukin-13 biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of transcription, DNA-dependent|regulation of T-helper cell differentiation|T cell activation|type I interferon-mediated signaling pathway	cytoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1		Breast(5;0.0155)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.03)|BRCA - Breast invasive adenocarcinoma(62;0.0702)		AGCTGACCACGTCCAGCCCCG	0.612			T	IGH@	MM 								52	30	---	---	---	---	PASS	A	401482	A	A	401482	2	1	147	1	0	0	0	0	0	0	0	1	7832	1132	40	1		1	IRF4	6	401482	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08		401482	170713585	137	52250										
PHACTR1	221692	broad.mit.edu	37	chr6	13228281	13228281	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggaggacgaagacgacgacaGctcattatacaccagtgcgt	12	10	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr6:13228281G>T	uc010jpc.2	+	9	1552	c.1220G>T	c.(1219-1221)AGC>ATC	p.S407I	PHACTR1_uc011dir.1_Missense_Mutation_p.S476I|PHACTR1_uc003nag.1_Missense_Mutation_p.S407I|PHACTR1_uc003nah.1_Missense_Mutation_p.S407I	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	407						cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			GACGACGACAGCTCATTATAC	0.333													32	31	---	---	---	---	PASS	T	13228281	T	T	13228281	3	4	147	1	0	0	0	0	1	0	0	0	11809	971	34	3	1246	3	PHACTR1	6	13228281	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	12826799	13228281	157886786	138	52251										
HIST1H2AM	8336	broad.mit.edu	37	chr6	27860774	27860774	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtactccagcaccgccgccaGgtaaaccggcgcgccggccc	12	19	0	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr6:27860774G>C	uc003nkb.1	-	1	190	c.154C>G	c.(154-156)CTG>GTG	p.L52V	HIST1H3J_uc003nka.2_5'Flank|HIST1H2BO_uc003nkc.1_5'Flank	NM_003514	NP_003505	P0C0S8	H2A1_HUMAN	histone cluster 1, H2am	52					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding			ovary(2)	2						ACCGCCGCCAGGTAAACCGGC	0.652													26	83	---	---	---	---	PASS	C	27860774	C	C	27860774	3	2	147	1	0	0	0	0	1	0	0	0	7139	991	35	4	242	4	HIST1H2AM	6	27860774	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	14632493	27860774	143254293	139	52252										
WDR46	9277	broad.mit.edu	37	chr6	33254660	33254660	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cttcatagctggactccataAagacacagtacctggaagag	9	10	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr6:33254660A>G	uc003ods.2	-	10	1071	c.1027T>C	c.(1027-1029)TTA>CTA	p.L343L	WDR46_uc011dra.1_Silent_p.L289L|WDR46_uc010juo.1_RNA|PFDN6_uc003odt.1_5'Flank|PFDN6_uc010jup.1_5'Flank	NM_005452	NP_005443	O15213	WDR46_HUMAN	WD repeat domain 46 isoform 1	343	WD 4.										0						GGACTCCATAAAGACACAGTA	0.483													61	144	---	---	---	---	PASS	G	33254660	G	G	33254660	2	3	147	1	0	0	0	0	0	0	0	1	17296	11	1	5		5	WDR46	6	33254660	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08	5393886	33254660	137860407	140	52253										
ZNF292	23036	broad.mit.edu	37	chr6	87969026	87969026	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctgaaatgataaacattcaAtttaatgacaaagttaataa	4	4	2	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr6:87969026A>G	uc003plm.3	+	8	5720	c.5679A>G	c.(5677-5679)CAA>CAG	p.Q1893Q		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1893					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		TAAACATTCAATTTAATGACA	0.358													5	77	---	---	---	---	PASS	G	87969026	G	G	87969026	2	3	147	1	0	0	0	0	0	0	0	1	17823	98	4	5		5	ZNF292	6	87969026	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08	54714366	87969026	83146041	141	52254										
MAP3K5	4217	broad.mit.edu	37	chr6	136990473	136990473	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tggtgtccagctgccaggagGaggaccgcataattaattcc	12	10	0	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr6:136990473G>C	uc003qhc.2	-	8	1675	c.1314C>G	c.(1312-1314)CTC>CTG	p.L438L	MAP3K5_uc011edk.1_Silent_p.L283L|MAP3K5_uc010kgw.1_Silent_p.L438L	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	438					activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		CTGCCAGGAGGAGGACCGCAT	0.388													32	117	---	---	---	---	PASS	C	136990473	C	C	136990473	2	2	147	1	0	0	0	0	0	0	0	1	9253	1161	41	2		2	MAP3K5	6	136990473	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	49021447	136990473	34124594	142	52255										
TAB2	23118	broad.mit.edu	37	chr6	149700431	149700431	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtagtcactcagcccaatacGaaatacactttcaaaattac	4	11	3	0	rs150699204	byFrequency	TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr6:149700431G>A	uc003qmj.2	+	3	1558	c.1380G>A	c.(1378-1380)ACG>ACA	p.T460T	TAB2_uc011eec.1_Silent_p.T428T|TAB2_uc010kia.1_Silent_p.T460T|TAB2_uc010kib.1_Silent_p.T460T|TAB2_uc003qmk.3_RNA	NM_015093	NP_055908	Q9NYJ8	TAB2_HUMAN	mitogen-activated protein kinase kinase kinase 7	460					activation of MAPK activity|heart development|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	K63-linked polyubiquitin binding|zinc ion binding				0						AGCCCAATACGAAATACACTT	0.463													33	93	---	---	---	---	PASS	A	149700431	A	A	149700431	2	1	147	1	0	0	0	0	0	0	0	1	15493	1045	37	2		2	TAB2	6	149700431	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	12709958	149700431	21414636	143	52256										
C6orf70	55780	broad.mit.edu	37	chr6	170169794	170169794	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agattcgttgatgactgtctGctatcagtttttaaggtaat	9	5	2	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr6:170169794G>A	uc003qxg.1	+	12	1251	c.1218G>A	c.(1216-1218)CTG>CTA	p.L406L	C6orf70_uc011ehb.1_Silent_p.L280L|C6orf70_uc003qxh.1_Silent_p.L406L|C6orf70_uc010kky.1_Silent_p.L280L|C6orf70_uc003qxi.1_Silent_p.L54L	NM_018341	NP_060811	Q5T6L9	CF070_HUMAN	hypothetical protein LOC55780	406	Helical; (Potential).					integral to membrane				ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.2e-22)|BRCA - Breast invasive adenocarcinoma(81;1.49e-07)|GBM - Glioblastoma multiforme(31;0.00191)		ATGACTGTCTGCTATCAGTTT	0.308													9	52	---	---	---	---	PASS	A	170169794	A	A	170169794	2	1	147	1	0	0	0	0	0	0	0	1	2370	1306	46	3		3	C6orf70	6	170169794	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	20469363	170169794	945273	144	52257										
PHF14	9678	broad.mit.edu	37	chr7	11075331	11075331	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	taggttagacagaaagtggaAgagaaaaaactacttggctc	11	5	0	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:11075331A>G	uc003sry.1	+	8	1955	c.1520A>G	c.(1519-1521)AAG>AGG	p.K507R	PHF14_uc011jxi.1_Missense_Mutation_p.K222R|PHF14_uc003srz.2_Missense_Mutation_p.K507R|PHF14_uc011jxj.1_Missense_Mutation_p.K222R	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	507							zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		AGAAAGTGGAAGAGAAAAAAC	0.368													51	179	---	---	---	---	PASS	G	11075331	G	G	11075331	3	3	147	1	0	0	0	0	1	0	0	0	11825	72	3	5	1550	5	PHF14	7	11075331	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08		11075331	148063332	145	52258										
TXNDC3	51314	broad.mit.edu	37	chr7	37924760	37924760	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctaatagtggtccatctctaGcccttgttttattgagagac	8	9	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:37924760G>T	uc003tfn.2	+	14	1525	c.1153G>T	c.(1153-1155)GCC>TCC	p.A385S		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	385	NDK 2.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						TCCATCTCTAGCCCTTGTTTT	0.358									Kartagener_syndrome				17	49	---	---	---	---	PASS	T	37924760	T	T	37924760	3	4	147	1	0	0	0	0	1	0	0	0	16795	971	34	3	1199	3	TXNDC3	7	37924760	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	26849429	37924760	121213903	146	52259										
DDX56	54606	broad.mit.edu	37	chr7	44612228	44612228	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggaaaaaagaaggtcagcttCgtccaccaccaaaagctcca	8	12	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:44612228C>T	uc003tlg.2	-	4	1142	c.499G>A	c.(499-501)GAA>AAA	p.E167K	DDX56_uc003tle.2_RNA|DDX56_uc003tlf.2_Missense_Mutation_p.E103K|DDX56_uc003tlh.2_RNA|DDX56_uc010kyg.2_Missense_Mutation_p.E167K|DDX56_uc010kyh.1_RNA	NM_019082	NP_061955	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	167	DEAD box.|Helicase ATP-binding.				rRNA processing	nucleolus	ATP binding|ATP-dependent RNA helicase activity|identical protein binding|RNA binding			upper_aerodigestive_tract(1)	1						AGGTCAGCTTCGTCCACCACC	0.498													61	196	---	---	---	---	PASS	T	44612228	T	T	44612228	3	4	147	1	0	0	0	0	1	0	0	0	4374	893	31	2	1188	2	DDX56	7	44612228	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	6687468	44612228	114526435	147	52260										
OGDH	4967	broad.mit.edu	37	chr7	44739744	44739744	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tccttccctgctgcaggaccTtaaagaagccaacttcgaca	7	14	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:44739744T>G	uc003tln.2	+	19	2544	c.2435T>G	c.(2434-2436)CTT>CGT	p.L812R	OGDH_uc011kbx.1_Missense_Mutation_p.L808R|OGDH_uc011kby.1_Missense_Mutation_p.L662R|OGDH_uc003tlp.2_Missense_Mutation_p.L823R|OGDH_uc011kbz.1_Missense_Mutation_p.L607R	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	812					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	CTGCAGGACCTTAAAGAAGCC	0.488													53	192	---	---	---	---	PASS	G	44739744	G	G	44739744	3	3	147	1	0	0	0	0	1	0	0	0	10839	1609	56	5	2678	5	OGDH	7	44739744	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	127516	44739744	114398919	148	52261										
H2AFV	94239	broad.mit.edu	37	chr7	44874124	44874124	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcagttttctgctgtcccttCtttccaatcagagatttgtg	8	10	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:44874124C>T	uc003tma.2	-	5	518	c.363G>A	c.(361-363)AAG>AAA	p.K121K	H2AFV_uc003tlz.2_Intron|H2AFV_uc011kca.1_5'Flank|H2AFV_uc003tmb.2_Silent_p.K83K|H2AFV_uc003tmc.2_3'UTR|H2AFV_uc003tmd.2_Silent_p.K95K	NM_012412	NP_036544	Q71UI9	H2AV_HUMAN	H2A histone family, member V isoform 1	121					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GCTGTCCCTTCTTTCCAATCA	0.373													18	67	---	---	---	---	PASS	T	44874124	T	T	44874124	2	4	147	1	0	0	0	0	0	0	0	1	6927	912	32	2		2	H2AFV	7	44874124	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	134380	44874124	114264539	149	52262										
SUN3	256979	broad.mit.edu	37	chr7	48056919	48056919	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcatataattgtctggatttCtgaggaacatctgtttcttt	8	6	4	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:48056919C>G	uc003tof.2	-	4	325	c.228G>C	c.(226-228)CAG>CAC	p.Q76H	SUN3_uc003tog.2_Missense_Mutation_p.Q76H|SUN3_uc011kcf.1_Missense_Mutation_p.Q64H	NM_152782	NP_689995	Q8TAQ9	SUN3_HUMAN	Sad1 and UNC84 domain containing 1	76						integral to membrane				central_nervous_system(1)	1						GTCTGGATTTCTGAGGAACAT	0.289													7	67	---	---	---	---	PASS	G	48056919	G	G	48056919	3	3	147	1	0	0	0	0	1	0	0	0	15390	912	32	2	877	2	SUN3	7	48056919	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	3182795	48056919	111081744	150	52263										
PHKG1	5260	broad.mit.edu	37	chr7	56149926	56149926	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gataatctcaggggccaggtAactgggggtcccgcagacct	14	11	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:56149926A>T	uc003trz.1	-	7	763	c.568T>A	c.(568-570)TAC>AAC	p.Y190N	PSPH_uc003trj.2_Intron|PHKG1_uc003try.1_Missense_Mutation_p.Y84N|PHKG1_uc011kdb.1_Missense_Mutation_p.Y222N|PHKG1_uc011kdc.1_Missense_Mutation_p.Y181N|PHKG1_uc011kdd.1_Missense_Mutation_p.Y136N	NM_006213	NP_006204	Q16816	PHKG1_HUMAN	phosphorylase kinase gamma subunit 1	190	Protein kinase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			large_intestine(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			GGGGCCAGGTAACTGGGGGTC	0.527													11	58	---	---	---	---	PASS	T	56149926	T	T	56149926	3	4	147	1	0	0	0	0	1	0	0	0	11846	362	13	5	611	5	PHKG1	7	56149926	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	8093007	56149926	102988737	151	52264										
PCLO	27445	broad.mit.edu	37	chr7	82585285	82585285	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tttaaatcggcgtagccctcCtcctccagtaactacaagtt	6	13	0	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:82585285C>T	uc003uhx.2	-	5	5273	c.4984G>A	c.(4984-4986)GGA>AGA	p.G1662R	PCLO_uc003uhv.2_Missense_Mutation_p.G1662R	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1593					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CGTAGCCCTCCTCCTCCAGTA	0.368													15	181	---	---	---	---	PASS	T	82585285	T	T	82585285	3	4	147	1	0	0	0	0	1	0	0	0	11583	690	24	3	10545	3	PCLO	7	82585285	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	26435359	82585285	76553378	152	52265										
AKAP9	10142	broad.mit.edu	37	chr7	91715617	91715617	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgcttgcccttcaacaagttTtcttagaagagcgtagtgtt	9	8	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:91715617T>C	uc003ulg.2	+	37	9325	c.9100T>C	c.(9100-9102)TTC>CTC	p.F3034L	AKAP9_uc003ulf.2_Missense_Mutation_p.F3026L|AKAP9_uc003uli.2_Missense_Mutation_p.F2657L|AKAP9_uc003ulj.2_Missense_Mutation_p.F804L|AKAP9_uc003ulk.2_Missense_Mutation_p.F309L	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3038					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TCAACAAGTTTTCTTAGAAGA	0.423			T	BRAF	papillary thyroid								108	440	---	---	---	---	PASS	C	91715617	C	C	91715617	3	2	147	1	0	0	0	0	1	0	0	0	459	1841	64	5	9246	5	AKAP9	7	91715617	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	9130332	91715617	67423046	153	52266										
ANKIB1	54467	broad.mit.edu	37	chr7	92000830	92000830	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctacgaggatgccgccaattGtctctggttattaactaact	8	10	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:92000830G>T	uc003ulw.2	+	11	1902	c.1526G>T	c.(1525-1527)TGT>TTT	p.C509F	ANKIB1_uc010lew.1_5'UTR	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	509							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GCCGCCAATTGTCTCTGGTTA	0.408													6	30	---	---	---	---	PASS	T	92000830	T	T	92000830	3	4	147	1	0	0	0	0	1	0	0	0	630	1377	48	3	1564	3	ANKIB1	7	92000830	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	285213	92000830	67137833	154	52267										
CUX1	1523	broad.mit.edu	37	chr7	101870950	101870950	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gctgacggacaacaacctcgGtaggttctcctctcggctgc	11	14	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:101870950G>T	uc003uyx.3	+	21	3471	c.3433_splice	c.e21+1	p.G1145_splice	CUX1_uc003uys.3_Splice_Site_p.G1156_splice|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a						negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						AACAACCTCGGTAGGTTCTCC	0.597													14	88	---	---	---	---	PASS	T	101870950	T	T	101870950	5	4	147	1	0	0	0	0	0	0	1	0	4064	1275	44	3	3583	3	CUX1	7	101870950	Splice_Site	SNP	G	TCGA-66-2758-01A-02D-1522-08	9870120	101870950	57267713	155	52268										
ING3	54556	broad.mit.edu	37	chr7	120606683	120606683	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgcctctcttcttttaggatCtttggaattagacactcctt	6	10	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:120606683C>A	uc003vjn.2	+	6	502	c.368C>A	c.(367-369)TCT>TAT	p.S123Y	ING3_uc003vjo.2_5'UTR|ING3_uc003vjp.2_Missense_Mutation_p.S123Y|ING3_uc011kns.1_Missense_Mutation_p.S108Y	NM_019071	NP_061944	Q9NXR8	ING3_HUMAN	inhibitor of growth family, member 3 isoform 1	123					histone H2A acetylation|histone H4 acetylation|positive regulation of apoptosis|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|Piccolo NuA4 histone acetyltransferase complex	zinc ion binding			ovary(1)	1	all_neural(327;0.117)					CTTTTAGGATCTTTGGAATTA	0.428													39	285	---	---	---	---	PASS	A	120606683	A	A	120606683	3	1	147	1	0	0	0	0	1	0	0	0	7737	913	32	2	406	2	ING3	7	120606683	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	18735733	120606683	38531980	156	52269										
CADPS2	93664	broad.mit.edu	37	chr7	122033251	122033251	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ataagtgaggaatacacacgTggactcatataaagaaggca	10	6	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:122033251T>A	uc010lkp.2	-	21	3170	c.3007A>T	c.(3007-3009)ACC>TCC	p.T1003S	CADPS2_uc011knx.1_Missense_Mutation_p.T378S|CADPS2_uc003vkg.3_Intron|CADPS2_uc010lkq.2_Intron	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	1003	Interaction with DRD2.|MHD1.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						AATACACACGTGGACTCATAT	0.458													11	59	---	---	---	---	PASS	A	122033251	A	A	122033251	3	1	147	1	0	0	0	0	1	0	0	0	2571	1710	59	5	938	5	CADPS2	7	122033251	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	1426568	122033251	37105412	157	52270										
FAM40B	57464	broad.mit.edu	37	chr7	129095105	129095105	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcttctccatgcataatgagGagccttttgcccttttactc	7	12	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:129095105G>A	uc011koy.1	+	8	767	c.727G>A	c.(727-729)GAG>AAG	p.E243K	FAM40B_uc003vow.2_Missense_Mutation_p.E243K|FAM40B_uc011koz.1_5'Flank	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	243											0						GCATAATGAGGAGCCTTTTGC	0.502													84	467	---	---	---	---	PASS	A	129095105	A	A	129095105	3	1	147	1	0	0	0	0	1	0	0	0	5561	1175	41	2	757	2	FAM40B	7	129095105	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	7061854	129095105	30043558	158	52271										
FAM40B	57464	broad.mit.edu	37	chr7	129120722	129120722	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgaccaaatggaaacattccCggaccatggtgagtgtggtt	12	8	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:129120722C>T	uc011koy.1	+	19	2081	c.2041C>T	c.(2041-2043)CGG>TGG	p.R681W	FAM40B_uc003vow.2_Missense_Mutation_p.R681W|FAM40B_uc011koz.1_Missense_Mutation_p.R173W	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	681											0						GAAACATTCCCGGACCATGGT	0.428													119	162	---	---	---	---	PASS	T	129120722	T	T	129120722	3	4	147	1	0	0	0	0	1	0	0	0	5561	643	23	1	2115	1	FAM40B	7	129120722	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	25617	129120722	30017941	159	52272										
FAM40B	57464	broad.mit.edu	37	chr7	129125451	129125453	+	In_Frame_Del	DEL	AGA	-	-													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agaccatgggacttccaagcAgaagaatgtaccttgagggc							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:129125451_129125453delAGA	uc011koy.1	+	21	2326_2328	c.2286_2288delAGA	c.(2284-2289)GCAGAA>GCA	p.E764del	FAM40B_uc011koz.1_In_Frame_Del_p.E256del	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	764											0						ACTTCCAAGCAGAAGAATGTACC	0.488													90	56	---	---	---	---		-	129125453	-	-	129125451	7	5	147	1	0	1	0	1	0	0	0	0	5561	175	7	0	2391	0	FAM40B	7	129125451	In_Frame_Del	DEL	AGA	TCGA-66-2758-01A-02D-1522-08	4729	129125451	30013212	160	52273										
OR2F2	135948	broad.mit.edu	37	chr7	143632546	143632546	+	Missense_Mutation	SNP	C	T	T													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ccttgtcgatgtctcctatgCcacaagcgtagtcccccagc							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:143632546C>T	uc011ktv.1	+	1	221	c.221C>T	c.(220-222)GCC>GTC	p.A74V		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					GTCTCCTATGCCACAAGCGTA	0.512													94	656	---	---	---	---	PASS	T	143632546	T	T	143632546	3	4	147	1	0	0	0	0	1	0	0	0	10997	739	26	3	223	3	OR2F2	7	143632546	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	14507095	143632546	15506117	161	52274	961	2								
OR2F2	135948	broad.mit.edu	37	chr7	143632547	143632547	+	Silent	SNP	C	A	A													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cttgtcgatgtctcctatgcCacaagcgtagtcccccagct							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:143632547C>A	uc011ktv.1	+	1	222	c.222C>A	c.(220-222)GCC>GCA	p.A74A		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					TCTCCTATGCCACAAGCGTAG	0.512													94	662	---	---	---	---	PASS	A	143632547	A	A	143632547	2	1	147	1	0	0	0	0	0	0	0	1	10997	581	21	3		3	OR2F2	7	143632547	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	1	143632547	15506116	162	52275	961	2								
NOBOX	135935	broad.mit.edu	37	chr7	144098543	144098543	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cagccccggtggcttctccaGagactgctggcggcttcttc	12	15	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:144098543G>C	uc011kue.1	-	4	440	c.440C>G	c.(439-441)TCT>TGT	p.S147C		NM_001080413	NP_001073882	O60393	NOBOX_HUMAN	NOBOX oogenesis homeobox	147					cell differentiation|oogenesis	nucleus	sequence-specific DNA binding			ovary(1)	1	Melanoma(164;0.14)					GGCTTCTCCAGAGACTGCTGG	0.647													33	29	---	---	---	---	PASS	C	144098543	C	C	144098543	3	2	147	1	0	0	0	0	1	0	0	0	10512	942	33	2	1567	2	NOBOX	7	144098543	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	465996	144098543	15040120	163	52276										
SSPO	23145	broad.mit.edu	37	chr7	149492724	149492724	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cactggcatgactatcgtgaCctcctgcctggcatcttgcc	9	15	1	2	rs113524670		TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:149492724C>G	uc010lpk.2	+	44	6504	c.6504C>G	c.(6502-6504)GAC>GAG	p.D2168E		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2168	F5/8 type C.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			ACTATCGTGACCTCCTGCCTG	0.587													97	378	---	---	---	---	PASS	G	149492724	G	G	149492724	3	3	147	1	0	0	0	0	1	0	0	0	15188	506	18	4	6670	4	SSPO	7	149492724	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	5394181	149492724	9645939	164	52277										
DPP6	1804	broad.mit.edu	37	chr7	153584801	153584801	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gccatgatcaagaccgctaaGatgcaggggaacgtgatggt	14	8	1	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr7:153584801G>C	uc003wli.2	+	1	383	c.33G>C	c.(31-33)AAG>AAC	p.K11N		NM_001039350	NP_001034439	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 3	Error:Variant_position_missing_in_P42658_after_alignment					cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			AGACCGCTAAGATGCAGGGGA	0.587													7	44	---	---	---	---	PASS	C	153584801	C	C	153584801	3	2	147	1	0	0	0	0	1	0	0	0	4730	933	33	2	35	2	DPP6	7	153584801	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	4092077	153584801	5553862	165	52278										
SGCZ	137868	broad.mit.edu	37	chr8	13948076	13948076	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctgtcgagaacttgaggagCtgggtgaagaagatgagaag	16	4	1	6			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:13948076C>A	uc003wwq.2	-	8	1475	c.815G>T	c.(814-816)AGC>ATC	p.S272I	SGCZ_uc010lss.2_Missense_Mutation_p.S225I	NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta	259	Poly-Ser.|Extracellular (Potential).				cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		ACTTGAGGAGCTGGGTGAAGA	0.428													41	182	---	---	---	---	PASS	A	13948076	A	A	13948076	3	1	147	1	0	0	0	0	1	0	0	0	14204	797	28	3	127	3	SGCZ	8	13948076	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08		13948076	132415946	166	52279										
MTUS1	57509	broad.mit.edu	37	chr8	17611496	17611496	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcttcctgattcgatttcacGgcagatgttgttcttggaac	9	9	3	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:17611496G>C	uc003wxv.2	-	2	2295	c.1821C>G	c.(1819-1821)GCC>GCG	p.A607A	MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Silent_p.A607A|MTUS1_uc010lsz.2_Silent_p.A607A	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	607						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		TCGATTTCACGGCAGATGTTG	0.433													88	458	---	---	---	---	PASS	C	17611496	C	C	17611496	2	2	147	1	0	0	0	0	0	0	0	1	9965	1103	39	4		4	MTUS1	8	17611496	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	3663420	17611496	128752526	167	52280										
FGL1	2267	broad.mit.edu	37	chr8	17722242	17722242	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ccgctgtagtatacaccattCaggtttgcagagtgacacct	9	11	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:17722242C>T	uc003wxx.2	-	9	1122	c.798G>A	c.(796-798)CTG>CTA	p.L266L	FGL1_uc003wxy.2_Silent_p.L266L|FGL1_uc003wxz.2_Silent_p.L265L|FGL1_uc003wya.2_Silent_p.L266L|FGL1_uc003wyb.2_Silent_p.L266L|FGL1_uc003wyc.2_Silent_p.L266L|FGL1_uc003wyd.2_RNA|FGL1_uc003wye.2_Silent_p.L316L|FGL1_uc003wyf.2_Silent_p.L236L	NM_201553	NP_963847	Q08830	FGL1_HUMAN	fibrinogen-like 1 precursor	266	Fibrinogen C-terminal.				signal transduction	fibrinogen complex	receptor binding				0				Colorectal(111;0.0573)|COAD - Colon adenocarcinoma(73;0.215)		ATACACCATTCAGGTTTGCAG	0.413													10	39	---	---	---	---	PASS	T	17722242	T	T	17722242	2	4	147	1	0	0	0	0	0	0	0	1	5872	813	29	2		2	FGL1	8	17722242	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	110746	17722242	128641780	168	52281										
CSGALNACT1	55790	broad.mit.edu	37	chr8	19362722	19362722	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aaatgctaaccttctatgaaAtcagaggccgtgtaaggacg	10	8	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:19362722A>T	uc011kyn.1	-	4	1688	c.624T>A	c.(622-624)GAT>GAA	p.D208E	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.D208E|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.D207E|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	208	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		CTTCTATGAAATCAGAGGCCG	0.532													52	120	---	---	---	---	PASS	T	19362722	T	T	19362722	3	4	147	1	0	0	0	0	1	0	0	0	3938	98	4	5	1002	5	CSGALNACT1	8	19362722	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	1640480	19362722	127001300	169	52282										
TEX15	56154	broad.mit.edu	37	chr8	30706460	30706460	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gaaaagaagcattaagaccaCttaaaatatttttaagactt	5	5	0	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:30706460C>A	uc003xil.2	-	1	74	c.74G>T	c.(73-75)AGT>ATT	p.S25I	TEX15_uc011lbc.1_Missense_Mutation_p.S412I	NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	25										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		ATTAAGACCACTTAAAATATT	0.378													107	125	---	---	---	---	PASS	A	30706460	A	A	30706460	3	1	147	1	0	0	0	0	1	0	0	0	15776	565	20	3	8311	3	TEX15	8	30706460	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	11343738	30706460	115657562	170	52283										
FUT10	84750	broad.mit.edu	37	chr8	33318925	33318925	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cagaaagacggtggctgtgaCgcacaggcaagatgccaaaa	13	9	0	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:33318925C>A	uc003xje.2	-	2	402	c.46G>T	c.(46-48)GTC>TTC	p.V16F	FUT10_uc003xjd.2_Intron|FUT10_uc011lbi.1_Intron|FUT10_uc003xjf.2_5'UTR|FUT10_uc003xjg.2_5'UTR|FUT10_uc003xjh.2_Missense_Mutation_p.V16F|FUT10_uc003xji.1_Missense_Mutation_p.V16F	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	16	Helical; Signal-anchor for type II membrane protein; (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		GTGGCTGTGACGCACAGGCAA	0.552													45	59	---	---	---	---	PASS	A	33318925	A	A	33318925	3	1	147	1	0	0	0	0	1	0	0	0	6102	536	19	1	1409	1	FUT10	8	33318925	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	2612465	33318925	113045097	171	52284										
ASH2L	9070	broad.mit.edu	37	chr8	37972489	37972489	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcagtaaagatccagaagaaGattaccccaaatttggactt	8	8	0	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:37972489G>T	uc003xkt.3	+	7	806	c.748G>T	c.(748-750)GAT>TAT	p.D250Y	ASH2L_uc011lbk.1_Missense_Mutation_p.D111Y|ASH2L_uc003xku.3_Missense_Mutation_p.D156Y|ASH2L_uc010lwa.2_Missense_Mutation_p.D156Y	NM_004674	NP_004665	Q9UBL3	ASH2L_HUMAN	ash2-like isoform a	250					hemopoiesis|histone H3-K4 methylation|positive regulation of cell proliferation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription from RNA polymerase II promoter	Set1C/COMPASS complex	metal ion binding|protein binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2	Colorectal(12;0.000501)	Lung NSC(58;0.0295)|all_lung(54;0.0413)				TCCAGAAGAAGATTACCCCAA	0.338													13	74	---	---	---	---	PASS	T	37972489	T	T	37972489	3	4	147	1	0	0	0	0	1	0	0	0	1042	942	33	2	774	2	ASH2L	8	37972489	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	4653564	37972489	108391533	172	52285										
RP1	6101	broad.mit.edu	37	chr8	55538974	55538974	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctcaagcagaagtggcatcTgggtatttgagaggaatggc	14	6	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:55538974T>A	uc003xsd.1	+	4	2680	c.2532T>A	c.(2530-2532)TCT>TCA	p.S844S	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	844					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			AAGTGGCATCTGGGTATTTGA	0.333													45	65	---	---	---	---	PASS	A	55538974	A	A	55538974	2	1	147	1	0	0	0	0	0	0	0	1	13532	1567	55	5		5	RP1	8	55538974	Silent	SNP	T	TCGA-66-2758-01A-02D-1522-08	17566485	55538974	90825048	173	52286										
ARFGEF1	10565	broad.mit.edu	37	chr8	68169977	68169977	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gaaaacatacctgtggactgTgaaggtctgtggtcaacatg	12	7	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:68169977T>C	uc003xxo.1	-	17	2906	c.2516A>G	c.(2515-2517)CAC>CGC	p.H839R	ARFGEF1_uc003xxl.1_Missense_Mutation_p.H293R	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	839	SEC7.				exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			CTGTGGACTGTGAAGGTCTGT	0.313													44	195	---	---	---	---	PASS	C	68169977	C	C	68169977	3	2	147	1	0	0	0	0	1	0	0	0	852	1696	59	5	3125	5	ARFGEF1	8	68169977	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	12631003	68169977	78194045	174	52287										
SLC26A7	115111	broad.mit.edu	37	chr8	92401612	92401612	+	Silent	SNP	G	T	T													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gagaagtgttatttaatcctGgattgcagtggatttacctt							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:92401612G>T	uc003yex.2	+	17	2000	c.1722G>T	c.(1720-1722)CTG>CTT	p.L574L	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Silent_p.L574L|SLC26A7_uc003yfa.2_Silent_p.L574L	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	574	STAS.|Cytoplasmic (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)			ATTTAATCCTGGATTGCAGTG	0.398													107	260	---	---	---	---	PASS	T	92401612	T	T	92401612	2	4	147	1	0	0	0	0	0	0	0	1	14522	1335	47	3		3	SLC26A7	8	92401612	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	24231635	92401612	53962410	175	52288	962	2								
SLC26A7	115111	broad.mit.edu	37	chr8	92401613	92401613	+	Missense_Mutation	SNP	G	T	T													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agaagtgttatttaatcctgGattgcagtggatttaccttt							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:92401613G>T	uc003yex.2	+	17	2001	c.1723G>T	c.(1723-1725)GAT>TAT	p.D575Y	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Missense_Mutation_p.D575Y|SLC26A7_uc003yfa.2_Missense_Mutation_p.D575Y	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	575	STAS.|Cytoplasmic (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)			TTTAATCCTGGATTGCAGTGG	0.398													108	257	---	---	---	---	PASS	T	92401613	T	T	92401613	3	4	147	1	0	0	0	0	1	0	0	0	14522	1174	41	2	1781	2	SLC26A7	8	92401613	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	1	92401613	53962409	176	52289	962	2								
STK3	6788	broad.mit.edu	37	chr8	99539019	99539019	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tccagttatcaggaaaaacgTttttggacatagggaagggt	12	5	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:99539019T>C	uc003yip.2	-	10	1409	c.1268A>G	c.(1267-1269)AAC>AGC	p.N423S	STK3_uc003yio.2_Missense_Mutation_p.N451S	NM_006281	NP_006272	Q13188	STK3_HUMAN	serine/threonine kinase 3	423					apoptosis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of apoptosis	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein dimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	Breast(36;2.4e-06)	Breast(495;0.106)	OV - Ovarian serous cystadenocarcinoma(57;0.0382)	KIRC - Kidney renal clear cell carcinoma(542;9.44e-06)		AGGAAAAACGTTTTTGGACAT	0.338													79	92	---	---	---	---	PASS	C	99539019	C	C	99539019	3	2	147	1	0	0	0	0	1	0	0	0	15294	1725	60	5	215	5	STK3	8	99539019	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	7137406	99539019	46825003	177	52290										
ZFPM2	23414	broad.mit.edu	37	chr8	106801085	106801085	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	atgtaccctgcacgcctgctGgactcaattcagctgcttcc	8	15	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:106801085G>T	uc003ymd.2	+	6	695	c.672G>T	c.(670-672)CTG>CTT	p.L224L	ZFPM2_uc011lhs.1_5'UTR	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	224					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			CACGCCTGCTGGACTCAATTC	0.498													17	119	---	---	---	---	PASS	T	106801085	T	T	106801085	2	4	147	1	0	0	0	0	0	0	0	1	17655	1335	47	3		3	ZFPM2	8	106801085	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	7262066	106801085	39562937	178	52291										
ZFPM2	23414	broad.mit.edu	37	chr8	106813738	106813738	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ataaagtctgagccctctagCccaagacttgcctcatctcc	6	15	4	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:106813738C>T	uc003ymd.2	+	8	1451	c.1428C>T	c.(1426-1428)AGC>AGT	p.S476S	ZFPM2_uc011lhs.1_Silent_p.S207S	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	476					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AGCCCTCTAGCCCAAGACTTG	0.443													53	241	---	---	---	---	PASS	T	106813738	T	T	106813738	2	4	147	1	0	0	0	0	0	0	0	1	17655	738	26	3		3	ZFPM2	8	106813738	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	12653	106813738	39550284	179	52292										
PKHD1L1	93035	broad.mit.edu	37	chr8	110424514	110424514	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gaacatattaacagagggcaGaagacagctgaaaccgatgc	11	8	0	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:110424514G>C	uc003yne.2	+	20	2210	c.2106G>C	c.(2104-2106)CAG>CAC	p.Q702H		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	702	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ACAGAGGGCAGAAGACAGCTG	0.408										HNSCC(38;0.096)			22	104	---	---	---	---	PASS	C	110424514	C	C	110424514	3	2	147	1	0	0	0	0	1	0	0	0	11972	933	33	2	2184	2	PKHD1L1	8	110424514	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	3610776	110424514	35939508	180	52293										
CSMD3	114788	broad.mit.edu	37	chr8	113326155	113326155	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctatatatcttatccggaagCcttttttgttattgccatga	6	8	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:113326155C>G	uc003ynu.2	-	49	7835	c.7676G>C	c.(7675-7677)GGC>GCC	p.G2559A	CSMD3_uc003yns.2_Missense_Mutation_p.G1761A|CSMD3_uc003ynt.2_Missense_Mutation_p.G2519A|CSMD3_uc011lhx.1_Missense_Mutation_p.G2455A|CSMD3_uc003ynw.1_Missense_Mutation_p.G270A	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2559	CUB 14.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TATCCGGAAGCCTTTTTTGTT	0.308										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			62	123	---	---	---	---	PASS	G	113326155	G	G	113326155	3	3	147	1	0	0	0	0	1	0	0	0	3946	739	26	4	3539	4	CSMD3	8	113326155	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	2901641	113326155	33037867	181	52294										
DEPDC6	64798	broad.mit.edu	37	chr8	120977528	120977528	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggaggaggaaggggtcaagtAtgagcgcaccttcatggcat	16	7	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:120977528A>T	uc003yow.3	+	4	669	c.482A>T	c.(481-483)TAT>TTT	p.Y161F	DEPDC6_uc011lid.1_Missense_Mutation_p.Y60F	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	161	DEP 2.				intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GGGGTCAAGTATGAGCGCACC	0.522													75	99	---	---	---	---	PASS	T	120977528	T	T	120977528	3	4	147	1	0	0	0	0	1	0	0	0	4443	449	16	5	496	5	DEPDC6	8	120977528	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	7651373	120977528	25386494	182	52295										
ZHX2	22882	broad.mit.edu	37	chr8	123964616	123964616	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	caagtttccttacccgacccAggctgagttgtcctggctga	10	13	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:123964616A>T	uc003ypk.1	+	3	1433	c.866A>T	c.(865-867)CAG>CTG	p.Q289L		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	289	Required for interaction with NFYA.|Required for homodimerization.|Required for repressor activity.|Homeobox 1.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			TACCCGACCCAGGCTGAGTTG	0.517													109	132	---	---	---	---	PASS	T	123964616	T	T	123964616	3	4	147	1	0	0	0	0	1	0	0	0	17673	188	7	5	868	5	ZHX2	8	123964616	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	2987088	123964616	22399406	183	52296										
COL22A1	169044	broad.mit.edu	37	chr8	139825240	139825240	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cgtgtctcgagtcacaatagAtcacaatccgctgtaggtca	9	11	4	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:139825240A>G	uc003yvd.2	-	8	1715	c.1268T>C	c.(1267-1269)ATC>ACC	p.I423T		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	423	TSP N-terminal.				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)			GTCACAATAGATCACAATCCG	0.512										HNSCC(7;0.00092)			77	110	---	---	---	---	PASS	G	139825240	G	G	139825240	3	3	147	1	0	0	0	0	1	0	0	0	3681	333	12	5	3844	5	COL22A1	8	139825240	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	15860624	139825240	6538782	184	52297										
SCRIB	23513	broad.mit.edu	37	chr8	144874791	144874791	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cagcatctgcgctctcttctGctgtagttttctggctgccg	10	13	4	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:144874791G>A	uc003yzp.1	-	31	4199	c.4192C>T	c.(4192-4194)CAG>TAG	p.Q1398*	SCRIB_uc003yzn.1_Nonsense_Mutation_p.Q131*|SCRIB_uc003yzo.1_Nonsense_Mutation_p.Q1398*	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	1398	Potential.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			GCTCTCTTCTGCTGTAGTTTT	0.682													8	9	---	---	---	---	PASS	A	144874791	A	A	144874791	4	1	147	1	0	0	0	0	0	1	0	0	13937	1328	46	3	803	3	SCRIB	8	144874791	Nonsense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	5049551	144874791	1489231	185	52298										
KIFC2	90990	broad.mit.edu	37	chr8	145692682	145692682	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggaggcaggccctgctccagGggactcagccagcccctcgg	15	16	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr8:145692682G>T	uc003zcz.2	+	4	492	c.427G>T	c.(427-429)GGG>TGG	p.G143W	CYHR1_uc003zcv.2_5'Flank|CYHR1_uc003zcw.2_5'Flank|CYHR1_uc003zcx.2_5'Flank|CYHR1_uc003zcy.2_5'Flank	NM_145754	NP_665697	Q96AC6	KIFC2_HUMAN	kinesin family member C2	143					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CCTGCTCCAGGGGACTCAGCC	0.617											OREG0019057	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	61	111	---	---	---	---	PASS	T	145692682	T	T	145692682	3	4	147	1	0	0	0	0	1	0	0	0	8313	1232	43	3	441	3	KIFC2	8	145692682	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	817891	145692682	671340	186	52299										
B4GALT1	2683	broad.mit.edu	37	chr9	33135352	33135352	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcatagcggccgcccatcttCacatttgggttctgctttgc	10	13	3	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:33135352C>G	uc003zsg.2	-	2	672	c.483G>C	c.(481-483)GTG>GTC	p.V161V		NM_001497	NP_001488	P15291	B4GT1_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	161	Lumenal (Potential).				oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	basolateral plasma membrane|brush border membrane|desmosome|external side of plasma membrane|extracellular region|glycocalyx|Golgi cisterna membrane|Golgi trans cisterna|integral to membrane	alpha-tubulin binding|beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|beta-tubulin binding|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity|protein binding|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(29;0.0084)	GBM - Glioblastoma multiforme(74;0.121)	N-Acetyl-D-glucosamine(DB00141)	CGCCCATCTTCACATTTGGGT	0.577													19	101	---	---	---	---	PASS	G	33135352	G	G	33135352	2	3	147	1	0	0	0	0	0	0	0	1	1270	813	29	2		2	B4GALT1	9	33135352	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08		33135352	108078079	187	52300										
DNAI1	27019	broad.mit.edu	37	chr9	34493233	34493233	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtagaggaacttgagaagcaGgaaaagaccaaagagaagga	14	4	0	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:34493233G>C	uc003zum.2	+	9	916	c.723G>C	c.(721-723)CAG>CAC	p.Q241H		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	241					cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)		TTGAGAAGCAGGAAAAGACCA	0.463									Kartagener_syndrome				36	170	---	---	---	---	PASS	C	34493233	C	C	34493233	3	2	147	1	0	0	0	0	1	0	0	0	4609	991	35	4	757	4	DNAI1	9	34493233	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	1357881	34493233	106720198	188	52301										
CNTFR	1271	broad.mit.edu	37	chr9	34556282	34556282	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctggtccaggatgaggggtcGgtagcgcagaaagaacttga	16	7	0	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:34556282G>C	uc003zup.1	-	7	1020	c.739C>G	c.(739-741)CGA>GGA	p.R247G	CNTFR_uc003zuq.1_Missense_Mutation_p.R247G	NM_147164	NP_671693	P26992	CNTFR_HUMAN	ciliary neurotrophic factor receptor	247	Fibronectin type-III 2.				nervous system development	anchored to membrane|extrinsic to membrane|plasma membrane	ciliary neurotrophic factor receptor activity|receptor binding			ovary(3)|central_nervous_system(1)|skin(1)	5	all_epithelial(49;0.0899)		STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.00494)		ATGAGGGGTCGGTAGCGCAGA	0.612													8	49	---	---	---	---	PASS	C	34556282	C	C	34556282	3	2	147	1	0	0	0	0	1	0	0	0	3638	1124	39	4	395	4	CNTFR	9	34556282	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	63049	34556282	106657149	189	52302										
RUSC2	9853	broad.mit.edu	37	chr9	35555352	35555352	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aaagctgggtctgagccagaGacctctcggccatcgcccct	11	15	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:35555352G>C	uc003zww.2	+	3	2565	c.2310G>C	c.(2308-2310)GAG>GAC	p.E770D	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.E770D	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	770						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			CTGAGCCAGAGACCTCTCGGC	0.652													9	274	---	---	---	---	PASS	C	35555352	C	C	35555352	3	2	147	1	0	0	0	0	1	0	0	0	13751	933	33	2	2316	2	RUSC2	9	35555352	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	999070	35555352	105658079	190	52303										
SIT1	27240	broad.mit.edu	37	chr9	35650382	35650382	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agataatgcaggttcccataCagcgggacctcttccacaga	9	12	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:35650382C>T	uc003zxe.1	-	3	364	c.267G>A	c.(265-267)CTG>CTA	p.L89L	SIT1_uc003zxf.1_RNA	NM_014450	NP_055265	Q9Y3P8	SIT1_HUMAN	SHP2-interacting transmembrane adaptor protein	89	Cytoplasmic (Potential).				regulation of T cell activation|signal transduction	integral to plasma membrane	kinase binding|SH2 domain binding				0			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GGTTCCCATACAGCGGGACCT	0.587													23	137	---	---	---	---	PASS	T	35650382	T	T	35650382	2	4	147	1	0	0	0	0	0	0	0	1	14344	465	17	3		3	SIT1	9	35650382	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	95030	35650382	105563049	191	52304										
CNTNAP3	79937	broad.mit.edu	37	chr9	39177329	39177329	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aataacctcaaaattaagatCcaagtaactggaatctccct	4	10	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:39177329C>A	uc004abi.2	-	6	1152	c.913G>T	c.(913-915)GAT>TAT	p.D305Y	CNTNAP3_uc004abj.2_Missense_Mutation_p.D305Y|CNTNAP3_uc011lqr.1_RNA|CNTNAP3_uc004abk.1_Missense_Mutation_p.D305Y|CNTNAP3_uc011lqs.1_Missense_Mutation_p.D305Y|CNTNAP3_uc004abl.1_Missense_Mutation_p.D217Y	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor	305	Extracellular (Potential).|Laminin G-like 1.				cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		AAATTAAGATCCAAGTAACTG	0.368													64	73	---	---	---	---	PASS	A	39177329	A	A	39177329	3	1	147	1	0	0	0	0	1	0	0	0	3648	855	30	2	3029	2	CNTNAP3	9	39177329	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	3526947	39177329	102036102	192	52305										
FLJ46321	389763	broad.mit.edu	37	chr9	84608637	84608637	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agtgtccggacaacagaggaTggcagacagacttttctgcc	12	10	1	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:84608637T>C	uc004amn.2	+	4	3299	c.3252T>C	c.(3250-3252)GAT>GAC	p.D1084D		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1084						integral to membrane					0						CAACAGAGGATGGCAGACAGA	0.498													16	93	---	---	---	---	PASS	C	84608637	C	C	84608637	2	2	147	1	0	0	0	0	0	0	0	1	5932	1461	51	5		5	FLJ46321	9	84608637	Silent	SNP	T	TCGA-66-2758-01A-02D-1522-08	45431308	84608637	56604794	193	52306										
ZCCHC6	79670	broad.mit.edu	37	chr9	88967621	88967621	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttcctgcttccatttctgacGtggtttctaggcttgttagg	10	9	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:88967621G>A	uc004aoq.2	-	2	709	c.494C>T	c.(493-495)ACG>ATG	p.T165M	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.T165M|ZCCHC6_uc004aou.2_Missense_Mutation_p.T165M|ZCCHC6_uc004aov.2_Missense_Mutation_p.T165M|ZCCHC6_uc004aow.2_Missense_Mutation_p.T165M|ZCCHC6_uc010mqf.1_Missense_Mutation_p.T165M	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	165					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						CATTTCTGACGTGGTTTCTAG	0.403													49	252	---	---	---	---	PASS	A	88967621	A	A	88967621	3	1	147	1	0	0	0	0	1	0	0	0	17589	1145	40	1	4097	1	ZCCHC6	9	88967621	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	4358984	88967621	52245810	194	52307										
TNC	3371	broad.mit.edu	37	chr9	117797579	117797579	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agggcagtttccgactgaacCtcagtagcagtcaagtctct	10	11	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:117797579C>G	uc004bjj.3	-	22	6053	c.5691G>C	c.(5689-5691)GAG>GAC	p.E1897D	TNC_uc010mvf.2_Missense_Mutation_p.E1624D	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1897	Fibronectin type-III 15.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding	p.E1897K(1)		central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CCGACTGAACCTCAGTAGCAG	0.433													40	170	---	---	---	---	PASS	G	117797579	G	G	117797579	3	3	147	1	0	0	0	0	1	0	0	0	16267	680	24	4	942	4	TNC	9	117797579	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	28829958	117797579	23415852	195	52308										
TNC	3371	broad.mit.edu	37	chr9	117848712	117848712	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggcaccgtagctggctgcagTcctccccagtatagccctca	10	16	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:117848712T>C	uc004bjj.3	-	3	1660	c.1298A>G	c.(1297-1299)GAC>GGC	p.D433G	TNC_uc010mvf.2_Missense_Mutation_p.D433G	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	433	EGF-like 9.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CTGGCTGCAGTCCTCCCCAGT	0.587													11	187	---	---	---	---	PASS	C	117848712	C	C	117848712	3	2	147	1	0	0	0	0	1	0	0	0	16267	1667	58	5	5411	5	TNC	9	117848712	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	51133	117848712	23364719	196	52309										
NUP188	23511	broad.mit.edu	37	chr9	131765730	131765730	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cctcagctcatgcgtgatatCcaggtgggggcccaagatgg	14	11	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:131765730C>A	uc004bws.1	+	38	4453	c.4431C>A	c.(4429-4431)ATC>ATA	p.I1477I	NUP188_uc004bwu.2_Silent_p.I820I	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1477					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						TGCGTGATATCCAGGTGGGGG	0.567													119	75	---	---	---	---	PASS	A	131765730	A	A	131765730	2	1	147	1	0	0	0	0	0	0	0	1	10758	845	30	2		2	NUP188	9	131765730	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	13917018	131765730	9447701	197	52310										
BAT2L1	84726	broad.mit.edu	37	chr9	134351441	134351441	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggcgccccccacgccaagatAagccccctcgattccggcgc	10	20	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:134351441A>C	uc004can.3	+	15	3980	c.3925A>C	c.(3925-3927)AAG>CAG	p.K1309Q	BAT2L1_uc010mzj.1_Missense_Mutation_p.K892Q|BAT2L1_uc004cao.3_Missense_Mutation_p.K667Q	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1309							protein binding				0						ACGCCAAGATAAGCCCCCTCG	0.642											OREG0019561	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	110	---	---	---	---	PASS	C	134351441	C	C	134351441	3	2	147	1	0	0	0	0	1	0	0	0	1320	363	13	5	3983	5	BAT2L1	9	134351441	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	2585711	134351441	6861990	198	52311										
GTF3C4	9329	broad.mit.edu	37	chr9	135553825	135553825	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gaatgccgggacgttggcagTgtgctcctggctgtcctctt	14	11	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:135553825T>C	uc010mzv.2	+	2	1077	c.819T>C	c.(817-819)AGT>AGC	p.S273S	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	273					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		ACGTTGGCAGTGTGCTCCTGG	0.517													191	71	---	---	---	---	PASS	C	135553825	C	C	135553825	2	2	147	1	0	0	0	0	0	0	0	1	6875	1693	59	5		5	GTF3C4	9	135553825	Silent	SNP	T	TCGA-66-2758-01A-02D-1522-08	1202384	135553825	5659606	199	52312										
UBAC1	10422	broad.mit.edu	37	chr9	138831596	138831596	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gaaccccatctccatcagggAaatgacggcctagaggacag	11	12	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:138831596A>C	uc004cgt.2	-	8	1104	c.886T>G	c.(886-888)TCC>GCC	p.S296A	UBAC1_uc004cgs.1_Missense_Mutation_p.S296A|UBAC1_uc004cgu.2_RNA	NM_016172	NP_057256	Q9BSL1	UBAC1_HUMAN	ubiquitin associated domain containing 1	296	UBA 2.					Golgi apparatus|plasma membrane	protein binding			skin(2)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.1e-06)|Epithelial(140;7.79e-06)		TCCATCAGGGAAATGACGGCC	0.597													12	178	---	---	---	---	PASS	C	138831596	C	C	138831596	3	2	147	1	0	0	0	0	1	0	0	0	16831	246	9	5	343	5	UBAC1	9	138831596	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	3277771	138831596	2381835	200	52313										
SNAPC4	6621	broad.mit.edu	37	chr9	139270830	139270830	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acaccagccgcctccgcttcCgggtgtgcctggcatgccgg	13	17	0	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr9:139270830C>T	uc004chh.2	-	22	4397	c.4388G>A	c.(4387-4389)CGG>CAG	p.R1463Q	CARD9_uc004chg.3_5'Flank|CARD9_uc011mdw.1_5'Flank|CARD9_uc011mdx.1_5'Flank|CARD9_uc010nbj.2_5'Flank	NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	1463					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		CCTCCGCTTCCGGGTGTGCCT	0.632													97	126	---	---	---	---	PASS	T	139270830	T	T	139270830	3	4	147	1	0	0	0	0	1	0	0	0	14837	652	23	1	25	1	SNAPC4	9	139270830	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	439234	139270830	1942601	201	52314										
ITGB1	3688	broad.mit.edu	37	chr10	33208813	33208813	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctgacaacacccagcttacCtgcacgcgccacactcaaat	5	17	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr10:33208813C>T	uc001iws.3	-	11	1605	c.1469G>A	c.(1468-1470)AGG>AAG	p.R490K	ITGB1_uc001iwp.3_Missense_Mutation_p.R490K|ITGB1_uc001iwq.3_Missense_Mutation_p.R490K|ITGB1_uc001iwr.3_Missense_Mutation_p.R490K|ITGB1_uc001iwt.3_Missense_Mutation_p.R490K|ITGB1_uc001iwu.1_Missense_Mutation_p.R490K	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	490	Extracellular (Potential).|I.|Cysteine-rich tandem repeats.				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				CCCAGCTTACCTGCACGCGCC	0.453													8	189	---	---	---	---	PASS	T	33208813	T	T	33208813	3	4	147	1	0	0	0	0	1	0	0	0	7890	695	24	3	1189	3	ITGB1	10	33208813	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08		33208813	102325934	202	52315										
A1CF	29974	broad.mit.edu	37	chr10	52587900	52587900	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	atatgtcctacctggtttgaTattgttgaattccttttcaa	6	7	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr10:52587900T>A	uc001jjj.2	-	7	948	c.760A>T	c.(760-762)ATC>TTC	p.I254F	A1CF_uc010qhn.1_Missense_Mutation_p.I262F|A1CF_uc001jji.2_Missense_Mutation_p.I254F|A1CF_uc001jjh.2_Missense_Mutation_p.I262F|A1CF_uc010qho.1_Missense_Mutation_p.I262F|A1CF_uc009xov.2_Missense_Mutation_p.I254F	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	254	RRM 3.				cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						CCTGGTTTGATATTGTTGAAT	0.209													8	85	---	---	---	---	PASS	A	52587900	A	A	52587900	3	1	147	1	0	0	0	0	1	0	0	0	2	1406	49	5	1052	5	A1CF	10	52587900	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	19379087	52587900	82946847	203	52316										
TMEM26	219623	broad.mit.edu	37	chr10	63191022	63191022	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctggtttgttcattggatgtCaatgtttgattgaagtcttc	10	5	3	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr10:63191022C>G	uc001jlo.2	-	3	708	c.339G>C	c.(337-339)TTG>TTC	p.L113F	TMEM26_uc010qij.1_RNA|TMEM26_uc001jlq.2_RNA	NM_178505	NP_848600	Q6ZUK4	TMM26_HUMAN	transmembrane protein 26	113						integral to membrane					0	Prostate(12;0.0112)					CATTGGATGTCAATGTTTGAT	0.408													19	101	---	---	---	---	PASS	G	63191022	G	G	63191022	3	3	147	1	0	0	0	0	1	0	0	0	16148	825	29	2	783	2	TMEM26	10	63191022	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	10603122	63191022	72343725	204	52317										
ARID5B	84159	broad.mit.edu	37	chr10	63816878	63816878	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	atattttcccttttccaggtGaaatgtgaggccaggtcagc	10	9	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr10:63816878G>A	uc001jlt.1	+	6	875	c.849G>A	c.(847-849)GTG>GTA	p.V283V	ARID5B_uc001jlu.1_Silent_p.V40V	NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	283					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					TTTTCCAGGTGAAATGTGAGG	0.448													27	32	---	---	---	---	PASS	A	63816878	A	A	63816878	2	1	147	1	0	0	0	0	0	0	0	1	922	1277	45	2		2	ARID5B	10	63816878	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	625856	63816878	71717869	205	52318										
MYPN	84665	broad.mit.edu	37	chr10	69925552	69925552	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	caaatacggcacagtgtcaaGcattgcacagctgcacgtga	10	11	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr10:69925552G>T	uc001jnm.3	+	10	1762	c.1577G>T	c.(1576-1578)AGC>ATC	p.S526I	MYPN_uc001jnl.1_Missense_Mutation_p.S526I|MYPN_uc001jnn.3_Missense_Mutation_p.S251I|MYPN_uc001jno.3_Missense_Mutation_p.S526I|MYPN_uc009xps.2_Missense_Mutation_p.S526I|MYPN_uc009xpt.2_Missense_Mutation_p.S526I|MYPN_uc010qit.1_Missense_Mutation_p.S232I|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	526	Ig-like 2.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						ACAGTGTCAAGCATTGCACAG	0.433													85	50	---	---	---	---	PASS	T	69925552	T	T	69925552	3	4	147	1	0	0	0	0	1	0	0	0	10098	971	34	3	1607	3	MYPN	10	69925552	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	6108674	69925552	65609195	206	52319										
CHST3	9469	broad.mit.edu	37	chr10	73765698	73765698	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tttcttggtttttgtggtgaTagtttttgtcttcatcgaaa	9	4	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr10:73765698T>C	uc001jsn.2	+	2	538	c.98T>C	c.(97-99)ATA>ACA	p.I33T		NM_004273	NP_004264	Q7LGC8	CHST3_HUMAN	chondroitin 6-sulfotransferase 3	33	Helical; Signal-anchor for type II membrane protein; (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity				0						TTTGTGGTGATAGTTTTTGTC	0.473													76	76	---	---	---	---	PASS	C	73765698	C	C	73765698	3	2	147	1	0	0	0	0	1	0	0	0	3405	1406	49	5	100	5	CHST3	10	73765698	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	3840146	73765698	61769049	207	52320										
CHST3	9469	broad.mit.edu	37	chr10	73765715	73765715	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgatagtttttgtcttcatcGaaaaggaaaataaaatcata	6	4	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr10:73765715G>T	uc001jsn.2	+	2	555	c.115G>T	c.(115-117)GAA>TAA	p.E39*		NM_004273	NP_004264	Q7LGC8	CHST3_HUMAN	chondroitin 6-sulfotransferase 3	39	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity				0						TGTCTTCATCGAAAAGGAAAA	0.483													75	71	---	---	---	---	PASS	T	73765715	T	T	73765715	4	4	147	1	0	0	0	0	0	1	0	0	3405	1059	37	2	117	2	CHST3	10	73765715	Nonsense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	17	73765715	61769032	208	52321										
GBF1	8729	broad.mit.edu	37	chr10	104140418	104140418	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctccctcacctacgagatgaActcttcaagcagaccgtcat	6	15	4	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr10:104140418A>G	uc001kux.1	+	38	5385	c.5145A>G	c.(5143-5145)GAA>GAG	p.E1715E	GBF1_uc001kuy.1_Silent_p.E1711E|GBF1_uc001kuz.1_Silent_p.E1712E	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1715					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		TACGAGATGAACTCTTCAAGC	0.468													156	425	---	---	---	---	PASS	G	104140418	G	G	104140418	2	3	147	1	0	0	0	0	0	0	0	1	6271	40	2	5		5	GBF1	10	104140418	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08	30374703	104140418	31394329	209	52322										
CCDC147	159686	broad.mit.edu	37	chr10	106163575	106163575	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agctggagaatcccctgaatGtgcacagatggaggaagctc	13	9	0	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr10:106163575G>C	uc001kyh.2	+	14	2262	c.2128G>C	c.(2128-2130)GTG>CTG	p.V710L		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	710	Potential.									ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		TCCCCTGAATGTGCACAGATG	0.512													11	26	---	---	---	---	PASS	C	106163575	C	C	106163575	3	2	147	1	0	0	0	0	1	0	0	0	2781	1377	48	4	2182	4	CCDC147	10	106163575	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	2023157	106163575	29371172	210	52323										
CASP7	840	broad.mit.edu	37	chr10	115486075	115486075	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gatatttaggcttgccgaggGaccgagcttgatgatggcat	14	7	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr10:115486075G>C	uc001lan.2	+	6	738	c.564G>C	c.(562-564)GGG>GGC	p.G188G	CASP7_uc001lam.2_Missense_Mutation_p.G177A|CASP7_uc001lao.2_Silent_p.G221G|CASP7_uc001lap.2_Silent_p.G188G|CASP7_uc001laq.2_Silent_p.G188G|CASP7_uc010qsa.1_Silent_p.G273G|CASP7_uc010qsb.1_Silent_p.G163G	NM_033339	NP_203125	P55210	CASP7_HUMAN	caspase 7 isoform alpha	188					activation of caspase activity by cytochrome c|cellular component disassembly involved in apoptosis|induction of apoptosis by intracellular signals|proteolysis	cytosol|endoplasmic reticulum membrane|mitochondrial membrane|nucleoplasm	cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Colorectal(252;0.0946)|Breast(234;0.188)		Epithelial(162;0.012)|all cancers(201;0.014)		CTTGCCGAGGGACCGAGCTTG	0.368													27	109	---	---	---	---	PASS	C	115486075	C	C	115486075	2	2	147	1	0	0	0	0	0	0	0	1	2676	1174	41	2		2	CASP7	10	115486075	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	9322500	115486075	20048672	211	52324										
BTBD16	118663	broad.mit.edu	37	chr10	124096123	124096123	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gagcagaggccctggttgacGgcaagtggcaggagttcagg	18	8	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr10:124096123G>C	uc001lgc.1	+	15	1629	c.1378G>C	c.(1378-1380)GGC>CGC	p.G460R	BTBD16_uc001lgd.1_Missense_Mutation_p.G459R	NM_144587	NP_653188	Q32M84	BTBDG_HUMAN	BTB (POZ) domain containing 16	460										skin(1)	1		all_neural(114;0.107)|Lung NSC(174;0.175)|all_lung(145;0.222)|Breast(234;0.238)				CCTGGTTGACGGCAAGTGGCA	0.542													9	43	---	---	---	---	PASS	C	124096123	C	C	124096123	3	2	147	1	0	0	0	0	1	0	0	0	1541	1116	39	4	1432	4	BTBD16	10	124096123	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	8610048	124096123	11438624	212	52325										
HRAS	3265	broad.mit.edu	37	chr11	534285	534285	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcagcgcactcttgcccacaCcgccggcgcccaccaccacc	7	23	2	0	rs104894226		TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:534285C>A	uc001lpv.2	-	2	226	c.38G>T	c.(37-39)GGT>GTT	p.G13V	HRAS_uc010qvw.1_Missense_Mutation_p.G13V|HRAS_uc010qvx.1_Missense_Mutation_p.G13V|HRAS_uc010qvy.1_RNA	NM_005343	NP_005334	P01112	RASH_HUMAN	v-Ha-ras Harvey rat sarcoma viral oncogene	13	GTP.		G -> D (in FCSS).|G -> C (in FCSS).		activation of MAPKK activity|axon guidance|blood coagulation|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|Ras protein signal transduction|synaptic transmission	cytosol|Golgi membrane|plasma membrane	GTP binding|GTPase activity|protein C-terminus binding	p.G13R(33)|p.G13V(10)|p.G13D(9)|p.G13S(9)|p.G13C(6)|p.G13G(1)|p.G12_G13insAG(1)		urinary_tract(174)|thyroid(155)|skin(126)|upper_aerodigestive_tract(112)|soft_tissue(37)|prostate(29)|salivary_gland(24)|cervix(23)|stomach(14)|pituitary(10)|lung(9)|haematopoietic_and_lymphoid_tissue(9)|breast(6)|testis(5)|endometrium(4)|bone(3)|large_intestine(2)|oesophagus(2)|penis(2)|kidney(1)|adrenal_gland(1)|thymus(1)	749		all_cancers(49;4.37e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;7.63e-28)|Epithelial(43;7.29e-27)|OV - Ovarian serous cystadenocarcinoma(40;7.15e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Sulindac(DB00605)	CTTGCCCACACCGCCGGCGCC	0.642		6	Mis		infrequent sarcomas|rare other types	rhadomyosarcoma|ganglioneuroblastoma|bladder			Costello_syndrome	HNSCC(11;0.0054)			15	37	---	---	---	---	PASS	A	534285	A	A	534285	3	1	147	1	0	0	0	0	1	0	0	0	7348	507	18	3	614	3	HRAS	11	534285	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08		534285	134472231	213	52326										
KRTAP5-6	440023	broad.mit.edu	37	chr11	1718688	1718688	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggctccaaagggggctgtggCtcttgtgggggctccaaggg	19	9	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:1718688C>A	uc001lua.2	+	1	264	c.213C>A	c.(211-213)GGC>GGA	p.G71G		NM_001012416	NP_001012416	Q6L8G9	KRA56_HUMAN	keratin associated protein 5-6	71	6 X 4 AA repeats of C-C-X-P.					keratin filament					0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GGGGCTGTGGCTCTTGTGGGG	0.632													51	92	---	---	---	---	PASS	A	1718688	A	A	1718688	2	1	147	1	0	0	0	0	0	0	0	1	8565	784	28	3		3	KRTAP5-6	11	1718688	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	1184403	1718688	133287828	214	52327										
OR52J3	119679	broad.mit.edu	37	chr11	5068595	5068595	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cacattcttgttgccaatctCtatttgattatcccaccctc	3	14	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:5068595C>A	uc010qyv.1	+	1	840	c.840C>A	c.(838-840)CTC>CTA	p.L280L		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	280	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTGCCAATCTCTATTTGATTA	0.393													52	166	---	---	---	---	PASS	A	5068595	A	A	5068595	2	1	147	1	0	0	0	0	0	0	0	1	11122	900	32	2		2	OR52J3	11	5068595	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	3349907	5068595	129937921	215	52328										
OR52A5	390054	broad.mit.edu	37	chr11	5153381	5153381	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgtttcagacagcatttgatGagccctaaggaaggtattat	10	6	1	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:5153381G>T	uc010qyx.1	-	1	492	c.492C>A	c.(490-492)CTC>CTA	p.L164L		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	164	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		AGCATTTGATGAGCCCTAAGG	0.463													34	103	---	---	---	---	PASS	T	5153381	T	T	5153381	2	4	147	1	0	0	0	0	0	0	0	1	11110	1277	45	2		2	OR52A5	11	5153381	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	84786	5153381	129853135	216	52329										
TRIM5	85363	broad.mit.edu	37	chr11	5686040	5686040	+	Nonstop_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gctgagtgtgtaagaaggttCaagagcttggtgagcacaga	15	5	1	5			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:5686040C>G	uc001mbm.1	-	8	1738	c.1481G>C	c.(1480-1482)TGA>TCA	p.*494S	TRIM78P_uc009yer.2_Intron|TRIM5_uc001mbl.1_RNA|TRIM5_uc001mbn.2_Intron|TRIM5_uc001mbo.2_Intron	NM_033034	NP_149023	Q9C035	TRIM5_HUMAN	tripartite motif protein TRIM5 isoform alpha	494					interspecies interaction between organisms|protein trimerization|response to virus	cytoplasm|cytoplasmic mRNA processing body	ligase activity|protein binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)|Lung NSC(207;0.138)|all_lung(207;0.221)		Epithelial(150;7.21e-09)|BRCA - Breast invasive adenocarcinoma(625;0.139)		TAAGAAGGTTCAAGAGCTTGG	0.413													23	74	---	---	---	---	PASS	G	5686040	G	G	5686040	4	3	147	1	0	0	0	0	0	0	0	0	16522	837	29	2	94	2	TRIM5	11	5686040	Nonstop_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	532659	5686040	129320476	217	52330										
TRIM3	10612	broad.mit.edu	37	chr11	6479499	6479499	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggacaggatagcgtcaggctCtgggcagggatatagttttg	16	6	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:6479499C>G	uc001mdh.2	-	4	546	c.159G>C	c.(157-159)CAG>CAC	p.Q53H	TRIM3_uc001mdi.2_Missense_Mutation_p.Q53H|TRIM3_uc010raj.1_5'UTR|TRIM3_uc009yfd.2_Missense_Mutation_p.Q53H|TRIM3_uc010rak.1_Missense_Mutation_p.Q53H|TRIM3_uc001mdj.2_5'UTR	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	53	RING-type.				nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding			central_nervous_system(2)|large_intestine(1)|ovary(1)|skin(1)	5		all_lung(207;9.97e-06)|Lung NSC(207;1.74e-05)|Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;9.34e-10)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.133)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCGTCAGGCTCTGGGCAGGGA	0.547													30	71	---	---	---	---	PASS	G	6479499	G	G	6479499	3	3	147	1	0	0	0	0	1	0	0	0	16501	912	32	2	2115	2	TRIM3	11	6479499	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	793459	6479499	128527017	218	52331										
TPP1	1200	broad.mit.edu	37	chr11	6640070	6640070	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cgagagtctttccacattctGctgtctcagggcaaaggtga	11	10	3	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:6640070G>T	uc001mel.1	-	3	227	c.166C>A	c.(166-168)CAG>AAG	p.Q56K	TPP1_uc001mek.1_5'UTR|TPP1_uc010rar.1_Missense_Mutation_p.Q56K	NM_000391	NP_000382	O14773	TPP1_HUMAN	tripeptidyl-peptidase I preproprotein	56					bone resorption|cell death|lipid metabolic process|lysosome organization|nervous system development|neuromuscular process controlling balance|peptide catabolic process|protein catabolic process|proteolysis	lysosome|melanosome|soluble fraction	metal ion binding|peptide binding|protein binding|serine-type endopeptidase activity|tripeptidyl-peptidase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;3.45e-09)|BRCA - Breast invasive adenocarcinoma(625;0.131)		TCCACATTCTGCTGTCTCAGG	0.617													39	90	---	---	---	---	PASS	T	6640070	T	T	6640070	3	4	147	1	0	0	0	0	1	0	0	0	16408	1328	46	3	1569	3	TPP1	11	6640070	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	160571	6640070	128366446	219	52332										
PRDM11	56981	broad.mit.edu	37	chr11	45246120	45246120	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acccagggggagggggactgGaaggtcccccagggggtctc	19	11	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:45246120G>A	uc001myo.2	+	8	1446	c.1197G>A	c.(1195-1197)TGG>TGA	p.W399*		NM_020229	NP_064614	Q9NQV5	PRD11_HUMAN	PR domain containing 11	399										upper_aerodigestive_tract(1)	1						AGGGGGACTGGAAGGTCCCCC	0.577													71	123	---	---	---	---	PASS	A	45246120	A	A	45246120	4	1	147	1	0	0	0	0	0	1	0	0	12452	1183	41	2	1223	2	PRDM11	11	45246120	Nonsense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	38606050	45246120	89760396	220	52333										
OR4A5	81318	broad.mit.edu	37	chr11	51411845	51411845	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agtaggtgtcagtgcatgccAgttccagtaatgggtgcatg	14	7	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:51411845A>C	uc001nhi.1	-	1	551	c.551T>G	c.(550-552)CTG>CGG	p.L184R		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	184	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				AGTGCATGCCAGTTCCAGTAA	0.418													24	43	---	---	---	---	PASS	C	51411845	C	C	51411845	3	2	147	1	0	0	0	0	1	0	0	0	11043	188	7	5	400	5	OR4A5	11	51411845	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	6165725	51411845	83594671	221	52334										
OR5L2	26338	broad.mit.edu	37	chr11	55595463	55595463	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctcccatggaacaatccttTacatttattgcaggccgagt	7	11	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:55595463T>C	uc001nhy.1	+	1	769	c.769T>C	c.(769-771)TAC>CAC	p.Y257H		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	257	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				AACAATCCTTTACATTTATTG	0.502										HNSCC(27;0.073)			36	123	---	---	---	---	PASS	C	55595463	C	C	55595463	3	2	147	1	0	0	0	0	1	0	0	0	11171	1754	61	5	771	5	OR5L2	11	55595463	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	4183618	55595463	79411053	222	52335										
OR5L2	26338	broad.mit.edu	37	chr11	55595507	55595507	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggcaacagtggagatgttgaCaaagtggccaccgtgttcta	13	8	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:55595507C>A	uc001nhy.1	+	1	813	c.813C>A	c.(811-813)GAC>GAA	p.D271E		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	271	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				GAGATGTTGACAAAGTGGCCA	0.488										HNSCC(27;0.073)			23	87	---	---	---	---	PASS	A	55595507	A	A	55595507	3	1	147	1	0	0	0	0	1	0	0	0	11171	477	17	3	815	3	OR5L2	11	55595507	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	44	55595507	79411009	223	52336										
OR5T1	390155	broad.mit.edu	37	chr11	56043883	56043883	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctctacatgtggagctcacCtaactggagtgacaatttat	8	9	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:56043883C>A	uc001nio.1	+	1	769	c.769C>A	c.(769-771)CTA>ATA	p.L257I		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	257	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TGGAGCTCACCTAACTGGAGT	0.423													68	310	---	---	---	---	PASS	A	56043883	A	A	56043883	3	1	147	1	0	0	0	0	1	0	0	0	11181	680	24	3	771	3	OR5T1	11	56043883	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	448376	56043883	78962633	224	52337										
MS4A12	54860	broad.mit.edu	37	chr11	60271261	60271261	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tggtggatatgtgcatcaatGgggtagctggccaagactac	14	7	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:60271261G>C	uc001npr.2	+	5	616	c.559G>C	c.(559-561)GGG>CGG	p.G187R		NM_017716	NP_060186	Q9NXJ0	M4A12_HUMAN	membrane-spanning 4-domains, subfamily A, member	187	Extracellular (Potential).					integral to membrane	receptor activity				0						GTGCATCAATGGGGTAGCTGG	0.473													25	72	---	---	---	---	PASS	C	60271261	C	C	60271261	3	2	147	1	0	0	0	0	1	0	0	0	9856	1348	47	4	573	4	MS4A12	11	60271261	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	4227378	60271261	74735255	225	52338										
ALDH3B1	221	broad.mit.edu	37	chr11	67786655	67786655	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcagggaactgtgtggtgctGaagccatcggagattagcaa	15	7	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:67786655G>A	uc010rpy.1	+	6	527	c.411G>A	c.(409-411)CTG>CTA	p.L137L	ALDH3B1_uc001omz.2_Silent_p.L137L|ALDH3B1_uc001ona.2_Silent_p.L100L|ALDH3B1_uc001onb.2_RNA	NM_001161473	NP_001154945	P43353	AL3B1_HUMAN	aldehyde dehydrogenase 3B1 isoform a	137					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase				0					NADH(DB00157)	GTGTGGTGCTGAAGCCATCGG	0.527													8	12	---	---	---	---	PASS	A	67786655	A	A	67786655	2	1	147	1	0	0	0	0	0	0	0	1	499	1277	45	2		2	ALDH3B1	11	67786655	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	7515394	67786655	67219861	226	52339										
RELT	84957	broad.mit.edu	37	chr11	73105576	73105576	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgcccgcaccgccaccatctCcacaccgtgcagggcctggc	10	20	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:73105576C>G	uc001otv.2	+	9	1008	c.843C>G	c.(841-843)CTC>CTG	p.L281L	RELT_uc001otw.2_Silent_p.L281L|RELT_uc001otx.2_RNA	NM_152222	NP_689408	Q969Z4	TR19L_HUMAN	RELT tumor necrosis factor receptor precursor	281	Cytoplasmic (Potential).					cytoplasm|integral to membrane|plasma membrane	binding|receptor activity			upper_aerodigestive_tract(1)	1						GCCACCATCTCCACACCGTGC	0.701													78	51	---	---	---	---	PASS	G	73105576	G	G	73105576	2	3	147	1	0	0	0	0	0	0	0	1	13221	842	30	2		2	RELT	11	73105576	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	5318921	73105576	61900940	227	52340										
PRKRIR	5612	broad.mit.edu	37	chr11	76076958	76076958	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcgataatgtttatttagctGatcaggtgttttatcttcta	7	5	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:76076958G>A	uc001oxh.1	-	2	148	c.148C>T	c.(148-150)CAG>TAG	p.Q50*		NM_004705	NP_004696	O43422	P52K_HUMAN	protein-kinase, interferon-inducible double	50	THAP-type.				negative regulation of cell proliferation|response to stress|signal transduction		DNA binding|metal ion binding|protein dimerization activity			ovary(2)|pancreas(1)	3						TTATTTAGCTGATCAGGTGTT	0.368													30	107	---	---	---	---	PASS	A	76076958	A	A	76076958	4	1	147	1	0	0	0	0	0	1	0	0	12526	1299	45	2	2153	2	PRKRIR	11	76076958	Nonsense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	2971382	76076958	58929558	228	52341										
CNTN5	53942	broad.mit.edu	37	chr11	100126572	100126572	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgtcctggagcccagcagctGacaaccacagcccaatctcc	8	17	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:100126572G>A	uc001pga.2	+	17	2425	c.2086G>A	c.(2086-2088)GAC>AAC	p.D696N	CNTN5_uc001pfz.2_Missense_Mutation_p.D696N|CNTN5_uc001pgb.2_Missense_Mutation_p.D622N|CNTN5_uc010ruk.1_5'UTR	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	696	Fibronectin type-III 1.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CCCAGCAGCTGACAACCACAG	0.522													59	51	---	---	---	---	PASS	A	100126572	A	A	100126572	3	1	147	1	0	0	0	0	1	0	0	0	3644	1290	45	2	2144	2	CNTN5	11	100126572	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	24049614	100126572	34879944	229	52342										
ANGPTL5	253935	broad.mit.edu	37	chr11	101771167	101771167	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acaaaaaaattaacctagaaGatctccaaatccatccagat	3	10	1	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:101771167G>T	uc001pgl.2	-	7	1251	c.655C>A	c.(655-657)CTT>ATT	p.L219I		NM_178127	NP_835228	Q86XS5	ANGL5_HUMAN	angiopoietin-like 5 precursor	219	Fibrinogen C-terminal.				signal transduction	extracellular space	receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.043)		BRCA - Breast invasive adenocarcinoma(274;0.0328)		TAACCTAGAAGATCTCCAAAT	0.348													29	30	---	---	---	---	PASS	T	101771167	T	T	101771167	3	4	147	1	0	0	0	0	1	0	0	0	617	942	33	2	523	2	ANGPTL5	11	101771167	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	1644595	101771167	33235349	230	52343										
BCL9L	283149	broad.mit.edu	37	chr11	118769687	118769687	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cgttggggtgggccggatcaCctcgctcagctcggggtcgt	17	12	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:118769687C>A	uc001pug.2	-	8	4902	c.3937G>T	c.(3937-3939)GTG>TTG	p.V1313L	BCL9L_uc009zal.2_Missense_Mutation_p.V1308L	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	1313	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		GGCCGGATCACCTCGCTCAGC	0.642													25	59	---	---	---	---	PASS	A	118769687	A	A	118769687	3	1	147	1	0	0	0	0	1	0	0	0	1382	507	18	3	566	3	BCL9L	11	118769687	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	16998520	118769687	16236829	231	52344										
ABCG4	64137	broad.mit.edu	37	chr11	119020852	119020852	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctacccaagcgctcagccgtGgacatcgagttcgtggagct	12	13	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr11:119020852G>A	uc001pvs.2	+	2	513	c.177G>A	c.(175-177)GTG>GTA	p.V59V	ABCG4_uc009zar.2_Silent_p.V59V	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	59	Cytoplasmic (Potential).				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		GCTCAGCCGTGGACATCGAGT	0.642													4	158	---	---	---	---	PASS	A	119020852	A	A	119020852	2	1	147	1	0	0	0	0	0	0	0	1	70	1335	47	3		3	ABCG4	11	119020852	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	251165	119020852	15985664	232	52345										
WNK1	65125	broad.mit.edu	37	chr12	863246	863246	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agtgtcccagcctagccttgTggggagcaaagaggagccgc	15	11	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:863246T>A	uc001qio.3	+	1	1022	c.515T>A	c.(514-516)GTG>GAG	p.V172E	WNK1_uc001qin.2_Missense_Mutation_p.V172E|WNK1_uc001qip.3_Missense_Mutation_p.V172E	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	172					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CCTAGCCTTGTGGGGAGCAAA	0.697													24	21	---	---	---	---	PASS	A	863246	A	A	863246	3	1	147	1	0	0	0	0	1	0	0	0	17374	1696	59	5	517	5	WNK1	12	863246	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08		863246	132988649	233	52346										
KCNA1	3736	broad.mit.edu	37	chr12	5020854	5020854	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agtccggcggccgcctgcggAggccggtcaacgtgcccctg	16	16	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:5020854A>T	uc001qnh.2	+	2	1415	c.310A>T	c.(310-312)AGG>TGG	p.R104W		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	104					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CCGCCTGCGGAGGCCGGTCAA	0.617													16	64	---	---	---	---	PASS	T	5020854	T	T	5020854	3	4	147	1	0	0	0	0	1	0	0	0	8001	295	11	5	312	5	KCNA1	12	5020854	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	4157608	5020854	128831041	234	52347										
CD163L1	283316	broad.mit.edu	37	chr12	7585977	7585977	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gttagactcttaccataacaGttcacaccaacatcttctcc	3	14	4	1	rs117072358	byFrequency	TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:7585977G>T	uc001qsy.2	-	3	464	c.438C>A	c.(436-438)AAC>AAA	p.N146K	CD163L1_uc010sge.1_Missense_Mutation_p.N146K	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	146	SRCR 1.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						TACCATAACAGTTCACACCAA	0.428													66	152	---	---	---	---	PASS	T	7585977	T	T	7585977	3	4	147	1	0	0	0	0	1	0	0	0	2968	1020	36	3	3991	3	CD163L1	12	7585977	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	2565123	7585977	126265918	235	52348										
TAS2R42	353164	broad.mit.edu	37	chr12	11339133	11339133	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcaaaaatcagtaagaacaaAgacaatataagaagcataac	5	6	2	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:11339133A>G	uc001qzr.1	-	1	411	c.411T>C	c.(409-411)TCT>TCC	p.S137S	PRB4_uc001qzf.1_Intron	NM_181429	NP_852094	Q7RTR8	T2R42_HUMAN	taste receptor, type 2, member 42	137	Helical; Name=3; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.0455)			GTAAGAACAAAGACAATATAA	0.328													11	48	---	---	---	---	PASS	G	11339133	G	G	11339133	2	3	147	1	0	0	0	0	0	0	0	1	15577	59	3	5		5	TAS2R42	12	11339133	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08	3753156	11339133	122512762	236	52349										
PLEKHA5	54477	broad.mit.edu	37	chr12	19496351	19496351	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gagtaaacataagcagcaaaGaggtactacagaaataggta	10	5	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:19496351G>C	uc001reb.2	+	17	2422	c.2336G>C	c.(2335-2337)AGA>ACA	p.R779T	PLEKHA5_uc010sie.1_Missense_Mutation_p.R882T|PLEKHA5_uc001rea.2_Missense_Mutation_p.R837T|PLEKHA5_uc009zin.2_Missense_Mutation_p.R537T|PLEKHA5_uc010sif.1_Missense_Mutation_p.R710T|PLEKHA5_uc010sig.1_Missense_Mutation_p.R698T|PLEKHA5_uc010sih.1_Missense_Mutation_p.R671T|PLEKHA5_uc001rec.1_Missense_Mutation_p.R525T|PLEKHA5_uc009zio.2_Missense_Mutation_p.R101T	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	779							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					AAGCAGCAAAGAGGTACTACA	0.318													11	60	---	---	---	---	PASS	C	19496351	C	C	19496351	3	2	147	1	0	0	0	0	1	0	0	0	12059	942	33	2	2527	2	PLEKHA5	12	19496351	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	8157218	19496351	114355544	237	52350										
LST-3TM12	338821	broad.mit.edu	37	chr12	21196375	21196375	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cttctataccattctttttcTtgcctctaaatccaaataaa	1	11	4	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:21196375T>A	uc010sin.1	+	6	694	c.694T>A	c.(694-696)TTG>ATG	p.L232M	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Missense_Mutation_p.L279M	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	232						membrane	transporter activity				0						ATTCTTTTTCTTGCCTCTAAA	0.358													55	156	---	---	---	---	PASS	A	21196375	A	A	21196375	3	1	147	1	0	0	0	0	1	0	0	0	9066	1606	56	5	716	5	LST-3TM12	12	21196375	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	1700024	21196375	112655520	238	52351										
SLCO1B1	10599	broad.mit.edu	37	chr12	21331541	21331541	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gaatctgggtcatacatgtgGatatatgtgttcatgggtaa	12	4	3	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:21331541G>C	uc001req.3	+	6	617	c.513G>C	c.(511-513)TGG>TGC	p.W171C		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	171	Helical; Name=4; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	CATACATGTGGATATATGTGT	0.338													20	213	---	---	---	---	PASS	C	21331541	C	C	21331541	3	2	147	1	0	0	0	0	1	0	0	0	14723	1183	41	2	531	2	SLCO1B1	12	21331541	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	135166	21331541	112520354	239	52352										
GYS2	2998	broad.mit.edu	37	chr12	21733447	21733447	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tttgtctgaatcacagtataGatgcctccaactgttaaaag	7	8	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:21733447G>C	uc001rfb.2	-	2	387	c.132C>G	c.(130-132)ATC>ATG	p.I44M		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	44					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						TCACAGTATAGATGCCTCCAA	0.333													5	324	---	---	---	---	PASS	C	21733447	C	C	21733447	3	2	147	1	0	0	0	0	1	0	0	0	6913	932	33	2	2039	2	GYS2	12	21733447	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	401906	21733447	112118448	240	52353										
ABCC9	10060	broad.mit.edu	37	chr12	22070004	22070004	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	taaccaattttattgtttttGtaataaaggccattacccaa	4	7	0	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:22070004G>A	uc001rfi.1	-	4	460	c.440C>T	c.(439-441)ACA>ATA	p.T147I	ABCC9_uc001rfh.2_Missense_Mutation_p.T147I|ABCC9_uc001rfj.1_Missense_Mutation_p.T147I	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	147	Helical; Name=4; (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TATTGTTTTTGTAATAAAGGC	0.373													152	185	---	---	---	---	PASS	A	22070004	A	A	22070004	3	1	147	1	0	0	0	0	1	0	0	0	59	1377	48	3	4491	3	ABCC9	12	22070004	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	336557	22070004	111781891	241	52354										
CACNB3	784	broad.mit.edu	37	chr12	49221640	49221640	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gagcacaaccacagtgaccgGaactggcagcgcaaccggcc	12	15	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:49221640G>A	uc001rsl.1	+	13	1614	c.1413G>A	c.(1411-1413)CGG>CGA	p.R471R	CACNB3_uc010sly.1_Silent_p.R458R|CACNB3_uc010slz.1_Silent_p.R470R|CACNB3_uc001rsk.1_Silent_p.R318R	NM_000725	NP_000716	P54284	CACB3_HUMAN	calcium channel, voltage-dependent, beta 3	471					axon guidance|membrane depolarization|synaptic transmission	cytosol|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0					Verapamil(DB00661)	ACAGTGACCGGAACTGGCAGC	0.657													20	77	---	---	---	---	PASS	A	49221640	A	A	49221640	2	1	147	1	0	0	0	0	0	0	0	1	2554	1161	41	2		2	CACNB3	12	49221640	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	27151636	49221640	84630255	242	52355										
TMPRSS12	283471	broad.mit.edu	37	chr12	51252702	51252702	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	atcttatgtaaatgatattgCactttttcacttaaaaaaag	4	5	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:51252702C>T	uc001rwx.3	+	3	565	c.518C>T	c.(517-519)GCA>GTA	p.A173V	TMPRSS12_uc001rwy.2_Missense_Mutation_p.A173V	NM_182559	NP_872365	Q86WS5	TMPSC_HUMAN	transmembrane protease, serine 12 precursor	173	Peptidase S1.|Extracellular (Potential).				proteolysis	integral to membrane	serine-type endopeptidase activity				0						AATGATATTGCACTTTTTCAC	0.313													8	17	---	---	---	---	PASS	T	51252702	T	T	51252702	3	4	147	1	0	0	0	0	1	0	0	0	16241	710	25	3	528	3	TMPRSS12	12	51252702	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	2031062	51252702	82599193	243	52356										
KRT82	3888	broad.mit.edu	37	chr12	52794402	52794402	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcatcaggaaggctgtgtccAcgtcctgcagcagagcaggg	14	11	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:52794402A>G	uc001sai.1	-	4	801	c.686T>C	c.(685-687)GTG>GCG	p.V229A		NM_033033	NP_149022	Q9NSB4	KRT82_HUMAN	keratin 82	229	Coil 1B.|Rod.					keratin filament	protein binding|structural constituent of epidermis			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.193)		GGCTGTGTCCACGTCCTGCAG	0.602													47	56	---	---	---	---	PASS	G	52794402	G	G	52794402	3	3	147	1	0	0	0	0	1	0	0	0	8496	159	6	5	879	5	KRT82	12	52794402	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	1541700	52794402	81057493	244	52357										
TENC1	23371	broad.mit.edu	37	chr12	53448142	53448142	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcttggccgccgccttccccGcgcggcccgatgaacagcgg	13	18	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:53448142G>C	uc001sbp.2	+	7	574	c.439G>C	c.(439-441)GCG>CCG	p.A147P	uc001sbk.1_RNA|TENC1_uc001sbl.2_Missense_Mutation_p.A23P|TENC1_uc001sbm.2_Missense_Mutation_p.A157P|TENC1_uc001sbn.2_Missense_Mutation_p.A157P|TENC1_uc001sbo.1_Missense_Mutation_p.A147P	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	147	Phosphatase tensin-type.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						CGCCTTCCCCGCGCGGCCCGA	0.692													31	47	---	---	---	---	PASS	C	53448142	C	C	53448142	3	2	147	1	0	0	0	0	1	0	0	0	15755	1087	38	4	574	4	TENC1	12	53448142	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	653740	53448142	80403753	245	52358										
GPR182	11318	broad.mit.edu	37	chr12	57390016	57390016	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtagtccattaccttcctaaGgaccagaccaaggcgggcac	10	13	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:57390016G>A	uc001smk.2	+	2	1117	c.1023G>A	c.(1021-1023)AAG>AAA	p.K341K	RDH16_uc010sqx.1_Intron	NM_007264	NP_009195	O15218	GP182_HUMAN	G protein-coupled receptor 182	341	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(1)	1						ACCTTCCTAAGGACCAGACCA	0.567													59	239	---	---	---	---	PASS	A	57390016	A	A	57390016	2	1	147	1	0	0	0	0	0	0	0	1	6677	991	35	3		3	GPR182	12	57390016	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	3941874	57390016	76461879	246	52359										
SRGAP1	57522	broad.mit.edu	37	chr12	64521760	64521760	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctcagttgacctagggtcccCaagccttgccagtcaccccc	8	18	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:64521760C>G	uc010ssp.1	+	21	2716	c.2660C>G	c.(2659-2661)CCA>CGA	p.P887R	SRGAP1_uc001srv.2_Missense_Mutation_p.P824R	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	887					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		CTAGGGTCCCCAAGCCTTGCC	0.642													72	94	---	---	---	---	PASS	G	64521760	G	G	64521760	3	3	147	1	0	0	0	0	1	0	0	0	15144	594	21	4	2742	4	SRGAP1	12	64521760	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	7131744	64521760	69330135	247	52360										
TMCC3	57458	broad.mit.edu	37	chr12	94975638	94975638	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcgaacattcatcatcactgCcatacttgggtttgttcacg	7	11	4	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:94975638C>A	uc001tdj.2	-	2	873	c.755G>T	c.(754-756)GGC>GTC	p.G252V	TMCC3_uc001tdi.2_Missense_Mutation_p.G221V	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	252						integral to membrane				ovary(1)|skin(1)	2						ATCATCACTGCCATACTTGGG	0.562													35	129	---	---	---	---	PASS	A	94975638	A	A	94975638	3	1	147	1	0	0	0	0	1	0	0	0	15991	739	26	3	690	3	TMCC3	12	94975638	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	30453878	94975638	38876257	248	52361										
ANKS1B	56899	broad.mit.edu	37	chr12	100169348	100169348	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttggtcttttgggaaggagaCtcaacaggagatgaaatgtg	14	4	2	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:100169348C>A	uc001tge.1	-	7	1356	c.939G>T	c.(937-939)GAG>GAT	p.E313D	ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Missense_Mutation_p.E279D	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	313						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		GGGAAGGAGACTCAACAGGAG	0.398													19	73	---	---	---	---	PASS	A	100169348	A	A	100169348	3	1	147	1	0	0	0	0	1	0	0	0	689	564	20	3	3175	3	ANKS1B	12	100169348	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	5193710	100169348	33682547	249	52362										
ANO4	121601	broad.mit.edu	37	chr12	101295607	101295607	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cactaatggaaaaaccaaagTcttccacccaggtgatgcat	7	11	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:101295607T>A	uc010svm.1	+	2	616	c.44T>A	c.(43-45)GTC>GAC	p.V15D	ANO4_uc010svl.1_RNA|ANO4_uc001thw.2_Missense_Mutation_p.V15D|ANO4_uc001thx.2_Missense_Mutation_p.V15D	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	15	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						AAAACCAAAGTCTTCCACCCA	0.468										HNSCC(74;0.22)			31	123	---	---	---	---	PASS	A	101295607	A	A	101295607	3	1	147	1	0	0	0	0	1	0	0	0	699	1667	58	5	46	5	ANO4	12	101295607	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	1126259	101295607	32556288	250	52363										
UTP20	27340	broad.mit.edu	37	chr12	101693755	101693755	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctcccccttggacagacctCttgagaaagagaaggtgata	10	10	2	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:101693755C>G	uc001tia.1	+	14	1747	c.1591C>G	c.(1591-1593)CTT>GTT	p.L531V		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	531					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						GGACAGACCTCTTGAGAAAGA	0.428													204	298	---	---	---	---	PASS	G	101693755	G	G	101693755	3	3	147	1	0	0	0	0	1	0	0	0	17096	913	32	2	1645	2	UTP20	12	101693755	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	398148	101693755	32158140	251	52364										
SPIC	121599	broad.mit.edu	37	chr12	101870684	101870684	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtcaatttattaatgaaataTggtaagctgacattttaata	6	3	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:101870684T>A	uc001tid.2	+	2	161	c.2T>A	c.(1-3)ATG>AAG	p.M1K	SPIC_uc009zua.2_5'Flank|SPIC_uc010svp.1_5'Flank	NM_152323	NP_689536	Q8N5J4	SPIC_HUMAN	Spi-C transcription factor (Spi-1/PU.1 related)	1						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						TAATGAAATATGGTAAGCTGA	0.259													8	32	---	---	---	---	PASS	A	101870684	A	A	101870684	3	1	147	1	0	0	0	0	1	0	0	0	15050	1479	51	5		5	SPIC	12	101870684	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	176929	101870684	31981211	252	52365										
MYO1H	283446	broad.mit.edu	37	chr12	109835579	109835579	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tccggaatgacaactccagcAgatttgggaaatacatggat	10	8	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:109835579A>C	uc010sxn.1	+	4	484	c.484A>C	c.(484-486)AGA>CGA	p.R162R		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						CAACTCCAGCAGATTTGGGAA	0.343													9	42	---	---	---	---	PASS	C	109835579	C	C	109835579	2	2	147	1	0	0	0	0	0	0	0	1	10075	180	7	5		5	MYO1H	12	109835579	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08	7964895	109835579	24016316	253	52366										
C12orf76	400073	broad.mit.edu	37	chr12	110480255	110480255	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcaggatgctgaaaatggttCccatcaacactgcaaaggga	11	9	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:110480255C>T	uc001tqd.1	-	5	674	c.309G>A	c.(307-309)GGG>GGA	p.G103G	C12orf76_uc001tqe.1_RNA|C12orf76_uc010sxx.1_RNA|C12orf76_uc001tqb.1_RNA|C12orf76_uc001tqc.1_Missense_Mutation_p.G48E	NM_207435	NP_997318	Q8N812	CL076_HUMAN	hypothetical protein LOC400073	103										large_intestine(1)	1						GAAAATGGTTCCCATCAACAC	0.383													22	69	---	---	---	---	PASS	T	110480255	T	T	110480255	2	4	147	1	0	0	0	0	0	0	0	1	1715	842	30	2		2	C12orf76	12	110480255	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	644676	110480255	23371640	254	52367										
P2RX4	5025	broad.mit.edu	37	chr12	121670841	121670841	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	atagtcctctactgcatgaaGaaaagactctactatcggga	8	9	2	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:121670841G>C	uc001tzr.2	+	11	1390	c.1086G>C	c.(1084-1086)AAG>AAC	p.K362N	P2RX4_uc009zxc.2_Missense_Mutation_p.K335N|P2RX4_uc001tzs.2_Missense_Mutation_p.K378N|P2RX4_uc009zxb.2_RNA|P2RX4_uc010szt.1_Missense_Mutation_p.K261N	NM_002560	NP_002551	Q99571	P2RX4_HUMAN	purinergic receptor P2X4	362	Cytoplasmic (Potential).				endothelial cell activation|negative regulation of cardiac muscle hypertrophy|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|regulation of apoptosis|regulation of blood pressure|regulation of sodium ion transport|relaxation of cardiac muscle|response to ATP|response to fluid shear stress|sensory perception of pain|tissue homeostasis	cell junction|perinuclear region of cytoplasm	cadherin binding|copper ion binding|extracellular ATP-gated cation channel activity|protein homodimerization activity|purinergic nucleotide receptor activity|receptor binding|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ACTGCATGAAGAAAAGACTCT	0.502													189	253	---	---	---	---	PASS	C	121670841	C	C	121670841	3	2	147	1	0	0	0	0	1	0	0	0	11342	933	33	2	1128	2	P2RX4	12	121670841	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	11190586	121670841	12181054	255	52368										
ORAI1	84876	broad.mit.edu	37	chr12	122079130	122079131	+	Frame_Shift_Ins	INS	-	C	C													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctcaactcggtcaaggagtINSccccccatgagcgcatgcac							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:122079130_122079131insC	uc010szz.1	+	3	680_681	c.487_488insC	c.(487-489)TCCfs	p.S163fs		NM_032790	NP_116179	Q96D31	CRCM1_HUMAN	calcium release-activated calcium channel	163	Cytoplasmic (Potential).				platelet activation|positive regulation of calcium ion transport	integral to plasma membrane	protein binding|store-operated calcium channel activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000415)|Epithelial(86;0.00148)		GGTCAAGGAGTCCCCCCATGAG	0.619													55	32	---	---	---	---		C	122079131	C	C	122079130	7	5	147	1	0	1	1	0	0	0	0	0	11257	1667	58	0	499	0	ORAI1	12	122079130	Frame_Shift_Ins	INS	-	TCGA-66-2758-01A-02D-1522-08	408289	122079130	11772765	256	52369										
PIWIL1	9271	broad.mit.edu	37	chr12	130831075	130831075	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cacgaagatctaattggaaaGtgtcatgcttttgatggaac	10	6	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr12:130831075G>A	uc001uik.2	+	5	567	c.477G>A	c.(475-477)AAG>AAA	p.K159K	PIWIL1_uc001uij.1_Silent_p.K159K	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	159					gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		TAATTGGAAAGTGTCATGCTT	0.393													83	51	---	---	---	---	PASS	A	130831075	A	A	130831075	2	1	147	1	0	0	0	0	0	0	0	1	11957	1020	36	3		3	PIWIL1	12	130831075	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	8751945	130831075	3020820	257	52370										
MRP63	78988	broad.mit.edu	37	chr13	21751154	21751154	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtgtcgttgcgcgccaagcaGaacatgatccgccgcctgga	13	13	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr13:21751154G>C	uc001unw.2	+	2	589	c.99G>C	c.(97-99)CAG>CAC	p.Q33H	SKA3_uc001unt.2_5'Flank|SKA3_uc001unv.2_5'Flank|SKA3_uc001unu.2_5'Flank	NM_024026	NP_076931	Q9BQC6	RT63_HUMAN	mitochondrial ribosomal protein 63	33											0		all_cancers(29;2.76e-20)|all_epithelial(30;2.97e-18)|all_lung(29;4.58e-16)|Lung SC(185;0.0262)|Breast(139;0.147)		all cancers(112;9.43e-05)|Epithelial(112;0.000285)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|Lung(94;0.0932)		GCGCCAAGCAGAACATGATCC	0.682													4	59	---	---	---	---	PASS	C	21751154	C	C	21751154	3	2	147	1	0	0	0	0	1	0	0	0	9773	933	33	2	101	2	MRP63	13	21751154	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08		21751154	93418724	258	52371										
SHISA2	387914	broad.mit.edu	37	chr13	26621140	26621140	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cagcaacaggctgccaccagGgaccccaagatgataaaggc	11	13	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr13:26621140G>T	uc001uqm.1	-	2	484	c.399C>A	c.(397-399)TCC>TCA	p.S133S		NM_001007538	NP_001007539	Q6UWI4	SHSA2_HUMAN	shisa homolog 2 precursor	133	Cytoplasmic (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2						CTGCCACCAGGGACCCCAAGA	0.552													28	29	---	---	---	---	PASS	T	26621140	T	T	26621140	2	4	147	1	0	0	0	0	0	0	0	1	14280	1219	43	3		3	SHISA2	13	26621140	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	4869986	26621140	88548738	259	52372										
MRPS31	10240	broad.mit.edu	37	chr13	41341022	41341022	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttcatgcccttaataatgccTaacaagtcttttttcgtatt	4	9	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr13:41341022T>G	uc001uxm.3	-	2	375	c.300A>C	c.(298-300)TTA>TTC	p.L100F		NM_005830	NP_005821	Q92665	RT31_HUMAN	mitochondrial ribosomal protein S31 precursor	100						mitochondrion|ribosome	protein domain specific binding				0		Lung NSC(96;3.55e-06)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;1.52e-08)|Epithelial(112;7.63e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000192)|GBM - Glioblastoma multiforme(144;0.00233)|BRCA - Breast invasive adenocarcinoma(63;0.0706)		TAATAATGCCTAACAAGTCTT	0.398													80	95	---	---	---	---	PASS	G	41341022	G	G	41341022	3	3	147	1	0	0	0	0	1	0	0	0	9841	1519	53	5	911	5	MRPS31	13	41341022	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	14719882	41341022	73828856	260	52373										
MLNR	2862	broad.mit.edu	37	chr13	49796434	49796434	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ccacagaagcagggacactgCgggggaagttgcaggggaca	17	9	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr13:49796434C>T	uc010tgj.1	+	2	1160	c.1160C>T	c.(1159-1161)GCG>GTG	p.A387V		NM_001507	NP_001498	O43193	MTLR_HUMAN	motilin receptor	387	Cytoplasmic (Potential).				digestion	integral to plasma membrane	growth hormone-releasing hormone receptor activity				0		all_lung(13;8.31e-06)|Lung NSC(96;0.000251)|Breast(56;0.0008)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;6.1e-09)		AGGGACACTGCGGGGGAAGTT	0.577													44	37	---	---	---	---	PASS	T	49796434	T	T	49796434	3	4	147	1	0	0	0	0	1	0	0	0	9632	768	27	1	1166	1	MLNR	13	49796434	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	8455412	49796434	65373444	261	52374										
MYCBP2	23077	broad.mit.edu	37	chr13	77724913	77724913	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcgagcttccttcactatcaTtggttcatatgaaacatcta	5	10	4	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr13:77724913T>C	uc001vkf.2	-	48	7064	c.6973A>G	c.(6973-6975)ATG>GTG	p.M2325V	MYCBP2_uc010aev.2_Missense_Mutation_p.M1729V	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2325	Filamin.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TTCACTATCATTGGTTCATAT	0.358													134	94	---	---	---	---	PASS	C	77724913	C	C	77724913	3	2	147	1	0	0	0	0	1	0	0	0	10018	1493	52	5	7097	5	MYCBP2	13	77724913	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	27928479	77724913	37444965	262	52375										
SLITRK5	26050	broad.mit.edu	37	chr13	88329946	88329946	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aaaccccatctaccgctcccGagagggcaactccgtagagg	10	15	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr13:88329946G>A	uc001vln.2	+	2	2522	c.2303G>A	c.(2302-2304)CGA>CAA	p.R768Q	SLITRK5_uc010tic.1_Missense_Mutation_p.R527Q	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	768	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					TACCGCTCCCGAGAGGGCAAC	0.522													21	59	---	---	---	---	PASS	A	88329946	A	A	88329946	3	1	147	1	0	0	0	0	1	0	0	0	14746	1058	37	2	2305	2	SLITRK5	13	88329946	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	10605033	88329946	26839932	263	52376										
RAP2A	5911	broad.mit.edu	37	chr13	98086847	98086847	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	accatcgaggacttctaccgCaaggagatcgaggtggattc	12	10	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr13:98086847C>T	uc001vnd.2	+	1	373	c.123C>T	c.(121-123)CGC>CGT	p.R41R		NM_021033	NP_066361	P10114	RAP2A_HUMAN	RAP2A, member of RAS oncogene family precursor	41					actin cytoskeleton reorganization|cellular protein localization|establishment of protein localization|positive regulation of protein autophosphorylation|Rap protein signal transduction|regulation of dendrite morphogenesis|regulation of JNK cascade	recycling endosome membrane	GTP binding|GTPase activity|protein binding			central_nervous_system(1)	1	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.166)			ACTTCTACCGCAAGGAGATCG	0.622													24	93	---	---	---	---	PASS	T	98086847	T	T	98086847	2	4	147	1	0	0	0	0	0	0	0	1	13040	697	25	3		3	RAP2A	13	98086847	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	9756901	98086847	17083031	264	52377										
TEP1	7011	broad.mit.edu	37	chr14	20864868	20864868	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acaggttccgaagcatggccAtgaagggaagcttcccattt	11	10	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr14:20864868A>T	uc001vxe.2	-	10	1611	c.1571T>A	c.(1570-1572)ATG>AAG	p.M524K	TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.M416K	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	524	TROVE.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		AAGCATGGCCATGAAGGGAAG	0.423													10	25	---	---	---	---	PASS	T	20864868	T	T	20864868	3	4	147	1	0	0	0	0	1	0	0	0	15756	217	8	5	6496	5	TEP1	14	20864868	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08		20864868	86484672	265	52378										
FLJ10357	55701	broad.mit.edu	37	chr14	21542484	21542484	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcatggttggacatcagccaAgtacactgcccccagaactg	9	13	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr14:21542484A>T	uc001vzp.2	+	3	624	c.595A>T	c.(595-597)AGT>TGT	p.S199C	FLJ10357_uc001vzn.1_Missense_Mutation_p.S199C|FLJ10357_uc001vzo.1_Intron|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_Translation_Start_Site	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	199					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		ACATCAGCCAAGTACACTGCC	0.622													14	35	---	---	---	---	PASS	T	21542484	T	T	21542484	3	4	147	1	0	0	0	0	1	0	0	0	5926	72	3	5	605	5	FLJ10357	14	21542484	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	677616	21542484	85807056	266	52379										
CHD8	57680	broad.mit.edu	37	chr14	21883988	21883988	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agttacatccacctcttcttCttcttcatcatctgtgatct	3	13	8	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr14:21883988C>T	uc001was.1	-	6	1052	c.958G>A	c.(958-960)GAA>AAA	p.E320K	CHD8_uc001war.1_Missense_Mutation_p.E216K	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	599					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		ACCTCTTCTTCTTCTTCATCA	0.433													45	120	---	---	---	---	PASS	T	21883988	T	T	21883988	3	4	147	1	0	0	0	0	1	0	0	0	3331	922	32	2	6082	2	CHD8	14	21883988	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	341504	21883988	85465552	267	52380										
MYH6	4624	broad.mit.edu	37	chr14	23868085	23868085	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tccacagtgccggcgtagtgGatcagggagaagtgggcttc	16	9	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr14:23868085G>C	uc001wjv.2	-	15	1810	c.1743C>G	c.(1741-1743)ATC>ATG	p.I581M		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	581	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CGGCGTAGTGGATCAGGGAGA	0.547													29	92	---	---	---	---	PASS	C	23868085	C	C	23868085	3	2	147	1	0	0	0	0	1	0	0	0	10038	1164	41	2	4176	2	MYH6	14	23868085	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	1984097	23868085	83481455	268	52381										
SRP54	6729	broad.mit.edu	37	chr14	35482666	35482666	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cagtaatagtgacaaaacttGatggccatgcaaaaggaggt	11	6	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr14:35482666G>C	uc001wso.2	+	9	1102	c.751G>C	c.(751-753)GAT>CAT	p.D251H	SRP54_uc010tpp.1_Missense_Mutation_p.D202H|SRP54_uc010tpq.1_Missense_Mutation_p.D187H	NM_003136	NP_003127	P61011	SRP54_HUMAN	signal recognition particle 54kDa isoform 1	251	GTP (By similarity).|G-domain.				GTP catabolic process|response to drug|SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition|SRP-dependent cotranslational protein targeting to membrane, translocation	cytosol|nuclear speck|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|drug binding|endoplasmic reticulum signal peptide binding|GDP binding|GTP binding|nucleoside-triphosphatase activity|ribonucleoprotein binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;2.48e-05)|Lung(238;3.13e-05)|Epithelial(34;0.0314)|all cancers(34;0.0797)|BRCA - Breast invasive adenocarcinoma(188;0.243)	GBM - Glioblastoma multiforme(112;0.0396)		GACAAAACTTGATGGCCATGC	0.433													35	112	---	---	---	---	PASS	C	35482666	C	C	35482666	3	2	147	1	0	0	0	0	1	0	0	0	15154	1290	45	2	781	2	SRP54	14	35482666	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	11614581	35482666	71866874	269	52382										
MGAT2	4247	broad.mit.edu	37	chr14	50089211	50089211	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acaaacaatacatgtttccaGaaactctaactatcagtgaa	4	9	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr14:50089211G>C	uc001wwr.2	+	1	1723	c.1225G>C	c.(1225-1227)GAA>CAA	p.E409Q	SDCCAG1_uc010anj.1_Intron|RPL36AL_uc001wwq.1_5'Flank	NM_002408	NP_002399	Q10469	MGAT2_HUMAN	mannosyl (alpha-1,6-)-glycoprotein	409	Lumenal (Potential).				oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	alpha-1,6-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity				0	all_epithelial(31;0.0021)|Breast(41;0.0124)					CATGTTTCCAGAAACTCTAAC	0.403													5	90	---	---	---	---	PASS	C	50089211	C	C	50089211	3	2	147	1	0	0	0	0	1	0	0	0	9543	943	33	2	1227	2	MGAT2	14	50089211	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	14606545	50089211	57260329	270	52383										
NIN	51199	broad.mit.edu	37	chr14	51227052	51227052	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgcagctgaccacggtttcgTccagctgcttttcataatgg	10	11	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr14:51227052T>A	uc001wym.2	-	17	2113	c.1922A>T	c.(1921-1923)GAC>GTC	p.D641V	NIN_uc001wyi.2_Missense_Mutation_p.D641V|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.D641V|NIN_uc010tqp.1_Missense_Mutation_p.D647V|NIN_uc001wyo.2_Missense_Mutation_p.D641V	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	641	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CACGGTTTCGTCCAGCTGCTT	0.458			T	PDGFRB	MPD								33	90	---	---	---	---	PASS	A	51227052	A	A	51227052	3	1	147	1	0	0	0	0	1	0	0	0	10417	1667	58	5	4687	5	NIN	14	51227052	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	1137841	51227052	56122488	271	52384										
PIGH	5283	broad.mit.edu	37	chr14	68059354	68059354	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aaagtattctatgctcacctGgaagacgggtactacttggg	11	8	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr14:68059354G>A	uc001xjr.1	-	3	569	c.472C>T	c.(472-474)CAG>TAG	p.Q158*		NM_004569	NP_004560	Q14442	PIGH_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	158					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|mitochondrion|nucleolus	phosphatidylinositol N-acetylglucosaminyltransferase activity			ovary(1)	1				all cancers(60;0.000592)|OV - Ovarian serous cystadenocarcinoma(108;0.00395)|BRCA - Breast invasive adenocarcinoma(234;0.00933)		ATGCTCACCTGGAAGACGGGT	0.383													30	66	---	---	---	---	PASS	A	68059354	A	A	68059354	4	1	147	1	0	0	0	0	0	1	0	0	11889	1357	47	3	102	3	PIGH	14	68059354	Nonsense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	16832302	68059354	39290186	272	52385										
MLH3	27030	broad.mit.edu	37	chr14	75514890	75514890	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aagagctatgttccaggaaaGattttttatgtttctcattt	7	5	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr14:75514890G>T	uc001xrd.1	-	2	1685	c.1469C>A	c.(1468-1470)TCT>TAT	p.S490Y	MLH3_uc001xre.1_Missense_Mutation_p.S490Y|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	490					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		TTCCAGGAAAGATTTTTTATG	0.378								MMR					109	94	---	---	---	---	PASS	T	75514890	T	T	75514890	3	4	147	1	0	0	0	0	1	0	0	0	9618	942	33	2	2940	2	MLH3	14	75514890	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	7455536	75514890	31834650	273	52386										
ISM2	145501	broad.mit.edu	37	chr14	77945036	77945036	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctgcagggagaccagggactCcactccttctgaggctcata	11	13	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr14:77945036C>G	uc001xtz.2	-	5	1070	c.996G>C	c.(994-996)TGG>TGC	p.W332C	ISM2_uc001xua.2_Missense_Mutation_p.G217A|ISM2_uc001xty.2_Missense_Mutation_p.W244C|ISM2_uc010tvl.1_Missense_Mutation_p.W251C	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	332	TSP type-1.					extracellular region				skin(1)	1						ACCAGGGACTCCACTCCTTCT	0.473													26	71	---	---	---	---	PASS	G	77945036	G	G	77945036	3	3	147	1	0	0	0	0	1	0	0	0	7861	856	30	2	731	2	ISM2	14	77945036	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	2430146	77945036	29404504	274	52387										
RIN3	79890	broad.mit.edu	37	chr14	93118071	93118071	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgcctgtgaaatcgagctgtCggtaggaaatgaccgcctgt	13	9	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr14:93118071C>T	uc001yap.2	+	6	829	c.677C>T	c.(676-678)TCG>TTG	p.S226L	RIN3_uc010auk.2_5'UTR|RIN3_uc001yaq.2_Missense_Mutation_p.S151L|RIN3_uc001yar.1_5'UTR|RIN3_uc001yas.1_5'UTR	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	226					endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				ATCGAGCTGTCGGTAGGAAAT	0.602													9	90	---	---	---	---	PASS	T	93118071	T	T	93118071	3	4	147	1	0	0	0	0	1	0	0	0	13373	893	31	2	699	2	RIN3	14	93118071	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	15173035	93118071	14231469	275	52388										
BDKRB1	623	broad.mit.edu	37	chr14	96730239	96730239	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggcaactgaacgtggcagaaAtctacctggccaacctggca	11	12	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr14:96730239A>G	uc001yfh.2	+	3	428	c.220A>G	c.(220-222)ATC>GTC	p.I74V	BDKRB1_uc010avn.2_Missense_Mutation_p.I74V	NM_000710	NP_000701	P46663	BKRB1_HUMAN	bradykinin receptor B1	74	Helical; Name=2; (Potential).				elevation of cytosolic calcium ion concentration	endoplasmic reticulum|integral to plasma membrane	bradykinin receptor activity			ovary(3)	3		all_cancers(154;0.0677)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.208)|Epithelial(152;0.226)		CGTGGCAGAAATCTACCTGGC	0.532													59	39	---	---	---	---	PASS	G	96730239	G	G	96730239	3	3	147	1	0	0	0	0	1	0	0	0	1392	101	4	5	222	5	BDKRB1	14	96730239	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	3612168	96730239	10619301	276	52389										
OR4M2	390538	broad.mit.edu	37	chr15	22368615	22368615	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ccaaggtgacagaatttgttCtcactggcctatcccagact	8	12	1	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr15:22368615C>G	uc010tzu.1	+	1	40	c.40C>G	c.(40-42)CTC>GTC	p.L14V	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		AGAATTTGTTCTCACTGGCCT	0.333													90	455	---	---	---	---	PASS	G	22368615	G	G	22368615	3	3	147	1	0	0	0	0	1	0	0	0	11076	913	32	2	42	2	OR4M2	15	22368615	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08		22368615	80162777	277	52390										
RYR3	6263	broad.mit.edu	37	chr15	34130624	34130624	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	atttgctatggcctgtgcctCtgtgaagaggaatgtcaccg	12	9	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr15:34130624C>A	uc001zhi.2	+	89	12513	c.12443C>A	c.(12442-12444)TCT>TAT	p.S4148Y	RYR3_uc010bar.2_Missense_Mutation_p.S4143Y	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4148	Helical; Name=M3; (Potential).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GCCTGTGCCTCTGTGAAGAGG	0.498													59	80	---	---	---	---	PASS	A	34130624	A	A	34130624	3	1	147	1	0	0	0	0	1	0	0	0	13770	913	32	2	12797	2	RYR3	15	34130624	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	11762009	34130624	68400768	278	52391										
PLCB2	5330	broad.mit.edu	37	chr15	40590445	40590445	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttgaagaagatgtctgtggtCatggtgaagccatgggtgat	15	4	2	5			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr15:40590445C>G	uc001zld.2	-	11	1435	c.1134G>C	c.(1132-1134)ATG>ATC	p.M378I	PLCB2_uc010bbo.2_Missense_Mutation_p.M378I|PLCB2_uc010ucm.1_Missense_Mutation_p.M378I	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	378	PI-PLC X-box.				activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		TGTCTGTGGTCATGGTGAAGC	0.607													22	52	---	---	---	---	PASS	G	40590445	G	G	40590445	3	3	147	1	0	0	0	0	1	0	0	0	12028	826	29	2	2511	2	PLCB2	15	40590445	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	6459821	40590445	61940947	279	52392										
C15orf52	388115	broad.mit.edu	37	chr15	40627441	40627441	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acctttggctgcctcctctcGtgggccggcttctcggggcc	13	16	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr15:40627441G>T	uc001zlh.3	-	11	1539	c.1523C>A	c.(1522-1524)ACG>AAG	p.T508K	C15orf52_uc010ucn.1_Missense_Mutation_p.T298K	NM_207380	NP_997263	Q6ZUT6	CO052_HUMAN	hypothetical protein LOC388115	508										large_intestine(1)	1		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.06e-06)|Colorectal(105;0.0107)|BRCA - Breast invasive adenocarcinoma(123;0.0505)|READ - Rectum adenocarcinoma(2;0.0649)|Lung(196;0.0781)|LUAD - Lung adenocarcinoma(183;0.0841)		GCCTCCTCTCGTGGGCCGGCT	0.682													105	196	---	---	---	---	PASS	T	40627441	T	T	40627441	3	4	147	1	0	0	0	0	1	0	0	0	1800	1145	40	1	85	1	C15orf52	15	40627441	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	36996	40627441	61903951	280	52393										
IVD	3712	broad.mit.edu	37	chr15	40705252	40705252	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gggatgaggggctctaacacCtgtgagctaatctttgaaga	13	7	2	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr15:40705252C>A	uc001zls.3	+	7	1093	c.759C>A	c.(757-759)ACC>ACA	p.T253T	IVD_uc001zlq.2_Silent_p.T223T|IVD_uc001zlr.2_5'Flank	NM_002225	NP_002216	P26440	IVD_HUMAN	isovaleryl Coenzyme A dehydrogenase isoform 1	250					leucine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|isovaleryl-CoA dehydrogenase activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;1.52e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.65e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0808)		GCTCTAACACCTGTGAGCTAA	0.522													14	50	---	---	---	---	PASS	A	40705252	A	A	40705252	2	1	147	1	0	0	0	0	0	0	0	1	7928	668	24	3		3	IVD	15	40705252	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	77811	40705252	61826140	281	52394										
VPS39	23339	broad.mit.edu	37	chr15	42481356	42481356	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgctccctttgcctttgaaaCcgtagtgatttgttgaaatg	9	8	0	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr15:42481356C>T	uc001zpd.2	-	6	482	c.331G>A	c.(331-333)GTT>ATT	p.V111I	VPS39_uc001zpc.2_Missense_Mutation_p.V100I	NM_015289	NP_056104	Q96JC1	VPS39_HUMAN	vacuolar protein sorting 39	111	CNH.				protein transport	HOPS complex|late endosome membrane|lysosomal membrane	small GTPase regulator activity			ovary(1)|pancreas(1)|skin(1)	3		all_cancers(109;6.78e-16)|all_epithelial(112;1.81e-14)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;3.05e-06)		GCCTTTGAAACCGTAGTGATT	0.368													16	80	---	---	---	---	PASS	T	42481356	T	T	42481356	3	4	147	1	0	0	0	0	1	0	0	0	17206	507	18	3	2413	3	VPS39	15	42481356	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1776104	42481356	60050036	282	52395										
CILP	8483	broad.mit.edu	37	chr15	65490998	65490998	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acaaacttctgcagcctgtcCacaaatgtgagcaccagcct	7	14	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr15:65490998C>A	uc002aon.2	-	9	1807	c.1626G>T	c.(1624-1626)GTG>GTT	p.V542V		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	542					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						GCAGCCTGTCCACAAATGTGA	0.512													31	49	---	---	---	---	PASS	A	65490998	A	A	65490998	2	1	147	1	0	0	0	0	0	0	0	1	3429	581	21	3		3	CILP	15	65490998	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	23009642	65490998	37040394	283	52396										
ZWILCH	55055	broad.mit.edu	37	chr15	66797698	66797698	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgtgggagcggctgaactgcGcagcagaggacttttattct	14	8	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr15:66797698G>T	uc002aqb.2	+	1	268	c.22G>T	c.(22-24)GCA>TCA	p.A8S	RPL4_uc002apv.2_5'Flank|RPL4_uc010bhr.2_5'Flank|RPL4_uc002apw.2_5'Flank|RPL4_uc002apx.2_5'UTR|RPL4_uc010ujq.1_5'Flank|SNORD16_uc010bht.2_5'Flank|SNORD18A_uc002apz.1_5'Flank|ZWILCH_uc010bhu.1_5'UTR|ZWILCH_uc002aqa.2_5'UTR|ZWILCH_uc010bhv.2_5'UTR	NM_017975	NP_060445	Q9H900	ZWILC_HUMAN	Zwilch	8					cell division|mitotic cell cycle checkpoint|mitotic prometaphase	condensed chromosome kinetochore|cytosol	protein binding			ovary(1)	1						GCTGAACTGCGCAGCAGAGGA	0.607													41	144	---	---	---	---	PASS	T	66797698	T	T	66797698	3	4	147	1	0	0	0	0	1	0	0	0	18245	1087	38	1	24	1	ZWILCH	15	66797698	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	1306700	66797698	35733694	284	52397										
GOLGA6B	55889	broad.mit.edu	37	chr15	72954811	72954811	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aggaggtgcagagagtgcggGagcaggagagactgtgtgaa	20	4	0	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr15:72954811G>A	uc010uks.1	+	11	1107	c.1066G>A	c.(1066-1068)GAG>AAG	p.E356K		NM_018652	NP_061122	A6NDN3	GOG6B_HUMAN	golgi autoantigen, golgin subfamily a, 6B	356	Potential.										0						GAGAGTGCGGGAGCAGGAGAG	0.567													87	430	---	---	---	---	PASS	A	72954811	A	A	72954811	3	1	147	1	0	0	0	0	1	0	0	0	6558	1175	41	2	1108	2	GOLGA6B	15	72954811	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	6157113	72954811	29576581	285	52398										
NEO1	4756	broad.mit.edu	37	chr15	73547047	73547047	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttatgattcactggcagccaCctgctccagccacacaaaat	6	14	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr15:73547047C>A	uc002avm.3	+	13	2111	c.1969C>A	c.(1969-1971)CCT>ACT	p.P657T	NEO1_uc010ukx.1_Missense_Mutation_p.P657T|NEO1_uc010uky.1_Missense_Mutation_p.P657T|NEO1_uc010ukz.1_Missense_Mutation_p.P81T|NEO1_uc002avn.3_Missense_Mutation_p.P322T	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	657	Extracellular (Potential).|Fibronectin type-III 3.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						CTGGCAGCCACCTGCTCCAGC	0.433													30	196	---	---	---	---	PASS	A	73547047	A	A	73547047	3	1	147	1	0	0	0	0	1	0	0	0	10336	507	18	3	2019	3	NEO1	15	73547047	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	592236	73547047	28984345	286	52399										
FAM154B	283726	broad.mit.edu	37	chr15	82574517	82574517	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttataagccagaacaaacttAccacccgcctactgtgaaat	5	12	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr15:82574517A>C	uc002bgv.2	+	3	380	c.311A>C	c.(310-312)TAC>TCC	p.Y104S	FAM154B_uc010unr.1_Missense_Mutation_p.Y89S|FAM154B_uc010uns.1_RNA	NM_001008226	NP_001008227	Q658L1	F154B_HUMAN	hypothetical protein LOC283726	104										skin(2)	2						GAACAAACTTACCACCCGCCT	0.363													8	318	---	---	---	---	PASS	C	82574517	C	C	82574517	3	2	147	1	0	0	0	0	1	0	0	0	5464	391	14	5	321	5	FAM154B	15	82574517	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	9027470	82574517	19956875	287	52400										
ABCA3	21	broad.mit.edu	37	chr16	2350063	2350063	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcctctggctcggcttcaaaGtactcgtttctgagtgcttt	9	11	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr16:2350063G>C	uc002cpy.1	-	13	2266	c.1554C>G	c.(1552-1554)TAC>TAG	p.Y518*	ABCA3_uc010bsk.1_Nonsense_Mutation_p.Y460*|ABCA3_uc010bsl.1_Nonsense_Mutation_p.Y518*	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	518					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				CGGCTTCAAAGTACTCGTTTC	0.617													106	91	---	---	---	---	PASS	C	2350063	C	C	2350063	4	2	147	1	0	0	0	0	0	1	0	0	33	1024	36	4	3644	4	ABCA3	16	2350063	Nonsense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08		2350063	88004690	288	52401										
NLRC3	197358	broad.mit.edu	37	chr16	3593454	3593454	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tccaaggttctgttcacagcCaaggcttcccctagcacctg	8	15	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr16:3593454C>T	uc010btn.2	-	18	3321	c.2910G>A	c.(2908-2910)TTG>TTA	p.L970L		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	970					I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						TGTTCACAGCCAAGGCTTCCC	0.532													7	16	---	---	---	---	PASS	T	3593454	T	T	3593454	2	4	147	1	0	0	0	0	0	0	0	1	10468	593	21	3		3	NLRC3	16	3593454	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	1243391	3593454	86761299	289	52402										
TNFRSF17	608	broad.mit.edu	37	chr16	12061699	12061699	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tagagaaatcaatttctgctAggtaattaaccatttcgact	6	7	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr16:12061699A>C	uc002dbv.2	+	3	768	c.550A>C	c.(550-552)AGG>CGG	p.R184R	TNFRSF17_uc010buy.2_3'UTR|TNFRSF17_uc010buz.2_Silent_p.R135R	NM_001192	NP_001183	Q02223	TNR17_HUMAN	tumor necrosis factor receptor superfamily,	184	Cytoplasmic (Potential).				cell proliferation|multicellular organismal development	endomembrane system|integral to membrane|plasma membrane					0						AATTTCTGCTAGGTAATTAAC	0.413			T	IL2	intestinal T-cell lymphoma								13	64	---	---	---	---	PASS	C	12061699	C	C	12061699	2	2	147	1	0	0	0	0	0	0	0	1	16287	411	15	5		5	TNFRSF17	16	12061699	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08	8468245	12061699	78293054	290	52403										
C16orf62	57020	broad.mit.edu	37	chr16	19567052	19567052	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcggtcatgtgactgggaagAtggccgtctttccttggtaa	14	8	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr16:19567052A>G	uc002dgn.1	+	1	13	c.1A>G	c.(1-3)ATG>GTG	p.M1V	C16orf62_uc002dgo.1_Missense_Mutation_p.M1V|C16orf62_uc010vas.1_5'UTR|C16orf62_uc002dgm.1_Missense_Mutation_p.M1V	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	1						integral to membrane				ovary(1)	1						GACTGGGAAGATGGCCGTCTT	0.617													12	41	---	---	---	---	PASS	G	19567052	G	G	19567052	3	3	147	1	0	0	0	0	1	0	0	0	1825	333	12	5	3	5	C16orf62	16	19567052	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	7505353	19567052	70787701	291	52404										
FAM192A	80011	broad.mit.edu	37	chr16	57188238	57188238	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aaggtgttggttcggaagatGgaggagacaatctttccggt	15	5	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr16:57188238G>T	uc010vhk.1	-	7	988	c.729C>A	c.(727-729)TCC>TCA	p.S243S	FAM192A_uc002ekz.3_Silent_p.S242S|FAM192A_uc002ekv.3_Silent_p.S165S|FAM192A_uc002ekw.3_Silent_p.S242S|FAM192A_uc002ekx.3_Silent_p.S242S|FAM192A_uc002eky.3_Silent_p.S242S	NM_024946	NP_079222	Q9GZU8	F192A_HUMAN	NEFA-interacting nuclear protein NIP30	243						nucleus					0						TTCGGAAGATGGAGGAGACAA	0.592													7	36	---	---	---	---	PASS	T	57188238	T	T	57188238	2	4	147	1	0	0	0	0	0	0	0	1	5523	1335	47	3		3	FAM192A	16	57188238	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	37621186	57188238	33166515	292	52405										
CDH11	1009	broad.mit.edu	37	chr16	65016169	65016169	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acgttggctgcctctaccttCaagctataggctcttttggt	9	11	3	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr16:65016169C>G	uc002eoi.2	-	8	1469	c.1035G>C	c.(1033-1035)TTG>TTC	p.L345F	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Missense_Mutation_p.L345F|CDH11_uc010vin.1_Missense_Mutation_p.L219F|CDH11_uc002eok.1_RNA	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	345	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		CCTCTACCTTCAAGCTATAGG	0.448			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			49	56	---	---	---	---	PASS	G	65016169	G	G	65016169	3	3	147	1	0	0	0	0	1	0	0	0	3097	825	29	2	1379	2	CDH11	16	65016169	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	7827931	65016169	25338584	293	52406										
SLC9A5	6553	broad.mit.edu	37	chr16	67298340	67298340	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cttccagcagaacatgaagcGgcggctggagtcctttaagt	12	10	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr16:67298340G>A	uc002esm.2	+	13	1991	c.1928G>A	c.(1927-1929)CGG>CAG	p.R643Q	SLC9A5_uc010cee.2_Missense_Mutation_p.R348Q|SLC9A5_uc010vji.1_Missense_Mutation_p.R147Q	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	643					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		AACATGAAGCGGCGGCTGGAG	0.577													31	6	---	---	---	---	PASS	A	67298340	A	A	67298340	3	1	147	1	0	0	0	0	1	0	0	0	14717	1116	39	1	1978	1	SLC9A5	16	67298340	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	2282171	67298340	23056413	294	52407										
THAP11	57215	broad.mit.edu	37	chr16	67877203	67877203	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cgaccattcgtactccttgtCgtcaggcaccacggaggagg	12	13	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr16:67877203C>G	uc002euo.2	+	1	991	c.746C>G	c.(745-747)TCG>TGG	p.S249W	CENPT_uc002eun.3_Intron	NM_020457	NP_065190	Q96EK4	THA11_HUMAN	THAP domain containing 11	249					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|identical protein binding|metal ion binding				0		Acute lymphoblastic leukemia(13;0.000299)|all_hematologic(13;0.0184)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)		TACTCCTTGTCGTCAGGCACC	0.592													73	347	---	---	---	---	PASS	G	67877203	G	G	67877203	3	3	147	1	0	0	0	0	1	0	0	0	15840	893	31	2	748	2	THAP11	16	67877203	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	578863	67877203	22477550	295	52408										
NFAT5	10725	broad.mit.edu	37	chr16	69726958	69726959	+	Frame_Shift_Ins	INS	-	T	T													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	atgtcacttcaatctggaaaINSttttttgcagcagtcttctc							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr16:69726958_69726959insT	uc002exm.1	+	12	4384_4385	c.3176_3177insT	c.(3175-3177)AATfs	p.N1059fs	NFAT5_uc002exi.2_Frame_Shift_Ins_p.N983fs|NFAT5_uc002exj.1_Frame_Shift_Ins_p.N983fs|NFAT5_uc002exk.1_Frame_Shift_Ins_p.N983fs|NFAT5_uc002exl.1_Frame_Shift_Ins_p.N1077fs|NFAT5_uc002exn.1_Frame_Shift_Ins_p.N1076fs|NFAT5_uc002exo.1_RNA	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	1059					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						CAATCTGGAAATTTTTTGCAGC	0.411													272	131	---	---	---	---		T	69726959	T	T	69726958	7	5	147	1	0	1	1	0	0	0	0	0	10360	101	4	0	3280	0	NFAT5	16	69726958	Frame_Shift_Ins	INS	-	TCGA-66-2758-01A-02D-1522-08	1849755	69726958	20627795	296	52409										
HYDIN	54768	broad.mit.edu	37	chr16	70926361	70926361	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tttctgttggggtcagtgaaCcctttttgggttggactgag	14	6	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr16:70926361C>A	uc002ezr.2	-	56	9445	c.9317G>T	c.(9316-9318)GGT>GTT	p.G3106V		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3107										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GGTCAGTGAACCCTTTTTGGG	0.428													83	126	---	---	---	---	PASS	A	70926361	A	A	70926361	3	1	147	1	0	0	0	0	1	0	0	0	7467	507	18	3	6169	3	HYDIN	16	70926361	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1199403	70926361	19428392	297	52410										
PSMD7	5713	broad.mit.edu	37	chr16	74339275	74339275	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gactgaactccaagcttctgGatatcaggagctacctggaa	10	10	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr16:74339275G>C	uc002fcq.2	+	7	751	c.619G>C	c.(619-621)GAT>CAT	p.D207H	PSMD7_uc010vmr.1_Missense_Mutation_p.D130H	NM_002811	NP_002802	P51665	PSD7_HUMAN	proteasome 26S non-ATPase subunit 7	207					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding				0						CAAGCTTCTGGATATCAGGAG	0.522													12	69	---	---	---	---	PASS	C	74339275	C	C	74339275	3	2	147	1	0	0	0	0	1	0	0	0	12703	1174	41	2	645	2	PSMD7	16	74339275	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	3412914	74339275	16015478	298	52411										
ZC3H18	124245	broad.mit.edu	37	chr16	88689746	88689746	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cagctcgttctcaggaagccGgtccaggtatgtccccaggg	13	13	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr16:88689746G>T	uc002fky.2	+	10	1987	c.1787G>T	c.(1786-1788)CGG>CTG	p.R596L	ZC3H18_uc010voz.1_Missense_Mutation_p.R620L|ZC3H18_uc010chw.2_RNA	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	596	Ser-rich.					nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		TCAGGAAGCCGGTCCAGGTAT	0.627													56	26	---	---	---	---	PASS	T	88689746	T	T	88689746	3	4	147	1	0	0	0	0	1	0	0	0	17565	1116	39	1	1821	1	ZC3H18	16	88689746	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	14350471	88689746	1665007	299	52412										
TP53	7157	broad.mit.edu	37	chr17	7579314	7579314	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cccctcagggcaactgaccgTgcaagtcacagacttggctg	11	14	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:7579314T>G	uc002gim.2	-	4	567	c.373A>C	c.(373-375)ACG>CCG	p.T125P	TP53_uc002gig.1_Missense_Mutation_p.T125P|TP53_uc002gih.2_Missense_Mutation_p.T125P|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Missense_Mutation_p.T125P|TP53_uc010cni.1_Missense_Mutation_p.T125P|TP53_uc002gij.2_Missense_Mutation_p.T125P|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Missense_Mutation_p.T86P|TP53_uc010cnk.1_Missense_Mutation_p.T140P	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	125	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		T -> A (in a sporadic cancer; somatic mutation).|T -> M (in sporadic cancers; somatic mutation).|T -> R (in sporadic cancers; somatic mutation).|T -> P (in a sporadic cancer; somatic mutation).|T -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.T125T(15)|p.0?(7)|p.T125M(7)|p.T125K(3)|p.G59fs*23(3)|p.T125R(3)|p.V73fs*9(1)|p.T125P(1)|p.G105_T125del21(1)|p.T125fs*45(1)|p.Y126fs*11(1)|p.Y107fs*44(1)|p.T125fs*24(1)|p.T125A(1)|p.P13fs*18(1)|p.S33fs*23(1)|p.T125_Y126insX(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)		CAACTGACCGTGCAAGTCACA	0.547		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)			45	42	---	---	---	---	PASS	G	7579314	G	G	7579314	3	3	147	1	0	0	0	0	1	0	0	0	16378	1696	59	5	929	5	TP53	17	7579314	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08		7579314	73615896	300	52413										
DNAH2	146754	broad.mit.edu	37	chr17	7662770	7662770	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agtggatgctgtacatgattCggctggaccgcatgatggag	15	7	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:7662770C>T	uc002giu.1	+	15	2493	c.2479C>T	c.(2479-2481)CGG>TGG	p.R827W		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	827	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GTACATGATTCGGCTGGACCG	0.522													4	78	---	---	---	---	PASS	T	7662770	T	T	7662770	3	4	147	1	0	0	0	0	1	0	0	0	4602	875	31	2	2537	2	DNAH2	17	7662770	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	83456	7662770	73532440	301	52414										
MYH8	4626	broad.mit.edu	37	chr17	10304654	10304654	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gatgttgactttgtcctcctCtgcctgcaggtcatccaggg	11	12	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:10304654C>G	uc002gmm.2	-	24	3141	c.3046G>C	c.(3046-3048)GAG>CAG	p.E1016Q	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1016	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TTGTCCTCCTCTGCCTGCAGG	0.453									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				8	316	---	---	---	---	PASS	G	10304654	G	G	10304654	3	3	147	1	0	0	0	0	1	0	0	0	10041	922	32	2	2835	2	MYH8	17	10304654	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	2641884	10304654	70890556	302	52415										
KSR1	8844	broad.mit.edu	37	chr17	25924359	25924359	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcctccaccacctcctccacAccctcctcaccggcgccctt	3	25	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:25924359A>T	uc010crg.2	+	10	1399	c.954A>T	c.(952-954)ACA>ACT	p.T318T	KSR1_uc002gzj.1_RNA|KSR1_uc002gzm.2_Silent_p.T119T	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	453					Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		CCTCCTCCACACCCTCCTCAC	0.647													8	25	---	---	---	---	PASS	T	25924359	T	T	25924359	2	4	147	1	0	0	0	0	0	0	0	1	8581	146	6	5		5	KSR1	17	25924359	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08	15619705	25924359	55270851	303	52416										
SEZ6	124925	broad.mit.edu	37	chr17	27308587	27308587	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgtccaggctctgctgggggGtgtagtgctggctatctccc	15	11	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:27308587G>T	uc002hdp.2	-	2	720	c.526C>A	c.(526-528)CCC>ACC	p.P176T	SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Missense_Mutation_p.P176T|SEZ6_uc002hdq.1_Missense_Mutation_p.P51T|SEZ6_uc010crz.1_Missense_Mutation_p.P176T	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	176	Pro-rich.|Extracellular (Potential).					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			CTGCTGGGGGGTGTAGTGCTG	0.637													17	28	---	---	---	---	PASS	T	27308587	T	T	27308587	3	4	147	1	0	0	0	0	1	0	0	0	14142	1261	44	3	2535	3	SEZ6	17	27308587	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	1384228	27308587	53886623	304	52417										
SLC6A4	6532	broad.mit.edu	37	chr17	28544291	28544291	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gccccccaggtcctggagccCcttagaccggtggatctgca	12	16	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:28544291C>A	uc002hey.3	-	6	1274	c.730G>T	c.(730-732)GGG>TGG	p.G244W		NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	244	Extracellular (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	TCCTGGAGCCCCTTAGACCGG	0.587													66	141	---	---	---	---	PASS	A	28544291	A	A	28544291	3	1	147	1	0	0	0	0	1	0	0	0	14686	623	22	3	1202	3	SLC6A4	17	28544291	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1235704	28544291	52650919	305	52418										
SLC6A4	6532	broad.mit.edu	37	chr17	28548847	28548847	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aactgctgagtacccattggAtatttgcccggactccactt	8	12	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:28548847A>G	uc002hey.3	-	3	674	c.130T>C	c.(130-132)TCC>CCC	p.S44P		NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	44	Cytoplasmic (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	TACCCATTGGATATTTGCCCG	0.542													119	226	---	---	---	---	PASS	G	28548847	G	G	28548847	3	3	147	1	0	0	0	0	1	0	0	0	14686	333	12	5	1814	5	SLC6A4	17	28548847	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	4556	28548847	52646363	306	52419										
RARA	5914	broad.mit.edu	37	chr17	38504711	38504711	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gggtcagcgcctgtgagggcTgcaaggtgagttgaaggggt	20	6	1	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:38504711T>A	uc002huk.1	+	3	777	c.322T>A	c.(322-324)TGC>AGC	p.C108S	RARA_uc002hul.3_Missense_Mutation_p.C108S|RARA_uc010wfe.1_Intron|RARA_uc002hun.1_Missense_Mutation_p.C103S	NM_000964	NP_000955	P10276	RARA_HUMAN	retinoic acid receptor, alpha isoform 1	108	NR C4-type.|Nuclear receptor.				apoptotic cell clearance|cellular response to estrogen stimulus|cellular response to retinoic acid|estrogen receptor signaling pathway|negative regulation of granulocyte differentiation|negative regulation of interferon-gamma production|negative regulation of tumor necrosis factor production|positive regulation of binding|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of interleukin-13 production|positive regulation of interleukin-4 production|positive regulation of interleukin-5 production|positive regulation of T-helper 2 cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	cytoplasm|nucleoplasm	chromatin DNA binding|enzyme binding|protein domain specific binding|protein heterodimerization activity|receptor binding|retinoic acid binding|retinoic acid receptor activity|retinoic acid-responsive element binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00143)		Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Isotretinoin(DB00982)|Tamibarotene(DB04942)|Tazarotene(DB00799)	CTGTGAGGGCTGCAAGGTGAG	0.592			T	PML|ZNF145|TIF1|NUMA1|NPM1	APL								29	90	---	---	---	---	PASS	A	38504711	A	A	38504711	3	1	147	1	0	0	0	0	1	0	0	0	13052	1580	55	5	495	5	RARA	17	38504711	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	9955864	38504711	42690499	307	52420										
KRT14	3861	broad.mit.edu	37	chr17	39742654	39742654	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtaccagtcacggatcttcaCttccaggtcggcgttggcct	11	13	3	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:39742654C>G	uc002hxf.1	-	1	494	c.433G>C	c.(433-435)GTG>CTG	p.V145L	JUP_uc010wfs.1_Intron|KRT14_uc010cxp.1_Missense_Mutation_p.V145L	NM_000526	NP_000517	P02533	K1C14_HUMAN	keratin 14	145	Coil 1A.|Rod.				epidermis development|hemidesmosome assembly|intermediate filament bundle assembly	cytosol|keratin filament|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(1)	1		Breast(137;0.000307)				CGGATCTTCACTTCCAGGTCG	0.577													111	207	---	---	---	---	PASS	G	39742654	G	G	39742654	3	3	147	1	0	0	0	0	1	0	0	0	8451	565	20	4	1017	4	KRT14	17	39742654	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1237943	39742654	41452556	308	52421										
GPATCH8	23131	broad.mit.edu	37	chr17	42477794	42477794	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aattaatagttctgatggccActggagggcagtgctttcat	11	7	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:42477794A>T	uc002igw.1	-	8	1715	c.1651T>A	c.(1651-1653)TGG>AGG	p.W551R	GPATCH8_uc002igv.1_Missense_Mutation_p.W473R|GPATCH8_uc010wiz.1_Missense_Mutation_p.W473R	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	551						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)		TCTGATGGCCACTGGAGGGCA	0.443											OREG0024461	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	102	---	---	---	---	PASS	T	42477794	T	T	42477794	3	4	147	1	0	0	0	0	1	0	0	0	6594	159	6	5	2861	5	GPATCH8	17	42477794	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	2735140	42477794	38717416	309	52422										
GJC1	10052	broad.mit.edu	37	chr17	42883087	42883087	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cctcctacagctgtaaggacGatccggaagacaatcagaac	9	12	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:42883087G>A	uc002ihj.2	-	2	610	c.99C>T	c.(97-99)ATC>ATT	p.I33I	GJC1_uc002ihk.2_Silent_p.I33I|GJC1_uc002ihl.2_Silent_p.I33I|GJC1_uc010czx.2_Silent_p.I33I|GJC1_uc010czy.1_5'Flank	NM_005497	NP_005488	P36383	CXG1_HUMAN	connexin 45	33	Helical; (Potential).				cellular membrane organization|gap junction assembly|muscle contraction|synaptic transmission|transport	connexon complex|integral to membrane					0		Prostate(33;0.0959)				CTGTAAGGACGATCCGGAAGA	0.478													25	97	---	---	---	---	PASS	A	42883087	A	A	42883087	2	1	147	1	0	0	0	0	0	0	0	1	6414	1048	37	2		2	GJC1	17	42883087	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	405293	42883087	38312123	310	52423										
HIGD1B	51751	broad.mit.edu	37	chr17	42926621	42926621	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggctgtgttctctgcccacaGgcttaggaggctgcttggtg	15	10	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:42926621G>A	uc002ihm.2	+	2	343	c.101_splice	c.e2-1	p.G34_splice		NM_016438	NP_057522	Q9P298	HIG1B_HUMAN	HIG1 hypoxia inducible domain family, member 1B							integral to membrane					0		Prostate(33;0.109)				TCTGCCCACAGGCTTAGGAGG	0.567													18	105	---	---	---	---	PASS	A	42926621	A	A	42926621	5	1	147	1	0	0	0	0	0	0	1	0	7107	1014	35	3	106	3	HIGD1B	17	42926621	Splice_Site	SNP	G	TCGA-66-2758-01A-02D-1522-08	43534	42926621	38268589	311	52424										
DYNLL2	140735	broad.mit.edu	37	chr17	56164509	56164509	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgtctgaggacatgcaacagGatgccgttgactgcgccacg	13	11	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:56164509G>A	uc010wnn.1	+	2	332	c.58G>A	c.(58-60)GAT>AAT	p.D20N		NM_080677	NP_542408	Q96FJ2	DYL2_HUMAN	dynein, light chain, LC8-type 2	20					activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals|microtubule-based process|transport	centrosome|cytosol|dynein complex|microtubule|myosin complex|plasma membrane	motor activity				0						CATGCAACAGGATGCCGTTGA	0.517													13	94	---	---	---	---	PASS	A	56164509	A	A	56164509	3	1	147	1	0	0	0	0	1	0	0	0	4849	1174	41	2	60	2	DYNLL2	17	56164509	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	13237888	56164509	25030701	312	52425										
MTMR4	9110	broad.mit.edu	37	chr17	56581810	56581810	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcgatctccaaacttgtgccCaaaatccagccagtcagact	7	14	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:56581810C>T	uc002iwj.2	-	13	1449	c.1339G>A	c.(1339-1341)GGG>AGG	p.G447R		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	447	Myotubularin phosphatase.					cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AACTTGTGCCCAAAATCCAGC	0.483													5	95	---	---	---	---	PASS	T	56581810	T	T	56581810	3	4	147	1	0	0	0	0	1	0	0	0	9946	594	21	3	2276	3	MTMR4	17	56581810	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	417301	56581810	24613400	313	52426										
PPM1E	22843	broad.mit.edu	37	chr17	57057444	57057444	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgtgatggcttctatgacacCgtgaaccctgatgaggcagt	12	9	1	5	rs151205066		TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:57057444C>A	uc002iwx.2	+	7	1447	c.1320C>A	c.(1318-1320)ACC>ACA	p.T440T	PPM1E_uc010ddd.2_Silent_p.T203T	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	449	PP2C-like.				protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			TCTATGACACCGTGAACCCTG	0.498													43	58	---	---	---	---	PASS	A	57057444	A	A	57057444	2	1	147	1	0	0	0	0	0	0	0	1	12338	639	23	1		1	PPM1E	17	57057444	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	475634	57057444	24137766	314	52427										
TUBD1	51174	broad.mit.edu	37	chr17	57955528	57955528	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtaggctggaacacacttccCagctgatgtgcgaggacttg	13	10	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:57955528C>T	uc002ixw.1	-	5	983	c.705G>A	c.(703-705)CTG>CTA	p.L235L	TUBD1_uc010ddf.1_Silent_p.L235L|TUBD1_uc010ddg.1_Silent_p.L200L|TUBD1_uc010ddh.1_Silent_p.L116L|TUBD1_uc010wok.1_Silent_p.L235L|TUBD1_uc002ixx.1_Silent_p.L235L|TUBD1_uc010wol.1_Silent_p.L19L|TUBD1_uc010ddi.1_Intron	NM_016261	NP_057345	Q9UJT1	TBD_HUMAN	delta-tubulin	235					cell differentiation|microtubule-based movement|multicellular organismal development|protein polymerization|spermatogenesis	centriole|microtubule|nucleus	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1	all_cancers(5;3.18e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;9.34e-13)|all cancers(12;1.91e-11)			ACACACTTCCCAGCTGATGTG	0.403													82	155	---	---	---	---	PASS	T	57955528	T	T	57955528	2	4	147	1	0	0	0	0	0	0	0	1	16759	581	21	3		3	TUBD1	17	57955528	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	898084	57955528	23239682	315	52428										
HEATR6	63897	broad.mit.edu	37	chr17	58153505	58153505	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gattacctgtaatctgttaaGtaaatggtggataagctggc	11	5	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:58153505G>C	uc002iyk.1	-	2	330	c.313C>G	c.(313-315)CTT>GTT	p.L105V	HEATR6_uc010wos.1_5'Flank	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	105							binding			ovary(1)|skin(1)	2	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			AATCTGTTAAGTAAATGGTGG	0.383													4	107	---	---	---	---	PASS	C	58153505	C	C	58153505	3	2	147	1	0	0	0	0	1	0	0	0	7033	1029	36	4	3308	4	HEATR6	17	58153505	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	197977	58153505	23041705	316	52429										
PRKAR1A	5573	broad.mit.edu	37	chr17	66519041	66519041	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcgctgaggtctacacggagGaagatgcggcatcctatgtt	14	9	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:66519041G>T	uc002jhg.2	+	3	502	c.322G>T	c.(322-324)GAA>TAA	p.E108*	PRKAR1A_uc002jhh.2_Nonsense_Mutation_p.E108*|PRKAR1A_uc002jhi.2_Nonsense_Mutation_p.E108*|PRKAR1A_uc002jhj.2_Nonsense_Mutation_p.E108*|PRKAR1A_uc002jhk.2_5'UTR|PRKAR1A_uc002jhl.2_Nonsense_Mutation_p.E108*|PRKAR1A_uc002jhm.2_Nonsense_Mutation_p.E108*	NM_212471	NP_997636	P10644	KAP0_HUMAN	cAMP-dependent protein kinase, regulatory	108	Dimerization and phosphorylation.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity|protein binding			adrenal_gland(4)|lung(3)|thyroid(2)|soft_tissue(2)|breast(1)	12	Breast(10;1.64e-13)					CTACACGGAGGAAGATGCGGC	0.493			T|Mis|N|F|S	RET	papillary thyroid	myxoma|endocrine|papillary thyroid			Carney_Complex|Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial|Cardiac_Myxomas_Familial_Clustering_of				48	99	---	---	---	---	PASS	T	66519041	T	T	66519041	4	4	147	1	0	0	0	0	0	1	0	0	12503	1175	41	2	328	2	PRKAR1A	17	66519041	Nonsense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	8365536	66519041	14676169	317	52430										
AFMID	125061	broad.mit.edu	37	chr17	76200744	76200744	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgtgtctctgcagtaaggatGagtctgccttcatggtccac	11	10	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:76200744G>T	uc002jva.3	+	5	331	c.316G>T	c.(316-318)GAG>TAG	p.E106*	AFMID_uc002jvb.3_Intron|AFMID_uc002juz.3_Nonsense_Mutation_p.E106*	NM_001010982	NP_001010982	Q63HM1	AFMID_HUMAN	arylformamidase isoform 1	106						cytosol|nucleus	arylformamidase activity			large_intestine(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|OV - Ovarian serous cystadenocarcinoma(97;0.134)			CAGTAAGGATGAGTCTGCCTT	0.577													29	60	---	---	---	---	PASS	T	76200744	T	T	76200744	4	4	147	1	0	0	0	0	0	1	0	0	362	1291	45	2	334	2	AFMID	17	76200744	Nonsense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	9681703	76200744	4994466	318	52431										
FOXK2	3607	broad.mit.edu	37	chr17	80540717	80540717	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gttctggaggatagacccagCctctgaaagcaaattaatag	10	8	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr17:80540717C>A	uc002kfn.2	+	5	1181	c.1010C>A	c.(1009-1011)GCC>GAC	p.A337D	FOXK2_uc002kfm.1_Missense_Mutation_p.A337D|FOXK2_uc010diu.2_Intron	NM_004514	NP_004505	Q01167	FOXK2_HUMAN	forkhead box K2	337	Fork-head.				embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|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				0	Breast(20;0.00106)|all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.0371)|BRCA - Breast invasive adenocarcinoma(99;0.0415)			ATAGACCCAGCCTCTGAAAGC	0.498													52	70	---	---	---	---	PASS	A	80540717	A	A	80540717	3	1	147	1	0	0	0	0	1	0	0	0	6015	739	26	3	1028	3	FOXK2	17	80540717	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	4339973	80540717	654493	319	52432										
PTPRM	5797	broad.mit.edu	37	chr18	8088778	8088778	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ccagcttatgaacttgagacAcctttgaatcaaactgacaa	6	10	1	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr18:8088778A>T	uc002knn.3	+	11	2288	c.1785A>T	c.(1783-1785)ACA>ACT	p.T595T	PTPRM_uc010dkv.2_Silent_p.T595T|PTPRM_uc010wzl.1_Silent_p.T382T	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	595	Fibronectin type-III 4.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				AACTTGAGACACCTTTGAATC	0.473													28	260	---	---	---	---	PASS	T	8088778	T	T	8088778	2	4	147	1	0	0	0	0	0	0	0	1	12806	146	6	5		5	PTPRM	18	8088778	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08		8088778	69988470	320	52433										
SPIRE1	56907	broad.mit.edu	37	chr18	12479814	12479814	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttttgtttgtgatgtcaaacCtccattcaccatagatgact	6	9	2	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr18:12479814C>T	uc002kre.2	-	10	1335	c.1288G>A	c.(1288-1290)GGT>AGT	p.G430S	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Missense_Mutation_p.G296S|SPIRE1_uc010wzx.1_Missense_Mutation_p.G219S|SPIRE1_uc010wzy.1_Missense_Mutation_p.G416S	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	430						cytoskeleton|perinuclear region of cytoplasm	actin binding				0						GATGTCAAACCTCCATTCACC	0.463													35	221	---	---	---	---	PASS	T	12479814	T	T	12479814	3	4	147	1	0	0	0	0	1	0	0	0	15070	681	24	3	1014	3	SPIRE1	18	12479814	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	4391036	12479814	65597434	321	52434										
SS18	6760	broad.mit.edu	37	chr18	23619384	23619384	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cgcctccctgtggcatattgTattgctgagaaggaggctgc	13	10	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr18:23619384T>A	uc002kvm.2	-	6	722	c.644A>T	c.(643-645)TAC>TTC	p.Y215F	SS18_uc002kvn.2_Missense_Mutation_p.Y215F|SS18_uc010xbf.1_Missense_Mutation_p.Y133F|SS18_uc010xbg.1_Missense_Mutation_p.Y163F|SS18_uc010xbh.1_Missense_Mutation_p.Y163F|SS18_uc010xbi.1_Missense_Mutation_p.Y192F|SS18_uc010dlz.1_Missense_Mutation_p.Y163F	NM_001007559	NP_001007560	Q15532	SSXT_HUMAN	synovial sarcoma translocation, chromosome 18	215	Gln-rich.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	ligand-dependent nuclear receptor transcription coactivator activity|protein binding		SS18/SSX1(1169)|SS18/SSX2(702)|SS18/SSX4(12)	soft_tissue(1883)|ovary(1)	1884	all_cancers(21;0.000194)|Lung NSC(5;0.000413)|all_lung(6;0.00118)|Ovarian(20;0.124)					TGGCATATTGTATTGCTGAGA	0.418			T	SSX1| SSX2	synovial sarcoma								46	266	---	---	---	---	PASS	A	23619384	A	A	23619384	3	1	147	1	0	0	0	0	1	0	0	0	15174	1638	57	5	636	5	SS18	18	23619384	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	11139570	23619384	54457864	322	52435										
FHOD3	80206	broad.mit.edu	37	chr18	34310661	34310661	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cattgttctggattccaagaGgagtaacgccatcaatattg	9	8	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr18:34310661G>C	uc002kzt.1	+	16	2991	c.2894G>C	c.(2893-2895)AGG>ACG	p.R965T	FHOD3_uc002kzs.1_Missense_Mutation_p.R982T|FHOD3_uc010dmz.1_Missense_Mutation_p.R697T|FHOD3_uc010dnb.1_5'UTR	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	965	FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				GATTCCAAGAGGAGTAACGCC	0.413													82	96	---	---	---	---	PASS	C	34310661	C	C	34310661	3	2	147	1	0	0	0	0	1	0	0	0	5883	1000	35	4	3011	4	FHOD3	18	34310661	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	10691277	34310661	43766587	323	52436										
SMAD7	4092	broad.mit.edu	37	chr18	46476230	46476230	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggggttgcagcacaccagctCggggttgatcttcccgtaag	14	11	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr18:46476230C>A	uc002ldg.2	-	1	852	c.565G>T	c.(565-567)GAG>TAG	p.E189*	SMAD7_uc010xde.1_5'Flank	NM_005904	NP_005895	O15105	SMAD7_HUMAN	SMAD family member 7	189	MH1.				adherens junction assembly|artery morphogenesis|BMP signaling pathway|cellular protein complex localization|negative regulation of BMP signaling pathway|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of pathway-restricted SMAD protein phosphorylation|negative regulation of peptidyl-serine phosphorylation|negative regulation of peptidyl-threonine phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of ubiquitin-protein ligase activity|pathway-restricted SMAD protein phosphorylation|positive regulation of anti-apoptosis|positive regulation of cell-cell adhesion|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein stabilization|regulation of activin receptor signaling pathway|response to laminar fluid shear stress|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	centrosome|cytosol|nucleolus|plasma membrane|transcription factor complex	activin binding|beta-catenin binding|I-SMAD binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor, inhibitory cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding				0	Colorectal(1;0.0518)					CACACCAGCTCGGGGTTGATC	0.572											OREG0024975	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	18	---	---	---	---	PASS	A	46476230	A	A	46476230	4	1	147	1	0	0	0	0	0	1	0	0	14763	893	31	2	731	2	SMAD7	18	46476230	Nonsense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	12165569	46476230	31601018	324	52437										
CBLN2	147381	broad.mit.edu	37	chr18	70205426	70205426	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgtgtttatagaggaaacacCaagaagcccgagaatgtgga	12	6	0	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr18:70205426C>A	uc002lku.2	-	4	895	c.660G>T	c.(658-660)TTG>TTT	p.L220F	CBLN2_uc002lkv.2_Missense_Mutation_p.L220F	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	220	C1q.					integral to membrane					0		Esophageal squamous(42;0.131)				GAGGAAACACCAAGAAGCCCG	0.517													5	155	---	---	---	---	PASS	A	70205426	A	A	70205426	3	1	147	1	0	0	0	0	1	0	0	0	2705	593	21	3	18	3	CBLN2	18	70205426	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	23729196	70205426	7871822	325	52438										
ZNF77	58492	broad.mit.edu	37	chr19	2934610	2934610	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggctttggcaggagaggcagCtgcaggcttgcccacattcc	14	12	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:2934610C>T	uc002lws.3	-	4	646	c.515G>A	c.(514-516)AGC>AAC	p.S172N		NM_021217	NP_067040	Q15935	ZNF77_HUMAN	zinc finger protein 77	172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|GBM - Glioblastoma multiforme(1328;2.11e-07)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.174)|STAD - Stomach adenocarcinoma(1328;0.18)		GGAGAGGCAGCTGCAGGCTTG	0.512													46	70	---	---	---	---	PASS	T	2934610	T	T	2934610	3	4	147	1	0	0	0	0	1	0	0	0	18139	797	28	3	1126	3	ZNF77	19	2934610	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08		2934610	56194373	326	52439										
TRIP10	9322	broad.mit.edu	37	chr19	6744953	6744953	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggatggacggcctgaactccGaggcccgggtcgcagccgca	16	14	0	1	rs148404026		TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:6744953G>C	uc002mfs.2	+	9	998	c.932G>C	c.(931-933)CGA>CCA	p.R311P	TRIP10_uc010dux.1_Missense_Mutation_p.R311P|TRIP10_uc002mfr.2_Missense_Mutation_p.R311P|TRIP10_uc010duy.2_RNA|TRIP10_uc010duz.2_Missense_Mutation_p.R130P	NM_004240	NP_004231	Q15642	CIP4_HUMAN	thyroid hormone receptor interactor 10	311	Interaction with CDC42.|Interaction with PDE6G (By similarity).				actin cytoskeleton organization|cell communication|endocytosis|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell projection|cytoskeleton|cytosol|Golgi apparatus|lysosome|perinuclear region of cytoplasm|phagocytic cup	GTPase activator activity|identical protein binding|lipid binding			ovary(1)	1						CCTGAACTCCGAGGCCCGGGT	0.662													33	38	---	---	---	---	PASS	C	6744953	C	C	6744953	3	2	147	1	0	0	0	0	1	0	0	0	16551	1058	37	2	966	2	TRIP10	19	6744953	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	3810343	6744953	52384030	327	52440										
EMR1	2015	broad.mit.edu	37	chr19	6897258	6897258	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gcagctgtttagatggtttcTcttctcccactggaaatgac	9	10	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:6897258T>C	uc002mfw.2	+	4	375	c.337T>C	c.(337-339)TCT>CCT	p.S113P	EMR1_uc010dvc.2_Missense_Mutation_p.S113P|EMR1_uc010dvb.2_Intron|EMR1_uc010xji.1_Intron|EMR1_uc010xjj.1_Missense_Mutation_p.S113P	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	113	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					AGATGGTTTCTCTTCTCCCAC	0.502													63	76	---	---	---	---	PASS	C	6897258	C	C	6897258	3	2	147	1	0	0	0	0	1	0	0	0	5104	1551	54	5	351	5	EMR1	19	6897258	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	152305	6897258	52231725	328	52441										
FCER2	2208	broad.mit.edu	37	chr19	7761738	7761738	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cacctgcaactccatccttaGctttgtcacctcctcccgga	5	18	1	0	rs147413598	by1000genomes	TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:7761738G>C	uc002mhn.2	-	8	626	c.442C>G	c.(442-444)CTA>GTA	p.L148V	FCER2_uc010xjs.1_Missense_Mutation_p.L70V|FCER2_uc010xjt.1_Missense_Mutation_p.L70V|FCER2_uc002mhm.2_Missense_Mutation_p.L148V|FCER2_uc010dvo.2_Missense_Mutation_p.L148V	NM_002002	NP_001993	P06734	FCER2_HUMAN	Fc fragment of IgE, low affinity II, receptor	148	Extracellular (Potential).				positive regulation of killing of cells of other organism|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of nitric-oxide synthase activity	extracellular region|integral to plasma membrane	IgE binding|integrin binding|receptor activity|sugar binding				0						TCCATCCTTAGCTTTGTCACC	0.567													5	9	---	---	---	---	PASS	C	7761738	C	C	7761738	3	2	147	1	0	0	0	0	1	0	0	0	5776	962	34	4	539	4	FCER2	19	7761738	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	864480	7761738	51367245	329	52442										
RAB11B	9230	broad.mit.edu	37	chr19	8467418	8467418	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcagccttggattccactaaCgtagaggaagcattcaagaa	9	9	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:8467418C>A	uc002mju.3	+	4	576	c.480C>A	c.(478-480)AAC>AAA	p.N160K	RAB11B_uc010xkd.1_Missense_Mutation_p.N160K	NM_004218	NP_004209	Q15907	RB11B_HUMAN	RAB11B, member RAS oncogene family	160					cell cycle|protein transport|small GTPase mediated signal transduction	plasma membrane	GDP binding|GTP binding|GTPase activity				0						ATTCCACTAACGTAGAGGAAG	0.552													23	79	---	---	---	---	PASS	A	8467418	A	A	8467418	3	1	147	1	0	0	0	0	1	0	0	0	12892	535	19	1	494	1	RAB11B	19	8467418	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	705680	8467418	50661565	330	52443										
PRAM1	84106	broad.mit.edu	37	chr19	8564041	8564041	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tacacgttgaactcaggctgCgcaggcttcttgggaaaggt	13	9	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:8564041C>T	uc002mkd.2	-	2	671	c.651G>A	c.(649-651)GCG>GCA	p.A217A	PRAM1_uc002mkc.2_Silent_p.A217A	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	265	Pro-rich.						lipid binding|protein binding				0						ACTCAGGCTGCGCAGGCTTCT	0.637													13	39	---	---	---	---	PASS	T	8564041	T	T	8564041	2	4	147	1	0	0	0	0	0	0	0	1	12423	755	27	1		1	PRAM1	19	8564041	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	96623	8564041	50564942	331	52444										
MUC16	94025	broad.mit.edu	37	chr19	9068663	9068663	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tttgtgtccatgtctgtgatCttcgccagtgtaggggtggg	15	7	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:9068663C>T	uc002mkp.2	-	3	18987	c.18783G>A	c.(18781-18783)AAG>AAA	p.K6261K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6263	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTCTGTGATCTTCGCCAGTG	0.473													36	149	---	---	---	---	PASS	T	9068663	T	T	9068663	2	4	147	1	0	0	0	0	0	0	0	1	9973	912	32	2		2	MUC16	19	9068663	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	504622	9068663	50060320	332	52445										
ZNF266	10781	broad.mit.edu	37	chr19	9526346	9526346	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttaccatttgaatcccactgGaggttggctcccccaaaaca	7	13	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:9526346G>C	uc002mll.2	-	3	454	c.188C>G	c.(187-189)TCC>TGC	p.S63C	ZNF266_uc002mlm.2_Missense_Mutation_p.S63C|ZNF266_uc002mln.2_Missense_Mutation_p.S63C|ZNF266_uc002mlo.2_Missense_Mutation_p.S63C|ZNF266_uc010dwp.2_Missense_Mutation_p.S63C|ZNF266_uc010dwq.2_Missense_Mutation_p.S63C	NM_198058	NP_932175	Q14584	ZN266_HUMAN	zinc finger protein 266	63					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AATCCCACTGGAGGTTGGCTC	0.363													46	112	---	---	---	---	PASS	C	9526346	C	C	9526346	3	2	147	1	0	0	0	0	1	0	0	0	17802	1174	41	2	1469	2	ZNF266	19	9526346	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	457683	9526346	49602637	333	52446										
PDE4A	5141	broad.mit.edu	37	chr19	10577637	10577637	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtccacccagatgcccaggaGatcttggacactttggagga	12	11	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:10577637G>C	uc002moj.2	+	15	2109	c.2001G>C	c.(1999-2001)GAG>GAC	p.E667D	PDE4A_uc002mok.2_Missense_Mutation_p.E641D|PDE4A_uc002mol.2_Missense_Mutation_p.E606D|PDE4A_uc002mom.2_Missense_Mutation_p.E428D|PDE4A_uc002mon.2_Missense_Mutation_p.E122D|PDE4A_uc002moo.2_3'UTR	NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1	667	Catalytic.				signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)	ATGCCCAGGAGATCTTGGACA	0.582													5	187	---	---	---	---	PASS	C	10577637	C	C	10577637	3	2	147	1	0	0	0	0	1	0	0	0	11639	933	33	2	2516	2	PDE4A	19	10577637	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	1051291	10577637	48551346	334	52447										
ZNF491	126069	broad.mit.edu	37	chr19	11917176	11917176	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ccttataaatgtaagttttgTgggaaagccttggattgtct	10	5	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:11917176T>C	uc002mso.1	+	3	693	c.408T>C	c.(406-408)TGT>TGC	p.C136C		NM_152356	NP_689569	Q8N8L2	ZN491_HUMAN	zinc finger protein 491	136	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GTAAGTTTTGTGGGAAAGCCT	0.378													56	142	---	---	---	---	PASS	C	11917176	C	C	11917176	2	2	147	1	0	0	0	0	0	0	0	1	17939	1702	59	5		5	ZNF491	19	11917176	Silent	SNP	T	TCGA-66-2758-01A-02D-1522-08	1339539	11917176	47211807	335	52448										
TRMT1	55621	broad.mit.edu	37	chr19	13226547	13226547	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttgctctgacaagtccacgaCcactttttgcgtgtccttct	7	13	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:13226547C>A	uc002mwj.2	-	3	596	c.346G>T	c.(346-348)GTC>TTC	p.V116F	NACC1_uc002mwm.2_5'Flank|TRMT1_uc002mwk.2_Missense_Mutation_p.V116F|TRMT1_uc002mwl.3_Missense_Mutation_p.V116F|TRMT1_uc010xmz.1_5'UTR	NM_017722	NP_060192	Q9NXH9	TRM1_HUMAN	tRNA methyltransferase 1 isoform 1	116							RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.08e-22)	GBM - Glioblastoma multiforme(1328;0.0356)		AAGTCCACGACCACTTTTTGC	0.532													191	437	---	---	---	---	PASS	A	13226547	A	A	13226547	3	1	147	1	0	0	0	0	1	0	0	0	16558	507	18	3	1689	3	TRMT1	19	13226547	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	1309371	13226547	45902436	336	52449										
ZSWIM4	65249	broad.mit.edu	37	chr19	13915621	13915621	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cctaggattccacctgagcgGaaacatccgcgagccaggga	12	13	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:13915621G>A	uc002mxh.1	+	3	560	c.371G>A	c.(370-372)GGA>GAA	p.G124E	ZSWIM4_uc010xng.1_5'UTR	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	124							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			CACCTGAGCGGAAACATCCGC	0.577											OREG0025298	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	81	---	---	---	---	PASS	A	13915621	A	A	13915621	3	1	147	1	0	0	0	0	1	0	0	0	18240	1174	41	2	381	2	ZSWIM4	19	13915621	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	689074	13915621	45213362	337	52450										
CYP4F2	8529	broad.mit.edu	37	chr19	16000383	16000383	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	accaggcggcaggccctgcgGaaacgctgcccatcaggggt	15	14	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:16000383G>A	uc002nbs.1	-	7	818	c.768C>T	c.(766-768)TTC>TTT	p.F256F	CYP4F2_uc010xot.1_Silent_p.F107F|CYP4F2_uc010xou.1_Silent_p.F107F	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	256					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						AGGCCCTGCGGAAACGCTGCC	0.572													46	223	---	---	---	---	PASS	A	16000383	A	A	16000383	2	1	147	1	0	0	0	0	0	0	0	1	4188	1165	41	2		2	CYP4F2	19	16000383	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	2084762	16000383	43128600	338	52451										
CHERP	10523	broad.mit.edu	37	chr19	16641678	16641678	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggcggccagcagctcccgggCctgcttgcgctggctgtgag	17	14	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:16641678C>T	uc002nei.1	-	6	762	c.688G>A	c.(688-690)GCC>ACC	p.A230T	MED26_uc002nee.2_Intron	NM_006387	NP_006378	Q8IWX8	CHERP_HUMAN	calcium homeostasis endoplasmic reticulum	230	CID.				cellular calcium ion homeostasis|negative regulation of cell proliferation|nervous system development|RNA processing	endoplasmic reticulum|perinuclear region of cytoplasm	RNA binding			ovary(2)	2						AGCTCCCGGGCCTGCTTGCGC	0.692													15	85	---	---	---	---	PASS	T	16641678	T	T	16641678	3	4	147	1	0	0	0	0	1	0	0	0	3336	739	26	3	2110	3	CHERP	19	16641678	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	641295	16641678	42487305	339	52452										
CPAMD8	27151	broad.mit.edu	37	chr19	17088306	17088306	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggtcacggccagatgaagagAggtcacacacacgtcgacct	12	12	2	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:17088306A>C	uc002nfb.2	-	15	1803	c.1771T>G	c.(1771-1773)TCT>GCT	p.S591A		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	544						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						AGATGAAGAGAGGTCACACAC	0.592													13	87	---	---	---	---	PASS	C	17088306	C	C	17088306	3	2	147	1	0	0	0	0	1	0	0	0	3795	304	11	5	4139	5	CPAMD8	19	17088306	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	446628	17088306	42040677	340	52453										
ZNF254	9534	broad.mit.edu	37	chr19	24309505	24309505	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ataggaaaatttatactgaaGagaaaccttacaaatgtgaa	7	4	0	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:24309505G>C	uc002nru.2	+	4	837	c.703G>C	c.(703-705)GAG>CAG	p.E235Q	ZNF254_uc010xrk.1_Missense_Mutation_p.E150Q	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	235					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				TTATACTGAAGAGAAACCTTA	0.328													49	97	---	---	---	---	PASS	C	24309505	C	C	24309505	3	2	147	1	0	0	0	0	1	0	0	0	17795	943	33	2	717	2	ZNF254	19	24309505	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	7221199	24309505	34819478	341	52454										
KIAA0355	9710	broad.mit.edu	37	chr19	34791809	34791809	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgagatcgccaagatgctaaTggaacttagtgctggggctg	14	7	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:34791809T>A	uc002nvd.3	+	2	1290	c.431T>A	c.(430-432)ATG>AAG	p.M144K	KIAA0355_uc010edk.1_Missense_Mutation_p.M134K	NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	144										ovary(1)	1	Esophageal squamous(110;0.162)					AAGATGCTAATGGAACTTAGT	0.478													11	147	---	---	---	---	PASS	A	34791809	A	A	34791809	3	1	147	1	0	0	0	0	1	0	0	0	8170	1464	51	5	433	5	KIAA0355	19	34791809	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	10482304	34791809	24337174	342	52455										
ZNF573	126231	broad.mit.edu	37	chr19	38229990	38229990	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcctgacattcaaaaagtttCttaccagtgtgaatattctg	6	8	3	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:38229990C>G	uc002ohe.2	-	4	1423	c.1401G>C	c.(1399-1401)AAG>AAC	p.K467N	ZNF573_uc010efs.2_Missense_Mutation_p.K380N|ZNF573_uc002ohd.2_Missense_Mutation_p.K465N|ZNF573_uc002ohf.2_Missense_Mutation_p.K409N|ZNF573_uc002ohg.2_Missense_Mutation_p.K379N	NM_152360	NP_689573	Q86YE8	ZN573_HUMAN	zinc finger protein 573	447					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)|Lung(45;0.0813)|LUSC - Lung squamous cell carcinoma(53;0.146)			CAAAAAGTTTCTTACCAGTGT	0.348													46	211	---	---	---	---	PASS	G	38229990	G	G	38229990	3	3	147	1	0	0	0	0	1	0	0	0	18002	912	32	2	600	2	ZNF573	19	38229990	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	3438181	38229990	20898993	343	52456										
PRX	57716	broad.mit.edu	37	chr19	40903752	40903752	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttgacagcctcggctttgagGccccgacgcaggcgggagaa	15	12	0	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:40903752G>A	uc002onr.2	-	7	776	c.507C>T	c.(505-507)GGC>GGT	p.G169G	PRX_uc002onq.2_Silent_p.G30G|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	169	Arg/Lys-rich (basic).|Nuclear localization signal (By similarity).				axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CGGCTTTGAGGCCCCGACGCA	0.672													5	16	---	---	---	---	PASS	A	40903752	A	A	40903752	2	1	147	1	0	0	0	0	0	0	0	1	12642	1190	42	3		3	PRX	19	40903752	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	2673762	40903752	18225231	344	52457										
LTBP4	8425	broad.mit.edu	37	chr19	41125356	41125356	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ccaacagcccggaagagtttGaccccatgactggacgctgt	11	13	0	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:41125356G>A	uc002ooh.1	+	26	3376	c.3376G>A	c.(3376-3378)GAC>AAC	p.D1126N	LTBP4_uc002oog.1_Missense_Mutation_p.D1089N|LTBP4_uc002ooi.1_Missense_Mutation_p.D1059N|LTBP4_uc002ooj.1_5'UTR|LTBP4_uc002ook.1_Missense_Mutation_p.D260N|LTBP4_uc002ool.1_Missense_Mutation_p.D138N|LTBP4_uc002oom.1_RNA|LTBP4_uc010xvp.1_5'UTR	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1126	Pro-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GGAAGAGTTTGACCCCATGAC	0.542													62	101	---	---	---	---	PASS	A	41125356	A	A	41125356	3	1	147	1	0	0	0	0	1	0	0	0	9076	1290	45	2	3766	2	LTBP4	19	41125356	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	221604	41125356	18003627	345	52458										
ITPKC	80271	broad.mit.edu	37	chr19	41224129	41224129	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttctcctctgcctcttctttCgacgagtctgaggatgacgt	9	12	5	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:41224129C>G	uc002oot.2	+	1	1122	c.1089C>G	c.(1087-1089)TTC>TTG	p.F363L	ADCK4_uc002oor.2_5'Flank|ADCK4_uc002oos.2_5'Flank	NM_025194	NP_079470	Q96DU7	IP3KC_HUMAN	inositol 1,4,5-trisphosphate 3-kinase C	363						cytoplasm|nucleus	ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity				0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			CCTCTTCTTTCGACGAGTCTG	0.667													27	123	---	---	---	---	PASS	G	41224129	G	G	41224129	3	3	147	1	0	0	0	0	1	0	0	0	7919	883	31	2	1091	2	ITPKC	19	41224129	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	98773	41224129	17904854	346	52459										
ITPKC	80271	broad.mit.edu	37	chr19	41245400	41245400	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cctgggctgagggcaaccgtGaggacggctacctctggggc	17	12	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:41245400G>A	uc002oot.2	+	7	2020	c.1987G>A	c.(1987-1989)GAG>AAG	p.E663K		NM_025194	NP_079470	Q96DU7	IP3KC_HUMAN	inositol 1,4,5-trisphosphate 3-kinase C	663						cytoplasm|nucleus	ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity				0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			GGGCAACCGTGAGGACGGCTA	0.637													12	33	---	---	---	---	PASS	A	41245400	A	A	41245400	3	1	147	1	0	0	0	0	1	0	0	0	7919	1291	45	2	2013	2	ITPKC	19	41245400	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	21271	41245400	17883583	347	52460										
ZFP112	7771	broad.mit.edu	37	chr19	44833689	44833689	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttgtgatgtgagagccaactGacactgtcacacttacagaa	9	9	1	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:44833689G>T	uc010ejj.2	-	5	752	c.639C>A	c.(637-639)GTC>GTA	p.V213V	ZFP112_uc002ozc.3_Silent_p.V207V|ZFP112_uc010xwy.1_Silent_p.V230V|ZFP112_uc010xwz.1_Silent_p.V212V	NM_001083335	NP_001076804	Q9UJU3	ZF112_HUMAN	zinc finger protein 228 isoform 1	213					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)	5						AGAGCCAACTGACACTGTCAC	0.358													111	218	---	---	---	---	PASS	T	44833689	T	T	44833689	2	4	147	1	0	0	0	0	0	0	0	1	17635	1277	45	2		2	ZFP112	19	44833689	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	3588289	44833689	14295294	348	52461										
ZC3H4	23211	broad.mit.edu	37	chr19	47570093	47570093	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gggtcgtagaggctgataccGctcagcacactgctctgccc	12	14	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:47570093G>A	uc002pga.3	-	15	3470	c.3432C>T	c.(3430-3432)AGC>AGT	p.S1144S	ZC3H4_uc002pgb.1_RNA	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	1144							nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		GGCTGATACCGCTCAGCACAC	0.716													7	11	---	---	---	---	PASS	A	47570093	A	A	47570093	2	1	147	1	0	0	0	0	0	0	0	1	17567	1078	38	1		1	ZC3H4	19	47570093	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	2736404	47570093	11558890	349	52462										
C5AR1	728	broad.mit.edu	37	chr19	47823920	47823920	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cctacatcaactgctgcatcAaccccatcatctacgtggtg	6	15	4	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:47823920A>C	uc002pgj.1	+	2	935	c.886A>C	c.(886-888)AAC>CAC	p.N296H		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	296	Helical; Name=7; (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		CTGCTGCATCAACCCCATCAT	0.582													7	280	---	---	---	---	PASS	C	47823920	C	C	47823920	3	2	147	1	0	0	0	0	1	0	0	0	2281	130	5	5	891	5	C5AR1	19	47823920	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	253827	47823920	11305063	350	52463										
SHANK1	50944	broad.mit.edu	37	chr19	51165684	51165684	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggcgcagggctgaccttgtgCtccgaggcgggcagcagcga	18	12	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:51165684C>T	uc002psx.1	-	23	6043	c.6024G>A	c.(6022-6024)GAG>GAA	p.E2008E	SHANK1_uc002psw.1_Silent_p.E1392E	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	2008					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		TGACCTTGTGCTCCGAGGCGG	0.716													3	9	---	---	---	---	PASS	T	51165684	T	T	51165684	2	4	147	1	0	0	0	0	0	0	0	1	14264	796	28	3		3	SHANK1	19	51165684	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	3341764	51165684	7963299	351	52464										
LILRB3	11025	broad.mit.edu	37	chr19	54745997	54745997	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctgcatggtgctgtgtcatgGatgggatggagaatctggcc	16	7	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr19:54745997G>T	uc010erh.1	-	3	384	c.260C>A	c.(259-261)TCC>TAC	p.S87Y	LILRA6_uc002qew.1_Missense_Mutation_p.S87Y|LILRB3_uc002qeh.1_Missense_Mutation_p.S87Y|LILRB3_uc002qeg.1_RNA|LILRB3_uc002qei.1_Missense_Mutation_p.S87Y|LILRA6_uc002qek.1_Missense_Mutation_p.S87Y|LILRB3_uc002qej.1_RNA|LILRA6_uc002qel.1_Missense_Mutation_p.S87Y|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Missense_Mutation_p.S87Y|LILRB3_uc002qep.1_Missense_Mutation_p.S87Y|LILRB3_uc002qeq.1_Missense_Mutation_p.S87Y|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Missense_Mutation_p.S87Y|LILRA6_uc010yep.1_Missense_Mutation_p.S87Y|LILRA6_uc010yeq.1_Missense_Mutation_p.S87Y|LILRA6_uc002qet.3_RNA|LILRA6_uc002qeu.1_Missense_Mutation_p.S87Y|LILRA6_uc002qev.1_5'Flank	NM_006864	NP_006855	O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor,	87	Extracellular (Potential).|Ig-like C2-type 1.				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	transmembrane receptor activity			skin(2)|ovary(1)	3	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CTGTGTCATGGATGGGATGGA	0.567													64	503	---	---	---	---	PASS	T	54745997	T	T	54745997	3	4	147	1	0	0	0	0	1	0	0	0	8792	1174	41	2		2	LILRB3	19	54745997	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	3580313	54745997	4382986	352	52465										
SNRPB	6628	broad.mit.edu	37	chr20	2443759	2443759	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agggggtgctcctcggcccaTaggtgggggaggacccccac	17	13	0	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr20:2443759T>C	uc002wfz.1	-	5	698	c.535A>G	c.(535-537)ATG>GTG	p.M179V	SNRPB_uc002wga.1_Missense_Mutation_p.M179V|SNRPB_uc010zpv.1_Missense_Mutation_p.M100V|SNRPB_uc002wgb.2_Missense_Mutation_p.M179V|SNORD119_uc010gam.1_5'Flank	NM_198216	NP_937859	P14678	RSMB_HUMAN	small nuclear ribonucleoprotein polypeptide B/B'	179	|Repeat-rich region.				histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	protein binding|protein binding|RNA binding			ovary(1)	1						CCTCGGCCCATAGGTGGGGGA	0.577													79	291	---	---	---	---	PASS	C	2443759	C	C	2443759	3	2	147	1	0	0	0	0	1	0	0	0	14861	1406	49	5	214	5	SNRPB	20	2443759	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08		2443759	60581761	353	52466										
NOP56	10528	broad.mit.edu	37	chr20	2635176	2635176	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ccgcaatacaggaggagttaGggtacaactgccagactgga	13	9	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr20:2635176G>C	uc002wgh.2	+	4	378	c.325G>C	c.(325-327)GGG>CGG	p.G109R	NOP56_uc010zpy.1_RNA|NOP56_uc002wgi.2_5'UTR|SNORA51_uc002wgk.1_5'Flank|NOP56_uc002wgm.1_5'Flank|SNORD86_uc010gaq.1_5'Flank|SNORD56_uc010gar.2_5'Flank|SNORD57_uc002wgo.1_5'Flank	NM_006392	NP_006383	O00567	NOP56_HUMAN	nucleolar protein 5A	109					rRNA processing	box C/D snoRNP complex|pre-snoRNP complex	protein binding|snoRNA binding			ovary(1)|pancreas(1)	2						GGAGGAGTTAGGGTACAACTG	0.522													45	186	---	---	---	---	PASS	C	2635176	C	C	2635176	3	2	147	1	0	0	0	0	1	0	0	0	10539	1000	35	4	339	4	NOP56	20	2635176	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	191417	2635176	60390344	354	52467										
C20orf26	26074	broad.mit.edu	37	chr20	20177306	20177306	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cacgggcacatgcatcacttTgccctcaaccccattttccg	6	17	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr20:20177306T>A	uc002wru.2	+	16	1759	c.1683T>A	c.(1681-1683)TTT>TTA	p.F561L	C20orf26_uc010zse.1_Missense_Mutation_p.F541L	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	561										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TGCATCACTTTGCCCTCAACC	0.453													82	117	---	---	---	---	PASS	A	20177306	A	A	20177306	3	1	147	1	0	0	0	0	1	0	0	0	2106	1809	63	5	1773	5	C20orf26	20	20177306	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	17542130	20177306	42848214	355	52468										
C20orf117	140710	broad.mit.edu	37	chr20	35425292	35425292	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agcatgcaagcacctctttaAaccatttcctccaagctcaa	4	14	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr20:35425292A>C	uc002xgd.1	-	13	3088	c.2761T>G	c.(2761-2763)TTA>GTA	p.L921V	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	921											0		Myeloproliferative disorder(115;0.00874)				CACCTCTTTAAACCATTTCCT	0.587													23	103	---	---	---	---	PASS	C	35425292	C	C	35425292	3	2	147	1	0	0	0	0	1	0	0	0	2083	11	1	5	1584	5	C20orf117	20	35425292	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	15247986	35425292	27600228	356	52469										
ZNFX1	57169	broad.mit.edu	37	chr20	47864358	47864358	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cagccactcatggacctgttCtagtcgagtcctcactcttt	7	14	4	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr20:47864358C>G	uc002xui.2	-	14	5450	c.5203G>C	c.(5203-5205)GAA>CAA	p.E1735Q		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	1735							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TGGACCTGTTCTAGTCGAGTC	0.493													96	142	---	---	---	---	PASS	G	47864358	G	G	47864358	3	3	147	1	0	0	0	0	1	0	0	0	18202	922	32	2	557	2	ZNFX1	20	47864358	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	12439066	47864358	15161162	357	52470										
GRIK1	2897	broad.mit.edu	37	chr21	30909641	30909641	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cccttagttcttgactttttCtttatttttttctgattctt	3	8	4	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr21:30909641C>G	uc011acs.1	-	17	3137	c.2673G>C	c.(2671-2673)AAG>AAC	p.K891N	GRIK1_uc002ynn.2_Missense_Mutation_p.K876N|GRIK1_uc011act.1_Missense_Mutation_p.K752N	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	Error:Variant_position_missing_in_P39086_after_alignment					central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	TTGACTTTTTCTTTATTTTTT	0.393													52	41	---	---	---	---	PASS	G	30909641	G	G	30909641	3	3	147	1	0	0	0	0	1	0	0	0	6773	912	32	2	93	2	GRIK1	21	30909641	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08		30909641	17220254	358	52471										
SFRS15	57466	broad.mit.edu	37	chr21	33065678	33065678	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tctctttttctcgatcccgtCtttcttgagatcgagatcgg	8	11	4	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr21:33065678C>A	uc002ypd.2	-	12	1868	c.1442G>T	c.(1441-1443)AGA>ATA	p.R481I	SFRS15_uc002ype.2_Missense_Mutation_p.R481I|SFRS15_uc010glu.2_Missense_Mutation_p.R466I|SFRS15_uc002ypf.1_Missense_Mutation_p.R155I	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	481						nucleus	nucleotide binding|RNA binding				0						TCGATCCCGTCTTTCTTGAGA	0.483													51	97	---	---	---	---	PASS	A	33065678	A	A	33065678	3	1	147	1	0	0	0	0	1	0	0	0	14171	913	32	2	2037	2	SFRS15	21	33065678	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	2156037	33065678	15064217	359	52472										
SIM2	6493	broad.mit.edu	37	chr21	38072165	38072165	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cacttcgcagctggacaaagCgtccatcatccgcctcacca	7	17	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr21:38072165C>T	uc002yvr.2	+	1	175	c.119C>T	c.(118-120)GCG>GTG	p.A40V	SIM2_uc002yvp.2_Missense_Mutation_p.A40V|SIM2_uc002yvq.2_Missense_Mutation_p.A40V	NM_005069	NP_005060	Q14190	SIM2_HUMAN	single-minded homolog 2 long isoform	40	Helix-loop-helix motif.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(1)	1						CTGGACAAAGCGTCCATCATC	0.647													10	4	---	---	---	---	PASS	T	38072165	T	T	38072165	3	4	147	1	0	0	0	0	1	0	0	0	14324	768	27	1	121	1	SIM2	21	38072165	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	5006487	38072165	10057730	360	52473										
HLCS	3141	broad.mit.edu	37	chr21	38309157	38309157	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcctccagcaggtggtagagAatataactgtcaatgtccac	9	10	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr21:38309157A>T	uc010gnb.2	-	4	1789	c.588T>A	c.(586-588)ATT>ATA	p.I196I	HLCS_uc002yvs.2_Silent_p.I196I|HLCS_uc010gnc.1_Silent_p.I343I	NM_000411	NP_000402	P50747	BPL1_HUMAN	holocarboxylase synthetase	196					cell proliferation|histone biotinylation|response to biotin	chromatin|cytosol|mitochondrion|nuclear lamina|nuclear matrix	ATP binding|biotin binding|biotin-[acetyl-CoA-carboxylase] ligase activity|biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity|biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity|biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity|enzyme binding			ovary(2)|breast(1)|kidney(1)|liver(1)	5		Myeloproliferative disorder(46;0.0422)			Biotin(DB00121)	GGTGGTAGAGAATATAACTGT	0.577													18	64	---	---	---	---	PASS	T	38309157	T	T	38309157	2	4	147	1	0	0	0	0	0	0	0	1	7213	242	9	5		5	HLCS	21	38309157	Silent	SNP	A	TCGA-66-2758-01A-02D-1522-08	236992	38309157	9820738	361	52474										
MCM3AP	8888	broad.mit.edu	37	chr21	47704496	47704496	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	aatattgacttaggtcctctCttctcttcctctacattttg	4	11	3	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr21:47704496C>G	uc002zir.1	-	1	741	c.705G>C	c.(703-705)AAG>AAC	p.K235N	C21orf57_uc002zit.1_5'Flank|C21orf57_uc002ziu.1_5'Flank|C21orf57_uc002ziv.2_5'Flank|C21orf57_uc002ziw.2_5'Flank|C21orf57_uc002zix.2_5'Flank|C21orf57_uc010gqh.2_5'Flank|C21orf57_uc002ziy.2_5'Flank	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	235					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					TAGGTCCTCTCTTCTCTTCCT	0.393													32	108	---	---	---	---	PASS	G	47704496	G	G	47704496	3	3	147	1	0	0	0	0	1	0	0	0	9388	912	32	2	5349	2	MCM3AP	21	47704496	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	9395339	47704496	425399	362	52475										
PI4KA	5297	broad.mit.edu	37	chr22	21101933	21101933	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gatgctctcagtggccatggCcagccccgtgtgctgggaca	14	13	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:21101933C>T	uc002zsz.3	-	29	3358	c.3127G>A	c.(3127-3129)GCC>ACC	p.A1043T		NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1043					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			GTGGCCATGGCCAGCCCCGTG	0.483													4	142	---	---	---	---	PASS	T	21101933	T	T	21101933	3	4	147	1	0	0	0	0	1	0	0	0	11873	739	26	3	3115	3	PI4KA	22	21101933	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08		21101933	30202633	363	52476										
C22orf43	51233	broad.mit.edu	37	chr22	23962792	23962792	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggtacataccctggacacgtGacggtaaaatctgcaacgag	11	10	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:23962792G>T	uc002zxf.2	-	5	672	c.395C>A	c.(394-396)TCA>TAA	p.S132*		NM_016449	NP_057533	Q6PGQ1	CV043_HUMAN	hypothetical protein LOC51233	132	Asp-rich.									skin(1)	1						CTGGACACGTGACGGTAAAAT	0.393													48	196	---	---	---	---	PASS	T	23962792	T	T	23962792	4	4	147	1	0	0	0	0	0	1	0	0	2150	1294	45	2	326	2	C22orf43	22	23962792	Nonsense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	2860859	23962792	27341774	364	52477										
FOXRED2	80020	broad.mit.edu	37	chr22	36900335	36900335	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tttgctgtccttcaggatggCcagatccgtcaggtcagact	11	11	3	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:36900335C>G	uc003apn.3	-	3	967	c.859G>C	c.(859-861)GCC>CCC	p.A287P	FOXRED2_uc003apo.3_Missense_Mutation_p.A287P|FOXRED2_uc003app.3_Missense_Mutation_p.A287P	NM_024955	NP_079231	Q8IWF2	FXRD2_HUMAN	FAD-dependent oxidoreductase domain containing 2	287					ER-associated protein catabolic process	endoplasmic reticulum lumen	flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			lung(1)|kidney(1)	2						TTCAGGATGGCCAGATCCGTC	0.567													30	132	---	---	---	---	PASS	G	36900335	G	G	36900335	3	3	147	1	0	0	0	0	1	0	0	0	6034	739	26	4	1219	4	FOXRED2	22	36900335	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	12937543	36900335	14404231	365	52478										
PVALB	5816	broad.mit.edu	37	chr22	37211230	37211230	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	acatcatccgcactctttttCttcaggccgaccatttggaa	6	13	4	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:37211230C>G	uc010gwz.2	-	2	141	c.111G>C	c.(109-111)AAG>AAC	p.K37N	PVALB_uc003apx.2_Missense_Mutation_p.K37N	NM_002854	NP_002845	P20472	PRVA_HUMAN	parvalbumin	37							calcium ion binding			skin(1)	1						CACTCTTTTTCTTCAGGCCGA	0.522													3	138	---	---	---	---	PASS	G	37211230	G	G	37211230	3	3	147	1	0	0	0	0	1	0	0	0	12836	912	32	2	233	2	PVALB	22	37211230	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	310895	37211230	14093336	366	52479										
TRIOBP	11078	broad.mit.edu	37	chr22	38121718	38121718	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cgcccctgagagtgaaccgcCccaccacgagcctccctata	8	19	0	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:38121718C>A	uc003atr.2	+	7	3426	c.3155C>A	c.(3154-3156)CCC>CAC	p.P1052H	TRIOBP_uc003atu.2_Missense_Mutation_p.P880H|TRIOBP_uc003atq.1_Missense_Mutation_p.P1052H|TRIOBP_uc003ats.1_Missense_Mutation_p.P880H	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1052					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					AGTGAACCGCCCCACCACGAG	0.672													95	85	---	---	---	---	PASS	A	38121718	A	A	38121718	3	1	147	1	0	0	0	0	1	0	0	0	16550	623	22	3	3173	3	TRIOBP	22	38121718	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	910488	38121718	13182848	367	52480										
TMEM184B	25829	broad.mit.edu	37	chr22	38621457	38621457	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	agaaggaaagaaagatgacgGacttgaccatgaagaacttg	12	5	0	7			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:38621457G>A	uc003avf.1	-	7	985	c.761C>T	c.(760-762)TCC>TTC	p.S254F	TMEM184B_uc003avg.1_Missense_Mutation_p.S254F|TMEM184B_uc003avh.1_Missense_Mutation_p.S188F|TMEM184B_uc010gxl.1_RNA	NM_012264	NP_036396	Q9Y519	T184B_HUMAN	transmembrane protein 184B	254	Helical; (Potential).					integral to membrane					0	Melanoma(58;0.045)					AAAGATGACGGACTTGACCAT	0.617													51	109	---	---	---	---	PASS	A	38621457	A	A	38621457	3	1	147	1	0	0	0	0	1	0	0	0	16102	1174	41	2	474	2	TMEM184B	22	38621457	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	499739	38621457	12683109	368	52481										
RPL3	6122	broad.mit.edu	37	chr22	39709250	39709250	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cggccatggccaaacttggaGgtggtgtcaatgaacttaag	13	8	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:39709250G>A	uc003axi.2	-	9	1181	c.1113C>T	c.(1111-1113)ACC>ACT	p.T371T	RPL3_uc003axh.2_Silent_p.T322T|RPL3_uc003axj.2_Silent_p.T219T|RPL3_uc010gxx.2_Intron|RPL3_uc003axg.2_Silent_p.T319T|RPL3_uc003axk.1_Silent_p.T219T	NM_000967	NP_000958	P39023	RL3_HUMAN	ribosomal protein L3 isoform a	371					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome			breast(1)|kidney(1)	2	Melanoma(58;0.04)					CAAACTTGGAGGTGGTGTCAA	0.572													11	22	---	---	---	---	PASS	A	39709250	A	A	39709250	2	1	147	1	0	0	0	0	0	0	0	1	13579	987	35	3		3	RPL3	22	39709250	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	1087793	39709250	11595316	369	52482										
TNRC6B	23112	broad.mit.edu	37	chr22	40661018	40661018	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	atcttggggtctggaaatctGaccctaaggctaaatctgtt	10	8	4	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:40661018G>T	uc011aor.1	+	5	995	c.784G>T	c.(784-786)GAC>TAC	p.D262Y	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Missense_Mutation_p.D262Y|TNRC6B_uc003ayo.2_Missense_Mutation_p.D66Y	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	262					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						CTGGAAATCTGACCCTAAGGC	0.463													23	140	---	---	---	---	PASS	T	40661018	T	T	40661018	3	4	147	1	0	0	0	0	1	0	0	0	16338	1290	45	2	923	2	TNRC6B	22	40661018	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	951768	40661018	10643548	370	52483										
TNRC6B	23112	broad.mit.edu	37	chr22	40676076	40676076	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ttaatgatatcatgaggaagGatcgatctgggttccgtcca	11	7	2	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:40676076G>C	uc011aor.1	+	10	3551	c.3340G>C	c.(3340-3342)GAT>CAT	p.D1114H	TNRC6B_uc003aym.2_Missense_Mutation_p.D367H|TNRC6B_uc003ayn.3_Missense_Mutation_p.D1061H|TNRC6B_uc003ayo.2_Missense_Mutation_p.D918H	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1114					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						CATGAGGAAGGATCGATCTGG	0.403													6	382	---	---	---	---	PASS	C	40676076	C	C	40676076	3	2	147	1	0	0	0	0	1	0	0	0	16338	1174	41	2	3499	2	TNRC6B	22	40676076	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	15058	40676076	10628490	371	52484										
PNPLA5	150379	broad.mit.edu	37	chr22	44285245	44285245	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	atgagacatatgagccccagGaagaagttctcagtggagat	12	7	1	4			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:44285245G>C	uc003beg.2	-	4	763	c.666C>G	c.(664-666)TTC>TTG	p.F222L	PNPLA5_uc011aqc.1_Missense_Mutation_p.F82L|PNPLA5_uc003beh.2_Missense_Mutation_p.F108L	NM_138814	NP_620169	Q7Z6Z6	PLPL5_HUMAN	patatin-like phospholipase domain containing 5	222					lipid catabolic process		hydrolase activity				0		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				TGAGCCCCAGGAAGAAGTTCT	0.567													40	255	---	---	---	---	PASS	C	44285245	C	C	44285245	3	2	147	1	0	0	0	0	1	0	0	0	12168	1165	41	2	647	2	PNPLA5	22	44285245	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	3609169	44285245	7019321	372	52485										
LDOC1L	84247	broad.mit.edu	37	chr22	44892926	44892926	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtaggttctccgcaactctgCcaggaacccctgatagttgt	10	12	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:44892926C>T	uc003beu.1	-	2	848	c.511G>A	c.(511-513)GCA>ACA	p.A171T		NM_032287	NP_115663	Q6ICC9	LDOCL_HUMAN	leucine zipper, down-regulated in cancer 1-like	171										ovary(1)	1		Ovarian(80;0.024)|all_neural(38;0.0416)		LUAD - Lung adenocarcinoma(64;0.0161)		CGCAACTCTGCCAGGAACCCC	0.597													36	65	---	---	---	---	PASS	T	44892926	T	T	44892926	3	4	147	1	0	0	0	0	1	0	0	0	8710	739	26	3	212	3	LDOC1L	22	44892926	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	607681	44892926	6411640	373	52486										
CELSR1	9620	broad.mit.edu	37	chr22	46780531	46780531	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcatggatggtgtcgaatcgCgggaccctggctcccgtaaa	13	11	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:46780531C>A	uc003bhw.1	-	20	6792	c.6792G>T	c.(6790-6792)CCG>CCT	p.P2264P	CELSR1_uc011arc.1_Silent_p.P585P	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2264	Extracellular (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TGTCGAATCGCGGGACCCTGG	0.522													38	53	---	---	---	---	PASS	A	46780531	A	A	46780531	2	1	147	1	0	0	0	0	0	0	0	1	3221	755	27	1		1	CELSR1	22	46780531	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	1887605	46780531	4524035	374	52487										
ZBED4	9889	broad.mit.edu	37	chr22	50280595	50280596	+	Frame_Shift_Del	DEL	AC	-	-													0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctggaggaggaggtgcttgaAcacagctgtgacccgctcac							TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:50280595_50280596delAC	uc003bix.2	+	2	3755_3756	c.3285_3286delAC	c.(3283-3288)GAACACfs	p.E1095fs		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	1095_1096						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		AGGTGCTTGAACACAGCTGTGA	0.579													76	44	---	---	---	---		-	50280596	-	-	50280595	7	5	147	1	0	1	0	1	0	0	0	0	17517	40	2	0	3287	0	ZBED4	22	50280595	Frame_Shift_Del	DEL	AC	TCGA-66-2758-01A-02D-1522-08	3500064	50280595	1023971	375	52488										
MOV10L1	54456	broad.mit.edu	37	chr22	50582559	50582559	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgccggacagtcggattttaGtctgtgcgccctccaacagt	11	12	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chr22:50582559G>C	uc003bjj.2	+	18	2475	c.2392G>C	c.(2392-2394)GTC>CTC	p.V798L	MOV10L1_uc003bjk.3_Missense_Mutation_p.V798L|MOV10L1_uc011arp.1_Missense_Mutation_p.V778L|MOV10L1_uc003bjl.2_5'Flank	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	798					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		TCGGATTTTAGTCTGTGCGCC	0.572													9	559	---	---	---	---	PASS	C	50582559	C	C	50582559	3	2	147	1	0	0	0	0	1	0	0	0	9719	1029	36	4	2503	4	MOV10L1	22	50582559	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	301964	50582559	722007	376	52489										
GEMIN8	54960	broad.mit.edu	37	chrX	14038351	14038351	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tcttcttttgtggatgcctgGatcctactgctgtaacgtgg	11	9	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:14038351G>C	uc004cwb.2	-	4	661	c.318C>G	c.(316-318)ATC>ATG	p.I106M	GEMIN8_uc004cwc.2_Missense_Mutation_p.I106M|GEMIN8_uc004cwd.2_Missense_Mutation_p.I106M	NM_017856	NP_060326	Q9NWZ8	GEMI8_HUMAN	gem (nuclear organelle) associated protein 8	106					spliceosomal snRNP assembly	Cajal body|cytoplasm|SMN complex|spliceosomal complex	protein binding				0						TGGATGCCTGGATCCTACTGC	0.483													77	78	---	---	---	---	PASS	C	14038351	C	C	14038351	3	2	147	1	0	0	0	0	1	0	0	0	6334	1164	41	2	418	2	GEMIN8	23	14038351	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08		14038351	141232209	377	52490										
GRPR	2925	broad.mit.edu	37	chrX	16170713	16170713	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cctcaagagtaccaacccctCcgtggccacctttagcctca	6	18	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:16170713C>G	uc004cxj.2	+	3	1753	c.1100C>G	c.(1099-1101)TCC>TGC	p.S367C		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	367	Cytoplasmic (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					ACCAACCCCTCCGTGGCCACC	0.532													78	88	---	---	---	---	PASS	G	16170713	G	G	16170713	3	3	147	1	0	0	0	0	1	0	0	0	6808	855	30	2	1110	2	GRPR	23	16170713	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	2132362	16170713	139099847	378	52491										
TBC1D25	4943	broad.mit.edu	37	chrX	48418401	48418401	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tggccgccaacttccaccctGacggccgcgccatggccacc	10	20	0	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:48418401G>A	uc004dka.1	+	6	1216	c.1105G>A	c.(1105-1107)GAC>AAC	p.D369N	TBC1D25_uc011mly.1_Missense_Mutation_p.D311N|TBC1D25_uc004dkb.1_Missense_Mutation_p.D115N|TBC1D25_uc011mlz.1_Missense_Mutation_p.D115N|TBC1D25_uc011mma.1_Missense_Mutation_p.D115N|TBC1D25_uc004dkc.1_Missense_Mutation_p.D115N|TBC1D25_uc011mmb.1_Missense_Mutation_p.D373N|TBC1D25_uc011mmc.1_Missense_Mutation_p.D115N|TBC1D25_uc011mmd.1_Missense_Mutation_p.D115N	NM_002536	NP_002527	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	369	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			ovary(1)	1						CTTCCACCCTGACGGCCGCGC	0.562													20	7	---	---	---	---	PASS	A	48418401	A	A	48418401	3	1	147	1	0	0	0	0	1	0	0	0	15612	1290	45	2	1127	2	TBC1D25	23	48418401	Missense_Mutation	SNP	G	TCGA-66-2758-01A-02D-1522-08	32247688	48418401	106852159	379	52492										
KCND1	3750	broad.mit.edu	37	chrX	48826210	48826210	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tggcagggctgggccgtcccCggcctgctctgcctcctcat	13	17	2	0	rs147309267		TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:48826210C>T	uc004dlx.1	-	1	2042	c.469G>A	c.(469-471)GGG>AGG	p.G157R	KCND1_uc004dlw.1_5'Flank	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	157	Cytoplasmic (Potential).					voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						GGGCCGTCCCCGGCCTGCTCT	0.647													6	8	---	---	---	---	PASS	T	48826210	T	T	48826210	3	4	147	1	0	0	0	0	1	0	0	0	8018	652	23	1	1498	1	KCND1	23	48826210	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	407809	48826210	106444350	380	52493										
FAAH2	158584	broad.mit.edu	37	chrX	57313306	57313306	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cagttgttcctcttgcgggcGctaggctttctcataggctt	11	11	2	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:57313306G>C	uc004dvc.2	+	1	197	c.48G>C	c.(46-48)GCG>GCC	p.A16A		NM_174912	NP_777572	Q6GMR7	FAAH2_HUMAN	fatty acid amide hydrolase 2	16	Helical; (Potential).					integral to membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|hydrolase activity			ovary(3)	3						TCTTGCGGGCGCTAGGCTTTC	0.567										HNSCC(52;0.14)			7	18	---	---	---	---	PASS	C	57313306	C	C	57313306	2	2	147	1	0	0	0	0	0	0	0	1	5354	1074	38	4		4	FAAH2	23	57313306	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	8487096	57313306	97957254	381	52494										
STARD8	9754	broad.mit.edu	37	chrX	67940189	67940189	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ggtgccacccctcatccacgTgcagcgcacgggccagccac	11	19	1	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:67940189T>C	uc004dxa.2	+	7	2105	c.1733T>C	c.(1732-1734)GTG>GCG	p.V578A	STARD8_uc004dxb.2_Missense_Mutation_p.V658A|STARD8_uc004dxc.3_Missense_Mutation_p.V578A	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	578	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						CTCATCCACGTGCAGCGCACG	0.607													12	0	---	---	---	---	PASS	C	67940189	C	C	67940189	3	2	147	1	0	0	0	0	1	0	0	0	15262	1696	59	5	2003	5	STARD8	23	67940189	Missense_Mutation	SNP	T	TCGA-66-2758-01A-02D-1522-08	10626883	67940189	87330371	382	52495										
RLIM	51132	broad.mit.edu	37	chrX	73812708	73812708	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	attctctgaattttggctccCattattacggttaacattta	5	8	1	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:73812708C>G	uc004ebu.2	-	5	732	c.442G>C	c.(442-444)GGG>CGG	p.G148R	RLIM_uc004ebw.2_Missense_Mutation_p.G148R	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	148					random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TTTTGGCTCCCATTATTACGG	0.418													5	296	---	---	---	---	PASS	G	73812708	G	G	73812708	3	3	147	1	0	0	0	0	1	0	0	0	13390	594	21	4	1436	4	RLIM	23	73812708	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	5872519	73812708	81457852	383	52496										
GPR174	84636	broad.mit.edu	37	chrX	78426582	78426582	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tttatttatgcagtgacataCactgtcattcttgtgccagg	8	8	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:78426582C>G	uc004edg.1	+	1	114	c.78C>G	c.(76-78)TAC>TAG	p.Y26*		NM_032553	NP_115942	Q9BXC1	GP174_HUMAN	putative purinergic receptor FKSG79	26	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)|central_nervous_system(1)	2						CAGTGACATACACTGTCATTC	0.373										HNSCC(63;0.18)			4	59	---	---	---	---	PASS	G	78426582	G	G	78426582	4	3	147	1	0	0	0	0	0	1	0	0	6672	489	17	4	80	4	GPR174	23	78426582	Nonsense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	4613874	78426582	76843978	384	52497										
TBX22	50945	broad.mit.edu	37	chrX	79282760	79282760	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	ctattgaatccatagattacGaaactaaaaatagaaagaaa	5	5	0	4	rs150811689	byFrequency	TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:79282760G>C	uc010nmg.1	+	7	938	c.804G>C	c.(802-804)ACG>ACC	p.T268T	TBX22_uc004edi.1_Silent_p.T148T|TBX22_uc004edj.1_Silent_p.T268T	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	268	T-box.				multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						CATAGATTACGAAACTAAAAA	0.348													15	7	---	---	---	---	PASS	C	79282760	C	C	79282760	2	2	147	1	0	0	0	0	0	0	0	1	15655	1045	37	2		2	TBX22	23	79282760	Silent	SNP	G	TCGA-66-2758-01A-02D-1522-08	856178	79282760	75987800	385	52498										
DIAPH2	1730	broad.mit.edu	37	chrX	96684741	96684741	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gaaagcggattccaaggaatCcaggtaaaacacattccacc	8	11	0	0			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:96684741C>G	uc004efu.3	+	26	3634	c.3238C>G	c.(3238-3240)CCA>GCA	p.P1080A	DIAPH2_uc004eft.3_Missense_Mutation_p.P1080A	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	1080	DAD.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						TCCAAGGAATCCAGGTAAAAC	0.393													38	30	---	---	---	---	PASS	G	96684741	G	G	96684741	3	3	147	1	0	0	0	0	1	0	0	0	4519	855	30	2	3340	2	DIAPH2	23	96684741	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	17401981	96684741	58585819	386	52499										
ARHGAP36	158763	broad.mit.edu	37	chrX	130217169	130217169	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	tgaccgtccgaacaccttggAtaagtggtttctgattttga	10	8	1	3			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:130217169A>G	uc004evz.2	+	3	629	c.284A>G	c.(283-285)GAT>GGT	p.D95G	ARHGAP36_uc004ewa.2_Missense_Mutation_p.D83G|ARHGAP36_uc004ewb.2_Missense_Mutation_p.D64G|ARHGAP36_uc004ewc.2_5'Flank	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	95					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						AACACCTTGGATAAGTGGTTT	0.413													152	60	---	---	---	---	PASS	G	130217169	G	G	130217169	3	3	147	1	0	0	0	0	1	0	0	0	883	333	12	5	290	5	ARHGAP36	23	130217169	Missense_Mutation	SNP	A	TCGA-66-2758-01A-02D-1522-08	33532428	130217169	25053391	387	52500										
SPANXN2	494119	broad.mit.edu	37	chrX	142795457	142795457	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	cgggattgatggagttctctCgggactggtccttctccagt	13	10	2	1			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:142795457C>T	uc004fbz.2	-	2	975	c.221G>A	c.(220-222)CGA>CAA	p.R74Q		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	74										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					GGAGTTCTCTCGGGACTGGTC	0.428													7	392	---	---	---	---	PASS	T	142795457	T	T	142795457	3	4	147	1	0	0	0	0	1	0	0	0	14991	884	31	2	325	2	SPANXN2	23	142795457	Missense_Mutation	SNP	C	TCGA-66-2758-01A-02D-1522-08	12578288	142795457	12475103	388	52501										
ATP2B3	492	broad.mit.edu	37	chrX	152823611	152823611	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gccaaggaggcctccgacatCatcctgaccgatgacaactt	9	14	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:152823611C>T	uc004fht.1	+	15	2601	c.2475C>T	c.(2473-2475)ATC>ATT	p.I825I	ATP2B3_uc004fhs.1_Silent_p.I825I|ATP2B3_uc010nuf.1_5'Flank	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	825	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCTCCGACATCATCCTGACCG	0.597													147	39	---	---	---	---	PASS	T	152823611	T	T	152823611	2	4	147	1	0	0	0	0	0	0	0	1	1141	816	29	2		2	ATP2B3	23	152823611	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	10028154	152823611	2446949	389	52502										
L1CAM	3897	broad.mit.edu	37	chrX	153132842	153132842	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.176623376623377	68	3.19099484018492e-11	2.37203677686685	3.26291852481065	1.47233441755728	6.41212716169862e-05	0.00189157751270109	39	gtgaccacagtctcagagacCgggctgggctccccggggcc	15	15	1	2			TCGA-66-2758-01A-02D-1522-08	TCGA-66-2758-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	71c4e854-a704-4787-a37a-fa6642ca5dac	bf99451b-c7c8-48d9-af74-8ca9486fc9da	g.chrX:153132842C>A	uc004fjb.2	-	16	2214	c.2106G>T	c.(2104-2106)CCG>CCT	p.P702P	L1CAM_uc004fjc.2_Silent_p.P702P|L1CAM_uc010nuo.2_Silent_p.P697P	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	702	Fibronectin type-III 1.|Extracellular (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TCTCAGAGACCGGGCTGGGCT	0.602													162	47	---	---	---	---	PASS	A	153132842	A	A	153132842	2	1	147	1	0	0	0	0	0	0	0	1	8588	639	23	1		1	L1CAM	23	153132842	Silent	SNP	C	TCGA-66-2758-01A-02D-1522-08	309231	153132842	2137718	390	52503										
PER3	8863	broad.mit.edu	37	chr1	7845624	7845624	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gatgccctcaactatgctctCcgctgtgtccacagcgttca	8	15	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:7845624C>G	uc001aoo.2	+	2	427	c.252C>G	c.(250-252)CTC>CTG	p.L84L	PER3_uc009vmg.1_Silent_p.L84L|PER3_uc009vmh.1_Silent_p.L84L|PER3_uc001aop.2_Silent_p.L84L|PER3_uc010nzw.1_5'UTR|PER3_uc001aon.2_Silent_p.L84L	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	84					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		ACTATGCTCTCCGCTGTGTCC	0.473													13	60	---	---	---	---	PASS	G	7845624	G	G	7845624	2	3	148	1	0	0	0	0	0	0	0	1	11731	842	30	2		2	PER3	1	7845624	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08		7845624	241404997	1	52504										
CLSTN1	22883	broad.mit.edu	37	chr1	9811556	9811556	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttgtcaacagtaaagggcacGtctggagtgatgatttcgta	12	6	2	2	rs140241620		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:9811556G>A	uc001aqh.2	-	5	1383	c.624C>T	c.(622-624)GAC>GAT	p.D208D	CLSTN1_uc001aqi.2_Silent_p.D198D|CLSTN1_uc010oag.1_Silent_p.D208D	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	208	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		TAAAGGGCACGTCTGGAGTGA	0.532													16	116	---	---	---	---	PASS	A	9811556	A	A	9811556	2	1	148	1	0	0	0	0	0	0	0	1	3561	1136	40	1		1	CLSTN1	1	9811556	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	1965932	9811556	239439065	2	52505										
MTHFR	4524	broad.mit.edu	37	chr1	11863045	11863045	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctcatcttctcccggagtctCtcatgccgctcggggtccag	10	16	5	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:11863045C>G	uc001atc.1	-	2	313	c.129G>C	c.(127-129)GAG>GAC	p.E43D	MTHFR_uc001atb.1_Missense_Mutation_p.E66D|MTHFR_uc001atd.1_RNA|MTHFR_uc009vnd.1_RNA	NM_005957	NP_005948	P42898	MTHR_HUMAN	5,10-methylenetetrahydrofolate reductase	43					blood circulation|folic acid metabolic process	cytosol	methylenetetrahydrofolate reductase (NADPH) activity|protein binding				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)	Benazepril(DB00542)|Cyanocobalamin(DB00115)|Folic Acid(DB00158)|L-Methionine(DB00134)|Menadione(DB00170)|Methotrexate(DB00563)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|Raltitrexed(DB00293)|Riboflavin(DB00140)|S-Adenosylmethionine(DB00118)|Tetrahydrofolic acid(DB00116)	CCCGGAGTCTCTCATGCCGCT	0.587													13	52	---	---	---	---	PASS	G	11863045	G	G	11863045	3	3	148	1	0	0	0	0	1	0	0	0	9931	912	32	2	1885	2	MTHFR	1	11863045	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	2051489	11863045	237387576	3	52506										
AADACL3	126767	broad.mit.edu	37	chr1	12785627	12785627	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atccctgagaggtttaaggaGaggggttaccaactgaagcc	13	8	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:12785627G>A	uc009vnn.1	+	4	950	c.717G>A	c.(715-717)GAG>GAA	p.E239E	AADACL3_uc001aug.1_Silent_p.E169E	NM_001103170	NP_001096640	Q5VUY0	ADCL3_HUMAN	arylacetamide deacetylase-like 3 isoform 1	239							hydrolase activity				0	Ovarian(185;0.249)	Lung NSC(185;8.27e-05)|all_lung(284;9.47e-05)|Renal(390;0.000147)|Colorectal(325;0.000583)|Breast(348;0.000596)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		GGTTTAAGGAGAGGGGTTACC	0.502													41	165	---	---	---	---	PASS	A	12785627	A	A	12785627	2	1	148	1	0	0	0	0	0	0	0	1	12	933	33	2		2	AADACL3	1	12785627	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	922582	12785627	236464994	4	52507										
RNF186	54546	broad.mit.edu	37	chr1	20141334	20141334	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cccccggggacggcggtgacCttgcggcacagcgggcaggt	18	14	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:20141334C>G	uc001bcr.2	-	1	438	c.261G>C	c.(259-261)AAG>AAC	p.K87N		NM_019062	NP_061935	Q9NXI6	RN186_HUMAN	ring finger protein 186	87						integral to membrane	zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;7.77e-05)|Kidney(64;0.000162)|GBM - Glioblastoma multiforme(114;0.00036)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CGGCGGTGACCTTGCGGCACA	0.672													18	82	---	---	---	---	PASS	G	20141334	G	G	20141334	3	3	148	1	0	0	0	0	1	0	0	0	13469	680	24	4	426	4	RNF186	1	20141334	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	7355707	20141334	229109287	5	52508										
EPHB2	2048	broad.mit.edu	37	chr1	23111401	23111401	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aggaaaccctgtcgggggctGagagcacatcgctggtggct	16	10	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:23111401G>A	uc009vqj.1	+	3	788	c.643G>A	c.(643-645)GAG>AAG	p.E215K	EPHB2_uc001bge.2_Missense_Mutation_p.E215K|EPHB2_uc001bgf.2_Missense_Mutation_p.E215K|EPHB2_uc010odu.1_Missense_Mutation_p.E215K	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	215	Extracellular (Potential).|Cys-rich.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		GTCGGGGGCTGAGAGCACATC	0.627									Hereditary_Prostate_Cancer				21	56	---	---	---	---	PASS	A	23111401	A	A	23111401	3	1	148	1	0	0	0	0	1	0	0	0	5175	1291	45	2	653	2	EPHB2	1	23111401	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2970067	23111401	226139220	6	52509										
MED18	54797	broad.mit.edu	37	chr1	28661072	28661072	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cccatttgttctcagggcccGacgctctatggacagggcag	12	13	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:28661072G>T	uc001bpt.3	+	3	463	c.218G>T	c.(217-219)CGA>CTA	p.R73L	MED18_uc009vtg.2_Missense_Mutation_p.R73L	NM_017638	NP_060108	Q9BUE0	MED18_HUMAN	mediator complex subunit 18	73					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex	identical protein binding				0		Colorectal(325;0.000147)|Lung NSC(340;0.000818)|all_lung(284;0.000996)|Renal(390;0.00357)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0557)|Ovarian(437;0.113)		OV - Ovarian serous cystadenocarcinoma(117;2.36e-22)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0141)|READ - Rectum adenocarcinoma(331;0.0649)		CTCAGGGCCCGACGCTCTATG	0.572													97	329	---	---	---	---	PASS	T	28661072	T	T	28661072	3	4	148	1	0	0	0	0	1	0	0	0	9436	1058	37	2	224	2	MED18	1	28661072	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	5549671	28661072	220589549	7	52510										
TINAGL1	64129	broad.mit.edu	37	chr1	32050834	32050834	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccccctgtatgatgcacagcCgagccatgggtcggggcaag	14	13	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:32050834C>T	uc001bta.2	+	8	1066	c.940C>T	c.(940-942)CGA>TGA	p.R314*	TINAGL1_uc001bsz.2_Nonsense_Mutation_p.R169*|TINAGL1_uc010ogj.1_Nonsense_Mutation_p.R283*|TINAGL1_uc010ogk.1_Nonsense_Mutation_p.R314*	NM_022164	NP_071447	Q9GZM7	TINAL_HUMAN	tubulointerstitial nephritis antigen-like 1	314					endosome transport|immune response|proteolysis	extracellular region	cysteine-type endopeptidase activity|extracellular matrix structural constituent|polysaccharide binding|scavenger receptor activity				0		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		STAD - Stomach adenocarcinoma(196;0.0526)|READ - Rectum adenocarcinoma(331;0.145)		GATGCACAGCCGAGCCATGGG	0.617													60	78	---	---	---	---	PASS	T	32050834	T	T	32050834	4	4	148	1	0	0	0	0	0	1	0	0	15919	644	23	1	966	1	TINAGL1	1	32050834	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3389762	32050834	217199787	8	52511										
ZC3H12A	80149	broad.mit.edu	37	chr1	37948776	37948776	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggaactttggggggttcgagGaggaggccctggtgagccgg	21	7	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:37948776G>A	uc001cbb.3	+	6	1514	c.1364G>A	c.(1363-1365)GGA>GAA	p.G455E	ZC3H12A_uc001cbc.1_Missense_Mutation_p.G250E	NM_025079	NP_079355	Q5D1E8	ZC12A_HUMAN	zinc finger CCCH-type containing 12A	455					angiogenesis|apoptosis|cell differentiation	cytoplasm|nucleus|plasma membrane	endonuclease activity|metal ion binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GGGGTTCGAGGAGGAGGCCCT	0.647													26	43	---	---	---	---	PASS	A	37948776	A	A	37948776	3	1	148	1	0	0	0	0	1	0	0	0	17558	1174	41	2	1382	2	ZC3H12A	1	37948776	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	5897942	37948776	211301845	9	52512										
RLF	6018	broad.mit.edu	37	chr1	40661370	40661370	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tattggttcatgttaccaagGaaggggtgtggaaaaaccca	12	6	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:40661370G>A	uc001cfc.3	+	4	572	c.541G>A	c.(541-543)GAA>AAA	p.E181K		NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	181					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			TGTTACCAAGGAAGGGGTGTG	0.378													46	59	---	---	---	---	PASS	A	40661370	A	A	40661370	3	1	148	1	0	0	0	0	1	0	0	0	13389	1175	41	2	555	2	RLF	1	40661370	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2712594	40661370	208589251	10	52513										
PPCS	79717	broad.mit.edu	37	chr1	42925442	42925442	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tggtggtggctaatatccttGagtcacgacagtcctttgtg	12	8	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:42925442G>C	uc001chl.2	+	3	845	c.781G>C	c.(781-783)GAG>CAG	p.E261Q	PPCS_uc001chk.2_Missense_Mutation_p.E88Q	NM_024664	NP_078940	Q9HAB8	PPCS_HUMAN	phosphopantothenoylcysteine synthetase isoform	261					coenzyme biosynthetic process|pantothenate metabolic process	cytosol	phosphopantothenate--cysteine ligase activity				0	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				TAATATCCTTGAGTCACGACA	0.403													88	165	---	---	---	---	PASS	C	42925442	C	C	42925442	3	2	148	1	0	0	0	0	1	0	0	0	12305	1291	45	2	791	2	PPCS	1	42925442	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2264072	42925442	206325179	11	52514										
DMBX1	127343	broad.mit.edu	37	chr1	46972718	46972718	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtgaacggctactcactgcaCgccatgaactcactcagcgc	9	15	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:46972718C>A	uc001cpx.2	+	1	51	c.36C>A	c.(34-36)CAC>CAA	p.H12Q	DMBX1_uc001cpw.2_Missense_Mutation_p.H12Q	NM_147192	NP_671725	Q8NFW5	DMBX1_HUMAN	diencephalon/mesencephalon homeobox 1 isoform b	12	Interacts with OXT2 and is required for repressor activity (By similarity).				brain development|developmental growth|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					ACTCACTGCACGCCATGAACT	0.622													18	103	---	---	---	---	PASS	A	46972718	A	A	46972718	3	1	148	1	0	0	0	0	1	0	0	0	4578	535	19	1	38	1	DMBX1	1	46972718	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	4047276	46972718	202277903	12	52515										
ZYG11B	79699	broad.mit.edu	37	chr1	53279333	53279333	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tttgcagctggaattattgcCcatttaatatccagaggtga	9	7	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:53279333C>T	uc001cuj.2	+	11	2016	c.1821C>T	c.(1819-1821)GCC>GCT	p.A607A	ZYG11B_uc009vzg.2_RNA|ZYG11B_uc010onj.1_Silent_p.A528A|ZYG11B_uc009vzh.2_Silent_p.A29A	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B	607							protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						GAATTATTGCCCATTTAATAT	0.408													27	165	---	---	---	---	PASS	T	53279333	T	T	53279333	2	4	148	1	0	0	0	0	0	0	0	1	18250	610	22	3		3	ZYG11B	1	53279333	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	6306615	53279333	195971288	13	52516										
TMEM48	55706	broad.mit.edu	37	chr1	54262595	54262595	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aagctgatgtccacaatcttGgcccccttcttattagctga	7	12	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:54262595G>A	uc001cvs.2	-	12	1686	c.1445C>T	c.(1444-1446)CCA>CTA	p.P482L	TMEM48_uc010onu.1_Missense_Mutation_p.P442L|TMEM48_uc001cvt.2_Missense_Mutation_p.P359L|TMEM48_uc009vzk.2_RNA|TMEM48_uc010onv.1_Missense_Mutation_p.P147L	NM_018087	NP_060557	Q9BTX1	NDC1_HUMAN	transmembrane protein 48	482	Cytoplasmic (Potential).				mRNA transport|nuclear pore complex assembly|nuclear pore distribution|protein transport|transmembrane transport	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore			ovary(1)|pancreas(1)	2						CCACAATCTTGGCCCCCTTCT	0.408													83	96	---	---	---	---	PASS	A	54262595	A	A	54262595	3	1	148	1	0	0	0	0	1	0	0	0	16169	1348	47	3	607	3	TMEM48	1	54262595	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	983262	54262595	194988026	14	52517										
LEPR	3953	broad.mit.edu	37	chr1	66064402	66064402	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agtatacttcctgggtcttcGtatgaggttcaggtgagggg	15	6	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:66064402G>T	uc001dci.2	+	8	1111	c.909G>T	c.(907-909)TCG>TCT	p.S303S	LEPR_uc001dcg.2_Silent_p.S303S|LEPR_uc001dch.2_Silent_p.S303S|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Silent_p.S303S|LEPR_uc001dck.2_Silent_p.S303S	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	303	Extracellular (Potential).|Fibronectin type-III 1.				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity	p.S303L(1)		skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		CTGGGTCTTCGTATGAGGTTC	0.418													57	64	---	---	---	---	PASS	T	66064402	T	T	66064402	2	4	148	1	0	0	0	0	0	0	0	1	8728	1132	40	1		1	LEPR	1	66064402	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	11801807	66064402	183186219	15	52518										
LEPR	3953	broad.mit.edu	37	chr1	66102258	66102258	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tctctagcaaaaattctccgTtgaaggattctttctctaat	5	9	4	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:66102258T>A	uc001dci.2	+	20	3260	c.3058T>A	c.(3058-3060)TTG>ATG	p.L1020M	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	1020	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		AAATTCTCCGTTGAAGGATTC	0.413													46	171	---	---	---	---	PASS	A	66102258	A	A	66102258	3	1	148	1	0	0	0	0	1	0	0	0	8728	1722	60	5	3358	5	LEPR	1	66102258	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	37856	66102258	183148363	16	52519										
IL23R	149233	broad.mit.edu	37	chr1	67724363	67724363	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtatatattcctgatctcaAcactggatataaaccccaaa	4	10	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:67724363A>C	uc001ddo.2	+	11	1527	c.1442A>C	c.(1441-1443)AAC>ACC	p.N481T	IL23R_uc009waz.2_Missense_Mutation_p.N278T|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_Missense_Mutation_p.N79T|IL23R_uc010opk.1_3'UTR|IL23R_uc010opl.1_Missense_Mutation_p.N63T|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_Missense_Mutation_p.N227T|IL23R_uc010opn.1_Missense_Mutation_p.N326T|IL23R_uc001ddr.2_RNA|IL23R_uc010ops.1_Missense_Mutation_p.N278T|IL23R_uc010opt.1_Missense_Mutation_p.N122T|IL23R_uc010opu.1_Missense_Mutation_p.N177T|IL23R_uc010opv.1_Missense_Mutation_p.N239T|IL23R_uc010opw.1_Missense_Mutation_p.N116T|IL23R_uc010opx.1_Missense_Mutation_p.N122T|IL23R_uc010opy.1_Missense_Mutation_p.N248T|IL23R_uc010opz.1_Missense_Mutation_p.N122T|IL23R_uc010oqa.1_Missense_Mutation_p.N122T|IL23R_uc010oqb.1_Missense_Mutation_p.N310T|IL23R_uc010oqc.1_Missense_Mutation_p.N197T|IL23R_uc010oqd.1_Missense_Mutation_p.N116T|IL23R_uc010oqe.1_Missense_Mutation_p.N79T|IL23R_uc010oqf.1_Missense_Mutation_p.N79T|IL23R_uc010oqg.1_Missense_Mutation_p.N79T|IL23R_uc010oqh.1_Missense_Mutation_p.N122T|IL23R_uc001dds.2_Missense_Mutation_p.N226T|IL23R_uc001ddt.2_Missense_Mutation_p.N79T	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	481	Cytoplasmic (Potential).			N -> D (in Ref. 2; AAY18347).	inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						CCTGATCTCAACACTGGATAT	0.393													61	81	---	---	---	---	PASS	C	67724363	C	C	67724363	3	2	148	1	0	0	0	0	1	0	0	0	7676	43	2	5	1480	5	IL23R	1	67724363	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	1622105	67724363	181526258	17	52520										
C1orf173	127254	broad.mit.edu	37	chr1	75036970	75036970	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cctcccgtgataatcctaatCggaatttttcagctgctcct	6	13	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:75036970C>T	uc001dgg.2	-	14	4643	c.4424G>A	c.(4423-4425)CGA>CAA	p.R1475Q		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1475	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TAATCCTAATCGGAATTTTTC	0.562													90	162	---	---	---	---	PASS	T	75036970	T	T	75036970	3	4	148	1	0	0	0	0	1	0	0	0	2014	884	31	2	172	2	C1orf173	1	75036970	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	7312607	75036970	174213651	18	52521										
C1orf173	127254	broad.mit.edu	37	chr1	75102088	75102088	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtaatcgaattggaggctgcAtatttcctggagcagtatat	11	6	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:75102088A>G	uc001dgg.2	-	6	698	c.479T>C	c.(478-480)ATG>ACG	p.M160T	C1orf173_uc001dgi.3_5'Flank	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	160										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TGGAGGCTGCATATTTCCTGG	0.403													62	289	---	---	---	---	PASS	G	75102088	G	G	75102088	3	3	148	1	0	0	0	0	1	0	0	0	2014	217	8	5	4149	5	C1orf173	1	75102088	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	65118	75102088	174148533	19	52522										
CCDC18	343099	broad.mit.edu	37	chr1	93712473	93712473	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttaaattagaaggtactctgGagaaatcagaattggaactt	9	4	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:93712473G>A	uc001dpq.2	+	23	3682	c.3514G>A	c.(3514-3516)GAG>AAG	p.E1172K	CCDC18_uc009wdl.1_Missense_Mutation_p.E689K	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	1053	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		AGGTACTCTGGAGAAATCAGA	0.239													33	58	---	---	---	---	PASS	A	93712473	A	A	93712473	3	1	148	1	0	0	0	0	1	0	0	0	2794	1175	41	2	3604	2	CCDC18	1	93712473	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	18610385	93712473	155538148	20	52523										
ABCA4	24	broad.mit.edu	37	chr1	94466451	94466451	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcgccctttaccatgatggcCagccgggtacacagtgcctc	11	15	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:94466451C>A	uc001dqh.2	-	47	6524	c.6420G>T	c.(6418-6420)CTG>CTT	p.L2140L		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	2140	ABC transporter 2.|Cytoplasmic.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CCATGATGGCCAGCCGGGTAC	0.582													26	112	---	---	---	---	PASS	A	94466451	A	A	94466451	2	1	148	1	0	0	0	0	0	0	0	1	34	581	21	3		3	ABCA4	1	94466451	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	753978	94466451	154784170	21	52524										
COL11A1	1301	broad.mit.edu	37	chr1	103356059	103356059	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gaccaggtaagccaggaggtCcctaaataataacaaaaaaa	8	8	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:103356059C>A	uc001dul.2	-	58	4622	c.4304G>T	c.(4303-4305)GGA>GTA	p.G1435V	COL11A1_uc001duk.2_Missense_Mutation_p.G631V|COL11A1_uc001dum.2_Missense_Mutation_p.G1447V|COL11A1_uc001dun.2_Missense_Mutation_p.G1396V|COL11A1_uc009weh.2_Missense_Mutation_p.G1319V	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1435	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GCCAGGAGGTCCCTAAATAAT	0.333													11	13	---	---	---	---	PASS	A	103356059	A	A	103356059	3	1	148	1	0	0	0	0	1	0	0	0	3667	869	30	2	1156	2	COL11A1	1	103356059	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	8889608	103356059	145894562	22	52525										
AMY2B	280	broad.mit.edu	37	chr1	104122003	104122003	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atgtcatttctggagataaaAttaatggcaattgcacaggc	9	6	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:104122003A>G	uc001duq.2	+	12	2033	c.1417A>G	c.(1417-1419)ATT>GTT	p.I473V	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.I473V|AMY2B_uc001dus.1_Intron	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	473					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		TGGAGATAAAATTAATGGCAA	0.343													119	495	---	---	---	---	PASS	G	104122003	G	G	104122003	3	3	148	1	0	0	0	0	1	0	0	0	595	101	4	5	1455	5	AMY2B	1	104122003	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	765944	104122003	145128618	23	52526										
SPAG17	200162	broad.mit.edu	37	chr1	118550726	118550726	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atctccaaaggtggcacagcAgctactgtcctcacagttgg	10	12	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:118550726A>T	uc001ehk.2	-	31	4596	c.4528T>A	c.(4528-4530)TGC>AGC	p.C1510S		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1510						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GTGGCACAGCAGCTACTGTCC	0.512													16	97	---	---	---	---	PASS	T	118550726	T	T	118550726	3	4	148	1	0	0	0	0	1	0	0	0	14979	188	7	5	2215	5	SPAG17	1	118550726	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	14428723	118550726	130699895	24	52527										
RBM8A	9939	broad.mit.edu	37	chr1	145508257	145508257	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	attatgacagcgtggagcagGatggcgatgaacccggacca	14	9	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:145508257G>C	uc001ent.1	+	3	207	c.178G>C	c.(178-180)GAT>CAT	p.D60H	NBPF10_uc001emp.3_Intron|RBM8A_uc001enu.1_Missense_Mutation_p.D59H|RBM8A_uc001enw.1_5'Flank	NM_005105	NP_005096	Q9Y5S9	RBM8A_HUMAN	RNA binding motif protein 8A	60					mRNA 3'-end processing|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|exon-exon junction complex|nuclear speck	mRNA binding|nucleotide binding|protein binding				0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CGTGGAGCAGGATGGCGATGA	0.493													76	52	---	---	---	---	PASS	C	145508257	C	C	145508257	3	2	148	1	0	0	0	0	1	0	0	0	13146	1174	41	2	188	2	RBM8A	1	145508257	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	26957531	145508257	103742364	25	52528										
FLG2	388698	broad.mit.edu	37	chr1	152327971	152327971	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	catagctagactgacctgatCtagactcatgttgtccaaag	8	10	2	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:152327971C>T	uc001ezw.3	-	3	2364	c.2291G>A	c.(2290-2292)AGA>AAA	p.R764K	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	764	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGACCTGATCTAGACTCATG	0.507													423	349	---	---	---	---	PASS	T	152327971	T	T	152327971	3	4	148	1	0	0	0	0	1	0	0	0	5923	913	32	2	4888	2	FLG2	1	152327971	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	6819714	152327971	96922650	26	52529										
OR6Y1	391112	broad.mit.edu	37	chr1	158517648	158517648	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agtcaacaagcatcttggggCtgatgactgtgacataccac	10	10	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:158517648C>T	uc010pil.1	-	1	248	c.248G>A	c.(247-249)AGC>AAC	p.S83N		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	83	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					CATCTTGGGGCTGATGACTGT	0.458													118	68	---	---	---	---	PASS	T	158517648	T	T	158517648	3	4	148	1	0	0	0	0	1	0	0	0	11213	797	28	3	731	3	OR6Y1	1	158517648	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	6189677	158517648	90732973	27	52530										
IGSF8	93185	broad.mit.edu	37	chr1	160064721	160064721	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tatcagtggagggggtgtggCactcataaatgccggcatcc	14	9	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:160064721C>A	uc001fva.2	-	2	425	c.380G>T	c.(379-381)TGC>TTC	p.C127F	IGSF8_uc001fuz.2_Missense_Mutation_p.C127F|IGSF8_uc009wtf.2_Missense_Mutation_p.C127F	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	127	Ig-like C2-type 1.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GGGGGTGTGGCACTCATAAAT	0.652													56	37	---	---	---	---	PASS	A	160064721	A	A	160064721	3	1	148	1	0	0	0	0	1	0	0	0	7604	710	25	3	1481	3	IGSF8	1	160064721	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1547073	160064721	89185900	28	52531										
ATP1A2	477	broad.mit.edu	37	chr1	160093179	160093179	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcctacggcatccaggctgcCatggaggatgaaccatccaa	11	13	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:160093179C>T	uc001fvc.2	+	4	486	c.354C>T	c.(352-354)GCC>GCT	p.A118A	ATP1A2_uc001fvb.2_Silent_p.A118A|ATP1A2_uc010piz.1_5'Flank	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	118	Extracellular (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			TCCAGGCTGCCATGGAGGATG	0.612													196	96	---	---	---	---	PASS	T	160093179	T	T	160093179	2	4	148	1	0	0	0	0	0	0	0	1	1129	581	21	3		3	ATP1A2	1	160093179	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	28458	160093179	89157442	29	52532										
SLC19A2	10560	broad.mit.edu	37	chr1	169437891	169437891	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aaaatacatacgttgctatcGtgatgagtaacatgtagatg	9	5	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:169437891G>T	uc001gge.3	-	4	1418	c.1214C>A	c.(1213-1215)ACG>AAG	p.T405K	SLC19A2_uc001ggf.3_Missense_Mutation_p.T204K	NM_006996	NP_008927	O60779	S19A2_HUMAN	solute carrier family 19, member 2	405	Helical; (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|folic acid transporter activity|reduced folate carrier activity|thiamine uptake transmembrane transporter activity				0	all_hematologic(923;0.208)					CGTTGCTATCGTGATGAGTAA	0.363													81	45	---	---	---	---	PASS	T	169437891	T	T	169437891	3	4	148	1	0	0	0	0	1	0	0	0	14429	1145	40	1	291	1	SLC19A2	1	169437891	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	9344712	169437891	79812730	30	52533										
EDEM3	80267	broad.mit.edu	37	chr1	184690515	184690515	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atcaatccctgctccaactcCactatctatggaaacacaaa	3	14	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:184690515C>T	uc010pok.1	-	9	1120	c.859G>A	c.(859-861)GGA>AGA	p.G287R	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.G287R|EDEM3_uc001gqy.2_Missense_Mutation_p.G210R	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	287					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						GCTCCAACTCCACTATCTATG	0.279													48	47	---	---	---	---	PASS	T	184690515	T	T	184690515	3	4	148	1	0	0	0	0	1	0	0	0	4913	603	21	3	1987	3	EDEM3	1	184690515	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	15252624	184690515	64560106	31	52534										
ASPM	259266	broad.mit.edu	37	chr1	197070287	197070287	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttggccctgtgcattcgataGaatgactgaattagtgtggc	12	7	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:197070287G>C	uc001gtu.2	-	18	8351	c.8094C>G	c.(8092-8094)TTC>TTG	p.F2698L	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Missense_Mutation_p.F546L	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2698	IQ 30.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GCATTCGATAGAATGACTGAA	0.348													81	38	---	---	---	---	PASS	C	197070287	C	C	197070287	3	2	148	1	0	0	0	0	1	0	0	0	1056	933	33	2	2383	2	ASPM	1	197070287	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	12379772	197070287	52180334	32	52535										
CDK18	5129	broad.mit.edu	37	chr1	205496951	205496951	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttccagctgctccggggcctCgcctactgtcaccaccgcaa	9	18	1	0	rs139419406	byFrequency	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:205496951C>T	uc001hcr.2	+	9	1068	c.849C>T	c.(847-849)CTC>CTT	p.L283L	CDK18_uc001hcp.2_Silent_p.L253L|CDK18_uc001hcq.2_Silent_p.L253L|CDK18_uc010prj.1_Silent_p.L164L|CDK18_uc001hcs.2_Silent_p.L164L|CDK18_uc009xbm.1_Silent_p.L178L|CDK18_uc001hct.2_5'Flank	NM_212503	NP_997668	Q07002	CDK18_HUMAN	PCTAIRE protein kinase 3 isoform a	251	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding|signal transducer activity			stomach(2)	2						TCCGGGGCCTCGCCTACTGTC	0.622													16	153	---	---	---	---	PASS	T	205496951	T	T	205496951	2	4	148	1	0	0	0	0	0	0	0	1	3134	871	31	2		2	CDK18	1	205496951	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	8426664	205496951	43753670	33	52536										
CTSE	1510	broad.mit.edu	37	chr1	206331026	206331026	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctttccaacccacaggacttCgtggatggaatgcagttctg	10	11	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:206331026C>T	uc001hdu.2	+	9	1150	c.1032C>T	c.(1030-1032)TTC>TTT	p.F344F	CTSE_uc001hdv.2_Missense_Mutation_p.S297L|CTSE_uc010prs.1_Missense_Mutation_p.S222L	NM_001910	NP_001901	P14091	CATE_HUMAN	cathepsin E isoform a preproprotein	349					antigen processing and presentation of exogenous peptide antigen via MHC class II|digestion|proteolysis	endosome	aspartic-type endopeptidase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(75;0.0754)			CACAGGACTTCGTGGATGGAA	0.557													307	160	---	---	---	---	PASS	T	206331026	T	T	206331026	2	4	148	1	0	0	0	0	0	0	0	1	4033	893	31	2		2	CTSE	1	206331026	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	834075	206331026	42919595	34	52537										
USH2A	7399	broad.mit.edu	37	chr1	216498934	216498934	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atctccagagaagacttccaGaatctctctgtgggagtcaa	9	10	4	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:216498934G>C	uc001hku.1	-	6	1243	c.856C>G	c.(856-858)CTG>GTG	p.L286V	USH2A_uc001hkv.2_Missense_Mutation_p.L286V	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	286	Laminin N-terminal.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AAGACTTCCAGAATCTCTCTG	0.498										HNSCC(13;0.011)			37	33	---	---	---	---	PASS	C	216498934	C	C	216498934	3	2	148	1	0	0	0	0	1	0	0	0	17033	933	33	2	15034	2	USH2A	1	216498934	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	10167908	216498934	32751687	35	52538										
HHIPL2	79802	broad.mit.edu	37	chr1	222717104	222717104	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccaggaagggttgctccaggCgactcccatcagggaggtag	15	11	1	0	rs147794680		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:222717104C>T	uc001hnh.1	-	2	807	c.749G>A	c.(748-750)CGC>CAC	p.R250H		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	250					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		TTGCTCCAGGCGACTCCCATC	0.582													16	116	---	---	---	---	PASS	T	222717104	T	T	222717104	3	4	148	1	0	0	0	0	1	0	0	0	7094	768	27	1	1457	1	HHIPL2	1	222717104	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	6218170	222717104	26533517	36	52539										
OBSCN	84033	broad.mit.edu	37	chr1	228468283	228468283	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gacctgtccgcagaggagcgCggcaccctggccctgcagtg	15	15	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:228468283C>T	uc009xez.1	+	30	8027	c.7983C>T	c.(7981-7983)CGC>CGT	p.R2661R	OBSCN_uc001hsn.2_Silent_p.R2661R|OBSCN_uc001hsp.1_Silent_p.R360R|OBSCN_uc001hsq.1_5'UTR	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2661	Ig-like 26.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CAGAGGAGCGCGGCACCCTGG	0.642													15	69	---	---	---	---	PASS	T	228468283	T	T	228468283	2	4	148	1	0	0	0	0	0	0	0	1	10812	755	27	1		1	OBSCN	1	228468283	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	5751179	228468283	20782338	37	52540										
RYR2	6262	broad.mit.edu	37	chr1	237787170	237787170	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aagatttgatgacacattgtGgtaaggtctttttgattaaa	9	3	1	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:237787170G>T	uc001hyl.1	+	39	6142	c.6022G>T	c.(6022-6024)GGA>TGA	p.G2008*		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2008	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GACACATTGTGGTAAGGTCTT	0.308													74	41	---	---	---	---	PASS	T	237787170	T	T	237787170	4	4	148	1	0	0	0	0	0	1	0	0	13769	1362	47	3	6176	3	RYR2	1	237787170	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	9318887	237787170	11463451	38	52541										
OR2M4	26245	broad.mit.edu	37	chr1	248403015	248403015	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tatgttcatgtacatgagacCagcttctaaacatacgccag	7	10	2	1	rs41303133	byFrequency	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:248403015C>T	uc010pzh.1	+	1	785	c.785C>T	c.(784-786)CCA>CTA	p.P262L		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TACATGAGACCAGCTTCTAAA	0.522													87	48	---	---	---	---	PASS	T	248403015	T	T	248403015	3	4	148	1	0	0	0	0	1	0	0	0	11012	594	21	3	787	3	OR2M4	1	248403015	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	10615845	248403015	847606	39	52542										
OR2G6	391211	broad.mit.edu	37	chr1	248685215	248685215	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttaccatgaataagaaagacAaaaccatgagctacggtggc	9	8	0	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:248685215A>G	uc001ien.1	+	1	268	c.268A>G	c.(268-270)AAA>GAA	p.K90E		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TAAGAAAGACAAAACCATGAG	0.517													15	171	---	---	---	---	PASS	G	248685215	G	G	248685215	3	3	148	1	0	0	0	0	1	0	0	0	11000	131	5	5	270	5	OR2G6	1	248685215	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	282200	248685215	565406	40	52543										
TPO	7173	broad.mit.edu	37	chr2	1488494	1488494	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccaacgtgttctccacagccGccttccgcttcggccatgcc	8	19	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:1488494G>A	uc002qww.2	+	9	1556	c.1465G>A	c.(1465-1467)GCC>ACC	p.A489T	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.A489T|TPO_uc002qwr.2_Missense_Mutation_p.A489T|TPO_uc002qwx.2_Missense_Mutation_p.A489T|TPO_uc010yio.1_Missense_Mutation_p.A316T|TPO_uc010yip.1_Missense_Mutation_p.A489T|TPO_uc002qwy.1_5'UTR|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	489	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CTCCACAGCCGCCTTCCGCTT	0.662													11	75	---	---	---	---	PASS	A	1488494	A	A	1488494	3	1	148	1	0	0	0	0	1	0	0	0	16407	1087	38	1	1495	1	TPO	2	1488494	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08		1488494	241710879	41	52544										
SOX11	6664	broad.mit.edu	37	chr2	5833916	5833916	+	Frame_Shift_Del	DEL	G	-	-													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcagcagcagcggcagcagcGgcgaggacgccgacgacctg							TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:5833916delG	uc002qyj.2	+	1	1118	c.1063delG	c.(1063-1065)GGCfs	p.G355fs		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	355					cardiac ventricle formation|closure of optic fissure|cornea development in camera-type eye|embryonic digestive tract morphogenesis|embryonic skeletal system morphogenesis|eyelid development in camera-type eye|glial cell proliferation|hard palate development|lens morphogenesis in camera-type eye|limb bud formation|lung morphogenesis|negative regulation of cell death|negative regulation of glial cell proliferation|negative regulation of lymphocyte proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|neural crest cell development|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|outflow tract morphogenesis|positive regulation of BMP signaling pathway|positive regulation of hippo signaling cascade|positive regulation of hormone secretion|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of ossification|positive regulation of osteoblast differentiation|positive regulation of stem cell proliferation|regulation of transforming growth factor beta receptor signaling pathway|signal transduction involved in G1/S transition checkpoint|soft palate development|somite development|spinal cord development|sympathetic nervous system development|ventricular septum morphogenesis	cytoplasm|nucleolus	enhancer sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			OV - Ovarian serous cystadenocarcinoma(76;0.132)		cggcagcagcggcGAGGACGC	0.502													11	6	---	---	---	---		-	5833916	-	-	5833916	7	5	148	1	0	1	0	1	0	0	0	0	14942	1116	39	0	1065	0	SOX11	2	5833916	Frame_Shift_Del	DEL	G	TCGA-66-2759-01A-01D-1522-08	4345422	5833916	237365457	42	52545										
GREB1	9687	broad.mit.edu	37	chr2	11758655	11758655	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	caggtgtcggtcacctcgtcGtgctcccagctgtcctcctc	10	17	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:11758655G>A	uc002rbk.1	+	22	3954	c.3654G>A	c.(3652-3654)TCG>TCA	p.S1218S	GREB1_uc002rbp.1_Silent_p.S216S	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1218	Ser-rich.					integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		TCACCTCGTCGTGCTCCCAGC	0.701													6	18	---	---	---	---	PASS	A	11758655	A	A	11758655	2	1	148	1	0	0	0	0	0	0	0	1	6760	1132	40	1		1	GREB1	2	11758655	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	5924739	11758655	231440718	43	52546										
WDR35	57539	broad.mit.edu	37	chr2	20132098	20132098	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttggctttccgatagagttcTatggcatcaagagttttatt	9	6	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:20132098T>C	uc002rdi.2	-	24	2910	c.2802A>G	c.(2800-2802)ATA>ATG	p.I934M	WDR35_uc002rdj.2_Missense_Mutation_p.I923M|WDR35_uc010ext.2_Intron|WDR35_uc002rdh.2_Intron	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	934										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GATAGAGTTCTATGGCATCAA	0.328													22	120	---	---	---	---	PASS	C	20132098	C	C	20132098	3	2	148	1	0	0	0	0	1	0	0	0	17286	1512	53	5	763	5	WDR35	2	20132098	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	8373443	20132098	223067275	44	52547										
CAD	790	broad.mit.edu	37	chr2	27447965	27447965	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtgtggagctgaccaaggccGgggtgctggctcggtatggg	20	8	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:27447965G>T	uc002rji.2	+	11	1636	c.1474G>T	c.(1474-1476)GGG>TGG	p.G492W	CAD_uc010eyw.2_Missense_Mutation_p.G492W	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	492	CPSase (Carbamoyl-phosphate synthase).|CPSase A.				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	GACCAAGGCCGGGGTGCTGGC	0.592													3	82	---	---	---	---	PASS	T	27447965	T	T	27447965	3	4	148	1	0	0	0	0	1	0	0	0	2565	1116	39	1	1516	1	CAD	2	27447965	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	7315867	27447965	215751408	45	52548										
GCKR	2646	broad.mit.edu	37	chr2	27741665	27741665	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cccttttcagaagttccagcGtgagctaagcaccaaatggg	10	11	1	2	rs141361209	by1000genomes	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:27741665G>T	uc002rky.2	+	17	1499	c.1433G>T	c.(1432-1434)CGT>CTT	p.R478L	GCKR_uc010ezd.2_Missense_Mutation_p.R476L|GCKR_uc010ylu.1_Missense_Mutation_p.R288L	NM_001486	NP_001477	Q14397	GCKR_HUMAN	glucokinase regulatory protein	478	SIS 2.				carbohydrate metabolic process|glucose transport|negative regulation of glucokinase activity|positive regulation of gene expression|protein import into nucleus, translocation|regulation of glucose transport|response to fructose stimulus|transmembrane transport|triglyceride homeostasis|urate metabolic process	cytosol|nucleoplasm	fructose-6-phosphate binding|protein binding			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)					AAGTTCCAGCGTGAGCTAAGC	0.473													41	184	---	---	---	---	PASS	T	27741665	T	T	27741665	3	4	148	1	0	0	0	0	1	0	0	0	6294	1145	40	1	1499	1	GCKR	2	27741665	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	293700	27741665	215457708	46	52549										
BIRC6	57448	broad.mit.edu	37	chr2	32820187	32820187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cacttgaagaaaaatatgtgGctgttatgaagaaattacag	9	4	0	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:32820187G>T	uc010ezu.2	+	68	13722	c.13588G>T	c.(13588-13590)GCT>TCT	p.A4530S		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4530					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					AAAATATGTGGCTGTTATGAA	0.303													11	21	---	---	---	---	PASS	T	32820187	T	T	32820187	3	4	148	1	0	0	0	0	1	0	0	0	1438	1203	42	3	13858	3	BIRC6	2	32820187	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	5078522	32820187	210379186	47	52550										
THADA	63892	broad.mit.edu	37	chr2	43768330	43768330	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	caataatccatcagaagattCtggcacaggctgcatgggca	10	10	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:43768330C>G	uc002rsw.3	-	21	3584	c.3232G>C	c.(3232-3234)GAA>CAA	p.E1078Q	THADA_uc010far.2_Missense_Mutation_p.E347Q|THADA_uc002rsx.3_Missense_Mutation_p.E1078Q|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Missense_Mutation_p.E787Q|THADA_uc010fat.1_Missense_Mutation_p.E225Q|THADA_uc002rta.2_Missense_Mutation_p.E788Q	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1078							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				TCAGAAGATTCTGGCACAGGC	0.418													43	132	---	---	---	---	PASS	G	43768330	G	G	43768330	3	3	148	1	0	0	0	0	1	0	0	0	15837	922	32	2	2701	2	THADA	2	43768330	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	10948143	43768330	199431043	48	52551										
C1D	10438	broad.mit.edu	37	chr2	68270067	68270067	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	caacttttgatgcatttttcGattttggttcccagagggca	9	8	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:68270067G>T	uc002sea.3	-	5	462	c.380C>A	c.(379-381)TCG>TAG	p.S127*	C1D_uc002seb.2_Nonsense_Mutation_p.S127*|C1D_uc002sec.2_Nonsense_Mutation_p.S127*|C1D_uc010fdc.2_Nonsense_Mutation_p.S127*	NM_173177	NP_775269	Q13901	C1D_HUMAN	nuclear DNA-binding protein	127	Interaction with NCOR1 and NCOR2 (By similarity).				apoptosis|maturation of 5.8S rRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear exosome (RNase complex)|nucleolus	DNA binding|RNA binding				0						TGCATTTTTCGATTTTGGTTC	0.328													12	40	---	---	---	---	PASS	T	68270067	T	T	68270067	4	4	148	1	0	0	0	0	0	1	0	0	1951	1059	37	2	49	2	C1D	2	68270067	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	24501737	68270067	174929306	49	52552										
C2orf78	388960	broad.mit.edu	37	chr2	74043430	74043430	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttcaagtcaaggcccagaaaCtagatggtagtgctgaaaaa	10	7	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:74043430C>T	uc002sjr.1	+	3	2201	c.2080C>T	c.(2080-2082)CTA>TTA	p.L694L		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	694										ovary(2)	2						GGCCCAGAAACTAGATGGTAG	0.502													48	68	---	---	---	---	PASS	T	74043430	T	T	74043430	2	4	148	1	0	0	0	0	0	0	0	1	2195	564	20	3		3	C2orf78	2	74043430	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	5773363	74043430	169155943	50	52553										
AUP1	550	broad.mit.edu	37	chr2	74756577	74756577	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gacgaggaggcagaacccgaCtggcgcgtagagcagcagca	16	11	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:74756577C>T	uc010yry.1	-	2	318	c.100G>A	c.(100-102)GTC>ATC	p.V34I	AUP1_uc002sme.2_5'Flank|AUP1_uc002smf.2_Missense_Mutation_p.V34I|AUP1_uc002smg.2_RNA|AUP1_uc002smh.2_5'UTR|AUP1_uc010yrx.1_Silent_p.Q64Q|HTRA2_uc002smi.1_5'UTR|HTRA2_uc002smj.1_5'UTR|HTRA2_uc002smk.1_5'UTR|HTRA2_uc002sml.1_5'UTR|HTRA2_uc002smm.1_5'Flank|HTRA2_uc002smn.1_5'Flank|HTRA2_uc010ffl.2_5'Flank			Q9Y679	AUP1_HUMAN	SubName: Full=cDNA FLJ58836, highly similar to Ancient ubiquitous protein 1;	34	Helical; Signal-anchor for type III membrane protein; (Potential).					endoplasmic reticulum membrane|integral to membrane|nucleus	protein binding				0						CAGAACCCGACTGGCGCGTAG	0.677													3	4	---	---	---	---	PASS	T	74756577	T	T	74756577	3	4	148	1	0	0	0	0	1	0	0	0	1220	565	20	3	1176	3	AUP1	2	74756577	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	713147	74756577	168442796	51	52554										
C2orf65	130951	broad.mit.edu	37	chr2	74789483	74789483	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgatcacatagaaggtgctgGcaggaattctctggctgtgt	13	7	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:74789483G>C	uc002smy.2	-	8	1259	c.1142C>G	c.(1141-1143)GCC>GGC	p.A381G	C2orf65_uc010ysa.1_Missense_Mutation_p.A381G|C2orf65_uc010ffp.2_Intron|C2orf65_uc002smx.2_Missense_Mutation_p.A137G	NM_138804	NP_620159	Q8TC57	CB065_HUMAN	hypothetical protein LOC130951	381					chromatin assembly|female gamete generation|RNA processing|spermatogenesis	integral to membrane				ovary(1)|pancreas(1)	2						GAAGGTGCTGGCAGGAATTCT	0.557													49	135	---	---	---	---	PASS	C	74789483	C	C	74789483	3	2	148	1	0	0	0	0	1	0	0	0	2184	1203	42	4	466	4	C2orf65	2	74789483	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	32906	74789483	168409890	52	52555										
REG1B	5968	broad.mit.edu	37	chr2	79313628	79313628	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gaattcatgttctggcaataGagctgttggagaagaaaatg	12	4	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:79313628G>T	uc002sny.2	-	4	298	c.186C>A	c.(184-186)CTC>CTA	p.L62L	REG1B_uc010ffv.1_Silent_p.L62L|REG1B_uc010ffw.2_3'UTR	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	62	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						TCTGGCAATAGAGCTGTTGGA	0.498													24	106	---	---	---	---	PASS	T	79313628	T	T	79313628	2	4	148	1	0	0	0	0	0	0	0	1	13211	929	33	2		2	REG1B	2	79313628	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	4524145	79313628	163885745	53	52556										
LRRTM1	347730	broad.mit.edu	37	chr2	80529460	80529460	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	accagggctccctcaatgtgGttcggtttgtaatcaacgta	10	10	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:80529460G>A	uc002sok.1	-	2	1755	c.1485C>T	c.(1483-1485)AAC>AAT	p.N495N	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	495	Cytoplasmic (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						CCTCAATGTGGTTCGGTTTGT	0.542										HNSCC(69;0.2)			12	38	---	---	---	---	PASS	A	80529460	A	A	80529460	2	1	148	1	0	0	0	0	0	0	0	1	9039	1252	44	3		3	LRRTM1	2	80529460	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	1215832	80529460	162669913	54	52557										
LRRTM1	347730	broad.mit.edu	37	chr2	80529904	80529904	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aggacgtcctcgccctgtgcGtactccgggctggcgcactg	14	15	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:80529904G>T	uc002sok.1	-	2	1311	c.1041C>A	c.(1039-1041)TAC>TAA	p.Y347*	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	347	LRRCT.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						CGCCCTGTGCGTACTCCGGGC	0.672										HNSCC(69;0.2)			8	15	---	---	---	---	PASS	T	80529904	T	T	80529904	4	4	148	1	0	0	0	0	0	1	0	0	9039	1140	40	1	531	1	LRRTM1	2	80529904	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	444	80529904	162669469	55	52558										
LRRTM1	347730	broad.mit.edu	37	chr2	80530704	80530704	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccccgtgaactggccggcgcGcagctccgagaggctgttgt	15	14	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:80530704G>A	uc002sok.1	-	2	511	c.241C>T	c.(241-243)CGC>TGC	p.R81C	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	81	Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						TGGCCGGCGCGCAGCTCCGAG	0.642										HNSCC(69;0.2)			17	85	---	---	---	---	PASS	A	80530704	A	A	80530704	3	1	148	1	0	0	0	0	1	0	0	0	9039	1087	38	1	1331	1	LRRTM1	2	80530704	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	800	80530704	162668669	56	52559										
IL1RL1	9173	broad.mit.edu	37	chr2	102955449	102955449	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtttgcctcaggccaacttCtgaagtttctaccagctgca	8	12	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:102955449C>G	uc002tbu.1	+	3	485	c.214C>G	c.(214-216)CTG>GTG	p.L72V	IL1RL1_uc010ywa.1_5'UTR|IL18R1_uc002tbw.3_Intron|IL1RL1_uc002tbv.2_Missense_Mutation_p.L72V	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	72	Extracellular (Potential).|Ig-like C2-type 1.				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4						AGGCCAACTTCTGAAGTTTCT	0.433													204	206	---	---	---	---	PASS	G	102955449	G	G	102955449	3	3	148	1	0	0	0	0	1	0	0	0	7663	912	32	2	220	2	IL1RL1	2	102955449	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	22424745	102955449	140243924	57	52560										
KYNU	8942	broad.mit.edu	37	chr2	143642976	143642976	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agctgccggctgacacagtgCagcgcattgcggctgaactc	13	13	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:143642976C>A	uc002tvl.2	+	2	170	c.40C>A	c.(40-42)CAG>AAG	p.Q14K	KYNU_uc002tvk.2_Missense_Mutation_p.Q14K|KYNU_uc010fnm.2_Missense_Mutation_p.Q14K	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	14					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	TGACACAGTGCAGCGCATTGC	0.458													12	55	---	---	---	---	PASS	A	143642976	A	A	143642976	3	1	148	1	0	0	0	0	1	0	0	0	8587	711	25	3	42	3	KYNU	2	143642976	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	40687527	143642976	99556397	58	52561										
GALNT13	114805	broad.mit.edu	37	chr2	155115534	155115534	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttttgttttttttcaactagGacccctactatggctggtgg	9	8	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:155115534G>T	uc002tyr.3	+	8	1425	c.858G>T	c.(856-858)AGG>AGT	p.R286S	GALNT13_uc002tyt.3_Missense_Mutation_p.R286S|GALNT13_uc010foc.1_Missense_Mutation_p.R105S|GALNT13_uc010fod.2_Missense_Mutation_p.R39S	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	286	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						TTTCAACTAGGACCCCTACTA	0.348													23	39	---	---	---	---	PASS	T	155115534	T	T	155115534	3	4	148	1	0	0	0	0	1	0	0	0	6211	1188	41	2	880	2	GALNT13	2	155115534	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	11472558	155115534	88083839	59	52562										
KCNJ3	3760	broad.mit.edu	37	chr2	155566273	155566273	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tatgacctatcccagcgaagCatgcaaactgaacagttcga	8	11	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:155566273C>A	uc002tyv.1	+	2	1056	c.861C>A	c.(859-861)AGC>AGA	p.S287R	KCNJ3_uc010zce.1_Intron	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	287	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	CCCAGCGAAGCATGCAAACTG	0.428													18	112	---	---	---	---	PASS	A	155566273	A	A	155566273	3	1	148	1	0	0	0	0	1	0	0	0	8052	709	25	3	867	3	KCNJ3	2	155566273	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	450739	155566273	87633100	60	52563										
CYTIP	9595	broad.mit.edu	37	chr2	158272468	158272468	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aaggcacccctgctggagtcCtcagacacacacgtctggta	10	14	2	1	rs34234589	byFrequency	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:158272468C>A	uc002tzj.1	-	8	873	c.801G>T	c.(799-801)GAG>GAT	p.E267D	CYTIP_uc010zcl.1_Missense_Mutation_p.E161D	NM_004288	NP_004279	O60759	CYTIP_HUMAN	cytohesin 1 interacting protein	267	Ser-rich.				regulation of cell adhesion	cell cortex|early endosome	protein binding			ovary(1)|kidney(1)|skin(1)	3						TGCTGGAGTCCTCAGACACAC	0.527													25	132	---	---	---	---	PASS	A	158272468	A	A	158272468	3	1	148	1	0	0	0	0	1	0	0	0	4207	680	24	3	282	3	CYTIP	2	158272468	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	2706195	158272468	84926905	61	52564										
KCNH7	90134	broad.mit.edu	37	chr2	163279922	163279922	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gacgttgcctcagagggttgGggatttggtgaaagcgaatg	17	5	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:163279922G>C	uc002uch.1	-	9	2290	c.2078C>G	c.(2077-2079)CCC>CGC	p.P693R	KCNH7_uc002uci.2_Missense_Mutation_p.P686R	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	693	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	CAGAGGGTTGGGGATTTGGTG	0.438													37	258	---	---	---	---	PASS	C	163279922	C	C	163279922	3	2	148	1	0	0	0	0	1	0	0	0	8037	1232	43	4	1610	4	KCNH7	2	163279922	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	5007454	163279922	79919451	62	52565										
XIRP2	129446	broad.mit.edu	37	chr2	168105946	168105946	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttaaacaaagtcaccaagaaTgtagtacccaacaaacacaa	4	10	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:168105946T>G	uc002udx.2	+	8	8062	c.8044T>G	c.(8044-8046)TGT>GGT	p.C2682G	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.C2507G|XIRP2_uc010fpq.2_Missense_Mutation_p.C2460G|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.C28G	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2507					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TCACCAAGAATGTAGTACCCA	0.363													24	162	---	---	---	---	PASS	G	168105946	G	G	168105946	3	3	148	1	0	0	0	0	1	0	0	0	17427	1464	51	5	8074	5	XIRP2	2	168105946	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	4826024	168105946	75093427	63	52566										
B3GALT1	8708	broad.mit.edu	37	chr2	168726198	168726198	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gaggaccgattcgggatgtcCgcagtaagtggtatatgccc	14	9	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:168726198C>T	uc002udz.1	+	2	1000	c.649C>T	c.(649-651)CGC>TGC	p.R217C		NM_020981	NP_066191	Q9Y5Z6	B3GT1_HUMAN	UDP-Gal:betaGlcNAc beta	217	Lumenal (Potential).				lipid glycosylation|protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4						TCGGGATGTCCGCAGTAAGTG	0.453													43	74	---	---	---	---	PASS	T	168726198	T	T	168726198	3	4	148	1	0	0	0	0	1	0	0	0	1247	652	23	1	651	1	B3GALT1	2	168726198	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	620252	168726198	74473175	64	52567										
LRP2	4036	broad.mit.edu	37	chr2	170019060	170019060	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atgtggaatgcaatgcccatTgccacacttatattcatatt	6	9	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:170019060T>C	uc002ues.2	-	63	12022	c.11809A>G	c.(11809-11811)AAT>GAT	p.N3937D		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3937	LDL-receptor class A 36.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CAATGCCCATTGCCACACTTA	0.378													89	87	---	---	---	---	PASS	C	170019060	C	C	170019060	3	2	148	1	0	0	0	0	1	0	0	0	8956	1812	63	5	2226	5	LRP2	2	170019060	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	1292862	170019060	73180313	65	52568										
LRP2	4036	broad.mit.edu	37	chr2	170063381	170063381	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atagaattttcaaaaacagtGatgccataaggagttgggta	10	4	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:170063381G>A	uc002ues.2	-	39	7062	c.6849C>T	c.(6847-6849)ATC>ATT	p.I2283I		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2283	LDL-receptor class B 23.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CAAAAACAGTGATGCCATAAG	0.398													100	93	---	---	---	---	PASS	A	170063381	A	A	170063381	2	1	148	1	0	0	0	0	0	0	0	1	8956	1280	45	2		2	LRP2	2	170063381	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	44321	170063381	73135992	66	52569										
KIAA1715	80856	broad.mit.edu	37	chr2	176794922	176794922	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atcaagaacatcgtgttctaAagattctgaaaagataaaga	7	5	3	5			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:176794922A>C	uc002ukc.1	-	13	1253	c.1060T>G	c.(1060-1062)TTA>GTA	p.L354V	KIAA1715_uc010zer.1_Missense_Mutation_p.L385V|KIAA1715_uc010fqw.1_Missense_Mutation_p.L420V|KIAA1715_uc010zes.1_Missense_Mutation_p.L356V|KIAA1715_uc002ukd.1_Missense_Mutation_p.L231V|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	354	Cytoplasmic (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			TCGTGTTCTAAAGATTCTGAA	0.303													30	136	---	---	---	---	PASS	C	176794922	C	C	176794922	3	2	148	1	0	0	0	0	1	0	0	0	8254	11	1	5	230	5	KIAA1715	2	176794922	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	6731541	176794922	66404451	67	52570										
HOXD8	3234	broad.mit.edu	37	chr2	176996059	176996059	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aatcagcagctcctggtagaCgaagaggaagacaaacctac	10	10	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:176996059C>T	uc002uko.2	+	2	1210	c.592C>T	c.(592-594)CGA>TGA	p.R198*	uc002ukl.1_5'Flank|uc002ukm.1_5'Flank|HOXD8_uc002ukn.2_Nonsense_Mutation_p.R14*|HOXD8_uc002ukp.2_Nonsense_Mutation_p.R197*	NM_019558	NP_062458	P13378	HXD8_HUMAN	homeobox D8	198	Homeobox.				anterior/posterior axis specification, embryo	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		TCCTGGTAGACGAAGAGGAAG	0.408													36	161	---	---	---	---	PASS	T	176996059	T	T	176996059	4	4	148	1	0	0	0	0	0	1	0	0	7325	528	19	1	598	1	HOXD8	2	176996059	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	201137	176996059	66203314	68	52571										
TTN	7273	broad.mit.edu	37	chr2	179599491	179599491	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gacgtcattcactgcttcacAtgagtaactcccactgtctt	6	13	4	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:179599491A>G	uc010zfg.1	-	48	11652	c.11428T>C	c.(11428-11430)TGT>CGT	p.C3810R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.C471R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4737							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACTGCTTCACATGAGTAACTC	0.378													100	132	---	---	---	---	PASS	G	179599491	G	G	179599491	3	3	148	1	0	0	0	0	1	0	0	0	16732	217	8	5	89617	5	TTN	2	179599491	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	2603432	179599491	63599882	69	52572										
TTN	7273	broad.mit.edu	37	chr2	179634798	179634798	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gatacttactctccacaaacAgttttgctttgcattccaat	4	11	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:179634798A>C	uc010zfg.1	-	36	8854	c.8630T>G	c.(8629-8631)CTG>CGG	p.L2877R	TTN_uc010zfh.1_Missense_Mutation_p.L2831R|TTN_uc010zfi.1_Missense_Mutation_p.L2831R|TTN_uc010zfj.1_Missense_Mutation_p.L2831R|TTN_uc002unb.2_Missense_Mutation_p.L2877R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2877							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTCCACAAACAGTTTTGCTTT	0.443													111	150	---	---	---	---	PASS	C	179634798	C	C	179634798	3	2	148	1	0	0	0	0	1	0	0	0	16732	188	7	5	102666	5	TTN	2	179634798	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	35307	179634798	63564575	70	52573										
TTN	7273	broad.mit.edu	37	chr2	179659273	179659273	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcacttttgtcagcatcttgTttcacctagattagaaatga	7	8	3	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:179659273T>C	uc010zfg.1	-	8	1475	c.1251A>G	c.(1249-1251)AAA>AAG	p.K417K	TTN_uc010zfh.1_Silent_p.K417K|TTN_uc010zfi.1_Silent_p.K417K|TTN_uc010zfj.1_Silent_p.K417K|TTN_uc002unb.2_Silent_p.K417K|TTN_uc010frg.1_Silent_p.K91K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	417							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGCATCTTGTTTCACCTAGA	0.428													30	157	---	---	---	---	PASS	C	179659273	C	C	179659273	2	2	148	1	0	0	0	0	0	0	0	1	16732	1722	60	5		5	TTN	2	179659273	Silent	SNP	T	TCGA-66-2759-01A-01D-1522-08	24475	179659273	63540100	71	52574										
ZNF804A	91752	broad.mit.edu	37	chr2	185801309	185801309	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aggttgaaaataaaaatggtCccgagacattggccccttca	9	9	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:185801309C>A	uc002uph.2	+	4	1780	c.1186C>A	c.(1186-1188)CCC>ACC	p.P396T		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	396						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TAAAAATGGTCCCGAGACATT	0.383													65	74	---	---	---	---	PASS	A	185801309	A	A	185801309	3	1	148	1	0	0	0	0	1	0	0	0	18167	855	30	2	1200	2	ZNF804A	2	185801309	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	6142036	185801309	57398064	72	52575										
ZSWIM2	151112	broad.mit.edu	37	chr2	187693061	187693061	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acacacaatattcttatgaaCaataggaggaagcagtgttt	8	6	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:187693061C>T	uc002upu.1	-	9	1592	c.1552G>A	c.(1552-1554)GTT>ATT	p.V518I		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	518					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			TTCTTATGAACAATAGGAGGA	0.383													16	59	---	---	---	---	PASS	T	187693061	T	T	187693061	3	4	148	1	0	0	0	0	1	0	0	0	18238	478	17	3	353	3	ZSWIM2	2	187693061	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1891752	187693061	55506312	73	52576										
HECW2	57520	broad.mit.edu	37	chr2	197183429	197183429	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctcccccagctcctcctggtCaggtacagtggccgattctg	10	16	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:197183429C>A	uc002utm.1	-	9	2368	c.2185G>T	c.(2185-2187)GAC>TAC	p.D729Y	HECW2_uc002utl.1_Missense_Mutation_p.D373Y	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	729					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						TCCTCCTGGTCAGGTACAGTG	0.647													39	39	---	---	---	---	PASS	A	197183429	A	A	197183429	3	1	148	1	0	0	0	0	1	0	0	0	7043	826	29	2	2617	2	HECW2	2	197183429	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	9490368	197183429	46015944	74	52577										
FZD7	8324	broad.mit.edu	37	chr2	202900096	202900096	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccgggccgtgccaacggcctGatgtactttaaggaggagga	15	10	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:202900096G>T	uc002uyw.1	+	1	787	c.726G>T	c.(724-726)CTG>CTT	p.L242L		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	242	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(2)|ovary(1)|breast(1)	4						CCAACGGCCTGATGTACTTTA	0.667											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	92	---	---	---	---	PASS	T	202900096	T	T	202900096	2	4	148	1	0	0	0	0	0	0	0	1	6135	1277	45	2		2	FZD7	2	202900096	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	5716667	202900096	40299277	75	52578										
EEF1B2	1933	broad.mit.edu	37	chr2	207027298	207027298	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atggcgaaattagaggagtgCgtcagaagcattcaagcaga	13	6	2	3	rs2359156		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:207027298C>T	uc002vbf.1	+	6	641	c.483C>T	c.(481-483)TGC>TGT	p.C161C	EEF1B2_uc002vbg.1_Silent_p.C161C|EEF1B2_uc002vbh.1_Silent_p.C161C	NM_001037663	NP_001032752	P24534	EF1B_HUMAN	eukaryotic translation elongation factor 1 beta	161						cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						TAGAGGAGTGCGTCAGAAGCA	0.408													18	272	---	---	---	---	PASS	T	207027298	T	T	207027298	2	4	148	1	0	0	0	0	0	0	0	1	4925	776	27	1		1	EEF1B2	2	207027298	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	4127202	207027298	36172075	76	52579										
ZDBF2	57683	broad.mit.edu	37	chr2	207169471	207169471	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gatgagacacatgtgaatacTgggtcatcgtctgaagtggt	13	6	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:207169471T>A	uc002vbp.2	+	5	469	c.219T>A	c.(217-219)ACT>ACA	p.T73T		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	73							nucleic acid binding|zinc ion binding			ovary(3)	3						ATGTGAATACTGGGTCATCGT	0.388													70	53	---	---	---	---	PASS	A	207169471	A	A	207169471	2	1	148	1	0	0	0	0	0	0	0	1	17596	1567	55	5		5	ZDBF2	2	207169471	Silent	SNP	T	TCGA-66-2759-01A-01D-1522-08	142173	207169471	36029902	77	52580										
PIKFYVE	200576	broad.mit.edu	37	chr2	209191056	209191056	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agacccttttgctcattcaaAggatgcatcaagtacttcaa	6	10	4	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:209191056A>G	uc002vcz.2	+	20	3679	c.3521A>G	c.(3520-3522)AAG>AGG	p.K1174R	PIKFYVE_uc010fun.1_Missense_Mutation_p.K855R|PIKFYVE_uc002vcy.1_Missense_Mutation_p.K1118R	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1174					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						GCTCATTCAAAGGATGCATCA	0.473													32	41	---	---	---	---	PASS	G	209191056	G	G	209191056	3	3	148	1	0	0	0	0	1	0	0	0	11924	72	3	5	3606	5	PIKFYVE	2	209191056	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	2021585	209191056	34008317	78	52581										
CPS1	1373	broad.mit.edu	37	chr2	211342491	211342491	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agatttagccgaggcccatgGtgagtcttaagctggatatc	12	8	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:211342491G>A	uc010fur.2	+	1	82	c.3_splice	c.e1+1	p.M1_splice	LANCL1_uc010zjh.1_5'Flank|LANCL1_uc002ved.2_5'Flank|LANCL1_uc010fuq.2_5'Flank	NM_001122633	NP_001116105	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform a						carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		GAGGCCCATGGTGAGTCTTAA	0.378													12	44	---	---	---	---	PASS	A	211342491	A	A	211342491	5	1	148	1	0	0	0	0	0	0	1	0	3823	1275	44	3	6	3	CPS1	2	211342491	Splice_Site	SNP	G	TCGA-66-2759-01A-01D-1522-08	2151435	211342491	31856882	79	52582										
SPAG16	79582	broad.mit.edu	37	chr2	214878777	214878777	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acaagctctgcagacaagacCctgtctatatgggatgcaag	10	10	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:214878777C>A	uc002veq.2	+	13	1595	c.1503C>A	c.(1501-1503)ACC>ACA	p.T501T	SPAG16_uc010fuz.1_Silent_p.T352T|SPAG16_uc002ver.2_Silent_p.T447T|SPAG16_uc010zjk.1_Silent_p.T407T	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	501	WD 4.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		CAGACAAGACCCTGTCTATAT	0.383													35	160	---	---	---	---	PASS	A	214878777	A	A	214878777	2	1	148	1	0	0	0	0	0	0	0	1	14978	610	22	3		3	SPAG16	2	214878777	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	3536286	214878777	28320596	80	52583										
ABCA12	26154	broad.mit.edu	37	chr2	215813366	215813366	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	catgtaccctggcatagaaaTacaaatgttcttccacagtt	6	10	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:215813366T>C	uc002vew.2	-	47	7278	c.7058A>G	c.(7057-7059)TAT>TGT	p.Y2353C	ABCA12_uc002vev.2_Missense_Mutation_p.Y2035C|ABCA12_uc010zjn.1_Missense_Mutation_p.Y1280C	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	2353	ABC transporter 2.				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GGCATAGAAATACAAATGTTC	0.378													3	85	---	---	---	---	PASS	C	215813366	C	C	215813366	3	2	148	1	0	0	0	0	1	0	0	0	30	1406	49	5	757	5	ABCA12	2	215813366	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	934589	215813366	27386007	81	52584										
CHRND	1144	broad.mit.edu	37	chr2	233390967	233390967	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctggggctgctggctgccctGgcggtgtgtggtaagggaag	20	8	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:233390967G>A	uc002vsw.2	+	1	46	c.42G>A	c.(40-42)CTG>CTA	p.L14L	CHRND_uc010zmg.1_Silent_p.L14L|CHRND_uc010fyc.2_5'UTR|CHRND_uc010zmh.1_5'UTR	NM_000751	NP_000742	Q07001	ACHD_HUMAN	nicotinic acetylcholine receptor delta	14					muscle contraction|musculoskeletal movement|neuromuscular process|skeletal muscle tissue growth|synaptic transmission	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)|breast(1)|skin(1)	3		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.89e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00078)|Lung(119;0.00579)|LUSC - Lung squamous cell carcinoma(224;0.00754)		TGGCTGCCCTGGCGGTGTGTG	0.652													17	31	---	---	---	---	PASS	A	233390967	A	A	233390967	2	1	148	1	0	0	0	0	0	0	0	1	3394	1335	47	3		3	CHRND	2	233390967	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	17577601	233390967	9808406	82	52585										
LRRFIP1	9208	broad.mit.edu	37	chr2	238661985	238661985	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aagttgaagagaaatataagAaggctatggtttccaatgct	10	4	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:238661985A>T	uc002vxe.2	+	8	809	c.517A>T	c.(517-519)AAG>TAG	p.K173*	LRRFIP1_uc002vxc.2_Nonsense_Mutation_p.K301*|LRRFIP1_uc010znm.1_Nonsense_Mutation_p.K117*|LRRFIP1_uc002vxd.2_Nonsense_Mutation_p.K149*|LRRFIP1_uc002vxf.2_Nonsense_Mutation_p.K117*	NM_001137552	NP_001131024	Q32MZ4	LRRF1_HUMAN	leucine rich repeat (in FLII) interacting	173	Potential.				negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|cytoskeleton|nucleus	DNA binding|double-stranded RNA binding|protein binding			breast(3)	3		Breast(86;0.00257)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;9.75e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.01e-10)|Kidney(56;4.85e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.31e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000151)|Lung(119;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0325)|COAD - Colon adenocarcinoma(134;0.228)		GAAATATAAGAAGGCTATGGT	0.353													24	134	---	---	---	---	PASS	T	238661985	T	T	238661985	4	4	148	1	0	0	0	0	0	1	0	0	9027	247	9	5	1029	5	LRRFIP1	2	238661985	Nonsense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	5271018	238661985	4537388	83	52586										
MTERFD2	130916	broad.mit.edu	37	chr2	242035676	242035676	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aaactcagcttctgaaactcTgagaatgtccttgagcaatg	8	9	3	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:242035676T>A	uc002wan.1	-	3	1463	c.970A>T	c.(970-972)AGA>TGA	p.R324*	MTERFD2_uc010zoj.1_Nonsense_Mutation_p.R107*	NM_182501	NP_872307	Q7Z6M4	MTER2_HUMAN	MTERF domain containing 2	295										ovary(1)	1		all_cancers(19;4.67e-31)|all_epithelial(40;8.67e-13)|Breast(86;0.000141)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;2.47e-32)|all cancers(36;1.79e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-14)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;2.81e-06)|Lung(119;0.000509)|LUSC - Lung squamous cell carcinoma(224;0.00442)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0886)		TCTGAAACTCTGAGAATGTCC	0.502													63	151	---	---	---	---	PASS	A	242035676	A	A	242035676	4	1	148	1	0	0	0	0	0	1	0	0	9920	1588	55	5	266	5	MTERFD2	2	242035676	Nonsense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	3373691	242035676	1163697	84	52587										
ANO7	50636	broad.mit.edu	37	chr2	242128059	242128059	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gccactgcctgggcggggctCcaagggccacccctccccac	12	20	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:242128059C>G	uc002wax.2	+	1	136	c.33C>G	c.(31-33)CTC>CTG	p.L11L	ANO7_uc002waw.2_Silent_p.L11L	NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	11	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						GGGCGGGGCTCCAAGGGCCAC	0.687													15	25	---	---	---	---	PASS	G	242128059	G	G	242128059	2	3	148	1	0	0	0	0	0	0	0	1	702	842	30	2		2	ANO7	2	242128059	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	92383	242128059	1071314	85	52588										
HDLBP	3069	broad.mit.edu	37	chr2	242192406	242192406	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttcccaatgaggtgcctgtgGaacttgtggtcgatgttgat	13	7	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:242192406G>A	uc002waz.2	-	11	1566	c.1338C>T	c.(1336-1338)TTC>TTT	p.F446F	HDLBP_uc002wba.2_Silent_p.F446F|HDLBP_uc002wbb.2_Silent_p.F398F	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	446	KH 5.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		GGTGCCTGTGGAACTTGTGGT	0.577													24	141	---	---	---	---	PASS	A	242192406	A	A	242192406	2	1	148	1	0	0	0	0	0	0	0	1	7025	1165	41	2		2	HDLBP	2	242192406	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	64347	242192406	1006967	86	52589										
CNTN4	152330	broad.mit.edu	37	chr3	3095514	3095514	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttgtacagatggaacagacaAagcagcacatctgtcattga	9	8	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:3095514A>G	uc003bpc.2	+	23	3056	c.2835A>G	c.(2833-2835)CAA>CAG	p.Q945Q	CNTN4_uc003bpe.2_Silent_p.Q617Q|CNTN4_uc003bpf.2_Silent_p.Q616Q|CNTN4_uc003bpg.2_Silent_p.Q201Q	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	945	Fibronectin type-III 4.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		GGAACAGACAAAGCAGCACAT	0.408													25	44	---	---	---	---	PASS	G	3095514	G	G	3095514	2	3	148	1	0	0	0	0	0	0	0	1	3643	11	1	5		5	CNTN4	3	3095514	Silent	SNP	A	TCGA-66-2759-01A-01D-1522-08		3095514	194926916	87	52590										
JAGN1	84522	broad.mit.edu	37	chr3	9934715	9934715	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cttgtcacatgatcaggtggCcatgccctatcagtgggaat	11	10	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:9934715C>A	uc003btt.3	+	2	342	c.206C>A	c.(205-207)GCC>GAC	p.A69D	CIDEC_uc003bto.2_Intron	NM_032492	NP_115881	Q8N5M9	JAGN1_HUMAN	jagunal homolog 1	69	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(1)	1	Medulloblastoma(99;0.227)					GATCAGGTGGCCATGCCCTAT	0.512													16	69	---	---	---	---	PASS	A	9934715	A	A	9934715	3	1	148	1	0	0	0	0	1	0	0	0	7936	739	26	3	212	3	JAGN1	3	9934715	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	6839201	9934715	188087715	88	52591										
WNT7A	7476	broad.mit.edu	37	chr3	13916528	13916528	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcggaactgaaactgacactCgtccaggcccatttgtgagc	11	12	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:13916528C>T	uc003bye.1	-	2	519	c.214G>A	c.(214-216)GAG>AAG	p.E72K		NM_004625	NP_004616	O00755	WNT7A_HUMAN	wingless-type MMTV integration site family,	72			E -> K (in LPHAS).		activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3						AACTGACACTCGTCCAGGCCC	0.597													30	55	---	---	---	---	PASS	T	13916528	T	T	13916528	3	4	148	1	0	0	0	0	1	0	0	0	17391	893	31	2	847	2	WNT7A	3	13916528	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3981813	13916528	184105902	89	52592										
KIF15	56992	broad.mit.edu	37	chr3	44839159	44839159	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agagactccaaacttaccttCttactacgggtaaagtagat	7	9	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:44839159C>T	uc003cnx.3	+	9	1115	c.966C>T	c.(964-966)TTC>TTT	p.F322F	KIF15_uc010hiq.2_Silent_p.F225F|KIF15_uc003cny.1_5'Flank	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	322					blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		AACTTACCTTCTTACTACGGG	0.463													107	111	---	---	---	---	PASS	T	44839159	T	T	44839159	2	4	148	1	0	0	0	0	0	0	0	1	8277	912	32	2		2	KIF15	3	44839159	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	30922631	44839159	153183271	90	52593										
LTF	4057	broad.mit.edu	37	chr3	46491504	46491504	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tggaatttcggtgacttgtcCtttccaaacttttcctaatt	6	9	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:46491504C>T	uc003cpq.2	-	8	935	c.897G>A	c.(895-897)AAG>AAA	p.K299K	LTF_uc003fzr.2_Silent_p.K255K|LTF_uc010hjh.2_Silent_p.K299K|LTF_uc003cpr.2_Silent_p.K286K	NM_002343	NP_002334	P02788	TRFL_HUMAN	lactotransferrin precursor	299	Transferrin-like 1.				cellular iron ion homeostasis|defense response to bacterium|humoral immune response|iron ion transport	extracellular region|stored secretory granule	ferric iron binding|heparin binding|protein binding|serine-type endopeptidase activity			central_nervous_system(2)|ovary(1)|lung(1)	4				all cancers(1;7.55e-14)|GBM - Glioblastoma multiforme(1;2.1e-09)|Epithelial(1;9.25e-07)|Colorectal(1;3.81e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00129)|COAD - Colon adenocarcinoma(1;0.00308)|KIRC - Kidney renal clear cell carcinoma(197;0.0205)|Kidney(197;0.0242)|OV - Ovarian serous cystadenocarcinoma(275;0.089)	Pefloxacin(DB00487)	GTGACTTGTCCTTTCCAAACT	0.418													20	72	---	---	---	---	PASS	T	46491504	T	T	46491504	2	4	148	1	0	0	0	0	0	0	0	1	9079	680	24	3		3	LTF	3	46491504	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	1652345	46491504	151530926	91	52594										
KIF9	64147	broad.mit.edu	37	chr3	47289509	47289509	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tttgcctctagcctcttaccAggctgtcatggatagccagc	9	13	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:47289509A>T	uc010hjp.2	-	12	1731	c.1127T>A	c.(1126-1128)CTG>CAG	p.L376Q	KIF9_uc003cqx.2_Missense_Mutation_p.L376Q|KIF9_uc003cqy.2_Missense_Mutation_p.L376Q|KIF9_uc011bat.1_RNA|KIF9_uc011bau.1_RNA	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	376	Potential.				blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		GCCTCTTACCAGGCTGTCATG	0.582													105	107	---	---	---	---	PASS	T	47289509	T	T	47289509	3	4	148	1	0	0	0	0	1	0	0	0	8310	202	7	5	1289	5	KIF9	3	47289509	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	798005	47289509	150732921	92	52595										
COL7A1	1294	broad.mit.edu	37	chr3	48604105	48604105	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctactcacctgctcccctctCtcgccaggagctccagggac	8	19	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:48604105C>T	uc003ctz.2	-	111	8293	c.8292G>A	c.(8290-8292)GAG>GAA	p.E2764E	UCN2_uc003cty.1_5'Flank	NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2764	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCTCCCCTCTCTCGCCAGGAG	0.622													93	87	---	---	---	---	PASS	T	48604105	T	T	48604105	2	4	148	1	0	0	0	0	0	0	0	1	3704	912	32	2		2	COL7A1	3	48604105	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	1314596	48604105	149418325	93	52596										
USP19	10869	broad.mit.edu	37	chr3	49152898	49152898	+	Frame_Shift_Del	DEL	C	-	-													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atggaagaagtcccggagttCccgagtgttggacagagact							TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:49152898delC	uc003cwd.1	-	11	1719	c.1558delG	c.(1558-1560)GAAfs	p.E520fs	USP19_uc003cwa.2_Frame_Shift_Del_p.E328fs|USP19_uc003cvz.3_Frame_Shift_Del_p.E623fs|USP19_uc011bcg.1_Frame_Shift_Del_p.E611fs|USP19_uc003cwb.2_Frame_Shift_Del_p.E606fs|USP19_uc003cwc.1_Frame_Shift_Del_p.E278fs|USP19_uc011bch.1_Frame_Shift_Del_p.E621fs|USP19_uc011bci.1_Frame_Shift_Del_p.E608fs	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	520	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TCCCGGAGTTCCCGAGTGTTG	0.507													40	21	---	---	---	---		-	49152898	-	-	49152898	7	5	148	1	0	1	0	1	0	0	0	0	17047	864	30	0	2462	0	USP19	3	49152898	Frame_Shift_Del	DEL	C	TCGA-66-2759-01A-01D-1522-08	548793	49152898	148869532	94	52597										
SEMA3B	7869	broad.mit.edu	37	chr3	50313140	50313140	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttcttctcgccccaagactcGtctcgtcccgcgctgctgga	9	17	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:50313140G>A	uc003cyu.2	+	18	1952	c.1710G>A	c.(1708-1710)TCG>TCA	p.S570S	SEMA3B_uc003cyt.2_Silent_p.S569S|SEMA3B_uc003cyv.2_Silent_p.S457S|SEMA3B_uc003cyw.2_Silent_p.S293S|SEMA3B_uc010hli.2_Silent_p.S462S|SEMA3B_uc003cyx.2_Silent_p.S456S|SEMA3B_uc003cyy.2_Silent_p.S227S|SEMA3B_uc011bdo.1_Silent_p.S227S	NM_004636	NP_004627	Q13214	SEM3B_HUMAN	semaphorin 3B isoform 1 precursor	570					axon guidance|cell-cell signaling	endoplasmic reticulum|extracellular region|membrane	receptor activity			lung(2)|central_nervous_system(2)|kidney(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		CCCAAGACTCGTCTCGTCCCG	0.657													15	33	---	---	---	---	PASS	A	50313140	A	A	50313140	2	1	148	1	0	0	0	0	0	0	0	1	14025	1132	40	1		1	SEMA3B	3	50313140	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	1160242	50313140	147709290	95	52598										
SEMA3G	56920	broad.mit.edu	37	chr3	52476800	52476800	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atgcctggtccagccgcagaGagtagagggcgtccaggcca	15	12	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:52476800G>C	uc003dea.1	-	2	239	c.239C>G	c.(238-240)TCT>TGT	p.S80C		NM_020163	NP_064548	Q9NS98	SEM3G_HUMAN	semaphorin sem2 precursor	80	Sema.				multicellular organismal development	extracellular region|membrane	receptor activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00173)|KIRC - Kidney renal clear cell carcinoma(197;0.00196)|OV - Ovarian serous cystadenocarcinoma(275;0.0333)		CAGCCGCAGAGAGTAGAGGGC	0.632													13	8	---	---	---	---	PASS	C	52476800	C	C	52476800	3	2	148	1	0	0	0	0	1	0	0	0	14030	942	33	2	2169	2	SEMA3G	3	52476800	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2163660	52476800	145545630	96	52599										
FRMD4B	23150	broad.mit.edu	37	chr3	69435102	69435102	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acgaagcggctgccgctgaaCagcaggtcctccacgccaca	11	16	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:69435102C>A	uc003dnv.2	-	1	329	c.39G>T	c.(37-39)CTG>CTT	p.L13L	FRMD4B_uc003dnw.2_Intron|FRMD4B_uc003dny.2_Silent_p.L13L	NM_015123	NP_055938	Q9Y2L6	FRM4B_HUMAN	FERM domain containing 4B	13						cytoplasm|cytoskeleton	binding			ovary(3)|central_nervous_system(1)	4		Lung NSC(201;0.0138)|Prostate(884;0.11)		BRCA - Breast invasive adenocarcinoma(55;0.000201)|Epithelial(33;0.00141)|LUSC - Lung squamous cell carcinoma(21;0.00999)|Lung(16;0.0182)		TGCCGCTGAACAGCAGGTCCT	0.657													5	2	---	---	---	---	PASS	A	69435102	A	A	69435102	2	1	148	1	0	0	0	0	0	0	0	1	6052	465	17	3		3	FRMD4B	3	69435102	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	16958302	69435102	128587328	97	52600										
OR5H14	403273	broad.mit.edu	37	chr3	97868308	97868308	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aaccacagtggaaaatacccCtgttcctggcattcttggta	8	11	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:97868308C>A	uc003dsg.1	+	1	79	c.79C>A	c.(79-81)CTG>ATG	p.L27M		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	27	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GAAAATACCCCTGTTCCTGGC	0.418													114	453	---	---	---	---	PASS	A	97868308	A	A	97868308	3	1	148	1	0	0	0	0	1	0	0	0	11160	680	24	3	81	3	OR5H14	3	97868308	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	28433206	97868308	100154122	98	52601										
COL8A1	1295	broad.mit.edu	37	chr3	99514435	99514435	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gccttccaggacccccaggcCctccaggacctccaggaccc	9	21	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:99514435C>A	uc003dtg.1	+	5	1935	c.1690C>A	c.(1690-1692)CCT>ACT	p.P564T	COL8A1_uc003dth.1_Missense_Mutation_p.P564T|COL8A1_uc003dti.1_Missense_Mutation_p.P565T	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	564	Triple-helical region (COL1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						acccccaggccctccaggacc	0.488													67	42	---	---	---	---	PASS	A	99514435	A	A	99514435	3	1	148	1	0	0	0	0	1	0	0	0	3705	623	22	3	1696	3	COL8A1	3	99514435	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1646127	99514435	98507995	99	52602										
FAM55C	91775	broad.mit.edu	37	chr3	101535666	101535666	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cagtctagaactatctcaagGctcaggaacttttccttctg	7	11	4	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:101535666G>T	uc003dvn.2	+	7	1587	c.950G>T	c.(949-951)GGC>GTC	p.G317V	FAM55C_uc010hpn.2_Missense_Mutation_p.G317V	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	317						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						CTATCTCAAGGCTCAGGAACT	0.358													19	229	---	---	---	---	PASS	T	101535666	T	T	101535666	3	4	148	1	0	0	0	0	1	0	0	0	5586	1203	42	3	964	3	FAM55C	3	101535666	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2021231	101535666	96486764	100	52603										
PHLDB2	90102	broad.mit.edu	37	chr3	111632246	111632246	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cgcttatctactgggaccacCgtggaagatgtgcagaaaat	11	9	1	2	rs112434778		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:111632246C>T	uc010hqa.2	+	3	1827	c.1416C>T	c.(1414-1416)ACC>ACT	p.T472T	PHLDB2_uc003dyc.2_Silent_p.T499T|PHLDB2_uc003dyd.2_Silent_p.T472T|PHLDB2_uc003dyg.2_Silent_p.T472T|PHLDB2_uc003dyh.2_Silent_p.T472T|PHLDB2_uc003dyi.2_Silent_p.T58T|PHLDB2_uc003dyf.3_Silent_p.T472T	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	472						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						CTGGGACCACCGTGGAAGATG	0.522													90	335	---	---	---	---	PASS	T	111632246	T	T	111632246	2	4	148	1	0	0	0	0	0	0	0	1	11852	639	23	1		1	PHLDB2	3	111632246	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	10096580	111632246	86390184	101	52604										
SIDT1	54847	broad.mit.edu	37	chr3	113320481	113320481	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cccattgctgccagcacaccCgaagggagcaattatgggac	11	13	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:113320481C>T	uc003eak.2	+	11	1743	c.1092C>T	c.(1090-1092)CCC>CCT	p.P364P	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Silent_p.P364P|SIDT1_uc011big.1_Silent_p.P117P|SIDT1_uc011bih.1_5'Flank	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	364	Cytoplasmic (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						CCAGCACACCCGAAGGGAGCA	0.413													21	130	---	---	---	---	PASS	T	113320481	T	T	113320481	2	4	148	1	0	0	0	0	0	0	0	1	14302	639	23	1		1	SIDT1	3	113320481	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	1688235	113320481	84701949	102	52605										
ATP6V1A	523	broad.mit.edu	37	chr3	113524219	113524219	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aggttctgcccattctacaaGacagtagggatgctgtccaa	10	10	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:113524219G>C	uc003eao.2	+	14	1674	c.1608G>C	c.(1606-1608)AAG>AAC	p.K536N	ATP6V1A_uc011bik.1_Missense_Mutation_p.K503N	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	536					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						CATTCTACAAGACAGTAGGGA	0.358													49	224	---	---	---	---	PASS	C	113524219	C	C	113524219	3	2	148	1	0	0	0	0	1	0	0	0	1177	933	33	2	1658	2	ATP6V1A	3	113524219	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	203738	113524219	84498211	103	52606										
ZDHHC23	254887	broad.mit.edu	37	chr3	113672693	113672693	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtcctgctgcctgtcttccTtcatgtggcttcctggcatt	9	13	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:113672693T>G	uc003eau.2	+	3	607	c.308T>G	c.(307-309)CTT>CGT	p.L103R	ZDHHC23_uc003eav.2_Missense_Mutation_p.L97R	NM_173570	NP_775841	Q8IYP9	ZDH23_HUMAN	zinc finger, DHHC domain containing 23	103	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			ovary(2)	2						CCTGTCTTCCTTCATGTGGCT	0.512													8	751	---	---	---	---	PASS	G	113672693	G	G	113672693	3	3	148	1	0	0	0	0	1	0	0	0	17611	1609	56	5	314	5	ZDHHC23	3	113672693	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	148474	113672693	84349737	104	52607										
C3orf30	152405	broad.mit.edu	37	chr3	118865502	118865502	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gattacctacccaggctgagAgaagaacttctgggcagatt	11	9	1	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:118865502A>G	uc003ecb.1	+	1	506	c.466A>G	c.(466-468)AGA>GGA	p.R156G	IGSF11_uc003eby.2_5'Flank|IGSF11_uc003ebz.2_5'Flank|IGSF11_uc010hqs.2_5'Flank|C3orf30_uc011biw.1_Missense_Mutation_p.R156G	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	156										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		CCAGGCTGAGAGAAGAACTTC	0.502													38	136	---	---	---	---	PASS	G	118865502	G	G	118865502	3	3	148	1	0	0	0	0	1	0	0	0	2220	296	11	5	468	5	C3orf30	3	118865502	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	5192809	118865502	79156928	105	52608										
MCM2	4171	broad.mit.edu	37	chr3	127327752	127327752	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttccctgtctttgccactgtCatcctagccaaccacgtggc	7	16	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:127327752C>T	uc003ejp.2	+	8	1371	c.1314C>T	c.(1312-1314)GTC>GTT	p.V438V	MCM2_uc011bkm.1_Silent_p.V308V|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Silent_p.V322V	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	438					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						TTGCCACTGTCATCCTAGCCA	0.527													55	312	---	---	---	---	PASS	T	127327752	T	T	127327752	2	4	148	1	0	0	0	0	0	0	0	1	9386	813	29	2		2	MCM2	3	127327752	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	8462250	127327752	70694678	106	52609										
ACAD9	28976	broad.mit.edu	37	chr3	128612406	128612406	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcctcttggcagtggactccCgaaaaattgaccaggaaggg	12	10	1	1	rs148694290		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:128612406C>T	uc003ela.3	+	3	455	c.253C>T	c.(253-255)CGA>TGA	p.R85*	ACAD9_uc010hsw.1_5'UTR|ACAD9_uc011bks.1_5'UTR|ACAD9_uc003elb.2_5'UTR	NM_014049	NP_054768	Q9H845	ACAD9_HUMAN	acyl-Coenzyme A dehydrogenase family, member 9	85						mitochondrion	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding			ovary(2)|central_nervous_system(1)	3						AGTGGACTCCCGAAAAATTGA	0.358													4	121	---	---	---	---	PASS	T	128612406	T	T	128612406	4	4	148	1	0	0	0	0	0	1	0	0	111	644	23	1	263	1	ACAD9	3	128612406	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1284654	128612406	69410024	107	52610										
ZIC4	84107	broad.mit.edu	37	chr3	147114007	147114007	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	caggaccgtggggcgcagcgAggttcaccgtcaggttcatg	16	11	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:147114007A>G	uc003ewd.1	-	3	593	c.320T>C	c.(319-321)CTC>CCC	p.L107P	ZIC4_uc003ewc.1_Missense_Mutation_p.L37P|ZIC4_uc011bno.1_Missense_Mutation_p.L157P	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	107						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						GGGCGCAGCGAGGTTCACCGT	0.711													37	41	---	---	---	---	PASS	G	147114007	G	G	147114007	3	3	148	1	0	0	0	0	1	0	0	0	17678	304	11	5	696	5	ZIC4	3	147114007	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	18501601	147114007	50908423	108	52611										
ZIC1	7545	broad.mit.edu	37	chr3	147128194	147128194	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cagccttcaactccacgcggGactttctgttccgcaaccgg	9	16	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:147128194G>T	uc003ewe.2	+	1	1014	c.295G>T	c.(295-297)GAC>TAC	p.D99Y		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	99					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CTCCACGCGGGACTTTCTGTT	0.701													6	50	---	---	---	---	PASS	T	147128194	T	T	147128194	3	4	148	1	0	0	0	0	1	0	0	0	17675	1174	41	2	297	2	ZIC1	3	147128194	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	14187	147128194	50894236	109	52612										
AGTR1	185	broad.mit.edu	37	chr3	148459455	148459455	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctgtttccttttctgatcatTcttacaagttatactcttat	3	9	4	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:148459455T>G	uc003ewg.2	+	4	1079	c.633T>G	c.(631-633)ATT>ATG	p.I211M	AGTR1_uc003ewh.2_Missense_Mutation_p.I211M|AGTR1_uc003ewi.2_Missense_Mutation_p.I211M|AGTR1_uc003ewj.2_Missense_Mutation_p.I211M|AGTR1_uc003ewk.2_Missense_Mutation_p.I211M	NM_031850	NP_114038	P30556	AGTR1_HUMAN	angiotensin II receptor, type 1	211	Helical; Name=5; (Potential).				calcium-mediated signaling|cell chemotaxis|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|kidney development|low-density lipoprotein particle remodeling|positive regulation of cellular protein metabolic process|positive regulation of cholesterol esterification|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of phospholipase A2 activity|positive regulation of reactive oxygen species metabolic process|regulation of cell growth|regulation of cell proliferation|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|Rho protein signal transduction		acetyltransferase activator activity|angiotensin type I receptor activity|angiotensin type II receptor activity|bradykinin receptor binding|protein heterodimerization activity				0			LUSC - Lung squamous cell carcinoma(72;0.127)|Lung(72;0.152)		Candesartan(DB00796)|Eprosartan(DB00876)|Forasartan(DB01342)|Irbesartan(DB01029)|Losartan(DB00678)|Olmesartan(DB00275)|Saprisartan(DB01347)|Spironolactone(DB00421)|Tasosartan(DB01349)|Telmisartan(DB00966)|Valsartan(DB00177)	TTCTGATCATTCTTACAAGTT	0.368													31	170	---	---	---	---	PASS	G	148459455	G	G	148459455	3	3	148	1	0	0	0	0	1	0	0	0	401	1771	62	5	635	5	AGTR1	3	148459455	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	1331261	148459455	49562975	110	52613										
GPR87	53836	broad.mit.edu	37	chr3	151012946	151012946	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aagggtggtgttctttcctgGcccgtcgctcctgttgcctg	13	12	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:151012946G>A	uc003eyt.2	-	3	449	c.88C>T	c.(88-90)CCA>TCA	p.P30S	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_023915	NP_076404	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	30	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TTCTTTCCTGGCCCGTCGCTC	0.483													33	353	---	---	---	---	PASS	A	151012946	A	A	151012946	3	1	148	1	0	0	0	0	1	0	0	0	6716	1203	42	3	992	3	GPR87	3	151012946	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2553491	151012946	47009484	111	52614										
MME	4311	broad.mit.edu	37	chr3	154864963	154864963	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttaaagaaaggatcggctatCctgatgacattgtttcaaat	8	6	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:154864963C>G	uc010hvr.1	+	15	1658	c.1447C>G	c.(1447-1449)CCT>GCT	p.P483A	MME_uc003fab.1_Missense_Mutation_p.P483A|MME_uc003fac.1_Missense_Mutation_p.P483A|MME_uc003fad.1_Missense_Mutation_p.P483A|MME_uc003fae.1_Missense_Mutation_p.P483A	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	483	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	GATCGGCTATCCTGATGACAT	0.328													16	256	---	---	---	---	PASS	G	154864963	G	G	154864963	3	3	148	1	0	0	0	0	1	0	0	0	9645	855	30	2	1501	2	MME	3	154864963	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3852017	154864963	43157467	112	52615										
PLCH1	23007	broad.mit.edu	37	chr3	155200211	155200211	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atgagaaacaactgtgagagCctgattgttggtctcatcaa	10	7	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:155200211C>T	uc011bok.1	-	23	3905	c.3628G>A	c.(3628-3630)GCT>ACT	p.A1210T	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.A1172T	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1210					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			ACTGTGAGAGCCTGATTGTTG	0.448													48	170	---	---	---	---	PASS	T	155200211	T	T	155200211	3	4	148	1	0	0	0	0	1	0	0	0	12037	739	26	3	1457	3	PLCH1	3	155200211	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	335248	155200211	42822219	113	52616										
SLITRK3	22865	broad.mit.edu	37	chr3	164906409	164906409	+	Missense_Mutation	SNP	C	A	A													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggatgtactcatacacatgaCccacgggaggggccttctct							TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:164906409C>A	uc003fej.3	-	2	2654	c.2210G>T	c.(2209-2211)GGT>GTT	p.G737V	SLITRK3_uc003fek.2_Missense_Mutation_p.G737V	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	737	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						ATACACATGACCCACGGGAGG	0.453										HNSCC(40;0.11)			29	210	---	---	---	---	PASS	A	164906409	A	A	164906409	3	1	148	1	0	0	0	0	1	0	0	0	14744	507	18	3	727	3	SLITRK3	3	164906409	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	9706198	164906409	33116021	114	52617	963	2								
SLITRK3	22865	broad.mit.edu	37	chr3	164906410	164906410	+	Missense_Mutation	SNP	C	T	T													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gatgtactcatacacatgacCcacgggaggggccttctctg							TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:164906410C>T	uc003fej.3	-	2	2653	c.2209G>A	c.(2209-2211)GGT>AGT	p.G737S	SLITRK3_uc003fek.2_Missense_Mutation_p.G737S	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	737	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						TACACATGACCCACGGGAGGG	0.458										HNSCC(40;0.11)			28	206	---	---	---	---	PASS	T	164906410	T	T	164906410	3	4	148	1	0	0	0	0	1	0	0	0	14744	623	22	3	728	3	SLITRK3	3	164906410	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1	164906410	33116020	115	52618	963	2								
BCHE	590	broad.mit.edu	37	chr3	165547936	165547936	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cagaagaatttcttggggatCtttatttctaagacacttga	8	6	3	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:165547936C>G	uc003fem.3	-	2	1046	c.886G>C	c.(886-888)GAT>CAT	p.D296H	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	296					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	TCTTGGGGATCTTTATTTCTA	0.393													42	268	---	---	---	---	PASS	G	165547936	G	G	165547936	3	3	148	1	0	0	0	0	1	0	0	0	1358	913	32	2	934	2	BCHE	3	165547936	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	641526	165547936	32474494	116	52619										
WDR49	151790	broad.mit.edu	37	chr3	167248946	167248946	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gctttaagaaagcaaagtctCataacagcatttttgccctc	6	10	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:167248946C>A	uc003fev.1	-	9	1425	c.1119G>T	c.(1117-1119)ATG>ATT	p.M373I	WDR49_uc003feu.1_Missense_Mutation_p.M198I|WDR49_uc011bpd.1_Missense_Mutation_p.M437I|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	373	WD 6.									large_intestine(1)|ovary(1)|skin(1)	3						AGCAAAGTCTCATAACAGCAT	0.418													49	294	---	---	---	---	PASS	A	167248946	A	A	167248946	3	1	148	1	0	0	0	0	1	0	0	0	17299	826	29	2	1002	2	WDR49	3	167248946	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1701010	167248946	30773484	117	52620										
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atcctctctctgaaatcactGagcaggagaaagattttcta	7	9	4	4	rs104886003		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			38	107	---	---	---	---	PASS	A	178936091	A	A	178936091	3	1	148	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	11687145	178936091	19086339	118	52621										
TTC14	151613	broad.mit.edu	37	chr3	180327770	180327770	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctctctcttcatcttcacttGaaataccggatgattttgga	6	10	5	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:180327770G>C	uc003fkk.2	+	12	1885	c.1753G>C	c.(1753-1755)GAA>CAA	p.E585Q	TTC14_uc003fkl.2_3'UTR|TTC14_uc003fkm.2_Missense_Mutation_p.E585Q	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	585							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			ATCTTCACTTGAAATACCGGA	0.383													23	872	---	---	---	---	PASS	C	180327770	C	C	180327770	3	2	148	1	0	0	0	0	1	0	0	0	16678	1291	45	2	1829	2	TTC14	3	180327770	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	1391679	180327770	17694660	119	52622										
FXR1	8087	broad.mit.edu	37	chr3	180630511	180630511	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggaggttcgcggctctaacgGggctttctacaaggtactga	14	9	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:180630511G>T	uc003fkq.2	+	1	60	c.38G>T	c.(37-39)GGG>GTG	p.G13V	FXR1_uc003fkp.2_5'UTR|FXR1_uc003fkr.2_Missense_Mutation_p.G13V|FXR1_uc011bqj.1_5'UTR|FXR1_uc003fks.2_5'UTR|FXR1_uc011bqk.1_Missense_Mutation_p.G13V|FXR1_uc011bql.1_5'Flank	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	13					apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			GGCTCTAACGGGGCTTTCTAC	0.522											OREG0015934	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	70	352	---	---	---	---	PASS	T	180630511	T	T	180630511	3	4	148	1	0	0	0	0	1	0	0	0	6115	1232	43	3	40	3	FXR1	3	180630511	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	302741	180630511	17391919	120	52623										
MCCC1	56922	broad.mit.edu	37	chr3	182789018	182789018	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttttcctcctccaccccggaCggctttaatcatgacaggat	7	14	1	1	rs149268368	by1000genomes	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:182789018C>G	uc003fle.2	-	6	756	c.619G>C	c.(619-621)GTC>CTC	p.V207L	MCCC1_uc010hxi.2_RNA|MCCC1_uc011bqo.1_RNA|MCCC1_uc003flf.2_Missense_Mutation_p.V90L|MCCC1_uc003flg.2_Missense_Mutation_p.V98L|MCCC1_uc011bqp.1_Missense_Mutation_p.V160L|MCCC1_uc011bqq.1_Missense_Mutation_p.V98L	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	207	Biotin carboxylation.|ATP-grasp.				biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	CCACCCCGGACGGCTTTAATC	0.443													58	237	---	---	---	---	PASS	G	182789018	G	G	182789018	3	3	148	1	0	0	0	0	1	0	0	0	9374	536	19	4	1614	4	MCCC1	3	182789018	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	2158507	182789018	15233412	121	52624										
MCF2L2	23101	broad.mit.edu	37	chr3	182948794	182948794	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cttcagtctcaagcaagtcaCgtataatgcgcctgaatcac	7	12	4	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:182948794C>A	uc003fli.1	-	16	1964	c.1874G>T	c.(1873-1875)CGT>CTT	p.R625L	MCF2L2_uc003flj.1_Missense_Mutation_p.R625L|MCF2L2_uc011bqr.1_RNA	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	625	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			AAGCAAGTCACGTATAATGCG	0.393													28	150	---	---	---	---	PASS	A	182948794	A	A	182948794	3	1	148	1	0	0	0	0	1	0	0	0	9380	536	19	1	1530	1	MCF2L2	3	182948794	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	159776	182948794	15073636	122	52625										
FETUB	26998	broad.mit.edu	37	chr3	186358324	186358324	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atgtctccaccccagctggcCctcaacccctcggctctgct	7	20	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:186358324C>A	uc010hyq.2	+	2	336	c.75C>A	c.(73-75)GCC>GCA	p.A25A	FETUB_uc011brz.1_Intron|FETUB_uc003fqn.2_Silent_p.A25A|FETUB_uc003fqo.2_5'UTR|FETUB_uc010hyr.2_Silent_p.A25A|FETUB_uc010hys.2_5'UTR|FETUB_uc003fqp.3_Silent_p.A25A	NM_014375	NP_055190	Q9UGM5	FETUB_HUMAN	fetuin B precursor	25	Cystatin fetuin-B-type 1.					extracellular space	cysteine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0479)		CCCAGCTGGCCCTCAACCCCT	0.587													204	667	---	---	---	---	PASS	A	186358324	A	A	186358324	2	1	148	1	0	0	0	0	0	0	0	1	5821	610	22	3		3	FETUB	3	186358324	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	3409530	186358324	11664106	123	52626										
MASP1	5648	broad.mit.edu	37	chr3	186980461	186980461	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggagtctgctctgtgtctgtGgtctccctgccacagaaggt	13	11	4	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:186980461G>T	uc003frh.1	-	3	617	c.285C>A	c.(283-285)ACC>ACA	p.T95T	MASP1_uc003fri.2_Silent_p.T95T|MASP1_uc003frj.2_Silent_p.T64T|MASP1_uc003frk.1_Silent_p.T95T|MASP1_uc011bse.1_Silent_p.T69T	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	95	Interaction with FCN2.|Interaction with MBL2.|Homodimerization (By similarity).|CUB 1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		CTGTGTCTGTGGTCTCCCTGC	0.542													20	97	---	---	---	---	PASS	T	186980461	T	T	186980461	2	4	148	1	0	0	0	0	0	0	0	1	9322	1335	47	3		3	MASP1	3	186980461	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	622137	186980461	11041969	124	52627										
RTP2	344892	broad.mit.edu	37	chr3	187419842	187419842	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tctatgatgagctcccagctGtccgctggctttgccacctc	9	15	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:187419842G>C	uc003fro.1	-	1	504	c.75C>G	c.(73-75)GAC>GAG	p.D25E		NM_001004312	NP_001004312	Q5QGT7	RTP2_HUMAN	receptor transporting protein 2	25	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding				0	all_cancers(143;4.06e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0515)		GCTCCCAGCTGTCCGCTGGCT	0.577													146	603	---	---	---	---	PASS	C	187419842	C	C	187419842	3	2	148	1	0	0	0	0	1	0	0	0	13734	1368	48	4	610	4	RTP2	3	187419842	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	439381	187419842	10602588	125	52628										
LPP	4026	broad.mit.edu	37	chr3	188584118	188584118	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cagcctggatgggatcccatTcactgtggatgctggcgggc	15	11	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:188584118T>G	uc003frs.1	+	9	1787	c.1541T>G	c.(1540-1542)TTC>TGC	p.F514C	LPP_uc011bsg.1_Missense_Mutation_p.F367C|LPP_uc011bsi.1_Missense_Mutation_p.F514C|LPP_uc011bsj.1_Missense_Mutation_p.F351C	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	514	LIM zinc-binding 2.				cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		GGGATCCCATTCACTGTGGAT	0.562			T	HMGA2|MLL|C12orf9	lipoma|leukemia								45	176	---	---	---	---	PASS	G	188584118	G	G	188584118	3	3	148	1	0	0	0	0	1	0	0	0	8923	1783	62	5	1567	5	LPP	3	188584118	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	1164276	188584118	9438312	126	52629										
GP5	2814	broad.mit.edu	37	chr3	194118433	194118433	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agaagtctctcgagcttagcCtgtgctccaagcaacccctt	8	14	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:194118433C>T	uc003ftv.1	-	2	610	c.579G>A	c.(577-579)CAG>CAA	p.Q193Q		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	193	Extracellular (Potential).|LRR 5.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		CGAGCTTAGCCTGTGCTCCAA	0.567													57	333	---	---	---	---	PASS	T	194118433	T	T	194118433	2	4	148	1	0	0	0	0	0	0	0	1	6583	680	24	3		3	GP5	3	194118433	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	5534315	194118433	3903997	127	52630										
GP5	2814	broad.mit.edu	37	chr3	194118476	194118476	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcaggtgggtcaggttgtttCccgataaatccaacaacttc	10	10	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:194118476C>T	uc003ftv.1	-	2	567	c.536G>A	c.(535-537)GGA>GAA	p.G179E		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	179	Extracellular (Potential).|LRR 5.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		CAGGTTGTTTCCCGATAAATC	0.537													54	295	---	---	---	---	PASS	T	194118476	T	T	194118476	3	4	148	1	0	0	0	0	1	0	0	0	6583	855	30	2	1150	2	GP5	3	194118476	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	43	194118476	3903954	128	52631										
TNK2	10188	broad.mit.edu	37	chr3	195605216	195605216	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcccgcatgtctgtgggctgGgcctggaggaagaggaaggt	19	8	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:195605216G>A	uc003fvu.1	-	9	1707	c.1164C>T	c.(1162-1164)GCC>GCT	p.A388A	TNK2_uc003fvs.1_Silent_p.A420A|TNK2_uc003fvt.1_Silent_p.A451A|TNK2_uc010hzw.1_RNA|TNK2_uc003fvv.1_Silent_p.A218A	NM_005781	NP_005772	Q07912	ACK1_HUMAN	tyrosine kinase, non-receptor, 2 isoform 1	388	SH3.			Missing (in Ref. 4; AAH08884).	positive regulation of peptidyl-tyrosine phosphorylation|protein ubiquitination|small GTPase mediated signal transduction	adherens junction|cytoplasmic vesicle membrane|endosome|nucleus	ATP binding|GTPase inhibitor activity|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|central_nervous_system(3)|lung(2)|stomach(1)|skin(1)	10	all_cancers(143;6.48e-09)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;1.46e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.3e-19)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;0.000757)	Adenosine triphosphate(DB00171)	CTGTGGGCTGGGCCTGGAGGA	0.602													127	359	---	---	---	---	PASS	A	195605216	A	A	195605216	2	1	148	1	0	0	0	0	0	0	0	1	16315	1219	43	3		3	TNK2	3	195605216	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	1486740	195605216	2417214	129	52632										
PIGG	54872	broad.mit.edu	37	chr4	494382	494382	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cacctacagttactatgcctCgaatcaaggtaagtttgcct	7	11	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:494382C>A	uc003gak.3	+	2	488	c.352C>A	c.(352-354)CGA>AGA	p.R118R	PIGG_uc003gaj.3_Silent_p.R118R|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Silent_p.R118R|PIGG_uc003gal.3_Silent_p.R29R|ZNF721_uc003gag.2_5'Flank|ZNF721_uc010ibe.2_5'Flank|ZNF721_uc003gah.1_5'Flank|PIGG_uc003gai.2_RNA|PIGG_uc011buw.1_5'UTR|PIGG_uc003gam.2_Silent_p.R29R|PIGG_uc003gan.2_Silent_p.R29R	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	118	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						TACTATGCCTCGAATCAAGGT	0.408													3	80	---	---	---	---	PASS	A	494382	A	A	494382	2	1	148	1	0	0	0	0	0	0	0	1	11888	876	31	2		2	PIGG	4	494382	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08		494382	190659894	130	52633										
SLIT2	9353	broad.mit.edu	37	chr4	20255601	20255601	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcgtgcccaggaatatccccCgcaacaccgagagactgtga	11	14	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:20255601C>T	uc003gpr.1	+	1	367	c.163C>T	c.(163-165)CGC>TGC	p.R55C	SLIT2_uc003gps.1_Missense_Mutation_p.R55C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	55	LRRNT.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GAATATCCCCCGCAACACCGA	0.672													18	93	---	---	---	---	PASS	T	20255601	T	T	20255601	3	4	148	1	0	0	0	0	1	0	0	0	14740	652	23	1	165	1	SLIT2	4	20255601	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	19761219	20255601	170898675	131	52634										
PDS5A	23244	broad.mit.edu	37	chr4	39875994	39875994	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gttttgcttggtgtggagtaCccctctttgctttttgatgt	11	7	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:39875994C>G	uc003guv.3	-	20	2732	c.2192G>C	c.(2191-2193)GGT>GCT	p.G731A	PDS5A_uc010ifo.2_Missense_Mutation_p.G691A	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	731					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						GTGTGGAGTACCCCTCTTTGC	0.343													4	74	---	---	---	---	PASS	G	39875994	G	G	39875994	3	3	148	1	0	0	0	0	1	0	0	0	11691	507	18	4	1877	4	PDS5A	4	39875994	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	19620393	39875994	151278282	132	52635										
CHRNA9	55584	broad.mit.edu	37	chr4	40339267	40339267	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gactgcttatttgtggatccGccaaatctggcacgatgcct	10	11	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:40339267G>A	uc003gva.1	+	3	267	c.251G>A	c.(250-252)CGC>CAC	p.R84H		NM_017581	NP_060051	Q9UGM1	ACHA9_HUMAN	cholinergic receptor, nicotinic, alpha 9	84	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|synaptic transmission	cell junction|postsynaptic membrane	calcium channel activity|receptor activity			breast(3)|skin(3)|central_nervous_system(1)	7					Nicotine(DB00184)	TTGTGGATCCGCCAAATCTGG	0.483													16	32	---	---	---	---	PASS	A	40339267	A	A	40339267	3	1	148	1	0	0	0	0	1	0	0	0	3389	1087	38	1	261	1	CHRNA9	4	40339267	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	463273	40339267	150815009	133	52636										
KCTD8	386617	broad.mit.edu	37	chr4	44176896	44176896	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtggatttttttaaaatcctGaatacactttttcatttctt	4	6	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:44176896G>T	uc003gwu.2	-	2	1617	c.1333C>A	c.(1333-1335)CAG>AAG	p.Q445K		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	445						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						TTAAAATCCTGAATACACTTT	0.388										HNSCC(17;0.042)			147	122	---	---	---	---	PASS	T	44176896	T	T	44176896	3	4	148	1	0	0	0	0	1	0	0	0	8115	1299	45	2	92	2	KCTD8	4	44176896	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	3837629	44176896	146977380	134	52637										
KIT	3815	broad.mit.edu	37	chr4	55593614	55593614	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gaagtacagtggaaggttgtTgaggagataaatggaaacaa	14	2	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:55593614T>A	uc010igr.2	+	11	1767	c.1680T>A	c.(1678-1680)GTT>GTA	p.V560V	KIT_uc010igs.2_Silent_p.V556V|KIT_uc010igt.1_Silent_p.V9V	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	560	Cytoplasmic (Potential).		Missing (in GIST; somatic mutation).		male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity	p.V560D(113)|p.V560del(44)|p.W557_E561del(36)|p.V560G(23)|p.V560_L576del(22)|p.V560E(18)|p.K558_E562del(16)|p.V559_E561del(15)|p.K558_V560del(13)|p.K558_V560>N(12)|p.V559_G565del(11)|p.W557_V560>C(11)|p.K558_G565>R(11)|p.Q556_V560del(10)|p.V559_V560del(9)|p.K558_D572del(9)|p.V559_T574del(6)|p.W557_Q575del(6)|p.Q556_V560>H(6)|p.K558_I563del(5)|p.Q556_D572del(5)|p.K558_V560>I(5)|p.W557_V560>F(4)|p.V555_P573del(4)|p.V555_I571del(4)|p.W557_V560del(4)|p.M552_D572del(4)|p.V555_V560del(4)|p.V560_I571del(3)|p.Q556_D572>H(3)|p.Y553_T574>S(3)|p.V560_E561del(3)|p.E554_D572>A(3)|p.Q556_L576del(3)|p.W557_E562del(3)|p.V555_D572del(3)|p.Q556_T574del(3)|p.K558_E561del(3)|p.Y553_E561>LK(2)|p.M552_E561>K(2)|p.V559_D572del(2)|p.W557_P573>S(2)|p.W557_T574del(2)|p.P551_V569del(2)|p.V560_Y578del(2)|p.V560A(2)|p.Y553_E561del(2)|p.Q556_N564>R(2)|p.V555_E562del(2)|p.V555_Q575del(2)|p.W557_D572del(2)|p.W557_N564del(2)|p.V559_E562del(2)|p.K558_N564del(2)|p.W557_I571del(2)|p.K558_Y570>N(2)|p.V559_N566>D(2)|p.Q556_N564>H(2)|p.K558_Q575del(1)|p.V555_Y570del(1)|p.M552_T574>TESA(1)|p.Q556_D572>PS(1)|p.Q556_I563del(1)|p.W557_I563>FP(1)|p.M552_V560del(1)|p.K558_N564>R(1)|p.K558_E561>NP(1)|p.V559_P573>A(1)|p.K558_D572>N(1)|p.E554_N564>D(1)|p.V559_L576del(1)|p.P551_E561>Q(1)|p.Y553_P573del(1)|p.K550_V560>L(1)|p.V555_V560>H(1)|p.W557_T575>CP(1)|p.E554_Y570del(1)|p.E554_E561del(1)|p.Q556_N566>SNNLQLY(1)|p.E554_I571del(1)|p.V560_Y568del(1)|p.V555_V560>T(1)|p.V555_V560>V(1)|p.W557_E561>PS(1)|p.Q556_L576>H(1)|p.K558_G565>A(1)|p.Q556_P573del(1)|p.K558_L576>NV(1)|p.E554_E562del(1)|p.Q556_V560>TTF(1)|p.K558_V560>R(1)|p.W557_I563>T(1)|p.K558_T574>NRS(1)|p.V559_I571del(1)|p.E554_D572del(1)|p.W557_Y570del(1)|p.V560V(1)|p.P551_V569>L(1)|p.K558_P573del(1)|p.Q556_N564del(1)|p.E554_V560>K(1)|p.E554_V560>D(1)|p.V559_S590del(1)|p.V555_N566>D(1)|p.V559_N564del(1)|p.Q556_V560>HNLQLY(1)|p.K558_L576del(1)|p.Y553_L576>NCLHLYSSQ(1)|p.K558_V560>M(1)|p.E561del(1)|p.V555_I563del(1)|p.M552_Y570del(1)|p.K558_P573>R(1)|p.V555_G565del(1)|p.V560_N566del(1)|p.K558_G565del(1)|p.Q556_V560>F(1)|p.M552_I563del(1)|p.Q556_E561del(1)|p.V560_D572del(1)|p.V555_N564del(1)|p.Q556_E561>HH(1)|p.K550_Y568del(1)|p.E554_N564del(1)|p.V559_V569del(1)|p.Q556_E561>P(1)		soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	GGAAGGTTGTTGAGGAGATAA	0.388		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				24	122	---	---	---	---	PASS	A	55593614	A	A	55593614	2	1	148	1	0	0	0	0	0	0	0	1	8329	1799	63	5		5	KIT	4	55593614	Silent	SNP	T	TCGA-66-2759-01A-01D-1522-08	11416718	55593614	135560662	135	52638										
WDFY3	23001	broad.mit.edu	37	chr4	85750301	85750301	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctaggggagacaggtcatctGattgctgcatattctgaaca	11	8	3	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:85750301G>C	uc003hpd.2	-	9	1220	c.812C>G	c.(811-813)TCA>TGA	p.S271*	WDFY3_uc003hpf.2_Nonsense_Mutation_p.S271*	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	271						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CAGGTCATCTGATTGCTGCAT	0.348													63	98	---	---	---	---	PASS	C	85750301	C	C	85750301	4	2	148	1	0	0	0	0	0	1	0	0	17267	1294	45	2	10051	2	WDFY3	4	85750301	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	30156687	85750301	105403975	136	52639										
IBSP	3381	broad.mit.edu	37	chr4	88731824	88731824	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aagactctgaggctgagaatAccacactttctgctacaaca	7	11	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:88731824A>G	uc003hqx.3	+	6	411	c.313A>G	c.(313-315)ACC>GCC	p.T105A		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	105	Asp/Glu-rich (acidic).				biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		GGCTGAGAATACCACACTTTC	0.413													28	150	---	---	---	---	PASS	G	88731824	G	G	88731824	3	3	148	1	0	0	0	0	1	0	0	0	7475	391	14	5	331	5	IBSP	4	88731824	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	2981523	88731824	102422452	137	52640										
HERC6	55008	broad.mit.edu	37	chr4	89363384	89363384	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	accaaattttattcctttctAgttttccttacaggacgtga	5	9	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:89363384A>G	uc011cdi.1	+	23	3026	c.2843_splice	c.e23-2	p.F948_splice	HERC6_uc011cdj.1_Splice_Site_p.F912_splice|HERC6_uc011cdk.1_Splice_Site|HERC6_uc011cdl.1_Splice_Site	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		ATTCCTTTCTAGTTTTCCTTA	0.294													11	14	---	---	---	---	PASS	G	89363384	G	G	89363384	5	3	148	1	0	0	0	0	0	0	1	0	7062	434	15	5	2728	5	HERC6	4	89363384	Splice_Site	SNP	A	TCGA-66-2759-01A-01D-1522-08	631560	89363384	101790892	138	52641										
HERC3	8916	broad.mit.edu	37	chr4	89591092	89591092	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgcagtcctttatctactgaGgggaagaaagacattcttaa	9	7	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:89591092G>A	uc003hrw.1	+	15	1881	c.1715G>A	c.(1714-1716)AGG>AAG	p.R572K	HERC3_uc011cdn.1_Missense_Mutation_p.R454K|HERC3_uc011cdo.1_Missense_Mutation_p.R16K	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	572					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		TATCTACTGAGGGGAAGAAAG	0.388													85	86	---	---	---	---	PASS	A	89591092	A	A	89591092	3	1	148	1	0	0	0	0	1	0	0	0	7059	1000	35	3	1765	3	HERC3	4	89591092	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	227708	89591092	101563184	139	52642										
DAPP1	27071	broad.mit.edu	37	chr4	100774445	100774445	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tccatttatgaatctgtccgGgttcacacagcaatgcagac	8	11	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:100774445G>C	uc003hvf.3	+	4	519	c.429G>C	c.(427-429)CGG>CGC	p.R143R	DAPP1_uc011cek.1_Intron|DAPP1_uc010ilh.2_Silent_p.R143R	NM_014395	NP_055210	Q9UN19	DAPP1_HUMAN	dual adaptor of phosphotyrosine and	143					signal transduction	cytoplasm|plasma membrane	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein tyrosine phosphatase activity				0				OV - Ovarian serous cystadenocarcinoma(123;7.04e-09)		AATCTGTCCGGGTTCACACAG	0.448													13	26	---	---	---	---	PASS	C	100774445	C	C	100774445	2	2	148	1	0	0	0	0	0	0	0	1	4239	1219	43	4		4	DAPP1	4	100774445	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	11183353	100774445	90379831	140	52643										
GSTCD	79807	broad.mit.edu	37	chr4	106647744	106647744	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tttcctacctaggtaattatCagcaggaaattttctgagaa	7	7	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:106647744C>A	uc003hxz.3	+	4	975	c.903C>A	c.(901-903)ATC>ATA	p.I301I	GSTCD_uc003hxx.2_Silent_p.I301I|GSTCD_uc003hxy.3_Silent_p.I214I|GSTCD_uc011cfb.1_5'UTR|GSTCD_uc010ils.1_Silent_p.I301I	NM_001031720	NP_001026890	Q8NEC7	GSTCD_HUMAN	glutathione S-transferase, C-terminal domain	301	GST C-terminal.					cytoplasm	rRNA methyltransferase activity			breast(1)|central_nervous_system(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.15e-07)|READ - Rectum adenocarcinoma(30;0.139)		AGGTAATTATCAGCAGGAAAT	0.264													5	12	---	---	---	---	PASS	A	106647744	A	A	106647744	2	1	148	1	0	0	0	0	0	0	0	1	6835	816	29	2		2	GSTCD	4	106647744	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	5873299	106647744	84506532	141	52644										
ENPEP	2028	broad.mit.edu	37	chr4	111398008	111398008	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aggatcacccggctcccggaGctgaagaggccctctgggga	15	13	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:111398008G>C	uc003iab.3	+	1	780	c.438G>C	c.(436-438)GAG>GAC	p.E146D		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	146	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	GGCTCCCGGAGCTGAAGAGGC	0.627													36	205	---	---	---	---	PASS	C	111398008	C	C	111398008	3	2	148	1	0	0	0	0	1	0	0	0	5128	962	34	4	440	4	ENPEP	4	111398008	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	4750264	111398008	79756268	142	52645										
ANK2	287	broad.mit.edu	37	chr4	114279820	114279820	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aaaaccaaagtccaaactccCtgtcaaagtacccctccaaa	3	15	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:114279820C>T	uc003ibe.3	+	38	10146	c.10046C>T	c.(10045-10047)CCT>CTT	p.P3349L	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.P651L|ANK2_uc011cgb.1_Missense_Mutation_p.P3364L	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3316					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TCCAAACTCCCTGTCAAAGTA	0.473													44	159	---	---	---	---	PASS	T	114279820	T	T	114279820	3	4	148	1	0	0	0	0	1	0	0	0	621	681	24	3	10261	3	ANK2	4	114279820	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	2881812	114279820	76874456	143	52646										
NDST4	64579	broad.mit.edu	37	chr4	115749013	115749013	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctgtctcagccacgatggcaGaggctgtcccagtctgtgta	12	12	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:115749013G>T	uc003ibu.2	-	14	3257	c.2578C>A	c.(2578-2580)CTG>ATG	p.L860M	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	860	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		CACGATGGCAGAGGCTGTCCC	0.403													25	82	---	---	---	---	PASS	T	115749013	T	T	115749013	3	4	148	1	0	0	0	0	1	0	0	0	10258	933	33	2	44	2	NDST4	4	115749013	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	1469193	115749013	75405263	144	52647										
CCNA2	890	broad.mit.edu	37	chr4	122744726	122744726	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gagcgccgtctgctgcaatgCtagcagcgccgagcccgcct	13	16	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:122744726C>G	uc003iec.3	-	1	363	c.58G>C	c.(58-60)GCA>CCA	p.A20P		NM_001237	NP_001228	P20248	CCNA2_HUMAN	cyclin A	20					cell division|mitosis|mitotic cell cycle G2/M transition DNA damage checkpoint|Ras protein signal transduction|regulation of cyclin-dependent protein kinase activity	cytoplasm|nucleoplasm	protein kinase binding			ovary(1)	1						TGCTGCAATGCTAGCAGCGCC	0.697													4	17	---	---	---	---	PASS	G	122744726	G	G	122744726	3	3	148	1	0	0	0	0	1	0	0	0	2910	797	28	4	1272	4	CCNA2	4	122744726	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	6995713	122744726	68409550	145	52648										
RXFP1	59350	broad.mit.edu	37	chr4	159573058	159573058	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gaaaatctatggacagcaaaGgtcagaaaacatatgctcca	8	8	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:159573058G>T	uc003ipz.2	+	18	2207	c.2125G>T	c.(2125-2127)GGT>TGT	p.G709C	RXFP1_uc011cja.1_Missense_Mutation_p.G604C|RXFP1_uc010iqo.2_Missense_Mutation_p.G661C|RXFP1_uc011cjb.1_Missense_Mutation_p.G607C|RXFP1_uc010iqk.2_Missense_Mutation_p.G577C|RXFP1_uc011cjc.1_Missense_Mutation_p.G628C|RXFP1_uc011cjd.1_Missense_Mutation_p.G628C|RXFP1_uc010iql.2_Missense_Mutation_p.G553C|RXFP1_uc011cje.1_Missense_Mutation_p.G736C|RXFP1_uc010iqm.2_Missense_Mutation_p.G676C|RXFP1_uc011cjf.1_Missense_Mutation_p.G578C|RXFP1_uc010iqn.2_Missense_Mutation_p.G654C	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	709	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		GGACAGCAAAGGTCAGAAAAC	0.418													22	138	---	---	---	---	PASS	T	159573058	T	T	159573058	3	4	148	1	0	0	0	0	1	0	0	0	13759	1000	35	3	2195	3	RXFP1	4	159573058	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	36828332	159573058	31581218	146	52649										
NAF1	92345	broad.mit.edu	37	chr4	164050062	164050062	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tagtcacctaatagtaaggtCcaaaatgagaattactatct	6	7	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:164050062C>T	uc003iqj.2	-	8	1666	c.1472G>A	c.(1471-1473)GGA>GAA	p.G491E	NAF1_uc010iqw.1_Intron	NM_138386	NP_612395	Q96HR8	NAF1_HUMAN	nuclear assembly factor 1 homolog isoform a	491					rRNA processing|snRNA pseudouridine synthesis	cytoplasm|nucleus|small nucleolar ribonucleoprotein complex	protein binding|snoRNA binding			ovary(2)	2	all_hematologic(180;0.166)	Prostate(90;0.109)				ATAGTAAGGTCCAAAATGAGA	0.254													8	45	---	---	---	---	PASS	T	164050062	T	T	164050062	3	4	148	1	0	0	0	0	1	0	0	0	10140	855	30	2	157	2	NAF1	4	164050062	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	4477004	164050062	27104214	147	52650										
KIAA1430	57587	broad.mit.edu	37	chr4	186085284	186085284	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agtccatcagttgttctgaaCgtttcataccaactgttggt	8	9	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:186085284C>A	uc003ixf.3	-	4	1517	c.1370G>T	c.(1369-1371)CGT>CTT	p.R457L		NM_020827	NP_065878	Q9P2B7	K1430_HUMAN	hypothetical protein LOC57587	457											0		all_lung(41;1.19e-13)|Lung NSC(41;3.16e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00872)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;9.44e-26)|Epithelial(43;2.64e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.66e-11)|Colorectal(24;6.03e-05)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000331)|COAD - Colon adenocarcinoma(29;0.000427)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00924)|READ - Rectum adenocarcinoma(43;0.165)		TTGTTCTGAACGTTTCATACC	0.403													24	74	---	---	---	---	PASS	A	186085284	A	A	186085284	3	1	148	1	0	0	0	0	1	0	0	0	8232	536	19	1	236	1	KIAA1430	4	186085284	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	22035222	186085284	5068992	148	52651										
ZFP42	132625	broad.mit.edu	37	chr4	188924142	188924142	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtgctatgagcctggccctCaggctctcggaggggatgat	15	10	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:188924142C>G	uc003izg.1	+	3	426	c.181C>G	c.(181-183)CAG>GAG	p.Q61E	ZFP42_uc003izh.1_Missense_Mutation_p.Q61E|ZFP42_uc003izi.1_Missense_Mutation_p.Q61E	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	61					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		GCCTGGCCCTCAGGCTCTCGG	0.522													3	127	---	---	---	---	PASS	G	188924142	G	G	188924142	3	3	148	1	0	0	0	0	1	0	0	0	17647	827	29	2	183	2	ZFP42	4	188924142	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	2838858	188924142	2230134	149	52652										
KIAA0947	23379	broad.mit.edu	37	chr5	5462573	5462573	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aatgattctaccagcacaccAcaaaatgctaatggactttg	6	10	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:5462573A>G	uc003jdm.3	+	13	3348	c.3126A>G	c.(3124-3126)CCA>CCG	p.P1042P		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1042										ovary(1)|central_nervous_system(1)	2						CCAGCACACCACAAAATGCTA	0.468													89	241	---	---	---	---	PASS	G	5462573	G	G	5462573	2	3	148	1	0	0	0	0	0	0	0	1	8202	146	6	5		5	KIAA0947	5	5462573	Silent	SNP	A	TCGA-66-2759-01A-01D-1522-08		5462573	175452687	150	52653										
FASTKD3	79072	broad.mit.edu	37	chr5	7868063	7868063	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gctcaggttgtcgtgaacacAaccaagggcacagacgctcc	11	13	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:7868063A>G	uc003jeb.2	-	2	271	c.134T>C	c.(133-135)TTG>TCG	p.L45S	FASTKD3_uc011cmp.1_Intron|FASTKD3_uc003jec.2_Intron|MTRR_uc010itn.1_5'Flank|MTRR_uc003jee.3_5'Flank|MTRR_uc003jed.2_5'Flank|MTRR_uc003jef.3_5'Flank|MTRR_uc003jeg.3_5'Flank|MTRR_uc010ito.2_5'Flank	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	45					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						TCGTGAACACAACCAAGGGCA	0.423													27	169	---	---	---	---	PASS	G	7868063	G	G	7868063	3	3	148	1	0	0	0	0	1	0	0	0	5687	131	5	5	1878	5	FASTKD3	5	7868063	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	2405490	7868063	173047197	151	52654										
MARCH6	10299	broad.mit.edu	37	chr5	10390501	10390501	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtggtgacgtgcacactgtgTgcattcatcagcctggtgtg	14	9	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:10390501T>C	uc003jet.1	+	6	648	c.465T>C	c.(463-465)TGT>TGC	p.C155C	MARCH6_uc011cmu.1_Silent_p.C107C|MARCH6_uc003jeu.1_5'UTR|MARCH6_uc011cmv.1_Silent_p.C50C	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	155	Helical; (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						GCACACTGTGTGCATTCATCA	0.458													35	336	---	---	---	---	PASS	C	10390501	C	C	10390501	2	2	148	1	0	0	0	0	0	0	0	1	9305	1702	59	5		5	MARCH6	5	10390501	Silent	SNP	T	TCGA-66-2759-01A-01D-1522-08	2522438	10390501	170524759	152	52655										
CDH10	1008	broad.mit.edu	37	chr5	24535829	24535829	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gacctgtttcaggctccacaGagaaatagggctgcccttga	11	11	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:24535829G>C	uc003jgr.1	-	4	961	c.629C>G	c.(628-630)TCT>TGT	p.S210C	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	210	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AGGCTCCACAGAGAAATAGGG	0.438										HNSCC(23;0.051)			15	132	---	---	---	---	PASS	C	24535829	C	C	24535829	3	2	148	1	0	0	0	0	1	0	0	0	3096	942	33	2	1773	2	CDH10	5	24535829	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	14145328	24535829	156379431	153	52656										
ZFR	51663	broad.mit.edu	37	chr5	32390503	32390503	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atcatcccaatgatgttgttCttcctccattctcctccagt	4	14	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:32390503C>G	uc003jhr.1	-	12	2100	c.2020G>C	c.(2020-2022)GAA>CAA	p.E674Q	ZFR_uc011cny.1_5'Flank	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	674					multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		TGATGTTGTTCTTCCTCCATT	0.478													50	157	---	---	---	---	PASS	G	32390503	G	G	32390503	3	3	148	1	0	0	0	0	1	0	0	0	17656	922	32	2	1240	2	ZFR	5	32390503	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	7854674	32390503	148524757	154	52657										
UGT3A1	133688	broad.mit.edu	37	chr5	35954348	35954348	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cccacgcagccacctggccaCcacacccagcagcttcccac	6	23	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:35954348C>T	uc003jjv.1	-	7	1685	c.1528G>A	c.(1528-1530)GTG>ATG	p.V510M	UGT3A1_uc003jjw.1_RNA	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	510	Cytoplasmic (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CACCTGGCCACCACACCCAGC	0.582													21	47	---	---	---	---	PASS	T	35954348	T	T	35954348	3	4	148	1	0	0	0	0	1	0	0	0	16960	507	18	3	47	3	UGT3A1	5	35954348	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3563845	35954348	144960912	155	52658										
LIFR	3977	broad.mit.edu	37	chr5	38496550	38496550	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cacagaatttttagccactaCgctgatgatgtagtcattct	7	9	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:38496550C>T	uc010ive.1	-	13	2151	c.1819G>A	c.(1819-1821)GTA>ATA	p.V607I	LIFR_uc003jli.2_Missense_Mutation_p.V607I	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	607	Extracellular (Potential).|Fibronectin type-III 4.				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					TTAGCCACTACGCTGATGATG	0.413			T	PLAG1	salivary adenoma								64	241	---	---	---	---	PASS	T	38496550	T	T	38496550	3	4	148	1	0	0	0	0	1	0	0	0	8780	536	19	1	1506	1	LIFR	5	38496550	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	2542202	38496550	142418710	156	52659										
C7	730	broad.mit.edu	37	chr5	40945391	40945391	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agaacacacatcatctagtcGgaagcgctccttttttagat	7	10	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:40945391G>T	uc003jmh.2	+	7	773	c.659G>T	c.(658-660)CGG>CTG	p.R220L	C7_uc011cpn.1_Intron	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	220	MACPF.		R -> Q (in C7D).		complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				TCATCTAGTCGGAAGCGCTCC	0.313													13	38	---	---	---	---	PASS	T	40945391	T	T	40945391	3	4	148	1	0	0	0	0	1	0	0	0	2375	1116	39	1	685	1	C7	5	40945391	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2448841	40945391	139969869	157	52660										
C6	729	broad.mit.edu	37	chr5	41153960	41153960	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gggtggtgtccaggaattccCctggcatgtgtaccttgatg	14	9	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:41153960C>G	uc003jmk.2	-	15	2452	c.2242G>C	c.(2242-2244)GGG>CGG	p.G748R	C6_uc003jml.1_Missense_Mutation_p.G748R	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	748	C5b-binding domain.|Sushi 2.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				CAGGAATTCCCCTGGCATGTG	0.468													43	134	---	---	---	---	PASS	G	41153960	G	G	41153960	3	3	148	1	0	0	0	0	1	0	0	0	2315	623	22	4	578	4	C6	5	41153960	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	208569	41153960	139761300	158	52661										
ITGA2	3673	broad.mit.edu	37	chr5	52340858	52340858	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aagcattccaaatgttactgAgatgaaaaccaacatgagcc	7	9	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:52340858A>T	uc003joy.2	+	4	466	c.323A>T	c.(322-324)GAG>GTG	p.E108V	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Missense_Mutation_p.E32V|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	108	Extracellular (Potential).|FG-GAP 2.				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				AATGTTACTGAGATGAAAACC	0.348													25	72	---	---	---	---	PASS	T	52340858	T	T	52340858	3	4	148	1	0	0	0	0	1	0	0	0	7875	304	11	5	337	5	ITGA2	5	52340858	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	11186898	52340858	128574402	159	52662										
GPR98	84059	broad.mit.edu	37	chr5	90055301	90055301	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agacgttcaatatttccttgAtcagtgttgctggaggtggc	12	7	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:90055301A>T	uc003kju.2	+	58	12112	c.12016A>T	c.(12016-12018)ATC>TTC	p.I4006F	GPR98_uc003kjt.2_Missense_Mutation_p.I1712F|GPR98_uc003kjv.2_Missense_Mutation_p.I1606F	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	4006	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TATTTCCTTGATCAGTGTTGC	0.328													4	19	---	---	---	---	PASS	T	90055301	T	T	90055301	3	4	148	1	0	0	0	0	1	0	0	0	6721	333	12	5	12246	5	GPR98	5	90055301	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	37714443	90055301	90859959	160	52663										
ADAMTS19	171019	broad.mit.edu	37	chr5	129019847	129019847	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggatcagaattatggtcttcActatgaatacactatcccat	6	9	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:129019847A>T	uc003kvb.1	+	18	2681	c.2681A>T	c.(2680-2682)CAC>CTC	p.H894L	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	894	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		TATGGTCTTCACTATGAATAC	0.438													24	140	---	---	---	---	PASS	T	129019847	T	T	129019847	3	4	148	1	0	0	0	0	1	0	0	0	264	159	6	5	2751	5	ADAMTS19	5	129019847	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	38964546	129019847	51895413	161	52664										
P4HA2	8974	broad.mit.edu	37	chr5	131531134	131531134	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccaaattgcagcccccagatCagggaagacggtggcaccac	11	14	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:131531134C>G	uc003kwh.2	-	13	1975	c.1411G>C	c.(1411-1413)GAT>CAT	p.D471H	P4HA2_uc003kwg.2_Missense_Mutation_p.D469H|P4HA2_uc003kwi.2_Missense_Mutation_p.D469H|P4HA2_uc003kwk.2_Missense_Mutation_p.D469H|P4HA2_uc003kwl.2_Missense_Mutation_p.D471H|P4HA2_uc003kwj.2_Missense_Mutation_p.D469H	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	471	Fe2OG dioxygenase.					endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	GCCCCCAGATCAGGGAAGACG	0.493													8	75	---	---	---	---	PASS	G	131531134	G	G	131531134	3	3	148	1	0	0	0	0	1	0	0	0	11357	826	29	2	208	2	P4HA2	5	131531134	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	2511287	131531134	49384126	162	52665										
SEPT8	23176	broad.mit.edu	37	chr5	132096546	132096546	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctgcgaggtggcgtgcaaggCctgcgactgcagggcctcca	16	13	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:132096546C>A	uc003kxr.2	-	9	1472	c.1234G>T	c.(1234-1236)GCC>TCC	p.A412S	SEPT8_uc003kxs.1_Missense_Mutation_p.A412S|SEPT8_uc003kxu.2_Missense_Mutation_p.A412S|SEPT8_uc011cxi.1_Missense_Mutation_p.A410S|SEPT8_uc003kxv.2_Missense_Mutation_p.A410S|SEPT8_uc003kxt.2_Missense_Mutation_p.A352S	NM_001098811	NP_001092281	Q92599	SEPT8_HUMAN	septin 8 isoform a	412	Potential.				cell cycle	septin complex	GTP binding|protein binding			ovary(2)	2		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GCGTGCAAGGCCTGCGACTGC	0.647													10	172	---	---	---	---	PASS	A	132096546	A	A	132096546	3	1	148	1	0	0	0	0	1	0	0	0	14070	739	26	3	280	3	SEPT8	5	132096546	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	565412	132096546	48818714	163	52666										
PCDHB8	56128	broad.mit.edu	37	chr5	140558302	140558302	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agatctggcactgctcaggtCtacattgaagttgtcgatgt	11	8	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:140558302C>A	uc011dai.1	+	1	873	c.687C>A	c.(685-687)GTC>GTA	p.V229V	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	229	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGCTCAGGTCTACATTGAAG	0.512													19	305	---	---	---	---	PASS	A	140558302	A	A	140558302	2	1	148	1	0	0	0	0	0	0	0	1	11548	900	32	2		2	PCDHB8	5	140558302	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	8461756	140558302	40356958	164	52667										
PCDHB12	56124	broad.mit.edu	37	chr5	140590088	140590088	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcgtgggcgccacagaccacGgctccccggctttgagcagc	14	16	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:140590088G>A	uc003liz.2	+	1	1798	c.1609G>A	c.(1609-1611)GGC>AGC	p.G537S	PCDHB12_uc011dak.1_Missense_Mutation_p.G200S	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	537	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACAGACCACGGCTCCCCGGC	0.677													22	60	---	---	---	---	PASS	A	140590088	A	A	140590088	3	1	148	1	0	0	0	0	1	0	0	0	11537	1116	39	1	1611	1	PCDHB12	5	140590088	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	31786	140590088	40325172	165	52668										
PCDHGA3	56112	broad.mit.edu	37	chr5	140724442	140724442	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgctcaagtgtcttatattcTagataaaatgcctgggaaaa	8	6	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:140724442T>C	uc003ljm.1	+	1	842	c.842T>C	c.(841-843)CTA>CCA	p.L281P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Missense_Mutation_p.L41P|PCDHGA3_uc011dap.1_Missense_Mutation_p.L281P	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	281	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTTATATTCTAGATAAAATG	0.448													4	53	---	---	---	---	PASS	C	140724442	C	C	140724442	3	2	148	1	0	0	0	0	1	0	0	0	11555	1522	53	5	844	5	PCDHGA3	5	140724442	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	134354	140724442	40190818	166	52669										
PCDHGA4	56111	broad.mit.edu	37	chr5	140734863	140734863	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atcagggccgaacagattctCtactcggtgtttgaggagca	12	9	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:140734863C>A	uc003ljq.1	+	1	96	c.96C>A	c.(94-96)CTC>CTA	p.L32L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Silent_p.L32L	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	32	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACAGATTCTCTACTCGGTGT	0.637													36	46	---	---	---	---	PASS	A	140734863	A	A	140734863	2	1	148	1	0	0	0	0	0	0	0	1	11556	900	32	2		2	PCDHGA4	5	140734863	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	10421	140734863	40180397	167	52670										
POU4F3	5459	broad.mit.edu	37	chr5	145719834	145719834	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agcgcaaacgcacgtccatcGcggcgccggagaagcgttca	13	14	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:145719834G>A	uc003loa.2	+	2	933	c.844G>A	c.(844-846)GCG>ACG	p.A282T		NM_002700	NP_002691	Q15319	PO4F3_HUMAN	POU class 4 homeobox 3	282	Homeobox.				sensory perception of sound|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CACGTCCATCGCGGCGCCGGA	0.592													9	41	---	---	---	---	PASS	A	145719834	A	A	145719834	3	1	148	1	0	0	0	0	1	0	0	0	12280	1087	38	1	850	1	POU4F3	5	145719834	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	4984971	145719834	35195426	168	52671										
FAT2	2196	broad.mit.edu	37	chr5	150925891	150925891	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttgatgttgaagaaaccttcGctgttccctgaaacagaaga	9	8	0	6	rs148379892		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:150925891G>A	uc003lue.3	-	9	4810	c.4797C>T	c.(4795-4797)AGC>AGT	p.S1599S	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1599	Extracellular (Potential).|Cadherin 14.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGAAACCTTCGCTGTTCCCTG	0.458													10	51	---	---	---	---	PASS	A	150925891	A	A	150925891	2	1	148	1	0	0	0	0	0	0	0	1	5690	1078	38	1		1	FAT2	5	150925891	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	5206057	150925891	29989369	169	52672										
FAT2	2196	broad.mit.edu	37	chr5	150929057	150929057	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cctcttgataggtatttcctGgtctcggacctatgggccca	10	12	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:150929057G>A	uc003lue.3	-	8	4601	c.4588C>T	c.(4588-4590)CAG>TAG	p.Q1530*	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1530	Extracellular (Potential).|Cadherin 13.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGTATTTCCTGGTCTCGGACC	0.498													18	36	---	---	---	---	PASS	A	150929057	A	A	150929057	4	1	148	1	0	0	0	0	0	1	0	0	5690	1357	47	3	8525	3	FAT2	5	150929057	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	3166	150929057	29986203	170	52673										
EBF1	1879	broad.mit.edu	37	chr5	158141174	158141174	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cttctaccagatccgcagccCttttgagtattacttcctgt	6	13	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:158141174C>A	uc010jip.2	-	12	1444	c.1142G>T	c.(1141-1143)AGG>ATG	p.R381M	EBF1_uc011ddw.1_Missense_Mutation_p.R249M|EBF1_uc011ddx.1_Missense_Mutation_p.R382M|EBF1_uc003lxl.3_Missense_Mutation_p.R350M	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	381					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATCCGCAGCCCTTTTGAGTAT	0.473			T	HMGA2	lipoma								23	209	---	---	---	---	PASS	A	158141174	A	A	158141174	3	1	148	1	0	0	0	0	1	0	0	0	4880	681	24	3	653	3	EBF1	5	158141174	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	7212117	158141174	22774086	171	52674										
CCNJL	79616	broad.mit.edu	37	chr5	159680579	159680579	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gagggatgagcctgtactccCcgagagcaggctccctgaac	13	13	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:159680579C>G	uc003lyb.1	-	7	1366	c.1114G>C	c.(1114-1116)GGG>CGG	p.G372R	CCNJL_uc011dee.1_Missense_Mutation_p.G324R|CCNJL_uc003lyc.1_RNA	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	372						nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCTGTACTCCCCGAGAGCAGG	0.632													16	66	---	---	---	---	PASS	G	159680579	G	G	159680579	3	3	148	1	0	0	0	0	1	0	0	0	2929	623	22	4	197	4	CCNJL	5	159680579	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1539405	159680579	21234681	172	52675										
GABRB2	2561	broad.mit.edu	37	chr5	160837994	160837994	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gacttacagctctcaatttcCaaggtgcagttttgttcatc	7	10	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:160837994C>A	uc003lys.1	-	6	746	c.528G>T	c.(526-528)TTG>TTT	p.L176F	GABRB2_uc011deh.1_Missense_Mutation_p.L15F|GABRB2_uc003lyr.1_Missense_Mutation_p.L176F|GABRB2_uc003lyt.1_Missense_Mutation_p.L176F|GABRB2_uc010jiu.1_Missense_Mutation_p.L113F	NM_021911	NP_068711	P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	176	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|GABA-A receptor activity				0	Renal(175;0.00259)	Medulloblastoma(196;0.021)|all_neural(177;0.0463)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TCTCAATTTCCAAGGTGCAGT	0.478													10	110	---	---	---	---	PASS	A	160837994	A	A	160837994	3	1	148	1	0	0	0	0	1	0	0	0	6167	593	21	3	1034	3	GABRB2	5	160837994	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1157415	160837994	20077266	173	52676										
FLT4	2324	broad.mit.edu	37	chr5	180043372	180043372	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atggcctgcactcacactgcCcttgcggacgtagtcggggt	13	13	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:180043372C>T	uc003mma.3	-	23	3293	c.3214G>A	c.(3214-3216)GGC>AGC	p.G1072S	FLT4_uc003mlz.3_Missense_Mutation_p.G1072S	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	1072	Cytoplasmic (Potential).|Protein kinase.				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	CTCACACTGCCCTTGCGGACG	0.607									Congenital_Hereditary_Lymphedema				21	43	---	---	---	---	PASS	T	180043372	T	T	180043372	3	4	148	1	0	0	0	0	1	0	0	0	5944	623	22	3	917	3	FLT4	5	180043372	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	19205378	180043372	871888	174	52677										
FLT4	2324	broad.mit.edu	37	chr5	180056733	180056733	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cccagtcaaaggtgacacctGagttaaactcagcccacacg	8	14	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:180056733G>C	uc003mma.3	-	6	858	c.779C>G	c.(778-780)TCA>TGA	p.S260*	FLT4_uc003mlz.3_Nonsense_Mutation_p.S260*|FLT4_uc003mmb.1_5'Flank|FLT4_uc011dgy.1_Nonsense_Mutation_p.S260*|FLT4_uc011dgz.1_Nonsense_Mutation_p.S260*|FLT4_uc011dha.1_3'UTR	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	260	Ig-like C2-type 3.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	GGTGACACCTGAGTTAAACTC	0.587									Congenital_Hereditary_Lymphedema				5	18	---	---	---	---	PASS	C	180056733	C	C	180056733	4	2	148	1	0	0	0	0	0	1	0	0	5944	1294	45	2	3420	2	FLT4	5	180056733	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	13361	180056733	858527	175	52678										
BTNL9	153579	broad.mit.edu	37	chr5	180474980	180474980	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tggccctcgtcggggaggagGtggagttcccgtgccaccta	16	12	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:180474980G>A	uc003mmt.2	+	3	394	c.163G>A	c.(163-165)GTG>ATG	p.V55M	BTNL9_uc011dhi.1_Translation_Start_Site	NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	55	Extracellular (Potential).|Ig-like V-type.					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CGGGGAGGAGGTGGAGTTCCC	0.557													20	37	---	---	---	---	PASS	A	180474980	A	A	180474980	3	1	148	1	0	0	0	0	1	0	0	0	1568	1261	44	3	169	3	BTNL9	5	180474980	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	418247	180474980	440280	176	52679										
HUS1B	135458	broad.mit.edu	37	chr6	656563	656563	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cacgggcagatcgtgcaccaCgctgcgagcgcggcccaggg	16	15	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:656563C>A	uc003mtg.2	-	1	402	c.382G>T	c.(382-384)GTG>TTG	p.V128L	EXOC2_uc003mtd.2_Intron|EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_148959	NP_683762	Q8NHY5	HUS1B_HUMAN	HUS1 checkpoint protein B	128											0	Ovarian(93;0.0733)	Breast(5;0.00139)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.041)|BRCA - Breast invasive adenocarcinoma(62;0.0965)		TCGTGCACCACGCTGCGAGCG	0.741													6	30	---	---	---	---	PASS	A	656563	A	A	656563	3	1	148	1	0	0	0	0	1	0	0	0	7460	536	19	1	458	1	HUS1B	6	656563	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08		656563	170458504	177	52680										
PECI	10455	broad.mit.edu	37	chr6	4131009	4131009	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tagtaaactcaccttgggcaGgctgccaagggcattccatg	11	11	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:4131009G>A	uc003mwf.2	-	3	341	c.304C>T	c.(304-306)CTG>TTG	p.L102L	PECI_uc003mwc.2_5'UTR|PECI_uc003mwd.2_Silent_p.L72L|PECI_uc003mwe.2_5'UTR|PECI_uc010jnr.1_RNA	NM_206836	NP_996667	O75521	ECI2_HUMAN	peroxisomal D3,D2-enoyl-CoA isomerase isoform 2	102	ACB.				fatty acid metabolic process	mitochondrion|peroxisomal matrix	dodecenoyl-CoA delta-isomerase activity|fatty-acyl-CoA binding				0	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				ACCTTGGGCAGGCTGCCAAGG	0.438													30	173	---	---	---	---	PASS	A	4131009	A	A	4131009	2	1	148	1	0	0	0	0	0	0	0	1	11716	991	35	3		3	PECI	6	4131009	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	3474446	4131009	166984058	178	52681										
GMPR	2766	broad.mit.edu	37	chr6	16290709	16290709	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttaggagctggagcagatttTgtcatgctgggaggaatgtt	15	4	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:16290709T>C	uc003nbs.2	+	8	828	c.714T>C	c.(712-714)TTT>TTC	p.F238F		NM_006877	NP_006868	P36959	GMPR1_HUMAN	guanosine monophosphate reductase	238					nucleotide metabolic process|purine base metabolic process|purine-containing compound salvage|response to cold	cytosol	GMP reductase activity|metal ion binding			ovary(1)	1	Breast(50;0.0427)|Ovarian(93;0.103)	all_hematologic(90;0.0895)				GAGCAGATTTTGTCATGCTGG	0.512													231	322	---	---	---	---	PASS	C	16290709	C	C	16290709	2	2	148	1	0	0	0	0	0	0	0	1	6496	1809	63	5		5	GMPR	6	16290709	Silent	SNP	T	TCGA-66-2759-01A-01D-1522-08	12159700	16290709	154824358	179	52682										
HIST1H2AM	8336	broad.mit.edu	37	chr6	27860915	27860915	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agccttgccgccctgcttgcCacgtccagacatggtaaaac	9	15	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:27860915C>T	uc003nkb.1	-	1	49	c.13G>A	c.(13-15)GGC>AGC	p.G5S	HIST1H3J_uc003nka.2_5'Flank|HIST1H2BO_uc003nkc.1_5'Flank	NM_003514	NP_003505	P0C0S8	H2A1_HUMAN	histone cluster 1, H2am	5					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding			ovary(2)	2						CCCTGCTTGCCACGTCCAGAC	0.577													22	43	---	---	---	---	PASS	T	27860915	T	T	27860915	3	4	148	1	0	0	0	0	1	0	0	0	7139	594	21	3	383	3	HIST1H2AM	6	27860915	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	11570206	27860915	143254152	180	52683										
HIST1H2BO	8348	broad.mit.edu	37	chr6	27861469	27861469	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tctttgagcgcatcgctggcGaggcttcccgcctggcgcat	13	14	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:27861469G>A	uc003nkc.1	+	1	267	c.229G>A	c.(229-231)GAG>AAG	p.E77K	HIST1H3J_uc003nka.2_5'Flank|HIST1H2AM_uc003nkb.1_5'Flank	NM_003527	NP_003518	P23527	H2B1O_HUMAN	histone cluster 1, H2bo	77					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CATCGCTGGCGAGGCTTCCCG	0.617													63	102	---	---	---	---	PASS	A	27861469	A	A	27861469	3	1	148	1	0	0	0	0	1	0	0	0	7154	1059	37	2	231	2	HIST1H2BO	6	27861469	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	554	27861469	143253598	181	52684										
ZKSCAN4	387032	broad.mit.edu	37	chr6	28213023	28213023	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtgtggattttctgatgttcAataagacttctattccgtgt	9	6	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:28213023A>G	uc003nks.1	-	5	1753	c.1509T>C	c.(1507-1509)ATT>ATC	p.I503I	ZKSCAN4_uc011dlb.1_Silent_p.I348I	NM_019110	NP_061983	Q969J2	ZKSC4_HUMAN	zinc finger with KRAB and SCAN domains 4	503	C2H2-type 6.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						TCTGATGTTCAATAAGACTTC	0.433													78	110	---	---	---	---	PASS	G	28213023	G	G	28213023	2	3	148	1	0	0	0	0	0	0	0	1	17686	126	5	5		5	ZKSCAN4	6	28213023	Silent	SNP	A	TCGA-66-2759-01A-01D-1522-08	351554	28213023	142902044	182	52685										
C6orf134	79969	broad.mit.edu	37	chr6	30610730	30610730	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tctgccccccacaccctaccGcccgccttctgttggctgct	7	21	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:30610730G>A	uc003nqu.2	+	10	960	c.910G>A	c.(910-912)GCC>ACC	p.A304T	C6orf134_uc003nqr.3_Missense_Mutation_p.A304T|C6orf134_uc003rdc.2_Missense_Mutation_p.A304T|C6orf134_uc003nqs.3_Missense_Mutation_p.A281T|C6orf134_uc003rdd.2_Missense_Mutation_p.A281T|C6orf134_uc003nqt.2_Intron|C6orf134_uc011dmm.1_Missense_Mutation_p.A269T|C6orf134_uc003nqv.2_Missense_Mutation_p.A292T	NM_024909	NP_079185	Q5SQI0	ATAT_HUMAN	hypothetical protein LOC79969 isoform 2	304							tubulin N-acetyltransferase activity				0						ACACCCTACCGCCCGCCTTCT	0.622													29	208	---	---	---	---	PASS	A	30610730	A	A	30610730	3	1	148	1	0	0	0	0	1	0	0	0	2330	1087	38	1	948	1	C6orf134	6	30610730	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2397707	30610730	140504337	183	52686										
TNXB	7148	broad.mit.edu	37	chr6	32023670	32023670	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cgggcccacacgccgcccctCgtggaggccgtacaggtgca	14	17	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:32023670C>A	uc003nzl.2	-	24	8627	c.8425G>T	c.(8425-8427)GAG>TAG	p.E2809*		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2867	Fibronectin type-III 20.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CGCCGCCCCTCGTGGAGGCCG	0.637													12	49	---	---	---	---	PASS	A	32023670	A	A	32023670	4	1	148	1	0	0	0	0	0	1	0	0	16343	893	31	2	6372	2	TNXB	6	32023670	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1412940	32023670	139091397	184	52687										
ITPR3	3710	broad.mit.edu	37	chr6	33638469	33638469	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tatgattccaacctcaacgcGtcccgagatgacaagaagaa	8	11	1	5			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:33638469G>T	uc011drk.1	+	20	2682	c.2463G>T	c.(2461-2463)GCG>GCT	p.A821A		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	821	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						ACCTCAACGCGTCCCGAGATG	0.587													30	115	---	---	---	---	PASS	T	33638469	T	T	33638469	2	4	148	1	0	0	0	0	0	0	0	1	7922	1132	40	1		1	ITPR3	6	33638469	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	1614799	33638469	137476598	185	52688										
FANCE	2178	broad.mit.edu	37	chr6	35423605	35423605	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gccgttcggccatcgctgccGgaaagtgggctcctctctgt	13	14	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:35423605G>T	uc003oko.1	+	2	515	c.330G>T	c.(328-330)CCG>CCT	p.P110P	FANCE_uc010jvw.1_Silent_p.P110P	NM_021922	NP_068741	Q9HB96	FANCE_HUMAN	Fanconi anemia, complementation group E	110					DNA repair	nucleoplasm	protein binding			ovary(1)|lung(1)|skin(1)	3						CATCGCTGCCGGAAAGTGGGC	0.617			N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				19	63	---	---	---	---	PASS	T	35423605	T	T	35423605	2	4	148	1	0	0	0	0	0	0	0	1	5666	1103	39	1		1	FANCE	6	35423605	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	1785136	35423605	135691462	186	52689										
DNAH8	1769	broad.mit.edu	37	chr6	38838312	38838312	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tagagggtttgattaaccatCcaccctggaacctgaaactc	8	11	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:38838312C>T	uc003ooe.1	+	47	6913	c.6313C>T	c.(6313-6315)CCA>TCA	p.P2105S		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GATTAACCATCCACCCTGGAA	0.388													35	46	---	---	---	---	PASS	T	38838312	T	T	38838312	3	4	148	1	0	0	0	0	1	0	0	0	4607	855	30	2	6491	2	DNAH8	6	38838312	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3414707	38838312	132276755	187	52690										
DNAH8	1769	broad.mit.edu	37	chr6	38913256	38913256	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tccccagggggagcagctctGgacctgaaagcctgtcctcc	12	15	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:38913256G>A	uc003ooe.1	+	78	11970	c.11370G>A	c.(11368-11370)CTG>CTA	p.L3790L	DNAH8_uc003oog.1_Silent_p.L239L|uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GAGCAGCTCTGGACCTGAAAG	0.448													52	105	---	---	---	---	PASS	A	38913256	A	A	38913256	2	1	148	1	0	0	0	0	0	0	0	1	4607	1335	47	3		3	DNAH8	6	38913256	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	74944	38913256	132201811	188	52691										
KCNK16	83795	broad.mit.edu	37	chr6	39290233	39290233	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agcagctggaagatagtggcAccgagcagcaggtagcagac	15	9	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:39290233A>G	uc003ooq.2	-	1	98	c.84T>C	c.(82-84)GGT>GGC	p.G28G	KCNK16_uc003oor.3_Silent_p.G28G|KCNK16_uc010jwy.2_Silent_p.G28G|KCNK16_uc011dtz.1_Silent_p.G28G	NM_032115	NP_115491	Q96T55	KCNKG_HUMAN	potassium channel, subfamily K, member 16	28	Helical; (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(1)	3						AGATAGTGGCACCGAGCAGCA	0.637													6	23	---	---	---	---	PASS	G	39290233	G	G	39290233	2	3	148	1	0	0	0	0	0	0	0	1	8063	146	6	5		5	KCNK16	6	39290233	Silent	SNP	A	TCGA-66-2759-01A-01D-1522-08	376977	39290233	131824834	189	52692										
TDRD6	221400	broad.mit.edu	37	chr6	46659204	46659204	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ataccagaagaagtggtggtGtggtttcaggagactatttt	13	4	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:46659204G>T	uc003oyj.2	+	1	3339	c.3339G>T	c.(3337-3339)GTG>GTT	p.V1113V	TDRD6_uc010jze.2_Silent_p.V1107V	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1113					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			AAGTGGTGGTGTGGTTTCAGG	0.368													97	143	---	---	---	---	PASS	T	46659204	T	T	46659204	2	4	148	1	0	0	0	0	0	0	0	1	15731	1364	48	3		3	TDRD6	6	46659204	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	7368971	46659204	124455863	190	52693										
FBXO9	26268	broad.mit.edu	37	chr6	52945894	52945894	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gagcagtcagattcacatatCaggtgtgaatacttgttttt	9	6	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:52945894C>T	uc003pbo.2	+	6	617	c.566C>T	c.(565-567)TCA>TTA	p.S189L	FBXO9_uc003pbk.2_Missense_Mutation_p.S145L|FBXO9_uc003pbl.2_Missense_Mutation_p.S179L|FBXO9_uc003pbm.2_Missense_Mutation_p.S69L|FBXO9_uc003pbn.2_Missense_Mutation_p.S69L	NM_012347	NP_036479	Q9UK97	FBX9_HUMAN	F-box only protein 9 isoform 1	189	F-box.					ubiquitin ligase complex	ubiquitin-protein ligase activity			pancreas(1)	1	Lung NSC(77;0.103)					ATTCACATATCAGGTGTGAAT	0.388													53	80	---	---	---	---	PASS	T	52945894	T	T	52945894	3	4	148	1	0	0	0	0	1	0	0	0	5762	838	29	2	591	2	FBXO9	6	52945894	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	6286690	52945894	118169173	191	52694										
GFRAL	389400	broad.mit.edu	37	chr6	55216280	55216280	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tctgatataccttgtcagcaGtccaaagaagctcttcacag	7	11	4	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:55216280G>T	uc003pcm.1	+	5	686	c.600G>T	c.(598-600)CAG>CAT	p.Q200H		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	200	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			CTTGTCAGCAGTCCAAAGAAG	0.438													42	199	---	---	---	---	PASS	T	55216280	T	T	55216280	3	4	148	1	0	0	0	0	1	0	0	0	6351	1020	36	3	618	3	GFRAL	6	55216280	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2270386	55216280	115898787	192	52695										
PRIM2	5558	broad.mit.edu	37	chr6	57472429	57472429	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcatacaagatctctcctggAgggataagccaggtaggtca	11	9	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:57472429A>G	uc003pdx.2	+	13	1305	c.1218A>G	c.(1216-1218)GGA>GGG	p.G406G		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	406					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		TCTCTCCTGGAGGGATAAGCC	0.448													7	52	---	---	---	---	PASS	G	57472429	G	G	57472429	2	3	148	1	0	0	0	0	0	0	0	1	12491	291	11	5		5	PRIM2	6	57472429	Silent	SNP	A	TCGA-66-2759-01A-01D-1522-08	2256149	57472429	113642638	193	52696										
OOEP	441161	broad.mit.edu	37	chr6	74104640	74104640	+	Translation_Start_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cttggaacaatgtcccaccaCggaggagctcccaaggcctc	10	15	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:74104640C>T	uc003pgv.3	-	1	177	c.-316G>A	c.(-318--314)CCGTG>CCATG		DDX43_uc011dyn.1_RNA|DDX43_uc003pgw.2_Silent_p.H4H	NM_001080507	NP_001073976	A6NGQ2	OOEP_HUMAN	oocyte expressed protein homolog							cytoplasm					0						TGTCCCACCACGGAGGAGCTC	0.632													21	98	---	---	---	---	PASS	T	74104640	T	T	74104640	1	4	148	1	0	0	0	0	0	0	0	0	10870	535	19	1		1	OOEP	6	74104640	Translation_Start_Site	SNP	C	TCGA-66-2759-01A-01D-1522-08	16632211	74104640	97010427	194	52697										
SENP6	26054	broad.mit.edu	37	chr6	76388391	76388391	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggagaaaaccacaccatcttCattggcccagtagaaaagtg	9	10	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:76388391C>T	uc003pid.3	+	15	2560	c.1941C>T	c.(1939-1941)TTC>TTT	p.F647F	SENP6_uc003pie.3_Silent_p.F640F|SENP6_uc010kbf.2_RNA|SENP6_uc003pic.2_Silent_p.F640F|SENP6_uc003pif.1_Silent_p.F538F	NM_015571	NP_056386	Q9GZR1	SENP6_HUMAN	SUMO1/sentrin specific peptidase 6 isoform 1	647					proteolysis	cytoplasm|nucleus	cysteine-type peptidase activity			breast(2)|urinary_tract(1)|ovary(1)|lung(1)|skin(1)	6		all_hematologic(105;0.189)				ACACCATCTTCATTGGCCCAG	0.299													167	111	---	---	---	---	PASS	T	76388391	T	T	76388391	2	4	148	1	0	0	0	0	0	0	0	1	14050	825	29	2		2	SENP6	6	76388391	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	2283751	76388391	94726676	195	52698										
SIM1	6492	broad.mit.edu	37	chr6	100838798	100838798	+	Missense_Mutation	SNP	G	T	T													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gctttccttagctgtaatctGttctcttcttctttaatcat							TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:100838798G>T	uc003pqj.3	-	11	1947	c.1740C>A	c.(1738-1740)AAC>AAA	p.N580K	SIM1_uc010kcu.2_Missense_Mutation_p.N580K	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	580	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		GCTGTAATCTGTTCTCTTCTT	0.448													100	87	---	---	---	---	PASS	T	100838798	T	T	100838798	3	4	148	1	0	0	0	0	1	0	0	0	14323	1368	48	3	564	3	SIM1	6	100838798	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	24450407	100838798	70276269	196	52699	964	2								
SIM1	6492	broad.mit.edu	37	chr6	100838801	100838801	+	Silent	SNP	C	T	T													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttccttagctgtaatctgttCtcttcttctttaatcatttg							TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:100838801C>T	uc003pqj.3	-	11	1944	c.1737G>A	c.(1735-1737)GAG>GAA	p.E579E	SIM1_uc010kcu.2_Silent_p.E579E	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	579	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity	p.E579D(1)		ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		GTAATCTGTTCTCTTCTTCTT	0.448													30	161	---	---	---	---	PASS	T	100838801	T	T	100838801	2	4	148	1	0	0	0	0	0	0	0	1	14323	912	32	2		2	SIM1	6	100838801	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	3	100838801	70276266	197	52700	964	2								
GRIK2	2898	broad.mit.edu	37	chr6	102337543	102337543	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccttgcagttgctccactggCtattacctatgttcgagaga	9	11	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:102337543C>T	uc003pqp.3	+	11	1802	c.1553C>T	c.(1552-1554)GCT>GTT	p.A518V	GRIK2_uc003pqn.2_Missense_Mutation_p.A518V|GRIK2_uc003pqo.3_Missense_Mutation_p.A518V|GRIK2_uc010kcw.2_Missense_Mutation_p.A518V	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	518	Glutamate binding (By similarity).|Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	GCTCCACTGGCTATTACCTAT	0.353													39	175	---	---	---	---	PASS	T	102337543	T	T	102337543	3	4	148	1	0	0	0	0	1	0	0	0	6774	797	28	3	1595	3	GRIK2	6	102337543	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1498742	102337543	68777524	198	52701										
SESN1	27244	broad.mit.edu	37	chr6	109321750	109321750	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggctaacactttgttaagttCtcctaaattctgtagttttt	6	7	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:109321750C>T	uc003pst.3	-	4	588	c.496G>A	c.(496-498)GAA>AAA	p.E166K	SESN1_uc003psu.2_Missense_Mutation_p.E225K	NM_014454	NP_055269	Q9Y6P5	SESN1_HUMAN	sestrin 1	166					cell cycle arrest|negative regulation of cell proliferation|response to DNA damage stimulus	nucleus				ovary(1)	1		all_cancers(87;6.45e-05)|Acute lymphoblastic leukemia(125;3.55e-10)|all_hematologic(75;1.68e-07)|all_epithelial(87;0.0106)|Colorectal(196;0.0637)		Epithelial(106;0.0014)|BRCA - Breast invasive adenocarcinoma(108;0.00146)|all cancers(137;0.0031)|OV - Ovarian serous cystadenocarcinoma(136;0.0117)		TTGTTAAGTTCTCCTAAATTC	0.403													34	287	---	---	---	---	PASS	T	109321750	T	T	109321750	3	4	148	1	0	0	0	0	1	0	0	0	14124	922	32	2	1010	2	SESN1	6	109321750	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	6984207	109321750	61793317	199	52702										
PPIL6	285755	broad.mit.edu	37	chr6	109757363	109757363	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttcttgaagaggaactaataTaggatcttcaaatttggatg	9	4	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:109757363T>C	uc003ptg.3	-	2	229	c.175A>G	c.(175-177)ATA>GTA	p.I59V	PPIL6_uc010kdo.2_Intron|PPIL6_uc010kdp.2_Missense_Mutation_p.I59V	NM_173672	NP_775943	Q8IXY8	PPIL6_HUMAN	peptidylprolyl isomerase-like 6 isoform 1	59					protein folding		peptidyl-prolyl cis-trans isomerase activity				0		all_cancers(87;1.1e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000144)|all_lung(197;0.0221)|Colorectal(196;0.0488)|Lung SC(18;0.0548)		Epithelial(106;0.00684)|BRCA - Breast invasive adenocarcinoma(108;0.00889)|all cancers(137;0.0106)|OV - Ovarian serous cystadenocarcinoma(136;0.0259)		GGAACTAATATAGGATCTTCA	0.328													411	122	---	---	---	---	PASS	C	109757363	C	C	109757363	3	2	148	1	0	0	0	0	1	0	0	0	12331	1406	49	5	870	5	PPIL6	6	109757363	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	435613	109757363	61357704	200	52703										
RFX6	222546	broad.mit.edu	37	chr6	117248364	117248364	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atacccagagcccatttatcCcactctccctcaagccaatc	3	18	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:117248364C>T	uc003pxm.2	+	17	2123	c.2060C>T	c.(2059-2061)CCC>CTC	p.P687L		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	687					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						CCCATTTATCCCACTCTCCCT	0.522													30	245	---	---	---	---	PASS	T	117248364	T	T	117248364	3	4	148	1	0	0	0	0	1	0	0	0	13267	623	22	3	2126	3	RFX6	6	117248364	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	7491001	117248364	53866703	201	52704										
CENPW	387103	broad.mit.edu	37	chr6	126661455	126661455	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atagtctcccagaggaagcaGataaagcggaaggctccccg	12	11	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:126661455G>C	uc003qao.2	+	1	203	c.36G>C	c.(34-36)CAG>CAC	p.Q12H	CENPW_uc003qap.3_RNA	NM_001012507	NP_001012525	Q5EE01	CENPW_HUMAN	hypothetical protein LOC387103	12						chromosome, centromeric region|nucleus	DNA binding				0						AGAGGAAGCAGATAAAGCGGA	0.532													82	59	---	---	---	---	PASS	C	126661455	C	C	126661455	3	2	148	1	0	0	0	0	1	0	0	0	3244	933	33	2	38	2	CENPW	6	126661455	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	9413091	126661455	44453612	202	52705										
ENPP1	5167	broad.mit.edu	37	chr6	132198239	132198239	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atcccaaagaagtgcaccccCtggtacagtgccccttcaca	7	16	1	1	rs79079368	byFrequency	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:132198239C>A	uc011ecf.1	+	18	1851	c.1831C>A	c.(1831-1833)CTG>ATG	p.L611M	ENPP1_uc003qcy.2_Missense_Mutation_p.L241M	NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	611	Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	AGTGCACCCCCTGGTACAGTG	0.463													16	117	---	---	---	---	PASS	A	132198239	A	A	132198239	3	1	148	1	0	0	0	0	1	0	0	0	5129	680	24	3	1901	3	ENPP1	6	132198239	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	5536784	132198239	38916828	203	52706										
AHI1	54806	broad.mit.edu	37	chr6	135769594	135769594	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gttttgagttgatgtttgcaTttccattggctcccagaagc	10	8	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:135769594T>C	uc003qgi.2	-	12	1844	c.1460A>G	c.(1459-1461)AAT>AGT	p.N487S	AHI1_uc003qgg.2_5'UTR|AHI1_uc003qgh.2_Missense_Mutation_p.N487S|AHI1_uc003qgj.2_Missense_Mutation_p.N487S|AHI1_uc003qgk.3_RNA|AHI1_uc003qgl.3_Missense_Mutation_p.N487S	NM_001134831	NP_001128303	Q8N157	AHI1_HUMAN	Abelson helper integration site 1 isoform a	487						adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		GATGTTTGCATTTCCATTGGC	0.348													24	200	---	---	---	---	PASS	C	135769594	C	C	135769594	3	2	148	1	0	0	0	0	1	0	0	0	413	1493	52	5	2259	5	AHI1	6	135769594	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	3571355	135769594	35345473	204	52707										
MAP3K5	4217	broad.mit.edu	37	chr6	136934373	136934373	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttaatggaccccatttggaaCgaaggagagcagaaagactt	11	7	0	3	rs114243010	by1000genomes	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:136934373C>T	uc003qhc.2	-	17	2661	c.2300G>A	c.(2299-2301)CGT>CAT	p.R767H	MAP3K5_uc011edj.1_Missense_Mutation_p.R14H|MAP3K5_uc011edk.1_Missense_Mutation_p.R612H	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	767	Protein kinase.				activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		CCATTTGGAACGAAGGAGAGC	0.318													17	185	---	---	---	---	PASS	T	136934373	T	T	136934373	3	4	148	1	0	0	0	0	1	0	0	0	9253	536	19	1	1880	1	MAP3K5	6	136934373	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1164779	136934373	34180694	205	52708										
GPR126	57211	broad.mit.edu	37	chr6	142758629	142758631	+	In_Frame_Del	DEL	GCA	-	-													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aatgttcagaaacagtggcgGcagcatctctgctgtggtag					rs1262686	by1000genomes	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:142758629_142758631delGCA	uc010khc.2	+	23	3789_3791	c.3378_3380delGCA	c.(3376-3381)CGGCGG>CGG	p.1126_1127RR>R	GPR126_uc010khd.2_In_Frame_Del_p.1098_1099RR>R|GPR126_uc010khe.2_In_Frame_Del_p.1126_1127RR>R|GPR126_uc010khf.2_In_Frame_Del_p.1098_1099RR>R|GPR126_uc011edv.1_In_Frame_Del_p.Q187del	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	1126_1127	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		AACAGTGGCGGCAGCATCTCTGC	0.365													119	60	---	---	---	---		-	142758631	-	-	142758629	7	5	148	1	0	1	0	1	0	0	0	0	6640	1190	42	0	3468	0	GPR126	6	142758629	In_Frame_Del	DEL	GCA	TCGA-66-2759-01A-01D-1522-08	5824256	142758629	28356438	206	52709										
RPS6KA2	6196	broad.mit.edu	37	chr6	166923830	166923830	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtctctctccatcttcgatCtcactcggtcccgaactgca	6	16	4	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:166923830C>T	uc003qvb.1	-	4	533	c.314G>A	c.(313-315)AGA>AAA	p.R105K	RPS6KA2_uc011ego.1_Missense_Mutation_p.R16K|RPS6KA2_uc010kkl.1_Missense_Mutation_p.R16K|RPS6KA2_uc003qvc.1_Missense_Mutation_p.R113K|RPS6KA2_uc003qvd.1_Missense_Mutation_p.R130K|MIR1913_hsa-mir-1913|MI0008334_5'Flank	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	105	Protein kinase 1.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		CATCTTCGATCTCACTCGGTC	0.398													4	123	---	---	---	---	PASS	T	166923830	T	T	166923830	3	4	148	1	0	0	0	0	1	0	0	0	13651	913	32	2	1959	2	RPS6KA2	6	166923830	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	24165201	166923830	4191237	207	52710										
TTYH3	80727	broad.mit.edu	37	chr7	2686580	2686580	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tctggctgtgctgccggcggCgcaagagcgaggagcacctg	17	12	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:2686580C>T	uc003smp.2	+	2	404	c.217C>T	c.(217-219)CGC>TGC	p.R73C	TTYH3_uc010ksn.2_5'Flank|TTYH3_uc003smq.2_5'Flank	NM_025250	NP_079526	Q9C0H2	TTYH3_HUMAN	tweety 3	73	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.04e-14)		CTGCCGGCGGCGCAAGAGCGA	0.617													4	17	---	---	---	---	PASS	T	2686580	T	T	2686580	3	4	148	1	0	0	0	0	1	0	0	0	16738	768	27	1	223	1	TTYH3	7	2686580	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08		2686580	156452083	208	52711										
SDK1	221935	broad.mit.edu	37	chr7	4116674	4116674	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acggcaggaacgactctcgtCtcacgcacaccctgaacagc	9	16	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:4116674C>T	uc003smx.2	+	21	3194	c.3055C>T	c.(3055-3057)CTC>TTC	p.L1019F	SDK1_uc010kso.2_Missense_Mutation_p.L295F	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1019	Fibronectin type-III 4.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CGACTCTCGTCTCACGCACAC	0.572													5	48	---	---	---	---	PASS	T	4116674	T	T	4116674	3	4	148	1	0	0	0	0	1	0	0	0	13968	913	32	2	3137	2	SDK1	7	4116674	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1430094	4116674	155021989	209	52712										
HDAC9	9734	broad.mit.edu	37	chr7	18684299	18684299	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctctttttttaacagcaaatGgtttcacagcaacgcattct	5	10	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:18684299G>A	uc003suh.2	+	8	950	c.909G>A	c.(907-909)ATG>ATA	p.M303I	HDAC9_uc003sue.2_Missense_Mutation_p.M303I|HDAC9_uc011jyd.1_Missense_Mutation_p.M303I|HDAC9_uc003sui.2_Missense_Mutation_p.M306I|HDAC9_uc003suj.2_Missense_Mutation_p.M262I|HDAC9_uc011jya.1_Missense_Mutation_p.M300I|HDAC9_uc003sua.1_Missense_Mutation_p.M281I|HDAC9_uc011jyb.1_Missense_Mutation_p.M259I|HDAC9_uc003sud.1_Missense_Mutation_p.M303I|HDAC9_uc011jyc.1_Missense_Mutation_p.M262I|HDAC9_uc003suf.1_Missense_Mutation_p.M334I|HDAC9_uc010kud.1_Missense_Mutation_p.M306I|HDAC9_uc011jye.1_Missense_Mutation_p.M275I|HDAC9_uc011jyf.1_Missense_Mutation_p.M226I|HDAC9_uc010kue.1_Missense_Mutation_p.M46I	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	303	Interaction with MAPK10 (By similarity).				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	AACAGCAAATGGTTTCACAGC	0.373													28	66	---	---	---	---	PASS	A	18684299	A	A	18684299	3	1	148	1	0	0	0	0	1	0	0	0	7014	1348	47	3	948	3	HDAC9	7	18684299	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	14567625	18684299	140454364	210	52713										
STK31	56164	broad.mit.edu	37	chr7	23757152	23757152	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tggttgctcactgtctgaagTttgcccccaggccagttcag	11	12	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:23757152T>A	uc003sws.3	+	4	270	c.203T>A	c.(202-204)GTT>GAT	p.V68D	STK31_uc003swt.3_Missense_Mutation_p.V45D|STK31_uc011jze.1_Missense_Mutation_p.V68D|STK31_uc010kuq.2_Missense_Mutation_p.V45D	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	68							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						CTGTCTGAAGTTTGCCCCCAG	0.353													24	41	---	---	---	---	PASS	A	23757152	A	A	23757152	3	1	148	1	0	0	0	0	1	0	0	0	15295	1725	60	5	217	5	STK31	7	23757152	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	5072853	23757152	135381511	211	52714										
TAX1BP1	8887	broad.mit.edu	37	chr7	27833973	27833973	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	taatgtcttcacaaagaaaaCggggaatcagcagaaagtga	10	6	3	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:27833973C>T	uc003szl.2	+	11	1600	c.1442C>T	c.(1441-1443)ACG>ATG	p.T481M	TAX1BP1_uc011jzo.1_Missense_Mutation_p.T481M|TAX1BP1_uc003szk.2_Missense_Mutation_p.T481M|TAX1BP1_uc011jzp.1_Missense_Mutation_p.T324M	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	481	Potential.				anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)			ACAAAGAAAACGGGGAATCAG	0.353													18	79	---	---	---	---	PASS	T	27833973	T	T	27833973	3	4	148	1	0	0	0	0	1	0	0	0	15591	536	19	1	1480	1	TAX1BP1	7	27833973	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	4076821	27833973	131304690	212	52715										
NOD1	10392	broad.mit.edu	37	chr7	30492316	30492316	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcactttccttgaagcagctGaacatgcggcagcgaaagtg	11	10	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:30492316G>A	uc003tav.2	-	6	1240	c.717C>T	c.(715-717)TTC>TTT	p.F239F	NOD1_uc010kvs.2_Intron	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	239	NACHT.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						TGAAGCAGCTGAACATGCGGC	0.597													46	103	---	---	---	---	PASS	A	30492316	A	A	30492316	2	1	148	1	0	0	0	0	0	0	0	1	10516	1281	45	2		2	NOD1	7	30492316	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	2658343	30492316	128646347	213	52716										
TXNDC3	51314	broad.mit.edu	37	chr7	37890021	37890021	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctgtgggatgagatgttgcaGaacaaaggcttaacaggtat	13	5	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:37890021G>T	uc003tfn.2	+	4	447	c.75G>T	c.(73-75)CAG>CAT	p.Q25H		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	25	Thioredoxin.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						AGATGTTGCAGAACAAAGGCT	0.502									Kartagener_syndrome				91	188	---	---	---	---	PASS	T	37890021	T	T	37890021	3	4	148	1	0	0	0	0	1	0	0	0	16795	933	33	2	81	2	TXNDC3	7	37890021	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	7397705	37890021	121248642	214	52717										
AMPH	273	broad.mit.edu	37	chr7	38431426	38431426	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtcagcagcccccatggctgGtgcagaaggcgtgggctgag	17	11	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:38431426G>T	uc003tgu.2	-	19	1870	c.1801C>A	c.(1801-1803)CCA>ACA	p.P601T	AMPH_uc003tgv.2_Missense_Mutation_p.P559T|AMPH_uc003tgt.2_Missense_Mutation_p.P486T|AMPH_uc003tgw.1_Missense_Mutation_p.P624T|AMPH_uc010kxl.1_RNA	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	601					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						CCCATGGCTGGTGCAGAAGGC	0.597													16	61	---	---	---	---	PASS	T	38431426	T	T	38431426	3	4	148	1	0	0	0	0	1	0	0	0	588	1261	44	3	298	3	AMPH	7	38431426	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	541405	38431426	120707237	215	52718										
HECW1	23072	broad.mit.edu	37	chr7	43351583	43351583	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agccgctccacgctcatggtCagcagctcctactattccat	7	16	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:43351583C>A	uc003tid.1	+	4	854	c.249C>A	c.(247-249)GTC>GTA	p.V83V	HECW1_uc011kbi.1_Silent_p.V83V|HECW1_uc003tie.1_Silent_p.V115V	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	83					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CGCTCATGGTCAGCAGCTCCT	0.612													25	63	---	---	---	---	PASS	A	43351583	A	A	43351583	2	1	148	1	0	0	0	0	0	0	0	1	7042	813	29	2		2	HECW1	7	43351583	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	4920157	43351583	115787080	216	52719										
URGCP	55665	broad.mit.edu	37	chr7	43918403	43918403	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atgtatggtagtggttctccGagtcaggcaacacgagtggg	15	7	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:43918403G>A	uc003tiw.2	-	6	716	c.659C>T	c.(658-660)TCG>TTG	p.S220L	URGCP_uc003tiu.2_Missense_Mutation_p.S177L|URGCP_uc003tiv.2_Missense_Mutation_p.S145L|URGCP_uc003tix.2_Missense_Mutation_p.S211L|URGCP_uc003tiy.2_Missense_Mutation_p.S177L|URGCP_uc003tiz.2_Missense_Mutation_p.S177L|URGCP_uc011kbj.1_Missense_Mutation_p.S177L	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	220					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						GTGGTTCTCCGAGTCAGGCAA	0.572													11	40	---	---	---	---	PASS	A	43918403	A	A	43918403	3	1	148	1	0	0	0	0	1	0	0	0	17023	1059	37	2	2140	2	URGCP	7	43918403	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	566820	43918403	115220260	217	52720										
C7orf57	136288	broad.mit.edu	37	chr7	48083169	48083169	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atccaccacagcaagccaccGacagccagccagcaagagta	8	16	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:48083169G>A	uc003toh.3	+	4	545	c.333G>A	c.(331-333)CCG>CCA	p.P111P	C7orf57_uc003toi.3_5'UTR	NM_001100159	NP_001093629	Q8NEG2	CG057_HUMAN	hypothetical protein LOC136288	111										ovary(1)	1						GCAAGCCACCGACAGCCAGCC	0.423													5	18	---	---	---	---	PASS	A	48083169	A	A	48083169	2	1	148	1	0	0	0	0	0	0	0	1	2404	1045	37	2		2	C7orf57	7	48083169	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	4164766	48083169	111055494	218	52721										
ASL	435	broad.mit.edu	37	chr7	65554683	65554683	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcgtcatctctacgctgcagGcaagacatcacccccctgct	8	17	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:65554683G>T	uc003tuo.2	+	14	1173	c.1062_splice	c.e14+1	p.Q354_splice	ASL_uc003tup.2_Splice_Site_p.Q354_splice|ASL_uc003tur.2_Splice_Site_p.Q328_splice|ASL_uc003tuq.2_Splice_Site_p.Q334_splice	NM_000048	NP_000039	P04424	ARLY_HUMAN	argininosuccinate lyase isoform 1						arginine biosynthetic process via ornithine|arginine catabolic process|urea cycle	cytosol	argininosuccinate lyase activity			breast(2)	2					L-Arginine(DB00125)	TACGCTGCAGGCAAGACATCA	0.632													6	27	---	---	---	---	PASS	T	65554683	T	T	65554683	5	4	148	1	0	0	0	0	0	0	1	0	1044	1217	42	3	1113	3	ASL	7	65554683	Splice_Site	SNP	G	TCGA-66-2759-01A-01D-1522-08	17471514	65554683	93583980	219	52722										
WBSCR17	64409	broad.mit.edu	37	chr7	71177092	71177092	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gacctcatcctccgcagctgCacaggtcagaggtggaccat	11	14	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:71177092C>A	uc003tvy.2	+	11	1758	c.1758C>A	c.(1756-1758)TGC>TGA	p.C586*	WBSCR17_uc003tvz.2_Nonsense_Mutation_p.C285*	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	586	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TCCGCAGCTGCACAGGTCAGA	0.632													29	122	---	---	---	---	PASS	A	71177092	A	A	71177092	4	1	148	1	0	0	0	0	0	1	0	0	17261	718	25	3	1800	3	WBSCR17	7	71177092	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	5622409	71177092	87961571	220	52723										
HGF	3082	broad.mit.edu	37	chr7	81350087	81350087	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aagtcttccatgttcttgtcCcacattgaacatgttagtcc	6	11	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:81350087C>T	uc003uhl.2	-	10	1410	c.1245G>A	c.(1243-1245)TGG>TGA	p.W415*	HGF_uc003uhm.2_Nonsense_Mutation_p.W410*	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	415	Kringle 4.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						TGTTCTTGTCCCACATTGAAC	0.333													27	65	---	---	---	---	PASS	T	81350087	T	T	81350087	4	4	148	1	0	0	0	0	0	1	0	0	7085	624	22	3	977	3	HGF	7	81350087	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	10172995	81350087	77788576	221	52724										
CROT	54677	broad.mit.edu	37	chr7	86998748	86998748	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtgtcgaggccgagcttttGtctttgatgtaatacatgaa	11	6	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:86998748G>T	uc003uit.2	+	7	849	c.604G>T	c.(604-606)GTC>TTC	p.V202F	CROT_uc003uiu.2_Missense_Mutation_p.V230F	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	202					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	CCGAGCTTTTGTCTTTGATGT	0.433													39	232	---	---	---	---	PASS	T	86998748	T	T	86998748	3	4	148	1	0	0	0	0	1	0	0	0	3894	1377	48	3	710	3	CROT	7	86998748	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	5648661	86998748	72139915	222	52725										
ABCB1	5243	broad.mit.edu	37	chr7	87170770	87170770	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttgtttcaggatcatcaattCttgtaaaaacctgtgagaaa	7	6	4	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:87170770C>A	uc003uiz.1	-	19	2640	c.2222G>T	c.(2221-2223)AGA>ATA	p.R741I	ABCB1_uc011khc.1_Missense_Mutation_p.R677I	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	741	ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	ATCATCAATTCTTGTAAAAAC	0.358													23	132	---	---	---	---	PASS	A	87170770	A	A	87170770	3	1	148	1	0	0	0	0	1	0	0	0	40	913	32	2	1664	2	ABCB1	7	87170770	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	172022	87170770	71967893	223	52726										
ADAM22	53616	broad.mit.edu	37	chr7	87737555	87737555	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgactcatttgttgcattgtCaacatgccacggacttcagt	8	10	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:87737555C>T	uc003ujn.2	+	5	534	c.455C>T	c.(454-456)TCA>TTA	p.S152L	ADAM22_uc003uji.1_Missense_Mutation_p.S151L|ADAM22_uc003ujj.1_Missense_Mutation_p.S152L|ADAM22_uc003ujk.1_Missense_Mutation_p.S152L|ADAM22_uc003ujl.1_Missense_Mutation_p.S152L|ADAM22_uc003ujm.2_Missense_Mutation_p.S152L|ADAM22_uc003ujo.2_Missense_Mutation_p.S152L|ADAM22_uc003ujp.1_Missense_Mutation_p.S204L	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	152					cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			GTTGCATTGTCAACATGCCAC	0.348													16	83	---	---	---	---	PASS	T	87737555	T	T	87737555	3	4	148	1	0	0	0	0	1	0	0	0	244	838	29	2	473	2	ADAM22	7	87737555	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	566785	87737555	71401108	224	52727										
ZNF804B	219578	broad.mit.edu	37	chr7	88963235	88963235	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cacgactctattgatgagacActagaagattcaattggcat	8	8	2	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:88963235A>C	uc011khi.1	+	4	1477	c.939A>C	c.(937-939)ACA>ACC	p.T313T		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	313						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TTGATGAGACACTAGAAGATT	0.343										HNSCC(36;0.09)			20	76	---	---	---	---	PASS	C	88963235	C	C	88963235	2	2	148	1	0	0	0	0	0	0	0	1	18168	146	6	5		5	ZNF804B	7	88963235	Silent	SNP	A	TCGA-66-2759-01A-01D-1522-08	1225680	88963235	70175428	225	52728										
CCDC132	55610	broad.mit.edu	37	chr7	92978023	92978023	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gggttatttattccctttagGgtattcttggctgaacagtt	10	6	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:92978023G>A	uc003umo.2	+	24	2336	c.2208G>A	c.(2206-2208)TTG>TTA	p.L736L	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Silent_p.L706L|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Silent_p.L456L	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	736											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			TTCCCTTTAGGGTATTCTTGG	0.393													23	127	---	---	---	---	PASS	A	92978023	A	A	92978023	2	1	148	1	0	0	0	0	0	0	0	1	2767	1246	43	3		3	CCDC132	7	92978023	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	4014788	92978023	66160640	226	52729										
CCDC132	55610	broad.mit.edu	37	chr7	92983001	92983001	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgaagtttctaagagagttcGcatacccttgcctgtgtcta	9	9	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:92983001G>T	uc003umo.2	+	26	2641	c.2513G>T	c.(2512-2514)CGC>CTC	p.R838L	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.R808L|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Missense_Mutation_p.R558L	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	838											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			AAGAGAGTTCGCATACCCTTG	0.348													45	193	---	---	---	---	PASS	T	92983001	T	T	92983001	3	4	148	1	0	0	0	0	1	0	0	0	2767	1087	38	1	2657	1	CCDC132	7	92983001	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	4978	92983001	66155662	227	52730										
CALCR	799	broad.mit.edu	37	chr7	93101770	93101770	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aggatgtttaaaccaaacacCtttttcatcacagtattttg	5	8	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:93101770C>A	uc003umv.1	-	6	661	c.400G>T	c.(400-402)GGT>TGT	p.G134C	CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.G116C|CALCR_uc003umw.2_Missense_Mutation_p.G116C	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	116	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	AACCAAACACCTTTTTCATCA	0.323													36	127	---	---	---	---	PASS	A	93101770	A	A	93101770	3	1	148	1	0	0	0	0	1	0	0	0	2579	681	24	3	1166	3	CALCR	7	93101770	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	118769	93101770	66036893	228	52731										
NRCAM	4897	broad.mit.edu	37	chr7	107824691	107824691	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcatcatagctcaccttccaCgtaatcaccaaattatcagg	5	13	4	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:107824691C>T	uc003vfb.2	-	22	2769	c.2298G>A	c.(2296-2298)ACG>ACA	p.T766T	NRCAM_uc003vfc.2_Silent_p.T750T|NRCAM_uc011kmk.1_Silent_p.T761T|NRCAM_uc003vfd.2_Silent_p.T742T|NRCAM_uc003vfe.2_Silent_p.T742T	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	766	Fibronectin type-III 2.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						TCACCTTCCACGTAATCACCA	0.378													23	116	---	---	---	---	PASS	T	107824691	T	T	107824691	2	4	148	1	0	0	0	0	0	0	0	1	10644	523	19	1		1	NRCAM	7	107824691	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	14722921	107824691	51313972	229	52732										
WNT2	7472	broad.mit.edu	37	chr7	116955210	116955210	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttgcatccacaaatgcgcggGcaaatttgatcccatagtca	8	11	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:116955210G>A	uc003viz.2	-	3	803	c.503C>T	c.(502-504)GCC>GTC	p.A168V	WNT2_uc003vja.2_Missense_Mutation_p.A72V	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	168					atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		AAATGCGCGGGCAAATTTGAT	0.433													43	139	---	---	---	---	PASS	A	116955210	A	A	116955210	3	1	148	1	0	0	0	0	1	0	0	0	17383	1203	42	3	591	3	WNT2	7	116955210	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	9130519	116955210	42183453	230	52733										
RNF148	378925	broad.mit.edu	37	chr7	122342406	122342406	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aatactttactgcccgtaccTtgatagttgtagatgatcac	7	9	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:122342406T>A	uc003vkk.1	-	1	616	c.399A>T	c.(397-399)CAA>CAT	p.Q133H	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron|RNF148_uc010lkr.1_Intron	NM_198085	NP_932351	Q8N7C7	RN148_HUMAN	ring finger protein 148 precursor	133	PA.					integral to membrane	zinc ion binding				0						TGCCCGTACCTTGATAGTTGT	0.473													217	351	---	---	---	---	PASS	A	122342406	A	A	122342406	3	1	148	1	0	0	0	0	1	0	0	0	13449	1606	56	5	522	5	RNF148	7	122342406	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	5387196	122342406	36796257	231	52734										
MKRN1	23608	broad.mit.edu	37	chr7	140159596	140159596	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cagttgcaaagtttgaatttCttgactcagcttcgcctgta	8	9	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:140159596C>T	uc003vvt.2	-	3	680	c.455G>A	c.(454-456)AGA>AAA	p.R152K	MKRN1_uc003vvs.2_Missense_Mutation_p.R88K|MKRN1_uc011krd.1_Intron|MKRN1_uc003vvv.3_Missense_Mutation_p.R152K|MKRN1_uc003vvu.3_Missense_Mutation_p.R88K	NM_013446	NP_038474	Q9UHC7	MKRN1_HUMAN	makorin ring finger protein 1 isoform 1	152							ligase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.00956)					GTTTGAATTTCTTGACTCAGC	0.453													41	140	---	---	---	---	PASS	T	140159596	T	T	140159596	3	4	148	1	0	0	0	0	1	0	0	0	9606	913	32	2	1021	2	MKRN1	7	140159596	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	17817190	140159596	18979067	232	52735										
CNTNAP2	26047	broad.mit.edu	37	chr7	147092721	147092721	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gttttctgaaccagatgaatAactcaagtcactctgtcctt	6	10	4	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:147092721A>T	uc003weu.1	+	10	2035	c.1519A>T	c.(1519-1521)AAC>TAC	p.N507Y		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	507	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CCAGATGAATAACTCAAGTCA	0.398										HNSCC(39;0.1)			110	211	---	---	---	---	PASS	T	147092721	T	T	147092721	3	4	148	1	0	0	0	0	1	0	0	0	3647	362	13	5	1557	5	CNTNAP2	7	147092721	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	6933125	147092721	12045942	233	52736										
GIMAP6	474344	broad.mit.edu	37	chr7	150327164	150327164	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acctcctgacagctccagcaCaggatcctgggacagctctt	9	15	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:150327164C>T	uc003whn.2	-	2	491	c.67G>A	c.(67-69)GTG>ATG	p.V23M	GIMAP6_uc003whm.2_Silent_p.L17L	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	23							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGCTCCAGCACAGGATCCTGG	0.453													11	359	---	---	---	---	PASS	T	150327164	T	T	150327164	3	4	148	1	0	0	0	0	1	0	0	0	6383	478	17	3	819	3	GIMAP6	7	150327164	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3234443	150327164	8811499	234	52737										
GPR124	25960	broad.mit.edu	37	chr8	37697643	37697643	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgccttgaccccgcaggtggGcatcaccctgcactactcct	9	17	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:37697643G>A	uc003xkj.2	+	17	2879	c.2516G>A	c.(2515-2517)GGC>GAC	p.G839D	GPR124_uc010lvy.2_Missense_Mutation_p.G622D	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	839	Helical; Name=3; (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			CCGCAGGTGGGCATCACCCTG	0.652													5	299	---	---	---	---	PASS	A	37697643	A	A	37697643	3	1	148	1	0	0	0	0	1	0	0	0	6638	1203	42	3	2561	3	GPR124	8	37697643	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08		37697643	108666379	235	52738										
WHSC1L1	54904	broad.mit.edu	37	chr8	38133958	38133958	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tggttctgttttgatctttcGtctcttctgttttaacttag	7	7	4	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:38133958G>A	uc003xli.2	-	23	4446	c.3928C>T	c.(3928-3930)CGA>TGA	p.R1310*	WHSC1L1_uc011lbm.1_Nonsense_Mutation_p.R1299*|WHSC1L1_uc010lwe.2_Nonsense_Mutation_p.R1261*|WHSC1L1_uc003xlh.2_Nonsense_Mutation_p.R89*	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1310					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			TTGATCTTTCGTCTCTTCTGT	0.403			T	NUP98	AML								20	312	---	---	---	---	PASS	A	38133958	A	A	38133958	4	1	148	1	0	0	0	0	0	1	0	0	17360	1153	40	1	393	1	WHSC1L1	8	38133958	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	436315	38133958	108230064	236	52739										
RP1	6101	broad.mit.edu	37	chr8	55539409	55539409	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggagataatctatgtaaagaGggagataagtcttttattgc	11	3	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:55539409G>T	uc003xsd.1	+	4	3115	c.2967G>T	c.(2965-2967)GAG>GAT	p.E989D	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	989					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TATGTAAAGAGGGAGATAAGT	0.368													51	232	---	---	---	---	PASS	T	55539409	T	T	55539409	3	4	148	1	0	0	0	0	1	0	0	0	13532	991	35	3	2977	3	RP1	8	55539409	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	17405451	55539409	90824613	237	52740										
ARMC1	55156	broad.mit.edu	37	chr8	66525598	66525598	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	attaaaactatcaccatctgCcatattggaggactgaagaa	7	8	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:66525598C>T	uc003xvl.2	-	4	581	c.346G>A	c.(346-348)GCA>ACA	p.A116T	ARMC1_uc011leo.1_Intron	NM_018120	NP_060590	Q9NVT9	ARMC1_HUMAN	armadillo repeat-containing protein	116					metal ion transport		metal ion binding			skin(1)	1			Epithelial(68;0.103)|OV - Ovarian serous cystadenocarcinoma(28;0.235)			TCACCATCTGCCATATTGGAG	0.363													65	131	---	---	---	---	PASS	T	66525598	T	T	66525598	3	4	148	1	0	0	0	0	1	0	0	0	949	739	26	3	518	3	ARMC1	8	66525598	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	10986189	66525598	79838424	238	52741										
C8orf84	157869	broad.mit.edu	37	chr8	73979670	73979670	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gacaccgaggattaccaattGcttgccaatggagagtctga	11	9	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:73979670G>A	uc003xzf.2	-	5	906	c.701C>T	c.(700-702)GCA>GTA	p.A234V		NM_153225	NP_694957	Q8IVN8	RPESP_HUMAN	RPE-spondin precursor	234					immune response	extracellular region	polysaccharide binding|scavenger receptor activity				0						ATTACCAATTGCTTGCCAATG	0.378													51	91	---	---	---	---	PASS	A	73979670	A	A	73979670	3	1	148	1	0	0	0	0	1	0	0	0	2440	1319	46	3	97	3	C8orf84	8	73979670	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	7454072	73979670	72384352	239	52742										
ZFHX4	79776	broad.mit.edu	37	chr8	77764043	77764043	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggctgcaaagctggagcccaGtggtcatgtggctggtgggc	18	9	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:77764043G>T	uc003yav.2	+	10	5138	c.4751G>T	c.(4750-4752)AGT>ATT	p.S1584I	ZFHX4_uc003yau.1_Missense_Mutation_p.S1629I|ZFHX4_uc003yaw.1_Missense_Mutation_p.S1584I	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1584						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTGGAGCCCAGTGGTCATGTG	0.507										HNSCC(33;0.089)			41	57	---	---	---	---	PASS	T	77764043	T	T	77764043	3	4	148	1	0	0	0	0	1	0	0	0	17632	1029	36	3	4920	3	ZFHX4	8	77764043	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	3784373	77764043	68599979	240	52743										
ZFHX4	79776	broad.mit.edu	37	chr8	77767662	77767662	+	Silent	SNP	G	T	T													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agttccggagatgtgaaaccGgctttgtctcccaaagagcc							TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:77767662G>T	uc003yav.2	+	10	8757	c.8370G>T	c.(8368-8370)CCG>CCT	p.P2790P	ZFHX4_uc003yau.1_Silent_p.P2835P|ZFHX4_uc003yaw.1_Silent_p.P2790P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2790						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATGTGAAACCGGCTTTGTCTC	0.488										HNSCC(33;0.089)			5	50	---	---	---	---	PASS	T	77767662	T	T	77767662	2	4	148	1	0	0	0	0	0	0	0	1	17632	1103	39	1		1	ZFHX4	8	77767662	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	3619	77767662	68596360	241	52744	965	2								
ZFHX4	79776	broad.mit.edu	37	chr8	77767663	77767663	+	Missense_Mutation	SNP	G	T	T													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gttccggagatgtgaaaccgGctttgtctcccaaagagcca							TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:77767663G>T	uc003yav.2	+	10	8758	c.8371G>T	c.(8371-8373)GCT>TCT	p.A2791S	ZFHX4_uc003yau.1_Missense_Mutation_p.A2836S|ZFHX4_uc003yaw.1_Missense_Mutation_p.A2791S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2791						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TGTGAAACCGGCTTTGTCTCC	0.493										HNSCC(33;0.089)			5	50	---	---	---	---	PASS	T	77767663	T	T	77767663	3	4	148	1	0	0	0	0	1	0	0	0	17632	1203	42	3	8540	3	ZFHX4	8	77767663	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	1	77767663	68596359	242	52745	965	2								
DECR1	1666	broad.mit.edu	37	chr8	91029541	91029541	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccagcctaggtgctcagtgcGtgatagccagccggtaagtc	13	12	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:91029541G>T	uc003yek.1	+	2	400	c.259G>T	c.(259-261)GTG>TTG	p.V87L	DECR1_uc011lgc.1_Missense_Mutation_p.V78L|DECR1_uc011lgd.1_Intron	NM_001359	NP_001350	Q16698	DECR_HUMAN	2,4-dienoyl CoA reductase 1 precursor	87	NADP.				fatty acid beta-oxidation|protein homotetramerization	mitochondrial matrix|nucleus|plasma membrane	2,4-dienoyl-CoA reductase (NADPH) activity|NADPH binding|oxidoreductase activity, acting on NADH or NADPH				0			BRCA - Breast invasive adenocarcinoma(11;0.00953)			TGCTCAGTGCGTGATAGCCAG	0.468													11	53	---	---	---	---	PASS	T	91029541	T	T	91029541	3	4	148	1	0	0	0	0	1	0	0	0	4382	1145	40	1	265	1	DECR1	8	91029541	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	13261878	91029541	55334481	243	52746										
CDH17	1015	broad.mit.edu	37	chr8	95186469	95186469	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcatccaggtctgtggcattGacatacaagaagggctttcc	10	10	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:95186469G>A	uc003ygh.2	-	6	569	c.444C>T	c.(442-444)GTC>GTT	p.V148V	CDH17_uc011lgo.1_Intron|CDH17_uc011lgp.1_Silent_p.V148V	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	148	Extracellular (Potential).|Cadherin 2.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			CTGTGGCATTGACATACAAGA	0.403													46	173	---	---	---	---	PASS	A	95186469	A	A	95186469	2	1	148	1	0	0	0	0	0	0	0	1	3102	1277	45	2		2	CDH17	8	95186469	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	4156928	95186469	51177553	244	52747										
UBR5	51366	broad.mit.edu	37	chr8	103298627	103298627	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggaaggggctgtactggctgCtcgctgatgctgggtgttgc	18	8	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:103298627C>A	uc003ykr.1	-	38	5209	c.5176G>T	c.(5176-5178)GCA>TCA	p.A1726S	UBR5_uc003yks.1_Missense_Mutation_p.A1726S	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1726					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			GTACTGGCTGCTCGCTGATGC	0.468													13	21	---	---	---	---	PASS	A	103298627	A	A	103298627	3	1	148	1	0	0	0	0	1	0	0	0	16902	797	28	3	3311	3	UBR5	8	103298627	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	8112158	103298627	43065395	245	52748										
RIMS2	9699	broad.mit.edu	37	chr8	104778588	104778588	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcgagggctaagaaatgaggAggcacctcaggagaagaaac	14	7	1	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:104778588A>C	uc003ylp.2	+	3	660	c.521A>C	c.(520-522)GAG>GCG	p.E174A		NM_001100117	NP_001093587	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	205					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGAAATGAGGAGGCACCTCAG	0.443										HNSCC(12;0.0054)			34	57	---	---	---	---	PASS	C	104778588	C	C	104778588	3	2	148	1	0	0	0	0	1	0	0	0	13368	304	11	5	531	5	RIMS2	8	104778588	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	1479961	104778588	41585434	246	52749										
PKHD1L1	93035	broad.mit.edu	37	chr8	110416808	110416808	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atattgaaatcttgctgcagGagtacagattaagtgcattt	9	5	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:110416808G>A	uc003yne.2	+	15	1503	c.1399G>A	c.(1399-1401)GAG>AAG	p.E467K		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	467	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CTTGCTGCAGGAGTACAGATT	0.308										HNSCC(38;0.096)			13	25	---	---	---	---	PASS	A	110416808	A	A	110416808	3	1	148	1	0	0	0	0	1	0	0	0	11972	1175	41	2	1457	2	PKHD1L1	8	110416808	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	5638220	110416808	35947214	247	52750										
CSMD3	114788	broad.mit.edu	37	chr8	113318350	113318350	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	attacaaaaataggtaactcGcgttcctaccaaatagtctg	6	9	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:113318350G>T	uc003ynu.2	-	51	8116	c.7957C>A	c.(7957-7959)CGA>AGA	p.R2653R	CSMD3_uc003yns.2_Silent_p.R1855R|CSMD3_uc003ynt.2_Silent_p.R2613R|CSMD3_uc011lhx.1_Silent_p.R2549R	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2653	Extracellular (Potential).|Sushi 15.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TAGGTAACTCGCGTTCCTACC	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			61	80	---	---	---	---	PASS	T	113318350	T	T	113318350	2	4	148	1	0	0	0	0	0	0	0	1	3946	1095	38	1		1	CSMD3	8	113318350	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	2901542	113318350	33045672	248	52751										
SAMD12	401474	broad.mit.edu	37	chr8	119391882	119391882	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agatgtgctgccggaggttcTcctgggcaatccccattcgc	12	13	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:119391882T>C	uc003yom.2	-	4	509	c.380A>G	c.(379-381)GAG>GGG	p.E127G	SAMD12_uc010mda.1_Missense_Mutation_p.E127G|SAMD12_uc010mdb.1_RNA	NM_207506	NP_997389	Q8N8I0	SAM12_HUMAN	sterile alpha motif domain containing 12 isoform	127	SAM.									ovary(1)	1	all_cancers(13;3.91e-25)|Lung NSC(37;1.13e-07)|Ovarian(258;0.0249)		STAD - Stomach adenocarcinoma(47;0.00391)			CCGGAGGTTCTCCTGGGCAAT	0.478													65	98	---	---	---	---	PASS	C	119391882	C	C	119391882	3	2	148	1	0	0	0	0	1	0	0	0	13817	1551	54	5	256	5	SAMD12	8	119391882	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	6073532	119391882	26972140	249	52752										
FER1L6	654463	broad.mit.edu	37	chr8	124978246	124978246	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tattaaactttcttttaataGatcaaaactgttgactaaga	4	5	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:124978246G>T	uc003yqw.2	+	4	404	c.198_splice	c.e4-1	p.R66_splice		NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6							integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TCTTTTAATAGATCAAAACTG	0.358													10	30	---	---	---	---	PASS	T	124978246	T	T	124978246	5	4	148	1	0	0	0	0	0	0	1	0	5815	956	33	2	207	2	FER1L6	8	124978246	Splice_Site	SNP	G	TCGA-66-2759-01A-01D-1522-08	5586364	124978246	21385776	250	52753										
KCNQ3	3786	broad.mit.edu	37	chr8	133141514	133141514	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agccagtgacctcttttaaaTgggcttattggaaggggtcc	12	8	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:133141514T>G	uc003ytj.2	-	15	2839	c.2614A>C	c.(2614-2616)ATT>CTT	p.I872L	KCNQ3_uc010mdt.2_Missense_Mutation_p.I860L|uc003yti.2_5'Flank	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	872					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			CTCTTTTAAATGGGCTTATTG	0.527													13	44	---	---	---	---	PASS	G	133141514	G	G	133141514	3	3	148	1	0	0	0	0	1	0	0	0	8084	1464	51	5	8	5	KCNQ3	8	133141514	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	8163268	133141514	13222508	251	52754										
KCNQ3	3786	broad.mit.edu	37	chr8	133146582	133146582	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgaatgctgaccctttctgaGacttcttgtgttttggcgtg	11	8	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:133146582G>A	uc003ytj.2	-	13	1979	c.1754C>T	c.(1753-1755)TCT>TTT	p.S585F	KCNQ3_uc010mdt.2_Missense_Mutation_p.S585F	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	585					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			CCCTTTCTGAGACTTCTTGTG	0.483													32	121	---	---	---	---	PASS	A	133146582	A	A	133146582	3	1	148	1	0	0	0	0	1	0	0	0	8084	942	33	2	876	2	KCNQ3	8	133146582	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	5068	133146582	13217440	252	52755										
PHF20L1	51105	broad.mit.edu	37	chr8	133855011	133855011	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	taaatctctcgcagaccctgGgagctcagatgatgatgatg	11	9	2	5			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:133855011G>C	uc003ytt.2	+	19	2964	c.2639G>C	c.(2638-2640)GGG>GCG	p.G880A	PHF20L1_uc011lja.1_Missense_Mutation_p.G854A	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	880							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			GCAGACCCTGGGAGCTCAGAT	0.393													30	109	---	---	---	---	PASS	C	133855011	C	C	133855011	3	2	148	1	0	0	0	0	1	0	0	0	11832	1232	43	4	2805	4	PHF20L1	8	133855011	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	708429	133855011	12509011	253	52756										
FREM1	158326	broad.mit.edu	37	chr9	14737563	14737563	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gttcaccaccgatccactccCagtggccagcatgcacttgg	9	16	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:14737563C>T	uc003zlm.2	-	37	6961	c.6371G>A	c.(6370-6372)TGG>TAG	p.W2124*	FREM1_uc010mic.2_RNA|FREM1_uc003zlk.2_RNA|FREM1_uc003zll.2_Nonsense_Mutation_p.W660*	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	2124	C-type lectin.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GATCCACTCCCAGTGGCCAGC	0.448													7	14	---	---	---	---	PASS	T	14737563	T	T	14737563	4	4	148	1	0	0	0	0	0	1	0	0	6044	595	21	3	172	3	FREM1	9	14737563	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08		14737563	126475868	254	52757										
UBE2R2	54926	broad.mit.edu	37	chr9	33900199	33900199	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atgtatgcatttcgattcttCatccgcctgtagatgaccca	7	11	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:33900199C>T	uc003ztm.2	+	3	866	c.292C>T	c.(292-294)CAT>TAT	p.H98Y		NM_017811	NP_060281	Q712K3	UB2R2_HUMAN	ubiquitin-conjugating enzyme UBC3B	98					protein K48-linked ubiquitination|protein monoubiquitination		ATP binding|ubiquitin-protein ligase activity				0			LUSC - Lung squamous cell carcinoma(29;0.0176)	GBM - Glioblastoma multiforme(74;0.188)		TTCGATTCTTCATCCGCCTGT	0.403													126	66	---	---	---	---	PASS	T	33900199	T	T	33900199	3	4	148	1	0	0	0	0	1	0	0	0	16868	826	29	2	302	2	UBE2R2	9	33900199	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	19162636	33900199	107313232	255	52758										
KLF9	687	broad.mit.edu	37	chr9	73028180	73028180	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctcaggtagtcgcagccgctCggcgtccggagcgaccccat	13	16	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:73028180C>G	uc004aht.2	-	1	1394	c.100G>C	c.(100-102)GAG>CAG	p.E34Q		NM_001206	NP_001197	Q13886	KLF9_HUMAN	Kruppel-like factor 9	34					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CGCAGCCGCTCGGCGTCCGGA	0.647													19	37	---	---	---	---	PASS	G	73028180	G	G	73028180	3	3	148	1	0	0	0	0	1	0	0	0	8353	893	31	2	642	2	KLF9	9	73028180	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	39127981	73028180	68185251	256	52759										
TMC1	117531	broad.mit.edu	37	chr9	75431061	75431061	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acattgtgtctcctctagccTtcatacaccgaattcgacat	5	13	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:75431061T>C	uc004aiz.1	+	19	2238	c.1698T>C	c.(1696-1698)CCT>CCC	p.P566P	TMC1_uc010moz.1_Silent_p.P524P|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Silent_p.P420P|TMC1_uc010mpa.1_Silent_p.P420P	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	566	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						TCCTCTAGCCTTCATACACCG	0.458													69	112	---	---	---	---	PASS	C	75431061	C	C	75431061	2	2	148	1	0	0	0	0	0	0	0	1	15981	1596	56	5		5	TMC1	9	75431061	Silent	SNP	T	TCGA-66-2759-01A-01D-1522-08	2402881	75431061	65782370	257	52760										
TRPM6	140803	broad.mit.edu	37	chr9	77377111	77377111	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agggagctgtcctgggcctgCttctggtgctgttcactccg	14	12	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:77377111C>G	uc004ajl.1	-	26	4714	c.4476G>C	c.(4474-4476)AAG>AAC	p.K1492N	TRPM6_uc004ajk.1_Missense_Mutation_p.K1487N|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajj.1_Missense_Mutation_p.K448N	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1492	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						CCTGGGCCTGCTTCTGGTGCT	0.498													66	119	---	---	---	---	PASS	G	77377111	G	G	77377111	3	3	148	1	0	0	0	0	1	0	0	0	16587	796	28	4	1648	4	TRPM6	9	77377111	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1946050	77377111	63836320	258	52761										
ZNF169	169841	broad.mit.edu	37	chr9	97054700	97054700	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttgagttctgctcagaggacCctgtacagggaggtgatgct	14	8	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:97054700C>G	uc004aum.1	+	3	216	c.111C>G	c.(109-111)ACC>ACG	p.T37T	ZNF169_uc004aun.2_Silent_p.T37T|ZNF169_uc004auo.2_Silent_p.T37T	NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	37	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				CTCAGAGGACCCTGTACAGGG	0.522													41	101	---	---	---	---	PASS	G	97054700	G	G	97054700	2	3	148	1	0	0	0	0	0	0	0	1	17739	610	22	4		4	ZNF169	9	97054700	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	19677589	97054700	44158731	259	52762										
ANP32B	10541	broad.mit.edu	37	chr9	100756944	100756944	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtcttggacaattgcaaatCaaatgatggaaaaattgagg	10	4	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:100756944C>G	uc004aya.2	+	2	435	c.86C>G	c.(85-87)TCA>TGA	p.S29*		NM_006401	NP_006392	Q92688	AN32B_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32	29	LRR 1.					cytoplasm|nucleus					0		Acute lymphoblastic leukemia(62;0.0559)				AATTGCAAATCAAATGATGGA	0.358													65	110	---	---	---	---	PASS	G	100756944	G	G	100756944	4	3	148	1	0	0	0	0	0	1	0	0	706	838	29	2	92	2	ANP32B	9	100756944	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3702244	100756944	40456487	260	52763										
ALDOB	229	broad.mit.edu	37	chr9	104193079	104193079	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tacagattcatctgcagccaGgatcccctttccattggcaa	7	13	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:104193079G>T	uc004bbk.2	-	2	173	c.91C>A	c.(91-93)CTG>ATG	p.L31M		NM_000035	NP_000026	P05062	ALDOB_HUMAN	aldolase B, fructose-bisphosphate	31					fructose 1,6-bisphosphate metabolic process|fructose catabolic process|gluconeogenesis|glycolysis|NADH oxidation|positive regulation of ATPase activity|vacuolar proton-transporting V-type ATPase complex assembly	centriolar satellite|cytosol	ATPase binding|cytoskeletal protein binding|fructose binding|fructose-bisphosphate aldolase activity|identical protein binding			skin(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TCTGCAGCCAGGATCCCCTTT	0.433													26	75	---	---	---	---	PASS	T	104193079	T	T	104193079	3	4	148	1	0	0	0	0	1	0	0	0	508	991	35	3	1035	3	ALDOB	9	104193079	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	3436135	104193079	37020352	261	52764										
ZNF462	58499	broad.mit.edu	37	chr9	109686536	109686536	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttcaatgcaagttctgtgtaCgctacttcaggtcaaaaaac	7	9	4	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:109686536C>A	uc004bcz.2	+	3	632	c.343C>A	c.(343-345)CGC>AGC	p.R115S	ZNF462_uc010mto.2_5'UTR|ZNF462_uc004bda.2_5'UTR	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	115	C2H2-type 2.				transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						GTTCTGTGTACGCTACTTCAG	0.473													44	103	---	---	---	---	PASS	A	109686536	A	A	109686536	3	1	148	1	0	0	0	0	1	0	0	0	17923	536	19	1	349	1	ZNF462	9	109686536	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	5493457	109686536	31526895	262	52765										
FKBP15	23307	broad.mit.edu	37	chr9	115931591	115931591	+	Frame_Shift_Del	DEL	C	-	-													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttgacagctccttgtggggaCcggtggagctagtgacatca							TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:115931591delC	uc004bgs.2	-	26	3516	c.3398delG	c.(3397-3399)GGTfs	p.G1133fs	FKBP15_uc004bgr.2_Frame_Shift_Del_p.G570fs|FKBP15_uc011lxc.1_Frame_Shift_Del_p.G714fs|FKBP15_uc011lxd.1_Frame_Shift_Del_p.G1065fs	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	1133					endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						CTTGTGGGGACCGGTGGAGCT	0.597													86	38	---	---	---	---		-	115931591	-	-	115931591	7	5	148	1	0	1	0	1	0	0	0	0	5905	507	18	0	273	0	FKBP15	9	115931591	Frame_Shift_Del	DEL	C	TCGA-66-2759-01A-01D-1522-08	6245055	115931591	25281840	263	52766										
C9orf91	203197	broad.mit.edu	37	chr9	117400949	117400949	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cccggcaattcttgtcctaaCgagaggccactcatgcagac	9	14	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:117400949C>T	uc004bjd.3	+	8	1009	c.792C>T	c.(790-792)AAC>AAT	p.N264N	C9orf91_uc004bje.3_Silent_p.N243N|C9orf91_uc004bjf.3_Silent_p.N163N	NM_153045	NP_694590	Q5VZI3	CI091_HUMAN	hypothetical protein LOC203197	264						integral to membrane				pancreas(1)	1						CTTGTCCTAACGAGAGGCCAC	0.592													20	109	---	---	---	---	PASS	T	117400949	T	T	117400949	2	4	148	1	0	0	0	0	0	0	0	1	2505	535	19	1		1	C9orf91	9	117400949	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	1469358	117400949	23812482	264	52767										
TRIM32	22954	broad.mit.edu	37	chr9	119460833	119460833	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gctcactgccagcttgcctcGggagctcaccctgcaagatg	11	15	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:119460833G>A	uc004bjx.2	+	2	970	c.812G>A	c.(811-813)CGG>CAG	p.R271Q	ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjs.1_Intron|ASTN2_uc004bjt.1_Intron|TRIM32_uc004bjw.2_Missense_Mutation_p.R271Q	NM_001099679	NP_001093149	Q13049	TRI32_HUMAN	tripartite motif-containing 32	271					fat cell differentiation|innate immune response|negative regulation of apoptosis|negative regulation of fibroblast proliferation|positive regulation of cell cycle|positive regulation of cell growth|positive regulation of cell migration|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein catabolic process|positive regulation of proteolysis|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to tumor necrosis factor|response to UV	nucleus	myosin binding|protein self-association|RNA binding|Tat protein binding|transcription coactivator activity|translation initiation factor binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(2)|kidney(1)	3						AGCTTGCCTCGGGAGCTCACC	0.552									Bardet-Biedl_syndrome				23	56	---	---	---	---	PASS	A	119460833	A	A	119460833	3	1	148	1	0	0	0	0	1	0	0	0	16503	1116	39	1	814	1	TRIM32	9	119460833	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2059884	119460833	21752598	265	52768										
C9orf119	375757	broad.mit.edu	37	chr9	131048234	131048234	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccagaggctacagtgtggatGaactggaggaccacattacc	12	10	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:131048234G>T	uc004bup.2	+	4	565	c.565G>T	c.(565-567)GAA>TAA	p.E189*	C9orf119_uc010mxx.1_Nonsense_Mutation_p.E189*	NM_001040011	NP_001035100	Q1ZZU3	SWI5_HUMAN	hypothetical protein LOC375757	189					double-strand break repair via homologous recombination	Swi5-Sfr1 complex	protein binding				0						CAGTGTGGATGAACTGGAGGA	0.483													16	35	---	---	---	---	PASS	T	131048234	T	T	131048234	4	4	148	1	0	0	0	0	0	1	0	0	2452	1291	45	2	579	2	C9orf119	9	131048234	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	11587401	131048234	10165197	266	52769										
SEC16A	9919	broad.mit.edu	37	chr9	139353940	139353940	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agctttgtagttttcttcgtGtaaacaccaaatcccgcctg	7	11	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:139353940G>A	uc004chx.2	-	16	5568	c.5259C>T	c.(5257-5259)TAC>TAT	p.Y1753Y	SEC16A_uc004chu.2_5'Flank|SEC16A_uc004chv.3_Silent_p.Y1143Y|SEC16A_uc004chw.2_Silent_p.Y1753Y|SEC16A_uc010nbn.2_Silent_p.Y1753Y	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1575					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		TTTTCTTCGTGTAAACACCAA	0.493													10	24	---	---	---	---	PASS	A	139353940	A	A	139353940	2	1	148	1	0	0	0	0	0	0	0	1	13986	1372	48	3		3	SEC16A	9	139353940	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	8305706	139353940	1859491	267	52770										
NOTCH1	4851	broad.mit.edu	37	chr9	139391559	139391559	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtggcggcgaggccacgtctGacaggtagccatggggtgac	18	10	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:139391559G>C	uc004chz.2	-	34	6632	c.6632C>G	c.(6631-6633)TCA>TGA	p.S2211*		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2211	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GGCCACGTCTGACAGGTAGCC	0.682			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			25	43	---	---	---	---	PASS	C	139391559	C	C	139391559	4	2	148	1	0	0	0	0	0	1	0	0	10547	1294	45	2	1039	2	NOTCH1	9	139391559	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	37619	139391559	1821872	268	52771										
C9orf173	441476	broad.mit.edu	37	chr9	140146913	140146913	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cggtggccgcagggcatggcAgactttgtggttccagagcg	17	10	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:140146913A>C	uc004cmk.1	+	4	437	c.425A>C	c.(424-426)CAG>CCG	p.Q142P	C9orf173_uc004cmj.1_Missense_Mutation_p.Q143P|C9orf173_uc011meu.1_RNA|C9orf173_uc010ncd.1_RNA|C9orf173_uc011mev.1_Missense_Mutation_p.Q142P|C9orf173_uc004cml.1_Missense_Mutation_p.Q142P|COBRA1_uc004cmm.3_5'Flank			Q8N7X2	CI173_HUMAN	SubName: Full=LOC441476 protein;	143										pancreas(1)	1						AGGGCATGGCAGACTTTGTGG	0.627													6	15	---	---	---	---	PASS	C	140146913	C	C	140146913	3	2	148	1	0	0	0	0	1	0	0	0	2472	188	7	5	442	5	C9orf173	9	140146913	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	755354	140146913	1066518	269	52772										
MPP7	143098	broad.mit.edu	37	chr10	28420572	28420572	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttcaggcataggaggcaacaCtgggtcgtaattcttctgag	12	8	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:28420572C>A	uc001iua.1	-	8	768	c.364G>T	c.(364-366)GTG>TTG	p.V122L	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Missense_Mutation_p.V122L|MPP7_uc009xla.2_Missense_Mutation_p.V122L|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	122	L27 2.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						GGAGGCAACACTGGGTCGTAA	0.353													33	123	---	---	---	---	PASS	A	28420572	A	A	28420572	3	1	148	1	0	0	0	0	1	0	0	0	9739	565	20	3	1414	3	MPP7	10	28420572	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08		28420572	107114175	270	52773										
ANKRD30A	91074	broad.mit.edu	37	chr10	37506638	37506638	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggcagattgactttaaaccaAgaagaagagaagagaagaaa	11	4	0	7			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:37506638A>G	uc001iza.1	+	33	3030	c.2931A>G	c.(2929-2931)CAA>CAG	p.Q977Q		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1033	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						CTTTAAACCAAGAAGAAGAGA	0.294													7	27	---	---	---	---	PASS	G	37506638	G	G	37506638	2	3	148	1	0	0	0	0	0	0	0	1	658	69	3	5		5	ANKRD30A	10	37506638	Silent	SNP	A	TCGA-66-2759-01A-01D-1522-08	9086066	37506638	98028109	271	52774										
C10orf72	196740	broad.mit.edu	37	chr10	50315656	50315656	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cacctctcatttccgtggctGaggagccattggaccaggcc	11	14	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:50315656G>T	uc001jhf.2	-	2	469	c.440C>A	c.(439-441)TCA>TAA	p.S147*	C10orf72_uc001jhh.2_Nonsense_Mutation_p.S147*	NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	147	Ig-like.|Extracellular (Potential).					integral to membrane|plasma membrane					0						TTCCGTGGCTGAGGAGCCATT	0.617													30	63	---	---	---	---	PASS	T	50315656	T	T	50315656	4	4	148	1	0	0	0	0	0	1	0	0	1615	1294	45	2	673	2	C10orf72	10	50315656	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	12809018	50315656	85219091	272	52775										
C10orf72	196740	broad.mit.edu	37	chr10	50316010	50316010	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agtcaaccacgggccccgggGacacagtgacattgagggcc	14	13	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:50316010G>A	uc001jhf.2	-	2	115	c.86C>T	c.(85-87)TCC>TTC	p.S29F	C10orf72_uc001jhh.2_Missense_Mutation_p.S29F	NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	29	Ig-like.|Extracellular (Potential).					integral to membrane|plasma membrane					0						GGGCCCCGGGGACACAGTGAC	0.627													5	13	---	---	---	---	PASS	A	50316010	A	A	50316010	3	1	148	1	0	0	0	0	1	0	0	0	1615	1174	41	2	1027	2	C10orf72	10	50316010	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	354	50316010	85218737	273	52776										
ASAH2	56624	broad.mit.edu	37	chr10	52005154	52005154	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tggctgtggagcgttgggcaGctgtggagccctgggtggct	20	8	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:52005154G>C	uc001jjd.2	-	2	188	c.188C>G	c.(187-189)GCT>GGT	p.A63G	ASAH2_uc009xos.2_Missense_Mutation_p.A63G	NM_019893	NP_063946	Q9NR71	ASAH2_HUMAN	N-acylsphingosine amidohydrolase 2 isoform a	63	Lumenal (Potential).				apoptosis|ceramide metabolic process|signal transduction	integral to membrane|mitochondrion|plasma membrane	ceramidase activity				0						GCGTTGGGCAGCTGTGGAGCC	0.507													18	86	---	---	---	---	PASS	C	52005154	C	C	52005154	3	2	148	1	0	0	0	0	1	0	0	0	1007	971	34	4	2230	4	ASAH2	10	52005154	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	1689144	52005154	83529593	274	52777										
PCDH15	65217	broad.mit.edu	37	chr10	55826581	55826581	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ataaatttcttggcagataaGgatcaaacactggagcattg	9	6	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:55826581G>T	uc001jju.1	-	18	2551	c.2156C>A	c.(2155-2157)CCT>CAT	p.P719H	PCDH15_uc010qhq.1_Missense_Mutation_p.P724H|PCDH15_uc010qhr.1_Missense_Mutation_p.P719H|PCDH15_uc010qhs.1_Missense_Mutation_p.P731H|PCDH15_uc010qht.1_Missense_Mutation_p.P726H|PCDH15_uc010qhu.1_Missense_Mutation_p.P719H|PCDH15_uc001jjv.1_Missense_Mutation_p.P697H|PCDH15_uc010qhv.1_Missense_Mutation_p.P719H|PCDH15_uc010qhw.1_Missense_Mutation_p.P682H|PCDH15_uc010qhx.1_Missense_Mutation_p.P648H|PCDH15_uc010qhy.1_Missense_Mutation_p.P724H|PCDH15_uc010qhz.1_Missense_Mutation_p.P719H|PCDH15_uc010qia.1_Missense_Mutation_p.P697H|PCDH15_uc010qib.1_Missense_Mutation_p.P697H|PCDH15_uc001jjw.2_Missense_Mutation_p.P719H	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	719	Extracellular (Potential).|Cadherin 7.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TGGCAGATAAGGATCAAACAC	0.368										HNSCC(58;0.16)			26	79	---	---	---	---	PASS	T	55826581	T	T	55826581	3	4	148	1	0	0	0	0	1	0	0	0	11511	1000	35	3	5394	3	PCDH15	10	55826581	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	3821427	55826581	79708166	275	52778										
TFAM	7019	broad.mit.edu	37	chr10	60150600	60150600	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tagctgaaagattccaagaaGctaagggtgattcaccgcag	11	8	1	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:60150600G>T	uc001jkf.2	+	5	649	c.517G>T	c.(517-519)GCT>TCT	p.A173S	TFAM_uc001jkg.2_RNA|TFAM_uc001jkh.2_Intron	NM_003201	NP_003192	Q00059	TFAM_HUMAN	transcription factor A, mitochondrial precursor	173	HMG box 2.				DNA-dependent DNA replication|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase I promoter|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	mitochondrial light strand promoter sense binding|protein binding|sequence-specific DNA binding transcription factor activity				0						ATTCCAAGAAGCTAAGGGTGA	0.348													20	43	---	---	---	---	PASS	T	60150600	T	T	60150600	3	4	148	1	0	0	0	0	1	0	0	0	15783	971	34	3	535	3	TFAM	10	60150600	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	4324019	60150600	75384147	276	52779										
CDH23	64072	broad.mit.edu	37	chr10	73461826	73461826	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gagaatggcaccctggtgtaCagcatccagccacccaacaa	9	14	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:73461826C>A	uc001jrx.3	+	22	2822	c.2445C>A	c.(2443-2445)TAC>TAA	p.Y815*	CDH23_uc001jry.2_Nonsense_Mutation_p.Y431*|CDH23_uc001jrz.2_Nonsense_Mutation_p.Y431*	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	815	Cadherin 8.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CCCTGGTGTACAGCATCCAGC	0.652													3	64	---	---	---	---	PASS	A	73461826	A	A	73461826	4	1	148	1	0	0	0	0	0	1	0	0	3108	489	17	3	2758	3	CDH23	10	73461826	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	13311226	73461826	62072921	277	52780										
GRID1	2894	broad.mit.edu	37	chr10	87628773	87628773	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggctgagcactgacctgcagCatctggaggtagccttcctg	13	12	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:87628773C>A	uc001kdl.1	-	6	1046	c.945G>T	c.(943-945)ATG>ATT	p.M315I	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	315	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	TGACCTGCAGCATCTGGAGGT	0.582										Multiple Myeloma(13;0.14)			24	55	---	---	---	---	PASS	A	87628773	A	A	87628773	3	1	148	1	0	0	0	0	1	0	0	0	6771	710	25	3	2128	3	GRID1	10	87628773	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	14166947	87628773	47905974	278	52781										
PAPSS2	9060	broad.mit.edu	37	chr10	89503199	89503199	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cctgttgatgcaggacactcGccgcaggctcctagagaggg	14	12	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:89503199G>A	uc001kex.2	+	10	1540	c.1277G>A	c.(1276-1278)CGC>CAC	p.R426H	PAPSS2_uc001kew.2_Missense_Mutation_p.R431H	NM_004670	NP_004661	O95340	PAPS2_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase 2	426	Adenylyl-sulfate kinase.			R -> C (in Ref. 1; AAC64583).	3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|protein binding|sulfate adenylyltransferase (ATP) activity			central_nervous_system(1)|skin(1)	2		Melanoma(5;0.019)|Colorectal(252;0.123)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00164)|Colorectal(12;0.000323)|COAD - Colon adenocarcinoma(12;0.00124)		CAGGACACTCGCCGCAGGCTC	0.582													41	125	---	---	---	---	PASS	A	89503199	A	A	89503199	3	1	148	1	0	0	0	0	1	0	0	0	11435	1087	38	1	1334	1	PAPSS2	10	89503199	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	1874426	89503199	46031548	279	52782										
TNKS2	80351	broad.mit.edu	37	chr10	93619220	93619220	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccatctatatgtgtttcaggGtctccttttgtgaatgcaat	8	8	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:93619220G>T	uc001khp.2	+	25	3393	c.3096G>T	c.(3094-3096)GGG>GGT	p.G1032G		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1032	PARP catalytic.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				GTGTTTCAGGGTCTCCTTTTG	0.313													33	114	---	---	---	---	PASS	T	93619220	T	T	93619220	2	4	148	1	0	0	0	0	0	0	0	1	16318	1275	44	3		3	TNKS2	10	93619220	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	4116021	93619220	41915527	280	52783										
CYP2C9	1559	broad.mit.edu	37	chr10	96701714	96701714	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgaaggaagccctgattgatCttggagaggagttttctgga	14	5	2	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:96701714C>G	uc001kka.3	+	2	293	c.268C>G	c.(268-270)CTT>GTT	p.L90V	CYP2C9_uc009xut.2_Missense_Mutation_p.L90V|CYP2C9_uc001kjz.2_Missense_Mutation_p.L90V	NM_000771	NP_000762	P11712	CP2C9_HUMAN	cytochrome P450, family 2, subfamily C,	90					exogenous drug catabolic process|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative demethylation|steroid metabolic process|urea metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|caffeine oxidase activity|drug binding|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(4)|ovary(2)	6		Colorectal(252;0.0902)		all cancers(201;6.93e-05)	Acenocoumarol(DB01418)|Alosetron(DB00969)|Amiodarone(DB01118)|Antihemophilic Factor(DB00025)|Aprepitant(DB00673)|Bosentan(DB00559)|Carprofen(DB00821)|Carvedilol(DB01136)|Celecoxib(DB00482)|Clomipramine(DB01242)|Dapsone(DB00250)|Delavirdine(DB00705)|Desloratadine(DB00967)|Desogestrel(DB00304)|Diclofenac(DB00586)|Esomeprazole(DB00736)|Etodolac(DB00749)|Fluconazole(DB00196)|Fluoxetine(DB00472)|Flurbiprofen(DB00712)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Gemfibrozil(DB01241)|Ginkgo biloba(DB01381)|Glibenclamide(DB01016)|Glimepiride(DB00222)|Glipizide(DB01067)|Guanfacine(DB01018)|Hydromorphone(DB00327)|Ibuprofen(DB01050)|Imipramine(DB00458)|Irbesartan(DB01029)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Losartan(DB00678)|Lumiracoxib(DB01283)|Marinol(DB00470)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mephenytoin(DB00532)|Metronidazole(DB00916)|Miconazole(DB01110)|Midazolam(DB00683)|Montelukast(DB00471)|Nateglinide(DB00731)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Oxymorphone(DB01192)|Pantoprazole(DB00213)|Paramethadione(DB00617)|Phenprocoumon(DB00946)|Phenytoin(DB00252)|Pravastatin(DB00175)|Quinidine(DB00908)|Ritonavir(DB00503)|Rosiglitazone(DB00412)|Sertraline(DB01104)|Sildenafil(DB00203)|Sulfamethoxazole(DB01015)|Suprofen(DB00870)|Tamoxifen(DB00675)|Tenoxicam(DB00469)|Terfenadine(DB00342)|Tolbutamide(DB01124)|Torasemide(DB00214)|Troleandomycin(DB01361)|Valdecoxib(DB00580)|Valsartan(DB00177)|Voriconazole(DB00582)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zileuton(DB00744)	CCTGATTGATCTTGGAGAGGA	0.483													54	170	---	---	---	---	PASS	G	96701714	G	G	96701714	3	3	148	1	0	0	0	0	1	0	0	0	4168	913	32	2	274	2	CYP2C9	10	96701714	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3082494	96701714	38833033	281	52784										
TLL2	7093	broad.mit.edu	37	chr10	98127941	98127941	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcatctgtgcggaatcgaatCatcagggaatcacctgcaga	10	10	5	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:98127941C>T	uc001kml.1	-	21	3178	c.2952G>A	c.(2950-2952)ATG>ATA	p.M984I		NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	984	CUB 5.				cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		GGAATCGAATCATCAGGGAAT	0.458													21	89	---	---	---	---	PASS	T	98127941	T	T	98127941	3	4	148	1	0	0	0	0	1	0	0	0	15943	826	29	2	99	2	TLL2	10	98127941	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1426227	98127941	37406806	282	52785										
NOLC1	9221	broad.mit.edu	37	chr10	103920564	103920564	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gaggaggaggaagagaagacAtctaagtctgcagttaagaa	14	4	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:103920564A>G	uc001kuo.2	+	10	1690	c.1455A>G	c.(1453-1455)ACA>ACG	p.T485T	NOLC1_uc001kup.2_Silent_p.T495T|NOLC1_uc001kuq.2_Silent_p.T486T|NOLC1_uc009xxb.1_Silent_p.T204T|NOLC1_uc001kur.2_Silent_p.T204T	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	485	Nuclear localization signal (Potential).|11 X 12 AA approximate repeats of an acidic serine cluster.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		AAGAGAAGACATCTAAGTCTG	0.537													18	62	---	---	---	---	PASS	G	103920564	G	G	103920564	2	3	148	1	0	0	0	0	0	0	0	1	10529	204	8	5		5	NOLC1	10	103920564	Silent	SNP	A	TCGA-66-2759-01A-01D-1522-08	5792623	103920564	31614183	283	52786										
NT5C2	22978	broad.mit.edu	37	chr10	104849467	104849467	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctcctcttcatcatcatcttCgtcatggcagtgtgtaattt	6	11	6	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:104849467C>T	uc001kwo.2	-	19	1834	c.1648G>A	c.(1648-1650)GAA>AAA	p.E550K	NT5C2_uc010qqp.1_Missense_Mutation_p.E521K|NT5C2_uc001kwq.2_Missense_Mutation_p.E550K|NT5C2_uc001kwp.2_Missense_Mutation_p.E397K	NM_012229	NP_036361	P49902	5NTC_HUMAN	5'-nucleotidase, cytosolic II	550	Asp/Glu-rich (acidic).				purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|metal ion binding|nucleotide binding|protein binding				0		all_hematologic(284;0.176)|Colorectal(252;0.178)		Epithelial(162;1.33e-08)|all cancers(201;1.04e-07)|BRCA - Breast invasive adenocarcinoma(275;0.159)	Adenosine triphosphate(DB00171)|Ribavirin(DB00811)	tcatcatcttcgtcATGGCAG	0.383													35	96	---	---	---	---	PASS	T	104849467	T	T	104849467	3	4	148	1	0	0	0	0	1	0	0	0	10687	893	31	2	41	2	NT5C2	10	104849467	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	928903	104849467	30685280	284	52787										
CALHM2	51063	broad.mit.edu	37	chr10	105207318	105207318	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccacgccgatgagcagccatCcaaagagctggccagagaat	11	13	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:105207318C>T	uc001kwz.2	-	3	949	c.563G>A	c.(562-564)GGA>GAA	p.G188E	CALHM2_uc001kxa.2_Missense_Mutation_p.G188E|CALHM2_uc001kxc.2_Missense_Mutation_p.D184N|CALHM2_uc001kxb.2_Missense_Mutation_p.G188E	NM_015916	NP_057000	Q9HA72	CAHM2_HUMAN	calcium homeostasis modulator 2	188	Helical; (Potential).					integral to membrane				skin(1)	1						GAGCAGCCATCCAAAGAGCTG	0.597													5	25	---	---	---	---	PASS	T	105207318	T	T	105207318	3	4	148	1	0	0	0	0	1	0	0	0	2583	855	30	2	412	2	CALHM2	10	105207318	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	357851	105207318	30327429	285	52788										
SORCS1	114815	broad.mit.edu	37	chr10	108366960	108366960	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gttgaccttttgttttctccAgctggatcctgatagggtag	11	8	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:108366960A>T	uc001kym.2	-	23	3137	c.3129T>A	c.(3127-3129)GCT>GCA	p.A1043A	SORCS1_uc001kyl.2_Silent_p.A1043A|SORCS1_uc009xxs.2_Silent_p.A1043A|SORCS1_uc001kyn.1_Silent_p.A1043A|SORCS1_uc001kyo.2_Silent_p.A1043A	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	1043	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TGTTTTCTCCAGCTGGATCCT	0.532													6	95	---	---	---	---	PASS	T	108366960	T	T	108366960	2	4	148	1	0	0	0	0	0	0	0	1	14930	175	7	5		5	SORCS1	10	108366960	Silent	SNP	A	TCGA-66-2759-01A-01D-1522-08	3159642	108366960	27167787	286	52789										
SORCS1	114815	broad.mit.edu	37	chr10	108716299	108716299	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cgagctctctgtgatgctccCcaggttatagtcatagagct	10	11	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:108716299C>A	uc001kym.2	-	2	606	c.598G>T	c.(598-600)GGG>TGG	p.G200W	SORCS1_uc001kyl.2_Missense_Mutation_p.G200W|SORCS1_uc009xxs.2_Missense_Mutation_p.G200W|SORCS1_uc001kyn.1_Missense_Mutation_p.G200W|SORCS1_uc001kyo.2_Missense_Mutation_p.G200W	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	200	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		GTGATGCTCCCCAGGTTATAG	0.403													22	79	---	---	---	---	PASS	A	108716299	A	A	108716299	3	1	148	1	0	0	0	0	1	0	0	0	14930	623	22	3	3242	3	SORCS1	10	108716299	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	349339	108716299	26818448	287	52790										
ATRNL1	26033	broad.mit.edu	37	chr10	117026389	117026389	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tttgtaaaaatgctggtccaGggataaaatgtgtttggaat	11	3	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:117026389G>C	uc001lcg.2	+	12	2274	c.1888G>C	c.(1888-1890)GGG>CGG	p.G630R		NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	630	PSI 1.|Kelch 6.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		TGCTGGTCCAGGGATAAAATG	0.363													26	112	---	---	---	---	PASS	C	117026389	C	C	117026389	3	2	148	1	0	0	0	0	1	0	0	0	1207	1000	35	4	1934	4	ATRNL1	10	117026389	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	8310090	117026389	18508358	288	52791										
PNLIPRP3	119548	broad.mit.edu	37	chr10	118220599	118220599	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cgcatcctctttgagcttggTaagttttaacagaatcagaa	8	8	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:118220599T>A	uc001lcl.3	+	6	786	c.685_splice	c.e6+2	p.G229_splice		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor						lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		TTGAGCTTGGTAAGTTTTAAC	0.398													55	144	---	---	---	---	PASS	A	118220599	A	A	118220599	5	1	148	1	0	0	0	0	0	0	1	0	12152	1652	57	5	709	5	PNLIPRP3	10	118220599	Splice_Site	SNP	T	TCGA-66-2759-01A-01D-1522-08	1194210	118220599	17314148	289	52792										
DHX32	55760	broad.mit.edu	37	chr10	127542766	127542766	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gacagtttcacagactttctCaatatcctaaagaaaaaaaa	4	8	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:127542766C>T	uc001ljf.1	-	4	1347	c.856G>A	c.(856-858)GAG>AAG	p.E286K	DHX32_uc001lje.1_5'UTR|DHX32_uc001ljg.1_Missense_Mutation_p.E286K|DHX32_uc009yam.1_Intron	NM_018180	NP_060650	Q7L7V1	DHX32_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32	286						mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				CAGACTTTCTCAATATCCTAA	0.303													9	57	---	---	---	---	PASS	T	127542766	T	T	127542766	3	4	148	1	0	0	0	0	1	0	0	0	4505	835	29	2	1407	2	DHX32	10	127542766	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	9322167	127542766	7991981	290	52793										
MUC5B	727897	broad.mit.edu	37	chr11	1257660	1257660	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gggacctttaaggcggtggcGagagggccgggtggggaccc	21	9	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:1257660G>A	uc009ycr.1	+	40	5130	c.5004G>A	c.(5002-5004)GCG>GCA	p.A1668A	MUC5B_uc009yct.1_Silent_p.A975A|MUC5B_uc001ltb.2_Silent_p.A978A|MUC5B_uc001lta.2_Silent_p.A643A	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	975	VWFD 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		AGGCGGTGGCGAGAGGGCCGG	0.662													23	60	---	---	---	---	PASS	A	1257660	A	A	1257660	2	1	148	1	0	0	0	0	0	0	0	1	9979	1045	37	2		2	MUC5B	11	1257660	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08		1257660	133748856	291	52794										
BRSK2	9024	broad.mit.edu	37	chr11	1467049	1467049	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acggcaagcggcggccagaaCgcaaatccatggaggtgctc	14	12	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:1467049C>T	uc001lti.2	+	12	1524	c.1138C>T	c.(1138-1140)CGC>TGC	p.R380C	BRSK2_uc009ycv.1_Missense_Mutation_p.R380C|BRSK2_uc001lth.1_Missense_Mutation_p.R380C|BRSK2_uc001ltj.2_Missense_Mutation_p.R380C|BRSK2_uc001ltk.2_RNA|BRSK2_uc001ltl.2_Missense_Mutation_p.R380C|BRSK2_uc001ltm.2_Missense_Mutation_p.R426C|BRSK2_uc001ltn.2_RNA|BRSK2_uc010qwx.1_RNA	NM_003957	NP_003948	Q8IWQ3	BRSK2_HUMAN	BR serine/threonine kinase 2	380					establishment of cell polarity|neuron differentiation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)		GCGGCCAGAACGCAAATCCAT	0.687													14	25	---	---	---	---	PASS	T	1467049	T	T	1467049	3	4	148	1	0	0	0	0	1	0	0	0	1524	536	19	1	1184	1	BRSK2	11	1467049	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	209389	1467049	133539467	292	52795										
UBQLN3	50613	broad.mit.edu	37	chr11	5529258	5529258	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtttgccatggctgcctgaaGgtgcatcagcagtggcagct	14	10	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:5529258G>A	uc001may.1	-	2	1617	c.1531C>T	c.(1531-1533)CTT>TTT	p.L511F	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	511										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCTGCCTGAAGGTGCATCAGC	0.577													14	42	---	---	---	---	PASS	A	5529258	A	A	5529258	3	1	148	1	0	0	0	0	1	0	0	0	16895	1000	35	3	440	3	UBQLN3	11	5529258	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	4062209	5529258	129477258	293	52796										
APBB1	322	broad.mit.edu	37	chr11	6423837	6423837	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccccagacatggggtcatgcAggttgtttttgtggtaagag	14	7	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:6423837A>G	uc001mdb.1	-	7	1323	c.1223T>C	c.(1222-1224)CTG>CCG	p.L408P	APBB1_uc001mcz.1_Missense_Mutation_p.L29P|APBB1_uc001mdd.3_Missense_Mutation_p.L188P|APBB1_uc001mda.2_Intron|APBB1_uc001mdc.1_Missense_Mutation_p.L408P|APBB1_uc010rab.1_5'Flank|APBB1_uc010rac.1_5'Flank|APBB1_uc010rad.1_Missense_Mutation_p.L29P|APBB1_uc010rae.1_Missense_Mutation_p.L173P|APBB1_uc010raf.1_Missense_Mutation_p.L149P|APBB1_uc009yfa.2_Missense_Mutation_p.L149P|APBB1_uc009yey.2_Missense_Mutation_p.L149P|APBB1_uc010rag.1_Missense_Mutation_p.L149P|APBB1_uc009yfb.2_Missense_Mutation_p.L149P|APBB1_uc001mde.2_Missense_Mutation_p.L149P|APBB1_uc010rah.1_Missense_Mutation_p.L149P	NM_001164	NP_001155	O00213	APBB1_HUMAN	amyloid beta A4 precursor protein-binding,	408	PID 1.				apoptosis|axonogenesis|cell cycle arrest|histone H4 acetylation|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of thymidylate synthase biosynthetic process|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|signal transduction|transcription, DNA-dependent	cytoplasm|growth cone|lamellipodium|nucleus|plasma membrane|synapse	beta-amyloid binding|chromatin binding|histone binding|proline-rich region binding|transcription factor binding			breast(2)	2		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;6.49e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		GGGGTCATGCAGGTTGTTTTT	0.577													17	64	---	---	---	---	PASS	G	6423837	G	G	6423837	3	3	148	1	0	0	0	0	1	0	0	0	759	188	7	5	941	5	APBB1	11	6423837	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	894579	6423837	128582679	294	52797										
OR2D2	120776	broad.mit.edu	37	chr11	6912971	6912971	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcatgtaagtgataattgctGatccataaaaaagtatgacc	7	6	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:6912971G>A	uc010rau.1	-	1	761	c.761C>T	c.(760-762)TCA>TTA	p.S254L		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GATAATTGCTGATCCATAAAA	0.433													17	49	---	---	---	---	PASS	A	6912971	A	A	6912971	3	1	148	1	0	0	0	0	1	0	0	0	10994	1294	45	2	168	2	OR2D2	11	6912971	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	489134	6912971	128093545	295	52798										
OVCH2	341277	broad.mit.edu	37	chr11	7723862	7723862	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctccagcagtaacattcaaaGtagacacaatgtttctatgg	7	9	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:7723862G>T	uc010rbf.1	-	4	305	c.305C>A	c.(304-306)ACT>AAT	p.T102N		NM_198185	NP_937828			ovochymase 2 precursor												0				Epithelial(150;7.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.197)		AACATTCAAAGTAGACACAAT	0.388													5	19	---	---	---	---	PASS	T	7723862	T	T	7723862	3	4	148	1	0	0	0	0	1	0	0	0	11324	1029	36	3	1436	3	OVCH2	11	7723862	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	810891	7723862	127282654	296	52799										
DENND5A	23258	broad.mit.edu	37	chr11	9225228	9225228	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctgtgagtagagcaggatttGaaactccagaagggcacaag	13	7	0	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:9225228G>T	uc001mhl.2	-	4	1183	c.928C>A	c.(928-930)CAA>AAA	p.Q310K	DENND5A_uc010rbw.1_Missense_Mutation_p.Q310K|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	310	DENN.									liver(1)	1						AGCAGGATTTGAAACTCCAGA	0.468													22	68	---	---	---	---	PASS	T	9225228	T	T	9225228	3	4	148	1	0	0	0	0	1	0	0	0	4436	1299	45	2	3015	2	DENND5A	11	9225228	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	1501366	9225228	125781288	297	52800										
ANO5	203859	broad.mit.edu	37	chr11	22225351	22225351	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tctttcttatttaatttaggGgaaaaagtcaataagcatat	6	4	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:22225351G>T	uc001mqi.2	+	2	359	c.42G>T	c.(40-42)GGG>GGT	p.G14G	ANO5_uc001mqj.2_Silent_p.G14G	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	14	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						TTAATTTAGGGGAAAAAGTCA	0.269													4	21	---	---	---	---	PASS	T	22225351	T	T	22225351	2	4	148	1	0	0	0	0	0	0	0	1	700	1246	43	3		3	ANO5	11	22225351	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	13000123	22225351	112781165	298	52801										
RAG2	5897	broad.mit.edu	37	chr11	36614281	36614281	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcttgctatctccacatgctCattgcagtaatacttgttgc	6	11	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:36614281C>G	uc001mwv.3	-	2	1626	c.1438G>C	c.(1438-1440)GAG>CAG	p.E480Q	RAG1_uc001mwt.2_Intron|C11orf74_uc010rfd.1_5'Flank|C11orf74_uc001mww.1_5'Flank|C11orf74_uc001mwx.1_5'Flank|C11orf74_uc001mwy.1_5'Flank|C11orf74_uc001mwz.1_5'Flank|C11orf74_uc010rfe.1_5'Flank	NM_000536	NP_000527	P55895	RAG2_HUMAN	recombination activating gene 2	480	PHD-type; atypical.				chromatin modification|pre-B cell allelic exclusion|somatic diversification of immunoglobulins|T cell differentiation in thymus|V(D)J recombination	nucleus	chromatin binding|DNA binding|endonuclease activity|methylated histone residue binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|zinc ion binding			skin(3)|ovary(1)|pancreas(1)	5	all_lung(20;0.226)	all_hematologic(20;0.00756)				TCCACATGCTCATTGCAGTAA	0.478									Familial_Hemophagocytic_Lymphohistiocytosis				50	98	---	---	---	---	PASS	G	36614281	G	G	36614281	3	3	148	1	0	0	0	0	1	0	0	0	13005	835	29	2	149	2	RAG2	11	36614281	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	14388930	36614281	98392235	299	52802										
TTC17	55761	broad.mit.edu	37	chr11	43421578	43421578	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tatcattcatgagactcagaTggcaaaagaggcacaattag	9	7	3	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:43421578T>C	uc001mxi.2	+	9	1213	c.1199T>C	c.(1198-1200)ATG>ACG	p.M400T	TTC17_uc001mxh.2_Missense_Mutation_p.M400T|TTC17_uc010rfj.1_Missense_Mutation_p.M343T|TTC17_uc001mxj.2_Missense_Mutation_p.M170T	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	400							binding			ovary(5)	5						GAGACTCAGATGGCAAAAGAG	0.373													25	77	---	---	---	---	PASS	C	43421578	C	C	43421578	3	2	148	1	0	0	0	0	1	0	0	0	16681	1464	51	5	1233	5	TTC17	11	43421578	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	6807297	43421578	91584938	300	52803										
KIAA0652	9776	broad.mit.edu	37	chr11	46689361	46689361	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atcaaacagcagtgagggacGggcctcccctcacgatgtct	11	13	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:46689361G>T	uc009yld.2	+	14	1760	c.1076G>T	c.(1075-1077)CGG>CTG	p.R359L	KIAA0652_uc001nda.2_Missense_Mutation_p.R392L|KIAA0652_uc001ndb.2_Missense_Mutation_p.R359L|KIAA0652_uc001ncz.2_Missense_Mutation_p.R322L|KIAA0652_uc001ndc.2_Missense_Mutation_p.R322L|KIAA0652_uc010rgv.1_Missense_Mutation_p.R243L	NM_001142673	NP_001136145	O75143	ATG13_HUMAN	autophagy-related protein 13 isoform 1	359					autophagic vacuole assembly	cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding				0				GBM - Glioblastoma multiforme(35;0.226)		AGTGAGGGACGGGCCTCCCCT	0.493													23	79	---	---	---	---	PASS	T	46689361	T	T	46689361	3	4	148	1	0	0	0	0	1	0	0	0	8188	1116	39	1	1122	1	KIAA0652	11	46689361	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	3267783	46689361	88317155	301	52804										
OR4A47	403253	broad.mit.edu	37	chr11	48510827	48510827	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtatttcaacttagcattatTtatgggctcccattctgtgg	8	8	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:48510827T>C	uc010rhx.1	+	1	483	c.483T>C	c.(481-483)ATT>ATC	p.I161I		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	161	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTAGCATTATTTATGGGCTCC	0.438													56	168	---	---	---	---	PASS	C	48510827	C	C	48510827	2	2	148	1	0	0	0	0	0	0	0	1	11042	1829	64	5		5	OR4A47	11	48510827	Silent	SNP	T	TCGA-66-2759-01A-01D-1522-08	1821466	48510827	86495689	302	52805										
OR4C46	119749	broad.mit.edu	37	chr11	51515935	51515935	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctgctggtctcctatgtggtCatcttgtgctccctaaggac	10	12	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:51515935C>A	uc010ric.1	+	1	654	c.654C>A	c.(652-654)GTC>GTA	p.V218V		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	218	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCTATGTGGTCATCTTGTGCT	0.507													30	81	---	---	---	---	PASS	A	51515935	A	A	51515935	2	1	148	1	0	0	0	0	0	0	0	1	11051	813	29	2		2	OR4C46	11	51515935	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	3005108	51515935	83490581	303	52806										
OR4C6	219432	broad.mit.edu	37	chr11	55432813	55432813	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cagagtctgaggtcacctatGtatttttttcttaccttctt	6	9	4	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:55432813G>C	uc001nht.3	+	3	436	c.171G>C	c.(169-171)ATG>ATC	p.M57I	OR4C6_uc010rik.1_Missense_Mutation_p.M57I	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GGTCACCTATGTATTTTTTTC	0.413													50	220	---	---	---	---	PASS	C	55432813	C	C	55432813	3	2	148	1	0	0	0	0	1	0	0	0	11052	1377	48	4	173	4	OR4C6	11	55432813	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	3916878	55432813	79573703	304	52807										
OR5D18	219438	broad.mit.edu	37	chr11	55587148	55587148	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	caagtgggaccacgttcaccCtcttgggcttctcagattac	9	13	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:55587148C>T	uc010rin.1	+	1	43	c.43C>T	c.(43-45)CTC>TTC	p.L15F		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	15	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				CACGTTCACCCTCTTGGGCTT	0.428													19	75	---	---	---	---	PASS	T	55587148	T	T	55587148	3	4	148	1	0	0	0	0	1	0	0	0	11157	681	24	3	45	3	OR5D18	11	55587148	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	154335	55587148	79419368	305	52808										
SPRYD5	84767	broad.mit.edu	37	chr11	55657463	55657463	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tctgagcctgtgaatccagaGctcagtgcagggcccatcac	11	13	3	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:55657463G>T	uc010rip.1	+	6	899	c.807G>T	c.(805-807)GAG>GAT	p.E269D	SPRYD5_uc010riq.1_Missense_Mutation_p.E126D	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	269	B30.2/SPRY.					intracellular	zinc ion binding				0		all_epithelial(135;0.226)				TGAATCCAGAGCTCAGTGCAG	0.478													17	55	---	---	---	---	PASS	T	55657463	T	T	55657463	3	4	148	1	0	0	0	0	1	0	0	0	15110	962	34	3	825	3	SPRYD5	11	55657463	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	70315	55657463	79349053	306	52809										
OR5W2	390148	broad.mit.edu	37	chr11	55681710	55681710	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtaccgatcaaaggccatcaCtgacagcagtagacactcag	9	12	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:55681710C>T	uc010rir.1	-	1	349	c.349G>A	c.(349-351)GTG>ATG	p.V117M		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AAGGCCATCACTGACAGCAGT	0.453													22	62	---	---	---	---	PASS	T	55681710	T	T	55681710	3	4	148	1	0	0	0	0	1	0	0	0	11185	565	20	3	585	3	OR5W2	11	55681710	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	24247	55681710	79324806	307	52810										
OR8J3	81168	broad.mit.edu	37	chr11	55904298	55904298	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tccatgaatttctttaaggcAacatttacatcattattcct	3	9	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:55904298A>G	uc010riz.1	-	1	897	c.897T>C	c.(895-897)GTT>GTC	p.V299V		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					TCTTTAAGGCAACATTTACAT	0.343													28	70	---	---	---	---	PASS	G	55904298	G	G	55904298	2	3	148	1	0	0	0	0	0	0	0	1	11242	117	5	5		5	OR8J3	11	55904298	Silent	SNP	A	TCGA-66-2759-01A-01D-1522-08	222588	55904298	79102218	308	52811										
OR5T2	219464	broad.mit.edu	37	chr11	56000245	56000245	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aaactacaagcaagaaacacCtgtgctacacatccaaggaa	6	11	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:56000245C>A	uc010rjc.1	-	1	417	c.417G>T	c.(415-417)CAG>CAT	p.Q139H		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	139	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CAAGAAACACCTGTGCTACAC	0.408													45	119	---	---	---	---	PASS	A	56000245	A	A	56000245	3	1	148	1	0	0	0	0	1	0	0	0	11182	680	24	3	661	3	OR5T2	11	56000245	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	95947	56000245	79006271	309	52812										
OR5M11	219487	broad.mit.edu	37	chr11	56310013	56310013	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gacagccatcatatgggaacCacaggtggagaatgccttgt	12	9	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:56310013C>A	uc010rjl.1	-	1	721	c.721G>T	c.(721-723)GGT>TGT	p.G241C		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATATGGGAACCACAGGTGGAG	0.468													24	80	---	---	---	---	PASS	A	56310013	A	A	56310013	3	1	148	1	0	0	0	0	1	0	0	0	11174	594	21	3	199	3	OR5M11	11	56310013	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	309768	56310013	78696503	310	52813										
PCNXL3	399909	broad.mit.edu	37	chr11	65394885	65394885	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cttgcccacagctgccgggcGctgctgatgaccgtggctgg	15	14	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:65394885G>T	uc001oey.2	+	22	3534	c.3534G>T	c.(3532-3534)GCG>GCT	p.A1178A	PCNXL3_uc001oez.2_Silent_p.A65A	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1178						integral to membrane					0						GCTGCCGGGCGCTGCTGATGA	0.662													10	67	---	---	---	---	PASS	T	65394885	T	T	65394885	2	4	148	1	0	0	0	0	0	0	0	1	11593	1074	38	1		1	PCNXL3	11	65394885	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	9084872	65394885	69611631	311	52814										
PC	5091	broad.mit.edu	37	chr11	66618590	66618590	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	actgcagtgagtacttggtgCggctggggtcggccacgtcg	17	10	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:66618590C>T	uc001ojn.1	-	15	2193	c.2144G>A	c.(2143-2145)CGC>CAC	p.R715H	PC_uc001ojo.1_Missense_Mutation_p.R715H|PC_uc001ojp.1_Missense_Mutation_p.R715H|PC_uc001ojm.1_5'Flank	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	715	Carboxyltransferase.				gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	GTACTTGGTGCGGCTGGGGTC	0.632													15	81	---	---	---	---	PASS	T	66618590	T	T	66618590	3	4	148	1	0	0	0	0	1	0	0	0	11497	768	27	1	1420	1	PC	11	66618590	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1223705	66618590	68387926	312	52815										
PRKRIR	5612	broad.mit.edu	37	chr11	76062891	76062891	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	caggagttccactaaaatttCaaaagcatcatgcctgcctg	7	11	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:76062891C>G	uc001oxh.1	-	5	1303	c.1303G>C	c.(1303-1305)GAA>CAA	p.E435Q	PRKRIR_uc010rrz.1_Missense_Mutation_p.E260Q	NM_004705	NP_004696	O43422	P52K_HUMAN	protein-kinase, interferon-inducible double	435					negative regulation of cell proliferation|response to stress|signal transduction		DNA binding|metal ion binding|protein dimerization activity			ovary(2)|pancreas(1)	3						ACTAAAATTTCAAAAGCATCA	0.368													12	101	---	---	---	---	PASS	G	76062891	G	G	76062891	3	3	148	1	0	0	0	0	1	0	0	0	12526	835	29	2	986	2	PRKRIR	11	76062891	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	9444301	76062891	58943625	313	52816										
NAALAD2	10003	broad.mit.edu	37	chr11	89907064	89907064	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tggaaaaagacccttcacctGaaaataaaaatttgcctagg	7	8	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:89907064G>T	uc001pdf.3	+	14	1592	c.1483G>T	c.(1483-1485)GAA>TAA	p.E495*	NAALAD2_uc009yvx.2_Nonsense_Mutation_p.E462*|NAALAD2_uc009yvy.2_Intron	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	495	Extracellular (Potential).|NAALADase.				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				CCCTTCACCTGAAAATAAAAA	0.388													32	244	---	---	---	---	PASS	T	89907064	T	T	89907064	4	4	148	1	0	0	0	0	0	1	0	0	10128	1291	45	2	1537	2	NAALAD2	11	89907064	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	13844173	89907064	45099452	314	52817										
FAT3	120114	broad.mit.edu	37	chr11	92534346	92534346	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccattgcagaagatacagccAttgggagtacagtggacacc	11	10	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:92534346A>C	uc001pdj.3	+	9	8184	c.8167A>C	c.(8167-8169)ATT>CTT	p.I2723L		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2723	Extracellular (Potential).|Cadherin 25.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGATACAGCCATTGGGAGTAC	0.478										TCGA Ovarian(4;0.039)			3	94	---	---	---	---	PASS	C	92534346	C	C	92534346	3	2	148	1	0	0	0	0	1	0	0	0	5691	217	8	5	8201	5	FAT3	11	92534346	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	2627282	92534346	42472170	315	52818										
KDM4D	55693	broad.mit.edu	37	chr11	94730904	94730904	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gaatttcgaagatttggagcGaaaatactggaagaaccgca	11	6	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:94730904G>C	uc001pfe.2	+	3	1200	c.368G>C	c.(367-369)CGA>CCA	p.R123P		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	123					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GATTTGGAGCGAAAATACTGG	0.408													27	199	---	---	---	---	PASS	C	94730904	C	C	94730904	3	2	148	1	0	0	0	0	1	0	0	0	8131	1058	37	2	370	2	KDM4D	11	94730904	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2196558	94730904	40275612	316	52819										
USP28	57646	broad.mit.edu	37	chr11	113679872	113679872	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctgctcttcttcccactcctCtacttcctgctcaaaccgcc	3	20	4	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:113679872C>G	uc001poh.2	-	17	2110	c.2077G>C	c.(2077-2079)GAG>CAG	p.E693Q	USP28_uc001pog.2_Missense_Mutation_p.E401Q|USP28_uc010rwy.1_Missense_Mutation_p.E568Q|USP28_uc001poi.2_Missense_Mutation_p.E48Q	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	693					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		TCCCACTCCTCTACTTCCTGC	0.473													120	653	---	---	---	---	PASS	G	113679872	G	G	113679872	3	3	148	1	0	0	0	0	1	0	0	0	17055	922	32	2	1192	2	USP28	11	113679872	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	18948968	113679872	21326644	317	52820										
HTR3B	9177	broad.mit.edu	37	chr11	113815332	113815332	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgcatggccttcttggttctCagcttagctaagtccatcgt	9	11	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:113815332C>G	uc001pok.2	+	8	1012	c.945C>G	c.(943-945)CTC>CTG	p.L315L	HTR3B_uc001pol.2_Silent_p.L304L	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	315	Helical; Name=3; (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		TCTTGGTTCTCAGCTTAGCTA	0.512													13	125	---	---	---	---	PASS	G	113815332	G	G	113815332	2	3	148	1	0	0	0	0	0	0	0	1	7445	813	29	2		2	HTR3B	11	113815332	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	135460	113815332	21191184	318	52821										
FAM55D	54827	broad.mit.edu	37	chr11	114453569	114453569	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggcgctggtggtggtgttcaCgtgggtgaaaggtctgggtg	21	5	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:114453569C>A	uc001ppc.2	-	3	452	c.271G>T	c.(271-273)GTG>TTG	p.V91L	FAM55D_uc001ppd.2_5'UTR	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	91						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		GTGGTGTTCACGTGGGTGAAA	0.507													202	176	---	---	---	---	PASS	A	114453569	A	A	114453569	3	1	148	1	0	0	0	0	1	0	0	0	5587	536	19	1	1379	1	FAM55D	11	114453569	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	638237	114453569	20552947	319	52822										
MLL	4297	broad.mit.edu	37	chr11	118390362	118390362	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtttgaggatgctggggattCtccatgatgcagttgtgttc	14	6	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:118390362C>G	uc001pta.2	+	32	11190	c.11167C>G	c.(11167-11169)CTC>GTC	p.L3723V	MLL_uc001ptb.2_Missense_Mutation_p.L3726V	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3723	FYR C-terminal.				apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GCTGGGGATTCTCCATGATGC	0.493			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								40	239	---	---	---	---	PASS	G	118390362	G	G	118390362	3	3	148	1	0	0	0	0	1	0	0	0	9620	913	32	2	11293	2	MLL	11	118390362	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3936793	118390362	16616154	320	52823										
HSPA8	3312	broad.mit.edu	37	chr11	122931507	122931507	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tccaatcagacgtttggcatCtgtaaaaggtgtcaaatgaa	9	7	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:122931507C>G	uc001pyo.2	-	3	284	c.206_splice	c.e3-1	p.D69_splice	HSPA8_uc009zbc.2_5'Flank|HSPA8_uc001pyp.2_Splice_Site_p.D69_splice|HSPA8_uc010rzu.1_Intron|HSPA8_uc009zbd.1_Splice_Site_p.D69_splice|HSPA8_uc010rzv.1_Splice_Site_p.D69_splice	NM_006597	NP_006588	P11142	HSP7C_HUMAN	heat shock 70kDa protein 8 isoform 1						cellular membrane organization|interspecies interaction between organisms|mRNA metabolic process|negative regulation of transcription, DNA-dependent|neurotransmitter secretion|post-Golgi vesicle-mediated transport|protein folding|response to unfolded protein|transcription, DNA-dependent	cell surface|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|melanosome|plasma membrane|ribonucleoprotein complex	ATP binding|ATPase activity, coupled|protein binding			central_nervous_system(7)|lung(1)	8		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		CGTTTGGCATCTGTAAAAGGT	0.403													5	115	---	---	---	---	PASS	G	122931507	G	G	122931507	5	3	148	1	0	0	0	0	0	0	1	0	7416	927	32	2	1763	2	HSPA8	11	122931507	Splice_Site	SNP	C	TCGA-66-2759-01A-01D-1522-08	4541145	122931507	12075009	321	52824										
OR8D4	338662	broad.mit.edu	37	chr11	123777167	123777167	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aaaaaaccattccacagtgaCtgagtttcttctttcaggat	6	9	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:123777167C>A	uc010saa.1	+	1	29	c.29C>A	c.(28-30)ACT>AAT	p.T10N		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		TCCACAGTGACTGAGTTTCTT	0.403													45	129	---	---	---	---	PASS	A	123777167	A	A	123777167	3	1	148	1	0	0	0	0	1	0	0	0	11233	565	20	3	31	3	OR8D4	11	123777167	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	845660	123777167	11229349	322	52825			1	56		3	3	476	N	G_C	2.886991e-05
OR8D4	338662	broad.mit.edu	37	chr11	123777593	123777593	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggctgctgtcttctcagtagGtttcactgatgctgtgatcc	11	10	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:123777593G>T	uc010saa.1	+	1	455	c.455G>T	c.(454-456)GGT>GTT	p.G152V		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		TTCTCAGTAGGTTTCACTGAT	0.483													60	249	---	---	---	---	PASS	T	123777593	T	T	123777593	3	4	148	1	0	0	0	0	1	0	0	0	11233	1261	44	3	457	3	OR8D4	11	123777593	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	426	123777593	11228923	323	52826			1	56		3	3	476	N	G_C	2.886991e-05
OR8D4	338662	broad.mit.edu	37	chr11	123777642	123777642	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtatactcaggttgtctttCtgtggatcaaacatcattaa	7	7	5	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:123777642C>T	uc010saa.1	+	1	504	c.504C>T	c.(502-504)TTC>TTT	p.F168F		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		GGTTGTCTTTCTGTGGATCAA	0.418													156	322	---	---	---	---	PASS	T	123777642	T	T	123777642	2	4	148	1	0	0	0	0	0	0	0	1	11233	912	32	2		2	OR8D4	11	123777642	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	49	123777642	11228874	324	52827			1	56		3	3	476	N	G_C	2.886991e-05
VWA5A	4013	broad.mit.edu	37	chr11	124007928	124007928	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcatagggacgtcccaaggcCaattctgttgggtgcttctg	12	10	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:124007928C>A	uc001pzu.2	+	15	2041	c.1832C>A	c.(1831-1833)CCA>CAA	p.P611Q	VWA5A_uc001pzt.2_Missense_Mutation_p.P611Q	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	611										upper_aerodigestive_tract(1)|ovary(1)	2						GTCCCAAGGCCAATTCTGTTG	0.438													17	130	---	---	---	---	PASS	A	124007928	A	A	124007928	3	1	148	1	0	0	0	0	1	0	0	0	17239	594	21	3	1886	3	VWA5A	11	124007928	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	230286	124007928	10998588	325	52828										
OR8B4	283162	broad.mit.edu	37	chr11	124294691	124294691	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctaagaatagaaggaaaagaGggagctggagctctggctgt	15	5	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:124294691G>T	uc010sak.1	-	1	77	c.77C>A	c.(76-78)CCT>CAT	p.P26H		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	26	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		AAGGAAAAGAGGGAGCTGGAG	0.488													29	75	---	---	---	---	PASS	T	124294691	T	T	124294691	3	4	148	1	0	0	0	0	1	0	0	0	11229	1000	35	3	854	3	OR8B4	11	124294691	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	286763	124294691	10711825	326	52829										
OR8A1	390275	broad.mit.edu	37	chr11	124440531	124440531	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctgccctattgtgagcacctCatcagtcactacttctgtga	7	13	4	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:124440531C>G	uc010san.1	+	1	567	c.567C>G	c.(565-567)CTC>CTG	p.L189L		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		GTGAGCACCTCATCAGTCACT	0.498													48	161	---	---	---	---	PASS	G	124440531	G	G	124440531	2	3	148	1	0	0	0	0	0	0	0	1	11225	813	29	2		2	OR8A1	11	124440531	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	145840	124440531	10565985	327	52830										
OR8A1	390275	broad.mit.edu	37	chr11	124440627	124440627	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtcttcttttcggctggattCaacatcatagtcacgagctt	8	10	5	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:124440627C>T	uc010san.1	+	1	663	c.663C>T	c.(661-663)TTC>TTT	p.F221F		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	221	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		CGGCTGGATTCAACATCATAG	0.473													38	133	---	---	---	---	PASS	T	124440627	T	T	124440627	2	4	148	1	0	0	0	0	0	0	0	1	11225	825	29	2		2	OR8A1	11	124440627	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	96	124440627	10565889	328	52831										
PANX3	116337	broad.mit.edu	37	chr11	124481499	124481499	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtacatgctctcagatgcccTgctgcctgaccgcaggggac	12	14	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:124481499T>C	uc001qah.2	+	1	47	c.47T>C	c.(46-48)CTG>CCG	p.L16P		NM_052959	NP_443191	Q96QZ0	PANX3_HUMAN	pannexin 3	16	Cytoplasmic (Potential).				protein hexamerization	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0219)		TCAGATGCCCTGCTGCCTGAC	0.617													9	56	---	---	---	---	PASS	C	124481499	C	C	124481499	3	2	148	1	0	0	0	0	1	0	0	0	11422	1580	55	5	49	5	PANX3	11	124481499	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	40872	124481499	10525017	329	52832										
C11orf61	79684	broad.mit.edu	37	chr11	124637400	124637400	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aaagggtttccaggtcaaccCggccctcttttcctgggtcc	10	14	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:124637400C>A	uc001qba.1	-	4	1375	c.1352G>T	c.(1351-1353)CGG>CTG	p.R451L	C11orf61_uc001qaz.1_Missense_Mutation_p.R399L|C11orf61_uc010sap.1_Missense_Mutation_p.R171L|C11orf61_uc001qay.1_Missense_Mutation_p.R221L	NM_024631	NP_078907	Q6P1R3	CK061_HUMAN	hypothetical protein LOC79684	451											0	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0079)		CAGGTCAACCCGGCCCTCTTT	0.507													197	178	---	---	---	---	PASS	A	124637400	A	A	124637400	3	1	148	1	0	0	0	0	1	0	0	0	1653	652	23	1	331	1	C11orf61	11	124637400	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	155901	124637400	10369116	330	52833										
WNK1	65125	broad.mit.edu	37	chr12	992672	992672	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aggatgtcagtgtggaaccaGagggtgatcagggattggag	18	4	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:992672G>C	uc001qio.3	+	16	4108	c.3601G>C	c.(3601-3603)GAG>CAG	p.E1201Q	WNK1_uc001qip.3_Missense_Mutation_p.E954Q|WNK1_uc001qir.3_Missense_Mutation_p.E374Q	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1201					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			TGTGGAACCAGAGGGTGATCA	0.423													32	142	---	---	---	---	PASS	C	992672	C	C	992672	3	2	148	1	0	0	0	0	1	0	0	0	17374	943	33	2	5165	2	WNK1	12	992672	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08		992672	132859223	331	52834										
WNK1	65125	broad.mit.edu	37	chr12	1005368	1005368	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agtccagagagtaccttggtGaaaccagagccgaatggcat	12	9	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:1005368G>C	uc001qio.3	+	24	6222	c.5715G>C	c.(5713-5715)GTG>GTC	p.V1905V	WNK1_uc001qip.3_Silent_p.V1657V|WNK1_uc001qir.3_Silent_p.V1078V	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1905					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GTACCTTGGTGAAACCAGAGC	0.473													24	91	---	---	---	---	PASS	C	1005368	C	C	1005368	2	2	148	1	0	0	0	0	0	0	0	1	17374	1277	45	2		2	WNK1	12	1005368	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	12696	1005368	132846527	332	52835										
TSPAN9	10867	broad.mit.edu	37	chr12	3389621	3389621	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cgagaacaacgtggggctgaAgaacgcctggaacatcatcc	12	11	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:3389621A>G	uc001qlp.2	+	6	551	c.404A>G	c.(403-405)AAG>AGG	p.K135R		NM_006675	NP_006666	O75954	TSN9_HUMAN	tetraspanin 9	135	Extracellular (Potential).					integral to plasma membrane|membrane fraction				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00153)|COAD - Colon adenocarcinoma(12;0.0831)			GTGGGGCTGAAGAACGCCTGG	0.647													18	29	---	---	---	---	PASS	G	3389621	G	G	3389621	3	3	148	1	0	0	0	0	1	0	0	0	16651	72	3	5	418	5	TSPAN9	12	3389621	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	2384253	3389621	130462274	333	52836										
KCNA5	3741	broad.mit.edu	37	chr12	5153871	5153871	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cagtccgggggccgcctgcgGaggccggtcaacgtctccct	15	16	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:5153871G>A	uc001qni.2	+	1	787	c.558G>A	c.(556-558)CGG>CGA	p.R186R		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	186						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity	p.R186R(1)		ovary(2)|breast(2)	4						GCCGCCTGCGGAGGCCGGTCA	0.637													10	52	---	---	---	---	PASS	A	5153871	A	A	5153871	2	1	148	1	0	0	0	0	0	0	0	1	8006	1161	41	2		2	KCNA5	12	5153871	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	1764250	5153871	128698024	334	52837										
FAM90A1	55138	broad.mit.edu	37	chr12	8376803	8376803	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccaaaggcctcacagtttttGcacttgagctgtgggtggaa	12	9	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:8376803G>T	uc001qui.2	-	5	691	c.132C>A	c.(130-132)TGC>TGA	p.C44*	FAM90A1_uc001quh.2_Nonsense_Mutation_p.C44*	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	44							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		CACAGTTTTTGCACTTGAGCT	0.542													33	106	---	---	---	---	PASS	T	8376803	T	T	8376803	4	4	148	1	0	0	0	0	0	1	0	0	5650	1311	46	3	1274	3	FAM90A1	12	8376803	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	3222932	8376803	125475092	335	52838										
ATF7IP	55729	broad.mit.edu	37	chr12	14633984	14633984	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtccagtaactcaggtgaccAcaagactccctgtaccaaga	8	13	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:14633984A>C	uc001rbw.2	+	13	3303	c.3145A>C	c.(3145-3147)ACA>CCA	p.T1049P	ATF7IP_uc001rbv.1_Missense_Mutation_p.T1048P|ATF7IP_uc001rbx.2_Missense_Mutation_p.T1048P|ATF7IP_uc001rby.3_Missense_Mutation_p.T1049P|ATF7IP_uc001rca.2_Missense_Mutation_p.T1049P	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1049					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						TCAGGTGACCACAAGACTCCC	0.458													69	124	---	---	---	---	PASS	C	14633984	C	C	14633984	3	2	148	1	0	0	0	0	1	0	0	0	1087	159	6	5	3191	5	ATF7IP	12	14633984	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	6257181	14633984	119217911	336	52839										
SLCO1B1	10599	broad.mit.edu	37	chr12	21377756	21377756	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cgtgggtcatgtaggacataTaattccacatcattttcgta	8	8	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:21377756T>C	uc001req.3	+	14	1952	c.1848T>C	c.(1846-1848)TAT>TAC	p.Y616Y		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	616	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	GTAGGACATATAATTCCACAT	0.303													58	62	---	---	---	---	PASS	C	21377756	C	C	21377756	2	2	148	1	0	0	0	0	0	0	0	1	14723	1413	49	5		5	SLCO1B1	12	21377756	Silent	SNP	T	TCGA-66-2759-01A-01D-1522-08	6743772	21377756	112474139	337	52840										
GOLT1B	51026	broad.mit.edu	37	chr12	21661455	21661455	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttattggttggcctttgataGgcatgatcttcgaaatttat	9	5	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:21661455G>T	uc001rez.2	+	3	415	c.256G>T	c.(256-258)GGC>TGC	p.G86C	GOLT1B_uc009zis.2_RNA|GOLT1B_uc009zit.2_RNA|GOLT1B_uc009ziu.2_Intron	NM_016072	NP_057156	Q9Y3E0	GOT1B_HUMAN	golgi transport 1 homolog B	86	Phe-rich.|Helical; Name=3; (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade|protein transport|vesicle-mediated transport	endoplasmic reticulum|Golgi membrane|integral to membrane	signal transducer activity				0						GCCTTTGATAGGCATGATCTT	0.333													52	101	---	---	---	---	PASS	T	21661455	T	T	21661455	3	4	148	1	0	0	0	0	1	0	0	0	6571	1000	35	3	266	3	GOLT1B	12	21661455	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	283699	21661455	112190440	338	52841										
TSPAN11	441631	broad.mit.edu	37	chr12	31144836	31144836	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcttgcaccagaggctccagCggcatttttactaatggcca	10	12	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:31144836C>T	uc010sju.1	+	8	1128	c.748C>T	c.(748-750)CGG>TGG	p.R250W	TSPAN11_uc001rjp.2_Missense_Mutation_p.R250W|TSPAN11_uc010sjv.1_Missense_Mutation_p.R240W	NM_001080509	NP_001073978	A1L157	TSN11_HUMAN	tetraspanin 11	250						integral to membrane					0	all_lung(12;3.11e-10)|Lung NSC(12;5.24e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					GAGGCTCCAGCGGCATTTTTA	0.552													16	63	---	---	---	---	PASS	T	31144836	T	T	31144836	3	4	148	1	0	0	0	0	1	0	0	0	16632	759	27	1	774	1	TSPAN11	12	31144836	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	9483381	31144836	102707059	339	52842										
PPHLN1	51535	broad.mit.edu	37	chr12	42836533	42836534	+	Frame_Shift_Ins	INS	-	A	A													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gaaaacgaaggcgaagagacINStgcgcagtcagtaagtcatt					rs143861840		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:42836533_42836534insA	uc001rng.1	+	11	1220_1221	c.1115_1116insA	c.(1114-1116)ACTfs	p.T372fs	PPHLN1_uc010skr.1_Frame_Shift_Ins_p.T317fs|PPHLN1_uc010sks.1_Frame_Shift_Ins_p.T298fs|PPHLN1_uc010skt.1_Frame_Shift_Ins_p.T252fs|PPHLN1_uc001rni.1_Frame_Shift_Ins_p.T317fs|PPHLN1_uc001rnh.1_RNA|PPHLN1_uc010sku.1_Intron	NM_016488	NP_057572	Q8NEY8	PPHLN_HUMAN	periphilin 1 isoform 1	372					keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)		ggcgaagagactgcgcagtcag	0.01													145	89	---	---	---	---		A	42836534	A	A	42836533	7	5	148	1	0	1	1	0	0	0	0	0	12315	565	20	0	1270	0	PPHLN1	12	42836533	Frame_Shift_Ins	INS	-	TCGA-66-2759-01A-01D-1522-08	11691697	42836533	91015362	340	52843										
ADAMTS20	80070	broad.mit.edu	37	chr12	43822454	43822454	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttacgggtgaccaatcccctGcttgccactctccacaaggg	9	15	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:43822454G>A	uc010skx.1	-	25	3638	c.3638C>T	c.(3637-3639)GCA>GTA	p.A1213V	ADAMTS20_uc001rno.1_Missense_Mutation_p.A331V|ADAMTS20_uc001rnp.1_Missense_Mutation_p.A367V	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1213	TSP type-1 8.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CCAATCCCCTGCTTGCCACTC	0.343													30	33	---	---	---	---	PASS	A	43822454	A	A	43822454	3	1	148	1	0	0	0	0	1	0	0	0	266	1319	46	3	2153	3	ADAMTS20	12	43822454	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	985921	43822454	90029441	341	52844										
ITGA5	3678	broad.mit.edu	37	chr12	54799710	54799710	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgagccattaaggatggtgaCctgggagatgaagagatagg	16	4	0	5			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:54799710C>A	uc001sga.2	-	10	975	c.907G>T	c.(907-909)GTC>TTC	p.V303F	ITGA5_uc010sow.1_RNA|ITGA5_uc009znp.1_RNA	NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	303	Extracellular (Potential).|FG-GAP 4.				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						AGGATGGTGACCTGGGAGATG	0.522													26	96	---	---	---	---	PASS	A	54799710	A	A	54799710	3	1	148	1	0	0	0	0	1	0	0	0	7879	521	18	3	2326	3	ITGA5	12	54799710	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	10977256	54799710	79052185	342	52845										
OR9K2	441639	broad.mit.edu	37	chr12	55524230	55524230	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	catagaatgatatctttttcCttatcatgtattattatctt	3	6	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:55524230C>T	uc010spe.1	+	1	678	c.678C>T	c.(676-678)TCC>TCT	p.S226S		NM_001005243	NP_001005243	Q8NGE7	OR9K2_HUMAN	olfactory receptor, family 9, subfamily K,	226	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						TATCTTTTTCCTTATCATGTA	0.363													38	124	---	---	---	---	PASS	T	55524230	T	T	55524230	2	4	148	1	0	0	0	0	0	0	0	1	11254	668	24	3		3	OR9K2	12	55524230	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	724520	55524230	78327665	343	52846										
GLIPR1L1	256710	broad.mit.edu	37	chr12	75741445	75741445	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtcggttgtgcagttgcaaTgtgtcctaaccttgggggag	15	7	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:75741445T>C	uc001sxo.2	+	3	510	c.464T>C	c.(463-465)ATG>ACG	p.M155T	CAPS2_uc001sxm.3_Intron|CAPS2_uc009zsa.2_Intron|GLIPR1L1_uc001sxn.2_Missense_Mutation_p.M155T	NM_152779	NP_689992	Q6UWM5	GPRL1_HUMAN	GLI pathogenesis-related 1 like 1	155						extracellular region					0						GCAGTTGCAATGTGTCCTAAC	0.333													36	176	---	---	---	---	PASS	C	75741445	C	C	75741445	3	2	148	1	0	0	0	0	1	0	0	0	6442	1464	51	5	474	5	GLIPR1L1	12	75741445	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	20217215	75741445	58110450	344	52847										
GLIPR1L2	144321	broad.mit.edu	37	chr12	75804237	75804237	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgggatgtagctttatcacgGactgctagagcatggggaaa	14	6	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:75804237G>A	uc001sxr.1	+	2	266	c.258G>A	c.(256-258)CGG>CGA	p.R86R	GLIPR1L2_uc001sxp.1_Silent_p.R86R|GLIPR1L2_uc001sxq.1_5'UTR	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	86						integral to membrane				ovary(1)	1						CTTTATCACGGACTGCTAGAG	0.284													41	71	---	---	---	---	PASS	A	75804237	A	A	75804237	2	1	148	1	0	0	0	0	0	0	0	1	6443	1161	41	2		2	GLIPR1L2	12	75804237	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	62792	75804237	58047658	345	52848										
ZDHHC17	23390	broad.mit.edu	37	chr12	77222220	77222220	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	attgccccttgggatatattTggcaaccaaattctggatgt	9	8	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:77222220T>C	uc001syk.1	+	10	1254	c.1091T>C	c.(1090-1092)TTG>TCG	p.L364S		NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	364	Helical; (Potential).				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						GGGATATATTTGGCAACCAAA	0.313													96	371	---	---	---	---	PASS	C	77222220	C	C	77222220	3	2	148	1	0	0	0	0	1	0	0	0	17604	1821	63	5	1129	5	ZDHHC17	12	77222220	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	1417983	77222220	56629675	346	52849										
LIN7A	8825	broad.mit.edu	37	chr12	81205391	81205391	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acttttggggtgtatcgcacCaccagcttgacgctgtcttt	10	11	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:81205391C>A	uc001szj.1	-	5	748	c.555G>T	c.(553-555)GTG>GTT	p.V185V	LIN7A_uc001szk.1_RNA	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	185	PDZ.				exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						TGTATCGCACCACCAGCTTGA	0.463													22	116	---	---	---	---	PASS	A	81205391	A	A	81205391	2	1	148	1	0	0	0	0	0	0	0	1	8810	581	21	3		3	LIN7A	12	81205391	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	3983171	81205391	52646504	347	52850										
SPIC	121599	broad.mit.edu	37	chr12	101873408	101873408	+	Missense_Mutation	SNP	G	T	T													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccatcgtcctcatgtcaaagGaaattccagctgctatggag							TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:101873408G>T	uc001tid.2	+	4	305	c.146G>T	c.(145-147)GGA>GTA	p.G49V	SPIC_uc009zua.2_5'UTR|SPIC_uc010svp.1_Missense_Mutation_p.G48V	NM_152323	NP_689536	Q8N5J4	SPIC_HUMAN	Spi-C transcription factor (Spi-1/PU.1 related)	49						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						CATGTCAAAGGAAATTCCAGC	0.363													44	52	---	---	---	---	PASS	T	101873408	T	T	101873408	3	4	148	1	0	0	0	0	1	0	0	0	15050	1174	41	2	150	2	SPIC	12	101873408	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	20668017	101873408	31978487	348	52851	966	2								
SPIC	121599	broad.mit.edu	37	chr12	101873409	101873409	+	Silent	SNP	A	T	T													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	catcgtcctcatgtcaaaggAaattccagctgctatggagt							TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:101873409A>T	uc001tid.2	+	4	306	c.147A>T	c.(145-147)GGA>GGT	p.G49G	SPIC_uc009zua.2_5'UTR|SPIC_uc010svp.1_Silent_p.G48G	NM_152323	NP_689536	Q8N5J4	SPIC_HUMAN	Spi-C transcription factor (Spi-1/PU.1 related)	49						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						ATGTCAAAGGAAATTCCAGCT	0.358													45	54	---	---	---	---	PASS	T	101873409	T	T	101873409	2	4	148	1	0	0	0	0	0	0	0	1	15050	233	9	5		5	SPIC	12	101873409	Silent	SNP	A	TCGA-66-2759-01A-01D-1522-08	1	101873409	31978486	349	52852	966	2								
C12orf48	55010	broad.mit.edu	37	chr12	102589768	102589768	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tggaagatcaacaattggaaCgagttttggaaatgttcatc	10	5	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:102589768C>T	uc001tjf.2	+	11	1551	c.1439C>T	c.(1438-1440)ACG>ATG	p.T480M	C12orf48_uc001tjg.2_Missense_Mutation_p.T399M|C12orf48_uc010swa.1_Missense_Mutation_p.T557M|C12orf48_uc001tjh.2_Missense_Mutation_p.T399M|C12orf48_uc010swb.1_Silent_p.N173N|C12orf48_uc009zuc.2_Missense_Mutation_p.T34M|C12orf48_uc001tjj.2_Missense_Mutation_p.T195M|C12orf48_uc001tjk.2_3'UTR|C12orf48_uc009zud.2_Silent_p.N287N	NM_017915	NP_060385	Q9NWS1	PR1BP_HUMAN	hypothetical protein LOC55010	480					response to DNA damage stimulus	cytoplasm|nucleus	DNA binding				0						ACAATTGGAACGAGTTTTGGA	0.338													14	37	---	---	---	---	PASS	T	102589768	T	T	102589768	3	4	148	1	0	0	0	0	1	0	0	0	1692	536	19	1	1230	1	C12orf48	12	102589768	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	716359	102589768	31262127	350	52853										
STAB2	55576	broad.mit.edu	37	chr12	104067755	104067755	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcctgcctcactggcacatgCagagacggctctgccgggag	14	14	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:104067755C>A	uc001tjw.2	+	23	2628	c.2442C>A	c.(2440-2442)TGC>TGA	p.C814*		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	814	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTGGCACATGCAGAGACGGCT	0.567													10	62	---	---	---	---	PASS	A	104067755	A	A	104067755	4	1	148	1	0	0	0	0	0	1	0	0	15237	718	25	3	2532	3	STAB2	12	104067755	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1477987	104067755	29784140	351	52854										
CRY1	1407	broad.mit.edu	37	chr12	107486612	107486612	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgatgcccacattggaggagCcggcgaaccaggggtccagg	16	11	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:107486612C>G	uc001tmi.3	-	1	987	c.128G>C	c.(127-129)GGC>GCC	p.G43A		NM_004075	NP_004066	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	43	DNA photolyase.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			ovary(3)	3						ATTGGAGGAGCCGGCGAACCA	0.577											OREG0022082	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	15	---	---	---	---	PASS	G	107486612	G	G	107486612	3	3	148	1	0	0	0	0	1	0	0	0	3903	739	26	4	1680	4	CRY1	12	107486612	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3418857	107486612	26365283	352	52855										
CUX2	23316	broad.mit.edu	37	chr12	111748470	111748470	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtactggcgctcaggaccatCcaagtgcggcagcgaggtga	15	11	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:111748470C>T	uc001tsa.1	+	15	2037	c.1884C>T	c.(1882-1884)ATC>ATT	p.I628I		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	628	CUT 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						TCAGGACCATCCAAGTGCGGC	0.517													22	35	---	---	---	---	PASS	T	111748470	T	T	111748470	2	4	148	1	0	0	0	0	0	0	0	1	4065	845	30	2		2	CUX2	12	111748470	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	4261858	111748470	22103425	353	52856										
ATXN2	6311	broad.mit.edu	37	chr12	111926308	111926308	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtctttcttctcttccttatCgtctttctcttgtttacatg	4	11	5	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:111926308C>A	uc001tsj.2	-	15	2854	c.2692G>T	c.(2692-2694)GAT>TAT	p.D898Y	ATXN2_uc001tsh.2_Missense_Mutation_p.D633Y|ATXN2_uc001tsi.2_Missense_Mutation_p.D609Y|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Missense_Mutation_p.D84Y	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	898					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						TCTTCCTTATCGTCTTTCTCT	0.433													23	107	---	---	---	---	PASS	A	111926308	A	A	111926308	3	1	148	1	0	0	0	0	1	0	0	0	1211	884	31	2	1293	2	ATXN2	12	111926308	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	177838	111926308	21925587	354	52857										
MAPKAPK5	8550	broad.mit.edu	37	chr12	112321495	112321495	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccaaaggatatgcgaagaaaGatcatgacaggcagttttga	11	6	1	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:112321495G>C	uc001tta.2	+	9	1030	c.771G>C	c.(769-771)AAG>AAC	p.K257N	MAPKAPK5_uc001tsz.2_Missense_Mutation_p.K257N|MAPKAPK5_uc001ttb.2_Missense_Mutation_p.K190N	NM_139078	NP_620777	Q8IW41	MAPK5_HUMAN	MAP kinase-activated protein kinase 5 isoform 2	257	Protein kinase.				signal transduction	cytoplasm|nucleus	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)	3						TGCGAAGAAAGATCATGACAG	0.498													61	213	---	---	---	---	PASS	C	112321495	C	C	112321495	3	2	148	1	0	0	0	0	1	0	0	0	9291	933	33	2	805	2	MAPKAPK5	12	112321495	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	395187	112321495	21530400	355	52858										
MAPKAPK5	8550	broad.mit.edu	37	chr12	112321523	112321523	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	caggcagttttgagttcccaGaggaagagtggagtcagatc	14	7	1	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:112321523G>A	uc001tta.2	+	9	1058	c.799G>A	c.(799-801)GAG>AAG	p.E267K	MAPKAPK5_uc001tsz.2_Missense_Mutation_p.E267K|MAPKAPK5_uc001ttb.2_Missense_Mutation_p.E200K	NM_139078	NP_620777	Q8IW41	MAPK5_HUMAN	MAP kinase-activated protein kinase 5 isoform 2	267	Protein kinase.				signal transduction	cytoplasm|nucleus	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)	3						TGAGTTCCCAGAGGAAGAGTG	0.527													44	155	---	---	---	---	PASS	A	112321523	A	A	112321523	3	1	148	1	0	0	0	0	1	0	0	0	9291	943	33	2	833	2	MAPKAPK5	12	112321523	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	28	112321523	21530372	356	52859										
OAS3	4940	broad.mit.edu	37	chr12	113384716	113384716	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atcagcacctgtgtgttttcTggactgtcaactatggcttc	9	10	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:113384716T>A	uc001tug.2	+	4	892	c.805T>A	c.(805-807)TGG>AGG	p.W269R		NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	269	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						GTGTGTTTTCTGGACTGTCAA	0.562													25	34	---	---	---	---	PASS	A	113384716	A	A	113384716	3	1	148	1	0	0	0	0	1	0	0	0	10801	1580	55	5	819	5	OAS3	12	113384716	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	1063193	113384716	20467179	357	52860										
PLBD2	196463	broad.mit.edu	37	chr12	113812701	113812701	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cctgttctgccctcatcaagCtgctccctggccagagtgac	9	16	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:113812701C>T	uc001tve.2	+	5	783	c.748C>T	c.(748-750)CTG>TTG	p.L250L	PLBD2_uc001tvf.2_Silent_p.L250L	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	250					lipid catabolic process	lysosomal lumen	hydrolase activity				0						CCTCATCAAGCTGCTCCCTGG	0.577													19	130	---	---	---	---	PASS	T	113812701	T	T	113812701	2	4	148	1	0	0	0	0	0	0	0	1	12026	796	28	3		3	PLBD2	12	113812701	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	427985	113812701	20039194	358	52861										
CLIP1	6249	broad.mit.edu	37	chr12	122832004	122832004	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gttcaagctccttaatgcggGcatgctccagtttggtctgc	11	11	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:122832004G>A	uc001ucg.1	-	9	1530	c.1424C>T	c.(1423-1425)GCC>GTC	p.A475V	CLIP1_uc001uch.1_Missense_Mutation_p.A464V|CLIP1_uc001uci.1_Intron|CLIP1_uc001ucj.1_Missense_Mutation_p.A165V|CLIP1_uc009zxo.1_Intron	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	475	Potential.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		CTTAATGCGGGCATGCTCCAG	0.478													5	305	---	---	---	---	PASS	A	122832004	A	A	122832004	3	1	148	1	0	0	0	0	1	0	0	0	3532	1203	42	3	2960	3	CLIP1	12	122832004	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	9019303	122832004	11019891	359	52862										
RILPL1	353116	broad.mit.edu	37	chr12	123970353	123970353	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcctctcccaccggctccgtCtggaggaggcagagatgctg	13	14	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:123970353C>G	uc001ufe.2	-	5	1038	c.802_splice	c.e5-1	p.T268_splice	RILPL1_uc001ufd.2_Splice_Site_p.T117_splice|RILPL1_uc010tas.1_Splice_Site_p.T268_splice	NM_178314	NP_847884	Q5EBL4	RIPL1_HUMAN	Rab interacting lysosomal protein-like 1						neuroprotection	cytosol					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.00067)|all cancers(50;0.00836)|BRCA - Breast invasive adenocarcinoma(302;0.197)		CCGGCTCCGTCTGGAGGAGGC	0.627													8	25	---	---	---	---	PASS	G	123970353	G	G	123970353	5	3	148	1	0	0	0	0	0	0	1	0	13361	927	32	2	422	2	RILPL1	12	123970353	Splice_Site	SNP	C	TCGA-66-2759-01A-01D-1522-08	1138349	123970353	9881542	360	52863										
SACS	26278	broad.mit.edu	37	chr13	23913541	23913541	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atcaatcaagaaactgcattCtgttgcatttgcatcatcag	6	9	5	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:23913541C>G	uc001uon.2	-	10	5063	c.4474G>C	c.(4474-4476)GAA>CAA	p.E1492Q	SACS_uc001uoo.2_Missense_Mutation_p.E1345Q|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1492					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AAACTGCATTCTGTTGCATTT	0.378													64	47	---	---	---	---	PASS	G	23913541	G	G	23913541	3	3	148	1	0	0	0	0	1	0	0	0	13804	922	32	2	9269	2	SACS	13	23913541	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08		23913541	91256337	361	52864										
CPB2	1361	broad.mit.edu	37	chr13	46641480	46641480	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ataaccatccacattaaccaCtggcataacatagaaatcca	3	12	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:46641480C>T	uc001vaw.2	-	7	731	c.664G>A	c.(664-666)GTG>ATG	p.V222M	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Intron	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	222					blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		ACATTAACCACTGGCATAACA	0.363													5	33	---	---	---	---	PASS	T	46641480	T	T	46641480	3	4	148	1	0	0	0	0	1	0	0	0	3797	565	20	3	627	3	CPB2	13	46641480	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	22727939	46641480	68528398	362	52865										
RCBTB1	55213	broad.mit.edu	37	chr13	50115024	50115024	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	taagttacctctgcatcataTctgactgcagcagagaatag	8	9	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:50115024T>G	uc001vde.1	-	12	1704	c.1443A>C	c.(1441-1443)AGA>AGC	p.R481S		NM_018191	NP_060661	Q8NDN9	RCBT1_HUMAN	regulator of chromosome condensation (RCC1) and	481	BTB 2.				cell cycle|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(1)	1		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)		CTGCATCATATCTGACTGCAG	0.433													24	63	---	---	---	---	PASS	G	50115024	G	G	50115024	3	3	148	1	0	0	0	0	1	0	0	0	13171	1432	50	5	160	5	RCBTB1	13	50115024	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	3473544	50115024	65054854	363	52866										
NEK5	341676	broad.mit.edu	37	chr13	52682506	52682506	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctctggggacaggtagtaagGtgttccaatacaagttcgag	13	7	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:52682506G>A	uc001vge.2	-	8	642	c.502C>T	c.(502-504)CCT>TCT	p.P168S	NEK5_uc001vgf.2_Missense_Mutation_p.P168S	NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	168	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		AGGTAGTAAGGTGTTCCAATA	0.333													41	54	---	---	---	---	PASS	A	52682506	A	A	52682506	3	1	148	1	0	0	0	0	1	0	0	0	10327	1261	44	3	1684	3	NEK5	13	52682506	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2567482	52682506	62487372	364	52867										
PCCA	5095	broad.mit.edu	37	chr13	100955223	100955223	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	catctattgggagattgtctCagtaccaagaaccgttacat	8	9	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:100955223C>G	uc001voo.2	+	14	1293	c.1255C>G	c.(1255-1257)CAG>GAG	p.Q419E	PCCA_uc010aga.2_Missense_Mutation_p.Q393E|PCCA_uc010tiz.1_Missense_Mutation_p.Q419E|PCCA_uc001vop.2_RNA	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	419	Biotin carboxylation.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	GAGATTGTCTCAGTACCAAGA	0.373													38	67	---	---	---	---	PASS	G	100955223	G	G	100955223	3	3	148	1	0	0	0	0	1	0	0	0	11504	827	29	2	1309	2	PCCA	13	100955223	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	48272717	100955223	14214655	365	52868										
NALCN	259232	broad.mit.edu	37	chr13	101763018	101763018	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cccctgctgatcctctggctGtttgatccatgtcttagtga	9	12	2	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:101763018G>C	uc001vox.1	-	20	2505	c.2316C>G	c.(2314-2316)AAC>AAG	p.N772K		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	772	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TCCTCTGGCTGTTTGATCCAT	0.373													29	56	---	---	---	---	PASS	C	101763018	C	C	101763018	3	2	148	1	0	0	0	0	1	0	0	0	10148	1368	48	4	3000	4	NALCN	13	101763018	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	807795	101763018	13406860	366	52869										
NALCN	259232	broad.mit.edu	37	chr13	101881796	101881796	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cgacaaagcagaacatctgcAaactaattgctgacataaca	6	10	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:101881796A>G	uc001vox.1	-	13	1763	c.1574T>C	c.(1573-1575)TTG>TCG	p.L525S	NALCN_uc001voy.2_Missense_Mutation_p.L240S|NALCN_uc001voz.2_Missense_Mutation_p.L525S|NALCN_uc001vpa.2_Missense_Mutation_p.L525S	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	525	Helical; Name=S5 of repeat II; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GAACATCTGCAAACTAATTGC	0.353													11	96	---	---	---	---	PASS	G	101881796	G	G	101881796	3	3	148	1	0	0	0	0	1	0	0	0	10148	131	5	5	3770	5	NALCN	13	101881796	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	118778	101881796	13288082	367	52870										
FGF14	2259	broad.mit.edu	37	chr13	102527585	102527585	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcgagagctccatcggggtgCatttgcaagtagtagccttg	13	9	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:102527585C>A	uc001vpe.2	-	2	255	c.255G>T	c.(253-255)ATG>ATT	p.M85I	FGF14_uc001vpf.2_Missense_Mutation_p.M90I	NM_004115	NP_004106	Q92915	FGF14_HUMAN	fibroblast growth factor 14 isoform 1A	85					cell death|cell-cell signaling|JNK cascade|nervous system development|signal transduction	nucleus	growth factor activity|heparin binding	p.G85G(1)		ovary(2)|lung(1)|large_intestine(1)	4	all_neural(89;0.0239)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CATCGGGGTGCATTTGCAAGT	0.458													15	44	---	---	---	---	PASS	A	102527585	A	A	102527585	3	1	148	1	0	0	0	0	1	0	0	0	5843	710	25	3	504	3	FGF14	13	102527585	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	645789	102527585	12642293	368	52871										
COL4A1	1282	broad.mit.edu	37	chr13	110839513	110839513	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccttggggccaggaagacccGgatggccatctcttccagga	13	13	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:110839513G>T	uc001vqw.3	-	25	1822	c.1700C>A	c.(1699-1701)CCG>CAG	p.P567Q	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	567	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			AGGAAGACCCGGATGGCCATC	0.517													33	103	---	---	---	---	PASS	T	110839513	T	T	110839513	3	4	148	1	0	0	0	0	1	0	0	0	3689	1116	39	1	3421	1	COL4A1	13	110839513	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	8311928	110839513	4330365	369	52872										
GAS6	2621	broad.mit.edu	37	chr13	114541079	114541079	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcagaggagagctcgaagccGctgtggcaggaacagtggaa	16	8	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:114541079G>C	uc001vud.2	-	6	705	c.552C>G	c.(550-552)AGC>AGG	p.S184R	GAS6_uc001vuf.2_5'Flank	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	184	EGF-like 2; calcium-binding (Potential).				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				GCTCGAAGCCGCTGTGGCAGG	0.587													17	30	---	---	---	---	PASS	C	114541079	C	C	114541079	3	2	148	1	0	0	0	0	1	0	0	0	6249	1078	38	4	1524	4	GAS6	13	114541079	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	3701566	114541079	628799	370	52873										
RNASE3	6037	broad.mit.edu	37	chr14	21360108	21360108	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttgtggtaaccaaagtatacGctgccctcataacagaactc	7	11	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:21360108G>A	uc001vyj.2	+	2	317	c.263G>A	c.(262-264)CGC>CAC	p.R88H		NM_002935	NP_002926	P12724	ECP_HUMAN	ribonuclease, RNase A family, 3 (eosinophil	88					defense response to bacterium|RNA catabolic process	extracellular region|soluble fraction	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00453)		OV - Ovarian serous cystadenocarcinoma(11;6.3e-09)|Epithelial(56;1.42e-07)|all cancers(55;5.48e-07)	GBM - Glioblastoma multiforme(265;0.0187)	Pranlukast(DB01411)	CAAAGTATACGCTGCCCTCAT	0.398													35	150	---	---	---	---	PASS	A	21360108	A	A	21360108	3	1	148	1	0	0	0	0	1	0	0	0	13405	1087	38	1	265	1	RNASE3	14	21360108	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08		21360108	85989432	371	52874										
HNRNPC	3183	broad.mit.edu	37	chr14	21679612	21679612	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atcatcatccagtaggtcccCctcctcagcagagtcatctg	7	15	5	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:21679612C>A	uc001vzy.2	-	8	1034	c.790G>T	c.(790-792)GGG>TGG	p.G264W	HNRNPC_uc001vzw.2_Missense_Mutation_p.G251W|HNRNPC_uc001wad.2_Missense_Mutation_p.G184W|HNRNPC_uc001vzx.2_RNA|HNRNPC_uc001vzz.2_Missense_Mutation_p.G251W|HNRNPC_uc001waa.2_Missense_Mutation_p.G264W|HNRNPC_uc010ail.2_Missense_Mutation_p.G264W|HNRNPC_uc010tlq.1_RNA|HNRNPC_uc001wab.2_Missense_Mutation_p.G250W|HNRNPC_uc001wac.2_Missense_Mutation_p.G208W|HNRNPC_uc010tlr.1_Missense_Mutation_p.G129W|HNRNPC_uc001waf.2_Missense_Mutation_p.G251W|HNRNPC_uc001wae.2_Missense_Mutation_p.G251W	NM_031314	NP_112604	P07910	HNRPC_HUMAN	heterogeneous nuclear ribonucleoprotein C	264	Asp/Glu-rich (acidic).					catalytic step 2 spliceosome|nucleoplasm	identical protein binding|nucleotide binding|RNA binding				0	all_cancers(95;0.00176)		Epithelial(56;1.08e-06)|all cancers(55;8.95e-06)	GBM - Glioblastoma multiforme(265;0.00783)		AGTAGGTCCCCCTCCTCAGCA	0.522													36	77	---	---	---	---	PASS	A	21679612	A	A	21679612	3	1	148	1	0	0	0	0	1	0	0	0	7262	623	22	3	138	3	HNRNPC	14	21679612	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	319504	21679612	85669928	372	52875										
REC8	9985	broad.mit.edu	37	chr14	24642575	24642575	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccagatcccttttttgggatGatgtctgtggatcccagact	10	10	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:24642575G>T	uc001wmr.2	+	6	844	c.417G>T	c.(415-417)ATG>ATT	p.M139I	REC8_uc001wms.2_Missense_Mutation_p.M139I	NM_005132	NP_005123	O95072	REC8_HUMAN	REC8 homolog	139					mitotic metaphase/anaphase transition|mitotic prometaphase|reciprocal meiotic recombination|sister chromatid cohesion	nucleoplasm					0				GBM - Glioblastoma multiforme(265;0.00839)		TTTTTGGGATGATGTCTGTGG	0.532													175	238	---	---	---	---	PASS	T	24642575	T	T	24642575	3	4	148	1	0	0	0	0	1	0	0	0	13199	1290	45	2	435	2	REC8	14	24642575	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2962963	24642575	82706965	373	52876										
CFL2	1073	broad.mit.edu	37	chr14	35182136	35182136	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tttctctccaagtgtcgaacGgtccttaatatcatccaagc	6	12	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:35182136G>A	uc001wsg.3	-	4	577	c.436C>T	c.(436-438)CGT>TGT	p.R146C	CFL2_uc010tpn.1_Missense_Mutation_p.R129C|CFL2_uc001wsh.3_Missense_Mutation_p.R146C|CFL2_uc001wsi.3_RNA|CFL2_uc001wsj.3_RNA	NM_021914	NP_068733	Q9Y281	COF2_HUMAN	cofilin 2	146	ADF-H.					cytoplasm|cytoskeleton|nuclear matrix	actin binding			breast(2)	2	Breast(36;0.0361)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;6.07e-06)|Lung(238;2.23e-05)|Epithelial(34;0.0387)|all cancers(34;0.0814)	GBM - Glioblastoma multiforme(112;0.0424)		AGTGTCGAACGGTCCTTAATA	0.328													30	92	---	---	---	---	PASS	A	35182136	A	A	35182136	3	1	148	1	0	0	0	0	1	0	0	0	3291	1116	39	1	68	1	CFL2	14	35182136	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	10539561	35182136	72167404	374	52877										
PTGDR	5729	broad.mit.edu	37	chr14	52734567	52734567	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctaccgctgccagaacaccaCctctgtggaaaaaggcaact	8	14	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:52734567C>A	uc001wzq.2	+	1	137	c.35C>A	c.(34-36)ACC>AAC	p.T12N		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	12	Extracellular (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	CAGAACACCACCTCTGTGGAA	0.701													9	5	---	---	---	---	PASS	A	52734567	A	A	52734567	3	1	148	1	0	0	0	0	1	0	0	0	12741	507	18	3	37	3	PTGDR	14	52734567	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	17552431	52734567	54614973	375	52878										
KIAA1737	85457	broad.mit.edu	37	chr14	77580545	77580545	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agcaaacccagctgtttataGaagccaccaagagcagggcc	10	12	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:77580545G>C	uc001xtd.2	+	4	1263	c.1084G>C	c.(1084-1086)GAA>CAA	p.E362Q	KIAA1737_uc001xtc.1_Missense_Mutation_p.E264Q	NM_033426	NP_219494	Q9C0C6	K1737_HUMAN	KIAA1737 protein	362											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		GCTGTTTATAGAAGCCACCAA	0.493													3	78	---	---	---	---	PASS	C	77580545	C	C	77580545	3	2	148	1	0	0	0	0	1	0	0	0	8255	943	33	2	1094	2	KIAA1737	14	77580545	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	24845978	77580545	29768995	376	52879										
TTC8	123016	broad.mit.edu	37	chr14	89337998	89337998	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	actctgacctcatttgaacgTgccctttctttggctgaaaa	7	11	3	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:89337998T>C	uc010ath.2	+	12	1337	c.1203T>C	c.(1201-1203)CGT>CGC	p.R401R	TTC8_uc001xxl.2_Silent_p.R146R|TTC8_uc010ati.2_Silent_p.R187R|TTC8_uc001xxm.2_Silent_p.R345R|TTC8_uc010atj.2_Silent_p.R120R|TTC8_uc001xxi.2_Silent_p.R385R|TTC8_uc001xxj.2_Silent_p.R375R|TTC8_uc001xxk.2_Silent_p.R345R	NM_198309	NP_938051	Q8TAM2	TTC8_HUMAN	tetratricopeptide repeat domain 8 isoform B	411	TPR 6.				cilium assembly|establishment of anatomical structure orientation|sensory processing	BBSome|centrosome|cilium membrane|microtubule basal body	protein binding				0						CATTTGAACGTGCCCTTTCTT	0.433									Bardet-Biedl_syndrome				6	189	---	---	---	---	PASS	C	89337998	C	C	89337998	2	2	148	1	0	0	0	0	0	0	0	1	16711	1683	59	5		5	TTC8	14	89337998	Silent	SNP	T	TCGA-66-2759-01A-01D-1522-08	11757453	89337998	18011542	377	52880										
KIAA1409	57578	broad.mit.edu	37	chr14	94088624	94088624	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cgtcctcagcctgagcacagCtccgcttgtacaagtaagtg	10	13	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:94088624C>A	uc001ybv.1	+	28	4663	c.4580C>A	c.(4579-4581)GCT>GAT	p.A1527D	KIAA1409_uc001ybs.1_Missense_Mutation_p.A1505D	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1682						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CTGAGCACAGCTCCGCTTGTA	0.537													78	49	---	---	---	---	PASS	A	94088624	A	A	94088624	3	1	148	1	0	0	0	0	1	0	0	0	8230	797	28	3	4620	3	KIAA1409	14	94088624	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	4750626	94088624	13260916	378	52881										
PPP4R4	57718	broad.mit.edu	37	chr14	94697620	94697620	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aaactcttctgtctgttataGaagtattgccaaaagaaacc	6	8	3	2	rs149895295		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:94697620G>A	uc001ycs.1	+	5	638	c.484G>A	c.(484-486)GAA>AAA	p.E162K		NM_058237	NP_478144	Q6NUP7	PP4R4_HUMAN	HEAT-like repeat-containing protein isoform 1	162						cytoplasm|protein serine/threonine phosphatase complex	protein binding			skin(3)|upper_aerodigestive_tract(1)	4						GTCTGTTATAGAAGTATTGCC	0.358													81	64	---	---	---	---	PASS	A	94697620	A	A	94697620	3	1	148	1	0	0	0	0	1	0	0	0	12405	943	33	2	575	2	PPP4R4	14	94697620	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	608996	94697620	12651920	379	52882										
EIF5	1983	broad.mit.edu	37	chr14	103802453	103802453	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcgcttaatcggcctccaacGtgtaagtaaagcttggaaaa	10	9	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:103802453G>T	uc001ymq.2	+	4	675	c.153G>T	c.(151-153)ACG>ACT	p.T51T	EIF5_uc001ymr.2_Silent_p.T51T|EIF5_uc001yms.2_Silent_p.T51T|EIF5_uc001ymt.2_Silent_p.T51T|EIF5_uc001ymu.2_Silent_p.T51T|SNORA28_uc001ymv.1_5'Flank	NM_001969	NP_001960	P55010	IF5_HUMAN	eukaryotic translation initiation factor 5	51					regulation of translational initiation|RNA metabolic process	cytosol	GTP binding|GTPase activity|translation initiation factor activity			pancreas(1)|breast(1)|skin(1)	3		Melanoma(154;0.155)	Epithelial(46;0.182)			GGCCTCCAACGTGTAAGTAAA	0.393													29	20	---	---	---	---	PASS	T	103802453	T	T	103802453	2	4	148	1	0	0	0	0	0	0	0	1	5040	1159	40	1		1	EIF5	14	103802453	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	9104833	103802453	3547087	380	52883										
NIPA1	123606	broad.mit.edu	37	chr15	23049066	23049066	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gaggagtcgaagcactccagCgccttgttgatgtacctgaa	12	10	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:23049066C>T	uc001yvc.2	-	5	778	c.753G>A	c.(751-753)GCG>GCA	p.A251A	NIPA1_uc001yvd.2_Silent_p.A81A|NIPA1_uc001yve.2_Silent_p.A176A	NM_144599	NP_653200	Q7RTP0	NIPA1_HUMAN	non-imprinted in Prader-Willi/Angelman syndrome	251	Cytoplasmic (Potential).				cell death	early endosome|integral to membrane|plasma membrane					0		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;4.18e-06)|Epithelial(43;3.97e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00165)		AGCACTCCAGCGCCTTGTTGA	0.597													15	57	---	---	---	---	PASS	T	23049066	T	T	23049066	2	4	148	1	0	0	0	0	0	0	0	1	10422	755	27	1		1	NIPA1	15	23049066	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08		23049066	79482326	381	52884										
C15orf2	23742	broad.mit.edu	37	chr15	24921553	24921553	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgacgagaaaaggaccccccTtagcagcggagaagcatcgt	12	11	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:24921553T>A	uc001ywo.2	+	1	1013	c.539T>A	c.(538-540)CTT>CAT	p.L180H		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	180					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		AGGACCCCCCTTAGCAGCGGA	0.607													33	32	---	---	---	---	PASS	A	24921553	A	A	24921553	3	1	148	1	0	0	0	0	1	0	0	0	1784	1609	56	5	541	5	C15orf2	15	24921553	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	1872487	24921553	77609839	382	52885										
ATP10A	57194	broad.mit.edu	37	chr15	25932883	25932883	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aagaagtacagcaccatgttGgcaagtcgggagtagcacca	12	9	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:25932883G>T	uc010ayu.2	-	16	3364	c.3258C>A	c.(3256-3258)GCC>GCA	p.A1086A		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1086	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GCACCATGTTGGCAAGTCGGG	0.488													87	134	---	---	---	---	PASS	T	25932883	T	T	25932883	2	4	148	1	0	0	0	0	0	0	0	1	1116	1335	47	3		3	ATP10A	15	25932883	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	1011330	25932883	76598509	383	52886										
ATP10A	57194	broad.mit.edu	37	chr15	25966902	25966902	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttttatctgagaaaatgtacTgtatctgtcctaagtcttcc	6	8	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:25966902T>A	uc010ayu.2	-	7	1371	c.1265A>T	c.(1264-1266)CAG>CTG	p.Q422L		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	422	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GAAAATGTACTGTATCTGTCC	0.428													57	134	---	---	---	---	PASS	A	25966902	A	A	25966902	3	1	148	1	0	0	0	0	1	0	0	0	1116	1580	55	5	3294	5	ATP10A	15	25966902	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	34019	25966902	76564490	384	52887										
RYR3	6263	broad.mit.edu	37	chr15	33926842	33926842	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atatgcattactggatgagcGtaccaagaagtcaaacaggg	11	7	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:33926842G>A	uc001zhi.2	+	25	3153	c.3083G>A	c.(3082-3084)CGT>CAT	p.R1028H	RYR3_uc010bar.2_Missense_Mutation_p.R1028H	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1028	2.|B30.2/SPRY 2.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CTGGATGAGCGTACCAAGAAG	0.458													23	110	---	---	---	---	PASS	A	33926842	A	A	33926842	3	1	148	1	0	0	0	0	1	0	0	0	13770	1145	40	1	3181	1	RYR3	15	33926842	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	7959940	33926842	68604550	385	52888										
INO80	54617	broad.mit.edu	37	chr15	41377648	41377648	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcaatggataagtgctttttCttagtgccagggggaggtgc	14	6	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:41377648C>A	uc001zni.2	-	7	1005	c.792G>T	c.(790-792)AAG>AAT	p.K264N	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	264	Assembles INO80 complex module with putative regulatory components INO80E, INO80F, UCHL5, NFRKB, MCRS1 and IN80D.|Assembles INO80 complex module consisting of conserved components ACTR8, ACTL6A and YY1.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						AGTGCTTTTTCTTAGTGCCAG	0.483													46	210	---	---	---	---	PASS	A	41377648	A	A	41377648	3	1	148	1	0	0	0	0	1	0	0	0	7746	912	32	2	3998	2	INO80	15	41377648	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	7450806	41377648	61153744	386	52889										
GANC	2595	broad.mit.edu	37	chr15	42602892	42602892	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tattccattctttttccagtAcacactgacccagatgggcc	6	13	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:42602892A>T	uc001zpi.2	+	10	1219	c.905A>T	c.(904-906)TAC>TTC	p.Y302F	GANC_uc001zph.2_Missense_Mutation_p.Y302F|GANC_uc001zpj.1_Missense_Mutation_p.Y41F	NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	302					carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		TTTTTCCAGTACACACTGACC	0.418													32	102	---	---	---	---	PASS	T	42602892	T	T	42602892	3	4	148	1	0	0	0	0	1	0	0	0	6234	405	14	5	943	5	GANC	15	42602892	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	1225244	42602892	59928500	387	52890										
LRRC57	255252	broad.mit.edu	37	chr15	42839477	42839477	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acctgattctggttgaggttGagttcgatgacttgcagctc	12	8	1	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:42839477G>C	uc001zqd.1	-	3	842	c.474C>G	c.(472-474)CTC>CTG	p.L158L	HAUS2_uc001zqe.2_5'Flank|HAUS2_uc010udi.1_5'Flank|HAUS2_uc001zqf.2_5'Flank|LRRC57_uc001zqc.2_Silent_p.L158L	NM_153260	NP_694992	Q8N9N7	LRC57_HUMAN	leucine rich repeat containing 57	158	LRR 6.										0		all_cancers(109;1.99e-12)|all_epithelial(112;5.11e-11)|Lung NSC(122;4.53e-07)|all_lung(180;1.64e-06)|Melanoma(134;0.0262)		GBM - Glioblastoma multiforme(94;6.87e-07)		GGTTGAGGTTGAGTTCGATGA	0.448													66	86	---	---	---	---	PASS	C	42839477	C	C	42839477	2	2	148	1	0	0	0	0	0	0	0	1	9013	1277	45	2		2	LRRC57	15	42839477	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	236585	42839477	59691915	388	52891										
TGM7	116179	broad.mit.edu	37	chr15	43577058	43577058	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cagcatctcggcatttcggtCatagtacgtatcgatggtca	10	10	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:43577058C>T	uc001zrf.1	-	7	963	c.958G>A	c.(958-960)GAC>AAC	p.D320N		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	320					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	GCATTTCGGTCATAGTACGTA	0.468													48	223	---	---	---	---	PASS	T	43577058	T	T	43577058	3	4	148	1	0	0	0	0	1	0	0	0	15832	826	29	2	1202	2	TGM7	15	43577058	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	737581	43577058	58954334	389	52892										
TLN2	83660	broad.mit.edu	37	chr15	63004276	63004276	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cgcatggtggaagctgcaaaGgtattctactggatttgttt	12	6	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:63004276G>C	uc002alb.3	+	19	2634	c.2634G>C	c.(2632-2634)AAG>AAC	p.K878N		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	878	Ala-rich.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						AAGCTGCAAAGGTATTCTACT	0.448													22	48	---	---	---	---	PASS	C	63004276	C	C	63004276	3	2	148	1	0	0	0	0	1	0	0	0	15945	1014	35	4	2708	4	TLN2	15	63004276	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	19427218	63004276	39527116	390	52893										
DPP8	54878	broad.mit.edu	37	chr15	65759515	65759515	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gatgctctaaaggggagtctTtggtgccttcaaaatatacc	10	8	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:65759515T>C	uc002aov.2	-	13	3209	c.1631A>G	c.(1630-1632)AAA>AGA	p.K544R	DPP8_uc002aow.2_Missense_Mutation_p.K544R|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.K528R|DPP8_uc002aoy.2_Missense_Mutation_p.K544R|DPP8_uc002aoz.2_Missense_Mutation_p.K528R|DPP8_uc010bhj.2_Missense_Mutation_p.K544R|DPP8_uc002apa.2_Missense_Mutation_p.K441R|DPP8_uc010bhi.2_5'UTR|DPP8_uc010bhk.1_Missense_Mutation_p.K113R	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	544					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						AGGGGAGTCTTTGGTGCCTTC	0.448													34	56	---	---	---	---	PASS	C	65759515	C	C	65759515	3	2	148	1	0	0	0	0	1	0	0	0	4732	1841	64	5	1097	5	DPP8	15	65759515	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	2755239	65759515	36771877	391	52894										
C15orf60	283677	broad.mit.edu	37	chr15	73852191	73852191	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cgtttgtgccttatggatcaGaatttcccagcatttgtgga	10	8	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:73852191G>C	uc002avq.2	+	6	763	c.735G>C	c.(733-735)CAG>CAC	p.Q245H	C15orf60_uc010bjb.2_Missense_Mutation_p.Q217H	NM_001042367	NP_001035826	Q7Z4M0	CO060_HUMAN	hypothetical protein LOC283677	245										pancreas(1)	1						TTATGGATCAGAATTTCCCAG	0.438													52	97	---	---	---	---	PASS	C	73852191	C	C	73852191	3	2	148	1	0	0	0	0	1	0	0	0	1808	933	33	2	757	2	C15orf60	15	73852191	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	8092676	73852191	28679201	392	52895										
AGBL1	123624	broad.mit.edu	37	chr15	86807662	86807662	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcccttctgtgcagggtgaaGacgggaaggtccactgtgca	14	10	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:86807662G>T	uc002blz.1	+	10	1202	c.1122G>T	c.(1120-1122)AAG>AAT	p.K374N	AGBL1_uc002bma.1_Missense_Mutation_p.K105N|AGBL1_uc002bmb.1_Missense_Mutation_p.K68N	NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	374					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						GCAGGGTGAAGACGGGAAGGT	0.483													24	29	---	---	---	---	PASS	T	86807662	T	T	86807662	3	4	148	1	0	0	0	0	1	0	0	0	375	933	33	2	1156	2	AGBL1	15	86807662	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	12955471	86807662	15723730	393	52896										
SPATA8	145946	broad.mit.edu	37	chr15	97326950	97326950	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctaccaggaaattgccccctCttttcagaggctgccttgtc	8	14	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:97326950C>A	uc002bue.2	+	1	275	c.65C>A	c.(64-66)TCT>TAT	p.S22Y	uc010uro.1_5'Flank|uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8	22										ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			ATTGCCCCCTCTTTTCAGAGG	0.557													23	57	---	---	---	---	PASS	A	97326950	A	A	97326950	3	1	148	1	0	0	0	0	1	0	0	0	15014	913	32	2	67	2	SPATA8	15	97326950	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	10519288	97326950	5204442	394	52897										
PRSS21	10942	broad.mit.edu	37	chr16	2868807	2868807	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aatatctatctgagccctcgCtacctggggaattcacccta	7	13	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:2868807C>T	uc002crt.2	+	4	493	c.387C>T	c.(385-387)CGC>CGT	p.R129R	PRSS21_uc002crs.2_Silent_p.R127R|PRSS21_uc002crr.2_Silent_p.R129R	NM_006799	NP_006790	Q9Y6M0	TEST_HUMAN	testisin isoform 1	129	Peptidase S1.				proteolysis	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	serine-type endopeptidase activity			ovary(1)|skin(1)	2						TGAGCCCTCGCTACCTGGGGA	0.532													85	156	---	---	---	---	PASS	T	2868807	T	T	2868807	2	4	148	1	0	0	0	0	0	0	0	1	12618	784	28	3		3	PRSS21	16	2868807	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08		2868807	87485946	395	52898										
ZNF205	7755	broad.mit.edu	37	chr16	3165878	3165878	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttcccgagaggggaggaccaGagaccggcagatggctgcag	17	10	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:3165878G>C	uc002cub.2	+	4	455	c.320G>C	c.(319-321)AGA>ACA	p.R107T	MGC3771_uc010bte.2_5'Flank|MGC3771_uc002ctz.3_5'Flank|ZNF205_uc002cua.2_Missense_Mutation_p.R107T	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	107					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GGGAGGACCAGAGACCGGCAG	0.667													14	39	---	---	---	---	PASS	C	3165878	C	C	3165878	3	2	148	1	0	0	0	0	1	0	0	0	17761	942	33	2	330	2	ZNF205	16	3165878	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	297071	3165878	87188875	396	52899			2	57		4	4	3636	G		3.168402e-05
ZNF205	7755	broad.mit.edu	37	chr16	3166446	3166446	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agatgccagtgactttcgagGatgtggccttgtacctctcc	11	11	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:3166446G>A	uc002cub.2	+	5	517	c.382G>A	c.(382-384)GAT>AAT	p.D128N	MGC3771_uc010bte.2_5'Flank|MGC3771_uc002ctz.3_5'Flank|ZNF205_uc002cua.2_Missense_Mutation_p.D128N	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	128	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GACTTTCGAGGATGTGGCCTT	0.547													13	83	---	---	---	---	PASS	A	3166446	A	A	3166446	3	1	148	1	0	0	0	0	1	0	0	0	17761	1174	41	2	396	2	ZNF205	16	3166446	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	568	3166446	87188307	397	52900			2	57		4	4	3636	G		3.168402e-05
ZNF205	7755	broad.mit.edu	37	chr16	3166483	3166483	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctcccgggaggagtggggacGgctggaccacacgcagcaga	17	12	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:3166483G>A	uc002cub.2	+	5	554	c.419G>A	c.(418-420)CGG>CAG	p.R140Q	MGC3771_uc010bte.2_5'Flank|MGC3771_uc002ctz.3_5'Flank|ZNF205_uc002cua.2_Missense_Mutation_p.R140Q	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	140	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GAGTGGGGACGGCTGGACCAC	0.557													17	70	---	---	---	---	PASS	A	3166483	A	A	3166483	3	1	148	1	0	0	0	0	1	0	0	0	17761	1116	39	1	433	1	ZNF205	16	3166483	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	37	3166483	87188270	398	52901			2	57		4	4	3636	G		3.168402e-05
ZNF205	7755	broad.mit.edu	37	chr16	3169513	3169513	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtcccggagaagcccaacgaGgaggagaagggcgccccgga	17	12	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:3169513G>A	uc002cub.2	+	7	987	c.852G>A	c.(850-852)GAG>GAA	p.E284E	ZNF205_uc002cua.2_Silent_p.E284E	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	284					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						AGCCCAACGAGGAGGAGAAGG	0.706													4	11	---	---	---	---	PASS	A	3169513	A	A	3169513	2	1	148	1	0	0	0	0	0	0	0	1	17761	991	35	3		3	ZNF205	16	3169513	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	3030	3169513	87185240	399	52902			2	57		4	4	3636	G		3.168402e-05
MYH11	4629	broad.mit.edu	37	chr16	15850288	15850288	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tggctgccctgctccgtgcaCagcttctccacgaaagactt	9	15	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:15850288C>G	uc002ddy.2	-	14	1766	c.1659G>C	c.(1657-1659)CTG>CTC	p.L553L	MYH11_uc002ddv.2_Silent_p.L560L|MYH11_uc002ddw.2_Silent_p.L553L|MYH11_uc002ddx.2_Silent_p.L560L|MYH11_uc010bvg.2_Silent_p.L385L|MYH11_uc002dea.1_Silent_p.L259L	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	553	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						GCTCCGTGCACAGCTTCTCCA	0.567			T	CBFB	AML						OREG0023636	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	52	43	---	---	---	---	PASS	G	15850288	G	G	15850288	2	3	148	1	0	0	0	0	0	0	0	1	10031	465	17	4		4	MYH11	16	15850288	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	12680775	15850288	74504465	400	52903										
SMG1	23049	broad.mit.edu	37	chr16	18830965	18830965	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcaatacttgattcaagtgcAgctagcttctcctataaaag	6	9	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:18830965A>G	uc002dfm.2	-	56	10116	c.9753T>C	c.(9751-9753)GCT>GCC	p.A3251A	SMG1_uc010bwb.2_Silent_p.A3111A|SMG1_uc010bwa.2_Silent_p.A1982A	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	3251					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						ATTCAAGTGCAGCTAGCTTCT	0.408													5	3	---	---	---	---	PASS	G	18830965	G	G	18830965	2	3	148	1	0	0	0	0	0	0	0	1	14795	175	7	5		5	SMG1	16	18830965	Silent	SNP	A	TCGA-66-2759-01A-01D-1522-08	2980677	18830965	71523788	401	52904										
ACSM2A	123876	broad.mit.edu	37	chr16	20489923	20489923	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agatgataagggcaacgtccTgccccccggcacagaaggag	13	12	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:20489923T>G	uc010bwe.2	+	11	1444	c.1205T>G	c.(1204-1206)CTG>CGG	p.L402R	ACSM2A_uc010vax.1_Missense_Mutation_p.L323R|ACSM2A_uc002dhf.3_Missense_Mutation_p.L402R|ACSM2A_uc002dhg.3_Missense_Mutation_p.L402R|ACSM2A_uc010vay.1_Missense_Mutation_p.L323R|ACSM2A_uc002dhh.3_Missense_Mutation_p.L32R	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	402					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						GGCAACGTCCTGCCCCCCGGC	0.502													23	115	---	---	---	---	PASS	G	20489923	G	G	20489923	3	3	148	1	0	0	0	0	1	0	0	0	183	1580	55	5	1239	5	ACSM2A	16	20489923	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	1658958	20489923	69864830	402	52905										
EEF2K	29904	broad.mit.edu	37	chr16	22237271	22237271	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcggtatagctccagcgggtCcccggcaaactccttccact	10	16	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:22237271C>G	uc002dki.2	+	2	706	c.221C>G	c.(220-222)TCC>TGC	p.S74C	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	74					insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		TCCAGCGGGTCCCCGGCAAAC	0.522													24	50	---	---	---	---	PASS	G	22237271	G	G	22237271	3	3	148	1	0	0	0	0	1	0	0	0	4930	855	30	2	223	2	EEF2K	16	22237271	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1747348	22237271	68117482	403	52906										
SCNN1B	6338	broad.mit.edu	37	chr16	23392036	23392036	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtgagcaggccctgcccatcCcaggcaccccgccccccaac	9	22	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:23392036C>A	uc002dln.2	+	13	2013	c.1837C>A	c.(1837-1839)CCA>ACA	p.P613T		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	613	Cytoplasmic (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	CCTGCCCATCCCAGGCACCCC	0.672													12	52	---	---	---	---	PASS	A	23392036	A	A	23392036	3	1	148	1	0	0	0	0	1	0	0	0	13928	623	22	3	1883	3	SCNN1B	16	23392036	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1154765	23392036	66962717	404	52907										
ZKSCAN2	342357	broad.mit.edu	37	chr16	25258570	25258570	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttcctgcactccttgcagggAcctgaatagcatgaactgac	9	12	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:25258570A>T	uc002dod.3	-	5	1354	c.947T>A	c.(946-948)GTC>GAC	p.V316D	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.V112D|ZKSCAN2_uc002doe.2_Missense_Mutation_p.V316D	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	316					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		CCTTGCAGGGACCTGAATAGC	0.463													82	107	---	---	---	---	PASS	T	25258570	T	T	25258570	3	4	148	1	0	0	0	0	1	0	0	0	17684	275	10	5	1968	5	ZKSCAN2	16	25258570	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	1866534	25258570	65096183	405	52908										
ABCC12	94160	broad.mit.edu	37	chr16	48180233	48180233	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttaccttgcacagggtcgcaCtgggatcatggtcttcaggc	12	11	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:48180233C>A	uc002efc.1	-	1	449	c.103G>T	c.(103-105)GTG>TTG	p.V35L	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.V35L|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	35						integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CAGGGTCGCACTGGGATCATG	0.577													23	78	---	---	---	---	PASS	A	48180233	A	A	48180233	3	1	148	1	0	0	0	0	1	0	0	0	52	565	20	3	4092	3	ABCC12	16	48180233	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	22921663	48180233	42174520	406	52909										
LONP2	83752	broad.mit.edu	37	chr16	48337093	48337093	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttgatgacaggtataccagaGaggcaggggttcgttctctg	14	7	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:48337093G>A	uc002efi.1	+	11	1761	c.1672G>A	c.(1672-1674)GAG>AAG	p.E558K	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Missense_Mutation_p.E514K	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	558					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						GTATACCAGAGAGGCAGGGGT	0.413													20	41	---	---	---	---	PASS	A	48337093	A	A	48337093	3	1	148	1	0	0	0	0	1	0	0	0	8893	943	33	2	1714	2	LONP2	16	48337093	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	156860	48337093	42017660	407	52910										
NOD2	64127	broad.mit.edu	37	chr16	50745180	50745180	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cttctctgaacagggcatcgAgctgtacctgaggaagcgcc	12	12	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:50745180A>G	uc002egm.1	+	4	1463	c.1358A>G	c.(1357-1359)GAG>GGG	p.E453G	NOD2_uc010cbk.1_Missense_Mutation_p.E426G|NOD2_uc002egl.1_Missense_Mutation_p.E231G|NOD2_uc010cbl.1_Missense_Mutation_p.E231G|NOD2_uc010cbm.1_Missense_Mutation_p.E231G|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	453	NACHT.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				CAGGGCATCGAGCTGTACCTG	0.637													28	87	---	---	---	---	PASS	G	50745180	G	G	50745180	3	3	148	1	0	0	0	0	1	0	0	0	10517	304	11	5	1372	5	NOD2	16	50745180	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	2408087	50745180	39609573	408	52911										
CES7	221223	broad.mit.edu	37	chr16	55903629	55903629	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggaggctgagccagtcttgaAggcacctcctgggaaccaca	13	12	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:55903629A>T	uc002eip.2	-	4	594	c.445T>A	c.(445-447)TTC>ATC	p.F149I	CES7_uc002eio.2_Missense_Mutation_p.F149I|CES7_uc002eiq.2_5'UTR|CES7_uc002eir.2_Missense_Mutation_p.F43I	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	149						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		CCAGTCTTGAAGGCACCTCCT	0.587													7	20	---	---	---	---	PASS	T	55903629	T	T	55903629	3	4	148	1	0	0	0	0	1	0	0	0	3272	72	3	5	1322	5	CES7	16	55903629	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	5158449	55903629	34451124	409	52912										
CDH1	999	broad.mit.edu	37	chr16	68849430	68849430	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctctctagggcttggattttGaggccaagcagcagtacatt	11	9	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:68849430G>C	uc002ewg.1	+	10	1457	c.1333G>C	c.(1333-1335)GAG>CAG	p.E445Q	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.E384Q	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	445	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.G441_E463del(1)|p.L442fs*18(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		CTTGGATTTTGAGGCCAAGCA	0.418			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				27	69	---	---	---	---	PASS	C	68849430	C	C	68849430	3	2	148	1	0	0	0	0	1	0	0	0	3095	1291	45	2	1371	2	CDH1	16	68849430	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	12945801	68849430	21505323	410	52913										
ZNF23	7571	broad.mit.edu	37	chr16	71483060	71483060	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aatatatgcagaactacagcTgaagccatttccacattcct	5	11	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:71483060T>A	uc002faf.2	-	6	1682	c.868A>T	c.(868-870)AGC>TGC	p.S290C	ZNF23_uc002fad.2_Missense_Mutation_p.S232C|ZNF23_uc002fae.2_Missense_Mutation_p.S232C|ZNF23_uc010vmf.1_Missense_Mutation_p.S232C|ZNF23_uc002fag.2_Missense_Mutation_p.S232C|ZNF23_uc002fah.2_Missense_Mutation_p.S290C|ZNF23_uc002fai.2_Missense_Mutation_p.S329C	NM_145911	NP_666016	P17027	ZNF23_HUMAN	zinc finger protein 23	290	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(137;0.00768)		BRCA - Breast invasive adenocarcinoma(221;0.0686)		GAACTACAGCTGAAGCCATTT	0.443													32	115	---	---	---	---	PASS	A	71483060	A	A	71483060	3	1	148	1	0	0	0	0	1	0	0	0	17780	1580	55	5	1067	5	ZNF23	16	71483060	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	2633630	71483060	18871693	411	52914										
ZFHX3	463	broad.mit.edu	37	chr16	72821815	72821815	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctttggaacaatgaaggggtCgtagagggagtccgcacttt	14	7	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:72821815C>A	uc002fck.2	-	10	11033	c.10360G>T	c.(10360-10362)GAC>TAC	p.D3454Y	ZFHX3_uc002fcl.2_Missense_Mutation_p.D2540Y	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3454					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ATGAAGGGGTCGTAGAGGGAG	0.582													42	142	---	---	---	---	PASS	A	72821815	A	A	72821815	3	1	148	1	0	0	0	0	1	0	0	0	17631	884	31	2	755	2	ZFHX3	16	72821815	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1338755	72821815	17532938	412	52915										
ADAT1	23536	broad.mit.edu	37	chr16	75646400	75646400	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agcttctccaggtacacactTggctccagttctataaacgt	7	12	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:75646400T>A	uc002feo.1	-	7	886	c.784A>T	c.(784-786)AAG>TAG	p.K262*	ADAT1_uc002fep.1_Nonsense_Mutation_p.K113*	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	262	A to I editase.				tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						GGTACACACTTGGCTCCAGTT	0.562													34	99	---	---	---	---	PASS	A	75646400	A	A	75646400	4	1	148	1	0	0	0	0	0	1	0	0	284	1821	63	5	744	5	ADAT1	16	75646400	Nonsense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	2824585	75646400	14708353	413	52916										
CNTNAP4	85445	broad.mit.edu	37	chr16	76509861	76509861	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgcccaactattgtgaacacGgtggggagtgttcccagtcc	12	11	0	1	rs150806968		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:76509861G>C	uc002feu.1	+	13	2066	c.1681G>C	c.(1681-1683)GGT>CGT	p.G561R	CNTNAP4_uc002fev.1_Missense_Mutation_p.G425R|CNTNAP4_uc010chb.1_Missense_Mutation_p.G488R|CNTNAP4_uc002fex.1_Missense_Mutation_p.G564R|CNTNAP4_uc002few.2_Missense_Mutation_p.G536R	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	561	Extracellular (Potential).|EGF-like 1.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TTGTGAACACGGTGGGGAGTG	0.428													8	67	---	---	---	---	PASS	C	76509861	C	C	76509861	3	2	148	1	0	0	0	0	1	0	0	0	3649	1116	39	4	1736	4	CNTNAP4	16	76509861	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	863461	76509861	13844892	414	52917										
CNTNAP4	85445	broad.mit.edu	37	chr16	76556094	76556094	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tggatcagctgacaccaaagAcacagcccgcccccgctgat	9	16	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:76556094A>T	uc002feu.1	+	19	3080	c.2695A>T	c.(2695-2697)ACA>TCA	p.T899S	CNTNAP4_uc002fev.1_Missense_Mutation_p.T763S|CNTNAP4_uc010chb.1_Missense_Mutation_p.T826S|CNTNAP4_uc002fex.1_Missense_Mutation_p.T902S	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	899	Extracellular (Potential).|Laminin G-like 3.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						GACACCAAAGACACAGCCCGC	0.498													18	76	---	---	---	---	PASS	T	76556094	T	T	76556094	3	4	148	1	0	0	0	0	1	0	0	0	3649	275	10	5	2774	5	CNTNAP4	16	76556094	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	46233	76556094	13798659	415	52918										
NECAB2	54550	broad.mit.edu	37	chr16	84035944	84035944	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgcttggtgcacggtgggacGggactgacagcctcccagag	16	11	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:84035944G>A	uc002fhd.2	+	13	1171	c.1154G>A	c.(1153-1155)CGG>CAG	p.R385Q	NECAB2_uc002fhe.2_Missense_Mutation_p.R302Q	NM_019065	NP_061938	Q7Z6G3	NECA2_HUMAN	neuronal calcium-binding protein 2	385					antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity|protein binding			ovary(2)	2						ACGGTGGGACGGGACTGACAG	0.557													54	183	---	---	---	---	PASS	A	84035944	A	A	84035944	3	1	148	1	0	0	0	0	1	0	0	0	10305	1116	39	1	1204	1	NECAB2	16	84035944	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	7479850	84035944	6318809	416	52919										
TP53	7157	broad.mit.edu	37	chr17	7577536	7577536	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gatgatggtgaggatgggccTccggttcatgccgcccatgc	15	11	1	2	rs67185453		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:7577536T>C	uc002gim.2	-	7	939	c.745A>G	c.(745-747)AGG>GGG	p.R249G	TP53_uc002gig.1_Missense_Mutation_p.R249G|TP53_uc002gih.2_Missense_Mutation_p.R249G|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R117G|TP53_uc010cng.1_Missense_Mutation_p.R117G|TP53_uc002gii.1_Missense_Mutation_p.R117G|TP53_uc010cnh.1_Missense_Mutation_p.R249G|TP53_uc010cni.1_Missense_Mutation_p.R249G|TP53_uc002gij.2_Missense_Mutation_p.R249G|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R156G|TP53_uc002gio.2_Missense_Mutation_p.R117G	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	249	|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> W (in sporadic cancers; somatic mutation).|RP -> SA (in a sporadic cancer; somatic mutation).|RP -> SS (in sporadic cancers; somatic mutation).|R -> T (in sporadic cancers; somatic mutation).|R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> I (in a sporadic cancer; somatic mutation).|R -> M (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R249S(303)|p.R249M(25)|p.R249G(24)|p.R249W(23)|p.R249T(16)|p.R249K(14)|p.0?(7)|p.R249R(6)|p.R249fs*96(6)|p.M246_P250delMNRRP(2)|p.R249fs*14(2)|p.N247_P250delNRRP(1)|p.R249fs*15(1)|p.R249_I251delRPI(1)|p.R249_P250delRP(1)|p.R249_P250insR(1)|p.N247_R248delNR(1)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.R249_T256delRPILTIIT(1)|p.R249_P250>SS(1)|p.G245fs*14(1)|p.R249fs*19(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		AGGATGGGCCTCCGGTTCATG	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	28	---	---	---	---	PASS	C	7577536	C	C	7577536	3	2	148	1	0	0	0	0	1	0	0	0	16378	1550	54	5	545	5	TP53	17	7577536	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08		7577536	73617674	417	52920										
MYH4	4622	broad.mit.edu	37	chr17	10348415	10348415	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cttcttcatccgctccaggtGggcgctggtgtcctgttcct	11	14	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:10348415G>A	uc002gmn.2	-	37	5455	c.5344C>T	c.(5344-5346)CAC>TAC	p.H1782Y	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1782	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CGCTCCAGGTGGGCGCTGGTG	0.517													100	91	---	---	---	---	PASS	A	10348415	A	A	10348415	3	1	148	1	0	0	0	0	1	0	0	0	10037	1348	47	3	491	3	MYH4	17	10348415	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2770879	10348415	70846795	418	52921										
MYH2	4620	broad.mit.edu	37	chr17	10426914	10426914	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cttcacggtctgctccatgtTcttcttcatccgctccaggt	7	15	5	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:10426914T>C	uc010coi.2	-	37	5499	c.5371A>G	c.(5371-5373)AAC>GAC	p.N1791D	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.N1791D|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1791	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TGCTCCATGTTCTTCTTCATC	0.547													69	81	---	---	---	---	PASS	C	10426914	C	C	10426914	3	2	148	1	0	0	0	0	1	0	0	0	10035	1783	62	5	470	5	MYH2	17	10426914	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	78499	10426914	70768296	419	52922										
TMEM99	147184	broad.mit.edu	37	chr17	38991086	38991086	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctccttggtgttggctcgtgGttgctcttcaacaactggac	11	11	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:38991086G>A	uc002hvj.1	+	3	625	c.318G>A	c.(316-318)TGG>TGA	p.W106*		NM_145274	NP_660317	Q8N816	TMM99_HUMAN	transmembrane protein 99 precursor	106	Helical; (Potential).					integral to membrane				skin(1)	1		Breast(137;0.000301)				TTGGCTCGTGGTTGCTCTTCA	0.473													5	226	---	---	---	---	PASS	A	38991086	A	A	38991086	4	1	148	1	0	0	0	0	0	1	0	0	16223	1270	44	3	320	3	TMEM99	17	38991086	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	28564172	38991086	42204124	420	52923										
KRT13	3860	broad.mit.edu	37	chr17	39658702	39658702	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtcttgatgtccagcagcaTcttgtactcttggttctggc	10	10	4	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:39658702T>G	uc002hwu.1	-	6	1231	c.1168A>C	c.(1168-1170)ATG>CTG	p.M390L	KRT13_uc002hwv.1_Missense_Mutation_p.M390L|KRT13_uc002hww.2_Missense_Mutation_p.M283L|KRT13_uc010wfr.1_Missense_Mutation_p.M283L|KRT13_uc010cxo.2_Missense_Mutation_p.M390L|KRT13_uc002hwx.1_Missense_Mutation_p.M378L	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	390	Rod.|Coil 2.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				TCCAGCAGCATCTTGTACTCT	0.602													21	361	---	---	---	---	PASS	G	39658702	G	G	39658702	3	3	148	1	0	0	0	0	1	0	0	0	8450	1435	50	5	220	5	KRT13	17	39658702	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	667616	39658702	41536508	421	52924										
KRT13	3860	broad.mit.edu	37	chr17	39658791	39658791	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgagtccctggatctgctgcAgctgcagggcatagcggcac	14	12	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:39658791A>C	uc002hwu.1	-	6	1142	c.1079T>G	c.(1078-1080)CTG>CGG	p.L360R	KRT13_uc002hwv.1_Missense_Mutation_p.L360R|KRT13_uc002hww.2_Missense_Mutation_p.L253R|KRT13_uc010wfr.1_Missense_Mutation_p.L253R|KRT13_uc010cxo.2_Missense_Mutation_p.L360R|KRT13_uc002hwx.1_Missense_Mutation_p.L348R	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	360	Rod.|Coil 2.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				GATCTGCTGCAGCTGCAGGGC	0.602													9	245	---	---	---	---	PASS	C	39658791	C	C	39658791	3	2	148	1	0	0	0	0	1	0	0	0	8450	188	7	5	309	5	KRT13	17	39658791	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	89	39658791	41536419	422	52925										
KRT16	3868	broad.mit.edu	37	chr17	39767629	39767629	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cttcctcaggtaggccagctCctccttcaggccttcgatct	8	16	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:39767629C>G	uc002hxg.3	-	3	878	c.739G>C	c.(739-741)GAG>CAG	p.E247Q	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	247	Coil 1B.|Rod.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				TAGGCCAGCTCCTCCTTCAGG	0.642													43	60	---	---	---	---	PASS	G	39767629	G	G	39767629	3	3	148	1	0	0	0	0	1	0	0	0	8453	864	30	2	706	2	KRT16	17	39767629	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	108838	39767629	41427581	423	52926										
C17orf53	78995	broad.mit.edu	37	chr17	42230141	42230141	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cagcattgtcatggtgctgcGcaaggtaaggattctgggtg	15	7	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:42230141G>T	uc002ifi.1	+	5	1630	c.1445G>T	c.(1444-1446)CGC>CTC	p.R482L	C17orf53_uc010czq.1_Missense_Mutation_p.R482L|C17orf53_uc002ifj.1_Intron|C17orf53_uc002ifk.1_Intron	NM_024032	NP_076937	Q8N3J3	CQ053_HUMAN	hypothetical protein LOC78995	482											0		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		ATGGTGCTGCGCAAGGTAAGG	0.542													41	78	---	---	---	---	PASS	T	42230141	T	T	42230141	3	4	148	1	0	0	0	0	1	0	0	0	1862	1087	38	1	1463	1	C17orf53	17	42230141	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2462512	42230141	38965069	424	52927										
HOXB1	3211	broad.mit.edu	37	chr17	46607865	46607865	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgctgcggaggatatggcccCggaccggctccacctgctcc	13	16	0	0	rs141645068		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:46607865C>A	uc002ink.1	-	1	408	c.402G>T	c.(400-402)CCG>CCT	p.P134P		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	134						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GATATGGCCCCGGACCGGCTC	0.612													3	63	---	---	---	---	PASS	A	46607865	A	A	46607865	2	1	148	1	0	0	0	0	0	0	0	1	7299	639	23	1		1	HOXB1	17	46607865	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	4377724	46607865	34587345	425	52928										
COL1A1	1277	broad.mit.edu	37	chr17	48271336	48271336	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aggtccagggaatcccatcaCaccagcctgaccacgggcac	10	16	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:48271336C>T	uc002iqm.2	-	25	1861	c.1735G>A	c.(1735-1737)GTG>ATG	p.V579M		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	579	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	AATCCCATCACACCAGCCTGA	0.493			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						37	50	---	---	---	---	PASS	T	48271336	T	T	48271336	3	4	148	1	0	0	0	0	1	0	0	0	3677	478	17	3	2767	3	COL1A1	17	48271336	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1663471	48271336	32923874	426	52929										
WFIKKN2	124857	broad.mit.edu	37	chr17	48917584	48917584	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	caggggtcatcaggctgcagCcacctcagagagcagcccca	12	15	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:48917584C>T	uc002isv.3	+	2	1629	c.935C>T	c.(934-936)GCC>GTC	p.A312V	WFIKKN2_uc010dbu.2_Missense_Mutation_p.A219V	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	312						extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			CAGGCTGCAGCCACCTCAGAG	0.662													29	21	---	---	---	---	PASS	T	48917584	T	T	48917584	3	4	148	1	0	0	0	0	1	0	0	0	17356	739	26	3	941	3	WFIKKN2	17	48917584	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	646248	48917584	32277626	427	52930										
KIF2B	84643	broad.mit.edu	37	chr17	51901916	51901916	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tggtgctccgggactcctttAtaggccagaactcctccact	9	14	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:51901916A>G	uc002iua.2	+	1	1678	c.1522A>G	c.(1522-1524)ATA>GTA	p.I508V	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	508					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						GGACTCCTTTATAGGCCAGAA	0.473													26	49	---	---	---	---	PASS	G	51901916	G	G	51901916	3	3	148	1	0	0	0	0	1	0	0	0	8298	449	16	5	1524	5	KIF2B	17	51901916	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	2984332	51901916	29293294	428	52931										
TRIM37	4591	broad.mit.edu	37	chr17	57134397	57134397	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttacaggactggtgaaccatCtctacacgatattcatatct	6	10	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:57134397C>G	uc002iwy.3	-	13	1482	c.1038G>C	c.(1036-1038)GAG>GAC	p.E346D	TRIM37_uc002iwz.3_Missense_Mutation_p.E346D|TRIM37_uc002ixa.3_Missense_Mutation_p.E224D|TRIM37_uc010woc.1_Missense_Mutation_p.E312D	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	346	MATH.					perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					GGTGAACCATCTCTACACGAT	0.318									Mulibrey_Nanism				23	84	---	---	---	---	PASS	G	57134397	G	G	57134397	3	3	148	1	0	0	0	0	1	0	0	0	16508	912	32	2	1912	2	TRIM37	17	57134397	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	5232481	57134397	24060813	429	52932										
TRIM65	201292	broad.mit.edu	37	chr17	73888574	73888574	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cccaggaggccaagatgcagGccgagttctgggcgggaaca	16	11	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:73888574G>T	uc002jpx.2	-	3	554	c.518C>A	c.(517-519)GCC>GAC	p.A173D		NM_173547	NP_775818	Q6PJ69	TRI65_HUMAN	tripartite motif-containing 65	173	Potential.					intracellular	zinc ion binding				0			Epithelial(20;7.53e-06)|all cancers(21;9.11e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			CAAGATGCAGGCCGAGTTCTG	0.647													7	61	---	---	---	---	PASS	T	73888574	T	T	73888574	3	4	148	1	0	0	0	0	1	0	0	0	16536	1203	42	3	1051	3	TRIM65	17	73888574	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	16754177	73888574	7306636	430	52933										
SOCS3	9021	broad.mit.edu	37	chr17	76354708	76354708	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcttctggggggactcccagGgagtggctgggcagacggct	18	10	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:76354708G>A	uc002jvl.2	-	2	885	c.469C>T	c.(469-471)CCT>TCT	p.P157S		NM_003955	NP_003946	O14543	SOCS3_HUMAN	suppressor of cytokine signaling 3	157					anti-apoptosis|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|regulation of growth|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol	protein kinase inhibitor activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.000688)|OV - Ovarian serous cystadenocarcinoma(97;0.0554)			GGACTCCCAGGGAGTGGCTGG	0.662													26	35	---	---	---	---	PASS	A	76354708	A	A	76354708	3	1	148	1	0	0	0	0	1	0	0	0	14915	1232	43	3	212	3	SOCS3	17	76354708	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	2466134	76354708	4840502	431	52934										
PPP4R1	9989	broad.mit.edu	37	chr18	9553390	9553390	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aaactcctgaagttgataaaGatattctcttcttttgtcaa	5	7	3	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:9553390G>C	uc002koe.1	-	16	2339	c.2221C>G	c.(2221-2223)CTT>GTT	p.L741V	PPP4R1_uc002kof.2_Missense_Mutation_p.L158V|PPP4R1_uc010wzo.1_Missense_Mutation_p.L587V|PPP4R1_uc002kod.1_Missense_Mutation_p.L724V	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	741					protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						AGTTGATAAAGATATTCTCTT	0.318													24	57	---	---	---	---	PASS	C	9553390	C	C	9553390	3	2	148	1	0	0	0	0	1	0	0	0	12403	942	33	2	651	2	PPP4R1	18	9553390	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08		9553390	68523858	432	52935										
HRH4	59340	broad.mit.edu	37	chr18	22048908	22048908	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgatcgatacctgtcagtctCaaatgctgtaagtcgaaaca	8	9	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:22048908C>G	uc002kvi.2	+	2	450	c.350C>G	c.(349-351)TCA>TGA	p.S117*	HRH4_uc010xbd.1_Intron|HRH4_uc010dlx.2_Intron	NM_021624	NP_067637	Q9H3N8	HRH4_HUMAN	histamine H4 receptor isoform 1	117	Cytoplasmic (Potential).					integral to membrane|plasma membrane	histamine receptor activity			ovary(2)	2	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Clozapine(DB00363)	CTGTCAGTCTCAAATGCTGTA	0.343													73	78	---	---	---	---	PASS	G	22048908	G	G	22048908	4	3	148	1	0	0	0	0	0	1	0	0	7358	838	29	2	356	2	HRH4	18	22048908	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	12495518	22048908	56028340	433	52936										
ZNF521	25925	broad.mit.edu	37	chr18	22804463	22804463	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acttaacgttgcagctagagCagcgtgtcttcagtcccccc	9	14	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:22804463C>A	uc002kvk.2	-	4	3666	c.3419G>T	c.(3418-3420)TGC>TTC	p.C1140F	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.C1140F|ZNF521_uc002kvl.2_Missense_Mutation_p.C920F	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	1140	C2H2-type 26.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					GCAGCTAGAGCAGCGTGTCTT	0.532			T	PAX5	ALL								35	125	---	---	---	---	PASS	A	22804463	A	A	22804463	3	1	148	1	0	0	0	0	1	0	0	0	17962	710	25	3	536	3	ZNF521	18	22804463	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	755555	22804463	55272785	434	52937										
CDH2	1000	broad.mit.edu	37	chr18	25593741	25593741	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtcttgggcatatatcaggAacttggcatgctcagaagag	12	7	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:25593741A>G	uc002kwg.2	-	3	764	c.305T>C	c.(304-306)TTC>TCC	p.F102S	CDH2_uc010xbn.1_Missense_Mutation_p.F71S	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	102					adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						ATATATCAGGAACTTGGCATG	0.463													59	373	---	---	---	---	PASS	G	25593741	G	G	25593741	3	3	148	1	0	0	0	0	1	0	0	0	3105	246	9	5	2471	5	CDH2	18	25593741	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	2789278	25593741	52483507	435	52938										
DSC1	1823	broad.mit.edu	37	chr18	28713956	28713956	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tttatccttcattctacactCagatggagttgaacagtcac	6	10	4	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:28713956C>G	uc002kwn.2	-	13	2276	c.2014G>C	c.(2014-2016)GAG>CAG	p.E672Q	DSC1_uc002kwm.2_Missense_Mutation_p.E672Q	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	672	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			ATTCTACACTCAGATGGAGTT	0.353													146	198	---	---	---	---	PASS	G	28713956	G	G	28713956	3	3	148	1	0	0	0	0	1	0	0	0	4765	835	29	2	726	2	DSC1	18	28713956	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3120215	28713956	49363292	436	52939										
GALNT1	2589	broad.mit.edu	37	chr18	33272176	33272176	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtagattatggagatatatcGtcaagagttggtctaagaca	11	4	2	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:33272176G>A	uc010dmu.2	+	9	1244	c.1191G>A	c.(1189-1191)TCG>TCA	p.S397S	GALNT1_uc002kyz.3_Silent_p.S337S|GALNT1_uc002kzb.2_Silent_p.S397S	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	397	Lumenal (Potential).				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						GAGATATATCGTCAAGAGTTG	0.318													48	358	---	---	---	---	PASS	A	33272176	A	A	33272176	2	1	148	1	0	0	0	0	0	0	0	1	6207	1132	40	1		1	GALNT1	18	33272176	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	4558220	33272176	44805072	437	52940										
KIAA1632	57724	broad.mit.edu	37	chr18	43438727	43438727	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	taccagaatgggtccccatcCtgaattctgattgagagggc	11	10	1	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:43438727C>A	uc002lbm.2	-	41	7130	c.7030G>T	c.(7030-7032)GGA>TGA	p.G2344*	KIAA1632_uc010xcq.1_Nonsense_Mutation_p.G898*|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Nonsense_Mutation_p.G1219*	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	2344					autophagy						0						GGTCCCCATCCTGAATTCTGA	0.443													46	110	---	---	---	---	PASS	A	43438727	A	A	43438727	4	1	148	1	0	0	0	0	0	1	0	0	8249	690	24	3	725	3	KIAA1632	18	43438727	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	10166551	43438727	34638521	438	52941										
STARD6	147323	broad.mit.edu	37	chr18	51851222	51851222	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tttctgtctggacaaacatcActagtttggaatatgctggg	10	7	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:51851222A>G	uc010xdt.1	-	6	503	c.503T>C	c.(502-504)GTG>GCG	p.V168A		NM_139171	NP_631910	P59095	STAR6_HUMAN	START domain containing protein 6	168	START.				lipid transport		lipid binding			ovary(1)	1				Colorectal(16;0.021)|READ - Rectum adenocarcinoma(59;0.188)		GACAAACATCACTAGTTTGGA	0.333													37	101	---	---	---	---	PASS	G	51851222	G	G	51851222	3	3	148	1	0	0	0	0	1	0	0	0	15260	159	6	5	162	5	STARD6	18	51851222	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	8412495	51851222	26226026	439	52942										
ST8SIA3	51046	broad.mit.edu	37	chr18	55020104	55020104	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aactgcaaaatggcccgggtCgccagtgtgctggggctggt	16	10	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:55020104C>A	uc002lgn.2	+	1	384	c.27C>A	c.(25-27)GTC>GTA	p.V9V		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	9	Cytoplasmic (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		TGGCCCGGGTCGCCAGTGTGC	0.572													20	45	---	---	---	---	PASS	A	55020104	A	A	55020104	2	1	148	1	0	0	0	0	0	0	0	1	15232	871	31	2		2	ST8SIA3	18	55020104	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	3168882	55020104	23057144	440	52943										
ALPK2	115701	broad.mit.edu	37	chr18	56274632	56274632	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgccactcccatcgatggccTgaccattcttataccaagtt	6	14	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:56274632T>G	uc002lhj.3	-	3	363	c.149A>C	c.(148-150)CAG>CCG	p.Q50P		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	50	Ig-like 1.						ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						ATCGATGGCCTGACCATTCTT	0.363													40	107	---	---	---	---	PASS	G	56274632	G	G	56274632	3	3	148	1	0	0	0	0	1	0	0	0	545	1580	55	5	6407	5	ALPK2	18	56274632	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	1254528	56274632	21802616	441	52944										
PIGN	23556	broad.mit.edu	37	chr18	59768385	59768385	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gactactctgagtgctatacAcaacatacatggagagcact	8	10	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:59768385A>G	uc002lii.3	-	23	2448	c.2000T>C	c.(1999-2001)GTG>GCG	p.V667A	PIGN_uc002lij.3_Missense_Mutation_p.V667A	NM_176787	NP_789744	O95427	PIGN_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	667	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphotransferase activity, for other substituted phosphate groups			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5		Colorectal(73;0.187)				AGTGCTATACACAACATACAT	0.398													34	99	---	---	---	---	PASS	G	59768385	G	G	59768385	3	3	148	1	0	0	0	0	1	0	0	0	11893	159	6	5	835	5	PIGN	18	59768385	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	3493753	59768385	18308863	442	52945										
ZNF236	7776	broad.mit.edu	37	chr18	74620347	74620347	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgacagcactgtagaccagcAgagcatgcaggcctccactc	10	14	0	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:74620347A>T	uc002lmi.2	+	14	2561	c.2363A>T	c.(2362-2364)CAG>CTG	p.Q788L	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	788					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GTAGACCAGCAGAGCATGCAG	0.562													72	122	---	---	---	---	PASS	T	74620347	T	T	74620347	3	4	148	1	0	0	0	0	1	0	0	0	17786	188	7	5	2417	5	ZNF236	18	74620347	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	14851962	74620347	3456901	443	52946										
MUC16	94025	broad.mit.edu	37	chr19	8999556	8999556	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctttggtggctgccccatccTtcttgggcctggggagggca	15	12	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:8999556T>A	uc002mkp.2	-	56	40823	c.40619A>T	c.(40618-40620)AAG>ATG	p.K13540M	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.K357M|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13542	SEA 10.|Extracellular (Potential).			Missing (in Ref. 3; AAK74120).	cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGCCCCATCCTTCTTGGGCCT	0.602													37	28	---	---	---	---	PASS	A	8999556	A	A	8999556	3	1	148	1	0	0	0	0	1	0	0	0	9973	1609	56	5	3020	5	MUC16	19	8999556	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08		8999556	50129427	444	52947										
FAM125A	93343	broad.mit.edu	37	chr19	17531190	17531190	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcgcagaaatctggctacttCctgtgccttagttctctggg	11	11	2	1	rs142361127		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:17531190C>T	uc002ngo.1	+	2	192	c.159C>T	c.(157-159)TTC>TTT	p.F53F	FAM125A_uc002ngn.1_Silent_p.F53F|FAM125A_uc002ngp.1_5'UTR|FAM125A_uc002ngq.1_5'Flank	NM_138401	NP_612410	Q96EY5	F125A_HUMAN	family with sequence similarity 125, member A	53	MABP.				protein transport	late endosome membrane|microtubule organizing center|nucleus	SH3 domain binding				0						CTGGCTACTTCCTGTGCCTTA	0.637													31	27	---	---	---	---	PASS	T	17531190	T	T	17531190	2	4	148	1	0	0	0	0	0	0	0	1	5427	854	30	2		2	FAM125A	19	17531190	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	8531634	17531190	41597793	445	52948										
PIK3R2	5296	broad.mit.edu	37	chr19	18279951	18279951	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cgcacggccaccggcttcggCttcgcggagccctacaacct	11	18	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:18279951C>G	uc002nia.1	+	16	2546	c.2034C>G	c.(2032-2034)GGC>GGG	p.G678G	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	678	SH2 2.				fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						CCGGCTTCGGCTTCGCGGAGC	0.677													17	12	---	---	---	---	PASS	G	18279951	G	G	18279951	2	3	148	1	0	0	0	0	0	0	0	1	11919	784	28	4		4	PIK3R2	19	18279951	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	748761	18279951	40849032	446	52949										
KLHL26	55295	broad.mit.edu	37	chr19	18779381	18779381	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gctacgacccccacctgaatCgctggctgcgcctgcaggcc	11	18	0	1	rs141330016	by1000genomes	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:18779381C>T	uc002njz.1	+	3	1201	c.1174C>T	c.(1174-1176)CGC>TGC	p.R392C		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	392	Kelch 2.									ovary(1)	1						CCACCTGAATCGCTGGCTGCG	0.677													7	1	---	---	---	---	PASS	T	18779381	T	T	18779381	3	4	148	1	0	0	0	0	1	0	0	0	8381	884	31	2	1184	2	KLHL26	19	18779381	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	499430	18779381	40349602	447	52950										
SFRS14	10147	broad.mit.edu	37	chr19	19115332	19115332	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acggggctctcctgagaaccCgtggtgtcaccaccaccagt	11	15	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:19115332C>A	uc002nkx.2	-	7	2720	c.2574G>T	c.(2572-2574)ACG>ACT	p.T858T	SFRS14_uc002nkz.1_Silent_p.T872T|SFRS14_uc002nla.1_Silent_p.T858T|SFRS14_uc002nlb.2_Silent_p.T858T|SFRS14_uc010xqk.1_Silent_p.T627T	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	858					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			CCTGAGAACCCGTGGTGTCAC	0.537													4	127	---	---	---	---	PASS	A	19115332	A	A	19115332	2	1	148	1	0	0	0	0	0	0	0	1	14170	639	23	1		1	SFRS14	19	19115332	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	335951	19115332	40013651	448	52951										
RFXANK	8625	broad.mit.edu	37	chr19	19308355	19308355	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aacctcgtcaacaagccagaCgagcgcggcttcacccccct	8	18	2	1	rs139803434	byFrequency	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:19308355C>T	uc002nls.2	+	6	868	c.363C>T	c.(361-363)GAC>GAT	p.D121D	RFXANK_uc002nlt.2_Silent_p.D98D|RFXANK_uc002nlu.2_Silent_p.D99D|RFXANK_uc002nlv.2_Silent_p.D121D|RFXANK_uc002nlw.2_Silent_p.D120D	NM_003721	NP_003712	O14593	RFXK_HUMAN	regulatory factor X-associated	121						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(2)	2			Epithelial(12;0.00228)			ACAAGCCAGACGAGCGCGGCT	0.652													7	35	---	---	---	---	PASS	T	19308355	T	T	19308355	2	4	148	1	0	0	0	0	0	0	0	1	13269	535	19	1		1	RFXANK	19	19308355	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	193023	19308355	39820628	449	52952										
ZNF99	7652	broad.mit.edu	37	chr19	22952023	22952023	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggaagaccaggtttctgtagTtctctaacataacattccta	7	9	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:22952023T>A	uc010xrh.1	-	2	170	c.170A>T	c.(169-171)AAC>ATC	p.N57I		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				GTTTCTGTAGTTCTCTAACAT	0.388													5	100	---	---	---	---	PASS	A	22952023	A	A	22952023	3	1	148	1	0	0	0	0	1	0	0	0	18201	1725	60	5	2966	5	ZNF99	19	22952023	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	3643668	22952023	36176960	450	52953										
ZNF91	7644	broad.mit.edu	37	chr19	23542902	23542902	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtagggtttctctccagtaTgaattatcttatgtgtagta	9	5	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:23542902T>C	uc002nre.2	-	4	2992	c.2879A>G	c.(2878-2880)CAT>CGT	p.H960R	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.H928R	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	960	C2H2-type 29.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				CTCTCCAGTATGAATTATCTT	0.383													55	60	---	---	---	---	PASS	C	23542902	C	C	23542902	3	2	148	1	0	0	0	0	1	0	0	0	18197	1464	51	5	700	5	ZNF91	19	23542902	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	590879	23542902	35586081	451	52954										
ZNF91	7644	broad.mit.edu	37	chr19	23544923	23544923	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggtttctctccagtgtgtatCctcttatgtctagttagggt	10	8	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:23544923C>A	uc002nre.2	-	4	971	c.858G>T	c.(856-858)AGG>AGT	p.R286S	ZNF91_uc010xrj.1_Missense_Mutation_p.R254S	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	286	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				CAGTGTGTATCCTCTTATGTC	0.373													72	91	---	---	---	---	PASS	A	23544923	A	A	23544923	3	1	148	1	0	0	0	0	1	0	0	0	18197	854	30	2	2721	2	ZNF91	19	23544923	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	2021	23544923	35584060	452	52955										
CCDC123	84902	broad.mit.edu	37	chr19	33439273	33439273	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcacctcatgtaacaatggcAcctttttgttataaaagaca	5	9	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:33439273A>G	uc002nty.2	-	5	583	c.494T>C	c.(493-495)GTG>GCG	p.V165A	CCDC123_uc002ntx.2_5'UTR|CCDC123_uc010edg.2_RNA|CCDC123_uc002ntz.1_Missense_Mutation_p.V165A|CCDC123_uc002nua.2_Missense_Mutation_p.V165A|CCDC123_uc002nub.1_Missense_Mutation_p.V57A	NM_032816	NP_116205	Q96ST8	CEP89_HUMAN	coiled-coil domain containing 123	165						centrosome|spindle pole					0	Esophageal squamous(110;0.137)					TAACAATGGCACCTTTTTGTT	0.403													10	34	---	---	---	---	PASS	G	33439273	G	G	33439273	3	3	148	1	0	0	0	0	1	0	0	0	2759	173	6	5	1917	5	CCDC123	19	33439273	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	9894350	33439273	25689710	453	52956										
ZNF302	55900	broad.mit.edu	37	chr19	35175835	35175835	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aaagtcttttagtcgtgtgtCccttctcattcagcatctaa	6	10	4	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:35175835C>G	uc002nvr.1	+	6	1288	c.1025C>G	c.(1024-1026)TCC>TGC	p.S342C	ZNF302_uc002nvp.1_Missense_Mutation_p.S298C|ZNF302_uc002nvq.1_Missense_Mutation_p.S298C|ZNF302_uc002nvs.1_Missense_Mutation_p.S298C	NM_018443	NP_060913	Q9NR11	ZN302_HUMAN	zinc finger protein 302	377	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;6.16e-07)|Lung NSC(56;9.71e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			AGTCGTGTGTCCCTTCTCATT	0.428													11	248	---	---	---	---	PASS	G	35175835	G	G	35175835	3	3	148	1	0	0	0	0	1	0	0	0	17829	855	30	2	907	2	ZNF302	19	35175835	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	1736562	35175835	23953148	454	52957										
ZNF302	55900	broad.mit.edu	37	chr19	35175852	35175852	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtcccttctcattcagcatCtaagaattcatacgcaagaa	5	11	4	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:35175852C>G	uc002nvr.1	+	6	1305	c.1042C>G	c.(1042-1044)CTA>GTA	p.L348V	ZNF302_uc002nvp.1_Missense_Mutation_p.L304V|ZNF302_uc002nvq.1_Missense_Mutation_p.L304V|ZNF302_uc002nvs.1_Missense_Mutation_p.L304V	NM_018443	NP_060913	Q9NR11	ZN302_HUMAN	zinc finger protein 302	383	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;6.16e-07)|Lung NSC(56;9.71e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			CATTCAGCATCTAAGAATTCA	0.418													14	247	---	---	---	---	PASS	G	35175852	G	G	35175852	3	3	148	1	0	0	0	0	1	0	0	0	17829	912	32	2	924	2	ZNF302	19	35175852	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	17	35175852	23953131	455	52958										
ZNF146	7705	broad.mit.edu	37	chr19	36727715	36727715	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	accagagaactcacacaggaGagaagccctttgtatgtaag	10	9	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:36727715G>T	uc002odq.3	+	4	1896	c.373G>T	c.(373-375)GAG>TAG	p.E125*	ZNF146_uc010eet.2_Nonsense_Mutation_p.E125*|ZNF146_uc010eeu.2_Nonsense_Mutation_p.E125*	NM_007145	NP_009076	Q15072	OZF_HUMAN	zinc finger protein 146	125					regulation of transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|heparin binding|zinc ion binding				0	Esophageal squamous(110;0.162)					TCACACAGGAGAGAAGCCCTT	0.408													64	234	---	---	---	---	PASS	T	36727715	T	T	36727715	4	4	148	1	0	0	0	0	0	1	0	0	17730	943	33	2	375	2	ZNF146	19	36727715	Nonsense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	1551863	36727715	22401268	456	52959										
SUPT5H	6829	broad.mit.edu	37	chr19	39955614	39955614	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acagacgtgctcaaagtggtGaaggaggtggccaacctgaa	14	8	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:39955614G>A	uc002olo.3	+	11	980	c.801G>A	c.(799-801)GTG>GTA	p.V267V	SUPT5H_uc002olp.3_Silent_p.V267V|SUPT5H_uc002olq.3_Silent_p.V263V|SUPT5H_uc002oln.3_Silent_p.V267V|SUPT5H_uc002olr.3_Silent_p.V267V|SUPT5H_uc002ols.1_5'Flank	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	267	Interaction with SUPT4H1.				cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			TCAAAGTGGTGAAGGAGGTGG	0.607													40	717	---	---	---	---	PASS	A	39955614	A	A	39955614	2	1	148	1	0	0	0	0	0	0	0	1	15396	1277	45	2		2	SUPT5H	19	39955614	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	3227899	39955614	19173369	457	52960										
FCGBP	8857	broad.mit.edu	37	chr19	40433534	40433534	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tagtgggtgccccaggcagaCgtgggtagcagctgctcaac	15	11	1	1	rs142265008		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:40433534C>T	uc002omp.3	-	2	743	c.735G>A	c.(733-735)ACG>ACA	p.T245T		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	245	IgGFc-binding.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CCCAGGCAGACGTGGGTAGCA	0.582													54	331	---	---	---	---	PASS	T	40433534	T	T	40433534	2	4	148	1	0	0	0	0	0	0	0	1	5778	523	19	1		1	FCGBP	19	40433534	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	477920	40433534	18695449	458	52961										
KLK3	354	broad.mit.edu	37	chr19	51359544	51359544	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtgggaggctgggagtgcgAgaagcattcccaaccctggc	16	10	0	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:51359544A>G	uc002pts.1	+	2	136	c.95A>G	c.(94-96)GAG>GGG	p.E32G	KLK3_uc002ptp.1_Missense_Mutation_p.E32G|KLK3_uc010ycj.1_Missense_Mutation_p.E32G|KLK3_uc002ptr.1_Missense_Mutation_p.E32G|KLK3_uc010eof.1_RNA	NM_001030047	NP_001025218	P07288	KLK3_HUMAN	prostate specific antigen isoform 3	32	Peptidase S1.				negative regulation of angiogenesis|proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00763)|GBM - Glioblastoma multiforme(134;0.0144)		TGGGAGTGCGAGAAGCATTCC	0.637													68	68	---	---	---	---	PASS	G	51359544	G	G	51359544	3	3	148	1	0	0	0	0	1	0	0	0	8405	304	11	5	101	5	KLK3	19	51359544	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08	10926010	51359544	7769439	459	52962										
NLRP11	204801	broad.mit.edu	37	chr19	56321463	56321463	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttctgccacatctcacccttGatccacctcaacacagccag	4	18	3	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:56321463G>A	uc010ygf.1	-	5	1224	c.513C>T	c.(511-513)ATC>ATT	p.I171I	NLRP11_uc002qlz.2_Silent_p.I72I|NLRP11_uc002qmb.2_Silent_p.I72I|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	171	NACHT.						ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		TCTCACCCTTGATCCACCTCA	0.453													36	30	---	---	---	---	PASS	A	56321463	A	A	56321463	2	1	148	1	0	0	0	0	0	0	0	1	10473	1280	45	2		2	NLRP11	19	56321463	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	4961919	56321463	2807520	460	52963										
SNPH	9751	broad.mit.edu	37	chr20	1285934	1285934	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gcggctctgctgaggatgggGcagacagtggctttgcagca	17	9	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:1285934G>A	uc002wes.2	+	6	957	c.721G>A	c.(721-723)GCA>ACA	p.A241T	SNPH_uc002wet.2_Missense_Mutation_p.A285T	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	241					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						TGAGGATGGGGCAGACAGTGG	0.667													7	37	---	---	---	---	PASS	A	1285934	A	A	1285934	3	1	148	1	0	0	0	0	1	0	0	0	14850	1203	42	3	735	3	SNPH	20	1285934	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08		1285934	61739586	461	52964										
PAK7	57144	broad.mit.edu	37	chr20	9520247	9520247	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aacatcaagtctaggaatccCcggagcactgaagaaacctg	9	11	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:9520247C>A	uc002wnl.2	-	11	2567	c.2022G>T	c.(2020-2022)CGG>CGT	p.R674R	PAK7_uc002wnk.2_Silent_p.R674R|PAK7_uc002wnj.2_Silent_p.R674R|PAK7_uc010gby.1_Silent_p.R587R	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	674	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			CTAGGAATCCCCGGAGCACTG	0.488													138	164	---	---	---	---	PASS	A	9520247	A	A	9520247	2	1	148	1	0	0	0	0	0	0	0	1	11405	610	22	3		3	PAK7	20	9520247	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	8234313	9520247	53505273	462	52965										
PAK7	57144	broad.mit.edu	37	chr20	9538334	9538334	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggttatgaaggtaggagagaGctctcagaactgacaggcag	15	6	1	4			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:9538334G>T	uc002wnl.2	-	8	2209	c.1664C>A	c.(1663-1665)GCT>GAT	p.A555D	PAK7_uc002wnk.2_Missense_Mutation_p.A555D|PAK7_uc002wnj.2_Missense_Mutation_p.A555D|PAK7_uc010gby.1_Missense_Mutation_p.A555D	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	555	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			GTAGGAGAGAGCTCTCAGAAC	0.428													61	74	---	---	---	---	PASS	T	9538334	T	T	9538334	3	4	148	1	0	0	0	0	1	0	0	0	11405	971	34	3	511	3	PAK7	20	9538334	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	18087	9538334	53487186	463	52966										
NCOA6	23054	broad.mit.edu	37	chr20	33328472	33328472	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	actgctctgttcccatgagcCccggagctgtggtgtctagc	12	13	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:33328472C>A	uc002xav.2	-	12	8159	c.5588G>T	c.(5587-5589)GGG>GTG	p.G1863V	NCOA6_uc002xaw.2_Missense_Mutation_p.G1863V	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1863	EP300/CRSP3-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						TCCCATGAGCCCCGGAGCTGT	0.537													107	141	---	---	---	---	PASS	A	33328472	A	A	33328472	3	1	148	1	0	0	0	0	1	0	0	0	10233	623	22	3	623	3	NCOA6	20	33328472	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	23790138	33328472	29697048	464	52967										
C20orf117	140710	broad.mit.edu	37	chr20	35443639	35443639	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctgttccttgacagagcaccCgaggactgcatctgccttcc	9	15	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:35443639C>T	uc002xgd.1	-	5	1819	c.1492G>A	c.(1492-1494)GGG>AGG	p.G498R	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	498											0		Myeloproliferative disorder(115;0.00874)				ACAGAGCACCCGAGGACTGCA	0.607													46	169	---	---	---	---	PASS	T	35443639	T	T	35443639	3	4	148	1	0	0	0	0	1	0	0	0	2083	652	23	1	2885	1	C20orf117	20	35443639	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	2115167	35443639	27581881	465	52968										
R3HDML	140902	broad.mit.edu	37	chr20	42969916	42969916	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	catgggccttcacagctgatGagatacgtgggccagaacct	12	11	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:42969916G>C	uc002xls.1	+	2	514	c.342G>C	c.(340-342)ATG>ATC	p.M114I		NM_178491	NP_848586	Q9H3Y0	CRSPL_HUMAN	R3H domain containing-like precursor	114						extracellular region	peptidase inhibitor activity				0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			CACAGCTGATGAGATACGTGG	0.498													26	43	---	---	---	---	PASS	C	42969916	C	C	42969916	3	2	148	1	0	0	0	0	1	0	0	0	12889	1290	45	2	348	2	R3HDML	20	42969916	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	7526277	42969916	20055604	466	52969										
CDH22	64405	broad.mit.edu	37	chr20	44869816	44869816	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atgtcgcctgtcagctcgtcGatcaggaagatggtcccagc	12	12	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:44869816G>T	uc002xrm.2	-	2	737	c.336C>A	c.(334-336)ATC>ATA	p.I112I	CDH22_uc010ghk.1_Silent_p.I112I	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	112	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				TCAGCTCGTCGATCAGGAAGA	0.617													18	43	---	---	---	---	PASS	T	44869816	T	T	44869816	2	4	148	1	0	0	0	0	0	0	0	1	3107	1048	37	2		2	CDH22	20	44869816	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	1899900	44869816	18155704	467	52970										
DIDO1	11083	broad.mit.edu	37	chr20	61528146	61528146	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggggtagcggagagccatggCctcttggggatggtgccctt	18	9	1	1	rs140512956		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:61528146C>T	uc002ydr.1	-	7	2055	c.1791G>A	c.(1789-1791)AGG>AGA	p.R597R	DIDO1_uc002yds.1_Silent_p.R597R|DIDO1_uc002ydt.1_Silent_p.R597R|DIDO1_uc002ydu.1_Silent_p.R597R	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	597					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					AGAGCCATGGCCTCTTGGGGA	0.592													26	106	---	---	---	---	PASS	T	61528146	T	T	61528146	2	4	148	1	0	0	0	0	0	0	0	1	4522	738	26	3		3	DIDO1	20	61528146	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	16658330	61528146	1497374	468	52971										
PRIC285	85441	broad.mit.edu	37	chr20	62196785	62196785	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tctggcacgaaagagcagtgGcggtaccgctcgggctccgc	15	13	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:62196785G>A	uc002yfm.2	-	9	4282	c.3390C>T	c.(3388-3390)CGC>CGT	p.R1130R	PRIC285_uc002yfl.1_Silent_p.R561R	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1130					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			AAGAGCAGTGGCGGTACCGCT	0.706													4	4	---	---	---	---	PASS	A	62196785	A	A	62196785	2	1	148	1	0	0	0	0	0	0	0	1	12485	1190	42	3		3	PRIC285	20	62196785	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	668639	62196785	828735	469	52972										
NPBWR2	2832	broad.mit.edu	37	chr20	62737593	62737593	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gggccacgggaagctcagccCacagcttgggacctgcagct	14	14	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:62737593C>A	uc011abt.1	-	1	592	c.592G>T	c.(592-594)GGG>TGG	p.G198W		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	198	Extracellular (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					AAGCTCAGCCCACAGCTTGGG	0.632													10	31	---	---	---	---	PASS	A	62737593	A	A	62737593	3	1	148	1	0	0	0	0	1	0	0	0	10569	594	21	3	412	3	NPBWR2	20	62737593	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	540808	62737593	287927	470	52973										
RBM11	54033	broad.mit.edu	37	chr21	15591942	15591942	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agaaggaaagccaaagtcttTtggatttgtctgctttaaac	9	6	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr21:15591942T>C	uc002yjo.3	+	2	197	c.155T>C	c.(154-156)TTT>TCT	p.F52S	RBM11_uc002yjn.3_5'UTR|RBM11_uc002yjp.3_Intron	NM_144770	NP_658983	P57052	RBM11_HUMAN	RNA binding motif protein 11	52	RRM.						nucleotide binding|RNA binding				0				Epithelial(23;0.000314)|COAD - Colon adenocarcinoma(22;0.00242)|Colorectal(24;0.0129)|Lung(58;0.141)		CCAAAGTCTTTTGGATTTGTC	0.373													18	10	---	---	---	---	PASS	C	15591942	C	C	15591942	3	2	148	1	0	0	0	0	1	0	0	0	13112	1841	64	5	161	5	RBM11	21	15591942	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08		15591942	32537953	471	52974										
SFRS15	57466	broad.mit.edu	37	chr21	33074095	33074095	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agtagacagtttacctgttgGccttgagttgtctgaaacag	11	7	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr21:33074095G>T	uc002ypd.2	-	6	1020	c.594C>A	c.(592-594)GGC>GGA	p.G198G	SFRS15_uc002ype.2_Silent_p.G198G|SFRS15_uc010glu.2_Silent_p.G183G|SFRS15_uc002ypf.1_5'UTR|SFRS15_uc002ypg.2_Silent_p.G198G	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	198						nucleus	nucleotide binding|RNA binding				0						TTACCTGTTGGCCTTGAGTTG	0.453													21	27	---	---	---	---	PASS	T	33074095	T	T	33074095	2	4	148	1	0	0	0	0	0	0	0	1	14171	1190	42	3		3	SFRS15	21	33074095	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	17482153	33074095	15055800	472	52975										
POTEH	23784	broad.mit.edu	37	chr22	16287437	16287437	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aagggcccactttgttcttgCcgctccccctgcagcagggg	12	15	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr22:16287437C>A	uc010gqp.2	-	1	501	c.449G>T	c.(448-450)GGC>GTC	p.G150V	POTEH_uc002zlg.1_5'Flank|POTEH_uc002zlh.1_5'Flank|POTEH_uc002zlj.1_Intron	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	150										skin(1)	1						TTTGTTCTTGCCGCTCCCCCT	0.592													47	190	---	---	---	---	PASS	A	16287437	A	A	16287437	3	1	148	1	0	0	0	0	1	0	0	0	12267	739	26	3	1228	3	POTEH	22	16287437	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08		16287437	35017129	473	52976										
C22orf29	79680	broad.mit.edu	37	chr22	19839124	19839124	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	catgtcgagtgccaggccctCtaagaacctagctaagtatt	9	11	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr22:19839124C>G	uc002zqg.2	-	2	1260	c.661G>C	c.(661-663)GAG>CAG	p.E221Q	GNB1L_uc002zqd.1_Intron|GNB1L_uc002zqe.1_Intron|GNB1L_uc002zqf.1_Intron|C22orf29_uc002zqh.2_Missense_Mutation_p.E221Q|C22orf29_uc002zqi.2_Missense_Mutation_p.E221Q|C22orf29_uc010grt.1_Intron	NM_024627	NP_078903	Q7L3V2	CV029_HUMAN	hypothetical protein LOC79680	221											0	Colorectal(54;0.0993)					GCCAGGCCCTCTAAGAACCTA	0.602													27	64	---	---	---	---	PASS	G	19839124	G	G	19839124	3	3	148	1	0	0	0	0	1	0	0	0	2141	922	32	2	437	2	C22orf29	22	19839124	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3551687	19839124	31465442	474	52977										
RFPL3	10738	broad.mit.edu	37	chr22	32756325	32756325	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tccgaagtgggctcatcacaCagaatcggcaagaccttgcc	10	13	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr22:32756325C>T	uc003amj.2	+	2	665	c.460C>T	c.(460-462)CAG>TAG	p.Q154*	RFPL3_uc010gwn.2_Nonsense_Mutation_p.Q125*|RFPL3S_uc003amk.2_RNA|RFPL3S_uc003aml.2_RNA	NM_001098535	NP_001092005	O75679	RFPL3_HUMAN	ret finger protein-like 3 isoform 1	154	B30.2/SPRY.						zinc ion binding			ovary(1)	1						GCTCATCACACAGAATCGGCA	0.557													45	121	---	---	---	---	PASS	T	32756325	T	T	32756325	4	4	148	1	0	0	0	0	0	1	0	0	13255	479	17	3	466	3	RFPL3	22	32756325	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	12917201	32756325	18548241	475	52978										
RASD2	23551	broad.mit.edu	37	chr22	35942983	35942983	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgtctcgcttcctcaatggcCgctttgaggaccagtacaca	9	13	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr22:35942983C>T	uc003anx.2	+	2	332	c.127C>T	c.(127-129)CGC>TGC	p.R43C	RASD2_uc003any.2_Missense_Mutation_p.R43C	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	43					locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3						CCTCAATGGCCGCTTTGAGGA	0.582													5	21	---	---	---	---	PASS	T	35942983	T	T	35942983	3	4	148	1	0	0	0	0	1	0	0	0	13067	652	23	1	129	1	RASD2	22	35942983	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	3186658	35942983	15361583	476	52979										
ZC3H7B	23264	broad.mit.edu	37	chr22	41745268	41745268	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgccacttcgcccacagcttCatcgagctcaaggtctggct	9	15	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr22:41745268C>T	uc003azw.2	+	16	2127	c.1911C>T	c.(1909-1911)TTC>TTT	p.F637F	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	653	C3H1-type 2.				interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						CCCACAGCTTCATCGAGCTCA	0.652													18	39	---	---	---	---	PASS	T	41745268	T	T	41745268	2	4	148	1	0	0	0	0	0	0	0	1	17570	825	29	2		2	ZC3H7B	22	41745268	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	5802285	41745268	9559298	477	52980										
DHRSX	207063	broad.mit.edu	37	chrX	2184904	2184904	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tatccaagagaaggttggtcAgcaggaagtgccctaggtag	14	7	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:2184904A>G	uc004cqf.3	-	5	522	c.473T>C	c.(472-474)CTG>CCG	p.L158P		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	158							binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				AAGGTTGGTCAGCAGGAAGTG	0.547													96	194	---	---	---	---	PASS	G	2184904	G	G	2184904	3	3	148	1	0	0	0	0	1	0	0	0	4499	188	7	5	531	5	DHRSX	23	2184904	Missense_Mutation	SNP	A	TCGA-66-2759-01A-01D-1522-08		2184904	153085656	478	52981										
PNPLA4	8228	broad.mit.edu	37	chrX	7880069	7880069	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ctcagttataacaagcttacCtgccctttgtattccactag	5	12	1	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:7880069C>A	uc011mhq.1	-	5	639	c.477G>T	c.(475-477)CAG>CAT	p.Q159H	PNPLA4_uc011mhr.1_Missense_Mutation_p.Q159H|PNPLA4_uc011mhs.1_Missense_Mutation_p.Q72H	NM_004650	NP_004641	P41247	PLPL4_HUMAN	patatin-like phospholipase domain containing 4	159	Patatin.				lipid catabolic process		triglyceride lipase activity				0		Colorectal(8;0.0329)|Medulloblastoma(8;0.232)				ACAAGCTTACCTGCCCTTTGT	0.368													44	33	---	---	---	---	PASS	A	7880069	A	A	7880069	3	1	148	1	0	0	0	0	1	0	0	0	12167	695	24	3	296	3	PNPLA4	23	7880069	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	5695165	7880069	147390491	479	52982										
GRPR	2925	broad.mit.edu	37	chrX	16170751	16170751	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tcatcaatggaaacatctgtCacgagcggtatgtctagatt	9	8	5	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:16170751C>A	uc004cxj.2	+	3	1791	c.1138C>A	c.(1138-1140)CAC>AAC	p.H380N		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	380	Cytoplasmic (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					AAACATCTGTCACGAGCGGTA	0.522													118	75	---	---	---	---	PASS	A	16170751	A	A	16170751	3	1	148	1	0	0	0	0	1	0	0	0	6808	826	29	2	1148	2	GRPR	23	16170751	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	8290682	16170751	139099809	480	52983										
CNKSR2	22866	broad.mit.edu	37	chrX	21627282	21627282	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cttctcatgaggagtttcgcCaggaagtaactgggagcagt	13	8	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:21627282C>A	uc004czx.1	+	20	2275	c.2239C>A	c.(2239-2241)CAG>AAG	p.Q747K	CNKSR2_uc004czw.2_Missense_Mutation_p.Q747K|CNKSR2_uc011mjn.1_Missense_Mutation_p.Q698K|CNKSR2_uc011mjo.1_Missense_Mutation_p.Q717K|CNKSR2_uc004czy.2_Missense_Mutation_p.Q339K	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	747					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						GGAGTTTCGCCAGGAAGTAAC	0.522													61	30	---	---	---	---	PASS	A	21627282	A	A	21627282	3	1	148	1	0	0	0	0	1	0	0	0	3607	595	21	3	2317	3	CNKSR2	23	21627282	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	5456531	21627282	133643278	481	52984										
KLHL34	257240	broad.mit.edu	37	chrX	21675230	21675230	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtacgtcggcgggaaccaggCcaaagcggacacgctccagc	14	14	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:21675230C>A	uc004czz.1	-	1	1219	c.677G>T	c.(676-678)GGC>GTC	p.G226V		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	226	BACK.									ovary(1)	1						GGGAACCAGGCCAAAGCGGAC	0.667													7	6	---	---	---	---	PASS	A	21675230	A	A	21675230	3	1	148	1	0	0	0	0	1	0	0	0	8387	739	26	3	1261	3	KLHL34	23	21675230	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	47948	21675230	133595330	482	52985										
DMD	1756	broad.mit.edu	37	chrX	31676156	31676156	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gatattctctgttatcatgtGgacttttctggtatcatctg	8	7	5	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:31676156G>A	uc004dda.1	-	54	8222	c.7978C>T	c.(7978-7980)CAC>TAC	p.H2660Y	DMD_uc004dcr.1_Missense_Mutation_p.H200Y|DMD_uc004dcs.1_Missense_Mutation_p.H200Y|DMD_uc004dct.1_Missense_Mutation_p.H200Y|DMD_uc004dcu.1_Missense_Mutation_p.H200Y|DMD_uc004dcv.1_Missense_Mutation_p.H200Y|DMD_uc004dcw.2_Missense_Mutation_p.H1316Y|DMD_uc004dcx.2_Missense_Mutation_p.H1319Y|DMD_uc004dcz.2_Missense_Mutation_p.H2537Y|DMD_uc004dcy.1_Missense_Mutation_p.H2656Y|DMD_uc004ddb.1_Missense_Mutation_p.H2652Y	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2660	Spectrin 18.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GTTATCATGTGGACTTTTCTG	0.418													35	89	---	---	---	---	PASS	A	31676156	A	A	31676156	3	1	148	1	0	0	0	0	1	0	0	0	4580	1348	47	3	3331	3	DMD	23	31676156	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	10000926	31676156	123594404	483	52986										
XK	7504	broad.mit.edu	37	chrX	37545361	37545361	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ttctcgctactgccttgcgcGctcgtgcagctcacgcttct	9	16	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:37545361G>T	uc004ddq.2	+	1	229	c.147G>T	c.(145-147)GCG>GCT	p.A49A		NM_021083	NP_066569	P51811	XK_HUMAN	membrane transport protein XK	49	Helical; (Potential).				amino acid transport	integral to membrane	protein binding|transporter activity				0		all_lung(315;0.175)				TGCCTTGCGCGCTCGTGCAGC	0.662													8	9	---	---	---	---	PASS	T	37545361	T	T	37545361	2	4	148	1	0	0	0	0	0	0	0	1	17428	1074	38	1		1	XK	23	37545361	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	5869205	37545361	117725199	484	52987										
USP9X	8239	broad.mit.edu	37	chrX	41075504	41075505	+	Frame_Shift_Ins	INS	-	T	T													0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggtggagatggtgagagaaaINStcgctggtataaatttgatg							TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:41075504_41075505insT	uc004dfb.2	+	35	6317_6318	c.5684_5685insT	c.(5683-5685)AATfs	p.N1895fs	USP9X_uc004dfc.2_Frame_Shift_Ins_p.N1895fs	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1895					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						GGTGAGAGAAATCGCTGGTATA	0.416													42	68	---	---	---	---		T	41075505	T	T	41075504	7	5	148	1	0	1	1	0	0	0	0	0	17087	101	4	0	5818	0	USP9X	23	41075504	Frame_Shift_Ins	INS	-	TCGA-66-2759-01A-01D-1522-08	3530143	41075504	114195056	485	52988										
PORCN	64840	broad.mit.edu	37	chrX	48369716	48369716	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cctgaagcatgcaagcaccgTggcaggcgggttcttcagcc	13	13	2	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:48369716T>A	uc010nie.1	+	3	328	c.170T>A	c.(169-171)GTG>GAG	p.V57E	PORCN_uc004djq.1_Missense_Mutation_p.V170E|PORCN_uc004djr.1_Missense_Mutation_p.V57E|PORCN_uc004djs.1_Missense_Mutation_p.V57E|PORCN_uc004djt.1_Intron|PORCN_uc011mlx.1_Intron|PORCN_uc004dju.1_Intron|PORCN_uc004djv.1_Missense_Mutation_p.V57E|PORCN_uc004djw.1_Missense_Mutation_p.V57E	NM_203475	NP_982301	Q9H237	PORCN_HUMAN	porcupine isoform D	57	Extracellular (Potential).|Leu-rich.				Wnt receptor signaling pathway	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(2)|central_nervous_system(1)	3						GCAAGCACCGTGGCAGGCGGG	0.413											OREG0019764	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	81	23	---	---	---	---	PASS	A	48369716	A	A	48369716	3	1	148	1	0	0	0	0	1	0	0	0	12258	1696	59	5	176	5	PORCN	23	48369716	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	7294212	48369716	106900844	486	52989										
HUWE1	10075	broad.mit.edu	37	chrX	53641579	53641579	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cttcctcctcatcctcactaGaggcttcttctgcggcatga	7	15	4	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:53641579G>C	uc004dsp.2	-	23	2579	c.2177C>G	c.(2176-2178)TCT>TGT	p.S726C		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	726					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						ATCCTCACTAGAGGCTTCTTC	0.488													3	127	---	---	---	---	PASS	C	53641579	C	C	53641579	3	2	148	1	0	0	0	0	1	0	0	0	7461	942	33	2	11195	2	HUWE1	23	53641579	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	5271863	53641579	101628981	487	52990										
FAM123B	139285	broad.mit.edu	37	chrX	63410979	63410979	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	atttgcttcttgcatgtctgGctcaaacatggcatcactct	7	11	5	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:63410979G>A	uc004dvo.2	-	2	2461	c.2188C>T	c.(2188-2190)CCA>TCA	p.P730S		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	730					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						TGCATGTCTGGCTCAAACATG	0.507													3	61	---	---	---	---	PASS	A	63410979	A	A	63410979	3	1	148	1	0	0	0	0	1	0	0	0	5423	1203	42	3	1223	3	FAM123B	23	63410979	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	9769400	63410979	91859581	488	52991										
RGAG4	340526	broad.mit.edu	37	chrX	71349717	71349717	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ccacgagcagctcggtggccCccctgtctcggagtgaggcg	15	15	1	1			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:71349717C>A	uc010nlh.1	-	1	2035	c.1674G>T	c.(1672-1674)GGG>GGT	p.G558G	NHSL2_uc011mqa.1_Intron|RGAG4_uc004eaj.1_RNA	NM_001024455	NP_001019626	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	558										ovary(2)|skin(1)	3	Renal(35;0.156)					CTCGGTGGCCCCCCTGTCTCG	0.612													16	12	---	---	---	---	PASS	A	71349717	A	A	71349717	2	1	148	1	0	0	0	0	0	0	0	1	13275	610	22	3		3	RGAG4	23	71349717	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	7938738	71349717	83920843	489	52992										
FAM46D	169966	broad.mit.edu	37	chrX	79698639	79698639	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	taaccaaagaatcctatcctGttgtggtagctgaaagcatg	9	8	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:79698639G>C	uc004edl.1	+	5	935	c.601G>C	c.(601-603)GTT>CTT	p.V201L	FAM46D_uc004edm.1_Missense_Mutation_p.V201L	NM_152630	NP_689843	Q8NEK8	FA46D_HUMAN	hypothetical protein LOC169966	201										lung(2)	2						ATCCTATCCTGTTGTGGTAGC	0.403													62	31	---	---	---	---	PASS	C	79698639	C	C	79698639	3	2	148	1	0	0	0	0	1	0	0	0	5568	1377	48	4	603	4	FAM46D	23	79698639	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	8348922	79698639	75571921	490	52993										
NRK	203447	broad.mit.edu	37	chrX	105166013	105166013	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gaggtctcagtcatcaccacCttattctactattgatcaga	6	11	5	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:105166013C>G	uc004emd.2	+	17	2873	c.2570C>G	c.(2569-2571)CCT>CGT	p.P857R	NRK_uc010npc.1_Missense_Mutation_p.P525R	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	857							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						TCATCACCACCTTATTCTACT	0.348										HNSCC(51;0.14)			12	4	---	---	---	---	PASS	G	105166013	G	G	105166013	3	3	148	1	0	0	0	0	1	0	0	0	10655	681	24	4	2636	4	NRK	23	105166013	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	25467374	105166013	50104547	491	52994										
TEX13B	56156	broad.mit.edu	37	chrX	107225025	107225025	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	tgctgttccttgagttccgtCaggtttgaggccaagaccag	12	10	1	3			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:107225025C>T	uc004enn.1	-	2	426	c.333G>A	c.(331-333)CTG>CTA	p.L111L		NM_031273	NP_112563	Q9BXU2	TX13B_HUMAN	testis expressed 13B	111										ovary(1)	1						TGAGTTCCGTCAGGTTTGAGG	0.577													113	66	---	---	---	---	PASS	T	107225025	T	T	107225025	2	4	148	1	0	0	0	0	0	0	0	1	15774	813	29	2		2	TEX13B	23	107225025	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08	2059012	107225025	48045535	492	52995										
GRIA3	2892	broad.mit.edu	37	chrX	122532510	122532510	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	acatctgcattgacacacgaCgcaatactggtcatagcaga	8	11	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:122532510C>A	uc004etq.3	+	8	1229	c.936C>A	c.(934-936)GAC>GAA	p.D312E	GRIA3_uc004etr.3_Missense_Mutation_p.D312E|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.D296E	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	312	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	TGACACACGACGCAATACTGG	0.428													23	20	---	---	---	---	PASS	A	122532510	A	A	122532510	3	1	148	1	0	0	0	0	1	0	0	0	6769	535	19	1	962	1	GRIA3	23	122532510	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	15307485	122532510	32738050	493	52996										
GRIA3	2892	broad.mit.edu	37	chrX	122537300	122537300	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gtatgaaaggtttgtgccttTctcagatcagcaaatcagca	9	8	3	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:122537300T>A	uc004etq.3	+	10	1516	c.1223T>A	c.(1222-1224)TTC>TAC	p.F408Y	GRIA3_uc004etr.3_Missense_Mutation_p.F408Y|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.F392Y	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	408	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	TTTGTGCCTTTCTCAGATCAG	0.433													143	69	---	---	---	---	PASS	A	122537300	A	A	122537300	3	1	148	1	0	0	0	0	1	0	0	0	6769	1783	62	5	1257	5	GRIA3	23	122537300	Missense_Mutation	SNP	T	TCGA-66-2759-01A-01D-1522-08	4790	122537300	32733260	494	52997										
GRIA3	2892	broad.mit.edu	37	chrX	122561815	122561815	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	actctccgggcgcattgttgGaggggtttggtggttcttca	15	8	3	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:122561815G>C	uc004etq.3	+	13	2194	c.1901G>C	c.(1900-1902)GGA>GCA	p.G634A	GRIA3_uc004etr.3_Missense_Mutation_p.G634A|GRIA3_uc004ets.3_RNA	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	634	Cytoplasmic (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	CGCATTGTTGGAGGGGTTTGG	0.433													128	93	---	---	---	---	PASS	C	122561815	C	C	122561815	3	2	148	1	0	0	0	0	1	0	0	0	6769	1174	41	2	1947	2	GRIA3	23	122561815	Missense_Mutation	SNP	G	TCGA-66-2759-01A-01D-1522-08	24515	122561815	32708745	495	52998										
ENOX2	10495	broad.mit.edu	37	chrX	129813618	129813618	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	aatgatctctccacactgctCgaaaacttccacaatgattt	4	12	1	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:129813618C>A	uc004evw.2	-	7	863	c.445G>T	c.(445-447)GAG>TAG	p.E149*	ENOX2_uc004evx.2_Nonsense_Mutation_p.E120*|ENOX2_uc004evy.2_Nonsense_Mutation_p.E120*|ENOX2_uc004evv.2_5'UTR	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	149	RRM.				cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						CCACACTGCTCGAAAACTTCC	0.493													146	63	---	---	---	---	PASS	A	129813618	A	A	129813618	4	1	148	1	0	0	0	0	0	1	0	0	5127	893	31	2	1427	2	ENOX2	23	129813618	Nonsense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	7251803	129813618	25456942	496	52999										
SOX3	6658	broad.mit.edu	37	chrX	139587162	139587162	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	taggcttatcaaaatgctccGcgccaaatcagcaggaaccc	8	13	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:139587162G>T	uc004fbd.1	-	1	64	c.64C>A	c.(64-66)CGG>AGG	p.R22R		NM_005634	NP_005625	P41225	SOX3_HUMAN	SRY (sex determining region Y)-box 3	22					face development|hypothalamus development|negative regulation of neuron differentiation|pituitary gland development|regulation of transcription, DNA-dependent|sensory organ development|sex determination|transcription, DNA-dependent	nucleus	DNA binding			pancreas(1)	1	Acute lymphoblastic leukemia(192;7.65e-05)					AAAATGCTCCGCGCCAAATCA	0.627													10	5	---	---	---	---	PASS	T	139587162	T	T	139587162	2	4	148	1	0	0	0	0	0	0	0	1	14951	1086	38	1		1	SOX3	23	139587162	Silent	SNP	G	TCGA-66-2759-01A-01D-1522-08	9773544	139587162	15683398	497	53000										
PDZD4	57595	broad.mit.edu	37	chrX	153072196	153072196	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	ggggcatacccgtctgcataCctctccgacataaatgccca	8	15	2	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:153072196C>A	uc004fiz.1	-	4	736	c.486_splice	c.e4+1	p.E162_splice	PDZD4_uc004fiy.1_Splice_Site_p.E87_splice|PDZD4_uc004fix.2_Splice_Site_p.E66_splice|PDZD4_uc004fja.1_Splice_Site_p.E168_splice|PDZD4_uc011mze.1_Splice_Site_p.E53_splice	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4							cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CGTCTGCATACCTCTCCGACA	0.607													23	10	---	---	---	---	PASS	A	153072196	A	A	153072196	5	1	148	1	0	0	0	0	0	0	1	0	11703	521	18	3	1842	3	PDZD4	23	153072196	Splice_Site	SNP	C	TCGA-66-2759-01A-01D-1522-08	13485034	153072196	2198364	498	53001										
TSPY2	64591	broad.mit.edu	37	chrY	6114379	6114379	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	agggttcctgtggcgtgggtCgggcagcacaggccttggtg	19	9	0	0			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrY:6114379C>A	uc004fqr.1	+	1	116	c.70C>A	c.(70-72)CGG>AGG	p.R24R	TTTY23_uc004fqq.1_5'Flank|TSPY2_uc004fqs.1_Silent_p.R24R	NM_022573	NP_072095	A6NKD2	TSPY2_HUMAN	testis specific protein, Y-linked 2	24					cell differentiation|gonadal mesoderm development|nucleosome assembly|spermatogenesis	cytoplasm|nucleus					0						TGGCGTGGGTCGGGCAGCACA	0.711													14	4	---	---	---	---	PASS	A	6114379	A	A	6114379	2	1	148	1	0	0	0	0	0	0	0	1	16655	875	31	2		2	TSPY2	24	6114379	Silent	SNP	C	TCGA-66-2759-01A-01D-1522-08		6114379	53259187	499	53002										
NLGN4Y	22829	broad.mit.edu	37	chrY	16953005	16953005	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	gccggtcgccggatgacatcCcatttatgacgccaaacacc	9	15	0	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrY:16953005C>T	uc004ftg.2	+	6	2566	c.2314C>T	c.(2314-2316)CCA>TCA	p.P772S	NLGN4Y_uc004fte.2_Missense_Mutation_p.P604S|NLGN4Y_uc011nas.1_Missense_Mutation_p.P792S|NLGN4Y_uc004ftf.2_Missense_Mutation_p.P465S|NLGN4Y_uc004fth.2_Missense_Mutation_p.P772S	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	772	Cytoplasmic (Potential).				brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0						GGATGACATCCCATTTATGAC	0.532													20	52	---	---	---	---	PASS	T	16953005	T	T	16953005	3	4	148	1	0	0	0	0	1	0	0	0	10465	623	22	3	2486	3	NLGN4Y	24	16953005	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	10838626	16953005	42420561	500	53003										
RPS4Y2	140032	broad.mit.edu	37	chrY	22930792	22930792	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.158953722334004	79	1.86462703347371e-11	2.23518366618121	3.94131364166343	1.36641809584363	0.0445280976784953	0.262715776303122	44	cgctacccagatcctctcatCaaggtgaacgatactgtgca	8	13	2	2			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrY:22930792C>G	uc011nbb.1	+	5	558	c.462C>G	c.(460-462)ATC>ATG	p.I154M		NM_001039567	NP_001034656	Q8TD47	RS4Y2_HUMAN	ribosomal protein S4, Y-linked 2	154					translation	ribosome	rRNA binding|structural constituent of ribosome				0						ATCCTCTCATCAAGGTGAACG	0.398													73	37	---	---	---	---	PASS	G	22930792	G	G	22930792	3	3	148	1	0	0	0	0	1	0	0	0	13647	816	29	2	480	2	RPS4Y2	24	22930792	Missense_Mutation	SNP	C	TCGA-66-2759-01A-01D-1522-08	5977787	22930792	36442774	501	53004										
GPR157	80045	broad.mit.edu	37	chr1	9188908	9188908	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cgtagaagtaggaggcggccGagagcaggtcggccagcgac	18	10	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:9188908G>C	uc001apq.1	-	1	322	c.179C>G	c.(178-180)TCG>TGG	p.S60W	GPR157_uc010oad.1_Missense_Mutation_p.S60W|GPR157_uc001apr.2_Missense_Mutation_p.S60W|GPR157_uc001aps.2_Silent_p.L108L	NM_024980	NP_079256	Q5UAW9	GP157_HUMAN	G protein-coupled receptor 157	60	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_lung(157;0.185)	all_epithelial(116;5.02e-20)|all_lung(118;3.6e-06)|Lung NSC(185;7.93e-06)|Renal(390;0.000147)|Breast(348;0.000688)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.16e-07)|COAD - Colon adenocarcinoma(227;7.73e-05)|Kidney(185;0.000252)|KIRC - Kidney renal clear cell carcinoma(229;0.000917)|STAD - Stomach adenocarcinoma(132;0.00178)|BRCA - Breast invasive adenocarcinoma(304;0.00186)|READ - Rectum adenocarcinoma(331;0.0642)		GGAGGCGGCCGAGAGCAGGTC	0.716													3	10	---	---	---	---	PASS	C	9188908	C	C	9188908	3	2	149	1	0	0	0	0	1	0	0	0	6662	1059	37	2	844	2	GPR157	1	9188908	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08		9188908	240061713	1	53005										
EXOSC10	5394	broad.mit.edu	37	chr1	11158195	11158195	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agatgccttggtgactgccaCcacggacccaagagcaaact	10	13	0	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:11158195C>A	uc001asa.2	-	2	180	c.130G>T	c.(130-132)GTG>TTG	p.V44L	EXOSC10_uc001asb.2_Missense_Mutation_p.V44L|EXOSC10_uc009vmy.1_Missense_Mutation_p.V44L	NM_001001998	NP_001001998	Q01780	EXOSX_HUMAN	exosome component 10 isoform 1	44					CUT catabolic process|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear polyadenylation-dependent rRNA catabolic process|nuclear retention of unspliced pre-mRNA at the site of transcription|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasm|nuclear exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5' exonuclease activity|exoribonuclease activity|identical protein binding|nucleotide binding|protein serine/threonine kinase activity|RNA binding			upper_aerodigestive_tract(1)	1	Ovarian(185;0.249)	Lung NSC(185;1.74e-05)|all_lung(284;2.05e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.18e-07)|COAD - Colon adenocarcinoma(227;8.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000315)|Kidney(185;0.000832)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|READ - Rectum adenocarcinoma(331;0.0526)|STAD - Stomach adenocarcinoma(313;0.202)		GTGACTGCCACCACGGACCCA	0.448													27	47	---	---	---	---	PASS	A	11158195	A	A	11158195	3	1	149	1	0	0	0	0	1	0	0	0	5314	507	18	3	2623	3	EXOSC10	1	11158195	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1969287	11158195	238092426	2	53006										
NBPF1	55672	broad.mit.edu	37	chr1	16901155	16901155	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	attcctccagtgagtcctcaGggacttccttttcttcagcc	7	14	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:16901155G>A	uc009vos.1	-	21	3113	c.2225C>T	c.(2224-2226)CCT>CTT	p.P742L	NBPF1_uc009vot.1_Missense_Mutation_p.P200L|NBPF1_uc001ayz.1_Missense_Mutation_p.P200L|NBPF1_uc010oce.1_Missense_Mutation_p.P471L	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	742	NBPF 3.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TGAGTCCTCAGGGACTTCCTT	0.493													5	366	---	---	---	---	PASS	A	16901155	A	A	16901155	3	1	149	1	0	0	0	0	1	0	0	0	10192	1000	35	3	1235	3	NBPF1	1	16901155	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	5742960	16901155	232349466	3	53007										
CNR2	1269	broad.mit.edu	37	chr1	24201727	24201727	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cagaggtatcggtcaatggcGgtcagcaggaggctacccac	14	11	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:24201727G>A	uc001bif.2	-	2	508	c.381C>T	c.(379-381)ACC>ACT	p.T127T		NM_001841	NP_001832	P34972	CNR2_HUMAN	cannabinoid receptor 2 (macrophage)	127	Helical; Name=3; (Potential).				behavior|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	dendrite|integral to plasma membrane|perikaryon	cannabinoid receptor activity			skin(2)|central_nervous_system(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.00957)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.32e-24)|Colorectal(126;6.09e-08)|COAD - Colon adenocarcinoma(152;3.33e-06)|GBM - Glioblastoma multiforme(114;2.9e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00359)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.146)	Nabilone(DB00486)	GGTCAATGGCGGTCAGCAGGA	0.562													4	90	---	---	---	---	PASS	A	24201727	A	A	24201727	2	1	149	1	0	0	0	0	0	0	0	1	3632	1103	39	1		1	CNR2	1	24201727	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	7300572	24201727	225048894	4	53008										
GRHL3	57822	broad.mit.edu	37	chr1	24663156	24663156	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aggcagctcccctccctgcaGgccccagcaagctggaggcc	12	18	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:24663156G>T	uc001biy.2	+	4	512	c.466G>T	c.(466-468)GGC>TGC	p.G156C	GRHL3_uc001bix.2_Missense_Mutation_p.G151C|GRHL3_uc001biz.2_Missense_Mutation_p.G58C	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	151					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		CCTCCCTGCAGGCCCCAGCAA	0.562													119	172	---	---	---	---	PASS	T	24663156	T	T	24663156	3	4	149	1	0	0	0	0	1	0	0	0	6765	1000	35	3	501	3	GRHL3	1	24663156	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	461429	24663156	224587465	5	53009										
AIM1L	55057	broad.mit.edu	37	chr1	26664162	26664162	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gcctggggcctcatacaccaCagcctgggggaaaggggctg	16	12	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:26664162C>A	uc001bmd.3	-	8	806	c.376G>T	c.(376-378)GTG>TTG	p.V126L	AIM1L_uc001bmf.3_Missense_Mutation_p.V17L	NM_001039775	NP_001034864	Q8N1P7	AIM1L_HUMAN	absent in melanoma 1-like	126	Beta/gamma crystallin 'Greek key' 3.						sugar binding			pancreas(1)	1		all_cancers(24;4.67e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.51e-27)|Colorectal(126;1.61e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000792)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.00858)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.165)|LUSC - Lung squamous cell carcinoma(448;0.239)		TCATACACCACAGCCTGGGGG	0.632													20	24	---	---	---	---	PASS	A	26664162	A	A	26664162	3	1	149	1	0	0	0	0	1	0	0	0	431	478	17	3	1522	3	AIM1L	1	26664162	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	2001006	26664162	222586459	6	53010										
TMEM222	84065	broad.mit.edu	37	chr1	27648883	27648883	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acgcccatcccggtgctcacGtgagtctcttccggcatccg	10	17	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:27648883G>T	uc001bnr.3	+	1	247	c.194_splice	c.e1+1	p.T65_splice	TMEM222_uc001bns.3_Splice_Site|TMEM222_uc001bnt.3_Splice_Site|TMEM222_uc001bnu.3_Splice_Site	NM_032125	NP_115501	Q9H0R3	TM222_HUMAN	transmembrane protein 222							integral to membrane	protein binding				0						CGGTGCTCACGTGAGTCTCTT	0.672													5	5	---	---	---	---	PASS	T	27648883	T	T	27648883	5	4	149	1	0	0	0	0	0	0	1	0	16142	1159	40	1	197	1	TMEM222	1	27648883	Splice_Site	SNP	G	TCGA-66-2763-01A-01D-1522-08	984721	27648883	221601738	7	53011										
IQCC	55721	broad.mit.edu	37	chr1	32673382	32673382	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccacaaagagcctgactgccGaacagtcaggacacaagagt	10	12	1	3	rs149820318	byFrequency	TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:32673382G>T	uc001bum.2	+	5	1147	c.1100G>T	c.(1099-1101)CGA>CTA	p.R367L	IQCC_uc009vua.2_Missense_Mutation_p.R447L|IQCC_uc010ogz.1_Missense_Mutation_p.R267L|DCDC2B_uc001bun.2_5'Flank	NM_018134	NP_060604	Q4KMZ1	IQCC_HUMAN	IQ motif containing C isoform 2	367										ovary(4)	4		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CCTGACTGCCGAACAGTCAGG	0.527													85	147	---	---	---	---	PASS	T	32673382	T	T	32673382	3	4	149	1	0	0	0	0	1	0	0	0	7804	1058	37	2	1358	2	IQCC	1	32673382	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	5024499	32673382	216577239	8	53012										
DEM1	64789	broad.mit.edu	37	chr1	40980595	40980595	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tacacctagctagagaactaGaacttcatgatcttgtgact	7	9	2	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:40980595G>T	uc001cfp.2	+	3	584	c.379G>T	c.(379-381)GAA>TAA	p.E127*	DEM1_uc001cfq.2_Nonsense_Mutation_p.E127*|DEM1_uc001cfr.2_Nonsense_Mutation_p.E127*|DEM1_uc001cfs.2_Nonsense_Mutation_p.E127*	NM_022774	NP_073611	Q9H790	EXO5_HUMAN	defects in morphology 1 homolog	127							DNA binding|exonuclease activity				0						TAGAGAACTAGAACTTCATGA	0.468													35	147	---	---	---	---	PASS	T	40980595	T	T	40980595	4	4	149	1	0	0	0	0	0	1	0	0	4425	943	33	2	381	2	DEM1	1	40980595	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	8307213	40980595	208270026	9	53013										
USP24	23358	broad.mit.edu	37	chr1	55566598	55566598	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cacttggtaaaacacgctatCatctggattgtctgtgtcat	8	9	4	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:55566598C>T	uc001cyg.3	-	41	4705	c.4705G>A	c.(4705-4707)GAT>AAT	p.D1569N		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	1729					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						AACACGCTATCATCTGGATTG	0.378													10	99	---	---	---	---	PASS	T	55566598	T	T	55566598	3	4	149	1	0	0	0	0	1	0	0	0	17052	826	29	2	2777	2	USP24	1	55566598	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	14586003	55566598	193684023	10	53014										
TNNI3K	51086	broad.mit.edu	37	chr1	74665364	74665364	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ataggcaaacttgtagcacgTggagaattctgggacatagt	12	6	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:74665364T>C	uc001dge.1	+	2	115	c.99T>C	c.(97-99)CGT>CGC	p.R33R	LRRIQ3_uc001dfy.3_5'Flank|LRRIQ3_uc001dfz.3_5'Flank|TNNI3K_uc001dgc.1_Silent_p.R33R|TNNI3K_uc001dgd.2_Silent_p.R33R|FPGT_uc010oqt.1_5'UTR|FPGT_uc010oqu.1_Silent_p.R33R|FPGT_uc001dgb.1_Silent_p.R33R|FPGT_uc010oqv.1_Silent_p.R33R	NM_001112808	NP_001106279	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform a	Error:Variant_position_missing_in_Q59H18_after_alignment						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						TTGTAGCACGTGGAGAATTCT	0.378													50	106	---	---	---	---	PASS	C	74665364	C	C	74665364	2	2	149	1	0	0	0	0	0	0	0	1	16326	1683	59	5		5	TNNI3K	1	74665364	Silent	SNP	T	TCGA-66-2763-01A-01D-1522-08	19098766	74665364	174585257	11	53015										
MCOLN2	255231	broad.mit.edu	37	chr1	85422122	85422122	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcactgcattaccgagctcaAcgtcgttgtcaatattcagt	7	11	4	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:85422122A>G	uc001dkm.2	-	4	798	c.557T>C	c.(556-558)GTT>GCT	p.V186A	MCOLN2_uc001dkn.2_RNA	NM_153259	NP_694991	Q8IZK6	MCLN2_HUMAN	mucolipin 2	186						integral to membrane	ion channel activity			ovary(3)|upper_aerodigestive_tract(1)	4				all cancers(265;0.0111)|Epithelial(280;0.0263)|OV - Ovarian serous cystadenocarcinoma(397;0.217)		ACCGAGCTCAACGTCGTTGTC	0.393													100	110	---	---	---	---	PASS	G	85422122	G	G	85422122	3	3	149	1	0	0	0	0	1	0	0	0	9396	43	2	5	1187	5	MCOLN2	1	85422122	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	10756758	85422122	163828499	12	53016										
ABCA4	24	broad.mit.edu	37	chr1	94496616	94496616	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caaagcggggtattcgccaaAaggagggataacaatagaaa	12	6	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:94496616A>C	uc001dqh.2	-	28	4293	c.4189T>G	c.(4189-4191)TTT>GTT	p.F1397V		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1397	Helical; (Potential).				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		TATTCGCCAAAAGGAGGGATA	0.517													19	23	---	---	---	---	PASS	C	94496616	C	C	94496616	3	2	149	1	0	0	0	0	1	0	0	0	34	14	1	5	2724	5	ABCA4	1	94496616	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	9074494	94496616	154754005	13	53017										
S1PR1	1901	broad.mit.edu	37	chr1	101704932	101704932	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtttgtggccctgtcagcctCcgtgttcagtctcctcgcca	10	15	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:101704932C>A	uc001dud.2	+	2	906	c.392C>A	c.(391-393)TCC>TAC	p.S131Y	S1PR1_uc009weg.2_Missense_Mutation_p.S131Y	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	131	Helical; Name=3; (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						CTGTCAGCCTCCGTGTTCAGT	0.537											OREG0013620	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	57	---	---	---	---	PASS	A	101704932	A	A	101704932	3	1	149	1	0	0	0	0	1	0	0	0	13793	855	30	2	394	2	S1PR1	1	101704932	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	7208316	101704932	147545689	14	53018										
COL11A1	1301	broad.mit.edu	37	chr1	103405902	103405902	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccttgtctccgtcttccccaGgggagccggcaggaccagct	12	16	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:103405902G>T	uc001dul.2	-	43	3683	c.3365C>A	c.(3364-3366)CCT>CAT	p.P1122H	COL11A1_uc001duk.2_Missense_Mutation_p.P318H|COL11A1_uc001dum.2_Missense_Mutation_p.P1134H|COL11A1_uc001dun.2_Missense_Mutation_p.P1083H|COL11A1_uc009weh.2_Missense_Mutation_p.P1006H	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1122	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GTCTTCCCCAGGGGAGCCGGC	0.463													43	54	---	---	---	---	PASS	T	103405902	T	T	103405902	3	4	149	1	0	0	0	0	1	0	0	0	3667	1000	35	3	2155	3	COL11A1	1	103405902	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1700970	103405902	145844719	15	53019										
HIST2H2AC	8338	broad.mit.edu	37	chr1	149858886	149858886	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cgttctgttaccaaagaaaaCcgaaagccacaaagccaaaa	6	11	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:149858886C>A	uc001etd.2	+	1	362	c.362C>A	c.(361-363)ACC>AAC	p.T121N	HIST2H2BE_uc001etc.2_5'Flank	NM_003517	NP_003508	Q16777	H2A2C_HUMAN	histone cluster 2, H2ac	121					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			CCAAAGAAAACCGAAAGCCAC	0.473													47	112	---	---	---	---	PASS	A	149858886	A	A	149858886	3	1	149	1	0	0	0	0	1	0	0	0	7178	507	18	3	364	3	HIST2H2AC	1	149858886	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	46452984	149858886	99391735	16	53020										
SETDB1	9869	broad.mit.edu	37	chr1	150900289	150900289	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caggcagtggttgaggaactGggtatctctatggaggaact	15	6	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:150900289G>T	uc001evu.2	+	2	289	c.99G>T	c.(97-99)CTG>CTT	p.L33L	SETDB1_uc009wmf.2_Silent_p.L33L|SETDB1_uc001evv.2_Silent_p.L33L|SETDB1_uc001evw.3_Silent_p.L33L|SETDB1_uc009wmg.1_Silent_p.L33L	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	33	Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			TTGAGGAACTGGGTATCTCTA	0.493													112	202	---	---	---	---	PASS	T	150900289	T	T	150900289	2	4	149	1	0	0	0	0	0	0	0	1	14138	1335	47	3		3	SETDB1	1	150900289	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	1041403	150900289	98350332	17	53021										
LYSMD1	388695	broad.mit.edu	37	chr1	151133379	151133379	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cagagtttgaagatttcatcCtcctggtcccgtagtgtccg	10	11	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:151133379C>A	uc001ewy.2	-	3	1299	c.663G>T	c.(661-663)GAG>GAT	p.E221D	LYSMD1_uc010pcr.1_Missense_Mutation_p.E173D	NM_212551	NP_997716	Q96S90	LYSM1_HUMAN	LysM, putative peptidoglycan-binding, domain	221					cell wall macromolecule catabolic process						0	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			AGATTTCATCCTCCTGGTCCC	0.562													93	180	---	---	---	---	PASS	A	151133379	A	A	151133379	3	1	149	1	0	0	0	0	1	0	0	0	9124	680	24	3	24	3	LYSMD1	1	151133379	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	233090	151133379	98117242	18	53022										
FLG2	388698	broad.mit.edu	37	chr1	152327240	152327240	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttgaccatagccagatgactGacttgagccagaaccatgtt	9	10	0	6			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:152327240G>T	uc001ezw.3	-	3	3095	c.3022C>A	c.(3022-3024)CAG>AAG	p.Q1008K	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1008	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCAGATGACTGACTTGAGCCA	0.478													248	470	---	---	---	---	PASS	T	152327240	T	T	152327240	3	4	149	1	0	0	0	0	1	0	0	0	5923	1299	45	2	4157	2	FLG2	1	152327240	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1193861	152327240	96923381	19	53023										
DENND4B	9909	broad.mit.edu	37	chr1	153915407	153915407	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtaagtatgaggagtgccctCgcccttactgggcagcacca	12	12	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:153915407C>G	uc001fdd.1	-	3	918	c.517G>C	c.(517-519)GAG>CAG	p.E173Q		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	173	MABP.									ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GGAGTGCCCTCGCCCTTACTG	0.647													14	22	---	---	---	---	PASS	G	153915407	G	G	153915407	3	3	149	1	0	0	0	0	1	0	0	0	4434	893	31	2	4077	2	DENND4B	1	153915407	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1588167	153915407	95335214	20	53024										
NUP210L	91181	broad.mit.edu	37	chr1	153984798	153984798	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagggtattggtgagataagTcttgaggtcataactgagca	14	4	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:153984798T>A	uc001fdw.2	-	34	4774	c.4702A>T	c.(4702-4704)ACT>TCT	p.T1568S	NUP210L_uc009woq.2_Missense_Mutation_p.T477S|NUP210L_uc010peh.1_Missense_Mutation_p.T1568S	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	1568						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			GTGAGATAAGTCTTGAGGTCA	0.403													92	215	---	---	---	---	PASS	A	153984798	A	A	153984798	3	1	149	1	0	0	0	0	1	0	0	0	10761	1667	58	5	992	5	NUP210L	1	153984798	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	69391	153984798	95265823	21	53025										
SYT11	23208	broad.mit.edu	37	chr1	155838148	155838148	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttacaagcctgacccctgggGagagcaaaaccacctctcca	8	15	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:155838148G>T	uc001fmg.2	+	2	690	c.427G>T	c.(427-429)GAG>TAG	p.E143*	SYT11_uc010pgq.1_Intron	NM_152280	NP_689493	Q9BT88	SYT11_HUMAN	synaptotagmin XI	143	Cytoplasmic (Potential).					cell junction|synaptic vesicle membrane	protein binding|transporter activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;0.000162)			GACCCCTGGGGAGAGCAAAAC	0.507													78	174	---	---	---	---	PASS	T	155838148	T	T	155838148	4	4	149	1	0	0	0	0	0	1	0	0	15464	1175	41	2	433	2	SYT11	1	155838148	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1853350	155838148	93412473	22	53026										
INSRR	3645	broad.mit.edu	37	chr1	156821831	156821831	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctcatactggtaggtgcctgGcgggcaggcccacaggcagg	16	12	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:156821831G>A	uc010pht.1	-	3	1044	c.790C>T	c.(790-792)CCA>TCA	p.P264S	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron|INSRR_uc009wsj.1_Missense_Mutation_p.P264S	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	264					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TAGGTGCCTGGCGGGCAGGCC	0.662													17	36	---	---	---	---	PASS	A	156821831	A	A	156821831	3	1	149	1	0	0	0	0	1	0	0	0	7774	1203	42	3	3182	3	INSRR	1	156821831	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	983683	156821831	92428790	23	53027										
OR10R2	343406	broad.mit.edu	37	chr1	158450404	158450404	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctgcattctgaggactatccTgaagattccctcagctgagg	10	11	2	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:158450404T>C	uc010pik.1	+	1	737	c.737T>C	c.(736-738)CTG>CCG	p.L246P	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	246	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					AGGACTATCCTGAAGATTCCC	0.433													87	172	---	---	---	---	PASS	C	158450404	C	C	158450404	3	2	149	1	0	0	0	0	1	0	0	0	10917	1580	55	5	739	5	OR10R2	1	158450404	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	1628573	158450404	90800217	24	53028										
FCER1A	2205	broad.mit.edu	37	chr1	159275932	159275932	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tatgagaaccacaacatctcCattacaaatgccacagttga	5	11	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:159275932C>T	uc001ftq.2	+	5	585	c.486C>T	c.(484-486)TCC>TCT	p.S162S		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	162	Ig-like 2.|Extracellular (Potential).					integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	ACAACATCTCCATTACAAATG	0.458													48	120	---	---	---	---	PASS	T	159275932	T	T	159275932	2	4	149	1	0	0	0	0	0	0	0	1	5774	581	21	3		3	FCER1A	1	159275932	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	825528	159275932	89974689	25	53029										
CD84	8832	broad.mit.edu	37	chr1	160523826	160523826	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttctcccaggggactccaatTgtatgtcacattcttttctt	6	11	4	0	rs139298884		TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:160523826T>C	uc001fwh.3	-	3	523	c.499A>G	c.(499-501)AAT>GAT	p.N167D	CD84_uc001fwf.3_Missense_Mutation_p.N167D|CD84_uc001fwg.3_Missense_Mutation_p.N167D|CD84_uc009wtn.2_Missense_Mutation_p.N167D|CD84_uc001fwi.3_Missense_Mutation_p.N53D|CD84_uc001fwj.2_Missense_Mutation_p.N167D|CD84_uc001fwk.2_Missense_Mutation_p.N167D	NM_003874	NP_003865	Q9UIB8	SLAF5_HUMAN	CD84 molecule	167	Extracellular (Potential).|Ig-like C2-type.				blood coagulation|defense response|homophilic cell adhesion|leukocyte migration	integral to plasma membrane	receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(52;3.62e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			GGACTCCAATTGTATGTCACA	0.448													49	123	---	---	---	---	PASS	C	160523826	C	C	160523826	3	2	149	1	0	0	0	0	1	0	0	0	3042	1812	63	5	562	5	CD84	1	160523826	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	1247894	160523826	88726795	26	53030										
PBX1	5087	broad.mit.edu	37	chr1	164789420	164789420	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggagccaacgtgcaatcacAggtagggacccagccaatat	11	11	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:164789420A>T	uc001gct.2	+	7	1367	c.1109A>T	c.(1108-1110)CAG>CTG	p.Q370L	PBX1_uc010pku.1_Missense_Mutation_p.Q370L|PBX1_uc010pkv.1_Missense_Mutation_p.Q287L|PBX1_uc001gcs.2_Intron|PBX1_uc010pkw.1_Missense_Mutation_p.Q260L	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	370					negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						GTGCAATCACAGGTAGGGACC	0.488			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								26	53	---	---	---	---	PASS	T	164789420	T	T	164789420	3	4	149	1	0	0	0	0	1	0	0	0	11492	202	7	5	1135	5	PBX1	1	164789420	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	4265594	164789420	84461201	27	53031										
FAM78B	149297	broad.mit.edu	37	chr1	166039931	166039931	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtgttcccgtaccaagggtaGctcaccccatctgagtcact	9	14	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:166039931G>A	uc001gdr.2	-	3	923	c.333C>T	c.(331-333)AGC>AGT	p.S111S	FAM78B_uc010plc.1_RNA|FAM78B_uc001gdq.2_5'Flank	NM_001017961	NP_001017961	Q5VT40	FA78B_HUMAN	hypothetical protein LOC149297	111										central_nervous_system(1)|skin(1)	2	all_hematologic(923;0.0813)|Acute lymphoblastic leukemia(8;0.155)					ACCAAGGGTAGCTCACCCCAT	0.522													27	153	---	---	---	---	PASS	A	166039931	A	A	166039931	2	1	149	1	0	0	0	0	0	0	0	1	5627	962	34	3		3	FAM78B	1	166039931	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	1250511	166039931	83210690	28	53032										
ADCY10	55811	broad.mit.edu	37	chr1	167815444	167815444	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcaggccaatgatggcagcaCatctcaccagcatttggtgg	11	11	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:167815444C>T	uc001ger.2	-	20	2793	c.2495G>A	c.(2494-2496)TGT>TAT	p.C832Y	ADCY10_uc009wvk.2_Missense_Mutation_p.C740Y|ADCY10_uc010plj.1_Missense_Mutation_p.C679Y|ADCY10_uc009wvl.2_Missense_Mutation_p.C831Y	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	832					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						GATGGCAGCACATCTCACCAG	0.458													102	213	---	---	---	---	PASS	T	167815444	T	T	167815444	3	4	149	1	0	0	0	0	1	0	0	0	293	478	17	3	2393	3	ADCY10	1	167815444	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1775513	167815444	81435177	29	53033										
TNN	63923	broad.mit.edu	37	chr1	175096160	175096160	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggcatattgacctggacgcCcccctctgctcagatccacg	9	16	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:175096160C>A	uc001gkl.1	+	13	3097	c.2984C>A	c.(2983-2985)CCC>CAC	p.P995H		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	995	Fibronectin type-III 9.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		ACCTGGACGCCCCCCTCTGCT	0.502													73	133	---	---	---	---	PASS	A	175096160	A	A	175096160	3	1	149	1	0	0	0	0	1	0	0	0	16320	623	22	3	3030	3	TNN	1	175096160	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	7280716	175096160	74154461	30	53034										
PAPPA2	60676	broad.mit.edu	37	chr1	176564298	176564298	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acaatggatactggccccttCggggagagaaggtgatacgc	14	9	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:176564298C>G	uc001gkz.2	+	3	2722	c.1558C>G	c.(1558-1560)CGG>GGG	p.R520G	PAPPA2_uc001gky.1_Missense_Mutation_p.R520G|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	520	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CTGGCCCCTTCGGGGAGAGAA	0.537													38	72	---	---	---	---	PASS	G	176564298	G	G	176564298	3	3	149	1	0	0	0	0	1	0	0	0	11433	875	31	2	1564	2	PAPPA2	1	176564298	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1468138	176564298	72686323	31	53035										
RGS8	85397	broad.mit.edu	37	chr1	182615931	182615931	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acattttggacctcaggaacCtggggtaagagtctttctcc	10	10	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:182615931C>A	uc010pnw.1	-	7	740	c.482G>T	c.(481-483)AGG>ATG	p.R161M	RGS8_uc001gpn.1_Missense_Mutation_p.R161M|RGS8_uc001gpm.1_Missense_Mutation_p.R179M	NM_001102450	NP_001095920	P57771	RGS8_HUMAN	regulator of G-protein signalling 8 isoform 2	161	RGS.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)	1						CCTCAGGAACCTGGGGTAAGA	0.527													123	261	---	---	---	---	PASS	A	182615931	A	A	182615931	3	1	149	1	0	0	0	0	1	0	0	0	13312	681	24	3	64	3	RGS8	1	182615931	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	6051633	182615931	66634690	32	53036										
CFHR4	10877	broad.mit.edu	37	chr1	196884211	196884211	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agtcctactatgaacttcagGgttctaattatgtaacatgt	7	7	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:196884211G>T	uc001gto.2	+	5	811	c.742G>T	c.(742-744)GGT>TGT	p.G248C	CFHR4_uc009wyy.2_Missense_Mutation_p.G494C|CFHR4_uc001gtp.2_Missense_Mutation_p.G495C	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	248	Sushi 4.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						TGAACTTCAGGGTTCTAATTA	0.398													112	486	---	---	---	---	PASS	T	196884211	T	T	196884211	3	4	149	1	0	0	0	0	1	0	0	0	3287	1232	43	3	760	3	CFHR4	1	196884211	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	14268280	196884211	52366410	33	53037										
CRB1	23418	broad.mit.edu	37	chr1	197325966	197325966	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	attttcatcatgcaggatacAcaggtgcccagtgtgagatc	10	9	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:197325966A>G	uc001gtz.2	+	5	1129	c.994A>G	c.(994-996)ACA>GCA	p.T332A	CRB1_uc010poz.1_Missense_Mutation_p.T263A|CRB1_uc001gty.1_Missense_Mutation_p.T332A|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.T220A|CRB1_uc010ppb.1_Missense_Mutation_p.T332A|CRB1_uc010ppc.1_RNA	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	332	Extracellular (Potential).|EGF-like 8.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TGCAGGATACACAGGTGCCCA	0.448													33	55	---	---	---	---	PASS	G	197325966	G	G	197325966	3	3	149	1	0	0	0	0	1	0	0	0	3848	159	6	5	1012	5	CRB1	1	197325966	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	441755	197325966	51924655	34	53038										
KIF14	9928	broad.mit.edu	37	chr1	200539041	200539041	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atgtgaagaaaaaaatacctGatgaatgtgaagaatgcaaa	9	3	0	6			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:200539041G>A	uc010ppk.1	-	23	4098	c.3659C>T	c.(3658-3660)TCA>TTA	p.S1220L	KIF14_uc010ppj.1_Missense_Mutation_p.S729L	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	1220	Required for CIT-binding.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						AAAAATACCTGATGAATGTGA	0.244													52	96	---	---	---	---	PASS	A	200539041	A	A	200539041	3	1	149	1	0	0	0	0	1	0	0	0	8276	1294	45	2	1319	2	KIF14	1	200539041	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3213075	200539041	48711580	35	53039										
CD46	4179	broad.mit.edu	37	chr1	207930887	207930887	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aaaattattttctttcaggaGaaacatgtccatatatacgg	6	6	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:207930887G>C	uc001hgc.2	+	3	445	c.289G>C	c.(289-291)GAA>CAA	p.E97Q	CD46_uc001hgd.2_Missense_Mutation_p.E97Q|CD46_uc001hge.2_Missense_Mutation_p.E97Q|CD46_uc001hgf.2_Missense_Mutation_p.E97Q|CD46_uc001hgg.2_Missense_Mutation_p.E97Q|CD46_uc001hgh.2_Missense_Mutation_p.E97Q|CD46_uc001hgi.2_Missense_Mutation_p.E97Q|CD46_uc001hgj.2_Missense_Mutation_p.E97Q|CD46_uc001hgk.2_Missense_Mutation_p.E97Q|CD46_uc001hgl.2_Missense_Mutation_p.E97Q|CD46_uc001hgm.2_Missense_Mutation_p.E97Q|CD46_uc001hgn.2_Missense_Mutation_p.E97Q|CD46_uc001hgo.2_Missense_Mutation_p.E97Q|CD46_uc001hgp.2_Missense_Mutation_p.E97Q	NM_002389	NP_002380	P15529	MCP_HUMAN	CD46 antigen, complement regulatory protein	97	Extracellular (Potential).|Sushi 2.				complement activation, classical pathway|innate immune response|interspecies interaction between organisms|single fertilization	inner acrosomal membrane|integral to plasma membrane	protein binding|receptor activity			large_intestine(2)|lung(1)|central_nervous_system(1)	4						TCTTTCAGGAGAAACATGTCC	0.358													17	42	---	---	---	---	PASS	C	207930887	C	C	207930887	3	2	149	1	0	0	0	0	1	0	0	0	3018	943	33	2	299	2	CD46	1	207930887	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	7391846	207930887	41319734	36	53040										
PLXNA2	5362	broad.mit.edu	37	chr1	208390971	208390971	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acttcgctgcagggctgcacGatgaggggcgggtaacaaga	16	9	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:208390971G>T	uc001hgz.2	-	2	1055	c.297C>A	c.(295-297)ATC>ATA	p.I99I	PLXNA2_uc001hha.3_Silent_p.I153I	NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	99	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		AGGGCTGCACGATGAGGGGCG	0.557													49	101	---	---	---	---	PASS	T	208390971	T	T	208390971	2	4	149	1	0	0	0	0	0	0	0	1	12120	1048	37	2		2	PLXNA2	1	208390971	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	460084	208390971	40859650	37	53041										
TATDN3	128387	broad.mit.edu	37	chr1	212969882	212969882	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aatgttgtggcccttgtggcAgttgccgaacattcaggaga	13	8	1	1	rs141185416	by1000genomes	TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:212969882A>C	uc001hjo.2	+	3	217	c.123A>C	c.(121-123)GCA>GCC	p.A41A	TATDN3_uc010ptj.1_Silent_p.A41A|TATDN3_uc010ptk.1_Silent_p.A41A|TATDN3_uc001hjp.2_Silent_p.A41A|TATDN3_uc010ptl.1_Silent_p.A41A|TATDN3_uc010ptm.1_5'UTR	NM_001042552	NP_001036017	Q17R31	TATD3_HUMAN	TatD DNase domain containing 3 isoform 1	41						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00699)|all cancers(67;0.0118)|GBM - Glioblastoma multiforme(131;0.0801)|Epithelial(68;0.104)		CCCTTGTGGCAGTTGCCGAAC	0.254													21	44	---	---	---	---	PASS	C	212969882	C	C	212969882	2	2	149	1	0	0	0	0	0	0	0	1	15590	175	7	5		5	TATDN3	1	212969882	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08	4578911	212969882	36280739	38	53042										
USH2A	7399	broad.mit.edu	37	chr1	215821936	215821936	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aggccgtccttgaggccagcGtcccgatttgtggagaggac	15	11	0	2	rs139065588		TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:215821936G>A	uc001hku.1	-	66	14903	c.14516C>T	c.(14515-14517)ACG>ATG	p.T4839M		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4839	Extracellular (Potential).|Fibronectin type-III 34.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGAGGCCAGCGTCCCGATTTG	0.572										HNSCC(13;0.011)			9	171	---	---	---	---	PASS	A	215821936	A	A	215821936	3	1	149	1	0	0	0	0	1	0	0	0	17033	1145	40	1	1120	1	USH2A	1	215821936	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	2852054	215821936	33428685	39	53043										
WDR26	80232	broad.mit.edu	37	chr1	224599262	224599262	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gctgcgtataacatgggaacTgcctcctaaaacaaagaggt	10	9	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:224599262T>A	uc001hop.3	-	7	950	c.584A>T	c.(583-585)CAG>CTG	p.Q195L	WDR26_uc001hoq.3_Missense_Mutation_p.Q179L|WDR26_uc010pvh.1_5'UTR	NM_025160	NP_079436	Q9H7D7	WDR26_HUMAN	WD repeat domain 26 isoform a	342						cytoplasm|nucleus					0				GBM - Glioblastoma multiforme(131;0.0104)		ACATGGGAACTGCCTCCTAAA	0.333													27	86	---	---	---	---	PASS	A	224599262	A	A	224599262	3	1	149	1	0	0	0	0	1	0	0	0	17280	1580	55	5	992	5	WDR26	1	224599262	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	8777326	224599262	24651359	40	53044										
MTR	4548	broad.mit.edu	37	chr1	237052583	237052583	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctttgatgtctggcagctccGgggcaagtacccgaatcgag	13	11	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:237052583G>A	uc001hyi.3	+	28	3377	c.2954G>A	c.(2953-2955)CGG>CAG	p.R985Q	MTR_uc010pxw.1_Missense_Mutation_p.R578Q|MTR_uc010pxx.1_Missense_Mutation_p.R934Q|MTR_uc010pxy.1_Missense_Mutation_p.R839Q	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	985	AdoMet activation.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	TGGCAGCTCCGGGGCAAGTAC	0.478													65	118	---	---	---	---	PASS	A	237052583	A	A	237052583	3	1	149	1	0	0	0	0	1	0	0	0	9958	1116	39	1	3064	1	MTR	1	237052583	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	12453321	237052583	12198038	41	53045										
CEP170	9859	broad.mit.edu	37	chr1	243328007	243328007	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agggtggttgatttactagaTgaaccagataccaccggaga	12	7	0	5			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:243328007T>C	uc001hzs.2	-	13	3663	c.3255A>G	c.(3253-3255)TCA>TCG	p.S1085S	CEP170_uc001hzt.2_Silent_p.S987S|CEP170_uc001hzu.2_Silent_p.S987S|CEP170_uc001hzv.1_Silent_p.S463S	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	1085	Targeting to microtubules.					centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			ATTTACTAGATGAACCAGATA	0.483													25	71	---	---	---	---	PASS	C	243328007	C	C	243328007	2	2	149	1	0	0	0	0	0	0	0	1	3250	1451	51	5		5	CEP170	1	243328007	Silent	SNP	T	TCGA-66-2763-01A-01D-1522-08	6275424	243328007	5922614	42	53046										
KIF26B	55083	broad.mit.edu	37	chr1	245862230	245862230	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aagctgaagattctggaacaCcgccagcagaggatcgccga	12	11	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:245862230C>A	uc001ibf.1	+	14	6509	c.6069C>A	c.(6067-6069)CAC>CAA	p.H2023Q		NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	2023					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			TTCTGGAACACCGCCAGCAGA	0.572													4	52	---	---	---	---	PASS	A	245862230	A	A	245862230	3	1	149	1	0	0	0	0	1	0	0	0	8295	506	18	3	6123	3	KIF26B	1	245862230	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	2534223	245862230	3388391	43	53047										
OR2L3	391192	broad.mit.edu	37	chr1	248224064	248224064	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agaattggccttttcctcttCatcctcattgttttcatttt	4	10	4	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:248224064C>T	uc001idx.1	+	1	81	c.81C>T	c.(79-81)TTC>TTT	p.F27F	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	27	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TTTTCCTCTTCATCCTCATTG	0.393													243	574	---	---	---	---	PASS	T	248224064	T	T	248224064	2	4	149	1	0	0	0	0	0	0	0	1	11008	825	29	2		2	OR2L3	1	248224064	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	2361834	248224064	1026557	44	53048										
OR2M7	391196	broad.mit.edu	37	chr1	248487634	248487634	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aagtagttgaaggccatcttGggtacagtggtgcagatgag	15	5	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:248487634G>T	uc010pzk.1	-	1	237	c.237C>A	c.(235-237)CCC>CCA	p.P79P		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	79	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AGGCCATCTTGGGTACAGTGG	0.498													202	408	---	---	---	---	PASS	T	248487634	T	T	248487634	2	4	149	1	0	0	0	0	0	0	0	1	11014	1335	47	3		3	OR2M7	1	248487634	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	263570	248487634	762987	45	53049										
OR14C36	127066	broad.mit.edu	37	chr1	248512380	248512380	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtgtagctcaggtcttcctcGtggttttttttgtatatgtg	11	6	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:248512380G>T	uc010pzl.1	+	1	304	c.304G>T	c.(304-306)GTG>TTG	p.V102L		NM_001001918	NP_001001918	Q8NHC7	O14CZ_HUMAN	olfactory receptor, family 14, subfamily C,	102	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GGTCTTCCTCGTGGTTTTTTT	0.483													46	102	---	---	---	---	PASS	T	248512380	T	T	248512380	3	4	149	1	0	0	0	0	1	0	0	0	10946	1145	40	1	306	1	OR14C36	1	248512380	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	24746	248512380	738241	46	53050										
OR2T4	127074	broad.mit.edu	37	chr1	248524928	248524928	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gccacactggatggtcggatTtcatcctgatgggactcttc	11	11	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:248524928T>A	uc001ieh.1	+	1	46	c.46T>A	c.(46-48)TTC>ATC	p.F16I		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATGGTCGGATTTCATCCTGAT	0.493													35	95	---	---	---	---	PASS	A	248524928	A	A	248524928	3	1	149	1	0	0	0	0	1	0	0	0	11027	1841	64	5	48	5	OR2T4	1	248524928	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	12548	248524928	725693	47	53051										
OR2T5	401993	broad.mit.edu	37	chr1	248651977	248651977	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gacgatccaaacatccagctCtacttagtgtggtcatcttt	7	11	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:248651977C>A	uc001iem.1	+	1	88	c.88C>A	c.(88-90)CTA>ATA	p.L30I		NM_001004697	NP_001004697	Q6IEZ7	OR2T5_HUMAN	olfactory receptor, family 2, subfamily T,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ACATCCAGCTCTACTTAGTGT	0.498													42	282	---	---	---	---	PASS	A	248651977	A	A	248651977	3	1	149	1	0	0	0	0	1	0	0	0	11028	912	32	2	90	2	OR2T5	1	248651977	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	127049	248651977	598644	48	53052										
PGBD2	267002	broad.mit.edu	37	chr1	249211933	249211933	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acaggactgagcgatgtcccCtaaaagaccccaaagaactg	9	12	0	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr1:249211933C>T	uc001ifh.2	+	3	1297	c.1150C>T	c.(1150-1152)CTA>TTA	p.L384L	PGBD2_uc001ifg.2_Silent_p.L133L|PGBD2_uc009xhd.2_Silent_p.L381L	NM_170725	NP_733843	Q6P3X8	PGBD2_HUMAN	hypothetical protein LOC267002 isoform a	384										ovary(1)	1	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.012)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			GCGATGTCCCCTAAAAGACCC	0.453													57	123	---	---	---	---	PASS	T	249211933	T	T	249211933	2	4	149	1	0	0	0	0	0	0	0	1	11781	680	24	3		3	PGBD2	1	249211933	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	559956	249211933	38688	49	53053										
TPO	7173	broad.mit.edu	37	chr2	1491690	1491690	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagctgacggaaaggctcttTgtgctgtccaattccagcac	11	11	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:1491690T>C	uc002qww.2	+	10	1786	c.1695T>C	c.(1693-1695)TTT>TTC	p.F565F	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Intron|TPO_uc002qwr.2_Silent_p.F565F|TPO_uc002qwx.2_Intron|TPO_uc010yio.1_Silent_p.F392F|TPO_uc010yip.1_Silent_p.F565F|TPO_uc002qwy.1_Intron|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	565	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	AAAGGCTCTTTGTGCTGTCCA	0.582													55	119	---	---	---	---	PASS	C	1491690	C	C	1491690	2	2	149	1	0	0	0	0	0	0	0	1	16407	1809	63	5		5	TPO	2	1491690	Silent	SNP	T	TCGA-66-2763-01A-01D-1522-08		1491690	241707683	50	53054										
THADA	63892	broad.mit.edu	37	chr2	43547590	43547590	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aactatgaatcatacctggcTggttgtcctttgcagatctg	9	9	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:43547590T>A	uc002rsw.3	-	31	4785	c.4433A>T	c.(4432-4434)CAG>CTG	p.Q1478L	THADA_uc010far.2_Missense_Mutation_p.Q673L|THADA_uc002rsx.3_Missense_Mutation_p.Q1478L|THADA_uc002rsy.3_RNA	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1478							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				CATACCTGGCTGGTTGTCCTT	0.418													61	159	---	---	---	---	PASS	A	43547590	A	A	43547590	3	1	149	1	0	0	0	0	1	0	0	0	15837	1580	55	5	1460	5	THADA	2	43547590	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	42055900	43547590	199651783	51	53055										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48896930	48896930	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttggtgaaataattcaagtaGatggaagcggtgatacatct	11	4	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:48896930G>C	uc010yol.1	+	6	3066	c.3019G>C	c.(3019-3021)GAT>CAT	p.D1007H	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.D1054H|GTF2A1L_uc002rws.1_Missense_Mutation_p.D350H|GTF2A1L_uc010yom.1_Missense_Mutation_p.D316H|GTF2A1L_uc002rwt.2_Missense_Mutation_p.D350H	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	1007					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AATTCAAGTAGATGGAAGCGG	0.358													48	280	---	---	---	---	PASS	C	48896930	C	C	48896930	3	2	149	1	0	0	0	0	1	0	0	0	15316	942	33	2	3190	2	STON1-GTF2A1L	2	48896930	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	5349340	48896930	194302443	52	53056										
NRXN1	9378	broad.mit.edu	37	chr2	50733744	50733744	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atagccagcaaaaagagtctCgggacctttgcctgtagaat	10	9	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:50733744C>A	uc010fbq.2	-	13	3983	c.2506G>T	c.(2506-2508)GAG>TAG	p.E836*	NRXN1_uc002rxb.3_Nonsense_Mutation_p.E468*|NRXN1_uc002rxe.3_Nonsense_Mutation_p.E796*|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			AAAAGAGTCTCGGGACCTTTG	0.378													15	59	---	---	---	---	PASS	A	50733744	A	A	50733744	4	1	149	1	0	0	0	0	0	1	0	0	10665	893	31	2	2444	2	NRXN1	2	50733744	Nonsense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1836814	50733744	192465629	53	53057										
CCDC85A	114800	broad.mit.edu	37	chr2	56599543	56599543	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tatggagaaaggctgggggtCcagagcccggcgggtcttgc	18	9	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:56599543C>G	uc002rzn.2	+	4	1884	c.1382C>G	c.(1381-1383)TCC>TGC	p.S461C		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	461										breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			GGCTGGGGGTCCAGAGCCCGG	0.517													5	16	---	---	---	---	PASS	G	56599543	G	G	56599543	3	3	149	1	0	0	0	0	1	0	0	0	2859	855	30	2	1396	2	CCDC85A	2	56599543	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	5865799	56599543	186599830	54	53058										
ALMS1	7840	broad.mit.edu	37	chr2	73651667	73651667	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cttcagacttagcaagcagtCgctttagtgtatctcagcac	8	11	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:73651667C>G	uc002sje.1	+	6	988	c.877C>G	c.(877-879)CGC>GGC	p.R293G	ALMS1_uc002sjf.1_Missense_Mutation_p.R250G	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	292					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AGCAAGCAGTCGCTTTAGTGT	0.443													30	26	---	---	---	---	PASS	G	73651667	G	G	73651667	3	3	149	1	0	0	0	0	1	0	0	0	535	884	31	2	892	2	ALMS1	2	73651667	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	17052124	73651667	169547706	55	53059										
ALMS1	7840	broad.mit.edu	37	chr2	73680984	73680984	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aatcagtttctgatgttcttCtaaacttctttccatatgtt	4	8	5	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:73680984C>G	uc002sje.1	+	10	7444	c.7333C>G	c.(7333-7335)CTA>GTA	p.L2445V	ALMS1_uc002sjf.1_Missense_Mutation_p.L2401V|ALMS1_uc002sjg.2_Missense_Mutation_p.L1831V|ALMS1_uc002sjh.1_Missense_Mutation_p.L1831V	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2443					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TGATGTTCTTCTAAACTTCTT	0.428													60	67	---	---	---	---	PASS	G	73680984	G	G	73680984	3	3	149	1	0	0	0	0	1	0	0	0	535	912	32	2	7357	2	ALMS1	2	73680984	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	29317	73680984	169518389	56	53060										
DQX1	165545	broad.mit.edu	37	chr2	74747070	74747070	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aaggcttcatacacctggatCagagaactgtggtcaccatc	9	11	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:74747070C>G	uc010yrw.1	-	9	1752	c.1587G>C	c.(1585-1587)CTG>CTC	p.L529L	DQX1_uc002smc.2_Silent_p.L90L	NM_133637	NP_598376	Q8TE96	DQX1_HUMAN	DEAQ box polypeptide 1 (RNA-dependent ATPase)	529						nucleus	ATP binding|helicase activity|nucleic acid binding			ovary(2)	2						ACACCTGGATCAGAGAACTGT	0.512													78	237	---	---	---	---	PASS	G	74747070	G	G	74747070	2	3	149	1	0	0	0	0	0	0	0	1	4751	813	29	2		2	DQX1	2	74747070	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	1066086	74747070	168452303	57	53061										
LRRTM1	347730	broad.mit.edu	37	chr2	80529775	80529775	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccgtccgcgagcgtggtggcCgagctggcagggggccccag	19	14	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:80529775C>A	uc002sok.1	-	2	1440	c.1170G>T	c.(1168-1170)TCG>TCT	p.S390S	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	390	Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GCGTGGTGGCCGAGCTGGCAG	0.721										HNSCC(69;0.2)			11	19	---	---	---	---	PASS	A	80529775	A	A	80529775	2	1	149	1	0	0	0	0	0	0	0	1	9039	639	23	1		1	LRRTM1	2	80529775	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	5782705	80529775	162669598	58	53062										
LRRTM1	347730	broad.mit.edu	37	chr2	80530814	80530814	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acagcagccgcccctcgcacCggcacagctgcgggcacccg	12	20	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:80530814C>A	uc002sok.1	-	2	401	c.131G>T	c.(130-132)CGG>CTG	p.R44L	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	44	LRRNT.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						CCCCTCGCACCGGCACAGCTG	0.701										HNSCC(69;0.2)			16	12	---	---	---	---	PASS	A	80530814	A	A	80530814	3	1	149	1	0	0	0	0	1	0	0	0	9039	652	23	1	1441	1	LRRTM1	2	80530814	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1039	80530814	162668559	59	53063										
ITPRIPL1	150771	broad.mit.edu	37	chr2	96992837	96992837	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gttgtccctgtcacctcttaCaactggcttactgacttccc	6	15	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:96992837C>A	uc002svx.2	+	3	803	c.468C>A	c.(466-468)TAC>TAA	p.Y156*	ITPRIPL1_uc010yuk.1_Nonsense_Mutation_p.Y148*|ITPRIPL1_uc002svy.2_Nonsense_Mutation_p.Y164*|ITPRIPL1_uc010yul.1_Nonsense_Mutation_p.Y148*	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	156	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(2)|ovary(1)	3						TCACCTCTTACAACTGGCTTA	0.537													20	154	---	---	---	---	PASS	A	96992837	A	A	96992837	4	1	149	1	0	0	0	0	0	1	0	0	7924	489	17	3	508	3	ITPRIPL1	2	96992837	Nonsense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	16462023	96992837	146206536	60	53064										
WDR33	55339	broad.mit.edu	37	chr2	128471191	128471191	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccctcgaaaacgtgggtcctCgggatcccgggggaaacgtt	14	12	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:128471191C>A	uc002tpg.1	-	18	3457	c.3274G>T	c.(3274-3276)GAG>TAG	p.E1092*		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	1092					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		CGTGGGTCCTCGGGATCCCGG	0.612													99	269	---	---	---	---	PASS	A	128471191	A	A	128471191	4	1	149	1	0	0	0	0	0	1	0	0	17284	893	31	2	756	2	WDR33	2	128471191	Nonsense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	31478354	128471191	114728182	61	53065										
POTEE	445582	broad.mit.edu	37	chr2	132021708	132021708	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	actacctcatgaagatcctcAccgagcgtggctataggttc	9	12	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:132021708A>C	uc002tsn.2	+	15	2732	c.2680A>C	c.(2680-2682)ACC>CCC	p.T894P	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.T494P|POTEE_uc002tsl.2_Missense_Mutation_p.T476P|POTEE_uc010fmy.1_Missense_Mutation_p.T358P	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	894	Actin-like.						ATP binding				0						GAAGATCCTCACCGAGCGTGG	0.587													9	136	---	---	---	---	PASS	C	132021708	C	C	132021708	3	2	149	1	0	0	0	0	1	0	0	0	12264	159	6	5	2738	5	POTEE	2	132021708	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	3550517	132021708	111177665	62	53066										
LCT	3938	broad.mit.edu	37	chr2	136575532	136575532	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgattggcaaatgcttcccaGattctctgataggcagaggc	11	9	1	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:136575532G>T	uc002tuu.1	-	6	1097	c.1086C>A	c.(1084-1086)ATC>ATA	p.I362I		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	362	Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		ATGCTTCCCAGATTCTCTGAT	0.577													66	66	---	---	---	---	PASS	T	136575532	T	T	136575532	2	4	149	1	0	0	0	0	0	0	0	1	8693	932	33	2		2	LCT	2	136575532	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	4553824	136575532	106623841	63	53067										
HNMT	3176	broad.mit.edu	37	chr2	138762736	138762736	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aaaagacatcccagctacccTgaaattcttccatagtctct	4	13	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:138762736T>A	uc002tvc.2	+	6	612	c.464T>A	c.(463-465)CTG>CAG	p.L155Q	HNMT_uc002tvf.2_Missense_Mutation_p.L155Q	NM_006895	NP_008826	P50135	HNMT_HUMAN	histamine N-methyltransferase isoform 1	155					respiratory gaseous exchange	cytoplasm	histamine N-methyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.125)	Amodiaquine(DB00613)|Histamine Phosphate(DB00667)|Quinacrine(DB01103)	CCAGCTACCCTGAAATTCTTC	0.363													145	162	---	---	---	---	PASS	A	138762736	A	A	138762736	3	1	149	1	0	0	0	0	1	0	0	0	7255	1580	55	5	700	5	HNMT	2	138762736	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	2187204	138762736	104436637	64	53068										
LRP1B	53353	broad.mit.edu	37	chr2	141108424	141108424	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggatccttttgtagaaaattCcgcctggattaaactgagta	9	7	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:141108424C>A	uc002tvj.1	-	77	12806	c.11834G>T	c.(11833-11835)GGA>GTA	p.G3945V		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3945	Extracellular (Potential).|LDL-receptor class B 33.				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)		GTAGAAAATTCCGCCTGGATT	0.328										TSP Lung(27;0.18)			55	66	---	---	---	---	PASS	A	141108424	A	A	141108424	3	1	149	1	0	0	0	0	1	0	0	0	8955	855	30	2	2025	2	LRP1B	2	141108424	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	2345688	141108424	102090949	65	53069										
SCN1A	6323	broad.mit.edu	37	chr2	166900510	166900510	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	taaagctgaaaaggcttgttCtgctatttcgccttggtgaa	10	7	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:166900510C>A	uc010zcz.1	-	11	1730	c.1712G>T	c.(1711-1713)AGA>ATA	p.R571I	SCN1A_uc002udo.3_Missense_Mutation_p.R440I|SCN1A_uc010fpk.2_Missense_Mutation_p.R440I	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	571						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AAGGCTTGTTCTGCTATTTCG	0.438													60	57	---	---	---	---	PASS	A	166900510	A	A	166900510	3	1	149	1	0	0	0	0	1	0	0	0	13914	913	32	2	4381	2	SCN1A	2	166900510	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	25792086	166900510	76298863	66	53070										
SCN7A	6332	broad.mit.edu	37	chr2	167334122	167334122	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttcttcatggtcttcattatGtgttttagcaatatgctgtt	7	6	4	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:167334122G>A	uc002udu.1	-	2	212	c.85C>T	c.(85-87)CAT>TAT	p.H29Y	SCN7A_uc002udv.1_Missense_Mutation_p.H29Y	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	29					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TCTTCATTATGTGTTTTAGCA	0.368													6	8	---	---	---	---	PASS	A	167334122	A	A	167334122	3	1	149	1	0	0	0	0	1	0	0	0	13923	1377	48	3	5059	3	SCN7A	2	167334122	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	433612	167334122	75865251	67	53071										
MYO3B	140469	broad.mit.edu	37	chr2	171240299	171240299	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agcagatgctgcttaccagtGcatggttactctcagcaaag	10	10	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:171240299G>T	uc002ufy.2	+	12	1408	c.1265G>T	c.(1264-1266)TGC>TTC	p.C422F	MYO3B_uc002ufv.2_Missense_Mutation_p.C409F|MYO3B_uc010fqb.1_Missense_Mutation_p.C409F|MYO3B_uc002ufz.2_Missense_Mutation_p.C422F|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	422	Myosin head-like.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						GCTTACCAGTGCATGGTTACT	0.458													46	64	---	---	---	---	PASS	T	171240299	T	T	171240299	3	4	149	1	0	0	0	0	1	0	0	0	10077	1319	46	3	1311	3	MYO3B	2	171240299	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3906177	171240299	71959074	68	53072										
HOXD9	3235	broad.mit.edu	37	chr2	176987711	176987711	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtgtagttttgcccccagatCggccgtgttctctgcctcgt	11	13	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:176987711C>G	uc010zex.1	+	1	299	c.215C>G	c.(214-216)TCG>TGG	p.S72W		NM_014213	NP_055028	P28356	HXD9_HUMAN	homeobox D9	72						nucleus	sequence-specific DNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		GCCCCCAGATCGGCCGTGTTC	0.761													3	4	---	---	---	---	PASS	G	176987711	G	G	176987711	3	3	149	1	0	0	0	0	1	0	0	0	7326	893	31	2	217	2	HOXD9	2	176987711	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	5747412	176987711	66211662	69	53073										
TTN	7273	broad.mit.edu	37	chr2	179422131	179422131	+	Frame_Shift_Del	DEL	T	-	-													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cggatgaccagtttgttggcTttttgccataaaatactgtt							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:179422131delT	uc010zfg.1	-	278	80378	c.80154delA	c.(80152-80154)AAAfs	p.K26718fs	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Frame_Shift_Del_p.K20413fs|TTN_uc010zfi.1_Frame_Shift_Del_p.K20346fs|TTN_uc010zfj.1_Frame_Shift_Del_p.K20221fs	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27645							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)			GTTTGTTGGCTTTTTGCCATA	0.448													131	106	---	---	---	---		-	179422131	-	-	179422131	7	5	149	1	0	1	0	1	0	0	0	0	16732	1606	56	0	20257	0	TTN	2	179422131	Frame_Shift_Del	DEL	T	TCGA-66-2763-01A-01D-1522-08	2434420	179422131	63777242	70	53074										
TTN	7273	broad.mit.edu	37	chr2	179540656	179540656	+	Frame_Shift_Del	DEL	G	-	-													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gaatagcaatacctttggcaGggggagcctcctctttcttg							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:179540656delG	uc010zfg.1	-	144	30850	c.30626delC	c.(30625-30627)CCTfs	p.P10209fs	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Frame_Shift_Del_p.P6870fs|TTN_uc010fre.1_Intron|TTN_uc002una.1_RNA|TTN_uc010frf.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11136							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)			ACCTTTGGCAGGGGGAGCCTC	0.368													7	11	---	---	---	---		-	179540656	-	-	179540656	7	5	149	1	0	1	0	1	0	0	0	0	16732	1000	35	0	70035	0	TTN	2	179540656	Frame_Shift_Del	DEL	G	TCGA-66-2763-01A-01D-1522-08	118525	179540656	63658717	71	53075										
TTN	7273	broad.mit.edu	37	chr2	179604277	179604277	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcatcttgtttttcgtcagaGacaacagctgaagcaacccc	7	12	3	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:179604277G>C	uc010zfh.1	-	46	13394	c.13170C>G	c.(13168-13170)GTC>GTG	p.V4390V	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Silent_p.V4323V|TTN_uc010zfj.1_Silent_p.V4198V|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TTTCGTCAGAGACAACAGCTG	0.423													5	135	---	---	---	---	PASS	C	179604277	C	C	179604277	2	2	149	1	0	0	0	0	0	0	0	1	16732	929	33	2		2	TTN	2	179604277	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	63621	179604277	63595096	72	53076										
ITGAV	3685	broad.mit.edu	37	chr2	187523842	187523842	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttggattatagaacagctgcTgatacaacaggcttgcaacc	9	9	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:187523842T>A	uc002upq.2	+	18	2073	c.1797T>A	c.(1795-1797)GCT>GCA	p.A599A	ITGAV_uc010frs.2_Silent_p.A563A|ITGAV_uc010zfv.1_Silent_p.A553A	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	599	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		GAACAGCTGCTGATACAACAG	0.363													70	86	---	---	---	---	PASS	A	187523842	A	A	187523842	2	1	149	1	0	0	0	0	0	0	0	1	7888	1567	55	5		5	ITGAV	2	187523842	Silent	SNP	T	TCGA-66-2763-01A-01D-1522-08	7919565	187523842	55675531	73	53077										
AGXT	189	broad.mit.edu	37	chr2	241813423	241813423	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atcctgtactcgggctcccaGaaggccctgaacgcccctcc	9	18	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr2:241813423G>C	uc002waa.3	+	6	745	c.624G>C	c.(622-624)CAG>CAC	p.Q208H	AGXT_uc002wab.3_5'Flank	NM_000030	NP_000021	P21549	SPYA_HUMAN	alanine-glyoxylate aminotransferase	208					glyoxylate metabolic process|protein targeting to peroxisome	mitochondrial matrix|peroxisomal matrix	alanine-glyoxylate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|serine-pyruvate transaminase activity				0		all_epithelial(40;1.61e-15)|Breast(86;2.35e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;8.14e-32)|all cancers(36;4.77e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;4.88e-06)|Lung(119;0.000452)|LUSC - Lung squamous cell carcinoma(224;0.00415)|Colorectal(34;0.021)|COAD - Colon adenocarcinoma(134;0.15)	Glycine(DB00145)|L-Alanine(DB00160)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	CGGGCTCCCAGAAGGCCCTGA	0.637													48	132	---	---	---	---	PASS	C	241813423	C	C	241813423	3	2	149	1	0	0	0	0	1	0	0	0	404	933	33	2	646	2	AGXT	2	241813423	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	54289581	241813423	1385950	74	53078										
ZCWPW2	152098	broad.mit.edu	37	chr3	28454871	28454871	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cttggaagcctggttttggtAaaattacagaattggccaag	11	6	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:28454871A>T	uc003ceh.2	+	3	480	c.312A>T	c.(310-312)GTA>GTT	p.V104V	ZCWPW2_uc003cei.2_Silent_p.V104V	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	104	PWWP.						zinc ion binding			ovary(2)	2						TGGTTTTGGTAAAATTACAGA	0.303													134	141	---	---	---	---	PASS	T	28454871	T	T	28454871	2	4	149	1	0	0	0	0	0	0	0	1	17595	349	13	5		5	ZCWPW2	3	28454871	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08		28454871	169567559	75	53079										
OXSR1	9943	broad.mit.edu	37	chr3	38294341	38294341	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aaggctcagatattcctgatGatggtaaactgataggattt	10	5	1	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:38294341G>A	uc003chy.2	+	18	1885	c.1543G>A	c.(1543-1545)GAT>AAT	p.D515N	OXSR1_uc010hhb.2_Missense_Mutation_p.D449N	NM_005109	NP_005100	O95747	OXSR1_HUMAN	oxidative-stress responsive 1	515					intracellular protein kinase cascade|response to oxidative stress		ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		TATTCCTGATGATGGTAAACT	0.423													47	41	---	---	---	---	PASS	A	38294341	A	A	38294341	3	1	149	1	0	0	0	0	1	0	0	0	11336	1290	45	2	1613	2	OXSR1	3	38294341	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	9839470	38294341	159728089	76	53080										
NKTR	4820	broad.mit.edu	37	chr3	42679873	42679873	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	actctgagtcaaattcagaaCgagatgtcactaaaaacagt	7	8	4	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:42679873C>T	uc003clo.2	+	13	2824	c.2677C>T	c.(2677-2679)CGA>TGA	p.R893*	NKTR_uc003clm.1_Nonsense_Mutation_p.R640*|NKTR_uc003clp.2_Nonsense_Mutation_p.R640*|NKTR_uc011azp.1_Intron|NKTR_uc003clq.1_Nonsense_Mutation_p.R783*|NKTR_uc003clr.1_Nonsense_Mutation_p.R640*|NKTR_uc003cls.2_Nonsense_Mutation_p.R593*	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	893					protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		AAATTCAGAACGAGATGTCAC	0.398													11	64	---	---	---	---	PASS	T	42679873	T	T	42679873	4	4	149	1	0	0	0	0	0	1	0	0	10448	528	19	1	2723	1	NKTR	3	42679873	Nonsense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	4385532	42679873	155342557	77	53081										
ADAMTS9	56999	broad.mit.edu	37	chr3	64619205	64619205	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggccacaaggagttccatcTatcactctgtctcgaagctg	9	12	4	0	rs143406332		TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:64619205T>A	uc003dmg.2	-	14	2150	c.2118A>T	c.(2116-2118)ATA>ATT	p.I706I	ADAMTS9_uc011bfo.1_Silent_p.I678I|ADAMTS9_uc003dmh.1_Silent_p.I535I|ADAMTS9_uc003dmk.1_Silent_p.I706I	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	706	Cys-rich.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		GAGTTCCATCTATCACTCTGT	0.493													51	70	---	---	---	---	PASS	A	64619205	A	A	64619205	2	1	149	1	0	0	0	0	0	0	0	1	273	1512	53	5		5	ADAMTS9	3	64619205	Silent	SNP	T	TCGA-66-2763-01A-01D-1522-08	21939332	64619205	133403225	78	53082										
CNTN3	5067	broad.mit.edu	37	chr3	74385767	74385767	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gttccagcatcagctttagtCacattggctattttgagtcc	8	10	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:74385767C>G	uc003dpm.1	-	11	1487	c.1407G>C	c.(1405-1407)GTG>GTC	p.V469V		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	469	Ig-like C2-type 5.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		CAGCTTTAGTCACATTGGCTA	0.353													21	132	---	---	---	---	PASS	G	74385767	G	G	74385767	2	3	149	1	0	0	0	0	0	0	0	1	3642	813	29	2		2	CNTN3	3	74385767	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	9766562	74385767	123636663	79	53083										
CNTN3	5067	broad.mit.edu	37	chr3	74411092	74411092	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcttccaggaagagagtgccCttggggaggctctgggttta	15	8	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:74411092C>A	uc003dpm.1	-	10	1393	c.1313G>T	c.(1312-1314)AGG>ATG	p.R438M		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	438	Ig-like C2-type 5.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		AGAGAGTGCCCTTGGGGAGGC	0.488													35	143	---	---	---	---	PASS	A	74411092	A	A	74411092	3	1	149	1	0	0	0	0	1	0	0	0	3642	681	24	3	1825	3	CNTN3	3	74411092	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	25325	74411092	123611338	80	53084										
ROBO2	6092	broad.mit.edu	37	chr3	77526583	77526583	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agtgttacgagatgacttccGacaaaaccccacagatgttg	9	10	0	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:77526583G>T	uc003dpy.3	+	3	1050	c.407G>T	c.(406-408)CGA>CTA	p.R136L	ROBO2_uc003dpz.2_Missense_Mutation_p.R136L|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.R136L	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	136	Ig-like C2-type 2.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		GATGACTTCCGACAAAACCCC	0.463													80	192	---	---	---	---	PASS	T	77526583	T	T	77526583	3	4	149	1	0	0	0	0	1	0	0	0	13514	1058	37	2	419	2	ROBO2	3	77526583	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3115491	77526583	120495847	81	53085										
GPR128	84873	broad.mit.edu	37	chr3	100365481	100365481	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aatttgtcagcgaaggactgGgacacatatggctgtcaaaa	11	7	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:100365481G>A	uc003duc.2	+	10	1447	c.1179G>A	c.(1177-1179)TGG>TGA	p.W393*	GPR128_uc011bhc.1_Nonsense_Mutation_p.W94*	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	393	GPS.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						CGAAGGACTGGGACACATATG	0.388													20	194	---	---	---	---	PASS	A	100365481	A	A	100365481	4	1	149	1	0	0	0	0	0	1	0	0	6641	1241	43	3	1217	3	GPR128	3	100365481	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	22838898	100365481	97656949	82	53086										
CBLB	868	broad.mit.edu	37	chr3	105495385	105495385	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggacagttttgtgagatttcGtctgtaggcacaagggaaaa	13	5	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:105495385G>A	uc003dwc.2	-	4	743	c.421C>T	c.(421-423)CGA>TGA	p.R141*	CBLB_uc011bhi.1_Nonsense_Mutation_p.R163*|CBLB_uc003dwd.1_Nonsense_Mutation_p.R141*|CBLB_uc003dwe.1_Nonsense_Mutation_p.R141*|CBLB_uc011bhj.1_Intron	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	141	Cbl-PTB.|4H.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						GTGAGATTTCGTCTGTAGGCA	0.348			Mis S		AML								47	206	---	---	---	---	PASS	A	105495385	A	A	105495385	4	1	149	1	0	0	0	0	0	1	0	0	2701	1159	40	1	2591	1	CBLB	3	105495385	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	5129904	105495385	92527045	83	53087										
TMPRSS7	344805	broad.mit.edu	37	chr3	111780770	111780770	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gcagttacaacatcagtcaaCgtaagcctaggatcacctcc	7	13	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:111780770C>T	uc010hqb.2	+	9	1239	c.1069C>T	c.(1069-1071)CCC>TCC	p.P357S	TMPRSS7_uc011bhr.1_Missense_Mutation_p.P212S	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	483	LDL-receptor class A 1.|Extracellular (Potential).				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						CATCAGTCAACGTAAGCCTAG	0.408													30	154	---	---	---	---	PASS	T	111780770	T	T	111780770	3	4	149	1	0	0	0	0	1	0	0	0	16249	550	19	1	1099	1	TMPRSS7	3	111780770	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	6285385	111780770	86241660	84	53088										
WDR52	55779	broad.mit.edu	37	chr3	113098309	113098309	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tctttttctccatcttctccCatctctgctgctagcttgtt	4	14	5	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:113098309C>A	uc003eae.1	-	17	2188	c.2142G>T	c.(2140-2142)ATG>ATT	p.M714I		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	714	Glu-rich.									central_nervous_system(1)	1						CATCTTCTCCCATCTCTGCTG	0.289													33	352	---	---	---	---	PASS	A	113098309	A	A	113098309	3	1	149	1	0	0	0	0	1	0	0	0	17301	594	21	3	3513	3	WDR52	3	113098309	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1317539	113098309	84924121	85	53089										
TMEM39A	55254	broad.mit.edu	37	chr3	119150879	119150879	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gggtaggagtatgccctgccTaatactattctgtcccggag	12	10	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:119150879T>A	uc003eck.1	-	9	1779	c.1416A>T	c.(1414-1416)TTA>TTT	p.L472F	TMEM39A_uc003ecl.1_Missense_Mutation_p.L320F	NM_018266	NP_060736	Q9NV64	TM39A_HUMAN	transmembrane protein 39A	472						integral to membrane				ovary(1)|breast(1)	2				GBM - Glioblastoma multiforme(114;0.244)		ATGCCCTGCCTAATACTATTC	0.433													19	91	---	---	---	---	PASS	A	119150879	A	A	119150879	3	1	149	1	0	0	0	0	1	0	0	0	16158	1519	53	5	54	5	TMEM39A	3	119150879	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	6052570	119150879	78871551	86	53090										
RAB7A	7879	broad.mit.edu	37	chr3	128526399	128526399	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctttcaggtggccacaaagcGggcacaggcctggtgctaca	13	12	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:128526399G>A	uc003eks.1	+	5	645	c.413G>A	c.(412-414)CGG>CAG	p.R138Q	RAB7A_uc010hsv.1_Missense_Mutation_p.R91Q|RAB7A_uc003ekt.2_Missense_Mutation_p.R114Q	NM_004637	NP_004628	P51149	RAB7A_HUMAN	RAB7, member RAS oncogene family	138					endocytosis|endosome to lysosome transport|epidermal growth factor catabolic process|protein transport|small GTPase mediated signal transduction	Golgi apparatus|late endosome|lysosome|melanosome|phagocytic vesicle	GDP binding|GTP binding|GTPase activity|protein binding				0				GBM - Glioblastoma multiforme(114;0.231)		GCCACAAAGCGGGCACAGGCC	0.567													5	216	---	---	---	---	PASS	A	128526399	A	A	128526399	3	1	149	1	0	0	0	0	1	0	0	0	12954	1116	39	1	427	1	RAB7A	3	128526399	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	9375520	128526399	69496031	87	53091										
COL6A6	131873	broad.mit.edu	37	chr3	130290127	130290127	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggtgccaatcccgtggagcTgttagccatggcaggatcaa	13	10	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:130290127T>C	uc010htl.2	+	6	2898	c.2867T>C	c.(2866-2868)CTG>CCG	p.L956P		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	956	VWFA 5.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CCCGTGGAGCTGTTAGCCATG	0.507													4	132	---	---	---	---	PASS	C	130290127	C	C	130290127	3	2	149	1	0	0	0	0	1	0	0	0	3703	1580	55	5	2889	5	COL6A6	3	130290127	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	1763728	130290127	67732303	88	53092										
CPNE4	131034	broad.mit.edu	37	chr3	131261561	131261561	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctgacatggggaggtgggagGcatggacaatggcctcccgg	18	9	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:131261561G>T	uc003eok.2	-	15	1814	c.1379C>A	c.(1378-1380)GCC>GAC	p.A460D	CPNE4_uc011blq.1_Missense_Mutation_p.A478D|CPNE4_uc003eol.2_Missense_Mutation_p.A478D|CPNE4_uc003eom.2_Missense_Mutation_p.A460D|CPNE4_uc003eoj.2_Missense_Mutation_p.A11D	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	460	VWFA.									upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						GAGGTGGGAGGCATGGACAAT	0.547													65	96	---	---	---	---	PASS	T	131261561	T	T	131261561	3	4	149	1	0	0	0	0	1	0	0	0	3814	1203	42	3	302	3	CPNE4	3	131261561	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	971434	131261561	66760869	89	53093										
PRR23B	389151	broad.mit.edu	37	chr3	138739142	138739142	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggaaaacgtccacttccagcCcggcagacgagtcgtgctgc	12	14	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:138739142C>A	uc003esy.1	-	1	627	c.362G>T	c.(361-363)GGG>GTG	p.G121V		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	121										breast(1)	1						CACTTCCAGCCCGGCAGACGA	0.637													39	57	---	---	---	---	PASS	A	138739142	A	A	138739142	3	1	149	1	0	0	0	0	1	0	0	0	12595	623	22	3	439	3	PRR23B	3	138739142	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	7477581	138739142	59283288	90	53094										
TRIM42	287015	broad.mit.edu	37	chr3	140401761	140401761	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acgactgcctcaaggccttcCactcggatgtggccatgcaa	10	14	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:140401761C>A	uc003eto.1	+	2	990	c.799C>A	c.(799-801)CAC>AAC	p.H267N		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	267	B box-type 1.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						CAAGGCCTTCCACTCGGATGT	0.607													37	55	---	---	---	---	PASS	A	140401761	A	A	140401761	3	1	149	1	0	0	0	0	1	0	0	0	16514	594	21	3	805	3	TRIM42	3	140401761	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1662619	140401761	57620669	91	53095										
TRIM42	287015	broad.mit.edu	37	chr3	140406742	140406742	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aatctagaagtgtccaggcaGaaggaaattgaaaaatatgt	10	4	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:140406742G>A	uc003eto.1	+	3	1409	c.1218G>A	c.(1216-1218)CAG>CAA	p.Q406Q		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	406	Potential.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						TGTCCAGGCAGAAGGAAATTG	0.443													4	152	---	---	---	---	PASS	A	140406742	A	A	140406742	2	1	149	1	0	0	0	0	0	0	0	1	16514	933	33	2		2	TRIM42	3	140406742	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	4981	140406742	57615688	92	53096										
SR140	23350	broad.mit.edu	37	chr3	142775291	142775291	+	Nonstop_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtcaaagaaaaacaaacactGacgtaaatttttaagatgct	6	6	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:142775291G>C	uc003evh.1	+	28	3188	c.3089G>C	c.(3088-3090)TGA>TCA	p.*1030S	SR140_uc003evi.1_Nonstop_Mutation_p.*621S|SR140_uc003evj.1_RNA|SR140_uc003evk.1_Nonstop_Mutation_p.*1029S	NM_001080415	NP_001073884	O15042	SR140_HUMAN	U2-associated SR140 protein	1030					RNA processing	nucleus	nucleotide binding|RNA binding				0						AACAAACACTGACGTAAATTT	0.358													28	40	---	---	---	---	PASS	C	142775291	C	C	142775291	4	2	149	1	0	0	0	0	0	0	0	0	15130	1285	45	2	3199	2	SR140	3	142775291	Nonstop_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	2368549	142775291	55247139	93	53097										
ZIC1	7545	broad.mit.edu	37	chr3	147128309	147128309	+	Missense_Mutation	SNP	C	A	A													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cccacacggccacacggacgCcgcgggccacctcctcttcc							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:147128309C>A	uc003ewe.2	+	1	1129	c.410C>A	c.(409-411)GCC>GAC	p.A137D		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	137					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CACACGGACGCCGCGGGCCAC	0.721													12	16	---	---	---	---	PASS	A	147128309	A	A	147128309	3	1	149	1	0	0	0	0	1	0	0	0	17675	739	26	3	412	3	ZIC1	3	147128309	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	4353018	147128309	50894121	94	53098	967	2								
ZIC1	7545	broad.mit.edu	37	chr3	147128310	147128310	+	Silent	SNP	C	A	A													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccacacggccacacggacgcCgcgggccacctcctcttccc							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:147128310C>A	uc003ewe.2	+	1	1130	c.411C>A	c.(409-411)GCC>GCA	p.A137A		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	137					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						ACACGGACGCCGCGGGCCACC	0.721													12	17	---	---	---	---	PASS	A	147128310	A	A	147128310	2	1	149	1	0	0	0	0	0	0	0	1	17675	639	23	1		1	ZIC1	3	147128310	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	1	147128310	50894120	95	53099	967	2								
TIPARP	25976	broad.mit.edu	37	chr3	156395782	156395782	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agccatggaaatcaattcatCatgcccaccagcagaaaata	6	11	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:156395782C>G	uc003fav.2	+	2	544	c.296C>G	c.(295-297)TCA>TGA	p.S99*	LOC100287227_uc011boq.1_5'Flank|TIPARP_uc003faw.2_Nonsense_Mutation_p.S99*	NM_015508	NP_056323	Q7Z3E1	PARPT_HUMAN	TCDD-inducible poly(ADP-ribose) polymerase	99							NAD+ ADP-ribosyltransferase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|breast(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			ATCAATTCATCATGCCCACCA	0.438													61	295	---	---	---	---	PASS	G	156395782	G	G	156395782	4	3	149	1	0	0	0	0	0	1	0	0	15921	838	29	2	298	2	TIPARP	3	156395782	Nonsense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	9267472	156395782	41626648	96	53100										
MCF2L2	23101	broad.mit.edu	37	chr3	182948762	182948762	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aattatgcttttaatctcttTtatgtaaatctcttcagtct	3	7	4	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:182948762T>C	uc003fli.1	-	16	1996	c.1906A>G	c.(1906-1908)AAA>GAA	p.K636E	MCF2L2_uc003flj.1_Missense_Mutation_p.K636E|MCF2L2_uc011bqr.1_RNA	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	636	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TTAATCTCTTTTATGTAAATC	0.403													41	62	---	---	---	---	PASS	C	182948762	C	C	182948762	3	2	149	1	0	0	0	0	1	0	0	0	9380	1850	64	5	1498	5	MCF2L2	3	182948762	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	26552980	182948762	15073668	97	53101										
EHHADH	1962	broad.mit.edu	37	chr3	184953216	184953216	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgtcccagtgtaaggccaaaTgtcctaggagcactgaagcc	11	11	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:184953216T>C	uc003fpf.2	-	3	240	c.213A>G	c.(211-213)ACA>ACG	p.T71T	EHHADH_uc011brs.1_5'UTR	NM_001966	NP_001957	Q08426	ECHP_HUMAN	enoyl-Coenzyme A, hydratase/3-hydroxyacyl	71	Enoyl-CoA hydratase / isomerase.					peroxisome	3-hydroxyacyl-CoA dehydrogenase activity|coenzyme binding|dodecenoyl-CoA delta-isomerase activity|enoyl-CoA hydratase activity			ovary(3)	3	all_cancers(143;4.04e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.98e-32)|OV - Ovarian serous cystadenocarcinoma(80;5.55e-21)		NADH(DB00157)	TAAGGCCAAATGTCCTAGGAG	0.463													67	48	---	---	---	---	PASS	C	184953216	C	C	184953216	2	2	149	1	0	0	0	0	0	0	0	1	4982	1451	51	5		5	EHHADH	3	184953216	Silent	SNP	T	TCGA-66-2763-01A-01D-1522-08	2004454	184953216	13069214	98	53102										
TRA2B	6434	broad.mit.edu	37	chr3	185638958	185638958	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atcctctgtcatagtaatccCgacggcgagagctgccacta	9	13	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:185638958C>A	uc003fpv.2	-	6	932	c.656G>T	c.(655-657)CGG>CTG	p.R219L	TRA2B_uc003fpt.2_RNA|TRA2B_uc003fpu.2_RNA|TRA2B_uc010hym.2_Missense_Mutation_p.R119L|TRA2B_uc003fpw.2_Missense_Mutation_p.R219L	NM_004593	NP_004584	P62995	TRA2B_HUMAN	splicing factor, arginine/serine-rich 10	219	Linker.				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)	2						ATAGTAATCCCGACGGCGAGA	0.418													42	60	---	---	---	---	PASS	A	185638958	A	A	185638958	3	1	149	1	0	0	0	0	1	0	0	0	16431	652	23	1	226	1	TRA2B	3	185638958	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	685742	185638958	12383472	99	53103										
GP5	2814	broad.mit.edu	37	chr3	194118141	194118141	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cagccacagctcctgcaggcCccccatctccccgaagagca	8	20	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:194118141C>A	uc003ftv.1	-	2	902	c.871G>T	c.(871-873)GGC>TGC	p.G291C		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	291	Extracellular (Potential).|LRR 10.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		TCCTGCAGGCCCCCCATCTCC	0.652													7	67	---	---	---	---	PASS	A	194118141	A	A	194118141	3	1	149	1	0	0	0	0	1	0	0	0	6583	623	22	3	815	3	GP5	3	194118141	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	8479183	194118141	3904289	100	53104										
ATP13A3	79572	broad.mit.edu	37	chr3	194151031	194151031	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atttgcgccatcaccacacaTcccaacaaaataactaagaa	3	13	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr3:194151031T>C	uc003fty.3	-	24	3040	c.2638A>G	c.(2638-2640)ATG>GTG	p.M880V	ATP13A3_uc003ftz.1_Missense_Mutation_p.M586V	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	880					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		TCACCACACATCCCAACAAAA	0.264													7	74	---	---	---	---	PASS	C	194151031	C	C	194151031	3	2	149	1	0	0	0	0	1	0	0	0	1125	1435	50	5	1078	5	ATP13A3	3	194151031	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	32890	194151031	3871399	101	53105										
PACRGL	133015	broad.mit.edu	37	chr4	20715094	20715094	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgtttgaaagaggattgaatGctctagttcagctaagtgtc	11	5	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:20715094G>T	uc010iek.2	+	7	932	c.541G>T	c.(541-543)GCT>TCT	p.A181S	PACRGL_uc003gpu.2_RNA|PACRGL_uc010iei.1_Missense_Mutation_p.A229S|PACRGL_uc003gpz.2_Missense_Mutation_p.A181S|PACRGL_uc011bxm.1_Missense_Mutation_p.A128S|PACRGL_uc003gqa.2_Missense_Mutation_p.A83S|PACRGL_uc003gpx.3_RNA|PACRGL_uc003gpv.2_Missense_Mutation_p.A181S|PACRGL_uc003gpw.2_RNA|PACRGL_uc010iej.1_RNA|PACRGL_uc011bxn.1_Missense_Mutation_p.A83S|PACRGL_uc003gpy.2_Missense_Mutation_p.A128S	NM_145048	NP_659485	Q8N7B6	PACRL_HUMAN	PARK2 co-regulated-like isoform 1	181							binding				0						AGGATTGAATGCTCTAGTTCA	0.378													53	149	---	---	---	---	PASS	T	20715094	T	T	20715094	3	4	149	1	0	0	0	0	1	0	0	0	11371	1319	46	3	563	3	PACRGL	4	20715094	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08		20715094	170439182	102	53106										
FRYL	285527	broad.mit.edu	37	chr4	48533293	48533293	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cctccataggtcttggggatAtcactgggtacgacaagact	11	10	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:48533293A>C	uc003gyh.1	-	50	7388	c.6783T>G	c.(6781-6783)GAT>GAG	p.D2261E	FRYL_uc003gyg.1_Missense_Mutation_p.D957E|FRYL_uc003gyi.1_Missense_Mutation_p.D1149E|FRYL_uc003gyj.1_Missense_Mutation_p.D556E	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	2261					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TCTTGGGGATATCACTGGGTA	0.408													4	204	---	---	---	---	PASS	C	48533293	C	C	48533293	3	2	149	1	0	0	0	0	1	0	0	0	6064	446	16	5	2318	5	FRYL	4	48533293	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	27818199	48533293	142620983	103	53107										
FRYL	285527	broad.mit.edu	37	chr4	48537684	48537684	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtaaatttacctctgcaagaTaagtcacaagattaaatgtt	6	6	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:48537684T>C	uc003gyh.1	-	48	7159	c.6554A>G	c.(6553-6555)TAT>TGT	p.Y2185C	FRYL_uc003gyg.1_Missense_Mutation_p.Y881C|FRYL_uc003gyi.1_Missense_Mutation_p.Y1073C|FRYL_uc003gyj.1_Missense_Mutation_p.Y480C	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	2185					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						CTCTGCAAGATAAGTCACAAG	0.254													20	52	---	---	---	---	PASS	C	48537684	C	C	48537684	3	2	149	1	0	0	0	0	1	0	0	0	6064	1406	49	5	2555	5	FRYL	4	48537684	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	4391	48537684	142616592	104	53108										
CLOCK	9575	broad.mit.edu	37	chr4	56309861	56309861	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcagtaacattacctgagttGatgtactctgtaaagtctgt	8	7	3	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:56309861G>A	uc003haz.1	-	21	2821	c.1895C>T	c.(1894-1896)TCA>TTA	p.S632L	CLOCK_uc003hba.1_Missense_Mutation_p.S632L|CLOCK_uc010igu.1_RNA	NM_004898	NP_004889	O15516	CLOCK_HUMAN	clock	632					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			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)			TACCTGAGTTGATGTACTCTG	0.413													64	605	---	---	---	---	PASS	A	56309861	A	A	56309861	3	1	149	1	0	0	0	0	1	0	0	0	3549	1294	45	2	661	2	CLOCK	4	56309861	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	7772177	56309861	134844415	105	53109										
CLOCK	9575	broad.mit.edu	37	chr4	56310047	56310047	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caaaattcaacccaggatttGattgttgcaaaaacatcttt	5	8	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:56310047G>C	uc003haz.1	-	21	2635	c.1709C>G	c.(1708-1710)TCA>TGA	p.S570*	CLOCK_uc003hba.1_Nonsense_Mutation_p.S570*|CLOCK_uc010igu.1_RNA	NM_004898	NP_004889	O15516	CLOCK_HUMAN	clock	570					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			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)			CCCAGGATTTGATTGTTGCAA	0.323													34	449	---	---	---	---	PASS	C	56310047	C	C	56310047	4	2	149	1	0	0	0	0	0	1	0	0	3549	1294	45	2	847	2	CLOCK	4	56310047	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	186	56310047	134844229	106	53110										
AASDH	132949	broad.mit.edu	37	chr4	57221562	57221562	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgacttgataagctgagatcCaaatcttctaagcaatgttg	8	7	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:57221562C>A	uc003hbn.2	-	6	1042	c.889G>T	c.(889-891)GGA>TGA	p.G297*	AASDH_uc010ihb.2_5'UTR|AASDH_uc011caa.1_Nonsense_Mutation_p.G144*|AASDH_uc003hbo.2_Nonsense_Mutation_p.G197*|AASDH_uc011cab.1_5'UTR|AASDH_uc010ihc.2_Nonsense_Mutation_p.G297*|AASDH_uc003hbp.2_Nonsense_Mutation_p.G297*	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	297					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				AGCTGAGATCCAAATCTTCTA	0.353													50	62	---	---	---	---	PASS	A	57221562	A	A	57221562	4	1	149	1	0	0	0	0	0	1	0	0	22	603	21	3	2447	3	AASDH	4	57221562	Nonsense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	911515	57221562	133932714	107	53111										
UGT2A3	79799	broad.mit.edu	37	chr4	69811132	69811132	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tatgttcgtattagccatatCtcagcttttcccacagtctc	5	12	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:69811132C>G	uc003hef.2	-	2	787	c.756G>C	c.(754-756)GAG>GAC	p.E252D	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	252	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						TTAGCCATATCTCAGCTTTTC	0.353													38	43	---	---	---	---	PASS	G	69811132	G	G	69811132	3	3	149	1	0	0	0	0	1	0	0	0	16952	912	32	2	847	2	UGT2A3	4	69811132	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	12589570	69811132	121343144	108	53112										
HELQ	113510	broad.mit.edu	37	chr4	84342850	84342850	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagcaaggtataaagaacaaAagacagatatagcctgttga	10	5	0	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:84342850A>C	uc003hom.2	-	15	2994	c.2815T>G	c.(2815-2817)TTT>GTT	p.F939V	HELQ_uc010ikb.2_Missense_Mutation_p.F872V|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	939							ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						TAAAGAACAAAAGACAGATAT	0.338								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					31	46	---	---	---	---	PASS	C	84342850	C	C	84342850	3	2	149	1	0	0	0	0	1	0	0	0	7047	14	1	5	506	5	HELQ	4	84342850	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	14531718	84342850	106811426	109	53113										
FAM13A	10144	broad.mit.edu	37	chr4	89679910	89679910	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atcagacaaccctaccttccCagttcttttcatcacacaat	2	15	4	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:89679910C>G	uc003hse.1	-	14	1929	c.1721G>C	c.(1720-1722)TGG>TCG	p.W574S	FAM13A_uc003hsa.1_Missense_Mutation_p.W45S|FAM13A_uc003hsb.1_Missense_Mutation_p.W248S|FAM13A_uc003hsd.1_Missense_Mutation_p.W248S|FAM13A_uc003hsc.1_Missense_Mutation_p.W234S|FAM13A_uc011cdq.1_Missense_Mutation_p.W220S|FAM13A_uc003hsf.1_Missense_Mutation_p.W160S|FAM13A_uc003hsg.1_Missense_Mutation_p.W45S|FAM13A_uc010ikr.1_Missense_Mutation_p.W70S	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	574					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						CCTACCTTCCCAGTTCTTTTC	0.448													47	60	---	---	---	---	PASS	G	89679910	G	G	89679910	3	3	149	1	0	0	0	0	1	0	0	0	5452	595	21	4	1394	4	FAM13A	4	89679910	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	5337060	89679910	101474366	110	53114										
ANK2	287	broad.mit.edu	37	chr4	113970900	113970900	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcaaaatgatgaacgaagatGcagctcagaaaagcgacagt	10	7	2	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:113970900G>T	uc003ibe.3	+	1	116	c.16G>T	c.(16-18)GCA>TCA	p.A6S	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Missense_Mutation_p.A6S|ANK2_uc003ibc.2_Intron|ANK2_uc011cgb.1_Missense_Mutation_p.A6S	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	6					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GAACGAAGATGCAGCTCAGAA	0.438													15	15	---	---	---	---	PASS	T	113970900	T	T	113970900	3	4	149	1	0	0	0	0	1	0	0	0	621	1319	46	3	43	3	ANK2	4	113970900	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	24290990	113970900	77183376	111	53115										
PRSS12	8492	broad.mit.edu	37	chr4	119220048	119220048	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttatccacatggatgggtccTtttccttctccaaagtaagc	7	11	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:119220048T>C	uc003ica.1	-	9	1724	c.1677A>G	c.(1675-1677)AAA>AAG	p.K559K		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	559	SRCR 4.					membrane	scavenger receptor activity			skin(1)	1						GGATGGGTCCTTTTCCTTCTC	0.448													16	82	---	---	---	---	PASS	C	119220048	C	C	119220048	2	2	149	1	0	0	0	0	0	0	0	1	12615	1606	56	5		5	PRSS12	4	119220048	Silent	SNP	T	TCGA-66-2763-01A-01D-1522-08	5249148	119220048	71934228	112	53116										
FAT4	79633	broad.mit.edu	37	chr4	126239263	126239263	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcaccccaaggtgtcctatgCccagcttgtagtaactctcc	7	15	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:126239263C>T	uc003ifj.3	+	1	1697	c.1697C>T	c.(1696-1698)GCC>GTC	p.A566V		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	566	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GTGTCCTATGCCCAGCTTGTA	0.522											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	36	---	---	---	---	PASS	T	126239263	T	T	126239263	3	4	149	1	0	0	0	0	1	0	0	0	5692	739	26	3	1699	3	FAT4	4	126239263	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	7019215	126239263	64915013	113	53117										
PCDH10	57575	broad.mit.edu	37	chr4	134073308	134073308	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cagccgcccctttcctccacCgccaccctggtggttcagct	8	20	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:134073308C>A	uc003iha.2	+	1	2839	c.2013C>A	c.(2011-2013)ACC>ACA	p.T671T	PCDH10_uc003igz.2_Silent_p.T671T	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	671	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TTTCCTCCACCGCCACCCTGG	0.607													11	13	---	---	---	---	PASS	A	134073308	A	A	134073308	2	1	149	1	0	0	0	0	0	0	0	1	11507	639	23	1		1	PCDH10	4	134073308	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	7834045	134073308	57080968	114	53118										
OTUD4	54726	broad.mit.edu	37	chr4	146073750	146073750	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cagaatgaattccttgaacaTctgcattcaaaaattttcca	4	9	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:146073750T>A	uc003ika.3	-	11	854	c.716A>T	c.(715-717)GAT>GTT	p.D239V	OTUD4_uc003ijz.3_Missense_Mutation_p.D238V	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	303							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					TCCTTGAACATCTGCATTCAA	0.363													39	35	---	---	---	---	PASS	A	146073750	A	A	146073750	3	1	149	1	0	0	0	0	1	0	0	0	11314	1435	50	5	2477	5	OTUD4	4	146073750	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	12000442	146073750	45080526	115	53119										
KIAA0922	23240	broad.mit.edu	37	chr4	154502648	154502648	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcaaaagaatttgaagaaaaCacacaacatttgttagatca	5	6	2	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:154502648C>T	uc003inm.3	+	9	880	c.828C>T	c.(826-828)AAC>AAT	p.N276N	KIAA0922_uc010ipp.2_Silent_p.N276N|KIAA0922_uc010ipq.2_Silent_p.N128N	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	276	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				TTGAAGAAAACACACAACATT	0.323													41	70	---	---	---	---	PASS	T	154502648	T	T	154502648	2	4	149	1	0	0	0	0	0	0	0	1	8201	477	17	3		3	KIAA0922	4	154502648	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	8428898	154502648	36651628	116	53120										
GUCY1A3	2982	broad.mit.edu	37	chr4	156634713	156634713	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cactcgcttcgaccagcagtGtggagagctggatgtctaca	12	11	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:156634713G>T	uc003iov.2	+	8	2086	c.1550G>T	c.(1549-1551)TGT>TTT	p.C517F	GUCY1A3_uc010iqc.2_Missense_Mutation_p.C517F|GUCY1A3_uc003iow.2_Missense_Mutation_p.C517F|GUCY1A3_uc010iqd.2_Missense_Mutation_p.C516F|GUCY1A3_uc003iox.2_Missense_Mutation_p.C517F|GUCY1A3_uc003ioz.2_Missense_Mutation_p.C282F|GUCY1A3_uc003ioy.2_Missense_Mutation_p.C517F|GUCY1A3_uc010iqe.2_Missense_Mutation_p.C282F|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Missense_Mutation_p.C517F	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	517	Guanylate cyclase.				blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		GACCAGCAGTGTGGAGAGCTG	0.512													17	22	---	---	---	---	PASS	T	156634713	T	T	156634713	3	4	149	1	0	0	0	0	1	0	0	0	6894	1377	48	3	1583	3	GUCY1A3	4	156634713	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	2132065	156634713	34519563	117	53121										
ACCN5	51802	broad.mit.edu	37	chr4	156773401	156773401	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agacactcacttttctctttGcttggagagtttcaccatga	7	10	3	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:156773401G>C	uc003ipe.1	-	4	700	c.653C>G	c.(652-654)GCA>GGA	p.A218G		NM_017419	NP_059115	Q9NY37	ACCN5_HUMAN	amiloride-sensitive cation channel 5,	218	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0464)|Kidney(143;0.058)|COAD - Colon adenocarcinoma(41;0.141)		TTTTCTCTTTGCTTGGAGAGT	0.363													66	99	---	---	---	---	PASS	C	156773401	C	C	156773401	3	2	149	1	0	0	0	0	1	0	0	0	132	1319	46	4	892	4	ACCN5	4	156773401	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	138688	156773401	34380875	118	53122										
ACCN5	51802	broad.mit.edu	37	chr4	156775429	156775429	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tacaatgtgccataagaaaaAaataacaccaaatttggcta	5	7	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:156775429A>G	uc003ipe.1	-	3	432	c.385T>C	c.(385-387)TTT>CTT	p.F129L		NM_017419	NP_059115	Q9NY37	ACCN5_HUMAN	amiloride-sensitive cation channel 5,	129	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0464)|Kidney(143;0.058)|COAD - Colon adenocarcinoma(41;0.141)		CATAAGAAAAAAATAACACCA	0.373													3	119	---	---	---	---	PASS	G	156775429	G	G	156775429	3	3	149	1	0	0	0	0	1	0	0	0	132	14	1	5	1164	5	ACCN5	4	156775429	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	2028	156775429	34378847	119	53123										
GRIA2	2891	broad.mit.edu	37	chr4	158257833	158257833	+	Missense_Mutation	SNP	G	T	T													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgaatcaactaatgaatttgGgatttttaatagtctctggt							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:158257833G>T	uc003ipm.3	+	11	2237	c.1778G>T	c.(1777-1779)GGG>GTG	p.G593V	GRIA2_uc011cit.1_Missense_Mutation_p.G546V|GRIA2_uc003ipl.3_Missense_Mutation_p.G593V|GRIA2_uc003ipk.3_Missense_Mutation_p.G546V|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	593	Cytoplasmic (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	AATGAATTTGGGATTTTTAAT	0.418													70	132	---	---	---	---	PASS	T	158257833	T	T	158257833	3	4	149	1	0	0	0	0	1	0	0	0	6768	1232	43	3	1820	3	GRIA2	4	158257833	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1482404	158257833	32896443	120	53124	968	2								
GRIA2	2891	broad.mit.edu	37	chr4	158257834	158257834	+	Silent	SNP	G	T	T													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gaatcaactaatgaatttggGatttttaatagtctctggtt							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:158257834G>T	uc003ipm.3	+	11	2238	c.1779G>T	c.(1777-1779)GGG>GGT	p.G593G	GRIA2_uc011cit.1_Silent_p.G546G|GRIA2_uc003ipl.3_Silent_p.G593G|GRIA2_uc003ipk.3_Silent_p.G546G|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	593	Cytoplasmic (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	ATGAATTTGGGATTTTTAATA	0.418													70	134	---	---	---	---	PASS	T	158257834	T	T	158257834	2	4	149	1	0	0	0	0	0	0	0	1	6768	1161	41	2		2	GRIA2	4	158257834	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	1	158257834	32896442	121	53125	968	2								
GRIA2	2891	broad.mit.edu	37	chr4	158281082	158281082	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agtgtttgataaaatgtggaCctacatgcggagtgcggagc	14	6	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:158281082C>G	uc003ipm.3	+	13	2537	c.2078C>G	c.(2077-2079)ACC>AGC	p.T693S	GRIA2_uc011cit.1_Missense_Mutation_p.T646S|GRIA2_uc003ipl.3_Missense_Mutation_p.T693S|GRIA2_uc003ipk.3_Missense_Mutation_p.T646S|GRIA2_uc010iqh.1_RNA|GRIA2_uc011ciu.1_Missense_Mutation_p.T3S|GRIA2_uc011civ.1_RNA|GRIA2_uc011ciw.1_RNA|GRIA2_uc011cix.1_Missense_Mutation_p.T3S|GRIA2_uc011ciy.1_Missense_Mutation_p.T3S|GRIA2_uc011ciz.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	693	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	AAAATGTGGACCTACATGCGG	0.468													34	30	---	---	---	---	PASS	G	158281082	G	G	158281082	3	3	149	1	0	0	0	0	1	0	0	0	6768	507	18	4	2128	4	GRIA2	4	158281082	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	23248	158281082	32873194	122	53126										
FAM149A	25854	broad.mit.edu	37	chr4	187093067	187093067	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccttttgcttggtgtttccaGgttcacaatatgtgcctaaa	8	9	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:187093067G>C	uc003iyt.3	+	14	1955	c.1376_splice	c.e14-1	p.G459_splice	FAM149A_uc003iyu.3_Splice_Site_p.G459_splice|FAM149A_uc010isl.2_Splice_Site_p.G459_splice|FAM149A_uc011clb.1_Splice_Site_p.G458_splice	NM_015398	NP_056213	A5PLN7	F149A_HUMAN	hypothetical protein LOC25854											breast(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.19e-10)|BRCA - Breast invasive adenocarcinoma(30;1.22e-05)|GBM - Glioblastoma multiforme(59;0.000122)|STAD - Stomach adenocarcinoma(60;0.000288)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.166)		GGTGTTTCCAGGTTCACAATA	0.378													25	50	---	---	---	---	PASS	C	187093067	C	C	187093067	5	2	149	1	0	0	0	0	0	0	1	0	5455	1014	35	4	1417	4	FAM149A	4	187093067	Splice_Site	SNP	G	TCGA-66-2763-01A-01D-1522-08	28811985	187093067	4061209	123	53127										
TUBB4Q	56604	broad.mit.edu	37	chr4	190904507	190904507	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgtttataatcctgtctgggTactcctcccagatcttacta	6	11	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr4:190904507T>A	uc011clg.1	-	4	476	c.473A>T	c.(472-474)TAC>TTC	p.Y158F		NM_020040	NP_064424	Q99867	TBB4Q_HUMAN	tubulin, beta polypeptide 4, member Q	159					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;4.1e-31)|Epithelial(3;1.44e-30)|OV - Ovarian serous cystadenocarcinoma(60;2.03e-15)|BRCA - Breast invasive adenocarcinoma(30;8.54e-06)|Lung(3;3.23e-05)|STAD - Stomach adenocarcinoma(60;8.24e-05)|LUSC - Lung squamous cell carcinoma(40;0.000184)|GBM - Glioblastoma multiforme(59;0.00839)|READ - Rectum adenocarcinoma(43;0.155)		CCTGTCTGGGTACTCCTCCCA	0.572													44	67	---	---	---	---	PASS	A	190904507	A	A	190904507	3	1	149	1	0	0	0	0	1	0	0	0	16756	1638	57	5	831	5	TUBB4Q	4	190904507	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	3811440	190904507	249769	124	53128										
AHRR	57491	broad.mit.edu	37	chr5	428049	428049	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cgttctcctcccctccgcagCggagatgaaaatgaggagcg	12	13	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:428049C>T	uc003jav.2	+	9	946	c.902C>T	c.(901-903)GCG>GTG	p.A301V	AHRR_uc003jaw.2_Missense_Mutation_p.A279V|AHRR_uc010isy.2_Missense_Mutation_p.A129V|AHRR_uc010isz.2_Missense_Mutation_p.A279V|AHRR_uc003jax.2_Missense_Mutation_p.A42V|AHRR_uc003jay.2_Missense_Mutation_p.A139V	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	283					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			CCCTCCGCAGCGGAGATGAAA	0.617													20	64	---	---	---	---	PASS	T	428049	T	T	428049	3	4	149	1	0	0	0	0	1	0	0	0	417	768	27	1	936	1	AHRR	5	428049	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08		428049	180487211	125	53129										
TAS2R1	50834	broad.mit.edu	37	chr5	9629449	9629449	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagaagtagaggatcaggaaGgacaggatagacagcaacgc	15	6	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:9629449G>T	uc003jem.1	-	1	1015	c.696C>A	c.(694-696)TCC>TCA	p.S232S		NM_019599	NP_062545	Q9NYW7	TA2R1_HUMAN	taste receptor T2R1	232	Helical; Name=6; (Potential).				chemosensory behavior|sensory perception of taste	integral to membrane	taste receptor activity			ovary(3)	3						GGATCAGGAAGGACAGGATAG	0.502													35	75	---	---	---	---	PASS	T	9629449	T	T	9629449	2	4	149	1	0	0	0	0	0	0	0	1	15562	987	35	3		3	TAS2R1	5	9629449	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	9201400	9629449	171285811	126	53130										
DNAH5	1767	broad.mit.edu	37	chr5	13830718	13830718	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acccatacccttaaaaatccGtccaagtcctcggaaatcca	4	15	0	0	rs143679999	byFrequency	TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:13830718G>T	uc003jfd.2	-	36	6091	c.6049C>A	c.(6049-6051)CGG>AGG	p.R2017R		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2017	AAA 1 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTAAAAATCCGTCCAAGTCCT	0.398									Kartagener_syndrome				22	136	---	---	---	---	PASS	T	13830718	T	T	13830718	2	4	149	1	0	0	0	0	0	0	0	1	4604	1144	40	1		1	DNAH5	5	13830718	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	4201269	13830718	167084542	127	53131										
PDZD2	23037	broad.mit.edu	37	chr5	31799815	31799815	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggcagctgatggttggagttGatgtcagtggggccaggtaa	18	5	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:31799815G>T	uc003jhl.2	+	2	848	c.460G>T	c.(460-462)GAT>TAT	p.D154Y	PDZD2_uc003jhm.2_Missense_Mutation_p.D154Y	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	154	PDZ 1.				cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GGTTGGAGTTGATGTCAGTGG	0.582													31	90	---	---	---	---	PASS	T	31799815	T	T	31799815	3	4	149	1	0	0	0	0	1	0	0	0	11701	1290	45	2	462	2	PDZD2	5	31799815	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	17969097	31799815	149115445	128	53132										
ADAMTS12	81792	broad.mit.edu	37	chr5	33546195	33546195	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcccagtggcccagtgacagCacaggtgctcattgcaagac	11	13	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:33546195C>A	uc003jia.1	-	22	4578	c.4415G>T	c.(4414-4416)TGC>TTC	p.C1472F	ADAMTS12_uc010iuq.1_Missense_Mutation_p.C1387F	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1472	TSP type-1 8.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CCAGTGACAGCACAGGTGCTC	0.413										HNSCC(64;0.19)			36	134	---	---	---	---	PASS	A	33546195	A	A	33546195	3	1	149	1	0	0	0	0	1	0	0	0	257	710	25	3	381	3	ADAMTS12	5	33546195	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1746380	33546195	147369065	129	53133										
SPEF2	79925	broad.mit.edu	37	chr5	35740020	35740020	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctacactttaccatttaacaGgaaatgcctttgtttttagt	5	8	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:35740020G>T	uc003jjo.2	+	22	3175	c.3064_splice	c.e22-1	p.E1022_splice	SPEF2_uc003jjp.1_Splice_Site_p.E508_splice	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CCATTTAACAGGAAATGCCTT	0.353													20	106	---	---	---	---	PASS	T	35740020	T	T	35740020	5	4	149	1	0	0	0	0	0	0	1	0	15034	1014	35	3	3170	3	SPEF2	5	35740020	Splice_Site	SNP	G	TCGA-66-2763-01A-01D-1522-08	2193825	35740020	145175240	130	53134										
C7	730	broad.mit.edu	37	chr5	40959662	40959662	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcccagtgggggtgggagatCctgcgttggagaaacgacag	17	8	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:40959662C>G	uc003jmh.2	+	12	1715	c.1601C>G	c.(1600-1602)TCC>TGC	p.S534C	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	534	TSP type-1 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				GGTGGGAGATCCTGCGTTGGA	0.547													6	35	---	---	---	---	PASS	G	40959662	G	G	40959662	3	3	149	1	0	0	0	0	1	0	0	0	2375	855	30	2	1647	2	C7	5	40959662	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	5219642	40959662	139955598	131	53135										
NNT	23530	broad.mit.edu	37	chr5	43677883	43677883	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttgctgatttggtaaagatgCtcactgagcaaggcaaaaaa	10	6	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:43677883C>T	uc003joe.2	+	19	3106	c.2851C>T	c.(2851-2853)CTC>TTC	p.L951F	NNT_uc003jof.2_Missense_Mutation_p.L951F	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	951	Mitochondrial matrix.				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	GGTAAAGATGCTCACTGAGCA	0.393													28	255	---	---	---	---	PASS	T	43677883	T	T	43677883	3	4	149	1	0	0	0	0	1	0	0	0	10510	797	28	3	2921	3	NNT	5	43677883	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	2718221	43677883	137237377	132	53136										
HCN1	348980	broad.mit.edu	37	chr5	45645413	45645413	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	taaacttcagaatccattccTttttctacaataagaaagat	3	8	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:45645413T>G	uc003jok.2	-	2	748	c.723A>C	c.(721-723)AAA>AAC	p.K241N		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	241	Extracellular (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						AATCCATTCCTTTTTCTACAA	0.373													7	103	---	---	---	---	PASS	G	45645413	G	G	45645413	3	3	149	1	0	0	0	0	1	0	0	0	6996	1606	56	5	1977	5	HCN1	5	45645413	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	1967530	45645413	135269847	133	53137										
MAP1B	4131	broad.mit.edu	37	chr5	71493830	71493830	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	actctcatatggagggtgtgGcctcagtgtccacagcctca	11	12	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:71493830G>T	uc003kbw.3	+	5	4889	c.4648G>T	c.(4648-4650)GCC>TCC	p.A1550S	MAP1B_uc010iyw.1_Missense_Mutation_p.A1567S|MAP1B_uc010iyx.1_Missense_Mutation_p.A1424S|MAP1B_uc010iyy.1_Missense_Mutation_p.A1424S	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1550						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		GGAGGGTGTGGCCTCAGTGTC	0.512													61	50	---	---	---	---	PASS	T	71493830	T	T	71493830	3	4	149	1	0	0	0	0	1	0	0	0	9228	1203	42	3	4666	3	MAP1B	5	71493830	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	25848417	71493830	109421430	134	53138										
POLK	51426	broad.mit.edu	37	chr5	74893590	74893590	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aggtagctcaagtggagtacAgaaggctgtaacaagaacaa	12	6	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:74893590A>G	uc003kdw.2	+	14	2600	c.2504A>G	c.(2503-2505)CAG>CGG	p.Q835R	POLK_uc003kdx.2_RNA|POLK_uc003kdy.2_RNA|POLK_uc010izq.2_Missense_Mutation_p.Q637R|POLK_uc003kec.2_Missense_Mutation_p.Q745R|POLK_uc010izr.2_RNA|POLK_uc010izs.2_RNA|POLK_uc003ked.2_Missense_Mutation_p.R369G|POLK_uc003kee.2_Missense_Mutation_p.R459G|POLK_uc003kef.2_Missense_Mutation_p.Q745R	NM_016218	NP_057302	Q9UBT6	POLK_HUMAN	DNA-directed DNA polymerase kappa	835					DNA replication|nucleotide-excision repair, DNA gap filling	nucleus	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|kidney(2)	4		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;2.9e-54)|all cancers(79;1.27e-42)		AGTGGAGTACAGAAGGCTGTA	0.244								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					40	39	---	---	---	---	PASS	G	74893590	G	G	74893590	3	3	149	1	0	0	0	0	1	0	0	0	12204	188	7	5	2554	5	POLK	5	74893590	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	3399760	74893590	106021670	135	53139										
CMYA5	202333	broad.mit.edu	37	chr5	79084821	79084821	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tctggaatcaaaggactccaGctgaaagttaacctccaacc	7	12	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:79084821G>T	uc003kgc.2	+	10	11655	c.11583G>T	c.(11581-11583)CAG>CAT	p.Q3861H		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3861	Fibronectin type-III 2.					perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AAGGACTCCAGCTGAAAGTTA	0.368													83	96	---	---	---	---	PASS	T	79084821	T	T	79084821	3	4	149	1	0	0	0	0	1	0	0	0	3590	962	34	3	11621	3	CMYA5	5	79084821	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	4191231	79084821	101830439	136	53140										
YTHDC2	64848	broad.mit.edu	37	chr5	112849645	112849645	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gccggctcctggcggtggcgGaggcggcggcccctcgcctt	18	16	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:112849645G>A	uc003kqn.2	+	1	236	c.53G>A	c.(52-54)GGA>GAA	p.G18E	YTHDC2_uc010jce.1_Missense_Mutation_p.G18E|YTHDC2_uc010jcf.1_5'UTR	NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	18	Gly-rich.						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)		GGCGGTGGCGGAGGCGGCGGC	0.692													2	1	---	---	---	---	PASS	A	112849645	A	A	112849645	3	1	149	1	0	0	0	0	1	0	0	0	17494	1174	41	2	55	2	YTHDC2	5	112849645	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	33764824	112849645	68065615	137	53141										
KCNN2	3781	broad.mit.edu	37	chr5	113831657	113831657	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agtgaagacttcgagaagagGattgttaccctggaaacaaa	11	6	0	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:113831657G>T	uc003kqo.2	+	8	1975	c.1518G>T	c.(1516-1518)AGG>AGT	p.R506S	KCNN2_uc003kqp.2_Missense_Mutation_p.R158S|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	506						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		TCGAGAAGAGGATTGTTACCC	0.428													109	121	---	---	---	---	PASS	T	113831657	T	T	113831657	3	4	149	1	0	0	0	0	1	0	0	0	8079	1165	41	2	1548	2	KCNN2	5	113831657	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	982012	113831657	67083603	138	53142										
FTMT	94033	broad.mit.edu	37	chr5	121187977	121187977	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acttctcccgggatgacgtgGccttgaacaacttctccagg	10	13	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:121187977G>T	uc003kss.2	+	1	328	c.319G>T	c.(319-321)GCC>TCC	p.A107S		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	107	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		GGATGACGTGGCCTTGAACAA	0.587													33	34	---	---	---	---	PASS	T	121187977	T	T	121187977	3	4	149	1	0	0	0	0	1	0	0	0	6085	1203	42	3	321	3	FTMT	5	121187977	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	7356320	121187977	59727283	139	53143										
SNX24	28966	broad.mit.edu	37	chr5	122272481	122272481	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aaaacattttgttgaaaagaGatacagcgaatttcatgctt	7	5	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:122272481G>A	uc011cwo.1	+	2	282	c.113G>A	c.(112-114)AGA>AAA	p.R38K	SNX24_uc003ktf.2_Missense_Mutation_p.R38K|SNX24_uc010jcy.2_Missense_Mutation_p.R38K	NM_014035	NP_054754	Q9Y343	SNX24_HUMAN	SBBI31 protein	38	PX.	Phosphatidylinositol 3-phosphate (By similarity).			cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding				0		Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	OV - Ovarian serous cystadenocarcinoma(64;0.000654)|Epithelial(69;0.0016)|all cancers(49;0.0139)		GTTGAAAAGAGATACAGCGAA	0.299													39	48	---	---	---	---	PASS	A	122272481	A	A	122272481	3	1	149	1	0	0	0	0	1	0	0	0	14895	942	33	2	119	2	SNX24	5	122272481	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1084504	122272481	58642779	140	53144										
PCDHGB2	56103	broad.mit.edu	37	chr5	140741839	140741839	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cggtgattctggcaatctccCtgcgcctgcgactctcttcc	9	16	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:140741839C>T	uc003ljs.1	+	1	2137	c.2137C>T	c.(2137-2139)CTG>TTG	p.L713L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Silent_p.L713L|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	713	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCAATCTCCCTGCGCCTGCG	0.572													63	103	---	---	---	---	PASS	T	140741839	T	T	140741839	2	4	149	1	0	0	0	0	0	0	0	1	11563	680	24	3		3	PCDHGB2	5	140741839	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	18469358	140741839	40173421	141	53145										
PCDHGB4	8641	broad.mit.edu	37	chr5	140769700	140769700	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggggactttgccttattcctAcaatctatgtgttgcacata	8	9	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:140769700A>T	uc003lkc.1	+	1	2249	c.2249A>T	c.(2248-2250)TAC>TTC	p.Y750F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.Y750F	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	750	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTTATTCCTACAATCTATGT	0.483													199	242	---	---	---	---	PASS	T	140769700	T	T	140769700	3	4	149	1	0	0	0	0	1	0	0	0	11565	391	14	5	2251	5	PCDHGB4	5	140769700	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	27861	140769700	40145560	142	53146										
PCDH1	5097	broad.mit.edu	37	chr5	141248635	141248635	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtgatagatacctcaaactcCaggatgcagggatcaccagg	11	10	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:141248635C>T	uc003llq.2	-	2	519	c.402G>A	c.(400-402)CTG>CTA	p.L134L	PCDH1_uc003llp.2_Silent_p.L134L|PCDH1_uc011dbf.1_Silent_p.L112L	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	134	Extracellular (Potential).|Cadherin 1.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		CCTCAAACTCCAGGATGCAGG	0.547													47	58	---	---	---	---	PASS	T	141248635	T	T	141248635	2	4	149	1	0	0	0	0	0	0	0	1	11506	581	21	3		3	PCDH1	5	141248635	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	478935	141248635	39666625	143	53147										
LCP2	3937	broad.mit.edu	37	chr5	169679495	169679495	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cgggtaatataagaaacgtaCcactcttcatttaatgaatt	6	7	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr5:169679495C>G	uc003man.1	-	19	1473	c.1266G>C	c.(1264-1266)TGG>TGC	p.W422C	C5orf58_uc003mal.2_RNA|LCP2_uc011des.1_Missense_Mutation_p.W217C|LCP2_uc011det.1_Missense_Mutation_p.W251C	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	422	SH2.				immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		AAGAAACGTACCACTCTTCAT	0.294													7	12	---	---	---	---	PASS	G	169679495	G	G	169679495	3	3	149	1	0	0	0	0	1	0	0	0	8692	508	18	4	347	4	LCP2	5	169679495	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	28430860	169679495	11235765	144	53148										
SYCP2L	221711	broad.mit.edu	37	chr6	10894192	10894192	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagagccactttcctcaaaaAtataatcgtcttctattata	4	9	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:10894192A>T	uc003mzo.2	+	3	467	c.171A>T	c.(169-171)AAA>AAT	p.K57N	SYCP2L_uc011dim.1_RNA	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	57						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			TTCCTCAAAAATATAATCGTC	0.308													25	81	---	---	---	---	PASS	T	10894192	T	T	10894192	3	4	149	1	0	0	0	0	1	0	0	0	15430	98	4	5	181	5	SYCP2L	6	10894192	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08		10894192	160220875	145	53149										
LRRC16A	55604	broad.mit.edu	37	chr6	25450634	25450634	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcatacagggaagaagtacaAtgggtaagaatgtctgtgta	12	4	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:25450634A>G	uc011djw.1	+	7	913	c.537A>G	c.(535-537)CAA>CAG	p.Q179Q	LRRC16A_uc010jpx.2_Silent_p.Q179Q|LRRC16A_uc010jpy.2_Silent_p.Q179Q|LRRC16A_uc003nez.1_Silent_p.Q18Q	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	179					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						AAGAAGTACAATGGGTAAGAA	0.388													20	48	---	---	---	---	PASS	G	25450634	G	G	25450634	2	3	149	1	0	0	0	0	0	0	0	1	8971	98	4	5		5	LRRC16A	6	25450634	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08	14556442	25450634	145664433	146	53150										
HIST1H4D	8360	broad.mit.edu	37	chr6	26189072	26189072	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggctgtgactgtcttgcgtTtggcgtgttccgtgtaggtg	16	7	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:26189072T>A	uc003ngu.2	-	1	233	c.233A>T	c.(232-234)AAA>ATA	p.K78I		NM_003539	NP_003530	P62805	H4_HUMAN	histone cluster 1, H4d	78					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.196)				TGTCTTGCGTTTGGCGTGTTC	0.522													46	94	---	---	---	---	PASS	A	26189072	A	A	26189072	3	1	149	1	0	0	0	0	1	0	0	0	7168	1841	64	5	82	5	HIST1H4D	6	26189072	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	738438	26189072	144925995	147	53151										
HIST1H4K	8362	broad.mit.edu	37	chr6	27799020	27799020	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	accgaaaccgtagagggtgcGgccctggcgcttgagcgcgt	16	12	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:27799020G>A	uc003njr.2	-	1	286	c.286C>T	c.(286-288)CGC>TGC	p.R96C		NM_003541	NP_003532	P62805	H4_HUMAN	histone cluster 1, H4k	96					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding				0						TAGAGGGTGCGGCCCTGGCGC	0.587													3	83	---	---	---	---	PASS	A	27799020	A	A	27799020	3	1	149	1	0	0	0	0	1	0	0	0	7175	1116	39	1	29	1	HIST1H4K	6	27799020	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1609948	27799020	143316047	148	53152										
OR2J2	26707	broad.mit.edu	37	chr6	29141629	29141629	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acctctcatttctggatctcTgctacaccaccagctctatc	4	16	4	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:29141629T>C	uc011dlm.1	+	1	319	c.217T>C	c.(217-219)TGC>CGC	p.C73R		NM_030905	NP_112167	O76002	OR2J2_HUMAN	olfactory receptor, family 2, subfamily J,	73	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCTGGATCTCTGCTACACCAC	0.478													78	300	---	---	---	---	PASS	C	29141629	C	C	29141629	3	2	149	1	0	0	0	0	1	0	0	0	11003	1580	55	5	219	5	OR2J2	6	29141629	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	1342609	29141629	141973438	149	53153										
C6orf15	29113	broad.mit.edu	37	chr6	31079319	31079319	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggataccgattaatattccCccagctgcctcctggatacc	7	14	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:31079319C>T	uc003nsk.1	-	2	817	c.817G>A	c.(817-819)GGG>AGG	p.G273R		NM_014070	NP_054789	Q6UXA7	CF015_HUMAN	STG protein precursor	273	Gly-rich.										0						TTAATATTCCCCCAGCTGCCT	0.507													34	118	---	---	---	---	PASS	T	31079319	T	T	31079319	3	4	149	1	0	0	0	0	1	0	0	0	2336	623	22	3	164	3	C6orf15	6	31079319	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1937690	31079319	140035748	150	53154										
NOTCH4	4855	broad.mit.edu	37	chr6	32187380	32187380	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agctgatacctggcgggcagAggcagtggaaggtggcaagt	18	7	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:32187380A>G	uc003obb.2	-	8	1638	c.1499T>C	c.(1498-1500)CTC>CCC	p.L500P	NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc003obc.2_Missense_Mutation_p.L500P	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	500	EGF-like 12; calcium-binding (Potential).|Extracellular (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						TGGCGGGCAGAGGCAGTGGAA	0.592													14	25	---	---	---	---	PASS	G	32187380	G	G	32187380	3	3	149	1	0	0	0	0	1	0	0	0	10551	304	11	5	4604	5	NOTCH4	6	32187380	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	1108061	32187380	138927687	151	53155										
HLA-DQA1	3117	broad.mit.edu	37	chr6	32609223	32609223	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	actgcctggcggtggcctgaGttcagcaaatttggaggttt	14	8	1	1	rs9272697		TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:32609223G>A	uc003obr.2	+	2	272	c.219G>A	c.(217-219)GAG>GAA	p.E73E	HLA-DQA1_uc003obs.2_RNA|HLA-DQA1_uc003obt.1_Silent_p.E73E|HLA-DQA1_uc003obu.2_5'Flank	NM_002122	NP_002113	P01909	DQA1_HUMAN	major histocompatibility complex, class II, DQ	73	Alpha-1.|Extracellular (Potential).		V -> D.|V -> L (in allele DQA1*02:01, allele DQA1*03:01, allele DQA1*03:02 and allele DQA1*03:03).		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						GGTGGCCTGAGTTCAGCAAAT	0.502													40	74	---	---	---	---	PASS	A	32609223	A	A	32609223	2	1	149	1	0	0	0	0	0	0	0	1	7204	1020	36	3		3	HLA-DQA1	6	32609223	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	421843	32609223	138505844	152	53156										
TBC1D22B	55633	broad.mit.edu	37	chr6	37284591	37284591	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cttcgctgcaccatccgcctGtgggacacatatcaggtagg	11	13	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:37284591G>A	uc003onn.2	+	11	1424	c.1278G>A	c.(1276-1278)CTG>CTA	p.L426L	TBC1D22B_uc010jwt.2_RNA|TBC1D22B_uc003ono.1_Silent_p.L84L|TBC1D22B_uc003onp.2_Silent_p.L84L	NM_017772	NP_060242	Q9NU19	TB22B_HUMAN	TBC1 domain family, member 22B	426	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0			OV - Ovarian serous cystadenocarcinoma(102;0.241)			CCATCCGCCTGTGGGACACAT	0.552													60	152	---	---	---	---	PASS	A	37284591	A	A	37284591	2	1	149	1	0	0	0	0	0	0	0	1	15609	1364	48	3		3	TBC1D22B	6	37284591	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	4675368	37284591	133830476	153	53157										
TREML4	285852	broad.mit.edu	37	chr6	41197820	41197820	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttctgatcacttctccagagGggacctctggccatccctcc	8	16	4	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:41197820G>A	uc003oqc.2	+	4	570	c.466G>A	c.(466-468)GGG>AGG	p.G156R	TREML4_uc003oqd.2_RNA	NM_198153	NP_937796	Q6UXN2	TRML4_HUMAN	triggering receptor expressed on myeloid	156						extracellular region				breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					TTCTCCAGAGGGGACCTCTGG	0.537													57	144	---	---	---	---	PASS	A	41197820	A	A	41197820	3	1	149	1	0	0	0	0	1	0	0	0	16471	1232	43	3	480	3	TREML4	6	41197820	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3913229	41197820	129917247	154	53158										
PKHD1	5314	broad.mit.edu	37	chr6	51491894	51491894	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	attattagtctgggattcagGaatctcttcaggttttgttt	9	5	4	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:51491894G>T	uc003pah.1	-	66	11962	c.11686C>A	c.(11686-11688)CCT>ACT	p.P3896T		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3896	Cytoplasmic (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TGGGATTCAGGAATCTCTTCA	0.393													57	271	---	---	---	---	PASS	T	51491894	T	T	51491894	3	4	149	1	0	0	0	0	1	0	0	0	11971	1174	41	2	546	2	PKHD1	6	51491894	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	10294074	51491894	119623173	155	53159										
PKHD1	5314	broad.mit.edu	37	chr6	51892634	51892634	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aagagccactcacccagcagGgacccacagcaaggctcgat	10	15	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:51892634G>T	uc003pah.1	-	31	3897	c.3621C>A	c.(3619-3621)TCC>TCA	p.S1207S	PKHD1_uc003pai.2_Silent_p.S1207S	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1207	Extracellular (Potential).|IPT/TIG 7.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CACCCAGCAGGGACCCACAGC	0.428													17	70	---	---	---	---	PASS	T	51892634	T	T	51892634	2	4	149	1	0	0	0	0	0	0	0	1	11971	1219	43	3		3	PKHD1	6	51892634	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	400740	51892634	119222433	156	53160										
PRIM2	5558	broad.mit.edu	37	chr6	57472440	57472440	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctctcctggagggataagccAggtaggtcatattcttctct	10	10	4	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:57472440A>T	uc003pdx.2	+	13	1316	c.1229A>T	c.(1228-1230)CAG>CTG	p.Q410L		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	410					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		GGGATAAGCCAGGTAGGTCAT	0.438													8	78	---	---	---	---	PASS	T	57472440	T	T	57472440	3	4	149	1	0	0	0	0	1	0	0	0	12491	202	7	5	1271	5	PRIM2	6	57472440	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	5579806	57472440	113642627	157	53161										
COL12A1	1303	broad.mit.edu	37	chr6	75875302	75875302	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	actgaaattctgtatttggtCtctggctgcagattttctat	8	7	3	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:75875302C>G	uc003phs.2	-	14	3070	c.2904G>C	c.(2902-2904)GAG>GAC	p.E968D	COL12A1_uc003pht.2_Intron	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	968	Fibronectin type-III 6.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TGTATTTGGTCTCTGGCTGCA	0.413													94	200	---	---	---	---	PASS	G	75875302	G	G	75875302	3	3	149	1	0	0	0	0	1	0	0	0	3669	912	32	2	6499	2	COL12A1	6	75875302	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	18402862	75875302	95239765	158	53162										
GABRR1	2569	broad.mit.edu	37	chr6	89890084	89890084	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cggccgcatactccagcaccGagaggaacacgaacacaaag	10	14	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:89890084G>T	uc003pna.2	-	9	1528	c.1073C>A	c.(1072-1074)TCG>TAG	p.S358*	GABRR1_uc011dzv.1_Nonsense_Mutation_p.S335*	NM_002042	NP_002033	P24046	GBRR1_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 1	358	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|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			pancreas(1)	1		all_cancers(76;9.49e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.46e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00917)	Picrotoxin(DB00466)	CTCCAGCACCGAGAGGAACAC	0.567													26	32	---	---	---	---	PASS	T	89890084	T	T	89890084	4	4	149	1	0	0	0	0	0	1	0	0	6176	1059	37	2	374	2	GABRR1	6	89890084	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	14014782	89890084	81224983	159	53163										
BACH2	60468	broad.mit.edu	37	chr6	90718357	90718357	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	accaccaaatcattttttgtCtgtccaaccagcgcctgcca	5	15	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:90718357C>G	uc011eab.1	-	6	1016	c.207G>C	c.(205-207)CAG>CAC	p.Q69H	BACH2_uc003pnw.2_Missense_Mutation_p.Q69H|BACH2_uc010kch.2_Missense_Mutation_p.Q69H	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	69	BTB.					nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		CATTTTTTGTCTGTCCAACCA	0.478													4	91	---	---	---	---	PASS	G	90718357	G	G	90718357	3	3	149	1	0	0	0	0	1	0	0	0	1284	912	32	2	2334	2	BACH2	6	90718357	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	828273	90718357	80396710	160	53164										
BVES	11149	broad.mit.edu	37	chr6	105573294	105573294	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caagagaatactcagacggtCatcaactgaggttttatcct	8	9	3	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:105573294C>A	uc003pqw.2	-	4	668	c.511G>T	c.(511-513)GAC>TAC	p.D171Y	BVES_uc003pqx.2_Missense_Mutation_p.D171Y|BVES_uc003pqy.2_Missense_Mutation_p.D171Y	NM_147147	NP_671488	Q8NE79	POPD1_HUMAN	blood vessel epicardial substance isoform 5	171	Cytoplasmic (Potential).				epithelial cell-cell adhesion|muscle organ development|positive regulation of locomotion|positive regulation of receptor recycling|regulation of Cdc42 GTPase activity|regulation of cell shape|regulation of Rac GTPase activity|substrate adhesion-dependent cell spreading|vesicle-mediated transport	integral to membrane|lateral plasma membrane|tight junction	structural molecule activity				0		all_cancers(87;2.83e-05)|Acute lymphoblastic leukemia(125;1.95e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0101)|Colorectal(196;0.204)|Lung NSC(302;0.238)				CTCAGACGGTCATCAACTGAG	0.408													132	173	---	---	---	---	PASS	A	105573294	A	A	105573294	3	1	149	1	0	0	0	0	1	0	0	0	1575	826	29	2	591	2	BVES	6	105573294	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	14854937	105573294	65541773	161	53165										
ROS1	6098	broad.mit.edu	37	chr6	117641146	117641146	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gacgcagagtcagtttttccCgagggaaggcaggaagattt	14	7	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:117641146C>A	uc003pxp.1	-	36	6024	c.5825G>T	c.(5824-5826)CGG>CTG	p.R1942L	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Missense_Mutation_p.R268L	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1942	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		CAGTTTTTCCCGAGGGAAGGC	0.463			T	GOPC|ROS1	glioblastoma|NSCLC								56	66	---	---	---	---	PASS	A	117641146	A	A	117641146	3	1	149	1	0	0	0	0	1	0	0	0	13531	652	23	1	1250	1	ROS1	6	117641146	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	12067852	117641146	53473921	162	53166										
THEMIS	387357	broad.mit.edu	37	chr6	128134171	128134171	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tctccgcatcatgtaatattGctcttcagtgatctcttcta	5	11	6	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:128134171G>T	uc003qbi.2	-	5	1934	c.1615C>A	c.(1615-1617)CAA>AAA	p.Q539K	THEMIS_uc010kfa.2_Missense_Mutation_p.Q442K|THEMIS_uc011ebt.1_Missense_Mutation_p.Q539K|THEMIS_uc010kfb.2_Missense_Mutation_p.Q504K	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	539					negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						ATGTAATATTGCTCTTCAGTG	0.463													85	94	---	---	---	---	PASS	T	128134171	T	T	128134171	3	4	149	1	0	0	0	0	1	0	0	0	15857	1328	46	3	443	3	THEMIS	6	128134171	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	10493025	128134171	42980896	163	53167										
TAAR5	9038	broad.mit.edu	37	chr6	132910096	132910096	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agcttttctctcatgcttggCagccccagccaggcttttgc	9	14	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:132910096C>A	uc003qdk.2	-	1	782	c.730G>T	c.(730-732)GCC>TCC	p.A244S		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	244	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		TCATGCTTGGCAGCCCCAGCC	0.527													43	42	---	---	---	---	PASS	A	132910096	A	A	132910096	3	1	149	1	0	0	0	0	1	0	0	0	15488	710	25	3	287	3	TAAR5	6	132910096	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	4775925	132910096	38204971	164	53168										
EYA4	2070	broad.mit.edu	37	chr6	133789710	133789710	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aattattgtttcaggattatCcatcctatacagcctttggc	6	9	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:133789710C>G	uc003qec.3	+	11	1269	c.811C>G	c.(811-813)CCA>GCA	p.P271A	EYA4_uc011ecq.1_Missense_Mutation_p.P217A|EYA4_uc011ecr.1_Missense_Mutation_p.P217A|EYA4_uc003qed.3_Missense_Mutation_p.P271A|EYA4_uc003qee.3_Missense_Mutation_p.P248A|EYA4_uc011ecs.1_Missense_Mutation_p.P271A|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	271					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		TCAGGATTATCCATCCTATAC	0.383													68	76	---	---	---	---	PASS	G	133789710	G	G	133789710	3	3	149	1	0	0	0	0	1	0	0	0	5331	855	30	2	849	2	EYA4	6	133789710	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	879614	133789710	37325357	165	53169										
EYA4	2070	broad.mit.edu	37	chr6	133836552	133836552	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gctaacaaatgcacttaagtCtttatcaattattagcacta	4	8	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:133836552C>G	uc003qec.3	+	17	2053	c.1595C>G	c.(1594-1596)TCT>TGT	p.S532C	EYA4_uc011ecq.1_Missense_Mutation_p.S478C|EYA4_uc011ecr.1_Missense_Mutation_p.S484C|EYA4_uc003qed.3_Missense_Mutation_p.S532C|EYA4_uc003qee.3_Missense_Mutation_p.S509C|EYA4_uc011ecs.1_Missense_Mutation_p.S538C|uc003qeg.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	532					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		GCACTTAAGTCTTTATCAATT	0.388													86	116	---	---	---	---	PASS	G	133836552	G	G	133836552	3	3	149	1	0	0	0	0	1	0	0	0	5331	913	32	2	1657	2	EYA4	6	133836552	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	46842	133836552	37278515	166	53170										
SLC2A12	154091	broad.mit.edu	37	chr6	134349793	134349793	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aggtttcctggtccataaatCacagactcatccaaggactg	8	11	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:134349793C>A	uc003qem.1	-	2	1341	c.1170G>T	c.(1168-1170)GTG>GTT	p.V390V		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	390	Extracellular (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		GTCCATAAATCACAGACTCAT	0.458													4	201	---	---	---	---	PASS	A	134349793	A	A	134349793	2	1	149	1	0	0	0	0	0	0	0	1	14541	813	29	2		2	SLC2A12	6	134349793	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	513241	134349793	36765274	167	53171										
GPR126	57211	broad.mit.edu	37	chr6	142726876	142726876	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggcatctgtaattttgcctCcaaacttacttgagaattta	6	8	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:142726876C>T	uc010khc.2	+	15	2590	c.2179C>T	c.(2179-2181)CCA>TCA	p.P727S	GPR126_uc010khd.2_Missense_Mutation_p.P699S|GPR126_uc010khe.2_Missense_Mutation_p.P727S|GPR126_uc010khf.2_Missense_Mutation_p.P699S	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	727	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		AATTTTGCCTCCAAACTTACT	0.368													22	21	---	---	---	---	PASS	T	142726876	T	T	142726876	3	4	149	1	0	0	0	0	1	0	0	0	6640	855	30	2	2237	2	GPR126	6	142726876	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	8377083	142726876	28388191	168	53172										
PARK2	5071	broad.mit.edu	37	chr6	161781192	161781192	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gatggtttctttggaggctgCttcccaacgagcctgctcgg	13	11	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr6:161781192C>G	uc003qtx.3	-	11	1347	c.1213G>C	c.(1213-1215)GCA>CCA	p.A405P	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Missense_Mutation_p.A214P|PARK2_uc003qtw.3_Intron|PARK2_uc003qty.3_Missense_Mutation_p.A377P|PARK2_uc003qtz.3_Missense_Mutation_p.A256P|PARK2_uc011egf.1_Missense_Mutation_p.A79P	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	405					aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		TTGGAGGCTGCTTCCCAACGA	0.512													61	82	---	---	---	---	PASS	G	161781192	G	G	161781192	3	3	149	1	0	0	0	0	1	0	0	0	11449	797	28	4	192	4	PARK2	6	161781192	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	19054316	161781192	9333875	169	53173										
DNAH11	8701	broad.mit.edu	37	chr7	21826351	21826351	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gggaagagtgcccaaagaccGaagttggaaagcagctaaag	14	7	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:21826351G>A	uc003svc.2	+	60	9759	c.9728G>A	c.(9727-9729)CGA>CAA	p.R3243Q		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3243	Stalk (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CCCAAAGACCGAAGTTGGAAA	0.488									Kartagener_syndrome				10	259	---	---	---	---	PASS	A	21826351	A	A	21826351	3	1	149	1	0	0	0	0	1	0	0	0	4599	1058	37	2	9963	2	DNAH11	7	21826351	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08		21826351	137312312	170	53174										
CDCA7L	55536	broad.mit.edu	37	chr7	21946241	21946241	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctggcatcgagttcaattccGccaataactgggcaagctga	10	11	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:21946241G>A	uc010kuk.2	-	5	818	c.698C>T	c.(697-699)GCG>GTG	p.A233V	CDCA7L_uc003sve.3_Missense_Mutation_p.A199V|CDCA7L_uc010kul.2_Missense_Mutation_p.A187V|CDCA7L_uc003svf.3_Missense_Mutation_p.A232V|CDCA7L_uc011jyk.1_Missense_Mutation_p.A233V	NM_018719	NP_061189	Q96GN5	CDA7L_HUMAN	cell division cycle associated 7-like isoform 1	233	MYC-binding.				positive regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus					0						GTTCAATTCCGCCAATAACTG	0.403													6	151	---	---	---	---	PASS	A	21946241	A	A	21946241	3	1	149	1	0	0	0	0	1	0	0	0	3091	1087	38	1	690	1	CDCA7L	7	21946241	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	119890	21946241	137192422	171	53175										
OSBPL3	26031	broad.mit.edu	37	chr7	24854819	24854819	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttccactcaaaatgatccccAaaactaaaaagaaggaaaaa	4	9	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:24854819A>G	uc003sxf.2	-	19	2436	c.2031T>C	c.(2029-2031)TTT>TTC	p.F677F	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Silent_p.F641F|OSBPL3_uc003sxh.2_Silent_p.F646F|OSBPL3_uc003sxi.2_Silent_p.F610F	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	677					lipid transport		lipid binding|protein binding			skin(1)	1						AATGATCCCCAAAACTAAAAA	0.393													70	144	---	---	---	---	PASS	G	24854819	G	G	24854819	2	3	149	1	0	0	0	0	0	0	0	1	11279	127	5	5		5	OSBPL3	7	24854819	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08	2908578	24854819	134283844	172	53176										
HOXA1	3198	broad.mit.edu	37	chr7	27134301	27134301	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gatctccaccctgcgggcgcGcgtcaggtacttgttgaagt	13	12	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:27134301G>A	uc003sye.2	-	2	860	c.766C>T	c.(766-768)CGC>TGC	p.R256C	HOXA1_uc003syd.2_3'UTR|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	256	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3						CTGCGGGCGCGCGTCAGGTAC	0.562													77	140	---	---	---	---	PASS	A	27134301	A	A	27134301	3	1	149	1	0	0	0	0	1	0	0	0	7288	1087	38	1	245	1	HOXA1	7	27134301	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	2279482	27134301	132004362	173	53177										
CRHR2	1395	broad.mit.edu	37	chr7	30693149	30693149	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tagggatggacatggcccggGccatggggactcgaagggag	19	8	0	0	rs143693159	byFrequency	TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:30693149G>C	uc003tbn.2	-	12	1407	c.1163C>G	c.(1162-1164)GCC>GGC	p.A388G	CRHR2_uc010kvw.1_3'UTR|CRHR2_uc010kvx.1_Missense_Mutation_p.A387G|CRHR2_uc010kvy.1_Missense_Mutation_p.A224G|CRHR2_uc003tbo.2_Missense_Mutation_p.A374G|CRHR2_uc003tbp.2_Missense_Mutation_p.A415G	NM_001883	NP_001874	Q13324	CRFR2_HUMAN	corticotropin releasing hormone receptor 2	388	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(2)|ovary(1)|skin(1)	4						CATGGCCCGGGCCATGGGGAC	0.652													61	147	---	---	---	---	PASS	C	30693149	C	C	30693149	3	2	149	1	0	0	0	0	1	0	0	0	3872	1203	42	4	76	4	CRHR2	7	30693149	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3558848	30693149	128445514	174	53178										
INMT	11185	broad.mit.edu	37	chr7	30791833	30791833	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgcccagggactacttggctActtactacagcttcgatggc	10	12	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:30791833A>G	uc003tbs.1	+	1	83	c.67A>G	c.(67-69)ACT>GCT	p.T23A	FAM188B_uc010kwe.2_5'UTR|INMT_uc010kwc.1_Intron|INMT_uc010kwd.1_Missense_Mutation_p.T23A	NM_006774	NP_006765	O95050	INMT_HUMAN	indolethylamine N-methyltransferase	23						cytoplasm	amine N-methyltransferase activity				0						CTACTTGGCTACTTACTACAG	0.557													41	121	---	---	---	---	PASS	G	30791833	G	G	30791833	3	3	149	1	0	0	0	0	1	0	0	0	7745	391	14	5	69	5	INMT	7	30791833	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	98684	30791833	128346830	175	53179										
GHRHR	2692	broad.mit.edu	37	chr7	31018795	31018795	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgagcttctgccagcctggaGgacccgtgctaagtggacca	13	12	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:31018795G>C	uc003tbx.2	+	13	1256	c.1208G>C	c.(1207-1209)AGG>ACG	p.R403T	GHRHR_uc003tby.2_Missense_Mutation_p.R339T|GHRHR_uc003tbz.2_3'UTR	NM_000823	NP_000814	Q02643	GHRHR_HUMAN	growth hormone releasing hormone receptor	403	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to estrogen stimulus|response to glucocorticoid stimulus	cell surface|integral to membrane|nuclear inner membrane|nuclear matrix|nuclear outer membrane|plasma membrane|stored secretory granule	growth factor binding|growth hormone-releasing hormone receptor activity|peptide hormone binding			ovary(2)|lung(1)|breast(1)|large_intestine(1)	5					Sermorelin(DB00010)	CCAGCCTGGAGGACCCGTGCT	0.592													32	95	---	---	---	---	PASS	C	31018795	C	C	31018795	3	2	149	1	0	0	0	0	1	0	0	0	6373	1000	35	4	1298	4	GHRHR	7	31018795	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	226962	31018795	128119868	176	53180										
CCDC129	223075	broad.mit.edu	37	chr7	31617870	31617870	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gctaccttatcctcctcatgGtcttctgagcaagcagtggc	9	13	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:31617870G>T	uc003tcj.1	+	8	1985	c.992G>T	c.(991-993)GGT>GTT	p.G331V	CCDC129_uc011kad.1_Missense_Mutation_p.G341V|CCDC129_uc003tci.1_Intron|CCDC129_uc011kae.1_Missense_Mutation_p.G357V|CCDC129_uc003tck.1_Missense_Mutation_p.G239V	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	331											0						CCTCCTCATGGTCTTCTGAGC	0.507													10	104	---	---	---	---	PASS	T	31617870	T	T	31617870	3	4	149	1	0	0	0	0	1	0	0	0	2764	1261	44	3	1018	3	CCDC129	7	31617870	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	599075	31617870	127520793	177	53181										
PDE1C	5137	broad.mit.edu	37	chr7	31890253	31890253	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccaaacatttaaacaccctcAccgagtctgaatgtggaaat	6	11	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:31890253A>T	uc003tcm.1	-	8	1320	c.851_splice	c.e8+1	p.R284_splice	PDE1C_uc003tcn.1_Splice_Site_p.R284_splice|PDE1C_uc003tco.1_Splice_Site_p.R344_splice|PDE1C_uc003tcr.2_Splice_Site_p.R284_splice|PDE1C_uc003tcs.2_Splice_Site_p.R284_splice	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C						activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			AAACACCCTCACCGAGTCTGA	0.453													66	147	---	---	---	---	PASS	T	31890253	T	T	31890253	5	4	149	1	0	0	0	0	0	0	1	0	11635	173	6	5	1091	5	PDE1C	7	31890253	Splice_Site	SNP	A	TCGA-66-2763-01A-01D-1522-08	272383	31890253	127248410	178	53182										
POLD2	5425	broad.mit.edu	37	chr7	44155788	44155788	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	taggcagtggccagcgggaaCatgcaggggtggaggggctg	21	7	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:44155788C>A	uc010kxz.2	-	9	1595	c.945G>T	c.(943-945)ATG>ATT	p.M315I	POLD2_uc003tke.3_Missense_Mutation_p.M315I|POLD2_uc010kya.2_Missense_Mutation_p.M315I|POLD2_uc003tkf.3_Missense_Mutation_p.M315I	NM_006230	NP_006221	P49005	DPOD2_HUMAN	DNA-directed DNA polymerase delta 2	315					base-excision repair|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	DNA binding|DNA-directed DNA polymerase activity|protein binding			ovary(2)	2						CCAGCGGGAACATGCAGGGGT	0.627													29	78	---	---	---	---	PASS	A	44155788	A	A	44155788	3	1	149	1	0	0	0	0	1	0	0	0	12191	478	17	3	480	3	POLD2	7	44155788	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	12265535	44155788	114982875	179	53183										
FIGNL1	63979	broad.mit.edu	37	chr7	50514621	50514621	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagagtctttgaattttttgCcagcttgcatcatcttctgt	8	8	4	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:50514621C>T	uc003tpc.2	-	4	742	c.365G>A	c.(364-366)GGC>GAC	p.G122D	FIGNL1_uc003tpb.2_Missense_Mutation_p.G11D|FIGNL1_uc003tpd.2_Missense_Mutation_p.G122D|FIGNL1_uc003tpe.2_Missense_Mutation_p.G122D|FIGNL1_uc010kyy.2_Missense_Mutation_p.G122D	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	122					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)				GAATTTTTTGCCAGCTTGCAT	0.393													5	271	---	---	---	---	PASS	T	50514621	T	T	50514621	3	4	149	1	0	0	0	0	1	0	0	0	5892	739	26	3	1663	3	FIGNL1	7	50514621	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	6358833	50514621	108624042	180	53184										
GRB10	2887	broad.mit.edu	37	chr7	50674067	50674067	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aacggggacagcaaggccttCctctgctgagggattcggta	14	10	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:50674067C>T	uc003tpi.2	-	11	1270	c.1239G>A	c.(1237-1239)AGG>AGA	p.R413R	GRB10_uc003tph.3_Silent_p.R355R|GRB10_uc003tpj.2_Silent_p.R367R|GRB10_uc003tpk.2_Silent_p.R413R|GRB10_uc010kzb.2_Silent_p.R355R|GRB10_uc003tpl.2_Silent_p.R407R|GRB10_uc003tpm.2_Silent_p.R355R|GRB10_uc003tpn.2_Silent_p.R355R	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	413					insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					GCAAGGCCTTCCTCTGCTGAG	0.552									Russell-Silver_syndrome				38	131	---	---	---	---	PASS	T	50674067	T	T	50674067	2	4	149	1	0	0	0	0	0	0	0	1	6756	854	30	2		2	GRB10	7	50674067	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	159446	50674067	108464596	181	53185										
EGFR	1956	broad.mit.edu	37	chr7	55231501	55231501	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctgcctcaggccatgaacatCacctgcacaggacgggtaag	11	13	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:55231501C>T	uc003tqk.2	+	14	1953	c.1707C>T	c.(1705-1707)ATC>ATT	p.I569I	EGFR_uc003tqi.2_Silent_p.I569I|EGFR_uc003tqj.2_Silent_p.I569I|EGFR_uc010kzg.1_Silent_p.I524I|EGFR_uc011kco.1_Silent_p.I516I|EGFR_uc011kcp.1_Intron|EGFR_uc011kcq.1_Intron|EGFR_uc003tqn.2_5'Flank	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	569	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	CCATGAACATCACCTGCACAG	0.567		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			42	111	---	---	---	---	PASS	T	55231501	T	T	55231501	2	4	149	1	0	0	0	0	0	0	0	1	4967	816	29	2		2	EGFR	7	55231501	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	4557434	55231501	103907162	182	53186										
CALN1	83698	broad.mit.edu	37	chr7	71571265	71571265	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atcccggtccagaacccgaaAggcctctcggatttctacaa	8	14	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:71571265A>T	uc003twa.3	-	3	660	c.133T>A	c.(133-135)TTT>ATT	p.F45I	CALN1_uc003twb.3_Missense_Mutation_p.F87I|CALN1_uc003twc.3_Missense_Mutation_p.F45I	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2	45	EF-hand 1.|Cytoplasmic (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				AGAACCCGAAAGGCCTCTCGG	0.537													16	45	---	---	---	---	PASS	T	71571265	T	T	71571265	3	4	149	1	0	0	0	0	1	0	0	0	2591	72	3	5	542	5	CALN1	7	71571265	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	16339764	71571265	87567398	183	53187										
ABCB1	5243	broad.mit.edu	37	chr7	87174182	87174182	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttctgtcttgggcttgtgatCcacggacactcctacgagtt	10	11	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:87174182C>G	uc003uiz.1	-	17	2439	c.2021G>C	c.(2020-2022)GGA>GCA	p.G674A	ABCB1_uc011khc.1_Missense_Mutation_p.G610A	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	674	Cytoplasmic (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	GGCTTGTGATCCACGGACACT	0.413													88	201	---	---	---	---	PASS	G	87174182	G	G	87174182	3	3	149	1	0	0	0	0	1	0	0	0	40	855	30	2	1873	2	ABCB1	7	87174182	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	15602917	87174182	71964481	184	53188										
ABCB1	5243	broad.mit.edu	37	chr7	87196138	87196138	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aagctccccaacatcgtgcaCatcaaaccagcctatctcct	4	17	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:87196138C>T	uc003uiz.1	-	7	911	c.493G>A	c.(493-495)GTG>ATG	p.V165M	ABCB1_uc011khc.1_Intron	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	165	ABC transmembrane type-1 1.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	ACATCGTGCACATCAAACCAG	0.383													47	80	---	---	---	---	PASS	T	87196138	T	T	87196138	3	4	149	1	0	0	0	0	1	0	0	0	40	478	17	3	3441	3	ABCB1	7	87196138	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	21956	87196138	71942525	185	53189										
ZNF804B	219578	broad.mit.edu	37	chr7	88963284	88963284	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cattctctaaatctaacattCatctttcagatgtagatttt	3	8	5	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:88963284C>G	uc011khi.1	+	4	1526	c.988C>G	c.(988-990)CAT>GAT	p.H330D		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	330						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			ATCTAACATTCATCTTTCAGA	0.338										HNSCC(36;0.09)			48	86	---	---	---	---	PASS	G	88963284	G	G	88963284	3	3	149	1	0	0	0	0	1	0	0	0	18168	826	29	2	1002	2	ZNF804B	7	88963284	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1767146	88963284	70175379	186	53190										
C7orf63	79846	broad.mit.edu	37	chr7	89901183	89901183	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gatccctctggacagcttttAtttcgttcatcagaaatact	6	10	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:89901183A>T	uc010lep.2	+	8	1022	c.771A>T	c.(769-771)TTA>TTT	p.L257F	C7orf63_uc003ukf.2_Intron|C7orf63_uc003ukg.2_5'UTR|C7orf63_uc011khj.1_Missense_Mutation_p.L239F	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	257							binding			ovary(1)	1						GACAGCTTTTATTTCGTTCAT	0.368													13	47	---	---	---	---	PASS	T	89901183	T	T	89901183	3	4	149	1	0	0	0	0	1	0	0	0	2409	446	16	5	801	5	C7orf63	7	89901183	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	937899	89901183	69237480	187	53191										
CALCR	799	broad.mit.edu	37	chr7	93090230	93090230	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aagtaagaaacatgttcttgTgcagggttaccctttggcag	11	7	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:93090230T>A	uc003umv.1	-	9	914	c.653A>T	c.(652-654)CAC>CTC	p.H218L	CALCR_uc011kia.1_5'UTR|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.H184L|CALCR_uc003umw.2_Missense_Mutation_p.H184L	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	200	Helical; Name=2; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	CATGTTCTTGTGCAGGGTTAC	0.428													57	153	---	---	---	---	PASS	A	93090230	A	A	93090230	3	1	149	1	0	0	0	0	1	0	0	0	2579	1696	59	5	901	5	CALCR	7	93090230	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	3189047	93090230	66048433	188	53192										
CASD1	64921	broad.mit.edu	37	chr7	94176441	94176441	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gcattttggcttactgttgaAactaggctttttgctgttat	9	6	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:94176441A>T	uc003uni.3	+	13	1894	c.1667A>T	c.(1666-1668)AAA>ATA	p.K556I	CASD1_uc003unj.3_Missense_Mutation_p.K556I	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	556	Helical; (Potential).					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)			TTACTGTTGAAACTAGGCTTT	0.229													56	110	---	---	---	---	PASS	T	94176441	T	T	94176441	3	4	149	1	0	0	0	0	1	0	0	0	2664	14	1	5	1717	5	CASD1	7	94176441	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	1086211	94176441	64962222	189	53193										
PEG10	23089	broad.mit.edu	37	chr7	94293676	94293676	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caagccaccaccaggtagatCcaaccgagccggtgggaggt	13	13	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:94293676C>A	uc011kie.1	+	2	1253	c.1036C>A	c.(1036-1038)CCA>ACA	p.P346T		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	270	Necessary for interaction with ALK1.				apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			CCAGGTAGATCCAACCGAGCC	0.612													4	16	---	---	---	---	PASS	A	94293676	A	A	94293676	3	1	149	1	0	0	0	0	1	0	0	0	11719	855	30	2	1042	2	PEG10	7	94293676	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	117235	94293676	64844987	190	53194										
PON1	5444	broad.mit.edu	37	chr7	94931587	94931587	+	Missense_Mutation	SNP	A	T	T													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgggatggcatccaacccaaAggtctcctgtctcaggatcc							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:94931587A>T	uc003uns.2	-	8	936	c.839T>A	c.(838-840)CTT>CAT	p.L280H	PON1_uc011kih.1_Missense_Mutation_p.L280H	NM_000446	NP_000437	P27169	PON1_HUMAN	paraoxonase 1 precursor	280					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	TCCAACCCAAAGGTCTCCTGT	0.378													30	123	---	---	---	---	PASS	T	94931587	T	T	94931587	3	4	149	1	0	0	0	0	1	0	0	0	12248	72	3	5	236	5	PON1	7	94931587	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	637911	94931587	64207076	191	53195	969	2								
PON1	5444	broad.mit.edu	37	chr7	94931588	94931588	+	Missense_Mutation	SNP	G	T	T													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gggatggcatccaacccaaaGgtctcctgtctcaggatcca							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:94931588G>T	uc003uns.2	-	8	935	c.838C>A	c.(838-840)CTT>ATT	p.L280I	PON1_uc011kih.1_Missense_Mutation_p.L280I	NM_000446	NP_000437	P27169	PON1_HUMAN	paraoxonase 1 precursor	280					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	CCAACCCAAAGGTCTCCTGTC	0.378													30	122	---	---	---	---	PASS	T	94931588	T	T	94931588	3	4	149	1	0	0	0	0	1	0	0	0	12248	1000	35	3	237	3	PON1	7	94931588	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1	94931588	64207075	192	53196	969	2								
PTCD1	26024	broad.mit.edu	37	chr7	99022625	99022625	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tctacctggtgctcatccagGagggccagcagcaaggactc	12	13	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:99022625G>C	uc003uqh.2	-	6	1661	c.1530C>G	c.(1528-1530)CTC>CTG	p.L510L	PTCD1_uc011kiw.1_Silent_p.L559L	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	510										ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			GCTCATCCAGGAGGGCCAGCA	0.617													56	110	---	---	---	---	PASS	C	99022625	C	C	99022625	2	2	149	1	0	0	0	0	0	0	0	1	12727	1161	41	2		2	PTCD1	7	99022625	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	4091037	99022625	60116038	193	53197										
RELN	5649	broad.mit.edu	37	chr7	103230067	103230067	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atgcaagagaccttggaataAcaatggtgattcttgtccat	9	7	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:103230067A>T	uc003vca.2	-	28	4281	c.4121T>A	c.(4120-4122)GTT>GAT	p.V1374D	RELN_uc010liz.2_Missense_Mutation_p.V1374D	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1374					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCTTGGAATAACAATGGTGAT	0.313													100	273	---	---	---	---	PASS	T	103230067	T	T	103230067	3	4	149	1	0	0	0	0	1	0	0	0	13220	43	2	5	6413	5	RELN	7	103230067	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	4207442	103230067	55908596	194	53198										
RINT1	60561	broad.mit.edu	37	chr7	105207724	105207724	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agatgttgagattctacttaAtttgaggacaaattggccta	9	5	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:105207724A>T	uc003vda.1	+	15	2576	c.2345A>T	c.(2344-2346)AAT>ATT	p.N782I	RINT1_uc010ljj.1_Missense_Mutation_p.N357I|EFCAB10_uc003vdb.2_Intron|EFCAB10_uc003vdc.3_3'UTR|uc003vdd.1_5'Flank	NM_021930	NP_068749	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1	782	RINT1/TIP20.				cell cycle|G2/M transition DNA damage checkpoint|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane	protein binding			ovary(3)|central_nervous_system(1)	4						ATTCTACTTAATTTGAGGACA	0.378													47	90	---	---	---	---	PASS	T	105207724	T	T	105207724	3	4	149	1	0	0	0	0	1	0	0	0	13376	101	4	5	2403	5	RINT1	7	105207724	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	1977657	105207724	53930939	195	53199										
GPR22	2845	broad.mit.edu	37	chr7	107115495	107115495	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctctgctggacaccaatttcTgttttaaataccaccatttt	4	11	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:107115495T>A	uc003vef.2	+	3	2336	c.990T>A	c.(988-990)TCT>TCA	p.S330S	COG5_uc003vec.2_Intron|COG5_uc003ved.2_Intron|COG5_uc003vee.2_Intron	NM_005295	NP_005286	Q99680	GPR22_HUMAN	G protein-coupled receptor 22	330	Helical; Name=6; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(2)	2						CACCAATTTCTGTTTTAAATA	0.353													63	134	---	---	---	---	PASS	A	107115495	A	A	107115495	2	1	149	1	0	0	0	0	0	0	0	1	6682	1567	55	5		5	GPR22	7	107115495	Silent	SNP	T	TCGA-66-2763-01A-01D-1522-08	1907771	107115495	52023168	196	53200										
SPAM1	6677	broad.mit.edu	37	chr7	123594310	123594310	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggattgttacaaccatcactAtaagaaacccggttacaatg	7	9	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:123594310A>G	uc003vld.2	+	4	1088	c.686A>G	c.(685-687)TAT>TGT	p.Y229C	SPAM1_uc003vle.2_Missense_Mutation_p.Y229C|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.Y229C|SPAM1_uc010lku.2_Missense_Mutation_p.Y229C	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	229					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	AACCATCACTATAAGAAACCC	0.388													103	184	---	---	---	---	PASS	G	123594310	G	G	123594310	3	3	149	1	0	0	0	0	1	0	0	0	14986	449	16	5	688	5	SPAM1	7	123594310	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	16478815	123594310	35544353	197	53201										
MKLN1	4289	broad.mit.edu	37	chr7	131122659	131122659	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gaacagcaaatctctgaaaaGtgacttctatcgttatgaca	7	8	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:131122659G>C	uc011kpm.1	+	10	1140	c.1076G>C	c.(1075-1077)AGT>ACT	p.S359T	MKLN1_uc011kpl.1_Missense_Mutation_p.S336T|MKLN1_uc010lmh.2_Missense_Mutation_p.S359T|MKLN1_uc003vqs.2_Missense_Mutation_p.S152T	NM_013255	NP_037387	Q9UL63	MKLN1_HUMAN	muskelin 1, intracellular mediator containing	359	Kelch 2.				signal transduction	cytoplasm	protein binding			breast(1)	1	Melanoma(18;0.162)					TCTCTGAAAAGTGACTTCTAT	0.413													5	427	---	---	---	---	PASS	C	131122659	C	C	131122659	3	2	149	1	0	0	0	0	1	0	0	0	9603	1029	36	4	1147	4	MKLN1	7	131122659	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	7528349	131122659	28016004	198	53202										
KIAA1549	57670	broad.mit.edu	37	chr7	138529070	138529070	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agccacatatacctgtggtaCccccgacaggccgaggccgg	12	15	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:138529070C>A	uc011kql.1	-	18	5493	c.5444G>T	c.(5443-5445)GGT>GTT	p.G1815V	KIAA1549_uc011kqi.1_Missense_Mutation_p.G599V|KIAA1549_uc003vuk.3_Missense_Mutation_p.G1765V|KIAA1549_uc011kqj.1_Missense_Mutation_p.G1815V|KIAA1549_uc011kqk.1_Missense_Mutation_p.G599V	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1815						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						ACCTGTGGTACCCCCGACAGG	0.557			O	BRAF	pilocytic astrocytoma								7	42	---	---	---	---	PASS	A	138529070	A	A	138529070	3	1	149	1	0	0	0	0	1	0	0	0	8244	507	18	3	420	3	KIAA1549	7	138529070	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	7406411	138529070	20609593	199	53203										
DENND2A	27147	broad.mit.edu	37	chr7	140301842	140301842	+	Frame_Shift_Del	DEL	C	-	-													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gccccggctctgggtcctgtCccccgacgttcactgctcct							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:140301842delC	uc010lnj.2	-	1	501	c.356delG	c.(355-357)GGAfs	p.G119fs	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Frame_Shift_Del_p.G119fs|DENND2A_uc003vvw.2_Frame_Shift_Del_p.G119fs|DENND2A_uc003vvx.2_Frame_Shift_Del_p.G119fs	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	119										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					TGGGTCCTGTCCCCCGACGTT	0.577													314	135	---	---	---	---		-	140301842	-	-	140301842	7	5	149	1	0	1	0	1	0	0	0	0	4429	855	30	0	2745	0	DENND2A	7	140301842	Frame_Shift_Del	DEL	C	TCGA-66-2763-01A-01D-1522-08	1772772	140301842	18836821	200	53204										
CNTNAP2	26047	broad.mit.edu	37	chr7	146536991	146536991	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cctatcatcaagatgggaatAtctgggtaagtcattggcag	11	7	4	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:146536991A>G	uc003weu.1	+	3	913	c.397A>G	c.(397-399)ATC>GTC	p.I133V		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	133	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			AGATGGGAATATCTGGGTAAG	0.403										HNSCC(39;0.1)			13	41	---	---	---	---	PASS	G	146536991	G	G	146536991	3	3	149	1	0	0	0	0	1	0	0	0	3647	449	16	5	407	5	CNTNAP2	7	146536991	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	6235149	146536991	12601672	201	53205										
CNTNAP2	26047	broad.mit.edu	37	chr7	147092866	147092866	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cattgacatgtgtgcgatcaTagacaggtaaatgatctttt	9	6	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:147092866T>C	uc003weu.1	+	10	2180	c.1664T>C	c.(1663-1665)ATA>ACA	p.I555T		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	555	EGF-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TGTGCGATCATAGACAGGTAA	0.413										HNSCC(39;0.1)			65	156	---	---	---	---	PASS	C	147092866	C	C	147092866	3	2	149	1	0	0	0	0	1	0	0	0	3647	1406	49	5	1702	5	CNTNAP2	7	147092866	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	555875	147092866	12045797	202	53206										
GIMAP1	170575	broad.mit.edu	37	chr7	150418003	150418003	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggaggccgttgcggaggtcgGgcctgactgacagcgcaggt	19	10	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr7:150418003G>T	uc003whq.2	+	3	998	c.911G>T	c.(910-912)GGG>GTG	p.G304V	GIMAP1_uc003whp.2_Missense_Mutation_p.G312V	NM_130759	NP_570115	Q8WWP7	GIMA1_HUMAN	GTPase, IMAP family member 1	304	Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCGGAGGTCGGGCCTGACTGA	0.617													9	24	---	---	---	---	PASS	T	150418003	T	T	150418003	3	4	149	1	0	0	0	0	1	0	0	0	6379	1232	43	3	917	3	GIMAP1	7	150418003	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3325137	150418003	8720660	203	53207										
PIWIL2	55124	broad.mit.edu	37	chr8	22138668	22138668	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtctccatgttccgaggcctGggcattgaaacagtttctaa	10	10	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:22138668G>A	uc003xbn.2	+	3	382	c.234G>A	c.(232-234)CTG>CTA	p.L78L	PIWIL2_uc011kzf.1_Silent_p.L78L|PIWIL2_uc010ltv.2_Silent_p.L78L	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2	78					DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		TCCGAGGCCTGGGCATTGAAA	0.423													66	72	---	---	---	---	PASS	A	22138668	A	A	22138668	2	1	149	1	0	0	0	0	0	0	0	1	11958	1335	47	3		3	PIWIL2	8	22138668	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08		22138668	124225354	204	53208										
EBF2	64641	broad.mit.edu	37	chr8	25897593	25897593	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcggcacatttccggattctTattctgtccctcgtaagcga	8	12	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:25897593T>A	uc003xes.1	-	5	450	c.433A>T	c.(433-435)AAG>TAG	p.K145*	PPP2R2A_uc003xek.2_Intron|EBF2_uc003xet.1_Nonsense_Mutation_p.K145*	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	145					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		TCCGGATTCTTATTCTGTCCC	0.557													7	168	---	---	---	---	PASS	A	25897593	A	A	25897593	4	1	149	1	0	0	0	0	0	1	0	0	4881	1763	61	5	1342	5	EBF2	8	25897593	Nonsense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	3758925	25897593	120466429	205	53209										
ADRA1A	148	broad.mit.edu	37	chr8	26722124	26722124	+	Silent	SNP	G	T	T													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acgccgatgtagcggtcgatGgagatgatgcagaggcccat							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:26722124G>T	uc003xfh.1	-	1	799	c.363C>A	c.(361-363)TCC>TCA	p.S121S	ADRA1A_uc003xfc.1_Silent_p.S121S|ADRA1A_uc010lul.1_Silent_p.S121S|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Silent_p.S121S|ADRA1A_uc010lum.1_Silent_p.S121S|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Silent_p.S121S	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	121	Helical; Name=3; (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	AGCGGTCGATGGAGATGATGC	0.627													24	45	---	---	---	---	PASS	T	26722124	T	T	26722124	2	4	149	1	0	0	0	0	0	0	0	1	334	1335	47	3		3	ADRA1A	8	26722124	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	824531	26722124	119641898	206	53210	970	2								
ADRA1A	148	broad.mit.edu	37	chr8	26722125	26722125	+	Missense_Mutation	SNP	G	T	T													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cgccgatgtagcggtcgatgGagatgatgcagaggcccatg							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:26722125G>T	uc003xfh.1	-	1	798	c.362C>A	c.(361-363)TCC>TAC	p.S121Y	ADRA1A_uc003xfc.1_Missense_Mutation_p.S121Y|ADRA1A_uc010lul.1_Missense_Mutation_p.S121Y|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.S121Y|ADRA1A_uc010lum.1_Missense_Mutation_p.S121Y|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.S121Y	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	121	Helical; Name=3; (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	GCGGTCGATGGAGATGATGCA	0.627													24	46	---	---	---	---	PASS	T	26722125	T	T	26722125	3	4	149	1	0	0	0	0	1	0	0	0	334	1174	41	2	1337	2	ADRA1A	8	26722125	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1	26722125	119641897	207	53211	970	2								
UNC5D	137970	broad.mit.edu	37	chr8	35583824	35583824	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gacatcaaagtgaaagtccaGagctcgttcatggtttccct	9	10	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:35583824G>T	uc003xjr.1	+	10	1786	c.1458G>T	c.(1456-1458)CAG>CAT	p.Q486H	UNC5D_uc003xjs.1_Missense_Mutation_p.Q481H|UNC5D_uc003xju.1_Missense_Mutation_p.Q62H|UNC5D_uc003xjt.1_Missense_Mutation_p.Q244H	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	486	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		TGAAAGTCCAGAGCTCGTTCA	0.502													34	331	---	---	---	---	PASS	T	35583824	T	T	35583824	3	4	149	1	0	0	0	0	1	0	0	0	16992	933	33	2	1496	2	UNC5D	8	35583824	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	8861699	35583824	110780198	208	53212										
PXDNL	137902	broad.mit.edu	37	chr8	52320773	52320773	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctttgaatgatggtggcagcCgaatccacggccgcagaata	12	10	0	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:52320773C>T	uc003xqu.3	-	17	3512	c.3411G>A	c.(3409-3411)TCG>TCA	p.S1137S	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1137					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TGGTGGCAGCCGAATCCACGG	0.522													23	169	---	---	---	---	PASS	T	52320773	T	T	52320773	2	4	149	1	0	0	0	0	0	0	0	1	12848	639	23	1		1	PXDNL	8	52320773	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	16736949	52320773	94043249	209	53213										
PXDNL	137902	broad.mit.edu	37	chr8	52321320	52321320	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggcccggtggtccccggccAggaaacaggggctctcctgc	15	15	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:52321320A>T	uc003xqu.3	-	17	2965	c.2864T>A	c.(2863-2865)CTG>CAG	p.L955Q	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	955					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GTCCCCGGCCAGGAAACAGGG	0.652													11	22	---	---	---	---	PASS	T	52321320	T	T	52321320	3	4	149	1	0	0	0	0	1	0	0	0	12848	188	7	5	1555	5	PXDNL	8	52321320	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	547	52321320	94042702	210	53214										
PCMTD1	115294	broad.mit.edu	37	chr8	52773687	52773687	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aattaagtcatcattatcttCcccagcactcacagctcctc	3	15	4	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:52773687C>A	uc003xqx.3	-	2	366	c.25G>T	c.(25-27)GAA>TAA	p.E9*	PCMTD1_uc003xqw.3_Nonsense_Mutation_p.E9*|PCMTD1_uc011ldn.1_Intron|PCMTD1_uc010lya.2_Intron|PCMTD1_uc011ldo.1_Nonsense_Mutation_p.E9*	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	9						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				TCATTATCTTCCCCAGCACTC	0.343													114	93	---	---	---	---	PASS	A	52773687	A	A	52773687	4	1	149	1	0	0	0	0	0	1	0	0	11586	864	30	2	1068	2	PCMTD1	8	52773687	Nonsense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	452367	52773687	93590335	211	53215										
RP1	6101	broad.mit.edu	37	chr8	55541589	55541589	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagggacaattattgtagggGtgacattgtagaacctggta	14	4	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:55541589G>T	uc003xsd.1	+	4	5295	c.5147G>T	c.(5146-5148)GGT>GTT	p.G1716V	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1716					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TATTGTAGGGGTGACATTGTA	0.403													65	278	---	---	---	---	PASS	T	55541589	T	T	55541589	3	4	149	1	0	0	0	0	1	0	0	0	13532	1261	44	3	5157	3	RP1	8	55541589	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	2767902	55541589	90822433	212	53216										
TTPA	7274	broad.mit.edu	37	chr8	63976811	63976811	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atggtttgatcatggaaaagAcagcatggaaaattactggt	11	4	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:63976811A>G	uc003xux.1	-	4	649	c.617T>C	c.(616-618)GTC>GCC	p.V206A		NM_000370	NP_000361	P49638	TTPA_HUMAN	tocopherol (alpha) transfer protein	206	CRAL-TRIO.				lipid metabolic process		transporter activity|vitamin E binding				0	Breast(64;0.0716)	all_cancers(86;0.145)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.123)			Vitamin E(DB00163)	CATGGAAAAGACAGCATGGAA	0.323													32	154	---	---	---	---	PASS	G	63976811	G	G	63976811	3	3	149	1	0	0	0	0	1	0	0	0	16733	275	10	5	227	5	TTPA	8	63976811	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	8435222	63976811	82387211	213	53217										
C8orf44	56260	broad.mit.edu	37	chr8	67590143	67590143	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagttcgaaaccagcctggcCaacatggcgaaaccccatct	9	14	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:67590143C>T	uc003xwo.1	+	2	353	c.200C>T	c.(199-201)CCA>CTA	p.P67L	SGK3_uc003xwp.2_Intron|C8orf44_uc003xwq.1_Missense_Mutation_p.P67L	NM_019607	NP_062553	Q96CB5	CH044_HUMAN	hypothetical protein LOC56260	67											0	Breast(64;0.186)		Epithelial(68;0.000959)|OV - Ovarian serous cystadenocarcinoma(28;0.00318)|all cancers(69;0.00363)|BRCA - Breast invasive adenocarcinoma(89;0.149)			ccagcctggccaacatggcga	0.01													6	18	---	---	---	---	PASS	T	67590143	T	T	67590143	3	4	149	1	0	0	0	0	1	0	0	0	2429	594	21	3	202	3	C8orf44	8	67590143	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	3613332	67590143	78773879	214	53218										
PREX2	80243	broad.mit.edu	37	chr8	68939533	68939533	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agtaacaccaatacaaagaaTatgcaagtaccctcttattt	4	9	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:68939533T>C	uc003xxv.1	+	5	545	c.518T>C	c.(517-519)ATA>ACA	p.I173T	PREX2_uc003xxu.1_Missense_Mutation_p.I173T|PREX2_uc011lez.1_Missense_Mutation_p.I108T	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	173	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ATACAAAGAATATGCAAGTAC	0.338													45	141	---	---	---	---	PASS	C	68939533	C	C	68939533	3	2	149	1	0	0	0	0	1	0	0	0	12477	1406	49	5	536	5	PREX2	8	68939533	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	1349390	68939533	77424489	215	53219										
CRISPLD1	83690	broad.mit.edu	37	chr8	75898239	75898239	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cattatgaagtgtaccgcgcGggagtggctcagagtaacca	13	9	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:75898239G>A	uc003yan.2	+	2	392	c.17G>A	c.(16-18)CGG>CAG	p.R6Q		NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	6						extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			TGTACCGCGCGGGAGTGGCTC	0.463													113	365	---	---	---	---	PASS	A	75898239	A	A	75898239	3	1	149	1	0	0	0	0	1	0	0	0	3882	1116	39	1	19	1	CRISPLD1	8	75898239	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	6958706	75898239	70465783	216	53220										
ZFHX4	79776	broad.mit.edu	37	chr8	77766792	77766792	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atatttgaccccaacaatccGctgatgactggacaactgct	7	12	0	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:77766792G>A	uc003yav.2	+	10	7887	c.7500G>A	c.(7498-7500)CCG>CCA	p.P2500P	ZFHX4_uc003yau.1_Silent_p.P2545P|ZFHX4_uc003yaw.1_Silent_p.P2500P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2500						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCAACAATCCGCTGATGACTG	0.537										HNSCC(33;0.089)			12	248	---	---	---	---	PASS	A	77766792	A	A	77766792	2	1	149	1	0	0	0	0	0	0	0	1	17632	1074	38	1		1	ZFHX4	8	77766792	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	1868553	77766792	68597230	217	53221										
RUNX1T1	862	broad.mit.edu	37	chr8	92983053	92983053	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cagctccgtcatcgcctggcGcttcacctcattgacggcct	9	17	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:92983053G>A	uc003yfd.2	-	10	1456	c.1372C>T	c.(1372-1374)CGC>TGC	p.R458C	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R431C|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R421C|RUNX1T1_uc010mao.2_Missense_Mutation_p.R431C|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R469C|RUNX1T1_uc010man.1_Missense_Mutation_p.R83C|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R421C	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	458					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			ATCGCCTGGCGCTTCACCTCA	0.567													28	64	---	---	---	---	PASS	A	92983053	A	A	92983053	3	1	149	1	0	0	0	0	1	0	0	0	13747	1087	38	1	450	1	RUNX1T1	8	92983053	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	15216261	92983053	53380969	218	53222										
INTS8	55656	broad.mit.edu	37	chr8	95866063	95866063	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cttctgtctatagtggtgttAtcctgggaattaaagacaat	9	6	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:95866063A>G	uc003yhb.2	+	14	1798	c.1672A>G	c.(1672-1674)ATC>GTC	p.I558V	INTS8_uc003yha.1_Missense_Mutation_p.I558V|INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Missense_Mutation_p.I385V	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	558					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					TAGTGGTGTTATCCTGGGAAT	0.333													163	221	---	---	---	---	PASS	G	95866063	G	G	95866063	3	3	149	1	0	0	0	0	1	0	0	0	7784	449	16	5	1726	5	INTS8	8	95866063	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	2883010	95866063	50497959	219	53223										
POP1	10940	broad.mit.edu	37	chr8	99149122	99149122	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagatgaacagattccggctGattgggccactttcccactc	10	12	0	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:99149122G>C	uc003yij.3	+	9	1402	c.1302G>C	c.(1300-1302)CTG>CTC	p.L434L	POP1_uc011lgv.1_Silent_p.L434L|POP1_uc003yik.2_Silent_p.L434L	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	434					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			GATTCCGGCTGATTGGGCCAC	0.393													106	345	---	---	---	---	PASS	C	99149122	C	C	99149122	2	2	149	1	0	0	0	0	0	0	0	1	12251	1277	45	2		2	POP1	8	99149122	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	3283059	99149122	47214900	220	53224										
TM7SF4	81501	broad.mit.edu	37	chr8	105361702	105361702	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttatccatctctgcatctggGtgctgtttgcagctgtagat	10	9	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:105361702G>T	uc003ylx.1	+	2	971	c.922G>T	c.(922-924)GTG>TTG	p.V308L		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	308	Helical; (Potential).				osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CTGCATCTGGGTGCTGTTTGC	0.468													139	558	---	---	---	---	PASS	T	105361702	T	T	105361702	3	4	149	1	0	0	0	0	1	0	0	0	15973	1261	44	3	924	3	TM7SF4	8	105361702	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	6212580	105361702	41002320	221	53225										
PKHD1L1	93035	broad.mit.edu	37	chr8	110451216	110451216	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggaggaaaaacctgccagaTtcttcactggaacttcacag	9	10	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:110451216T>A	uc003yne.2	+	32	3955	c.3851T>A	c.(3850-3852)ATT>AAT	p.I1284N		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1284	Extracellular (Potential).|IPT/TIG 6.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ACCTGCCAGATTCTTCACTGG	0.378										HNSCC(38;0.096)			7	253	---	---	---	---	PASS	A	110451216	A	A	110451216	3	1	149	1	0	0	0	0	1	0	0	0	11972	1493	52	5	3977	5	PKHD1L1	8	110451216	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	5089514	110451216	35912806	222	53226										
CSMD3	114788	broad.mit.edu	37	chr8	113256797	113256797	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agtttctggctgtttacagcTgtgggctatattaagaaaag	11	5	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:113256797T>A	uc003ynu.2	-	65	10387	c.10228A>T	c.(10228-10230)AGC>TGC	p.S3410C	CSMD3_uc003yns.2_Missense_Mutation_p.S2612C|CSMD3_uc003ynt.2_Missense_Mutation_p.S3370C|CSMD3_uc011lhx.1_Missense_Mutation_p.S3241C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3410	Extracellular (Potential).|Sushi 28.					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						TGTTTACAGCTGTGGGCTATA	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			74	95	---	---	---	---	PASS	A	113256797	A	A	113256797	3	1	149	1	0	0	0	0	1	0	0	0	3946	1580	55	5	923	5	CSMD3	8	113256797	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	2805581	113256797	33107225	223	53227										
CSMD3	114788	broad.mit.edu	37	chr8	113304920	113304920	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cttccataaattggactaccAgggtgaccacagctaacagc	8	12	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:113304920A>T	uc003ynu.2	-	55	8793	c.8634T>A	c.(8632-8634)CCT>CCA	p.P2878P	CSMD3_uc003yns.2_Silent_p.P2080P|CSMD3_uc003ynt.2_Silent_p.P2838P|CSMD3_uc011lhx.1_Silent_p.P2709P	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2878	Extracellular (Potential).|Sushi 19.					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						TTGGACTACCAGGGTGACCAC	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			42	145	---	---	---	---	PASS	T	113304920	T	T	113304920	2	4	149	1	0	0	0	0	0	0	0	1	3946	175	7	5		5	CSMD3	8	113304920	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08	48123	113304920	33059102	224	53228										
CPSF1	29894	broad.mit.edu	37	chr8	145634410	145634410	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccgacctacctcggcgtcgcGgttgaggcggtacacgtaga	14	13	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr8:145634410G>C	uc003zcj.2	-	2	208	c.133C>G	c.(133-135)CGC>GGC	p.R45G	CPSF1_uc011lle.1_Missense_Mutation_p.R45G|CPSF1_uc011llf.1_Missense_Mutation_p.R45G|CPSF1_uc003zcl.1_RNA	NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	45					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	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;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			TCGGCGTCGCGGTTGAGGCGG	0.458													147	90	---	---	---	---	PASS	C	145634410	C	C	145634410	3	2	149	1	0	0	0	0	1	0	0	0	3824	1116	39	4	4346	4	CPSF1	8	145634410	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	32329490	145634410	729612	225	53229										
FREM1	158326	broad.mit.edu	37	chr9	14801698	14801698	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtgaacaggtgcatgtttctGgtgagggttggctggctgct	17	6	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr9:14801698G>A	uc003zlm.2	-	20	4236	c.3646C>T	c.(3646-3648)CAG>TAG	p.Q1216*	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1216	CSPG 8.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GCATGTTTCTGGTGAGGGTTG	0.453													26	70	---	---	---	---	PASS	A	14801698	A	A	14801698	4	1	149	1	0	0	0	0	0	1	0	0	6044	1357	47	3	3015	3	FREM1	9	14801698	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08		14801698	126411733	226	53230										
CNTLN	54875	broad.mit.edu	37	chr9	17416046	17416046	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cgagaacggattatatccttGcaacaacaaaacagtgtact	7	9	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr9:17416046G>T	uc003zmz.2	+	18	2996	c.2970G>T	c.(2968-2970)TTG>TTT	p.L990F	CNTLN_uc003zmy.2_Missense_Mutation_p.L991F|CNTLN_uc010mio.2_Missense_Mutation_p.L670F	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	991	Potential.					centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		TTATATCCTTGCAACAACAAA	0.313													62	121	---	---	---	---	PASS	T	17416046	T	T	17416046	3	4	149	1	0	0	0	0	1	0	0	0	3639	1310	46	3	3073	3	CNTLN	9	17416046	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	2614348	17416046	123797385	227	53231										
KLHL9	55958	broad.mit.edu	37	chr9	21333175	21333175	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtcatatttctggacaatttCtaccatacaacgattattcc	4	10	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr9:21333175C>G	uc003zoy.2	-	1	2255	c.1684G>C	c.(1684-1686)GAA>CAA	p.E562Q	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	562	Kelch 6.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		TGGACAATTTCTACCATACAA	0.398													66	182	---	---	---	---	PASS	G	21333175	G	G	21333175	3	3	149	1	0	0	0	0	1	0	0	0	8396	922	32	2	173	2	KLHL9	9	21333175	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	3917129	21333175	119880256	228	53232										
FLJ46321	389763	broad.mit.edu	37	chr9	84609748	84609748	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atgtcagagcagagcctgtcCagggctgtccctgcaactac	11	13	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr9:84609748C>G	uc004amn.2	+	4	4410	c.4363C>G	c.(4363-4365)CAG>GAG	p.Q1455E		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1455						integral to membrane					0						AGAGCCTGTCCAGGGCTGTCC	0.532													28	38	---	---	---	---	PASS	G	84609748	G	G	84609748	3	3	149	1	0	0	0	0	1	0	0	0	5932	595	21	4	4377	4	FLJ46321	9	84609748	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	63276573	84609748	56603683	229	53233										
ROR2	4920	broad.mit.edu	37	chr9	94493272	94493272	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggccctccatctggcctccgGggttccggcagtaggcgtgc	15	15	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr9:94493272G>T	uc004arj.1	-	7	1302	c.1103C>A	c.(1102-1104)CCC>CAC	p.P368H	ROR2_uc004ari.1_Missense_Mutation_p.P228H|ROR2_uc004ark.2_Missense_Mutation_p.P368H	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	368	Extracellular (Potential).|Kringle.				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						CTGGCCTCCGGGGTTCCGGCA	0.602													34	40	---	---	---	---	PASS	T	94493272	T	T	94493272	3	4	149	1	0	0	0	0	1	0	0	0	13527	1232	43	3	1740	3	ROR2	9	94493272	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	9883524	94493272	46720159	230	53234										
NOL8	55035	broad.mit.edu	37	chr9	95077001	95077001	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aatatagtttgggccattcgCcttctttgcatgttggcatg	10	8	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr9:95077001C>A	uc004arv.2	-	7	2243	c.1906G>T	c.(1906-1908)GCG>TCG	p.A636S	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Intron|NOL8_uc011ltw.1_Missense_Mutation_p.A568S	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	636					DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						GGGCCATTCGCCTTCTTTGCA	0.448													29	27	---	---	---	---	PASS	A	95077001	A	A	95077001	3	1	149	1	0	0	0	0	1	0	0	0	10527	739	26	3	1641	3	NOL8	9	95077001	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	583729	95077001	46136430	231	53235										
ABCA1	19	broad.mit.edu	37	chr9	107556765	107556765	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aagatcaagaacacggacttCaggatatcattgatattatt	7	6	3	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr9:107556765C>A	uc004bcl.2	-	40	5722	c.5409G>T	c.(5407-5409)CTG>CTT	p.L1803L		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1803	Helical; (Potential).				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ACACGGACTTCAGGATATCAT	0.443													43	23	---	---	---	---	PASS	A	107556765	A	A	107556765	2	1	149	1	0	0	0	0	0	0	0	1	28	813	29	2		2	ABCA1	9	107556765	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	12479764	107556765	33656666	232	53236										
LAMC3	10319	broad.mit.edu	37	chr9	133901778	133901778	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gacggcccatgggagccctaCcagttctacagcgcctcctg	11	16	1	0	rs140728983	byFrequency	TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr9:133901778C>A	uc004caa.1	+	2	578	c.480C>A	c.(478-480)TAC>TAA	p.Y160*		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	160	Laminin N-terminal.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		GGGAGCCCTACCAGTTCTACA	0.642													30	18	---	---	---	---	PASS	A	133901778	A	A	133901778	4	1	149	1	0	0	0	0	0	1	0	0	8616	518	18	3	486	3	LAMC3	9	133901778	Nonsense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	26345013	133901778	7311653	233	53237										
TRAF2	7186	broad.mit.edu	37	chr9	139802569	139802569	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atgctgaccgaatgtcccgcGtgcaaaggcctggtccgcct	12	14	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr9:139802569G>T	uc010nbu.2	+	6	587	c.414G>T	c.(412-414)GCG>GCT	p.A138A	TRAF2_uc010nbv.1_Silent_p.A190A|TRAF2_uc004cjv.2_Silent_p.A138A|TRAF2_uc011mek.1_Silent_p.A127A|TRAF2_uc010nbw.2_Silent_p.A138A	NM_021138	NP_066961	Q12933	TRAF2_HUMAN	TNF receptor-associated factor 2	138	TRAF-type 1.				activation of caspase activity|activation of NF-kappaB-inducing kinase activity|activation of pro-apoptotic gene products|cellular protein complex assembly|induction of apoptosis by extracellular signals|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|protein autoubiquitination|protein homotrimerization|protein K63-linked ubiquitination|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane	CD40 receptor binding|enzyme binding|protein binding|signal transducer activity|sphingolipid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.229)	OV - Ovarian serous cystadenocarcinoma(145;4.48e-06)|Epithelial(140;9.55e-06)		AATGTCCCGCGTGCAAAGGCC	0.642													29	45	---	---	---	---	PASS	T	139802569	T	T	139802569	2	4	149	1	0	0	0	0	0	0	0	1	16435	1132	40	1		1	TRAF2	9	139802569	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	5900791	139802569	1410862	234	53238										
GDI2	2665	broad.mit.edu	37	chr10	5836977	5836977	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ataaagcagcatcttaaccaGctgacctagaaaagtcacat	6	10	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:5836977G>A	uc001iil.3	-	4	550	c.259C>T	c.(259-261)CTG>TTG	p.L87L	GDI2_uc001iim.3_Intron|GDI2_uc009xid.2_Silent_p.L91L	NM_001494	NP_001485	P50395	GDIB_HUMAN	GDP dissociation inhibitor 2 isoform 1	87					protein transport|small GTPase mediated signal transduction	cell surface|cytosol|membrane	protein binding|Rab GDP-dissociation inhibitor activity				0						ATCTTAACCAGCTGACCTAGA	0.323													61	119	---	---	---	---	PASS	A	5836977	A	A	5836977	2	1	149	1	0	0	0	0	0	0	0	1	6321	962	34	3		3	GDI2	10	5836977	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08		5836977	129697770	235	53239										
SFMBT2	57713	broad.mit.edu	37	chr10	7214075	7214075	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctcggagccggtctcctcacTggcggtgtcatcgtccatgg	13	14	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:7214075T>C	uc009xio.1	-	19	2288	c.2197A>G	c.(2197-2199)AGT>GGT	p.S733G	SFMBT2_uc001ijn.1_Missense_Mutation_p.S733G|SFMBT2_uc010qay.1_Missense_Mutation_p.S568G	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	733					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GTCTCCTCACTGGCGGTGTCA	0.687													7	17	---	---	---	---	PASS	C	7214075	C	C	7214075	3	2	149	1	0	0	0	0	1	0	0	0	14158	1580	55	5	499	5	SFMBT2	10	7214075	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	1377098	7214075	128320672	236	53240										
NEBL	10529	broad.mit.edu	37	chr10	21097437	21097437	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtaagcagtgaatgtttgatAcctccttcatcagacggtct	9	9	3	3	rs139887121		TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:21097437A>G	uc001iqi.2	-	26	3158	c.2761_splice	c.e26+1	p.A921_splice	NEBL_uc001iqj.2_Splice_Site|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform						regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						AATGTTTGATACCTCCTTCAT	0.398													42	125	---	---	---	---	PASS	G	21097437	G	G	21097437	5	3	149	1	0	0	0	0	0	0	1	0	10303	405	14	5	293	5	NEBL	10	21097437	Splice_Site	SNP	A	TCGA-66-2763-01A-01D-1522-08	13883362	21097437	114437310	237	53241										
KIAA1217	56243	broad.mit.edu	37	chr10	24813352	24813352	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cagaagtcctgaagagtcagGaggaggcagcccacacctcc	12	13	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:24813352G>A	uc001iru.3	+	13	2960	c.2557G>A	c.(2557-2559)GAG>AAG	p.E853K	KIAA1217_uc001irs.2_Missense_Mutation_p.E773K|KIAA1217_uc001irt.3_Missense_Mutation_p.E818K|KIAA1217_uc010qcy.1_Missense_Mutation_p.E818K|KIAA1217_uc010qcz.1_Missense_Mutation_p.E818K|KIAA1217_uc001irv.1_Missense_Mutation_p.E668K|KIAA1217_uc010qda.1_Intron|KIAA1217_uc001irw.2_Missense_Mutation_p.E536K|KIAA1217_uc001irz.2_Missense_Mutation_p.E536K|KIAA1217_uc001irx.2_Missense_Mutation_p.E536K|KIAA1217_uc001iry.2_Missense_Mutation_p.E536K	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	853					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						GAAGAGTCAGGAGGAGGCAGC	0.612													30	57	---	---	---	---	PASS	A	24813352	A	A	24813352	3	1	149	1	0	0	0	0	1	0	0	0	8216	1175	41	2	2607	2	KIAA1217	10	24813352	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3715915	24813352	110721395	238	53242										
MKX	283078	broad.mit.edu	37	chr10	28032255	28032255	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggactgtccaggacaccgctGtagggccggccaccccgctc	13	17	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:28032255G>C	uc001ity.3	-	2	315	c.90C>G	c.(88-90)TAC>TAG	p.Y30*	MKX_uc001itx.3_Nonsense_Mutation_p.Y30*	NM_173576	NP_775847	Q8IYA7	MKX_HUMAN	mohawk homeobox	30					muscle organ development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGACACCGCTGTAGGGCCGGC	0.682													3	12	---	---	---	---	PASS	C	28032255	C	C	28032255	4	2	149	1	0	0	0	0	0	1	0	0	9610	1372	48	4	992	4	MKX	10	28032255	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3218903	28032255	107502492	239	53243										
RBP3	5949	broad.mit.edu	37	chr10	48388774	48388774	+	Missense_Mutation	SNP	A	C	C													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cagctcgccagggctgtggaAcactagcaagcggtggtccc							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:48388774A>C	uc001jez.2	-	1	2218	c.2104T>G	c.(2104-2106)TTC>GTC	p.F702V		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	702	4 X approximate tandem repeats.|3.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	GGGCTGTGGAACACTAGCAAG	0.632													60	75	---	---	---	---	PASS	C	48388774	C	C	48388774	3	2	149	1	0	0	0	0	1	0	0	0	13157	43	2	5	1655	5	RBP3	10	48388774	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	20356519	48388774	87145973	240	53244	971	2								
RBP3	5949	broad.mit.edu	37	chr10	48388777	48388777	+	Missense_Mutation	SNP	C	T	T													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctcgccagggctgtggaacaCtagcaagcggtggtccccag							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:48388777C>T	uc001jez.2	-	1	2215	c.2101G>A	c.(2101-2103)GTG>ATG	p.V701M		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	701	4 X approximate tandem repeats.|3.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	CTGTGGAACACTAGCAAGCGG	0.637													58	81	---	---	---	---	PASS	T	48388777	T	T	48388777	3	4	149	1	0	0	0	0	1	0	0	0	13157	565	20	3	1658	3	RBP3	10	48388777	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	3	48388777	87145970	241	53245	971	2								
BICC1	80114	broad.mit.edu	37	chr10	60549108	60549108	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cctaattccccctctattcaGcatatatcacaaacgtacaa	2	14	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:60549108G>T	uc001jki.1	+	7	687	c.687G>T	c.(685-687)CAG>CAT	p.Q229H		NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	229					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						CCTCTATTCAGCATATATCAC	0.408													107	183	---	---	---	---	PASS	T	60549108	T	T	60549108	3	4	149	1	0	0	0	0	1	0	0	0	1427	962	34	3	713	3	BICC1	10	60549108	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	12160331	60549108	74985639	242	53246										
EGR2	1959	broad.mit.edu	37	chr10	64574132	64574132	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acttgcccatgtaagtgaagGtctggtttctaggtgcagag	13	7	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:64574132G>A	uc010qim.1	-	3	420	c.266C>T	c.(265-267)ACC>ATC	p.T89I	EGR2_uc010qin.1_Missense_Mutation_p.T39I|EGR2_uc001jmi.2_Missense_Mutation_p.T89I|EGR2_uc010qio.1_Missense_Mutation_p.T102I|EGR2_uc009xph.2_Missense_Mutation_p.T89I	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	89					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GTAAGTGAAGGTCTGGTTTCT	0.502													7	113	---	---	---	---	PASS	A	64574132	A	A	64574132	3	1	149	1	0	0	0	0	1	0	0	0	4972	1261	44	3	1168	3	EGR2	10	64574132	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	4025024	64574132	70960615	243	53247										
JMJD1C	221037	broad.mit.edu	37	chr10	64975339	64975339	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agcgttgacgttttgattggCacgagacctgcgtcgtgatg	14	8	0	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:64975339C>T	uc001jmn.2	-	6	1096	c.796G>A	c.(796-798)GCC>ACC	p.A266T	JMJD1C_uc001jml.2_Missense_Mutation_p.A47T|JMJD1C_uc001jmm.2_5'UTR|JMJD1C_uc010qiq.1_Missense_Mutation_p.A84T|JMJD1C_uc009xpi.2_Missense_Mutation_p.A84T|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmp.1_5'UTR	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	266					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TTTTGATTGGCACGAGACCTG	0.368													81	133	---	---	---	---	PASS	T	64975339	T	T	64975339	3	4	149	1	0	0	0	0	1	0	0	0	7950	710	25	3	6910	3	JMJD1C	10	64975339	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	401207	64975339	70559408	244	53248										
TET1	80312	broad.mit.edu	37	chr10	70333646	70333646	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aacactcaggggttcccattAgcccctgagagaggactctt	10	12	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:70333646A>C	uc001jok.3	+	2	2056	c.1551A>C	c.(1549-1551)TTA>TTC	p.L517F		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	517					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						GGTTCCCATTAGCCCCTGAGA	0.473													26	86	---	---	---	---	PASS	C	70333646	C	C	70333646	3	2	149	1	0	0	0	0	1	0	0	0	15766	417	15	5	1553	5	TET1	10	70333646	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	5358307	70333646	65201101	245	53249										
TET1	80312	broad.mit.edu	37	chr10	70451518	70451518	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cccatgacaatgttgtcaccGtgtccccttatgctctcaca	6	15	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:70451518G>T	uc001jok.3	+	12	6863	c.6358G>T	c.(6358-6360)GTG>TTG	p.V2120L		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	2120					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						TGTTGTCACCGTGTCCCCTTA	0.443													101	210	---	---	---	---	PASS	T	70451518	T	T	70451518	3	4	149	1	0	0	0	0	1	0	0	0	15766	1145	40	1	6400	1	TET1	10	70451518	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	117872	70451518	65083229	246	53250										
CCAR1	55749	broad.mit.edu	37	chr10	70509373	70509373	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tccacgaagagagcgagagcGatcacctcggagagttcgac	13	11	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:70509373G>T	uc001joo.2	+	10	1168	c.1049G>T	c.(1048-1050)CGA>CTA	p.R350L	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Missense_Mutation_p.R155L|CCAR1_uc009xpx.1_Missense_Mutation_p.R324L|CCAR1_uc001jon.1_Missense_Mutation_p.R296L|CCAR1_uc010qiz.1_Missense_Mutation_p.R335L|CCAR1_uc010qja.1_Missense_Mutation_p.R335L|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	350	Arg-rich.				apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						GAGCGAGAGCGATCACCTCGG	0.463													64	145	---	---	---	---	PASS	T	70509373	T	T	70509373	3	4	149	1	0	0	0	0	1	0	0	0	2730	1058	37	2	1083	2	CCAR1	10	70509373	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	57855	70509373	65025374	247	53251										
KIAA1274	27143	broad.mit.edu	37	chr10	72291069	72291069	+	Silent	SNP	G	T	T													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgtgtcatcttctgtgtgcgGgaggaacctgtgcttttcct							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:72291069G>T	uc001jrd.3	+	5	773	c.492G>T	c.(490-492)CGG>CGT	p.R164R		NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	164										ovary(2)|central_nervous_system(1)	3						TCTGTGTGCGGGAGGAACCTG	0.542													17	121	---	---	---	---	PASS	T	72291069	T	T	72291069	2	4	149	1	0	0	0	0	0	0	0	1	8220	1219	43	3		3	KIAA1274	10	72291069	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	1781696	72291069	63243678	248	53252	972	2								
KIAA1274	27143	broad.mit.edu	37	chr10	72291070	72291070	+	Nonsense_Mutation	SNP	G	T	T													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtgtcatcttctgtgtgcggGaggaacctgtgcttttcctg							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:72291070G>T	uc001jrd.3	+	5	774	c.493G>T	c.(493-495)GAG>TAG	p.E165*		NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	165										ovary(2)|central_nervous_system(1)	3						CTGTGTGCGGGAGGAACCTGT	0.547													17	122	---	---	---	---	PASS	T	72291070	T	T	72291070	4	4	149	1	0	0	0	0	0	1	0	0	8220	1175	41	2	507	2	KIAA1274	10	72291070	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1	72291070	63243677	249	53253	972	2								
NDST2	8509	broad.mit.edu	37	chr10	75562271	75562271	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gggcactggctgtccaagccGgctcagcagcttcgacaact	12	14	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:75562271G>A	uc001jvk.2	-	15	3394	c.2590C>T	c.(2590-2592)CGG>TGG	p.R864W	NDST2_uc010qks.1_Missense_Mutation_p.R490W|NDST2_uc010qkt.1_Missense_Mutation_p.R741W|NDST2_uc001jvl.1_3'UTR	NM_003635	NP_003626	P52849	NDST2_HUMAN	heparan glucosaminyl	864	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)					TGTCCAAGCCGGCTCAGCAGC	0.522													3	28	---	---	---	---	PASS	A	75562271	A	A	75562271	3	1	149	1	0	0	0	0	1	0	0	0	10256	1115	39	1	65	1	NDST2	10	75562271	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3271201	75562271	59972476	250	53254										
MYST4	23522	broad.mit.edu	37	chr10	76737088	76737088	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgacagatactgaaataaaaAtaaacatcaaacaagaaagt	5	5	1	4	rs145378526		TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:76737088A>G	uc001jwn.1	+	9	2501	c.2008A>G	c.(2008-2010)ATA>GTA	p.I670V	MYST4_uc001jwm.1_Missense_Mutation_p.I378V|MYST4_uc001jwo.1_Missense_Mutation_p.I378V|MYST4_uc001jwp.1_Missense_Mutation_p.I487V	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	670	Negatively regulates HAT activity.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					TGAAATAAAAATAAACATCAA	0.353			T	CREBBP	AML								3	113	---	---	---	---	PASS	G	76737088	G	G	76737088	3	3	149	1	0	0	0	0	1	0	0	0	10105	101	4	5	2034	5	MYST4	10	76737088	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	1174817	76737088	58797659	251	53255										
LIPF	8513	broad.mit.edu	37	chr10	90438284	90438284	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caaggacctgttggctgaccCccaagatgttggccttttgc	11	12	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:90438284C>A	uc001kfg.1	+	10	1209	c.1043C>A	c.(1042-1044)CCC>CAC	p.P348H	LIPF_uc001kfh.1_Missense_Mutation_p.P325H|LIPF_uc010qmt.1_Missense_Mutation_p.P358H|LIPF_uc010qmu.1_Missense_Mutation_p.P315H	NM_004190	NP_004181	P07098	LIPG_HUMAN	lipase, gastric precursor	348					lipid catabolic process|triglyceride metabolic process	extracellular region	lipid binding|triglyceride lipase activity				0		Colorectal(252;0.0161)		Colorectal(12;3.91e-05)|COAD - Colon adenocarcinoma(12;5.43e-05)		TTGGCTGACCCCCAAGATGTT	0.458													97	122	---	---	---	---	PASS	A	90438284	A	A	90438284	3	1	149	1	0	0	0	0	1	0	0	0	8822	623	22	3	1077	3	LIPF	10	90438284	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	13701196	90438284	45096463	252	53256										
IFIT1B	439996	broad.mit.edu	37	chr10	91143383	91143383	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggggcaactttgcctgggtgTattaccacatgggcagattg	14	8	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:91143383T>A	uc001kgh.2	+	2	393	c.313T>A	c.(313-315)TAT>AAT	p.Y105N	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron	NM_001010987	NP_001010987	Q5T764	IFT1B_HUMAN	interferon-induced protein with	105	TPR 2.						binding				0						TGCCTGGGTGTATTACCACAT	0.473													65	65	---	---	---	---	PASS	A	91143383	A	A	91143383	3	1	149	1	0	0	0	0	1	0	0	0	7522	1638	57	5	319	5	IFIT1B	10	91143383	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	705099	91143383	44391364	253	53257										
TLL2	7093	broad.mit.edu	37	chr10	98146803	98146803	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cacacagcgatgctcgcaccCgccgtgatctggccaggaac	11	16	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:98146803C>A	uc001kml.1	-	14	1985	c.1759G>T	c.(1759-1761)GGG>TGG	p.G587W		NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	587	EGF-like 1; calcium-binding (Potential).			EVDECSWPDHGGCEHRCV -> GKKKKKKKKKKKKKKKKK (in Ref. 5; AAH13871).	cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		TGCTCGCACCCGCCGTGATCT	0.592													43	35	---	---	---	---	PASS	A	98146803	A	A	98146803	3	1	149	1	0	0	0	0	1	0	0	0	15943	652	23	1	1320	1	TLL2	10	98146803	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	7003420	98146803	37387944	254	53258										
SORCS3	22986	broad.mit.edu	37	chr10	106907423	106907423	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	accaagtatttgctgcggtcCaagaatggaaccagaacgac	10	10	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:106907423C>A	uc001kyi.1	+	9	1578	c.1351C>A	c.(1351-1353)CAA>AAA	p.Q451K		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	451	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		TGCTGCGGTCCAAGAATGGAA	0.488													47	73	---	---	---	---	PASS	A	106907423	A	A	106907423	3	1	149	1	0	0	0	0	1	0	0	0	14932	595	21	3	1385	3	SORCS3	10	106907423	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	8760620	106907423	28627324	255	53259										
GRK5	2869	broad.mit.edu	37	chr10	121212678	121212678	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgatagaaacagaatgctttAaggagctgaacgtgtttgga	12	4	0	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:121212678A>G	uc001led.2	+	15	1797	c.1564A>G	c.(1564-1566)AAG>GAG	p.K522E	GRK5_uc009xzh.2_Missense_Mutation_p.K387E	NM_005308	NP_005299	P34947	GRK5_HUMAN	G protein-coupled receptor kinase 5	522					G-protein signaling, coupled to cAMP nucleotide second messenger|regulation of G-protein coupled receptor protein signaling pathway|tachykinin receptor signaling pathway	cytoplasm|plasma membrane|soluble fraction	ATP binding|G-protein coupled receptor kinase activity|phospholipid binding|protein kinase C binding|signal transducer activity			lung(2)|stomach(1)	3		Lung NSC(174;0.0971)|all_lung(145;0.127)|Ovarian(717;0.249)		all cancers(201;0.0227)		AGAATGCTTTAAGGAGCTGAA	0.552													123	153	---	---	---	---	PASS	G	121212678	G	G	121212678	3	3	149	1	0	0	0	0	1	0	0	0	6792	363	13	5	1622	5	GRK5	10	121212678	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	14305255	121212678	14322069	256	53260										
C10orf90	118611	broad.mit.edu	37	chr10	128147613	128147613	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gccacctgcagcttaccactCagaggatggggaatcgtgaa	12	11	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr10:128147613C>G	uc001ljq.2	-	6	2014	c.1893G>C	c.(1891-1893)CTG>CTC	p.L631L	C10orf90_uc001ljp.2_Silent_p.L487L|C10orf90_uc010qum.1_Silent_p.L728L|C10orf90_uc001ljo.2_RNA	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	631										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		GCTTACCACTCAGAGGATGGG	0.582													29	36	---	---	---	---	PASS	G	128147613	G	G	128147613	2	3	149	1	0	0	0	0	0	0	0	1	1623	813	29	2		2	C10orf90	10	128147613	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	6934935	128147613	7387134	257	53261										
MUC5B	727897	broad.mit.edu	37	chr11	1265818	1265818	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccacagccacaccctcctccActccagagactgtccacacc	4	22	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:1265818A>T	uc009ycr.1	+	48	9748	c.9622A>T	c.(9622-9624)ACT>TCT	p.T3208S	MUC5B_uc001ltb.2_Missense_Mutation_p.T2573S	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2570	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACCCTCCTCCACTCCAGAGAC	0.657													5	45	---	---	---	---	PASS	T	1265818	T	T	1265818	3	4	149	1	0	0	0	0	1	0	0	0	9979	159	6	5	7839	5	MUC5B	11	1265818	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08		1265818	133740698	258	53262										
MUC5B	727897	broad.mit.edu	37	chr11	1267918	1267918	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccacagccacaccctcctctActccagagactgtccacacc	4	21	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:1267918A>T	uc009ycr.1	+	49	11683	c.11557A>T	c.(11557-11559)ACT>TCT	p.T3853S	MUC5B_uc001ltb.2_Missense_Mutation_p.T3273S	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3270	7 X Cys-rich subdomain repeats.|Thr-rich.|17 X approximate tandem repeats, Ser/Thr- rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACCCTCCTCTACTCCAGAGAC	0.647													5	4	---	---	---	---	PASS	T	1267918	T	T	1267918	3	4	149	1	0	0	0	0	1	0	0	0	9979	391	14	5	9939	5	MUC5B	11	1267918	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	2100	1267918	133738598	259	53263										
OR52B4	143496	broad.mit.edu	37	chr11	4389334	4389334	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gctccagccagcatgcagagGaagaggtacatgggttcatg	14	9	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:4389334G>T	uc010qye.1	-	1	192	c.192C>A	c.(190-192)TTC>TTA	p.F64L		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0249)|all_neural(188;0.0577)		Epithelial(150;1.57e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0826)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCATGCAGAGGAAGAGGTACA	0.532													19	27	---	---	---	---	PASS	T	4389334	T	T	4389334	3	4	149	1	0	0	0	0	1	0	0	0	11112	1165	41	2	756	2	OR52B4	11	4389334	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3121416	4389334	130617182	260	53264										
OR51S1	119692	broad.mit.edu	37	chr11	4869506	4869506	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttcctgggctgcaacctgttGagtattctctttctaatctc	7	11	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:4869506G>C	uc010qyo.1	-	1	933	c.933C>G	c.(931-933)CTC>CTG	p.L311L		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCAACCTGTTGAGTATTCTCT	0.448													57	74	---	---	---	---	PASS	C	4869506	C	C	4869506	2	2	149	1	0	0	0	0	0	0	0	1	11105	1277	45	2		2	OR51S1	11	4869506	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	480172	4869506	130137010	261	53265										
OR51L1	119682	broad.mit.edu	37	chr11	5020320	5020320	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tccatcctcttctgtcttgcAtatttggtagcatttatggg	8	9	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:5020320A>G	uc010qyu.1	+	1	108	c.108A>G	c.(106-108)GCA>GCG	p.A36A		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCTGTCTTGCATATTTGGTAG	0.423													12	248	---	---	---	---	PASS	G	5020320	G	G	5020320	2	3	149	1	0	0	0	0	0	0	0	1	11102	204	8	5		5	OR51L1	11	5020320	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08	150814	5020320	129986196	262	53266										
NLRP14	338323	broad.mit.edu	37	chr11	7079609	7079609	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tttgtgcttggcagacaatgTcttgggtgatggtggagtaa	15	4	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:7079609T>A	uc001mfb.1	+	8	2884	c.2561T>A	c.(2560-2562)GTC>GAC	p.V854D		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	854	LRR 5.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		GCAGACAATGTCTTGGGTGAT	0.433													87	95	---	---	---	---	PASS	A	7079609	A	A	7079609	3	1	149	1	0	0	0	0	1	0	0	0	10476	1667	58	5	2587	5	NLRP14	11	7079609	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	2059289	7079609	127926907	263	53267										
CAPRIN1	4076	broad.mit.edu	37	chr11	34113458	34113458	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tttatttactaacaggtgttCaatatgaatgccccagttcc	6	9	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:34113458C>A	uc001mvh.1	+	15	1749	c.1560C>A	c.(1558-1560)TTC>TTA	p.F520L	CAPRIN1_uc001mvg.2_Missense_Mutation_p.F520L|CAPRIN1_uc001mvi.2_Missense_Mutation_p.F520L|CAPRIN1_uc001mvj.1_Missense_Mutation_p.F439L	NM_005898	NP_005889	Q14444	CAPR1_HUMAN	membrane component chromosome 11 surface marker	520					negative regulation of translation|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis	cytoplasmic mRNA processing body|cytosol|dendrite|integral to plasma membrane|stress granule	protein binding|RNA binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.00045)|all_hematologic(20;0.0016)				AACAGGTGTTCAATATGAATG	0.363													21	119	---	---	---	---	PASS	A	34113458	A	A	34113458	3	1	149	1	0	0	0	0	1	0	0	0	2635	825	29	2	1614	2	CAPRIN1	11	34113458	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	27033849	34113458	100893058	264	53268										
OR4C11	219429	broad.mit.edu	37	chr11	55371231	55371231	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tatcaaaatcatgaaactacTtgagcaaattgccccactgt	5	10	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:55371231T>A	uc010rii.1	-	1	619	c.619A>T	c.(619-621)AGT>TGT	p.S207C		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	207	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ATGAAACTACTTGAGCAAATT	0.423													72	169	---	---	---	---	PASS	A	55371231	A	A	55371231	3	1	149	1	0	0	0	0	1	0	0	0	11045	1609	56	5	315	5	OR4C11	11	55371231	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	21257773	55371231	79635285	265	53269										
OR4C11	219429	broad.mit.edu	37	chr11	55371753	55371753	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccccaccacagttcccatatAgaaaattaagaagattacaa	4	11	0	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:55371753A>C	uc010rii.1	-	1	97	c.97T>G	c.(97-99)TAT>GAT	p.Y33D		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	33	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTTCCCATATAGAAAATTAAG	0.388													78	183	---	---	---	---	PASS	C	55371753	C	C	55371753	3	2	149	1	0	0	0	0	1	0	0	0	11045	420	15	5	837	5	OR4C11	11	55371753	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	522	55371753	79634763	266	53270										
MS4A14	84689	broad.mit.edu	37	chr11	60184378	60184378	+	Frame_Shift_Del	DEL	C	-	-													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gttatgccaagattcagaatCccaaatacagcaataccaat					rs145801550		TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:60184378delC	uc001npj.2	+	5	2502	c.1937delC	c.(1936-1938)TCCfs	p.S646fs	MS4A14_uc001npi.2_Frame_Shift_Del_p.S534fs|MS4A14_uc001npn.2_Frame_Shift_Del_p.S384fs|MS4A14_uc001npk.2_Frame_Shift_Del_p.S629fs|MS4A14_uc001npl.2_Frame_Shift_Del_p.S384fs|MS4A14_uc001npm.2_Frame_Shift_Del_p.S384fs	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	646	Gln-rich.					integral to membrane	receptor activity			breast(1)	1						GATTCAGAATCCCAAATACAG	0.463													120	62	---	---	---	---		-	60184378	-	-	60184378	7	5	149	1	0	1	0	1	0	0	0	0	9858	855	30	0	1955	0	MS4A14	11	60184378	Frame_Shift_Del	DEL	C	TCGA-66-2763-01A-01D-1522-08	4812625	60184378	74822138	267	53271										
MS4A8B	83661	broad.mit.edu	37	chr11	60482589	60482589	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cactttggctgccagttggtCtgctgtcaatcaagcaatgt	10	10	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:60482589C>A	uc001npv.2	+	6	833	c.630C>A	c.(628-630)GTC>GTA	p.V210V		NM_031457	NP_113645	Q9BY19	M4A8B_HUMAN	membrane-spanning 4-domains, subfamily A, member	210	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						GCCAGTTGGTCTGCTGTCAAT	0.547													105	159	---	---	---	---	PASS	A	60482589	A	A	60482589	2	1	149	1	0	0	0	0	0	0	0	1	9867	900	32	2		2	MS4A8B	11	60482589	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	298211	60482589	74523927	268	53272										
SLC22A12	116085	broad.mit.edu	37	chr11	64360948	64360948	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gggtacggcagctgccttcgCccctgccttccccgtgtact	11	17	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:64360948C>A	uc001oam.1	+	3	1325	c.578C>A	c.(577-579)GCC>GAC	p.A193D	SLC22A12_uc009ypr.1_Missense_Mutation_p.A193D|SLC22A12_uc001oal.1_Intron|SLC22A12_uc009yps.1_Intron|SLC22A12_uc001oan.1_Intron|SLC22A12_uc009ypt.2_Missense_Mutation_p.A11D	NM_144585	NP_653186	Q96S37	S22AC_HUMAN	urate anion exchanger 1 isoform a	193	Helical; (Potential).				cellular homeostasis|response to drug|urate metabolic process	apical plasma membrane|brush border membrane|integral to membrane	PDZ domain binding|urate transmembrane transporter activity			ovary(1)	1						GCTGCCTTCGCCCCTGCCTTC	0.617													73	93	---	---	---	---	PASS	A	64360948	A	A	64360948	3	1	149	1	0	0	0	0	1	0	0	0	14443	739	26	3	588	3	SLC22A12	11	64360948	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	3878359	64360948	70645568	269	53273										
SF1	7536	broad.mit.edu	37	chr11	64535193	64535193	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caggctgggtaatgggtgtgGgaagctgtgggggccacctc	19	8	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:64535193G>A	uc001obb.1	-	10	1569	c.1192C>T	c.(1192-1194)CCA>TCA	p.P398S	SF1_uc010rnm.1_Missense_Mutation_p.P90S|SF1_uc010rnn.1_Missense_Mutation_p.P372S|SF1_uc001oaz.1_Missense_Mutation_p.P523S|SF1_uc001oba.1_Missense_Mutation_p.P398S|SF1_uc001obc.1_Missense_Mutation_p.P398S|SF1_uc001obd.1_Missense_Mutation_p.P398S|SF1_uc001obe.1_Missense_Mutation_p.P283S|SF1_uc010rno.1_Missense_Mutation_p.P283S	NM_004630	NP_004621	Q15637	SF01_HUMAN	splicing factor 1 isoform 1	398	Pro-rich.				nuclear mRNA 3'-splice site recognition|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ribosome|spliceosomal complex	protein binding|RNA binding|transcription corepressor activity|zinc ion binding			ovary(1)|breast(1)|skin(1)	3						AATGGGTGTGGGAAGCTGTGG	0.652											OREG0004010|OREG0021062	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)|type=REGULATORY REGION|Gene=LOC476031|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	43	72	---	---	---	---	PASS	A	64535193	A	A	64535193	3	1	149	1	0	0	0	0	1	0	0	0	14145	1232	43	3	881	3	SF1	11	64535193	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	174245	64535193	70471323	270	53274										
CDC42BPG	55561	broad.mit.edu	37	chr11	64597312	64597312	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtagcagagcacctggcgctTgacggctacacagagcaccg	13	13	0	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:64597312T>G	uc001obs.3	-	30	3598	c.3598A>C	c.(3598-3600)AAG>CAG	p.K1200Q		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	1200	CNH.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						ACCTGGCGCTTGACGGCTACA	0.692													14	26	---	---	---	---	PASS	G	64597312	G	G	64597312	3	3	149	1	0	0	0	0	1	0	0	0	3074	1821	63	5	1089	5	CDC42BPG	11	64597312	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	62119	64597312	70409204	271	53275										
PPP2R5B	5526	broad.mit.edu	37	chr11	64695363	64695363	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cccaatcttgagccttcgtgGccacacctgcaggtctgaag	10	14	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:64695363G>A	uc001oby.2	+	4	1071	c.486G>A	c.(484-486)TGG>TGA	p.W162*	PPP2R5B_uc001obz.2_Nonsense_Mutation_p.W162*	NM_006244	NP_006235	Q15173	2A5B_HUMAN	beta isoform of regulatory subunit B56, protein	162					signal transduction	cytoplasm|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(2)	2						AGCCTTCGTGGCCACACCTGC	0.547													4	128	---	---	---	---	PASS	A	64695363	A	A	64695363	4	1	149	1	0	0	0	0	0	1	0	0	12393	1212	42	3	496	3	PPP2R5B	11	64695363	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	98051	64695363	70311153	272	53276										
TSGA10IP	254187	broad.mit.edu	37	chr11	65715500	65715500	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aagctgccctggaagactttGagggctgccttccaggcctc	12	13	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:65715500G>C	uc001ogk.1	+	6	1064	c.1032G>C	c.(1030-1032)TTG>TTC	p.L344F	TSGA10IP_uc009yqw.1_Intron|TSGA10IP_uc009yqx.1_Intron	NM_152762	NP_689975	Q3SY00	T10IP_HUMAN	testis specific, 10 interacting protein	344											0						GGAAGACTTTGAGGGCTGCCT	0.617													6	10	---	---	---	---	PASS	C	65715500	C	C	65715500	3	2	149	1	0	0	0	0	1	0	0	0	16615	1281	45	2	1046	2	TSGA10IP	11	65715500	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1020137	65715500	69291016	273	53277										
SART1	9092	broad.mit.edu	37	chr11	65743954	65743954	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gaagggggccatcgtgttcaAcgccacgtccgagttctgcc	13	13	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:65743954A>T	uc001ogl.2	+	13	1753	c.1661A>T	c.(1660-1662)AAC>ATC	p.N554I		NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	554					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1						ATCGTGTTCAACGCCACGTCC	0.662													13	43	---	---	---	---	PASS	T	65743954	T	T	65743954	3	4	149	1	0	0	0	0	1	0	0	0	13846	43	2	5	1711	5	SART1	11	65743954	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	28454	65743954	69262562	274	53278										
CCDC87	55231	broad.mit.edu	37	chr11	66359969	66359969	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggaagtcggcaagcaggccaCggtagacgttgggactagta	16	8	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:66359969C>A	uc001oiq.3	-	1	586	c.518G>T	c.(517-519)CGT>CTT	p.R173L	CCS_uc001oir.2_5'Flank	NM_018219	NP_060689	Q9NVE4	CCD87_HUMAN	coiled-coil domain containing 87	173										ovary(1)|skin(1)	2						AAGCAGGCCACGGTAGACGTT	0.642													40	47	---	---	---	---	PASS	A	66359969	A	A	66359969	3	1	149	1	0	0	0	0	1	0	0	0	2862	536	19	1	2035	1	CCDC87	11	66359969	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	616015	66359969	68646547	275	53279										
KCTD14	65987	broad.mit.edu	37	chr11	77728080	77728080	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttgatttcgtagaactgagcCtcacggtacacttcagggat	10	9	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:77728080C>A	uc001oyw.3	-	2	352	c.327G>T	c.(325-327)GAG>GAT	p.E109D		NM_023930	NP_076419	Q9BQ13	KCD14_HUMAN	potassium channel tetramerisation domain	109	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1e-24)			AGAACTGAGCCTCACGGTACA	0.547													53	58	---	---	---	---	PASS	A	77728080	A	A	77728080	3	1	149	1	0	0	0	0	1	0	0	0	8101	680	24	3	444	3	KCTD14	11	77728080	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	11368111	77728080	57278436	276	53280										
C11orf82	220042	broad.mit.edu	37	chr11	82643506	82643506	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agctaccatgttttcagcatCatggtatagataccccaact	6	11	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:82643506C>T	uc001ozt.2	+	6	1370	c.1126C>T	c.(1126-1128)CAT>TAT	p.H376Y	C11orf82_uc010rsr.1_Missense_Mutation_p.H75Y|C11orf82_uc010rss.1_Missense_Mutation_p.H75Y|C11orf82_uc009yvd.2_Intron	NM_145018	NP_659455	Q8IXT1	NOXIN_HUMAN	nitric oxide-inducible gene protein	376					apoptosis|cell cycle arrest	cytoplasm|nucleus				ovary(2)	2						TTTTCAGCATCATGGTATAGA	0.458													111	606	---	---	---	---	PASS	T	82643506	T	T	82643506	3	4	149	1	0	0	0	0	1	0	0	0	1665	826	29	2	1140	2	C11orf82	11	82643506	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	4915426	82643506	52363010	277	53281										
SYTL2	54843	broad.mit.edu	37	chr11	85429842	85429842	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aagatatttaccatcttcagCactacgcactaattcttctg	4	11	4	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:85429842C>A	uc010rth.1	-	9	1882	c.1606G>T	c.(1606-1608)GCT>TCT	p.A536S	SYTL2_uc010rtg.1_Missense_Mutation_p.A537S|SYTL2_uc010rti.1_Missense_Mutation_p.A536S|SYTL2_uc010rtj.1_Missense_Mutation_p.A488S|SYTL2_uc010rte.1_5'UTR|SYTL2_uc001pax.2_5'UTR|SYTL2_uc001paz.2_5'UTR|SYTL2_uc001pba.2_5'UTR|SYTL2_uc001pay.2_5'UTR|SYTL2_uc001paw.2_5'UTR|SYTL2_uc009yvj.2_RNA|SYTL2_uc001pbd.2_Missense_Mutation_p.A858S|SYTL2_uc001pbb.2_Missense_Mutation_p.A858S|SYTL2_uc001pbc.2_Missense_Mutation_p.A858S|SYTL2_uc010rtf.1_Missense_Mutation_p.A394S	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	536					intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		CCATCTTCAGCACTACGCACT	0.408													14	49	---	---	---	---	PASS	A	85429842	A	A	85429842	3	1	149	1	0	0	0	0	1	0	0	0	15480	710	25	3	1290	3	SYTL2	11	85429842	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	2786336	85429842	49576674	278	53282										
CTSC	1075	broad.mit.edu	37	chr11	88029410	88029410	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agcatacccatagaagcaaaTgagtagcagctgccacagga	10	10	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:88029410T>G	uc001pck.3	-	6	881	c.780A>C	c.(778-780)TCA>TCC	p.S260S	CTSC_uc001pcl.3_Silent_p.S112S	NM_001814	NP_001805	P53634	CATC_HUMAN	cathepsin C isoform a preproprotein	260					immune response	lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TAGAAGCAAATGAGTAGCAGC	0.448													23	54	---	---	---	---	PASS	G	88029410	G	G	88029410	2	3	149	1	0	0	0	0	0	0	0	1	4031	1451	51	5		5	CTSC	11	88029410	Silent	SNP	T	TCGA-66-2763-01A-01D-1522-08	2599568	88029410	46977106	279	53283										
KBTBD3	143879	broad.mit.edu	37	chr11	105923716	105923716	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgtggtagacctgcacttcaTctgtgatttcatctggtgca	10	9	4	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:105923716T>G	uc001pja.2	-	4	2340	c.1700A>C	c.(1699-1701)GAT>GCT	p.D567A	KBTBD3_uc001pjb.2_Missense_Mutation_p.D567A|KBTBD3_uc009yxm.2_Missense_Mutation_p.D488A	NM_198439	NP_940841	Q8NAB2	KBTB3_HUMAN	BTB and kelch domain containing 3	563	Kelch 5.									ovary(1)|central_nervous_system(1)	2		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.43e-05)|Epithelial(105;0.00418)|all cancers(92;0.0299)		CTGCACTTCATCTGTGATTTC	0.393													70	202	---	---	---	---	PASS	G	105923716	G	G	105923716	3	3	149	1	0	0	0	0	1	0	0	0	7994	1435	50	5	142	5	KBTBD3	11	105923716	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	17894306	105923716	29082800	280	53284										
CWF19L2	143884	broad.mit.edu	37	chr11	107299577	107299577	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttctttttttggagggtcatCtctcaagacttcatcttgtg	8	8	6	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:107299577C>G	uc010rvp.1	-	8	1411	c.1381G>C	c.(1381-1383)GAT>CAT	p.D461H	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	461							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		GGAGGGTCATCTCTCAAGACT	0.363													135	436	---	---	---	---	PASS	G	107299577	G	G	107299577	3	3	149	1	0	0	0	0	1	0	0	0	4072	913	32	2	1347	2	CWF19L2	11	107299577	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1375861	107299577	27706939	281	53285										
SLC35F2	54733	broad.mit.edu	37	chr11	107677463	107677463	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctgaattgtcttccctccctGctagtatgtctgcaccaacc	6	15	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:107677463G>A	uc001pjq.2	-	4	975	c.554C>T	c.(553-555)GCA>GTA	p.A185V	SLC35F2_uc010rvu.1_Missense_Mutation_p.A37V|SLC35F2_uc001pjs.2_Missense_Mutation_p.A185V	NM_017515	NP_059985	Q8IXU6	S35F2_HUMAN	solute carrier family 35, member F2	185	Helical; (Potential).				transport	integral to membrane				central_nervous_system(1)	1		all_cancers(61;9.46e-06)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;0.000111)|all_hematologic(158;0.000315)|all_epithelial(67;0.00197)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)|Epithelial(105;0.000105)|all cancers(92;0.00217)		TTCCCTCCCTGCTAGTATGTC	0.423													55	116	---	---	---	---	PASS	A	107677463	A	A	107677463	3	1	149	1	0	0	0	0	1	0	0	0	14589	1319	46	3	590	3	SLC35F2	11	107677463	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	377886	107677463	27329053	282	53286										
NPAT	4863	broad.mit.edu	37	chr11	108032210	108032210	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtcatttcttgcagtgaagcTatagatttctcacttcgcaa	7	9	3	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:108032210T>C	uc001pjz.3	-	17	3705	c.3603A>G	c.(3601-3603)ATA>ATG	p.I1201M	NPAT_uc010rvv.1_Missense_Mutation_p.I257M	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	1201					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		GCAGTGAAGCTATAGATTTCT	0.353													302	593	---	---	---	---	PASS	C	108032210	C	C	108032210	3	2	149	1	0	0	0	0	1	0	0	0	10566	1512	53	5	688	5	NPAT	11	108032210	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	354747	108032210	26974306	283	53287										
HSPA8	3312	broad.mit.edu	37	chr11	122928975	122928975	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caaacctgattcttatcaagCcagttgataatttcattaca	4	9	3	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:122928975C>A	uc001pyo.2	-	8	1818	c.1740G>T	c.(1738-1740)TGG>TGT	p.W580C	HSPA8_uc009zbc.2_Missense_Mutation_p.W344C|HSPA8_uc001pyp.2_Intron|HSPA8_uc010rzu.1_Missense_Mutation_p.W503C	NM_006597	NP_006588	P11142	HSP7C_HUMAN	heat shock 70kDa protein 8 isoform 1	580					cellular membrane organization|interspecies interaction between organisms|mRNA metabolic process|negative regulation of transcription, DNA-dependent|neurotransmitter secretion|post-Golgi vesicle-mediated transport|protein folding|response to unfolded protein|transcription, DNA-dependent	cell surface|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|melanosome|plasma membrane|ribonucleoprotein complex	ATP binding|ATPase activity, coupled|protein binding			central_nervous_system(7)|lung(1)	8		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		TCTTATCAAGCCAGTTGATAA	0.388													70	177	---	---	---	---	PASS	A	122928975	A	A	122928975	3	1	149	1	0	0	0	0	1	0	0	0	7416	740	26	3	208	3	HSPA8	11	122928975	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	14896765	122928975	12077541	284	53288										
SPATA19	219938	broad.mit.edu	37	chr11	133715045	133715045	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcacttttttcaaccaatgaTgtagtacagacacagcctca	5	11	3	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:133715045T>C	uc001qgv.1	-	2	170	c.119A>G	c.(118-120)CAT>CGT	p.H40R		NM_174927	NP_777587	Q7Z5L4	SPT19_HUMAN	spermatogenesis associated 19 precursor	40					cell differentiation|multicellular organismal development|spermatogenesis	mitochondrial outer membrane					0	all_hematologic(175;0.127)	all_cancers(12;5.59e-17)|all_epithelial(12;2.65e-12)|all_lung(97;0.00045)|Lung NSC(97;0.000861)|Breast(109;0.000873)|Medulloblastoma(222;0.0425)|Esophageal squamous(93;0.0844)|all_neural(223;0.117)		Epithelial(10;4.36e-10)|all cancers(11;7.1e-09)|BRCA - Breast invasive adenocarcinoma(10;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00286)|Lung(977;0.207)		CAACCAATGATGTAGTACAGA	0.438													29	198	---	---	---	---	PASS	C	133715045	C	C	133715045	3	2	149	1	0	0	0	0	1	0	0	0	15003	1464	51	5	404	5	SPATA19	11	133715045	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	10786070	133715045	1291471	285	53289										
GLB1L3	112937	broad.mit.edu	37	chr11	134151966	134151966	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cgggctgtgggtgattctgcGtccaggccgctacatctgca	14	12	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:134151966G>A	uc009zdf.2	+	5	839	c.479G>A	c.(478-480)CGT>CAT	p.R160H	GLB1L3_uc010scs.1_Missense_Mutation_p.R160H|GLB1L3_uc010sct.1_Missense_Mutation_p.R12H	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3	160					carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		GTGATTCTGCGTCCAGGCCGC	0.617													4	39	---	---	---	---	PASS	A	134151966	A	A	134151966	3	1	149	1	0	0	0	0	1	0	0	0	6430	1145	40	1	497	1	GLB1L3	11	134151966	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	436921	134151966	854550	286	53290										
B3GAT1	27087	broad.mit.edu	37	chr11	134253718	134253718	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccccgcgggatgcgtgggtcGcgggcgtctccgcgcagctt	17	15	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr11:134253718G>A	uc001qhq.2	-	4	738	c.477C>T	c.(475-477)CGC>CGT	p.R159R	B3GAT1_uc001qhr.2_Silent_p.R159R|B3GAT1_uc010scv.1_Silent_p.R172R	NM_018644	NP_061114	Q9P2W7	B3GA1_HUMAN	beta-1,3-glucuronyltransferase 1	159	Lumenal (Potential).				carbohydrate metabolic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.39e-23)|all_epithelial(12;7.17e-17)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|Medulloblastoma(222;0.0125)|all_neural(223;0.0137)|Esophageal squamous(93;0.0559)		Epithelial(10;2.58e-11)|all cancers(11;5.75e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.000879)|Lung(977;0.0864)		TGCGTGGGTCGCGGGCGTCTC	0.716													6	14	---	---	---	---	PASS	A	134253718	A	A	134253718	2	1	149	1	0	0	0	0	0	0	0	1	1253	1074	38	1		1	B3GAT1	11	134253718	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	101752	134253718	752798	287	53291										
CLEC12A	160364	broad.mit.edu	37	chr12	10134718	10134718	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagtggataatataatcaacTcctctgcctggtaagtgtct	9	8	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:10134718T>A	uc001qwr.3	+	5	819	c.631T>A	c.(631-633)TCC>ACC	p.S211T	CLEC12A_uc001qwq.2_Missense_Mutation_p.S221T|CLEC12A_uc001qws.3_Missense_Mutation_p.S178T|CLEC12A_uc001qwt.2_Missense_Mutation_p.S140T	NM_138337	NP_612210	Q5QGZ9	CL12A_HUMAN	myeloid inhibitory C-type lectin-like receptor	211	Extracellular (Potential).|C-type lectin.					integral to membrane|plasma membrane	receptor activity|sugar binding			skin(1)	1						TATAATCAACTCCTCTGCCTG	0.373													29	69	---	---	---	---	PASS	A	10134718	A	A	10134718	3	1	149	1	0	0	0	0	1	0	0	0	3497	1551	54	5	649	5	CLEC12A	12	10134718	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08		10134718	123717177	288	53292										
STYK1	55359	broad.mit.edu	37	chr12	10786680	10786680	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atgaggaagatagtaaccaaCaaagttgggacgataatcac	10	6	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:10786680C>A	uc001qys.2	-	4	617	c.96G>T	c.(94-96)TTG>TTT	p.L32F		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	32	Helical; (Potential).					integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						TAGTAACCAACAAAGTTGGGA	0.458										HNSCC(73;0.22)			83	261	---	---	---	---	PASS	A	10786680	A	A	10786680	3	1	149	1	0	0	0	0	1	0	0	0	15358	477	17	3	1204	3	STYK1	12	10786680	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	651962	10786680	123065215	289	53293										
KIAA1467	57613	broad.mit.edu	37	chr12	13214673	13214673	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgacagggacacacaagatgCtcagcgcattcaatgcaacg	10	11	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:13214673C>T	uc001rbi.2	+	4	720	c.697C>T	c.(697-699)CTC>TTC	p.L233F	KIAA1467_uc009zhx.1_RNA	NM_020853	NP_065904	A2RU67	K1467_HUMAN	hypothetical protein LOC57613	233						integral to membrane				central_nervous_system(2)|skin(1)	3		Prostate(47;0.184)		BRCA - Breast invasive adenocarcinoma(232;0.157)		ACACAAGATGCTCAGCGCATT	0.463													22	65	---	---	---	---	PASS	T	13214673	T	T	13214673	3	4	149	1	0	0	0	0	1	0	0	0	8235	797	28	3	711	3	KIAA1467	12	13214673	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	2427993	13214673	120637222	290	53294										
KIF21A	55605	broad.mit.edu	37	chr12	39726780	39726780	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctgggctcctgtccttgatgCatctgtttcgacagcagctg	11	12	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:39726780C>A	uc001rly.2	-	19	2763	c.2617G>T	c.(2617-2619)GCA>TCA	p.A873S	KIF21A_uc001rlv.2_5'Flank|KIF21A_uc001rlw.2_Missense_Mutation_p.A190S|KIF21A_uc001rlx.2_Missense_Mutation_p.A860S|KIF21A_uc001rlz.2_Missense_Mutation_p.A837S|KIF21A_uc010skl.1_Missense_Mutation_p.A860S	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	873					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				GTCCTTGATGCATCTGTTTCG	0.502													66	136	---	---	---	---	PASS	A	39726780	A	A	39726780	3	1	149	1	0	0	0	0	1	0	0	0	8288	710	25	3	2487	3	KIF21A	12	39726780	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	26512107	39726780	94125115	291	53295										
SENP1	29843	broad.mit.edu	37	chr12	48482584	48482584	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	taagatgacaaaatacgaacCttgaggtctttcgggtttcg	10	7	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:48482584C>T	uc001rqx.2	-	5	826	c.380G>A	c.(379-381)AGT>AAT	p.S127N	SENP1_uc001rqw.2_Missense_Mutation_p.S127N|SENP1_uc001rqy.2_Translation_Start_Site|SENP1_uc001rqz.2_Translation_Start_Site|SENP1_uc009zkx.2_Missense_Mutation_p.S127N	NM_014554	NP_055369	Q9P0U3	SENP1_HUMAN	sentrin/SUMO-specific protease 1	127	Ser-rich.				activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)				AAATACGAACCTTGAGGTCTT	0.388													6	18	---	---	---	---	PASS	T	48482584	T	T	48482584	3	4	149	1	0	0	0	0	1	0	0	0	14046	695	24	3	1607	3	SENP1	12	48482584	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	8755804	48482584	85369311	292	53296										
WNT10B	7480	broad.mit.edu	37	chr12	49359979	49359979	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gcgctcaactcgtgtctgccGgagcacgttgtgcccacggc	13	15	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:49359979G>C	uc001rss.2	-	5	1415	c.1069C>G	c.(1069-1071)CGG>GGG	p.R357G	WNT10B_uc001rst.2_3'UTR	NM_003394	NP_003385	O00744	WN10B_HUMAN	wingless-type MMTV integration site family,	357					axis specification|bone trabecula formation|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|chondrocyte differentiation|female gonad development|hemopoietic stem cell proliferation|midbrain-hindbrain boundary development|myoblast cell differentiation involved in skeletal muscle regeneration|negative regulation of epithelial cell proliferation|negative regulation of fat cell differentiation|neuron differentiation|positive regulation of anagen|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cell proliferation|positive regulation of epithelial cell differentiation|positive regulation of osteoblast differentiation|protein stabilization|regulation of skeletal muscle tissue development|skeletal muscle fiber development|smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			skin(4)|lung(3)	7						CGTGTCTGCCGGAGCACGTTG	0.607													8	20	---	---	---	---	PASS	C	49359979	C	C	49359979	3	2	149	1	0	0	0	0	1	0	0	0	17380	1115	39	4	104	4	WNT10B	12	49359979	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	877395	49359979	84491916	293	53297										
NR4A1	3164	broad.mit.edu	37	chr12	52449821	52449821	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cccccccacccagcgcacagTgcagaaaaacgccaagtaca	7	18	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:52449821T>A	uc001rzs.2	+	4	1198	c.884T>A	c.(883-885)GTG>GAG	p.V295E	NR4A1_uc010sno.1_Missense_Mutation_p.V308E|NR4A1_uc001rzt.2_Missense_Mutation_p.V295E|NR4A1_uc009zmc.2_5'Flank	NM_002135	NP_002126	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	295	Nuclear receptor.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0967)		CAGCGCACAGTGCAGAAAAAC	0.612													13	72	---	---	---	---	PASS	A	52449821	A	A	52449821	3	1	149	1	0	0	0	0	1	0	0	0	10632	1696	59	5	890	5	NR4A1	12	52449821	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	3089842	52449821	81402074	294	53298										
ITGA7	3679	broad.mit.edu	37	chr12	56086982	56086982	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttctgcccaggcccctgcccGccctccagctcaacctgcat	7	21	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:56086982G>A	uc001shh.2	-	20	2887	c.2667C>T	c.(2665-2667)GGC>GGT	p.G889G	ITGA7_uc001shg.2_Silent_p.G885G|ITGA7_uc010sps.1_Silent_p.G792G|ITGA7_uc009znw.2_Silent_p.G132G|ITGA7_uc009znx.2_Silent_p.G766G	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	929	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity	p.G885G(1)		ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						GCCCCTGCCCGCCCTCCAGCT	0.602													18	105	---	---	---	---	PASS	A	56086982	A	A	56086982	2	1	149	1	0	0	0	0	0	0	0	1	7881	1074	38	1		1	ITGA7	12	56086982	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	3637161	56086982	77764913	295	53299										
TRHDE	29953	broad.mit.edu	37	chr12	72969157	72969157	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tattaattgatcaattaatcCggaatcatgaggtacactcc	6	8	2	2	rs138433001		TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:72969157C>T	uc001sxa.2	+	11	2149	c.2119C>T	c.(2119-2121)CGG>TGG	p.R707W		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	707	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TCAATTAATCCGGAATCATGA	0.343													14	161	---	---	---	---	PASS	T	72969157	T	T	72969157	3	4	149	1	0	0	0	0	1	0	0	0	16476	643	23	1	2161	1	TRHDE	12	72969157	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	16882175	72969157	60882738	296	53300										
NAV3	89795	broad.mit.edu	37	chr12	78515767	78515767	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atctgcctctgcacctaataCtgagggtgtgaaatcttcct	8	11	3	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:78515767C>A	uc001syp.2	+	16	3970	c.3797C>A	c.(3796-3798)ACT>AAT	p.T1266N	NAV3_uc001syo.2_Missense_Mutation_p.T1266N|NAV3_uc010sub.1_Missense_Mutation_p.T766N|NAV3_uc009zsf.2_Intron	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1266	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GCACCTAATACTGAGGGTGTG	0.498										HNSCC(70;0.22)			38	47	---	---	---	---	PASS	A	78515767	A	A	78515767	3	1	149	1	0	0	0	0	1	0	0	0	10185	565	20	3	3859	3	NAV3	12	78515767	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	5546610	78515767	55336128	297	53301										
NAV3	89795	broad.mit.edu	37	chr12	78534061	78534061	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgttctgtttgttttctccaGttcatggctcttcattatca	6	9	6	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:78534061G>T	uc001syp.2	+	20	4804	c.4631_splice	c.e20-1	p.V1544_splice	NAV3_uc001syo.2_Splice_Site_p.V1544_splice|NAV3_uc010sub.1_Splice_Site_p.V1030_splice|NAV3_uc009zsf.2_Splice_Site_p.V375_splice	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3							nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GTTTTCTCCAGTTCATGGCTC	0.373										HNSCC(70;0.22)			71	99	---	---	---	---	PASS	T	78534061	T	T	78534061	5	4	149	1	0	0	0	0	0	0	1	0	10185	1043	36	3	4708	3	NAV3	12	78534061	Splice_Site	SNP	G	TCGA-66-2763-01A-01D-1522-08	18294	78534061	55317834	298	53302										
ATP2B1	490	broad.mit.edu	37	chr12	90004201	90004201	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctgaaaaatctacttaccttTaaccagtgtatgcttatcag	5	9	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:90004201T>C	uc001tbh.2	-	13	2513	c.2332A>G	c.(2332-2334)AAA>GAA	p.K778E	ATP2B1_uc001tbg.2_Missense_Mutation_p.K778E|ATP2B1_uc001tbf.2_Missense_Mutation_p.K448E	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	778	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						TACTTACCTTTAACCAGTGTA	0.333													115	122	---	---	---	---	PASS	C	90004201	C	C	90004201	3	2	149	1	0	0	0	0	1	0	0	0	1139	1763	61	5	1520	5	ATP2B1	12	90004201	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	11470140	90004201	43847694	299	53303										
POLR3B	55703	broad.mit.edu	37	chr12	106772055	106772055	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctttgggtaggtggctacttCattgttaaaggagtagaaaa	12	4	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:106772055C>A	uc001tlp.2	+	8	729	c.507C>A	c.(505-507)TTC>TTA	p.F169L	POLR3B_uc001tlq.2_Missense_Mutation_p.F111L	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	169					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						GTGGCTACTTCATTGTTAAAG	0.398													54	70	---	---	---	---	PASS	A	106772055	A	A	106772055	3	1	149	1	0	0	0	0	1	0	0	0	12229	825	29	2	537	2	POLR3B	12	106772055	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	16767854	106772055	27079840	300	53304										
CCDC64	92558	broad.mit.edu	37	chr12	120510336	120510336	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgagactgcagctctgggaaGcctactgccaggttcgctat	12	11	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr12:120510336G>T	uc001txl.1	+	6	1136	c.1111G>T	c.(1111-1113)GCC>TCC	p.A371S	CCDC64_uc001txk.2_Missense_Mutation_p.A371S|CCDC64_uc009zwv.1_Intron|CCDC64_uc010sze.1_Intron|CCDC64_uc010szf.1_Missense_Mutation_p.A20S	NM_207311	NP_997194	Q6ZP65	BICR1_HUMAN	coiled-coil domain containing 64	371	Potential.				Golgi to secretory granule transport|neuron projection development	centrosome	dynactin binding|Rab GTPase binding			ovary(2)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GCTCTGGGAAGCCTACTGCCA	0.512													60	70	---	---	---	---	PASS	T	120510336	T	T	120510336	3	4	149	1	0	0	0	0	1	0	0	0	2835	971	34	3	1133	3	CCDC64	12	120510336	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	13738281	120510336	13341559	301	53305										
FREM2	341640	broad.mit.edu	37	chr13	39448660	39448660	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgcgcatcggtgatgaggggCgcttggccgtgcacttcaag	16	10	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr13:39448660C>T	uc001uwv.2	+	18	8527	c.8218C>T	c.(8218-8220)CGC>TGC	p.R2740C		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2740	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TGATGAGGGGCGCTTGGCCGT	0.488													6	151	---	---	---	---	PASS	T	39448660	T	T	39448660	3	4	149	1	0	0	0	0	1	0	0	0	6045	768	27	1	8288	1	FREM2	13	39448660	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08		39448660	75721218	302	53306										
CLN5	1203	broad.mit.edu	37	chr13	77569277	77569277	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caactggctcacctatcccaGttatggagggtgatgatgac	11	10	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr13:77569277G>T	uc001vkc.2	+	2	428	c.400G>T	c.(400-402)GTT>TTT	p.V134F		NM_006493	NP_006484	O75503	CLN5_HUMAN	ceroid-lipofuscinosis, neuronal 5	85					brain development|cell death|lysosomal lumen acidification|neuron maturation|protein catabolic process	endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.205)		GBM - Glioblastoma multiforme(99;0.0503)		ACCTATCCCAGTTATGGAGGG	0.418													117	104	---	---	---	---	PASS	T	77569277	T	T	77569277	3	4	149	1	0	0	0	0	1	0	0	0	3544	1029	36	3	406	3	CLN5	13	77569277	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	38120617	77569277	37600601	303	53307										
SLITRK1	114798	broad.mit.edu	37	chr13	84454197	84454197	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tccacaggcagggacctcagCaggttgttgttgagaatgag	14	8	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr13:84454197C>A	uc001vlk.2	-	1	2332	c.1446G>T	c.(1444-1446)CTG>CTT	p.L482L		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	482	Extracellular (Potential).|LRR 11.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GGGACCTCAGCAGGTTGTTGT	0.547													45	34	---	---	---	---	PASS	A	84454197	A	A	84454197	2	1	149	1	0	0	0	0	0	0	0	1	14742	697	25	3		3	SLITRK1	13	84454197	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	6884920	84454197	30715681	304	53308										
CLDN10	9071	broad.mit.edu	37	chr13	96086249	96086249	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggatgaactgcgcaggtaaCgcgttgggttctttccattg	13	8	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr13:96086249C>G	uc001vmg.2	+	1	397	c.162C>G	c.(160-162)AAC>AAG	p.N54K	CLDN10_uc010tii.1_Intron	NM_182848	NP_878268	P78369	CLD10_HUMAN	claudin 10 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.18)			GCGCAGGTAACGCGTTGGGTT	0.488													69	58	---	---	---	---	PASS	G	96086249	G	G	96086249	3	3	149	1	0	0	0	0	1	0	0	0	3472	535	19	4	164	4	CLDN10	13	96086249	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	11632052	96086249	19083629	305	53309										
COL4A2	1284	broad.mit.edu	37	chr13	111155574	111155574	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccagggaccaaaggatgggcCggggactccgggccccaggg	18	13	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr13:111155574C>T	uc001vqx.2	+	42	4273	c.3984C>T	c.(3982-3984)GCC>GCT	p.A1328A		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	1328	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			AAGGATGGGCCGGGGACTCCG	0.647													88	43	---	---	---	---	PASS	T	111155574	T	T	111155574	2	4	149	1	0	0	0	0	0	0	0	1	3690	639	23	1		1	COL4A2	13	111155574	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	15069325	111155574	4014304	306	53310										
SLC22A17	51310	broad.mit.edu	37	chr14	23817725	23817725	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	taatactgacccataaaacaGgaagaggatgcagggagcgg	13	7	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:23817725G>A	uc001wjl.2	-	4	738	c.682C>T	c.(682-684)CTG>TTG	p.L228L	SLC22A17_uc010akk.2_Silent_p.L10L|SLC22A17_uc001wjn.2_RNA|SLC22A17_uc001wjm.2_Silent_p.L228L	NM_020372	NP_065105	Q8WUG5	S22AH_HUMAN	solute carrier family 22, member 17 isoform a	228	Helical; (Potential).				siderophore transport	integral to organelle membrane|integral to plasma membrane|vacuolar membrane	transmembrane receptor activity|transmembrane transporter activity				0	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00643)		CCATAAAACAGGAAGAGGATG	0.562													100	124	---	---	---	---	PASS	A	23817725	A	A	23817725	2	1	149	1	0	0	0	0	0	0	0	1	14448	991	35	3		3	SLC22A17	14	23817725	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08		23817725	83531815	307	53311										
MYH6	4624	broad.mit.edu	37	chr14	23858820	23858820	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	accattctcggtctgcagctTggctcgctgggtggtgaaat	13	10	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:23858820T>A	uc001wjv.2	-	27	3908	c.3841A>T	c.(3841-3843)AAG>TAG	p.K1281*	uc010tnn.1_5'Flank|MIR208A_hsa-mir-208a|MI0000251_5'Flank	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1281	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GTCTGCAGCTTGGCTCGCTGG	0.587													59	98	---	---	---	---	PASS	A	23858820	A	A	23858820	4	1	149	1	0	0	0	0	0	1	0	0	10038	1821	63	5	2030	5	MYH6	14	23858820	Nonsense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	41095	23858820	83490720	308	53312										
PRKD1	5587	broad.mit.edu	37	chr14	30093429	30093429	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcgtaatttgtcaatgatttTaatagctacatctcttcctg	5	8	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:30093429T>C	uc001wqh.2	-	13	2015	c.1834A>G	c.(1834-1836)AAA>GAA	p.K612E		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	612	Protein kinase.	ATP.		K->W: Loss of kinase activity.	cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TCAATGATTTTAATAGCTACA	0.318													4	252	---	---	---	---	PASS	C	30093429	C	C	30093429	3	2	149	1	0	0	0	0	1	0	0	0	12518	1763	61	5	928	5	PRKD1	14	30093429	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	6234609	30093429	77256111	309	53313										
FSCB	84075	broad.mit.edu	37	chr14	44976161	44976161	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atgtgtttctttttctctatTacatcagtttgctgggattt	7	6	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:44976161T>C	uc001wvn.2	-	1	339	c.30A>G	c.(28-30)GTA>GTG	p.V10V		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	10						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		TTTTCTCTATTACATCAGTTT	0.438													176	383	---	---	---	---	PASS	C	44976161	C	C	44976161	2	2	149	1	0	0	0	0	0	0	0	1	6066	1741	61	5		5	FSCB	14	44976161	Silent	SNP	T	TCGA-66-2763-01A-01D-1522-08	14882732	44976161	62373379	310	53314										
KLHL28	54813	broad.mit.edu	37	chr14	45400680	45400680	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gacacccacgccaaagtgaaTccttttatctgccatggatg	8	12	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:45400680T>C	uc001wvq.2	-	4	1654	c.1408A>G	c.(1408-1410)ATT>GTT	p.I470V	KLHL28_uc001wvr.2_Missense_Mutation_p.I470V	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	470	Kelch 4.									ovary(1)	1						CCAAAGTGAATCCTTTTATCT	0.403													46	80	---	---	---	---	PASS	C	45400680	C	C	45400680	3	2	149	1	0	0	0	0	1	0	0	0	8382	1435	50	5	315	5	KLHL28	14	45400680	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	424519	45400680	61948860	311	53315										
PTGDR	5729	broad.mit.edu	37	chr14	52735195	52735195	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtgctgtgcaacctcggcgcCatgcgcaacctctatgcgat	11	14	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:52735195C>T	uc001wzq.2	+	1	765	c.663C>T	c.(661-663)GCC>GCT	p.A221A		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	221	Cytoplasmic (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	ACCTCGGCGCCATGCGCAACC	0.701													22	63	---	---	---	---	PASS	T	52735195	T	T	52735195	2	4	149	1	0	0	0	0	0	0	0	1	12741	581	21	3		3	PTGDR	14	52735195	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	7334515	52735195	54614345	312	53316										
PELI2	57161	broad.mit.edu	37	chr14	56746496	56746496	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aggatacggatatgtttcagGtaatatttttcttttttaat	7	3	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:56746496G>T	uc001xch.2	+	3	595	c.309_splice	c.e3+1	p.Q103_splice		NM_021255	NP_067078	Q9HAT8	PELI2_HUMAN	pellino 2						innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1						TATGTTTCAGGTAATATTTTT	0.358													69	132	---	---	---	---	PASS	T	56746496	T	T	56746496	5	4	149	1	0	0	0	0	0	0	1	0	11722	1275	44	3	320	3	PELI2	14	56746496	Splice_Site	SNP	G	TCGA-66-2763-01A-01D-1522-08	4011301	56746496	50603044	313	53317										
FUT8	2530	broad.mit.edu	37	chr14	66096258	66096258	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agtcagacagatggagcaggTgattggcgggaaaaagaggc	17	5	1	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:66096258T>A	uc001xin.2	+	6	1728	c.531T>A	c.(529-531)GGT>GGA	p.G177G	FUT8_uc001xio.2_Silent_p.G177G|FUT8_uc010tsp.1_Silent_p.G14G|FUT8_uc001xir.3_RNA|FUT8_uc001xip.2_Silent_p.G177G|FUT8_uc001xiq.2_Silent_p.G48G	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a	177	Lumenal (Potential).				in utero embryonic development|L-fucose catabolic process|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in Golgi|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	glycoprotein 6-alpha-L-fucosyltransferase activity|SH3 domain binding			ovary(1)	1				all cancers(60;0.00109)|OV - Ovarian serous cystadenocarcinoma(108;0.00242)|BRCA - Breast invasive adenocarcinoma(234;0.0114)		ATGGAGCAGGTGATTGGCGGG	0.418													59	185	---	---	---	---	PASS	A	66096258	A	A	66096258	2	1	149	1	0	0	0	0	0	0	0	1	6110	1683	59	5		5	FUT8	14	66096258	Silent	SNP	T	TCGA-66-2763-01A-01D-1522-08	9349762	66096258	41253282	314	53318										
ZFYVE26	23503	broad.mit.edu	37	chr14	68234442	68234442	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgctcatagtaaaattcactCcgcaccagctcattttcctc	4	14	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:68234442C>A	uc001xka.2	-	31	5908	c.5769G>T	c.(5767-5769)CGG>CGT	p.R1923R	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Silent_p.R1923R	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1923					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		AAAATTCACTCCGCACCAGCT	0.413													69	180	---	---	---	---	PASS	A	68234442	A	A	68234442	2	1	149	1	0	0	0	0	0	0	0	1	17665	842	30	2		2	ZFYVE26	14	68234442	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	2138184	68234442	39115098	315	53319										
ADAM21	8747	broad.mit.edu	37	chr14	70925511	70925511	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acagcagtgtgaacaagacgCctgttgtctgttgaactgca	11	9	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:70925511C>T	uc001xmd.2	+	1	1295	c.1295C>T	c.(1294-1296)GCC>GTC	p.A432V		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	432	Disintegrin.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		GAACAAGACGCCTGTTGTCTG	0.498													47	135	---	---	---	---	PASS	T	70925511	T	T	70925511	3	4	149	1	0	0	0	0	1	0	0	0	243	739	26	3	1297	3	ADAM21	14	70925511	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	2691069	70925511	36424029	316	53320										
DIO2	1734	broad.mit.edu	37	chr14	80669428	80669428	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcttccaccagtttgcggaaGgctggcagctggctcgtgaa	13	11	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:80669428G>T	uc010tvq.1	-	4	828	c.426C>A	c.(424-426)GCC>GCA	p.A142A	DIO2_uc010tvp.1_Silent_p.A178A|DIO2_uc001xut.2_RNA|DIO2_uc010asx.2_3'UTR|DIO2_uc010tvr.1_Silent_p.A142A|DIO2_uc010asy.2_3'UTR	NM_000793	NP_000784	Q92813	IOD2_HUMAN	deiodinase, iodothyronine, type II isoform a	142					hormone biosynthetic process|selenocysteine incorporation|thyroid hormone generation	integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|ubiquitin protein ligase binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0281)		GTTTGCGGAAGGCTGGCAGCT	0.572											OREG0022848	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	47	---	---	---	---	PASS	T	80669428	T	T	80669428	2	4	149	1	0	0	0	0	0	0	0	1	4525	987	35	3		3	DIO2	14	80669428	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	9743917	80669428	26680112	317	53321										
GALC	2581	broad.mit.edu	37	chr14	88452846	88452846	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttcttaccaatgagtgtaatAttgggattcctcttcttagc	7	8	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:88452846A>G	uc001xvt.2	-	4	828	c.429T>C	c.(427-429)AAT>AAC	p.N143N	GALC_uc010tvx.1_Silent_p.N117N|GALC_uc010tvy.1_Silent_p.N120N|GALC_uc010tvz.1_Silent_p.N87N|GALC_uc001xvu.1_Silent_p.N143N	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	143					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0						TGAGTGTAATATTGGGATTCC	0.378													27	62	---	---	---	---	PASS	G	88452846	G	G	88452846	2	3	149	1	0	0	0	0	0	0	0	1	6201	446	16	5		5	GALC	14	88452846	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08	7783418	88452846	18896694	318	53322										
SLC24A4	123041	broad.mit.edu	37	chr14	92959848	92959848	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	catccacctaaacaagtggcGactggaccggaagctgggtg	13	11	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:92959848G>T	uc001yak.2	+	17	1718	c.1694G>T	c.(1693-1695)CGA>CTA	p.R565L	SLC24A4_uc001yai.2_Missense_Mutation_p.R518L|SLC24A4_uc010twm.1_Missense_Mutation_p.R563L|SLC24A4_uc001yaj.2_Missense_Mutation_p.R546L|SLC24A4_uc010auj.2_3'UTR|SLC24A4_uc010twn.1_Missense_Mutation_p.R338L|SLC24A4_uc001yan.2_Missense_Mutation_p.R276L	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	582	Cytoplasmic (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		AACAAGTGGCGACTGGACCGG	0.502													12	43	---	---	---	---	PASS	T	92959848	T	T	92959848	3	4	149	1	0	0	0	0	1	0	0	0	14468	1058	37	2	1760	2	SLC24A4	14	92959848	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	4507002	92959848	14389692	319	53323										
RIN3	79890	broad.mit.edu	37	chr14	93151479	93151479	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tctcaacaaggcccgggcctCccgctcctccgtacaggtga	10	17	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:93151479C>A	uc001yap.2	+	9	2767	c.2615C>A	c.(2614-2616)TCC>TAC	p.S872Y	RIN3_uc010auk.2_Missense_Mutation_p.S534Y|RIN3_uc001yaq.2_Missense_Mutation_p.S797Y|RIN3_uc001yas.1_Missense_Mutation_p.S534Y	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	872					endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				GCCCGGGCCTCCCGCTCCTCC	0.667													12	24	---	---	---	---	PASS	A	93151479	A	A	93151479	3	1	149	1	0	0	0	0	1	0	0	0	13373	855	30	2	2649	2	RIN3	14	93151479	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	191631	93151479	14198061	320	53324										
DIO3	1735	broad.mit.edu	37	chr14	102028707	102028707	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgcgcacttggttggaacgcTatgatgagcaactgcacggc	13	10	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:102028707T>A	uc010txq.1	+	2	1020	c.796T>A	c.(796-798)TAT>AAT	p.Y266N	DIO3OS_uc001ykd.1_5'Flank|uc001yke.2_5'Flank|uc001ykf.2_5'Flank|uc001ykg.2_5'Flank|uc001ykh.3_5'Flank|MIR1247_hsa-mir-1247|MI0006382_5'Flank	NM_001362	NP_001353	P55073	IOD3_HUMAN	deiodinase, iodothyronine, type III	266	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process	endosome membrane|integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|thyroxine 5-deiodinase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(303;0.185)				GTTGGAACGCTATGATGAGCA	0.597													48	131	---	---	---	---	PASS	A	102028707	A	A	102028707	3	1	149	1	0	0	0	0	1	0	0	0	4526	1522	53	5	876	5	DIO3	14	102028707	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	8877228	102028707	5320833	321	53325										
KIF26A	26153	broad.mit.edu	37	chr14	104641889	104641889	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gcaaggccattgtctggggtGaccagagagaggacagcagc	16	9	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:104641889G>A	uc001yos.3	+	12	2764	c.2764G>A	c.(2764-2766)GAC>AAC	p.D922N		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	922					blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		TGTCTGGGGTGACCAGAGAGA	0.682													28	25	---	---	---	---	PASS	A	104641889	A	A	104641889	3	1	149	1	0	0	0	0	1	0	0	0	8294	1290	45	2	2810	2	KIF26A	14	104641889	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	2613182	104641889	2707651	322	53326										
PLD4	122618	broad.mit.edu	37	chr14	105396386	105396386	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	actccaaattctgggttgtgGatggacggcacatatacatg	11	8	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:105396386G>C	uc001ypu.1	+	6	802	c.661G>C	c.(661-663)GAT>CAT	p.D221H	PLD4_uc010tyl.1_Missense_Mutation_p.D228H	NM_138790	NP_620145	Q96BZ4	PLD4_HUMAN	phospholipase D4	221	PLD phosphodiesterase 1.	Potential.			lipid catabolic process	integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity			central_nervous_system(1)|skin(1)	2		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.00067)|OV - Ovarian serous cystadenocarcinoma(23;0.00976)|Epithelial(46;0.0201)|GBM - Glioblastoma multiforme(11;0.116)		Choline(DB00122)	CTGGGTTGTGGATGGACGGCA	0.582													42	144	---	---	---	---	PASS	C	105396386	C	C	105396386	3	2	149	1	0	0	0	0	1	0	0	0	12048	1174	41	2	679	2	PLD4	14	105396386	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	754497	105396386	1953154	323	53327										
AHNAK2	113146	broad.mit.edu	37	chr14	105404734	105404734	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cctgttttttaggcagttctGcctctggtcgtgcctcaggc	11	12	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr14:105404734G>A	uc010axc.1	-	7	17174	c.17054C>T	c.(17053-17055)GCA>GTA	p.A5685V	AHNAK2_uc001ypx.2_Missense_Mutation_p.A5585V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5685						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)			AGGCAGTTCTGCCTCTGGTCG	0.478													49	60	---	---	---	---	PASS	A	105404734	A	A	105404734	3	1	149	1	0	0	0	0	1	0	0	0	415	1319	46	3	337	3	AHNAK2	14	105404734	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	8348	105404734	1944806	324	53328										
ATP10A	57194	broad.mit.edu	37	chr15	25925977	25925977	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccaggttttggtttcaatgcCcaggtggagcaggaaagtga	14	7	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr15:25925977C>A	uc010ayu.2	-	19	3764	c.3658G>T	c.(3658-3660)GGC>TGC	p.G1220C		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1220	Helical; (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GTTTCAATGCCCAGGTGGAGC	0.562													33	183	---	---	---	---	PASS	A	25925977	A	A	25925977	3	1	149	1	0	0	0	0	1	0	0	0	1116	623	22	3	853	3	ATP10A	15	25925977	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08		25925977	76605415	325	53329										
CDAN1	146059	broad.mit.edu	37	chr15	43020159	43020159	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atccaggaccttacctgtgaTgttggctgacagccaagcac	10	12	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr15:43020159T>C	uc001zql.2	-	22	3058	c.2941A>G	c.(2941-2943)ATC>GTC	p.I981V	CDAN1_uc001zqj.2_RNA|CDAN1_uc001zqk.2_Missense_Mutation_p.I307V	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	981						integral to membrane	protein binding			ovary(2)	2		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		TTACCTGTGATGTTGGCTGAC	0.532													236	407	---	---	---	---	PASS	C	43020159	C	C	43020159	3	2	149	1	0	0	0	0	1	0	0	0	3054	1464	51	5	770	5	CDAN1	15	43020159	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	17094182	43020159	59511233	326	53330										
ADAL	161823	broad.mit.edu	37	chr15	43638116	43638116	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aggagactgtaaaacttgccGaggagttcttcctttctact	9	9	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr15:43638116G>T	uc010udo.1	+	9	1064	c.490G>T	c.(490-492)GAG>TAG	p.E164*	ADAL_uc001zrh.2_Nonsense_Mutation_p.E164*|ADAL_uc001zri.1_Nonsense_Mutation_p.E49*	NM_001159280	NP_001152752	Q6DHV7	ADAL_HUMAN	adenosine deaminase-like isoform 1	164					adenosine catabolic process|inosine biosynthetic process|purine ribonucleoside monophosphate biosynthetic process		adenosine deaminase activity|metal ion binding				0		all_cancers(109;7.96e-11)|all_epithelial(112;2.96e-09)|Lung NSC(122;8.91e-07)|all_lung(180;8.8e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;9.31e-07)		AAAACTTGCCGAGGAGTTCTT	0.393													86	178	---	---	---	---	PASS	T	43638116	T	T	43638116	4	4	149	1	0	0	0	0	0	1	0	0	233	1059	37	2	512	2	ADAL	15	43638116	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	617957	43638116	58893276	327	53331										
WDR72	256764	broad.mit.edu	37	chr15	53908408	53908408	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtcttcacaggcaagacattAaaaggtcttgggcaaaattt	9	7	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr15:53908408A>C	uc002acj.2	-	15	2037	c.1995T>G	c.(1993-1995)TTT>TTG	p.F665L	WDR72_uc010bfi.1_Missense_Mutation_p.F665L	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	665										lung(1)|skin(1)	2				all cancers(107;0.0511)		GCAAGACATTAAAAGGTCTTG	0.338													22	87	---	---	---	---	PASS	C	53908408	C	C	53908408	3	2	149	1	0	0	0	0	1	0	0	0	17319	359	13	5	1337	5	WDR72	15	53908408	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	10270292	53908408	48622984	328	53332										
UNC13C	440279	broad.mit.edu	37	chr15	54630612	54630612	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atggtggtgaaggactgtgtAagggcttgcctggattctac	15	6	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr15:54630612A>T	uc002ack.2	+	15	4638	c.4638A>T	c.(4636-4638)GTA>GTT	p.V1546V	UNC13C_uc002acl.2_Silent_p.V376V	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1546					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AGGACTGTGTAAGGGCTTGCC	0.423													40	180	---	---	---	---	PASS	T	54630612	T	T	54630612	2	4	149	1	0	0	0	0	0	0	0	1	16983	349	13	5		5	UNC13C	15	54630612	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08	722204	54630612	47900780	329	53333										
PLEKHO2	80301	broad.mit.edu	37	chr15	65157606	65157606	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	catgggtgagatgcaggcttCtgggccacctgctccaggca	14	12	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr15:65157606C>T	uc002anv.2	+	6	1126	c.992C>T	c.(991-993)TCT>TTT	p.S331F	PLEKHO2_uc010bgz.2_Missense_Mutation_p.S7F|PLEKHO2_uc002anw.2_Missense_Mutation_p.S281F	NM_025201	NP_079477	Q8TD55	PKHO2_HUMAN	pleckstrin homology domain containing, family O	331	Pro-rich.									ovary(1)|lung(1)	2						ATGCAGGCTTCTGGGCCACCT	0.602													25	78	---	---	---	---	PASS	T	65157606	T	T	65157606	3	4	149	1	0	0	0	0	1	0	0	0	12085	913	32	2	1014	2	PLEKHO2	15	65157606	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	10526994	65157606	37373786	330	53334										
HEXA	3073	broad.mit.edu	37	chr15	72643512	72643512	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aaaagtgaagctctcatatgGgaaggaaggatcatctacca	10	7	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr15:72643512G>A	uc002aun.3	-	6	841	c.634C>T	c.(634-636)CCA>TCA	p.P212S	uc002aug.2_RNA|CELF6_uc002auk.3_Intron|HEXA_uc010ukn.1_Missense_Mutation_p.P223S|HEXA_uc002auo.3_Missense_Mutation_p.P75S|HEXA_uc010bix.2_Missense_Mutation_p.P212S|HEXA_uc010biy.2_Missense_Mutation_p.P75S|HEXA_uc010uko.1_Missense_Mutation_p.P38S|HEXA_uc010biz.1_RNA	NM_000520	NP_000511	P06865	HEXA_HUMAN	hexosaminidase A preproprotein	212					cell death	lysosome	beta-N-acetylhexosaminidase activity|cation binding|protein heterodimerization activity			ovary(3)|upper_aerodigestive_tract(1)	4						CTCTCATATGGGAAGGAAGGA	0.458													38	53	---	---	---	---	PASS	A	72643512	A	A	72643512	3	1	149	1	0	0	0	0	1	0	0	0	7073	1232	43	3	991	3	HEXA	15	72643512	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	7485906	72643512	29887880	331	53335										
BBS4	585	broad.mit.edu	37	chr15	72987552	72987552	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgtatctactgagtctcaaaAaccccggcagaaaaaaggtc	8	10	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr15:72987552A>T	uc002avb.2	+	2	102	c.59A>T	c.(58-60)AAA>ATA	p.K20I	BBS4_uc010ukv.1_5'UTR|BBS4_uc002avc.2_Intron|BBS4_uc002avd.2_Missense_Mutation_p.K28I	NM_033028	NP_149017	Q96RK4	BBS4_HUMAN	Bardet-Biedl syndrome 4	20	Required for localization to centrosomes.				adult behavior|brain morphogenesis|cell cycle cytokinesis|centrosome organization|cerebral cortex development|convergent extension involved in gastrulation|dendrite development|fat cell differentiation|heart looping|hippocampus development|intracellular transport|maintenance of protein location in nucleus|melanosome transport|microtubule anchoring at centrosome|neural tube closure|nonmotile primary cilium assembly|photoreceptor cell maintenance|pigment granule aggregation in cell center|positive regulation of flagellum assembly|regulation of cilium beat frequency involved in ciliary motility|regulation of cytokinesis|regulation of lipid metabolic process|retina homeostasis|retinal rod cell development|sensory perception of smell|sensory processing|spermatid development|striatum development	BBSome|centriolar satellite|centriole|cilium membrane|microtubule basal body|motile cilium|nonmotile primary cilium|nucleus|pericentriolar material	alpha-tubulin binding|beta-tubulin binding|dynactin binding|microtubule motor activity				0						GAGTCTCAAAAACCCCGGCAG	0.303									Bardet-Biedl_syndrome				32	116	---	---	---	---	PASS	T	72987552	T	T	72987552	3	4	149	1	0	0	0	0	1	0	0	0	1339	14	1	5	65	5	BBS4	15	72987552	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	344040	72987552	29543840	332	53336										
CYP1A1	1543	broad.mit.edu	37	chr15	75014915	75014915	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caggccctgccatcagctccTgcaacgtgcttatcaggacc	9	16	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr15:75014915T>G	uc002ayp.3	-	2	646	c.524A>C	c.(523-525)CAG>CCG	p.Q175P	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Intron|CYP1A1_uc010bjx.2_Intron|CYP1A1_uc002ayq.3_Missense_Mutation_p.Q175P|CYP1A1_uc010bjy.2_Missense_Mutation_p.Q175P|CYP1A1_uc010bjz.1_Intron	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	175					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	CATCAGCTCCTGCAACGTGCT	0.542									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				41	131	---	---	---	---	PASS	G	75014915	G	G	75014915	3	3	149	1	0	0	0	0	1	0	0	0	4149	1580	55	5	1038	5	CYP1A1	15	75014915	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	2027363	75014915	27516477	333	53337										
FBXO22	26263	broad.mit.edu	37	chr15	76225331	76225331	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggagaaattggatgtgatcGgatagtcactgggaacttta	13	4	1	2	rs141220458		TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr15:76225331G>T	uc002bbk.2	+	7	1205	c.1100G>T	c.(1099-1101)CGG>CTG	p.R367L	FBXO22_uc002bbl.2_Missense_Mutation_p.R263L|FBXO22OS_uc002bbm.1_RNA	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	367					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0						GGATGTGATCGGATAGTCACT	0.388													86	140	---	---	---	---	PASS	T	76225331	T	T	76225331	3	4	149	1	0	0	0	0	1	0	0	0	5734	1116	39	1	1163	1	FBXO22	15	76225331	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1210416	76225331	26306061	334	53338										
ZFAND6	54469	broad.mit.edu	37	chr15	80423618	80423618	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcgctgtttcatgtgcaggaAgaaagtgggacttactggta	13	6	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr15:80423618A>G	uc002bfe.1	+	6	772	c.461A>G	c.(460-462)AAG>AGG	p.K154R	ZFAND6_uc002bff.1_Missense_Mutation_p.K154R|ZFAND6_uc002bfg.1_Missense_Mutation_p.K142R|ZFAND6_uc002bfh.1_Missense_Mutation_p.K154R|ZFAND6_uc002bfi.1_Missense_Mutation_p.K154R	NM_019006	NP_061879	Q6FIF0	ZFAN6_HUMAN	zinc finger, AN1-type domain 6	154	AN1-type.						DNA binding|zinc ion binding				0						ATGTGCAGGAAGAAAGTGGGA	0.348													26	101	---	---	---	---	PASS	G	80423618	G	G	80423618	3	3	149	1	0	0	0	0	1	0	0	0	17628	72	3	5	475	5	ZFAND6	15	80423618	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	4198287	80423618	22107774	335	53339										
AKAP13	11214	broad.mit.edu	37	chr15	86122469	86122469	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagccagcacctattgtggaCtctggaactgtatctgatca	10	10	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr15:86122469C>T	uc002blv.1	+	7	1340	c.1170C>T	c.(1168-1170)GAC>GAT	p.D390D	AKAP13_uc002blt.1_Silent_p.D390D|AKAP13_uc002blu.1_Silent_p.D390D	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	390					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CTATTGTGGACTCTGGAACTG	0.483													16	199	---	---	---	---	PASS	T	86122469	T	T	86122469	2	4	149	1	0	0	0	0	0	0	0	1	449	564	20	3		3	AKAP13	15	86122469	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	5698851	86122469	16408923	336	53340										
FLYWCH1	84256	broad.mit.edu	37	chr16	2983294	2983294	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agccgggccatcacccagggAcagcgggtgactgtgatgcg	16	12	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr16:2983294A>G	uc002csd.2	+	5	1323	c.960A>G	c.(958-960)GGA>GGG	p.G320G	FLYWCH1_uc002csb.2_Silent_p.G319G|FLYWCH1_uc002csc.2_Silent_p.G319G|FLYWCH1_uc010bsv.2_5'UTR	NM_032296	NP_115672	Q4VC44	FWCH1_HUMAN	FLYWCH-type zinc finger 1 isoform a	320	FLYWCH-type 2.					nucleus	DNA binding|metal ion binding				0						TCACCCAGGGACAGCGGGTGA	0.682													7	6	---	---	---	---	PASS	G	2983294	G	G	2983294	2	3	149	1	0	0	0	0	0	0	0	1	5947	262	10	5		5	FLYWCH1	16	2983294	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08		2983294	87371459	337	53341										
ACSM2A	123876	broad.mit.edu	37	chr16	20471590	20471590	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	actttgctagtgatgtgttgGatcactgggctgacatggag	14	6	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr16:20471590G>T	uc010bwe.2	+	3	393	c.154G>T	c.(154-156)GAT>TAT	p.D52Y	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Intron|ACSM2A_uc002dhf.3_Missense_Mutation_p.D52Y|ACSM2A_uc002dhg.3_Missense_Mutation_p.D52Y|ACSM2A_uc010vay.1_Intron	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	52					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						TGATGTGTTGGATCACTGGGC	0.433													33	69	---	---	---	---	PASS	T	20471590	T	T	20471590	3	4	149	1	0	0	0	0	1	0	0	0	183	1174	41	2	156	2	ACSM2A	16	20471590	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	17488296	20471590	69883163	338	53342										
PRKCB	5579	broad.mit.edu	37	chr16	24104168	24104168	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atggcctgtcagatccctacGtaaaactgaaactgattccc	7	12	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr16:24104168G>T	uc002dmd.2	+	6	783	c.586G>T	c.(586-588)GTA>TTA	p.V196L	PRKCB_uc002dme.2_Missense_Mutation_p.V196L	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	196	C2.				apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	AGATCCCTACGTAAAACTGAA	0.408													123	239	---	---	---	---	PASS	T	24104168	T	T	24104168	3	4	149	1	0	0	0	0	1	0	0	0	12508	1145	40	1	608	1	PRKCB	16	24104168	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3632578	24104168	66250585	339	53343										
SLC5A11	115584	broad.mit.edu	37	chr16	24895427	24895427	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cagacgctgatcatgcttatAggagcgctcaccttgatggg	12	10	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr16:24895427A>T	uc002dmu.2	+	8	871	c.639A>T	c.(637-639)ATA>ATT	p.I213I	SLC5A11_uc002dms.2_Silent_p.I149I|SLC5A11_uc010vcd.1_Silent_p.I178I|SLC5A11_uc002dmt.2_Silent_p.I149I|SLC5A11_uc010vce.1_Silent_p.I143I|SLC5A11_uc010bxt.2_Silent_p.I149I	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	213	Helical; (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		TCATGCTTATAGGAGCGCTCA	0.592													169	328	---	---	---	---	PASS	T	24895427	T	T	24895427	2	4	149	1	0	0	0	0	0	0	0	1	14663	410	15	5		5	SLC5A11	16	24895427	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08	791259	24895427	65459326	340	53344										
SLC5A11	115584	broad.mit.edu	37	chr16	24902199	24902199	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctgaattctaggttttgccgCggttggtgggatggaaggac	16	6	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr16:24902199C>T	uc002dmu.2	+	9	906	c.674C>T	c.(673-675)GCG>GTG	p.A225V	SLC5A11_uc002dms.2_Missense_Mutation_p.A161V|SLC5A11_uc010vcd.1_Missense_Mutation_p.A190V|SLC5A11_uc002dmt.2_Intron|SLC5A11_uc010vce.1_Missense_Mutation_p.A155V|SLC5A11_uc010bxt.2_Missense_Mutation_p.A161V	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	225	Helical; (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		GGTTTTGCCGCGGTTGGTGGG	0.537													15	376	---	---	---	---	PASS	T	24902199	T	T	24902199	3	4	149	1	0	0	0	0	1	0	0	0	14663	768	27	1	704	1	SLC5A11	16	24902199	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	6772	24902199	65452554	341	53345										
TRIM72	493829	broad.mit.edu	37	chr16	31235576	31235576	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cttcctctggccgccgcgtgGagtgctcggagcagaaggcg	16	13	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr16:31235576G>A	uc002ebn.1	+	7	1163	c.934G>A	c.(934-936)GAG>AAG	p.E312K	uc002ebp.1_5'Flank	NM_001008274	NP_001008275	Q6ZMU5	TRI72_HUMAN	tripartite motif-containing 72	312	B30.2/SPRY.				exocytosis|muscle organ development|muscle system process|plasma membrane repair|protein homooligomerization	cytoplasmic vesicle membrane|sarcolemma	phosphatidylserine binding|zinc ion binding				0						CCGCCGCGTGGAGTGCTCGGA	0.692													6	32	---	---	---	---	PASS	A	31235576	A	A	31235576	3	1	149	1	0	0	0	0	1	0	0	0	16542	1175	41	2	956	2	TRIM72	16	31235576	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	6333377	31235576	59119177	342	53346										
CES1	1066	broad.mit.edu	37	chr16	55844487	55844487	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aacatcacatctgctatcaaGtccaggaacaggtctttctt	6	11	5	0	rs139540470		TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr16:55844487G>T	uc002eim.2	-	11	1365	c.1257C>A	c.(1255-1257)GAC>GAA	p.D419E	CES1_uc010ccf.2_Missense_Mutation_p.D94E|CES1_uc002eil.2_Missense_Mutation_p.D420E|CES1_uc002ein.2_Missense_Mutation_p.D418E	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	419					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	CTGCTATCAAGTCCAGGAACA	0.488													80	255	---	---	---	---	PASS	T	55844487	T	T	55844487	3	4	149	1	0	0	0	0	1	0	0	0	3269	1020	36	3	462	3	CES1	16	55844487	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	24608911	55844487	34510266	343	53347										
PSKH1	5681	broad.mit.edu	37	chr16	67943500	67943500	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctcagtggacatgtgggcgcTgggcgtcattgcctacatcc	13	12	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr16:67943500T>G	uc002euv.2	+	2	1018	c.848T>G	c.(847-849)CTG>CGG	p.L283R	PSKH1_uc010cet.2_Missense_Mutation_p.L283R	NM_006742	NP_006733	P11801	KPSH1_HUMAN	protein serine kinase H1	283	Protein kinase.					endoplasmic reticulum membrane|Golgi apparatus|microtubule organizing center|nuclear speck|plasma membrane	ATP binding|protein serine/threonine kinase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0044)|Epithelial(162;0.0197)|all cancers(182;0.128)		ATGTGGGCGCTGGGCGTCATT	0.567													31	29	---	---	---	---	PASS	G	67943500	G	G	67943500	3	3	149	1	0	0	0	0	1	0	0	0	12664	1580	55	5	850	5	PSKH1	16	67943500	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	12099013	67943500	22411253	344	53348										
HYDIN	54768	broad.mit.edu	37	chr16	70934960	70934960	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cttggtgggctgaaagtacaGgtgcaggccgtactcagcct	14	10	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr16:70934960G>A	uc002ezr.2	-	53	9120	c.8992C>T	c.(8992-8994)CTG>TTG	p.L2998L		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	2999										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TGAAAGTACAGGTGCAGGCCG	0.532													24	227	---	---	---	---	PASS	A	70934960	A	A	70934960	2	1	149	1	0	0	0	0	0	0	0	1	7467	991	35	3		3	HYDIN	16	70934960	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	2991460	70934960	19419793	345	53349										
PSMD7	5713	broad.mit.edu	37	chr16	74338292	74338292	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggagttgaacacttgttacGgtgagaccctagtacagcat	11	8	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr16:74338292G>A	uc002fcq.2	+	6	662	c.530G>A	c.(529-531)CGA>CAA	p.R177Q	PSMD7_uc010vmr.1_Missense_Mutation_p.R100Q	NM_002811	NP_002802	P51665	PSD7_HUMAN	proteasome 26S non-ATPase subunit 7	177					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding				0						CACTTGTTACGGTGAGACCCT	0.418													4	96	---	---	---	---	PASS	A	74338292	A	A	74338292	3	1	149	1	0	0	0	0	1	0	0	0	12703	1130	39	1	552	1	PSMD7	16	74338292	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3403332	74338292	16016461	346	53350										
DPEP1	1800	broad.mit.edu	37	chr16	89702443	89702443	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgagggccggctttgtgggaGgccaggtaccgcctgccctg	17	12	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr16:89702443G>T	uc010cin.2	+	3	435	c.232G>T	c.(232-234)GGC>TGC	p.G78C	DPEP1_uc002fnr.3_Missense_Mutation_p.G78C|DPEP1_uc002fns.3_Missense_Mutation_p.G78C	NM_001128141	NP_001121613	P16444	DPEP1_HUMAN	dipeptidase 1 precursor	78					proteolysis	anchored to membrane|apical plasma membrane|microvillus membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity|protein binding			large_intestine(1)	1		all_lung(18;0.0054)|all_hematologic(23;0.094)		BRCA - Breast invasive adenocarcinoma(80;0.0258)	Cilastatin(DB01597)	CTTTGTGGGAGGCCAGGTACC	0.627													7	7	---	---	---	---	PASS	T	89702443	T	T	89702443	3	4	149	1	0	0	0	0	1	0	0	0	4713	1000	35	3	238	3	DPEP1	16	89702443	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	15364151	89702443	652310	347	53351										
SCARF1	8578	broad.mit.edu	37	chr17	1538212	1538212	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cggtgccagcccccagccccCggaccgcttcctctggtctg	11	20	2	0	rs149977313		TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:1538212C>A	uc002fsz.1	-	11	2383	c.2333G>T	c.(2332-2334)CGG>CTG	p.R778L	SCARF1_uc002fsy.1_3'UTR|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Missense_Mutation_p.R692L	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	778	Gly-rich.|Cytoplasmic (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CCCCAGCCCCCGGACCGCTTC	0.647													41	34	---	---	---	---	PASS	A	1538212	A	A	1538212	3	1	149	1	0	0	0	0	1	0	0	0	13883	652	23	1	163	1	SCARF1	17	1538212	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08		1538212	79656998	348	53352										
MYBBP1A	10514	broad.mit.edu	37	chr17	4443135	4443135	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atcctccgctggcgtgccatCctctgacttgcgtttcttgc	9	15	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:4443135C>A	uc002fyb.3	-	26	3624	c.3562G>T	c.(3562-3564)GAT>TAT	p.D1188Y	MYBBP1A_uc002fxz.3_Missense_Mutation_p.D1188Y|SPNS2_uc002fxx.2_3'UTR|SPNS2_uc002fxy.2_3'UTR|MYBBP1A_uc002fya.3_Missense_Mutation_p.D133Y|MYBBP1A_uc010vsa.1_Missense_Mutation_p.D230Y	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	1188	Required for nuclear and nucleolar localization (By similarity).				nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						GGCGTGCCATCCTCTGACTTG	0.597													93	84	---	---	---	---	PASS	A	4443135	A	A	4443135	3	1	149	1	0	0	0	0	1	0	0	0	10008	855	30	2	468	2	MYBBP1A	17	4443135	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	2904923	4443135	76752075	349	53353										
SLC25A11	8402	broad.mit.edu	37	chr17	4843194	4843194	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccgccggccccggcactcgcCgtcgccgccatcgccactca	10	23	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:4843194C>A	uc002fzo.1	-	1	125	c.12G>T	c.(10-12)ACG>ACT	p.T4T	SLC25A11_uc002fzp.1_5'UTR|RNF167_uc002fzq.2_5'Flank|RNF167_uc002fzr.2_5'Flank|RNF167_uc002fzs.2_5'Flank|RNF167_uc002fzt.2_5'Flank|RNF167_uc002fzu.2_5'Flank|RNF167_uc002fzv.2_5'Flank|RNF167_uc002fzw.1_5'Flank|RNF167_uc002fzx.2_5'Flank	NM_003562	NP_003553	Q02978	M2OM_HUMAN	solute carrier family 25 member 11 isoform 1	4					gluconeogenesis	integral to plasma membrane|mitochondrial inner membrane	oxoglutarate:malate antiporter activity				0						CGGCACTCGCCGTCGCCGCCA	0.731													3	3	---	---	---	---	PASS	A	4843194	A	A	4843194	2	1	149	1	0	0	0	0	0	0	0	1	14473	639	23	1		1	SLC25A11	17	4843194	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	400059	4843194	76352016	350	53354										
TP53	7157	broad.mit.edu	37	chr17	7577106	7577106	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgtgcgccggtctctcccagGacaggcacaaacacgcacct	10	16	1	0	rs17849781		TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:7577106G>C	uc002gim.2	-	8	1026	c.832C>G	c.(832-834)CCT>GCT	p.P278A	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.P278A|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.P146A|TP53_uc010cng.1_Missense_Mutation_p.P146A|TP53_uc002gii.1_Missense_Mutation_p.P146A|TP53_uc010cnh.1_Missense_Mutation_p.P278A|TP53_uc010cni.1_Missense_Mutation_p.P278A|TP53_uc002gij.2_Missense_Mutation_p.P278A	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	278	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|P -> S (in LFS; germline mutation and in sporadic cancers; somatic mutation).|P -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|P -> H (in sporadic cancers; somatic mutation).|P -> R (in sporadic cancers; somatic mutation).|P -> T (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P278L(52)|p.P278S(48)|p.P278R(26)|p.P278T(21)|p.P278A(18)|p.P278H(11)|p.0?(7)|p.P278fs*67(5)|p.P278F(3)|p.P278fs*28(2)|p.?(2)|p.A276_R283delACPGRDRR(1)|p.A276fs*64(1)|p.V274_P278del(1)|p.P278P(1)|p.C277_P278insXXXXXXX(1)|p.F270_D281del12(1)|p.P278_G279insXXXXX(1)|p.C275_R283delCACPGRDRR(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.C275fs*67(1)|p.V272_K292del21(1)|p.C275fs*20(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)		TCTCTCCCAGGACAGGCACAA	0.552		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)			31	32	---	---	---	---	PASS	C	7577106	C	C	7577106	3	2	149	1	0	0	0	0	1	0	0	0	16378	1174	41	2	454	2	TP53	17	7577106	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	2733912	7577106	73618104	351	53355										
CNTROB	116840	broad.mit.edu	37	chr17	7851284	7851284	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aacccttctgtcgacctgttGccccctaagtctggtgagtt	9	13	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:7851284G>C	uc002gjq.2	+	16	3115	c.2196G>C	c.(2194-2196)TTG>TTC	p.L732F	CNTROB_uc002gjp.2_Missense_Mutation_p.L732F|CNTROB_uc002gjr.2_Missense_Mutation_p.L634F	NM_053051	NP_444279	Q8N137	CNTRB_HUMAN	centrobin, centrosomal BRCA2 interacting protein	732	Pro-rich.|Required for centrosome localization.				centriole replication|centrosome separation|cytokinesis	centriole	protein domain specific binding			breast(1)|central_nervous_system(1)	2		Prostate(122;0.173)				TCGACCTGTTGCCCCCTAAGT	0.488													177	171	---	---	---	---	PASS	C	7851284	C	C	7851284	3	2	149	1	0	0	0	0	1	0	0	0	3651	1310	46	4	2254	4	CNTROB	17	7851284	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	274178	7851284	73343926	352	53356										
ARHGEF15	22899	broad.mit.edu	37	chr17	8221893	8221893	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gctccccttacctagatcatCgagcgttgcagcgctgaggt	11	13	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:8221893C>A	uc002glc.2	+	11	1906	c.1785C>A	c.(1783-1785)ATC>ATA	p.I595I	ARHGEF15_uc002gld.2_Silent_p.I595I|ARHGEF15_uc010vuw.1_Silent_p.I484I	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	595	DH.				negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CCTAGATCATCGAGCGTTGCA	0.597													35	38	---	---	---	---	PASS	A	8221893	A	A	8221893	2	1	149	1	0	0	0	0	0	0	0	1	898	874	31	2		2	ARHGEF15	17	8221893	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	370609	8221893	72973317	353	53357										
FLCN	201163	broad.mit.edu	37	chr17	17129541	17129541	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cggacaatgctgaagagctgGgggtggctggggtgctggtg	21	6	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:17129541G>C	uc002gra.3	-	5	849	c.345C>G	c.(343-345)CCC>CCG	p.P115P	PLD6_uc010cpn.2_Intron|FLCN_uc002grb.3_Silent_p.P115P|FLCN_uc002grc.2_Silent_p.P115P	NM_144997	NP_659434	Q8NFG4	FLCN_HUMAN	folliculin isoform 1	115					regulation of protein phosphorylation	cytoplasm|nucleus|plasma membrane	protein binding			thyroid(1)|haematopoietic_and_lymphoid_tissue(1)|lung(1)	3						TGAAGAGCTGGGGGTGGCTGG	0.607									Birt-Hogg-Dub__syndrome|Familial_Non-VHL_Clear_Cell_Renal_Cancer				24	38	---	---	---	---	PASS	C	17129541	C	C	17129541	2	2	149	1	0	0	0	0	0	0	0	1	5921	1219	43	4		4	FLCN	17	17129541	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	8907648	17129541	64065669	354	53358										
TRAF4	9618	broad.mit.edu	37	chr17	27076391	27076391	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gggctggctaaaccacagcaCgtcactgagaccttccaccc	9	16	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:27076391C>T	uc002hcs.2	+	7	1317	c.1209C>T	c.(1207-1209)CAC>CAT	p.H403H	TRAF4_uc002hcq.1_Intron	NM_004295	NP_004286	Q9BUZ4	TRAF4_HUMAN	TNF receptor-associated factor 4	403	MATH.				apoptosis|positive regulation of JNK cascade|positive regulation of protein homodimerization activity|positive regulation of protein kinase activity|regulation of apoptosis|signal transduction	cytoskeleton|nucleus|perinuclear region of cytoplasm|tight junction	DNA binding|ubiquitin-protein ligase activity|WW domain binding|zinc ion binding			upper_aerodigestive_tract(1)|lung(1)	2	Lung NSC(42;0.01)		Epithelial(11;3.26e-05)|all cancers(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.235)			AACCACAGCACGTCACTGAGA	0.587													12	63	---	---	---	---	PASS	T	27076391	T	T	27076391	2	4	149	1	0	0	0	0	0	0	0	1	16440	535	19	1		1	TRAF4	17	27076391	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	9946850	27076391	54118819	355	53359										
MYO18A	399687	broad.mit.edu	37	chr17	27425444	27425444	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccgccttctcgagcttgctcCgcagctgctggatctcctcc	9	18	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:27425444C>G	uc002hdt.1	-	24	3958	c.3800G>C	c.(3799-3801)CGG>CCG	p.R1267P	MYO18A_uc010wbc.1_Missense_Mutation_p.R809P|MYO18A_uc002hds.2_Missense_Mutation_p.R809P|MYO18A_uc010csa.1_Missense_Mutation_p.R1267P|MYO18A_uc002hdu.1_Missense_Mutation_p.R1267P|MYO18A_uc010wbd.1_Missense_Mutation_p.R936P	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	1267	Potential.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			GAGCTTGCTCCGCAGCTGCTG	0.627													21	21	---	---	---	---	PASS	G	27425444	G	G	27425444	3	3	149	1	0	0	0	0	1	0	0	0	10065	652	23	4	2440	4	MYO18A	17	27425444	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	349053	27425444	53769766	356	53360										
TMIGD1	388364	broad.mit.edu	37	chr17	28656433	28656433	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcccctcctctcggtaccagAgcagttcttcctctctggtg	8	16	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:28656433A>G	uc002hfa.1	-	3	270	c.197T>C	c.(196-198)CTC>CCC	p.L66P	TMIGD1_uc010csh.1_Missense_Mutation_p.L66P	NM_206832	NP_996663	Q6UXZ0	TMIG1_HUMAN	transmembrane and immunoglobulin domain	66	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane					0						TCGGTACCAGAGCAGTTCTTC	0.448													67	103	---	---	---	---	PASS	G	28656433	G	G	28656433	3	3	149	1	0	0	0	0	1	0	0	0	16227	304	11	5	611	5	TMIGD1	17	28656433	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	1230989	28656433	52538777	357	53361										
SP2	6668	broad.mit.edu	37	chr17	46005109	46005109	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggggacaaacgcttcgagtgCgcccagtgtcagaagcgctt	14	11	1	1	rs75562971	byFrequency	TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:46005109C>T	uc002imk.2	+	7	1898	c.1761C>T	c.(1759-1761)TGC>TGT	p.C587C	SP2_uc002iml.2_Silent_p.C580C	NM_003110	NP_003101	Q02086	SP2_HUMAN	Sp2 transcription factor	587	C2H2-type 3.				immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|histone deacetylase binding|zinc ion binding				0						GCTTCGAGTGCGCCCAGTGTC	0.587													2	3	---	---	---	---	PASS	T	46005109	T	T	46005109	2	4	149	1	0	0	0	0	0	0	0	1	14964	776	27	1		1	SP2	17	46005109	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	17348676	46005109	35190101	358	53362										
FAM117A	81558	broad.mit.edu	37	chr17	47809948	47809948	+	Frame_Shift_Del	DEL	C	-	-													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	attggtgcagcaggtgaaggCcccatcagcatctcgtggcc							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:47809948delC	uc002ipk.2	-	2	400	c.331delG	c.(331-333)GCCfs	p.A111fs	FAM117A_uc010wlz.1_5'UTR	NM_030802	NP_110429	Q9C073	F117A_HUMAN	family with sequence similarity 117, member A	111										ovary(1)	1						CAGGTGAAGGCCCCATCAGCA	0.592													27	37	---	---	---	---		-	47809948	-	-	47809948	7	5	149	1	0	1	0	1	0	0	0	0	5409	739	26	0	1058	0	FAM117A	17	47809948	Frame_Shift_Del	DEL	C	TCGA-66-2763-01A-01D-1522-08	1804839	47809948	33385262	359	53363										
LRRC37A3	374819	broad.mit.edu	37	chr17	62856503	62856503	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggctggaggtagaaggcgcgCccttggagaagggtttcagc	18	8	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:62856503C>G	uc002jey.2	-	11	4292	c.3761G>C	c.(3760-3762)GGC>GCC	p.G1254A	LRRC37A3_uc010wqg.1_Missense_Mutation_p.G372A|LRRC37A3_uc002jex.1_Missense_Mutation_p.G231A|LRRC37A3_uc010wqf.1_Missense_Mutation_p.G292A|LRRC37A3_uc010dek.1_Missense_Mutation_p.G260A	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1254	Extracellular (Potential).					integral to membrane					0						AGAAGGCGCGCCCTTGGAGAA	0.532													107	58	---	---	---	---	PASS	G	62856503	G	G	62856503	3	3	149	1	0	0	0	0	1	0	0	0	8993	739	26	4	1159	4	LRRC37A3	17	62856503	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	15046555	62856503	18338707	360	53364										
ABCA9	10350	broad.mit.edu	37	chr17	67041417	67041417	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgactctcactgcgtctattGaatagttcaaatccaattca	5	10	4	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:67041417G>C	uc002jhu.2	-	4	508	c.365C>G	c.(364-366)TCA>TGA	p.S122*	ABCA9_uc010dez.2_Nonsense_Mutation_p.S122*|ABCA9_uc002jhv.2_Nonsense_Mutation_p.S122*	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	122					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					TGCGTCTATTGAATAGTTCAA	0.393													133	80	---	---	---	---	PASS	C	67041417	C	C	67041417	4	2	149	1	0	0	0	0	0	1	0	0	39	1294	45	2	4653	2	ABCA9	17	67041417	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	4184914	67041417	14153793	361	53365										
ABCA6	23460	broad.mit.edu	37	chr17	67132311	67132311	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agagaaagtttcattaaagaTgattcccatagcatatggta	8	5	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:67132311T>C	uc002jhw.1	-	4	557	c.382A>G	c.(382-384)ATC>GTC	p.I128V	ABCA6_uc002jhy.2_Missense_Mutation_p.I126V	NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	128					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					TCATTAAAGATGATTCCCATA	0.333													41	24	---	---	---	---	PASS	C	67132311	C	C	67132311	3	2	149	1	0	0	0	0	1	0	0	0	36	1464	51	5	4615	5	ABCA6	17	67132311	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	90894	67132311	14062899	362	53366										
ABCA5	23461	broad.mit.edu	37	chr17	67273892	67273892	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctcactagagcagccttggtTtcagaaagaataagtaagct	9	8	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:67273892T>A	uc002jif.2	-	18	3702	c.2484A>T	c.(2482-2484)GAA>GAT	p.E828D	ABCA5_uc002jic.2_Missense_Mutation_p.E51D|ABCA5_uc002jid.2_5'UTR|ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.E828D|ABCA5_uc002jih.2_Missense_Mutation_p.E828D|ABCA5_uc010dfe.2_Missense_Mutation_p.E828D	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	828					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					CAGCCTTGGTTTCAGAAAGAA	0.368													80	55	---	---	---	---	PASS	A	67273892	A	A	67273892	3	1	149	1	0	0	0	0	1	0	0	0	35	1838	64	5	2528	5	ABCA5	17	67273892	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	141581	67273892	13921318	363	53367										
TRIM47	91107	broad.mit.edu	37	chr17	73870924	73870924	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccattccactgcaggcagcaGgagtgggcgttgcggcccag	15	13	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr17:73870924G>A	uc002jpw.2	-	6	1584	c.1557C>T	c.(1555-1557)TCC>TCT	p.S519S	TRIM47_uc002jpv.2_Silent_p.S281S	NM_033452	NP_258411	Q96LD4	TRI47_HUMAN	tripartite motif-containing 47	519	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|prostate(1)|lung(1)|breast(1)	5			Epithelial(20;4.23e-06)|all cancers(21;5.24e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCAGGCAGCAGGAGTGGGCGT	0.662													82	44	---	---	---	---	PASS	A	73870924	A	A	73870924	2	1	149	1	0	0	0	0	0	0	0	1	16519	987	35	3		3	TRIM47	17	73870924	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	6597032	73870924	7324286	364	53368										
POTEC	388468	broad.mit.edu	37	chr18	14537863	14537864	+	Frame_Shift_Ins	INS	-	T	T													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggccattaatttatcttcaINSttgtggacagcatagtgtag							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr18:14537863_14537864insT	uc010dln.2	-	3	1200_1201	c.746_747insA	c.(745-747)AATfs	p.N249fs	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	249	ANK 4.									skin(3)	3						ATTTATCTTCATTGTGGACAGC	0.356													128	62	---	---	---	---		T	14537864	T	T	14537863	7	5	149	1	0	1	1	0	0	0	0	0	12262	214	8	0	917	0	POTEC	18	14537863	Frame_Shift_Ins	INS	-	TCGA-66-2763-01A-01D-1522-08		14537863	63539385	365	53369										
DSC2	1824	broad.mit.edu	37	chr18	28666569	28666569	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agctgagatgatgttgtggtGatcacgcctgtagttggatg	15	5	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr18:28666569G>T	uc002kwl.3	-	7	1366	c.912C>A	c.(910-912)ATC>ATA	p.I304I	DSC2_uc002kwk.3_Silent_p.I304I	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	304	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			ATGTTGTGGTGATCACGCCTG	0.448													85	111	---	---	---	---	PASS	T	28666569	T	T	28666569	2	4	149	1	0	0	0	0	0	0	0	1	4766	1280	45	2		2	DSC2	18	28666569	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	14128706	28666569	49410679	366	53370										
ASXL3	80816	broad.mit.edu	37	chr18	31323717	31323717	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tataccaaaatgtattgaaaGcactcccatttcagccacta	4	11	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr18:31323717G>T	uc010dmg.1	+	12	3960	c.3905G>T	c.(3904-3906)AGC>ATC	p.S1302I	ASXL3_uc002kxq.2_Missense_Mutation_p.S1009I	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1302	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TGTATTGAAAGCACTCCCATT	0.408													56	89	---	---	---	---	PASS	T	31323717	T	T	31323717	3	4	149	1	0	0	0	0	1	0	0	0	1068	971	34	3	3951	3	ASXL3	18	31323717	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	2657148	31323717	46753531	367	53371										
AZU1	566	broad.mit.edu	37	chr19	828343	828343	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tctgcgggggtgccctgatcCatgcccgcttcgtgatgacc	13	14	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:828343C>T	uc002lpz.1	+	2	188	c.172C>T	c.(172-174)CAT>TAT	p.H58Y		NM_001700	NP_001691	P20160	CAP7_HUMAN	azurocidin 1 preproprotein	58	Peptidase S1.|Hydrophobic.|Possesses antibiotic activity.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|cellular extravasation|defense response to Gram-negative bacterium|glial cell migration|induction of positive chemotaxis|inflammatory response|macrophage chemotaxis|microglial cell activation|monocyte activation|positive regulation of cell adhesion|positive regulation of fractalkine biosynthetic process|positive regulation of interleukin-1 beta biosynthetic process|positive regulation of MHC class II biosynthetic process|positive regulation of phagocytosis|positive regulation of tumor necrosis factor biosynthetic process|proteolysis|regulation of vascular permeability	azurophil granule|extracellular region	heparin binding|serine-type endopeptidase activity|toxin binding			pancreas(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGCCCTGATCCATGCCCGCTT	0.657													48	91	---	---	---	---	PASS	T	828343	T	T	828343	3	4	149	1	0	0	0	0	1	0	0	0	1243	594	21	3	178	3	AZU1	19	828343	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08		828343	58300640	368	53372										
ABCA7	10347	broad.mit.edu	37	chr19	1047508	1047514	+	Frame_Shift_Del	DEL	GGAGCAG	-	-													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagagcctggctctgctggaGgagcagggcgagggcgcgca							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:1047508_1047514delGGAGCAG	uc002lqw.3	+	16	2355_2361	c.2124_2130delGGAGCAG	c.(2122-2130)GAGGAGCAGfs	p.E708fs	ABCA7_uc010dsb.1_Frame_Shift_Del_p.E570fs	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	708_710					phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCTGCTGGAGGAGCAGGGCGAGGGCG	0.715													6	6	---	---	---	---		-	1047514	-	-	1047508	7	5	149	1	0	1	0	1	0	0	0	0	37	991	35	0	2182	0	ABCA7	19	1047508	Frame_Shift_Del	DEL	GGAGCAG	TCGA-66-2763-01A-01D-1522-08	219165	1047508	58081475	369	53373										
ABCA7	10347	broad.mit.edu	37	chr19	1056969	1056969	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tttgccatgtcctttgtcccGgccagcttcactcttgtcct	7	15	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:1056969G>A	uc002lqw.3	+	34	4881	c.4650G>A	c.(4648-4650)CCG>CCA	p.P1550P	ABCA7_uc002lqy.2_Silent_p.P21P|ABCA7_uc010dsc.2_5'Flank	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	1550	Helical; (Potential).				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTTTGTCCCGGCCAGCTTCA	0.597													6	179	---	---	---	---	PASS	A	1056969	A	A	1056969	2	1	149	1	0	0	0	0	0	0	0	1	37	1103	39	1		1	ABCA7	19	1056969	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	9461	1056969	58072014	370	53374										
C19orf35	374872	broad.mit.edu	37	chr19	2279031	2279031	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcttgggcaggggtgggggcAggggctctgggttggtggag	24	5	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:2279031A>G	uc002lvn.2	-	3	264	c.164T>C	c.(163-165)CTG>CCG	p.L55P	SPPL2B_uc010dsw.1_Intron	NM_198532	NP_940934	Q6ZS72	CS035_HUMAN	hypothetical protein LOC374872	55										pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGTGGGGGCAGGGGCTCTGG	0.677													3	12	---	---	---	---	PASS	G	2279031	G	G	2279031	3	3	149	1	0	0	0	0	1	0	0	0	1920	188	7	5	1265	5	C19orf35	19	2279031	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	1222062	2279031	56849952	371	53375										
MYO1F	4542	broad.mit.edu	37	chr19	8595448	8595448	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcgctctcgcacctcctccaGgaggaaaagctgggcggggg	15	13	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:8595448G>T	uc002mkg.2	-	20	2167	c.2053C>A	c.(2053-2055)CTG>ATG	p.L685M		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	685						unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						ACCTCCTCCAGGAGGAAAAGC	0.647													70	130	---	---	---	---	PASS	T	8595448	T	T	8595448	3	4	149	1	0	0	0	0	1	0	0	0	10073	991	35	3	1279	3	MYO1F	19	8595448	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	6316417	8595448	50533535	372	53376										
MUC16	94025	broad.mit.edu	37	chr19	9058097	9058097	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gaggtgctgctcaaatttggAgatgaactggttttaggctc	13	6	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:9058097A>T	uc002mkp.2	-	3	29553	c.29349T>A	c.(29347-29349)TCT>TCA	p.S9783S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9785	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCAAATTTGGAGATGAACTGG	0.483													30	59	---	---	---	---	PASS	T	9058097	T	T	9058097	2	4	149	1	0	0	0	0	0	0	0	1	9973	291	11	5		5	MUC16	19	9058097	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08	462649	9058097	50070886	373	53377										
MUC16	94025	broad.mit.edu	37	chr19	9068679	9068679	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgatcttcgccagtgtagggGtgggtactgaggtcacagaa	15	7	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:9068679G>T	uc002mkp.2	-	3	18971	c.18767C>A	c.(18766-18768)ACC>AAC	p.T6256N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6258	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGTGTAGGGGTGGGTACTGA	0.493													52	143	---	---	---	---	PASS	T	9068679	T	T	9068679	3	4	149	1	0	0	0	0	1	0	0	0	9973	1261	44	3	25084	3	MUC16	19	9068679	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	10582	9068679	50060304	374	53378										
DNAJB1	3337	broad.mit.edu	37	chr19	14627579	14627579	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agactcgaaggtcgtgggtgActgggggatcttgcttcttt	15	7	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:14627579A>G	uc002myz.1	-	2	531	c.491T>C	c.(490-492)GTC>GCC	p.V164A	DNAJB1_uc010xnr.1_Missense_Mutation_p.V64A	NM_006145	NP_006136	P25685	DNJB1_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 1	164					chaperone cofactor-dependent protein refolding|response to unfolded protein	cytoplasm|nucleolus	heat shock protein binding|unfolded protein binding				0				GBM - Glioblastoma multiforme(1328;0.0476)		GTCGTGGGTGACTGGGGGATC	0.562													81	260	---	---	---	---	PASS	G	14627579	G	G	14627579	3	3	149	1	0	0	0	0	1	0	0	0	4615	275	10	5	539	5	DNAJB1	19	14627579	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	5558900	14627579	44501404	375	53379										
CLEC17A	388512	broad.mit.edu	37	chr19	14698495	14698495	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tccctacaaggaccttcctcCcaagccaggtaagaggactt	8	14	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:14698495C>G	uc010dzn.1	+	3	268	c.191C>G	c.(190-192)CCC>CGC	p.P64R	CLEC17A_uc002mzh.1_Missense_Mutation_p.P64R|CLEC17A_uc010xnt.1_RNA|CLEC17A_uc010xnu.1_Missense_Mutation_p.P64R|CLEC17A_uc010dzo.1_Missense_Mutation_p.P64R			Q6ZS10	CL17A_HUMAN	SubName: Full=CLEC17A protein;	64	Cytoplasmic (Potential).					cell surface|integral to membrane	fucose binding|mannose binding|metal ion binding|receptor activity				0						GACCTTCCTCCCAAGCCAGGT	0.552													8	20	---	---	---	---	PASS	G	14698495	G	G	14698495	3	3	149	1	0	0	0	0	1	0	0	0	3501	623	22	4	201	4	CLEC17A	19	14698495	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	70916	14698495	44430488	376	53380										
GTPBP3	84705	broad.mit.edu	37	chr19	17449960	17449960	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gaagtacgggcactgcaggtGgccctgggtgcacatctacg	15	11	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:17449960G>T	uc010eas.2	+	6	758	c.693G>T	c.(691-693)GTG>GTT	p.V231V	GTPBP3_uc010xpo.1_Silent_p.V253V|GTPBP3_uc010ear.1_RNA|GTPBP3_uc002ngh.3_Silent_p.V231V|GTPBP3_uc002ngg.3_Silent_p.V263V|GTPBP3_uc002ngi.3_5'UTR	NM_032620	NP_116009	Q969Y2	GTPB3_HUMAN	GTP binding protein 3 (mitochondrial) isoform V	231					tRNA modification	mitochondrion	GTP binding|GTPase activity			skin(1)	1						CACTGCAGGTGGCCCTGGGTG	0.632													19	57	---	---	---	---	PASS	T	17449960	T	T	17449960	2	4	149	1	0	0	0	0	0	0	0	1	6881	1335	47	3		3	GTPBP3	19	17449960	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	2751465	17449960	41679023	377	53381										
PDE4C	5143	broad.mit.edu	37	chr19	18327649	18327649	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cagcagcttgaagcccacagCcaggtgatggttctccagca	11	13	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:18327649C>A	uc010xqc.1	-	12	1867	c.1387G>T	c.(1387-1389)GCT>TCT	p.A463S	PDE4C_uc002nik.3_Missense_Mutation_p.A463S|PDE4C_uc002nil.3_Missense_Mutation_p.A463S|PDE4C_uc002nif.3_Missense_Mutation_p.A232S|PDE4C_uc002nig.3_Missense_Mutation_p.A178S|PDE4C_uc002nih.3_Missense_Mutation_p.A233S|PDE4C_uc010ebk.2_Missense_Mutation_p.A357S|PDE4C_uc002nii.3_Missense_Mutation_p.A431S|PDE4C_uc010ebl.2_Missense_Mutation_p.A177S|PDE4C_uc010xqd.1_Missense_Mutation_p.A232S	NM_001098819	NP_001092289	Q08493	PDE4C_HUMAN	phosphodiesterase 4C isoform PDE4C-2	463					signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|skin(2)|central_nervous_system(1)	5					Dyphylline(DB00651)	AAGCCCACAGCCAGGTGATGG	0.582													52	122	---	---	---	---	PASS	A	18327649	A	A	18327649	3	1	149	1	0	0	0	0	1	0	0	0	11641	739	26	3	767	3	PDE4C	19	18327649	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	877689	18327649	40801334	378	53382										
ZNF527	84503	broad.mit.edu	37	chr19	37879768	37879768	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccactcattttggaaaattaCcccatggatacgatgaatgt	7	9	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:37879768C>T	uc010efk.1	+	5	928	c.817C>T	c.(817-819)CCC>TCC	p.P273S	ZNF527_uc002ogf.3_Missense_Mutation_p.P241S|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	273					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TGGAAAATTACCCCATGGATA	0.383													144	253	---	---	---	---	PASS	T	37879768	T	T	37879768	3	4	149	1	0	0	0	0	1	0	0	0	17965	507	18	3	831	3	ZNF527	19	37879768	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	19552119	37879768	21249215	379	53383										
RINL	126432	broad.mit.edu	37	chr19	39361379	39361379	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggacccccagaatctgaggcGatgcgcacccgaaggcttcg	13	14	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:39361379G>A	uc002ojq.2	-	8	901	c.513C>T	c.(511-513)ATC>ATT	p.I171I	RINL_uc002ojr.1_5'Flank|RINL_uc010xuo.1_Silent_p.I285I	NM_198445	NP_940847	Q6ZS11	RINL_HUMAN	Ras and Rab interactor-like	171							GTPase activator activity			pancreas(1)	1						AATCTGAGGCGATGCGCACCC	0.647													35	58	---	---	---	---	PASS	A	39361379	A	A	39361379	2	1	149	1	0	0	0	0	0	0	0	1	13375	1048	37	2		2	RINL	19	39361379	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	1481611	39361379	19767604	380	53384										
LRFN1	57622	broad.mit.edu	37	chr19	39798447	39798447	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cgcgggtaactgtggctctgGaatagtgccccgtagtcccc	13	13	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:39798447G>T	uc002okw.2	-	2	2142	c.2142C>A	c.(2140-2142)TTC>TTA	p.F714L		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	714	Cytoplasmic (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane				ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			TGTGGCTCTGGAATAGTGCCC	0.731													5	6	---	---	---	---	PASS	T	39798447	T	T	39798447	3	4	149	1	0	0	0	0	1	0	0	0	8937	1165	41	2	177	2	LRFN1	19	39798447	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	437068	39798447	19330536	381	53385										
HIPK4	147746	broad.mit.edu	37	chr19	40895578	40895578	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cttgagggcgtcatggaagaActcaaggaagcggatgacgt	15	7	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:40895578A>G	uc002onp.2	-	1	517	c.232T>C	c.(232-234)TTC>CTC	p.F78L		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	78	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			TCATGGAAGAACTCAAGGAAG	0.572													10	288	---	---	---	---	PASS	G	40895578	G	G	40895578	3	3	149	1	0	0	0	0	1	0	0	0	7119	43	2	5	1634	5	HIPK4	19	40895578	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	1097131	40895578	18233405	382	53386										
CEACAM7	1087	broad.mit.edu	37	chr19	42181387	42181387	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tccaatcatgatgctgacagCggtcccagctgagaggtcag	12	11	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:42181387C>T	uc002ori.1	-	4	753	c.751G>A	c.(751-753)GCT>ACT	p.A251T	CEACAM7_uc010ehx.2_Missense_Mutation_p.A251T|CEACAM7_uc010ehy.1_Missense_Mutation_p.A158T	NM_006890	NP_008821	Q14002	CEAM7_HUMAN	carcinoembryonic antigen-related cell adhesion	251						anchored to membrane|integral to membrane|plasma membrane				ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.0027)|all cancers(3;0.00979)|Epithelial(262;0.0366)		ATGCTGACAGCGGTCCCAGCT	0.463													4	171	---	---	---	---	PASS	T	42181387	T	T	42181387	3	4	149	1	0	0	0	0	1	0	0	0	3197	768	27	1	50	1	CEACAM7	19	42181387	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1285809	42181387	16947596	383	53387										
PNMAL1	55228	broad.mit.edu	37	chr19	46973241	46973241	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggttcttggcagacacccagGccacggccttcttctttggt	11	13	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:46973241G>T	uc002peq.3	-	2	1358	c.1052C>A	c.(1051-1053)GCC>GAC	p.A351D	PNMAL1_uc002per.3_Missense_Mutation_p.A351D	NM_018215	NP_060685	Q86V59	PNML1_HUMAN	PNMA-like 1 isoform a	351											0		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000166)|all cancers(93;0.0014)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		AGACACCCAGGCCACGGCCTT	0.597													134	390	---	---	---	---	PASS	T	46973241	T	T	46973241	3	4	149	1	0	0	0	0	1	0	0	0	12157	1203	42	3	297	3	PNMAL1	19	46973241	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	4791854	46973241	12155742	384	53388										
GYS1	2997	broad.mit.edu	37	chr19	49474215	49474215	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggggtctgcgatgtgttcctCcatgaagcagccgaagccgg	15	11	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:49474215C>A	uc002plp.2	-	13	1856	c.1615G>T	c.(1615-1617)GAG>TAG	p.E539*	GYS1_uc010xzy.1_Nonsense_Mutation_p.E172*|GYS1_uc010emm.2_Nonsense_Mutation_p.E475*|GYS1_uc010xzz.1_Nonsense_Mutation_p.E459*	NM_002103	NP_002094	P13807	GYS1_HUMAN	glycogen synthase 1 (muscle) isoform 1	539					glucose metabolic process|glycogen biosynthetic process	cytosol	glycogen (starch) synthase activity|protein binding			ovary(2)	2		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000164)|all cancers(93;0.000226)|GBM - Glioblastoma multiforme(486;0.00561)|Epithelial(262;0.0286)		ATGTGTTCCTCCATGAAGCAG	0.587											OREG0025611	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	109	---	---	---	---	PASS	A	49474215	A	A	49474215	4	1	149	1	0	0	0	0	0	1	0	0	6912	864	30	2	614	2	GYS1	19	49474215	Nonsense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	2500974	49474215	9654768	385	53389										
KLK13	26085	broad.mit.edu	37	chr19	51563314	51563314	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgctcaccagcttccacacgCcctagggcgtgcttgcctag	10	16	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:51563314C>A	uc002pvn.2	-	3	319	c.276G>T	c.(274-276)GGG>GGT	p.G92G	KLK13_uc002pvl.2_RNA|KLK13_uc002pvm.2_RNA|KLK13_uc002pvo.2_RNA|KLK13_uc002pvp.2_RNA|KLK13_uc010eon.2_Silent_p.G92G|KLK13_uc002pvq.2_RNA|KLK13_uc010eoo.2_Intron|KLK13_uc002pvr.2_Silent_p.G92G	NM_015596	NP_056411	Q9UKR3	KLK13_HUMAN	kallikrein 13 precursor	92	Peptidase S1.				proteolysis		protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00432)		CTTCCACACGCCCTAGGGCGT	0.493													68	122	---	---	---	---	PASS	A	51563314	A	A	51563314	2	1	149	1	0	0	0	0	0	0	0	1	8401	726	26	3		3	KLK13	19	51563314	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	2089099	51563314	7565669	386	53390										
C19orf75	284369	broad.mit.edu	37	chr19	51768734	51768734	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggtggatgggaggagtcccCgtgggtgtggatggcatgga	21	5	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:51768734C>A	uc002pwb.1	+	3	516	c.135C>A	c.(133-135)CCC>CCA	p.P45P	C19orf75_uc010eov.1_Intron|C19orf75_uc010ycw.1_Intron	NM_173635	NP_775906	Q8N7X8	CS075_HUMAN	hypothetical protein LOC284369	45						integral to membrane				ovary(1)|pancreas(1)	2						GAGGAGTCCCCGTGGGTGTGG	0.572													40	86	---	---	---	---	PASS	A	51768734	A	A	51768734	2	1	149	1	0	0	0	0	0	0	0	1	1949	639	23	1		1	C19orf75	19	51768734	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	205420	51768734	7360249	387	53391										
SIGLEC12	89858	broad.mit.edu	37	chr19	51994991	51994991	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggaagctgagggatgcataCtggatctctccttcctctgg	12	10	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:51994991C>A	uc002pwx.1	-	8	1748	c.1692G>T	c.(1690-1692)CAG>CAT	p.Q564H	SIGLEC12_uc002pww.1_Missense_Mutation_p.Q446H|SIGLEC12_uc010eoy.1_Missense_Mutation_p.Q291H	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	564	Cytoplasmic (Potential).|ITIM motif.				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		GGGATGCATACTGGATCTCTC	0.592													65	158	---	---	---	---	PASS	A	51994991	A	A	51994991	3	1	149	1	0	0	0	0	1	0	0	0	14308	564	20	3	99	3	SIGLEC12	19	51994991	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	226257	51994991	7133992	388	53392										
ZNF480	147657	broad.mit.edu	37	chr19	52825873	52825873	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggagagaagccttacaaatGtagtgaatgtggcaaggcat	13	5	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:52825873G>T	uc010ydl.1	+	5	1440	c.1370G>T	c.(1369-1371)TGT>TTT	p.C457F	ZNF480_uc002pyv.2_Missense_Mutation_p.C380F|ZNF480_uc010ydm.1_Missense_Mutation_p.C414F|ZNF480_uc010epn.2_Missense_Mutation_p.C288F|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	457	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		CCTTACAAATGTAGTGAATGT	0.398													87	212	---	---	---	---	PASS	T	52825873	T	T	52825873	3	4	149	1	0	0	0	0	1	0	0	0	17932	1377	48	3	1384	3	ZNF480	19	52825873	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	830882	52825873	6303110	389	53393										
ZNF534	147658	broad.mit.edu	37	chr19	52941383	52941383	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gtgactgtggcgagatctttAgtagcaattcaaactttgca	10	7	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:52941383A>G	uc002pzk.2	+	4	770	c.709A>G	c.(709-711)AGT>GGT	p.S237G	ZNF534_uc002pzj.1_Intron|ZNF534_uc010epo.1_Intron|ZNF534_uc002pzl.2_Missense_Mutation_p.S224G	NM_001143939	NP_001137411	Q76KX8	ZN534_HUMAN	zinc finger protein 534 isoform 2	237	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGAGATCTTTAGTAGCAATTC	0.388													3	128	---	---	---	---	PASS	G	52941383	G	G	52941383	3	3	149	1	0	0	0	0	1	0	0	0	17970	420	15	5	723	5	ZNF534	19	52941383	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	115510	52941383	6187600	390	53394										
ZNF320	162967	broad.mit.edu	37	chr19	53384080	53384080	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggtttctctcctgtatgaatCctcctatgtctttcaaggtg	8	10	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:53384080C>A	uc002qag.2	-	4	1490	c.1299G>T	c.(1297-1299)AGG>AGT	p.R433S	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.R379S|ZNF320_uc002qai.2_Missense_Mutation_p.R433S	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	433	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		CTGTATGAATCCTCCTATGTC	0.393													40	130	---	---	---	---	PASS	A	53384080	A	A	53384080	3	1	149	1	0	0	0	0	1	0	0	0	17836	854	30	2	234	2	ZNF320	19	53384080	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	442697	53384080	5744903	391	53395										
ZNF665	79788	broad.mit.edu	37	chr19	53668046	53668046	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tacacttataaggtttctcaCcagtgtgaattctctgatga	7	8	2	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:53668046C>A	uc010eqm.1	-	4	1797	c.1697G>T	c.(1696-1698)GGT>GTT	p.G566V		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	501					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		AGGTTTCTCACCAGTGTGAAT	0.393													92	254	---	---	---	---	PASS	A	53668046	A	A	53668046	3	1	149	1	0	0	0	0	1	0	0	0	18070	507	18	3	343	3	ZNF665	19	53668046	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	283966	53668046	5460937	392	53396										
NLRP12	91662	broad.mit.edu	37	chr19	54297352	54297352	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttactcgaagcgctgccaacCtactgtgggtcattttattc	8	11	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:54297352C>A	uc002qch.3	-	10	3357	c.3137G>T	c.(3136-3138)AGG>ATG	p.R1046M	NLRP12_uc010eqw.2_Missense_Mutation_p.R272M|NLRP12_uc002qci.3_Missense_Mutation_p.R989M|NLRP12_uc002qcj.3_Missense_Mutation_p.R1047M|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_3'UTR	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	1046	LRR 8.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		CGCTGCCAACCTACTGTGGGT	0.448													43	97	---	---	---	---	PASS	A	54297352	A	A	54297352	3	1	149	1	0	0	0	0	1	0	0	0	10474	681	24	3	52	3	NLRP12	19	54297352	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	629306	54297352	4831631	393	53397										
KIR2DL4	3805	broad.mit.edu	37	chr19	55316354	55316354	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cgtgggtttaacatcttcacGctgtacaagaaagatggggt	12	7	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:55316354G>C	uc010yfm.1	+	3	223	c.183G>C	c.(181-183)ACG>ACC	p.T61T	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL4_uc010yfl.1_Silent_p.T56T|KIR2DL4_uc002qhg.2_Silent_p.T61T|KIR2DL4_uc002qhi.2_Silent_p.T61T|KIR2DL4_uc002qhh.2_Intron|KIR2DL4_uc002qhj.2_Silent_p.T61T|KIR2DL4_uc002qhf.2_Intron|KIR2DL4_uc010esd.2_Silent_p.T61T|KIR2DL4_uc010ese.2_5'Flank	NM_002255	NP_002246	Q99706	KI2L4_HUMAN	killer cell immunoglobulin-like receptor, two	61	Ig-like C2-type 1.|Extracellular (Potential).				cellular defense response|regulation of immune response	integral to plasma membrane	protein binding|transmembrane receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0192)		ACATCTTCACGCTGTACAAGA	0.547													50	28	---	---	---	---	PASS	C	55316354	C	C	55316354	2	2	149	1	0	0	0	0	0	0	0	1	8318	1074	38	4		4	KIR2DL4	19	55316354	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	1019002	55316354	3812629	394	53398										
NLRP2	55655	broad.mit.edu	37	chr19	55493895	55493895	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aggatgacattccacacatcCtagcccaagcacggaaaatc	7	13	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:55493895C>T	uc002qij.2	+	6	915	c.829C>T	c.(829-831)CTA>TTA	p.L277L	NLRP2_uc010yfp.1_Silent_p.L254L|NLRP2_uc010esn.2_Silent_p.L253L|NLRP2_uc010eso.2_Silent_p.L274L|NLRP2_uc010esp.2_Silent_p.L255L	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	277	NACHT.				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		TCCACACATCCTAGCCCAAGC	0.587													38	79	---	---	---	---	PASS	T	55493895	T	T	55493895	2	4	149	1	0	0	0	0	0	0	0	1	10477	680	24	3		3	NLRP2	19	55493895	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	177541	55493895	3635088	395	53399										
NLRP11	204801	broad.mit.edu	37	chr19	56321318	56321318	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gaaaaggagtttcttgggatCagacaggatgtctgcaatgg	14	5	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:56321318C>T	uc010ygf.1	-	5	1369	c.658G>A	c.(658-660)GAT>AAT	p.D220N	NLRP11_uc002qlz.2_Missense_Mutation_p.D121N|NLRP11_uc002qmb.2_Missense_Mutation_p.D121N|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	220	NACHT.						ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		TTCTTGGGATCAGACAGGATG	0.478													59	83	---	---	---	---	PASS	T	56321318	T	T	56321318	3	4	149	1	0	0	0	0	1	0	0	0	10473	826	29	2	2475	2	NLRP11	19	56321318	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	827423	56321318	2807665	396	53400										
ZNF583	147949	broad.mit.edu	37	chr19	56925400	56925400	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aatggctgaaccctgctcagAggaatttgtacaggaaagtg	12	7	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:56925400A>T	uc010ygl.1	+	3	247	c.82A>T	c.(82-84)AGG>TGG	p.R28W	ZNF583_uc002qnc.2_Missense_Mutation_p.R28W|ZNF583_uc010ygm.1_Missense_Mutation_p.R28W	NM_001159860	NP_001153332	Q96ND8	ZN583_HUMAN	zinc finger protein 583	28	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0564)		CCCTGCTCAGAGGAATTTGTA	0.438													62	149	---	---	---	---	PASS	T	56925400	T	T	56925400	3	4	149	1	0	0	0	0	1	0	0	0	18012	295	11	5	88	5	ZNF583	19	56925400	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	604082	56925400	2203583	397	53401										
PEG3	5178	broad.mit.edu	37	chr19	57326945	57326945	+	Silent	SNP	C	A	A													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aatgtttgttcaccaaaaggCagagagtgaattacagaggt							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:57326945C>A	uc002qnu.2	-	7	3216	c.2865G>T	c.(2863-2865)CTG>CTT	p.L955L	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.L926L|PEG3_uc002qnv.2_Silent_p.L955L|PEG3_uc002qnw.2_Silent_p.L831L|PEG3_uc002qnx.2_Silent_p.L829L|PEG3_uc010etr.2_Silent_p.L955L	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	955					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CACCAAAAGGCAGAGAGTGAA	0.473													77	272	---	---	---	---	PASS	A	57326945	A	A	57326945	2	1	149	1	0	0	0	0	0	0	0	1	11720	697	25	3		3	PEG3	19	57326945	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	401545	57326945	1802038	398	53402	973	2								
PEG3	5178	broad.mit.edu	37	chr19	57326953	57326953	+	Missense_Mutation	SNP	G	A	A													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttcaccaaaaggcagagagtGaattacagaggtctcattgc							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:57326953G>A	uc002qnu.2	-	7	3208	c.2857C>T	c.(2857-2859)CAC>TAC	p.H953Y	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.H924Y|PEG3_uc002qnv.2_Missense_Mutation_p.H953Y|PEG3_uc002qnw.2_Missense_Mutation_p.H829Y|PEG3_uc002qnx.2_Missense_Mutation_p.H827Y|PEG3_uc010etr.2_Missense_Mutation_p.H953Y	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	953					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GGCAGAGAGTGAATTACAGAG	0.468													79	295	---	---	---	---	PASS	A	57326953	A	A	57326953	3	1	149	1	0	0	0	0	1	0	0	0	11720	1290	45	2	1913	2	PEG3	19	57326953	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	8	57326953	1802030	399	53403	973	2								
ZNF324B	388569	broad.mit.edu	37	chr19	58967783	58967783	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gcagtgtggccgcgccttccGtgagcgccctgccctcttgc	13	17	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr19:58967783G>T	uc002qsv.1	+	4	1579	c.1472G>T	c.(1471-1473)CGT>CTT	p.R491L	ZNF324B_uc002qsu.1_Missense_Mutation_p.R481L|ZNF324B_uc010euq.1_Missense_Mutation_p.R491L	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	491	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		CGCGCCTTCCGTGAGCGCCCT	0.657													52	87	---	---	---	---	PASS	T	58967783	T	T	58967783	3	4	149	1	0	0	0	0	1	0	0	0	17842	1145	40	1	1482	1	ZNF324B	19	58967783	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1640830	58967783	161200	400	53404										
SIRPB1	10326	broad.mit.edu	37	chr20	1546881	1546881	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggggcccaggaggagagctaCgaggagtggagcagtaggag	21	6	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr20:1546881C>A	uc010gai.2	-	5	1216	c.1117G>T	c.(1117-1119)GTA>TTA	p.V373L	SIRPB1_uc002wfk.3_Missense_Mutation_p.V156L	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	373	Helical; (Potential).				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						AGGAGAGCTACGAGGAGTGGA	0.587													6	7	---	---	---	---	PASS	A	1546881	A	A	1546881	3	1	149	1	0	0	0	0	1	0	0	0	14333	536	19	1	83	1	SIRPB1	20	1546881	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08		1546881	61478639	401	53405										
CST11	140880	broad.mit.edu	37	chr20	23433377	23433377	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aaggttttcttccttgcttgGtaggggagggccatcagagt	14	7	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr20:23433377G>T	uc002wtf.1	-	1	106	c.72C>A	c.(70-72)TAC>TAA	p.Y24*	CST11_uc002wtg.1_Nonsense_Mutation_p.Y24*	NM_130794	NP_570612	Q9H112	CST11_HUMAN	cystatin 11 isoform 1 precursor	24					defense response to bacterium	cytoplasm|nucleus	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					TCCTTGCTTGGTAGGGGAGGG	0.517													41	115	---	---	---	---	PASS	T	23433377	T	T	23433377	4	4	149	1	0	0	0	0	0	1	0	0	3971	1256	44	3	356	3	CST11	20	23433377	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	21886496	23433377	39592143	402	53406										
C20orf3	57136	broad.mit.edu	37	chr20	24950913	24950913	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctagaatcggtgaaataaatCttcctcccatcctgagtgac	7	11	1	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr20:24950913C>T	uc002wty.2	-	6	734	c.633G>A	c.(631-633)AAG>AAA	p.K211K	C20orf3_uc002wtz.2_Silent_p.K211K|C20orf3_uc010zsw.1_Silent_p.K211K	NM_020531	NP_065392	Q9HDC9	APMAP_HUMAN	chromosome 20 open reading frame 3	211	Extracellular (Potential).				biosynthetic process	cell surface|integral to membrane	arylesterase activity|strictosidine synthase activity			ovary(1)	1						TGAAATAAATCTTCCTCCCAT	0.512													105	248	---	---	---	---	PASS	T	24950913	T	T	24950913	2	4	149	1	0	0	0	0	0	0	0	1	2109	912	32	2		2	C20orf3	20	24950913	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	1517536	24950913	38074607	403	53407										
XKR7	343702	broad.mit.edu	37	chr20	30584970	30584970	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caaggactacaggtgctgagCgggatggggcctcggcggga	19	9	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr20:30584970C>T	uc002wxe.2	+	3	1624	c.1450C>T	c.(1450-1452)CGG>TGG	p.R484W		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	484						integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			AGGTGCTGAGCGGGATGGGGC	0.687													45	64	---	---	---	---	PASS	T	30584970	T	T	30584970	3	4	149	1	0	0	0	0	1	0	0	0	17433	759	27	1	1460	1	XKR7	20	30584970	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	5634057	30584970	32440550	404	53408										
C20orf112	140688	broad.mit.edu	37	chr20	31062443	31062443	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gttctgcgggctccgcatccTctcgtcctggctggggctca	13	15	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr20:31062443T>A	uc002wxu.3	-	2	227	c.70A>T	c.(70-72)AGG>TGG	p.R24W	C20orf112_uc010gec.2_5'UTR|C20orf112_uc002wxv.3_Missense_Mutation_p.R24W|C20orf112_uc002wxw.1_RNA	NM_080616	NP_542183	Q96MY1	CT112_HUMAN	hypothetical protein LOC140688	24											0						CTCCGCATCCTCTCGTCCTGG	0.627													23	78	---	---	---	---	PASS	A	31062443	A	A	31062443	3	1	149	1	0	0	0	0	1	0	0	0	2081	1550	54	5	1268	5	C20orf112	20	31062443	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	477473	31062443	31963077	405	53409										
ZFP64	55734	broad.mit.edu	37	chr20	50803458	50803458	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ttcctccgatacaaactggaCcgtgctgggggctgctgcgg	14	12	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr20:50803458C>A	uc002xwl.2	-	2	548	c.199G>T	c.(199-201)GTC>TTC	p.V67F	ZFP64_uc002xwk.2_Missense_Mutation_p.V67F|ZFP64_uc002xwm.2_Missense_Mutation_p.V65F|ZFP64_uc002xwn.2_Missense_Mutation_p.V67F	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	67					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						ACAAACTGGACCGTGCTGGGG	0.572													20	54	---	---	---	---	PASS	A	50803458	A	A	50803458	3	1	149	1	0	0	0	0	1	0	0	0	17649	507	18	3	3057	3	ZFP64	20	50803458	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	19741015	50803458	12222062	406	53410										
KCNQ2	3785	broad.mit.edu	37	chr20	62038177	62038177	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cagctgttgagagcatccagGttctccttggactgggagat	13	9	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr20:62038177G>T	uc002yey.1	-	17	2616	c.2439C>A	c.(2437-2439)AAC>AAA	p.N813K	KCNQ2_uc002yez.1_Missense_Mutation_p.N782K|KCNQ2_uc002yfa.1_Missense_Mutation_p.N795K|KCNQ2_uc002yfb.1_Missense_Mutation_p.N785K	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	813	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	GAGCATCCAGGTTCTCCTTGG	0.617													7	28	---	---	---	---	PASS	T	62038177	T	T	62038177	3	4	149	1	0	0	0	0	1	0	0	0	8083	1252	44	3	183	3	KCNQ2	20	62038177	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	11234719	62038177	987343	407	53411										
ZBTB46	140685	broad.mit.edu	37	chr20	62421833	62421833	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgctggtgagcgccaggtgcGctgagtacatgaagtcgatg	16	8	0	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr20:62421833G>A	uc002ygv.1	-	2	479	c.278C>T	c.(277-279)GCG>GTG	p.A93V	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	93	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					CGCCAGGTGCGCTGAGTACAT	0.602													5	57	---	---	---	---	PASS	A	62421833	A	A	62421833	3	1	149	1	0	0	0	0	1	0	0	0	17544	1087	38	1	1507	1	ZBTB46	20	62421833	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	383656	62421833	603687	408	53412										
NCAM2	4685	broad.mit.edu	37	chr21	22838977	22838977	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atacaacttatgaaatcaggGttgcagctgtaaatggaaag	10	5	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr21:22838977G>C	uc002yld.1	+	13	1954	c.1705G>C	c.(1705-1707)GTT>CTT	p.V569L	NCAM2_uc011acb.1_Missense_Mutation_p.V427L	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	569	Fibronectin type-III 1.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TGAAATCAGGGTTGCAGCTGT	0.279													35	34	---	---	---	---	PASS	C	22838977	C	C	22838977	3	2	149	1	0	0	0	0	1	0	0	0	10203	1261	44	4	1755	4	NCAM2	21	22838977	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08		22838977	25290918	409	53413										
SYNJ1	8867	broad.mit.edu	37	chr21	34072214	34072214	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cattaagactcaaatctaaaCtgatgccagatgcagaccat	6	10	2	4			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr21:34072214C>A	uc002yqh.2	-	4	530	c.530G>T	c.(529-531)AGT>ATT	p.S177I	SYNJ1_uc011ads.1_Missense_Mutation_p.S138I|SYNJ1_uc002yqf.2_Missense_Mutation_p.S138I|SYNJ1_uc002yqg.2_Missense_Mutation_p.S138I|SYNJ1_uc002yqi.2_Missense_Mutation_p.S177I	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	138	SAC.						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						CAAATCTAAACTGATGCCAGA	0.388													4	100	---	---	---	---	PASS	A	34072214	A	A	34072214	3	1	149	1	0	0	0	0	1	0	0	0	15449	565	20	3	4458	3	SYNJ1	21	34072214	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	11233237	34072214	14057681	410	53414										
RCAN1	1827	broad.mit.edu	37	chr21	35893929	35893929	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cttgtctggatttggcggagCcaggtgtgagcttcctatgt	14	8	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr21:35893929C>A	uc002yue.2	-	3	526	c.454G>T	c.(454-456)GCT>TCT	p.A152S	RCAN1_uc002yuc.2_Missense_Mutation_p.A71S|RCAN1_uc002yud.2_Missense_Mutation_p.A17S|RCAN1_uc002yub.2_Missense_Mutation_p.A97S|RCAN1_uc011adx.1_Missense_Mutation_p.A97S	NM_004414	NP_004405	P53805	RCAN1_HUMAN	calcipressin 1 isoform a	152					blood circulation|calcium-mediated signaling|central nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0						TTTGGCGGAGCCAGGTGTGAG	0.527													9	34	---	---	---	---	PASS	A	35893929	A	A	35893929	3	1	149	1	0	0	0	0	1	0	0	0	13168	739	26	3	312	3	RCAN1	21	35893929	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	1821715	35893929	12235966	411	53415										
DNMT3L	29947	broad.mit.edu	37	chr21	45670819	45670819	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgcaggagccggtggaactgGaacaggtaccagcctggagt	16	9	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr21:45670819G>T	uc002zeg.1	-	10	1267	c.783C>A	c.(781-783)TTC>TTA	p.F261L	DNMT3L_uc002zeh.1_Missense_Mutation_p.F261L	NM_175867	NP_787063	Q9UJW3	DNM3L_HUMAN	cytosine-5-methyltransferase 3-like protein	261				F->A: Loss of binding to DNMT3A.	DNA methylation|negative regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|spermatogenesis	cytosol	enzyme activator activity|enzyme binding|metal ion binding			skin(2)	2				Colorectal(79;0.0165)|READ - Rectum adenocarcinoma(84;0.0781)		GGTGGAACTGGAACAGGTACC	0.662													3	5	---	---	---	---	PASS	T	45670819	T	T	45670819	3	4	149	1	0	0	0	0	1	0	0	0	4678	1165	41	2	392	2	DNMT3L	21	45670819	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	9776890	45670819	2459076	412	53416										
KRTAP10-8	386681	broad.mit.edu	37	chr21	46032303	46032303	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gctgcaccgactcctgcacaCcttcatgctgccagcagtct	8	17	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr21:46032303C>G	uc002zfo.1	+	1	308	c.286C>G	c.(286-288)CCT>GCT	p.P96A	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198695	NP_941968	P60410	KR108_HUMAN	keratin associated protein 10-8	96	19 X 5 AA repeats of C-C-X(3).					keratin filament				large_intestine(1)|breast(1)	2						CTCCTGCACACCTTCATGCTG	0.662													46	53	---	---	---	---	PASS	G	46032303	G	G	46032303	3	3	149	1	0	0	0	0	1	0	0	0	8515	507	18	4	288	4	KRTAP10-8	21	46032303	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	361484	46032303	2097592	413	53417										
COL18A1	80781	broad.mit.edu	37	chr21	46932276	46932276	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	catcacgcctacatcgtgctCtgcattgagaacagcttcat	7	13	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr21:46932276C>G	uc011afs.1	+	42	5241	c.5220C>G	c.(5218-5220)CTC>CTG	p.L1740L	COL18A1_uc002zhg.2_Silent_p.L1325L|COL18A1_uc002zhi.2_Silent_p.L1505L|SLC19A1_uc010gpy.1_Intron|COL18A1_uc002zhj.2_Silent_p.L306L|COL18A1_uc002zhk.2_Silent_p.L150L	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	1743	Nonhelical region 11 (NC11).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		ACATCGTGCTCTGCATTGAGA	0.692													13	13	---	---	---	---	PASS	G	46932276	G	G	46932276	2	3	149	1	0	0	0	0	0	0	0	1	3675	900	32	2		2	COL18A1	21	46932276	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	899973	46932276	1197619	414	53418										
PIWIL3	440822	broad.mit.edu	37	chr22	25152463	25152463	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	acaacattacttaacccgctCttttagtggccgagataata	6	10	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr22:25152463C>G	uc003abd.1	-	5	982	c.565G>C	c.(565-567)GAG>CAG	p.E189Q	PIWIL3_uc011ajx.1_Missense_Mutation_p.E80Q|PIWIL3_uc011ajy.1_Missense_Mutation_p.E80Q|PIWIL3_uc010gut.1_Missense_Mutation_p.E189Q	NM_001008496	NP_001008496	Q7Z3Z3	PIWL3_HUMAN	piwi-like 3	189					cell differentiation|gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatogenesis	cytoplasm	RNA binding			ovary(3)|central_nervous_system(1)	4						TTAACCCGCTCTTTTAGTGGC	0.328													27	44	---	---	---	---	PASS	G	25152463	G	G	25152463	3	3	149	1	0	0	0	0	1	0	0	0	11959	922	32	2	2151	2	PIWIL3	22	25152463	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08		25152463	26152103	415	53419										
MYO18B	84700	broad.mit.edu	37	chr22	26299711	26299711	+	Missense_Mutation	SNP	G	T	T													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aattgcgttgctggcttgaaGgagaggctctggaagttgga							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr22:26299711G>T	uc003abz.1	+	31	5311	c.5061G>T	c.(5059-5061)AAG>AAT	p.K1687N	MYO18B_uc003aca.1_Missense_Mutation_p.K1568N|MYO18B_uc010guy.1_Missense_Mutation_p.K1569N|MYO18B_uc010guz.1_Missense_Mutation_p.K1567N|MYO18B_uc011aka.1_Missense_Mutation_p.K841N|MYO18B_uc011akb.1_Missense_Mutation_p.K1200N	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1687	Potential.|Tail.|Gln-rich.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CTGGCTTGAAGGAGAGGCTCT	0.552													6	11	---	---	---	---	PASS	T	26299711	T	T	26299711	3	4	149	1	0	0	0	0	1	0	0	0	10066	991	35	3	5179	3	MYO18B	22	26299711	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1147248	26299711	25004855	416	53420	974	2								
MYO18B	84700	broad.mit.edu	37	chr22	26299712	26299712	+	Nonsense_Mutation	SNP	G	T	T													0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	attgcgttgctggcttgaagGagaggctctggaagttggaa							TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr22:26299712G>T	uc003abz.1	+	31	5312	c.5062G>T	c.(5062-5064)GAG>TAG	p.E1688*	MYO18B_uc003aca.1_Nonsense_Mutation_p.E1569*|MYO18B_uc010guy.1_Nonsense_Mutation_p.E1570*|MYO18B_uc010guz.1_Nonsense_Mutation_p.E1568*|MYO18B_uc011aka.1_Nonsense_Mutation_p.E842*|MYO18B_uc011akb.1_Nonsense_Mutation_p.E1201*	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1688	Potential.|Tail.|Gln-rich.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TGGCTTGAAGGAGAGGCTCTG	0.557													6	11	---	---	---	---	PASS	T	26299712	T	T	26299712	4	4	149	1	0	0	0	0	0	1	0	0	10066	1175	41	2	5180	2	MYO18B	22	26299712	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1	26299712	25004854	417	53421	974	2								
MYO18B	84700	broad.mit.edu	37	chr22	26351204	26351204	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggggaggagctttcacaggcGgccacctccgagtcccagca	14	14	1	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr22:26351204G>A	uc003abz.1	+	39	6280	c.6030G>A	c.(6028-6030)GCG>GCA	p.A2010A	MYO18B_uc003aca.1_Silent_p.A1891A|MYO18B_uc010guy.1_Silent_p.A1892A|MYO18B_uc010guz.1_Silent_p.A1890A|MYO18B_uc011aka.1_Silent_p.A1164A|MYO18B_uc011akb.1_Silent_p.A1523A|MYO18B_uc010gva.1_Silent_p.A8A	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2010	Tail.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TTTCACAGGCGGCCACCTCCG	0.647													7	16	---	---	---	---	PASS	A	26351204	A	A	26351204	2	1	149	1	0	0	0	0	0	0	0	1	10066	1103	39	1		1	MYO18B	22	26351204	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	51492	26351204	24953362	418	53422										
ENTHD1	150350	broad.mit.edu	37	chr22	40161479	40161479	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcaatgttttaagaccttctGcagctgattgcttttctaaa	6	8	3	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr22:40161479G>T	uc003ayg.2	-	6	1219	c.968C>A	c.(967-969)GCA>GAA	p.A323E		NM_152512	NP_689725	Q8IYW4	ENTD1_HUMAN	ENTH domain containing 1	323										ovary(2)|skin(1)	3	Melanoma(58;0.0749)					AAGACCTTCTGCAGCTGATTG	0.398													108	256	---	---	---	---	PASS	T	40161479	T	T	40161479	3	4	149	1	0	0	0	0	1	0	0	0	5137	1319	46	3	863	3	ENTHD1	22	40161479	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	13810275	40161479	11143087	419	53423										
EP300	2033	broad.mit.edu	37	chr22	41565529	41565529	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gagtatacatatcttacctcGatagtgttcatttcttccgt	6	9	3	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr22:41565529G>A	uc003azl.3	+	26	4590	c.4195G>A	c.(4195-4197)GAT>AAT	p.D1399N		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1399				D->Y: Does not interact with TFAP2A and inhibits transcriptional coactivation of TFAP2A by CITED2. Does not inhibit interaction with CITED2, DNA-binding of TFAP2A or nuclear localization of TFAP2A or CITED2.	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	p.D1399Y(1)		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						ATCTTACCTCGATAGTGTTCA	0.338			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				133	186	---	---	---	---	PASS	A	41565529	A	A	41565529	3	1	149	1	0	0	0	0	1	0	0	0	5148	1058	37	2	4297	2	EP300	22	41565529	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1404050	41565529	9739037	420	53424										
EFCAB6	64800	broad.mit.edu	37	chr22	43930576	43930576	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgggcaacataccatcttgtGtgcattctggatcttcatcc	8	11	4	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chr22:43930576G>T	uc003bdy.1	-	30	4440	c.4225C>A	c.(4225-4227)CAC>AAC	p.H1409N	EFCAB6_uc003bdz.1_Missense_Mutation_p.H1257N|EFCAB6_uc010gzi.1_Missense_Mutation_p.H1257N	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1409	Interaction with AR.|Interaction with PARK7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				ACCATCTTGTGTGCATTCTGG	0.393													42	75	---	---	---	---	PASS	T	43930576	T	T	43930576	3	4	149	1	0	0	0	0	1	0	0	0	4939	1377	48	3	292	3	EFCAB6	22	43930576	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	2365047	43930576	7373990	421	53425										
VCX3A	51481	broad.mit.edu	37	chrX	6451848	6451848	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tggttcctccacctggctctCctgactcagtggttcctcca	8	16	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:6451848C>A	uc004crs.2	-	3	806	c.499G>T	c.(499-501)GAG>TAG	p.E167*	VCX3A_uc010ndk.1_Intron	NM_016379	NP_057463	Q9NNX9	VCX3_HUMAN	variable charge, X-linked 3A	167	8 X 10 AA tandem repeats of L-S-Q-E-S- [EQ]-V-E-E-P.|7.|Glu-rich.				brain development	nucleolus					0						ACCTGGCTCTCCTGACTCAGT	0.577													66	299	---	---	---	---	PASS	A	6451848	A	A	6451848	4	1	149	1	0	0	0	0	0	1	0	0	17141	864	30	2	65	2	VCX3A	23	6451848	Nonsense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08		6451848	148818712	422	53426										
GRPR	2925	broad.mit.edu	37	chrX	16170572	16170572	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caactcctgcgtgaacccctTtgccctctacctgctgagca	7	17	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:16170572T>A	uc004cxj.2	+	3	1612	c.959T>A	c.(958-960)TTT>TAT	p.F320Y		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	320	Helical; Name=7; (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					GTGAACCCCTTTGCCCTCTAC	0.572													84	208	---	---	---	---	PASS	A	16170572	A	A	16170572	3	1	149	1	0	0	0	0	1	0	0	0	6808	1841	64	5	969	5	GRPR	23	16170572	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	9718724	16170572	139099988	423	53427										
TXLNG	55787	broad.mit.edu	37	chrX	16858001	16858001	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	taatttggcgtaccaaatggGaaaacaataataaagcactt	7	6	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:16858001G>T	uc004cxq.1	+	9	1261	c.1210G>T	c.(1210-1212)GAA>TAA	p.E404*	TXLNG_uc010ney.1_Nonsense_Mutation_p.E272*	NM_018360	NP_060830	Q9NUQ3	TXLNG_HUMAN	gamma-taxilin	404	Potential.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1						TACCAAATGGGAAAACAATAA	0.368													36	121	---	---	---	---	PASS	T	16858001	T	T	16858001	4	4	149	1	0	0	0	0	0	1	0	0	16786	1175	41	2	1244	2	TXLNG	23	16858001	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	687429	16858001	138412559	424	53428										
SCML2	10389	broad.mit.edu	37	chrX	18283770	18283770	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aacagaactgctccttttggGgactgcagtaggtccaggtg	13	9	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:18283770G>C	uc004cyl.2	-	8	1040	c.883C>G	c.(883-885)CCC>GCC	p.P295A	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_Missense_Mutation_p.P295A|SCML2_uc011miz.1_Missense_Mutation_p.P229A|SCML2_uc010nfc.2_Missense_Mutation_p.P31A	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	295					anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					CTCCTTTTGGGGACTGCAGTA	0.403													68	272	---	---	---	---	PASS	C	18283770	C	C	18283770	3	2	149	1	0	0	0	0	1	0	0	0	13910	1232	43	4	1251	4	SCML2	23	18283770	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1425769	18283770	136986790	425	53429										
KLHL34	257240	broad.mit.edu	37	chrX	21674689	21674689	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tcccgcatggcgggcacttcCgtccaagcgtggaagcgcgg	15	14	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:21674689C>A	uc004czz.1	-	1	1760	c.1218G>T	c.(1216-1218)ACG>ACT	p.T406T		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	406	Kelch 2.									ovary(1)	1						CGGGCACTTCCGTCCAAGCGT	0.731													4	6	---	---	---	---	PASS	A	21674689	A	A	21674689	2	1	149	1	0	0	0	0	0	0	0	1	8387	639	23	1		1	KLHL34	23	21674689	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	3390919	21674689	133595871	426	53430										
ZNF645	158506	broad.mit.edu	37	chrX	22291404	22291404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atgtccgcgctgtcgttatcCtgtgctgagaattgaggcgc	13	10	0	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:22291404C>A	uc004dai.1	+	1	345	c.296C>A	c.(295-297)CCT>CAT	p.P99H		NM_152577	NP_689790	Q8N7E2	ZN645_HUMAN	zinc finger protein 645	99						intracellular	zinc ion binding			lung(1)|pancreas(1)	2						TGTCGTTATCCTGTGCTGAGA	0.418													4	195	---	---	---	---	PASS	A	22291404	A	A	22291404	3	1	149	1	0	0	0	0	1	0	0	0	18058	681	24	3	298	3	ZNF645	23	22291404	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	616715	22291404	132979156	427	53431										
DMD	1756	broad.mit.edu	37	chrX	31165523	31165523	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggcctcagcaatgagctcagCatcccggggactctggggag	15	12	3	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:31165523C>A	uc004dda.1	-	75	10910	c.10666G>T	c.(10666-10668)GCT>TCT	p.A3556S	DMD_uc004dcq.1_Missense_Mutation_p.A827S|DMD_uc004dcr.1_Missense_Mutation_p.A976S|DMD_uc004dcs.1_Missense_Mutation_p.A986S|DMD_uc004dct.1_Missense_Mutation_p.A1096S|DMD_uc004dcu.1_Missense_Mutation_p.A1096S|DMD_uc004dcv.1_Missense_Mutation_p.A1083S|DMD_uc004dcw.2_Missense_Mutation_p.A2212S|DMD_uc004dcx.2_Missense_Mutation_p.A2215S|DMD_uc004dcz.2_Missense_Mutation_p.A3433S|DMD_uc004dcy.1_Missense_Mutation_p.A3552S|DMD_uc004ddb.1_Missense_Mutation_p.A3548S|DMD_uc004dcm.1_Missense_Mutation_p.A488S|DMD_uc004dcn.1_Missense_Mutation_p.A475S|DMD_uc004dco.1_Missense_Mutation_p.A488S|DMD_uc004dcp.1_Missense_Mutation_p.A475S|DMD_uc011mkb.1_Missense_Mutation_p.A378S	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3556					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				ATGAGCTCAGCATCCCGGGGA	0.552													31	81	---	---	---	---	PASS	A	31165523	A	A	31165523	3	1	149	1	0	0	0	0	1	0	0	0	4580	710	25	3	497	3	DMD	23	31165523	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	8874119	31165523	124105037	428	53432										
USP9X	8239	broad.mit.edu	37	chrX	41000371	41000371	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	agccaaaaatgatgctctttCaatgattattaaatctttga	5	6	3	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:41000371C>A	uc004dfb.2	+	8	1556	c.923C>A	c.(922-924)TCA>TAA	p.S308*	USP9X_uc004dfc.2_Nonsense_Mutation_p.S308*	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	308					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						GATGCTCTTTCAATGATTATT	0.289													29	39	---	---	---	---	PASS	A	41000371	A	A	41000371	4	1	149	1	0	0	0	0	0	1	0	0	17087	838	29	2	949	2	USP9X	23	41000371	Nonsense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	9834848	41000371	114270189	429	53433										
CASK	8573	broad.mit.edu	37	chrX	41383258	41383258	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atgaaaacaacaaaaggagcAaactctgcagttctcaggac	8	9	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:41383258A>G	uc004dfl.3	-	26	2581	c.2535T>C	c.(2533-2535)TTT>TTC	p.F845F	CASK_uc004dfj.3_Silent_p.F390F|CASK_uc004dfk.3_Silent_p.F665F|CASK_uc004dfm.3_Silent_p.F822F|CASK_uc004dfn.3_Silent_p.F821F	NM_003688	NP_003679	O14936	CSKP_HUMAN	calcium/calmodulin-dependent serine protein	850	Guanylate kinase-like.				cell adhesion	actin cytoskeleton|cytoplasm|nucleus|plasma membrane	ATP binding|calmodulin binding|guanylate kinase activity|protein serine/threonine kinase activity			ovary(3)|lung(2)|stomach(1)	6						CAAAAGGAGCAAACTCTGCAG	0.353													9	37	---	---	---	---	PASS	G	41383258	G	G	41383258	2	3	149	1	0	0	0	0	0	0	0	1	2665	127	5	5		5	CASK	23	41383258	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08	382887	41383258	113887302	430	53434										
USP11	8237	broad.mit.edu	37	chrX	47101705	47101705	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccgcgccgcaagccagagcaGgtgtggggcagtgggggcct	19	12	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:47101705G>T	uc004dhp.2	+	10	1533	c.1533G>T	c.(1531-1533)CAG>CAT	p.Q511H	USP11_uc004dhq.2_Missense_Mutation_p.Q238H	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	511					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						AGCCAGAGCAGGTGTGGGGCA	0.547													7	26	---	---	---	---	PASS	T	47101705	T	T	47101705	3	4	149	1	0	0	0	0	1	0	0	0	17039	1014	35	3	1571	3	USP11	23	47101705	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	5718447	47101705	108168855	431	53435										
TBC1D25	4943	broad.mit.edu	37	chrX	48418720	48418720	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gcacatgctgaggcctgctgGtggaggaggtagtacctttg	16	8	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:48418720G>A	uc004dka.1	+	6	1535	c.1424G>A	c.(1423-1425)GGT>GAT	p.G475D	TBC1D25_uc011mly.1_Missense_Mutation_p.G417D|TBC1D25_uc004dkb.1_Missense_Mutation_p.G221D|TBC1D25_uc011mlz.1_Missense_Mutation_p.G221D|TBC1D25_uc011mma.1_Missense_Mutation_p.G221D|TBC1D25_uc004dkc.1_Missense_Mutation_p.G221D|TBC1D25_uc011mmb.1_Missense_Mutation_p.G479D|TBC1D25_uc011mmc.1_Missense_Mutation_p.G221D|TBC1D25_uc011mmd.1_Missense_Mutation_p.G221D	NM_002536	NP_002527	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	475						intracellular	Rab GTPase activator activity			ovary(1)	1						AGGCCTGCTGGTGGAGGAGGT	0.637													15	71	---	---	---	---	PASS	A	48418720	A	A	48418720	3	1	149	1	0	0	0	0	1	0	0	0	15612	1261	44	3	1446	3	TBC1D25	23	48418720	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	1317015	48418720	106851840	432	53436										
RBM3	5935	broad.mit.edu	37	chrX	48433599	48433599	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aagaaggaaagctcttcgtgGgagggctcaactttaacacc	11	9	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:48433599G>T	uc004dkf.1	+	2	170	c.31G>T	c.(31-33)GGA>TGA	p.G11*	RBM3_uc004dkd.1_RNA|RBM3_uc004dkg.2_Nonsense_Mutation_p.G11*	NM_006743	NP_006734	P98179	RBM3_HUMAN	RNA binding motif protein 3	11	RRM.				positive regulation of translation	dendrite|nucleus	nucleotide binding|RNA binding			ovary(1)	1						GCTCTTCGTGGGAGGGCTCAA	0.517											OREG0019765	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	25	---	---	---	---	PASS	T	48433599	T	T	48433599	4	4	149	1	0	0	0	0	0	1	0	0	13129	1233	43	3	33	3	RBM3	23	48433599	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	14879	48433599	106836961	433	53437										
GRIPAP1	56850	broad.mit.edu	37	chrX	48853675	48853675	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccagcaccttgctgaactcgGccattagtgtgctgttctgc	10	13	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:48853675G>C	uc004dly.1	-	5	328	c.293C>G	c.(292-294)GCC>GGC	p.A98G	GRIPAP1_uc004dma.2_Missense_Mutation_p.A98G	NM_020137	NP_064522	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1 isoform 1	98	Potential.					early endosome				breast(2)|kidney(1)	3						GCTGAACTCGGCCATTAGTGT	0.537													3	19	---	---	---	---	PASS	C	48853675	C	C	48853675	3	2	149	1	0	0	0	0	1	0	0	0	6789	1203	42	4	2374	4	GRIPAP1	23	48853675	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	420076	48853675	106416885	434	53438										
CACNA1F	778	broad.mit.edu	37	chrX	49065139	49065139	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gctgagggctgggagaccatCgtggcctgtggagagtcaca	17	9	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:49065139C>A	uc004dnb.2	-	43	5054	c.4992G>T	c.(4990-4992)ACG>ACT	p.T1664T	CACNA1F_uc010nip.2_Silent_p.T1653T	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	1664	Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	GGGAGACCATCGTGGCCTGTG	0.562													20	88	---	---	---	---	PASS	A	49065139	A	A	49065139	2	1	149	1	0	0	0	0	0	0	0	1	2543	871	31	2		2	CACNA1F	23	49065139	Silent	SNP	C	TCGA-66-2763-01A-01D-1522-08	211464	49065139	106205421	435	53439										
CACNA1F	778	broad.mit.edu	37	chrX	49079264	49079264	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	atatgccatgataccatcatAcatgaccacgttccagtcct	5	13	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:49079264A>T	uc004dnb.2	-	16	2214	c.2152T>A	c.(2152-2154)TAT>AAT	p.Y718N	CACNA1F_uc010nip.2_Missense_Mutation_p.Y707N	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	718	Extracellular (Potential).|II.				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	ATACCATCATACATGACCACG	0.542													20	121	---	---	---	---	PASS	T	49079264	T	T	49079264	3	4	149	1	0	0	0	0	1	0	0	0	2543	391	14	5	3913	5	CACNA1F	23	49079264	Missense_Mutation	SNP	A	TCGA-66-2763-01A-01D-1522-08	14125	49079264	106191296	436	53440										
DGKK	139189	broad.mit.edu	37	chrX	50114795	50114795	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tccttattcatggcatccagGgcgctttgtagtgcagtctc	10	11	2	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:50114795G>T	uc010njr.1	-	27	3600	c.3540C>A	c.(3538-3540)GCC>GCA	p.A1180A		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	1180					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					TGGCATCCAGGGCGCTTTGTA	0.433													14	23	---	---	---	---	PASS	T	50114795	T	T	50114795	2	4	149	1	0	0	0	0	0	0	0	1	4472	1219	43	3		3	DGKK	23	50114795	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	1035531	50114795	105155765	437	53441										
HUWE1	10075	broad.mit.edu	37	chrX	53564623	53564623	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	catgtcttctttccggagccCctcatctaaacgctccagct	6	16	4	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:53564623C>A	uc004dsp.2	-	78	12433	c.12031G>T	c.(12031-12033)GGG>TGG	p.G4011W	HUWE1_uc004dsn.2_Missense_Mutation_p.G2819W|HUWE1_uc004dsq.1_Missense_Mutation_p.G311W	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	4011					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						TTCCGGAGCCCCTCATCTAAA	0.468													12	21	---	---	---	---	PASS	A	53564623	A	A	53564623	3	1	149	1	0	0	0	0	1	0	0	0	7461	623	22	3	1121	3	HUWE1	23	53564623	Missense_Mutation	SNP	C	TCGA-66-2763-01A-01D-1522-08	3449828	53564623	101705937	438	53442										
WNK3	65267	broad.mit.edu	37	chrX	54321179	54321179	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ctgcgttcttccaaacagccAgcaggcttcttctctcttgt	7	14	4	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:54321179A>T	uc004dtd.1	-	8	1939	c.1500T>A	c.(1498-1500)GCT>GCA	p.A500A	WNK3_uc004dtc.1_Silent_p.A500A	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	500					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						CCAAACAGCCAGCAGGCTTCT	0.478													25	108	---	---	---	---	PASS	T	54321179	T	T	54321179	2	4	149	1	0	0	0	0	0	0	0	1	17376	175	7	5		5	WNK3	23	54321179	Silent	SNP	A	TCGA-66-2763-01A-01D-1522-08	756556	54321179	100949381	439	53443										
GNL3L	54552	broad.mit.edu	37	chrX	54569759	54569759	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ggcaacaagaagctggtcctGgtcttgaacaagattggtgg	14	7	1	3			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:54569759G>T	uc004dth.1	+	7	649	c.510G>T	c.(508-510)CTG>CTT	p.L170L	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	170					ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						AGCTGGTCCTGGTCTTGAACA	0.547													12	45	---	---	---	---	PASS	T	54569759	T	T	54569759	2	4	149	1	0	0	0	0	0	0	0	1	6538	1335	47	3		3	GNL3L	23	54569759	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	248580	54569759	100700801	440	53444										
ITIH5L	347365	broad.mit.edu	37	chrX	54784427	54784427	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gggcattgacagggtatgagGgctctctcccaatggctcca	13	11	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:54784427G>T	uc004dtj.2	-	8	2110	c.2080C>A	c.(2080-2082)CCT>ACT	p.P694T		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	694					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						AGGGTATGAGGGCTCTCTCCC	0.488													27	230	---	---	---	---	PASS	T	54784427	T	T	54784427	3	4	149	1	0	0	0	0	1	0	0	0	7908	1232	43	3	1885	3	ITIH5L	23	54784427	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	214668	54784427	100486133	441	53445										
DLG3	1741	broad.mit.edu	37	chrX	69665408	69665408	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aaccgggactggtatgagcaGgtatggaccagcggaggggg	19	7	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:69665408G>T	uc004dyi.1	+	1	685	c.357G>T	c.(355-357)CAG>CAT	p.Q119H		NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	119					axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					GGTATGAGCAGGTATGGACCA	0.672													6	7	---	---	---	---	PASS	T	69665408	T	T	69665408	3	4	149	1	0	0	0	0	1	0	0	0	4556	1014	35	3	359	3	DLG3	23	69665408	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	14880981	69665408	85605152	442	53446										
TRMT2B	79979	broad.mit.edu	37	chrX	100297169	100297169	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gaaagagctgtgaccatcctGgtggatttctggcataccag	12	9	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:100297169G>A	uc004egq.2	-	2	409	c.110C>T	c.(109-111)CCA>CTA	p.P37L	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Missense_Mutation_p.P37L|TRMT2B_uc004egs.2_Missense_Mutation_p.P37L|TRMT2B_uc004egt.2_Missense_Mutation_p.P37L|TRMT2B_uc004egu.2_Intron|TRMT2B_uc004egv.2_Missense_Mutation_p.P37L	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	37							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						TGACCATCCTGGTGGATTTCT	0.483													247	79	---	---	---	---	PASS	A	100297169	A	A	100297169	3	1	149	1	0	0	0	0	1	0	0	0	16563	1348	47	3	1452	3	TRMT2B	23	100297169	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	30631761	100297169	54973391	443	53447										
RAB40A	142684	broad.mit.edu	37	chrX	102755638	102755638	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	tgtcgcccaccagcaggaacTtgagcaggaagtcataggcc	12	12	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:102755638T>A	uc004ekk.2	-	3	389	c.47A>T	c.(46-48)AAG>ATG	p.K16M		NM_080879	NP_543155	Q8WXH6	RB40A_HUMAN	RAB40A, member RAS oncogene family	16					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0						CAGCAGGAACTTGAGCAGGAA	0.677													161	45	---	---	---	---	PASS	A	102755638	A	A	102755638	3	1	149	1	0	0	0	0	1	0	0	0	12939	1609	56	5	790	5	RAB40A	23	102755638	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	2458469	102755638	52514922	444	53448										
NRK	203447	broad.mit.edu	37	chrX	105075071	105075071	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	caactggaatattctcactaGataaaaccattggccttggt	7	9	1	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:105075071G>T	uc004emd.2	+	2	385	c.82G>T	c.(82-84)GAT>TAT	p.D28Y	NRK_uc010npc.1_5'UTR	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	28	Protein kinase.						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						ATTCTCACTAGATAAAACCAT	0.284										HNSCC(51;0.14)			149	74	---	---	---	---	PASS	T	105075071	T	T	105075071	3	4	149	1	0	0	0	0	1	0	0	0	10655	942	33	2	88	2	NRK	23	105075071	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	2319433	105075071	50195489	445	53449										
CAPN6	827	broad.mit.edu	37	chrX	110490620	110490620	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	actataataggaatgtcagtGgtccttctgtagaaaatggc	10	6	2	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:110490620G>A	uc004epc.1	-	12	1887	c.1719C>T	c.(1717-1719)ACC>ACT	p.T573T	CAPN6_uc011msu.1_Silent_p.T318T	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	573	C2.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						GAATGTCAGTGGTCCTTCTGT	0.428													65	698	---	---	---	---	PASS	A	110490620	A	A	110490620	2	1	149	1	0	0	0	0	0	0	0	1	2630	1335	47	3		3	CAPN6	23	110490620	Silent	SNP	G	TCGA-66-2763-01A-01D-1522-08	5415549	110490620	44779940	446	53450										
AGTR2	186	broad.mit.edu	37	chrX	115304522	115304522	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	ccggttccaacagaagctccGcagtgtgtttagggttccaa	11	11	0	1			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:115304522G>T	uc004eqh.3	+	3	1196	c.989G>T	c.(988-990)CGC>CTC	p.R330L		NM_000686	NP_000677	P50052	AGTR2_HUMAN	angiotensin II receptor, type 2	330	Cytoplasmic (Potential).				behavior|blood vessel remodeling|brain development|G-protein signaling, coupled to cGMP nucleotide second messenger|intracellular protein kinase cascade|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of heart rate|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of nitric-oxide synthase activity|positive regulation of phosphoprotein phosphatase activity|positive regulation of vasodilation|regulation of systemic arterial blood pressure by circulatory renin-angiotensin		angiotensin type II receptor activity|receptor antagonist activity			ovary(2)|lung(1)	3						CAGAAGCTCCGCAGTGTGTTT	0.463													429	167	---	---	---	---	PASS	T	115304522	T	T	115304522	3	4	149	1	0	0	0	0	1	0	0	0	402	1087	38	1	991	1	AGTR2	23	115304522	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	4813902	115304522	39966038	447	53451										
SLC6A14	11254	broad.mit.edu	37	chrX	115582714	115582714	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	aaaaacaactgcttctctgaTgccattgtggtttgtttgac	8	8	1	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:115582714T>A	uc004eqi.2	+	8	1142	c.1038T>A	c.(1036-1038)GAT>GAA	p.D346E		NM_007231	NP_009162	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid	346					cellular amino acid metabolic process|response to toxin	integral to membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)|pancreas(1)	3					L-Proline(DB00172)	GCTTCTCTGATGCCATTGTGG	0.408													332	165	---	---	---	---	PASS	A	115582714	A	A	115582714	3	1	149	1	0	0	0	0	1	0	0	0	14677	1461	51	5	1068	5	SLC6A14	23	115582714	Missense_Mutation	SNP	T	TCGA-66-2763-01A-01D-1522-08	278192	115582714	39687846	448	53452										
BCORL1	63035	broad.mit.edu	37	chrX	129149114	129149114	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	gaaacgatatactccagcccGcattgcccctgggctgccag	10	15	0	0			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:129149114G>T	uc004evb.1	+	4	2480	c.2366G>T	c.(2365-2367)CGC>CTC	p.R789L	BCORL1_uc010nrd.1_Missense_Mutation_p.R691L	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	789					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						ACTCCAGCCCGCATTGCCCCT	0.572													68	43	---	---	---	---	PASS	T	129149114	T	T	129149114	3	4	149	1	0	0	0	0	1	0	0	0	1387	1087	38	1	2376	1	BCORL1	23	129149114	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	13566400	129149114	26121446	449	53453										
GPC3	2719	broad.mit.edu	37	chrX	132795841	132795841	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cagctcatggagattgaactGgtttttcattccattccttg	8	9	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:132795841G>A	uc004exe.1	-	6	1520	c.1330C>T	c.(1330-1332)CAG>TAG	p.Q444*	GPC3_uc004exd.1_Nonsense_Mutation_p.Q316*|GPC3_uc010nrn.1_Nonsense_Mutation_p.Q467*|GPC3_uc011mvh.1_Nonsense_Mutation_p.Q428*|GPC3_uc010nro.1_Nonsense_Mutation_p.Q390*	NM_004484	NP_004475	P51654	GPC3_HUMAN	glypican 3 isoform 2 precursor	444						extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding|peptidyl-dipeptidase inhibitor activity			lung(2)|prostate(1)|breast(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					AGATTGAACTGGTTTTTCATT	0.398			T|D|Mis|N|F|S			Wilms tumour			Simpson-Golabi-Behmel_syndrome				19	150	---	---	---	---	PASS	A	132795841	A	A	132795841	4	1	149	1	0	0	0	0	0	1	0	0	6599	1357	47	3	424	3	GPC3	23	132795841	Nonsense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	3646727	132795841	22474719	450	53454										
FAM50A	9130	broad.mit.edu	37	chrX	153678268	153678268	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0835214446952596	37	0.00168407274210144	1.71088024650233	2.92236842105263	0.969152792696026	0.0408808358183998	0.253371441419597	15	cttcatcgtcaccaaggcacGggggaagagtggtgagtgcc	15	10	2	2			TCGA-66-2763-01A-01D-1522-08	TCGA-66-2763-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6493c56-5322-4961-a693-8e8a62b0f7f1	242e9501-9e40-45bb-8658-6c871557cc4b	g.chrX:153678268G>A	uc004fll.3	+	10	916	c.818G>A	c.(817-819)CGG>CAG	p.R273Q		NM_004699	NP_004690	Q14320	FA50A_HUMAN	XAP-5 protein	273					spermatogenesis	nucleus				ovary(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ACCAAGGCACGGGGGAAGAGT	0.642											OREG0003609	type=REGULATORY REGION|Gene=FAM50A|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	18	59	---	---	---	---	PASS	A	153678268	A	A	153678268	3	1	149	1	0	0	0	0	1	0	0	0	5577	1116	39	1	856	1	FAM50A	23	153678268	Missense_Mutation	SNP	G	TCGA-66-2763-01A-01D-1522-08	20882427	153678268	1592292	451	53455										
PARK7	11315	broad.mit.edu	37	chr1	8037728	8037728	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ttaggtcctactgctctgttGgctcatgaaataggttttgg	11	7	2	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:8037728G>T	uc001aou.3	+	6	444	c.339G>T	c.(337-339)TTG>TTT	p.L113F	PARK7_uc001aox.3_Missense_Mutation_p.L113F|PARK7_uc001aov.3_Missense_Mutation_p.L93F	NM_001123377	NP_001116849	Q99497	PARK7_HUMAN	Parkinson disease protein 7	113					autophagy|cell death|cellular response to hydrogen peroxide|inflammatory response|mitochondrion organization|negative regulation of cell death|negative regulation of protein binding|neuroprotection|protein stabilization|regulation of androgen receptor signaling pathway|regulation of inflammatory response|single fertilization	mitochondrion|nucleus	mRNA binding|peptidase activity|peroxidase activity|protein homodimerization activity				0	Ovarian(185;0.06)|all_lung(157;0.151)	all_epithelial(116;1.76e-16)|all_lung(118;3.66e-05)|Lung NSC(185;0.000163)|Renal(390;0.000469)|Colorectal(325;0.0033)|Breast(348;0.0044)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;1.28e-70)|GBM - Glioblastoma multiforme(8;3.05e-36)|Colorectal(212;6.83e-08)|COAD - Colon adenocarcinoma(227;7.51e-06)|Kidney(185;5.22e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000414)|KIRC - Kidney renal clear cell carcinoma(229;0.000967)|STAD - Stomach adenocarcinoma(132;0.00102)|READ - Rectum adenocarcinoma(331;0.0649)		CTGCTCTGTTGGCTCATGAAA	0.284													4	120	---	---	---	---	PASS	T	8037728	T	T	8037728	3	4	150	1	0	0	0	0	1	0	0	0	11450	1339	47	3	357	3	PARK7	1	8037728	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08		8037728	241212893	1	53456										
MTOR	2475	broad.mit.edu	37	chr1	11318609	11318609	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	accaattcaaaaatgtgatgGttcagttggtcatagaagcg	10	6	3	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:11318609G>C	uc001asd.2	-	3	325	c.204C>G	c.(202-204)AAC>AAG	p.N68K		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	68					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						AAATGTGATGGTTCAGTTGGT	0.413													68	182	---	---	---	---	PASS	C	11318609	C	C	11318609	3	2	150	1	0	0	0	0	1	0	0	0	9954	1252	44	4	7669	4	MTOR	1	11318609	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	3280881	11318609	237932012	2	53457										
PRAMEF13	400736	broad.mit.edu	37	chr1	13448272	13448272	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cttaacttgctcagcccactGgtgtggcgcaacaggtcctt	10	13	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:13448272G>A	uc010obi.1	-	4	1306	c.1203C>T	c.(1201-1203)ACC>ACT	p.T401T	PRAMEF14_uc009vnt.1_Silent_p.T353T	NM_001024661	NP_001019832	Q5VWM6	PRA13_HUMAN	PRAME family member 13	401											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;9.86e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|COAD - Colon adenocarcinoma(227;0.000502)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TCAGCCCACTGGTGTGGCGCA	0.557													31	78	---	---	---	---	PASS	A	13448272	A	A	13448272	2	1	150	1	0	0	0	0	0	0	0	1	12429	1335	47	3		3	PRAMEF13	1	13448272	Silent	SNP	G	TCGA-66-2765-01A-01D-1522-08	2129663	13448272	235802349	3	53458										
PADI6	353238	broad.mit.edu	37	chr1	17708501	17708501	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gatgactctgaatgtccaagGccccagctgtatcttaaaga	9	10	2	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:17708501G>T	uc001bak.1	+	6	593	c.593G>T	c.(592-594)GGC>GTC	p.G198V		NM_207421	NP_997304	Q6TGC4	PADI6_HUMAN	peptidylarginine deiminase type 6	190					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;7.59e-06)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.0134)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	AATGTCCAAGGCCCCAGCTGT	0.493													27	81	---	---	---	---	PASS	T	17708501	T	T	17708501	3	4	150	1	0	0	0	0	1	0	0	0	11381	1203	42	3	615	3	PADI6	1	17708501	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	4260229	17708501	231542120	4	53459										
ARHGEF10L	55160	broad.mit.edu	37	chr1	18023729	18023729	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cctgcgcccgcgacgcccacCgcaaggagatttgctctgtg	12	16	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:18023729C>T	uc001ban.2	+	29	3853	c.3694C>T	c.(3694-3696)CGC>TGC	p.R1232C	ARHGEF10L_uc001bao.2_Missense_Mutation_p.R1193C|ARHGEF10L_uc001bap.2_Missense_Mutation_p.R1188C|ARHGEF10L_uc001baq.2_Missense_Mutation_p.R993C|ARHGEF10L_uc010ocs.1_Missense_Mutation_p.R1005C|ARHGEF10L_uc001bar.2_Missense_Mutation_p.R935C|ARHGEF10L_uc009vpf.2_RNA|ARHGEF10L_uc001bas.2_Missense_Mutation_p.R256C	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	1232					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		CGACGCCCACCGCAAGGAGAT	0.682													3	64	---	---	---	---	PASS	T	18023729	T	T	18023729	3	4	150	1	0	0	0	0	1	0	0	0	895	652	23	1	3804	1	ARHGEF10L	1	18023729	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	315228	18023729	231226892	5	53460										
UBR4	23352	broad.mit.edu	37	chr1	19477075	19477075	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ctgccagcactggtacctctCcaggacagttccactggtcg	10	15	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:19477075C>G	uc001bbi.2	-	49	7430	c.7426G>C	c.(7426-7428)GAG>CAG	p.E2476Q	UBR4_uc001bbk.1_Missense_Mutation_p.E130Q	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2476					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TGGTACCTCTCCAGGACAGTT	0.522													4	183	---	---	---	---	PASS	G	19477075	G	G	19477075	3	3	150	1	0	0	0	0	1	0	0	0	16901	864	30	2	8357	2	UBR4	1	19477075	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	1453346	19477075	229773546	6	53461										
PCSK9	255738	broad.mit.edu	37	chr1	55524240	55524240	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cacggatggccacagccgtcGcccgctgcgccccagatgag	13	17	0	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:55524240G>A	uc001cyf.1	+	9	1714	c.1423G>A	c.(1423-1425)GCC>ACC	p.A475T	PCSK9_uc010oom.1_RNA	NM_174936	NP_777596	Q8NBP7	PCSK9_HUMAN	proprotein convertase subtilisin/kexin type 9	475					cellular response to insulin stimulus|cellular response to starvation|cholesterol homeostasis|cholesterol metabolic process|kidney development|liver development|low-density lipoprotein particle receptor catabolic process|lysosomal transport|negative regulation of catalytic activity|negative regulation of low-density lipoprotein particle clearance|negative regulation of receptor recycling|neuron differentiation|positive regulation of neuron apoptosis|positive regulation of receptor internalization|protein autoprocessing|regulation of receptor activity	extracellular space|late endosome|lysosome|perinuclear region of cytoplasm	apolipoprotein receptor binding|identical protein binding|low-density lipoprotein particle receptor binding|serine-type endopeptidase activity|very-low-density lipoprotein particle receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4						CACAGCCGTCGCCCGCTGCGC	0.637													7	38	---	---	---	---	PASS	A	55524240	A	A	55524240	3	1	150	1	0	0	0	0	1	0	0	0	11606	1087	38	1	1457	1	PCSK9	1	55524240	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	36047165	55524240	193726381	7	53462										
USP24	23358	broad.mit.edu	37	chr1	55545265	55545265	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aacaaggcttctacctcctcAtggaggggcaacagagggct	12	11	2	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:55545265A>G	uc001cyg.3	-	57	6666	c.6666T>C	c.(6664-6666)CAT>CAC	p.H2222H		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	2382					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						CTACCTCCTCATGGAGGGGCA	0.448													56	164	---	---	---	---	PASS	G	55545265	G	G	55545265	2	3	150	1	0	0	0	0	0	0	0	1	17052	214	8	5		5	USP24	1	55545265	Silent	SNP	A	TCGA-66-2765-01A-01D-1522-08	21025	55545265	193705356	8	53463										
GIPC2	54810	broad.mit.edu	37	chr1	78560690	78560690	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aaacaatctgtgttggggatCatattgaatccataaatgga	9	5	2	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:78560690C>G	uc001dik.2	+	3	671	c.481C>G	c.(481-483)CAT>GAT	p.H161D		NM_017655	NP_060125	Q8TF65	GIPC2_HUMAN	PDZ domain protein GIPC2	161	PDZ.					cytoplasm				ovary(1)	1						TGTTGGGGATCATATTGAATC	0.313													5	206	---	---	---	---	PASS	G	78560690	G	G	78560690	3	3	150	1	0	0	0	0	1	0	0	0	6393	826	29	2	491	2	GIPC2	1	78560690	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	23015425	78560690	170689931	9	53464										
GPR61	83873	broad.mit.edu	37	chr1	110085901	110085901	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cttccacctctgcctggtggAcctgctggctgccctgaccc	10	18	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:110085901A>G	uc001dxy.2	+	2	940	c.257A>G	c.(256-258)GAC>GGC	p.D86G		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	86	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		TGCCTGGTGGACCTGCTGGCT	0.622													54	182	---	---	---	---	PASS	G	110085901	G	G	110085901	3	3	150	1	0	0	0	0	1	0	0	0	6702	275	10	5	259	5	GPR61	1	110085901	Missense_Mutation	SNP	A	TCGA-66-2765-01A-01D-1522-08	31525211	110085901	139164720	10	53465										
RORC	6097	broad.mit.edu	37	chr1	151787406	151787406	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cacctatctctgtcagggagGcatagggtgcctccggtgtg	14	11	2	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:151787406G>A	uc001ezh.2	-	5	902	c.794C>T	c.(793-795)GCC>GTC	p.A265V	RORC_uc001ezg.2_Missense_Mutation_p.A244V|RORC_uc010pdo.1_Missense_Mutation_p.A319V|RORC_uc010pdp.1_Missense_Mutation_p.A265V	NM_005060	NP_005051	P51449	RORG_HUMAN	RAR-related orphan receptor C isoform a	265	Hinge (Potential).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			TGTCAGGGAGGCATAGGGTGC	0.602													13	45	---	---	---	---	PASS	A	151787406	A	A	151787406	3	1	150	1	0	0	0	0	1	0	0	0	13530	1203	42	3	790	3	RORC	1	151787406	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	41701505	151787406	97463215	11	53466										
FLG	2312	broad.mit.edu	37	chr1	152283373	152283373	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aagactctgtgtgatgagtgCctgattgtctggagctgtct	13	7	3	4			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:152283373C>T	uc001ezu.1	-	3	4025	c.3989G>A	c.(3988-3990)GGC>GAC	p.G1330D	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1330	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTGATGAGTGCCTGATTGTCT	0.423									Ichthyosis				102	366	---	---	---	---	PASS	T	152283373	T	T	152283373	3	4	150	1	0	0	0	0	1	0	0	0	5922	739	26	3	8200	3	FLG	1	152283373	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	495967	152283373	96967248	12	53467										
NES	10763	broad.mit.edu	37	chr1	156639850	156639850	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cagggaccccaggaagaaaaGgtgcctcagtccccaggtcc	12	14	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:156639850G>T	uc001fpq.2	-	4	4263	c.4130C>A	c.(4129-4131)CCT>CAT	p.P1377H		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	1377	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGGAAGAAAAGGTGCCTCAGT	0.517													31	108	---	---	---	---	PASS	T	156639850	T	T	156639850	3	4	150	1	0	0	0	0	1	0	0	0	10337	1000	35	3	739	3	NES	1	156639850	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	4356477	156639850	92610771	13	53468										
PVRL4	81607	broad.mit.edu	37	chr1	161046204	161046204	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aggcacttgagcatagctccTtctctgccaatgtgccacag	9	13	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:161046204T>G	uc001fxo.2	-	4	1091	c.792A>C	c.(790-792)GAA>GAC	p.E264D	PVRL4_uc010pjy.1_5'Flank|PVRL4_uc010pjz.1_5'UTR	NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	264	Ig-like C2-type 2.|Extracellular (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			GCATAGCTCCTTCTCTGCCAA	0.552													38	108	---	---	---	---	PASS	G	161046204	G	G	161046204	3	3	150	1	0	0	0	0	1	0	0	0	12842	1606	56	5	764	5	PVRL4	1	161046204	Missense_Mutation	SNP	T	TCGA-66-2765-01A-01D-1522-08	4406354	161046204	88204417	14	53469										
DUSP12	11266	broad.mit.edu	37	chr1	161726673	161726673	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aacacctgcttttcaaatacAtaagaatagagtggatgaaa	7	6	1	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:161726673A>G	uc001gbo.2	+	6	970	c.959A>G	c.(958-960)CAT>CGT	p.H320R	DUSP12_uc001gbp.2_Missense_Mutation_p.H190R	NM_007240	NP_009171	Q9UNI6	DUS12_HUMAN	dual specificity phosphatase 12	320					positive regulation of glucokinase activity	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity|zinc ion binding			breast(1)	1	all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00634)			TTTCAAATACATAAGAATAGA	0.388													39	122	---	---	---	---	PASS	G	161726673	G	G	161726673	3	3	150	1	0	0	0	0	1	0	0	0	4812	217	8	5	981	5	DUSP12	1	161726673	Missense_Mutation	SNP	A	TCGA-66-2765-01A-01D-1522-08	680469	161726673	87523948	15	53470										
NLRP3	114548	broad.mit.edu	37	chr1	247588376	247588376	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	agaggaaaaggaaggaaggaCgaacgttccagggagtcgtt	16	5	0	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr1:247588376C>T	uc001icr.2	+	5	1769	c.1631C>T	c.(1630-1632)ACG>ATG	p.T544M	NLRP3_uc001ics.2_Missense_Mutation_p.T544M|NLRP3_uc001icu.2_Missense_Mutation_p.T544M|NLRP3_uc001icw.2_Missense_Mutation_p.T544M|NLRP3_uc001icv.2_Missense_Mutation_p.T544M|NLRP3_uc010pyw.1_Missense_Mutation_p.T542M|NLRP3_uc001ict.1_Missense_Mutation_p.T542M	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	544					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			GAAGGAAGGACGAACGTTCCA	0.473													14	55	---	---	---	---	PASS	T	247588376	T	T	247588376	3	4	150	1	0	0	0	0	1	0	0	0	10478	536	19	1	1641	1	NLRP3	1	247588376	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	85861703	247588376	1662245	16	53471										
SMPD4	55627	broad.mit.edu	37	chr2	130914906	130914906	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cttcaggctgttggcaaaggCgtgcaggtgcttcagcagca	14	10	2	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr2:130914906C>A	uc002tqq.1	-	12	1652	c.1132G>T	c.(1132-1134)GCC>TCC	p.A378S	SMPD4_uc002tqo.1_5'UTR|SMPD4_uc002tqp.1_Missense_Mutation_p.A71S|SMPD4_uc010yzy.1_Missense_Mutation_p.A127S|SMPD4_uc010yzz.1_Missense_Mutation_p.A42S|SMPD4_uc002tqr.1_Missense_Mutation_p.A349S|SMPD4_uc002tqs.1_Missense_Mutation_p.A246S|SMPD4_uc002tqt.1_Missense_Mutation_p.A227S|SMPD4_uc010zaa.1_Missense_Mutation_p.A236S|SMPD4_uc010zab.1_Missense_Mutation_p.A276S|SMPD4_uc010zac.1_Missense_Mutation_p.A119S|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	339					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	TTGGCAAAGGCGTGCAGGTGC	0.657													5	10	---	---	---	---	PASS	A	130914906	A	A	130914906	3	1	150	1	0	0	0	0	1	0	0	0	14807	768	27	1	1504	1	SMPD4	2	130914906	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08		130914906	112284467	17	53472										
ACMSD	130013	broad.mit.edu	37	chr2	135616876	135616876	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ggaaagtcttcagagtggtgCgagagaattgctgggatcca	15	6	2	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr2:135616876C>A	uc002ttz.2	+	3	215	c.148C>A	c.(148-150)CGA>AGA	p.R50R	ACMSD_uc002tua.2_Nonsense_Mutation_p.C8*	NM_138326	NP_612199	Q8TDX5	ACMSD_HUMAN	aminocarboxymuconate semialdehyde decarboxylase	50					quinolinate metabolic process|tryptophan catabolic process	cytosol	aminocarboxymuconate-semialdehyde decarboxylase activity|metal ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.115)		CAGAGTGGTGCGAGAGAATTG	0.423													19	52	---	---	---	---	PASS	A	135616876	A	A	135616876	2	1	150	1	0	0	0	0	0	0	0	1	144	760	27	1		1	ACMSD	2	135616876	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08	4701970	135616876	107582497	18	53473										
LCT	3938	broad.mit.edu	37	chr2	136587206	136587206	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gcagacttgcctcattttggCattcataagacaaatcaaga	7	9	3	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr2:136587206C>T	uc002tuu.1	-	3	772	c.761G>A	c.(760-762)TGC>TAC	p.C254Y		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	254	Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CTCATTTTGGCATTCATAAGA	0.423													32	151	---	---	---	---	PASS	T	136587206	T	T	136587206	3	4	150	1	0	0	0	0	1	0	0	0	8693	710	25	3	5082	3	LCT	2	136587206	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	970330	136587206	106612167	19	53474										
MBD5	55777	broad.mit.edu	37	chr2	149247999	149247999	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gtgaagatgacctaaggaacCcagactccccctcttcaaat	7	13	2	4			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr2:149247999C>G	uc002twm.3	+	12	5087	c.4099C>G	c.(4099-4101)CCA>GCA	p.P1367A	MBD5_uc010zbs.1_Intron|MBD5_uc010fns.2_Missense_Mutation_p.P1367A|MBD5_uc002two.2_Missense_Mutation_p.P625A|MBD5_uc002twp.2_Missense_Mutation_p.P417A	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1367						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		CCTAAGGAACCCAGACTCCCC	0.453													30	119	---	---	---	---	PASS	G	149247999	G	G	149247999	3	3	150	1	0	0	0	0	1	0	0	0	9347	623	22	4	4125	4	MBD5	2	149247999	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	12660793	149247999	93951374	20	53475										
KCNJ3	3760	broad.mit.edu	37	chr2	155711815	155711815	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aagaaaaatgaactctgatcGcttcacataacaaagcactc	5	10	2	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr2:155711815G>T	uc002tyv.1	+	3	1691	c.1496G>T	c.(1495-1497)CGC>CTC	p.R499L	KCNJ3_uc010zce.1_3'UTR	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	499	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	AACTCTGATCGCTTCACATAA	0.408													5	22	---	---	---	---	PASS	T	155711815	T	T	155711815	3	4	150	1	0	0	0	0	1	0	0	0	8052	1087	38	1	1506	1	KCNJ3	2	155711815	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	6463816	155711815	87487558	21	53476										
LRP2	4036	broad.mit.edu	37	chr2	170092442	170092442	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gtccatgaagtagagcagtcTgttggggtagtcaatagtta	13	5	2	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr2:170092442T>C	uc002ues.2	-	29	5041	c.4828A>G	c.(4828-4830)AGA>GGA	p.R1610G		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1610	LDL-receptor class B 13.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TAGAGCAGTCTGTTGGGGTAG	0.498													21	83	---	---	---	---	PASS	C	170092442	C	C	170092442	3	2	150	1	0	0	0	0	1	0	0	0	8956	1588	55	5	9343	5	LRP2	2	170092442	Missense_Mutation	SNP	T	TCGA-66-2765-01A-01D-1522-08	14380627	170092442	73106931	22	53477										
TTN	7273	broad.mit.edu	37	chr2	179474495	179474495	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ctctgctcgcacacggaattGgtactctttcccctcttcaa	6	15	4	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr2:179474495G>T	uc010zfg.1	-	221	44175	c.43951C>A	c.(43951-43953)CAA>AAA	p.Q14651K	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q8346K|TTN_uc010zfi.1_Missense_Mutation_p.Q8279K|TTN_uc010zfj.1_Missense_Mutation_p.Q8154K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15578							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)			ACACGGAATTGGTACTCTTTC	0.473													168	492	---	---	---	---	PASS	T	179474495	T	T	179474495	3	4	150	1	0	0	0	0	1	0	0	0	16732	1357	47	3	56402	3	TTN	2	179474495	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	9382053	179474495	63724878	23	53478										
TTN	7273	broad.mit.edu	37	chr2	179571596	179571596	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gaagtgcacttactttctacGactctgatactctgaggttc	8	10	3	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr2:179571596G>A	uc010zfg.1	-	98	25619	c.25395C>T	c.(25393-25395)GTC>GTT	p.V8465V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.V5126V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9392							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)			TACTTTCTACGACTCTGATAC	0.353													4	22	---	---	---	---	PASS	A	179571596	A	A	179571596	2	1	150	1	0	0	0	0	0	0	0	1	16732	1045	37	2		2	TTN	2	179571596	Silent	SNP	G	TCGA-66-2765-01A-01D-1522-08	97101	179571596	63627777	24	53479										
UGT1A8	54576	broad.mit.edu	37	chr2	234526420	234526420	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tgctgctgacctgtggctttGctgaggcagggaagctgctg	16	9	0	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr2:234526420G>C	uc002vup.2	+	1	130	c.67G>C	c.(67-69)GCT>CCT	p.A23P	UGT1A8_uc010zmv.1_Missense_Mutation_p.A23P	NM_019076	NP_061949	Q9HAW9	UD18_HUMAN	UDP glycosyltransferase 1 family, polypeptide A8	23					drug metabolic process|fatty acid metabolic process|flavone metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme inhibitor activity|fatty acid binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|steroid binding			ovary(2)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;2.56e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000482)|Lung(119;0.00404)|LUSC - Lung squamous cell carcinoma(224;0.008)		CTGTGGCTTTGCTGAGGCAGG	0.587													16	97	---	---	---	---	PASS	C	234526420	C	C	234526420	3	2	150	1	0	0	0	0	1	0	0	0	16948	1319	46	4	69	4	UGT1A8	2	234526420	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	54954824	234526420	8672953	25	53480										
UBE2E2	7325	broad.mit.edu	37	chr3	23541139	23541139	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	acatttatgaatggaggtcaActatattgggacccccagga	10	8	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr3:23541139A>T	uc003ccg.2	+	4	448	c.268A>T	c.(268-270)ACT>TCT	p.T90S	UBE2E2_uc010hfc.2_Intron	NM_152653	NP_689866	Q96LR5	UB2E2_HUMAN	ubiquitin-conjugating enzyme E2E 2	90					ISG15-protein conjugation|protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination	nucleolus	ATP binding|ISG15 ligase activity|ubiquitin-protein ligase activity				0						ATGGAGGTCAACTATATTGGG	0.398													27	54	---	---	---	---	PASS	T	23541139	T	T	23541139	3	4	150	1	0	0	0	0	1	0	0	0	16850	43	2	5	278	5	UBE2E2	3	23541139	Missense_Mutation	SNP	A	TCGA-66-2765-01A-01D-1522-08		23541139	174481291	26	53481										
TBC1D23	55773	broad.mit.edu	37	chr3	100018112	100018112	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cggttctttgtggtggattgCcgtcctgcagaacaatataa	11	8	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr3:100018112C>T	uc003dtt.2	+	10	1206	c.1029C>T	c.(1027-1029)TGC>TGT	p.C343C	TBC1D23_uc003dts.2_Silent_p.C343C	NM_018309	NP_060779	Q9NUY8	TBC23_HUMAN	TBC1 domain family, member 23	343	Rhodanese.					intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2						TGGTGGATTGCCGTCCTGCAG	0.378													4	186	---	---	---	---	PASS	T	100018112	T	T	100018112	2	4	150	1	0	0	0	0	0	0	0	1	15610	747	26	3		3	TBC1D23	3	100018112	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08	76476973	100018112	98004318	27	53482										
ZBTB11	27107	broad.mit.edu	37	chr3	101383876	101383876	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ctccattcccttgtgtagtcGaatatatgccccttcattaa	5	12	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr3:101383876G>A	uc003dve.3	-	4	1785	c.1555C>T	c.(1555-1557)CGA>TGA	p.R519*		NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	519					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TTGTGTAGTCGAATATATGCC	0.428													56	415	---	---	---	---	PASS	A	101383876	A	A	101383876	4	1	150	1	0	0	0	0	0	1	0	0	17521	1066	37	2	1638	2	ZBTB11	3	101383876	Nonsense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	1365764	101383876	96638554	28	53483										
TRIM42	287015	broad.mit.edu	37	chr3	140401373	140401373	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gtaaagtcaataccagccaaCagtcacctggtgaaccacct	7	13	2	1	rs143388392	byFrequency	TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr3:140401373C>T	uc003eto.1	+	2	602	c.411C>T	c.(409-411)AAC>AAT	p.N137N		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	137						intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						TACCAGCCAACAGTCACCTGG	0.577													24	152	---	---	---	---	PASS	T	140401373	T	T	140401373	2	4	150	1	0	0	0	0	0	0	0	1	16514	477	17	3		3	TRIM42	3	140401373	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08	39017497	140401373	57621057	29	53484										
AADACL2	344752	broad.mit.edu	37	chr3	151463350	151463350	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tcagtttgaagatggccttgCtgcagtcaaattttttcttt	8	7	3	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr3:151463350C>A	uc003ezc.2	+	4	605	c.485C>A	c.(484-486)GCT>GAT	p.A162D	AADACL2_uc010hvn.2_Translation_Start_Site	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2 precursor	162						extracellular region|integral to membrane	carboxylesterase activity				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			GATGGCCTTGCTGCAGTCAAA	0.408													12	472	---	---	---	---	PASS	A	151463350	A	A	151463350	3	1	150	1	0	0	0	0	1	0	0	0	11	797	28	3	499	3	AADACL2	3	151463350	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	11061977	151463350	46559080	30	53485										
ANKRD17	26057	broad.mit.edu	37	chr4	73986694	73986694	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aaagtaagggcagtgttccgAttggtttctatctgagcatt	11	6	2	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr4:73986694A>G	uc003hgp.2	-	20	3870	c.3753T>C	c.(3751-3753)AAT>AAC	p.N1251N	ANKRD17_uc003hgo.2_Silent_p.N1138N|ANKRD17_uc003hgq.2_Silent_p.N1000N|ANKRD17_uc003hgr.2_Silent_p.N1250N|ANKRD17_uc011cbd.1_Silent_p.N816N	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1251	ANK 21.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CAGTGTTCCGATTGGTTTCTA	0.438													4	242	---	---	---	---	PASS	G	73986694	G	G	73986694	2	3	150	1	0	0	0	0	0	0	0	1	646	330	12	5		5	ANKRD17	4	73986694	Silent	SNP	A	TCGA-66-2765-01A-01D-1522-08		73986694	117167582	31	53486										
CTSO	1519	broad.mit.edu	37	chr4	156849517	156849517	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tacttcccattttgacatggGcataaccatctactccccaa	4	14	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr4:156849517G>A	uc003ipg.2	-	7	951	c.902C>T	c.(901-903)GCC>GTC	p.A301V		NM_001334	NP_001325	P43234	CATO_HUMAN	cathepsin O preproprotein	301					proteolysis	lysosome	cysteine-type endopeptidase activity				0	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.05)|Kidney(143;0.0627)|COAD - Colon adenocarcinoma(41;0.148)		TTTGACATGGGCATAACCATC	0.348													4	95	---	---	---	---	PASS	A	156849517	A	A	156849517	3	1	150	1	0	0	0	0	1	0	0	0	4040	1203	42	3	71	3	CTSO	4	156849517	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	82862823	156849517	34304759	32	53487										
FSTL5	56884	broad.mit.edu	37	chr4	163032473	163032473	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ggatttaaggccatatcctcCttctttggttggccttcctt	8	11	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr4:163032473C>T	uc003iqh.2	-	2	512	c.76G>A	c.(76-78)GGA>AGA	p.G26R	FSTL5_uc003iqi.2_Missense_Mutation_p.G26R|FSTL5_uc010iqv.2_Missense_Mutation_p.G26R	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	26						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CCATATCCTCCTTCTTTGGTT	0.408													46	154	---	---	---	---	PASS	T	163032473	T	T	163032473	3	4	150	1	0	0	0	0	1	0	0	0	6080	690	24	3	2527	3	FSTL5	4	163032473	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	6182956	163032473	28121803	33	53488										
DNAH5	1767	broad.mit.edu	37	chr5	13919410	13919410	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ccagtgctccagctccgctcGtggcccaacgtcatccgctt	9	18	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr5:13919410G>A	uc003jfd.2	-	7	892	c.850C>T	c.(850-852)CGA>TGA	p.R284*	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	284	Potential.|Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGCTCCGCTCGTGGCCCAACG	0.527									Kartagener_syndrome				9	367	---	---	---	---	PASS	A	13919410	A	A	13919410	4	1	150	1	0	0	0	0	0	1	0	0	4604	1153	40	1	13316	1	DNAH5	5	13919410	Nonsense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08		13919410	166995850	34	53489										
CDKL3	51265	broad.mit.edu	37	chr5	133644403	133644403	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tcctgcagtaatttagctttCagttctggcatgaatctgac	8	9	3	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr5:133644403C>T	uc003kzf.3	-	8	1016	c.897G>A	c.(895-897)CTG>CTA	p.L299L	CDKL3_uc011cxm.1_Silent_p.L106L|CDKL3_uc011cxn.1_RNA|CDKL3_uc010jdw.2_Intron|CDKL3_uc011cxo.1_Silent_p.L4L|CDKL3_uc011cxp.1_Silent_p.L4L|CDKL3_uc011cxq.1_Silent_p.L106L|CDKL3_uc003kzg.3_Silent_p.L299L	NM_001113575	NP_001107047	Q8IVW4	CDKL3_HUMAN	cyclin-dependent kinase-like 3 isoform 1	299						cytoplasm	ATP binding|cyclin-dependent protein kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ATTTAGCTTTCAGTTCTGGCA	0.299													10	24	---	---	---	---	PASS	T	133644403	T	T	133644403	2	4	150	1	0	0	0	0	0	0	0	1	3155	813	29	2		2	CDKL3	5	133644403	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08	119724993	133644403	47270857	35	53490										
RPP40	10799	broad.mit.edu	37	chr6	5004203	5004203	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ctcgcaaaccagtaagtgccGcggcgcctcccgaagccggc	12	17	0	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr6:5004203G>A	uc003mwl.2	-	1	69	c.34C>T	c.(34-36)CGG>TGG	p.R12W	uc003mwn.1_Intron|RPP40_uc003mwm.2_Missense_Mutation_p.R12W	NM_006638	NP_006629	O75818	RPP40_HUMAN	ribonuclease P 40kDa subunit	12					tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0895)				AGTAAGTGCCGCGGCGCCTCC	0.672											OREG0017160	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	56	---	---	---	---	PASS	A	5004203	A	A	5004203	3	1	150	1	0	0	0	0	1	0	0	0	13614	1086	38	1	1089	1	RPP40	6	5004203	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08		5004203	166110864	36	53491										
HIST1H4B	8366	broad.mit.edu	37	chr6	26027399	26027399	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ggccggtttggtgatgccttGgatgttatcccgcagcactt	13	10	0	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr6:26027399G>C	uc003nfr.2	-	1	82	c.82C>G	c.(82-84)CAA>GAA	p.Q28E		NM_003544	NP_003535	P62805	H4_HUMAN	histone cluster 1, H4b	28					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						GTGATGCCTTGGATGTTATCC	0.542													15	112	---	---	---	---	PASS	C	26027399	C	C	26027399	3	2	150	1	0	0	0	0	1	0	0	0	7166	1357	47	4	233	4	HIST1H4B	6	26027399	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	21023196	26027399	145087668	37	53492										
GPR115	221393	broad.mit.edu	37	chr6	47681951	47681951	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	atggtctggtgctatcagtgGttttaccagaaaggttgcaa	12	6	2	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr6:47681951G>A	uc003oza.1	+	6	1228	c.970G>A	c.(970-972)GTT>ATT	p.V324I	GPR115_uc003oyz.1_Missense_Mutation_p.V381I|GPR115_uc003ozb.1_Missense_Mutation_p.V322I	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	324	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						GCTATCAGTGGTTTTACCAGA	0.468													37	164	---	---	---	---	PASS	A	47681951	A	A	47681951	3	1	150	1	0	0	0	0	1	0	0	0	6632	1261	44	3	988	3	GPR115	6	47681951	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	21654552	47681951	123433116	38	53493										
LCA5	167691	broad.mit.edu	37	chr6	80203424	80203424	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tcctttcagcaagcaactgtCgttggaaactgttagtactc	8	10	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr6:80203424C>A	uc003pix.2	-	4	1199	c.764G>T	c.(763-765)CGA>CTA	p.R255L	LCA5_uc003piy.2_Missense_Mutation_p.R255L|LCA5_uc011dyq.1_RNA	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	255	Potential.				protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		AAGCAACTGTCGTTGGAAACT	0.338													16	107	---	---	---	---	PASS	A	80203424	A	A	80203424	3	1	150	1	0	0	0	0	1	0	0	0	8656	884	31	2	1349	2	LCA5	6	80203424	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	32521473	80203424	90911643	39	53494										
ABCB5	340273	broad.mit.edu	37	chr7	20738138	20738138	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ttctaaatggaactgttcatCcagtattttccatcatcttt	4	9	4	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr7:20738138C>T	uc003suw.3	+	8	1330	c.784C>T	c.(784-786)CCA>TCA	p.P262S	ABCB5_uc010kuh.2_Missense_Mutation_p.P707S	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	262	Helical; (Potential).|ABC transmembrane type-1.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						AACTGTTCATCCAGTATTTTC	0.333													16	69	---	---	---	---	PASS	T	20738138	T	T	20738138	3	4	150	1	0	0	0	0	1	0	0	0	44	855	30	2	2222	2	ABCB5	7	20738138	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08		20738138	138400525	40	53495										
NT5C3	51251	broad.mit.edu	37	chr7	33061712	33061712	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cttacagttgtcaatgatatCtaaagatagaaagcaaaata	6	5	2	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr7:33061712C>G	uc003tdk.2	-	4	400	c.323_splice	c.e4-1	p.N108_splice	AVL9_uc011kai.1_Intron|NT5C3_uc003tdi.2_Splice_Site_p.N69_splice|NT5C3_uc003tdj.2_Splice_Site_p.N69_splice	NM_001002010	NP_001002010	Q9H0P0	5NT3_HUMAN	5'-nucleotidase, cytosolic III isoform 1						nucleotide metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol|endoplasmic reticulum	2'-phosphotransferase activity|5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1			GBM - Glioblastoma multiforme(11;0.0894)			TCAATGATATCTAAAGATAGA	0.254													15	38	---	---	---	---	PASS	G	33061712	G	G	33061712	5	3	150	1	0	0	0	0	0	0	1	0	10688	927	32	2	712	2	NT5C3	7	33061712	Splice_Site	SNP	C	TCGA-66-2765-01A-01D-1522-08	12323574	33061712	126076951	41	53496										
ELN	2006	broad.mit.edu	37	chr7	73461084	73461084	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ctggggtatcccatcaaggcCcccaagctgcctggtaagtc	11	14	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr7:73461084C>G	uc003tzw.2	+	12	721	c.630C>G	c.(628-630)GCC>GCG	p.A210A	RFC2_uc011kfa.1_Intron|ELN_uc003tzm.1_Intron|ELN_uc011kfe.1_Silent_p.A179A|ELN_uc003tzn.2_Silent_p.A210A|ELN_uc003tzz.2_Silent_p.A188A|ELN_uc003tzo.2_Silent_p.A210A|ELN_uc003tzp.2_Silent_p.A166A|ELN_uc003tzq.2_Silent_p.A107A|ELN_uc003tzr.2_RNA|ELN_uc003tzs.2_Silent_p.A210A|ELN_uc003tzt.2_Silent_p.A215A|ELN_uc003tzu.2_Silent_p.A215A|ELN_uc003tzv.2_Silent_p.A200A|ELN_uc003tzx.2_Silent_p.A200A|ELN_uc011kff.1_Silent_p.A210A|ELN_uc003tzy.2_Silent_p.A205A	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	210					blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	CCATCAAGGCCCCCAAGCTGC	0.433			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						13	47	---	---	---	---	PASS	G	73461084	G	G	73461084	2	3	150	1	0	0	0	0	0	0	0	1	5071	610	22	4		4	ELN	7	73461084	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08	40399372	73461084	85677579	42	53497										
GPC2	221914	broad.mit.edu	37	chr7	99769784	99769784	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cttcaccccaatggactcggCcgtcagctcaaaggaaaagg	10	13	3	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr7:99769784C>A	uc003utv.2	-	6	1117	c.949G>T	c.(949-951)GCC>TCC	p.A317S	GPC2_uc010lgr.2_RNA	NM_152742	NP_689955	Q8N158	GPC2_HUMAN	glypican 2 precursor	317						anchored to membrane|endoplasmic reticulum|extracellular space|plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			breast(1)|pancreas(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					ATGGACTCGGCCGTCAGCTCA	0.552													25	67	---	---	---	---	PASS	A	99769784	A	A	99769784	3	1	150	1	0	0	0	0	1	0	0	0	6598	739	26	3	810	3	GPC2	7	99769784	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	26308700	99769784	59368879	43	53498										
AASS	10157	broad.mit.edu	37	chr7	121753257	121753257	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ccggcaaattgtcaatggaaCacatcaggatccccgagcct	9	13	2	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr7:121753257C>A	uc003vka.2	-	10	1289	c.1193G>T	c.(1192-1194)TGT>TTT	p.C398F	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.C398F|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	398	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	GTCAATGGAACACATCAGGAT	0.413													25	80	---	---	---	---	PASS	A	121753257	A	A	121753257	3	1	150	1	0	0	0	0	1	0	0	0	24	478	17	3	1643	3	AASS	7	121753257	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	21983473	121753257	37385406	44	53499										
CNOT4	4850	broad.mit.edu	37	chr7	135099078	135099078	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	agaatcaagaggactatattAccttaagtgttctgccatct	7	8	3	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr7:135099078A>C	uc003vsv.1	-	5	868	c.561_splice	c.e5+1	p.K187_splice	CNOT4_uc003vss.2_Splice_Site_p.K187_splice|CNOT4_uc011kpz.1_Splice_Site_p.K187_splice|CNOT4_uc003vst.2_Splice_Site_p.K187_splice|CNOT4_uc003vsu.1_Splice_Site_p.K187_splice|CNOT4_uc011kpy.1_Splice_Site_p.K187_splice	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4						nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						GGACTATATTACCTTAAGTGT	0.358													6	257	---	---	---	---	PASS	C	135099078	C	C	135099078	5	2	150	1	0	0	0	0	0	0	1	0	3621	405	14	5	1489	5	CNOT4	7	135099078	Splice_Site	SNP	A	TCGA-66-2765-01A-01D-1522-08	13345821	135099078	24039585	45	53500										
MLL3	58508	broad.mit.edu	37	chr7	151879142	151879142	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tgtctcattcatttgaagggGcctagataccgatgataaag	10	7	2	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr7:151879142G>A	uc003wla.2	-	36	6022	c.5803C>T	c.(5803-5805)CCC>TCC	p.P1935S	MLL3_uc003wkz.2_Missense_Mutation_p.P996S	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1935	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ATTTGAAGGGGCCTAGATACC	0.463			N		medulloblastoma								45	148	---	---	---	---	PASS	A	151879142	A	A	151879142	3	1	150	1	0	0	0	0	1	0	0	0	9622	1203	42	3	9028	3	MLL3	7	151879142	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	16780064	151879142	7259521	46	53501										
DEFA5	1670	broad.mit.edu	37	chr8	6914113	6914113	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	caaggtcctggttgtcttccCcagactgcttctgggttgta	11	11	2	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr8:6914113C>T	uc003wra.1	-	1	147	c.107G>A	c.(106-108)GGG>GAG	p.G36E		NM_021010	NP_066290	Q01523	DEF5_HUMAN	defensin, alpha 5 preproprotein	36					defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular space					0				COAD - Colon adenocarcinoma(149;0.0572)|READ - Rectum adenocarcinoma(644;0.121)		GTTGTCTTCCCCAGACTGCTT	0.527													41	164	---	---	---	---	PASS	T	6914113	T	T	6914113	3	4	150	1	0	0	0	0	1	0	0	0	4392	623	22	3	185	3	DEFA5	8	6914113	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08		6914113	139449909	47	53502										
PRSS55	203074	broad.mit.edu	37	chr8	10383111	10383111	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gggccatgctcctgttctcaGtgttgctgctcctgtccctg	11	14	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr8:10383111G>A	uc003wta.2	+	1	31	c.16G>A	c.(16-18)GTG>ATG	p.V6M	uc010lru.2_Intron	NM_198464	NP_940866	Q6UWB4	PRS55_HUMAN	hypothetical protein LOC203074 precursor	6					proteolysis	integral to membrane	serine-type endopeptidase activity			ovary(1)	1						CCTGTTCTCAGTGTTGCTGCT	0.652													20	100	---	---	---	---	PASS	A	10383111	A	A	10383111	3	1	150	1	0	0	0	0	1	0	0	0	12634	1029	36	3	18	3	PRSS55	8	10383111	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	3468998	10383111	135980911	48	53503										
ZNF395	55893	broad.mit.edu	37	chr8	28209072	28209072	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ggagctgacttgctgagagcCcctgagggcagggaggactc	17	10	0	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr8:28209072C>G	uc003xgq.2	-	7	1261	c.1173G>C	c.(1171-1173)GGG>GGC	p.G391G	ZNF395_uc003xgt.2_Silent_p.G391G|ZNF395_uc003xgr.2_Silent_p.G391G|ZNF395_uc003xgs.2_Silent_p.G391G	NM_018660	NP_061130	Q9H8N7	ZN395_HUMAN	zinc finger protein 395	391					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.102)|Kidney(114;0.123)|Colorectal(74;0.142)		TGCTGAGAGCCCCTGAGGGCA	0.627													54	144	---	---	---	---	PASS	G	28209072	G	G	28209072	2	3	150	1	0	0	0	0	0	0	0	1	17878	610	22	4		4	ZNF395	8	28209072	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08	17825961	28209072	118154950	49	53504										
SDC2	6383	broad.mit.edu	37	chr8	97620689	97620689	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gtctgtttaaacggacagaaGtcctagcaggtgagtagcct	12	8	1	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr8:97620689G>T	uc003yhv.1	+	4	1051	c.433G>T	c.(433-435)GTC>TTC	p.V145F	SDC2_uc011lgu.1_Missense_Mutation_p.V116F	NM_002998	NP_002989	P34741	SDC2_HUMAN	syndecan 2 precursor	145	Helical; (Potential).					integral to plasma membrane	cytoskeletal protein binding|PDZ domain binding			ovary(2)	2	Breast(36;3.41e-05)				Sargramostim(DB00020)	ACGGACAGAAGTCCTAGCAGG	0.478													24	117	---	---	---	---	PASS	T	97620689	T	T	97620689	3	4	150	1	0	0	0	0	1	0	0	0	13952	1029	36	3	447	3	SDC2	8	97620689	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	69411617	97620689	48743333	50	53505										
EFR3A	23167	broad.mit.edu	37	chr8	132999873	132999873	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gatttgtactttctgaccaaCaagattgcagagtcgctagg	10	8	1	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr8:132999873C>A	uc003yte.2	+	18	2190	c.1989C>A	c.(1987-1989)AAC>AAA	p.N663K		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	663						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			TTCTGACCAACAAGATTGCAG	0.373													7	27	---	---	---	---	PASS	A	132999873	A	A	132999873	3	1	150	1	0	0	0	0	1	0	0	0	4958	477	17	3	2059	3	EFR3A	8	132999873	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	35379184	132999873	13364149	51	53506										
EPPK1	83481	broad.mit.edu	37	chr8	144943084	144943084	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	atggccctcagagccaccgcGgtgtggtcgtccacctcaag	12	15	2	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr8:144943084G>T	uc003zaa.1	-	1	4351	c.4338C>A	c.(4336-4338)ACC>ACA	p.T1446T		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1446						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GAGCCACCGCGGTGTGGTCGT	0.622													3	54	---	---	---	---	PASS	T	144943084	T	T	144943084	2	4	150	1	0	0	0	0	0	0	0	1	5190	1103	39	1		1	EPPK1	8	144943084	Silent	SNP	G	TCGA-66-2765-01A-01D-1522-08	11943211	144943084	1420938	52	53507										
MPDZ	8777	broad.mit.edu	37	chr9	13183448	13183448	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	atgatggaagggaagaaccaTagttcaggccatcaccacaa	10	9	2	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr9:13183448T>C	uc010mia.1	-	18	2675	c.2618A>G	c.(2617-2619)TAT>TGT	p.Y873C	MPDZ_uc010mhy.2_Missense_Mutation_p.Y873C|MPDZ_uc010mhz.2_Missense_Mutation_p.Y873C|MPDZ_uc011lmn.1_Missense_Mutation_p.Y873C|MPDZ_uc003zlb.3_Missense_Mutation_p.Y873C	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	873					interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		GGAAGAACCATAGTTCAGGCC	0.403													9	26	---	---	---	---	PASS	C	13183448	C	C	13183448	3	2	150	1	0	0	0	0	1	0	0	0	9722	1406	49	5	3619	5	MPDZ	9	13183448	Missense_Mutation	SNP	T	TCGA-66-2765-01A-01D-1522-08		13183448	128029983	53	53508										
ACO1	48	broad.mit.edu	37	chr9	32408522	32408522	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cttctcttaggggtgtgcccGctgtggttgactttgctgca	13	10	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr9:32408522G>A	uc003zqw.3	+	4	432	c.277G>A	c.(277-279)GCT>ACT	p.A93T	ACO1_uc010mjh.1_5'UTR|ACO1_uc003zqx.3_Missense_Mutation_p.A93T|ACO1_uc003zqy.3_RNA	NM_002197	NP_002188	P21399	ACOC_HUMAN	aconitase 1	93					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)		GGGTGTGCCCGCTGTGGTTGA	0.408													39	281	---	---	---	---	PASS	A	32408522	A	A	32408522	3	1	150	1	0	0	0	0	1	0	0	0	146	1087	38	1	287	1	ACO1	9	32408522	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	19225074	32408522	108804909	54	53509										
UNC13B	10497	broad.mit.edu	37	chr9	35403942	35403942	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gacaggcctgaccattctccGgattttatctcagaggagca	10	11	2	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr9:35403942G>A	uc003zwq.2	+	39	4980	c.4688G>A	c.(4687-4689)CGG>CAG	p.R1563Q	UNC13B_uc003zwr.2_Missense_Mutation_p.R1582Q|ATP8B5P_uc010mkn.1_5'Flank|ATP8B5P_uc010mko.2_5'Flank|ATP8B5P_uc010mkp.2_5'Flank|ATP8B5P_uc003zwu.2_5'Flank	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	1563					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			ACCATTCTCCGGATTTTATCT	0.552													23	621	---	---	---	---	PASS	A	35403942	A	A	35403942	3	1	150	1	0	0	0	0	1	0	0	0	16982	1116	39	1	4842	1	UNC13B	9	35403942	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	2995420	35403942	105809489	55	53510										
FLJ46321	389763	broad.mit.edu	37	chr9	84606081	84606081	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gtttctcccttggattccaaGttccccatagaccattcccc	5	16	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr9:84606081G>A	uc004amn.2	+	4	743	c.696G>A	c.(694-696)AAG>AAA	p.K232K		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	232	Pro-rich.					integral to membrane					0						TGGATTCCAAGTTCCCCATAG	0.537													85	228	---	---	---	---	PASS	A	84606081	A	A	84606081	2	1	150	1	0	0	0	0	0	0	0	1	5932	1020	36	3		3	FLJ46321	9	84606081	Silent	SNP	G	TCGA-66-2765-01A-01D-1522-08	49202139	84606081	56607350	56	53511										
C9orf79	286234	broad.mit.edu	37	chr9	90497821	90497821	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aaggcgatgggaaatctcgtCatccctctagggaagggcag	14	9	3	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr9:90497821C>T	uc004app.3	+	1	50	c.15C>T	c.(13-15)GTC>GTT	p.V5V	C9orf79_uc004apo.1_Silent_p.V5V	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	5						integral to membrane				ovary(3)	3						GAAATCTCGTCATCCCTCTAG	0.607													18	51	---	---	---	---	PASS	T	90497821	T	T	90497821	2	4	150	1	0	0	0	0	0	0	0	1	2497	813	29	2		2	C9orf79	9	90497821	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08	5891740	90497821	50715610	57	53512										
ZNF33A	7581	broad.mit.edu	37	chr10	38343662	38343662	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ggaacacactgagtcatcatGaggagactttgcagcatgag	12	8	2	4			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr10:38343662G>C	uc001izh.2	+	5	785	c.607G>C	c.(607-609)GAG>CAG	p.E203Q	ZNF33A_uc001izg.2_Missense_Mutation_p.E204Q|ZNF33A_uc010qev.1_Missense_Mutation_p.E210Q|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	203						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						GAGTCATCATGAGGAGACTTT	0.348													27	108	---	---	---	---	PASS	C	38343662	C	C	38343662	3	2	150	1	0	0	0	0	1	0	0	0	17851	1291	45	2	624	2	ZNF33A	10	38343662	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08		38343662	97191085	58	53513										
PIK3AP1	118788	broad.mit.edu	37	chr10	98383279	98383279	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aattcccaggccgctcttgaCttttttctgcaaaaactatg	6	11	2	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr10:98383279C>A	uc001kmq.2	-	11	1813	c.1685G>T	c.(1684-1686)AGT>ATT	p.S562I	PIK3AP1_uc001kmo.2_Missense_Mutation_p.S161I|PIK3AP1_uc001kmp.2_Missense_Mutation_p.S384I	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	562						cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		CCGCTCTTGACTTTTTTCTGC	0.343													88	314	---	---	---	---	PASS	A	98383279	A	A	98383279	3	1	150	1	0	0	0	0	1	0	0	0	11908	565	20	3	760	3	PIK3AP1	10	98383279	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	60039617	98383279	37151468	59	53514										
EIF3A	8661	broad.mit.edu	37	chr10	120802059	120802059	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ggaggcctgtcatcatctgtGttacgccaggaaggccggtc	14	11	3	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr10:120802059G>A	uc001ldu.2	-	19	3119	c.2973C>T	c.(2971-2973)AAC>AAT	p.N991N	EIF3A_uc010qsu.1_Silent_p.N957N|EIF3A_uc009xzg.1_Silent_p.N30N	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	991	7.|Asp-rich.|25 X 10 AA approximate tandem repeats of [DE]-[DE]-[DE]-R-[SEVGFPILV]-[HPSN]- [RSW]-[RL]-[DRGTIHN]-[EPMANLGDT].				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		CATCATCTGTGTTACGCCAGG	0.582													55	162	---	---	---	---	PASS	A	120802059	A	A	120802059	2	1	150	1	0	0	0	0	0	0	0	1	5012	1368	48	3		3	EIF3A	10	120802059	Silent	SNP	G	TCGA-66-2765-01A-01D-1522-08	22418780	120802059	14732688	60	53515										
OR52J3	119679	broad.mit.edu	37	chr11	5068546	5068546	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cttctctttccttactcatcGatttggacaccaaataccag	4	13	2	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr11:5068546G>T	uc010qyv.1	+	1	791	c.791G>T	c.(790-792)CGA>CTA	p.R264L		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTTACTCATCGATTTGGACAC	0.443													73	329	---	---	---	---	PASS	T	5068546	T	T	5068546	3	4	150	1	0	0	0	0	1	0	0	0	11122	1058	37	2	793	2	OR52J3	11	5068546	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08		5068546	129937970	61	53516										
PIK3C2A	5286	broad.mit.edu	37	chr11	17191060	17191060	+	Missense_Mutation	SNP	C	G	G													0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ggaatctgattcaggaaacaCcatgagatcataatcctgct							TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr11:17191060C>G	uc001mmq.3	-	1	295	c.229G>C	c.(229-231)GTG>CTG	p.V77L	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Intron|PIK3C2A_uc001mmr.3_RNA|PIK3C2A_uc010rcx.1_Missense_Mutation_p.V77L|PIK3C2A_uc009ygv.1_Missense_Mutation_p.V77L	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	77	Interaction with clathrin.				cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	TCAGGAAACACCATGAGATCA	0.393													14	511	---	---	---	---	PASS	G	17191060	G	G	17191060	3	3	150	1	0	0	0	0	1	0	0	0	11909	507	18	4	4959	4	PIK3C2A	11	17191060	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	12122514	17191060	117815456	62	53517	975	2								
PIK3C2A	5286	broad.mit.edu	37	chr11	17191061	17191061	+	Missense_Mutation	SNP	C	A	A													0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gaatctgattcaggaaacacCatgagatcataatcctgctt							TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr11:17191061C>A	uc001mmq.3	-	1	294	c.228G>T	c.(226-228)ATG>ATT	p.M76I	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Intron|PIK3C2A_uc001mmr.3_RNA|PIK3C2A_uc010rcx.1_Missense_Mutation_p.M76I|PIK3C2A_uc009ygv.1_Missense_Mutation_p.M76I	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	76	Interaction with clathrin.				cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	CAGGAAACACCATGAGATCAT	0.393													14	517	---	---	---	---	PASS	A	17191061	A	A	17191061	3	1	150	1	0	0	0	0	1	0	0	0	11909	594	21	3	4960	3	PIK3C2A	11	17191061	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	1	17191061	117815455	63	53518	975	2								
SLC6A5	9152	broad.mit.edu	37	chr11	20673901	20673901	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gctcttaccgctatcctaacTggtccatggtgctcggatgg	11	12	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr11:20673901T>A	uc001mqd.2	+	15	2410	c.2137T>A	c.(2137-2139)TGG>AGG	p.W713R	SLC6A5_uc009yic.2_Missense_Mutation_p.W478R	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	713					synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	CTATCCTAACTGGTCCATGGT	0.468													114	206	---	---	---	---	PASS	A	20673901	A	A	20673901	3	1	150	1	0	0	0	0	1	0	0	0	14687	1580	55	5	2195	5	SLC6A5	11	20673901	Missense_Mutation	SNP	T	TCGA-66-2765-01A-01D-1522-08	3482840	20673901	114332615	64	53519										
OR4C6	219432	broad.mit.edu	37	chr11	55433015	55433015	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	atgaccgctacgtggccatcTgtaagcccctgcactacacg	9	15	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr11:55433015T>A	uc001nht.3	+	3	638	c.373T>A	c.(373-375)TGT>AGT	p.C125S	OR4C6_uc010rik.1_Missense_Mutation_p.C125S	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CGTGGCCATCTGTAAGCCCCT	0.542													79	128	---	---	---	---	PASS	A	55433015	A	A	55433015	3	1	150	1	0	0	0	0	1	0	0	0	11052	1580	55	5	375	5	OR4C6	11	55433015	Missense_Mutation	SNP	T	TCGA-66-2765-01A-01D-1522-08	34759114	55433015	79573501	65	53520										
SLC22A25	387601	broad.mit.edu	37	chr11	62931543	62931543	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cagtgattccagtagctcttCcccttggagtaaaaacagca	8	11	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr11:62931543C>A	uc001nwr.1	-	9	1397	c.1397G>T	c.(1396-1398)GGA>GTA	p.G466V	SLC22A10_uc010rmo.1_Intron|SLC22A25_uc009yoq.1_RNA|SLC22A25_uc001nws.1_RNA	NM_199352	NP_955384	Q6T423	S22AP_HUMAN	putative UST1-like organic anion transporter	466	Cytoplasmic (Potential).				transmembrane transport	integral to membrane				ovary(3)|skin(1)	4						AGTAGCTCTTCCCCTTGGAGT	0.403													58	255	---	---	---	---	PASS	A	62931543	A	A	62931543	3	1	150	1	0	0	0	0	1	0	0	0	14454	855	30	2	250	2	SLC22A25	11	62931543	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	7498528	62931543	72074973	66	53521										
OTUB1	55611	broad.mit.edu	37	chr11	63764701	63764701	+	Frame_Shift_Del	DEL	G	-	-													0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gagggtggacggactgtcaaGgagttctgccagcaggtgcc							TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr11:63764701delG	uc001nyf.1	+	6	1207	c.603delG	c.(601-603)AAGfs	p.K201fs	OTUB1_uc001nyg.1_Frame_Shift_Del_p.K244fs|OTUB1_uc010rmz.1_Frame_Shift_Del_p.K238fs|OTUB1_uc010rna.1_Frame_Shift_Del_p.K210fs|OTUB1_uc009ypa.2_Frame_Shift_Del_p.K100fs|OTUB1_uc009ypb.1_Frame_Shift_Del_p.K171fs	NM_017670	NP_060140	Q96FW1	OTUB1_HUMAN	otubain 1	201	OTU.				protein K48-linked deubiquitination	cytoplasm	NEDD8-specific protease activity|omega peptidase activity|ubiquitin binding|ubiquitin-specific protease activity			breast(1)	1						GGACTGTCAAGGAGTTCTGCC	0.667													109	57	---	---	---	---		-	63764701	-	-	63764701	7	5	150	1	0	1	0	1	0	0	0	0	11311	991	35	0	625	0	OTUB1	11	63764701	Frame_Shift_Del	DEL	G	TCGA-66-2765-01A-01D-1522-08	833158	63764701	71241815	67	53522										
CNTN5	53942	broad.mit.edu	37	chr11	99715991	99715991	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gagaagctacactgcagtttGcctgtgagtaaaatatatga	10	6	0	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr11:99715991G>T	uc001pga.2	+	6	913	c.574G>T	c.(574-576)GCC>TCC	p.A192S	CNTN5_uc009ywv.1_Missense_Mutation_p.A192S|CNTN5_uc001pfz.2_Missense_Mutation_p.A192S|CNTN5_uc001pgb.2_Missense_Mutation_p.A118S	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	192					cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		ACTGCAGTTTGCCTGTGAGTA	0.328													38	155	---	---	---	---	PASS	T	99715991	T	T	99715991	3	4	150	1	0	0	0	0	1	0	0	0	3644	1319	46	3	588	3	CNTN5	11	99715991	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	35951290	99715991	35290525	68	53523										
ANGPTL5	253935	broad.mit.edu	37	chr11	101765758	101765758	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ctggtatttttctgatttacTatataaaaaatctttttcag	4	5	3	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr11:101765758T>C	uc001pgl.2	-	8	1295	c.699A>G	c.(697-699)ATA>ATG	p.I233M		NM_178127	NP_835228	Q86XS5	ANGL5_HUMAN	angiopoietin-like 5 precursor	233	Fibrinogen C-terminal.				signal transduction	extracellular space	receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.043)		BRCA - Breast invasive adenocarcinoma(274;0.0328)		TCTGATTTACTATATAAAAAA	0.274													40	61	---	---	---	---	PASS	C	101765758	C	C	101765758	3	2	150	1	0	0	0	0	1	0	0	0	617	1512	53	5	475	5	ANGPTL5	11	101765758	Missense_Mutation	SNP	T	TCGA-66-2765-01A-01D-1522-08	2049767	101765758	33240758	69	53524										
YAP1	10413	broad.mit.edu	37	chr11	102080293	102080293	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cagcaaattctccaaaatgtCaggtaggctcttatctgatg	8	9	4	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr11:102080293C>A	uc001pgt.2	+	6	1400	c.1030C>A	c.(1030-1032)CAG>AAG	p.Q344K	YAP1_uc001pgs.2_Intron|YAP1_uc001pgu.2_Intron|YAP1_uc001pgv.2_Intron|YAP1_uc010ruo.1_Missense_Mutation_p.Q166K|YAP1_uc001pgw.2_Missense_Mutation_p.Q168K|YAP1_uc010rup.1_Missense_Mutation_p.Q109K	NM_001130145	NP_001123617	P46937	YAP1_HUMAN	Yes-associated protein 1, 65kDa isoform 1	344	Transactivation domain.				cell proliferation|cellular response to gamma radiation|contact inhibition|hippo signaling cascade|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription coactivator activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_cancers(8;0.000575)|all_epithelial(12;0.00564)	Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.00936)	Lung(13;0.245)	BRCA - Breast invasive adenocarcinoma(274;0.0189)		TCCAAAATGTCAGGTAGGCTC	0.358													294	110	---	---	---	---	PASS	A	102080293	A	A	102080293	3	1	150	1	0	0	0	0	1	0	0	0	17463	827	29	2	1064	2	YAP1	11	102080293	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	314535	102080293	32926223	70	53525										
MLL2	8085	broad.mit.edu	37	chr12	49431061	49431061	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gcctgcctgccctccatgctGcccacttagcatatgccctt	7	18	0	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr12:49431061G>A	uc001rta.3	-	34	10078	c.10078C>T	c.(10078-10080)CAG>TAG	p.Q3360*		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3360	Gln-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CCTCCATGCTGCCCACTTAGC	0.602			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			9	23	---	---	---	---	PASS	A	49431061	A	A	49431061	4	1	150	1	0	0	0	0	0	1	0	0	9621	1328	46	3	6619	3	MLL2	12	49431061	Nonsense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08		49431061	84420834	71	53526										
MLL2	8085	broad.mit.edu	37	chr12	49438218	49438218	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gtttacgcttgcgttttttgCtttcctcggtctcctctttg	8	11	2	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr12:49438218C>G	uc001rta.3	-	20	5051	c.5051G>C	c.(5050-5052)AGC>ACC	p.S1684T		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1684					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GCGTTTTTTGCTTTCCTCGGT	0.597			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)	OREG0021780	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	104	---	---	---	---	PASS	G	49438218	G	G	49438218	3	3	150	1	0	0	0	0	1	0	0	0	9621	797	28	4	11702	4	MLL2	12	49438218	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	7157	49438218	84413677	72	53527										
TRHDE	29953	broad.mit.edu	37	chr12	72936106	72936106	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	agaatgctggctaattttatGggccattcagttttccagag	10	7	1	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr12:72936106G>T	uc001sxa.2	+	7	1653	c.1623G>T	c.(1621-1623)ATG>ATT	p.M541I		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	541	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						CTAATTTTATGGGCCATTCAG	0.308													19	54	---	---	---	---	PASS	T	72936106	T	T	72936106	3	4	150	1	0	0	0	0	1	0	0	0	16476	1348	47	3	1649	3	TRHDE	12	72936106	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	23497888	72936106	60915789	73	53528										
UTP20	27340	broad.mit.edu	37	chr12	101702101	101702101	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	atgtggtacagactgctgtcCctgatgggccgttacaggag	14	9	0	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr12:101702101C>G	uc001tia.1	+	18	2290	c.2134C>G	c.(2134-2136)CCT>GCT	p.P712A		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	712					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						GACTGCTGTCCCTGATGGGCC	0.393													36	115	---	---	---	---	PASS	G	101702101	G	G	101702101	3	3	150	1	0	0	0	0	1	0	0	0	17096	623	22	4	2204	4	UTP20	12	101702101	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	28765995	101702101	32149794	74	53529										
RFC5	5985	broad.mit.edu	37	chr12	118464747	118464747	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gagactgtctacacctgcacCgggcacccgctcaagtcaga	10	15	3	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr12:118464747C>A	uc001twq.2	+	8	842	c.717C>A	c.(715-717)ACC>ACA	p.T239T	RFC5_uc010syx.1_Silent_p.T218T|RFC5_uc010syy.1_Silent_p.T218T|RFC5_uc010syz.1_Silent_p.T154T|RFC5_uc009zwr.2_Silent_p.T239T	NM_007370	NP_031396	P40937	RFC5_HUMAN	replication factor C 5 isoform 1	239					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ACACCTGCACCGGGCACCCGC	0.527													68	174	---	---	---	---	PASS	A	118464747	A	A	118464747	2	1	150	1	0	0	0	0	0	0	0	1	13248	639	23	1		1	RFC5	12	118464747	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08	16762646	118464747	15387148	75	53530										
COL4A2	1284	broad.mit.edu	37	chr13	111143635	111143635	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ggtgacatcggcttccctggGataacaggcgtgactggagt	15	9	0	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr13:111143635G>C	uc001vqx.2	+	37	3691	c.3402G>C	c.(3400-3402)GGG>GGC	p.G1134G		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	1134	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GCTTCCCTGGGATAACAGGCG	0.562													4	13	---	---	---	---	PASS	C	111143635	C	C	111143635	2	2	150	1	0	0	0	0	0	0	0	1	3690	1161	41	2		2	COL4A2	13	111143635	Silent	SNP	G	TCGA-66-2765-01A-01D-1522-08		111143635	4026243	76	53531										
OR4N2	390429	broad.mit.edu	37	chr14	20296344	20296344	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gtgcatcacccatatcattgTtatattcttcatgtttggac	6	9	4	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr14:20296344T>C	uc010tkv.1	+	1	737	c.737T>C	c.(736-738)GTT>GCT	p.V246A		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CATATCATTGTTATATTCTTC	0.483													44	429	---	---	---	---	PASS	C	20296344	C	C	20296344	3	2	150	1	0	0	0	0	1	0	0	0	11077	1725	60	5	739	5	OR4N2	14	20296344	Missense_Mutation	SNP	T	TCGA-66-2765-01A-01D-1522-08		20296344	87053196	77	53532										
OR4K2	390431	broad.mit.edu	37	chr14	20345187	20345187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cttcttgttctttgggccatGcatcttcatctacatgtggc	8	11	5	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr14:20345187G>T	uc001vwh.1	+	1	761	c.761G>T	c.(760-762)TGC>TTC	p.C254F		NM_001005501	NP_001005501	Q8NGD2	OR4K2_HUMAN	olfactory receptor, family 4, subfamily K,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TTTGGGCCATGCATCTTCATC	0.418													42	500	---	---	---	---	PASS	T	20345187	T	T	20345187	3	4	150	1	0	0	0	0	1	0	0	0	11072	1319	46	3	763	3	OR4K2	14	20345187	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	48843	20345187	87004353	78	53533										
SALL2	6297	broad.mit.edu	37	chr14	21991220	21991220	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cgctggtggcttccccttctGgggtgagtgctgatgccgga	16	11	1	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr14:21991220G>C	uc001wbe.2	-	2	2924	c.2642C>G	c.(2641-2643)CCA>CGA	p.P881R	SALL2_uc010tly.1_Missense_Mutation_p.P879R|SALL2_uc010tlz.1_Missense_Mutation_p.P744R|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Missense_Mutation_p.P746R|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	881							DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		TTCCCCTTCTGGGGTGAGTGC	0.592													14	49	---	---	---	---	PASS	C	21991220	C	C	21991220	3	2	150	1	0	0	0	0	1	0	0	0	13811	1348	47	4	385	4	SALL2	14	21991220	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	1646033	21991220	85358320	79	53534										
C14orf37	145407	broad.mit.edu	37	chr14	58604947	58604947	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gcgctattagcagggctgtgCccgtgtgtgtttccccttca	12	12	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr14:58604947C>G	uc001xdc.2	-	2	1241	c.1130G>C	c.(1129-1131)GGC>GCC	p.G377A	C14orf37_uc010tro.1_Missense_Mutation_p.G415A|C14orf37_uc001xdd.2_Missense_Mutation_p.G377A|C14orf37_uc001xde.2_Missense_Mutation_p.G377A	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	377	Extracellular (Potential).					integral to membrane	binding				0						CAGGGCTGTGCCCGTGTGTGT	0.537													80	347	---	---	---	---	PASS	G	58604947	G	G	58604947	3	3	150	1	0	0	0	0	1	0	0	0	1771	739	26	4	1222	4	C14orf37	14	58604947	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	36613727	58604947	48744593	80	53535										
EIF2B2	8892	broad.mit.edu	37	chr14	75475874	75475874	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tgagtgaactctaccatcctGatgatcatgttttatgaccg	8	9	2	5			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr14:75475874G>C	uc001xrc.1	+	8	1121	c.1039G>C	c.(1039-1041)GAT>CAT	p.D347H		NM_014239	NP_055054	P49770	EI2BB_HUMAN	eukaryotic translation initiation factor 2B,	347					cellular response to stimulus|myelination|oligodendrocyte development|ovarian follicle development|regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	ATP binding|GTP binding|protein binding|translation initiation factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00661)		CTACCATCCTGATGATCATGT	0.473													89	234	---	---	---	---	PASS	C	75475874	C	C	75475874	3	2	150	1	0	0	0	0	1	0	0	0	5001	1290	45	2	1069	2	EIF2B2	14	75475874	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	16870927	75475874	31873666	81	53536										
DUOX2	50506	broad.mit.edu	37	chr15	45400380	45400380	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	caaggagcagctctagctggGataggtcctggttgtacagg	15	8	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr15:45400380G>C	uc010bea.2	-	13	1642	c.1439C>G	c.(1438-1440)TCC>TGC	p.S480C	DUOX2_uc001zun.2_Missense_Mutation_p.S480C	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	480	Extracellular (Potential).|Peroxidase-like; mediates peroxidase activity (By similarity).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		CTCTAGCTGGGATAGGTCCTG	0.617													28	91	---	---	---	---	PASS	C	45400380	C	C	45400380	3	2	150	1	0	0	0	0	1	0	0	0	4801	1174	41	2	3295	2	DUOX2	15	45400380	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08		45400380	57131012	82	53537										
ZNF75A	7627	broad.mit.edu	37	chr16	3367720	3367720	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gagaaaagcccttcacatgtCatgaatgtggaaaaaaattc	8	7	2	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr16:3367720C>T	uc002cut.3	+	6	1268	c.742C>T	c.(742-744)CAT>TAT	p.H248Y	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	248	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						CTTCACATGTCATGAATGTGG	0.388													39	121	---	---	---	---	PASS	T	3367720	T	T	3367720	3	4	150	1	0	0	0	0	1	0	0	0	18130	826	29	2	752	2	ZNF75A	16	3367720	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08		3367720	86987033	83	53538										
CD2BP2	10421	broad.mit.edu	37	chr16	30364863	30364863	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gtacacaccaaggttgccccGggccaccatctggtcggcca	11	16	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr16:30364863G>A	uc002dxr.2	-	4	887	c.634C>T	c.(634-636)CGG>TGG	p.R212W	CD2BP2_uc002dxs.2_Missense_Mutation_p.R212W	NM_006110	NP_006101	O95400	CD2B2_HUMAN	CD2 antigen (cytoplasmic tail) binding protein	212					assembly of spliceosomal tri-snRNP	cytoplasm|nucleoplasm|U5 snRNP	protein binding|ribonucleoprotein binding			ovary(1)	1						AGGTTGCCCCGGGCCACCATC	0.652													17	49	---	---	---	---	PASS	A	30364863	A	A	30364863	3	1	150	1	0	0	0	0	1	0	0	0	2995	1115	39	1	403	1	CD2BP2	16	30364863	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	26997143	30364863	59989890	84	53539										
ZNF747	65988	broad.mit.edu	37	chr16	30544471	30544471	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tcttccttgtttctggaatcTgctgaaagataaggaggcga	11	7	3	2	rs142751951		TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr16:30544471T>C	uc002dyn.2	-	2	679	c.485A>G	c.(484-486)CAG>CGG	p.Q162R	ZNF768_uc010vex.1_Splice_Site|ZNF747_uc002dyo.1_Intron|ZNF747_uc010vey.1_Intron|uc002dyp.1_5'Flank	NM_023931	NP_076420	Q9BV97	ZN747_HUMAN	zinc finger protein 747	162					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding				0						TTCTGGAATCTGCTGAAAGAT	0.617													26	73	---	---	---	---	PASS	C	30544471	C	C	30544471	3	2	150	1	0	0	0	0	1	0	0	0	18127	1594	55	5	94	5	ZNF747	16	30544471	Missense_Mutation	SNP	T	TCGA-66-2765-01A-01D-1522-08	179608	30544471	59810282	85	53540										
ADCY7	113	broad.mit.edu	37	chr16	50324372	50324372	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tgtttgctccacccaggaccCctccagacaccaggccattc	7	18	0	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr16:50324372C>T	uc002egd.1	+	2	444	c.176C>T	c.(175-177)CCC>CTC	p.P59L	ADCY7_uc002egb.1_Missense_Mutation_p.P59L|ADCY7_uc002egc.1_Missense_Mutation_p.P59L	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	59					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	ACCCAGGACCCCTCCAGACAC	0.637													13	52	---	---	---	---	PASS	T	50324372	T	T	50324372	3	4	150	1	0	0	0	0	1	0	0	0	299	623	22	3	182	3	ADCY7	16	50324372	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	19779901	50324372	40030381	86	53541										
TP53	7157	broad.mit.edu	37	chr17	7576851	7576851	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aagaggtcccaagacttagtAcctgaagggtgaaatattct	10	7	1	4			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr17:7576851A>T	uc002gim.2	-	9	1187	c.993_splice	c.e9+1	p.Q331_splice	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Splice_Site_p.Q331_splice|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_Splice_Site_p.Q199_splice|TP53_uc010cng.1_Splice_Site_p.Q199_splice|TP53_uc002gii.1_Splice_Site_p.Q199_splice|TP53_uc010cnh.1_Splice_Site_p.Q331_splice|TP53_uc010cni.1_Splice_Site_p.Q331_splice|TP53_uc002gij.2_Splice_Site_p.Q331_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						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.?(8)|p.0?(7)|p.I332fs*49(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)		AAGACTTAGTACCTGAAGGGT	0.463		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)			62	69	---	---	---	---	PASS	T	7576851	T	T	7576851	5	4	150	1	0	0	0	0	0	0	1	0	16378	405	14	5	287	5	TP53	17	7576851	Splice_Site	SNP	A	TCGA-66-2765-01A-01D-1522-08		7576851	73618359	87	53542										
ZNF286A	57335	broad.mit.edu	37	chr17	15619753	15619753	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aaaagcagagaacttataaaGagaaaaaacctcataaatgt	6	5	1	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr17:15619753G>T	uc010cot.2	+	6	1111	c.715G>T	c.(715-717)GAG>TAG	p.E239*	ZNF286A_uc002goz.3_Nonsense_Mutation_p.E127*|ZNF286A_uc010vwa.1_Nonsense_Mutation_p.E239*|ZNF286A_uc002gpa.2_Nonsense_Mutation_p.E239*	NM_001130842	NP_001124314	Q9HBT8	Z286A_HUMAN	zinc finger protein 286	239					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(1115;0.0222)|BRCA - Breast invasive adenocarcinoma(8;0.0781)		AACTTATAAAGAGAAAAAACC	0.368													40	44	---	---	---	---	PASS	T	15619753	T	T	15619753	4	4	150	1	0	0	0	0	0	1	0	0	17820	943	33	2	733	2	ZNF286A	17	15619753	Nonsense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	8042902	15619753	65575457	88	53543										
KRT40	125115	broad.mit.edu	37	chr17	39134531	39134531	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tcgaggtgcatgtggtcgaaCatgggctacaggaaagcctg	15	8	0	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr17:39134531C>G	uc010cxh.1	-	9	1375	c.1214G>C	c.(1213-1215)TGT>TCT	p.C405S	KRT40_uc002hvq.1_RNA	NM_182497	NP_872303	Q6A162	K1C40_HUMAN	type I hair keratin KA36	405	Tail.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)				TGTGGTCGAACATGGGCTACA	0.443													3	136	---	---	---	---	PASS	G	39134531	G	G	39134531	3	3	150	1	0	0	0	0	1	0	0	0	8478	478	17	4	85	4	KRT40	17	39134531	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	23514778	39134531	42060679	89	53544										
EZH1	2145	broad.mit.edu	37	chr17	40859999	40859999	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ctgggttgcactggcagaacTtctcacagaaattctgagtc	10	10	2	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr17:40859999T>A	uc002iaz.2	-	15	1782	c.1637A>T	c.(1636-1638)AAG>ATG	p.K546M	EZH1_uc002iba.2_Missense_Mutation_p.K537M|EZH1_uc010wgt.1_Missense_Mutation_p.K476M|EZH1_uc010wgu.1_Missense_Mutation_p.K552M|EZH1_uc010wgv.1_Missense_Mutation_p.K506M|EZH1_uc010wgw.1_Missense_Mutation_p.K407M|EZH1_uc010cyp.2_Missense_Mutation_p.K447M|EZH1_uc010cyq.2_Missense_Mutation_p.K463M|EZH1_uc010cyo.1_Missense_Mutation_p.K209M|EZH1_uc010cyr.1_Missense_Mutation_p.K198M	NM_001991	NP_001982	Q92800	EZH1_HUMAN	enhancer of zeste homolog 1	546	Cys-rich.				anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	chromatin binding|DNA binding			ovary(3)	3		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0784)		CTGGCAGAACTTCTCACAGAA	0.522													9	236	---	---	---	---	PASS	A	40859999	A	A	40859999	3	1	150	1	0	0	0	0	1	0	0	0	5333	1609	56	5	634	5	EZH1	17	40859999	Missense_Mutation	SNP	T	TCGA-66-2765-01A-01D-1522-08	1725468	40859999	40335211	90	53545										
AOC3	8639	broad.mit.edu	37	chr17	41004946	41004946	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cagcgcccacttcaaggtggAtctggatgtagcaggtaaga	13	9	2	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr17:41004946A>T	uc002ibv.2	+	1	1746	c.1586A>T	c.(1585-1587)GAT>GTT	p.D529V		NM_003734	NP_003725	Q16853	AOC3_HUMAN	amine oxidase, copper containing 3 precursor	529	Extracellular (Potential).	Calcium 1.			amine metabolic process|cell adhesion|inflammatory response	cell surface|integral to membrane|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|protein homodimerization activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)	Hydralazine(DB01275)|Phenelzine(DB00780)	TTCAAGGTGGATCTGGATGTA	0.512													3	88	---	---	---	---	PASS	T	41004946	T	T	41004946	3	4	150	1	0	0	0	0	1	0	0	0	728	333	12	5	1588	5	AOC3	17	41004946	Missense_Mutation	SNP	A	TCGA-66-2765-01A-01D-1522-08	144947	41004946	40190264	91	53546										
CACNA1G	8913	broad.mit.edu	37	chr17	48695601	48695601	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	agagtgtgacgagacacaccCctgtgagggcctgggccgtc	15	12	0	4			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr17:48695601C>A	uc002irk.1	+	32	5696	c.5324C>A	c.(5323-5325)CCC>CAC	p.P1775H	CACNA1G_uc002irj.1_Missense_Mutation_p.P1741H|CACNA1G_uc002irl.1_Missense_Mutation_p.P1752H|CACNA1G_uc002irm.1_Missense_Mutation_p.P1741H|CACNA1G_uc002irn.1_Missense_Mutation_p.P1734H|CACNA1G_uc002iro.1_Missense_Mutation_p.P1741H|CACNA1G_uc002irp.1_Missense_Mutation_p.P1775H|CACNA1G_uc002irq.1_Missense_Mutation_p.P1752H|CACNA1G_uc002irr.1_Missense_Mutation_p.P1775H|CACNA1G_uc002irs.1_Missense_Mutation_p.P1764H|CACNA1G_uc002irt.1_Missense_Mutation_p.P1757H|CACNA1G_uc002irv.1_Missense_Mutation_p.P1764H|CACNA1G_uc002irw.1_Missense_Mutation_p.P1752H|CACNA1G_uc002iru.1_Missense_Mutation_p.P1741H|CACNA1G_uc002irx.1_Missense_Mutation_p.P1688H|CACNA1G_uc002iry.1_Missense_Mutation_p.P1677H|CACNA1G_uc002irz.1_Missense_Mutation_p.P1681H|CACNA1G_uc002isa.1_Missense_Mutation_p.P1654H|CACNA1G_uc002isb.1_Missense_Mutation_p.P1695H|CACNA1G_uc002isc.1_Missense_Mutation_p.P1677H|CACNA1G_uc002isd.1_Missense_Mutation_p.P1663H|CACNA1G_uc002ise.1_Missense_Mutation_p.P1643H|CACNA1G_uc002isf.1_Missense_Mutation_p.P1670H|CACNA1G_uc002isg.1_Missense_Mutation_p.P1636H|CACNA1G_uc002ish.1_Missense_Mutation_p.P1643H|CACNA1G_uc002isi.1_Missense_Mutation_p.P1631H	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1775	IV.|Extracellular (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GAGACACACCCCTGTGAGGGC	0.612													53	62	---	---	---	---	PASS	A	48695601	A	A	48695601	3	1	150	1	0	0	0	0	1	0	0	0	2544	623	22	3	5717	3	CACNA1G	17	48695601	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	7690655	48695601	32499609	92	53547										
ABCC3	8714	broad.mit.edu	37	chr17	48764928	48764928	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ggcagctcgtgtgcctggccCgagccctgctccgcaagagc	14	16	0	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr17:48764928C>G	uc002isl.2	+	30	4392	c.4312C>G	c.(4312-4314)CGA>GGA	p.R1438G	ABCC3_uc002isn.2_Missense_Mutation_p.R192G	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	1438	Cytoplasmic (By similarity).|ABC transporter 2.				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	GTGCCTGGCCCGAGCCCTGCT	0.647													21	25	---	---	---	---	PASS	G	48764928	G	G	48764928	3	3	150	1	0	0	0	0	1	0	0	0	54	644	23	4	4514	4	ABCC3	17	48764928	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	69327	48764928	32430282	93	53548										
SERPINB2	5055	broad.mit.edu	37	chr18	61569664	61569664	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	cgcacacctgtacagatgatGtacttgcgtgaaaagctaaa	9	9	0	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr18:61569664G>A	uc010xeu.1	+	8	1038	c.705G>A	c.(703-705)ATG>ATA	p.M235I	SERPINB2_uc002ljo.2_Missense_Mutation_p.M235I|SERPINB2_uc010dqh.2_Missense_Mutation_p.M165I|SERPINB2_uc002ljp.1_Missense_Mutation_p.M40I|SERPINB2_uc002ljq.1_Missense_Mutation_p.M40I	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	235					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	TACAGATGATGTACTTGCGTG	0.363													27	81	---	---	---	---	PASS	A	61569664	A	A	61569664	3	1	150	1	0	0	0	0	1	0	0	0	14101	1377	48	3	727	3	SERPINB2	18	61569664	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08		61569664	16507584	94	53549										
TRAPPC5	126003	broad.mit.edu	37	chr19	7747477	7747477	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gcaggccaacgatgacgcgcGcaccttctacatcatcgagc	10	15	2	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr19:7747477G>T	uc002mhi.1	+	2	408	c.338G>T	c.(337-339)CGC>CTC	p.R113L	TRAPPC5_uc002mhj.1_Missense_Mutation_p.R113L|TRAPPC5_uc002mhk.1_Missense_Mutation_p.R113L	NM_001042462	NP_001035927	Q8IUR0	TPPC5_HUMAN	trafficking protein particle complex 5	113					vesicle-mediated transport	endoplasmic reticulum	guanylate cyclase activity|heme binding				0						GATGACGCGCGCACCTTCTAC	0.627													9	23	---	---	---	---	PASS	T	7747477	T	T	7747477	3	4	150	1	0	0	0	0	1	0	0	0	16459	1087	38	1	340	1	TRAPPC5	19	7747477	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08		7747477	51381506	95	53550										
ABHD8	79575	broad.mit.edu	37	chr19	17411739	17411739	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gctcgcatgtcctcagccagCgcatagaaggtgtaggctgc	13	12	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr19:17411739C>G	uc002ngb.3	-	2	927	c.687G>C	c.(685-687)GCG>GCC	p.A229A		NM_024527	NP_078803	Q96I13	ABHD8_HUMAN	abhydrolase domain containing 8	229							hydrolase activity				0						CCTCAGCCAGCGCATAGAAGG	0.602													37	107	---	---	---	---	PASS	G	17411739	G	G	17411739	2	3	150	1	0	0	0	0	0	0	0	1	87	755	27	4		4	ABHD8	19	17411739	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08	9664262	17411739	41717244	96	53551										
CILP2	148113	broad.mit.edu	37	chr19	19654937	19654937	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ggtgacttttgtggaccccaGcggtgagttcatggacgctg	15	9	1	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr19:19654937G>A	uc002nmv.3	+	8	1668	c.1583G>A	c.(1582-1584)AGC>AAC	p.S528N	CILP2_uc002nmw.3_Missense_Mutation_p.S534N	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	528						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						GTGGACCCCAGCGGTGAGTTC	0.627													19	47	---	---	---	---	PASS	A	19654937	A	A	19654937	3	1	150	1	0	0	0	0	1	0	0	0	3430	971	34	3	1613	3	CILP2	19	19654937	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	2243198	19654937	39474046	97	53552										
ZNF91	7644	broad.mit.edu	37	chr19	23545124	23545124	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	gtaagggttgaggaccaatgAaaggttttttcacattcttt	10	5	2	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr19:23545124A>T	uc002nre.2	-	4	770	c.657T>A	c.(655-657)TTT>TTA	p.F219L	ZNF91_uc010xrj.1_Missense_Mutation_p.F187L	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	219	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				AGGACCAATGAAAGGTTTTTT	0.353													4	131	---	---	---	---	PASS	T	23545124	T	T	23545124	3	4	150	1	0	0	0	0	1	0	0	0	18197	243	9	5	2922	5	ZNF91	19	23545124	Missense_Mutation	SNP	A	TCGA-66-2765-01A-01D-1522-08	3890187	23545124	35583859	98	53553										
FUZ	80199	broad.mit.edu	37	chr19	50310553	50310553	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ctcctgtgcctggttcctcaGtccccaacaccaggtagcaa	8	16	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr19:50310553G>T	uc002ppq.1	-	11	1217	c.1112C>A	c.(1111-1113)ACT>AAT	p.T371N	FUZ_uc002ppr.1_Missense_Mutation_p.T271N|FUZ_uc002pps.1_RNA|FUZ_uc002ppt.1_RNA|FUZ_uc002ppu.1_Missense_Mutation_p.T335N|FUZ_uc002ppv.1_Missense_Mutation_p.T321N	NM_025129	NP_079405	Q9BT04	FUZZY_HUMAN	fuzzy homolog	371	Leu-rich.				cilium assembly|embryonic body morphogenesis|embryonic skeletal system morphogenesis|establishment of planar polarity|hair follicle development|neural tube closure|protein transport|regulation of smoothened signaling pathway	cytoplasm|cytoskeleton					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00793)|GBM - Glioblastoma multiforme(134;0.0116)		TGGTTCCTCAGTCCCCAACAC	0.637													15	51	---	---	---	---	PASS	T	50310553	T	T	50310553	3	4	150	1	0	0	0	0	1	0	0	0	6112	1029	36	3	148	3	FUZ	19	50310553	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	26765429	50310553	8818430	99	53554										
VN1R2	317701	broad.mit.edu	37	chr19	53762406	53762406	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ttagtgatgaagtcacaaagTcagtatatgcagcattgaca	9	6	2	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr19:53762406T>A	uc002qbi.2	+	1	862	c.778T>A	c.(778-780)TCA>ACA	p.S260T		NM_173856	NP_776255	Q8NFZ6	VN1R2_HUMAN	vomeronasal 1 receptor 2	260	Extracellular (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0				GBM - Glioblastoma multiforme(134;0.00301)		AGTCACAAAGTCAGTATATGC	0.433													28	222	---	---	---	---	PASS	A	53762406	A	A	53762406	3	1	150	1	0	0	0	0	1	0	0	0	17176	1667	58	5	780	5	VN1R2	19	53762406	Missense_Mutation	SNP	T	TCGA-66-2765-01A-01D-1522-08	3451853	53762406	5366577	100	53555										
ZNF667	63934	broad.mit.edu	37	chr19	56953173	56953173	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tgttgaataagggatgaatgCcgattgcagaccttctcaca	10	8	1	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr19:56953173C>T	uc002qnd.2	-	5	1353	c.1191G>A	c.(1189-1191)CGG>CGA	p.R397R	ZNF667_uc010etl.2_Silent_p.R179R|ZNF667_uc002qne.2_Silent_p.R397R|ZNF667_uc010etm.2_Silent_p.R340R	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	397	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		GGGATGAATGCCGATTGCAGA	0.363													4	115	---	---	---	---	PASS	T	56953173	T	T	56953173	2	4	150	1	0	0	0	0	0	0	0	1	18071	726	26	3		3	ZNF667	19	56953173	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08	3190767	56953173	2175810	101	53556										
SNAP25	6616	broad.mit.edu	37	chr20	10280021	10280021	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ctggatatgggcaatgagatCgatacacagaatcgccagat	11	8	0	3			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr20:10280021C>T	uc002wnq.1	+	7	725	c.513C>T	c.(511-513)ATC>ATT	p.I171I	SNAP25_uc002wnr.1_Silent_p.I171I|SNAP25_uc002wns.1_Silent_p.I108I|SNAP25_uc010gca.1_Silent_p.I171I|SNAP25_uc010gcb.1_Silent_p.I108I|SNAP25_uc010gcc.1_Silent_p.I65I	NM_130811	NP_570824	P60880	SNP25_HUMAN	synaptosomal-associated protein 25 isoform	171	t-SNARE coiled-coil homology 2.				energy reserve metabolic process|glutamate secretion|neurotransmitter uptake|synaptic vesicle docking involved in exocytosis	cell junction|growth cone|perinuclear region of cytoplasm|synapse|synaptosome				skin(2)	2					Botulinum Toxin Type A(DB00083)	GCAATGAGATCGATACACAGA	0.507													29	92	---	---	---	---	PASS	T	10280021	T	T	10280021	2	4	150	1	0	0	0	0	0	0	0	1	14830	874	31	2		2	SNAP25	20	10280021	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08		10280021	52745499	102	53557										
MYH7B	57644	broad.mit.edu	37	chr20	33582189	33582189	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	caggagaagaatgacctggcCctgcagctgcaggctgtgag	15	10	0	4			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr20:33582189C>T	uc002xbi.1	+	25	2903	c.2811C>T	c.(2809-2811)GCC>GCT	p.A937A		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	895	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			ATGACCTGGCCCTGCAGCTGC	0.667													12	27	---	---	---	---	PASS	T	33582189	T	T	33582189	2	4	150	1	0	0	0	0	0	0	0	1	10040	610	22	3		3	MYH7B	20	33582189	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08	23302168	33582189	29443331	103	53558										
JPH2	57158	broad.mit.edu	37	chr20	42788493	42788493	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ccactcgccctcgtagcggaGgccactggagcgttcgctca	12	16	1	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr20:42788493G>T	uc002xli.1	-	2	1807	c.934C>A	c.(934-936)CTC>ATC	p.L312I		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	312	MORN 7.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			TCGTAGCGGAGGCCACTGGAG	0.662													9	21	---	---	---	---	PASS	T	42788493	T	T	42788493	3	4	150	1	0	0	0	0	1	0	0	0	7961	1000	35	3	1172	3	JPH2	20	42788493	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	9206304	42788493	20237027	104	53559										
SULF2	55959	broad.mit.edu	37	chr20	46295097	46295097	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ccttgtcatcttggtcctcaGgggcccctggccagtgccgc	12	16	3	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr20:46295097G>T	uc002xto.2	-	12	2042	c.1712C>A	c.(1711-1713)CCT>CAT	p.P571H	SULF2_uc002xtr.2_Missense_Mutation_p.P571H|SULF2_uc002xtq.2_Missense_Mutation_p.P571H|SULF2_uc010zyd.1_5'Flank	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	571					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						TTGGTCCTCAGGGGCCCCTGG	0.632													32	110	---	---	---	---	PASS	T	46295097	T	T	46295097	3	4	150	1	0	0	0	0	1	0	0	0	15370	1000	35	3	940	3	SULF2	20	46295097	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08	3506604	46295097	16730423	105	53560										
DDX27	55661	broad.mit.edu	37	chr20	47835947	47835947	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aaaagttaagggccggaccgCaggctgtgctcgcttccgga	14	11	0	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr20:47835947C>T	uc002xuh.2	+	1	116	c.55C>T	c.(55-57)CAG>TAG	p.Q19*		NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	19						nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GGCCGGACCGCAGGCTGTGCT	0.622													8	25	---	---	---	---	PASS	T	47835947	T	T	47835947	4	4	150	1	0	0	0	0	0	1	0	0	4354	711	25	3	57	3	DDX27	20	47835947	Nonsense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	1540850	47835947	15189573	106	53561										
DIDO1	11083	broad.mit.edu	37	chr20	61512601	61512601	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tccccctccccctcaccggtCtcagtggccaggcgcctcgc	9	22	2	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr20:61512601C>T	uc002ydr.1	-	16	4971	c.4707G>A	c.(4705-4707)GAG>GAA	p.E1569E	DIDO1_uc002yds.1_Silent_p.E1569E	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1569					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CCTCACCGGTCTCAGTGGCCA	0.711													4	18	---	---	---	---	PASS	T	61512601	T	T	61512601	2	4	150	1	0	0	0	0	0	0	0	1	4522	912	32	2		2	DIDO1	20	61512601	Silent	SNP	C	TCGA-66-2765-01A-01D-1522-08	13676654	61512601	1512919	107	53562										
NPBWR2	2832	broad.mit.edu	37	chr20	62737655	62737655	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	aagagaagaagggcagaaccAggaccgtgacgcccagccag	14	11	0	4			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chr20:62737655A>G	uc011abt.1	-	1	530	c.530T>C	c.(529-531)CTG>CCG	p.L177P		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	177	Helical; Name=4; (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					GGGCAGAACCAGGACCGTGAC	0.662													8	39	---	---	---	---	PASS	G	62737655	G	G	62737655	3	3	150	1	0	0	0	0	1	0	0	0	10569	188	7	5	474	5	NPBWR2	20	62737655	Missense_Mutation	SNP	A	TCGA-66-2765-01A-01D-1522-08	1225054	62737655	287865	108	53563										
PPEF1	5475	broad.mit.edu	37	chrX	18725907	18725907	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	ttagatagaagtcatgggatGcagcagttcttcaacgaaaa	10	6	3	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chrX:18725907G>A	uc004cyq.2	+	4	489	c.8G>A	c.(7-9)TGC>TAC	p.C3Y	PPEF1_uc004cyp.2_Missense_Mutation_p.C3Y|PPEF1_uc004cyr.2_Missense_Mutation_p.C3Y|PPEF1_uc004cys.2_Missense_Mutation_p.C3Y|PPEF1_uc011mja.1_5'UTR	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding	3					detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)					GTCATGGGATGCAGCAGTTCT	0.438													17	34	---	---	---	---	PASS	A	18725907	A	A	18725907	3	1	150	1	0	0	0	0	1	0	0	0	12307	1319	46	3	10	3	PPEF1	23	18725907	Missense_Mutation	SNP	G	TCGA-66-2765-01A-01D-1522-08		18725907	136544653	109	53564										
FAM47A	158724	broad.mit.edu	37	chrX	34149040	34149040	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tgaggctcggtgggttccttAgttttcttcacccgggcctc	12	12	2	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chrX:34149040A>G	uc004ddg.2	-	1	1389	c.1356T>C	c.(1354-1356)ACT>ACC	p.T452T		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	452										ovary(4)|central_nervous_system(1)	5						TGGGTTCCTTAGTTTTCTTCA	0.557													4	52	---	---	---	---	PASS	G	34149040	G	G	34149040	2	3	150	1	0	0	0	0	0	0	0	1	5569	407	15	5		5	FAM47A	23	34149040	Silent	SNP	A	TCGA-66-2765-01A-01D-1522-08	15423133	34149040	121121520	110	53565										
SHROOM4	57477	broad.mit.edu	37	chrX	50341478	50341478	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	attgatgtcctctagcagccCtcgctgggcctcccgcaaga	10	15	1	2			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chrX:50341478C>G	uc004dpe.2	-	8	4026	c.4000G>C	c.(4000-4002)GGG>CGG	p.G1334R	SHROOM4_uc004dpd.3_RNA	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	1334	ASD2.				actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					TCTAGCAGCCCTCGCTGGGCC	0.478													9	7	---	---	---	---	PASS	G	50341478	G	G	50341478	3	3	150	1	0	0	0	0	1	0	0	0	14296	681	24	4	489	4	SHROOM4	23	50341478	Missense_Mutation	SNP	C	TCGA-66-2765-01A-01D-1522-08	16192438	50341478	104929082	111	53566										
MED12	9968	broad.mit.edu	37	chrX	70349706	70349706	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	tgcgcagcatctgccaacagGtcagtttcaccttcctccca	7	16	3	0			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chrX:70349706G>A	uc004dyy.2	+	27	4066	c.3867_splice	c.e27+1	p.Q1289_splice	MED12_uc011mpq.1_Splice_Site_p.Q1289_splice|MED12_uc004dyz.2_Splice_Site_p.Q1289_splice|MED12_uc004dza.2_Splice_Site_p.Q1136_splice|MED12_uc010nla.2_Splice_Site	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12						androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					CTGCCAACAGGTCAGTTTCAC	0.532											OREG0019857	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	25	---	---	---	---	PASS	A	70349706	A	A	70349706	5	1	150	1	0	0	0	0	0	0	1	0	9428	1275	44	3	3974	3	MED12	23	70349706	Splice_Site	SNP	G	TCGA-66-2765-01A-01D-1522-08	20008228	70349706	84920854	112	53567										
COL4A6	1288	broad.mit.edu	37	chrX	107449748	107449748	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	8	0.677373665743607	0.943149284253579	1.34735612036226	0.72549944942583	1	1	0	taggcttaaattgatcttacTtgtaatcctggtggtcctgc	9	8	1	1			TCGA-66-2765-01A-01D-1522-08	TCGA-66-2765-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	85d7e094-ca96-4090-83aa-2f318ae6e954	3a4cd1fc-922c-4d55-95e8-c06257ede42c	g.chrX:107449748T>A	uc004enw.3	-	9	715	c.612A>T	c.(610-612)CAA>CAT	p.Q204H	COL4A6_uc004env.3_Missense_Mutation_p.Q203H|COL4A6_uc011msn.1_Missense_Mutation_p.Q203H|COL4A6_uc010npk.2_Missense_Mutation_p.Q203H	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	204	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						TTGATCTTACTTGTAATCCTG	0.433									Alport_syndrome_with_Diffuse_Leiomyomatosis				51	41	---	---	---	---	PASS	A	107449748	A	A	107449748	3	1	150	1	0	0	0	0	1	0	0	0	3695	1623	56	5	4611	5	COL4A6	23	107449748	Missense_Mutation	SNP	T	TCGA-66-2765-01A-01D-1522-08	37100042	107449748	47820812	113	53568										
GABRD	2563	broad.mit.edu	37	chr1	1957004	1957004	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cagagctggcgggacagcagGctctcctacaaccacaccaa	10	15	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:1957004G>A	uc001aip.2	+	4	392	c.297G>A	c.(295-297)AGG>AGA	p.R99R		NM_000815	NP_000806	O14764	GBRD_HUMAN	gamma-aminobutyric acid (GABA) A receptor, delta	99	Extracellular (Probable).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;2.7e-19)|all_lung(118;1.22e-08)|Lung NSC(185;1.24e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;2.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.17e-24)|GBM - Glioblastoma multiforme(42;9.56e-08)|Colorectal(212;4.12e-05)|COAD - Colon adenocarcinoma(227;0.000194)|Kidney(185;0.00231)|BRCA - Breast invasive adenocarcinoma(365;0.00441)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		GGGACAGCAGGCTCTCCTACA	0.647													58	19	---	---	---	---	PASS	A	1957004	A	A	1957004	2	1	151	1	0	0	0	0	0	0	0	1	6169	1194	42	3		3	GABRD	1	1957004	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08		1957004	247293617	1	53569										
SPEN	23013	broad.mit.edu	37	chr1	16264403	16264403	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcaacaacgtcctggcccatCggtccctgcccctttctgaa	8	17	1	1	rs61756184		TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:16264403C>G	uc001axk.1	+	13	10810	c.10606C>G	c.(10606-10608)CGG>GGG	p.R3536G	SPEN_uc010obp.1_Missense_Mutation_p.R3495G	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	3536	SPOC.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CCTGGCCCATCGGTCCCTGCC	0.627													57	76	---	---	---	---	PASS	G	16264403	G	G	16264403	3	3	151	1	0	0	0	0	1	0	0	0	15037	875	31	2	10656	2	SPEN	1	16264403	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	14307399	16264403	232986218	2	53570										
DCDC2B	149069	broad.mit.edu	37	chr1	32677697	32677697	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caggaatggggacctggtaaGtcccccatttagtctgaagc	12	10	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:32677697G>A	uc001bun.2	+	4	422	c.422G>A	c.(421-423)AGT>AAT	p.S141N		NM_001099434	NP_001092904	A2VCK2	DCD2B_HUMAN	doublecortin domain containing 2B	141	Doublecortin 2.				intracellular signal transduction						0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GACCTGGTAAGTCCCCCATTT	0.572													46	9	---	---	---	---	PASS	A	32677697	A	A	32677697	3	1	151	1	0	0	0	0	1	0	0	0	4286	1029	36	3	436	3	DCDC2B	1	32677697	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	16413294	32677697	216572924	3	53571										
GJA9	81025	broad.mit.edu	37	chr1	39340741	39340741	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	attgtttgaactgatgtgttGaaaatgactacaactagtac	8	5	0	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:39340741G>C	uc001cct.1	-	2	1311	c.1030C>G	c.(1030-1032)CAA>GAA	p.Q344E	RRAGC_uc001ccr.2_5'Flank|MYCBP_uc001ccs.2_5'Flank	NM_030772	NP_110399	P57773	CXA9_HUMAN	gap junction protein, alpha 9, 59kDa	344	Cytoplasmic (Potential).				cell communication	connexon complex|integral to membrane					0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			CTGATGTGTTGAAAATGACTA	0.313													36	104	---	---	---	---	PASS	C	39340741	C	C	39340741	3	2	151	1	0	0	0	0	1	0	0	0	6406	1299	45	2	521	2	GJA9	1	39340741	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	6663044	39340741	209909880	4	53572										
GJA9	81025	broad.mit.edu	37	chr1	39341106	39341106	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caagaatgtttaagaaaagtGaaatagtggctatagattgc	10	3	0	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:39341106G>A	uc001cct.1	-	2	946	c.665C>T	c.(664-666)TCA>TTA	p.S222L	RRAGC_uc001ccr.2_5'Flank|MYCBP_uc001ccs.2_5'Flank	NM_030772	NP_110399	P57773	CXA9_HUMAN	gap junction protein, alpha 9, 59kDa	222	Helical; (Potential).				cell communication	connexon complex|integral to membrane					0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			TAAGAAAAGTGAAATAGTGGC	0.338													29	90	---	---	---	---	PASS	A	39341106	A	A	39341106	3	1	151	1	0	0	0	0	1	0	0	0	6406	1294	45	2	886	2	GJA9	1	39341106	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	365	39341106	209909515	5	53573										
LEPRE1	64175	broad.mit.edu	37	chr1	43224593	43224593	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcaaagggcttctctcgactTgggtgggaagcaagctccgt	13	10	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:43224593T>A	uc001chv.2	-	4	983	c.870A>T	c.(868-870)CCA>CCT	p.P290P	LEPRE1_uc001chw.2_Silent_p.P290P|LEPRE1_uc001chx.3_Silent_p.P290P	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	290					negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	TCTCTCGACTTGGGTGGGAAG	0.443													80	61	---	---	---	---	PASS	A	43224593	A	A	43224593	2	1	151	1	0	0	0	0	0	0	0	1	8729	1799	63	5		5	LEPRE1	1	43224593	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	3883487	43224593	206026028	6	53574										
MUTYH	4595	broad.mit.edu	37	chr1	45797904	45797904	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agtgggcgctgtggggtacaCactgtggcccctagctccat	14	12	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:45797904C>A	uc001cnm.2	-	10	1074	c.858G>T	c.(856-858)GTG>GTT	p.V286V	MUTYH_uc009vxn.2_Silent_p.V111V|MUTYH_uc001cnf.2_Silent_p.V261V|MUTYH_uc009vxo.2_Silent_p.V261V|MUTYH_uc001cng.2_Silent_p.V272V|MUTYH_uc001cnj.2_Silent_p.V169V|MUTYH_uc001cni.2_Silent_p.V261V|MUTYH_uc001cnh.2_Silent_p.V262V|MUTYH_uc001cno.2_Silent_p.V169V|MUTYH_uc001cnk.2_Silent_p.V146V|MUTYH_uc010oll.1_Intron|MUTYH_uc001cnl.2_Silent_p.V275V|MUTYH_uc009vxp.2_Silent_p.V289V|MUTYH_uc001cnn.2_Silent_p.V276V	NM_012222	NP_036354	Q9UIF7	MUTYH_HUMAN	mutY homolog isoform 1	286					depurination|mismatch repair	nucleoplasm	4 iron, 4 sulfur cluster binding|DNA N-glycosylase activity|endonuclease activity|metal ion binding|MutSalpha complex binding				0	Acute lymphoblastic leukemia(166;0.155)					GTGGGGTACACACTGTGGCCC	0.627			Mis			colorectal		BER_DNA_glycosylases	MUTYH-associated_polyposis				24	31	---	---	---	---	PASS	A	45797904	A	A	45797904	2	1	151	1	0	0	0	0	0	0	0	1	9993	465	17	3		3	MUTYH	1	45797904	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	2573311	45797904	203452717	7	53575										
C1orf175	374977	broad.mit.edu	37	chr1	55144477	55144477	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agagcaacaagcatttcctgGggccctacaaccctgtgagc	10	13	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:55144477G>T	uc010ooe.1	+	11	2323	c.1999G>T	c.(1999-2001)GGG>TGG	p.G667W	C1orf175_uc001cxq.2_RNA|C1orf175_uc010ooc.1_Missense_Mutation_p.G235W|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Missense_Mutation_p.G185W|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc010oog.1_Missense_Mutation_p.G667W|C1orf175_uc010ooh.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	667						integral to membrane	binding				0						GCATTTCCTGGGGCCCTACAA	0.577													19	37	---	---	---	---	PASS	T	55144477	T	T	55144477	3	4	151	1	0	0	0	0	1	0	0	0	2016	1232	43	3	2033	3	C1orf175	1	55144477	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	9346573	55144477	194106144	8	53576										
C1orf173	127254	broad.mit.edu	37	chr1	75097473	75097473	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttctccatgtttcagatctaTtttctcttgtgattttccca	4	10	4	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:75097473T>C	uc001dgg.2	-	7	962	c.743A>G	c.(742-744)AAT>AGT	p.N248S	C1orf173_uc001dgi.3_Missense_Mutation_p.N42S	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	248										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TTCAGATCTATTTTCTCTTGT	0.378													59	117	---	---	---	---	PASS	C	75097473	C	C	75097473	3	2	151	1	0	0	0	0	1	0	0	0	2014	1493	52	5	3881	5	C1orf173	1	75097473	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	19952996	75097473	174153148	9	53577										
CRYZ	1429	broad.mit.edu	37	chr1	75185016	75185016	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caagagcatactctgcataaCccccagagatcgtgctgcta	8	13	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:75185016C>A	uc001dgk.2	-	5	810	c.305G>T	c.(304-306)GGT>GTT	p.G102V	CRYZ_uc001dgj.2_Missense_Mutation_p.G102V|CRYZ_uc001dgl.2_Missense_Mutation_p.G102V|CRYZ_uc001dgm.2_Intron	NM_001130042	NP_001123514	Q08257	QOR_HUMAN	crystallin, zeta isoform a	102					protein homotetramerization|visual perception|xenobiotic catabolic process	cytosol|Golgi apparatus	mRNA 3'-UTR binding|NADPH binding|NADPH:quinone reductase activity|zinc ion binding				0					Dicumarol(DB00266)	CTCTGCATAACCCCCAGAGAT	0.403													36	55	---	---	---	---	PASS	A	75185016	A	A	75185016	3	1	151	1	0	0	0	0	1	0	0	0	3922	507	18	3	708	3	CRYZ	1	75185016	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	87543	75185016	174065605	10	53578										
SLC44A5	204962	broad.mit.edu	37	chr1	75684271	75684271	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tagcgaatgcaccagcaaggGcgcactgacctaatgcaatg	11	11	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:75684271G>A	uc001dgu.2	-	17	1577	c.1433C>T	c.(1432-1434)GCC>GTC	p.A478V	SLC44A5_uc001dgt.2_Missense_Mutation_p.A478V|SLC44A5_uc001dgs.2_Missense_Mutation_p.A436V|SLC44A5_uc001dgr.2_Missense_Mutation_p.A436V|SLC44A5_uc010oqz.1_Missense_Mutation_p.A517V|SLC44A5_uc010ora.1_Missense_Mutation_p.A472V|SLC44A5_uc010orb.1_Missense_Mutation_p.A348V	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	478	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						ACCAGCAAGGGCGCACTGACC	0.433													82	131	---	---	---	---	PASS	A	75684271	A	A	75684271	3	1	151	1	0	0	0	0	1	0	0	0	14639	1203	42	3	869	3	SLC44A5	1	75684271	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	499255	75684271	173566350	11	53579										
SLC44A5	204962	broad.mit.edu	37	chr1	75699737	75699737	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcatccagctatgaacctcaGaagtatcaaaaatatccaac	5	11	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:75699737G>A	uc001dgu.2	-	12	931	c.787C>T	c.(787-789)CTG>TTG	p.L263L	SLC44A5_uc001dgt.2_Silent_p.L263L|SLC44A5_uc001dgs.2_Silent_p.L221L|SLC44A5_uc001dgr.2_Silent_p.L221L|SLC44A5_uc010oqz.1_Silent_p.L302L|SLC44A5_uc010ora.1_Silent_p.L257L|SLC44A5_uc010orb.1_Silent_p.L133L	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	263	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						ATGAACCTCAGAAGTATCAAA	0.398													53	116	---	---	---	---	PASS	A	75699737	A	A	75699737	2	1	151	1	0	0	0	0	0	0	0	1	14639	933	33	2		2	SLC44A5	1	75699737	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	15466	75699737	173550884	12	53580										
LPHN2	23266	broad.mit.edu	37	chr1	82408659	82408659	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tctgtaactgttagtttttgTgtgtcctgggaccttgaaag	11	6	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:82408659T>C	uc001dit.3	+	6	585	c.404T>C	c.(403-405)GTG>GCG	p.V135A	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.V135A|LPHN2_uc001div.2_Missense_Mutation_p.V135A|LPHN2_uc009wcd.2_Missense_Mutation_p.V135A	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	135	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		TTAGTTTTTGTGTGTCCTGGG	0.398													59	120	---	---	---	---	PASS	C	82408659	C	C	82408659	3	2	151	1	0	0	0	0	1	0	0	0	8916	1696	59	5	418	5	LPHN2	1	82408659	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	6708922	82408659	166841962	13	53581										
GCLM	2730	broad.mit.edu	37	chr1	94360225	94360225	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aattgtttagcaaatgcagtCaaatctggtggcatcacaca	8	8	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:94360225C>T	uc001dqg.1	-	6	893	c.600G>A	c.(598-600)TTG>TTA	p.L200L		NM_002061	NP_002052	P48507	GSH0_HUMAN	glutamate-cysteine ligase regulatory protein	200					glutamate metabolic process|glutathione biosynthetic process|regulation of blood vessel size|response to drug|response to oxidative stress|xenobiotic metabolic process	cytosol|soluble fraction	glutamate-cysteine ligase catalytic subunit binding			ovary(1)	1		all_lung(203;0.000815)|Lung NSC(277;0.00363)		all cancers(265;0.00566)|GBM - Glioblastoma multiforme(16;0.0203)|Epithelial(280;0.131)	L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)	CAAATGCAGTCAAATCTGGTG	0.323													67	118	---	---	---	---	PASS	T	94360225	T	T	94360225	2	4	151	1	0	0	0	0	0	0	0	1	6296	825	29	2		2	GCLM	1	94360225	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	11951566	94360225	154890396	14	53582										
ARHGAP29	9411	broad.mit.edu	37	chr1	94645435	94645435	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	attcttttttgtctcttgttCttcatttacatgttggatct	5	7	5	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:94645435C>G	uc001dqj.3	-	20	2695	c.2326G>C	c.(2326-2328)GAA>CAA	p.E776Q	ARHGAP29_uc009wdq.1_RNA|ARHGAP29_uc001dqk.2_Missense_Mutation_p.E342Q	NM_004815	NP_004806	Q52LW3	RHG29_HUMAN	PTPL1-associated RhoGAP 1	776	Rho-GAP.				Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|upper_aerodigestive_tract(1)|ovary(1)	11		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		GTCTCTTGTTCTTCATTTACA	0.299													44	104	---	---	---	---	PASS	G	94645435	G	G	94645435	3	3	151	1	0	0	0	0	1	0	0	0	878	922	32	2	1475	2	ARHGAP29	1	94645435	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	285210	94645435	154605186	15	53583										
COL11A1	1301	broad.mit.edu	37	chr1	103400066	103400066	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caccctcatcacctttttgcCcaaacatcccctgctgtcct	3	19	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:103400066C>A	uc001dul.2	-	46	3857	c.3539G>T	c.(3538-3540)GGG>GTG	p.G1180V	COL11A1_uc001duk.2_Missense_Mutation_p.G376V|COL11A1_uc001dum.2_Missense_Mutation_p.G1192V|COL11A1_uc001dun.2_Missense_Mutation_p.G1141V|COL11A1_uc009weh.2_Missense_Mutation_p.G1064V	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1180	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		ACCTTTTTGCCCAAACATCCC	0.453													24	71	---	---	---	---	PASS	A	103400066	A	A	103400066	3	1	151	1	0	0	0	0	1	0	0	0	3667	623	22	3	1969	3	COL11A1	1	103400066	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	8754631	103400066	145850555	16	53584										
VAV3	10451	broad.mit.edu	37	chr1	108145765	108145766	+	Frame_Shift_Ins	INS	-	T	T													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttcggtctctgcttgcaatcINStttccattgctccagcatac							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:108145765_108145766insT	uc001dvk.1	-	23	2089_2090	c.2035_2036insA	c.(2035-2037)AGAfs	p.R679fs	VAV3_uc010ouu.1_Frame_Shift_Ins_p.R83fs|VAV3_uc001dvj.1_Frame_Shift_Ins_p.R119fs|VAV3_uc010ouv.1_Frame_Shift_Ins_p.R83fs|VAV3_uc010ouw.1_Frame_Shift_Ins_p.R679fs	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	679	SH2.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		TGCTTGCAATCTTTCCATTGCT	0.361													139	68	---	---	---	---		T	108145766	T	T	108145765	7	5	151	1	0	1	1	0	0	0	0	0	17130	913	32	0	527	0	VAV3	1	108145765	Frame_Shift_Ins	INS	-	TCGA-66-2766-01A-01D-1522-08	4745699	108145765	141104856	17	53585										
C1orf59	113802	broad.mit.edu	37	chr1	109198244	109198244	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tatcctcattaatatctactCcaacaagcaattcaatgcat	2	11	3	0	rs141386408		TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:109198244C>A	uc001dvt.3	-	4	465	c.227G>T	c.(226-228)GGA>GTA	p.G76V	C1orf59_uc001dvu.3_Missense_Mutation_p.G76V|C1orf59_uc009wer.2_Missense_Mutation_p.G76V	NM_001102592	NP_001096062	Q5T8I9	HENMT_HUMAN	hypothetical protein LOC113802	76					gene silencing by RNA|piRNA metabolic process	P granule	metal ion binding|O-methyltransferase activity|RNA binding|RNA methyltransferase activity				0		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0152)|Lung(183;0.0895)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.163)		AATATCTACTCCAACAAGCAA	0.353													14	53	---	---	---	---	PASS	A	109198244	A	A	109198244	3	1	151	1	0	0	0	0	1	0	0	0	2051	855	30	2	974	2	C1orf59	1	109198244	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1052479	109198244	140052377	18	53586										
HIPK1	204851	broad.mit.edu	37	chr1	114505001	114505001	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggatggataatgctgtaccgAttgtaccccaggcaccagct	11	11	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:114505001A>G	uc001eem.2	+	9	2205	c.2044A>G	c.(2044-2046)ATT>GTT	p.I682V	HIPK1_uc001eel.2_Missense_Mutation_p.I682V|HIPK1_uc001een.2_Missense_Mutation_p.I682V|HIPK1_uc001eeo.2_Missense_Mutation_p.I308V|HIPK1_uc001eep.2_Missense_Mutation_p.I288V|HIPK1_uc001eeq.2_5'Flank	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	682					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGCTGTACCGATTGTACCCCA	0.443													23	61	---	---	---	---	PASS	G	114505001	G	G	114505001	3	3	151	1	0	0	0	0	1	0	0	0	7116	333	12	5	2092	5	HIPK1	1	114505001	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	5306757	114505001	134745620	19	53587										
SYT6	148281	broad.mit.edu	37	chr1	114680233	114680233	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atggcgggagaagcggtcaaAgtcgaagacactgagatgca	15	7	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:114680233A>T	uc001eev.2	-	3	950	c.700T>A	c.(700-702)TTT>ATT	p.F234I		NM_205848	NP_995320	Q5T7P8	SYT6_HUMAN	synaptotagmin VI	319	Cytoplasmic (Potential).|C2 1.	Calcium 1; via carbonyl oxygen (By similarity).			acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AAGCGGTCAAAGTCGAAGACA	0.552													17	25	---	---	---	---	PASS	T	114680233	T	T	114680233	3	4	151	1	0	0	0	0	1	0	0	0	15475	72	3	5	597	5	SYT6	1	114680233	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	175232	114680233	134570388	20	53588										
SYCP1	6847	broad.mit.edu	37	chr1	115438085	115438085	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttagaagagatgactaagctTacaaataacaaagaagtaga	8	4	0	5			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:115438085T>C	uc001efr.2	+	16	1484	c.1275T>C	c.(1273-1275)CTT>CTC	p.L425L	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Silent_p.L425L|SYCP1_uc009wgw.2_Silent_p.L425L	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	425	Potential.				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGACTAAGCTTACAAATAACA	0.279													5	10	---	---	---	---	PASS	C	115438085	C	C	115438085	2	2	151	1	0	0	0	0	0	0	0	1	15428	1741	61	5		5	SYCP1	1	115438085	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	757852	115438085	133812536	21	53589										
NUDT17	200035	broad.mit.edu	37	chr1	145587438	145587438	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcagcagctacatctggtgtCagccacataagggcgctcac	11	13	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:145587438C>T	uc001eoe.2	-	6	650	c.642G>A	c.(640-642)CTG>CTA	p.L214L	NBPF10_uc001emp.3_Intron	NM_001012758	NP_001012776	P0C025	NUD17_HUMAN	nudix (nucleoside diphosphate linked moiety	214	Nudix hydrolase.						hydrolase activity|metal ion binding				0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CATCTGGTGTCAGCCACATAA	0.597													94	54	---	---	---	---	PASS	T	145587438	T	T	145587438	2	4	151	1	0	0	0	0	0	0	0	1	10734	813	29	2		2	NUDT17	1	145587438	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	30149353	145587438	103663183	22	53590										
HIST2H2BF	440689	broad.mit.edu	37	chr1	149783853	149783853	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tggagcccttcttgggagcaGgagcggatttcgctggatcc	15	10	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:149783853G>A	uc001esr.2	-	1	76	c.26C>T	c.(25-27)CCT>CTT	p.P9L	HIST2H2BF_uc010pbj.1_Missense_Mutation_p.P9L|HIST2H2BF_uc010pbk.1_Missense_Mutation_p.P9L	NM_001024599	NP_001019770	Q5QNW6	H2B2F_HUMAN	histone cluster 2, H2bf isoform a	9					nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)					CTTGGGAGCAGGAGCGGATTT	0.512													123	117	---	---	---	---	PASS	A	149783853	A	A	149783853	3	1	151	1	0	0	0	0	1	0	0	0	7180	1000	35	3	775	3	HIST2H2BF	1	149783853	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	4196415	149783853	99466768	23	53591										
LCE3A	353142	broad.mit.edu	37	chr1	152595380	152595380	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaccacttcccctgtcacagGagttggagctctggcaacgg	12	13	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:152595380G>C	uc010pdt.1	-	1	200	c.200C>G	c.(199-201)TCC>TGC	p.S67C		NM_178431	NP_848518	Q5TA76	LCE3A_HUMAN	late cornified envelope 3A	67					keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGTCACAGGAGTTGGAGCT	0.607													56	56	---	---	---	---	PASS	C	152595380	C	C	152595380	3	2	151	1	0	0	0	0	1	0	0	0	8669	1174	41	2	72	2	LCE3A	1	152595380	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	2811527	152595380	96655241	24	53592										
LCE2C	353140	broad.mit.edu	37	chr1	152648673	152648673	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctgctgtggtcccagctctgGgggctgctgcagctctgggg	17	12	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:152648673G>T	uc001fah.2	+	2	237	c.182G>T	c.(181-183)GGG>GTG	p.G61V		NM_178429	NP_848516	Q5TA81	LCE2C_HUMAN	late cornified envelope 2C	61	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCCAGCTCTGGGGGCTGCTGC	0.627													42	113	---	---	---	---	PASS	T	152648673	T	T	152648673	3	4	151	1	0	0	0	0	1	0	0	0	8667	1232	43	3	184	3	LCE2C	1	152648673	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	53293	152648673	96601948	25	53593										
LCE1B	353132	broad.mit.edu	37	chr1	152784941	152784941	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agatgtcctgccagcagaacCagcagcagtgccagccccct	10	16	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:152784941C>A	uc001faq.2	+	1	495	c.19C>A	c.(19-21)CAG>AAG	p.Q7K		NM_178349	NP_848126	Q5T7P3	LCE1B_HUMAN	late cornified envelope 1B	7					keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			CCAGCAGAACCAGCAGCAGTG	0.483													20	111	---	---	---	---	PASS	A	152784941	A	A	152784941	3	1	151	1	0	0	0	0	1	0	0	0	8660	595	21	3	21	3	LCE1B	1	152784941	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	136268	152784941	96465680	26	53594										
LCE1B	353132	broad.mit.edu	37	chr1	152785258	152785258	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgtggaggagggagtggccaGcactctggaggctgctgcta	18	8	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:152785258G>T	uc001faq.2	+	1	812	c.336G>T	c.(334-336)CAG>CAT	p.Q112H		NM_178349	NP_848126	Q5T7P3	LCE1B_HUMAN	late cornified envelope 1B	112	Gly-rich.				keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGAGTGGCCAGCACTCTGGAG	0.612													37	31	---	---	---	---	PASS	T	152785258	T	T	152785258	3	4	151	1	0	0	0	0	1	0	0	0	8660	962	34	3	338	3	LCE1B	1	152785258	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	317	152785258	96465363	27	53595										
KCNN3	3782	broad.mit.edu	37	chr1	154841969	154841969	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccggtgcaccagggggctggCctgtcggtgccggctgcctc	17	15	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:154841969C>T	uc001ffp.2	-	1	786	c.472G>A	c.(472-474)GCC>ACC	p.A158T	KCNN3_uc009wox.1_Missense_Mutation_p.A158T	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	163						integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			AGGGGGCTGGCCTGTCGGTGC	0.637													8	20	---	---	---	---	PASS	T	154841969	T	T	154841969	3	4	151	1	0	0	0	0	1	0	0	0	8080	739	26	3	1777	3	KCNN3	1	154841969	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	2056711	154841969	94408652	28	53596										
FCRL2	79368	broad.mit.edu	37	chr1	157740362	157740362	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttgttatccttatggtaagcCatcttctgaattttccagtt	6	8	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:157740362C>T	uc001fre.2	-	3	206	c.147G>A	c.(145-147)ATG>ATA	p.M49I	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Missense_Mutation_p.M49I|FCRL2_uc009wsp.2_Missense_Mutation_p.M49I|FCRL2_uc010pia.1_Missense_Mutation_p.M49I	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	49	Ig-like C2-type 1.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TATGGTAAGCCATCTTCTGAA	0.408													55	78	---	---	---	---	PASS	T	157740362	T	T	157740362	3	4	151	1	0	0	0	0	1	0	0	0	5795	594	21	3	1419	3	FCRL2	1	157740362	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	2898393	157740362	91510259	29	53597										
OR6K3	391114	broad.mit.edu	37	chr1	158687140	158687140	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gctgaaacgcaagtacatgaGtgatacactgccaaagaata	9	8	0	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:158687140G>T	uc010pip.1	-	1	814	c.814C>A	c.(814-816)CTC>ATC	p.L272I		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	272	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					AAGTACATGAGTGATACACTG	0.448													50	94	---	---	---	---	PASS	T	158687140	T	T	158687140	3	4	151	1	0	0	0	0	1	0	0	0	11203	1029	36	3	183	3	OR6K3	1	158687140	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	946778	158687140	90563481	30	53598										
KCNJ9	3765	broad.mit.edu	37	chr1	160054134	160054134	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gccgtgcgtcaacaacctcaAcggcttcgtggccgccttcc	10	17	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:160054134A>G	uc001fuy.1	+	2	556	c.314A>G	c.(313-315)AAC>AGC	p.N105S		NM_004983	NP_004974	Q92806	IRK9_HUMAN	potassium inwardly-rectifying channel subfamily	105	Extracellular (By similarity).				synaptic transmission	integral to membrane|plasma membrane	G-protein activated inward rectifier potassium channel activity|protein binding			ovary(1)|skin(1)	2	all_cancers(52;5.86e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AACAACCTCAACGGCTTCGTG	0.667													13	38	---	---	---	---	PASS	G	160054134	G	G	160054134	3	3	151	1	0	0	0	0	1	0	0	0	8057	43	2	5	316	5	KCNJ9	1	160054134	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	1366994	160054134	89196487	31	53599										
IGSF8	93185	broad.mit.edu	37	chr1	160061685	160061685	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtggcaccagtgactagggcCacccctgtacccaccagcag	11	16	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:160061685C>A	uc001fva.2	-	6	1815	c.1770G>T	c.(1768-1770)GTG>GTT	p.V590V	IGSF8_uc001fuz.2_Silent_p.V590V|IGSF8_uc009wtf.2_Silent_p.V590V	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	590	Helical; (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			TGACTAGGGCCACCCCTGTAC	0.552													57	53	---	---	---	---	PASS	A	160061685	A	A	160061685	2	1	151	1	0	0	0	0	0	0	0	1	7604	581	21	3		3	IGSF8	1	160061685	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	7551	160061685	89188936	32	53600										
ADAMTS4	9507	broad.mit.edu	37	chr1	161167800	161167800	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cctaccttggctcttcggggTctggggctggggcttccaag	15	12	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:161167800T>C	uc001fyt.3	-	1	1046	c.618A>G	c.(616-618)AGA>AGG	p.R206R	ADAMTS4_uc001fyu.2_Silent_p.R206R|NDUFS2_uc001fyv.2_5'Flank	NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	206					proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CTCTTCGGGGTCTGGGGCTGG	0.622													41	44	---	---	---	---	PASS	C	161167800	C	C	161167800	2	2	151	1	0	0	0	0	0	0	0	1	268	1664	58	5		5	ADAMTS4	1	161167800	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	1106115	161167800	88082821	33	53601										
GPA33	10223	broad.mit.edu	37	chr1	167059522	167059522	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acaggccacatcttccccacCatggtcttgcttcttctctg	6	16	4	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:167059522C>A	uc001gea.1	-	1	347	c.3G>T	c.(1-3)ATG>ATT	p.M1I		NM_005814	NP_005805	Q99795	GPA33_HUMAN	transmembrane glycoprotein A33 precursor	1						integral to plasma membrane	receptor activity				0						TCTTCCCCACCATGGTCTTGC	0.577													13	15	---	---	---	---	PASS	A	167059522	A	A	167059522	3	1	151	1	0	0	0	0	1	0	0	0	6586	594	21	3	984	3	GPA33	1	167059522	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	5891722	167059522	82191099	34	53602										
PAPPA2	60676	broad.mit.edu	37	chr1	176564468	176564468	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caccaggtccacaattccacCctgcgacaccgggttgtgct	9	16	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:176564468C>A	uc001gkz.2	+	3	2892	c.1728C>A	c.(1726-1728)ACC>ACA	p.T576T	PAPPA2_uc001gky.1_Silent_p.T576T|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	576	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						ACAATTCCACCCTGCGACACC	0.577													34	98	---	---	---	---	PASS	A	176564468	A	A	176564468	2	1	151	1	0	0	0	0	0	0	0	1	11433	610	22	3		3	PAPPA2	1	176564468	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	9504946	176564468	72686153	35	53603										
PAPPA2	60676	broad.mit.edu	37	chr1	176758968	176758968	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gctcctgaagatacaatgccTggaaggtggaatctgggagc	14	8	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:176758968T>A	uc001gkz.2	+	18	5903	c.4739T>A	c.(4738-4740)CTG>CAG	p.L1580Q	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1580	Sushi 3.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						ATACAATGCCTGGAAGGTGGA	0.448													40	30	---	---	---	---	PASS	A	176758968	A	A	176758968	3	1	151	1	0	0	0	0	1	0	0	0	11433	1580	55	5	4858	5	PAPPA2	1	176758968	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	194500	176758968	72491653	36	53604										
CACNA1E	777	broad.mit.edu	37	chr1	181767820	181767820	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	actagcctgggccgttccaaCaccatcggctcagccccacc	8	19	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:181767820C>A	uc001gow.2	+	47	6828	c.6663C>A	c.(6661-6663)AAC>AAA	p.N2221K	CACNA1E_uc009wxs.2_Missense_Mutation_p.N2109K|CACNA1E_uc009wxt.2_Missense_Mutation_p.N1490K	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	2264	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GCCGTTCCAACACCATCGGCT	0.662													5	5	---	---	---	---	PASS	A	181767820	A	A	181767820	3	1	151	1	0	0	0	0	1	0	0	0	2542	477	17	3	6849	3	CACNA1E	1	181767820	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	5008852	181767820	67482801	37	53605										
C1orf26	54823	broad.mit.edu	37	chr1	185240491	185240491	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agtaattatcaagatgttgaGaccctctataacttcctaat	5	8	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:185240491G>C	uc001grg.3	+	17	2592	c.2478G>C	c.(2476-2478)GAG>GAC	p.E826D	C1orf26_uc001grh.3_Missense_Mutation_p.E826D	NM_001105518	NP_001098988	Q5T5J6	SWT1_HUMAN	hypothetical protein LOC54823	826											0						AAGATGTTGAGACCCTCTATA	0.274													22	102	---	---	---	---	PASS	C	185240491	C	C	185240491	3	2	151	1	0	0	0	0	1	0	0	0	2035	933	33	2	2540	2	C1orf26	1	185240491	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	3472671	185240491	64010130	38	53606										
FAM5C	339479	broad.mit.edu	37	chr1	190250787	190250787	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cgacgtcccaaaagtcttatGttgcggaagaattcaggggc	12	9	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:190250787G>T	uc001gse.1	-	3	562	c.330C>A	c.(328-330)AAC>AAA	p.N110K	FAM5C_uc010pot.1_Intron	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	110						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					AAAGTCTTATGTTGCGGAAGA	0.448													65	85	---	---	---	---	PASS	T	190250787	T	T	190250787	3	4	151	1	0	0	0	0	1	0	0	0	5594	1368	48	3	1994	3	FAM5C	1	190250787	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	5010296	190250787	58999834	39	53607										
KIF21B	23046	broad.mit.edu	37	chr1	200959153	200959153	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gctgatgaccacggatgtgtCtgtggagtccagctcctcct	12	12	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:200959153C>A	uc001gvs.1	-	21	3366	c.3049G>T	c.(3049-3051)GAC>TAC	p.D1017Y	KIF21B_uc001gvr.1_Missense_Mutation_p.D1017Y|KIF21B_uc009wzl.1_Missense_Mutation_p.D1017Y|KIF21B_uc010ppn.1_Missense_Mutation_p.D1017Y	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	1017					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						ACGGATGTGTCTGTGGAGTCC	0.642													21	58	---	---	---	---	PASS	A	200959153	A	A	200959153	3	1	151	1	0	0	0	0	1	0	0	0	8289	913	32	2	1881	2	KIF21B	1	200959153	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	10708366	200959153	48291468	40	53608										
IPO9	55705	broad.mit.edu	37	chr1	201839746	201839746	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttgcgggcctatgtgtcagtGaccctggaacaagtagccca	12	11	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:201839746G>A	uc001gwz.2	+	18	2219	c.2169G>A	c.(2167-2169)GTG>GTA	p.V723V		NM_018085	NP_060555	Q96P70	IPO9_HUMAN	importin 9	723					protein import into nucleus	cytoplasm|nucleus	histone binding|protein transporter activity			ovary(2)	2						ATGTGTCAGTGACCCTGGAAC	0.582													37	71	---	---	---	---	PASS	A	201839746	A	A	201839746	2	1	151	1	0	0	0	0	0	0	0	1	7799	1277	45	2		2	IPO9	1	201839746	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	880593	201839746	47410875	41	53609										
ELF3	1999	broad.mit.edu	37	chr1	201980363	201980363	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcctctgttccccctgctgcCacctttggggccgatgactt	10	16	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:201980363C>T	uc001gxg.3	+	1	3291	c.99C>T	c.(97-99)GCC>GCT	p.A33A	ELF3_uc001gxi.3_Silent_p.A33A|ELF3_uc001gxh.3_Silent_p.A33A	NM_004433	NP_004424	P78545	ELF3_HUMAN	E74-like factor 3 (ets domain transcription	33					epidermis development|epithelial cell differentiation|inflammatory response|mammary gland involution|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0						CCCCTGCTGCCACCTTTGGGG	0.577													119	102	---	---	---	---	PASS	T	201980363	T	T	201980363	2	4	151	1	0	0	0	0	0	0	0	1	5055	581	21	3		3	ELF3	1	201980363	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	140617	201980363	47270258	42	53610										
SPATA17	128153	broad.mit.edu	37	chr1	217947719	217947719	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cttcagaaaagagcctgatcCatgggagctgcaattacaga	10	9	1	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:217947719C>T	uc001hlh.1	+	7	589	c.563C>T	c.(562-564)CCA>CTA	p.P188L	SPATA17_uc009xdr.1_RNA|SPATA17_uc001hli.2_Missense_Mutation_p.P188L	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	188						cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		GAGCCTGATCCATGGGAGCTG	0.383													81	81	---	---	---	---	PASS	T	217947719	T	T	217947719	3	4	151	1	0	0	0	0	1	0	0	0	15001	594	21	3	589	3	SPATA17	1	217947719	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	15967356	217947719	31302902	43	53611										
EPRS	2058	broad.mit.edu	37	chr1	220152953	220152953	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gccctaaatgatgtgatgttCctccctaaaatagagagaga	9	8	0	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:220152953C>G	uc001hly.1	-	27	3986	c.3716G>C	c.(3715-3717)GGA>GCA	p.G1239A		NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	1239	Prolyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	ATGTGATGTTCCTCCCTAAAA	0.328													36	102	---	---	---	---	PASS	G	220152953	G	G	220152953	3	3	151	1	0	0	0	0	1	0	0	0	5191	855	30	2	846	2	EPRS	1	220152953	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	2205234	220152953	29097668	44	53612										
SNAP47	116841	broad.mit.edu	37	chr1	227947172	227947172	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccccgcagagaagagctgctCagtctggcatgcaggttagt	13	11	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:227947172C>G	uc001hrf.2	+	3	1523	c.1109C>G	c.(1108-1110)TCA>TGA	p.S370*	SNAP47_uc001hqz.2_Nonsense_Mutation_p.S325*|SNAP47_uc001hra.2_Nonsense_Mutation_p.S128*|SNAP47_uc001hrd.2_Nonsense_Mutation_p.S370*|SNAP47_uc001hre.2_Nonsense_Mutation_p.S128*|SNAP47_uc001hrg.1_Nonsense_Mutation_p.S325*	NM_053052	NP_444280	Q5SQN1	SNP47_HUMAN	synaptosomal-associated protein, 47kDa	370						endomembrane system|membrane|perinuclear region of cytoplasm		p.S370*(1)		ovary(1)	1						AAGAGCTGCTCAGTCTGGCAT	0.517													55	195	---	---	---	---	PASS	G	227947172	G	G	227947172	4	3	151	1	0	0	0	0	0	1	0	0	14832	838	29	2	1119	2	SNAP47	1	227947172	Nonsense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	7794219	227947172	21303449	45	53613										
TTC13	79573	broad.mit.edu	37	chr1	231079575	231079575	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgctcgctgctcaaatacctCtggacgatctggttccaagg	10	12	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:231079575C>G	uc001huf.3	-	6	680	c.649G>C	c.(649-651)GAG>CAG	p.E217Q	TTC13_uc009xfi.2_Intron|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Intron|TTC13_uc009xfk.1_Intron	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	217	TPR 2.						binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		TCAAATACCTCTGGACGATCT	0.388													66	192	---	---	---	---	PASS	G	231079575	G	G	231079575	3	3	151	1	0	0	0	0	1	0	0	0	16677	922	32	2	2005	2	TTC13	1	231079575	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	3132403	231079575	18171046	46	53614										
RYR2	6262	broad.mit.edu	37	chr1	237551473	237551473	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cttcaggagaacatggtgaaGagcagcggaggttagtacct	14	7	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:237551473G>C	uc001hyl.1	+	10	883	c.763G>C	c.(763-765)GAG>CAG	p.E255Q		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	255	Cytoplasmic (By similarity).|MIR 3.				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)			ACATGGTGAAGAGCAGCGGAG	0.453													19	50	---	---	---	---	PASS	C	237551473	C	C	237551473	3	2	151	1	0	0	0	0	1	0	0	0	13769	943	33	2	801	2	RYR2	1	237551473	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	6471898	237551473	11699148	47	53615										
FH	2271	broad.mit.edu	37	chr1	241667398	241667398	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agatcaattctcccagacctGaccgaggaccagaacccaaa	7	14	2	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:241667398G>T	uc001hyx.2	-	7	1084	c.1052C>A	c.(1051-1053)TCA>TAA	p.S351*		NM_000143	NP_000134	P07954	FUMH_HUMAN	fumarate hydratase precursor	351					fumarate metabolic process|tricarboxylic acid cycle	cell junction|mitochondrial matrix|tricarboxylic acid cycle enzyme complex	fumarate hydratase activity			lung(3)|ovary(1)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;2.37e-314)|all_epithelial(177;5.17e-286)|Breast(1374;1.06e-10)|Acute lymphoblastic leukemia(190;4.93e-10)|all_neural(198;0.00118)	OV - Ovarian serous cystadenocarcinoma(106;0.0214)	Colorectal(1306;2.33e-53)|COAD - Colon adenocarcinoma(196;1.05e-44)|KIRC - Kidney renal clear cell carcinoma(1967;0.000109)		TCCCAGACCTGACCGAGGACC	0.303			Mis|N|F			lieomyomatosis|renal			Hereditary_Leiomyomatosis_and_Renal_Cell_Cancer				24	41	---	---	---	---	PASS	T	241667398	T	T	241667398	4	4	151	1	0	0	0	0	0	1	0	0	5875	1294	45	2	496	2	FH	1	241667398	Nonsense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	4115925	241667398	7583223	48	53616										
AHCTF1	25909	broad.mit.edu	37	chr1	247024468	247024468	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgacccctcatccatttcttGatgctccttttcagggctgt	7	13	3	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:247024468G>C	uc001ibu.1	-	28	3872	c.3865C>G	c.(3865-3867)CAA>GAA	p.Q1289E	AHCTF1_uc001ibv.1_Missense_Mutation_p.Q1298E|AHCTF1_uc009xgs.1_Missense_Mutation_p.Q150E|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	1289	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			TCCATTTCTTGATGCTCCTTT	0.418													36	130	---	---	---	---	PASS	C	247024468	C	C	247024468	3	2	151	1	0	0	0	0	1	0	0	0	408	1299	45	2	2967	2	AHCTF1	1	247024468	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	5357070	247024468	2226153	49	53617										
OR2T27	403239	broad.mit.edu	37	chr1	248813788	248813788	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcttgcggctcatgaggacaGgatagtgcagagggttgcag	16	7	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr1:248813788G>T	uc010pzo.1	-	1	398	c.398C>A	c.(397-399)CCT>CAT	p.P133H		NM_001001824	NP_001001824	Q8NH04	O2T27_HUMAN	olfactory receptor, family 2, subfamily T,	133	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;1.15e-05)|all_epithelial(71;5.29e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.089)|Lung NSC(105;0.0969)|Melanoma(84;0.199)	all_cancers(173;0.237)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CATGAGGACAGGATAGTGCAG	0.547													13	71	---	---	---	---	PASS	T	248813788	T	T	248813788	3	4	151	1	0	0	0	0	1	0	0	0	11021	1000	35	3	558	3	OR2T27	1	248813788	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1789320	248813788	436833	50	53618										
GEN1	348654	broad.mit.edu	37	chr2	17952508	17952508	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgtaactctagtccacaactGctagtcactaaaaaactggc	6	11	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:17952508G>T	uc002rct.2	+	7	829	c.756G>T	c.(754-756)CTG>CTT	p.L252L	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Silent_p.L252L|GEN1_uc002rcu.2_Silent_p.L252L	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease	252					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)					GTCCACAACTGCTAGTCACTA	0.353								Homologous_recombination					49	32	---	---	---	---	PASS	T	17952508	T	T	17952508	2	4	151	1	0	0	0	0	0	0	0	1	6335	1306	46	3		3	GEN1	2	17952508	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08		17952508	225246865	51	53619										
SLC8A1	6546	broad.mit.edu	37	chr2	40655902	40655902	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	attggcttccagtatgccatCttctgaagcttcagaagata	8	9	3	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:40655902C>A	uc002rrx.2	-	1	1543	c.1519G>T	c.(1519-1521)GAT>TAT	p.D507Y	SLC8A1_uc002rry.2_Missense_Mutation_p.D507Y|SLC8A1_uc002rrz.2_Missense_Mutation_p.D507Y|SLC8A1_uc002rsa.2_Missense_Mutation_p.D507Y|SLC8A1_uc002rsd.3_Missense_Mutation_p.D507Y|SLC8A1_uc002rsb.1_Missense_Mutation_p.D507Y|SLC8A1_uc010fan.1_Missense_Mutation_p.D507Y|SLC8A1_uc002rsc.1_Missense_Mutation_p.D507Y	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	507	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	AGTATGCCATCTTCTGAAGCT	0.423													151	108	---	---	---	---	PASS	A	40655902	A	A	40655902	3	1	151	1	0	0	0	0	1	0	0	0	14706	913	32	2	1550	2	SLC8A1	2	40655902	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	22703394	40655902	202543471	52	53620										
ZFP36L2	678	broad.mit.edu	37	chr2	43452889	43452889	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aggttggccagggatttctcTgtctgccaaagggaggggag	17	7	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:43452889T>A	uc002rsv.3	-	2	345	c.54A>T	c.(52-54)ACA>ACT	p.T18T	LOC100129726_uc010ynx.1_5'Flank	NM_006887	NP_008818	P47974	TISD_HUMAN	zinc finger protein 36, C3H type-like 2	18					cell proliferation	nucleus	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(82;0.00323)|all_hematologic(82;0.00824)				GGGATTTCTCTGTCTGCCAAA	0.622													44	33	---	---	---	---	PASS	A	43452889	A	A	43452889	2	1	151	1	0	0	0	0	0	0	0	1	17644	1567	55	5		5	ZFP36L2	2	43452889	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	2796987	43452889	199746484	53	53621										
PSME4	23198	broad.mit.edu	37	chr2	54164584	54164584	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtaggaagaaatatttcaaaAtaagtgatggccttttgcat	9	4	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:54164584A>G	uc002rxp.2	-	5	695	c.639T>C	c.(637-639)TAT>TAC	p.Y213Y	PSME4_uc010yop.1_Silent_p.Y99Y|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_5'UTR|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	213					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|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|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			ATATTTCAAAATAAGTGATGG	0.368													180	135	---	---	---	---	PASS	G	54164584	G	G	54164584	2	3	151	1	0	0	0	0	0	0	0	1	12709	108	4	5		5	PSME4	2	54164584	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08	10711695	54164584	189034789	54	53622										
CCDC85A	114800	broad.mit.edu	37	chr2	56420271	56420271	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cccaagcacgtgctgagtggGagcccggaacacttccagaa	12	13	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:56420271G>T	uc002rzn.2	+	2	1438	c.936G>T	c.(934-936)GGG>GGT	p.G312G		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	312	His-rich.									breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TGCTGAGTGGGAGCCCGGAAC	0.642													25	182	---	---	---	---	PASS	T	56420271	T	T	56420271	2	4	151	1	0	0	0	0	0	0	0	1	2859	1161	41	2		2	CCDC85A	2	56420271	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	2255687	56420271	186779102	55	53623										
USP34	9736	broad.mit.edu	37	chr2	61439041	61439041	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgagctataaacagctgcatCaggttaaacagttcttctac	7	9	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:61439041C>A	uc002sbe.2	-	69	8728	c.8706G>T	c.(8704-8706)CTG>CTT	p.L2902L		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2902					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ACAGCTGCATCAGGTTAAACA	0.348													22	181	---	---	---	---	PASS	A	61439041	A	A	61439041	2	1	151	1	0	0	0	0	0	0	0	1	17062	813	29	2		2	USP34	2	61439041	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	5018770	61439041	181760332	56	53624										
FBXO41	150726	broad.mit.edu	37	chr2	73487572	73487572	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtcgccgtgagcaccagcatCtccagtcccttcaggccttc	9	17	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:73487572C>T	uc002sjb.1	-	11	2577	c.2577G>A	c.(2575-2577)GAG>GAA	p.E859E		NM_001080410	NP_001073879	Q8TF61	FBX41_HUMAN	F-box protein 41	798						intracellular	protein binding|zinc ion binding			breast(2)|pancreas(1)	3						GCACCAGCATCTCCAGTCCCT	0.617													8	16	---	---	---	---	PASS	T	73487572	T	T	73487572	2	4	151	1	0	0	0	0	0	0	0	1	5750	912	32	2		2	FBXO41	2	73487572	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	12048531	73487572	169711801	57	53625										
LRRTM4	80059	broad.mit.edu	37	chr2	76975851	76975851	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	attctctctaggtagatggcCggtgctgccgacctggcgat	13	11	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:76975851C>T	uc002snr.2	-	4	2158	c.1743G>A	c.(1741-1743)CCG>CCA	p.P581P	LRRTM4_uc002snq.2_Silent_p.P581P	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	581	Cytoplasmic (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GGTAGATGGCCGGTGCTGCCG	0.597													94	117	---	---	---	---	PASS	T	76975851	T	T	76975851	2	4	151	1	0	0	0	0	0	0	0	1	9042	639	23	1		1	LRRTM4	2	76975851	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	3488279	76975851	166223522	58	53626										
REG1A	5967	broad.mit.edu	37	chr2	79349207	79349207	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cactgattaaggagagtggcActgatgacttcaatgtctgg	12	7	2	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:79349207A>C	uc002snz.2	+	4	380	c.277A>C	c.(277-279)ACT>CCT	p.T93P	REG1A_uc010ffx.1_3'UTR|REG1A_uc010ysd.1_Missense_Mutation_p.T93P	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	93	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						GGAGAGTGGCACTGATGACTT	0.507													42	131	---	---	---	---	PASS	C	79349207	C	C	79349207	3	2	151	1	0	0	0	0	1	0	0	0	13210	159	6	5	287	5	REG1A	2	79349207	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	2373356	79349207	163850166	59	53627										
AFF3	3899	broad.mit.edu	37	chr2	100210742	100210742	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctgccacttgttagaggatgCcggttcagcctgaaagcaga	12	10	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:100210742C>T	uc002tag.2	-	14	1617	c.1381G>A	c.(1381-1383)GCA>ACA	p.A461T	AFF3_uc002taf.2_Missense_Mutation_p.A486T|AFF3_uc010fiq.1_Missense_Mutation_p.A461T|AFF3_uc010yvr.1_Missense_Mutation_p.A614T|AFF3_uc002tah.1_Missense_Mutation_p.A486T	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	461					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						TTAGAGGATGCCGGTTCAGCC	0.443													5	347	---	---	---	---	PASS	T	100210742	T	T	100210742	3	4	151	1	0	0	0	0	1	0	0	0	358	739	26	3	2343	3	AFF3	2	100210742	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	20861535	100210742	142988631	60	53628										
AFF3	3899	broad.mit.edu	37	chr2	100623800	100623800	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttcacaggagtctgaggaacCccaggtttgggaactccaac	11	11	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:100623800C>A	uc002tag.2	-	5	533	c.297G>T	c.(295-297)GGG>GGT	p.G99G	AFF3_uc002taf.2_Silent_p.G124G|AFF3_uc010fiq.1_Silent_p.G99G|AFF3_uc010yvr.1_Silent_p.G253G|AFF3_uc002tah.1_Silent_p.G124G|AFF3_uc010fir.1_Silent_p.G176G|AFF3_uc002tai.2_Silent_p.G21G	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	99					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						TCTGAGGAACCCCAGGTTTGG	0.443													93	129	---	---	---	---	PASS	A	100623800	A	A	100623800	2	1	151	1	0	0	0	0	0	0	0	1	358	610	22	3		3	AFF3	2	100623800	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	413058	100623800	142575573	61	53629										
GPR45	11250	broad.mit.edu	37	chr2	105859164	105859164	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tccctctgctggctgccccaCtccgtctacagcctcctgtc	7	20	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:105859164C>A	uc002tco.1	+	1	965	c.849C>A	c.(847-849)CAC>CAA	p.H283Q		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	283	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						GGCTGCCCCACTCCGTCTACA	0.582													199	244	---	---	---	---	PASS	A	105859164	A	A	105859164	3	1	151	1	0	0	0	0	1	0	0	0	6696	564	20	3	851	3	GPR45	2	105859164	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	5235364	105859164	137340209	62	53630										
RANBP2	5903	broad.mit.edu	37	chr2	109347290	109347290	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aaagctcacagatttctgggTcttctttatgaattggaaga	9	6	4	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:109347290T>C	uc002tem.3	+	3	327	c.201T>C	c.(199-201)GGT>GGC	p.G67G		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	67	TPR.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GATTTCTGGGTCTTCTTTATG	0.338													113	505	---	---	---	---	PASS	C	109347290	C	C	109347290	2	2	151	1	0	0	0	0	0	0	0	1	13028	1654	58	5		5	RANBP2	2	109347290	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	3488126	109347290	133852083	63	53631										
CLASP1	23332	broad.mit.edu	37	chr2	122135144	122135144	+	Frame_Shift_Del	DEL	C	-	-													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcttggcttcgaaaactaaaCttttcaatggcttctgtaac							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:122135144delC	uc002tnc.2	-	33	3963	c.3573delG	c.(3571-3573)AAGfs	p.K1191fs	CLASP1_uc010yyv.1_Frame_Shift_Del_p.K237fs|CLASP1_uc002tmz.2_Frame_Shift_Del_p.K276fs|CLASP1_uc002tna.2_Frame_Shift_Del_p.K237fs|CLASP1_uc010yyw.1_RNA|CLASP1_uc002tnb.2_RNA|CLASP1_uc010yyx.1_RNA|CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Frame_Shift_Del_p.K1132fs|CLASP1_uc010yza.1_Frame_Shift_Del_p.K1124fs|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_RNA|CLASP1_uc002tmy.2_Frame_Shift_Del_p.K27fs|CLASP1_uc002tnf.2_Frame_Shift_Del_p.K93fs	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	1191					axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					GAAAACTAAACTTTTCAATGG	0.363													27	15	---	---	---	---		-	122135144	-	-	122135144	7	5	151	1	0	1	0	1	0	0	0	0	3454	564	20	0	1071	0	CLASP1	2	122135144	Frame_Shift_Del	DEL	C	TCGA-66-2766-01A-01D-1522-08	12787854	122135144	121064229	64	53632										
FAM123C	205147	broad.mit.edu	37	chr2	131521188	131521188	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcgtcagctggctgcgccgaGgccccacgccccgtgcccca	12	20	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:131521188G>A	uc002trw.2	+	2	1733	c.1543G>A	c.(1543-1545)GGC>AGC	p.G515S	FAM123C_uc010fmv.2_Missense_Mutation_p.G515S|FAM123C_uc010fms.1_Missense_Mutation_p.G515S|FAM123C_uc010fmt.1_Missense_Mutation_p.G515S|FAM123C_uc010fmu.1_Missense_Mutation_p.G515S	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	515										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GCTGCGCCGAGGCCCCACGCC	0.682													6	8	---	---	---	---	PASS	A	131521188	A	A	131521188	3	1	151	1	0	0	0	0	1	0	0	0	5424	1000	35	3	1545	3	FAM123C	2	131521188	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	9386044	131521188	111678185	65	53633										
ARHGEF4	50649	broad.mit.edu	37	chr2	131801050	131801050	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agatctcttggtcaggagctCagaactcatctactcggggg	12	10	5	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:131801050C>G	uc002tsa.1	+	11	2013	c.1493C>G	c.(1492-1494)TCA>TGA	p.S498*	ARHGEF4_uc010fmw.1_Intron|ARHGEF4_uc002tsb.1_Nonsense_Mutation_p.S498*|ARHGEF4_uc010fmx.1_Nonsense_Mutation_p.S438*|ARHGEF4_uc002tsc.1_Nonsense_Mutation_p.S41*	NM_015320	NP_056135	Q9NR80	ARHG4_HUMAN	Rho guanine nucleotide exchange factor 4 isoform	498					apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|lamellipodium assembly|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|ruffle membrane	protein domain specific binding|Rac guanyl-nucleotide exchange factor activity			breast(3)|ovary(2)|skin(1)	6		Prostate(154;0.055)		BRCA - Breast invasive adenocarcinoma(221;0.097)		GTCAGGAGCTCAGAACTCATC	0.542													33	105	---	---	---	---	PASS	G	131801050	G	G	131801050	4	3	151	1	0	0	0	0	0	1	0	0	908	838	29	2	1527	2	ARHGEF4	2	131801050	Nonsense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	279862	131801050	111398323	66	53634										
UBXN4	23190	broad.mit.edu	37	chr2	136537796	136537796	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgtacactcttccagcggagAcatttggaccttgttgggaa	11	9	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:136537796A>C	uc002tur.2	+	12	1540	c.1229A>C	c.(1228-1230)GAC>GCC	p.D410A	UBXN4_uc002tus.2_Missense_Mutation_p.D176A|UBXN4_uc002tut.2_Missense_Mutation_p.D46A	NM_014607	NP_055422	Q92575	UBXN4_HUMAN	UBX domain containing 2	410	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|nuclear envelope	protein binding			skin(2)	2						TCCAGCGGAGACATTTGGACC	0.423													128	103	---	---	---	---	PASS	C	136537796	C	C	136537796	3	2	151	1	0	0	0	0	1	0	0	0	16913	275	10	5	1275	5	UBXN4	2	136537796	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	4736746	136537796	106661577	67	53635										
THSD7B	80731	broad.mit.edu	37	chr2	137852569	137852569	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cgttcagggagtctcttgccAggatttaggagcaggagccg	15	9	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:137852569A>G	uc002tva.1	+	3	984	c.984A>G	c.(982-984)CCA>CCG	p.P328P	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Silent_p.P218P	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GTCTCTTGCCAGGATTTAGGA	0.537													74	42	---	---	---	---	PASS	G	137852569	G	G	137852569	2	3	151	1	0	0	0	0	0	0	0	1	15877	175	7	5		5	THSD7B	2	137852569	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08	1314773	137852569	105346804	68	53636										
LRP1B	53353	broad.mit.edu	37	chr2	141264380	141264380	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cttaccacactgcggtgactCatcagagccatctccacagt	7	15	3	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:141264380C>T	uc002tvj.1	-	53	9478	c.8506G>A	c.(8506-8508)GAG>AAG	p.E2836K		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2836	Extracellular (Potential).|LDL-receptor class A 18.				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)		TGCGGTGACTCATCAGAGCCA	0.368										TSP Lung(27;0.18)			101	259	---	---	---	---	PASS	T	141264380	T	T	141264380	3	4	151	1	0	0	0	0	1	0	0	0	8955	835	29	2	5449	2	LRP1B	2	141264380	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	3411811	141264380	101934993	69	53637										
LRP1B	53353	broad.mit.edu	37	chr2	141625764	141625764	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctttatagatggtttttctcCcagcaccactcatagaggca	7	11	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:141625764C>G	uc002tvj.1	-	26	5210	c.4238G>C	c.(4237-4239)GGG>GCG	p.G1413A	LRP1B_uc010fnl.1_Missense_Mutation_p.G595A	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1413	Extracellular (Potential).|LDL-receptor class B 11.				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)		GGTTTTTCTCCCAGCACCACT	0.383										TSP Lung(27;0.18)			94	91	---	---	---	---	PASS	G	141625764	G	G	141625764	3	3	151	1	0	0	0	0	1	0	0	0	8955	623	22	4	9825	4	LRP1B	2	141625764	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	361384	141625764	101573609	70	53638										
BAZ2B	29994	broad.mit.edu	37	chr2	160206824	160206824	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttctttgatctggacactttCtgcctttttcagtttttctc	5	10	5	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:160206824C>T	uc002uao.2	-	28	4610	c.4258G>A	c.(4258-4260)GAA>AAA	p.E1420K	BAZ2B_uc002uap.2_Missense_Mutation_p.E1384K	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	1420					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TGGACACTTTCTGCCTTTTTC	0.328													9	48	---	---	---	---	PASS	T	160206824	T	T	160206824	3	4	151	1	0	0	0	0	1	0	0	0	1332	922	32	2	2288	2	BAZ2B	2	160206824	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	18581060	160206824	82992549	71	53639										
MARCH7	64844	broad.mit.edu	37	chr2	160605213	160605213	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agattcggctcaaggtggaaGaaatacaggaatatcaggga	13	5	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:160605213G>A	uc002uax.2	+	5	1534	c.1412G>A	c.(1411-1413)AGA>AAA	p.R471K	MARCH7_uc010foq.2_Missense_Mutation_p.R471K|MARCH7_uc010zcn.1_Missense_Mutation_p.R415K|MARCH7_uc010for.2_Missense_Mutation_p.R433K|MARCH7_uc002uay.2_RNA	NM_022826	NP_073737	Q9H992	MARH7_HUMAN	axotrophin	471							ligase activity|zinc ion binding				0						CAAGGTGGAAGAAATACAGGA	0.483													143	357	---	---	---	---	PASS	A	160605213	A	A	160605213	3	1	151	1	0	0	0	0	1	0	0	0	9306	942	33	2	1426	2	MARCH7	2	160605213	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	398389	160605213	82594160	72	53640										
SCN1A	6323	broad.mit.edu	37	chr2	166847808	166847808	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttgctcatgtttttccacaaTtggctttgtcacccggtcat	7	11	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:166847808T>C	uc010zcz.1	-	26	5962	c.5944A>G	c.(5944-5946)ATT>GTT	p.I1982V		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1993						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TTTTCCACAATTGGCTTTGTC	0.353													53	84	---	---	---	---	PASS	C	166847808	C	C	166847808	3	2	151	1	0	0	0	0	1	0	0	0	13914	1493	52	5	56	5	SCN1A	2	166847808	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	6242595	166847808	76351565	73	53641										
SCN1A	6323	broad.mit.edu	37	chr2	166915146	166915146	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gagttaaaatgtacagggcaGaggtggcactgaaccggaag	15	6	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:166915146G>A	uc010zcz.1	-	2	335	c.317C>T	c.(316-318)TCT>TTT	p.S106F	SCN1A_uc002udo.3_5'Flank|SCN1A_uc010fpk.2_5'Flank	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	106						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GTACAGGGCAGAGGTGGCACT	0.338													62	100	---	---	---	---	PASS	A	166915146	A	A	166915146	3	1	151	1	0	0	0	0	1	0	0	0	13914	942	33	2	5812	2	SCN1A	2	166915146	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	67338	166915146	76284227	74	53642										
B3GALT1	8708	broad.mit.edu	37	chr2	168726259	168726259	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	taactacccacctttctgttCggggactggctacatctttt	7	12	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:168726259C>T	uc002udz.1	+	2	1061	c.710C>T	c.(709-711)TCG>TTG	p.S237L		NM_020981	NP_066191	Q9Y5Z6	B3GT1_HUMAN	UDP-Gal:betaGlcNAc beta	237	Lumenal (Potential).				lipid glycosylation|protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4						CCTTTCTGTTCGGGGACTGGC	0.488													26	135	---	---	---	---	PASS	T	168726259	T	T	168726259	3	4	151	1	0	0	0	0	1	0	0	0	1247	893	31	2	712	2	B3GALT1	2	168726259	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1811113	168726259	74473114	75	53643										
LRP2	4036	broad.mit.edu	37	chr2	170070280	170070280	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgacctcatactgttcatcaGtataataaaggaaagaatca	6	7	4	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:170070280G>T	uc002ues.2	-	36	6140	c.5927C>A	c.(5926-5928)ACT>AAT	p.T1976N		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1976	LDL-receptor class B 19.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CTGTTCATCAGTATAATAAAG	0.428													132	181	---	---	---	---	PASS	T	170070280	T	T	170070280	3	4	151	1	0	0	0	0	1	0	0	0	8956	1029	36	3	8216	3	LRP2	2	170070280	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1344021	170070280	73129093	76	53644										
LRP2	4036	broad.mit.edu	37	chr2	170135900	170135900	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acccaacagttgggtccacgGcaattcctctaggatgcccc	9	15	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:170135900G>A	uc002ues.2	-	12	1760	c.1547C>T	c.(1546-1548)GCC>GTC	p.A516V	LRP2_uc010zdf.1_Missense_Mutation_p.A516V	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	516	LDL-receptor class B 2.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TGGGTCCACGGCAATTCCTCT	0.403													5	229	---	---	---	---	PASS	A	170135900	A	A	170135900	3	1	151	1	0	0	0	0	1	0	0	0	8956	1203	42	3	12692	3	LRP2	2	170135900	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	65620	170135900	73063473	77	53645										
NFE2L2	4780	broad.mit.edu	37	chr2	178098953	178098953	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caaatacttctcgacttactCcaagatctatatcttgcctc	3	13	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:178098953C>G	uc002ulh.3	-	2	647	c.92G>C	c.(91-93)GGA>GCA	p.G31A	NFE2L2_uc002ulg.3_Missense_Mutation_p.G15A|NFE2L2_uc010zfa.1_Missense_Mutation_p.G15A|NFE2L2_uc002uli.3_Missense_Mutation_p.G15A|NFE2L2_uc010fra.2_Missense_Mutation_p.G15A|NFE2L2_uc010frb.2_Missense_Mutation_p.G15A	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	31					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	p.G31R(1)		central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			TCGACTTACTCCAAGATCTAT	0.363			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			50	42	---	---	---	---	PASS	G	178098953	G	G	178098953	3	3	151	1	0	0	0	0	1	0	0	0	10368	855	30	2	1741	2	NFE2L2	2	178098953	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	7963053	178098953	65100420	78	53646										
TTN	7273	broad.mit.edu	37	chr2	179438157	179438157	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acaaccatcgaatctttagtAatagttgtcacttcagggtt	7	8	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:179438157A>T	uc010zfg.1	-	275	65222	c.64998T>A	c.(64996-64998)ATT>ATA	p.I21666I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.I15361I|TTN_uc010zfi.1_Silent_p.I15294I|TTN_uc010zfj.1_Silent_p.I15169I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22593							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)			AATCTTTAGTAATAGTTGTCA	0.463													102	125	---	---	---	---	PASS	T	179438157	T	T	179438157	2	4	151	1	0	0	0	0	0	0	0	1	16732	358	13	5		5	TTN	2	179438157	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08	1339204	179438157	63761216	79	53647										
TTN	7273	broad.mit.edu	37	chr2	179574553	179574553	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cttctactgtctctgagagtCttttagtgaaacttggtggg	11	7	3	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:179574553C>G	uc010zfg.1	-	96	24985	c.24761G>C	c.(24760-24762)AGA>ACA	p.R8254T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.R4915T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9181							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)			CTCTGAGAGTCTTTTAGTGAA	0.388													38	136	---	---	---	---	PASS	G	179574553	G	G	179574553	3	3	151	1	0	0	0	0	1	0	0	0	16732	913	32	2	76092	2	TTN	2	179574553	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	136396	179574553	63624820	80	53648										
TTN	7273	broad.mit.edu	37	chr2	179590299	179590299	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aaaaataggctgggcgccttCtatggatgcttgtaattcag	11	7	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:179590299C>G	uc010zfg.1	-	68	17124	c.16900G>C	c.(16900-16902)GAA>CAA	p.E5634Q	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E2295Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6561							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)			TGGGCGCCTTCTATGGATGCT	0.433													54	67	---	---	---	---	PASS	G	179590299	G	G	179590299	3	3	151	1	0	0	0	0	1	0	0	0	16732	922	32	2	84065	2	TTN	2	179590299	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	15746	179590299	63609074	81	53649										
UBE2E3	10477	broad.mit.edu	37	chr2	181846838	181846838	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agtggcagttcagatgcggaCcagcgagacccagccgctcc	13	14	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:181846838C>A	uc002unq.1	+	3	288	c.69C>A	c.(67-69)GAC>GAA	p.D23E	UBE2E3_uc002unr.1_Missense_Mutation_p.D23E|UBE2E3_uc010fri.1_Missense_Mutation_p.D23E	NM_182678	NP_872619	Q969T4	UB2E3_HUMAN	ubiquitin-conjugating enzyme E2E 3	23					protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|regulation of growth	cytoplasm|nucleolus	ATP binding|protein binding|ubiquitin-protein ligase activity			ovary(1)	1						CAGATGCGGACCAGCGAGACC	0.498													32	49	---	---	---	---	PASS	A	181846838	A	A	181846838	3	1	151	1	0	0	0	0	1	0	0	0	16851	506	18	3	71	3	UBE2E3	2	181846838	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	2256539	181846838	61352535	82	53650										
UBE2E3	10477	broad.mit.edu	37	chr2	181927582	181927582	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agagcagaacacgacaggatAgccagacagtggaccaagag	13	9	0	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:181927582A>T	uc002unq.1	+	7	810	c.591A>T	c.(589-591)ATA>ATT	p.I197I	UBE2E3_uc002unr.1_Silent_p.I197I|UBE2E3_uc010fri.1_Silent_p.I197I	NM_182678	NP_872619	Q969T4	UB2E3_HUMAN	ubiquitin-conjugating enzyme E2E 3	197					protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|regulation of growth	cytoplasm|nucleolus	ATP binding|protein binding|ubiquitin-protein ligase activity			ovary(1)	1						ACGACAGGATAGCCAGACAGT	0.423													21	37	---	---	---	---	PASS	T	181927582	T	T	181927582	2	4	151	1	0	0	0	0	0	0	0	1	16851	410	15	5		5	UBE2E3	2	181927582	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08	80744	181927582	61271791	83	53651										
NCKAP1	10787	broad.mit.edu	37	chr2	183822189	183822189	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ataagtggatacttacttggTcacaaccagcctgtttttcc	7	10	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:183822189T>C	uc002upc.2	-	19	2419	c.2017A>G	c.(2017-2019)ACC>GCC	p.T673A	NCKAP1_uc002upb.2_Missense_Mutation_p.T679A	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	673					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			ACTTACTTGGTCACAACCAGC	0.353													159	212	---	---	---	---	PASS	C	183822189	C	C	183822189	3	2	151	1	0	0	0	0	1	0	0	0	10221	1667	58	5	1421	5	NCKAP1	2	183822189	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	1894607	183822189	59377184	84	53652										
CLK1	1195	broad.mit.edu	37	chr2	201726069	201726069	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctatggttctgataccggctTtcatggtctctttggcgatg	11	9	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:201726069T>G	uc002uwe.2	-	3	463	c.282A>C	c.(280-282)GAA>GAC	p.E94D	CLK1_uc010zhi.1_Missense_Mutation_p.E136D|CLK1_uc002uwf.2_5'UTR|CLK1_uc002uwg.2_5'UTR|CLK1_uc010fsv.2_RNA	NM_004071	NP_004062	P49759	CLK1_HUMAN	CDC-like kinase 1 isoform 1	94					cell proliferation	nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			pancreas(2)	2						GATACCGGCTTTCATGGTCTC	0.408													206	264	---	---	---	---	PASS	G	201726069	G	G	201726069	3	3	151	1	0	0	0	0	1	0	0	0	3536	1838	64	5	1216	5	CLK1	2	201726069	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	17903880	201726069	41473304	85	53653										
PIKFYVE	200576	broad.mit.edu	37	chr2	209168915	209168915	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agtacagaattttctgagacGccttctcccgacagtgactc	8	12	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:209168915G>A	uc002vcz.2	+	11	1499	c.1341G>A	c.(1339-1341)ACG>ACA	p.T447T	PIKFYVE_uc010fun.1_Silent_p.T128T|PIKFYVE_uc002vcy.1_Silent_p.T447T|PIKFYVE_uc002vcv.2_Silent_p.T350T|PIKFYVE_uc002vcw.2_Silent_p.T447T|PIKFYVE_uc002vcx.2_Silent_p.T361T	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	447					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						TTTCTGAGACGCCTTCTCCCG	0.433													57	157	---	---	---	---	PASS	A	209168915	A	A	209168915	2	1	151	1	0	0	0	0	0	0	0	1	11924	1074	38	1		1	PIKFYVE	2	209168915	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	7442846	209168915	34030458	86	53654										
SPAG16	79582	broad.mit.edu	37	chr2	214204974	214204974	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atagtccaggaaaaaaacaaAttaattaatgacctcaaagg	6	6	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:214204974A>G	uc002veq.2	+	6	716	c.624A>G	c.(622-624)AAA>AAG	p.K208K	SPAG16_uc010fuz.1_Silent_p.K59K|SPAG16_uc002ver.2_Silent_p.K154K|SPAG16_uc010zjk.1_Silent_p.K114K|SPAG16_uc002vep.1_Intron|SPAG16_uc002ves.1_Silent_p.K177K	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	208	Potential.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		AAAAAAACAAATTAATTAATG	0.279													45	18	---	---	---	---	PASS	G	214204974	G	G	214204974	2	3	151	1	0	0	0	0	0	0	0	1	14978	98	4	5		5	SPAG16	2	214204974	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08	5036059	214204974	28994399	87	53655										
SPHKAP	80309	broad.mit.edu	37	chr2	228884227	228884227	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tctgaacaacgacgattttgGggagctcattccatgaccga	10	10	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr2:228884227G>T	uc002vpq.2	-	7	1390	c.1343C>A	c.(1342-1344)CCC>CAC	p.P448H	SPHKAP_uc002vpp.2_Missense_Mutation_p.P448H|SPHKAP_uc010zlx.1_Missense_Mutation_p.P448H	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	448						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GACGATTTTGGGGAGCTCATT	0.512													75	51	---	---	---	---	PASS	T	228884227	T	T	228884227	3	4	151	1	0	0	0	0	1	0	0	0	15047	1232	43	3	3783	3	SPHKAP	2	228884227	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	14679253	228884227	14315146	88	53656										
EDEM1	9695	broad.mit.edu	37	chr3	5243501	5243501	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tccaagcagccctttggtgaCatgacaattaaggactatga	9	9	0	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:5243501C>T	uc003bqi.2	+	4	882	c.750C>T	c.(748-750)GAC>GAT	p.D250D	EDEM1_uc011asz.1_Silent_p.D28D|EDEM1_uc003bqh.2_Silent_p.D250D	NM_014674	NP_055489	Q92611	EDEM1_HUMAN	ER degradation enhancer, mannosidase alpha-like	250	Lumenal (Potential).				ER-associated protein catabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	integral to endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			ovary(2)|breast(1)	3				Epithelial(13;0.0588)|OV - Ovarian serous cystadenocarcinoma(96;0.0682)		CCTTTGGTGACATGACAATTA	0.453													160	199	---	---	---	---	PASS	T	5243501	T	T	5243501	2	4	151	1	0	0	0	0	0	0	0	1	4911	477	17	3		3	EDEM1	3	5243501	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08		5243501	192778929	89	53657										
ATP2B2	491	broad.mit.edu	37	chr3	10442733	10442733	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cttgaggtcattgccctggaTgaagaggccgtcggcaggga	16	9	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:10442733T>A	uc003bvt.2	-	5	1124	c.685A>T	c.(685-687)ATC>TTC	p.I229F	ATP2B2_uc003bvv.2_Missense_Mutation_p.I229F|ATP2B2_uc003bvw.2_Missense_Mutation_p.I229F|ATP2B2_uc010hdp.2_Missense_Mutation_p.I229F|ATP2B2_uc010hdo.2_5'UTR	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	229	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						TTGCCCTGGATGAAGAGGCCG	0.577													65	76	---	---	---	---	PASS	A	10442733	A	A	10442733	3	1	151	1	0	0	0	0	1	0	0	0	1140	1464	51	5	3122	5	ATP2B2	3	10442733	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	5199232	10442733	187579697	90	53658										
PLCL2	23228	broad.mit.edu	37	chr3	17051265	17051265	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caagtgattgtattaattcaAtggttgagggttcagaactc	10	5	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:17051265A>G	uc011awc.1	+	5	508	c.403A>G	c.(403-405)ATG>GTG	p.M135V	PLCL2_uc010het.1_Missense_Mutation_p.M17V|PLCL2_uc011awd.1_Missense_Mutation_p.M17V	NM_001144382	NP_001137854	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2 isoform 1	143	PH.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(2)|ovary(1)|lung(1)	4						TATTAATTCAATGGTTGAGGG	0.433													66	84	---	---	---	---	PASS	G	17051265	G	G	17051265	3	3	151	1	0	0	0	0	1	0	0	0	12040	101	4	5	427	5	PLCL2	3	17051265	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	6608532	17051265	180971165	91	53659										
STAC	6769	broad.mit.edu	37	chr3	36587757	36587757	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aaaaagaaaggcctcatcccCcttgatgtactagaaaacat	6	10	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:36587757C>A	uc003cgh.1	+	11	1224	c.1185C>A	c.(1183-1185)CCC>CCA	p.P395P	STAC_uc011aya.1_Silent_p.P334P	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	395					intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						GCCTCATCCCCCTTGATGTAC	0.473													59	38	---	---	---	---	PASS	A	36587757	A	A	36587757	2	1	151	1	0	0	0	0	0	0	0	1	15238	610	22	3		3	STAC	3	36587757	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	19536492	36587757	161434673	92	53660										
GOLGA4	2803	broad.mit.edu	37	chr3	37388761	37388761	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atttgcgaaaagtgctttttGagtatatgatgggtcgtgag	13	3	0	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:37388761G>C	uc003cgv.2	+	21	6854	c.6550G>C	c.(6550-6552)GAG>CAG	p.E2184Q	GOLGA4_uc003cgw.2_Missense_Mutation_p.E2199Q|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.E2065Q	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	2184	GRIP.|Potential.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						AGTGCTTTTTGAGTATATGAT	0.353													5	155	---	---	---	---	PASS	C	37388761	C	C	37388761	3	2	151	1	0	0	0	0	1	0	0	0	6555	1291	45	2	6702	2	GOLGA4	3	37388761	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	801004	37388761	160633669	93	53661										
SCN5A	6331	broad.mit.edu	37	chr3	38647446	38647446	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggcactgctcacccacctcgTgttctttcttgagcatttcc	7	15	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:38647446T>G	uc003cio.2	-	10	1528	c.1334A>C	c.(1333-1335)CAC>CCC	p.H445P	SCN5A_uc003cin.2_Missense_Mutation_p.H445P|SCN5A_uc003cil.3_Missense_Mutation_p.H445P|SCN5A_uc010hhi.2_Missense_Mutation_p.H445P|SCN5A_uc010hhk.2_Missense_Mutation_p.H445P|SCN5A_uc011ayr.1_Missense_Mutation_p.H445P|SCN5A_uc010hhj.1_Missense_Mutation_p.H56P	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	445			H -> D (found in patients with atrial fibrillation).		blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	ACCCACCTCGTGTTCTTTCTT	0.557													52	13	---	---	---	---	PASS	G	38647446	G	G	38647446	3	3	151	1	0	0	0	0	1	0	0	0	13922	1696	59	5	4792	5	SCN5A	3	38647446	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	1258685	38647446	159374984	94	53662										
SCN10A	6336	broad.mit.edu	37	chr3	38739751	38739751	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cgacgtggtaatctggaagaGgcacagcatgctgttggcga	15	8	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:38739751G>C	uc003ciq.2	-	27	4960	c.4960C>G	c.(4960-4962)CTC>GTC	p.L1654V		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1654	IV.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	ATCTGGAAGAGGCACAGCATG	0.582													114	46	---	---	---	---	PASS	C	38739751	C	C	38739751	3	2	151	1	0	0	0	0	1	0	0	0	13912	1000	35	4	914	4	SCN10A	3	38739751	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	92305	38739751	159282679	95	53663										
ZNF445	353274	broad.mit.edu	37	chr3	44496716	44496716	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcacccaaacccggagctccCcaggcaggatgctcaggaac	11	16	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:44496716C>G	uc003cnf.2	-	3	674	c.326G>C	c.(325-327)GGG>GCG	p.G109A	ZNF445_uc011azv.1_Missense_Mutation_p.G109A|ZNF445_uc011azw.1_Missense_Mutation_p.G109A	NM_181489	NP_852466	P59923	ZN445_HUMAN	zinc finger protein 445	109	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		CCGGAGCTCCCCAGGCAGGAT	0.612													52	21	---	---	---	---	PASS	G	44496716	G	G	44496716	3	3	151	1	0	0	0	0	1	0	0	0	17915	623	22	4	2793	4	ZNF445	3	44496716	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	5756965	44496716	153525714	96	53664										
EPHA6	285220	broad.mit.edu	37	chr3	96706267	96706267	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caaaccaaaacaactggcttCgtacaaactggatctcccgt	6	13	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:96706267C>T	uc010how.1	+	3	587	c.544C>T	c.(544-546)CGT>TGT	p.R182C	EPHA6_uc003drp.1_Missense_Mutation_p.R182C	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	87	Ephrin-binding.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CAACTGGCTTCGTACAAACTG	0.428													386	135	---	---	---	---	PASS	T	96706267	T	T	96706267	3	4	151	1	0	0	0	0	1	0	0	0	5171	884	31	2	554	2	EPHA6	3	96706267	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	52209551	96706267	101316163	97	53665										
TBC1D23	55773	broad.mit.edu	37	chr3	100029275	100029275	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcctaatggctcaagtgataGaggaatgaaatcactagtaa	9	6	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:100029275G>C	uc003dtt.2	+	14	1619	c.1442G>C	c.(1441-1443)AGA>ACA	p.R481T	TBC1D23_uc003dts.2_Missense_Mutation_p.R481T	NM_018309	NP_060779	Q9NUY8	TBC23_HUMAN	TBC1 domain family, member 23	481						intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2						TCAAGTGATAGAGGAATGAAA	0.333													55	244	---	---	---	---	PASS	C	100029275	C	C	100029275	3	2	151	1	0	0	0	0	1	0	0	0	15610	942	33	2	1496	2	TBC1D23	3	100029275	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	3323008	100029275	97993155	98	53666										
ZNF80	7634	broad.mit.edu	37	chr3	113955287	113955287	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	actcgtagggctttcctgcaGtgtgggtcatactatgtcgg	13	9	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:113955287G>A	uc010hqo.2	-	1	1139	c.635C>T	c.(634-636)ACT>ATT	p.T212I	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	212						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)				CTTTCCTGCAGTGTGGGTCAT	0.483													260	53	---	---	---	---	PASS	A	113955287	A	A	113955287	3	1	151	1	0	0	0	0	1	0	0	0	18165	1029	36	3	190	3	ZNF80	3	113955287	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	13926012	113955287	84067143	99	53667										
GAP43	2596	broad.mit.edu	37	chr3	115395334	115395334	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aggaggagcctaaacaagccGatgtgcctgctgctgtcact	12	11	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:115395334G>T	uc003ebq.2	+	2	891	c.505G>T	c.(505-507)GAT>TAT	p.D169Y	GAP43_uc003ebr.2_Missense_Mutation_p.D205Y	NM_002045	NP_002036	P17677	NEUM_HUMAN	growth associated protein 43 isoform 2	169					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell differentiation|nervous system development|regulation of filopodium assembly|regulation of growth|response to wounding	cell junction|filopodium membrane|growth cone membrane|synapse	calmodulin binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.164)		TAAACAAGCCGATGTGCctgc	0.423													17	7	---	---	---	---	PASS	T	115395334	T	T	115395334	3	4	151	1	0	0	0	0	1	0	0	0	6235	1058	37	2	653	2	GAP43	3	115395334	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1440047	115395334	82627096	100	53668										
IGSF11	152404	broad.mit.edu	37	chr3	118623603	118623603	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aaatgataataactgcaccaGtgccaatggctccagctatt	7	10	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:118623603G>T	uc003ebw.2	-	6	993	c.746C>A	c.(745-747)ACT>AAT	p.T249N	IGSF11_uc011biv.1_Intron|IGSF11_uc003ebx.2_Missense_Mutation_p.T225N|IGSF11_uc003eby.2_Missense_Mutation_p.T248N|IGSF11_uc003ebz.2_Missense_Mutation_p.T224N|IGSF11_uc010hqs.2_Missense_Mutation_p.T248N	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	249	Helical; (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						AACTGCACCAGTGCCAATGGC	0.348													367	95	---	---	---	---	PASS	T	118623603	T	T	118623603	3	4	151	1	0	0	0	0	1	0	0	0	7598	1029	36	3	557	3	IGSF11	3	118623603	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	3228269	118623603	79398827	101	53669										
POLQ	10721	broad.mit.edu	37	chr3	121190857	121190857	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctgtagcagtgtgcgactgtGatacaggatagattctttcc	11	8	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:121190857G>A	uc003eee.3	-	22	6827	c.6698C>T	c.(6697-6699)TCA>TTA	p.S2233L	POLQ_uc003eed.2_Missense_Mutation_p.S1405L	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	2233					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		GTGCGACTGTGATACAGGATA	0.358								DNA_polymerases_(catalytic_subunits)					89	115	---	---	---	---	PASS	A	121190857	A	A	121190857	3	1	151	1	0	0	0	0	1	0	0	0	12208	1294	45	2	1110	2	POLQ	3	121190857	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	2567254	121190857	76831573	102	53670										
POLQ	10721	broad.mit.edu	37	chr3	121217337	121217337	+	Missense_Mutation	SNP	C	A	A													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cgtttaccttttatggatggCcatttgtcgatgctgtctct							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:121217337C>A	uc003eee.3	-	13	2269	c.2140G>T	c.(2140-2142)GCC>TCC	p.A714S		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	714					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TTATGGATGGCCATTTGTCGA	0.373								DNA_polymerases_(catalytic_subunits)					165	57	---	---	---	---	PASS	A	121217337	A	A	121217337	3	1	151	1	0	0	0	0	1	0	0	0	12208	739	26	3	5704	3	POLQ	3	121217337	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	26480	121217337	76805093	103	53671	976	2								
POLQ	10721	broad.mit.edu	37	chr3	121217338	121217338	+	Missense_Mutation	SNP	C	T	T													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtttaccttttatggatggcCatttgtcgatgctgtctctc							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:121217338C>T	uc003eee.3	-	13	2268	c.2139G>A	c.(2137-2139)ATG>ATA	p.M713I		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	713					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TATGGATGGCCATTTGTCGAT	0.373								DNA_polymerases_(catalytic_subunits)					167	57	---	---	---	---	PASS	T	121217338	T	T	121217338	3	4	151	1	0	0	0	0	1	0	0	0	12208	594	21	3	5705	3	POLQ	3	121217338	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1	121217338	76805092	104	53672	976	2								
DTX3L	151636	broad.mit.edu	37	chr3	122284753	122284753	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agcaccaaatacttgttgacGaaaaacctgtgcccattttc	6	11	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:122284753G>A	uc003efk.2	+	2	324	c.235G>A	c.(235-237)GAA>AAA	p.E79K	DTX3L_uc010hrj.2_Missense_Mutation_p.E79K|PARP9_uc003eff.3_5'Flank|PARP9_uc010hri.2_5'Flank|PARP9_uc011bjs.1_5'Flank|PARP9_uc003efg.2_5'Flank|PARP9_uc003efi.2_5'Flank|PARP9_uc003efh.2_5'Flank|PARP9_uc003efj.2_5'Flank	NM_138287	NP_612144	Q8TDB6	DTX3L_HUMAN	deltex 3-like	79					histone monoubiquitination|response to DNA damage stimulus	cytoplasm|nucleus	histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)	4				GBM - Glioblastoma multiforme(114;0.0459)		ACTTGTTGACGAAAAACCTGT	0.393													122	72	---	---	---	---	PASS	A	122284753	A	A	122284753	3	1	151	1	0	0	0	0	1	0	0	0	4796	1059	37	2	241	2	DTX3L	3	122284753	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1067415	122284753	75737677	105	53673										
PODXL2	50512	broad.mit.edu	37	chr3	127379755	127379755	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agccactgcaggagcagctgGtttgtctggccagcacgagg	15	11	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:127379755G>T	uc003ejq.2	+	3	908	c.884G>T	c.(883-885)GGT>GTT	p.G295V		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	295	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						GGAGCAGCTGGTTTGTCTGGC	0.622													64	9	---	---	---	---	PASS	T	127379755	T	T	127379755	3	4	151	1	0	0	0	0	1	0	0	0	12181	1261	44	3	894	3	PODXL2	3	127379755	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	5095002	127379755	70642675	106	53674										
ZIC4	84107	broad.mit.edu	37	chr3	147113820	147113820	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcccagaagcaaatgtggttGgcctgttccgggccgccgac	13	13	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:147113820G>T	uc003ewd.1	-	3	780	c.507C>A	c.(505-507)GCC>GCA	p.A169A	ZIC4_uc003ewc.1_Silent_p.A99A|ZIC4_uc011bno.1_Silent_p.A219A	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	169						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						AAATGTGGTTGGCCTGTTCCG	0.602													202	193	---	---	---	---	PASS	T	147113820	T	T	147113820	2	4	151	1	0	0	0	0	0	0	0	1	17678	1335	47	3		3	ZIC4	3	147113820	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	19734065	147113820	50908610	107	53675										
ZIC1	7545	broad.mit.edu	37	chr3	147128490	147128490	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcgccgcagctgcacggctaCgggcccatgaacgtgaacat	13	14	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:147128490C>G	uc003ewe.2	+	1	1310	c.591C>G	c.(589-591)TAC>TAG	p.Y197*		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	197					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TGCACGGCTACGGGCCCATGA	0.657													21	105	---	---	---	---	PASS	G	147128490	G	G	147128490	4	3	151	1	0	0	0	0	0	1	0	0	17675	547	19	4	593	4	ZIC1	3	147128490	Nonsense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	14670	147128490	50893940	108	53676										
P2RY13	53829	broad.mit.edu	37	chr3	151046740	151046740	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tccgagtgtctctggggcacCgctcagatctgttgaagcct	12	12	3	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:151046740C>G	uc003eyv.2	-	2	125	c.104G>C	c.(103-105)CGG>CCG	p.R35P	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_176894	NP_795713	Q9BPV8	P2Y13_HUMAN	purinergic receptor P2Y, G-protein coupled, 13	35	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(3)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0189)|Lung(72;0.0278)			TCTGGGGCACCGCTCAGATCT	0.468													78	607	---	---	---	---	PASS	G	151046740	G	G	151046740	3	3	151	1	0	0	0	0	1	0	0	0	11350	652	23	4	964	4	P2RY13	3	151046740	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	3918250	151046740	46975690	109	53677										
IGSF10	285313	broad.mit.edu	37	chr3	151161095	151161095	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aatggtttcacttcagtgccAtcagagaggacccagtaaac	9	10	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:151161095A>G	uc011bod.1	-	5	5640	c.5640T>C	c.(5638-5640)GAT>GAC	p.D1880D	IGSF10_uc011bob.1_5'Flank|IGSF10_uc011boc.1_5'Flank	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1880	Ig-like C2-type 5.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTTCAGTGCCATCAGAGAGGA	0.438													45	286	---	---	---	---	PASS	G	151161095	G	G	151161095	2	3	151	1	0	0	0	0	0	0	0	1	7597	214	8	5		5	IGSF10	3	151161095	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08	114355	151161095	46861335	110	53678										
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atcctctctctgaaatcactGagcaggagaaagattttcta	7	9	4	4	rs104886003		TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			68	217	---	---	---	---	PASS	A	178936091	A	A	178936091	3	1	151	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	27774996	178936091	19086339	111	53679										
YEATS2	55689	broad.mit.edu	37	chr3	183433028	183433028	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtggcccttccaaataagcgGcataaagcaattgagaattc	9	9	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:183433028G>A	uc003fly.2	+	2	273	c.78G>A	c.(76-78)CGG>CGA	p.R26R		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	26					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)			CAAATAAGCGGCATAAAGCAA	0.398													6	402	---	---	---	---	PASS	A	183433028	A	A	183433028	2	1	151	1	0	0	0	0	0	0	0	1	17469	1190	42	3		3	YEATS2	3	183433028	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	4496937	183433028	14589402	112	53680										
HTR3E	285242	broad.mit.edu	37	chr3	183823570	183823570	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caggtggccatcaggcgcagGcccagtctctatgtcataaa	11	12	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:183823570G>A	uc010hxq.2	+	7	1204	c.738G>A	c.(736-738)AGG>AGA	p.R246R	HTR3E_uc003fml.3_Silent_p.R231R|HTR3E_uc003fmm.2_Silent_p.R261R|HTR3E_uc010hxr.2_Silent_p.R272R|HTR3E_uc003fmn.2_Silent_p.R246R	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	246	Extracellular (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			TCAGGCGCAGGCCCAGTCTCT	0.532													84	124	---	---	---	---	PASS	A	183823570	A	A	183823570	2	1	151	1	0	0	0	0	0	0	0	1	7448	1194	42	3		3	HTR3E	3	183823570	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	390542	183823570	14198860	113	53681										
LPP	4026	broad.mit.edu	37	chr3	188584086	188584086	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cctcactgtttcacctgcgtGatgtgccaccgcagcctgga	10	15	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:188584086G>C	uc003frs.1	+	9	1755	c.1509G>C	c.(1507-1509)GTG>GTC	p.V503V	LPP_uc011bsg.1_Silent_p.V356V|LPP_uc011bsi.1_Silent_p.V503V|LPP_uc011bsj.1_Silent_p.V340V	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	503	LIM zinc-binding 2.				cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		TCACCTGCGTGATGTGCCACC	0.552			T	HMGA2|MLL|C12orf9	lipoma|leukemia								41	245	---	---	---	---	PASS	C	188584086	C	C	188584086	2	2	151	1	0	0	0	0	0	0	0	1	8923	1277	45	2		2	LPP	3	188584086	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	4760516	188584086	9438344	114	53682										
CLDN16	10686	broad.mit.edu	37	chr3	190122607	190122607	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cagatattctagctgggtttGgatttctcaccctgctcctt	8	11	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:190122607G>T	uc003fsi.2	+	3	552	c.484G>T	c.(484-486)GGA>TGA	p.G162*	CLDN16_uc010hze.2_Intron	NM_006580	NP_006571	Q9Y5I7	CLD16_HUMAN	claudin 16	162	Helical; (Potential).				calcium-independent cell-cell adhesion|cellular metal ion homeostasis|excretion	integral to membrane|tight junction	identical protein binding|magnesium ion transmembrane transporter activity|structural molecule activity			ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.018)		AGCTGGGTTTGGATTTCTCAC	0.483													157	249	---	---	---	---	PASS	T	190122607	T	T	190122607	4	4	151	1	0	0	0	0	0	1	0	0	3477	1349	47	3	494	3	CLDN16	3	190122607	Nonsense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1538521	190122607	7899823	115	53683										
DLG1	1739	broad.mit.edu	37	chr3	196921445	196921445	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttgaggaggtgtatcttcatCctgatacctgtatttctgta	9	7	3	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr3:196921445C>T	uc003fxo.3	-	5	524	c.334G>A	c.(334-336)GAT>AAT	p.D112N	DLG1_uc011bud.1_5'UTR|DLG1_uc003fxn.3_Missense_Mutation_p.D112N|DLG1_uc011bue.1_Missense_Mutation_p.D112N|DLG1_uc010ial.2_Missense_Mutation_p.D112N|DLG1_uc011buf.1_RNA|DLG1_uc003fxp.2_RNA|DLG1_uc010iam.1_Missense_Mutation_p.D112N	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	112					actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		GTATCTTCATCCTGATACCTG	0.358													101	128	---	---	---	---	PASS	T	196921445	T	T	196921445	3	4	151	1	0	0	0	0	1	0	0	0	4554	855	30	2	2572	2	DLG1	3	196921445	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	6798838	196921445	1100985	116	53684										
GPR78	27201	broad.mit.edu	37	chr4	8582963	8582963	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atgccaagtcattggcttccTggacaccttcctggcgtcca	9	14	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:8582963T>A	uc003glk.2	+	1	673	c.254T>A	c.(253-255)CTG>CAG	p.L85Q	CPZ_uc003gll.2_RNA	NM_080819	NP_543009	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	85	Helical; Name=3; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(4)|ovary(2)	6						ATTGGCTTCCTGGACACCTTC	0.706													7	3	---	---	---	---	PASS	A	8582963	A	A	8582963	3	1	151	1	0	0	0	0	1	0	0	0	6710	1580	55	5	256	5	GPR78	4	8582963	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08		8582963	182571313	117	53685										
PACRGL	133015	broad.mit.edu	37	chr4	20706339	20706339	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	taaaacacaggaatgcagttCagggaagcaaatcctcattg	9	8	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:20706339C>T	uc010iek.2	+	3	500	c.109C>T	c.(109-111)CAG>TAG	p.Q37*	PACRGL_uc003gpu.2_RNA|PACRGL_uc010iei.1_Nonsense_Mutation_p.Q85*|PACRGL_uc003gpz.2_Nonsense_Mutation_p.Q37*|PACRGL_uc011bxm.1_Nonsense_Mutation_p.Q37*|PACRGL_uc003gqa.2_Nonsense_Mutation_p.Q37*|PACRGL_uc003gpx.3_RNA|PACRGL_uc003gpv.2_Nonsense_Mutation_p.Q37*|PACRGL_uc003gpw.2_RNA|PACRGL_uc010iej.1_RNA|PACRGL_uc011bxn.1_Nonsense_Mutation_p.Q37*|PACRGL_uc003gpy.2_Nonsense_Mutation_p.Q37*	NM_145048	NP_659485	Q8N7B6	PACRL_HUMAN	PARK2 co-regulated-like isoform 1	37							binding				0						GAATGCAGTTCAGGGAAGCAA	0.388													46	87	---	---	---	---	PASS	T	20706339	T	T	20706339	4	4	151	1	0	0	0	0	0	1	0	0	11371	827	29	2	115	2	PACRGL	4	20706339	Nonsense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	12123376	20706339	170447937	118	53686										
PPARGC1A	10891	broad.mit.edu	37	chr4	23816007	23816007	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggtcttcctttcctcgtgtcCaccagtgaggactgaggact	11	12	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:23816007C>A	uc003gqs.2	-	8	1219	c.1099G>T	c.(1099-1101)GGA>TGA	p.G367*	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	367					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				TCCTCGTGTCCACCAGTGAGG	0.478													134	36	---	---	---	---	PASS	A	23816007	A	A	23816007	4	1	151	1	0	0	0	0	0	1	0	0	12300	603	21	3	1321	3	PPARGC1A	4	23816007	Nonsense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	3109668	23816007	167338269	119	53687										
C4orf19	55286	broad.mit.edu	37	chr4	37592264	37592264	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcagcattggggcccagctgGagacaacgttgatcataatg	12	9	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:37592264G>A	uc003gsw.3	+	4	770	c.587G>A	c.(586-588)GGA>GAA	p.G196E	C4orf19_uc003gsy.3_Missense_Mutation_p.G196E	NM_001104629	NP_001098099	Q8IY42	CD019_HUMAN	hypothetical protein LOC55286	196											0						GGCCCAGCTGGAGACAACGTT	0.493													32	81	---	---	---	---	PASS	A	37592264	A	A	37592264	3	1	151	1	0	0	0	0	1	0	0	0	2253	1174	41	2	593	2	C4orf19	4	37592264	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	13776257	37592264	153562012	120	53688										
TBC1D1	23216	broad.mit.edu	37	chr4	38117547	38117547	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgacatggggctgcggaaacAgtatcggccagacatgatta	13	8	0	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:38117547A>T	uc003gtb.2	+	16	3117	c.2774A>T	c.(2773-2775)CAG>CTG	p.Q925L	TBC1D1_uc011byd.1_Missense_Mutation_p.Q1019L|TBC1D1_uc010ifd.2_Missense_Mutation_p.Q712L	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	925	Rab-GAP TBC.					nucleus	Rab GTPase activator activity			ovary(1)	1						CTGCGGAAACAGTATCGGCCA	0.408													42	110	---	---	---	---	PASS	T	38117547	T	T	38117547	3	4	151	1	0	0	0	0	1	0	0	0	15594	188	7	5	2832	5	TBC1D1	4	38117547	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	525283	38117547	153036729	121	53689										
FAM114A1	92689	broad.mit.edu	37	chr4	38907442	38907442	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttccccttcatcagcctctcGgggtatgctgtctgccatca	8	15	5	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:38907442G>T	uc003gtn.2	+	6	793	c.617G>T	c.(616-618)CGG>CTG	p.R206L	FAM114A1_uc011byh.1_5'UTR	NM_138389	NP_612398	Q8IWE2	NXP20_HUMAN	hypothetical protein LOC92689	206						cytoplasm				ovary(1)	1						TCAGCCTCTCGGGGTATGCTG	0.488													55	60	---	---	---	---	PASS	T	38907442	T	T	38907442	3	4	151	1	0	0	0	0	1	0	0	0	5403	1116	39	1	631	1	FAM114A1	4	38907442	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	789895	38907442	152246834	122	53690										
KLB	152831	broad.mit.edu	37	chr4	39409024	39409024	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agtttctttttatcaattttCaatttcctggccaaggcttt	5	8	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:39409024C>T	uc003gua.2	+	1	552	c.455C>T	c.(454-456)TCA>TTA	p.S152L	KLB_uc011byj.1_Missense_Mutation_p.S152L	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	152	Extracellular (Potential).|Glycosyl hydrolase-1 1.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						TATCAATTTTCAATTTCCTGG	0.403													79	268	---	---	---	---	PASS	T	39409024	T	T	39409024	3	4	151	1	0	0	0	0	1	0	0	0	8332	838	29	2	457	2	KLB	4	39409024	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	501582	39409024	151745252	123	53691										
ATP10D	57205	broad.mit.edu	37	chr4	47538480	47538480	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaatctggctgagcaggtatGaaaagatgcattttttcaat	10	5	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:47538480G>A	uc003gxk.1	+	8	1206	c.1042G>A	c.(1042-1044)GAA>AAA	p.E348K	ATP10D_uc003gxl.1_5'UTR|ATP10D_uc003gxj.3_Missense_Mutation_p.E348K	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	348	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						GAGCAGGTATGAAAAGATGCA	0.353													125	350	---	---	---	---	PASS	A	47538480	A	A	47538480	3	1	151	1	0	0	0	0	1	0	0	0	1118	1291	45	2	1068	2	ATP10D	4	47538480	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	8129456	47538480	143615796	124	53692										
MUC7	4589	broad.mit.edu	37	chr4	71346520	71346520	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tctttcttttctgcagttcaGtgaaggtcgagaaagggatc	11	7	4	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:71346520G>T	uc011cat.1	+	4	347	c.59G>T	c.(58-60)AGT>ATT	p.S20I	MUC7_uc011cau.1_Missense_Mutation_p.S20I|MUC7_uc003hfj.2_Missense_Mutation_p.S20I	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	20						extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			ctgcagTTCAGTGAAGGTCGA	0.229													62	151	---	---	---	---	PASS	T	71346520	T	T	71346520	3	4	151	1	0	0	0	0	1	0	0	0	9981	1029	36	3	65	3	MUC7	4	71346520	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	23808040	71346520	119807756	125	53693										
DCK	1633	broad.mit.edu	37	chr4	71895091	71895091	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caaagagtttttgagtacttTgtgatcttgctgaagactac	9	6	1	5			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:71895091T>G	uc003hfx.2	+	7	1067	c.779T>G	c.(778-780)TTG>TGG	p.L260W	DCK_uc011cbb.1_Missense_Mutation_p.L188W	NM_000788	NP_000779	P27707	DCK_HUMAN	deoxycytidine kinase	260					purine base metabolic process|purine-containing compound salvage|pyrimidine base metabolic process|pyrimidine nucleoside salvage|pyrimidine nucleotide metabolic process	cytosol|nucleus	ATP binding|deoxycytidine kinase activity|drug binding|phosphotransferase activity, alcohol group as acceptor|protein homodimerization activity			ovary(1)	1			Lung(101;0.235)		Cladribine(DB00242)|Clofarabine(DB00631)|Decitabine(DB01262)|Fludarabine(DB01073)|Gemcitabine(DB00441)|Pemetrexed(DB00642)|Zalcitabine(DB00943)	TTGAGTACTTTGTGATCTTGC	0.323													33	109	---	---	---	---	PASS	G	71895091	G	G	71895091	3	3	151	1	0	0	0	0	1	0	0	0	4290	1821	63	5	805	5	DCK	4	71895091	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	548571	71895091	119259185	126	53694										
PRKG2	5593	broad.mit.edu	37	chr4	82096031	82096031	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtttctcccatacatgcattCcaccatgtctttgatctgct	5	13	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:82096031C>A	uc003hmh.2	-	2	558	c.544G>T	c.(544-546)GAA>TAA	p.E182*	PRKG2_uc011cch.1_Nonsense_Mutation_p.E182*	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	182	cGMP 1.				platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						TACATGCATTCCACCATGTCT	0.403													91	246	---	---	---	---	PASS	A	82096031	A	A	82096031	4	1	151	1	0	0	0	0	0	1	0	0	12523	864	30	2	1812	2	PRKG2	4	82096031	Nonsense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	10200940	82096031	109058245	127	53695										
FAM190A	401145	broad.mit.edu	37	chr4	91389426	91389426	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	actctgtcgtctcatgtgccGcagtagttcttactcctatg	8	12	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:91389426G>C	uc003hsv.3	+	5	1985	c.1645G>C	c.(1645-1647)GCA>CCA	p.A549P	FAM190A_uc010ikv.2_RNA|FAM190A_uc003hsw.2_Missense_Mutation_p.A549P	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1	549										large_intestine(1)|ovary(1)	2						CTCATGTGCCGCAGTAGTTCT	0.373													17	44	---	---	---	---	PASS	C	91389426	C	C	91389426	3	2	151	1	0	0	0	0	1	0	0	0	5521	1087	38	4	1659	4	FAM190A	4	91389426	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	9293395	91389426	99764850	128	53696										
MAP9	79884	broad.mit.edu	37	chr4	156294374	156294374	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	attcctcatccttattttgaGattcagagaaagattttaca	5	7	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:156294374G>T	uc003ios.2	-	4	659	c.395C>A	c.(394-396)TCT>TAT	p.S132Y	MAP9_uc011cin.1_Missense_Mutation_p.S132Y|MAP9_uc010iqa.1_RNA|MAP9_uc003iot.1_Missense_Mutation_p.S132Y|MAP9_uc010iqb.1_Missense_Mutation_p.S60Y	NM_001039580	NP_001034669	Q49MG5	MAP9_HUMAN	aster-associated protein	132					cell division|mitosis	cytoplasm|microtubule|spindle				ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.143)		CTTATTTTGAGATTCAGAGAA	0.343													4	214	---	---	---	---	PASS	T	156294374	T	T	156294374	3	4	151	1	0	0	0	0	1	0	0	0	9270	942	33	2	1592	2	MAP9	4	156294374	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	64904948	156294374	34859902	129	53697										
GLRA3	8001	broad.mit.edu	37	chr4	175565062	175565062	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggtatcaatcttcttggcccGgtcgataaagaccttcctca	8	12	4	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:175565062G>C	uc003ity.1	-	10	1773	c.1270C>G	c.(1270-1272)CGG>GGG	p.R424G	GLRA3_uc003itz.1_Missense_Mutation_p.R409G	NM_006529	NP_006520	O75311	GLRA3_HUMAN	glycine receptor, alpha 3 isoform a	424	Cytoplasmic (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(3)	3		Prostate(90;0.00601)|Breast(14;0.0091)|Melanoma(52;0.00959)|Renal(120;0.0183)|all_neural(102;0.0891)|all_hematologic(60;0.107)		all cancers(43;4.99e-18)|Epithelial(43;1.18e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.88e-09)|STAD - Stomach adenocarcinoma(60;0.00442)|GBM - Glioblastoma multiforme(59;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0421)	Glycine(DB00145)	TTCTTGGCCCGGTCGATAAAG	0.428													125	37	---	---	---	---	PASS	C	175565062	C	C	175565062	3	2	151	1	0	0	0	0	1	0	0	0	6456	1115	39	4	128	4	GLRA3	4	175565062	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	19270688	175565062	15589214	130	53698										
ASB5	140458	broad.mit.edu	37	chr4	177138037	177138037	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	catctataggtcgcagaagcTctgtatttttggcattgata	9	7	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:177138037T>A	uc003iuq.1	-	6	810	c.794A>T	c.(793-795)GAG>GTG	p.E265V	ASB5_uc003iup.1_Missense_Mutation_p.E212V	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	265					intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		TCGCAGAAGCTCTGTATTTTT	0.378													159	49	---	---	---	---	PASS	A	177138037	A	A	177138037	3	1	151	1	0	0	0	0	1	0	0	0	1026	1551	54	5	203	5	ASB5	4	177138037	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	1572975	177138037	14016239	131	53699										
CCDC111	201973	broad.mit.edu	37	chr4	185578371	185578371	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgagaggaaaccgttgtcctCagtgtatagaccaagattgt	11	7	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:185578371C>T	uc003iwk.2	+	3	510	c.77C>T	c.(76-78)TCA>TTA	p.S26L	CCDC111_uc010isd.1_RNA|CCDC111_uc003iwj.2_Missense_Mutation_p.S26L|CCDC111_uc003iwl.2_Missense_Mutation_p.S26L|CCDC111_uc003iwm.2_Intron|CCDC111_uc003iwn.2_5'UTR	NM_152683	NP_689896	Q96LW4	CC111_HUMAN	coiled-coil domain containing 111	26					DNA replication, synthesis of RNA primer		DNA primase activity			central_nervous_system(1)	1		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.00531)|Hepatocellular(41;0.00932)|Renal(120;0.0246)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|all_neural(102;0.131)		all cancers(43;5.84e-27)|Epithelial(43;2.2e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.28e-11)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.03e-05)|Colorectal(24;7.57e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000249)|COAD - Colon adenocarcinoma(29;0.000502)|LUSC - Lung squamous cell carcinoma(40;0.00995)|READ - Rectum adenocarcinoma(43;0.173)		CCGTTGTCCTCAGTGTATAGA	0.393													93	31	---	---	---	---	PASS	T	185578371	T	T	185578371	3	4	151	1	0	0	0	0	1	0	0	0	2748	838	29	2	79	2	CCDC111	4	185578371	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	8440334	185578371	5575905	132	53700										
FAM149A	25854	broad.mit.edu	37	chr4	187074888	187074888	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctccgcagtccacagaccccCgctcagtgcctgcggacaca	9	19	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr4:187074888C>A	uc003iyt.3	+	5	755	c.176C>A	c.(175-177)CCG>CAG	p.P59Q	FAM149A_uc011cla.1_Missense_Mutation_p.P59Q|FAM149A_uc010isj.2_Missense_Mutation_p.P59Q|FAM149A_uc010isk.2_RNA|FAM149A_uc003iyu.3_Missense_Mutation_p.P59Q|FAM149A_uc010isl.2_Missense_Mutation_p.P59Q|FAM149A_uc011clb.1_Missense_Mutation_p.P59Q	NM_015398	NP_056213	A5PLN7	F149A_HUMAN	hypothetical protein LOC25854	350										breast(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.19e-10)|BRCA - Breast invasive adenocarcinoma(30;1.22e-05)|GBM - Glioblastoma multiforme(59;0.000122)|STAD - Stomach adenocarcinoma(60;0.000288)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.166)		CACAGACCCCCGCTCAGTGCC	0.493													136	61	---	---	---	---	PASS	A	187074888	A	A	187074888	3	1	151	1	0	0	0	0	1	0	0	0	5455	652	23	1	182	1	FAM149A	4	187074888	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1496517	187074888	4079388	133	53701										
PLEKHG4B	153478	broad.mit.edu	37	chr5	171336	171336	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccggcccttgcaggacaagcAgcgggagctaggtgacaaaa	14	11	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:171336A>G	uc003jak.2	+	14	2809	c.2759A>G	c.(2758-2760)CAG>CGG	p.Q920R		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	920	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		CAGGACAAGCAGCGGGAGCTA	0.677													14	31	---	---	---	---	PASS	G	171336	G	G	171336	3	3	151	1	0	0	0	0	1	0	0	0	12072	188	7	5	2813	5	PLEKHG4B	5	171336	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08		171336	180743924	134	53702										
FASTKD3	79072	broad.mit.edu	37	chr5	7867395	7867395	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttggtgttcatccactttttCagtacatgcctgcaagattc	7	10	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:7867395C>T	uc003jeb.2	-	2	939	c.802G>A	c.(802-804)GAA>AAA	p.E268K	FASTKD3_uc011cmp.1_5'UTR|FASTKD3_uc003jec.2_Intron|MTRR_uc010itn.1_5'Flank|MTRR_uc003jee.3_5'Flank|MTRR_uc003jed.2_5'Flank|MTRR_uc003jef.3_5'Flank|MTRR_uc003jeg.3_5'Flank|MTRR_uc010ito.2_5'Flank	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	268					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						TCCACTTTTTCAGTACATGCC	0.353													44	306	---	---	---	---	PASS	T	7867395	T	T	7867395	3	4	151	1	0	0	0	0	1	0	0	0	5687	835	29	2	1210	2	FASTKD3	5	7867395	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	7696059	7867395	173047865	135	53703										
DNAJC21	134218	broad.mit.edu	37	chr5	34941281	34941281	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtgacaaatcgttcaagacaGaaaaggcgtaagtttattaa	9	5	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:34941281G>C	uc003jjc.2	+	7	1203	c.976G>C	c.(976-978)GAA>CAA	p.E326Q	DNAJC21_uc003jjb.2_Missense_Mutation_p.E326Q|DNAJC21_uc010iuu.1_Missense_Mutation_p.E210Q	NM_001012339	NP_001012339	Q5F1R6	DJC21_HUMAN	DnaJ homology subfamily A member 5 isoform 2	326	Glu-rich.|C2H2-type 1.				protein folding	ribosome	heat shock protein binding|nucleic acid binding|unfolded protein binding|zinc ion binding			breast(1)|skin(1)	2	all_lung(31;7.08e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)			GTTCAAGACAGAAAAGGCGTA	0.274													69	131	---	---	---	---	PASS	C	34941281	C	C	34941281	3	2	151	1	0	0	0	0	1	0	0	0	4640	943	33	2	1002	2	DNAJC21	5	34941281	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	27073886	34941281	145973979	136	53704										
HEATR7B2	133558	broad.mit.edu	37	chr5	41010115	41010115	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gatggcttctagaatgaactGaaaactttcttctttttgtc	7	7	3	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:41010115G>A	uc003jmj.3	-	31	3692	c.3202C>T	c.(3202-3204)CAG>TAG	p.Q1068*	HEATR7B2_uc003jmi.3_Nonsense_Mutation_p.Q623*	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1068							binding			ovary(6)|central_nervous_system(2)	8						AGAATGAACTGAAAACTTTCT	0.403													25	189	---	---	---	---	PASS	A	41010115	A	A	41010115	4	1	151	1	0	0	0	0	0	1	0	0	7035	1299	45	2	1603	2	HEATR7B2	5	41010115	Nonsense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	6068834	41010115	139905145	137	53705										
HEATR7B2	133558	broad.mit.edu	37	chr5	41061737	41061737	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaacagcatgaagatcttgtCagacagtcggttggcatcca	11	9	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:41061737C>T	uc003jmj.3	-	6	1040	c.550G>A	c.(550-552)GAC>AAC	p.D184N		NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	184							binding			ovary(6)|central_nervous_system(2)	8						AAGATCTTGTCAGACAGTCGG	0.488													176	218	---	---	---	---	PASS	T	41061737	T	T	41061737	3	4	151	1	0	0	0	0	1	0	0	0	7035	826	29	2	4355	2	HEATR7B2	5	41061737	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	51622	41061737	139853523	138	53706										
ADAMTS6	11174	broad.mit.edu	37	chr5	64468801	64468801	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgctcttgcacagaacaatcCgatgcttgaatcctggacca	8	12	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:64468801C>T	uc003jtp.2	-	23	3759	c.2945G>A	c.(2944-2946)CGG>CAG	p.R982Q	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	982	TSP type-1 4.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		CAGAACAATCCGATGCTTGAA	0.438													95	44	---	---	---	---	PASS	T	64468801	T	T	64468801	3	4	151	1	0	0	0	0	1	0	0	0	270	652	23	1	420	1	ADAMTS6	5	64468801	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	23407064	64468801	116446459	139	53707										
BHMT	635	broad.mit.edu	37	chr5	78423587	78423587	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acttattacaggactggaacCcagagttgccaccagatggg	11	10	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:78423587C>T	uc003kfu.3	+	7	923	c.818C>T	c.(817-819)CCC>CTC	p.P273L	BHMT_uc011cti.1_Missense_Mutation_p.P120L	NM_001713	NP_001704	Q93088	BHMT1_HUMAN	betaine-homocysteine methyltransferase	273	Hcy-binding.				protein methylation|regulation of homocysteine metabolic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)	GGACTGGAACCCAGAGTTGCC	0.418													50	14	---	---	---	---	PASS	T	78423587	T	T	78423587	3	4	151	1	0	0	0	0	1	0	0	0	1425	623	22	3	844	3	BHMT	5	78423587	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	13954786	78423587	102491673	140	53708										
RASGRF2	5924	broad.mit.edu	37	chr5	80381625	80381625	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctctgtttgcatctagatccCcagatatatcatcacactcc	4	14	4	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:80381625C>A	uc003kha.1	+	8	1166	c.1166C>A	c.(1165-1167)CCC>CAC	p.P389H	RASGRF2_uc011ctn.1_RNA|RASGRF2_uc003khb.1_Missense_Mutation_p.P217H	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	389	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		ATCTAGATCCCCAGATATATC	0.498													74	34	---	---	---	---	PASS	A	80381625	A	A	80381625	3	1	151	1	0	0	0	0	1	0	0	0	13073	623	22	3	1196	3	RASGRF2	5	80381625	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1958038	80381625	100533635	141	53709										
DMXL1	1657	broad.mit.edu	37	chr5	118485540	118485540	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcatggatcttggtaaagttCggagagccaaggccatcttg	12	8	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:118485540C>A	uc003ksd.2	+	18	4199	c.4018C>A	c.(4018-4020)CGG>AGG	p.R1340R	DMXL1_uc010jcl.1_Silent_p.R1340R	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1340										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		TGGTAAAGTTCGGAGAGCCAA	0.473													4	116	---	---	---	---	PASS	A	118485540	A	A	118485540	2	1	151	1	0	0	0	0	0	0	0	1	4594	875	31	2		2	DMXL1	5	118485540	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	38103915	118485540	62429720	142	53710										
ZNF608	57507	broad.mit.edu	37	chr5	123983395	123983395	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcgctccctatggaagggctGggagcgttgtctgtgaaagt	16	8	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:123983395G>A	uc003ktq.1	-	4	2805	c.2682C>T	c.(2680-2682)CCC>CCT	p.P894P	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Silent_p.P894P|ZNF608_uc003ktt.1_Silent_p.P894P	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	894						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		TGGAAGGGCTGGGAGCGTTGT	0.567													73	28	---	---	---	---	PASS	A	123983395	A	A	123983395	2	1	151	1	0	0	0	0	0	0	0	1	18031	1335	47	3		3	ZNF608	5	123983395	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	5497855	123983395	56931865	143	53711										
NRG2	9542	broad.mit.edu	37	chr5	139231387	139231387	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cagaagtcaggctctcagaaCgttccaggctccacgtgtgg	12	12	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:139231387C>A	uc003lex.1	-	9	1799	c.1574G>T	c.(1573-1575)CGT>CTT	p.R525L	NRG2_uc003lev.1_Missense_Mutation_p.R533L|NRG2_uc003lew.1_Missense_Mutation_p.R527L|NRG2_uc003ley.1_Missense_Mutation_p.R519L	NM_004883	NP_004874	O14511	NRG2_HUMAN	neuregulin 2 isoform 1	525	Cytoplasmic (Potential).				embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTCTCAGAACGTTCCAGGCT	0.622													36	6	---	---	---	---	PASS	A	139231387	A	A	139231387	3	1	151	1	0	0	0	0	1	0	0	0	10648	536	19	1	986	1	NRG2	5	139231387	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	15247992	139231387	41683873	144	53712										
PCDHB5	26167	broad.mit.edu	37	chr5	140516585	140516585	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcgctggactacgaggccctGcaggcgttcgagttccgcgt	14	13	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:140516585G>A	uc003liq.2	+	1	1786	c.1569G>A	c.(1567-1569)CTG>CTA	p.L523L		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	523	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACGAGGCCCTGCAGGCGTTCG	0.692													52	20	---	---	---	---	PASS	A	140516585	A	A	140516585	2	1	151	1	0	0	0	0	0	0	0	1	11545	1306	46	3		3	PCDHB5	5	140516585	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	1285198	140516585	40398675	145	53713										
PCDHB6	56130	broad.mit.edu	37	chr5	140530216	140530216	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttgcgagtcagagatataaaTgaccacgccccggaattccc	9	12	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:140530216T>A	uc003lir.2	+	1	378	c.378T>A	c.(376-378)AAT>AAA	p.N126K	PCDHB6_uc011dah.1_5'UTR	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	126	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGATATAAATGACCACGCCC	0.453													42	142	---	---	---	---	PASS	A	140530216	A	A	140530216	3	1	151	1	0	0	0	0	1	0	0	0	11546	1461	51	5	380	5	PCDHB6	5	140530216	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	13631	140530216	40385044	146	53714										
PCDHGA12	26025	broad.mit.edu	37	chr5	140811280	140811280	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcaggattctaccagatggaAgtgcaagcaatggataatgc	11	7	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr5:140811280A>T	uc003lkt.1	+	1	1123	c.954A>T	c.(952-954)GAA>GAT	p.E318D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.E318D	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	318	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCAGATGGAAGTGCAAGCAA	0.488													150	46	---	---	---	---	PASS	T	140811280	T	T	140811280	3	4	151	1	0	0	0	0	1	0	0	0	11553	69	3	5	956	5	PCDHGA12	5	140811280	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	281064	140811280	40103980	147	53715										
FARS2	10667	broad.mit.edu	37	chr6	5613522	5613522	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaggagacctggtggaaaagGttgatctcatagacaagttt	13	5	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:5613522G>T	uc010jnv.1	+	6	1522	c.1186G>T	c.(1186-1188)GTT>TTT	p.V396F	FARS2_uc003mwr.2_Missense_Mutation_p.V396F	NM_006567	NP_006558	O95363	SYFM_HUMAN	phenylalanyl-tRNA synthetase 2 precursor	396	FDX-ACB.				phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)	GGTGGAAAAGGTTGATCTCAT	0.378													105	134	---	---	---	---	PASS	T	5613522	T	T	5613522	3	4	151	1	0	0	0	0	1	0	0	0	5678	1261	44	3	1204	3	FARS2	6	5613522	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08		5613522	165501545	148	53716										
LY86	9450	broad.mit.edu	37	chr6	6654803	6654803	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	taccaggttttgctggaactGtacactgaaaaacggtccac	9	10	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:6654803G>A	uc003mwy.1	+	5	466	c.432G>A	c.(430-432)CTG>CTA	p.L144L	LY86_uc003mwz.1_RNA	NM_004271	NP_004262	O95711	LY86_HUMAN	MD-1, RP105-associated precursor	144					apoptosis|cell proliferation|humoral immune response|inflammatory response|innate immune response	extracellular space|plasma membrane					0	Ovarian(93;0.0377)					TGCTGGAACTGTACACTGAAA	0.453													28	61	---	---	---	---	PASS	A	6654803	A	A	6654803	2	1	151	1	0	0	0	0	0	0	0	1	9100	1364	48	3		3	LY86	6	6654803	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	1041281	6654803	164460264	149	53717										
RREB1	6239	broad.mit.edu	37	chr6	7231394	7231394	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggcggtcccaatctactcctCagccctggtcagcagccctc	9	18	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:7231394C>T	uc003mxc.2	+	10	3452	c.3062C>T	c.(3061-3063)TCA>TTA	p.S1021L	RREB1_uc003mxb.2_Missense_Mutation_p.S1021L|RREB1_uc010jnx.2_Missense_Mutation_p.S1021L	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1021	Pro-rich.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				ATCTACTCCTCAGCCCTGGTC	0.687													23	60	---	---	---	---	PASS	T	7231394	T	T	7231394	3	4	151	1	0	0	0	0	1	0	0	0	13679	838	29	2	3088	2	RREB1	6	7231394	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	576591	7231394	163883673	150	53718										
CDKAL1	54901	broad.mit.edu	37	chr6	20548873	20548873	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tacgaacatggggttgttctCataataattcagatggagaa	10	5	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:20548873C>T	uc003ndc.1	+	4	397	c.223C>T	c.(223-225)CAT>TAT	p.H75Y	CDKAL1_uc003ndd.1_Missense_Mutation_p.H75Y|CDKAL1_uc003nde.1_Intron|CDKAL1_uc010jpo.1_Missense_Mutation_p.H75Y|CDKAL1_uc003ndb.1_Missense_Mutation_p.H75Y	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	75	MTTase N-terminal.				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)			GGGTTGTTCTCATAATAATTC	0.289													37	159	---	---	---	---	PASS	T	20548873	T	T	20548873	3	4	151	1	0	0	0	0	1	0	0	0	3152	826	29	2	229	2	CDKAL1	6	20548873	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	13317479	20548873	150566194	151	53719										
CDKAL1	54901	broad.mit.edu	37	chr6	20758859	20758859	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atcgtgtggtagaagttgtgGaggagacaattaaaggtaat	14	2	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:20758859G>A	uc003ndc.1	+	7	676	c.502G>A	c.(502-504)GAG>AAG	p.E168K	CDKAL1_uc003ndd.1_Missense_Mutation_p.E168K|CDKAL1_uc003nde.1_Missense_Mutation_p.E98K	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	168	MTTase N-terminal.				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)			AGAAGTTGTGGAGGAGACAAT	0.343													48	78	---	---	---	---	PASS	A	20758859	A	A	20758859	3	1	151	1	0	0	0	0	1	0	0	0	3152	1175	41	2	520	2	CDKAL1	6	20758859	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	209986	20758859	150356208	152	53720										
SLC17A4	10050	broad.mit.edu	37	chr6	25771236	25771236	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tggccttacgtcttctatatCtttggtgagtgtgcttttca	9	8	4	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:25771236C>A	uc003nfe.2	+	6	821	c.702C>A	c.(700-702)ATC>ATA	p.I234I	SLC17A4_uc011djx.1_Intron|SLC17A4_uc003nff.1_Intron|SLC17A4_uc003nfg.2_Silent_p.I171I|SLC17A4_uc010jqa.2_5'Flank	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),	234	Helical; (Potential).				phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						TCTTCTATATCTTTGGTGAGT	0.413													132	206	---	---	---	---	PASS	A	25771236	A	A	25771236	2	1	151	1	0	0	0	0	0	0	0	1	14419	903	32	2		2	SLC17A4	6	25771236	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	5012377	25771236	145343831	153	53721										
HIST1H4E	8367	broad.mit.edu	37	chr6	26205150	26205150	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgtggtctacgcgctgaagaGacagggacgcactctttacg	13	10	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:26205150G>C	uc003ngy.2	+	1	278	c.278G>C	c.(277-279)AGA>ACA	p.R93T		NM_003545	NP_003536	P62805	H4_HUMAN	histone cluster 1, H4e	93					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1		all_hematologic(11;0.196)				GCGCTGAAGAGACAGGGACGC	0.537													40	47	---	---	---	---	PASS	C	26205150	C	C	26205150	3	2	151	1	0	0	0	0	1	0	0	0	7169	942	33	2	280	2	HIST1H4E	6	26205150	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	433914	26205150	144909917	154	53722										
SCAND3	114821	broad.mit.edu	37	chr6	28543072	28543072	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcagtttgttctgcagaactCtggctttggcaggtctgaga	12	8	4	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:28543072C>T	uc003nlo.2	-	3	2028	c.1410G>A	c.(1408-1410)CAG>CAA	p.Q470Q		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	470	Integrase catalytic.				DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CTGCAGAACTCTGGCTTTGGC	0.423													105	128	---	---	---	---	PASS	T	28543072	T	T	28543072	2	4	151	1	0	0	0	0	0	0	0	1	13876	912	32	2		2	SCAND3	6	28543072	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	2337922	28543072	142571995	155	53723										
CCHCR1	54535	broad.mit.edu	37	chr6	31112995	31112995	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atgaggcgggcactcagctgCagttctgcatccaggcggtt	14	11	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:31112995C>T	uc003nsr.3	-	13	1680	c.1557G>A	c.(1555-1557)CTG>CTA	p.L519L	CCHCR1_uc011dne.1_Silent_p.L519L|CCHCR1_uc003nsq.3_Silent_p.L572L|CCHCR1_uc003nsp.3_Silent_p.L608L|CCHCR1_uc010jsk.1_Silent_p.L519L	NM_019052	NP_061925	Q8TD31	CCHCR_HUMAN	coiled-coil alpha-helical rod protein 1 isoform	519	Potential.				cell differentiation|multicellular organismal development	cytoplasm|nucleus	protein binding			skin(1)	1						CACTCAGCTGCAGTTCTGCAT	0.632													50	49	---	---	---	---	PASS	T	31112995	T	T	31112995	2	4	151	1	0	0	0	0	0	0	0	1	2877	697	25	3		3	CCHCR1	6	31112995	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	2569923	31112995	140002072	156	53724										
ABCC10	89845	broad.mit.edu	37	chr6	43403605	43403605	+	Silent	SNP	C	G	G													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaccggatccagcttttcctCgaccttccaaaccacaaccc					rs148989774	byFrequency	TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:43403605C>G	uc003ouy.1	+	5	1940	c.1725C>G	c.(1723-1725)CTC>CTG	p.L575L	ABCC10_uc003ouz.1_Silent_p.L532L|ABCC10_uc010jyo.1_5'UTR	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	575						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			AGCTTTTCCTCGACCTTCCAA	0.557													58	132	---	---	---	---	PASS	G	43403605	G	G	43403605	2	3	151	1	0	0	0	0	0	0	0	1	50	871	31	2		2	ABCC10	6	43403605	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	12290610	43403605	127711462	157	53725	977	2								
ABCC10	89845	broad.mit.edu	37	chr6	43403612	43403612	+	Missense_Mutation	SNP	C	T	T													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tccagcttttcctcgaccttCcaaaccacaacccccaggcc							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:43403612C>T	uc003ouy.1	+	5	1947	c.1732C>T	c.(1732-1734)CCA>TCA	p.P578S	ABCC10_uc003ouz.1_Missense_Mutation_p.P535S|ABCC10_uc010jyo.1_5'UTR	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	578						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CCTCGACCTTCCAAACCACAA	0.562													59	140	---	---	---	---	PASS	T	43403612	T	T	43403612	3	4	151	1	0	0	0	0	1	0	0	0	50	855	30	2	1613	2	ABCC10	6	43403612	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	7	43403612	127711455	158	53726	977	2								
XPO5	57510	broad.mit.edu	37	chr6	43538265	43538265	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctgatacttgtttacattttCttgaagtgtgttaagcagaa	8	5	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:43538265C>T	uc003ovp.2	-	5	806	c.595G>A	c.(595-597)GAA>AAA	p.E199K		NM_020750	NP_065801	Q9HAV4	XPO5_HUMAN	exportin 5	199					gene silencing by RNA	cytosol|nucleoplasm	protein binding|tRNA binding			skin(2)|breast(1)|kidney(1)	4	all_cancers(18;2.08e-05)|Lung NSC(15;0.000907)|all_lung(25;0.00243)		all cancers(41;0.000321)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0524)			TTTACATTTTCTTGAAGTGTG	0.373													304	421	---	---	---	---	PASS	T	43538265	T	T	43538265	3	4	151	1	0	0	0	0	1	0	0	0	17444	922	32	2	3131	2	XPO5	6	43538265	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	134653	43538265	127576802	159	53727										
TDRD6	221400	broad.mit.edu	37	chr6	46657768	46657768	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aattagtcatccatattcttGataaacaggatcatcaatat	4	7	4	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:46657768G>C	uc003oyj.2	+	1	1903	c.1903G>C	c.(1903-1905)GAT>CAT	p.D635H	TDRD6_uc010jze.2_Missense_Mutation_p.D629H	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	635					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			CCATATTCTTGATAAACAGGA	0.388													30	134	---	---	---	---	PASS	C	46657768	C	C	46657768	3	2	151	1	0	0	0	0	1	0	0	0	15731	1290	45	2	1905	2	TDRD6	6	46657768	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	3119503	46657768	124457299	160	53728										
C6orf138	442213	broad.mit.edu	37	chr6	47847084	47847084	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tggcataggaaacacttggcGaatcactggctagtagattg	12	7	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:47847084G>A	uc011dwm.1	-	3	1530	c.1445C>T	c.(1444-1446)TCG>TTG	p.S482L	C6orf138_uc011dwn.1_Missense_Mutation_p.S246L	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	499						integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						AACACTTGGCGAATCACTGGC	0.453													12	44	---	---	---	---	PASS	A	47847084	A	A	47847084	3	1	151	1	0	0	0	0	1	0	0	0	2332	1059	37	2	1048	2	C6orf138	6	47847084	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1189316	47847084	123267983	161	53729										
PKHD1	5314	broad.mit.edu	37	chr6	51890805	51890805	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgccagcccagacctccacgGcagctggaacagtgggagcg	14	14	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:51890805G>T	uc003pah.1	-	32	4079	c.3803C>A	c.(3802-3804)GCC>GAC	p.A1268D	PKHD1_uc003pai.2_Missense_Mutation_p.A1268D	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1268	Extracellular (Potential).|IPT/TIG 7.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GACCTCCACGGCAGCTGGAAC	0.597													64	63	---	---	---	---	PASS	T	51890805	T	T	51890805	3	4	151	1	0	0	0	0	1	0	0	0	11971	1203	42	3	8604	3	PKHD1	6	51890805	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	4043721	51890805	119224262	162	53730										
RIMS1	22999	broad.mit.edu	37	chr6	72960793	72960793	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aagaaagtgaatttcttggaGaggtgatgtatattttaaaa	10	1	1	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:72960793G>T	uc003pga.2	+	14	2619	c.2542G>T	c.(2542-2544)GAG>TAG	p.E848*	RIMS1_uc011dyb.1_Nonsense_Mutation_p.E474*|RIMS1_uc003pgc.2_Nonsense_Mutation_p.E474*|RIMS1_uc010kaq.2_Nonsense_Mutation_p.E322*|RIMS1_uc011dyc.1_Nonsense_Mutation_p.E322*|RIMS1_uc010kar.2_Nonsense_Mutation_p.E241*|RIMS1_uc011dyd.1_Nonsense_Mutation_p.E307*|RIMS1_uc003pgf.2_Nonsense_Mutation_p.E65*|RIMS1_uc003pgg.2_Nonsense_Mutation_p.E65*|RIMS1_uc003pgi.2_Nonsense_Mutation_p.E65*|RIMS1_uc003pgh.2_Nonsense_Mutation_p.E65*|RIMS1_uc003pgd.2_Nonsense_Mutation_p.E65*|RIMS1_uc003pge.2_Nonsense_Mutation_p.E65*|RIMS1_uc011dye.1_5'Flank|RIMS1_uc003pgb.3_Nonsense_Mutation_p.E474*|RIMS1_uc010kas.1_Nonsense_Mutation_p.E307*	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	848	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)				ATTTCTTGGAGAGGTGATGTA	0.294													11	12	---	---	---	---	PASS	T	72960793	T	T	72960793	4	4	151	1	0	0	0	0	0	1	0	0	13367	943	33	2	2759	2	RIMS1	6	72960793	Nonsense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	21069988	72960793	98154274	163	53731										
KCNQ5	56479	broad.mit.edu	37	chr6	73904271	73904271	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccctcgctttggcttcattcCagatcccaccttttgaatgt	6	14	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:73904271C>A	uc003pgk.2	+	14	2280	c.1933C>A	c.(1933-1935)CAG>AAG	p.Q645K	KCNQ5_uc011dyh.1_Missense_Mutation_p.Q664K|KCNQ5_uc011dyi.1_Missense_Mutation_p.Q655K|KCNQ5_uc010kat.2_Missense_Mutation_p.Q636K|KCNQ5_uc011dyj.1_Missense_Mutation_p.Q535K|KCNQ5_uc011dyk.1_Missense_Mutation_p.Q395K	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	645					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		GGCTTCATTCCAGATCCCACC	0.488													54	111	---	---	---	---	PASS	A	73904271	A	A	73904271	3	1	151	1	0	0	0	0	1	0	0	0	8086	595	21	3	2048	3	KCNQ5	6	73904271	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	943478	73904271	97210796	164	53732										
COL12A1	1303	broad.mit.edu	37	chr6	75893640	75893640	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctggatgtcattcccttcatGgcggaaacactgatctggta	10	10	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:75893640G>A	uc003phs.2	-	9	1384	c.1218C>T	c.(1216-1218)GCC>GCT	p.A406A	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_Silent_p.A64A	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	406	Fibronectin type-III 2.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTCCCTTCATGGCGGAAACAC	0.493													105	309	---	---	---	---	PASS	A	75893640	A	A	75893640	2	1	151	1	0	0	0	0	0	0	0	1	3669	1335	47	3		3	COL12A1	6	75893640	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	1989369	75893640	95221427	165	53733										
MDN1	23195	broad.mit.edu	37	chr6	90442303	90442303	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tattccatctatgtacaccaGgcatgcagcatggacaaaag	8	10	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:90442303G>C	uc003pnn.1	-	34	5031	c.4915C>G	c.(4915-4917)CTG>GTG	p.L1639V		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1639					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)		ATGTACACCAGGCATGCAGCA	0.507													53	153	---	---	---	---	PASS	C	90442303	C	C	90442303	3	2	151	1	0	0	0	0	1	0	0	0	9415	991	35	4	12151	4	MDN1	6	90442303	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	14548663	90442303	80672764	166	53734										
MCHR2	84539	broad.mit.edu	37	chr6	100390984	100390984	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcttgtaccttgttctccaaCgtgtcagtcgaaatggttgg	10	9	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:100390984C>T	uc003pqh.1	-	4	743	c.428G>A	c.(427-429)CGT>CAT	p.R143H	MCHR2_uc003pqi.1_Missense_Mutation_p.R143H	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	143	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		TGTTCTCCAACGTGTCAGTCG	0.478													101	115	---	---	---	---	PASS	T	100390984	T	T	100390984	3	4	151	1	0	0	0	0	1	0	0	0	9383	536	19	1	606	1	MCHR2	6	100390984	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	9948681	100390984	70724083	167	53735										
SIM1	6492	broad.mit.edu	37	chr6	100838429	100838429	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcatgcttgtcaaaatactgCcggtgagagccaaagcagtt	11	9	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:100838429C>T	uc003pqj.3	-	11	2316	c.2109G>A	c.(2107-2109)CGG>CGA	p.R703R	SIM1_uc010kcu.2_Silent_p.R703R	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	703	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		CAAAATACTGCCGGTGAGAGC	0.448													4	214	---	---	---	---	PASS	T	100838429	T	T	100838429	2	4	151	1	0	0	0	0	0	0	0	1	14323	726	26	3		3	SIM1	6	100838429	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	447445	100838429	70276638	168	53736										
GPR6	2830	broad.mit.edu	37	chr6	110301089	110301089	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtctggcgccacgcgcaccaGatcgcgctgcagcagcactg	13	16	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:110301089G>A	uc011eaw.1	+	2	954	c.774G>A	c.(772-774)CAG>CAA	p.Q258Q	GPR6_uc011eav.1_Silent_p.Q273Q|GPR6_uc003ptu.2_Silent_p.Q258Q	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	258	Cytoplasmic (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		ACGCGCACCAGATCGCGCTGC	0.657													14	43	---	---	---	---	PASS	A	110301089	A	A	110301089	2	1	151	1	0	0	0	0	0	0	0	1	6701	933	33	2		2	GPR6	6	110301089	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	9462660	110301089	60813978	169	53737										
RNF146	81847	broad.mit.edu	37	chr6	127608136	127608136	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cgcactagtagagagctggaAgatgctttttccaaaggtaa	11	7	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:127608136A>G	uc003qav.2	+	3	537	c.378A>G	c.(376-378)GAA>GAG	p.E126E	RNF146_uc003qat.2_Silent_p.E125E|RNF146_uc003qau.2_Silent_p.E125E|RNF146_uc003qaw.2_Silent_p.E125E	NM_030963	NP_112225	Q9NTX7	RN146_HUMAN	ring finger protein 146	126	WWE.				positive regulation of canonical Wnt receptor signaling pathway|protein autoubiquitination|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol	poly-ADP-D-ribose binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1				GBM - Glioblastoma multiforme(226;0.0407)|all cancers(137;0.2)		GAGAGCTGGAAGATGCTTTTT	0.403													35	113	---	---	---	---	PASS	G	127608136	G	G	127608136	2	3	151	1	0	0	0	0	0	0	0	1	13448	69	3	5		5	RNF146	6	127608136	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08	17307047	127608136	43506931	170	53738										
LAMA2	3908	broad.mit.edu	37	chr6	129612773	129612773	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttgcagcctgtcgctgtaatGccggtggctctttctctgag	12	11	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:129612773G>T	uc003qbn.2	+	20	2869	c.2764G>T	c.(2764-2766)GCC>TCC	p.A922S	LAMA2_uc003qbo.2_Missense_Mutation_p.A922S	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	922	Laminin EGF-like 9.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TCGCTGTAATGCCGGTGGCTC	0.448													20	73	---	---	---	---	PASS	T	129612773	T	T	129612773	3	4	151	1	0	0	0	0	1	0	0	0	8606	1319	46	3	2842	3	LAMA2	6	129612773	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	2004637	129612773	41502294	171	53739										
BCLAF1	9774	broad.mit.edu	37	chr6	136600997	136600997	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aatgtgatctagaattggagCgacccatttcttttctccta	7	9	3	2	rs148729378	byFrequency	TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:136600997C>T	uc003qgx.1	-	3	261	c.8G>A	c.(7-9)CGC>CAC	p.R3H	BCLAF1_uc003qgw.1_Missense_Mutation_p.R3H|BCLAF1_uc003qgy.1_Missense_Mutation_p.R3H|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.R3H	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	3					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		AGAATTGGAGCGACCCATTTC	0.308													57	78	---	---	---	---	PASS	T	136600997	T	T	136600997	3	4	151	1	0	0	0	0	1	0	0	0	1383	768	27	1	2798	1	BCLAF1	6	136600997	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	6988224	136600997	34514070	172	53740										
PLG	5340	broad.mit.edu	37	chr6	161132158	161132158	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggaaagaactacagagggacGatgtccaaaacaaaaaatgg	11	6	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:161132158G>T	uc003qtm.3	+	4	405	c.342G>T	c.(340-342)ACG>ACT	p.T114T		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	114	Kringle 1.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	ACAGAGGGACGATGTCCAAAA	0.443													49	48	---	---	---	---	PASS	T	161132158	T	T	161132158	2	4	151	1	0	0	0	0	0	0	0	1	12086	1045	37	2		2	PLG	6	161132158	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	24531161	161132158	9982909	173	53741										
PHF10	55274	broad.mit.edu	37	chr6	170105257	170105257	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atagcaccaaggcccacacaAaaagtatgataacctctgtc	6	12	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr6:170105257A>G	uc011egy.1	-	11	1462	c.1383T>C	c.(1381-1383)TTT>TTC	p.F461F	C6orf120_uc003qxb.2_3'UTR|PHF10_uc011egz.1_Silent_p.F459F	NM_018288	NP_060758	Q8WUB8	PHF10_HUMAN	PHD finger protein 10 isoform a	461	PHD-type 2; degenerate.				nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	npBAF complex	zinc ion binding			urinary_tract(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.4e-21)|BRCA - Breast invasive adenocarcinoma(81;1.4e-07)|GBM - Glioblastoma multiforme(31;0.00176)		GGCCCACACAAAAAGTATGAT	0.403													29	116	---	---	---	---	PASS	G	170105257	G	G	170105257	2	3	151	1	0	0	0	0	0	0	0	1	11821	11	1	5		5	PHF10	6	170105257	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08	8973099	170105257	1009810	174	53742										
RADIL	55698	broad.mit.edu	37	chr7	4841590	4841590	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agccagggggcagctcggggCctccaggtgcccgtcaagga	17	13	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:4841590C>A	uc003snj.1	-	12	2709	c.2536G>T	c.(2536-2538)GCC>TCC	p.A846S	RADIL_uc003sng.1_RNA|RADIL_uc003sni.1_Missense_Mutation_p.A351S|RADIL_uc011jwc.1_Missense_Mutation_p.A606S|RADIL_uc011jwd.1_RNA|RADIL_uc003snh.1_Missense_Mutation_p.A142S	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	846					cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		CAGCTCGGGGCCTCCAGGTGC	0.687													3	3	---	---	---	---	PASS	A	4841590	A	A	4841590	3	1	151	1	0	0	0	0	1	0	0	0	12997	739	26	3	707	3	RADIL	7	4841590	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08		4841590	154297073	175	53743										
THSD7A	221981	broad.mit.edu	37	chr7	11416260	11416260	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atgccccagctgctacaccgTaaacccaggtctttagtctc	7	15	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:11416260T>C	uc003ssf.3	-	26	5078	c.4826A>G	c.(4825-4827)TAC>TGC	p.Y1609C	uc003ssb.2_Intron|THSD7A_uc003ssd.3_Missense_Mutation_p.Y113C	NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1609	Helical; (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TGCTACACCGTAAACCCAGGT	0.348										HNSCC(18;0.044)			5	7	---	---	---	---	PASS	C	11416260	C	C	11416260	3	2	151	1	0	0	0	0	1	0	0	0	15876	1638	57	5	155	5	THSD7A	7	11416260	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	6574670	11416260	147722403	176	53744										
SCIN	85477	broad.mit.edu	37	chr7	12692275	12692275	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggacaccaattgtcatcataAaacagggccatgagccaccc	8	13	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:12692275A>T	uc003ssn.3	+	16	2293	c.2083A>T	c.(2083-2085)AAA>TAA	p.K695*	SCIN_uc010ktt.2_RNA|SCIN_uc003sso.3_Nonsense_Mutation_p.K448*	NM_001112706	NP_001106177	Q9Y6U3	ADSV_HUMAN	scinderin isoform 1	695	Ca(2+)-dependent actin binding.				actin filament capping|actin filament severing|actin nucleation|calcium ion-dependent exocytosis|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of megakaryocyte differentiation|positive regulation of secretion|regulation of chondrocyte differentiation	cell cortex|cytoskeleton	1-phosphatidylinositol binding|actin filament binding|calcium ion binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		TGTCATCATAAAACAGGGCCA	0.403													50	82	---	---	---	---	PASS	T	12692275	T	T	12692275	4	4	151	1	0	0	0	0	0	1	0	0	13905	15	1	5	2145	5	SCIN	7	12692275	Nonsense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	1276015	12692275	146446388	177	53745										
DNAH11	8701	broad.mit.edu	37	chr7	21847576	21847576	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctgtggagatgttcttctcaCggcggcatttgtgtcttacg	12	9	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:21847576C>T	uc003svc.2	+	64	10293	c.10262C>T	c.(10261-10263)ACG>ATG	p.T3421M		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3421					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GTTCTTCTCACGGCGGCATTT	0.478									Kartagener_syndrome				10	16	---	---	---	---	PASS	T	21847576	T	T	21847576	3	4	151	1	0	0	0	0	1	0	0	0	4599	536	19	1	10513	1	DNAH11	7	21847576	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	9155301	21847576	137291087	178	53746										
NUPL2	11097	broad.mit.edu	37	chr7	23224737	23224737	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tagccagagatattccaatgTcatccagccatccagtttct	6	12	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:23224737T>G	uc003svu.2	+	2	429	c.170T>G	c.(169-171)GTC>GGC	p.V57G	NUPL2_uc003svv.2_RNA|NUPL2_uc003svw.2_Intron|NUPL2_uc011jyw.1_RNA|NUPL2_uc003svx.2_5'UTR	NM_007342	NP_031368	O15504	NUPL2_HUMAN	nucleoporin like 2	57					carbohydrate metabolic process|glucose transport|mRNA transport|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nuclear pore	nuclear export signal receptor activity|nucleic acid binding|zinc ion binding			skin(2)|ovary(1)	3						TATTCCAATGTCATCCAGCCA	0.353													40	70	---	---	---	---	PASS	G	23224737	G	G	23224737	3	3	151	1	0	0	0	0	1	0	0	0	10775	1667	58	5	176	5	NUPL2	7	23224737	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	1377161	23224737	135913926	179	53747										
DFNA5	1687	broad.mit.edu	37	chr7	24749940	24749940	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tctcgaaagaccagggggtcCaggtagacagagtcaattct	12	9	3	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:24749940C>A	uc010kus.1	-	6	853	c.765G>T	c.(763-765)CTG>CTT	p.L255L	DFNA5_uc003swz.2_Silent_p.L91L|DFNA5_uc003sxa.1_Silent_p.L255L|DFNA5_uc010kut.1_Silent_p.L91L	NM_001127453	NP_001120925	O60443	DFNA5_HUMAN	deafness, autosomal dominant 5 protein isoform	255					sensory perception of sound					ovary(1)	1						CCAGGGGGTCCAGGTAGACAG	0.473													66	87	---	---	---	---	PASS	A	24749940	A	A	24749940	2	1	151	1	0	0	0	0	0	0	0	1	4454	581	21	3		3	DFNA5	7	24749940	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	1525203	24749940	134388723	180	53748										
ANLN	54443	broad.mit.edu	37	chr7	36450708	36450708	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atgtcttcgtggccgatttgAcaagggcaatatatggagtg	13	6	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:36450708A>G	uc003tff.2	+	7	1532	c.1328A>G	c.(1327-1329)GAC>GGC	p.D443G	ANLN_uc011kaz.1_Missense_Mutation_p.D355G|ANLN_uc003tfg.2_Missense_Mutation_p.D443G|ANLN_uc010kxe.2_Missense_Mutation_p.D443G	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	443	Interaction with F-actin.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						GGCCGATTTGACAAGGGCAAT	0.378													26	53	---	---	---	---	PASS	G	36450708	G	G	36450708	3	3	151	1	0	0	0	0	1	0	0	0	694	275	10	5	1354	5	ANLN	7	36450708	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	11700768	36450708	122687955	181	53749										
INHBA	3624	broad.mit.edu	37	chr7	41729530	41729530	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atgatccagtcattccagccGatgtccttgaaactgacaaa	7	11	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:41729530G>A	uc003thq.2	-	2	1234	c.999C>T	c.(997-999)ATC>ATT	p.I333I	INHBA_uc003thr.2_Silent_p.I333I	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	333					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						CATTCCAGCCGATGTCCTTGA	0.557										TSP Lung(11;0.080)			47	84	---	---	---	---	PASS	A	41729530	A	A	41729530	2	1	151	1	0	0	0	0	0	0	0	1	7741	1048	37	2		2	INHBA	7	41729530	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	5278822	41729530	117409133	182	53750										
URGCP	55665	broad.mit.edu	37	chr7	43917524	43917524	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggtccacggcccactggagcTggcagaactccttctccact	10	16	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:43917524T>A	uc003tiw.2	-	6	1595	c.1538A>T	c.(1537-1539)CAG>CTG	p.Q513L	URGCP_uc003tiu.2_Missense_Mutation_p.Q470L|URGCP_uc003tiv.2_Missense_Mutation_p.Q438L|URGCP_uc003tix.2_Missense_Mutation_p.Q504L|URGCP_uc003tiy.2_Missense_Mutation_p.Q470L|URGCP_uc003tiz.2_Missense_Mutation_p.Q470L|URGCP_uc011kbj.1_Missense_Mutation_p.Q470L	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	513					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						CCACTGGAGCTGGCAGAACTC	0.612													37	61	---	---	---	---	PASS	A	43917524	A	A	43917524	3	1	151	1	0	0	0	0	1	0	0	0	17023	1580	55	5	1261	5	URGCP	7	43917524	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	2187994	43917524	115221139	183	53751										
FIGNL1	63979	broad.mit.edu	37	chr7	50514445	50514445	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	attctgaaggagtttcaaacGattgctctccgggaagtctt	10	8	4	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:50514445G>T	uc003tpc.2	-	4	918	c.541C>A	c.(541-543)CGT>AGT	p.R181S	FIGNL1_uc003tpb.2_Missense_Mutation_p.R70S|FIGNL1_uc003tpd.2_Missense_Mutation_p.R181S|FIGNL1_uc003tpe.2_Missense_Mutation_p.R181S|FIGNL1_uc010kyy.2_Missense_Mutation_p.R181S	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	181					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)				AGTTTCAAACGATTGCTCTCC	0.468													70	158	---	---	---	---	PASS	T	50514445	T	T	50514445	3	4	151	1	0	0	0	0	1	0	0	0	5892	1058	37	2	1487	2	FIGNL1	7	50514445	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	6596921	50514445	108624218	184	53752										
ZNF804B	219578	broad.mit.edu	37	chr7	88965897	88965897	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccgtacagacagttccagttCaccagcacacttctatcacc	5	16	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:88965897C>T	uc011khi.1	+	4	4139	c.3601C>T	c.(3601-3603)CAC>TAC	p.H1201Y		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1201						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AGTTCCAGTTCACCAGCACAC	0.502										HNSCC(36;0.09)			52	211	---	---	---	---	PASS	T	88965897	T	T	88965897	3	4	151	1	0	0	0	0	1	0	0	0	18168	826	29	2	3615	2	ZNF804B	7	88965897	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	38451452	88965897	70172766	185	53753										
ZNF804B	219578	broad.mit.edu	37	chr7	88966053	88966053	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tttcattttcgactctgactCcaaccattatccctgcacac	3	15	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:88966053C>G	uc011khi.1	+	4	4295	c.3757C>G	c.(3757-3759)CCA>GCA	p.P1253A		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1253						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GACTCTGACTCCAACCATTAT	0.468										HNSCC(36;0.09)			80	301	---	---	---	---	PASS	G	88966053	G	G	88966053	3	3	151	1	0	0	0	0	1	0	0	0	18168	855	30	2	3771	2	ZNF804B	7	88966053	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	156	88966053	70172610	186	53754										
GNGT1	2792	broad.mit.edu	37	chr7	93536070	93536070	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggcaaaaagatgccagtaatCaatattgaggacctgacaga	10	7	1	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:93536070C>T	uc003unc.1	+	2	160	c.12C>T	c.(10-12)ATC>ATT	p.I4I	GNGT1_uc003umx.1_RNA	NM_021955	NP_068774	P63211	GBG1_HUMAN	guanine nucleotide binding protein (G protein),	4					G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	GTPase activity|signal transducer activity				0	all_cancers(62;2.39e-10)|all_epithelial(64;1.54e-09)|Lung NSC(181;0.218)		STAD - Stomach adenocarcinoma(171;0.000967)			TGCCAGTAATCAATATTGAGG	0.408													39	155	---	---	---	---	PASS	T	93536070	T	T	93536070	2	4	151	1	0	0	0	0	0	0	0	1	6533	816	29	2		2	GNGT1	7	93536070	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	4570017	93536070	65602593	187	53755										
GPC2	221914	broad.mit.edu	37	chr7	99774750	99774750	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	actccgggtgacctttgcctCgctcccgggtccgggaccag	13	16	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:99774750C>A	uc003utv.2	-	1	241	c.73G>T	c.(73-75)GAG>TAG	p.E25*	GPC2_uc010lgr.2_RNA|GPC2_uc003utw.1_Nonsense_Mutation_p.E25*|STAG3_uc010lgs.1_5'Flank|STAG3_uc003utx.1_5'Flank|STAG3_uc011kjk.1_5'Flank	NM_152742	NP_689955	Q8N158	GPC2_HUMAN	glypican 2 precursor	25						anchored to membrane|endoplasmic reticulum|extracellular space|plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			breast(1)|pancreas(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					ACCTTTGCCTCGCTCCCGGGT	0.642													8	41	---	---	---	---	PASS	A	99774750	A	A	99774750	4	1	151	1	0	0	0	0	0	1	0	0	6598	893	31	2	1706	2	GPC2	7	99774750	Nonsense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	6238680	99774750	59363913	188	53756										
PILRA	29992	broad.mit.edu	37	chr7	99971996	99971996	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gccgagttgagctggacacaCggagctcagggaggcagcag	17	10	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:99971996C>T	uc003uuo.1	+	2	606	c.394C>T	c.(394-396)CGG>TGG	p.R132W	PILRA_uc011kjn.1_Missense_Mutation_p.R132W|PILRA_uc011kjo.1_Missense_Mutation_p.R132W|PILRA_uc003uup.1_Missense_Mutation_p.R132W|PILRA_uc003uuq.1_Missense_Mutation_p.R132W	NM_013439	NP_038467	Q9UKJ1	PILRA_HUMAN	paired immunoglobulin-like type 2 receptor alpha	132	Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms	extracellular region|integral to membrane|plasma membrane	protein binding|receptor activity			skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GCTGGACACACGGAGCTCAGG	0.602													8	267	---	---	---	---	PASS	T	99971996	T	T	99971996	3	4	151	1	0	0	0	0	1	0	0	0	11925	527	19	1	400	1	PILRA	7	99971996	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	197246	99971996	59166667	189	53757										
CUX1	1523	broad.mit.edu	37	chr7	101918593	101918593	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttccatcatctccagccagaGggagcgcttccgtgcccgga	11	15	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:101918593G>C	uc003uyt.2	+	17	1545	c.1526G>C	c.(1525-1527)AGG>ACG	p.R509T	CUX1_uc011kkn.1_Missense_Mutation_p.R470T|CUX1_uc003uyw.2_Missense_Mutation_p.R463T|CUX1_uc003uyv.2_Missense_Mutation_p.R493T|CUX1_uc003uyu.2_Missense_Mutation_p.R507T|CUX1_uc003uyz.2_RNA	NM_001913	NP_001904	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform b	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						TCCAGCCAGAGGGAGCGCTTC	0.617													51	102	---	---	---	---	PASS	C	101918593	C	C	101918593	3	2	151	1	0	0	0	0	1	0	0	0	4064	1000	35	4	4962	4	CUX1	7	101918593	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1946597	101918593	57220070	190	53758										
GRM8	2918	broad.mit.edu	37	chr7	126173012	126173012	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttccttctacttaccttttcTgctgactgggctgtaccaaa	6	12	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:126173012T>A	uc003vlr.2	-	8	2735	c.2424A>T	c.(2422-2424)GCA>GCT	p.A808A	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.A808A|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	808	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane		p.A808E(1)		lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TTACCTTTTCTGCTGACTGGG	0.368										HNSCC(24;0.065)			45	82	---	---	---	---	PASS	A	126173012	A	A	126173012	2	1	151	1	0	0	0	0	0	0	0	1	6803	1567	55	5		5	GRM8	7	126173012	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	24254419	126173012	32965651	191	53759										
GRM8	2918	broad.mit.edu	37	chr7	126173262	126173262	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctagtgtccgctgctctccaTagtcaatgatgatgtggggg	13	9	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:126173262T>C	uc003vlr.2	-	8	2485	c.2174A>G	c.(2173-2175)TAT>TGT	p.Y725C	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.Y725C|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	725	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	CTGCTCTCCATAGTCAATGAT	0.507										HNSCC(24;0.065)			33	45	---	---	---	---	PASS	C	126173262	C	C	126173262	3	2	151	1	0	0	0	0	1	0	0	0	6803	1406	49	5	614	5	GRM8	7	126173262	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	250	126173262	32965401	192	53760										
CCDC136	64753	broad.mit.edu	37	chr7	128446913	128446913	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcaaagagagcaatgagaagGtaaaagaagctcctggtgag	13	5	1	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:128446913G>T	uc003vnv.1	+	9	1786	c.1419_splice	c.e9+1	p.K473_splice	CCDC136_uc003vnu.1_Intron|CCDC136_uc003vnw.1_Splice_Site_p.K420_splice|CCDC136_uc003vnx.1_Splice_Site_p.K289_splice|CCDC136_uc010llq.1_Splice_Site|CCDC136_uc003vny.1_Splice_Site_p.K83_splice	NM_022742	NP_073579	Q96JN2	CC136_HUMAN	coiled-coil domain containing 136							integral to membrane	protein binding			ovary(2)	2						CAATGAGAAGGTAAAAGAAGC	0.572													11	26	---	---	---	---	PASS	T	128446913	T	T	128446913	5	4	151	1	0	0	0	0	0	0	1	0	2770	1275	44	3	1454	3	CCDC136	7	128446913	Splice_Site	SNP	G	TCGA-66-2766-01A-01D-1522-08	2273651	128446913	30691750	193	53761										
CPA4	51200	broad.mit.edu	37	chr7	129939246	129939246	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gacaattgaggacctgcaggTaggtagactatgcctcctgc	12	10	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:129939246T>C	uc003vpr.2	+	3	332	c.285_splice	c.e3+2	p.Q95_splice	CPA4_uc011kpd.1_Splice_Site_p.Q95_splice|CPA4_uc011kpe.1_Intron	NM_016352	NP_057436	Q9UI42	CBPA4_HUMAN	carboxypeptidase A4 preproprotein						histone acetylation|proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					GACCTGCAGGTAGGTAGACTA	0.512													43	64	---	---	---	---	PASS	C	129939246	C	C	129939246	5	2	151	1	0	0	0	0	0	0	1	0	3792	1652	57	5	297	5	CPA4	7	129939246	Splice_Site	SNP	T	TCGA-66-2766-01A-01D-1522-08	1492333	129939246	29199417	194	53762										
HIPK2	28996	broad.mit.edu	37	chr7	139299139	139299139	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgctccgctgggccactgcaGccatggatgccgctgagggc	15	14	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:139299139G>A	uc003vvf.3	-	8	2057	c.1883C>T	c.(1882-1884)GCT>GTT	p.A628V	HIPK2_uc003vvd.3_Missense_Mutation_p.A601V	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	628	Interaction with SKI and SMAD1.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					GGCCACTGCAGCCATGGATGC	0.597													21	20	---	---	---	---	PASS	A	139299139	A	A	139299139	3	1	151	1	0	0	0	0	1	0	0	0	7117	971	34	3	1745	3	HIPK2	7	139299139	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	9359893	139299139	19839524	195	53763										
SLC37A3	84255	broad.mit.edu	37	chr7	140035283	140035283	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cctcactattaatggcgagaTaaacacaattgtacaacttg	6	9	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:140035283T>C	uc003vvo.2	-	15	1580	c.1414A>G	c.(1414-1416)ATC>GTC	p.I472V	SLC37A3_uc003vvn.2_Missense_Mutation_p.I50V|SLC37A3_uc003vvp.2_Missense_Mutation_p.Y371C|SLC37A3_uc010lnh.2_Missense_Mutation_p.I456V	NM_207113	NP_996996	Q8NCC5	SPX3_HUMAN	solute carrier family 37 (glycerol-3-phosphate	472	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane				ovary(3)	3	Melanoma(164;0.0142)					AATGGCGAGATAAACACAATT	0.388													70	127	---	---	---	---	PASS	C	140035283	C	C	140035283	3	2	151	1	0	0	0	0	1	0	0	0	14599	1406	49	5	223	5	SLC37A3	7	140035283	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	736144	140035283	19103380	196	53764										
TRPV5	56302	broad.mit.edu	37	chr7	142605794	142605794	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cggtgactgctgctctgggaCgcggtccgggacagggagga	19	10	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:142605794C>T	uc003wby.1	-	15	2340	c.2076G>A	c.(2074-2076)GCG>GCA	p.A692A		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	692	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					TGCTCTGGGACGCGGTCCGGG	0.587													69	107	---	---	---	---	PASS	T	142605794	T	T	142605794	2	4	151	1	0	0	0	0	0	0	0	1	16596	523	19	1		1	TRPV5	7	142605794	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	2570511	142605794	16532869	197	53765										
OR2F2	135948	broad.mit.edu	37	chr7	143632691	143632691	+	Silent	SNP	C	A	A													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcagtgatggcctatgaccgCcatgtggctgtgtctgaccg							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:143632691C>A	uc011ktv.1	+	1	366	c.366C>A	c.(364-366)CGC>CGA	p.R122R		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					CCTATGACCGCCATGTGGCTG	0.552													84	108	---	---	---	---	PASS	A	143632691	A	A	143632691	2	1	151	1	0	0	0	0	0	0	0	1	10997	726	26	3		3	OR2F2	7	143632691	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	1026897	143632691	15505972	198	53766	978	2								
OR2F2	135948	broad.mit.edu	37	chr7	143632692	143632692	+	Missense_Mutation	SNP	C	T	T													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cagtgatggcctatgaccgcCatgtggctgtgtctgaccgc							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:143632692C>T	uc011ktv.1	+	1	367	c.367C>T	c.(367-369)CAT>TAT	p.H123Y		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	123	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					CTATGACCGCCATGTGGCTGT	0.557													83	106	---	---	---	---	PASS	T	143632692	T	T	143632692	3	4	151	1	0	0	0	0	1	0	0	0	10997	594	21	3	369	3	OR2F2	7	143632692	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1	143632692	15505971	199	53767	978	2								
ZNF777	27153	broad.mit.edu	37	chr7	149130003	149130003	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttcctcctcgtcttgttcctCtgtcttgatcacgatcccct	5	16	4	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:149130003C>T	uc003wfv.2	-	6	1523	c.1360G>A	c.(1360-1362)GAG>AAG	p.E454K		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	454	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			TCTTGTTCCTCTGTCTTGATC	0.483													5	7	---	---	---	---	PASS	T	149130003	T	T	149130003	3	4	151	1	0	0	0	0	1	0	0	0	18147	922	32	2	1139	2	ZNF777	7	149130003	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	5497311	149130003	10008660	200	53768										
SSPO	23145	broad.mit.edu	37	chr7	149492326	149492326	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctattctcccctggggctggCcggactggctgaggggagtc	16	12	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:149492326C>T	uc010lpk.2	+	43	6215	c.6215C>T	c.(6214-6216)GCC>GTC	p.A2072V		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2072	F5/8 type C.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CTGGGGCTGGCCGGACTGGCT	0.682													4	95	---	---	---	---	PASS	T	149492326	T	T	149492326	3	4	151	1	0	0	0	0	1	0	0	0	15188	739	26	3	6377	3	SSPO	7	149492326	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	362323	149492326	9646337	201	53769										
ABP1	26	broad.mit.edu	37	chr7	150553564	150553564	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gccgtggagcgagagatgccGgccctgggctgggccgtggc	20	12	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:150553564G>T	uc003why.1	+	3	4224	c.6G>T	c.(4-6)CCG>CCT	p.P2P	ABP1_uc003whz.1_Silent_p.P2P|ABP1_uc003wia.1_Silent_p.P2P	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	2					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	GAGAGATGCCGGCCCTGGGCT	0.607													45	67	---	---	---	---	PASS	T	150553564	T	T	150553564	2	4	151	1	0	0	0	0	0	0	0	1	98	1103	39	1		1	ABP1	7	150553564	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	1061238	150553564	8585099	202	53770										
MLL3	58508	broad.mit.edu	37	chr7	151945252	151945252	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ataactttatagatttgcctCcttggtatgaaacatctttc	5	8	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr7:151945252C>G	uc003wla.2	-	14	2486	c.2267G>C	c.(2266-2268)GGA>GCA	p.G756A		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	756					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		AGATTTGCCTCCTTGGTATGA	0.393			N		medulloblastoma								9	427	---	---	---	---	PASS	G	151945252	G	G	151945252	3	3	151	1	0	0	0	0	1	0	0	0	9622	855	30	2	12652	2	MLL3	7	151945252	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1391688	151945252	7193411	203	53771										
DLGAP2	9228	broad.mit.edu	37	chr8	1497416	1497417	+	In_Frame_Ins	INS	-	CCACCACGC	CCACCACGC													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gacggccgggcggacgaccaINSccaccacgcccaccacgcca							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:1497416_1497417insCCACCACGC	uc003wpl.2	+	2	654_655	c.557_558insCCACCACGC	c.(556-558)CAC>CACCACCACGCC	p.192_193insHHA	DLGAP2_uc003wpm.2_In_Frame_Ins_p.192_193insHHA	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	271_272					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		GCGGACGACCACCACCACGCCC	0.668													10	5	---	---	---	---		CCACCACGC	1497417	CCACCACGC	CCACCACGC	1497416	7	5	151	1	0	1	1	0	0	0	0	0	4560	159	6	0	559	0	DLGAP2	8	1497416	In_Frame_Ins	INS	-	TCGA-66-2766-01A-01D-1522-08		1497416	144866606	204	53772										
CSMD1	64478	broad.mit.edu	37	chr8	3256999	3256999	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tccttataatatcctggccaTccaggaggcaaaatgactcc	7	12	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:3256999T>C	uc011kwk.1	-	16	2712	c.2322A>G	c.(2320-2322)GGA>GGG	p.G774G	CSMD1_uc011kwj.1_Silent_p.G166G	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	774	Extracellular (Potential).|CUB 5.					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)		ATCCTGGCCATCCAGGAGGCA	0.388													14	55	---	---	---	---	PASS	C	3256999	C	C	3256999	2	2	151	1	0	0	0	0	0	0	0	1	3944	1422	50	5		5	CSMD1	8	3256999	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	1759583	3256999	143107023	205	53773										
MSR1	4481	broad.mit.edu	37	chr8	16026196	16026196	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aatgctctgtgtccatgaggTtggcttccatgtctaaaata	9	8	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:16026196T>A	uc003wwz.2	-	4	599	c.401A>T	c.(400-402)AAC>ATC	p.N134I	MSR1_uc010lsu.2_Missense_Mutation_p.N152I|MSR1_uc003wxa.2_Missense_Mutation_p.N134I|MSR1_uc003wxb.2_Missense_Mutation_p.N134I|MSR1_uc011kxz.1_Intron	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	134	Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		GTCCATGAGGTTGGCTTCCAT	0.398													223	79	---	---	---	---	PASS	A	16026196	A	A	16026196	3	1	151	1	0	0	0	0	1	0	0	0	9886	1725	60	5	1030	5	MSR1	8	16026196	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	12769197	16026196	130337826	206	53774										
PSD3	23362	broad.mit.edu	37	chr8	18729986	18729986	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgaaatcaaagagtcaatggGctgtaaactttgttccttga	9	6	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:18729986G>C	uc003wza.2	-	3	491	c.388C>G	c.(388-390)CCC>GCC	p.P130A		NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	130					regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		GAGTCAATGGGCTGTAAACTT	0.468													159	69	---	---	---	---	PASS	C	18729986	C	C	18729986	3	2	151	1	0	0	0	0	1	0	0	0	12648	1203	42	4	2847	4	PSD3	8	18729986	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	2703790	18729986	127634036	207	53775										
TEX15	56154	broad.mit.edu	37	chr8	30704887	30704887	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aataatgcagttgctgctgaCactgcattatcttctctgca	7	10	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:30704887C>T	uc003xil.2	-	1	1647	c.1647G>A	c.(1645-1647)GTG>GTA	p.V549V		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	549										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TTGCTGCTGACACTGCATTAT	0.333													157	52	---	---	---	---	PASS	T	30704887	T	T	30704887	2	4	151	1	0	0	0	0	0	0	0	1	15776	465	17	3		3	TEX15	8	30704887	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	11974901	30704887	115659135	208	53776										
UNC5D	137970	broad.mit.edu	37	chr8	35406884	35406884	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgcctcatttcatagaggagCcagatgatgcttatattatc	8	8	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:35406884C>A	uc003xjr.1	+	2	506	c.178C>A	c.(178-180)CCA>ACA	p.P60T	UNC5D_uc003xjs.1_Missense_Mutation_p.P55T	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	60	Extracellular (Potential).|Ig-like.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CATAGAGGAGCCAGATGATGC	0.483													76	32	---	---	---	---	PASS	A	35406884	A	A	35406884	3	1	151	1	0	0	0	0	1	0	0	0	16992	739	26	3	184	3	UNC5D	8	35406884	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	4701997	35406884	110957138	209	53777										
PRKDC	5591	broad.mit.edu	37	chr8	48869797	48869797	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aagaaaatacataaaaacttTaggatttcttctctacattc	3	7	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:48869797T>C	uc003xqi.2	-	3	315	c.258A>G	c.(256-258)CTA>CTG	p.L86L	PRKDC_uc003xqj.2_Silent_p.L86L|PRKDC_uc011ldh.1_Silent_p.L86L	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	86					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				ATAAAAACTTTAGGATTTCTT	0.303								NHEJ					33	8	---	---	---	---	PASS	C	48869797	C	C	48869797	2	2	151	1	0	0	0	0	0	0	0	1	12521	1741	61	5		5	PRKDC	8	48869797	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	13462913	48869797	97494225	210	53778										
SNTG1	54212	broad.mit.edu	37	chr8	51363290	51363290	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aatgtagacatgaagaagtgGtgagtttactttttcctaat	9	4	0	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:51363290G>T	uc010lxy.1	+	9	734	c.363_splice	c.e9+1	p.V121_splice	SNTG1_uc003xqs.1_Splice_Site_p.V121_splice|SNTG1_uc010lxz.1_Splice_Site_p.V121_splice|SNTG1_uc011ldl.1_Splice_Site	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1						cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				TGAAGAAGTGGTGAGTTTACT	0.328													36	14	---	---	---	---	PASS	T	51363290	T	T	51363290	5	4	151	1	0	0	0	0	0	0	1	0	14874	1275	44	3	386	3	SNTG1	8	51363290	Splice_Site	SNP	G	TCGA-66-2766-01A-01D-1522-08	2493493	51363290	95000732	211	53779										
NSMAF	8439	broad.mit.edu	37	chr8	59510091	59510091	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgcgtaagcatggctaccttCtcatcaggatcctggatgct	10	11	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:59510091C>T	uc003xtt.2	-	21	1861	c.1647G>A	c.(1645-1647)GAG>GAA	p.E549E	NSMAF_uc011lee.1_Silent_p.E580E	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	549	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)				TGGCTACCTTCTCATCAGGAT	0.423													4	184	---	---	---	---	PASS	T	59510091	T	T	59510091	2	4	151	1	0	0	0	0	0	0	0	1	10674	912	32	2		2	NSMAF	8	59510091	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	8146801	59510091	86853931	212	53780										
NCOA2	10499	broad.mit.edu	37	chr8	71069449	71069449	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcgtttgtccagtcagatccGgattcatcacacacacattc	6	13	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:71069449G>A	uc003xyn.1	-	11	1313	c.1151C>T	c.(1150-1152)CCG>CTG	p.P384L		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	384					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			AGTCAGATCCGGATTCATCAC	0.413			T	RUNXBP2	AML								38	14	---	---	---	---	PASS	A	71069449	A	A	71069449	3	1	151	1	0	0	0	0	1	0	0	0	10229	1116	39	1	3295	1	NCOA2	8	71069449	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	11559358	71069449	75294573	213	53781										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885511	88885511	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gagtcatgattgcaaactgcTgggccaagacatcactgcta	10	10	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:88885511T>C	uc003ydz.2	-	1	786	c.689A>G	c.(688-690)CAG>CGG	p.Q230R		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	230										ovary(1)	1						TGCAAACTGCTGGGCCAAGAC	0.517													100	51	---	---	---	---	PASS	C	88885511	C	C	88885511	3	2	151	1	0	0	0	0	1	0	0	0	4272	1580	55	5	502	5	DCAF4L2	8	88885511	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	17816062	88885511	57478511	214	53782										
TMEM74	157753	broad.mit.edu	37	chr8	109796805	109796805	+	Missense_Mutation	SNP	C	T	T													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggcgctgatgaaaccatagtCtatagacttccctgaagacg							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:109796805C>T	uc003ymy.1	-	2	628	c.523G>A	c.(523-525)GAC>AAC	p.D175N	TMEM74_uc003ymx.2_Intron	NM_153015	NP_694560	Q96NL1	TMM74_HUMAN	transmembrane protein 74	175					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(57;3.08e-10)			AAACCATAGTCTATAGACTTC	0.483													9	149	---	---	---	---	PASS	T	109796805	T	T	109796805	3	4	151	1	0	0	0	0	1	0	0	0	16199	913	32	2	398	2	TMEM74	8	109796805	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	20911294	109796805	36567217	215	53783	979	2								
TMEM74	157753	broad.mit.edu	37	chr8	109796815	109796815	+	Silent	SNP	C	A	A													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aaaccatagtctatagacttCcctgaagacgtggcttctga							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:109796815C>A	uc003ymy.1	-	2	618	c.513G>T	c.(511-513)GGG>GGT	p.G171G	TMEM74_uc003ymx.2_Intron	NM_153015	NP_694560	Q96NL1	TMM74_HUMAN	transmembrane protein 74	171					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(57;3.08e-10)			CTATAGACTTCCCTGAAGACG	0.483													6	156	---	---	---	---	PASS	A	109796815	A	A	109796815	2	1	151	1	0	0	0	0	0	0	0	1	16199	842	30	2		2	TMEM74	8	109796815	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	10	109796815	36567207	216	53784	979	2								
PKHD1L1	93035	broad.mit.edu	37	chr8	110476533	110476533	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acagtttaaatcttatgtaaGaggctgtgcaattcaccagg	9	7	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:110476533G>C	uc003yne.2	+	49	7576	c.7472G>C	c.(7471-7473)AGA>ACA	p.R2491T		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2491	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TCTTATGTAAGAGGCTGTGCA	0.428										HNSCC(38;0.096)			57	29	---	---	---	---	PASS	C	110476533	C	C	110476533	3	2	151	1	0	0	0	0	1	0	0	0	11972	942	33	2	7666	2	PKHD1L1	8	110476533	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	679718	110476533	35887489	217	53785										
COL14A1	7373	broad.mit.edu	37	chr8	121228694	121228694	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agatcaatggttatcgaattGtatataacaatgcagatggg	10	4	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:121228694G>A	uc003yox.2	+	14	1967	c.1702G>A	c.(1702-1704)GTA>ATA	p.V568I	COL14A1_uc003yoy.2_Missense_Mutation_p.V246I|COL14A1_uc010mde.1_Missense_Mutation_p.V246I	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	568	Fibronectin type-III 4.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			TTATCGAATTGTATATAACAA	0.348													58	222	---	---	---	---	PASS	A	121228694	A	A	121228694	3	1	151	1	0	0	0	0	1	0	0	0	3671	1377	48	3	1752	3	COL14A1	8	121228694	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	10752161	121228694	25135328	218	53786										
ZFAT	57623	broad.mit.edu	37	chr8	135669838	135669838	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cttgagttggggggttcaggTgtactcagaggcctaagggg	18	6	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:135669838T>A	uc003yup.2	-	2	337	c.162A>T	c.(160-162)ACA>ACT	p.T54T	ZFAT_uc003yun.2_Silent_p.T42T|ZFAT_uc003yuo.2_Silent_p.T42T|ZFAT_uc010meh.2_Silent_p.T42T|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Silent_p.T42T|ZFAT_uc010mej.2_Silent_p.T54T|ZFAT_uc003yur.2_Silent_p.T42T	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	54					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			GGGGTTCAGGTGTACTCAGAG	0.512													71	44	---	---	---	---	PASS	A	135669838	A	A	135669838	2	1	151	1	0	0	0	0	0	0	0	1	17629	1683	59	5		5	ZFAT	8	135669838	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	14441144	135669838	10694184	219	53787										
FAM135B	51059	broad.mit.edu	37	chr8	139164883	139164883	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctagagtacttaattcatggAgagttgttttgtctgaagag	11	4	2	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:139164883A>T	uc003yuy.2	-	13	2006	c.1835T>A	c.(1834-1836)CTC>CAC	p.L612H	FAM135B_uc003yux.2_Missense_Mutation_p.L513H|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.L174H|FAM135B_uc003yvb.2_Missense_Mutation_p.L174H	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	612										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)			TAATTCATGGAGAGTTGTTTT	0.458										HNSCC(54;0.14)			255	140	---	---	---	---	PASS	T	139164883	T	T	139164883	3	4	151	1	0	0	0	0	1	0	0	0	5449	304	11	5	2417	5	FAM135B	8	139164883	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	3495045	139164883	7199139	220	53788										
CYP11B1	1584	broad.mit.edu	37	chr8	143961094	143961094	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cagcctcagccacctgttgcCtggacgccggggcatggctt	13	15	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr8:143961094C>T	uc003yxi.2	-	1	143	c.136G>A	c.(136-138)GGC>AGC	p.G46S	CYP11B1_uc003yxj.2_Missense_Mutation_p.G46S|CYP11B1_uc010mey.2_Missense_Mutation_p.G46S	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	46					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	CACCTGTTGCCTGGACGCCGG	0.632									Familial_Hyperaldosteronism_type_I				77	40	---	---	---	---	PASS	T	143961094	T	T	143961094	3	4	151	1	0	0	0	0	1	0	0	0	4145	681	24	3	1411	3	CYP11B1	8	143961094	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	4796211	143961094	2402928	221	53789										
SH3GL2	6456	broad.mit.edu	37	chr9	17789429	17789429	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agggtcgacgcctggattttGattataagaagaaacgacaa	11	6	0	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:17789429G>A	uc003zna.2	+	6	793	c.505G>A	c.(505-507)GAT>AAT	p.D169N	SH3GL2_uc011lmx.1_Missense_Mutation_p.D134N|SH3GL2_uc011lmy.1_Missense_Mutation_p.D122N	NM_003026	NP_003017	Q99962	SH3G2_HUMAN	SH3-domain GRB2-like 2	169	BAR.				axon guidance|central nervous system development|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	cytosol|Golgi membrane|plasma membrane	identical protein binding|lipid binding			skin(1)	1				GBM - Glioblastoma multiforme(50;2.71e-10)|Lung(42;0.203)		CCTGGATTTTGATTATAAGAA	0.423													68	38	---	---	---	---	PASS	A	17789429	A	A	17789429	3	1	151	1	0	0	0	0	1	0	0	0	14251	1290	45	2	527	2	SH3GL2	9	17789429	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08		17789429	123424002	222	53790										
SLC24A2	25769	broad.mit.edu	37	chr9	19786693	19786693	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgtatctgtctcagaaaaggCactgattgaaaatgagacag	10	6	2	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:19786693C>A	uc003zoa.1	-	1	234	c.172G>T	c.(172-174)GCC>TCC	p.A58S	SLC24A2_uc003zob.1_Missense_Mutation_p.A58S	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	58					visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		TCAGAAAAGGCACTGATTGAA	0.428													116	49	---	---	---	---	PASS	A	19786693	A	A	19786693	3	1	151	1	0	0	0	0	1	0	0	0	14466	710	25	3	1853	3	SLC24A2	9	19786693	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1997264	19786693	121426738	223	53791										
TLN1	7094	broad.mit.edu	37	chr9	35699040	35699040	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aggactgaccttgggtttggCccggggcttcagctgctcta	14	11	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:35699040C>G	uc003zxt.2	-	52	7342	c.6988G>C	c.(6988-6990)GCC>CCC	p.A2330P		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	2330	I/LWEQ.				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TTGGGTTTGGCCCGGGGCTTC	0.562													31	48	---	---	---	---	PASS	G	35699040	G	G	35699040	3	3	151	1	0	0	0	0	1	0	0	0	15944	739	26	4	661	4	TLN1	9	35699040	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	15912347	35699040	105514391	224	53792										
GNE	10020	broad.mit.edu	37	chr9	36223384	36223384	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcttacctactcccaaaattCtgcagttcagttttacagct	4	12	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:36223384C>T	uc010mlh.2	-	8	1612	c.1397G>A	c.(1396-1398)AGA>AAA	p.R466K	CLTA_uc003zzf.1_Intron|GNE_uc010mlg.2_Missense_Mutation_p.R466K|GNE_uc011lpl.1_Missense_Mutation_p.R356K|GNE_uc010mli.2_Missense_Mutation_p.R497K|GNE_uc010mlj.2_Missense_Mutation_p.R461K	NM_005476	NP_005467	Q9Y223	GLCNE_HUMAN	UDP-N-acetylglucosamine-2-epimerase/N-	466	UDP-N-acetylglucosamine 2-epimerase.|N-acetylmannosamine kinase.				cell adhesion|lipopolysaccharide biosynthetic process|N-acetylneuraminate metabolic process|UDP-N-acetylglucosamine metabolic process		ATP binding|N-acylmannosamine kinase activity|UDP-N-acetylglucosamine 2-epimerase activity				0			STAD - Stomach adenocarcinoma(86;0.228)			TCCCAAAATTCTGCAGTTCAG	0.348													95	40	---	---	---	---	PASS	T	36223384	T	T	36223384	3	4	151	1	0	0	0	0	1	0	0	0	6522	913	32	2	791	2	GNE	9	36223384	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	524344	36223384	104990047	225	53793										
TRPM6	140803	broad.mit.edu	37	chr9	77397632	77397632	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tagacttctccgtatatcatCcagtatggctcaaatacaat	5	10	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:77397632C>A	uc004ajl.1	-	22	3295	c.3057G>T	c.(3055-3057)TGG>TGT	p.W1019C	TRPM6_uc004ajk.1_Missense_Mutation_p.W1014C|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_Missense_Mutation_p.W305C	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1019					response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						CGTATATCATCCAGTATGGCT	0.438													4	188	---	---	---	---	PASS	A	77397632	A	A	77397632	3	1	151	1	0	0	0	0	1	0	0	0	16587	856	30	2	3083	2	TRPM6	9	77397632	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	41174248	77397632	63815799	226	53794										
PRUNE2	158471	broad.mit.edu	37	chr9	79325074	79325074	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctttgtaaattcgaggctctTtggttgaaatacagaatctg	9	6	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:79325074T>G	uc010mpk.2	-	8	2240	c.2116A>C	c.(2116-2118)AAG>CAG	p.K706Q		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	706					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TCGAGGCTCTTTGGTTGAAAT	0.443													25	46	---	---	---	---	PASS	G	79325074	G	G	79325074	3	3	151	1	0	0	0	0	1	0	0	0	12641	1850	64	5	7198	5	PRUNE2	9	79325074	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	1927442	79325074	61888357	227	53795										
SYK	6850	broad.mit.edu	37	chr9	93636955	93636955	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tttcttgactgcattgcaggCccccagagagaagccctacc	9	14	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:93636955C>A	uc004aqz.2	+	9	1210	c.1005C>A	c.(1003-1005)GGC>GGA	p.G335G	SYK_uc004ara.2_Silent_p.G312G|SYK_uc004arb.2_Silent_p.G312G|SYK_uc004arc.2_Silent_p.G335G|SYK_uc011ltr.1_RNA|SYK_uc011lts.1_RNA|SYK_uc011ltt.1_RNA	NM_003177	NP_003168	P43405	KSYK_HUMAN	spleen tyrosine kinase isoform 1	335	Linker.				cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						GCATTGCAGGCCCCCAGAGAG	0.552			T	ETV6|ITK	MDS|peripheral T-cell lymphoma								6	410	---	---	---	---	PASS	A	93636955	A	A	93636955	2	1	151	1	0	0	0	0	0	0	0	1	15435	753	26	3		3	SYK	9	93636955	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	14311881	93636955	47576476	228	53796										
ALDOB	229	broad.mit.edu	37	chr9	104192152	104192152	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cacccccgatgctctggttgAtggaactgtccacagagaag	11	12	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:104192152A>G	uc004bbk.2	-	3	291	c.209T>C	c.(208-210)ATC>ACC	p.I70T		NM_000035	NP_000026	P05062	ALDOB_HUMAN	aldolase B, fructose-bisphosphate	70					fructose 1,6-bisphosphate metabolic process|fructose catabolic process|gluconeogenesis|glycolysis|NADH oxidation|positive regulation of ATPase activity|vacuolar proton-transporting V-type ATPase complex assembly	centriolar satellite|cytosol	ATPase binding|cytoskeletal protein binding|fructose binding|fructose-bisphosphate aldolase activity|identical protein binding			skin(1)	1		Acute lymphoblastic leukemia(62;0.0559)				GCTCTGGTTGATGGAACTGTC	0.527													84	265	---	---	---	---	PASS	G	104192152	G	G	104192152	3	3	151	1	0	0	0	0	1	0	0	0	508	333	12	5	913	5	ALDOB	9	104192152	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	10555197	104192152	37021279	229	53797										
FKTN	2218	broad.mit.edu	37	chr9	108397528	108397528	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctatttctgagtgggatgagGttatccagttatattgagat	11	4	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:108397528G>A	uc004bcr.2	+	11	1585	c.1369G>A	c.(1369-1371)GTT>ATT	p.V457I	FKTN_uc011lvx.1_Intron|FKTN_uc004bcs.2_Missense_Mutation_p.V457I|FKTN_uc011lvy.1_3'UTR|FKTN_uc010mtm.2_Missense_Mutation_p.V325I	NM_001079802	NP_001073270	O75072	FKTN_HUMAN	fukutin	457	Lumenal (Potential).				muscle organ development|negative regulation of cell proliferation|negative regulation of JNK cascade|nervous system development|regulation of protein glycosylation	cis-Golgi network|endoplasmic reticulum|extracellular space|Golgi membrane|integral to membrane|nucleus	transferase activity			breast(2)|ovary(1)	3						GTGGGATGAGGTTATCCAGTT	0.398													142	40	---	---	---	---	PASS	A	108397528	A	A	108397528	3	1	151	1	0	0	0	0	1	0	0	0	5919	1261	44	3	1403	3	FKTN	9	108397528	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	4205376	108397528	32815903	230	53798										
KIAA1958	158405	broad.mit.edu	37	chr9	115421967	115421967	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cgagctgctcaaagacccccAaaaccagccctactttgccc	6	18	1	1	rs143861651		TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:115421967A>G	uc004bgf.1	+	4	1944	c.1769A>G	c.(1768-1770)CAA>CGA	p.Q590R	KIAA1958_uc011lwx.1_Missense_Mutation_p.Q618R	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	590										skin(1)	1						AAAGACCCCCAAAACCAGCCC	0.577													13	54	---	---	---	---	PASS	G	115421967	G	G	115421967	3	3	151	1	0	0	0	0	1	0	0	0	8264	130	5	5	1779	5	KIAA1958	9	115421967	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	7024439	115421967	25791464	231	53799										
ZBTB6	10773	broad.mit.edu	37	chr9	125673735	125673735	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	taaaacctatgtctactgtaGacagctctggtgacttcatt	7	9	3	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:125673735G>C	uc004bnh.2	-	2	706	c.617C>G	c.(616-618)TCT>TGT	p.S206C		NM_006626	NP_006617	Q15916	ZBTB6_HUMAN	zinc finger and BTB domain containing 6	206					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTCTACTGTAGACAGCTCTGG	0.393													101	100	---	---	---	---	PASS	C	125673735	C	C	125673735	3	2	151	1	0	0	0	0	1	0	0	0	17549	942	33	2	661	2	ZBTB6	9	125673735	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	10251768	125673735	15539696	232	53800										
SURF4	6836	broad.mit.edu	37	chr9	136234304	136234304	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gccacgtggggcaggtactgCtttgtgacacggaggaactg	16	9	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:136234304C>T	uc004cdj.2	-	2	196	c.66G>A	c.(64-66)AAG>AAA	p.K22K	SURF4_uc011mda.1_Silent_p.K13K|SURF4_uc010nal.2_Silent_p.K54K|SURF4_uc011mdb.1_5'UTR|SURF4_uc011mdc.1_5'UTR|SURF4_uc011mdd.1_Silent_p.K22K	NM_033161	NP_149351	O15260	SURF4_HUMAN	surfeit 4	22						endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;5.32e-07)|Epithelial(140;4.56e-06)|all cancers(34;4.25e-05)		GCAGGTACTGCTTTGTGACAC	0.657													21	81	---	---	---	---	PASS	T	136234304	T	T	136234304	2	4	151	1	0	0	0	0	0	0	0	1	15402	796	28	3		3	SURF4	9	136234304	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	10560569	136234304	4979127	233	53801										
SLC2A6	11182	broad.mit.edu	37	chr9	136338552	136338552	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cctacccatgatgaagagcaTggtggccagcaggggcacca	13	12	0	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:136338552T>C	uc004cee.2	-	8	1302	c.1207A>G	c.(1207-1209)ATG>GTG	p.M403V	SLC2A6_uc004cef.2_Intron|SLC2A6_uc004ceg.2_Missense_Mutation_p.M380V	NM_017585	NP_060055	Q9UGQ3	GTR6_HUMAN	solute carrier family 2 (facilitated glucose	403	Helical; Name=10; (Potential).					integral to membrane|plasma membrane	D-glucose transmembrane transporter activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.47e-08)|Epithelial(140;9.37e-07)|all cancers(34;1.03e-05)		ATGAAGAGCATGGTGGCCAGC	0.652													11	7	---	---	---	---	PASS	C	136338552	C	C	136338552	3	2	151	1	0	0	0	0	1	0	0	0	14549	1464	51	5	328	5	SLC2A6	9	136338552	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	104248	136338552	4874879	234	53802										
DBH	1621	broad.mit.edu	37	chr9	136501657	136501657	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctatcacatccccctggaccCggaggggtccctggagctct	11	16	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:136501657C>A	uc004cel.2	+	1	173	c.164C>A	c.(163-165)CCG>CAG	p.P55Q		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	55	Intragranular (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	CCCCTGGACCCGGAGGGGTCC	0.642													55	10	---	---	---	---	PASS	A	136501657	A	A	136501657	3	1	151	1	0	0	0	0	1	0	0	0	4250	652	23	1	166	1	DBH	9	136501657	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	163105	136501657	4711774	235	53803										
SARDH	1757	broad.mit.edu	37	chr9	136573495	136573495	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtagttcttggcgtaggactCatggcttcgctctcggatcc	12	11	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:136573495C>G	uc004cep.3	-	11	1518	c.1384G>C	c.(1384-1386)GAG>CAG	p.E462Q	SARDH_uc004ceo.2_Missense_Mutation_p.E462Q|SARDH_uc011mdn.1_Missense_Mutation_p.E462Q|SARDH_uc011mdo.1_Missense_Mutation_p.E294Q	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	462					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		GCGTAGGACTCATGGCTTCGC	0.652													62	39	---	---	---	---	PASS	G	136573495	G	G	136573495	3	3	151	1	0	0	0	0	1	0	0	0	13841	835	29	2	1416	2	SARDH	9	136573495	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	71838	136573495	4639936	236	53804										
COL5A1	1289	broad.mit.edu	37	chr9	137657551	137657551	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cacgtggtctgcttgggccgAaggggcccccaggtcctccc	14	16	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:137657551A>C	uc004cfe.2	+	21	2441	c.2059A>C	c.(2059-2061)AAG>CAG	p.K687Q		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	687	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)		GCTTGGGCCGAAGGGGCCCCC	0.622													13	226	---	---	---	---	PASS	C	137657551	C	C	137657551	3	2	151	1	0	0	0	0	1	0	0	0	3696	247	9	5	2141	5	COL5A1	9	137657551	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	1084056	137657551	3555880	237	53805										
C9orf172	389813	broad.mit.edu	37	chr9	139739830	139739830	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tctcggggcccagtccaaggCgcatgggcggctactacgca	14	14	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr9:139739830C>A	uc011meh.1	+	1	964	c.964C>A	c.(964-966)CGC>AGC	p.R322S	PHPT1_uc004cjp.2_5'Flank	NM_001080482	NP_001073951	C9J069	CI172_HUMAN	chromosome 9 open reading frame 172	322	Pro-rich.										0						CAGTCCAAGGCGCATGGGCGG	0.677													3	53	---	---	---	---	PASS	A	139739830	A	A	139739830	3	1	151	1	0	0	0	0	1	0	0	0	2471	768	27	1	966	1	C9orf172	9	139739830	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	2082279	139739830	1473601	238	53806										
ITGA8	8516	broad.mit.edu	37	chr10	15561362	15561362	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctagtattattacccataatGggattgagaaggaaacattc	8	6	0	1	rs141983422		TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr10:15561362G>T	uc001ioc.1	-	29	3032	c.3032C>A	c.(3031-3033)CCA>CAA	p.P1011Q	ITGA8_uc010qcb.1_Missense_Mutation_p.P996Q	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	1011	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						TACCCATAATGGGATTGAGAA	0.348													86	153	---	---	---	---	PASS	T	15561362	T	T	15561362	3	4	151	1	0	0	0	0	1	0	0	0	7882	1348	47	3	167	3	ITGA8	10	15561362	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08		15561362	119973385	239	53807										
ZNF438	220929	broad.mit.edu	37	chr10	31133898	31133898	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgccttggggtctcatttctCagcttcactggaaagttcga	10	10	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr10:31133898C>T	uc010qdz.1	-	8	2914	c.2479G>A	c.(2479-2481)GAG>AAG	p.E827K	ZNF438_uc001ivn.2_Missense_Mutation_p.E778K|ZNF438_uc010qdy.1_Missense_Mutation_p.E817K|ZNF438_uc001ivo.3_Missense_Mutation_p.E391K|ZNF438_uc009xlg.2_Missense_Mutation_p.E827K|ZNF438_uc001ivp.3_Missense_Mutation_p.E817K|ZNF438_uc010qea.1_Missense_Mutation_p.E827K|ZNF438_uc010qeb.1_Missense_Mutation_p.E827K	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	827					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				TCTCATTTCTCAGCTTCACTG	0.512													104	476	---	---	---	---	PASS	T	31133898	T	T	31133898	3	4	151	1	0	0	0	0	1	0	0	0	17907	835	29	2	11	2	ZNF438	10	31133898	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	15572536	31133898	104400849	240	53808										
KIF5B	3799	broad.mit.edu	37	chr10	32309970	32309970	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcttgaagatcagtaataagTtttgcttttgcttctacttc	6	7	3	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr10:32309970T>A	uc001iwe.3	-	19	2654	c.2184A>T	c.(2182-2184)AAA>AAT	p.K728N		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	728					stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				CAGTAATAAGTTTTGCTTTTG	0.348													131	75	---	---	---	---	PASS	A	32309970	A	A	32309970	3	1	151	1	0	0	0	0	1	0	0	0	8306	1722	60	5	735	5	KIF5B	10	32309970	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	1176072	32309970	103224777	241	53809										
RET	5979	broad.mit.edu	37	chr10	43606776	43606776	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cacctcagccgaggacacctCggggatcctgtttgtgaatg	12	12	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr10:43606776C>T	uc001jal.2	+	7	1575	c.1385C>T	c.(1384-1386)TCG>TTG	p.S462L	RET_uc001jak.1_Missense_Mutation_p.S462L|RET_uc010qez.1_Missense_Mutation_p.S208L	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	462	Extracellular (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	GAGGACACCTCGGGGATCCTG	0.597		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				62	162	---	---	---	---	PASS	T	43606776	T	T	43606776	3	4	151	1	0	0	0	0	1	0	0	0	13235	893	31	2	1411	2	RET	10	43606776	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	11296806	43606776	91927971	242	53810										
HK1	3098	broad.mit.edu	37	chr10	71146157	71146157	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tagtcaccttactaagggatGcgataaaaaggagagaggta	12	5	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr10:71146157G>T	uc001jpl.3	+	13	2019	c.1918G>T	c.(1918-1920)GCG>TCG	p.A640S	HK1_uc001jpg.3_Missense_Mutation_p.A628S|HK1_uc001jph.3_Missense_Mutation_p.A644S|HK1_uc001jpi.3_Missense_Mutation_p.A644S|HK1_uc001jpj.3_Missense_Mutation_p.A675S|HK1_uc001jpk.3_Missense_Mutation_p.A639S|HK1_uc009xqd.2_Missense_Mutation_p.A518S	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	640	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						ACTAAGGGATGCGATAAAAAG	0.383													20	81	---	---	---	---	PASS	T	71146157	T	T	71146157	3	4	151	1	0	0	0	0	1	0	0	0	7190	1319	46	3	2146	3	HK1	10	71146157	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	27539381	71146157	64388590	243	53811										
CDH23	64072	broad.mit.edu	37	chr10	73437260	73437260	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	catcatgctgattgccaggcTggactatgagctcatccagc	10	12	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr10:73437260T>A	uc001jrx.3	+	15	1939	c.1562T>A	c.(1561-1563)CTG>CAG	p.L521Q	CDH23_uc001jry.2_Missense_Mutation_p.L137Q|CDH23_uc001jrz.2_Missense_Mutation_p.L137Q	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	521	Cadherin 5.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						ATTGCCAGGCTGGACTATGAG	0.587													3	15	---	---	---	---	PASS	A	73437260	A	A	73437260	3	1	151	1	0	0	0	0	1	0	0	0	3108	1580	55	5	1847	5	CDH23	10	73437260	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	2291103	73437260	62097487	244	53812										
DLG5	9231	broad.mit.edu	37	chr10	79584220	79584220	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttcagagacttgttgtccagTgcaatgccattgatctagag	10	8	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr10:79584220T>A	uc001jzk.2	-	14	2374	c.2304A>T	c.(2302-2304)GCA>GCT	p.A768A	DLG5_uc001jzj.2_Silent_p.A523A|DLG5_uc009xru.1_RNA|DLG5_uc001jzl.3_Silent_p.A372A	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	768	PDZ 2.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			TGTTGTCCAGTGCAATGCCAT	0.567													20	45	---	---	---	---	PASS	A	79584220	A	A	79584220	2	1	151	1	0	0	0	0	0	0	0	1	4558	1683	59	5		5	DLG5	10	79584220	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	6146960	79584220	55950527	245	53813										
POLR3A	11128	broad.mit.edu	37	chr10	79784336	79784336	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcccagcagaggctccacttCtttattatgttcaatggctg	8	11	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr10:79784336C>G	uc001jzn.2	-	5	710	c.616G>C	c.(616-618)GAA>CAA	p.E206Q		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	206					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			GGCTCCACTTCTTTATTATGT	0.353													28	84	---	---	---	---	PASS	G	79784336	G	G	79784336	3	3	151	1	0	0	0	0	1	0	0	0	12228	922	32	2	3664	2	POLR3A	10	79784336	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	200116	79784336	55750411	246	53814										
NRG3	10718	broad.mit.edu	37	chr10	84118601	84118601	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgctttgtgatcgaaaccctGaccggatcccataaacactg	8	12	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr10:84118601G>A	uc001kco.2	+	2	957	c.930G>A	c.(928-930)CTG>CTA	p.L310L	NRG3_uc010qlz.1_Silent_p.L310L|NRG3_uc001kcp.2_Silent_p.L89L|NRG3_uc001kcq.2_5'UTR	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	310	EGF-like.|Extracellular (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)		TCGAAACCCTGACCGGATCCC	0.567													18	71	---	---	---	---	PASS	A	84118601	A	A	84118601	2	1	151	1	0	0	0	0	0	0	0	1	10649	1277	45	2		2	NRG3	10	84118601	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	4334265	84118601	51416146	247	53815										
MMRN2	79812	broad.mit.edu	37	chr10	88702234	88702234	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atggtctgcagcttccccagGtccaggctgacgttggcttc	12	13	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr10:88702234G>A	uc001kea.2	-	6	2434	c.2307C>T	c.(2305-2307)GAC>GAT	p.D769D	MMRN2_uc010qmn.1_Silent_p.D412D|MMRN2_uc009xtb.2_Silent_p.D726D	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	769						extracellular space				large_intestine(1)	1						GCTTCCCCAGGTCCAGGCTGA	0.592													51	216	---	---	---	---	PASS	A	88702234	A	A	88702234	2	1	151	1	0	0	0	0	0	0	0	1	9671	1252	44	3		3	MMRN2	10	88702234	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	4583633	88702234	46832513	248	53816										
PTDSS2	81490	broad.mit.edu	37	chr11	490429	490429	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccgctccccagggacatcacAttgaggtacaaggagacccg	11	14	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:490429A>G	uc001lpj.2	+	12	1487	c.1311A>G	c.(1309-1311)ACA>ACG	p.T437T		NM_030783	NP_110410	Q9BVG9	PTSS2_HUMAN	phosphatidylserine synthase 2	437	Cytoplasmic (Potential).					integral to membrane					0		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;2.76e-26)|Epithelial(43;2.56e-25)|OV - Ovarian serous cystadenocarcinoma(40;7.54e-20)|BRCA - Breast invasive adenocarcinoma(625;8.76e-05)|Lung(200;0.0407)|LUSC - Lung squamous cell carcinoma(625;0.0735)	Phosphatidylserine(DB00144)	GGGACATCACATTGAGGTACA	0.652													39	13	---	---	---	---	PASS	G	490429	G	G	490429	2	3	151	1	0	0	0	0	0	0	0	1	12737	204	8	5		5	PTDSS2	11	490429	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08		490429	134516087	249	53817										
MUC5B	727897	broad.mit.edu	37	chr11	1263098	1263098	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	actgacatcccccagatacaCaagcacccttggtacagcca	6	16	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:1263098C>G	uc009ycr.1	+	47	7193	c.7067C>G	c.(7066-7068)ACA>AGA	p.T2356R	MUC5B_uc001ltb.2_Missense_Mutation_p.T1666R	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1663	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCCAGATACACAAGCACCCTT	0.667													11	13	---	---	---	---	PASS	G	1263098	G	G	1263098	3	3	151	1	0	0	0	0	1	0	0	0	9979	478	17	4	5119	4	MUC5B	11	1263098	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	772669	1263098	133743418	250	53818										
MUC5B	727897	broad.mit.edu	37	chr11	1264937	1264937	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gacgaccaccccgggccacaCcacggccacctccaggacca	9	21	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:1264937C>G	uc009ycr.1	+	48	8867	c.8741C>G	c.(8740-8742)ACC>AGC	p.T2914S	MUC5B_uc001ltb.2_Missense_Mutation_p.T2279S	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2276	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCGGGCCACACCACGGCCACC	0.682													34	71	---	---	---	---	PASS	G	1264937	G	G	1264937	3	3	151	1	0	0	0	0	1	0	0	0	9979	507	18	4	6958	4	MUC5B	11	1264937	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1839	1264937	133741579	251	53819										
MUC5B	727897	broad.mit.edu	37	chr11	1273698	1273698	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caccgccagtgtcctccgccCcgctgtcctcgccctcccct	7	24	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:1273698C>T	uc009ycr.1	+	53	16081	c.15955C>T	c.(15955-15957)CCG>TCG	p.P5319S	MUC5B_uc001ltb.2_Missense_Mutation_p.P5000S	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4997					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GTCCTCCGCCCCGCTGTCCTC	0.692													14	25	---	---	---	---	PASS	T	1273698	T	T	1273698	3	4	151	1	0	0	0	0	1	0	0	0	9979	623	22	3	15124	3	MUC5B	11	1273698	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	8761	1273698	133732818	252	53820										
ZNF195	7748	broad.mit.edu	37	chr11	3392296	3392296	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aggcctggcttacagacagtGagacctgttttattagaaaa	10	7	0	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:3392296G>A	uc001lxt.2	-	3	313	c.135C>T	c.(133-135)CTC>CTT	p.L45L	ZNF195_uc001lxv.2_Silent_p.L45L|ZNF195_uc001lxs.2_Silent_p.L45L|ZNF195_uc010qxr.1_Silent_p.L49L|ZNF195_uc009ydz.2_Silent_p.L49L|ZNF195_uc001lxu.2_Silent_p.L49L	NM_001130520	NP_001123992	O14628	ZN195_HUMAN	zinc finger protein 195 isoform 1	45	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Medulloblastoma(188;0.00106)|Breast(177;0.00328)|all_neural(188;0.00681)|Ovarian(85;0.00965)		BRCA - Breast invasive adenocarcinoma(625;0.0361)|LUSC - Lung squamous cell carcinoma(625;0.2)		TACAGACAGTGAGACCTGTTT	0.448													65	280	---	---	---	---	PASS	A	3392296	A	A	3392296	2	1	151	1	0	0	0	0	0	0	0	1	17755	1277	45	2		2	ZNF195	11	3392296	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	2118598	3392296	131614220	253	53821										
OR51B2	79345	broad.mit.edu	37	chr11	5344605	5344605	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gagtttaactactaaacctaTgtttagataaaaggcggata	8	5	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:5344605T>C	uc001mao.1	-	1	978	c.923A>G	c.(922-924)CAT>CGT	p.H308R	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTAAACCTATGTTTAGATAA	0.368													37	85	---	---	---	---	PASS	C	5344605	C	C	5344605	3	2	151	1	0	0	0	0	1	0	0	0	11089	1464	51	5	19	5	OR51B2	11	5344605	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	1952309	5344605	129661911	254	53822										
OR52E8	390079	broad.mit.edu	37	chr11	5877992	5877992	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caactggttagtgattggtcTtgagaaaaatcctcagcact	9	8	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:5877992T>A	uc010qzr.1	-	1	941	c.941A>T	c.(940-942)AAG>ATG	p.K314M	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	314	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTGATTGGTCTTGAGAAAAAT	0.433													185	235	---	---	---	---	PASS	A	5877992	A	A	5877992	3	1	151	1	0	0	0	0	1	0	0	0	11118	1609	56	5	14	5	OR52E8	11	5877992	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	533387	5877992	129128524	255	53823										
OR52B2	255725	broad.mit.edu	37	chr11	6190650	6190650	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaaccggtgggctacaccctCacgtatctgcttagtcttca	9	13	4	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:6190650C>T	uc010qzy.1	-	1	907	c.907G>A	c.(907-909)GAG>AAG	p.E303K		NM_001004052	NP_001004052	Q96RD2	O52B2_HUMAN	olfactory receptor, family 52, subfamily B,	303	Cytoplasmic (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;3.69e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCTACACCCTCACGTATCTGC	0.488													71	83	---	---	---	---	PASS	T	6190650	T	T	6190650	3	4	151	1	0	0	0	0	1	0	0	0	11111	835	29	2	67	2	OR52B2	11	6190650	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	312658	6190650	128815866	256	53824										
PPFIBP2	8495	broad.mit.edu	37	chr11	7672958	7672958	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cccccacaaaagacgctcctCaggcgccacctgaccaccaa	6	20	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:7672958C>T	uc001mfj.3	+	23	2707	c.2319C>T	c.(2317-2319)CTC>CTT	p.L773L	PPFIBP2_uc010rbb.1_Silent_p.L696L|PPFIBP2_uc001mfk.1_Intron|PPFIBP2_uc010rbc.1_Silent_p.L707L|PPFIBP2_uc010rbe.1_Silent_p.L661L|PPFIBP2_uc001mfl.3_Silent_p.L630L|PPFIBP2_uc009yfj.1_Silent_p.L417L	NM_003621	NP_003612	Q8ND30	LIPB2_HUMAN	PTPRF interacting protein, binding protein 2	773	SAM 3.				cell communication|DNA integration	intracellular	DNA binding|integrase activity|protein binding			ovary(2)|breast(2)	4				Epithelial(150;2.01e-07)|BRCA - Breast invasive adenocarcinoma(625;0.236)		AGACGCTCCTCAGGCGCCACC	0.562													86	102	---	---	---	---	PASS	T	7672958	T	T	7672958	2	4	151	1	0	0	0	0	0	0	0	1	12314	813	29	2		2	PPFIBP2	11	7672958	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	1482308	7672958	127333558	257	53825										
EIF3F	8665	broad.mit.edu	37	chr11	8016065	8016065	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cgacactgaacgcatcggagGtgagtaacctttccatacac	9	12	0	2	rs113494623		TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:8016065G>T	uc001mfw.2	+	5	778	c.745_splice	c.e5+1	p.V249_splice	EIF3F_uc010rbj.1_Splice_Site_p.V100_splice	NM_003754	NP_003745	O00303	EIF3F_HUMAN	eukaryotic translation initiation factor 3,							cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(1)	1				Epithelial(150;1.44e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CGCATCGGAGGTGAGTAACCT	0.537													26	35	---	---	---	---	PASS	T	8016065	T	T	8016065	5	4	151	1	0	0	0	0	0	0	1	0	5016	1275	44	3	764	3	EIF3F	11	8016065	Splice_Site	SNP	G	TCGA-66-2766-01A-01D-1522-08	343107	8016065	126990451	258	53826										
TTC17	55761	broad.mit.edu	37	chr11	43429001	43429001	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcctgtcttcagagggctttGaatttagctccacttcaata	8	10	3	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:43429001G>C	uc001mxi.2	+	15	1952	c.1938G>C	c.(1936-1938)TTG>TTC	p.L646F	TTC17_uc001mxh.2_Missense_Mutation_p.L646F|TTC17_uc010rfj.1_Missense_Mutation_p.L589F|TTC17_uc001mxj.2_Missense_Mutation_p.L416F	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	646	TPR 2.						binding			ovary(5)	5						AGAGGGCTTTGAATTTAGCTC	0.438													33	170	---	---	---	---	PASS	C	43429001	C	C	43429001	3	2	151	1	0	0	0	0	1	0	0	0	16681	1281	45	2	1996	2	TTC17	11	43429001	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	35412936	43429001	91577515	259	53827										
ARHGAP1	392	broad.mit.edu	37	chr11	46717598	46717598	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaggccagcttcagctggttCagagcctcgctggtgtcatc	13	12	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:46717598C>G	uc001ndd.2	-	2	129	c.60G>C	c.(58-60)CTG>CTC	p.L20L	ARHGAP1_uc009yle.1_Silent_p.L20L|ARHGAP1_uc009ylf.1_Silent_p.L20L	NM_004308	NP_004299	Q07960	RHG01_HUMAN	Rho GTPase activating protein 1	20					Rho protein signal transduction	cytosol|intracellular membrane-bounded organelle	SH3 domain binding|SH3/SH2 adaptor activity			skin(1)	1		Lung NSC(402;1.76e-12)|all_lung(304;1.3e-11)		GBM - Glioblastoma multiforme(35;5.17e-06)|BRCA - Breast invasive adenocarcinoma(625;0.00112)|Lung(87;0.153)		TCAGCTGGTTCAGAGCCTCGC	0.577													23	31	---	---	---	---	PASS	G	46717598	G	G	46717598	2	3	151	1	0	0	0	0	0	0	0	1	861	813	29	2		2	ARHGAP1	11	46717598	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	3288597	46717598	88288918	260	53828										
OR4A15	81328	broad.mit.edu	37	chr11	55135615	55135615	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccagccagtccctgggttccCccatgtacttttttctggct	8	15	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:55135615C>T	uc010rif.1	+	1	256	c.256C>T	c.(256-258)CCC>TCC	p.P86S		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	86	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CCTGGGTTCCCCCATGTACTT	0.408													124	128	---	---	---	---	PASS	T	55135615	T	T	55135615	3	4	151	1	0	0	0	0	1	0	0	0	11040	623	22	3	258	3	OR4A15	11	55135615	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	8418017	55135615	79870901	261	53829										
OR5R1	219479	broad.mit.edu	37	chr11	56184900	56184900	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atacagaagccatcttgtctGtgtccaaggagtgatttgat	10	7	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:56184900G>T	uc010rji.1	-	1	809	c.809C>A	c.(808-810)ACA>AAA	p.T270K		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	270	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CATCTTGTCTGTGTCCAAGGA	0.423													149	154	---	---	---	---	PASS	T	56184900	T	T	56184900	3	4	151	1	0	0	0	0	1	0	0	0	11180	1377	48	3	167	3	OR5R1	11	56184900	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1049285	56184900	78821616	262	53830										
OR1S1	219959	broad.mit.edu	37	chr11	57982280	57982280	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atcaaggaaaccaaaccaccAtcactgaattcattctcctg	4	13	4	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:57982280A>G	uc010rkc.1	+	1	64	c.64A>G	c.(64-66)ATC>GTC	p.I22V		NM_001004458	NP_001004458	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Breast(21;0.0589)				CCAAACCACCATCACTGAATT	0.403													140	126	---	---	---	---	PASS	G	57982280	G	G	57982280	3	3	151	1	0	0	0	0	1	0	0	0	10972	217	8	5	66	5	OR1S1	11	57982280	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	1797380	57982280	77024236	263	53831										
OR5B2	390190	broad.mit.edu	37	chr11	58190240	58190240	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	accagattggatttacagaaAgagagactgaatatgccccc	9	9	0	5			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:58190240A>C	uc010rkg.1	-	1	495	c.495T>G	c.(493-495)TCT>TCG	p.S165S		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				ATTTACAGAAAGAGAGACTGA	0.473													9	73	---	---	---	---	PASS	C	58190240	C	C	58190240	2	2	151	1	0	0	0	0	0	0	0	1	11150	59	3	5		5	OR5B2	11	58190240	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08	207960	58190240	76816276	264	53832										
OR5A1	219982	broad.mit.edu	37	chr11	59210735	59210735	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aactccaggccctcctctttGtgaccttcctgggcatctat	7	15	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:59210735G>C	uc001nnx.1	+	1	94	c.94G>C	c.(94-96)GTG>CTG	p.V32L		NM_001004728	NP_001004728	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2						CCTCCTCTTTGTGACCTTCCT	0.522													66	175	---	---	---	---	PASS	C	59210735	C	C	59210735	3	2	151	1	0	0	0	0	1	0	0	0	11139	1377	48	4	96	4	OR5A1	11	59210735	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1020495	59210735	75795781	265	53833										
PATL1	219988	broad.mit.edu	37	chr11	59410359	59410359	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aagggcaagatcaccttgttCtggagcacagcagtgaggtg	14	8	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:59410359C>T	uc001noe.3	-	16	2186	c.2043G>A	c.(2041-2043)CAG>CAA	p.Q681Q	PATL1_uc009yms.1_Silent_p.Q651Q	NM_152716	NP_689929	Q86TB9	PATL1_HUMAN	protein associated with topoisomerase II homolog	681	Region C.				cytoplasmic mRNA processing body assembly|deadenylation-dependent decapping of nuclear-transcribed mRNA	cytoplasmic mRNA processing body	protein binding|RNA binding			ovary(1)	1						TCACCTTGTTCTGGAGCACAG	0.438													101	271	---	---	---	---	PASS	T	59410359	T	T	59410359	2	4	151	1	0	0	0	0	0	0	0	1	11475	912	32	2		2	PATL1	11	59410359	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	199624	59410359	75596157	266	53834										
TCN1	6947	broad.mit.edu	37	chr11	59631459	59631459	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tggattccaacaagtttgagGgacaacacaacattgacagc	9	9	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:59631459G>T	uc001noj.2	-	2	278	c.180C>A	c.(178-180)TCC>TCA	p.S60S		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	60					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CAAGTTTGAGGGACAACACAA	0.398													206	231	---	---	---	---	PASS	T	59631459	T	T	59631459	2	4	151	1	0	0	0	0	0	0	0	1	15703	1219	43	3		3	TCN1	11	59631459	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	221100	59631459	75375057	267	53835										
C11orf9	745	broad.mit.edu	37	chr11	61548730	61548730	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	taccaaccctaccactggtcCtagtcttggccccagcttta	6	16	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:61548730C>T	uc001nsc.1	+	21	2789	c.2693C>T	c.(2692-2694)CCT>CTT	p.P898L	C11orf9_uc001nse.1_Missense_Mutation_p.P863L|C11orf9_uc010rll.1_Missense_Mutation_p.P289L	NM_001127392	NP_001120864	Q9Y2G1	MRF_HUMAN	myelin gene regulatory factor isoform 2	898					central nervous system myelination|positive regulation of myelination|positive regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						accactggtcctagtcttggc	0.358													75	62	---	---	---	---	PASS	T	61548730	T	T	61548730	3	4	151	1	0	0	0	0	1	0	0	0	1671	681	24	3	2801	3	C11orf9	11	61548730	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1917271	61548730	73457786	268	53836										
AHNAK	79026	broad.mit.edu	37	chr11	62294756	62294756	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgggagctttaaagtgcataTctggcatcttgaacttagga	11	6	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:62294756T>A	uc001ntl.2	-	5	7433	c.7133A>T	c.(7132-7134)GAT>GTT	p.D2378V	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2378					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				AAAGTGCATATCTGGCATCTT	0.453													245	210	---	---	---	---	PASS	A	62294756	A	A	62294756	3	1	151	1	0	0	0	0	1	0	0	0	414	1435	50	5	10659	5	AHNAK	11	62294756	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	746026	62294756	72711760	269	53837										
INTS5	80789	broad.mit.edu	37	chr11	62415255	62415255	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcacttcctgctgatttcgtGactggacaaacttgggtggc	11	10	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:62415255G>T	uc001nud.2	-	2	2350	c.2297C>A	c.(2296-2298)TCA>TAA	p.S766*	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	766					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						CTGATTTCGTGACTGGACAAA	0.572													35	96	---	---	---	---	PASS	T	62415255	T	T	62415255	4	4	151	1	0	0	0	0	0	1	0	0	7781	1294	45	2	766	2	INTS5	11	62415255	Nonsense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	120499	62415255	72591261	270	53838										
ZBTB3	79842	broad.mit.edu	37	chr11	62521022	62521022	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcaggaggccagcacagcccGatgggccaagaactgggtac	15	12	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:62521022G>C	uc001nuz.2	-	2	387	c.265C>G	c.(265-267)CGG>GGG	p.R89G		NM_024784	NP_079060	Q9H5J0	ZBTB3_HUMAN	zinc finger and BTB domain containing 3	89	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3						AGCACAGCCCGATGGGCCAAG	0.557													43	31	---	---	---	---	PASS	C	62521022	C	C	62521022	3	2	151	1	0	0	0	0	1	0	0	0	17531	1057	37	2	1463	2	ZBTB3	11	62521022	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	105767	62521022	72485494	271	53839										
KCNK4	50801	broad.mit.edu	37	chr11	64065659	64065659	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgctcggcctggcttacttcGcctcagtgctcaccaccatc	8	17	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:64065659G>A	uc001nzj.1	+	6	1062	c.739G>A	c.(739-741)GCC>ACC	p.A247T	KCNK4_uc001nzk.1_Missense_Mutation_p.R131H|KCNK4_uc010rnk.1_Missense_Mutation_p.A75T|KCNK4_uc001nzl.1_Missense_Mutation_p.R131H|KCNK4_uc001nzm.3_RNA|KCNK4_uc001nzn.1_Missense_Mutation_p.A247T|KCNK4_uc001nzo.2_Missense_Mutation_p.A247T|KCNK4_uc001nzp.1_Missense_Mutation_p.A133T|C11orf20_uc009ypm.2_5'Flank	NM_033310	NP_201567	Q9NYG8	KCNK4_HUMAN	TRAAK	247	Helical; (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity				0						GGCTTACTTCGCCTCAGTGCT	0.662													29	19	---	---	---	---	PASS	A	64065659	A	A	64065659	3	1	151	1	0	0	0	0	1	0	0	0	8068	1087	38	1	757	1	KCNK4	11	64065659	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1544637	64065659	70940857	272	53840										
SLC22A11	55867	broad.mit.edu	37	chr11	64326618	64326618	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctcttgcagtgggacctggtGtgcagctcccagggcttgaa	14	11	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:64326618G>A	uc001oai.2	+	2	779	c.405G>A	c.(403-405)GTG>GTA	p.V135V	SLC22A11_uc001oah.1_Intron|SLC22A11_uc001oaj.2_Silent_p.V135V|SLC22A11_uc009ypq.2_Silent_p.V135V|SLC22A11_uc001oak.1_5'Flank	NM_018484	NP_060954	Q9NSA0	S22AB_HUMAN	solute carrier family 22 member 11	135	Extracellular (Potential).				urate metabolic process	apical plasma membrane|external side of plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium-independent organic anion transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2					Probenecid(DB01032)	GGGACCTGGTGTGCAGCTCCC	0.632													48	133	---	---	---	---	PASS	A	64326618	A	A	64326618	2	1	151	1	0	0	0	0	0	0	0	1	14442	1364	48	3		3	SLC22A11	11	64326618	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	260959	64326618	70679898	273	53841										
CFL1	1072	broad.mit.edu	37	chr11	65622856	65622856	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cggcactgccccccagcttcTctgccagggtgcagcggtcc	12	18	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:65622856T>A	uc001ofs.2	-	4	686	c.452A>T	c.(451-453)GAG>GTG	p.E151V	CFL1_uc001oft.2_Missense_Mutation_p.E151V|CFL1_uc001ofu.2_3'UTR	NM_005507	NP_005498	P23528	COF1_HUMAN	cofilin 1 (non-muscle)	151	ADF-H.				actin cytoskeleton organization|anti-apoptosis|axon guidance|platelet activation|platelet degranulation|response to virus|Rho protein signal transduction	cytoplasm|cytoskeleton|nuclear matrix	actin binding				0				READ - Rectum adenocarcinoma(159;0.169)		CCCCAGCTTCTCTGCCAGGGT	0.592													47	41	---	---	---	---	PASS	A	65622856	A	A	65622856	3	1	151	1	0	0	0	0	1	0	0	0	3290	1551	54	5	52	5	CFL1	11	65622856	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	1296238	65622856	69383660	274	53842										
CD248	57124	broad.mit.edu	37	chr11	66082624	66082624	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggtgaggtctggttagtgggGctctgagagggcaggagggt	22	4	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:66082624G>A	uc001ohm.1	-	1	1892	c.1875C>T	c.(1873-1875)AGC>AGT	p.S625S		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	625	Pro-rich.|Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	GGTTAGTGGGGCTCTGAGAGG	0.632													72	49	---	---	---	---	PASS	A	66082624	A	A	66082624	2	1	151	1	0	0	0	0	0	0	0	1	2989	1194	42	3		3	CD248	11	66082624	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	459768	66082624	68923892	275	53843										
CHKA	1119	broad.mit.edu	37	chr11	67842266	67842266	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tctctgcgagaatggcaaacAtaacgctctccagaaccatg	8	12	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:67842266A>G	uc001onj.2	-	4	762	c.548T>C	c.(547-549)ATG>ACG	p.M183T	CHKA_uc001onk.2_Missense_Mutation_p.M165T	NM_001277	NP_001268	P35790	CHKA_HUMAN	choline kinase alpha isoform a	183					lipid transport|phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|choline kinase activity|drug binding|ethanolamine kinase activity|signal transducer activity			ovary(1)|central_nervous_system(1)	2					Choline(DB00122)	AATGGCAAACATAACGCTCTC	0.393													33	89	---	---	---	---	PASS	G	67842266	G	G	67842266	3	3	151	1	0	0	0	0	1	0	0	0	3347	217	8	5	861	5	CHKA	11	67842266	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	1759642	67842266	67164250	276	53844										
SHANK2	22941	broad.mit.edu	37	chr11	70319024	70319024	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttctatgttcattctgtgccCgactcgagttaccccaagat	7	12	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:70319024C>G	uc001oqc.2	-	22	5578	c.5500G>C	c.(5500-5502)GGG>CGG	p.G1834R	SHANK2_uc010rqn.1_Missense_Mutation_p.G1246R|SHANK2_uc001opz.2_Missense_Mutation_p.G1239R|uc009ysn.1_5'UTR|SHANK2_uc001opy.2_Missense_Mutation_p.G170R	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	1455	SAM.				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)			ATTCTGTGCCCGACTCGAGTT	0.498													180	158	---	---	---	---	PASS	G	70319024	G	G	70319024	3	3	151	1	0	0	0	0	1	0	0	0	14265	652	23	4	53	4	SHANK2	11	70319024	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	2476758	70319024	64687492	277	53845										
C11orf30	56946	broad.mit.edu	37	chr11	76253386	76253386	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	catcccagcatcttcccctgGagcaatcacccacattatgc	5	17	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:76253386G>C	uc001oxl.2	+	18	2827	c.2684G>C	c.(2683-2685)GGA>GCA	p.G895A	C11orf30_uc001oxm.2_Missense_Mutation_p.G797A|C11orf30_uc010rsb.1_Missense_Mutation_p.G910A|C11orf30_uc010rsc.1_Missense_Mutation_p.G896A|C11orf30_uc001oxn.2_Missense_Mutation_p.G896A|C11orf30_uc010rsd.1_Missense_Mutation_p.G804A|C11orf30_uc001oxo.1_Missense_Mutation_p.G249A|C11orf30_uc010rse.1_Missense_Mutation_p.G142A|C11orf30_uc001oxp.2_5'UTR	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	895					chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						TCTTCCCCTGGAGCAATCACC	0.507													123	491	---	---	---	---	PASS	C	76253386	C	C	76253386	3	2	151	1	0	0	0	0	1	0	0	0	1636	1174	41	2	2750	2	C11orf30	11	76253386	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	5934362	76253386	58753130	278	53846										
ODZ4	26011	broad.mit.edu	37	chr11	78369701	78369701	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggccatccttcaaggcaaacTtgacccccttgccaaagact	7	15	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:78369701T>G	uc001ozl.3	-	34	8175	c.7712A>C	c.(7711-7713)AAG>ACG	p.K2571T	ODZ4_uc001ozk.3_Missense_Mutation_p.K796T|ODZ4_uc009yvb.1_Intron	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2571	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CAAGGCAAACTTGACCCCCTT	0.547													17	34	---	---	---	---	PASS	G	78369701	G	G	78369701	3	3	151	1	0	0	0	0	1	0	0	0	10837	1609	56	5	601	5	ODZ4	11	78369701	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	2116315	78369701	56636815	279	53847										
GRM5	2915	broad.mit.edu	37	chr11	88780705	88780705	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaaatgagggaatctcttatGaactcaatgctctgctctag	9	8	4	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:88780705G>C	uc001pcq.2	-	1	536	c.336C>G	c.(334-336)TTC>TTG	p.F112L	GRM5_uc009yvm.2_Missense_Mutation_p.F112L|GRM5_uc009yvn.1_Missense_Mutation_p.F112L	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	112	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	AATCTCTTATGAACTCAATGC	0.527													30	61	---	---	---	---	PASS	C	88780705	C	C	88780705	3	2	151	1	0	0	0	0	1	0	0	0	6800	1281	45	2	3338	2	GRM5	11	88780705	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	10411004	88780705	46225811	280	53848										
FAT3	120114	broad.mit.edu	37	chr11	92600239	92600239	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctgaataacaatgagctgccGctgcagaacaagcgcagcag	11	11	0	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:92600239G>T	uc001pdj.3	+	21	12008	c.11991G>T	c.(11989-11991)CCG>CCT	p.P3997P	FAT3_uc001pdi.3_Silent_p.P437P	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3997	Laminin G-like.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ATGAGCTGCCGCTGCAGAACA	0.642										TCGA Ovarian(4;0.039)			5	0	---	---	---	---	PASS	T	92600239	T	T	92600239	2	4	151	1	0	0	0	0	0	0	0	1	5691	1074	38	1		1	FAT3	11	92600239	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	3819534	92600239	42406277	281	53849										
GPR83	10888	broad.mit.edu	37	chr11	94113341	94113341	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	catcgtcacaatgggttccaCagatgacaggtctgtcttcc	9	12	3	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:94113341C>A	uc001pet.2	-	4	1418	c.1246G>T	c.(1246-1248)GTG>TTG	p.V416L		NM_016540	NP_057624	Q9NYM4	GPR83_HUMAN	G protein-coupled receptor 83 precursor	416	Cytoplasmic (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			central_nervous_system(2)|ovary(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				ATGGGTTCCACAGATGACAGG	0.557													45	20	---	---	---	---	PASS	A	94113341	A	A	94113341	3	1	151	1	0	0	0	0	1	0	0	0	6713	478	17	3	29	3	GPR83	11	94113341	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1513102	94113341	40893175	282	53850										
CWC15	51503	broad.mit.edu	37	chr11	94705278	94705278	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaatactgctttgaaagttgGctcaaatcaccttctccttt	6	10	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:94705278G>T	uc001pfd.3	-	2	195	c.72C>A	c.(70-72)AGC>AGA	p.S24R	CWC15_uc009ywl.1_Missense_Mutation_p.S24R|KDM4D_uc001pfe.2_5'Flank	NM_016403	NP_057487	Q9P013	CWC15_HUMAN	CWC15 homolog	24					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome	protein binding|RNA binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TTGAAAGTTGGCTCAAATCAC	0.388													5	228	---	---	---	---	PASS	T	94705278	T	T	94705278	3	4	151	1	0	0	0	0	1	0	0	0	4067	1194	42	3	640	3	CWC15	11	94705278	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	591937	94705278	40301238	283	53851										
CNTN5	53942	broad.mit.edu	37	chr11	99941169	99941169	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cttacagcctacccacactgGgtagaaaaactgaatgatac	7	11	0	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:99941169G>T	uc001pga.2	+	11	1515	c.1176G>T	c.(1174-1176)TGG>TGT	p.W392C	CNTN5_uc009ywv.1_Missense_Mutation_p.W392C|CNTN5_uc001pfz.2_Missense_Mutation_p.W392C|CNTN5_uc001pgb.2_Missense_Mutation_p.W318C	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	392	Ig-like C2-type 4.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		ACCCACACTGGGTAGAAAAAC	0.413													24	14	---	---	---	---	PASS	T	99941169	T	T	99941169	3	4	151	1	0	0	0	0	1	0	0	0	3644	1241	43	3	1210	3	CNTN5	11	99941169	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	5235891	99941169	35065347	284	53852										
CARD18	59082	broad.mit.edu	37	chr11	105009724	105009724	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggctaataacttcatcctctAataggcaatccagcaaggca	7	11	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:105009724A>T	uc001pis.2	-	1	89	c.83T>A	c.(82-84)TTA>TAA	p.L28*		NM_021571	NP_067546	P57730	CAR18_HUMAN	ICEBERG caspase-1 inhibitor	30	CARD.				inflammatory response|regulation of apoptosis	intracellular	cysteine-type endopeptidase inhibitor activity			ovary(1)|central_nervous_system(1)	2						TTCATCCTCTAATAGGCAATC	0.408													114	40	---	---	---	---	PASS	T	105009724	T	T	105009724	4	4	151	1	0	0	0	0	0	1	0	0	2649	372	13	5	187	5	CARD18	11	105009724	Nonsense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	5068555	105009724	29996792	285	53853										
DSCAML1	57453	broad.mit.edu	37	chr11	117342716	117342716	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggcctggttgatggtgggggAgatgttgcgtgtggactgct	20	5	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr11:117342716A>T	uc001prh.1	-	15	3003	c.3001T>A	c.(3001-3003)TCC>ACC	p.S1001T		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	941	Extracellular (Potential).|Fibronectin type-III 1.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		ATGGTGGGGGAGATGTTGCGT	0.537													32	72	---	---	---	---	PASS	T	117342716	T	T	117342716	3	4	151	1	0	0	0	0	1	0	0	0	4769	304	11	5	3416	5	DSCAML1	11	117342716	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	12332992	117342716	17663800	286	53854										
RERGL	79785	broad.mit.edu	37	chr12	18242192	18242192	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cagaaacagatttctcattaTatttgagatgcaagaagttt	7	5	1	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:18242192T>C	uc001rdq.2	-	2	220	c.26A>G	c.(25-27)TAT>TGT	p.Y9C	RERGL_uc001rdr.2_Intron	NM_024730	NP_079006	Q9H628	RERGL_HUMAN	RERG/RAS-like	9	Small GTPase-like.				signal transduction	membrane	GTP binding|GTPase activity				0						TTTCTCATTATATTTGAGATG	0.338													55	47	---	---	---	---	PASS	C	18242192	C	C	18242192	3	2	151	1	0	0	0	0	1	0	0	0	13233	1406	49	5	611	5	RERGL	12	18242192	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08		18242192	115609703	287	53855										
C12orf39	80763	broad.mit.edu	37	chr12	21681971	21681971	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tccccaactactaactattcCggaggcagcaaccatcttac	5	15	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:21681971C>T	uc001rfa.1	+	5	396	c.245C>T	c.(244-246)CCG>CTG	p.P82L	C12orf39_uc009ziv.1_RNA|C12orf39_uc009ziw.1_RNA	NM_030572	NP_085049	Q9BT56	SPXN_HUMAN	spexin precursor	82						extracellular region|nucleus|transport vesicle					0						CTAACTATTCCGGAGGCAGCA	0.408													201	163	---	---	---	---	PASS	T	21681971	T	T	21681971	3	4	151	1	0	0	0	0	1	0	0	0	1684	652	23	1	263	1	C12orf39	12	21681971	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	3439779	21681971	112169924	288	53856										
SOX5	6660	broad.mit.edu	37	chr12	23818453	23818453	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgcagccagtgtccgttgatCaggagggaatacgggaatca	14	8	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:23818453C>T	uc001rfw.2	-	7	958	c.856G>A	c.(856-858)GAT>AAT	p.D286N	SOX5_uc001rfx.2_Missense_Mutation_p.D273N|SOX5_uc001rfy.2_Missense_Mutation_p.D273N|SOX5_uc010siv.1_Missense_Mutation_p.D273N|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.D238N	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	286					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						GTCCGTTGATCAGGAGGGAAT	0.493													54	144	---	---	---	---	PASS	T	23818453	T	T	23818453	3	4	151	1	0	0	0	0	1	0	0	0	14954	826	29	2	1481	2	SOX5	12	23818453	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	2136482	23818453	110033442	289	53857										
PKP2	5318	broad.mit.edu	37	chr12	33030864	33030864	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cctggccgacagtcaagtgcGctctcctcccgctggaatcc	10	17	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:33030864G>A	uc001rlj.3	-	3	1065	c.950C>T	c.(949-951)GCG>GTG	p.A317V	PKP2_uc001rlk.3_Missense_Mutation_p.A317V|PKP2_uc010skj.1_Missense_Mutation_p.A317V	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	317					cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					AGTCAAGTGCGCTCTCCTCCC	0.637													37	36	---	---	---	---	PASS	A	33030864	A	A	33030864	3	1	151	1	0	0	0	0	1	0	0	0	11985	1087	38	1	1743	1	PKP2	12	33030864	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	9212411	33030864	100821031	290	53858										
ABCD2	225	broad.mit.edu	37	chr12	39947905	39947905	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcgccaacctccttcaccatCaaactgtaataaatgtgtgt	6	12	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:39947905C>A	uc001rmb.2	-	10	2458	c.2032G>T	c.(2032-2034)GAT>TAT	p.D678Y		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	678	ABC transporter.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						CCTTCACCATCAAACTGTAAT	0.328													89	77	---	---	---	---	PASS	A	39947905	A	A	39947905	3	1	151	1	0	0	0	0	1	0	0	0	61	826	29	2	194	2	ABCD2	12	39947905	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	6917041	39947905	93903990	291	53859										
ACVRL1	94	broad.mit.edu	37	chr12	52306925	52306925	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gggcccgctggtgacctgcaCgtgtgagagcccacattgca	14	13	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:52306925C>A	uc001rzj.2	+	3	387	c.104C>A	c.(103-105)ACG>AAG	p.T35K	ACVRL1_uc001rzk.2_Missense_Mutation_p.T35K|ACVRL1_uc010snm.1_Intron	NM_000020	NP_000011	P37023	ACVL1_HUMAN	activin A receptor type II-like 1 precursor	35	Extracellular (Potential).				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|blood vessel maturation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of endothelial cell migration|negative regulation of focal adhesion assembly|positive regulation of BMP signaling pathway|positive regulation of transcription, DNA-dependent|regulation of blood pressure|regulation of blood vessel endothelial cell migration|regulation of DNA replication|regulation of endothelial cell proliferation|transforming growth factor beta receptor signaling pathway|wound healing, spreading of epidermal cells	cell surface|integral to plasma membrane	activin binding|activin receptor activity, type I|ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0991)	Adenosine triphosphate(DB00171)	GTGACCTGCACGTGTGAGAGC	0.687									Hereditary_Hemorrhagic_Telangiectasia				13	9	---	---	---	---	PASS	A	52306925	A	A	52306925	3	1	151	1	0	0	0	0	1	0	0	0	225	536	19	1	110	1	ACVRL1	12	52306925	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	12359020	52306925	81544970	292	53860										
DNAJC14	85406	broad.mit.edu	37	chr12	56221176	56221176	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agccacttcctcttcaggctGgcagtagcgcccactagcta	9	15	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:56221176G>T	uc001shx.1	-	2	1471	c.1267C>A	c.(1267-1269)CAG>AAG	p.Q423K	DNAJC14_uc001shu.1_Missense_Mutation_p.Q423K|DNAJC14_uc009zob.1_Missense_Mutation_p.Q423K|DNAJC14_uc001shy.1_Missense_Mutation_p.Q423K	NM_032364	NP_115740	Q6Y2X3	DJC14_HUMAN	dopamine receptor interacting protein	423					protein folding|protein transport	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|unfolded protein binding			ovary(3)|large_intestine(1)	4						TCTTCAGGCTGGCAGTAGCGC	0.542													54	247	---	---	---	---	PASS	T	56221176	T	T	56221176	3	4	151	1	0	0	0	0	1	0	0	0	4633	1357	47	3	865	3	DNAJC14	12	56221176	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	3914251	56221176	77630719	293	53861										
SLC16A7	9194	broad.mit.edu	37	chr12	60169162	60169162	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agtgttctctttgaaactctCatggacctcgtgggtgcacc	10	11	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:60169162C>T	uc001sqs.2	+	5	1385	c.1086C>T	c.(1084-1086)CTC>CTT	p.L362L	SLC16A7_uc001sqt.2_Silent_p.L362L|SLC16A7_uc001squ.2_Silent_p.L362L|SLC16A7_uc009zqi.2_Silent_p.L263L|SLC16A7_uc010ssi.1_Silent_p.L263L	NM_004731	NP_004722	O60669	MOT2_HUMAN	solute carrier family 16, member 7	362	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	pyruvate secondary active transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(3;0.0303)	Pyruvic acid(DB00119)	TTGAAACTCTCATGGACCTCG	0.493													104	381	---	---	---	---	PASS	T	60169162	T	T	60169162	2	4	151	1	0	0	0	0	0	0	0	1	14413	813	29	2		2	SLC16A7	12	60169162	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	3947986	60169162	73682733	294	53862										
FAM19A2	338811	broad.mit.edu	37	chr12	62148671	62148671	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	accatccacacatgatggagCagctcgcgtggtgcctgcca	11	14	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:62148671C>A	uc001sqw.2	-	3	1754	c.241G>T	c.(241-243)GCT>TCT	p.A81S	FAM19A2_uc001sqv.2_RNA|FAM19A2_uc001sqx.2_Missense_Mutation_p.A81S|FAM19A2_uc001sqy.2_RNA	NM_178539	NP_848634	Q8N3H0	F19A2_HUMAN	family with sequence similarity 19 (chemokine	81						cytoplasm				ovary(1)	1			GBM - Glioblastoma multiforme(1;0.00484)	GBM - Glioblastoma multiforme(3;0.02)		CATGATGGAGCAGCTCGCGTG	0.498													57	88	---	---	---	---	PASS	A	62148671	A	A	62148671	3	1	151	1	0	0	0	0	1	0	0	0	5532	710	25	3	166	3	FAM19A2	12	62148671	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1979509	62148671	71703224	295	53863										
TRHDE	29953	broad.mit.edu	37	chr12	72667238	72667238	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gctgaataggacactggacgCgcagaggaattacaatctga	12	8	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:72667238C>G	uc001sxa.2	+	1	710	c.680C>G	c.(679-681)GCG>GGG	p.A227G	LOC283392_uc010stv.1_5'UTR	NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	227	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						ACACTGGACGCGCAGAGGAAT	0.567													51	99	---	---	---	---	PASS	G	72667238	G	G	72667238	3	3	151	1	0	0	0	0	1	0	0	0	16476	768	27	4	682	4	TRHDE	12	72667238	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	10518567	72667238	61184657	296	53864										
ZDHHC17	23390	broad.mit.edu	37	chr12	77191305	77191305	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttacagcacatgggacatagTcaaggctacacagtaaggtt	10	8	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:77191305T>C	uc001syk.1	+	2	348	c.185T>C	c.(184-186)GTC>GCC	p.V62A	ZDHHC17_uc001syi.1_RNA|ZDHHC17_uc001syj.2_Intron	NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	62	Cytoplasmic (Potential).				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						TGGGACATAGTCAAGGCTACA	0.353													15	32	---	---	---	---	PASS	C	77191305	C	C	77191305	3	2	151	1	0	0	0	0	1	0	0	0	17604	1667	58	5	191	5	ZDHHC17	12	77191305	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	4524067	77191305	56660590	297	53865										
ZDHHC17	23390	broad.mit.edu	37	chr12	77239565	77239565	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atttgatcatcattgcccatGggtgggtaactgtgtaggta	12	6	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:77239565G>T	uc001syk.1	+	13	1569	c.1406G>T	c.(1405-1407)TGG>TTG	p.W469L		NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	469	Cytoplasmic (Potential).|DHHC-type.				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						CATTGCCCATGGGTGGGTAAC	0.348													129	40	---	---	---	---	PASS	T	77239565	T	T	77239565	3	4	151	1	0	0	0	0	1	0	0	0	17604	1357	47	3	1456	3	ZDHHC17	12	77239565	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	48260	77239565	56612330	298	53866										
ACSS3	79611	broad.mit.edu	37	chr12	81545798	81545798	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aggtgtggtgggcagcttctGacttaggctgggttgttgga	18	5	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:81545798G>A	uc001szl.1	+	7	1112	c.1021G>A	c.(1021-1023)GAC>AAC	p.D341N	ACSS3_uc001szm.1_Missense_Mutation_p.D340N|ACSS3_uc001szn.1_Missense_Mutation_p.D23N	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	341						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GGCAGCTTCTGACTTAGGCTG	0.328													43	68	---	---	---	---	PASS	A	81545798	A	A	81545798	3	1	151	1	0	0	0	0	1	0	0	0	190	1290	45	2	1047	2	ACSS3	12	81545798	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	4306233	81545798	52306097	299	53867										
RASSF9	9182	broad.mit.edu	37	chr12	86199727	86199727	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cttctcttctgaatccatgtCtttagttggagatctgaaag	8	8	4	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:86199727C>A	uc001taf.1	-	2	400	c.61G>T	c.(61-63)GAC>TAC	p.D21Y		NM_005447	NP_005438	O75901	RASF9_HUMAN	Ras association (RalGDS/AF-6) domain family	21					endosome transport|protein targeting|signal transduction	cytosol|endosome|trans-Golgi network transport vesicle membrane	protein binding|transporter activity			ovary(1)	1						GAATCCATGTCTTTAGTTGGA	0.393													67	21	---	---	---	---	PASS	A	86199727	A	A	86199727	3	1	151	1	0	0	0	0	1	0	0	0	13093	913	32	2	1250	2	RASSF9	12	86199727	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	4653929	86199727	47652168	300	53868										
MGAT4C	25834	broad.mit.edu	37	chr12	86373487	86373487	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tacagacttgcaggggggttAtcaggaatgtcaaatgactc	12	7	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:86373487A>T	uc001tai.3	-	8	2267	c.1017T>A	c.(1015-1017)GAT>GAA	p.D339E	MGAT4C_uc001tal.3_Missense_Mutation_p.D339E|MGAT4C_uc001taj.3_Missense_Mutation_p.D339E|MGAT4C_uc001tak.3_Missense_Mutation_p.D339E|MGAT4C_uc010sum.1_Missense_Mutation_p.D363E|MGAT4C_uc001tah.3_Missense_Mutation_p.D339E	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	339	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						CAGGGGGGTTATCAGGAATGT	0.413													83	30	---	---	---	---	PASS	T	86373487	T	T	86373487	3	4	151	1	0	0	0	0	1	0	0	0	9547	446	16	5	423	5	MGAT4C	12	86373487	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	173760	86373487	47478408	301	53869										
EEA1	8411	broad.mit.edu	37	chr12	93258714	93258714	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cagcttcataatgtttgaaaAgttcatcagcagatccaaga	7	8	3	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:93258714A>C	uc001tck.2	-	3	432	c.167T>G	c.(166-168)CTT>CGT	p.L56R		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	56	C2H2-type.				early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						ATGTTTGAAAAGTTCATCAGC	0.363													4	115	---	---	---	---	PASS	C	93258714	C	C	93258714	3	2	151	1	0	0	0	0	1	0	0	0	4921	72	3	5	4176	5	EEA1	12	93258714	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	6885227	93258714	40593181	302	53870										
APAF1	317	broad.mit.edu	37	chr12	99056574	99056574	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caagctcatagtattataaaAgaatgtaaaggtatggttat	8	3	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:99056574A>T	uc001tfz.2	+	7	1522	c.945A>T	c.(943-945)AAA>AAT	p.K315N	APAF1_uc001tfy.2_Missense_Mutation_p.K304N|APAF1_uc001tga.2_Missense_Mutation_p.K304N|APAF1_uc001tgb.2_Missense_Mutation_p.K315N|APAF1_uc001tgc.2_Missense_Mutation_p.K315N	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	315	NB-ARC.				activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	GTATTATAAAAGAATGTAAAG	0.299													49	16	---	---	---	---	PASS	T	99056574	T	T	99056574	3	4	151	1	0	0	0	0	1	0	0	0	755	69	3	5	967	5	APAF1	12	99056574	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	5797860	99056574	34795321	303	53871										
CHST11	50515	broad.mit.edu	37	chr12	105150991	105150991	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcccggccaacgaggcacacGtctccgccaacctgaagacc	9	18	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:105150991G>T	uc001tkx.1	+	4	760	c.469G>T	c.(469-471)GTC>TTC	p.V157F	CHST11_uc001tky.2_Missense_Mutation_p.V152F|uc001tkz.2_5'Flank	NM_018413	NP_060883	Q9NPF2	CHSTB_HUMAN	carbohydrate sulfotransferase 11	157	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 4-sulfotransferase activity|N-acetylgalactosamine 4-O-sulfotransferase activity				0						CGAGGCACACGTCTCCGCCAA	0.592													58	19	---	---	---	---	PASS	T	105150991	T	T	105150991	3	4	151	1	0	0	0	0	1	0	0	0	3399	1145	40	1	479	1	CHST11	12	105150991	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	6094417	105150991	28700904	304	53872										
APPL2	55198	broad.mit.edu	37	chr12	105589265	105589265	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atctgtctggagatgttgttTattgcacatatccactgtag	9	7	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:105589265T>C	uc001tlf.1	-	13	1328	c.1110A>G	c.(1108-1110)ATA>ATG	p.I370M	APPL2_uc010swt.1_Missense_Mutation_p.I327M|APPL2_uc001tlg.1_Missense_Mutation_p.I124M|APPL2_uc010swu.1_Missense_Mutation_p.I376M|APPL2_uc009zuq.2_Missense_Mutation_p.I327M	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH	370	Required for RAB5A binding (By similarity).|PH.				cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1						AGATGTTGTTTATTGCACATA	0.433													36	106	---	---	---	---	PASS	C	105589265	C	C	105589265	3	2	151	1	0	0	0	0	1	0	0	0	818	1744	61	5	920	5	APPL2	12	105589265	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	438274	105589265	28262630	305	53873										
BRAP	8315	broad.mit.edu	37	chr12	112082156	112082156	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agatggttgatcttctgctgTgtctccaggtagaacatgac	11	8	3	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:112082156T>A	uc001tsn.3	-	12	1820	c.1626A>T	c.(1624-1626)ACA>ACT	p.T542T	BRAP_uc010syh.1_Silent_p.T363T|BRAP_uc009zvv.2_Silent_p.T512T	NM_006768	NP_006759	Q7Z569	BRAP_HUMAN	BRCA1 associated protein	542					MAPKKK cascade|negative regulation of signal transduction|Ras protein signal transduction	cytoplasm|ubiquitin ligase complex	identical protein binding|nuclear localization sequence binding|nucleotide binding|ubiquitin-protein ligase activity|zinc ion binding			lung(1)	1						TCTTCTGCTGTGTCTCCAGGT	0.577													97	27	---	---	---	---	PASS	A	112082156	A	A	112082156	2	1	151	1	0	0	0	0	0	0	0	1	1497	1683	59	5		5	BRAP	12	112082156	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	6492891	112082156	21769739	306	53874										
ACADS	35	broad.mit.edu	37	chr12	121176366	121176366	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acatgggccgcatcggcatcGcctcccaggccctgggcatt	12	16	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:121176366G>C	uc001tza.3	+	7	944	c.826G>C	c.(826-828)GCC>CCC	p.A276P	ACADS_uc010szl.1_Missense_Mutation_p.A272P|ACADS_uc001tzb.3_Intron	NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	276						mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)	CATCGGCATCGCCTCCCAGGC	0.697													54	18	---	---	---	---	PASS	C	121176366	C	C	121176366	3	2	151	1	0	0	0	0	1	0	0	0	114	1087	38	4	852	4	ACADS	12	121176366	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	9094210	121176366	12675529	307	53875										
OGFOD2	79676	broad.mit.edu	37	chr12	123463026	123463026	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cgggtgcctgttttcacagcGcccttctgccaggccctgct	11	16	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr12:123463026G>T	uc001uea.1	+	5	462	c.441G>T	c.(439-441)GCG>GCT	p.A147A	OGFOD2_uc001uds.1_5'UTR|OGFOD2_uc001udt.1_5'UTR|OGFOD2_uc001udu.1_5'UTR|OGFOD2_uc001udv.1_5'UTR|OGFOD2_uc009zxs.1_5'UTR|OGFOD2_uc001udw.1_5'UTR|OGFOD2_uc001udx.1_5'UTR|OGFOD2_uc001udy.1_5'UTR|OGFOD2_uc001udz.1_Silent_p.A87A|OGFOD2_uc010tak.1_3'UTR|OGFOD2_uc001ueb.1_5'UTR|ARL6IP4_uc001uec.2_5'Flank|ARL6IP4_uc001ued.2_5'Flank|ARL6IP4_uc001uee.2_5'Flank|ARL6IP4_uc001uef.2_5'Flank|ARL6IP4_uc001ueg.2_5'Flank|ARL6IP4_uc009zxt.2_5'Flank|ARL6IP4_uc001ueh.2_5'Flank|ARL6IP4_uc001uei.2_5'Flank	NM_024623	NP_078899	Q6N063	OGFD2_HUMAN	2-oxoglutarate and iron-dependent oxygenase	147							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			pancreas(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.11e-05)|Epithelial(86;0.000127)|BRCA - Breast invasive adenocarcinoma(302;0.107)	Vitamin C(DB00126)	TTTTCACAGCGCCCTTCTGCC	0.502													74	16	---	---	---	---	PASS	T	123463026	T	T	123463026	2	4	151	1	0	0	0	0	0	0	0	1	10842	1074	38	1		1	OGFOD2	12	123463026	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	2286660	123463026	10388869	308	53876										
CDK8	1024	broad.mit.edu	37	chr13	26956958	26956958	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tttgtttccacagaaacctgCtaatattttagttatgggtg	8	6	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:26956958C>T	uc001uqr.1	+	5	490	c.464C>T	c.(463-465)GCT>GTT	p.A155V	CDK8_uc001uqs.1_Missense_Mutation_p.A155V|CDK8_uc001uqt.1_Intron	NM_001260	NP_001251	P49336	CDK8_HUMAN	cyclin-dependent kinase 8	155	Protein kinase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mediator complex	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|large_intestine(1)|ovary(1)|skin(1)	5	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0384)|Epithelial(112;0.142)|OV - Ovarian serous cystadenocarcinoma(117;0.188)		CAGAAACCTGCTAATATTTTA	0.313													85	40	---	---	---	---	PASS	T	26956958	T	T	26956958	3	4	151	1	0	0	0	0	1	0	0	0	3150	797	28	3	482	3	CDK8	13	26956958	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08		26956958	88212920	309	53877										
MTIF3	219402	broad.mit.edu	37	chr13	28014513	28014513	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cttttgcaggatgtgtttacCaaaacatctaatgcaactat	6	8	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:28014513C>A	uc001urh.2	-	1	1297	c.73G>T	c.(73-75)GGT>TGT	p.G25C	MTIF3_uc001uri.2_Missense_Mutation_p.G25C|MTIF3_uc001urj.2_Missense_Mutation_p.G25C|MTIF3_uc001urk.2_Missense_Mutation_p.G25C	NM_152912	NP_690876	Q9H2K0	IF3M_HUMAN	mitochondrial translational initiation factor 3	25					regulation of translational initiation|ribosome disassembly	mitochondrion	ribosomal small subunit binding|translation initiation factor activity			ovary(1)|skin(1)	2		Lung SC(185;0.0161)	Colorectal(13;0.00042)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.108)|OV - Ovarian serous cystadenocarcinoma(117;0.157)		ATGTGTTTACCAAAACATCTA	0.403													83	20	---	---	---	---	PASS	A	28014513	A	A	28014513	3	1	151	1	0	0	0	0	1	0	0	0	9935	594	21	3	775	3	MTIF3	13	28014513	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1057555	28014513	87155365	310	53878										
FLT3	2322	broad.mit.edu	37	chr13	28588631	28588631	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgacatcctaaaaacgaagtCaaattagggaaggatggccg	11	7	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:28588631C>A	uc001urw.2	-	23	2899	c.2817G>T	c.(2815-2817)TTG>TTT	p.L939F	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Missense_Mutation_p.L898F	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	939	Protein kinase.|Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	AAAACGAAGTCAAATTAGGGA	0.393			Mis|O		AML|ALL								134	20	---	---	---	---	PASS	A	28588631	A	A	28588631	3	1	151	1	0	0	0	0	1	0	0	0	5942	825	29	2	172	2	FLT3	13	28588631	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	574118	28588631	86581247	311	53879										
FRY	10129	broad.mit.edu	37	chr13	32813925	32813925	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tataaaacgcacagctacacGagggactgtgccacgtgggt	12	10	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:32813925G>A	uc001utx.2	+	46	7090	c.6594G>A	c.(6592-6594)ACG>ACA	p.T2198T	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2198					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		ACAGCTACACGAGGGACTGTG	0.398													58	56	---	---	---	---	PASS	A	32813925	A	A	32813925	2	1	151	1	0	0	0	0	0	0	0	1	6063	1045	37	2		2	FRY	13	32813925	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	4225294	32813925	82355953	312	53880										
POSTN	10631	broad.mit.edu	37	chr13	38138674	38138675	+	Frame_Shift_Ins	INS	-	T	T													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccttgaacttttttgttggcINSttgcaacttcctcacgggtg							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:38138674_38138675insT	uc001uwo.3	-	22	2572_2573	c.2454_2455insA	c.(2452-2457)CAAGCCfs	p.Q818fs	POSTN_uc010tet.1_Frame_Shift_Ins_p.Q319fs|POSTN_uc001uwp.3_Frame_Shift_Ins_p.Q761fs|POSTN_uc001uwr.2_Frame_Shift_Ins_p.Q763fs|POSTN_uc001uwq.2_Frame_Shift_Ins_p.Q733fs|POSTN_uc010teu.1_Frame_Shift_Ins_p.Q791fs|POSTN_uc010tev.1_Frame_Shift_Ins_p.Q731fs|POSTN_uc010tew.1_Frame_Shift_Ins_p.Q703fs	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	818_819					cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		TTTTTGTTGGCTTGCAACTTCC	0.342													59	118	---	---	---	---		T	38138675	T	T	38138674	7	5	151	1	0	1	1	0	0	0	0	0	12259	797	28	0	63	0	POSTN	13	38138674	Frame_Shift_Ins	INS	-	TCGA-66-2766-01A-01D-1522-08	5324749	38138674	77031204	313	53881										
TRPC4	7223	broad.mit.edu	37	chr13	38237841	38237841	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgggatgccacatgtcccatGattctcgtggattaagggca	12	9	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:38237841G>A	uc001uws.2	-	6	1635	c.1400C>T	c.(1399-1401)TCA>TTA	p.S467L	TRPC4_uc010abv.2_Missense_Mutation_p.S47L|TRPC4_uc001uwt.2_Missense_Mutation_p.S467L|TRPC4_uc010tey.1_Missense_Mutation_p.S467L|TRPC4_uc010abw.2_Missense_Mutation_p.S294L|TRPC4_uc010abx.2_Missense_Mutation_p.S467L|TRPC4_uc010aby.2_Missense_Mutation_p.S467L	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	467	Extracellular (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		CATGTCCCATGATTCTCGTGG	0.423													71	5	---	---	---	---	PASS	A	38237841	A	A	38237841	3	1	151	1	0	0	0	0	1	0	0	0	16577	1294	45	2	1572	2	TRPC4	13	38237841	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	99167	38237841	76932037	314	53882										
FREM2	341640	broad.mit.edu	37	chr13	39262581	39262581	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttctccattccagcctggccAgggctacttggtgagcaccg	11	14	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:39262581A>G	uc001uwv.2	+	1	1409	c.1100A>G	c.(1099-1101)CAG>CGG	p.Q367R		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	367	CSPG 1.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		CAGCCTGGCCAGGGCTACTTG	0.582													92	18	---	---	---	---	PASS	G	39262581	G	G	39262581	3	3	151	1	0	0	0	0	1	0	0	0	6045	188	7	5	1102	5	FREM2	13	39262581	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	1024740	39262581	75907297	315	53883										
PCDH17	27253	broad.mit.edu	37	chr13	58206787	58206787	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aggggccggcacggtgatcgGgaacatcggcagggatgctc	18	10	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:58206787G>T	uc001vhq.1	+	1	999	c.107G>T	c.(106-108)GGG>GTG	p.G36V	PCDH17_uc010aec.1_Missense_Mutation_p.G36V	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	36	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		ACGGTGATCGGGAACATCGGC	0.642													21	9	---	---	---	---	PASS	T	58206787	T	T	58206787	3	4	151	1	0	0	0	0	1	0	0	0	11512	1232	43	3	109	3	PCDH17	13	58206787	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	18944206	58206787	56963091	316	53884										
DIAPH3	81624	broad.mit.edu	37	chr13	60348879	60348880	+	Frame_Shift_Ins	INS	-	T	T													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	accttttggcatcggtgtccINStttttcttctgtcgcggaag							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:60348879_60348880insT	uc001vht.2	-	26	3460_3461	c.3241_3242insA	c.(3241-3243)AGGfs	p.R1081fs	DIAPH3_uc001vhu.2_Frame_Shift_Ins_p.R818fs	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	1081	DAD.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		CATCGGTGTCCTTTTTCTTCTG	0.46													87	76	---	---	---	---		T	60348880	T	T	60348879	7	5	151	1	0	1	1	0	0	0	0	0	4520	681	24	0	371	0	DIAPH3	13	60348879	Frame_Shift_Ins	INS	-	TCGA-66-2766-01A-01D-1522-08	2142092	60348879	54820999	317	53885										
KLHL1	57626	broad.mit.edu	37	chr13	70281777	70281777	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctgtgtccactcattagtttGtgggtcataggattccatag	10	8	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:70281777G>A	uc001vip.2	-	10	2961	c.2167C>T	c.(2167-2169)CAA>TAA	p.Q723*	KLHL1_uc010thm.1_Nonsense_Mutation_p.Q662*	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	723	Kelch 6.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		TCATTAGTTTGTGGGTCATAG	0.413													122	44	---	---	---	---	PASS	A	70281777	A	A	70281777	4	1	151	1	0	0	0	0	0	1	0	0	8365	1386	48	3	87	3	KLHL1	13	70281777	Nonsense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	9932898	70281777	44888101	318	53886										
SCEL	8796	broad.mit.edu	37	chr13	78146272	78146272	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttaacaggcagtcctggtttCcaccgccccctccaggttac	8	16	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:78146272C>T	uc001vki.2	+	9	663	c.493C>T	c.(493-495)CCA>TCA	p.P165S	SCEL_uc001vkj.2_Missense_Mutation_p.P165S|SCEL_uc010thx.1_Intron	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	165					embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		GTCCTGGTTTCCACCGCCCCC	0.463													27	34	---	---	---	---	PASS	T	78146272	T	T	78146272	3	4	151	1	0	0	0	0	1	0	0	0	13888	855	30	2	523	2	SCEL	13	78146272	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	7864495	78146272	37023606	319	53887										
EFNB2	1948	broad.mit.edu	37	chr13	107145427	107145427	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttcgccgggctctgcgggggCatctcctggacgatgtacac	14	13	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:107145427C>A	uc001vqi.2	-	5	988	c.963G>T	c.(961-963)ATG>ATT	p.M321I		NM_004093	NP_004084	P52799	EFNB2_HUMAN	ephrin B2 precursor	321	Cytoplasmic (Potential).				cell differentiation|cell-cell signaling|interspecies interaction between organisms|nervous system development	integral to plasma membrane	ephrin receptor binding			ovary(1)	1	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					TCTGCGGGGGCATCTCCTGGA	0.587													113	26	---	---	---	---	PASS	A	107145427	A	A	107145427	3	1	151	1	0	0	0	0	1	0	0	0	4956	710	25	3	42	3	EFNB2	13	107145427	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	28999155	107145427	8024451	320	53888										
COL4A2	1284	broad.mit.edu	37	chr13	111111202	111111202	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aggacccaagggcttcgcagGcatcaacggggagccgggga	17	11	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr13:111111202G>T	uc001vqx.2	+	22	1806	c.1517G>T	c.(1516-1518)GGC>GTC	p.G506V		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	506	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GGCTTCGCAGGCATCAACGGG	0.612													31	127	---	---	---	---	PASS	T	111111202	T	T	111111202	3	4	151	1	0	0	0	0	1	0	0	0	3690	1203	42	3	1599	3	COL4A2	13	111111202	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	3965775	111111202	4058676	321	53889										
ADCY4	196883	broad.mit.edu	37	chr14	24788955	24788955	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttggaattttcacctcatcaAaatcagcaattatctcattg	4	9	5	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr14:24788955A>G	uc001wov.2	-	21	2732	c.2726T>C	c.(2725-2727)TTT>TCT	p.F909S	ADCY4_uc001wow.2_Missense_Mutation_p.F909S|ADCY4_uc010toh.1_Missense_Mutation_p.F595S|ADCY4_uc001wox.2_Missense_Mutation_p.F909S|ADCY4_uc001woy.2_Missense_Mutation_p.F909S	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	909	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		CACCTCATCAAAATCAGCAAT	0.448													66	21	---	---	---	---	PASS	G	24788955	G	G	24788955	3	3	151	1	0	0	0	0	1	0	0	0	296	14	1	5	527	5	ADCY4	14	24788955	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08		24788955	82560585	322	53890										
FANCM	57697	broad.mit.edu	37	chr14	45623899	45623899	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	accttttcttaatttctgaaGggatgacacggtcaaaaaat	7	7	3	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr14:45623899G>T	uc001wwd.3	+	7	1283	c.1184_splice	c.e7-1	p.G395_splice	FANCM_uc001wwc.2_Splice_Site_p.G395_splice|FANCM_uc010anf.2_Splice_Site_p.G369_splice|FANCM_uc001wwe.3_5'Flank	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M						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						AATTTCTGAAGGGATGACACG	0.264								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				37	24	---	---	---	---	PASS	T	45623899	T	T	45623899	5	4	151	1	0	0	0	0	0	0	1	0	5671	1014	35	3	1209	3	FANCM	14	45623899	Splice_Site	SNP	G	TCGA-66-2766-01A-01D-1522-08	20834944	45623899	61725641	323	53891										
RPL10L	140801	broad.mit.edu	37	chr14	47120507	47120507	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggcttcaatcacatgctcctCgttctgaagcttggtgcgga	11	11	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr14:47120507C>T	uc001wwg.2	-	1	522	c.433G>A	c.(433-435)GAG>AAG	p.E145K		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	145					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						ACATGCTCCTCGTTCTGAAGC	0.527													33	69	---	---	---	---	PASS	T	47120507	T	T	47120507	3	4	151	1	0	0	0	0	1	0	0	0	13556	893	31	2	215	2	RPL10L	14	47120507	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1496608	47120507	60229033	324	53892										
NIN	51199	broad.mit.edu	37	chr14	51239056	51239056	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgttctcaatgccctcttccTgccaggtgtccagtattctc	7	14	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr14:51239056T>G	uc001wym.2	-	9	1135	c.944A>C	c.(943-945)CAG>CCG	p.Q315P	NIN_uc001wyi.2_Missense_Mutation_p.Q315P|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.Q315P|NIN_uc010tqp.1_Missense_Mutation_p.Q321P|NIN_uc001wyo.2_Missense_Mutation_p.Q315P|NIN_uc001wyp.1_Missense_Mutation_p.Q277P	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	315					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					GCCCTCTTCCTGCCAGGTGTC	0.463			T	PDGFRB	MPD								58	15	---	---	---	---	PASS	G	51239056	G	G	51239056	3	3	151	1	0	0	0	0	1	0	0	0	10417	1580	55	5	5697	5	NIN	14	51239056	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	4118549	51239056	56110484	325	53893										
NID2	22795	broad.mit.edu	37	chr14	52496265	52496265	+	Missense_Mutation	SNP	C	A	A													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cacgagaacatggctcttacCcacacagttccgtccatctc							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr14:52496265C>A	uc001wzo.2	-	10	2635	c.2401G>T	c.(2401-2403)GAT>TAT	p.D801Y	NID2_uc010tqs.1_Missense_Mutation_p.D801Y|NID2_uc010tqt.1_Missense_Mutation_p.D801Y|NID2_uc001wzp.2_Missense_Mutation_p.D801Y	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	801	EGF-like 3; calcium-binding (Potential).					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					TGGCTCTTACCCACACAGTTC	0.517													111	40	---	---	---	---	PASS	A	52496265	A	A	52496265	3	1	151	1	0	0	0	0	1	0	0	0	10415	637	22	3	1778	3	NID2	14	52496265	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1257209	52496265	54853275	326	53894	980	2								
NID2	22795	broad.mit.edu	37	chr14	52496266	52496266	+	Silent	SNP	C	A	A													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acgagaacatggctcttaccCacacagttccgtccatctcc							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr14:52496266C>A	uc001wzo.2	-	10	2634	c.2400G>T	c.(2398-2400)GTG>GTT	p.V800V	NID2_uc010tqs.1_Silent_p.V800V|NID2_uc010tqt.1_Silent_p.V800V|NID2_uc001wzp.2_Silent_p.V800V	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	800	EGF-like 2.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					GGCTCTTACCCACACAGTTCC	0.522													111	40	---	---	---	---	PASS	A	52496266	A	A	52496266	2	1	151	1	0	0	0	0	0	0	0	1	10415	608	21	3		3	NID2	14	52496266	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	1	52496266	54853274	327	53895	980	2								
ARID4A	5926	broad.mit.edu	37	chr14	58831249	58831249	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aagatttcatcatttggccaGaatgaagcaggaagtgaacc	10	7	2	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr14:58831249G>T	uc001xdp.2	+	20	2696	c.2442G>T	c.(2440-2442)CAG>CAT	p.Q814H	ARID4A_uc001xdo.2_Missense_Mutation_p.Q814H|ARID4A_uc001xdq.2_Missense_Mutation_p.Q814H|ARID4A_uc010apg.1_Missense_Mutation_p.Q492H	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	814					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						CATTTGGCCAGAATGAAGCAG	0.338													99	35	---	---	---	---	PASS	T	58831249	T	T	58831249	3	4	151	1	0	0	0	0	1	0	0	0	919	933	33	2	2516	2	ARID4A	14	58831249	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	6334983	58831249	48518291	328	53896										
KCNK10	54207	broad.mit.edu	37	chr14	88652366	88652366	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggtccaggcccagccgccggCgctccatgctgcggatggtg	16	15	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr14:88652366C>T	uc001xwo.2	-	7	1587	c.1130G>A	c.(1129-1131)CGC>CAC	p.R377H	KCNK10_uc001xwm.2_Missense_Mutation_p.R382H|KCNK10_uc001xwn.2_Missense_Mutation_p.R382H	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	377	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						CAGCCGCCGGCGCTCCATGCT	0.672													20	9	---	---	---	---	PASS	T	88652366	T	T	88652366	3	4	151	1	0	0	0	0	1	0	0	0	8059	768	27	1	490	1	KCNK10	14	88652366	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	29821117	88652366	18697174	329	53897										
KCNK10	54207	broad.mit.edu	37	chr14	88654444	88654444	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	actcccgataattgatgccaGcgtttccccctgaaaacaac	6	14	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr14:88654444G>C	uc001xwo.2	-	6	1320	c.863C>G	c.(862-864)GCT>GGT	p.A288G	KCNK10_uc001xwm.2_Missense_Mutation_p.A293G|KCNK10_uc001xwn.2_Missense_Mutation_p.A293G	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	288					signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						ATTGATGCCAGCGTTTCCCCC	0.448													159	47	---	---	---	---	PASS	C	88654444	C	C	88654444	3	2	151	1	0	0	0	0	1	0	0	0	8059	971	34	4	761	4	KCNK10	14	88654444	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	2078	88654444	18695096	330	53898										
KCNK10	54207	broad.mit.edu	37	chr14	88658601	88658601	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	accaaagcccaccgtggtcaGagtgaccaccacaaagtaaa	8	13	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr14:88658601G>C	uc001xwo.2	-	5	1277	c.820C>G	c.(820-822)CTG>GTG	p.L274V	KCNK10_uc001xwm.2_Missense_Mutation_p.L279V|KCNK10_uc001xwn.2_Missense_Mutation_p.L279V	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	274					signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						ACCGTGGTCAGAGTGACCACC	0.542													117	34	---	---	---	---	PASS	C	88658601	C	C	88658601	3	2	151	1	0	0	0	0	1	0	0	0	8059	933	33	2	808	2	KCNK10	14	88658601	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	4157	88658601	18690939	331	53899										
CATSPERB	79820	broad.mit.edu	37	chr14	92105570	92105570	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aaattctctcagtaacacttCcgactgcactgtatcttccc	4	14	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr14:92105570C>T	uc001xzs.1	-	16	1597	c.1457G>A	c.(1456-1458)GGA>GAA	p.G486E	CATSPERB_uc010aub.1_Missense_Mutation_p.G8E	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	486					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				AGTAACACTTCCGACTGCACT	0.398													78	26	---	---	---	---	PASS	T	92105570	T	T	92105570	3	4	151	1	0	0	0	0	1	0	0	0	2691	855	30	2	1941	2	CATSPERB	14	92105570	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	3446969	92105570	15243970	332	53900										
APBA2	321	broad.mit.edu	37	chr15	29390704	29390704	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccttcttagaattctgagggGgatgcccagacgctgacgga	13	10	2	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr15:29390704G>T	uc001zck.2	+	8	1470	c.1263G>T	c.(1261-1263)GGG>GGT	p.G421G	APBA2_uc010azj.2_Silent_p.G409G|APBA2_uc010uat.1_Silent_p.G409G|APBA2_uc001zcl.2_Silent_p.G409G|APBA2_uc001zcm.1_Silent_p.G113G	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	421	PID.				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)		ATTCTGAGGGGGATGCCCAGA	0.358													43	21	---	---	---	---	PASS	T	29390704	T	T	29390704	2	4	151	1	0	0	0	0	0	0	0	1	757	1219	43	3		3	APBA2	15	29390704	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08		29390704	73140688	333	53901										
EXD1	161829	broad.mit.edu	37	chr15	41476288	41476288	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gacattgaaacagcctgtttTgtgcattttaaatcttcctt	6	8	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr15:41476288T>C	uc001znk.2	-	10	1577	c.1386A>G	c.(1384-1386)ACA>ACG	p.T462T	EXD1_uc001znj.2_Silent_p.T260T|EXD1_uc010ucv.1_Silent_p.T520T	NM_152596	NP_689809	Q8NHP7	EXD1_HUMAN	exonuclease 3'-5' domain containing 1	462					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding			ovary(1)	1						CAGCCTGTTTTGTGCATTTTA	0.398													147	61	---	---	---	---	PASS	C	41476288	C	C	41476288	2	2	151	1	0	0	0	0	0	0	0	1	5297	1799	63	5		5	EXD1	15	41476288	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	12085584	41476288	61055104	334	53902										
SLC12A1	6557	broad.mit.edu	37	chr15	48548078	48548078	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gacaatgctctggaattaacCacagtggaagaccacgtaaa	9	9	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr15:48548078C>A	uc001zwn.3	+	16	2229	c.2013C>A	c.(2011-2013)ACC>ACA	p.T671T	SLC12A1_uc010uew.1_Silent_p.T477T|SLC12A1_uc010bem.2_Silent_p.T671T|SLC12A1_uc001zwq.3_Silent_p.T442T|SLC12A1_uc001zwr.3_Silent_p.T398T	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	671					potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	TGGAATTAACCACAGTGGAAG	0.458													9	9	---	---	---	---	PASS	A	48548078	A	A	48548078	2	1	151	1	0	0	0	0	0	0	0	1	14382	581	21	3		3	SLC12A1	15	48548078	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	7071790	48548078	53983314	335	53903										
MYO5A	4644	broad.mit.edu	37	chr15	52659257	52659257	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccttagcctgctgcacgatgCggtgattgagggcttctttt	12	10	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr15:52659257C>T	uc002aby.2	-	23	3375	c.3131G>A	c.(3130-3132)CGC>CAC	p.R1044H	MYO5A_uc002abx.3_Missense_Mutation_p.R1044H|MYO5A_uc010uge.1_Missense_Mutation_p.R913H	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	1044	Potential.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		CTGCACGATGCGGTGATTGAG	0.403													4	211	---	---	---	---	PASS	T	52659257	T	T	52659257	3	4	151	1	0	0	0	0	1	0	0	0	10078	768	27	1	2512	1	MYO5A	15	52659257	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	4111179	52659257	49872135	336	53904										
MYO9A	4649	broad.mit.edu	37	chr15	72192182	72192182	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atagtaatctctccatttctGctggataacgatggctgcag	9	9	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr15:72192182G>T	uc002atl.3	-	24	3789	c.3316C>A	c.(3316-3318)CAG>AAG	p.Q1106K	MYO9A_uc010biq.2_Missense_Mutation_p.Q726K|MYO9A_uc002atn.1_Missense_Mutation_p.Q1087K|MYO9A_uc002atk.2_5'Flank|MYO9A_uc002atm.1_5'Flank	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	1106	Neck or regulatory domain.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						CTCCATTTCTGCTGGATAACG	0.493													88	26	---	---	---	---	PASS	T	72192182	T	T	72192182	3	4	151	1	0	0	0	0	1	0	0	0	10084	1328	46	3	4406	3	MYO9A	15	72192182	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	19532925	72192182	30339210	337	53905										
LINGO1	84894	broad.mit.edu	37	chr15	77907685	77907685	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgctccaggctgttgaggccGctgaaggcgcggtgagagat	17	9	0	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr15:77907685G>A	uc002bct.1	-	2	616	c.564C>T	c.(562-564)AGC>AGT	p.S188S	LINGO1_uc002bcu.1_Silent_p.S182S	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	188	Extracellular (Potential).|LRR 5.				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						TGTTGAGGCCGCTGAAGGCGC	0.582													120	21	---	---	---	---	PASS	A	77907685	A	A	77907685	2	1	151	1	0	0	0	0	0	0	0	1	8814	1078	38	1		1	LINGO1	15	77907685	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	5715503	77907685	24623707	338	53906										
AKAP13	11214	broad.mit.edu	37	chr15	86124126	86124126	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctattaaggaaaatgctctcTcttcaggaactttgcaggaa	8	8	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr15:86124126T>C	uc002blv.1	+	7	2997	c.2827T>C	c.(2827-2829)TCT>CCT	p.S943P	AKAP13_uc002blt.1_Missense_Mutation_p.S943P|AKAP13_uc002blu.1_Missense_Mutation_p.S943P|AKAP13_uc010bne.1_5'Flank	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	943					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						AAATGCTCTCTCTTCAGGAAC	0.433													73	178	---	---	---	---	PASS	C	86124126	C	C	86124126	3	2	151	1	0	0	0	0	1	0	0	0	449	1551	54	5	2849	5	AKAP13	15	86124126	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	8216441	86124126	16407266	339	53907										
ACSM2A	123876	broad.mit.edu	37	chr16	20477012	20477012	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtggtgctgccccgagtgccTgagtggtggctggtgatcct	17	10	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr16:20477012T>A	uc010bwe.2	+	4	590	c.351T>A	c.(349-351)CCT>CCA	p.P117P	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Silent_p.P38P|ACSM2A_uc002dhf.3_Silent_p.P117P|ACSM2A_uc002dhg.3_Silent_p.P117P|ACSM2A_uc010vay.1_Silent_p.P38P	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	117					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CCCGAGTGCCTGAGTGGTGGC	0.572													29	14	---	---	---	---	PASS	A	20477012	A	A	20477012	2	1	151	1	0	0	0	0	0	0	0	1	183	1567	55	5		5	ACSM2A	16	20477012	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08		20477012	69877741	340	53908										
DNAH3	55567	broad.mit.edu	37	chr16	20998633	20998633	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agaatctggtttaccttctcTatggtctgcttgaagcaatt	8	8	3	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr16:20998633T>C	uc010vbe.1	-	47	7020	c.7020A>G	c.(7018-7020)ATA>ATG	p.I2340M	DNAH3_uc010vbd.1_5'Flank	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2340					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TTACCTTCTCTATGGTCTGCT	0.428													185	71	---	---	---	---	PASS	C	20998633	C	C	20998633	3	2	151	1	0	0	0	0	1	0	0	0	4603	1512	53	5	5393	5	DNAH3	16	20998633	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	521621	20998633	69356120	341	53909										
TOX3	27324	broad.mit.edu	37	chr16	52484312	52484312	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cctcccaaattcaaccccaaCtgggcgctgagctgagactg	9	15	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr16:52484312C>A	uc002egw.2	-	4	726	c.555G>T	c.(553-555)CAG>CAT	p.Q185H	TOX3_uc010vgt.1_Missense_Mutation_p.Q180H|TOX3_uc010vgu.1_Missense_Mutation_p.Q185H	NM_001080430	NP_001073899	O15405	TOX3_HUMAN	TOX high mobility group box family member 3	185					apoptosis|negative regulation of neuron apoptosis|positive regulation of anti-apoptosis|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|estrogen response element binding|phosphoprotein binding|protein homodimerization activity				0						TCAACCCCAACTGGGCGCTGA	0.572													54	183	---	---	---	---	PASS	A	52484312	A	A	52484312	3	1	151	1	0	0	0	0	1	0	0	0	16376	564	20	3	1191	3	TOX3	16	52484312	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	31485679	52484312	37870441	342	53910										
RBL2	5934	broad.mit.edu	37	chr16	53515706	53515706	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atgaaacaatgctttctcctCgagaaaagattttctattac	5	8	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr16:53515706C>A	uc002ehi.3	+	21	3326	c.3208C>A	c.(3208-3210)CGA>AGA	p.R1070R	RBL2_uc002ehj.2_Silent_p.R780R|RBL2_uc010vgw.1_Silent_p.R449R	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	1070					cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						GCTTTCTCCTCGAGAAAAGAT	0.398													93	75	---	---	---	---	PASS	A	53515706	A	A	53515706	2	1	151	1	0	0	0	0	0	0	0	1	13110	876	31	2		2	RBL2	16	53515706	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	1031394	53515706	36839047	343	53911										
FTO	79068	broad.mit.edu	37	chr16	53878072	53878072	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cttctcttttggcaggccctGaagaggaaagtgaggatgac	13	8	1	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr16:53878072G>C	uc002ehr.2	+	4	979	c.757G>C	c.(757-759)GAA>CAA	p.E253Q	FTO_uc010vha.1_5'UTR	NM_001080432	NP_001073901	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	253	Fe2OG dioxygenase domain.				DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GGCAGGCCCTGAAGAGGAAAG	0.343													31	88	---	---	---	---	PASS	C	53878072	C	C	53878072	3	2	151	1	0	0	0	0	1	0	0	0	6086	1291	45	2	771	2	FTO	16	53878072	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	362366	53878072	36476681	344	53912										
AMFR	267	broad.mit.edu	37	chr16	56403212	56403212	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	taccagatggtatggaacctGgggaaacatctcttgaatct	10	8	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr16:56403212G>C	uc002eiy.2	-	11	1613	c.1408C>G	c.(1408-1410)CAG>GAG	p.Q470E	AMFR_uc002eix.2_Missense_Mutation_p.Q104E	NM_001144	NP_001135	Q9UKV5	AMFR2_HUMAN	autocrine motility factor receptor	470	CUE.				endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|protein oligomerization|protein polyubiquitination	integral to endoplasmic reticulum membrane|integral to membrane of membrane fraction	protein binding|protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			breast(2)	2						TATGGAACCTGGGGAAACATC	0.443													80	72	---	---	---	---	PASS	C	56403212	C	C	56403212	3	2	151	1	0	0	0	0	1	0	0	0	571	1357	47	4	539	4	AMFR	16	56403212	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	2525140	56403212	33951541	345	53913										
ATP6V0D1	9114	broad.mit.edu	37	chr16	67472472	67472472	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtcgattttggcgcggtggcGctgggcgatacattcagcga	16	9	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr16:67472472G>A	uc002ete.1	-	8	1115	c.1015C>T	c.(1015-1017)CGC>TGC	p.R339C	ATP6V0D1_uc010vjo.1_Missense_Mutation_p.R380C|ATP6V0D1_uc010vjn.1_Missense_Mutation_p.R262C	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit	339					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		GCGCGGTGGCGCTGGGCGATA	0.458													30	68	---	---	---	---	PASS	A	67472472	A	A	67472472	3	1	151	1	0	0	0	0	1	0	0	0	1173	1087	38	1	44	1	ATP6V0D1	16	67472472	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	11069260	67472472	22882281	346	53914										
MARVELD3	91862	broad.mit.edu	37	chr16	71674923	71674923	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggaatatctgtggtctggaaCtctttgagatcttccggaac	11	8	4	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr16:71674923C>G	uc002fau.2	+	3	1289	c.1226C>G	c.(1225-1227)ACT>AGT	p.T409S	PHLPP2_uc002fav.2_RNA|MARVELD3_uc010cge.2_3'UTR	NM_001017967	NP_001017967	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 1	Error:Variant_position_missing_in_Q96A59_after_alignment						integral to membrane				skin(1)	1		Ovarian(137;0.125)				TGGTCTGGAACTCTTTGAGAT	0.473													11	46	---	---	---	---	PASS	G	71674923	G	G	71674923	3	3	151	1	0	0	0	0	1	0	0	0	9319	565	20	4	1851	4	MARVELD3	16	71674923	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	4202451	71674923	18679830	347	53915										
ANKRD11	29123	broad.mit.edu	37	chr16	89347559	89347559	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctgaattcttcctcgggggtCctcctaatgtcgacagagac	10	12	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr16:89347559C>A	uc002fmx.1	-	9	5852	c.5391G>T	c.(5389-5391)AGG>AGT	p.R1797S	ANKRD11_uc002fmy.1_Missense_Mutation_p.R1797S|ANKRD11_uc002fnc.1_Missense_Mutation_p.R1797S|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Missense_Mutation_p.R1754S	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1797						nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CCTCGGGGGTCCTCCTAATGT	0.592													32	94	---	---	---	---	PASS	A	89347559	A	A	89347559	3	1	151	1	0	0	0	0	1	0	0	0	639	854	30	2	2620	2	ANKRD11	16	89347559	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	17672636	89347559	1007194	348	53916										
TP53	7157	broad.mit.edu	37	chr17	7578271	7578271	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttccttccactcggataagaTgctgaggaggggccagacct	12	11	0	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:7578271T>A	uc002gim.2	-	6	772	c.578A>T	c.(577-579)CAT>CTT	p.H193L	TP53_uc002gig.1_Missense_Mutation_p.H193L|TP53_uc002gih.2_Missense_Mutation_p.H193L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H61L|TP53_uc010cng.1_Missense_Mutation_p.H61L|TP53_uc002gii.1_Missense_Mutation_p.H61L|TP53_uc010cnh.1_Missense_Mutation_p.H193L|TP53_uc010cni.1_Missense_Mutation_p.H193L|TP53_uc002gij.2_Missense_Mutation_p.H193L|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.H100L|TP53_uc002gio.2_Missense_Mutation_p.H61L|TP53_uc010vug.1_Missense_Mutation_p.H154L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	193	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		H -> D (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> Y (in sporadic cancers; somatic mutation).|QH -> HN (in a sporadic cancer; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|QH -> HY (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> R (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H193R(67)|p.H193L(31)|p.H193Y(26)|p.H193P(12)|p.0?(7)|p.H193D(7)|p.H193N(4)|p.A189_V197delAPPQHLIRV(4)|p.H193fs*16(3)|p.H193H(2)|p.P191fs*53(2)|p.K164_P219del(1)|p.P191fs*15(1)|p.P191fs*6(1)|p.H100L(1)|p.H61L(1)|p.H193_I195delHLI(1)|p.H193_I195>AP(1)|p.A189fs*53(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TCGGATAAGATGCTGAGGAGG	0.562		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			54	16	---	---	---	---	PASS	A	7578271	A	A	7578271	3	1	151	1	0	0	0	0	1	0	0	0	16378	1464	51	5	716	5	TP53	17	7578271	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08		7578271	73616939	349	53917										
KDM6B	23135	broad.mit.edu	37	chr17	7751547	7751547	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gggccggggccacccccaggCcccctgagtaaagcccccca	12	20	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:7751547C>T	uc002giw.1	+	11	2317	c.1941C>T	c.(1939-1941)GGC>GGT	p.G647G	KDM6B_uc002gix.2_5'UTR	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	647	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						CACCCCCAGGCCCCCTGAGTA	0.701													15	39	---	---	---	---	PASS	T	7751547	T	T	7751547	2	4	151	1	0	0	0	0	0	0	0	1	8138	726	26	3		3	KDM6B	17	7751547	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	173276	7751547	73443663	350	53918										
KRBA2	124751	broad.mit.edu	37	chr17	8274697	8274697	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tccttttgagagccttctaaAtaattccaatctttggtcat	5	9	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:8274697A>G	uc002glf.1	-	1	162	c.156T>C	c.(154-156)TAT>TAC	p.Y52Y	KRBA2_uc002glg.1_Intron	NM_213597	NP_998762	Q6ZNG9	KRBA2_HUMAN	KRAB-A domain containing 2	52	KRAB.				DNA integration|regulation of transcription, DNA-dependent	intracellular	DNA binding				0						AGCCTTCTAAATAATTCCAAT	0.438													80	154	---	---	---	---	PASS	G	8274697	G	G	8274697	2	3	151	1	0	0	0	0	0	0	0	1	8440	108	4	5		5	KRBA2	17	8274697	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08	523150	8274697	72920513	351	53919										
GLP2R	9340	broad.mit.edu	37	chr17	9729453	9729453	+	Frame_Shift_Del	DEL	C	-	-													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgcctggcgtccacgagctgCccatgggcatccctgccccc							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:9729453delC	uc002gmd.1	+	1	73	c.73delC	c.(73-75)CCCfs	p.P25fs	GLP2R_uc010cog.1_RNA	NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	25	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	CCACGAGCTGCCCATGGGCAT	0.657													10	19	---	---	---	---		-	9729453	-	-	9729453	7	5	151	1	0	1	0	1	0	0	0	0	6453	739	26	0	75	0	GLP2R	17	9729453	Frame_Shift_Del	DEL	C	TCGA-66-2766-01A-01D-1522-08	1454756	9729453	71465757	352	53920										
MYH4	4622	broad.mit.edu	37	chr17	10346825	10346825	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcttgcggaacttggcaaggTtgacattggattgttcctcc	12	9	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:10346825T>C	uc002gmn.2	-	40	5798	c.5687A>G	c.(5686-5688)AAC>AGC	p.N1896S	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1896	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CTTGGCAAGGTTGACATTGGA	0.468													84	42	---	---	---	---	PASS	C	10346825	C	C	10346825	3	2	151	1	0	0	0	0	1	0	0	0	10037	1725	60	5	136	5	MYH4	17	10346825	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	617372	10346825	70848385	353	53921										
MYH1	4619	broad.mit.edu	37	chr17	10400625	10400625	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttgcaaattcttattttcccGtttcaaggtttcaagttggt	7	7	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:10400625G>C	uc002gmo.2	-	32	4604	c.4510C>G	c.(4510-4512)CGG>GGG	p.R1504G	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1504	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TTATTTTCCCGTTTCAAGGTT	0.308													65	28	---	---	---	---	PASS	C	10400625	C	C	10400625	3	2	151	1	0	0	0	0	1	0	0	0	10029	1144	40	4	1345	4	MYH1	17	10400625	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	53800	10400625	70794585	354	53922										
CRLF3	51379	broad.mit.edu	37	chr17	29131049	29131049	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtcaccaatcgctcatccagGagctttccaagggttccctt	8	14	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:29131049G>C	uc002hfr.3	-	2	316	c.207C>G	c.(205-207)CTC>CTG	p.L69L	CRLF3_uc010wbr.1_Intron	NM_015986	NP_057070	Q8IUI8	CRLF3_HUMAN	cytokine receptor-like factor 3	69					negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|positive regulation of cell cycle arrest|positive regulation of JAK-STAT cascade|positive regulation of transcription from RNA polymerase II promoter	cytoplasm					0		all_hematologic(16;0.014)|Acute lymphoblastic leukemia(14;0.0236)|Myeloproliferative disorder(56;0.0255)				GCTCATCCAGGAGCTTTCCAA	0.413													155	131	---	---	---	---	PASS	C	29131049	C	C	29131049	2	2	151	1	0	0	0	0	0	0	0	1	3888	1161	41	2		2	CRLF3	17	29131049	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	18730424	29131049	52064161	355	53923										
RHOT1	55288	broad.mit.edu	37	chr17	30510218	30510218	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaaaaacctgaagaacatatCagagctcttttattacgcac	6	9	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:30510218C>T	uc002hgz.2	+	8	706	c.467C>T	c.(466-468)TCA>TTA	p.S156L	RHOT1_uc002hgw.2_Missense_Mutation_p.S156L|RHOT1_uc002hgy.2_Missense_Mutation_p.S156L|RHOT1_uc002hha.2_Missense_Mutation_p.S29L|RHOT1_uc010csv.2_RNA|RHOT1_uc002hgx.2_Missense_Mutation_p.S29L|RHOT1_uc010wby.1_Missense_Mutation_p.S156L|RHOT1_uc002hhb.2_Missense_Mutation_p.S135L|RHOT1_uc002hgv.2_Missense_Mutation_p.S156L	NM_018307	NP_060777	Q8IXI2	MIRO1_HUMAN	ras homolog gene family, member T1 isoform 3	156	Miro 1.|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(56;0.0255)|Breast(31;0.116)|Ovarian(249;0.182)				AAGAACATATCAGAGCTCTTT	0.383													114	91	---	---	---	---	PASS	T	30510218	T	T	30510218	3	4	151	1	0	0	0	0	1	0	0	0	13343	838	29	2	497	2	RHOT1	17	30510218	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1379169	30510218	50684992	356	53924										
TMEM132E	124842	broad.mit.edu	37	chr17	32961955	32961955	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cacgacatcatccgagggcaCtgaccaggtggtcaccatgt	11	13	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:32961955C>A	uc002hif.2	+	8	1884	c.1556C>A	c.(1555-1557)ACT>AAT	p.T519N		NM_207313	NP_997196	Q6IEE7	T132E_HUMAN	transmembrane protein 132E precursor	519	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)		TCCGAGGGCACTGACCAGGTG	0.632													67	61	---	---	---	---	PASS	A	32961955	A	A	32961955	3	1	151	1	0	0	0	0	1	0	0	0	16045	565	20	3	1586	3	TMEM132E	17	32961955	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	2451737	32961955	48233255	357	53925										
C17orf66	256957	broad.mit.edu	37	chr17	34185444	34185444	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtccagagcttacctcaaggAcactggaagaacacagctgg	11	11	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:34185444A>G	uc002hke.1	-	10	1174	c.1025T>C	c.(1024-1026)GTC>GCC	p.V342A	C17orf66_uc010wck.1_RNA|C17orf66_uc010wcl.1_Missense_Mutation_p.V302A|C17orf66_uc010wcm.1_Missense_Mutation_p.V308A	NM_152781	NP_689994	A2RTY3	CQ066_HUMAN	hypothetical protein LOC256957	342							binding			breast(2)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		TACCTCAAGGACACTGGAAGA	0.547													43	44	---	---	---	---	PASS	G	34185444	G	G	34185444	3	3	151	1	0	0	0	0	1	0	0	0	1874	275	10	5	711	5	C17orf66	17	34185444	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	1223489	34185444	47009766	358	53926										
SYNRG	11276	broad.mit.edu	37	chr17	35931928	35931928	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggctagaacggtataaagttCttcttttgtaagtttgccag	10	6	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:35931928C>A	uc002hoa.2	-	9	1143	c.1060G>T	c.(1060-1062)GAA>TAA	p.E354*	SYNRG_uc010wde.1_Nonsense_Mutation_p.E276*|SYNRG_uc010wdf.1_Nonsense_Mutation_p.E276*|SYNRG_uc002hoc.2_Nonsense_Mutation_p.E275*|SYNRG_uc002hoe.2_Nonsense_Mutation_p.E276*|SYNRG_uc002hod.2_Nonsense_Mutation_p.E276*|SYNRG_uc010wdg.1_Nonsense_Mutation_p.E276*|SYNRG_uc002hob.2_Nonsense_Mutation_p.E354*|SYNRG_uc002hof.2_Nonsense_Mutation_p.E66*|SYNRG_uc010cvd.1_Nonsense_Mutation_p.E154*|SYNRG_uc002hog.1_Nonsense_Mutation_p.E488*|SYNRG_uc010wdh.1_3'UTR	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	354	EH.				endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						GTATAAAGTTCTTCTTTTGTA	0.373													84	67	---	---	---	---	PASS	A	35931928	A	A	35931928	4	1	151	1	0	0	0	0	0	1	0	0	15457	922	32	2	3013	2	SYNRG	17	35931928	Nonsense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1746484	35931928	45263282	359	53927										
SRCIN1	80725	broad.mit.edu	37	chr17	36708245	36708245	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctcagctcatgcaggttcagCggggggctggggggtggcat	19	9	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:36708245C>A	uc002hqd.2	-	14	2829	c.2604G>T	c.(2602-2604)CCG>CCT	p.P868P	SRCIN1_uc002hqf.1_Silent_p.P740P|SRCIN1_uc002hqe.2_Silent_p.P722P|SRCIN1_uc002hqg.2_Silent_p.P174P	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	740					exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						GCAGGTTCAGCGGGGGGCTGG	0.617													27	84	---	---	---	---	PASS	A	36708245	A	A	36708245	2	1	151	1	0	0	0	0	0	0	0	1	15135	755	27	1		1	SRCIN1	17	36708245	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	776317	36708245	44486965	360	53928										
KRT20	54474	broad.mit.edu	37	chr17	39038830	39038830	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	attagggaacctacttcagtCtgaagtcctcagcagccagt	9	11	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:39038830C>T	uc002hvl.2	-	2	509	c.467G>A	c.(466-468)AGA>AAA	p.R156K		NM_019010	NP_061883	P35900	K1C20_HUMAN	keratin 20	156	Coil 1B.|Rod.				apoptosis|intermediate filament organization	Golgi apparatus|intermediate filament	protein binding|structural constituent of cytoskeleton			large_intestine(1)|kidney(1)|skin(1)	3		Breast(137;0.000301)|Ovarian(249;0.15)				CTACTTCAGTCTGAAGTCCTC	0.393													83	110	---	---	---	---	PASS	T	39038830	T	T	39038830	3	4	151	1	0	0	0	0	1	0	0	0	8458	913	32	2	835	2	KRT20	17	39038830	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	2330585	39038830	42156380	361	53929										
KRT16	3868	broad.mit.edu	37	chr17	39768815	39768815	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccgcccccgtaggtgctgggGgcacggcaggaccctccggc	16	17	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:39768815G>T	uc002hxg.3	-	1	265	c.126C>A	c.(124-126)GCC>GCA	p.A42A	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	42	Head.			RAP -> PA (in Ref. 1; AAA59460).	cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				AGGTGCTGGGGGCACGGCAGG	0.721													3	6	---	---	---	---	PASS	T	39768815	T	T	39768815	2	4	151	1	0	0	0	0	0	0	0	1	8453	1219	43	3		3	KRT16	17	39768815	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	729985	39768815	41426395	362	53930										
AOC3	8639	broad.mit.edu	37	chr17	41004563	41004563	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	accacgcccctgacccgtggGgtggactgcccctacttggc	12	17	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:41004563G>T	uc002ibv.2	+	1	1363	c.1203G>T	c.(1201-1203)GGG>GGT	p.G401G		NM_003734	NP_003725	Q16853	AOC3_HUMAN	amine oxidase, copper containing 3 precursor	401	Extracellular (Potential).				amine metabolic process|cell adhesion|inflammatory response	cell surface|integral to membrane|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|protein homodimerization activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)	Hydralazine(DB01275)|Phenelzine(DB00780)	TGACCCGTGGGGTGGACTGCC	0.567													57	86	---	---	---	---	PASS	T	41004563	T	T	41004563	2	4	151	1	0	0	0	0	0	0	0	1	728	1219	43	3		3	AOC3	17	41004563	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	1235748	41004563	40190647	363	53931										
DHX8	1659	broad.mit.edu	37	chr17	41577356	41577356	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tccctctcccaagcagcaatGatgcagagtgccttggccaa	9	14	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:41577356G>C	uc002idu.1	+	11	1504	c.1431G>C	c.(1429-1431)ATG>ATC	p.M477I	DHX8_uc010wif.1_Missense_Mutation_p.M386I|DHX8_uc010wig.1_Missense_Mutation_p.M477I	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	477						catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		AAGCAGCAATGATGCAGAGTG	0.488													168	565	---	---	---	---	PASS	C	41577356	C	C	41577356	3	2	151	1	0	0	0	0	1	0	0	0	4515	1290	45	2	1473	2	DHX8	17	41577356	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	572793	41577356	39617854	364	53932										
SOST	50964	broad.mit.edu	37	chr17	41832873	41832873	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acttgcacgaggccaccaggCgcaccttgcgcgcgcgcggc	14	17	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:41832873C>T	uc002iec.1	-	2	526	c.479G>A	c.(478-480)CGC>CAC	p.R160H		NM_025237	NP_079513	Q9BQB4	SOST_HUMAN	sclerostin precursor	160	CTCK.				negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of ossification|negative regulation of protein complex assembly|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway		heparin binding|protein binding				0		Breast(137;0.00725)		UCEC - Uterine corpus endometrioid carcinoma (308;0.177)|BRCA - Breast invasive adenocarcinoma(366;0.0741)		GGCCACCAGGCGCACCTTGCG	0.721													12	42	---	---	---	---	PASS	T	41832873	T	T	41832873	3	4	151	1	0	0	0	0	1	0	0	0	14938	768	27	1	166	1	SOST	17	41832873	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	255517	41832873	39362337	365	53933										
TANC2	26115	broad.mit.edu	37	chr17	61492927	61492927	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gctgcccagcgctaccagtaCgccctgaagaagttccctag	10	15	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:61492927C>A	uc002jal.3	+	23	3830	c.3807C>A	c.(3805-3807)TAC>TAA	p.Y1269*	TANC2_uc010wpe.1_Nonsense_Mutation_p.Y1179*|TANC2_uc002jao.3_Nonsense_Mutation_p.Y380*	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1269	TPR 1.						binding			ovary(2)	2						GCTACCAGTACGCCCTGAAGA	0.512													41	42	---	---	---	---	PASS	A	61492927	A	A	61492927	4	1	151	1	0	0	0	0	0	1	0	0	15542	547	19	1	3897	1	TANC2	17	61492927	Nonsense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	19660054	61492927	19702283	366	53934										
MAP3K3	4215	broad.mit.edu	37	chr17	61767648	61767648	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cagtgcccccatcaactggcGccggggaaagctcctgggcc	13	16	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:61767648G>T	uc002jbg.2	+	12	1407	c.1088G>T	c.(1087-1089)CGC>CTC	p.R363L	MAP3K3_uc002jbe.2_Missense_Mutation_p.R394L|MAP3K3_uc002jbf.2_Missense_Mutation_p.R394L|MAP3K3_uc002jbh.2_Missense_Mutation_p.R390L|MAP3K3_uc010wpo.1_Missense_Mutation_p.R278L|MAP3K3_uc010wpp.1_Missense_Mutation_p.R359L	NM_002401	NP_002392	Q99759	M3K3_HUMAN	mitogen-activated protein kinase kinase kinase 3	363	Protein kinase.				MAPKKK cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autophosphorylation	cytosol	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			lung(3)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)	6						ATCAACTGGCGCCGGGGAAAG	0.517													4	233	---	---	---	---	PASS	T	61767648	T	T	61767648	3	4	151	1	0	0	0	0	1	0	0	0	9251	1087	38	1	1231	1	MAP3K3	17	61767648	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	274721	61767648	19427562	367	53935										
ABCA10	10349	broad.mit.edu	37	chr17	67197667	67197667	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcttcttttccatggaattcTggagacaccggttcaaaaga	9	9	3	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:67197667T>C	uc010dfa.1	-	11	2028	c.1149A>G	c.(1147-1149)CCA>CCG	p.P383P	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_5'UTR|ABCA10_uc010dfc.1_Intron	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	383					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					CATGGAATTCTGGAGACACCG	0.353													58	60	---	---	---	---	PASS	C	67197667	C	C	67197667	2	2	151	1	0	0	0	0	0	0	0	1	29	1567	55	5		5	ABCA10	17	67197667	Silent	SNP	T	TCGA-66-2766-01A-01D-1522-08	5430019	67197667	13997543	368	53936										
GPR142	350383	broad.mit.edu	37	chr17	72368690	72368690	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acagccagagggcatggcggCgaagcctgtgatggagcctc	16	11	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:72368690C>A	uc010wqy.1	+	4	1340	c.1340C>A	c.(1339-1341)GCG>GAG	p.A447E	GPR142_uc010wqx.1_Missense_Mutation_p.A359E	NM_181790	NP_861455	Q7Z601	GP142_HUMAN	G protein-coupled receptor 142	447	Cytoplasmic (Potential).					cell junction|cytoplasm|integral to membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GGCATGGCGGCGAAGCCTGTG	0.617													5	39	---	---	---	---	PASS	A	72368690	A	A	72368690	3	1	151	1	0	0	0	0	1	0	0	0	6650	768	27	1	1354	1	GPR142	17	72368690	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	5171023	72368690	8826520	369	53937										
USP36	57602	broad.mit.edu	37	chr17	76817074	76817074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gggcaggacagatctgtaccCggatctccagcgcgacgtcc	13	14	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr17:76817074C>A	uc002jvz.1	-	8	1152	c.827G>T	c.(826-828)CGG>CTG	p.R276L	USP36_uc002jwa.1_Missense_Mutation_p.R276L|USP36_uc002jwc.1_5'UTR	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	276					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			GATCTGTACCCGGATCTCCAG	0.547													14	12	---	---	---	---	PASS	A	76817074	A	A	76817074	3	1	151	1	0	0	0	0	1	0	0	0	17064	666	23	1	2596	1	USP36	17	76817074	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	4448384	76817074	4378136	370	53938										
EPB41L3	23136	broad.mit.edu	37	chr18	5394784	5394784	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttggcctctttaattgcctgAgccagcgcctatccccggga	10	14	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr18:5394784A>C	uc002kmt.1	-	22	3248	c.3162T>G	c.(3160-3162)GCT>GCG	p.A1054A	EPB41L3_uc010wzh.1_Intron|EPB41L3_uc002kmu.1_Silent_p.A832A|EPB41L3_uc010dkq.1_Silent_p.A723A|EPB41L3_uc002kms.1_Silent_p.A289A|EPB41L3_uc010wze.1_Silent_p.A359A|EPB41L3_uc010wzf.1_Silent_p.A351A|EPB41L3_uc010wzg.1_Silent_p.A326A|EPB41L3_uc010dkr.2_Silent_p.A446A	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	1054	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TAATTGCCTGAGCCAGCGCCT	0.483													64	32	---	---	---	---	PASS	C	5394784	C	C	5394784	2	2	151	1	0	0	0	0	0	0	0	1	5154	291	11	5		5	EPB41L3	18	5394784	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08		5394784	72682464	371	53939										
CEP192	55125	broad.mit.edu	37	chr18	13049582	13049582	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgaagaaatacgagataacaGagaaaatcagaggcaaaatg	10	4	1	5			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr18:13049582G>C	uc010xac.1	+	16	2872	c.2792G>C	c.(2791-2793)AGA>ACA	p.R931T	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.R456T|CEP192_uc002kru.2_RNA|CEP192_uc002krs.1_Missense_Mutation_p.R672T	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	931										ovary(4)|pancreas(1)	5						CGAGATAACAGAGAAAATCAG	0.383													123	36	---	---	---	---	PASS	C	13049582	C	C	13049582	3	2	151	1	0	0	0	0	1	0	0	0	3251	942	33	2	2850	2	CEP192	18	13049582	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	7654798	13049582	65027666	372	53940										
MC2R	4158	broad.mit.edu	37	chr18	13884819	13884819	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aggacatgaagcacaaagggGgcccagcagaagatgaagac	14	8	0	5			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr18:13884819G>T	uc002ksp.1	-	2	876	c.699C>A	c.(697-699)GCC>GCA	p.A233A		NM_000529	NP_000520	Q01718	ACTHR_HUMAN	melanocortin 2 receptor	233	Helical; Name=6; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	corticotropin receptor activity|protein binding			ovary(4)|skin(1)	5					Corticotropin(DB01285)|Cosyntropin(DB01284)	GCACAAAGGGGGCCCAGCAGA	0.547													71	22	---	---	---	---	PASS	T	13884819	T	T	13884819	2	4	151	1	0	0	0	0	0	0	0	1	9364	1219	43	3		3	MC2R	18	13884819	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	835237	13884819	64192429	373	53941										
LAMA3	3909	broad.mit.edu	37	chr18	21501541	21501541	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggaggaattccaattgcaatCagggaaaggtaagatgattt	12	4	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr18:21501541C>T	uc002kuq.2	+	62	8255	c.8169C>T	c.(8167-8169)ATC>ATT	p.I2723I	LAMA3_uc002kur.2_Silent_p.I2667I|LAMA3_uc002kus.3_Silent_p.I1114I|LAMA3_uc002kut.3_Silent_p.I1058I	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	2723	Laminin G-like 2.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAATTGCAATCAGGGAAAGGT	0.333													68	659	---	---	---	---	PASS	T	21501541	T	T	21501541	2	4	151	1	0	0	0	0	0	0	0	1	8607	816	29	2		2	LAMA3	18	21501541	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	7616722	21501541	56575707	374	53942										
CCDC102B	79839	broad.mit.edu	37	chr18	66504591	66504591	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agacaattttctacaaaggaGgacacaaataataaggtaag	8	5	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr18:66504591G>T	uc002lkk.2	+	4	814	c.591G>T	c.(589-591)GAG>GAT	p.E197D	CCDC102B_uc002lki.2_Missense_Mutation_p.E197D|CCDC102B_uc002lkj.1_Missense_Mutation_p.E197D	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	197										ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				CTACAAAGGAGGACACAAATA	0.348													101	42	---	---	---	---	PASS	T	66504591	T	T	66504591	3	4	151	1	0	0	0	0	1	0	0	0	2737	991	35	3	593	3	CCDC102B	18	66504591	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	45003050	66504591	11572657	375	53943										
CCDC102B	79839	broad.mit.edu	37	chr18	66678241	66678241	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggcaaatattgcagaactgaCtcatgcaaacaaccgagtgg	10	9	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr18:66678241C>G	uc002lkk.2	+	9	1557	c.1334C>G	c.(1333-1335)ACT>AGT	p.T445S	CCDC102B_uc002lki.2_Missense_Mutation_p.T445S	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	445	Potential.									ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				GCAGAACTGACTCATGCAAAC	0.348													46	15	---	---	---	---	PASS	G	66678241	G	G	66678241	3	3	151	1	0	0	0	0	1	0	0	0	2737	565	20	4	1356	4	CCDC102B	18	66678241	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	173650	66678241	11399007	376	53944										
ACER1	125981	broad.mit.edu	37	chr19	6309832	6309832	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agtggtgatgaagaccaggcGgatgaactgggacctgggga	18	6	0	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:6309832G>A	uc002mel.2	-	4	442	c.364C>T	c.(364-366)CGC>TGC	p.R122C		NM_133492	NP_597999	Q8TDN7	ACER1_HUMAN	alkaline ceramidase 1	122	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	ceramidase activity				0						AAGACCAGGCGGATGAACTGG	0.612													26	60	---	---	---	---	PASS	A	6309832	A	A	6309832	3	1	151	1	0	0	0	0	1	0	0	0	138	1116	39	1	442	1	ACER1	19	6309832	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08		6309832	52819151	377	53945										
LASS4	79603	broad.mit.edu	37	chr19	8322848	8322848	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctttgtcttcttctacacccGactggtcctctttcccaccc	4	18	4	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:8322848G>A	uc002mjg.2	+	10	1147	c.827G>A	c.(826-828)CGA>CAA	p.R276Q	LASS4_uc002mjh.2_Missense_Mutation_p.R225Q|LASS4_uc002mji.2_Missense_Mutation_p.R112Q|LASS4_uc010dvz.2_Intron	NM_024552	NP_078828	Q9HA82	CERS4_HUMAN	LAG1 homolog, ceramide synthase 4	276	TLC.|Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(1)	1						TTCTACACCCGACTGGTCCTC	0.562													64	238	---	---	---	---	PASS	A	8322848	A	A	8322848	3	1	151	1	0	0	0	0	1	0	0	0	8641	1058	37	2	857	2	LASS4	19	8322848	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	2013016	8322848	50806135	378	53946										
MUC16	94025	broad.mit.edu	37	chr19	8994501	8994501	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	taccgcaggttagtgatggtGaagttgagggtgaatagtat	15	3	0	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:8994501G>A	uc002mkp.2	-	64	41595	c.41391C>T	c.(41389-41391)TTC>TTT	p.F13797F	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.F614F|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13799	Extracellular (Potential).|SEA 12.|ANK 1.			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						TAGTGATGGTGAAGTTGAGGG	0.483													43	269	---	---	---	---	PASS	A	8994501	A	A	8994501	2	1	151	1	0	0	0	0	0	0	0	1	9973	1281	45	2		2	MUC16	19	8994501	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	671653	8994501	50134482	379	53947										
MUC16	94025	broad.mit.edu	37	chr19	9087854	9087854	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agtggtgatgtaggtggtggGgtcccaggtactaccagtgt	17	6	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:9087854G>C	uc002mkp.2	-	1	4165	c.3961C>G	c.(3961-3963)CCC>GCC	p.P1321A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1321	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TAGGTGGTGGGGTCCCAGGTA	0.507													68	133	---	---	---	---	PASS	C	9087854	C	C	9087854	3	2	151	1	0	0	0	0	1	0	0	0	9973	1232	43	4	39898	4	MUC16	19	9087854	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	93353	9087854	50041129	380	53948										
CARM1	10498	broad.mit.edu	37	chr19	11032100	11032100	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcccggatgggctccataatGagcacggggattgtccaagg	14	10	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:11032100G>C	uc002mpz.2	+	15	1791	c.1665G>C	c.(1663-1665)ATG>ATC	p.M555I	CARM1_uc010dxn.2_RNA|CARM1_uc002mqa.2_Intron	NM_199141	NP_954592	Q86X55	CARM1_HUMAN	coactivator-associated arginine	555	Transactivation domain (By similarity).				cellular lipid metabolic process|histone H3-R2 methylation|interspecies interaction between organisms|pathogenesis|positive regulation of fat cell differentiation|regulation of estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleoplasm	beta-catenin binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-R17 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein-arginine omega-N asymmetric methyltransferase activity|transcription regulatory region DNA binding				0						GCTCCATAATGAGCACGGGGA	0.672													100	228	---	---	---	---	PASS	C	11032100	C	C	11032100	3	2	151	1	0	0	0	0	1	0	0	0	2655	1290	45	2	1723	2	CARM1	19	11032100	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1944246	11032100	48096883	381	53949										
ZNF653	115950	broad.mit.edu	37	chr19	11598418	11598418	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caaagagggcgctggggcccGcacccacttgcacaggcacc	13	16	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:11598418G>A	uc002mrz.1	-	4	913	c.860C>T	c.(859-861)GCG>GTG	p.A287V		NM_138783	NP_620138	Q96CK0	ZN653_HUMAN	zinc finger protein 653	287					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCTGGGGCCCGCACCCACTTG	0.687													4	169	---	---	---	---	PASS	A	11598418	A	A	11598418	3	1	151	1	0	0	0	0	1	0	0	0	18063	1087	38	1	1011	1	ZNF653	19	11598418	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	566318	11598418	47530565	382	53950										
ZNF763	284390	broad.mit.edu	37	chr19	12089587	12089587	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aacccacactgggggaaagcCatatgaatgtaaacaatgtg	10	8	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:12089587C>T	uc002msw.2	+	4	1003	c.848C>T	c.(847-849)CCA>CTA	p.P283L	ZNF763_uc010xmf.1_Missense_Mutation_p.P303L|ZNF763_uc002msv.2_Missense_Mutation_p.P286L|ZNF763_uc010xmg.1_Missense_Mutation_p.P161L	NM_001012753	NP_001012771	Q0D2J5	ZN763_HUMAN	zinc finger protein 763	283					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						GGGGGAAAGCCATATGAATGT	0.418													97	78	---	---	---	---	PASS	T	12089587	T	T	12089587	3	4	151	1	0	0	0	0	1	0	0	0	18134	594	21	3	871	3	ZNF763	19	12089587	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	491169	12089587	47039396	383	53951										
ZNF433	163059	broad.mit.edu	37	chr19	12126290	12126290	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atcctttcatgtatttgaaaGaaagagaaattactaaatgg	7	4	1	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:12126290G>C	uc002msy.1	-	4	1563	c.1392C>G	c.(1390-1392)TTC>TTG	p.F464L	uc002msx.1_Intron|ZNF433_uc002msz.1_Missense_Mutation_p.F429L	NM_001080411	NP_001073880	Q8N7K0	ZN433_HUMAN	zinc finger protein 433	464	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTATTTGAAAGAAAGAGAAAT	0.393													31	141	---	---	---	---	PASS	C	12126290	C	C	12126290	3	2	151	1	0	0	0	0	1	0	0	0	17904	933	33	2	633	2	ZNF433	19	12126290	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	36703	12126290	47002693	384	53952										
ZNF44	51710	broad.mit.edu	37	chr19	12384865	12384865	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tttacttttaccaaatctctCtaccacatcacacctgtaaa	1	13	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:12384865C>T	uc010xmj.1	-	5	554	c.349G>A	c.(349-351)GAG>AAG	p.E117K	ZNF44_uc002mtl.2_Intron|ZNF44_uc010dyr.1_Intron|ZNF44_uc010xmi.1_RNA|ZNF44_uc002mtn.3_RNA|ZNF44_uc010dys.2_Missense_Mutation_p.E69K	NM_001164276	NP_001157748	P15621	ZNF44_HUMAN	zinc finger protein 44 isoform 1	117	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		Renal(1328;0.157)		GBM - Glioblastoma multiforme(1328;0.0164)|Lung(535;0.179)		CCAAATCTCTCTACCACATCA	0.313													94	525	---	---	---	---	PASS	T	12384865	T	T	12384865	3	4	151	1	0	0	0	0	1	0	0	0	17909	922	32	2	1646	2	ZNF44	19	12384865	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	258575	12384865	46744118	385	53953										
EMR3	84658	broad.mit.edu	37	chr19	14740935	14740935	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aagaggtaggccatgacctgGgcagctggacccacctgtag	14	11	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:14740935G>T	uc002mzi.3	-	14	1876	c.1728C>A	c.(1726-1728)GCC>GCA	p.A576A	EMR3_uc010dzp.2_Silent_p.A524A|EMR3_uc010xnv.1_Silent_p.A450A	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	576	Helical; Name=6; (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						CCATGACCTGGGCAGCTGGAC	0.557													74	68	---	---	---	---	PASS	T	14740935	T	T	14740935	2	4	151	1	0	0	0	0	0	0	0	1	5106	1219	43	3		3	EMR3	19	14740935	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	2356070	14740935	44388048	386	53954										
RASAL3	64926	broad.mit.edu	37	chr19	15564029	15564029	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agcgaggcggagtcccgggtCcaaggccgggcgcggggcgc	21	13	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:15564029C>T	uc002nbe.2	-	15	2645	c.2559G>A	c.(2557-2559)TGG>TGA	p.W853*	RASAL3_uc002nbd.2_Nonsense_Mutation_p.W193*|RASAL3_uc010eaa.1_Nonsense_Mutation_p.W341*	NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	853					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0						AGTCCCGGGTCCAAGGCCGGG	0.736													7	20	---	---	---	---	PASS	T	15564029	T	T	15564029	4	4	151	1	0	0	0	0	0	1	0	0	13065	856	30	2	492	2	RASAL3	19	15564029	Nonsense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	823094	15564029	43564954	387	53955										
CIB3	117286	broad.mit.edu	37	chr19	16280444	16280444	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccatggcctgggcataccttCagctcgggcatgctgccaat	11	14	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:16280444C>G	uc002nds.2	-	3	195	c.195G>C	c.(193-195)CTG>CTC	p.L65L	CIB3_uc010eae.2_Silent_p.L4L|CIB3_uc010eaf.2_Intron|CIB3_uc010eag.2_Intron	NM_054113	NP_473454	Q96Q77	CIB3_HUMAN	DNA-dependent protein kinase catalytic	65							calcium ion binding			ovary(1)	1						GGCATACCTTCAGCTCGGGCA	0.433													20	54	---	---	---	---	PASS	G	16280444	G	G	16280444	2	3	151	1	0	0	0	0	0	0	0	1	3422	813	29	2		2	CIB3	19	16280444	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	716415	16280444	42848539	388	53956										
CPAMD8	27151	broad.mit.edu	37	chr19	17049240	17049240	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atgcgctgtaggtgtacgccCgggggactccttccgcctga	14	13	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:17049240C>A	uc002nfb.2	-	23	2983	c.2951G>T	c.(2950-2952)CGG>CTG	p.R984L		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	937						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						GGTGTACGCCCGGGGGACTCC	0.617													14	36	---	---	---	---	PASS	A	17049240	A	A	17049240	3	1	151	1	0	0	0	0	1	0	0	0	3795	652	23	1	2927	1	CPAMD8	19	17049240	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	768796	17049240	42079743	389	53957										
UNC13A	23025	broad.mit.edu	37	chr19	17728602	17728602	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tagcgcaaggattgcaggtcCgggctcttctccaggaaggt	14	10	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:17728602C>T	uc002nhd.2	-	40	4731	c.4731G>A	c.(4729-4731)CCG>CCA	p.P1577P		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1489	MHD2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						ATTGCAGGTCCGGGCTCTTCT	0.597													42	172	---	---	---	---	PASS	T	17728602	T	T	17728602	2	4	151	1	0	0	0	0	0	0	0	1	16981	639	23	1		1	UNC13A	19	17728602	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	679362	17728602	41400381	390	53958										
SLC5A5	6528	broad.mit.edu	37	chr19	18001770	18001770	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcagacagcatcagtggcccCcaaggaagaagtggccatcc	12	13	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:18001770C>T	uc002nhr.3	+	14	2074	c.1727C>T	c.(1726-1728)CCC>CTC	p.P576L		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	576	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						TCAGTGGCCCCCAAGGAAGAA	0.592													135	211	---	---	---	---	PASS	T	18001770	T	T	18001770	3	4	151	1	0	0	0	0	1	0	0	0	14668	623	22	3	1781	3	SLC5A5	19	18001770	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	273168	18001770	41127213	391	53959										
NCAN	1463	broad.mit.edu	37	chr19	19349166	19349166	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccgagaaggactgccgccgcCgctccggccacctgaccagc	12	19	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:19349166C>A	uc002nlz.2	+	11	3454	c.3355C>A	c.(3355-3357)CGC>AGC	p.R1119S	NCAN_uc010ecc.1_Missense_Mutation_p.R683S|NCAN_uc002nma.2_5'Flank	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	1119	C-type lectin.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			CTGCCGCCGCCGCTCCGGCCA	0.652													52	100	---	---	---	---	PASS	A	19349166	A	A	19349166	3	1	151	1	0	0	0	0	1	0	0	0	10204	652	23	1	3393	1	NCAN	19	19349166	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1347396	19349166	39779817	392	53960										
ZNF626	199777	broad.mit.edu	37	chr19	20807233	20807233	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaaggctttgccacattcttCacatttgtagggtctctctc	8	11	4	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:20807233C>T	uc002npb.1	-	4	1600	c.1450G>A	c.(1450-1452)GAA>AAA	p.E484K	ZNF626_uc002npc.1_Missense_Mutation_p.E408K	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	484	C2H2-type 12; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CCACATTCTTCACATTTGTAG	0.388													8	76	---	---	---	---	PASS	T	20807233	T	T	20807233	3	4	151	1	0	0	0	0	1	0	0	0	18047	835	29	2	140	2	ZNF626	19	20807233	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1458067	20807233	38321750	393	53961			1	58		3	3	452	N	T_C	1.967893e-05
ZNF626	199777	broad.mit.edu	37	chr19	20807401	20807401	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaaggctttgccacattcttCacatttgtagggtctctctc	8	11	4	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:20807401C>T	uc002npb.1	-	4	1432	c.1282G>A	c.(1282-1284)GAA>AAA	p.E428K	ZNF626_uc002npc.1_Missense_Mutation_p.E352K	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	428	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CCACATTCTTCACATTTGTAG	0.388													52	296	---	---	---	---	PASS	T	20807401	T	T	20807401	3	4	151	1	0	0	0	0	1	0	0	0	18047	835	29	2	308	2	ZNF626	19	20807401	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	168	20807401	38321582	394	53962			1	58		3	3	452	N	T_C	1.967893e-05
ZNF626	199777	broad.mit.edu	37	chr19	20807684	20807684	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggtttgtcttcagtatgaatTcttttatgtgtagtaagggt	11	3	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:20807684T>A	uc002npb.1	-	4	1149	c.999A>T	c.(997-999)AGA>AGT	p.R333S	ZNF626_uc002npc.1_Missense_Mutation_p.R257S	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	333	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CAGTATGAATTCTTTTATGTG	0.353													85	432	---	---	---	---	PASS	A	20807684	A	A	20807684	3	1	151	1	0	0	0	0	1	0	0	0	18047	1780	62	5	591	5	ZNF626	19	20807684	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	283	20807684	38321299	395	53963			1	58		3	3	452	N	T_C	1.967893e-05
ZNF85	7639	broad.mit.edu	37	chr19	21131617	21131617	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	aaagattctttccaaaaagtGacactgaaaagatatggaaa	7	5	1	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:21131617G>A	uc002npg.3	+	4	424	c.297G>A	c.(295-297)GTG>GTA	p.V99V	ZNF85_uc010ecn.2_Silent_p.V34V|ZNF85_uc010eco.2_Silent_p.V47V|ZNF85_uc002npi.2_Silent_p.V40V	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	99						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						TCCAAAAAGTGACACTGAAAA	0.348													43	259	---	---	---	---	PASS	A	21131617	A	A	21131617	2	1	151	1	0	0	0	0	0	0	0	1	18190	1277	45	2		2	ZNF85	19	21131617	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	323933	21131617	37997366	396	53964										
ZNF208	7757	broad.mit.edu	37	chr19	22155510	22155510	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acattcttcacatttgtaggGtttctctacagtatgaattt	6	7	3	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:22155510G>T	uc002nqp.2	-	5	2175	c.2026C>A	c.(2026-2028)CCC>ACC	p.P676T	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				CATTTGTAGGGTTTCTCTACA	0.363													62	64	---	---	---	---	PASS	T	22155510	T	T	22155510	3	4	151	1	0	0	0	0	1	0	0	0	17763	1261	44	3	1520	3	ZNF208	19	22155510	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1023893	22155510	36973473	397	53965										
ZNF536	9745	broad.mit.edu	37	chr19	30936483	30936483	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acgtgggcctggatgagcggCgtggctcgggcagtgaccag	19	10	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:30936483C>T	uc002nsu.1	+	2	2152	c.2014C>T	c.(2014-2016)CGT>TGT	p.R672C	ZNF536_uc010edd.1_Missense_Mutation_p.R672C	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	672					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GGATGAGCGGCGTGGCTCGGG	0.692													31	91	---	---	---	---	PASS	T	30936483	T	T	30936483	3	4	151	1	0	0	0	0	1	0	0	0	17971	768	27	1	2016	1	ZNF536	19	30936483	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	8780973	30936483	28192500	398	53966										
SLC7A9	11136	broad.mit.edu	37	chr19	33355641	33355641	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acgaagatcccagagccaatGatggtgcccacgatgatgga	12	10	0	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:33355641G>A	uc002ntv.3	-	3	246	c.129C>T	c.(127-129)ATC>ATT	p.I43I	SLC7A9_uc002ntt.3_Intron|SLC7A9_uc002ntu.3_Silent_p.I43I|SLC7A9_uc002ntw.3_Intron	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	43	Helical; (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	CAGAGCCAATGATGGTGCCCA	0.627													50	457	---	---	---	---	PASS	A	33355641	A	A	33355641	2	1	151	1	0	0	0	0	0	0	0	1	14705	1280	45	2		2	SLC7A9	19	33355641	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	2419158	33355641	25773342	399	53967										
PEPD	5184	broad.mit.edu	37	chr19	33878385	33878385	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acgacgtcctcctcgatgcgGacctgggtcaagccgacaga	12	14	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:33878385G>A	uc002nur.3	-	15	1482	c.1347C>T	c.(1345-1347)GTC>GTT	p.V449V	PEPD_uc010xrr.1_Silent_p.V408V|PEPD_uc010xrs.1_Silent_p.V385V|PEPD_uc002nuq.3_Silent_p.V128V	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	449					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)					CCTCGATGCGGACCTGGGTCA	0.612													43	243	---	---	---	---	PASS	A	33878385	A	A	33878385	2	1	151	1	0	0	0	0	0	0	0	1	11728	1161	41	2		2	PEPD	19	33878385	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	522744	33878385	25250598	400	53968										
PDCD2L	84306	broad.mit.edu	37	chr19	34895654	34895654	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttgcccgctggaaggctcccCgtttcaccgtctgctgcacg	11	16	2	0	rs143274693		TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:34895654C>G	uc002nvj.2	+	2	242	c.209C>G	c.(208-210)CCG>CGG	p.P70R		NM_032346	NP_115722	Q9BRP1	PDD2L_HUMAN	programmed cell death 2-like	70						cytoplasm				ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			GAAGGCTCCCCGTTTCACCGT	0.706													9	71	---	---	---	---	PASS	G	34895654	G	G	34895654	3	3	151	1	0	0	0	0	1	0	0	0	11620	652	23	4	215	4	PDCD2L	19	34895654	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1017269	34895654	24233329	401	53969										
TMEM149	79713	broad.mit.edu	37	chr19	36230925	36230925	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttgctggtgagctgcgctccTgggagctaggggcgcctggg	19	10	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:36230925T>C	uc002obc.2	-	4	508	c.407A>G	c.(406-408)CAG>CGG	p.Q136R	TMEM149_uc002obb.2_Intron|TMEM149_uc002obd.3_Missense_Mutation_p.Q136R|TMEM149_uc010xsy.1_RNA|TMEM149_uc010eej.2_Missense_Mutation_p.Q216R	NM_024660	NP_078936	Q9H665	IGFR1_HUMAN	transmembrane protein 149 precursor	136	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding|receptor activity				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GCTGCGCTCCTGGGAGCTAGG	0.652													114	53	---	---	---	---	PASS	C	36230925	C	C	36230925	3	2	151	1	0	0	0	0	1	0	0	0	16059	1580	55	5	668	5	TMEM149	19	36230925	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	1335271	36230925	22898058	402	53970										
NPHS1	4868	broad.mit.edu	37	chr19	36339015	36339015	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agcctcacccgggtcccagcCcggagcttctggccctctgg	12	18	3	0	rs141962470		TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:36339015C>A	uc002oby.2	-	11	1368	c.1368G>T	c.(1366-1368)CGG>CGT	p.R456R		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	456	Extracellular (Potential).|Ig-like C2-type 5.				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGGTCCCAGCCCGGAGCTTCT	0.622													75	298	---	---	---	---	PASS	A	36339015	A	A	36339015	2	1	151	1	0	0	0	0	0	0	0	1	10582	610	22	3		3	NPHS1	19	36339015	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	108090	36339015	22789968	403	53971										
TYROBP	7305	broad.mit.edu	37	chr19	36398483	36398483	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caccgtagagcaactgcaatCtgcagcacaggggtcagggg	14	11	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:36398483C>T	uc002ocm.2	-	3	151	c.95_splice	c.e3-1	p.D32_splice	TYROBP_uc002ocn.2_Splice_Site_p.D32_splice	NM_003332	NP_003323	O43914	TYOBP_HUMAN	TYRO protein tyrosine kinase binding protein						axon guidance|cell junction assembly|cellular defense response|intracellular signal transduction|regulation of immune response	integral to plasma membrane|intracellular	identical protein binding|receptor signaling protein activity				0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CAACTGCAATCTGCAGCACAG	0.632													22	121	---	---	---	---	PASS	T	36398483	T	T	36398483	5	4	151	1	0	0	0	0	0	0	1	0	16812	927	32	2	259	2	TYROBP	19	36398483	Splice_Site	SNP	C	TCGA-66-2766-01A-01D-1522-08	59468	36398483	22730500	404	53972										
ZNF790	388536	broad.mit.edu	37	chr19	37309846	37309846	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cagtatgaattttctgatgtCgattaaactctgagccatga	8	7	2	4			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:37309846C>T	uc002oew.2	-	5	1519	c.1400G>A	c.(1399-1401)CGA>CAA	p.R467Q	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	467	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TTTCTGATGTCGATTAAACTC	0.368													6	459	---	---	---	---	PASS	T	37309846	T	T	37309846	3	4	151	1	0	0	0	0	1	0	0	0	18159	884	31	2	514	2	ZNF790	19	37309846	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	911363	37309846	21819137	405	53973										
CATSPERG	57828	broad.mit.edu	37	chr19	38851187	38851187	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gctgttcccttccaagggctGgcaggtgcacatcagcttaa	11	12	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:38851187G>A	uc002oih.3	+	15	1754	c.1667G>A	c.(1666-1668)TGG>TAG	p.W556*	CATSPERG_uc002oig.3_Nonsense_Mutation_p.W516*|CATSPERG_uc002oif.3_Nonsense_Mutation_p.W196*|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	556	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						TCCAAGGGCTGGCAGGTGCAC	0.552													310	65	---	---	---	---	PASS	A	38851187	A	A	38851187	4	1	151	1	0	0	0	0	0	1	0	0	2692	1357	47	3	1721	3	CATSPERG	19	38851187	Nonsense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1541341	38851187	20277796	406	53974										
SERTAD3	29946	broad.mit.edu	37	chr19	40947845	40947845	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcctgcggaggctgggtgctCgggggcccaggctgcgctgg	21	12	0	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:40947845C>T	uc002onu.3	-	2	421	c.143G>A	c.(142-144)CGA>CAA	p.R48Q	SERTAD3_uc002onv.3_Missense_Mutation_p.R48Q	NM_013368	NP_037500	Q9UJW9	SRTD3_HUMAN	RPA-binding trans-activator	48	SERTA.				negative regulation of cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding				0			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GCTGGGTGCTCGGGGGCCCAG	0.672													20	125	---	---	---	---	PASS	T	40947845	T	T	40947845	3	4	151	1	0	0	0	0	1	0	0	0	14122	884	31	2	451	2	SERTAD3	19	40947845	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	2096658	40947845	18181138	407	53975										
SPTBN4	57731	broad.mit.edu	37	chr19	40993684	40993684	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcgtgggctgccacatcgggGacctctatgtggacctccgg	15	13	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:40993684G>T	uc002ony.2	+	3	336	c.250G>T	c.(250-252)GAC>TAC	p.D84Y	SPTBN4_uc002onx.2_Missense_Mutation_p.D84Y|SPTBN4_uc002onz.2_Missense_Mutation_p.D84Y	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	84	CH 1.|Actin-binding.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCACATCGGGGACCTCTATGT	0.657													34	241	---	---	---	---	PASS	T	40993684	T	T	40993684	3	4	151	1	0	0	0	0	1	0	0	0	15120	1174	41	2	256	2	SPTBN4	19	40993684	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	45839	40993684	18135299	408	53976										
SPTBN4	57731	broad.mit.edu	37	chr19	41060526	41060526	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctgtcgcgccagtgccgggcGctgctggagatggggcaccc	17	14	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:41060526G>T	uc002ony.2	+	24	5144	c.5058G>T	c.(5056-5058)GCG>GCT	p.A1686A	SPTBN4_uc002onx.2_Silent_p.A1686A|SPTBN4_uc002onz.2_Silent_p.A1686A|SPTBN4_uc010egx.2_Silent_p.A429A|SPTBN4_uc010egy.1_Silent_p.A362A|SPTBN4_uc002ooa.2_Silent_p.A362A	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1686	Spectrin 14.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AGTGCCGGGCGCTGCTGGAGA	0.642													3	62	---	---	---	---	PASS	T	41060526	T	T	41060526	2	4	151	1	0	0	0	0	0	0	0	1	15120	1074	38	1		1	SPTBN4	19	41060526	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	66842	41060526	18068457	409	53977										
LTBP4	8425	broad.mit.edu	37	chr19	41125266	41125266	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttacagatgtgaacgagtgtGaaacactacagggtgtatgt	12	5	0	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:41125266G>A	uc002ooh.1	+	26	3286	c.3286G>A	c.(3286-3288)GAA>AAA	p.E1096K	LTBP4_uc002oog.1_Missense_Mutation_p.E1059K|LTBP4_uc002ooi.1_Missense_Mutation_p.E1029K|LTBP4_uc002ooj.1_5'UTR|LTBP4_uc002ook.1_Missense_Mutation_p.E230K|LTBP4_uc002ool.1_Missense_Mutation_p.E108K|LTBP4_uc002oom.1_RNA|LTBP4_uc010xvp.1_5'UTR	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1096	Cys-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GAACGAGTGTGAAACACTACA	0.498													178	640	---	---	---	---	PASS	A	41125266	A	A	41125266	3	1	151	1	0	0	0	0	1	0	0	0	9076	1291	45	2	3676	2	LTBP4	19	41125266	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	64740	41125266	18003717	410	53978										
FPR3	2359	broad.mit.edu	37	chr19	52327118	52327118	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cacggagtcacctttgtcttCggggtcctgggcaatgggct	14	11	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:52327118C>T	uc002pxt.1	+	2	301	c.117C>T	c.(115-117)TTC>TTT	p.F39F		NM_002030	NP_002021	P25089	FPR3_HUMAN	formyl peptide receptor-like 2	39	Helical; Name=1; (Potential).				cellular component movement|chemotaxis	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(4)|breast(1)|skin(1)	6						CCTTTGTCTTCGGGGTCCTGG	0.552													100	31	---	---	---	---	PASS	T	52327118	T	T	52327118	2	4	151	1	0	0	0	0	0	0	0	1	6040	883	31	2		2	FPR3	19	52327118	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	11201852	52327118	6801865	411	53979										
SYT5	6861	broad.mit.edu	37	chr19	55685915	55685915	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tcacagggcacctcgaagctGaaagcttcgttgtaataggg	12	9	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:55685915G>C	uc002qjm.1	-	7	1990	c.930C>G	c.(928-930)TTC>TTG	p.F310L	SYT5_uc002qjp.2_Missense_Mutation_p.F306L|SYT5_uc002qjn.1_Missense_Mutation_p.F310L|SYT5_uc002qjo.1_Missense_Mutation_p.F309L	NM_003180	NP_003171	O00445	SYT5_HUMAN	synaptotagmin V	310	Cytoplasmic (Potential).|C2 2.				energy reserve metabolic process|regulation of insulin secretion|synaptic transmission	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane	metal ion binding|transporter activity				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		CCTCGAAGCTGAAAGCTTCGT	0.532													89	172	---	---	---	---	PASS	C	55685915	C	C	55685915	3	2	151	1	0	0	0	0	1	0	0	0	15474	1281	45	2	238	2	SYT5	19	55685915	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	3358797	55685915	3443068	412	53980										
BRSK1	84446	broad.mit.edu	37	chr19	55815139	55815139	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcatcaccgatgccgggggtGgtggctcccctgtacccacc	13	16	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:55815139G>A	uc002qkg.2	+	12	1508	c.1231G>A	c.(1231-1233)GGT>AGT	p.G411S	BRSK1_uc002qkf.2_Missense_Mutation_p.G427S|BRSK1_uc002qkh.2_Missense_Mutation_p.G106S	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	411					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)		TGCCGGGGGTGGTGGCTCCCC	0.642													62	16	---	---	---	---	PASS	A	55815139	A	A	55815139	3	1	151	1	0	0	0	0	1	0	0	0	1523	1348	47	3	1277	3	BRSK1	19	55815139	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	129224	55815139	3313844	413	53981										
ZNF274	10782	broad.mit.edu	37	chr19	58723696	58723696	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gaagtccaagacacagtgttGaagcagatggagtctgctca	12	8	2	3			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr19:58723696G>C	uc002qrq.1	+	10	1608	c.1149G>C	c.(1147-1149)TTG>TTC	p.L383F	ZNF274_uc002qrr.1_Missense_Mutation_p.L351F|ZNF274_uc002qrs.1_Missense_Mutation_p.L278F|ZNF274_uc010eum.1_Missense_Mutation_p.L142F	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	383					viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		ACACAGTGTTGAAGCAGATGG	0.493													106	20	---	---	---	---	PASS	C	58723696	C	C	58723696	3	2	151	1	0	0	0	0	1	0	0	0	17806	1281	45	2	1174	2	ZNF274	19	58723696	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	2908557	58723696	405287	414	53982										
C20orf26	26074	broad.mit.edu	37	chr20	20278961	20278961	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	caactacatccgcttgtttgGccagcacgagcaactcctca	7	15	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr20:20278961G>T	uc002wru.2	+	25	3429	c.3353G>T	c.(3352-3354)GGC>GTC	p.G1118V	C20orf26_uc002wrw.2_RNA	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	1118										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		CGCTTGTTTGGCCAGCACGAG	0.468													38	11	---	---	---	---	PASS	T	20278961	T	T	20278961	3	4	151	1	0	0	0	0	1	0	0	0	2106	1203	42	3	3479	3	C20orf26	20	20278961	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08		20278961	42746559	415	53983										
PLK1S1	55857	broad.mit.edu	37	chr20	21142511	21142511	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acatctcttttggtgttgcaGgttgcagtgcacgaggggat	14	7	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr20:21142511G>C	uc002wsb.2	+	5	539	c.406_splice	c.e5-1	p.V136_splice	PLK1S1_uc010zsh.1_Splice_Site_p.V33_splice|PLK1S1_uc010zsi.1_Splice_Site_p.V3_splice|PLK1S1_uc010zsj.1_Splice_Site|uc002wsc.2_Intron|PLK1S1_uc002wsd.2_5'Flank	NM_018474	NP_060944	Q2M2Z5	KIZ_HUMAN	polo-like kinase 1 substrate 1 isoform 1						spindle organization	centrosome	protein kinase binding				0						TGGTGTTGCAGGTTGCAGTGC	0.408													34	23	---	---	---	---	PASS	C	21142511	C	C	21142511	5	2	151	1	0	0	0	0	0	0	1	0	12095	1014	35	4	423	4	PLK1S1	20	21142511	Splice_Site	SNP	G	TCGA-66-2766-01A-01D-1522-08	863550	21142511	41883009	416	53984										
C20orf132	140699	broad.mit.edu	37	chr20	35769624	35769624	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cagtaattctcctgctgatcGctggatgcagggatgtttca	11	9	2	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr20:35769624G>T	uc010zvu.1	-	14	1550	c.1459C>A	c.(1459-1461)CGA>AGA	p.R487R	C20orf132_uc002xgk.2_Intron|C20orf132_uc002xgm.2_Silent_p.R487R|C20orf132_uc002xgn.2_Silent_p.R452R	NM_152503	NP_689716	Q9H579	CT132_HUMAN	hypothetical protein LOC140699 isoform 1	362											0		Myeloproliferative disorder(115;0.00878)				CCTGCTGATCGCTGGATGCAG	0.398													12	49	---	---	---	---	PASS	T	35769624	T	T	35769624	2	4	151	1	0	0	0	0	0	0	0	1	2086	1095	38	1		1	C20orf132	20	35769624	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	14627113	35769624	27255896	417	53985										
SLC32A1	140679	broad.mit.edu	37	chr20	37357187	37357187	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	accaagtcttcttcgacgtcGccatcttcgtcatcggcggc	9	15	4	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr20:37357187G>A	uc002xjc.2	+	2	1746	c.1483G>A	c.(1483-1485)GCC>ACC	p.A495T		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	495	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CTTCGACGTCGCCATCTTCGT	0.647													11	50	---	---	---	---	PASS	A	37357187	A	A	37357187	3	1	151	1	0	0	0	0	1	0	0	0	14565	1087	38	1	1489	1	SLC32A1	20	37357187	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1587563	37357187	25668333	418	53986										
COL20A1	57642	broad.mit.edu	37	chr20	61957036	61957036	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ccagggccaccccggccaccAgggcatccccgggagagttg	14	17	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr20:61957036A>T	uc011aau.1	+	29	3465	c.3365A>T	c.(3364-3366)CAG>CTG	p.Q1122L	COL20A1_uc011aav.1_Missense_Mutation_p.Q943L	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	1122	Collagen-like 1.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CCCGGCCACCAGGGCATCCCC	0.706													7	13	---	---	---	---	PASS	T	61957036	T	T	61957036	3	4	151	1	0	0	0	0	1	0	0	0	3679	188	7	5	3475	5	COL20A1	20	61957036	Missense_Mutation	SNP	A	TCGA-66-2766-01A-01D-1522-08	24599849	61957036	1068484	419	53987										
SRMS	6725	broad.mit.edu	37	chr20	62173649	62173649	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ttcagtgtctggatctccttGgcgaggtcagtgagcttcat	12	9	5	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr20:62173649G>T	uc002yfi.1	-	5	854	c.813C>A	c.(811-813)GCC>GCA	p.A271A		NM_080823	NP_543013	Q9H3Y6	SRMS_HUMAN	src-related kinase lacking C-terminal regulatory	271	Protein kinase.						ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|lung(1)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;9.69e-09)|all cancers(9;5.84e-08)|BRCA - Breast invasive adenocarcinoma(10;3.63e-06)			GGATCTCCTTGGCGAGGTCAG	0.642													15	20	---	---	---	---	PASS	T	62173649	T	T	62173649	2	4	151	1	0	0	0	0	0	0	0	1	15151	1335	47	3		3	SRMS	20	62173649	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	216613	62173649	851871	420	53988										
TPTE	7179	broad.mit.edu	37	chr21	10906938	10906938	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gctacaacatcactggaagtCattttctcgccaaaaagtat	6	10	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr21:10906938C>T	uc002yip.1	-	24	1991	c.1623G>A	c.(1621-1623)ATG>ATA	p.M541I	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.M523I|TPTE_uc002yir.1_Missense_Mutation_p.M503I|TPTE_uc010gkv.1_Missense_Mutation_p.M403I	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	541					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CACTGGAAGTCATTTTCTCGC	0.383													28	38	---	---	---	---	PASS	T	10906938	T	T	10906938	3	4	151	1	0	0	0	0	1	0	0	0	16427	826	29	2	36	2	TPTE	21	10906938	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08		10906938	37222957	421	53989										
PCNT	5116	broad.mit.edu	37	chr21	47855969	47855969	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggctcggatgcggaccacctCcgggaacagcagcgagagct	15	13	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr21:47855969C>G	uc002zji.3	+	39	9011	c.8904C>G	c.(8902-8904)CTC>CTG	p.L2968L	PCNT_uc002zjj.2_Silent_p.L2771L	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2968	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					CGGACCACCTCCGGGAACAGC	0.677													28	56	---	---	---	---	PASS	G	47855969	G	G	47855969	2	3	151	1	0	0	0	0	0	0	0	1	11590	842	30	2		2	PCNT	21	47855969	Silent	SNP	C	TCGA-66-2766-01A-01D-1522-08	36949031	47855969	273926	422	53990										
IL17RA	23765	broad.mit.edu	37	chr22	17586799	17586799	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcatctccatcctgctggtgGgctccgtcatcctgctcatc	9	16	3	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr22:17586799G>A	uc002zly.2	+	11	1133	c.1000G>A	c.(1000-1002)GGC>AGC	p.G334S	IL17RA_uc010gqt.2_Intron	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	334	Helical; (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		CCTGCTGGTGGGCTCCGTCAT	0.448													38	36	---	---	---	---	PASS	A	17586799	A	A	17586799	3	1	151	1	0	0	0	0	1	0	0	0	7639	1232	43	3	1042	3	IL17RA	22	17586799	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08		17586799	33717767	423	53991										
PI4KA	5297	broad.mit.edu	37	chr22	21073008	21073008	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tagccgacacgttggtgatcTtgttaaagaaatcaaactcc	8	9	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr22:21073008T>C	uc002zsz.3	-	44	5276	c.5045A>G	c.(5044-5046)AAG>AGG	p.K1682R	PI4KA_uc010gsp.2_Missense_Mutation_p.K75R|PI4KA_uc002zsy.3_Missense_Mutation_p.K492R	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1682	Pleckstrin homology (PH) domain conferring phosphoinositide binding specificity (By similarity).				phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			GTTGGTGATCTTGTTAAAGAA	0.448													10	697	---	---	---	---	PASS	C	21073008	C	C	21073008	3	2	151	1	0	0	0	0	1	0	0	0	11873	1609	56	5	1137	5	PI4KA	22	21073008	Missense_Mutation	SNP	T	TCGA-66-2766-01A-01D-1522-08	3486209	21073008	30231558	424	53992										
PRAME	23532	broad.mit.edu	37	chr22	22892332	22892332	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	acgcagattaatcatctggcCcaggtaaggagaaaatttcg	10	8	2	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr22:22892332C>T	uc002zwf.2	-	4	925	c.769G>A	c.(769-771)GGC>AGC	p.G257S	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Missense_Mutation_p.G241S|PRAME_uc010gtr.2_Missense_Mutation_p.G257S|PRAME_uc002zwg.2_Missense_Mutation_p.G257S|PRAME_uc002zwh.2_Missense_Mutation_p.G257S|PRAME_uc002zwi.2_Missense_Mutation_p.G257S|PRAME_uc002zwj.2_Missense_Mutation_p.G257S|PRAME_uc002zwk.2_Missense_Mutation_p.G257S	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	257					apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		ATCATCTGGCCCAGGTAAGGA	0.483													35	117	---	---	---	---	PASS	T	22892332	T	T	22892332	3	4	151	1	0	0	0	0	1	0	0	0	12424	623	22	3	768	3	PRAME	22	22892332	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1819324	22892332	28412234	425	53993										
IGLL1	3543	broad.mit.edu	37	chr22	23922244	23922244	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggcccagggccctgctctgcGatgcagctgttgggcgcagc	16	14	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr22:23922244G>A	uc002zxd.2	-	1	252	c.134C>T	c.(133-135)TCG>TTG	p.S45L	IGLL1_uc002zxe.2_Missense_Mutation_p.S45L	NM_020070	NP_064455	P15814	IGLL1_HUMAN	immunoglobulin lambda-like polypeptide 1 isoform	45					immune response	extracellular region|membrane					0						CCTGCTCTGCGATGCAGCTGT	0.697													7	1	---	---	---	---	PASS	A	23922244	A	A	23922244	3	1	151	1	0	0	0	0	1	0	0	0	7593	1059	37	2	519	2	IGLL1	22	23922244	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	1029912	23922244	27382322	426	53994										
RGL4	266747	broad.mit.edu	37	chr22	24034261	24034261	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcctgcagctgcagtcttgaGtgcccaggtgtacagtgctg	14	11	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr22:24034261G>T	uc002zxn.2	+	1	1214	c.44G>T	c.(43-45)AGT>ATT	p.S15I	LOC91316_uc002zxh.3_RNA|LOC91316_uc002zxi.3_RNA|LOC91316_uc002zxk.3_Intron|LOC91316_uc010gua.2_Intron|LOC91316_uc002zxl.3_Intron|LOC91316_uc011aiz.1_Intron|LOC91316_uc002zxm.3_Intron|RGL4_uc002zxo.2_Missense_Mutation_p.S15I|RGL4_uc002zxp.1_5'UTR|RGL4_uc002zxq.2_5'UTR	NM_153615	NP_705843	Q8IZJ4	RGDSR_HUMAN	ral guanine nucleotide dissociation	15					small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle	guanyl-nucleotide exchange factor activity			ovary(1)	1						GCAGTCTTGAGTGCCCAGGTG	0.597													40	120	---	---	---	---	PASS	T	24034261	T	T	24034261	3	4	151	1	0	0	0	0	1	0	0	0	13279	1029	36	3	46	3	RGL4	22	24034261	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	112017	24034261	27270305	427	53995										
SMARCB1	6598	broad.mit.edu	37	chr22	24143214	24143214	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	agatgccgtgccatgctccaCaaccatcaacaggaaccgca	8	15	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr22:24143214C>A	uc002zyb.2	+	4	653	c.446C>A	c.(445-447)ACA>AAA	p.T149K	SMARCB1_uc002zyg.2_Missense_Mutation_p.T149K|SMARCB1_uc011ajb.1_Missense_Mutation_p.T140K|SMARCB1_uc002zya.2_Missense_Mutation_p.T149K|SMARCB1_uc002zyc.2_Missense_Mutation_p.T140K|SMARCB1_uc002zyd.2_Missense_Mutation_p.T140K|SMARCB1_uc002zye.1_Intron|SMARCB1_uc002zyf.1_Intron|SMARCB1_uc010gue.1_Intron	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	149	DNA-binding (Potential).				cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.?(5)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				CCATGCTCCACAACCATCAAC	0.567			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				21	109	---	---	---	---	PASS	A	24143214	A	A	24143214	3	1	151	1	0	0	0	0	1	0	0	0	14774	478	17	3	460	3	SMARCB1	22	24143214	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	108953	24143214	27161352	428	53996										
IL2RB	3560	broad.mit.edu	37	chr22	37535167	37535167	+	Frame_Shift_Del	DEL	G	-	-													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cctcactcacggttctcaaaGggcttgaagtcctggatggc							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr22:37535167delG	uc003aqv.1	-	5	509	c.378delC	c.(376-378)CCCfs	p.P126fs		NM_000878	NP_000869	P14784	IL2RB_HUMAN	interleukin 2 receptor beta precursor	126	Extracellular (Potential).				interspecies interaction between organisms|positive regulation of survival gene product expression|protein complex assembly	external side of plasma membrane|integral to plasma membrane	interleukin-2 receptor activity				0					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	GGTTCTCAAAGGGCTTGAAGT	0.607													20	12	---	---	---	---		-	37535167	-	-	37535167	7	5	151	1	0	1	0	1	0	0	0	0	7687	987	35	0	1301	0	IL2RB	22	37535167	Frame_Shift_Del	DEL	G	TCGA-66-2766-01A-01D-1522-08	13391953	37535167	13769399	429	53997										
PHF21B	112885	broad.mit.edu	37	chr22	45312219	45312219	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gctgtcactgaccacagacaCggcggtgctgggggccatgg	16	12	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chr22:45312219C>T	uc003bfn.2	-	4	656	c.505G>A	c.(505-507)GTG>ATG	p.V169M	PHF21B_uc003bfm.2_Missense_Mutation_p.V7M|PHF21B_uc011aqk.1_Missense_Mutation_p.V157M|PHF21B_uc011aql.1_Missense_Mutation_p.V169M|PHF21B_uc011aqm.1_Missense_Mutation_p.V157M	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	PHD finger protein 21B isoform 1	169							zinc ion binding			ovary(2)|skin(1)	3		all_neural(38;0.00802)|Glioma(61;0.0353)|Ovarian(80;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0203)		ACCACAGACACGGCGGTGCTG	0.677													8	15	---	---	---	---	PASS	T	45312219	T	T	45312219	3	4	151	1	0	0	0	0	1	0	0	0	11834	536	19	1	1130	1	PHF21B	22	45312219	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	7777052	45312219	5992347	430	53998										
SYTL5	94122	broad.mit.edu	37	chrX	37967889	37967889	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	cttcttcctgacaagtcccgGaacaacaagcgtaagaccaa	7	13	1	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chrX:37967889G>A	uc004ddu.2	+	13	1905	c.1371G>A	c.(1369-1371)CGG>CGA	p.R457R	SYTL5_uc004ddv.2_Silent_p.R457R|SYTL5_uc004ddx.2_Silent_p.R479R	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	457	C2 1.				intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						ACAAGTCCCGGAACAACAAGC	0.333													9	1	---	---	---	---	PASS	A	37967889	A	A	37967889	2	1	151	1	0	0	0	0	0	0	0	1	15483	1161	41	2		2	SYTL5	23	37967889	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08		37967889	117302671	431	53999										
PHF16	9767	broad.mit.edu	37	chrX	46913584	46913584	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ctataaaaagctgcatcactGccttccacgtcacctgtgcc	6	15	2	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chrX:46913584G>T	uc004dgx.2	+	9	1048	c.997G>T	c.(997-999)GCC>TCC	p.A333S	PHF16_uc004dgy.2_Missense_Mutation_p.A333S	NM_001077445	NP_001070913	Q92613	JADE3_HUMAN	PHD finger protein 16	333					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0						CTGCATCACTGCCTTCCACGT	0.463													25	41	---	---	---	---	PASS	T	46913584	T	T	46913584	3	4	151	1	0	0	0	0	1	0	0	0	11827	1319	46	3	1027	3	PHF16	23	46913584	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	8945695	46913584	108356976	432	54000										
CFP	5199	broad.mit.edu	37	chrX	47486233	47486233	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gcatcgccagcacagaagggGcccccatgctggggcacagg	15	14	0	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chrX:47486233G>T	uc004dig.3	-	6	1005	c.879C>A	c.(877-879)GGC>GGA	p.G293G	CFP_uc004dih.2_Silent_p.G293G|CFP_uc004dii.1_Silent_p.G229G|CFP_uc010nhu.2_Silent_p.G293G	NM_001145252	NP_001138724	P27918	PROP_HUMAN	complement factor properdin precursor	293	TSP type-1 4.				complement activation, alternative pathway|defense response to bacterium	extracellular space				breast(2)|lung(1)	3						CACAGAAGGGGCCCCCATGCT	0.647													33	5	---	---	---	---	PASS	T	47486233	T	T	47486233	2	4	151	1	0	0	0	0	0	0	0	1	3293	1190	42	3		3	CFP	23	47486233	Silent	SNP	G	TCGA-66-2766-01A-01D-1522-08	572649	47486233	107784327	433	54001										
AKAP4	8852	broad.mit.edu	37	chrX	49955644	49955644	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	gtccagcaactgtttcctggCcacctttcccacagcttcat	6	16	1	0			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chrX:49955644C>A	uc004dow.1	-	6	2648	c.2524G>T	c.(2524-2526)GCC>TCC	p.A842S	AKAP4_uc004dov.1_Missense_Mutation_p.A459S|AKAP4_uc010njp.1_Missense_Mutation_p.A664S|AKAP4_uc004dou.1_Missense_Mutation_p.A833S	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	842					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					TGTTTCCTGGCCACCTTTCCC	0.532													92	25	---	---	---	---	PASS	A	49955644	A	A	49955644	3	1	151	1	0	0	0	0	1	0	0	0	453	739	26	3	44	3	AKAP4	23	49955644	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	2469411	49955644	105314916	434	54002										
GRIA3	2892	broad.mit.edu	37	chrX	122528859	122528859	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	ggaaagagtcatgcatggggGagccaacattacaggtttcc	13	8	1	1			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chrX:122528859G>A	uc004etq.3	+	7	1084	c.791G>A	c.(790-792)GGA>GAA	p.G264E	GRIA3_uc004etr.3_Missense_Mutation_p.G264E|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.G248E	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	264	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	ATGCATGGGGGAGCCAACATT	0.428													17	165	---	---	---	---	PASS	A	122528859	A	A	122528859	3	1	151	1	0	0	0	0	1	0	0	0	6769	1174	41	2	813	2	GRIA3	23	122528859	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	72573215	122528859	32741701	435	54003										
ODZ1	10178	broad.mit.edu	37	chrX	123514791	123514791	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tccagaatccgcctccccccAgtgttaccgatgagcaccag	8	17	0	2			TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chrX:123514791A>G	uc004euj.2	-	31	7837	c.7773T>C	c.(7771-7773)ACT>ACC	p.T2591T	ODZ1_uc011muj.1_Silent_p.T2597T|ODZ1_uc010nqy.2_Silent_p.T2598T	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2591	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GCCTCCCCCCAGTGTTACCGA	0.493													106	24	---	---	---	---	PASS	G	123514791	G	G	123514791	2	3	151	1	0	0	0	0	0	0	0	1	10834	175	7	5		5	ODZ1	23	123514791	Silent	SNP	A	TCGA-66-2766-01A-01D-1522-08	985932	123514791	31755769	436	54004										
LDOC1	23641	broad.mit.edu	37	chrX	140271147	140271147	+	Missense_Mutation	SNP	G	T	T													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	atgagctggctgttctcgatGctcagggcgcggtgccgcat							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chrX:140271147G>T	uc004fbj.2	-	1	164	c.60C>A	c.(58-60)AGC>AGA	p.S20R		NM_012317	NP_036449	O95751	LDOC1_HUMAN	leucine zipper, down-regulated in cancer 1	20					negative regulation of cell proliferation	nucleus	protein binding				0	Acute lymphoblastic leukemia(192;7.65e-05)					TGTTCTCGATGCTCAGGGCGC	0.672													19	3	---	---	---	---	PASS	T	140271147	T	T	140271147	3	4	151	1	0	0	0	0	1	0	0	0	8709	1310	46	3	384	3	LDOC1	23	140271147	Missense_Mutation	SNP	G	TCGA-66-2766-01A-01D-1522-08	16756356	140271147	14999413	437	54005	981	2								
LDOC1	23641	broad.mit.edu	37	chrX	140271148	140271148	+	Missense_Mutation	SNP	C	T	T													0.194444444444444	84	3.618717763424e-19	2.87928562523376	3.40521057596942	2.62937802452958	0.00575327010154435	0.0636455504983344	55	tgagctggctgttctcgatgCtcagggcgcggtgccgcatc							TCGA-66-2766-01A-01D-1522-08	TCGA-66-2766-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	452b75d0-1818-46aa-8804-9cfc0bd66449	81a4d615-e95e-4c17-87f7-c06d8dd4975a	g.chrX:140271148C>T	uc004fbj.2	-	1	163	c.59G>A	c.(58-60)AGC>AAC	p.S20N		NM_012317	NP_036449	O95751	LDOC1_HUMAN	leucine zipper, down-regulated in cancer 1	20					negative regulation of cell proliferation	nucleus	protein binding				0	Acute lymphoblastic leukemia(192;7.65e-05)					GTTCTCGATGCTCAGGGCGCG	0.672													19	3	---	---	---	---	PASS	T	140271148	T	T	140271148	3	4	151	1	0	0	0	0	1	0	0	0	8709	797	28	3	385	3	LDOC1	23	140271148	Missense_Mutation	SNP	C	TCGA-66-2766-01A-01D-1522-08	1	140271148	14999412	438	54006	981	2								
AGRN	375790	broad.mit.edu	37	chr1	978953	978953	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gccgctttggagccctgtgcGaggccgagaccgggcgctgc	17	14	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:978953G>A	uc001ack.1	+	9	1689	c.1639G>A	c.(1639-1641)GAG>AAG	p.E547K		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	547	Kazal-like 6.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		AGCCCTGTGCGAGGCCGAGAC	0.692													5	78	---	---	---	---	PASS	A	978953	A	A	978953	3	1	152	1	0	0	0	0	1	0	0	0	397	1059	37	2	1673	2	AGRN	1	978953	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08		978953	248271668	1	54007										
AGRN	375790	broad.mit.edu	37	chr1	982720	982720	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cccacagccaccaaggtgttCcagggcgtcctggagctgga	13	14	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:982720C>A	uc001ack.1	+	20	3452	c.3402C>A	c.(3400-3402)TTC>TTA	p.F1134L		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	1134	SEA.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		CCAAGGTGTTCCAGGGCGTCC	0.657													19	64	---	---	---	---	PASS	A	982720	A	A	982720	3	1	152	1	0	0	0	0	1	0	0	0	397	854	30	2	3480	2	AGRN	1	982720	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	3767	982720	248267901	2	54008										
GPR157	80045	broad.mit.edu	37	chr1	9188713	9188713	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccgccacccacctgacgacaTggaaggcccaaagcaggcga	11	16	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:9188713T>A	uc001apq.1	-	1	517	c.374A>T	c.(373-375)CAT>CTT	p.H125L	GPR157_uc010oad.1_Missense_Mutation_p.H125L|GPR157_uc001apr.2_Missense_Mutation_p.H125L|GPR157_uc001aps.2_Silent_p.P173P	NM_024980	NP_079256	Q5UAW9	GP157_HUMAN	G protein-coupled receptor 157	125	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_lung(157;0.185)	all_epithelial(116;5.02e-20)|all_lung(118;3.6e-06)|Lung NSC(185;7.93e-06)|Renal(390;0.000147)|Breast(348;0.000688)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.16e-07)|COAD - Colon adenocarcinoma(227;7.73e-05)|Kidney(185;0.000252)|KIRC - Kidney renal clear cell carcinoma(229;0.000917)|STAD - Stomach adenocarcinoma(132;0.00178)|BRCA - Breast invasive adenocarcinoma(304;0.00186)|READ - Rectum adenocarcinoma(331;0.0642)		CCTGACGACATGGAAGGCCCA	0.667													15	26	---	---	---	---	PASS	A	9188713	A	A	9188713	3	1	152	1	0	0	0	0	1	0	0	0	6662	1464	51	5	649	5	GPR157	1	9188713	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	8205993	9188713	240061908	3	54009										
ALPL	249	broad.mit.edu	37	chr1	21894615	21894615	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aggtgatcatggggggtggcCggaaatacatgtaccccaag	15	8	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:21894615C>T	uc001bet.2	+	7	924	c.667C>T	c.(667-669)CGG>TGG	p.R223W	ALPL_uc010odn.1_Missense_Mutation_p.R171W|ALPL_uc010odo.1_Missense_Mutation_p.R168W|ALPL_uc010odp.1_Missense_Mutation_p.R146W|ALPL_uc001beu.3_Missense_Mutation_p.R223W	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase	223			R -> Q (in HOPS).|R -> W (in HOPS; 3% of activity; severe allele).		response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	GGGGGGTGGCCGGAAATACAT	0.557													28	88	---	---	---	---	PASS	T	21894615	T	T	21894615	3	4	152	1	0	0	0	0	1	0	0	0	547	643	23	1	689	1	ALPL	1	21894615	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	12705902	21894615	227356006	4	54010										
INPP5B	3633	broad.mit.edu	37	chr1	38330016	38330016	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	catccaaatgattttttgctGaatttttcagcagttctcgc	6	9	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:38330016G>A	uc001ccg.1	-	23	2688	c.2594C>T	c.(2593-2595)TCA>TTA	p.S865L	INPP5B_uc009vvk.1_Intron|INPP5B_uc001ccf.1_Missense_Mutation_p.S701L	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	945	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				ATTTTTTGCTGAATTTTTCAG	0.398													6	50	---	---	---	---	PASS	A	38330016	A	A	38330016	3	1	152	1	0	0	0	0	1	0	0	0	7755	1294	45	2	155	2	INPP5B	1	38330016	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	16435401	38330016	210920605	5	54011										
KIAA0467	23334	broad.mit.edu	37	chr1	43870165	43870165	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cttgcatcgacttccagcctGagatctatgtaactatccag	7	12	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:43870165G>T	uc009vws.1	+	4	526	c.442G>T	c.(442-444)GAG>TAG	p.E148*	C1orf84_uc001cjh.2_Nonsense_Mutation_p.E146*|C1orf84_uc001cji.1_RNA			Q5T011	SZT2_HUMAN	Homo sapiens mRNA for KIAA0467 protein, partial cds.	148						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CTTCCAGCCTGAGATCTATGT	0.517													60	127	---	---	---	---	PASS	T	43870165	T	T	43870165	4	4	152	1	0	0	0	0	0	1	0	0	8178	1291	45	2		2	KIAA0467	1	43870165	Nonsense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	5540149	43870165	205380456	6	54012										
PTCH2	8643	broad.mit.edu	37	chr1	45293826	45293826	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tactgtcccgtcccccagctCctggggcaggatctgaatca	10	15	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:45293826C>T	uc010olf.1	-	14	1759	c.1747G>A	c.(1747-1749)GAG>AAG	p.E583K	PTCH2_uc010olg.1_Missense_Mutation_p.E281K	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	583	Cytoplasmic (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					TCCCCCAGCTCCTGGGGCAGG	0.582									Basal_Cell_Nevus_syndrome				4	118	---	---	---	---	PASS	T	45293826	T	T	45293826	3	4	152	1	0	0	0	0	1	0	0	0	12731	864	30	2	1920	2	PTCH2	1	45293826	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	1423661	45293826	203956795	7	54013										
COL24A1	255631	broad.mit.edu	37	chr1	86210415	86210415	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgctgggttatctcgtgtgcCaagaggattcttgatgctgt	13	7	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:86210415C>A	uc001dlj.2	-	57	4648	c.4606G>T	c.(4606-4608)GGC>TGC	p.G1536C	COL24A1_uc001dli.2_Missense_Mutation_p.G651C|COL24A1_uc010osd.1_Missense_Mutation_p.G836C|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	1536	Fibrillar collagen NC1.				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)		TCTCGTGTGCCAAGAGGATTC	0.383													69	172	---	---	---	---	PASS	A	86210415	A	A	86210415	3	1	152	1	0	0	0	0	1	0	0	0	3683	594	21	3	554	3	COL24A1	1	86210415	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	40916589	86210415	163040206	8	54014										
SLC35A3	23443	broad.mit.edu	37	chr1	100477024	100477024	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tttttcaagtggctttgctgGggtttactttgagaaaatct	10	5	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:100477024G>A	uc001dsp.1	+	5	766	c.569G>A	c.(568-570)GGG>GAG	p.G190E	SLC35A3_uc001dsq.1_Missense_Mutation_p.G190E|SLC35A3_uc009wdy.1_Missense_Mutation_p.G190E|SLC35A3_uc001dsr.1_Missense_Mutation_p.G232E|SLC35A3_uc001dss.1_Missense_Mutation_p.G109E	NM_012243	NP_036375	Q9Y2D2	S35A3_HUMAN	solute carrier family 35 member 3A	190					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)		GGCTTTGCTGGGGTTTACTTT	0.338													13	128	---	---	---	---	PASS	A	100477024	A	A	100477024	3	1	152	1	0	0	0	0	1	0	0	0	14572	1232	43	3	583	3	SLC35A3	1	100477024	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	14266609	100477024	148773597	9	54015										
VCAM1	7412	broad.mit.edu	37	chr1	101188862	101188862	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gaaatggattctgtgcccacAgtaaggcaggctgtaaaaga	12	7	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:101188862A>T	uc001dti.2	+	3	747	c.627A>T	c.(625-627)ACA>ACT	p.T209T	VCAM1_uc001dtj.2_Silent_p.T209T|VCAM1_uc010ouj.1_Silent_p.T147T	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	209	Ig-like C2-type 2.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	CTGTGCCCACAGTAAGGCAGG	0.403													45	124	---	---	---	---	PASS	T	101188862	T	T	101188862	2	4	152	1	0	0	0	0	0	0	0	1	17134	175	7	5		5	VCAM1	1	101188862	Silent	SNP	A	TCGA-66-2767-01A-01D-1522-08	711838	101188862	148061759	10	54016										
SPAG17	200162	broad.mit.edu	37	chr1	118558758	118558758	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgcctctggaggagggtcatGgatttcacccttatgggcca	13	10	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:118558758G>A	uc001ehk.2	-	29	4185	c.4117C>T	c.(4117-4119)CAT>TAT	p.H1373Y		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1373						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GGAGGGTCATGGATTTCACCC	0.418													44	132	---	---	---	---	PASS	A	118558758	A	A	118558758	3	1	152	1	0	0	0	0	1	0	0	0	14979	1348	47	3	2634	3	SPAG17	1	118558758	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	17369896	118558758	130691863	11	54017										
ANKRD35	148741	broad.mit.edu	37	chr1	145566772	145566772	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gctcgccttgccctgcagctGcaggtatgttttggctgtca	12	12	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:145566772G>T	uc001eob.1	+	11	2982	c.2874G>T	c.(2872-2874)CTG>CTT	p.L958L	NBPF10_uc001emp.3_Intron	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	958	Potential.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CCCTGCAGCTGCAGGTATGTT	0.498													4	71	---	---	---	---	PASS	T	145566772	T	T	145566772	2	4	152	1	0	0	0	0	0	0	0	1	664	1306	46	3		3	ANKRD35	1	145566772	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	27008014	145566772	103683849	12	54018										
TTC24	164118	broad.mit.edu	37	chr1	156554721	156554721	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tggggccagccaggcggaggGgaccccagcaaaggcaggaa	18	11	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:156554721G>A	uc009wsc.1	+	5	604	c.464G>A	c.(463-465)GGG>GAG	p.G155E		NM_001105669	NP_001099139	A2A3L6	TTC24_HUMAN	tetratricopeptide repeat domain 24	435							binding			pancreas(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CAGGCGGAGGGGACCCCAGCA	0.612													5	11	---	---	---	---	PASS	A	156554721	A	A	156554721	3	1	152	1	0	0	0	0	1	0	0	0	16689	1232	43	3	1326	3	TTC24	1	156554721	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	10987949	156554721	92695900	13	54019										
CD1C	911	broad.mit.edu	37	chr1	158262570	158262570	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gatgggacatggtatcttcaGgtgatcctggaggtggcatc	15	7	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:158262570G>T	uc001fru.2	+	4	1087	c.795G>T	c.(793-795)CAG>CAT	p.Q265H	CD1C_uc001frv.2_Missense_Mutation_p.Q68H	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	265	Extracellular (Potential).|Ig-like.				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					GGTATCTTCAGGTGATCCTGG	0.517													15	135	---	---	---	---	PASS	T	158262570	T	T	158262570	3	4	152	1	0	0	0	0	1	0	0	0	2976	991	35	3	809	3	CD1C	1	158262570	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	1707849	158262570	90988051	14	54020										
CD1E	913	broad.mit.edu	37	chr1	158324246	158324246	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctccaaacttcctcctttgcCaaccacagctgggcacacag	6	17	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:158324246C>T	uc001fse.2	+	2	377	c.138C>T	c.(136-138)GCC>GCT	p.A46A	CD1E_uc010pid.1_Silent_p.A44A|CD1E_uc010pie.1_Intron|CD1E_uc010pif.1_Intron|CD1E_uc001fsd.2_Silent_p.A46A|CD1E_uc001fsk.2_Silent_p.A46A|CD1E_uc001fsj.2_Silent_p.A46A|CD1E_uc001fsc.2_Intron|CD1E_uc010pig.1_Intron|CD1E_uc001fsa.2_Intron|CD1E_uc001fsf.2_Silent_p.A46A|CD1E_uc001fry.2_Silent_p.A46A|CD1E_uc001fsg.2_Intron|CD1E_uc001fsh.2_Intron|CD1E_uc001fsi.2_Silent_p.A46A|CD1E_uc009wsv.2_Intron|CD1E_uc001frz.2_Silent_p.A46A|CD1E_uc009wsw.2_5'Flank	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	46					antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					CCTCCTTTGCCAACCACAGCT	0.567													25	205	---	---	---	---	PASS	T	158324246	T	T	158324246	2	4	152	1	0	0	0	0	0	0	0	1	2978	581	21	3		3	CD1E	1	158324246	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	61676	158324246	90926375	15	54021										
OR10T2	128360	broad.mit.edu	37	chr1	158368476	158368476	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggcagacttggacttgggccGcagatagatgatagaggcac	15	8	0	5			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:158368476G>T	uc010pih.1	-	1	781	c.781C>A	c.(781-783)CGG>AGG	p.R261R		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					GACTTGGGCCGCAGATAGATG	0.512													12	65	---	---	---	---	PASS	T	158368476	T	T	158368476	2	4	152	1	0	0	0	0	0	0	0	1	10919	1086	38	1		1	OR10T2	1	158368476	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	44230	158368476	90882145	16	54022										
SPTA1	6708	broad.mit.edu	37	chr1	158650461	158650461	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggaagtcttcaaatttcttaTgcagaacttcggtgcgctcc	9	10	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:158650461T>C	uc001fst.1	-	5	789	c.590A>G	c.(589-591)CAT>CGT	p.H197R		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	197	Spectrin 3.				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)					AAATTTCTTATGCAGAACTTC	0.478													19	209	---	---	---	---	PASS	C	158650461	C	C	158650461	3	2	152	1	0	0	0	0	1	0	0	0	15115	1464	51	5	6861	5	SPTA1	1	158650461	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	281985	158650461	90600160	17	54023										
SLAMF9	89886	broad.mit.edu	37	chr1	159921550	159921550	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttgtgtcttttctggactcgGatgacccagagtcccatggc	11	11	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:159921550G>C	uc001fus.2	-	4	888	c.771C>G	c.(769-771)ATC>ATG	p.I257M	SLAMF9_uc009wtd.2_Missense_Mutation_p.I166M|SLAMF9_uc001fut.2_3'UTR	NM_033438	NP_254273	Q96A28	SLAF9_HUMAN	SLAM family member 9 isoform 1	257	Helical; (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCTGGACTCGGATGACCCAGA	0.498													38	257	---	---	---	---	PASS	C	159921550	C	C	159921550	3	2	152	1	0	0	0	0	1	0	0	0	14371	1164	41	2	102	2	SLAMF9	1	159921550	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	1271089	159921550	89329071	18	54024										
ITLN2	142683	broad.mit.edu	37	chr1	160917807	160917807	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	acacccggaactgaacgaatCctgcaacaaattcccctgaa	6	14	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:160917807C>A	uc001fxd.2	-	7	795	c.737G>T	c.(736-738)GGA>GTA	p.G246V	ITLN2_uc009wts.2_Missense_Mutation_p.G245V|ITLN2_uc010pju.1_Missense_Mutation_p.G163V	NM_080878	NP_543154	Q8WWU7	ITLN2_HUMAN	intelectin 2 precursor	246	Fibrinogen C-terminal.				signal transduction	extracellular region	receptor binding|sugar binding			ovary(1)	1	all_cancers(52;2.99e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CTGAACGAATCCTGCAACAAA	0.468													42	98	---	---	---	---	PASS	A	160917807	A	A	160917807	3	1	152	1	0	0	0	0	1	0	0	0	7911	855	30	2	248	2	ITLN2	1	160917807	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	996257	160917807	88332814	19	54025										
GPR161	23432	broad.mit.edu	37	chr1	168054995	168054995	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aactgtccaaggacttgtgtActtcagctttcacatgaaga	8	9	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:168054995A>G	uc001gfc.2	-	8	1678	c.1364T>C	c.(1363-1365)GTA>GCA	p.V455A	GPR161_uc001gfb.2_Missense_Mutation_p.V323A|GPR161_uc010pll.1_Missense_Mutation_p.V365A|GPR161_uc010plm.1_Missense_Mutation_p.V341A|GPR161_uc009wvo.2_Missense_Mutation_p.V472A|GPR161_uc001gfd.2_Missense_Mutation_p.V455A|GPR161_uc010pln.1_Missense_Mutation_p.V475A	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2	455	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)					GGACTTGTGTACTTCAGCTTT	0.517													21	86	---	---	---	---	PASS	G	168054995	G	G	168054995	3	3	152	1	0	0	0	0	1	0	0	0	6665	391	14	5	229	5	GPR161	1	168054995	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	7137188	168054995	81195626	20	54026										
F5	2153	broad.mit.edu	37	chr1	169555541	169555541	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tagaactgccttagctgtgcCgcttctgtcccttggctccc	9	15	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:169555541C>A	uc001ggg.1	-	1	229	c.84G>T	c.(82-84)GCG>GCT	p.A28A	F5_uc010plr.1_RNA	NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	28					cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TTAGCTGTGCCGCTTCTGTCC	0.617													22	53	---	---	---	---	PASS	A	169555541	A	A	169555541	2	1	152	1	0	0	0	0	0	0	0	1	5348	639	23	1		1	F5	1	169555541	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	1500546	169555541	79695080	21	54027										
SLC9A11	284525	broad.mit.edu	37	chr1	173516829	173516829	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttatgtgaacagcaccaaccAtttgtattgcagctacatgc	7	10	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:173516829A>C	uc001giz.2	-	13	1979	c.1556T>G	c.(1555-1557)ATG>AGG	p.M519R	SLC9A11_uc009wwe.2_Missense_Mutation_p.M77R|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	519					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						AGCACCAACCATTTGTATTGC	0.358													39	119	---	---	---	---	PASS	C	173516829	C	C	173516829	3	2	152	1	0	0	0	0	1	0	0	0	14711	231	8	5	1882	5	SLC9A11	1	173516829	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	3961288	173516829	75733792	22	54028										
TNR	7143	broad.mit.edu	37	chr1	175292496	175292496	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttgcagccgcccactgctcaGaactgtaaggactgccgttt	10	13	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:175292496G>A	uc001gkp.1	-	21	4155	c.4074C>T	c.(4072-4074)TTC>TTT	p.F1358F	TNR_uc009wwu.1_Silent_p.F1358F	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1358					axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CCACTGCTCAGAACTGTAAGG	0.458													26	147	---	---	---	---	PASS	A	175292496	A	A	175292496	2	1	152	1	0	0	0	0	0	0	0	1	16335	933	33	2		2	TNR	1	175292496	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	1775667	175292496	73958125	23	54029										
CACNA1E	777	broad.mit.edu	37	chr1	181707532	181707532	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tattttgactatgtgttcacGggcgtgttcacctttgagat	10	7	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:181707532G>A	uc001gow.2	+	24	3747	c.3582G>A	c.(3580-3582)ACG>ACA	p.T1194T	CACNA1E_uc009wxs.2_Silent_p.T1082T|CACNA1E_uc001gox.1_Silent_p.T420T|CACNA1E_uc009wxt.2_Silent_p.T420T	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1194	III.|Helical; Name=S2 of repeat III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						ATGTGTTCACGGGCGTGTTCA	0.473													105	376	---	---	---	---	PASS	A	181707532	A	A	181707532	2	1	152	1	0	0	0	0	0	0	0	1	2542	1103	39	1		1	CACNA1E	1	181707532	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	6415036	181707532	67543089	24	54030										
CACNA1E	777	broad.mit.edu	37	chr1	181767477	181767477	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cccctctgtctctgacaccaGcaccccaagaagaagtcgtc	7	17	2	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:181767477G>C	uc001gow.2	+	47	6485	c.6320G>C	c.(6319-6321)AGC>ACC	p.S2107T	CACNA1E_uc009wxs.2_Missense_Mutation_p.S1995T|CACNA1E_uc009wxt.2_Missense_Mutation_p.S1376T	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	2150	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TCTGACACCAGCACCCCAAGA	0.592													51	147	---	---	---	---	PASS	C	181767477	C	C	181767477	3	2	152	1	0	0	0	0	1	0	0	0	2542	971	34	4	6506	4	CACNA1E	1	181767477	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	59945	181767477	67483144	25	54031										
TPR	7175	broad.mit.edu	37	chr1	186315403	186315403	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aacgaacttcaatattcttaCgcacttcttctgtcaccttt	3	12	5	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:186315403C>T	uc001grv.2	-	23	3257	c.2960G>A	c.(2959-2961)CGT>CAT	p.R987H		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	987	Potential.				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)		AATATTCTTACGCACTTCTTC	0.308			T	NTRK1	papillary thyroid								15	114	---	---	---	---	PASS	T	186315403	T	T	186315403	3	4	152	1	0	0	0	0	1	0	0	0	16413	536	19	1	4247	1	TPR	1	186315403	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	4547926	186315403	62935218	26	54032										
PLA2G4A	5321	broad.mit.edu	37	chr1	186957614	186957614	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caagaagatttttcaacaagGagtttctaagtaaacccaaa	6	7	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:186957614G>C	uc001gsc.2	+	18	2429	c.2224G>C	c.(2224-2226)GAG>CAG	p.E742Q	PLA2G4A_uc010pos.1_Missense_Mutation_p.E682Q	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	742					phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	TTTCAACAAGGAGTTTCTAAG	0.388													21	200	---	---	---	---	PASS	C	186957614	C	C	186957614	3	2	152	1	0	0	0	0	1	0	0	0	12001	1175	41	2	2290	2	PLA2G4A	1	186957614	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	642211	186957614	62293007	27	54033										
KCNT2	343450	broad.mit.edu	37	chr1	196398707	196398707	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tataagatggttttgtttacCtgtatgggtagaaccacaag	10	5	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:196398707C>G	uc001gtd.1	-	9	879	c.819G>C	c.(817-819)CAG>CAC	p.Q273H	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.Q273H|KCNT2_uc001gtf.1_Missense_Mutation_p.Q273H|KCNT2_uc001gtg.1_Intron|KCNT2_uc009wyu.2_Missense_Mutation_p.Q273H|KCNT2_uc009wyv.1_Missense_Mutation_p.Q248H	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	273	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TTTTGTTTACCTGTATGGGTA	0.378													15	109	---	---	---	---	PASS	G	196398707	G	G	196398707	3	3	152	1	0	0	0	0	1	0	0	0	8092	695	24	4	2668	4	KCNT2	1	196398707	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	9441093	196398707	52851914	28	54034										
F13B	2165	broad.mit.edu	37	chr1	197030095	197030095	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctcctctgtcttctttcctcCagctgtgtagtagccagtag	8	13	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:197030095C>T	uc001gtt.1	-	4	606	c.562G>A	c.(562-564)GGA>AGA	p.G188R		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	188	Sushi 3.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TTCTTTCCTCCAGCTGTGTAG	0.398													35	109	---	---	---	---	PASS	T	197030095	T	T	197030095	3	4	152	1	0	0	0	0	1	0	0	0	5341	603	21	3	1459	3	F13B	1	197030095	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	631388	197030095	52220526	29	54035										
IGFN1	91156	broad.mit.edu	37	chr1	201193963	201193963	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tggtgctgaggaccctgcagGggaaggaggttgcccacagc	17	10	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:201193963G>A	uc001gwc.2	+	10	2699	c.1927G>A	c.(1927-1929)GGG>AGG	p.G643R	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						GACCCTGCAGGGGAAGGAGGT	0.602													8	53	---	---	---	---	PASS	A	201193963	A	A	201193963	3	1	152	1	0	0	0	0	1	0	0	0	7590	1232	43	3	10525	3	IGFN1	1	201193963	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	4163868	201193963	48056658	30	54036										
ADORA1	134	broad.mit.edu	37	chr1	203098306	203098306	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	acctccgggtcaagatccctCtccggtgagtccacagcgcc	10	17	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:203098306C>T	uc001gze.1	+	3	770	c.337C>T	c.(337-339)CTC>TTC	p.L113F	ADORA1_uc001gzf.1_Missense_Mutation_p.L113F|ADORA1_uc010pqg.1_5'UTR|ADORA1_uc009xak.1_5'UTR|ADORA1_uc010pqh.1_Missense_Mutation_p.L146F	NM_000674	NP_000665	P30542	AA1R_HUMAN	adenosine A1 receptor	113	Cytoplasmic (Potential).				induction of apoptosis by extracellular signals|inflammatory response|nervous system development|phagocytosis	integral to plasma membrane				large_intestine(1)	1					Aminophylline(DB01223)|Caffeine(DB00201)|Defibrotide(DB04932)|Gabapentin(DB00996)|Imipramine(DB00458)|Pegademase bovine(DB00061)|Theophylline(DB00277)	CAAGATCCCTCTCCGGTGAGT	0.582													10	155	---	---	---	---	PASS	T	203098306	T	T	203098306	3	4	152	1	0	0	0	0	1	0	0	0	326	913	32	2	339	2	ADORA1	1	203098306	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	1904343	203098306	46152315	31	54037										
KCTD3	51133	broad.mit.edu	37	chr1	215777494	215777494	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gtgtcagtggtaactggatcGagatcgcctatggtacgagc	14	8	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:215777494G>T	uc001hks.2	+	13	1453	c.1159G>T	c.(1159-1161)GAG>TAG	p.E387*	KCTD3_uc001hkt.2_Nonsense_Mutation_p.E387*|KCTD3_uc010pub.1_Nonsense_Mutation_p.E285*|KCTD3_uc009xdn.2_Nonsense_Mutation_p.E139*	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	387						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		TAACTGGATCGAGATCGCCTA	0.443													29	161	---	---	---	---	PASS	T	215777494	T	T	215777494	4	4	152	1	0	0	0	0	0	1	0	0	8110	1059	37	2	1209	2	KCTD3	1	215777494	Nonsense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	12679188	215777494	33473127	32	54038										
USH2A	7399	broad.mit.edu	37	chr1	215972274	215972274	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aggcgattgtacaccactccTtcttctccaccacaacactc	4	17	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:215972274T>A	uc001hku.1	-	50	10320	c.9933A>T	c.(9931-9933)GAA>GAT	p.E3311D		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3311	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACACCACTCCTTCTTCTCCAC	0.502										HNSCC(13;0.011)			71	175	---	---	---	---	PASS	A	215972274	A	A	215972274	3	1	152	1	0	0	0	0	1	0	0	0	17033	1606	56	5	5767	5	USH2A	1	215972274	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	194780	215972274	33278347	33	54039										
ITPKB	3707	broad.mit.edu	37	chr1	226924302	226924302	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aatgagggagctaggcagctCcgagttcccggggtaggaga	17	8	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:226924302C>G	uc010pvo.1	-	2	1198	c.858G>C	c.(856-858)CGG>CGC	p.R286R	ITPKB_uc001hqh.2_Silent_p.R286R	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	286							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				CTAGGCAGCTCCGAGTTCCCG	0.582													38	98	---	---	---	---	PASS	G	226924302	G	G	226924302	2	3	152	1	0	0	0	0	0	0	0	1	7918	842	30	2		2	ITPKB	1	226924302	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	10952028	226924302	22326319	34	54040										
RAB4A	5867	broad.mit.edu	37	chr1	229438704	229438704	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggcgcgcacaggccccgaacGctcaggagtgtggttgttag	16	11	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:229438704G>T	uc001hth.2	+	7	845	c.637G>T	c.(637-639)GCT>TCT	p.A213S	RAB4A_uc001hti.2_RNA|RAB4A_uc001htj.2_RNA|SPHAR_uc001htk.3_5'Flank	NM_004578	NP_004569	P20338	RAB4A_HUMAN	RAB4A, member RAS oncogene family	208							GDP binding|GTP binding|GTPase activity			ovary(1)	1	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.178)				GGCCCCGAACGCTCAGGAGTG	0.577													57	140	---	---	---	---	PASS	T	229438704	T	T	229438704	3	4	152	1	0	0	0	0	1	0	0	0	12946	1087	38	1	663	1	RAB4A	1	229438704	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	2514402	229438704	19811917	35	54041										
AGT	183	broad.mit.edu	37	chr1	230838938	230838938	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cccaggaagtgcagggcagtGgcgctttgatcatacacagc	13	11	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:230838938G>T	uc001hty.3	-	5	1915	c.1407C>A	c.(1405-1407)GCC>GCA	p.A469A	AGT_uc009xfe.2_3'UTR|AGT_uc009xff.2_Silent_p.A441A	NM_000029	NP_000020	P01019	ANGT_HUMAN	angiotensinogen preproprotein	469					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|blood vessel remodeling|cell-cell signaling|cellular lipid metabolic process|G-protein signaling, coupled to cGMP nucleotide second messenger|kidney development|low-density lipoprotein particle remodeling|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of activation of JAK2 kinase activity|positive regulation of apoptosis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of cardiac muscle hypertrophy|positive regulation of cholesterol esterification|positive regulation of cytokine production|positive regulation of endothelial cell migration|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription, DNA-dependent|regulation of proteolysis|regulation of renal output by angiotensin|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|response to muscle activity involved in regulation of muscle adaptation	extracellular space|soluble fraction	acetyltransferase activator activity|growth factor activity|hormone activity|serine-type endopeptidase inhibitor activity|type 1 angiotensin receptor binding|type 2 angiotensin receptor binding				0	Breast(184;0.0735)|Ovarian(103;0.183)	all_cancers(173;4.64e-23)|all_epithelial(177;3.61e-18)|Breast(1374;0.00093)|all_neural(198;0.0604)|Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;4.4e-06)|Colorectal(1306;5.46e-06)|COAD - Colon adenocarcinoma(196;0.000256)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)	Aliskiren(DB01258)|Atorvastatin(DB01076)|Cilazapril(DB01340)|Irbesartan(DB01029)|Lisinopril(DB00722)|Ouabain(DB01092)|Simvastatin(DB00641)	GCAGGGCAGTGGCGCTTTGAT	0.612													21	131	---	---	---	---	PASS	T	230838938	T	T	230838938	2	4	152	1	0	0	0	0	0	0	0	1	399	1335	47	3		3	AGT	1	230838938	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	1400234	230838938	18411683	36	54042										
SIPA1L2	57568	broad.mit.edu	37	chr1	232600907	232600907	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttctcctttttcttcgcaccCagcgtaatgaagctgaactt	6	12	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:232600907C>A	uc001hvg.2	-	7	2657	c.2499G>T	c.(2497-2499)CTG>CTT	p.L833L	SIPA1L2_uc001hvf.2_5'Flank	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	833					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				TCTTCGCACCCAGCGTAATGA	0.532													70	193	---	---	---	---	PASS	A	232600907	A	A	232600907	2	1	152	1	0	0	0	0	0	0	0	1	14330	581	21	3		3	SIPA1L2	1	232600907	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	1761969	232600907	16649714	37	54043										
RYR2	6262	broad.mit.edu	37	chr1	237870440	237870440	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agcatggacctgagaacaatCcagaacgggccgagatgtgc	13	10	0	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:237870440C>A	uc001hyl.1	+	68	9892	c.9772C>A	c.(9772-9774)CCA>ACA	p.P3258T	RYR2_uc010pxz.1_Missense_Mutation_p.P213T	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3258					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)			TGAGAACAATCCAGAACGGGC	0.473													14	94	---	---	---	---	PASS	A	237870440	A	A	237870440	3	1	152	1	0	0	0	0	1	0	0	0	13769	855	30	2	10042	2	RYR2	1	237870440	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	5269533	237870440	11380181	38	54044										
RYR2	6262	broad.mit.edu	37	chr1	237897051	237897051	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tggcctatgcagatattatgGcaaaggtaaataagtatcct	9	6	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:237897051G>A	uc001hyl.1	+	79	11206	c.11086G>A	c.(11086-11088)GCA>ACA	p.A3696T	RYR2_uc010pya.1_Missense_Mutation_p.A92T	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3696					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)			AGATATTATGGCAAAGGTAAA	0.333													24	76	---	---	---	---	PASS	A	237897051	A	A	237897051	3	1	152	1	0	0	0	0	1	0	0	0	13769	1203	42	3	11400	3	RYR2	1	237897051	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	26611	237897051	11353570	39	54045										
RYR2	6262	broad.mit.edu	37	chr1	237947095	237947095	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aaaactaaaggatttgacgtCgtctgatacttttaaagaat	7	5	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:237947095C>G	uc001hyl.1	+	90	12203	c.12083C>G	c.(12082-12084)TCG>TGG	p.S4028W	RYR2_uc010pya.1_Missense_Mutation_p.S443W	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4028	EF-hand.				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)			GATTTGACGTCGTCTGATACT	0.418													16	48	---	---	---	---	PASS	G	237947095	G	G	237947095	3	3	152	1	0	0	0	0	1	0	0	0	13769	893	31	2	12441	2	RYR2	1	237947095	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	50044	237947095	11303526	40	54046										
OR2W5	441932	broad.mit.edu	37	chr1	247654673	247654673	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caagcattgcccctcagctgCtgtggaacctggggggtcca	13	13	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr1:247654673C>A	uc001icz.1	+	1	244	c.244C>A	c.(244-246)CTG>ATG	p.L82M		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	82					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CCCTCAGCTGCTGTGGAACCT	0.542													18	136	---	---	---	---	PASS	A	247654673	A	A	247654673	3	1	152	1	0	0	0	0	1	0	0	0	11034	796	28	3	246	3	OR2W5	1	247654673	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	9707578	247654673	1595948	41	54047										
CAD	790	broad.mit.edu	37	chr2	27447308	27447308	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aggttctgatcctgggctcaGggggcctctccattggccaa	13	12	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:27447308G>T	uc002rji.2	+	9	1366	c.1204G>T	c.(1204-1206)GGG>TGG	p.G402W	CAD_uc010eyw.2_Missense_Mutation_p.G402W	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	402	CPSase (Carbamoyl-phosphate synthase).|CPSase A.				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	CCTGGGCTCAGGGGGCCTCTC	0.602													54	177	---	---	---	---	PASS	T	27447308	T	T	27447308	3	4	152	1	0	0	0	0	1	0	0	0	2565	1000	35	3	1238	3	CAD	2	27447308	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08		27447308	215752065	42	54048										
TTC27	55622	broad.mit.edu	37	chr2	32865348	32865348	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttttttcaggttaaaggactGgatgcatttgttctgagcct	10	6	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:32865348G>T	uc002rom.2	+	4	639	c.408G>T	c.(406-408)CTG>CTT	p.L136L	TTC27_uc010ymx.1_Silent_p.L86L	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	136							protein binding			central_nervous_system(1)	1						TTAAAGGACTGGATGCATTTG	0.333													21	83	---	---	---	---	PASS	T	32865348	T	T	32865348	2	4	152	1	0	0	0	0	0	0	0	1	16692	1335	47	3		3	TTC27	2	32865348	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	5418040	32865348	210334025	43	54049										
FEZ2	9637	broad.mit.edu	37	chr2	36785621	36785622	+	Frame_Shift_Ins	INS	-	T	T													0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cttcaacagacggtggtccgINSttttttttctcataaggaat							TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:36785621_36785622insT	uc002rph.2	-	6	985_986	c.938_939insA	c.(937-939)AACfs	p.N313fs	FEZ2_uc002rpe.2_Frame_Shift_Ins_p.N142fs|FEZ2_uc002rpf.2_Frame_Shift_Ins_p.N142fs|FEZ2_uc002rpg.2_Frame_Shift_Ins_p.N340fs|FEZ2_uc002rpi.2_Frame_Shift_Ins_p.N168fs|FEZ2_uc002rpj.2_Intron	NM_005102	NP_005093	Q9UHY8	FEZ2_HUMAN	zygin 2 isoform 1	313					axon guidance|signal transduction		protein binding			ovary(1)	1		all_hematologic(82;0.21)				ACGGTGGTCCGTTTTTTTTCTC	0.317													4	2	---	---	---	---		T	36785622	T	T	36785621	7	5	152	1	0	1	1	0	0	0	0	0	5824	1136	40	0	134	0	FEZ2	2	36785621	Frame_Shift_Ins	INS	-	TCGA-66-2767-01A-01D-1522-08	3920273	36785621	206413752	44	54050										
SPTBN1	6711	broad.mit.edu	37	chr2	54856314	54856314	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cgcctgctcagcaagcaccgGgcgttcgaggacgagatgag	15	12	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:54856314G>T	uc002rxu.2	+	14	2292	c.2043G>T	c.(2041-2043)CGG>CGT	p.R681R	SPTBN1_uc002rxv.1_Silent_p.R681R|SPTBN1_uc002rxx.2_Silent_p.R668R	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	681	Spectrin 4.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			GCAAGCACCGGGCGTTCGAGG	0.597													19	66	---	---	---	---	PASS	T	54856314	T	T	54856314	2	4	152	1	0	0	0	0	0	0	0	1	15118	1219	43	3		3	SPTBN1	2	54856314	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	18070693	54856314	188343059	45	54051										
PNPT1	87178	broad.mit.edu	37	chr2	55899142	55899142	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	atacctactttgtcatgctcGtaatctgtaaaaactgcata	5	9	2	0	rs149239772	byFrequency	TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:55899142G>A	uc002rzf.2	-	10	959	c.906C>T	c.(904-906)TAC>TAT	p.Y302Y	PNPT1_uc002rzg.2_RNA	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1	302					mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TGTCATGCTCGTAATCTGTAA	0.328													66	243	---	---	---	---	PASS	A	55899142	A	A	55899142	2	1	152	1	0	0	0	0	0	0	0	1	12173	1140	40	1		1	PNPT1	2	55899142	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	1042828	55899142	187300231	46	54052										
C2orf86	51057	broad.mit.edu	37	chr2	63631360	63631360	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cagagtctccctgggtaagcGgtcttcagccaacagttgga	12	11	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:63631360G>C	uc002sch.2	-	10	1704	c.1258C>G	c.(1258-1260)CGC>GGC	p.R420G	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Missense_Mutation_p.R261G|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Missense_Mutation_p.R228G|C2orf86_uc002sci.1_Missense_Mutation_p.R396G|C2orf86_uc010fcr.1_Missense_Mutation_p.R310G	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	420					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						CTGGGTAAGCGGTCTTCAGCC	0.463													9	214	---	---	---	---	PASS	C	63631360	C	C	63631360	3	2	152	1	0	0	0	0	1	0	0	0	2201	1116	39	4	1018	4	C2orf86	2	63631360	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	7732218	63631360	179568013	47	54053										
CTNNA2	1496	broad.mit.edu	37	chr2	80773066	80773066	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tctgacactggctgcccggcCacagagcaaagttgctcagg	12	13	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:80773066C>G	uc010ysh.1	+	10	1423	c.1418C>G	c.(1417-1419)CCA>CGA	p.P473R	CTNNA2_uc010yse.1_Missense_Mutation_p.P473R|CTNNA2_uc010ysf.1_Missense_Mutation_p.P473R|CTNNA2_uc010ysg.1_Missense_Mutation_p.P473R|CTNNA2_uc010ysi.1_Missense_Mutation_p.P105R	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	473					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GCTGCCCGGCCACAGAGCAAA	0.512													10	46	---	---	---	---	PASS	G	80773066	G	G	80773066	3	3	152	1	0	0	0	0	1	0	0	0	4013	594	21	4	1248	4	CTNNA2	2	80773066	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	17141706	80773066	162426307	48	54054										
TMEM131	23505	broad.mit.edu	37	chr2	98373570	98373570	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tttttgcttaatttaattctCgtgaggaaagtgcgaattag	9	4	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:98373570C>T	uc002syh.3	-	41	5873	c.5644G>A	c.(5644-5646)GAG>AAG	p.E1882K	TMEM131_uc002syg.2_Missense_Mutation_p.E262K	NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1882						integral to membrane				ovary(4)|central_nervous_system(2)	6						ATTTAATTCTCGTGAGGAAAG	0.468													17	53	---	---	---	---	PASS	T	98373570	T	T	98373570	3	4	152	1	0	0	0	0	1	0	0	0	16041	893	31	2	11	2	TMEM131	2	98373570	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	17600504	98373570	144825803	49	54055										
MGAT4A	11320	broad.mit.edu	37	chr2	99294817	99294817	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	catttgtttctgctcctacaCgcttgaactgttgcacaatc	6	12	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:99294817C>A	uc002sze.2	-	3	526	c.212G>T	c.(211-213)CGT>CTT	p.R71L	MGAT4A_uc010fil.2_5'UTR	NM_012214	NP_036346	Q9UM21	MGT4A_HUMAN	alpha-1,3-mannosyl-glycoprotein	71	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			skin(1)	1						TGCTCCTACACGCTTGAACTG	0.323													42	193	---	---	---	---	PASS	A	99294817	A	A	99294817	3	1	152	1	0	0	0	0	1	0	0	0	9545	536	19	1	1553	1	MGAT4A	2	99294817	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	921247	99294817	143904556	50	54056										
TSGA10	80705	broad.mit.edu	37	chr2	99635067	99635067	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gcttccaattgtgtgacaacAtttctgaactgggccacatc	8	11	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:99635067A>G	uc002szg.3	-	17	2482	c.1854T>C	c.(1852-1854)AAT>AAC	p.N618N	TSGA10_uc002szh.3_Silent_p.N618N|TSGA10_uc002szi.3_Silent_p.N618N|TSGA10_uc010fin.1_Silent_p.N618N	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	618	Interaction with HIF1A (By similarity).				spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						GTGTGACAACATTTCTGAACT	0.373													23	81	---	---	---	---	PASS	G	99635067	G	G	99635067	2	3	152	1	0	0	0	0	0	0	0	1	16614	214	8	5		5	TSGA10	2	99635067	Silent	SNP	A	TCGA-66-2767-01A-01D-1522-08	340250	99635067	143564306	51	54057										
GCC2	9648	broad.mit.edu	37	chr2	109103087	109103087	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gagtgacagcactacaggaaGagtgccgtgctgccaaggtg	15	9	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:109103087G>C	uc002tec.2	+	16	4067	c.3913G>C	c.(3913-3915)GAG>CAG	p.E1305Q	GCC2_uc002ted.2_Missense_Mutation_p.E1204Q	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	1305	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						ACTACAGGAAGAGTGCCGTGC	0.527													18	73	---	---	---	---	PASS	C	109103087	C	C	109103087	3	2	152	1	0	0	0	0	1	0	0	0	6286	943	33	2	3975	2	GCC2	2	109103087	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	9468020	109103087	134096286	52	54058										
RANBP2	5903	broad.mit.edu	37	chr2	109379867	109379867	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cgggaattctatcgcccaggGgtgatgattactttaattac	10	8	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:109379867G>C	uc002tem.3	+	20	2998	c.2872G>C	c.(2872-2874)GGT>CGT	p.G958R		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	958					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						ATCGCCCAGGGGTGATGATTA	0.458													37	144	---	---	---	---	PASS	C	109379867	C	C	109379867	3	2	152	1	0	0	0	0	1	0	0	0	13028	1232	43	4	2950	4	RANBP2	2	109379867	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	276780	109379867	133819506	53	54059										
RANBP2	5903	broad.mit.edu	37	chr2	109380026	109380026	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctaattttgttcagcccatgCcgggtgaaggattaaggcca	11	9	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:109380026C>T	uc002tem.3	+	20	3157	c.3031C>T	c.(3031-3033)CCG>TCG	p.P1011S		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1011					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TCAGCCCATGCCGGGTGAAGG	0.393													5	302	---	---	---	---	PASS	T	109380026	T	T	109380026	3	4	152	1	0	0	0	0	1	0	0	0	13028	739	26	3	3109	3	RANBP2	2	109380026	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	159	109380026	133819347	54	54060										
CKAP2L	150468	broad.mit.edu	37	chr2	113513644	113513644	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cagcttgagttttgggagctGtcttgttcagaaaatggttc	12	6	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:113513644G>T	uc002tie.2	-	4	1383	c.1304C>A	c.(1303-1305)ACA>AAA	p.T435K	CKAP2L_uc002tif.2_Missense_Mutation_p.T24K|CKAP2L_uc010yxp.1_Missense_Mutation_p.T270K|CKAP2L_uc010yxq.1_Missense_Mutation_p.T270K	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	435						centrosome					0						TTTGGGAGCTGTCTTGTTCAG	0.408													134	466	---	---	---	---	PASS	T	113513644	T	T	113513644	3	4	152	1	0	0	0	0	1	0	0	0	3443	1377	48	3	957	3	CKAP2L	2	113513644	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	4133618	113513644	129685729	55	54061										
PSD4	23550	broad.mit.edu	37	chr2	113940807	113940807	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctggcgagtccttgctcagaGaacagtgcttctggagagtg	14	9	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:113940807G>A	uc002tjc.2	+	2	957	c.774G>A	c.(772-774)GAG>GAA	p.E258E	PSD4_uc002tjd.2_5'UTR|PSD4_uc002tje.2_Silent_p.E257E|PSD4_uc002tjf.2_5'Flank	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	258					regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						CTTGCTCAGAGAACAGTGCTT	0.607													38	116	---	---	---	---	PASS	A	113940807	A	A	113940807	2	1	152	1	0	0	0	0	0	0	0	1	12649	933	33	2		2	PSD4	2	113940807	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	427163	113940807	129258566	56	54062										
CNTNAP5	129684	broad.mit.edu	37	chr2	125671848	125671848	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	acacagtgagcgagtgtaaaCgggaatatttcatctgagaa	11	6	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:125671848C>G	uc002tno.2	+	24	4268	c.3904C>G	c.(3904-3906)CGG>GGG	p.R1302G	CNTNAP5_uc010flu.2_Missense_Mutation_p.R1303G	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	1302	Cytoplasmic (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		CGAGTGTAAACGGGAATATTT	0.408													20	62	---	---	---	---	PASS	G	125671848	G	G	125671848	3	3	152	1	0	0	0	0	1	0	0	0	3650	527	19	4	3998	4	CNTNAP5	2	125671848	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	11731041	125671848	117527525	57	54063										
NEB	4703	broad.mit.edu	37	chr2	152529183	152529183	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tttgacttctcataagcttcCttgtatttatactgtggagg	8	7	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:152529183C>A	uc010fnx.2	-	37	4190	c.3999G>T	c.(3997-3999)AAG>AAT	p.K1333N		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1333	Nebulin 33.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CATAAGCTTCCTTGTATTTAT	0.438													44	124	---	---	---	---	PASS	A	152529183	A	A	152529183	3	1	152	1	0	0	0	0	1	0	0	0	10302	680	24	3	22271	3	NEB	2	152529183	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	26857335	152529183	90670190	58	54064										
SCN2A	6326	broad.mit.edu	37	chr2	166188012	166188012	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgcattgtcttaaatacactCttcatggctatggagcacta	7	9	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:166188012C>A	uc002udc.2	+	14	2612	c.2322C>A	c.(2320-2322)CTC>CTA	p.L774L	SCN2A_uc002udd.2_Silent_p.L774L|SCN2A_uc002ude.2_Silent_p.L774L	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	774	II.|Helical; Name=S1 of repeat II; (Potential).				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	TAAATACACTCTTCATGGCTA	0.453													58	172	---	---	---	---	PASS	A	166188012	A	A	166188012	2	1	152	1	0	0	0	0	0	0	0	1	13916	900	32	2		2	SCN2A	2	166188012	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	13658829	166188012	77011361	59	54065										
TTN	7273	broad.mit.edu	37	chr2	179431000	179431000	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	accaagtgatctcaggcgttGgacgacctttgaatggaatg	12	8	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:179431000G>T	uc010zfg.1	-	275	72379	c.72155C>A	c.(72154-72156)CCA>CAA	p.P24052Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P17747Q|TTN_uc010zfi.1_Missense_Mutation_p.P17680Q|TTN_uc010zfj.1_Missense_Mutation_p.P17555Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24979							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)			CTCAGGCGTTGGACGACCTTT	0.418													6	410	---	---	---	---	PASS	T	179431000	T	T	179431000	3	4	152	1	0	0	0	0	1	0	0	0	16732	1348	47	3	28268	3	TTN	2	179431000	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	13242988	179431000	63768373	60	54066										
TTN	7273	broad.mit.edu	37	chr2	179641088	179641088	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tggcttttgcttttctttctGatctgttgttacacctgtaa	7	8	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:179641088G>T	uc010zfg.1	-	28	5727	c.5503C>A	c.(5503-5505)CAG>AAG	p.Q1835K	TTN_uc010zfh.1_Missense_Mutation_p.Q1789K|TTN_uc010zfi.1_Missense_Mutation_p.Q1789K|TTN_uc010zfj.1_Missense_Mutation_p.Q1789K|TTN_uc002unb.2_Missense_Mutation_p.Q1835K|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1835							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)			TTTTCTTTCTGATCTGTTGTT	0.473													72	272	---	---	---	---	PASS	T	179641088	T	T	179641088	3	4	152	1	0	0	0	0	1	0	0	0	16732	1299	45	2	105825	2	TTN	2	179641088	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	210088	179641088	63558285	61	54067										
ALS2	57679	broad.mit.edu	37	chr2	202632082	202632082	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	atatggaccaggcctctttcCttggatccttctgcctctgt	8	13	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:202632082C>T	uc002uyo.2	-	3	401	c.45G>A	c.(43-45)AAG>AAA	p.K15K	ALS2_uc002uyp.3_Silent_p.K15K|ALS2_uc002uyq.2_Silent_p.K15K|ALS2_uc002uyr.2_Silent_p.K15K	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	15					cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						GGCCTCTTTCCTTGGATCCTT	0.448													36	61	---	---	---	---	PASS	T	202632082	T	T	202632082	2	4	152	1	0	0	0	0	0	0	0	1	550	680	24	3		3	ALS2	2	202632082	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	22990994	202632082	40567291	62	54068										
CDK15	65061	broad.mit.edu	37	chr2	202672269	202672269	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gacttcatttcaccccagggGacttcaagctgcccgtgccc	9	16	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:202672269G>T	uc002uyt.2	+	2	225	c.176G>T	c.(175-177)GGA>GTA	p.G59V	CDK15_uc010ftm.2_5'UTR|CDK15_uc002uys.2_Missense_Mutation_p.G8V|CDK15_uc010ftn.1_Missense_Mutation_p.G8V|CDK15_uc010fto.1_Missense_Mutation_p.G59V	NM_139158	NP_631897	Q96Q40	CDK15_HUMAN	PFTAIRE protein kinase 2	59							ATP binding|cyclin-dependent protein kinase activity|metal ion binding|protein binding			breast(2)|ovary(1)|lung(1)|kidney(1)	5					Adenosine triphosphate(DB00171)	CACCCCAGGGGACTTCAAGCT	0.428													23	277	---	---	---	---	PASS	T	202672269	T	T	202672269	3	4	152	1	0	0	0	0	1	0	0	0	3131	1174	41	2	25	2	CDK15	2	202672269	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	40187	202672269	40527104	63	54069										
C2orf67	151050	broad.mit.edu	37	chr2	211018231	211018231	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gcacttacactgccacatttTttctaagggtatattcatcc	5	11	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:211018231T>C	uc002vds.2	-	2	1284	c.1076A>G	c.(1075-1077)AAA>AGA	p.K359R	C2orf67_uc002vdt.2_Missense_Mutation_p.K359R|C2orf67_uc002vdw.2_Missense_Mutation_p.K359R|C2orf67_uc002vdy.1_Missense_Mutation_p.K359R|C2orf67_uc002vdv.2_Missense_Mutation_p.K359R|C2orf67_uc002vdx.1_Missense_Mutation_p.K359R	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	359										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		TGCCACATTTTTTCTAAGGGT	0.363													34	120	---	---	---	---	PASS	C	211018231	C	C	211018231	3	2	152	1	0	0	0	0	1	0	0	0	2186	1841	64	5	1943	5	C2orf67	2	211018231	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	8345962	211018231	32181142	64	54070										
AQP12B	653437	broad.mit.edu	37	chr2	241621951	241621951	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cagagactcctcggccatgaGgaactcctgcagggacacgg	13	13	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr2:241621951G>C	uc010fzj.2	-	1	367	c.304C>G	c.(304-306)CTC>GTC	p.L102V	AQP12B_uc002vzt.2_RNA	NM_001102467	NP_001095937	A6NM10	AQ12B_HUMAN	aquaporin 12B	90						integral to membrane	transporter activity				0		all_epithelial(40;1.71e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;2.2e-31)|all cancers(36;1.08e-28)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.52e-06)|Lung(119;0.00163)|LUSC - Lung squamous cell carcinoma(224;0.008)|Colorectal(34;0.0124)|COAD - Colon adenocarcinoma(134;0.0757)		TCGGCCATGAGGAACTCCTGC	0.697													3	42	---	---	---	---	PASS	C	241621951	C	C	241621951	3	2	152	1	0	0	0	0	1	0	0	0	825	1000	35	4	631	4	AQP12B	2	241621951	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	30603720	241621951	1577422	65	54071										
CAND2	23066	broad.mit.edu	37	chr3	12861610	12861610	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccacacacccggagcaccgtCatcacagcggtcaagttcct	8	17	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:12861610C>T	uc003bxk.2	+	11	3019	c.2970C>T	c.(2968-2970)GTC>GTT	p.V990V	CAND2_uc003bxj.2_Silent_p.V897V	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	990	HEAT 21.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						GGAGCACCGTCATCACAGCGG	0.587													28	70	---	---	---	---	PASS	T	12861610	T	T	12861610	2	4	152	1	0	0	0	0	0	0	0	1	2616	813	29	2		2	CAND2	3	12861610	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08		12861610	185160820	66	54072										
SCN11A	11280	broad.mit.edu	37	chr3	38938695	38938695	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gttcaaagttggccaggattTggctaacttgaagaccctga	11	8	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:38938695T>C	uc011ays.1	-	14	2243	c.2044A>G	c.(2044-2046)AAA>GAA	p.K682E	SCN11A_uc010hhn.1_5'Flank	NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	682	Helical; Voltage-sensor; Name=S4 of repeat II; (By similarity).|II.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	GGCCAGGATTTGGCTAACTTG	0.408													20	51	---	---	---	---	PASS	C	38938695	C	C	38938695	3	2	152	1	0	0	0	0	1	0	0	0	13913	1821	63	5	3383	5	SCN11A	3	38938695	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	26077085	38938695	159083735	67	54073										
CLEC3B	7123	broad.mit.edu	37	chr3	45077203	45077203	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggcaacgaggccgagatctgGctgggcctcaacgacatggc	15	12	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:45077203G>T	uc003cok.3	+	3	492	c.396G>T	c.(394-396)TGG>TGT	p.W132C	CLEC3B_uc003col.2_Missense_Mutation_p.W90C	NM_003278	NP_003269	P05452	TETN_HUMAN	C-type lectin domain family 3, member B	132	C-type lectin.				skeletal system development	extracellular space	protein binding|sugar binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00863)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCGAGATCTGGCTGGGCCTCA	0.677													6	49	---	---	---	---	PASS	T	45077203	T	T	45077203	3	4	152	1	0	0	0	0	1	0	0	0	3511	1212	42	3	406	3	CLEC3B	3	45077203	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	6138508	45077203	152945227	68	54074										
DNAH1	25981	broad.mit.edu	37	chr3	52361927	52361927	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aatgaggactttgactgccgGactcccagagagtggatcaa	12	9	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:52361927G>C	uc011bef.1	+	6	1029	c.768G>C	c.(766-768)CGG>CGC	p.R256R	DNAH1_uc003ddt.1_Silent_p.R256R	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	256	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TTGACTGCCGGACTCCCAGAG	0.577													16	50	---	---	---	---	PASS	C	52361927	C	C	52361927	2	2	152	1	0	0	0	0	0	0	0	1	4597	1161	41	2		2	DNAH1	3	52361927	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	7284724	52361927	145660503	69	54075										
NEK4	6787	broad.mit.edu	37	chr3	52745830	52745830	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cttcaaaaaatttcaactggCgagctttcacactgtaagtt	6	9	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:52745830C>T	uc003dfq.3	-	16	2678	c.2489G>A	c.(2488-2490)CGC>CAC	p.R830H	NEK4_uc011bej.1_Missense_Mutation_p.R741H	NM_003157	NP_003148	P51957	NEK4_HUMAN	NIMA-related kinase 4	830					cell division|mitosis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.44e-05)|Kidney(197;0.000711)|KIRC - Kidney renal clear cell carcinoma(197;0.00086)|OV - Ovarian serous cystadenocarcinoma(275;0.0513)		TTTCAACTGGCGAGCTTTCAC	0.333													33	350	---	---	---	---	PASS	T	52745830	T	T	52745830	3	4	152	1	0	0	0	0	1	0	0	0	10326	768	27	1	40	1	NEK4	3	52745830	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	383903	52745830	145276600	70	54076										
ARL13B	200894	broad.mit.edu	37	chr3	93722705	93722705	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gaagagacaaaagaggctatGtcagaaatgctaagacatcc	10	7	1	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:93722705G>T	uc003drc.2	+	3	619	c.333G>T	c.(331-333)ATG>ATT	p.M111I	ARL13B_uc010hop.2_Intron|ARL13B_uc003drd.2_Intron|ARL13B_uc003dre.2_Missense_Mutation_p.M96I|ARL13B_uc003drf.2_Missense_Mutation_p.M111I|ARL13B_uc003drg.2_Missense_Mutation_p.M8I	NM_182896	NP_878899	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 2-like 1 isoform 1	111							GTP binding				0						AAGAGGCTATGTCAGAAATGC	0.403													23	183	---	---	---	---	PASS	T	93722705	T	T	93722705	3	4	152	1	0	0	0	0	1	0	0	0	929	1377	48	3	343	3	ARL13B	3	93722705	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	40976875	93722705	104299725	71	54077										
OR5H6	79295	broad.mit.edu	37	chr3	97983540	97983540	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tggcaacaatggcatatgatCgctatgtagccatttgcaaa	9	8	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:97983540C>A	uc003dsi.1	+	1	412	c.412C>A	c.(412-414)CGC>AGC	p.R138S		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						GGCATATGATCGCTATGTAGC	0.373													37	282	---	---	---	---	PASS	A	97983540	A	A	97983540	3	1	152	1	0	0	0	0	1	0	0	0	11163	884	31	2	414	2	OR5H6	3	97983540	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	4260835	97983540	100038890	72	54078										
NIT2	56954	broad.mit.edu	37	chr3	100067652	100067652	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttttctctccccaaggctgcCagctgttggtatatccagga	9	12	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:100067652C>A	uc003dtv.2	+	7	585	c.511C>A	c.(511-513)CAG>AAG	p.Q171K	NIT2_uc011bha.1_Silent_p.A139A	NM_020202	NP_064587	Q9NQR4	NIT2_HUMAN	nitrilase family, member 2	171	CN hydrolase.				nitrogen compound metabolic process		omega-amidase activity			ovary(1)	1						CCAAGGCTGCCAGCTGTTGGT	0.488													19	100	---	---	---	---	PASS	A	100067652	A	A	100067652	3	1	152	1	0	0	0	0	1	0	0	0	10434	595	21	3	537	3	NIT2	3	100067652	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	2084112	100067652	97954778	73	54079										
ABI3BP	25890	broad.mit.edu	37	chr3	100471703	100471703	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cactcctacaaattttttatAccatgtccttttgacatatt	2	10	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:100471703A>T	uc003dun.2	-	33	3002	c.2917T>A	c.(2917-2919)TAT>AAT	p.Y973N	ABI3BP_uc003duj.2_Missense_Mutation_p.Y553N|ABI3BP_uc003duk.2_Missense_Mutation_p.Y682N|ABI3BP_uc003dul.2_Missense_Mutation_p.Y803N|ABI3BP_uc011bhd.1_Missense_Mutation_p.Y927N|ABI3BP_uc003dum.2_Missense_Mutation_p.Y384N	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	973						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						AATTTTTTATACCATGTCCTT	0.423													42	191	---	---	---	---	PASS	T	100471703	T	T	100471703	3	4	152	1	0	0	0	0	1	0	0	0	91	391	14	5	322	5	ABI3BP	3	100471703	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	404051	100471703	97550727	74	54080										
ZBTB11	27107	broad.mit.edu	37	chr3	101384599	101384599	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gctacagaaatcaaaacttaGtacagaagtataggcaaatt	7	6	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:101384599G>A	uc003dve.3	-	4	1062	c.832C>T	c.(832-834)CTA>TTA	p.L278L		NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	278	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TCAAAACTTAGTACAGAAGTA	0.353													34	156	---	---	---	---	PASS	A	101384599	A	A	101384599	2	1	152	1	0	0	0	0	0	0	0	1	17521	1020	36	3		3	ZBTB11	3	101384599	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	912896	101384599	96637831	75	54081										
C3orf30	152405	broad.mit.edu	37	chr3	118865207	118865207	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	atagctgaccagactgccctAagagtgcctagccaggctga	11	12	0	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:118865207A>T	uc003ecb.1	+	1	211	c.171A>T	c.(169-171)CTA>CTT	p.L57L	IGSF11_uc003eby.2_5'Flank|IGSF11_uc003ebz.2_5'Flank|IGSF11_uc010hqs.2_5'Flank|C3orf30_uc011biw.1_Silent_p.L57L	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	57										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		AGACTGCCCTAAGAGTGCCTA	0.537													28	53	---	---	---	---	PASS	T	118865207	T	T	118865207	2	4	152	1	0	0	0	0	0	0	0	1	2220	349	13	5		5	C3orf30	3	118865207	Silent	SNP	A	TCGA-66-2767-01A-01D-1522-08	17480608	118865207	79157223	76	54082										
CASR	846	broad.mit.edu	37	chr3	121975948	121975948	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gtataatttccgtgggtttcGctggttacaggctatgatat	11	6	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:121975948G>A	uc003eev.3	+	3	578	c.206G>A	c.(205-207)CGC>CAC	p.R69H	CASR_uc003eew.3_Missense_Mutation_p.R69H	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	69	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	CGTGGGTTTCGCTGGTTACAG	0.373													5	230	---	---	---	---	PASS	A	121975948	A	A	121975948	3	1	152	1	0	0	0	0	1	0	0	0	2682	1087	38	1	212	1	CASR	3	121975948	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	3110741	121975948	76046482	77	54083										
EEFSEC	60678	broad.mit.edu	37	chr3	128060231	128060231	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tccctgcacactgtccatgcGgccctcatctctgtggaaaa	8	15	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:128060231G>A	uc003eki.2	+	5	980	c.942G>A	c.(940-942)GCG>GCA	p.A314A	EEFSEC_uc003ekj.2_Silent_p.A259A	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,	314						cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						CTGTCCATGCGGCCCTCATCT	0.597													11	182	---	---	---	---	PASS	A	128060231	A	A	128060231	2	1	152	1	0	0	0	0	0	0	0	1	4931	1103	39	1		1	EEFSEC	3	128060231	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	6084283	128060231	69962199	78	54084										
C3orf37	56941	broad.mit.edu	37	chr3	129023455	129023455	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctcagggcaagtggcagtagCcagaggatgttgcagtggtt	16	7	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:129023455C>G	uc003elt.2	+	7	940	c.852C>G	c.(850-852)AGC>AGG	p.S284R	C3orf37_uc003elu.2_Missense_Mutation_p.S242R|C3orf37_uc003elv.2_Missense_Mutation_p.S284R|C3orf37_uc003elw.2_Missense_Mutation_p.S284R	NM_020187	NP_064572	Q96FZ2	CC037_HUMAN	hypothetical protein LOC56941	284										ovary(1)	1						GTGGCAGTAGCCAGAGGATGT	0.483													51	490	---	---	---	---	PASS	G	129023455	G	G	129023455	3	3	152	1	0	0	0	0	1	0	0	0	2227	738	26	4	874	4	C3orf37	3	129023455	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	963224	129023455	68998975	79	54085										
ZIC1	7545	broad.mit.edu	37	chr3	147128091	147128091	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcggccggccagacggccttCacgtcgcaggcgccaggcta	14	16	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:147128091C>T	uc003ewe.2	+	1	911	c.192C>T	c.(190-192)TTC>TTT	p.F64F		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	64					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						AGACGGCCTTCACGTCGCAGG	0.692													6	55	---	---	---	---	PASS	T	147128091	T	T	147128091	2	4	152	1	0	0	0	0	0	0	0	1	17675	825	29	2		2	ZIC1	3	147128091	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	18104636	147128091	50894339	80	54086										
SI	6476	broad.mit.edu	37	chr3	164748556	164748556	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttcagttgccaaatctgcatCtggataacaattaaatcttt	5	8	4	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:164748556C>T	uc003fei.2	-	25	2898	c.2836G>A	c.(2836-2838)GAT>AAT	p.D946N		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	946	Lumenal.|P-type 2.|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)	AAATCTGCATCTGGATAACAA	0.328										HNSCC(35;0.089)			142	225	---	---	---	---	PASS	T	164748556	T	T	164748556	3	4	152	1	0	0	0	0	1	0	0	0	14297	913	32	2	2743	2	SI	3	164748556	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	17620465	164748556	33273874	81	54087										
SLITRK3	22865	broad.mit.edu	37	chr3	164908581	164908581	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gaagaattatccacaacatcCttcctctgtgaagcatctca	5	12	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:164908581C>A	uc003fej.3	-	2	482	c.38G>T	c.(37-39)AGG>ATG	p.R13M	SLITRK3_uc003fek.2_Missense_Mutation_p.R13M	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	13						integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						CCACAACATCCTTCCTCTGTG	0.398										HNSCC(40;0.11)			14	180	---	---	---	---	PASS	A	164908581	A	A	164908581	3	1	152	1	0	0	0	0	1	0	0	0	14744	681	24	3	2899	3	SLITRK3	3	164908581	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	160025	164908581	33113849	82	54088										
LRRIQ4	344657	broad.mit.edu	37	chr3	169540063	169540063	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gtcgttgtcagcttcctccaCgccctgcgcgagctccggct	11	17	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:169540063C>T	uc003fgb.2	+	1	354	c.354C>T	c.(352-354)CAC>CAT	p.H118H		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	118	LRR 5.										0						GCTTCCTCCACGCCCTGCGCG	0.612													15	229	---	---	---	---	PASS	T	169540063	T	T	169540063	2	4	152	1	0	0	0	0	0	0	0	1	9031	535	19	1		1	LRRIQ4	3	169540063	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	4631482	169540063	28482367	83	54089										
SLC7A14	57709	broad.mit.edu	37	chr3	170198095	170198095	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tacccacaaagcaccagaccGcaaaccggatccatgtgatg	8	14	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:170198095G>A	uc003fgz.2	-	7	2292	c.1976C>T	c.(1975-1977)GCG>GTG	p.A659V	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	659	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			GCACCAGACCGCAAACCGGAT	0.498													5	415	---	---	---	---	PASS	A	170198095	A	A	170198095	3	1	152	1	0	0	0	0	1	0	0	0	14696	1087	38	1	347	1	SLC7A14	3	170198095	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	658032	170198095	27824335	84	54090										
TTC14	151613	broad.mit.edu	37	chr3	180327959	180327959	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tttatggttataggagatttGaaaaggatatagagggaaga	13	0	0	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:180327959G>C	uc003fkk.2	+	12	2074	c.1942G>C	c.(1942-1944)GAA>CAA	p.E648Q	TTC14_uc003fkl.2_3'UTR|TTC14_uc003fkm.2_Intron	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	648							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TAGGAGATTTGAAAAGGATAT	0.393													24	224	---	---	---	---	PASS	C	180327959	C	C	180327959	3	2	152	1	0	0	0	0	1	0	0	0	16678	1291	45	2	2018	2	TTC14	3	180327959	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	10129864	180327959	17694471	85	54091										
LAMP3	27074	broad.mit.edu	37	chr3	182870216	182870216	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aaaattcaacagaaggttggAttttcgggtgccacagttcc	10	8	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:182870216A>G	uc003flh.3	-	3	1059	c.835T>C	c.(835-837)TCC>CCC	p.S279P		NM_014398	NP_055213	Q9UQV4	LAMP3_HUMAN	lysosomal-associated membrane protein 3	279	Lumenal (Potential).				cell proliferation	integral to membrane|lysosomal membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;9.14e-14)|Ovarian(172;0.0355)		all cancers(12;2.91e-44)|Epithelial(37;5.52e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;4.16e-21)			AGAAGGTTGGATTTTCGGGTG	0.468													53	552	---	---	---	---	PASS	G	182870216	G	G	182870216	3	3	152	1	0	0	0	0	1	0	0	0	8619	333	12	5	431	5	LAMP3	3	182870216	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	2542257	182870216	15152214	86	54092										
ATP13A3	79572	broad.mit.edu	37	chr3	194147857	194147857	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgctgtttgacccaaaaaaaAcccaaagattgaaatccaat	5	9	0	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr3:194147857A>C	uc003fty.3	-	28	3474	c.3072T>G	c.(3070-3072)GGT>GGG	p.G1024G	ATP13A3_uc003ftx.3_5'Flank	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	1024					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		CCCAAAAAAAACCCAAAGATT	0.388													17	148	---	---	---	---	PASS	C	194147857	C	C	194147857	2	2	152	1	0	0	0	0	0	0	0	1	1125	30	2	5		5	ATP13A3	3	194147857	Silent	SNP	A	TCGA-66-2767-01A-01D-1522-08	11277641	194147857	3874573	87	54093										
GABRB1	2560	broad.mit.edu	37	chr4	47427824	47427824	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cagcgccagcatccagtaccGcaagcccctgagcagccgcg	11	18	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:47427824G>T	uc003gxh.2	+	9	1588	c.1214G>T	c.(1213-1215)CGC>CTC	p.R405L	GABRB1_uc011bze.1_Missense_Mutation_p.R335L	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	405	Cytoplasmic (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			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	ATCCAGTACCGCAAGCCCCTG	0.662													17	22	---	---	---	---	PASS	T	47427824	T	T	47427824	3	4	152	1	0	0	0	0	1	0	0	0	6166	1087	38	1	1248	1	GABRB1	4	47427824	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08		47427824	143726452	88	54094										
FRYL	285527	broad.mit.edu	37	chr4	48512145	48512145	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aactccaaaacaccaaacttGagtgtttccagcaaaccaca	4	13	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:48512145G>C	uc003gyh.1	-	59	8930	c.8325C>G	c.(8323-8325)CTC>CTG	p.L2775L	FRYL_uc003gyf.1_Silent_p.L171L|FRYL_uc003gyg.1_Silent_p.L1471L	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	2775					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						CACCAAACTTGAGTGTTTCCA	0.408													48	119	---	---	---	---	PASS	C	48512145	C	C	48512145	2	2	152	1	0	0	0	0	0	0	0	1	6064	1277	45	2		2	FRYL	4	48512145	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	1084321	48512145	142642131	89	54095										
UGT2B11	10720	broad.mit.edu	37	chr4	70080107	70080107	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttcccacaggatttcttgttCttgtgaaaaatataaccaaa	5	8	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:70080107C>G	uc003heh.2	-	1	343	c.334G>C	c.(334-336)GAA>CAA	p.E112Q	uc003hei.1_Intron	NM_001073	NP_001064	O75310	UDB11_HUMAN	UDP glucuronosyltransferase 2 family,	112					estrogen metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3						ATTTCTTGTTCTTGTGAAAAA	0.289													12	164	---	---	---	---	PASS	G	70080107	G	G	70080107	3	3	152	1	0	0	0	0	1	0	0	0	16954	922	32	2	1279	2	UGT2B11	4	70080107	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	21567962	70080107	121074169	90	54096										
ADAMTS3	9508	broad.mit.edu	37	chr4	73178143	73178143	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgtgttacaaagctggtactCaaaattaacaccaggacaat	7	8	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:73178143C>A	uc003hgk.1	-	13	1823	c.1786G>T	c.(1786-1788)GAG>TAG	p.E596*	ADAMTS3_uc003hgl.2_5'Flank	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	596	TSP type-1 1.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			AGCTGGTACTCAAAATTAACA	0.428													4	148	---	---	---	---	PASS	A	73178143	A	A	73178143	4	1	152	1	0	0	0	0	0	1	0	0	267	835	29	2	1871	2	ADAMTS3	4	73178143	Nonsense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	3098036	73178143	117976133	91	54097										
HERC6	55008	broad.mit.edu	37	chr4	89326086	89326086	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agaaataagccgaattagccAgtccatggcagaaaaatgga	10	7	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:89326086A>T	uc011cdi.1	+	9	1334	c.1151A>T	c.(1150-1152)CAG>CTG	p.Q384L	HERC6_uc011cdj.1_Missense_Mutation_p.Q384L|HERC6_uc011cdk.1_Intron|HERC6_uc011cdl.1_Intron	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	384					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		CGAATTAGCCAGTCCATGGCA	0.423													71	92	---	---	---	---	PASS	T	89326086	T	T	89326086	3	4	152	1	0	0	0	0	1	0	0	0	7062	188	7	5	982	5	HERC6	4	89326086	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	16147943	89326086	101828190	92	54098										
BANK1	55024	broad.mit.edu	37	chr4	102946555	102946555	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	atgtgttcattcctggtgctGatccagaaaataattcacaa	7	8	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:102946555G>A	uc003hvy.3	+	9	1757	c.1483G>A	c.(1483-1485)GAT>AAT	p.D495N	BANK1_uc003hvx.3_Missense_Mutation_p.D480N|BANK1_uc010ill.2_Missense_Mutation_p.D362N|BANK1_uc003hvz.3_Missense_Mutation_p.D465N	NM_017935	NP_060405	Q8NDB2	BANK1_HUMAN	B-cell scaffold protein with ankyrin repeats 1	495					B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)		TCCTGGTGCTGATCCAGAAAA	0.502													13	104	---	---	---	---	PASS	A	102946555	A	A	102946555	3	1	152	1	0	0	0	0	1	0	0	0	1309	1290	45	2	1517	2	BANK1	4	102946555	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	13620469	102946555	88207721	93	54099										
PITX2	5308	broad.mit.edu	37	chr4	111554138	111554138	+	Frame_Shift_Del	DEL	C	-	-													0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cacacgccgacaccagtttgCggcagttggtctccattccc							TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:111554138delC	uc003iad.2	-	2	599	c.17delG	c.(16-18)CGCfs	p.R6fs	PITX2_uc003iae.2_Frame_Shift_Del_p.R6fs|PITX2_uc010iml.2_5'UTR|PITX2_uc003iaf.2_Frame_Shift_Del_p.R6fs	NM_153426	NP_700475	Q99697	PITX2_HUMAN	paired-like homeodomain transcription factor 2	6					determination of left/right symmetry|organ morphogenesis	transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription factor binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00222)		CACCAGTTTGCGGCAGTTGGT	0.602													276	161	---	---	---	---		-	111554138	-	-	111554138	7	5	152	1	0	1	0	1	0	0	0	0	11955	768	27	0	1161	0	PITX2	4	111554138	Frame_Shift_Del	DEL	C	TCGA-66-2767-01A-01D-1522-08	8607583	111554138	79600138	94	54100										
C4orf31	79625	broad.mit.edu	37	chr4	121958642	121958642	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttctggagttgtggtggcatAtactttgaaatgtgtgtctt	12	4	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:121958642A>G	uc003idq.1	-	4	1011	c.484T>C	c.(484-486)TAT>CAT	p.Y162H		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	162											0						GTGGTGGCATATACTTTGAAA	0.448													95	150	---	---	---	---	PASS	G	121958642	G	G	121958642	3	3	152	1	0	0	0	0	1	0	0	0	2261	449	16	5	1226	5	C4orf31	4	121958642	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	10404504	121958642	69195634	95	54101										
ANKRD50	57182	broad.mit.edu	37	chr4	125590641	125590641	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cccctttacttgctttagttGacttcaaactgggctttact	6	11	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:125590641G>C	uc003ifg.3	-	3	4057	c.3791C>G	c.(3790-3792)TCA>TGA	p.S1264*	ANKRD50_uc011cgo.1_Nonsense_Mutation_p.S1085*|ANKRD50_uc010inw.2_Nonsense_Mutation_p.S1264*	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	1264	Ser-rich.									central_nervous_system(1)	1						TGCTTTAGTTGACTTCAAACT	0.403													48	632	---	---	---	---	PASS	C	125590641	C	C	125590641	4	2	152	1	0	0	0	0	0	1	0	0	677	1294	45	2	502	2	ANKRD50	4	125590641	Nonsense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	3631999	125590641	65563635	96	54102										
PCDH10	57575	broad.mit.edu	37	chr4	134072945	134072945	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gaagcccgggacgctggcagCccccaggcgctggctggtaa	16	14	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:134072945C>A	uc003iha.2	+	1	2476	c.1650C>A	c.(1648-1650)AGC>AGA	p.S550R	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.S550R	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	550	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		ACGCTGGCAGCCCCCAGGCGC	0.587													25	138	---	---	---	---	PASS	A	134072945	A	A	134072945	3	1	152	1	0	0	0	0	1	0	0	0	11507	738	26	3	1652	3	PCDH10	4	134072945	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	8482304	134072945	57081331	97	54103										
ZNF827	152485	broad.mit.edu	37	chr4	146824008	146824008	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	attagccgtggctgcagcatCgagtttgagggaaccagcct	13	10	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:146824008C>A	uc003ikn.2	-	2	451	c.403G>T	c.(403-405)GAT>TAT	p.D135Y	ZNF827_uc003ikm.2_Missense_Mutation_p.D135Y|ZNF827_uc010iox.2_Intron	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					GCTGCAGCATCGAGTTTGAGG	0.597													3	52	---	---	---	---	PASS	A	146824008	A	A	146824008	3	1	152	1	0	0	0	0	1	0	0	0	18177	884	31	2	2878	2	ZNF827	4	146824008	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	12751063	146824008	44330268	98	54104										
ZNF827	152485	broad.mit.edu	37	chr4	146824215	146824215	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcccaaggaggtgtccggggAcgtggactgctcctggatcc	15	12	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:146824215A>T	uc003ikn.2	-	2	244	c.196T>A	c.(196-198)TCC>ACC	p.S66T	ZNF827_uc003ikm.2_Missense_Mutation_p.S66T|ZNF827_uc010iox.2_Intron	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	66					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					GTGTCCGGGGACGTGGACTGC	0.567													49	106	---	---	---	---	PASS	T	146824215	T	T	146824215	3	4	152	1	0	0	0	0	1	0	0	0	18177	275	10	5	3085	5	ZNF827	4	146824215	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	207	146824215	44330061	99	54105										
TLR2	7097	broad.mit.edu	37	chr4	154624198	154624198	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caggatctttaaactccattCcctcagggctcacagaagct	7	13	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:154624198C>T	uc003inq.2	+	3	358	c.139C>T	c.(139-141)CCC>TCC	p.P47S	TLR2_uc003inr.2_Missense_Mutation_p.P47S|TLR2_uc003ins.2_Missense_Mutation_p.P47S	NM_003264	NP_003255	O60603	TLR2_HUMAN	toll-like receptor 2 precursor	47	Extracellular (Potential).				cellular response to diacyl bacterial lipopeptide|cellular response to lipoteichoic acid|cellular response to triacyl bacterial lipopeptide|detection of diacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|I-kappaB phosphorylation|induction of apoptosis|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of interferon-beta production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of Wnt receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|integral to plasma membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	Gram-positive bacterial cell surface binding|lipopolysaccharide receptor activity|peptidoglycan binding|protein heterodimerization activity|transmembrane receptor activity|triacyl lipopeptide binding			ovary(1)|lung(1)|breast(1)	3	all_hematologic(180;0.093)	Renal(120;0.117)				AAACTCCATTCCCTCAGGGCT	0.498													4	208	---	---	---	---	PASS	T	154624198	T	T	154624198	3	4	152	1	0	0	0	0	1	0	0	0	15948	855	30	2	141	2	TLR2	4	154624198	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	7799983	154624198	36530078	100	54106										
RAPGEF2	9693	broad.mit.edu	37	chr4	160244614	160244614	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttatttttttggattagctgGactcctggtcagtgattctc	9	7	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:160244614G>T	uc003iqg.3	+	5	821	c.511G>T	c.(511-513)GAC>TAC	p.D171Y		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	171	cNMP.				cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GGATTAGCTGGACTCCTGGTC	0.398													58	103	---	---	---	---	PASS	T	160244614	T	T	160244614	3	4	152	1	0	0	0	0	1	0	0	0	13044	1174	41	2	529	2	RAPGEF2	4	160244614	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	5620416	160244614	30909662	101	54107										
IRF2	3660	broad.mit.edu	37	chr4	185320124	185320124	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tagagctcgctcatgctgacCggctgctcgtcgctctcagt	11	14	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr4:185320124C>T	uc003iwf.3	-	7	839	c.639G>A	c.(637-639)CCG>CCA	p.P213P		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	213					blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		TCATGCTGACCGGCTGCTCGT	0.587													55	100	---	---	---	---	PASS	T	185320124	T	T	185320124	2	4	152	1	0	0	0	0	0	0	0	1	7828	639	23	1		1	IRF2	4	185320124	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	25075510	185320124	5834152	102	54108										
KIAA0947	23379	broad.mit.edu	37	chr5	5461158	5461158	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctaagtggacacgaattaatGaaatcacttctgaaccagac	7	9	2	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:5461158G>T	uc003jdm.3	+	13	1933	c.1711G>T	c.(1711-1713)GAA>TAA	p.E571*		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	571										ovary(1)|central_nervous_system(1)	2						ACGAATTAATGAAATCACTTC	0.378													66	266	---	---	---	---	PASS	T	5461158	T	T	5461158	4	4	152	1	0	0	0	0	0	1	0	0	8202	1291	45	2	1761	2	KIAA0947	5	5461158	Nonsense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08		5461158	175454102	103	54109										
KIAA0947	23379	broad.mit.edu	37	chr5	5464055	5464055	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttcgagactcagattgttgcGtctgatcacacatattataa	7	8	3	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:5464055G>A	uc003jdm.3	+	13	4830	c.4608G>A	c.(4606-4608)GCG>GCA	p.A1536A		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1536										ovary(1)|central_nervous_system(1)	2						AGATTGTTGCGTCTGATCACA	0.348													5	59	---	---	---	---	PASS	A	5464055	A	A	5464055	2	1	152	1	0	0	0	0	0	0	0	1	8202	1132	40	1		1	KIAA0947	5	5464055	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	2897	5464055	175451205	104	54110										
FAM134B	54463	broad.mit.edu	37	chr5	16477887	16477887	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ataactctttggcagcaaccGtgaggctaatctgtgttaat	9	8	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:16477887G>A	uc003jfs.2	-	8	922	c.884C>T	c.(883-885)ACG>ATG	p.T295M	FAM134B_uc003jfr.2_Missense_Mutation_p.T154M	NM_001034850	NP_001030022	Q9H6L5	F134B_HUMAN	hypothetical protein LOC54463 isoform 1	295					sensory perception of pain	cis-Golgi network|endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3						GGCAGCAACCGTGAGGCTAAT	0.413													6	198	---	---	---	---	PASS	A	16477887	A	A	16477887	3	1	152	1	0	0	0	0	1	0	0	0	5446	1145	40	1	617	1	FAM134B	5	16477887	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	11013832	16477887	164437373	105	54111										
CDH9	1007	broad.mit.edu	37	chr5	26906200	26906200	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctggtactgctctctattttCtctgctcatgtctggtaatg	8	10	4	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:26906200C>T	uc003jgs.1	-	5	848	c.679G>A	c.(679-681)GAA>AAA	p.E227K	CDH9_uc010iug.2_Missense_Mutation_p.E227K	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	227	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TCTCTATTTTCTCTGCTCATG	0.413													31	196	---	---	---	---	PASS	T	26906200	T	T	26906200	3	4	152	1	0	0	0	0	1	0	0	0	3117	922	32	2	1722	2	CDH9	5	26906200	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	10428313	26906200	154009060	106	54112										
RICTOR	253260	broad.mit.edu	37	chr5	38960533	38960533	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agaagaaattctgtaaactgGcaacctacaaccgtgagctg	9	9	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:38960533G>A	uc003jlp.2	-	20	1842	c.1818C>T	c.(1816-1818)TGC>TGT	p.C606C	RICTOR_uc003jlo.2_Silent_p.C606C|RICTOR_uc010ivf.2_Silent_p.C321C	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	606					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					CTGTAAACTGGCAACCTACAA	0.398													25	204	---	---	---	---	PASS	A	38960533	A	A	38960533	2	1	152	1	0	0	0	0	0	0	0	1	13358	1195	42	3		3	RICTOR	5	38960533	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	12054333	38960533	141954727	107	54113										
GZMK	3003	broad.mit.edu	37	chr5	54320565	54320565	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tggcctccatccagtatggcGgacatcacgtttgtggaggt	13	10	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:54320565G>A	uc003jpl.1	+	2	186	c.142G>A	c.(142-144)GGA>AGA	p.G48R		NM_002104	NP_002095	P49863	GRAK_HUMAN	granzyme K precursor	48	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				CCAGTATGGCGGACATCACGT	0.473													13	45	---	---	---	---	PASS	A	54320565	A	A	54320565	3	1	152	1	0	0	0	0	1	0	0	0	6918	1117	39	1	148	1	GZMK	5	54320565	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	15360032	54320565	126594695	108	54114										
NLN	57486	broad.mit.edu	37	chr5	65083989	65083989	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccttgggtgaagcagaacgaGagtttattttgaatttgaag	12	4	0	5			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:65083989G>C	uc003juf.2	+	8	1119	c.1003G>C	c.(1003-1005)GAG>CAG	p.E335Q	NLN_uc003jue.2_Missense_Mutation_p.E335Q|NLN_uc003jug.2_Missense_Mutation_p.E164Q|NLN_uc010iww.2_Missense_Mutation_p.E30Q	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	335					proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)		AGCAGAACGAGAGTTTATTTT	0.368													29	203	---	---	---	---	PASS	C	65083989	C	C	65083989	3	2	152	1	0	0	0	0	1	0	0	0	10467	943	33	2	1033	2	NLN	5	65083989	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	10763424	65083989	115831271	109	54115										
RAD17	5884	broad.mit.edu	37	chr5	68677865	68677865	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gacttccaaaaagatgatttCaaggggatgtttaatactgg	10	5	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:68677865C>T	uc003jwo.2	+	4	584	c.522C>T	c.(520-522)TTC>TTT	p.F174F	RAD17_uc003jwg.2_Silent_p.F163F|RAD17_uc003jwh.2_Silent_p.F163F|RAD17_uc003jwi.2_Silent_p.F163F|RAD17_uc003jwj.2_Silent_p.F163F|RAD17_uc003jwk.2_Silent_p.F163F|RAD17_uc003jwl.2_Silent_p.F163F|RAD17_uc003jwm.2_5'UTR|RAD17_uc003jwn.2_Silent_p.F77F	NM_133339	NP_579917	O75943	RAD17_HUMAN	RAD17 homolog isoform 2	174					cell cycle|DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint|mitotic cell cycle checkpoint|negative regulation of DNA replication|regulation of phosphorylation	nucleoplasm	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Lung NSC(167;5.19e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;9.36e-57)|Epithelial(20;1.21e-52)|all cancers(19;3.34e-48)|Lung(70;0.0183)		AAGATGATTTCAAGGGGATGT	0.388								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					11	142	---	---	---	---	PASS	T	68677865	T	T	68677865	2	4	152	1	0	0	0	0	0	0	0	1	12979	825	29	2		2	RAD17	5	68677865	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	3593876	68677865	112237395	110	54116										
VCAN	1462	broad.mit.edu	37	chr5	82837222	82837222	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gaggtgcctgatgtgatggaAggatccaatcccccatatta	11	9	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:82837222A>C	uc003kii.3	+	8	8756	c.8400A>C	c.(8398-8400)GAA>GAC	p.E2800D	VCAN_uc003kij.3_Missense_Mutation_p.E1813D|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.E1464D	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2800	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ATGTGATGGAAGGATCCAATC	0.448													25	272	---	---	---	---	PASS	C	82837222	C	C	82837222	3	2	152	1	0	0	0	0	1	0	0	0	17135	69	3	5	8426	5	VCAN	5	82837222	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	14159357	82837222	98078038	111	54117										
FAM174A	345757	broad.mit.edu	37	chr5	99871540	99871540	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cacggagggaaggccggggaAggctcggtgggtggcggcct	22	9	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:99871540A>T	uc003knj.1	+	1	426	c.306A>T	c.(304-306)GAA>GAT	p.E102D	uc003kni.2_5'Flank	NM_198507	NP_940909	Q8TBP5	F174A_HUMAN	family with sequence similarity 174, member A	102	Extracellular (Potential).					integral to membrane					0						AGGCCGGGGAAGGCTCGGTGG	0.706													6	9	---	---	---	---	PASS	T	99871540	T	T	99871540	3	4	152	1	0	0	0	0	1	0	0	0	5495	69	3	5	308	5	FAM174A	5	99871540	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	17034318	99871540	81043720	112	54118										
SLCO4C1	353189	broad.mit.edu	37	chr5	101593694	101593694	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcaatccgaattgattttctAtaaatttaggtaaaaatgta	5	4	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:101593694A>G	uc003knm.2	-	7	1513	c.1226T>C	c.(1225-1227)ATA>ACA	p.I409T		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	409	Extracellular (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		TTGATTTTCTATAAATTTAGG	0.289													11	145	---	---	---	---	PASS	G	101593694	G	G	101593694	3	3	152	1	0	0	0	0	1	0	0	0	14730	449	16	5	976	5	SLCO4C1	5	101593694	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	1722154	101593694	79321566	113	54119										
FBN2	2201	broad.mit.edu	37	chr5	127782240	127782240	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tctgcattcaaaagagcccaCtgtattgatacagtttcctc	6	11	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:127782240C>G	uc003kuu.2	-	7	1325	c.886G>C	c.(886-888)GTG>CTG	p.V296L	FBN2_uc003kuv.2_Missense_Mutation_p.V263L|FBN2_uc003kuw.3_Missense_Mutation_p.V296L|FBN2_uc003kux.1_Missense_Mutation_p.V296L	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	296	EGF-like 4; calcium-binding.				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)		AAAGAGCCCACTGTATTGATA	0.433													35	170	---	---	---	---	PASS	G	127782240	G	G	127782240	3	3	152	1	0	0	0	0	1	0	0	0	5703	565	20	4	8088	4	FBN2	5	127782240	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	26188546	127782240	53133020	114	54120										
MATR3	9782	broad.mit.edu	37	chr5	138658546	138658546	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gttcagtgggagacgagaccGatcttgctaatttaggtgat	13	6	2	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:138658546G>T	uc003ldu.2	+	15	2465	c.2038G>T	c.(2038-2040)GAT>TAT	p.D680Y	MATR3_uc010jfb.2_Missense_Mutation_p.D680Y|MATR3_uc003ldt.2_Missense_Mutation_p.D342Y|MATR3_uc003ldw.2_Missense_Mutation_p.D680Y|MATR3_uc003ldx.2_Missense_Mutation_p.D680Y|MATR3_uc010jfc.2_Missense_Mutation_p.D680Y|MATR3_uc003ldy.2_Missense_Mutation_p.D357Y|MATR3_uc011czb.1_Missense_Mutation_p.D392Y|MATR3_uc003ldz.2_Missense_Mutation_p.D680Y|MATR3_uc003lea.2_Missense_Mutation_p.D680Y|MATR3_uc003leb.2_Missense_Mutation_p.D342Y|MATR3_uc003lec.2_Missense_Mutation_p.D357Y	NM_199189	NP_954659	P43243	MATR3_HUMAN	matrin 3	680						nuclear inner membrane|nuclear matrix	nucleotide binding|protein binding|RNA binding|structural molecule activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AGACGAGACCGATCTTGCTAA	0.428													13	82	---	---	---	---	PASS	T	138658546	T	T	138658546	3	4	152	1	0	0	0	0	1	0	0	0	9337	1058	37	2	2080	2	MATR3	5	138658546	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	10876306	138658546	42256714	115	54121										
PSD2	84249	broad.mit.edu	37	chr5	139193192	139193192	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agctgggcagccccctgcggCgctccatctccagcagccgc	12	19	1	0	rs147042685	byFrequency	TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:139193192C>T	uc003leu.1	+	3	875	c.670C>T	c.(670-672)CGC>TGC	p.R224C		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	224					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCCCTGCGGCGCTCCATCTC	0.662													4	33	---	---	---	---	PASS	T	139193192	T	T	139193192	3	4	152	1	0	0	0	0	1	0	0	0	12647	768	27	1	676	1	PSD2	5	139193192	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	534646	139193192	41722068	116	54122										
PCDHB3	56132	broad.mit.edu	37	chr5	140481580	140481580	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gacgtcaatgacaacgccccCgccttcacccaaatctccta	5	18	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:140481580C>A	uc003lio.2	+	1	1347	c.1347C>A	c.(1345-1347)CCC>CCA	p.P449P	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	449	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACAACGCCCCCGCCTTCACCC	0.562													51	142	---	---	---	---	PASS	A	140481580	A	A	140481580	2	1	152	1	0	0	0	0	0	0	0	1	11543	639	23	1		1	PCDHB3	5	140481580	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	1288388	140481580	40433680	117	54123										
PCDHB5	26167	broad.mit.edu	37	chr5	140515035	140515035	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caatggagactgcgctagcaAaaacgccacagaaaaggcaa	10	10	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:140515035A>G	uc003liq.2	+	1	236	c.19A>G	c.(19-21)AAA>GAA	p.K7E		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	7					calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGCGCTAGCAAAAACGCCACA	0.463													8	132	---	---	---	---	PASS	G	140515035	G	G	140515035	3	3	152	1	0	0	0	0	1	0	0	0	11545	15	1	5	21	5	PCDHB5	5	140515035	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	33455	140515035	40400225	118	54124										
PCDHGB5	56101	broad.mit.edu	37	chr5	140778610	140778610	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctcaaaagaaactggattttGaagagaccaaggaatattca	8	6	2	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:140778610G>C	uc003lkf.1	+	1	916	c.916G>C	c.(916-918)GAA>CAA	p.E306Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.E306Q	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	306	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTGGATTTTGAAGAGACCAA	0.373													24	241	---	---	---	---	PASS	C	140778610	C	C	140778610	3	2	152	1	0	0	0	0	1	0	0	0	11566	1291	45	2	918	2	PCDHGB5	5	140778610	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	263575	140778610	40136650	119	54125										
LARS	51520	broad.mit.edu	37	chr5	145557152	145557152	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	atgcattgacctcaaacactCtctcagtatcccatttctgt	4	13	4	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr5:145557152C>T	uc003lnx.1	-	2	321	c.83G>A	c.(82-84)AGA>AAA	p.R28K	LARS_uc011dbq.1_Missense_Mutation_p.R28K|LARS_uc011dbr.1_Intron|LARS_uc011dbs.1_Missense_Mutation_p.R28K	NM_020117	NP_064502	Q9P2J5	SYLC_HUMAN	leucyl-tRNA synthetase	28					leucyl-tRNA aminoacylation	cytosol	ATP binding|leucine-tRNA ligase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Leucine(DB00149)	CTCAAACACTCTCTCAGTATC	0.328													13	154	---	---	---	---	PASS	T	145557152	T	T	145557152	3	4	152	1	0	0	0	0	1	0	0	0	8634	913	32	2	3571	2	LARS	5	145557152	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	4778542	145557152	35358108	120	54126										
GFOD1	54438	broad.mit.edu	37	chr6	13365729	13365729	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cacacaccagcggctcgcccAcgtagccctcctcgatcagc	8	20	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:13365729A>G	uc003nat.1	-	2	1084	c.419T>C	c.(418-420)GTG>GCG	p.V140A	GFOD1_uc003nas.1_Missense_Mutation_p.V37A	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	140						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			CGGCTCGCCCACGTAGCCCTC	0.652													10	20	---	---	---	---	PASS	G	13365729	G	G	13365729	3	3	152	1	0	0	0	0	1	0	0	0	6343	159	6	5	757	5	GFOD1	6	13365729	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08		13365729	157749338	121	54127										
HIST1H2BC	8347	broad.mit.edu	37	chr6	26123851	26123851	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aggcgcacggccgtctggatCtccctggaggtgatggtcga	16	11	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:26123851C>A	uc003ngk.3	-	1	304	c.282G>T	c.(280-282)GAG>GAT	p.E94D	HIST1H2BC_uc003ngl.2_Missense_Mutation_p.E94D|HIST1H2AC_uc003ngm.2_5'Flank|HIST1H2AC_uc003ngn.2_5'Flank|HIST1H2AC_uc003ngo.2_5'Flank|HIST1H2AC_uc003ngp.2_5'Flank	NM_003526	NP_003517	P62807	H2B1C_HUMAN	histone cluster 1, H2bc	94					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			ovary(1)	1						CCGTCTGGATCTCCCTGGAGG	0.597													49	108	---	---	---	---	PASS	A	26123851	A	A	26123851	3	1	152	1	0	0	0	0	1	0	0	0	7142	912	32	2	102	2	HIST1H2BC	6	26123851	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	12758122	26123851	144991216	122	54128										
OR10C1	442194	broad.mit.edu	37	chr6	29408320	29408320	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cccaataccatcccgcagttCttctgtgagatccagcctgt	7	15	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:29408320C>A	uc011dlp.1	+	1	528	c.528C>A	c.(526-528)TTC>TTA	p.F176L	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	176	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCCCGCAGTTCTTCTGTGAGA	0.592													108	162	---	---	---	---	PASS	A	29408320	A	A	29408320	3	1	152	1	0	0	0	0	1	0	0	0	10898	912	32	2	530	2	OR10C1	6	29408320	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	3284469	29408320	141706747	123	54129										
TNXB	7148	broad.mit.edu	37	chr6	32026137	32026137	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctgtgcctggttctgtagggCtgggggtctcgtccacatcc	14	12	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:32026137C>T	uc003nzl.2	-	22	7725	c.7523G>A	c.(7522-7524)AGC>AAC	p.S2508N		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2568					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TTCTGTAGGGCTGGGGGTCTC	0.587													6	33	---	---	---	---	PASS	T	32026137	T	T	32026137	3	4	152	1	0	0	0	0	1	0	0	0	16343	797	28	3	7282	3	TNXB	6	32026137	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	2617817	32026137	139088930	124	54130										
ABCC10	89845	broad.mit.edu	37	chr6	43400184	43400184	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgaccgtgttgtggcattgcCagcgaggcacacttctgccc	12	13	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:43400184C>A	uc003ouy.1	+	3	681	c.466C>A	c.(466-468)CAG>AAG	p.Q156K	ABCC10_uc003ouz.1_Missense_Mutation_p.Q113K	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	156						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			GTGGCATTGCCAGCGAGGCAC	0.642													9	310	---	---	---	---	PASS	A	43400184	A	A	43400184	3	1	152	1	0	0	0	0	1	0	0	0	50	595	21	3	339	3	ABCC10	6	43400184	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	11374047	43400184	127714883	125	54131										
GPR110	266977	broad.mit.edu	37	chr6	46977837	46977837	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	acattttaatctgatagctgTaaccccttttgagttggctt	7	8	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:46977837T>C	uc003oyt.2	-	11	1533	c.1334A>G	c.(1333-1335)TAC>TGC	p.Y445C	GPR110_uc011dwl.1_Missense_Mutation_p.Y133C	NM_153840	NP_722582	Q5T601	GP110_HUMAN	G-protein coupled receptor 110 isoform 1	445	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|pancreas(1)	3						CTGATAGCTGTAACCCCTTTT	0.443													53	164	---	---	---	---	PASS	C	46977837	C	C	46977837	3	2	152	1	0	0	0	0	1	0	0	0	6627	1638	57	5	1418	5	GPR110	6	46977837	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	3577653	46977837	124137230	126	54132										
HCRTR2	3062	broad.mit.edu	37	chr6	55113587	55113587	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gacctggttttttggacagtCcctttgcaaagtgattcctt	9	9	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:55113587C>G	uc003pcl.2	+	2	689	c.374C>G	c.(373-375)TCC>TGC	p.S125C	HCRTR2_uc010jzv.2_RNA|HCRTR2_uc010jzw.1_Missense_Mutation_p.S60C	NM_001526	NP_001517	O43614	OX2R_HUMAN	orexin receptor 2	125	Extracellular (Potential).				feeding behavior	integral to plasma membrane	neuropeptide receptor activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|breast(1)	6	Lung NSC(77;0.107)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			TTTGGACAGTCCCTTTGCAAA	0.423													16	441	---	---	---	---	PASS	G	55113587	G	G	55113587	3	3	152	1	0	0	0	0	1	0	0	0	7002	855	30	2	380	2	HCRTR2	6	55113587	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	8135750	55113587	116001480	127	54133										
GFRAL	389400	broad.mit.edu	37	chr6	55198628	55198628	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggaattcatcatactgtaacCtgagtatccagtacttagtg	8	8	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:55198628C>A	uc003pcm.1	+	3	288	c.202C>A	c.(202-204)CTG>ATG	p.L68M		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	68	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			ATACTGTAACCTGAGTATCCA	0.348													31	243	---	---	---	---	PASS	A	55198628	A	A	55198628	3	1	152	1	0	0	0	0	1	0	0	0	6351	680	24	3	212	3	GFRAL	6	55198628	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	85041	55198628	115916439	128	54134										
BAI3	577	broad.mit.edu	37	chr6	69653876	69653876	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cataagccttgtaatattgcTctttgcccaggtgagcctat	8	10	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:69653876T>G	uc003pev.3	+	6	1633	c.1185T>G	c.(1183-1185)GCT>GCG	p.A395A	BAI3_uc010kak.2_Silent_p.A395A	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	395	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)				GTAATATTGCTCTTTGCCCAG	0.418													17	163	---	---	---	---	PASS	G	69653876	G	G	69653876	2	3	152	1	0	0	0	0	0	0	0	1	1300	1538	54	5		5	BAI3	6	69653876	Silent	SNP	T	TCGA-66-2767-01A-01D-1522-08	14455248	69653876	101461191	129	54135										
BAI3	577	broad.mit.edu	37	chr6	70070787	70070787	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ataaggatattggtccttgcCgagcagccacaataacagga	10	9	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:70070787C>T	uc003pev.3	+	29	4070	c.3622C>T	c.(3622-3624)CGA>TGA	p.R1208*	BAI3_uc010kak.2_Nonsense_Mutation_p.R1208*|BAI3_uc011dxx.1_Nonsense_Mutation_p.R414*	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1208	Cytoplasmic (Potential).				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)				TGGTCCTTGCCGAGCAGCCAC	0.358													28	112	---	---	---	---	PASS	T	70070787	T	T	70070787	4	4	152	1	0	0	0	0	0	1	0	0	1300	644	23	1	3728	1	BAI3	6	70070787	Nonsense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	416911	70070787	101044280	130	54136										
ZNF292	23036	broad.mit.edu	37	chr6	87970021	87970021	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgaccagttagagtgtaaatCttcatttactacatatttga	6	6	2	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:87970021C>G	uc003plm.3	+	8	6715	c.6674C>G	c.(6673-6675)TCT>TGT	p.S2225C		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	2225	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		GAGTGTAAATCTTCATTTACT	0.378													29	227	---	---	---	---	PASS	G	87970021	G	G	87970021	3	3	152	1	0	0	0	0	1	0	0	0	17823	913	32	2	6704	2	ZNF292	6	87970021	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	17899234	87970021	83145046	131	54137										
C6orf165	154313	broad.mit.edu	37	chr6	88138405	88138405	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agacgaaactattgtggttgGtgtcctcagtaatttattca	9	6	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:88138405G>T	uc003plv.2	+	9	1114	c.1022G>T	c.(1021-1023)GGT>GTT	p.G341V	C6orf165_uc003plw.2_Missense_Mutation_p.G153V|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.G341V	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	341										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		ATTGTGGTTGGTGTCCTCAGT	0.408													57	263	---	---	---	---	PASS	T	88138405	T	T	88138405	3	4	152	1	0	0	0	0	1	0	0	0	2341	1261	44	3	1052	3	C6orf165	6	88138405	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	168384	88138405	82976662	132	54138										
MANEA	79694	broad.mit.edu	37	chr6	96034548	96034548	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aaataccaagaatttaaaaaGtgttgaaatcactatgaaac	5	5	1	3	rs144076192	byFrequency	TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:96034548G>T	uc003poo.1	+	2	373	c.233G>T	c.(232-234)AGT>ATT	p.S78I	MANEA_uc003pon.2_Missense_Mutation_p.S78I	NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	78	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		AATTTAAAAAGTGTTGAAATC	0.328													60	183	---	---	---	---	PASS	T	96034548	T	T	96034548	3	4	152	1	0	0	0	0	1	0	0	0	9221	1029	36	3	235	3	MANEA	6	96034548	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	7896143	96034548	75080519	133	54139										
GRIK2	2898	broad.mit.edu	37	chr6	102307216	102307216	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aacctctctatggtaatgatCgatttgaaggctattgcatt	8	7	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:102307216C>T	uc003pqp.3	+	10	1621	c.1372C>T	c.(1372-1374)CGA>TGA	p.R458*	GRIK2_uc003pqn.2_Nonsense_Mutation_p.R458*|GRIK2_uc003pqo.3_Nonsense_Mutation_p.R458*|GRIK2_uc010kcw.2_Nonsense_Mutation_p.R458*	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	458	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	TGGTAATGATCGATTTGAAGG	0.363													8	119	---	---	---	---	PASS	T	102307216	T	T	102307216	4	4	152	1	0	0	0	0	0	1	0	0	6774	876	31	2	1410	2	GRIK2	6	102307216	Nonsense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	6272668	102307216	68807851	134	54140										
RFX6	222546	broad.mit.edu	37	chr6	117241518	117241518	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agcatgtcgttaattctatgGtgtctgatattgaaagggtt	11	4	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:117241518G>A	uc003pxm.2	+	12	1291	c.1228G>A	c.(1228-1230)GTG>ATG	p.V410M		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	410					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TAATTCTATGGTGTCTGATAT	0.408													54	368	---	---	---	---	PASS	A	117241518	A	A	117241518	3	1	152	1	0	0	0	0	1	0	0	0	13267	1261	44	3	1274	3	RFX6	6	117241518	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	14934302	117241518	53873549	135	54141										
MYB	4602	broad.mit.edu	37	chr6	135507145	135507145	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcacttggggaaaacaaggtGgacccgggaagaggtaacta	14	7	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:135507145G>T	uc003qfc.2	+	2	327	c.128G>T	c.(127-129)TGG>TTG	p.W43L	MYB_uc003qfh.2_Missense_Mutation_p.W43L|MYB_uc003qfi.2_Missense_Mutation_p.W43L|MYB_uc010kgi.2_Missense_Mutation_p.W43L|MYB_uc003qfq.2_Missense_Mutation_p.W43L|MYB_uc010kgj.2_Missense_Mutation_p.W43L|MYB_uc003qfo.2_Missense_Mutation_p.W43L|MYB_uc003qfu.2_Missense_Mutation_p.W43L|MYB_uc003qfl.2_RNA|MYB_uc003qfv.2_RNA|MYB_uc003qfz.2_RNA|MYB_uc003qfx.2_RNA|MYB_uc003qga.2_RNA|MYB_uc003qgb.2_RNA|MYB_uc010kgk.2_RNA|MYB_uc003qfd.2_RNA|MYB_uc003qfe.2_RNA|MYB_uc003qfg.2_RNA|MYB_uc003qff.2_RNA|MYB_uc003qfj.2_RNA|MYB_uc003qfm.2_RNA|MYB_uc003qfp.2_RNA|MYB_uc003qfn.2_RNA|MYB_uc003qfk.2_RNA|MYB_uc003qfr.2_RNA|MYB_uc003qfs.2_5'UTR|MYB_uc003qft.2_RNA|MYB_uc003qfw.2_5'UTR|MYB_uc003qfy.2_RNA|MYB_uc003qgc.2_RNA|MYB_uc003qfb.1_Missense_Mutation_p.W43L|MYB_uc003qgd.1_5'Flank	NM_005375	NP_005366	P10242	MYB_HUMAN	v-myb myeloblastosis viral oncogene homolog	43	HTH myb-type 1.				blood coagulation|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone H3-K4 methylation|positive regulation of histone H3-K9 methylation|positive regulation of T-helper cell differentiation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear matrix	DNA binding|protein binding			lung(1)	1	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)		AAAACAAGGTGGACCCGGGAA	0.403			T	NFIB	adenoid cystic carcinoma								4	146	---	---	---	---	PASS	T	135507145	T	T	135507145	3	4	152	1	0	0	0	0	1	0	0	0	10007	1357	47	3	134	3	MYB	6	135507145	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	18265627	135507145	35607922	136	54142										
TXLNB	167838	broad.mit.edu	37	chr6	139581568	139581568	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tctgtgtttaaatattttgtCcagatgctaagaaaaataaa	6	4	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:139581568C>T	uc011eds.1	-	6	1054	c.889G>A	c.(889-891)GAC>AAC	p.D297N		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	297	Potential.					cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		AATATTTTGTCCAGATGCTAA	0.388													16	72	---	---	---	---	PASS	T	139581568	T	T	139581568	3	4	152	1	0	0	0	0	1	0	0	0	16785	855	30	2	1185	2	TXLNB	6	139581568	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	4074423	139581568	31533499	137	54143										
SASH1	23328	broad.mit.edu	37	chr6	148840988	148840988	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aagtgtcccgctccctcaccGagggggagatgaagaagggt	15	10	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:148840988G>T	uc003qme.1	+	10	1643	c.1168G>T	c.(1168-1170)GAG>TAG	p.E390*	SASH1_uc011eeb.1_Nonsense_Mutation_p.E151*	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	390							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CTCCCTCACCGAGGGGGAGAT	0.572													5	24	---	---	---	---	PASS	T	148840988	T	T	148840988	4	4	152	1	0	0	0	0	0	1	0	0	13848	1059	37	2	1206	2	SASH1	6	148840988	Nonsense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	9259420	148840988	22274079	138	54144										
LATS1	9113	broad.mit.edu	37	chr6	150005649	150005649	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gccacactttctcctagtggCgggccatgcctctgaggaac	11	14	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:150005649C>A	uc003qmu.1	-	4	1124	c.576G>T	c.(574-576)CCG>CCT	p.P192P	LATS1_uc010kif.1_Silent_p.P87P|LATS1_uc003qmv.1_Silent_p.P192P|LATS1_uc003qmw.2_Silent_p.P192P|LATS1_uc010kig.1_Silent_p.P87P	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	192					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		CTCCTAGTGGCGGGCCATGCC	0.448													22	84	---	---	---	---	PASS	A	150005649	A	A	150005649	2	1	152	1	0	0	0	0	0	0	0	1	8646	755	27	1		1	LATS1	6	150005649	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	1164661	150005649	21109418	139	54145										
SYNE1	23345	broad.mit.edu	37	chr6	152770771	152770771	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	atatccaagatgagaactcaGagaatctgaaataacataag	7	6	2	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:152770771G>C	uc010kiw.2	-	28	4003	c.3401C>G	c.(3400-3402)TCT>TGT	p.S1134C	SYNE1_uc003qot.3_Missense_Mutation_p.S1141C|SYNE1_uc003qou.3_Missense_Mutation_p.S1134C|SYNE1_uc010kjb.1_Missense_Mutation_p.S1117C|SYNE1_uc003qow.2_Missense_Mutation_p.S429C|SYNE1_uc003qox.1_Missense_Mutation_p.S650C	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1134	HAT 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)		TGAGAACTCAGAGAATCTGAA	0.373										HNSCC(10;0.0054)			33	99	---	---	---	---	PASS	C	152770771	C	C	152770771	3	2	152	1	0	0	0	0	1	0	0	0	15442	942	33	2	23541	2	SYNE1	6	152770771	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	2765122	152770771	18344296	140	54146										
SYTL3	94120	broad.mit.edu	37	chr6	159166633	159166633	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aacccattctttagaaatatGcatcaaggcctgtaagaacc	6	10	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:159166633G>A	uc003qrp.2	+	11	1221	c.977G>A	c.(976-978)TGC>TAC	p.C326Y	SYTL3_uc011efp.1_Missense_Mutation_p.C326Y|SYTL3_uc003qro.2_Missense_Mutation_p.C258Y|SYTL3_uc003qrq.2_Missense_Mutation_p.C258Y|SYTL3_uc003qrr.2_Missense_Mutation_p.C326Y|SYTL3_uc003qrs.2_Missense_Mutation_p.C258Y|SYTL3_uc011efq.1_Missense_Mutation_p.C52Y	NM_001009991	NP_001009991	Q4VX76	SYTL3_HUMAN	synaptotagmin-like 3	326	C2 1.				intracellular protein transport	endomembrane system|membrane	Rab GTPase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.54e-17)|BRCA - Breast invasive adenocarcinoma(81;8.24e-06)		TTAGAAATATGCATCAAGGCC	0.328													8	87	---	---	---	---	PASS	A	159166633	A	A	159166633	3	1	152	1	0	0	0	0	1	0	0	0	15481	1319	46	3	799	3	SYTL3	6	159166633	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	6395862	159166633	11948434	141	54147										
SLC22A1	6580	broad.mit.edu	37	chr6	160543159	160543159	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctgagccagcgctgtggctgGagccctgcggaggagctgaa	17	11	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr6:160543159G>T	uc003qtc.2	+	1	297	c.192G>T	c.(190-192)TGG>TGT	p.W64C	SLC22A1_uc003qtd.2_Missense_Mutation_p.W64C	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	64	Extracellular (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		GCTGTGGCTGGAGCCCTGCGG	0.642													36	136	---	---	---	---	PASS	T	160543159	T	T	160543159	3	4	152	1	0	0	0	0	1	0	0	0	14440	1183	41	2	194	2	SLC22A1	6	160543159	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	1376526	160543159	10571908	142	54148										
TNRC18	84629	broad.mit.edu	37	chr7	5391596	5391596	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggcccctcttggtcagcttgGggccaccagctgccttgctg	13	15	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:5391596G>A	uc003soi.3	-	17	5673	c.5324C>T	c.(5323-5325)CCC>CTC	p.P1775L	TNRC18_uc003soj.2_Missense_Mutation_p.P157L	NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1775							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GGTCAGCTTGGGGCCACCAGC	0.647													13	50	---	---	---	---	PASS	A	5391596	A	A	5391596	3	1	152	1	0	0	0	0	1	0	0	0	16336	1232	43	3	3638	3	TNRC18	7	5391596	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08		5391596	153747067	143	54149										
TWISTNB	221830	broad.mit.edu	37	chr7	19748468	19748468	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aaggtagcggggcgacagcgCgatgtgcctttggtgcggcc	18	10	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:19748468C>A	uc003sup.1	-	1	193	c.172G>T	c.(172-174)GCG>TCG	p.A58S		NM_001002926	NP_001002926	Q3B726	RPA43_HUMAN	TWIST neighbor	58						microtubule cytoskeleton|nucleolus	DNA-directed RNA polymerase activity			ovary(1)	1						GGCGACAGCGCGATGTGCCTT	0.592											OREG0017879	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	49	---	---	---	---	PASS	A	19748468	A	A	19748468	3	1	152	1	0	0	0	0	1	0	0	0	16781	768	27	1	860	1	TWISTNB	7	19748468	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	14356872	19748468	139390195	144	54150										
DNAH11	8701	broad.mit.edu	37	chr7	21751351	21751351	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgctgaccctcgccagcaatGagcgcattgcactcactccc	8	17	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:21751351G>A	uc003svc.2	+	43	6908	c.6877G>A	c.(6877-6879)GAG>AAG	p.E2293K		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2293	AAA 2 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CGCCAGCAATGAGCGCATTGC	0.522									Kartagener_syndrome				7	175	---	---	---	---	PASS	A	21751351	A	A	21751351	3	1	152	1	0	0	0	0	1	0	0	0	4599	1291	45	2	7044	2	DNAH11	7	21751351	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	2002883	21751351	137387312	145	54151										
ELMO1	9844	broad.mit.edu	37	chr7	37172782	37172782	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggcaaagtacagcatgttgtCcagagccaacatcccaggtg	11	11	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:37172782C>T	uc003tfk.1	-	14	1451	c.1144G>A	c.(1144-1146)GAC>AAC	p.D382N	ELMO1_uc011kbc.1_Missense_Mutation_p.D286N|ELMO1_uc010kxg.1_Missense_Mutation_p.D382N	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	382	ELMO.				actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						AGCATGTTGTCCAGAGCCAAC	0.448													11	109	---	---	---	---	PASS	T	37172782	T	T	37172782	3	4	152	1	0	0	0	0	1	0	0	0	5065	855	30	2	1075	2	ELMO1	7	37172782	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	15421431	37172782	121965881	146	54152										
INHBA	3624	broad.mit.edu	37	chr7	41729898	41729898	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggtgctcttccgagcgtctaCtactttttcagagagcaaca	9	11	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:41729898C>A	uc003thq.2	-	2	866	c.631G>T	c.(631-633)GTA>TTA	p.V211L	INHBA_uc003thr.2_Missense_Mutation_p.V211L	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	211					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						CGAGCGTCTACTACTTTTTCA	0.592										TSP Lung(11;0.080)			33	72	---	---	---	---	PASS	A	41729898	A	A	41729898	3	1	152	1	0	0	0	0	1	0	0	0	7741	565	20	3	653	3	INHBA	7	41729898	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	4557116	41729898	117408765	147	54153										
HECW1	23072	broad.mit.edu	37	chr7	43283525	43283525	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	atgctgctgcacctgtgtagTgtgaaggtcagtgtgctttt	13	7	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:43283525T>A	uc003tid.1	+	3	626	c.21T>A	c.(19-21)AGT>AGA	p.S7R	HECW1_uc011kbi.1_Missense_Mutation_p.S7R|HECW1_uc003tie.1_Intron	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	7					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						ACCTGTGTAGTGTGAAGGTCA	0.463													5	171	---	---	---	---	PASS	A	43283525	A	A	43283525	3	1	152	1	0	0	0	0	1	0	0	0	7042	1693	59	5	23	5	HECW1	7	43283525	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	1553627	43283525	115855138	148	54154										
OGDH	4967	broad.mit.edu	37	chr7	44687346	44687346	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccgctgacattatctcatccAcagacaaacttggtgagggt	9	11	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:44687346A>C	uc003tln.2	+	4	614	c.505A>C	c.(505-507)ACA>CCA	p.T169P	OGDH_uc003tlm.2_Missense_Mutation_p.T169P|OGDH_uc011kbx.1_Intron|OGDH_uc011kby.1_Intron|OGDH_uc003tlp.2_Intron|OGDH_uc011kbz.1_Silent_p.P15P|OGDH_uc003tlo.1_5'UTR	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	169					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	TATCTCATCCACAGACAAACT	0.577													34	106	---	---	---	---	PASS	C	44687346	C	C	44687346	3	2	152	1	0	0	0	0	1	0	0	0	10839	159	6	5	610	5	OGDH	7	44687346	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	1403821	44687346	114451317	149	54155										
ZNF107	51427	broad.mit.edu	37	chr7	64168413	64168413	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aagataattcatactggagaGaacctctacaaatttgaaga	7	6	2	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:64168413G>A	uc003ttd.2	+	7	2517	c.1731G>A	c.(1729-1731)GAG>GAA	p.E577E	ZNF107_uc003tte.2_Silent_p.E577E	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	577					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				ATACTGGAGAGAACCTCTACA	0.338													6	197	---	---	---	---	PASS	A	64168413	A	A	64168413	2	1	152	1	0	0	0	0	0	0	0	1	17712	933	33	2		2	ZNF107	7	64168413	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	19481067	64168413	94970250	150	54156										
POM121	9883	broad.mit.edu	37	chr7	72409131	72409131	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gtccctcttgatttttagctCtggaagagaaatggccccag	10	10	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:72409131C>G	uc003twk.2	+	6	1278	c.1278C>G	c.(1276-1278)CTC>CTG	p.L426L	POM121_uc003twj.2_Silent_p.L161L|POM121_uc010lam.1_Silent_p.L161L	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	426	Ser-rich.|Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				ATTTTTAGCTCTGGAAGAGAA	0.473													71	231	---	---	---	---	PASS	G	72409131	G	G	72409131	2	3	152	1	0	0	0	0	0	0	0	1	12239	900	32	2		2	POM121	7	72409131	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	8240718	72409131	86729532	151	54157										
TRIM74	378108	broad.mit.edu	37	chr7	75034322	75034322	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gagtgtgtgctggaacagttCggcaatgaggaccaccatga	14	8	0	2	rs150021451		TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:75034322C>T	uc003udc.1	+	4	896	c.696C>T	c.(694-696)TTC>TTT	p.F232F	TRIM74_uc010ldc.2_Silent_p.F232F|TRIM74_uc010ldd.2_Silent_p.F232F	NM_198924	NP_944606	Q86UV6	TRI74_HUMAN	tripartite motif-containing 73	232	Potential.					intracellular	zinc ion binding				0						TGGAACAGTTCGGCAATGAGG	0.657													4	163	---	---	---	---	PASS	T	75034322	T	T	75034322	2	4	152	1	0	0	0	0	0	0	0	1	16544	883	31	2		2	TRIM74	7	75034322	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	2625191	75034322	84104341	152	54158										
STEAP1	26872	broad.mit.edu	37	chr7	89793811	89793811	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agcaagctaggaattgtttcCcttctactgggcacaataca	8	10	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:89793811C>T	uc003ujx.2	+	5	983	c.783C>T	c.(781-783)TCC>TCT	p.S261S		NM_012449	NP_036581	Q9UHE8	STEA1_HUMAN	six transmembrane epithelial antigen of the	261	Ferric oxidoreductase.|Helical; (Potential).				electron transport chain|ion transport|iron ion homeostasis	cell-cell junction|endosome membrane|integral to plasma membrane	channel activity|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	all_hematologic(106;0.112)					GAATTGTTTCCCTTCTACTGG	0.368													39	378	---	---	---	---	PASS	T	89793811	T	T	89793811	2	4	152	1	0	0	0	0	0	0	0	1	15276	610	22	3		3	STEAP1	7	89793811	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	14759489	89793811	69344852	153	54159										
PDK4	5166	broad.mit.edu	37	chr7	95223028	95223028	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tactctgataatgctttctgGtcatctgggcttttctcatg	8	9	5	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:95223028G>T	uc003uoa.2	-	3	647	c.327C>A	c.(325-327)GAC>GAA	p.D109E	PDK4_uc003unz.2_5'Flank	NM_002612	NP_002603	Q16654	PDK4_HUMAN	pyruvate dehydrogenase kinase 4 precursor	109					glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity				0	all_cancers(62;1.06e-10)|all_epithelial(64;1.04e-09)|Lung NSC(181;0.128)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0151)			ATGCTTTCTGGTCATCTGGGC	0.323													29	175	---	---	---	---	PASS	T	95223028	T	T	95223028	3	4	152	1	0	0	0	0	1	0	0	0	11678	1252	44	3	944	3	PDK4	7	95223028	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	5429217	95223028	63915635	154	54160										
MEPCE	56257	broad.mit.edu	37	chr7	100028427	100028427	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctcaagactggtcggaagcgGcatagacaccggggacagca	14	11	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:100028427G>A	uc003uuw.2	+	1	899	c.786G>A	c.(784-786)CGG>CGA	p.R262R	ZCWPW1_uc003uut.2_5'Flank|ZCWPW1_uc011kjr.1_5'Flank|ZCWPW1_uc003uuu.1_5'Flank|ZCWPW1_uc011kjt.1_5'Flank|ZCWPW1_uc011kju.1_5'Flank|MEPCE_uc003uuv.2_5'UTR	NM_019606	NP_062552	Q7L2J0	MEPCE_HUMAN	bin3, bicoid-interacting 3	262							methyltransferase activity			upper_aerodigestive_tract(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GTCGGAAGCGGCATAGACACC	0.597													5	345	---	---	---	---	PASS	A	100028427	A	A	100028427	2	1	152	1	0	0	0	0	0	0	0	1	9477	1190	42	3		3	MEPCE	7	100028427	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	4805399	100028427	59110236	155	54161										
ZAN	7455	broad.mit.edu	37	chr7	100388590	100388590	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccctacccagcatgtacgagGggcttgtgagtggcctgtgc	14	12	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:100388590G>T	uc003uwj.2	+	41	7549	c.7384G>T	c.(7384-7386)GGG>TGG	p.G2462W	ZAN_uc003uwk.2_Missense_Mutation_p.G2462W|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Intron	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2462	VWFD 4.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CATGTACGAGGGGCTTGTGAG	0.483													13	21	---	---	---	---	PASS	T	100388590	T	T	100388590	3	4	152	1	0	0	0	0	1	0	0	0	17510	1232	43	3	7537	3	ZAN	7	100388590	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	360163	100388590	58750073	156	54162										
ACHE	43	broad.mit.edu	37	chr7	100490047	100490047	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cgagaggggtccagggggatCccaaagatgaactcgatctc	14	10	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:100490047C>G	uc003uxd.2	-	2	1617	c.1461G>C	c.(1459-1461)GGG>GGC	p.G487G	UFSP1_uc003uxc.3_5'Flank|ACHE_uc003uxe.2_Silent_p.G487G|ACHE_uc003uxf.2_Silent_p.G487G|ACHE_uc003uxg.2_Silent_p.G487G|ACHE_uc003uxh.2_Silent_p.G399G|ACHE_uc003uxi.2_Silent_p.G487G	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	487					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	CCAGGGGGATCCCAAAGATGA	0.607													21	71	---	---	---	---	PASS	G	100490047	G	G	100490047	2	3	152	1	0	0	0	0	0	0	0	1	141	842	30	2		2	ACHE	7	100490047	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	101457	100490047	58648616	157	54163										
RELN	5649	broad.mit.edu	37	chr7	103191681	103191681	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgccaggtcgccccgaagtcCcttgaaaattccagtctcac	8	15	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:103191681C>G	uc003vca.2	-	41	6295	c.6135G>C	c.(6133-6135)AGG>AGC	p.R2045S	RELN_uc010liz.2_Missense_Mutation_p.R2045S	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2045	BNR 9.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCCCGAAGTCCCTTGAAAATT	0.537													11	85	---	---	---	---	PASS	G	103191681	G	G	103191681	3	3	152	1	0	0	0	0	1	0	0	0	13220	622	22	4	4347	4	RELN	7	103191681	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	2701634	103191681	55946982	158	54164										
SYPL1	6856	broad.mit.edu	37	chr7	105733500	105733500	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ataatattgtgaccagtagcTattttaatatctgtcagagc	7	6	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:105733500T>C	uc003vdp.2	-	5	622	c.540A>G	c.(538-540)ATA>ATG	p.I180M	SYPL1_uc003vdo.2_Missense_Mutation_p.I162M	NM_006754	NP_006745	Q16563	SYPL1_HUMAN	synaptophysin-like 1 isoform a	180	Vesicular (Potential).|MARVEL.				synaptic transmission	cytoplasmic vesicle membrane|integral to plasma membrane|melanosome|synaptic vesicle	transporter activity				0						GACCAGTAGCTATTTTAATAT	0.398													24	43	---	---	---	---	PASS	C	105733500	C	C	105733500	3	2	152	1	0	0	0	0	1	0	0	0	15459	1512	53	5	247	5	SYPL1	7	105733500	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	2541819	105733500	53405163	159	54165										
FEZF1	389549	broad.mit.edu	37	chr7	121942175	121942175	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gcggttcagtgcctggttcgCcagctggcgtgcgggccagc	17	13	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:121942175C>G	uc003vkd.2	-	4	1378	c.1304G>C	c.(1303-1305)GGC>GCC	p.G435A	FEZF1_uc003vkc.2_Missense_Mutation_p.G385A|uc010lko.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	435	Pro-rich.				cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						GCCTGGTTCGCCAGCTGGCGT	0.373													6	49	---	---	---	---	PASS	G	121942175	G	G	121942175	3	3	152	1	0	0	0	0	1	0	0	0	5825	739	26	4	127	4	FEZF1	7	121942175	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	16208675	121942175	37196488	160	54166										
SLC13A1	6561	broad.mit.edu	37	chr7	122763268	122763268	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggaattctttccaagtaatcAgtggagagtaatcaaaagca	9	6	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:122763268A>G	uc003vkm.2	-	12	1287	c.1262T>C	c.(1261-1263)CTG>CCG	p.L421P	SLC13A1_uc010lks.2_Missense_Mutation_p.L297P	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	421						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	CCAAGTAATCAGTGGAGAGTA	0.398													52	186	---	---	---	---	PASS	G	122763268	G	G	122763268	3	3	152	1	0	0	0	0	1	0	0	0	14391	188	7	5	541	5	SLC13A1	7	122763268	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	821093	122763268	36375395	161	54167										
GRM8	2918	broad.mit.edu	37	chr7	126249443	126249443	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgaagctgattggtccagtgGccgatgactttgtactctgt	12	8	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:126249443G>T	uc003vlr.2	-	7	1778	c.1467C>A	c.(1465-1467)GGC>GGA	p.G489G	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.G489G|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	489	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TGGTCCAGTGGCCGATGACTT	0.378										HNSCC(24;0.065)			61	265	---	---	---	---	PASS	T	126249443	T	T	126249443	2	4	152	1	0	0	0	0	0	0	0	1	6803	1190	42	3		3	GRM8	7	126249443	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	3486175	126249443	32889220	162	54168										
TMEM140	55281	broad.mit.edu	37	chr7	134849492	134849492	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caccctctttgccccccagcCtctcctcctagcccagtgca	5	22	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:134849492C>T	uc003vsi.2	+	2	580	c.299C>T	c.(298-300)CCT>CTT	p.P100L	C7orf49_uc003vsh.2_Intron	NM_018295	NP_060765	Q9NV12	TM140_HUMAN	transmembrane protein 140	100	Cytoplasmic (Potential).					integral to membrane				large_intestine(1)	1						GCCCCCCAGCCTCTCCTCCTA	0.682													4	140	---	---	---	---	PASS	T	134849492	T	T	134849492	3	4	152	1	0	0	0	0	1	0	0	0	16052	681	24	3	301	3	TMEM140	7	134849492	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	8600049	134849492	24289171	163	54169										
SSPO	23145	broad.mit.edu	37	chr7	149510794	149510794	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttccaacggggccatctgcgTgcagccgggtcactgcagct	13	14	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:149510794T>C	uc010lpk.2	+	72	10079	c.10079T>C	c.(10078-10080)GTG>GCG	p.V3360A		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3360	TIL 5.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GCCATCTGCGTGCAGCCGGGT	0.682													7	32	---	---	---	---	PASS	C	149510794	C	C	149510794	3	2	152	1	0	0	0	0	1	0	0	0	15188	1696	59	5	10355	5	SSPO	7	149510794	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	14661302	149510794	9627869	164	54170										
GIMAP5	55340	broad.mit.edu	37	chr7	150439684	150439684	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tggtcatcctcttcacccacAaagaggacttagggggccag	11	12	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr7:150439684A>G	uc003whr.1	+	3	809	c.457A>G	c.(457-459)AAA>GAA	p.K153E	GIMAP5_uc010lpu.2_Missense_Mutation_p.K11E	NM_018384	NP_060854	Q96F15	GIMA5_HUMAN	GTPase, IMAP family member 5	153	Cytoplasmic (Potential).|GTP (Potential).					integral to membrane|mitochondrial outer membrane	GTP binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTTCACCCACAAAGAGGACTT	0.562													63	188	---	---	---	---	PASS	G	150439684	G	G	150439684	3	3	152	1	0	0	0	0	1	0	0	0	6382	131	5	5	463	5	GIMAP5	7	150439684	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	928890	150439684	8698979	165	54171										
RP1L1	94137	broad.mit.edu	37	chr8	10465650	10465650	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gcctccccttctgcctcctgGgtctccacttcaacctccag	6	20	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:10465650G>A	uc003wtc.2	-	4	6187	c.5958C>T	c.(5956-5958)ACC>ACT	p.T1986T		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1986					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CTGCCTCCTGGGTCTCCACTT	0.587													117	353	---	---	---	---	PASS	A	10465650	A	A	10465650	2	1	152	1	0	0	0	0	0	0	0	1	13533	1219	43	3		3	RP1L1	8	10465650	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08		10465650	135898372	166	54172										
ATP6V1B2	526	broad.mit.edu	37	chr8	20055041	20055041	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcagtcggaactacctctccCagcctcgcctcagtgagtat	8	15	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:20055041C>T	uc003wzp.2	+	1	338	c.124C>T	c.(124-126)CAG>TAG	p.Q42*		NM_001693	NP_001684	P21281	VATB2_HUMAN	vacuolar H+ATPase B2	42					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|endomembrane system|Golgi apparatus|melanosome|plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0				Colorectal(74;0.0535)|COAD - Colon adenocarcinoma(73;0.211)		CTACCTCTCCCAGCCTCGCCT	0.647													4	16	---	---	---	---	PASS	T	20055041	T	T	20055041	4	4	152	1	0	0	0	0	0	1	0	0	1179	595	21	3	126	3	ATP6V1B2	8	20055041	Nonsense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	9589391	20055041	126308981	167	54173										
TNFRSF10D	8793	broad.mit.edu	37	chr8	23003215	23003215	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttgaggtaagaaatgaatttCttccgacatgaaaagccaac	8	7	1	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:23003215C>T	uc003xcz.1	-	5	794	c.702G>A	c.(700-702)AAG>AAA	p.K234K		NM_003840	NP_003831	Q9UBN6	TR10D_HUMAN	tumor necrosis factor receptor superfamily,	234	Cytoplasmic (Potential).				anti-apoptosis|apoptosis	integral to membrane	TRAIL binding|transmembrane receptor activity				0		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0147)|COAD - Colon adenocarcinoma(73;0.0612)		AAATGAATTTCTTCCGACATG	0.517													12	89	---	---	---	---	PASS	T	23003215	T	T	23003215	2	4	152	1	0	0	0	0	0	0	0	1	16280	912	32	2		2	TNFRSF10D	8	23003215	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	2948174	23003215	123360807	168	54174										
FZD3	7976	broad.mit.edu	37	chr8	28385506	28385506	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gattccattagaaaaggagaAccaagataaattagtgaagt	9	4	0	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:28385506A>G	uc003xgx.2	+	5	1707	c.1229A>G	c.(1228-1230)AAC>AGC	p.N410S	FZD3_uc010lvb.2_Missense_Mutation_p.N410S	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	410	Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		GAAAAGGAGAACCAAGATAAA	0.408													40	256	---	---	---	---	PASS	G	28385506	G	G	28385506	3	3	152	1	0	0	0	0	1	0	0	0	6131	43	2	5	1239	5	FZD3	8	28385506	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	5382291	28385506	117978516	169	54175										
FGFR1	2260	broad.mit.edu	37	chr8	38271765	38271765	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	acaccggggtatggggagccGcccagagtgaagatctccca	14	12	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:38271765G>A	uc003xlp.2	-	17	3033	c.2091C>T	c.(2089-2091)GGC>GGT	p.G697G	FGFR1_uc010lwf.2_RNA|FGFR1_uc011lbo.1_Silent_p.G695G|FGFR1_uc011lbp.1_Silent_p.G608G|FGFR1_uc011lbq.1_Silent_p.G606G|FGFR1_uc010lwk.2_Silent_p.G687G	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	697	Cytoplasmic (Potential).|Protein kinase.				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	ATGGGGAGCCGCCCAGAGTGA	0.607		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						6	94	---	---	---	---	PASS	A	38271765	A	A	38271765	2	1	152	1	0	0	0	0	0	0	0	1	5863	1074	38	1		1	FGFR1	8	38271765	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	9886259	38271765	108092257	170	54176										
ADAM9	8754	broad.mit.edu	37	chr8	38871541	38871541	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aacaaggaagggactttaatCactgaccatcccaatataca	6	10	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:38871541C>G	uc003xmr.2	+	4	390	c.312C>G	c.(310-312)ATC>ATG	p.I104M	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_RNA|ADAM9_uc010lwr.2_RNA|ADAM9_uc003xmo.1_Missense_Mutation_p.I104M|ADAM9_uc003xmp.2_Missense_Mutation_p.I104M	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	104	Extracellular (Potential).			Missing (in Ref. 2; no nucleotide entry).	activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			GGACTTTAATCACTGACCATC	0.308													6	230	---	---	---	---	PASS	G	38871541	G	G	38871541	3	3	152	1	0	0	0	0	1	0	0	0	253	816	29	2	326	2	ADAM9	8	38871541	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	599776	38871541	107492481	171	54177										
ST18	9705	broad.mit.edu	37	chr8	53030906	53030906	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcttttttttacctgggtctGaagtttcatcatatctgctt	6	8	5	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:53030906G>T	uc003xqz.2	-	19	3007	c.2851C>A	c.(2851-2853)CAG>AAG	p.Q951K	ST18_uc011ldq.1_Missense_Mutation_p.Q598K|ST18_uc011ldr.1_Missense_Mutation_p.Q916K|ST18_uc011lds.1_Missense_Mutation_p.Q856K|ST18_uc003xra.2_Missense_Mutation_p.Q951K	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	951	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				ACCTGGGTCTGAAGTTTCATC	0.294													36	128	---	---	---	---	PASS	T	53030906	T	T	53030906	3	4	152	1	0	0	0	0	1	0	0	0	15211	1299	45	2	304	2	ST18	8	53030906	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	14159365	53030906	93333116	172	54178										
NPBWR1	2831	broad.mit.edu	37	chr8	53852526	53852526	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cgcatcgggcccggacccggCgctgagctgctccaacgcgt	14	17	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:53852526C>A	uc011ldu.1	+	1	59	c.59C>A	c.(58-60)GCG>GAG	p.A20E		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	20	Extracellular (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				CCGGACCCGGCGCTGAGCTGC	0.716													14	28	---	---	---	---	PASS	A	53852526	A	A	53852526	3	1	152	1	0	0	0	0	1	0	0	0	10568	768	27	1	61	1	NPBWR1	8	53852526	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	821620	53852526	92511496	173	54179										
RP1	6101	broad.mit.edu	37	chr8	55534012	55534012	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctagtggtcttcaggaatggCgacccgaagacgaggcgtgc	15	10	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:55534012C>A	uc003xsd.1	+	2	634	c.486C>A	c.(484-486)GGC>GGA	p.G162G	RP1_uc011ldy.1_Silent_p.G162G	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	162	Doublecortin 2.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TCAGGAATGGCGACCCGAAGA	0.667													37	147	---	---	---	---	PASS	A	55534012	A	A	55534012	2	1	152	1	0	0	0	0	0	0	0	1	13532	755	27	1		1	RP1	8	55534012	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	1681486	55534012	90830010	174	54180										
RP1	6101	broad.mit.edu	37	chr8	55534051	55534051	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gcggttcttctgagcaggagGgtcacccagagcttcgaggc	15	11	3	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:55534051G>T	uc003xsd.1	+	2	673	c.525G>T	c.(523-525)AGG>AGT	p.R175S	RP1_uc011ldy.1_Missense_Mutation_p.R175S	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	175	Doublecortin 2.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TGAGCAGGAGGGTCACCCAGA	0.632													51	222	---	---	---	---	PASS	T	55534051	T	T	55534051	3	4	152	1	0	0	0	0	1	0	0	0	13532	1223	43	3	527	3	RP1	8	55534051	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	39	55534051	90829971	175	54181										
ZFHX4	79776	broad.mit.edu	37	chr8	77618581	77618581	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caacaccagcctcagtggctGcggaacaccctctccgtcca	8	18	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:77618581G>T	uc003yav.2	+	2	2645	c.2258G>T	c.(2257-2259)TGC>TTC	p.C753F	ZFHX4_uc003yat.1_Missense_Mutation_p.C753F|ZFHX4_uc003yau.1_Missense_Mutation_p.C753F|ZFHX4_uc003yaw.1_Missense_Mutation_p.C753F	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	753						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTCAGTGGCTGCGGAACACCC	0.527										HNSCC(33;0.089)			15	54	---	---	---	---	PASS	T	77618581	T	T	77618581	3	4	152	1	0	0	0	0	1	0	0	0	17632	1319	46	3	2260	3	ZFHX4	8	77618581	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	22084530	77618581	68745441	176	54182										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885614	88885614	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgtactgaaagagtgatacgCgtggatgctcagggaccagg	15	7	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:88885614C>A	uc003ydz.2	-	1	683	c.586G>T	c.(586-588)GCG>TCG	p.A196S		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	196										ovary(1)	1						GAGTGATACGCGTGGATGCTC	0.557													55	212	---	---	---	---	PASS	A	88885614	A	A	88885614	3	1	152	1	0	0	0	0	1	0	0	0	4272	768	27	1	605	1	DCAF4L2	8	88885614	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	11267033	88885614	57478408	177	54183										
RUNX1T1	862	broad.mit.edu	37	chr8	92998408	92998408	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gcctagagtggctgctgctaCtgccgccacctttttttaag	10	12	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:92998408C>A	uc003yfd.2	-	8	1307	c.1223G>T	c.(1222-1224)AGT>ATT	p.S408I	RUNX1T1_uc003yfc.1_Missense_Mutation_p.S381I|RUNX1T1_uc003yfe.1_Missense_Mutation_p.S371I|RUNX1T1_uc010mao.2_Missense_Mutation_p.S381I|RUNX1T1_uc011lgi.1_Missense_Mutation_p.S419I|RUNX1T1_uc010man.1_5'UTR|RUNX1T1_uc003yfb.1_Missense_Mutation_p.S371I	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	408	Poly-Ser.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GCTGCTGCTACTGCCGCCACC	0.498													49	127	---	---	---	---	PASS	A	92998408	A	A	92998408	3	1	152	1	0	0	0	0	1	0	0	0	13747	565	20	3	607	3	RUNX1T1	8	92998408	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	4112794	92998408	53365614	178	54184										
PTDSS1	9791	broad.mit.edu	37	chr8	97316381	97316381	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttcttttcagagagtagctgGagtgtaccttttcatgatca	9	7	4	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:97316381G>C	uc003yht.1	+	7	968	c.866G>C	c.(865-867)GGA>GCA	p.G289A	PTDSS1_uc003yhu.1_Missense_Mutation_p.G143A	NM_014754	NP_055569	P48651	PTSS1_HUMAN	phosphatidylserine synthase 1	289	Helical; (Potential).				phosphatidylserine biosynthetic process	integral to membrane	transferase activity			ovary(1)	1	Breast(36;6.18e-05)				Phosphatidylserine(DB00144)	AGAGTAGCTGGAGTGTACCTT	0.413													34	456	---	---	---	---	PASS	C	97316381	C	C	97316381	3	2	152	1	0	0	0	0	1	0	0	0	12736	1174	41	2	892	2	PTDSS1	8	97316381	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	4317973	97316381	49047641	179	54185										
PTDSS1	9791	broad.mit.edu	37	chr8	97321823	97321823	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caccgacacacagtgcaagcGcgtaggaacacaatgctggg	12	12	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:97321823G>A	uc003yht.1	+	9	1148	c.1046G>A	c.(1045-1047)CGC>CAC	p.R349H	PTDSS1_uc003yhu.1_Missense_Mutation_p.R203H	NM_014754	NP_055569	P48651	PTSS1_HUMAN	phosphatidylserine synthase 1	349					phosphatidylserine biosynthetic process	integral to membrane	transferase activity			ovary(1)	1	Breast(36;6.18e-05)				Phosphatidylserine(DB00144)	CAGTGCAAGCGCGTAGGAACA	0.428													7	122	---	---	---	---	PASS	A	97321823	A	A	97321823	3	1	152	1	0	0	0	0	1	0	0	0	12736	1087	38	1	1080	1	PTDSS1	8	97321823	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	5442	97321823	49042199	180	54186										
OSR2	116039	broad.mit.edu	37	chr8	99961829	99961829	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggaggcaagatcacctgcggGatcacaggtgaggcgggcaa	17	9	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:99961829G>C	uc003yir.2	+	2	1184	c.649G>C	c.(649-651)GAT>CAT	p.D217H	OSR2_uc010mbn.2_Missense_Mutation_p.D217H|OSR2_uc003yiq.2_Missense_Mutation_p.D217H|OSR2_uc011lgx.1_Missense_Mutation_p.D338H	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	217	C2H2-type 2.				bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding			central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			TCACCTGCGGGATCACAGGTG	0.547													42	100	---	---	---	---	PASS	C	99961829	C	C	99961829	3	2	152	1	0	0	0	0	1	0	0	0	11294	1174	41	2	651	2	OSR2	8	99961829	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	2640006	99961829	46402193	181	54187										
VPS13B	157680	broad.mit.edu	37	chr8	100880532	100880532	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tccaggtgcaattgctggtaTagttgatcagccgatgcaga	12	8	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:100880532T>C	uc003yiv.2	+	59	11417	c.11306T>C	c.(11305-11307)ATA>ACA	p.I3769T	VPS13B_uc003yiw.2_Missense_Mutation_p.I3744T	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3769					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			ATTGCTGGTATAGTTGATCAG	0.478													23	65	---	---	---	---	PASS	C	100880532	C	C	100880532	3	2	152	1	0	0	0	0	1	0	0	0	17187	1406	49	5	11730	5	VPS13B	8	100880532	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	918703	100880532	45483490	182	54188										
CSMD3	114788	broad.mit.edu	37	chr8	113301694	113301694	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cctgtgcaggaatagtgaacAgtagacccaaaagtatactt	9	8	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:113301694A>C	uc003ynu.2	-	57	9207	c.9048T>G	c.(9046-9048)ACT>ACG	p.T3016T	CSMD3_uc003yns.2_Silent_p.T2218T|CSMD3_uc003ynt.2_Silent_p.T2976T|CSMD3_uc011lhx.1_Silent_p.T2847T	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3016	Sushi 21.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AATAGTGAACAGTAGACCCAA	0.433										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			40	136	---	---	---	---	PASS	C	113301694	C	C	113301694	2	2	152	1	0	0	0	0	0	0	0	1	3946	175	7	5		5	CSMD3	8	113301694	Silent	SNP	A	TCGA-66-2767-01A-01D-1522-08	12421162	113301694	33062328	183	54189										
CSMD3	114788	broad.mit.edu	37	chr8	113323377	113323377	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	atccatgaggtggggattctGgtgtactacagtagaaagct	13	6	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:113323377G>C	uc003ynu.2	-	50	7874	c.7715C>G	c.(7714-7716)CCA>CGA	p.P2572R	CSMD3_uc003yns.2_Missense_Mutation_p.P1774R|CSMD3_uc003ynt.2_Missense_Mutation_p.P2532R|CSMD3_uc011lhx.1_Missense_Mutation_p.P2468R|CSMD3_uc003ynw.1_Missense_Mutation_p.P283R	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2572	Extracellular (Potential).|Sushi 14.					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						TGGGGATTCTGGTGTACTACA	0.398										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			19	152	---	---	---	---	PASS	C	113323377	C	C	113323377	3	2	152	1	0	0	0	0	1	0	0	0	3946	1348	47	4	3496	4	CSMD3	8	113323377	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	21683	113323377	33040645	184	54190										
SHARPIN	81858	broad.mit.edu	37	chr8	145154057	145154057	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccaatgatgggggaaacaagCgtccaagttccccgtccatc	10	13	0	1	rs61732529		TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr8:145154057C>T	uc003zba.2	-	7	1458	c.974G>A	c.(973-975)CGC>CAC	p.R325H	SHARPIN_uc003zbb.2_Intron	NM_030974	NP_112236	Q9H0F6	SHRPN_HUMAN	shank-interacting protein-like 1	325					negative regulation of inflammatory response|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein linear polyubiquitination|regulation of CD40 signaling pathway|regulation of tumor necrosis factor-mediated signaling pathway	cytosol|LUBAC complex	polyubiquitin binding|zinc ion binding			ovary(1)	1	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.1e-42)|Epithelial(56;1.58e-40)|all cancers(56;6.12e-36)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGGAAACAAGCGTCCAAGTTC	0.682													9	50	---	---	---	---	PASS	T	145154057	T	T	145154057	3	4	152	1	0	0	0	0	1	0	0	0	14267	768	27	1	197	1	SHARPIN	8	145154057	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	31830680	145154057	1209965	185	54191										
C9orf93	203238	broad.mit.edu	37	chr9	15920371	15920371	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aagtcacattgcagccttgaAatcagaacttcacacagctt	6	11	3	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr9:15920371A>G	uc003zmd.2	+	25	4019	c.3704A>G	c.(3703-3705)AAA>AGA	p.K1235R	C9orf93_uc003zme.2_Missense_Mutation_p.K1150R|C9orf93_uc011lmu.1_Missense_Mutation_p.K1243R	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	1235	Potential.										0				GBM - Glioblastoma multiforme(50;4.84e-07)		GCAGCCTTGAAATCAGAACTT	0.348													57	101	---	---	---	---	PASS	G	15920371	G	G	15920371	3	3	152	1	0	0	0	0	1	0	0	0	2506	14	1	5	3798	5	C9orf93	9	15920371	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08		15920371	125293060	186	54192										
KIAA1797	54914	broad.mit.edu	37	chr9	20717842	20717842	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aaaggaaaatggtttttcagAaaagattcaccaatctacaa	6	6	3	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr9:20717842A>T	uc003zog.1	+	5	470	c.107A>T	c.(106-108)GAA>GTA	p.E36V		NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	36						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		ggtttttcAGAAAAGATTCAC	0.279													45	74	---	---	---	---	PASS	T	20717842	T	T	20717842	3	4	152	1	0	0	0	0	1	0	0	0	8258	246	9	5	113	5	KIAA1797	9	20717842	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	4797471	20717842	120495589	187	54193										
FLJ46321	389763	broad.mit.edu	37	chr9	84608130	84608130	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	actttccgtatgaggatgctGtggggccttcccctcaaggt	12	11	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr9:84608130G>T	uc004amn.2	+	4	2792	c.2745G>T	c.(2743-2745)CTG>CTT	p.L915L		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	915						integral to membrane					0						TGAGGATGCTGTGGGGCCTTC	0.458													7	110	---	---	---	---	PASS	T	84608130	T	T	84608130	2	4	152	1	0	0	0	0	0	0	0	1	5932	1364	48	3		3	FLJ46321	9	84608130	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	63890288	84608130	56605301	188	54194										
CENPP	401541	broad.mit.edu	37	chr9	95094618	95094618	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cagaagacctaacaagcactGagatgacagaaaagagtaag	10	7	0	6			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr9:95094618G>A	uc004arz.2	+	2	814	c.274G>A	c.(274-276)GAG>AAG	p.E92K	CENPP_uc010mqx.2_Intron|CENPP_uc004ary.1_Missense_Mutation_p.E92K	NM_001012267	NP_001012267	Q6IPU0	CENPP_HUMAN	centromere protein P	92					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	chromosome, centromeric region|cytosol|nucleoplasm				ovary(2)	2						AACAAGCACTGAGATGACAGA	0.323													36	52	---	---	---	---	PASS	A	95094618	A	A	95094618	3	1	152	1	0	0	0	0	1	0	0	0	3240	1291	45	2	280	2	CENPP	9	95094618	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	10486488	95094618	46118813	189	54195										
ZNF782	158431	broad.mit.edu	37	chr9	99581238	99581238	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cccttatgtgaaccttctgaTgtacactgaaagttgactgg	9	9	1	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr9:99581238T>A	uc004awp.1	-	6	1348	c.1067A>T	c.(1066-1068)CAT>CTT	p.H356L	ZNF782_uc011lup.1_Missense_Mutation_p.H224L	NM_001001662	NP_001001662	Q6ZMW2	ZN782_HUMAN	zinc finger protein 782	356	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				AACCTTCTGATGTACACTGAA	0.413													5	482	---	---	---	---	PASS	A	99581238	A	A	99581238	3	1	152	1	0	0	0	0	1	0	0	0	18152	1464	51	5	1036	5	ZNF782	9	99581238	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	4486620	99581238	41632193	190	54196										
NIPSNAP3A	25934	broad.mit.edu	37	chr9	107513369	107513369	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aaaacgctcatcttcggacaGctcactctgaattggttgga	9	10	4	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr9:107513369G>C	uc004bch.1	+	2	298	c.193G>C	c.(193-195)GCT>CCT	p.A65P	NIPSNAP3A_uc011lvt.1_Missense_Mutation_p.A65P|NIPSNAP3A_uc011lvu.1_Missense_Mutation_p.A65P	NM_015469	NP_056284	Q9UFN0	NPS3A_HUMAN	nipsnap homolog 3A	65						cytosol					0						TCTTCGGACAGCTCACTCTGA	0.368													29	345	---	---	---	---	PASS	C	107513369	C	C	107513369	3	2	152	1	0	0	0	0	1	0	0	0	10430	971	34	4	199	4	NIPSNAP3A	9	107513369	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	7932131	107513369	33700062	191	54197										
PTPN3	5774	broad.mit.edu	37	chr9	112172595	112172595	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	taagagctgctgatcaacgcCgtcaggtgagcaggagcctg	14	10	2	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr9:112172595C>T	uc004bed.2	-	15	1526	c.1414G>A	c.(1414-1416)GGC>AGC	p.G472S	PTPN3_uc004beb.2_Missense_Mutation_p.G341S|PTPN3_uc004bec.2_Missense_Mutation_p.G296S|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Missense_Mutation_p.G427S|PTPN3_uc011lwh.1_Missense_Mutation_p.G318S|PTPN3_uc011lwd.1_5'UTR|PTPN3_uc011lwe.1_Missense_Mutation_p.G185S|PTPN3_uc011lwf.1_Missense_Mutation_p.G140S	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	472					negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						TGATCAACGCCGTCAGGTGAG	0.552													26	241	---	---	---	---	PASS	T	112172595	T	T	112172595	3	4	152	1	0	0	0	0	1	0	0	0	12789	652	23	1	1375	1	PTPN3	9	112172595	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	4659226	112172595	29040836	192	54198										
SVEP1	79987	broad.mit.edu	37	chr9	113220768	113220768	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgcctgactgctgatttcatGcctctttttaatatgtccaa	6	10	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr9:113220768G>T	uc010mtz.2	-	20	3896	c.3559C>A	c.(3559-3561)CAT>AAT	p.H1187N	SVEP1_uc010mua.1_Missense_Mutation_p.H1187N	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1187					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						CTGATTTCATGCCTCTTTTTA	0.398													12	25	---	---	---	---	PASS	T	113220768	T	T	113220768	3	4	152	1	0	0	0	0	1	0	0	0	15417	1319	46	3	7272	3	SVEP1	9	113220768	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	1048173	113220768	27992663	193	54199										
ASTN2	23245	broad.mit.edu	37	chr9	119204776	119204776	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gtggacaggccgtcctcaggGtcaccgtgcttagctctgag	14	12	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr9:119204776G>A	uc004bjs.1	-	21	3655	c.3554C>T	c.(3553-3555)ACC>ATC	p.T1185I	ASTN2_uc004bjr.1_Missense_Mutation_p.T1181I|ASTN2_uc004bjt.1_Missense_Mutation_p.T1134I|ASTN2_uc004bjp.1_Missense_Mutation_p.T278I|ASTN2_uc004bjq.1_Missense_Mutation_p.T237I|ASTN2_uc011lxr.1_Missense_Mutation_p.T237I|ASTN2_uc011lxs.1_Missense_Mutation_p.T237I|ASTN2_uc011lxt.1_Missense_Mutation_p.T237I|ASTN2_uc004bjo.1_5'UTR	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	1185	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CGTCCTCAGGGTCACCGTGCT	0.507													16	232	---	---	---	---	PASS	A	119204776	A	A	119204776	3	1	152	1	0	0	0	0	1	0	0	0	1065	1261	44	3	518	3	ASTN2	9	119204776	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	5984008	119204776	22008655	194	54200										
TLR4	7099	broad.mit.edu	37	chr9	120475354	120475354	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gtttcttcattttccctggtGagtgtgactattgaaagggt	11	6	2	3	rs150022134		TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr9:120475354G>T	uc004bjz.2	+	3	1239	c.948G>T	c.(946-948)GTG>GTT	p.V316V	TLR4_uc004bka.2_Silent_p.V276V|TLR4_uc004bkb.2_Silent_p.V116V	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	316	Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TTTCCCTGGTGAGTGTGACTA	0.323													10	251	---	---	---	---	PASS	T	120475354	T	T	120475354	2	4	152	1	0	0	0	0	0	0	0	1	15950	1277	45	2		2	TLR4	9	120475354	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	1270578	120475354	20738077	195	54201										
WDR34	89891	broad.mit.edu	37	chr9	131396538	131396538	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agctgcaaaaaccaagggccGcactggggaccagcgcacag	13	13	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr9:131396538G>A	uc004bvq.1	-	8	1463	c.1339C>T	c.(1339-1341)CGG>TGG	p.R447W	WDR34_uc004bvs.1_Missense_Mutation_p.R438W|WDR34_uc004bvr.1_Missense_Mutation_p.R419W	NM_052844	NP_443076	Q96EX3	WDR34_HUMAN	WD repeat domain 34	447	WD 4.					cytoplasm				central_nervous_system(2)|skin(1)	3						ACCAAGGGCCGCACTGGGGAC	0.607													11	143	---	---	---	---	PASS	A	131396538	A	A	131396538	3	1	152	1	0	0	0	0	1	0	0	0	17285	1086	38	1	279	1	WDR34	9	131396538	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	10921184	131396538	9816893	196	54202										
COL5A1	1289	broad.mit.edu	37	chr9	137655544	137655544	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttttctcctctgcagggtgaCgacggagaagttgggcccag	14	10	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr9:137655544C>T	uc004cfe.2	+	20	2377	c.1995C>T	c.(1993-1995)GAC>GAT	p.D665D		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	665	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)		TGCAGGGTGACGACGGAGAAG	0.592													13	183	---	---	---	---	PASS	T	137655544	T	T	137655544	2	4	152	1	0	0	0	0	0	0	0	1	3696	535	19	1		1	COL5A1	9	137655544	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	6259006	137655544	3557887	197	54203										
FBXO18	84893	broad.mit.edu	37	chr10	5979143	5979143	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gcagcgcatcgggcccctggCgttcctgacagcctccccgg	13	18	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:5979143C>A	uc001iis.2	+	21	3127	c.3032C>A	c.(3031-3033)GCG>GAG	p.A1011E	FBXO18_uc001iir.2_Missense_Mutation_p.A954E|FBXO18_uc009xig.2_Missense_Mutation_p.A937E|FBXO18_uc001iit.2_Missense_Mutation_p.A1062E	NM_178150	NP_835363	Q8NFZ0	FBX18_HUMAN	F-box only protein, helicase, 18 isoform 2	1011					DNA repair	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(2)|skin(1)	3						GGGCCCCTGGCGTTCCTGACA	0.622													5	38	---	---	---	---	PASS	A	5979143	A	A	5979143	3	1	152	1	0	0	0	0	1	0	0	0	5731	768	27	1	3276	1	FBXO18	10	5979143	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08		5979143	129555604	198	54204										
ITGA8	8516	broad.mit.edu	37	chr10	15688894	15688894	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aagtgtgccatagcactaccGaatctcccaaacgtctcggt	8	13	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:15688894G>T	uc001ioc.1	-	12	1158	c.1158C>A	c.(1156-1158)TTC>TTA	p.F386L	ITGA8_uc010qcb.1_Missense_Mutation_p.F371L	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	386	Extracellular (Potential).|FG-GAP 6.				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						TAGCACTACCGAATCTCCCAA	0.478													21	73	---	---	---	---	PASS	T	15688894	T	T	15688894	3	4	152	1	0	0	0	0	1	0	0	0	7882	1049	37	2	2109	2	ITGA8	10	15688894	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	9709751	15688894	119845853	199	54205										
MRC1	4360	broad.mit.edu	37	chr10	17905647	17905647	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aagggacttttcagtggaccAtcgaggaagaggttcggttc	14	7	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:17905647A>G	uc001ipk.2	+	11	1841	c.1738A>G	c.(1738-1740)ATC>GTC	p.I580V		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	580	C-type lectin 3.|Extracellular (Potential).				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						TCAGTGGACCATCGAGGAAGA	0.453													25	165	---	---	---	---	PASS	G	17905647	G	G	17905647	3	3	152	1	0	0	0	0	1	0	0	0	9756	217	8	5	1780	5	MRC1	10	17905647	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	2216753	17905647	117629100	200	54206										
NEBL	10529	broad.mit.edu	37	chr10	21134270	21134270	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgatgaccttcctttaatctCcttctcaaaatcctctttgt	3	12	3	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:21134270C>G	uc001iqi.2	-	12	1541	c.1144G>C	c.(1144-1146)GAG>CAG	p.E382Q	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	382	Nebulin 10.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						CCTTTAATCTCCTTCTCAAAA	0.343													19	104	---	---	---	---	PASS	G	21134270	G	G	21134270	3	3	152	1	0	0	0	0	1	0	0	0	10303	864	30	2	1968	2	NEBL	10	21134270	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	3228623	21134270	114400477	201	54207										
GPR158	57512	broad.mit.edu	37	chr10	25701259	25701259	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tctgcctaccttgcagggagGgctgccccttctgtgctgat	12	13	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:25701259G>A	uc001isj.2	+	4	1252	c.1192G>A	c.(1192-1194)GGC>AGC	p.G398S		NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	398	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						TTGCAGGGAGGGCTGCCCCTT	0.488													48	298	---	---	---	---	PASS	A	25701259	A	A	25701259	3	1	152	1	0	0	0	0	1	0	0	0	6663	1232	43	3	1206	3	GPR158	10	25701259	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	4566989	25701259	109833488	202	54208										
ZEB1	6935	broad.mit.edu	37	chr10	31809823	31809823	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gttaagtctgagaaggacaaAagctttgaagggggggtgaa	16	3	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:31809823A>C	uc001ivs.3	+	7	1623	c.1560A>C	c.(1558-1560)AAA>AAC	p.K520N	ZEB1_uc001ivr.3_Missense_Mutation_p.K302N|ZEB1_uc010qee.1_Missense_Mutation_p.K302N|ZEB1_uc010qef.1_Missense_Mutation_p.K302N|ZEB1_uc009xlj.1_Missense_Mutation_p.K446N|ZEB1_uc010qeg.1_Missense_Mutation_p.K379N|ZEB1_uc009xlk.1_Missense_Mutation_p.K302N|ZEB1_uc001ivt.3_Missense_Mutation_p.K302N|ZEB1_uc001ivu.3_Missense_Mutation_p.K521N|ZEB1_uc001ivv.3_Missense_Mutation_p.K500N|ZEB1_uc010qeh.1_Missense_Mutation_p.K453N|ZEB1_uc009xlo.1_Missense_Mutation_p.K503N|ZEB1_uc009xlp.2_Missense_Mutation_p.K504N	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	520					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				AGAAGGACAAAAGCTTTGAAG	0.368													23	168	---	---	---	---	PASS	C	31809823	C	C	31809823	3	2	152	1	0	0	0	0	1	0	0	0	17620	11	1	5	1600	5	ZEB1	10	31809823	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	6108564	31809823	103724924	203	54209										
MARCH8	220972	broad.mit.edu	37	chr10	45953836	45953836	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aatattctttttgcttgtttCtggacagttttgaacataga	7	5	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:45953836C>A	uc001jci.1	-	7	966	c.727G>T	c.(727-729)GAA>TAA	p.E243*	MARCH8_uc001jch.2_Nonsense_Mutation_p.E525*|MARCH8_uc001jcj.1_Nonsense_Mutation_p.E243*|MARCH8_uc001jck.1_Nonsense_Mutation_p.E243*|uc001jcf.2_5'Flank|MARCH8_uc001jcg.1_Nonsense_Mutation_p.E112*	NM_001002266	NP_001002266	Q5T0T0	MARH8_HUMAN	cellular modulator of immune recognition isoform	243						cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding				0						TTGCTTGTTTCTGGACAGTTT	0.358													31	249	---	---	---	---	PASS	A	45953836	A	A	45953836	4	1	152	1	0	0	0	0	0	1	0	0	9307	922	32	2	152	2	MARCH8	10	45953836	Nonsense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	14144013	45953836	89580911	204	54210										
SLC18A3	6572	broad.mit.edu	37	chr10	50819838	50819838	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caccgtgcgcctggcggcgcGctacccacacctgcagtggc	13	18	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:50819838G>T	uc001jhw.2	+	1	1492	c.1052G>T	c.(1051-1053)CGC>CTC	p.R351L	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	351	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CTGGCGGCGCGCTACCCACAC	0.697													9	108	---	---	---	---	PASS	T	50819838	T	T	50819838	3	4	152	1	0	0	0	0	1	0	0	0	14427	1087	38	1	1054	1	SLC18A3	10	50819838	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	4866002	50819838	84714909	205	54211										
ASAH2	56624	broad.mit.edu	37	chr10	52005028	52005028	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgcagtcagctcgtccaacaCcaatatggtagccactgaag	9	12	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:52005028C>A	uc001jjd.2	-	2	314	c.314G>T	c.(313-315)GGT>GTT	p.G105V	ASAH2_uc009xos.2_Missense_Mutation_p.G105V	NM_019893	NP_063946	Q9NR71	ASAH2_HUMAN	N-acylsphingosine amidohydrolase 2 isoform a	105	Lumenal (Potential).				apoptosis|ceramide metabolic process|signal transduction	integral to membrane|mitochondrion|plasma membrane	ceramidase activity				0						TCGTCCAACACCAATATGGTA	0.453													21	256	---	---	---	---	PASS	A	52005028	A	A	52005028	3	1	152	1	0	0	0	0	1	0	0	0	1007	507	18	3	2104	3	ASAH2	10	52005028	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	1185190	52005028	83529719	206	54212										
ANK3	288	broad.mit.edu	37	chr10	61830845	61830845	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gatgcttcttatctgactcaAtctggtccgcatccagtggt	9	11	4	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:61830845A>G	uc001jky.2	-	37	9986	c.9794T>C	c.(9793-9795)ATT>ACT	p.I3265T	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	3265					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						ATCTGACTCAATCTGGTCCGC	0.438													86	333	---	---	---	---	PASS	G	61830845	G	G	61830845	3	3	152	1	0	0	0	0	1	0	0	0	622	101	4	5	3680	5	ANK3	10	61830845	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	9825817	61830845	73703902	207	54213										
EGR2	1959	broad.mit.edu	37	chr10	64573941	64573941	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aggctgggtctgggacatggTgcacacacccaggggtcctg	16	11	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:64573941T>C	uc010qim.1	-	3	611	c.457A>G	c.(457-459)ACC>GCC	p.T153A	EGR2_uc010qin.1_Missense_Mutation_p.T103A|EGR2_uc001jmi.2_Missense_Mutation_p.T153A|EGR2_uc010qio.1_Missense_Mutation_p.T166A|EGR2_uc009xph.2_Missense_Mutation_p.T153A	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	153					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					TGGGACATGGTGCACACACCC	0.622													33	111	---	---	---	---	PASS	C	64573941	C	C	64573941	3	2	152	1	0	0	0	0	1	0	0	0	4972	1696	59	5	977	5	EGR2	10	64573941	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	2743096	64573941	70960806	208	54214										
JMJD1C	221037	broad.mit.edu	37	chr10	64974581	64974581	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gctgagtgtcaacagacttcCgcttctctgcttcttcatgt	8	12	4	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:64974581C>T	uc001jmn.2	-	8	1646	c.1346G>A	c.(1345-1347)CGG>CAG	p.R449Q	JMJD1C_uc001jml.2_Missense_Mutation_p.R230Q|JMJD1C_uc001jmm.2_Missense_Mutation_p.R161Q|JMJD1C_uc010qiq.1_Missense_Mutation_p.R267Q|JMJD1C_uc009xpi.2_Missense_Mutation_p.R267Q|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmp.1_Missense_Mutation_p.R161Q	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	449					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					AACAGACTTCCGCTTCTCTGC	0.398													5	292	---	---	---	---	PASS	T	64974581	T	T	64974581	3	4	152	1	0	0	0	0	1	0	0	0	7950	652	23	1	6352	1	JMJD1C	10	64974581	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	400640	64974581	70560166	209	54215										
CTNNA3	29119	broad.mit.edu	37	chr10	67863009	67863009	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cctccagttcctctggggtcTataaaaagaaagcaaaacat	7	10	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:67863009T>G	uc009xpn.1	-	14	2008	c.1885_splice	c.e14-1	p.T629_splice	CTNNA3_uc001jmw.2_Splice_Site_p.T629_splice	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3						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						CTCTGGGGTCTATAAAAAGAA	0.274													23	72	---	---	---	---	PASS	G	67863009	G	G	67863009	5	3	152	1	0	0	0	0	0	0	1	0	4014	1536	53	5	824	5	CTNNA3	10	67863009	Splice_Site	SNP	T	TCGA-66-2767-01A-01D-1522-08	2888428	67863009	67671738	210	54216										
LRRTM3	347731	broad.mit.edu	37	chr10	68687148	68687148	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cagtttcggggcttgcggaaGctgctgagtttacatttacg	13	8	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:68687148G>T	uc001jmz.1	+	2	1024	c.474G>T	c.(472-474)AAG>AAT	p.K158N	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.K158N	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	158	Extracellular (Potential).|LRR 5.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GCTTGCGGAAGCTGCTGAGTT	0.463													71	199	---	---	---	---	PASS	T	68687148	T	T	68687148	3	4	152	1	0	0	0	0	1	0	0	0	9041	962	34	3	480	3	LRRTM3	10	68687148	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	824139	68687148	66847599	211	54217										
HK1	3098	broad.mit.edu	37	chr10	71158372	71158372	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gaccgattagcactgctccaGgtccgggctatcctccagca	10	15	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:71158372G>A	uc001jpl.3	+	17	2498	c.2397G>A	c.(2395-2397)CAG>CAA	p.Q799Q	HK1_uc001jpg.3_Silent_p.Q787Q|HK1_uc001jph.3_Silent_p.Q803Q|HK1_uc001jpi.3_Silent_p.Q803Q|HK1_uc001jpj.3_Silent_p.Q834Q|HK1_uc001jpk.3_Silent_p.Q798Q	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	799	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						CACTGCTCCAGGTCCGGGCTA	0.612													11	34	---	---	---	---	PASS	A	71158372	A	A	71158372	2	1	152	1	0	0	0	0	0	0	0	1	7190	991	35	3		3	HK1	10	71158372	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	2471224	71158372	64376375	212	54218										
NDUFB8	4714	broad.mit.edu	37	chr10	102289241	102289241	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctaggatagggccccgggaaCatgtccttggtcatgtggga	15	9	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:102289241C>A	uc001kri.1	-	2	136	c.108G>T	c.(106-108)ATG>ATT	p.M36I	SEC31B_uc009xwo.1_5'UTR|SEC31B_uc010qpq.1_5'UTR|SEC31B_uc010qpr.1_RNA	NM_005004	NP_004995	O95169	NDUB8_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	36					mitochondrial electron transport, NADH to ubiquinone|transport	endoplasmic reticulum|integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0		Colorectal(252;0.234)		Epithelial(162;5.68e-10)|all cancers(201;4.05e-08)	NADH(DB00157)	GCCCCGGGAACATGTCCTTGG	0.592													13	81	---	---	---	---	PASS	A	102289241	A	A	102289241	3	1	152	1	0	0	0	0	1	0	0	0	10287	478	17	3	468	3	NDUFB8	10	102289241	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	31130869	102289241	33245506	213	54219										
NFKB2	4791	broad.mit.edu	37	chr10	104161252	104161252	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcagaacaccatggagccacCcctgaccccgcccagcccag	8	20	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:104161252C>T	uc001kvb.2	+	20	2535	c.2270C>T	c.(2269-2271)CCC>CTC	p.P757L	NFKB2_uc001kva.2_Missense_Mutation_p.P757L|NFKB2_uc001kvd.2_Missense_Mutation_p.P757L|NFKB2_uc009xxc.2_Missense_Mutation_p.P757L	NM_001077494	NP_001070962	Q00653	NFKB2_HUMAN	nuclear factor of kappa light polypeptide gene	757	ANK 7.		Missing (in truncated form p80HT).|Missing (in truncated form LB40).|Missing (in truncated form EB308).		innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|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	Bcl3/NF-kappaB2 complex|cytosol|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			lung(3)	3		Colorectal(252;0.00957)		Epithelial(162;3.4e-08)|all cancers(201;6.41e-07)		ATGGAGCCACCCCTGACCCCG	0.592			T	IGH@	B-NHL								9	71	---	---	---	---	PASS	T	104161252	T	T	104161252	3	4	152	1	0	0	0	0	1	0	0	0	10376	623	22	3	2344	3	NFKB2	10	104161252	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	1872011	104161252	31373495	214	54220										
SLC18A2	6571	broad.mit.edu	37	chr10	119013575	119013575	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gcagtgtttgccttctccagCagctatgccttcctgctgat	9	13	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:119013575C>A	uc001ldd.1	+	5	571	c.540C>A	c.(538-540)AGC>AGA	p.S180R	SLC18A2_uc009xyy.1_5'UTR	NM_003054	NP_003045	Q05940	VMAT2_HUMAN	solute carrier family 18 (vesicular monoamine),	180	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted monoamine transport vesicle membrane|integral to plasma membrane|membrane fraction	monoamine transmembrane transporter activity				0		Colorectal(252;0.19)		all cancers(201;0.029)	Alseroxylon(DB00386)|Reserpine(DB00206)|Tetrabenazine(DB04844)	CCTTCTCCAGCAGCTATGCCT	0.597													30	268	---	---	---	---	PASS	A	119013575	A	A	119013575	3	1	152	1	0	0	0	0	1	0	0	0	14426	709	25	3	554	3	SLC18A2	10	119013575	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	14852323	119013575	16521172	215	54221										
ADAM12	8038	broad.mit.edu	37	chr10	127708298	127708298	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gcggagcccagtctcccattGtcctggggtcctggccaagg	14	14	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr10:127708298G>A	uc001ljk.2	-	22	3048	c.2635C>T	c.(2635-2637)CAA>TAA	p.Q879*	ADAM12_uc010qul.1_Nonsense_Mutation_p.Q830*	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	879	Cytoplasmic (Potential).				cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		GTCTCCCATTGTCCTGGGGTC	0.582													17	114	---	---	---	---	PASS	A	127708298	A	A	127708298	4	1	152	1	0	0	0	0	0	1	0	0	236	1386	48	3	102	3	ADAM12	10	127708298	Nonsense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	8694723	127708298	7826449	216	54222										
RNH1	6050	broad.mit.edu	37	chr11	499054	499054	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agggggagtccttcaggcccTggcacagcacacggacgcca	14	14	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:499054T>C	uc001lpk.1	-	4	1983	c.575A>G	c.(574-576)CAG>CGG	p.Q192R	RNH1_uc001lpl.1_Missense_Mutation_p.Q192R|RNH1_uc001lpm.1_Missense_Mutation_p.Q192R|RNH1_uc001lpn.1_Missense_Mutation_p.Q192R|RNH1_uc001lpo.1_Missense_Mutation_p.Q192R|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Missense_Mutation_p.Q192R|RNH1_uc001lpt.1_5'UTR|RNH1_uc001lpq.1_Missense_Mutation_p.Q192R|RNH1_uc001lpr.1_Missense_Mutation_p.Q192R|RNH1_uc001lps.1_Missense_Mutation_p.Q192R	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	192	LRR 7.				mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CTTCAGGCCCTGGCACAGCAC	0.672													14	63	---	---	---	---	PASS	C	499054	C	C	499054	3	2	152	1	0	0	0	0	1	0	0	0	13504	1580	55	5	834	5	RNH1	11	499054	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08		499054	134507462	217	54223										
MUC6	4588	broad.mit.edu	37	chr11	1018740	1018740	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctgtcgtctgggtggccgttGttcctggcagttcctgattg	14	10	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:1018740G>T	uc001lsw.2	-	31	4112	c.4061C>A	c.(4060-4062)ACA>AAA	p.T1354K		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1354	Pro-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGTGGCCGTTGTTCCTGGCAG	0.582													37	166	---	---	---	---	PASS	T	1018740	T	T	1018740	3	4	152	1	0	0	0	0	1	0	0	0	9980	1377	48	3	3270	3	MUC6	11	1018740	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	519686	1018740	133987776	218	54224										
OR52A4	390053	broad.mit.edu	37	chr11	5142454	5142454	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gtccagagccatggctagcaGgactcctgattcaatgcctt	10	12	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:5142454G>A	uc001lzz.1	-	1	355	c.355C>T	c.(355-357)CTG>TTG	p.L119L	OR52A4_uc001maa.2_RNA	NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		ATGGCTAGCAGGACTCCTGAT	0.443													8	53	---	---	---	---	PASS	A	5142454	A	A	5142454	2	1	152	1	0	0	0	0	0	0	0	1	11109	991	35	3		3	OR52A4	11	5142454	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	4123714	5142454	129864062	219	54225										
OR51V1	283111	broad.mit.edu	37	chr11	5221405	5221405	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gatgtggaaatgacagtaatTaaaaaatttcagacagatga	9	3	1	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:5221405T>G	uc010qyz.1	-	1	526	c.526A>C	c.(526-528)AAT>CAT	p.N176H		NM_001004760	NP_001004760	Q9H2C8	O51V1_HUMAN	olfactory receptor, family 51, subfamily V,	176	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.83e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGACAGTAATTAAAAAATTTC	0.398													18	135	---	---	---	---	PASS	G	5221405	G	G	5221405	3	3	152	1	0	0	0	0	1	0	0	0	11107	1754	61	5	442	5	OR51V1	11	5221405	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	78951	5221405	129785111	220	54226										
ZNF143	7702	broad.mit.edu	37	chr11	9530358	9530358	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caacgacactgagcccatcgAggaggagcaggaagccttct	12	12	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:9530358A>C	uc001mhr.2	+	12	1458	c.1340A>C	c.(1339-1341)GAG>GCG	p.E447A	ZNF143_uc009yfu.2_Missense_Mutation_p.E446A|ZNF143_uc010rby.1_Missense_Mutation_p.E416A	NM_003442	NP_003433	P52747	ZN143_HUMAN	zinc finger protein 143	447					regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding|zinc ion binding				0				all cancers(16;4.12e-09)|Epithelial(150;2.29e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0212)		GAGCCCATCGAGGAGGAGCAG	0.468													5	24	---	---	---	---	PASS	C	9530358	C	C	9530358	3	2	152	1	0	0	0	0	1	0	0	0	17729	304	11	5	1382	5	ZNF143	11	9530358	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	4308953	9530358	125476158	221	54227										
NUCB2	4925	broad.mit.edu	37	chr11	17332406	17332406	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggaacactatgacaagactcGtcatgaagaatttaaaaaat	7	6	1	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:17332406G>A	uc001mmw.2	+	7	763	c.518G>A	c.(517-519)CGT>CAT	p.R173H	NUCB2_uc001mms.1_Missense_Mutation_p.R174H|NUCB2_uc001mmt.1_Missense_Mutation_p.R173H|NUCB2_uc001mmv.1_Missense_Mutation_p.R173H|NUCB2_uc009ygz.2_Missense_Mutation_p.R173H	NM_005013	NP_005004	P80303	NUCB2_HUMAN	nucleobindin 2 precursor	173	By similarity.					cytosol|ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|plasma membrane	calcium ion binding|DNA binding				0						GACAAGACTCGTCATGAAGAA	0.279													7	296	---	---	---	---	PASS	A	17332406	A	A	17332406	3	1	152	1	0	0	0	0	1	0	0	0	10719	1145	40	1	536	1	NUCB2	11	17332406	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	7802048	17332406	117674110	222	54228										
CHST1	8534	broad.mit.edu	37	chr11	45672017	45672017	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gacccggctggccccgcggcGgaagatcctgtcggtggtgt	17	13	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:45672017G>A	uc001mys.1	-	4	1128	c.457C>T	c.(457-459)CGC>TGC	p.R153C		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	153	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		GCCCCGCGGCGGAAGATCCTG	0.692													10	30	---	---	---	---	PASS	A	45672017	A	A	45672017	3	1	152	1	0	0	0	0	1	0	0	0	3397	1116	39	1	782	1	CHST1	11	45672017	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	28339611	45672017	89334499	223	54229										
OR4C12	283093	broad.mit.edu	37	chr11	50003175	50003175	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cactttttacctcagcatttCtgagtgtgtagaccacggga	9	10	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:50003175C>T	uc010ria.1	-	1	863	c.863G>A	c.(862-864)AGA>AAA	p.R288K		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	288	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						CTCAGCATTTCTGAGTGTGTA	0.393													33	148	---	---	---	---	PASS	T	50003175	T	T	50003175	3	4	152	1	0	0	0	0	1	0	0	0	11046	913	32	2	70	2	OR4C12	11	50003175	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	4331158	50003175	85003341	224	54230										
OR10AG1	282770	broad.mit.edu	37	chr11	55735469	55735469	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gtgttagttccgcaaaagggCaaaaggaaaatttggcatgt	12	5	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:55735469C>A	uc010rit.1	-	1	471	c.471G>T	c.(469-471)TTG>TTT	p.L157F		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	157	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					CGCAAAAGGGCAAAAGGAAAA	0.398													19	111	---	---	---	---	PASS	A	55735469	A	A	55735469	3	1	152	1	0	0	0	0	1	0	0	0	10897	709	25	3	437	3	OR10AG1	11	55735469	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	5732294	55735469	79271047	225	54231										
OR8K3	219473	broad.mit.edu	37	chr11	56086192	56086192	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gctatacacagtaatcatgtCacgaagggtatgtcaggtgc	11	8	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:56086192C>A	uc010rjf.1	+	1	410	c.410C>A	c.(409-411)TCA>TAA	p.S137*		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					GTAATCATGTCACGAAGGGTA	0.413													39	188	---	---	---	---	PASS	A	56086192	A	A	56086192	4	1	152	1	0	0	0	0	0	1	0	0	11244	838	29	2	412	2	OR8K3	11	56086192	Nonsense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	350723	56086192	78920324	226	54232										
OR5B3	441608	broad.mit.edu	37	chr11	58170463	58170463	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	taggagcctatggccagacgAgcacacacagttgttgtcat	11	10	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:58170463A>T	uc010rkf.1	-	1	420	c.420T>A	c.(418-420)GCT>GCA	p.A140A		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TGGCCAGACGAGCACACACAG	0.493													32	136	---	---	---	---	PASS	T	58170463	T	T	58170463	2	4	152	1	0	0	0	0	0	0	0	1	11152	291	11	5		5	OR5B3	11	58170463	Silent	SNP	A	TCGA-66-2767-01A-01D-1522-08	2084271	58170463	76836053	227	54233										
OR5B2	390190	broad.mit.edu	37	chr11	58189883	58189883	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctcaggctgtagaccacaggGttcagcatggggatgatcat	13	9	3	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:58189883G>C	uc010rkg.1	-	1	852	c.852C>G	c.(850-852)AAC>AAG	p.N284K		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AGACCACAGGGTTCAGCATGG	0.433													37	162	---	---	---	---	PASS	C	58189883	C	C	58189883	3	2	152	1	0	0	0	0	1	0	0	0	11150	1252	44	4	81	4	OR5B2	11	58189883	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	19420	58189883	76816633	228	54234										
OR4D10	390197	broad.mit.edu	37	chr11	59245001	59245001	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttatttcttttcctactcttGgtgtatgtgacaactttgct	6	8	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:59245001G>T	uc001nnz.1	+	1	99	c.99G>T	c.(97-99)TTG>TTT	p.L33F		NM_001004705	NP_001004705	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D,	33	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TCCTACTCTTGGTGTATGTGA	0.423													74	268	---	---	---	---	PASS	T	59245001	T	T	59245001	3	4	152	1	0	0	0	0	1	0	0	0	11054	1339	47	3	101	3	OR4D10	11	59245001	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	1055118	59245001	75761515	229	54235										
PLAC1L	219990	broad.mit.edu	37	chr11	59811058	59811058	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gaatgggctgccctgcaaatCggatacatacatatgtatat	9	8	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:59811058C>A	uc001nol.2	+	2	366	c.181C>A	c.(181-183)CGG>AGG	p.R61R		NM_173801	NP_776162	Q86WS3	PLACL_HUMAN	placenta-specific 1-like precursor	61						extracellular region				ovary(2)|skin(1)	3						CCCTGCAAATCGGATACATAC	0.388													21	77	---	---	---	---	PASS	A	59811058	A	A	59811058	2	1	152	1	0	0	0	0	0	0	0	1	12013	875	31	2		2	PLAC1L	11	59811058	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	566057	59811058	75195458	230	54236										
PAAF1	80227	broad.mit.edu	37	chr11	73620469	73620469	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctggatacagccatcgttgaTcgggggaggaatgtggtgtc	16	7	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:73620469T>A	uc001ouk.1	+	7	592	c.558T>A	c.(556-558)GAT>GAA	p.D186E	PAAF1_uc001oul.1_Missense_Mutation_p.D169E|PAAF1_uc009ytx.1_RNA|PAAF1_uc001oum.1_Missense_Mutation_p.D169E	NM_025155	NP_079431	Q9BRP4	PAAF1_HUMAN	proteasomal ATPase-associated factor 1	186	WD 3.				interspecies interaction between organisms	proteasome complex	protein binding			ovary(1)|skin(1)	2	Breast(11;7.42e-05)					CCATCGTTGATCGGGGGAGGA	0.512													4	159	---	---	---	---	PASS	A	73620469	A	A	73620469	3	1	152	1	0	0	0	0	1	0	0	0	11362	1432	50	5	584	5	PAAF1	11	73620469	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	13809411	73620469	61386047	231	54237										
SLC36A4	120103	broad.mit.edu	37	chr11	92899094	92899094	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aaattcttaccactcctatgCcttcaaaagcaaatacagca	3	12	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:92899094C>A	uc001pdn.2	-	8	954	c.857G>T	c.(856-858)GGC>GTC	p.G286V	SLC36A4_uc001pdm.2_Missense_Mutation_p.G151V	NM_152313	NP_689526	Q6YBV0	S36A4_HUMAN	solute carrier family 36 (proton/amino acid	286	Helical; (Potential).				L-alanine transport|proline transport|tryptophan transport	integral to membrane	symporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CACTCCTATGCCTTCAAAAGC	0.328													15	39	---	---	---	---	PASS	A	92899094	A	A	92899094	3	1	152	1	0	0	0	0	1	0	0	0	14596	739	26	3	673	3	SLC36A4	11	92899094	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	19278625	92899094	42107422	232	54238										
APOA5	116519	broad.mit.edu	37	chr11	116661393	116661393	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aagagctctttgaagcggccGgtgtggtgcaccacgcggct	15	11	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:116661393G>T	uc001ppr.2	-	3	560	c.552C>A	c.(550-552)ACC>ACA	p.T184T	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Silent_p.T184T|APOA5_uc009yzf.2_Silent_p.T184T|APOA5_uc009yzg.2_Silent_p.T210T	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	184					acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		TGAAGCGGCCGGTGTGGTGCA	0.687													14	24	---	---	---	---	PASS	T	116661393	T	T	116661393	2	4	152	1	0	0	0	0	0	0	0	1	784	1103	39	1		1	APOA5	11	116661393	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	23762299	116661393	18345123	233	54239										
SIK3	23387	broad.mit.edu	37	chr11	116732021	116732021	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	atcatggcactgctcatgggGggaggactattactgggctg	15	8	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:116732021G>C	uc001ppy.2	-	18	2112	c.2076C>G	c.(2074-2076)CCC>CCG	p.P692P	SIK3_uc001ppz.2_Silent_p.P591P|SIK3_uc001pqa.2_Silent_p.P692P|SIK3_uc001ppw.2_Silent_p.P109P|SIK3_uc001ppx.2_Intron|SIK3_uc001pqb.2_5'UTR	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	692	Gln-rich.					cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						TGCTCATGGGGGGAGGACTAT	0.473													35	99	---	---	---	---	PASS	C	116732021	C	C	116732021	2	2	152	1	0	0	0	0	0	0	0	1	14319	1219	43	4		4	SIK3	11	116732021	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	70628	116732021	18274495	234	54240										
AMICA1	120425	broad.mit.edu	37	chr11	118065080	118065080	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttggcattcccccacctgacTttttttcaagtgagttgttc	7	11	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:118065080T>A	uc001psk.2	-	10	1319	c.1145A>T	c.(1144-1146)AAG>ATG	p.K382M	AMICA1_uc001psg.2_Missense_Mutation_p.K192M|AMICA1_uc001psh.2_Missense_Mutation_p.K343M|AMICA1_uc009yzw.1_RNA|AMICA1_uc001psi.2_Missense_Mutation_p.K372M|AMICA1_uc001psj.2_Missense_Mutation_p.K371M|AMICA1_uc010rxw.1_Missense_Mutation_p.K343M	NM_001098526	NP_001091996	Q86YT9	JAML1_HUMAN	adhesion molecule, interacts with CXADR antigen	382	Cytoplasmic (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	cell junction|integral to membrane				ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CCCACCTGACTTTTTTTCAAG	0.488													10	87	---	---	---	---	PASS	A	118065080	A	A	118065080	3	1	152	1	0	0	0	0	1	0	0	0	574	1609	56	5	43	5	AMICA1	11	118065080	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	1333059	118065080	16941436	235	54241										
TECTA	7007	broad.mit.edu	37	chr11	120998575	120998575	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cgccacgccgtgcacagaggGctgcgagtgcaaccagggct	15	14	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:120998575G>T	uc010rzo.1	+	8	1889	c.1889G>T	c.(1888-1890)GGC>GTC	p.G630V		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	630	TIL 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TGCACAGAGGGCTGCGAGTGC	0.657													34	63	---	---	---	---	PASS	T	120998575	T	T	120998575	3	4	152	1	0	0	0	0	1	0	0	0	15744	1203	42	3	1919	3	TECTA	11	120998575	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	2933495	120998575	14007941	236	54242										
OR8D2	283160	broad.mit.edu	37	chr11	124189385	124189385	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggagctacaagtgccaaaggCtttggattgcccctcagtgg	13	10	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:124189385C>T	uc010sah.1	-	1	709	c.709G>A	c.(709-711)GCC>ACC	p.A237T		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	237	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0525)		GTGCCAAAGGCTTTGGATTGC	0.433													65	170	---	---	---	---	PASS	T	124189385	T	T	124189385	3	4	152	1	0	0	0	0	1	0	0	0	11232	797	28	3	229	3	OR8D2	11	124189385	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	3190810	124189385	10817131	237	54243										
OR8B8	26493	broad.mit.edu	37	chr11	124310358	124310358	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aagatggtgactgtgggcacAccaatatcaatgcccacaac	9	11	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:124310358A>G	uc010sal.1	-	1	624	c.624T>C	c.(622-624)GGT>GGC	p.G208G		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	208	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		CTGTGGGCACACCAATATCAA	0.488													48	93	---	---	---	---	PASS	G	124310358	G	G	124310358	2	3	152	1	0	0	0	0	0	0	0	1	11230	146	6	5		5	OR8B8	11	124310358	Silent	SNP	A	TCGA-66-2767-01A-01D-1522-08	120973	124310358	10696158	238	54244										
IGSF9B	22997	broad.mit.edu	37	chr11	133794771	133794771	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgatcagatcctgcatgacgGccagaacccggaactcatac	9	13	2	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr11:133794771G>A	uc001qgx.3	-	15	2294	c.2063C>T	c.(2062-2064)GCC>GTC	p.A688V	IGSF9B_uc001qgy.1_Missense_Mutation_p.A530V	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	688	Fibronectin type-III 2.|Extracellular (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		CTGCATGACGGCCAGAACCCG	0.577													4	199	---	---	---	---	PASS	A	133794771	A	A	133794771	3	1	152	1	0	0	0	0	1	0	0	0	7606	1203	42	3	2006	3	IGSF9B	11	133794771	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	9484413	133794771	1211745	239	54245										
ERC1	23085	broad.mit.edu	37	chr12	1480998	1480998	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggcatttgctttcttttgcaGgcaagaagctcttctggctg	11	9	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:1480998G>A	uc001qjb.2	+	16	3022	c.2781_splice	c.e16-1	p.K927_splice	ERC1_uc001qiz.2_Splice_Site|ERC1_uc001qjc.2_Splice_Site_p.K899_splice|ERC1_uc001qja.2_Splice_Site|ERC1_uc001qjd.2_Splice_Site|ERC1_uc001qjf.2_Splice_Site_p.K927_splice|ERC1_uc010sdv.1_Splice_Site_p.K635_splice|ERC1_uc001qje.2_Splice_Site	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon						I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			TTCTTTTGCAGGCAAGAAGCT	0.313													6	85	---	---	---	---	PASS	A	1480998	A	A	1480998	5	1	152	1	0	0	0	0	0	0	1	0	5210	1014	35	3	2838	3	ERC1	12	1480998	Splice_Site	SNP	G	TCGA-66-2767-01A-01D-1522-08		1480998	132370897	240	54246										
CACNA2D4	93589	broad.mit.edu	37	chr12	2024039	2024039	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccttctgcagcaagagagagCctgagtatttggtcacagtg	12	9	2	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:2024039C>G	uc001qjp.2	-	2	521	c.290G>C	c.(289-291)GGC>GCC	p.G97A	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Missense_Mutation_p.G97A	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	97	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		CAAGAGAGAGCCTGAGTATTT	0.478													23	138	---	---	---	---	PASS	G	2024039	G	G	2024039	3	3	152	1	0	0	0	0	1	0	0	0	2551	739	26	4	3271	4	CACNA2D4	12	2024039	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	543041	2024039	131827856	241	54247										
NRIP2	83714	broad.mit.edu	37	chr12	2943847	2943847	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agcctcttgaggctgtccagCgggagcaggtcggccgagtc	16	12	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:2943847C>T	uc001qlc.2	-	1	375	c.303G>A	c.(301-303)CCG>CCA	p.P101P	NRIP2_uc010sed.1_Silent_p.P101P|uc009zdz.1_5'Flank	NM_031474	NP_113662	Q9BQI9	NRIP2_HUMAN	nuclear receptor interacting protein 2	101					proteolysis|transcription, DNA-dependent	cytoplasm|nucleus	aspartic-type endopeptidase activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GGCTGTCCAGCGGGAGCAGGT	0.657													18	220	---	---	---	---	PASS	T	2943847	T	T	2943847	2	4	152	1	0	0	0	0	0	0	0	1	10653	755	27	1		1	NRIP2	12	2943847	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	919808	2943847	130908048	242	54248										
KCNA5	3741	broad.mit.edu	37	chr12	5153548	5153548	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	acccgggagtgcggcccttgCctccgctgccagaggagctg	15	15	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:5153548C>A	uc001qni.2	+	1	464	c.235C>A	c.(235-237)CCT>ACT	p.P79T		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	79	2 X 11 AA tandem repeat of D-[SP]-G-V-R- P-L-P-P-L-P.|2.					Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GCGGCCCTTGCCTCCGCTGCC	0.746													5	9	---	---	---	---	PASS	A	5153548	A	A	5153548	3	1	152	1	0	0	0	0	1	0	0	0	8006	739	26	3	237	3	KCNA5	12	5153548	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	2209701	5153548	128698347	243	54249										
TPI1	7167	broad.mit.edu	37	chr12	6979488	6979488	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agcctgatgtggatggcttcCttgtgggtggtgcttccctc	14	10	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:6979488C>T	uc001qrk.2	+	7	729	c.691C>T	c.(691-693)CTT>TTT	p.L231F	TPI1_uc010sfo.1_Missense_Mutation_p.L149F	NM_000365	NP_000356	P60174	TPIS_HUMAN	triosephosphate isomerase 1 isoform 1	231					fatty acid biosynthetic process|gluconeogenesis|glycolysis|pentose-phosphate shunt	cytosol	triose-phosphate isomerase activity				0						GGATGGCTTCCTTGTGGGTGG	0.572											OREG0021638	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	53	---	---	---	---	PASS	T	6979488	T	T	6979488	3	4	152	1	0	0	0	0	1	0	0	0	16400	681	24	3	828	3	TPI1	12	6979488	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	1825940	6979488	126872407	244	54250										
FAM90A1	55138	broad.mit.edu	37	chr12	8376048	8376048	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cccagggtgaccctcaccctCagataatcagaagattccgt	8	14	3	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:8376048C>G	uc001qui.2	-	6	988	c.429G>C	c.(427-429)CTG>CTC	p.L143L	FAM90A1_uc001quh.2_Silent_p.L143L	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	143							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		CCCTCACCCTCAGATAATCAG	0.542													6	126	---	---	---	---	PASS	G	8376048	G	G	8376048	2	3	152	1	0	0	0	0	0	0	0	1	5650	813	29	2		2	FAM90A1	12	8376048	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	1396560	8376048	125475847	245	54251										
PIK3C2G	5288	broad.mit.edu	37	chr12	18435602	18435602	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agaagagaataaaaggagtgGacatgtgaacattgtggaac	13	3	0	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:18435602G>A	uc001rdt.2	+	2	703	c.587G>A	c.(586-588)GGA>GAA	p.G196E	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.G196E|PIK3C2G_uc010sic.1_5'UTR	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	196					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				AAAAGGAGTGGACATGTGAAC	0.383													205	268	---	---	---	---	PASS	A	18435602	A	A	18435602	3	1	152	1	0	0	0	0	1	0	0	0	11911	1174	41	2	589	2	PIK3C2G	12	18435602	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	10059554	18435602	115416293	246	54252										
PLCZ1	89869	broad.mit.edu	37	chr12	18854689	18854689	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcctattttcttatttttaaCtaatattttgaattttagtg	3	4	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:18854689C>T	uc010sid.1	-	8	1077	c.886G>A	c.(886-888)GTT>ATT	p.V296I	PLCZ1_uc001rdv.3_Missense_Mutation_p.V192I|PLCZ1_uc001rdw.3_Missense_Mutation_p.V37I|PLCZ1_uc001rdu.1_Missense_Mutation_p.V37I|PLCZ1_uc009zil.1_RNA	NM_033123	NP_149114	Q86YW0	PLCZ1_HUMAN	phospholipase C, zeta 1	296	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process|multicellular organismal development	nucleus|perinuclear region of cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)					TTATTTTTAACTAATATTTTG	0.338													3	52	---	---	---	---	PASS	T	18854689	T	T	18854689	3	4	152	1	0	0	0	0	1	0	0	0	12044	565	20	3	972	3	PLCZ1	12	18854689	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	419087	18854689	114997206	247	54253										
AEBP2	121536	broad.mit.edu	37	chr12	19667652	19667652	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgaacgacatcagttaaaaaCtaaagtagttcatttatcaa	5	6	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:19667652C>G	uc001ref.2	+	7	1441	c.1415C>G	c.(1414-1416)ACT>AGT	p.T472S	AEBP2_uc001ree.2_Missense_Mutation_p.T472S|AEBP2_uc001reg.1_Missense_Mutation_p.T243S	NM_001114176	NP_001107648	Q6ZN18	AEBP2_HUMAN	AE binding protein 2 isoform b	472	Interaction with SUZ12.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)|Esophageal squamous(101;0.143)					CAGTTAAAAACTAAAGTAGTT	0.299													3	67	---	---	---	---	PASS	G	19667652	G	G	19667652	3	3	152	1	0	0	0	0	1	0	0	0	350	565	20	4	1441	4	AEBP2	12	19667652	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	812963	19667652	114184243	248	54254										
SLCO1C1	53919	broad.mit.edu	37	chr12	20874755	20874755	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cagatcacataaccattaccCcaaaagatccccagtgggta	6	13	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:20874755C>A	uc001rej.3	+	9	1148	c.793C>A	c.(793-795)CCA>ACA	p.P265T	SLCO1C1_uc010sii.1_Missense_Mutation_p.P265T|SLCO1C1_uc010sij.1_Missense_Mutation_p.P216T|SLCO1C1_uc009zip.2_Missense_Mutation_p.P99T|SLCO1C1_uc001rei.2_Missense_Mutation_p.P265T|SLCO1C1_uc010sik.1_Missense_Mutation_p.P147T	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	265	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					AACCATTACCCCAAAAGATCC	0.388													68	116	---	---	---	---	PASS	A	20874755	A	A	20874755	3	1	152	1	0	0	0	0	1	0	0	0	14725	623	22	3	819	3	SLCO1C1	12	20874755	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	1207103	20874755	112977140	249	54255										
BCAT1	586	broad.mit.edu	37	chr12	24985698	24985698	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agaaactgggcaaacaacacAggctgtaccagagccaaaca	9	11	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:24985698A>G	uc001rgd.3	-	9	1445	c.1003T>C	c.(1003-1005)TGT>CGT	p.C335R	BCAT1_uc001rgc.2_Missense_Mutation_p.C334R|BCAT1_uc010six.1_Missense_Mutation_p.C347R|BCAT1_uc010siy.1_Missense_Mutation_p.C298R|BCAT1_uc001rge.3_Missense_Mutation_p.C274R	NM_005504	NP_005495	P54687	BCAT1_HUMAN	branched chain aminotransferase 1, cytosolic	335					branched chain family amino acid biosynthetic process|branched chain family amino acid catabolic process|cell proliferation|G1/S transition of mitotic cell cycle	cytosol	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			lung(1)|breast(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Ovarian(17;0.107)|Colorectal(261;0.196)				Gabapentin(DB00996)|L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|L-Valine(DB00161)|Pyridoxal Phosphate(DB00114)	CAAACAACACAGGCTGTACCA	0.423													27	37	---	---	---	---	PASS	G	24985698	G	G	24985698	3	3	152	1	0	0	0	0	1	0	0	0	1354	188	7	5	169	5	BCAT1	12	24985698	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	4110943	24985698	108866197	250	54256										
TMTC1	83857	broad.mit.edu	37	chr12	29908774	29908774	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gcagcaagaagaagggagacAccgtggaagggaaacttccc	14	9	0	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:29908774A>G	uc001rjb.2	-	4	749	c.275T>C	c.(274-276)GTG>GCG	p.V92A	TMTC1_uc001rjc.1_Missense_Mutation_p.V92A	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	200	Helical; (Potential).					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					GAAGGGAGACACCGTGGAAGG	0.468													9	157	---	---	---	---	PASS	G	29908774	G	G	29908774	3	3	152	1	0	0	0	0	1	0	0	0	16257	159	6	5	2109	5	TMTC1	12	29908774	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	4923076	29908774	103943121	251	54257										
LRRK2	120892	broad.mit.edu	37	chr12	40703026	40703026	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gccatgaagccttggctcttCaatataaaggtgatttgttc	9	8	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:40703026C>T	uc001rmg.3	+	30	4429	c.4308C>T	c.(4306-4308)TTC>TTT	p.F1436F	LRRK2_uc009zjw.2_Silent_p.F274F|LRRK2_uc001rmi.2_Silent_p.F269F	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1436	Roc.				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)				CTTGGCTCTTCAATATAAAGG	0.328													15	108	---	---	---	---	PASS	T	40703026	T	T	40703026	2	4	152	1	0	0	0	0	0	0	0	1	9033	825	29	2		2	LRRK2	12	40703026	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	10794252	40703026	93148869	252	54258										
MLL2	8085	broad.mit.edu	37	chr12	49448310	49448310	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgccccattctcctcactcaCctccaggttctcctaggtgg	7	17	4	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:49448310C>T	uc001rta.3	-	3	400	c.400_splice	c.e3+1	p.G134_splice		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2						chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TCCTCACTCACCTCCAGGTTC	0.542			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			3	32	---	---	---	---	PASS	T	49448310	T	T	49448310	5	4	152	1	0	0	0	0	0	0	1	0	9621	521	18	3	16420	3	MLL2	12	49448310	Splice_Site	SNP	C	TCGA-66-2767-01A-01D-1522-08	8745284	49448310	84403585	253	54259										
KRT83	3889	broad.mit.edu	37	chr12	52714744	52714744	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gacgacacccaccttgtcgaTgaaggccgcgaatctgctgt	11	13	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:52714744T>C	uc001saf.2	-	1	439	c.376A>G	c.(376-378)ATC>GTC	p.I126V		NM_002282	NP_002273	P78385	KRT83_HUMAN	keratin 83	126	Rod.|Coil 1A.				epidermis development	keratin filament	structural molecule activity			skin(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		ACCTTGTCGATGAAGGCCGCG	0.567													88	276	---	---	---	---	PASS	C	52714744	C	C	52714744	3	2	152	1	0	0	0	0	1	0	0	0	8497	1464	51	5	1141	5	KRT83	12	52714744	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	3266434	52714744	81137151	254	54260										
AAAS	8086	broad.mit.edu	37	chr12	53715196	53715196	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agctcgttattgtgctcataTagggtgacttgaccccgagg	12	9	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:53715196T>A	uc001scr.3	-	1	217	c.54A>T	c.(52-54)CTA>CTT	p.L18L	AAAS_uc001scs.3_Silent_p.L18L	NM_015665	NP_056480	Q9NRG9	AAAS_HUMAN	achalasia, adrenocortical insufficiency,	18					carbohydrate metabolic process|glucose transport|nucleocytoplasmic transport|regulation of glucose transport|regulation of nucleocytoplasmic transport|transmembrane transport|viral reproduction	nuclear pore				ovary(1)	1						TGTGCTCATATAGGGTGACTT	0.637											OREG0021865	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	139	364	---	---	---	---	PASS	A	53715196	A	A	53715196	2	1	152	1	0	0	0	0	0	0	0	1	8	1393	49	5		5	AAAS	12	53715196	Silent	SNP	T	TCGA-66-2767-01A-01D-1522-08	1000452	53715196	80136699	255	54261										
TMEM19	55266	broad.mit.edu	37	chr12	72092691	72092691	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cttcttcaggtaccaatggaGgagttacagtggtgggcctt	13	8	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:72092691G>A	uc001sws.2	+	5	1232	c.649G>A	c.(649-651)GGA>AGA	p.G217R	TMEM19_uc001swr.1_Missense_Mutation_p.G203R|TMEM19_uc009zru.1_RNA	NM_018279	NP_060749	Q96HH6	TMM19_HUMAN	transmembrane protein 19	217						integral to membrane					0		Breast(359;0.0889)		GBM - Glioblastoma multiforme(134;0.044)		TACCAATGGAGGAGTTACAGT	0.428													89	216	---	---	---	---	PASS	A	72092691	A	A	72092691	3	1	152	1	0	0	0	0	1	0	0	0	16110	1001	35	3	667	3	TMEM19	12	72092691	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	18377495	72092691	61759204	256	54262										
TRHDE	29953	broad.mit.edu	37	chr12	73015511	73015511	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcaacacttatttcagattgGatttccagcaacaggaacag	7	9	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:73015511G>C	uc001sxa.2	+	15	2550	c.2520G>C	c.(2518-2520)TGG>TGC	p.W840C		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	840	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TTTCAGATTGGATTTCCAGCA	0.388													28	80	---	---	---	---	PASS	C	73015511	C	C	73015511	3	2	152	1	0	0	0	0	1	0	0	0	16476	1183	41	2	2578	2	TRHDE	12	73015511	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	922820	73015511	60836384	257	54263										
NAV3	89795	broad.mit.edu	37	chr12	78360035	78360035	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aatgttgatgtctgccttagTtttctagcagccagaggggt	12	7	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:78360035T>A	uc001syp.2	+	4	614	c.441T>A	c.(439-441)AGT>AGA	p.S147R	NAV3_uc001syo.2_Missense_Mutation_p.S147R	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	147	CH.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TCTGCCTTAGTTTTCTAGCAG	0.338										HNSCC(70;0.22)			15	165	---	---	---	---	PASS	A	78360035	A	A	78360035	3	1	152	1	0	0	0	0	1	0	0	0	10185	1722	60	5	455	5	NAV3	12	78360035	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	5344524	78360035	55491860	258	54264										
CDK17	5128	broad.mit.edu	37	chr12	96691046	96691046	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttacacacgcaagaaaacatAcctttacgttgtgcatactc	5	11	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:96691046A>T	uc001tep.1	-	9	1362	c.873_splice	c.e9+1	p.K291_splice	CDK17_uc009ztk.2_Splice_Site_p.K291_splice|CDK17_uc010svb.1_Splice_Site_p.K238_splice	NM_002595	NP_002586	Q00537	CDK17_HUMAN	PCTAIRE protein kinase 2								ATP binding|cyclin-dependent protein kinase activity			ovary(3)|lung(2)|kidney(1)|central_nervous_system(1)	7						AAGAAAACATACCTTTACGTT	0.363													22	78	---	---	---	---	PASS	T	96691046	T	T	96691046	5	4	152	1	0	0	0	0	0	0	1	0	3133	405	14	5	770	5	CDK17	12	96691046	Splice_Site	SNP	A	TCGA-66-2767-01A-01D-1522-08	18331011	96691046	37160849	259	54265										
C12orf48	55010	broad.mit.edu	37	chr12	102576327	102576327	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cttttttttttttgacatagGtctcccacacaggtgaataa	6	8	1	2	rs74958875		TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:102576327G>T	uc001tjf.2	+	9	1297	c.1185G>T	c.(1183-1185)AGG>AGT	p.R395S	C12orf48_uc001tjg.2_Missense_Mutation_p.R314S|C12orf48_uc010swa.1_Missense_Mutation_p.R472S|C12orf48_uc001tjh.2_Missense_Mutation_p.R314S|C12orf48_uc010swb.1_Intron|C12orf48_uc009zuc.2_Intron|C12orf48_uc001tjj.2_Missense_Mutation_p.R110S|C12orf48_uc001tjk.2_Missense_Mutation_p.R274S|C12orf48_uc009zud.2_Intron	NM_017915	NP_060385	Q9NWS1	PR1BP_HUMAN	hypothetical protein LOC55010	395					response to DNA damage stimulus	cytoplasm|nucleus	DNA binding				0						TTTGACATAGGTCTCCCACAC	0.239													15	62	---	---	---	---	PASS	T	102576327	T	T	102576327	3	4	152	1	0	0	0	0	1	0	0	0	1692	1275	44	3	968	3	C12orf48	12	102576327	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	5885281	102576327	31275568	260	54266										
RBM19	9904	broad.mit.edu	37	chr12	114387903	114387903	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cttacccatgtactcccggtTgcatttcagagcttgcttca	7	13	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:114387903T>C	uc009zwi.2	-	9	1201	c.1057A>G	c.(1057-1059)AAC>GAC	p.N353D	RBM19_uc001tvn.3_Missense_Mutation_p.N353D|RBM19_uc001tvm.2_Missense_Mutation_p.N353D	NM_001146699	NP_001140171	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	353	RRM 2.				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)					TACTCCCGGTTGCATTTCAGA	0.478													39	198	---	---	---	---	PASS	C	114387903	C	C	114387903	3	2	152	1	0	0	0	0	1	0	0	0	13121	1812	63	5	1889	5	RBM19	12	114387903	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	11811576	114387903	19463992	261	54267										
TCTN2	79867	broad.mit.edu	37	chr12	124158247	124158247	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttccttctcagagtccccctGtatcctccagacccttctgg	6	17	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:124158247G>T	uc001ufp.2	+	4	481	c.353G>T	c.(352-354)TGT>TTT	p.C118F	TCTN2_uc009zya.2_Missense_Mutation_p.C117F	NM_024809	NP_079085	Q96GX1	TECT2_HUMAN	tectonic family member 2 isoform 1	118	Extracellular (Potential).				cilium assembly|smoothened signaling pathway	integral to membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000163)|Epithelial(86;0.000502)|all cancers(50;0.00451)		GAGTCCCCCTGTATCCTCCAG	0.458													93	375	---	---	---	---	PASS	T	124158247	T	T	124158247	3	4	152	1	0	0	0	0	1	0	0	0	15720	1377	48	3	367	3	TCTN2	12	124158247	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	9770344	124158247	9693648	262	54268										
DNAH10	196385	broad.mit.edu	37	chr12	124303521	124303521	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctgatgcagagaaagaactgGttgataagattgagagcata	12	4	0	6			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:124303521G>T	uc001uft.3	+	21	3476	c.3451G>T	c.(3451-3453)GTT>TTT	p.V1151F		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1151	Stem (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)		GAAAGAACTGGTTGATAAGAT	0.363													9	37	---	---	---	---	PASS	T	124303521	T	T	124303521	3	4	152	1	0	0	0	0	1	0	0	0	4598	1261	44	3	3533	3	DNAH10	12	124303521	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	145274	124303521	9548374	263	54269										
NCOR2	9612	broad.mit.edu	37	chr12	124979765	124979765	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cggggctcagtggccctccaCgtctgtgccacaggctgtgt	14	14	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:124979765C>A	uc010tba.1	-	1	150	c.33G>T	c.(31-33)ACG>ACT	p.T11T	NCOR2_uc010tay.1_Silent_p.T11T|NCOR2_uc010taz.1_Silent_p.T11T|NCOR2_uc010tbb.1_Silent_p.T11T|NCOR2_uc010tbc.1_Silent_p.T11T|NCOR2_uc001ugj.1_Silent_p.T11T|NCOR2_uc001ugk.1_Silent_p.T11T	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	11					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		TGGCCCTCCACGTCTGTGCCA	0.642													21	49	---	---	---	---	PASS	A	124979765	A	A	124979765	2	1	152	1	0	0	0	0	0	0	0	1	10236	523	19	1		1	NCOR2	12	124979765	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	676244	124979765	8872130	264	54270										
EP400	57634	broad.mit.edu	37	chr12	132496111	132496111	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agtgggagcttgaattgaaaCgttggtgtcccggactcaaa	13	7	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr12:132496111C>T	uc001ujn.2	+	15	3408	c.3373C>T	c.(3373-3375)CGT>TGT	p.R1125C	EP400_uc001ujl.2_Missense_Mutation_p.R1124C|EP400_uc001ujm.2_Missense_Mutation_p.R1125C	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1161	Interactions with RUVBL1 and RUVBL2.|Helicase ATP-binding.				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		TGAATTGAAACGTTGGTGTCC	0.383													41	147	---	---	---	---	PASS	T	132496111	T	T	132496111	3	4	152	1	0	0	0	0	1	0	0	0	5149	536	19	1	3428	1	EP400	12	132496111	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	7516346	132496111	1355784	265	54271										
TUBA3C	7278	broad.mit.edu	37	chr13	19748086	19748086	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cttctccagagctgccaggtCctcgcgggcctcagagaact	11	15	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr13:19748086C>A	uc009zzj.2	-	5	1319	c.1270G>T	c.(1270-1272)GAC>TAC	p.D424Y		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	424					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		GCTGCCAGGTCCTCGCGGGCC	0.582													52	155	---	---	---	---	PASS	A	19748086	A	A	19748086	3	1	152	1	0	0	0	0	1	0	0	0	16743	855	30	2	86	2	TUBA3C	13	19748086	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08		19748086	95421792	266	54272										
IFT88	8100	broad.mit.edu	37	chr13	21163959	21163959	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcctccccaagataactgctAaaatatcaagcacggcagtt	6	12	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr13:21163959A>G	uc001unh.2	+	6	586	c.190A>G	c.(190-192)AAA>GAA	p.K64E	IFT88_uc001uni.2_Missense_Mutation_p.K55E|IFT88_uc001unj.2_Missense_Mutation_p.K54E|IFT88_uc010tcq.1_Intron	NM_175605	NP_783195	Q13099	IFT88_HUMAN	intraflagellar transport 88 homolog isoform 1	64					cilium morphogenesis	centriole|intraflagellar transport particle B|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(29;5.79e-25)|all_epithelial(30;2.57e-20)|all_lung(29;3.13e-16)|Lung SC(185;0.0262)|Ovarian(182;0.0825)|Hepatocellular(188;0.244)		all cancers(112;0.000667)|Epithelial(112;0.00119)|OV - Ovarian serous cystadenocarcinoma(117;0.0141)|Lung(94;0.0183)|LUSC - Lung squamous cell carcinoma(192;0.0528)		GATAACTGCTAAAATATCAAG	0.328													27	58	---	---	---	---	PASS	G	21163959	G	G	21163959	3	3	152	1	0	0	0	0	1	0	0	0	7566	363	13	5	204	5	IFT88	13	21163959	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	1415873	21163959	94005919	267	54273										
SACS	26278	broad.mit.edu	37	chr13	23911629	23911629	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tagaaccataagggaatctcCcatctttaatatcaaataac	4	9	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr13:23911629C>A	uc001uon.2	-	10	6975	c.6386G>T	c.(6385-6387)GGG>GTG	p.G2129V	SACS_uc001uoo.2_Missense_Mutation_p.G1982V|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2129					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AGGGAATCTCCCATCTTTAAT	0.378													39	109	---	---	---	---	PASS	A	23911629	A	A	23911629	3	1	152	1	0	0	0	0	1	0	0	0	13804	623	22	3	7357	3	SACS	13	23911629	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	2747670	23911629	91258249	268	54274										
BRCA2	675	broad.mit.edu	37	chr13	32914593	32914593	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agaagaaaatactgctatacGtactccagaacatttaatat	5	7	0	3	rs80358849		TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr13:32914593G>A	uc001uub.1	+	11	6328	c.6101G>A	c.(6100-6102)CGT>CAT	p.R2034H		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2034					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		ACTGCTATACGTACTCCAGAA	0.348			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			42	117	---	---	---	---	PASS	A	32914593	A	A	32914593	3	1	152	1	0	0	0	0	1	0	0	0	1499	1145	40	1	6139	1	BRCA2	13	32914593	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	9002964	32914593	82255285	269	54275										
ALG5	29880	broad.mit.edu	37	chr13	37539757	37539757	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	acgtccgtgaagctgcttctCgagtaaataatttgaaccca	8	10	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr13:37539757C>A	uc001uvy.2	-	8	795	c.728G>T	c.(727-729)CGA>CTA	p.R243L	ALG5_uc010teq.1_Missense_Mutation_p.R213L|ALG5_uc010ter.1_RNA	NM_013338	NP_037470	Q9Y673	ALG5_HUMAN	dolichyl-phosphate beta-glucosyltransferase	243	Lumenal (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate beta-glucosyltransferase activity|oligosaccharyl transferase activity				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)		all cancers(112;5.79e-07)|Epithelial(112;1.81e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00785)|BRCA - Breast invasive adenocarcinoma(63;0.0127)|GBM - Glioblastoma multiforme(144;0.0472)		AGCTGCTTCTCGAGTAAATAA	0.448													4	224	---	---	---	---	PASS	A	37539757	A	A	37539757	3	1	152	1	0	0	0	0	1	0	0	0	521	884	31	2	258	2	ALG5	13	37539757	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	4625164	37539757	77630121	270	54276										
SLITRK1	114798	broad.mit.edu	37	chr13	84454001	84454001	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gctcatcagcacttcggaacCcaagcgttctgcccactgct	8	16	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr13:84454001C>A	uc001vlk.2	-	1	2528	c.1642G>T	c.(1642-1644)GGT>TGT	p.G548C		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	548	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		ACTTCGGAACCCAAGCGTTCT	0.532													21	52	---	---	---	---	PASS	A	84454001	A	A	84454001	3	1	152	1	0	0	0	0	1	0	0	0	14742	623	22	3	452	3	SLITRK1	13	84454001	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	46914244	84454001	30715877	271	54277										
SLITRK5	26050	broad.mit.edu	37	chr13	88329379	88329379	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gggcatgaagctgtgggtggAgcagctcaaagtgggcgtcc	18	8	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr13:88329379A>T	uc001vln.2	+	2	1955	c.1736A>T	c.(1735-1737)GAG>GTG	p.E579V	SLITRK5_uc010tic.1_Missense_Mutation_p.E338V	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	579	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CTGTGGGTGGAGCAGCTCAAA	0.527													24	243	---	---	---	---	PASS	T	88329379	T	T	88329379	3	4	152	1	0	0	0	0	1	0	0	0	14746	304	11	5	1738	5	SLITRK5	13	88329379	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	3875378	88329379	26840499	272	54278										
SLITRK5	26050	broad.mit.edu	37	chr13	88329602	88329602	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggggcccccgcgagcttgggCgcaggcggaggggcgtcgtc	21	13	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr13:88329602C>G	uc001vln.2	+	2	2178	c.1959C>G	c.(1957-1959)GGC>GGG	p.G653G	SLITRK5_uc010tic.1_Silent_p.G412G	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	653	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CGAGCTTGGGCGCAGGCGGAG	0.652													19	60	---	---	---	---	PASS	G	88329602	G	G	88329602	2	3	152	1	0	0	0	0	0	0	0	1	14746	755	27	4		4	SLITRK5	13	88329602	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	223	88329602	26840276	273	54279										
OR4K1	79544	broad.mit.edu	37	chr14	20403890	20403890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gggactctctaattcctgggGacttcaacttttcttttttg	8	9	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr14:20403890G>T	uc001vwj.1	+	1	65	c.65G>T	c.(64-66)GGA>GTA	p.G22V		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		AATTCCTGGGGACTTCAACTT	0.353													52	834	---	---	---	---	PASS	T	20403890	T	T	20403890	3	4	152	1	0	0	0	0	1	0	0	0	11067	1174	41	2	67	2	OR4K1	14	20403890	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08		20403890	86945650	274	54280										
OR4K1	79544	broad.mit.edu	37	chr14	20404050	20404050	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	attgatatctgtcagtctaaCtttgccacccccaagatgct	6	12	3	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr14:20404050C>A	uc001vwj.1	+	1	225	c.225C>A	c.(223-225)AAC>AAA	p.N75K		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		GTCAGTCTAACTTTGCCACCC	0.378													105	451	---	---	---	---	PASS	A	20404050	A	A	20404050	3	1	152	1	0	0	0	0	1	0	0	0	11067	564	20	3	227	3	OR4K1	14	20404050	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	160	20404050	86945490	275	54281										
OR4K15	81127	broad.mit.edu	37	chr14	20444630	20444630	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cacgctaagaaacaaagaagTgaaggcagctatgtcaaaac	9	8	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr14:20444630T>C	uc010tkx.1	+	1	953	c.953T>C	c.(952-954)GTG>GCG	p.V318A		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	318	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AACAAAGAAGTGAAGGCAGCT	0.383													29	120	---	---	---	---	PASS	C	20444630	C	C	20444630	3	2	152	1	0	0	0	0	1	0	0	0	11070	1696	59	5	955	5	OR4K15	14	20444630	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	40580	20444630	86904910	276	54282										
PYGL	5836	broad.mit.edu	37	chr14	51398405	51398405	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	acacacctgccatccatctcGgatcttctgattgaaaatcc	5	14	3	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr14:51398405G>A	uc001wyu.2	-	4	641	c.514C>T	c.(514-516)CGA>TGA	p.R172*	PYGL_uc010tqq.1_Nonsense_Mutation_p.R138*|PYGL_uc001wyv.2_5'UTR|PYGL_uc001wyw.3_Nonsense_Mutation_p.R172*	NM_002863	NP_002854	P06737	PYGL_HUMAN	liver glycogen phosphorylase isoform 1	172					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding			skin(1)	1	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	CATCCATCTCGGATCTTCTGA	0.413													69	154	---	---	---	---	PASS	A	51398405	A	A	51398405	4	1	152	1	0	0	0	0	0	1	0	0	12861	1124	39	1	2097	1	PYGL	14	51398405	Nonsense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	30953775	51398405	55951135	277	54283										
ARID4A	5926	broad.mit.edu	37	chr14	58790254	58790254	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gaagaggaagatgaagacaaGcgccgtctcaatgatgaatt	12	6	1	6			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr14:58790254G>T	uc001xdp.2	+	8	755	c.501G>T	c.(499-501)AAG>AAT	p.K167N	ARID4A_uc001xdo.2_Missense_Mutation_p.K167N|ARID4A_uc001xdq.2_Missense_Mutation_p.K167N	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	167					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						ATGAAGACAAGCGCCGTCTCA	0.373													54	92	---	---	---	---	PASS	T	58790254	T	T	58790254	3	4	152	1	0	0	0	0	1	0	0	0	919	962	34	3	527	3	ARID4A	14	58790254	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	7391849	58790254	48559286	278	54284										
SYNE2	23224	broad.mit.edu	37	chr14	64421613	64421613	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agaacaagaattaaaaatccCcagattgctggaaccagaag	8	8	0	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr14:64421613C>A	uc001xgm.2	+	8	997	c.767C>A	c.(766-768)CCC>CAC	p.P256H	SYNE2_uc001xgk.2_Missense_Mutation_p.P256H|SYNE2_uc001xgl.2_Missense_Mutation_p.P256H	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	256	CH 2.|Cytoplasmic (Potential).|Actin-binding.				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)		TTAAAAATCCCCAGATTGCTG	0.358													41	57	---	---	---	---	PASS	A	64421613	A	A	64421613	3	1	152	1	0	0	0	0	1	0	0	0	15443	623	22	3	793	3	SYNE2	14	64421613	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	5631359	64421613	42927927	279	54285										
ZBTB1	22890	broad.mit.edu	37	chr14	64989632	64989632	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caggaacatgctcaacgatgTggcgagccccaagatctgac	11	12	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr14:64989632T>C	uc001xhh.3	+	4	1841	c.1410T>C	c.(1408-1410)TGT>TGC	p.C470C	ZBTB1_uc010aqg.2_Silent_p.C470C|ZBTB1_uc001xhi.2_Silent_p.C470C	NM_001123329	NP_001116801	Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1 isoform	470	C2H2-type 2; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		all_lung(585;0.000567)|Myeloproliferative disorder(585;0.0255)|all_neural(303;0.0294)		UCEC - Uterine corpus endometrioid carcinoma (185;0.0182)|all cancers(60;3.78e-43)|OV - Ovarian serous cystadenocarcinoma(108;1.22e-20)|BRCA - Breast invasive adenocarcinoma(234;6.75e-06)|KIRC - Kidney renal clear cell carcinoma(182;0.00269)|STAD - Stomach adenocarcinoma(64;0.012)		CTCAACGATGTGGCGAGCCCC	0.423													65	153	---	---	---	---	PASS	C	64989632	C	C	64989632	2	2	152	1	0	0	0	0	0	0	0	1	17519	1702	59	5		5	ZBTB1	14	64989632	Silent	SNP	T	TCGA-66-2767-01A-01D-1522-08	568019	64989632	42359908	280	54286										
C14orf49	161176	broad.mit.edu	37	chr14	95921782	95921782	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cgccgcaggctgcaggccctCctgggccagcctctgcagga	14	17	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr14:95921782C>A	uc001yei.3	-	5	1084	c.1069G>T	c.(1069-1071)GAG>TAG	p.E357*	C14orf49_uc010avi.2_Nonsense_Mutation_p.E357*|C14orf49_uc001yej.1_Nonsense_Mutation_p.E357*	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	357	Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		TGCAGGCCCTCCTGGGCCAGC	0.667													6	46	---	---	---	---	PASS	A	95921782	A	A	95921782	4	1	152	1	0	0	0	0	0	1	0	0	1776	864	30	2	1910	2	C14orf49	14	95921782	Nonsense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	30932150	95921782	11427758	281	54287										
EML1	2009	broad.mit.edu	37	chr14	100331948	100331948	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tctctaccatccccctccggGgtcaggaaagaaactgctgt	9	14	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr14:100331948G>T	uc001ygs.2	+	3	417	c.348G>T	c.(346-348)GGG>GGT	p.G116G	EML1_uc010avt.1_Silent_p.G103G|EML1_uc010tww.1_Silent_p.G85G|EML1_uc001ygq.2_Silent_p.G116G|EML1_uc001ygr.2_Silent_p.G116G	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	116						cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				CCCCCTCCGGGGTCAGGAAAG	0.498													17	69	---	---	---	---	PASS	T	100331948	T	T	100331948	2	4	152	1	0	0	0	0	0	0	0	1	5096	1219	43	3		3	EML1	14	100331948	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	4410166	100331948	7017592	282	54288										
CRIP2	1397	broad.mit.edu	37	chr14	105945787	105945787	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccccagcacgacggccagccCtactgccacaagccctgcta	8	20	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr14:105945787C>G	uc001yrd.1	+	7	585	c.516C>G	c.(514-516)CCC>CCG	p.P172P	CRIP2_uc010tyr.1_Silent_p.P246P|CRIP2_uc001yre.1_Silent_p.P244P|CRIP2_uc001yrf.1_RNA|CRIP2_uc001yrg.2_RNA|CRIP2_uc001yrh.1_RNA	NM_001312	NP_001303	P52943	CRIP2_HUMAN	cysteine-rich protein 2	172	LIM zinc-binding 2.						zinc ion binding				0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.235)		ACGGCCAGCCCTACTGCCACA	0.642													10	111	---	---	---	---	PASS	G	105945787	G	G	105945787	2	3	152	1	0	0	0	0	0	0	0	1	3875	668	24	4		4	CRIP2	14	105945787	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	5613839	105945787	1403753	283	54289										
OR4N4	283694	broad.mit.edu	37	chr15	22382732	22382732	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gatgttggtggacttcctctCtgagaaaaaggtaatctcct	10	8	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr15:22382732C>A	uc001yuc.1	+	7	1241	c.260C>A	c.(259-261)TCT>TAT	p.S87Y	LOC727924_uc001yub.1_RNA|OR4N4_uc010tzv.1_Missense_Mutation_p.S87Y	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GACTTCCTCTCTGAGAAAAAG	0.507													18	258	---	---	---	---	PASS	A	22382732	A	A	22382732	3	1	152	1	0	0	0	0	1	0	0	0	11078	913	32	2	262	2	OR4N4	15	22382732	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08		22382732	80148660	284	54290										
EIF2AK4	440275	broad.mit.edu	37	chr15	40280230	40280230	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	acgagacaccattgaccaggGactgtatcgagacaccgtca	10	12	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr15:40280230G>A	uc001zkm.1	+	15	2500	c.2450G>A	c.(2449-2451)GGA>GAA	p.G817E	EIF2AK4_uc010bbj.1_Missense_Mutation_p.G518E	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	817	Protein kinase 2.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		ATTGACCAGGGACTGTATCGA	0.398													26	185	---	---	---	---	PASS	A	40280230	A	A	40280230	3	1	152	1	0	0	0	0	1	0	0	0	4999	1174	41	2	2508	2	EIF2AK4	15	40280230	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	17897498	40280230	62251162	285	54291										
DECR2	26063	broad.mit.edu	37	chr16	460303	460303	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cttcaacgccttcaagaccgTgatggacatcgataccagcg	9	13	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:460303T>A	uc002chb.2	+	5	504	c.398T>A	c.(397-399)GTG>GAG	p.V133E	DECR2_uc002chc.2_Missense_Mutation_p.V49E|DECR2_uc010bqv.2_Missense_Mutation_p.V49E|DECR2_uc002chd.2_Missense_Mutation_p.V49E|DECR2_uc002che.1_RNA	NM_020664	NP_065715	Q9NUI1	DECR2_HUMAN	2,4-dienoyl CoA reductase 2	133						peroxisome	2,4-dienoyl-CoA reductase (NADPH) activity|binding				0		Hepatocellular(16;0.00015)				TTCAAGACCGTGATGGACATC	0.607													15	91	---	---	---	---	PASS	A	460303	A	A	460303	3	1	152	1	0	0	0	0	1	0	0	0	4383	1696	59	5	416	5	DECR2	16	460303	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08		460303	89894450	286	54292										
IFT140	9742	broad.mit.edu	37	chr16	1607944	1607944	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cgggatcctcaccttttgatGagcttgatggatttgaaggc	12	8	1	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:1607944G>T	uc002cmb.2	-	19	2753	c.2391C>A	c.(2389-2391)CTC>CTA	p.L797L	IFT140_uc002clz.2_Silent_p.L448L	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	797	TPR 1.									ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				ACCTTTTGATGAGCTTGATGG	0.547													22	333	---	---	---	---	PASS	T	1607944	T	T	1607944	2	4	152	1	0	0	0	0	0	0	0	1	7556	1277	45	2		2	IFT140	16	1607944	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	1147641	1607944	88746809	287	54293										
MMP25	64386	broad.mit.edu	37	chr16	3107201	3107201	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	atgaccgcgatggcctgcagCaactctatggtagggggaga	15	9	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:3107201C>T	uc002cth.2	+	5	1066	c.829C>T	c.(829-831)CAA>TAA	p.Q277*	uc002ctj.1_Intron	NM_022468	NP_071913	Q9NPA2	MMP25_HUMAN	matrix metalloproteinase 25 preproprotein	277					inflammatory response|proteolysis	anchored to membrane|cell surface|plasma membrane|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0						TGGCCTGCAGCAACTCTATGG	0.622													16	153	---	---	---	---	PASS	T	3107201	T	T	3107201	4	4	152	1	0	0	0	0	0	1	0	0	9662	711	25	3	847	3	MMP25	16	3107201	Nonsense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	1499257	3107201	87247552	288	54294										
ACSM3	6296	broad.mit.edu	37	chr16	20788733	20788733	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gaaccactcagctgacccagAaagacattctctacagacta	6	13	2	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:20788733A>G	uc002dhr.2	+	4	656	c.469A>G	c.(469-471)AAA>GAA	p.K157E	ACSM3_uc002dhq.2_Missense_Mutation_p.K157E|ACSM3_uc010vba.1_Missense_Mutation_p.K149E	NM_005622	NP_005613	Q53FZ2	ACSM3_HUMAN	SA hypertension-associated homolog isoform 1	157					regulation of blood pressure	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			ovary(1)	1						GCTGACCCAGAAAGACATTCT	0.388													15	189	---	---	---	---	PASS	G	20788733	G	G	20788733	3	3	152	1	0	0	0	0	1	0	0	0	185	247	9	5	479	5	ACSM3	16	20788733	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	17681532	20788733	69566020	289	54295										
OTOA	146183	broad.mit.edu	37	chr16	21721274	21721274	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aatgagaccctgggttctttGtcggatgcagttgtaggttt	13	6	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:21721274G>A	uc002djh.2	+	12	1171	c.1170G>A	c.(1168-1170)TTG>TTA	p.L390L	uc002diq.3_Intron|OTOA_uc010vbj.1_Silent_p.L311L|OTOA_uc002dji.2_Silent_p.L66L|OTOA_uc010vbk.1_Silent_p.L38L	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	404					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		TGGGTTCTTTGTCGGATGCAG	0.547													9	93	---	---	---	---	PASS	A	21721274	A	A	21721274	2	1	152	1	0	0	0	0	0	0	0	1	11302	1368	48	3		3	OTOA	16	21721274	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	932541	21721274	68633479	290	54296										
ZKSCAN2	342357	broad.mit.edu	37	chr16	25255279	25255279	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caataccccctctttcttgcCttgaaggtgatgggacttcc	8	13	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:25255279C>A	uc002dod.3	-	6	2215	c.1808G>T	c.(1807-1809)AGG>ATG	p.R603M	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.R399M	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	603					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		TCTTTCTTGCCTTGAAGGTGA	0.542													84	193	---	---	---	---	PASS	A	25255279	A	A	25255279	3	1	152	1	0	0	0	0	1	0	0	0	17684	681	24	3	1103	3	ZKSCAN2	16	25255279	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	3534005	25255279	65099474	291	54297										
HS3ST4	9951	broad.mit.edu	37	chr16	26147076	26147076	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggtgagaaaccccgtgaccaGggccatctctgactacacgc	11	14	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:26147076G>C	uc002dof.2	+	2	1270	c.878G>C	c.(877-879)AGG>ACG	p.R293T		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	293	Lumenal (Potential).|PAPS and substrate (By similarity).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		CCCGTGACCAGGGCCATCTCT	0.527													71	171	---	---	---	---	PASS	C	26147076	C	C	26147076	3	2	152	1	0	0	0	0	1	0	0	0	7367	1000	35	4	884	4	HS3ST4	16	26147076	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	891797	26147076	64207677	292	54298										
ITGAD	3681	broad.mit.edu	37	chr16	31419188	31419188	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aaggtggacaactttgcagcCcttggcagcatccagaagca	11	11	0	1	rs145577588		TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:31419188C>T	uc002ebv.1	+	9	1009	c.960C>T	c.(958-960)GCC>GCT	p.A320A	ITGAD_uc010vfl.1_Missense_Mutation_p.P353S|ITGAD_uc010cap.1_Silent_p.A320A|ITGAD_uc002ebw.1_Missense_Mutation_p.P164S	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	320	Extracellular (Potential).|VWFA.				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						ACTTTGCAGCCCTTGGCAGCA	0.587													12	111	---	---	---	---	PASS	T	31419188	T	T	31419188	2	4	152	1	0	0	0	0	0	0	0	1	7884	610	22	3		3	ITGAD	16	31419188	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	5272112	31419188	58935565	293	54299										
ARMC5	79798	broad.mit.edu	37	chr16	31473727	31473727	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gtgggggattgggcccactcGtcagcctggcttcccacccc	13	16	1	0	rs118073437	by1000genomes	TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:31473727G>T	uc002ecc.2	+	3	1388	c.859G>T	c.(859-861)GTC>TTC	p.V287F	ARMC5_uc010vfn.1_Missense_Mutation_p.V382F|ARMC5_uc010vfo.1_Missense_Mutation_p.V319F|ARMC5_uc002eca.3_Missense_Mutation_p.V287F|ARMC5_uc010vfp.1_Intron|ARMC5_uc002ecb.2_Missense_Mutation_p.V287F	NM_001105247	NP_001098717	Q96C12	ARMC5_HUMAN	armadillo repeat containing 5 isoform a	287	ARM 4.						binding			pancreas(1)	1						GGGCCCACTCGTCAGCCTGGC	0.652													20	61	---	---	---	---	PASS	T	31473727	T	T	31473727	3	4	152	1	0	0	0	0	1	0	0	0	954	1145	40	1	869	1	ARMC5	16	31473727	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	54539	31473727	58881026	294	54300										
ITFG1	81533	broad.mit.edu	37	chr16	47494854	47494854	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gagctcggccgtgacgttgtGcagcgcccgcgctgggaccg	17	14	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:47494854G>A	uc002eet.2	-	1	165	c.103C>T	c.(103-105)CAC>TAC	p.H35Y	ITFG1_uc010vgh.1_Intron|PHKB_uc010vgi.1_5'Flank|PHKB_uc002eeu.3_5'Flank|PHKB_uc002eev.3_5'Flank|ITFG1_uc010cbf.1_5'Flank	NM_030790	NP_110417	Q8TB96	TIP_HUMAN	integrin alpha FG-GAP repeat containing 1	35						extracellular region|integral to membrane				ovary(1)|central_nervous_system(1)	2		all_cancers(37;0.0613)|all_lung(18;0.0543)|Lung NSC(13;0.227)				GTGACGTTGTGCAGCGCCCGC	0.716													6	25	---	---	---	---	PASS	A	47494854	A	A	47494854	3	1	152	1	0	0	0	0	1	0	0	0	7869	1319	46	3	1807	3	ITFG1	16	47494854	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	16021127	47494854	42859899	295	54301										
ABCC12	94160	broad.mit.edu	37	chr16	48158147	48158147	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcctaggagagctgcaaggaGggagctctttccacttccca	11	12	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:48158147G>C	uc002efc.1	-	10	1910	c.1564C>G	c.(1564-1566)CTC>GTC	p.L522V	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.L522V	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	522	ABC transporter 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				GCTGCAAGGAGGGAGCTCTTT	0.507													156	365	---	---	---	---	PASS	C	48158147	C	C	48158147	3	2	152	1	0	0	0	0	1	0	0	0	52	1000	35	4	2595	4	ABCC12	16	48158147	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	663293	48158147	42196606	296	54302										
ADCY7	113	broad.mit.edu	37	chr16	50348274	50348274	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gccctgatgagtaagctggaCggcatcaacaggcactcctt	11	12	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:50348274C>G	uc002egd.1	+	23	3196	c.2928C>G	c.(2926-2928)GAC>GAG	p.D976E		NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	976	Cytoplasmic (Potential).|Guanylate cyclase 2.				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	GTAAGCTGGACGGCATCAACA	0.637													7	61	---	---	---	---	PASS	G	50348274	G	G	50348274	3	3	152	1	0	0	0	0	1	0	0	0	299	535	19	4	3018	4	ADCY7	16	50348274	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	2190127	50348274	40006479	297	54303										
SLC12A3	6559	broad.mit.edu	37	chr16	56917983	56917983	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tggagaccttcattccaataCtacaacaagtgggcggcgct	10	11	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:56917983C>T	uc010ccm.2	+	14	1721	c.1692C>T	c.(1690-1692)TAC>TAT	p.Y564Y	SLC12A3_uc002ekd.3_Silent_p.Y564Y|SLC12A3_uc010ccn.2_Silent_p.Y563Y	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	564	Cytoplasmic (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	CATTCCAATACTACAACAAGT	0.612													8	82	---	---	---	---	PASS	T	56917983	T	T	56917983	2	4	152	1	0	0	0	0	0	0	0	1	14384	576	20	3		3	SLC12A3	16	56917983	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	6569709	56917983	33436770	298	54304										
DDX28	55794	broad.mit.edu	37	chr16	68055731	68055731	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	accagtgctgtccaggccccGagaggctatgtctgtgcaga	13	12	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:68055731G>A	uc002evh.1	-	1	2229	c.1375C>T	c.(1375-1377)CGG>TGG	p.R459W	DUS2L_uc002evi.2_5'Flank|DUS2L_uc002evj.2_5'Flank|DUS2L_uc010vkk.1_5'Flank	NM_018380	NP_060850	Q9NUL7	DDX28_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 28	459	Helicase C-terminal.					mitochondrial nucleoid|nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0116)|Epithelial(162;0.0474)|all cancers(182;0.233)		TCCAGGCCCCGAGAGGCTATG	0.552													12	77	---	---	---	---	PASS	A	68055731	A	A	68055731	3	1	152	1	0	0	0	0	1	0	0	0	4355	1057	37	2	251	2	DDX28	16	68055731	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	11137748	68055731	22299022	299	54305										
DDX28	55794	broad.mit.edu	37	chr16	68056949	68056949	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cggcctcgggaggttccgccGcctgctctgccgctgttcca	13	17	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:68056949G>A	uc002evh.1	-	1	1011	c.157C>T	c.(157-159)CGG>TGG	p.R53W	DUS2L_uc002evi.2_5'Flank|DUS2L_uc002evj.2_5'Flank|DUS2L_uc010vkk.1_5'Flank	NM_018380	NP_060850	Q9NUL7	DDX28_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 28	53						mitochondrial nucleoid|nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0116)|Epithelial(162;0.0474)|all cancers(182;0.233)		AGGTTCCGCCGCCTGCTCTGC	0.731													6	15	---	---	---	---	PASS	A	68056949	A	A	68056949	3	1	152	1	0	0	0	0	1	0	0	0	4355	1086	38	1	1469	1	DDX28	16	68056949	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	1218	68056949	22297804	300	54306										
MARVELD3	91862	broad.mit.edu	37	chr16	71663316	71663316	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cctcgacccccaggcctggaCgagaggaggtggaatattac	13	12	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:71663316C>A	uc002fat.2	+	2	577	c.514C>A	c.(514-516)CGA>AGA	p.R172R	MARVELD3_uc002fas.1_Silent_p.R172R|MARVELD3_uc002fau.2_Silent_p.R172R|MARVELD3_uc010cge.2_Missense_Mutation_p.D117E	NM_052858	NP_443090	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 2	172	Cytoplasmic (Potential).					integral to membrane				skin(1)	1		Ovarian(137;0.125)				CAGGCCTGGACGAGAGGAGGT	0.517													16	104	---	---	---	---	PASS	A	71663316	A	A	71663316	2	1	152	1	0	0	0	0	0	0	0	1	9319	528	19	1		1	MARVELD3	16	71663316	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	3606367	71663316	18691437	301	54307										
ZC3H18	124245	broad.mit.edu	37	chr16	88643785	88643785	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccaagaccaggactcagaggTgaatgagctgagccggggcc	15	11	1	5			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:88643785T>A	uc002fky.2	+	2	454	c.254T>A	c.(253-255)GTG>GAG	p.V85E	ZC3H18_uc010voy.1_Splice_Site_p.E84_splice|ZC3H18_uc010voz.1_Missense_Mutation_p.V85E|ZC3H18_uc010vpa.1_Missense_Mutation_p.V85E	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	85						nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		GACTCAGAGGTGAATGAGCTG	0.632													5	30	---	---	---	---	PASS	A	88643785	A	A	88643785	3	1	152	1	0	0	0	0	1	0	0	0	17565	1696	59	5	256	5	ZC3H18	16	88643785	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	16980469	88643785	1710968	302	54308										
ZNF276	92822	broad.mit.edu	37	chr16	89799888	89799888	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccatgcatgctcttcattgcAgggaggagcttcccaccatc	9	14	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr16:89799888A>T	uc002fos.3	+	8	1378	c.1281_splice	c.e8-2	p.R427_splice	ZNF276_uc010ciq.2_Splice_Site_p.R213_splice|ZNF276_uc002fop.2_Splice_Site_p.R335_splice|ZNF276_uc002foq.3_Splice_Site_p.R352_splice|ZNF276_uc010cir.2_Splice_Site|ZNF276_uc002for.3_Splice_Site_p.R213_splice|ZNF276_uc010cis.2_Splice_Site_p.R186_splice|ZNF276_uc002fot.3_Splice_Site|ZNF276_uc010vpm.1_Splice_Site_p.R265_splice|ZNF276_uc010cit.1_Splice_Site_p.R186_splice	NM_001113525	NP_001106997	Q8N554	ZN276_HUMAN	zinc finger protein 276 isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0278)		TCTTCATTGCAGGGAGGAGCT	0.627													15	130	---	---	---	---	PASS	T	89799888	T	T	89799888	5	4	152	1	0	0	0	0	0	0	1	0	17808	202	7	5	1309	5	ZNF276	16	89799888	Splice_Site	SNP	A	TCGA-66-2767-01A-01D-1522-08	1156103	89799888	554865	303	54309										
SMG6	23293	broad.mit.edu	37	chr17	2202478	2202478	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tactgtagagggttatagccCgtatagggatactgggaggc	15	6	0	1	rs147802850	byFrequency	TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:2202478C>T	uc002fub.1	-	2	1624	c.1569G>A	c.(1567-1569)ACG>ACA	p.T523T	SMG6_uc002fud.1_Silent_p.T492T	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	523					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						GGTTATAGCCCGTATAGGGAT	0.537													6	399	---	---	---	---	PASS	T	2202478	T	T	2202478	2	4	152	1	0	0	0	0	0	0	0	1	14797	639	23	1		1	SMG6	17	2202478	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08		2202478	78992732	304	54310										
ZZEF1	23140	broad.mit.edu	37	chr17	3919650	3919650	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttgttgttatacgggtgtttCgactccctcacttgcacctc	8	12	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:3919650C>A	uc002fxe.2	-	49	8176	c.8112G>T	c.(8110-8112)TCG>TCT	p.S2704S	ZZEF1_uc002fxg.1_Silent_p.S25S	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	2704							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						ACGGGTGTTTCGACTCCCTCA	0.612													46	148	---	---	---	---	PASS	A	3919650	A	A	3919650	2	1	152	1	0	0	0	0	0	0	0	1	18252	871	31	2		2	ZZEF1	17	3919650	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	1717172	3919650	77275560	305	54311										
TP53	7157	broad.mit.edu	37	chr17	7577156	7577156	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tccgtcccagtagattaccaCtactcaggataggaaaagag	9	10	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:7577156C>A	uc002gim.2	-	8	977	c.783_splice	c.e8-1	p.S261_splice	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Splice_Site_p.S261_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Splice_Site_p.S129_splice|TP53_uc010cng.1_Splice_Site_p.S129_splice|TP53_uc002gii.1_Splice_Site_p.S129_splice|TP53_uc010cnh.1_Splice_Site_p.S261_splice|TP53_uc010cni.1_Splice_Site_p.S261_splice|TP53_uc002gij.2_Splice_Site_p.S261_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						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.?(18)|p.0?(7)|p.E258fs*71(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)		TAGATTACCACTACTCAGGAT	0.512		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)			7	33	---	---	---	---	PASS	A	7577156	A	A	7577156	5	1	152	1	0	0	0	0	0	0	1	0	16378	579	20	3	504	3	TP53	17	7577156	Splice_Site	SNP	C	TCGA-66-2767-01A-01D-1522-08	3657506	7577156	73618054	306	54312										
DHRS7C	201140	broad.mit.edu	37	chr17	9676195	9676195	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gtattcctccacttcggctcGgaggcagtcaaagaagccca	10	13	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:9676195G>A	uc010vvb.1	-	5	619	c.619C>T	c.(619-621)CGA>TGA	p.R207*	DHRS7C_uc010cof.2_Nonsense_Mutation_p.R206*	NM_001105571	NP_001099041	A6NNS2	DRS7C_HUMAN	dehydrogenase/reductase (SDR family) member 7C	207						extracellular region	binding|oxidoreductase activity				0						ACTTCGGCTCGGAGGCAGTCA	0.602													5	36	---	---	---	---	PASS	A	9676195	A	A	9676195	4	1	152	1	0	0	0	0	0	1	0	0	4497	1124	39	1	327	1	DHRS7C	17	9676195	Nonsense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	2099039	9676195	71519015	307	54313										
MYO15A	51168	broad.mit.edu	37	chr17	18023488	18023488	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctgcccagcgccgccttcttCgagcagcaaggcatggataa	11	14	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:18023488C>G	uc010vxh.1	+	2	1712	c.1374C>G	c.(1372-1374)TTC>TTG	p.F458L		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	458	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCGCCTTCTTCGAGCAGCAAG	0.642													4	51	---	---	---	---	PASS	G	18023488	G	G	18023488	3	3	152	1	0	0	0	0	1	0	0	0	10063	883	31	2	1376	2	MYO15A	17	18023488	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	8347293	18023488	63171722	308	54314										
KCNJ12	3768	broad.mit.edu	37	chr17	21319268	21319268	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caacgccgtggtggccctgcGtgacggcaagctctgcctca	13	15	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:21319268G>A	uc002gyv.1	+	3	1319	c.614G>A	c.(613-615)CGT>CAT	p.R205H		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	205	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GTGGCCCTGCGTGACGGCAAG	0.622										Prostate(3;0.18)			11	48	---	---	---	---	PASS	A	21319268	A	A	21319268	3	1	152	1	0	0	0	0	1	0	0	0	8046	1145	40	1	616	1	KCNJ12	17	21319268	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	3295780	21319268	59875942	309	54315										
GOSR1	9527	broad.mit.edu	37	chr17	28819754	28819754	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	actgagctatttttgaaagaAcatgaccaccttcgaaagta	7	8	0	4			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:28819754A>T	uc002hfe.2	+	6	524	c.498A>T	c.(496-498)GAA>GAT	p.E166D	GOSR1_uc002hfd.2_Missense_Mutation_p.E164D|GOSR1_uc002hff.2_Missense_Mutation_p.E101D	NM_004871	NP_004862	O95249	GOSR1_HUMAN	golgi SNAP receptor complex member 1 isoform 1	166	Cytoplasmic (Potential).				intra-Golgi vesicle-mediated transport|protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|SNARE complex	SNAP receptor activity				0						TTTTGAAAGAACATGACCACC	0.318													30	134	---	---	---	---	PASS	T	28819754	T	T	28819754	3	4	152	1	0	0	0	0	1	0	0	0	6577	40	2	5	520	5	GOSR1	17	28819754	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	7500486	28819754	52375456	310	54316										
SYNRG	11276	broad.mit.edu	37	chr17	35898443	35898443	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tacctaataaatattccatgCcttgagctgactgaattact	5	9	0	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:35898443C>T	uc002hoa.2	-	18	3583	c.3500G>A	c.(3499-3501)GGC>GAC	p.G1167D	SYNRG_uc010wde.1_Missense_Mutation_p.G1089D|SYNRG_uc010wdf.1_Missense_Mutation_p.G1089D|SYNRG_uc002hoc.2_Missense_Mutation_p.G1088D|SYNRG_uc002hoe.2_Missense_Mutation_p.G1089D|SYNRG_uc002hod.2_Missense_Mutation_p.G1044D|SYNRG_uc010wdg.1_Missense_Mutation_p.G961D|SYNRG_uc002hob.2_Missense_Mutation_p.G1167D	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	1167					endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						ATATTCCATGCCTTGAGCTGA	0.308													69	350	---	---	---	---	PASS	T	35898443	T	T	35898443	3	4	152	1	0	0	0	0	1	0	0	0	15457	739	26	3	537	3	SYNRG	17	35898443	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	7078689	35898443	45296767	311	54317										
DNAJC7	7266	broad.mit.edu	37	chr17	40135656	40135656	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctgttctgtgtccatgtaacTgagaaggaaatacaaggcaa	10	7	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:40135656T>C	uc002hyo.2	-	10	1248	c.1011_splice	c.e10-1	p.C337_splice	DNAJC7_uc010cxu.2_Splice_Site_p.C281_splice|DNAJC7_uc010cxv.2_Intron|DNAJC7_uc010wgb.1_Splice_Site_p.C281_splice|DNAJC7_uc010wgc.1_Splice_Site_p.C195_splice|DNAJC7_uc002hyp.2_Splice_Site_p.C281_splice	NM_003315	NP_003306	Q99615	DNJC7_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 7						chaperone cofactor-dependent protein refolding	cytoplasm|cytoskeleton|nucleus	heat shock protein binding|unfolded protein binding			ovary(1)	1		all_cancers(22;0.00273)|Breast(137;0.00104)|all_epithelial(22;0.0305)				TCCATGTAACTGAGAAGGAAA	0.393													6	15	---	---	---	---	PASS	C	40135656	C	C	40135656	5	2	152	1	0	0	0	0	0	0	1	0	4654	1594	55	5	495	5	DNAJC7	17	40135656	Splice_Site	SNP	T	TCGA-66-2767-01A-01D-1522-08	4237213	40135656	41059554	312	54318										
RPRML	388394	broad.mit.edu	37	chr17	45056142	45056142	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gacgccgaagaccacggtaaGcgacagcacgcagagcacgg	14	13	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:45056142G>A	uc002ilb.2	-	1	473	c.232C>T	c.(232-234)CTT>TTT	p.L78F	GOSR2_uc010wkh.1_Intron	NM_203400	NP_981945	Q8N4K4	RPRML_HUMAN	reprimo-like	78	Helical; (Potential).					integral to membrane					0						ACCACGGTAAGCGACAGCACG	0.682													5	34	---	---	---	---	PASS	A	45056142	A	A	45056142	3	1	152	1	0	0	0	0	1	0	0	0	13619	971	34	3	134	3	RPRML	17	45056142	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	4920486	45056142	36139068	313	54319										
OSBPL7	114881	broad.mit.edu	37	chr17	45895919	45895919	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gccacggggcatgtccaggcGgtgggctaggcggtgggcac	20	11	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:45895919G>A	uc002ilx.1	-	6	636	c.433C>T	c.(433-435)CGC>TGC	p.R145C	OSBPL7_uc002ilw.1_5'Flank	NM_145798	NP_665741	Q9BZF2	OSBL7_HUMAN	oxysterol-binding protein-like protein 7	145					lipid transport		lipid binding				0						ATGTCCAGGCGGTGGGCTAGG	0.627													8	69	---	---	---	---	PASS	A	45895919	A	A	45895919	3	1	152	1	0	0	0	0	1	0	0	0	11282	1116	39	1	2167	1	OSBPL7	17	45895919	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	839777	45895919	35299291	314	54320										
KIF2B	84643	broad.mit.edu	37	chr17	51902007	51902007	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caacactttaagatatgcaaAcagagtaaaaaaattaaatg	5	5	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:51902007A>T	uc002iua.2	+	1	1769	c.1613A>T	c.(1612-1614)AAC>ATC	p.N538I	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	538					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						AGATATGCAAACAGAGTAAAA	0.428													26	121	---	---	---	---	PASS	T	51902007	T	T	51902007	3	4	152	1	0	0	0	0	1	0	0	0	8298	43	2	5	1615	5	KIF2B	17	51902007	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	6006088	51902007	29293203	315	54321										
VEZF1	7716	broad.mit.edu	37	chr17	56060750	56060750	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gttggtgatgggaagcttcaTgggcctaaaaccaaacattt	11	7	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:56060750T>C	uc002ivf.1	-	2	181	c.38A>G	c.(37-39)CAT>CGT	p.H13R	VEZF1_uc010dcn.1_5'UTR	NM_007146	NP_009077	Q14119	VEZF1_HUMAN	zinc finger protein 161	13					cellular defense response|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						GGAAGCTTCATGGGCCTAAAA	0.493													46	148	---	---	---	---	PASS	C	56060750	C	C	56060750	3	2	152	1	0	0	0	0	1	0	0	0	17152	1464	51	5	1547	5	VEZF1	17	56060750	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	4158743	56060750	25134460	316	54322										
OR4D1	26689	broad.mit.edu	37	chr17	56232691	56232691	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgccggctccacacacccatGtattttctgctccgaaatct	6	15	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:56232691G>A	uc010wno.1	+	1	177	c.177G>A	c.(175-177)ATG>ATA	p.M59I	MSX2P1_uc002ivn.2_5'Flank	NM_012374	NP_036506	Q15615	OR4D1_HUMAN	olfactory receptor, family 4, subfamily D,	59	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACACACCCATGTATTTTCTGC	0.478													16	515	---	---	---	---	PASS	A	56232691	A	A	56232691	3	1	152	1	0	0	0	0	1	0	0	0	11053	1377	48	3	179	3	OR4D1	17	56232691	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	171941	56232691	24962519	317	54323										
ABCA9	10350	broad.mit.edu	37	chr17	67047206	67047206	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttttcattctccattttttgAgacagttcttgcagagaaga	7	7	3	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:67047206A>T	uc002jhu.2	-	2	205	c.62T>A	c.(61-63)CTC>CAC	p.L21H	ABCA9_uc010dez.2_Missense_Mutation_p.L21H|ABCA9_uc002jhv.2_Missense_Mutation_p.L21H	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	21					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					CCATTTTTTGAGACAGTTCTT	0.373													12	110	---	---	---	---	PASS	T	67047206	T	T	67047206	3	4	152	1	0	0	0	0	1	0	0	0	39	304	11	5	4964	5	ABCA9	17	67047206	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	10814515	67047206	14148004	318	54324										
C17orf70	80233	broad.mit.edu	37	chr17	79514179	79514179	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agcatgtccactgtgtgcctGctcaggggcaggcaaacacc	12	13	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr17:79514179G>A	uc002kaq.2	-	5	1984	c.1929C>T	c.(1927-1929)AGC>AGT	p.S643S	C17orf70_uc002kao.1_Silent_p.S292S|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Silent_p.S492S	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	643					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			CTGTGTGCCTGCTCAGGGGCA	0.692													27	109	---	---	---	---	PASS	A	79514179	A	A	79514179	2	1	152	1	0	0	0	0	0	0	0	1	1877	1310	46	3		3	C17orf70	17	79514179	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	12466973	79514179	1681031	319	54325										
LPIN2	9663	broad.mit.edu	37	chr18	2960765	2960765	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caatgcacccagagagggtgGcctggttaatgcccttgtag	13	10	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr18:2960765G>T	uc002klo.2	-	2	313	c.74C>A	c.(73-75)GCC>GAC	p.A25D		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	25	N-LIP.				fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		AGAGAGGGTGGCCTGGTTAAT	0.488													29	81	---	---	---	---	PASS	T	2960765	T	T	2960765	3	4	152	1	0	0	0	0	1	0	0	0	8919	1203	42	3	2692	3	LPIN2	18	2960765	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08		2960765	75116483	320	54326										
APCDD1	147495	broad.mit.edu	37	chr18	10471799	10471799	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gcaggtgaaccgcacatgccCgggcttcctcgcagacgggg	15	14	0	2	rs143954637		TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr18:10471799C>T	uc002kom.3	+	3	869	c.515C>T	c.(514-516)CCG>CTG	p.P172L		NM_153000	NP_694545	Q8J025	APCD1_HUMAN	adenomatosis polyposis coli down-regulated 1	172	Extracellular (Potential).				hair follicle development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to plasma membrane	Wnt-protein binding				0				READ - Rectum adenocarcinoma(15;0.08)		CGCACATGCCCGGGCTTCCTC	0.657													17	189	---	---	---	---	PASS	T	10471799	T	T	10471799	3	4	152	1	0	0	0	0	1	0	0	0	765	652	23	1	525	1	APCDD1	18	10471799	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	7511034	10471799	67605449	321	54327										
DSEL	92126	broad.mit.edu	37	chr18	65181205	65181205	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gaagctgtttgccccatgagCggaccttggaatactcgtac	11	11	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr18:65181205C>G	uc002lke.1	-	2	1895	c.671G>C	c.(670-672)CGC>CCC	p.R224P		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	214						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				GCCCCATGAGCGGACCTTGGA	0.383													17	187	---	---	---	---	PASS	G	65181205	G	G	65181205	3	3	152	1	0	0	0	0	1	0	0	0	4775	768	27	4	3001	4	DSEL	18	65181205	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	54709406	65181205	12896043	322	54328										
ATP9B	374868	broad.mit.edu	37	chr18	76936834	76936834	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttcgtgttttattcgaactgAtcaactagatggtgaaactg	9	6	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr18:76936834A>T	uc002lmx.2	+	8	814	c.800A>T	c.(799-801)GAT>GTT	p.D267V	ATP9B_uc002lmv.1_Intron|ATP9B_uc002lmw.1_Missense_Mutation_p.D267V|ATP9B_uc002lmy.1_Intron|ATP9B_uc002lmz.1_5'UTR	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	267	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		ATTCGAACTGATCAACTAGAT	0.468													29	136	---	---	---	---	PASS	T	76936834	T	T	76936834	3	4	152	1	0	0	0	0	1	0	0	0	1199	333	12	5	830	5	ATP9B	18	76936834	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	11755629	76936834	1140414	323	54329										
PQLC1	80148	broad.mit.edu	37	chr18	77710832	77710832	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cccgatactgcgggacgtagGgcaccacccctccgaagacc	11	17	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr18:77710832G>A	uc002lnl.2	-	2	267	c.95C>T	c.(94-96)CCC>CTC	p.P32L	PQLC1_uc010dre.2_5'UTR|PQLC1_uc002lnk.2_Missense_Mutation_p.P32L|PQLC1_uc010xfm.1_Missense_Mutation_p.P32L	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	32	PQ-loop 1.					integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		CGGGACGTAGGGCACCACCCC	0.667													5	23	---	---	---	---	PASS	A	77710832	A	A	77710832	3	1	152	1	0	0	0	0	1	0	0	0	12418	1232	43	3	740	3	PQLC1	18	77710832	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	773998	77710832	366416	324	54330										
EIF3G	8666	broad.mit.edu	37	chr19	10226670	10226670	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gttgggctgcatggactcccCgcggcggctggccccgtcgc	16	16	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:10226670C>T	uc002mnd.2	-	8	740	c.676G>A	c.(676-678)GGG>AGG	p.G226R		NM_003755	NP_003746	O75821	EIF3G_HUMAN	eukaryotic translation initiation factor 3,	226						cytosol|eukaryotic translation initiation factor 3 complex|nucleus|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0			OV - Ovarian serous cystadenocarcinoma(20;3.53e-09)|Epithelial(33;4.91e-06)|all cancers(31;1.1e-05)			ATGGACTCCCCGCGGCGGCTG	0.677													12	10	---	---	---	---	PASS	T	10226670	T	T	10226670	3	4	152	1	0	0	0	0	1	0	0	0	5017	652	23	1	302	1	EIF3G	19	10226670	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08		10226670	48902313	325	54331										
RAVER1	125950	broad.mit.edu	37	chr19	10439520	10439520	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccgacttggcacgggcagccGagtccttcttcatgtactca	10	14	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:10439520G>A	uc002moa.2	-	3	685	c.605C>T	c.(604-606)TCG>TTG	p.S202L		NM_133452	NP_597709	Q8IY67	RAVR1_HUMAN	RAVER1	185	RRM 2.					cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.81e-09)|Epithelial(33;3.65e-06)|all cancers(31;8.35e-06)			ACGGGCAGCCGAGTCCTTCTT	0.642													13	19	---	---	---	---	PASS	A	10439520	A	A	10439520	3	1	152	1	0	0	0	0	1	0	0	0	13094	1059	37	2	1709	2	RAVER1	19	10439520	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	212850	10439520	48689463	326	54332										
ATG4D	84971	broad.mit.edu	37	chr19	10657905	10657905	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccgacgtcacccgcctggtgGtgtacgtttctcaggactgc	12	14	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:10657905G>C	uc002mov.2	+	5	931	c.811G>C	c.(811-813)GTG>CTG	p.V271L	ATG4D_uc010xlh.1_Missense_Mutation_p.V208L|ATG4D_uc010dxh.2_RNA|ATG4D_uc010dxi.2_RNA|ATG4D_uc010dxj.2_Intron	NM_032885	NP_116274	Q86TL0	ATG4D_HUMAN	APG4 autophagy 4 homolog D	271					autophagy|protein transport	cytoplasm	cysteine-type endopeptidase activity				0			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			CCGCCTGGTGGTGTACGTTTC	0.627													9	24	---	---	---	---	PASS	C	10657905	C	C	10657905	3	2	152	1	0	0	0	0	1	0	0	0	1099	1261	44	4	829	4	ATG4D	19	10657905	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	218385	10657905	48471078	327	54333										
ZNF791	163049	broad.mit.edu	37	chr19	12738992	12738992	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	acactggagaaaagccctatGaatgtaaacaatgtgggaaa	10	6	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:12738992G>A	uc002mua.2	+	4	811	c.649G>A	c.(649-651)GAA>AAA	p.E217K	ZNF791_uc010xml.1_Missense_Mutation_p.E185K|ZNF791_uc010dyu.1_Missense_Mutation_p.E108K|ZNF791_uc010xmm.1_Missense_Mutation_p.E108K	NM_153358	NP_699189	Q3KP31	ZN791_HUMAN	zinc finger protein 791	217	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						AAAGCCCTATGAATGTAAACA	0.418													17	94	---	---	---	---	PASS	A	12738992	A	A	12738992	3	1	152	1	0	0	0	0	1	0	0	0	18160	1291	45	2	663	2	ZNF791	19	12738992	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	2081087	12738992	46389991	328	54334										
CYP4F12	66002	broad.mit.edu	37	chr19	15807890	15807890	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agcccctgaatgtaagcttgCagtgactttctgacccatcc	8	13	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:15807890C>A	uc002nbl.2	+	13	1631	c.1570C>A	c.(1570-1572)CAG>AAG	p.Q524K		NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					TGTAAGCTTGCAGTGACTTTC	0.577													26	68	---	---	---	---	PASS	A	15807890	A	A	15807890	3	1	152	1	0	0	0	0	1	0	0	0	4187	711	25	3	1616	3	CYP4F12	19	15807890	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	3068898	15807890	43321093	329	54335										
CYP4F11	57834	broad.mit.edu	37	chr19	16032946	16032946	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttgcaaggtggtataggaccCaggagagaccactggctgta	14	8	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:16032946C>T	uc002nbu.2	-	9	1052	c.1016G>A	c.(1015-1017)TGG>TAG	p.W339*	CYP4F11_uc010eab.1_Nonsense_Mutation_p.W339*|CYP4F11_uc002nbt.2_Nonsense_Mutation_p.W339*	NM_001128932	NP_001122404	Q9HBI6	CP4FB_HUMAN	cytochrome P450 family 4 subfamily F polypeptide	339					inflammatory response|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)	1						GTATAGGACCCAGGAGAGACC	0.542													9	141	---	---	---	---	PASS	T	16032946	T	T	16032946	4	4	152	1	0	0	0	0	0	1	0	0	4186	595	21	3	578	3	CYP4F11	19	16032946	Nonsense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	225056	16032946	43096037	330	54336										
MAP1S	55201	broad.mit.edu	37	chr19	17835951	17835951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gggagctgctgctacagacaGggggcttctcgcctcaccac	13	14	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:17835951G>T	uc002nhe.1	+	4	406	c.397G>T	c.(397-399)GGG>TGG	p.G133W	MAP1S_uc010eaz.1_RNA|MAP1S_uc010eba.1_Missense_Mutation_p.G133W|MAP1S_uc002nhf.1_Intron|MAP1S_uc010xpv.1_Missense_Mutation_p.G107W	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	133	Necessary for the microtubule-organizing center localization.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						GCTACAGACAGGGGGCTTCTC	0.622													55	110	---	---	---	---	PASS	T	17835951	T	T	17835951	3	4	152	1	0	0	0	0	1	0	0	0	9234	1000	35	3	411	3	MAP1S	19	17835951	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	1803005	17835951	41293032	331	54337										
ZNF431	170959	broad.mit.edu	37	chr19	21366765	21366765	+	Frame_Shift_Del	DEL	A	-	-													0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aatacatttaaccagtcctcAaaccttattaaacaaaataa							TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:21366765delA	uc002npp.2	+	5	1806	c.1659delA	c.(1657-1659)TCAfs	p.S553fs	ZNF431_uc010ecq.2_Frame_Shift_Del_p.S462fs|ZNF431_uc010ecr.2_Frame_Shift_Del_p.S554fs	NM_133473	NP_597730	Q8TF32	ZN431_HUMAN	zinc finger protein 431	553					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2						ACCAGTCCTCAAACCTTATTA	0.343													75	41	---	---	---	---		-	21366765	-	-	21366765	7	5	152	1	0	1	0	1	0	0	0	0	17902	117	5	0	1677	0	ZNF431	19	21366765	Frame_Shift_Del	DEL	A	TCGA-66-2767-01A-01D-1522-08	3530814	21366765	37762218	332	54338										
ZNF708	7562	broad.mit.edu	37	chr19	21477059	21477059	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cttatgtctagtaagagttgAggactggttaaaagcttttc	10	5	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:21477059A>T	uc002npq.1	-	4	907	c.709T>A	c.(709-711)TCA>ACA	p.S237T	ZNF708_uc002npr.1_Missense_Mutation_p.S173T|ZNF708_uc010ecs.1_Missense_Mutation_p.S173T	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	237	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						GTAAGAGTTGAGGACTGGTTA	0.353													28	71	---	---	---	---	PASS	T	21477059	T	T	21477059	3	4	152	1	0	0	0	0	1	0	0	0	18109	304	11	5	986	5	ZNF708	19	21477059	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	110294	21477059	37651924	333	54339										
ZNF676	163223	broad.mit.edu	37	chr19	22375845	22375845	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttcttccaccatctcatgtcTcttcatattccagggctctt	4	14	5	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:22375845T>G	uc002nqs.1	-	2	421	c.103A>C	c.(103-105)AGA>CGA	p.R35R		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	35	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				ATCTCATGTCTCTTCATATTC	0.413													45	102	---	---	---	---	PASS	G	22375845	G	G	22375845	2	3	152	1	0	0	0	0	0	0	0	1	18080	1559	54	5		5	ZNF676	19	22375845	Silent	SNP	T	TCGA-66-2767-01A-01D-1522-08	898786	22375845	36753138	334	54340										
ZNF536	9745	broad.mit.edu	37	chr19	30934746	30934746	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	accagctgggccgggaggtgGacaccagcctcaacgggagg	17	12	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:30934746G>C	uc002nsu.1	+	2	415	c.277G>C	c.(277-279)GAC>CAC	p.D93H	ZNF536_uc010edd.1_Missense_Mutation_p.D93H	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	93					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CCGGGAGGTGGACACCAGCCT	0.667													7	25	---	---	---	---	PASS	C	30934746	C	C	30934746	3	2	152	1	0	0	0	0	1	0	0	0	17971	1174	41	2	279	2	ZNF536	19	30934746	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	8558901	30934746	28194237	335	54341										
GPI	2821	broad.mit.edu	37	chr19	34887209	34887209	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttctgttccttttccagggcGacatggagtccaatgggaaa	11	9	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:34887209G>A	uc002nvg.1	+	13	1169	c.1066G>A	c.(1066-1068)GAC>AAC	p.D356N	GPI_uc002nvf.2_Missense_Mutation_p.D395N|GPI_uc010xrv.1_Missense_Mutation_p.D367N|GPI_uc010xrw.1_Missense_Mutation_p.D328N|GPI_uc010edl.1_Missense_Mutation_p.D356N|GPI_uc002nvi.1_Missense_Mutation_p.D19N	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	356					angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					TTTCCAGGGCGACATGGAGTC	0.393													52	239	---	---	---	---	PASS	A	34887209	A	A	34887209	3	1	152	1	0	0	0	0	1	0	0	0	6611	1058	37	2	1237	2	GPI	19	34887209	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	3952463	34887209	24241774	336	54342										
MLL4	9757	broad.mit.edu	37	chr19	36219920	36219920	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gatccggctgccttctcacaCctggaggacccccgtcagtg	11	16	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:36219920C>A	uc010eei.2	+	22	4722	c.4722C>A	c.(4720-4722)CAC>CAA	p.H1574Q		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1574					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCTTCTCACACCTGGAGGACC	0.602													13	239	---	---	---	---	PASS	A	36219920	A	A	36219920	3	1	152	1	0	0	0	0	1	0	0	0	9623	506	18	3	4804	3	MLL4	19	36219920	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	1332711	36219920	22909063	337	54343										
WDR62	284403	broad.mit.edu	37	chr19	36594257	36594257	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cgttacagctccctgccttaCgagcctggcgtcctgtgtcc	10	16	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:36594257C>T	uc002odc.2	+	30	3603	c.3512C>T	c.(3511-3513)ACG>ATG	p.T1171M	WDR62_uc002odd.2_Missense_Mutation_p.T1176M	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	1171	WD 14.				cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CCCTGCCTTACGAGCCTGGCG	0.642													51	143	---	---	---	---	PASS	T	36594257	T	T	36594257	3	4	152	1	0	0	0	0	1	0	0	0	17310	536	19	1	3645	1	WDR62	19	36594257	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	374337	36594257	22534726	338	54344										
ZNF565	147929	broad.mit.edu	37	chr19	36673707	36673707	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ttacattcatagggtctgtcGccagtatggactctctgatg	10	9	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:36673707G>A	uc002odn.2	-	5	1269	c.1161C>T	c.(1159-1161)GGC>GGT	p.G387G	ZNF565_uc010ees.2_Silent_p.G322G|ZNF565_uc002odo.2_Silent_p.G387G	NM_152477	NP_689690	Q8N9K5	ZN565_HUMAN	zinc finger protein 565	387					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.206)			AGGGTCTGTCGCCAGTATGGA	0.463													27	307	---	---	---	---	PASS	A	36673707	A	A	36673707	2	1	152	1	0	0	0	0	0	0	0	1	17993	1074	38	1		1	ZNF565	19	36673707	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	79450	36673707	22455276	339	54345										
GGN	199720	broad.mit.edu	37	chr19	38877212	38877212	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gactcggaatccgcaggctgGgccatttcgccttcgcccgc	12	16	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:38877212G>A	uc002oij.1	-	3	825	c.690C>T	c.(688-690)GCC>GCT	p.A230A	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Silent_p.A147A	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	230	Interaction with GGNBP1 (By similarity).|Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCGCAGGCTGGGCCATTTCGC	0.677													5	86	---	---	---	---	PASS	A	38877212	A	A	38877212	2	1	152	1	0	0	0	0	0	0	0	1	6358	1219	43	3		3	GGN	19	38877212	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	2203505	38877212	20251771	340	54346										
CYP2A6	1548	broad.mit.edu	37	chr19	41356272	41356272	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctctgctgccaaacagacatCaagaccattacagtcaggca	7	13	3	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:41356272C>G	uc002opl.3	-	1	81	c.60G>C	c.(58-60)TTG>TTC	p.L20F	CYP2A6_uc010ehe.1_5'UTR|CYP2A6_uc010ehf.1_RNA	NM_000762	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A,	20					coumarin catabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|enzyme binding|heme binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Chlorzoxazone(DB00356)|Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Formoterol(DB00983)|Halothane(DB01159)|Letrozole(DB01006)|Methoxsalen(DB00553)|Metyrapone(DB01011)|Nicotine(DB00184)|Pilocarpine(DB01085)|Tolbutamide(DB01124)|Tranylcypromine(DB00752)	AAACAGACATCAAGACCATTA	0.562													10	869	---	---	---	---	PASS	G	41356272	G	G	41356272	3	3	152	1	0	0	0	0	1	0	0	0	4162	825	29	2	1460	2	CYP2A6	19	41356272	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	2479060	41356272	17772711	341	54347										
PSG2	5670	broad.mit.edu	37	chr19	43579569	43579569	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgagttccgtatttcacattCatagggtcctgcagtatact	8	9	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:43579569C>A	uc002ovr.2	-	3	739	c.646G>T	c.(646-648)GAA>TAA	p.E216*	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Nonsense_Mutation_p.E216*|PSG2_uc010eiq.1_Nonsense_Mutation_p.E216*|PSG2_uc002ovs.3_Nonsense_Mutation_p.E216*|PSG2_uc002ovt.3_Nonsense_Mutation_p.E216*	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	216	Ig-like C2-type 1.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				ATTTCACATTCATAGGGTCCT	0.512													191	458	---	---	---	---	PASS	A	43579569	A	A	43579569	4	1	152	1	0	0	0	0	0	1	0	0	12655	835	29	2	373	2	PSG2	19	43579569	Nonsense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	2223297	43579569	15549414	342	54348										
GPR4	2828	broad.mit.edu	37	chr19	46094366	46094366	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aagccgcagtcccaggggcgGcccaggtagatggcgctgcg	17	13	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:46094366G>T	uc002pcm.2	-	2	1704	c.759C>A	c.(757-759)GGC>GGA	p.G253G	OPA3_uc010xxk.1_Intron	NM_005282	NP_005273	P46093	GPR4_HUMAN	G protein-coupled receptor 4	253	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(262;0.0071)|GBM - Glioblastoma multiforme(486;0.128)|Epithelial(262;0.223)		CCCAGGGGCGGCCCAGGTAGA	0.622													38	58	---	---	---	---	PASS	T	46094366	T	T	46094366	2	4	152	1	0	0	0	0	0	0	0	1	6694	1190	42	3		3	GPR4	19	46094366	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	2514797	46094366	13034617	343	54349										
FUT2	2524	broad.mit.edu	37	chr19	49206451	49206451	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggaaccagatgggcgagtacGccacactgtacgccctggcc	13	14	0	1	rs143120145	byFrequency	TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:49206451G>A	uc002pke.3	+	2	349	c.238G>A	c.(238-240)GCC>ACC	p.A80T	FUT2_uc010emc.2_Missense_Mutation_p.A80T	NM_001097638	NP_001091107	Q10981	FUT2_HUMAN	fucosyltransferase 2	80	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	galactoside 2-alpha-L-fucosyltransferase activity			central_nervous_system(1)	1		all_lung(116;4.89e-06)|all_epithelial(76;7.04e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.00011)|all cancers(93;0.000238)|GBM - Glioblastoma multiforme(486;0.0164)|Epithelial(262;0.017)		GGGCGAGTACGCCACACTGTA	0.627													9	46	---	---	---	---	PASS	A	49206451	A	A	49206451	3	1	152	1	0	0	0	0	1	0	0	0	6104	1087	38	1	240	1	FUT2	19	49206451	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	3112085	49206451	9922532	344	54350										
GPR32	2854	broad.mit.edu	37	chr19	51274601	51274601	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aagctcttgcgggagggctgGgtccatgccaaccggcccaa	14	13	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:51274601G>T	uc010ycf.1	+	1	744	c.744G>T	c.(742-744)TGG>TGT	p.W248C		NM_001506	NP_001497	O75388	GPR32_HUMAN	G protein-coupled receptor 32	248	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		GGGAGGGCTGGGTCCATGCCA	0.612													8	119	---	---	---	---	PASS	T	51274601	T	T	51274601	3	4	152	1	0	0	0	0	1	0	0	0	6688	1241	43	3	746	3	GPR32	19	51274601	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	2068150	51274601	7854382	345	54351										
SIGLEC14	100049587	broad.mit.edu	37	chr19	52149112	52149112	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cctgacaggtgaggttggtgCcatggtcctcgggcctgggg	18	10	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:52149112C>G	uc002pxf.3	-	3	743	c.623G>C	c.(622-624)GGC>GCC	p.G208A		NM_001098612	NP_001092082	Q08ET2	SIG14_HUMAN	sialic acid binding Ig-like lectin 14 precursor	208	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane	protein binding|sugar binding			ovary(1)	1		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000965)|OV - Ovarian serous cystadenocarcinoma(262;0.0195)		GAGGTTGGTGCCATGGTCCTC	0.637													25	64	---	---	---	---	PASS	G	52149112	G	G	52149112	3	3	152	1	0	0	0	0	1	0	0	0	14309	739	26	4	587	4	SIGLEC14	19	52149112	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	874511	52149112	6979871	346	54352										
ZNF415	55786	broad.mit.edu	37	chr19	53612976	53612976	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tggggccgtagtcactttgtTgcaatttctttcatcatctc	8	10	5	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:53612976T>C	uc002qax.2	-	7	815	c.466A>G	c.(466-468)AAC>GAC	p.N156D	ZNF415_uc002qat.2_Missense_Mutation_p.N120D|ZNF415_uc002qaw.2_Missense_Mutation_p.N108D|ZNF415_uc010yds.1_Missense_Mutation_p.N108D|ZNF415_uc010ydt.1_Missense_Mutation_p.N108D|ZNF415_uc002qau.2_Missense_Mutation_p.N95D|ZNF415_uc002qav.2_Missense_Mutation_p.N120D|ZNF415_uc002qba.2_5'UTR|ZNF415_uc002qay.2_Missense_Mutation_p.N95D|ZNF415_uc002qaz.2_Missense_Mutation_p.N156D	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	156					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		GTCACTTTGTTGCAATTTCTT	0.373													9	214	---	---	---	---	PASS	C	53612976	C	C	53612976	3	2	152	1	0	0	0	0	1	0	0	0	17889	1812	63	5	1349	5	ZNF415	19	53612976	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	1463864	53612976	5516007	347	54353										
LILRB5	10990	broad.mit.edu	37	chr19	54760442	54760442	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcgccctgcactgtcatacaCcgtggatggaatgtggaact	11	11	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:54760442C>A	uc002qex.2	-	3	376	c.265G>T	c.(265-267)GTG>TTG	p.V89L	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.V89L|LILRB5_uc002qey.2_Missense_Mutation_p.V89L|LILRB5_uc002qez.2_Missense_Mutation_p.V89L|LILRB5_uc002qfa.1_Missense_Mutation_p.V79L|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	89	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CTGTCATACACCGTGGATGGA	0.607													57	486	---	---	---	---	PASS	A	54760442	A	A	54760442	3	1	152	1	0	0	0	0	1	0	0	0	8794	507	18	3	1554	3	LILRB5	19	54760442	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	1147466	54760442	4368541	348	54354										
LENG9	94059	broad.mit.edu	37	chr19	54974197	54974197	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gccagtgtccactcggcaccCtctgccccgtgggcgccctc	11	20	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:54974197C>G	uc010yez.1	-	1	698	c.579G>C	c.(577-579)GAG>GAC	p.E193D		NM_198988	NP_945339	Q96B70	LENG9_HUMAN	leukocyte receptor cluster (LRC) member 9	193					RNA metabolic process	intracellular	catalytic activity|nucleic acid binding|zinc ion binding				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.134)		ACTCGGCACCCTCTGCCCCGT	0.731													4	26	---	---	---	---	PASS	G	54974197	G	G	54974197	3	3	152	1	0	0	0	0	1	0	0	0	8725	680	24	4	930	4	LENG9	19	54974197	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	213755	54974197	4154786	349	54355										
NLRP7	199713	broad.mit.edu	37	chr19	55451509	55451509	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tcaggccagtctttggagatCagctctgcaaaactgcaggg	12	10	4	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:55451509C>T	uc002qih.3	-	4	754	c.678G>A	c.(676-678)CTG>CTA	p.L226L	NLRP7_uc002qig.3_Silent_p.L226L|NLRP7_uc002qii.3_Silent_p.L226L|NLRP7_uc010esk.2_Silent_p.L226L|NLRP7_uc010esl.2_Silent_p.L254L	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	226	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CTTTGGAGATCAGCTCTGCAA	0.552													19	162	---	---	---	---	PASS	T	55451509	T	T	55451509	2	4	152	1	0	0	0	0	0	0	0	1	10482	813	29	2		2	NLRP7	19	55451509	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	477312	55451509	3677474	350	54356										
HSPBP1	23640	broad.mit.edu	37	chr19	55776691	55776691	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agctgacagcggtggcggagGagctcctccaggcccagttc	15	13	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:55776691G>A	uc002qjx.2	-	6	1208	c.1098C>T	c.(1096-1098)CTC>CTT	p.L366L	HSPBP1_uc002qjy.2_Silent_p.L320L|HSPBP1_uc002qkb.2_Missense_Mutation_p.P317S|HSPBP1_uc002qka.2_Silent_p.L320L|HSPBP1_uc002qkd.2_Silent_p.L320L|HSPBP1_uc002qkc.2_Silent_p.L320L|uc002qke.2_5'Flank	NM_012267	NP_036399	Q9NZL4	HPBP1_HUMAN	hsp70-interacting protein	323					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding		enzyme inhibitor activity|protein binding				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		GGTGGCGGAGGAGCTCCTCCA	0.657													42	87	---	---	---	---	PASS	A	55776691	A	A	55776691	2	1	152	1	0	0	0	0	0	0	0	1	7426	1161	41	2		2	HSPBP1	19	55776691	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	325182	55776691	3352292	351	54357										
ZFP28	140612	broad.mit.edu	37	chr19	57065666	57065666	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tatcatactggggagaaaccCtttgattgcatcgattgtgg	11	7	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:57065666C>T	uc002qnj.2	+	8	1583	c.1512C>T	c.(1510-1512)CCC>CCT	p.P504P	uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	504					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		GGGAGAAACCCTTTGATTGCA	0.438													37	113	---	---	---	---	PASS	T	57065666	T	T	57065666	2	4	152	1	0	0	0	0	0	0	0	1	17639	668	24	3		3	ZFP28	19	57065666	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	1288975	57065666	2063317	352	54358										
PEG3	5178	broad.mit.edu	37	chr19	57326170	57326170	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aagagcaggattcctctctgCagcacgattcctccgtggct	10	13	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:57326170C>A	uc002qnu.2	-	7	3991	c.3640G>T	c.(3640-3642)GCA>TCA	p.A1214S	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.A1185S|PEG3_uc002qnv.2_Missense_Mutation_p.A1214S|PEG3_uc002qnw.2_Missense_Mutation_p.A1090S|PEG3_uc002qnx.2_Missense_Mutation_p.A1088S|PEG3_uc010etr.2_Missense_Mutation_p.A1214S	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1214					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TTCCTCTCTGCAGCACGATTC	0.488													45	110	---	---	---	---	PASS	A	57326170	A	A	57326170	3	1	152	1	0	0	0	0	1	0	0	0	11720	710	25	3	1130	3	PEG3	19	57326170	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	260504	57326170	1802813	353	54359										
ZNF8	7554	broad.mit.edu	37	chr19	58805630	58805630	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cagagtctggcactcaaggaGcagaataacttgaagcagtt	11	8	2	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr19:58805630G>A	uc002qry.1	+	4	586	c.456G>A	c.(454-456)GAG>GAA	p.E152E	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	152					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		CACTCAAGGAGCAGAATAACT	0.507													16	38	---	---	---	---	PASS	A	58805630	A	A	58805630	2	1	152	1	0	0	0	0	0	0	0	1	18164	962	34	3		3	ZNF8	19	58805630	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	1479460	58805630	323353	354	54360										
ATRN	8455	broad.mit.edu	37	chr20	3520918	3520918	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	atcattttgctacagagtgtAgttgggaccatttatatgtt	9	5	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr20:3520918A>T	uc002wim.2	+	3	634	c.544A>T	c.(544-546)AGT>TGT	p.S182C	ATRN_uc002wil.2_Missense_Mutation_p.S182C	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	182	Extracellular (Potential).|CUB.				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						TACAGAGTGTAGTTGGGACCA	0.338													70	372	---	---	---	---	PASS	T	3520918	T	T	3520918	3	4	152	1	0	0	0	0	1	0	0	0	1206	420	15	5	554	5	ATRN	20	3520918	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08		3520918	59504602	355	54361										
SLC12A5	57468	broad.mit.edu	37	chr20	44665972	44665972	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gggcctctgcttctacctggGcactacctttgcaggagcca	11	14	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr20:44665972G>T	uc010zxl.1	+	6	705	c.629G>T	c.(628-630)GGC>GTC	p.G210V	SLC12A5_uc002xra.2_Missense_Mutation_p.G187V|SLC12A5_uc010zxm.1_Intron|SLC12A5_uc002xrb.2_Missense_Mutation_p.G187V	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	210	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	TTCTACCTGGGCACTACCTTT	0.547													14	59	---	---	---	---	PASS	T	44665972	T	T	44665972	3	4	152	1	0	0	0	0	1	0	0	0	14386	1203	42	3	707	3	SLC12A5	20	44665972	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	41145054	44665972	18359548	356	54362										
CD40	958	broad.mit.edu	37	chr20	44755307	44755307	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccaaagacctggttgtgcaaCaggcaggcacaaacaagact	10	11	0	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr20:44755307C>T	uc002xrg.1	+	6	603	c.526C>T	c.(526-528)CAG>TAG	p.Q176*	CD40_uc002xrh.1_Intron|CD40_uc002xri.1_Nonsense_Mutation_p.Q176*|CD40_uc002xrj.1_RNA|CD40_uc002xrk.1_Intron|CD40_uc002xrl.1_5'Flank	NM_001250	NP_001241	P25942	TNR5_HUMAN	CD40 antigen isoform 1 precursor	176	TNFR-Cys 4.|Extracellular (Potential).				B cell proliferation|cellular response to mechanical stimulus|inflammatory response|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein complex assembly	CD40 receptor complex|extracellular region	enzyme binding|receptor activity			lung(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)			Simvastatin(DB00641)	GGTTGTGCAACAGGCAGGCAC	0.498									Immune_Deficiency_with_Hyper-IgM				20	129	---	---	---	---	PASS	T	44755307	T	T	44755307	4	4	152	1	0	0	0	0	0	1	0	0	3015	479	17	3	548	3	CD40	20	44755307	Nonsense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	89335	44755307	18270213	357	54363										
CASS4	57091	broad.mit.edu	37	chr20	55027084	55027084	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	actttctacaatcctccaagTggcagatccaggtccctcac	6	15	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr20:55027084T>C	uc002xxp.2	+	6	1077	c.852T>C	c.(850-852)AGT>AGC	p.S284S	CASS4_uc002xxq.3_Silent_p.S284S|CASS4_uc002xxr.2_Silent_p.S284S|CASS4_uc010zze.1_Silent_p.S230S|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	284					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						ATCCTCCAAGTGGCAGATCCA	0.507													4	130	---	---	---	---	PASS	C	55027084	C	C	55027084	2	2	152	1	0	0	0	0	0	0	0	1	2683	1693	59	5		5	CASS4	20	55027084	Silent	SNP	T	TCGA-66-2767-01A-01D-1522-08	10271777	55027084	7998436	358	54364										
PMEPA1	56937	broad.mit.edu	37	chr20	56227421	56227421	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	atggttctgtttgggggtgcGcgcaccgactcccggttcag	15	11	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr20:56227421G>A	uc002xyq.2	-	4	945	c.552C>T	c.(550-552)CGC>CGT	p.R184R	PMEPA1_uc002xyr.2_Silent_p.R134R|PMEPA1_uc002xys.2_Silent_p.R149R|PMEPA1_uc002xyt.2_Silent_p.R134R	NM_020182	NP_064567	Q969W9	PMEPA_HUMAN	transmembrane prostate androgen-induced protein	184	Cytoplasmic (Potential).				androgen receptor signaling pathway	integral to membrane|plasma membrane	WW domain binding			pancreas(1)	1						TTGGGGGTGCGCGCACCGACT	0.677													11	51	---	---	---	---	PASS	A	56227421	A	A	56227421	2	1	152	1	0	0	0	0	0	0	0	1	12132	1074	38	1		1	PMEPA1	20	56227421	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	1200337	56227421	6798099	359	54365										
GNAS	2778	broad.mit.edu	37	chr20	57415203	57415203	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cagcagtggcgccgagctcgCcataattacaacgacctgtg	11	13	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr20:57415203C>A	uc002xzt.2	+	1	409	c.42C>A	c.(40-42)CGC>CGA	p.R14R	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			GCCGAGCTCGCCATAATTACA	0.682			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			9	66	---	---	---	---	PASS	A	57415203	A	A	57415203	2	1	152	1	0	0	0	0	0	0	0	1	6510	726	26	3		3	GNAS	20	57415203	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	1187782	57415203	5610317	360	54366										
NTSR1	4923	broad.mit.edu	37	chr20	61386124	61386124	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	acaagctgaccgtcatggtaCgccaggcggccgagcagggc	15	13	1	1	rs140186245		TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr20:61386124C>A	uc002ydf.2	+	2	1173	c.802C>A	c.(802-804)CGC>AGC	p.R268S		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1	268	Cytoplasmic (Potential).					endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			CGTCATGGTACGCCAGGCGGC	0.622													17	129	---	---	---	---	PASS	A	61386124	A	A	61386124	3	1	152	1	0	0	0	0	1	0	0	0	10710	536	19	1	808	1	NTSR1	20	61386124	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	3970921	61386124	1639396	361	54367										
DIDO1	11083	broad.mit.edu	37	chr20	61522414	61522414	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gttgttattagctacaacacCaaagcggccacggctgctga	10	11	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr20:61522414C>A	uc002ydr.1	-	15	3703	c.3439G>T	c.(3439-3441)GGT>TGT	p.G1147C	DIDO1_uc002yds.1_Missense_Mutation_p.G1147C|DIDO1_uc002ydt.1_Missense_Mutation_p.G1147C|DIDO1_uc002ydu.1_Missense_Mutation_p.G1147C	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1147					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GCTACAACACCAAAGCGGCCA	0.557													15	85	---	---	---	---	PASS	A	61522414	A	A	61522414	3	1	152	1	0	0	0	0	1	0	0	0	4522	594	21	3	3320	3	DIDO1	20	61522414	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	136290	61522414	1503106	362	54368										
LIPI	149998	broad.mit.edu	37	chr21	15561360	15561360	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aattcccagacttaccaaaaGatttttaatgtgcacactca	4	10	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr21:15561360G>C	uc002yjm.2	-	2	500	c.490C>G	c.(490-492)CTT>GTT	p.L164V	LIPI_uc010gkw.1_Missense_Mutation_p.L97V	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	143					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		CTTACCAAAAGATTTTTAATG	0.333													8	115	---	---	---	---	PASS	C	15561360	C	C	15561360	3	2	152	1	0	0	0	0	1	0	0	0	8825	942	33	2	991	2	LIPI	21	15561360	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08		15561360	32568535	363	54369										
NCAM2	4685	broad.mit.edu	37	chr21	22746194	22746194	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgtaaacagagcctggacggCcgtatcgaagtcaaagggca	13	9	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr21:22746194C>T	uc002yld.1	+	9	1305	c.1056C>T	c.(1054-1056)GGC>GGT	p.G352G	NCAM2_uc011acb.1_Silent_p.G210G|NCAM2_uc011acc.1_Silent_p.G377G	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	352	Ig-like C2-type 4.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		GCCTGGACGGCCGTATCGAAG	0.413													4	147	---	---	---	---	PASS	T	22746194	T	T	22746194	2	4	152	1	0	0	0	0	0	0	0	1	10203	726	26	3		3	NCAM2	21	22746194	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08	7184834	22746194	25383701	364	54370										
KRTAP10-7	386675	broad.mit.edu	37	chr21	46021554	46021554	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cctcctgccaggccagctgcTgccgcccagcctcctgtgtg	11	19	0	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr21:46021554T>G	uc002zfn.3	+	2	1043	c.1018T>G	c.(1018-1020)TGC>GGC	p.C340G	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198689	NP_941962	P60409	KR107_HUMAN	keratin associated protein 10-7	345	29.|30 X 5 AA repeats of C-C-X(3).					keratin filament					0						GGCCAGCTGCTGCCGCCCAGC	0.701													11	40	---	---	---	---	PASS	G	46021554	G	G	46021554	3	3	152	1	0	0	0	0	1	0	0	0	8514	1580	55	5	1024	5	KRTAP10-7	21	46021554	Missense_Mutation	SNP	T	TCGA-66-2767-01A-01D-1522-08	23275360	46021554	2108341	365	54371										
COL6A1	1291	broad.mit.edu	37	chr21	47423790	47423790	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aggtgaatgagccccacatcCgcgtcctggtcaccggcaag	12	14	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr21:47423790C>A	uc002zhu.1	+	35	3052	c.2950C>A	c.(2950-2952)CGC>AGC	p.R984S	COL6A1_uc010gqd.1_Missense_Mutation_p.R315S|COL6A1_uc002zhv.1_Missense_Mutation_p.R315S|COL6A1_uc002zhw.1_Missense_Mutation_p.R78S	NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	984	C-terminal globular domain.|VWFA 3.				axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	GCCCCACATCCGCGTCCTGGT	0.677													29	66	---	---	---	---	PASS	A	47423790	A	A	47423790	3	1	152	1	0	0	0	0	1	0	0	0	3699	652	23	1	3088	1	COL6A1	21	47423790	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	1402236	47423790	706105	366	54372										
AP1B1	162	broad.mit.edu	37	chr22	29726514	29726514	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctgctctgcagcttgctgctCgcagcctctgtggggtcaca	12	14	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr22:29726514C>T	uc003afj.2	-	21	2803	c.2619G>A	c.(2617-2619)GCG>GCA	p.A873A	AP1B1_uc003afi.2_Silent_p.A866A|AP1B1_uc003afk.2_Silent_p.A866A|AP1B1_uc003afl.2_Silent_p.A846A|AP1B1_uc003afh.2_Silent_p.A70A|AP1B1_uc011ako.1_Silent_p.A426A	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	873					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						GCTTGCTGCTCGCAGCCTCTG	0.652													29	92	---	---	---	---	PASS	T	29726514	T	T	29726514	2	4	152	1	0	0	0	0	0	0	0	1	731	871	31	2		2	AP1B1	22	29726514	Silent	SNP	C	TCGA-66-2767-01A-01D-1522-08		29726514	21578052	367	54373										
ASCC2	84164	broad.mit.edu	37	chr22	30185168	30185168	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctgctgttgagctgtcatgcCggtacctgagggaggaacaa	14	9	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr22:30185168C>T	uc003agr.2	-	20	2213	c.2108G>A	c.(2107-2109)CGG>CAG	p.R703Q	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Missense_Mutation_p.R703Q|ASCC2_uc011akr.1_Missense_Mutation_p.R627Q	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	703					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			GCTGTCATGCCGGTACCTGAG	0.642													9	431	---	---	---	---	PASS	T	30185168	T	T	30185168	3	4	152	1	0	0	0	0	1	0	0	0	1032	652	23	1	169	1	ASCC2	22	30185168	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	458654	30185168	21119398	368	54374										
TCN2	6948	broad.mit.edu	37	chr22	31019016	31019016	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccgtgatggggaaagcggccGgagaaagggagttctggcag	19	7	1	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr22:31019016G>A	uc003aip.1	+	8	1326	c.1168G>A	c.(1168-1170)GGA>AGA	p.G390R	TCN2_uc003aiq.1_Missense_Mutation_p.G386R|TCN2_uc003air.1_Missense_Mutation_p.G363R	NM_000355	NP_000346	P20062	TCO2_HUMAN	transcobalamin II precursor	390					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular space	cobalamin binding			central_nervous_system(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GAAAGCGGCCGGAGAAAGGGA	0.562													14	135	---	---	---	---	PASS	A	31019016	A	A	31019016	3	1	152	1	0	0	0	0	1	0	0	0	15704	1117	39	1	1198	1	TCN2	22	31019016	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	833848	31019016	20285550	369	54375										
C22orf28	51493	broad.mit.edu	37	chr22	32791054	32791054	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gggatggtgaggagggaaagCgcgggtggatcccttcctgt	19	7	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr22:32791054C>A	uc003amm.2	-	9	1269	c.1138G>T	c.(1138-1140)GCT>TCT	p.A380S		NM_014306	NP_055121	Q9Y3I0	RTCB_HUMAN	hypothetical protein LOC51493	380					cell-matrix adhesion|substrate adhesion-dependent cell spreading|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|tRNA-splicing ligase complex	ATP binding|metal ion binding|RNA ligase (ATP) activity|vinculin binding				0						GGAGGGAAAGCGCGGGTGGAT	0.478													11	122	---	---	---	---	PASS	A	32791054	A	A	32791054	3	1	152	1	0	0	0	0	1	0	0	0	2140	768	27	1	395	1	C22orf28	22	32791054	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	1772038	32791054	18513512	370	54376										
TRIOBP	11078	broad.mit.edu	37	chr22	38120361	38120361	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctacacgagacaaccccacaAcatcctgtgcccagcgggac	8	17	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr22:38120361A>G	uc003atr.2	+	7	2069	c.1798A>G	c.(1798-1800)ACA>GCA	p.T600A	TRIOBP_uc003atu.2_Missense_Mutation_p.T428A|TRIOBP_uc003atq.1_Missense_Mutation_p.T600A|TRIOBP_uc003ats.1_Missense_Mutation_p.T428A	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	600					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CAACCCCACAACATCCTGTGC	0.577													14	157	---	---	---	---	PASS	G	38120361	G	G	38120361	3	3	152	1	0	0	0	0	1	0	0	0	16550	43	2	5	1816	5	TRIOBP	22	38120361	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	5329307	38120361	13184205	371	54377										
MCHR1	2847	broad.mit.edu	37	chr22	41077401	41077401	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tccttcatcagcatcaccccTgtgtggctgtatgccagact	8	14	3	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr22:41077401T>G	uc003ayz.2	+	2	1006	c.738T>G	c.(736-738)CCT>CCG	p.P246P	MCHR1_uc003aza.2_Silent_p.P135P	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	246	Helical; Name=4; (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						GCATCACCCCTGTGTGGCTGT	0.612													28	151	---	---	---	---	PASS	G	41077401	G	G	41077401	2	3	152	1	0	0	0	0	0	0	0	1	9382	1567	55	5		5	MCHR1	22	41077401	Silent	SNP	T	TCGA-66-2767-01A-01D-1522-08	2957040	41077401	10227165	372	54378										
ZC3H7B	23264	broad.mit.edu	37	chr22	41739497	41739497	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	catcctgctcggccggctccGgagctcggaggaccagacct	13	16	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr22:41739497G>A	uc003azw.2	+	13	1592	c.1376G>A	c.(1375-1377)CGG>CAG	p.R459Q	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	475					interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						GGCCGGCTCCGGAGCTCGGAG	0.667													10	89	---	---	---	---	PASS	A	41739497	A	A	41739497	3	1	152	1	0	0	0	0	1	0	0	0	17570	1116	39	1	1422	1	ZC3H7B	22	41739497	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	662096	41739497	9565069	373	54379										
FAM19A5	25817	broad.mit.edu	37	chr22	49042420	49042420	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tctctgcaggtcagctggccGccggcacctgtgagattgtg	14	12	2	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chr22:49042420G>C	uc003bim.3	+	2	241	c.124G>C	c.(124-126)GCC>CCC	p.A42P	FAM19A5_uc003bio.3_Missense_Mutation_p.A35P	NM_001082967	NP_001076436	Q7Z5A7	F19A5_HUMAN	family with sequence similarity 19 (chemokine	42						extracellular region|integral to membrane				large_intestine(1)	1		all_cancers(38;2.95e-11)|all_epithelial(38;3.07e-10)|all_lung(38;2.89e-05)|Breast(42;0.000396)|Lung NSC(38;0.000471)|Ovarian(80;0.00934)|Lung SC(80;0.195)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0227)|BRCA - Breast invasive adenocarcinoma(115;0.119)		TCAGCTGGCCGCCGGCACCTG	0.577													3	24	---	---	---	---	PASS	C	49042420	C	C	49042420	3	2	152	1	0	0	0	0	1	0	0	0	5535	1087	38	4	225	4	FAM19A5	22	49042420	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	7302923	49042420	2262146	374	54380										
GLRA2	2742	broad.mit.edu	37	chrX	14748527	14748527	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cgatatctcgagctgccttcCcattggccttcctcattttc	6	15	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:14748527C>A	uc010nep.2	+	10	1611	c.1279C>A	c.(1279-1281)CCA>ACA	p.P427T	GLRA2_uc010neq.2_Missense_Mutation_p.P427T|GLRA2_uc004cwe.3_Missense_Mutation_p.P427T|GLRA2_uc011mio.1_Missense_Mutation_p.P338T|GLRA2_uc011mip.1_Missense_Mutation_p.P405T	NM_001118885	NP_001112357	P23416	GLRA2_HUMAN	glycine receptor, alpha 2 isoform A	427	Helical; (Probable).				neuropeptide signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(1)|lung(1)	2	Hepatocellular(33;0.128)				Ethanol(DB00898)|Glycine(DB00145)	AGCTGCCTTCCCATTGGCCTT	0.468													59	90	---	---	---	---	PASS	A	14748527	A	A	14748527	3	1	152	1	0	0	0	0	1	0	0	0	6455	623	22	3	1385	3	GLRA2	23	14748527	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08		14748527	140522033	375	54381										
PTCHD1	139411	broad.mit.edu	37	chrX	23410788	23410788	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ccactgccatgtacctggtcAcctttggcataggggccagc	11	14	1	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:23410788A>T	uc004dal.3	+	3	1161	c.1153A>T	c.(1153-1155)ACC>TCC	p.T385S		NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	385	Helical; (Potential).|SSD.				cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						GTACCTGGTCACCTTTGGCAT	0.468													53	78	---	---	---	---	PASS	T	23410788	T	T	23410788	3	4	152	1	0	0	0	0	1	0	0	0	12732	159	6	5	1163	5	PTCHD1	23	23410788	Missense_Mutation	SNP	A	TCGA-66-2767-01A-01D-1522-08	8662261	23410788	131859772	376	54382										
FAM48B1	100130302	broad.mit.edu	37	chrX	24382696	24382696	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	agttgaggacaggctccactGgcctaaaggccatcaatgtg	12	10	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:24382696G>T	uc011mjx.1	+	1	1819	c.1819G>T	c.(1819-1821)GGC>TGC	p.G607C		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						AGGCTCCACTGGCCTAAAGGC	0.612													14	11	---	---	---	---	PASS	T	24382696	T	T	24382696	3	4	152	1	0	0	0	0	1	0	0	0	5573	1348	47	3	1821	3	FAM48B1	23	24382696	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	971908	24382696	130887864	377	54383										
GRIPAP1	56850	broad.mit.edu	37	chrX	48849876	48849876	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	caaggctgtgttttcagcctGtagcctcagcagctccccat	9	14	2	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:48849876G>T	uc004dly.1	-	6	456	c.421C>A	c.(421-423)CAG>AAG	p.Q141K	GRIPAP1_uc004dlz.2_5'Flank|GRIPAP1_uc004dma.2_Intron	NM_020137	NP_064522	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1 isoform 1	141	Potential.					early endosome				breast(2)|kidney(1)	3						TTTTCAGCCTGTAGCCTCAGC	0.617													3	18	---	---	---	---	PASS	T	48849876	T	T	48849876	3	4	152	1	0	0	0	0	1	0	0	0	6789	1386	48	3	2242	3	GRIPAP1	23	48849876	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	24467180	48849876	106420684	378	54384										
HUWE1	10075	broad.mit.edu	37	chrX	53642764	53642764	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ctgatgtctcatgagctcatCgacagcactccccaggttgg	10	13	2	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:53642764C>T	uc004dsp.2	-	22	2392	c.1990G>A	c.(1990-1992)GAT>AAT	p.D664N		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	664					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						ATGAGCTCATCGACAGCACTC	0.443													29	39	---	---	---	---	PASS	T	53642764	T	T	53642764	3	4	152	1	0	0	0	0	1	0	0	0	7461	884	31	2	11386	2	HUWE1	23	53642764	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	4792888	53642764	101627796	379	54385										
ATP7A	538	broad.mit.edu	37	chrX	77267092	77267092	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	aatgatcaaccttcattcttCtatgttcctggagcgccaga	7	11	4	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:77267092C>G	uc004ecx.3	+	9	2253	c.2093C>G	c.(2092-2094)TCT>TGT	p.S698C	ATP7A_uc004ecw.2_3'UTR	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	698	Extracellular (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						CTTCATTCTTCTATGTTCCTG	0.383													17	340	---	---	---	---	PASS	G	77267092	G	G	77267092	3	3	152	1	0	0	0	0	1	0	0	0	1190	913	32	2	2123	2	ATP7A	23	77267092	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	23624328	77267092	78003468	380	54386										
APOOL	139322	broad.mit.edu	37	chrX	84310876	84310876	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	cctcctcgagattttcttccGaaaatgggagttattacagt	8	9	1	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:84310876G>A	uc004eem.2	+	5	353	c.339G>A	c.(337-339)CCG>CCA	p.P113P	APOOL_uc010nmp.2_Intron	NM_198450	NP_940852	Q6UXV4	APOOL_HUMAN	apolipoprotein O-like precursor	113						extracellular region					0						ATTTTCTTCCGAAAATGGGAG	0.338													15	8	---	---	---	---	PASS	A	84310876	A	A	84310876	2	1	152	1	0	0	0	0	0	0	0	1	814	1045	37	2		2	APOOL	23	84310876	Silent	SNP	G	TCGA-66-2767-01A-01D-1522-08	7043784	84310876	70959684	381	54387										
TEX13A	56157	broad.mit.edu	37	chrX	104464752	104464752	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgctccctgagcttcttcagGtctgatgccaaggcctgtgc	11	13	3	2			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:104464752G>T	uc004ema.2	-	2	442	c.330C>A	c.(328-330)GAC>GAA	p.D110E	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Missense_Mutation_p.D110E	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	110						intracellular	zinc ion binding			ovary(2)	2						GCTTCTTCAGGTCTGATGCCA	0.617													10	25	---	---	---	---	PASS	T	104464752	T	T	104464752	3	4	152	1	0	0	0	0	1	0	0	0	15773	1252	44	3	909	3	TEX13A	23	104464752	Missense_Mutation	SNP	G	TCGA-66-2767-01A-01D-1522-08	20153876	104464752	50805808	382	54388										
SERPINA7	6906	broad.mit.edu	37	chrX	105279114	105279114	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	ggcatttaccccttctgtagTaagcggttccacttcttcag	8	12	3	0			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:105279114T>C	uc004eme.1	-	2	901	c.885A>G	c.(883-885)TTA>TTG	p.L295L	SERPINA7_uc010npd.2_Silent_p.L295L|SERPINA7_uc010npe.1_Silent_p.L295L	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	295					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	CCTTCTGTAGTAAGCGGTTCC	0.493													132	203	---	---	---	---	PASS	C	105279114	C	C	105279114	2	2	152	1	0	0	0	0	0	0	0	1	14094	1635	57	5		5	SERPINA7	23	105279114	Silent	SNP	T	TCGA-66-2767-01A-01D-1522-08	814362	105279114	49991446	383	54389										
COL4A6	1288	broad.mit.edu	37	chrX	107408661	107408662	+	Frame_Shift_Ins	INS	-	A	A													0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gtcctgctatgagtgagggcINSaaggagatgcctggggcacc							TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:107408661_107408662insA	uc004enw.3	-	38	3852_3853	c.3749_3750insT	c.(3748-3750)TTGfs	p.L1250fs	COL4A6_uc004env.3_Frame_Shift_Ins_p.L1249fs|COL4A6_uc011msn.1_Frame_Shift_Ins_p.L1225fs|COL4A6_uc010npk.2_Frame_Shift_Ins_p.L1225fs|COL4A6_uc010npj.2_5'Flank	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1250	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						TGAGTGAGGGCAAGGAGATGCC	0.589									Alport_syndrome_with_Diffuse_Leiomyomatosis				69	44	---	---	---	---		A	107408662	A	A	107408661	7	5	152	1	0	1	1	0	0	0	0	0	3695	709	25	0	1357	0	COL4A6	23	107408661	Frame_Shift_Ins	INS	-	TCGA-66-2767-01A-01D-1522-08	2129547	107408661	47861899	384	54390										
AMOT	154796	broad.mit.edu	37	chrX	112022909	112022909	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gtctccacccaggagaatgcCtacaaatgaaagaggaacag	10	10	1	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:112022909C>A	uc004epr.2	-	10	2474	c.2474_splice	c.e10-1	p.G825_splice	AMOT_uc004eps.2_Splice_Site_p.G416_splice|AMOT_uc011mtc.1_Intron	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1						actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						AGGAGAATGCCTACAAATGAA	0.458													19	26	---	---	---	---	PASS	A	112022909	A	A	112022909	5	1	152	1	0	0	0	0	0	0	1	0	582	695	24	3	789	3	AMOT	23	112022909	Splice_Site	SNP	C	TCGA-66-2767-01A-01D-1522-08	4614248	112022909	43247651	385	54391										
RBMX	27316	broad.mit.edu	37	chrX	135960086	135960086	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	gttattacccatgtgtcctcCccgtgagggaggtcccctgg	12	13	0	1			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:135960086C>T	uc004fae.1	-	4	586	c.376G>A	c.(376-378)GGA>AGA	p.G126R	RBMX_uc011mwf.1_Intron|RBMX_uc004fad.1_Missense_Mutation_p.G126R|RBMX_uc011mwg.1_Missense_Mutation_p.G87R|RBMX_uc004faf.1_Intron|RBMX_uc010nsf.1_Missense_Mutation_p.G87R|RBMX_uc004fag.1_5'UTR	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	126						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					ATGTGTCCTCCCCGTGAGGGA	0.547													39	40	---	---	---	---	PASS	T	135960086	T	T	135960086	3	4	152	1	0	0	0	0	1	0	0	0	13151	632	22	3	878	3	RBMX	23	135960086	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	23937177	135960086	19310474	386	54392										
MAGEC1	9947	broad.mit.edu	37	chrX	140995307	140995307	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0904392764857881	35	0.0249749530102321	1.46519777860358	2.20078686745353	1.14337755223172	0.673609287557202	0.925645401874291	11	tgagggagaggactccctgtCttctctccattttcctcaga	9	12	3	3			TCGA-66-2767-01A-01D-1522-08	TCGA-66-2767-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	ca748128-272c-4fad-9a1f-01328b93b3f4	68afa3dd-7970-4f7c-88fe-e20b259e1a7e	g.chrX:140995307C>G	uc004fbt.2	+	4	2403	c.2117C>G	c.(2116-2118)TCT>TGT	p.S706C	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	706							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GACTCCCTGTCTTCTCTCCAT	0.552										HNSCC(15;0.026)			85	90	---	---	---	---	PASS	G	140995307	G	G	140995307	3	3	152	1	0	0	0	0	1	0	0	0	9180	913	32	2	2123	2	MAGEC1	23	140995307	Missense_Mutation	SNP	C	TCGA-66-2767-01A-01D-1522-08	5035221	140995307	14275253	387	54393										
CLCN6	1185	broad.mit.edu	37	chr1	11882784	11882784	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gcagccagaaaggctgcctcGctctgtctctccttgaactc	9	15	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:11882784G>T	uc001ate.3	+	6	492	c.379G>T	c.(379-381)GCT>TCT	p.A127S	CLCN6_uc009vnf.1_Missense_Mutation_p.A127S|CLCN6_uc009vng.1_Missense_Mutation_p.A127S|CLCN6_uc009vnh.1_Missense_Mutation_p.A127S|CLCN6_uc010oat.1_5'UTR|CLCN6_uc010oau.1_Missense_Mutation_p.A105S	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	127					cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		AGGCTGCCTCGCTCTGTCTCT	0.542													41	100	---	---	---	---	PASS	T	11882784	T	T	11882784	3	4	153	1	0	0	0	0	1	0	0	0	3467	1087	38	1	401	1	CLCN6	1	11882784	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08		11882784	237367837	1	54394										
VPS13D	55187	broad.mit.edu	37	chr1	12402955	12402955	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgtcatctgatttggttccaGagctgcactctctcacagtg	9	11	4	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:12402955G>A	uc001atv.2	+	42	8874	c.8733_splice	c.e42-1	p.R2911_splice	VPS13D_uc001atw.2_Splice_Site_p.R2886_splice|VPS13D_uc001atx.2_Splice_Site_p.R2098_splice	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1						protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TTTGGTTCCAGAGCTGCACTC	0.507													18	38	---	---	---	---	PASS	A	12402955	A	A	12402955	5	1	153	1	0	0	0	0	0	0	1	0	17189	956	33	2	8894	2	VPS13D	1	12402955	Splice_Site	SNP	G	TCGA-66-2768-01A-01D-1522-08	520171	12402955	236847666	2	54395										
PRDM2	7799	broad.mit.edu	37	chr1	14142933	14142933	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cctgcacagctacagcctccGcttggcgtcccgatgctctc	9	18	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:14142933G>A	uc001avi.2	+	9	5904	c.5048G>A	c.(5047-5049)CGC>CAC	p.R1683H	PRDM2_uc001avg.2_Missense_Mutation_p.A175T|PRDM2_uc009voe.2_RNA|PRDM2_uc009vof.2_RNA	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1683						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		TACAGCCTCCGCTTGGCGTCC	0.597													23	97	---	---	---	---	PASS	A	14142933	A	A	14142933	3	1	153	1	0	0	0	0	1	0	0	0	12458	1087	38	1	5095	1	PRDM2	1	14142933	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	1739978	14142933	235107688	3	54396										
AHDC1	27245	broad.mit.edu	37	chr1	27875979	27875979	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tagggaaggtggccaggcccCgctgggcaggcagggcactg	19	11	0	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:27875979C>T	uc009vsy.2	-	6	3617	c.2648G>A	c.(2647-2649)CGG>CAG	p.R883Q	AHDC1_uc009vsz.1_Missense_Mutation_p.R883Q	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	883							DNA binding			central_nervous_system(1)	1		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		GGCCAGGCCCCGCTGGGCAGG	0.692													13	31	---	---	---	---	PASS	T	27875979	T	T	27875979	3	4	153	1	0	0	0	0	1	0	0	0	412	652	23	1	2167	1	AHDC1	1	27875979	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	13733046	27875979	221374642	4	54397										
CLSPN	63967	broad.mit.edu	37	chr1	36205130	36205130	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tccaggtatttcctcaacctCctagaaagcaattttgagga	7	10	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:36205130C>G	uc001bzi.2	-	19	3224	c.3144G>C	c.(3142-3144)ATG>ATC	p.M1048I	CLSPN_uc009vux.2_Missense_Mutation_p.M984I	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	1048					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TCCTCAACCTCCTAGAAAGCA	0.383													60	185	---	---	---	---	PASS	G	36205130	G	G	36205130	3	3	153	1	0	0	0	0	1	0	0	0	3560	869	30	2	903	2	CLSPN	1	36205130	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	8329151	36205130	213045491	5	54398										
GPBP1L1	60313	broad.mit.edu	37	chr1	46093979	46093979	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctgctactggtttcggtgtcTgagtcctcaaactctgcttt	9	11	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:46093979T>A	uc001coq.2	-	13	2735	c.1374A>T	c.(1372-1374)TCA>TCT	p.S458S	GPBP1L1_uc001coo.2_Silent_p.S202S	NM_021639	NP_067652	Q9HC44	GPBL1_HUMAN	GC-rich promoter binding protein 1-like 1	458					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TTTCGGTGTCTGAGTCCTCAA	0.458													113	289	---	---	---	---	PASS	A	46093979	A	A	46093979	2	1	153	1	0	0	0	0	0	0	0	1	6596	1567	55	5		5	GPBP1L1	1	46093979	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	9888849	46093979	203156642	6	54399										
TAL1	6886	broad.mit.edu	37	chr1	47691494	47691494	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cgggggggccatgctggcctCggccgcgtcccgtccctcta	15	17	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:47691494C>A	uc001cqx.2	-	2	644	c.67G>T	c.(67-69)GAG>TAG	p.E23*	TAL1_uc009vyq.2_5'Flank|TAL1_uc001cqy.2_Nonsense_Mutation_p.E23*|TAL1_uc001cra.1_Intron|TAL1_uc001cqz.1_Intron	NM_003189	NP_003180	P17542	TAL1_HUMAN	T-cell acute lymphocytic leukemia 1	23					basophil differentiation|cell fate commitment|cell proliferation|embryonic hemopoiesis|erythrocyte differentiation|megakaryocyte differentiation|positive regulation of cell division|positive regulation of chromatin assembly or disassembly|positive regulation of erythrocyte differentiation|positive regulation of mitotic cell cycle|positive regulation of protein complex assembly|positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	E-box binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity			lung(1)	1						ATGCTGGCCTCGGCCGCGTCC	0.701			T	TRD@|SIL	lymphoblastic leukemia/biphasic								7	32	---	---	---	---	PASS	A	47691494	A	A	47691494	4	1	153	1	0	0	0	0	0	1	0	0	15538	893	31	2	940	2	TAL1	1	47691494	Nonsense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	1597515	47691494	201559127	7	54400										
DIO1	1733	broad.mit.edu	37	chr1	54371967	54371967	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gagggcaggatcctctacaaGgtggtgacctggggacaggg	18	8	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:54371967G>A	uc010onx.1	+	4	704	c.681G>A	c.(679-681)AAG>AAA	p.K227K	DIO1_uc010onw.1_Silent_p.K163K|DIO1_uc009vzl.2_Intron|DIO1_uc001cwb.2_Silent_p.K179K|DIO1_uc010ony.1_Intron|DIO1_uc001cwd.2_RNA|DIO1_uc001cwe.2_RNA|DIO1_uc001cwf.2_RNA|DIO1_uc001cwg.2_Intron	NM_000792	NP_000783	P49895	IOD1_HUMAN	deiodinase, iodothyronine, type I isoform a	227					hormone biosynthetic process|thyroid hormone generation	endoplasmic reticulum membrane|integral to membrane|plasma membrane	selenium binding|thyroxine 5'-deiodinase activity				0						TCCTCTACAAGGTGGTGACCT	0.418													5	23	---	---	---	---	PASS	A	54371967	A	A	54371967	2	1	153	1	0	0	0	0	0	0	0	1	4524	1014	35	3		3	DIO1	1	54371967	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	6680473	54371967	194878654	8	54401										
DAB1	1600	broad.mit.edu	37	chr1	57476433	57476433	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	actgggctcaccaaatggatCactgttggatgaggcctgtg	13	9	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:57476433C>T	uc001cys.1	-	16	2277	c.1603G>A	c.(1603-1605)GAT>AAT	p.D535N	DAB1_uc001cyt.1_Missense_Mutation_p.D533N|DAB1_uc001cyq.1_Missense_Mutation_p.D533N|DAB1_uc001cyr.1_Missense_Mutation_p.D449N|DAB1_uc009vzw.1_Missense_Mutation_p.D517N|DAB1_uc009vzx.1_Missense_Mutation_p.D535N	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	568					cell differentiation|nervous system development					skin(2)|ovary(1)	3						CCAAATGGATCACTGTTGGAT	0.438													70	122	---	---	---	---	PASS	T	57476433	T	T	57476433	3	4	153	1	0	0	0	0	1	0	0	0	4217	826	29	2	68	2	DAB1	1	57476433	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	3104466	57476433	191774188	9	54402										
INADL	10207	broad.mit.edu	37	chr1	62288639	62288639	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gctgcctattcacactctgaGgcttggtgtggaagtggatt	13	8	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:62288639G>T	uc001dab.2	+	15	1820	c.1706G>T	c.(1705-1707)AGG>ATG	p.R569M	INADL_uc009waf.1_Missense_Mutation_p.R569M|INADL_uc001daa.2_Missense_Mutation_p.R569M|INADL_uc001dad.3_Missense_Mutation_p.R266M|INADL_uc001dac.2_RNA	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	569	PDZ 4.				intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						CACACTCTGAGGCTTGGTGTG	0.438													82	233	---	---	---	---	PASS	T	62288639	T	T	62288639	3	4	153	1	0	0	0	0	1	0	0	0	7731	1000	35	3	1760	3	INADL	1	62288639	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	4812206	62288639	186961982	10	54403										
LEPR	3953	broad.mit.edu	37	chr1	66067114	66067114	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	taaaattctgacaagtgttgGgtctaatgtttcttttcact	7	6	4	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:66067114G>T	uc001dci.2	+	9	1236	c.1034G>T	c.(1033-1035)GGG>GTG	p.G345V	LEPR_uc001dcg.2_Missense_Mutation_p.G345V|LEPR_uc001dch.2_Missense_Mutation_p.G345V|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Missense_Mutation_p.G345V|LEPR_uc001dck.2_Missense_Mutation_p.G345V	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	345	Extracellular (Potential).|Ig-like.				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)		ACAAGTGTTGGGTCTAATGTT	0.343													38	128	---	---	---	---	PASS	T	66067114	T	T	66067114	3	4	153	1	0	0	0	0	1	0	0	0	8728	1232	43	3	1060	3	LEPR	1	66067114	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	3778475	66067114	183183507	11	54404										
FPGT	8790	broad.mit.edu	37	chr1	74670301	74670301	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gacaaacctggctttactgcTttagctcatccttctagttt	6	11	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:74670301T>G	uc001dgb.1	+	4	607	c.570T>G	c.(568-570)GCT>GCG	p.A190A	TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron|FPGT_uc010oqt.1_Intron|FPGT_uc010oqu.1_Intron|FPGT_uc010oqv.1_Intron	NM_003838	NP_003829	O14772	FPGT_HUMAN	fucose-1-phosphate guanyltransferase	190					fucose metabolic process	cytoplasm	fucose-1-phosphate guanylyltransferase activity|GTP binding			skin(1)	1						GCTTTACTGCTTTAGCTCATC	0.353													54	192	---	---	---	---	PASS	G	74670301	G	G	74670301	2	3	153	1	0	0	0	0	0	0	0	1	6037	1596	56	5		5	FPGT	1	74670301	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	8603187	74670301	174580320	12	54405										
IFI44	10561	broad.mit.edu	37	chr1	79116279	79116279	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttaaagacaatggaaaatctTggacttgctcaaaattgtac	7	6	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:79116279T>C	uc001dip.3	+	2	523	c.399T>C	c.(397-399)CTT>CTC	p.L133L	IFI44_uc010orr.1_Silent_p.L133L|IFI44_uc010ors.1_Intron	NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	133					response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2						TGGAAAATCTTGGACTTGCTC	0.333													49	135	---	---	---	---	PASS	C	79116279	C	C	79116279	2	2	153	1	0	0	0	0	0	0	0	1	7517	1799	63	5		5	IFI44	1	79116279	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	4445978	79116279	170134342	13	54406										
CDC7	8317	broad.mit.edu	37	chr1	91985764	91985764	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cattttataaagcaagtgatGatttaactgctttggcccaa	7	7	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:91985764G>A	uc001doe.2	+	11	1423	c.1258G>A	c.(1258-1260)GAT>AAT	p.D420N	CDC7_uc001dof.2_Missense_Mutation_p.D420N|CDC7_uc010osw.1_Missense_Mutation_p.D392N|CDC7_uc009wdc.2_Missense_Mutation_p.D420N|CDC7_uc009wdd.2_Intron	NM_003503	NP_003494	O00311	CDC7_HUMAN	cell division cycle 7	420	Protein kinase.				cell cycle checkpoint|cell division|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|positive regulation of cell proliferation|regulation of S phase	cytoplasm|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	5		all_lung(203;0.0165)|Lung NSC(277;0.0562)		all cancers(265;0.00108)|Epithelial(280;0.0184)|KIRC - Kidney renal clear cell carcinoma(1967;0.124)		AGCAAGTGATGATTTAACTGC	0.353													46	107	---	---	---	---	PASS	A	91985764	A	A	91985764	3	1	153	1	0	0	0	0	1	0	0	0	3084	1290	45	2	1296	2	CDC7	1	91985764	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	12869485	91985764	157264857	14	54407										
CD101	9398	broad.mit.edu	37	chr1	117576660	117576660	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aaagctctctgggtggacttGaaagaggctggaggtgtgac	16	6	1	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:117576660G>C	uc010oxb.1	+	9	3061	c.3003G>C	c.(3001-3003)TTG>TTC	p.L1001F	CD101_uc009whd.2_Missense_Mutation_p.L1001F|CD101_uc010oxc.1_Missense_Mutation_p.L1001F|CD101_uc010oxd.1_Missense_Mutation_p.L939F	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	1001	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GGGTGGACTTGAAAGAGGCTG	0.493													40	117	---	---	---	---	PASS	C	117576660	C	C	117576660	3	2	153	1	0	0	0	0	1	0	0	0	2962	1281	45	2	3037	2	CD101	1	117576660	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	25590896	117576660	131673961	15	54408										
SEMA6C	10500	broad.mit.edu	37	chr1	151107754	151107754	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctccagccctatgatccgtcGtgctgtttgggctgtccgct	11	14	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:151107754G>A	uc001ewu.2	-	15	1765	c.1465C>T	c.(1465-1467)CGA>TGA	p.R489*	SEMA6C_uc001ewv.2_Nonsense_Mutation_p.R489*|SEMA6C_uc001eww.2_Nonsense_Mutation_p.R449*|SEMA6C_uc010pcq.1_Nonsense_Mutation_p.R489*	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	489	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			ATGATCCGTCGTGCTGTTTGG	0.562													52	100	---	---	---	---	PASS	A	151107754	A	A	151107754	4	1	153	1	0	0	0	0	0	1	0	0	14041	1153	40	1	1447	1	SEMA6C	1	151107754	Nonsense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	33531094	151107754	98142867	16	54409										
FLAD1	80308	broad.mit.edu	37	chr1	154961012	154961012	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cggcgggtgctggaggggatGaagggactattccaaaaccc	16	9	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:154961012G>A	uc001fgf.1	+	2	1158	c.804G>A	c.(802-804)ATG>ATA	p.M268I	FLAD1_uc001fgc.2_Missense_Mutation_p.M169I|FLAD1_uc001fgd.1_Missense_Mutation_p.M268I|FLAD1_uc001fge.1_Missense_Mutation_p.M171I|FLAD1_uc001fgg.1_Missense_Mutation_p.M171I|FLAD1_uc001fgh.1_Missense_Mutation_p.M1I	NM_025207	NP_079483	Q8NFF5	FAD1_HUMAN	flavin adenine dinucleotide synthetase isoform	268					FAD biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|FMN adenylyltransferase activity			ovary(2)|skin(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TGGAGGGGATGAAGGGACTAT	0.567													29	44	---	---	---	---	PASS	A	154961012	A	A	154961012	3	1	153	1	0	0	0	0	1	0	0	0	5920	1290	45	2	885	2	FLAD1	1	154961012	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	3853258	154961012	94289609	17	54410										
CD5L	922	broad.mit.edu	37	chr1	157803066	157803066	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gcactgctccagggactgctCctcccctgagcaacgaacat	9	16	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:157803066C>A	uc001frk.3	-	5	1098	c.955G>T	c.(955-957)GAG>TAG	p.E319*		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	319	SRCR 3.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			AGGGACTGCTCCTCCCCTGAG	0.582													46	116	---	---	---	---	PASS	A	157803066	A	A	157803066	4	1	153	1	0	0	0	0	0	1	0	0	3027	864	30	2	96	2	CD5L	1	157803066	Nonsense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	2842054	157803066	91447555	18	54411										
OR10K2	391107	broad.mit.edu	37	chr1	158390312	158390312	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cgatcataacccatgactgcCagcagaaaggagtgagagca	11	10	1	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:158390312C>T	uc010pii.1	-	1	345	c.345G>A	c.(343-345)CTG>CTA	p.L115L		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					CCATGACTGCCAGCAGAAAGG	0.512													50	168	---	---	---	---	PASS	T	158390312	T	T	158390312	2	4	153	1	0	0	0	0	0	0	0	1	10914	581	21	3		3	OR10K2	1	158390312	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	587246	158390312	90860309	19	54412										
IGSF8	93185	broad.mit.edu	37	chr1	160063105	160063105	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cgttcaccaggccccactgtCactgccagctggctggctga	11	16	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:160063105C>G	uc001fva.2	-	4	966	c.921G>C	c.(919-921)GTG>GTC	p.V307V	IGSF8_uc001fuz.2_Silent_p.V307V|IGSF8_uc009wtf.2_Silent_p.V307V	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	307	Ig-like C2-type 3.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GCCCCACTGTCACTGCCAGCT	0.612													17	44	---	---	---	---	PASS	G	160063105	G	G	160063105	2	3	153	1	0	0	0	0	0	0	0	1	7604	813	29	2		2	IGSF8	1	160063105	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	1672793	160063105	89187516	20	54413										
RC3H1	149041	broad.mit.edu	37	chr1	173931144	173931144	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttggaggtagggtggataatGatccaagtagggaggagcag	18	3	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:173931144G>A	uc001gju.3	-	11	2008	c.1921C>T	c.(1921-1923)CAT>TAT	p.H641Y	RC3H1_uc010pms.1_Missense_Mutation_p.H641Y|RC3H1_uc001gjv.2_Missense_Mutation_p.H641Y|RC3H1_uc010pmt.1_Missense_Mutation_p.H641Y	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	641	Pro-rich.				cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GGTGGATAATGATCCAAGTAG	0.502													37	108	---	---	---	---	PASS	A	173931144	A	A	173931144	3	1	153	1	0	0	0	0	1	0	0	0	13166	1290	45	2	1516	2	RC3H1	1	173931144	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	13868039	173931144	75319477	21	54414										
FAM5B	57795	broad.mit.edu	37	chr1	177226393	177226393	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aggaggtgcctctataatcgGgggcagtgggaacagcacag	16	8	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:177226393G>T	uc001glf.2	+	4	854	c.542G>T	c.(541-543)GGG>GTG	p.G181V	FAM5B_uc010pna.1_5'UTR|FAM5B_uc001glg.2_Missense_Mutation_p.G76V	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	181						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TCTATAATCGGGGGCAGTGGG	0.557													14	55	---	---	---	---	PASS	T	177226393	T	T	177226393	3	4	153	1	0	0	0	0	1	0	0	0	5593	1232	43	3	552	3	FAM5B	1	177226393	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	3295249	177226393	72024228	22	54415										
RASAL2	9462	broad.mit.edu	37	chr1	178252763	178252763	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccctacaccgagacaacaacGtgggagcggaagtattgcat	11	11	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:178252763G>C	uc001glq.2	+	2	1031	c.267G>C	c.(265-267)ACG>ACC	p.T89T	RASAL2_uc009wxb.2_Silent_p.T89T	NM_170692	NP_733793	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 2	Error:Variant_position_missing_in_Q9UJF2_after_alignment					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						AGACAACAACGTGGGAGCGGA	0.463													83	198	---	---	---	---	PASS	C	178252763	C	C	178252763	2	2	153	1	0	0	0	0	0	0	0	1	13064	1132	40	4		4	RASAL2	1	178252763	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	1026370	178252763	70997858	23	54416										
LPGAT1	9926	broad.mit.edu	37	chr1	211952357	211952357	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ataagctatcgttgtatctaTtatccactggaggccttttg	8	8	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:211952357T>A	uc001hiu.2	-	6	1570	c.757A>T	c.(757-759)ATA>TTA	p.I253L	LPGAT1_uc001hiv.2_Missense_Mutation_p.I253L	NM_014873	NP_055688	Q92604	LGAT1_HUMAN	lysophosphatidylglycerol acyltransferase 1	253					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.00773)|all cancers(67;0.0765)|Epithelial(68;0.114)		GTTGTATCTATTATCCACTGG	0.338													93	253	---	---	---	---	PASS	A	211952357	A	A	211952357	3	1	153	1	0	0	0	0	1	0	0	0	8914	1493	52	5	367	5	LPGAT1	1	211952357	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	33699594	211952357	37298264	24	54417										
TMEM206	55248	broad.mit.edu	37	chr1	212583816	212583816	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	accgtctccttgtcctgctcGtctgccagctctgagttctc	8	16	4	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:212583816G>A	uc001hjc.3	-	2	252	c.84C>T	c.(82-84)GAC>GAT	p.D28D	TMEM206_uc010pte.1_Silent_p.D89D	NM_018252	NP_060722	Q9H813	TM206_HUMAN	transmembrane protein 206	28	Cytoplasmic (Potential).					integral to membrane				breast(1)	1				all cancers(67;0.012)|OV - Ovarian serous cystadenocarcinoma(81;0.0121)|GBM - Glioblastoma multiforme(131;0.0377)|Epithelial(68;0.148)		TGTCCTGCTCGTCTGCCAGCT	0.542													149	400	---	---	---	---	PASS	A	212583816	A	A	212583816	2	1	153	1	0	0	0	0	0	0	0	1	16128	1136	40	1		1	TMEM206	1	212583816	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	631459	212583816	36666805	25	54418										
KCTD3	51133	broad.mit.edu	37	chr1	215793754	215793754	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggtcatcagaagatgaaaatGaaaataaaatagagtttagg	10	2	2	5			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:215793754G>T	uc001hks.2	+	18	2536	c.2242G>T	c.(2242-2244)GAA>TAA	p.E748*	KCTD3_uc001hkt.2_Nonsense_Mutation_p.E746*|KCTD3_uc010pub.1_Nonsense_Mutation_p.E646*|KCTD3_uc009xdn.2_Nonsense_Mutation_p.E472*	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	748						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		AGATGAAAATGAAAATAAAAT	0.368													43	115	---	---	---	---	PASS	T	215793754	T	T	215793754	4	4	153	1	0	0	0	0	0	1	0	0	8110	1291	45	2	2312	2	KCTD3	1	215793754	Nonsense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	3209938	215793754	33456867	26	54419										
USH2A	7399	broad.mit.edu	37	chr1	215847890	215847890	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttctattgattctgagcctgTgacttgcaatgttggagagt	11	6	2	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:215847890T>C	uc001hku.1	-	63	13750	c.13363A>G	c.(13363-13365)ACA>GCA	p.T4455A		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4455	Fibronectin type-III 30.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TCTGAGCCTGTGACTTGCAAT	0.468										HNSCC(13;0.011)			54	167	---	---	---	---	PASS	C	215847890	C	C	215847890	3	2	153	1	0	0	0	0	1	0	0	0	17033	1696	59	5	2285	5	USH2A	1	215847890	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	54136	215847890	33402731	27	54420										
MIA3	375056	broad.mit.edu	37	chr1	222800953	222800953	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gttttgatggaggaagagatGattttcataattataatgta	10	1	1	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:222800953G>A	uc001hnl.2	+	4	400	c.391G>A	c.(391-393)GAT>AAT	p.D131N	MIA3_uc009xea.1_5'UTR	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	131	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		AGGAAGAGATGATTTTCATAA	0.348													94	320	---	---	---	---	PASS	A	222800953	A	A	222800953	3	1	153	1	0	0	0	0	1	0	0	0	9565	1290	45	2	405	2	MIA3	1	222800953	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	6953063	222800953	26449668	28	54421										
ITPKB	3707	broad.mit.edu	37	chr1	226923839	226923839	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggaccctccctccactctgtCggagagctgccaacgccccc	9	20	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:226923839C>T	uc010pvo.1	-	2	1661	c.1321G>A	c.(1321-1323)GAC>AAC	p.D441N	ITPKB_uc001hqh.2_Missense_Mutation_p.D441N	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	441							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				TCCACTCTGTCGGAGAGCTGC	0.711													9	30	---	---	---	---	PASS	T	226923839	T	T	226923839	3	4	153	1	0	0	0	0	1	0	0	0	7918	884	31	2	1547	2	ITPKB	1	226923839	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	4122886	226923839	22326782	29	54422										
FMN2	56776	broad.mit.edu	37	chr1	240370892	240370892	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	acctcctccgccgcctctacCcggagcaggcatactccctc	7	21	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr1:240370892C>A	uc010pyd.1	+	5	3005	c.2780C>A	c.(2779-2781)CCC>CAC	p.P927H	FMN2_uc010pye.1_Missense_Mutation_p.P931H	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	927	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CCGCCTCTACCCGGAGCAGGC	0.677													23	78	---	---	---	---	PASS	A	240370892	A	A	240370892	3	1	153	1	0	0	0	0	1	0	0	0	5950	623	22	3	2798	3	FMN2	1	240370892	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	13447053	240370892	8879729	30	54423										
GREB1	9687	broad.mit.edu	37	chr2	11751043	11751043	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tggcggtggtggcctatgagCggctggcccacgtgcgggcc	19	12	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:11751043C>T	uc002rbk.1	+	18	3196	c.2896C>T	c.(2896-2898)CGG>TGG	p.R966W	GREB1_uc002rbo.1_Missense_Mutation_p.R600W|GREB1_uc002rbp.1_5'Flank	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	966						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)		GGCCTATGAGCGGCTGGCCCA	0.677													16	33	---	---	---	---	PASS	T	11751043	T	T	11751043	3	4	153	1	0	0	0	0	1	0	0	0	6760	759	27	1	3070	1	GREB1	2	11751043	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08		11751043	231448330	31	54424										
ITSN2	50618	broad.mit.edu	37	chr2	24524030	24524030	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cactcagtgatacctggtaaTttcttctgaggctcctcttc	7	12	4	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:24524030T>A	uc002rfe.2	-	11	1332	c.1074A>T	c.(1072-1074)AAA>AAT	p.K358N	ITSN2_uc002rff.2_Missense_Mutation_p.K358N|ITSN2_uc002rfg.2_Missense_Mutation_p.K358N|ITSN2_uc010eyd.2_Missense_Mutation_p.K383N	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	358					endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TACCTGGTAATTTCTTCTGAG	0.289													44	141	---	---	---	---	PASS	A	24524030	A	A	24524030	3	1	153	1	0	0	0	0	1	0	0	0	7927	1490	52	5	4190	5	ITSN2	2	24524030	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	12772987	24524030	218675343	32	54425										
C2orf16	84226	broad.mit.edu	37	chr2	27803210	27803210	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cctgggcactatgaattcacTcaagttcacaacctaccaga	6	13	3	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:27803210T>C	uc002rkz.3	+	1	3822	c.3771T>C	c.(3769-3771)ACT>ACC	p.T1257T	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1257										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					ATGAATTCACTCAAGTTCACA	0.448													71	184	---	---	---	---	PASS	C	27803210	C	C	27803210	2	2	153	1	0	0	0	0	0	0	0	1	2157	1538	54	5		5	C2orf16	2	27803210	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	3279180	27803210	215396163	33	54426										
XDH	7498	broad.mit.edu	37	chr2	31588976	31588976	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aacatttttgcaacaaagctCtgtgagtgaaagacagaaca	8	7	1	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:31588976C>G	uc002rnv.1	-	22	2402	c.2323_splice	c.e22-1	p.S775_splice		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase						purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	CAACAAAGCTCTGTGAGTGAA	0.493													47	142	---	---	---	---	PASS	G	31588976	G	G	31588976	5	3	153	1	0	0	0	0	0	0	1	0	17423	927	32	2	1739	2	XDH	2	31588976	Splice_Site	SNP	C	TCGA-66-2768-01A-01D-1522-08	3785766	31588976	211610397	34	54427										
EFEMP1	2202	broad.mit.edu	37	chr2	56102098	56102098	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	taccttgacatgttctacttCtcaccacttggtatccctgg	6	13	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:56102098C>G	uc002rzh.2	-	8	1313	c.983G>C	c.(982-984)AGA>ACA	p.R328T	EFEMP1_uc002rzi.2_Missense_Mutation_p.R328T|EFEMP1_uc002rzj.2_Missense_Mutation_p.R328T|EFEMP1_uc010ypc.1_Missense_Mutation_p.R190T	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	328	EGF-like 5; calcium-binding (Potential).|Mediates interaction with TIMP3.				negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TGTTCTACTTCTCACCACTTG	0.378													40	104	---	---	---	---	PASS	G	56102098	G	G	56102098	3	3	153	1	0	0	0	0	1	0	0	0	4941	913	32	2	514	2	EFEMP1	2	56102098	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	24513122	56102098	187097275	35	54428										
BCL11A	53335	broad.mit.edu	37	chr2	60688727	60688727	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gagctggcggtggagagaccGtcgtcggacttgaccgtcat	16	10	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:60688727G>A	uc002sae.1	-	4	1548	c.1320C>T	c.(1318-1320)GAC>GAT	p.D440D	BCL11A_uc002sab.2_Silent_p.D440D|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Silent_p.D109D|BCL11A_uc010ypj.1_Silent_p.D406D|BCL11A_uc002sad.1_Silent_p.D288D|BCL11A_uc002saf.1_Silent_p.D406D	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	440					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			TGGAGAGACCGTCGTCGGACT	0.647			T	IGH@	B-CLL								31	62	---	---	---	---	PASS	A	60688727	A	A	60688727	2	1	153	1	0	0	0	0	0	0	0	1	1363	1136	40	1		1	BCL11A	2	60688727	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	4586629	60688727	182510646	36	54429										
TMEM17	200728	broad.mit.edu	37	chr2	62728573	62728573	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agagcaagaaaagaattaaaGgtaactgcaatagaaggctc	10	5	0	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:62728573G>T	uc002sbt.2	-	4	708	c.368C>A	c.(367-369)CCT>CAT	p.P123H	TMEM17_uc002sbu.2_3'UTR|TMEM17_uc002sbv.1_3'UTR	NM_198276	NP_938017	Q86X19	TMM17_HUMAN	transmembrane protein 17	123	Helical; (Potential).					integral to membrane					0	Lung NSC(7;0.0274)|all_lung(7;0.0568)		LUSC - Lung squamous cell carcinoma(7;1.31e-05)|Epithelial(17;0.169)			AAGAATTAAAGGTAACTGCAA	0.373													42	105	---	---	---	---	PASS	T	62728573	T	T	62728573	3	4	153	1	0	0	0	0	1	0	0	0	16082	1000	35	3	232	3	TMEM17	2	62728573	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	2039846	62728573	180470800	37	54430										
THNSL2	55258	broad.mit.edu	37	chr2	88478390	88478390	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aagcacaatctgatgagcctGaattcgatcaactggtcccg	9	11	2	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:88478390G>A	uc002ssz.3	+	5	813	c.660G>A	c.(658-660)CTG>CTA	p.L220L	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_Silent_p.L220L|THNSL2_uc002ssx.3_Silent_p.L188L|THNSL2_uc002sta.3_Silent_p.L62L|THNSL2_uc002ssy.3_Silent_p.L220L|THNSL2_uc010fhe.2_Silent_p.L62L	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	220					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						TGATGAGCCTGAATTCGATCA	0.547													123	277	---	---	---	---	PASS	A	88478390	A	A	88478390	2	1	153	1	0	0	0	0	0	0	0	1	15860	1277	45	2		2	THNSL2	2	88478390	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	25749817	88478390	154720983	38	54431										
LOC285033	285033	broad.mit.edu	37	chr2	96906104	96906104	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gtcctcttactcctcagtatGtgagactgttcctcgtagca	8	12	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:96906104G>A	uc002svp.1	+	1	128	c.43G>A	c.(43-45)GTG>ATG	p.V15M	LOC285033_uc002svn.2_RNA|LOC285033_uc002svo.2_Intron	NM_001037228	NP_001032305	Q3KRF4	Q3KRF4_HUMAN	hypothetical protein LOC285033	15											0						TCCTCAGTATGTGAGACTGTT	0.393													27	74	---	---	---	---	PASS	A	96906104	A	A	96906104	3	1	153	1	0	0	0	0	1	0	0	0	8873	1377	48	3	45	3	LOC285033	2	96906104	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	8427714	96906104	146293269	39	54432										
FAM123C	205147	broad.mit.edu	37	chr2	131520132	131520132	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccaagaagtgctttcggaacCtattccacattcggagaaac	8	11	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:131520132C>T	uc002trw.2	+	2	677	c.487C>T	c.(487-489)CTA>TTA	p.L163L	FAM123C_uc010fmv.2_Silent_p.L163L|FAM123C_uc010fms.1_Silent_p.L163L|FAM123C_uc010fmt.1_Silent_p.L163L|FAM123C_uc010fmu.1_Silent_p.L163L	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	163										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		CTTTCGGAACCTATTCCACAT	0.617													25	94	---	---	---	---	PASS	T	131520132	T	T	131520132	2	4	153	1	0	0	0	0	0	0	0	1	5424	680	24	3		3	FAM123C	2	131520132	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	34614028	131520132	111679241	40	54433										
NEB	4703	broad.mit.edu	37	chr2	152483674	152483674	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atccatagacccaatggggaCccagccaatgcctctcagcc	8	16	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:152483674C>A	uc010fnx.2	-	66	9651	c.9460G>T	c.(9460-9462)GTC>TTC	p.V3154F		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3154	Nebulin 86.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CCAATGGGGACCCAGCCAATG	0.443													18	59	---	---	---	---	PASS	A	152483674	A	A	152483674	3	1	153	1	0	0	0	0	1	0	0	0	10302	507	18	3	15949	3	NEB	2	152483674	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	20963542	152483674	90715699	41	54434										
SCN3A	6328	broad.mit.edu	37	chr2	165952021	165952021	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aaaagctaaagaatacttatCttctttttctgctggttgaa	6	6	3	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:165952021C>G	uc002ucx.2	-	25	4923	c.4431G>C	c.(4429-4431)AAG>AAC	p.K1477N	SCN3A_uc010zcy.1_5'Flank|SCN3A_uc002ucy.2_Missense_Mutation_p.K1428N|SCN3A_uc002ucz.2_Missense_Mutation_p.K1428N	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1477						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	GAATACTTATCTTCTTTTTCT	0.338													40	89	---	---	---	---	PASS	G	165952021	G	G	165952021	3	3	153	1	0	0	0	0	1	0	0	0	13918	927	32	2	1587	2	SCN3A	2	165952021	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	13468347	165952021	77247352	42	54435										
SCN7A	6332	broad.mit.edu	37	chr2	167266365	167266365	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tctatcatcatggctattgcTtggaaacatataagaaccat	6	8	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:167266365T>C	uc002udu.1	-	24	3919	c.3792A>G	c.(3790-3792)CAA>CAG	p.Q1264Q		NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	1264	Helical; Name=S1 of repeat IV; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TGGCTATTGCTTGGAAACATA	0.358													4	21	---	---	---	---	PASS	C	167266365	C	C	167266365	2	2	153	1	0	0	0	0	0	0	0	1	13923	1606	56	5		5	SCN7A	2	167266365	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	1314344	167266365	75933008	43	54436										
XIRP2	129446	broad.mit.edu	37	chr2	168097228	168097228	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	accaagcatctcagtttcatCaatatgttcaagaaactggt	6	9	4	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:168097228C>G	uc002udx.2	+	6	1042	c.1024C>G	c.(1024-1026)CAA>GAA	p.Q342E	XIRP2_uc010fpn.2_Missense_Mutation_p.Q375E|XIRP2_uc010fpo.2_Missense_Mutation_p.Q342E|XIRP2_uc010fpp.2_Missense_Mutation_p.Q342E|XIRP2_uc002udy.2_Missense_Mutation_p.Q167E|XIRP2_uc010fpq.2_Missense_Mutation_p.Q120E|XIRP2_uc010fpr.2_Missense_Mutation_p.Q120E	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	167					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TCAGTTTCATCAATATGTTCA	0.338													37	142	---	---	---	---	PASS	G	168097228	G	G	168097228	3	3	153	1	0	0	0	0	1	0	0	0	17427	827	29	2	1046	2	XIRP2	2	168097228	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	830863	168097228	75102145	44	54437										
XIRP2	129446	broad.mit.edu	37	chr2	168103057	168103057	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atgtcaaacgtaccattcatAatttattgtcttccacatca	3	10	4	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:168103057A>T	uc002udx.2	+	8	5173	c.5155A>T	c.(5155-5157)AAT>TAT	p.N1719Y	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.N1544Y|XIRP2_uc010fpq.2_Missense_Mutation_p.N1497Y|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1544					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TACCATTCATAATTTATTGTC	0.348													39	101	---	---	---	---	PASS	T	168103057	T	T	168103057	3	4	153	1	0	0	0	0	1	0	0	0	17427	362	13	5	5185	5	XIRP2	2	168103057	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	5829	168103057	75096316	45	54438										
TTN	7273	broad.mit.edu	37	chr2	179515497	179515497	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccttctgggggaggagactcCgctctttctggaacaggaac	13	11	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:179515497C>G	uc010zfg.1	-	163	32612	c.32388G>C	c.(32386-32388)GCG>GCC	p.A10796A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc010fre.1_Intron|TTN_uc002umw.1_RNA|TTN_uc002umx.1_5'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11723							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)			GAGGAGACTCCGCTCTTTCTG	0.418													10	24	---	---	---	---	PASS	G	179515497	G	G	179515497	2	3	153	1	0	0	0	0	0	0	0	1	16732	639	23	4		4	TTN	2	179515497	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	11412440	179515497	63683876	46	54439										
TTN	7273	broad.mit.edu	37	chr2	179616708	179616708	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tggtctatgtcttcagaatcTgaaaaggcgtcacgtgtatc	10	8	5	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:179616708T>C	uc002unb.2	-	46	10643	c.10419A>G	c.(10417-10419)TCA>TCG	p.S3473S	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CTTCAGAATCTGAAAAGGCGT	0.358													165	416	---	---	---	---	PASS	C	179616708	C	C	179616708	2	2	153	1	0	0	0	0	0	0	0	1	16732	1567	55	5		5	TTN	2	179616708	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	101211	179616708	63582665	47	54440										
DNAJC10	54431	broad.mit.edu	37	chr2	183595823	183595823	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctggctgatcactttttgttCaaaaggaggaggtaatacta	10	6	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:183595823C>G	uc002uow.1	+	9	1209	c.794C>G	c.(793-795)TCA>TGA	p.S265*	DNAJC10_uc002uox.1_RNA|DNAJC10_uc002uoy.1_RNA|DNAJC10_uc002uoz.1_Nonsense_Mutation_p.S265*|DNAJC10_uc010fro.1_RNA	NM_018981	NP_061854	Q8IXB1	DJC10_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 10	265					apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|ER-associated protein catabolic process|glycerol ether metabolic process|negative regulation of protein phosphorylation|protein folding|response to endoplasmic reticulum stress	endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|extracellular region	ATPase activator activity|ATPase binding|chaperone binding|electron carrier activity|heat shock protein binding|misfolded protein binding|protein disulfide oxidoreductase activity|unfolded protein binding			ovary(1)|large_intestine(1)|breast(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			ACTTTTTGTTCAAAAGGAGGA	0.299													21	86	---	---	---	---	PASS	G	183595823	G	G	183595823	4	3	153	1	0	0	0	0	0	1	0	0	4629	838	29	2	820	2	DNAJC10	2	183595823	Nonsense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	3979115	183595823	59603550	48	54441										
DNAH7	56171	broad.mit.edu	37	chr2	196834815	196834815	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctccacaaaccgttcacaccGtaactaataaaaacaatttg	3	12	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:196834815G>A	uc002utj.3	-	17	2163	c.2062C>T	c.(2062-2064)CGG>TGG	p.R688W		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	688	Stem (By similarity).|Potential.				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CGTTCACACCGTAACTAATAA	0.303													41	124	---	---	---	---	PASS	A	196834815	A	A	196834815	3	1	153	1	0	0	0	0	1	0	0	0	4606	1144	40	1	10208	1	DNAH7	2	196834815	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	13238992	196834815	46364558	49	54442										
ZDBF2	57683	broad.mit.edu	37	chr2	207176266	207176266	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcttgtttacaacaacgtgaGagaatgatgactcggctagc	10	8	1	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:207176266G>C	uc002vbp.2	+	5	7264	c.7014G>C	c.(7012-7014)GAG>GAC	p.E2338D		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	2338							nucleic acid binding|zinc ion binding			ovary(3)	3						AACAACGTGAGAGAATGATGA	0.423													11	32	---	---	---	---	PASS	C	207176266	C	C	207176266	3	2	153	1	0	0	0	0	1	0	0	0	17596	933	33	2	7024	2	ZDBF2	2	207176266	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	10341451	207176266	36023107	50	54443										
IGFBP2	3485	broad.mit.edu	37	chr2	217498633	217498633	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gcgctggtcatgggcgagggCacttgtgagaagcgccggga	19	9	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:217498633C>T	uc010zjt.1	+	3	516	c.366C>T	c.(364-366)GGC>GGT	p.G122G	IGFBP2_uc010zju.1_Silent_p.G57G	NM_000597	NP_000588	P18065	IBP2_HUMAN	insulin-like growth factor binding protein 2,	129	IGFBP N-terminal.				positive regulation of activated T cell proliferation|regulation of cell growth|regulation of insulin-like growth factor receptor signaling pathway	extracellular space	insulin-like growth factor I binding|insulin-like growth factor II binding				0		Renal(323;0.0458)		Epithelial(149;2.9e-06)|all cancers(144;0.000223)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00968)		TGGGCGAGGGCACTTGTGAGA	0.687													9	19	---	---	---	---	PASS	T	217498633	T	T	217498633	2	4	153	1	0	0	0	0	0	0	0	1	7579	697	25	3		3	IGFBP2	2	217498633	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	10322367	217498633	25700740	51	54444										
PSMD1	5707	broad.mit.edu	37	chr2	231934768	231934768	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccaggaatgttagcttatagCcttaagctctgcatgtcttt	8	9	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:231934768C>A	uc002vrn.1	+	6	671	c.540C>A	c.(538-540)AGC>AGA	p.S180R	PSMD1_uc002vrm.1_Missense_Mutation_p.S180R|PSMD1_uc010fxu.1_Missense_Mutation_p.S44R	NM_002807	NP_002798	Q99460	PSMD1_HUMAN	proteasome 26S non-ATPase subunit 1	180					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding			ovary(1)|skin(1)	2		Ovarian(221;0.000626)|Medulloblastoma(418;0.0109)|Renal(207;0.0112)|Lung NSC(271;0.0538)|all_lung(227;0.0713)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;4e-26)|LUSC - Lung squamous cell carcinoma(224;0.0138)|Lung(119;0.0168)	Bortezomib(DB00188)	TAGCTTATAGCCTTAAGCTCT	0.308													23	133	---	---	---	---	PASS	A	231934768	A	A	231934768	3	1	153	1	0	0	0	0	1	0	0	0	12692	738	26	3	562	3	PSMD1	2	231934768	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	14436135	231934768	11264605	52	54445										
PASK	23178	broad.mit.edu	37	chr2	242045998	242045998	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgtttagctggtcagcagacGgggatccccgggatgcaaac	14	10	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:242045998G>A	uc002wao.1	-	18	4047	c.3955C>T	c.(3955-3957)CGT>TGT	p.R1319C	PASK_uc010zol.1_Missense_Mutation_p.R1133C|PASK_uc010zom.1_Missense_Mutation_p.R1284C|PASK_uc010fzl.1_Missense_Mutation_p.R1326C|PASK_uc010zon.1_Missense_Mutation_p.R1100C	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	1319					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		GTCAGCAGACGGGGATCCCCG	0.532													65	208	---	---	---	---	PASS	A	242045998	A	A	242045998	3	1	153	1	0	0	0	0	1	0	0	0	11472	1116	39	1	20	1	PASK	2	242045998	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	10111230	242045998	1153375	53	54446										
BOK	666	broad.mit.edu	37	chr2	242511735	242511735	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gatgtcctcaagtgtgtggtCagcacagaccctggcctccg	12	13	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr2:242511735C>T	uc002wbq.2	+	5	783	c.537C>T	c.(535-537)GTC>GTT	p.V179V	BOK_uc002wbr.2_5'Flank	NM_032515	NP_115904	Q9UMX3	BOK_HUMAN	BCL2-related ovarian killer	179					activation of caspase activity|cell proliferation|signal transduction by p53 class mediator resulting in induction of apoptosis	mitochondrial membrane|nucleus				ovary(1)	1		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;2.04e-33)|all cancers(36;7.87e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.52e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.64e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0835)		AGTGTGTGGTCAGCACAGACC	0.647													4	22	---	---	---	---	PASS	T	242511735	T	T	242511735	2	4	153	1	0	0	0	0	0	0	0	1	1484	813	29	2		2	BOK	2	242511735	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	465737	242511735	687638	54	54447										
DCLK3	85443	broad.mit.edu	37	chr3	36756941	36756941	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgtttcgatccaggggtgctGaagaacctgatgagctgtgt	14	7	0	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:36756941G>A	uc003cgi.2	-	5	2316	c.1825C>T	c.(1825-1827)CAG>TAG	p.Q609*		NM_033403	NP_208382	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	609	Protein kinase.					cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			lung(3)|large_intestine(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	9						CAGGGGTGCTGAAGAACCTGA	0.542													23	53	---	---	---	---	PASS	A	36756941	A	A	36756941	4	1	153	1	0	0	0	0	0	1	0	0	4293	1299	45	2	125	2	DCLK3	3	36756941	Nonsense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08		36756941	161265489	55	54448										
XIRP1	165904	broad.mit.edu	37	chr3	39230687	39230687	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gtcaccctcggtgggttcctCagagcccaggacctcagcca	11	16	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:39230687C>T	uc003cjk.1	-	2	471	c.250G>A	c.(250-252)GAG>AAG	p.E84K	XIRP1_uc003cji.2_Missense_Mutation_p.E84K|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	84							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		GTGGGTTCCTCAGAGCCCAGG	0.607													26	41	---	---	---	---	PASS	T	39230687	T	T	39230687	3	4	153	1	0	0	0	0	1	0	0	0	17426	835	29	2	5285	2	XIRP1	3	39230687	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	2473746	39230687	158791743	56	54449										
LTF	4057	broad.mit.edu	37	chr3	46487958	46487958	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aggtctatccacacagttagGatcagggtcactgctttgtt	10	9	3	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:46487958G>T	uc003cpq.2	-	11	1368	c.1330C>A	c.(1330-1332)CCT>ACT	p.P444T	LTF_uc003fzr.2_Missense_Mutation_p.P400T|LTF_uc010hjh.2_Missense_Mutation_p.P442T|LTF_uc003cpr.2_Missense_Mutation_p.P431T	NM_002343	NP_002334	P02788	TRFL_HUMAN	lactotransferrin precursor	444	Transferrin-like 2.				cellular iron ion homeostasis|defense response to bacterium|humoral immune response|iron ion transport	extracellular region|stored secretory granule	ferric iron binding|heparin binding|protein binding|serine-type endopeptidase activity			central_nervous_system(2)|ovary(1)|lung(1)	4				all cancers(1;7.55e-14)|GBM - Glioblastoma multiforme(1;2.1e-09)|Epithelial(1;9.25e-07)|Colorectal(1;3.81e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00129)|COAD - Colon adenocarcinoma(1;0.00308)|KIRC - Kidney renal clear cell carcinoma(197;0.0205)|Kidney(197;0.0242)|OV - Ovarian serous cystadenocarcinoma(275;0.089)	Pefloxacin(DB00487)	ACACAGTTAGGATCAGGGTCA	0.438													31	57	---	---	---	---	PASS	T	46487958	T	T	46487958	3	4	153	1	0	0	0	0	1	0	0	0	9079	1174	41	2	830	2	LTF	3	46487958	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	7257271	46487958	151534472	57	54450										
SLC25A20	788	broad.mit.edu	37	chr3	48900089	48900089	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gctttctcctgaagaagcctGaatctgggagggaggagagg	16	7	2	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:48900089G>C	uc003cva.3	-	5	596	c.421C>G	c.(421-423)CAG>GAG	p.Q141E	SLC25A20_uc011bbw.1_Missense_Mutation_p.Q91E|SLC25A20_uc010hkj.2_Missense_Mutation_p.Q68E	NM_000387	NP_000378	O43772	MCAT_HUMAN	carnitine/acylcarnitine translocase	141	Solcar 2.|Mitochondrial matrix (Potential).				carnitine shuttle|cellular lipid metabolic process|regulation of fatty acid oxidation	integral to membrane|mitochondrial inner membrane	acyl carnitine transporter activity				0				BRCA - Breast invasive adenocarcinoma(193;0.000168)|Kidney(197;0.00231)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	L-Carnitine(DB00583)	GAAGAAGCCTGAATCTGGGAG	0.473													21	27	---	---	---	---	PASS	C	48900089	C	C	48900089	3	2	153	1	0	0	0	0	1	0	0	0	14483	1299	45	2	504	2	SLC25A20	3	48900089	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	2412131	48900089	149122341	58	54451										
SLC38A3	10991	broad.mit.edu	37	chr3	50256291	50256291	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccaggagttcagctggctgcGgcatgtgcttattgccgttg	14	10	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:50256291G>C	uc003cyn.3	+	14	1358	c.1217G>C	c.(1216-1218)CGG>CCG	p.R406P		NM_006841	NP_006832	Q99624	S38A3_HUMAN	solute carrier family 38, member 3	406					cellular nitrogen compound metabolic process|sodium ion transport	integral to plasma membrane	antiporter activity|L-alanine transmembrane transporter activity|L-asparagine transmembrane transporter activity|L-glutamine transmembrane transporter activity|L-histidine transmembrane transporter activity|symporter activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000275)|KIRC - Kidney renal clear cell carcinoma(197;0.00548)|Kidney(197;0.00615)	L-Asparagine(DB00174)|L-Glutamine(DB00130)|L-Histidine(DB00117)	AGCTGGCTGCGGCATGTGCTT	0.582													24	36	---	---	---	---	PASS	C	50256291	C	C	50256291	3	2	153	1	0	0	0	0	1	0	0	0	14605	1116	39	4	1267	4	SLC38A3	3	50256291	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	1356202	50256291	147766139	59	54452										
C3orf18	51161	broad.mit.edu	37	chr3	50602963	50602963	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agcatggtacccacgccggcCgtgccaccagctgcatcagg	12	16	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:50602963C>A	uc003das.2	-	2	619	c.168G>T	c.(166-168)ACG>ACT	p.T56T	C3orf18_uc003dar.2_Silent_p.T56T|C3orf18_uc011bdr.1_Intron|C3orf18_uc010hlo.2_Silent_p.T56T|C3orf18_uc010hlp.2_Intron|C3orf18_uc003dat.2_Silent_p.T56T	NM_016210	NP_057294	Q9UK00	CC018_HUMAN	hypothetical protein LOC51161	56						integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.0175)|Kidney(197;0.0207)		CCACGCCGGCCGTGCCACCAG	0.602													19	35	---	---	---	---	PASS	A	50602963	A	A	50602963	2	1	153	1	0	0	0	0	0	0	0	1	2211	639	23	1		1	C3orf18	3	50602963	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	346672	50602963	147419467	60	54453										
STAB1	23166	broad.mit.edu	37	chr3	52555005	52555005	+	Frame_Shift_Del	DEL	T	-	-													0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agctgctgccctggtcactaTggcagtgagtgccaaggtga							TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:52555005delT	uc003dej.2	+	55	5966	c.5892delT	c.(5890-5892)TATfs	p.Y1964fs	STAB1_uc003dek.1_5'UTR|STAB1_uc003del.2_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1964	Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CTGGTCACTATGGCAGTGAGT	0.602													30	15	---	---	---	---		-	52555005	-	-	52555005	7	5	153	1	0	1	0	1	0	0	0	0	15236	1471	51	0	6110	0	STAB1	3	52555005	Frame_Shift_Del	DEL	T	TCGA-66-2768-01A-01D-1522-08	1952042	52555005	145467425	61	54454										
PDZRN3	23024	broad.mit.edu	37	chr3	73433565	73433565	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gctgttgtgcagcatccaggActcgcggtactgctccttga	12	12	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:73433565A>T	uc003dpl.1	-	10	2248	c.2152T>A	c.(2152-2154)TCC>ACC	p.S718T	PDZRN3_uc011bgh.1_Missense_Mutation_p.S375T|PDZRN3_uc010hoe.1_Missense_Mutation_p.S416T|PDZRN3_uc011bgf.1_Missense_Mutation_p.S435T|PDZRN3_uc011bgg.1_Missense_Mutation_p.S438T	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	718							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		AGCATCCAGGACTCGCGGTAC	0.602													13	25	---	---	---	---	PASS	T	73433565	T	T	73433565	3	4	153	1	0	0	0	0	1	0	0	0	11709	275	10	5	1052	5	PDZRN3	3	73433565	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	20878560	73433565	124588865	62	54455										
EPHA3	2042	broad.mit.edu	37	chr3	89448476	89448476	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctgacctcaaagcaggaacaAgaaacaagttataccattct	6	10	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:89448476A>G	uc003dqy.2	+	7	1665	c.1440A>G	c.(1438-1440)CAA>CAG	p.Q480Q	EPHA3_uc003dqx.1_Silent_p.Q480Q|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	480	Extracellular (Potential).|Fibronectin type-III 2.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		AGCAGGAACAAGAAACAAGTT	0.368										TSP Lung(6;0.00050)			31	128	---	---	---	---	PASS	G	89448476	G	G	89448476	2	3	153	1	0	0	0	0	0	0	0	1	5168	69	3	5		5	EPHA3	3	89448476	Silent	SNP	A	TCGA-66-2768-01A-01D-1522-08	16014911	89448476	108573954	63	54456										
TOMM70A	9868	broad.mit.edu	37	chr3	100105171	100105171	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gcttttgtacagtcttgtgcCacttctttccatttttgctg	7	10	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:100105171C>T	uc003dtw.2	-	3	948	c.516G>A	c.(514-516)GTG>GTA	p.V172V		NM_014820	NP_055635	O94826	TOM70_HUMAN	translocase of outer mitochondrial membrane 70	172	Cytoplasmic (Potential).|TPR 2.				protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane translocase complex	protein binding|protein transmembrane transporter activity			ovary(1)	1						AGTCTTGTGCCACTTCTTTCC	0.333													41	102	---	---	---	---	PASS	T	100105171	T	T	100105171	2	4	153	1	0	0	0	0	0	0	0	1	16359	581	21	3		3	TOMM70A	3	100105171	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	10656695	100105171	97917259	64	54457										
CD47	961	broad.mit.edu	37	chr3	107789994	107789995	+	Frame_Shift_Ins	INS	-	A	A													0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gcaaaaattgggaaaataacINSaataagaatattttcatttg							TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:107789994_107789995insA	uc003dwt.1	-	3	615_616	c.435_436insT	c.(433-438)ATTGTTfs	p.I145fs	CD47_uc003dwu.1_Frame_Shift_Ins_p.I145fs|CD47_uc003dwv.1_Frame_Shift_Ins_p.I145fs|CD47_uc003dww.1_Frame_Shift_Ins_p.I145fs	NM_001777	NP_001768	Q08722	CD47_HUMAN	CD47 antigen isoform 1 precursor	145_146	Helical; (Potential).				blood coagulation|cell adhesion|cell junction assembly|integrin-mediated signaling pathway|leukocyte migration|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to plasma membrane	protein binding|thrombospondin receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(3;0.0191)|Epithelial(53;0.118)			GGGAAAATAACAATAAGAATAT	0.282													21	10	---	---	---	---		A	107789995	A	A	107789994	7	5	153	1	0	1	1	0	0	0	0	0	3019	478	17	0	575	0	CD47	3	107789994	Frame_Shift_Ins	INS	-	TCGA-66-2768-01A-01D-1522-08	7684823	107789994	90232436	65	54458										
MORC1	27136	broad.mit.edu	37	chr3	108813790	108813790	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atcacatcaaactgctgcatCaattctgcttcagttttaaa	4	10	5	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:108813790C>T	uc003dxl.2	-	7	636	c.549G>A	c.(547-549)TTG>TTA	p.L183L	MORC1_uc011bhn.1_Silent_p.L183L	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	183					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						ACTGCTGCATCAATTCTGCTT	0.328													33	69	---	---	---	---	PASS	T	108813790	T	T	108813790	2	4	153	1	0	0	0	0	0	0	0	1	9701	825	29	2		2	MORC1	3	108813790	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	1023796	108813790	89208640	66	54459										
SLC9A10	285335	broad.mit.edu	37	chr3	111999533	111999533	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcatttacaatacacacctgTgaagatgtaaagcttaatac	5	8	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:111999533T>C	uc003dyu.2	-	3	408	c.186A>G	c.(184-186)TCA>TCG	p.S62S	SLC9A10_uc011bhu.1_5'UTR|SLC9A10_uc010hqc.2_Silent_p.S62S	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	62					cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						TACACACCTGTGAAGATGTAA	0.328													37	71	---	---	---	---	PASS	C	111999533	C	C	111999533	2	2	153	1	0	0	0	0	0	0	0	1	14710	1683	59	5		5	SLC9A10	3	111999533	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	3185743	111999533	86022897	67	54460										
C3orf17	25871	broad.mit.edu	37	chr3	112729979	112729979	+	Missense_Mutation	SNP	T	A	A													0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttgtttagctttttttgaaaTtccaagcaaggtttcttcac							TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:112729979T>A	uc003dzr.2	-	6	887	c.826A>T	c.(826-828)ATT>TTT	p.I276F	GTPBP8_uc011bhy.1_Intron|C3orf17_uc003dzq.2_5'Flank|C3orf17_uc011bhz.1_Intron|C3orf17_uc010hqh.2_Intron|C3orf17_uc003dzt.2_Missense_Mutation_p.I179F|C3orf17_uc003dzs.2_Missense_Mutation_p.I140F|C3orf17_uc010hqg.2_Missense_Mutation_p.I101F|C3orf17_uc011bia.1_Missense_Mutation_p.I73F|C3orf17_uc003dzu.2_Missense_Mutation_p.I205F|C3orf17_uc011bib.1_Missense_Mutation_p.I165F|C3orf17_uc011bic.1_Missense_Mutation_p.I109F|C3orf17_uc011bid.1_RNA	NM_015412	NP_056227	Q6NW34	CC017_HUMAN	hypothetical protein LOC25871	276						integral to membrane					0						TTTTTTGAAATTCCAAGCAAG	0.333													27	145	---	---	---	---	PASS	A	112729979	A	A	112729979	3	1	153	1	0	0	0	0	1	0	0	0	2210	1493	52	5	893	5	C3orf17	3	112729979	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	730446	112729979	85292451	68	54461	982	2								
C3orf17	25871	broad.mit.edu	37	chr3	112729980	112729980	+	Silent	SNP	T	A	A													0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgtttagctttttttgaaatTccaagcaaggtttcttcact							TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:112729980T>A	uc003dzr.2	-	6	886	c.825A>T	c.(823-825)GGA>GGT	p.G275G	GTPBP8_uc011bhy.1_Intron|C3orf17_uc003dzq.2_5'Flank|C3orf17_uc011bhz.1_Intron|C3orf17_uc010hqh.2_Intron|C3orf17_uc003dzt.2_Silent_p.G178G|C3orf17_uc003dzs.2_Silent_p.G139G|C3orf17_uc010hqg.2_Silent_p.G100G|C3orf17_uc011bia.1_Silent_p.G72G|C3orf17_uc003dzu.2_Silent_p.G204G|C3orf17_uc011bib.1_Silent_p.G164G|C3orf17_uc011bic.1_Silent_p.G108G|C3orf17_uc011bid.1_RNA	NM_015412	NP_056227	Q6NW34	CC017_HUMAN	hypothetical protein LOC25871	275						integral to membrane					0						TTTTTGAAATTCCAAGCAAGG	0.328													26	146	---	---	---	---	PASS	A	112729980	A	A	112729980	2	1	153	1	0	0	0	0	0	0	0	1	2210	1770	62	5		5	C3orf17	3	112729980	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	1	112729980	85292450	69	54462	982	2								
PLXNA1	5361	broad.mit.edu	37	chr3	126708343	126708343	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttgagttccccattggctgcGagcaggcgggtgtggagtac	16	9	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:126708343G>T	uc003ejg.2	+	1	842	c.838G>T	c.(838-840)GAG>TAG	p.E280*		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	303	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CATTGGCTGCGAGCAGGCGGG	0.657													36	183	---	---	---	---	PASS	T	126708343	T	T	126708343	4	4	153	1	0	0	0	0	0	1	0	0	12119	1059	37	2	909	2	PLXNA1	3	126708343	Nonsense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	13978363	126708343	71314087	70	54463										
RPN1	6184	broad.mit.edu	37	chr3	128350847	128350847	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctgtctctggtaatcatagcGtgagaaaggccccttaagca	10	10	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:128350847G>A	uc003ekr.1	-	4	863	c.787C>T	c.(787-789)CGC>TGC	p.R263C	RPN1_uc011bkq.1_Missense_Mutation_p.R91C	NM_002950	NP_002941	P04843	RPN1_HUMAN	ribophorin I precursor	263	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|melanosome|oligosaccharyltransferase complex|rough microsome	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding	p.R263fs*3(1)		ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(114;0.189)		TAATCATAGCGTGAGAAAGGC	0.438			T	EVI1	AML								64	151	---	---	---	---	PASS	A	128350847	A	A	128350847	3	1	153	1	0	0	0	0	1	0	0	0	13607	1145	40	1	1064	1	RPN1	3	128350847	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	1642504	128350847	69671583	71	54464										
PLXND1	23129	broad.mit.edu	37	chr3	129290379	129290379	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcccggccaatgtggtggacGgccatggacacattctgcac	12	13	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:129290379G>A	uc003emx.2	-	17	3409	c.3309C>T	c.(3307-3309)GCC>GCT	p.A1103A		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1103	Extracellular (Potential).|IPT/TIG 3.				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						TGTGGTGGACGGCCATGGACA	0.647													35	68	---	---	---	---	PASS	A	129290379	A	A	129290379	2	1	153	1	0	0	0	0	0	0	0	1	12127	1103	39	1		1	PLXND1	3	129290379	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	939532	129290379	68732051	72	54465										
PCCB	5096	broad.mit.edu	37	chr3	136016889	136016889	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgagcagtcaggacccggctCccgtccgtgagtgccacgat	13	14	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:136016889C>G	uc003eqy.1	+	8	910	c.859C>G	c.(859-861)CCC>GCC	p.P287A	PCCB_uc003eqz.1_Missense_Mutation_p.P287A|PCCB_uc011bmc.1_Missense_Mutation_p.P307A|PCCB_uc011bmd.1_Missense_Mutation_p.P204A	NM_000532	NP_000523	P05166	PCCB_HUMAN	propionyl Coenzyme A carboxylase, beta	287	Carboxyltransferase.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|propionyl-CoA carboxylase activity				0					Biotin(DB00121)|L-Valine(DB00161)	GGACCCGGCTCCCGTCCGTGA	0.557													72	327	---	---	---	---	PASS	G	136016889	G	G	136016889	3	3	153	1	0	0	0	0	1	0	0	0	11505	855	30	2	953	2	PCCB	3	136016889	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	6726510	136016889	62005541	73	54466										
SOX14	8403	broad.mit.edu	37	chr3	137484266	137484266	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggtctgcctccaccctgcagCcccccgtcgcctacatcctc	7	22	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:137484266C>G	uc003erm.1	+	1	688	c.640C>G	c.(640-642)CCC>GCC	p.P214A		NM_004189	NP_004180	O95416	SOX14_HUMAN	SRY-box 14	214					negative regulation of transcription from RNA polymerase II promoter|nervous system development|transcription, DNA-dependent	nucleus	sequence-specific DNA binding				0						CACCCTGCAGCCCCCCGTCGC	0.662													11	39	---	---	---	---	PASS	G	137484266	G	G	137484266	3	3	153	1	0	0	0	0	1	0	0	0	14945	739	26	4	642	4	SOX14	3	137484266	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	1467377	137484266	60538164	74	54467										
CPB1	1360	broad.mit.edu	37	chr3	148552344	148552344	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cctcacagtacagttgacttCcgtgttaaagcagaagatac	8	10	1	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:148552344C>T	uc003ewl.2	+	3	230	c.207C>T	c.(205-207)TTC>TTT	p.F69F		NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein	69					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			CAGTTGACTTCCGTGTTAAAG	0.328													53	213	---	---	---	---	PASS	T	148552344	T	T	148552344	2	4	153	1	0	0	0	0	0	0	0	1	3796	854	30	2		2	CPB1	3	148552344	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	11068078	148552344	49470086	75	54468										
MME	4311	broad.mit.edu	37	chr3	154860077	154860077	+	Missense_Mutation	SNP	C	A	A													0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ataatggatcttgtaagcagCctcagccgaacctacaagga							TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:154860077C>A	uc010hvr.1	+	12	1357	c.1146C>A	c.(1144-1146)AGC>AGA	p.S382R	MME_uc003fab.1_Missense_Mutation_p.S382R|MME_uc003fac.1_Missense_Mutation_p.S382R|MME_uc003fad.1_Missense_Mutation_p.S382R|MME_uc003fae.1_Missense_Mutation_p.S382R	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	382	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	TTGTAAGCAGCCTCAGCCGAA	0.388													41	234	---	---	---	---	PASS	A	154860077	A	A	154860077	3	1	153	1	0	0	0	0	1	0	0	0	9645	738	26	3	1188	3	MME	3	154860077	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	6307733	154860077	43162353	76	54469	983	2								
MME	4311	broad.mit.edu	37	chr3	154860078	154860078	+	Missense_Mutation	SNP	C	A	A													0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	taatggatcttgtaagcagcCtcagccgaacctacaaggag							TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:154860078C>A	uc010hvr.1	+	12	1358	c.1147C>A	c.(1147-1149)CTC>ATC	p.L383I	MME_uc003fab.1_Missense_Mutation_p.L383I|MME_uc003fac.1_Missense_Mutation_p.L383I|MME_uc003fad.1_Missense_Mutation_p.L383I|MME_uc003fae.1_Missense_Mutation_p.L383I	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	383	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	TGTAAGCAGCCTCAGCCGAAC	0.388													40	234	---	---	---	---	PASS	A	154860078	A	A	154860078	3	1	153	1	0	0	0	0	1	0	0	0	9645	681	24	3	1189	3	MME	3	154860078	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	1	154860078	43162352	77	54470	983	2								
PLCH1	23007	broad.mit.edu	37	chr3	155199743	155199743	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgttagagaaagattttctgAttctccatcaatttccacaa	5	8	3	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:155199743A>C	uc011bok.1	-	23	4373	c.4096T>G	c.(4096-4098)TCA>GCA	p.S1366A	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.S1328A	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1366					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			AGATTTTCTGATTCTCCATCA	0.448													17	198	---	---	---	---	PASS	C	155199743	C	C	155199743	3	2	153	1	0	0	0	0	1	0	0	0	12037	333	12	5	989	5	PLCH1	3	155199743	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	339665	155199743	42822687	78	54471										
PLCH1	23007	broad.mit.edu	37	chr3	155203198	155203198	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctgtttcagatacaggcagcGacaaagctcccagaaggttt	10	10	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:155203198G>T	uc011bok.1	-	22	3222	c.2945C>A	c.(2944-2946)TCG>TAG	p.S982*	PLCH1_uc011boj.1_Nonsense_Mutation_p.S982*|PLCH1_uc011bol.1_Nonsense_Mutation_p.S944*	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	982					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TACAGGCAGCGACAAAGCTCC	0.468													84	196	---	---	---	---	PASS	T	155203198	T	T	155203198	4	4	153	1	0	0	0	0	0	1	0	0	12037	1059	37	2	2159	2	PLCH1	3	155203198	Nonsense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	3455	155203198	42819232	79	54472										
SLC33A1	9197	broad.mit.edu	37	chr3	155571554	155571554	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gaagcacgtaaagaaagagtAgtagcaaaatgctgcttagt	11	5	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:155571554A>T	uc003fan.3	-	1	614	c.233T>A	c.(232-234)CTA>CAA	p.L78Q	SLC33A1_uc003fao.1_Missense_Mutation_p.L78Q	NM_004733	NP_004724	O00400	ACATN_HUMAN	acetyl-coenzyme A transporter	78	Helical; (Potential).				cell death|transmembrane transport	endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane|membrane fraction	acetyl-CoA transporter activity			ovary(2)|large_intestine(1)|pancreas(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			AAGAAAGAGTAGTAGCAAAAT	0.512													114	168	---	---	---	---	PASS	T	155571554	T	T	155571554	3	4	153	1	0	0	0	0	1	0	0	0	14566	420	15	5	1440	5	SLC33A1	3	155571554	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	368356	155571554	42450876	80	54473										
IFT80	57560	broad.mit.edu	37	chr3	160003629	160003629	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttccatcacctaacggctttCcggttgatgcctcaaagagg	9	12	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:160003629C>A	uc011boy.1	-	13	1776	c.1343G>T	c.(1342-1344)GGA>GTA	p.G448V	IFT80_uc003fda.2_RNA|IFT80_uc003fdb.1_Missense_Mutation_p.G311V|IFT80_uc003fdd.1_Missense_Mutation_p.G131V|IFT80_uc003fde.1_Missense_Mutation_p.G311V	NM_020800	NP_065851	Q9P2H3	IFT80_HUMAN	WD repeat domain 56	448						cilium axoneme|microtubule basal body				ovary(1)	1			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TAACGGCTTTCCGGTTGATGC	0.284													21	139	---	---	---	---	PASS	A	160003629	A	A	160003629	3	1	153	1	0	0	0	0	1	0	0	0	7564	855	30	2	1022	2	IFT80	3	160003629	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	4432075	160003629	38018801	81	54474										
GPR160	26996	broad.mit.edu	37	chr3	169802048	169802048	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	actaaataccacatctgcctAtttactcaaattatttcctt	1	11	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:169802048A>T	uc003fgi.2	+	4	878	c.288A>T	c.(286-288)CTA>CTT	p.L96L	GPR160_uc010hwq.2_Silent_p.L96L	NM_014373	NP_055188	Q9UJ42	GP160_HUMAN	G protein-coupled receptor 160	96	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_cancers(22;3.26e-22)|all_epithelial(15;5.71e-27)|all_lung(20;8.41e-17)|Lung NSC(18;3.49e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			ACATCTGCCTATTTACTCAAA	0.313													52	226	---	---	---	---	PASS	T	169802048	T	T	169802048	2	4	153	1	0	0	0	0	0	0	0	1	6664	436	16	5		5	GPR160	3	169802048	Silent	SNP	A	TCGA-66-2768-01A-01D-1522-08	9798419	169802048	28220382	82	54475										
NLGN1	22871	broad.mit.edu	37	chr3	173996720	173996720	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggctgttagttttcaacctgCaaaatatgctagaatgttgg	10	6	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:173996720C>T	uc003fio.1	+	6	1352	c.929C>T	c.(928-930)GCA>GTA	p.A310V	NLGN1_uc010hww.1_Missense_Mutation_p.A350V|NLGN1_uc003fip.1_Missense_Mutation_p.A310V	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	327	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TTTCAACCTGCAAAATATGCT	0.393													116	196	---	---	---	---	PASS	T	173996720	T	T	173996720	3	4	153	1	0	0	0	0	1	0	0	0	10461	710	25	3	943	3	NLGN1	3	173996720	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	4194672	173996720	24025710	83	54476										
CHRD	8646	broad.mit.edu	37	chr3	184100882	184100882	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgctgggggagctgcagatgGccctggagtgggcaggcagg	21	8	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:184100882G>T	uc003fov.2	+	10	1390	c.1144G>T	c.(1144-1146)GCC>TCC	p.A382S	CHRD_uc003fow.2_Missense_Mutation_p.A12S|CHRD_uc003fox.2_Missense_Mutation_p.A382S|CHRD_uc003foy.2_Missense_Mutation_p.A12S|CHRD_uc010hyc.2_Missense_Mutation_p.A12S|CHRD_uc011brr.1_Missense_Mutation_p.A12S	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	382	CHRD 2.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCTGCAGATGGCCCTGGAGTG	0.677													4	18	---	---	---	---	PASS	T	184100882	T	T	184100882	3	4	153	1	0	0	0	0	1	0	0	0	3372	1203	42	3	1182	3	CHRD	3	184100882	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	10104162	184100882	13921548	84	54477										
LIPH	200879	broad.mit.edu	37	chr3	185232237	185232237	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tggtgtttccagctttgtctCtcaatttgatggtaatgtcc	9	8	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:185232237C>G	uc003fpm.2	-	8	1165	c.1055G>C	c.(1054-1056)AGA>ACA	p.R352T	LIPH_uc010hyh.2_Missense_Mutation_p.R318T	NM_139248	NP_640341	Q8WWY8	LIPH_HUMAN	lipase, member H precursor	352					lipid catabolic process	extracellular space|plasma membrane	heparin binding|phospholipase activity			ovary(1)|pancreas(1)	2	all_cancers(143;8.87e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			AGCTTTGTCTCTCAATTTGAT	0.363													83	379	---	---	---	---	PASS	G	185232237	G	G	185232237	3	3	153	1	0	0	0	0	1	0	0	0	8824	913	32	2	312	2	LIPH	3	185232237	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	1131355	185232237	12790193	85	54478										
PIGZ	80235	broad.mit.edu	37	chr3	196678730	196678730	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	actggaagaactcatctgggTgcacatagcccgtctgcgga	12	11	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr3:196678730T>C	uc003fxh.2	-	2	320	c.173A>G	c.(172-174)CAC>CGC	p.H58R		NM_025163	NP_079439	Q86VD9	PIGZ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	58					GPI anchor biosynthetic process	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			ovary(3)	3	all_cancers(143;1.05e-08)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.29e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00603)		CTCATCTGGGTGCACATAGCC	0.572													24	83	---	---	---	---	PASS	C	196678730	C	C	196678730	3	2	153	1	0	0	0	0	1	0	0	0	11905	1696	59	5	1574	5	PIGZ	3	196678730	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	11446493	196678730	1343700	86	54479										
PIGG	54872	broad.mit.edu	37	chr4	517344	517344	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gcctgggcgccagcagcttcGtggaggaggagcaccagacc	16	13	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:517344G>A	uc003gak.3	+	9	1847	c.1711G>A	c.(1711-1713)GTG>ATG	p.V571M	PIGG_uc003gaj.3_Missense_Mutation_p.V563M|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Missense_Mutation_p.V438M|PIGG_uc003gal.3_Missense_Mutation_p.V482M	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	571	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						CAGCAGCTTCGTGGAGGAGGA	0.557													82	207	---	---	---	---	PASS	A	517344	A	A	517344	3	1	153	1	0	0	0	0	1	0	0	0	11888	1145	40	1	1745	1	PIGG	4	517344	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08		517344	190636932	87	54480										
GAK	2580	broad.mit.edu	37	chr4	860951	860951	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agctggccctgcgcccacctCggagtgcaggcccaggaggt	15	15	0	0	rs150706546		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:860951C>T	uc003gbm.3	-	21	2864	c.2665G>A	c.(2665-2667)GAG>AAG	p.E889K	GAK_uc003gbn.3_Missense_Mutation_p.E810K|GAK_uc010ibk.1_Missense_Mutation_p.E783K|GAK_uc010ibi.2_Missense_Mutation_p.E70K|GAK_uc010ibj.2_RNA|GAK_uc003gbl.3_Missense_Mutation_p.E753K	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	889					cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		GCGCCCACCTCGGAGTGCAGG	0.687													19	32	---	---	---	---	PASS	T	860951	T	T	860951	3	4	153	1	0	0	0	0	1	0	0	0	6195	893	31	2	1302	2	GAK	4	860951	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	343607	860951	190293325	88	54481										
ABLIM2	84448	broad.mit.edu	37	chr4	8089962	8089962	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cagggaacacttctggcacaTgcattccttcccgttgaagg	10	12	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:8089962T>A	uc003gko.2	-	4	531	c.388A>T	c.(388-390)ATG>TTG	p.M130L	ABLIM2_uc003gkj.3_Missense_Mutation_p.M130L|ABLIM2_uc003gkm.3_Missense_Mutation_p.M130L|ABLIM2_uc003gkp.2_Missense_Mutation_p.M130L|ABLIM2_uc003gkq.2_Missense_Mutation_p.M130L|ABLIM2_uc003gkr.2_Missense_Mutation_p.M130L|ABLIM2_uc003gks.3_Missense_Mutation_p.M130L|ABLIM2_uc011bwl.1_Missense_Mutation_p.M135L	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	130	LIM zinc-binding 2.				axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3						TTCTGGCACATGCATTCCTTC	0.632													12	34	---	---	---	---	PASS	A	8089962	A	A	8089962	3	1	153	1	0	0	0	0	1	0	0	0	95	1464	51	5	1675	5	ABLIM2	4	8089962	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	7229011	8089962	183064314	89	54482										
RAB28	9364	broad.mit.edu	37	chr4	13370215	13370215	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cacatagagcttctaggaggGttaacagtccttgacatagg	11	8	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:13370215G>A	uc003gmu.2	-	7	848	c.633C>T	c.(631-633)AAC>AAT	p.N211N	RAB28_uc003gmt.2_3'UTR|RAB28_uc011bwz.1_3'UTR|RAB28_uc003gmv.2_RNA	NM_001017979	NP_001017979	P51157	RAB28_HUMAN	RAB28, member RAS oncogene family isoform 1	211					small GTPase mediated signal transduction	plasma membrane	GDP binding|GTP binding|GTPase activity			ovary(1)|skin(1)	2						TTCTAGGAGGGTTAACAGTCC	0.443													39	98	---	---	---	---	PASS	A	13370215	A	A	13370215	2	1	153	1	0	0	0	0	0	0	0	1	12916	1252	44	3		3	RAB28	4	13370215	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	5280253	13370215	177784061	90	54483										
BOD1L	259282	broad.mit.edu	37	chr4	13602889	13602889	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agttgaagcatgcccaatttCatttcctcttccagtactag	6	11	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:13602889C>T	uc003gmz.1	-	10	5752	c.5635G>A	c.(5635-5637)GAA>AAA	p.E1879K	BOD1L_uc010idr.1_Missense_Mutation_p.E1216K	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1879							DNA binding			ovary(5)|breast(1)	6						TGCCCAATTTCATTTCCTCTT	0.473													55	159	---	---	---	---	PASS	T	13602889	T	T	13602889	3	4	153	1	0	0	0	0	1	0	0	0	1483	835	29	2	3588	2	BOD1L	4	13602889	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	232674	13602889	177551387	91	54484										
NCAPG	64151	broad.mit.edu	37	chr4	17824747	17824747	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	accagtgaagaaggaggaagGtatgtctaaatgttaacact	11	5	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:17824747G>C	uc003gpp.2	+	8	1435	c.1259_splice	c.e8+1	p.R420_splice	NCAPG_uc011bxj.1_Splice_Site	NM_022346	NP_071741	Q9BPX3	CND3_HUMAN	chromosome condensation protein G						cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	protein binding			large_intestine(1)	1				STAD - Stomach adenocarcinoma(129;0.18)		AAGGAGGAAGGTATGTCTAAA	0.289													40	89	---	---	---	---	PASS	C	17824747	C	C	17824747	5	2	153	1	0	0	0	0	0	0	1	0	10207	1275	44	4	1290	4	NCAPG	4	17824747	Splice_Site	SNP	G	TCGA-66-2768-01A-01D-1522-08	4221858	17824747	173329529	92	54485										
KLHL5	51088	broad.mit.edu	37	chr4	39083642	39083642	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tatctacagcttgccttcttCagctttcacaggttgtagaa	7	10	4	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:39083642C>T	uc003gts.2	+	4	976	c.901C>T	c.(901-903)CAG>TAG	p.Q301*	KLHL5_uc003gtp.2_Nonsense_Mutation_p.Q255*|KLHL5_uc003gtq.2_Nonsense_Mutation_p.Q114*|KLHL5_uc003gtr.1_Nonsense_Mutation_p.Q301*|KLHL5_uc003gtt.2_Nonsense_Mutation_p.Q240*	NM_015990	NP_057074	Q96PQ7	KLHL5_HUMAN	kelch-like 5 isoform 1	301						cytoplasm|cytoskeleton	actin binding			ovary(1)	1						TTGCCTTCTTCAGCTTTCACA	0.383													87	190	---	---	---	---	PASS	T	39083642	T	T	39083642	4	4	153	1	0	0	0	0	0	1	0	0	8392	827	29	2	915	2	KLHL5	4	39083642	Nonsense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	21258895	39083642	152070634	93	54486										
WDFY3	23001	broad.mit.edu	37	chr4	85594031	85594031	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgttgaatcttcaacaatttCgaggcccatcttctgaacct	6	11	4	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:85594031C>T	uc003hpd.2	-	68	10979	c.10571G>A	c.(10570-10572)CGA>CAA	p.R3524Q	WDFY3_uc003hpc.2_Missense_Mutation_p.R279Q	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	3524						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TCAACAATTTCGAGGCCCATC	0.458													76	236	---	---	---	---	PASS	T	85594031	T	T	85594031	3	4	153	1	0	0	0	0	1	0	0	0	17267	884	31	2	13	2	WDFY3	4	85594031	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	46510389	85594031	105560245	94	54487										
DSPP	1834	broad.mit.edu	37	chr4	88535180	88535180	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gatatgacagttatgattttGatgataagtccatgcaagga	10	4	0	4	rs79488787		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:88535180G>C	uc003hqu.2	+	5	1486	c.1366G>C	c.(1366-1368)GAT>CAT	p.D456H		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	456	Asp/Ser-rich.				biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		TTATGATTTTGATGATAAGTC	0.403													26	104	---	---	---	---	PASS	C	88535180	C	C	88535180	3	2	153	1	0	0	0	0	1	0	0	0	4782	1290	45	2	1380	2	DSPP	4	88535180	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	2941149	88535180	102619096	95	54488										
DSPP	1834	broad.mit.edu	37	chr4	88535201	88535201	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atgataagtccatgcaaggaGatgatcccaatagcagtgat	10	7	0	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:88535201G>A	uc003hqu.2	+	5	1507	c.1387G>A	c.(1387-1389)GAT>AAT	p.D463N		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	463	Asp/Ser-rich.				biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		CATGCAAGGAGATGATCCCAA	0.388													26	111	---	---	---	---	PASS	A	88535201	A	A	88535201	3	1	153	1	0	0	0	0	1	0	0	0	4782	942	33	2	1401	2	DSPP	4	88535201	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	21	88535201	102619075	96	54489										
HERC5	51191	broad.mit.edu	37	chr4	89400515	89400515	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gttcctcagaagagtattggGcaactctgcaagaatccact	9	10	2	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:89400515G>A	uc003hrt.2	+	13	1747	c.1594G>A	c.(1594-1596)GCA>ACA	p.A532T	HERC5_uc011cdm.1_Missense_Mutation_p.A170T	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	532					innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		AGAGTATTGGGCAACTCTGCA	0.323													41	121	---	---	---	---	PASS	A	89400515	A	A	89400515	3	1	153	1	0	0	0	0	1	0	0	0	7061	1203	42	3	1644	3	HERC5	4	89400515	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	865314	89400515	101753761	97	54490										
TACR3	6870	broad.mit.edu	37	chr4	104640740	104640740	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcaactgcccccgtggccgcCccggcagctagcgaggcggt	14	17	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:104640740C>A	uc003hxe.1	-	1	236	c.93G>T	c.(91-93)GGG>GGT	p.G31G		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	31	Extracellular (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		CCGTGGCCGCCCCGGCAGCTA	0.682													6	57	---	---	---	---	PASS	A	104640740	A	A	104640740	2	1	153	1	0	0	0	0	0	0	0	1	15504	610	22	3		3	TACR3	4	104640740	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	15240225	104640740	86513536	98	54491										
USP53	54532	broad.mit.edu	37	chr4	120192475	120192475	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggttgatgaagacctttcacAtttccaatctggatcacctc	7	11	3	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:120192475A>T	uc003ics.3	+	15	2526	c.1460A>T	c.(1459-1461)CAT>CTT	p.H487L	USP53_uc003icr.3_Missense_Mutation_p.H487L|USP53_uc003icu.3_Missense_Mutation_p.H110L|USP53_uc003ict.2_Missense_Mutation_p.H110L	NM_019050	NP_061923	Q70EK8	UBP53_HUMAN	ubiquitin specific protease 53	487					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			ovary(1)|breast(1)|kidney(1)|skin(1)	4						GACCTTTCACATTTCCAATCT	0.363													49	120	---	---	---	---	PASS	T	120192475	T	T	120192475	3	4	153	1	0	0	0	0	1	0	0	0	17081	217	8	5	1506	5	USP53	4	120192475	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	15551735	120192475	70961801	99	54492										
MMAA	166785	broad.mit.edu	37	chr4	146576485	146576485	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcaggacccaccccacagtcCgggaacagattccacttctg	8	16	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:146576485C>T	uc003ikh.3	+	7	1241	c.1156C>T	c.(1156-1158)CGG>TGG	p.R386W	MMAA_uc010iow.2_RNA	NM_172250	NP_758454	Q8IVH4	MMAA_HUMAN	methylmalonic aciduria type A precursor	386						mitochondrion	GTP binding|nucleoside-triphosphatase activity			ovary(1)	1	all_hematologic(180;0.151)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CCCCACAGTCCGGGAACAGAT	0.483													57	152	---	---	---	---	PASS	T	146576485	T	T	146576485	3	4	153	1	0	0	0	0	1	0	0	0	9639	643	23	1	1178	1	MMAA	4	146576485	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	26384010	146576485	44577791	100	54493										
NPY1R	4886	broad.mit.edu	37	chr4	164247497	164247497	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atgttggtaacatttctcatCtccttttgtttcaagatgat	6	7	3	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:164247497C>T	uc003iqm.1	-	2	476	c.210G>A	c.(208-210)GAG>GAA	p.E70E	NPY1R_uc011cjj.1_Intron	NM_000909	NP_000900	P25929	NPY1R_HUMAN	neuropeptide Y receptor Y1	70	Cytoplasmic (Potential).				inhibition of adenylate cyclase activity by G-protein signaling pathway|outflow tract morphogenesis	integral to plasma membrane	protein binding			lung(1)|pancreas(1)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				CATTTCTCATCTCCTTTTGTT	0.408													43	123	---	---	---	---	PASS	T	164247497	T	T	164247497	2	4	153	1	0	0	0	0	0	0	0	1	10608	912	32	2		2	NPY1R	4	164247497	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	17671012	164247497	26906779	101	54494										
NEK1	4750	broad.mit.edu	37	chr4	170322914	170322914	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	actgttcttcaagactgactCttcttcttcactgtattctt	4	11	7	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:170322914C>T	uc003isb.1	-	31	3880	c.3388G>A	c.(3388-3390)GAG>AAG	p.E1130K	NEK1_uc003isc.1_Missense_Mutation_p.E1086K|NEK1_uc003isd.1_Missense_Mutation_p.E1158K|NEK1_uc003ise.1_Missense_Mutation_p.E1114K|NEK1_uc003isf.1_Missense_Mutation_p.E1061K	NM_012224	NP_036356	Q96PY6	NEK1_HUMAN	NIMA-related kinase 1	1130					cell division|cilium assembly|mitosis	nucleus|pericentriolar material	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(3)|ovary(2)|large_intestine(1)	6		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)|KIRC - Kidney renal clear cell carcinoma(143;0.0325)|Kidney(143;0.0385)|LUSC - Lung squamous cell carcinoma(193;0.14)		AAGACTGACTCTTCTTCTTCA	0.458													115	329	---	---	---	---	PASS	T	170322914	T	T	170322914	3	4	153	1	0	0	0	0	1	0	0	0	10321	922	32	2	404	2	NEK1	4	170322914	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	6075417	170322914	20831362	102	54495										
ASB5	140458	broad.mit.edu	37	chr4	177190073	177190073	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cataaacataccttgtccttGggttactccataaaattcag	5	10	1	0	rs143631688		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:177190073G>C	uc003iuq.1	-	1	203	c.187C>G	c.(187-189)CAA>GAA	p.Q63E		NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	63					intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		CCTTGTCCTTGGGTTACTCCA	0.393													31	90	---	---	---	---	PASS	C	177190073	C	C	177190073	3	2	153	1	0	0	0	0	1	0	0	0	1026	1357	47	4	830	4	ASB5	4	177190073	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	6867159	177190073	13964203	103	54496										
TLR3	7098	broad.mit.edu	37	chr4	187004694	187004694	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctaaagtcattgaaccttcaGaagaatctcataacatccgt	5	10	3	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr4:187004694G>A	uc003iyq.2	+	4	1955	c.1854G>A	c.(1852-1854)CAG>CAA	p.Q618Q	TLR3_uc011ckz.1_Silent_p.Q341Q|TLR3_uc003iyr.2_Silent_p.Q341Q	NM_003265	NP_003256	O15455	TLR3_HUMAN	toll-like receptor 3 precursor	618	LRR 22.|Lumenal (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|defense response to bacterium|defense response to virus|detection of virus|hyperosmotic response|I-kappaB phosphorylation|inflammatory response|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of osteoclast differentiation|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|toll-like receptor 3 signaling pathway	endoplasmic reticulum membrane|endosome membrane|integral to plasma membrane	double-stranded RNA binding|transmembrane receptor activity			ovary(2)|prostate(1)|lung(1)|breast(1)	5		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		TGAACCTTCAGAAGAATCTCA	0.378													68	186	---	---	---	---	PASS	A	187004694	A	A	187004694	2	1	153	1	0	0	0	0	0	0	0	1	15949	933	33	2		2	TLR3	4	187004694	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	9814621	187004694	4149582	104	54497										
RAI14	26064	broad.mit.edu	37	chr5	34823168	34823168	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cctggtgaaacctctcccccAgactccaaatcatctccatc	4	18	3	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr5:34823168A>G	uc003jir.2	+	15	1417	c.1221A>G	c.(1219-1221)CCA>CCG	p.P407P	RAI14_uc010iur.2_Silent_p.P378P|RAI14_uc011coj.1_Silent_p.P407P|RAI14_uc003jis.2_Silent_p.P410P|RAI14_uc003jit.2_Silent_p.P407P|RAI14_uc011cok.1_Silent_p.P399P	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	407						cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					CCTCTCCCCCAGACTCCAAAT	0.463													56	170	---	---	---	---	PASS	G	34823168	G	G	34823168	2	3	153	1	0	0	0	0	0	0	0	1	13008	175	7	5		5	RAI14	5	34823168	Silent	SNP	A	TCGA-66-2768-01A-01D-1522-08		34823168	146092092	105	54498										
NNT	23530	broad.mit.edu	37	chr5	43704376	43704376	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggtgattgttatgaagaggtCtttgggtgttggctatgctg	16	3	1	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr5:43704376C>G	uc003joe.2	+	22	3386	c.3131C>G	c.(3130-3132)TCT>TGT	p.S1044C	NNT_uc003jof.2_Missense_Mutation_p.S1044C	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	1044	Mitochondrial matrix.|NADP.				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	ATGAAGAGGTCTTTGGGTGTT	0.443													98	347	---	---	---	---	PASS	G	43704376	G	G	43704376	3	3	153	1	0	0	0	0	1	0	0	0	10510	913	32	2	3213	2	NNT	5	43704376	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	8881208	43704376	137210884	106	54499										
WDR41	55255	broad.mit.edu	37	chr5	76728962	76728962	+	Nonstop_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tatttttaattccttaaactAgacagcaaggtataagtcac	5	7	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr5:76728962A>G	uc003kff.1	-	13	1665	c.1378T>C	c.(1378-1380)TAG>CAG	p.*460Q	WDR41_uc011csy.1_Nonstop_Mutation_p.*402Q|WDR41_uc011csz.1_Nonstop_Mutation_p.*405Q	NM_018268	NP_060738	Q9HAD4	WDR41_HUMAN	WD repeat domain 41	460											0		all_lung(232;0.000961)|Lung NSC(167;0.0011)|Ovarian(174;0.0105)|Prostate(461;0.059)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-50)|Epithelial(54;2.04e-44)|all cancers(79;6.84e-40)		TCCTTAAACTAGACAGCAAGG	0.318													72	98	---	---	---	---	PASS	G	76728962	G	G	76728962	4	3	153	1	0	0	0	0	0	0	0	0	17291	433	15	5	5	5	WDR41	5	76728962	Nonstop_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	33024586	76728962	104186298	107	54500										
VCAN	1462	broad.mit.edu	37	chr5	82816285	82816285	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggaaaaacagaagaagaagtCttctctgggatgaaactctc	10	7	3	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr5:82816285C>A	uc003kii.3	+	7	2516	c.2160C>A	c.(2158-2160)GTC>GTA	p.V720V	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Silent_p.V720V|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	720	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		AAGAAGAAGTCTTCTCTGGGA	0.363													47	76	---	---	---	---	PASS	A	82816285	A	A	82816285	2	1	153	1	0	0	0	0	0	0	0	1	17135	900	32	2		2	VCAN	5	82816285	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	6087323	82816285	98098975	108	54501										
TMEM161B	153396	broad.mit.edu	37	chr5	87494810	87494810	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	taccattttctgtagctcaaCcgtgcttattcgccccgctt	6	14	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr5:87494810C>T	uc003kjc.2	-	10	1197	c.1072G>A	c.(1072-1074)GTT>ATT	p.V358I	TMEM161B_uc011cty.1_Missense_Mutation_p.V347I|TMEM161B_uc010jax.2_RNA|TMEM161B_uc011ctx.1_Missense_Mutation_p.V149I	NM_153354	NP_699185	Q8NDZ6	T161B_HUMAN	transmembrane protein 161B	358						integral to membrane				skin(2)	2		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)		TGTAGCTCAACCGTGCTTATT	0.368													30	70	---	---	---	---	PASS	T	87494810	T	T	87494810	3	4	153	1	0	0	0	0	1	0	0	0	16074	507	18	3	403	3	TMEM161B	5	87494810	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	4678525	87494810	93420450	109	54502										
LNPEP	4012	broad.mit.edu	37	chr5	96332123	96332123	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aatctggtaacaatgaagtgGtggaatgacctatggctaaa	11	5	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr5:96332123G>A	uc003kmv.1	+	7	1951	c.1437G>A	c.(1435-1437)TGG>TGA	p.W479*	LNPEP_uc003kmw.1_Nonsense_Mutation_p.W465*	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1	479	Extracellular (Potential).				cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		CAATGAAGTGGTGGAATGACC	0.378													30	64	---	---	---	---	PASS	A	96332123	A	A	96332123	4	1	153	1	0	0	0	0	0	1	0	0	8864	1270	44	3	1463	3	LNPEP	5	96332123	Nonsense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	8837313	96332123	84583137	110	54503										
VDAC1	7416	broad.mit.edu	37	chr5	133316532	133316532	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gtagccggccagccagccctCgtaacctagcaccagagcac	10	17	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr5:133316532C>T	uc003kyp.1	-	6	538	c.439G>A	c.(439-441)GAG>AAG	p.E147K	VDAC1_uc003kyq.1_Missense_Mutation_p.E147K|VDAC1_uc003kyr.1_Missense_Mutation_p.E147K	NM_003374	NP_003365	P21796	VDAC1_HUMAN	voltage-dependent anion channel 1	147					apoptosis|interspecies interaction between organisms	mitochondrial nucleoid|mitochondrial outer membrane|plasma membrane|pore complex	porin activity|protein binding|voltage-gated anion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00806)|Kidney(363;0.02)		Dihydroxyaluminium(DB01375)	AGCCAGCCCTCGTAACCTAGC	0.532													37	87	---	---	---	---	PASS	T	133316532	T	T	133316532	3	4	153	1	0	0	0	0	1	0	0	0	17143	893	31	2	428	2	VDAC1	5	133316532	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	36984409	133316532	47598728	111	54504										
PCDHB3	56132	broad.mit.edu	37	chr5	140481893	140481893	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgcgcgtgctggtgctggacGccaacgacaactcgcccttc	12	15	0	0	rs138158842		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr5:140481893G>A	uc003lio.2	+	1	1660	c.1660G>A	c.(1660-1662)GCC>ACC	p.A554T	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	554	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGTGCTGGACGCCAACGACAA	0.711													33	26	---	---	---	---	PASS	A	140481893	A	A	140481893	3	1	153	1	0	0	0	0	1	0	0	0	11543	1087	38	1	1662	1	PCDHB3	5	140481893	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	7165361	140481893	40433367	112	54505										
PCDHGA12	26025	broad.mit.edu	37	chr5	140811628	140811628	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggaaccccgcccctatccacGgaaactcatatctcgctgaa	7	16	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr5:140811628G>A	uc003lkt.1	+	1	1471	c.1302G>A	c.(1300-1302)ACG>ACA	p.T434T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.T434T	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	434	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTATCCACGGAAACTCATA	0.532													39	31	---	---	---	---	PASS	A	140811628	A	A	140811628	2	1	153	1	0	0	0	0	0	0	0	1	11553	1103	39	1		1	PCDHGA12	5	140811628	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	329735	140811628	40103632	113	54506										
RELL2	285613	broad.mit.edu	37	chr5	141019182	141019182	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aggaaggaaaaagccgccccCggacaggggagaccactgtg	15	11	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr5:141019182C>T	uc003lli.2	+	5	1317	c.469C>T	c.(469-471)CGG>TGG	p.R157W	HDAC3_uc003llf.2_5'Flank|HDAC3_uc010jgd.1_5'Flank|HDAC3_uc010jge.1_5'Flank|RELL2_uc003llh.2_Missense_Mutation_p.R157W|RELL2_uc003llg.2_Missense_Mutation_p.R91W|RELL2_uc010jgf.2_Missense_Mutation_p.R91W|FCHSD1_uc010jgg.2_3'UTR|FCHSD1_uc003llj.2_RNA|FCHSD1_uc003llk.2_3'UTR	NM_001130029	NP_001123501	Q8NC24	RELL2_HUMAN	RELT-like 2	157						integral to membrane|plasma membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGCCGCCCCCGGACAGGGGA	0.652													33	37	---	---	---	---	PASS	T	141019182	T	T	141019182	3	4	153	1	0	0	0	0	1	0	0	0	13219	643	23	1	483	1	RELL2	5	141019182	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	207554	141019182	39896078	114	54507										
FAT2	2196	broad.mit.edu	37	chr5	150945543	150945543	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctcaaagtccagctctctctCcagaatgagcgcccctgtca	7	16	4	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr5:150945543C>A	uc003lue.3	-	1	2963	c.2950G>T	c.(2950-2952)GAG>TAG	p.E984*	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Nonsense_Mutation_p.E984*	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	984	Extracellular (Potential).|Cadherin 8.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGCTCTCTCTCCAGAATGAGC	0.612													37	27	---	---	---	---	PASS	A	150945543	A	A	150945543	4	1	153	1	0	0	0	0	0	1	0	0	5690	864	30	2	10191	2	FAT2	5	150945543	Nonsense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	9926361	150945543	29969717	115	54508										
STK10	6793	broad.mit.edu	37	chr5	171488194	171488194	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctcgcgctccttgtcacagaTctcccgcctgttgtcggtgg	11	15	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr5:171488194T>A	uc003mbo.1	-	14	2461	c.2161A>T	c.(2161-2163)ATC>TTC	p.I721F		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	721	Potential.						ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TTGTCACAGATCTCCCGCCTG	0.612													154	130	---	---	---	---	PASS	A	171488194	A	A	171488194	3	1	153	1	0	0	0	0	1	0	0	0	15285	1435	50	5	769	5	STK10	5	171488194	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	20542651	171488194	9427066	116	54509										
EXOC2	55770	broad.mit.edu	37	chr6	562784	562784	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgaaaagaacttaaacttacTagagaagtcagtccttcatt	6	7	2	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr6:562784T>G	uc003mtd.2	-	17	1985	c.1851A>C	c.(1849-1851)CTA>CTC	p.L617L	EXOC2_uc003mte.2_Silent_p.L617L|EXOC2_uc011dho.1_Silent_p.L212L	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	617					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		TTAAACTTACTAGAGAAGTCA	0.294													21	42	---	---	---	---	PASS	G	562784	G	G	562784	2	3	153	1	0	0	0	0	0	0	0	1	5302	1536	53	5		5	EXOC2	6	562784	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08		562784	170552283	117	54510										
NUP153	9972	broad.mit.edu	37	chr6	17648069	17648069	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gtagtacatttgcctcagtaGattttacgattggagatgaa	10	5	1	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr6:17648069G>T	uc003ncd.1	-	13	1801	c.1601C>A	c.(1600-1602)TCT>TAT	p.S534Y	NUP153_uc011dje.1_Missense_Mutation_p.S565Y|NUP153_uc010jpl.1_Missense_Mutation_p.S534Y	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	534					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			TGCCTCAGTAGATTTTACGAT	0.323													62	155	---	---	---	---	PASS	T	17648069	T	T	17648069	3	4	153	1	0	0	0	0	1	0	0	0	10755	942	33	2	2866	2	NUP153	6	17648069	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	17085285	17648069	153466998	118	54511										
OR2W1	26692	broad.mit.edu	37	chr6	29012825	29012825	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gagatgcaagaatgatggctGtgttacccaccaatgtaatt	10	7	0	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr6:29012825G>C	uc003nlw.2	-	1	128	c.128C>G	c.(127-129)ACA>AGA	p.T43R		NM_030903	NP_112165	Q9Y3N9	OR2W1_HUMAN	olfactory receptor, family 2, subfamily W,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						AATGATGGCTGTGTTACCCAC	0.408													52	168	---	---	---	---	PASS	C	29012825	C	C	29012825	3	2	153	1	0	0	0	0	1	0	0	0	11032	1377	48	4	838	4	OR2W1	6	29012825	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	11364756	29012825	142102242	119	54512										
FTSJD2	23070	broad.mit.edu	37	chr6	37442397	37442397	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggacactctgctatctgtggAaattgtgcatgagctgaaag	12	7	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr6:37442397A>G	uc003ons.2	+	18	2172	c.1919A>G	c.(1918-1920)GAA>GGA	p.E640G		NM_015050	NP_055865	Q8N1G2	MTR1_HUMAN	FtsJ methyltransferase domain containing 2	640					mRNA capping	cytoplasm|nucleus	mRNA (nucleoside-2'-O-)-methyltransferase activity|nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CTATCTGTGGAAATTGTGCAT	0.567													43	94	---	---	---	---	PASS	G	37442397	G	G	37442397	3	3	153	1	0	0	0	0	1	0	0	0	6091	246	9	5	1985	5	FTSJD2	6	37442397	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	8429572	37442397	133672670	120	54513										
CUL9	23113	broad.mit.edu	37	chr6	43188302	43188302	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agcccaccggagccttcattCgtgccatcgtctcctcgcca	8	18	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr6:43188302C>A	uc003ouk.2	+	32	6463	c.6388C>A	c.(6388-6390)CGT>AGT	p.R2130S	CUL9_uc003oul.2_Missense_Mutation_p.R2102S|CUL9_uc010jyk.2_Missense_Mutation_p.R1282S|CUL9_uc003oun.2_5'UTR	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	2130					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						AGCCTTCATTCGTGCCATCGT	0.597													67	196	---	---	---	---	PASS	A	43188302	A	A	43188302	3	1	153	1	0	0	0	0	1	0	0	0	4061	884	31	2	6510	2	CUL9	6	43188302	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	5745905	43188302	127926765	121	54514										
ENPP4	22875	broad.mit.edu	37	chr6	46108002	46108002	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcaagatgttagggctatggGaaaatcttaatgtgatcatt	10	4	3	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr6:46108002G>T	uc003oxy.2	+	2	941	c.682G>T	c.(682-684)GAA>TAA	p.E228*		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	228	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						AGGGCTATGGGAAAATCTTAA	0.393													48	152	---	---	---	---	PASS	T	46108002	T	T	46108002	4	4	153	1	0	0	0	0	0	1	0	0	5132	1175	41	2	684	2	ENPP4	6	46108002	Nonsense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	2919700	46108002	125007065	122	54515										
HTR1B	3351	broad.mit.edu	37	chr6	78172034	78172034	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atagattatggggttgatgaGggagttgagatagcccagcc	15	5	0	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr6:78172034G>C	uc003pil.1	-	1	1087	c.1087C>G	c.(1087-1089)CTC>GTC	p.L363V		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	363	Helical; Name=7; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	GGGTTGATGAGGGAGTTGAGA	0.443													46	136	---	---	---	---	PASS	C	78172034	C	C	78172034	3	2	153	1	0	0	0	0	1	0	0	0	7437	1000	35	4	89	4	HTR1B	6	78172034	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	32064032	78172034	92943033	123	54516										
C6orf170	221322	broad.mit.edu	37	chr6	121638707	121638707	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctatggcttttctccttttgGatttttttctgcctttcttg	6	9	3	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr6:121638707G>C	uc003pyo.1	-	3	497	c.429C>G	c.(427-429)ATC>ATG	p.I143M	C6orf170_uc003pyq.1_RNA	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	143					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		TCTCCTTTTGGATTTTTTTCT	0.363													67	178	---	---	---	---	PASS	C	121638707	C	C	121638707	3	2	153	1	0	0	0	0	1	0	0	0	2344	1164	41	2	3464	2	C6orf170	6	121638707	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	43466673	121638707	49476360	124	54517										
TAAR5	9038	broad.mit.edu	37	chr6	132909846	132909846	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aatcaacagtgcgtgtctgcGgtgagaagaccttctggctc	12	10	3	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr6:132909846G>T	uc003qdk.2	-	1	1032	c.980C>A	c.(979-981)CCG>CAG	p.P327Q		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	327	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		GCGTGTCTGCGGTGAGAAGAC	0.483													15	72	---	---	---	---	PASS	T	132909846	T	T	132909846	3	4	153	1	0	0	0	0	1	0	0	0	15488	1116	39	1	37	1	TAAR5	6	132909846	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	11271139	132909846	38205221	125	54518										
BCLAF1	9774	broad.mit.edu	37	chr6	136599455	136599455	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gggtcatgttcaaatgtatcTttcggttcctcctgtgattt	9	8	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr6:136599455T>C	uc003qgx.1	-	4	817	c.564A>G	c.(562-564)AAA>AAG	p.K188K	BCLAF1_uc003qgw.1_Silent_p.K188K|BCLAF1_uc003qgy.1_Silent_p.K186K|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.K186K	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	188					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CAAATGTATCTTTCGGTTCCT	0.408													63	501	---	---	---	---	PASS	C	136599455	C	C	136599455	2	2	153	1	0	0	0	0	0	0	0	1	1383	1606	56	5		5	BCLAF1	6	136599455	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	3689609	136599455	34515612	126	54519										
SYNE1	23345	broad.mit.edu	37	chr6	152476141	152476141	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcaaaacgtgaatagtcatcCagaaatttctgccacaatcg	6	10	3	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr6:152476141C>G	uc010kiw.2	-	133	24617	c.24015G>C	c.(24013-24015)CTG>CTC	p.L8005L	SYNE1_uc010kiv.2_Silent_p.L2529L|SYNE1_uc003qos.3_Silent_p.L2529L|SYNE1_uc003qot.3_Silent_p.L7934L|SYNE1_uc003qou.3_Silent_p.L8005L|SYNE1_uc003qop.3_Silent_p.L167L|SYNE1_uc011eez.1_Silent_p.L207L|SYNE1_uc003qoq.3_Silent_p.L207L|SYNE1_uc003qor.3_Silent_p.L905L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	8005	Spectrin 29.|Cytoplasmic (Potential).|HAT 12.				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)		AATAGTCATCCAGAAATTTCT	0.458										HNSCC(10;0.0054)			60	187	---	---	---	---	PASS	G	152476141	G	G	152476141	2	3	153	1	0	0	0	0	0	0	0	1	15442	581	21	4		4	SYNE1	6	152476141	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	15876686	152476141	18638926	127	54520										
SLC22A1	6580	broad.mit.edu	37	chr6	160557644	160557644	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gcagacctgttccgcacgccGcgcctgaggaagcgcacctt	12	16	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr6:160557644G>A	uc003qtc.2	+	6	1128	c.1023G>A	c.(1021-1023)CCG>CCA	p.P341P	SLC22A1_uc003qtd.2_Silent_p.P341P	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	341	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		TCCGCACGCCGCGCCTGAGGA	0.592													28	111	---	---	---	---	PASS	A	160557644	A	A	160557644	2	1	153	1	0	0	0	0	0	0	0	1	14440	1074	38	1		1	SLC22A1	6	160557644	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	8081503	160557644	10557423	128	54521										
GHRHR	2692	broad.mit.edu	37	chr7	31018817	31018817	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	acccgtgctaagtggaccacGccttcccgctcggcggcaaa	11	16	0	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr7:31018817G>A	uc003tbx.2	+	13	1278	c.1230G>A	c.(1228-1230)ACG>ACA	p.T410T	GHRHR_uc003tby.2_Silent_p.T346T|GHRHR_uc003tbz.2_3'UTR	NM_000823	NP_000814	Q02643	GHRHR_HUMAN	growth hormone releasing hormone receptor	410	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to estrogen stimulus|response to glucocorticoid stimulus	cell surface|integral to membrane|nuclear inner membrane|nuclear matrix|nuclear outer membrane|plasma membrane|stored secretory granule	growth factor binding|growth hormone-releasing hormone receptor activity|peptide hormone binding			ovary(2)|lung(1)|breast(1)|large_intestine(1)	5					Sermorelin(DB00010)	AGTGGACCACGCCTTCCCGCT	0.597													22	74	---	---	---	---	PASS	A	31018817	A	A	31018817	2	1	153	1	0	0	0	0	0	0	0	1	6373	1074	38	1		1	GHRHR	7	31018817	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08		31018817	128119846	129	54522										
AMPH	273	broad.mit.edu	37	chr7	38431468	38431468	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gtcctggataggcttctgctCcgtagccagctccggtgtct	12	13	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr7:38431468C>G	uc003tgu.2	-	19	1828	c.1759G>C	c.(1759-1761)GAG>CAG	p.E587Q	AMPH_uc003tgv.2_Missense_Mutation_p.E545Q|AMPH_uc003tgt.2_Missense_Mutation_p.E472Q|AMPH_uc003tgw.1_Missense_Mutation_p.E610Q|AMPH_uc010kxl.1_RNA	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	587					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						GGCTTCTGCTCCGTAGCCAGC	0.622													23	48	---	---	---	---	PASS	G	38431468	G	G	38431468	3	3	153	1	0	0	0	0	1	0	0	0	588	864	30	2	340	2	AMPH	7	38431468	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	7412651	38431468	120707195	130	54523										
ZNF273	10793	broad.mit.edu	37	chr7	64388241	64388241	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctacccagagcaaaatatttCaatgtgataaatatgttaaa	5	6	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr7:64388241C>G	uc003tto.2	+	4	611	c.535C>G	c.(535-537)CAA>GAA	p.Q179E	ZNF273_uc003ttl.2_Missense_Mutation_p.Q114E|ZNF273_uc003ttn.2_Missense_Mutation_p.Q114E	NM_021148	NP_066971	Q14593	ZN273_HUMAN	zinc finger protein 273	179					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(55;0.0295)|all_lung(88;0.0691)				CAAAATATTTCAATGTGATAA	0.313													44	117	---	---	---	---	PASS	G	64388241	G	G	64388241	3	3	153	1	0	0	0	0	1	0	0	0	17805	827	29	2	549	2	ZNF273	7	64388241	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	25956773	64388241	94750422	131	54524										
CALN1	83698	broad.mit.edu	37	chr7	71743750	71743750	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gatcggttgaggtaattcccCttgtacaacaagccggcggt	12	10	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr7:71743750C>A	uc003twa.3	-	2	566	c.39G>T	c.(37-39)AAG>AAT	p.K13N	CALN1_uc003twb.3_Missense_Mutation_p.K55N|CALN1_uc003twc.3_Missense_Mutation_p.K13N	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2	13	Cytoplasmic (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				GGTAATTCCCCTTGTACAACA	0.527													23	56	---	---	---	---	PASS	A	71743750	A	A	71743750	3	1	153	1	0	0	0	0	1	0	0	0	2591	680	24	3	640	3	CALN1	7	71743750	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	7355509	71743750	87394913	132	54525										
BAZ1B	9031	broad.mit.edu	37	chr7	72857134	72857134	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cagctccaggctttgcctccGggagctccgcttggtctgaa	12	14	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr7:72857134G>A	uc003tyc.2	-	18	4360	c.4015C>T	c.(4015-4017)CGG>TGG	p.R1339W		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	1339					ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				CTTTGCCTCCGGGAGCTCCGC	0.502													22	73	---	---	---	---	PASS	A	72857134	A	A	72857134	3	1	153	1	0	0	0	0	1	0	0	0	1330	1115	39	1	444	1	BAZ1B	7	72857134	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	1113384	72857134	86281529	133	54526										
ABCB1	5243	broad.mit.edu	37	chr7	87150183	87150183	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcggaagttttctattgcttCagtagcgatctgtaacagac	9	8	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr7:87150183C>T	uc003uiz.1	-	23	3113	c.2695G>A	c.(2695-2697)GAA>AAA	p.E899K	ABCB1_uc011khc.1_Missense_Mutation_p.E835K	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	899	ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	TCTATTGCTTCAGTAGCGATC	0.373													40	103	---	---	---	---	PASS	T	87150183	T	T	87150183	3	4	153	1	0	0	0	0	1	0	0	0	40	835	29	2	1175	2	ABCB1	7	87150183	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	14293049	87150183	71988480	134	54527										
AZGP1	563	broad.mit.edu	37	chr7	99569369	99569369	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gtggtctgttattcactgacCgttactgtcgttgtaatact	9	8	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr7:99569369C>T	uc003ush.2	-	2	381	c.337G>A	c.(337-339)GGG>AGG	p.G113R		NM_001185	NP_001176	P25311	ZA2G_HUMAN	alpha-2-glycoprotein 1, zinc	113					antigen processing and presentation|cell adhesion|immune response|lipid catabolic process|negative regulation of cell proliferation	extracellular region|MHC class I protein complex	fatty acid binding|protein transmembrane transporter activity|ribonuclease activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)					ATTCACTGACCGTTACTGTCG	0.517													40	126	---	---	---	---	PASS	T	99569369	T	T	99569369	3	4	153	1	0	0	0	0	1	0	0	0	1239	666	23	1	571	1	AZGP1	7	99569369	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	12419186	99569369	59569294	135	54528										
CPA2	1358	broad.mit.edu	37	chr7	129914999	129914999	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gcttttgcagttcagcaccgGaggagacaagccagctatct	11	11	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr7:129914999G>T	uc003vpq.2	+	6	516	c.497G>T	c.(496-498)GGA>GTA	p.G166V	CPA2_uc011kpc.1_Missense_Mutation_p.G166V	NM_001869	NP_001860	P48052	CBPA2_HUMAN	carboxypeptidase A2 (pancreatic) precursor	166					proteolysis|vacuolar protein catabolic process	extracellular region|vacuole	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					TTCAGCACCGGAGGAGACAAG	0.537													27	61	---	---	---	---	PASS	T	129914999	T	T	129914999	3	4	153	1	0	0	0	0	1	0	0	0	3790	1174	41	2	519	2	CPA2	7	129914999	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	30345630	129914999	29223664	136	54529										
SLC4A2	6522	broad.mit.edu	37	chr7	150769147	150769147	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cttcctggtccgcttcgtctCccgcttcacccaggagatct	8	17	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr7:150769147C>T	uc003wit.3	+	16	2715	c.2459C>T	c.(2458-2460)TCC>TTC	p.S820F	SLC4A2_uc011kve.1_Missense_Mutation_p.S811F|SLC4A2_uc003wiu.3_Missense_Mutation_p.S806F|SLC4A2_uc003wiv.3_Missense_Mutation_p.S14F	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	820	Membrane (anion exchange).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGCTTCGTCTCCCGCTTCACC	0.602													89	226	---	---	---	---	PASS	T	150769147	T	T	150769147	3	4	153	1	0	0	0	0	1	0	0	0	14654	855	30	2	2517	2	SLC4A2	7	150769147	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	20854148	150769147	8369516	137	54530										
WDR60	55112	broad.mit.edu	37	chr7	158718960	158718960	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tccgtccacaaaaagcagagCtttgtgctttcacccttttc	6	13	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr7:158718960C>T	uc003woe.3	+	18	2498	c.2340C>T	c.(2338-2340)AGC>AGT	p.S780S	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Silent_p.S412S	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	780	WD 2.									ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		AAAAGCAGAGCTTTGTGCTTT	0.413													5	28	---	---	---	---	PASS	T	158718960	T	T	158718960	2	4	153	1	0	0	0	0	0	0	0	1	17308	796	28	3		3	WDR60	7	158718960	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	7949813	158718960	419703	138	54531										
ERI1	90459	broad.mit.edu	37	chr8	8887521	8887521	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tagagggcactccaccaccaCaaatgccacattttagaaag	7	12	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr8:8887521C>A	uc011kwu.1	+	7	1287	c.1027C>A	c.(1027-1029)CAA>AAA	p.Q343K	ERI1_uc003wsk.2_Missense_Mutation_p.Q343K	NM_153332	NP_699163	Q8IV48	ERI1_HUMAN	three prime histone mRNA exonuclease 1	343					gene silencing by RNA|rRNA 3'-end processing	cytoplasm|histone pre-mRNA 3'end processing complex|nucleolus	3'-5' exonuclease activity|histone pre-mRNA stem-loop binding|metal ion binding|ribosome binding|rRNA binding				0					Adenosine monophosphate(DB00131)	TCCACCACCACAAATGCCACA	0.428													41	70	---	---	---	---	PASS	A	8887521	A	A	8887521	3	1	153	1	0	0	0	0	1	0	0	0	5227	479	17	3	1053	3	ERI1	8	8887521	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08		8887521	137476501	139	54532										
DLC1	10395	broad.mit.edu	37	chr8	12947965	12947965	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	taggaattacgacatcggctCatttcctcgggaacctgtgc	10	11	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr8:12947965C>A	uc003wwm.2	-	15	4314	c.3870G>T	c.(3868-3870)ATG>ATT	p.M1290I	DLC1_uc003wwk.1_Missense_Mutation_p.M853I|DLC1_uc003wwl.1_Missense_Mutation_p.M887I|DLC1_uc011kxx.1_Missense_Mutation_p.M779I	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1290					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GACATCGGCTCATTTCCTCGG	0.512													35	52	---	---	---	---	PASS	A	12947965	A	A	12947965	3	1	153	1	0	0	0	0	1	0	0	0	4550	826	29	2	732	2	DLC1	8	12947965	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	4060444	12947965	133416057	140	54533										
PSD3	23362	broad.mit.edu	37	chr8	18457934	18457934	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aaggttttccatcctcgtttTcctcttggagctagaaaggg	10	9	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr8:18457934T>C	uc003wza.2	-	12	2524	c.2421A>G	c.(2419-2421)GGA>GGG	p.G807G	PSD3_uc003wyx.3_Silent_p.G136G|PSD3_uc003wyy.2_Silent_p.G273G|PSD3_uc003wyz.2_Silent_p.G108G	NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	808	PH.				regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		ATCCTCGTTTTCCTCTTGGAG	0.338													65	86	---	---	---	---	PASS	C	18457934	C	C	18457934	2	2	153	1	0	0	0	0	0	0	0	1	12648	1770	62	5		5	PSD3	8	18457934	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	5509969	18457934	127906088	141	54534										
WHSC1L1	54904	broad.mit.edu	37	chr8	38205569	38205569	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgtctggccaccatcttcagCaatgtcactgttgttatcaa	7	11	5	0	rs149593190	byFrequency	TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr8:38205569C>T	uc003xli.2	-	2	639	c.121G>A	c.(121-123)GCT>ACT	p.A41T	WHSC1L1_uc011lbm.1_Missense_Mutation_p.A41T|WHSC1L1_uc010lwe.2_Missense_Mutation_p.A41T|WHSC1L1_uc003xlj.2_Missense_Mutation_p.A41T	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	41					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			CCATCTTCAGCAATGTCACTG	0.478			T	NUP98	AML								30	262	---	---	---	---	PASS	T	38205569	T	T	38205569	3	4	153	1	0	0	0	0	1	0	0	0	17360	710	25	3	4371	3	WHSC1L1	8	38205569	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	19747635	38205569	108158453	142	54535										
ABRA	137735	broad.mit.edu	37	chr8	107773549	107773549	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tttggttccttctttggggcGgccatagccctcatctcctt	9	13	3	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr8:107773549G>A	uc003ymm.3	-	2	916	c.862C>T	c.(862-864)CGC>TGC	p.R288C		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	288					positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			TCTTTGGGGCGGCCATAGCCC	0.498													34	79	---	---	---	---	PASS	A	107773549	A	A	107773549	3	1	153	1	0	0	0	0	1	0	0	0	100	1116	39	1	287	1	ABRA	8	107773549	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	69567980	107773549	38590473	143	54536										
CSMD3	114788	broad.mit.edu	37	chr8	113243773	113243773	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aaatcaaaatgaatacattaCccagtctttgtaggccaaat	5	8	2	1	rs148762244		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr8:113243773C>A	uc003ynu.2	-	69	10987	c.10828_splice	c.e69+1	p.G3610_splice	CSMD3_uc003yns.2_Splice_Site_p.G2812_splice|CSMD3_uc003ynt.2_Splice_Site_p.G3570_splice|CSMD3_uc011lhx.1_Splice_Site_p.G3441_splice	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1							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						GAATACATTACCCAGTCTTTG	0.333										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			42	202	---	---	---	---	PASS	A	113243773	A	A	113243773	5	1	153	1	0	0	0	0	0	0	1	0	3946	521	18	3	306	3	CSMD3	8	113243773	Splice_Site	SNP	C	TCGA-66-2768-01A-01D-1522-08	5470224	113243773	33120249	144	54537										
MTSS1	9788	broad.mit.edu	37	chr8	125711824	125711824	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggcgtccaagaaggcagctgCtgctactactgttgtcctaa	11	11	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr8:125711824C>A	uc003yrk.2	-	3	685	c.151G>T	c.(151-153)GCA>TCA	p.A51S	MTSS1_uc003yrj.2_Missense_Mutation_p.A51S|MTSS1_uc003yrl.2_Missense_Mutation_p.A51S	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	51	IMD.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			AAGGCAGCTGCTGCTACTACT	0.468													23	69	---	---	---	---	PASS	A	125711824	A	A	125711824	3	1	153	1	0	0	0	0	1	0	0	0	9962	797	28	3	2164	3	MTSS1	8	125711824	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	12468051	125711824	20652198	145	54538										
KCNK9	51305	broad.mit.edu	37	chr8	140630994	140630994	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gcttcttctgcagggcacccTtggtctgcagggccacgtag	13	13	3	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr8:140630994T>G	uc003yvf.1	-	2	696	c.632A>C	c.(631-633)AAG>ACG	p.K211T	KCNK9_uc003yvg.1_Missense_Mutation_p.K211T|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	211	Extracellular (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			CAGGGCACCCTTGGTCTGCAG	0.567													18	78	---	---	---	---	PASS	G	140630994	G	G	140630994	3	3	153	1	0	0	0	0	1	0	0	0	8072	1609	56	5	496	5	KCNK9	8	140630994	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	14919170	140630994	5733028	146	54539										
ZNF250	58500	broad.mit.edu	37	chr8	146107675	146107675	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gcctttctcccgtgtggatcCgctggtgctgaatgagatgt	13	10	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr8:146107675C>A	uc003zeq.3	-	6	1025	c.908G>T	c.(907-909)CGG>CTG	p.R303L	COMMD5_uc010mgf.2_Intron|ZNF250_uc003zer.3_Missense_Mutation_p.R298L|ZNF250_uc010mgg.2_Missense_Mutation_p.R298L	NM_021061	NP_066405	P15622	ZN250_HUMAN	zinc finger protein 250 isoform a	303	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;2.53e-38)|OV - Ovarian serous cystadenocarcinoma(54;4.07e-38)|all cancers(56;2.27e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.0654)		CGTGTGGATCCGCTGGTGCTG	0.522													9	26	---	---	---	---	PASS	A	146107675	A	A	146107675	3	1	153	1	0	0	0	0	1	0	0	0	17792	652	23	1	778	1	ZNF250	8	146107675	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	5476681	146107675	256347	147	54540										
CHMP5	51510	broad.mit.edu	37	chr9	33270692	33270692	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agccaattataccatccagtCtttgaaggacaccaagacca	6	12	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr9:33270692C>G	uc003zsl.3	+	5	648	c.293C>G	c.(292-294)TCT>TGT	p.S98C	SUGT1P1_uc010mjq.1_Intron|CHMP5_uc003zsm.3_Missense_Mutation_p.S98C|CHMP5_uc011lnv.1_Missense_Mutation_p.S98C|CHMP5_uc003zsn.2_5'Flank	NM_016410	NP_057494	Q9NZZ3	CHMP5_HUMAN	chromatin modifying protein 5	98	Potential.				cellular membrane organization|protein transport	cytosol|endosome membrane	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)			ACCATCCAGTCTTTGAAGGAC	0.393													56	69	---	---	---	---	PASS	G	33270692	G	G	33270692	3	3	153	1	0	0	0	0	1	0	0	0	3359	913	32	2	307	2	CHMP5	9	33270692	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08		33270692	107942739	148	54541										
NPR2	4882	broad.mit.edu	37	chr9	35793036	35793036	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cccgagagccagggggccccGagcaggccacccacttcatc	12	18	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr9:35793036G>T	uc003zyd.2	+	1	631	c.631G>T	c.(631-633)GAG>TAG	p.E211*	NPR2_uc010mlb.2_Nonsense_Mutation_p.E211*	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	211	Extracellular (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	AGGGGGCCCCGAGCAGGCCAC	0.642													15	24	---	---	---	---	PASS	T	35793036	T	T	35793036	4	4	153	1	0	0	0	0	0	1	0	0	10595	1059	37	2	633	2	NPR2	9	35793036	Nonsense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	2522344	35793036	105420395	149	54542										
DAPK1	1612	broad.mit.edu	37	chr9	90296478	90296478	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gctttttcagaaggcgtcggCccagactgtcttccaccaac	9	14	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr9:90296478C>T	uc004apc.2	+	20	2299	c.2161C>T	c.(2161-2163)CCC>TCC	p.P721S	DAPK1_uc004apd.2_Missense_Mutation_p.P721S|DAPK1_uc011ltg.1_Missense_Mutation_p.P721S|DAPK1_uc011lth.1_Missense_Mutation_p.P458S|DAPK1_uc004apf.1_Missense_Mutation_p.P275S	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	721					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						AAGGCGTCGGCCCAGACTGTC	0.567									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				23	78	---	---	---	---	PASS	T	90296478	T	T	90296478	3	4	153	1	0	0	0	0	1	0	0	0	4235	739	26	3	2235	3	DAPK1	9	90296478	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	54503442	90296478	50916953	150	54543										
LOC286238	286238	broad.mit.edu	37	chr9	91262338	91262338	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atttgcaaagcttttctctgGacacatggagaagatgacac	9	8	1	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr9:91262338G>T	uc010mql.1	-	2	438	c.305C>A	c.(304-306)TCC>TAC	p.S102Y		NM_001100111	NP_001093581			hypothetical protein LOC286238												0						CTTTTCTCTGGACACATGGAG	0.443													20	70	---	---	---	---	PASS	T	91262338	T	T	91262338	3	4	153	1	0	0	0	0	1	0	0	0	8874	1174	41	2	37	2	LOC286238	9	91262338	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	965860	91262338	49951093	151	54544										
CENPP	401541	broad.mit.edu	37	chr9	95094543	95094543	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttggacatttagaatcagaaCtttcatttctaagtacgctt	6	7	3	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr9:95094543C>G	uc004arz.2	+	2	739	c.199C>G	c.(199-201)CTT>GTT	p.L67V	CENPP_uc010mqx.2_Intron|CENPP_uc004ary.1_Missense_Mutation_p.L67V	NM_001012267	NP_001012267	Q6IPU0	CENPP_HUMAN	centromere protein P	67	Potential.				CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	chromosome, centromeric region|cytosol|nucleoplasm				ovary(2)	2						AGAATCAGAACTTTCATTTCT	0.358													34	76	---	---	---	---	PASS	G	95094543	G	G	95094543	3	3	153	1	0	0	0	0	1	0	0	0	3240	565	20	4	205	4	CENPP	9	95094543	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	3832205	95094543	46118888	152	54545										
GABBR2	9568	broad.mit.edu	37	chr9	101216305	101216305	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcgttcatggcattgaggatGatcctgcccagcgtgtggtc	13	10	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr9:101216305G>T	uc004ays.2	-	7	1350	c.1194C>A	c.(1192-1194)ATC>ATA	p.I398I		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	398	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	CATTGAGGATGATCCTGCCCA	0.557													21	94	---	---	---	---	PASS	T	101216305	T	T	101216305	2	4	153	1	0	0	0	0	0	0	0	1	6156	1280	45	2		2	GABBR2	9	101216305	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	6121762	101216305	39997126	153	54546										
TNC	3371	broad.mit.edu	37	chr9	117836043	117836043	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggcctgtggggagactgtaaTtgaggcggtagcggtcaaat	17	6	1	2	rs61729548		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr9:117836043T>C	uc004bjj.3	-	10	3415	c.3053A>G	c.(3052-3054)AAT>AGT	p.N1018S	TNC_uc010mvf.2_Missense_Mutation_p.N1018S	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1018	Fibronectin type-III 5.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GAGACTGTAATTGAGGCGGTA	0.552													36	85	---	---	---	---	PASS	C	117836043	C	C	117836043	3	2	153	1	0	0	0	0	1	0	0	0	16267	1493	52	5	3628	5	TNC	9	117836043	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	16619738	117836043	23377388	154	54547										
DBC1	1620	broad.mit.edu	37	chr9	121971119	121971119	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gcactctgcaggagcttgtaGcggttctgcaggtcccagtc	13	12	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr9:121971119G>T	uc004bkc.2	-	7	1479	c.1023C>A	c.(1021-1023)CGC>CGA	p.R341R		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	341					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GGAGCTTGTAGCGGTTCTGCA	0.547													33	75	---	---	---	---	PASS	T	121971119	T	T	121971119	2	4	153	1	0	0	0	0	0	0	0	1	4247	958	34	3		3	DBC1	9	121971119	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	4135076	121971119	19242312	155	54548										
C9orf96	169436	broad.mit.edu	37	chr9	136255349	136255349	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gccaggtgctggacgcgctgGaatacctgcaccatttggac	13	12	0	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr9:136255349G>C	uc004cdk.2	+	6	497	c.436G>C	c.(436-438)GAA>CAA	p.E146Q	C9orf96_uc004cdl.2_RNA	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	146	Protein kinase.						ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		GGACGCGCTGGAATACCTGCA	0.627													6	37	---	---	---	---	PASS	C	136255349	C	C	136255349	3	2	153	1	0	0	0	0	1	0	0	0	2508	1175	41	2	458	2	C9orf96	9	136255349	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	14284230	136255349	4958082	156	54549										
MAMDC4	158056	broad.mit.edu	37	chr9	139748260	139748260	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctgcgggtggagctgacccaTggcgcagagaccctgaccct	14	14	0	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr9:139748260T>C	uc004cjs.2	+	5	536	c.486T>C	c.(484-486)CAT>CAC	p.H162H	MAMDC4_uc011mej.1_5'UTR	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	162	Extracellular (Potential).|MAM 1.				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		AGCTGACCCATGGCGCAGAGA	0.687													14	30	---	---	---	---	PASS	C	139748260	C	C	139748260	2	2	153	1	0	0	0	0	0	0	0	1	9204	1461	51	5		5	MAMDC4	9	139748260	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	3492911	139748260	1465171	157	54550										
GTPBP4	23560	broad.mit.edu	37	chr10	1061808	1061808	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gagttgctctcgaactccacGtgacgtttctggtcttaggg	12	10	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:1061808G>C	uc001ift.2	+	16	1795	c.1724G>C	c.(1723-1725)CGT>CCT	p.R575P	GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Missense_Mutation_p.R459P|GTPBP4_uc010qae.1_Missense_Mutation_p.R528P	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	575					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		CGAACTCCACGTGACGTTTCT	0.507													95	272	---	---	---	---	PASS	C	1061808	C	C	1061808	3	2	153	1	0	0	0	0	1	0	0	0	6882	1145	40	4	1786	4	GTPBP4	10	1061808	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08		1061808	134472939	158	54551										
UPF2	26019	broad.mit.edu	37	chr10	12071426	12071426	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gaagaagttttcctctggtcGgctgtccggagcattttggt	13	8	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:12071426G>A	uc001ila.2	-	2	937	c.463C>T	c.(463-465)CGA>TGA	p.R155*	UPF2_uc001ilb.2_Nonsense_Mutation_p.R155*|UPF2_uc001ilc.2_Nonsense_Mutation_p.R155*|UPF2_uc009xiz.1_Nonsense_Mutation_p.R155*	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	155					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				TCCTCTGGTCGGCTGTCCGGA	0.403													123	262	---	---	---	---	PASS	A	12071426	A	A	12071426	4	1	153	1	0	0	0	0	0	1	0	0	17001	1124	39	1	3435	1	UPF2	10	12071426	Nonsense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	11009618	12071426	123463321	159	54552										
CUBN	8029	broad.mit.edu	37	chr10	17024556	17024556	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cacgatgatttctgtcaaccCgaatgacccaagaacagtct	7	12	3	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:17024556C>A	uc001ioo.2	-	31	4674	c.4622G>T	c.(4621-4623)CGG>CTG	p.R1541L		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1541	CUB 10.				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)	TCTGTCAACCCGAATGACCCA	0.428													19	93	---	---	---	---	PASS	A	17024556	A	A	17024556	3	1	153	1	0	0	0	0	1	0	0	0	4051	652	23	1	6397	1	CUBN	10	17024556	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	4953130	17024556	118510191	160	54553										
CUBN	8029	broad.mit.edu	37	chr10	17024567	17024567	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctgtcaacccgaatgacccaAgaacagtctgtgttgctcct	8	13	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:17024567A>C	uc001ioo.2	-	31	4663	c.4611T>G	c.(4609-4611)TCT>TCG	p.S1537S		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1537	CUB 10.				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)	GAATGACCCAAGAACAGTCTG	0.438													22	82	---	---	---	---	PASS	C	17024567	C	C	17024567	2	2	153	1	0	0	0	0	0	0	0	1	4051	59	3	5		5	CUBN	10	17024567	Silent	SNP	A	TCGA-66-2768-01A-01D-1522-08	11	17024567	118510180	161	54554										
ZNF33B	7582	broad.mit.edu	37	chr10	43089465	43089465	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgtgacagacacaatttcctCctgaaattattcccactttc	4	12	0	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:43089465C>A	uc001jaf.1	-	5	1048	c.933G>T	c.(931-933)AGG>AGT	p.R311S	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Missense_Mutation_p.R199S|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	311						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ACAATTTCCTCCTGAAATTAT	0.403													105	227	---	---	---	---	PASS	A	43089465	A	A	43089465	3	1	153	1	0	0	0	0	1	0	0	0	17852	854	30	2	1407	2	ZNF33B	10	43089465	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	26064898	43089465	92445282	162	54555										
C10orf107	219621	broad.mit.edu	37	chr10	63519928	63519928	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agccccccacaatattggatAcggaaatgaaggtatatttc	8	9	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:63519928A>G	uc010qik.1	+	5	705	c.400A>G	c.(400-402)ACG>GCG	p.T134A		NM_173554	NP_775825	Q8IVU9	CJ107_HUMAN	hypothetical protein LOC219621	134											0	Prostate(12;0.016)					AATATTGGATACGGAAATGAA	0.388													36	117	---	---	---	---	PASS	G	63519928	G	G	63519928	3	3	153	1	0	0	0	0	1	0	0	0	1581	391	14	5	414	5	C10orf107	10	63519928	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	20430463	63519928	72014819	163	54556										
MYPN	84665	broad.mit.edu	37	chr10	69881341	69881341	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccatttcggcagtccttctgGggccgctgaaggaggcggag	16	11	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:69881341G>T	uc001jnm.3	+	3	331	c.146G>T	c.(145-147)GGG>GTG	p.G49V	MYPN_uc001jnl.1_Missense_Mutation_p.G49V|MYPN_uc001jnn.3_Intron|MYPN_uc001jno.3_Missense_Mutation_p.G49V|MYPN_uc001jnp.1_Missense_Mutation_p.G49V|MYPN_uc009xps.2_Missense_Mutation_p.G49V|MYPN_uc009xpt.2_Missense_Mutation_p.G49V|MYPN_uc010qit.1_5'UTR|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	49	Interaction with CARP.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						AGTCCTTCTGGGGCCGCTGAA	0.527													34	121	---	---	---	---	PASS	T	69881341	T	T	69881341	3	4	153	1	0	0	0	0	1	0	0	0	10098	1232	43	3	148	3	MYPN	10	69881341	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	6361413	69881341	65653406	164	54557										
PBLD	64081	broad.mit.edu	37	chr10	70043999	70043999	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aatgtcaacccttccgtctgGacgaagggaaattcccagct	9	12	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:70043999G>T	uc001jns.1	-	10	1005	c.802C>A	c.(802-804)CCA>ACA	p.P268T	PBLD_uc001jnr.1_Missense_Mutation_p.P235T|PBLD_uc001jnt.1_Missense_Mutation_p.P268T	NM_022129	NP_071412	P30039	PBLD_HUMAN	MAWD binding protein isoform a	268					biosynthetic process		isomerase activity			skin(2)|ovary(1)	3						CTTCCGTCTGGACGAAGGGAA	0.458													43	188	---	---	---	---	PASS	T	70043999	T	T	70043999	3	4	153	1	0	0	0	0	1	0	0	0	11489	1174	41	2	68	2	PBLD	10	70043999	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	162658	70043999	65490748	165	54558										
NRG3	10718	broad.mit.edu	37	chr10	84498359	84498359	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agaaggctaccaaggagtccGttgtgatcaatttctgccga	11	9	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:84498359G>C	uc001kco.2	+	3	1007	c.980G>C	c.(979-981)CGT>CCT	p.R327P	NRG3_uc010qlz.1_Missense_Mutation_p.R327P|NRG3_uc001kcp.2_Missense_Mutation_p.R106P|NRG3_uc001kcq.2_5'UTR	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	327	EGF-like.|Extracellular (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)		CAAGGAGTCCGTTGTGATCAA	0.388													37	148	---	---	---	---	PASS	C	84498359	C	C	84498359	3	2	153	1	0	0	0	0	1	0	0	0	10649	1145	40	4	1158	4	NRG3	10	84498359	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	14454360	84498359	51036388	166	54559										
IFIT2	3433	broad.mit.edu	37	chr10	91066005	91066005	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcagaagtctggtcacctggGgaaactatgcctgggtctac	12	10	4	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:91066005G>A	uc009xts.2	+	2	467	c.292G>A	c.(292-294)GGA>AGA	p.G98R	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron	NM_001547	NP_001538	P09913	IFIT2_HUMAN	interferon-induced protein with	98					negative regulation of protein binding|response to virus|type I interferon-mediated signaling pathway		protein binding			ovary(1)|skin(1)	2		Colorectal(252;0.0161)				GGTCACCTGGGGAAACTATGC	0.483													27	76	---	---	---	---	PASS	A	91066005	A	A	91066005	3	1	153	1	0	0	0	0	1	0	0	0	7523	1233	43	3	298	3	IFIT2	10	91066005	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	6567646	91066005	44468742	167	54560										
HTR7	3363	broad.mit.edu	37	chr10	92508608	92508608	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gaccttacagcacaaactcaGgtctctctggcctctcagca	7	15	4	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:92508608G>C	uc001kha.2	-	2	1526	c.1283C>G	c.(1282-1284)CCT>CGT	p.P428R	HTR7_uc001kgz.2_Missense_Mutation_p.P428R|HTR7_uc001khb.2_Missense_Mutation_p.P428R	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	428	Cytoplasmic (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	CACAAACTCAGGTCTCTCTGG	0.488													66	198	---	---	---	---	PASS	C	92508608	C	C	92508608	3	2	153	1	0	0	0	0	1	0	0	0	7452	1000	35	4	172	4	HTR7	10	92508608	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	1442603	92508608	43026139	168	54561										
SORBS1	10580	broad.mit.edu	37	chr10	97192217	97192217	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccgcgcacctggtttgctttCgtgttgccgggtttcctgag	13	12	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:97192217C>T	uc001kkp.2	-	4	334	c.289G>A	c.(289-291)GAA>AAA	p.E97K	SORBS1_uc001kkn.2_Missense_Mutation_p.E53K|SORBS1_uc001kkm.2_Missense_Mutation_p.E85K|SORBS1_uc001kko.2_Missense_Mutation_p.E97K|SORBS1_uc001kkq.2_Missense_Mutation_p.E97K|SORBS1_uc001kkr.2_Missense_Mutation_p.E65K|SORBS1_uc001kks.2_Missense_Mutation_p.E65K|SORBS1_uc001kkt.2_RNA|SORBS1_uc001kku.2_Missense_Mutation_p.E97K|SORBS1_uc001kkv.2_Missense_Mutation_p.E65K|SORBS1_uc001kkw.2_Missense_Mutation_p.E97K|SORBS1_uc010qoe.1_Missense_Mutation_p.E65K|SORBS1_uc010qof.1_Missense_Mutation_p.E65K|SORBS1_uc001kkx.1_Missense_Mutation_p.E65K	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	97					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)		GGTTTGCTTTCGTGTTGCCGG	0.597													50	140	---	---	---	---	PASS	T	97192217	T	T	97192217	3	4	153	1	0	0	0	0	1	0	0	0	14927	893	31	2	3898	2	SORBS1	10	97192217	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	4683609	97192217	38342530	169	54562										
TCF7L2	6934	broad.mit.edu	37	chr10	114724335	114724335	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctccattttcagtccggcagCacacattactctgcgtacaa	6	14	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr10:114724335C>T	uc001lae.3	+	4	909	c.402C>T	c.(400-402)AGC>AGT	p.S134S	TCF7L2_uc001lac.3_Intron|TCF7L2_uc010qrk.1_Intron|TCF7L2_uc010qrl.1_Intron|TCF7L2_uc010qrm.1_Silent_p.S134S|TCF7L2_uc010qrn.1_Intron|TCF7L2_uc001lad.3_Intron|TCF7L2_uc001lag.3_Intron|TCF7L2_uc001laf.3_Intron|TCF7L2_uc010qro.1_Intron|TCF7L2_uc001lah.2_Intron|TCF7L2_uc010qrp.1_Intron|TCF7L2_uc010qrq.1_Intron|TCF7L2_uc010qrr.1_Intron|TCF7L2_uc010qrs.1_Intron|TCF7L2_uc010qrt.1_Intron	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	134					anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		AGTCCGGCAGCACACATTACT	0.393													24	75	---	---	---	---	PASS	T	114724335	T	T	114724335	2	4	153	1	0	0	0	0	0	0	0	1	15695	709	25	3		3	TCF7L2	10	114724335	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	17532118	114724335	20810412	170	54563										
MUC5B	727897	broad.mit.edu	37	chr11	1256637	1256637	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tccaaggccatcaagctcttCgtggaggtgagaacggcccc	12	13	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:1256637C>T	uc009ycr.1	+	39	4977	c.4851C>T	c.(4849-4851)TTC>TTT	p.F1617F	MUC5B_uc009yct.1_Silent_p.F958F|MUC5B_uc001ltb.2_Silent_p.F961F|MUC5B_uc001lta.2_Silent_p.F626F	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	958	VWFD 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		TCAAGCTCTTCGTGGAGGTGA	0.647													7	4	---	---	---	---	PASS	T	1256637	T	T	1256637	2	4	153	1	0	0	0	0	0	0	0	1	9979	883	31	2		2	MUC5B	11	1256637	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08		1256637	133749879	171	54564										
MRGPRE	116534	broad.mit.edu	37	chr11	3249629	3249629	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tggtcaggtggcgtgggcggCggcacgagtaccaggctggg	21	9	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:3249629C>T	uc001lxq.3	-	2	708	c.398G>A	c.(397-399)CGC>CAC	p.R133H		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	133	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		Medulloblastoma(188;0.00106)|all_epithelial(84;0.00111)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00529)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCGTGGGCGGCGGCACGAGTA	0.692													3	7	---	---	---	---	PASS	T	3249629	T	T	3249629	3	4	153	1	0	0	0	0	1	0	0	0	9764	768	27	1	541	1	MRGPRE	11	3249629	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	1992992	3249629	131756887	172	54565										
OR51D1	390038	broad.mit.edu	37	chr11	4661505	4661505	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	caagattggactatctgcccTgaccagggggtttgtattct	11	9	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:4661505T>C	uc010qyk.1	+	1	485	c.485T>C	c.(484-486)CTG>CCG	p.L162P		NM_001004751	NP_001004751	Q8NGF3	O51D1_HUMAN	olfactory receptor, family 51, subfamily D,	162	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;2.74e-13)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|GBM - Glioblastoma multiforme(2;0.0841)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTATCTGCCCTGACCAGGGGG	0.527													70	137	---	---	---	---	PASS	C	4661505	C	C	4661505	3	2	153	1	0	0	0	0	1	0	0	0	11093	1580	55	5	487	5	OR51D1	11	4661505	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	1411876	4661505	130345011	173	54566										
OR56A3	390083	broad.mit.edu	37	chr11	5968872	5968872	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cctcaggcccatcagcttccCtgcctgcttcctccagatgt	7	18	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:5968872C>T	uc010qzt.1	+	1	296	c.296C>T	c.(295-297)CCT>CTT	p.P99L		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	99	Extracellular (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;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATCAGCTTCCCTGCCTGCTTC	0.532													99	163	---	---	---	---	PASS	T	5968872	T	T	5968872	3	4	153	1	0	0	0	0	1	0	0	0	11134	681	24	3	298	3	OR56A3	11	5968872	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	1307367	5968872	129037644	174	54567										
OR56B4	196335	broad.mit.edu	37	chr11	6129459	6129459	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aagcttttgtcttcaaagccAcagggttcatcatgctcagg	9	10	5	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:6129459A>G	uc010qzx.1	+	1	451	c.451A>G	c.(451-453)ACA>GCA	p.T151A		NM_001005181	NP_001005181	Q8NH76	O56B4_HUMAN	olfactory receptor, family 56, subfamily B,	151	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.31e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTTCAAAGCCACAGGGTTCAT	0.502													67	108	---	---	---	---	PASS	G	6129459	G	G	6129459	3	3	153	1	0	0	0	0	1	0	0	0	11138	159	6	5	453	5	OR56B4	11	6129459	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	160587	6129459	128877057	175	54568										
ACP2	53	broad.mit.edu	37	chr11	47267352	47267352	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gttggcctcagcactcatgaGagtccggtcaaagtctgtgc	12	11	4	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:47267352G>C	uc001nei.2	-	4	448	c.331C>G	c.(331-333)CTC>GTC	p.L111V	ACP2_uc010rhe.1_Missense_Mutation_p.L83V|ACP2_uc009ylj.2_Missense_Mutation_p.L39V|ACP2_uc010rhf.1_Missense_Mutation_p.L79V|ACP2_uc010rhg.1_Missense_Mutation_p.L111V|ACP2_uc010rhh.1_5'UTR|ACP2_uc010rhi.1_5'UTR|ACP2_uc009ylk.2_Missense_Mutation_p.L111V|ACP2_uc010rhj.1_Missense_Mutation_p.L111V|NR1H3_uc009yll.1_5'Flank|NR1H3_uc010rhk.1_5'Flank	NM_001610	NP_001601	P11117	PPAL_HUMAN	acid phosphatase 2, lysosomal isoform 1	111	Lumenal (Potential).					integral to membrane|lysosomal lumen|lysosomal membrane	acid phosphatase activity			ovary(1)	1						GCACTCATGAGAGTCCGGTCA	0.473													38	75	---	---	---	---	PASS	C	47267352	C	C	47267352	3	2	153	1	0	0	0	0	1	0	0	0	163	942	33	2	1005	2	ACP2	11	47267352	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	41137893	47267352	87739164	176	54569										
FOLH1	2346	broad.mit.edu	37	chr11	49179593	49179593	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aagccttcatcagggcttttCagctacacaaattaaaagaa	6	9	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:49179593C>T	uc001ngy.2	-	14	1704	c.1443G>A	c.(1441-1443)CTG>CTA	p.L481L	FOLH1_uc001ngz.2_Silent_p.L481L|FOLH1_uc009yly.2_Silent_p.L466L|FOLH1_uc009ylz.2_Silent_p.L466L|FOLH1_uc009yma.2_Silent_p.L173L	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	481	NAALADase.|Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	CAGGGCTTTTCAGCTACACAA	0.353													33	102	---	---	---	---	PASS	T	49179593	T	T	49179593	2	4	153	1	0	0	0	0	0	0	0	1	5979	813	29	2		2	FOLH1	11	49179593	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	1912241	49179593	85826923	177	54570										
OR4P4	81300	broad.mit.edu	37	chr11	55406751	55406751	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tggtgttgtcaaatactcctGaaaagaaatcaacttttctg	7	7	3	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:55406751G>A	uc010rij.1	+	1	918	c.918G>A	c.(916-918)CTG>CTA	p.L306L		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	306	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						AAATACTCCTGAAAAGAAATC	0.398													27	79	---	---	---	---	PASS	A	55406751	A	A	55406751	2	1	153	1	0	0	0	0	0	0	0	1	11080	1277	45	2		2	OR4P4	11	55406751	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	6227158	55406751	79599765	178	54571										
OR8I2	120586	broad.mit.edu	37	chr11	55861472	55861472	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	catcctgaggatccagtcagCagcaggcaggcagaaggcct	13	12	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:55861472C>A	uc010rix.1	+	1	689	c.689C>A	c.(688-690)GCA>GAA	p.A230E		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	230	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					ATCCAGTCAGCAGCAGGCAGG	0.468													46	148	---	---	---	---	PASS	A	55861472	A	A	55861472	3	1	153	1	0	0	0	0	1	0	0	0	11240	710	25	3	691	3	OR8I2	11	55861472	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	454721	55861472	79145044	179	54572										
OR5T1	390155	broad.mit.edu	37	chr11	56043676	56043676	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gtggatccaatgaaattaggCatgtcttttgtaatatgcct	9	6	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:56043676C>G	uc001nio.1	+	1	562	c.562C>G	c.(562-564)CAT>GAT	p.H188D		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	188	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TGAAATTAGGCATGTCTTTTG	0.408													106	317	---	---	---	---	PASS	G	56043676	G	G	56043676	3	3	153	1	0	0	0	0	1	0	0	0	11181	710	25	4	564	4	OR5T1	11	56043676	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	182204	56043676	78962840	180	54573										
OR8J1	219477	broad.mit.edu	37	chr11	56128311	56128311	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctgatacttacttaccagaaAcagttgtctttatatctgca	5	9	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:56128311A>G	uc010rjh.1	+	1	589	c.589A>G	c.(589-591)ACA>GCA	p.T197A		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	197	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CTTACCAGAAACAGTTGTCTT	0.294													40	143	---	---	---	---	PASS	G	56128311	G	G	56128311	3	3	153	1	0	0	0	0	1	0	0	0	11241	43	2	5	591	5	OR8J1	11	56128311	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	84635	56128311	78878205	181	54574										
OR4D9	390199	broad.mit.edu	37	chr11	59283310	59283310	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agagacggctaggacaatcaGaaaggattttaattcaataa	9	5	2	2	rs12794170		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:59283310G>C	uc010rkv.1	+	1	925	c.925G>C	c.(925-927)GAA>CAA	p.E309Q		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	309	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGGACAATCAGAAAGGATTTT	0.383													22	65	---	---	---	---	PASS	C	59283310	C	C	59283310	3	2	153	1	0	0	0	0	1	0	0	0	11059	943	33	2	927	2	OR4D9	11	59283310	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	3154999	59283310	75723206	182	54575										
TMEM132A	54972	broad.mit.edu	37	chr11	60699238	60699238	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgggggcgtagcggtcactcGccccgtcacgtggcagctgg	17	13	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:60699238G>T	uc001nqj.2	+	6	1287	c.1094G>T	c.(1093-1095)CGC>CTC	p.R365L	TMEM132A_uc001nqi.2_Missense_Mutation_p.R366L|TMEM132A_uc001nqk.2_Missense_Mutation_p.R378L|TMEM132A_uc001nql.1_Missense_Mutation_p.R378L|TMEM132A_uc001nqm.2_5'Flank	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	365	Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						GCGGTCACTCGCCCCGTCACG	0.587													62	111	---	---	---	---	PASS	T	60699238	T	T	60699238	3	4	153	1	0	0	0	0	1	0	0	0	16042	1087	38	1	1119	1	TMEM132A	11	60699238	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	1415928	60699238	74307278	183	54576										
INPPL1	3636	broad.mit.edu	37	chr11	71946722	71946722	+	Frame_Shift_Del	DEL	G	-	-													0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccttcctgccccctcagagtGgatcagcattgataaggatg							TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:71946722delG	uc001osf.2	+	24	2810	c.2663delG	c.(2662-2664)TGGfs	p.W888fs	INPPL1_uc001osg.2_Frame_Shift_Del_p.W646fs	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	888					actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						CCCTCAGAGTGGATCAGCATT	0.607													70	117	---	---	---	---		-	71946722	-	-	71946722	7	5	153	1	0	1	0	1	0	0	0	0	7761	1357	47	0	2757	0	INPPL1	11	71946722	Frame_Shift_Del	DEL	G	TCGA-66-2768-01A-01D-1522-08	11247484	71946722	63059794	184	54577										
ATG16L2	89849	broad.mit.edu	37	chr11	72536436	72536436	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gctgaccgcctgatccacctCtggaatgttgtgggaagtaa	12	10	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:72536436C>G	uc001otd.2	+	10	1126	c.1086C>G	c.(1084-1086)CTC>CTG	p.L362L	ATG16L2_uc001ote.2_Silent_p.L256L|ATG16L2_uc009ytj.1_Intron|ATG16L2_uc001otf.2_Silent_p.L117L|ATG16L2_uc001otg.2_Silent_p.L96L|ATG16L2_uc009ytk.2_Silent_p.L117L	NM_033388	NP_203746	Q8NAA4	A16L2_HUMAN	ATG16 autophagy related 16-like 2	362	WD 1.				autophagy|protein transport	cytoplasm	protein binding				0			BRCA - Breast invasive adenocarcinoma(5;2.73e-06)			TGATCCACCTCTGGAATGTTG	0.602													40	194	---	---	---	---	PASS	G	72536436	G	G	72536436	2	3	153	1	0	0	0	0	0	0	0	1	1092	900	32	2		2	ATG16L2	11	72536436	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	589714	72536436	62470080	185	54578										
LRRC32	2615	broad.mit.edu	37	chr11	76371022	76371022	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gtttcgcaggtccagcacctCcagtgacacagcctgtgtcc	10	15	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:76371022C>G	uc001oxq.3	-	3	1858	c.1615G>C	c.(1615-1617)GAG>CAG	p.E539Q	LRRC32_uc001oxr.3_Missense_Mutation_p.E539Q|LRRC32_uc010rsf.1_Missense_Mutation_p.E525Q	NM_005512	NP_005503	Q14392	LRC32_HUMAN	leucine rich repeat containing 32 precursor	539	LRR 20.|Extracellular (Potential).					integral to plasma membrane					0						TCCAGCACCTCCAGTGACACA	0.642													13	136	---	---	---	---	PASS	G	76371022	G	G	76371022	3	3	153	1	0	0	0	0	1	0	0	0	8987	864	30	2	377	2	LRRC32	11	76371022	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	3834586	76371022	58635494	186	54579										
TYR	7299	broad.mit.edu	37	chr11	88911877	88911877	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atttgcacagatgagtacatGggaggtcagcaccccacaaa	10	10	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:88911877G>A	uc001pcs.2	+	1	838	c.756G>A	c.(754-756)ATG>ATA	p.M252I		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	252	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	ATGAGTACATGGGAGGTCAGC	0.453									Oculocutaneous_Albinism				37	89	---	---	---	---	PASS	A	88911877	A	A	88911877	3	1	153	1	0	0	0	0	1	0	0	0	16810	1348	47	3	758	3	TYR	11	88911877	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	12540855	88911877	46094639	187	54580										
CEP164	22897	broad.mit.edu	37	chr11	117267306	117267306	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttcttctctctcccagagcaAggaggacttatacttggaca	8	11	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:117267306A>G	uc001prc.2	+	26	3404	c.3257A>G	c.(3256-3258)AAG>AGG	p.K1086R	CEP164_uc001prb.2_Missense_Mutation_p.K1089R|CEP164_uc001prf.2_Intron|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Missense_Mutation_p.K519R	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	1086					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)		TCCCAGAGCAAGGAGGACTTA	0.493													65	89	---	---	---	---	PASS	G	117267306	G	G	117267306	3	3	153	1	0	0	0	0	1	0	0	0	3249	72	3	5	3351	5	CEP164	11	117267306	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	28355429	117267306	17739210	188	54581										
SLC37A2	219855	broad.mit.edu	37	chr11	124954150	124954150	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gcggcatcgtggcagggctcGtctctgactacaccaatggc	13	13	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:124954150G>A	uc001qbn.2	+	12	1311	c.1060G>A	c.(1060-1062)GTC>ATC	p.V354I	SLC37A2_uc010sau.1_Missense_Mutation_p.V354I|SLC37A2_uc010sav.1_Intron|SLC37A2_uc001qbp.2_Intron	NM_001145290	NP_001138762	Q8TED4	SPX2_HUMAN	solute carrier family 37 (glycerol-3-phosphate	354	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane				ovary(2)	2	all_hematologic(175;0.215)	Breast(109;0.012)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.152)|all_lung(97;0.159)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0384)		GGCAGGGCTCGTCTCTGACTA	0.622													12	14	---	---	---	---	PASS	A	124954150	A	A	124954150	3	1	153	1	0	0	0	0	1	0	0	0	14598	1145	40	1	1106	1	SLC37A2	11	124954150	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	7686844	124954150	10052366	189	54582										
OPCML	4978	broad.mit.edu	37	chr11	132307159	132307159	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cgcacatcgggcgcagcgacAtcgttcaacgcgctgcattc	11	15	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr11:132307159A>C	uc001qgs.2	-	4	671	c.621T>G	c.(619-621)GAT>GAG	p.D207E	OPCML_uc001qgu.2_Missense_Mutation_p.D200E|OPCML_uc010sck.1_Missense_Mutation_p.D207E|OPCML_uc001qgt.2_Missense_Mutation_p.D206E|OPCML_uc010scl.1_Missense_Mutation_p.D166E	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	207	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		GCGCAGCGACATCGTTCAACG	0.557													38	83	---	---	---	---	PASS	C	132307159	C	C	132307159	3	2	153	1	0	0	0	0	1	0	0	0	10874	214	8	5	432	5	OPCML	11	132307159	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	7353009	132307159	2699357	190	54583										
PRMT8	56341	broad.mit.edu	37	chr12	3662847	3662847	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccagtatttctgactactcaGagaagatcattaaggccaac	7	10	3	3	rs17852025		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:3662847G>C	uc001qmf.2	+	4	815	c.448G>C	c.(448-450)GAG>CAG	p.E150Q	PRMT8_uc009zed.2_Missense_Mutation_p.E141Q|PRMT8_uc009zee.1_RNA	NM_019854	NP_062828	Q9NR22	ANM8_HUMAN	HMT1 hnRNP methyltransferase-like 4	150				E -> Q (in Ref. 3; AAH22458).	regulation of protein binding	cytoplasm|plasma membrane	histone-arginine N-methyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity			ovary(3)|central_nervous_system(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(31;0.0109)|COAD - Colon adenocarcinoma(12;0.0264)			TGACTACTCAGAGAAGATCAT	0.443													47	135	---	---	---	---	PASS	C	3662847	C	C	3662847	3	2	153	1	0	0	0	0	1	0	0	0	12542	943	33	2	462	2	PRMT8	12	3662847	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08		3662847	130189048	191	54584										
ING4	51147	broad.mit.edu	37	chr12	6760378	6760378	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tatctatttcttcttccgttCttgggagcagcgtgggcaaa	10	9	4	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:6760378C>G	uc001qpw.3	-	8	774	c.733G>C	c.(733-735)GAA>CAA	p.E245Q	ING4_uc001qpv.3_Missense_Mutation_p.E244Q|ING4_uc001qpy.3_Missense_Mutation_p.E241Q|ING4_uc001qpx.3_Missense_Mutation_p.E242Q|ING4_uc009zes.2_3'UTR|ING4_uc009zet.2_Missense_Mutation_p.E221Q|ING4_uc009zeu.2_RNA|ING4_uc009zev.2_RNA	NM_001127582	NP_001121054	Q9UNL4	ING4_HUMAN	inhibitor of growth family, member 4 isoform 9	245	PHD-type.				apoptosis|cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell proliferation|negative regulation of growth|negative regulation of transcription, DNA-dependent|positive regulation of apoptosis	histone acetyltransferase complex	protein binding|transcription coactivator activity|zinc ion binding			central_nervous_system(3)|ovary(1)	4						TTCTTCCGTTCTTGGGAGCAG	0.522													22	49	---	---	---	---	PASS	G	6760378	G	G	6760378	3	3	153	1	0	0	0	0	1	0	0	0	7738	922	32	2	20	2	ING4	12	6760378	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	3097531	6760378	127091517	192	54585										
PDE3A	5139	broad.mit.edu	37	chr12	20787990	20787990	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cctgagaccatgatgtttctGgtagtcccatatcacttaac	7	11	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:20787990G>C	uc001reh.1	+	8	2023	c.2001G>C	c.(1999-2001)CTG>CTC	p.L667L		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	667					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	TGATGTTTCTGGTAGTCCCAT	0.393													28	57	---	---	---	---	PASS	C	20787990	C	C	20787990	2	2	153	1	0	0	0	0	0	0	0	1	11637	1362	47	4		4	PDE3A	12	20787990	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	14027612	20787990	113063905	193	54586										
DDX11	1663	broad.mit.edu	37	chr12	31249833	31249833	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gagagtcaggccagcaccctGcgaccagcttctccactgat	10	15	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:31249833G>A	uc001rjt.1	+	17	1922	c.1671G>A	c.(1669-1671)CTG>CTA	p.L557L	DDX11_uc001rjr.1_Silent_p.L557L|DDX11_uc001rjs.1_Silent_p.L557L|DDX11_uc001rju.1_Silent_p.L235L|DDX11_uc001rjv.1_Silent_p.L557L|DDX11_uc001rjw.1_Silent_p.L531L|DDX11_uc009zjn.1_RNA	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	557					G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					CCAGCACCCTGCGACCAGCTT	0.617										Multiple Myeloma(12;0.14)			16	37	---	---	---	---	PASS	A	31249833	A	A	31249833	2	1	153	1	0	0	0	0	0	0	0	1	4343	1306	46	3		3	DDX11	12	31249833	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	10461843	31249833	102602062	194	54587										
DDX11	1663	broad.mit.edu	37	chr12	31255916	31255916	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tccccaacatcaggtctgcaGagctgcaggagaagatggcc	12	12	2	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:31255916G>C	uc001rjt.1	+	24	2670	c.2419G>C	c.(2419-2421)GAG>CAG	p.E807Q	DDX11_uc001rjr.1_Missense_Mutation_p.E807Q|DDX11_uc001rjs.1_Missense_Mutation_p.E757Q|DDX11_uc001rju.1_Missense_Mutation_p.E479Q|DDX11_uc001rjv.1_Missense_Mutation_p.E807Q|DDX11_uc001rjw.1_Missense_Mutation_p.E781Q|DDX11_uc009zjn.1_RNA|DDX11_uc009zjo.1_Intron	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	807					G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					CAGGTCTGCAGAGCTGCAGGA	0.607										Multiple Myeloma(12;0.14)			18	84	---	---	---	---	PASS	C	31255916	C	C	31255916	3	2	153	1	0	0	0	0	1	0	0	0	4343	943	33	2	2509	2	DDX11	12	31255916	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	6083	31255916	102595979	195	54588										
OR8S1	341568	broad.mit.edu	37	chr12	48919954	48919954	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	attcaccactacagctatgaGatgccatccctcctccctct	4	17	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:48919954G>C	uc010slu.1	+	1	540	c.540G>C	c.(538-540)GAG>GAC	p.E180D		NM_001005203	NP_001005203	Q8NH09	OR8S1_HUMAN	olfactory receptor, family 8, subfamily S,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ACAGCTATGAGATGCCATCCC	0.512													43	107	---	---	---	---	PASS	C	48919954	C	C	48919954	3	2	153	1	0	0	0	0	1	0	0	0	11246	933	33	2	542	2	OR8S1	12	48919954	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	17664038	48919954	84931941	196	54589										
MLL2	8085	broad.mit.edu	37	chr12	49425868	49425868	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agtgccgcagctgtgggtttTtggccaggactccttggagc	15	10	0	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:49425868T>C	uc001rta.3	-	39	12620	c.12620A>G	c.(12619-12621)AAA>AGA	p.K4207R		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4207	Gln-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTGTGGGTTTTTGGCCAGGAC	0.607			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			15	57	---	---	---	---	PASS	C	49425868	C	C	49425868	3	2	153	1	0	0	0	0	1	0	0	0	9621	1841	64	5	4057	5	MLL2	12	49425868	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	505914	49425868	84426027	197	54590										
SOAT2	8435	broad.mit.edu	37	chr12	53499708	53499708	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tagtgagctgatggaggtgcAgcatttccgcaccatctacc	11	11	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:53499708A>C	uc001sbv.2	+	5	441	c.353A>C	c.(352-354)CAG>CCG	p.Q118P	SOAT2_uc009zms.2_RNA	NM_003578	NP_003569	O75908	SOAT2_HUMAN	acyl-CoA:cholesterol acyltransferase 2	118					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|macrophage derived foam cell differentiation|very-low-density lipoprotein particle assembly	brush border|endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			ovary(1)	1						ATGGAGGTGCAGCATTTCCGC	0.557													42	128	---	---	---	---	PASS	C	53499708	C	C	53499708	3	2	153	1	0	0	0	0	1	0	0	0	14911	188	7	5	371	5	SOAT2	12	53499708	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	4073840	53499708	80352187	198	54591										
HOXC5	3222	broad.mit.edu	37	chr12	54427045	54427045	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	acggcggattggacttaagcAtcactttcccaccgcctgcg	10	14	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:54427045A>G	uc001sew.2	+	1	214	c.139A>G	c.(139-141)ATC>GTC	p.I47V	HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron|MIR615_hsa-mir-615|MI0003628_5'Flank	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	47					regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGACTTAAGCATCACTTTCCC	0.622													23	58	---	---	---	---	PASS	G	54427045	G	G	54427045	3	3	153	1	0	0	0	0	1	0	0	0	7314	217	8	5	141	5	HOXC5	12	54427045	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	927337	54427045	79424850	199	54592										
TPH2	121278	broad.mit.edu	37	chr12	72335393	72335393	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cctaactctggcaaaaatgaCgacaaaggcaacaagggaag	10	9	1	1	rs74510566		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:72335393C>T	uc009zrw.1	+	2	276	c.135C>T	c.(133-135)GAC>GAT	p.D45D	TPH2_uc001swy.2_Translation_Start_Site	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	45					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity	p.D45D(1)		ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	GCAAAAATGACGACAAAGGCA	0.393													25	91	---	---	---	---	PASS	T	72335393	T	T	72335393	2	4	153	1	0	0	0	0	0	0	0	1	16399	535	19	1		1	TPH2	12	72335393	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	17908348	72335393	61516502	200	54593										
EIF2B1	1967	broad.mit.edu	37	chr12	124115076	124115076	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gccctcagaccctggattgtCtcccctggaatgatccaaca	8	15	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:124115076C>G	uc001ufm.2	-	3	263	c.120G>C	c.(118-120)GAG>GAC	p.E40D	EIF2B1_uc001ufn.2_Missense_Mutation_p.E40D|EIF2B1_uc010tat.1_Missense_Mutation_p.E40D	NM_001414	NP_001405	Q14232	EI2BA_HUMAN	eukaryotic translation initiation factor 2B,	40					cellular response to stimulus|oligodendrocyte development|regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex|membrane fraction|plasma membrane	protein binding|translation initiation factor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.67e-05)|Epithelial(86;0.000353)|all cancers(50;0.00489)		CCTGGATTGTCTCCCCTGGAA	0.473													19	57	---	---	---	---	PASS	G	124115076	G	G	124115076	3	3	153	1	0	0	0	0	1	0	0	0	5000	912	32	2	825	2	EIF2B1	12	124115076	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	51779683	124115076	9736819	201	54594										
GALNT9	50614	broad.mit.edu	37	chr12	132688080	132688080	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atgttccaggccatgtacacGtgggacttgaagtcatccat	10	10	1	1	rs139441969	by1000genomes	TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:132688080G>A	uc001ukc.3	-	7	1349	c.1233C>T	c.(1231-1233)CAC>CAT	p.H411H	GALNT9_uc009zyr.2_Silent_p.H185H|GALNT9_uc001ukb.2_Silent_p.H268H|GALNT9_uc001uka.2_Silent_p.H45H	NM_001122636	NP_001116108	Q9HCQ5	GALT9_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	411	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)		CCATGTACACGTGGGACTTGA	0.647													17	51	---	---	---	---	PASS	A	132688080	A	A	132688080	2	1	153	1	0	0	0	0	0	0	0	1	6220	1136	40	1		1	GALNT9	12	132688080	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	8573004	132688080	1163815	202	54595										
GOLGA3	2802	broad.mit.edu	37	chr12	133349708	133349708	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cagtcactctcccggcccttCtttggaagccctgctctgac	8	17	4	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr12:133349708C>G	uc001ukz.1	-	24	5039	c.4480G>C	c.(4480-4482)GAA>CAA	p.E1494Q		NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1494					intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CCCGGCCCTTCTTTGGAAGCC	0.622													4	8	---	---	---	---	PASS	G	133349708	G	G	133349708	3	3	153	1	0	0	0	0	1	0	0	0	6554	922	32	2	20	2	GOLGA3	12	133349708	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	661628	133349708	502187	203	54596										
BRCA2	675	broad.mit.edu	37	chr13	32937318	32937318	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttttgttttcacttttagatAtgatacggaaattgatagaa	7	3	1	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr13:32937318A>G	uc001uub.1	+	18	8206	c.7979A>G	c.(7978-7980)TAT>TGT	p.Y2660C		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2660					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		ACTTTTAGATATGATACGGAA	0.323			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			34	48	---	---	---	---	PASS	G	32937318	G	G	32937318	3	3	153	1	0	0	0	0	1	0	0	0	1499	449	16	5	8045	5	BRCA2	13	32937318	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08		32937318	82232560	204	54597										
FAM48A	55578	broad.mit.edu	37	chr13	37595737	37595737	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cactcatcaaagcctgggccCcactgcaggagaataagaca	9	13	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr13:37595737C>T	uc001uwg.2	-	21	1912	c.1664G>A	c.(1663-1665)GGG>GAG	p.G555E	FAM48A_uc010abt.2_Missense_Mutation_p.G556E|FAM48A_uc001uwh.2_Missense_Mutation_p.G556E|FAM48A_uc001uwi.2_Missense_Mutation_p.G555E|FAM48A_uc001uwj.2_Missense_Mutation_p.G556E|FAM48A_uc001uwk.2_Missense_Mutation_p.G634E|FAM48A_uc001uwd.2_Missense_Mutation_p.G42E|FAM48A_uc001uwe.2_Missense_Mutation_p.G39E|FAM48A_uc001uwf.2_Missense_Mutation_p.G133E	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A	555					autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		AGCCTGGGCCCCACTGCAGGA	0.448													18	23	---	---	---	---	PASS	T	37595737	T	T	37595737	3	4	153	1	0	0	0	0	1	0	0	0	5572	623	22	3	699	3	FAM48A	13	37595737	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	4658419	37595737	77574141	205	54598										
POSTN	10631	broad.mit.edu	37	chr13	38158192	38158192	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agcctaattgggccacaagaTccgtgaaggtggtttgctgt	13	8	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr13:38158192T>C	uc001uwo.3	-	9	1275	c.1157A>G	c.(1156-1158)GAT>GGT	p.D386G	POSTN_uc001uwp.3_Missense_Mutation_p.D386G|POSTN_uc001uwr.2_Missense_Mutation_p.D386G|POSTN_uc001uwq.2_Missense_Mutation_p.D386G|POSTN_uc010teu.1_Missense_Mutation_p.D386G|POSTN_uc010tev.1_Missense_Mutation_p.D386G|POSTN_uc010tew.1_Missense_Mutation_p.D386G|POSTN_uc010tex.1_Missense_Mutation_p.D301G	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	386	FAS1 3.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		GGCCACAAGATCCGTGAAGGT	0.443													27	42	---	---	---	---	PASS	C	38158192	C	C	38158192	3	2	153	1	0	0	0	0	1	0	0	0	12259	1435	50	5	1413	5	POSTN	13	38158192	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	562455	38158192	77011686	206	54599										
SLITRK5	26050	broad.mit.edu	37	chr13	88329873	88329873	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cgctgcccaaggtgaagacgCccgcgggccacgtgtatgaa	14	13	0	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr13:88329873C>T	uc001vln.2	+	2	2449	c.2230C>T	c.(2230-2232)CCC>TCC	p.P744S	SLITRK5_uc010tic.1_Missense_Mutation_p.P503S	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	744	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GGTGAAGACGCCCGCGGGCCA	0.652													17	26	---	---	---	---	PASS	T	88329873	T	T	88329873	3	4	153	1	0	0	0	0	1	0	0	0	14746	739	26	3	2232	3	SLITRK5	13	88329873	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	50171681	88329873	26840005	207	54600										
UGGT2	55757	broad.mit.edu	37	chr13	96599352	96599352	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctgcaatatagttgaaagctCgccagagagcaactccagca	9	11	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr13:96599352C>T	uc001vmt.2	-	15	1786	c.1616G>A	c.(1615-1617)CGA>CAA	p.R539Q		NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	539					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						GTTGAAAGCTCGCCAGAGAGC	0.343													64	101	---	---	---	---	PASS	T	96599352	T	T	96599352	3	4	153	1	0	0	0	0	1	0	0	0	16939	884	31	2	3034	2	UGGT2	13	96599352	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	8269479	96599352	18570526	208	54601										
ADPRHL1	113622	broad.mit.edu	37	chr13	114107615	114107615	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cattctcctggcgagagtacGaggtggtccaggcccccgga	14	13	1	1	rs148683938		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr13:114107615G>A	uc001vtq.1	-	1	225	c.138C>T	c.(136-138)CTC>CTT	p.L46L		NM_138430	NP_612439	Q8NDY3	ARHL1_HUMAN	ADP-ribosylhydrolase like 1 isoform 1	46					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0395)|all_epithelial(44;0.011)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.0195)|GBM - Glioblastoma multiforme(44;0.116)			GCGAGAGTACGAGGTGGTCCA	0.612													34	83	---	---	---	---	PASS	A	114107615	A	A	114107615	2	1	153	1	0	0	0	0	0	0	0	1	332	1045	37	2		2	ADPRHL1	13	114107615	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	17508263	114107615	1062263	209	54602										
OR4K14	122740	broad.mit.edu	37	chr14	20482708	20482708	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atcacggtgtaggagatcagGaggagcagaaaacagctcaa	13	7	3	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr14:20482708G>C	uc010tky.1	-	1	645	c.645C>G	c.(643-645)CTC>CTG	p.L215L		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		AGGAGATCAGGAGGAGCAGAA	0.498													11	48	---	---	---	---	PASS	C	20482708	C	C	20482708	2	2	153	1	0	0	0	0	0	0	0	1	11069	1161	41	2		2	OR4K14	14	20482708	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08		20482708	86866832	210	54603										
JPH4	84502	broad.mit.edu	37	chr14	24041127	24041127	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cctttaggagggcgtctgctGccctgtcgggtccagagaca	14	12	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr14:24041127G>T	uc001wkq.2	-	5	2072	c.1154C>A	c.(1153-1155)GCA>GAA	p.A385E	JPH4_uc010tnr.1_Missense_Mutation_p.A50E|JPH4_uc001wkr.2_Missense_Mutation_p.A385E	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	385	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		GGCGTCTGCTGCCCTGTCGGG	0.607													12	65	---	---	---	---	PASS	T	24041127	T	T	24041127	3	4	153	1	0	0	0	0	1	0	0	0	7963	1319	46	3	744	3	JPH4	14	24041127	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	3558419	24041127	83308413	211	54604										
NPAS3	64067	broad.mit.edu	37	chr14	34204431	34204431	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	attcctcagtggagtcaaccAgccccagtctgctaaccact	7	15	3	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr14:34204431A>T	uc001wru.2	+	7	809	c.745A>T	c.(745-747)AGC>TGC	p.S249C	NPAS3_uc001wrs.2_Missense_Mutation_p.S236C|NPAS3_uc001wrt.2_Missense_Mutation_p.S217C|NPAS3_uc001wrv.2_Missense_Mutation_p.S219C	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	249					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		GGAGTCAACCAGCCCCAGTCT	0.468													55	137	---	---	---	---	PASS	T	34204431	T	T	34204431	3	4	153	1	0	0	0	0	1	0	0	0	10564	188	7	5	826	5	NPAS3	14	34204431	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	10163304	34204431	73145109	212	54605										
LRFN5	145581	broad.mit.edu	37	chr14	42360493	42360493	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aaacttttctggtcaataatCtggctgctggaactatgtat	8	7	3	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr14:42360493C>G	uc001wvm.2	+	4	2624	c.1426C>G	c.(1426-1428)CTG>GTG	p.L476V	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	476	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		GGTCAATAATCTGGCTGCTGG	0.403										HNSCC(30;0.082)			43	198	---	---	---	---	PASS	G	42360493	G	G	42360493	3	3	153	1	0	0	0	0	1	0	0	0	8941	912	32	2	1432	2	LRFN5	14	42360493	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	8156062	42360493	64989047	213	54606										
RPL10L	140801	broad.mit.edu	37	chr14	47120930	47120930	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccggtaacagcgagctggacGgcgccccatggcgacacagt	14	14	0	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr14:47120930G>T	uc001wwg.2	-	1	99	c.10C>A	c.(10-12)CGT>AGT	p.R4S		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	4					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						CGAGCTGGACGGCGCCCCATG	0.557													24	114	---	---	---	---	PASS	T	47120930	T	T	47120930	3	4	153	1	0	0	0	0	1	0	0	0	13556	1116	39	1	638	1	RPL10L	14	47120930	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	4760437	47120930	60228610	214	54607										
BMP4	652	broad.mit.edu	37	chr14	54417392	54417392	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gtgtccagtagtcgtgtgatGaggtgcccaggcaccacttc	13	11	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr14:54417392G>A	uc001xal.3	-	3	772	c.585C>T	c.(583-585)CTC>CTT	p.L195L	BMP4_uc010aoh.2_Silent_p.L195L|BMP4_uc001xao.3_Silent_p.L195L|BMP4_uc001xan.3_Silent_p.L195L	NM_130851	NP_570912	P12644	BMP4_HUMAN	bone morphogenetic protein 4 preproprotein	195					activation of MAPKK activity|blood vessel endothelial cell proliferation involved in sprouting angiogenesis|BMP signaling pathway involved in heart induction|BMP signaling pathway involved in nephric duct formation|branching involved in ureteric bud morphogenesis|bronchus development|bud dilation involved in lung branching|cardiac septum development|cartilage development|endocardial cushion development|epithelial cell proliferation involved in lung morphogenesis|intermediate mesodermal cell differentiation|lung alveolus development|lymphoid progenitor cell differentiation|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|negative regulation of branch elongation involved in ureteric bud branching by BMP signaling pathway|negative regulation of branching involved in ureteric bud morphogenesis|negative regulation of cell proliferation involved in heart morphogenesis|negative regulation of glomerular mesangial cell proliferation|negative regulation of glomerulus development|negative regulation of immature T cell proliferation in thymus|negative regulation of MAP kinase activity|negative regulation of metanephric comma-shaped body morphogenesis|negative regulation of metanephric S-shaped body morphogenesis|negative regulation of mitosis|negative regulation of myoblast differentiation|negative regulation of phosphorylation|negative regulation of striated muscle tissue development|negative regulation of thymocyte apoptosis|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cardiac muscle fiber development|positive regulation of cartilage development|positive regulation of collagen biosynthetic process|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of kidney development|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|protein localization to nucleus|pulmonary artery endothelial tube morphogenesis|secondary heart field specification|SMAD protein signal transduction|specification of ureteric bud anterior/posterior symmetry by BMP signaling pathway|steroid hormone mediated signaling pathway	extracellular space|proteinaceous extracellular matrix	BMP receptor binding|chemoattractant activity|cytokine activity|growth factor activity				0						GTCGTGTGATGAGGTGCCCAG	0.572													35	126	---	---	---	---	PASS	A	54417392	A	A	54417392	2	1	153	1	0	0	0	0	0	0	0	1	1462	1277	45	2		2	BMP4	14	54417392	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	7296462	54417392	52932148	215	54608										
SLC10A1	6554	broad.mit.edu	37	chr14	70245164	70245164	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gaaaagtggtccaatgacttCaggtggaaaggccacattga	12	7	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr14:70245164C>T	uc001xlr.2	-	4	963	c.829G>A	c.(829-831)GAA>AAA	p.E277K		NM_003049	NP_003040	Q14973	NTCP_HUMAN	solute carrier family 10, member 1	277					bile acid metabolic process|organic anion transport	integral to plasma membrane	bile acid:sodium symporter activity			ovary(1)	1				all cancers(60;0.00228)|BRCA - Breast invasive adenocarcinoma(234;0.0137)|OV - Ovarian serous cystadenocarcinoma(108;0.0226)		CCAATGACTTCAGGTGGAAAG	0.473													52	150	---	---	---	---	PASS	T	70245164	T	T	70245164	3	4	153	1	0	0	0	0	1	0	0	0	14373	835	29	2	228	2	SLC10A1	14	70245164	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	15827772	70245164	37104376	216	54609										
SIPA1L1	26037	broad.mit.edu	37	chr14	72090948	72090948	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agctcatgaaactggatgaaCaaggggtgagtttgcctttc	12	7	1	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr14:72090948C>G	uc001xms.2	+	4	2161	c.1813C>G	c.(1813-1815)CAA>GAA	p.Q605E	SIPA1L1_uc001xmt.2_Missense_Mutation_p.Q605E|SIPA1L1_uc001xmu.2_Missense_Mutation_p.Q605E|SIPA1L1_uc001xmv.2_Missense_Mutation_p.Q605E|SIPA1L1_uc010ttm.1_Missense_Mutation_p.Q80E	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	605					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		ACTGGATGAACAAGGGGTGAG	0.483													34	105	---	---	---	---	PASS	G	72090948	G	G	72090948	3	3	153	1	0	0	0	0	1	0	0	0	14329	479	17	4	1823	4	SIPA1L1	14	72090948	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	1845784	72090948	35258592	217	54610										
C14orf166B	145497	broad.mit.edu	37	chr14	77318767	77318767	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ataacttccacacaaggggaGctgtggccttgtgcaatggt	12	9	0	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr14:77318767G>A	uc001xsx.2	+	8	901	c.787G>A	c.(787-789)GCT>ACT	p.A263T	C14orf166B_uc010asn.1_Missense_Mutation_p.A23T|C14orf166B_uc001xsw.2_RNA|C14orf166B_uc010tvg.1_RNA|C14orf166B_uc010tvh.1_RNA	NM_194287	NP_919263	Q0VAA2	CN16B_HUMAN	hypothetical protein LOC145497	263	LRR 5.										0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0306)		CACAAGGGGAGCTGTGGCCTT	0.582													9	26	---	---	---	---	PASS	A	77318767	A	A	77318767	3	1	153	1	0	0	0	0	1	0	0	0	1757	971	34	3	817	3	C14orf166B	14	77318767	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	5227819	77318767	30030773	218	54611										
FLRT2	23768	broad.mit.edu	37	chr14	86089506	86089506	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tggcgggcttgatcgggggcGcggtgatatttgtgctggtg	20	6	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr14:86089506G>A	uc001xvr.2	+	2	2415	c.1648G>A	c.(1648-1650)GCG>ACG	p.A550T	FLRT2_uc010atd.2_Missense_Mutation_p.A550T	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	550	Helical; (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GATCGGGGGCGCGGTGATATT	0.587													46	111	---	---	---	---	PASS	A	86089506	A	A	86089506	3	1	153	1	0	0	0	0	1	0	0	0	5939	1087	38	1	1650	1	FLRT2	14	86089506	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	8770739	86089506	21260034	219	54612										
MKRN3	7681	broad.mit.edu	37	chr15	23811738	23811738	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agacatatgcgacatgtgtgGgctgcagaccttgcacccca	11	12	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr15:23811738G>T	uc001ywh.3	+	1	1285	c.809G>T	c.(808-810)GGG>GTG	p.G270V	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.G270V	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	270	Makorin-type Cys-His.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		GACATGTGTGGGCTGCAGACC	0.527													22	65	---	---	---	---	PASS	T	23811738	T	T	23811738	3	4	153	1	0	0	0	0	1	0	0	0	9608	1232	43	3	811	3	MKRN3	15	23811738	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08		23811738	78719654	220	54613										
OCA2	4948	broad.mit.edu	37	chr15	28211956	28211956	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	catgtgtgcagtgaatccggCaaagtccaggccctggaaat	12	10	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr15:28211956C>A	uc001zbh.3	-	15	1626	c.1516G>T	c.(1516-1518)GCC>TCC	p.A506S	OCA2_uc010ayv.2_Missense_Mutation_p.A482S	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	506	Extracellular (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		GTGAATCCGGCAAAGTCCAGG	0.338									Oculocutaneous_Albinism				11	43	---	---	---	---	PASS	A	28211956	A	A	28211956	3	1	153	1	0	0	0	0	1	0	0	0	10815	710	25	3	1040	3	OCA2	15	28211956	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	4400218	28211956	74319436	221	54614										
CHRNA7	1139	broad.mit.edu	37	chr15	32455507	32455507	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgctgcagtaccaccaccacGaccccgacgggggcaagatg	12	15	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr15:32455507G>T	uc001zft.2	+	9	1033	c.961G>T	c.(961-963)GAC>TAC	p.D321Y	uc001zfv.1_Intron|CHRNA7_uc010baf.2_Missense_Mutation_p.D140Y|CHRNA7_uc010baj.1_Missense_Mutation_p.D181Y|CHRNA7_uc010bak.2_Missense_Mutation_p.D236Y	NM_000746	NP_000737	P36544	ACHA7_HUMAN	cholinergic receptor, nicotinic, alpha 7	321	Cytoplasmic (Potential).				activation of MAPK activity|calcium ion transport|cellular calcium ion homeostasis|memory|negative regulation of tumor necrosis factor production|positive regulation of angiogenesis|positive regulation of cell proliferation|response to hypoxia|response to nicotine	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|beta-amyloid binding|chloride channel regulator activity|nicotinic acetylcholine-activated cation-selective channel activity|protein homodimerization activity|toxin binding			ovary(1)	1		all_lung(180;6.35e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)	Nicotine(DB00184)|Varenicline(DB01273)	CCACCACCACGACCCCGACGG	0.592													11	31	---	---	---	---	PASS	T	32455507	T	T	32455507	3	4	153	1	0	0	0	0	1	0	0	0	3388	1058	37	2	995	2	CHRNA7	15	32455507	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	4243551	32455507	70075885	222	54615										
RYR3	6263	broad.mit.edu	37	chr15	34140564	34140564	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttgatggcctatatatcaccGaacagccatctgaagatgac	8	10	2	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr15:34140564G>A	uc001zhi.2	+	94	13640	c.13570G>A	c.(13570-13572)GAA>AAA	p.E4524K	RYR3_uc010bar.2_Missense_Mutation_p.E4519K	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4524					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		ATATATCACCGAACAGCCATC	0.498													54	108	---	---	---	---	PASS	A	34140564	A	A	34140564	3	1	153	1	0	0	0	0	1	0	0	0	13770	1059	37	2	13944	2	RYR3	15	34140564	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	1685057	34140564	68390828	223	54616										
SPTBN5	51332	broad.mit.edu	37	chr15	42156199	42156199	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gacaagtcactgatgctcctGatgcaggcatcacccactgt	9	13	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr15:42156199G>C	uc001zos.2	-	40	7170	c.6837C>G	c.(6835-6837)ATC>ATG	p.I2279M		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	2314	Spectrin 20.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		TGATGCTCCTGATGCAGGCAT	0.592													39	103	---	---	---	---	PASS	C	42156199	C	C	42156199	3	2	153	1	0	0	0	0	1	0	0	0	15121	1280	45	2	4198	2	SPTBN5	15	42156199	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	8015635	42156199	60375193	224	54617										
SLC28A2	9153	broad.mit.edu	37	chr15	45564978	45564978	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgtgctgcagagggctctttCagaggtgagcaccaggaccc	14	11	2	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr15:45564978C>G	uc001zva.2	+	17	1920	c.1855C>G	c.(1855-1857)CAG>GAG	p.Q619E		NM_004212	NP_004203	O43868	S28A2_HUMAN	solute carrier family 28 (sodium-coupled	619					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		AGGGCTCTTTCAGAGGTGAGC	0.522													22	89	---	---	---	---	PASS	G	45564978	G	G	45564978	3	3	153	1	0	0	0	0	1	0	0	0	14532	827	29	2	1917	2	SLC28A2	15	45564978	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	3408779	45564978	56966414	225	54618										
GCNT3	9245	broad.mit.edu	37	chr15	59910530	59910530	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gtggctctgaaactttctttCaggttgaagtgtgactctga	11	7	4	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr15:59910530C>T	uc002age.2	+	3	542	c.93C>T	c.(91-93)TTC>TTT	p.F31F	GCNT3_uc002agd.2_Silent_p.F31F	NM_004751	NP_004742	O95395	GCNT3_HUMAN	glucosaminyl (N-acetyl) transferase 3, mucin	31	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|membrane fraction	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)	2						AACTTTCTTTCAGGTTGAAGT	0.478													65	177	---	---	---	---	PASS	T	59910530	T	T	59910530	2	4	153	1	0	0	0	0	0	0	0	1	6302	825	29	2		2	GCNT3	15	59910530	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	14345552	59910530	42620862	226	54619										
SLC24A1	9187	broad.mit.edu	37	chr15	65917025	65917025	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gagtaggcacttacgtgccgTccacattcatgacaatggaa	10	10	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr15:65917025T>C	uc010ujf.1	+	2	894	c.607T>C	c.(607-609)TCC>CCC	p.S203P	SLC24A1_uc010ujd.1_Missense_Mutation_p.S203P|SLC24A1_uc010uje.1_Missense_Mutation_p.S203P|SLC24A1_uc010ujg.1_Missense_Mutation_p.S203P|SLC24A1_uc010ujh.1_Missense_Mutation_p.S203P	NM_004727	NP_004718	O60721	NCKX1_HUMAN	solute carrier family 24	203	Extracellular (Potential).				response to light intensity|visual perception	integral to plasma membrane|membrane fraction|outer membrane	calcium, potassium:sodium antiporter activity|protein binding|symporter activity				0						TTACGTGCCGTCCACATTCAT	0.478													9	25	---	---	---	---	PASS	C	65917025	C	C	65917025	3	2	153	1	0	0	0	0	1	0	0	0	14465	1667	58	5		5	SLC24A1	15	65917025	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	6006495	65917025	36614367	227	54620										
MAP2K1	5604	broad.mit.edu	37	chr15	66729115	66729115	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggagatcaaacccgcaatccGgaaccagatcataagggagc	11	11	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr15:66729115G>A	uc010bhq.2	+	3	798	c.323G>A	c.(322-324)CGG>CAG	p.R108Q	MAP2K1_uc010ujp.1_Missense_Mutation_p.R86Q	NM_002755	NP_002746	Q02750	MP2K1_HUMAN	mitogen-activated protein kinase kinase 1	108	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|Ras protein signal transduction|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|plasma membrane	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						CCCGCAATCCGGAACCAGATC	0.473									Cardiofaciocutaneous_syndrome				45	108	---	---	---	---	PASS	A	66729115	A	A	66729115	3	1	153	1	0	0	0	0	1	0	0	0	9236	1116	39	1	333	1	MAP2K1	15	66729115	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	812090	66729115	35802277	228	54621										
TBC1D2B	23102	broad.mit.edu	37	chr15	78305451	78305451	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	acggtgctcgtggggaatgcCcgcacggatgaggtttttta	15	8	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr15:78305451C>T	uc002bcy.3	-	9	1984	c.1984G>A	c.(1984-1986)GGC>AGC	p.G662S	TBC1D2B_uc010bla.2_Missense_Mutation_p.G662S|TBC1D2B_uc002bda.2_Missense_Mutation_p.G114S	NM_144572	NP_653173	Q9UPU7	TBD2B_HUMAN	TBC1 domain family, member 2B isoform a	662	Rab-GAP TBC.					intracellular	protein binding|Rab GTPase activator activity			ovary(1)|large_intestine(1)|breast(1)	3						TGGGGAATGCCCGCACGGATG	0.527													36	91	---	---	---	---	PASS	T	78305451	T	T	78305451	3	4	153	1	0	0	0	0	1	0	0	0	15616	623	22	3	927	3	TBC1D2B	15	78305451	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	11576336	78305451	24225941	229	54622										
MEFV	4210	broad.mit.edu	37	chr16	3293241	3293241	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agataggttgaaggggcccaGagaaagagcagctggcgaat	16	6	0	4	rs104895171		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr16:3293241G>C	uc002cun.1	-	10	2286	c.2246C>G	c.(2245-2247)TCT>TGT	p.S749C		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	749	B30.2/SPRY.				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)	AAGGGGCCCAGAGAAAGAGCA	0.532													46	108	---	---	---	---	PASS	C	3293241	C	C	3293241	3	2	153	1	0	0	0	0	1	0	0	0	9459	942	33	2	103	2	MEFV	16	3293241	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08		3293241	87061512	230	54623										
SEPT12	124404	broad.mit.edu	37	chr16	4835825	4835825	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	taccagttgtcattgttgatCtggtccccgaagccgggcgt	12	11	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr16:4835825C>G	uc002cxq.2	-	4	498	c.357G>C	c.(355-357)CAG>CAC	p.Q119H	SEPT12_uc002cxr.2_Missense_Mutation_p.Q119H|SEPT12_uc010bty.2_RNA|uc002cxt.2_5'Flank	NM_144605	NP_653206	Q8IYM1	SEP12_HUMAN	septin 12 isoform 2	119					cell cycle|cell division	cleavage furrow|midbody|perinuclear region of cytoplasm|septin complex|spindle|stress fiber	GDP binding|GTP binding|phosphatidylinositol binding|protein homodimerization activity			skin(1)	1						CATTGTTGATCTGGTCCCCGA	0.358													24	88	---	---	---	---	PASS	G	4835825	G	G	4835825	3	3	153	1	0	0	0	0	1	0	0	0	14062	912	32	2	747	2	SEPT12	16	4835825	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	1542584	4835825	85518928	231	54624										
UMOD	7369	broad.mit.edu	37	chr16	20347982	20347982	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcttacctttccgtgtgatgGgacccaagttcaggacacgg	11	11	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr16:20347982G>A	uc002dgz.2	-	9	1937	c.1808C>T	c.(1807-1809)CCC>CTC	p.P603L	UMOD_uc002dha.2_Missense_Mutation_p.P603L|UMOD_uc002dhb.2_Missense_Mutation_p.P636L	NM_003361	NP_003352	P07911	UROM_HUMAN	uromodulin precursor	603					cellular defense response|negative regulation of cell proliferation	anchored to membrane|apical plasma membrane|basolateral plasma membrane|cilium membrane|extrinsic to membrane|primary cilium|spindle pole	calcium ion binding			ovary(1)|skin(1)	2						CCGTGTGATGGGACCCAAGTT	0.532													26	83	---	---	---	---	PASS	A	20347982	A	A	20347982	3	1	153	1	0	0	0	0	1	0	0	0	16976	1232	43	3	126	3	UMOD	16	20347982	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	15512157	20347982	70006771	232	54625										
DNAH3	55567	broad.mit.edu	37	chr16	20975047	20975047	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccacacctcctccgtaatttCcttcttctgtttcatgatgc	4	15	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr16:20975047C>A	uc010vbe.1	-	53	10159	c.10159G>T	c.(10159-10161)GAA>TAA	p.E3387*	DNAH3_uc010vbd.1_Nonsense_Mutation_p.E822*	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3387					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TCCGTAATTTCCTTCTTCTGT	0.517													43	95	---	---	---	---	PASS	A	20975047	A	A	20975047	4	1	153	1	0	0	0	0	0	1	0	0	4603	864	30	2	2230	2	DNAH3	16	20975047	Nonsense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	627065	20975047	69379706	233	54626										
COG7	91949	broad.mit.edu	37	chr16	23446017	23446017	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cggtcaatttcagtaaacacCttcacaaacactttggactg	6	11	3	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr16:23446017C>T	uc002dlo.2	-	5	815	c.627G>A	c.(625-627)AAG>AAA	p.K209K		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	209					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		CAGTAAACACCTTCACAAACA	0.438											OREG0023684	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	69	---	---	---	---	PASS	T	23446017	T	T	23446017	2	4	153	1	0	0	0	0	0	0	0	1	3663	680	24	3		3	COG7	16	23446017	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	2470970	23446017	66908736	234	54627										
HIRIP3	8479	broad.mit.edu	37	chr16	30004662	30004662	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gggtgctgcttctcctaaagGgttccaggctgtacgtctgc	13	11	2	0	rs143991731	byFrequency	TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr16:30004662G>T	uc002dve.2	-	7	1998	c.1537C>A	c.(1537-1539)CCT>ACT	p.P513T	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|INO80E_uc002dvg.1_5'Flank|INO80E_uc002dvh.1_5'Flank|INO80E_uc002dvi.1_5'Flank|INO80E_uc002dvj.1_5'Flank|INO80E_uc002dvk.1_5'Flank|HIRIP3_uc002dvf.2_3'UTR	NM_003609	NP_003600	Q9BW71	HIRP3_HUMAN	HIRA interacting protein 3	513					chromatin assembly or disassembly	nucleus	protein binding			central_nervous_system(1)	1						TCTCCTAAAGGGTTCCAGGCT	0.617													33	85	---	---	---	---	PASS	T	30004662	T	T	30004662	3	4	153	1	0	0	0	0	1	0	0	0	7121	1232	43	3	137	3	HIRIP3	16	30004662	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	6558645	30004662	60350091	235	54628										
NFATC3	4775	broad.mit.edu	37	chr16	68155895	68155895	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccttcctccccgtagatcttGagccagatgattgtgcatcc	8	14	1	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr16:68155895G>C	uc002evo.1	+	2	319	c.109G>C	c.(109-111)GAG>CAG	p.E37Q	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Missense_Mutation_p.E37Q|NFATC3_uc002evm.1_Missense_Mutation_p.E37Q|NFATC3_uc002evn.1_Missense_Mutation_p.E37Q|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	37					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		CGTAGATCTTGAGCCAGATGA	0.353													93	723	---	---	---	---	PASS	C	68155895	C	C	68155895	3	2	153	1	0	0	0	0	1	0	0	0	10364	1291	45	2	115	2	NFATC3	16	68155895	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	38151233	68155895	22198858	236	54629										
VAC14	55697	broad.mit.edu	37	chr16	70818069	70818069	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gttggagtaaatcctctctcGcaacaaggggatgaagctca	11	9	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr16:70818069G>A	uc002ezm.2	-	5	799	c.541C>T	c.(541-543)CGA>TGA	p.R181*	VAC14_uc010cfw.2_5'UTR|VAC14_uc002ezn.2_Intron	NM_018052	NP_060522	Q08AM6	VAC14_HUMAN	Vac14 homolog	181	HEAT 3.				interspecies interaction between organisms	endoplasmic reticulum|endosome membrane|microsome	protein binding|receptor activity			pancreas(1)|skin(1)	2		Ovarian(137;0.0699)				ATCCTCTCTCGCAACAAGGGG	0.542													32	52	---	---	---	---	PASS	A	70818069	A	A	70818069	4	1	153	1	0	0	0	0	0	1	0	0	17108	1095	38	1	1867	1	VAC14	16	70818069	Nonsense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	2662174	70818069	19536684	237	54630										
OSGIN1	29948	broad.mit.edu	37	chr16	83998920	83998920	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	acgtggtcctcgccacaggcAcgttcgacagcccggcccgg	13	17	0	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr16:83998920A>G	uc002fha.2	+	7	1374	c.991A>G	c.(991-993)ACG>GCG	p.T331A	OSGIN1_uc002fhb.2_Missense_Mutation_p.T248A|OSGIN1_uc002fhc.2_Missense_Mutation_p.T248A	NM_013370	NP_037502	Q9UJX0	OSGI1_HUMAN	oxidative stress induced growth inhibitor 1	331					cell differentiation|multicellular organismal development|negative regulation of cell growth		growth factor activity				0						CGCCACAGGCACGTTCGACAG	0.701													16	23	---	---	---	---	PASS	G	83998920	G	G	83998920	3	3	153	1	0	0	0	0	1	0	0	0	11289	159	6	5	1017	5	OSGIN1	16	83998920	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	13180851	83998920	6355833	238	54631										
GAS8	2622	broad.mit.edu	37	chr16	90109622	90109622	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aggcccataacgacctgctgCgcacgtatgaggcaaagctg	12	12	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr16:90109622C>A	uc002fqi.1	+	11	1428	c.1306C>A	c.(1306-1308)CGC>AGC	p.R436S	GAS8_uc010vps.1_Missense_Mutation_p.R411S|GAS8_uc002fqh.2_Missense_Mutation_p.R353S|GAS8_uc010cjc.1_Missense_Mutation_p.R353S|GAS8_uc010vpw.1_Missense_Mutation_p.R353S|GAS8_uc002fqj.1_Missense_Mutation_p.R244S|LOC100130015_uc002fql.2_Intron|LOC100130015_uc010cjd.2_3'UTR	NM_001481	NP_001472	O95995	GAS8_HUMAN	growth arrest-specific 8	436					negative regulation of cell proliferation|sperm motility	cilium|Golgi apparatus|microtubule|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.029)		CGACCTGCTGCGCACGTATGA	0.627													26	39	---	---	---	---	PASS	A	90109622	A	A	90109622	3	1	153	1	0	0	0	0	1	0	0	0	6251	768	27	1	1348	1	GAS8	16	90109622	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	6110702	90109622	245131	239	54632										
SPNS3	201305	broad.mit.edu	37	chr17	4352621	4352621	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cccccaagtttctgctcgagGcacgcgtggttcacgggctg	13	14	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:4352621G>T	uc002fxt.2	+	7	906	c.862G>T	c.(862-864)GCA>TCA	p.A288S	SPNS3_uc002fxu.2_Missense_Mutation_p.A161S	NM_182538	NP_872344	Q6ZMD2	SPNS3_HUMAN	spinster homolog 3	288					lipid transport|transmembrane transport	integral to membrane				large_intestine(1)	1						TCTGCTCGAGGCACGCGTGGT	0.677													32	51	---	---	---	---	PASS	T	4352621	T	T	4352621	3	4	153	1	0	0	0	0	1	0	0	0	15075	1203	42	3	888	3	SPNS3	17	4352621	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08		4352621	76842589	240	54633										
ZMYND15	84225	broad.mit.edu	37	chr17	4647727	4647727	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttgtaggtgatggcctgcccCccgaaagcgacgagcagcat	13	12	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:4647727C>T	uc002fyt.2	+	9	1570	c.1531C>T	c.(1531-1533)CCC>TCC	p.P511S	ZMYND15_uc002fyv.2_Missense_Mutation_p.P550S|ZMYND15_uc002fyu.2_Missense_Mutation_p.P550S	NM_032265	NP_115641	Q9H091	ZMY15_HUMAN	zinc finger, MYND-type containing 15 isoform 2	511							zinc ion binding				0						TGGCCTGCCCCCCGAAAGCGA	0.597													39	51	---	---	---	---	PASS	T	4647727	T	T	4647727	3	4	153	1	0	0	0	0	1	0	0	0	17705	623	22	3	1682	3	ZMYND15	17	4647727	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	295106	4647727	76547483	241	54634										
TP53	7157	broad.mit.edu	37	chr17	7578442	7578442	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcatgtgctgtgactgcttgTagatggccatggcgcggacg	15	9	1	2	rs148924904		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:7578442T>C	uc002gim.2	-	5	682	c.488A>G	c.(487-489)TAC>TGC	p.Y163C	TP53_uc002gig.1_Missense_Mutation_p.Y163C|TP53_uc002gih.2_Missense_Mutation_p.Y163C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y31C|TP53_uc010cng.1_Missense_Mutation_p.Y31C|TP53_uc002gii.1_Missense_Mutation_p.Y31C|TP53_uc010cnh.1_Missense_Mutation_p.Y163C|TP53_uc010cni.1_Missense_Mutation_p.Y163C|TP53_uc002gij.2_Missense_Mutation_p.Y163C|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.Y70C|TP53_uc002gio.2_Missense_Mutation_p.Y31C|TP53_uc010vug.1_Missense_Mutation_p.Y124C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	163	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> F (in a sporadic cancer; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Y -> S (in sporadic cancers; somatic mutation).|Y -> N (in sporadic cancers; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Y163C(95)|p.Y163N(17)|p.Y163H(17)|p.Y163*(7)|p.0?(7)|p.Y163S(4)|p.Y163Y(3)|p.Y163fs*1(2)|p.Y163D(2)|p.Y163fs*7(2)|p.V157_C176del20(1)|p.Y163_Q165delYKQ(1)|p.P151_V173del23(1)|p.Y163fs*14(1)|p.S149fs*72(1)|p.A159_Q167delAMAIYKQSQ(1)|p.Y163fs*18(1)|p.I162_Y163delIY(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)		TGACTGCTTGTAGATGGCCAT	0.622		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)			24	49	---	---	---	---	PASS	C	7578442	C	C	7578442	3	2	153	1	0	0	0	0	1	0	0	0	16378	1638	57	5	810	5	TP53	17	7578442	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	2930715	7578442	73616768	242	54635										
GUCY2D	3000	broad.mit.edu	37	chr17	7907007	7907007	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cggggcctgcctgtcgcctcCgtgacttccatggagccctt	12	16	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:7907007C>A	uc002gjt.2	+	2	716	c.642C>A	c.(640-642)TCC>TCA	p.S214S		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	214	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				CTGTCGCCTCCGTGACTTCCA	0.721													5	16	---	---	---	---	PASS	A	7907007	A	A	7907007	2	1	153	1	0	0	0	0	0	0	0	1	6897	639	23	1		1	GUCY2D	17	7907007	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	328565	7907007	73288203	243	54636										
USP43	124739	broad.mit.edu	37	chr17	9586219	9586219	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tccctctctctccacagtgaGagcaaggtgctaatcctctt	7	14	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:9586219G>C	uc010cod.2	+	7	1185	c.1185G>C	c.(1183-1185)GAG>GAC	p.E395D	USP43_uc002gma.3_Missense_Mutation_p.E84D|USP43_uc010vva.1_Missense_Mutation_p.E395D|USP43_uc010coe.2_Missense_Mutation_p.E192D	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	ubiquitin specific protease 43	395					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						TCCACAGTGAGAGCAAGGTGC	0.537													47	73	---	---	---	---	PASS	C	9586219	C	C	9586219	3	2	153	1	0	0	0	0	1	0	0	0	17071	933	33	2	1211	2	USP43	17	9586219	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	1679212	9586219	71608991	244	54637										
ZNF286A	57335	broad.mit.edu	37	chr17	15619583	15619583	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aatgttcactcacatgaattCactctctgaggaaacagacc	6	11	4	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:15619583C>G	uc010cot.2	+	6	941	c.545C>G	c.(544-546)TCA>TGA	p.S182*	ZNF286A_uc002goz.3_Nonsense_Mutation_p.S70*|ZNF286A_uc010vwa.1_Nonsense_Mutation_p.S182*|ZNF286A_uc002gpa.2_Nonsense_Mutation_p.S182*	NM_001130842	NP_001124314	Q9HBT8	Z286A_HUMAN	zinc finger protein 286	182					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(1115;0.0222)|BRCA - Breast invasive adenocarcinoma(8;0.0781)		CACATGAATTCACTCTCTGAG	0.393													46	96	---	---	---	---	PASS	G	15619583	G	G	15619583	4	3	153	1	0	0	0	0	0	1	0	0	17820	838	29	2	563	2	ZNF286A	17	15619583	Nonsense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	6033364	15619583	65575627	245	54638										
AMAC1	146861	broad.mit.edu	37	chr17	33520409	33520409	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gccgccacgatgtcagaaggTgccacagtctcatggagcat	12	12	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:33520409T>A	uc002hjd.2	-	1	1004	c.918A>T	c.(916-918)GCA>GCT	p.A306A		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	306	DUF6 2.|Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		TGTCAGAAGGTGCCACAGTCT	0.582													52	154	---	---	---	---	PASS	A	33520409	A	A	33520409	2	1	153	1	0	0	0	0	0	0	0	1	559	1683	59	5		5	AMAC1	17	33520409	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	17900826	33520409	47674801	246	54639										
CDC6	990	broad.mit.edu	37	chr17	38447371	38447371	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tctccaccaaagcaaggcaaGaaagagaatggtccccctca	8	13	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:38447371G>T	uc002huj.1	+	3	450	c.240G>T	c.(238-240)AAG>AAT	p.K80N		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	80					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						AGCAAGGCAAGAAAGAGAATG	0.418													71	203	---	---	---	---	PASS	T	38447371	T	T	38447371	3	4	153	1	0	0	0	0	1	0	0	0	3083	933	33	2	246	2	CDC6	17	38447371	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	4926962	38447371	42747839	247	54640										
EZH1	2145	broad.mit.edu	37	chr17	40858079	40858079	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	caggaaaccaccttgcagtcCcagtgctctgaggccccaca	9	16	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:40858079C>T	uc002iaz.2	-	16	1930	c.1785G>A	c.(1783-1785)TGG>TGA	p.W595*	EZH1_uc002iba.2_Nonsense_Mutation_p.W586*|EZH1_uc010wgt.1_Nonsense_Mutation_p.W525*|EZH1_uc010wgu.1_Nonsense_Mutation_p.W601*|EZH1_uc010wgv.1_Nonsense_Mutation_p.W555*|EZH1_uc010wgw.1_Nonsense_Mutation_p.W456*|EZH1_uc010cyp.2_Nonsense_Mutation_p.W496*|EZH1_uc010cyq.2_Nonsense_Mutation_p.W512*|EZH1_uc010cyo.1_Nonsense_Mutation_p.W258*	NM_001991	NP_001982	Q92800	EZH1_HUMAN	enhancer of zeste homolog 1	595	Cys-rich.			ASEHWDCKVVSC -> PQSTGTARWFPV (in Ref. 2; BAA25019).	anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	chromatin binding|DNA binding			ovary(3)	3		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0784)		CCTTGCAGTCCCAGTGCTCTG	0.537													23	44	---	---	---	---	PASS	T	40858079	T	T	40858079	4	4	153	1	0	0	0	0	0	1	0	0	5333	624	22	3	482	3	EZH1	17	40858079	Nonsense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	2410708	40858079	40337131	248	54641										
KIF18B	146909	broad.mit.edu	37	chr17	43012642	43012642	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccgacctcctggtagctgatGagcacctcgaagtgcttctc	10	14	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:43012642G>C	uc010wji.1	-	3	557	c.456C>G	c.(454-456)CTC>CTG	p.L152L	KIF18B_uc002iht.2_Silent_p.L152L|KIF18B_uc010wjh.1_Silent_p.L152L	NM_001080443	NP_001073912			kinesin family member 18B											ovary(2)	2		Prostate(33;0.155)				GGTAGCTGATGAGCACCTCGA	0.652													11	12	---	---	---	---	PASS	C	43012642	C	C	43012642	2	2	153	1	0	0	0	0	0	0	0	1	8281	1277	45	2		2	KIF18B	17	43012642	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	2154563	43012642	38182568	249	54642										
MYST2	11143	broad.mit.edu	37	chr17	47875906	47875906	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tatgaagtgtcctacaccagGctgtaactctctaggtcagt	9	10	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:47875906G>A	uc002ipm.2	+	4	692	c.566G>A	c.(565-567)GGC>GAC	p.G189D	MYST2_uc002ipl.1_Missense_Mutation_p.G189D|MYST2_uc010wma.1_Intron|MYST2_uc010wmb.1_Intron|MYST2_uc010wmc.1_Intron|MYST2_uc010wmd.1_Missense_Mutation_p.G33D|MYST2_uc010wme.1_Missense_Mutation_p.G33D	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2	189					DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						CCTACACCAGGCTGTAACTCT	0.493													60	182	---	---	---	---	PASS	A	47875906	A	A	47875906	3	1	153	1	0	0	0	0	1	0	0	0	10103	1203	42	3	580	3	MYST2	17	47875906	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	4863264	47875906	33319304	250	54643										
COL1A1	1277	broad.mit.edu	37	chr17	48269169	48269169	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cttagcaccatcgttgccggGagcaccgttggcccctcggg	13	15	0	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:48269169G>T	uc002iqm.2	-	31	2233	c.2107C>A	c.(2107-2109)CCC>ACC	p.P703T		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	703	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	TCGTTGCCGGGAGCACCGTTG	0.677			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						6	11	---	---	---	---	PASS	T	48269169	T	T	48269169	3	4	153	1	0	0	0	0	1	0	0	0	3677	1174	41	2	2371	2	COL1A1	17	48269169	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	393263	48269169	32926041	251	54644										
GH2	2689	broad.mit.edu	37	chr17	61958203	61958203	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gttgctgtccgaggcgccatAcaccaggctgttggcgaaga	14	11	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:61958203A>G	uc002jco.1	-	4	447	c.385T>C	c.(385-387)TAT>CAT	p.Y129H	GH2_uc002jcj.2_Missense_Mutation_p.Y129H|CSH2_uc002jck.2_Intron|GH2_uc002jcl.1_Missense_Mutation_p.Y129H|GH2_uc002jcm.1_Missense_Mutation_p.Y129H|GH2_uc002jcn.1_Missense_Mutation_p.Y114H	NM_002059	NP_002050	P01242	SOM2_HUMAN	growth hormone 2 isoform 1	129						extracellular region	hormone activity			upper_aerodigestive_tract(2)|pancreas(1)	3						GAGGCGCCATACACCAGGCTG	0.612													38	96	---	---	---	---	PASS	G	61958203	G	G	61958203	3	3	153	1	0	0	0	0	1	0	0	0	6368	391	14	5	613	5	GH2	17	61958203	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	13689034	61958203	19237007	252	54645										
LRRC37A3	374819	broad.mit.edu	37	chr17	62856606	62856606	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	taacttctcaggcccctgctGtgtgtgaggctgtttcagct	11	11	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr17:62856606G>A	uc002jey.2	-	11	4189	c.3658C>T	c.(3658-3660)CAG>TAG	p.Q1220*	LRRC37A3_uc010wqg.1_Nonsense_Mutation_p.Q338*|LRRC37A3_uc002jex.1_Nonsense_Mutation_p.Q197*|LRRC37A3_uc010wqf.1_Nonsense_Mutation_p.Q258*|LRRC37A3_uc010dek.1_Nonsense_Mutation_p.Q226*	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1220	Extracellular (Potential).					integral to membrane					0						GGCCCCTGCTGTGTGTGAGGC	0.562													81	150	---	---	---	---	PASS	A	62856606	A	A	62856606	4	1	153	1	0	0	0	0	0	1	0	0	8993	1386	48	3	1262	3	LRRC37A3	17	62856606	Nonsense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	898403	62856606	18338604	253	54646										
L3MBTL4	91133	broad.mit.edu	37	chr18	5969427	5969427	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	acgtgccacttggctggcccGgatgtcagccacgcctggaa	13	14	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr18:5969427G>A	uc002kmz.3	-	18	1766	c.1606C>T	c.(1606-1608)CGG>TGG	p.R536W	L3MBTL4_uc010dkt.2_Missense_Mutation_p.R536W|L3MBTL4_uc002kmy.3_Missense_Mutation_p.R365W	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	536					chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				TGGCTGGCCCGGATGTCAGCC	0.632													22	29	---	---	---	---	PASS	A	5969427	A	A	5969427	3	1	153	1	0	0	0	0	1	0	0	0	8594	1115	39	1	277	1	L3MBTL4	18	5969427	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08		5969427	72107821	254	54647										
ZNF519	162655	broad.mit.edu	37	chr18	14105546	14105546	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgttgagtaaggtatgagccTctgttaaaagctttgccaca	10	7	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr18:14105546T>A	uc002kst.1	-	3	1146	c.993A>T	c.(991-993)AGA>AGT	p.R331S	ZNF519_uc002ksq.1_Intron|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_Intron	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	331	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGTATGAGCCTCTGTTAAAAG	0.423													75	212	---	---	---	---	PASS	A	14105546	A	A	14105546	3	1	153	1	0	0	0	0	1	0	0	0	17961	1548	54	5	633	5	ZNF519	18	14105546	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	8136119	14105546	63971702	255	54648										
CTAGE1	64693	broad.mit.edu	37	chr18	19997754	19997754	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aattcccatggaaaaccataAggatgagaatcgggtctcat	9	8	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr18:19997754A>C	uc002ktv.1	-	1	125	c.21T>G	c.(19-21)CCT>CCG	p.P7P		NM_172241	NP_758441	Q96RT6	CTGE2_HUMAN	cutaneous T-cell lymphoma-associated antigen 1	7						integral to membrane				ovary(1)	1	all_cancers(21;0.000361)|all_epithelial(16;9.61e-06)|Colorectal(14;0.0533)|Lung NSC(20;0.0605)|Ovarian(2;0.116)|all_lung(20;0.135)					GAAAACCATAAGGATGAGAAT	0.498													12	41	---	---	---	---	PASS	C	19997754	C	C	19997754	2	2	153	1	0	0	0	0	0	0	0	1	3992	59	3	5		5	CTAGE1	18	19997754	Silent	SNP	A	TCGA-66-2768-01A-01D-1522-08	5892208	19997754	58079494	256	54649										
CDH7	1005	broad.mit.edu	37	chr18	63511180	63511180	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agataattgtggaagatgtaGatgagccccctgtgttctct	11	7	1	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr18:63511180G>T	uc002ljz.2	+	7	1439	c.1114G>T	c.(1114-1116)GAT>TAT	p.D372Y	CDH7_uc002lka.2_Missense_Mutation_p.D372Y|CDH7_uc002lkb.2_Missense_Mutation_p.D372Y	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	372	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GGAAGATGTAGATGAGCCCCC	0.502													48	77	---	---	---	---	PASS	T	63511180	T	T	63511180	3	4	153	1	0	0	0	0	1	0	0	0	3115	942	33	2	1136	2	CDH7	18	63511180	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	43513426	63511180	14566068	257	54650										
SIRT6	51548	broad.mit.edu	37	chr19	4179213	4179213	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gtgggtctgcgtgggccgcgCgctctcaaaggtggtgtcga	18	10	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:4179213C>A	uc002lzo.2	-	3	325	c.265G>T	c.(265-267)GCG>TCG	p.A89S	SIRT6_uc002lzn.2_Missense_Mutation_p.A17S|SIRT6_uc002lzp.2_Intron|SIRT6_uc010xid.1_Missense_Mutation_p.A17S|SIRT6_uc002lzq.2_Missense_Mutation_p.A89S|SIRT6_uc002lzr.2_Missense_Mutation_p.A17S	NM_016539	NP_057623	Q8N6T7	SIRT6_HUMAN	sirtuin 6	89	Deacetylase sirtuin-type.				chromatin silencing|protein ADP-ribosylation	nuclear telomeric heterochromatin|nucleoplasm	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity|NAD+ binding|NAD-dependent histone deacetylase activity (H3-K9 specific)|protein binding|zinc ion binding			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.023)|STAD - Stomach adenocarcinoma(1328;0.18)		GTGGGCCGCGCGCTCTCAAAG	0.682													3	17	---	---	---	---	PASS	A	4179213	A	A	4179213	3	1	153	1	0	0	0	0	1	0	0	0	14342	768	27	1	826	1	SIRT6	19	4179213	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08		4179213	54949770	258	54651										
MUC16	94025	broad.mit.edu	37	chr19	9057422	9057422	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	acaaagagagagctcttccaTgatggattttcaggactcct	9	9	2	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:9057422T>C	uc002mkp.2	-	3	30228	c.30024A>G	c.(30022-30024)TCA>TCG	p.S10008S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10010	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGCTCTTCCATGATGGATTTT	0.453													52	279	---	---	---	---	PASS	C	9057422	C	C	9057422	2	2	153	1	0	0	0	0	0	0	0	1	9973	1451	51	5		5	MUC16	19	9057422	Silent	SNP	T	TCGA-66-2768-01A-01D-1522-08	4878209	9057422	50071561	259	54652										
ANGPTL6	83854	broad.mit.edu	37	chr19	10203304	10203304	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atgagcatggcggccttcctGagagaatatgccccaccacg	11	13	0	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:10203304G>C	uc002mmx.1	-	6	1492	c.1374C>G	c.(1372-1374)CTC>CTG	p.L458L	C19orf66_uc002mmu.3_3'UTR|C19orf66_uc002mmv.3_3'UTR|C19orf66_uc002mmw.3_3'UTR|ANGPTL6_uc002mmy.1_Silent_p.L458L	NM_031917	NP_114123	Q8NI99	ANGL6_HUMAN	angiopoietin-like 6 precursor	458	Fibrinogen C-terminal.				angiogenesis|cell differentiation|signal transduction	extracellular space	receptor binding				0			OV - Ovarian serous cystadenocarcinoma(20;3.58e-08)|Epithelial(33;2.5e-05)|all cancers(31;5.96e-05)			CGGCCTTCCTGAGAGAATATG	0.587													29	247	---	---	---	---	PASS	C	10203304	C	C	10203304	2	2	153	1	0	0	0	0	0	0	0	1	618	1277	45	2		2	ANGPTL6	19	10203304	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	1145882	10203304	48925679	260	54653										
BRD4	23476	broad.mit.edu	37	chr19	15365027	15365027	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctctccgactctgaggacgaGaagcccttcatcttggagga	11	12	4	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:15365027G>C	uc002nar.2	-	11	2316	c.2094C>G	c.(2092-2094)TTC>TTG	p.F698L	BRD4_uc002nas.2_Missense_Mutation_p.F698L|BRD4_uc002nat.3_Missense_Mutation_p.F698L	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	698	Ser-rich.				interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			CTGAGGACGAGAAGCCCTTCA	0.552			T	NUT|C15orf55	lethal midline carcinoma of young people								18	59	---	---	---	---	PASS	C	15365027	C	C	15365027	3	2	153	1	0	0	0	0	1	0	0	0	1504	933	33	2	2049	2	BRD4	19	15365027	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	5161723	15365027	43763956	261	54654										
PGLS	25796	broad.mit.edu	37	chr19	17631857	17631857	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gaggcggccgcccgcctcctGaccgtgcccttcgagaagca	13	17	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:17631857G>C	uc002ngw.2	+	5	794	c.744G>C	c.(742-744)CTG>CTC	p.L248L	FAM129C_uc010xpq.1_5'Flank|FAM129C_uc010xpr.1_5'Flank	NM_012088	NP_036220	O95336	6PGL_HUMAN	6-phosphogluconolactonase	248						cytosol	6-phosphogluconolactonase activity				0						CCCGCCTCCTGACCGTGCCCT	0.692													4	15	---	---	---	---	PASS	C	17631857	C	C	17631857	2	2	153	1	0	0	0	0	0	0	0	1	11792	1277	45	2		2	PGLS	19	17631857	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	2266830	17631857	41497126	262	54655										
WDR88	126248	broad.mit.edu	37	chr19	33663274	33663274	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gataggaccatgagactgtgGaatattgaagaaattgatga	12	3	0	5			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:33663274G>C	uc002nui.2	+	10	1248	c.1170G>C	c.(1168-1170)TGG>TGC	p.W390C		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	390	WD 7.									ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					TGAGACTGTGGAATATTGAAG	0.289													39	140	---	---	---	---	PASS	C	33663274	C	C	33663274	3	2	153	1	0	0	0	0	1	0	0	0	17332	1183	41	2	1208	2	WDR88	19	33663274	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	16031417	33663274	25465709	263	54656										
ZNF461	92283	broad.mit.edu	37	chr19	37129562	37129562	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ccatcaacaaatttcatgatGctagactaggatggggaggg	12	7	2	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:37129562G>C	uc002oem.2	-	6	1913	c.1685C>G	c.(1684-1686)GCA>GGA	p.A562G	ZNF461_uc002oen.2_Missense_Mutation_p.A531G|ZNF461_uc010xtj.1_Missense_Mutation_p.A539G	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	562					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			ATTTCATGATGCTAGACTAGG	0.343													15	28	---	---	---	---	PASS	C	37129562	C	C	37129562	3	2	153	1	0	0	0	0	1	0	0	0	17922	1319	46	4	10	4	ZNF461	19	37129562	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	3466288	37129562	21999421	264	54657										
SPTBN4	57731	broad.mit.edu	37	chr19	41063074	41063074	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggccgagtggaaggacggacTgaacgaggcctgggctgagc	19	9	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:41063074T>A	uc002ony.2	+	26	5521	c.5435T>A	c.(5434-5436)CTG>CAG	p.L1812Q	SPTBN4_uc002onx.2_Missense_Mutation_p.L1812Q|SPTBN4_uc002onz.2_Missense_Mutation_p.L1812Q|SPTBN4_uc010egx.2_Missense_Mutation_p.L555Q|SPTBN4_uc002ooa.2_Missense_Mutation_p.L488Q	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1812	Spectrin 15.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AAGGACGGACTGAACGAGGCC	0.642													7	27	---	---	---	---	PASS	A	41063074	A	A	41063074	3	1	153	1	0	0	0	0	1	0	0	0	15120	1580	55	5	5533	5	SPTBN4	19	41063074	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	3933512	41063074	18065909	265	54658										
EMP3	2014	broad.mit.edu	37	chr19	48830165	48830165	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttcttatactgcttttcgtgGccactttggacaaggtaagc	9	9	1	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:48830165G>A	uc002piv.2	+	2	318	c.64G>A	c.(64-66)GCC>ACC	p.A22T		NM_001425	NP_001416	P54852	EMP3_HUMAN	epithelial membrane protein 3	22	Helical; (Potential).				cell growth|negative regulation of cell proliferation	integral to membrane					0		all_epithelial(76;6.08e-07)|all_lung(116;5.76e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.00989)|Prostate(7;0.0143)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000138)|all cancers(93;0.00017)|Epithelial(262;0.0138)|GBM - Glioblastoma multiforme(486;0.0146)		GCTTTTCGTGGCCACTTTGGA	0.577													83	219	---	---	---	---	PASS	A	48830165	A	A	48830165	3	1	153	1	0	0	0	0	1	0	0	0	5103	1203	42	3	66	3	EMP3	19	48830165	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	7767091	48830165	10298818	266	54659										
KCNA7	3743	broad.mit.edu	37	chr19	49575579	49575579	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aaggccacctcttccaggaaGacgtcgagcggcacgtgcgc	13	14	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:49575579G>A	uc002pmg.2	-	1	620	c.264C>T	c.(262-264)GTC>GTT	p.V88V		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	88						voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)		CTTCCAGGAAGACGTCGAGCG	0.736													9	10	---	---	---	---	PASS	A	49575579	A	A	49575579	2	1	153	1	0	0	0	0	0	0	0	1	8008	929	33	2		2	KCNA7	19	49575579	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	745414	49575579	9553404	267	54660										
ZNF808	388558	broad.mit.edu	37	chr19	53056834	53056834	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttcattactcccacaaaaacAggaagtacacatgagagaaa	6	9	1	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:53056834A>T	uc010epq.1	+	5	842	c.665A>T	c.(664-666)CAG>CTG	p.Q222L	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	222					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		CCACAAAAACAGGAAGTACAC	0.383													124	286	---	---	---	---	PASS	T	53056834	T	T	53056834	3	4	153	1	0	0	0	0	1	0	0	0	18170	188	7	5	675	5	ZNF808	19	53056834	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	3481255	53056834	6072149	268	54661										
USP29	57663	broad.mit.edu	37	chr19	57640894	57640894	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctctcattcacagcaactgcAgcaggggttccccaatttgg	9	13	2	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:57640894A>T	uc002qny.2	+	4	1207	c.851A>T	c.(850-852)CAG>CTG	p.Q284L		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	284					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CAGCAACTGCAGCAGGGGTTC	0.458													37	121	---	---	---	---	PASS	T	57640894	T	T	57640894	3	4	153	1	0	0	0	0	1	0	0	0	17056	188	7	5	853	5	USP29	19	57640894	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	4584060	57640894	1488089	269	54662										
ZIK1	284307	broad.mit.edu	37	chr19	58102492	58102492	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agcaaggccttatgagtgtgGccagtgtggaaagtccttta	13	7	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:58102492G>T	uc002qpg.2	+	4	1410	c.1313G>T	c.(1312-1314)GGC>GTC	p.G438V	ZNF547_uc002qpm.3_Intron|ZIK1_uc002qph.2_Missense_Mutation_p.G383V|ZIK1_uc002qpi.2_Missense_Mutation_p.G425V|ZIK1_uc002qpj.2_Missense_Mutation_p.G335V	NM_001010879	NP_001010879	Q3SY52	ZIK1_HUMAN	zinc finger protein interacting with K protein	438	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TATGAGTGTGGCCAGTGTGGA	0.458													24	69	---	---	---	---	PASS	T	58102492	T	T	58102492	3	4	153	1	0	0	0	0	1	0	0	0	17680	1203	42	3	1327	3	ZIK1	19	58102492	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	461598	58102492	1026491	270	54663										
ZNF135	7694	broad.mit.edu	37	chr19	58579207	58579207	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aaccttcagccacagctcctCactcagccagcatgagcgga	8	16	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr19:58579207C>T	uc010yhq.1	+	5	1487	c.1391C>T	c.(1390-1392)TCA>TTA	p.S464L	ZNF135_uc002qre.2_Missense_Mutation_p.S452L|ZNF135_uc002qrd.1_Intron|ZNF135_uc002qrf.2_Missense_Mutation_p.S410L|ZNF135_uc002qrg.2_Missense_Mutation_p.S422L|ZNF135_uc010yhr.1_Missense_Mutation_p.S273L	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	464					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		CACAGCTCCTCACTCAGCCAG	0.567													18	48	---	---	---	---	PASS	T	58579207	T	T	58579207	3	4	153	1	0	0	0	0	1	0	0	0	17722	838	29	2	1558	2	ZNF135	19	58579207	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	476715	58579207	549776	271	54664										
AHCY	191	broad.mit.edu	37	chr20	32873392	32873392	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	caggttgaccagccgaccctCggccagcaggatgatgcggc	14	14	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr20:32873392C>T	uc002xai.2	-	9	1160	c.1021G>A	c.(1021-1023)GAG>AAG	p.E341K	AHCY_uc002xaj.2_Missense_Mutation_p.E313K	NM_000687	NP_000678	P23526	SAHH_HUMAN	adenosylhomocysteinase isoform 1	341					methylation|xenobiotic metabolic process	cytosol|melanosome	adenosylhomocysteinase activity|protein binding				0						AGCCGACCCTCGGCCAGCAGG	0.632													26	89	---	---	---	---	PASS	T	32873392	T	T	32873392	3	4	153	1	0	0	0	0	1	0	0	0	409	893	31	2	285	2	AHCY	20	32873392	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08		32873392	30152128	272	54665										
CTSA	5476	broad.mit.edu	37	chr20	44526355	44526355	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ttttaccccatcctgctttaGaaataccagatcctattata	3	11	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr20:44526355G>C	uc002xqj.3	+	13	1639	c.1165_splice	c.e13-1	p.K389_splice	CTSA_uc002xqh.2_Splice_Site_p.K407_splice|CTSA_uc002xqi.2_Splice_Site|CTSA_uc010zxi.1_Splice_Site_p.K390_splice|CTSA_uc002xqk.3_Splice_Site_p.K389_splice	NM_001127695	NP_001121167	P10619	PPGB_HUMAN	cathepsin A isoform b precursor						intracellular protein transport|proteolysis	endoplasmic reticulum|lysosome|nucleus	enzyme activator activity|protein binding|serine-type carboxypeptidase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				TCCTGCTTTAGAAATACCAGA	0.488													33	87	---	---	---	---	PASS	C	44526355	C	C	44526355	5	2	153	1	0	0	0	0	0	0	1	0	4029	956	33	2	1268	2	CTSA	20	44526355	Splice_Site	SNP	G	TCGA-66-2768-01A-01D-1522-08	11652963	44526355	18499165	273	54666										
ZBP1	81030	broad.mit.edu	37	chr20	56185231	56185231	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cctcccctggctccccctctCcagaccctgcgactcctcct	5	24	1	1	rs77921447		TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr20:56185231C>A	uc002xyo.2	-	7	1348	c.1067G>T	c.(1066-1068)GGA>GTA	p.G356V	ZBP1_uc010gjm.2_Missense_Mutation_p.G355V|ZBP1_uc002xyp.2_Missense_Mutation_p.G281V	NM_030776	NP_110403	Q9H171	ZBP1_HUMAN	Z-DNA binding protein 1 isoform a	356						cytoplasm|nucleus	double-stranded RNA adenosine deaminase activity|left-handed Z-DNA binding|RNA binding			ovary(2)	2	Lung NSC(12;0.000545)|all_lung(29;0.00195)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;7.87e-13)|Epithelial(14;3.26e-09)|all cancers(14;3.62e-08)			CTCCCCCTCTCCAGACCCTGC	0.587													67	167	---	---	---	---	PASS	A	56185231	A	A	56185231	3	1	153	1	0	0	0	0	1	0	0	0	17518	855	30	2	230	2	ZBP1	20	56185231	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	11658876	56185231	6840289	274	54667										
PHACTR3	116154	broad.mit.edu	37	chr20	58348415	58348415	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gctctccacacccacggggtCtccgcatctcaccacggtcc	8	20	3	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr20:58348415C>A	uc002yau.2	+	6	1300	c.833C>A	c.(832-834)TCT>TAT	p.S278Y	PHACTR3_uc002yat.2_Missense_Mutation_p.S275Y|PHACTR3_uc010zzw.1_Missense_Mutation_p.S237Y|PHACTR3_uc002yav.2_Missense_Mutation_p.S237Y|PHACTR3_uc002yaw.2_Missense_Mutation_p.S237Y|PHACTR3_uc002yax.2_Missense_Mutation_p.S167Y	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	278						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			CCCACGGGGTCTCCGCATCTC	0.672													23	79	---	---	---	---	PASS	A	58348415	A	A	58348415	3	1	153	1	0	0	0	0	1	0	0	0	11811	913	32	2	855	2	PHACTR3	20	58348415	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	2163184	58348415	4677105	275	54668										
OSBPL2	9885	broad.mit.edu	37	chr20	60835156	60835156	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	aaactggggagaggccctctCaagagaacggaattcagaaa	12	8	2	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr20:60835156C>G	uc002yck.1	+	3	359	c.157C>G	c.(157-159)CAA>GAA	p.Q53E	OSBPL2_uc002ycl.1_Missense_Mutation_p.Q41E|OSBPL2_uc011aah.1_Intron	NM_144498	NP_653081	Q9H1P3	OSBL2_HUMAN	oxysterol-binding protein-like protein 2 isoform	53					lipid transport		lipid binding			ovary(1)|central_nervous_system(1)	2	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;1.33e-06)			GAGGCCCTCTCAAGAGAACGG	0.438													54	142	---	---	---	---	PASS	G	60835156	G	G	60835156	3	3	153	1	0	0	0	0	1	0	0	0	11278	827	29	2	163	2	OSBPL2	20	60835156	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	2486741	60835156	2190364	276	54669										
TNFRSF6B	8771	broad.mit.edu	37	chr20	62329796	62329796	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctgaagctgcgtcggcggctCacggagctcctgggggcgca	17	13	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr20:62329796C>G	uc002yfy.2	+	7	1217	c.783C>G	c.(781-783)CTC>CTG	p.L261L	RTEL1_uc002yfw.2_RNA|TNFRSF6B_uc002yfz.2_Silent_p.L261L	NM_032945	NP_116563	O95407	TNF6B_HUMAN	tumor necrosis factor receptor superfamily,	261					anti-apoptosis|apoptosis	extracellular region|soluble fraction	protein binding|receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.66e-12)|all_epithelial(29;2.56e-13)|Lung NSC(23;1.06e-08)|all_lung(23;3.34e-08)		Epithelial(9;1.78e-08)|all cancers(9;7.89e-08)|OV - Ovarian serous cystadenocarcinoma(5;0.00504)			GTCGGCGGCTCACGGAGCTCC	0.771													5	6	---	---	---	---	PASS	G	62329796	G	G	62329796	2	3	153	1	0	0	0	0	0	0	0	1	16295	813	29	2		2	TNFRSF6B	20	62329796	Silent	SNP	C	TCGA-66-2768-01A-01D-1522-08	1494640	62329796	695724	277	54670										
NRIP1	8204	broad.mit.edu	37	chr21	16339226	16339226	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggaataagaactttcatcacCactgctgtcatctgtaaaac	6	10	4	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr21:16339226C>A	uc002yjx.2	-	4	1886	c.1288G>T	c.(1288-1290)GGT>TGT	p.G430C		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	430	Repression domain 2.				androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		CTTTCATCACCACTGCTGTCA	0.388													89	276	---	---	---	---	PASS	A	16339226	A	A	16339226	3	1	153	1	0	0	0	0	1	0	0	0	10652	594	21	3	2192	3	NRIP1	21	16339226	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08		16339226	31790669	278	54671										
USP16	10600	broad.mit.edu	37	chr21	30402967	30402967	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggaacaaggtaatttgaaaaAggctttagtgaatgtggaat	12	2	0	2			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr21:30402967A>G	uc002ymy.2	+	3	315	c.113A>G	c.(112-114)AAG>AGG	p.K38R	USP16_uc002ymx.2_Missense_Mutation_p.K38R|USP16_uc002ymw.2_Missense_Mutation_p.K38R|USP16_uc011acm.1_Missense_Mutation_p.K24R|USP16_uc011acn.1_Intron	NM_006447	NP_006438	Q9Y5T5	UBP16_HUMAN	ubiquitin specific protease 16 isoform a	38					cell division|histone deubiquitination|mitosis|positive regulation of transcription, DNA-dependent|protein homotetramerization|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|histone binding|transcription coactivator activity|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(2)|breast(1)|pancreas(1)	4						AATTTGAAAAAGGCTTTAGTG	0.328													36	106	---	---	---	---	PASS	G	30402967	G	G	30402967	3	3	153	1	0	0	0	0	1	0	0	0	17044	72	3	5	119	5	USP16	21	30402967	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	14063741	30402967	17726928	279	54672										
GRIK1	2897	broad.mit.edu	37	chr21	30925892	30925892	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctgattacacagtatgaactGaggactgttttcgaatccct	8	9	0	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr21:30925892G>A	uc002yno.1	-	17	3205	c.2741C>T	c.(2740-2742)TCA>TTA	p.S914L	GRIK1_uc002ynn.2_Intron|GRIK1_uc011acs.1_Intron|GRIK1_uc011act.1_Intron	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	914	Cytoplasmic (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	AGTATGAACTGAGGACTGTTT	0.348													51	124	---	---	---	---	PASS	A	30925892	A	A	30925892	3	1	153	1	0	0	0	0	1	0	0	0	6773	1294	45	2	179	2	GRIK1	21	30925892	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	522925	30925892	17204003	280	54673										
AIFM3	150209	broad.mit.edu	37	chr22	21331176	21331176	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atgtttgagaacaaccgggtGaagttctacatgcagacgga	12	7	1	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr22:21331176G>A	uc002ztj.2	+	13	1385	c.1167G>A	c.(1165-1167)GTG>GTA	p.V389V	AIFM3_uc002ztk.2_Silent_p.V389V|AIFM3_uc002ztl.2_Silent_p.V395V|AIFM3_uc011ahx.1_Silent_p.V377V|AIFM3_uc002ztm.1_Silent_p.V201V|LZTR1_uc002ztn.2_5'Flank	NM_144704	NP_653305	Q96NN9	AIFM3_HUMAN	apoptosis-inducing factor,	389					activation of caspase activity by cytochrome c|cell redox homeostasis|electron transport chain|induction of apoptosis|mitochondrial depolarization|transport	endoplasmic reticulum|mitochondrial inner membrane	2 iron, 2 sulfur cluster binding|caspase activator activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity|protein binding			ovary(2)|lung(2)	4	all_cancers(11;3.71e-26)|all_epithelial(7;1.59e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0367)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			ACAACCGGGTGAAGTTCTACA	0.637													45	117	---	---	---	---	PASS	A	21331176	A	A	21331176	2	1	153	1	0	0	0	0	0	0	0	1	428	1277	45	2		2	AIFM3	22	21331176	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08		21331176	29973390	281	54674										
MYO18B	84700	broad.mit.edu	37	chr22	26270356	26270356	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ggcttgcaagggctttctgtCtcgccaggaattcaagaagc	12	10	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr22:26270356C>G	uc003abz.1	+	23	4305	c.4055C>G	c.(4054-4056)TCT>TGT	p.S1352C	MYO18B_uc003aca.1_Missense_Mutation_p.S1233C|MYO18B_uc010guy.1_Missense_Mutation_p.S1234C|MYO18B_uc010guz.1_Missense_Mutation_p.S1233C|MYO18B_uc011aka.1_Missense_Mutation_p.S506C|MYO18B_uc011akb.1_Missense_Mutation_p.S865C	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1352	IQ.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GGCTTTCTGTCTCGCCAGGAA	0.547													17	66	---	---	---	---	PASS	G	26270356	G	G	26270356	3	3	153	1	0	0	0	0	1	0	0	0	10066	913	32	2	4141	2	MYO18B	22	26270356	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	4939180	26270356	25034210	282	54675										
MYO18B	84700	broad.mit.edu	37	chr22	26291236	26291236	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	agctgacagccaggaaagagCtggagcaaaaggtaagatgt	14	6	0	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr22:26291236C>G	uc003abz.1	+	28	4907	c.4657C>G	c.(4657-4659)CTG>GTG	p.L1553V	MYO18B_uc003aca.1_Missense_Mutation_p.L1434V|MYO18B_uc010guy.1_Missense_Mutation_p.L1435V|MYO18B_uc010guz.1_Missense_Mutation_p.L1433V|MYO18B_uc011aka.1_Missense_Mutation_p.L707V|MYO18B_uc011akb.1_Missense_Mutation_p.L1066V	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1553	Potential.|Tail.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CAGGAAAGAGCTGGAGCAAAA	0.552													4	14	---	---	---	---	PASS	G	26291236	G	G	26291236	3	3	153	1	0	0	0	0	1	0	0	0	10066	796	28	4	4763	4	MYO18B	22	26291236	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	20880	26291236	25013330	283	54676										
SFI1	9814	broad.mit.edu	37	chr22	31946267	31946267	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctgtacaacctgatgttccaGacgtggaagacctatgtgcg	11	10	0	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chr22:31946267G>A	uc003ale.2	+	6	870	c.477G>A	c.(475-477)CAG>CAA	p.Q159Q	SFI1_uc003ald.1_Silent_p.Q135Q|SFI1_uc003alf.2_Silent_p.Q159Q|SFI1_uc003alg.2_Silent_p.Q77Q|SFI1_uc011alp.1_Silent_p.Q77Q|SFI1_uc011alq.1_Silent_p.Q135Q|SFI1_uc003alh.2_Intron	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	159	HAT 1.				G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						TGATGTTCCAGACGTGGAAGA	0.363													16	40	---	---	---	---	PASS	A	31946267	A	A	31946267	2	1	153	1	0	0	0	0	0	0	0	1	14156	933	33	2		2	SFI1	22	31946267	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	5655031	31946267	19358299	284	54677										
ZNF645	158506	broad.mit.edu	37	chrX	22292129	22292129	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	atatgaattctcctccactaCgtgctccccagtctcaaaat	4	14	2	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chrX:22292129C>T	uc004dai.1	+	1	1070	c.1021C>T	c.(1021-1023)CGT>TGT	p.R341C		NM_152577	NP_689790	Q8N7E2	ZN645_HUMAN	zinc finger protein 645	341	Pro-rich.					intracellular	zinc ion binding			lung(1)|pancreas(1)	2						TCCTCCACTACGTGCTCCCCA	0.428													41	44	---	---	---	---	PASS	T	22292129	T	T	22292129	3	4	153	1	0	0	0	0	1	0	0	0	18058	536	19	1	1023	1	ZNF645	23	22292129	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08		22292129	132978431	285	54678										
USP9X	8239	broad.mit.edu	37	chrX	41075634	41075635	+	Frame_Shift_Ins	INS	-	T	T													0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	acatgatgaagcgtatgtcaINStacaggcgccagaaaaggtg							TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chrX:41075634_41075635insT	uc004dfb.2	+	35	6447_6448	c.5814_5815insT	c.(5812-5817)TCATACfs	p.S1938fs	USP9X_uc004dfc.2_Frame_Shift_Ins_p.S1938fs	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1938_1939					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						AGCGTATGTCATACAGGCGCCA	0.371													78	94	---	---	---	---		T	41075635	T	T	41075634	7	5	153	1	0	1	1	0	0	0	0	0	17087	204	8	0	5948	0	USP9X	23	41075634	Frame_Shift_Ins	INS	-	TCGA-66-2768-01A-01D-1522-08	18783505	41075634	114194926	286	54679										
EFHC2	80258	broad.mit.edu	37	chrX	44101369	44101369	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	catggttccctcaagcacctGtctttttccataaacttctt	4	13	3	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chrX:44101369G>A	uc004dgb.3	-	9	1368	c.1278C>T	c.(1276-1278)GAC>GAT	p.D426D		NM_025184	NP_079460	Q5JST6	EFHC2_HUMAN	EF-hand domain (C-terminal) containing 2	426							calcium ion binding			breast(3)|ovary(2)|central_nervous_system(1)	6						TCAAGCACCTGTCTTTTTCCA	0.433													9	14	---	---	---	---	PASS	A	44101369	A	A	44101369	2	1	153	1	0	0	0	0	0	0	0	1	4947	1368	48	3		3	EFHC2	23	44101369	Silent	SNP	G	TCGA-66-2768-01A-01D-1522-08	3025735	44101369	111169191	287	54680										
RBM10	8241	broad.mit.edu	37	chrX	47039681	47039683	+	In_Frame_Del	DEL	ATG	-	-													0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tatcgacggcaagaccatcaAtgttgagtttgccaagggtt							TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chrX:47039681_47039683delATG	uc004dhf.2	+	11	1512_1514	c.1133_1135delATG	c.(1132-1137)AATGTT>ATT	p.378_379NV>I	RBM10_uc004dhg.2_In_Frame_Del_p.300_301NV>I|RBM10_uc004dhh.2_In_Frame_Del_p.377_378NV>I|RBM10_uc010nhq.2_In_Frame_Del_p.301_302NV>I|RBM10_uc004dhi.2_In_Frame_Del_p.443_444NV>I	NM_005676	NP_005667	P98175	RBM10_HUMAN	RNA binding motif protein 10 isoform 1	378_379	RRM 2.				mRNA processing|RNA splicing	chromatin remodeling complex	nucleotide binding|RNA binding|zinc ion binding			ovary(1)|large_intestine(1)|prostate(1)|breast(1)|pancreas(1)	5						AAGACCATCAATGTTGAGTTTGC	0.498													9	9	---	---	---	---		-	47039683	-	-	47039681	7	5	153	1	0	1	0	1	0	0	0	0	13111	101	4	0	1171	0	RBM10	23	47039681	In_Frame_Del	DEL	ATG	TCGA-66-2768-01A-01D-1522-08	2938312	47039681	108230879	288	54681										
CACNA1F	778	broad.mit.edu	37	chrX	49076220	49076220	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctcttcttcctcttcttcctCttcttcctcctcctcctcct	0	21	6	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chrX:49076220C>G	uc004dnb.2	-	20	2511	c.2449G>C	c.(2449-2451)GAG>CAG	p.E817Q	CACNA1F_uc010nip.2_Missense_Mutation_p.E806Q	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	817	Poly-Glu.|Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	tcttcttcctcttcttcctcc	0.279													5	3	---	---	---	---	PASS	G	49076220	G	G	49076220	3	3	153	1	0	0	0	0	1	0	0	0	2543	922	32	2	3600	2	CACNA1F	23	49076220	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	2036539	49076220	106194340	289	54682										
HEPH	9843	broad.mit.edu	37	chrX	65412100	65412100	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	gggactatggcccgatggggCatgatgggagtactgggaag	19	6	0	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chrX:65412100C>A	uc011moz.1	+	7	1261	c.1201C>A	c.(1201-1203)CAT>AAT	p.H401N	HEPH_uc004dwn.2_Missense_Mutation_p.H401N|HEPH_uc004dwo.2_Missense_Mutation_p.H131N|HEPH_uc010nkr.2_Missense_Mutation_p.H401N|HEPH_uc011mpa.1_Missense_Mutation_p.H401N	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	398	Extracellular (Potential).|Plastocyanin-like 3.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						CCCGATGGGGCATGATGGGAG	0.502													33	31	---	---	---	---	PASS	A	65412100	A	A	65412100	3	1	153	1	0	0	0	0	1	0	0	0	7054	710	25	3	1380	3	HEPH	23	65412100	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	16335880	65412100	89858460	290	54683										
OPHN1	4983	broad.mit.edu	37	chrX	67652753	67652753	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tgccgtctttgattacgtctTtgatgaatttgttggtcctc	9	8	2	3			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chrX:67652753T>C	uc004dww.3	-	2	404	c.110A>G	c.(109-111)AAA>AGA	p.K37R	OPHN1_uc011mpg.1_Missense_Mutation_p.K37R|OPHN1_uc004dwx.2_Missense_Mutation_p.K37R|OPHN1_uc010nku.1_RNA	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	37					axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						GATTACGTCTTTGATGAATTT	0.522													20	15	---	---	---	---	PASS	C	67652753	C	C	67652753	3	2	153	1	0	0	0	0	1	0	0	0	10875	1841	64	5	2390	5	OPHN1	23	67652753	Missense_Mutation	SNP	T	TCGA-66-2768-01A-01D-1522-08	2240653	67652753	87617807	291	54684										
CYLC1	1538	broad.mit.edu	37	chrX	83129187	83129187	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	ctgaaatggaatctgatttgGagttaaagaaggacaagaaa	11	3	1	4			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chrX:83129187G>C	uc004eei.1	+	4	1492	c.1471G>C	c.(1471-1473)GAG>CAG	p.E491Q	CYLC1_uc004eeh.1_Missense_Mutation_p.E490Q	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	491	6.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						ATCTGATTTGGAGTTAAAGAA	0.343													12	11	---	---	---	---	PASS	C	83129187	C	C	83129187	3	2	153	1	0	0	0	0	1	0	0	0	4141	1175	41	2	1485	2	CYLC1	23	83129187	Missense_Mutation	SNP	G	TCGA-66-2768-01A-01D-1522-08	15476434	83129187	72141373	292	54685										
PCDH11X	27328	broad.mit.edu	37	chrX	91134171	91134171	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cctttgtggcctgtgactctAtctccaagtgttcctcaagc	8	13	3	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chrX:91134171A>G	uc004efk.1	+	2	3777	c.2932A>G	c.(2932-2934)ATC>GTC	p.I978V	PCDH11X_uc004efl.1_Missense_Mutation_p.I978V|PCDH11X_uc004efo.1_Missense_Mutation_p.I978V|PCDH11X_uc010nmv.1_Missense_Mutation_p.I978V|PCDH11X_uc004efm.1_Missense_Mutation_p.I978V|PCDH11X_uc004efn.1_Missense_Mutation_p.I978V|PCDH11X_uc004efh.1_Missense_Mutation_p.I978V|PCDH11X_uc004efj.1_Missense_Mutation_p.I978V	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	978	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CTGTGACTCTATCTCCAAGTG	0.512													96	107	---	---	---	---	PASS	G	91134171	G	G	91134171	3	3	153	1	0	0	0	0	1	0	0	0	11508	449	16	5	2938	5	PCDH11X	23	91134171	Missense_Mutation	SNP	A	TCGA-66-2768-01A-01D-1522-08	8004984	91134171	64136389	293	54686										
PCDH11X	27328	broad.mit.edu	37	chrX	91873392	91873392	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	tcattccagctcttcgcaagCacaggcctctgctctatgcc	7	16	4	0			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chrX:91873392C>G	uc004efk.1	+	7	4342	c.3497C>G	c.(3496-3498)GCA>GGA	p.A1166G	PCDH11X_uc004efl.1_Missense_Mutation_p.A1156G|PCDH11X_uc004efo.1_Missense_Mutation_p.A1129G|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Missense_Mutation_p.A1158G|PCDH11X_uc004efn.1_Missense_Mutation_p.A1148G	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1166	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TCTTCGCAAGCACAGGCCTCT	0.562													28	24	---	---	---	---	PASS	G	91873392	G	G	91873392	3	3	153	1	0	0	0	0	1	0	0	0	11508	710	25	4	3645	4	PCDH11X	23	91873392	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08	739221	91873392	63397168	294	54687										
NLGN4Y	22829	broad.mit.edu	37	chrY	16952514	16952514	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.235494880546075	69	3.9402031734998e-15	2.78517673888255	4.03648802736602	1.95096921322691	0.104831096973288	0.394789450303659	44	cgagatattccagtatgtttCaacaaccacaaaggttcctc	6	11	1	1			TCGA-66-2768-01A-01D-1522-08	TCGA-66-2768-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d458cef-965d-4d27-b754-31df67ed6eaa	a9b7e2b3-bd16-48a4-864a-9ff7e6706f60	g.chrY:16952514C>T	uc004ftg.2	+	6	2075	c.1823C>T	c.(1822-1824)TCA>TTA	p.S608L	NLGN4Y_uc004fte.2_Missense_Mutation_p.S440L|NLGN4Y_uc011nas.1_Missense_Mutation_p.S628L|NLGN4Y_uc004ftf.2_Missense_Mutation_p.S301L|NLGN4Y_uc004fth.2_Missense_Mutation_p.S608L	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	608	Extracellular (Potential).				brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0						CAGTATGTTTCAACAACCACA	0.493													60	210	---	---	---	---	PASS	T	16952514	T	T	16952514	3	4	153	1	0	0	0	0	1	0	0	0	10465	838	29	2	1995	2	NLGN4Y	24	16952514	Missense_Mutation	SNP	C	TCGA-66-2768-01A-01D-1522-08		16952514	42421052	295	54688										
KIAA1751	85452	broad.mit.edu	37	chr1	1888127	1888127	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tggcaggaacttgaaagtcgTgcccaagcccccaacgttgg	12	12	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:1888127T>A	uc001aim.1	-	17	2104	c.1948A>T	c.(1948-1950)ACG>TCG	p.T650S	KIAA1751_uc009vkz.1_Missense_Mutation_p.T650S	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	650										pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		TTGAAAGTCGTGCCCAAGCCC	0.582													18	24	---	---	---	---	PASS	A	1888127	A	A	1888127	3	1	154	1	0	0	0	0	1	0	0	0	8256	1696	59	5	348	5	KIAA1751	1	1888127	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08		1888127	247362494	1	54689										
KAZ	23254	broad.mit.edu	37	chr1	14925564	14925564	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gtcggccagccaggaggtgaCcaacctgcgagccgaactca	13	14	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:14925564C>T	uc001avm.3	+	1	352	c.71C>T	c.(70-72)ACC>ATC	p.T24I	KAZ_uc009vog.1_Missense_Mutation_p.T24I|KAZ_uc010obj.1_Missense_Mutation_p.T24I	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	24					keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						CAGGAGGTGACCAACCTGCGA	0.473													7	12	---	---	---	---	PASS	T	14925564	T	T	14925564	3	4	154	1	0	0	0	0	1	0	0	0	7988	507	18	3	73	3	KAZ	1	14925564	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	13037437	14925564	234325057	2	54690										
NR0B2	8431	broad.mit.edu	37	chr1	27240233	27240233	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	caggttcctgaggaaggccaCtgtcttggccagaacatcca	11	12	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:27240233C>T	uc001bnf.2	-	1	335	c.199G>A	c.(199-201)GTG>ATG	p.V67M		NM_021969	NP_068804	Q15466	NR0B2_HUMAN	short heterodimer partner	67	Ligand-binding (By similarity).				cholesterol metabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	DNA binding|protein domain specific binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription corepressor activity				0		all_cancers(24;1.23e-26)|all_epithelial(13;1.19e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;0.00017)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.01e-51)|OV - Ovarian serous cystadenocarcinoma(117;8.22e-30)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000272)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)		AGGAAGGCCACTGTCTTGGCC	0.662													15	8	---	---	---	---	PASS	T	27240233	T	T	27240233	3	4	154	1	0	0	0	0	1	0	0	0	10614	565	20	3	582	3	NR0B2	1	27240233	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	12314669	27240233	222010388	3	54691										
SGIP1	84251	broad.mit.edu	37	chr1	67185073	67185073	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agtcaatgcctatttcaaagGagcagacccaagcaagtaag	9	9	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:67185073G>A	uc001dcr.2	+	19	1944	c.1727G>A	c.(1726-1728)GGA>GAA	p.G576E	SGIP1_uc010opd.1_Missense_Mutation_p.G176E|SGIP1_uc001dcs.2_Missense_Mutation_p.G176E|SGIP1_uc001dct.2_Missense_Mutation_p.G178E|SGIP1_uc009wat.2_Missense_Mutation_p.G370E|SGIP1_uc001dcu.2_Missense_Mutation_p.G81E	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	576					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						TATTTCAAAGGAGCAGACCCA	0.468													21	38	---	---	---	---	PASS	A	67185073	A	A	67185073	3	1	154	1	0	0	0	0	1	0	0	0	14206	1174	41	2	1801	2	SGIP1	1	67185073	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	39944840	67185073	182065548	4	54692										
CLCA1	1179	broad.mit.edu	37	chr1	86959914	86959914	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	caagcaagctcacaaaccttGaccctgactgtcacgtcccg	7	16	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:86959914G>T	uc001dlt.2	+	11	1854	c.1725G>T	c.(1723-1725)TTG>TTT	p.L575F	CLCA1_uc001dls.1_Missense_Mutation_p.L514F	NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	575					calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		CACAAACCTTGACCCTGACTG	0.488													25	32	---	---	---	---	PASS	T	86959914	T	T	86959914	3	4	154	1	0	0	0	0	1	0	0	0	3457	1281	45	2	1767	2	CLCA1	1	86959914	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	19774841	86959914	162290707	5	54693										
BRDT	676	broad.mit.edu	37	chr1	92441932	92441932	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tctgtatttcctaagacatcTatttctcccttgaacgtggt	6	10	3	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:92441932T>C	uc001dok.3	+	5	904	c.555T>C	c.(553-555)TCT>TCC	p.S185S	BRDT_uc001dol.3_Silent_p.S185S|BRDT_uc010osz.1_Silent_p.S189S|BRDT_uc009wdf.2_Silent_p.S112S|BRDT_uc010ota.1_Silent_p.S139S|BRDT_uc010otb.1_Silent_p.S139S|BRDT_uc001dom.3_Silent_p.S185S	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	185					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		CTAAGACATCTATTTCTCCCT	0.373													60	72	---	---	---	---	PASS	C	92441932	C	C	92441932	2	2	154	1	0	0	0	0	0	0	0	1	1508	1509	53	5		5	BRDT	1	92441932	Silent	SNP	T	TCGA-66-2770-01A-01D-1522-08	5482018	92441932	156808689	6	54694										
BTBD8	284697	broad.mit.edu	37	chr1	92546279	92546279	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tcagccaggatttgctcaggTaggaggaggcgggaactctg	16	8	3	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:92546279T>A	uc001doo.2	+	1	416	c.149_splice	c.e1+2	p.R50_splice	BTBD8_uc010otc.1_Splice_Site	NM_183242	NP_899065	Q5XKL5	BTBD8_HUMAN	BTB (POZ) domain containing 8							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)		TTTGCTCAGGTAGGAGGAGGC	0.632													6	4	---	---	---	---	PASS	A	92546279	A	A	92546279	5	1	154	1	0	0	0	0	0	0	1	0	1547	1652	57	5	153	5	BTBD8	1	92546279	Splice_Site	SNP	T	TCGA-66-2770-01A-01D-1522-08	104347	92546279	156704342	7	54695										
RWDD3	25950	broad.mit.edu	37	chr1	95709967	95709967	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agcaagcagagagccttttgTcggagcctatggttcatgag	13	8	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:95709967T>C	uc009wdu.2	+	2	362	c.286T>C	c.(286-288)TCG>CCG	p.S96P	RWDD3_uc001drd.3_3'UTR|RWDD3_uc010oty.1_Missense_Mutation_p.S81P|RWDD3_uc009wdt.2_Missense_Mutation_p.S96P|RWDD3_uc001drf.3_Missense_Mutation_p.S96P|RWDD3_uc001drh.3_Missense_Mutation_p.S81P|RWDD3_uc009wdv.2_Intron|RWDD3_uc001drg.3_RNA|RWDD3_uc001dri.3_Missense_Mutation_p.S96P	NM_015485	NP_056300	Q9Y3V2	RWDD3_HUMAN	RWD domain containing 3 isoform a	96	RWD.					cytoplasm|nucleus	protein binding			ovary(1)	1		all_epithelial(167;5.99e-05)|all_lung(203;0.00168)|Lung NSC(277;0.00769)		all cancers(265;0.112)|Epithelial(280;0.229)		GAGCCTTTTGTCGGAGCCTAT	0.468													73	81	---	---	---	---	PASS	C	95709967	C	C	95709967	3	2	154	1	0	0	0	0	1	0	0	0	13757	1667	58	5	292	5	RWDD3	1	95709967	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	3163688	95709967	153540654	8	54696										
PTBP2	58155	broad.mit.edu	37	chr1	97250688	97250688	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttccaaacttgtgaatttgaAtgtaaaatacaacaatgata	5	5	0	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:97250688A>G	uc001drq.2	+	8	1028	c.782A>G	c.(781-783)AAT>AGT	p.N261S	PTBP2_uc001drn.2_Missense_Mutation_p.N261S|PTBP2_uc001dro.2_Missense_Mutation_p.N261S|PTBP2_uc010otz.1_Missense_Mutation_p.N272S|PTBP2_uc001drp.2_RNA|PTBP2_uc009wdw.2_Missense_Mutation_p.N209S|PTBP2_uc001drr.2_Missense_Mutation_p.N261S|PTBP2_uc010oua.1_Missense_Mutation_p.N269S|PTBP2_uc001dru.2_RNA|PTBP2_uc001drs.1_5'UTR|PTBP2_uc001drt.2_5'UTR	NM_021190	NP_067013	Q9UKA9	PTBP2_HUMAN	polypyrimidine tract binding protein 2	261							nucleotide binding				0		all_epithelial(167;2.95e-05)|all_lung(203;0.000396)|Lung NSC(277;0.00171)		all cancers(265;0.0582)|Epithelial(280;0.0716)|Colorectal(170;0.0879)|KIRC - Kidney renal clear cell carcinoma(1967;0.202)		GTGAATTTGAATGTAAAATAC	0.388													93	132	---	---	---	---	PASS	G	97250688	G	G	97250688	3	3	154	1	0	0	0	0	1	0	0	0	12726	101	4	5	812	5	PTBP2	1	97250688	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	1540721	97250688	151999933	9	54697										
OLFM3	118427	broad.mit.edu	37	chr1	102302451	102302451	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctaccttttccagtagttggCgaagttgcctgcttttggca	10	10	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:102302451C>A	uc001duf.2	-	2	331	c.260G>T	c.(259-261)CGC>CTC	p.R87L	OLFM3_uc001dug.2_Missense_Mutation_p.R67L|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_5'UTR|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	87	Potential.					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)		CAGTAGTTGGCGAAGTTGCCT	0.458													51	58	---	---	---	---	PASS	A	102302451	A	A	102302451	3	1	154	1	0	0	0	0	1	0	0	0	10854	768	27	1	1196	1	OLFM3	1	102302451	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	5051763	102302451	146948170	10	54698										
SORT1	6272	broad.mit.edu	37	chr1	109884723	109884723	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctgtcccacggaggggagctGggccatgctccatgtgtccc	14	14	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:109884723G>A	uc001dxm.1	-	9	1070	c.1021C>T	c.(1021-1023)CAG>TAG	p.Q341*	SORT1_uc010ovi.1_Nonsense_Mutation_p.Q204*	NM_002959	NP_002950	Q99523	SORT_HUMAN	sortilin 1 preproprotein	341	Extracellular (Potential).				endocytosis|endosome to lysosome transport|endosome transport via multivesicular body sorting pathway|glucose import|Golgi to endosome transport|induction of apoptosis by extracellular signals|myotube differentiation|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|neuropeptide signaling pathway|ossification|plasma membrane to endosome transport|regulation of gene expression|response to insulin stimulus|vesicle organization	cell surface|coated pit|early endosome|endoplasmic reticulum membrane|endosome membrane|Golgi cisterna membrane|integral to membrane|lysosomal membrane|microsome|nuclear membrane|perinuclear region of cytoplasm|plasma membrane	enzyme binding|nerve growth factor binding|nerve growth factor receptor activity|neurotensin receptor activity, non-G-protein coupled			ovary(1)	1		all_epithelial(167;4.69e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0529)|Colorectal(144;0.142)|Epithelial(280;0.145)|Kidney(133;0.169)|all cancers(265;0.184)		GAGGGGAGCTGGGCCATGCTC	0.433													62	62	---	---	---	---	PASS	A	109884723	A	A	109884723	4	1	154	1	0	0	0	0	0	1	0	0	14935	1357	47	3	1522	3	SORT1	1	109884723	Nonsense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	7582272	109884723	139365898	11	54699										
NOTCH2NL	388677	broad.mit.edu	37	chr1	145290427	145290427	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aagtttacctctttttgcacAgcaacatggccaatctttcc	5	12	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:145290427A>T	uc001emo.2	+	5	1005	c.635_splice	c.e5-2	p.A212_splice	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_Intron|NOTCH2NL_uc010oyh.1_Splice_Site|NBPF10_uc001end.3_5'Flank|NBPF10_uc001emq.1_5'Flank	NM_203458	NP_982283	Q7Z3S9	NT2NL_HUMAN	Notch homolog 2 N-terminal like protein						cell differentiation|multicellular organismal development|Notch signaling pathway	cytoplasm|extracellular region	calcium ion binding			ovary(1)	1						CTTTTTGCACAGCAACATGGC	0.393													28	449	---	---	---	---	PASS	T	145290427	T	T	145290427	5	4	154	1	0	0	0	0	0	0	1	0	10549	203	7	5		5	NOTCH2NL	1	145290427	Splice_Site	SNP	A	TCGA-66-2770-01A-01D-1522-08	35405704	145290427	103960194	12	54700										
SMG5	23381	broad.mit.edu	37	chr1	156244452	156244452	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gcccaatccatctccttcccTgaggcagacactggcttctt	7	16	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:156244452T>A	uc001foc.3	-	5	629	c.480A>T	c.(478-480)TCA>TCT	p.S160S		NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	160					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)					TCTCCTTCCCTGAGGCAGACA	0.478													145	61	---	---	---	---	PASS	A	156244452	A	A	156244452	2	1	154	1	0	0	0	0	0	0	0	1	14796	1567	55	5		5	SMG5	1	156244452	Silent	SNP	T	TCGA-66-2770-01A-01D-1522-08	10954025	156244452	93006169	13	54701										
OR10J5	127385	broad.mit.edu	37	chr1	159504938	159504938	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgtttctcagactgtaaacaAcagggttcagcaagggagtg	12	7	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:159504938A>G	uc010piw.1	-	1	860	c.860T>C	c.(859-861)GTT>GCT	p.V287A		NM_001004469	NP_001004469	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J,	287	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_hematologic(112;0.0429)					ACTGTAAACAACAGGGTTCAG	0.423													38	150	---	---	---	---	PASS	G	159504938	G	G	159504938	3	3	154	1	0	0	0	0	1	0	0	0	10912	43	2	5	71	5	OR10J5	1	159504938	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	3260486	159504938	89745683	14	54702										
OR10J5	127385	broad.mit.edu	37	chr1	159505093	159505093	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gagacacaggtggcaaaggtCttcttccggccctcagctga	12	12	3	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:159505093C>T	uc010piw.1	-	1	705	c.705G>A	c.(703-705)AAG>AAA	p.K235K		NM_001004469	NP_001004469	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_hematologic(112;0.0429)					TGGCAAAGGTCTTCTTCCGGC	0.473													19	100	---	---	---	---	PASS	T	159505093	T	T	159505093	2	4	154	1	0	0	0	0	0	0	0	1	10912	912	32	2		2	OR10J5	1	159505093	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	155	159505093	89745528	15	54703										
ATP1A2	477	broad.mit.edu	37	chr1	160098476	160098476	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gacagccaagcgcatggcacGgaagaactgcctggtgaaga	14	10	0	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:160098476G>A	uc001fvc.2	+	9	1184	c.1052G>A	c.(1051-1053)CGG>CAG	p.R351Q	ATP1A2_uc001fvb.2_Missense_Mutation_p.R351Q|ATP1A2_uc010piz.1_Missense_Mutation_p.R196Q|ATP1A2_uc001fvd.2_Missense_Mutation_p.R87Q|ATP1A2_uc009wtg.1_Missense_Mutation_p.R39Q	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	351	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CGCATGGCACGGAAGAACTGC	0.577													15	193	---	---	---	---	PASS	A	160098476	A	A	160098476	3	1	154	1	0	0	0	0	1	0	0	0	1129	1116	39	1	1086	1	ATP1A2	1	160098476	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	593383	160098476	89152145	16	54704										
LRRC52	440699	broad.mit.edu	37	chr1	165532887	165532887	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctcatcggcttctgcatcttCgccgcgggaactgtggctgc	12	14	3	0	rs140303863		TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:165532887C>T	uc001gde.2	+	2	824	c.768C>T	c.(766-768)TTC>TTT	p.F256F	LOC400794_uc001gdc.2_Intron|LOC400794_uc001gdd.2_Intron|LOC400794_uc009wvd.2_Intron	NM_001005214	NP_001005214	Q8N7C0	LRC52_HUMAN	leucine rich repeat containing 52 precursor	256	Helical; (Potential).					integral to membrane				ovary(1)	1	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)					TCTGCATCTTCGCCGCGGGAA	0.597													42	13	---	---	---	---	PASS	T	165532887	T	T	165532887	2	4	154	1	0	0	0	0	0	0	0	1	9010	883	31	2		2	LRRC52	1	165532887	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	5434411	165532887	83717734	17	54705										
METTL13	51603	broad.mit.edu	37	chr1	171765716	171765716	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttccccctcctatatgtccgGcgaattgagggtgaagtgaa	11	10	0	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:171765716G>T	uc001ghz.2	+	8	2267	c.1920G>T	c.(1918-1920)CGG>CGT	p.R640R	METTL13_uc001gia.2_Silent_p.R554R|METTL13_uc001gib.2_Silent_p.R484R|METTL13_uc010pml.1_Silent_p.R639R|METTL13_uc001gic.1_RNA	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	640							methyltransferase activity|protein binding			kidney(1)	1						TATATGTCCGGCGAATTGAGG	0.517													86	269	---	---	---	---	PASS	T	171765716	T	T	171765716	2	4	154	1	0	0	0	0	0	0	0	1	9497	1190	42	3		3	METTL13	1	171765716	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	6232829	171765716	77484905	18	54706										
KLHL20	27252	broad.mit.edu	37	chr1	173721005	173721005	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gtgaagaacaagtgttcaatGcagtgatggcctgggtcaaa	13	6	2	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:173721005G>T	uc001gjc.2	+	4	879	c.700G>T	c.(700-702)GCA>TCA	p.A234S	KLHL20_uc010pmr.1_Missense_Mutation_p.A45S|KLHL20_uc009wwf.2_Missense_Mutation_p.A216S	NM_014458	NP_055273	Q9Y2M5	KLH20_HUMAN	kelch-like 20	234	BACK.				cytoskeleton organization|negative regulation of apoptosis|proteasomal ubiquitin-dependent protein catabolic process|response to interferon-alpha	actin cytoskeleton|cell surface|Cul3-RING ubiquitin ligase complex|Golgi apparatus|perinuclear region of cytoplasm|PML body	actin binding|interferon-gamma binding|ubiquitin-protein ligase activity			ovary(1)	1						AGTGTTCAATGCAGTGATGGC	0.383													27	99	---	---	---	---	PASS	T	173721005	T	T	173721005	3	4	154	1	0	0	0	0	1	0	0	0	8375	1319	46	3	710	3	KLHL20	1	173721005	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	1955289	173721005	75529616	19	54707										
C1orf125	126859	broad.mit.edu	37	chr1	179478447	179478447	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tcagaaagaatgttatgaatGgatcaacacatgctcttgcc	8	8	3	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:179478447G>A	uc001gmo.2	+	21	2532	c.2405G>A	c.(2404-2406)TGG>TAG	p.W802*	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmp.2_Intron|C1orf125_uc009wxh.2_RNA	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	802											0						TGTTATGAATGGATCAACACA	0.353													22	132	---	---	---	---	PASS	A	179478447	A	A	179478447	4	1	154	1	0	0	0	0	0	1	0	0	1993	1357	47	3	2483	3	C1orf125	1	179478447	Nonsense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	5757442	179478447	69772174	20	54708										
CFHR1	3078	broad.mit.edu	37	chr1	196795988	196795988	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tctttccttttgtggaaaatGgtcattctgaatcttcagga	8	7	5	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:196795988G>T	uc001gtn.2	+	3	397	c.283G>T	c.(283-285)GGT>TGT	p.G95C	CFHR1_uc001gtm.2_Intron	NM_002113	NP_002104	Q03591	FHR1_HUMAN	complement factor H-related 1 precursor	95	Sushi 2.				complement activation	extracellular space					0						TGTGGAAAATGGTCATTCTGA	0.348													61	501	---	---	---	---	PASS	T	196795988	T	T	196795988	3	4	154	1	0	0	0	0	1	0	0	0	3284	1348	47	3	293	3	CFHR1	1	196795988	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	17317541	196795988	52454633	21	54709										
LHX9	56956	broad.mit.edu	37	chr1	197896750	197896750	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agaatgaggcagaccacttgGaccgggaccagcagccttat	12	11	0	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:197896750G>A	uc001guk.1	+	4	1200	c.763G>A	c.(763-765)GAC>AAC	p.D255N	LHX9_uc001gui.1_Missense_Mutation_p.D246N|LHX9_uc001guj.1_Missense_Mutation_p.D261N	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	255					motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						AGACCACTTGGACCGGGACCA	0.502													125	463	---	---	---	---	PASS	A	197896750	A	A	197896750	3	1	154	1	0	0	0	0	1	0	0	0	8777	1174	41	2	809	2	LHX9	1	197896750	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	1100762	197896750	51353871	22	54710										
PROX1	5629	broad.mit.edu	37	chr1	214171167	214171167	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctttggcaatgtgcagatggCcagttccactgaccagacag	11	11	0	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:214171167C>T	uc001hkh.2	+	2	1561	c.1289C>T	c.(1288-1290)GCC>GTC	p.A430V	PROX1_uc001hkg.1_Missense_Mutation_p.A430V	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	430					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		GTGCAGATGGCCAGTTCCACT	0.612													70	196	---	---	---	---	PASS	T	214171167	T	T	214171167	3	4	154	1	0	0	0	0	1	0	0	0	12560	739	26	3	1291	3	PROX1	1	214171167	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	16274417	214171167	35079454	23	54711										
HLX	3142	broad.mit.edu	37	chr1	221055663	221055663	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccggaccgaaagcagctggcGgcgatgctgggcctcacgga	16	13	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:221055663G>A	uc001hmv.3	+	3	1387	c.930G>A	c.(928-930)GCG>GCA	p.A310A		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	310	Homeobox.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)		AGCAGCTGGCGGCGATGCTGG	0.632													9	43	---	---	---	---	PASS	A	221055663	A	A	221055663	2	1	154	1	0	0	0	0	0	0	0	1	7216	1103	39	1		1	HLX	1	221055663	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	6884496	221055663	28194958	24	54712										
RYR2	6262	broad.mit.edu	37	chr1	237886496	237886496	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccaaacaggactgatgatacCtcagatccagagaagacggt	10	10	1	5			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:237886496C>T	uc001hyl.1	+	74	10743	c.10623C>T	c.(10621-10623)ACC>ACT	p.T3541T	RYR2_uc010pxz.1_Silent_p.T496T	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3541					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)			CTGATGATACCTCAGATCCAG	0.393													214	112	---	---	---	---	PASS	T	237886496	T	T	237886496	2	4	154	1	0	0	0	0	0	0	0	1	13769	668	24	3		3	RYR2	1	237886496	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	16830833	237886496	11364125	25	54713										
GREM2	64388	broad.mit.edu	37	chr1	240656438	240656438	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aggactggaaggactcctccTccttcttcacgtgccgcggg	12	14	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:240656438T>A	uc001hys.2	-	2	618	c.338A>T	c.(337-339)GAG>GTG	p.E113V		NM_022469	NP_071914	Q9H772	GREM2_HUMAN	gremlin 2 precursor	113	CTCK.				BMP signaling pathway	extracellular space	cytokine activity				0		all_cancers(173;0.0196)	OV - Ovarian serous cystadenocarcinoma(106;0.0123)			GGACTCCTCCTCCTTCTTCAC	0.662													24	102	---	---	---	---	PASS	A	240656438	A	A	240656438	3	1	154	1	0	0	0	0	1	0	0	0	6762	1551	54	5	172	5	GREM2	1	240656438	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	2769942	240656438	8594183	26	54714										
ZNF238	10472	broad.mit.edu	37	chr1	244218431	244218431	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gccctacacatgcacccagtGcggcaagagcttccagtact	9	15	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:244218431G>A	uc001iae.2	+	1	1850	c.1328G>A	c.(1327-1329)TGC>TAC	p.C443Y	ZNF238_uc001iad.3_Missense_Mutation_p.C452Y|ZNF238_uc001iaf.1_3'UTR	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	443	C2H2-type 3.				negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			TGCACCCAGTGCGGCAAGAGC	0.627													33	90	---	---	---	---	PASS	A	244218431	A	A	244218431	3	1	154	1	0	0	0	0	1	0	0	0	17787	1319	46	3	1361	3	ZNF238	1	244218431	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	3561993	244218431	5032190	27	54715										
OR11L1	391189	broad.mit.edu	37	chr1	248004824	248004824	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tagcggagtgggctgcagatGgccaggtaacggtcataggc	17	8	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:248004824G>T	uc001idn.1	-	1	375	c.375C>A	c.(373-375)GCC>GCA	p.A125A		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GGCTGCAGATGGCCAGGTAAC	0.597													34	16	---	---	---	---	PASS	T	248004824	T	T	248004824	2	4	154	1	0	0	0	0	0	0	0	1	10930	1335	47	3		3	OR11L1	1	248004824	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	3786393	248004824	1245797	28	54716										
OR2T2	401992	broad.mit.edu	37	chr1	248616129	248616129	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agggtcttctccagaactccActaacttcgtcctcacaggc	7	15	3	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr1:248616129A>G	uc001iek.1	+	1	31	c.31A>G	c.(31-33)ACT>GCT	p.T11A		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCAGAACTCCACTAACTTCGT	0.502													20	173	---	---	---	---	PASS	G	248616129	G	G	248616129	3	3	154	1	0	0	0	0	1	0	0	0	11020	159	6	5	33	5	OR2T2	1	248616129	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	611305	248616129	634492	29	54717										
COLEC11	78989	broad.mit.edu	37	chr2	3691564	3691564	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gaccactcccccatgcggacCttcaacaagtggcgcagcgg	11	16	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:3691564C>T	uc002qya.2	+	7	820	c.672C>T	c.(670-672)ACC>ACT	p.T224T	COLEC11_uc002qxz.2_Silent_p.T221T|COLEC11_uc002qyb.2_Silent_p.T200T|COLEC11_uc002qyc.2_Silent_p.T200T|COLEC11_uc010ewo.2_Silent_p.T176T|COLEC11_uc010ewp.2_Silent_p.T198T|COLEC11_uc010ewq.2_Silent_p.T174T|COLEC11_uc010ewr.2_Silent_p.T174T|COLEC11_uc010ews.2_Silent_p.T150T	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	224	C-type lectin.					collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		CCATGCGGACCTTCAACAAGT	0.642													37	87	---	---	---	---	PASS	T	3691564	T	T	3691564	2	4	154	1	0	0	0	0	0	0	0	1	3711	668	24	3		3	COLEC11	2	3691564	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08		3691564	239507809	30	54718										
RSAD2	91543	broad.mit.edu	37	chr2	7027272	7027272	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	acatgacggaacagatcaaaGcactaaaccctgtccgctgg	9	12	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:7027272G>T	uc002qyp.1	+	3	851	c.715G>T	c.(715-717)GCA>TCA	p.A239S		NM_080657	NP_542388	Q8WXG1	RSAD2_HUMAN	radical S-adenosyl methionine domain containing	239					defense response to virus	endoplasmic reticulum membrane|Golgi apparatus	catalytic activity|iron-sulfur cluster binding|metal ion binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			OV - Ovarian serous cystadenocarcinoma(76;0.191)		ACAGATCAAAGCACTAAACCC	0.398													14	59	---	---	---	---	PASS	T	7027272	T	T	7027272	3	4	154	1	0	0	0	0	1	0	0	0	13695	971	34	3	725	3	RSAD2	2	7027272	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	3335708	7027272	236172101	31	54719										
DNMT3A	1788	broad.mit.edu	37	chr2	25470586	25470587	+	Frame_Shift_Ins	INS	-	A	A													0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agccccgcagtttcccccacINSaccagctccccaatgccaaa							TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:25470586_25470587insA	uc002rgc.2	-	8	1144_1145	c.887_888insT	c.(886-888)GTGfs	p.V296fs	DNMT3A_uc002rgd.2_Frame_Shift_Ins_p.V296fs|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Frame_Shift_Ins_p.V107fs	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	296	Interaction with DNMT1 and DNMT3B.|PWWP.				regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTTTCCCCCACACCAGCTCCCC	0.649			Mis|F|N|S		AML								77	34	---	---	---	---		A	25470587	A	A	25470586	7	5	154	1	0	1	1	0	0	0	0	0	4676	465	17	0	1914	0	DNMT3A	2	25470586	Frame_Shift_Ins	INS	-	TCGA-66-2770-01A-01D-1522-08	18443314	25470586	217728787	32	54720										
BIRC6	57448	broad.mit.edu	37	chr2	32754743	32754743	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccattgccagctgaaatgacActtgcccagcttttaactct	6	13	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:32754743A>G	uc010ezu.2	+	60	12080	c.11946A>G	c.(11944-11946)ACA>ACG	p.T3982T	MIR558_hsa-mir-558|MI0003564_5'Flank	NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3982					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)					CTGAAATGACACTTGCCCAGC	0.373													46	146	---	---	---	---	PASS	G	32754743	G	G	32754743	2	3	154	1	0	0	0	0	0	0	0	1	1438	146	6	5		5	BIRC6	2	32754743	Silent	SNP	A	TCGA-66-2770-01A-01D-1522-08	7284157	32754743	210444630	33	54721										
C2orf56	55471	broad.mit.edu	37	chr2	37459294	37459294	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	atacttcagctccgggaatgAgcctgcagaaaacccggtga	11	11	1	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:37459294A>T	uc002rqa.3	+	2	176	c.101A>T	c.(100-102)GAG>GTG	p.E34V	CEBPZ_uc002rpz.2_5'Flank|C2orf56_uc010ynj.1_RNA|C2orf56_uc002rqc.3_Missense_Mutation_p.E34V|C2orf56_uc010ynk.1_Missense_Mutation_p.E34V|C2orf56_uc010ynl.1_Missense_Mutation_p.E34V	NM_144736	NP_653337	Q7L592	MIDA_HUMAN	hypothetical protein LOC55471 isoform 1	34					mitochondrial respiratory chain complex I assembly	mitochondrion	enzyme binding|methyltransferase activity			central_nervous_system(1)	1		all_hematologic(82;0.21)				TCCGGGAATGAGCCTGCAGAA	0.473													84	186	---	---	---	---	PASS	T	37459294	T	T	37459294	3	4	154	1	0	0	0	0	1	0	0	0	2177	304	11	5	107	5	C2orf56	2	37459294	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	4704551	37459294	205740079	34	54722										
CTNNA2	1496	broad.mit.edu	37	chr2	80620414	80620414	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aaacaagagatctaaggagaCaggtactattttttattttt	7	4	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:80620414C>A	uc010ysh.1	+	7	1140	c.1135C>A	c.(1135-1137)CAG>AAG	p.Q379K	CTNNA2_uc010yse.1_Missense_Mutation_p.Q379K|CTNNA2_uc010ysf.1_Missense_Mutation_p.Q379K|CTNNA2_uc010ysg.1_Missense_Mutation_p.Q379K|CTNNA2_uc010ysi.1_Missense_Mutation_p.Q11K	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	379					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TCTAAGGAGACAGGTACTATT	0.338													50	170	---	---	---	---	PASS	A	80620414	A	A	80620414	3	1	154	1	0	0	0	0	1	0	0	0	4013	479	17	3	953	3	CTNNA2	2	80620414	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	43161120	80620414	162578959	35	54723										
SLC9A2	6549	broad.mit.edu	37	chr2	103324608	103324608	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cagcgactcagacgcagatgCcgggaccaccgtgctcaatt	11	14	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:103324608C>A	uc002tca.2	+	12	2241	c.2099C>A	c.(2098-2100)GCC>GAC	p.A700D		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	700	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						GACGCAGATGCCGGGACCACC	0.498													59	145	---	---	---	---	PASS	A	103324608	A	A	103324608	3	1	154	1	0	0	0	0	1	0	0	0	14712	739	26	3	2145	3	SLC9A2	2	103324608	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	22704194	103324608	139874765	36	54724										
CNTNAP5	129684	broad.mit.edu	37	chr2	125262050	125262050	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agagctgtctgagggctcggGaaccctgctgctgagcctgg	16	11	1	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:125262050G>T	uc002tno.2	+	8	1605	c.1241G>T	c.(1240-1242)GGA>GTA	p.G414V	CNTNAP5_uc010flu.2_Missense_Mutation_p.G415V	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	414	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GAGGGCTCGGGAACCCTGCTG	0.542													25	89	---	---	---	---	PASS	T	125262050	T	T	125262050	3	4	154	1	0	0	0	0	1	0	0	0	3650	1174	41	2	1271	2	CNTNAP5	2	125262050	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	21937442	125262050	117937323	37	54725										
POTEF	728378	broad.mit.edu	37	chr2	130832650	130832650	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cagcaggacggggtgctcctCgggagccacacgcagctcgt	15	14	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:130832650C>T	uc010fmh.2	-	17	2795	c.2395G>A	c.(2395-2397)GAG>AAG	p.E799K		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	799	Actin-like.					cell cortex	ATP binding			skin(3)|ovary(2)	5						GGGTGCTCCTCGGGAGCCACA	0.577													59	174	---	---	---	---	PASS	T	130832650	T	T	130832650	3	4	154	1	0	0	0	0	1	0	0	0	12265	893	31	2	836	2	POTEF	2	130832650	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	5570600	130832650	112366723	38	54726										
THSD7B	80731	broad.mit.edu	37	chr2	137814051	137814051	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gtccagagtcgggcagtgtgGtgttttcatgttgacgggtg	17	6	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:137814051G>T	uc002tva.1	+	2	108	c.108G>T	c.(106-108)TGG>TGT	p.W36C	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_5'UTR	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GGGCAGTGTGGTGTTTTCATG	0.507													32	85	---	---	---	---	PASS	T	137814051	T	T	137814051	3	4	154	1	0	0	0	0	1	0	0	0	15877	1270	44	3	114	3	THSD7B	2	137814051	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	6981401	137814051	105385322	39	54727										
KCNJ3	3760	broad.mit.edu	37	chr2	155555400	155555400	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggaccctcagcagcagcttgTgcccaagaagaagcggcagc	13	13	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:155555400T>C	uc002tyv.1	+	1	308	c.113T>C	c.(112-114)GTG>GCG	p.V38A	KCNJ3_uc010zce.1_Missense_Mutation_p.V38A	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	38	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	CAGCAGCTTGTGCCCAAGAAG	0.622													18	50	---	---	---	---	PASS	C	155555400	C	C	155555400	3	2	154	1	0	0	0	0	1	0	0	0	8052	1696	59	5	115	5	KCNJ3	2	155555400	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	17741349	155555400	87643973	40	54728										
TANC1	85461	broad.mit.edu	37	chr2	160035208	160035208	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tcagcaacatctccctgaatGgcaaggccgatgccacactc	8	15	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:160035208G>A	uc002uag.2	+	14	2318	c.2044G>A	c.(2044-2046)GGC>AGC	p.G682S	TANC1_uc010fol.1_Missense_Mutation_p.G576S|TANC1_uc010zcm.1_Missense_Mutation_p.G674S|TANC1_uc010fom.1_Missense_Mutation_p.G488S|TANC1_uc002uai.1_RNA	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	682						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CTCCCTGAATGGCAAGGCCGA	0.572													36	84	---	---	---	---	PASS	A	160035208	A	A	160035208	3	1	154	1	0	0	0	0	1	0	0	0	15541	1348	47	3	2090	3	TANC1	2	160035208	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	4479808	160035208	83164165	41	54729										
TANK	10010	broad.mit.edu	37	chr2	162087631	162087631	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgtgcagagatgaggaagacAcctcttttgaatcactttct	9	8	3	4			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:162087631A>T	uc002ubr.1	+	7	828	c.670A>T	c.(670-672)ACC>TCC	p.T224S	TANK_uc002ubs.2_Missense_Mutation_p.T224S	NM_004180	NP_004171	Q92844	TANK_HUMAN	TRAF interacting protein TANK isoform a	224						cytosol	metal ion binding|protein binding			ovary(1)	1						TGAGGAAGACACCTCTTTTGA	0.433													64	182	---	---	---	---	PASS	T	162087631	T	T	162087631	3	4	154	1	0	0	0	0	1	0	0	0	15543	159	6	5	725	5	TANK	2	162087631	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	2052423	162087631	81111742	42	54730										
FAP	2191	broad.mit.edu	37	chr2	163059575	163059575	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gtgtctttgatatagtgaatAtgtttgtagccatccttgtc	9	6	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:163059575A>G	uc002ucd.2	-	13	1336	c.1128T>C	c.(1126-1128)CAT>CAC	p.H376H	FAP_uc010zct.1_Silent_p.H351H|FAP_uc010fpd.2_Intron	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	376	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						TATAGTGAATATGTTTGTAGC	0.363													29	84	---	---	---	---	PASS	G	163059575	G	G	163059575	2	3	154	1	0	0	0	0	0	0	0	1	5673	446	16	5		5	FAP	2	163059575	Silent	SNP	A	TCGA-66-2770-01A-01D-1522-08	971944	163059575	80139798	43	54731										
IFIH1	64135	broad.mit.edu	37	chr2	163174519	163174519	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	acgatggagagggcaagtccGtgagctcagggttcatgtag	16	7	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:163174519G>A	uc002uce.2	-	1	521	c.299C>T	c.(298-300)ACG>ATG	p.T100M	IFIH1_uc002ucf.2_Missense_Mutation_p.T100M	NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	100					detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1						GGGCAAGTCCGTGAGCTCAGG	0.572													94	204	---	---	---	---	PASS	A	163174519	A	A	163174519	3	1	154	1	0	0	0	0	1	0	0	0	7520	1145	40	1	2842	1	IFIH1	2	163174519	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	114944	163174519	80024854	44	54732										
NFE2L2	4780	broad.mit.edu	37	chr2	178098810	178098810	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgggagaaattcacctgtctCttcatctagttgtaactgag	9	8	4	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:178098810C>G	uc002ulh.3	-	2	790	c.235G>C	c.(235-237)GAG>CAG	p.E79Q	NFE2L2_uc002ulg.3_Missense_Mutation_p.E63Q|NFE2L2_uc010zfa.1_Missense_Mutation_p.E63Q|NFE2L2_uc002uli.3_Missense_Mutation_p.E63Q|NFE2L2_uc010fra.2_Missense_Mutation_p.E63Q|NFE2L2_uc010frb.2_Missense_Mutation_p.E63Q	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	79					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			TCACCTGTCTCTTCATCTAGT	0.443			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			49	113	---	---	---	---	PASS	G	178098810	G	G	178098810	3	3	154	1	0	0	0	0	1	0	0	0	10368	922	32	2	1598	2	NFE2L2	2	178098810	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	14924291	178098810	65100563	45	54733										
TTN	7273	broad.mit.edu	37	chr2	179441405	179441405	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cggaaactggtgtttttattGctctcacccatcgcaggctt	9	11	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:179441405G>A	uc010zfg.1	-	274	62086	c.61862C>T	c.(61861-61863)GCA>GTA	p.A20621V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A14316V|TTN_uc010zfi.1_Missense_Mutation_p.A14249V|TTN_uc010zfj.1_Missense_Mutation_p.A14124V|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21548							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)			TGTTTTTATTGCTCTCACCCA	0.468													145	339	---	---	---	---	PASS	A	179441405	A	A	179441405	3	1	154	1	0	0	0	0	1	0	0	0	16732	1319	46	3	38565	3	TTN	2	179441405	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	1342595	179441405	63757968	46	54734										
TTN	7273	broad.mit.edu	37	chr2	179633506	179633506	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttcagtgagtgtgtgagcttTttggttctcatctggcactt	11	7	3	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:179633506T>C	uc010zfg.1	-	38	9281	c.9057A>G	c.(9055-9057)AAA>AAG	p.K3019K	TTN_uc010zfh.1_Silent_p.K2973K|TTN_uc010zfi.1_Silent_p.K2973K|TTN_uc010zfj.1_Silent_p.K2973K|TTN_uc002unb.2_Silent_p.K3019K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3019							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)			GTGTGAGCTTTTTGGTTCTCA	0.418													49	140	---	---	---	---	PASS	C	179633506	C	C	179633506	2	2	154	1	0	0	0	0	0	0	0	1	16732	1838	64	5		5	TTN	2	179633506	Silent	SNP	T	TCGA-66-2770-01A-01D-1522-08	192101	179633506	63565867	47	54735										
ITGA4	3676	broad.mit.edu	37	chr2	182360566	182360566	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccaccctgagtcagtaaataGaacgaaatttgactgtgttg	9	8	1	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:182360566G>A	uc002unu.2	+	14	2205	c.1442G>A	c.(1441-1443)AGA>AAA	p.R481K	ITGA4_uc010frj.1_5'Flank	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	481	Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	TCAGTAAATAGAACGAAATTT	0.373													62	171	---	---	---	---	PASS	A	182360566	A	A	182360566	3	1	154	1	0	0	0	0	1	0	0	0	7878	942	33	2	1496	2	ITGA4	2	182360566	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	2727060	182360566	60838807	48	54736										
CALCRL	10203	broad.mit.edu	37	chr2	188247906	188247906	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gtagccatgcttaccttctgCttgttgaatggggtcttgca	11	9	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:188247906C>G	uc002upv.3	-	5	726	c.178G>C	c.(178-180)GCA>CCA	p.A60P	CALCRL_uc010frt.2_Missense_Mutation_p.A60P	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	60	Extracellular (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			TTACCTTCTGCTTGTTGAATG	0.338													74	195	---	---	---	---	PASS	G	188247906	G	G	188247906	3	3	154	1	0	0	0	0	1	0	0	0	2580	797	28	4	1251	4	CALCRL	2	188247906	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	5887340	188247906	54951467	49	54737										
ANKRD44	91526	broad.mit.edu	37	chr2	197878392	197878392	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctgatgtccaggtccaccaaCgactgcagaaggacttccaa	9	13	0	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:197878392C>G	uc002uua.1	-	18	1769	c.1692G>C	c.(1690-1692)TCG>TCC	p.S564S	ANKRD44_uc002utz.3_Silent_p.S296S	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	589	ANK 17.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GGTCCACCAACGACTGCAGAA	0.532													112	266	---	---	---	---	PASS	G	197878392	G	G	197878392	2	3	154	1	0	0	0	0	0	0	0	1	672	523	19	4		4	ANKRD44	2	197878392	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	9630486	197878392	45320981	50	54738										
NIF3L1	60491	broad.mit.edu	37	chr2	201761925	201761925	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttcgcttagcccttggggtgGggagaaccttaggtaaatat	13	7	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:201761925G>T	uc002uwm.2	+	5	944	c.853G>T	c.(853-855)GGG>TGG	p.G285W	NIF3L1_uc002uwl.2_Missense_Mutation_p.G258W|NIF3L1_uc002uwn.2_Missense_Mutation_p.G258W|NIF3L1_uc002uwo.2_Missense_Mutation_p.G285W|NIF3L1_uc002uwp.2_Missense_Mutation_p.G285W|NIF3L1_uc002uwq.2_Intron	NM_001136039	NP_001129511	Q9GZT8	NIF3L_HUMAN	NIF3 NGG1 interacting factor 3-like 1 isoform 1	285					positive regulation of transcription, DNA-dependent		transcription factor binding			skin(1)	1						CCTTGGGGTGGGGAGAACCTT	0.403													72	142	---	---	---	---	PASS	T	201761925	T	T	201761925	3	4	154	1	0	0	0	0	1	0	0	0	10416	1232	43	3	867	3	NIF3L1	2	201761925	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	3883533	201761925	41437448	51	54739										
SPAG16	79582	broad.mit.edu	37	chr2	214215364	214215364	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tggaaagagacaaagtagttGggcaggtaaagatatagtca	13	3	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:214215364G>T	uc002veq.2	+	7	849	c.757G>T	c.(757-759)GGG>TGG	p.G253W	SPAG16_uc010fuz.1_Missense_Mutation_p.G104W|SPAG16_uc002ver.2_Missense_Mutation_p.G199W|SPAG16_uc010zjk.1_Missense_Mutation_p.G159W|SPAG16_uc002vep.1_Intron|SPAG16_uc002ves.1_Missense_Mutation_p.G222W	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	253	Potential.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		CAAAGTAGTTGGGCAGGTAAA	0.313													30	91	---	---	---	---	PASS	T	214215364	T	T	214215364	3	4	154	1	0	0	0	0	1	0	0	0	14978	1348	47	3	799	3	SPAG16	2	214215364	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	12453439	214215364	28984009	52	54740										
SMARCAL1	50485	broad.mit.edu	37	chr2	217279494	217279494	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	atcgacaaaaggctctggccCgcagagctgagaagttattg	12	9	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:217279494C>G	uc002vgc.3	+	3	397	c.67C>G	c.(67-69)CGC>GGC	p.R23G	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.R23G|SMARCAL1_uc010fvg.2_Missense_Mutation_p.R23G	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	23	Potential.				chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		GGCTCTGGCCCGCAGAGCTGA	0.498									Schimke_Immuno-Osseous_Dysplasia				77	169	---	---	---	---	PASS	G	217279494	G	G	217279494	3	3	154	1	0	0	0	0	1	0	0	0	14773	652	23	4	69	4	SMARCAL1	2	217279494	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	3064130	217279494	25919879	53	54741										
CRYBA2	1412	broad.mit.edu	37	chr2	219857818	219857818	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gcacagtcgcttagcagccgAcagcgacggccctggaagtc	13	14	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:219857818A>G	uc002vjj.1	-	2	116	c.81T>C	c.(79-81)TGT>TGC	p.C27C	CRYBA2_uc002vjk.1_Silent_p.C27C	NM_057094	NP_476435	P53672	CRBA2_HUMAN	crystallin, beta A2	27	Beta/gamma crystallin 'Greek key' 1.						structural constituent of eye lens				0		Renal(207;0.0474)		Epithelial(149;9.77e-07)|all cancers(144;0.000167)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TTAGCAGCCGACAGCGACGGC	0.572													11	22	---	---	---	---	PASS	G	219857818	G	G	219857818	2	3	154	1	0	0	0	0	0	0	0	1	3908	273	10	5		5	CRYBA2	2	219857818	Silent	SNP	A	TCGA-66-2770-01A-01D-1522-08	2578324	219857818	23341555	54	54742										
FAM124B	79843	broad.mit.edu	37	chr2	225266335	225266335	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggacttttcacagtatttcaCaggactggcccgttcagaca	9	11	3	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:225266335C>A	uc002vnx.2	-	1	377	c.151G>T	c.(151-153)GTG>TTG	p.V51L	FAM124B_uc002vnw.2_Missense_Mutation_p.V51L	NM_001122779	NP_001116251	Q9H5Z6	F124B_HUMAN	hypothetical protein LOC79843 isoform a	51							protein binding			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0126)|Lung NSC(271;0.0161)|all_hematologic(139;0.138)		Epithelial(121;4.4e-10)|all cancers(144;2.02e-07)|Lung(261;0.00766)|LUSC - Lung squamous cell carcinoma(224;0.00825)		CAGTATTTCACAGGACTGGCC	0.572													24	55	---	---	---	---	PASS	A	225266335	A	A	225266335	3	1	154	1	0	0	0	0	1	0	0	0	5426	478	17	3	1315	3	FAM124B	2	225266335	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	5408517	225266335	17933038	55	54743										
SPHKAP	80309	broad.mit.edu	37	chr2	228882360	228882360	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cggctccacctgtcgccactCagtaaccgattccggggata	10	15	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:228882360C>T	uc002vpq.2	-	7	3257	c.3210G>A	c.(3208-3210)CTG>CTA	p.L1070L	SPHKAP_uc002vpp.2_Silent_p.L1070L|SPHKAP_uc010zlx.1_Silent_p.L1070L	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1070						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TGTCGCCACTCAGTAACCGAT	0.567													18	96	---	---	---	---	PASS	T	228882360	T	T	228882360	2	4	154	1	0	0	0	0	0	0	0	1	15047	813	29	2		2	SPHKAP	2	228882360	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	3616025	228882360	14317013	56	54744										
OR6B3	150681	broad.mit.edu	37	chr2	240984557	240984557	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctagaaagcctcccctctacGgcgcagctcgtcaagccgaa	9	16	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr2:240984557G>T	uc010zoe.1	-	1	933	c.933C>A	c.(931-933)GCC>GCA	p.A311A	PRR21_uc010zod.1_5'Flank	NM_173351	NP_775486	Q8NGW1	OR6B3_HUMAN	olfactory receptor, family 6, subfamily B,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;1.05e-29)|all cancers(36;3.52e-28)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)|Colorectal(34;0.019)|COAD - Colon adenocarcinoma(134;0.141)		TCCCCTCTACGGCGCAGCTCG	0.473													89	106	---	---	---	---	PASS	T	240984557	T	T	240984557	2	4	154	1	0	0	0	0	0	0	0	1	11189	1103	39	1		1	OR6B3	2	240984557	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	12102197	240984557	2214816	57	54745										
SGOL1	151648	broad.mit.edu	37	chr3	20212600	20212600	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cgtttaggcagagccactgcTgggcttgctttattcttttt	10	9	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:20212600T>A	uc003cbs.2	-	7	1594	c.1407A>T	c.(1405-1407)CCA>CCT	p.P469P	SGOL1_uc003cbr.2_Silent_p.P200P|SGOL1_uc010hfa.2_Intron|SGOL1_uc003cbt.2_Silent_p.P217P|SGOL1_uc003cbu.2_Silent_p.P469P|SGOL1_uc003cbv.2_Silent_p.P217P|SGOL1_uc003cbw.2_Silent_p.P200P|SGOL1_uc003cbx.2_Silent_p.P217P|SGOL1_uc003cby.2_Silent_p.P200P|SGOL1_uc003cbz.2_Silent_p.P469P|SGOL1_uc003cca.2_Silent_p.P469P|SGOL1_uc003ccb.2_Silent_p.P217P|SGOL1_uc003ccc.2_Silent_p.P200P	NM_001012410	NP_001012410	Q5FBB7	SGOL1_HUMAN	shugoshin-like 1 isoform A2	469					attachment of spindle microtubules to kinetochore|cell division|centriole-centriole cohesion|meiotic chromosome segregation|mitotic prometaphase	centrosome|condensed chromosome kinetochore|cytosol|mitotic cohesin complex|spindle pole	protein binding				0						GAGCCACTGCTGGGCTTGCTT	0.438													16	28	---	---	---	---	PASS	A	20212600	A	A	20212600	2	1	154	1	0	0	0	0	0	0	0	1	14216	1567	55	5		5	SGOL1	3	20212600	Silent	SNP	T	TCGA-66-2770-01A-01D-1522-08		20212600	177809830	58	54746										
GADL1	339896	broad.mit.edu	37	chr3	30885900	30885900	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttccatctgtttccacaaagCaaacattctcagtgccaatc	4	13	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:30885900C>A	uc003cep.2	-	7	757	c.710G>T	c.(709-711)TGC>TTC	p.C237F	GADL1_uc003ceq.1_Missense_Mutation_p.C237F	NM_207359	NP_997242	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1	237					carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	TTCCACAAAGCAAACATTCTC	0.433													108	156	---	---	---	---	PASS	A	30885900	A	A	30885900	3	1	154	1	0	0	0	0	1	0	0	0	6185	710	25	3	891	3	GADL1	3	30885900	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	10673300	30885900	167136530	59	54747										
RRP9	9136	broad.mit.edu	37	chr3	51967584	51967584	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gatgatgcagacagaattccGagcctctttgattctccacc	8	12	2	4			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:51967584G>T	uc003dbw.1	-	15	1405	c.1366C>A	c.(1366-1368)CGG>AGG	p.R456R		NM_004704	NP_004695	O43818	U3IP2_HUMAN	RNA, U3 small nucleolar interacting protein 2	456	WD 7.				rRNA processing	nucleolus|small nuclear ribonucleoprotein complex|small nucleolar ribonucleoprotein complex	RNA binding			breast(2)|ovary(1)	3				BRCA - Breast invasive adenocarcinoma(193;8.04e-05)|Kidney(197;0.000553)|KIRC - Kidney renal clear cell carcinoma(197;0.000724)		ACAGAATTCCGAGCCTCTTTG	0.572													31	33	---	---	---	---	PASS	T	51967584	T	T	51967584	2	4	154	1	0	0	0	0	0	0	0	1	13691	1057	37	2		2	RRP9	3	51967584	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	21081684	51967584	146054846	60	54748										
ACY1	95	broad.mit.edu	37	chr3	52022593	52022593	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gactcaaacccttggtgggcAgcttttagccgggtctgcaa	12	11	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:52022593A>T	uc003dcp.2	+	13	1036	c.975A>T	c.(973-975)GCA>GCT	p.A325A	ACY1_uc011bea.1_Silent_p.A415A|ACY1_uc003dcq.2_Silent_p.A325A	NM_000666	NP_000657	Q03154	ACY1_HUMAN	aminoacylase 1	325					cellular amino acid metabolic process|proteolysis	cytosol	aminoacylase activity|metal ion binding|metallopeptidase activity			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	L-Aspartic Acid(DB00128)	CTTGGTGGGCAGCTTTTAGCC	0.463													24	44	---	---	---	---	PASS	T	52022593	T	T	52022593	2	4	154	1	0	0	0	0	0	0	0	1	226	175	7	5		5	ACY1	3	52022593	Silent	SNP	A	TCGA-66-2770-01A-01D-1522-08	55009	52022593	145999837	61	54749										
WDR82	80335	broad.mit.edu	37	chr3	52312361	52312361	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cgcggaagctccgcaacacgCtgtcggtcagcttcatggcg	13	14	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:52312361C>G	uc003ddl.2	-	1	299	c.17G>C	c.(16-18)AGC>ACC	p.S6T		NM_025222	NP_079498	Q6UXN9	WDR82_HUMAN	WD repeat domain 82	6					histone H3-K4 methylation	chromatin|PTW/PP1 phosphatase complex|Set1C/COMPASS complex	protein binding				0				BRCA - Breast invasive adenocarcinoma(193;2.67e-05)|Kidney(197;0.00198)|KIRC - Kidney renal clear cell carcinoma(197;0.00223)|OV - Ovarian serous cystadenocarcinoma(275;0.246)		CCGCAACACGCTGTCGGTCAG	0.323													14	10	---	---	---	---	PASS	G	52312361	G	G	52312361	3	3	154	1	0	0	0	0	1	0	0	0	17328	797	28	4	960	4	WDR82	3	52312361	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	289768	52312361	145710069	62	54750										
CCDC80	151887	broad.mit.edu	37	chr3	112358447	112358447	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gctggtctttgctcaggtctCacggcggccccattgatgtc	12	13	3	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:112358447C>T	uc003dzf.2	-	2	524	c.306G>A	c.(304-306)GTG>GTA	p.V102V	CCDC80_uc011bhv.1_Silent_p.V102V|CCDC80_uc003dzg.2_Silent_p.V102V|CCDC80_uc003dzh.1_Silent_p.V102V	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	102										ovary(2)	2						GCTCAGGTCTCACGGCGGCCC	0.607													32	140	---	---	---	---	PASS	T	112358447	T	T	112358447	2	4	154	1	0	0	0	0	0	0	0	1	2854	813	29	2		2	CCDC80	3	112358447	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	60046086	112358447	85663983	63	54751										
DRD3	1814	broad.mit.edu	37	chr3	113849981	113849981	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttaccaagcacaatggccacCatttgggttgccttcttctc	7	13	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:113849981C>T	uc003ebd.2	-	7	1413	c.990G>A	c.(988-990)ATG>ATA	p.M330I	DRD3_uc010hqn.1_Missense_Mutation_p.M330I|DRD3_uc003ebb.1_Missense_Mutation_p.M297I|DRD3_uc003ebc.1_Missense_Mutation_p.M330I	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	330	Helical; Name=6.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	CAATGGCCACCATTTGGGTTG	0.388													129	65	---	---	---	---	PASS	T	113849981	T	T	113849981	3	4	154	1	0	0	0	0	1	0	0	0	4758	594	21	3	220	3	DRD3	3	113849981	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	1491534	113849981	84172449	64	54752										
IGSF11	152404	broad.mit.edu	37	chr3	118621695	118621695	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tatgaacttttggattgttgCtccagtatcgactgttgtag	10	6	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:118621695C>T	uc003ebw.2	-	7	1215	c.968G>A	c.(967-969)AGC>AAC	p.S323N	IGSF11_uc011biv.1_Missense_Mutation_p.S295N|IGSF11_uc003ebx.2_Missense_Mutation_p.S299N|IGSF11_uc003eby.2_Missense_Mutation_p.S322N|IGSF11_uc003ebz.2_Missense_Mutation_p.S298N|IGSF11_uc010hqs.2_Missense_Mutation_p.S322N	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	323	Cytoplasmic (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						TGGATTGTTGCTCCAGTATCG	0.463													42	264	---	---	---	---	PASS	T	118621695	T	T	118621695	3	4	154	1	0	0	0	0	1	0	0	0	7598	797	28	3	331	3	IGSF11	3	118621695	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	4771714	118621695	79400735	65	54753										
ATP2C1	27032	broad.mit.edu	37	chr3	130656305	130656305	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttgttacagttgcctttgttCaggtaagtactctattttgc	8	7	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:130656305C>T	uc003enl.2	+	6	580	c.358C>T	c.(358-360)CAG>TAG	p.Q120*	ATP2C1_uc011blg.1_Nonsense_Mutation_p.Q154*|ATP2C1_uc011blh.1_Nonsense_Mutation_p.Q115*|ATP2C1_uc011bli.1_Nonsense_Mutation_p.Q154*|ATP2C1_uc003enk.2_Nonsense_Mutation_p.Q104*|ATP2C1_uc003enm.2_Nonsense_Mutation_p.Q120*|ATP2C1_uc003enn.2_Nonsense_Mutation_p.Q104*|ATP2C1_uc003eno.2_Nonsense_Mutation_p.Q120*|ATP2C1_uc003enp.2_Nonsense_Mutation_p.Q120*|ATP2C1_uc003enq.2_Nonsense_Mutation_p.Q120*|ATP2C1_uc003enr.2_Nonsense_Mutation_p.Q120*|ATP2C1_uc003ens.2_Nonsense_Mutation_p.Q120*|ATP2C1_uc003ent.2_Nonsense_Mutation_p.Q120*	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	120	Helical; Name=2; (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	TGCCTTTGTTCAGGTAAGTAC	0.338									Hailey-Hailey_disease				39	146	---	---	---	---	PASS	T	130656305	T	T	130656305	4	4	154	1	0	0	0	0	0	1	0	0	1143	827	29	2	376	2	ATP2C1	3	130656305	Nonsense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	12034610	130656305	67366125	66	54754										
ZIC1	7545	broad.mit.edu	37	chr3	147131323	147131323	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gcgctctcttccaattttaaCgaatggtacgtttaaaatca	6	9	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:147131323C>G	uc003ewe.2	+	3	2048	c.1329C>G	c.(1327-1329)AAC>AAG	p.N443K		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	443					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCAATTTTAACGAATGGTACG	0.473													34	115	---	---	---	---	PASS	G	147131323	G	G	147131323	3	3	154	1	0	0	0	0	1	0	0	0	17675	535	19	4	1339	4	ZIC1	3	147131323	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	16475018	147131323	50891107	67	54755										
C3orf33	285315	broad.mit.edu	37	chr3	155481693	155481693	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	atttcttcattcagattcacGctgaaatatccacccttgaa	4	11	4	3	rs115731681	by1000genomes	TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:155481693G>T	uc003fal.1	-	6	639	c.369C>A	c.(367-369)AGC>AGA	p.S123R	C3orf33_uc003fam.1_Missense_Mutation_p.S166R	NM_173657	NP_775928	Q96NB5	Q96NB5_HUMAN	hypothetical protein LOC285315	123							hydrolase activity, acting on ester bonds|nucleic acid binding				0			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TCAGATTCACGCTGAAATATC	0.303													5	49	---	---	---	---	PASS	T	155481693	T	T	155481693	3	4	154	1	0	0	0	0	1	0	0	0	2223	1078	38	1	390	1	C3orf33	3	155481693	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	8350370	155481693	42540737	68	54756										
GPR160	26996	broad.mit.edu	37	chr3	169801789	169801789	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tctctcttcagagaactgctCttttcagtaccagttacgtc	6	12	5	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:169801789C>A	uc003fgi.2	+	4	619	c.29C>A	c.(28-30)TCT>TAT	p.S10Y	GPR160_uc010hwq.2_Missense_Mutation_p.S10Y	NM_014373	NP_055188	Q9UJ42	GP160_HUMAN	G protein-coupled receptor 160	10	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_cancers(22;3.26e-22)|all_epithelial(15;5.71e-27)|all_lung(20;8.41e-17)|Lung NSC(18;3.49e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			GAGAACTGCTCTTTTCAGTAC	0.353													198	225	---	---	---	---	PASS	A	169801789	A	A	169801789	3	1	154	1	0	0	0	0	1	0	0	0	6664	913	32	2	31	2	GPR160	3	169801789	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	14320096	169801789	28220641	69	54757										
MUC4	4585	broad.mit.edu	37	chr3	195515753	195515753	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccgggaaatggcggctgtctCctgaggagaggcactgggag	18	9	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr3:195515753C>T	uc011bto.1	-	2	3158	c.2698G>A	c.(2698-2700)GAG>AAG	p.E900K	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.E782K	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	905	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GCGGCTGTCTCCTGAGGAGAG	0.612													36	39	---	---	---	---	PASS	T	195515753	T	T	195515753	3	4	154	1	0	0	0	0	1	0	0	0	9978	864	30	2		2	MUC4	3	195515753	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	25713964	195515753	2506677	70	54758										
FGFR3	2261	broad.mit.edu	37	chr4	1803568	1803568	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	atctgcccccacagagcgctCcccgcaccggcccatcctgc	8	22	1	1	rs121913483		TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr4:1803568C>G	uc003gdr.3	+	7	1002	c.746C>G	c.(745-747)TCC>TGC	p.S249C	FGFR3_uc003gdu.2_Missense_Mutation_p.S249C|FGFR3_uc003gds.3_Missense_Mutation_p.S249C|FGFR3_uc003gdq.3_Missense_Mutation_p.S249C|FGFR3_uc010icb.1_Missense_Mutation_p.S91C|FGFR3_uc003gdt.1_Missense_Mutation_p.S91C	NM_000142	NP_000133	P22607	FGFR3_HUMAN	fibroblast growth factor receptor 3 isoform 1	249	Extracellular (Potential).		S -> C (in KERSEB, bladder cancer, cervical cancer and TD1).		bone maturation|cell growth|insulin receptor signaling pathway|JAK-STAT cascade|MAPKKK cascade|negative regulation of developmental growth|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|identical protein binding	p.S249C(1368)|p.R248_S249insC(2)|p.S249T(1)|p.R248_S249del(1)		urinary_tract(2177)|skin(314)|upper_aerodigestive_tract(57)|haematopoietic_and_lymphoid_tissue(24)|prostate(9)|cervix(6)|central_nervous_system(4)|large_intestine(3)|lung(3)|testis(2)|pancreas(1)	2600		Breast(71;0.212)|all_epithelial(65;0.241)	all cancers(2;0.000145)|OV - Ovarian serous cystadenocarcinoma(23;0.0019)|Epithelial(3;0.00221)|GBM - Glioblastoma multiforme(2;0.234)		Palifermin(DB00039)	ACAGAGCGCTCCCCGCACCGG	0.562		1	Mis|T	IGH@|ETV6	bladder|MM|T-cell lymphoma		Hypochondroplasia|Thanatophoric dysplasia		Muenke_syndrome|Saethre-Chotzen_syndrome				2	10	---	---	---	---	PASS	G	1803568	G	G	1803568	3	3	154	1	0	0	0	0	1	0	0	0	5867	855	30	2	768	2	FGFR3	4	1803568	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08		1803568	189350708	71	54759										
JAKMIP1	152789	broad.mit.edu	37	chr4	6083357	6083357	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	atttccacgttttcccgcgtGaggttcttgattttctcctc	7	12	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr4:6083357G>T	uc003giu.3	-	6	1356	c.1080C>A	c.(1078-1080)CTC>CTA	p.L360L	JAKMIP1_uc010idb.1_Silent_p.L360L|JAKMIP1_uc010idc.1_Silent_p.L195L|JAKMIP1_uc010idd.1_Silent_p.L360L|JAKMIP1_uc011bwc.1_Silent_p.L195L|JAKMIP1_uc003giv.3_Silent_p.L360L|JAKMIP1_uc010ide.2_Silent_p.L360L	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	360	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TTTCCCGCGTGAGGTTCTTGA	0.527													28	122	---	---	---	---	PASS	T	6083357	T	T	6083357	2	4	154	1	0	0	0	0	0	0	0	1	7940	1277	45	2		2	JAKMIP1	4	6083357	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	4279789	6083357	185070919	72	54760										
ABLIM2	84448	broad.mit.edu	37	chr4	8108243	8108243	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttacagacgaagcacttgatGtggaagtacttgtcctgcac	10	9	0	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr4:8108243G>T	uc003gko.2	-	2	275	c.132C>A	c.(130-132)CAC>CAA	p.H44Q	ABLIM2_uc003gkj.3_Missense_Mutation_p.H44Q|ABLIM2_uc003gkm.3_Missense_Mutation_p.H44Q|ABLIM2_uc003gkp.2_Missense_Mutation_p.H44Q|ABLIM2_uc003gkq.2_Missense_Mutation_p.H44Q|ABLIM2_uc003gkr.2_Missense_Mutation_p.H44Q|ABLIM2_uc003gks.3_Missense_Mutation_p.H44Q|ABLIM2_uc011bwl.1_Missense_Mutation_p.H49Q	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	44	LIM zinc-binding 1.				axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3						AGCACTTGATGTGGAAGTACT	0.642													9	6	---	---	---	---	PASS	T	8108243	T	T	8108243	3	4	154	1	0	0	0	0	1	0	0	0	95	1368	48	3	1939	3	ABLIM2	4	8108243	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	2024886	8108243	183046033	73	54761										
TBC1D19	55296	broad.mit.edu	37	chr4	26689973	26689973	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	acttttaattataggatgtgAagttgacagcaagcaatgat	9	4	0	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr4:26689973A>T	uc003gsf.3	+	13	1168	c.898A>T	c.(898-900)AAG>TAG	p.K300*	TBC1D19_uc010iew.2_Nonsense_Mutation_p.K300*|TBC1D19_uc011bxu.1_Nonsense_Mutation_p.K235*	NM_018317	NP_060787	Q8N5T2	TBC19_HUMAN	TBC1 domain family, member 19	300	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			breast(1)	1		Breast(46;0.0503)				ATAGGATGTGAAGTTGACAGC	0.284													38	76	---	---	---	---	PASS	T	26689973	T	T	26689973	4	4	154	1	0	0	0	0	0	1	0	0	15604	247	9	5	948	5	TBC1D19	4	26689973	Nonsense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	18581730	26689973	164464303	74	54762										
CENPC1	1060	broad.mit.edu	37	chr4	68396613	68396613	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttgaagaaactggaactgacTttggatgtgatttctggcac	11	6	1	4			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr4:68396613T>A	uc003hdd.1	-	5	434	c.251A>T	c.(250-252)AAG>ATG	p.K84M	CENPC1_uc010ihj.1_RNA|CENPC1_uc010ihk.1_RNA|CENPC1_uc010ihm.1_Missense_Mutation_p.K84M	NM_001812	NP_001803	Q03188	CENPC_HUMAN	centromere protein C 1	84					mitotic prometaphase	condensed chromosome kinetochore|condensed nuclear chromosome, centromeric region|cytosol	DNA binding			urinary_tract(1)|lung(1)	2						TGGAACTGACTTTGGATGTGA	0.368													22	11	---	---	---	---	PASS	A	68396613	A	A	68396613	3	1	154	1	0	0	0	0	1	0	0	0	3229	1609	56	5	2640	5	CENPC1	4	68396613	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	41706640	68396613	122757663	75	54763										
NKX6-1	4825	broad.mit.edu	37	chr4	85414486	85414486	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cgcgtgcagtaggaggccgcCgccgccgccgctgctggact	16	16	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr4:85414486C>A	uc003hpa.1	-	3	1066	c.1060G>T	c.(1060-1062)GGC>TGC	p.G354C		NM_006168	NP_006159	P78426	NKX61_HUMAN	NK6 transcription factor related, locus 1	354	Poly-Gly.|Involved in DNA-binding (By similarity).				detection of glucose|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|type B pancreatic cell maturation	nucleus					0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.0013)		AGGAGGCCGCCGCCGCCGCCG	0.667													12	31	---	---	---	---	PASS	A	85414486	A	A	85414486	3	1	154	1	0	0	0	0	1	0	0	0	10457	652	23	1	47	1	NKX6-1	4	85414486	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	17017873	85414486	105739790	76	54764										
TUBB4Q	56604	broad.mit.edu	37	chr4	190905449	190905449	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cctgaagacctgcccgaaggGccccgagcgcacagagtcca	12	16	0	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr4:190905449G>T	uc011clg.1	-	3	238	c.235C>A	c.(235-237)CCC>ACC	p.P79T		NM_020040	NP_064424	Q99867	TBB4Q_HUMAN	tubulin, beta polypeptide 4, member Q	80					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;4.1e-31)|Epithelial(3;1.44e-30)|OV - Ovarian serous cystadenocarcinoma(60;2.03e-15)|BRCA - Breast invasive adenocarcinoma(30;8.54e-06)|Lung(3;3.23e-05)|STAD - Stomach adenocarcinoma(60;8.24e-05)|LUSC - Lung squamous cell carcinoma(40;0.000184)|GBM - Glioblastoma multiforme(59;0.00839)|READ - Rectum adenocarcinoma(43;0.155)		TGCCCGAAGGGCCCCGAGCGC	0.667													13	56	---	---	---	---	PASS	T	190905449	T	T	190905449	3	4	154	1	0	0	0	0	1	0	0	0	16756	1203	42	3	1073	3	TUBB4Q	4	190905449	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	105490963	190905449	248827	77	54765										
CDH12	1010	broad.mit.edu	37	chr5	21975401	21975401	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccttattgcatgaatgtcccCtgtggtttcatcaatggtaa	8	9	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:21975401C>T	uc010iuc.2	-	3	783	c.325G>A	c.(325-327)GGG>AGG	p.G109R	CDH12_uc011cno.1_Missense_Mutation_p.G109R|CDH12_uc003jgk.2_Missense_Mutation_p.G109R	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	109	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TGAATGTCCCCTGTGGTTTCA	0.498										HNSCC(59;0.17)			109	197	---	---	---	---	PASS	T	21975401	T	T	21975401	3	4	154	1	0	0	0	0	1	0	0	0	3098	681	24	3	2099	3	CDH12	5	21975401	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08		21975401	158939859	78	54766										
CDH6	1004	broad.mit.edu	37	chr5	31323023	31323023	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ataacattgtcagttacaacGacgaaggtggtggagaggag	14	5	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:31323023G>A	uc003jhe.1	+	12	2307	c.1981G>A	c.(1981-1983)GAC>AAC	p.D661N		NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	661	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						CAGTTACAACGACGAAGGTGG	0.488													57	114	---	---	---	---	PASS	A	31323023	A	A	31323023	3	1	154	1	0	0	0	0	1	0	0	0	3114	1058	37	2	2023	2	CDH6	5	31323023	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	9347622	31323023	149592237	79	54767										
PLCXD3	345557	broad.mit.edu	37	chr5	41382178	41382178	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gaagaccagcacttgatagtCcttctcccacaggtacttta	7	12	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:41382178C>A	uc003jmm.1	-	2	664	c.562G>T	c.(562-564)GAC>TAC	p.D188Y		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	188	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						ACTTGATAGTCCTTCTCCCAC	0.488													116	182	---	---	---	---	PASS	A	41382178	A	A	41382178	3	1	154	1	0	0	0	0	1	0	0	0	12043	855	30	2	411	2	PLCXD3	5	41382178	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	10059155	41382178	139533082	80	54768										
MGC42105	167359	broad.mit.edu	37	chr5	43280396	43280396	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggcacatacagtgtaccgccGcacgtgtcagagccctgcca	11	15	1	1	rs143914564	byFrequency	TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:43280396G>A	uc003jno.2	+	4	1757	c.876G>A	c.(874-876)CCG>CCA	p.P292P		NM_153361	NP_699192	Q8IY84	NIM1_HUMAN	serine/threonine-protein kinase NIM1	292	Protein kinase.						ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|stomach(1)|large_intestine(1)|breast(1)	9						GTGTACCGCCGCACGTGTCAG	0.537													35	103	---	---	---	---	PASS	A	43280396	A	A	43280396	2	1	154	1	0	0	0	0	0	0	0	1	9552	1074	38	1		1	MGC42105	5	43280396	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	1898218	43280396	137634864	81	54769										
AP3B1	8546	broad.mit.edu	37	chr5	77423970	77423970	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	atgagataaggtgccaagctGgaaatgatctctatctatta	9	6	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:77423970G>A	uc003kfj.2	-	17	1977	c.1852C>T	c.(1852-1854)CAG>TAG	p.Q618*		NM_003664	NP_003655	O00203	AP3B1_HUMAN	adaptor-related protein complex 3, beta 1	618					endocytosis|melanosome organization	clathrin coated vesicle membrane|Golgi apparatus|membrane coat	protein phosphatase binding|protein transporter activity			central_nervous_system(1)	1		all_lung(232;0.000397)|Lung NSC(167;0.00106)|Ovarian(174;0.0105)|Prostate(461;0.215)		OV - Ovarian serous cystadenocarcinoma(54;8.23e-47)|Epithelial(54;2.74e-41)|all cancers(79;4.8e-36)		GTGCCAAGCTGGAAATGATCT	0.373									Hermansky-Pudlak_syndrome				29	67	---	---	---	---	PASS	A	77423970	A	A	77423970	4	1	154	1	0	0	0	0	0	1	0	0	744	1357	47	3	1476	3	AP3B1	5	77423970	Nonsense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	34143574	77423970	103491290	82	54770										
SCAMP1	9522	broad.mit.edu	37	chr5	77684689	77684689	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agttacacaagtgacaagaaAtgttccaccaggacttgatg	9	8	0	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:77684689A>G	uc003kfl.2	+	2	243	c.86A>G	c.(85-87)AAT>AGT	p.N29S	SCAMP1_uc010jaa.2_RNA|SCAMP1_uc011ctc.1_Intron|SCAMP1_uc011ctd.1_RNA	NM_004866	NP_004857	O15126	SCAM1_HUMAN	secretory carrier membrane protein 1	29	Cytoplasmic (Potential).				post-Golgi vesicle-mediated transport|protein transport	integral to membrane|recycling endosome membrane|trans-Golgi network	protein binding				0		all_lung(232;0.000397)|Lung NSC(167;0.00105)|Ovarian(174;0.0105)|Prostate(461;0.214)		OV - Ovarian serous cystadenocarcinoma(54;1.9e-46)|Epithelial(54;9.4e-43)|all cancers(79;1.12e-37)		GTGACAAGAAATGTTCCACCA	0.279													5	13	---	---	---	---	PASS	G	77684689	G	G	77684689	3	3	154	1	0	0	0	0	1	0	0	0	13870	101	4	5	92	5	SCAMP1	5	77684689	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	260719	77684689	103230571	83	54771										
CMYA5	202333	broad.mit.edu	37	chr5	79031918	79031918	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cttccttgaaaatttctgaaGaggaaacaaaactcaggtct	7	8	3	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:79031918G>T	uc003kgc.2	+	2	7402	c.7330G>T	c.(7330-7332)GAG>TAG	p.E2444*		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2444						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AATTTCTGAAGAGGAAACAAA	0.353													22	50	---	---	---	---	PASS	T	79031918	T	T	79031918	4	4	154	1	0	0	0	0	0	1	0	0	3590	943	33	2	7336	2	CMYA5	5	79031918	Nonsense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	1347229	79031918	101883342	84	54772										
FBN2	2201	broad.mit.edu	37	chr5	127730898	127730898	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agcagcactgcattttcgtcAttctccccgggagctcttgt	9	13	3	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:127730898A>T	uc003kuu.2	-	9	1587	c.1148T>A	c.(1147-1149)ATG>AAG	p.M383K	FBN2_uc003kuv.2_Missense_Mutation_p.M350K	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	383	TB 2.				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)		CATTTTCGTCATTCTCCCCGG	0.542													9	46	---	---	---	---	PASS	T	127730898	T	T	127730898	3	4	154	1	0	0	0	0	1	0	0	0	5703	217	8	5	7818	5	FBN2	5	127730898	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	48698980	127730898	53184362	85	54773										
FBN2	2201	broad.mit.edu	37	chr5	127744403	127744403	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	atctgttgaggttacatatcCacgtggacaaacacaaaaat	7	8	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:127744403C>A	uc003kuu.2	-	8	1481	c.1042G>T	c.(1042-1044)GGA>TGA	p.G348*	FBN2_uc003kuv.2_Nonsense_Mutation_p.G315*	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	348	EGF-like 5; calcium-binding.				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)		GTTACATATCCACGTGGACAA	0.443													49	85	---	---	---	---	PASS	A	127744403	A	A	127744403	4	1	154	1	0	0	0	0	0	1	0	0	5703	603	21	3	7928	3	FBN2	5	127744403	Nonsense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	13505	127744403	53170857	86	54774										
RAD50	10111	broad.mit.edu	37	chr5	131939024	131939024	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgatttgaaggagaaggaaaTaccagaattaagaaacaaac	9	4	0	5			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:131939024T>A	uc003kxi.2	+	14	2627	c.2240T>A	c.(2239-2241)ATA>AAA	p.I747K	RAD50_uc003kxh.2_Missense_Mutation_p.I608K	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	747					DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GAGAAGGAAATACCAGAATTA	0.269								Homologous_recombination					13	47	---	---	---	---	PASS	A	131939024	A	A	131939024	3	1	154	1	0	0	0	0	1	0	0	0	12984	1406	49	5	2294	5	RAD50	5	131939024	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	4194621	131939024	48976236	87	54775										
IK	3550	broad.mit.edu	37	chr5	140032730	140032730	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gttggccccactgctgaggcGtgagtactgagggaacaggg	17	9	0	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:140032730G>A	uc003lgq.2	+	5	514	c.404_splice	c.e5+1	p.A135_splice	IK_uc011czk.1_Splice_Site_p.A135_splice	NM_006083	NP_006074	Q13123	RED_HUMAN	RED protein						cell-cell signaling|immune response	extracellular space|nucleus|soluble fraction				large_intestine(1)	1		all_hematologic(541;4.8e-07)|all_lung(500;0.000434)|Lung NSC(810;0.00161)|Breast(839;0.128)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCTGAGGCGTGAGTACTGA	0.502													30	64	---	---	---	---	PASS	A	140032730	A	A	140032730	5	1	154	1	0	0	0	0	0	0	1	0	7608	1159	40	1	423	1	IK	5	140032730	Splice_Site	SNP	G	TCGA-66-2770-01A-01D-1522-08	8093706	140032730	40882530	88	54776										
PCDHA6	56142	broad.mit.edu	37	chr5	140207985	140207985	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gggcggagcgcggagtgcagCatccacctggaggtgatcgt	18	10	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:140207985C>A	uc003lho.2	+	1	336	c.309C>A	c.(307-309)AGC>AGA	p.S103R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.S103R|PCDHA6_uc011dab.1_Missense_Mutation_p.S103R	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	103	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGAGTGCAGCATCCACCTGG	0.587													48	252	---	---	---	---	PASS	A	140207985	A	A	140207985	3	1	154	1	0	0	0	0	1	0	0	0	11528	709	25	3	311	3	PCDHA6	5	140207985	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	175255	140207985	40707275	89	54777										
PCDHA11	56138	broad.mit.edu	37	chr5	140248877	140248877	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gcggagctggtgcagcgcctGttccgggtggcgtccaaaac	16	12	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:140248877G>A	uc003lia.2	+	1	1047	c.189G>A	c.(187-189)CTG>CTA	p.L63L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Silent_p.L63L	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	63	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCAGCGCCTGTTCCGGGTGG	0.612													89	120	---	---	---	---	PASS	A	140248877	A	A	140248877	2	1	154	1	0	0	0	0	0	0	0	1	11521	1364	48	3		3	PCDHA11	5	140248877	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	40892	140248877	40666383	90	54778										
PCDHB13	56123	broad.mit.edu	37	chr5	140595315	140595315	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tcagaccacggctccccggcGctgagcagcgaggcgctggt	15	15	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:140595315G>T	uc003lja.1	+	1	1807	c.1620G>T	c.(1618-1620)GCG>GCT	p.A540A		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	540	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTCCCCGGCGCTGAGCAGCG	0.697													24	44	---	---	---	---	PASS	T	140595315	T	T	140595315	2	4	154	1	0	0	0	0	0	0	0	1	11538	1074	38	1		1	PCDHB13	5	140595315	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	346438	140595315	40319945	91	54779										
PCDHGB4	8641	broad.mit.edu	37	chr5	140768582	140768582	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gacaaggattccagacacaaTggagaagtgacttgtaaatt	10	6	0	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:140768582T>C	uc003lkc.1	+	1	1131	c.1131T>C	c.(1129-1131)AAT>AAC	p.N377N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Silent_p.N377N	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	377	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGACACAATGGAGAAGTGA	0.408													31	126	---	---	---	---	PASS	C	140768582	C	C	140768582	2	2	154	1	0	0	0	0	0	0	0	1	11565	1461	51	5		5	PCDHGB4	5	140768582	Silent	SNP	T	TCGA-66-2770-01A-01D-1522-08	173267	140768582	40146678	92	54780										
ARAP3	64411	broad.mit.edu	37	chr5	141059334	141059334	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gataacccagttacctgtgcCtgttgtgggcctgagggcag	14	10	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:141059334C>T	uc003llm.2	-	3	658	c.580G>A	c.(580-582)GGC>AGC	p.G194S	ARAP3_uc003lln.2_Missense_Mutation_p.G116S|ARAP3_uc003llo.1_Missense_Mutation_p.G194S	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	194					cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						TTACCTGTGCCTGTTGTGGGC	0.582													55	89	---	---	---	---	PASS	T	141059334	T	T	141059334	3	4	154	1	0	0	0	0	1	0	0	0	840	681	24	3	4178	3	ARAP3	5	141059334	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	290752	141059334	39855926	93	54781										
SLC36A3	285641	broad.mit.edu	37	chr5	150663691	150663691	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gtccccagtaagatatagagGatgatgacaatggacatccc	10	9	0	4			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:150663691G>C	uc003ltw.2	-	8	1307	c.888C>G	c.(886-888)ATC>ATG	p.I296M	GM2A_uc011dcs.1_Intron|SLC36A3_uc003ltv.2_Missense_Mutation_p.I281M|SLC36A3_uc003ltx.2_Missense_Mutation_p.I337M	NM_181774	NP_861439	Q495N2	S36A3_HUMAN	solute carrier family 36, member 3 isoform 2	296	Helical; (Potential).					integral to membrane				ovary(2)|skin(1)	3		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGATATAGAGGATGATGACAA	0.473													92	143	---	---	---	---	PASS	C	150663691	C	C	150663691	3	2	154	1	0	0	0	0	1	0	0	0	14595	1164	41	2	536	2	SLC36A3	5	150663691	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	9604357	150663691	30251569	94	54782										
CYFIP2	26999	broad.mit.edu	37	chr5	156755026	156755026	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tctacaagctggcagaccagAtctttgcttactacaaagcc	7	12	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:156755026A>G	uc003lwq.2	+	21	2263	c.2125A>G	c.(2125-2127)ATC>GTC	p.I709V	CYFIP2_uc011ddn.1_Missense_Mutation_p.I683V|CYFIP2_uc011ddo.1_Missense_Mutation_p.I513V|CYFIP2_uc003lwr.2_Missense_Mutation_p.I709V|CYFIP2_uc003lws.2_Missense_Mutation_p.I709V|CYFIP2_uc003lwt.2_Missense_Mutation_p.I612V|CYFIP2_uc011ddp.1_Missense_Mutation_p.I443V	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	734					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)			GGCAGACCAGATCTTTGCTTA	0.473													25	65	---	---	---	---	PASS	G	156755026	G	G	156755026	3	3	154	1	0	0	0	0	1	0	0	0	4138	333	12	5	2195	5	CYFIP2	5	156755026	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	6091335	156755026	24160234	95	54783										
ADAM19	8728	broad.mit.edu	37	chr5	156920133	156920133	+	Nonsense_Mutation	SNP	C	A	A													0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aatgggcaccgcgttggactCcaggggccgggcctcagagc							TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:156920133C>A	uc003lwz.2	-	16	1820	c.1756G>T	c.(1756-1758)GAG>TAG	p.E586*	ADAM19_uc003lww.1_Nonsense_Mutation_p.E319*|ADAM19_uc003lwy.2_Nonsense_Mutation_p.E185*|ADAM19_uc011ddr.1_Nonsense_Mutation_p.E517*	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	586	Extracellular (Potential).|Cys-rich.				proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GCGTTGGACTCCAGGGGCCGG	0.602													37	94	---	---	---	---	PASS	A	156920133	A	A	156920133	4	1	154	1	0	0	0	0	0	1	0	0	240	864	30	2	1032	2	ADAM19	5	156920133	Nonsense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	165107	156920133	23995127	96	54784	984	2								
ADAM19	8728	broad.mit.edu	37	chr5	156920134	156920134	+	Silent	SNP	C	A	A													0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	atgggcaccgcgttggactcCaggggccgggcctcagagct							TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:156920134C>A	uc003lwz.2	-	16	1819	c.1755G>T	c.(1753-1755)CTG>CTT	p.L585L	ADAM19_uc003lww.1_Silent_p.L318L|ADAM19_uc003lwy.2_Silent_p.L184L|ADAM19_uc011ddr.1_Silent_p.L516L	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	585	Extracellular (Potential).|Cys-rich.				proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CGTTGGACTCCAGGGGCCGGG	0.602													39	92	---	---	---	---	PASS	A	156920134	A	A	156920134	2	1	154	1	0	0	0	0	0	0	0	1	240	581	21	3		3	ADAM19	5	156920134	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	1	156920134	23995126	97	54785	984	2								
GABRA6	2559	broad.mit.edu	37	chr5	161117260	161117260	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgcaaaggaagatgggctacTtcatgatacagatatacact	9	7	1	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:161117260T>A	uc003lyu.2	+	7	1065	c.727T>A	c.(727-729)TTC>ATC	p.F243I	GABRA6_uc003lyv.2_Missense_Mutation_p.F14I	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	243	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GATGGGCTACTTCATGATACA	0.403										TCGA Ovarian(5;0.080)			38	171	---	---	---	---	PASS	A	161117260	A	A	161117260	3	1	154	1	0	0	0	0	1	0	0	0	6165	1609	56	5	753	5	GABRA6	5	161117260	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	4197126	161117260	19798000	98	54786										
PROP1	5626	broad.mit.edu	37	chr5	177419787	177419787	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gcagggcagatggccggcagGggctgggtgcaaggtagggt	22	7	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr5:177419787G>T	uc003mif.1	-	3	913	c.604C>A	c.(604-606)CCT>ACT	p.P202T		NM_006261	NP_006252	O75360	PROP1_HUMAN	PROP paired-like homeobox 1	202					central nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(89;0.00176)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGGCCGGCAGGGGCTGGGTGC	0.627													6	12	---	---	---	---	PASS	T	177419787	T	T	177419787	3	4	154	1	0	0	0	0	1	0	0	0	12557	1232	43	3	80	3	PROP1	5	177419787	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	16302527	177419787	3495473	99	54787										
NUP153	9972	broad.mit.edu	37	chr6	17669736	17669736	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctggtcacaccgtaagattgTgcactgagttgcttagcttt	10	9	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr6:17669736T>A	uc003ncd.1	-	6	1094	c.894A>T	c.(892-894)GCA>GCT	p.A298A	NUP153_uc011dje.1_Silent_p.A298A|NUP153_uc010jpl.1_Silent_p.A298A	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	298					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			CGTAAGATTGTGCACTGAGTT	0.368													27	120	---	---	---	---	PASS	A	17669736	A	A	17669736	2	1	154	1	0	0	0	0	0	0	0	1	10755	1683	59	5		5	NUP153	6	17669736	Silent	SNP	T	TCGA-66-2770-01A-01D-1522-08		17669736	153445331	100	54788										
ZKSCAN4	387032	broad.mit.edu	37	chr6	28213601	28213601	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	actccctatggcatttttctGctttctttgtaacctgccct	5	13	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr6:28213601G>A	uc003nks.1	-	5	1175	c.931C>T	c.(931-933)CAG>TAG	p.Q311*	ZKSCAN4_uc011dlb.1_Nonsense_Mutation_p.Q156*	NM_019110	NP_061983	Q969J2	ZKSC4_HUMAN	zinc finger with KRAB and SCAN domains 4	311	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GCATTTTTCTGCTTTCTTTGT	0.468													22	139	---	---	---	---	PASS	A	28213601	A	A	28213601	4	1	154	1	0	0	0	0	0	1	0	0	17686	1328	46	3	710	3	ZKSCAN4	6	28213601	Nonsense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	10543865	28213601	142901466	101	54789										
PBX2	5089	broad.mit.edu	37	chr6	32155870	32155870	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttccatctctttgggggccaCgggcctggtgcggctctgct	14	13	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr6:32155870C>A	uc003oav.1	-	4	878	c.607G>T	c.(607-609)GTG>TTG	p.V203L	PBX2_uc003oaw.2_Missense_Mutation_p.V203L	NM_002586	NP_002577	P40425	PBX2_HUMAN	pre-B-cell leukemia homeobox 2	203							transcription factor binding			ovary(1)	1						TTGGGGGCCACGGGCCTGGTG	0.592													3	16	---	---	---	---	PASS	A	32155870	A	A	32155870	3	1	154	1	0	0	0	0	1	0	0	0	11493	536	19	1	709	1	PBX2	6	32155870	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	3942269	32155870	138959197	102	54790										
COL9A1	1297	broad.mit.edu	37	chr6	70990709	70990709	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	atgctccaatcaacttaccgGggggcccggggggcccttag	14	13	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr6:70990709G>T	uc003pfg.3	-	9	1069	c.910C>A	c.(910-912)CCG>ACG	p.P304T	COL9A1_uc003pfe.3_5'Flank|COL9A1_uc003pff.3_Missense_Mutation_p.P61T	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	304	Triple-helical region (COL3).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						CAACTTACCGGGGGGCCCGGG	0.562													44	99	---	---	---	---	PASS	T	70990709	T	T	70990709	3	4	154	1	0	0	0	0	1	0	0	0	3707	1232	43	3	1975	3	COL9A1	6	70990709	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	38834839	70990709	100124358	103	54791										
COL12A1	1303	broad.mit.edu	37	chr6	75797406	75797406	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	caggacggccaggggggccaGggggacctcttgaacctgtg	18	11	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr6:75797406G>A	uc003phs.2	-	65	9234	c.9068C>T	c.(9067-9069)CCT>CTT	p.P3023L	COL12A1_uc003pht.2_Missense_Mutation_p.P1859L	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	3023	Triple-helical region (COL1) with 2 imperfections.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						AGGGGGGCCAGGGGGACCTCT	0.537													23	127	---	---	---	---	PASS	A	75797406	A	A	75797406	3	1	154	1	0	0	0	0	1	0	0	0	3669	1000	35	3	131	3	COL12A1	6	75797406	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	4806697	75797406	95317661	104	54792										
PHIP	55023	broad.mit.edu	37	chr6	79725400	79725400	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	attccaaactttcagagtcaTgttattaactgcagttataa	5	7	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr6:79725400T>C	uc003pir.2	-	14	1562	c.1336A>G	c.(1336-1338)ATG>GTG	p.M446V	PHIP_uc011dyp.1_Missense_Mutation_p.M446V	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	446	WD 6.				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)		TTCAGAGTCATGTTATTAACT	0.328													30	128	---	---	---	---	PASS	C	79725400	C	C	79725400	3	2	154	1	0	0	0	0	1	0	0	0	11842	1464	51	5	4237	5	PHIP	6	79725400	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	3927994	79725400	91389667	105	54793										
TAAR8	83551	broad.mit.edu	37	chr6	132873902	132873902	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gaatggatcttgtattgaaaCtccctattctcctgggtccc	8	11	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr6:132873902C>G	uc011ecj.1	+	1	71	c.71C>G	c.(70-72)ACT>AGT	p.T24S		NM_053278	NP_444508	Q969N4	TAAR8_HUMAN	trace amine associated receptor 8	24	Extracellular (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00412)|GBM - Glioblastoma multiforme(226;0.00792)		TGTATTGAAACTCCCTATTCT	0.428													38	214	---	---	---	---	PASS	G	132873902	G	G	132873902	3	3	154	1	0	0	0	0	1	0	0	0	15490	565	20	4	73	4	TAAR8	6	132873902	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	53148502	132873902	38241165	106	54794										
RPS12	6206	broad.mit.edu	37	chr6	133136222	133136222	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cgcgaagctgccaaagccttAgacaagtacgtgtatcagtc	10	11	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr6:133136222A>C	uc003qdx.2	+	3	208	c.126A>C	c.(124-126)TTA>TTC	p.L42F	RPS12_uc003qdy.1_5'Flank	NM_001016	NP_001007	P25398	RS12_HUMAN	ribosomal protein S12	42					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	structural constituent of ribosome				0	Breast(56;0.214)			OV - Ovarian serous cystadenocarcinoma(155;0.00284)|GBM - Glioblastoma multiforme(226;0.0256)		CCAAAGCCTTAGACAAGTACG	0.488													41	80	---	---	---	---	PASS	C	133136222	C	C	133136222	3	2	154	1	0	0	0	0	1	0	0	0	13622	417	15	5	132	5	RPS12	6	133136222	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	262320	133136222	37978845	107	54795										
KIAA1244	57221	broad.mit.edu	37	chr6	138655303	138655303	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tggcagtcatattcgacctgCtgctggactcttataggact	10	10	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr6:138655303C>T	uc003qhu.2	+	33	5320	c.5320C>T	c.(5320-5322)CTG>TTG	p.L1774L		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1774					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		ATTCGACCTGCTGCTGGACTC	0.552													6	35	---	---	---	---	PASS	T	138655303	T	T	138655303	2	4	154	1	0	0	0	0	0	0	0	1	8217	796	28	3		3	KIAA1244	6	138655303	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	5519081	138655303	32459764	108	54796										
HIVEP2	3097	broad.mit.edu	37	chr6	143093952	143093952	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccacttcttatagggtttccGacagacatcatagtcatacc	6	12	3	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr6:143093952G>A	uc003qjd.2	-	5	2667	c.1924C>T	c.(1924-1926)CGG>TGG	p.R642W		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	642					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		TAGGGTTTCCGACAGACATCA	0.453													42	182	---	---	---	---	PASS	A	143093952	A	A	143093952	3	1	154	1	0	0	0	0	1	0	0	0	7187	1057	37	2	5440	2	HIVEP2	6	143093952	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	4438649	143093952	28021115	109	54797										
GRM1	2911	broad.mit.edu	37	chr6	146480634	146480634	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccgagagaggcttcccaaggCtagagtggtggtctgcttct	14	10	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr6:146480634C>A	uc010khw.1	+	3	1321	c.851C>A	c.(850-852)GCT>GAT	p.A284D	GRM1_uc010khu.1_Missense_Mutation_p.A284D|GRM1_uc010khv.1_Missense_Mutation_p.A284D|GRM1_uc003qll.2_Missense_Mutation_p.A284D|GRM1_uc011edz.1_Missense_Mutation_p.A284D|GRM1_uc011eea.1_Missense_Mutation_p.A284D	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	284	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CTTCCCAAGGCTAGAGTGGTG	0.572													22	39	---	---	---	---	PASS	A	146480634	A	A	146480634	3	1	154	1	0	0	0	0	1	0	0	0	6796	797	28	3	857	3	GRM1	6	146480634	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	3386682	146480634	24634433	110	54798										
SYNE1	23345	broad.mit.edu	37	chr6	152676045	152676045	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgggatacctgatgggatcaCatcctctctggtgtgcagca	12	10	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr6:152676045C>A	uc010kiw.2	-	67	11277	c.10675G>T	c.(10675-10677)GTG>TTG	p.V3559L	SYNE1_uc003qot.3_Missense_Mutation_p.V3566L|SYNE1_uc003qou.3_Missense_Mutation_p.V3559L|SYNE1_uc010kja.1_Missense_Mutation_p.V264L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3559	HAT 7.|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)		GATGGGATCACATCCTCTCTG	0.557										HNSCC(10;0.0054)			36	241	---	---	---	---	PASS	A	152676045	A	A	152676045	3	1	154	1	0	0	0	0	1	0	0	0	15442	478	17	3	16111	3	SYNE1	6	152676045	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	6195411	152676045	18439022	111	54799										
MIOS	54468	broad.mit.edu	37	chr7	7612969	7612969	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tctacttgccactttaacaaGggatagtaatattattagat	6	6	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr7:7612969G>T	uc003srf.2	+	4	1171	c.863G>T	c.(862-864)AGG>ATG	p.R288M	MIOS_uc010ktp.1_Missense_Mutation_p.R288M	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	288	WD 5.										0						ACTTTAACAAGGGATAGTAAT	0.398													75	183	---	---	---	---	PASS	T	7612969	T	T	7612969	3	4	154	1	0	0	0	0	1	0	0	0	9589	1000	35	3	865	3	MIOS	7	7612969	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08		7612969	151525694	112	54800										
DNAH11	8701	broad.mit.edu	37	chr7	21598522	21598522	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aagtcatgaaaaagaagatgTatatttttaggggcaaaatg	10	2	1	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr7:21598522T>C	uc003svc.2	+	3	629	c.598T>C	c.(598-600)TAT>CAT	p.Y200H		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	200	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AAAGAAGATGTATATTTTTAG	0.363									Kartagener_syndrome				15	23	---	---	---	---	PASS	C	21598522	C	C	21598522	3	2	154	1	0	0	0	0	1	0	0	0	4599	1638	57	5	608	5	DNAH11	7	21598522	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	13985553	21598522	137540141	113	54801										
SKAP2	8935	broad.mit.edu	37	chr7	26729970	26729970	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cactttcactggagcactgtCctcttcttcttctgtaaata	5	12	5	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr7:26729970C>A	uc003syc.2	-	10	1101	c.808G>T	c.(808-810)GAC>TAC	p.D270Y	SKAP2_uc011jzi.1_Missense_Mutation_p.D98Y|SKAP2_uc011jzj.1_Missense_Mutation_p.D255Y	NM_003930	NP_003921	O75563	SKAP2_HUMAN	src kinase associated phosphoprotein 2	270					B cell activation|cell junction assembly|protein complex assembly|signal transduction	cytosol|plasma membrane	SH3/SH2 adaptor activity			pancreas(1)	1						GGAGCACTGTCCTCTTCTTCT	0.383													49	151	---	---	---	---	PASS	A	26729970	A	A	26729970	3	1	154	1	0	0	0	0	1	0	0	0	14356	855	30	2	283	2	SKAP2	7	26729970	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	5131448	26729970	132408693	114	54802										
TRIL	9865	broad.mit.edu	37	chr7	28997605	28997605	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	acacgggctcggcagcggcgGgagcgcgaggcagccgcaca	18	14	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr7:28997605G>T	uc003szt.2	-	1	425	c.58C>A	c.(58-60)CCG>ACG	p.P20T	uc003szu.1_5'Flank	NM_014817	NP_055632	Q7L0X0	TRIL_HUMAN	TLR4 interactor with leucine rich repeats	20					inflammatory response|innate immune response|regulation of cytokine production involved in immune response|toll-like receptor 4 signaling pathway	lipopolysaccharide receptor complex	lipopolysaccharide binding				0						GGCAGCGGCGGGAGCGCGAGG	0.731													14	16	---	---	---	---	PASS	T	28997605	T	T	28997605	3	4	154	1	0	0	0	0	1	0	0	0	16482	1232	43	3	2381	3	TRIL	7	28997605	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	2267635	28997605	130141058	115	54803										
PDE1C	5137	broad.mit.edu	37	chr7	31815290	31815290	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttacccacctggcaacgtaaGgcgacacgtggagctggtgc	13	12	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr7:31815290G>T	uc003tcm.1	-	17	2417	c.1948C>A	c.(1948-1950)CTT>ATT	p.L650I	PDE1C_uc003tcn.1_Missense_Mutation_p.L650I|PDE1C_uc003tco.1_Missense_Mutation_p.L710I	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	650					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			GGCAACGTAAGGCGACACGTG	0.488													21	33	---	---	---	---	PASS	T	31815290	T	T	31815290	3	4	154	1	0	0	0	0	1	0	0	0	11635	1015	35	3		3	PDE1C	7	31815290	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	2817685	31815290	127323373	116	54804										
PDE1C	5137	broad.mit.edu	37	chr7	31876849	31876849	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agcgatgatggaggtcccatGcttttgctggatggctaata	13	7	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr7:31876849G>T	uc003tcm.1	-	11	1617	c.1148C>A	c.(1147-1149)GCA>GAA	p.A383E	PDE1C_uc003tcn.1_Missense_Mutation_p.A383E|PDE1C_uc003tco.1_Missense_Mutation_p.A443E|PDE1C_uc003tcr.2_Missense_Mutation_p.A383E|PDE1C_uc003tcs.2_Missense_Mutation_p.A383E	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	383	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			GAGGTCCCATGCTTTTGCTGG	0.453													47	116	---	---	---	---	PASS	T	31876849	T	T	31876849	3	4	154	1	0	0	0	0	1	0	0	0	11635	1319	46	3	784	3	PDE1C	7	31876849	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	61559	31876849	127261814	117	54805										
WBSCR17	64409	broad.mit.edu	37	chr7	71130396	71130396	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgaaatctttgtacccctagGtatggctctgtgggggcagc	13	9	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr7:71130396G>C	uc003tvy.2	+	7	1081	c.1081G>C	c.(1081-1083)GTA>CTA	p.V361L	WBSCR17_uc003tvz.2_Missense_Mutation_p.V60L	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	361	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				GTACCCCTAGGTATGGCTCTG	0.502													61	169	---	---	---	---	PASS	C	71130396	C	C	71130396	3	2	154	1	0	0	0	0	1	0	0	0	17261	1275	44	4	1107	4	WBSCR17	7	71130396	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	39253547	71130396	88008267	118	54806										
SLC12A9	56996	broad.mit.edu	37	chr7	100459472	100459472	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gccctgcctctgctgcggttGgccaaccagcttaagaaggg	13	13	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr7:100459472G>C	uc003uwp.2	+	12	1792	c.1650G>C	c.(1648-1650)TTG>TTC	p.L550F	SLC12A9_uc003uwq.2_Missense_Mutation_p.L461F|SLC12A9_uc011kki.1_Missense_Mutation_p.L81F|SLC12A9_uc003uwr.2_Missense_Mutation_p.L286F|SLC12A9_uc003uws.2_Missense_Mutation_p.L81F|SLC12A9_uc003uwt.2_Missense_Mutation_p.L286F|SLC12A9_uc003uwv.2_Missense_Mutation_p.L81F	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	550	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					TGCTGCGGTTGGCCAACCAGC	0.657													17	27	---	---	---	---	PASS	C	100459472	C	C	100459472	3	2	154	1	0	0	0	0	1	0	0	0	14390	1339	47	4	1692	4	SLC12A9	7	100459472	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	29329076	100459472	58679191	119	54807										
KCND2	3751	broad.mit.edu	37	chr7	119915250	119915250	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	acgatggccctggtgttctaCtatgtcacggggtttttcat	11	9	3	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr7:119915250C>T	uc003vjj.1	+	1	1529	c.564C>T	c.(562-564)TAC>TAT	p.Y188Y		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	188	Helical; Name=Segment S1; (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TGGTGTTCTACTATGTCACGG	0.582													31	63	---	---	---	---	PASS	T	119915250	T	T	119915250	2	4	154	1	0	0	0	0	0	0	0	1	8019	576	20	3		3	KCND2	7	119915250	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	19455778	119915250	39223413	120	54808										
TRIM24	8805	broad.mit.edu	37	chr7	138252234	138252234	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tcttttttctagcaaccgccTccacgtttgataaactttca	4	12	3	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr7:138252234T>A	uc003vuc.2	+	10	1754	c.1539T>A	c.(1537-1539)CCT>CCA	p.P513P	TRIM24_uc003vub.2_Silent_p.P479P	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	513					cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						AGCAACCGCCTCCACGTTTGA	0.343													35	152	---	---	---	---	PASS	A	138252234	A	A	138252234	2	1	154	1	0	0	0	0	0	0	0	1	16495	1538	54	5		5	TRIM24	7	138252234	Silent	SNP	T	TCGA-66-2770-01A-01D-1522-08	18336984	138252234	20886429	121	54809										
EN2	2020	broad.mit.edu	37	chr7	155255319	155255319	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aacacgctggccgtgcacctCatggcacagggcttgtacaa	11	13	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr7:155255319C>G	uc003wmb.2	+	2	1188	c.939C>G	c.(937-939)CTC>CTG	p.L313L		NM_001427	NP_001418	P19622	HME2_HUMAN	engrailed homeobox 2	313						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CCGTGCACCTCATGGCACAGG	0.597													10	28	---	---	---	---	PASS	G	155255319	G	G	155255319	2	3	154	1	0	0	0	0	0	0	0	1	5110	813	29	2		2	EN2	7	155255319	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	17003085	155255319	3883344	122	54810										
USP17L2	377630	broad.mit.edu	37	chr8	11995293	11995293	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cgtcgtgacaactccacccaGcgtggaccagcacagcatag	10	15	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:11995293G>A	uc003wvc.1	-	1	977	c.977C>T	c.(976-978)GCT>GTT	p.A326V	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	326					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3						ACTCCACCCAGCGTGGACCAG	0.483													29	70	---	---	---	---	PASS	A	11995293	A	A	11995293	3	1	154	1	0	0	0	0	1	0	0	0	17045	971	34	3	619	3	USP17L2	8	11995293	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08		11995293	134368729	123	54811										
ADAMDEC1	27299	broad.mit.edu	37	chr8	24259593	24259593	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gtgggagaagactgtgattgTggctctcctaaggtattatt	13	5	1	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:24259593T>G	uc003xdz.2	+	12	1528	c.1308T>G	c.(1306-1308)TGT>TGG	p.C436W	ADAMDEC1_uc010lub.2_Missense_Mutation_p.C357W|ADAMDEC1_uc011lab.1_Missense_Mutation_p.C357W	NM_014479	NP_055294	O15204	ADEC1_HUMAN	ADAM-like, decysin 1 isoform 1	436	Disintegrin.				integrin-mediated signaling pathway|negative regulation of cell adhesion|proteolysis	extracellular region|integral to membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)	2		Prostate(55;0.0181)		Colorectal(74;0.016)|COAD - Colon adenocarcinoma(73;0.0646)|BRCA - Breast invasive adenocarcinoma(99;0.168)		ACTGTGATTGTGGCTCTCCTA	0.373													51	119	---	---	---	---	PASS	G	24259593	G	G	24259593	3	3	154	1	0	0	0	0	1	0	0	0	254	1702	59	5	1354	5	ADAMDEC1	8	24259593	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	12264300	24259593	122104429	124	54812										
PBK	55872	broad.mit.edu	37	chr8	27690580	27690580	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tctgctatcttaccagatttCtttttttctgataatttgct	4	8	4	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:27690580C>T	uc003xgi.2	-	2	252	c.51G>A	c.(49-51)AAG>AAA	p.K17K	PBK_uc011lap.1_Silent_p.K17K	NM_018492	NP_060962	Q96KB5	TOPK_HUMAN	PDZ binding kinase	17					mitosis		ATP binding|protein binding|protein serine/threonine kinase activity				0		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|KIRC - Kidney renal clear cell carcinoma(542;0.101)|Kidney(114;0.121)|Colorectal(74;0.141)		TACCAGATTTCTTTTTTTCTG	0.318													22	54	---	---	---	---	PASS	T	27690580	T	T	27690580	2	4	154	1	0	0	0	0	0	0	0	1	11488	912	32	2		2	PBK	8	27690580	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	3430987	27690580	118673442	125	54813										
TEX15	56154	broad.mit.edu	37	chr8	30706340	30706340	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cctcatttaagcctgcagtaCtactctgttctcccatactt	4	14	3	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:30706340C>G	uc003xil.2	-	1	194	c.194G>C	c.(193-195)AGT>ACT	p.S65T	TEX15_uc011lbc.1_Missense_Mutation_p.S452T	NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	65										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		GCCTGCAGTACTACTCTGTTC	0.398													65	176	---	---	---	---	PASS	G	30706340	G	G	30706340	3	3	154	1	0	0	0	0	1	0	0	0	15776	565	20	4	8191	4	TEX15	8	30706340	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	3015760	30706340	115657682	126	54814										
UNC5D	137970	broad.mit.edu	37	chr8	35542230	35542230	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggggccttttgtgagggaatGtcagtgcagaaaataacctg	14	6	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:35542230G>A	uc003xjr.1	+	6	1210	c.882G>A	c.(880-882)ATG>ATA	p.M294I	UNC5D_uc003xjs.1_Missense_Mutation_p.M289I|UNC5D_uc003xjt.1_Missense_Mutation_p.M63I	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	294	TSP type-1 1.|Extracellular (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		GTGAGGGAATGTCAGTGCAGA	0.498													53	152	---	---	---	---	PASS	A	35542230	A	A	35542230	3	1	154	1	0	0	0	0	1	0	0	0	16992	1377	48	3	904	3	UNC5D	8	35542230	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	4835890	35542230	110821792	127	54815										
FAM150A	389658	broad.mit.edu	37	chr8	53452398	53452398	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccaagttacttacaagctggCgttgagcactccctggtatt	9	11	0	1	rs147680673		TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:53452398C>G	uc003xrd.2	-	3	523	c.318G>C	c.(316-318)ACG>ACC	p.T106T	FAM150A_uc011ldt.1_Silent_p.T106T	NM_207413	NP_997296	Q6UXT8	F150A_HUMAN	hypothetical protein LOC389658 precursor	106						extracellular region					0		Lung NSC(129;0.0919)|all_epithelial(80;0.125)|all_lung(136;0.17)				TACAAGCTGGCGTTGAGCACT	0.388													22	55	---	---	---	---	PASS	G	53452398	G	G	53452398	2	3	154	1	0	0	0	0	0	0	0	1	5456	755	27	4		4	FAM150A	8	53452398	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	17910168	53452398	92911624	128	54816										
RP1	6101	broad.mit.edu	37	chr8	55541754	55541754	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tggcaatgcagacaccacatCagtggacaccctacttgata	8	12	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:55541754C>T	uc003xsd.1	+	4	5460	c.5312C>T	c.(5311-5313)TCA>TTA	p.S1771L	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1771					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GACACCACATCAGTGGACACC	0.438													14	100	---	---	---	---	PASS	T	55541754	T	T	55541754	3	4	154	1	0	0	0	0	1	0	0	0	13532	838	29	2	5322	2	RP1	8	55541754	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	2089356	55541754	90822268	129	54817										
NKAIN3	286183	broad.mit.edu	37	chr8	63659609	63659609	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tggcatgatggacgattacaCgtacgtctctgtcacaggct	11	10	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:63659609C>A	uc010lyq.1	+	4	524	c.392C>A	c.(391-393)ACG>AAG	p.T131K		NM_173688	NP_775959	Q8N8D7	NKAI3_HUMAN	Na+/K+ transporting ATPase interacting 3	131						integral to membrane|plasma membrane					0	Breast(64;0.127)	Lung NSC(129;0.187)				GACGATTACACGTACGTCTCT	0.498													29	51	---	---	---	---	PASS	A	63659609	A	A	63659609	3	1	154	1	0	0	0	0	1	0	0	0	10437	536	19	1	406	1	NKAIN3	8	63659609	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	8117855	63659609	82704413	130	54818										
VCPIP1	80124	broad.mit.edu	37	chr8	67578617	67578617	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cttaatgtcctccagagtgtCatgcaaatacaggaggcttc	9	10	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:67578617C>T	uc003xwn.2	-	1	836	c.577G>A	c.(577-579)GAC>AAC	p.D193N	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	193					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			TCCAGAGTGTCATGCAAATAC	0.542													35	258	---	---	---	---	PASS	T	67578617	T	T	67578617	3	4	154	1	0	0	0	0	1	0	0	0	17138	826	29	2	3103	2	VCPIP1	8	67578617	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	3919008	67578617	78785405	131	54819										
TRPA1	8989	broad.mit.edu	37	chr8	72958829	72958829	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aatggacattgaagatatttGaaattatactcgatctgtag	8	4	1	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:72958829G>A	uc003xza.2	-	17	2155	c.1980C>T	c.(1978-1980)TTC>TTT	p.F660F	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	660	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GAAGATATTTGAAATTATACT	0.299													50	124	---	---	---	---	PASS	A	72958829	A	A	72958829	2	1	154	1	0	0	0	0	0	0	0	1	16574	1281	45	2		2	TRPA1	8	72958829	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	5380212	72958829	73405193	132	54820										
TRPA1	8989	broad.mit.edu	37	chr8	72964929	72964929	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgcttgttcaggactatgtcAgcattgtggctcagaagaag	12	7	3	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:72964929A>T	uc003xza.2	-	14	1891	c.1716T>A	c.(1714-1716)GCT>GCA	p.A572A	uc011lff.1_RNA|uc003xyy.2_RNA	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	572	Cytoplasmic (Potential).|ANK 14.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GGACTATGTCAGCATTGTGGC	0.473													57	170	---	---	---	---	PASS	T	72964929	T	T	72964929	2	4	154	1	0	0	0	0	0	0	0	1	16574	175	7	5		5	TRPA1	8	72964929	Silent	SNP	A	TCGA-66-2770-01A-01D-1522-08	6100	72964929	73399093	133	54821										
CNGB3	54714	broad.mit.edu	37	chr8	87680338	87680338	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttgaaccacaacagcctgtaGtaatgttctgttggcttatc	8	9	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:87680338G>A	uc003ydx.2	-	5	598	c.552C>T	c.(550-552)TAC>TAT	p.Y184Y	CNGB3_uc010maj.2_Silent_p.Y46Y	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	184	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						ACAGCCTGTAGTAATGTTCTG	0.368													85	170	---	---	---	---	PASS	A	87680338	A	A	87680338	2	1	154	1	0	0	0	0	0	0	0	1	3601	1024	36	3		3	CNGB3	8	87680338	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	14715409	87680338	58683684	134	54822										
INTS8	55656	broad.mit.edu	37	chr8	95888702	95888702	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cataaaagaggagaaacagaTaaaagacaaattgcagtaag	9	4	0	4			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:95888702T>C	uc003yhb.2	+	26	2982	c.2856T>C	c.(2854-2856)GAT>GAC	p.D952D	INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Silent_p.D762D	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	952					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					GAGAAACAGATAAAAGACAAA	0.284													23	73	---	---	---	---	PASS	C	95888702	C	C	95888702	2	2	154	1	0	0	0	0	0	0	0	1	7784	1403	49	5		5	INTS8	8	95888702	Silent	SNP	T	TCGA-66-2770-01A-01D-1522-08	8208364	95888702	50475320	135	54823										
DPYS	1807	broad.mit.edu	37	chr8	105405020	105405020	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tggcacactcacccggtctcGctgctttattcgtttgtaaa	8	12	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:105405020G>A	uc003yly.3	-	8	1564	c.1435C>T	c.(1435-1437)CGA>TGA	p.R479*	DPYS_uc010mcf.1_Nonsense_Mutation_p.R49*	NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	479					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			ACCCGGTCTCGCTGCTTTATT	0.478													99	281	---	---	---	---	PASS	A	105405020	A	A	105405020	4	1	154	1	0	0	0	0	0	1	0	0	4746	1095	38	1	132	1	DPYS	8	105405020	Nonsense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	9516318	105405020	40959002	136	54824										
KCNQ3	3786	broad.mit.edu	37	chr8	133153486	133153486	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tagaaggactttcttctatgGcatctacattcagaggggta	10	7	4	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:133153486G>A	uc003ytj.2	-	10	1580	c.1355C>T	c.(1354-1356)GCC>GTC	p.A452V	KCNQ3_uc010mdt.2_Missense_Mutation_p.A452V	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	452					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			TTCTTCTATGGCATCTACATT	0.458													63	182	---	---	---	---	PASS	A	133153486	A	A	133153486	3	1	154	1	0	0	0	0	1	0	0	0	8084	1203	42	3	1287	3	KCNQ3	8	133153486	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	27748466	133153486	13210536	137	54825										
FAM135B	51059	broad.mit.edu	37	chr8	139163563	139163563	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aagagaatccagccctggcaGgggtctccttgggcacagat	13	11	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr8:139163563G>T	uc003yuy.2	-	13	3326	c.3155C>A	c.(3154-3156)CCT>CAT	p.P1052H	FAM135B_uc003yux.2_Missense_Mutation_p.P953H|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.P614H|FAM135B_uc003yvb.2_Missense_Mutation_p.P614H	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1052										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)			AGCCCTGGCAGGGGTCTCCTT	0.522										HNSCC(54;0.14)			40	72	---	---	---	---	PASS	T	139163563	T	T	139163563	3	4	154	1	0	0	0	0	1	0	0	0	5449	1000	35	3	1097	3	FAM135B	8	139163563	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	6010077	139163563	7200459	138	54826										
ADAMTSL1	92949	broad.mit.edu	37	chr9	18777764	18777764	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gcccagcagctctcagcctcGgaggtggtcacccacctggg	13	16	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr9:18777764G>T	uc003zne.3	+	19	3664	c.3537G>T	c.(3535-3537)TCG>TCT	p.S1179S		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	1179	Ig-like C2-type 2.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		TCTCAGCCTCGGAGGTGGTCA	0.677													15	14	---	---	---	---	PASS	T	18777764	T	T	18777764	2	4	154	1	0	0	0	0	0	0	0	1	274	1103	39	1		1	ADAMTSL1	9	18777764	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08		18777764	122435667	139	54827										
KLHL9	55958	broad.mit.edu	37	chr9	21334855	21334855	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gccgttaccaagggacacttTcatgtgaaagctttcctctt	8	11	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr9:21334855T>C	uc003zoy.2	-	1	575	c.4A>G	c.(4-6)AAA>GAA	p.K2E	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	2					cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		AGGGACACTTTCATGTGAAAG	0.468													51	62	---	---	---	---	PASS	C	21334855	C	C	21334855	3	2	154	1	0	0	0	0	1	0	0	0	8396	1792	62	5	1853	5	KLHL9	9	21334855	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	2557091	21334855	119878576	140	54828										
PAX5	5079	broad.mit.edu	37	chr9	37020777	37020777	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cattcacaaaaacccccccaAgctgattcactcctccatgt	3	17	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr9:37020777A>G	uc003zzo.1	-	2	516	c.68T>C	c.(67-69)CTT>CCT	p.L23P	PAX5_uc011lpw.1_Missense_Mutation_p.L23P|PAX5_uc011lpx.1_Missense_Mutation_p.L23P|PAX5_uc011lpy.1_Intron|PAX5_uc010mls.1_Missense_Mutation_p.L23P|PAX5_uc011lpz.1_Missense_Mutation_p.L23P|PAX5_uc011lqa.1_Intron|PAX5_uc010mlq.1_RNA|PAX5_uc011lqb.1_RNA|PAX5_uc010mlo.1_Missense_Mutation_p.L23P|PAX5_uc010mlp.1_Missense_Mutation_p.L23P|PAX5_uc011lqc.1_Missense_Mutation_p.L23P|PAX5_uc010mlr.1_Missense_Mutation_p.L23P|PAX5_uc011lqd.1_Missense_Mutation_p.L22P|PAX5_uc011lqe.1_Intron|PAX5_uc011lqf.1_Intron|PAX5_uc011lqg.1_Intron	NM_016734	NP_057953	Q02548	PAX5_HUMAN	paired box 5	23	Paired.				cell differentiation|humoral immune response|nervous system development|organ morphogenesis|spermatogenesis|transcription from RNA polymerase II promoter	nucleus	DNA binding	p.?(31)	PAX5/JAK2(18)	haematopoietic_and_lymphoid_tissue(142)|lung(3)|central_nervous_system(2)	147		all_cancers(2;3.46e-10)|Acute lymphoblastic leukemia(2;7.09e-56)|all_hematologic(2;6.65e-44)		GBM - Glioblastoma multiforme(29;0.0108)		AACCCCCCCAAGCTGATTCAC	0.527			T|Mis|D|F|S	IGH@|ETV6|PML|FOXP1|ZNF521|ELN	NHL|ALL|B-ALL								59	62	---	---	---	---	PASS	G	37020777	G	G	37020777	3	3	154	1	0	0	0	0	1	0	0	0	11482	72	3	5	1143	5	PAX5	9	37020777	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	15685922	37020777	104192654	141	54829										
C9orf79	286234	broad.mit.edu	37	chr9	90503380	90503380	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agcagagttgtgggacaaatCctggtggacaaactggggct	15	7	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr9:90503380C>A	uc004app.3	+	4	4013	c.3978C>A	c.(3976-3978)ATC>ATA	p.I1326I		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	1326						integral to membrane				ovary(3)	3						TGGGACAAATCCTGGTGGACA	0.587													25	64	---	---	---	---	PASS	A	90503380	A	A	90503380	2	1	154	1	0	0	0	0	0	0	0	1	2497	845	30	2		2	C9orf79	9	90503380	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	53482603	90503380	50710051	142	54830										
MURC	347273	broad.mit.edu	37	chr9	103340507	103340507	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttacagaagatgaagaccaaGacgctgctcttaccattgtg	9	9	1	5			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr9:103340507G>T	uc004bba.2	+	1	172	c.82G>T	c.(82-84)GAC>TAC	p.D28Y		NM_001018116	NP_001018126	Q5BKX8	MURC_HUMAN	muscle-related coiled-coil protein	28					cell differentiation|muscle organ development|transcription, DNA-dependent					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0461)				TGAAGACCAAGACGCTGCTCT	0.448													66	106	---	---	---	---	PASS	T	103340507	T	T	103340507	3	4	154	1	0	0	0	0	1	0	0	0	9987	942	33	2	84	2	MURC	9	103340507	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	12837127	103340507	37872924	143	54831										
SVEP1	79987	broad.mit.edu	37	chr9	113139637	113139637	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccccattctgacatggaaatCgacagacagctggaaaagaa	9	10	1	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr9:113139637C>A	uc010mtz.2	-	45	10755	c.10418G>T	c.(10417-10419)CGA>CTA	p.R3473L	SVEP1_uc010mty.2_Missense_Mutation_p.R1399L	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	3473					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						ACATGGAAATCGACAGACAGC	0.478													45	63	---	---	---	---	PASS	A	113139637	A	A	113139637	3	1	154	1	0	0	0	0	1	0	0	0	15417	884	31	2	313	2	SVEP1	9	113139637	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	9799130	113139637	28073794	144	54832										
SVEP1	79987	broad.mit.edu	37	chr9	113228155	113228155	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctttgataacctccacatgcAgaaatgttcacggctcctct	6	13	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr9:113228155A>G	uc010mtz.2	-	18	3649	c.3312T>C	c.(3310-3312)TCT>TCC	p.S1104S	SVEP1_uc010mua.1_Silent_p.S1104S	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1104					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						CTCCACATGCAGAAATGTTCA	0.433													11	42	---	---	---	---	PASS	G	113228155	G	G	113228155	2	3	154	1	0	0	0	0	0	0	0	1	15417	175	7	5		5	SVEP1	9	113228155	Silent	SNP	A	TCGA-66-2770-01A-01D-1522-08	88518	113228155	27985276	145	54833										
CAMSAP1	157922	broad.mit.edu	37	chr9	138713130	138713130	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agtgcgggagcgtctctacaCtgggcgttggggttttactt	15	8	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr9:138713130C>T	uc004cgr.3	-	11	3377	c.3377G>A	c.(3376-3378)AGT>AAT	p.S1126N	CAMSAP1_uc004cgq.3_Missense_Mutation_p.S1016N|CAMSAP1_uc010nbg.2_Missense_Mutation_p.S848N	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1126						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		CGTCTCTACACTGGGCGTTGG	0.657													50	93	---	---	---	---	PASS	T	138713130	T	T	138713130	3	4	154	1	0	0	0	0	1	0	0	0	2611	565	20	3	1459	3	CAMSAP1	9	138713130	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	25484975	138713130	2500301	146	54834										
NOTCH1	4851	broad.mit.edu	37	chr9	139397638	139397638	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	atggggccacacttactctgCacggcctcgatcttgtaggg	12	12	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr9:139397638C>A	uc004chz.2	-	27	5163	c.5163G>T	c.(5161-5163)GTG>GTT	p.V1721V	NOTCH1_uc004cia.1_Silent_p.V951V	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1721	Extracellular (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.V1722>ARWGSLNIPYLIEA(1)|p.A1721_V1722>YG(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		ACTTACTCTGCACGGCCTCGA	0.662			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			24	37	---	---	---	---	PASS	A	139397638	A	A	139397638	2	1	154	1	0	0	0	0	0	0	0	1	10547	697	25	3		3	NOTCH1	9	139397638	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	684508	139397638	1815793	147	54835										
FRMD4A	55691	broad.mit.edu	37	chr10	13838563	13838563	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	atgttccaatactcttcgatCtagctgaagccagtttaagt	7	9	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr10:13838563C>A	uc001ims.2	-	5	584	c.232G>T	c.(232-234)GAT>TAT	p.D78Y	FRMD4A_uc009xjf.1_Missense_Mutation_p.D78Y|FRMD4A_uc001imt.1_Missense_Mutation_p.D111Y|FRMD4A_uc001imu.1_Missense_Mutation_p.D94Y	NM_018027	NP_060497	Q9P2Q2	FRM4A_HUMAN	FERM domain containing 4A	78	FERM.					cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3						ACTCTTCGATCTAGCTGAAGC	0.393													77	101	---	---	---	---	PASS	A	13838563	A	A	13838563	3	1	154	1	0	0	0	0	1	0	0	0	6051	913	32	2	2967	2	FRMD4A	10	13838563	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08		13838563	121696184	148	54836										
SLC39A12	221074	broad.mit.edu	37	chr10	18292244	18292244	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgttcaagactggatcttcaCagtcactgctgggatgttct	10	9	5	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr10:18292244C>T	uc001ipo.2	+	12	2177	c.1904C>T	c.(1903-1905)ACA>ATA	p.T635I	SLC39A12_uc001ipn.2_Missense_Mutation_p.T598I|SLC39A12_uc001ipp.2_Missense_Mutation_p.T634I|SLC39A12_uc010qck.1_Missense_Mutation_p.T501I|uc001ipq.1_RNA	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	635	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						TGGATCTTCACAGTCACTGCT	0.398													94	150	---	---	---	---	PASS	T	18292244	T	T	18292244	3	4	154	1	0	0	0	0	1	0	0	0	14615	478	17	3	1946	3	SLC39A12	10	18292244	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	4453681	18292244	117242503	149	54837										
PTCHD3	374308	broad.mit.edu	37	chr10	27703181	27703181	+	Translation_Start_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgggctccacccacggcattGattcttcctcttaggaagcg	10	13	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr10:27703181G>C	uc001itu.2	-	1	117	c.-1C>G	c.(-3-1)ATCAA>ATGAA			NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3						spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CCACGGCATTGATTCTTCCTC	0.637													30	47	---	---	---	---	PASS	C	27703181	C	C	27703181	1	2	154	1	0	0	0	0	0	0	0	0	12734	1305	45	2		2	PTCHD3	10	27703181	Translation_Start_Site	SNP	G	TCGA-66-2770-01A-01D-1522-08	9410937	27703181	107831566	150	54838										
SORCS3	22986	broad.mit.edu	37	chr10	106849548	106849548	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cccaggtcggtggccggattGgataaggaggcggacctggt	18	9	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr10:106849548G>T	uc001kyi.1	+	6	1271	c.1044G>T	c.(1042-1044)TTG>TTT	p.L348F		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	348	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		TGGCCGGATTGGATAAGGAGG	0.587													31	22	---	---	---	---	PASS	T	106849548	T	T	106849548	3	4	154	1	0	0	0	0	1	0	0	0	14932	1339	47	3	1066	3	SORCS3	10	106849548	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	79146367	106849548	28685199	151	54839										
PNLIP	5406	broad.mit.edu	37	chr10	118321063	118321063	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gggacttgcagatggttaaaTttatttggtataacaatgtg	11	3	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr10:118321063T>C	uc001lcm.2	+	12	1292	c.1249T>C	c.(1249-1251)TTT>CTT	p.F417L		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	417	PLAT.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	GATGGTTAAATTTATTTGGTA	0.368													60	92	---	---	---	---	PASS	C	118321063	C	C	118321063	3	2	154	1	0	0	0	0	1	0	0	0	12149	1493	52	5	1291	5	PNLIP	10	118321063	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	11471515	118321063	17213684	152	54840										
SEC23IP	11196	broad.mit.edu	37	chr10	121662509	121662509	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	actctttgaatcttgaagaaAtctataattcaggtaaacat	5	6	4	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr10:121662509A>G	uc001leu.1	+	3	967	c.895A>G	c.(895-897)ATC>GTC	p.I299V	SEC23IP_uc010qtc.1_Missense_Mutation_p.I88V	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	299	Interaction with SEC23A.				Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		TCTTGAAGAAATCTATAATTC	0.358													32	37	---	---	---	---	PASS	G	121662509	G	G	121662509	3	3	154	1	0	0	0	0	1	0	0	0	13993	101	4	5	905	5	SEC23IP	10	121662509	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	3341446	121662509	13872238	153	54841										
B4GALNT4	338707	broad.mit.edu	37	chr11	376311	376311	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggggatgaggatgaagaagaCgaggtgcagcgccgagcctt	18	7	0	4			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:376311C>T	uc001lpb.2	+	13	1266	c.1257C>T	c.(1255-1257)GAC>GAT	p.D419D		NM_178537	NP_848632	Q76KP1	B4GN4_HUMAN	beta	419	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			pancreas(1)	1		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		ATGAAGAAGACGAGGTGCAGC	0.647													4	74	---	---	---	---	PASS	T	376311	T	T	376311	2	4	154	1	0	0	0	0	0	0	0	1	1269	535	19	1		1	B4GALNT4	11	376311	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08		376311	134630205	154	54842										
HBE1	3046	broad.mit.edu	37	chr11	5289715	5289715	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gaactcagtggtacttatggGccagggcaatggcgacagca	14	9	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:5289715G>A	uc001mal.1	-	3	681	c.428C>T	c.(427-429)GCC>GTC	p.A143V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Missense_Mutation_p.A143V	NM_005330	NP_005321	P02100	HBE_HUMAN	epsilon globin	143				A -> G (in Ref. 5; AA sequence).	blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.34e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTACTTATGGGCCAGGGCAAT	0.552													41	157	---	---	---	---	PASS	A	5289715	A	A	5289715	3	1	154	1	0	0	0	0	1	0	0	0	6980	1203	42	3	19	3	HBE1	11	5289715	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	4913404	5289715	129716801	155	54843										
OR52N5	390075	broad.mit.edu	37	chr11	5798965	5798965	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tttgtctttactccataaacAatagggtttagagttggggg	11	5	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:5798965A>T	uc010qzn.1	-	1	900	c.900T>A	c.(898-900)ATT>ATA	p.I300I	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001922	NP_001001922	Q8NH56	O52N5_HUMAN	olfactory receptor, family 52, subfamily N,	300	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		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)		CTCCATAAACAATAGGGTTTA	0.423													84	165	---	---	---	---	PASS	T	5798965	T	T	5798965	2	4	154	1	0	0	0	0	0	0	0	1	11130	126	5	5		5	OR52N5	11	5798965	Silent	SNP	A	TCGA-66-2770-01A-01D-1522-08	509250	5798965	129207551	156	54844										
USH1C	10083	broad.mit.edu	37	chr11	17544427	17544427	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gccgctgcagctcacgctgcCgcgcctctgccagccgctcc	11	21	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:17544427C>T	uc001mnf.2	-	12	1032	c.923G>A	c.(922-924)CGG>CAG	p.R308Q	USH1C_uc001mne.2_Missense_Mutation_p.R308Q|USH1C_uc009yhb.2_Missense_Mutation_p.R289Q|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_Missense_Mutation_p.R272Q	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	308					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						CTCACGCTGCCGCGCCTCTGC	0.657													2	1	---	---	---	---	PASS	T	17544427	T	T	17544427	3	4	154	1	0	0	0	0	1	0	0	0	17031	652	23	1	1918	1	USH1C	11	17544427	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	11745462	17544427	117462089	157	54845										
E2F8	79733	broad.mit.edu	37	chr11	19247348	19247348	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gttttctttaccagacaaaaTggactctgcccccagggatg	9	11	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:19247348T>C	uc001mpm.2	-	11	2479	c.1957A>G	c.(1957-1959)ATT>GTT	p.I653V	E2F8_uc009yhv.2_RNA|E2F8_uc001mpn.3_Missense_Mutation_p.I653V	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	653					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						CCAGACAAAATGGACTCTGCC	0.458													92	326	---	---	---	---	PASS	C	19247348	C	C	19247348	3	2	154	1	0	0	0	0	1	0	0	0	4873	1464	51	5	658	5	E2F8	11	19247348	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	1702921	19247348	115759168	158	54846										
ANO3	63982	broad.mit.edu	37	chr11	26538428	26538428	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aaattcacattccatgggacAcgctgtgcaagtatgcagag	10	9	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:26538428A>C	uc001mqt.3	+	6	791	c.646A>C	c.(646-648)ACG>CCG	p.T216P	ANO3_uc010rdr.1_Missense_Mutation_p.T200P|ANO3_uc010rds.1_Missense_Mutation_p.T70P|ANO3_uc010rdt.1_Missense_Mutation_p.T70P	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	216	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TCCATGGGACACGCTGTGCAA	0.358													43	122	---	---	---	---	PASS	C	26538428	C	C	26538428	3	2	154	1	0	0	0	0	1	0	0	0	698	159	6	5	668	5	ANO3	11	26538428	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	7291080	26538428	108468088	159	54847										
C11orf41	25758	broad.mit.edu	37	chr11	33667414	33667414	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gccttcagcctggcatccgcGggccacgcaggccagagccg	14	17	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:33667414G>A	uc001mup.3	+	16	4843	c.4719G>A	c.(4717-4719)GCG>GCA	p.A1573A		NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	1567						integral to membrane				ovary(2)	2						TGGCATCCGCGGGCCACGCAG	0.677													21	32	---	---	---	---	PASS	A	33667414	A	A	33667414	2	1	154	1	0	0	0	0	0	0	0	1	1640	1103	39	1		1	C11orf41	11	33667414	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	7128986	33667414	101339102	160	54848										
OR4C13	283092	broad.mit.edu	37	chr11	49974139	49974139	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gccagcccatcactgagatcCcccatgtactttttcctggc	7	16	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:49974139C>A	uc010rhz.1	+	1	165	c.165C>A	c.(163-165)TCC>TCA	p.S55S		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						CACTGAGATCCCCCATGTACT	0.423													201	368	---	---	---	---	PASS	A	49974139	A	A	49974139	2	1	154	1	0	0	0	0	0	0	0	1	11047	610	22	3		3	OR4C13	11	49974139	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	16306725	49974139	85032377	161	54849										
OR10AG1	282770	broad.mit.edu	37	chr11	55735597	55735597	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	caaaggcttacaaatagccaCgtagcggtcataggccatca	9	11	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:55735597C>A	uc010rit.1	-	1	343	c.343G>T	c.(343-345)GTG>TTG	p.V115L		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	115	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					CAAATAGCCACGTAGCGGTCA	0.418													40	78	---	---	---	---	PASS	A	55735597	A	A	55735597	3	1	154	1	0	0	0	0	1	0	0	0	10897	536	19	1	565	1	OR10AG1	11	55735597	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	5761458	55735597	79270919	162	54850										
OR5J2	282775	broad.mit.edu	37	chr11	55944287	55944287	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	catgtactttttactcagctGtctttcatttgtggatgcct	7	9	3	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:55944287G>A	uc010rjb.1	+	1	194	c.194G>A	c.(193-195)TGT>TAT	p.C65Y		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					TTACTCAGCTGTCTTTCATTT	0.443													65	301	---	---	---	---	PASS	A	55944287	A	A	55944287	3	1	154	1	0	0	0	0	1	0	0	0	11165	1377	48	3	196	3	OR5J2	11	55944287	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	208690	55944287	79062229	163	54851										
OR5J2	282775	broad.mit.edu	37	chr11	55944701	55944701	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gttgttgctgttaaccttctCcggagtcattgccatggcca	10	11	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:55944701C>A	uc010rjb.1	+	1	608	c.608C>A	c.(607-609)TCC>TAC	p.S203Y		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	203	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					TTAACCTTCTCCGGAGTCATT	0.463													25	146	---	---	---	---	PASS	A	55944701	A	A	55944701	3	1	154	1	0	0	0	0	1	0	0	0	11165	855	30	2	610	2	OR5J2	11	55944701	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	414	55944701	79061815	164	54852										
LRTOMT	220074	broad.mit.edu	37	chr11	71806464	71806464	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctgtcccgtatcaccacgttCgacttcagtggggtcaccaa	9	14	3	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:71806464C>T	uc001orr.2	+	6	855	c.477C>T	c.(475-477)TTC>TTT	p.F159F	LRTOMT_uc009ysz.2_RNA|LRTOMT_uc010rqt.1_3'UTR|LRTOMT_uc010rqu.1_Silent_p.F141F|LRTOMT_uc009yta.2_RNA|LRTOMT_uc010rqv.1_Intron|LRTOMT_uc010rqw.1_Intron|LRTOMT_uc001ors.3_Intron|LRTOMT_uc010rqs.1_Intron	NM_145309	NP_660352	Q96E66	LRC51_HUMAN	leucine rich transmembrane and	159	LRRCT.					cytoplasm					0						TCACCACGTTCGACTTCAGTG	0.567													9	62	---	---	---	---	PASS	T	71806464	T	T	71806464	2	4	154	1	0	0	0	0	0	0	0	1	9046	883	31	2		2	LRTOMT	11	71806464	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	15861763	71806464	63200052	165	54853										
CASP4	837	broad.mit.edu	37	chr11	104825645	104825645	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccagttcagtacattttgttCcaccaagttatccaaaacac	4	12	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:104825645C>G	uc001pid.1	-	2	164	c.91G>C	c.(91-93)GAA>CAA	p.E31Q	CASP4_uc001pib.1_5'UTR|CASP4_uc009yxg.1_5'UTR|CASP4_uc010rux.1_Missense_Mutation_p.E31Q|CASP4_uc010ruy.1_Missense_Mutation_p.E31Q	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor	31	CARD.				apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		ACATTTTGTTCCACCAAGTTA	0.398													26	202	---	---	---	---	PASS	G	104825645	G	G	104825645	3	3	154	1	0	0	0	0	1	0	0	0	2673	864	30	2	1070	2	CASP4	11	104825645	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	33019181	104825645	30180871	166	54854										
ACAT1	38	broad.mit.edu	37	chr11	108010931	108010931	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgaagttattcctgtcacagTtacagtaaaaggtagagata	9	5	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:108010931T>A	uc001pjy.2	+	7	795	c.719T>A	c.(718-720)GTT>GAT	p.V240D	ACAT1_uc001pjx.2_Missense_Mutation_p.V114D	NM_000019	NP_000010	P24752	THIL_HUMAN	acetyl-Coenzyme A acetyltransferase 1 precursor	240					acetoacetic acid biosynthetic process|branched chain family amino acid catabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	acetyl-CoA C-acetyltransferase activity|metal ion binding			ovary(3)	3		all_cancers(61;6.41e-10)|all_epithelial(67;2.83e-06)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;2.96e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.00108)|OV - Ovarian serous cystadenocarcinoma(223;0.192)	Sulfasalazine(DB00795)	CCTGTCACAGTTACAGTAAAA	0.343													49	92	---	---	---	---	PASS	A	108010931	A	A	108010931	3	1	154	1	0	0	0	0	1	0	0	0	121	1725	60	5	745	5	ACAT1	11	108010931	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	3185286	108010931	26995585	167	54855										
ABCG4	64137	broad.mit.edu	37	chr11	119029409	119029409	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	catgctgttcctcatgttcgCcgccctcatgccaactgtgc	8	16	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:119029409C>T	uc001pvs.2	+	11	1646	c.1310C>T	c.(1309-1311)GCC>GTC	p.A437V	ABCG4_uc009zar.2_Missense_Mutation_p.A437V	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	437	Helical; Name=2; (Potential).|ABC transmembrane type-2.				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		CTCATGTTCGCCGCCCTCATG	0.627													54	92	---	---	---	---	PASS	T	119029409	T	T	119029409	3	4	154	1	0	0	0	0	1	0	0	0	70	739	26	3	1348	3	ABCG4	11	119029409	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	11018478	119029409	15977107	168	54856										
OR6T1	219874	broad.mit.edu	37	chr11	123814097	123814097	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggacccagaggaatccagctAgccaggaggccagcactagt	13	12	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr11:123814097A>G	uc010sab.1	-	1	449	c.449T>C	c.(448-450)CTA>CCA	p.L150P		NM_001005187	NP_001005187	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		GAATCCAGCTAGCCAGGAGGC	0.562													14	38	---	---	---	---	PASS	G	123814097	G	G	123814097	3	3	154	1	0	0	0	0	1	0	0	0	11210	420	15	5	525	5	OR6T1	11	123814097	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	4784688	123814097	11192419	169	54857										
CD163	9332	broad.mit.edu	37	chr12	7649613	7649613	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cttgcatgccacagcagcatCgtaactgtcccagccgtcat	8	15	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr12:7649613C>G	uc001qsz.3	-	5	1023	c.895G>C	c.(895-897)GAT>CAT	p.D299H	CD163_uc001qta.3_Missense_Mutation_p.D299H|CD163_uc009zfw.2_Missense_Mutation_p.D299H	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	299	SRCR 3.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						ACAGCAGCATCGTAACTGTCC	0.502													22	103	---	---	---	---	PASS	G	7649613	G	G	7649613	3	3	154	1	0	0	0	0	1	0	0	0	2967	884	31	2	2623	2	CD163	12	7649613	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08		7649613	126202282	170	54858										
LST-3TM12	338821	broad.mit.edu	37	chr12	21205156	21205156	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	acttacctgtcaccttgtctAgcaggatgcaaatcttcaag	7	11	4	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr12:21205156A>G	uc010sin.1	+	9	1317	c.1317A>G	c.(1315-1317)CTA>CTG	p.L439L	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Silent_p.L486L	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	439						membrane	transporter activity				0						CACCTTGTCTAGCAGGATGCA	0.363													26	183	---	---	---	---	PASS	G	21205156	G	G	21205156	2	3	154	1	0	0	0	0	0	0	0	1	9066	407	15	5		5	LST-3TM12	12	21205156	Silent	SNP	A	TCGA-66-2770-01A-01D-1522-08	13555543	21205156	112646739	171	54859										
C12orf77	196415	broad.mit.edu	37	chr12	25147249	25147249	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctttatatgaaaattgtcatAgcatgatgtaggctgattta	8	4	1	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr12:25147249A>T	uc001rgf.2	-	4	625	c.420T>A	c.(418-420)GCT>GCA	p.A140A		NM_001101339	NP_001094809	C9JDV5	CL097_HUMAN	hypothetical protein LOC196415	140											0						AAATTGTCATAGCATGATGTA	0.343													7	18	---	---	---	---	PASS	T	25147249	T	T	25147249	2	4	154	1	0	0	0	0	0	0	0	1	1716	407	15	5		5	C12orf77	12	25147249	Silent	SNP	A	TCGA-66-2770-01A-01D-1522-08	3942093	25147249	108704646	172	54860										
MIP	4284	broad.mit.edu	37	chr12	56848169	56848169	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cagggacatctgggagcccaCaaggaaagcaaaagtgactg	13	9	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr12:56848169C>A	uc001slh.2	-	1	261	c.229G>T	c.(229-231)GTG>TTG	p.V77L		NM_012064	NP_036196	P30301	MIP_HUMAN	major intrinsic protein of lens fiber	77					response to stimulus|visual perception	gap junction|integral to plasma membrane	structural constituent of eye lens			skin(1)	1						TGGGAGCCCACAAGGAAAGCA	0.602													22	99	---	---	---	---	PASS	A	56848169	A	A	56848169	3	1	154	1	0	0	0	0	1	0	0	0	9591	478	17	3	578	3	MIP	12	56848169	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	31700920	56848169	77003726	173	54861										
NAV3	89795	broad.mit.edu	37	chr12	78400260	78400260	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aacgtgcagcctcccagtacTgctgggcagcctcctgcctc	10	17	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr12:78400260T>A	uc001syp.2	+	8	1115	c.942T>A	c.(940-942)ACT>ACA	p.T314T	NAV3_uc001syo.2_Silent_p.T314T	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	314						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CTCCCAGTACTGCTGGGCAGC	0.507										HNSCC(70;0.22)			16	76	---	---	---	---	PASS	A	78400260	A	A	78400260	2	1	154	1	0	0	0	0	0	0	0	1	10185	1567	55	5		5	NAV3	12	78400260	Silent	SNP	T	TCGA-66-2770-01A-01D-1522-08	21552091	78400260	55451635	174	54862										
CEP290	80184	broad.mit.edu	37	chr12	88502955	88502955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctttttttctttattttctaGttcctgaaaagtggtttaga	6	5	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr12:88502955G>T	uc001tar.2	-	23	2715	c.2371C>A	c.(2371-2373)CTA>ATA	p.L791I	CEP290_uc001tat.2_Missense_Mutation_p.L584I	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	791	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						TTATTTTCTAGTTCCTGAAAA	0.249													3	14	---	---	---	---	PASS	T	88502955	T	T	88502955	3	4	154	1	0	0	0	0	1	0	0	0	3253	1020	36	3	5196	3	CEP290	12	88502955	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	10102695	88502955	45348940	175	54863										
PLXNC1	10154	broad.mit.edu	37	chr12	94613888	94613888	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agctctgccagaataaaagtCagcccaaccggacctgcacc	8	15	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr12:94613888C>A	uc001tdc.2	+	6	1900	c.1651C>A	c.(1651-1653)CAG>AAG	p.Q551K		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	551	Extracellular (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						GAATAAAAGTCAGCCCAACCG	0.448													89	178	---	---	---	---	PASS	A	94613888	A	A	94613888	3	1	154	1	0	0	0	0	1	0	0	0	12126	827	29	2	1673	2	PLXNC1	12	94613888	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	6110933	94613888	39238007	176	54864										
AMDHD1	144193	broad.mit.edu	37	chr12	96359501	96359501	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccaggaagatgttagatgaaGgagtaatagttgctctggga	14	4	1	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr12:96359501G>A	uc001tel.1	+	7	1082	c.976G>A	c.(976-978)GGA>AGA	p.G326R	AMDHD1_uc009zth.1_Missense_Mutation_p.G217R	NM_152435	NP_689648	Q96NU7	HUTI_HUMAN	amidohydrolase domain containing 1	326					histidine catabolic process to glutamate and formamide	cytosol	imidazolonepropionase activity|metal ion binding			central_nervous_system(1)	1						GTTAGATGAAGGAGTAATAGT	0.388													50	90	---	---	---	---	PASS	A	96359501	A	A	96359501	3	1	154	1	0	0	0	0	1	0	0	0	567	1001	35	3	1002	3	AMDHD1	12	96359501	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	1745613	96359501	37492394	177	54865										
NUP37	79023	broad.mit.edu	37	chr12	102471234	102471234	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gataaaatagcctgttgggcCaaaagatcataaaaccggat	9	7	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr12:102471234C>A	uc001tjc.2	-	6	653	c.588G>T	c.(586-588)TTG>TTT	p.L196F	NUP37_uc009zub.1_Missense_Mutation_p.L196F	NM_024057	NP_076962	Q8NFH4	NUP37_HUMAN	nucleoporin 37kDa	196	WD 3.				carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			ovary(1)	1						CCTGTTGGGCCAAAAGATCAT	0.378													54	114	---	---	---	---	PASS	A	102471234	A	A	102471234	3	1	154	1	0	0	0	0	1	0	0	0	10764	593	21	3	408	3	NUP37	12	102471234	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	6111733	102471234	31380661	178	54866										
C12orf51	283450	broad.mit.edu	37	chr12	112667515	112667515	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttggtacctgaacctcggatCctatcttgattgtctctttg	8	10	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr12:112667515C>T	uc009zwc.2	-	34	5258	c.5240G>A	c.(5239-5241)GGA>GAA	p.G1747E	C12orf51_uc001ttr.1_5'Flank	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						AACCTCGGATCCTATCTTGAT	0.453													55	271	---	---	---	---	PASS	T	112667515	T	T	112667515	3	4	154	1	0	0	0	0	1	0	0	0	1696	855	30	2	6894	2	C12orf51	12	112667515	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	10196281	112667515	21184380	179	54867										
SRRM4	84530	broad.mit.edu	37	chr12	119563223	119563223	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gaaagtctcaccgccaccgcCatcaccgctgcccctcgcgg	9	20	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr12:119563223C>A	uc001txa.1	+	7	845	c.553C>A	c.(553-555)CAT>AAT	p.H185N		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	185	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						CCGCCACCGCCATCACCGCTG	0.488													18	17	---	---	---	---	PASS	A	119563223	A	A	119563223	3	1	154	1	0	0	0	0	1	0	0	0	15170	594	21	3	579	3	SRRM4	12	119563223	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	6895708	119563223	14288672	180	54868										
GCN1L1	10985	broad.mit.edu	37	chr12	120588997	120588997	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttggatggcatcagtcagtgCcgccatcatctcctgttgct	10	12	4	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr12:120588997C>T	uc001txo.2	-	34	4274	c.4261G>A	c.(4261-4263)GCA>ACA	p.A1421T		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	1421					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCAGTCAGTGCCGCCATCATC	0.612													4	78	---	---	---	---	PASS	T	120588997	T	T	120588997	3	4	154	1	0	0	0	0	1	0	0	0	6299	739	26	3	3854	3	GCN1L1	12	120588997	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	1025774	120588997	13262898	181	54869										
DIAPH3	81624	broad.mit.edu	37	chr13	60686259	60686259	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttgcaaatgcagtcttcaggTtgggaagtggaggtctctct	13	7	4	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr13:60686259T>G	uc001vht.2	-	3	494	c.275A>C	c.(274-276)AAC>ACC	p.N92T	DIAPH3_uc001vhw.1_Missense_Mutation_p.N81T|DIAPH3_uc010aed.1_Missense_Mutation_p.N81T|DIAPH3_uc010aee.1_Intron	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	92					actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		AGTCTTCAGGTTGGGAAGTGG	0.433													137	285	---	---	---	---	PASS	G	60686259	G	G	60686259	3	3	154	1	0	0	0	0	1	0	0	0	4520	1725	60	5	3430	5	DIAPH3	13	60686259	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08		60686259	54483619	182	54870										
PIBF1	10464	broad.mit.edu	37	chr13	73357625	73357625	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aaaatgtctcgaaaaatttcAaaggagtcaaaaaaagtgaa	7	4	3	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr13:73357625A>G	uc001vjc.2	+	2	323	c.18A>G	c.(16-18)TCA>TCG	p.S6S	PIBF1_uc001vja.1_Silent_p.S6S|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Silent_p.S6S|PIBF1_uc010aep.2_Intron|DIS3_uc001viy.3_5'Flank|DIS3_uc001vix.3_5'Flank|DIS3_uc001viz.2_5'Flank	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	6						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		GAAAAATTTCAAAGGAGTCAA	0.284													36	95	---	---	---	---	PASS	G	73357625	G	G	73357625	2	3	154	1	0	0	0	0	0	0	0	1	11879	117	5	5		5	PIBF1	13	73357625	Silent	SNP	A	TCGA-66-2770-01A-01D-1522-08	12671366	73357625	41812253	183	54871										
KLF12	11278	broad.mit.edu	37	chr13	74420351	74420351	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aactggggaggatgaaacggCagtaggggacgtcctggctt	17	7	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr13:74420351C>G	uc001vjf.2	-	4	505	c.283G>C	c.(283-285)GCC>CCC	p.A95P	KLF12_uc010aeq.2_Missense_Mutation_p.A95P|KLF12_uc001vjg.3_Missense_Mutation_p.A95P	NM_007249	NP_009180	Q9Y4X4	KLF12_HUMAN	Kruppel-like factor 12	95					negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Prostate(6;0.00217)|Breast(118;0.0838)		GBM - Glioblastoma multiforme(99;0.00677)		GATGAAACGGCAGTAGGGGAC	0.512													19	113	---	---	---	---	PASS	G	74420351	G	G	74420351	3	3	154	1	0	0	0	0	1	0	0	0	8340	710	25	4	945	4	KLF12	13	74420351	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	1062726	74420351	40749527	184	54872										
GPC5	2262	broad.mit.edu	37	chr13	92380805	92380805	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggtaaataggatttgtggccGccctgtaagaacacccacac	10	11	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr13:92380805G>T	uc010tif.1	+	4	1406	c.1040G>T	c.(1039-1041)CGC>CTC	p.R347L		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	347						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				ATTTGTGGCCGCCCTGTAAGA	0.418													33	155	---	---	---	---	PASS	T	92380805	T	T	92380805	3	4	154	1	0	0	0	0	1	0	0	0	6601	1087	38	1	1054	1	GPC5	13	92380805	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	17960454	92380805	22789073	185	54873										
IPO5	3843	broad.mit.edu	37	chr13	98642449	98642449	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	atcaaacgaatgttagttcaGtgtatgcaagatcaggaaca	9	6	3	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr13:98642449G>T	uc001vnf.1	+	5	602	c.537G>T	c.(535-537)CAG>CAT	p.Q179H	IPO5_uc001vne.2_Missense_Mutation_p.Q197H|IPO5_uc010tik.1_Intron|IPO5_uc010til.1_Missense_Mutation_p.Q119H	NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	179					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						TGTTAGTTCAGTGTATGCAAG	0.308													24	71	---	---	---	---	PASS	T	98642449	T	T	98642449	3	4	154	1	0	0	0	0	1	0	0	0	7796	1020	36	3	613	3	IPO5	13	98642449	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	6261644	98642449	16527429	186	54874										
NALCN	259232	broad.mit.edu	37	chr13	101997647	101997647	+	Nonsense_Mutation	SNP	C	A	A													0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aaagccactgtagcccagctCttgcctgctaagtcccagat							TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr13:101997647C>A	uc001vox.1	-	7	958	c.769G>T	c.(769-771)GAG>TAG	p.E257*	NALCN_uc001voy.2_Intron|NALCN_uc001voz.2_Nonsense_Mutation_p.E257*|NALCN_uc001vpa.2_Nonsense_Mutation_p.E257*	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	257	Extracellular (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TAGCCCAGCTCTTGCCTGCTA	0.418													49	248	---	---	---	---	PASS	A	101997647	A	A	101997647	4	1	154	1	0	0	0	0	0	1	0	0	10148	922	32	2	4599	2	NALCN	13	101997647	Nonsense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	3355198	101997647	13172231	187	54875	985	2								
NALCN	259232	broad.mit.edu	37	chr13	101997649	101997649	+	Missense_Mutation	SNP	T	G	G													0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agccactgtagcccagctctTgcctgctaagtcccagatct							TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr13:101997649T>G	uc001vox.1	-	7	956	c.767A>C	c.(766-768)CAA>CCA	p.Q256P	NALCN_uc001voy.2_Intron|NALCN_uc001voz.2_Missense_Mutation_p.Q256P|NALCN_uc001vpa.2_Missense_Mutation_p.Q256P	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	256	Extracellular (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GCCCAGCTCTTGCCTGCTAAG	0.428													49	247	---	---	---	---	PASS	G	101997649	G	G	101997649	3	3	154	1	0	0	0	0	1	0	0	0	10148	1812	63	5	4601	5	NALCN	13	101997649	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	2	101997649	13172229	188	54876	985	2								
KIAA0586	9786	broad.mit.edu	37	chr14	59014620	59014620	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctcagcacaatgcaggaggaCatggagtcttcgggggcaga	15	9	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr14:59014620C>A	uc001xdv.3	+	30	4662	c.4389C>A	c.(4387-4389)GAC>GAA	p.D1463E	KIAA0586_uc010trr.1_Missense_Mutation_p.H1609N|KIAA0586_uc001xdt.3_Missense_Mutation_p.D1495E|KIAA0586_uc001xdu.3_Missense_Mutation_p.D1524E|KIAA0586_uc010trs.1_Missense_Mutation_p.D1454E	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	1463										ovary(1)	1						TGCAGGAGGACATGGAGTCTT	0.522													37	68	---	---	---	---	PASS	A	59014620	A	A	59014620	3	1	154	1	0	0	0	0	1	0	0	0	8186	477	17	3	4507	3	KIAA0586	14	59014620	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08		59014620	48334920	189	54877										
SMOC1	64093	broad.mit.edu	37	chr14	70420249	70420249	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gaggatggctcctttacccaGgtgaggcctcggacaatcct	12	12	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr14:70420249G>C	uc001xls.1	+	3	631	c.378G>C	c.(376-378)CAG>CAC	p.Q126H	SMOC1_uc001xlt.1_Missense_Mutation_p.Q126H	NM_022137	NP_071420	Q9H4F8	SMOC1_HUMAN	secreted modular calcium-binding protein 1	126	Thyroglobulin type-1 1.				cell differentiation|eye development|limb development|regulation of osteoblast differentiation|signal transduction	basement membrane	calcium ion binding			upper_aerodigestive_tract(1)|pancreas(1)	2				all cancers(60;0.00417)|BRCA - Breast invasive adenocarcinoma(234;0.0119)|OV - Ovarian serous cystadenocarcinoma(108;0.028)		CCTTTACCCAGGTGAGGCCTC	0.622													37	56	---	---	---	---	PASS	C	70420249	C	C	70420249	3	2	154	1	0	0	0	0	1	0	0	0	14801	1014	35	4	388	4	SMOC1	14	70420249	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	11405629	70420249	36929291	190	54878										
FLRT2	23768	broad.mit.edu	37	chr14	86088872	86088872	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctcaacgtgcggggtttcatGtgccaaggtcctgaacaagt	12	10	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr14:86088872G>T	uc001xvr.2	+	2	1781	c.1014G>T	c.(1012-1014)ATG>ATT	p.M338I	FLRT2_uc010atd.2_Missense_Mutation_p.M338I	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	338	Extracellular (Potential).|LRRCT.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GGGGTTTCATGTGCCAAGGTC	0.507													126	182	---	---	---	---	PASS	T	86088872	T	T	86088872	3	4	154	1	0	0	0	0	1	0	0	0	5939	1377	48	3	1016	3	FLRT2	14	86088872	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	15668623	86088872	21260668	191	54879										
CHGA	1113	broad.mit.edu	37	chr14	93397627	93397627	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agccatcatccaaggatgttAtggagaaaagagaggattcc	11	7	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr14:93397627A>G	uc001ybc.3	+	6	648	c.388A>G	c.(388-390)ATG>GTG	p.M130V	CHGA_uc010aum.2_RNA|CHGA_uc001ybd.3_Intron	NM_001275	NP_001266	P10645	CMGA_HUMAN	chromogranin A precursor	130					regulation of blood pressure	extracellular region|stored secretory granule				skin(2)	2		all_cancers(154;0.0843)		Epithelial(152;0.102)|COAD - Colon adenocarcinoma(157;0.208)|all cancers(159;0.224)		CAAGGATGTTATGGAGAAAAG	0.612													17	16	---	---	---	---	PASS	G	93397627	G	G	93397627	3	3	154	1	0	0	0	0	1	0	0	0	3338	449	16	5	410	5	CHGA	14	93397627	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	7308755	93397627	13951913	192	54880										
DYNC1H1	1778	broad.mit.edu	37	chr14	102476340	102476340	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gccatgaccaagcccgaccgGcagttaatcgcccaggtcat	10	15	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr14:102476340G>T	uc001yks.2	+	30	6302	c.6138G>T	c.(6136-6138)CGG>CGT	p.R2046R		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2046	AAA 1 (By similarity).				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						AGCCCGACCGGCAGTTAATCG	0.522													51	80	---	---	---	---	PASS	T	102476340	T	T	102476340	2	4	154	1	0	0	0	0	0	0	0	1	4841	1190	42	3		3	DYNC1H1	14	102476340	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	9078713	102476340	4873200	193	54881										
OR4M2	390538	broad.mit.edu	37	chr15	22368874	22368874	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttttgatggatgcattgcacAgctcttcttcttacactttg	7	9	3	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr15:22368874A>T	uc010tzu.1	+	1	299	c.299A>T	c.(298-300)CAG>CTG	p.Q100L	LOC727924_uc001yua.2_RNA|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	100	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TGCATTGCACAGCTCTTCTTC	0.463													67	493	---	---	---	---	PASS	T	22368874	T	T	22368874	3	4	154	1	0	0	0	0	1	0	0	0	11076	188	7	5	301	5	OR4M2	15	22368874	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08		22368874	80162518	194	54882										
INO80	54617	broad.mit.edu	37	chr15	41289779	41289779	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctccagctcgtgtgcttaacAggaacacaaagatgtcattc	8	11	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr15:41289779A>C	uc001zni.2	-	29	3731	c.3518T>G	c.(3517-3519)CTG>CGG	p.L1173R	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	1173	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.|Helicase C-terminal.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						TGTGCTTAACAGGAACACAAA	0.393													53	115	---	---	---	---	PASS	C	41289779	C	C	41289779	3	2	154	1	0	0	0	0	1	0	0	0	7746	188	7	5	1184	5	INO80	15	41289779	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	18920905	41289779	61241613	195	54883										
INO80	54617	broad.mit.edu	37	chr15	41352108	41352108	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cttttctatcatgaggatttCcccaatatggtagcacctag	7	10	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr15:41352108C>A	uc001zni.2	-	15	2012	c.1799G>T	c.(1798-1800)GGA>GTA	p.G600V	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	600	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.|Helicase ATP-binding.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						ATGAGGATTTCCCCAATATGG	0.328													52	161	---	---	---	---	PASS	A	41352108	A	A	41352108	3	1	154	1	0	0	0	0	1	0	0	0	7746	855	30	2	2959	2	INO80	15	41352108	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	62329	41352108	61179284	196	54884										
PLA2G4D	283748	broad.mit.edu	37	chr15	42379860	42379860	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cgcaggttccgcgcctccagGaccctcactgtgagctgcca	11	17	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr15:42379860G>T	uc001zox.2	-	2	179	c.84C>A	c.(82-84)GTC>GTA	p.V28V		NM_178034	NP_828848	Q86XP0	PA24D_HUMAN	phospholipase A2, group IVD	28	C2.				phospholipid catabolic process	cytoplasmic vesicle membrane|cytosol	metal ion binding|phospholipase A2 activity			large_intestine(1)|skin(1)	2		all_cancers(109;6.37e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.019)|Ovarian(310;0.143)|Colorectal(260;0.245)		OV - Ovarian serous cystadenocarcinoma(18;4.9e-17)|GBM - Glioblastoma multiforme(94;1.02e-06)		GCGCCTCCAGGACCCTCACTG	0.607													13	37	---	---	---	---	PASS	T	42379860	T	T	42379860	2	4	154	1	0	0	0	0	0	0	0	1	12004	1161	41	2		2	PLA2G4D	15	42379860	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	1027752	42379860	60151532	197	54885										
MAP1A	4130	broad.mit.edu	37	chr15	43819245	43819245	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctcccccctgcacccctctcCccagctcctggtccccccac	4	27	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr15:43819245C>T	uc001zrt.2	+	4	6041	c.5574C>T	c.(5572-5574)TCC>TCT	p.S1858S		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1858						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	CACCCCTCTCCCCAGCTCCTG	0.627													26	19	---	---	---	---	PASS	T	43819245	T	T	43819245	2	4	154	1	0	0	0	0	0	0	0	1	9227	610	22	3		3	MAP1A	15	43819245	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	1439385	43819245	58712147	198	54886										
UNC13C	440279	broad.mit.edu	37	chr15	54860022	54860022	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	actttcatgcaggaggaaatGgcctgaaaaagaatttcttg	10	6	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr15:54860022G>T	uc002ack.2	+	28	5983	c.5983G>T	c.(5983-5985)GGC>TGC	p.G1995C		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1995	MHD2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AGGAGGAAATGGCCTGAAAAA	0.353													9	29	---	---	---	---	PASS	T	54860022	T	T	54860022	3	4	154	1	0	0	0	0	1	0	0	0	16983	1348	47	3	6093	3	UNC13C	15	54860022	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	11040777	54860022	47671370	199	54887										
CSNK1G1	53944	broad.mit.edu	37	chr15	64551400	64551400	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cacaaacagattctactcacCagtttgattgctacatattc	4	11	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr15:64551400C>A	uc002anf.2	-	3	702	c.222G>T	c.(220-222)CTG>CTT	p.L74L	CSNK1G1_uc002ane.2_RNA|CSNK1G1_uc002ang.1_Silent_p.L74L|CSNK1G1_uc002anh.1_Silent_p.L74L|CSNK1G1_uc002anj.2_Silent_p.L47L|CSNK1G1_uc010uip.1_RNA	NM_022048	NP_071331	Q9HCP0	KC1G1_HUMAN	casein kinase 1, gamma 1	74	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0						TTCTACTCACCAGTTTGATTG	0.323													3	49	---	---	---	---	PASS	A	64551400	A	A	64551400	2	1	154	1	0	0	0	0	0	0	0	1	3954	608	21	3		3	CSNK1G1	15	64551400	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	9691378	64551400	37979992	200	54888										
ITGA11	22801	broad.mit.edu	37	chr15	68631962	68631962	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttccagtcataggcaccgacGgctcccagcagaaccccatc	8	17	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr15:68631962G>A	uc002ari.2	-	11	1239	c.1152C>T	c.(1150-1152)GCC>GCT	p.A384A	ITGA11_uc010bib.2_Silent_p.A384A	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	384	FG-GAP 3.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	AGGCACCGACGGCTCCCAGCA	0.597													21	95	---	---	---	---	PASS	A	68631962	A	A	68631962	2	1	154	1	0	0	0	0	0	0	0	1	7874	1103	39	1		1	ITGA11	15	68631962	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	4080562	68631962	33899430	201	54889										
C15orf60	283677	broad.mit.edu	37	chr15	73843343	73843343	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggagcaggcgctggaacactGctgcagttgtgttcagaagc	15	9	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr15:73843343G>A	uc002avq.2	+	4	426	c.398G>A	c.(397-399)TGC>TAC	p.C133Y	C15orf60_uc010bjb.2_Missense_Mutation_p.C105Y	NM_001042367	NP_001035826	Q7Z4M0	CO060_HUMAN	hypothetical protein LOC283677	133										pancreas(1)	1						CTGGAACACTGCTGCAGTTGT	0.507													25	72	---	---	---	---	PASS	A	73843343	A	A	73843343	3	1	154	1	0	0	0	0	1	0	0	0	1808	1319	46	3	412	3	C15orf60	15	73843343	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	5211381	73843343	28688049	202	54890										
MAN2C1	4123	broad.mit.edu	37	chr15	75657002	75657002	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggctacttccacatagagagTgaggctacaaagatggggag	14	7	0	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr15:75657002T>A	uc002baf.2	-	5	444	c.427A>T	c.(427-429)ACT>TCT	p.T143S	MAN2C1_uc002bag.2_Missense_Mutation_p.T143S|MAN2C1_uc002bah.2_Missense_Mutation_p.T143S|MAN2C1_uc010bkk.2_Missense_Mutation_p.T143S|MAN2C1_uc010umi.1_Intron|MAN2C1_uc010umj.1_RNA|MAN2C1_uc010umk.1_RNA	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	143					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						ACATAGAGAGTGAGGCTACAA	0.612													16	28	---	---	---	---	PASS	A	75657002	A	A	75657002	3	1	154	1	0	0	0	0	1	0	0	0	9218	1696	59	5	2783	5	MAN2C1	15	75657002	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	1813659	75657002	26874390	203	54891										
KIAA1199	57214	broad.mit.edu	37	chr15	81181824	81181824	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctgcctagacgtggagtggaCggagtggttcgatcatgata	15	7	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr15:81181824C>T	uc002bfw.1	+	9	1237	c.977C>T	c.(976-978)ACG>ATG	p.T326M	KIAA1199_uc010unn.1_Missense_Mutation_p.T326M	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	326										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GTGGAGTGGACGGAGTGGTTC	0.483													32	94	---	---	---	---	PASS	T	81181824	T	T	81181824	3	4	154	1	0	0	0	0	1	0	0	0	8213	536	19	1	1007	1	KIAA1199	15	81181824	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	5524822	81181824	21349568	204	54892										
HAPLN3	145864	broad.mit.edu	37	chr15	89424922	89424922	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gtgaacagggtctcctcgggTgtctccaccaccagcttcac	10	15	3	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr15:89424922T>A	uc002bnc.2	-	3	287	c.159A>T	c.(157-159)ACA>ACT	p.T53T	HAPLN3_uc002bne.2_RNA|HAPLN3_uc002bnd.2_Silent_p.T115T	NM_178232	NP_839946	Q96S86	HPLN3_HUMAN	hyaluronan and proteoglycan link protein 3	53	Ig-like V-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	Lung NSC(78;0.0392)|all_lung(78;0.077)					TCTCCTCGGGTGTCTCCACCA	0.632													30	65	---	---	---	---	PASS	A	89424922	A	A	89424922	2	1	154	1	0	0	0	0	0	0	0	1	6956	1683	59	5		5	HAPLN3	15	89424922	Silent	SNP	T	TCGA-66-2770-01A-01D-1522-08	8243098	89424922	13106470	205	54893										
WDR24	84219	broad.mit.edu	37	chr16	737632	737632	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gaacatcctctcgcaccggtCgggacgccggatgtcccaga	12	15	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr16:737632C>T	uc002ciz.1	-	2	1349	c.589G>A	c.(589-591)GAC>AAC	p.D197N		NM_032259	NP_115635	Q96S15	WDR24_HUMAN	WD repeat domain 24	270										ovary(1)|central_nervous_system(1)	2		Hepatocellular(780;0.0218)				TCGCACCGGTCGGGACGCCGG	0.632													17	35	---	---	---	---	PASS	T	737632	T	T	737632	3	4	154	1	0	0	0	0	1	0	0	0	17278	884	31	2	1815	2	WDR24	16	737632	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08		737632	89617121	206	54894										
SRRM2	23524	broad.mit.edu	37	chr16	2819035	2819035	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cagccccaaaggaggctgttCgagagggacgtcctccggag	15	12	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr16:2819035C>T	uc002crk.2	+	12	8320	c.7771C>T	c.(7771-7773)CGA>TGA	p.R2591*		NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2591	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GGAGGCTGTTCGAGAGGGACG	0.532													13	65	---	---	---	---	PASS	T	2819035	T	T	2819035	4	4	154	1	0	0	0	0	0	1	0	0	15168	876	31	2	7813	2	SRRM2	16	2819035	Nonsense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	2081403	2819035	87535718	207	54895										
ITGAM	3684	broad.mit.edu	37	chr16	31283176	31283176	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccccctccgcagttctctttGatgcagtactctgaagaatt	7	13	2	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr16:31283176G>T	uc002ebq.2	+	7	665	c.567G>T	c.(565-567)TTG>TTT	p.L189F	ITGAM_uc002ebr.2_Missense_Mutation_p.L189F	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	189	VWFA.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						AGTTCTCTTTGATGCAGTACT	0.517													18	51	---	---	---	---	PASS	T	31283176	T	T	31283176	3	4	154	1	0	0	0	0	1	0	0	0	7887	1281	45	2	593	2	ITGAM	16	31283176	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	28464141	31283176	59071577	208	54896										
CNGB1	1258	broad.mit.edu	37	chr16	57931765	57931765	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gatttcccatcagggccgccCaagacctgcacttgccctgc	9	17	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr16:57931765C>T	uc002emt.2	-	30	3095	c.3030G>A	c.(3028-3030)TTG>TTA	p.L1010L	CNGB1_uc010cdh.2_Silent_p.L1004L	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	1010	Cytoplasmic (Potential).|cAMP (By similarity).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						CAGGGCCGCCCAAGACCTGCA	0.552													26	211	---	---	---	---	PASS	T	57931765	T	T	57931765	2	4	154	1	0	0	0	0	0	0	0	1	3600	593	21	3		3	CNGB1	16	57931765	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	26648589	57931765	32422988	209	54897										
WFDC1	58189	broad.mit.edu	37	chr16	84353145	84353145	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggccgaaggtatccccaaccGtgggcagtgcgtcaagcagc	14	13	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr16:84353145G>A	uc002fhw.2	+	4	707	c.530G>A	c.(529-531)CGT>CAT	p.R177H	WFDC1_uc002fhv.2_Missense_Mutation_p.R177H	NM_021197	NP_067020	Q9HC57	WFDC1_HUMAN	WAP four-disulfide core domain 1 precursor	177					negative regulation of cell growth	extracellular space	serine-type endopeptidase inhibitor activity			breast(1)	1						ATCCCCAACCGTGGGCAGTGC	0.662													11	52	---	---	---	---	PASS	A	84353145	A	A	84353145	3	1	154	1	0	0	0	0	1	0	0	0	17343	1145	40	1	544	1	WFDC1	16	84353145	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	26421380	84353145	6001608	210	54898										
CTU2	348180	broad.mit.edu	37	chr16	88779197	88779197	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gaacagccaccccagcccccGctggacccccagaacctggc	9	21	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr16:88779197G>T	uc002flm.2	+	7	669	c.621G>T	c.(619-621)CCG>CCT	p.P207P	CTU2_uc002fln.2_Silent_p.P207P|CTU2_uc010chz.2_Silent_p.P278P|CTU2_uc010cia.2_Silent_p.P120P	NM_001012759	NP_001012777	Q2VPK5	CTU2_HUMAN	cytoplasmic tRNA 2-thiolation protein 2 isoform	207					tRNA thio-modification|tRNA wobble uridine modification	cytoplasm|protein complex|soluble fraction	protein binding			skin(1)	1						CCCAGCCCCCGCTGGACCCCC	0.667													7	10	---	---	---	---	PASS	T	88779197	T	T	88779197	2	4	154	1	0	0	0	0	0	0	0	1	4048	1074	38	1		1	CTU2	16	88779197	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	4426052	88779197	1575556	211	54899										
P2RX5	5026	broad.mit.edu	37	chr17	3595086	3595086	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccttctttatcaggaacaccCatctgtgggaagggggccgg	13	11	3	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr17:3595086C>A	uc002fwi.2	-	2	424	c.140G>T	c.(139-141)TGG>TTG	p.W47L	P2RX5_uc002fwd.2_RNA|P2RX5_uc002fwh.1_Missense_Mutation_p.W47L|P2RX5_uc010vrx.1_Missense_Mutation_p.W11L|P2RX5_uc002fwj.2_Missense_Mutation_p.W47L|P2RX5_uc002fwk.2_Missense_Mutation_p.W47L|P2RX5_uc002fwl.2_Missense_Mutation_p.W47L|P2RX5_uc002fwm.1_Missense_Mutation_p.W47L	NM_002561	NP_002552	Q93086	P2RX5_HUMAN	purinergic receptor P2X5 isoform A	47	Helical; Name=1; (Potential).				nervous system development|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						CAGGAACACCCATCTGTGGGA	0.592													45	120	---	---	---	---	PASS	A	3595086	A	A	3595086	3	1	154	1	0	0	0	0	1	0	0	0	11343	595	21	3	1176	3	P2RX5	17	3595086	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08		3595086	77600124	212	54900										
WSCD1	23302	broad.mit.edu	37	chr17	5993784	5993784	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cggggctgtggaccggctctCcgtgtaccgtgtggacgagc	17	12	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr17:5993784C>T	uc010cli.2	+	4	1065	c.686C>T	c.(685-687)TCC>TTC	p.S229F	WSCD1_uc002gcn.2_Missense_Mutation_p.S229F|WSCD1_uc002gco.2_Missense_Mutation_p.S229F|WSCD1_uc010clj.2_5'UTR	NM_015253	NP_056068	Q658N2	WSCD1_HUMAN	WSC domain containing 1	229	WSC 1.					integral to membrane	sulfotransferase activity				0						GACCGGCTCTCCGTGTACCGT	0.657													26	41	---	---	---	---	PASS	T	5993784	T	T	5993784	3	4	154	1	0	0	0	0	1	0	0	0	17403	855	30	2	696	2	WSCD1	17	5993784	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	2398698	5993784	75201426	213	54901										
TP53	7157	broad.mit.edu	37	chr17	7577138	7577138	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cacgcacctcaaagctgttcCgtcccagtagattaccacta	6	15	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr17:7577138C>G	uc002gim.2	-	8	994	c.800G>C	c.(799-801)CGG>CCG	p.R267P	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R267P|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R135P|TP53_uc010cng.1_Missense_Mutation_p.R135P|TP53_uc002gii.1_Missense_Mutation_p.R135P|TP53_uc010cnh.1_Missense_Mutation_p.R267P|TP53_uc010cni.1_Missense_Mutation_p.R267P|TP53_uc002gij.2_Missense_Mutation_p.R267P	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	267	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> H (in a sporadic cancer; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R267W(20)|p.R267P(13)|p.0?(7)|p.R267Q(7)|p.R267R(5)|p.?(3)|p.G262_F270delGNLLGRNSF(2)|p.G266_E271delGRNSFE(2)|p.G262_S269delGNLLGRNS(2)|p.G266fs*4(1)|p.R267fs*78(1)|p.N268fs*77(1)|p.L265_K305del41(1)|p.R267G(1)|p.E258fs*71(1)|p.L265_R267delLGR(1)|p.R267L(1)|p.G266_N268delGRN(1)|p.G262fs*2(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)		AAAGCTGTTCCGTCCCAGTAG	0.527		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)			15	31	---	---	---	---	PASS	G	7577138	G	G	7577138	3	3	154	1	0	0	0	0	1	0	0	0	16378	652	23	4	486	4	TP53	17	7577138	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	1583354	7577138	73618072	214	54902										
MYH8	4626	broad.mit.edu	37	chr17	10315825	10315825	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gctttggccagagcacccacCgcattgtacaccttcacaga	8	15	1	2	rs113680036	by1000genomes	TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr17:10315825C>A	uc002gmm.2	-	14	1373	c.1278G>T	c.(1276-1278)GCG>GCT	p.A426A	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	426	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GAGCACCCACCGCATTGTACA	0.493									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				147	381	---	---	---	---	PASS	A	10315825	A	A	10315825	2	1	154	1	0	0	0	0	0	0	0	1	10041	639	23	1		1	MYH8	17	10315825	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	2738687	10315825	70879385	215	54903										
RASD1	51655	broad.mit.edu	37	chr17	17398864	17398864	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	acccttgttgccgcagatgaCcaggggcacgtccacgttct	11	14	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr17:17398864C>G	uc002gri.2	-	2	633	c.421G>C	c.(421-423)GTC>CTC	p.V141L		NM_016084	NP_057168	Q9Y272	RASD1_HUMAN	RAS, dexamethasone-induced 1 precursor	141					G-protein coupled receptor protein signaling pathway|small GTPase mediated signal transduction	nucleus|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity				0						CCGCAGATGACCAGGGGCACG	0.632													9	24	---	---	---	---	PASS	G	17398864	G	G	17398864	3	3	154	1	0	0	0	0	1	0	0	0	13066	507	18	4	428	4	RASD1	17	17398864	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	7083039	17398864	63796346	216	54904										
ZNF830	91603	broad.mit.edu	37	chr17	33289390	33289390	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aggttgatgctccaaaagatCagatggacaaagagtgggac	13	6	1	4			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr17:33289390C>T	uc002hih.3	+	1	842	c.805C>T	c.(805-807)CAG>TAG	p.Q269*	CCT6B_uc002hig.2_5'Flank|CCT6B_uc010ctg.2_5'Flank|CCT6B_uc010wcc.1_5'Flank	NM_052857	NP_443089	Q96NB3	ZN830_HUMAN	coiled-coil domain containing 16	269					cell division|mitosis	cytoplasm|nucleus	metal ion binding			breast(1)	1		Ovarian(249;0.17)				TCCAAAAGATCAGATGGACAA	0.493													38	87	---	---	---	---	PASS	T	33289390	T	T	33289390	4	4	154	1	0	0	0	0	0	1	0	0	18181	827	29	2	807	2	ZNF830	17	33289390	Nonsense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	15890526	33289390	47905820	217	54905										
CA10	56934	broad.mit.edu	37	chr17	50008401	50008401	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gtcagaaaggggtcgaagatCatgtgactggtctctatgtt	13	6	3	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr17:50008401C>A	uc002itw.3	-	3	1214	c.228G>T	c.(226-228)ATG>ATT	p.M76I	CA10_uc002itv.3_Missense_Mutation_p.M82I|CA10_uc002itx.3_Missense_Mutation_p.M76I|CA10_uc002ity.3_Missense_Mutation_p.M76I|CA10_uc002itz.2_Missense_Mutation_p.M76I	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	76					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			GGTCGAAGATCATGTGACTGG	0.498													107	262	---	---	---	---	PASS	A	50008401	A	A	50008401	3	1	154	1	0	0	0	0	1	0	0	0	2511	826	29	2	786	2	CA10	17	50008401	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	16719011	50008401	31186809	218	54906										
EVPL	2125	broad.mit.edu	37	chr17	74007920	74007920	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gggctgacactgccagggtgGgctccaaagagcagcggtag	17	10	0	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr17:74007920G>A	uc002jqi.2	-	20	2729	c.2501C>T	c.(2500-2502)CCC>CTC	p.P834L	EVPL_uc010wss.1_Missense_Mutation_p.P856L|EVPL_uc010wst.1_Missense_Mutation_p.P304L	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	834	Globular 1.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						TGCCAGGGTGGGCTCCAAAGA	0.642													17	42	---	---	---	---	PASS	A	74007920	A	A	74007920	3	1	154	1	0	0	0	0	1	0	0	0	5292	1232	43	3	3612	3	EVPL	17	74007920	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	23999519	74007920	7187290	219	54907										
MXRA7	439921	broad.mit.edu	37	chr17	74681210	74681210	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttcttgtactggtttcccctCagcttcccggggctgtattt	9	12	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr17:74681210C>T	uc002jsk.1	-	3	472	c.444G>A	c.(442-444)CTG>CTA	p.L148L	MXRA7_uc002jsl.2_Silent_p.L148L|MXRA7_uc002jsm.2_Silent_p.L148L	NM_001008528	NP_001008528	P84157	MXRA7_HUMAN	transmembrane anchor protein 1 isoform 1	148						integral to membrane					0						GGTTTCCCCTCAGCTTCCCGG	0.622													77	222	---	---	---	---	PASS	T	74681210	T	T	74681210	2	4	154	1	0	0	0	0	0	0	0	1	10004	813	29	2		2	MXRA7	17	74681210	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	673290	74681210	6514000	220	54908										
SEC14L1	6397	broad.mit.edu	37	chr17	75139682	75139682	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gctgttgtattgcaatcatgGtgcagaaataccagtcccca	9	10	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr17:75139682G>T	uc002jto.2	+	3	271	c.4G>T	c.(4-6)GTG>TTG	p.V2L	SEC14L1_uc010dhc.2_Missense_Mutation_p.V2L|SEC14L1_uc010wth.1_Missense_Mutation_p.V2L|SEC14L1_uc002jtm.2_Missense_Mutation_p.V2L	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	2	PRELI/MSF1.				transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						TGCAATCATGGTGCAGAAATA	0.363													32	89	---	---	---	---	PASS	T	75139682	T	T	75139682	3	4	154	1	0	0	0	0	1	0	0	0	13981	1261	44	3	6	3	SEC14L1	17	75139682	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	458472	75139682	6055528	221	54909										
SLC38A10	124565	broad.mit.edu	37	chr17	79226320	79226320	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctttctgagtcgggcagaggCggcgccatctggccctggac	15	13	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr17:79226320C>T	uc002jzz.1	-	13	1995	c.1620G>A	c.(1618-1620)CCG>CCA	p.P540P	SLC38A10_uc002jzy.1_Silent_p.P458P|SLC38A10_uc002kab.2_Silent_p.P540P	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	540					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CGGGCAGAGGCGGCGCCATCT	0.622													27	118	---	---	---	---	PASS	T	79226320	T	T	79226320	2	4	154	1	0	0	0	0	0	0	0	1	14602	755	27	1		1	SLC38A10	17	79226320	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	4086638	79226320	1968890	222	54910										
PIAS2	9063	broad.mit.edu	37	chr18	44470609	44470609	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cagattttttaactgcacatCaggatggacaggaggaattg	11	6	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr18:44470609C>T	uc002lck.2	-	2	591	c.433G>A	c.(433-435)GAT>AAT	p.D145N	PIAS2_uc010dnp.2_5'UTR|PIAS2_uc002lcl.2_Missense_Mutation_p.D145N|PIAS2_uc010xda.1_Intron|PIAS2_uc002lcm.2_Missense_Mutation_p.D145N|PIAS2_uc002lcn.1_Missense_Mutation_p.D149N	NM_004671	NP_004662	O75928	PIAS2_HUMAN	protein inhibitor of activated STAT X isoform	145	PINIT.				androgen receptor signaling pathway|negative regulation of androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|PML body	androgen receptor binding|DNA binding|protein binding|SUMO ligase activity|transcription coactivator activity|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						AACTGCACATCAGGATGGACA	0.443													17	61	---	---	---	---	PASS	T	44470609	T	T	44470609	3	4	154	1	0	0	0	0	1	0	0	0	11876	826	29	2	1559	2	PIAS2	18	44470609	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08		44470609	33606639	223	54911										
C18orf54	162681	broad.mit.edu	37	chr18	51904607	51904607	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	acgaatggagaacggtcaccGaaaatgtgaagaggaaaatg	13	5	1	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr18:51904607G>A	uc002lfn.3	+	8	1226	c.1110G>A	c.(1108-1110)CCG>CCA	p.P370P	C18orf54_uc002lfo.3_Silent_p.P531P	NM_173529	NP_775800	Q8IYD9	CR054_HUMAN	hypothetical protein LOC162681 precursor	370						extracellular region				ovary(1)|skin(1)	2				Colorectal(16;0.0206)|READ - Rectum adenocarcinoma(59;0.186)		AACGGTCACCGAAAATGTGAA	0.353													16	65	---	---	---	---	PASS	A	51904607	A	A	51904607	2	1	154	1	0	0	0	0	0	0	0	1	1904	1045	37	2		2	C18orf54	18	51904607	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	7433998	51904607	26172641	224	54912										
ONECUT2	9480	broad.mit.edu	37	chr18	55143879	55143879	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cttcatgaacgcccggcgccGcagcctggagaagtggcaag	14	13	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr18:55143879G>A	uc002lgo.2	+	2	1471	c.1439G>A	c.(1438-1440)CGC>CAC	p.R480H		NM_004852	NP_004843	O95948	ONEC2_HUMAN	one cut domain, family member 2	480	Homeobox.				organ morphogenesis	nucleus	sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3		Colorectal(73;0.234)		READ - Rectum adenocarcinoma(59;0.227)|Colorectal(16;0.245)		GCCCGGCGCCGCAGCCTGGAG	0.582													18	40	---	---	---	---	PASS	A	55143879	A	A	55143879	3	1	154	1	0	0	0	0	1	0	0	0	10869	1087	38	1	1445	1	ONECUT2	18	55143879	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	3239272	55143879	22933369	225	54913										
CDH19	28513	broad.mit.edu	37	chr18	64197141	64197141	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gtattgagagaactcaggagCatgatcattgatgttaagaa	11	4	2	5			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr18:64197141C>T	uc002lkc.1	-	9	1537	c.1399G>A	c.(1399-1401)GCT>ACT	p.A467T	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Missense_Mutation_p.A467T	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	467	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				AACTCAGGAGCATGATCATTG	0.308													39	194	---	---	---	---	PASS	T	64197141	T	T	64197141	3	4	154	1	0	0	0	0	1	0	0	0	3104	710	25	3	935	3	CDH19	18	64197141	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	9053262	64197141	13880107	226	54914										
SBNO2	22904	broad.mit.edu	37	chr19	1111044	1111044	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccacgtccaggcagccattcCgggactcccggccaccaatg	10	18	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:1111044C>T	uc002lrk.3	-	25	3096	c.2858G>A	c.(2857-2859)CGG>CAG	p.R953Q	SBNO2_uc002lri.3_5'Flank|SBNO2_uc002lrj.3_Missense_Mutation_p.R896Q|SBNO2_uc010dse.2_Missense_Mutation_p.R936Q|SBNO2_uc010xgj.1_Intron	NM_014963	NP_055778	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 isoform 1	953					macrophage activation involved in immune response|negative regulation of transcription, DNA-dependent|regulation of inflammatory response|transcription, DNA-dependent						0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGCCATTCCGGGACTCCCG	0.662													4	8	---	---	---	---	PASS	T	1111044	T	T	1111044	3	4	154	1	0	0	0	0	1	0	0	0	13863	652	23	1	1274	1	SBNO2	19	1111044	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08		1111044	58017939	227	54915										
CSNK1G2	1455	broad.mit.edu	37	chr19	1978856	1978856	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	acaccgccgtgcccccctgcAgatcacgcgcatggagtatg	11	16	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:1978856A>T	uc002lul.3	+	7	971	c.448_splice	c.e7-2	p.I150_splice	CSNK1G2_uc010dsu.2_Splice_Site_p.I102_splice	NM_001319	NP_001310	P78368	KC1G2_HUMAN	casein kinase 1, gamma 2						sphingolipid metabolic process|Wnt receptor signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity			stomach(1)	1		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCCCCCTGCAGATCACGCGC	0.423													19	36	---	---	---	---	PASS	T	1978856	T	T	1978856	5	4	154	1	0	0	0	0	0	0	1	0	3955	202	7	5	464	5	CSNK1G2	19	1978856	Splice_Site	SNP	A	TCGA-66-2770-01A-01D-1522-08	867812	1978856	57150127	228	54916										
KDM4B	23030	broad.mit.edu	37	chr19	5131486	5131486	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttcccccatggagctgacggGgccagaggacggtgcagcca	15	13	0	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:5131486G>T	uc002mbq.3	+	12	1941	c.1715G>T	c.(1714-1716)GGG>GTG	p.G572V	KDM4B_uc010xim.1_Missense_Mutation_p.G606V|KDM4B_uc002mbr.3_Missense_Mutation_p.G330V	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	572					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						GAGCTGACGGGGCCAGAGGAC	0.512													24	34	---	---	---	---	PASS	T	5131486	T	T	5131486	3	4	154	1	0	0	0	0	1	0	0	0	8129	1232	43	3	1753	3	KDM4B	19	5131486	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	3152630	5131486	53997497	229	54917										
MUC16	94025	broad.mit.edu	37	chr19	9048195	9048195	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	caccattcctggtacctcagGtgaaacagttagaacagctg	9	11	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:9048195G>T	uc002mkp.2	-	5	33640	c.33436C>A	c.(33436-33438)CCT>ACT	p.P11146T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11148	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTACCTCAGGTGAAACAGTT	0.458													22	73	---	---	---	---	PASS	T	9048195	T	T	9048195	3	4	154	1	0	0	0	0	1	0	0	0	9973	1261	44	3	10407	3	MUC16	19	9048195	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	3916709	9048195	50080788	230	54918										
MUC16	94025	broad.mit.edu	37	chr19	9066587	9066587	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgggaaatgctggtctctctCagtccaggagtcaaggaata	12	8	3	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:9066587C>A	uc002mkp.2	-	3	21063	c.20859G>T	c.(20857-20859)CTG>CTT	p.L6953L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6955	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGGTCTCTCTCAGTCCAGGAG	0.458													102	239	---	---	---	---	PASS	A	9066587	A	A	9066587	2	1	154	1	0	0	0	0	0	0	0	1	9973	813	29	2		2	MUC16	19	9066587	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	18392	9066587	50062396	231	54919										
CASP14	23581	broad.mit.edu	37	chr19	15166251	15166251	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gaattcccaggatacatcgcCtaccgacatgatcagaaagg	9	11	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:15166251C>A	uc010dzv.1	+	6	839	c.531C>A	c.(529-531)GCC>GCA	p.A177A	CASP14_uc002naf.2_Silent_p.A177A	NM_012114	NP_036246	P31944	CASPE_HUMAN	caspase 14 precursor	177					apoptosis|cell differentiation|epidermis development|proteolysis	cytoplasm|nucleus	cysteine-type endopeptidase activity			skin(2)|ovary(1)|lung(1)	4						GATACATCGCCTACCGACATG	0.532													38	93	---	---	---	---	PASS	A	15166251	A	A	15166251	2	1	154	1	0	0	0	0	0	0	0	1	2670	668	24	3		3	CASP14	19	15166251	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	6099664	15166251	43962732	232	54920										
ZNF98	148198	broad.mit.edu	37	chr19	22586297	22586297	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gagaattctaaggccacatcCctaaatgtcaacactccctg	6	13	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:22586297C>A	uc002nqt.2	-	2	170	c.48G>T	c.(46-48)AGG>AGT	p.R16S		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	16	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				AGGCCACATCCCTAAATGTCA	0.393													47	123	---	---	---	---	PASS	A	22586297	A	A	22586297	3	1	154	1	0	0	0	0	1	0	0	0	18200	622	22	3	1682	3	ZNF98	19	22586297	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	7420046	22586297	36542686	233	54921										
HPN	3249	broad.mit.edu	37	chr19	35556848	35556848	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gcggctgtgtggcattgtgaGttggggcactggctgtgccc	18	9	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:35556848G>T	uc002nxq.1	+	13	1372	c.1127G>T	c.(1126-1128)AGT>ATT	p.S376I	HPN_uc002nxr.1_Missense_Mutation_p.S376I|HPN_uc002nxs.1_Missense_Mutation_p.S218I|HPN_uc010xsh.1_Missense_Mutation_p.S345I|HPN_uc002nxt.1_Missense_Mutation_p.S260I|LOC100128675_uc010xsi.1_Intron	NM_002151	NP_002142	P05981	HEPS_HUMAN	hepsin	376	Extracellular (Potential).|Peptidase S1.				cell growth|proteolysis	cytoplasm|integral to plasma membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2	all_lung(56;5.38e-08)|Lung NSC(56;8.61e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)		Coagulation factor VIIa(DB00036)	GGCATTGTGAGTTGGGGCACT	0.612													57	160	---	---	---	---	PASS	T	35556848	T	T	35556848	3	4	154	1	0	0	0	0	1	0	0	0	7336	1029	36	3	1169	3	HPN	19	35556848	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	12970551	35556848	23572135	234	54922										
ACTN4	81	broad.mit.edu	37	chr19	39214345	39214345	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tcggctctctgacacatagtCgcagggaagccctggaggtg	14	11	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:39214345C>G	uc002oja.1	+	13	1593	c.1534C>G	c.(1534-1536)CGC>GGC	p.R512G	ACTN4_uc002ojb.1_5'Flank	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	512	Spectrin 2.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GACACATAGTCGCAGGGAAGC	0.632													9	27	---	---	---	---	PASS	G	39214345	G	G	39214345	3	3	154	1	0	0	0	0	1	0	0	0	207	884	31	2	1584	2	ACTN4	19	39214345	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	3657497	39214345	19914638	235	54923										
MIA	8190	broad.mit.edu	37	chr19	41281516	41281516	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ttctccggacctggtgtcagGggtggtcctatgcccaagct	13	12	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:41281516G>T	uc002opb.3	+	1	217	c.69G>T	c.(67-69)AGG>AGT	p.R23S	MIA_uc010xvt.1_RNA|RAB4B_uc002opc.1_5'Flank|RAB4B_uc002opd.1_5'Flank|RAB4B_uc002ope.1_5'Flank|EGLN2_uc010ehd.2_5'Flank	NM_006533	NP_006524	Q16674	MIA_HUMAN	melanoma inhibitory activity precursor	23					cell proliferation	extracellular space	growth factor activity				0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)	GBM - Glioblastoma multiforme(1328;0.0199)		CTGGTGTCAGGGGTGGTCCTA	0.617													78	147	---	---	---	---	PASS	T	41281516	T	T	41281516	3	4	154	1	0	0	0	0	1	0	0	0	9563	1223	43	3	71	3	MIA	19	41281516	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	2067171	41281516	17847467	236	54924										
CEACAM21	90273	broad.mit.edu	37	chr19	42082643	42082643	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gaccatggggcccccctcagCttgtccccacagagaatgca	10	16	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:42082643C>T	uc002ore.3	+	1	113	c.17C>T	c.(16-18)GCT>GTT	p.A6V	CEACAM21_uc002orc.1_Intron|CEACAM21_uc002ord.1_Intron|CEACAM21_uc002orf.2_RNA|CEACAM21_uc002org.3_Missense_Mutation_p.A6V	NM_001098506	NP_001091976	Q3KPI0	CEA21_HUMAN	carcinoembryonic antigen-related cell adhesion	6						integral to membrane				ovary(1)	1						CCCCCCTCAGCTTGTCCCCAC	0.627													7	45	---	---	---	---	PASS	T	42082643	T	T	42082643	3	4	154	1	0	0	0	0	1	0	0	0	3192	797	28	3	19	3	CEACAM21	19	42082643	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	801127	42082643	17046340	237	54925										
ERF	2077	broad.mit.edu	37	chr19	42752782	42752782	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gcggggcccccacccccttcGaggcgacagtcttcactcca	10	19	2	0	rs138540323		TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:42752782G>A	uc002ote.3	-	4	1640	c.1482C>T	c.(1480-1482)CTC>CTT	p.L494L	ERF_uc002otd.3_Silent_p.L225L	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	494					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				CACCCCCTTCGAGGCGACAGT	0.692													38	95	---	---	---	---	PASS	A	42752782	A	A	42752782	2	1	154	1	0	0	0	0	0	0	0	1	5221	1045	37	2		2	ERF	19	42752782	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	670139	42752782	16376201	238	54926										
ZC3H4	23211	broad.mit.edu	37	chr19	47570607	47570607	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tccagagcacggtgcgggcgAagctgggcttgctcagggtc	17	11	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:47570607A>T	uc002pga.3	-	15	2956	c.2918T>A	c.(2917-2919)TTC>TAC	p.F973Y	ZC3H4_uc002pgb.1_Intron	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	973							nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		GGTGCGGGCGAAGCTGGGCTT	0.682													59	189	---	---	---	---	PASS	T	47570607	T	T	47570607	3	4	154	1	0	0	0	0	1	0	0	0	17567	246	9	5	997	5	ZC3H4	19	47570607	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	4817825	47570607	11558376	239	54927										
CEACAM18	729767	broad.mit.edu	37	chr19	51986552	51986552	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggatccaggccccccatgagTgcagcagctcccctccaggc	11	18	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:51986552T>G	uc002pwv.1	+	5	1138	c.1138T>G	c.(1138-1140)TGC>GGC	p.C380G		NM_001080405	NP_001073874	A8MTB9	CEA18_HUMAN	carcinoembryonic antigen-related cell adhesion	380						integral to membrane				skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		CCCCCATGAGTGCAGCAGCTC	0.612													18	46	---	---	---	---	PASS	G	51986552	G	G	51986552	3	3	154	1	0	0	0	0	1	0	0	0	3189	1696	59	5	1156	5	CEACAM18	19	51986552	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	4415945	51986552	7142431	240	54928										
ZNF616	90317	broad.mit.edu	37	chr19	52618417	52618417	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agctccgtttaaaggttttgCcacactcattacatttgtaa	6	9	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:52618417C>A	uc002pym.2	-	4	2283	c.2000G>T	c.(1999-2001)GGC>GTC	p.G667V	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	667	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		AAAGGTTTTGCCACACTCATT	0.403													75	310	---	---	---	---	PASS	A	52618417	A	A	52618417	3	1	154	1	0	0	0	0	1	0	0	0	18038	739	26	3	349	3	ZNF616	19	52618417	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	631865	52618417	6510566	241	54929										
LENG9	94059	broad.mit.edu	37	chr19	54973315	54973315	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggctggaaaggcccccctgtCctccctatacggcacagcca	10	17	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:54973315C>T	uc010yez.1	-	1	1580	c.1461G>A	c.(1459-1461)AGG>AGA	p.R487R		NM_198988	NP_945339	Q96B70	LENG9_HUMAN	leukocyte receptor cluster (LRC) member 9	487					RNA metabolic process	intracellular	catalytic activity|nucleic acid binding|zinc ion binding				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.134)		GCCCCCCTGTCCTCCCTATAC	0.627													48	105	---	---	---	---	PASS	T	54973315	T	T	54973315	2	4	154	1	0	0	0	0	0	0	0	1	8725	854	30	2		2	LENG9	19	54973315	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	2354898	54973315	4155668	242	54930										
NLRP8	126205	broad.mit.edu	37	chr19	56490903	56490903	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cttgtgcgaggccttctcaaGccaaaagaagagagaagagg	13	8	1	4			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:56490903G>A	uc002qmh.2	+	9	3091	c.3020G>A	c.(3019-3021)AGC>AAC	p.S1007N	NLRP8_uc010etg.2_Missense_Mutation_p.S988N	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	1007	LRR 6.					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)		GCCTTCTCAAGCCAAAAGAAG	0.468													64	147	---	---	---	---	PASS	A	56490903	A	A	56490903	3	1	154	1	0	0	0	0	1	0	0	0	10483	971	34	3	3054	3	NLRP8	19	56490903	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	1517588	56490903	2638080	243	54931										
ZNF582	147948	broad.mit.edu	37	chr19	56895310	56895310	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tctctgatgattagtaagggGtaactgctgatggaaggctt	13	5	1	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:56895310G>A	uc002qmz.1	-	5	1635	c.1476C>T	c.(1474-1476)TAC>TAT	p.Y492Y	ZNF582_uc002qmy.2_Silent_p.Y523Y	NM_144690	NP_653291	Q96NG8	ZN582_HUMAN	zinc finger protein 582	492					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|large_intestine(1)	4		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0547)		TTAGTAAGGGGTAACTGCTGA	0.388													112	279	---	---	---	---	PASS	A	56895310	A	A	56895310	2	1	154	1	0	0	0	0	0	0	0	1	18011	1256	44	3		3	ZNF582	19	56895310	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	404407	56895310	2233673	244	54932										
ZNF17	7565	broad.mit.edu	37	chr19	57932022	57932022	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctggagaaaaaccttatgaaTgcaacgaatgtgggaaattc	10	6	0	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:57932022T>A	uc002qoo.1	+	3	1393	c.1162T>A	c.(1162-1164)TGC>AGC	p.C388S	ZNF547_uc002qpm.3_Intron|ZNF17_uc002qop.1_Missense_Mutation_p.C390S	NM_006959	NP_008890	P17021	ZNF17_HUMAN	zinc finger protein 17	388	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0234)|GBM - Glioblastoma multiforme(193;0.000426)|Lung(386;0.176)		ACCTTATGAATGCAACGAATG	0.393													62	173	---	---	---	---	PASS	A	57932022	A	A	57932022	3	1	154	1	0	0	0	0	1	0	0	0	17740	1464	51	5	1172	5	ZNF17	19	57932022	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	1036712	57932022	1196961	245	54933										
ZNF8	7554	broad.mit.edu	37	chr19	58806661	58806661	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	caccagagaggagcagccccAtgggcgaagccggcggcgtg	17	13	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr19:58806661A>T	uc002qry.1	+	4	1617	c.1487A>T	c.(1486-1488)CAT>CTT	p.H496L	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	496					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		GAGCAGCCCCATGGGCGAAGC	0.552													95	291	---	---	---	---	PASS	T	58806661	T	T	58806661	3	4	154	1	0	0	0	0	1	0	0	0	18164	217	8	5	1501	5	ZNF8	19	58806661	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	874639	58806661	322322	246	54934										
DEFB127	140850	broad.mit.edu	37	chr20	139602	139602	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aagccagcaacacttgcactGactcttcaagactatgttac	6	12	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr20:139602G>T	uc002wcy.1	+	2	237	c.237G>T	c.(235-237)CTG>CTT	p.L79L		NM_139074	NP_620713	Q9H1M4	DB127_HUMAN	defensin, beta 127 preproprotein	79					defense response to bacterium|innate immune response	extracellular region					0		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			CACTTGCACTGACTCTTCAAG	0.373													37	95	---	---	---	---	PASS	T	139602	T	T	139602	2	4	154	1	0	0	0	0	0	0	0	1	4413	1277	45	2		2	DEFB127	20	139602	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08		139602	62885918	247	54935										
C20orf46	55321	broad.mit.edu	37	chr20	1161519	1161519	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ctctggagggtgtggctagtCtctgagacctggacaacttc	13	10	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr20:1161519C>A	uc010gaa.1	-	3	963	c.744G>T	c.(742-744)GAG>GAT	p.E248D	C20orf46_uc002weq.1_Missense_Mutation_p.E248D	NM_018354	NP_060824	Q9NUR3	CT046_HUMAN	hypothetical protein LOC55321	248						integral to membrane	protein binding			ovary(1)	1						TGTGGCTAGTCTCTGAGACCT	0.582													32	45	---	---	---	---	PASS	A	1161519	A	A	1161519	3	1	154	1	0	0	0	0	1	0	0	0	2113	912	32	2	30	2	C20orf46	20	1161519	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	1021917	1161519	61864001	248	54936										
TGM6	343641	broad.mit.edu	37	chr20	2375159	2375159	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggcgctgcccaccacacccaGgagtacccctgccctgagct	10	19	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr20:2375159G>A	uc002wfy.1	+	2	130	c.69G>A	c.(67-69)CAG>CAA	p.Q23Q	TGM6_uc010gal.1_Silent_p.Q23Q	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	23					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	ACCACACCCAGGAGTACCCCT	0.642													10	44	---	---	---	---	PASS	A	2375159	A	A	2375159	2	1	154	1	0	0	0	0	0	0	0	1	15831	991	35	3		3	TGM6	20	2375159	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	1213640	2375159	60650361	249	54937										
ASXL1	171023	broad.mit.edu	37	chr20	31022550	31022550	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gtggccaccctgagcccaggGgaggcccgagcacccctgga	15	16	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr20:31022550G>T	uc002wxs.2	+	12	2461	c.2035G>T	c.(2035-2037)GGA>TGA	p.G679*	ASXL1_uc010geb.2_Nonsense_Mutation_p.G570*	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	679	Gly-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						TGAGCCCAGGGGAGGCCCGAG	0.647			F|N|Mis		MDS|CMML								6	23	---	---	---	---	PASS	T	31022550	T	T	31022550	4	4	154	1	0	0	0	0	0	1	0	0	1066	1233	43	3	2091	3	ASXL1	20	31022550	Nonsense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	28647391	31022550	32002970	250	54938										
DLGAP4	22839	broad.mit.edu	37	chr20	35154325	35154325	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gacctgctacagctgtccatCgaggatatcagcatgaagtt	10	10	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr20:35154325C>T	uc002xff.2	+	12	3102	c.2667C>T	c.(2665-2667)ATC>ATT	p.I889I	DLGAP4_uc010zvp.1_Silent_p.I889I|DLGAP4_uc002xfg.2_Silent_p.I185I|DLGAP4_uc002xfh.2_Silent_p.I353I|DLGAP4_uc002xfi.2_Silent_p.I198I|DLGAP4_uc002xfj.2_Silent_p.I185I|uc002xfk.3_Intron	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	892					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				AGCTGTCCATCGAGGATATCA	0.602													48	142	---	---	---	---	PASS	T	35154325	T	T	35154325	2	4	154	1	0	0	0	0	0	0	0	1	4562	874	31	2		2	DLGAP4	20	35154325	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	4131775	35154325	27871195	251	54939										
SGK2	10110	broad.mit.edu	37	chr20	42195738	42195738	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ccaatgggaacatcaacctgGggccttcagccaacccaaag	9	14	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr20:42195738G>T	uc002xkv.2	+	2	466	c.247G>T	c.(247-249)GGG>TGG	p.G83W	SGK2_uc002xkt.2_RNA|SGK2_uc002xkr.2_Missense_Mutation_p.G23W|SGK2_uc010ggm.2_Missense_Mutation_p.G23W|SGK2_uc002xks.2_Missense_Mutation_p.G23W|SGK2_uc002xku.2_Missense_Mutation_p.G23W|SGK2_uc002xkq.1_Missense_Mutation_p.G23W	NM_016276	NP_057360	Q9HBY8	SGK2_HUMAN	serum/glucocorticoid regulated kinase 2 isoform	83					intracellular protein kinase cascade|response to oxidative stress		ATP binding|potassium channel regulator activity|protein serine/threonine kinase activity|sodium channel regulator activity			lung(3)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	6		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			CATCAACCTGGGGCCTTCAGC	0.532													28	79	---	---	---	---	PASS	T	42195738	T	T	42195738	3	4	154	1	0	0	0	0	1	0	0	0	14209	1232	43	3	253	3	SGK2	20	42195738	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	7041413	42195738	20829782	252	54940										
PREX1	57580	broad.mit.edu	37	chr20	47266696	47266696	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cagcgggtggggctccagggGggcttgtttgaagggtgggc	22	7	0	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr20:47266696G>A	uc002xtw.1	-	24	2889	c.2866C>T	c.(2866-2868)CCC>TCC	p.P956S	PREX1_uc002xtv.1_Missense_Mutation_p.P253S	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	956					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GGCTCCAGGGGGGCTTGTTTG	0.592													57	159	---	---	---	---	PASS	A	47266696	A	A	47266696	3	1	154	1	0	0	0	0	1	0	0	0	12476	1232	43	3	2181	3	PREX1	20	47266696	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	5070958	47266696	15758824	253	54941										
CTSZ	1522	broad.mit.edu	37	chr20	57581398	57581398	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cgccatagcgctggtgctggCgtgggcccagcaggagccgc	17	14	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr20:57581398C>T	uc002yai.2	-	2	412	c.286G>A	c.(286-288)GCC>ACC	p.A96T	CTSZ_uc002yaj.3_Missense_Mutation_p.A96T	NM_001336	NP_001327	Q9UBR2	CATZ_HUMAN	cathepsin Z preproprotein	96					proteolysis	endoplasmic reticulum|extracellular space|lysosome	cysteine-type endopeptidase activity			kidney(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)			CTGGTGCTGGCGTGGGCCCAG	0.647													6	16	---	---	---	---	PASS	T	57581398	T	T	57581398	3	4	154	1	0	0	0	0	1	0	0	0	4043	768	27	1	645	1	CTSZ	20	57581398	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	10314702	57581398	5444122	254	54942										
KCNQ2	3785	broad.mit.edu	37	chr20	62076601	62076601	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	caggcctcaccaatcacacaGaacggtttccgggcaaactt	8	14	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr20:62076601G>A	uc002yey.1	-	3	681	c.504C>T	c.(502-504)TTC>TTT	p.F168F	KCNQ2_uc002yez.1_Silent_p.F168F|KCNQ2_uc002yfa.1_Silent_p.F168F|KCNQ2_uc002yfb.1_Silent_p.F168F|KCNQ2_uc011aax.1_Silent_p.F168F|KCNQ2_uc002yfc.1_Silent_p.F168F	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	168	Helical; Name=Segment S3; (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	CAATCACACAGAACGGTTTCC	0.657													27	45	---	---	---	---	PASS	A	62076601	A	A	62076601	2	1	154	1	0	0	0	0	0	0	0	1	8083	933	33	2		2	KCNQ2	20	62076601	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	4495203	62076601	948919	255	54943										
NCAM2	4685	broad.mit.edu	37	chr21	22746235	22746235	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gcatggaagctcatcactgcAtattaaagatgtgaagttgt	10	6	2	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr21:22746235A>T	uc002yld.1	+	9	1346	c.1097A>T	c.(1096-1098)CAT>CTT	p.H366L	NCAM2_uc011acb.1_Missense_Mutation_p.H224L|NCAM2_uc011acc.1_Missense_Mutation_p.H391L	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	366	Ig-like C2-type 4.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TCATCACTGCATATTAAAGAT	0.428													59	145	---	---	---	---	PASS	T	22746235	T	T	22746235	3	4	154	1	0	0	0	0	1	0	0	0	10203	217	8	5	1131	5	NCAM2	21	22746235	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08		22746235	25383660	256	54944										
NCAM2	4685	broad.mit.edu	37	chr21	22804459	22804459	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agtccctatggagtgaagatCatagagctgtcgcagaccac	11	10	1	4			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr21:22804459C>A	uc002yld.1	+	12	1761	c.1512C>A	c.(1510-1512)ATC>ATA	p.I504I	NCAM2_uc011acb.1_Silent_p.I362I	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	504	Fibronectin type-III 1.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		GAGTGAAGATCATAGAGCTGT	0.448													39	98	---	---	---	---	PASS	A	22804459	A	A	22804459	2	1	154	1	0	0	0	0	0	0	0	1	10203	816	29	2		2	NCAM2	21	22804459	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	58224	22804459	25325436	257	54945										
NCAM2	4685	broad.mit.edu	37	chr21	22910194	22910194	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cctttaaaggaagaagatggGaaagaagctctaaatccaga	10	6	1	4			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr21:22910194G>A	uc002yld.1	+	18	2679	c.2430G>A	c.(2428-2430)GGG>GGA	p.G810G	NCAM2_uc011acb.1_Silent_p.G668G	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	810	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		AAGAAGATGGGAAAGAAGCTC	0.323													7	141	---	---	---	---	PASS	A	22910194	A	A	22910194	2	1	154	1	0	0	0	0	0	0	0	1	10203	1161	41	2		2	NCAM2	21	22910194	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	105735	22910194	25219701	258	54946										
PRDM15	63977	broad.mit.edu	37	chr21	43248563	43248563	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggtccagcatgacgtccttgCggtagaacatcttgctgcag	12	11	1	2			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr21:43248563C>A	uc002yzq.1	-	19	2702	c.2591G>T	c.(2590-2592)CGC>CTC	p.R864L	PRDM15_uc002yzo.2_Missense_Mutation_p.R535L|PRDM15_uc002yzp.2_Missense_Mutation_p.R555L|PRDM15_uc002yzr.1_Missense_Mutation_p.R555L	NM_022115	NP_071398	P57071	PRD15_HUMAN	PR domain containing 15 isoform 1	864	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GACGTCCTTGCGGTAGAACAT	0.612													115	255	---	---	---	---	PASS	A	43248563	A	A	43248563	3	1	154	1	0	0	0	0	1	0	0	0	12456	768	27	1	1984	1	PRDM15	21	43248563	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08	20338369	43248563	4881332	259	54947										
KRTAP10-10	353333	broad.mit.edu	37	chr21	46057812	46057812	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agtccgtctgctatgtgcctGtgtgctctggggcttccact	12	12	2	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr21:46057812G>T	uc002zfq.2	+	1	540	c.478G>T	c.(478-480)GTG>TTG	p.V160L	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_181688	NP_859016	P60014	KR10A_HUMAN	keratin associated protein 10-10	160	15 X 5 AA repeats of C-C-X(3).					keratin filament					0						CTATGTGCCTGTGTGCTCTGG	0.627													111	291	---	---	---	---	PASS	T	46057812	T	T	46057812	3	4	154	1	0	0	0	0	1	0	0	0	8506	1377	48	3	480	3	KRTAP10-10	21	46057812	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	2809249	46057812	2072083	260	54948										
COL18A1	80781	broad.mit.edu	37	chr21	46932158	46932158	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cgggcgcaggctgaccgagaGctactgtgagacgtggcgga	18	10	0	3			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr21:46932158G>A	uc011afs.1	+	42	5123	c.5102G>A	c.(5101-5103)AGC>AAC	p.S1701N	COL18A1_uc002zhg.2_Missense_Mutation_p.S1286N|COL18A1_uc002zhi.2_Missense_Mutation_p.S1466N|SLC19A1_uc010gpy.1_Intron|COL18A1_uc002zhj.2_Missense_Mutation_p.S267N|COL18A1_uc002zhk.2_Missense_Mutation_p.S111N	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	1704	Nonhelical region 11 (NC11).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		CTGACCGAGAGCTACTGTGAG	0.701													7	5	---	---	---	---	PASS	A	46932158	A	A	46932158	3	1	154	1	0	0	0	0	1	0	0	0	3675	971	34	3	5382	3	COL18A1	21	46932158	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	874346	46932158	1197737	261	54949										
GSC2	2928	broad.mit.edu	37	chr22	19136551	19136551	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gacgccgggcaggagcctcgCggaagccgacgcgcgcttct	16	15	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr22:19136551C>A	uc011ags.1	-	3	571	c.571G>T	c.(571-573)GCG>TCG	p.A191S		NM_005315	NP_005306	O15499	GSC2_HUMAN	goosecoid homeobox 2	191					anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Colorectal(54;0.0993)					AGGAGCCTCGCGGAAGCCGAC	0.652													3	11	---	---	---	---	PASS	A	19136551	A	A	19136551	3	1	154	1	0	0	0	0	1	0	0	0	6815	768	27	1	49	1	GSC2	22	19136551	Missense_Mutation	SNP	C	TCGA-66-2770-01A-01D-1522-08		19136551	32168015	262	54950										
GNB1L	54584	broad.mit.edu	37	chr22	19799846	19799846	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tggcacggcaagcgtccagcGtggctggcccccggccagga	16	15	0	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr22:19799846G>A	uc002zqe.1	-	4	773	c.379C>T	c.(379-381)CGC>TGC	p.R127C	GNB1L_uc002zqd.1_Translation_Start_Site|GNB1L_uc002zqf.1_Missense_Mutation_p.R127C	NM_053004	NP_443730	Q9BYB4	GNB1L_HUMAN	guanine nucleotide binding protein	127					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	internal side of plasma membrane|intracellular				breast(1)	1	Colorectal(54;0.0993)					AGCGTCCAGCGTGGCTGGCCC	0.662													3	30	---	---	---	---	PASS	A	19799846	A	A	19799846	3	1	154	1	0	0	0	0	1	0	0	0	6516	1145	40	1	620	1	GNB1L	22	19799846	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	663295	19799846	31504720	263	54951										
HIC2	23119	broad.mit.edu	37	chr22	21800819	21800819	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggcaaaatgttcacgcagcgCggcaccatgacgcgtcacat	11	13	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr22:21800819C>T	uc002zur.3	+	3	1865	c.1635C>T	c.(1633-1635)CGC>CGT	p.R545R	HIC2_uc002zus.3_Silent_p.R545R	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	545	C2H2-type 3.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				TCACGCAGCGCGGCACCATGA	0.637													11	61	---	---	---	---	PASS	T	21800819	T	T	21800819	2	4	154	1	0	0	0	0	0	0	0	1	7102	755	27	1		1	HIC2	22	21800819	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	2000973	21800819	29503747	264	54952										
TUBGCP6	85378	broad.mit.edu	37	chr22	50665440	50665440	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	caactcacggtgggaaacgcGgccctggggcctcctccaca	12	16	1	0	rs145215576		TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chr22:50665440G>A	uc003bkb.1	-	6	1991	c.1479C>T	c.(1477-1479)GCC>GCT	p.A493A	TUBGCP6_uc010har.1_Silent_p.A493A|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hat.1_5'Flank|TUBGCP6_uc003bkd.1_5'Flank	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	493					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		TGGGAAACGCGGCCCTGGGGC	0.687													5	9	---	---	---	---	PASS	A	50665440	A	A	50665440	2	1	154	1	0	0	0	0	0	0	0	1	16767	1103	39	1		1	TUBGCP6	22	50665440	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	28864621	50665440	639126	265	54953										
GYG2	8908	broad.mit.edu	37	chrX	2773036	2773036	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cgtgttttgcttcaccaggtGctgtccaatgtcgatgagct	11	10	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chrX:2773036G>T	uc004cqs.1	+	6	702	c.420G>T	c.(418-420)GTG>GTT	p.V140V	GYG2_uc004cqt.1_Silent_p.V109V|GYG2_uc004cqu.1_Silent_p.V109V|GYG2_uc004cqv.1_5'UTR|GYG2_uc004cqw.1_Silent_p.V100V|GYG2_uc004cqx.1_Silent_p.V109V|GYG2_uc010ndc.1_5'UTR	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b	140					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TTCACCAGGTGCTGTCCAATG	0.438													39	19	---	---	---	---	PASS	T	2773036	T	T	2773036	2	4	154	1	0	0	0	0	0	0	0	1	6906	1306	46	3		3	GYG2	23	2773036	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08		2773036	152497524	266	54954										
IL1RAPL1	11141	broad.mit.edu	37	chrX	29959823	29959823	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	ggtgctatactcttgctgctTgtatgtttggtgaccatcta	10	8	2	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chrX:29959823T>G	uc004dby.2	+	9	1621	c.1113T>G	c.(1111-1113)CTT>CTG	p.L371L		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	371	Helical; (Potential).				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						TCTTGCTGCTTGTATGTTTGG	0.413													128	129	---	---	---	---	PASS	G	29959823	G	G	29959823	2	3	154	1	0	0	0	0	0	0	0	1	7661	1799	63	5		5	IL1RAPL1	23	29959823	Silent	SNP	T	TCGA-66-2770-01A-01D-1522-08	27186787	29959823	125310737	267	54955										
DMD	1756	broad.mit.edu	37	chrX	32456493	32456494	+	Frame_Shift_Ins	INS	-	A	A													0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tatcctctgaatgtcgcatcINSaaattttcaagtgactgaaa							TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chrX:32456493_32456494insA	uc004dda.1	-	29	4179_4180	c.3935_3936insT	c.(3934-3936)TTGfs	p.L1312fs	DMD_uc004dcz.2_Frame_Shift_Ins_p.L1189fs|DMD_uc004dcy.1_Frame_Shift_Ins_p.L1308fs|DMD_uc004ddb.1_Frame_Shift_Ins_p.L1304fs|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1312	Spectrin 9.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AATGTCGCATCAAATTTTCAAG	0.361													46	69	---	---	---	---		A	32456494	A	A	32456493	7	5	154	1	0	1	1	0	0	0	0	0	4580	825	29	0	7568	0	DMD	23	32456493	Frame_Shift_Ins	INS	-	TCGA-66-2770-01A-01D-1522-08	2496670	32456493	122814067	268	54956										
NAP1L3	4675	broad.mit.edu	37	chrX	92927259	92927259	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	acttacaggctggccaggttTtgagaacttcaggctaacat	10	9	1	1			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chrX:92927259T>G	uc004efq.2	-	1	1350	c.1045A>C	c.(1045-1047)AAA>CAA	p.K349Q	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	349					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						TGGCCAGGTTTTGAGAACTTC	0.403													38	38	---	---	---	---	PASS	G	92927259	G	G	92927259	3	3	154	1	0	0	0	0	1	0	0	0	10158	1850	64	5	479	5	NAP1L3	23	92927259	Missense_Mutation	SNP	T	TCGA-66-2770-01A-01D-1522-08	60470766	92927259	62343301	269	54957										
GLUD2	2747	broad.mit.edu	37	chrX	120181718	120181718	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	agcgagttggtggccgaccgCgaggacgaccccaacttctt	13	13	1	0			TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chrX:120181718C>A	uc004eto.2	+	1	257	c.180C>A	c.(178-180)CGC>CGA	p.R60R		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	60					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	TGGCCGACCGCGAGGACGACC	0.692													23	19	---	---	---	---	PASS	A	120181718	A	A	120181718	2	1	154	1	0	0	0	0	0	0	0	1	6477	755	27	1		1	GLUD2	23	120181718	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	27254459	120181718	35088842	270	54958										
DCAF12L2	340578	broad.mit.edu	37	chrX	125298951	125298951	+	Silent	SNP	G	T	T													0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	tgagagcccacagcgtacagGgacaactcatcacagtaggt							TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chrX:125298951G>T	uc004euk.1	-	1	984	c.957C>A	c.(955-957)TCC>TCA	p.S319S		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	319										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						CAGCGTACAGGGACAACTCAT	0.622													47	59	---	---	---	---	PASS	T	125298951	T	T	125298951	2	4	154	1	0	0	0	0	0	0	0	1	4265	1219	43	3		3	DCAF12L2	23	125298951	Silent	SNP	G	TCGA-66-2770-01A-01D-1522-08	5117233	125298951	29971609	271	54959	986	2								
DCAF12L2	340578	broad.mit.edu	37	chrX	125298952	125298952	+	Missense_Mutation	SNP	G	T	T													0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gagagcccacagcgtacaggGacaactcatcacagtaggtc							TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chrX:125298952G>T	uc004euk.1	-	1	983	c.956C>A	c.(955-957)TCC>TAC	p.S319Y		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	319										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						AGCGTACAGGGACAACTCATC	0.617													46	61	---	---	---	---	PASS	T	125298952	T	T	125298952	3	4	154	1	0	0	0	0	1	0	0	0	4265	1174	41	2	439	2	DCAF12L2	23	125298952	Missense_Mutation	SNP	G	TCGA-66-2770-01A-01D-1522-08	1	125298952	29971608	272	54960	986	2								
CTAG2	30848	broad.mit.edu	37	chrX	153880852	153880852	+	Missense_Mutation	SNP	A	C	C													0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	gtgcggcatcccgggacaggAtcctgcggaccagctccgct							TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chrX:153880852A>C	uc004fmi.1	-	2	376	c.323T>G	c.(322-324)ATC>AGC	p.I108S	CTAG2_uc004fmh.1_Missense_Mutation_p.I108S	NM_020994	NP_066274	O75638	CTAG2_HUMAN	cancer/testis antigen 2 isoform LAGE-1b	108						centrosome				pancreas(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCGGGACAGGATCCTGCGGAC	0.617													14	20	---	---	---	---	PASS	C	153880852	C	C	153880852	3	2	154	1	0	0	0	0	1	0	0	0	3991	333	12	5	452	5	CTAG2	23	153880852	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	28581900	153880852	1389708	273	54961	987	3								
CTAG2	30848	broad.mit.edu	37	chrX	153880861	153880861	+	Missense_Mutation	SNP	A	G	G													0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	cccgggacaggatcctgcggAccagctccgcttccatgggc							TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chrX:153880861A>G	uc004fmi.1	-	2	367	c.314T>C	c.(313-315)GTC>GCC	p.V105A	CTAG2_uc004fmh.1_Missense_Mutation_p.V105A	NM_020994	NP_066274	O75638	CTAG2_HUMAN	cancer/testis antigen 2 isoform LAGE-1b	105						centrosome				pancreas(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GATCCTGCGGACCAGCTCCGC	0.612													8	21	---	---	---	---	PASS	G	153880861	G	G	153880861	3	3	154	1	0	0	0	0	1	0	0	0	3991	275	10	5	461	5	CTAG2	23	153880861	Missense_Mutation	SNP	A	TCGA-66-2770-01A-01D-1522-08	9	153880861	1389699	274	54962	987	3								
CTAG2	30848	broad.mit.edu	37	chrX	153880869	153880869	+	Silent	SNP	C	T	T													0.0592592592592593	16	0.435075926669109	1.11123062631399	1.07019085886489	1.12115232833465	0.00704802465559796	0.0693055757800466	0	aggatcctgcggaccagctcCgcttccatgggcgacgagaa							TCGA-66-2770-01A-01D-1522-08	TCGA-66-2770-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	e417903d-ab76-44f0-aae9-3a91fa9a8d3c	3755168b-f5da-422d-847a-566cb112a8d7	g.chrX:153880869C>T	uc004fmi.1	-	2	359	c.306G>A	c.(304-306)GCG>GCA	p.A102A	CTAG2_uc004fmh.1_Silent_p.A102A	NM_020994	NP_066274	O75638	CTAG2_HUMAN	cancer/testis antigen 2 isoform LAGE-1b	102						centrosome				pancreas(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGACCAGCTCCGCTTCCATGG	0.612													10	16	---	---	---	---	PASS	T	153880869	T	T	153880869	2	4	154	1	0	0	0	0	0	0	0	1	3991	639	23	1		1	CTAG2	23	153880869	Silent	SNP	C	TCGA-66-2770-01A-01D-1522-08	8	153880869	1389691	275	54963	987	3								
DVL1	1855	broad.mit.edu	37	chr1	1275504	1275504	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gccaatgtagatgccgccgtCtccacggtcgttgctctgcc	11	15	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:1275504C>G	uc001aer.3	-	8	870	c.823G>C	c.(823-825)GAC>CAC	p.D275H	DVL1_uc002quu.2_5'UTR|DVL1_uc009vka.2_5'UTR|DVL1_uc001aeu.1_5'UTR	NM_004421	NP_004412	O14640	DVL1_HUMAN	dishevelled 1	275	PDZ.				canonical Wnt receptor signaling pathway|dendrite morphogenesis|intracellular signal transduction|negative regulation of protein binding|negative regulation of protein kinase activity|neural tube development|neuromuscular junction development|neurotransmitter secretion|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein localization to nucleus|receptor clustering|transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, planar cell polarity pathway	cytoplasmic membrane-bounded vesicle|cytosol|plasma membrane|synapse|synaptosome	frizzled binding|identical protein binding|protein kinase binding|signal transducer activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		ATGCCGCCGTCTCCACGGTCG	0.652													3	23	---	---	---	---	PASS	G	1275504	G	G	1275504	3	3	155	1	0	0	0	0	1	0	0	0	4835	913	32	2	1221	2	DVL1	1	1275504	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08		1275504	247975117	1	54964										
CAMTA1	23261	broad.mit.edu	37	chr1	7725174	7725174	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cgaggtggtctcggccgcctCggcccagggcaccctaggca	15	16	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:7725174C>T	uc001aoi.2	+	9	2774	c.2567C>T	c.(2566-2568)TCG>TTG	p.S856L		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	856					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		TCGGCCGCCTCGGCCCAGGGC	0.677													7	27	---	---	---	---	PASS	T	7725174	T	T	7725174	3	4	155	1	0	0	0	0	1	0	0	0	2613	893	31	2	2601	2	CAMTA1	1	7725174	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	6449670	7725174	241525447	2	54965										
PADI4	23569	broad.mit.edu	37	chr1	17690223	17690223	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gtgcgcagaaagcccttctcCttcaagtggtggaacatggt	12	10	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:17690223C>A	uc001baj.2	+	16	1993	c.1965C>A	c.(1963-1965)TCC>TCA	p.S655S		NM_012387	NP_036519	Q9UM07	PADI4_HUMAN	peptidyl arginine deiminase, type IV	655					chromatin modification|peptidyl-citrulline biosynthetic process from peptidyl-arginine|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000338)|Lung NSC(340;0.00042)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00537)|BRCA - Breast invasive adenocarcinoma(304;8.54e-06)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(64;0.000223)|KIRC - Kidney renal clear cell carcinoma(64;0.00313)|STAD - Stomach adenocarcinoma(196;0.00707)|READ - Rectum adenocarcinoma(331;0.0689)|Lung(427;0.199)	L-Citrulline(DB00155)	AGCCCTTCTCCTTCAAGTGGT	0.602													4	31	---	---	---	---	PASS	A	17690223	A	A	17690223	2	1	155	1	0	0	0	0	0	0	0	1	11380	668	24	3		3	PADI4	1	17690223	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	9965049	17690223	231560398	3	54966										
USP48	84196	broad.mit.edu	37	chr1	22033294	22033294	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcaggagcctttggaaagtaCtgctgcagtttgctccaagc	11	10	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:22033294C>A	uc001bfb.2	-	16	2269	c.2031G>T	c.(2029-2031)CAG>CAT	p.Q677H	USP48_uc001bfa.2_Missense_Mutation_p.Q215H|USP48_uc010odq.1_Missense_Mutation_p.Q689H|USP48_uc009vqc.2_Missense_Mutation_p.Q611H|USP48_uc001bfc.2_Missense_Mutation_p.Q677H|USP48_uc001bfd.1_5'Flank	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	677	DUSP 2.				ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		TTGGAAAGTACTGCTGCAGTT	0.403													18	65	---	---	---	---	PASS	A	22033294	A	A	22033294	3	1	155	1	0	0	0	0	1	0	0	0	17076	564	20	3	1124	3	USP48	1	22033294	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	4343071	22033294	227217327	4	54967										
DLGAP3	58512	broad.mit.edu	37	chr1	35351124	35351124	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttccgctgccgcgccaggctCcgcagctcctccctgccagg	11	20	0	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:35351124C>G	uc001byc.2	-	5	1869	c.1869G>C	c.(1867-1869)CGG>CGC	p.R623R		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	623					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				GCGCCAGGCTCCGCAGCTCCT	0.721													4	9	---	---	---	---	PASS	G	35351124	G	G	35351124	2	3	155	1	0	0	0	0	0	0	0	1	4561	842	30	2		2	DLGAP3	1	35351124	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	13317830	35351124	213899497	5	54968										
ZMYM1	79830	broad.mit.edu	37	chr1	35579229	35579229	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gagcaaaagataaaggagaaGaaacatttcgacttatgaat	9	4	0	4			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:35579229G>A	uc001bym.2	+	11	1946	c.1798G>A	c.(1798-1800)GAA>AAA	p.E600K	ZMYM1_uc001byn.2_Missense_Mutation_p.E600K|ZMYM1_uc010ohu.1_Missense_Mutation_p.E581K|ZMYM1_uc001byo.2_Missense_Mutation_p.E240K|ZMYM1_uc009vut.2_Missense_Mutation_p.E525K	NM_024772	NP_079048	Q5SVZ6	ZMYM1_HUMAN	zinc finger, MYM domain containing 1	600						nucleus	nucleic acid binding|protein dimerization activity|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TAAAGGAGAAGAAACATTTCG	0.318													6	27	---	---	---	---	PASS	A	35579229	A	A	35579229	3	1	155	1	0	0	0	0	1	0	0	0	17696	943	33	2	1832	2	ZMYM1	1	35579229	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	228105	35579229	213671392	6	54969										
CLSPN	63967	broad.mit.edu	37	chr1	36202137	36202137	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agatgcttcgcgtcaatcctGaagtgctatcatctgttttg	9	9	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:36202137G>A	uc001bzi.2	-	25	4060	c.3980C>T	c.(3979-3981)TCA>TTA	p.S1327L	CLSPN_uc009vux.2_Missense_Mutation_p.S1263L	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	1327					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CGTCAATCCTGAAGTGCTATC	0.443													9	64	---	---	---	---	PASS	A	36202137	A	A	36202137	3	1	155	1	0	0	0	0	1	0	0	0	3560	1294	45	2	43	2	CLSPN	1	36202137	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	622908	36202137	213048484	7	54970										
EIF2C3	192669	broad.mit.edu	37	chr1	36479647	36479647	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cagtgcagagaagaaatattGaagtaagacatgtcattacc	9	6	1	4			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:36479647G>C	uc001bzp.2	+	11	1660	c.1404G>C	c.(1402-1404)TTG>TTC	p.L468F	EIF2C3_uc001bzq.2_Missense_Mutation_p.L234F	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	468					mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				AAGAAATATTGAAGTAAGACA	0.378													6	91	---	---	---	---	PASS	C	36479647	C	C	36479647	3	2	155	1	0	0	0	0	1	0	0	0	5007	1281	45	2	1446	2	EIF2C3	1	36479647	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	277510	36479647	212770974	8	54971										
FAM176B	55194	broad.mit.edu	37	chr1	36788602	36788602	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cgcgtaggcagccaggctgtTgctgagcaactccatgtccc	12	14	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:36788602T>G	uc001cai.1	-	1	248	c.37A>C	c.(37-39)AAC>CAC	p.N13H	C1orf113_uc010oic.1_Intron|FAM176B_uc001caj.1_Missense_Mutation_p.N13H	NM_018166	NP_060636	Q9NVM1	F176B_HUMAN	hypothetical protein LOC55194	13						integral to membrane				pancreas(1)	1						GCCAGGCTGTTGCTGAGCAAC	0.667													9	21	---	---	---	---	PASS	G	36788602	G	G	36788602	3	3	155	1	0	0	0	0	1	0	0	0	5500	1812	63	5	468	5	FAM176B	1	36788602	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	308955	36788602	212462019	9	54972										
ZSWIM5	57643	broad.mit.edu	37	chr1	45484503	45484503	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	actcttcaccaccagggggaTgagagctgccagctcattct	10	13	4	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:45484503T>G	uc001cnd.2	-	14	3409	c.3181A>C	c.(3181-3183)ATC>CTC	p.I1061L		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	1061							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					ACCAGGGGGATGAGAGCTGCC	0.582											OREG0013450	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	28	---	---	---	---	PASS	G	45484503	G	G	45484503	3	3	155	1	0	0	0	0	1	0	0	0	18241	1464	51	5	380	5	ZSWIM5	1	45484503	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	8695901	45484503	203766118	10	54973										
SPATA6	54558	broad.mit.edu	37	chr1	48771547	48771547	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atctttctctaggtctctctCatcctgaaaaattttaaaga	4	9	4	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:48771547C>A	uc001crr.1	-	12	1363	c.1198G>T	c.(1198-1200)GAG>TAG	p.E400*	SPATA6_uc001crs.1_Nonsense_Mutation_p.E384*|SPATA6_uc010omv.1_Nonsense_Mutation_p.E386*	NM_019073	NP_061946	Q9NWH7	SPAT6_HUMAN	spermatogenesis associated 6 precursor	400					cell differentiation|multicellular organismal development|spermatogenesis	extracellular region				ovary(1)	1						AGGTCTCTCTCATCCTGAAAA	0.368													19	53	---	---	---	---	PASS	A	48771547	A	A	48771547	4	1	155	1	0	0	0	0	0	1	0	0	15012	835	29	2	276	2	SPATA6	1	48771547	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	3287044	48771547	200479074	11	54974										
NRD1	4898	broad.mit.edu	37	chr1	52266248	52266248	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttggccaaagtctcgggcttGatgaggatgttaaagtaggt	14	5	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:52266248G>C	uc001ctc.3	-	23	2947	c.2625C>G	c.(2623-2625)ATC>ATG	p.I875M	NRD1_uc009vzb.2_Missense_Mutation_p.I570M|NRD1_uc001ctd.3_Missense_Mutation_p.I807M|NRD1_uc001cte.2_Missense_Mutation_p.I743M|NRD1_uc001ctf.2_Missense_Mutation_p.I807M|NRD1_uc010ong.1_RNA	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	806					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						TCTCGGGCTTGATGAGGATGT	0.428													5	114	---	---	---	---	PASS	C	52266248	C	C	52266248	3	2	155	1	0	0	0	0	1	0	0	0	10645	1280	45	2	1078	2	NRD1	1	52266248	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	3494701	52266248	196984373	12	54975										
CPT2	1376	broad.mit.edu	37	chr1	53676146	53676146	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgggaacattgtgagcccctCggaaatccaggcacatctga	11	11	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:53676146C>G	uc001cvb.3	+	4	1315	c.800C>G	c.(799-801)TCG>TGG	p.S267W		NM_000098	NP_000089	P23786	CPT2_HUMAN	carnitine O-palmitoyltransferase precursor	267	Mitochondrial matrix (By similarity).				carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	mitochondrial inner membrane	carnitine O-palmitoyltransferase activity				0					L-Carnitine(DB00583)|Perhexiline(DB01074)	GTGAGCCCCTCGGAAATCCAG	0.512													6	83	---	---	---	---	PASS	G	53676146	G	G	53676146	3	3	155	1	0	0	0	0	1	0	0	0	3834	893	31	2	814	2	CPT2	1	53676146	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	1409898	53676146	195574475	13	54976										
ALG6	29929	broad.mit.edu	37	chr1	63876833	63876833	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	acatatataattctgtgagtCttggctttgctttgtggggt	11	5	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:63876833C>G	uc010oow.1	+	8	816	c.511C>G	c.(511-513)CTT>GTT	p.L171V	ALG6_uc001daz.2_RNA|ALG6_uc009waj.2_RNA|ALG6_uc010oox.1_5'UTR	NM_013339	NP_037471	Q9Y672	ALG6_HUMAN	dolichyl pyrophosphate Man9GlcNAc2	171					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity				0						TTCTGTGAGTCTTGGCTTTGC	0.358													4	116	---	---	---	---	PASS	G	63876833	G	G	63876833	3	3	155	1	0	0	0	0	1	0	0	0	522	913	32	2	537	2	ALG6	1	63876833	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	10200687	63876833	185373788	14	54977										
LRRC7	57554	broad.mit.edu	37	chr1	70504896	70504896	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gttttcattttctcagccatCtgtgaatgaggatgctgtgg	11	7	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:70504896C>T	uc001dep.2	+	19	3305	c.3275C>T	c.(3274-3276)TCT>TTT	p.S1092F	LRRC7_uc009wbg.2_Missense_Mutation_p.S376F|LRRC7_uc001deq.2_Missense_Mutation_p.S333F	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1092						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TCTCAGCCATCTGTGAATGAG	0.532													17	37	---	---	---	---	PASS	T	70504896	T	T	70504896	3	4	155	1	0	0	0	0	1	0	0	0	9020	913	32	2	3349	2	LRRC7	1	70504896	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	6628063	70504896	178745725	15	54978										
LRRC7	57554	broad.mit.edu	37	chr1	70518754	70518754	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tagacaatggacaagaagatGtatctcctagtggccaatgg	11	7	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:70518754G>T	uc001dep.2	+	21	4072	c.4042G>T	c.(4042-4044)GTA>TTA	p.V1348L	LRRC7_uc009wbg.2_Missense_Mutation_p.V632L|LRRC7_uc001deq.2_Missense_Mutation_p.V542L	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1348						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						ACAAGAAGATGTATCTCCTAG	0.408													11	45	---	---	---	---	PASS	T	70518754	T	T	70518754	3	4	155	1	0	0	0	0	1	0	0	0	9020	1377	48	3	4124	3	LRRC7	1	70518754	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	13858	70518754	178731867	16	54979										
ASB17	127247	broad.mit.edu	37	chr1	76387905	76387905	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gagtactattgttaagacaaTgttgatagggtttttttctc	9	4	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:76387905T>G	uc001dhe.1	-	2	681	c.541A>C	c.(541-543)ATT>CTT	p.I181L	ASB17_uc001dhf.1_RNA	NM_080868	NP_543144	Q8WXJ9	ASB17_HUMAN	ankyrin repeat and SOCS box-containing 17	181					intracellular signal transduction					ovary(1)	1						GTTAAGACAATGTTGATAGGG	0.363													10	36	---	---	---	---	PASS	G	76387905	G	G	76387905	3	3	155	1	0	0	0	0	1	0	0	0	1021	1464	51	5	354	5	ASB17	1	76387905	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	5869151	76387905	172862716	17	54980										
LPHN2	23266	broad.mit.edu	37	chr1	82436211	82436211	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	actataagagctatggaacaGaaaaagcgtaagtaattgca	9	5	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:82436211G>C	uc001dit.3	+	15	3077	c.2896G>C	c.(2896-2898)GAA>CAA	p.E966Q	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.E966Q|LPHN2_uc001div.2_Missense_Mutation_p.E966Q|LPHN2_uc009wcd.2_Missense_Mutation_p.E966Q|LPHN2_uc001diw.2_Missense_Mutation_p.E550Q|LPHN2_uc009wce.1_Missense_Mutation_p.E52Q	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	979	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		CTATGGAACAGAAAAAGCGTA	0.373													9	27	---	---	---	---	PASS	C	82436211	C	C	82436211	3	2	155	1	0	0	0	0	1	0	0	0	8916	943	33	2	2946	2	LPHN2	1	82436211	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	6048306	82436211	166814410	18	54981										
COL24A1	255631	broad.mit.edu	37	chr1	86590590	86590590	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttcaagcattgtatttagatCctcataataataataatcat	3	6	3	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:86590590C>A	uc001dlj.2	-	3	1471	c.1429G>T	c.(1429-1431)GAT>TAT	p.D477Y	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.D477Y	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	477					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)		GTATTTAGATCCTCATAATAA	0.338													9	27	---	---	---	---	PASS	A	86590590	A	A	86590590	3	1	155	1	0	0	0	0	1	0	0	0	3683	855	30	2	3947	2	COL24A1	1	86590590	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	4154379	86590590	162660031	19	54982										
COL11A1	1301	broad.mit.edu	37	chr1	103461545	103461545	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgaaaacaatttaacgttacCtttactccccgggggcccgg	9	12	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:103461545C>G	uc001dul.2	-	27	2613	c.2295G>C	c.(2293-2295)AAG>AAC	p.K765N	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Missense_Mutation_p.K777N|COL11A1_uc001dun.2_Missense_Mutation_p.K726N|COL11A1_uc009weh.2_Missense_Mutation_p.K649N	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	765	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TTAACGTTACCTTTACTCCCC	0.398													3	33	---	---	---	---	PASS	G	103461545	G	G	103461545	3	3	155	1	0	0	0	0	1	0	0	0	3667	695	24	4	3289	4	COL11A1	1	103461545	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	16870955	103461545	145789076	20	54983										
CSDE1	7812	broad.mit.edu	37	chr1	115269613	115269613	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aattatcttgccttatctccTatttgaggagaagtagatcc	7	8	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:115269613T>C	uc001efk.2	-	13	1921	c.1455A>G	c.(1453-1455)ATA>ATG	p.I485M	CSDE1_uc001efi.2_Missense_Mutation_p.I531M|CSDE1_uc001efj.2_RNA|CSDE1_uc001efl.2_Missense_Mutation_p.I454M|CSDE1_uc001efm.2_Missense_Mutation_p.I500M|CSDE1_uc009wgv.2_Missense_Mutation_p.I485M|CSDE1_uc001efn.2_Missense_Mutation_p.I454M	NM_001007553	NP_001007554	O75534	CSDE1_HUMAN	upstream of NRAS isoform 1	485	CSD 6.				male gonad development|regulation of transcription, DNA-dependent	cytoplasm	DNA binding|protein binding|RNA binding			ovary(1)	1	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;2.21e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCTTATCTCCTATTTGAGGAG	0.403													8	18	---	---	---	---	PASS	C	115269613	C	C	115269613	3	2	155	1	0	0	0	0	1	0	0	0	3929	1512	53	5	973	5	CSDE1	1	115269613	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	11808068	115269613	133981008	21	54984										
UBAP2L	9898	broad.mit.edu	37	chr1	154227733	154227733	+	Missense_Mutation	SNP	A	C	C													0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	actgacgacaaccaatcagcAttcatcctccttgggtggct							TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:154227733A>C	uc001fep.3	+	17	2182	c.2015A>C	c.(2014-2016)CAT>CCT	p.H672P	UBAP2L_uc009wot.2_Missense_Mutation_p.H672P|UBAP2L_uc010pek.1_Missense_Mutation_p.H664P|UBAP2L_uc010pel.1_Missense_Mutation_p.H682P|UBAP2L_uc010pen.1_Missense_Mutation_p.H586P|UBAP2L_uc001feq.2_5'UTR|UBAP2L_uc001fer.2_5'Flank	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	672					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)			ACCAATCAGCATTCATCCTCC	0.502													10	68	---	---	---	---	PASS	C	154227733	C	C	154227733	3	2	155	1	0	0	0	0	1	0	0	0	16835	217	8	5	2077	5	UBAP2L	1	154227733	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	38958120	154227733	95022888	22	54985	988	2								
UBAP2L	9898	broad.mit.edu	37	chr1	154227736	154227736	+	Missense_Mutation	SNP	C	T	T													0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gacgacaaccaatcagcattCatcctccttgggtggcttga							TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:154227736C>T	uc001fep.3	+	17	2185	c.2018C>T	c.(2017-2019)TCA>TTA	p.S673L	UBAP2L_uc009wot.2_Missense_Mutation_p.S673L|UBAP2L_uc010pek.1_Missense_Mutation_p.S665L|UBAP2L_uc010pel.1_Missense_Mutation_p.S683L|UBAP2L_uc010pen.1_Missense_Mutation_p.S587L|UBAP2L_uc001feq.2_5'UTR|UBAP2L_uc001fer.2_5'Flank	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	673					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)			AATCAGCATTCATCCTCCTTG	0.507													9	71	---	---	---	---	PASS	T	154227736	T	T	154227736	3	4	155	1	0	0	0	0	1	0	0	0	16835	838	29	2	2080	2	UBAP2L	1	154227736	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	3	154227736	95022885	23	54986	988	2								
CD5L	922	broad.mit.edu	37	chr1	157805709	157805709	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agccaatgtatcttctgttcCtgtgcaactgactgattgga	9	9	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:157805709C>A	uc001frk.3	-	3	435	c.292G>T	c.(292-294)GGA>TGA	p.G98*		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	98	SRCR 1.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TCTTCTGTTCCTGTGCAACTG	0.493													52	104	---	---	---	---	PASS	A	157805709	A	A	157805709	4	1	155	1	0	0	0	0	0	1	0	0	3027	690	24	3	767	3	CD5L	1	157805709	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	3577973	157805709	91444912	24	54987										
SPTA1	6708	broad.mit.edu	37	chr1	158644424	158644424	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cagcagtcttctcgttcatcCagcctgagagttcatcaaag	8	12	5	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:158644424C>A	uc001fst.1	-	9	1353	c.1154G>T	c.(1153-1155)TGG>TTG	p.W385L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	385	Spectrin 5.				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)					CTCGTTCATCCAGCCTGAGAG	0.468													6	124	---	---	---	---	PASS	A	158644424	A	A	158644424	3	1	155	1	0	0	0	0	1	0	0	0	15115	595	21	3	6281	3	SPTA1	1	158644424	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	838715	158644424	90606197	25	54988										
FCER1G	2207	broad.mit.edu	37	chr1	161185114	161185114	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gccgatctccagcccaagatGattccagcagtggtcttgct	10	13	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:161185114G>A	uc001fyz.1	+	1	28	c.3G>A	c.(1-3)ATG>ATA	p.M1I	FCER1G_uc001fza.1_Missense_Mutation_p.M1I	NM_004106	NP_004097	P30273	FCERG_HUMAN	Fc fragment of IgE, high affinity I, receptor	1					platelet activation	integral to plasma membrane					0	all_cancers(52;1.35e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Benzylpenicilloyl Polylysine(DB00895)	AGCCCAAGATGATTCCAGCAG	0.572													20	58	---	---	---	---	PASS	A	161185114	A	A	161185114	3	1	155	1	0	0	0	0	1	0	0	0	5775	1290	45	2	5	2	FCER1G	1	161185114	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	2540690	161185114	88065507	26	54989										
UHMK1	127933	broad.mit.edu	37	chr1	162468041	162468041	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ggcggcgctggaacagttgcAgggtcacagaaacatcggta	15	9	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:162468041A>T	uc001gcc.1	+	1	387	c.251A>T	c.(250-252)CAG>CTG	p.Q84L	UHMK1_uc001gcb.1_Intron|UHMK1_uc009wuu.1_Missense_Mutation_p.Q84L	NM_175866	NP_787062	Q8TAS1	UHMK1_HUMAN	kinase interacting stathmin	84	Protein kinase.				cell cycle arrest|neuron projection development|peptidyl-serine phosphorylation|positive regulation of translational initiation|protein autophosphorylation|regulation of protein export from nucleus	axon|dendrite cytoplasm|neuronal RNA granule|nucleus	protein binding|protein serine/threonine kinase activity|ribonucleoprotein binding|RNA binding				0	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			GAACAGTTGCAGGGTCACAGA	0.602													5	21	---	---	---	---	PASS	T	162468041	T	T	162468041	3	4	155	1	0	0	0	0	1	0	0	0	16963	188	7	5	303	5	UHMK1	1	162468041	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	1282927	162468041	86782580	27	54990										
DDR2	4921	broad.mit.edu	37	chr1	162725039	162725039	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tccggttcattccagtcaccGaccactccatgaatgtgtgt	8	13	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:162725039G>T	uc001gcf.2	+	7	976	c.511G>T	c.(511-513)GAC>TAC	p.D171Y	DDR2_uc001gcg.2_Missense_Mutation_p.D171Y	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	171	Extracellular (Potential).|F5/8 type C.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			TCCAGTCACCGACCACTCCAT	0.478													12	48	---	---	---	---	PASS	T	162725039	T	T	162725039	3	4	155	1	0	0	0	0	1	0	0	0	4337	1058	37	2	525	2	DDR2	1	162725039	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	256998	162725039	86525582	28	54991										
TBX19	9095	broad.mit.edu	37	chr1	168260586	168260586	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcacccggactcccccaactTtggggcccactggatgaaag	10	15	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:168260586T>G	uc001gfl.2	+	2	443	c.392T>G	c.(391-393)TTT>TGT	p.F131C	TBX19_uc001gfj.3_Missense_Mutation_p.F62C	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	131	T-box.				anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					TCCCCCAACTTTGGGGCCCAC	0.602													30	107	---	---	---	---	PASS	G	168260586	G	G	168260586	3	3	155	1	0	0	0	0	1	0	0	0	15651	1841	64	5	398	5	TBX19	1	168260586	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	5535547	168260586	80990035	29	54992										
SERPINC1	462	broad.mit.edu	37	chr1	173873178	173873178	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcacaacagcggtacttgcaGctgcttcactgccttcttca	7	14	4	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:173873178G>T	uc001gjt.2	-	7	1363	c.1244C>A	c.(1243-1245)GCT>GAT	p.A415D		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	415					blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	GGTACTTGCAGCTGCTTCACT	0.463													7	42	---	---	---	---	PASS	T	173873178	T	T	173873178	3	4	155	1	0	0	0	0	1	0	0	0	14109	971	34	3	154	3	SERPINC1	1	173873178	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	5612592	173873178	75377443	30	54993										
TNR	7143	broad.mit.edu	37	chr1	175362941	175362941	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaatgaagctgatttcccacCcatcgaaggaaaatgagaag	10	8	0	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:175362941C>A	uc001gkp.1	-	4	1412	c.1331G>T	c.(1330-1332)GGG>GTG	p.G444V	TNR_uc009wwu.1_Missense_Mutation_p.G444V|TNR_uc010pmz.1_3'UTR	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	444	Fibronectin type-III 2.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GATTTCCCACCCATCGAAGGA	0.473													38	195	---	---	---	---	PASS	A	175362941	A	A	175362941	3	1	155	1	0	0	0	0	1	0	0	0	16335	623	22	3	2817	3	TNR	1	175362941	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	1489763	175362941	73887680	31	54994										
CEP350	9857	broad.mit.edu	37	chr1	179966134	179966134	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gcggcgacaacatgatgtcaAactggaaaaacttaaggaac	10	8	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:179966134A>G	uc001gnt.2	+	6	1225	c.842A>G	c.(841-843)AAA>AGA	p.K281R	CEP350_uc001gnr.1_Missense_Mutation_p.K255R|CEP350_uc009wxl.2_Missense_Mutation_p.K280R|CEP350_uc001gnu.2_Missense_Mutation_p.K115R	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	281						centrosome|nucleus|spindle				ovary(4)	4						CATGATGTCAAACTGGAAAAA	0.423													30	97	---	---	---	---	PASS	G	179966134	G	G	179966134	3	3	155	1	0	0	0	0	1	0	0	0	3254	14	1	5	860	5	CEP350	1	179966134	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	4603193	179966134	69284487	32	54995										
HMCN1	83872	broad.mit.edu	37	chr1	186017921	186017921	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tggtcgttacacttgtgaagCaacaaatgttgctggaaaaa	10	6	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:186017921C>T	uc001grq.1	+	42	6756	c.6527C>T	c.(6526-6528)GCA>GTA	p.A2176V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2176	Ig-like C2-type 19.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						ACTTGTGAAGCAACAAATGTT	0.358													17	28	---	---	---	---	PASS	T	186017921	T	T	186017921	3	4	155	1	0	0	0	0	1	0	0	0	7220	710	25	3	6693	3	HMCN1	1	186017921	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	6051787	186017921	63232700	33	54996										
TROVE2	6738	broad.mit.edu	37	chr1	193038725	193038725	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaaatggctggtctcacaaaGatctattaagattgtcacat	8	7	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:193038725G>C	uc001gss.2	+	2	716	c.541G>C	c.(541-543)GAT>CAT	p.D181H	TROVE2_uc001gst.1_Intron|TROVE2_uc001gsu.1_Intron|TROVE2_uc001gsv.1_Missense_Mutation_p.D181H|TROVE2_uc001gsw.2_Missense_Mutation_p.D181H|TROVE2_uc009wyp.2_Missense_Mutation_p.D181H|TROVE2_uc009wyq.2_Missense_Mutation_p.D181H|TROVE2_uc001gsx.1_Missense_Mutation_p.D181H	NM_004600	NP_004591	P10155	RO60_HUMAN	TROVE domain family, member 2 isoform 2	181	TROVE.				transcription from RNA polymerase III promoter	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0						GTCTCACAAAGATCTATTAAG	0.418													11	61	---	---	---	---	PASS	C	193038725	C	C	193038725	3	2	155	1	0	0	0	0	1	0	0	0	16573	942	33	2	543	2	TROVE2	1	193038725	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	7020804	193038725	56211896	34	54997										
FAM58B	339521	broad.mit.edu	37	chr1	200183337	200183337	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcgaggtgcccgccgaggtcGaggctgagaagctgtggtgg	19	9	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:200183337G>C	uc009wzi.1	+	1	682	c.646G>C	c.(646-648)GAG>CAG	p.E216Q		NM_001105517	NP_001098987	P0C7Q3	FA58B_HUMAN	family with sequence similarity 58 member B	216					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	Prostate(682;0.19)					CGCCGAGGTCGAGGCTGAGAA	0.562													16	42	---	---	---	---	PASS	C	200183337	C	C	200183337	3	2	155	1	0	0	0	0	1	0	0	0	5591	1059	37	2	648	2	FAM58B	1	200183337	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	7144612	200183337	49067284	35	54998										
IKBKE	9641	broad.mit.edu	37	chr1	206664179	206664179	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ctacaacgaggagcagattcAcaagctggataagtgagtgg	13	7	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:206664179A>G	uc001hdz.1	+	17	2089	c.1721A>G	c.(1720-1722)CAC>CGC	p.H574R	IKBKE_uc009xbv.1_Missense_Mutation_p.H574R|IKBKE_uc001hea.1_Missense_Mutation_p.H489R	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	574					DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding			ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)					GAGCAGATTCACAAGCTGGAT	0.557											OREG0014171	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	33	---	---	---	---	PASS	G	206664179	G	G	206664179	3	3	155	1	0	0	0	0	1	0	0	0	7612	159	6	5	1779	5	IKBKE	1	206664179	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	6480842	206664179	42586442	36	54999										
CD34	947	broad.mit.edu	37	chr1	208072428	208072428	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atttccaggtgacaggctagGcttcaaggttgtctctggag	13	8	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:208072428G>A	uc001hgw.1	-	3	664	c.406C>T	c.(406-408)CCT>TCT	p.P136S	CD34_uc001hgx.1_Missense_Mutation_p.P136S|CD34_uc010psj.1_Intron	NM_001025109	NP_001020280	P28906	CD34_HUMAN	CD34 antigen isoform a	136	Extracellular (Potential).				cell-cell adhesion|leukocyte migration|regulation of immune response	integral to membrane	carbohydrate binding			ovary(1)	1						GACAGGCTAGGCTTCAAGGTT	0.463													5	177	---	---	---	---	PASS	A	208072428	A	A	208072428	3	1	155	1	0	0	0	0	1	0	0	0	3006	1203	42	3	794	3	CD34	1	208072428	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	1408249	208072428	41178193	37	55000										
ANGEL2	90806	broad.mit.edu	37	chr1	213186487	213186487	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tctccctcagcgttcatgacGtaactagagagatgaatcaa	8	10	4	4			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:213186487G>A	uc001hjz.2	-	2	488	c.333C>T	c.(331-333)TAC>TAT	p.Y111Y	ANGEL2_uc010pto.1_Intron|ANGEL2_uc010ptp.1_Intron|ANGEL2_uc001hka.2_Intron|ANGEL2_uc010ptq.1_Intron|ANGEL2_uc001hkb.2_Silent_p.Y89Y	NM_144567	NP_653168	Q5VTE6	ANGE2_HUMAN	LOC90806 protein	111											0				OV - Ovarian serous cystadenocarcinoma(81;0.00446)|all cancers(67;0.0169)|Epithelial(68;0.0921)|GBM - Glioblastoma multiforme(131;0.185)		CGTTCATGACGTAACTAGAGA	0.428													22	68	---	---	---	---	PASS	A	213186487	A	A	213186487	2	1	155	1	0	0	0	0	0	0	0	1	609	1140	40	1		1	ANGEL2	1	213186487	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	5114059	213186487	36064134	38	55001										
ESRRG	2104	broad.mit.edu	37	chr1	216850613	216850613	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tttcctgacaggcccactacCtcccaggataggagcagaag	10	13	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:216850613C>A	uc001hkw.1	-	2	443	c.277G>T	c.(277-279)GGT>TGT	p.G93C	ESRRG_uc001hky.1_Missense_Mutation_p.G70C|ESRRG_uc009xdp.1_Missense_Mutation_p.G70C|ESRRG_uc001hkz.1_Missense_Mutation_p.G70C|ESRRG_uc010puc.1_Missense_Mutation_p.G70C|ESRRG_uc001hla.1_Missense_Mutation_p.G70C|ESRRG_uc001hlb.1_Missense_Mutation_p.G70C|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Missense_Mutation_p.G70C|ESRRG_uc001hld.1_Missense_Mutation_p.G70C|ESRRG_uc001hkx.1_Missense_Mutation_p.G98C|ESRRG_uc009xdo.1_Missense_Mutation_p.G70C|ESRRG_uc001hle.1_Missense_Mutation_p.G70C	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	93					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	GGCCCACTACCTCCCAGGATA	0.527													16	62	---	---	---	---	PASS	A	216850613	A	A	216850613	3	1	155	1	0	0	0	0	1	0	0	0	5262	681	24	3	1123	3	ESRRG	1	216850613	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	3664126	216850613	32400008	39	55002										
RRP15	51018	broad.mit.edu	37	chr1	218480911	218480911	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aaagatttcatcagtgttttGagagggatggatggaagtac	13	3	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:218480911G>T	uc001hlj.2	+	4	672	c.642G>T	c.(640-642)TTG>TTT	p.L214F		NM_016052	NP_057136	Q9Y3B9	RRP15_HUMAN	ribosomal RNA processing 15 homolog	214						mitochondrion|nucleolus	protein binding				0				all cancers(67;0.0315)|OV - Ovarian serous cystadenocarcinoma(81;0.0411)|GBM - Glioblastoma multiforme(131;0.06)|Epithelial(68;0.248)		TCAGTGTTTTGAGAGGGATGG	0.368													13	36	---	---	---	---	PASS	T	218480911	T	T	218480911	3	4	155	1	0	0	0	0	1	0	0	0	13687	1281	45	2	656	2	RRP15	1	218480911	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	1630298	218480911	30769710	40	55003										
ACTA1	58	broad.mit.edu	37	chr1	229568773	229568773	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	acgatggacgggaacacggcCctaggggcgtcatccccggc	15	14	1	0	rs113546590		TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:229568773C>A	uc001htm.2	-	2	195	c.90G>T	c.(88-90)AGG>AGT	p.R30S		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	30					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	GGAACACGGCCCTAGGGGCGT	0.692													7	29	---	---	---	---	PASS	A	229568773	A	A	229568773	3	1	155	1	0	0	0	0	1	0	0	0	191	622	22	3	1067	3	ACTA1	1	229568773	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	11087862	229568773	19681848	41	55004										
COG2	22796	broad.mit.edu	37	chr1	230827305	230827305	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tagatgttgagtacttgggaGagcaggtaacccatcagccg	13	8	1	3	rs140155560		TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:230827305G>T	uc001htw.2	+	17	2261	c.2110G>T	c.(2110-2112)GAG>TAG	p.E704*	COG2_uc001htx.2_Nonsense_Mutation_p.E703*|COG2_uc010pwc.1_Nonsense_Mutation_p.E577*	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	704					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				GTACTTGGGAGAGCAGGTAAC	0.587													10	42	---	---	---	---	PASS	T	230827305	T	T	230827305	4	4	155	1	0	0	0	0	0	1	0	0	3658	943	33	2	2176	2	COG2	1	230827305	Nonsense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	1258532	230827305	18423316	42	55005										
OR2T4	127074	broad.mit.edu	37	chr1	248525700	248525700	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaaaaaggcctttgccacctGctcctcccacctgactgtgg	9	15	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:248525700G>T	uc001ieh.1	+	1	818	c.818G>T	c.(817-819)TGC>TTC	p.C273F		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	273	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTTGCCACCTGCTCCTCCCAC	0.542													15	98	---	---	---	---	PASS	T	248525700	T	T	248525700	3	4	155	1	0	0	0	0	1	0	0	0	11027	1319	46	3	820	3	OR2T4	1	248525700	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	17698395	248525700	724921	43	55006										
OR2G6	391211	broad.mit.edu	37	chr1	248685656	248685656	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cagctgcgggccgccaaaagGcctttgggacctgttcgtct	13	13	1	0	rs147303796		TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr1:248685656G>A	uc001ien.1	+	1	709	c.709G>A	c.(709-711)GCC>ACC	p.A237T		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	237	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCGCCAAAAGGCCTTTGGGAC	0.453													10	50	---	---	---	---	PASS	A	248685656	A	A	248685656	3	1	155	1	0	0	0	0	1	0	0	0	11000	1203	42	3	711	3	OR2G6	1	248685656	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	159956	248685656	564965	44	55007										
ACP1	52	broad.mit.edu	37	chr2	277020	277020	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atcaagttaaaacctgcaaaGctaaaattgaactacttggg	7	7	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:277020G>C	uc002qwg.2	+	5	430	c.334G>C	c.(334-336)GCT>CCT	p.A112P	ACP1_uc002qwh.2_RNA|ACP1_uc002qwf.2_Missense_Mutation_p.A112P	NM_007099	NP_009030	P24666	PPAC_HUMAN	acid phosphatase 1, soluble isoform b	112						cytoplasm|internal side of plasma membrane|nucleus|soluble fraction	acid phosphatase activity|identical protein binding|non-membrane spanning protein tyrosine phosphatase activity			skin(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.00175)|Lung NSC(108;0.216)|all_epithelial(98;0.236)		all cancers(51;0.000391)|Epithelial(75;0.00281)|OV - Ovarian serous cystadenocarcinoma(76;0.00542)|GBM - Glioblastoma multiforme(21;0.127)		AACCTGCAAAGCTAAAATTGA	0.308													17	33	---	---	---	---	PASS	C	277020	C	C	277020	3	2	155	1	0	0	0	0	1	0	0	0	162	971	34	4	507	4	ACP1	2	277020	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08		277020	242922353	45	55008										
NBAS	51594	broad.mit.edu	37	chr2	15519752	15519752	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agatccatgcagctatcagtGaggttggtagaagaattgaa	12	5	1	5			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:15519752G>C	uc002rcc.1	-	30	3590	c.3564C>G	c.(3562-3564)CTC>CTG	p.L1188L	NBAS_uc010exl.1_Silent_p.L260L|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1188										ovary(2)|liver(1)|skin(1)	4						AGCTATCAGTGAGGTTGGTAG	0.428													9	71	---	---	---	---	PASS	C	15519752	C	C	15519752	2	2	155	1	0	0	0	0	0	0	0	1	10186	1277	45	2		2	NBAS	2	15519752	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	15242732	15519752	227679621	46	55009										
FOSL2	2355	broad.mit.edu	37	chr2	28634924	28634928	+	Frame_Shift_Del	DEL	AGCGC	-	-													0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gtgcaagattagccccgaggAgcgccgatcgcccccagccc					rs145499484	by1000genomes	TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:28634924_28634928delAGCGC	uc002rma.2	+	4	1399_1403	c.590_594delAGCGC	c.(589-594)GAGCGCfs	p.E197fs	FOSL2_uc010ymi.1_Frame_Shift_Del_p.E158fs	NM_005253	NP_005244	P15408	FOSL2_HUMAN	FOS-like antigen 2	197_198					cell death|regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(172;0.155)					AGCCCCGAGGAGCGCCGATCGCCCC	0.639													33	16	---	---	---	---		-	28634928	-	-	28634924	7	5	155	1	0	1	0	1	0	0	0	0	5988	304	11	0	604	0	FOSL2	2	28634924	Frame_Shift_Del	DEL	AGCGC	TCGA-66-2771-01A-01D-0983-08	13115172	28634924	214564449	47	55010										
FAM179A	165186	broad.mit.edu	37	chr2	29240096	29240096	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ggagatggagctgcttcggaGgctggaggagcccaggacag	19	8	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:29240096G>T	uc010ezl.2	+	9	1472	c.1121G>T	c.(1120-1122)AGG>ATG	p.R374M	FAM179A_uc010ymm.1_Missense_Mutation_p.R374M|FAM179A_uc002rmr.3_Intron	NM_199280	NP_954974	Q6ZUX3	F179A_HUMAN	hypothetical protein LOC165186	374							binding			ovary(3)|skin(1)	4						CTGCTTCGGAGGCTGGAGGAG	0.582													11	82	---	---	---	---	PASS	T	29240096	T	T	29240096	3	4	155	1	0	0	0	0	1	0	0	0	5505	1000	35	3	1151	3	FAM179A	2	29240096	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	605172	29240096	213959277	48	55011										
NRXN1	9378	broad.mit.edu	37	chr2	50280591	50280591	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcccactatggcgatgttggCatcgttttcggctgccatat	10	11	0	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:50280591C>T	uc010fbp.2	-	4	1558	c.751G>A	c.(751-753)GCC>ACC	p.A251T	NRXN1_uc002rxb.3_Missense_Mutation_p.A988T|NRXN1_uc010fbq.2_Missense_Mutation_p.A1356T|NRXN1_uc002rxe.3_Missense_Mutation_p.A1286T	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	251	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GCGATGTTGGCATCGTTTTCG	0.512													5	33	---	---	---	---	PASS	T	50280591	T	T	50280591	3	4	155	1	0	0	0	0	1	0	0	0	10665	710	25	3	589	3	NRXN1	2	50280591	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	21040495	50280591	192918782	49	55012										
EFEMP1	2202	broad.mit.edu	37	chr2	56097912	56097912	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atccgaaaagtattgatggtGttggcataaatagttgtggc	12	4	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:56097912G>A	uc002rzh.2	-	10	1593	c.1263C>T	c.(1261-1263)AAC>AAT	p.N421N	EFEMP1_uc002rzi.2_Silent_p.N421N|EFEMP1_uc002rzj.2_Silent_p.N421N|EFEMP1_uc010ypc.1_Silent_p.N283N	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	421	Mediates interaction with TIMP3.				negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TATTGATGGTGTTGGCATAAA	0.413													7	62	---	---	---	---	PASS	A	56097912	A	A	56097912	2	1	155	1	0	0	0	0	0	0	0	1	4941	1368	48	3		3	EFEMP1	2	56097912	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	5817321	56097912	187101461	50	55013										
COMMD1	150684	broad.mit.edu	37	chr2	62228088	62228088	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tacacacacctgttgccattAtagagctggaattaggcaaa	8	9	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:62228088A>G	uc002sbp.2	+	2	444	c.433A>G	c.(433-435)ATA>GTA	p.I145V	COMMD1_uc002sbq.1_RNA	NM_152516	NP_689729	Q8N668	COMD1_HUMAN	MURR1	145	COMM.				copper ion homeostasis|negative regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|regulation of proteasomal ubiquitin-dependent protein catabolic process	cell junction|Cul2-RING ubiquitin ligase complex|cytoplasm|nucleolus	copper ion binding|protein homodimerization activity			ovary(1)	1	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;4.73e-07)|Epithelial(17;0.0216)|all cancers(80;0.0934)			TGTTGCCATTATAGAGCTGGA	0.448													19	50	---	---	---	---	PASS	G	62228088	G	G	62228088	3	3	155	1	0	0	0	0	1	0	0	0	3714	449	16	5	439	5	COMMD1	2	62228088	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	6130176	62228088	180971285	51	55014										
EDAR	10913	broad.mit.edu	37	chr2	109513383	109513383	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcaggatgcagcatgtggctGggaggcaggtggcacaaccc	16	10	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:109513383G>A	uc002teq.3	-	12	1758	c.1327C>T	c.(1327-1329)CAG>TAG	p.Q443*	EDAR_uc010fjn.2_Nonsense_Mutation_p.Q475*|EDAR_uc010yws.1_Nonsense_Mutation_p.Q475*	NM_022336	NP_071731	Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor precursor	443	Cytoplasmic (Potential).				apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1						GCATGTGGCTGGGAGGCAGGT	0.582													6	6	---	---	---	---	PASS	A	109513383	A	A	109513383	4	1	155	1	0	0	0	0	0	1	0	0	4905	1357	47	3	23	3	EDAR	2	109513383	Nonsense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	47285295	109513383	133685990	52	55015										
CBWD2	150472	broad.mit.edu	37	chr2	114195465	114195465	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aatgttaccggctgttggatCtgcggatgaggaggaggatc	16	6	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:114195465C>G	uc002tju.2	+	1	198	c.20C>G	c.(19-21)TCT>TGT	p.S7C	CBWD2_uc002tjt.2_Missense_Mutation_p.S7C|CBWD2_uc010yxw.1_Translation_Start_Site|CBWD2_uc002tjv.2_Translation_Start_Site|CBWD2_uc010fkv.2_RNA	NM_172003	NP_742000	Q8IUF1	CBWD2_HUMAN	COBW domain-containing protein 2	7							ATP binding|protein binding				0						GCTGTTGGATCTGCGGATGAG	0.632													6	22	---	---	---	---	PASS	G	114195465	G	G	114195465	3	3	155	1	0	0	0	0	1	0	0	0	2713	913	32	2	22	2	CBWD2	2	114195465	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	4682082	114195465	129003908	53	55016										
DPP10	57628	broad.mit.edu	37	chr2	115200401	115200401	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atcacatcaagtgtcaacccTcaaaaacaatcaaggtagga	6	10	5	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:115200401T>A	uc002tla.1	+	1	503	c.46T>A	c.(46-48)TCA>ACA	p.S16T		NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	16	Mediates effects on KCND2.|Cytoplasmic (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						GTGTCAACCCTCAAAAACAAT	0.468													11	46	---	---	---	---	PASS	A	115200401	A	A	115200401	3	1	155	1	0	0	0	0	1	0	0	0	4727	1551	54	5	48	5	DPP10	2	115200401	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	1004936	115200401	127998972	54	55017										
CCDC93	54520	broad.mit.edu	37	chr2	118715998	118715998	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttcaaggaaatgactttccgGcgatgtagctgggaggttcc	13	8	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:118715998G>C	uc002tlj.2	-	12	1074	c.948C>G	c.(946-948)CGC>CGG	p.R316R	CCDC93_uc010fld.1_Silent_p.R316R	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	316	Potential.									large_intestine(1)|ovary(1)	2						TGACTTTCCGGCGATGTAGCT	0.403													7	30	---	---	---	---	PASS	C	118715998	C	C	118715998	2	2	155	1	0	0	0	0	0	0	0	1	2872	1190	42	4		4	CCDC93	2	118715998	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	3515597	118715998	124483375	55	55018										
PCDP1	200373	broad.mit.edu	37	chr2	120383210	120383210	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgagtgctgttcgtgaaatgGacaaagagagtatactgaga	13	4	0	4			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:120383210G>T	uc002tmb.2	+	16	1696	c.604G>T	c.(604-606)GAC>TAC	p.D202Y	PCDP1_uc010yyq.1_Missense_Mutation_p.D332Y	NM_001029996	NP_001025167	Q4G0U5	PCDP1_HUMAN	primary ciliary dyskinesia protein 1	488						cilium	calmodulin binding				0	Colorectal(110;0.196)					TCGTGAAATGGACAAAGAGAG	0.413													5	38	---	---	---	---	PASS	T	120383210	T	T	120383210	3	4	155	1	0	0	0	0	1	0	0	0	11572	1174	41	2	630	2	PCDP1	2	120383210	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	1667212	120383210	122816163	56	55019										
MKI67IP	84365	broad.mit.edu	37	chr2	122485356	122485356	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atgtgtaggtgtttgagtctCttgtatttcttcttttacac	8	6	3	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:122485356C>G	uc002tnk.2	-	7	903	c.826G>C	c.(826-828)GAG>CAG	p.E276Q	uc002tnj.1_Intron	NM_032390	NP_115766	Q9BYG3	MK67I_HUMAN	MKI67 interacting nucleolar phosphoprotein	276					protein complex assembly|rRNA metabolic process|rRNA transcription	condensed nuclear chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						GTTTGAGTCTCTTGTATTTCT	0.308													5	55	---	---	---	---	PASS	G	122485356	G	G	122485356	3	3	155	1	0	0	0	0	1	0	0	0	9599	922	32	2	59	2	MKI67IP	2	122485356	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	2102146	122485356	120714017	57	55020										
CNTNAP5	129684	broad.mit.edu	37	chr2	125547543	125547543	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tccttacacttgaatggacaGaaaatggacctggaagagag	11	7	0	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:125547543G>A	uc002tno.2	+	18	3178	c.2814G>A	c.(2812-2814)CAG>CAA	p.Q938Q	CNTNAP5_uc010flu.2_Silent_p.Q939Q	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	938	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TGAATGGACAGAAAATGGACC	0.522													15	63	---	---	---	---	PASS	A	125547543	A	A	125547543	2	1	155	1	0	0	0	0	0	0	0	1	3650	933	33	2		2	CNTNAP5	2	125547543	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	3062187	125547543	117651830	58	55021										
SAP130	79595	broad.mit.edu	37	chr2	128775348	128775348	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gtgtggctgatgcgacagcaTggtgtgtcgacaacatctgc	14	9	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:128775348T>A	uc002tpp.2	-	3	464	c.332A>T	c.(331-333)CAT>CTT	p.H111L	SAP130_uc002tpo.2_5'Flank|SAP130_uc010fmd.2_Missense_Mutation_p.H111L|SAP130_uc002tpq.1_Missense_Mutation_p.H85L	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	111					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		TGCGACAGCATGGTGTGTCGA	0.567													18	41	---	---	---	---	PASS	A	128775348	A	A	128775348	3	1	155	1	0	0	0	0	1	0	0	0	13831	1464	51	5	2995	5	SAP130	2	128775348	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	3227805	128775348	114424025	59	55022										
HS6ST1	9394	broad.mit.edu	37	chr2	129026380	129026380	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccacgtggcacccctctgcaCatgccgccactcgctcaggt	9	19	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:129026380C>A	uc002tpt.3	-	2	626	c.592G>T	c.(592-594)GTG>TTG	p.V198L		NM_004807	NP_004798	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	198	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	integral to plasma membrane	sulfotransferase activity			pancreas(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		CCCCTCTGCACATGCCGCCAC	0.637													4	23	---	---	---	---	PASS	A	129026380	A	A	129026380	3	1	155	1	0	0	0	0	1	0	0	0	7370	478	17	3	647	3	HS6ST1	2	129026380	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	251032	129026380	114172993	60	55023										
LRP1B	53353	broad.mit.edu	37	chr2	141110606	141110606	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttccacatttatacattgatGggaacatgtgccaaacacca	6	10	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:141110606G>A	uc002tvj.1	-	76	12538	c.11566C>T	c.(11566-11568)CAT>TAT	p.H3856Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3856	Extracellular (Potential).|EGF-like 9.				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)		ATACATTGATGGGAACATGTG	0.363										TSP Lung(27;0.18)			12	52	---	---	---	---	PASS	A	141110606	A	A	141110606	3	1	155	1	0	0	0	0	1	0	0	0	8955	1348	47	3	2297	3	LRP1B	2	141110606	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	12084226	141110606	102088767	61	55024										
LRP1B	53353	broad.mit.edu	37	chr2	141113992	141113992	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgtttttatttgattacaatAtgcatcatctccacatggat	5	7	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:141113992A>G	uc002tvj.1	-	75	12421	c.11449T>C	c.(11449-11451)TAT>CAT	p.Y3817H		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3817	Extracellular (Potential).|EGF-like 8.				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)		TGATTACAATATGCATCATCT	0.323										TSP Lung(27;0.18)			3	17	---	---	---	---	PASS	G	141113992	G	G	141113992	3	3	155	1	0	0	0	0	1	0	0	0	8955	449	16	5	2418	5	LRP1B	2	141113992	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	3386	141113992	102085381	62	55025										
LRP1B	53353	broad.mit.edu	37	chr2	141294240	141294240	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aatgcactcaccatttccacAttcaaactccgaataagcgt	4	13	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:141294240A>T	uc002tvj.1	-	46	8524	c.7552T>A	c.(7552-7554)TGT>AGT	p.C2518S		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2518	Extracellular (Potential).|LDL-receptor class A 11.				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)		CCATTTCCACATTCAAACTCC	0.383										TSP Lung(27;0.18)			8	32	---	---	---	---	PASS	T	141294240	T	T	141294240	3	4	155	1	0	0	0	0	1	0	0	0	8955	217	8	5	6431	5	LRP1B	2	141294240	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	180248	141294240	101905133	63	55026										
ZEB2	9839	broad.mit.edu	37	chr2	145158874	145158874	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tccttgggttagcatttggtGctataaaaggagaaagactg	12	5	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:145158874G>T	uc002tvu.2	-	7	1288	c.808C>A	c.(808-810)CAC>AAC	p.H270N	ZEB2_uc002tvv.2_Missense_Mutation_p.H264N|ZEB2_uc010zbm.1_Missense_Mutation_p.H241N|ZEB2_uc010fnp.2_Missense_Mutation_p.H178N|ZEB2_uc010fnq.1_Missense_Mutation_p.H299N	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	270						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		AGCATTTGGTGCTATAAAAGG	0.393													9	53	---	---	---	---	PASS	T	145158874	T	T	145158874	3	4	155	1	0	0	0	0	1	0	0	0	17621	1333	46	3	2852	3	ZEB2	2	145158874	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	3864634	145158874	98040499	64	55027										
GPD2	2820	broad.mit.edu	37	chr2	157436286	157436286	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aaaatggacaggttgaactcAatgaatttttgcaggtgagt	11	4	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:157436286A>C	uc002tzf.3	+	16	2404	c.2044A>C	c.(2044-2046)AAT>CAT	p.N682H	GPD2_uc010zch.1_Missense_Mutation_p.N455H|GPD2_uc002tzd.3_Missense_Mutation_p.N682H|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	682	EF-hand 2.|Potential.				cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						GGTTGAACTCAATGAATTTTT	0.303													9	20	---	---	---	---	PASS	C	157436286	C	C	157436286	3	2	155	1	0	0	0	0	1	0	0	0	6606	130	5	5	2102	5	GPD2	2	157436286	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	12277412	157436286	85763087	65	55028										
DPP4	1803	broad.mit.edu	37	chr2	162929976	162929976	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gcagcagcacccagcagtccCagaagaaccttccacggtgt	10	15	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:162929976C>A	uc002ubz.2	-	2	588	c.27G>T	c.(25-27)CTG>CTT	p.L9L	DPP4_uc010fpb.2_5'UTR|DPP4_uc002uca.1_RNA|DPP4_uc002ucb.1_RNA	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	9	Helical; Signal-anchor for type II membrane protein; (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	CCAGCAGTCCCAGAAGAACCT	0.542													12	28	---	---	---	---	PASS	A	162929976	A	A	162929976	2	1	155	1	0	0	0	0	0	0	0	1	4729	581	21	3		3	DPP4	2	162929976	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	5493690	162929976	80269397	66	55029										
SCN1A	6323	broad.mit.edu	37	chr2	166856244	166856244	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aatacttacatttctggaatCaactgctgcatacattatat	4	8	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:166856244C>G	uc010zcz.1	-	22	4312	c.4294G>C	c.(4294-4296)GAT>CAT	p.D1432H	SCN1A_uc002udo.3_Missense_Mutation_p.D1312H|SCN1A_uc010fpk.2_Missense_Mutation_p.D1284H	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1443	III.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TTTCTGGAATCAACTGCTGCA	0.313													4	54	---	---	---	---	PASS	G	166856244	G	G	166856244	3	3	155	1	0	0	0	0	1	0	0	0	13914	826	29	2	1722	2	SCN1A	2	166856244	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	3926268	166856244	76343129	67	55030										
XIRP2	129446	broad.mit.edu	37	chr2	168105057	168105057	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ctcctttcctcctctgctccGgaaaagcacagtggagactt	8	14	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:168105057G>A	uc002udx.2	+	8	7173	c.7155G>A	c.(7153-7155)CCG>CCA	p.P2385P	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.P2210P|XIRP2_uc010fpq.2_Silent_p.P2163P|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2210					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CCTCTGCTCCGGAAAAGCACA	0.453													15	51	---	---	---	---	PASS	A	168105057	A	A	168105057	2	1	155	1	0	0	0	0	0	0	0	1	17427	1103	39	1		1	XIRP2	2	168105057	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	1248813	168105057	75094316	68	55031										
LRP2	4036	broad.mit.edu	37	chr2	170177289	170177289	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tggcccctcctcacttaccgCagccaatttcatccgcgtca	6	18	3	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:170177289C>A	uc002ues.2	-	2	398	c.185G>T	c.(184-186)TGC>TTC	p.C62F	LRP2_uc010zdf.1_Missense_Mutation_p.C62F	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	62	LDL-receptor class A 1.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TCACTTACCGCAGCCAATTTC	0.493													4	39	---	---	---	---	PASS	A	170177289	A	A	170177289	3	1	155	1	0	0	0	0	1	0	0	0	8956	710	25	3	14094	3	LRP2	2	170177289	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	2072232	170177289	73022084	69	55032										
KLHL23	151230	broad.mit.edu	37	chr2	170592730	170592730	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tggattcctattgcaaacatGattaaaggtaagtggagatt	10	4	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:170592730G>C	uc002ufh.1	+	4	1544	c.1206G>C	c.(1204-1206)ATG>ATC	p.M402I	KLHL23_uc002ufi.1_Missense_Mutation_p.M402I	NM_144711	NP_653312	Q8NBE8	KLH23_HUMAN	kelch-like 23	402	Kelch 3.										0						TTGCAAACATGATTAAAGGTA	0.388													23	66	---	---	---	---	PASS	C	170592730	C	C	170592730	3	2	155	1	0	0	0	0	1	0	0	0	8378	1290	45	2	1208	2	KLHL23	2	170592730	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	415441	170592730	72606643	70	55033										
TTN	7273	broad.mit.edu	37	chr2	179396364	179396364	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccagggtgaggactccactcGtgttggtgtaatgaatctta	12	8	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:179396364G>A	uc010zfg.1	-	307	97498	c.97274C>T	c.(97273-97275)ACG>ATG	p.T32425M	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T26120M|TTN_uc010zfi.1_Missense_Mutation_p.T26053M|TTN_uc010zfj.1_Missense_Mutation_p.T25928M|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33352							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)			GACTCCACTCGTGTTGGTGTA	0.453													12	47	---	---	---	---	PASS	A	179396364	A	A	179396364	3	1	155	1	0	0	0	0	1	0	0	0	16732	1145	40	1	3021	1	TTN	2	179396364	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	8803634	179396364	63803009	71	55034										
TTN	7273	broad.mit.edu	37	chr2	179396750	179396750	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcatcttcgtattcctcagcCggttgtggacgtgaccggat	11	11	3	1	rs144094650	by1000genomes	TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:179396750C>T	uc010zfg.1	-	307	97112	c.96888G>A	c.(96886-96888)CCG>CCA	p.P32296P	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.P25991P|TTN_uc010zfi.1_Silent_p.P25924P|TTN_uc010zfj.1_Silent_p.P25799P|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33223							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)			ATTCCTCAGCCGGTTGTGGAC	0.532													9	29	---	---	---	---	PASS	T	179396750	T	T	179396750	2	4	155	1	0	0	0	0	0	0	0	1	16732	639	23	1		1	TTN	2	179396750	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	386	179396750	63802623	72	55035										
TTN	7273	broad.mit.edu	37	chr2	179611100	179611100	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aacatctagactcacaatcaTacttttatggtcaggagtaa	6	8	4	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:179611100T>C	uc002unb.2	-	46	16251	c.16027A>G	c.(16027-16029)ATG>GTG	p.M5343V	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CTCACAATCATACTTTTATGG	0.328													5	20	---	---	---	---	PASS	C	179611100	C	C	179611100	3	2	155	1	0	0	0	0	1	0	0	0	16732	1406	49	5	94270	5	TTN	2	179611100	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	214350	179611100	63588273	73	55036										
TTN	7273	broad.mit.edu	37	chr2	179640092	179640092	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atgcaaattaccttggacaaGtaagaatgcgtgactggagg	12	6	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:179640092G>T	uc010zfg.1	-	28	6723	c.6499C>A	c.(6499-6501)CTT>ATT	p.L2167I	TTN_uc010zfh.1_Missense_Mutation_p.L2121I|TTN_uc010zfi.1_Missense_Mutation_p.L2121I|TTN_uc010zfj.1_Missense_Mutation_p.L2121I|TTN_uc002unb.2_Missense_Mutation_p.L2167I|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2167							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)			CCTTGGACAAGTAAGAATGCG	0.408													9	48	---	---	---	---	PASS	T	179640092	T	T	179640092	3	4	155	1	0	0	0	0	1	0	0	0	16732	1029	36	3	104829	3	TTN	2	179640092	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	28992	179640092	63559281	74	55037										
TTN	7273	broad.mit.edu	37	chr2	179664420	179664420	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccatctatgaccatctcaacTgttgcaattgatctggcatc	6	12	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:179664420T>A	uc002und.2	-	6	933	c.708A>T	c.(706-708)ACA>ACT	p.T236T	TTN_uc010zfg.1_Silent_p.T236T|TTN_uc010zfh.1_Silent_p.T236T|TTN_uc010zfi.1_Silent_p.T236T|TTN_uc010zfj.1_Silent_p.T236T|TTN_uc002unb.2_Silent_p.T236T			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	236							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)			CCATCTCAACTGTTGCAATTG	0.493													9	30	---	---	---	---	PASS	A	179664420	A	A	179664420	2	1	155	1	0	0	0	0	0	0	0	1	16732	1567	55	5		5	TTN	2	179664420	Silent	SNP	T	TCGA-66-2771-01A-01D-0983-08	24328	179664420	63534953	75	55038										
NEU2	4759	broad.mit.edu	37	chr2	233899557	233899557	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gccgacctgggtgcctacctCaacccgcgacctccagcccc	9	21	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr2:233899557C>G	uc010zmn.1	+	2	933	c.933C>G	c.(931-933)CTC>CTG	p.L311L		NM_005383	NP_005374	Q9Y3R4	NEUR2_HUMAN	neuraminidase 2	311							exo-alpha-sialidase activity				0		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0271)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0839)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0488)		GTGCCTACCTCAACCCGCGAC	0.697													3	32	---	---	---	---	PASS	G	233899557	G	G	233899557	2	3	155	1	0	0	0	0	0	0	0	1	10342	813	29	2		2	NEU2	2	233899557	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	54235137	233899557	9299816	76	55039										
OXNAD1	92106	broad.mit.edu	37	chr3	16327951	16327951	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	acttttcctttaaagctggcCagtggtaagtgacttttctg	9	8	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:16327951C>T	uc003caw.2	+	5	743	c.286C>T	c.(286-288)CAG>TAG	p.Q96*	OXNAD1_uc010her.1_RNA|OXNAD1_uc003cax.2_Nonsense_Mutation_p.Q96*|OXNAD1_uc011awb.1_Nonsense_Mutation_p.Q114*	NM_138381	NP_612390	Q96HP4	OXND1_HUMAN	oxidoreductase NAD-binding domain containing 1	96	FAD-binding FR-type.						oxidoreductase activity			skin(1)	1						TAAAGCTGGCCAGTGGTAAGT	0.463													12	31	---	---	---	---	PASS	T	16327951	T	T	16327951	4	4	155	1	0	0	0	0	0	1	0	0	11333	595	21	3	296	3	OXNAD1	3	16327951	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08		16327951	181694479	77	55040										
EOMES	8320	broad.mit.edu	37	chr3	27758626	27758626	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ggtgtctttactatactcttCagcattaatgtcctcacact	5	11	4	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:27758626C>T	uc003cdx.2	-	6	1996	c.1996G>A	c.(1996-1998)GAA>AAA	p.E666K	EOMES_uc003cdy.3_Missense_Mutation_p.E685K|EOMES_uc010hfn.2_3'UTR|EOMES_uc011axc.1_Missense_Mutation_p.E390K	NM_005442	NP_005433	O95936	EOMES_HUMAN	eomesodermin	666	Required for transcription activation (By similarity).				CD8-positive, alpha-beta T cell differentiation involved in immune response|cell differentiation involved in embryonic placenta development|endoderm formation|mesoderm formation|mesodermal to mesenchymal transition involved in gastrulation|positive regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|breast(1)	4						CTATACTCTTCAGCATTAATG	0.393													5	101	---	---	---	---	PASS	T	27758626	T	T	27758626	3	4	155	1	0	0	0	0	1	0	0	0	5147	835	29	2	68	2	EOMES	3	27758626	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	11430675	27758626	170263804	78	55041										
HEMK1	51409	broad.mit.edu	37	chr3	50617290	50617290	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttcagctatgaagaccccgcGgccctggatggtggggagga	16	10	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:50617290G>T	uc003dau.2	+	9	1082	c.786G>T	c.(784-786)GCG>GCT	p.A262A	HEMK1_uc003dav.2_Silent_p.A262A|HEMK1_uc003daw.2_Silent_p.A262A	NM_016173	NP_057257	Q9Y5R4	HEMK1_HUMAN	HemK methyltransferase family member 1	262					DNA methylation		DNA binding|N-methyltransferase activity|protein methyltransferase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000283)|KIRC - Kidney renal clear cell carcinoma(197;0.0179)|Kidney(197;0.0212)		AAGACCCCGCGGCCCTGGATG	0.572													8	18	---	---	---	---	PASS	T	50617290	T	T	50617290	2	4	155	1	0	0	0	0	0	0	0	1	7051	1103	39	1		1	HEMK1	3	50617290	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	22858664	50617290	147405140	79	55042										
IFT57	55081	broad.mit.edu	37	chr3	107885739	107885739	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agctgcacgatattcttgaaCcaaattctcaagctgattgt	7	9	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:107885739C>A	uc003dwx.3	-	8	1191	c.943G>T	c.(943-945)GTT>TTT	p.V315F		NM_018010	NP_060480	Q9NWB7	IFT57_HUMAN	estrogen-related receptor beta like 1	315	Potential.				activation of caspase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cilium|microtubule basal body	DNA binding|protein binding			ovary(1)|skin(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(3;0.0428)|Epithelial(53;0.246)			TATTCTTGAACCAAATTCTCA	0.373													13	31	---	---	---	---	PASS	A	107885739	A	A	107885739	3	1	155	1	0	0	0	0	1	0	0	0	7562	507	18	3	362	3	IFT57	3	107885739	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	57268449	107885739	90136691	80	55043										
ARHGAP31	57514	broad.mit.edu	37	chr3	119134765	119134765	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttcaaaactagagcgaccatCtgggggttctaagcctttcc	9	11	3	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:119134765C>T	uc003ecj.3	+	12	4521	c.3989C>T	c.(3988-3990)TCT>TTT	p.S1330F		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	1330					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						GAGCGACCATCTGGGGGTTCT	0.522													7	105	---	---	---	---	PASS	T	119134765	T	T	119134765	3	4	155	1	0	0	0	0	1	0	0	0	880	913	32	2	4035	2	ARHGAP31	3	119134765	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	11249026	119134765	78887665	81	55044										
GTF2E1	2960	broad.mit.edu	37	chr3	120500143	120500143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aaacgagaagaggatgaagaGgaagatgacgagtttgaaga	15	2	0	8			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:120500143G>T	uc003edz.3	+	5	1260	c.1146G>T	c.(1144-1146)GAG>GAT	p.E382D		NM_005513	NP_005504	P29083	T2EA_HUMAN	general transcription factor IIE, polypeptide 1,	382	Asp/Glu-rich (acidic).				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.159)		AGGATGAAGAGGAAGATGACG	0.537													5	108	---	---	---	---	PASS	T	120500143	T	T	120500143	3	4	155	1	0	0	0	0	1	0	0	0	6856	991	35	3	1160	3	GTF2E1	3	120500143	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	1365378	120500143	77522287	82	55045										
POLQ	10721	broad.mit.edu	37	chr3	121208732	121208732	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tttctgtgaaaaagtctgaaCaactttcttatcacttgttt	5	7	4	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:121208732C>A	uc003eee.3	-	16	3175	c.3046G>T	c.(3046-3048)GTT>TTT	p.V1016F	POLQ_uc003eed.2_Missense_Mutation_p.V188F	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1016					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AAAGTCTGAACAACTTTCTTA	0.363								DNA_polymerases_(catalytic_subunits)					11	73	---	---	---	---	PASS	A	121208732	A	A	121208732	3	1	155	1	0	0	0	0	1	0	0	0	12208	478	17	3	4786	3	POLQ	3	121208732	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	708589	121208732	76813698	83	55046										
NEK11	79858	broad.mit.edu	37	chr3	130871272	130871272	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atgagatgtgctgcatgaatCatgcattcgctggctccaat	10	9	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:130871272C>G	uc003eny.2	+	8	1014	c.688C>G	c.(688-690)CAT>GAT	p.H230D	NEK11_uc003enx.2_Missense_Mutation_p.H230D|NEK11_uc003eoa.2_Missense_Mutation_p.H230D|NEK11_uc003enz.2_Missense_Mutation_p.H48D|NEK11_uc010htn.2_RNA|NEK11_uc011blk.1_Missense_Mutation_p.H82D|NEK11_uc011bll.1_Intron|NEK11_uc011blm.1_Missense_Mutation_p.H230D|NEK11_uc010hto.1_Missense_Mutation_p.H82D	NM_024800	NP_079076	Q8NG66	NEK11_HUMAN	NIMA-related kinase 11 isoform 1	230	Protein kinase.				cell cycle|intra-S DNA damage checkpoint|intracellular protein kinase cascade	nucleolus	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(4)|stomach(1)|central_nervous_system(1)	6						CTGCATGAATCATGCATTCGC	0.343													18	80	---	---	---	---	PASS	G	130871272	G	G	130871272	3	3	155	1	0	0	0	0	1	0	0	0	10323	826	29	2	710	2	NEK11	3	130871272	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	9662540	130871272	67151158	84	55047										
ATR	545	broad.mit.edu	37	chr3	142178212	142178212	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cactggcgaagttcttttccTgtcatatacactcctgcaag	7	12	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:142178212T>A	uc003eux.3	-	43	7328	c.7206A>T	c.(7204-7206)ACA>ACT	p.T2402T	ATR_uc003euy.1_Silent_p.T288T	NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	2402	PI3K/PI4K.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						GTTCTTTTCCTGTCATATACA	0.383								Other_conserved_DNA_damage_response_genes					9	21	---	---	---	---	PASS	A	142178212	A	A	142178212	2	1	155	1	0	0	0	0	0	0	0	1	1204	1567	55	5		5	ATR	3	142178212	Silent	SNP	T	TCGA-66-2771-01A-01D-0983-08	11306940	142178212	55844218	85	55048										
SI	6476	broad.mit.edu	37	chr3	164756916	164756916	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gatgtaggcactcacagtatCtgctccctaaaataaagata	7	9	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:164756916C>A	uc003fei.2	-	20	2313	c.2251G>T	c.(2251-2253)GAT>TAT	p.D751Y		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	751	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)	CTCACAGTATCTGCTCCCTAA	0.294										HNSCC(35;0.089)			4	6	---	---	---	---	PASS	A	164756916	A	A	164756916	3	1	155	1	0	0	0	0	1	0	0	0	14297	913	32	2	3348	2	SI	3	164756916	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	22578704	164756916	33265514	86	55049										
BCHE	590	broad.mit.edu	37	chr3	165548739	165548739	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	caattatgatgtcatcttcaGtatgtgacttcccaataagc	6	9	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:165548739G>T	uc003fem.3	-	2	243	c.83C>A	c.(82-84)ACT>AAT	p.T28N	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	28					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	GTCATCTTCAGTATGTGACTT	0.378													5	25	---	---	---	---	PASS	T	165548739	T	T	165548739	3	4	155	1	0	0	0	0	1	0	0	0	1358	1029	36	3	1737	3	BCHE	3	165548739	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	791823	165548739	32473691	87	55050										
NDUFB5	4711	broad.mit.edu	37	chr3	179334808	179334808	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaaattccagaaggctatgtCccagaacactgggaatatta	9	8	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:179334808C>T	uc003fkc.2	+	4	347	c.318C>T	c.(316-318)GTC>GTT	p.V106V	NDUFB5_uc003fkd.2_RNA|NDUFB5_uc003fke.2_Silent_p.V54V	NM_002492	NP_002483	O43674	NDUB5_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	106					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			skin(1)	1	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)		NADH(DB00157)	AAGGCTATGTCCCAGAACACT	0.328													17	22	---	---	---	---	PASS	T	179334808	T	T	179334808	2	4	155	1	0	0	0	0	0	0	0	1	10284	842	30	2		2	NDUFB5	3	179334808	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	13786069	179334808	18687622	88	55051										
HTR3C	170572	broad.mit.edu	37	chr3	183770895	183770895	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ggagggtggcctgcaaggcaGagtgccctcctctgcctcac	14	14	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:183770895G>A	uc003fmk.2	+	1	61	c.27G>A	c.(25-27)CAG>CAA	p.Q9Q		NM_130770	NP_570126	Q8WXA8	5HT3C_HUMAN	5-hydroxytryptamine receptor 3 subunit C	9						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)			CTGCAAGGCAGAGTGCCCTCC	0.557													4	72	---	---	---	---	PASS	A	183770895	A	A	183770895	2	1	155	1	0	0	0	0	0	0	0	1	7446	933	33	2		2	HTR3C	3	183770895	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	4436087	183770895	14251535	89	55052										
HTR3C	170572	broad.mit.edu	37	chr3	183777395	183777395	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcttcctgctcatgatgaatGacttgctccctgccagtggc	9	13	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:183777395G>A	uc003fmk.2	+	7	926	c.892G>A	c.(892-894)GAC>AAC	p.D298N		NM_130770	NP_570126	Q8WXA8	5HT3C_HUMAN	5-hydroxytryptamine receptor 3 subunit C	298	Helical; Name=2; (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)			CATGATGAATGACTTGCTCCC	0.572													8	136	---	---	---	---	PASS	A	183777395	A	A	183777395	3	1	155	1	0	0	0	0	1	0	0	0	7446	1290	45	2	918	2	HTR3C	3	183777395	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	6500	183777395	14245035	90	55053										
SENP5	205564	broad.mit.edu	37	chr3	196612846	196612846	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	caagctaagaaaagcccagcGaagctgggtacagaaagtca	11	9	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:196612846G>A	uc003fwz.3	+	2	1043	c.794G>A	c.(793-795)CGA>CAA	p.R265Q	SENP5_uc011bty.1_Missense_Mutation_p.R265Q	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	265					cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		AAAGCCCAGCGAAGCTGGGTA	0.483													13	46	---	---	---	---	PASS	A	196612846	A	A	196612846	3	1	155	1	0	0	0	0	1	0	0	0	14049	1058	37	2	796	2	SENP5	3	196612846	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	12835451	196612846	1409584	91	55054										
SENP5	205564	broad.mit.edu	37	chr3	196654687	196654687	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aatataagaaagtatttgctGactgaagccagagaaaaaaa	8	4	0	4			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr3:196654687G>A	uc003fwz.3	+	8	2292	c.2043G>A	c.(2041-2043)CTG>CTA	p.L681L	SENP5_uc011bty.1_Silent_p.L635L	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	681	Protease.				cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		AGTATTTGCTGACTGAAGCCA	0.403													9	39	---	---	---	---	PASS	A	196654687	A	A	196654687	2	1	155	1	0	0	0	0	0	0	0	1	14049	1277	45	2		2	SENP5	3	196654687	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	41841	196654687	1367743	92	55055										
TADA2B	93624	broad.mit.edu	37	chr4	7056395	7056395	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccaagatccgagaactgcagCggtaccggcgaaacgggatc	13	12	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr4:7056395C>T	uc003gjw.3	+	2	1028	c.877C>T	c.(877-879)CGG>TGG	p.R293W	TADA2B_uc010idi.2_Missense_Mutation_p.R218W	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	293					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0						AGAACTGCAGCGGTACCGGCG	0.522													4	32	---	---	---	---	PASS	T	7056395	T	T	7056395	3	4	155	1	0	0	0	0	1	0	0	0	15508	759	27	1	883	1	TADA2B	4	7056395	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08		7056395	184097881	93	55056										
SRP72	6731	broad.mit.edu	37	chr4	57361544	57361544	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cagggagatttgaaaaagaaGaaaaagaaaaagaagggtaa	12	1	0	6			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr4:57361544G>A	uc003hbv.2	+	17	1702	c.1662G>A	c.(1660-1662)AAG>AAA	p.K554K	SRP72_uc010ihe.2_Silent_p.K493K	NM_006947	NP_008878	O76094	SRP72_HUMAN	signal recognition particle 72kDa	554	Poly-Lys.				response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|nucleolus|plasma membrane|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding			ovary(1)	1	Glioma(25;0.08)|all_neural(26;0.101)					TGAAAAAGAAGAAAAAGAAAA	0.254													3	14	---	---	---	---	PASS	A	57361544	A	A	57361544	2	1	155	1	0	0	0	0	0	0	0	1	15156	933	33	2		2	SRP72	4	57361544	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	50305149	57361544	133792732	94	55057										
UGT2B15	7366	broad.mit.edu	37	chr4	69512834	69512834	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgatataactaatctcttttCttcttctttccttttttggc	3	9	4	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr4:69512834C>T	uc011cal.1	-	6	1619	c.1581G>A	c.(1579-1581)AAG>AAA	p.K527K		NM_001076	NP_001067	P54855	UDB15_HUMAN	UDP glycosyltransferase 2B15 precursor	527					steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity				0						AATCTCTTTTCTTCTTCTTTC	0.388													19	80	---	---	---	---	PASS	T	69512834	T	T	69512834	2	4	155	1	0	0	0	0	0	0	0	1	16955	912	32	2		2	UGT2B15	4	69512834	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	12151290	69512834	121641442	95	55058										
SMR3A	26952	broad.mit.edu	37	chr4	71232643	71232643	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cttcccaaccaagaccctatCcacctggacctccatttttc	3	18	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr4:71232643C>G	uc003hfg.1	+	3	418	c.337C>G	c.(337-339)CCA>GCA	p.P113A	SMR3B_uc011cas.1_Intron	NM_012390	NP_036522	Q99954	SMR3A_HUMAN	submaxillary gland androgen regulated protein 3	113	Pro-rich.					extracellular region					0		all_hematologic(202;0.196)				AAGACCCTATCCACCTGGACC	0.532													12	52	---	---	---	---	PASS	G	71232643	G	G	71232643	3	3	155	1	0	0	0	0	1	0	0	0	14811	855	30	2	343	2	SMR3A	4	71232643	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	1719809	71232643	119921633	96	55059										
GK2	2712	broad.mit.edu	37	chr4	80328533	80328533	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gttccataggtgtttttggcTtgtccctcctggaagcacat	10	10	0	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr4:80328533T>A	uc003hlu.2	-	1	840	c.822A>T	c.(820-822)CAA>CAT	p.Q274H		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	274					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						TGTTTTTGGCTTGTCCCTCCT	0.458													15	70	---	---	---	---	PASS	A	80328533	A	A	80328533	3	1	155	1	0	0	0	0	1	0	0	0	6421	1606	56	5	843	5	GK2	4	80328533	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	9095890	80328533	110825743	97	55060										
C4orf37	285555	broad.mit.edu	37	chr4	99064295	99064295	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gagcaggcggggagcccgatCatacatagtgctcggggtgg	18	9	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr4:99064295C>T	uc003htt.1	-	1	97	c.7G>A	c.(7-9)GAT>AAT	p.D3N		NM_174952	NP_777612	Q8N412	CD037_HUMAN	hypothetical protein LOC285555	3											0				OV - Ovarian serous cystadenocarcinoma(123;2.27e-08)		GGAGCCCGATCATACATAGTG	0.577											OREG0016268	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	14	---	---	---	---	PASS	T	99064295	T	T	99064295	3	4	155	1	0	0	0	0	1	0	0	0	2267	826	29	2	1416	2	C4orf37	4	99064295	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	18735762	99064295	92089981	98	55061										
LRIT3	345193	broad.mit.edu	37	chr4	110791573	110791573	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tacatggcctgtgtctgtccAaaaggagtgcctccccagaa	10	12	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr4:110791573A>T	uc003hzx.3	+	3	1726	c.1533A>T	c.(1531-1533)CCA>CCT	p.P511P	LRIT3_uc003hzw.3_Silent_p.P373P	NM_198506	NP_940908	Q3SXY7	LRIT3_HUMAN	leucine-rich repeat, immunoglobulin-like and	511	Fibronectin type-III.					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;0.0011)		GTGTCTGTCCAAAAGGAGTGC	0.498													8	42	---	---	---	---	PASS	T	110791573	T	T	110791573	2	4	155	1	0	0	0	0	0	0	0	1	8949	117	5	5		5	LRIT3	4	110791573	Silent	SNP	A	TCGA-66-2771-01A-01D-0983-08	11727278	110791573	80362703	99	55062										
EGF	1950	broad.mit.edu	37	chr4	110865119	110865119	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ctgtgtcattggatgtgcttGataagcggctgttttggatt	13	5	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr4:110865119G>C	uc003hzy.3	+	4	1083	c.631G>C	c.(631-633)GAT>CAT	p.D211H	EGF_uc011cfu.1_Missense_Mutation_p.D211H|EGF_uc011cfv.1_Missense_Mutation_p.D211H	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	211	LDL-receptor class B 3.|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	GGATGTGCTTGATAAGCGGCT	0.443													10	22	---	---	---	---	PASS	C	110865119	C	C	110865119	3	2	155	1	0	0	0	0	1	0	0	0	4962	1290	45	2	645	2	EGF	4	110865119	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	73546	110865119	80289157	100	55063										
TMEM155	132332	broad.mit.edu	37	chr4	122682747	122682747	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aaaacaaatcctggcaccttGccattcccagaaaagccagt	6	13	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr4:122682747G>T	uc003idx.1	-	5	717	c.158C>A	c.(157-159)GCA>GAA	p.A53E	TMEM155_uc003idy.1_Missense_Mutation_p.A53E	NM_152399	NP_689612	Q4W5P6	TM155_HUMAN	transmembrane protein 155 precursor	53						extracellular region					0						CTGGCACCTTGCCATTCCCAG	0.413													4	42	---	---	---	---	PASS	T	122682747	T	T	122682747	3	4	155	1	0	0	0	0	1	0	0	0	16069	1319	46	3	242	3	TMEM155	4	122682747	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	11817628	122682747	68471529	101	55064										
FAT4	79633	broad.mit.edu	37	chr4	126328188	126328188	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttcgtgctgatgatggtcttCagtcctcggatatgagaatt	11	7	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr4:126328188C>T	uc003ifj.3	+	3	5461	c.5461C>T	c.(5461-5463)CAG>TAG	p.Q1821*	FAT4_uc011cgp.1_Nonsense_Mutation_p.Q119*	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1821	Cadherin 17.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGATGGTCTTCAGTCCTCGGA	0.478													7	83	---	---	---	---	PASS	T	126328188	T	T	126328188	4	4	155	1	0	0	0	0	0	1	0	0	5692	827	29	2	5471	2	FAT4	4	126328188	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	3645441	126328188	64826088	102	55065										
SORBS2	8470	broad.mit.edu	37	chr4	186545038	186545038	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tggatcagcttttcgaattcGgagatgcgtgtgggcaccat	13	8	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr4:186545038G>A	uc003iyl.2	-	13	2391	c.1533C>T	c.(1531-1533)TCC>TCT	p.S511S	SORBS2_uc003iyh.2_Intron|SORBS2_uc011ckw.1_Intron|SORBS2_uc003iyi.2_Intron|SORBS2_uc011ckx.1_Intron|SORBS2_uc003iyk.2_Intron|SORBS2_uc003iym.2_Silent_p.S611S|SORBS2_uc003iyn.1_Intron|SORBS2_uc011cku.1_Intron|SORBS2_uc011ckv.1_Silent_p.S415S|SORBS2_uc003iyd.2_Intron|SORBS2_uc003iye.2_Intron|SORBS2_uc003iya.2_Intron|SORBS2_uc003iyb.2_Intron|SORBS2_uc003iyc.2_Intron|SORBS2_uc003iyg.2_Silent_p.S625S|SORBS2_uc003iyf.2_Intron|SORBS2_uc003iyo.1_Intron	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	511						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		TTTCGAATTCGGAGATGCGTG	0.572													5	61	---	---	---	---	PASS	A	186545038	A	A	186545038	2	1	155	1	0	0	0	0	0	0	0	1	14928	1103	39	1		1	SORBS2	4	186545038	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	60216850	186545038	4609238	103	55066										
KLKB1	3818	broad.mit.edu	37	chr4	187171402	187171402	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tctgtgagttcacaggttgcCacatgaacatcttccagcat	8	11	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr4:187171402C>T	uc003iyy.2	+	7	675	c.604C>T	c.(604-606)CAC>TAC	p.H202Y	KLKB1_uc011clc.1_5'UTR|KLKB1_uc011cld.1_Missense_Mutation_p.H164Y	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	202	Apple 3.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		CACAGGTTGCCACATGAACAT	0.438													15	61	---	---	---	---	PASS	T	187171402	T	T	187171402	3	4	155	1	0	0	0	0	1	0	0	0	8412	594	21	3	626	3	KLKB1	4	187171402	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	626364	187171402	3982874	104	55067										
CLPTM1L	81037	broad.mit.edu	37	chr5	1341845	1341845	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tggcttggggaccatgtaggTggtcagaggactgaccaggt	17	7	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:1341845T>C	uc003jch.2	-	3	440	c.394A>G	c.(394-396)ACC>GCC	p.T132A	CLPTM1L_uc003jcg.2_5'UTR	NM_030782	NP_110409	Q96KA5	CLP1L_HUMAN	CLPTM1-like	132	Extracellular (Potential).				apoptosis	integral to membrane				breast(1)|central_nervous_system(1)	2	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		ACCATGTAGGTGGTCAGAGGA	0.562													12	66	---	---	---	---	PASS	C	1341845	C	C	1341845	3	2	155	1	0	0	0	0	1	0	0	0	3555	1696	59	5	1282	5	CLPTM1L	5	1341845	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08		1341845	179573415	105	55068										
MARCH6	10299	broad.mit.edu	37	chr5	10410379	10410379	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agcgtggactgtgaccgccgGatacttgctgtgagtatggg	16	8	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:10410379G>C	uc003jet.1	+	18	1865	c.1682G>C	c.(1681-1683)GGA>GCA	p.G561A	MARCH6_uc011cmu.1_Missense_Mutation_p.G513A|MARCH6_uc003jeu.1_Missense_Mutation_p.G259A|MARCH6_uc011cmv.1_Missense_Mutation_p.G456A	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	561	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						GTGACCGCCGGATACTTGCTG	0.527													3	35	---	---	---	---	PASS	C	10410379	C	C	10410379	3	2	155	1	0	0	0	0	1	0	0	0	9305	1174	41	2	1752	2	MARCH6	5	10410379	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	9068534	10410379	170504881	106	55069										
MYO10	4651	broad.mit.edu	37	chr5	16694532	16694532	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cttctcctcgctgtcgttttCaaagtacatcagcttggact	7	12	3	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:16694532C>G	uc003jft.3	-	27	4216	c.3748G>C	c.(3748-3750)GAA>CAA	p.E1250Q	MYO10_uc011cnc.1_Missense_Mutation_p.E129Q|MYO10_uc011cnd.1_Missense_Mutation_p.E607Q|MYO10_uc011cne.1_Missense_Mutation_p.E607Q|MYO10_uc010itx.2_Missense_Mutation_p.E873Q	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1250	PH 1.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CTGTCGTTTTCAAAGTACATC	0.552													9	145	---	---	---	---	PASS	G	16694532	G	G	16694532	3	3	155	1	0	0	0	0	1	0	0	0	10062	835	29	2	2488	2	MYO10	5	16694532	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	6284153	16694532	164220728	107	55070										
SPEF2	79925	broad.mit.edu	37	chr5	35644570	35644570	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cttgcccatttgcattttgaGaaacttgaaagatttcaaaa	6	7	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:35644570G>A	uc003jjo.2	+	4	639	c.528G>A	c.(526-528)GAG>GAA	p.E176E	SPEF2_uc003jjn.1_Silent_p.E176E|SPEF2_uc003jjq.3_Silent_p.E176E	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	176					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity	p.E176G(1)		skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGCATTTTGAGAAACTTGAAA	0.313													6	19	---	---	---	---	PASS	A	35644570	A	A	35644570	2	1	155	1	0	0	0	0	0	0	0	1	15034	933	33	2		2	SPEF2	5	35644570	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	18950038	35644570	145270690	108	55071										
NIPBL	25836	broad.mit.edu	37	chr5	37036542	37036542	+	Frame_Shift_Del	DEL	T	-	-													0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaaagcttgtactcaacttgTtgataacctagttgagcaca							TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:37036542delT	uc003jkl.3	+	33	6423	c.5924delT	c.(5923-5925)GTTfs	p.V1975fs	NIPBL_uc003jkk.3_Frame_Shift_Del_p.V1975fs	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1975	HEAT 3.				brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			ACTCAACTTGTTGATAACCTA	0.249													4	2	---	---	---	---		-	37036542	-	-	37036542	7	5	155	1	0	1	0	1	0	0	0	0	10428	1725	60	0	6050	0	NIPBL	5	37036542	Frame_Shift_Del	DEL	T	TCGA-66-2771-01A-01D-0983-08	1391972	37036542	143878718	109	55072										
HCN1	348980	broad.mit.edu	37	chr5	45645292	45645292	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aaagatgcatcttacctcttCccattgatgtatgtatctaa	5	9	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:45645292C>T	uc003jok.2	-	2	869	c.844G>A	c.(844-846)GAA>AAA	p.E282K		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	282	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CTTACCTCTTCCCATTGATGT	0.333													3	8	---	---	---	---	PASS	T	45645292	T	T	45645292	3	4	155	1	0	0	0	0	1	0	0	0	6996	864	30	2	1856	2	HCN1	5	45645292	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	8608750	45645292	135269968	110	55073										
PCSK1	5122	broad.mit.edu	37	chr5	95728791	95728791	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tttagtgttataaaaaacatCaacatagtcattatacagac	4	6	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:95728791C>T	uc003kls.1	-	14	2382	c.2176G>A	c.(2176-2178)GAT>AAT	p.D726N	PCSK1_uc010jbi.1_Missense_Mutation_p.D416N	NM_000439	NP_000430	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	726					cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity			ovary(2)	2		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TAAAAAACATCAACATAGTCA	0.403													28	78	---	---	---	---	PASS	T	95728791	T	T	95728791	3	4	155	1	0	0	0	0	1	0	0	0	11600	826	29	2	89	2	PCSK1	5	95728791	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	50083499	95728791	85186469	111	55074										
CHD1	1105	broad.mit.edu	37	chr5	98228350	98228350	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aaatggctcaagctccttgtGaaggcttgcataaccatatt	8	9	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:98228350G>T	uc003knf.2	-	14	2207	c.2059C>A	c.(2059-2061)CAC>AAC	p.H687N		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	687					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	AGCTCCTTGTGAAGGCTTGCA	0.383													13	32	---	---	---	---	PASS	T	98228350	T	T	98228350	3	4	155	1	0	0	0	0	1	0	0	0	3323	1290	45	2	3161	2	CHD1	5	98228350	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	2499559	98228350	82686910	112	55075										
SRFBP1	153443	broad.mit.edu	37	chr5	121356289	121356289	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atagcggtgacgacttcttcAttgggaaagtcagacggaca	12	8	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:121356289A>G	uc003kst.1	+	6	931	c.859A>G	c.(859-861)ATT>GTT	p.I287V		NM_152546	NP_689759	Q8NEF9	SRFB1_HUMAN	serum response factor binding protein 1	287					regulation of transcription, DNA-dependent|transcription, DNA-dependent	perinuclear region of cytoplasm					0		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000227)|Epithelial(69;0.000365)|all cancers(49;0.00517)		CGACTTCTTCATTGGGAAAGT	0.383													17	43	---	---	---	---	PASS	G	121356289	G	G	121356289	3	3	155	1	0	0	0	0	1	0	0	0	15143	217	8	5	881	5	SRFBP1	5	121356289	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	23127939	121356289	59558971	113	55076										
ADAMTS19	171019	broad.mit.edu	37	chr5	128862084	128862084	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agactgtagtggttgcagacCcagcaatggtttcctatcat	10	9	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:128862084C>A	uc003kvb.1	+	4	1003	c.1003C>A	c.(1003-1005)CCA>ACA	p.P335T	ADAMTS19_uc003kvc.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	335	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		GGTTGCAGACCCAGCAATGGT	0.393													10	33	---	---	---	---	PASS	A	128862084	A	A	128862084	3	1	155	1	0	0	0	0	1	0	0	0	264	623	22	3	1017	3	ADAMTS19	5	128862084	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	7505795	128862084	52053176	114	55077										
PCDHA6	56142	broad.mit.edu	37	chr5	140208830	140208830	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttcaggtgccaacgggcaggTgaactgctcgctgacgcctc	13	13	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:140208830T>C	uc003lho.2	+	1	1181	c.1154T>C	c.(1153-1155)GTG>GCG	p.V385A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.V385A|PCDHA6_uc011dab.1_Missense_Mutation_p.V385A	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	385	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACGGGCAGGTGAACTGCTCG	0.547													31	97	---	---	---	---	PASS	C	140208830	C	C	140208830	3	2	155	1	0	0	0	0	1	0	0	0	11528	1696	59	5	1156	5	PCDHA6	5	140208830	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	11346746	140208830	40706430	115	55078										
PCDHA6	56142	broad.mit.edu	37	chr5	140209110	140209110	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgccacatcttcacggtgtcTgcgcgagacgcggacgcgca	13	14	3	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:140209110T>C	uc003lho.2	+	1	1461	c.1434T>C	c.(1432-1434)TCT>TCC	p.S478S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.S478S|PCDHA6_uc011dab.1_Silent_p.S478S	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	478	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCACGGTGTCTGCGCGAGACG	0.647													8	21	---	---	---	---	PASS	C	140209110	C	C	140209110	2	2	155	1	0	0	0	0	0	0	0	1	11528	1567	55	5		5	PCDHA6	5	140209110	Silent	SNP	T	TCGA-66-2771-01A-01D-0983-08	280	140209110	40706150	116	55079										
CAMK2A	815	broad.mit.edu	37	chr5	149631622	149631622	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agagatatccaggagtccctGcaaaccctgctcccagacac	8	15	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:149631622G>T	uc003lru.2	-	8	736	c.521C>A	c.(520-522)GCA>GAA	p.A174E	CAMK2A_uc003lrt.2_Missense_Mutation_p.A174E|CAMK2A_uc010jhe.2_Missense_Mutation_p.A154E|CAMK2A_uc010jhf.1_Missense_Mutation_p.Q12K	NM_171825	NP_741960	Q9UQM7	KCC2A_HUMAN	calcium/calmodulin-dependent protein kinase II	174	Protein kinase.				interferon-gamma-mediated signaling pathway|positive regulation of NF-kappaB transcription factor activity|synaptic transmission	cell junction|cytosol|endocytic vesicle membrane|nucleoplasm|presynaptic membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)	1		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGGAGTCCCTGCAAACCCTGC	0.552													7	20	---	---	---	---	PASS	T	149631622	T	T	149631622	3	4	155	1	0	0	0	0	1	0	0	0	2599	1319	46	3	996	3	CAMK2A	5	149631622	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	9422512	149631622	31283638	117	55080										
ATP10B	23120	broad.mit.edu	37	chr5	160059368	160059368	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gctcctttggggtctccagtCgcttagctgcaagaaaggag	13	10	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr5:160059368C>T	uc003lym.1	-	13	2235	c.1388G>A	c.(1387-1389)CGA>CAA	p.R463Q	ATP10B_uc003lyn.2_Missense_Mutation_p.R21Q	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	463	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGTCTCCAGTCGCTTAGCTGC	0.527													17	40	---	---	---	---	PASS	T	160059368	T	T	160059368	3	4	155	1	0	0	0	0	1	0	0	0	1117	884	31	2	3053	2	ATP10B	5	160059368	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	10427746	160059368	20855892	118	55081										
HIVEP1	3096	broad.mit.edu	37	chr6	12163563	12163563	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gctgcagctgagcacagcccCcagacagcagcggggatgcc	14	15	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:12163563C>T	uc003nac.2	+	9	7205	c.7026C>T	c.(7024-7026)CCC>CCT	p.P2342P	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2342					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				AGCACAGCCCCCAGACAGCAG	0.512													6	144	---	---	---	---	PASS	T	12163563	T	T	12163563	2	4	155	1	0	0	0	0	0	0	0	1	7186	610	22	3		3	HIVEP1	6	12163563	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08		12163563	158951504	119	55082										
HLA-F	3134	broad.mit.edu	37	chr6	29695871	29695871	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaggaggtgctaccagcatcTtgtggggaatgaccagggat	16	7	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:29695871T>C	uc011dlx.1	+	8	1420	c.1296T>C	c.(1294-1296)TCT>TCC	p.S432S	HLA-F_uc011dly.1_Intron|LOC285830_uc003nnp.2_Intron|LOC285830_uc011dlz.1_Intron	NM_018950	NP_061823	P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	Error:Variant_position_missing_in_P30511_after_alignment					antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity				0						taccagcatcttgtggggaat	0													7	17	---	---	---	---	PASS	C	29695871	C	C	29695871	2	2	155	1	0	0	0	0	0	0	0	1	7211	1624	56	5		5	HLA-F	6	29695871	Silent	SNP	T	TCGA-66-2771-01A-01D-0983-08	17532308	29695871	141419196	120	55083										
COL11A2	1302	broad.mit.edu	37	chr6	33154404	33154404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ggttctcccagctccctcacCtggctctggggttcctgatt	10	15	3	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:33154404C>A	uc003ocx.1	-	5	1026	c.798G>T	c.(796-798)CAG>CAT	p.Q266H	COL11A2_uc003ocy.1_Missense_Mutation_p.Q266H|COL11A2_uc003ocz.1_Missense_Mutation_p.Q266H|COL11A2_uc003oda.2_Missense_Mutation_p.Q266H	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	266	Nonhelical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						GCTCCCTCACCTGGCTCTGGG	0.577													17	45	---	---	---	---	PASS	A	33154404	A	A	33154404	3	1	155	1	0	0	0	0	1	0	0	0	3668	695	24	3	4735	3	COL11A2	6	33154404	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	3458533	33154404	137960663	121	55084										
EYS	346007	broad.mit.edu	37	chr6	66205243	66205243	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttgccgtctacatgtttttcCatttatgaaagagctgtgaa	8	7	1	3	rs148294551		TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:66205243C>A	uc011dxu.1	-	4	599	c.61G>T	c.(61-63)GGA>TGA	p.G21*	EYS_uc003peq.2_Nonsense_Mutation_p.G21*|EYS_uc003per.1_Nonsense_Mutation_p.G21*|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	21					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						CATGTTTTTCCATTTATGAAA	0.373													7	22	---	---	---	---	PASS	A	66205243	A	A	66205243	4	1	155	1	0	0	0	0	0	1	0	0	5332	603	21	3	9495	3	EYS	6	66205243	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	33050839	66205243	104909824	122	55085										
COL19A1	1310	broad.mit.edu	37	chr6	70866115	70866115	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ctggaaagtatgattccatgGcccggaaggtgagaagcctg	14	8	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:70866115G>T	uc003pfc.1	+	32	2293	c.2176G>T	c.(2176-2178)GCC>TCC	p.A726S	COL19A1_uc010kam.1_Missense_Mutation_p.A622S	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	726	Triple-helical region 4 (COL4).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TGATTCCATGGCCCGGAAGGT	0.493													16	26	---	---	---	---	PASS	T	70866115	T	T	70866115	3	4	155	1	0	0	0	0	1	0	0	0	3676	1203	42	3	2298	3	COL19A1	6	70866115	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	4660872	70866115	100248952	123	55086										
FILIP1	27145	broad.mit.edu	37	chr6	76022993	76022993	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ctggaggatacctgtctagaAcagaagatctttccacgggt	11	9	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:76022993A>G	uc003pia.2	-	5	2928	c.2555T>C	c.(2554-2556)GTT>GCT	p.V852A	FILIP1_uc003phy.1_Missense_Mutation_p.V852A|FILIP1_uc003phz.2_Missense_Mutation_p.V753A|FILIP1_uc010kbe.2_Missense_Mutation_p.V855A|FILIP1_uc003pib.1_Missense_Mutation_p.V604A	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	852										skin(3)|ovary(1)	4						CCTGTCTAGAACAGAAGATCT	0.458													20	60	---	---	---	---	PASS	G	76022993	G	G	76022993	3	3	155	1	0	0	0	0	1	0	0	0	5894	43	2	5	1094	5	FILIP1	6	76022993	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	5156878	76022993	95092074	124	55087										
MRAP2	112609	broad.mit.edu	37	chr6	84772654	84772654	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ggttggtcttgcagtcttcgTgatttttatgttttttgtgc	11	5	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:84772654T>C	uc003pkg.3	+	3	360	c.170T>C	c.(169-171)GTG>GCG	p.V57A	MRAP2_uc010kbo.2_Intron	NM_138409	NP_612418	Q96G30	MRAP2_HUMAN	melanocortin 2 receptor accessory protein 2	57					positive regulation of cAMP biosynthetic process|protein localization at cell surface	endoplasmic reticulum|plasma membrane	corticotropin hormone receptor binding|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding|type 5 melanocortin receptor binding			skin(2)	2						GCAGTCTTCGTGATTTTTATG	0.403													5	32	---	---	---	---	PASS	C	84772654	C	C	84772654	3	2	155	1	0	0	0	0	1	0	0	0	9754	1696	59	5	176	5	MRAP2	6	84772654	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	8749661	84772654	86342413	125	55088										
FHL5	9457	broad.mit.edu	37	chr6	97058603	97058603	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tacaaccatctttatgccaaCaagtgtgtagcctgttccaa	6	11	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:97058603C>T	uc003pos.1	+	6	1065	c.660C>T	c.(658-660)AAC>AAT	p.N220N	FHL5_uc003pot.1_Silent_p.N220N	NM_020482	NP_065228	Q5TD97	FHL5_HUMAN	activator of cAMP-responsive element modulator	220	LIM zinc-binding 3.					nucleus	zinc ion binding			ovary(2)	2		all_cancers(76;1.57e-07)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00266)|Colorectal(196;0.0341)|Lung NSC(302;0.204)		BRCA - Breast invasive adenocarcinoma(108;0.0948)		TTTATGCCAACAAGTGTGTAG	0.413													13	46	---	---	---	---	PASS	T	97058603	T	T	97058603	2	4	155	1	0	0	0	0	0	0	0	1	5881	477	17	3		3	FHL5	6	97058603	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	12285949	97058603	74056464	126	55089										
HACE1	57531	broad.mit.edu	37	chr6	105224980	105224980	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttcacagctactcctaaaaaTagaatctaaatatgtagcat	4	8	2	1	rs145211482	byFrequency	TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:105224980T>G	uc003pqu.1	-	16	1961	c.1684A>C	c.(1684-1686)ATT>CTT	p.I562L	HACE1_uc010kcy.1_Missense_Mutation_p.I44L|HACE1_uc010kcz.1_Intron|HACE1_uc010kcx.1_Intron|HACE1_uc003pqt.1_Missense_Mutation_p.I215L	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	562					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		CTCCTAAAAATAGAATCTAAA	0.328													8	22	---	---	---	---	PASS	G	105224980	G	G	105224980	3	3	155	1	0	0	0	0	1	0	0	0	6940	1406	49	5	1081	5	HACE1	6	105224980	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	8166377	105224980	65890087	127	55090										
RTN4IP1	84816	broad.mit.edu	37	chr6	107050751	107050751	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	attaaaaaatggttttacctGtatagcaaaagtaccaactc	5	7	0	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:107050751G>C	uc003prj.2	-	5	1144	c.667C>G	c.(667-669)CAG>GAG	p.Q223E	RTN4IP1_uc010kdd.2_Intron|RTN4IP1_uc003prk.2_Missense_Mutation_p.Q123E	NM_032730	NP_116119	Q8WWV3	RT4I1_HUMAN	reticulon 4 interacting protein 1 precursor	223						mitochondrion	oxidoreductase activity|zinc ion binding				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;9.45e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.0144)	Epithelial(6;0.000873)|all cancers(7;0.00363)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0394)	all cancers(137;0.113)|BRCA - Breast invasive adenocarcinoma(108;0.127)|Epithelial(106;0.144)		GGTTTTACCTGTATAGCAAAA	0.328													13	44	---	---	---	---	PASS	C	107050751	C	C	107050751	3	2	155	1	0	0	0	0	1	0	0	0	13729	1386	48	4	543	4	RTN4IP1	6	107050751	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	1825771	107050751	64064316	128	55091										
FYN	2534	broad.mit.edu	37	chr6	112017519	112017519	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gacgatgtagatgggctcctCagacaccactgcatagagct	11	11	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:112017519C>G	uc003pvj.2	-	9	1343	c.1003G>C	c.(1003-1005)GAG>CAG	p.E335Q	FYN_uc003pvi.2_Missense_Mutation_p.E280Q|FYN_uc003pvk.2_Missense_Mutation_p.E335Q|FYN_uc003pvh.2_Missense_Mutation_p.E332Q|FYN_uc010kdy.1_Intron	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	335	Protein kinase.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	ATGGGCTCCTCAGACACCACT	0.517													4	81	---	---	---	---	PASS	G	112017519	G	G	112017519	3	3	155	1	0	0	0	0	1	0	0	0	6126	835	29	2	630	2	FYN	6	112017519	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	4966768	112017519	59097548	129	55092										
ROS1	6098	broad.mit.edu	37	chr6	117700284	117700284	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ctgtcttgaaccaaccaataCaggagcccatcactgaggtc	8	13	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:117700284C>A	uc003pxp.1	-	17	2734	c.2535G>T	c.(2533-2535)CTG>CTT	p.L845L	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	845	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		CCAACCAATACAGGAGCCCAT	0.393			T	GOPC|ROS1	glioblastoma|NSCLC								4	29	---	---	---	---	PASS	A	117700284	A	A	117700284	2	1	155	1	0	0	0	0	0	0	0	1	13531	465	17	3		3	ROS1	6	117700284	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	5682765	117700284	53414783	130	55093										
SLC35F1	222553	broad.mit.edu	37	chr6	118635205	118635205	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttttagttttcaggactttaTctcctgtctttcttcaccat	4	10	5	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:118635205T>A	uc003pxx.3	+	8	1218	c.1017T>A	c.(1015-1017)TAT>TAA	p.Y339*	SLC35F1_uc003pxy.1_Nonsense_Mutation_p.Y144*	NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	339	Helical; (Potential).				transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		CAGGACTTTATCTCCTGTCTT	0.478													13	72	---	---	---	---	PASS	A	118635205	A	A	118635205	4	1	155	1	0	0	0	0	0	1	0	0	14588	1442	50	5	1047	5	SLC35F1	6	118635205	Nonsense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	934921	118635205	52479862	131	55094										
TNFAIP3	7128	broad.mit.edu	37	chr6	138202416	138202416	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	caatgccaagtgcaacggctActgcaacgaatgctttcagt	9	11	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:138202416A>G	uc003qhr.2	+	9	2399	c.2333A>G	c.(2332-2334)TAC>TGC	p.Y778C	TNFAIP3_uc003qhs.2_Missense_Mutation_p.Y778C	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	778	A20-type 7.				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		TGCAACGGCTACTGCAACGAA	0.607			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								24	74	---	---	---	---	PASS	G	138202416	G	G	138202416	3	3	155	1	0	0	0	0	1	0	0	0	16271	391	14	5	2363	5	TNFAIP3	6	138202416	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	19567211	138202416	32912651	132	55095										
ESR1	2099	broad.mit.edu	37	chr6	152163866	152163866	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgactatgcttcaggctaccAttatggagtctggtcctgtg	11	9	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:152163866A>G	uc003qom.3	+	4	957	c.587A>G	c.(586-588)CAT>CGT	p.H196R	ESR1_uc010kin.2_Missense_Mutation_p.H196R|ESR1_uc010kio.2_Missense_Mutation_p.H196R|ESR1_uc010kip.2_Missense_Mutation_p.H196R|ESR1_uc003qon.3_Missense_Mutation_p.H196R|ESR1_uc003qoo.3_Missense_Mutation_p.H196R|ESR1_uc010kiq.2_Intron|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_RNA|ESR1_uc011eeu.1_RNA|ESR1_uc011eev.1_Missense_Mutation_p.H23R|ESR1_uc011eew.1_Missense_Mutation_p.I28V	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	196	NR C4-type.|Nuclear receptor.|Mediates interaction with DNTTIP2.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	TCAGGCTACCATTATGGAGTC	0.453													11	37	---	---	---	---	PASS	G	152163866	G	G	152163866	3	3	155	1	0	0	0	0	1	0	0	0	5256	217	8	5	593	5	ESR1	6	152163866	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	13961450	152163866	18951201	133	55096										
SYNE1	23345	broad.mit.edu	37	chr6	152725365	152725365	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tacctgaaggtctggcggtgTttctagatttttagttaatt	10	5	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:152725365T>C	uc010kiw.2	-	46	7410	c.6808A>G	c.(6808-6810)ACA>GCA	p.T2270A	SYNE1_uc003qot.3_Missense_Mutation_p.T2277A|SYNE1_uc003qou.3_Missense_Mutation_p.T2270A|SYNE1_uc010kjb.1_Missense_Mutation_p.T2253A	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2270	Potential.|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)		TCTGGCGGTGTTTCTAGATTT	0.333										HNSCC(10;0.0054)			10	52	---	---	---	---	PASS	C	152725365	C	C	152725365	3	2	155	1	0	0	0	0	1	0	0	0	15442	1725	60	5	20062	5	SYNE1	6	152725365	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	561499	152725365	18389702	134	55097										
OPRM1	4988	broad.mit.edu	37	chr6	154360761	154360761	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gttgctccccagcacccagcCccggttcctgggtcaacttg	10	17	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:154360761C>T	uc003qpr.2	+	1	319	c.82C>T	c.(82-84)CCC>TCC	p.P28S	OPRM1_uc011efb.1_Missense_Mutation_p.P76S|OPRM1_uc011efc.1_Intron|OPRM1_uc011efd.1_Intron|OPRM1_uc011efe.1_Missense_Mutation_p.P121S|OPRM1_uc003qpn.2_Missense_Mutation_p.P28S|OPRM1_uc003qpo.1_Missense_Mutation_p.P28S|OPRM1_uc011eff.1_Missense_Mutation_p.P28S|OPRM1_uc011efg.1_Missense_Mutation_p.P28S|OPRM1_uc011efh.1_Missense_Mutation_p.P28S|OPRM1_uc003qpq.1_Missense_Mutation_p.P28S|OPRM1_uc003qpt.1_Missense_Mutation_p.P28S|OPRM1_uc011efi.1_Missense_Mutation_p.P28S|OPRM1_uc003qpp.2_RNA|OPRM1_uc003qps.2_RNA	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	28	Extracellular (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	AGCACCCAGCCCCGGTTCCTG	0.652													5	12	---	---	---	---	PASS	T	154360761	T	T	154360761	3	4	155	1	0	0	0	0	1	0	0	0	10887	623	22	3	418	3	OPRM1	6	154360761	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	1635396	154360761	16754306	135	55098										
SNX9	51429	broad.mit.edu	37	chr6	158358489	158358489	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aagaaagatctccatttcctGatggaatgtaatcacgagta	8	7	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:158358489G>C	uc003qqv.1	+	15	1640	c.1467G>C	c.(1465-1467)CTG>CTC	p.L489L		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	489	BAR.				cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)		TCCATTTCCTGATGGAATGTA	0.373													4	75	---	---	---	---	PASS	C	158358489	C	C	158358489	2	2	155	1	0	0	0	0	0	0	0	1	14909	1277	45	2		2	SNX9	6	158358489	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	3997728	158358489	12756578	136	55099										
MRPL18	29074	broad.mit.edu	37	chr6	160212095	160212095	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cccccggaacctggagctttTatctgtagccaggaaagagc	11	12	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr6:160212095T>C	uc003qsw.3	+	2	304	c.176T>C	c.(175-177)TTA>TCA	p.L59S	TCP1_uc003qsr.2_5'Flank|TCP1_uc003qss.2_5'Flank|TCP1_uc010kjz.2_5'Flank|TCP1_uc003qst.2_5'Flank|TCP1_uc010kka.1_5'Flank|MRPL18_uc010kkb.2_RNA	NM_014161	NP_054880	Q9H0U6	RM18_HUMAN	mitochondrial ribosomal protein L18 precursor	59					rRNA transport|translation	mitochondrial ribosome	5S rRNA binding|structural constituent of ribosome				0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.44e-18)|BRCA - Breast invasive adenocarcinoma(81;5.79e-06)		CTGGAGCTTTTATCTGTAGCC	0.562													4	16	---	---	---	---	PASS	C	160212095	C	C	160212095	3	2	155	1	0	0	0	0	1	0	0	0	9783	1764	61	5	182	5	MRPL18	6	160212095	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	1853606	160212095	10902972	137	55100										
ELMO1	9844	broad.mit.edu	37	chr7	37136261	37136261	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aagatctcacatagcatcttGgtcagctctatactactgcg	7	11	4	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:37136261G>T	uc003tfk.1	-	15	1570	c.1263C>A	c.(1261-1263)ACC>ACA	p.T421T	ELMO1_uc011kbc.1_Silent_p.T325T|ELMO1_uc010kxg.1_Silent_p.T421T	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	421	ELMO.				actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						ATAGCATCTTGGTCAGCTCTA	0.468													10	43	---	---	---	---	PASS	T	37136261	T	T	37136261	2	4	155	1	0	0	0	0	0	0	0	1	5065	1335	47	3		3	ELMO1	7	37136261	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08		37136261	122002402	138	55101										
GUSB	2990	broad.mit.edu	37	chr7	65429349	65429349	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ggcaaaattccaaatgagctCtccaaccacgtattttctgc	6	12	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:65429349C>A	uc003tun.2	-	11	1826	c.1750G>T	c.(1750-1752)GAG>TAG	p.E584*	GUSB_uc011kdt.1_Nonsense_Mutation_p.E438*	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	584					glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0						CAAATGAGCTCTCCAACCACG	0.453													27	104	---	---	---	---	PASS	A	65429349	A	A	65429349	4	1	155	1	0	0	0	0	0	1	0	0	6902	922	32	2	213	2	GUSB	7	65429349	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	28293088	65429349	93709314	139	55102										
RABGEF1	27342	broad.mit.edu	37	chr7	66270167	66270167	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aagcgtgtgcctcgagacaaGctggcctgcatcaccaagtg	12	12	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:66270167G>A	uc011kee.1	+	8	1067	c.903G>A	c.(901-903)AAG>AAA	p.K301K	RABGEF1_uc003tvf.2_Silent_p.K160K|RABGEF1_uc003tvg.2_Silent_p.K95K|RABGEF1_uc010lag.2_Silent_p.K287K|RABGEF1_uc003tvh.2_Silent_p.K287K|RABGEF1_uc003tvi.2_Silent_p.K121K	NM_014504	NP_055319	Q9UJ41	RABX5_HUMAN	RAB guanine nucleotide exchange factor (GEF) 1	504	VPS9.				endocytosis|protein transport	early endosome|recycling endosome	DNA binding|protein binding|zinc ion binding			ovary(1)	1						CTCGAGACAAGCTGGCCTGCA	0.463													15	34	---	---	---	---	PASS	A	66270167	A	A	66270167	2	1	155	1	0	0	0	0	0	0	0	1	12966	962	34	3		3	RABGEF1	7	66270167	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	840818	66270167	92868496	140	55103										
GNAI1	2770	broad.mit.edu	37	chr7	79846672	79846672	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttcaatgtcagtttgaagacCtcaataaaagaaaggacaca	7	7	3	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:79846672C>G	uc003uhb.1	+	8	1265	c.928C>G	c.(928-930)CTC>GTC	p.L310V	GNAI1_uc011kgt.1_Missense_Mutation_p.L258V	NM_002069	NP_002060	P63096	GNAI1_HUMAN	guanine nucleotide binding protein (G protein),	310					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody|nucleus	G-protein beta/gamma-subunit complex binding|GTP binding|metabotropic serotonin receptor binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						GTTTGAAGACCTCAATAAAAG	0.343													7	26	---	---	---	---	PASS	G	79846672	G	G	79846672	3	3	155	1	0	0	0	0	1	0	0	0	6504	681	24	4	958	4	GNAI1	7	79846672	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	13576505	79846672	79291991	141	55104										
ZNF804B	219578	broad.mit.edu	37	chr7	88963668	88963668	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gccacaccactcttcaatggCctacggaacttctgctcttt	6	15	4	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:88963668C>A	uc011khi.1	+	4	1910	c.1372C>A	c.(1372-1374)CCT>ACT	p.P458T		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	458						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TCTTCAATGGCCTACGGAACT	0.418										HNSCC(36;0.09)			14	57	---	---	---	---	PASS	A	88963668	A	A	88963668	3	1	155	1	0	0	0	0	1	0	0	0	18168	739	26	3	1386	3	ZNF804B	7	88963668	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	9116996	88963668	70174995	142	55105										
PIK3CG	5294	broad.mit.edu	37	chr7	106508577	106508577	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gcatggcggaggtggccagcCgcgaccccaagctctacgcc	14	16	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:106508577C>A	uc003vdv.3	+	2	656	c.571C>A	c.(571-573)CGC>AGC	p.R191S	PIK3CG_uc003vdu.2_Missense_Mutation_p.R191S|PIK3CG_uc003vdw.2_Missense_Mutation_p.R191S	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	191					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						GGTGGCCAGCCGCGACCCCAA	0.612													14	24	---	---	---	---	PASS	A	106508577	A	A	106508577	3	1	155	1	0	0	0	0	1	0	0	0	11916	652	23	1	573	1	PIK3CG	7	106508577	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	17544909	106508577	52630086	143	55106										
LAMB1	3912	broad.mit.edu	37	chr7	107572753	107572753	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cccacacttcctctctccttCgtcagttctgcagtttggcc	6	17	3	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:107572753C>T	uc003vew.2	-	28	4593	c.4258G>A	c.(4258-4260)GAA>AAA	p.E1420K	LAMB1_uc003vev.2_Missense_Mutation_p.E1444K|LAMB1_uc003veu.2_5'Flank	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1420	Domain alpha.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTCTCTCCTTCGTCAGTTCTG	0.572													9	54	---	---	---	---	PASS	T	107572753	T	T	107572753	3	4	155	1	0	0	0	0	1	0	0	0	8610	893	31	2	1130	2	LAMB1	7	107572753	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	1064176	107572753	51565910	144	55107										
LAMB4	22798	broad.mit.edu	37	chr7	107743501	107743501	+	Missense_Mutation	SNP	A	T	T													0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ggactcacgaatgcacgcgtAgggatctgagatggtcttga					rs140607116	by1000genomes	TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:107743501A>T	uc010ljo.1	-	10	1252	c.1168T>A	c.(1168-1170)TAC>AAC	p.Y390N	LAMB4_uc003vey.2_Missense_Mutation_p.Y390N	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	390	Laminin EGF-like 2.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						ATGCACGCGTAGGGATCTGAG	0.587													7	27	---	---	---	---	PASS	T	107743501	T	T	107743501	3	4	155	1	0	0	0	0	1	0	0	0	8613	420	15	5	4217	5	LAMB4	7	107743501	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	170748	107743501	51395162	145	55108	989	2								
LAMB4	22798	broad.mit.edu	37	chr7	107743502	107743502	+	Silent	SNP	G	A	A													0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gactcacgaatgcacgcgtaGggatctgagatggtcttgag							TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:107743502G>A	uc010ljo.1	-	10	1251	c.1167C>T	c.(1165-1167)CCC>CCT	p.P389P	LAMB4_uc003vey.2_Silent_p.P389P	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	389	Laminin EGF-like 2.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						TGCACGCGTAGGGATCTGAGA	0.592													7	27	---	---	---	---	PASS	A	107743502	A	A	107743502	2	1	155	1	0	0	0	0	0	0	0	1	8613	987	35	3		3	LAMB4	7	107743502	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	1	107743502	51395161	146	55109	989	2								
C7orf60	154743	broad.mit.edu	37	chr7	112472715	112472715	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcaagtaatctgatttttccTgaggcttgtagcaacctaaa	7	8	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:112472715T>G	uc003vgo.1	-	4	616	c.489A>C	c.(487-489)TCA>TCC	p.S163S	C7orf60_uc011kms.1_Silent_p.S189S	NM_152556	NP_689769	Q1RMZ1	CG060_HUMAN	hypothetical protein LOC154743	163										ovary(2)|skin(1)	3						TGATTTTTCCTGAGGCTTGTA	0.294													16	44	---	---	---	---	PASS	G	112472715	G	G	112472715	2	3	155	1	0	0	0	0	0	0	0	1	2407	1567	55	5		5	C7orf60	7	112472715	Silent	SNP	T	TCGA-66-2771-01A-01D-0983-08	4729213	112472715	46665948	147	55110										
ZNF777	27153	broad.mit.edu	37	chr7	149129570	149129570	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gtgagacgcagcctccgcgcAcgcggtggatgcgctggtgc	17	13	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:149129570A>T	uc003wfv.2	-	6	1956	c.1793T>A	c.(1792-1794)GTG>GAG	p.V598E		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	598					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GCCTCCGCGCACGCGGTGGAT	0.672													10	35	---	---	---	---	PASS	T	149129570	T	T	149129570	3	4	155	1	0	0	0	0	1	0	0	0	18147	159	6	5	706	5	ZNF777	7	149129570	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	36656855	149129570	10009093	148	55111										
GIMAP7	168537	broad.mit.edu	37	chr7	150217426	150217426	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcaaggctgtctttgggaagTcagccatgaagcacatggtc	12	9	3	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:150217426T>A	uc003whk.2	+	2	494	c.364T>A	c.(364-366)TCA>ACA	p.S122T		NM_153236	NP_694968	Q8NHV1	GIMA7_HUMAN	GTPase, IMAP family member 7	122							GTP binding			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTTTGGGAAGTCAGCCATGAA	0.527													5	43	---	---	---	---	PASS	A	150217426	A	A	150217426	3	1	155	1	0	0	0	0	1	0	0	0	6384	1667	58	5	366	5	GIMAP7	7	150217426	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	1087856	150217426	8921237	149	55112										
GIMAP4	55303	broad.mit.edu	37	chr7	150269977	150269977	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaagataaagtggagcaggaAaagagaaagaagcaaatgga	14	2	0	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr7:150269977A>G	uc003whl.2	+	3	901	c.819A>G	c.(817-819)GAA>GAG	p.E273E	GIMAP4_uc011kuu.1_Silent_p.E134E|GIMAP4_uc011kuv.1_Silent_p.E287E	NM_018326	NP_060796	Q9NUV9	GIMA4_HUMAN	GTPase, IMAP family member 4	273	Potential.						GTP binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0179)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGGAGCAGGAAAAGAGAAAGA	0.468													8	44	---	---	---	---	PASS	G	150269977	G	G	150269977	2	3	155	1	0	0	0	0	0	0	0	1	6381	11	1	5		5	GIMAP4	7	150269977	Silent	SNP	A	TCGA-66-2771-01A-01D-0983-08	52551	150269977	8868686	150	55113										
CDCA2	157313	broad.mit.edu	37	chr8	25317909	25317909	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gtccgtttcaggaaatgcctCtttcattttgggaactggga	11	8	3	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:25317909C>G	uc003xep.1	+	3	550	c.71C>G	c.(70-72)TCT>TGT	p.S24C	PPP2R2A_uc003xek.2_Intron|KCTD9_uc003xeo.2_5'Flank|CDCA2_uc011lae.1_Missense_Mutation_p.S24C|CDCA2_uc003xeq.1_Missense_Mutation_p.S9C	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	24					cell division|mitosis	cytoplasm|nucleus					0		all_cancers(63;0.0378)|Ovarian(32;0.000878)|all_epithelial(46;0.0162)|Breast(100;0.0164)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.022)|Epithelial(17;1.37e-11)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0443)		GGAAATGCCTCTTTCATTTTG	0.428													28	116	---	---	---	---	PASS	G	25317909	G	G	25317909	3	3	155	1	0	0	0	0	1	0	0	0	3086	913	32	2	77	2	CDCA2	8	25317909	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08		25317909	121046113	151	55114										
ADAM18	8749	broad.mit.edu	37	chr8	39466640	39466640	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ctgtgtctccatattttatgGtaaagtaagataccttattt	6	6	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:39466640G>T	uc003xni.2	+	4	267	c.267_splice	c.e4+1	p.M89_splice	ADAM18_uc003xnh.2_Splice_Site_p.M89_splice|ADAM18_uc010lww.2_Splice_Site|ADAM18_uc010lwx.2_Splice_Site_p.M89_splice	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18						cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			ATATTTTATGGTAAAGTAAGA	0.269													4	7	---	---	---	---	PASS	T	39466640	T	T	39466640	5	4	155	1	0	0	0	0	0	0	1	0	239	1275	44	3	282	3	ADAM18	8	39466640	Splice_Site	SNP	G	TCGA-66-2771-01A-01D-0983-08	14148731	39466640	106897382	152	55115										
RP1	6101	broad.mit.edu	37	chr8	55542146	55542146	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atatgattcatggtacacttCaggaagctgactctttggat	9	7	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:55542146C>T	uc003xsd.1	+	4	5852	c.5704C>T	c.(5704-5706)CAG>TAG	p.Q1902*	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1902					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TGGTACACTTCAGGAAGCTGA	0.398													6	52	---	---	---	---	PASS	T	55542146	T	T	55542146	4	4	155	1	0	0	0	0	0	1	0	0	13532	827	29	2	5714	2	RP1	8	55542146	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	16075506	55542146	90821876	153	55116										
FAM110B	90362	broad.mit.edu	37	chr8	59058961	59058961	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tggagaggctggaggccgacAaggccaagtacgtcaagagc	16	9	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:59058961A>T	uc003xtj.1	+	5	1052	c.172A>T	c.(172-174)AAG>TAG	p.K58*		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	58						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				GGAGGCCGACAAGGCCAAGTA	0.677													8	15	---	---	---	---	PASS	T	59058961	T	T	59058961	4	4	155	1	0	0	0	0	0	1	0	0	5397	131	5	5	174	5	FAM110B	8	59058961	Nonsense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	3516815	59058961	87305061	154	55117										
TRPA1	8989	broad.mit.edu	37	chr8	72951230	72951230	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	caagacagtaagatcctaaaTtcatcatatgagctctaaat	5	8	3	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:72951230T>C	uc003xza.2	-	19	2340	c.2165A>G	c.(2164-2166)AAT>AGT	p.N722S	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	722	Helical; Name=1; (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AGATCCTAAATTCATCATATG	0.348													9	45	---	---	---	---	PASS	C	72951230	C	C	72951230	3	2	155	1	0	0	0	0	1	0	0	0	16574	1493	52	5	1230	5	TRPA1	8	72951230	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	13892269	72951230	73412792	155	55118										
TRPA1	8989	broad.mit.edu	37	chr8	72963055	72963055	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tctatcatttctgtaattggAcatttattgcctggagaatt	7	6	3	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:72963055A>T	uc003xza.2	-	15	2038	c.1863T>A	c.(1861-1863)TGT>TGA	p.C621*	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	621	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	CTGTAATTGGACATTTATTGC	0.328													5	32	---	---	---	---	PASS	T	72963055	T	T	72963055	4	4	155	1	0	0	0	0	0	1	0	0	16574	273	10	5	1548	5	TRPA1	8	72963055	Nonsense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	11825	72963055	73400967	156	55119										
GDAP1	54332	broad.mit.edu	37	chr8	75275277	75275277	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgaattgcaaagaagaaatgAagaaaccccaggtaggttct	10	6	1	5			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:75275277A>G	uc003yah.2	+	5	762	c.683A>G	c.(682-684)GAA>GGA	p.E228G	GDAP1_uc011lfj.1_Missense_Mutation_p.E113G|GDAP1_uc003yai.2_Missense_Mutation_p.E160G	NM_018972	NP_061845	Q8TB36	GDAP1_HUMAN	ganglioside-induced differentiation-associated	228	GST C-terminal.					cytoplasm					0	Breast(64;0.00769)	Myeloproliferative disorder(644;0.0122)	BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.104)|all cancers(69;0.234)			AGAAGAAATGAAGAAACCCCA	0.348													15	63	---	---	---	---	PASS	G	75275277	G	G	75275277	3	3	155	1	0	0	0	0	1	0	0	0	6307	246	9	5	701	5	GDAP1	8	75275277	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	2312222	75275277	71088745	157	55120										
ZFHX4	79776	broad.mit.edu	37	chr8	77761266	77761266	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agaaggaactaaaagttagtGtggcagggggtacccagcca	14	7	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:77761266G>T	uc003yav.2	+	7	3799	c.3412G>T	c.(3412-3414)GTG>TTG	p.V1138L	ZFHX4_uc003yau.1_Missense_Mutation_p.V1183L|ZFHX4_uc003yaw.1_Missense_Mutation_p.V1138L	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1138						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAAAGTTAGTGTGGCAGGGGG	0.388										HNSCC(33;0.089)			4	10	---	---	---	---	PASS	T	77761266	T	T	77761266	3	4	155	1	0	0	0	0	1	0	0	0	17632	1377	48	3	3569	3	ZFHX4	8	77761266	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	2485989	77761266	68602756	158	55121										
ZFHX4	79776	broad.mit.edu	37	chr8	77765710	77765710	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaaatacgctttttaaggaaCgacagagaaataaagattca	8	5	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:77765710C>A	uc003yav.2	+	10	6805	c.6418C>A	c.(6418-6420)CGA>AGA	p.R2140R	ZFHX4_uc003yau.1_Silent_p.R2185R|ZFHX4_uc003yaw.1_Silent_p.R2140R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2140	Homeobox 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTTTAAGGAACGACAGAGAAA	0.378										HNSCC(33;0.089)			8	107	---	---	---	---	PASS	A	77765710	A	A	77765710	2	1	155	1	0	0	0	0	0	0	0	1	17632	528	19	1		1	ZFHX4	8	77765710	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	4444	77765710	68598312	159	55122										
CNGB3	54714	broad.mit.edu	37	chr8	87679237	87679237	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atgatatcacatatgatgtcCgcaataagccagtagtgtat	8	7	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:87679237C>T	uc003ydx.2	-	6	814	c.768G>A	c.(766-768)GCG>GCA	p.A256A	CNGB3_uc010maj.2_Silent_p.A118A	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	256	Helical; Name=H2; (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						ATATGATGTCCGCAATAAGCC	0.438													7	42	---	---	---	---	PASS	T	87679237	T	T	87679237	2	4	155	1	0	0	0	0	0	0	0	1	3601	639	23	1		1	CNGB3	8	87679237	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	9913527	87679237	58684785	160	55123										
TM7SF4	81501	broad.mit.edu	37	chr8	105361034	105361034	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	acgatgttttattcttcttgTctttctctcttgtggcctgc	7	10	5	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:105361034T>C	uc003ylx.1	+	2	303	c.254T>C	c.(253-255)GTC>GCC	p.V85A		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	85					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			ATTCTTCTTGTCTTTCTCTCT	0.473													12	28	---	---	---	---	PASS	C	105361034	C	C	105361034	3	2	155	1	0	0	0	0	1	0	0	0	15973	1667	58	5	256	5	TM7SF4	8	105361034	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	17681797	105361034	41002988	161	55124										
CSMD3	114788	broad.mit.edu	37	chr8	113246625	113246625	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttgcccaattttcttccttcAttttcttcacagaagcatga	4	11	4	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:113246625A>G	uc003ynu.2	-	68	10868	c.10709T>C	c.(10708-10710)ATG>ACG	p.M3570T	CSMD3_uc003yns.2_Missense_Mutation_p.M2772T|CSMD3_uc003ynt.2_Missense_Mutation_p.M3530T|CSMD3_uc011lhx.1_Missense_Mutation_p.M3401T	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3570	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TTCTTCCTTCATTTTCTTCAC	0.363										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			16	53	---	---	---	---	PASS	G	113246625	G	G	113246625	3	3	155	1	0	0	0	0	1	0	0	0	3946	217	8	5	430	5	CSMD3	8	113246625	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	7885591	113246625	33117397	162	55125										
ADCY8	114	broad.mit.edu	37	chr8	131812807	131812807	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccaacagcatcataggattgAgaatacagctcctggacaga	9	10	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:131812807A>T	uc003ytd.3	-	15	3181	c.2925T>A	c.(2923-2925)TCT>TCA	p.S975S	ADCY8_uc010mds.2_Silent_p.S844S	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	975	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CATAGGATTGAGAATACAGCT	0.502										HNSCC(32;0.087)			12	48	---	---	---	---	PASS	T	131812807	T	T	131812807	2	4	155	1	0	0	0	0	0	0	0	1	300	291	11	5		5	ADCY8	8	131812807	Silent	SNP	A	TCGA-66-2771-01A-01D-0983-08	18566182	131812807	14551215	163	55126										
TG	7038	broad.mit.edu	37	chr8	134042191	134042191	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccctggcagcagaccgtggcGgggctgatgtggccagcatc	16	13	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:134042191G>C	uc003ytw.2	+	41	7203	c.7162G>C	c.(7162-7164)GGG>CGG	p.G2388R	TG_uc010mdw.2_Missense_Mutation_p.G1147R|TG_uc011ljb.1_Missense_Mutation_p.G757R|TG_uc011ljc.1_Missense_Mutation_p.G521R	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2388					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AGACCGTGGCGGGGCTGATGT	0.642													7	9	---	---	---	---	PASS	C	134042191	C	C	134042191	3	2	155	1	0	0	0	0	1	0	0	0	15810	1116	39	4	7324	4	TG	8	134042191	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	2229384	134042191	12321831	164	55127										
CYP11B2	1585	broad.mit.edu	37	chr8	143996220	143996220	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	catgaacatgagctggacggTggatttgaacatgacctcca	11	9	0	4			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:143996220T>G	uc003yxk.1	-	4	703	c.700A>C	c.(700-702)ACC>CCC	p.T234P		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	234					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	AGCTGGACGGTGGATTTGAAC	0.582									Familial_Hyperaldosteronism_type_I				10	10	---	---	---	---	PASS	G	143996220	G	G	143996220	3	3	155	1	0	0	0	0	1	0	0	0	4146	1696	59	5	835	5	CYP11B2	8	143996220	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	9954029	143996220	2367802	165	55128										
OPLAH	26873	broad.mit.edu	37	chr8	145109735	145109735	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cggtgtgataacagtcaggtCtggcaggtggctgcccccgg	16	11	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:145109735C>G	uc003zar.3	-	18	2573	c.2491G>C	c.(2491-2493)GAC>CAC	p.D831H	OPLAH_uc003zas.1_Missense_Mutation_p.D80H	NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	831							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	ACAGTCAGGTCTGGCAGGTGG	0.652													3	12	---	---	---	---	PASS	G	145109735	G	G	145109735	3	3	155	1	0	0	0	0	1	0	0	0	10876	913	32	2	1417	2	OPLAH	8	145109735	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	1113515	145109735	1254287	166	55129										
ZNF251	90987	broad.mit.edu	37	chr8	145947489	145947489	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	caaaggctggaccatgttttCtgcacttacgagtctctccg	9	12	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr8:145947489C>T	uc003zdv.3	-	5	1812	c.1556G>A	c.(1555-1557)AGA>AAA	p.R519K		NM_138367	NP_612376	Q9BRH9	ZN251_HUMAN	zinc finger protein 251	519					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;7.54e-38)|all cancers(56;6.19e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.198)		ACCATGTTTTCTGCACTTACG	0.527													5	93	---	---	---	---	PASS	T	145947489	T	T	145947489	3	4	155	1	0	0	0	0	1	0	0	0	17793	913	32	2	463	2	ZNF251	8	145947489	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	837754	145947489	416533	167	55130										
JAK2	3717	broad.mit.edu	37	chr9	5066761	5066761	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atgcagtcctaaggactttaAtaaatattttttgacttttg	6	5	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr9:5066761A>G	uc010mhm.2	+	9	1411	c.1298A>G	c.(1297-1299)AAT>AGT	p.N433S	JAK2_uc003ziw.2_Missense_Mutation_p.N433S	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	433	SH2; atypical.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		AAGGACTTTAATAAATATTTT	0.328		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				5	9	---	---	---	---	PASS	G	5066761	G	G	5066761	3	3	155	1	0	0	0	0	1	0	0	0	7938	101	4	5	1328	5	JAK2	9	5066761	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08		5066761	136146670	168	55131										
NFIB	4781	broad.mit.edu	37	chr9	14307382	14307382	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ctgagaagctcatctttgacTgctctttcttcatcctttga	6	11	5	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr9:14307382T>A	uc003zle.2	-	2	603	c.168A>T	c.(166-168)GCA>GCT	p.A56A	NFIB_uc003zlf.2_Silent_p.A56A|NFIB_uc011lmo.1_Silent_p.A56A	NM_005596	NP_005587	O00712	NFIB_HUMAN	nuclear factor I/B	56	CTF/NF-I.				anterior commissure morphogenesis|chondrocyte differentiation|Clara cell differentiation|commissural neuron axon guidance|DNA replication|glial cell differentiation|lung ciliated cell differentiation|negative regulation of DNA binding|negative regulation of epithelial cell proliferation involved in lung morphogenesis|negative regulation of mesenchymal cell proliferation involved in lung development|positive regulation of transcription from RNA polymerase II promoter|principal sensory nucleus of trigeminal nerve development|Type I pneumocyte differentiation|Type II pneumocyte differentiation	cerebellar mossy fiber|nucleolus|nucleus	RNA polymerase II transcription corepressor activity|sequence-specific DNA binding RNA polymerase II transcription factor activity				0				GBM - Glioblastoma multiforme(50;4.4e-08)|LUAD - Lung adenocarcinoma(58;0.119)|Lung(218;0.164)		CATCTTTGACTGCTCTTTCTT	0.453			T	MYB|HGMA2	adenoid cystic carcinoma|lipoma								10	28	---	---	---	---	PASS	A	14307382	A	A	14307382	2	1	155	1	0	0	0	0	0	0	0	1	10371	1567	55	5		5	NFIB	9	14307382	Silent	SNP	T	TCGA-66-2771-01A-01D-0983-08	9240621	14307382	126906049	169	55132										
TEK	7010	broad.mit.edu	37	chr9	27206656	27206656	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	caaaaacaacccagatcctaCaatttatccagtgcttgact	4	12	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr9:27206656C>A	uc003zqi.3	+	15	2883	c.2441C>A	c.(2440-2442)ACA>AAA	p.T814K	TEK_uc011lno.1_Missense_Mutation_p.T771K|TEK_uc011lnp.1_Missense_Mutation_p.T666K|TEK_uc003zqj.1_Missense_Mutation_p.T748K	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	814	Cytoplasmic (Potential).				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		CCAGATCCTACAATTTATCCA	0.438													15	11	---	---	---	---	PASS	A	27206656	A	A	27206656	3	1	155	1	0	0	0	0	1	0	0	0	15748	478	17	3	2499	3	TEK	9	27206656	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	12899274	27206656	114006775	170	55133										
PAX5	5079	broad.mit.edu	37	chr9	36846882	36846882	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cctccaggagtcgttgtacgAggaatactgagggtggctgt	15	8	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr9:36846882A>T	uc003zzo.1	-	9	1505	c.1057T>A	c.(1057-1059)TCG>ACG	p.S353T	PAX5_uc011lpt.1_Missense_Mutation_p.S149T|PAX5_uc011lpu.1_RNA|PAX5_uc011lpv.1_Intron|PAX5_uc011lpw.1_Intron|PAX5_uc011lpx.1_Missense_Mutation_p.S253T|PAX5_uc011lpy.1_Intron|PAX5_uc010mls.1_Intron|PAX5_uc011lpz.1_Missense_Mutation_p.S310T|PAX5_uc011lqa.1_Missense_Mutation_p.S245T|PAX5_uc010mlq.1_RNA|PAX5_uc011lqb.1_RNA|PAX5_uc010mlo.1_Missense_Mutation_p.S319T|PAX5_uc010mlp.1_Intron|PAX5_uc011lqc.1_Intron|PAX5_uc010mlr.1_Silent_p.P275P	NM_016734	NP_057953	Q02548	PAX5_HUMAN	paired box 5	353					cell differentiation|humoral immune response|nervous system development|organ morphogenesis|spermatogenesis|transcription from RNA polymerase II promoter	nucleus	DNA binding	p.?(11)	PAX5/JAK2(18)	haematopoietic_and_lymphoid_tissue(142)|lung(3)|central_nervous_system(2)	147		all_cancers(2;3.46e-10)|Acute lymphoblastic leukemia(2;7.09e-56)|all_hematologic(2;6.65e-44)		GBM - Glioblastoma multiforme(29;0.0108)		TCGTTGTACGAGGAATACTGA	0.592			T|Mis|D|F|S	IGH@|ETV6|PML|FOXP1|ZNF521|ELN	NHL|ALL|B-ALL								10	19	---	---	---	---	PASS	T	36846882	T	T	36846882	3	4	155	1	0	0	0	0	1	0	0	0	11482	304	11	5	126	5	PAX5	9	36846882	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	9640226	36846882	104366549	171	55134										
FOXB2	442425	broad.mit.edu	37	chr9	79635629	79635629	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccggtcaagtccctgtgccaCtcggcaagccagagcctgcc	11	17	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr9:79635629C>T	uc004ako.1	+	1	1059	c.1059C>T	c.(1057-1059)CAC>CAT	p.H353H		NM_001013735	NP_001013757	Q5VYV0	FOXB2_HUMAN	forkhead box B2	353					brain development|embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0						CCCTGTGCCACTCGGCAAGCC	0.602													3	3	---	---	---	---	PASS	T	79635629	T	T	79635629	2	4	155	1	0	0	0	0	0	0	0	1	5993	564	20	3		3	FOXB2	9	79635629	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	42788747	79635629	61577802	172	55135										
NCBP1	4686	broad.mit.edu	37	chr9	100433431	100433431	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttctcttcactgctgaattaGaccctcatatcttggccgtg	7	12	4	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr9:100433431G>C	uc004axq.2	+	23	2782	c.2323G>C	c.(2323-2325)GAC>CAC	p.D775H		NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa	775					gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)				TGCTGAATTAGACCCTCATAT	0.438													13	50	---	---	---	---	PASS	C	100433431	C	C	100433431	3	2	155	1	0	0	0	0	1	0	0	0	10211	942	33	2	2413	2	NCBP1	9	100433431	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	20797802	100433431	40780000	173	55136										
TMEFF1	8577	broad.mit.edu	37	chr9	103261052	103261052	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttttttcttttgcagaattaAatgtgagggagtctgacgta	10	4	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr9:103261052A>G	uc004baz.1	+	2	312	c.202A>G	c.(202-204)AAT>GAT	p.N68D	TMEFF1_uc004bay.1_Missense_Mutation_p.N142D	NM_003692	NP_003683	Q8IYR6	TEFF1_HUMAN	transmembrane protein with EGF-like and two	68	Extracellular (Potential).				multicellular organismal development	integral to membrane|plasma membrane					0		Acute lymphoblastic leukemia(62;0.0452)				TGCAGAATTAAATGTGAGGGA	0.269													3	41	---	---	---	---	PASS	G	103261052	G	G	103261052	3	3	155	1	0	0	0	0	1	0	0	0	16010	14	1	5	208	5	TMEFF1	9	103261052	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	2827621	103261052	37952379	174	55137										
OR13C9	286362	broad.mit.edu	37	chr9	107380010	107380010	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	attgtactacaaatgtagttTgtactgcagagttgacaatc	8	6	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr9:107380010T>C	uc011lvr.1	-	1	476	c.476A>G	c.(475-477)CAA>CGA	p.Q159R		NM_001001956	NP_001001956	Q8NGT0	O13C9_HUMAN	olfactory receptor, family 13, subfamily C,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AAATGTAGTTTGTACTGCAGA	0.438													22	47	---	---	---	---	PASS	C	107380010	C	C	107380010	3	2	155	1	0	0	0	0	1	0	0	0	10939	1812	63	5	483	5	OR13C9	9	107380010	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	4118958	107380010	33833421	175	55138										
CUBN	8029	broad.mit.edu	37	chr10	16893354	16893354	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atccatacacagtttaaattCttgtcatacattccattcga	3	10	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr10:16893354C>A	uc001ioo.2	-	60	9595	c.9543G>T	c.(9541-9543)AAG>AAT	p.K3181N	CUBN_uc009xjq.1_RNA	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3181	CUB 24.				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)	AGTTTAAATTCTTGTCATACA	0.408													21	22	---	---	---	---	PASS	A	16893354	A	A	16893354	3	1	155	1	0	0	0	0	1	0	0	0	4051	912	32	2	1360	2	CUBN	10	16893354	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08		16893354	118641393	176	55139										
ST8SIA6	338596	broad.mit.edu	37	chr10	17363099	17363099	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	actgcaacacttgtgatcatCaagccggtggacaagcggta	11	10	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr10:17363099C>T	uc001ipd.2	-	8	975	c.975G>A	c.(973-975)TTG>TTA	p.L325L	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	325	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						TTGTGATCATCAAGCCGGTGG	0.443													47	71	---	---	---	---	PASS	T	17363099	T	T	17363099	2	4	155	1	0	0	0	0	0	0	0	1	15235	825	29	2		2	ST8SIA6	10	17363099	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	469745	17363099	118171648	177	55140										
MTPAP	55149	broad.mit.edu	37	chr10	30602551	30602551	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gcagccatcatgtctgagtaCtaattgttctcttcccactg	7	12	3	1	rs148562969	by1000genomes	TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr10:30602551C>G	uc001iva.3	-	9	1799	c.1736G>C	c.(1735-1737)AGT>ACT	p.S579T	MTPAP_uc001ivb.3_Missense_Mutation_p.S709T	NM_018109	NP_060579	Q9NVV4	PAPD1_HUMAN	PAP associated domain containing 1 precursor	579					cell death|histone mRNA catabolic process|mRNA polyadenylation|transcription, DNA-dependent	mitochondrion	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|protein homodimerization activity|RNA binding|UTP binding			ovary(1)	1						TGTCTGAGTACTAATTGTTCT	0.358													35	61	---	---	---	---	PASS	G	30602551	G	G	30602551	3	3	155	1	0	0	0	0	1	0	0	0	9956	565	20	4	16	4	MTPAP	10	30602551	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	13239452	30602551	104932196	178	55141										
ZNF33A	7581	broad.mit.edu	37	chr10	38344864	38344864	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aaacataatagaacacatacAggggagaaaccctatgaatg	8	7	0	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr10:38344864A>T	uc001izh.2	+	5	1987	c.1809A>T	c.(1807-1809)ACA>ACT	p.T603T	ZNF33A_uc001izg.2_Silent_p.T604T|ZNF33A_uc010qev.1_Silent_p.T610T|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	603						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						GAACACATACAGGGGAGAAAC	0.373													14	25	---	---	---	---	PASS	T	38344864	T	T	38344864	2	4	155	1	0	0	0	0	0	0	0	1	17851	175	7	5		5	ZNF33A	10	38344864	Silent	SNP	A	TCGA-66-2771-01A-01D-0983-08	7742313	38344864	97189883	179	55142										
SLC18A3	6572	broad.mit.edu	37	chr10	50819812	50819812	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gtgcctcatgtgctgggcgtCtacctcaccgtgcgcctggc	13	15	3	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr10:50819812C>G	uc001jhw.2	+	1	1466	c.1026C>G	c.(1024-1026)GTC>GTG	p.V342V	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	342	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						TGCTGGGCGTCTACCTCACCG	0.672													16	30	---	---	---	---	PASS	G	50819812	G	G	50819812	2	3	155	1	0	0	0	0	0	0	0	1	14427	900	32	2		2	SLC18A3	10	50819812	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	12474948	50819812	84714935	180	55143										
SORCS3	22986	broad.mit.edu	37	chr10	106983002	106983002	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tctggtggttcggcaatagcAcaaaggtttggccctttctg	12	9	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr10:106983002A>G	uc001kyi.1	+	20	3090	c.2863A>G	c.(2863-2865)ACA>GCA	p.T955A	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	955	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		CGGCAATAGCACAAAGGTTTG	0.453													41	77	---	---	---	---	PASS	G	106983002	G	G	106983002	3	3	155	1	0	0	0	0	1	0	0	0	14932	159	6	5	2941	5	SORCS3	10	106983002	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	56163190	106983002	28551745	181	55144										
HSPA12A	259217	broad.mit.edu	37	chr10	118451864	118451864	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccctgactctaccctcacctGgtaggcagcttgtctcatga	8	15	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr10:118451864G>T	uc001lct.2	-	6	766	c.661C>A	c.(661-663)CAG>AAG	p.Q221K	HSPA12A_uc001lcu.2_Missense_Mutation_p.Q138K	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	221							ATP binding			ovary(1)	1				all cancers(201;0.0158)		ACCCTCACCTGGTAGGCAGCT	0.597													5	122	---	---	---	---	PASS	T	118451864	T	T	118451864	3	4	155	1	0	0	0	0	1	0	0	0	7404	1357	47	3	1394	3	HSPA12A	10	118451864	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	11468862	118451864	17082883	182	55145										
PRLHR	2834	broad.mit.edu	37	chr10	120354611	120354611	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccagctgcaggctctggaagGgcgtgacggctggagcgtcc	17	12	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr10:120354611G>T	uc001ldp.1	-	2	285	c.146C>A	c.(145-147)CCC>CAC	p.P49H		NM_004248	NP_004239	P49683	PRLHR_HUMAN	G protein-coupled receptor 10	49	Extracellular (Potential).				female pregnancy	integral to plasma membrane	neuropeptide Y receptor activity				0		Colorectal(252;0.0429)|Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0166)		GCTCTGGAAGGGCGTGACGGC	0.697													4	15	---	---	---	---	PASS	T	120354611	T	T	120354611	3	4	155	1	0	0	0	0	1	0	0	0	12530	1232	43	3	970	3	PRLHR	10	120354611	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	1902747	120354611	15180136	183	55146										
C10orf90	118611	broad.mit.edu	37	chr10	128153547	128153547	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gctgcttccagaaaatacttTtgtgtgtactaaaaataaaa	6	6	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr10:128153547T>C	uc001ljq.2	-	4	1373	c.1252A>G	c.(1252-1254)AAA>GAA	p.K418E	C10orf90_uc001ljp.2_Intron|C10orf90_uc010qum.1_Missense_Mutation_p.K515E|C10orf90_uc009yao.2_3'UTR|C10orf90_uc001ljo.2_5'Flank	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	418										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		GAAAATACTTTTGTGTGTACT	0.423													15	21	---	---	---	---	PASS	C	128153547	C	C	128153547	3	2	155	1	0	0	0	0	1	0	0	0	1623	1850	64	5	871	5	C10orf90	10	128153547	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	7798936	128153547	7381200	184	55147										
OR52A4	390053	broad.mit.edu	37	chr11	5142713	5142713	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tacgtagcacagaatggaatCccaatccagcattgtacaga	8	10	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:5142713C>T	uc001lzz.1	-	1	96	c.96G>A	c.(94-96)GGG>GGA	p.G32G	OR52A4_uc001maa.2_RNA	NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		AGAATGGAATCCCAATCCAGC	0.423													6	145	---	---	---	---	PASS	T	5142713	T	T	5142713	2	4	155	1	0	0	0	0	0	0	0	1	11109	842	30	2		2	OR52A4	11	5142713	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08		5142713	129863803	185	55148										
ZNF214	7761	broad.mit.edu	37	chr11	7021527	7021527	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gggtttctcccctgtatggaCtctctgatgaatgcgaagat	11	9	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:7021527C>A	uc001mfa.2	-	3	1690	c.1387G>T	c.(1387-1389)GTC>TTC	p.V463F	ZNF214_uc010ray.1_Missense_Mutation_p.V463F|ZNF214_uc009yfh.1_Missense_Mutation_p.V463F	NM_013249	NP_037381	Q9UL59	ZN214_HUMAN	zinc finger protein 214	463	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				Epithelial(150;3.87e-08)|BRCA - Breast invasive adenocarcinoma(625;0.081)		CCTGTATGGACTCTCTGATGA	0.423													12	43	---	---	---	---	PASS	A	7021527	A	A	7021527	3	1	155	1	0	0	0	0	1	0	0	0	17767	565	20	3	437	3	ZNF214	11	7021527	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	1878814	7021527	127984989	186	55149										
RIC3	79608	broad.mit.edu	37	chr11	8132433	8132433	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agcaggatcctcgtcttcatGaaaacagcaggaacatgttt	9	9	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:8132433G>A	uc001mgd.2	-	6	976	c.922C>T	c.(922-924)CAT>TAT	p.H308Y	RIC3_uc001mgb.2_Missense_Mutation_p.H146Y|RIC3_uc001mgc.2_Missense_Mutation_p.H307Y|RIC3_uc001mge.2_Missense_Mutation_p.H126Y|RIC3_uc010rbl.1_Missense_Mutation_p.H258Y|RIC3_uc010rbm.1_Missense_Mutation_p.H336Y|RIC3_uc009yfm.2_Missense_Mutation_p.H227Y|RIC3_uc009yfn.2_Missense_Mutation_p.H111Y	NM_024557	NP_078833	Q7Z5B4	RIC3_HUMAN	resistance to inhibitors of cholinesterase 3	308	Cytoplasmic (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				large_intestine(1)|ovary(1)|pancreas(1)	3				Epithelial(150;2.89e-07)|BRCA - Breast invasive adenocarcinoma(625;0.204)		TCGTCTTCATGAAAACAGCAG	0.493													5	68	---	---	---	---	PASS	A	8132433	A	A	8132433	3	1	155	1	0	0	0	0	1	0	0	0	13354	1290	45	2	191	2	RIC3	11	8132433	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	1110906	8132433	126874083	187	55150										
INSC	387755	broad.mit.edu	37	chr11	15243165	15243165	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cctcagtagcttcctggagaGcatggaggagatcgtgacag	14	9	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:15243165G>A	uc001mly.2	+	8	1149	c.1103G>A	c.(1102-1104)AGC>AAC	p.S368N	INSC_uc001mlz.2_Missense_Mutation_p.S321N|INSC_uc001mma.2_Missense_Mutation_p.S321N|INSC_uc010rcs.1_Missense_Mutation_p.S356N|INSC_uc001mmb.2_Missense_Mutation_p.S321N|INSC_uc001mmc.2_Missense_Mutation_p.S279N	NM_001031853	NP_001027024	Q1MX18	INSC_HUMAN	inscuteable isoform a	368					cell differentiation|nervous system development	cytoplasm	binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)	5						TTCCTGGAGAGCATGGAGGAG	0.632													6	21	---	---	---	---	PASS	A	15243165	A	A	15243165	3	1	155	1	0	0	0	0	1	0	0	0	7764	971	34	3	1133	3	INSC	11	15243165	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	7110732	15243165	119763351	188	55151										
OR4X2	119764	broad.mit.edu	37	chr11	48266676	48266676	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atgactgaattcatttttctGgtactttctcccaaccagga	6	10	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:48266676G>T	uc001ngs.1	+	1	21	c.21G>T	c.(19-21)CTG>CTT	p.L7L		NM_001004727	NP_001004727	Q8NGF9	OR4X2_HUMAN	olfactory receptor, family 4, subfamily X,	7	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCATTTTTCTGGTACTTTCTC	0.418													5	68	---	---	---	---	PASS	T	48266676	T	T	48266676	2	4	155	1	0	0	0	0	0	0	0	1	11085	1335	47	3		3	OR4X2	11	48266676	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	33023511	48266676	86739840	189	55152										
APLNR	187	broad.mit.edu	37	chr11	57004291	57004291	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tagcaatgaagatatcagctGagcgcctcttctcccggctg	10	12	3	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:57004291G>A	uc001njo.2	-	1	637	c.188C>T	c.(187-189)TCA>TTA	p.S63L	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	63	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						GATATCAGCTGAGCGCCTCTT	0.612													10	38	---	---	---	---	PASS	A	57004291	A	A	57004291	3	1	155	1	0	0	0	0	1	0	0	0	777	1294	45	2	958	2	APLNR	11	57004291	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	8737615	57004291	78002225	190	55153										
CCDC86	79080	broad.mit.edu	37	chr11	60609992	60609992	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aaagtgttctcaggaccaggGagtactggcctcggagttgg	15	8	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:60609992G>A	uc001nqa.2	+	1	564	c.395G>A	c.(394-396)GGA>GAA	p.G132E	CCDC86_uc001nqb.2_Intron	NM_024098	NP_077003	Q9H6F5	CCD86_HUMAN	coiled-coil domain containing 86	132	Pro-rich.				interspecies interaction between organisms	nucleus					0						CAGGACCAGGGAGTACTGGCC	0.617													13	58	---	---	---	---	PASS	A	60609992	A	A	60609992	3	1	155	1	0	0	0	0	1	0	0	0	2861	1174	41	2	397	2	CCDC86	11	60609992	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	3605701	60609992	74396524	191	55154										
DDB1	1642	broad.mit.edu	37	chr11	61070589	61070589	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttgtcatcatccaagatttcCacagcactcatccagttggg	7	12	3	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:61070589C>A	uc001nrc.3	-	23	3097	c.2871G>T	c.(2869-2871)GTG>GTT	p.V957V	DDB1_uc010rle.1_Silent_p.V268V|DDB1_uc010rlf.1_Silent_p.V957V	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	957	Interaction with CDT1 and CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						CCAAGATTTCCACAGCACTCA	0.438								NER					6	106	---	---	---	---	PASS	A	61070589	A	A	61070589	2	1	155	1	0	0	0	0	0	0	0	1	4323	581	21	3		3	DDB1	11	61070589	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	460597	61070589	73935927	192	55155										
LRP5	4041	broad.mit.edu	37	chr11	68191058	68191058	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	acactgttctggacgtgcgaGgccaccaataccatcaacgt	9	13	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:68191058G>A	uc001ont.2	+	14	3204	c.3129G>A	c.(3127-3129)GAG>GAA	p.E1043E	LRP5_uc009ysg.2_Silent_p.E453E	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1043	LDL-receptor class B 17.|Beta-propeller 4.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						GGACGTGCGAGGCCACCAATA	0.622													9	37	---	---	---	---	PASS	A	68191058	A	A	68191058	2	1	155	1	0	0	0	0	0	0	0	1	8960	991	35	3		3	LRP5	11	68191058	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	7120469	68191058	66815458	193	55156										
NUMA1	4926	broad.mit.edu	37	chr11	71740319	71740319	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	acagcctccacagggtcagcCacgtgtagactgttcacctg	10	14	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:71740319C>A	uc001orl.1	-	4	232	c.60G>T	c.(58-60)GTG>GTT	p.V20V	NUMA1_uc001ork.1_Silent_p.V20V|NUMA1_uc001orm.1_Silent_p.V20V|NUMA1_uc009ysx.1_Silent_p.V20V|NUMA1_uc001oro.1_Silent_p.V20V|NUMA1_uc009ysy.1_Silent_p.V20V|NUMA1_uc001orp.2_Silent_p.V20V|NUMA1_uc001orq.2_Silent_p.V20V	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	20					G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						CAGGGTCAGCCACGTGTAGAC	0.498			T	RARA	APL								3	14	---	---	---	---	PASS	A	71740319	A	A	71740319	2	1	155	1	0	0	0	0	0	0	0	1	10750	581	21	3		3	NUMA1	11	71740319	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	3549261	71740319	63266197	194	55157										
ELMOD1	55531	broad.mit.edu	37	chr11	107524922	107524922	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttcagcaaagcagaatgggaGaagaaaaggatggataaggc	14	4	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:107524922G>T	uc010rvs.1	+	10	1076	c.672G>T	c.(670-672)GAG>GAT	p.E224D	ELMOD1_uc001pjm.2_Missense_Mutation_p.E216D|ELMOD1_uc010rvt.1_Missense_Mutation_p.E218D	NM_018712	NP_061182	Q8N336	ELMD1_HUMAN	ELMO/CED-12 domain containing 1 isoform 1	224	ELMO.				phagocytosis	cytoskeleton	GTPase activator activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00304)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Epithelial(105;0.00027)|all cancers(92;0.00481)		CAGAATGGGAGAAGAAAAGGA	0.373													4	23	---	---	---	---	PASS	T	107524922	T	T	107524922	3	4	155	1	0	0	0	0	1	0	0	0	5068	933	33	2	706	2	ELMOD1	11	107524922	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	35784603	107524922	27481594	195	55158										
FAM55A	120400	broad.mit.edu	37	chr11	114393009	114393009	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgtcaatgggaaatggtctaAagtgctggccaaaggtgatg	14	5	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:114393009A>C	uc001ppa.2	-	6	1316	c.899T>G	c.(898-900)TTT>TGT	p.F300C	FAM55A_uc010rxd.1_Missense_Mutation_p.F149C	NM_152315	NP_689528	Q8N323	FA55A_HUMAN	hypothetical protein LOC120400	442						extracellular region					0		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;3.02e-06)|Epithelial(105;0.000144)|all cancers(92;0.00106)		AAATGGTCTAAAGTGCTGGCC	0.438													13	44	---	---	---	---	PASS	C	114393009	C	C	114393009	3	2	155	1	0	0	0	0	1	0	0	0	5584	14	1	5	322	5	FAM55A	11	114393009	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	6868087	114393009	20613507	196	55159										
TECTA	7007	broad.mit.edu	37	chr11	121028813	121028813	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgccagaaactgcccgacatCtccttccagcttatcatcaa	5	15	3	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:121028813C>T	uc010rzo.1	+	13	4569	c.4569C>T	c.(4567-4569)ATC>ATT	p.I1523I		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1523	VWFD 4.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TGCCCGACATCTCCTTCCAGC	0.577													12	38	---	---	---	---	PASS	T	121028813	T	T	121028813	2	4	155	1	0	0	0	0	0	0	0	1	15744	903	32	2		2	TECTA	11	121028813	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	6635804	121028813	13977703	197	55160										
OR8A1	390275	broad.mit.edu	37	chr11	124440189	124440189	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aactctcagctgcacaccccCatgtactactttctcagcaa	4	16	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr11:124440189C>G	uc010san.1	+	1	225	c.225C>G	c.(223-225)CCC>CCG	p.P75P		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	75	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		TGCACACCCCCATGTACTACT	0.488													9	68	---	---	---	---	PASS	G	124440189	G	G	124440189	2	3	155	1	0	0	0	0	0	0	0	1	11225	581	21	4		4	OR8A1	11	124440189	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	3411376	124440189	10566327	198	55161										
AKAP3	10566	broad.mit.edu	37	chr12	4736450	4736450	+	Missense_Mutation	SNP	C	A	A													0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atcccttcttcctccctgggCcaggtgatattgaatcagaa							TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:4736450C>A	uc001qnb.3	-	4	1847	c.1618G>T	c.(1618-1620)GCC>TCC	p.A540S		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	540					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						CCTCCCTGGGCCAGGTGATAT	0.517													6	26	---	---	---	---	PASS	A	4736450	A	A	4736450	3	1	155	1	0	0	0	0	1	0	0	0	452	739	26	3	951	3	AKAP3	12	4736450	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08		4736450	129115445	199	55162	990	2								
AKAP3	10566	broad.mit.edu	37	chr12	4736451	4736451	+	Silent	SNP	C	A	A													0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcccttcttcctccctgggcCaggtgatattgaatcagaag							TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:4736451C>A	uc001qnb.3	-	4	1846	c.1617G>T	c.(1615-1617)CTG>CTT	p.L539L		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	539					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						CTCCCTGGGCCAGGTGATATT	0.522													6	26	---	---	---	---	PASS	A	4736451	A	A	4736451	2	1	155	1	0	0	0	0	0	0	0	1	452	581	21	3		3	AKAP3	12	4736451	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	1	4736451	129115444	200	55163	990	2								
GNB3	2784	broad.mit.edu	37	chr12	6952169	6952169	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaggtggtgggacgagtccaGatgcggacgcggcggacgtt	20	8	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:6952169G>A	uc001qrd.2	+	5	537	c.132G>A	c.(130-132)CAG>CAA	p.Q44Q	GNB3_uc001qrc.2_5'UTR|GNB3_uc009zfe.2_Silent_p.Q44Q	NM_002075	NP_002066	P16520	GBB3_HUMAN	guanine nucleotide-binding protein, beta-3	44					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of blood pressure|synaptic transmission	plasma membrane	GTPase activity|GTPase binding|signal transducer activity				0						GACGAGTCCAGATGCGGACGC	0.597													7	24	---	---	---	---	PASS	A	6952169	A	A	6952169	2	1	155	1	0	0	0	0	0	0	0	1	6519	933	33	2		2	GNB3	12	6952169	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	2215718	6952169	126899726	201	55164										
C1R	715	broad.mit.edu	37	chr12	7187907	7187907	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tttggtgtagaagccatagcCcctgctgcacccgatgcccc	10	15	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:7187907C>A	uc010sfy.1	-	10	2106	c.2047G>T	c.(2047-2049)GGC>TGC	p.G683C		NM_001733	NP_001724	P00736	C1R_HUMAN	complement component 1, r subcomponent	683	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity				0					Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	AAGCCATAGCCCCTGCTGCAC	0.572													6	41	---	---	---	---	PASS	A	7187907	A	A	7187907	3	1	155	1	0	0	0	0	1	0	0	0	1972	623	22	3	74	3	C1R	12	7187907	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	235738	7187907	126663988	202	55165										
CD163L1	283316	broad.mit.edu	37	chr12	7528090	7528090	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aacacgggcatcttctgggtCccagtgggtgtcacacagtg	13	11	3	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:7528090C>A	uc001qsy.2	-	11	2814	c.2788G>T	c.(2788-2790)GAC>TAC	p.D930Y	CD163L1_uc010sge.1_Missense_Mutation_p.D940Y	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	930	SRCR 9.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						TCTTCTGGGTCCCAGTGGGTG	0.512													6	24	---	---	---	---	PASS	A	7528090	A	A	7528090	3	1	155	1	0	0	0	0	1	0	0	0	2968	855	30	2	1609	2	CD163L1	12	7528090	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	340183	7528090	126323805	203	55166										
A2M	2	broad.mit.edu	37	chr12	9243921	9243921	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aggctcggagagaggcagtgGaagagataccaagtccagca	15	8	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:9243921G>C	uc001qvk.1	-	19	2458	c.2345C>G	c.(2344-2346)TCC>TGC	p.S782C	A2M_uc009zgk.1_Missense_Mutation_p.S632C	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	782					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	AGAGGCAGTGGAAGAGATACC	0.562													21	99	---	---	---	---	PASS	C	9243921	C	C	9243921	3	2	155	1	0	0	0	0	1	0	0	0	4	1174	41	2	2151	2	A2M	12	9243921	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	1715831	9243921	124607974	204	55167										
RAPGEF3	10411	broad.mit.edu	37	chr12	48142237	48142237	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agggtgtctcttgcccttacCtgttgggtcatgagcactgg	13	10	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:48142237C>A	uc009zkp.2	-	11	1557	c.1117G>T	c.(1117-1119)GAG>TAG	p.E373*	RAPGEF3_uc010sln.1_5'Flank|RAPGEF3_uc001rpy.2_5'Flank|RAPGEF3_uc009zkq.2_Nonsense_Mutation_p.E373*|RAPGEF3_uc001rpz.3_Nonsense_Mutation_p.E415*|RAPGEF3_uc001rqa.2_5'Flank|RAPGEF3_uc009zkr.2_RNA|RAPGEF3_uc009zks.2_Nonsense_Mutation_p.E427*	NM_001098532	NP_001092002	A8K2G5	A8K2G5_HUMAN	Rap guanine nucleotide exchange factor 3 isoform	373					regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex	cAMP-dependent protein kinase regulator activity|guanyl-nucleotide exchange factor activity			lung(2)|skin(1)|pancreas(1)	4	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.0375)		TTGCCCTTACCTGTTGGGTCA	0.532													4	31	---	---	---	---	PASS	A	48142237	A	A	48142237	4	1	155	1	0	0	0	0	0	1	0	0	13045	695	24	3	1596	3	RAPGEF3	12	48142237	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	38898316	48142237	85709658	205	55168										
KRT2	3849	broad.mit.edu	37	chr12	53038841	53038841	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cacgctggaaccaaaagcttCacctgagctaccctttacag	7	14	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:53038841C>G	uc001sat.2	-	9	1915	c.1882G>C	c.(1882-1884)GAA>CAA	p.E628Q		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	628	Tail.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		CCAAAAGCTTCACCTGAGCTA	0.537													6	88	---	---	---	---	PASS	G	53038841	G	G	53038841	3	3	155	1	0	0	0	0	1	0	0	0	8457	835	29	2	41	2	KRT2	12	53038841	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	4896604	53038841	80813054	206	55169										
LRP1	4035	broad.mit.edu	37	chr12	57594585	57594585	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gactgccaggacaacagtgaCgaggccaactgtggtaaggc	14	10	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:57594585C>T	uc001snd.2	+	64	10678	c.10212C>T	c.(10210-10212)GAC>GAT	p.D3404D		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3404	Extracellular (Potential).|LDL-receptor class A 22.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	ACAACAGTGACGAGGCCAACT	0.597													5	53	---	---	---	---	PASS	T	57594585	T	T	57594585	2	4	155	1	0	0	0	0	0	0	0	1	8951	535	19	1		1	LRP1	12	57594585	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	4555744	57594585	76257310	207	55170										
MON2	23041	broad.mit.edu	37	chr12	62887715	62887715	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cactgaaagagaacagctcaGaggttgtacagcctttttta	9	8	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:62887715G>T	uc001sre.2	+	3	587	c.196G>T	c.(196-198)GAG>TAG	p.E66*	MON2_uc009zqj.2_Nonsense_Mutation_p.E66*|MON2_uc010ssl.1_5'UTR|MON2_uc010ssm.1_Nonsense_Mutation_p.E66*|MON2_uc010ssn.1_Nonsense_Mutation_p.E66*|MON2_uc001srd.1_Intron	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	66					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		GAACAGCTCAGAGGTTGTACA	0.328													3	11	---	---	---	---	PASS	T	62887715	T	T	62887715	4	4	155	1	0	0	0	0	0	1	0	0	9700	943	33	2	206	2	MON2	12	62887715	Nonsense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	5293130	62887715	70964180	208	55171										
UTP20	27340	broad.mit.edu	37	chr12	101680199	101680199	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcctggagactcaggacacaGagttgttagaatgggctttc	12	8	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:101680199G>C	uc001tia.1	+	5	583	c.427G>C	c.(427-429)GAG>CAG	p.E143Q	UTP20_uc009ztz.1_Missense_Mutation_p.E143Q	NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	143					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TCAGGACACAGAGTTGTTAGA	0.433													6	113	---	---	---	---	PASS	C	101680199	C	C	101680199	3	2	155	1	0	0	0	0	1	0	0	0	17096	943	33	2	445	2	UTP20	12	101680199	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	38792484	101680199	32171696	209	55172										
IGF1	3479	broad.mit.edu	37	chr12	102811758	102811758	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cttctctgagacttcgtgttCttgttggtagatgggggctg	14	7	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:102811758C>G	uc001tjp.3	-	4	645	c.426G>C	c.(424-426)AAG>AAC	p.K142N	IGF1_uc001tjn.2_Intron|IGF1_uc001tjm.2_Missense_Mutation_p.K142N|IGF1_uc001tjo.2_Intron	NM_001111285	NP_001104755	P05019	IGF1_HUMAN	insulin-like growth factor 1 isoform 3	142					anti-apoptosis|bone mineralization involved in bone maturation|cellular component movement|DNA replication|glycolate metabolic process|muscle hypertrophy|myoblast differentiation|myoblast proliferation|myotube cell development|negative regulation of smooth muscle cell apoptosis|phosphatidylinositol-mediated signaling|platelet activation|platelet degranulation|positive regulation of activated T cell proliferation|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis|positive regulation of osteoblast differentiation|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of Ras protein signal transduction|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tyrosine phosphorylation of Stat5 protein|Ras protein signal transduction|regulation of multicellular organism growth|satellite cell maintenance involved in skeletal muscle regeneration	platelet alpha granule lumen	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|integrin binding			central_nervous_system(1)|pancreas(1)	2						ACTTCGTGTTCTTGTTGGTAG	0.468													10	115	---	---	---	---	PASS	G	102811758	G	G	102811758	3	3	155	1	0	0	0	0	1	0	0	0	7570	912	32	2	229	2	IGF1	12	102811758	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	1131559	102811758	31040137	210	55173										
RPH3A	22895	broad.mit.edu	37	chr12	113307828	113307828	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agtgggggtgctggagactcCagccggagcccagcaggtga	18	10	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:113307828C>T	uc010syl.1	+	10	1142	c.780C>T	c.(778-780)TCC>TCT	p.S260S	RPH3A_uc001ttz.2_Silent_p.S260S|RPH3A_uc001tty.2_Silent_p.S256S|RPH3A_uc009zwe.1_Silent_p.S256S|RPH3A_uc010sym.1_Silent_p.S211S|RPH3A_uc001tua.2_Silent_p.S20S	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	260	Pro-rich.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		CTGGAGACTCCAGCCGGAGCC	0.542													4	16	---	---	---	---	PASS	T	113307828	T	T	113307828	2	4	155	1	0	0	0	0	0	0	0	1	13551	581	21	3		3	RPH3A	12	113307828	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	10496070	113307828	20544067	211	55174										
NOS1	4842	broad.mit.edu	37	chr12	117669887	117669887	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tagtacttgaaggcctggaaGatggtgcagggcgggaggcg	19	6	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:117669887G>A	uc001twm.1	-	22	3971	c.3285C>T	c.(3283-3285)ATC>ATT	p.I1095I		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1095	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	AGGCCTGGAAGATGGTGCAGG	0.597													5	20	---	---	---	---	PASS	A	117669887	A	A	117669887	2	1	155	1	0	0	0	0	0	0	0	1	10541	932	33	2		2	NOS1	12	117669887	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	4362059	117669887	16182008	212	55175										
B3GNT4	79369	broad.mit.edu	37	chr12	122691663	122691663	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcatgtccagagccacagtgCggcgcctccaggctatcatg	11	14	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:122691663C>T	uc001ubx.2	+	3	1083	c.865C>T	c.(865-867)CGG>TGG	p.R289W	B3GNT4_uc001uby.2_Missense_Mutation_p.R264W	NM_030765	NP_110392	Q9C0J1	B3GN4_HUMAN	UDP-GlcNAc:betaGal	289	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000297)|Epithelial(86;0.000497)|BRCA - Breast invasive adenocarcinoma(302;0.222)		AGCCACAGTGCGGCGCCTCCA	0.557													8	35	---	---	---	---	PASS	T	122691663	T	T	122691663	3	4	155	1	0	0	0	0	1	0	0	0	1259	759	27	1	871	1	B3GNT4	12	122691663	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	5021776	122691663	11160232	213	55176										
ATP6V0A2	23545	broad.mit.edu	37	chr12	124220151	124220151	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tccaggaggggctgaacaccCgcatccaggatctctacact	10	14	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:124220151C>G	uc001ufr.2	+	8	1053	c.805C>G	c.(805-807)CGC>GGC	p.R269G	ATP6V0A2_uc001ufq.1_Missense_Mutation_p.R269G	NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	269	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		GCTGAACACCCGCATCCAGGA	0.493													5	12	---	---	---	---	PASS	G	124220151	G	G	124220151	3	3	155	1	0	0	0	0	1	0	0	0	1169	652	23	4	835	4	ATP6V0A2	12	124220151	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	1528488	124220151	9631744	214	55177										
ANKLE2	23141	broad.mit.edu	37	chr12	133312095	133312095	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccagagcttgcgaaaatcttCtgcctatgaagaaaaaaaaa	7	8	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr12:133312095C>T	uc001ukx.2	-	9	1664	c.1597G>A	c.(1597-1599)GAA>AAA	p.E533K	ANKLE2_uc009zyw.1_5'Flank|ANKLE2_uc001uky.3_Missense_Mutation_p.E471K	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	533						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		CGAAAATCTTCTGCCTATGAA	0.527													11	39	---	---	---	---	PASS	T	133312095	T	T	133312095	3	4	155	1	0	0	0	0	1	0	0	0	633	922	32	2	1239	2	ANKLE2	12	133312095	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	9091944	133312095	539800	215	55178										
COL4A2	1284	broad.mit.edu	37	chr13	111134895	111134895	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cacctgggatggatggtttcCaaggcatgcctggactcaaa	12	10	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr13:111134895C>A	uc001vqx.2	+	32	3080	c.2791C>A	c.(2791-2793)CAA>AAA	p.Q931K		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	931	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GGATGGTTTCCAAGGCATGCC	0.522													5	140	---	---	---	---	PASS	A	111134895	A	A	111134895	3	1	155	1	0	0	0	0	1	0	0	0	3690	595	21	3	2913	3	COL4A2	13	111134895	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08		111134895	4034983	216	55179										
OR4Q3	441669	broad.mit.edu	37	chr14	20216239	20216239	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cttcttggtcttactattctCttatgctatcatcctgatca	4	11	5	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:20216239C>T	uc010tkt.1	+	1	653	c.653C>T	c.(652-654)TCT>TTT	p.S218F		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	218	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TTACTATTCTCTTATGCTATC	0.507													11	63	---	---	---	---	PASS	T	20216239	T	T	20216239	3	4	155	1	0	0	0	0	1	0	0	0	11081	913	32	2	655	2	OR4Q3	14	20216239	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08		20216239	87133301	217	55180										
FLJ10357	55701	broad.mit.edu	37	chr14	21548879	21548879	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	caagctttgctatgcctgggGacaccttgtctgccctgcag	11	13	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:21548879G>T	uc001vzp.2	+	12	2463	c.2434G>T	c.(2434-2436)GAC>TAC	p.D812Y	FLJ10357_uc001vzo.1_5'UTR|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_Missense_Mutation_p.D98Y	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	812					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		TATGCCTGGGGACACCTTGTC	0.647													10	34	---	---	---	---	PASS	T	21548879	T	T	21548879	3	4	155	1	0	0	0	0	1	0	0	0	5926	1174	41	2	2480	2	FLJ10357	14	21548879	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	1332640	21548879	85800661	218	55181										
MYH7	4625	broad.mit.edu	37	chr14	23889431	23889431	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ctccagctcctcctccagctCctcgatgcgtgcctggtcag	9	18	1	0	rs141735183		TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:23889431C>A	uc001wjx.2	-	27	3455	c.3349G>T	c.(3349-3351)GAG>TAG	p.E1117*	MIR208B_hsa-mir-208b|MI0005570_5'Flank	NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1117	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		tcctccagctcctcGATGCGT	0.562													9	22	---	---	---	---	PASS	A	23889431	A	A	23889431	4	1	155	1	0	0	0	0	0	1	0	0	10039	864	30	2	2514	2	MYH7	14	23889431	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	2340552	23889431	83460109	219	55182										
FOXG1	2290	broad.mit.edu	37	chr14	29237714	29237714	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cccctgctccgtcaacctgcTcgcgggccagaccagttact	9	18	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:29237714T>G	uc001wqe.2	+	1	1428	c.1229T>G	c.(1228-1230)CTC>CGC	p.L410R		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	410					axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		GTCAACCTGCTCGCGGGCCAG	0.687													4	27	---	---	---	---	PASS	G	29237714	G	G	29237714	3	3	155	1	0	0	0	0	1	0	0	0	6007	1551	54	5	1231	5	FOXG1	14	29237714	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	5348283	29237714	78111826	220	55183										
EGLN3	112399	broad.mit.edu	37	chr14	34400377	34400377	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccgttggggttgtccacgtgGcgaacataacctgttccatt	11	11	0	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:34400377G>C	uc001wsa.3	-	2	728	c.402C>G	c.(400-402)CGC>CGG	p.R134R	EGLN3_uc001wry.2_Silent_p.R40R|EGLN3_uc001wrz.2_Silent_p.R134R	NM_022073	NP_071356	Q9H6Z9	EGLN3_HUMAN	egl nine homolog 3	134	Fe2OG dioxygenase.				apoptosis	cytoplasm|nucleus	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|protein binding				0	Breast(36;0.0303)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.000246)|Lung(238;0.000959)|Epithelial(34;0.155)	GBM - Glioblastoma multiforme(112;0.0118)	Vitamin C(DB00126)	TGTCCACGTGGCGAACATAAC	0.473													14	43	---	---	---	---	PASS	C	34400377	C	C	34400377	2	2	155	1	0	0	0	0	0	0	0	1	4970	1190	42	4		4	EGLN3	14	34400377	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	5162663	34400377	72949163	221	55184										
FOXA1	3169	broad.mit.edu	37	chr14	38061517	38061517	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gcgcttgaacgtcttggcgtCgccgccgccgcccgcgcggc	15	18	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:38061517C>T	uc001wuf.2	-	2	784	c.472G>A	c.(472-474)GAC>AAC	p.D158N	FOXA1_uc010tpz.1_Missense_Mutation_p.D125N	NM_004496	NP_004487	P55317	FOXA1_HUMAN	forkhead box A1	158					chromatin remodeling|embryo development|epithelial cell maturation involved in prostate gland development|epithelial tube branching involved in lung morphogenesis|epithelial-mesenchymal signaling involved in prostate gland development|glucose homeostasis|lung epithelial cell differentiation|negative regulation of survival gene product expression|neuron fate specification|pattern specification process|positive regulation of estrogen receptor signaling pathway|positive regulation of mitotic cell cycle|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|prostate gland epithelium morphogenesis|prostate gland stromal morphogenesis|response to estradiol stimulus|secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|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|transcription regulatory region DNA binding				0	Breast(36;0.0954)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;5.41e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.0454)|LUSC - Lung squamous cell carcinoma(13;0.0917)|all cancers(34;0.0925)|BRCA - Breast invasive adenocarcinoma(188;0.239)	GBM - Glioblastoma multiforme(112;0.0222)		GTCTTGGCGTcgccgccgccg	0.557													13	31	---	---	---	---	PASS	T	38061517	T	T	38061517	3	4	155	1	0	0	0	0	1	0	0	0	5989	884	31	2	950	2	FOXA1	14	38061517	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	3661140	38061517	69288023	222	55185										
RPL10L	140801	broad.mit.edu	37	chr14	47120615	47120615	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	catacctgtctggagcctgtCagccccagcacaggacaaca	9	15	2	0	rs11557561		TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:47120615C>G	uc001wwg.2	-	1	414	c.325G>C	c.(325-327)GAC>CAC	p.D109H		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	109					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						TGGAGCCTGTCAGCCCCAGCA	0.547													9	45	---	---	---	---	PASS	G	47120615	G	G	47120615	3	3	155	1	0	0	0	0	1	0	0	0	13556	826	29	2	323	2	RPL10L	14	47120615	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	9059098	47120615	60228925	223	55186										
SIPA1L1	26037	broad.mit.edu	37	chr14	72190544	72190544	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ggcgctactagcaagtacctGattggatggaaaaaacccga	11	9	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:72190544G>C	uc001xms.2	+	16	4800	c.4452G>C	c.(4450-4452)CTG>CTC	p.L1484L	SIPA1L1_uc001xmt.2_Silent_p.L1463L|SIPA1L1_uc001xmu.2_Silent_p.L1463L|SIPA1L1_uc001xmv.2_Silent_p.L1484L|SIPA1L1_uc010ttm.1_Silent_p.L938L|SIPA1L1_uc001xmw.2_Silent_p.L249L	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1484	Ser-rich.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		GCAAGTACCTGATTGGATGGA	0.428													10	131	---	---	---	---	PASS	C	72190544	C	C	72190544	2	2	155	1	0	0	0	0	0	0	0	1	14329	1277	45	2		2	SIPA1L1	14	72190544	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	25069929	72190544	35158996	224	55187										
ANGEL1	23357	broad.mit.edu	37	chr14	77272759	77272759	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cgtggcctctcccatttcacCttccaggctggcatcccatg	8	17	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:77272759C>T	uc001xsv.2	-	5	1493	c.1380G>A	c.(1378-1380)AAG>AAA	p.K460K	ANGEL1_uc010tvf.1_Intron	NM_015305	NP_056120	Q9UNK9	ANGE1_HUMAN	angel homolog 1	460										ovary(2)|central_nervous_system(1)|skin(1)	4			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0285)		CCCATTTCACCTTCCAGGCTG	0.532													5	37	---	---	---	---	PASS	T	77272759	T	T	77272759	2	4	155	1	0	0	0	0	0	0	0	1	608	695	24	3		3	ANGEL1	14	77272759	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	5082215	77272759	30076781	225	55188										
CPSF2	53981	broad.mit.edu	37	chr14	92622903	92622903	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atctggtttgacaaatggagAtgaacctatggatcaggatt	11	5	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:92622903A>G	uc001yah.1	+	12	1760	c.1523A>G	c.(1522-1524)GAT>GGT	p.D508G		NM_017437	NP_059133	Q9P2I0	CPSF2_HUMAN	cleavage and polyadenylation specific factor 2	508					histone mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	hydrolase activity|protein binding|RNA binding			ovary(2)	2		all_cancers(154;0.0766)		COAD - Colon adenocarcinoma(157;0.222)		ACAAATGGAGATGAACCTATG	0.323													15	74	---	---	---	---	PASS	G	92622903	G	G	92622903	3	3	155	1	0	0	0	0	1	0	0	0	3825	333	12	5	1561	5	CPSF2	14	92622903	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	15350144	92622903	14726637	226	55189										
C14orf177	283598	broad.mit.edu	37	chr14	99183521	99183521	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gggtcatgtaatcaccaaatAatgtctgcttcgaccatctc	7	11	4	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:99183521A>G	uc001yfz.1	+	4	707	c.288A>G	c.(286-288)ATA>ATG	p.I96M		NM_182560	NP_872366	Q52M58	CN177_HUMAN	hypothetical protein LOC283598	96											0		Melanoma(154;0.128)				ATCACCAAATAATGTCTGCTT	0.423													17	68	---	---	---	---	PASS	G	99183521	G	G	99183521	3	3	155	1	0	0	0	0	1	0	0	0	1760	352	13	5	294	5	C14orf177	14	99183521	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	6560618	99183521	8166019	227	55190										
ASPG	374569	broad.mit.edu	37	chr14	104559906	104559906	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gactccagtgacatgaccatCgctgagtgggtttgccttgc	12	11	0	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:104559906C>T	uc001yoq.1	+	3	330	c.270C>T	c.(268-270)ATC>ATT	p.I90I	ASPG_uc001yoo.1_Silent_p.I118I|ASPG_uc001yop.1_Silent_p.I90I|ASPG_uc001yor.1_Silent_p.I90I	NM_001080464	NP_001073933	Q86U10	LPP60_HUMAN	60 kDa lysophospholipase	90	Asparaginase.				lipid catabolic process		1-alkyl-2-acetylglycerophosphocholine esterase activity|asparaginase activity|lysophospholipase activity				0						ACATGACCATCGCTGAGTGGG	0.408													20	79	---	---	---	---	PASS	T	104559906	T	T	104559906	2	4	155	1	0	0	0	0	0	0	0	1	1052	874	31	2		2	ASPG	14	104559906	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	5376385	104559906	2789634	228	55191										
AHNAK2	113146	broad.mit.edu	37	chr14	105411849	105411849	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gccctgtacgacggcatcttGaatttgggcattttgaactt	10	9	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr14:105411849G>A	uc010axc.1	-	7	10059	c.9939C>T	c.(9937-9939)TTC>TTT	p.F3313F	AHNAK2_uc001ypx.2_Silent_p.F3213F	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3313						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)			ACGGCATCTTGAATTTGGGCA	0.622													14	352	---	---	---	---	PASS	A	105411849	A	A	105411849	2	1	155	1	0	0	0	0	0	0	0	1	415	1281	45	2		2	AHNAK2	14	105411849	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	851943	105411849	1937691	229	55192										
OR4N4	283694	broad.mit.edu	37	chr15	22382701	22382701	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atgcatcctactccttcattGtggctcccaggatgttggtg	10	11	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr15:22382701G>T	uc001yuc.1	+	7	1210	c.229G>T	c.(229-231)GTG>TTG	p.V77L	LOC727924_uc001yub.1_RNA|OR4N4_uc010tzv.1_Missense_Mutation_p.V77L	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	77	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CTCCTTCATTGTGGCTCCCAG	0.493													18	190	---	---	---	---	PASS	T	22382701	T	T	22382701	3	4	155	1	0	0	0	0	1	0	0	0	11078	1377	48	3	231	3	OR4N4	15	22382701	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08		22382701	80148691	230	55193										
INO80	54617	broad.mit.edu	37	chr15	41280040	41280040	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cttctccttggctctttgcaGaatgcgttcttcaatggtgc	9	11	4	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr15:41280040G>A	uc001zni.2	-	30	3916	c.3703C>T	c.(3703-3705)CTG>TTG	p.L1235L	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	1235	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.|Helicase C-terminal.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						GCTCTTTGCAGAATGCGTTCT	0.502													12	214	---	---	---	---	PASS	A	41280040	A	A	41280040	2	1	155	1	0	0	0	0	0	0	0	1	7746	933	33	2		2	INO80	15	41280040	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	18897339	41280040	61251352	231	55194										
MGA	23269	broad.mit.edu	37	chr15	42042356	42042356	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tctgaagggccccttaaccaGgaaatgtgttggagcttcac	11	10	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr15:42042356G>T	uc010ucy.1	+	17	6732	c.6551G>T	c.(6550-6552)AGG>ATG	p.R2184M	MGA_uc010ucz.1_Missense_Mutation_p.R1975M|MGA_uc010uda.1_Missense_Mutation_p.R800M|MGA_uc001zoi.2_Missense_Mutation_p.R398M	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	2145	Basic motif.					MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		CCCTTAACCAGGAAATGTGTT	0.428													22	75	---	---	---	---	PASS	T	42042356	T	T	42042356	3	4	155	1	0	0	0	0	1	0	0	0	9540	1000	35	3	6613	3	MGA	15	42042356	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	762316	42042356	60489036	232	55195										
UNC13C	440279	broad.mit.edu	37	chr15	54685268	54685268	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	taagaaacaggatattcctcGtgaagatcagggaccaacca	9	9	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr15:54685268G>C	uc002ack.2	+	16	4736	c.4736G>C	c.(4735-4737)CGT>CCT	p.R1579P	UNC13C_uc002acl.2_Missense_Mutation_p.R409P	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1579					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GATATTCCTCGTGAAGATCAG	0.388													12	54	---	---	---	---	PASS	C	54685268	C	C	54685268	3	2	155	1	0	0	0	0	1	0	0	0	16983	1145	40	4	4798	4	UNC13C	15	54685268	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	12642912	54685268	47846124	233	55196										
SIN3A	25942	broad.mit.edu	37	chr15	75684849	75684849	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	taaacagtaacttggacttaGggggactgcccccaacacca	9	12	0	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr15:75684849G>C	uc002bai.2	-	15	2844	c.2585C>G	c.(2584-2586)CCT>CGT	p.P862R	SIN3A_uc002baj.2_Missense_Mutation_p.P862R|SIN3A_uc010uml.1_Missense_Mutation_p.P862R	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	862					blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						CTTGGACTTAGGGGGACTGCC	0.428													5	87	---	---	---	---	PASS	C	75684849	C	C	75684849	3	2	155	1	0	0	0	0	1	0	0	0	14325	1000	35	4	1264	4	SIN3A	15	75684849	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	20999581	75684849	26846543	234	55197										
ST20	400410	broad.mit.edu	37	chr15	80191279	80191279	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcaaagttgtttatttaaaaGtagaagtatgtgttggcaat	9	2	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr15:80191279G>C	uc002bez.3	-	3	914	c.234C>G	c.(232-234)TAC>TAG	p.Y78*	ST20_uc002bfa.3_Nonsense_Mutation_p.Y78*|MTHFS_uc002bex.3_5'Flank	NM_001100879	NP_001094349	Q9HBF5	ST20_HUMAN	cervical cancer suppressor-1	78											0						TTATTTAAAAGTAGAAGTATG	0.338													3	62	---	---	---	---	PASS	C	80191279	C	C	80191279	4	2	155	1	0	0	0	0	0	1	0	0	15212	1024	36	4	9	4	ST20	15	80191279	Nonsense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	4506430	80191279	22340113	235	55198										
E4F1	1877	broad.mit.edu	37	chr16	2282275	2282275	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cgccagcaggggctggggctCgcaggggagggtgagcaggc	22	10	0	1	rs149258624		TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr16:2282275C>G	uc002cpm.2	+	4	567	c.519C>G	c.(517-519)CTC>CTG	p.L173L	E4F1_uc010bsi.2_Silent_p.L173L|E4F1_uc010bsj.2_Silent_p.L173L	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	173					cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						GGCTGGGGCTCGCAGGGGAGG	0.667													9	28	---	---	---	---	PASS	G	2282275	G	G	2282275	2	3	155	1	0	0	0	0	0	0	0	1	4874	871	31	2		2	E4F1	16	2282275	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08		2282275	88072478	236	55199										
ZNF434	54925	broad.mit.edu	37	chr16	3434852	3434852	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gtagatctggctgttctgctGacaggtctggagttttccat	12	8	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr16:3434852G>C	uc002cuz.2	-	5	1007	c.205C>G	c.(205-207)CAG>GAG	p.Q69E	ZNF434_uc002cux.3_Missense_Mutation_p.Q280E|ZNF434_uc010uwx.1_5'UTR|ZNF434_uc002cuy.3_5'UTR|ZNF434_uc010uwy.1_5'UTR|ZNF434_uc010uwz.1_Missense_Mutation_p.Q280E|ZNF434_uc010uxa.1_Missense_Mutation_p.Q69E	NM_017810	NP_060280	Q9NX65	ZN434_HUMAN	zinc finger protein 434	69					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTGTTCTGCTGACAGGTCTGG	0.527													4	112	---	---	---	---	PASS	C	3434852	C	C	3434852	3	2	155	1	0	0	0	0	1	0	0	0	17905	1299	45	2	1260	2	ZNF434	16	3434852	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	1152577	3434852	86919901	237	55200										
GRIN2A	2903	broad.mit.edu	37	chr16	9862740	9862740	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaagagcaacccaggccggtCggagcacacgcccgtgaaac	13	14	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr16:9862740C>G	uc002czo.3	-	12	3111	c.2563G>C	c.(2563-2565)GAC>CAC	p.D855H	GRIN2A_uc010uym.1_Missense_Mutation_p.D855H|GRIN2A_uc010uyn.1_Missense_Mutation_p.D698H|GRIN2A_uc002czr.3_Missense_Mutation_p.D855H	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	855	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CCAGGCCGGTCGGAGCACACG	0.567													15	79	---	---	---	---	PASS	G	9862740	G	G	9862740	3	3	155	1	0	0	0	0	1	0	0	0	6779	884	31	2	1839	2	GRIN2A	16	9862740	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	6427888	9862740	80492013	238	55201										
ACSM5	54988	broad.mit.edu	37	chr16	20422839	20422839	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ctgagacacctagtcctccaGgcactgaggaactccagggc	11	14	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr16:20422839G>A	uc002dhe.2	+	2	180	c.33G>A	c.(31-33)CAG>CAA	p.Q11Q	ACSM5_uc002dhd.1_Silent_p.Q11Q	NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	11					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2						TAGTCCTCCAGGCACTGAGGA	0.557													7	21	---	---	---	---	PASS	A	20422839	A	A	20422839	2	1	155	1	0	0	0	0	0	0	0	1	187	991	35	3		3	ACSM5	16	20422839	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	10560099	20422839	69931914	239	55202										
TBX6	6911	broad.mit.edu	37	chr16	30100411	30100411	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tctgccttgccgctgggctcCcagcgccggccctgccagcg	13	19	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr16:30100411C>T	uc010veh.1	-	4	534	c.474G>A	c.(472-474)TGG>TGA	p.W158*	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TBX6_uc002dwk.1_Nonsense_Mutation_p.W158*	NM_004608	NP_004599	O95947	TBX6_HUMAN	T-box 6	158	T-box.				anatomical structure morphogenesis|mesoderm development|multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CGCTGGGCTCCCAGCGCCGGC	0.647													4	27	---	---	---	---	PASS	T	30100411	T	T	30100411	4	4	155	1	0	0	0	0	0	1	0	0	15659	624	22	3	860	3	TBX6	16	30100411	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	9677572	30100411	60254342	240	55203										
TBX6	6911	broad.mit.edu	37	chr16	30102165	30102165	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tccaggctcaggctgaccccCgggagggaatggagggcctc	16	13	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr16:30102165C>T	uc010veh.1	-	3	327	c.267G>A	c.(265-267)CCG>CCA	p.P89P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TBX6_uc002dwk.1_Silent_p.P89P	NM_004608	NP_004599	O95947	TBX6_HUMAN	T-box 6	89					anatomical structure morphogenesis|mesoderm development|multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GGCTGACCCCCGGGAGGGAAT	0.662													5	17	---	---	---	---	PASS	T	30102165	T	T	30102165	2	4	155	1	0	0	0	0	0	0	0	1	15659	639	23	1		1	TBX6	16	30102165	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	1754	30102165	60252588	241	55204										
SLC12A3	6559	broad.mit.edu	37	chr16	56906359	56906359	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aggacaaggcctccaaaggcTtcttcagctaccggggtatg	12	11	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr16:56906359T>A	uc010ccm.2	+	7	978	c.949T>A	c.(949-951)TTC>ATC	p.F317I	SLC12A3_uc002ekd.3_Missense_Mutation_p.F317I|SLC12A3_uc010ccn.2_Missense_Mutation_p.F316I	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	317					sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	CTCCAAAGGCTTCTTCAGCTA	0.567													6	32	---	---	---	---	PASS	A	56906359	A	A	56906359	3	1	155	1	0	0	0	0	1	0	0	0	14384	1609	56	5	975	5	SLC12A3	16	56906359	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	26804194	56906359	33448394	242	55205										
ZFHX3	463	broad.mit.edu	37	chr16	72821790	72821790	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgcggcagaccaacttgtacTgcacctttggaacaatgaag	10	10	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr16:72821790T>C	uc002fck.2	-	10	11058	c.10385A>G	c.(10384-10386)CAG>CGG	p.Q3462R	ZFHX3_uc002fcl.2_Missense_Mutation_p.Q2548R	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3462					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CAACTTGTACTGCACCTTTGG	0.597													13	50	---	---	---	---	PASS	C	72821790	C	C	72821790	3	2	155	1	0	0	0	0	1	0	0	0	17631	1580	55	5	730	5	ZFHX3	16	72821790	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	15915431	72821790	17532963	243	55206										
GLG1	2734	broad.mit.edu	37	chr16	74497334	74497334	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cactgtttttattttgcttcAagcactgcaacatggtttta	6	8	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr16:74497334A>C	uc002fcy.3	-	20	2761	c.2711T>G	c.(2710-2712)TTG>TGG	p.L904W	GLG1_uc002fcx.2_Missense_Mutation_p.L904W|GLG1_uc002fcw.3_Missense_Mutation_p.L893W|GLG1_uc002fcz.3_Missense_Mutation_p.L321W	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	904	Cys-rich GLG1 13.|Extracellular (Potential).					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						ATTTTGCTTCAAGCACTGCAA	0.413													12	33	---	---	---	---	PASS	C	74497334	C	C	74497334	3	2	155	1	0	0	0	0	1	0	0	0	6436	131	5	5	936	5	GLG1	16	74497334	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	1675544	74497334	15857419	244	55207										
DEF8	54849	broad.mit.edu	37	chr16	90015915	90015915	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gcccctgggccctggcaggcGatgcaggtatgggcagacag	17	12	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr16:90015915G>A	uc002fpn.1	+	2	131	c.42G>A	c.(40-42)GCG>GCA	p.A14A	DEF8_uc002fpl.2_5'UTR|DEF8_uc002fpm.2_Intron|DEF8_uc002fpo.1_5'UTR|DEF8_uc002fpp.1_5'UTR|DEF8_uc010vpq.1_5'UTR|DEF8_uc010vpr.1_5'UTR	NM_207514	NP_997397	Q6ZN54	DEFI8_HUMAN	differentially expressed in FDCP 8 isoform 1	14					intracellular signal transduction		zinc ion binding			central_nervous_system(1)	1		all_cancers(9;7.59e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.0019)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0274)		CCTGGCAGGCGATGCAGGTAT	0.662													10	44	---	---	---	---	PASS	A	90015915	A	A	90015915	2	1	155	1	0	0	0	0	0	0	0	1	4387	1045	37	2		2	DEF8	16	90015915	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	15518581	90015915	338838	245	55208										
AMAC1L3	643664	broad.mit.edu	37	chr17	7386197	7386197	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gtggcccttatactgcagtaTtatatgctccatgagactgt	9	9	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr17:7386197T>C	uc010cmj.1	+	2	1009	c.894T>C	c.(892-894)TAT>TAC	p.Y298Y	ZBTB4_uc002ghd.3_Intron|POLR2A_uc002ghe.2_5'Flank|POLR2A_uc002ghf.3_5'Flank	NM_001102614	NP_001096084	P0C7Q6	AMCL3_HUMAN	acyl-malonyl condensing enzyme 1-like 3	298	DUF6 2.|Helical; (Potential).					integral to membrane					0		Prostate(122;0.173)				TACTGCAGTATTATATGCTCC	0.572													7	89	---	---	---	---	PASS	C	7386197	C	C	7386197	2	2	155	1	0	0	0	0	0	0	0	1	561	1500	52	5		5	AMAC1L3	17	7386197	Silent	SNP	T	TCGA-66-2771-01A-01D-0983-08		7386197	73809013	246	55209										
UBB	7314	broad.mit.edu	37	chr17	16285361	16285361	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gcagaggctcatctttgcagGcaagcagctggaagatggcc	14	10	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr17:16285361G>T	uc002gpx.2	+	2	278	c.140G>T	c.(139-141)GGC>GTC	p.G47V	UBB_uc010vwe.1_Missense_Mutation_p.G47V	NM_018955	NP_061828	P0CG47	UBB_HUMAN	ubiquitin B precursor	47	Ubiquitin-like 1.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)		ATCTTTGCAGGCAAGCAGCTG	0.547													11	72	---	---	---	---	PASS	T	16285361	T	T	16285361	3	4	155	1	0	0	0	0	1	0	0	0	16838	1203	42	3	142	3	UBB	17	16285361	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	8899164	16285361	64909849	247	55210										
COASY	80347	broad.mit.edu	37	chr17	40717709	40717709	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	attgtggagagggatggcctCagtgaagccgcggctcaaag	16	8	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr17:40717709C>T	uc002hzz.2	+	9	1675	c.1518C>T	c.(1516-1518)CTC>CTT	p.L506L	COASY_uc010cyj.2_Silent_p.L535L|COASY_uc002iab.2_Silent_p.L211L|COASY_uc002iad.2_Silent_p.L506L|COASY_uc002iac.2_Silent_p.L506L|COASY_uc002iae.2_Silent_p.L301L|MLX_uc002iaf.2_5'Flank|MLX_uc002iag.2_5'Flank|MLX_uc002iah.2_5'Flank	NM_001042529	NP_001035994	Q13057	COASY_HUMAN	coenzyme A synthase isoform a	506	DPCK.				coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial outer membrane	ATP binding|dephospho-CoA kinase activity|pantetheine-phosphate adenylyltransferase activity				0		all_cancers(22;1.06e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)		GGGATGGCCTCAGTGAAGCCG	0.577													4	29	---	---	---	---	PASS	T	40717709	T	T	40717709	2	4	155	1	0	0	0	0	0	0	0	1	3652	813	29	2		2	COASY	17	40717709	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	24432348	40717709	40477501	248	55211										
PPP1R9B	84687	broad.mit.edu	37	chr17	48212999	48212999	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cgctgtgcagtctcctttttCaggaactcgatctccctggg	10	13	3	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr17:48212999C>T	uc002iqh.3	-	11	2322	c.2319G>A	c.(2317-2319)CTG>CTA	p.L773L		NM_032595	NP_115984	Q96SB3	NEB2_HUMAN	protein phosphatase 1, regulatory subunit 9B	771	Potential.|Interacts with TGN38 (By similarity).				cell cycle arrest|cell differentiation|cell migration|filopodium assembly|negative regulation of cell growth|nervous system development|regulation of cell growth by extracellular stimulus|regulation of cell proliferation|regulation of exit from mitosis|RNA splicing	adherens junction|cytoskeleton|dendritic spine|filopodium|lamellipodium|nucleoplasm|protein phosphatase type 1 complex|ruffle membrane|synapse	actin binding|protein phosphatase 1 binding|protein phosphatase inhibitor activity				0						TCTCCTTTTTCAGGAACTCGA	0.602													4	12	---	---	---	---	PASS	T	48212999	T	T	48212999	2	4	155	1	0	0	0	0	0	0	0	1	12379	813	29	2		2	PPP1R9B	17	48212999	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	7495290	48212999	32982211	249	55212										
RSAD1	55316	broad.mit.edu	37	chr17	48559474	48559474	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cctagatgacactgagctccGgctgttgggacggacgcact	13	12	0	3	rs138384713		TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr17:48559474G>A	uc002iqw.1	+	4	553	c.497G>A	c.(496-498)CGG>CAG	p.R166Q	RSAD1_uc010wmq.1_RNA	NM_018346	NP_060816	Q9HA92	RSAD1_HUMAN	radical S-adenosyl methionine domain containing	166					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)			ACTGAGCTCCGGCTGTTGGGA	0.612											OREG0024567	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	83	---	---	---	---	PASS	A	48559474	A	A	48559474	3	1	155	1	0	0	0	0	1	0	0	0	13694	1116	39	1	511	1	RSAD1	17	48559474	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	346475	48559474	32635736	250	55213										
CSNK1D	1453	broad.mit.edu	37	chr17	80211007	80211007	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cggtacttcttggccagcccGaagtcgatgatgtacaccag	11	12	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr17:80211007G>T	uc002kej.2	-	4	766	c.450C>A	c.(448-450)TTC>TTA	p.F150L	SLC16A3_uc002kee.2_Intron|CSNK1D_uc002kef.2_Missense_Mutation_p.F150L|CSNK1D_uc002kei.2_Missense_Mutation_p.F150L|CSNK1D_uc010wvj.1_Intron|CSNK1D_uc010dil.2_5'Flank|CSNK1D_uc002keh.2_Missense_Mutation_p.F15L|CSNK1D_uc010dim.1_5'Flank	NM_001893	NP_001884	P48730	KC1D_HUMAN	casein kinase 1, delta isoform 1	150	Protein kinase.				circadian regulation of gene expression|DNA repair|G2/M transition of mitotic cell cycle|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|regulation of circadian rhythm|Wnt receptor signaling pathway	centrosome|cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			breast(2)	2	Breast(20;0.00136)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.227)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0155)			TGGCCAGCCCGAAGTCGATGA	0.552													4	88	---	---	---	---	PASS	T	80211007	T	T	80211007	3	4	155	1	0	0	0	0	1	0	0	0	3952	1049	37	2	858	2	CSNK1D	17	80211007	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	31651533	80211007	984203	251	55214										
TMEM200C	645369	broad.mit.edu	37	chr18	5891854	5891854	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgggccagtagcccaccaccGccatggctatgcccaccagc	10	18	0	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr18:5891854G>A	uc002kmx.1	-	1	250	c.209C>T	c.(208-210)GCG>GTG	p.A70V		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	70	Helical; (Potential).					integral to membrane					0						GCCCACCACCGCCATGGCTAT	0.662													11	12	---	---	---	---	PASS	A	5891854	A	A	5891854	3	1	155	1	0	0	0	0	1	0	0	0	16122	1087	38	1	1660	1	TMEM200C	18	5891854	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08		5891854	72185394	252	55215										
LAMA1	284217	broad.mit.edu	37	chr18	7014032	7014032	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccgatgatgagtcgaccccaCgagactgcaattgcaggcct	11	13	0	3	rs138476816		TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr18:7014032C>A	uc002knm.2	-	23	3239	c.3145G>T	c.(3145-3147)GTG>TTG	p.V1049L	LAMA1_uc010wzj.1_Missense_Mutation_p.V525L	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1049	Laminin EGF-like 12.				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)	GTCGACCCCACGAGACTGCAA	0.483													5	14	---	---	---	---	PASS	A	7014032	A	A	7014032	3	1	155	1	0	0	0	0	1	0	0	0	8605	536	19	1	6246	1	LAMA1	18	7014032	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	1122178	7014032	71063216	253	55216										
LAMA3	3909	broad.mit.edu	37	chr18	21494522	21494522	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tatggatcgggtgaaatttcAgaggtacaagtctgattgac	12	5	2	4			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr18:21494522A>T	uc002kuq.2	+	57	7564	c.7478A>T	c.(7477-7479)CAG>CTG	p.Q2493L	LAMA3_uc002kur.2_Missense_Mutation_p.Q2437L|LAMA3_uc002kus.3_Missense_Mutation_p.Q884L|LAMA3_uc002kut.3_Missense_Mutation_p.Q828L	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	2493	Laminin G-like 1.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTGAAATTTCAGAGGTACAAG	0.458													6	26	---	---	---	---	PASS	T	21494522	T	T	21494522	3	4	155	1	0	0	0	0	1	0	0	0	8607	188	7	5	7879	5	LAMA3	18	21494522	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	14480490	21494522	56582726	254	55217										
OSBPL1A	114876	broad.mit.edu	37	chr18	21921529	21921529	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	accttcaagcatgcttctgaTttcttcagcatgagtaactt	6	10	4	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr18:21921529T>A	uc002kve.2	-	5	550	c.376A>T	c.(376-378)ATC>TTC	p.I126F		NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	126					cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					ATGCTTCTGATTTCTTCAGCA	0.343													6	43	---	---	---	---	PASS	A	21921529	A	A	21921529	3	1	155	1	0	0	0	0	1	0	0	0	11277	1493	52	5	2572	5	OSBPL1A	18	21921529	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	427007	21921529	56155719	255	55218										
MEX3C	51320	broad.mit.edu	37	chr18	48703809	48703809	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	acgaatcatggagaagtgctCtgcagctgagaggatctctc	12	9	3	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr18:48703809C>T	uc002lfc.3	-	2	892	c.892G>A	c.(892-894)GAG>AAG	p.E298K		NM_016626	NP_057710	Q5U5Q3	MEX3C_HUMAN	ring finger and KH domain containing 2	298						cytoplasm|nucleus	RNA binding|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		Colorectal(6;0.003)|all_epithelial(6;0.0473)		Colorectal(16;0.0175)|READ - Rectum adenocarcinoma(32;0.15)		GAGAAGTGCTCTGCAGCTGAG	0.483													4	45	---	---	---	---	PASS	T	48703809	T	T	48703809	3	4	155	1	0	0	0	0	1	0	0	0	9511	922	32	2	1091	2	MEX3C	18	48703809	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	26782280	48703809	29373439	256	55219										
ALPK2	115701	broad.mit.edu	37	chr18	56202164	56202164	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gcatctttttaagaaaggctGagttctttctgatattttcc	7	7	3	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr18:56202164G>C	uc002lhj.3	-	5	5469	c.5255C>G	c.(5254-5256)TCA>TGA	p.S1752*	ALPK2_uc002lhk.1_Nonsense_Mutation_p.S1083*	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1752							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						AAGAAAGGCTGAGTTCTTTCT	0.413													6	47	---	---	---	---	PASS	C	56202164	C	C	56202164	4	2	155	1	0	0	0	0	0	1	0	0	545	1294	45	2	1293	2	ALPK2	18	56202164	Nonsense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	7498355	56202164	21875084	257	55220										
SALL3	27164	broad.mit.edu	37	chr18	76754570	76754570	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	catgagctgccagcagctgaCcggcctcaagtccgtggaga	13	13	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr18:76754570C>G	uc002lmt.2	+	2	2579	c.2579C>G	c.(2578-2580)ACC>AGC	p.T860S	SALL3_uc010dra.2_Missense_Mutation_p.T467S	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	860					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CAGCAGCTGACCGGCCTCAAG	0.682													9	17	---	---	---	---	PASS	G	76754570	G	G	76754570	3	3	155	1	0	0	0	0	1	0	0	0	13812	507	18	4	2585	4	SALL3	18	76754570	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	20552406	76754570	1322678	258	55221										
ELAVL1	1994	broad.mit.edu	37	chr19	8032655	8032655	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cgtttgtcaaaccggataaaCgcaacccctctggacaaacc	7	14	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:8032655C>A	uc002mjb.2	-	5	617	c.450G>T	c.(448-450)GCG>GCT	p.A150A		NM_001419	NP_001410	Q15717	ELAV1_HUMAN	ELAV-like 1	150	RRM 2.				3'-UTR-mediated mRNA stabilization|multicellular organismal development	cytoplasm|nucleoplasm	identical protein binding|mRNA binding|nucleotide binding				0						ACCGGATAAACGCAACCCCTC	0.453													5	45	---	---	---	---	PASS	A	8032655	A	A	8032655	2	1	155	1	0	0	0	0	0	0	0	1	5049	523	19	1		1	ELAVL1	19	8032655	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08		8032655	51096328	259	55222										
FBN3	84467	broad.mit.edu	37	chr19	8181625	8181625	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aggcagcggtgaccccctggCatgttggtgcagtggccttg	16	11	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:8181625C>T	uc002mjf.2	-	28	3666	c.3645G>A	c.(3643-3645)ATG>ATA	p.M1215I		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1215	EGF-like 17.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GACCCCCTGGCATGTTGGTGC	0.632													9	37	---	---	---	---	PASS	T	8181625	T	T	8181625	3	4	155	1	0	0	0	0	1	0	0	0	5704	710	25	3	4928	3	FBN3	19	8181625	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	148970	8181625	50947358	260	55223										
MARCH2	51257	broad.mit.edu	37	chr19	8491686	8491686	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aacggcctcgacccctcacaGaggtacccttaagagtctga	9	14	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:8491686G>A	uc002mjv.2	+	4	811	c.370G>A	c.(370-372)GAG>AAG	p.E124K	MARCH2_uc002mjw.2_Missense_Mutation_p.E124K|MARCH2_uc002mjx.2_Missense_Mutation_p.E124K	NM_016496	NP_057580	Q9P0N8	MARH2_HUMAN	membrane-associated ring finger (C3HC4) 2	124					endocytosis	cytoplasmic vesicle|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						ACCCCTCACAGAGGTACCCTT	0.592													6	18	---	---	---	---	PASS	A	8491686	A	A	8491686	3	1	155	1	0	0	0	0	1	0	0	0	9301	943	33	2	376	2	MARCH2	19	8491686	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	310061	8491686	50637297	261	55224										
MUC16	94025	broad.mit.edu	37	chr19	9072126	9072126	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgtctttactgtctttagaaGtggccagtatcttatctgag	9	7	4	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:9072126G>T	uc002mkp.2	-	3	15524	c.15320C>A	c.(15319-15321)ACT>AAT	p.T5107N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5109	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTCTTTAGAAGTGGCCAGTAT	0.423													11	86	---	---	---	---	PASS	T	9072126	T	T	9072126	3	4	155	1	0	0	0	0	1	0	0	0	9973	1029	36	3	28531	3	MUC16	19	9072126	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	580440	9072126	50056857	262	55225										
MUC16	94025	broad.mit.edu	37	chr19	9087486	9087486	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgctcactgggagcaaggacCaggggttcccctgggacatc	14	12	1	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:9087486C>A	uc002mkp.2	-	1	4533	c.4329G>T	c.(4327-4329)CTG>CTT	p.L1443L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1443	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAGCAAGGACCAGGGGTTCCC	0.512													5	96	---	---	---	---	PASS	A	9087486	A	A	9087486	2	1	155	1	0	0	0	0	0	0	0	1	9973	581	21	3		3	MUC16	19	9087486	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	15360	9087486	50041497	263	55226										
MUC16	94025	broad.mit.edu	37	chr19	9088466	9088466	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atctctaggtattgtaatttCtctggatgttaaatgataga	8	4	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:9088466C>G	uc002mkp.2	-	1	3553	c.3349G>C	c.(3349-3351)GAA>CAA	p.E1117Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1117	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATTGTAATTTCTCTGGATGTT	0.468													5	70	---	---	---	---	PASS	G	9088466	G	G	9088466	3	3	155	1	0	0	0	0	1	0	0	0	9973	922	32	2	40510	2	MUC16	19	9088466	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	980	9088466	50040517	264	55227										
ZNF559	84527	broad.mit.edu	37	chr19	9453519	9453519	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atacatacaggggagaggccAtataaatgtcaaaagtgtgg	12	5	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:9453519A>C	uc002mlg.2	+	7	2039	c.1392A>C	c.(1390-1392)CCA>CCC	p.P464P	ZNF559_uc002mlf.2_Silent_p.P233P|ZNF559_uc010dwl.1_Silent_p.P233P|ZNF559_uc010xkn.1_Silent_p.P456P|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Silent_p.P528P|ZNF559_uc010dwk.1_Silent_p.P233P|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	464					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGGAGAGGCCATATAAATGTC	0.443													11	32	---	---	---	---	PASS	C	9453519	C	C	9453519	2	2	155	1	0	0	0	0	0	0	0	1	17987	204	8	5		5	ZNF559	19	9453519	Silent	SNP	A	TCGA-66-2771-01A-01D-0983-08	365053	9453519	49675464	265	55228										
FBXW9	84261	broad.mit.edu	37	chr19	12807343	12807343	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ctgtctctgactctgggtccGagtcatcgtcccaggtgcgg	13	13	3	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:12807343G>C	uc010dyx.2	-	1	53	c.53C>G	c.(52-54)TCG>TGG	p.S18W	FBXW9_uc010xmp.1_RNA|FBXW9_uc002mum.1_Missense_Mutation_p.S18W|FBXW9_uc002mun.1_5'UTR	NM_032301	NP_115677	Q5XUX1	FBXW9_HUMAN	F-box and WD-40 domain protein 9	18							protein binding			ovary(1)	1						CTCTGGGTCCGAGTCATCGTC	0.677													3	38	---	---	---	---	PASS	C	12807343	C	C	12807343	3	2	155	1	0	0	0	0	1	0	0	0	5771	1059	37	2	1363	2	FBXW9	19	12807343	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	3353824	12807343	46321640	266	55229										
KCNN1	3780	broad.mit.edu	37	chr19	18092701	18092701	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tggccgaggccgacgtggacGtgctgctgtccatccccatg	14	14	0	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:18092701G>T	uc002nht.2	+	5	992	c.682G>T	c.(682-684)GTG>TTG	p.V228L	KCNN1_uc010xqa.1_Missense_Mutation_p.V228L	NM_002248	NP_002239	Q92952	KCNN1_HUMAN	potassium intermediate/small conductance	228	Helical; Name=Segment S4; (Potential).				synaptic transmission	voltage-gated potassium channel complex	calmodulin binding|small conductance calcium-activated potassium channel activity				0						CGACGTGGACGTGCTGCTGTC	0.672													4	15	---	---	---	---	PASS	T	18092701	T	T	18092701	3	4	155	1	0	0	0	0	1	0	0	0	8078	1145	40	1	692	1	KCNN1	19	18092701	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	5285358	18092701	41036282	267	55230										
ZNF536	9745	broad.mit.edu	37	chr19	31038893	31038893	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cactgtgactatgccggcacGcagtcagcatccttaaaata	8	12	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:31038893G>A	uc002nsu.1	+	4	2505	c.2367G>A	c.(2365-2367)ACG>ACA	p.T789T	ZNF536_uc010edd.1_Silent_p.T789T	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	789	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					ATGCCGGCACGCAGTCAGCAT	0.507													6	58	---	---	---	---	PASS	A	31038893	A	A	31038893	2	1	155	1	0	0	0	0	0	0	0	1	17971	1074	38	1		1	ZNF536	19	31038893	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	12946192	31038893	28090090	268	55231										
DPY19L3	147991	broad.mit.edu	37	chr19	32971362	32971362	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgcatgccctcctaaggtccTtcggcactgactacgtaatc	8	14	0	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:32971362T>A	uc002ntg.2	+	18	2064	c.1888T>A	c.(1888-1890)TTC>ATC	p.F630I	DPY19L3_uc002nth.1_Missense_Mutation_p.F630I|DPY19L3_uc002nti.1_RNA|DPY19L3_uc002ntj.1_Missense_Mutation_p.F52I	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	630						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					CCTAAGGTCCTTCGGCACTGA	0.532													8	19	---	---	---	---	PASS	A	32971362	A	A	32971362	3	1	155	1	0	0	0	0	1	0	0	0	4742	1609	56	5	1954	5	DPY19L3	19	32971362	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08	1932469	32971362	26157621	269	55232										
TMEM147	10430	broad.mit.edu	37	chr19	36037609	36037609	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agcgtggatgtggcagacctGataggtctaaaccttgtcat	12	8	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:36037609G>C	uc002oaj.1	+	4	340	c.243G>C	c.(241-243)CTG>CTC	p.L81L	uc010eec.1_5'Flank|uc002oag.2_5'Flank|TMEM147_uc002oai.1_Silent_p.L32L|TMEM147_uc002oak.1_5'UTR	NM_032635	NP_116024	Q9BVK8	TM147_HUMAN	transmembrane protein 147	81						endoplasmic reticulum membrane|integral to membrane	protein binding				0	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			TGGCAGACCTGATAGGTCTAA	0.562													12	44	---	---	---	---	PASS	C	36037609	C	C	36037609	2	2	155	1	0	0	0	0	0	0	0	1	16058	1277	45	2		2	TMEM147	19	36037609	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	3066247	36037609	23091374	270	55233										
MLL4	9757	broad.mit.edu	37	chr19	36210823	36210823	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gcacagaacggatggtgcagGcactgactgaacttctccgg	13	11	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:36210823G>T	uc010eei.2	+	3	574	c.574G>T	c.(574-576)GCA>TCA	p.A192S		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	192					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GATGGTGCAGGCACTGACTGA	0.701													4	33	---	---	---	---	PASS	T	36210823	T	T	36210823	3	4	155	1	0	0	0	0	1	0	0	0	9623	1203	42	3	584	3	MLL4	19	36210823	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	173214	36210823	22918160	271	55234										
FCGBP	8857	broad.mit.edu	37	chr19	40363021	40363021	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gcccttggaggagccgggcgCccgccatgcagccccgaagg	16	16	0	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:40363021C>A	uc002omp.3	-	32	15057	c.15049G>T	c.(15049-15051)GCG>TCG	p.A5017S		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	5017	VWFD 12.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GAGCCGGGCGCCCGCCATGCA	0.647													6	6	---	---	---	---	PASS	A	40363021	A	A	40363021	3	1	155	1	0	0	0	0	1	0	0	0	5778	739	26	3	1188	3	FCGBP	19	40363021	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	4152198	40363021	18765962	272	55235										
PSG6	5675	broad.mit.edu	37	chr19	43585368	43585368	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	caatcgtgacttgggcagtgGtgggcaggttccagaagttt	15	7	0	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:43585368G>A	uc002ovi.2	-	2	188	c.95C>T	c.(94-96)ACC>ATC	p.T32I	PSG6_uc010xwk.1_Intron|PSG2_uc002ovr.2_Missense_Mutation_p.T32I|PSG2_uc002ovq.3_Missense_Mutation_p.T32I|PSG2_uc010eiq.1_Missense_Mutation_p.T32I|PSG2_uc002ovs.3_Missense_Mutation_p.T32I|PSG2_uc002ovt.3_Missense_Mutation_p.T32I			Q00889	PSG6_HUMAN	SubName: Full=Putative uncharacterized protein PSG6;	32					female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				TTGGGCAGTGGTGGGCAGGTT	0.493													13	111	---	---	---	---	PASS	A	43585368	A	A	43585368	3	1	155	1	0	0	0	0	1	0	0	0	12659	1261	44	3		3	PSG6	19	43585368	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	3222347	43585368	15543615	273	55236										
SIGLEC6	946	broad.mit.edu	37	chr19	52034461	52034461	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atgtataaccgtatttcatcCatttggacttcaaccgaaag	6	9	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:52034461C>T	uc002pwy.2	-	2	542	c.380G>A	c.(379-381)TGG>TAG	p.W127*	SIGLEC6_uc002pwz.2_Nonsense_Mutation_p.W127*|SIGLEC6_uc002pxa.2_Nonsense_Mutation_p.W127*|SIGLEC6_uc010ydb.1_Nonsense_Mutation_p.W80*|SIGLEC6_uc010ydc.1_Nonsense_Mutation_p.W116*|SIGLEC6_uc010eoz.1_Nonsense_Mutation_p.W116*|SIGLEC6_uc010epb.1_Nonsense_Mutation_p.W80*|SIGLEC6_uc010epa.1_Nonsense_Mutation_p.W116*	NM_001245	NP_001236	O43699	SIGL6_HUMAN	sialic acid binding Ig-like lectin 6 isoform 1	127	Extracellular (Potential).				cell adhesion|cell-cell signaling	cytoplasm|extracellular region|integral to plasma membrane|membrane fraction|nucleus				ovary(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00115)|OV - Ovarian serous cystadenocarcinoma(262;0.0165)		GTATTTCATCCATTTGGACTT	0.537													14	74	---	---	---	---	PASS	T	52034461	T	T	52034461	4	4	155	1	0	0	0	0	0	1	0	0	14312	595	21	3	1042	3	SIGLEC6	19	52034461	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	8449093	52034461	7094522	274	55237										
ZNF761	388561	broad.mit.edu	37	chr19	53959080	53959080	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tgaagacaatgcttacaagtGtaatgagtgtggaaagacct	11	5	0	4			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:53959080G>C	uc010eqp.2	+	7	1777	c.1319G>C	c.(1318-1320)TGT>TCT	p.C440S	ZNF761_uc010ydy.1_Missense_Mutation_p.C386S|ZNF761_uc002qbt.1_Missense_Mutation_p.C386S	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	440	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		GCTTACAAGTGTAATGAGTGT	0.378													23	87	---	---	---	---	PASS	C	53959080	C	C	53959080	3	2	155	1	0	0	0	0	1	0	0	0	18133	1377	48	4	1330	4	ZNF761	19	53959080	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	1924619	53959080	5169903	275	55238										
ZNF813	126017	broad.mit.edu	37	chr19	53994939	53994939	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaatttcagccctcgtaattCatacggcaattcatactgga	7	10	3	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:53994939C>G	uc002qbu.2	+	4	1581	c.1453C>G	c.(1453-1455)CAT>GAT	p.H485D	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	485	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		CCTCGTAATTCATACGGCAAT	0.398													7	41	---	---	---	---	PASS	G	53994939	G	G	53994939	3	3	155	1	0	0	0	0	1	0	0	0	18172	826	29	2	1463	2	ZNF813	19	53994939	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	35859	53994939	5134044	276	55239										
CNOT3	4849	broad.mit.edu	37	chr19	54657541	54657541	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atgatgtggttccagaggcaCgaggagcccaagaccatcac	12	11	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:54657541C>G	uc002qdj.1	+	17	2438	c.2127C>G	c.(2125-2127)CAC>CAG	p.H709Q	CNOT3_uc010yel.1_3'UTR|CNOT3_uc002qdi.2_3'UTR|CNOT3_uc002qdk.1_Missense_Mutation_p.H709Q|CNOT3_uc010ere.1_RNA|CNOT3_uc002qdl.2_Missense_Mutation_p.H164Q	NM_014516	NP_055331	O75175	CNOT3_HUMAN	CCR4-NOT transcription complex, subunit 3	709					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					TCCAGAGGCACGAGGAGCCCA	0.602													4	77	---	---	---	---	PASS	G	54657541	G	G	54657541	3	3	155	1	0	0	0	0	1	0	0	0	3620	535	19	4	2189	4	CNOT3	19	54657541	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	662602	54657541	4471442	277	55240										
ZFP28	140612	broad.mit.edu	37	chr19	57065985	57065985	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttgccagtcatttaaggattCatactggggagaagcctttt	10	7	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:57065985C>T	uc002qnj.2	+	8	1902	c.1831C>T	c.(1831-1833)CAT>TAT	p.H611Y	uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	611	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		TTTAAGGATTCATACTGGGGA	0.428													5	94	---	---	---	---	PASS	T	57065985	T	T	57065985	3	4	155	1	0	0	0	0	1	0	0	0	17639	826	29	2	1861	2	ZFP28	19	57065985	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	2408444	57065985	2062998	278	55241										
ZIM2	23619	broad.mit.edu	37	chr19	57293432	57293432	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaagtccacaagcacatcctCgaaggtcaccaactcctcaa	6	15	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:57293432C>G	uc002qnr.2	-	9	917	c.535G>C	c.(535-537)GAG>CAG	p.E179Q	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_5'UTR|ZIM2_uc010ygr.1_5'UTR|ZIM2_uc002qnq.2_Missense_Mutation_p.E179Q|ZIM2_uc010etp.2_Missense_Mutation_p.E179Q|ZIM2_uc010ygs.1_Missense_Mutation_p.E179Q	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	179	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		AGCACATCCTCGAAGGTCACC	0.498													7	159	---	---	---	---	PASS	G	57293432	G	G	57293432	3	3	155	1	0	0	0	0	1	0	0	0	17681	893	31	2	1060	2	ZIM2	19	57293432	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	227447	57293432	1835551	279	55242										
VN1R1	57191	broad.mit.edu	37	chr19	57967431	57967431	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aatggcttggaatccattgaGaaggcagatggtgctgaggg	16	5	0	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr19:57967431G>T	uc002qos.1	-	1	424	c.424C>A	c.(424-426)CTC>ATC	p.L142I	ZNF547_uc002qpm.3_Intron	NM_020633	NP_065684	Q9GZP7	VN1R1_HUMAN	vomeronasal 1 receptor 1	142	Helical; Name=3; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)|Breast(46;0.222)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)|Lung(386;0.171)		AATCCATTGAGAAGGCAGATG	0.428													9	48	---	---	---	---	PASS	T	57967431	T	T	57967431	3	4	155	1	0	0	0	0	1	0	0	0	17175	942	33	2	641	2	VN1R1	19	57967431	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	673999	57967431	1161552	280	55243										
TMC2	117532	broad.mit.edu	37	chr20	2591070	2591070	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttcctgattcctcaggtagaGatcgtgatgtccctgcttgg	11	10	1	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr20:2591070G>C	uc002wgf.1	+	12	1434	c.1419G>C	c.(1417-1419)GAG>GAC	p.E473D	TMC2_uc002wgg.1_Missense_Mutation_p.E457D|TMC2_uc010zpw.1_Missense_Mutation_p.E305D|TMC2_uc010zpx.1_Missense_Mutation_p.E304D	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	473	Extracellular (Potential).					integral to membrane				ovary(3)	3						CTCAGGTAGAGATCGTGATGT	0.512													4	101	---	---	---	---	PASS	C	2591070	C	C	2591070	3	2	155	1	0	0	0	0	1	0	0	0	15982	933	33	2	1465	2	TMC2	20	2591070	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08		2591070	60434450	281	55244										
CDH26	60437	broad.mit.edu	37	chr20	58545157	58545157	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gaaaagatctaccagcctctAcggcgatccaagagaagatg	10	10	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr20:58545157A>T	uc002ybe.2	+	3	447	c.147A>T	c.(145-147)CTA>CTT	p.L49L	CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	49	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			ACCAGCCTCTACGGCGATCCA	0.502													22	60	---	---	---	---	PASS	T	58545157	T	T	58545157	2	4	155	1	0	0	0	0	0	0	0	1	3110	378	14	5		5	CDH26	20	58545157	Silent	SNP	A	TCGA-66-2771-01A-01D-0983-08	55954087	58545157	4480363	282	55245										
NRIP1	8204	broad.mit.edu	37	chr21	16337633	16337633	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atttttgtgtcctttcttttTactgtcagccacagagttac	6	9	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr21:16337633T>C	uc002yjx.2	-	4	3479	c.2881A>G	c.(2881-2883)AAA>GAA	p.K961E		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	961					androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		CCTTTCTTTTTACTGTCAGCC	0.418													12	43	---	---	---	---	PASS	C	16337633	C	C	16337633	3	2	155	1	0	0	0	0	1	0	0	0	10652	1763	61	5	599	5	NRIP1	21	16337633	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08		16337633	31792262	283	55246										
KRTAP27-1	643812	broad.mit.edu	37	chr21	31709628	31709628	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	caaaacccatctgctgagtgCtttctgattggcaaggctga	10	10	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr21:31709628C>G	uc002ynx.1	-	1	385	c.359G>C	c.(358-360)AGC>ACC	p.S120T		NM_001077711	NP_001071179	Q3LI81	KR271_HUMAN	keratin associated protein 27-1	120						intermediate filament				ovary(2)	2						CTGCTGAGTGCTTTCTGATTG	0.493													9	129	---	---	---	---	PASS	G	31709628	G	G	31709628	3	3	155	1	0	0	0	0	1	0	0	0	8544	797	28	4	268	4	KRTAP27-1	21	31709628	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	15371995	31709628	16420267	284	55247										
KCNJ6	3763	broad.mit.edu	37	chr21	39086590	39086590	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	agctgggctttggagatctcCcagaaaggactctgttggtt	13	8	2	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr21:39086590C>A	uc011aej.1	-	3	923	c.870G>T	c.(868-870)TGG>TGT	p.W290C	KCNJ6_uc002ywo.2_Missense_Mutation_p.W290C	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	290	Cytoplasmic (By similarity).				synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	TGGAGATCTCCCAGAAAGGAC	0.483													5	99	---	---	---	---	PASS	A	39086590	A	A	39086590	3	1	155	1	0	0	0	0	1	0	0	0	8055	624	22	3	409	3	KCNJ6	21	39086590	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	7376962	39086590	9043305	285	55248										
POFUT2	23275	broad.mit.edu	37	chr21	46702293	46702293	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gtgtttctcagcagcaggggCgccacgatggaggctgagcc	16	11	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr21:46702293C>G	uc002zhc.2	-	4	634	c.609G>C	c.(607-609)GCG>GCC	p.A203A	POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Silent_p.A203A|POFUT2_uc011afp.1_Silent_p.A203A	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	203					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)		GCAGCAGGGGCGCCACGATGG	0.632													8	17	---	---	---	---	PASS	G	46702293	G	G	46702293	2	3	155	1	0	0	0	0	0	0	0	1	12184	755	27	4		4	POFUT2	21	46702293	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	7615703	46702293	1427602	286	55249										
SFI1	9814	broad.mit.edu	37	chr22	31927072	31927072	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ccagaaagttcttatatttaTggattcgaatgacttttgga	8	5	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr22:31927072T>C	uc003ale.2	+	4	688	c.295T>C	c.(295-297)TGG>CGG	p.W99R	SFI1_uc003ald.1_Intron|SFI1_uc003alf.2_Missense_Mutation_p.W99R|SFI1_uc003alg.2_Intron|SFI1_uc011alp.1_Intron|SFI1_uc011alq.1_Intron|SFI1_uc003alh.2_Intron	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	99					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						CTTATATTTATGGATTCGAAT	0.338													15	35	---	---	---	---	PASS	C	31927072	C	C	31927072	3	2	155	1	0	0	0	0	1	0	0	0	14156	1464	51	5	305	5	SFI1	22	31927072	Missense_Mutation	SNP	T	TCGA-66-2771-01A-01D-0983-08		31927072	19377494	287	55250										
SMC1B	27127	broad.mit.edu	37	chr22	45768156	45768156	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tcaaatctgtttctttgcggAgtgtcttcattaaaccctaa	6	9	5	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chr22:45768156A>T	uc003bgc.2	-	13	2127	c.2075T>A	c.(2074-2076)CTC>CAC	p.L692H	SMC1B_uc003bgd.2_Missense_Mutation_p.L692H|SMC1B_uc003bge.1_Missense_Mutation_p.L475H	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	692	Potential.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TTCTTTGCGGAGTGTCTTCAT	0.318													6	17	---	---	---	---	PASS	T	45768156	T	T	45768156	3	4	155	1	0	0	0	0	1	0	0	0	14782	304	11	5	1684	5	SMC1B	22	45768156	Missense_Mutation	SNP	A	TCGA-66-2771-01A-01D-0983-08	13841084	45768156	5536410	288	55251										
BMX	660	broad.mit.edu	37	chrX	15565027	15565027	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cttcaaatacagcagcaagtCagacgtatgggcatttggta	10	8	2	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:15565027C>T	uc004cww.2	+	17	1966	c.1778C>T	c.(1777-1779)TCA>TTA	p.S593L	BMX_uc004cwx.3_Missense_Mutation_p.S593L|BMX_uc004cwy.3_Missense_Mutation_p.S593L	NM_203281	NP_975010	P51813	BMX_HUMAN	BMX non-receptor tyrosine kinase	593	Protein kinase.				cellular component disassembly involved in apoptosis|intracellular signal transduction|mesoderm development	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(3)|ovary(2)	5	Hepatocellular(33;0.183)					AGCAGCAAGTCAGACGTATGG	0.448													10	45	---	---	---	---	PASS	T	15565027	T	T	15565027	3	4	155	1	0	0	0	0	1	0	0	0	1473	838	29	2	1840	2	BMX	23	15565027	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08		15565027	139705533	289	55252										
ZFX	7543	broad.mit.edu	37	chrX	24197618	24197618	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	ttctgacattacttcagcctCaatgtctatgccagaacacg	6	12	4	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:24197618C>A	uc004dbf.2	+	4	635	c.377C>A	c.(376-378)TCA>TAA	p.S126*	ZFX_uc004dbd.1_Nonsense_Mutation_p.S126*|ZFX_uc010nfx.1_Intron|ZFX_uc004dbe.2_Nonsense_Mutation_p.S126*|ZFX_uc011mjv.1_Nonsense_Mutation_p.S165*|ZFX_uc010nfy.1_Nonsense_Mutation_p.S126*	NM_003410	NP_003401	P17010	ZFX_HUMAN	zinc finger protein, X-linked	126					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(2)	2						ACTTCAGCCTCAATGTCTATG	0.348													15	88	---	---	---	---	PASS	A	24197618	A	A	24197618	4	1	155	1	0	0	0	0	0	1	0	0	17658	838	29	2	383	2	ZFX	23	24197618	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	8632591	24197618	131072942	290	55253										
FTSJ1	24140	broad.mit.edu	37	chrX	48340063	48340063	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tatgaccctcccgagggcttCatcccggacctgagcaaacc	9	16	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:48340063C>T	uc004djo.1	+	9	938	c.615C>T	c.(613-615)TTC>TTT	p.F205F	FTSJ1_uc004djl.2_Silent_p.F205F|FTSJ1_uc004djm.2_Silent_p.F205F|FTSJ1_uc004djn.1_Silent_p.F205F|FTSJ1_uc004djp.1_Silent_p.F205F|FTSJ1_uc011mlw.1_Silent_p.F68F	NM_012280	NP_036412	Q9UET6	RRMJ1_HUMAN	FtsJ homolog 1 isoform a	205					RNA methylation|rRNA processing		methyltransferase activity|nucleic acid binding				0						CCGAGGGCTTCATCCCGGACC	0.622													6	4	---	---	---	---	PASS	T	48340063	T	T	48340063	2	4	155	1	0	0	0	0	0	0	0	1	6087	825	29	2		2	FTSJ1	23	48340063	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	24142445	48340063	106930497	291	55254										
TRO	7216	broad.mit.edu	37	chrX	54957228	54957228	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cccagcaccagcacgggcttCagtagtggacccagttctat	10	14	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:54957228C>T	uc004dtq.2	+	12	4178	c.4071C>T	c.(4069-4071)TTC>TTT	p.F1357F	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_RNA|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Silent_p.F888F|TRO_uc004dtw.2_Silent_p.F960F|TRO_uc004dtx.2_Silent_p.F740F	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	1357	55; approximate.|62 X 10 AA approximate tandem repeats.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GCACGGGCTTCAGTAGTGGAC	0.567													18	24	---	---	---	---	PASS	T	54957228	T	T	54957228	2	4	155	1	0	0	0	0	0	0	0	1	16571	825	29	2		2	TRO	23	54957228	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	6617165	54957228	100313332	292	55255										
HEPH	9843	broad.mit.edu	37	chrX	65417698	65417698	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	gcctggtgggcccgctgctgGtgtgcagggctggtgccttg	19	11	0	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:65417698G>A	uc011moz.1	+	10	1744	c.1684G>A	c.(1684-1686)GTG>ATG	p.V562M	HEPH_uc004dwn.2_Missense_Mutation_p.V562M|HEPH_uc004dwo.2_Missense_Mutation_p.V292M|HEPH_uc010nkr.2_Intron|HEPH_uc011mpa.1_Missense_Mutation_p.V562M	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	559	Extracellular (Potential).|Plastocyanin-like 3.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						CCCGCTGCTGGTGTGCAGGGC	0.567													6	4	---	---	---	---	PASS	A	65417698	A	A	65417698	3	1	155	1	0	0	0	0	1	0	0	0	7054	1261	44	3	1875	3	HEPH	23	65417698	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	10460470	65417698	89852862	293	55256										
KIF4A	24137	broad.mit.edu	37	chrX	69561758	69561758	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aggcagctggtcagacagccCagatgttggagaggatcatt	14	8	2	3			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:69561758C>T	uc004dyg.2	+	11	1370	c.1243C>T	c.(1243-1245)CAG>TAG	p.Q415*	KIF4A_uc010nkw.2_Nonsense_Mutation_p.Q415*|KIF4A_uc004dyf.1_Nonsense_Mutation_p.Q415*	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	415	Potential.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						TCAGACAGCCCAGATGTTGGA	0.418													5	56	---	---	---	---	PASS	T	69561758	T	T	69561758	4	4	155	1	0	0	0	0	0	1	0	0	8303	595	21	3	1281	3	KIF4A	23	69561758	Nonsense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	4144060	69561758	85708802	294	55257										
ZCCHC13	389874	broad.mit.edu	37	chrX	73524496	73524496	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	cgcccaggtcaagtgttaccGatgcggcgagattggccacg	14	12	1	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:73524496G>A	uc004ebs.3	+	1	472	c.395G>A	c.(394-396)CGA>CAA	p.R132Q		NM_203303	NP_976048	Q8WW36	ZCH13_HUMAN	zinc finger, CCHC domain containing 13	132	CCHC-type 6.						nucleic acid binding|zinc ion binding				0						AAGTGTTACCGATGCGGCGAG	0.552													13	16	---	---	---	---	PASS	A	73524496	A	A	73524496	3	1	155	1	0	0	0	0	1	0	0	0	17579	1058	37	2	397	2	ZCCHC13	23	73524496	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	3962738	73524496	81746064	295	55258										
TBX22	50945	broad.mit.edu	37	chrX	79286003	79286003	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	attgtcattcacaggtggaaGcagtggctcatctccagtga	11	9	4	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:79286003G>A	uc010nmg.1	+	9	1090	c.956G>A	c.(955-957)AGC>AAC	p.S319N	TBX22_uc004edi.1_Missense_Mutation_p.S199N|TBX22_uc004edj.1_Missense_Mutation_p.S319N	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	319					multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						ACAGGTGGAAGCAGTGGCTCA	0.423													9	22	---	---	---	---	PASS	A	79286003	A	A	79286003	3	1	155	1	0	0	0	0	1	0	0	0	15655	971	34	3	986	3	TBX22	23	79286003	Missense_Mutation	SNP	G	TCGA-66-2771-01A-01D-0983-08	5761507	79286003	75984557	296	55259										
DCAF12L1	139170	broad.mit.edu	37	chrX	125685932	125685932	+	Frame_Shift_Del	DEL	C	-	-													0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	aacttgtccgggtccatccgCcacagcgccacagtgccgtc							TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:125685932delC	uc004eul.2	-	1	911	c.660delG	c.(658-660)TGGfs	p.W220fs		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	220	WD 2.									skin(3)|ovary(1)	4						GGTCCATCCGCCACAGCGCCA	0.652													12	8	---	---	---	---		-	125685932	-	-	125685932	7	5	155	1	0	1	0	1	0	0	0	0	4264	740	26	0	735	0	DCAF12L1	23	125685932	Frame_Shift_Del	DEL	C	TCGA-66-2771-01A-01D-0983-08	46399929	125685932	29584628	297	55260										
OCRL	4952	broad.mit.edu	37	chrX	128709224	128709224	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	tccttagaactcagcaggagGgaggtgagcaaaaatacatg	12	7	1	2			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:128709224G>A	uc004euq.2	+	16	1875	c.1710G>A	c.(1708-1710)AGG>AGA	p.R570R	OCRL_uc004eur.2_Silent_p.R570R	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	570					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TCAGCAGGAGGGAGGTGAGCA	0.403													12	11	---	---	---	---	PASS	A	128709224	A	A	128709224	2	1	155	1	0	0	0	0	0	0	0	1	10823	1223	43	3		3	OCRL	23	128709224	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	3023292	128709224	26561336	298	55261										
ELF4	2000	broad.mit.edu	37	chrX	129203604	129203604	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atctccttaaactggtacacCagcctctgcccttccacttt	4	16	2	0			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:129203604C>A	uc004evd.3	-	8	1243	c.858G>T	c.(856-858)CTG>CTT	p.L286L	ELF4_uc004eve.3_Silent_p.L286L	NM_001421	NP_001412	Q99607	ELF4_HUMAN	E74-like factor 4	286	ETS.				natural killer cell proliferation|NK T cell proliferation|positive regulation of transcription from RNA polymerase II promoter	PML body	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ACTGGTACACCAGCCTCTGCC	0.577			T	ERG	AML								4	31	---	---	---	---	PASS	A	129203604	A	A	129203604	2	1	155	1	0	0	0	0	0	0	0	1	5056	581	21	3		3	ELF4	23	129203604	Silent	SNP	C	TCGA-66-2771-01A-01D-0983-08	494380	129203604	26066956	299	55262										
ENOX2	10495	broad.mit.edu	37	chrX	129790626	129790626	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	acatttccatttcttcttctCgcctgattcccattaattca	2	13	4	1			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:129790626C>A	uc004evw.2	-	11	1563	c.1145G>T	c.(1144-1146)CGA>CTA	p.R382L	ENOX2_uc004evx.2_Missense_Mutation_p.R353L|ENOX2_uc004evy.2_Missense_Mutation_p.R353L|ENOX2_uc004evv.2_Missense_Mutation_p.R209L	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	382	Potential.				cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						TTCTTCTTCTCGCCTGATTCC	0.313													3	40	---	---	---	---	PASS	A	129790626	A	A	129790626	3	1	155	1	0	0	0	0	1	0	0	0	5127	884	31	2	711	2	ENOX2	23	129790626	Missense_Mutation	SNP	C	TCGA-66-2771-01A-01D-0983-08	587022	129790626	25479934	300	55263										
MAGEC1	9947	broad.mit.edu	37	chrX	140996085	140996085	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.231543624161074	69	2.54984072740814e-18	3.11833153904299	3.59135381114903	2.79944011964566	0.523283977259357	0.82697557120452	47	atactttttggcatttccctGagagaagtggaccctgatga	10	8	0	4			TCGA-66-2771-01A-01D-0983-08	TCGA-66-2771-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	58c73372-223f-400a-a2df-073a78c58b62	1c33d8c0-dd62-474a-8047-4cd4410deafe	g.chrX:140996085G>A	uc004fbt.2	+	4	3181	c.2895G>A	c.(2893-2895)CTG>CTA	p.L965L	MAGEC1_uc010nsl.1_Silent_p.L32L	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	965	MAGE.						protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GCATTTCCCTGAGAGAAGTGG	0.498										HNSCC(15;0.026)			7	81	---	---	---	---	PASS	A	140996085	A	A	140996085	2	1	155	1	0	0	0	0	0	0	0	1	9180	1277	45	2		2	MAGEC1	23	140996085	Silent	SNP	G	TCGA-66-2771-01A-01D-0983-08	11205459	140996085	14274475	301	55264										
CDK11A	728642	broad.mit.edu	37	chr1	1635743	1635743	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cagttgtcgtgcaggtgtttCaccccccgcagcagctggat	12	13	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:1635743C>T	uc009vks.2	-	15	1713	c.1605G>A	c.(1603-1605)GTG>GTA	p.V535V	CDK11B_uc001ags.1_Intron|CDK11B_uc001agt.1_Intron|CDK11B_uc001aha.1_Intron|CDK11B_uc001agw.1_Intron|CDK11B_uc001agv.1_Intron|CDK11B_uc001agy.1_Intron|CDK11B_uc001agx.1_Intron|CDK11B_uc001agz.1_Intron|SLC35E2B_uc001ahh.3_Intron|SLC35E2_uc009vkm.1_Intron|CDK11A_uc001ahj.3_Silent_p.V42V|CDK11A_uc009vkp.2_Silent_p.V152V|CDK11A_uc009vkq.2_RNA|CDK11A_uc009vkr.2_Silent_p.V525V|CDK11A_uc010nys.1_3'UTR	NM_024011	NP_076916	Q9UQ88	CD11A_HUMAN	cell division cycle 2-like 2 isoform 1	538	Protein kinase.				apoptosis|mitosis|regulation of cell growth|regulation of mRNA processing|regulation of transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity|protein binding			stomach(1)	1						GCAGGTGTTTCACCCCCCGCA	0.662													14	77	---	---	---	---	PASS	T	1635743	T	T	1635743	2	4	156	1	0	0	0	0	0	0	0	1	3126	813	29	2		2	CDK11A	1	1635743	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08		1635743	247614878	1	55265										
SKI	6497	broad.mit.edu	37	chr1	2160703	2160703	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atcctcaaagtcatgggcatCctgcccttctcggcgccctc	8	17	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:2160703C>A	uc001aja.3	+	1	570	c.498C>A	c.(496-498)ATC>ATA	p.I166I		NM_003036	NP_003027	P12755	SKI_HUMAN	v-ski sarcoma viral oncogene homolog	166					anterior/posterior axis specification|BMP signaling pathway|bone morphogenesis|cell motility|cell proliferation|embryonic limb morphogenesis|face morphogenesis|lens morphogenesis in camera-type eye|myelination in peripheral nervous system|myotube differentiation|negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of fibroblast proliferation|negative regulation of osteoblast differentiation|negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|neural tube closure|nose morphogenesis|olfactory bulb development|palate development|positive regulation of DNA binding|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|protein homotrimerization|regulation of apoptosis|retina development in camera-type eye|skeletal muscle fiber development|SMAD protein signal transduction|somatic stem cell maintenance|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|PML body|transcription factor complex|transcriptional repressor complex	histone deacetylase inhibitor activity|nucleotide binding|protein domain specific binding|protein kinase binding|repressing transcription factor binding|SMAD binding|transcription corepressor activity|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(77;0.000139)|all_epithelial(69;4.45e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)			Epithelial(90;2.14e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.72e-29)|GBM - Glioblastoma multiforme(42;2.45e-08)|Colorectal(212;5.33e-05)|COAD - Colon adenocarcinoma(227;0.000228)|Kidney(185;0.00268)|BRCA - Breast invasive adenocarcinoma(365;0.00471)|STAD - Stomach adenocarcinoma(132;0.0147)|KIRC - Kidney renal clear cell carcinoma(229;0.0385)|Lung(427;0.207)		TCATGGGCATCCTGCCCTTCT	0.667													4	12	---	---	---	---	PASS	A	2160703	A	A	2160703	2	1	156	1	0	0	0	0	0	0	0	1	14357	845	30	2		2	SKI	1	2160703	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	524960	2160703	247089918	2	55266										
AJAP1	55966	broad.mit.edu	37	chr1	4772184	4772184	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtggagcccccggccgccccGagtggagcggatccacgggc	17	16	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:4772184G>A	uc001alm.1	+	2	635	c.254G>A	c.(253-255)CGA>CAA	p.R85Q	AJAP1_uc001aln.2_Missense_Mutation_p.R85Q	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	85	Extracellular (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		CGGCCGCCCCGAGTGGAGCGG	0.627													9	13	---	---	---	---	PASS	A	4772184	A	A	4772184	3	1	156	1	0	0	0	0	1	0	0	0	438	1058	37	2	260	2	AJAP1	1	4772184	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2611481	4772184	244478437	3	55267										
KIF1B	23095	broad.mit.edu	37	chr1	10425617	10425617	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agatctcaaccactacctttGaaagcgccatcacacctagc	5	15	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:10425617G>A	uc001aqx.3	+	43	4865	c.4663G>A	c.(4663-4665)GAA>AAA	p.E1555K	KIF1B_uc001aqw.3_Missense_Mutation_p.E1509K|KIF1B_uc001aqy.2_Missense_Mutation_p.E1529K|KIF1B_uc001aqz.2_Missense_Mutation_p.E1555K|KIF1B_uc001ara.2_Missense_Mutation_p.E1515K|KIF1B_uc001arb.2_Missense_Mutation_p.E1541K	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1555					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		CACTACCTTTGAAAGCGCCAT	0.552													14	194	---	---	---	---	PASS	A	10425617	A	A	10425617	3	1	156	1	0	0	0	0	1	0	0	0	8284	1291	45	2	6172	2	KIF1B	1	10425617	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5653433	10425617	238825004	4	55268										
KIF1B	23095	broad.mit.edu	37	chr1	10431296	10431296	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctgtccctctctggtagactCtaggagcaactctctggatc	9	13	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:10431296C>G	uc001aqx.3	+	45	5124	c.4922C>G	c.(4921-4923)TCT>TGT	p.S1641C	KIF1B_uc001aqw.3_Missense_Mutation_p.S1595C|KIF1B_uc001aqy.2_Missense_Mutation_p.S1615C|KIF1B_uc001aqz.2_Missense_Mutation_p.S1641C|KIF1B_uc001ara.2_Missense_Mutation_p.S1601C|KIF1B_uc001arb.2_Missense_Mutation_p.S1627C	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1641					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		CTGGTAGACTCTAGGAGCAAC	0.473													7	110	---	---	---	---	PASS	G	10431296	G	G	10431296	3	3	156	1	0	0	0	0	1	0	0	0	8284	913	32	2	6439	2	KIF1B	1	10431296	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	5679	10431296	238819325	5	55269										
PLOD1	5351	broad.mit.edu	37	chr1	12017937	12017937	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggcaactacatcccgcgcttCtggaccttcgaaacaggctg	10	14	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:12017937C>T	uc001atm.2	+	8	871	c.780C>T	c.(778-780)TTC>TTT	p.F260F	PLOD1_uc010obb.1_Silent_p.F307F	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	260					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	TCCCGCGCTTCTGGACCTTCG	0.637													75	276	---	---	---	---	PASS	T	12017937	T	T	12017937	2	4	156	1	0	0	0	0	0	0	0	1	12101	912	32	2		2	PLOD1	1	12017937	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1586641	12017937	237232684	6	55270										
SDHB	6390	broad.mit.edu	37	chr1	17359560	17359560	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaatgaaatgctcaccttctCtgcatgatcttcggaaggtc	9	10	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:17359560C>G	uc001bae.2	-	3	432	c.281G>C	c.(280-282)AGA>ACA	p.R94T		NM_003000	NP_002991	P21912	DHSB_HUMAN	succinate dehydrogenase complex, subunit B, iron	94	2Fe-2S ferredoxin-type.				respiratory electron transport chain|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	2 iron, 2 sulfur cluster binding|3 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|protein binding|succinate dehydrogenase (ubiquinone) activity|ubiquinone binding			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0049)|COAD - Colon adenocarcinoma(227;1.18e-05)|BRCA - Breast invasive adenocarcinoma(304;2.41e-05)|Kidney(64;0.000188)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)	Succinic acid(DB00139)	CTCACCTTCTCTGCATGATCT	0.433			Mis|N|F			paraganglioma|pheochromocytoma			Familial_Paragangliomas|Carney-Stratakis_syndrome|Cowden_syndrome				4	35	---	---	---	---	PASS	G	17359560	G	G	17359560	3	3	156	1	0	0	0	0	1	0	0	0	13965	913	32	2	585	2	SDHB	1	17359560	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	5341623	17359560	231891061	7	55271										
SDHB	6390	broad.mit.edu	37	chr1	17371320	17371320	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agccttgtctgggtcccatcGatagatggcaaatttcttga	10	9	2	2	rs74315370		TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:17371320G>A	uc001bae.2	-	2	287	c.136C>T	c.(136-138)CGA>TGA	p.R46*		NM_003000	NP_002991	P21912	DHSB_HUMAN	succinate dehydrogenase complex, subunit B, iron	46	2Fe-2S ferredoxin-type.		R -> Q (in pheochromocytoma and PGL4).|R -> G (in pheochromocytoma).		respiratory electron transport chain|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	2 iron, 2 sulfur cluster binding|3 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|protein binding|succinate dehydrogenase (ubiquinone) activity|ubiquinone binding			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0049)|COAD - Colon adenocarcinoma(227;1.18e-05)|BRCA - Breast invasive adenocarcinoma(304;2.41e-05)|Kidney(64;0.000188)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)	Succinic acid(DB00139)	GGGTCCCATCGATAGATGGCA	0.438			Mis|N|F			paraganglioma|pheochromocytoma			Familial_Paragangliomas|Carney-Stratakis_syndrome|Cowden_syndrome				6	126	---	---	---	---	PASS	A	17371320	A	A	17371320	4	1	156	1	0	0	0	0	0	1	0	0	13965	1066	37	2	734	2	SDHB	1	17371320	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	11760	17371320	231879301	8	55272										
HEYL	26508	broad.mit.edu	37	chr1	40092476	40092476	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agcacattcctccgggctggCaggatgatgcctgtggctct	13	12	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:40092476C>A	uc001cdp.2	-	5	741	c.690G>T	c.(688-690)CTG>CTT	p.L230L	HEYL_uc010oiw.1_Silent_p.L202L	NM_014571	NP_055386	Q9NQ87	HEYL_HUMAN	hairy/enhancer-of-split related with YRPW	230	Pro-rich.				multicellular organismal development|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.1e-18)|Epithelial(16;2.77e-17)|all cancers(16;5.64e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TCCGGGCTGGCAGGATGATGC	0.687													6	3	---	---	---	---	PASS	A	40092476	A	A	40092476	2	1	156	1	0	0	0	0	0	0	0	1	7080	697	25	3		3	HEYL	1	40092476	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	22721156	40092476	209158145	9	55273										
EFCAB7	84455	broad.mit.edu	37	chr1	64034100	64034100	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgtaaatctgttcttagcaaCggtgatgccaaagtaatgga	10	6	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:64034100C>T	uc001dbf.2	+	12	1911	c.1617C>T	c.(1615-1617)AAC>AAT	p.N539N		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	539							calcium ion binding				0						TTCTTAGCAACGGTGATGCCA	0.368													7	139	---	---	---	---	PASS	T	64034100	T	T	64034100	2	4	156	1	0	0	0	0	0	0	0	1	4940	535	19	1		1	EFCAB7	1	64034100	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	23941624	64034100	185216521	10	55274										
SGIP1	84251	broad.mit.edu	37	chr1	67185068	67185068	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaaacagtcaatgcctatttCaaaggagcagacccaagcaa	8	10	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:67185068C>T	uc001dcr.2	+	19	1939	c.1722C>T	c.(1720-1722)TTC>TTT	p.F574F	SGIP1_uc010opd.1_Silent_p.F174F|SGIP1_uc001dcs.2_Silent_p.F174F|SGIP1_uc001dct.2_Silent_p.F176F|SGIP1_uc009wat.2_Silent_p.F368F|SGIP1_uc001dcu.2_Silent_p.F79F	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	574					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						ATGCCTATTTCAAAGGAGCAG	0.473													10	35	---	---	---	---	PASS	T	67185068	T	T	67185068	2	4	156	1	0	0	0	0	0	0	0	1	14206	825	29	2		2	SGIP1	1	67185068	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	3150968	67185068	182065553	11	55275										
NEXN	91624	broad.mit.edu	37	chr1	78401632	78401632	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgaaaaaattggacagttgtCtgaaaaagaaatacagaaaa	8	3	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:78401632C>G	uc001dic.3	+	11	1673	c.1376C>G	c.(1375-1377)TCT>TGT	p.S459C	NEXN_uc001dia.3_Missense_Mutation_p.S445C|NEXN_uc009wcb.1_Missense_Mutation_p.S381C|NEXN_uc001dib.3_Missense_Mutation_p.S395C|NEXN_uc001did.1_Missense_Mutation_p.S369C|NEXN_uc001dif.1_Missense_Mutation_p.S351C|NEXN_uc001dig.3_Missense_Mutation_p.S100C	NM_144573	NP_653174	Q0ZGT2	NEXN_HUMAN	nexilin (F actin binding protein)	459	Glu-rich.				regulation of cell migration|regulation of cytoskeleton organization	cytoskeleton|Z disc	actin filament binding|structural constituent of muscle			ovary(2)	2				Colorectal(170;0.114)		GGACAGTTGTCTGAAAAAGAA	0.338													23	81	---	---	---	---	PASS	G	78401632	G	G	78401632	3	3	156	1	0	0	0	0	1	0	0	0	10355	913	32	2	1414	2	NEXN	1	78401632	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	11216564	78401632	170848989	12	55276										
TTLL7	79739	broad.mit.edu	37	chr1	84372075	84372075	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaccggatcttcatgtctttGagaacaaataaggtctgact	8	8	4	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:84372075G>A	uc001djc.2	-	17	2460	c.2064C>T	c.(2062-2064)CTC>CTT	p.L688L	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_RNA|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	688					cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		TCATGTCTTTGAGAACAAATA	0.373													12	164	---	---	---	---	PASS	A	84372075	A	A	84372075	2	1	156	1	0	0	0	0	0	0	0	1	16729	1277	45	2		2	TTLL7	1	84372075	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	5970443	84372075	164878546	13	55277										
FAM40A	85369	broad.mit.edu	37	chr1	110592124	110592124	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggtgtttgccaactgcattCctttgatcctaaagttcttc	7	10	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:110592124C>A	uc001dza.1	+	17	1850	c.1831C>A	c.(1831-1833)CCT>ACT	p.P611T	FAM40A_uc001dyz.1_Missense_Mutation_p.P516T|FAM40A_uc009wfp.1_Missense_Mutation_p.P435T	NM_033088	NP_149079	Q5VSL9	FA40A_HUMAN	hypothetical protein LOC85369	611						nucleus	protein binding			ovary(3)|large_intestine(1)	4		all_cancers(81;8.51e-05)|all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0154)|all cancers(265;0.0732)|Epithelial(280;0.0781)|Colorectal(144;0.115)|LUSC - Lung squamous cell carcinoma(189;0.137)		CAACTGCATTCCTTTGATCCT	0.468													34	241	---	---	---	---	PASS	A	110592124	A	A	110592124	3	1	156	1	0	0	0	0	1	0	0	0	5560	855	30	2	1897	2	FAM40A	1	110592124	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	26220049	110592124	138658497	14	55278										
OTUD7B	56957	broad.mit.edu	37	chr1	149931639	149931639	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cattggtacctagatgcattCggggttcacttgaggcaagc	12	9	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:149931639C>T	uc001etn.2	-	7	1165	c.809G>A	c.(808-810)CGA>CAA	p.R270Q		NM_020205	NP_064590	Q6GQQ9	OTU7B_HUMAN	zinc finger protein Cezanne	270	Catalytic.|OTU.|TRAF-binding.				negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)			TAGATGCATTCGGGGTTCACT	0.527													49	285	---	---	---	---	PASS	T	149931639	T	T	149931639	3	4	156	1	0	0	0	0	1	0	0	0	11319	884	31	2	1746	2	OTUD7B	1	149931639	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	39339515	149931639	99318982	15	55279										
CTSS	1520	broad.mit.edu	37	chr1	150727507	150727507	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acttcagtaacacaccctttCtctctccagtccacagaatc	3	16	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:150727507C>G	uc001evn.2	-	4	502	c.369G>C	c.(367-369)GAG>GAC	p.E123D	CTSS_uc010pcj.1_Intron|CTSS_uc001evo.1_Missense_Mutation_p.E123D	NM_004079	NP_004070	P25774	CATS_HUMAN	cathepsin S preproprotein	123					immune response|proteolysis	extracellular region|lysosome	cysteine-type endopeptidase activity				0	all_cancers(9;6.17e-52)|all_epithelial(9;9.7e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.00146)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0485)|Epithelial(6;5.02e-21)|all cancers(9;1.28e-20)|OV - Ovarian serous cystadenocarcinoma(6;1.09e-14)|BRCA - Breast invasive adenocarcinoma(12;0.00501)|LUSC - Lung squamous cell carcinoma(543;0.171)			CACACCCTTTCTCTCTCCAGT	0.428													71	465	---	---	---	---	PASS	G	150727507	G	G	150727507	3	3	156	1	0	0	0	0	1	0	0	0	4041	912	32	2	646	2	CTSS	1	150727507	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	795868	150727507	98523114	16	55280										
FLG	2312	broad.mit.edu	37	chr1	152279632	152279632	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	accacctctcagagtcttctGagtgtccctgactgtcactg	8	14	4	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:152279632G>C	uc001ezu.1	-	3	7766	c.7730C>G	c.(7729-7731)TCA>TGA	p.S2577*		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2577	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGAGTCTTCTGAGTGTCCCTG	0.567									Ichthyosis				75	657	---	---	---	---	PASS	C	152279632	C	C	152279632	4	2	156	1	0	0	0	0	0	1	0	0	5922	1294	45	2	4459	2	FLG	1	152279632	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1552125	152279632	96970989	17	55281										
FLG	2312	broad.mit.edu	37	chr1	152280742	152280742	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagcttcatgatgatgcgacCctgagtgcctagagccatct	10	11	2	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:152280742C>G	uc001ezu.1	-	3	6656	c.6620G>C	c.(6619-6621)GGG>GCG	p.G2207A		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2207	Ser-rich.|Filaggrin 13.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATGATGCGACCCTGAGTGCCT	0.567									Ichthyosis				170	577	---	---	---	---	PASS	G	152280742	G	G	152280742	3	3	156	1	0	0	0	0	1	0	0	0	5922	623	22	4	5569	4	FLG	1	152280742	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1110	152280742	96969879	18	55282										
PYGO2	90780	broad.mit.edu	37	chr1	154933468	154933468	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttcacctgagtatttgacttCcttcgcttcttttctggact	6	11	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:154933468C>G	uc001fft.2	-	2	344	c.138G>C	c.(136-138)AGG>AGC	p.R46S		NM_138300	NP_612157	Q9BRQ0	PYGO2_HUMAN	pygopus homolog 2	46	Nuclear localization signal (Potential).|Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding|zinc ion binding			skin(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TATTTGACTTCCTTCGCTTCT	0.502													46	864	---	---	---	---	PASS	G	154933468	G	G	154933468	3	3	156	1	0	0	0	0	1	0	0	0	12864	854	30	2	1090	2	PYGO2	1	154933468	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2652726	154933468	94317153	19	55283										
CLK2	1196	broad.mit.edu	37	chr1	155240700	155240700	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cgtcgcttatgctttcggctCcgatagtgttcacggtaact	10	11	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:155240700C>G	uc001fjy.2	-	2	359	c.69G>C	c.(67-69)CGG>CGC	p.R23R	RAG1AP1_uc010pey.1_Intron|CLK2_uc001fjw.2_Silent_p.R23R|CLK2_uc001fjx.2_5'UTR|CLK2_uc009wqm.2_Silent_p.R23R	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	23						nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	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)			GCTTTCGGCTCCGATAGTGTT	0.572								Other_conserved_DNA_damage_response_genes					11	374	---	---	---	---	PASS	G	155240700	G	G	155240700	2	3	156	1	0	0	0	0	0	0	0	1	3537	842	30	2		2	CLK2	1	155240700	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	307232	155240700	94009921	20	55284										
PEAR1	375033	broad.mit.edu	37	chr1	156883063	156883063	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtgctccccaaaccccccaCcccctaacaaggtcagtgcc	6	20	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:156883063C>T	uc001fqj.1	+	19	2616	c.2500C>T	c.(2500-2502)CCC>TCC	p.P834S	PEAR1_uc001fqk.1_Missense_Mutation_p.P459S	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	834	Pro-rich.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					AAACCCCCCACCCCCTAACAA	0.607													41	354	---	---	---	---	PASS	T	156883063	T	T	156883063	3	4	156	1	0	0	0	0	1	0	0	0	11712	507	18	3	2570	3	PEAR1	1	156883063	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1642363	156883063	92367558	21	55285										
PEAR1	375033	broad.mit.edu	37	chr1	156883186	156883186	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcactgtcccctcttaggttCcaggcccgctctttgccagc	9	17	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:156883186C>G	uc001fqj.1	+	20	2631	c.2515C>G	c.(2515-2517)CCA>GCA	p.P839A	PEAR1_uc001fqk.1_Missense_Mutation_p.P464A	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	839	Pro-rich.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CTCTTAGGTTCCAGGCCCGCT	0.642													50	235	---	---	---	---	PASS	G	156883186	G	G	156883186	3	3	156	1	0	0	0	0	1	0	0	0	11712	855	30	2	2589	2	PEAR1	1	156883186	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	123	156883186	92367435	22	55286										
FCRL5	83416	broad.mit.edu	37	chr1	157504602	157504602	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggggaacctctctggacttCacagtgaagtgtcacagtgg	13	9	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:157504602C>G	uc001fqu.2	-	8	1641	c.1483G>C	c.(1483-1485)GAA>CAA	p.E495Q	FCRL5_uc009wsm.2_Missense_Mutation_p.E495Q|FCRL5_uc010phv.1_Missense_Mutation_p.E495Q|FCRL5_uc010phw.1_Missense_Mutation_p.E410Q|FCRL5_uc001fqv.1_Missense_Mutation_p.E495Q|FCRL5_uc010phx.1_Missense_Mutation_p.E246Q	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	495	Extracellular (Potential).|Ig-like C2-type 5.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				CTCTGGACTTCACAGTGAAGT	0.517													30	80	---	---	---	---	PASS	G	157504602	G	G	157504602	3	3	156	1	0	0	0	0	1	0	0	0	5798	835	29	2	1490	2	FCRL5	1	157504602	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	621416	157504602	91746019	23	55287										
SPTA1	6708	broad.mit.edu	37	chr1	158606445	158606445	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcctacctggatggcaggctCatgggccaccagctccccct	10	17	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:158606445C>T	uc001fst.1	-	37	5495	c.5296G>A	c.(5296-5298)GAG>AAG	p.E1766K		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1766	Spectrin 17.				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)					ATGGCAGGCTCATGGGCCACC	0.338													9	197	---	---	---	---	PASS	T	158606445	T	T	158606445	3	4	156	1	0	0	0	0	1	0	0	0	15115	835	29	2	2027	2	SPTA1	1	158606445	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1101843	158606445	90644176	24	55288										
PYHIN1	149628	broad.mit.edu	37	chr1	158913720	158913720	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttctgctttcgactgagaaaGagggaaaatatgtcaaaact	9	6	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:158913720G>C	uc001ftb.2	+	6	1388	c.1143G>C	c.(1141-1143)AAG>AAC	p.K381N	PYHIN1_uc001ftc.2_Missense_Mutation_p.K372N|PYHIN1_uc001ftd.2_Missense_Mutation_p.K381N|PYHIN1_uc001fte.2_Missense_Mutation_p.K372N	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	381	HIN-200.				cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					GACTGAGAAAGAGGGAAAATA	0.358													23	149	---	---	---	---	PASS	C	158913720	C	C	158913720	3	2	156	1	0	0	0	0	1	0	0	0	12865	933	33	2	1161	2	PYHIN1	1	158913720	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	307275	158913720	90336901	25	55289										
ADAMTS4	9507	broad.mit.edu	37	chr1	161166625	161166625	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaatgcggccatcttgtcatCtgccaccaccagtgtctcca	8	15	4	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:161166625C>G	uc001fyt.3	-	2	1107	c.679G>C	c.(679-681)GAT>CAT	p.D227H	ADAMTS4_uc001fyu.2_Missense_Mutation_p.D227H|NDUFS2_uc001fyv.2_5'Flank	NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	227	Peptidase M12B.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			ATCTTGTCATCTGCCACCACC	0.542													224	614	---	---	---	---	PASS	G	161166625	G	G	161166625	3	3	156	1	0	0	0	0	1	0	0	0	268	913	32	2	1866	2	ADAMTS4	1	161166625	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2252905	161166625	88083996	26	55290										
RXRG	6258	broad.mit.edu	37	chr1	165397991	165397991	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggcaaccaagttgattcctgGaggcgctgcaagtgctcctg	13	11	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:165397991G>C	uc001gda.2	-	2	562	c.262C>G	c.(262-264)CCA>GCA	p.P88A		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	88	Modulating (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	TTGATTCCTGGAGGCGCTGCA	0.587													53	109	---	---	---	---	PASS	C	165397991	C	C	165397991	3	2	156	1	0	0	0	0	1	0	0	0	13765	1174	41	2	1165	2	RXRG	1	165397991	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	4231366	165397991	83852630	27	55291										
CACNA1E	777	broad.mit.edu	37	chr1	181479628	181479628	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cccacgccatttgagtacatGatcctggccaccatcattgc	7	15	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:181479628G>A	uc001gow.2	+	2	447	c.282G>A	c.(280-282)ATG>ATA	p.M94I	CACNA1E_uc009wxr.2_Missense_Mutation_p.M1I|CACNA1E_uc009wxs.2_Missense_Mutation_p.M1I	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	94	I.|Helical; Name=S1 of repeat I.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TTGAGTACATGATCCTGGCCA	0.522													19	99	---	---	---	---	PASS	A	181479628	A	A	181479628	3	1	156	1	0	0	0	0	1	0	0	0	2542	1290	45	2	288	2	CACNA1E	1	181479628	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	16081637	181479628	67770993	28	55292										
RGL1	23179	broad.mit.edu	37	chr1	183866988	183866988	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggacagcagtgtgaaagaaaAccagaagcgtacccagaggc	13	9	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:183866988A>G	uc001gqo.2	+	10	1344	c.1187A>G	c.(1186-1188)AAC>AGC	p.N396S	RGL1_uc010pof.1_Missense_Mutation_p.N201S|RGL1_uc001gqm.2_Missense_Mutation_p.N431S|RGL1_uc010pog.1_Missense_Mutation_p.N394S|RGL1_uc010poh.1_Missense_Mutation_p.N394S|RGL1_uc010poi.1_Missense_Mutation_p.N396S	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	396	Ras-GEF.				cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						GTGAAAGAAAACCAGAAGCGT	0.517													25	60	---	---	---	---	PASS	G	183866988	G	G	183866988	3	3	156	1	0	0	0	0	1	0	0	0	13276	43	2	5	1330	5	RGL1	1	183866988	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	2387360	183866988	65383633	29	55293										
HMCN1	83872	broad.mit.edu	37	chr1	185934984	185934984	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agctcttggttgcccttgggGatataaccgttatggaatgc	12	8	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:185934984G>A	uc001grq.1	+	14	2378	c.2149G>A	c.(2149-2151)GAT>AAT	p.D717N	HMCN1_uc001grr.1_Missense_Mutation_p.D58N	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	717	Ig-like C2-type 4.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TGCCCTTGGGGATATAACCGT	0.398													25	171	---	---	---	---	PASS	A	185934984	A	A	185934984	3	1	156	1	0	0	0	0	1	0	0	0	7220	1174	41	2	2203	2	HMCN1	1	185934984	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2067996	185934984	63315637	30	55294										
FAM5C	339479	broad.mit.edu	37	chr1	190423988	190423988	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	catagagccatcagagagaaCaattcagcaccagctctgct	8	12	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:190423988C>A	uc001gse.1	-	2	265	c.33G>T	c.(31-33)TTG>TTT	p.L11F	FAM5C_uc010pot.1_5'UTR	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	11						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TCAGAGAGAACAATTCAGCAC	0.498													15	53	---	---	---	---	PASS	A	190423988	A	A	190423988	3	1	156	1	0	0	0	0	1	0	0	0	5594	477	17	3	2295	3	FAM5C	1	190423988	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4489004	190423988	58826633	31	55295										
KCNT2	343450	broad.mit.edu	37	chr1	196398851	196398851	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gagtcaaagagattcagcttCtttcctattcgttccagatg	8	9	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:196398851C>A	uc001gtd.1	-	9	735	c.675G>T	c.(673-675)AAG>AAT	p.K225N	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.K225N|KCNT2_uc001gtf.1_Missense_Mutation_p.K225N|KCNT2_uc001gtg.1_Intron|KCNT2_uc009wyu.2_Missense_Mutation_p.K225N|KCNT2_uc009wyv.1_Missense_Mutation_p.K200N	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	225	Extracellular (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						GATTCAGCTTCTTTCCTATTC	0.383													12	63	---	---	---	---	PASS	A	196398851	A	A	196398851	3	1	156	1	0	0	0	0	1	0	0	0	8092	912	32	2	2812	2	KCNT2	1	196398851	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	5974863	196398851	52851770	32	55296										
DDX59	83479	broad.mit.edu	37	chr1	200617581	200617581	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccttacctgatggacatactCatccatacttgaaggcatat	6	11	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:200617581C>T	uc009wzk.2	-	7	1825	c.1582G>A	c.(1582-1584)GAG>AAG	p.E528K	DDX59_uc010ppl.1_Missense_Mutation_p.E528K	NM_001031725	NP_001026895	Q5T1V6	DDX59_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 59	528	Helicase C-terminal.					intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TGGACATACTCATCCATACTT	0.403													10	205	---	---	---	---	PASS	T	200617581	T	T	200617581	3	4	156	1	0	0	0	0	1	0	0	0	4376	835	29	2	285	2	DDX59	1	200617581	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4218730	200617581	48633040	33	55297										
TNNT2	7139	broad.mit.edu	37	chr1	201334331	201334331	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acacctacgatcctgtctttGagagaaacgagctcctcctc	7	14	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:201334331G>C	uc001gwf.2	-	10	468	c.399C>G	c.(397-399)CTC>CTG	p.L133L	TNNT2_uc001gwg.2_Silent_p.L123L|TNNT2_uc001gwh.2_Silent_p.L118L|TNNT2_uc001gwi.2_Intron|TNNT2_uc009wzr.2_Silent_p.L64L|TNNT2_uc001gwj.1_5'Flank|TNNT2_uc009wzs.1_Silent_p.L98L|TNNT2_uc001gwk.1_Silent_p.L64L|TNNT2_uc009wzt.1_Silent_p.L123L	NM_000364	NP_000355	P45379	TNNT2_HUMAN	troponin T type 2, cardiac isoform 1	133					ATP catabolic process|muscle filament sliding|negative regulation of ATPase activity|positive regulation of ATPase activity|regulation of heart contraction|response to calcium ion|response to calcium ion|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin binding|tropomyosin binding|troponin C binding|troponin I binding				0						TCCTGTCTTTGAGAGAAACGA	0.498													23	517	---	---	---	---	PASS	C	201334331	C	C	201334331	2	2	156	1	0	0	0	0	0	0	0	1	16328	1277	45	2		2	TNNT2	1	201334331	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	716750	201334331	47916290	34	55298										
SLC26A9	115019	broad.mit.edu	37	chr1	205896719	205896719	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccaaagaagttgctgcagccGagagcgatcatctcctgcag	11	12	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:205896719G>A	uc001hdq.2	-	10	1230	c.1116C>T	c.(1114-1116)CTC>CTT	p.L372L	SLC26A9_uc001hdo.2_Silent_p.L40L|SLC26A9_uc001hdp.2_Silent_p.L372L	NM_052934	NP_443166	Q7LBE3	S26A9_HUMAN	solute carrier family 26, member 9 isoform a	372						integral to membrane	chloride channel activity|secondary active sulfate transmembrane transporter activity			ovary(1)|skin(1)	2	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0458)			TGCTGCAGCCGAGAGCGATCA	0.557													15	47	---	---	---	---	PASS	A	205896719	A	A	205896719	2	1	156	1	0	0	0	0	0	0	0	1	14524	1045	37	2		2	SLC26A9	1	205896719	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	4562388	205896719	43353902	35	55299										
LGTN	1939	broad.mit.edu	37	chr1	206784717	206784717	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agcagttgtcacatcagctcGaagctttctcctgtggaaag	10	10	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:206784717G>A	uc001heh.2	-	2	276	c.67C>T	c.(67-69)CGA>TGA	p.R23*	LGTN_uc009xbw.2_Nonsense_Mutation_p.R23*|LGTN_uc010prw.1_Nonsense_Mutation_p.R23*	NM_006893	NP_008824	P41214	EIF2D_HUMAN	ligatin	23					intracellular protein transport	cytoplasm	protein binding|receptor activity|translation initiation factor activity				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			ACATCAGCTCGAAGCTTTCTC	0.438													16	99	---	---	---	---	PASS	A	206784717	A	A	206784717	4	1	156	1	0	0	0	0	0	1	0	0	8760	1066	37	2	1743	2	LGTN	1	206784717	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	887998	206784717	42465904	36	55300										
TGFB2	7042	broad.mit.edu	37	chr1	218520311	218520311	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gccggagggcggccgcctgcGagcgcgagaggagcgacgaa	20	12	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:218520311G>A	uc001hlm.2	+	1	921	c.268G>A	c.(268-270)GAG>AAG	p.E90K	TGFB2_uc001hll.2_Missense_Mutation_p.E90K|TGFB2_uc001hln.2_Missense_Mutation_p.E90K|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	90					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		GGCCGCCTGCGAGCGCGAGAG	0.572													6	31	---	---	---	---	PASS	A	218520311	A	A	218520311	3	1	156	1	0	0	0	0	1	0	0	0	15815	1059	37	2	270	2	TGFB2	1	218520311	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	11735594	218520311	30730310	37	55301										
HLX	3142	broad.mit.edu	37	chr1	221053402	221053402	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggagggcctggcaggggcctCggccgccgccctcaccgcgc	17	18	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:221053402C>T	uc001hmv.3	+	1	660	c.203C>T	c.(202-204)TCG>TTG	p.S68L		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	68					cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)		GCAGGGGCCTCGGCCGCCGCC	0.731													5	7	---	---	---	---	PASS	T	221053402	T	T	221053402	3	4	156	1	0	0	0	0	1	0	0	0	7216	893	31	2	205	2	HLX	1	221053402	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2533091	221053402	28197219	38	55302										
CAPN2	824	broad.mit.edu	37	chr1	223958166	223958166	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cagaaaatttaccgagaaatCgacgttgacaggtctggtac	10	8	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:223958166C>A	uc001hob.3	+	18	2066	c.1842C>A	c.(1840-1842)ATC>ATA	p.I614I	CAPN2_uc010puy.1_Silent_p.I536I|CAPN2_uc001hoc.2_Silent_p.I195I	NM_001748	NP_001739	P17655	CAN2_HUMAN	calpain 2 isoform 1	614	Domain IV.|EF-hand 2.				proteolysis	cytoplasm|plasma membrane				lung(3)|breast(1)|skin(1)	5				GBM - Glioblastoma multiforme(131;0.109)		ACCGAGAAATCGACGTTGACA	0.418													32	64	---	---	---	---	PASS	A	223958166	A	A	223958166	2	1	156	1	0	0	0	0	0	0	0	1	2627	874	31	2		2	CAPN2	1	223958166	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	2904764	223958166	25292455	39	55303										
NVL	4931	broad.mit.edu	37	chr1	224514112	224514112	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cctgtacactctttgtaaatCagacgctaagactccaatgt	6	11	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:224514112C>G	uc001hok.2	-	2	155	c.112G>C	c.(112-114)GAT>CAT	p.D38H	NVL_uc001hol.2_Intron|NVL_uc010pvd.1_Missense_Mutation_p.D38H|NVL_uc010pve.1_Intron|NVL_uc010pvf.1_Intron|NVL_uc010pvg.1_Missense_Mutation_p.D38H	NM_002533	NP_002524	O15381	NVL_HUMAN	nuclear VCP-like isoform 1	38						aggresome|cytoplasm|nucleolus	ATP binding|nucleoside-triphosphatase activity			skin(2)	2				GBM - Glioblastoma multiforme(131;0.00501)		CTTTGTAAATCAGACGCTAAG	0.318													24	177	---	---	---	---	PASS	G	224514112	G	G	224514112	3	3	156	1	0	0	0	0	1	0	0	0	10780	826	29	2	2546	2	NVL	1	224514112	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	555946	224514112	24736509	40	55304										
GJC2	57165	broad.mit.edu	37	chr1	228345525	228345525	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atccacaaccactccaccttCgtgggcaaggtgtggctcac	9	15	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:228345525C>T	uc001hsk.2	+	2	241	c.66C>T	c.(64-66)TTC>TTT	p.F22F		NM_020435	NP_065168	Q5T442	CXG2_HUMAN	gap junction protein, gamma 2, 47kDa	22	Cytoplasmic (Potential).				cell death	connexon complex|integral to membrane					0		Prostate(94;0.0405)				ACTCCACCTTCGTGGGCAAGG	0.652													5	12	---	---	---	---	PASS	T	228345525	T	T	228345525	2	4	156	1	0	0	0	0	0	0	0	1	6415	883	31	2		2	GJC2	1	228345525	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	3831413	228345525	20905096	41	55305										
RYR2	6262	broad.mit.edu	37	chr1	237758861	237758861	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atgagccccgggcaaggacgCaacaataatggactggagat	13	9	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:237758861C>G	uc001hyl.1	+	34	4620	c.4500C>G	c.(4498-4500)CGC>CGG	p.R1500R		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1500	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GGCAAGGACGCAACAATAATG	0.483													18	61	---	---	---	---	PASS	G	237758861	G	G	237758861	2	3	156	1	0	0	0	0	0	0	0	1	13769	697	25	4		4	RYR2	1	237758861	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	9413336	237758861	11491760	42	55306										
RYR2	6262	broad.mit.edu	37	chr1	237944913	237944913	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aattaatggatctgcagaagGatatggtggtcatgttgctg	13	4	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:237944913G>C	uc001hyl.1	+	89	12049	c.11929G>C	c.(11929-11931)GAT>CAT	p.D3977H	RYR2_uc010pya.1_Missense_Mutation_p.D392H	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3977					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)			TCTGCAGAAGGATATGGTGGT	0.328													4	10	---	---	---	---	PASS	C	237944913	C	C	237944913	3	2	156	1	0	0	0	0	1	0	0	0	13769	1174	41	2	12283	2	RYR2	1	237944913	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	186052	237944913	11305708	43	55307										
FMN2	56776	broad.mit.edu	37	chr1	240286514	240286514	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agaagctgttcagccagcagGagaacgggcctccagaagaa	13	10	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:240286514G>A	uc010pyd.1	+	2	1876	c.1651G>A	c.(1651-1653)GAG>AAG	p.E551K	FMN2_uc010pye.1_Missense_Mutation_p.E551K	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	551					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CAGCCAGCAGGAGAACGGGCC	0.532													43	190	---	---	---	---	PASS	A	240286514	A	A	240286514	3	1	156	1	0	0	0	0	1	0	0	0	5950	1175	41	2	1657	2	FMN2	1	240286514	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2341601	240286514	8964107	44	55308										
FMN2	56776	broad.mit.edu	37	chr1	240371515	240371515	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcataccccctcctccccctCttcccggagcgggcatacct	7	21	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:240371515C>G	uc010pyd.1	+	5	3628	c.3403C>G	c.(3403-3405)CTT>GTT	p.L1135V	FMN2_uc010pye.1_Missense_Mutation_p.L1139V	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1135	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TCCTCCCCCTCTTCCCGGAGC	0.706													3	35	---	---	---	---	PASS	G	240371515	G	G	240371515	3	3	156	1	0	0	0	0	1	0	0	0	5950	913	32	2	3421	2	FMN2	1	240371515	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	85001	240371515	8879106	45	55309										
OR2C3	81472	broad.mit.edu	37	chr1	247695440	247695440	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggagtggcctgcagatggcaGcgtagcggtcataggacatg	17	8	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:247695440G>T	uc009xgy.2	-	2	736	c.374C>A	c.(373-375)GCT>GAT	p.A125D	C1orf150_uc009xgw.2_Intron|C1orf150_uc001ida.3_Intron|C1orf150_uc001idb.3_Intron|C1orf150_uc009xgx.2_Intron|LOC148824_uc001idd.2_5'Flank	NM_198074	NP_932340	Q8N628	OR2C3_HUMAN	olfactory receptor, family 2, subfamily C,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0242)	OV - Ovarian serous cystadenocarcinoma(106;0.0241)			GCAGATGGCAGCGTAGCGGTC	0.567													19	86	---	---	---	---	PASS	T	247695440	T	T	247695440	3	4	156	1	0	0	0	0	1	0	0	0	10993	971	34	3	592	3	OR2C3	1	247695440	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	7323925	247695440	1555181	46	55310										
TRIM58	25893	broad.mit.edu	37	chr1	248028218	248028218	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcaggagaggtgccagcgccCggccctgggtctgctggagg	19	12	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:248028218C>T	uc001ido.2	+	3	776	c.728C>T	c.(727-729)CCG>CTG	p.P243L		NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	243						intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TGCCAGCGCCCGGCCCTGGGT	0.622													8	17	---	---	---	---	PASS	T	248028218	T	T	248028218	3	4	156	1	0	0	0	0	1	0	0	0	16528	652	23	1	738	1	TRIM58	1	248028218	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	332778	248028218	1222403	47	55311										
OR2L2	26246	broad.mit.edu	37	chr1	248202246	248202246	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggttctccttgctgtctaccGcatgcactctgcagaaggga	11	12	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:248202246G>T	uc001idw.2	+	1	773	c.677G>T	c.(676-678)CGC>CTC	p.R226L	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	226	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			GCTGTCTACCGCATGCACTCT	0.483													113	333	---	---	---	---	PASS	T	248202246	T	T	248202246	3	4	156	1	0	0	0	0	1	0	0	0	11007	1087	38	1	679	1	OR2L2	1	248202246	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	174028	248202246	1048375	48	55312										
OR2L3	391192	broad.mit.edu	37	chr1	248224439	248224439	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gggtcttggatcataggctcGatcaatgcttgtgctcacac	11	10	4	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:248224439G>T	uc001idx.1	+	1	456	c.456G>T	c.(454-456)TCG>TCT	p.S152S	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TCATAGGCTCGATCAATGCTT	0.433													174	290	---	---	---	---	PASS	T	248224439	T	T	248224439	2	4	156	1	0	0	0	0	0	0	0	1	11008	1045	37	2		2	OR2L3	1	248224439	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	22193	248224439	1026182	49	55313										
OR2T3	343173	broad.mit.edu	37	chr1	248637513	248637513	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccttttacaccatcttcactCctgtgctgaaccccctcatt	3	17	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:248637513C>T	uc001iel.1	+	1	862	c.862C>T	c.(862-864)CCT>TCT	p.P288S		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	288	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CATCTTCACTCCTGTGCTGAA	0.498													31	620	---	---	---	---	PASS	T	248637513	T	T	248637513	3	4	156	1	0	0	0	0	1	0	0	0	11023	855	30	2	864	2	OR2T3	1	248637513	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	413074	248637513	613108	50	55314										
OR2T34	127068	broad.mit.edu	37	chr1	248737197	248737197	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aatgagggggttcagcacagGagtgaagatggtgtaaaagg	17	3	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:248737197G>A	uc001iep.1	-	1	862	c.862C>T	c.(862-864)CCT>TCT	p.P288S		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	288	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTCAGCACAGGAGTGAAGATG	0.498													11	148	---	---	---	---	PASS	A	248737197	A	A	248737197	3	1	156	1	0	0	0	0	1	0	0	0	11025	1174	41	2	98	2	OR2T34	1	248737197	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	99684	248737197	513424	51	55315										
ZNF692	55657	broad.mit.edu	37	chr1	249149643	249149643	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtcacaaggcatcagctctCttttggcagctttcctgagg	10	11	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr1:249149643C>T	uc001ifc.1	-	9	1141	c.974G>A	c.(973-975)AGA>AAA	p.R325K	ZNF692_uc001iez.1_Missense_Mutation_p.R47K|ZNF692_uc001ifa.1_Missense_Mutation_p.R47K|ZNF692_uc001ifb.1_Missense_Mutation_p.R121K|ZNF692_uc001ifd.1_Missense_Mutation_p.R324K|ZNF692_uc001ife.1_RNA|ZNF692_uc001iff.1_Missense_Mutation_p.R280K|ZNF692_uc010pzr.1_Missense_Mutation_p.R330K	NM_017865	NP_060335	Q9BU19	ZN692_HUMAN	zinc finger protein 692 isoform 2	325					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			CATCAGCTCTCTTTTGGCAGC	0.577													22	185	---	---	---	---	PASS	T	249149643	T	T	249149643	3	4	156	1	0	0	0	0	1	0	0	0	18094	913	32	2	601	2	ZNF692	1	249149643	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	412446	249149643	100978	52	55316										
TPO	7173	broad.mit.edu	37	chr2	1437379	1437379	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aacaatcacagcatccaacgGgtaatgtgtgcccctctccc	7	15	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:1437379G>A	uc002qww.2	+	4	440	c.349G>A	c.(349-351)GAT>AAT	p.D117N	TPO_uc010ewj.2_Intron|TPO_uc010yin.1_Missense_Mutation_p.D117N|TPO_uc002qwu.2_Missense_Mutation_p.D117N|TPO_uc002qwr.2_Missense_Mutation_p.D117N|TPO_uc002qwx.2_Missense_Mutation_p.D117N|TPO_uc010yio.1_Missense_Mutation_p.D117N|TPO_uc010yip.1_Missense_Mutation_p.D117N	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	117	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	GCATCCAACGGGTAATGTGTG	0.498													19	56	---	---	---	---	PASS	A	1437379	A	A	1437379	3	1	156	1	0	0	0	0	1	0	0	0	16407	1246	43	3	359	3	TPO	2	1437379	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08		1437379	241761994	53	55317										
PXDN	7837	broad.mit.edu	37	chr2	1653434	1653434	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tactgtggagacaccaggtcGttgtagtggtaacctgggac	14	8	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:1653434G>A	uc002qxa.2	-	17	2182	c.2118C>T	c.(2116-2118)AAC>AAT	p.N706N		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	706					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		ACACCAGGTCGTTGTAGTGGT	0.592													35	158	---	---	---	---	PASS	A	1653434	A	A	1653434	2	1	156	1	0	0	0	0	0	0	0	1	12847	1136	40	1		1	PXDN	2	1653434	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	216055	1653434	241545939	54	55318										
CMPK2	129607	broad.mit.edu	37	chr2	7003644	7003644	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acctggaactttcctttctgGatctgttttgggcactggtc	10	10	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:7003644G>A	uc002qyo.2	-	2	850	c.741C>T	c.(739-741)ATC>ATT	p.I247I	CMPK2_uc010yis.1_Silent_p.I247I|CMPK2_uc010ewv.2_Silent_p.I247I	NM_207315	NP_997198	Q5EBM0	CMPK2_HUMAN	UMP-CMP kinase 2 precursor	247					dTDP biosynthetic process	mitochondrion	ATP binding|cytidylate kinase activity|thymidylate kinase activity|UMP kinase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TTCCTTTCTGGATCTGTTTTG	0.453													26	285	---	---	---	---	PASS	A	7003644	A	A	7003644	2	1	156	1	0	0	0	0	0	0	0	1	3581	1164	41	2		2	CMPK2	2	7003644	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	5350210	7003644	236195729	55	55319										
PDIA6	10130	broad.mit.edu	37	chr2	10930911	10930911	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gccagtttcacttttcctttCgtctgctcttttacttctga	5	12	4	1	rs145487229	byFrequency	TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:10930911C>T	uc002rau.2	-	7	771	c.633G>A	c.(631-633)ACG>ACA	p.T211T	PDIA6_uc010yjg.1_Silent_p.T208T|PDIA6_uc002rav.2_Silent_p.T263T|PDIA6_uc010yjh.1_Silent_p.T216T|PDIA6_uc002raw.2_Silent_p.T259T	NM_005742	NP_005733	Q15084	PDIA6_HUMAN	protein disulfide isomerase A6 precursor	211	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|protein folding	endoplasmic reticulum lumen|ER-Golgi intermediate compartment|melanosome|plasma membrane	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.149)|OV - Ovarian serous cystadenocarcinoma(76;0.15)		CTTTTCCTTTCGTCTGCTCTT	0.383													24	160	---	---	---	---	PASS	T	10930911	T	T	10930911	2	4	156	1	0	0	0	0	0	0	0	1	11672	871	31	2		2	PDIA6	2	10930911	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	3927267	10930911	232268462	56	55320										
NBAS	51594	broad.mit.edu	37	chr2	15676580	15676580	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agttctcctcggtaattgatGaccaggagttctgcagacca	10	10	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:15676580G>A	uc002rcc.1	-	8	635	c.609C>T	c.(607-609)GTC>GTT	p.V203V	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	203										ovary(2)|liver(1)|skin(1)	4						GGTAATTGATGACCAGGAGTT	0.363													45	249	---	---	---	---	PASS	A	15676580	A	A	15676580	2	1	156	1	0	0	0	0	0	0	0	1	10186	1277	45	2		2	NBAS	2	15676580	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	4745669	15676580	227522793	57	55321										
ITSN2	50618	broad.mit.edu	37	chr2	24494810	24494810	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcttttccttgctttgctttCctttacataaaagaaaaaga	4	8	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:24494810C>T	uc002rfe.2	-	19	2340	c.2082G>A	c.(2080-2082)AGG>AGA	p.R694R	ITSN2_uc002rff.2_Silent_p.R667R|ITSN2_uc002rfg.2_Silent_p.R694R	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	694	Potential.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					gctttgctttcctttACATAA	0.139													4	38	---	---	---	---	PASS	T	24494810	T	T	24494810	2	4	156	1	0	0	0	0	0	0	0	1	7927	869	30	2		2	ITSN2	2	24494810	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	8818230	24494810	218704563	58	55322										
MEMO1	51072	broad.mit.edu	37	chr2	32145919	32145919	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtcctatatatatccacactGgaaagtgcacatcgagagag	9	9	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:32145919G>A	uc002rnx.2	-	4	655	c.273C>T	c.(271-273)TCC>TCT	p.S91S	MEMO1_uc010ymu.1_Silent_p.S68S|MEMO1_uc010ezq.2_Silent_p.S91S|MEMO1_uc002rny.2_RNA|MEMO1_uc002rnz.2_RNA|MEMO1_uc010ymv.1_RNA	NM_015955	NP_057039	Q9Y316	MEMO1_HUMAN	mediator of cell motility 1 isoform 1	91					regulation of microtubule-based process	cytosol|nucleus				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)					TATCCACACTGGAAAGTGCAC	0.378													16	165	---	---	---	---	PASS	A	32145919	A	A	32145919	2	1	156	1	0	0	0	0	0	0	0	1	9471	1335	47	3		3	MEMO1	2	32145919	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	7651109	32145919	211053454	59	55323										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48897062	48897062	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagctgacagtatttcaaatGaggattcagccacaaacagt	8	8	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:48897062G>A	uc010yol.1	+	6	3198	c.3151G>A	c.(3151-3153)GAG>AAG	p.E1051K	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.E1098K|GTF2A1L_uc002rws.1_Missense_Mutation_p.E394K|GTF2A1L_uc010yom.1_Missense_Mutation_p.E360K|GTF2A1L_uc002rwt.2_Missense_Mutation_p.E394K	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	1051					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TATTTCAAATGAGGATTCAGC	0.383													8	202	---	---	---	---	PASS	A	48897062	A	A	48897062	3	1	156	1	0	0	0	0	1	0	0	0	15316	1291	45	2	3322	2	STON1-GTF2A1L	2	48897062	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	16751143	48897062	194302311	60	55324										
NRXN1	9378	broad.mit.edu	37	chr2	51254939	51254939	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cggcgcgcagttccgggggcAgccccccgacgaaaaggccg	16	16	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:51254939A>T	uc010fbq.2	-	2	1950	c.473T>A	c.(472-474)CTG>CAG	p.L158Q	NRXN1_uc002rxe.3_Missense_Mutation_p.L158Q|NRXN1_uc002rxd.1_Missense_Mutation_p.L158Q	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TTCCGGGGGCAGCCCCCCGAC	0.657													6	42	---	---	---	---	PASS	T	51254939	T	T	51254939	3	4	156	1	0	0	0	0	1	0	0	0	10665	188	7	5	4525	5	NRXN1	2	51254939	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	2357877	51254939	191944434	61	55325										
ASB3	51130	broad.mit.edu	37	chr2	53897777	53897777	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccgtagacgttctgattttaGactggaccgaatttccaaac	8	10	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:53897777G>A	uc002rxg.1	-	10	1555	c.1420C>T	c.(1420-1422)CTA>TTA	p.L474L	ASB3_uc002rxh.1_Silent_p.L401L|ASB3_uc002rxi.3_Silent_p.L512L|ASB3_uc002rxf.1_RNA	NM_016115	NP_057199	Q9Y575	ASB3_HUMAN	ankyrin repeat and SOCS box-containing protein 3	474	SOCS box.				intracellular signal transduction					ovary(1)|kidney(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TCTGATTTTAGACTGGACCGA	0.403													14	90	---	---	---	---	PASS	A	53897777	A	A	53897777	2	1	156	1	0	0	0	0	0	0	0	1	1024	933	33	2		2	ASB3	2	53897777	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	2642838	53897777	189301596	62	55326										
BCL11A	53335	broad.mit.edu	37	chr2	60689209	60689209	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcttccgcccccaggcgctCtatgcggtgggggtccaagt	13	15	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:60689209C>G	uc002sae.1	-	4	1066	c.838G>C	c.(838-840)GAG>CAG	p.E280Q	BCL11A_uc002sab.2_Missense_Mutation_p.E280Q|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Intron|BCL11A_uc010ypj.1_Missense_Mutation_p.E246Q|BCL11A_uc002sad.1_Missense_Mutation_p.E128Q|BCL11A_uc002saf.1_Missense_Mutation_p.E246Q	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	280	Pro-rich.				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			CCCAGGCGCTCTATGCGGTGG	0.627			T	IGH@	B-CLL								32	203	---	---	---	---	PASS	G	60689209	G	G	60689209	3	3	156	1	0	0	0	0	1	0	0	0	1363	922	32	2	1779	2	BCL11A	2	60689209	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	6791432	60689209	182510164	63	55327										
USP34	9736	broad.mit.edu	37	chr2	61512052	61512052	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tataagcaacagacataagtCgctgaatcaaactggttcct	7	9	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:61512052C>T	uc002sbe.2	-	35	4812	c.4790G>A	c.(4789-4791)CGA>CAA	p.R1597Q		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	1597					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			AGACATAAGTCGCTGAATCAA	0.294													3	26	---	---	---	---	PASS	T	61512052	T	T	61512052	3	4	156	1	0	0	0	0	1	0	0	0	17062	884	31	2	6034	2	USP34	2	61512052	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	822843	61512052	181687321	64	55328										
RAB1A	5861	broad.mit.edu	37	chr2	65316076	65316076	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttaaactttaaacataccttCgctgttgtgtagtctactac	5	9	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:65316076C>T	uc002sdm.2	-	5	803	c.417G>A	c.(415-417)GCG>GCA	p.A139A	RAB1A_uc002sdn.2_Intron|RAB1A_uc010yqe.1_Silent_p.A107A|RAB1A_uc002sdo.2_Silent_p.A75A	NM_004161	NP_004152	P62820	RAB1A_HUMAN	RAB1A, member RAS oncogene family isoform 1	139					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	endoplasmic reticulum|Golgi apparatus	GTP binding|GTPase activity				0						AACATACCTTCGCTGTTGTGT	0.353													3	22	---	---	---	---	PASS	T	65316076	T	T	65316076	2	4	156	1	0	0	0	0	0	0	0	1	12905	871	31	2		2	RAB1A	2	65316076	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	3804024	65316076	177883297	65	55329										
NFU1	27247	broad.mit.edu	37	chr2	69642328	69642328	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acatgttacctgcttctcctGaaggtgtttcctcagtaacc	7	12	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:69642328G>A	uc002sfk.2	-	5	672	c.473C>T	c.(472-474)TCA>TTA	p.S158L	NFU1_uc002sfj.2_Missense_Mutation_p.S134L|NFU1_uc002sfl.2_Missense_Mutation_p.S17L|NFU1_uc002sfm.2_Missense_Mutation_p.S17L|NFU1_uc010fdi.2_RNA|NFU1_uc002sfn.1_Missense_Mutation_p.S158L	NM_001002755	NP_001002755	Q9UMS0	NFU1_HUMAN	HIRA interacting protein 5 isoform 2	158				S -> P (in Ref. 4; AAD27742).	iron-sulfur cluster assembly	cytosol|mitochondrion|nucleus	4 iron, 4 sulfur cluster binding|iron ion binding|protein binding				0						TGCTTCTCCTGAAGGTGTTTC	0.343													21	109	---	---	---	---	PASS	A	69642328	A	A	69642328	3	1	156	1	0	0	0	0	1	0	0	0	10386	1294	45	2	307	2	NFU1	2	69642328	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	4326252	69642328	173557045	66	55330										
ZNF638	27332	broad.mit.edu	37	chr2	71651066	71651066	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtggaaggatctcagccctGcaaggcaagctttctaaact	10	10	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:71651066G>A	uc002shx.2	+	22	4741	c.4422G>A	c.(4420-4422)CTG>CTA	p.L1474L	ZNF638_uc010yqw.1_Silent_p.L1053L|ZNF638_uc002shy.2_Silent_p.L1474L|ZNF638_uc002shz.2_Silent_p.L1474L|ZNF638_uc002sia.2_Silent_p.L1474L|ZNF638_uc002sib.1_Intron|ZNF638_uc010fed.2_Intron|ZNF638_uc002sic.2_Silent_p.L571L|ZNF638_uc002sid.2_Intron	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1474					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						TCTCAGCCCTGCAAGGCAAGC	0.463													7	73	---	---	---	---	PASS	A	71651066	A	A	71651066	2	1	156	1	0	0	0	0	0	0	0	1	18052	1306	46	3		3	ZNF638	2	71651066	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	2008738	71651066	171548307	67	55331										
ALMS1	7840	broad.mit.edu	37	chr2	73675343	73675343	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	attcctgaaccagctgaccaGaagactgcaacaccaacagt	7	13	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:73675343G>A	uc002sje.1	+	10	1803	c.1692G>A	c.(1690-1692)CAG>CAA	p.Q564Q	ALMS1_uc002sjf.1_Silent_p.Q520Q|ALMS1_uc002sjg.2_5'UTR|ALMS1_uc002sjh.1_5'UTR	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	562	1.|34 X 47 AA approximate tandem repeat.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CAGCTGACCAGAAGACTGCAA	0.468													27	156	---	---	---	---	PASS	A	73675343	A	A	73675343	2	1	156	1	0	0	0	0	0	0	0	1	535	933	33	2		2	ALMS1	2	73675343	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	2024277	73675343	169524030	68	55332										
VAMP5	10791	broad.mit.edu	37	chr2	85820097	85820097	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	accttcaacaagactacacaGaacctggcccagaagaagtg	8	12	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:85820097G>A	uc002spu.1	+	3	251	c.168G>A	c.(166-168)CAG>CAA	p.Q56Q	RNF181_uc002spv.1_5'Flank	NM_006634	NP_006625	O95183	VAMP5_HUMAN	vesicle-associated membrane protein 5	56	v-SNARE coiled-coil homology.|Cytoplasmic (Potential).				cell differentiation|vesicle-mediated transport	endomembrane system					0						AGACTACACAGAACCTGGCCC	0.582													42	292	---	---	---	---	PASS	A	85820097	A	A	85820097	2	1	156	1	0	0	0	0	0	0	0	1	17113	933	33	2		2	VAMP5	2	85820097	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	12144754	85820097	157379276	69	55333										
ZC3H6	376940	broad.mit.edu	37	chr2	113088861	113088861	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtgggatcccaggaaattgaGagggaatggaagtggtcaca	16	5	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:113088861G>C	uc002thq.1	+	12	2760	c.2366G>C	c.(2365-2367)AGA>ACA	p.R789T		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	789							nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						AGGAAATTGAGAGGGAATGGA	0.473													21	142	---	---	---	---	PASS	C	113088861	C	C	113088861	3	2	156	1	0	0	0	0	1	0	0	0	17568	942	33	2	2412	2	ZC3H6	2	113088861	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	27268764	113088861	130110512	70	55334										
ZC3H6	376940	broad.mit.edu	37	chr2	113089966	113089966	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcaaggcagccaggacagggGagcccgaccccagataatga	14	12	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:113089966G>A	uc002thq.1	+	12	3865	c.3471G>A	c.(3469-3471)GGG>GGA	p.G1157G		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	1157							nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						CAGGACAGGGGAGCCCGACCC	0.483													21	121	---	---	---	---	PASS	A	113089966	A	A	113089966	2	1	156	1	0	0	0	0	0	0	0	1	17568	1161	41	2		2	ZC3H6	2	113089966	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1105	113089966	130109407	71	55335										
IL1F5	26525	broad.mit.edu	37	chr2	113818440	113818440	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atgtttcagaatgaaggactCggcattgaaggtgctttatc	11	6	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:113818440C>T	uc002tis.2	+	3	174	c.41C>T	c.(40-42)TCG>TTG	p.S14L	IL1F5_uc002tit.2_Missense_Mutation_p.S14L	NM_173170	NP_775262	Q9UBH0	I36RA_HUMAN	interleukin 1 family, member 5	14						extracellular space	cytokine activity|interleukin-1 receptor antagonist activity				0						ATGAAGGACTCGGCATTGAAG	0.502													6	86	---	---	---	---	PASS	T	113818440	T	T	113818440	3	4	156	1	0	0	0	0	1	0	0	0	7653	893	31	2	47	2	IL1F5	2	113818440	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	728474	113818440	129380933	72	55336										
MARCO	8685	broad.mit.edu	37	chr2	119699912	119699912	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	attctcaaggaggacgagctCttgagtgagacccaacaagc	11	10	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:119699912C>G	uc002tln.1	+	1	168	c.36C>G	c.(34-36)CTC>CTG	p.L12L	MARCO_uc010yyf.1_5'UTR	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	12	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						AGGACGAGCTCTTGAGTGAGA	0.438													23	176	---	---	---	---	PASS	G	119699912	G	G	119699912	2	3	156	1	0	0	0	0	0	0	0	1	9311	900	32	2		2	MARCO	2	119699912	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	5881472	119699912	123499461	73	55337										
MGAT5	4249	broad.mit.edu	37	chr2	135102562	135102562	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctgtaggagacagaattgttGagctcatttacattgatatt	9	5	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:135102562G>C	uc002ttv.1	+	8	1184	c.1039G>C	c.(1039-1041)GAG>CAG	p.E347Q		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	347	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		CAGAATTGTTGAGCTCATTTA	0.413													8	181	---	---	---	---	PASS	C	135102562	C	C	135102562	3	2	156	1	0	0	0	0	1	0	0	0	9548	1291	45	2	1069	2	MGAT5	2	135102562	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	15402650	135102562	108096811	74	55338										
DARS	1615	broad.mit.edu	37	chr2	136700965	136700965	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	taccttctgaacatgtaactCaacgtcttgctgtgtacagc	7	11	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:136700965C>G	uc002tux.1	-	5	590	c.406G>C	c.(406-408)GAG>CAG	p.E136Q	DARS_uc010fnj.1_Missense_Mutation_p.E36Q	NM_001349	NP_001340	P14868	SYDC_HUMAN	aspartyl-tRNA synthetase	136					aspartyl-tRNA aminoacylation|protein complex assembly	cytosol|nuclear membrane|plasma membrane|soluble fraction	aminoacylase activity|aspartate-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.168)	L-Aspartic Acid(DB00128)	ACATGTAACTCAACGTCTTGC	0.323													14	317	---	---	---	---	PASS	G	136700965	G	G	136700965	3	3	156	1	0	0	0	0	1	0	0	0	4241	835	29	2	1147	2	DARS	2	136700965	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1598403	136700965	106498408	75	55339										
LRP1B	53353	broad.mit.edu	37	chr2	141200073	141200073	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccagagtcacagacactcacCgcagttggcctcgtctgatg	10	14	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:141200073C>T	uc002tvj.1	-	66	11386	c.10414G>A	c.(10414-10416)GAT>AAT	p.D3472N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3472	Extracellular (Potential).|LDL-receptor class A 24.				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)		AGACACTCACCGCAGTTGGCC	0.448										TSP Lung(27;0.18)			10	118	---	---	---	---	PASS	T	141200073	T	T	141200073	3	4	156	1	0	0	0	0	1	0	0	0	8955	666	23	1	3489	1	LRP1B	2	141200073	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4499108	141200073	101999300	76	55340										
LRP1B	53353	broad.mit.edu	37	chr2	141272315	141272315	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acatttttgtgcggaacaagCaaattggttccaagagcaag	10	7	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:141272315C>A	uc002tvj.1	-	51	9148	c.8176G>T	c.(8176-8178)GCT>TCT	p.A2726S		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2726	Extracellular (Potential).|LDL-receptor class A 16.				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)		GCGGAACAAGCAAATTGGTTC	0.323										TSP Lung(27;0.18)			23	113	---	---	---	---	PASS	A	141272315	A	A	141272315	3	1	156	1	0	0	0	0	1	0	0	0	8955	710	25	3	5787	3	LRP1B	2	141272315	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	72242	141272315	101927058	77	55341										
LRP1B	53353	broad.mit.edu	37	chr2	141272329	141272329	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aacaagcaaattggttccaaGagcaagaagaatctaggaaa	9	6	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:141272329G>T	uc002tvj.1	-	51	9134	c.8162C>A	c.(8161-8163)TCT>TAT	p.S2721Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2721	Extracellular (Potential).|LDL-receptor class A 16.				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)		TTGGTTCCAAGAGCAAGAAGA	0.303										TSP Lung(27;0.18)			13	109	---	---	---	---	PASS	T	141272329	T	T	141272329	3	4	156	1	0	0	0	0	1	0	0	0	8955	942	33	2	5801	2	LRP1B	2	141272329	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	14	141272329	101927044	78	55342										
LRP1B	53353	broad.mit.edu	37	chr2	141474323	141474323	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gatatcttctttccaagtctGatctcttttagctctgctaa	5	10	5	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:141474323G>A	uc002tvj.1	-	36	6793	c.5821C>T	c.(5821-5823)CAG>TAG	p.Q1941*		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1941	Extracellular (Potential).|LDL-receptor class B 19.				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)		TTCCAAGTCTGATCTCTTTTA	0.373										TSP Lung(27;0.18)			12	191	---	---	---	---	PASS	A	141474323	A	A	141474323	4	1	156	1	0	0	0	0	0	1	0	0	8955	1299	45	2	8202	2	LRP1B	2	141474323	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	201994	141474323	101725050	79	55343										
ORC4L	5000	broad.mit.edu	37	chr2	148705764	148705764	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cggtgagaaaatcttgacttCactcttttttctaagagttc	7	8	4	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:148705764C>T	uc002twi.2	-	9	753	c.618G>A	c.(616-618)GTG>GTA	p.V206V	ORC4L_uc002twj.2_Silent_p.V206V|ORC4L_uc010zbo.1_Silent_p.V132V|ORC4L_uc010zbp.1_5'UTR|ORC4L_uc010fnr.2_Silent_p.V206V|ORC4L_uc010zbq.1_Silent_p.V122V|ORC4L_uc002twk.2_Silent_p.V206V|ORC4L_uc010zbr.1_Silent_p.V206V	NM_181741	NP_859525	O43929	ORC4_HUMAN	origin recognition complex subunit 4	206					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|nucleoside-triphosphatase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.0963)|COAD - Colon adenocarcinoma(177;0.203)		ATCTTGACTTCACTCTTTTTT	0.299													10	119	---	---	---	---	PASS	T	148705764	T	T	148705764	2	4	156	1	0	0	0	0	0	0	0	1	11264	813	29	2		2	ORC4L	2	148705764	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	7231441	148705764	94493609	80	55344										
MBD5	55777	broad.mit.edu	37	chr2	149247447	149247447	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgaacgaaggagatgggtttGaatatttcaagtcagcaagt	12	4	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:149247447G>C	uc002twm.3	+	12	4535	c.3547G>C	c.(3547-3549)GAA>CAA	p.E1183Q	MBD5_uc010zbs.1_Intron|MBD5_uc010fns.2_Missense_Mutation_p.E1183Q|MBD5_uc002two.2_Missense_Mutation_p.E441Q|MBD5_uc002twp.2_Missense_Mutation_p.E233Q	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1183						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		AGATGGGTTTGAATATTTCAA	0.493													11	195	---	---	---	---	PASS	C	149247447	C	C	149247447	3	2	156	1	0	0	0	0	1	0	0	0	9347	1291	45	2	3573	2	MBD5	2	149247447	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	541683	149247447	93951926	81	55345										
GALNT5	11227	broad.mit.edu	37	chr2	158115055	158115055	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aggcaccaaacctgaagcctCctctcaccaggggacaccaa	8	16	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:158115055C>G	uc002tzg.2	+	1	716	c.461C>G	c.(460-462)TCC>TGC	p.S154C	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	154	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						CCTGAAGCCTCCTCTCACCAG	0.532													15	143	---	---	---	---	PASS	G	158115055	G	G	158115055	3	3	156	1	0	0	0	0	1	0	0	0	6216	855	30	2	463	2	GALNT5	2	158115055	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	8867608	158115055	85084318	82	55346										
PLA2R1	22925	broad.mit.edu	37	chr2	160806154	160806154	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaatggcaccttgcagaaatGactcgcaggctgtgctatgc	11	10	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:160806154G>C	uc002ube.1	-	25	3881	c.3674C>G	c.(3673-3675)TCA>TGA	p.S1225*	PLA2R1_uc010zcp.1_Nonsense_Mutation_p.S1225*|PLA2R1_uc002ubf.2_Nonsense_Mutation_p.S1225*	NM_007366	NP_031392	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1 isoform 1 precursor	1225	Extracellular (Potential).|C-type lectin 7.				endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding			skin(2)|ovary(1)	3						TTGCAGAAATGACTCGCAGGC	0.363													14	76	---	---	---	---	PASS	C	160806154	C	C	160806154	4	2	156	1	0	0	0	0	0	1	0	0	12010	1294	45	2	749	2	PLA2R1	2	160806154	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2691099	160806154	82393219	83	55347										
IFIH1	64135	broad.mit.edu	37	chr2	163130385	163130385	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aatatccagaccttcttctgCcactgtggtagcgataagca	8	11	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:163130385C>T	uc002uce.2	-	12	2596	c.2374G>A	c.(2374-2376)GCA>ACA	p.A792T		NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	792	Helicase C-terminal.				detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1						CCTTCTTCTGCCACTGTGGTA	0.338													33	148	---	---	---	---	PASS	T	163130385	T	T	163130385	3	4	156	1	0	0	0	0	1	0	0	0	7520	739	26	3	723	3	IFIH1	2	163130385	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2324231	163130385	80068988	84	55348										
KCNH7	90134	broad.mit.edu	37	chr2	163374451	163374451	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggtccggatatattcaccaaGggagaacatttgctgggctg	13	8	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:163374451G>T	uc002uch.1	-	4	893	c.681C>A	c.(679-681)CCC>CCA	p.P227P	KCNH7_uc002uci.2_Silent_p.P227P	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	227	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	TATTCACCAAGGGAGAACATT	0.483													43	199	---	---	---	---	PASS	T	163374451	T	T	163374451	2	4	156	1	0	0	0	0	0	0	0	1	8037	987	35	3		3	KCNH7	2	163374451	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	244066	163374451	79824922	85	55349										
FIGN	55137	broad.mit.edu	37	chr2	164468167	164468167	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggatgcagtcagagcagataTgtcatcattcgcccaggcgt	12	10	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:164468167T>C	uc002uck.1	-	3	486	c.175A>G	c.(175-177)ATA>GTA	p.I59V		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	59						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						AGAGCAGATATGTCATCATTC	0.493													91	224	---	---	---	---	PASS	C	164468167	C	C	164468167	3	2	156	1	0	0	0	0	1	0	0	0	5891	1464	51	5	2108	5	FIGN	2	164468167	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	1093716	164468167	78731206	86	55350										
SCN3A	6328	broad.mit.edu	37	chr2	165994424	165994424	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caacacactactgaattgctCagtcatggggtagtgctcca	9	11	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:165994424C>T	uc002ucx.2	-	15	2848	c.2356G>A	c.(2356-2358)GAG>AAG	p.E786K	SCN3A_uc002ucy.2_Missense_Mutation_p.E737K|SCN3A_uc002ucz.2_Missense_Mutation_p.E737K|SCN3A_uc002uda.1_Missense_Mutation_p.E606K|SCN3A_uc002udb.1_Missense_Mutation_p.E606K	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	786						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	CTGAATTGCTCAGTCATGGGG	0.383													25	137	---	---	---	---	PASS	T	165994424	T	T	165994424	3	4	156	1	0	0	0	0	1	0	0	0	13918	835	29	2	3702	2	SCN3A	2	165994424	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1526257	165994424	77204949	87	55351										
TTC21B	79809	broad.mit.edu	37	chr2	166786171	166786171	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atactgtaccgcagattttcCaatggattgctggatttcat	8	8	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:166786171C>A	uc002udk.2	-	10	1307	c.1174G>T	c.(1174-1176)GGA>TGA	p.G392*	TTC21B_uc002udl.2_Nonsense_Mutation_p.G392*	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	392						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						GCAGATTTTCCAATGGATTGC	0.323													23	67	---	---	---	---	PASS	A	166786171	A	A	166786171	4	1	156	1	0	0	0	0	0	1	0	0	16685	603	21	3	2856	3	TTC21B	2	166786171	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	791747	166786171	76413202	88	55352										
XIRP2	129446	broad.mit.edu	37	chr2	168100159	168100159	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atggttcgggccaaatgctgGaaattaaaactgttcacaga	10	7	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:168100159G>A	uc002udx.2	+	8	2275	c.2257G>A	c.(2257-2259)GAA>AAA	p.E753K	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E578K|XIRP2_uc010fpq.2_Missense_Mutation_p.E531K|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	578					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CCAAATGCTGGAAATTAAAAC	0.363													9	137	---	---	---	---	PASS	A	168100159	A	A	168100159	3	1	156	1	0	0	0	0	1	0	0	0	17427	1175	41	2	2287	2	XIRP2	2	168100159	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1313988	168100159	75099214	89	55353										
LRP2	4036	broad.mit.edu	37	chr2	170012911	170012911	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccaaattgttcacattcattGatatctgtaggcaaaataaa	5	7	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:170012911G>A	uc002ues.2	-	65	12237	c.12024C>T	c.(12022-12024)ATC>ATT	p.I4008I		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4008	EGF-like 15; calcium-binding (Potential).|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CACATTCATTGATATCTGTAG	0.418													11	169	---	---	---	---	PASS	A	170012911	A	A	170012911	2	1	156	1	0	0	0	0	0	0	0	1	8956	1280	45	2		2	LRP2	2	170012911	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1912752	170012911	73186462	90	55354										
LRP2	4036	broad.mit.edu	37	chr2	170097688	170097688	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cgatcacagagccatgccctGtggatgcagtttccgttgtc	11	12	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:170097688G>A	uc002ues.2	-	25	4068	c.3855C>T	c.(3853-3855)CAC>CAT	p.H1285H	LRP2_uc010zdf.1_Silent_p.H1148H	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1285	LDL-receptor class A 14.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GCCATGCCCTGTGGATGCAGT	0.527													81	182	---	---	---	---	PASS	A	170097688	A	A	170097688	2	1	156	1	0	0	0	0	0	0	0	1	8956	1368	48	3		3	LRP2	2	170097688	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	84777	170097688	73101685	91	55355										
HOXD4	3233	broad.mit.edu	37	chr2	177017467	177017467	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gccgtcggattgaaatcgctCacaccctgtgtctgtcggag	12	12	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:177017467C>T	uc002uks.2	+	2	814	c.565C>T	c.(565-567)CAC>TAC	p.H189Y		NM_014621	NP_055436	P09016	HXD4_HUMAN	homeobox D4	189	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00765)|Epithelial(96;0.105)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		TGAAATCGCTCACACCCTGTG	0.512													19	233	---	---	---	---	PASS	T	177017467	T	T	177017467	3	4	156	1	0	0	0	0	1	0	0	0	7324	826	29	2	571	2	HOXD4	2	177017467	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	6919779	177017467	66181906	92	55356										
TTN	7273	broad.mit.edu	37	chr2	179453829	179453829	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acacctatcactggacacatCaacaattttcagatttctca	3	12	4	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:179453829C>T	uc010zfg.1	-	253	55143	c.54919G>A	c.(54919-54921)GAT>AAT	p.D18307N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D12002N|TTN_uc010zfi.1_Missense_Mutation_p.D11935N|TTN_uc010zfj.1_Missense_Mutation_p.D11810N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19234							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)			CTGGACACATCAACAATTTTC	0.418													26	92	---	---	---	---	PASS	T	179453829	T	T	179453829	3	4	156	1	0	0	0	0	1	0	0	0	16732	826	29	2	45592	2	TTN	2	179453829	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2436362	179453829	63745544	93	55357										
TTN	7273	broad.mit.edu	37	chr2	179458966	179458966	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtcgaggtgaagcgttgggGgtgctaaaatttgtaattat	14	3	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:179458966G>C	uc010zfg.1	-	246	50674	c.50450C>G	c.(50449-50451)CCC>CGC	p.P16817R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P10512R|TTN_uc010zfi.1_Missense_Mutation_p.P10445R|TTN_uc010zfj.1_Missense_Mutation_p.P10320R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17744							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)			AAGCGTTGGGGGTGCTAAAAT	0.393													20	76	---	---	---	---	PASS	C	179458966	C	C	179458966	3	2	156	1	0	0	0	0	1	0	0	0	16732	1232	43	4	50089	4	TTN	2	179458966	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5137	179458966	63740407	94	55358										
TTN	7273	broad.mit.edu	37	chr2	179544672	179544672	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcagttatgaactcctcttCttcatgaatgtactcttctt	4	11	6	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:179544672C>A	uc010zfg.1	-	137	30021	c.29797G>T	c.(29797-29799)GAA>TAA	p.E9933*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.E6594*|TTN_uc010fre.1_Intron|TTN_uc002una.1_5'Flank|TTN_uc010frf.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10860							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)			AACTCCTCTTCTTCATGAATG	0.428													23	99	---	---	---	---	PASS	A	179544672	A	A	179544672	4	1	156	1	0	0	0	0	0	1	0	0	16732	922	32	2	70892	2	TTN	2	179544672	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	85706	179544672	63654701	95	55359										
TTN	7273	broad.mit.edu	37	chr2	179598557	179598557	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccctctcacagcagcttgcaGggtaacggtttgtcctccta	9	14	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:179598557G>T	uc010zfg.1	-	50	12051	c.11827C>A	c.(11827-11829)CTG>ATG	p.L3943M	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.L604M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4870							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)			GCAGCTTGCAGGGTAACGGTT	0.408													44	153	---	---	---	---	PASS	T	179598557	T	T	179598557	3	4	156	1	0	0	0	0	1	0	0	0	16732	991	35	3	89210	3	TTN	2	179598557	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	53885	179598557	63600816	96	55360										
ZNF385B	151126	broad.mit.edu	37	chr2	180309645	180309645	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggagtttgttgtaagggctGtattttggcttcagtggttt	14	3	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:180309645G>A	uc002unn.3	-	9	1759	c.1155C>T	c.(1153-1155)TAC>TAT	p.Y385Y	ZNF385B_uc002unj.2_Silent_p.Y283Y|ZNF385B_uc002unk.2_RNA|ZNF385B_uc002unl.2_Silent_p.Y282Y|ZNF385B_uc002unm.2_Silent_p.Y309Y	NM_152520	NP_689733	Q569K4	Z385B_HUMAN	zinc finger protein 385B isoform 1	385						nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			TGTAAGGGCTGTATTTTGGCT	0.488													18	526	---	---	---	---	PASS	A	180309645	A	A	180309645	2	1	156	1	0	0	0	0	0	0	0	1	17874	1372	48	3		3	ZNF385B	2	180309645	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	711088	180309645	62889728	97	55361										
PDE1A	5136	broad.mit.edu	37	chr2	183099170	183099170	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttatgtcacctttaatgttaCgatgacagctgctggatatg	9	7	1	1	rs148461027		TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:183099170C>A	uc002uos.2	-	5	538	c.454G>T	c.(454-456)GTA>TTA	p.V152L	PDE1A_uc010zfp.1_Missense_Mutation_p.V48L|PDE1A_uc002uoq.1_Missense_Mutation_p.V152L|PDE1A_uc010zfq.1_Missense_Mutation_p.V152L|PDE1A_uc002uor.2_Missense_Mutation_p.V136L|PDE1A_uc002uou.2_Missense_Mutation_p.V118L	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	152					activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			TTTAATGTTACGATGACAGCT	0.269													18	74	---	---	---	---	PASS	A	183099170	A	A	183099170	3	1	156	1	0	0	0	0	1	0	0	0	11633	536	19	1	1275	1	PDE1A	2	183099170	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2789525	183099170	60100203	98	55362										
ZNF804A	91752	broad.mit.edu	37	chr2	185731138	185731138	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccatagcaaaagctctggaaGatctgaaggcaaatttttac	8	8	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:185731138G>A	uc002uph.2	+	2	748	c.154G>A	c.(154-156)GAT>AAT	p.D52N		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	52						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						AGCTCTGGAAGATCTGAAGGC	0.373													16	95	---	---	---	---	PASS	A	185731138	A	A	185731138	3	1	156	1	0	0	0	0	1	0	0	0	18167	942	33	2	160	2	ZNF804A	2	185731138	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2631968	185731138	57468235	99	55363										
DIRC1	116093	broad.mit.edu	37	chr2	189599558	189599558	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgggcattgctgagtggtggCaagtaacaggaaacaggctt	15	6	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:189599558C>A	uc002uqi.1	-	2	361	c.90G>T	c.(88-90)TTG>TTT	p.L30F		NM_052952	NP_443184	Q969H9	DIRC1_HUMAN	disrupted in renal carcinoma 1	30											0			OV - Ovarian serous cystadenocarcinoma(117;0.00842)|Epithelial(96;0.102)			TGAGTGGTGGCAAGTAACAGG	0.512													18	211	---	---	---	---	PASS	A	189599558	A	A	189599558	3	1	156	1	0	0	0	0	1	0	0	0	4533	709	25	3	228	3	DIRC1	2	189599558	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3868420	189599558	53599815	100	55364										
SLC39A10	57181	broad.mit.edu	37	chr2	196578165	196578165	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttctttttttagggaaaacaGaaatggtttatgaaacagaa	8	3	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:196578165G>A	uc002utg.3	+	6	1798	c.1584G>A	c.(1582-1584)CAG>CAA	p.Q528Q	SLC39A10_uc002uth.3_Silent_p.Q528Q|SLC39A10_uc010zgp.1_Silent_p.Q78Q	NM_001127257	NP_001120729	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter),	528					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.221)			AGGGAAAACAGAAATGGTTTA	0.313													5	55	---	---	---	---	PASS	A	196578165	A	A	196578165	2	1	156	1	0	0	0	0	0	0	0	1	14613	933	33	2		2	SLC39A10	2	196578165	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	6978607	196578165	46621208	101	55365										
DNAH7	56171	broad.mit.edu	37	chr2	196709816	196709816	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcacagcttctcccagggtaCccataagagagcaatcatct	7	13	4	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:196709816C>T	uc002utj.3	-	47	8956	c.8855G>A	c.(8854-8856)GGT>GAT	p.G2952D		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2952					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TCCCAGGGTACCCATAAGAGA	0.378													30	77	---	---	---	---	PASS	T	196709816	T	T	196709816	3	4	156	1	0	0	0	0	1	0	0	0	4606	507	18	3	3295	3	DNAH7	2	196709816	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	131651	196709816	46489557	102	55366										
C2orf66	401027	broad.mit.edu	37	chr2	197674075	197674075	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggtcatggtggagtgaagctGagtgaaagaggggatgcggg	21	3	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:197674075G>A	uc002utv.2	-	1	926	c.37C>T	c.(37-39)CAG>TAG	p.Q13*		NM_213608	NP_998773	Q6UXQ4	CB066_HUMAN	hypothetical protein LOC401027 precursor	13						extracellular region					0						GAGTGAAGCTGAGTGAAAGAG	0.498													43	224	---	---	---	---	PASS	A	197674075	A	A	197674075	4	1	156	1	0	0	0	0	0	1	0	0	2185	1299	45	2	324	2	C2orf66	2	197674075	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	964259	197674075	45525298	103	55367										
FAM117B	150864	broad.mit.edu	37	chr2	203591054	203591054	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagaaagacagtctccatttCatggcaaccatgcagctatt	7	10	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:203591054C>T	uc010zhx.1	+	4	938	c.928C>T	c.(928-930)CAT>TAT	p.H310Y		NM_173511	NP_775782	Q6P1L5	F117B_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	310										ovary(1)	1						GTCTCCATTTCATGGCAACCA	0.388													9	154	---	---	---	---	PASS	T	203591054	T	T	203591054	3	4	156	1	0	0	0	0	1	0	0	0	5410	826	29	2	942	2	FAM117B	2	203591054	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	5916979	203591054	39608319	104	55368										
MAP2	4133	broad.mit.edu	37	chr2	210560660	210560660	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcttccgctcagacacccttCagataactgacctgggtgtc	8	14	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:210560660C>G	uc002vde.1	+	7	4014	c.3766C>G	c.(3766-3768)CAG>GAG	p.Q1256E	MAP2_uc002vdc.1_Missense_Mutation_p.Q1256E|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.Q1252E	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1256					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)	AGACACCCTTCAGATAACTGA	0.488													24	150	---	---	---	---	PASS	G	210560660	G	G	210560660	3	3	156	1	0	0	0	0	1	0	0	0	9235	827	29	2	3780	2	MAP2	2	210560660	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	6969606	210560660	32638713	105	55369										
MAP2	4133	broad.mit.edu	37	chr2	210574737	210574737	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caccccaccaagttattcttCacgcacaccaggcactcctg	5	18	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:210574737C>T	uc002vde.1	+	12	5080	c.4832C>T	c.(4831-4833)TCA>TTA	p.S1611L	MAP2_uc002vdd.1_Missense_Mutation_p.S312L|MAP2_uc002vdf.1_Missense_Mutation_p.S255L|MAP2_uc002vdg.1_Missense_Mutation_p.S255L|MAP2_uc002vdh.1_Missense_Mutation_p.S312L|MAP2_uc002vdi.1_Missense_Mutation_p.S1607L	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1611					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)	AGTTATTCTTCACGCACACCA	0.582													18	189	---	---	---	---	PASS	T	210574737	T	T	210574737	3	4	156	1	0	0	0	0	1	0	0	0	9235	838	29	2	5041	2	MAP2	2	210574737	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	14077	210574737	32624636	106	55370										
ABCA12	26154	broad.mit.edu	37	chr2	215813451	215813451	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgagctgtgagaatcaacgtGacccagagatctgaattgag	12	7	2	6			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:215813451G>C	uc002vew.2	-	47	7193	c.6973C>G	c.(6973-6975)CAC>GAC	p.H2325D	ABCA12_uc002vev.2_Missense_Mutation_p.H2007D|ABCA12_uc010zjn.1_Missense_Mutation_p.H1252D	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	2325	ABC transporter 2.				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GAATCAACGTGACCCAGAGAT	0.423													33	128	---	---	---	---	PASS	C	215813451	C	C	215813451	3	2	156	1	0	0	0	0	1	0	0	0	30	1290	45	2	842	2	ABCA12	2	215813451	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5238714	215813451	27385922	107	55371										
ATIC	471	broad.mit.edu	37	chr2	216191601	216191601	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcagattatttcaggaaacaGtacagcaaaggcgtatctca	8	8	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:216191601G>T	uc002vex.3	+	7	762	c.588G>T	c.(586-588)CAG>CAT	p.Q196H	ATIC_uc010zjo.1_Missense_Mutation_p.Q137H|ATIC_uc002vey.3_Missense_Mutation_p.Q195H	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	196					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity		ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	TCAGGAAACAGTACAGCAAAG	0.463			T	ALK	ALCL								138	358	---	---	---	---	PASS	T	216191601	T	T	216191601	3	4	156	1	0	0	0	0	1	0	0	0	1105	1020	36	3	614	3	ATIC	2	216191601	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	378150	216191601	27007772	108	55372										
STK36	27148	broad.mit.edu	37	chr2	219563856	219563856	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggcagctgcagtgcccagtAtgacccagctgcttggagat	13	11	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:219563856A>G	uc002viu.2	+	26	3855	c.3589A>G	c.(3589-3591)ATG>GTG	p.M1197V	STK36_uc002viv.2_Missense_Mutation_p.M1176V|STK36_uc002viw.2_Missense_Mutation_p.M375V|STK36_uc002vix.2_Missense_Mutation_p.M242V	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	1197					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		AGTGCCCAGTATGACCCAGCT	0.592													40	103	---	---	---	---	PASS	G	219563856	G	G	219563856	3	3	156	1	0	0	0	0	1	0	0	0	15301	449	16	5	3687	5	STK36	2	219563856	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	3372255	219563856	23635517	109	55373										
TTLL4	9654	broad.mit.edu	37	chr2	219614860	219614860	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccccagcagctgcagcagctCcaccaccaggtgaggcccct	10	19	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:219614860C>G	uc002viy.2	+	15	3234	c.2864C>G	c.(2863-2865)TCC>TGC	p.S955C	TTLL4_uc010zkl.1_Missense_Mutation_p.S790C|TTLL4_uc010fvx.2_Missense_Mutation_p.S891C|TTLL4_uc010zkm.1_Missense_Mutation_p.S158C	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	955					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)		TGCAGCAGCTCCACCACCAGG	0.537													29	274	---	---	---	---	PASS	G	219614860	G	G	219614860	3	3	156	1	0	0	0	0	1	0	0	0	16726	855	30	2	2914	2	TTLL4	2	219614860	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	51004	219614860	23584513	110	55374										
ANKZF1	55139	broad.mit.edu	37	chr2	220098130	220098130	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgctggagccaacctgaggcGctacaatgaagccacactat	10	12	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:220098130G>T	uc002vkg.2	+	7	968	c.794G>T	c.(793-795)CGC>CTC	p.R265L	ANKZF1_uc010zkv.1_Missense_Mutation_p.R209L|ANKZF1_uc010zkw.1_Missense_Mutation_p.R55L|ANKZF1_uc002vkh.2_Missense_Mutation_p.R55L|ANKZF1_uc002vki.2_Missense_Mutation_p.R265L|ANKZF1_uc002vkj.1_Missense_Mutation_p.R253L	NM_018089	NP_060559	Q9H8Y5	ANKZ1_HUMAN	ankyrin repeat and zinc finger domain containing	265						intracellular	zinc ion binding			ovary(2)	2		Renal(207;0.0474)		Epithelial(149;1.2e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AACCTGAGGCGCTACAATGAA	0.512													22	68	---	---	---	---	PASS	T	220098130	T	T	220098130	3	4	156	1	0	0	0	0	1	0	0	0	693	1087	38	1	816	1	ANKZF1	2	220098130	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	483270	220098130	23101243	111	55375										
ACCN4	55515	broad.mit.edu	37	chr2	220400040	220400040	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtacaaccgcaacgagacctAcatacggtatgtgtgtgtgt	11	9	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:220400040A>G	uc002vma.2	+	5	1561	c.1547A>G	c.(1546-1548)TAC>TGC	p.Y516C	ACCN4_uc002vlz.2_Missense_Mutation_p.Y535C|ACCN4_uc002vmb.2_Missense_Mutation_p.Y189C	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	516	Extracellular (Potential).					integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		AACGAGACCTACATACGgtat	0.368													11	61	---	---	---	---	PASS	G	220400040	G	G	220400040	3	3	156	1	0	0	0	0	1	0	0	0	131	391	14	5	1626	5	ACCN4	2	220400040	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	301910	220400040	22799333	112	55376										
STK11IP	114790	broad.mit.edu	37	chr2	220466708	220466708	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccctcctctttccttgtcccAgctccgaggtgttcccctcc	6	20	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:220466708A>T	uc002vml.2	+	5	419	c.376_splice	c.e5-2	p.L126_splice	STK11IP_uc010zlj.1_3'UTR|STK11IP_uc010zlk.1_Splice_Site_p.L115_splice|STK11IP_uc010zll.1_Splice_Site_p.L115_splice|STK11IP_uc002vmm.1_Splice_Site_p.L115_splice	NM_052902	NP_443134	Q8N1F8	S11IP_HUMAN	LKB1 interacting protein						protein localization	cytoplasm	protein kinase binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;2.69e-07)|all cancers(144;5.91e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCCTTGTCCCAGCTCCGAGGT	0.582													7	49	---	---	---	---	PASS	T	220466708	T	T	220466708	5	4	156	1	0	0	0	0	0	0	1	0	15287	202	7	5	392	5	STK11IP	2	220466708	Splice_Site	SNP	A	TCGA-66-2773-01A-01D-1267-08	66668	220466708	22732665	113	55377										
STK11IP	114790	broad.mit.edu	37	chr2	220478611	220478611	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccgctgtgtgctgctgccccGagatgccaggcattgccggg	15	14	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:220478611G>A	uc002vml.2	+	21	2751	c.2708G>A	c.(2707-2709)CGA>CAA	p.R903Q		NM_052902	NP_443134	Q8N1F8	S11IP_HUMAN	LKB1 interacting protein	903					protein localization	cytoplasm	protein kinase binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;2.69e-07)|all cancers(144;5.91e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTGCTGCCCCGAGATGCCAGG	0.577													7	82	---	---	---	---	PASS	A	220478611	A	A	220478611	3	1	156	1	0	0	0	0	1	0	0	0	15287	1058	37	2	2790	2	STK11IP	2	220478611	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	11903	220478611	22720762	114	55378										
SERPINE2	5270	broad.mit.edu	37	chr2	224866483	224866483	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acgatgttgtcatgaggcctCgacttcacaatctgattgaa	9	9	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:224866483C>T	uc002vnu.2	-	2	378	c.135G>A	c.(133-135)TCG>TCA	p.S45S	SERPINE2_uc002vnt.2_Silent_p.S45S|SERPINE2_uc010zlr.1_Silent_p.S57S|SERPINE2_uc002vnv.2_Silent_p.S45S	NM_006216	NP_006207	P07093	GDN_HUMAN	plasminogen activator inhibitor type 1, member 2	45					negative regulation of blood coagulation|negative regulation of plasminogen activation|negative regulation of platelet aggregation|positive regulation of astrocyte differentiation|regulation of cell migration	cytosol|extracellular matrix|extracellular space|extrinsic to external side of plasma membrane|neuromuscular junction|platelet alpha granule	heparin binding|receptor binding|serine-type endopeptidase inhibitor activity			breast(2)|ovary(1)|central_nervous_system(1)	4		Renal(207;0.025)|all_lung(227;0.0586)|Lung NSC(271;0.0682)|all_hematologic(139;0.0797)		Epithelial(121;5.68e-10)|all cancers(144;1.9e-07)|Lung(261;0.0088)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CATGAGGCCTCGACTTCACAA	0.572													41	261	---	---	---	---	PASS	T	224866483	T	T	224866483	2	4	156	1	0	0	0	0	0	0	0	1	14112	871	31	2		2	SERPINE2	2	224866483	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	4387872	224866483	18332890	115	55379										
DOCK10	55619	broad.mit.edu	37	chr2	225635262	225635262	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cccaacagcgagaagcttacCtgaagatctccttcaaaagc	7	13	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:225635262C>T	uc010fwz.1	-	54	6544	c.6305G>A	c.(6304-6306)AGG>AAG	p.R2102K	DOCK10_uc002vob.2_Missense_Mutation_p.R2096K|DOCK10_uc002voa.2_Missense_Mutation_p.R758K	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	2102	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		AGAAGCTTACCTGAAGATCTC	0.468													29	71	---	---	---	---	PASS	T	225635262	T	T	225635262	3	4	156	1	0	0	0	0	1	0	0	0	4685	695	24	3	267	3	DOCK10	2	225635262	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	768779	225635262	17564111	116	55380										
SPHKAP	80309	broad.mit.edu	37	chr2	228881719	228881719	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagagtcagatttgcagagaCcggatgaggacgcgctactg	14	8	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:228881719C>A	uc002vpq.2	-	7	3898	c.3851G>T	c.(3850-3852)GGT>GTT	p.G1284V	SPHKAP_uc002vpp.2_Missense_Mutation_p.G1284V|SPHKAP_uc010zlx.1_Missense_Mutation_p.G1284V	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1284						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TTTGCAGAGACCGGATGAGGA	0.507													35	203	---	---	---	---	PASS	A	228881719	A	A	228881719	3	1	156	1	0	0	0	0	1	0	0	0	15047	507	18	3	1275	3	SPHKAP	2	228881719	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3246457	228881719	14317654	117	55381										
SP140L	93349	broad.mit.edu	37	chr2	231236354	231236354	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	actctactttgggaaaacccAagaggaaaagaagtaagaat	9	6	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:231236354A>G	uc010fxm.1	+	7	716	c.625A>G	c.(625-627)AAG>GAG	p.K209E	SP140L_uc010fxn.1_Missense_Mutation_p.K122E|SP140L_uc010fxo.1_Missense_Mutation_p.K16E	NM_138402	NP_612411	Q9H930	LY10L_HUMAN	SP140 nuclear body protein-like	209						nucleus	DNA binding|metal ion binding			central_nervous_system(1)	1						GGGAAAACCCAAGAGGAAAAG	0.279													11	71	---	---	---	---	PASS	G	231236354	G	G	231236354	3	3	156	1	0	0	0	0	1	0	0	0	14963	131	5	5	651	5	SP140L	2	231236354	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	2354635	231236354	11963019	118	55382										
IQCA1	79781	broad.mit.edu	37	chr2	237405854	237405854	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcatcgaaataatggaactcCgtgagttccagctccaccat	7	12	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:237405854C>A	uc002vvz.1	-	2	470	c.288G>T	c.(286-288)ACG>ACT	p.T96T	IQCA1_uc002vwb.2_Silent_p.T103T|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Silent_p.T96T	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	96							ATP binding			ovary(1)	1						AATGGAACTCCGTGAGTTCCA	0.473													19	46	---	---	---	---	PASS	A	237405854	A	A	237405854	2	1	156	1	0	0	0	0	0	0	0	1	7802	639	23	1		1	IQCA1	2	237405854	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	6169500	237405854	5793519	119	55383										
FARP2	9855	broad.mit.edu	37	chr2	242402832	242402832	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctccaacatcgatcccatctAtgagttccacagaggcttcc	6	15	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr2:242402832A>G	uc002wbi.1	+	16	1877	c.1760A>G	c.(1759-1761)TAT>TGT	p.Y587C	FARP2_uc010zoq.1_Missense_Mutation_p.Y587C|FARP2_uc010zor.1_Missense_Mutation_p.Y587C	NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	587	DH.				axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		GATCCCATCTATGAGTTCCAC	0.592													12	196	---	---	---	---	PASS	G	242402832	G	G	242402832	3	3	156	1	0	0	0	0	1	0	0	0	5677	449	16	5	1818	5	FARP2	2	242402832	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	4996978	242402832	796541	120	55384										
CNTN6	27255	broad.mit.edu	37	chr3	1424979	1424979	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tctttctctggatggtagaaCctcaactggccccaagggga	11	11	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:1424979C>T	uc003boz.2	+	19	2671	c.2404C>T	c.(2404-2406)CCT>TCT	p.P802S	CNTN6_uc011asj.1_Missense_Mutation_p.P730S|CNTN6_uc003bpa.2_Missense_Mutation_p.P802S	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	802	Fibronectin type-III 3.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		GATGGTAGAACCTCAACTGGC	0.423													71	358	---	---	---	---	PASS	T	1424979	T	T	1424979	3	4	156	1	0	0	0	0	1	0	0	0	3645	507	18	3	2474	3	CNTN6	3	1424979	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08		1424979	196597451	121	55385										
ITPR1	3708	broad.mit.edu	37	chr3	4808361	4808361	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaaataaaaagaaagacgatGaggtagacagggatgcccca	12	6	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:4808361G>C	uc003bqa.2	+	42	5896	c.5548G>C	c.(5548-5550)GAG>CAG	p.E1850Q	ITPR1_uc010hca.1_Missense_Mutation_p.E1835Q|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.E820Q	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1898	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GAAAGACGATGAGGTAGACAG	0.438													9	67	---	---	---	---	PASS	C	4808361	C	C	4808361	3	2	156	1	0	0	0	0	1	0	0	0	7920	1291	45	2	5862	2	ITPR1	3	4808361	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3383382	4808361	193214069	122	55386										
KCNH8	131096	broad.mit.edu	37	chr3	19554594	19554594	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcacaaggggatcttcttcgCgcaacaagaaggttggaagc	13	9	2	1	rs138619397		TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:19554594C>G	uc003cbk.1	+	13	2407	c.2212C>G	c.(2212-2214)CGC>GGC	p.R738G	KCNH8_uc010hex.1_Missense_Mutation_p.R199G	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	738	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity	p.R738L(1)		lung(4)|ovary(1)	5						ATCTTCTTCGCGCAACAAGAA	0.428													21	64	---	---	---	---	PASS	G	19554594	G	G	19554594	3	3	156	1	0	0	0	0	1	0	0	0	8038	768	27	4	2262	4	KCNH8	3	19554594	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	14746233	19554594	178467836	123	55387										
KAT2B	8850	broad.mit.edu	37	chr3	20189783	20189783	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tacagcacgctcaagagcatCctccagcaggtgaaggtggg	13	11	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:20189783C>T	uc003cbq.2	+	16	2651	c.2205C>T	c.(2203-2205)ATC>ATT	p.I735I		NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	735					cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TCAAGAGCATCCTCCAGCAGG	0.408													25	82	---	---	---	---	PASS	T	20189783	T	T	20189783	2	4	156	1	0	0	0	0	0	0	0	1	7982	845	30	2		2	KAT2B	3	20189783	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	635189	20189783	177832647	124	55388										
RARB	5915	broad.mit.edu	37	chr3	25636025	25636025	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atccagaccgccaggaccttGaggaaccgacaaaagtagat	10	11	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:25636025G>C	uc011awl.1	+	7	1093	c.1027G>C	c.(1027-1029)GAG>CAG	p.E343Q	RARB_uc003cdi.1_Missense_Mutation_p.E224Q|RARB_uc003cdh.2_Missense_Mutation_p.E336Q	NM_016152	NP_057236	P10826	RARB_HUMAN	retinoic acid receptor, beta isoform 2	343	Ligand-binding.				embryonic digestive tract development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	protein binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|large_intestine(1)|pancreas(1)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tamibarotene(DB04942)|Tazarotene(DB00799)	CCAGGACCTTGAGGAACCGAC	0.398													7	110	---	---	---	---	PASS	C	25636025	C	C	25636025	3	2	156	1	0	0	0	0	1	0	0	0	13053	1291	45	2	1032	2	RARB	3	25636025	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5446242	25636025	172386405	125	55389										
EOMES	8320	broad.mit.edu	37	chr3	27759023	27759023	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tattcagattcataggaactGatgtctagtttgttggtccc	9	7	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:27759023G>C	uc003cdx.2	-	6	1599	c.1599C>G	c.(1597-1599)ATC>ATG	p.I533M	EOMES_uc003cdy.3_Missense_Mutation_p.I552M|EOMES_uc010hfn.2_3'UTR|EOMES_uc011axc.1_Missense_Mutation_p.I257M	NM_005442	NP_005433	O95936	EOMES_HUMAN	eomesodermin	533					CD8-positive, alpha-beta T cell differentiation involved in immune response|cell differentiation involved in embryonic placenta development|endoderm formation|mesoderm formation|mesodermal to mesenchymal transition involved in gastrulation|positive regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|breast(1)	4						CATAGGAACTGATGTCTAGTT	0.532													15	340	---	---	---	---	PASS	C	27759023	C	C	27759023	3	2	156	1	0	0	0	0	1	0	0	0	5147	1280	45	2	465	2	EOMES	3	27759023	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2122998	27759023	170263407	126	55390										
EOMES	8320	broad.mit.edu	37	chr3	27763641	27763641	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaacttcttggacgctttgtCtaagtccaacttctgaggag	9	9	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:27763641C>G	uc003cdx.2	-	1	145	c.145G>C	c.(145-147)GAC>CAC	p.D49H	EOMES_uc003cdy.3_Missense_Mutation_p.D49H|EOMES_uc010hfn.2_Missense_Mutation_p.D49H|EOMES_uc011axc.1_Intron	NM_005442	NP_005433	O95936	EOMES_HUMAN	eomesodermin	49				D -> G (in Ref. 1; BAA83417).	CD8-positive, alpha-beta T cell differentiation involved in immune response|cell differentiation involved in embryonic placenta development|endoderm formation|mesoderm formation|mesodermal to mesenchymal transition involved in gastrulation|positive regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|breast(1)	4						GACGCTTTGTCTAAGTCCAAC	0.697													2	10	---	---	---	---	PASS	G	27763641	G	G	27763641	3	3	156	1	0	0	0	0	1	0	0	0	5147	913	32	2	1939	2	EOMES	3	27763641	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4618	27763641	170258789	127	55391										
ARPP21	10777	broad.mit.edu	37	chr3	35778738	35778738	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccaccagtcagcagcccctgCgaagcgccatggtggggcag	14	15	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:35778738C>T	uc003cgb.2	+	16	1792	c.1528C>T	c.(1528-1530)CGA>TGA	p.R510*	ARPP21_uc003cga.2_Nonsense_Mutation_p.R456*|ARPP21_uc011axy.1_Nonsense_Mutation_p.R476*|ARPP21_uc003cgf.2_Nonsense_Mutation_p.R311*|ARPP21_uc003cgg.2_5'UTR	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	510	Gln-rich.					cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						GCAGCCCCTGCGAAGCGCCAT	0.612													9	120	---	---	---	---	PASS	T	35778738	T	T	35778738	4	4	156	1	0	0	0	0	0	1	0	0	978	760	27	1	1595	1	ARPP21	3	35778738	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	8015097	35778738	162243692	128	55392										
ANO10	55129	broad.mit.edu	37	chr3	43618347	43618347	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tccatgtcgaagtaaatcatCatgacatacagtgagaaata	7	7	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:43618347C>G	uc003cmv.2	-	6	1170	c.999G>C	c.(997-999)ATG>ATC	p.M333I	ANO10_uc011azs.1_Missense_Mutation_p.M333I|ANO10_uc003cmw.2_Missense_Mutation_p.M267I|ANO10_uc010hil.2_Intron|ANO10_uc011azt.1_Missense_Mutation_p.M222I	NM_018075	NP_060545	Q9NW15	ANO10_HUMAN	transmembrane protein 16K	333	Helical; (Potential).				cell death	chloride channel complex	chloride channel activity			ovary(2)	2						AGTAAATCATCATGACATACA	0.512													7	57	---	---	---	---	PASS	G	43618347	G	G	43618347	3	3	156	1	0	0	0	0	1	0	0	0	696	826	29	2	1015	2	ANO10	3	43618347	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	7839609	43618347	154404083	129	55393										
COL7A1	1294	broad.mit.edu	37	chr3	48627116	48627116	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gacagatgagctgctggcctGagtcacatggaccgtcctca	12	12	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:48627116G>A	uc003ctz.2	-	16	2087	c.2086C>T	c.(2086-2088)CAG>TAG	p.Q696*		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	696	Nonhelical region (NC1).|Fibronectin type-III 6.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CTGCTGGCCTGAGTCACATGG	0.607													70	151	---	---	---	---	PASS	A	48627116	A	A	48627116	4	1	156	1	0	0	0	0	0	1	0	0	3704	1299	45	2	7160	2	COL7A1	3	48627116	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5008769	48627116	149395314	130	55394										
DALRD3	55152	broad.mit.edu	37	chr3	49054726	49054726	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caacttctgttgctggaactCctcctcacagctaacaacat	5	14	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:49054726C>T	uc003cvk.1	-	5	882	c.862G>A	c.(862-864)GAG>AAG	p.E288K	DALRD3_uc003cvl.1_Missense_Mutation_p.E288K|DALRD3_uc003cvm.1_Missense_Mutation_p.E121K|DALRD3_uc010hko.1_Missense_Mutation_p.E121K|DALRD3_uc011bca.1_Missense_Mutation_p.E288K	NM_001009996	NP_001009996	Q5D0E6	DALD3_HUMAN	DALR anticodon binding domain containing 3	288					arginyl-tRNA aminoacylation	cytoplasm	arginine-tRNA ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		TGCTGGAACTCCTCCTCACAG	0.512													20	333	---	---	---	---	PASS	T	49054726	T	T	49054726	3	4	156	1	0	0	0	0	1	0	0	0	4229	864	30	2	801	2	DALRD3	3	49054726	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	427610	49054726	148967704	131	55395										
CAMKV	79012	broad.mit.edu	37	chr3	49899591	49899591	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtcttgtccttggcccggaaGatttcacaaaactcctcact	7	13	3	1	rs111501823	byFrequency	TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:49899591G>A	uc003cxt.1	-	3	307	c.114C>T	c.(112-114)ATC>ATT	p.I38I	CAMKV_uc011bcy.1_5'UTR|CAMKV_uc003cxv.1_Silent_p.I38I|CAMKV_uc003cxw.1_5'UTR|CAMKV_uc003cxx.1_5'UTR|CAMKV_uc003cxu.2_Silent_p.I38I|CAMKV_uc011bcz.1_Missense_Mutation_p.S15F|CAMKV_uc011bda.1_Silent_p.I38I|CAMKV_uc011bdb.1_RNA	NM_024046	NP_076951	Q8NCB2	CAMKV_HUMAN	CaM kinase-like vesicle-associated	38	Protein kinase.					cytoplasmic vesicle membrane|plasma membrane	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|large_intestine(2)|central_nervous_system(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		TGGCCCGGAAGATTTCACAAA	0.592													24	70	---	---	---	---	PASS	A	49899591	A	A	49899591	2	1	156	1	0	0	0	0	0	0	0	1	2608	932	33	2		2	CAMKV	3	49899591	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	844865	49899591	148122839	132	55396										
VPRBP	9730	broad.mit.edu	37	chr3	51457744	51457744	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gggtagagagacaggagaagCagcagcagtgactggggtaa	18	5	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:51457744C>T	uc003dbe.1	-	14	2848	c.2680G>A	c.(2680-2682)GCT>ACT	p.A894T	VPRBP_uc003dbf.1_Missense_Mutation_p.A170T	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	894					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		ACAGGAGAAGCAGCAGCAGTG	0.577													60	121	---	---	---	---	PASS	T	51457744	T	T	51457744	3	4	156	1	0	0	0	0	1	0	0	0	17182	710	25	3	1887	3	VPRBP	3	51457744	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1558153	51457744	146564686	133	55397										
ACY1	95	broad.mit.edu	37	chr3	52021212	52021212	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccgggagaaggaatggcagaGgtgaggcagcctgggaggca	20	7	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:52021212G>C	uc003dcp.2	+	10	768	c.707G>C	c.(706-708)AGG>ACG	p.R236T	ACY1_uc011bea.1_Missense_Mutation_p.R326T|ACY1_uc011beb.1_Missense_Mutation_p.R236T|ACY1_uc003dcq.2_Missense_Mutation_p.R236T	NM_000666	NP_000657	Q03154	ACY1_HUMAN	aminoacylase 1	236					cellular amino acid metabolic process|proteolysis	cytosol	aminoacylase activity|metal ion binding|metallopeptidase activity			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	L-Aspartic Acid(DB00128)	GAATGGCAGAGGTGAGGCAGC	0.557													136	206	---	---	---	---	PASS	C	52021212	C	C	52021212	3	2	156	1	0	0	0	0	1	0	0	0	226	1014	35	4	741	4	ACY1	3	52021212	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	563468	52021212	146001218	134	55398										
DNAH12	201625	broad.mit.edu	37	chr3	57494205	57494205	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gatgaataatgtgcaaattaGagaatatttgatttcttgcc	8	4	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:57494205G>C	uc003dit.2	-	7	786	c.605C>G	c.(604-606)TCT>TGT	p.S202C	DNAH12_uc003diu.2_Missense_Mutation_p.S202C	NM_178504	NP_848599	Q6ZR08	DYH12_HUMAN	dynein heavy chain domain 2 isoform 1	202	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			pancreas(1)|skin(1)	2						GTGCAAATTAGAGAATATTTG	0.343													14	58	---	---	---	---	PASS	C	57494205	C	C	57494205	3	2	156	1	0	0	0	0	1	0	0	0	4600	942	33	2	8928	2	DNAH12	3	57494205	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5472993	57494205	140528225	135	55399										
ATXN7	6314	broad.mit.edu	37	chr3	63938123	63938123	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggtgtgtaacgactgtaatCaggttgtcaaaccgcaggca	12	8	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:63938123C>T	uc003dlw.3	+	5	1016	c.463C>T	c.(463-465)CAG>TAG	p.Q155*	ATXN7_uc003dlv.2_Nonsense_Mutation_p.Q155*|ATXN7_uc010hnv.2_Nonsense_Mutation_p.Q155*	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	155					cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		CGACTGTAATCAGGTTGTCAA	0.373													14	164	---	---	---	---	PASS	T	63938123	T	T	63938123	4	4	156	1	0	0	0	0	0	1	0	0	1215	827	29	2	473	2	ATXN7	3	63938123	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	6443918	63938123	134084307	136	55400										
ADAMTS9	56999	broad.mit.edu	37	chr3	64527054	64527054	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atgcaccagtgtcacgtactCtttggggtggtcagagtgca	13	9	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:64527054C>T	uc003dmg.2	-	35	5361	c.5329G>A	c.(5329-5331)GAG>AAG	p.E1777K	ADAMTS9_uc011bfo.1_Missense_Mutation_p.E1749K|ADAMTS9_uc011bfp.1_Missense_Mutation_p.E688K	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1777	GON.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		GTCACGTACTCTTTGGGGTGG	0.502													85	172	---	---	---	---	PASS	T	64527054	T	T	64527054	3	4	156	1	0	0	0	0	1	0	0	0	273	922	32	2	498	2	ADAMTS9	3	64527054	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	588931	64527054	133495376	137	55401										
OR5AC2	81050	broad.mit.edu	37	chr3	97806185	97806185	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	taatttggaacgacccccatCttcatatgcccatgtactta	5	12	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:97806185C>T	uc011bgs.1	+	1	169	c.169C>T	c.(169-171)CTT>TTT	p.L57F		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CGACCCCCATCTTCATATGCC	0.438													84	646	---	---	---	---	PASS	T	97806185	T	T	97806185	3	4	156	1	0	0	0	0	1	0	0	0	11141	913	32	2	171	2	OR5AC2	3	97806185	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	33279131	97806185	100216245	138	55402										
ALCAM	214	broad.mit.edu	37	chr3	105264155	105264155	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgcacaatatctgctagcagGaatgcaactgtggtatggat	11	7	1	0	rs139344282	byFrequency	TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:105264155G>A	uc003dvx.2	+	9	1620	c.1080G>A	c.(1078-1080)AGG>AGA	p.R360R	ALCAM_uc003dvw.1_Silent_p.R360R|ALCAM_uc003dvy.2_Silent_p.R360R|ALCAM_uc010hpp.2_Silent_p.R82R|ALCAM_uc003dvz.2_5'UTR	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	360	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						CTGCTAGCAGGAATGCAACTG	0.388													14	219	---	---	---	---	PASS	A	105264155	A	A	105264155	2	1	156	1	0	0	0	0	0	0	0	1	487	1165	41	2		2	ALCAM	3	105264155	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	7457970	105264155	92758275	139	55403										
GAP43	2596	broad.mit.edu	37	chr3	115395195	115395195	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggtgatgctgccacagagcaGgcagccccccaggctcctgc	13	16	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:115395195G>A	uc003ebq.2	+	2	752	c.366G>A	c.(364-366)CAG>CAA	p.Q122Q	GAP43_uc003ebr.2_Silent_p.Q158Q	NM_002045	NP_002036	P17677	NEUM_HUMAN	growth associated protein 43 isoform 2	122					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell differentiation|nervous system development|regulation of filopodium assembly|regulation of growth|response to wounding	cell junction|filopodium membrane|growth cone membrane|synapse	calmodulin binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.164)		CCACAGAGCAGGCAGCCCCCC	0.607													41	42	---	---	---	---	PASS	A	115395195	A	A	115395195	2	1	156	1	0	0	0	0	0	0	0	1	6235	991	35	3		3	GAP43	3	115395195	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	10131040	115395195	82627235	140	55404										
C3orf30	152405	broad.mit.edu	37	chr3	118865717	118865717	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agaccttctgtgcagattgaCagtgggtcatccgtcccatc	10	12	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:118865717C>A	uc003ecb.1	+	1	721	c.681C>A	c.(679-681)GAC>GAA	p.D227E	IGSF11_uc003eby.2_5'Flank|IGSF11_uc003ebz.2_5'Flank|IGSF11_uc010hqs.2_5'Flank|C3orf30_uc011biw.1_Missense_Mutation_p.D227E	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	227										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		TGCAGATTGACAGTGGGTCAT	0.493													43	386	---	---	---	---	PASS	A	118865717	A	A	118865717	3	1	156	1	0	0	0	0	1	0	0	0	2220	477	17	3	683	3	C3orf30	3	118865717	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3470522	118865717	79156713	141	55405										
ARHGAP31	57514	broad.mit.edu	37	chr3	119121087	119121087	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tttgcggtatctgtgccgctCcgcgtgtccgcagtcatcag	12	13	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:119121087C>T	uc003ecj.3	+	10	2020	c.1488C>T	c.(1486-1488)CTC>CTT	p.L496L		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	496					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						CTGTGCCGCTCCGCGTGTCCG	0.587													40	412	---	---	---	---	PASS	T	119121087	T	T	119121087	2	4	156	1	0	0	0	0	0	0	0	1	880	842	30	2		2	ARHGAP31	3	119121087	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	255370	119121087	78901343	142	55406										
ADPRH	141	broad.mit.edu	37	chr3	119301094	119301094	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tacaatgggaagtgggagttCctccaggatggggagaagat	16	5	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:119301094C>T	uc003ecs.2	+	3	376	c.78C>T	c.(76-78)TTC>TTT	p.F26F	ADPRH_uc010hqv.2_Silent_p.F26F|ADPRH_uc011bjb.1_Intron|ADPRH_uc003ect.2_Silent_p.F26F	NM_001125	NP_001116	P54922	ADPRH_HUMAN	ADP-ribosylarginine hydrolase	26					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding			ovary(1)	1		Lung NSC(201;0.0977)		GBM - Glioblastoma multiforme(114;0.23)		AGTGGGAGTTCCTCCAGGATG	0.572													11	186	---	---	---	---	PASS	T	119301094	T	T	119301094	2	4	156	1	0	0	0	0	0	0	0	1	331	854	30	2		2	ADPRH	3	119301094	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	180007	119301094	78721336	143	55407										
POLQ	10721	broad.mit.edu	37	chr3	121206895	121206895	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atgcccctgaccatatgaatGaatgattttgcctggtccca	8	11	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:121206895G>A	uc003eee.3	-	16	5012	c.4883C>T	c.(4882-4884)TCA>TTA	p.S1628L	POLQ_uc003eed.2_Missense_Mutation_p.S800L	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1628					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		CCATATGAATGAATGATTTTG	0.393								DNA_polymerases_(catalytic_subunits)					45	683	---	---	---	---	PASS	A	121206895	A	A	121206895	3	1	156	1	0	0	0	0	1	0	0	0	12208	1294	45	2	2949	2	POLQ	3	121206895	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1905801	121206895	76815535	144	55408										
GOLGB1	2804	broad.mit.edu	37	chr3	121413392	121413392	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtattttctccaaatattccTttcgtatttctgattccacc	3	11	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:121413392T>C	uc003eei.3	-	13	6089	c.5963A>G	c.(5962-5964)AAG>AGG	p.K1988R	GOLGB1_uc010hrc.2_Missense_Mutation_p.K1993R|GOLGB1_uc003eej.3_Missense_Mutation_p.K1954R|GOLGB1_uc011bjm.1_Missense_Mutation_p.K1874R|GOLGB1_uc010hrd.1_Missense_Mutation_p.K1952R	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1988	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CAAATATTCCTTTCGTATTTC	0.353													278	360	---	---	---	---	PASS	C	121413392	C	C	121413392	3	2	156	1	0	0	0	0	1	0	0	0	6565	1609	56	5	3856	5	GOLGB1	3	121413392	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	206497	121413392	76609038	145	55409										
MYLK	4638	broad.mit.edu	37	chr3	123452594	123452594	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctggctttggggcttgctctCaaatttggggaatgctgaat	13	7	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:123452594C>T	uc003ego.2	-	10	1531	c.1249G>A	c.(1249-1251)GAG>AAG	p.E417K	MYLK_uc011bjw.1_Missense_Mutation_p.E417K|MYLK_uc003egp.2_Missense_Mutation_p.E417K|MYLK_uc003egq.2_Missense_Mutation_p.E417K|MYLK_uc003egr.2_Missense_Mutation_p.E417K|MYLK_uc003egs.2_Missense_Mutation_p.E241K	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	417	Ig-like C2-type 3.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		GGCTTGCTCTCAAATTTGGGG	0.512													76	595	---	---	---	---	PASS	T	123452594	T	T	123452594	3	4	156	1	0	0	0	0	1	0	0	0	10056	835	29	2	4595	2	MYLK	3	123452594	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2039202	123452594	74569836	146	55410										
MCM2	4171	broad.mit.edu	37	chr3	127335943	127335943	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gctgaccgaggagtgtgtctCattgatgaatttgacaaggt	13	6	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:127335943C>T	uc003ejp.2	+	10	1812	c.1755C>T	c.(1753-1755)CTC>CTT	p.L585L	MCM2_uc011bkm.1_Silent_p.L455L|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Silent_p.L538L	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	585	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						GAGTGTGTCTCATTGATGAAT	0.617													70	452	---	---	---	---	PASS	T	127335943	T	T	127335943	2	4	156	1	0	0	0	0	0	0	0	1	9386	813	29	2		2	MCM2	3	127335943	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	3883349	127335943	70686487	147	55411										
ACAD11	84129	broad.mit.edu	37	chr3	132277834	132277834	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cttatatcttggctgtcagtCttttggcttggtcccgcagc	10	11	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:132277834C>G	uc003eov.3	-	20	2704	c.2324G>C	c.(2323-2325)AGA>ACA	p.R775T		NM_032169	NP_115545	Q709F0	ACD11_HUMAN	putative acyl-CoA dehydrogenase	775						peroxisome	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|transferase activity, transferring phosphorus-containing groups			ovary(1)	1						GGCTGTCAGTCTTTTGGCTTG	0.458													7	98	---	---	---	---	PASS	G	132277834	G	G	132277834	3	3	156	1	0	0	0	0	1	0	0	0	109	913	32	2	22	2	ACAD11	3	132277834	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4941891	132277834	65744596	148	55412										
SLCO2A1	6578	broad.mit.edu	37	chr3	133666117	133666117	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tacctaggggggtagacttcGgccacagttggggtggagca	17	8	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:133666117G>T	uc003eqa.3	-	9	1552	c.1278C>A	c.(1276-1278)GCC>GCA	p.A426A	SLCO2A1_uc003eqb.3_Silent_p.A350A|SLCO2A1_uc011blv.1_Silent_p.A245A	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	426	Extracellular (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						GGTAGACTTCGGCCACAGTTG	0.498													77	121	---	---	---	---	PASS	T	133666117	T	T	133666117	2	4	156	1	0	0	0	0	0	0	0	1	14726	1103	39	1		1	SLCO2A1	3	133666117	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1388283	133666117	64356313	149	55413										
PIK3CB	5291	broad.mit.edu	37	chr3	138375001	138375001	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	taccttaagatactgtatatCtttgactgatgtgagttcag	8	6	2	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:138375001C>G	uc011bmq.1	-	21	3058	c.3058G>C	c.(3058-3060)GAT>CAT	p.D1020H	PIK3CB_uc011bmn.1_Missense_Mutation_p.D532H|PIK3CB_uc011bmo.1_Missense_Mutation_p.D471H|PIK3CB_uc011bmp.1_Missense_Mutation_p.D607H|PIK3CB_uc003est.1_5'Flank	NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta	1020	PI3K/PI4K.				activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						TACTGTATATCTTTGACTGAT	0.423													10	146	---	---	---	---	PASS	G	138375001	G	G	138375001	3	3	156	1	0	0	0	0	1	0	0	0	11914	913	32	2	160	2	PIK3CB	3	138375001	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4708884	138375001	59647429	150	55414										
XRN1	54464	broad.mit.edu	37	chr3	142103448	142103448	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttcaccattttgatttatttGatatttacgacctgtgagta	6	6	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:142103448G>C	uc003eus.2	-	21	2486	c.2419C>G	c.(2419-2421)CAA>GAA	p.Q807E	XRN1_uc010huu.2_Missense_Mutation_p.Q273E|XRN1_uc003eut.2_Missense_Mutation_p.Q807E|XRN1_uc003euu.2_Missense_Mutation_p.Q807E|XRN1_uc003euv.1_Missense_Mutation_p.Q668E	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	807					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						TGATTTATTTGATATTTACGA	0.313													33	435	---	---	---	---	PASS	C	142103448	C	C	142103448	3	2	156	1	0	0	0	0	1	0	0	0	17456	1299	45	2	2789	2	XRN1	3	142103448	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3728447	142103448	55918982	151	55415										
PLS1	5357	broad.mit.edu	37	chr3	142389917	142389917	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggaagggattactgctattgGaggaacttcaactatttcca	10	7	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:142389917G>C	uc010huv.2	+	4	476	c.317G>C	c.(316-318)GGA>GCA	p.G106A	PLS1_uc003euz.2_Missense_Mutation_p.G106A|PLS1_uc003eva.2_Missense_Mutation_p.G106A	NM_001145319	NP_001138791	Q14651	PLSI_HUMAN	plastin 1	106						cytoplasm	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(1)	1						ACTGCTATTGGAGGAACTTCA	0.353													26	596	---	---	---	---	PASS	C	142389917	C	C	142389917	3	2	156	1	0	0	0	0	1	0	0	0	12107	1174	41	2	327	2	PLS1	3	142389917	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	286469	142389917	55632513	152	55416										
SLC9A9	285195	broad.mit.edu	37	chr3	142985730	142985730	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	taatttatggctagttcatcCtggtttacaatgcattccac	6	9	1	0	rs144511019		TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:142985730C>T	uc003evn.2	-	16	1934	c.1752G>A	c.(1750-1752)CAG>CAA	p.Q584Q		NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	584					regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						CTAGTTCATCCTGGTTTACAA	0.493													26	338	---	---	---	---	PASS	T	142985730	T	T	142985730	2	4	156	1	0	0	0	0	0	0	0	1	14721	680	24	3		3	SLC9A9	3	142985730	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	595813	142985730	55036700	153	55417										
PLOD2	5352	broad.mit.edu	37	chr3	145789130	145789130	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aactcccggataaaatgaagCcatacattctccagatcaac	5	12	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:145789130C>G	uc003evs.1	-	17	2372	c.1866G>C	c.(1864-1866)TGG>TGC	p.W622C	PLOD2_uc003evq.1_Missense_Mutation_p.W303C|PLOD2_uc011bnm.1_Missense_Mutation_p.W588C|PLOD2_uc003evr.1_Missense_Mutation_p.W643C	NM_000935	NP_000926	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	622					protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)	TAAAATGAAGCCATACATTCT	0.413													54	184	---	---	---	---	PASS	G	145789130	G	G	145789130	3	3	156	1	0	0	0	0	1	0	0	0	12102	740	26	4	359	4	PLOD2	3	145789130	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2803400	145789130	52233300	154	55418										
PLCH1	23007	broad.mit.edu	37	chr3	155215124	155215124	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cttaccgtcatccacaatgtCctgagcggccacggagtttg	10	13	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:155215124C>T	uc011bok.1	-	14	2120	c.1843G>A	c.(1843-1845)GAC>AAC	p.D615N	PLCH1_uc011boj.1_Missense_Mutation_p.D615N|PLCH1_uc011bol.1_Missense_Mutation_p.D597N	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	615	PI-PLC Y-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TCCACAATGTCCTGAGCGGCC	0.428													112	176	---	---	---	---	PASS	T	155215124	T	T	155215124	3	4	156	1	0	0	0	0	1	0	0	0	12037	855	30	2	3293	2	PLCH1	3	155215124	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	9425994	155215124	42807306	155	55419										
VEPH1	79674	broad.mit.edu	37	chr3	157081156	157081156	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagtacacaacacttaccttCaatggtacactgatcaggga	7	10	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:157081156C>T	uc003fbj.1	-	9	2049	c.1732G>A	c.(1732-1734)GAA>AAA	p.E578K	VEPH1_uc003fbk.1_Missense_Mutation_p.E578K|VEPH1_uc010hvu.1_Missense_Mutation_p.E578K	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	578						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			CACTTACCTTCAATGGTACAC	0.378													18	558	---	---	---	---	PASS	T	157081156	T	T	157081156	3	4	156	1	0	0	0	0	1	0	0	0	17151	835	29	2	793	2	VEPH1	3	157081156	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1866032	157081156	40941274	156	55420										
VEPH1	79674	broad.mit.edu	37	chr3	157081393	157081393	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcccccagctgtgatctctCagtgtctgtcttaaacggca	8	14	4	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:157081393C>T	uc003fbj.1	-	9	1812	c.1495G>A	c.(1495-1497)GAG>AAG	p.E499K	VEPH1_uc003fbk.1_Missense_Mutation_p.E499K|VEPH1_uc010hvu.1_Missense_Mutation_p.E499K	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	499						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			TGTGATCTCTCAGTGTCTGTC	0.428													14	378	---	---	---	---	PASS	T	157081393	T	T	157081393	3	4	156	1	0	0	0	0	1	0	0	0	17151	835	29	2	1030	2	VEPH1	3	157081393	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	237	157081393	40941037	157	55421										
RSRC1	51319	broad.mit.edu	37	chr3	157841720	157841720	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaaacgaagtcgaagtcgttCaaggggtcgagggaaatcct	14	7	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:157841720C>T	uc003fbt.2	+	3	371	c.260C>T	c.(259-261)TCA>TTA	p.S87L	RSRC1_uc011bou.1_Missense_Mutation_p.S87L|RSRC1_uc003fbu.1_Missense_Mutation_p.S87L|RSRC1_uc003fbv.2_Missense_Mutation_p.S87L	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	87	Arg/Ser-rich.				nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			CGAAGTCGTTCAAGGGGTCGA	0.363													15	227	---	---	---	---	PASS	T	157841720	T	T	157841720	3	4	156	1	0	0	0	0	1	0	0	0	13714	838	29	2	266	2	RSRC1	3	157841720	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	760327	157841720	40180710	158	55422										
BCHE	590	broad.mit.edu	37	chr3	165547523	165547523	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cattctgagaacttcttggtGaactccaaggcagggcatat	10	9	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:165547523G>A	uc003fem.3	-	2	1459	c.1299C>T	c.(1297-1299)TTC>TTT	p.F433F	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	433					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	ACTTCTTGGTGAACTCCAAGG	0.448													35	284	---	---	---	---	PASS	A	165547523	A	A	165547523	2	1	156	1	0	0	0	0	0	0	0	1	1358	1281	45	2		2	BCHE	3	165547523	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	7705803	165547523	32474907	159	55423										
ZBBX	79740	broad.mit.edu	37	chr3	167016129	167016129	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtactggaattgttgcattCtaaacgatgagaaggaagta	11	4	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:167016129C>G	uc003fep.2	-	18	2166	c.1843G>C	c.(1843-1845)GAA>CAA	p.E615Q	ZBBX_uc011bpc.1_Missense_Mutation_p.E615Q|ZBBX_uc003feq.2_Missense_Mutation_p.E586Q	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	615						intracellular	zinc ion binding			ovary(2)	2						TTGTTGCATTCTAAACGATGA	0.333													22	194	---	---	---	---	PASS	G	167016129	G	G	167016129	3	3	156	1	0	0	0	0	1	0	0	0	17513	922	32	2	575	2	ZBBX	3	167016129	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1468606	167016129	31006301	160	55424										
MECOM	2122	broad.mit.edu	37	chr3	168849256	168849256	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtttcatggggatagtcttCgctcttcatgaacagcagaa	10	8	4	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:168849256C>T	uc003ffi.3	-	3	279	c.10G>A	c.(10-12)GAA>AAA	p.E4K	MECOM_uc010hwk.1_Missense_Mutation_p.E27K|MECOM_uc003ffj.3_Missense_Mutation_p.E68K|MECOM_uc011bpi.1_Missense_Mutation_p.E4K|MECOM_uc003ffn.3_Missense_Mutation_p.E4K|MECOM_uc003ffk.2_Missense_Mutation_p.E4K|MECOM_uc003ffl.2_Missense_Mutation_p.E164K|MECOM_uc011bpj.1_Missense_Mutation_p.E192K|MECOM_uc011bpk.1_5'UTR|MECOM_uc010hwn.2_Missense_Mutation_p.E192K|MECOM_uc003ffm.1_Missense_Mutation_p.E68K	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	4	Interaction with MAPK9, SMAD3 and probably SUV39H1.				apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						GGATAGTCTTCGCTCTTCATG	0.458													15	107	---	---	---	---	PASS	T	168849256	T	T	168849256	3	4	156	1	0	0	0	0	1	0	0	0	9422	893	31	2	3204	2	MECOM	3	168849256	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1833127	168849256	29173174	161	55425										
NLGN1	22871	broad.mit.edu	37	chr3	173322732	173322732	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaatgccactcaatttgctcCtgtgtgtccccagaatatca	6	12	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:173322732C>A	uc003fio.1	+	3	767	c.344C>A	c.(343-345)CCT>CAT	p.P115H	NLGN1_uc010hww.1_Missense_Mutation_p.P115H|NLGN1_uc003fip.1_Missense_Mutation_p.P115H	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	115	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			CAATTTGCTCCTGTGTGTCCC	0.478													54	488	---	---	---	---	PASS	A	173322732	A	A	173322732	3	1	156	1	0	0	0	0	1	0	0	0	10461	681	24	3	346	3	NLGN1	3	173322732	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4473476	173322732	24699698	162	55426										
PIK3CA	5290	broad.mit.edu	37	chr3	178928079	178928079	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggccagtacctcatggattaGaagatttgctgaaccctatt	9	9	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:178928079G>A	uc003fjk.2	+	8	1514	c.1357G>A	c.(1357-1359)GAA>AAA	p.E453K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	453	C2 PI3K-type.		E -> Q (in cancer; shows an increase in lipid kinase activity; may disrupt the interaction of the C2 PI3K-type domain with the iSH2 region of the p85 regulatory subunit).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E453K(5)|p.E453Q(1)|p.E453A(1)|p.P449_L455del(1)|p.G451_L456>V(1)|p.E453del(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCATGGATTAGAAGATTTGCT	0.348		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			35	334	---	---	---	---	PASS	A	178928079	A	A	178928079	3	1	156	1	0	0	0	0	1	0	0	0	11913	943	33	2	1383	2	PIK3CA	3	178928079	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5605347	178928079	19094351	163	55427										
FXR1	8087	broad.mit.edu	37	chr3	180671612	180671612	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtggaggattttattcaggtTcctaggaatctcgttggtag	13	5	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:180671612T>A	uc003fkq.2	+	9	886	c.864T>A	c.(862-864)GTT>GTA	p.V288V	FXR1_uc003fkp.2_Silent_p.V203V|FXR1_uc003fkr.2_Silent_p.V288V|FXR1_uc011bqj.1_Silent_p.V202V|FXR1_uc003fks.2_Silent_p.V202V|FXR1_uc011bqk.1_Silent_p.V239V|FXR1_uc011bql.1_Silent_p.V275V	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	288	KH 2.				apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			TTATTCAGGTTCCTAGGAATC	0.323													36	327	---	---	---	---	PASS	A	180671612	A	A	180671612	2	1	156	1	0	0	0	0	0	0	0	1	6115	1770	62	5		5	FXR1	3	180671612	Silent	SNP	T	TCGA-66-2773-01A-01D-1267-08	1743533	180671612	17350818	164	55428										
ALG3	10195	broad.mit.edu	37	chr3	183960603	183960603	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggttgtcccagctggtacctGagcaggtgtgtgagccagcg	16	10	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:183960603G>C	uc003fne.2	-	8	1183	c.1152C>G	c.(1150-1152)CTC>CTG	p.L384L	ALG3_uc011brc.1_Silent_p.L349L|ALG3_uc011brd.1_Silent_p.L328L|ALG3_uc011bre.1_Silent_p.L336L	NM_005787	NP_005778	Q92685	ALG3_HUMAN	alpha-1,3-mannosyltransferase ALG3 isoform a	384					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	alpha-1,3-mannosyltransferase activity				0	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCTGGTACCTGAGCAGGTGTG	0.597													24	266	---	---	---	---	PASS	C	183960603	C	C	183960603	2	2	156	1	0	0	0	0	0	0	0	1	520	1277	45	2		2	ALG3	3	183960603	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	3288991	183960603	14061827	165	55429										
EPHB3	2049	broad.mit.edu	37	chr3	184295449	184295449	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctctcctggcattgcagagcGagggcatcgcctccacagtg	12	14	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:184295449G>A	uc003foz.2	+	7	1920	c.1483G>A	c.(1483-1485)GAG>AAG	p.E495K		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	495	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			ATTGCAGAGCGAGGGCATCGC	0.657													53	319	---	---	---	---	PASS	A	184295449	A	A	184295449	3	1	156	1	0	0	0	0	1	0	0	0	5176	1059	37	2	1509	2	EPHB3	3	184295449	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	334846	184295449	13726981	166	55430										
FGF12	2257	broad.mit.edu	37	chr3	192125893	192125893	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccgaggacgtgcctctcgcaCagggagcgcccgtctttgct	13	15	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:192125893C>A	uc003fsx.2	-	1	946	c.120G>T	c.(118-120)CTG>CTT	p.L40L	FGF12_uc003fsy.2_Intron	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	40					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		GCCTCTCGCACAGGGAGCGCC	0.672													148	319	---	---	---	---	PASS	A	192125893	A	A	192125893	2	1	156	1	0	0	0	0	0	0	0	1	5841	465	17	3		3	FGF12	3	192125893	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	7830444	192125893	5896537	167	55431										
ATP13A4	84239	broad.mit.edu	37	chr3	193232645	193232645	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tttccggcagccttgagtccGatagccaaatatctcctggg	10	12	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:193232645G>A	uc003ftd.2	-	2	184	c.76C>T	c.(76-78)CGG>TGG	p.R26W	ATP13A4_uc003fte.1_Missense_Mutation_p.R26W|ATP13A4_uc011bsr.1_5'UTR	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	26	Cytoplasmic (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)		CCTTGAGTCCGATAGCCAAAT	0.418													11	111	---	---	---	---	PASS	A	193232645	A	A	193232645	3	1	156	1	0	0	0	0	1	0	0	0	1126	1057	37	2	3630	2	ATP13A4	3	193232645	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1106752	193232645	4789785	168	55432										
KIAA0226	9711	broad.mit.edu	37	chr3	197421306	197421306	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggtgcggatttgctggcgccGaaggcggatcttctgcttca	15	10	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr3:197421306G>A	uc003fyc.2	-	10	1807	c.1624C>T	c.(1624-1626)CGG>TGG	p.R542W	KIAA0226_uc003fyd.3_Missense_Mutation_p.R497W|KIAA0226_uc003fye.1_Missense_Mutation_p.R249W|KIAA0226_uc003fyf.2_Missense_Mutation_p.R390W	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	542					autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		TGCTGGCGCCGAAGGCGGATC	0.542													24	616	---	---	---	---	PASS	A	197421306	A	A	197421306	3	1	156	1	0	0	0	0	1	0	0	0	8162	1057	37	2	1338	2	KIAA0226	3	197421306	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	4188661	197421306	601124	169	55433										
ZFYVE28	57732	broad.mit.edu	37	chr4	2307005	2307005	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaaagcaaagaggacatctcGtcccccgccctgtggaccat	10	14	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:2307005G>A	uc003gex.1	-	8	1381	c.1062C>T	c.(1060-1062)GAC>GAT	p.D354D	ZFYVE28_uc011bvk.1_Silent_p.D284D|ZFYVE28_uc011bvl.1_Silent_p.D324D|ZFYVE28_uc003gew.1_Silent_p.D240D	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	354					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						AGGACATCTCGTCCCCCGCCC	0.657													27	87	---	---	---	---	PASS	A	2307005	A	A	2307005	2	1	156	1	0	0	0	0	0	0	0	1	17667	1136	40	1		1	ZFYVE28	4	2307005	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08		2307005	188847271	170	55434										
DRD5	1816	broad.mit.edu	37	chr4	9784820	9784820	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccggtggagacggtgaacatCagcaatgagctcatctccta	11	11	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:9784820C>T	uc003gmb.3	+	1	1563	c.1167C>T	c.(1165-1167)ATC>ATT	p.I389I		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	389	Cytoplasmic (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	CGGTGAACATCAGCAATGAGC	0.572													13	104	---	---	---	---	PASS	T	9784820	T	T	9784820	2	4	156	1	0	0	0	0	0	0	0	1	4760	816	29	2		2	DRD5	4	9784820	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	7477815	9784820	181369456	171	55435										
HS3ST1	9957	broad.mit.edu	37	chr4	11400967	11400967	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atctcagggaaggggtccctGatgaggcggtcgccgtccac	15	12	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:11400967G>A	uc003gmq.2	-	2	986	c.663C>T	c.(661-663)ATC>ATT	p.I221I		NM_005114	NP_005105	O14792	HS3S1_HUMAN	heparan sulfate D-glucosaminyl	221						Golgi lumen|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			skin(1)	1						AGGGGTCCCTGATGAGGCGGT	0.547													13	34	---	---	---	---	PASS	A	11400967	A	A	11400967	2	1	156	1	0	0	0	0	0	0	0	1	7363	1280	45	2		2	HS3ST1	4	11400967	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1616147	11400967	179753309	172	55436										
BOD1L	259282	broad.mit.edu	37	chr4	13605967	13605967	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttgcttggaacccagagaatCtttctgaattttagaatcac	7	8	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:13605967C>G	uc003gmz.1	-	10	2674	c.2557G>C	c.(2557-2559)GAT>CAT	p.D853H	BOD1L_uc010idr.1_Missense_Mutation_p.D190H	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	853	Lys-rich.						DNA binding			ovary(5)|breast(1)	6						CCCAGAGAATCTTTCTGAATT	0.368													7	61	---	---	---	---	PASS	G	13605967	G	G	13605967	3	3	156	1	0	0	0	0	1	0	0	0	1483	913	32	2	6666	2	BOD1L	4	13605967	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2205000	13605967	177548309	173	55437										
CLRN2	645104	broad.mit.edu	37	chr4	17528677	17528677	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaccaaaatcgaagaggccaCggtcacagctgaggatatct	11	10	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:17528677C>A	uc003gpg.1	+	3	773	c.671C>A	c.(670-672)ACG>AAG	p.T224K		NM_001079827	NP_001073296	A0PK11	CLRN2_HUMAN	clarin 2	224						integral to membrane					0						GAAGAGGCCACGGTCACAGCT	0.512													59	235	---	---	---	---	PASS	A	17528677	A	A	17528677	3	1	156	1	0	0	0	0	1	0	0	0	3558	536	19	1	681	1	CLRN2	4	17528677	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3922710	17528677	173625599	174	55438										
NCAPG	64151	broad.mit.edu	37	chr4	17841431	17841431	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtagccatcttgcaaaagatCttctggttctattgaatgag	9	7	4	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:17841431C>T	uc003gpp.2	+	17	2775	c.2599C>T	c.(2599-2601)CTT>TTT	p.L867F	NCAPG_uc011bxj.1_Missense_Mutation_p.L376F	NM_022346	NP_071741	Q9BPX3	CND3_HUMAN	chromosome condensation protein G	867	HEAT 10.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	protein binding			large_intestine(1)	1				STAD - Stomach adenocarcinoma(129;0.18)		TGCAAAAGATCTTCTGGTTCT	0.338													6	22	---	---	---	---	PASS	T	17841431	T	T	17841431	3	4	156	1	0	0	0	0	1	0	0	0	10207	913	32	2	2665	2	NCAPG	4	17841431	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	312754	17841431	173312845	175	55439										
SPINK2	6691	broad.mit.edu	37	chr4	57686746	57686746	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaattgagggatcagagaggCtgtaagaagaaagcatagac	13	4	1	5			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:57686746C>A	uc003hcg.1	-	2	121	c.56_splice	c.e2-1	p.A19_splice		NM_021114	NP_066937	P20155	ISK2_HUMAN	serine protease inhibitor, Kazal type 2							extracellular region	serine-type endopeptidase inhibitor activity				0	Glioma(25;0.08)|all_neural(26;0.181)					ATCAGAGAGGCTGTAAGAAGA	0.299													27	142	---	---	---	---	PASS	A	57686746	A	A	57686746	5	1	156	1	0	0	0	0	0	0	1	0	15059	811	28	3	211	3	SPINK2	4	57686746	Splice_Site	SNP	C	TCGA-66-2773-01A-01D-1267-08	39845315	57686746	133467530	176	55440										
REST	5978	broad.mit.edu	37	chr4	57796764	57796764	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgcatgaaaaaaagtacaaaGaagaaaactctgaaaaataa	6	4	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:57796764G>C	uc003hch.2	+	4	2087	c.1740G>C	c.(1738-1740)AAG>AAC	p.K580N	REST_uc003hci.2_Missense_Mutation_p.K580N|REST_uc010ihf.2_Missense_Mutation_p.K254N	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	580	Lys-rich.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					AAAGTACAAAGAAGAAAACTC	0.388													9	51	---	---	---	---	PASS	C	57796764	C	C	57796764	3	2	156	1	0	0	0	0	1	0	0	0	13234	933	33	2	1750	2	REST	4	57796764	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	110018	57796764	133357512	177	55441										
POLR2B	5431	broad.mit.edu	37	chr4	57889874	57889874	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggagacaaatttgctagtcGacatggtcaaaagggtactt	11	6	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:57889874G>A	uc003hcl.1	+	20	2856	c.2813G>A	c.(2812-2814)CGA>CAA	p.R938Q	POLR2B_uc011cae.1_Missense_Mutation_p.R931Q|POLR2B_uc011caf.1_Missense_Mutation_p.R863Q|POLR2B_uc003hcm.1_Missense_Mutation_p.R431Q	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	938					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					TTTGCTAGTCGACATGGTCAA	0.338													35	132	---	---	---	---	PASS	A	57889874	A	A	57889874	3	1	156	1	0	0	0	0	1	0	0	0	12215	1058	37	2	2891	2	POLR2B	4	57889874	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	93110	57889874	133264402	178	55442										
YTHDC1	91746	broad.mit.edu	37	chr4	69188478	69188478	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtttctaaccttcccacatcCcggactggttctcgacggga	9	14	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:69188478C>T	uc003hdx.2	-	11	1943	c.1590G>A	c.(1588-1590)CGG>CGA	p.R530R	YTHDC1_uc003hdy.2_Silent_p.R512R	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	530	Arg-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						TTCCCACATCCCGGACTGGTT	0.448													29	43	---	---	---	---	PASS	T	69188478	T	T	69188478	2	4	156	1	0	0	0	0	0	0	0	1	17493	610	22	3		3	YTHDC1	4	69188478	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	11298604	69188478	121965798	179	55443										
ENAM	10117	broad.mit.edu	37	chr4	71510219	71510219	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttgttattggtacacctgatGaaggctccaatccagaaggc	10	9	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:71510219G>C	uc011caw.1	+	9	3357	c.3076G>C	c.(3076-3078)GAA>CAA	p.E1026Q		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	1026					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			TACACCTGATGAAGGCTCCAA	0.433													37	148	---	---	---	---	PASS	C	71510219	C	C	71510219	3	2	156	1	0	0	0	0	1	0	0	0	5112	1291	45	2	3106	2	ENAM	4	71510219	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2321741	71510219	119644057	180	55444										
SLC4A4	8671	broad.mit.edu	37	chr4	72319301	72319301	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tttaaatattcaagctctttCggcaattctcttcatttatc	3	9	4	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:72319301C>T	uc003hfy.2	+	12	1529	c.1412C>T	c.(1411-1413)TCG>TTG	p.S471L	SLC4A4_uc010iic.2_Missense_Mutation_p.S471L|SLC4A4_uc010iib.2_Missense_Mutation_p.S471L|SLC4A4_uc003hfz.2_Missense_Mutation_p.S471L|SLC4A4_uc003hgc.3_Missense_Mutation_p.S427L|SLC4A4_uc010iid.2_Intron|SLC4A4_uc003hga.2_Missense_Mutation_p.S349L|SLC4A4_uc003hgb.3_Missense_Mutation_p.S427L	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	471	Helical; (Potential).		S -> L (in pRTA-OA; mistargeting to the apical membrane and altered function).			basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			CAAGCTCTTTCGGCAATTCTC	0.413													55	238	---	---	---	---	PASS	T	72319301	T	T	72319301	3	4	156	1	0	0	0	0	1	0	0	0	14656	893	31	2	1575	2	SLC4A4	4	72319301	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	809082	72319301	118834975	181	55445										
NPFFR2	10886	broad.mit.edu	37	chr4	73012911	73012911	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gactggccaaatcaggaaatGaggaagatctacaccactgt	10	9	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:73012911G>A	uc003hgg.2	+	4	1049	c.951G>A	c.(949-951)ATG>ATA	p.M317I	NPFFR2_uc010iig.1_Missense_Mutation_p.M99I|NPFFR2_uc003hgi.2_Missense_Mutation_p.M218I|NPFFR2_uc003hgh.2_Missense_Mutation_p.M215I|NPFFR2_uc003hgj.2_RNA	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	317	Extracellular (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			ATCAGGAAATGAGGAAGATCT	0.463													17	89	---	---	---	---	PASS	A	73012911	A	A	73012911	3	1	156	1	0	0	0	0	1	0	0	0	10578	1290	45	2	971	2	NPFFR2	4	73012911	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	693610	73012911	118141365	182	55446										
SHROOM3	57619	broad.mit.edu	37	chr4	77662936	77662936	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggggcacccagagaggggatGagacccccagggagccatcc	16	13	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:77662936G>A	uc011cbx.1	+	5	4563	c.3610G>A	c.(3610-3612)GAG>AAG	p.E1204K	SHROOM3_uc011cbz.1_Missense_Mutation_p.E1028K|SHROOM3_uc003hkf.1_Missense_Mutation_p.E1079K|SHROOM3_uc003hkg.2_Missense_Mutation_p.E982K	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	1204					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			GAGAGGGGATGAGACCCCCAG	0.706													5	7	---	---	---	---	PASS	A	77662936	A	A	77662936	3	1	156	1	0	0	0	0	1	0	0	0	14295	1291	45	2	3628	2	SHROOM3	4	77662936	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	4650025	77662936	113491340	183	55447										
IBSP	3381	broad.mit.edu	37	chr4	88723554	88723554	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gctcagcattttgggaatggCctgtgctttctcagtaagtt	11	8	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:88723554C>T	uc003hqx.3	+	2	139	c.41C>T	c.(40-42)GCC>GTC	p.A14V		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	14					biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		TTGGGAATGGCCTGTGCTTTC	0.284													18	79	---	---	---	---	PASS	T	88723554	T	T	88723554	3	4	156	1	0	0	0	0	1	0	0	0	7475	739	26	3	43	3	IBSP	4	88723554	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	11060618	88723554	102430722	184	55448										
ADH1C	126	broad.mit.edu	37	chr4	100268235	100268235	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcatggcctaaaatcacagGaaggggggtcaccaggttgc	13	10	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:100268235G>A	uc003huu.2	-	3	272	c.187C>T	c.(187-189)CCT>TCT	p.P63S		NM_000669	NP_000660	P00326	ADH1G_HUMAN	class I alcohol dehydrogenase, gamma subunit	63					ethanol oxidation|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(123;1.08e-07)	Fomepizole(DB01213)|NADH(DB00157)	AAAATCACAGGAAGGGGGGTC	0.488									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				46	246	---	---	---	---	PASS	A	100268235	A	A	100268235	3	1	156	1	0	0	0	0	1	0	0	0	309	1174	41	2	968	2	ADH1C	4	100268235	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	11544681	100268235	90886041	185	55449										
ANK2	287	broad.mit.edu	37	chr4	114280095	114280095	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaccaaagatacttacatccCgattgccagttaagagcaga	8	10	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:114280095C>G	uc003ibe.3	+	38	10421	c.10321C>G	c.(10321-10323)CGA>GGA	p.R3441G	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.R743G|ANK2_uc011cgb.1_Missense_Mutation_p.R3456G	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3408					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		ACTTACATCCCGATTGCCAGT	0.478													23	92	---	---	---	---	PASS	G	114280095	G	G	114280095	3	3	156	1	0	0	0	0	1	0	0	0	621	644	23	4	10536	4	ANK2	4	114280095	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	14011860	114280095	76874181	186	55450										
ZNF827	152485	broad.mit.edu	37	chr4	146686798	146686798	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cttgtttttctgggagccatCtgaatcatctttgctgttgg	10	8	4	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:146686798C>G	uc003ikn.2	-	12	3001	c.2953G>C	c.(2953-2955)GAT>CAT	p.D985H	ZNF827_uc003ikm.2_Missense_Mutation_p.D985H|ZNF827_uc010iox.2_Missense_Mutation_p.D635H|ZNF827_uc003ikl.2_Missense_Mutation_p.D70H	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	985					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					TGGGAGCCATCTGAATCATCT	0.517													16	290	---	---	---	---	PASS	G	146686798	G	G	146686798	3	3	156	1	0	0	0	0	1	0	0	0	18177	913	32	2	288	2	ZNF827	4	146686798	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	32406703	146686798	44467478	187	55451										
SPATA4	132851	broad.mit.edu	37	chr4	177114152	177114152	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aacctcttctatcaatatttCaggcactccagctttacaat	3	12	4	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:177114152C>G	uc003iuo.1	-	3	533	c.424G>C	c.(424-426)GAA>CAA	p.E142Q		NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4	142					apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)		ATCAATATTTCAGGCACTCCA	0.279													8	45	---	---	---	---	PASS	G	177114152	G	G	177114152	3	3	156	1	0	0	0	0	1	0	0	0	15009	835	29	2	509	2	SPATA4	4	177114152	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	30427354	177114152	14040124	188	55452										
SPATA4	132851	broad.mit.edu	37	chr4	177114705	177114705	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtaatatatacagaatatttCtgcaattaggaagccatttg	7	5	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:177114705C>G	uc003iuo.1	-	2	356	c.247G>C	c.(247-249)GAA>CAA	p.E83Q		NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4	83					apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)		cagaatatttctgcaattagg	0.229													22	67	---	---	---	---	PASS	G	177114705	G	G	177114705	3	3	156	1	0	0	0	0	1	0	0	0	15009	922	32	2	690	2	SPATA4	4	177114705	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	553	177114705	14039571	189	55453										
WWC2	80014	broad.mit.edu	37	chr4	184182541	184182541	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctgctgactttgaagactgtGagttgagtagccattttgca	11	7	0	5			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr4:184182541G>T	uc010irx.2	+	11	1947	c.1765G>T	c.(1765-1767)GAG>TAG	p.E589*	WWC2_uc003ivk.3_Nonsense_Mutation_p.E384*|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_Nonsense_Mutation_p.E271*|WWC2_uc003ivn.3_Intron	NM_024949	NP_079225	Q6AWC2	WWC2_HUMAN	WW and C2 domain containing 2	589										ovary(2)|lung(1)	3		all_lung(41;5.28e-14)|Lung NSC(41;1.35e-13)|Colorectal(36;0.00681)|Hepatocellular(41;0.00886)|Renal(120;0.00992)|Prostate(90;0.0237)|all_hematologic(60;0.0592)|Esophageal squamous(56;0.179)|all_neural(102;0.202)		all cancers(43;3.38e-24)|Epithelial(43;1.4e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.09e-09)|GBM - Glioblastoma multiforme(59;3.33e-05)|Colorectal(24;3.58e-05)|STAD - Stomach adenocarcinoma(60;4.21e-05)|COAD - Colon adenocarcinoma(29;0.000171)|LUSC - Lung squamous cell carcinoma(40;0.0145)|READ - Rectum adenocarcinoma(43;0.242)		TGAAGACTGTGAGTTGAGTAG	0.468													6	24	---	---	---	---	PASS	T	184182541	T	T	184182541	4	4	156	1	0	0	0	0	0	1	0	0	17409	1291	45	2	1807	2	WWC2	4	184182541	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	7067836	184182541	6971735	190	55454										
CEP72	55722	broad.mit.edu	37	chr5	637810	637810	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gagagaactcatgggtcctcCgtgcccaaggagagcctgag	14	11	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:637810C>T	uc003jbf.2	+	7	1155	c.1083C>T	c.(1081-1083)TCC>TCT	p.S361S	CEP72_uc011clz.1_RNA	NM_018140	NP_060610	Q9P209	CEP72_HUMAN	centrosomal protein 72 kDa	361					G2/M transition of mitotic cell cycle|gamma-tubulin complex localization|spindle organization	centrosome|cytosol				ovary(1)	1			Epithelial(17;0.000339)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|Lung(60;0.0863)			ATGGGTCCTCCGTGCCCAAGG	0.597													67	88	---	---	---	---	PASS	T	637810	T	T	637810	2	4	156	1	0	0	0	0	0	0	0	1	3260	639	23	1		1	CEP72	5	637810	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08		637810	180277450	191	55455										
FASTKD3	79072	broad.mit.edu	37	chr5	7867058	7867058	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gttttgaaagaatcagttctCtactgcagtactccatgacc	7	10	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:7867058C>T	uc003jeb.2	-	2	1276	c.1139G>A	c.(1138-1140)AGA>AAA	p.R380K	FASTKD3_uc011cmp.1_Missense_Mutation_p.R82K|FASTKD3_uc003jec.2_Intron|MTRR_uc010itn.1_5'Flank|MTRR_uc003jee.3_5'Flank|MTRR_uc003jed.2_5'Flank|MTRR_uc003jef.3_5'Flank|MTRR_uc003jeg.3_5'Flank|MTRR_uc010ito.2_5'Flank	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	380					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						AATCAGTTCTCTACTGCAGTA	0.438													19	139	---	---	---	---	PASS	T	7867058	T	T	7867058	3	4	156	1	0	0	0	0	1	0	0	0	5687	913	32	2	873	2	FASTKD3	5	7867058	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	7229248	7867058	173048202	192	55456										
CDH18	1016	broad.mit.edu	37	chr5	19473633	19473633	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gagtgagcttcacttcaggtCtgatatccctccggtacttg	10	11	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:19473633C>T	uc003jgc.2	-	12	2452	c.2075G>A	c.(2074-2076)AGA>AAA	p.R692K	CDH18_uc003jgd.2_Missense_Mutation_p.R692K|CDH18_uc011cnm.1_3'UTR	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	692	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CACTTCAGGTCTGATATCCCT	0.498													45	191	---	---	---	---	PASS	T	19473633	T	T	19473633	3	4	156	1	0	0	0	0	1	0	0	0	3103	913	32	2	301	2	CDH18	5	19473633	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	11606575	19473633	161441627	193	55457										
CDH12	1010	broad.mit.edu	37	chr5	21755941	21755941	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tttcttcgggtttcaatcccCgctgtgttgtctacaaaaca	7	11	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:21755941C>T	uc010iuc.2	-	11	2102	c.1644G>A	c.(1642-1644)GCG>GCA	p.A548A	CDH12_uc011cno.1_Silent_p.A508A|CDH12_uc003jgk.2_Silent_p.A548A|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	548	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TTTCAATCCCCGCTGTGTTGT	0.428										HNSCC(59;0.17)			90	77	---	---	---	---	PASS	T	21755941	T	T	21755941	2	4	156	1	0	0	0	0	0	0	0	1	3098	639	23	1		1	CDH12	5	21755941	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	2282308	21755941	159159319	194	55458										
NUP155	9631	broad.mit.edu	37	chr5	37303458	37303458	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtaaatccatataacgaactCtgttttgatcaactttggcc	6	9	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:37303458C>G	uc003jku.1	-	28	3339	c.3221G>C	c.(3220-3222)AGA>ACA	p.R1074T	NUP155_uc003jkt.1_Missense_Mutation_p.R1015T|NUP155_uc010iuz.1_Missense_Mutation_p.R1010T	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	1074					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ATAACGAACTCTGTTTTGATC	0.398													11	144	---	---	---	---	PASS	G	37303458	G	G	37303458	3	3	156	1	0	0	0	0	1	0	0	0	10756	913	32	2	986	2	NUP155	5	37303458	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	15547517	37303458	143611802	195	55459										
EGFLAM	133584	broad.mit.edu	37	chr5	38407939	38407939	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtatcctcagttctttggcCactcctatgtaacgtttgaa	7	10	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:38407939C>T	uc003jlc.1	+	9	1504	c.1180C>T	c.(1180-1182)CAC>TAC	p.H394Y	EGFLAM_uc003jlb.1_Missense_Mutation_p.H394Y|EGFLAM_uc003jle.1_Missense_Mutation_p.H160Y|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	394	Laminin G-like 1.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					GTTCTTTGGCCACTCCTATGT	0.343													38	102	---	---	---	---	PASS	T	38407939	T	T	38407939	3	4	156	1	0	0	0	0	1	0	0	0	4966	594	21	3	1228	3	EGFLAM	5	38407939	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1104481	38407939	142507321	196	55460										
MAST4	375449	broad.mit.edu	37	chr5	66427717	66427717	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agaatgtactttgctgagacGgtcttggccttggaatattt	11	6	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:66427717G>T	uc003jut.1	+	15	1532	c.1464G>T	c.(1462-1464)ACG>ACT	p.T488T	MAST4_uc003juu.1_Silent_p.T498T|MAST4_uc011cra.1_Silent_p.T471T|MAST4_uc003juv.2_Silent_p.T483T|MAST4_uc003juw.2_Silent_p.T483T	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	680	Protein kinase.			FAETV -> YIVKL (in Ref. 4; BAB71532).		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)		TTGCTGAGACGGTCTTGGCCT	0.393													59	91	---	---	---	---	PASS	T	66427717	T	T	66427717	2	4	156	1	0	0	0	0	0	0	0	1	9327	1103	39	1		1	MAST4	5	66427717	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	28019778	66427717	114487543	197	55461										
BDP1	55814	broad.mit.edu	37	chr5	70808128	70808128	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tagaagaaaaaagaaattctGaaaaagaagtatcaagtcac	7	4	3	5			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:70808128G>C	uc003kbp.1	+	18	4383	c.4120G>C	c.(4120-4122)GAA>CAA	p.E1374Q	BDP1_uc003kbo.2_Missense_Mutation_p.E1374Q	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1374					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AAGAAATTCTGAAAAAGAAGT	0.363													9	149	---	---	---	---	PASS	C	70808128	C	C	70808128	3	2	156	1	0	0	0	0	1	0	0	0	1395	1291	45	2	4190	2	BDP1	5	70808128	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	4380411	70808128	110107132	198	55462										
UTP15	84135	broad.mit.edu	37	chr5	72866451	72866451	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagatgtttgatgcacgaacGagtgagagtgttctctccgt	12	7	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:72866451G>A	uc003kcw.1	+	6	811	c.588G>A	c.(586-588)ACG>ACA	p.T196T	UTP15_uc011cso.1_Silent_p.T177T|UTP15_uc011csp.1_Silent_p.T6T|UTP15_uc010ize.1_Silent_p.T196T	NM_032175	NP_115551	Q8TED0	UTP15_HUMAN	UTP15, U3 small nucleolar ribonucleoprotein,	196	WD 4.				rRNA processing	cytoplasm|nucleolus					0		Lung NSC(167;0.00405)|Ovarian(174;0.0129)		OV - Ovarian serous cystadenocarcinoma(47;7.76e-55)		ATGCACGAACGAGTGAGAGTG	0.398													23	126	---	---	---	---	PASS	A	72866451	A	A	72866451	2	1	156	1	0	0	0	0	0	0	0	1	17094	1045	37	2		2	UTP15	5	72866451	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	2058323	72866451	108048809	199	55463										
DMGDH	29958	broad.mit.edu	37	chr5	78301117	78301117	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttgccattgtaccagatgctTtcatttccctctggatcaac	6	12	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:78301117T>A	uc003kfs.2	-	15	2370	c.2364A>T	c.(2362-2364)GAA>GAT	p.E788D		NM_013391	NP_037523	Q9UI17	M2GD_HUMAN	dimethylglycine dehydrogenase precursor	788					choline metabolic process|glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|dimethylglycine dehydrogenase activity|electron carrier activity			ovary(2)|liver(1)|skin(1)	4		all_lung(232;0.000638)|Lung NSC(167;0.00173)|Ovarian(174;0.0262)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;6.52e-45)|Epithelial(54;5.96e-40)|all cancers(79;3.56e-35)		ACCAGATGCTTTCATTTCCCT	0.493													14	19	---	---	---	---	PASS	A	78301117	A	A	78301117	3	1	156	1	0	0	0	0	1	0	0	0	4581	1838	64	5	244	5	DMGDH	5	78301117	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	5434666	78301117	102614143	200	55464										
ARRDC3	57561	broad.mit.edu	37	chr5	90678636	90678636	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	taacaaaaacttacctctttCgtgcccaattaagatgtctt	4	10	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:90678636C>T	uc003kjz.2	-	1	514	c.274G>A	c.(274-276)GAA>AAA	p.E92K	LOC100129716_uc003kka.3_Intron	NM_020801	NP_065852	Q96B67	ARRD3_HUMAN	arrestin domain containing 3	92					signal transduction	cytoplasm	protein binding			ovary(1)|breast(1)	2		all_cancers(142;2.22e-05)|all_epithelial(76;1.58e-07)|all_lung(232;0.000521)|Lung NSC(167;0.000548)|Ovarian(174;0.0798)|Colorectal(57;0.207)		OV - Ovarian serous cystadenocarcinoma(54;4.56e-30)|Epithelial(54;7.55e-26)|all cancers(79;3.63e-22)		TTACCTCTTTCGTGCCCAATT	0.368													15	281	---	---	---	---	PASS	T	90678636	T	T	90678636	3	4	156	1	0	0	0	0	1	0	0	0	984	893	31	2	1002	2	ARRDC3	5	90678636	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	12377519	90678636	90236624	201	55465										
GRAMD3	65983	broad.mit.edu	37	chr5	125822583	125822583	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtgtctgtgcactaatcatCtcgaccttctacatgagata	7	10	4	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:125822583C>T	uc003ktu.2	+	12	1507	c.1077C>T	c.(1075-1077)ATC>ATT	p.I359I	GRAMD3_uc011cwt.1_Silent_p.I374I|GRAMD3_uc011cwv.1_Silent_p.I367I|GRAMD3_uc011cww.1_Silent_p.I255I|GRAMD3_uc011cwx.1_RNA|GRAMD3_uc011cwy.1_Silent_p.I250I|GRAMD3_uc011cwz.1_Silent_p.I343I	NM_023927	NP_076416	Q96HH9	GRAM3_HUMAN	GRAM domain containing 3 isoform 2	359										central_nervous_system(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0401)|OV - Ovarian serous cystadenocarcinoma(64;0.0604)|all cancers(49;0.108)		CACTAATCATCTCGACCTTCT	0.438													8	41	---	---	---	---	PASS	T	125822583	T	T	125822583	2	4	156	1	0	0	0	0	0	0	0	1	6751	903	32	2		2	GRAMD3	5	125822583	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	35143947	125822583	55092677	202	55466										
ADAMTS19	171019	broad.mit.edu	37	chr5	128990070	128990070	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttctatcagaaaaagtgatgGatggaacttcttgtggctat	10	5	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:128990070G>T	uc003kvb.1	+	14	2230	c.2230G>T	c.(2230-2232)GAT>TAT	p.D744Y	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	744	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		AAAAGTGATGGATGGAACTTC	0.358													14	123	---	---	---	---	PASS	T	128990070	T	T	128990070	3	4	156	1	0	0	0	0	1	0	0	0	264	1174	41	2	2284	2	ADAMTS19	5	128990070	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3167487	128990070	51925190	203	55467										
PCDHA2	56146	broad.mit.edu	37	chr5	140175215	140175215	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gatgggggcaaacctgagctCacgggcaccgttcaaatact	12	11	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:140175215C>T	uc003lhd.2	+	1	772	c.666C>T	c.(664-666)CTC>CTT	p.L222L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.L222L|PCDHA2_uc011czy.1_Silent_p.L222L	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	222	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACCTGAGCTCACGGGCACCG	0.428													60	325	---	---	---	---	PASS	T	140175215	T	T	140175215	2	4	156	1	0	0	0	0	0	0	0	1	11524	813	29	2		2	PCDHA2	5	140175215	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	11185145	140175215	40740045	204	55468										
PCDHA5	56143	broad.mit.edu	37	chr5	140203604	140203604	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agcgcggtggggagctggtcGtactcgcagcagaggagaca	18	9	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:140203604G>A	uc003lhl.2	+	1	2244	c.2244G>A	c.(2242-2244)TCG>TCA	p.S748S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.S748S|PCDHA5_uc003lhj.1_Silent_p.S748S	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	748	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAGCTGGTCGTACTCGCAGC	0.647													64	71	---	---	---	---	PASS	A	140203604	A	A	140203604	2	1	156	1	0	0	0	0	0	0	0	1	11527	1132	40	1		1	PCDHA5	5	140203604	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	28389	140203604	40711656	205	55469										
PCDHA5	56143	broad.mit.edu	37	chr5	140203689	140203689	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccttcagtccaagccttcctCagggtcccacctctacagac	6	18	3	1	rs141975967		TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:140203689C>T	uc003lhl.2	+	1	2329	c.2329C>T	c.(2329-2331)CAG>TAG	p.Q777*	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Nonsense_Mutation_p.Q777*|PCDHA5_uc003lhj.1_Nonsense_Mutation_p.Q777*	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	777	Cytoplasmic (Potential).|5 X 4 AA repeats of P-X-X-P.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGCCTTCCTCAGGGTCCCAC	0.483													6	144	---	---	---	---	PASS	T	140203689	T	T	140203689	4	4	156	1	0	0	0	0	0	1	0	0	11527	827	29	2	2331	2	PCDHA5	5	140203689	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	85	140203689	40711571	206	55470										
SLC25A2	83884	broad.mit.edu	37	chr5	140682556	140682556	+	Missense_Mutation	SNP	T	A	A													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttccaactgtttcatcatcaTcttcctgctgtattcgtagg							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:140682556T>A	uc003ljf.2	-	1	1057	c.877A>T	c.(877-879)ATG>TTG	p.M293L		NM_031947	NP_114153	Q9BXI2	ORNT2_HUMAN	solute carrier family 25 member 2	293	Solcar 3.				mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity			ovary(1)	1		all_lung(500;0.000249)|Lung NSC(810;0.0011)|Ovarian(839;0.00556)|Breast(839;0.0173)|all_hematologic(541;0.152)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.00204)	L-Ornithine(DB00129)	TTCATCATCATCTTCCTGCTG	0.458													21	105	---	---	---	---	PASS	A	140682556	A	A	140682556	3	1	156	1	0	0	0	0	1	0	0	0	14482	1435	50	5	32	5	SLC25A2	5	140682556	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	478867	140682556	40232704	207	55471	991	2								
SLC25A2	83884	broad.mit.edu	37	chr5	140682557	140682557	+	Missense_Mutation	SNP	C	G	G													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tccaactgtttcatcatcatCttcctgctgtattcgtaggc							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:140682557C>G	uc003ljf.2	-	1	1056	c.876G>C	c.(874-876)AAG>AAC	p.K292N		NM_031947	NP_114153	Q9BXI2	ORNT2_HUMAN	solute carrier family 25 member 2	292	Solcar 3.				mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity			ovary(1)	1		all_lung(500;0.000249)|Lung NSC(810;0.0011)|Ovarian(839;0.00556)|Breast(839;0.0173)|all_hematologic(541;0.152)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.00204)	L-Ornithine(DB00129)	TCATCATCATCTTCCTGCTGT	0.458													20	107	---	---	---	---	PASS	G	140682557	G	G	140682557	3	3	156	1	0	0	0	0	1	0	0	0	14482	912	32	2	33	2	SLC25A2	5	140682557	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1	140682557	40232703	208	55472	991	2								
KIAA0141	9812	broad.mit.edu	37	chr5	141309176	141309176	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aacacatcctccccagccccGatggcccagctcccaggcac	7	21	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:141309176G>A	uc003lls.2	+	5	564	c.442G>A	c.(442-444)GAT>AAT	p.D148N	KIAA0141_uc003llt.2_Missense_Mutation_p.D148N	NM_001142603	NP_001136075	Q14154	DELE_HUMAN	hypothetical protein LOC9812 precursor	148					apoptosis|regulation of caspase activity	mitochondrion	protein binding			skin(1)	1		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCCAGCCCCGATGGCCCAGC	0.488													27	179	---	---	---	---	PASS	A	141309176	A	A	141309176	3	1	156	1	0	0	0	0	1	0	0	0	8156	1058	37	2	460	2	KIAA0141	5	141309176	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	626619	141309176	39606084	209	55473										
LARS	51520	broad.mit.edu	37	chr5	145537059	145537059	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gctgctttttgggtacagatGaatatatcaccattcaccgt	8	9	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:145537059G>A	uc003lnx.1	-	10	1210	c.972C>T	c.(970-972)TTC>TTT	p.F324F	LARS_uc011dbq.1_Silent_p.F278F|LARS_uc011dbr.1_Silent_p.F270F|LARS_uc011dbs.1_Silent_p.F297F	NM_020117	NP_064502	Q9P2J5	SYLC_HUMAN	leucyl-tRNA synthetase	324	Editing domain.				leucyl-tRNA aminoacylation	cytosol	ATP binding|leucine-tRNA ligase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Leucine(DB00149)	GGGTACAGATGAATATATCAC	0.443													25	103	---	---	---	---	PASS	A	145537059	A	A	145537059	2	1	156	1	0	0	0	0	0	0	0	1	8634	1281	45	2		2	LARS	5	145537059	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	4227883	145537059	35378201	210	55474										
ABLIM3	22885	broad.mit.edu	37	chr5	148617026	148617026	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cctaggctaaagtggataatGagatccttaattacaaagac	8	7	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:148617026G>A	uc003lpy.2	+	11	1155	c.904G>A	c.(904-906)GAG>AAG	p.E302K	ABLIM3_uc003lpz.1_Missense_Mutation_p.E302K|ABLIM3_uc003lqa.1_Intron|ABLIM3_uc003lqb.2_Intron|ABLIM3_uc003lqc.1_Missense_Mutation_p.E302K|ABLIM3_uc003lqd.1_Intron|ABLIM3_uc003lqf.2_Intron|ABLIM3_uc003lqe.1_Intron	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3	302					axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTGGATAATGAGATCCTTAA	0.443													16	239	---	---	---	---	PASS	A	148617026	A	A	148617026	3	1	156	1	0	0	0	0	1	0	0	0	96	1291	45	2	942	2	ABLIM3	5	148617026	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3079967	148617026	32298234	211	55475										
SGCD	6444	broad.mit.edu	37	chr5	156022011	156022011	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttctggaaaattgctcttctCtgcagacaataatgaagtgg	9	7	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:156022011C>G	uc003lwd.3	+	5	925	c.449C>G	c.(448-450)TCT>TGT	p.S150C	SGCD_uc003lwa.1_Missense_Mutation_p.S151C|SGCD_uc003lwb.2_Missense_Mutation_p.S151C|SGCD_uc003lwc.3_Missense_Mutation_p.S151C	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	150	Extracellular (Potential).		S -> A (in CMD1L).		cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TTGCTCTTCTCTGCAGACAAT	0.299													7	36	---	---	---	---	PASS	G	156022011	G	G	156022011	3	3	156	1	0	0	0	0	1	0	0	0	14201	913	32	2	470	2	SGCD	5	156022011	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	7404985	156022011	24893249	212	55476										
ATP10B	23120	broad.mit.edu	37	chr5	160061440	160061440	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttctctgtcagggtccccgtCttatcggagaagatgtactg	11	10	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:160061440C>G	uc003lym.1	-	12	2149	c.1302G>C	c.(1300-1302)AAG>AAC	p.K434N	ATP10B_uc003lyp.2_Missense_Mutation_p.K434N|ATP10B_uc011deg.1_Missense_Mutation_p.K478N|ATP10B_uc003lyn.2_5'UTR|ATP10B_uc003lyo.2_Missense_Mutation_p.K406N	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	434	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGGTCCCCGTCTTATCGGAGA	0.498													68	205	---	---	---	---	PASS	G	160061440	G	G	160061440	3	3	156	1	0	0	0	0	1	0	0	0	1117	912	32	2	3143	2	ATP10B	5	160061440	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4039429	160061440	20853820	213	55477										
KCNMB1	3779	broad.mit.edu	37	chr5	169805782	169805782	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aatgaggaggccaccggtcaGcaggaaggtgggccagaaga	17	8	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:169805782G>T	uc003maq.1	-	4	902	c.502C>A	c.(502-504)CTG>ATG	p.L168M	KCNIP1_uc003map.2_Intron	NM_004137	NP_004128	Q16558	KCMB1_HUMAN	potassium large conductance calcium-activated	168	Helical; Name=2; (Potential).				platelet activation|synaptic transmission		calcium-activated potassium channel activity|potassium channel regulator activity			ovary(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0165)|all_lung(126;0.026)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.175)		CCACCGGTCAGCAGGAAGGTG	0.607													76	115	---	---	---	---	PASS	T	169805782	T	T	169805782	3	4	156	1	0	0	0	0	1	0	0	0	8074	962	34	3	77	3	KCNMB1	5	169805782	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	9744342	169805782	11109478	214	55478										
NSD1	64324	broad.mit.edu	37	chr5	176637166	176637166	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgagacttcaaatggtgactCtttattgggcttgcctgagg	12	7	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr5:176637166C>G	uc003mfr.3	+	5	1904	c.1766C>G	c.(1765-1767)TCT>TGT	p.S589C	NSD1_uc003mft.3_Missense_Mutation_p.S320C|NSD1_uc003mfs.1_Missense_Mutation_p.S486C|NSD1_uc011dfx.1_Missense_Mutation_p.S237C	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	589					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		AATGGTGACTCTTTATTGGGC	0.448			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			12	177	---	---	---	---	PASS	G	176637166	G	G	176637166	3	3	156	1	0	0	0	0	1	0	0	0	10669	913	32	2	1780	2	NSD1	5	176637166	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	6831384	176637166	4278094	215	55479										
PHACTR1	221692	broad.mit.edu	37	chr6	13283796	13283796	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cctcaccgctgcagacaaagTaagcagaggggagtgctgga	14	10	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:13283796T>A	uc010jpc.2	+	13	1982	c.1650_splice	c.e13+2	p.K550_splice	PHACTR1_uc003nah.1_Splice_Site_p.K550_splice|TBC1D7_uc003naj.2_Intron|TBC1D7_uc011dis.1_Intron|uc003nak.1_Intron	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1							cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			GCAGACAAAGTAAGCAGAGGG	0.637													30	159	---	---	---	---	PASS	A	13283796	A	A	13283796	5	1	156	1	0	0	0	0	0	0	1	0	11809	1652	57	5	1694	5	PHACTR1	6	13283796	Splice_Site	SNP	T	TCGA-66-2773-01A-01D-1267-08		13283796	157831271	216	55480										
MYLIP	29116	broad.mit.edu	37	chr6	16145463	16145463	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaaggaagccatgctgtgcaTggtgtgctgcgaggaggaga	18	6	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:16145463T>C	uc003nbq.2	+	6	1400	c.1163T>C	c.(1162-1164)ATG>ACG	p.M388T	MYLIP_uc003nbr.2_Missense_Mutation_p.M207T	NM_013262	NP_037394	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting	388	RING-type.				cellular component movement|nervous system development	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)			ATGCTGTGCATGGTGTGCTGC	0.612													62	328	---	---	---	---	PASS	C	16145463	C	C	16145463	3	2	156	1	0	0	0	0	1	0	0	0	10055	1464	51	5	1185	5	MYLIP	6	16145463	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	2861667	16145463	154969604	217	55481										
NUP153	9972	broad.mit.edu	37	chr6	17626107	17626107	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tagtattattactgctggctCctggaccaaagacaaatggg	10	8	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:17626107C>G	uc003ncd.1	-	19	4033	c.3833G>C	c.(3832-3834)GGA>GCA	p.G1278A	NUP153_uc011dje.1_Missense_Mutation_p.G1309A|NUP153_uc010jpl.1_Missense_Mutation_p.G1236A	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	1278					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			ACTGCTGGCTCCTGGACCAAA	0.443													20	104	---	---	---	---	PASS	G	17626107	G	G	17626107	3	3	156	1	0	0	0	0	1	0	0	0	10755	855	30	2	610	2	NUP153	6	17626107	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1480644	17626107	153488960	218	55482										
PRL	5617	broad.mit.edu	37	chr6	22287673	22287673	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	attcggcacttcaggagcttGagataattgtcgattttatg	10	6	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:22287673G>C	uc003ndp.2	-	5	1161	c.642C>G	c.(640-642)CTC>CTG	p.L214L	PRL_uc003ndo.2_Silent_p.L215L|PRL_uc003ndq.2_Silent_p.L214L	NM_000948	NP_000939	P01236	PRL_HUMAN	prolactin precursor	214					cell proliferation|cell surface receptor linked signaling pathway|female pregnancy|lactation|positive regulation of JAK-STAT cascade|regulation of multicellular organism growth	cytosol|extracellular region	hormone activity|prolactin receptor binding				0	Ovarian(93;0.163)					TCAGGAGCTTGAGATAATTGT	0.448													40	393	---	---	---	---	PASS	C	22287673	C	C	22287673	2	2	156	1	0	0	0	0	0	0	0	1	12528	1277	45	2		2	PRL	6	22287673	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	4661566	22287673	148827394	219	55483										
LRRC16A	55604	broad.mit.edu	37	chr6	25509902	25509902	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agctgagatcaggaggtgctCaagtattagaaggttgcatt	13	5	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:25509902C>G	uc011djw.1	+	18	1790	c.1414C>G	c.(1414-1416)CAA>GAA	p.Q472E	LRRC16A_uc010jpx.2_Missense_Mutation_p.Q472E|LRRC16A_uc010jpy.2_Missense_Mutation_p.Q472E	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	472					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						AGGAGGTGCTCAAGTATTAGA	0.353													7	18	---	---	---	---	PASS	G	25509902	G	G	25509902	3	3	156	1	0	0	0	0	1	0	0	0	8971	827	29	2	1484	2	LRRC16A	6	25509902	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3222229	25509902	145605165	220	55484										
HIST1H1C	3006	broad.mit.edu	37	chr6	26056117	26056117	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttggcagctttcttgggcttCgcaaccttggccttctttgg	11	11	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:26056117C>T	uc003nfw.2	-	1	583	c.540G>A	c.(538-540)GCG>GCA	p.A180A		NM_005319	NP_005310	P16403	H12_HUMAN	histone cluster 1, H1c	180					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)|skin(2)	5						TCTTGGGCTTCGCAACCTTGG	0.542													18	476	---	---	---	---	PASS	T	26056117	T	T	26056117	2	4	156	1	0	0	0	0	0	0	0	1	7124	871	31	2		2	HIST1H1C	6	26056117	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	546215	26056117	145058950	221	55485										
HIST1H2BD	3017	broad.mit.edu	37	chr6	26158626	26158626	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcttcgagcgcatcgcaggcGaggcttcccgcctggcgcat	13	15	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:26158626G>C	uc003ngr.2	+	1	278	c.229G>C	c.(229-231)GAG>CAG	p.E77Q	HIST1H2BD_uc003ngs.2_Missense_Mutation_p.E77Q	NM_021063	NP_066407	P58876	H2B1D_HUMAN	histone cluster 1, H2bd	77					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|pancreas(1)	2						CATCGCAGGCGAGGCTTCCCG	0.612													99	460	---	---	---	---	PASS	C	26158626	C	C	26158626	3	2	156	1	0	0	0	0	1	0	0	0	7143	1059	37	2	231	2	HIST1H2BD	6	26158626	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	102509	26158626	144956441	222	55486										
BTN2A2	10385	broad.mit.edu	37	chr6	26390390	26390390	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaacttcaaagggaaaaaaaGattctgtcaggggaaaagaa	10	4	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:26390390G>C	uc003nhq.2	+	5	968	c.882G>C	c.(880-882)AAG>AAC	p.K294N	BTN2A2_uc011dkf.1_Missense_Mutation_p.K178N|BTN2A2_uc011dkg.1_Missense_Mutation_p.K200N|BTN2A2_uc003nhr.2_Missense_Mutation_p.K178N|BTN2A2_uc011dkh.1_Missense_Mutation_p.K84N|BTN2A2_uc003nhs.2_Missense_Mutation_p.K294N|BTN2A2_uc003nht.2_Missense_Mutation_p.K294N|BTN2A2_uc011dki.1_Missense_Mutation_p.K43N	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	294	Potential.|Cytoplasmic (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						GGGAAAAAAAGATTCTGTCAG	0.378													11	157	---	---	---	---	PASS	C	26390390	C	C	26390390	3	2	156	1	0	0	0	0	1	0	0	0	1561	933	33	2	896	2	BTN2A2	6	26390390	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	231764	26390390	144724677	223	55487										
ZNF165	7718	broad.mit.edu	37	chr6	28056492	28056492	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagtctgcaggcagggtaaaGagacaatgggaaaaagaatc	13	5	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:28056492G>A	uc003nkg.2	+	5	1786	c.702G>A	c.(700-702)AAG>AAA	p.K234K	ZNF165_uc003nkh.2_Silent_p.K234K|ZNF165_uc003nki.3_Silent_p.K234K|ZSCAN12P1_uc003nkj.3_5'Flank	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	234					viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCAGGGTAAAGAGACAATGGG	0.428													57	236	---	---	---	---	PASS	A	28056492	A	A	28056492	2	1	156	1	0	0	0	0	0	0	0	1	17737	933	33	2		2	ZNF165	6	28056492	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1666102	28056492	143058575	224	55488										
TNXB	7148	broad.mit.edu	37	chr6	32017311	32017311	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcccccaggagcggctcctCaggggcctccggggcctcag	14	18	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:32017311C>T	uc003nzl.2	-	28	9689	c.9487G>A	c.(9487-9489)GAG>AAG	p.E3163K	TNXB_uc003nzh.1_5'Flank	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3210					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						AGCGGCTCCTCAGGGGCCTCC	0.657													25	72	---	---	---	---	PASS	T	32017311	T	T	32017311	3	4	156	1	0	0	0	0	1	0	0	0	16343	835	29	2	5294	2	TNXB	6	32017311	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3960819	32017311	139097756	225	55489										
NOTCH4	4855	broad.mit.edu	37	chr6	32185863	32185863	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcacactcgttggtctccacCtcacagagctgcccttctaa	7	16	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:32185863C>T	uc003obb.2	-	9	1672	c.1533G>A	c.(1531-1533)GAG>GAA	p.E511E	NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc003obc.2_Silent_p.E511E	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	511	EGF-like 12; calcium-binding (Potential).|Extracellular (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						TGGTCTCCACCTCACAGAGCT	0.607													9	96	---	---	---	---	PASS	T	32185863	T	T	32185863	2	4	156	1	0	0	0	0	0	0	0	1	10551	680	24	3		3	NOTCH4	6	32185863	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	168552	32185863	138929204	226	55490										
IP6K3	117283	broad.mit.edu	37	chr6	33694658	33694658	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggagtgttgaggtggggctCggacctcagaagagccttgg	18	7	1	3	rs145429872		TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:33694658C>T	uc010jvf.2	-	5	975	c.439G>A	c.(439-441)GAG>AAG	p.E147K	IP6K3_uc003ofb.2_Missense_Mutation_p.E147K	NM_001142883	NP_001136355	Q96PC2	IP6K3_HUMAN	inositol hexakisphosphate kinase 3	147					inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|protein phosphorylation	cytoplasm	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol hexakisphosphate 6-kinase activity|inositol trisphosphate 3-kinase activity				0						AGGTGGGGCTCGGACCTCAGA	0.647													43	251	---	---	---	---	PASS	T	33694658	T	T	33694658	3	4	156	1	0	0	0	0	1	0	0	0	7790	893	31	2	805	2	IP6K3	6	33694658	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1508795	33694658	137420409	227	55491										
BRPF3	27154	broad.mit.edu	37	chr6	36193102	36193102	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctggagcccttggagctggtGtgggccaagtgccgaggcta	17	10	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:36193102G>C	uc003olv.3	+	11	3464	c.3240G>C	c.(3238-3240)GTG>GTC	p.V1080V	BRPF3_uc010jwb.2_Silent_p.V810V|BRPF3_uc011dtj.1_RNA|BRPF3_uc010jwc.2_Intron|BRPF3_uc011dtk.1_Silent_p.V746V|BRPF3_uc010jwd.2_5'UTR	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	1080	PWWP.				histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						TGGAGCTGGTGTGGGCCAAGT	0.652													25	149	---	---	---	---	PASS	C	36193102	C	C	36193102	2	2	156	1	0	0	0	0	0	0	0	1	1521	1364	48	4		4	BRPF3	6	36193102	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	2498444	36193102	134921965	228	55492										
NFKBIE	4794	broad.mit.edu	37	chr6	44228205	44228205	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cacctgcacatcaatgtcagCtccattccgaagcagcaatt	6	14	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:44228205C>T	uc003oxe.1	-	4	1205	c.1180G>A	c.(1180-1182)GCT>ACT	p.A394T	SLC35B2_uc003oxd.2_5'Flank|SLC35B2_uc011dvt.1_5'Flank|SLC35B2_uc011dvu.1_5'Flank	NM_004556	NP_004547	O00221	IKBE_HUMAN	nuclear factor of kappa light polypeptide gene	394	ANK 4.				cytoplasmic sequestering of transcription factor		protein binding			breast(2)	2	all_cancers(18;2e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TCAATGTCAGCTCCATTCCGA	0.592													56	113	---	---	---	---	PASS	T	44228205	T	T	44228205	3	4	156	1	0	0	0	0	1	0	0	0	10380	797	28	3	334	3	NFKBIE	6	44228205	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	8035103	44228205	126886862	229	55493										
CLIC5	53405	broad.mit.edu	37	chr6	45882036	45882036	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atccccatccaggaacttgcGccgggaccccttgtcttccc	8	18	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:45882036G>T	uc003oxv.3	-	5	1100	c.994C>A	c.(994-996)CGC>AGC	p.R332S	CLIC5_uc003oxu.3_Missense_Mutation_p.R173S|CLIC5_uc003oxw.2_RNA|CLIC5_uc003oxx.2_Missense_Mutation_p.R173S	NM_001114086	NP_001107558	Q9NZA1	CLIC5_HUMAN	chloride intracellular channel 5 isoform a	332	GST C-terminal.				female pregnancy	actin cytoskeleton|cell cortex|chloride channel complex|Golgi apparatus|Golgi apparatus|insoluble fraction|microtubule organizing center	protein binding|voltage-gated chloride channel activity			ovary(1)|skin(1)	2						AGGAACTTGCGCCGGGACCCC	0.557													43	142	---	---	---	---	PASS	T	45882036	T	T	45882036	3	4	156	1	0	0	0	0	1	0	0	0	3529	1087	38	1	246	1	CLIC5	6	45882036	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1653831	45882036	125233031	230	55494										
TFAP2D	83741	broad.mit.edu	37	chr6	50712946	50712946	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acagacagcaagaaaaaagaTgatcctggcgaccaagtaag	10	8	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:50712946T>A	uc003paf.2	+	6	1522	c.1010T>A	c.(1009-1011)ATG>AAG	p.M337K	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	337	H-S-H (helix-span-helix), dimerization.						DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					AGAAAAAAGATGATCCTGGCG	0.393													24	142	---	---	---	---	PASS	A	50712946	A	A	50712946	3	1	156	1	0	0	0	0	1	0	0	0	15787	1464	51	5	1032	5	TFAP2D	6	50712946	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	4830910	50712946	120402121	231	55495										
PKHD1	5314	broad.mit.edu	37	chr6	51774231	51774231	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcccatatccctggatcctaGcatcttctcactcatggaat	5	14	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:51774231G>C	uc003pah.1	-	40	6808	c.6532C>G	c.(6532-6534)CTA>GTA	p.L2178V	PKHD1_uc010jzn.1_Missense_Mutation_p.L203V|PKHD1_uc003pai.2_Missense_Mutation_p.L2178V	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2178	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CTGGATCCTAGCATCTTCTCA	0.473													98	218	---	---	---	---	PASS	C	51774231	C	C	51774231	3	2	156	1	0	0	0	0	1	0	0	0	11971	962	34	4	5843	4	PKHD1	6	51774231	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1061285	51774231	119340836	232	55496										
DST	667	broad.mit.edu	37	chr6	56458656	56458656	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acgtcttctgagaaactcttCtgcctcttcaatttggtcat	6	11	7	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:56458656C>T	uc003pdf.2	-	42	6202	c.6174G>A	c.(6172-6174)CAG>CAA	p.Q2058Q	DST_uc003pcz.3_Silent_p.Q1880Q|DST_uc011dxj.1_Silent_p.Q1909Q|DST_uc011dxk.1_Silent_p.Q1920Q|DST_uc003pcy.3_Silent_p.Q1554Q|DST_uc010kaa.1_RNA	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	3966	Spectrin 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)			AGAAACTCTTCTGCCTCTTCA	0.433													19	269	---	---	---	---	PASS	T	56458656	T	T	56458656	2	4	156	1	0	0	0	0	0	0	0	1	4783	912	32	2		2	DST	6	56458656	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	4684425	56458656	114656411	233	55497										
RIMS1	22999	broad.mit.edu	37	chr6	72968754	72968754	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cagacaccatgatgcctcccGaagtccagttgatcatagaa	8	12	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:72968754G>A	uc003pga.2	+	18	3070	c.2993G>A	c.(2992-2994)CGA>CAA	p.R998Q	RIMS1_uc011dyb.1_Missense_Mutation_p.R623Q|RIMS1_uc003pgc.2_Missense_Mutation_p.R624Q|RIMS1_uc010kaq.2_Missense_Mutation_p.R471Q|RIMS1_uc011dyc.1_Missense_Mutation_p.R472Q|RIMS1_uc010kar.2_Missense_Mutation_p.R391Q|RIMS1_uc011dyd.1_Missense_Mutation_p.R457Q|RIMS1_uc003pgf.2_Missense_Mutation_p.R214Q|RIMS1_uc003pgg.2_Missense_Mutation_p.R215Q|RIMS1_uc003pgi.2_Missense_Mutation_p.R214Q|RIMS1_uc003pgh.2_Missense_Mutation_p.R214Q|RIMS1_uc003pgd.2_Missense_Mutation_p.R215Q|RIMS1_uc003pge.2_Missense_Mutation_p.R215Q|RIMS1_uc011dye.1_5'UTR|RIMS1_uc011dyf.1_5'Flank|RIMS1_uc003pgb.3_Missense_Mutation_p.R624Q|RIMS1_uc010kas.1_Missense_Mutation_p.R457Q	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	998					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)				GATGCCTCCCGAAGTCCAGTT	0.353													27	95	---	---	---	---	PASS	A	72968754	A	A	72968754	3	1	156	1	0	0	0	0	1	0	0	0	13367	1058	37	2	3226	2	RIMS1	6	72968754	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	16510098	72968754	98146313	234	55498										
ELOVL4	6785	broad.mit.edu	37	chr6	80631373	80631373	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcaacccacttaattccaatCcaccacaaggtaaacatcgt	4	14	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:80631373C>G	uc003pja.3	-	4	829	c.510G>C	c.(508-510)TGG>TGC	p.W170C	ELOVL4_uc011dyt.1_RNA	NM_022726	NP_073563	Q9GZR5	ELOV4_HUMAN	elongation of very long chain fatty acids-like	170	Helical; (Potential).				fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	G-protein coupled photoreceptor activity|protein binding|transferase activity, transferring acyl groups other than amino-acyl groups			ovary(1)|skin(1)	2		all_cancers(76;1.83e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.011)		BRCA - Breast invasive adenocarcinoma(397;0.0168)	Alpha-Linolenic Acid(DB00132)	TAATTCCAATCCACCACAAGG	0.373													45	178	---	---	---	---	PASS	G	80631373	G	G	80631373	3	3	156	1	0	0	0	0	1	0	0	0	5076	856	30	2	446	2	ELOVL4	6	80631373	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	7662619	80631373	90483694	235	55499										
SPACA1	81833	broad.mit.edu	37	chr6	88775971	88775971	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atccgagcagagttctgtgaGatacaaagattcaacttctc	8	9	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:88775971G>C	uc003pmn.2	+	7	920	c.803G>C	c.(802-804)AGA>ACA	p.R268T		NM_030960	NP_112222	Q9HBV2	SACA1_HUMAN	sperm acrosome associated 1 precursor	268	Cytoplasmic (Potential).					integral to membrane					0		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.11)		AGTTCTGTGAGATACAAAGAT	0.408													34	149	---	---	---	---	PASS	C	88775971	C	C	88775971	3	2	156	1	0	0	0	0	1	0	0	0	14972	942	33	2	829	2	SPACA1	6	88775971	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	8144598	88775971	82339096	236	55500										
BACH2	60468	broad.mit.edu	37	chr6	90647949	90647949	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cgcgatgcggttcttgctgcGccgtcggacatcatgaataa	12	11	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:90647949G>A	uc011eab.1	-	8	2766	c.1957C>T	c.(1957-1959)CGC>TGC	p.R653C	BACH2_uc003pnw.2_Missense_Mutation_p.R653C	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	653	Basic motif.					nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		TTCTTGCTGCGCCGTCGGACA	0.448													46	162	---	---	---	---	PASS	A	90647949	A	A	90647949	3	1	156	1	0	0	0	0	1	0	0	0	1284	1087	38	1	576	1	BACH2	6	90647949	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1871978	90647949	80467118	237	55501										
FBXL4	26235	broad.mit.edu	37	chr6	99374492	99374492	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaaagtaagttccacatagtCctggctctgaaaattaggtg	9	7	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:99374492C>T	uc003ppf.1	-	3	731	c.373G>A	c.(373-375)GAC>AAC	p.D125N	FBXL4_uc003ppg.1_Missense_Mutation_p.D125N|FBXL4_uc003pph.1_5'UTR	NM_012160	NP_036292	Q9UKA2	FBXL4_HUMAN	F-box and leucine-rich repeat protein 4	125					ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex				skin(2)	2		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0413)		TCCACATAGTCCTGGCTCTGA	0.453													6	89	---	---	---	---	PASS	T	99374492	T	T	99374492	3	4	156	1	0	0	0	0	1	0	0	0	5721	855	30	2	1520	2	FBXL4	6	99374492	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	8726543	99374492	71740575	238	55502										
GRIK2	2898	broad.mit.edu	37	chr6	102516299	102516299	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cggttaaaacataagccacaGgccccagttattgtgaaaac	8	10	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:102516299G>T	uc003pqp.3	+	16	2889	c.2640G>T	c.(2638-2640)CAG>CAT	p.Q880H	GRIK2_uc003pqo.3_3'UTR|GRIK2_uc010kcw.2_3'UTR	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	880	Cytoplasmic (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	ATAAGCCACAGGCCCCAGTTA	0.443													9	79	---	---	---	---	PASS	T	102516299	T	T	102516299	3	4	156	1	0	0	0	0	1	0	0	0	6774	991	35	3	2875	3	GRIK2	6	102516299	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3141807	102516299	68598768	239	55503										
ZBTB24	9841	broad.mit.edu	37	chr6	109787325	109787325	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctgtttgctcctgttgagctGaaagaattaaattctgcagt	9	7	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:109787325G>C	uc003ptl.1	-	7	1991	c.1823C>G	c.(1822-1824)TCA>TGA	p.S608*	MICAL1_uc011eaq.1_5'Flank|ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Nonsense_Mutation_p.S552*|ZBTB24_uc010kdt.1_RNA	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	608					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		CTGTTGAGCTGAAAGAATTAA	0.488													11	195	---	---	---	---	PASS	C	109787325	C	C	109787325	4	2	156	1	0	0	0	0	0	1	0	0	17528	1294	45	2	274	2	ZBTB24	6	109787325	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	7271026	109787325	61327742	240	55504										
ZBTB24	9841	broad.mit.edu	37	chr6	109802560	109802560	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttcctcctctctacttggctCacaagtaggctccgattctt	6	14	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:109802560C>G	uc003ptl.1	-	2	838	c.670G>C	c.(670-672)GAG>CAG	p.E224Q	ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Missense_Mutation_p.E224Q|ZBTB24_uc010kdt.1_RNA|ZBTB24_uc003ptm.2_Missense_Mutation_p.E224Q	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	224					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		CTACTTGGCTCACAAGTAGGC	0.453													42	780	---	---	---	---	PASS	G	109802560	G	G	109802560	3	3	156	1	0	0	0	0	1	0	0	0	17528	835	29	2	1497	2	ZBTB24	6	109802560	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	15235	109802560	61312507	241	55505										
C6orf174	387104	broad.mit.edu	37	chr6	127797202	127797202	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cacgttcctccgcagcagctCcgtctcgtcttccaccagct	7	19	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:127797202C>T	uc003qbd.2	-	6	2834	c.1969G>A	c.(1969-1971)GAG>AAG	p.E657K	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	657	Potential.					integral to membrane		p.E657E(1)		breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CGCAGCAGCTCCGTCTCGTCT	0.642													8	79	---	---	---	---	PASS	T	127797202	T	T	127797202	3	4	156	1	0	0	0	0	1	0	0	0	2345	864	30	2	882	2	C6orf174	6	127797202	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	17994642	127797202	43317865	242	55506										
SAMD3	154075	broad.mit.edu	37	chr6	130497078	130497078	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tccaaatttacacttatttcTaatcacttgctcatcatctt	1	11	5	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:130497078T>G	uc003qbv.2	-	9	1056	c.730A>C	c.(730-732)AGA>CGA	p.R244R	SAMD3_uc003qbx.2_Silent_p.R244R|SAMD3_uc003qbw.2_Silent_p.R244R|SAMD3_uc010kfg.1_3'UTR	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	244										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		CACTTATTTCTAATCACTTGC	0.338													12	111	---	---	---	---	PASS	G	130497078	G	G	130497078	2	3	156	1	0	0	0	0	0	0	0	1	13820	1530	53	5		5	SAMD3	6	130497078	Silent	SNP	T	TCGA-66-2773-01A-01D-1267-08	2699876	130497078	40617989	243	55507										
TAAR1	134864	broad.mit.edu	37	chr6	132966255	132966255	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	accattggattaaatgtagaGttcaagtagccaaaccaaat	7	7	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:132966255G>C	uc003qdm.1	-	1	888	c.888C>G	c.(886-888)AAC>AAG	p.N296K		NM_138327	NP_612200	Q96RJ0	TAAR1_HUMAN	trace amine associated receptor 1	296	Helical; Name=7; (Potential).					plasma membrane					0	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00616)|GBM - Glioblastoma multiforme(226;0.0154)	Amphetamine(DB00182)	TAAATGTAGAGTTCAAGTAGC	0.353													15	109	---	---	---	---	PASS	C	132966255	C	C	132966255	3	2	156	1	0	0	0	0	1	0	0	0	15486	1020	36	4	135	4	TAAR1	6	132966255	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2469177	132966255	38148812	244	55508										
BCLAF1	9774	broad.mit.edu	37	chr6	136599714	136599714	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gacctcgtctaggactcctaGagtgccttctattccagaca	8	13	2	2	rs147983194	byFrequency	TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:136599714G>C	uc003qgx.1	-	4	558	c.305C>G	c.(304-306)TCT>TGT	p.S102C	BCLAF1_uc003qgw.1_Missense_Mutation_p.S102C|BCLAF1_uc003qgy.1_Missense_Mutation_p.S100C|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.S100C	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	102					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		AGGACTCCTAGAGTGCCTTCT	0.478													10	282	---	---	---	---	PASS	C	136599714	C	C	136599714	3	2	156	1	0	0	0	0	1	0	0	0	1383	942	33	2	2497	2	BCLAF1	6	136599714	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3633459	136599714	34515353	245	55509										
UTRN	7402	broad.mit.edu	37	chr6	144808687	144808687	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcccatctccattccagtctCtggaatctgttctgcgccac	6	16	4	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:144808687C>G	uc003qkt.2	+	28	3918	c.3826C>G	c.(3826-3828)CTG>GTG	p.L1276V		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1276	Spectrin 9.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		ATTCCAGTCTCTGGAATCTGT	0.413													9	121	---	---	---	---	PASS	G	144808687	G	G	144808687	3	3	156	1	0	0	0	0	1	0	0	0	17100	912	32	2	3936	2	UTRN	6	144808687	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	8208973	144808687	26306380	246	55510										
SYNE1	23345	broad.mit.edu	37	chr6	152577810	152577810	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggcttggttcagtccatccaGcaaagatgtaactgcagatt	10	9	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:152577810G>C	uc010kiw.2	-	102	19665	c.19063C>G	c.(19063-19065)CTG>GTG	p.L6355V	SYNE1_uc010kiv.2_Missense_Mutation_p.L879V|SYNE1_uc003qos.3_Missense_Mutation_p.L879V|SYNE1_uc003qot.3_Missense_Mutation_p.L6284V|SYNE1_uc003qou.3_Missense_Mutation_p.L6355V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6355	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)		AGTCCATCCAGCAAAGATGTA	0.458										HNSCC(10;0.0054)			36	170	---	---	---	---	PASS	C	152577810	C	C	152577810	3	2	156	1	0	0	0	0	1	0	0	0	15442	962	34	4	7583	4	SYNE1	6	152577810	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	7769123	152577810	18537257	247	55511										
SYNE1	23345	broad.mit.edu	37	chr6	152772190	152772190	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgggagacgtaccctgtgctCtttaattatcttttcactgc	8	10	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr6:152772190C>G	uc010kiw.2	-	26	3780	c.3178G>C	c.(3178-3180)GAG>CAG	p.E1060Q	SYNE1_uc003qot.3_Missense_Mutation_p.E1067Q|SYNE1_uc003qou.3_Missense_Mutation_p.E1060Q|SYNE1_uc010kjb.1_Missense_Mutation_p.E1043Q|SYNE1_uc003qow.2_Missense_Mutation_p.E355Q|SYNE1_uc003qox.1_Missense_Mutation_p.E576Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1060	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)		ACCCTGTGCTCTTTAATTATC	0.428										HNSCC(10;0.0054)			10	295	---	---	---	---	PASS	G	152772190	G	G	152772190	3	3	156	1	0	0	0	0	1	0	0	0	15442	922	32	2	23772	2	SYNE1	6	152772190	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	194380	152772190	18342877	248	55512										
NUDT1	4521	broad.mit.edu	37	chr7	2284336	2284336	+	Missense_Mutation	SNP	G	A	A													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggggcaaagtgcaagaaggaGagaccatcgaggatggggct							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:2284336G>A	uc003slp.1	+	3	298	c.196G>A	c.(196-198)GAG>AAG	p.E66K	FTSJ2_uc003slk.2_5'Flank|FTSJ2_uc003sll.2_5'Flank|FTSJ2_uc003slm.2_5'Flank|FTSJ2_uc003sln.2_5'Flank|FTSJ2_uc003slo.2_5'Flank|NUDT1_uc003slq.1_Missense_Mutation_p.E43K|NUDT1_uc003slr.1_Missense_Mutation_p.E43K|NUDT1_uc003sls.1_Missense_Mutation_p.E66K|NUDT1_uc003slt.1_Missense_Mutation_p.E43K|NUDT1_uc003slu.1_Missense_Mutation_p.E66K|NUDT1_uc003slv.1_Missense_Mutation_p.E43K	NM_198949	NP_945187	P36639	8ODP_HUMAN	nudix-type motif 1 isoform p22	84	Nudix box.|Nudix hydrolase.				DNA protection|DNA repair|response to oxidative stress	cytoplasm	8-oxo-7,8-dihydrodeoxyguanosine triphosphate pyrophosphatase activity|8-oxo-7,8-dihydroguanosine triphosphate pyrophosphatase activity|GTPase activity|metal ion binding|protein binding				0		Ovarian(82;0.0253)|Melanoma(862;0.155)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0822)|OV - Ovarian serous cystadenocarcinoma(56;2.8e-14)|BRCA - Breast invasive adenocarcinoma(126;0.15)		GCAAGAAGGAGAGACCATCGA	0.507								Direct_reversal_of_damage|Modulation_of_nucleotide_pools					12	55	---	---	---	---	PASS	A	2284336	A	A	2284336	3	1	156	1	0	0	0	0	1	0	0	0	10725	943	33	2	202	2	NUDT1	7	2284336	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08		2284336	156854327	249	55513	992	2								
NUDT1	4521	broad.mit.edu	37	chr7	2284345	2284345	+	Missense_Mutation	SNP	G	A	A													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgcaagaaggagagaccatcGaggatggggctaggaggtaa							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:2284345G>A	uc003slp.1	+	3	307	c.205G>A	c.(205-207)GAG>AAG	p.E69K	FTSJ2_uc003slk.2_5'Flank|FTSJ2_uc003sll.2_5'Flank|FTSJ2_uc003slm.2_5'Flank|FTSJ2_uc003sln.2_5'Flank|FTSJ2_uc003slo.2_5'Flank|NUDT1_uc003slq.1_Missense_Mutation_p.E46K|NUDT1_uc003slr.1_Missense_Mutation_p.E46K|NUDT1_uc003sls.1_Missense_Mutation_p.E69K|NUDT1_uc003slt.1_Missense_Mutation_p.E46K|NUDT1_uc003slu.1_Missense_Mutation_p.E69K|NUDT1_uc003slv.1_Missense_Mutation_p.E46K	NM_198949	NP_945187	P36639	8ODP_HUMAN	nudix-type motif 1 isoform p22	87	Nudix box.|Nudix hydrolase.				DNA protection|DNA repair|response to oxidative stress	cytoplasm	8-oxo-7,8-dihydrodeoxyguanosine triphosphate pyrophosphatase activity|8-oxo-7,8-dihydroguanosine triphosphate pyrophosphatase activity|GTPase activity|metal ion binding|protein binding				0		Ovarian(82;0.0253)|Melanoma(862;0.155)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0822)|OV - Ovarian serous cystadenocarcinoma(56;2.8e-14)|BRCA - Breast invasive adenocarcinoma(126;0.15)		AGAGACCATCGAGGATGGGGC	0.478								Direct_reversal_of_damage|Modulation_of_nucleotide_pools					10	44	---	---	---	---	PASS	A	2284345	A	A	2284345	3	1	156	1	0	0	0	0	1	0	0	0	10725	1059	37	2	211	2	NUDT1	7	2284345	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	9	2284345	156854318	250	55514	992	2								
SDK1	221935	broad.mit.edu	37	chr7	4007005	4007005	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	accacagttactgacgggatGacagccattctaaggtgtga	11	9	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:4007005G>A	uc003smx.2	+	10	1624	c.1485G>A	c.(1483-1485)ATG>ATA	p.M495I		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	495	Ig-like C2-type 5.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CTGACGGGATGACAGCCATTC	0.547													14	142	---	---	---	---	PASS	A	4007005	A	A	4007005	3	1	156	1	0	0	0	0	1	0	0	0	13968	1290	45	2	1523	2	SDK1	7	4007005	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1722660	4007005	155131658	251	55515										
RBAK	57786	broad.mit.edu	37	chr7	5104735	5104735	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tatgtggaaagttattcaatGagttgtcatactatactgaa	8	4	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:5104735G>A	uc010kss.1	+	6	1972	c.1648G>A	c.(1648-1650)GAG>AAG	p.E550K	LOC389458_uc003snr.2_Intron|RBAK_uc003sns.1_Missense_Mutation_p.E550K	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	550	Interaction with AR.|C2H2-type 11.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		GTTATTCAATGAGTTGTCATA	0.388													24	152	---	---	---	---	PASS	A	5104735	A	A	5104735	3	1	156	1	0	0	0	0	1	0	0	0	13100	1291	45	2	1662	2	RBAK	7	5104735	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1097730	5104735	154033928	252	55516										
DAGLB	221955	broad.mit.edu	37	chr7	6464443	6464443	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tctttcctgtgatccagagcCactaaaaacggcagctcgta	8	12	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:6464443C>A	uc003sqa.2	-	8	1250	c.1080G>T	c.(1078-1080)GTG>GTT	p.V360V	DAGLB_uc003spz.2_5'Flank|DAGLB_uc011jwt.1_Silent_p.V174V|DAGLB_uc011jwu.1_Silent_p.V231V|DAGLB_uc003sqb.2_Silent_p.V79V|DAGLB_uc003sqc.2_Silent_p.V79V|DAGLB_uc011jwv.1_RNA|DAGLB_uc003sqd.3_Silent_p.V319V|DAGLB_uc011jww.1_RNA	NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1	360	Cytoplasmic (Potential).				lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		GATCCAGAGCCACTAAAAACG	0.557													43	86	---	---	---	---	PASS	A	6464443	A	A	6464443	2	1	156	1	0	0	0	0	0	0	0	1	4227	581	21	3		3	DAGLB	7	6464443	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1359708	6464443	152674220	253	55517										
TRIL	9865	broad.mit.edu	37	chr7	28996473	28996473	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggtaatccaggtatttgcctCgcagggccggggggtggcga	18	9	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:28996473C>A	uc003szt.2	-	3	1557	c.1190G>T	c.(1189-1191)CGA>CTA	p.R397L	uc003szu.1_5'Flank	NM_014817	NP_055632	Q7L0X0	TRIL_HUMAN	TLR4 interactor with leucine rich repeats	397	Extracellular (Potential).|LRRCT.				inflammatory response|innate immune response|regulation of cytokine production involved in immune response|toll-like receptor 4 signaling pathway	lipopolysaccharide receptor complex	lipopolysaccharide binding				0						GTATTTGCCTCGCAGGGCCGG	0.667													15	122	---	---	---	---	PASS	A	28996473	A	A	28996473	3	1	156	1	0	0	0	0	1	0	0	0	16482	884	31	2	1249	2	TRIL	7	28996473	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	22532030	28996473	130142190	254	55518										
NOD1	10392	broad.mit.edu	37	chr7	30491410	30491410	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atccactcctggaagaacctGagcagctcctgagtgcccac	9	15	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:30491410G>A	uc003tav.2	-	6	2146	c.1623C>T	c.(1621-1623)CTC>CTT	p.L541L		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	541					activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						GGAAGAACCTGAGCAGCTCCT	0.627													17	289	---	---	---	---	PASS	A	30491410	A	A	30491410	2	1	156	1	0	0	0	0	0	0	0	1	10516	1277	45	2		2	NOD1	7	30491410	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1494937	30491410	128647253	255	55519										
NOD1	10392	broad.mit.edu	37	chr7	30492088	30492088	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agcttcccactgagcaggttGgccagcaagaccagggggtg	15	11	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:30492088G>A	uc003tav.2	-	6	1468	c.945C>T	c.(943-945)GCC>GCT	p.A315A	NOD1_uc010kvs.2_3'UTR	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	315	NACHT.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						TGAGCAGGTTGGCCAGCAAGA	0.662													5	64	---	---	---	---	PASS	A	30492088	A	A	30492088	2	1	156	1	0	0	0	0	0	0	0	1	10516	1335	47	3		3	NOD1	7	30492088	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	678	30492088	128646575	256	55520										
AEBP1	165	broad.mit.edu	37	chr7	44152268	44152268	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cctacccctacgatatggccCgcacgcctacccaggagcag	9	18	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:44152268C>A	uc003tkb.2	+	18	2634	c.2329C>A	c.(2329-2331)CGC>AGC	p.R777S	AEBP1_uc003tkc.3_Missense_Mutation_p.R352S|AEBP1_uc003tkd.2_Missense_Mutation_p.R27S	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	777	Interaction with PTEN (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CGATATGGCCCGCACGCCTAC	0.657													13	33	---	---	---	---	PASS	A	44152268	A	A	44152268	3	1	156	1	0	0	0	0	1	0	0	0	349	652	23	1	2399	1	AEBP1	7	44152268	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	13660180	44152268	114986395	257	55521										
ADCY1	107	broad.mit.edu	37	chr7	45699709	45699709	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cgaggtagaaccgggttacgGacatgagaggaacagtttct	14	7	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:45699709G>T	uc003tne.3	+	7	1394	c.1376G>T	c.(1375-1377)GGA>GTA	p.G459V	ADCY1_uc003tnd.2_Missense_Mutation_p.G234V	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	459	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CCGGGTTACGGACATGAGAGG	0.493													83	174	---	---	---	---	PASS	T	45699709	T	T	45699709	3	4	156	1	0	0	0	0	1	0	0	0	292	1174	41	2	1402	2	ADCY1	7	45699709	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1547441	45699709	113438954	258	55522										
SEPT14	346288	broad.mit.edu	37	chr7	55872950	55872950	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tatcaaactgtcagtactaaCctctttttcagcttctttaa	3	10	5	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:55872950C>A	uc003tqz.2	-	9	1236	c.1119_splice	c.e9+1	p.E373_splice		NM_207366	NP_997249	Q6ZU15	SEP14_HUMAN	septin 14						cell cycle|cell division	septin complex	GTP binding|protein binding				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TCAGTACTAACCTCTTTTTCA	0.343													24	74	---	---	---	---	PASS	A	55872950	A	A	55872950	5	1	156	1	0	0	0	0	0	0	1	0	14063	521	18	3	186	3	SEPT14	7	55872950	Splice_Site	SNP	C	TCGA-66-2773-01A-01D-1267-08	10173241	55872950	103265713	259	55523										
ZNF107	51427	broad.mit.edu	37	chr7	64168243	64168243	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ataagatagttcatactaaaGagaaactcaacaaatgtgaa	6	5	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:64168243G>C	uc003ttd.2	+	7	2347	c.1561G>C	c.(1561-1563)GAG>CAG	p.E521Q	ZNF107_uc003tte.2_Missense_Mutation_p.E521Q	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	521					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				TCATACTAAAGAGAAACTCAA	0.338													7	82	---	---	---	---	PASS	C	64168243	C	C	64168243	3	2	156	1	0	0	0	0	1	0	0	0	17712	943	33	2	1567	2	ZNF107	7	64168243	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	8295293	64168243	94970420	260	55524										
HIP1	3092	broad.mit.edu	37	chr7	75228554	75228554	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgcgtattaatggccttattGatgctgacagtctgaaaaac	9	7	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:75228554G>C	uc003uds.1	-	2	173	c.132C>G	c.(130-132)ATC>ATG	p.I44M		NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	44	ENTH.				activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						TGGCCTTATTGATGCTGACAG	0.507			T	PDGFRB	CMML								9	211	---	---	---	---	PASS	C	75228554	C	C	75228554	3	2	156	1	0	0	0	0	1	0	0	0	7114	1280	45	2	3101	2	HIP1	7	75228554	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	11060311	75228554	83910109	261	55525										
MAGI2	9863	broad.mit.edu	37	chr7	77885473	77885473	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtgaagccgaagccctgggCacctttcacaatggttaagg	12	10	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:77885473C>A	uc003ugx.2	-	10	2088	c.1834G>T	c.(1834-1836)GCC>TCC	p.A612S	MAGI2_uc003ugy.2_Missense_Mutation_p.A612S|MAGI2_uc010ldx.1_Missense_Mutation_p.A221S|MAGI2_uc010ldy.1_Missense_Mutation_p.A221S|MAGI2_uc011kgr.1_Missense_Mutation_p.A444S|MAGI2_uc011kgs.1_Missense_Mutation_p.A449S	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	612	PDZ 3.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				AAGCCCTGGGCACCTTTCACA	0.537													7	43	---	---	---	---	PASS	A	77885473	A	A	77885473	3	1	156	1	0	0	0	0	1	0	0	0	9191	710	25	3	2585	3	MAGI2	7	77885473	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2656919	77885473	81253190	262	55526										
GRM3	2913	broad.mit.edu	37	chr7	86468858	86468858	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttcgatggggtcaagaatggCgctcagaggccaaaattcat	12	8	3	2	rs112184476	byFrequency	TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:86468858C>T	uc003uid.2	+	4	3127	c.2028C>T	c.(2026-2028)GGC>GGT	p.G676G	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Silent_p.G548G|GRM3_uc010leh.2_Silent_p.G268G	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	676	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TCAAGAATGGCGCTCAGAGGC	0.547													36	134	---	---	---	---	PASS	T	86468858	T	T	86468858	2	4	156	1	0	0	0	0	0	0	0	1	6798	755	27	1		1	GRM3	7	86468858	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	8583385	86468858	72669805	263	55527										
PPP1R9A	55607	broad.mit.edu	37	chr7	94540111	94540111	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggctgaaaacaatgaatactCagtgactgggcattatccct	9	9	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:94540111C>G	uc003unp.2	+	2	968	c.686C>G	c.(685-687)TCA>TGA	p.S229*	PPP1R9A_uc010lfj.2_Nonsense_Mutation_p.S229*|PPP1R9A_uc011kif.1_Nonsense_Mutation_p.S229*|PPP1R9A_uc003unq.2_Nonsense_Mutation_p.S229*|PPP1R9A_uc011kig.1_Nonsense_Mutation_p.S229*	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	229						cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			AATGAATACTCAGTGACTGGG	0.433										HNSCC(28;0.073)			13	52	---	---	---	---	PASS	G	94540111	G	G	94540111	4	3	156	1	0	0	0	0	0	1	0	0	12378	838	29	2	688	2	PPP1R9A	7	94540111	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	8071253	94540111	64598552	264	55528										
ASB4	51666	broad.mit.edu	37	chr7	95157214	95157214	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcctttcggagctggtggccTtctacgtggaacacggggcc	15	12	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:95157214T>A	uc011kij.1	+	3	577	c.577T>A	c.(577-579)TTC>ATC	p.F193I	ASB4_uc003unx.2_Missense_Mutation_p.F193I	NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	193	ANK 4.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			GCTGGTGGCCTTCTACGTGGA	0.597											OREG0018172	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	93	---	---	---	---	PASS	A	95157214	A	A	95157214	3	1	156	1	0	0	0	0	1	0	0	0	1025	1609	56	5	587	5	ASB4	7	95157214	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	617103	95157214	63981449	265	55529										
ASB4	51666	broad.mit.edu	37	chr7	95166990	95166990	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agaacattacacaacagatgCcatagagcaattcctttgct	6	10	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:95166990C>A	uc011kij.1	+	5	1200	c.1200C>A	c.(1198-1200)TGC>TGA	p.C400*		NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	400	SOCS box.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			ACAACAGATGCCATAGAGCAA	0.403													36	194	---	---	---	---	PASS	A	95166990	A	A	95166990	4	1	156	1	0	0	0	0	0	1	0	0	1025	747	26	3	1290	3	ASB4	7	95166990	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	9776	95166990	63971673	266	55530										
SMURF1	57154	broad.mit.edu	37	chr7	98645447	98645447	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aggaagctcctcgtcctccaGagagccctcactgggcagtg	12	14	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:98645447G>C	uc003upu.1	-	11	1410	c.1090C>G	c.(1090-1092)CTG>GTG	p.L364V	SMURF1_uc003upv.1_Missense_Mutation_p.L338V|SMURF1_uc003upt.2_Missense_Mutation_p.L338V	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	364					BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			TCGTCCTCCAGAGAGCCCTCA	0.582													36	484	---	---	---	---	PASS	C	98645447	C	C	98645447	3	2	156	1	0	0	0	0	1	0	0	0	14819	933	33	2	1219	2	SMURF1	7	98645447	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3478457	98645447	60493216	267	55531										
NAPEPLD	222236	broad.mit.edu	37	chr7	102769078	102769078	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tagttacatcttcttctagtCtataatccagtttgaagctt	5	8	4	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:102769078C>G	uc003vbc.2	-	2	474	c.146G>C	c.(145-147)AGA>ACA	p.R49T	NAPEPLD_uc003vbd.2_Missense_Mutation_p.R49T|NAPEPLD_uc011klj.1_Missense_Mutation_p.R122T|NAPEPLD_uc003vbe.2_RNA|NAPEPLD_uc003vbf.2_Missense_Mutation_p.R49T	NM_198990	NP_945341	Q6IQ20	NAPEP_HUMAN	N-acyl phosphatidylethanolamine phospholipase D	49					phospholipid catabolic process	membrane	metal ion binding			skin(1)	1						TTCTTCTAGTCTATAATCCAG	0.383													27	111	---	---	---	---	PASS	G	102769078	G	G	102769078	3	3	156	1	0	0	0	0	1	0	0	0	10163	913	32	2	1051	2	NAPEPLD	7	102769078	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4123631	102769078	56369585	268	55532										
FSCN3	29999	broad.mit.edu	37	chr7	127235360	127235360	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tctccctcctgatgcctccaGacctgggagatcttggtgag	11	13	2	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:127235360G>A	uc003vmd.1	+	2	364	c.145_splice	c.e2-1	p.T49_splice	FSCN3_uc003vmc.1_Splice_Site_p.T4_splice|FSCN3_uc011kog.1_Splice_Site|FSCN3_uc011koh.1_Splice_Site|FSCN3_uc010llc.1_Splice_Site_p.T49_splice	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3							actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						GATGCCTCCAGACCTGGGAGA	0.557													18	142	---	---	---	---	PASS	A	127235360	A	A	127235360	5	1	156	1	0	0	0	0	0	0	1	0	6069	956	33	2	150	2	FSCN3	7	127235360	Splice_Site	SNP	G	TCGA-66-2773-01A-01D-1267-08	24466282	127235360	31903303	269	55533										
FLNC	2318	broad.mit.edu	37	chr7	128478704	128478704	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgatcgtggacccacagggcCggcgggacacagtggaggtg	18	10	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:128478704C>T	uc003vnz.3	+	8	1467	c.1258C>T	c.(1258-1260)CGG>TGG	p.R420W	FLNC_uc003voa.3_Missense_Mutation_p.R420W	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	420	Filamin 2.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CCCACAGGGCCGGCGGGACAC	0.647													63	224	---	---	---	---	PASS	T	128478704	T	T	128478704	3	4	156	1	0	0	0	0	1	0	0	0	5935	643	23	1	1288	1	FLNC	7	128478704	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1243344	128478704	30659959	270	55534										
PLXNA4	91584	broad.mit.edu	37	chr7	131825488	131825488	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctgagccaccacagagaggcAggcgtctgtgatgctgttct	13	11	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:131825488A>C	uc003vra.3	-	30	5537	c.5308T>G	c.(5308-5310)TGC>GGC	p.C1770G	PLXNA4_uc003vqz.3_Missense_Mutation_p.C55G	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1770	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						ACAGAGAGGCAGGCGTCTGTG	0.557													31	116	---	---	---	---	PASS	C	131825488	C	C	131825488	3	2	156	1	0	0	0	0	1	0	0	0	12122	188	7	5	388	5	PLXNA4	7	131825488	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	3346784	131825488	27313175	271	55535										
SLC13A4	26266	broad.mit.edu	37	chr7	135378967	135378967	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggtcttcttcttcttgctcaGagagcaggtctctttaaaac	8	10	6	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:135378967G>A	uc003vta.2	-	10	1725	c.1036C>T	c.(1036-1038)CTG>TTG	p.L346L	SLC13A4_uc003vtb.2_Silent_p.L347L	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	346						integral to plasma membrane	sodium:sulfate symporter activity				0						TTCTTGCTCAGAGAGCAGGTC	0.388													33	181	---	---	---	---	PASS	A	135378967	A	A	135378967	2	1	156	1	0	0	0	0	0	0	0	1	14394	933	33	2		2	SLC13A4	7	135378967	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	3553479	135378967	23759696	272	55536										
PTN	5764	broad.mit.edu	37	chr7	136939655	136939655	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtatccacagctgccagtatGaaaatgaatgccaagaaggc	10	9	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:136939655G>A	uc003vtq.2	-	2	429	c.66C>T	c.(64-66)TTC>TTT	p.F22F	PTN_uc010lmx.2_Silent_p.F22F|PTN_uc003vtr.1_Silent_p.F22F	NM_002825	NP_002816	P21246	PTN_HUMAN	pleiotrophin	22					nervous system development|positive regulation of cell division|positive regulation of cell proliferation|transmembrane receptor protein tyrosine phosphatase signaling pathway	endoplasmic reticulum|extracellular space	growth factor activity|heparin binding|protein phosphatase inhibitor activity			upper_aerodigestive_tract(1)|pancreas(1)	2						CTGCCAGTATGAAAATGAATG	0.458													12	41	---	---	---	---	PASS	A	136939655	A	A	136939655	2	1	156	1	0	0	0	0	0	0	0	1	12768	1281	45	2		2	PTN	7	136939655	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1560688	136939655	22199008	273	55537										
OR9A2	135924	broad.mit.edu	37	chr7	142723727	142723727	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtctaatgaatttgatttgcGgaaggtaaactgaaatgtgg	12	3	1	3	rs143573729	byFrequency	TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:142723727G>T	uc003wcc.1	-	1	493	c.493C>A	c.(493-495)CGC>AGC	p.R165S		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					TTTGATTTGCGGAAGGTAAAC	0.398													36	184	---	---	---	---	PASS	T	142723727	T	T	142723727	3	4	156	1	0	0	0	0	1	0	0	0	11248	1116	39	1	443	1	OR9A2	7	142723727	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5784072	142723727	16414936	274	55538										
OR2A2	442361	broad.mit.edu	37	chr7	143806807	143806807	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctgctggggaatggggtcatCtttgggattatctgcctgga	15	7	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:143806807C>A	uc011ktz.1	+	1	132	c.132C>A	c.(130-132)ATC>ATA	p.I44I		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	44	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					ATGGGGTCATCTTTGGGATTA	0.507													79	281	---	---	---	---	PASS	A	143806807	A	A	143806807	2	1	156	1	0	0	0	0	0	0	0	1	10977	903	32	2		2	OR2A2	7	143806807	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1083080	143806807	15331856	275	55539										
ZNF467	168544	broad.mit.edu	37	chr7	149461956	149461956	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagctctttccgcactgcggGcaggagaaggggcgggagcc	17	11	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:149461956G>C	uc003wgd.2	-	5	1776	c.1635C>G	c.(1633-1635)TGC>TGG	p.C545W	ZNF467_uc003wgc.2_Intron	NM_207336	NP_997219	Q7Z7K2	ZN467_HUMAN	zinc finger protein 467	545	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CGCACTGCGGGCAGGAGAAGG	0.711													11	59	---	---	---	---	PASS	C	149461956	C	C	149461956	3	2	156	1	0	0	0	0	1	0	0	0	17924	1195	42	4	156	4	ZNF467	7	149461956	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5655149	149461956	9676707	276	55540										
GIMAP6	474344	broad.mit.edu	37	chr7	150325214	150325214	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccgggtgaacaccaggatggTgtgacccagaacccccactc	11	15	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:150325214T>A	uc003whn.2	-	3	896	c.472A>T	c.(472-474)ACC>TCC	p.T158S	GIMAP6_uc003whm.2_Missense_Mutation_p.T78S	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	158							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ACCAGGATGGTGTGACCCAGA	0.622													60	318	---	---	---	---	PASS	A	150325214	A	A	150325214	3	1	156	1	0	0	0	0	1	0	0	0	6383	1696	59	5	410	5	GIMAP6	7	150325214	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	863258	150325214	8813449	277	55541										
MLL3	58508	broad.mit.edu	37	chr7	151970887	151970887	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcagcacaaggataatgataCatctgggtacatttctcttc	8	9	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:151970887C>G	uc003wla.2	-	7	1134	c.915G>C	c.(913-915)ATG>ATC	p.M305I		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	305					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GATAATGATACATCTGGGTAC	0.433			N		medulloblastoma								12	325	---	---	---	---	PASS	G	151970887	G	G	151970887	3	3	156	1	0	0	0	0	1	0	0	0	9622	478	17	4	14032	4	MLL3	7	151970887	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1645673	151970887	7167776	278	55542										
HTR5A	3361	broad.mit.edu	37	chr7	154862633	154862633	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gatttacctgtgaacctaacCtccttttccctctccacccc	3	18	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:154862633C>A	uc003wlu.1	+	1	88	c.24C>A	c.(22-24)ACC>ACA	p.T8T	uc011kvt.1_Intron|uc003wlt.2_Intron	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	8	Extracellular (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		TGAACCTAACCTCCTTTTCCC	0.612													44	219	---	---	---	---	PASS	A	154862633	A	A	154862633	2	1	156	1	0	0	0	0	0	0	0	1	7450	668	24	3		3	HTR5A	7	154862633	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	2891746	154862633	4276030	279	55543										
MNX1	3110	broad.mit.edu	37	chr7	156799191	156799191	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acctgggtctcggtgagcatGagcgaggtggccacctcgaa	15	11	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:156799191G>C	uc003wnd.1	-	2	1137	c.834C>G	c.(832-834)CTC>CTG	p.L278L	MNX1_uc003wmz.2_Intron|MNX1_uc003wna.2_Intron|MNX1_uc010lqq.1_Silent_p.L71L|MNX1_uc003wnc.1_Silent_p.L66L|MNX1_uc010lqr.1_Intron	NM_005515	NP_005506	P50219	MNX1_HUMAN	motor neuron and pancreas homeobox 1 isoform 1	278	Homeobox.				humoral immune response|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGGTGAGCATGAGCGAGGTGG	0.667									Currarino_syndrome				3	39	---	---	---	---	PASS	C	156799191	C	C	156799191	2	2	156	1	0	0	0	0	0	0	0	1	9679	1277	45	2		2	MNX1	7	156799191	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1936558	156799191	2339472	280	55544										
VIPR2	7434	broad.mit.edu	37	chr7	158902523	158902523	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctgctttgctgtaaaaattgCtgaagacttttgggcagggc	12	7	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr7:158902523C>T	uc003woh.2	-	3	425	c.239G>A	c.(238-240)AGC>AAC	p.S80N	VIPR2_uc010lqx.2_RNA|VIPR2_uc010lqy.2_RNA	NM_003382	NP_003373	P41587	VIPR2_HUMAN	vasoactive intestinal peptide receptor 2	80	Extracellular (Potential).				cell-cell signaling	integral to plasma membrane				lung(1)|central_nervous_system(1)	2	Ovarian(565;0.152)	all_cancers(7;1.13e-11)|all_epithelial(9;0.000545)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)|STAD - Stomach adenocarcinoma(7;0.18)		GTAAAAATTGCTGAAGACTTT	0.552													34	151	---	---	---	---	PASS	T	158902523	T	T	158902523	3	4	156	1	0	0	0	0	1	0	0	0	17167	797	28	3	1121	3	VIPR2	7	158902523	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2103332	158902523	236140	281	55545										
CSMD1	64478	broad.mit.edu	37	chr8	3224707	3224707	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcggaaaaacttccatcctCtgtgatcagtaaatagtcgt	7	10	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:3224707C>T	uc011kwk.1	-	20	3355	c.2965G>A	c.(2965-2967)GAG>AAG	p.E989K	CSMD1_uc011kwj.1_Missense_Mutation_p.E381K|CSMD1_uc003wqe.2_Missense_Mutation_p.E145K	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	989	Extracellular (Potential).|CUB 6.					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)		CTTCCATCCTCTGTGATCAGT	0.463													4	44	---	---	---	---	PASS	T	3224707	T	T	3224707	3	4	156	1	0	0	0	0	1	0	0	0	3944	922	32	2	7936	2	CSMD1	8	3224707	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08		3224707	143139315	282	55546										
ERI1	90459	broad.mit.edu	37	chr8	8873888	8873888	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aacacacagctgtctgatttCtgcatcagtctaactggaat	7	10	4	1	rs139484248	byFrequency	TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:8873888C>G	uc011kwu.1	+	4	815	c.555C>G	c.(553-555)TTC>TTG	p.F185L	ERI1_uc003wsk.2_Missense_Mutation_p.F185L	NM_153332	NP_699163	Q8IV48	ERI1_HUMAN	three prime histone mRNA exonuclease 1	185	Exonuclease.				gene silencing by RNA|rRNA 3'-end processing	cytoplasm|histone pre-mRNA 3'end processing complex|nucleolus	3'-5' exonuclease activity|histone pre-mRNA stem-loop binding|metal ion binding|ribosome binding|rRNA binding				0					Adenosine monophosphate(DB00131)	TGTCTGATTTCTGCATCAGTC	0.323													15	370	---	---	---	---	PASS	G	8873888	G	G	8873888	3	3	156	1	0	0	0	0	1	0	0	0	5227	912	32	2	569	2	ERI1	8	8873888	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	5649181	8873888	137490134	283	55547										
TNKS	8658	broad.mit.edu	37	chr8	9623228	9623228	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaagttgtcaacaagaagttGagggagcggttctgccaccg	13	8	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:9623228G>C	uc003wss.2	+	24	3479	c.3474G>C	c.(3472-3474)TTG>TTC	p.L1158F	TNKS_uc011kww.1_Missense_Mutation_p.L921F	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1158	PARP catalytic.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		ACAAGAAGTTGAGGGAGCGGT	0.413													12	123	---	---	---	---	PASS	C	9623228	C	C	9623228	3	2	156	1	0	0	0	0	1	0	0	0	16316	1281	45	2	3568	2	TNKS	8	9623228	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	749340	9623228	136740794	284	55548										
BLK	640	broad.mit.edu	37	chr8	11415529	11415529	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agattgtcactcccaaggctGattgacatgtcggcgcaggt	12	10	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:11415529G>C	uc003wty.2	+	10	1592	c.1011G>C	c.(1009-1011)CTG>CTC	p.L337L	BLK_uc003wtz.2_Silent_p.L266L|BLK_uc003wua.2_5'Flank	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	337	Protein kinase.				intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		TCCCAAGGCTGATTGACATGT	0.378													46	159	---	---	---	---	PASS	C	11415529	C	C	11415529	2	2	156	1	0	0	0	0	0	0	0	1	1444	1277	45	2		2	BLK	8	11415529	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1792301	11415529	134948493	285	55549										
DLC1	10395	broad.mit.edu	37	chr8	12960310	12960310	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tatactcactcgtttccgatGaggactaatttctagcttca	6	10	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:12960310G>C	uc003wwm.2	-	8	1999	c.1555C>G	c.(1555-1557)CAT>GAT	p.H519D	DLC1_uc003wwk.1_Missense_Mutation_p.H82D|DLC1_uc003wwl.1_Missense_Mutation_p.H116D|DLC1_uc011kxx.1_Missense_Mutation_p.H8D	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	519					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CGTTTCCGATGAGGACTAATT	0.368													51	309	---	---	---	---	PASS	C	12960310	C	C	12960310	3	2	156	1	0	0	0	0	1	0	0	0	4550	1290	45	2	3075	2	DLC1	8	12960310	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1544781	12960310	133403712	286	55550										
NAT2	10	broad.mit.edu	37	chr8	18257600	18257600	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acattaactgacattcttgaGcaccagatccgggctgttcc	8	12	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:18257600G>T	uc003wyw.1	+	2	194	c.87G>T	c.(85-87)GAG>GAT	p.E29D		NM_000015	NP_000006	P11245	ARY2_HUMAN	N-acetyltransferase 2	29					xenobiotic metabolic process	cytosol	arylamine N-acetyltransferase activity			ovary(1)|skin(1)	2				Colorectal(111;0.0531)|COAD - Colon adenocarcinoma(73;0.21)		ACATTCTTGAGCACCAGATCC	0.408									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				89	241	---	---	---	---	PASS	T	18257600	T	T	18257600	3	4	156	1	0	0	0	0	1	0	0	0	10177	962	34	3	89	3	NAT2	8	18257600	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5297290	18257600	128106422	287	55551										
LPL	4023	broad.mit.edu	37	chr8	19805770	19805770	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gctgaggacacttgccacctCattcccggagtagcagagtc	11	13	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:19805770C>G	uc003wzk.3	+	2	538	c.168C>G	c.(166-168)CTC>CTG	p.L56L		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor	56					fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	CTTGCCACCTCATTCCCGGAG	0.478													40	317	---	---	---	---	PASS	G	19805770	G	G	19805770	2	3	156	1	0	0	0	0	0	0	0	1	8921	813	29	2		2	LPL	8	19805770	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1548170	19805770	126558252	288	55552										
ADAMDEC1	27299	broad.mit.edu	37	chr8	24255215	24255215	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaaagaagactttcttcgggCacagaaatacattgatctct	8	8	2	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:24255215C>A	uc003xdz.2	+	7	867	c.647C>A	c.(646-648)GCA>GAA	p.A216E	ADAMDEC1_uc010lub.2_Missense_Mutation_p.A137E|ADAMDEC1_uc011lab.1_Missense_Mutation_p.A137E	NM_014479	NP_055294	O15204	ADEC1_HUMAN	ADAM-like, decysin 1 isoform 1	216					integrin-mediated signaling pathway|negative regulation of cell adhesion|proteolysis	extracellular region|integral to membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)	2		Prostate(55;0.0181)		Colorectal(74;0.016)|COAD - Colon adenocarcinoma(73;0.0646)|BRCA - Breast invasive adenocarcinoma(99;0.168)		TTTCTTCGGGCACAGAAATAC	0.363													27	87	---	---	---	---	PASS	A	24255215	A	A	24255215	3	1	156	1	0	0	0	0	1	0	0	0	254	710	25	3	673	3	ADAMDEC1	8	24255215	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4449445	24255215	122108807	289	55553										
NEFM	4741	broad.mit.edu	37	chr8	24771781	24771781	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aggagatccgcgagctgcgcGccaccctggagatggtgaac	15	12	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:24771781G>T	uc003xed.3	+	1	508	c.475G>T	c.(475-477)GCC>TCC	p.A159S	NEFM_uc011lac.1_Missense_Mutation_p.A159S|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	159	Rod.|Coil 1B.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		CGAGCTGCGCGCCACCCTGGA	0.642													22	42	---	---	---	---	PASS	T	24771781	T	T	24771781	3	4	156	1	0	0	0	0	1	0	0	0	10316	1087	38	1	477	1	NEFM	8	24771781	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	516566	24771781	121592241	290	55554										
ESCO2	157570	broad.mit.edu	37	chr8	27634195	27634195	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aatcttttcccattgtgacaGaaaaaatgcaaggaaaacca	6	8	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:27634195G>C	uc003xgg.2	+	3	453	c.370G>C	c.(370-372)GAA>CAA	p.E124Q	ESCO2_uc010luy.1_RNA|ESCO2_uc003xgh.2_Missense_Mutation_p.E124Q	NM_001017420	NP_001017420	Q56NI9	ESCO2_HUMAN	establishment of cohesion 1 homolog 2	124					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding			central_nervous_system(1)	1		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|KIRC - Kidney renal clear cell carcinoma(542;0.0955)|Kidney(114;0.115)|Colorectal(74;0.132)		CATTGTGACAGAAAAAATGCA	0.363									SC_Phocomelia_syndrome				54	101	---	---	---	---	PASS	C	27634195	C	C	27634195	3	2	156	1	0	0	0	0	1	0	0	0	5249	943	33	2	376	2	ESCO2	8	27634195	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2862414	27634195	118729827	291	55555										
ERLIN2	11160	broad.mit.edu	37	chr8	37607111	37607111	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aatctcaaactggctttgcaAcaggacctgacctccatggc	8	13	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:37607111A>T	uc003xke.3	+	7	574	c.459A>T	c.(457-459)CAA>CAT	p.Q153H	LOC728024_uc010lvx.1_5'Flank	NM_007175	NP_009106	O94905	ERLN2_HUMAN	ER lipid raft associated 2 isoform 1	153	Lumenal (Potential).				ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	protein binding				0		Lung NSC(58;0.174)	BRCA - Breast invasive adenocarcinoma(5;6.14e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			TGGCTTTGCAACAGGACCTGA	0.488													47	142	---	---	---	---	PASS	T	37607111	T	T	37607111	3	4	156	1	0	0	0	0	1	0	0	0	5233	40	2	5	520	5	ERLIN2	8	37607111	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	9972916	37607111	108756911	292	55556										
DDHD2	23259	broad.mit.edu	37	chr8	38111095	38111095	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgttaacacagaagagacctCtgtggcagttaaagaagaag	11	6	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:38111095C>G	uc003xlb.2	+	16	2290	c.1913C>G	c.(1912-1914)TCT>TGT	p.S638C	DDHD2_uc003xlc.2_Missense_Mutation_p.S638C|DDHD2_uc003xld.2_Missense_Mutation_p.S257C	NM_015214	NP_056029	O94830	DDHD2_HUMAN	DDHD domain containing 2 isoform 1	638	DDHD.				lipid catabolic process	centrosome	hydrolase activity|metal ion binding			large_intestine(1)|ovary(1)	2	Colorectal(12;0.000442)	all_lung(54;0.0657)|Lung NSC(58;0.175)	BRCA - Breast invasive adenocarcinoma(5;3.76e-25)|COAD - Colon adenocarcinoma(9;0.0977)			GAAGAGACCTCTGTGGCAGTT	0.428													34	201	---	---	---	---	PASS	G	38111095	G	G	38111095	3	3	156	1	0	0	0	0	1	0	0	0	4327	913	32	2	2033	2	DDHD2	8	38111095	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	503984	38111095	108252927	293	55557										
IDO1	3620	broad.mit.edu	37	chr8	39782819	39782819	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cccaaaggagtttgcaggggGcagtgcaggccaaagcagcg	16	10	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:39782819G>A	uc003xnm.2	+	9	899	c.785G>A	c.(784-786)GGC>GAC	p.G262D	IDO1_uc003xnn.2_RNA	NM_002164	NP_002155	P14902	I23O1_HUMAN	indoleamine 2,3-dioxygenase 1	262					female pregnancy|tryptophan catabolic process	cytosol	electron carrier activity|heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			central_nervous_system(2)	2					L-Tryptophan(DB00150)	TTTGCAGGGGGCAGTGCAGGC	0.498													16	35	---	---	---	---	PASS	A	39782819	A	A	39782819	3	1	156	1	0	0	0	0	1	0	0	0	7501	1203	42	3	819	3	IDO1	8	39782819	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1671724	39782819	106581203	294	55558										
ANK1	286	broad.mit.edu	37	chr8	41519460	41519460	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cgaaccaccttgcgaatgatCtaggaaaggaagggaaggag	14	7	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:41519460C>G	uc003xok.2	-	41	5563	c.5479_splice	c.e41-1	p.I1827_splice	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Splice_Site_p.I981_splice|ANK1_uc003xoi.2_Splice_Site_p.I1827_splice|ANK1_uc003xoj.2_Splice_Site_p.I1827_splice|ANK1_uc003xol.2_Splice_Site_p.I1665_splice|ANK1_uc003xom.2_Splice_Site_p.I1868_splice|ANK1_uc011lcl.1_Splice_Site_p.I102_splice|ANK1_uc003xod.2_Splice_Site_p.I102_splice|ANK1_uc003xoc.2_Splice_Site_p.I102_splice|ANK1_uc003xof.2_Intron|MIR486_hsa-mir-486|MI0002470_5'Flank	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1						axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TGCGAATGATCTAGGAAAGGA	0.398													35	122	---	---	---	---	PASS	G	41519460	G	G	41519460	5	3	156	1	0	0	0	0	0	0	1	0	620	927	32	2	278	2	ANK1	8	41519460	Splice_Site	SNP	C	TCGA-66-2773-01A-01D-1267-08	1736641	41519460	104844562	295	55559										
THAP1	55145	broad.mit.edu	37	chr8	42693375	42693375	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	actgagagattaacaggggtCtgaagaggcggcattagtaa	14	5	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:42693375C>G	uc003xpk.2	-	3	609	c.372G>C	c.(370-372)CAG>CAC	p.Q124H	THAP1_uc003xpl.2_3'UTR	NM_018105	NP_060575	Q9NVV9	THAP1_HUMAN	THAP domain containing, apoptosis associated	124					cell cycle|endothelial cell proliferation|regulation of mitotic cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	sequence-specific DNA binding|zinc ion binding				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Acute lymphoblastic leukemia(644;0.000299)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0377)|LUSC - Lung squamous cell carcinoma(45;0.0869)			TAACAGGGGTCTGAAGAGGCG	0.478													60	442	---	---	---	---	PASS	G	42693375	G	G	42693375	3	3	156	1	0	0	0	0	1	0	0	0	15838	912	32	2	273	2	THAP1	8	42693375	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1173915	42693375	103670647	296	55560										
PXDNL	137902	broad.mit.edu	37	chr8	52258427	52258427	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acttaactccatatccttatCaacaggatagctgtattgag	6	9	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:52258427C>A	uc003xqu.3	-	20	4083	c.3982G>T	c.(3982-3984)GAT>TAT	p.D1328Y	PXDNL_uc003xqt.3_Intron	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1328					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				ATATCCTTATCAACAGGATAG	0.388													7	100	---	---	---	---	PASS	A	52258427	A	A	52258427	3	1	156	1	0	0	0	0	1	0	0	0	12848	826	29	2	425	2	PXDNL	8	52258427	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	9565052	52258427	94105595	297	55561										
LYPLA1	10434	broad.mit.edu	37	chr8	54963582	54963582	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agacacctacctgttgacacGaactgtgcatcataccttca	6	13	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:54963582G>A	uc003xry.2	-	8	823	c.629C>T	c.(628-630)TCG>TTG	p.S210L	LYPLA1_uc011ldx.1_Missense_Mutation_p.S171L|LYPLA1_uc003xrz.2_Missense_Mutation_p.S189L	NM_006330	NP_006321	O75608	LYPA1_HUMAN	lysophospholipase 1	210					fatty acid metabolic process|nitric oxide metabolic process|regulation of nitric-oxide synthase activity	cytosol	lysophospholipase activity|palmitoyl-(protein) hydrolase activity			central_nervous_system(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.11)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;8.48e-07)|Epithelial(17;9.29e-05)|all cancers(17;0.000689)			CTGTTGACACGAACTGTGCAT	0.388													16	425	---	---	---	---	PASS	A	54963582	A	A	54963582	3	1	156	1	0	0	0	0	1	0	0	0	9116	1059	37	2	71	2	LYPLA1	8	54963582	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2705155	54963582	91400440	298	55562										
ZFHX4	79776	broad.mit.edu	37	chr8	77618013	77618013	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aggactttgcagacgcaagtGccagtaaagacagtgccaca	11	10	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:77618013G>A	uc003yav.2	+	2	2077	c.1690G>A	c.(1690-1692)GCC>ACC	p.A564T	ZFHX4_uc003yat.1_Missense_Mutation_p.A564T|ZFHX4_uc003yau.1_Missense_Mutation_p.A564T|ZFHX4_uc003yaw.1_Missense_Mutation_p.A564T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	564						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AGACGCAAGTGCCAGTAAAGA	0.512										HNSCC(33;0.089)			35	83	---	---	---	---	PASS	A	77618013	A	A	77618013	3	1	156	1	0	0	0	0	1	0	0	0	17632	1319	46	3	1692	3	ZFHX4	8	77618013	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	22654431	77618013	68746009	299	55563										
ZFHX4	79776	broad.mit.edu	37	chr8	77763196	77763196	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atgtggaagtaaagaatgagGagcagaaaccgactaaagaa	12	4	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:77763196G>T	uc003yav.2	+	10	4291	c.3904G>T	c.(3904-3906)GAG>TAG	p.E1302*	ZFHX4_uc003yau.1_Nonsense_Mutation_p.E1347*|ZFHX4_uc003yaw.1_Nonsense_Mutation_p.E1302*	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1302						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAAGAATGAGGAGCAGAAACC	0.403										HNSCC(33;0.089)			23	40	---	---	---	---	PASS	T	77763196	T	T	77763196	4	4	156	1	0	0	0	0	0	1	0	0	17632	1175	41	2	4073	2	ZFHX4	8	77763196	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	145183	77763196	68600826	300	55564										
MTDH	92140	broad.mit.edu	37	chr8	98731283	98731283	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atttttctctataggacacaGaagaattagaaaaagagatt	7	4	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:98731283G>A	uc003yhz.2	+	10	1715	c.1387G>A	c.(1387-1389)GAA>AAA	p.E463K	MTDH_uc010mbf.2_RNA	NM_178812	NP_848927	Q86UE4	LYRIC_HUMAN	metadherin	463	Cytoplasmic (Potential).				lipopolysaccharide-mediated signaling pathway|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of angiogenesis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein kinase B signaling cascade	apical plasma membrane|endoplasmic reticulum membrane|integral to membrane|intercellular canaliculus|nuclear body|nuclear membrane|nucleolus|perinuclear region of cytoplasm|tight junction	NF-kappaB binding|RNA polymerase II transcription factor binding|transcription coactivator activity			liver(1)|central_nervous_system(1)	2	Breast(36;2.56e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.178)			ATAGGACACAGAAGAATTAGA	0.264													16	108	---	---	---	---	PASS	A	98731283	A	A	98731283	3	1	156	1	0	0	0	0	1	0	0	0	9917	943	33	2	1425	2	MTDH	8	98731283	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	20968087	98731283	47632739	301	55565										
LAPTM4B	55353	broad.mit.edu	37	chr8	98831389	98831389	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcctaattttccctacagaGatgatgtcatgtcagtgaat	7	9	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:98831389G>A	uc003yia.2	+	5	859	c.703G>A	c.(703-705)GAT>AAT	p.D235N	LAPTM4B_uc010mbg.2_Intron	NM_018407	NP_060877	Q86VI4	LAP4B_HUMAN	lysosomal associated transmembrane protein 4	288					transport	endomembrane system|integral to membrane	protein binding			skin(1)	1	Breast(36;1.59e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.149)			TCCCTACAGAGATGATGTCAT	0.368													41	273	---	---	---	---	PASS	A	98831389	A	A	98831389	3	1	156	1	0	0	0	0	1	0	0	0	8625	942	33	2	721	2	LAPTM4B	8	98831389	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	100106	98831389	47532633	302	55566										
VPS13B	157680	broad.mit.edu	37	chr8	100133571	100133571	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggcgaggaagactttgttggGaacgatcctgcatcaaccat	12	9	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:100133571G>T	uc003yiv.2	+	8	1215	c.1104G>T	c.(1102-1104)GGG>GGT	p.G368G	VPS13B_uc003yiw.2_Silent_p.G368G|VPS13B_uc003yit.2_Silent_p.G368G|VPS13B_uc003yiu.1_Silent_p.G368G|VPS13B_uc003yis.2_Silent_p.G368G|VPS13B_uc011lgy.1_Silent_p.G244G	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	368					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			ACTTTGTTGGGAACGATCCTG	0.468													26	200	---	---	---	---	PASS	T	100133571	T	T	100133571	2	4	156	1	0	0	0	0	0	0	0	1	17187	1161	41	2		2	VPS13B	8	100133571	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1302182	100133571	46230451	303	55567										
VPS13B	157680	broad.mit.edu	37	chr8	100733161	100733161	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaagattgcccagggatgatGttatggagatatccagaacc	12	7	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:100733161G>A	uc003yiv.2	+	39	7122	c.7011G>A	c.(7009-7011)ATG>ATA	p.M2337I	VPS13B_uc003yiw.2_Missense_Mutation_p.M2312I	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2337					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CAGGGATGATGTTATGGAGAT	0.373													11	180	---	---	---	---	PASS	A	100733161	A	A	100733161	3	1	156	1	0	0	0	0	1	0	0	0	17187	1377	48	3	7355	3	VPS13B	8	100733161	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	599590	100733161	45630861	304	55568										
SPAG1	6674	broad.mit.edu	37	chr8	101252722	101252722	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gggaggcaaaagcagcaggtCaccagaagaccctgagaaac	13	10	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:101252722C>T	uc003yjh.1	+	18	2458	c.2372C>T	c.(2371-2373)TCA>TTA	p.S791L	SPAG1_uc003yji.1_Missense_Mutation_p.S791L	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	791					single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		AGCAGCAGGTCACCAGAAGAC	0.488													7	130	---	---	---	---	PASS	T	101252722	T	T	101252722	3	4	156	1	0	0	0	0	1	0	0	0	14975	838	29	2	2438	2	SPAG1	8	101252722	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	519561	101252722	45111300	305	55569										
FZD6	8323	broad.mit.edu	37	chr8	104330835	104330835	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tagcattttcttcctctcgcAaatctggaatgttcaccaaa	5	11	4	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:104330835A>T	uc003ylh.2	+	3	479	c.195A>T	c.(193-195)GCA>GCT	p.A65A	FZD6_uc003yli.2_Silent_p.A65A|FZD6_uc003ylj.2_Silent_p.A65A|FZD6_uc011lhn.1_Silent_p.A31A|FZD6_uc011lho.1_Intron|FZD6_uc011lhp.1_Silent_p.A10A	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	65	FZ.|Extracellular (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			TTCCTCTCGCAAATCTGGAAT	0.294													49	161	---	---	---	---	PASS	T	104330835	T	T	104330835	2	4	156	1	0	0	0	0	0	0	0	1	6134	117	5	5		5	FZD6	8	104330835	Silent	SNP	A	TCGA-66-2773-01A-01D-1267-08	3078113	104330835	42033187	306	55570										
CSMD3	114788	broad.mit.edu	37	chr8	113318394	113318394	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttagtattcctccatttgttGgagctttaggaatcccacag	8	9	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:113318394G>A	uc003ynu.2	-	51	8072	c.7913C>T	c.(7912-7914)CCA>CTA	p.P2638L	CSMD3_uc003yns.2_Missense_Mutation_p.P1840L|CSMD3_uc003ynt.2_Missense_Mutation_p.P2598L|CSMD3_uc011lhx.1_Missense_Mutation_p.P2534L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2638	Extracellular (Potential).|Sushi 15.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TCCATTTGTTGGAGCTTTAGG	0.348										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	115	---	---	---	---	PASS	A	113318394	A	A	113318394	3	1	156	1	0	0	0	0	1	0	0	0	3946	1348	47	3	3294	3	CSMD3	8	113318394	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	8987559	113318394	33045628	307	55571										
CSMD3	114788	broad.mit.edu	37	chr8	113988322	113988322	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcaatagcaccagtggtagtCctgttatgctcctctaactc	8	12	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:113988322C>A	uc003ynu.2	-	7	1245	c.1086G>T	c.(1084-1086)AGG>AGT	p.R362S	CSMD3_uc003ynt.2_Missense_Mutation_p.R322S|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	362	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CAGTGGTAGTCCTGTTATGCT	0.458										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	162	---	---	---	---	PASS	A	113988322	A	A	113988322	3	1	156	1	0	0	0	0	1	0	0	0	3946	854	30	2	10297	2	CSMD3	8	113988322	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	669928	113988322	32375700	308	55572										
DERL1	79139	broad.mit.edu	37	chr8	124054246	124054246	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaggcttcgggccagaggaaGaggtaggccgggctgatgag	19	7	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:124054246G>A	uc003ypl.2	-	1	403	c.117C>T	c.(115-117)CTC>CTT	p.L39L	DERL1_uc003ypm.2_Silent_p.L39L|DERL1_uc011lif.1_Silent_p.L39L|DERL1_uc003ypn.2_Silent_p.L39L	NM_024295	NP_077271	Q9BUN8	DERL1_HUMAN	Der1-like domain family, member 1 isoform a	39	Helical; Name=1; (Potential).				endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|intracellular transport of viral proteins in host cell|retrograde protein transport, ER to cytosol	integral to endoplasmic reticulum membrane	MHC class I protein binding|receptor activity				0	Lung NSC(37;1.06e-09)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			GCCAGAGGAAGAGGTAGGCCG	0.652													9	39	---	---	---	---	PASS	A	124054246	A	A	124054246	2	1	156	1	0	0	0	0	0	0	0	1	4446	929	33	2		2	DERL1	8	124054246	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	10065924	124054246	22309776	309	55573										
KHDRBS3	10656	broad.mit.edu	37	chr8	136619236	136619236	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggcactgcttatgatgaacaGagttatgattcctatgataa	9	6	0	5			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:136619236G>A	uc003yuv.2	+	7	1240	c.846G>A	c.(844-846)CAG>CAA	p.Q282Q	KHDRBS3_uc003yuw.2_Intron|KHDRBS3_uc010mek.2_RNA	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal	282	Tyr-rich.				regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			ATGATGAACAGAGTTATGATT	0.388													42	373	---	---	---	---	PASS	A	136619236	A	A	136619236	2	1	156	1	0	0	0	0	0	0	0	1	8148	933	33	2		2	KHDRBS3	8	136619236	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	12564990	136619236	9744786	310	55574										
FAM135B	51059	broad.mit.edu	37	chr8	139380153	139380153	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttgtaaagcatacttaccctCtctgaaagagatccacatta	5	10	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:139380153C>G	uc003yuy.2	-	2	245	c.74G>C	c.(73-75)AGA>ACA	p.R25T	FAM135B_uc003yux.2_5'UTR|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	25										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)			TACTTACCCTCTCTGAAAGAG	0.323										HNSCC(54;0.14)			15	248	---	---	---	---	PASS	G	139380153	G	G	139380153	3	3	156	1	0	0	0	0	1	0	0	0	5449	913	32	2	4222	2	FAM135B	8	139380153	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2760917	139380153	6983869	311	55575										
COL22A1	169044	broad.mit.edu	37	chr8	139734314	139734314	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acctggtggtccatttggccCgtcctttccagggggtccct	12	14	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:139734314C>A	uc003yvd.2	-	26	2713	c.2266G>T	c.(2266-2268)GGG>TGG	p.G756W	COL22A1_uc011ljo.1_Missense_Mutation_p.G56W	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	756	Collagen-like 5.|Pro-rich.|Gly-rich.			GKDGPNGPPGPPGTK -> CILAAKTAPGLKQLN (in Ref. 2; AAH42075).	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)			CCATTTGGCCCGTCCTTTCCA	0.488										HNSCC(7;0.00092)			5	10	---	---	---	---	PASS	A	139734314	A	A	139734314	3	1	156	1	0	0	0	0	1	0	0	0	3681	652	23	1	2774	1	COL22A1	8	139734314	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	354161	139734314	6629708	312	55576										
PARP10	84875	broad.mit.edu	37	chr8	145059165	145059165	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaccccatgggacctgtcctCagagaggtccctgactgccc	11	16	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:145059165C>T	uc003zal.3	-	5	1113	c.1005G>A	c.(1003-1005)CTG>CTA	p.L335L	PARP10_uc003zak.3_Silent_p.L41L|PARP10_uc011lku.1_Silent_p.L347L|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Silent_p.L335L|PARP10_uc010mfn.1_Silent_p.L250L|PARP10_uc010mfo.1_3'UTR	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	335						Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GACCTGTCCTCAGAGAGGTCC	0.617													43	313	---	---	---	---	PASS	T	145059165	T	T	145059165	2	4	156	1	0	0	0	0	0	0	0	1	11455	813	29	2		2	PARP10	8	145059165	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	5324851	145059165	1304857	313	55577										
GPAA1	8733	broad.mit.edu	37	chr8	145140222	145140222	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggcctcgctcgtggcacctCtgctgatctcacaggccatg	11	15	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:145140222C>T	uc003zax.2	+	10	1401	c.1291C>T	c.(1291-1293)CTG>TTG	p.L431L		NM_003801	NP_003792	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment	431	Helical; (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein complex assembly|protein retention in ER lumen	GPI-anchor transamidase complex	tubulin binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CGTGGCACCTCTGCTGATCTC	0.647													33	55	---	---	---	---	PASS	T	145140222	T	T	145140222	2	4	156	1	0	0	0	0	0	0	0	1	6587	912	32	2		2	GPAA1	8	145140222	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	81057	145140222	1223800	314	55578										
PPP1R16A	84988	broad.mit.edu	37	chr8	145726940	145726940	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggtcaggccgcacaatggccGagtagggggctccccagtgc	16	13	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr8:145726940G>A	uc003zdd.2	+	11	2154	c.1241G>A	c.(1240-1242)CGA>CAA	p.R414Q	uc003zde.1_5'Flank|PPP1R16A_uc003zdf.2_Missense_Mutation_p.R414Q|GPT_uc011lli.1_5'Flank|GPT_uc011llj.1_5'Flank|GPT_uc003zdh.3_5'Flank	NM_032902	NP_116291	Q96I34	PP16A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	414						plasma membrane	protein binding				0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CACAATGGCCGAGTAGGGGGC	0.657													7	21	---	---	---	---	PASS	A	145726940	A	A	145726940	3	1	156	1	0	0	0	0	1	0	0	0	12365	1058	37	2	1279	2	PPP1R16A	8	145726940	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	586718	145726940	637082	315	55579										
TPD52L3	89882	broad.mit.edu	37	chr9	6328993	6328993	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gacaatcaagtccaaagtctCagggggcaaaagagcttggc	12	9	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:6328993C>G	uc003zjw.2	+	1	619	c.398C>G	c.(397-399)TCA>TGA	p.S133*	TPD52L3_uc003zjv.2_Intron|TPD52L3_uc003zjx.1_Intron	NM_033516	NP_277051	Q96J77	TPD55_HUMAN	protein kinase NYD-SP25 isoform 1	133							protein binding				0		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0198)|Lung(218;0.1)		TCCAAAGTCTCAGGGGGCAAA	0.537													20	195	---	---	---	---	PASS	G	6328993	G	G	6328993	4	3	156	1	0	0	0	0	0	1	0	0	16397	838	29	2	400	2	TPD52L3	9	6328993	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08		6328993	134884438	316	55580										
PTPRD	5789	broad.mit.edu	37	chr9	8518114	8518114	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggtcgaactcaacattcgtGcctggacatccctcggggca	11	13	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:8518114G>T	uc003zkk.2	-	20	1988	c.1277C>A	c.(1276-1278)GCA>GAA	p.A426E	PTPRD_uc003zkp.2_Missense_Mutation_p.A426E|PTPRD_uc003zkq.2_Missense_Mutation_p.A426E|PTPRD_uc003zkr.2_Missense_Mutation_p.A420E|PTPRD_uc003zks.2_Missense_Mutation_p.A416E|PTPRD_uc003zkl.2_Missense_Mutation_p.A426E|PTPRD_uc003zkm.2_Missense_Mutation_p.A413E|PTPRD_uc003zkn.2_Missense_Mutation_p.A426E|PTPRD_uc003zko.2_Missense_Mutation_p.A423E	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	426	Fibronectin type-III 2.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CAACATTCGTGCCTGGACATC	0.502										TSP Lung(15;0.13)			142	146	---	---	---	---	PASS	T	8518114	T	T	8518114	3	4	156	1	0	0	0	0	1	0	0	0	12799	1319	46	3	4633	3	PTPRD	9	8518114	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2189121	8518114	132695317	317	55581										
BNC2	54796	broad.mit.edu	37	chr9	16436263	16436263	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcggtatcaataatttccttCtcaatcttcacaggcatgct	6	11	4	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:16436263C>T	uc003zml.2	-	6	2069	c.1929G>A	c.(1927-1929)GAG>GAA	p.E643E	BNC2_uc011lmw.1_Silent_p.E548E|BNC2_uc003zmm.2_Silent_p.E601E|BNC2_uc003zmq.1_Silent_p.E657E|BNC2_uc003zmr.1_Silent_p.E680E|BNC2_uc003zmp.1_Silent_p.E671E|BNC2_uc010mij.1_Silent_p.E565E|BNC2_uc011lmv.1_Silent_p.E469E|BNC2_uc003zmo.1_Silent_p.E565E|BNC2_uc003zmj.2_Silent_p.E408E|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Silent_p.E408E|BNC2_uc003zmn.1_Silent_p.E408E	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	643					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		TAATTTCCTTCTCAATCTTCA	0.493													27	92	---	---	---	---	PASS	T	16436263	T	T	16436263	2	4	156	1	0	0	0	0	0	0	0	1	1475	912	32	2		2	BNC2	9	16436263	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	7918149	16436263	124777168	318	55582										
DENND4C	55667	broad.mit.edu	37	chr9	19316466	19316466	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caacttcccaaaaagccgtgCaaaaatctacttagcacctt	4	13	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:19316466C>G	uc003znq.2	+	7	864	c.831C>G	c.(829-831)TGC>TGG	p.C277W	DENND4C_uc011lnc.1_5'UTR	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	277						integral to membrane				ovary(1)|skin(1)	2						AAAAGCCGTGCAAAAATCTAC	0.328													5	117	---	---	---	---	PASS	G	19316466	G	G	19316466	3	3	156	1	0	0	0	0	1	0	0	0	4435	718	25	4	857	4	DENND4C	9	19316466	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2880203	19316466	121896965	319	55583										
IFNA17	3451	broad.mit.edu	37	chr9	21227825	21227825	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acacatgcttccaggttattCagttgctggtaaagttcagt	9	8	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:21227825C>T	uc003zos.1	-	1	397	c.348G>A	c.(346-348)CTG>CTA	p.L116L	IFNA14_uc003zoo.1_Intron	NM_021268	NP_067091	P01571	IFN17_HUMAN	interferon, alpha 17 precursor	116					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				Lung(24;2.13e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		CCAGGTTATTCAGTTGCTGGT	0.468													31	297	---	---	---	---	PASS	T	21227825	T	T	21227825	2	4	156	1	0	0	0	0	0	0	0	1	7536	813	29	2		2	IFNA17	9	21227825	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1911359	21227825	119985606	320	55584										
APTX	54840	broad.mit.edu	37	chr9	32984745	32984745	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttaaggagttcaaggtgttcCctggccacagccttcagact	10	11	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:32984745C>A	uc003zrm.2	-	5	851	c.654G>T	c.(652-654)AGG>AGT	p.R218S	APTX_uc010mjm.2_RNA|APTX_uc003zrj.2_Missense_Mutation_p.R130S|APTX_uc011lns.1_Missense_Mutation_p.R39S|APTX_uc003zrl.2_Missense_Mutation_p.R44S|APTX_uc003zrn.2_Missense_Mutation_p.R130S|APTX_uc003zro.2_Missense_Mutation_p.R218S|APTX_uc003zrp.2_Missense_Mutation_p.R130S|APTX_uc003zrq.2_Missense_Mutation_p.R130S|APTX_uc003zrr.2_Missense_Mutation_p.R164S|APTX_uc003zrs.2_Missense_Mutation_p.R218S|APTX_uc003zrt.2_Missense_Mutation_p.R130S|APTX_uc003zru.2_Missense_Mutation_p.R164S|APTX_uc003zrv.2_Missense_Mutation_p.R232S|APTX_uc003zrw.2_Missense_Mutation_p.R146S|APTX_uc003zrx.2_Missense_Mutation_p.R218S|APTX_uc003zry.2_Missense_Mutation_p.R218S|APTX_uc003zrz.2_Missense_Mutation_p.R39S|APTX_uc003zsa.1_Missense_Mutation_p.R164S|APTX_uc003zsb.1_RNA|APTX_uc003zsc.1_RNA	NM_175072	NP_778242	Q7Z2E3	APTX_HUMAN	aprataxin isoform c	232	HIT.				cell death|double-strand break repair|regulation of protein stability|response to hydrogen peroxide|single strand break repair	chromatin|nucleolus|nucleoplasm	chromatin binding|damaged DNA binding|DNA 5'-adenosine monophosphate hydrolase activity|double-stranded DNA binding|double-stranded RNA binding|phosphoglycolate phosphatase activity|phosphoprotein binding|polynucleotide 3'-phosphatase activity|protein N-terminus binding|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0302)	GBM - Glioblastoma multiforme(74;0.105)		CAAGGTGTTCCCTGGCCACAG	0.512								Direct_reversal_of_damage|Editing_and_processing_nucleases					34	104	---	---	---	---	PASS	A	32984745	A	A	32984745	3	1	156	1	0	0	0	0	1	0	0	0	820	622	22	3	395	3	APTX	9	32984745	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	11756920	32984745	108228686	321	55585										
MAMDC2	256691	broad.mit.edu	37	chr9	72746522	72746522	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcctgttcactgccagaatCagacaggtgagcattctcta	8	12	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:72746522C>G	uc004ahm.2	+	7	1605	c.988C>G	c.(988-990)CAG>GAG	p.Q330E	MAMDC2_uc004ahn.2_RNA	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	330						endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						CTGCCAGAATCAGACAGGTGA	0.378													52	258	---	---	---	---	PASS	G	72746522	G	G	72746522	3	3	156	1	0	0	0	0	1	0	0	0	9203	827	29	2	1014	2	MAMDC2	9	72746522	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	39761777	72746522	68466909	322	55586										
TRPM6	140803	broad.mit.edu	37	chr9	77455049	77455049	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggcatagtaaagttctggatGcccccatggactgagatcac	11	10	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:77455049G>T	uc004ajl.1	-	5	673	c.435C>A	c.(433-435)GGC>GGA	p.G145G	TRPM6_uc004ajk.1_Silent_p.G140G|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Silent_p.G145G|TRPM6_uc010mpd.1_Silent_p.G145G|TRPM6_uc010mpe.1_Silent_p.G145G|TRPM6_uc004ajn.1_Silent_p.G145G	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	145	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						AGTTCTGGATGCCCCCATGGA	0.398													39	164	---	---	---	---	PASS	T	77455049	T	T	77455049	2	4	156	1	0	0	0	0	0	0	0	1	16587	1306	46	3		3	TRPM6	9	77455049	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	4708527	77455049	63758382	323	55587										
VPS13A	23230	broad.mit.edu	37	chr9	79947023	79947023	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	attcaacataccattaggatCttaccggtattttgtcttta	5	8	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:79947023C>T	uc004akr.2	+	46	6349	c.6089C>T	c.(6088-6090)TCT>TTT	p.S2030F	VPS13A_uc004akp.3_Missense_Mutation_p.S2030F|VPS13A_uc004akq.3_Missense_Mutation_p.S2030F|VPS13A_uc004aks.2_Missense_Mutation_p.S1991F|VPS13A_uc004akt.2_Missense_Mutation_p.S370F	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2030	TPR 6.				Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						CCATTAGGATCTTACCGGTAT	0.338													7	173	---	---	---	---	PASS	T	79947023	T	T	79947023	3	4	156	1	0	0	0	0	1	0	0	0	17186	913	32	2	6271	2	VPS13A	9	79947023	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2491974	79947023	61266408	324	55588										
GNA14	9630	broad.mit.edu	37	chr9	80144091	80144091	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccagcttcgtgaacccctttCtgtcttcgtcgctgtaacca	7	15	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:80144091C>G	uc004aku.2	-	2	726	c.203G>C	c.(202-204)AGA>ACA	p.R68T		NM_004297	NP_004288	O95837	GNA14_HUMAN	G alpha 14	68					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(2)	2						GAACCCCTTTCTGTCTTCGTC	0.448													111	456	---	---	---	---	PASS	G	80144091	G	G	80144091	3	3	156	1	0	0	0	0	1	0	0	0	6502	913	32	2	888	2	GNA14	9	80144091	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	197068	80144091	61069340	325	55589										
CEP78	84131	broad.mit.edu	37	chr9	80858453	80858453	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gacctgatcttgactgtatgGctggcttaagacgtatcaca	10	9	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:80858453G>T	uc004akx.2	+	5	955	c.679G>T	c.(679-681)GCT>TCT	p.A227S	CEP78_uc004aky.3_Missense_Mutation_p.A227S|CEP78_uc010mpp.2_Missense_Mutation_p.A227S|CEP78_uc011lsp.1_Missense_Mutation_p.A140S	NM_032171	NP_115547	Q5JTW2	CEP78_HUMAN	centrosomal protein 78kDa isoform b	227					G2/M transition of mitotic cell cycle	centrosome|cytosol				ovary(1)	1						TGACTGTATGGCTGGCTTAAG	0.433													20	86	---	---	---	---	PASS	T	80858453	T	T	80858453	3	4	156	1	0	0	0	0	1	0	0	0	3262	1203	42	3	697	3	CEP78	9	80858453	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	714362	80858453	60354978	326	55590										
ZNF484	83744	broad.mit.edu	37	chr9	95610355	95610355	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgaattttctgttgttgaatGagagcttgcttatgatgcag	11	4	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:95610355G>C	uc004asu.1	-	5	863	c.714C>G	c.(712-714)CTC>CTG	p.L238L	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Silent_p.L240L|ZNF484_uc010mrb.1_Silent_p.L202L|ZNF484_uc004asv.1_Silent_p.L202L	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	238	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTGTTGAATGAGAGCTTGCT	0.388													8	184	---	---	---	---	PASS	C	95610355	C	C	95610355	2	2	156	1	0	0	0	0	0	0	0	1	17934	1277	45	2		2	ZNF484	9	95610355	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	14751902	95610355	45603076	327	55591										
ZNF169	169841	broad.mit.edu	37	chr9	97063487	97063487	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atttgcgatgaatgtgggcgCggctttggctttaagtctgc	14	7	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:97063487C>T	uc004aum.1	+	5	1752	c.1647C>T	c.(1645-1647)CGC>CGT	p.R549R		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	549	C2H2-type 12.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				AATGTGGGCGCGGCTTTGGCT	0.552													29	133	---	---	---	---	PASS	T	97063487	T	T	97063487	2	4	156	1	0	0	0	0	0	0	0	1	17739	755	27	1		1	ZNF169	9	97063487	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1453132	97063487	44149944	328	55592										
ALG2	85365	broad.mit.edu	37	chr9	101980675	101980675	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcataaccacctgccacgatCagatgaaccctctcccaatc	4	17	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:101980675C>G	uc004azf.2	-	2	862	c.792G>C	c.(790-792)CTG>CTC	p.L264L	ALG2_uc004azg.2_Silent_p.L171L	NM_033087	NP_149078	Q9H553	ALG2_HUMAN	alpha-1,3-mannosyltransferase ALG2	264					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in endoplasmic reticulum|protein N-linked glycosylation via asparagine|response to calcium ion	endoplasmic reticulum membrane|integral to membrane|membrane fraction|nucleus|perinuclear region of cytoplasm	alpha-1,3-mannosyltransferase activity|calcium-dependent protein binding|glycolipid 3-alpha-mannosyltransferase activity|protein anchor|protein heterodimerization activity|protein N-terminus binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.0559)				CTGCCACGATCAGATGAACCC	0.468													31	289	---	---	---	---	PASS	G	101980675	G	G	101980675	2	3	156	1	0	0	0	0	0	0	0	1	519	813	29	2		2	ALG2	9	101980675	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	4917188	101980675	39232756	329	55593										
ABCA1	19	broad.mit.edu	37	chr9	107584880	107584880	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agccaccttcatcccatctcGgtagacttttaccaggttct	6	14	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:107584880G>A	uc004bcl.2	-	19	3038	c.2725C>T	c.(2725-2727)CGA>TGA	p.R909*		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	909	ABC transporter 1.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ATCCCATCTCGGTAGACTTTT	0.542													60	232	---	---	---	---	PASS	A	107584880	A	A	107584880	4	1	156	1	0	0	0	0	0	1	0	0	28	1124	39	1	4188	1	ABCA1	9	107584880	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5604205	107584880	33628551	330	55594										
RGS3	5998	broad.mit.edu	37	chr9	116359128	116359128	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggctgcttcgacctggcacaGaagcgcatcttcgggctcat	12	13	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:116359128G>T	uc004bhq.2	+	26	3701	c.3492G>T	c.(3490-3492)CAG>CAT	p.Q1164H	RGS3_uc004bhs.2_Missense_Mutation_p.Q1054H|RGS3_uc004bht.2_Missense_Mutation_p.Q883H|RGS3_uc010muy.2_Missense_Mutation_p.Q557H|RGS3_uc004bhv.2_Missense_Mutation_p.Q485H|RGS3_uc004bhw.2_Missense_Mutation_p.Q134H|RGS3_uc011lxh.1_Missense_Mutation_p.Q474H|RGS3_uc004bhx.2_Missense_Mutation_p.Q485H|RGS3_uc004bhz.2_Missense_Mutation_p.Q506H|RGS3_uc004bia.2_Missense_Mutation_p.Q277H	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	1164	RGS.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						ACCTGGCACAGAAGCGCATCT	0.597													46	183	---	---	---	---	PASS	T	116359128	T	T	116359128	3	4	156	1	0	0	0	0	1	0	0	0	13306	933	33	2	4266	2	RGS3	9	116359128	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	8774248	116359128	24854303	331	55595										
DBC1	1620	broad.mit.edu	37	chr9	121976431	121976431	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctgaggaaagattatctgaaGacctgtgtgagaatagcaag	12	5	1	5			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:121976431G>A	uc004bkc.2	-	6	1144	c.688C>T	c.(688-690)CTT>TTT	p.L230F	DBC1_uc004bkd.2_Missense_Mutation_p.L230F	NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	230	MACPF.				cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						ATTATCTGAAGACCTGTGTGA	0.423													5	114	---	---	---	---	PASS	A	121976431	A	A	121976431	3	1	156	1	0	0	0	0	1	0	0	0	4247	942	33	2	1609	2	DBC1	9	121976431	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5617303	121976431	19237000	332	55596										
BAT2L1	84726	broad.mit.edu	37	chr9	134350753	134350753	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gagttcacttttcgtggtcgGcctgctggcggaaatgggag	16	8	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:134350753G>T	uc004can.3	+	15	3292	c.3237G>T	c.(3235-3237)CGG>CGT	p.R1079R	BAT2L1_uc010mzj.1_Silent_p.R662R|BAT2L1_uc004cao.3_Silent_p.R437R	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1079							protein binding				0						TTCGTGGTCGGCCTGCTGGCG	0.647													8	37	---	---	---	---	PASS	T	134350753	T	T	134350753	2	4	156	1	0	0	0	0	0	0	0	1	1320	1190	42	3		3	BAT2L1	9	134350753	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	12374322	134350753	6862678	333	55597										
NTNG2	84628	broad.mit.edu	37	chr9	135073852	135073852	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caacctctacacgcggctggAgagcgccaagggcctcaagg	13	14	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr9:135073852A>G	uc004cbh.2	+	3	1489	c.713A>G	c.(712-714)GAG>GGG	p.E238G		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	238	Laminin N-terminal.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		ACGCGGCTGGAGAGCGCCAAG	0.662													29	167	---	---	---	---	PASS	G	135073852	G	G	135073852	3	3	156	1	0	0	0	0	1	0	0	0	10705	304	11	5	719	5	NTNG2	9	135073852	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	723099	135073852	6139579	334	55598										
LARP4B	23185	broad.mit.edu	37	chr10	871222	871222	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aggtcccctctctgcactagGaatcgcatgccgcagatgag	11	13	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:871222G>C	uc001ifs.1	-	12	1308	c.1267C>G	c.(1267-1269)CCT>GCT	p.P423A		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	423							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						TCTGCACTAGGAATCGCATGC	0.383													44	336	---	---	---	---	PASS	C	871222	C	C	871222	3	2	156	1	0	0	0	0	1	0	0	0	8631	1174	41	2	973	2	LARP4B	10	871222	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08		871222	134663525	335	55599										
ASB13	79754	broad.mit.edu	37	chr10	5682753	5682753	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cggacgccagtggccttcctCaagttcaccctgcagagctg	11	15	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:5682753C>T	uc001iig.2	-	6	794	c.750G>A	c.(748-750)TTG>TTA	p.L250L	ASB13_uc001iii.2_RNA|ASB13_uc001iih.2_RNA|ASB13_uc009xic.2_Silent_p.L250L	NM_024701	NP_078977	Q8WXK3	ASB13_HUMAN	ankyrin repeat and SOCS box-containing protein	250	SOCS box.				intracellular signal transduction		protein binding			ovary(1)	1				GBM - Glioblastoma multiforme(2;9.59e-09)		TGGCCTTCCTCAAGTTCACCC	0.522													54	255	---	---	---	---	PASS	T	5682753	T	T	5682753	2	4	156	1	0	0	0	0	0	0	0	1	1017	825	29	2		2	ASB13	10	5682753	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	4811531	5682753	129851994	336	55600										
MCM10	55388	broad.mit.edu	37	chr10	13228254	13228254	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagccaagaagaagaatggaGagccgtgcacgcagactgtg	14	8	0	5			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:13228254G>A	uc001ima.2	+	9	1293	c.1192G>A	c.(1192-1194)GAG>AAG	p.E398K	MCM10_uc001imb.2_Missense_Mutation_p.E397K|MCM10_uc001imc.2_Missense_Mutation_p.E397K	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	398	Zinc finger-like.				cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						GAAGAATGGAGAGCCGTGCAC	0.423													34	210	---	---	---	---	PASS	A	13228254	A	A	13228254	3	1	156	1	0	0	0	0	1	0	0	0	9385	943	33	2	1222	2	MCM10	10	13228254	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	7545501	13228254	122306493	337	55601										
C10orf111	221060	broad.mit.edu	37	chr10	15138466	15138466	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaggccggaaaaagcggggaGaaggaggaggctcattaggt	18	5	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:15138466G>C	uc001inw.2	-	2	632	c.358C>G	c.(358-360)CTC>GTC	p.L120V	RPP38_uc001iny.3_5'Flank|RPP38_uc009xjm.2_5'Flank|RPP38_uc001inx.3_5'Flank	NM_153244	NP_694976	Q8N326	CJ111_HUMAN	hypothetical protein LOC221060	120	Helical; (Potential).					integral to membrane					0						AAAGCGGGGAGAAGGAGGAGG	0.463													29	199	---	---	---	---	PASS	C	15138466	C	C	15138466	3	2	156	1	0	0	0	0	1	0	0	0	1583	942	33	2	113	2	C10orf111	10	15138466	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1910212	15138466	120396281	338	55602										
CUBN	8029	broad.mit.edu	37	chr10	17032462	17032462	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tttggtggatacctgttgggGaacccggggctgctgaagga	17	7	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:17032462G>T	uc001ioo.2	-	29	4273	c.4221C>A	c.(4219-4221)TTC>TTA	p.F1407L		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1407	CUB 9.				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)	ACCTGTTGGGGAACCCGGGGC	0.527													14	171	---	---	---	---	PASS	T	17032462	T	T	17032462	3	4	156	1	0	0	0	0	1	0	0	0	4051	1165	41	2	6806	2	CUBN	10	17032462	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1893996	17032462	118502285	339	55603										
C10orf140	387640	broad.mit.edu	37	chr10	21804495	21804495	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcatgaaaggccctgactttGagccagtggatttaaggaag	13	7	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:21804495G>C	uc009xkd.2	-	4	4510	c.2257C>G	c.(2257-2259)CAA>GAA	p.Q753E	uc001iqp.1_Intron	NM_207371	NP_997254	Q1XH10	DLN1_HUMAN	hypothetical protein LOC387640	672						nucleus	nucleotide binding			ovary(1)	1						CCCTGACTTTGAGCCAGTGGA	0.453													109	527	---	---	---	---	PASS	C	21804495	C	C	21804495	3	2	156	1	0	0	0	0	1	0	0	0	1595	1299	45	2	473	2	C10orf140	10	21804495	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	4772033	21804495	113730252	340	55604										
MLLT10	8028	broad.mit.edu	37	chr10	22002880	22002880	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctgctgttgctacaactcagGtaagttgttacactatcatg	8	9	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:22002880G>T	uc001iqs.2	+	15	2274	c.1926_splice	c.e15+1	p.Q642_splice	MLLT10_uc001iqt.2_Splice_Site_p.Q626_splice|MLLT10_uc001iqv.2_Splice_Site|MLLT10_uc001iqy.2_Splice_Site_p.Q626_splice|MLLT10_uc001ira.2_Splice_Site_p.Q83_splice|MLLT10_uc001irb.2_Splice_Site	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia						positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						TACAACTCAGGTAAGTTGTTA	0.458			T	MLL|PICALM|CDK6	AL								32	51	---	---	---	---	PASS	T	22002880	T	T	22002880	5	4	156	1	0	0	0	0	0	0	1	0	9626	1275	44	3	1981	3	MLLT10	10	22002880	Splice_Site	SNP	G	TCGA-66-2773-01A-01D-1267-08	198385	22002880	113531867	341	55605										
ZNF438	220929	broad.mit.edu	37	chr10	31133898	31133898	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgccttggggtctcatttctCagcttcactggaaagttcga	10	10	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:31133898C>G	uc010qdz.1	-	8	2914	c.2479G>C	c.(2479-2481)GAG>CAG	p.E827Q	ZNF438_uc001ivn.2_Missense_Mutation_p.E778Q|ZNF438_uc010qdy.1_Missense_Mutation_p.E817Q|ZNF438_uc001ivo.3_Missense_Mutation_p.E391Q|ZNF438_uc009xlg.2_Missense_Mutation_p.E827Q|ZNF438_uc001ivp.3_Missense_Mutation_p.E817Q|ZNF438_uc010qea.1_Missense_Mutation_p.E827Q|ZNF438_uc010qeb.1_Missense_Mutation_p.E827Q	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	827					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				TCTCATTTCTCAGCTTCACTG	0.512													114	641	---	---	---	---	PASS	G	31133898	G	G	31133898	3	3	156	1	0	0	0	0	1	0	0	0	17907	835	29	2	11	2	ZNF438	10	31133898	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	9131018	31133898	104400849	342	55606										
ANKRD30A	91074	broad.mit.edu	37	chr10	37454038	37454038	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atagatgagatactcccatcAgaatccaaacaaaaggacta	6	9	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:37454038A>C	uc001iza.1	+	18	1950	c.1851A>C	c.(1849-1851)TCA>TCC	p.S617S		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	673						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						TACTCCCATCAGAATCCAAAC	0.289													22	69	---	---	---	---	PASS	C	37454038	C	C	37454038	2	2	156	1	0	0	0	0	0	0	0	1	658	175	7	5		5	ANKRD30A	10	37454038	Silent	SNP	A	TCGA-66-2773-01A-01D-1267-08	6320140	37454038	98080709	343	55607										
ZNF239	8187	broad.mit.edu	37	chr10	44053157	44053157	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atggcgaggccagttcttgtCcatcagacaccagtttaact	9	11	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:44053157C>T	uc001jaw.3	-	2	1024	c.371G>A	c.(370-372)GGA>GAA	p.G124E	ZNF239_uc001jax.3_Missense_Mutation_p.G124E|ZNF239_uc009xmj.2_Missense_Mutation_p.G124E|ZNF239_uc009xmk.2_Missense_Mutation_p.G124E	NM_005674	NP_005665	Q16600	ZN239_HUMAN	zinc finger protein 239	124					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|RNA binding|zinc ion binding				0						CAGTTCTTGTCCATCAGACAC	0.423													25	163	---	---	---	---	PASS	T	44053157	T	T	44053157	3	4	156	1	0	0	0	0	1	0	0	0	17788	855	30	2	1009	2	ZNF239	10	44053157	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	6599119	44053157	91481590	344	55608										
PCDH15	65217	broad.mit.edu	37	chr10	55569207	55569207	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cttccatgttgtgtatgtagGctcagctgctggtggttttt	12	7	1	0	rs145418788	by1000genomes	TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:55569207G>A	uc010qhs.1	-	37	5013	c.4618C>T	c.(4618-4620)CCT>TCT	p.P1540S	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qht.1_Missense_Mutation_p.P1533S|PCDH15_uc010qhu.1_3'UTR	NM_001142769	NP_001136241	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GTGTATGTAGGCTCAGCTGCT	0.398										HNSCC(58;0.16)			44	206	---	---	---	---	PASS	A	55569207	A	A	55569207	3	1	156	1	0	0	0	0	1	0	0	0	11511	1203	42	3	1313	3	PCDH15	10	55569207	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	11516050	55569207	79965540	345	55609										
PCDH15	65217	broad.mit.edu	37	chr10	55626488	55626488	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtaggatctcctcatattatGgaagagcatagcagttttga	10	6	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:55626488G>T	uc001jju.1	-	27	4026	c.3631C>A	c.(3631-3633)CAT>AAT	p.H1211N	PCDH15_uc010qhq.1_Missense_Mutation_p.H1216N|PCDH15_uc010qhr.1_Missense_Mutation_p.H1211N|PCDH15_uc010qhs.1_Missense_Mutation_p.H1223N|PCDH15_uc010qht.1_Missense_Mutation_p.H1218N|PCDH15_uc010qhu.1_Missense_Mutation_p.H1211N|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.H1211N|PCDH15_uc010qhw.1_Missense_Mutation_p.H1174N|PCDH15_uc010qhx.1_Missense_Mutation_p.H1140N|PCDH15_uc010qhy.1_Missense_Mutation_p.H1216N|PCDH15_uc010qhz.1_Missense_Mutation_p.H1211N|PCDH15_uc010qia.1_Missense_Mutation_p.H1189N|PCDH15_uc010qib.1_Missense_Mutation_p.H1189N	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1211	Cadherin 11.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CTCATATTATGGAAGAGCATA	0.403										HNSCC(58;0.16)			22	106	---	---	---	---	PASS	T	55626488	T	T	55626488	3	4	156	1	0	0	0	0	1	0	0	0	11511	1348	47	3	3883	3	PCDH15	10	55626488	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	57281	55626488	79908259	346	55610										
PCDH15	65217	broad.mit.edu	37	chr10	56138598	56138598	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagcatttgcttaacaggatCcatcaacacccagtaatcca	5	12	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:56138598C>A	uc001jju.1	-	4	657	c.262G>T	c.(262-264)GAT>TAT	p.D88Y	PCDH15_uc010qhq.1_Missense_Mutation_p.D93Y|PCDH15_uc010qhr.1_Missense_Mutation_p.D88Y|PCDH15_uc010qhs.1_Missense_Mutation_p.D93Y|PCDH15_uc010qht.1_Missense_Mutation_p.D88Y|PCDH15_uc010qhu.1_Missense_Mutation_p.D88Y|PCDH15_uc001jjv.1_Missense_Mutation_p.D66Y|PCDH15_uc010qhv.1_Missense_Mutation_p.D88Y|PCDH15_uc010qhw.1_Missense_Mutation_p.D88Y|PCDH15_uc010qhx.1_Missense_Mutation_p.D88Y|PCDH15_uc010qhy.1_Missense_Mutation_p.D93Y|PCDH15_uc010qhz.1_Missense_Mutation_p.D88Y|PCDH15_uc010qia.1_Missense_Mutation_p.D66Y|PCDH15_uc010qib.1_Missense_Mutation_p.D66Y|PCDH15_uc001jjw.2_Missense_Mutation_p.D88Y	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	88	Cadherin 1.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TTAACAGGATCCATCAACACC	0.403										HNSCC(58;0.16)			78	278	---	---	---	---	PASS	A	56138598	A	A	56138598	3	1	156	1	0	0	0	0	1	0	0	0	11511	855	30	2	7369	2	PCDH15	10	56138598	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	512110	56138598	79396149	347	55611										
ANK3	288	broad.mit.edu	37	chr10	61835776	61835776	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtcactggagaggttcgagaGgaaaacgtagaattggatgc	15	5	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:61835776G>A	uc001jky.2	-	37	5055	c.4863C>T	c.(4861-4863)TCC>TCT	p.S1621S	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1621	Ser-rich.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						AGGTTCGAGAGGAAAACGTAG	0.478													26	118	---	---	---	---	PASS	A	61835776	A	A	61835776	2	1	156	1	0	0	0	0	0	0	0	1	622	987	35	3		3	ANK3	10	61835776	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	5697178	61835776	73698971	348	55612										
RUFY2	55680	broad.mit.edu	37	chr10	70143566	70143566	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ataacctacctgtcgtaactGagattcatctcgaagctgcc	7	12	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:70143566G>A	uc001job.2	-	10	1360	c.1033C>T	c.(1033-1035)CAG>TAG	p.Q345*	RUFY2_uc001jnz.1_RNA|RUFY2_uc001joc.2_Nonsense_Mutation_p.Q276*|RUFY2_uc010qiw.1_Nonsense_Mutation_p.Q252*|RUFY2_uc001jod.1_Nonsense_Mutation_p.Q310*	NM_017987	NP_060457	Q8WXA3	RUFY2_HUMAN	RUN and FYVE domain-containing 2 isoform a	359	Potential.					nucleus	metal ion binding			ovary(1)	1						TGTCGTAACTGAGATTCATCT	0.383													14	251	---	---	---	---	PASS	A	70143566	A	A	70143566	4	1	156	1	0	0	0	0	0	1	0	0	13739	1299	45	2	1041	2	RUFY2	10	70143566	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	8307790	70143566	65391181	349	55613										
TET1	80312	broad.mit.edu	37	chr10	70405228	70405228	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcctccccatcaaagtcagaGaaggatgaggaatcagagca	10	10	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:70405228G>C	uc001jok.3	+	4	3247	c.2742G>C	c.(2740-2742)GAG>GAC	p.E914D		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	914					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						CAAAGTCAGAGAAGGATGAGG	0.458													11	192	---	---	---	---	PASS	C	70405228	C	C	70405228	3	2	156	1	0	0	0	0	1	0	0	0	15766	933	33	2	2752	2	TET1	10	70405228	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	261662	70405228	65129519	350	55614										
TET1	80312	broad.mit.edu	37	chr10	70405706	70405706	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atgcaacccatacccaaattGaggaagatgttgcaacacag	8	10	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:70405706G>C	uc001jok.3	+	4	3725	c.3220G>C	c.(3220-3222)GAG>CAG	p.E1074Q		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1074					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						TACCCAAATTGAGGAAGATGT	0.373													7	232	---	---	---	---	PASS	C	70405706	C	C	70405706	3	2	156	1	0	0	0	0	1	0	0	0	15766	1291	45	2	3230	2	TET1	10	70405706	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	478	70405706	65129041	351	55615										
STOX1	219736	broad.mit.edu	37	chr10	70641797	70641797	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttctttgctgtgctatatctGatatgaatacagctcagatt	7	7	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:70641797G>A	uc001jos.2	+	2	481	c.394G>A	c.(394-396)GAT>AAT	p.D132N	STOX1_uc001jor.2_Missense_Mutation_p.D132N|STOX1_uc009xpy.2_Missense_Mutation_p.D132N|STOX1_uc001joq.2_Missense_Mutation_p.D22N	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	132						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						TGCTATATCTGATATGAATAC	0.358													47	173	---	---	---	---	PASS	A	70641797	A	A	70641797	3	1	156	1	0	0	0	0	1	0	0	0	15318	1290	45	2	400	2	STOX1	10	70641797	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	236091	70641797	64892950	352	55616										
COL13A1	1305	broad.mit.edu	37	chr10	71678056	71678056	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gccagggggcgcccggaattGccgtggctgggatgaaggtc	19	10	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:71678056G>T	uc001jpr.1	+	18	1548	c.1012G>T	c.(1012-1014)GCC>TCC	p.A338S	COL13A1_uc001jqj.1_Missense_Mutation_p.A338S|COL13A1_uc001jps.1_Missense_Mutation_p.A309S|COL13A1_uc001jpt.1_Missense_Mutation_p.A297S|COL13A1_uc001jpu.1_Missense_Mutation_p.A319S|COL13A1_uc001jpv.1_Missense_Mutation_p.A338S|COL13A1_uc001jpx.1_Missense_Mutation_p.A316S|COL13A1_uc001jpw.1_Missense_Mutation_p.A285S|COL13A1_uc001jpy.1_Missense_Mutation_p.A276S|COL13A1_uc001jpz.1_Missense_Mutation_p.A281S|COL13A1_uc001jqa.1_Missense_Mutation_p.A278S|COL13A1_uc001jqc.1_Missense_Mutation_p.A338S|COL13A1_uc001jqb.1_Missense_Mutation_p.A287S|COL13A1_uc001jql.2_Missense_Mutation_p.A338S|COL13A1_uc001jqd.1_Missense_Mutation_p.A326S|COL13A1_uc001jqe.1_Missense_Mutation_p.A321S|COL13A1_uc001jqf.1_Missense_Mutation_p.A319S|COL13A1_uc001jqg.1_Missense_Mutation_p.A316S|COL13A1_uc001jqh.1_Missense_Mutation_p.A338S|COL13A1_uc001jqi.1_Missense_Mutation_p.A338S|COL13A1_uc010qjf.1_Missense_Mutation_p.A128S|COL13A1_uc001jqk.1_Missense_Mutation_p.A176S	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	338	Extracellular (Potential).|Triple-helical region 2 (COL2).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	GCCCGGAATTGCCGTGGCTGG	0.592													16	67	---	---	---	---	PASS	T	71678056	T	T	71678056	3	4	156	1	0	0	0	0	1	0	0	0	3670	1319	46	3	1086	3	COL13A1	10	71678056	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1036259	71678056	63856691	353	55617										
PLCE1	51196	broad.mit.edu	37	chr10	95791854	95791854	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caagagcaattgtgagaactCtgccttctggccacattggg	11	10	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:95791854C>G	uc001kjk.2	+	2	1685	c.1051C>G	c.(1051-1053)CTG>GTG	p.L351V	PLCE1_uc010qnx.1_Missense_Mutation_p.L351V	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	351					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				TGTGAGAACTCTGCCTTCTGG	0.443													9	78	---	---	---	---	PASS	G	95791854	G	G	95791854	3	3	156	1	0	0	0	0	1	0	0	0	12034	912	32	2	1053	2	PLCE1	10	95791854	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	24113798	95791854	39742893	354	55618										
CYP2C8	1558	broad.mit.edu	37	chr10	96824616	96824616	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaatcttttcatcagggtgaGaaaattctgatctttataat	7	5	5	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:96824616G>C	uc001kkb.2	-	4	678	c.583C>G	c.(583-585)CTC>GTC	p.L195V	CYP2C8_uc001kkc.2_RNA|CYP2C8_uc010qoa.1_Missense_Mutation_p.L125V|CYP2C8_uc010qob.1_Missense_Mutation_p.L109V|CYP2C8_uc010qoc.1_Missense_Mutation_p.L93V|CYP2C8_uc010qod.1_Missense_Mutation_p.L109V	NM_000770	NP_000761	P10632	CP2C8_HUMAN	cytochrome P450, family 2, subfamily C,	195					exogenous drug catabolic process|organic acid metabolic process|oxidative demethylation|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|electron carrier activity|heme binding|oxygen binding				0		Colorectal(252;0.0397)		all cancers(201;6.21e-05)	Aminophenazone(DB01424)|Amiodarone(DB01118)|Amodiaquine(DB00613)|Benzphetamine(DB00865)|Carbamazepine(DB00564)|Cerivastatin(DB00439)|Diclofenac(DB00586)|Fluvastatin(DB01095)|Fosphenytoin(DB01320)|Gemfibrozil(DB01241)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Lovastatin(DB00227)|Midazolam(DB00683)|Montelukast(DB00471)|Nicardipine(DB00622)|Paclitaxel(DB01229)|Phenytoin(DB00252)|Pioglitazone(DB01132)|Repaglinide(DB00912)|Rifampin(DB01045)|Rosiglitazone(DB00412)|Simvastatin(DB00641)|Sitagliptin(DB01261)|Tolbutamide(DB01124)|Torasemide(DB00214)|Tretinoin(DB00755)|Trimethoprim(DB00440)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zopiclone(DB01198)	ATCAGGGTGAGAAAATTCTGA	0.408													8	132	---	---	---	---	PASS	C	96824616	C	C	96824616	3	2	156	1	0	0	0	0	1	0	0	0	4167	942	33	2	913	2	CYP2C8	10	96824616	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1032762	96824616	38710131	355	55619										
ERLIN1	10613	broad.mit.edu	37	chr10	101911983	101911983	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttctcttccagtcctaatatCtgaatatttcaaagcacatg	4	10	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:101911983C>G	uc001kqn.3	-	11	1303	c.952G>C	c.(952-954)GAT>CAT	p.D318H	ERLIN1_uc001kqm.3_Missense_Mutation_p.D83H|ERLIN1_uc001kqo.3_Missense_Mutation_p.D318H|ERLIN1_uc010qpm.1_Missense_Mutation_p.D234H	NM_006459	NP_006450	O75477	ERLN1_HUMAN	ER lipid raft associated 1	316	Lumenal (Potential).				ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane	protein binding				0		Colorectal(252;0.234)		Epithelial(162;3.85e-10)|all cancers(201;3.25e-08)		GTCCTAATATCTGAATATTTC	0.443													25	113	---	---	---	---	PASS	G	101911983	G	G	101911983	3	3	156	1	0	0	0	0	1	0	0	0	5232	913	32	2	98	2	ERLIN1	10	101911983	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	5087367	101911983	33622764	356	55620										
SFXN3	81855	broad.mit.edu	37	chr10	102799340	102799340	+	Nonstop_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tctactacaacaaggggcttTgaggagggtcagcctctgtc	12	10	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:102799340T>C	uc001ksp.2	+	12	1432	c.976T>C	c.(976-978)TGA>CGA	p.*326R	SFXN3_uc001ksq.2_Nonstop_Mutation_p.*326R|SFXN3_uc010qpx.1_Nonstop_Mutation_p.*330R	NM_030971	NP_112233	Q9BWM7	SFXN3_HUMAN	sideroflexin 3	326					iron ion homeostasis	integral to membrane|mitochondrial membrane	cation transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		CAAGGGGCTTTGAGGAGGGTC	0.542													49	205	---	---	---	---	PASS	C	102799340	C	C	102799340	4	2	156	1	0	0	0	0	0	0	0	0	14196	1825	63	5	1018	5	SFXN3	10	102799340	Nonstop_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	887357	102799340	32735407	357	55621										
AS3MT	57412	broad.mit.edu	37	chr10	104632333	104632333	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgaaaaaggacacgtgactgGaatagacatgaccaaaggcc	11	8	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:104632333G>C	uc001kwk.2	+	4	439	c.299G>C	c.(298-300)GGA>GCA	p.G100A	AS3MT_uc001kwj.2_Missense_Mutation_p.G102A|AS3MT_uc009xxh.2_Missense_Mutation_p.G100A	NM_020682	NP_065733	Q9HBK9	AS3MT_HUMAN	arsenic (+3 oxidation state) methyltransferase	100					arsonoacetate metabolic process|toxin metabolic process	cytosol	arsenite methyltransferase activity|methylarsonite methyltransferase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;5.87e-09)|all cancers(201;1.58e-07)|BRCA - Breast invasive adenocarcinoma(275;0.223)		CACGTGACTGGAATAGACATG	0.418													6	105	---	---	---	---	PASS	C	104632333	C	C	104632333	3	2	156	1	0	0	0	0	1	0	0	0	1005	1174	41	2	313	2	AS3MT	10	104632333	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1832993	104632333	30902414	358	55622										
PDCD11	22984	broad.mit.edu	37	chr10	105163037	105163037	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aggtgacacaagaacaacctCtgaaggtaagggaaatccga	11	8	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:105163037C>T	uc001kwy.1	+	4	484	c.397C>T	c.(397-399)CTG>TTG	p.L133L		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	133	S1 motif 1.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		AGAACAACCTCTGAAGGTAAG	0.418													14	246	---	---	---	---	PASS	T	105163037	T	T	105163037	2	4	156	1	0	0	0	0	0	0	0	1	11617	912	32	2		2	PDCD11	10	105163037	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	530704	105163037	30371710	359	55623										
SORCS3	22986	broad.mit.edu	37	chr10	106916948	106916948	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caagaaggtggacgaccaggTgaagacatacatcacttaca	10	9	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:106916948T>A	uc001kyi.1	+	10	1762	c.1535T>A	c.(1534-1536)GTG>GAG	p.V512E		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	512	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GACGACCAGGTGAAGACATAC	0.522													28	114	---	---	---	---	PASS	A	106916948	A	A	106916948	3	1	156	1	0	0	0	0	1	0	0	0	14932	1696	59	5	1573	5	SORCS3	10	106916948	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	1753911	106916948	28617799	360	55624										
BCCIP	56647	broad.mit.edu	37	chr10	127524684	127524684	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttggtttagaaggcaattctCaagttcaactactcagtgca	8	8	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr10:127524684C>G	uc001ljb.3	+	7	809	c.786C>G	c.(784-786)CTC>CTG	p.L262L	BCCIP_uc001ljd.3_Intron|BCCIP_uc010qui.1_Intron|BCCIP_uc001ljc.3_Intron|BCCIP_uc010quj.1_Intron	NM_078468	NP_510868	Q9P287	BCCIP_HUMAN	BRCA2 and CDKN1A-interacting protein isoform	262					cell cycle|DNA repair|neuroendocrine cell differentiation|regulation of cyclin-dependent protein kinase activity	nuclear cyclin-dependent protein kinase holoenzyme complex	kinase regulator activity|protein binding			ovary(1)|breast(1)	2		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				AGGCAATTCTCAAGTTCAACT	0.423													14	275	---	---	---	---	PASS	G	127524684	G	G	127524684	2	3	156	1	0	0	0	0	0	0	0	1	1356	813	29	2		2	BCCIP	10	127524684	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	20607736	127524684	8010063	361	55625										
TSPAN32	10077	broad.mit.edu	37	chr11	2337820	2337820	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcccaggtgtccgccttgctCttcagctccttcctgtggtt	9	15	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:2337820C>G	uc001lvy.1	+	8	779	c.642C>G	c.(640-642)CTC>CTG	p.L214L	TSPAN32_uc010qxk.1_3'UTR|TSPAN32_uc009ydl.1_Intron|TSPAN32_uc001lvz.1_Silent_p.L184L|TSPAN32_uc001lwb.1_Silent_p.L184L|TSPAN32_uc001lwc.1_Silent_p.L159L|TSPAN32_uc001lwd.1_Silent_p.L146L	NM_139022	NP_620591	Q96QS1	TSN32_HUMAN	tumor-suppressing subtransferable candidate 6	214	Helical; (Potential).				cell-cell signaling	integral to membrane				central_nervous_system(1)	1		all_epithelial(84;4.89e-05)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.00791)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.000533)|LUSC - Lung squamous cell carcinoma(625;0.082)|Lung(200;0.153)		CCGCCTTGCTCTTCAGCTCCT	0.672													9	81	---	---	---	---	PASS	G	2337820	G	G	2337820	2	3	156	1	0	0	0	0	0	0	0	1	16644	900	32	2		2	TSPAN32	11	2337820	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08		2337820	132668696	362	55626										
OR51A4	401666	broad.mit.edu	37	chr11	4967563	4967563	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggacaacggccaggttgatGatgggcaggtagaagatgat	16	5	0	5			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:4967563G>T	uc010qys.1	-	1	768	c.768C>A	c.(766-768)ATC>ATA	p.I256I		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	256	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		CCAGGTTGATGATGGGCAGGT	0.483													24	153	---	---	---	---	PASS	T	4967563	T	T	4967563	2	4	156	1	0	0	0	0	0	0	0	1	11087	1280	45	2		2	OR51A4	11	4967563	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	2629743	4967563	130038953	363	55627										
OR51I2	390064	broad.mit.edu	37	chr11	5474948	5474948	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgtggccatatccatggccaCactgcccactgtactccgaa	8	15	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:5474948C>A	uc010qzf.1	+	1	230	c.230C>A	c.(229-231)ACA>AAA	p.T77K	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004754	NP_001004754	Q9H344	O51I2_HUMAN	olfactory receptor, family 51, subfamily I,	77	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.09e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCCATGGCCACACTGCCCACT	0.507													39	144	---	---	---	---	PASS	A	5474948	A	A	5474948	3	1	156	1	0	0	0	0	1	0	0	0	11101	478	17	3	232	3	OR51I2	11	5474948	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	507385	5474948	129531568	364	55628										
UBQLNL	143630	broad.mit.edu	37	chr11	5536292	5536292	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtctgctgcaggaatgtgggCagctgctgcctccactgttc	13	12	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:5536292C>T	uc001maz.3	-	1	1665	c.1380G>A	c.(1378-1380)CTG>CTA	p.L460L	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	460										large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		GGAATGTGGGCAGCTGCTGCC	0.502													32	164	---	---	---	---	PASS	T	5536292	T	T	5536292	2	4	156	1	0	0	0	0	0	0	0	1	16897	697	25	3		3	UBQLNL	11	5536292	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	61344	5536292	129470224	365	55629										
UBQLNL	143630	broad.mit.edu	37	chr11	5537009	5537009	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agctccagagtctgcaatagGatctcagaattatcaagaag	9	8	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:5537009G>A	uc001maz.3	-	1	948	c.663C>T	c.(661-663)ATC>ATT	p.I221I	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	221										large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		TCTGCAATAGGATCTCAGAAT	0.453													17	363	---	---	---	---	PASS	A	5537009	A	A	5537009	2	1	156	1	0	0	0	0	0	0	0	1	16897	1164	41	2		2	UBQLNL	11	5537009	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	717	5537009	129469507	366	55630										
OR52W1	120787	broad.mit.edu	37	chr11	6221263	6221263	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tacctcacacaccgctttggTcatcacactgtcccaaagcc	5	17	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:6221263T>C	uc010qzz.1	+	1	810	c.810T>C	c.(808-810)GGT>GGC	p.G270G		NM_001005178	NP_001005178	Q6IF63	O52W1_HUMAN	olfactory receptor, family 52, subfamily W,	270	Extracellular (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)		ACCGCTTTGGTCATCACACTG	0.542													175	707	---	---	---	---	PASS	C	6221263	C	C	6221263	2	2	156	1	0	0	0	0	0	0	0	1	11132	1654	58	5		5	OR52W1	11	6221263	Silent	SNP	T	TCGA-66-2773-01A-01D-1267-08	684254	6221263	128785253	367	55631										
CNGA4	1262	broad.mit.edu	37	chr11	6260661	6260661	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggggattactactactggtGgctgaacacaatggtcttcc	11	9	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:6260661G>T	uc001mco.2	+	2	217	c.110G>T	c.(109-111)TGG>TTG	p.W37L	CNGA4_uc010raa.1_5'UTR|CNGA4_uc001mcn.2_5'UTR	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	37	Helical; Name=H1; (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TACTACTGGTGGCTGAACACA	0.493													100	511	---	---	---	---	PASS	T	6260661	T	T	6260661	3	4	156	1	0	0	0	0	1	0	0	0	3599	1357	47	3	116	3	CNGA4	11	6260661	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	39398	6260661	128745855	368	55632										
SYT9	143425	broad.mit.edu	37	chr11	7334650	7334650	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aattcaatccgaagacaactCaacttgtcaaacccggactt	5	12	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:7334650C>T	uc001mfe.2	+	3	759	c.522C>T	c.(520-522)CTC>CTT	p.L174L	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_Intron	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	174	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		GAAGACAACTCAACTTGTCAA	0.393													18	69	---	---	---	---	PASS	T	7334650	T	T	7334650	2	4	156	1	0	0	0	0	0	0	0	1	15478	813	29	2		2	SYT9	11	7334650	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1073989	7334650	127671866	369	55633										
KCNJ11	3767	broad.mit.edu	37	chr11	17409310	17409310	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aggagtggatgctggtgacaCagggctcagcagtgccctcg	16	10	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:17409310C>A	uc001mna.2	-	1	897	c.329G>T	c.(328-330)TGT>TTT	p.C110F	KCNJ11_uc001mnb.3_Missense_Mutation_p.C23F	NM_000525	NP_000516	B4DWI4	B4DWI4_HUMAN	potassium inwardly-rectifying channel J11	110						integral to membrane	ATP-activated inward rectifier potassium channel activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0276)|Colorectal(2;0.0633)		GCTGGTGACACAGGGCTCAGC	0.612													13	61	---	---	---	---	PASS	A	17409310	A	A	17409310	3	1	156	1	0	0	0	0	1	0	0	0	8045	478	17	3	847	3	KCNJ11	11	17409310	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	10074660	17409310	117597206	370	55634										
MRGPRX1	259249	broad.mit.edu	37	chr11	18955535	18955535	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtaaatgatggggttggcaCtgctgttaagagcggacagg	16	5	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:18955535C>A	uc001mpg.2	-	1	1015	c.797G>T	c.(796-798)AGT>ATT	p.S266I		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	266	Helical; Name=7; (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						GGGGTTGGCACTGCTGTTAAG	0.468													35	137	---	---	---	---	PASS	A	18955535	A	A	18955535	3	1	156	1	0	0	0	0	1	0	0	0	9766	565	20	3	175	3	MRGPRX1	11	18955535	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1546225	18955535	116050981	371	55635										
SLC17A6	57084	broad.mit.edu	37	chr11	22399019	22399019	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tatggtggagttatattttaTgcaatatttgcctcaggaga	10	4	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:22399019T>A	uc001mqk.2	+	12	1895	c.1482T>A	c.(1480-1482)TAT>TAA	p.Y494*		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	494	Helical; (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						TTATATTTTATGCAATATTTG	0.438													22	81	---	---	---	---	PASS	A	22399019	A	A	22399019	4	1	156	1	0	0	0	0	0	1	0	0	14421	1471	51	5	1528	5	SLC17A6	11	22399019	Nonsense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	3443484	22399019	112607497	372	55636										
FANCF	2188	broad.mit.edu	37	chr11	22646528	22646528	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttgaccccagtctgttagcaGacccagatagacaggagaca	10	11	1	5			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:22646528G>C	uc001mql.1	-	1	860	c.829C>G	c.(829-831)CTG>GTG	p.L277V		NM_022725	NP_073562	Q9NPI8	FANCF_HUMAN	Fanconi anemia, complementation group F	277					DNA repair	nucleoplasm	protein binding			skin(1)	1						TCTGTTAGCAGACCCAGATAG	0.537			N|F			AML|leukemia		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia		OREG0020844	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	165	---	---	---	---	PASS	C	22646528	C	C	22646528	3	2	156	1	0	0	0	0	1	0	0	0	5667	933	33	2	299	2	FANCF	11	22646528	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	247509	22646528	112359988	373	55637										
C11orf41	25758	broad.mit.edu	37	chr11	33566811	33566811	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cacccggttgccaccattgcGagcagaaaacacagatgctg	10	13	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:33566811G>A	uc001mup.3	+	2	2523	c.2399G>A	c.(2398-2400)CGA>CAA	p.R800Q	C11orf41_uc001mun.1_Missense_Mutation_p.R800Q	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	794						integral to membrane				ovary(2)	2						CCACCATTGCGAGCAGAAAAC	0.582													19	95	---	---	---	---	PASS	A	33566811	A	A	33566811	3	1	156	1	0	0	0	0	1	0	0	0	1640	1058	37	2	2405	2	C11orf41	11	33566811	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	10920283	33566811	101439705	374	55638										
TRAF6	7189	broad.mit.edu	37	chr11	36514132	36514132	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaccaaaagtactgaatgtgCatggaattggggctgtaggg	14	5	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:36514132C>T	uc001mwr.1	-	7	1065	c.725G>A	c.(724-726)TGC>TAC	p.C242Y	TRAF6_uc001mws.1_Missense_Mutation_p.C242Y	NM_145803	NP_665802	Q9Y4K3	TRAF6_HUMAN	TNF receptor-associated factor 6	242	Interaction with TAX1BP1.|TRAF-type 2.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|ossification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell cytokine production|protein autoubiquitination|protein K63-linked ubiquitination|response to interleukin-1|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cell cortex|cytosol|endosome membrane|internal side of plasma membrane|nuclear membrane	histone deacetylase binding|mitogen-activated protein kinase kinase kinase binding|protein kinase B binding|protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				ACTGAATGTGCATGGAATTGG	0.303													7	185	---	---	---	---	PASS	T	36514132	T	T	36514132	3	4	156	1	0	0	0	0	1	0	0	0	16442	710	25	3	851	3	TRAF6	11	36514132	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2947321	36514132	98492384	375	55639										
KBTBD4	55709	broad.mit.edu	37	chr11	47595120	47595120	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aggagcacaccactcccagtCaacggtggcattgttgcact	10	13	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:47595120C>A	uc001nfx.2	-	4	1090	c.919G>T	c.(919-921)GAC>TAC	p.D307Y	NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_Missense_Mutation_p.D332Y|KBTBD4_uc001nfz.2_Missense_Mutation_p.D323Y|KBTBD4_uc001nfy.2_Missense_Mutation_p.D307Y	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4	307	Kelch 2.									ovary(1)|central_nervous_system(1)	2						CACTCCCAGTCAACGGTGGCA	0.592													37	103	---	---	---	---	PASS	A	47595120	A	A	47595120	3	1	156	1	0	0	0	0	1	0	0	0	7995	826	29	2	641	2	KBTBD4	11	47595120	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	11080988	47595120	87411396	376	55640										
OR4C3	256144	broad.mit.edu	37	chr11	48347278	48347278	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gatgggagatgcaaagccctCtccacctgtggagcccactt	11	13	1	1	rs146173332	byFrequency	TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:48347278C>G	uc010rhv.1	+	1	786	c.786C>G	c.(784-786)CTC>CTG	p.L262L		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	235	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GCAAAGCCCTCTCCACCTGTG	0.448													33	248	---	---	---	---	PASS	G	48347278	G	G	48347278	2	3	156	1	0	0	0	0	0	0	0	1	11050	900	32	2		2	OR4C3	11	48347278	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	752158	48347278	86659238	377	55641										
OR4A5	81318	broad.mit.edu	37	chr11	51412240	51412240	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaatacattggggaacccaaGgaagggctggcaataatatc	11	7	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:51412240G>A	uc001nhi.1	-	1	156	c.156C>T	c.(154-156)TCC>TCT	p.S52S		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	52	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				GGGAACCCAAGGAAGGGCTGG	0.428													11	80	---	---	---	---	PASS	A	51412240	A	A	51412240	2	1	156	1	0	0	0	0	0	0	0	1	11043	987	35	3		3	OR4A5	11	51412240	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	3064962	51412240	83594276	378	55642										
OR5I1	10798	broad.mit.edu	37	chr11	55703274	55703274	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	actgagctgccgtatgtggaGaggagccactcattaattgt	12	8	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:55703274G>T	uc010ris.1	-	1	603	c.603C>A	c.(601-603)CTC>CTA	p.L201L		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	201	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CGTATGTGGAGAGGAGCCACT	0.383													11	48	---	---	---	---	PASS	T	55703274	T	T	55703274	2	4	156	1	0	0	0	0	0	0	0	1	11164	929	33	2		2	OR5I1	11	55703274	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	4291034	55703274	79303242	379	55643										
OR8J3	81168	broad.mit.edu	37	chr11	55904716	55904716	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acacagagaatatacaaggtGaaaccacaatagctgtagaa	8	7	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:55904716G>A	uc010riz.1	-	1	479	c.479C>T	c.(478-480)TCA>TTA	p.S160L		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	160	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					TATACAAGGTGAAACCACAAT	0.428													26	150	---	---	---	---	PASS	A	55904716	A	A	55904716	3	1	156	1	0	0	0	0	1	0	0	0	11242	1294	45	2	470	2	OR8J3	11	55904716	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	201442	55904716	79101800	380	55644										
OR8J1	219477	broad.mit.edu	37	chr11	56128355	56128355	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acaaatgtggttggttccttGattatagttctagtatctta	8	5	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:56128355G>A	uc010rjh.1	+	1	633	c.633G>A	c.(631-633)TTG>TTA	p.L211L		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	211	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TTGGTTCCTTGATTATAGTTC	0.323													9	104	---	---	---	---	PASS	A	56128355	A	A	56128355	2	1	156	1	0	0	0	0	0	0	0	1	11241	1281	45	2		2	OR8J1	11	56128355	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	223639	56128355	78878161	381	55645										
OR9G9	504191	broad.mit.edu	37	chr11	56467891	56467891	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggagcaatcatacagtgactGagtttatactgctgggcttc	11	8	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:56467891G>A	uc010rjn.1	+	1	28	c.28G>A	c.(28-30)GAG>AAG	p.E10K		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TACAGTGACTGAGTTTATACT	0.473													18	120	---	---	---	---	PASS	A	56467891	A	A	56467891	3	1	156	1	0	0	0	0	1	0	0	0	11252	1291	45	2	30	2	OR9G9	11	56467891	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	339536	56467891	78538625	382	55646										
MS4A1	931	broad.mit.edu	37	chr11	60229890	60229890	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	taaatgggactttcccggcaGagccaatgaaaggccctatt	10	10	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:60229890G>A	uc001npp.2	+	3	459	c.43G>A	c.(43-45)GAG>AAG	p.E15K	MS4A1_uc009ymy.1_Missense_Mutation_p.E15K|MS4A1_uc001npq.2_Missense_Mutation_p.E15K|MS4A1_uc009yna.2_Missense_Mutation_p.E15K|MS4A1_uc009ymz.2_Missense_Mutation_p.E15K|MS4A1_uc010rlc.1_Missense_Mutation_p.E15K	NM_152866	NP_690605	P11836	CD20_HUMAN	membrane-spanning 4-domains, subfamily A, member	15	Cytoplasmic (Potential).				B cell activation|immune response	integral to plasma membrane				ovary(3)|lung(2)	5					Ibritumomab(DB00078)|Rituximab(DB00073)|Tositumomab(DB00081)	TTTCCCGGCAGAGCCAATGAA	0.438													10	156	---	---	---	---	PASS	A	60229890	A	A	60229890	3	1	156	1	0	0	0	0	1	0	0	0	9854	943	33	2	45	2	MS4A1	11	60229890	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3761999	60229890	74776626	383	55647										
SLC22A8	9376	broad.mit.edu	37	chr11	62782428	62782428	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tccaggatctccgagaaggtCatggcactggggcaagacga	14	10	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:62782428C>T	uc001nwo.2	-	2	139	c.3G>A	c.(1-3)ATG>ATA	p.M1I	SLC22A8_uc001nwp.2_Missense_Mutation_p.M1I|SLC22A8_uc009yom.2_Intron|SLC22A8_uc010rmm.1_Intron|SLC22A8_uc009yon.2_Missense_Mutation_p.M1I	NM_004254	NP_004245	Q8TCC7	S22A8_HUMAN	solute carrier family 22 member 8	1	Cytoplasmic (Potential).				response to toxin	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|organic anion transmembrane transporter activity			skin(2)|ovary(1)	3						CCGAGAAGGTCATGGCACTGG	0.572													31	185	---	---	---	---	PASS	T	62782428	T	T	62782428	3	4	156	1	0	0	0	0	1	0	0	0	14460	826	29	2	1665	2	SLC22A8	11	62782428	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2552538	62782428	72224088	384	55648										
FLRT1	23769	broad.mit.edu	37	chr11	63884157	63884157	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acctgcaggacaacaatgtgCgcaccattgccagggactcg	11	13	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:63884157C>T	uc001nyi.1	+	2	759	c.418C>T	c.(418-420)CGC>TGC	p.R140C	MACROD1_uc001nyh.2_Intron	NM_013280	NP_037412	Q9NZU1	FLRT1_HUMAN	fibronectin leucine rich transmembrane protein	112	LRR 3.|Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity				0						CAACAATGTGCGCACCATTGC	0.602													19	126	---	---	---	---	PASS	T	63884157	T	T	63884157	3	4	156	1	0	0	0	0	1	0	0	0	5938	768	27	1	420	1	FLRT1	11	63884157	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1101729	63884157	71122359	385	55649										
FKBP2	2286	broad.mit.edu	37	chr11	64009984	64009984	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caagaagcgggtggaccactGtcccatcaaatcgcgcaaag	11	12	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:64009984G>A	uc001nyy.2	+	2	321	c.125G>A	c.(124-126)TGT>TAT	p.C42Y	FKBP2_uc010rnh.1_Missense_Mutation_p.C42Y|FKBP2_uc001nyz.2_Missense_Mutation_p.C42Y	NM_004470	NP_004461	P26885	FKBP2_HUMAN	FK506 binding protein 2, 13kDa precursor	42					protein folding	endoplasmic reticulum membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|protein binding				0						GTGGACCACTGTCCCATCAAA	0.567													15	257	---	---	---	---	PASS	A	64009984	A	A	64009984	3	1	156	1	0	0	0	0	1	0	0	0	5908	1377	48	3	127	3	FKBP2	11	64009984	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	125827	64009984	70996532	386	55650										
NAALADL1	10004	broad.mit.edu	37	chr11	64822077	64822077	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aatactcgtagtaggagcctCgctccactcctgaggggggc	13	12	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:64822077C>T	uc001ocn.2	-	5	753	c.737G>A	c.(736-738)CGA>CAA	p.R246Q	NAALADL1_uc010rnw.1_5'UTR	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	246	Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						GTAGGAGCCTCGCTCCACTCC	0.597											OREG0032001	type=REGULATORY REGION|TFbs=RELA|Dataset=RELA (p65) ChIP-PET Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with paired-end diTag sequencing (ChIP-PET)	11	76	---	---	---	---	PASS	T	64822077	T	T	64822077	3	4	156	1	0	0	0	0	1	0	0	0	10129	884	31	2	1541	2	NAALADL1	11	64822077	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	812093	64822077	70184439	387	55651										
PCNXL3	399909	broad.mit.edu	37	chr11	65397112	65397112	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tatggccctggtgactgcttCgtcctggcctctgactacct	10	14	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:65397112C>T	uc001oey.2	+	26	4122	c.4122C>T	c.(4120-4122)TTC>TTT	p.F1374F	PCNXL3_uc001oez.2_Silent_p.F261F	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1374						integral to membrane					0						GTGACTGCTTCGTCCTGGCCT	0.612													9	29	---	---	---	---	PASS	T	65397112	T	T	65397112	2	4	156	1	0	0	0	0	0	0	0	1	11593	883	31	2		2	PCNXL3	11	65397112	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	575035	65397112	69609404	388	55652										
FOSL1	8061	broad.mit.edu	37	chr11	65664331	65664331	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggcggccccagggcccggatGactcctggccggggttgtgg	19	13	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:65664331G>A	uc001ogg.1	-	2	433	c.246C>T	c.(244-246)GTC>GTT	p.V82V	FOSL1_uc010ros.1_Intron	NM_005438	NP_005429	P15407	FOSL1_HUMAN	FOS-like antigen 1	82					cellular defense response|chemotaxis|positive regulation of cell proliferation|response to virus|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				READ - Rectum adenocarcinoma(159;0.168)		GGGCCCGGATGACTCCTGGCC	0.642													28	167	---	---	---	---	PASS	A	65664331	A	A	65664331	2	1	156	1	0	0	0	0	0	0	0	1	5987	1277	45	2		2	FOSL1	11	65664331	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	267219	65664331	69342185	389	55653										
TSGA10IP	254187	broad.mit.edu	37	chr11	65714963	65714963	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agctgcaaagcctgggtgctGaggaggccgagaggggtctg	19	8	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:65714963G>A	uc001ogk.1	+	5	699	c.667G>A	c.(667-669)GAG>AAG	p.E223K	TSGA10IP_uc009yqw.1_RNA|TSGA10IP_uc009yqx.1_Intron	NM_152762	NP_689975	Q3SY00	T10IP_HUMAN	testis specific, 10 interacting protein	223											0						CCTGGGTGCTGAGGAGGCCGA	0.652													19	112	---	---	---	---	PASS	A	65714963	A	A	65714963	3	1	156	1	0	0	0	0	1	0	0	0	16615	1291	45	2	677	2	TSGA10IP	11	65714963	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	50632	65714963	69291553	390	55654										
CST6	1474	broad.mit.edu	37	chr11	65779526	65779526	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	actgacggccatggcgcgttCgaacctcccgctggcgctgg	14	15	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:65779526C>G	uc001ogr.2	+	1	65	c.11C>G	c.(10-12)TCG>TGG	p.S4W	CST6_uc001ogq.1_RNA|CST6_uc001ogs.1_5'Flank	NM_001323	NP_001314	Q15828	CYTM_HUMAN	cystatin M precursor	4					anatomical structure morphogenesis	extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1						ATGGCGCGTTCGAACCTCCCG	0.746													7	14	---	---	---	---	PASS	G	65779526	G	G	65779526	3	3	156	1	0	0	0	0	1	0	0	0	3976	893	31	2	13	2	CST6	11	65779526	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	64563	65779526	69226990	391	55655										
NPAS4	266743	broad.mit.edu	37	chr11	66191327	66191327	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gacatggaagcctggagcctCcgccagcagttgaactctga	12	12	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:66191327C>T	uc001ohx.1	+	7	1142	c.966C>T	c.(964-966)CTC>CTT	p.L322L	NPAS4_uc010rpc.1_Silent_p.L112L	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	322					transcription, DNA-dependent		DNA binding|signal transducer activity				0						CCTGGAGCCTCCGCCAGCAGT	0.547													17	283	---	---	---	---	PASS	T	66191327	T	T	66191327	2	4	156	1	0	0	0	0	0	0	0	1	10565	842	30	2		2	NPAS4	11	66191327	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	411801	66191327	68815189	392	55656										
ALDH3B2	222	broad.mit.edu	37	chr11	67434384	67434384	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cagcagggctcaccaggttcGtggaccgtggttcatccttc	12	13	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:67434384G>C	uc001omr.2	-	3	462	c.23C>G	c.(22-24)ACG>AGG	p.T8R	ALDH3B2_uc001oms.2_Missense_Mutation_p.T8R|ALDH3B2_uc009ysa.1_Missense_Mutation_p.T8R	NM_000695	NP_000686	P48448	AL3B2_HUMAN	aldehyde dehydrogenase 3B2	8					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase			lung(1)|kidney(1)	2					NADH(DB00157)	CACCAGGTTCGTGGACCGTGG	0.642													7	200	---	---	---	---	PASS	C	67434384	C	C	67434384	3	2	156	1	0	0	0	0	1	0	0	0	500	1145	40	4	1166	4	ALDH3B2	11	67434384	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1243057	67434384	67572132	393	55657										
SHANK2	22941	broad.mit.edu	37	chr11	70319419	70319419	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttggggcacgtcttgttcctGaggtcctgctttcatagtcg	12	10	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:70319419G>A	uc001oqc.2	-	22	5183	c.5105C>T	c.(5104-5106)TCA>TTA	p.S1702L	SHANK2_uc010rqn.1_Missense_Mutation_p.S1114L|SHANK2_uc001opz.2_Missense_Mutation_p.S1107L|uc009ysn.1_Intron|SHANK2_uc001opy.2_Missense_Mutation_p.S38L	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	1323					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)			TCTTGTTCCTGAGGTCCTGCT	0.642													9	153	---	---	---	---	PASS	A	70319419	A	A	70319419	3	1	156	1	0	0	0	0	1	0	0	0	14265	1294	45	2	448	2	SHANK2	11	70319419	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2885035	70319419	64687097	394	55658										
POLD3	10714	broad.mit.edu	37	chr11	74351706	74351706	+	Silent	SNP	G	T	T													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agaccccctgccatgactgtGaaaaaagaacccagagagga							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:74351706G>T	uc001ovf.1	+	12	1371	c.1296G>T	c.(1294-1296)GTG>GTT	p.V432V	POLD3_uc009yua.1_Silent_p.V326V	NM_006591	NP_006582	Q15054	DPOD3_HUMAN	DNA-directed DNA polymerase delta 3	432					base-excision repair|DNA strand elongation involved in DNA replication|DNA synthesis involved in DNA repair|mismatch repair|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm	DNA-directed DNA polymerase activity|protein binding			kidney(2)|ovary(1)	3	Breast(11;3.21e-06)					CCATGACTGTGAAAAAAGAAC	0.498													28	166	---	---	---	---	PASS	T	74351706	T	T	74351706	2	4	156	1	0	0	0	0	0	0	0	1	12192	1277	45	2		2	POLD3	11	74351706	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	4032287	74351706	60654810	395	55659	993	2								
POLD3	10714	broad.mit.edu	37	chr11	74351707	74351707	+	Missense_Mutation	SNP	A	G	G													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaccccctgccatgactgtgAaaaaagaacccagagaggaa							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:74351707A>G	uc001ovf.1	+	12	1372	c.1297A>G	c.(1297-1299)AAA>GAA	p.K433E	POLD3_uc009yua.1_Missense_Mutation_p.K327E	NM_006591	NP_006582	Q15054	DPOD3_HUMAN	DNA-directed DNA polymerase delta 3	433					base-excision repair|DNA strand elongation involved in DNA replication|DNA synthesis involved in DNA repair|mismatch repair|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm	DNA-directed DNA polymerase activity|protein binding			kidney(2)|ovary(1)	3	Breast(11;3.21e-06)					CATGACTGTGAAAAAAGAACC	0.493													27	162	---	---	---	---	PASS	G	74351707	G	G	74351707	3	3	156	1	0	0	0	0	1	0	0	0	12192	247	9	5	1343	5	POLD3	11	74351707	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	1	74351707	60654809	396	55660	993	2								
RAB38	23682	broad.mit.edu	37	chr11	87908475	87908475	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttctggtgcacgtagcgcttGatgatactggtcttccccac	10	12	2	2	rs61749248		TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:87908475G>C	uc001pcj.1	-	1	125	c.78C>G	c.(76-78)ATC>ATG	p.I26M	hsa-mir-3166|MI0014196_5'Flank	NM_022337	NP_071732	P57729	RAB38_HUMAN	RAB38	26					protein transport|small GTPase mediated signal transduction	melanosome|plasma membrane	GTP binding|GTPase activity	p.I26I(1)		upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CGTAGCGCTTGATGATACTGG	0.632													16	136	---	---	---	---	PASS	C	87908475	C	C	87908475	3	2	156	1	0	0	0	0	1	0	0	0	12928	1280	45	2	569	2	RAB38	11	87908475	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	13556768	87908475	47098041	397	55661										
TYR	7299	broad.mit.edu	37	chr11	88911287	88911287	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tttcaggcagaggttcctgtCagaatatccttctgtccaat	8	10	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:88911287C>T	uc001pcs.2	+	1	248	c.166C>T	c.(166-168)CAG>TAG	p.Q56*		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	56	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	AGGTTCCTGTCAGAATATCCT	0.547									Oculocutaneous_Albinism				16	72	---	---	---	---	PASS	T	88911287	T	T	88911287	4	4	156	1	0	0	0	0	0	1	0	0	16810	827	29	2	168	2	TYR	11	88911287	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1002812	88911287	46095229	398	55662										
TYR	7299	broad.mit.edu	37	chr11	88911641	88911641	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttaacgacatcaatatttatGacctctttgtctggatgcat	6	8	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:88911641G>A	uc001pcs.2	+	1	602	c.520G>A	c.(520-522)GAC>AAC	p.D174N		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	174	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	CAATATTTATGACCTCTTTGT	0.423									Oculocutaneous_Albinism				57	306	---	---	---	---	PASS	A	88911641	A	A	88911641	3	1	156	1	0	0	0	0	1	0	0	0	16810	1290	45	2	522	2	TYR	11	88911641	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	354	88911641	46094875	399	55663										
GPR83	10888	broad.mit.edu	37	chr11	94113828	94113828	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcgtaggccacagagatgatGaggaggggcaggatgtagag	19	5	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:94113828G>T	uc001pet.2	-	4	931	c.759C>A	c.(757-759)CTC>CTA	p.L253L		NM_016540	NP_057624	Q9NYM4	GPR83_HUMAN	G protein-coupled receptor 83 precursor	253	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			central_nervous_system(2)|ovary(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CAGAGATGATGAGGAGGGGCA	0.562													24	110	---	---	---	---	PASS	T	94113828	T	T	94113828	2	4	156	1	0	0	0	0	0	0	0	1	6713	1277	45	2		2	GPR83	11	94113828	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	5202187	94113828	40892688	400	55664										
GRIA4	2893	broad.mit.edu	37	chr11	105769141	105769141	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agagagtatccaggatctgaGactcctccaaaggtatttgt	10	8	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:105769141G>C	uc001pix.2	+	7	1319	c.873G>C	c.(871-873)GAG>GAC	p.E291D	GRIA4_uc001piu.1_Missense_Mutation_p.E291D|GRIA4_uc001piw.2_Missense_Mutation_p.E291D|GRIA4_uc009yxk.1_Missense_Mutation_p.E291D	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	291	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	CAGGATCTGAGACTCCTCCAA	0.313													4	34	---	---	---	---	PASS	C	105769141	C	C	105769141	3	2	156	1	0	0	0	0	1	0	0	0	6770	933	33	2	895	2	GRIA4	11	105769141	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	11655313	105769141	29237375	401	55665										
ZW10	9183	broad.mit.edu	37	chr11	113628514	113628514	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atgttaggctggctttctatCacagcatgaagggatgggca	13	7	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:113628514C>T	uc001poe.2	-	7	832	c.795G>A	c.(793-795)GTG>GTA	p.V265V	ZW10_uc009yyv.2_RNA	NM_004724	NP_004715	O43264	ZW10_HUMAN	centromere/kinetochore protein zw10	265	Interaction with RINT1.				cell division|ER to Golgi vesicle-mediated transport|establishment of mitotic spindle orientation|meiosis|mitotic cell cycle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|protein complex assembly|protein localization to kinetochore|protein transport|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|endoplasmic reticulum membrane|kinetochore microtubule|nucleus|spindle pole	centromeric DNA binding|protein binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.84e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000237)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.94e-06)|Epithelial(105;0.000103)|all cancers(92;0.000786)		GGCTTTCTATCACAGCATGAA	0.378													10	96	---	---	---	---	PASS	T	113628514	T	T	113628514	2	4	156	1	0	0	0	0	0	0	0	1	18244	813	29	2		2	ZW10	11	113628514	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	7859373	113628514	21378002	402	55666										
DSCAML1	57453	broad.mit.edu	37	chr11	117314735	117314735	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tagaagagctgctctggactCgtctcgtactcgctgggagc	13	11	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:117314735C>T	uc001prh.1	-	21	3911	c.3909G>A	c.(3907-3909)ACG>ACA	p.T1303T		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1243	Extracellular (Potential).|Fibronectin type-III 4.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GCTCTGGACTCGTCTCGTACT	0.642													11	97	---	---	---	---	PASS	T	117314735	T	T	117314735	2	4	156	1	0	0	0	0	0	0	0	1	4769	871	31	2		2	DSCAML1	11	117314735	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	3686221	117314735	17691781	403	55667										
AMICA1	120425	broad.mit.edu	37	chr11	118074365	118074365	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cctgagtttgtggtagtaacGaaatacaatctcctcctaga	8	9	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:118074365G>C	uc001psk.2	-	6	724	c.550C>G	c.(550-552)CGT>GGT	p.R184G	AMICA1_uc001psg.2_5'UTR|AMICA1_uc001psh.2_Missense_Mutation_p.R145G|AMICA1_uc009yzw.1_RNA|AMICA1_uc001psi.2_Missense_Mutation_p.R174G|AMICA1_uc001psj.2_Missense_Mutation_p.R173G|AMICA1_uc010rxw.1_Missense_Mutation_p.R145G|AMICA1_uc010rxx.1_Missense_Mutation_p.R184G|AMICA1_uc001psl.1_Missense_Mutation_p.R140G	NM_001098526	NP_001091996	Q86YT9	JAML1_HUMAN	adhesion molecule, interacts with CXADR antigen	184	Ig-like V-type 2.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	cell junction|integral to membrane				ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		TGGTAGTAACGAAATACAATC	0.502													28	170	---	---	---	---	PASS	C	118074365	C	C	118074365	3	2	156	1	0	0	0	0	1	0	0	0	574	1058	37	2	654	2	AMICA1	11	118074365	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	759630	118074365	16932151	404	55668										
TREH	11181	broad.mit.edu	37	chr11	118530458	118530458	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cacctgctgtgccctcacctCcaggtatttcagagccttgt	8	15	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:118530458C>A	uc001pty.1	-	11	1363	c.1318G>T	c.(1318-1320)GAG>TAG	p.E440*	TREH_uc009zaj.1_Nonsense_Mutation_p.E409*|TREH_uc001ptz.1_Nonsense_Mutation_p.E317*	NM_007180	NP_009111	O43280	TREA_HUMAN	trehalase precursor	440					polysaccharide digestion|trehalose catabolic process	anchored to plasma membrane	alpha,alpha-trehalase activity			pancreas(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.16e-05)		GCCCTCACCTCCAGGTATTTC	0.627											OREG0021385	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	15	---	---	---	---	PASS	A	118530458	A	A	118530458	4	1	156	1	0	0	0	0	0	1	0	0	16466	864	30	2	452	2	TREH	11	118530458	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	456093	118530458	16476058	405	55669										
PVRL1	5818	broad.mit.edu	37	chr11	119535588	119535588	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtagccgtcctgacgggcctCggcctcatccacggtgaagt	13	14	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:119535588C>T	uc001pwv.2	-	6	1595	c.1423G>A	c.(1423-1425)GAG>AAG	p.E475K	PVRL1_uc001pwu.1_Intron	NM_002855	NP_002846	Q15223	PVRL1_HUMAN	poliovirus receptor-related 1 isoform 1	475	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|entry of virus into host cell|heterophilic cell-cell adhesion|homophilic cell adhesion|immune response	cell-cell adherens junction|extracellular region|integral to membrane	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0		Breast(348;0.037)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.29e-05)		TGACGGGCCTCGGCCTCATCC	0.622													7	44	---	---	---	---	PASS	T	119535588	T	T	119535588	3	4	156	1	0	0	0	0	1	0	0	0	12839	893	31	2	520	2	PVRL1	11	119535588	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1005130	119535588	15470928	406	55670										
OR10G9	219870	broad.mit.edu	37	chr11	123893842	123893842	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcactgtgctggggaacctCctcatcctgctggtgatcag	11	13	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:123893842C>T	uc010sad.1	+	1	123	c.123C>T	c.(121-123)CTC>CTT	p.L41L		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	41	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		TGGGGAACCTCCTCATCCTGC	0.567													7	190	---	---	---	---	PASS	T	123893842	T	T	123893842	2	4	156	1	0	0	0	0	0	0	0	1	10904	842	30	2		2	OR10G9	11	123893842	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	4358254	123893842	11112674	407	55671										
OR10G7	390265	broad.mit.edu	37	chr11	123909586	123909586	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctgatcaccagcaggatgagGaggttccccagcacagtgag	13	11	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:123909586G>A	uc001pzq.1	-	1	123	c.123C>T	c.(121-123)CTC>CTT	p.L41L		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	41	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		GCAGGATGAGGAGGTTCCCCA	0.572													22	178	---	---	---	---	PASS	A	123909586	A	A	123909586	2	1	156	1	0	0	0	0	0	0	0	1	10902	1161	41	2		2	OR10G7	11	123909586	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	15744	123909586	11096930	408	55672										
C11orf61	79684	broad.mit.edu	37	chr11	124637776	124637776	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ataatggtaacggatatcctCtttccaacgggtgttataac	8	8	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:124637776C>T	uc001qba.1	-	4	999	c.976G>A	c.(976-978)GAG>AAG	p.E326K	C11orf61_uc001qaz.1_Missense_Mutation_p.E274K|C11orf61_uc010sap.1_Missense_Mutation_p.E46K|C11orf61_uc001qay.1_Missense_Mutation_p.E96K	NM_024631	NP_078907	Q6P1R3	CK061_HUMAN	hypothetical protein LOC79684	326											0	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0079)		CGGATATCCTCTTTCCAACGG	0.458													11	188	---	---	---	---	PASS	T	124637776	T	T	124637776	3	4	156	1	0	0	0	0	1	0	0	0	1653	922	32	2	707	2	C11orf61	11	124637776	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	728190	124637776	10368740	409	55673										
ETS1	2113	broad.mit.edu	37	chr11	128350330	128350330	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tctatgctttcaaaagagtcCtggcccccgagtttacctgg	9	12	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:128350330C>A	uc010sbs.1	-	6	1063	c.747G>T	c.(745-747)CAG>CAT	p.Q249H	ETS1_uc001qej.2_Missense_Mutation_p.Q293H|ETS1_uc009zch.2_Missense_Mutation_p.Q33H|ETS1_uc009zcg.2_Missense_Mutation_p.Q249H	NM_005238	NP_005229	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	249					cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)		CAAAAGAGTCCTGGCCCCCGA	0.512													18	75	---	---	---	---	PASS	A	128350330	A	A	128350330	3	1	156	1	0	0	0	0	1	0	0	0	5275	680	24	3	590	3	ETS1	11	128350330	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3712554	128350330	6656186	410	55674										
IGSF9B	22997	broad.mit.edu	37	chr11	133789895	133789895	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gagaaaagctgactgcagccGgcggctgcagggtgatctct	15	10	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr11:133789895G>A	uc001qgx.3	-	18	3956	c.3725C>T	c.(3724-3726)CCG>CTG	p.P1242L		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	1242	Pro-rich.|Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		GACTGCAGCCGGCGGCTGCAG	0.701													7	49	---	---	---	---	PASS	A	133789895	A	A	133789895	3	1	156	1	0	0	0	0	1	0	0	0	7606	1116	39	1	332	1	IGSF9B	11	133789895	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5439565	133789895	1216621	411	55675										
WNK1	65125	broad.mit.edu	37	chr12	989042	989042	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cgggggtatcaactgtggttCctagtcagcttccaaccctt	10	12	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:989042C>G	uc001qio.3	+	11	3184	c.2677C>G	c.(2677-2679)CCT>GCT	p.P893A	WNK1_uc001qip.3_Intron|WNK1_uc001qir.3_Intron	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	893					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			AACTGTGGTTCCTAGTCAGCT	0.547													8	262	---	---	---	---	PASS	G	989042	G	G	989042	3	3	156	1	0	0	0	0	1	0	0	0	17374	855	30	2	4221	2	WNK1	12	989042	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08		989042	132862853	412	55676										
KCNA5	3741	broad.mit.edu	37	chr12	5153935	5153935	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcttctaccagctgggggacGaggccatggagcgcttccgc	15	13	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:5153935G>A	uc001qni.2	+	1	851	c.622G>A	c.(622-624)GAG>AAG	p.E208K		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	208						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GCTGGGGGACGAGGCCATGGA	0.617													8	168	---	---	---	---	PASS	A	5153935	A	A	5153935	3	1	156	1	0	0	0	0	1	0	0	0	8006	1059	37	2	624	2	KCNA5	12	5153935	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	4164893	5153935	128697960	413	55677										
A2ML1	144568	broad.mit.edu	37	chr12	9020498	9020498	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctaccgcctacatgccatctGaggagatcaacctggttgta	9	12	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:9020498G>A	uc001quz.3	+	30	3876	c.3778G>A	c.(3778-3780)GAG>AAG	p.E1260K	A2ML1_uc001qva.1_Missense_Mutation_p.E840K|A2ML1_uc010sgm.1_Missense_Mutation_p.E760K|A2ML1_uc001qvb.1_RNA	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	1104						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						CATGCCATCTGAGGAGATCAA	0.443													29	200	---	---	---	---	PASS	A	9020498	A	A	9020498	3	1	156	1	0	0	0	0	1	0	0	0	5	1291	45	2	3896	2	A2ML1	12	9020498	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3866563	9020498	124831397	414	55678										
CLEC1B	51266	broad.mit.edu	37	chr12	10151638	10151638	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggctctgagcattcttaccgGagatgagagctggtttccga	13	9	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:10151638G>T	uc001qwu.2	-	1	262	c.62C>A	c.(61-63)TCC>TAC	p.S21Y	CLEC1B_uc009zhd.2_Missense_Mutation_p.S21Y	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform	21	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0						ATTCTTACCGGAGATGAGAGC	0.333													50	383	---	---	---	---	PASS	T	10151638	T	T	10151638	3	4	156	1	0	0	0	0	1	0	0	0	3506	1174	41	2	651	2	CLEC1B	12	10151638	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1131140	10151638	123700257	415	55679										
TAS2R10	50839	broad.mit.edu	37	chr12	10978130	10978130	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcgcacagtaaaacatgataTttctatggccatgcctataa	6	9	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:10978130T>C	uc001qyy.1	-	1	739	c.739A>G	c.(739-741)ATA>GTA	p.I247V		NM_023921	NP_076410	Q9NYW0	T2R10_HUMAN	taste receptor, type 2, member 10	247	Helical; Name=6; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity				0						AAACATGATATTTCTATGGCC	0.378													88	219	---	---	---	---	PASS	C	10978130	C	C	10978130	3	2	156	1	0	0	0	0	1	0	0	0	15563	1493	52	5	188	5	TAS2R10	12	10978130	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	826492	10978130	122873765	416	55680										
ATF7IP	55729	broad.mit.edu	37	chr12	14650913	14650913	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgtatctggtagcaaatactActttgcagtacgagccaagg	10	8	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:14650913A>G	uc001rbw.2	+	15	3877	c.3719A>G	c.(3718-3720)TAC>TGC	p.Y1240C	ATF7IP_uc001rbx.2_Missense_Mutation_p.Y1239C|ATF7IP_uc001rby.3_Missense_Mutation_p.Y1240C|ATF7IP_uc001rca.2_Missense_Mutation_p.Y1240C	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1240	Interaction with MBD1.|Fibronectin type-III.				DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						AGCAAATACTACTTTGCAGTA	0.468													148	364	---	---	---	---	PASS	G	14650913	G	G	14650913	3	3	156	1	0	0	0	0	1	0	0	0	1087	391	14	5	3773	5	ATF7IP	12	14650913	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	3672783	14650913	119200982	417	55681										
ARNTL2	56938	broad.mit.edu	37	chr12	27540214	27540214	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaaagaggaaaaattctcttCgtttctaagtcagtctccaa	7	8	4	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:27540214C>T	uc001rht.1	+	7	636	c.618C>T	c.(616-618)TTC>TTT	p.F206F	ARNTL2_uc001rhw.2_Silent_p.F169F|ARNTL2_uc010sjp.1_Silent_p.F169F|ARNTL2_uc001rhu.1_Silent_p.F192F|ARNTL2_uc009zji.1_Silent_p.F172F|ARNTL2_uc001rhv.1_Silent_p.F158F	NM_020183	NP_064568	Q8WYA1	BMAL2_HUMAN	aryl hydrocarbon receptor nuclear	206	PAS 1.				circadian rhythm|entrainment of circadian clock|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|skin(1)	2	Colorectal(261;0.0847)|Lung SC(9;0.184)					AAATTCTCTTCGTTTCTAAGT	0.284													30	134	---	---	---	---	PASS	T	27540214	T	T	27540214	2	4	156	1	0	0	0	0	0	0	0	1	968	883	31	2		2	ARNTL2	12	27540214	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	12889301	27540214	106311681	418	55682										
FGD4	121512	broad.mit.edu	37	chr12	32772696	32772696	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aggctctaaattcacagttcGaaccagggttggcattgatg	11	8	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:32772696G>A	uc001rkz.2	+	11	1880	c.1403G>A	c.(1402-1404)CGA>CAA	p.R468Q	FGD4_uc001rlc.2_Missense_Mutation_p.R553Q|FGD4_uc001rky.2_Missense_Mutation_p.R220Q|FGD4_uc001rla.2_Missense_Mutation_p.R124Q|FGD4_uc010ske.1_Missense_Mutation_p.R580Q|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	468	PH 1.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					TTCACAGTTCGAACCAGGGTT	0.408													44	239	---	---	---	---	PASS	A	32772696	A	A	32772696	3	1	156	1	0	0	0	0	1	0	0	0	5835	1058	37	2	1437	2	FGD4	12	32772696	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5232482	32772696	101079199	419	55683										
ALG10B	144245	broad.mit.edu	37	chr12	38714227	38714227	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	taactgaggcttggaaaactGagctacaaaagaaggaagac	11	6	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:38714227G>C	uc001rln.3	+	3	773	c.634G>C	c.(634-636)GAG>CAG	p.E212Q	ALG10B_uc001rlo.3_Missense_Mutation_p.E182Q|ALG10B_uc010skk.1_Missense_Mutation_p.E152Q	NM_001013620	NP_001013642	Q5I7T1	AG10B_HUMAN	asparagine-linked glycosylation 10 homolog B	212	Cytoplasmic (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|plasma membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			ovary(2)|skin(1)	3	Esophageal squamous(101;0.187)	Lung NSC(34;0.204)|all_lung(34;0.235)				TTGGAAAACTGAGCTACAAAA	0.388													23	377	---	---	---	---	PASS	C	38714227	C	C	38714227	3	2	156	1	0	0	0	0	1	0	0	0	512	1291	45	2	644	2	ALG10B	12	38714227	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5941531	38714227	95137668	420	55684										
LRRK2	120892	broad.mit.edu	37	chr12	40629431	40629431	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tctgtttttaactccagattGattcttaaaatgctaacagt	5	7	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:40629431G>A	uc001rmg.3	+	4	472	c.351G>A	c.(349-351)TTG>TTA	p.L117L		NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	117					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)				ACTCCAGATTGATTCTTAAAA	0.308													6	99	---	---	---	---	PASS	A	40629431	A	A	40629431	2	1	156	1	0	0	0	0	0	0	0	1	9033	1281	45	2		2	LRRK2	12	40629431	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1915204	40629431	93222464	421	55685										
LRRK2	120892	broad.mit.edu	37	chr12	40753184	40753184	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggggaggatgtggcacaaaGattttctccttttctaatga	11	6	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:40753184G>A	uc001rmg.3	+	47	7087	c.6966G>A	c.(6964-6966)AAG>AAA	p.K2322K	LRRK2_uc009zjw.2_Silent_p.K1160K|LRRK2_uc001rmi.2_Silent_p.K1155K	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2322					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)				GTGGCACAAAGATTTTCTCCT	0.328													20	127	---	---	---	---	PASS	A	40753184	A	A	40753184	2	1	156	1	0	0	0	0	0	0	0	1	9033	933	33	2		2	LRRK2	12	40753184	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	123753	40753184	93098711	422	55686										
ADAMTS20	80070	broad.mit.edu	37	chr12	43825197	43825197	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttcacatggactcagagattCaggtttggtacttgaattac	9	7	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:43825197C>A	uc010skx.1	-	22	3199	c.3199G>T	c.(3199-3201)GAA>TAA	p.E1067*	ADAMTS20_uc001rno.1_Nonsense_Mutation_p.E221*|ADAMTS20_uc001rnp.1_Nonsense_Mutation_p.E221*	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1067	TSP type-1 5.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CTCAGAGATTCAGGTTTGGTA	0.428													28	133	---	---	---	---	PASS	A	43825197	A	A	43825197	4	1	156	1	0	0	0	0	0	1	0	0	266	835	29	2	2604	2	ADAMTS20	12	43825197	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3072013	43825197	90026698	423	55687										
CCDC65	85478	broad.mit.edu	37	chr12	49298764	49298764	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaggaacacaacagtgctctGaaccttaataagattaacac	7	9	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:49298764G>A	uc001rso.2	+	2	395	c.168G>A	c.(166-168)CTG>CTA	p.L56L		NM_033124	NP_149115	Q8IXS2	CCD65_HUMAN	coiled-coil domain containing 65	56										ovary(1)|skin(1)	2						ACAGTGCTCTGAACCTTAATA	0.438													9	123	---	---	---	---	PASS	A	49298764	A	A	49298764	2	1	156	1	0	0	0	0	0	0	0	1	2837	1277	45	2		2	CCDC65	12	49298764	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	5473567	49298764	84553131	424	55688										
MLL2	8085	broad.mit.edu	37	chr12	49434859	49434859	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gggctggtgtctgggggtgcCaggtggggtagtgtggaatt	22	4	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:49434859C>T	uc001rta.3	-	31	6694	c.6694G>A	c.(6694-6696)GGC>AGC	p.G2232S		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2232	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTGGGGGTGCCAGGTGGGGTA	0.672			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			58	70	---	---	---	---	PASS	T	49434859	T	T	49434859	3	4	156	1	0	0	0	0	1	0	0	0	9621	594	21	3	10015	3	MLL2	12	49434859	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	136095	49434859	84417036	425	55689										
KRT6B	3854	broad.mit.edu	37	chr12	52845454	52845454	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	actctggttgacagtgacctCttggatgcctccaggggggc	14	11	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:52845454C>G	uc001sak.2	-	1	457	c.409G>C	c.(409-411)GAG>CAG	p.E137Q		NM_005555	NP_005546	P04259	K2C6B_HUMAN	keratin 6B	137	Head.				ectoderm development	keratin filament	structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.083)		ACAGTGACCTCTTGGATGCCT	0.642													41	160	---	---	---	---	PASS	G	52845454	G	G	52845454	3	3	156	1	0	0	0	0	1	0	0	0	8481	922	32	2	1321	2	KRT6B	12	52845454	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3410595	52845454	81006441	426	55690										
SPRYD3	84926	broad.mit.edu	37	chr12	53460234	53460234	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggacggcccgggcagtcggaGacaggatcactgtgtcacaa	15	11	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:53460234G>A	uc001sbt.1	-	10	1079	c.1058C>T	c.(1057-1059)TCT>TTT	p.S353F		NM_032840	NP_116229	Q8NCJ5	SPRY3_HUMAN	SPRY domain containing 3	353										central_nervous_system(1)	1						GGCAGTCGGAGACAGGATCAC	0.463											OREG0021856	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	123	---	---	---	---	PASS	A	53460234	A	A	53460234	3	1	156	1	0	0	0	0	1	0	0	0	15108	942	33	2	278	2	SPRYD3	12	53460234	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	614780	53460234	80391661	427	55691										
HOXC11	3227	broad.mit.edu	37	chr12	54367306	54367306	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cagctactcctcctgctatgCggcggccgacgagcttatgc	11	15	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:54367306C>A	uc001sem.2	+	1	397	c.281C>A	c.(280-282)GCG>GAG	p.A94E		NM_014212	NP_055027	O43248	HXC11_HUMAN	homeobox C11	94					endoderm development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TCCTGCTATGCGGCGGCCGAC	0.647			T	NUP98	AML								67	239	---	---	---	---	PASS	A	54367306	A	A	54367306	3	1	156	1	0	0	0	0	1	0	0	0	7310	768	27	1	283	1	HOXC11	12	54367306	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	907072	54367306	79484589	428	55692										
HOXC9	3225	broad.mit.edu	37	chr12	54396286	54396286	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cccctacaccaagtaccagaCgctggaactggagaaggagt	11	12	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:54396286C>T	uc001sep.2	+	3	709	c.611C>T	c.(610-612)ACG>ATG	p.T204M	HOXC9_uc001seq.2_Missense_Mutation_p.T204M	NM_006897	NP_008828	P31274	HXC9_HUMAN	homeobox C9	204	Homeobox.				multicellular organismal development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)|skin(1)	3						AAGTACCAGACGCTGGAACTG	0.572													49	260	---	---	---	---	PASS	T	54396286	T	T	54396286	3	4	156	1	0	0	0	0	1	0	0	0	7317	536	19	1	617	1	HOXC9	12	54396286	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	28980	54396286	79455609	429	55693										
ERBB3	2065	broad.mit.edu	37	chr12	56489459	56489459	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tatcccatagcaaaacccatCtgacaatggctttgacagtg	7	11	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:56489459C>G	uc001sjh.2	+	17	2117	c.1924C>G	c.(1924-1926)CTG>GTG	p.L642V	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Translation_Start_Site|ERBB3_uc010sqc.1_Missense_Mutation_p.L583V|ERBB3_uc009zok.2_Missense_Mutation_p.L84V|ERBB3_uc001sjk.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	642	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CAAAACCCATCTGACAATGGC	0.433													53	216	---	---	---	---	PASS	G	56489459	G	G	56489459	3	3	156	1	0	0	0	0	1	0	0	0	5208	912	32	2	2121	2	ERBB3	12	56489459	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2093173	56489459	77362436	430	55694										
LRP1	4035	broad.mit.edu	37	chr12	57588394	57588394	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agatgccctctgaattacttCgcctgccctagtgggcgctg	11	13	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:57588394C>T	uc001snd.2	+	50	8569	c.8103C>T	c.(8101-8103)TTC>TTT	p.F2701F		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	2701	LDL-receptor class A 15.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TGAATTACTTCGCCTGCCCTA	0.632													31	179	---	---	---	---	PASS	T	57588394	T	T	57588394	2	4	156	1	0	0	0	0	0	0	0	1	8951	883	31	2		2	LRP1	12	57588394	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1098935	57588394	76263501	431	55695										
CTDSP2	10106	broad.mit.edu	37	chr12	58223277	58223277	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tatacgcagcgagctcagtgGaggaacttgactggccaaca	12	10	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:58223277G>C	uc001sqm.2	-	2	696	c.167C>G	c.(166-168)TCC>TGC	p.S56C	CTDSP2_uc009zqf.2_5'UTR|CTDSP2_uc009zqg.2_Intron	NM_005730	NP_005721	O14595	CTDS2_HUMAN	nuclear LIM interactor-interacting factor 2	56					protein dephosphorylation	nucleus|soluble fraction	CTD phosphatase activity|metal ion binding			central_nervous_system(1)	1	all_neural(12;0.00559)|Glioma(12;0.0143)|Melanoma(17;0.122)					GAGCTCAGTGGAGGAACTTGA	0.522													79	442	---	---	---	---	PASS	C	58223277	C	C	58223277	3	2	156	1	0	0	0	0	1	0	0	0	4004	1174	41	2	676	2	CTDSP2	12	58223277	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	634883	58223277	75628618	432	55696										
SRGAP1	57522	broad.mit.edu	37	chr12	64436626	64436626	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atcagtgcagagagcaagctGaaagaggccgaaaaacaaga	12	7	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:64436626G>A	uc010ssp.1	+	5	602	c.546G>A	c.(544-546)CTG>CTA	p.L182L	SRGAP1_uc001srt.2_Silent_p.L182L|SRGAP1_uc001srv.2_Silent_p.L142L	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	182					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		AGAGCAAGCTGAAAGAGGCCG	0.438													6	115	---	---	---	---	PASS	A	64436626	A	A	64436626	2	1	156	1	0	0	0	0	0	0	0	1	15144	1277	45	2		2	SRGAP1	12	64436626	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	6213349	64436626	69415269	433	55697										
IRAK3	11213	broad.mit.edu	37	chr12	66641781	66641781	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgcccagttcttcttgtgaaGaaagttggttcccaaagtat	9	8	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:66641781G>A	uc001sth.2	+	12	1723	c.1621G>A	c.(1621-1623)GAA>AAA	p.E541K	IRAK3_uc010ssy.1_Missense_Mutation_p.E480K	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	541					interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		TTCTTGTGAAGAAAGTTGGTT	0.443													19	384	---	---	---	---	PASS	A	66641781	A	A	66641781	3	1	156	1	0	0	0	0	1	0	0	0	7824	943	33	2	1667	2	IRAK3	12	66641781	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2205155	66641781	67210114	434	55698										
MDM1	56890	broad.mit.edu	37	chr12	68719288	68719288	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caaactgcctttgatattcaGaatttctcaaggcattatat	5	8	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:68719288G>C	uc001stz.2	-	4	702	c.566C>G	c.(565-567)TCT>TGT	p.S189C	MDM1_uc010stc.1_Intron|MDM1_uc009zqv.1_5'UTR|MDM1_uc001sua.3_3'UTR|MDM1_uc010std.1_3'UTR	NM_017440	NP_059136	Q8TC05	MDM1_HUMAN	mouse Mdm1 nuclear protein homolog isoform 1	189						nucleus				ovary(3)|skin(2)	5			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000174)		TTGATATTCAGAATTTCTCAA	0.368													56	302	---	---	---	---	PASS	C	68719288	C	C	68719288	3	2	156	1	0	0	0	0	1	0	0	0	9412	942	33	2	1622	2	MDM1	12	68719288	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2077507	68719288	65132607	435	55699										
KCNMB4	27345	broad.mit.edu	37	chr12	70794109	70794109	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttacttgctattttaatcaaCatcaaaggtaagtcaatatt	4	6	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:70794109C>T	uc001svx.2	+	2	910	c.457C>T	c.(457-459)CAT>TAT	p.H153Y		NM_014505	NP_055320	Q86W47	KCMB4_HUMAN	calcium-activated potassium channel beta 4	153	Extracellular (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of neurotransmitter secretion|regulation of vasoconstriction|synaptic transmission	voltage-gated potassium channel complex	calcium-activated potassium channel activity|protein binding				0	Renal(347;0.236)		Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			TTTTAATCAACATCAAAGGTA	0.358													42	263	---	---	---	---	PASS	T	70794109	T	T	70794109	3	4	156	1	0	0	0	0	1	0	0	0	8077	478	17	3	463	3	KCNMB4	12	70794109	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2074821	70794109	63057786	436	55700										
PTPRR	5801	broad.mit.edu	37	chr12	71155346	71155346	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttcctcagagggcagagcatCagaaattcctgtttttcggt	10	9	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:71155346C>G	uc001swi.1	-	4	948	c.532G>C	c.(532-534)GAT>CAT	p.D178H	PTPRR_uc010stq.1_Missense_Mutation_p.D66H	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	178	Extracellular (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		GGCAGAGCATCAGAAATTCCT	0.353													38	244	---	---	---	---	PASS	G	71155346	G	G	71155346	3	3	156	1	0	0	0	0	1	0	0	0	12810	826	29	2	1485	2	PTPRR	12	71155346	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	361237	71155346	62696549	437	55701										
GLIPR1L2	144321	broad.mit.edu	37	chr12	75804346	75804346	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttggtgaaaatatgtgggtcGgccctgaaaatgaatttact	11	5	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:75804346G>A	uc001sxr.1	+	2	375	c.367G>A	c.(367-369)GGC>AGC	p.G123S	GLIPR1L2_uc001sxp.1_Missense_Mutation_p.G123S|GLIPR1L2_uc001sxq.1_Missense_Mutation_p.G16S	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	123						integral to membrane				ovary(1)	1						TATGTGGGTCGGCCCTGAAAA	0.353													42	102	---	---	---	---	PASS	A	75804346	A	A	75804346	3	1	156	1	0	0	0	0	1	0	0	0	6443	1116	39	1	373	1	GLIPR1L2	12	75804346	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	4649000	75804346	58047549	438	55702										
NAV3	89795	broad.mit.edu	37	chr12	78400273	78400273	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccagtactgctgggcagcctCctgcctctgccatcccttct	8	18	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:78400273C>T	uc001syp.2	+	8	1128	c.955C>T	c.(955-957)CCT>TCT	p.P319S	NAV3_uc001syo.2_Missense_Mutation_p.P319S	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	319						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TGGGCAGCCTCCTGCCTCTGC	0.507										HNSCC(70;0.22)			16	90	---	---	---	---	PASS	T	78400273	T	T	78400273	3	4	156	1	0	0	0	0	1	0	0	0	10185	855	30	2	985	2	NAV3	12	78400273	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2595927	78400273	55451622	439	55703										
PPFIA2	8499	broad.mit.edu	37	chr12	81675160	81675160	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctgaggtaaccccaagctggGaagccattcatttccaatcc	8	13	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:81675160G>C	uc001szo.1	-	27	3249	c.3088C>G	c.(3088-3090)CCC>GCC	p.P1030A	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	929										ovary(3)|lung(2)|pancreas(1)	6						CCCAAGCTGGGAAGCCATTCA	0.393													6	151	---	---	---	---	PASS	C	81675160	C	C	81675160	3	2	156	1	0	0	0	0	1	0	0	0	12310	1174	41	2	709	2	PPFIA2	12	81675160	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3274887	81675160	52176735	440	55704										
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100452393	100452393	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	taccactgggctcacactttCagaaacaggagacttaagag	9	10	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:100452393C>T	uc001tgq.2	-	14	2891	c.2662G>A	c.(2662-2664)GAA>AAA	p.E888K	UHRF1BP1L_uc001tgp.2_Missense_Mutation_p.E538K	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	888										ovary(2)	2						CTCACACTTTCAGAAACAGGA	0.363													13	144	---	---	---	---	PASS	T	100452393	T	T	100452393	3	4	156	1	0	0	0	0	1	0	0	0	16966	835	29	2	1764	2	UHRF1BP1L	12	100452393	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	18777233	100452393	33399502	441	55705										
SCYL2	55681	broad.mit.edu	37	chr12	100732771	100732771	+	Missense_Mutation	SNP	C	A	A													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggcttaatcagtttgtacctCctcaaggttctccaactatg							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:100732771C>A	uc001thn.2	+	18	2661	c.2611C>A	c.(2611-2613)CCT>ACT	p.P871T		NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein	871	Necessary for interaction with AP2 complex and clathrin, interaction with clathrin is necessary for its targeting to the TGN and endosomal membranes.				endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						GTTTGTACCTCCTCAAGGTTC	0.433													26	439	---	---	---	---	PASS	A	100732771	A	A	100732771	3	1	156	1	0	0	0	0	1	0	0	0	13948	855	30	2	2677	2	SCYL2	12	100732771	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	280378	100732771	33119124	442	55706	994	2								
SCYL2	55681	broad.mit.edu	37	chr12	100732772	100732772	+	Missense_Mutation	SNP	C	T	T													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcttaatcagtttgtacctcCtcaaggttctccaactatgg							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:100732772C>T	uc001thn.2	+	18	2662	c.2612C>T	c.(2611-2613)CCT>CTT	p.P871L		NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein	871	Necessary for interaction with AP2 complex and clathrin, interaction with clathrin is necessary for its targeting to the TGN and endosomal membranes.				endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						TTTGTACCTCCTCAAGGTTCT	0.428													24	434	---	---	---	---	PASS	T	100732772	T	T	100732772	3	4	156	1	0	0	0	0	1	0	0	0	13948	681	24	3	2678	3	SCYL2	12	100732772	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1	100732772	33119123	443	55707	994	2								
NR1H4	9971	broad.mit.edu	37	chr12	100897181	100897181	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	taagaatggtaatgcagtttCaggggttagaaaatccaatt	10	4	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:100897181C>T	uc001tht.1	+	1	44	c.16C>T	c.(16-18)CAG>TAG	p.Q6*	NR1H4_uc001thp.1_Intron|NR1H4_uc001thq.1_Intron|NR1H4_uc010svj.1_Intron|NR1H4_uc001thr.1_Intron|NR1H4_uc010svk.1_Intron|NR1H4_uc001ths.1_Nonsense_Mutation_p.Q6*	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	6					bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						AATGCAGTTTCAGGGGTTAGA	0.428													9	30	---	---	---	---	PASS	T	100897181	T	T	100897181	4	4	156	1	0	0	0	0	0	1	0	0	10619	841	29	2		2	NR1H4	12	100897181	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	164409	100897181	32954714	444	55708										
SLC5A8	160728	broad.mit.edu	37	chr12	101587418	101587418	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cttacttccagaaatttaatCttccaccatcataggcatca	3	12	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:101587418C>A	uc001thz.3	-	5	1067	c.677G>T	c.(676-678)AGA>ATA	p.R226I		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	226	Extracellular (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						GAAATTTAATCTTCCACCATC	0.353													77	191	---	---	---	---	PASS	A	101587418	A	A	101587418	3	1	156	1	0	0	0	0	1	0	0	0	14671	913	32	2	1199	2	SLC5A8	12	101587418	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	690237	101587418	32264477	445	55709										
UTP20	27340	broad.mit.edu	37	chr12	101684541	101684541	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	taattttgcgaaagctaggaCcagtcactgaaacagaaact	8	8	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:101684541C>A	uc001tia.1	+	8	922	c.766C>A	c.(766-768)CCA>ACA	p.P256T	UTP20_uc009ztz.1_Missense_Mutation_p.P256T	NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	256					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						AAAGCTAGGACCAGTCACTGA	0.373													16	144	---	---	---	---	PASS	A	101684541	A	A	101684541	3	1	156	1	0	0	0	0	1	0	0	0	17096	507	18	3	796	3	UTP20	12	101684541	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	97123	101684541	32167354	446	55710										
UTP20	27340	broad.mit.edu	37	chr12	101685877	101685877	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccctcatcaaagaaaccataGaaaaagtaatttacttcaac	3	10	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:101685877G>C	uc001tia.1	+	10	1324	c.1168G>C	c.(1168-1170)GAA>CAA	p.E390Q		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	390					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						AGAAACCATAGAAAAAGTAat	0.239													7	195	---	---	---	---	PASS	C	101685877	C	C	101685877	3	2	156	1	0	0	0	0	1	0	0	0	17096	943	33	2	1206	2	UTP20	12	101685877	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1336	101685877	32166018	447	55711										
MYBPC1	4604	broad.mit.edu	37	chr12	101988866	101988866	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gccatgccagaacccactaaGaaagagggtaagacttatct	9	10	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:101988866G>T	uc001tii.2	+	1	120	c.18G>T	c.(16-18)AAG>AAT	p.K6N	MYBPC1_uc001tif.1_Missense_Mutation_p.K6N|MYBPC1_uc001tig.2_Missense_Mutation_p.K6N|MYBPC1_uc010svq.1_Missense_Mutation_p.K6N|MYBPC1_uc001tih.2_Missense_Mutation_p.K6N|MYBPC1_uc001tij.2_Missense_Mutation_p.K6N|MYBPC1_uc010svr.1_Missense_Mutation_p.K6N|MYBPC1_uc010svs.1_Missense_Mutation_p.K6N|MYBPC1_uc010svt.1_Missense_Mutation_p.K6N|MYBPC1_uc010svu.1_Missense_Mutation_p.K6N|MYBPC1_uc001tik.2_Missense_Mutation_p.K6N	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	6					cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						AACCCACTAAGAAAGAGGGTA	0.373													7	78	---	---	---	---	PASS	T	101988866	T	T	101988866	3	4	156	1	0	0	0	0	1	0	0	0	10011	933	33	2	20	2	MYBPC1	12	101988866	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	302989	101988866	31863029	448	55712										
C12orf42	374470	broad.mit.edu	37	chr12	103695942	103695942	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggcctgtgaacaaaccgtatGgaaacgccgggttgggcggg	17	9	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:103695942G>A	uc001tjt.2	-	6	1115	c.1027C>T	c.(1027-1029)CAT>TAT	p.H343Y	C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Missense_Mutation_p.H343Y|C12orf42_uc001tju.2_Missense_Mutation_p.H248Y	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	343										ovary(1)|central_nervous_system(1)	2						CAAACCGTATGGAAACGCCGG	0.572													58	165	---	---	---	---	PASS	A	103695942	A	A	103695942	3	1	156	1	0	0	0	0	1	0	0	0	1688	1348	47	3	59	3	C12orf42	12	103695942	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1707076	103695942	30155953	449	55713										
TXNRD1	7296	broad.mit.edu	37	chr12	104721446	104721446	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctctatgcaggttccactgtCaaggtgagtgttgtgcttgt	12	8	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:104721446C>G	uc010swk.1	+	13	1561	c.1539C>G	c.(1537-1539)GTC>GTG	p.V513V	TXNRD1_uc010swl.1_Silent_p.V363V|TXNRD1_uc010swm.1_Silent_p.V415V|TXNRD1_uc010swn.1_Silent_p.V363V|TXNRD1_uc010swo.1_Silent_p.V363V|TXNRD1_uc010swp.1_Silent_p.V325V|TXNRD1_uc010swq.1_Silent_p.V413V|TXNRD1_uc001tku.2_RNA|TXNRD1_uc009zun.2_Silent_p.V429V	NM_001093771	NP_001087240	Q16881	TRXR1_HUMAN	thioredoxin reductase 1 isoform 3	513					cell redox homeostasis|cellular lipid metabolic process|electron transport chain|nucleobase, nucleoside and nucleotide interconversion|signal transduction|transport	cytosol|nucleolus	electron carrier activity|flavin adenine dinucleotide binding|NADP binding|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity				0						GTTCCACTGTCAAGGTGAGTG	0.478													13	85	---	---	---	---	PASS	G	104721446	G	G	104721446	2	3	156	1	0	0	0	0	0	0	0	1	16804	813	29	2		2	TXNRD1	12	104721446	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1025504	104721446	29130449	450	55714										
RIC8B	55188	broad.mit.edu	37	chr12	107236590	107236590	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	attttatggagaagagaataGacaaggtaaggctgataaaa	11	2	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:107236590G>C	uc001tlx.2	+	5	1185	c.1060G>C	c.(1060-1062)GAC>CAC	p.D354H	RIC8B_uc001tlw.2_Missense_Mutation_p.D354H|RIC8B_uc001tly.2_Missense_Mutation_p.D314H|RIC8B_uc001tlz.2_RNA|RIC8B_uc009zur.2_RNA	NM_018157	NP_060627	Q9NVN3	RIC8B_HUMAN	resistance to inhibitors of cholinesterase 8	354					regulation of G-protein coupled receptor protein signaling pathway	cell cortex|cytosol|plasma membrane	G-protein alpha-subunit binding|guanyl-nucleotide exchange factor activity			ovary(1)	1						GAAGAGAATAGACAAGGTAAG	0.358													9	86	---	---	---	---	PASS	C	107236590	C	C	107236590	3	2	156	1	0	0	0	0	1	0	0	0	13356	942	33	2	1078	2	RIC8B	12	107236590	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2515144	107236590	26615305	451	55715										
RPH3A	22895	broad.mit.edu	37	chr12	113314523	113314523	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggagtcgggggctacccagcAgttggagccagagaggaccg	18	10	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:113314523A>G	uc010syl.1	+	13	1385	c.1023A>G	c.(1021-1023)GCA>GCG	p.A341A	RPH3A_uc001ttz.2_Silent_p.A341A|RPH3A_uc001tty.2_Silent_p.A337A|RPH3A_uc009zwe.1_Silent_p.A337A|RPH3A_uc010sym.1_Silent_p.A292A|RPH3A_uc001tua.2_Silent_p.A101A	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	341	Pro-rich.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		GCTACCCAGCAGTTGGAGCCA	0.667													26	111	---	---	---	---	PASS	G	113314523	G	G	113314523	2	3	156	1	0	0	0	0	0	0	0	1	13551	175	7	5		5	RPH3A	12	113314523	Silent	SNP	A	TCGA-66-2773-01A-01D-1267-08	6077933	113314523	20537372	452	55716										
TBX5	6910	broad.mit.edu	37	chr12	114841587	114841587	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaggcggcctgcggggacgaCggggacttgctgggggcccc	20	12	0	0	rs149030937		TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:114841587C>T	uc001tvo.2	-	2	612	c.117G>A	c.(115-117)CCG>CCA	p.P39P	TBX5_uc001tvp.2_Silent_p.P39P|TBX5_uc001tvq.2_Intron|TBX5_uc010syv.1_Silent_p.P39P	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	39				GFGLAHTPLEPDAKDLPCDSKPESALGAPSKSPSSPQAAFT QQ -> ALAGAHLWSLTQKTCLRFEPRARSGPPASPPGRPR SRLHPA (in Ref. 1; CAA70592).	cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		GCGGGGACGACGGGGACTTGC	0.647													32	168	---	---	---	---	PASS	T	114841587	T	T	114841587	2	4	156	1	0	0	0	0	0	0	0	1	15658	523	19	1		1	TBX5	12	114841587	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1527064	114841587	19010308	453	55717										
FBXO21	23014	broad.mit.edu	37	chr12	117595836	117595836	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gccccgtgctgccccgggtcTagggtttggatgtgctggag	17	11	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:117595836T>A	uc001twk.2	-	10	1419	c.1380A>T	c.(1378-1380)CTA>CTT	p.L460L	FBXO21_uc001twj.2_Silent_p.L453L|FBXO21_uc009zwq.2_Silent_p.L393L|FBXO21_uc001twl.1_Silent_p.L73L	NM_033624	NP_296373	O94952	FBX21_HUMAN	F-box only protein 21 isoform 1	460					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			kidney(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		GCCCCGGGTCTAGGGTTTGGA	0.527													239	548	---	---	---	---	PASS	A	117595836	A	A	117595836	2	1	156	1	0	0	0	0	0	0	0	1	5733	1509	53	5		5	FBXO21	12	117595836	Silent	SNP	T	TCGA-66-2773-01A-01D-1267-08	2754249	117595836	16256059	454	55718										
KSR2	283455	broad.mit.edu	37	chr12	117963025	117963025	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcatcatggacctcttcattCtgtggccggagtgggagaga	13	9	5	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:117963025C>T	uc001two.2	-	14	1820	c.1765_splice	c.e14-1	p.N589_splice		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2						intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CCTCTTCATTCTGTGGCCGGA	0.612													3	43	---	---	---	---	PASS	T	117963025	T	T	117963025	5	4	156	1	0	0	0	0	0	0	1	0	8582	927	32	2	1029	2	KSR2	12	117963025	Splice_Site	SNP	C	TCGA-66-2773-01A-01D-1267-08	367189	117963025	15888870	455	55719										
SCARB1	949	broad.mit.edu	37	chr12	125299563	125299563	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gatgtagtcgctctccgagcCgtgggacttggagggctgga	17	9	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:125299563C>T	uc001ugo.3	-	3	635	c.382G>A	c.(382-384)GGC>AGC	p.G128S	SCARB1_uc001ugn.3_Missense_Mutation_p.G128S|SCARB1_uc001ugm.3_Missense_Mutation_p.G128S|SCARB1_uc010tbd.1_Missense_Mutation_p.G128S|SCARB1_uc010tbe.1_Missense_Mutation_p.G87S|SCARB1_uc001ugp.3_Missense_Mutation_p.G128S	NM_005505	NP_005496	Q8WTV0	SCRB1_HUMAN	scavenger receptor class B, member 1 isoform 1	128	Extracellular (Potential).				adhesion to symbiont|cell adhesion|cholesterol efflux|cholesterol homeostasis|cholesterol import|detection of lipopolysaccharide|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|lipopolysaccharide transport|lipoprotein metabolic process|positive regulation of cholesterol storage|positive regulation of endothelial cell migration|positive regulation of nitric-oxide synthase activity|recognition of apoptotic cell|reverse cholesterol transport|triglyceride homeostasis|wound healing	caveola	1-phosphatidylinositol binding|apolipoprotein A-I binding|high-density lipoprotein particle receptor activity|lipopolysaccharide receptor activity|low-density lipoprotein particle binding|phosphatidylserine binding|transporter activity			kidney(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000116)|Epithelial(86;0.000415)|all cancers(50;0.00395)	Phosphatidylserine(DB00144)	CTCTCCGAGCCGTGGGACTTG	0.602													30	92	---	---	---	---	PASS	T	125299563	T	T	125299563	3	4	156	1	0	0	0	0	1	0	0	0	13881	652	23	1	1311	1	SCARB1	12	125299563	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	7336538	125299563	8552332	456	55720										
DHX37	57647	broad.mit.edu	37	chr12	125470744	125470744	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gacaggggaggggctttggtCttctttttcttcttccccgg	13	10	4	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:125470744C>T	uc001ugy.2	-	2	273	c.174G>A	c.(172-174)AAG>AAA	p.K58K		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	58							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		GGGCTTTGGTCTTCTTTTTCT	0.483													17	364	---	---	---	---	PASS	T	125470744	T	T	125470744	2	4	156	1	0	0	0	0	0	0	0	1	4510	912	32	2		2	DHX37	12	125470744	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	171181	125470744	8381151	457	55721										
ANKLE2	23141	broad.mit.edu	37	chr12	133327418	133327418	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caatgcttcctttttattttCataaacatagatcctttctg	3	9	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr12:133327418C>T	uc001ukx.2	-	3	725	c.658G>A	c.(658-660)GAA>AAA	p.E220K	ANKLE2_uc001uky.3_Missense_Mutation_p.E158K	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	220						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		TTTTTATTTTCATAAACATAG	0.413													28	192	---	---	---	---	PASS	T	133327418	T	T	133327418	3	4	156	1	0	0	0	0	1	0	0	0	633	835	29	2	2202	2	ANKLE2	12	133327418	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	7856674	133327418	524477	458	55722										
PARP4	143	broad.mit.edu	37	chr13	25008870	25008870	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcctaaggttggcagtcaaaGaggctgcggaaggttgaaaa	15	6	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr13:25008870G>A	uc001upl.2	-	31	4515	c.4409C>T	c.(4408-4410)TCT>TTT	p.S1470F		NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	1470					cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		GGCAGTCAAAGAGGCTGCGGA	0.493													8	48	---	---	---	---	PASS	A	25008870	A	A	25008870	3	1	156	1	0	0	0	0	1	0	0	0	11463	942	33	2	781	2	PARP4	13	25008870	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08		25008870	90161008	459	55723										
MYCBP2	23077	broad.mit.edu	37	chr13	77636830	77636830	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agggatgcgagagcaagccaGagctgttgaaagggaaggct	17	6	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr13:77636830G>A	uc001vkf.2	-	75	12652	c.12561C>T	c.(12559-12561)CTC>CTT	p.L4187L	MYCBP2_uc010aev.2_Silent_p.L3591L|MYCBP2_uc001vke.2_Silent_p.L804L	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	4187					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GAGCAAGCCAGAGCTGTTGAA	0.458													6	89	---	---	---	---	PASS	A	77636830	A	A	77636830	2	1	156	1	0	0	0	0	0	0	0	1	10018	929	33	2		2	MYCBP2	13	77636830	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	52627960	77636830	37533048	460	55724										
NDFIP2	54602	broad.mit.edu	37	chr13	80117783	80117783	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggtgctatctgcggatttgGcctttccttgatcaaatgga	11	8	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr13:80117783G>T	uc001vlf.2	+	5	886	c.806G>T	c.(805-807)GGC>GTC	p.G269V	NDFIP2_uc010tib.1_Missense_Mutation_p.G249V|NDFIP2_uc001vlg.2_Intron	NM_019080	NP_061953	Q9NV92	NFIP2_HUMAN	Nedd4 family interacting protein 2 isoform 1	269	Helical; (Potential).				negative regulation of gene expression|negative regulation of protein transport|negative regulation of transporter activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of protein ubiquitination	endoplasmic reticulum|Golgi membrane|integral to membrane|mitochondrion|multivesicular body membrane|perinuclear region of cytoplasm	signal transducer activity|WW domain binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.205)		GBM - Glioblastoma multiforme(99;0.0196)		TGCGGATTTGGCCTTTCCTTG	0.383													58	150	---	---	---	---	PASS	T	80117783	T	T	80117783	3	4	156	1	0	0	0	0	1	0	0	0	10246	1203	42	3	824	3	NDFIP2	13	80117783	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2480953	80117783	35052095	461	55725										
SLITRK5	26050	broad.mit.edu	37	chr13	88329220	88329220	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	catgccctcaggcgtcttctCtggcttgaccctcctcaggc	9	17	4	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr13:88329220C>G	uc001vln.2	+	2	1796	c.1577C>G	c.(1576-1578)TCT>TGT	p.S526C	SLITRK5_uc010tic.1_Missense_Mutation_p.S285C	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	526	Extracellular (Potential).|LRR 11.					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GGCGTCTTCTCTGGCTTGACC	0.527													21	252	---	---	---	---	PASS	G	88329220	G	G	88329220	3	3	156	1	0	0	0	0	1	0	0	0	14746	913	32	2	1579	2	SLITRK5	13	88329220	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	8211437	88329220	26840658	462	55726										
UGGT2	55757	broad.mit.edu	37	chr13	96592233	96592233	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttctttcttcatcatatttaGaatgaattcccaaaatatcc	2	9	4	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr13:96592233G>C	uc001vmt.2	-	16	1960	c.1790C>G	c.(1789-1791)TCT>TGT	p.S597C		NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	597					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						ATCATATTTAGAATGAATTCC	0.214													7	67	---	---	---	---	PASS	C	96592233	C	C	96592233	3	2	156	1	0	0	0	0	1	0	0	0	16939	942	33	2	2856	2	UGGT2	13	96592233	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	8263013	96592233	18577645	463	55727										
OXGR1	27199	broad.mit.edu	37	chr13	97639159	97639159	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcagctaatggtctagaaacGatgtaagcttcatggatctg	11	7	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr13:97639159G>A	uc001vmx.1	-	4	1099	c.855C>T	c.(853-855)ATC>ATT	p.I285I	OXGR1_uc010afr.1_Silent_p.I285I	NM_080818	NP_543008	Q96P68	OXGR1_HUMAN	oxoglutarate (alpha-ketoglutarate) receptor 1	285	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.186)			GTCTAGAAACGATGTAAGCTT	0.433													32	169	---	---	---	---	PASS	A	97639159	A	A	97639159	2	1	156	1	0	0	0	0	0	0	0	1	11332	1048	37	2		2	OXGR1	13	97639159	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1046926	97639159	17530719	464	55728										
FARP1	10160	broad.mit.edu	37	chr13	99092981	99092981	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agaggatgacctgagcgcctCgcgcacatcgctggagcgcc	14	14	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr13:99092981C>T	uc001vnj.2	+	24	3023	c.2687C>T	c.(2686-2688)TCG>TTG	p.S896L	FARP1_uc001vnh.2_Missense_Mutation_p.S927L	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	896					regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			CTGAGCGCCTCGCGCACATCG	0.627													8	160	---	---	---	---	PASS	T	99092981	T	T	99092981	3	4	156	1	0	0	0	0	1	0	0	0	5676	893	31	2	3000	2	FARP1	13	99092981	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1453822	99092981	16076897	465	55729										
MYO16	23026	broad.mit.edu	37	chr13	109793494	109793494	+	Frame_Shift_Del	DEL	C	-	-													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcacccaaagccaaactctgCccccgtggccgggccctgca							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr13:109793494delC	uc001vqt.1	+	32	4994	c.4868delC	c.(4867-4869)GCCfs	p.A1623fs	MYO16_uc010agk.1_Frame_Shift_Del_p.A1645fs	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1623	Pro-rich.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			CCAAACTCTGCCCCCGTGGCC	0.716													29	43	---	---	---	---		-	109793494	-	-	109793494	7	5	156	1	0	1	0	1	0	0	0	0	10064	739	26	0	4990	0	MYO16	13	109793494	Frame_Shift_Del	DEL	C	TCGA-66-2773-01A-01D-1267-08	10700513	109793494	5376384	466	55730										
TMCO3	55002	broad.mit.edu	37	chr13	114193756	114193756	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcagggccccgtggtcaccGaggagatcgccacctccatc	11	17	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr13:114193756G>A	uc001vtu.3	+	10	1985	c.1624G>A	c.(1624-1626)GAG>AAG	p.E542K		NM_017905	NP_060375	Q6UWJ1	TMCO3_HUMAN	transmembrane and coiled-coil domains 3	542						integral to membrane	solute:hydrogen antiporter activity				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0145)|all_epithelial(44;0.00286)|all_lung(25;0.0273)|Breast(118;0.0411)|Lung NSC(25;0.0983)	all cancers(43;0.0317)			CGTGGTCACCGAGGAGATCGC	0.577													30	153	---	---	---	---	PASS	A	114193756	A	A	114193756	3	1	156	1	0	0	0	0	1	0	0	0	15994	1059	37	2	1658	2	TMCO3	13	114193756	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	4400262	114193756	976122	467	55731										
PARP2	10038	broad.mit.edu	37	chr14	20825306	20825306	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caggactgctgctcttatcaGaggtgagacaggagtatgtc	13	8	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:20825306G>A	uc001vxc.2	+	14	1493	c.1465G>A	c.(1465-1467)GAG>AAG	p.E489K	PARP2_uc001vxd.2_Missense_Mutation_p.E476K|PARP2_uc001vxb.1_Missense_Mutation_p.E489K|PARP2_uc010tle.1_Missense_Mutation_p.E239K	NM_005484	NP_005475	Q9UGN5	PARP2_HUMAN	poly (ADP-ribose) polymerase family, member 2	489	PARP catalytic.				protein ADP-ribosylation	nucleolus|nucleoplasm	DNA binding|NAD+ ADP-ribosyltransferase activity			ovary(1)|pancreas(1)	2	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;5.34e-07)|all cancers(55;3.7e-06)	GBM - Glioblastoma multiforme(265;0.00888)|READ - Rectum adenocarcinoma(17;0.0649)		GCTCTTATCAGAGGTGAGACA	0.423								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					33	92	---	---	---	---	PASS	A	20825306	A	A	20825306	3	1	156	1	0	0	0	0	1	0	0	0	11461	943	33	2	1519	2	PARP2	14	20825306	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08		20825306	86524234	468	55732										
NOVA1	4857	broad.mit.edu	37	chr14	26917321	26917321	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aattctccttttttggagatCtgtatccttgcaccagtcaa	6	10	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:26917321C>A	uc001wpy.2	-	5	1686	c.1368G>T	c.(1366-1368)CAG>CAT	p.Q456H	NOVA1_uc001wpz.2_Missense_Mutation_p.Q432H|NOVA1_uc001wqa.2_Missense_Mutation_p.Q334H	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	459	KH 3.				locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		TTTTGGAGATCTGTATCCTTG	0.428													31	44	---	---	---	---	PASS	A	26917321	A	A	26917321	3	1	156	1	0	0	0	0	1	0	0	0	10554	912	32	2	159	2	NOVA1	14	26917321	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	6092015	26917321	80432219	469	55733										
AKAP6	9472	broad.mit.edu	37	chr14	33014486	33014486	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gactcaggacaattaaccatCaaatgttctcaaaattactt	4	9	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:33014486C>G	uc001wrq.2	+	4	797	c.627C>G	c.(625-627)ATC>ATG	p.I209M	AKAP6_uc010aml.2_Missense_Mutation_p.I206M	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	209					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		AATTAACCATCAAATGTTCTC	0.423													36	164	---	---	---	---	PASS	G	33014486	G	G	33014486	3	3	156	1	0	0	0	0	1	0	0	0	455	816	29	2	637	2	AKAP6	14	33014486	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	6097165	33014486	74335054	470	55734										
AKAP6	9472	broad.mit.edu	37	chr14	33014756	33014756	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaggtatctcaagtatctctCtcagtagacgacaaaggtgg	11	8	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:33014756C>T	uc001wrq.2	+	4	1067	c.897C>T	c.(895-897)CTC>CTT	p.L299L	AKAP6_uc010aml.2_Silent_p.L296L	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	299					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		AAGTATCTCTCTCAGTAGACG	0.478													6	141	---	---	---	---	PASS	T	33014756	T	T	33014756	2	4	156	1	0	0	0	0	0	0	0	1	455	900	32	2		2	AKAP6	14	33014756	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	270	33014756	74334784	471	55735										
BAZ1A	11177	broad.mit.edu	37	chr14	35262092	35262092	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caattcacacagtgggccttCactgtcatttcctacaagag	7	12	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:35262092C>T	uc001wsk.2	-	12	1967	c.1399G>A	c.(1399-1401)GAA>AAA	p.E467K	BAZ1A_uc001wsl.2_Missense_Mutation_p.E467K	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	467	DDT.				chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		AGTGGGCCTTCACTGTCATTT	0.378													27	90	---	---	---	---	PASS	T	35262092	T	T	35262092	3	4	156	1	0	0	0	0	1	0	0	0	1329	835	29	2	3335	2	BAZ1A	14	35262092	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2247336	35262092	72087448	472	55736										
LRFN5	145581	broad.mit.edu	37	chr14	42356068	42356068	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atgaccagcttggtggacctGactctatccaggaatacaat	9	10	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:42356068G>T	uc001wvm.2	+	3	1438	c.240G>T	c.(238-240)CTG>CTT	p.L80L	LRFN5_uc010ana.2_Silent_p.L80L	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	80	Extracellular (Potential).|LRR 2.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TGGTGGACCTGACTCTATCCA	0.378										HNSCC(30;0.082)			31	59	---	---	---	---	PASS	T	42356068	T	T	42356068	2	4	156	1	0	0	0	0	0	0	0	1	8941	1277	45	2		2	LRFN5	14	42356068	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	7093976	42356068	64993472	473	55737										
NID2	22795	broad.mit.edu	37	chr14	52526897	52526897	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caagctgaaatatggtccttCtgacttcagatcatcagcct	7	11	4	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:52526897C>G	uc001wzo.2	-	3	946	c.712G>C	c.(712-714)GAA>CAA	p.E238Q	NID2_uc010tqs.1_Missense_Mutation_p.E238Q|NID2_uc010tqt.1_Missense_Mutation_p.E238Q|NID2_uc001wzp.2_Missense_Mutation_p.E238Q	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	238	NIDO.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					TATGGTCCTTCTGACTTCAGA	0.473													8	84	---	---	---	---	PASS	G	52526897	G	G	52526897	3	3	156	1	0	0	0	0	1	0	0	0	10415	922	32	2	3495	2	NID2	14	52526897	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	10170829	52526897	54822643	474	55738										
PLEKHG3	26030	broad.mit.edu	37	chr14	65198834	65198834	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccaagacagtggaggagaaaCggaactggactcaccacatc	11	11	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:65198834C>T	uc001xho.1	+	10	1416	c.1147C>T	c.(1147-1149)CGG>TGG	p.R383W	PLEKHG3_uc001xhn.1_Missense_Mutation_p.R327W|PLEKHG3_uc001xhp.2_Missense_Mutation_p.R383W|PLEKHG3_uc010aqh.1_Translation_Start_Site	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	383	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GGAGGAGAAACGGAACTGGAC	0.557													14	152	---	---	---	---	PASS	T	65198834	T	T	65198834	3	4	156	1	0	0	0	0	1	0	0	0	12070	527	19	1	1005	1	PLEKHG3	14	65198834	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	12671937	65198834	42150706	475	55739										
MPP5	64398	broad.mit.edu	37	chr14	67787014	67787014	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	catcagccagcaaataggaaGagacctatcatcttgattgg	9	9	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:67787014G>A	uc001xjc.2	+	12	1903	c.1437G>A	c.(1435-1437)AAG>AAA	p.K479K	MPP5_uc001xjd.2_Silent_p.K445K|ATP6V1D_uc001xje.2_Intron	NM_022474	NP_071919	Q8N3R9	MPP5_HUMAN	membrane protein, palmitoylated 5	479	Guanylate kinase-like.				tight junction assembly	cytoplasm|endomembrane system|tight junction	protein domain specific binding			ovary(1)	1				all cancers(60;0.000388)|OV - Ovarian serous cystadenocarcinoma(108;0.00762)|BRCA - Breast invasive adenocarcinoma(234;0.0106)		CAAATAGGAAGAGACCTATCA	0.413													32	129	---	---	---	---	PASS	A	67787014	A	A	67787014	2	1	156	1	0	0	0	0	0	0	0	1	9737	933	33	2		2	MPP5	14	67787014	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	2588180	67787014	39562526	476	55740										
MAP3K9	4293	broad.mit.edu	37	chr14	71227771	71227771	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggcccggatgacttcgggtgCcatccaagcatacgtccctg	12	14	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:71227771C>T	uc001xmm.2	-	3	949	c.949G>A	c.(949-951)GCA>ACA	p.A317T	MAP3K9_uc010ttk.1_Missense_Mutation_p.A54T|MAP3K9_uc001xmk.2_Missense_Mutation_p.A11T|MAP3K9_uc001xml.2_Missense_Mutation_p.A317T	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	317	Protein kinase.				activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		ACTTCGGGTGCCATCCAAGCA	0.552													43	90	---	---	---	---	PASS	T	71227771	T	T	71227771	3	4	156	1	0	0	0	0	1	0	0	0	9257	739	26	3	2451	3	MAP3K9	14	71227771	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3440757	71227771	36121769	477	55741										
C14orf174	161394	broad.mit.edu	37	chr14	77845400	77845400	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttgagcatcttaattgggatCcagaggaagttgcagagtgg	14	5	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:77845400C>G	uc001xtq.1	+	1	1639	c.1639C>G	c.(1639-1641)CCA>GCA	p.P547A	TMED8_uc010ast.1_5'Flank|TMED8_uc001xto.1_5'Flank	NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	547	SAM.										0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		TAATTGGGATCCAGAGGAAGT	0.423													26	146	---	---	---	---	PASS	G	77845400	G	G	77845400	3	3	156	1	0	0	0	0	1	0	0	0	1759	855	30	2	1641	2	C14orf174	14	77845400	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	6617629	77845400	29504140	478	55742										
TSHR	7253	broad.mit.edu	37	chr14	81610460	81610460	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	attttcaccaaggccttccaGagggatgtgttcatcctact	8	11	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:81610460G>C	uc001xvd.1	+	10	2214	c.2058G>C	c.(2056-2058)CAG>CAC	p.Q686H		NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	686	Cytoplasmic (Potential).				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	AGGCCTTCCAGAGGGATGTGT	0.478			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						25	383	---	---	---	---	PASS	C	81610460	C	C	81610460	3	2	156	1	0	0	0	0	1	0	0	0	16619	933	33	2	2233	2	TSHR	14	81610460	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3765060	81610460	25739080	479	55743										
CPSF2	53981	broad.mit.edu	37	chr14	92624038	92624038	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	catagactatgaaggacgctCtgatggggattccattaaaa	10	7	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:92624038C>T	uc001yah.1	+	13	1868	c.1631C>T	c.(1630-1632)TCT>TTT	p.S544F		NM_017437	NP_059133	Q9P2I0	CPSF2_HUMAN	cleavage and polyadenylation specific factor 2	544					histone mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	hydrolase activity|protein binding|RNA binding			ovary(2)	2		all_cancers(154;0.0766)		COAD - Colon adenocarcinoma(157;0.222)		GAAGGACGCTCTGATGGGGAT	0.393													11	43	---	---	---	---	PASS	T	92624038	T	T	92624038	3	4	156	1	0	0	0	0	1	0	0	0	3825	913	32	2	1673	2	CPSF2	14	92624038	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	11013578	92624038	14725502	480	55744										
DICER1	23405	broad.mit.edu	37	chr14	95557681	95557681	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aatatcctcttctttctcttCatcctcctcagatctcctaa	1	15	6	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:95557681C>T	uc001ydw.2	-	26	5568	c.5386G>A	c.(5386-5388)GAA>AAA	p.E1796K	DICER1_uc010avh.1_Missense_Mutation_p.E694K|DICER1_uc001ydv.2_Missense_Mutation_p.E1786K|DICER1_uc001ydx.2_Missense_Mutation_p.E1796K	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1796	RNase III 2.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		TCTTTCTCTTCATCCTCCTCA	0.438			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				21	266	---	---	---	---	PASS	T	95557681	T	T	95557681	3	4	156	1	0	0	0	0	1	0	0	0	4521	835	29	2	394	2	DICER1	14	95557681	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2933643	95557681	11791859	481	55745										
SETD3	84193	broad.mit.edu	37	chr14	99872906	99872906	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acactcacagcggtcatcttCcaggttgtaaccagtagtga	9	11	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr14:99872906C>T	uc001ygc.2	-	9	1041	c.871G>A	c.(871-873)GAA>AAA	p.E291K		NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	291	SET.				peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				CGGTCATCTTCCAGGTTGTAA	0.532													20	78	---	---	---	---	PASS	T	99872906	T	T	99872906	3	4	156	1	0	0	0	0	1	0	0	0	14132	864	30	2	933	2	SETD3	14	99872906	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4315225	99872906	7476634	482	55746										
OR4M2	390538	broad.mit.edu	37	chr15	22368834	22368834	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaatgctcatagacttctttGtggagaggaagataatttct	9	5	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:22368834G>T	uc010tzu.1	+	1	259	c.259G>T	c.(259-261)GTG>TTG	p.V87L	LOC727924_uc001yua.2_RNA|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		AGACTTCTTTGTGGAGAGGAA	0.438													138	652	---	---	---	---	PASS	T	22368834	T	T	22368834	3	4	156	1	0	0	0	0	1	0	0	0	11076	1377	48	3	261	3	OR4M2	15	22368834	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08		22368834	80162558	483	55747										
TUBGCP5	114791	broad.mit.edu	37	chr15	22840318	22840318	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcaaacagcagttatgtggaGacaccaagaaataaagaagt	9	6	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:22840318G>A	uc001yur.3	+	4	514	c.384G>A	c.(382-384)GAG>GAA	p.E128E	TUBGCP5_uc001yuq.2_Silent_p.E128E	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	128					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		GTTATGTGGAGACACCAAGAA	0.328													20	149	---	---	---	---	PASS	A	22840318	A	A	22840318	2	1	156	1	0	0	0	0	0	0	0	1	16766	933	33	2		2	TUBGCP5	15	22840318	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	471484	22840318	79691074	484	55748										
OCA2	4948	broad.mit.edu	37	chr15	28273169	28273169	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcccaagactcttcagcagtGatgaactctggatggtaaac	9	10	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:28273169G>A	uc001zbh.3	-	4	473	c.363C>T	c.(361-363)ATC>ATT	p.I121I	OCA2_uc010ayv.2_Silent_p.I121I	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	121	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		CTTCAGCAGTGATGAACTCTG	0.507									Oculocutaneous_Albinism				56	477	---	---	---	---	PASS	A	28273169	A	A	28273169	2	1	156	1	0	0	0	0	0	0	0	1	10815	1280	45	2		2	OCA2	15	28273169	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	5432851	28273169	74258223	485	55749										
HERC2	8924	broad.mit.edu	37	chr15	28460911	28460911	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaccccagcgtgcaccagctCcggtgttgctccctgtacac	9	17	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:28460911C>G	uc001zbj.2	-	39	6172	c.6066G>C	c.(6064-6066)CGG>CGC	p.R2022R		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2022					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TGCACCAGCTCCGGTGTTGCT	0.562													11	105	---	---	---	---	PASS	G	28460911	G	G	28460911	2	3	156	1	0	0	0	0	0	0	0	1	7058	842	30	2		2	HERC2	15	28460911	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	187742	28460911	74070481	486	55750										
EXD1	161829	broad.mit.edu	37	chr15	41476221	41476221	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaccacagtctttctgatagGataaaaagtgtcacttggag	9	7	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:41476221G>C	uc001znk.2	-	10	1644	c.1453C>G	c.(1453-1455)CCT>GCT	p.P485A	EXD1_uc001znj.2_Missense_Mutation_p.P283A|EXD1_uc010ucv.1_Missense_Mutation_p.P543A	NM_152596	NP_689809	Q8NHP7	EXD1_HUMAN	exonuclease 3'-5' domain containing 1	485					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding			ovary(1)	1						TTTCTGATAGGATAAAAAGTG	0.443													11	266	---	---	---	---	PASS	C	41476221	C	C	41476221	3	2	156	1	0	0	0	0	1	0	0	0	5297	1174	41	2	95	2	EXD1	15	41476221	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	13015310	41476221	61055171	487	55751										
RPAP1	26015	broad.mit.edu	37	chr15	41822154	41822154	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	catgtgcagccattctttctGaggggtcacgggcaatgcca	12	11	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:41822154G>A	uc001zod.2	-	8	1091	c.967C>T	c.(967-969)CAG>TAG	p.Q323*		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	323						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		CATTCTTTCTGAGGGGTCACG	0.592													6	97	---	---	---	---	PASS	A	41822154	A	A	41822154	4	1	156	1	0	0	0	0	0	1	0	0	13541	1299	45	2	3286	2	RPAP1	15	41822154	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	345933	41822154	60709238	488	55752										
JMJD7-PLA2G4B	8681	broad.mit.edu	37	chr15	42137191	42137191	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggtaccggcaggagctggccGagcgtgcccgcttgggctac	17	13	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:42137191G>A	uc010bco.2	+	13	1263	c.1162G>A	c.(1162-1164)GAG>AAG	p.E388K	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.E619K|JMJD7-PLA2G4B_uc010bcn.2_Missense_Mutation_p.E619K|JMJD7-PLA2G4B_uc001zoq.3_Missense_Mutation_p.E89K|JMJD7-PLA2G4B_uc001zor.1_Missense_Mutation_p.E89K	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	388	PLA2c.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						GGAGCTGGCCGAGCGTGCCCG	0.572													5	21	---	---	---	---	PASS	A	42137191	A	A	42137191	3	1	156	1	0	0	0	0	1	0	0	0	7955	1059	37	2	1925	2	JMJD7-PLA2G4B	15	42137191	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	315037	42137191	60394201	489	55753										
TRIM69	140691	broad.mit.edu	37	chr15	45047286	45047286	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aacttctgtgaagcctgtatCcaagacttttggaggctgca	10	9	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:45047286C>G	uc001zuf.2	+	3	1090	c.195C>G	c.(193-195)ATC>ATG	p.I65M	TRIM69_uc001zui.1_Intron|TRIM69_uc010bdy.1_Intron|TRIM69_uc001zug.1_Missense_Mutation_p.I65M|TRIM69_uc001zuh.1_Intron	NM_182985	NP_892030	Q86WT6	TRI69_HUMAN	tripartite motif-containing 69 isoform a	65	Necessary for nuclear localization (By similarity).|RING-type.				apoptosis	nuclear speck	zinc ion binding				0		all_cancers(109;2.47e-13)|all_epithelial(112;2.84e-11)|Lung NSC(122;2.23e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;5.5e-19)|GBM - Glioblastoma multiforme(94;1.07e-06)|Colorectal(105;0.138)|COAD - Colon adenocarcinoma(120;0.141)		AAGCCTGTATCCAAGACTTTT	0.448													15	296	---	---	---	---	PASS	G	45047286	G	G	45047286	3	3	156	1	0	0	0	0	1	0	0	0	16539	845	30	2	201	2	TRIM69	15	45047286	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2910095	45047286	57484106	490	55754										
DUOXA2	405753	broad.mit.edu	37	chr15	45408348	45408348	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acttcagtgcagaatggttcGtgggtacagtgaacaccaac	11	9	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:45408348G>A	uc001zuo.2	+	3	512	c.232G>A	c.(232-234)GTG>ATG	p.V78M	DUOX2_uc010bea.2_5'Flank|DUOX2_uc001zun.2_5'Flank|DUOXA2_uc010beb.2_RNA	NM_207581	NP_997464	Q1HG44	DOXA2_HUMAN	dual oxidase activator 2	78	Extracellular (Potential).				protein transport	endoplasmic reticulum membrane|integral to membrane					0		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;2.88e-18)|GBM - Glioblastoma multiforme(94;3.95e-07)|COAD - Colon adenocarcinoma(120;0.0652)|Colorectal(133;0.0659)		AGAATGGTTCGTGGGTACAGT	0.557													18	675	---	---	---	---	PASS	A	45408348	A	A	45408348	3	1	156	1	0	0	0	0	1	0	0	0	4803	1145	40	1	242	1	DUOXA2	15	45408348	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	361062	45408348	57123044	491	55755										
SECISBP2L	9728	broad.mit.edu	37	chr15	49284821	49284821	+	Missense_Mutation	SNP	T	A	A													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtgctggtggtgctggtgaTggaggaattcaaaagatctc							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:49284821T>A	uc001zxe.1	-	18	3060	c.2926A>T	c.(2926-2928)ATC>TTC	p.I976F	SECISBP2L_uc001zxd.1_Missense_Mutation_p.I931F	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	976										breast(1)|skin(1)	2						GTGCTGGTGATGGAGGAATTC	0.393													33	120	---	---	---	---	PASS	A	49284821	A	A	49284821	3	1	156	1	0	0	0	0	1	0	0	0	14007	1464	51	5	383	5	SECISBP2L	15	49284821	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	3876473	49284821	53246571	492	55756	995	2								
SECISBP2L	9728	broad.mit.edu	37	chr15	49284823	49284823	+	Missense_Mutation	SNP	G	A	A													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgctggtggtgctggtgatgGaggaattcaaaagatctcgg							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:49284823G>A	uc001zxe.1	-	18	3058	c.2924C>T	c.(2923-2925)TCC>TTC	p.S975F	SECISBP2L_uc001zxd.1_Missense_Mutation_p.S930F	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	975										breast(1)|skin(1)	2						GCTGGTGATGGAGGAATTCAA	0.393													33	121	---	---	---	---	PASS	A	49284823	A	A	49284823	3	1	156	1	0	0	0	0	1	0	0	0	14007	1174	41	2	385	2	SECISBP2L	15	49284823	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2	49284823	53246569	493	55757	995	2								
DMXL2	23312	broad.mit.edu	37	chr15	51828946	51828946	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atcccctcctggtgtaacagCgtgtggtgagaatcttttgt	11	9	1	1	rs148694560		TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:51828946C>A	uc002abf.2	-	12	1956	c.1731G>T	c.(1729-1731)ACG>ACT	p.T577T	DMXL2_uc010ufy.1_Silent_p.T577T|DMXL2_uc010bfa.2_Silent_p.T577T	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	577						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		GGTGTAACAGCGTGTGGTGAG	0.458													48	147	---	---	---	---	PASS	A	51828946	A	A	51828946	2	1	156	1	0	0	0	0	0	0	0	1	4595	755	27	1		1	DMXL2	15	51828946	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	2544123	51828946	50702446	494	55758										
UNC13C	440279	broad.mit.edu	37	chr15	54306253	54306253	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttgtgtactttgaaacccctCaacaaagggattctgtctta	7	9	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:54306253C>G	uc002ack.2	+	1	1153	c.1153C>G	c.(1153-1155)CAA>GAA	p.Q385E		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	385					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TGAAACCCCTCAACAAAGGGA	0.383													6	94	---	---	---	---	PASS	G	54306253	G	G	54306253	3	3	156	1	0	0	0	0	1	0	0	0	16983	827	29	2	1155	2	UNC13C	15	54306253	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2477307	54306253	48225139	495	55759										
RNF111	54778	broad.mit.edu	37	chr15	59373224	59373224	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcagactcagcctccgcctCaagtggattatgttattcct	7	13	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:59373224C>G	uc002afv.2	+	8	2317	c.2038C>G	c.(2038-2040)CAA>GAA	p.Q680E	RNF111_uc002afs.2_Missense_Mutation_p.Q680E|RNF111_uc002aft.2_Missense_Mutation_p.Q680E|RNF111_uc002afu.2_Missense_Mutation_p.Q679E|RNF111_uc002afw.2_Missense_Mutation_p.Q680E|RNF111_uc002afx.2_Missense_Mutation_p.Q206E	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	680	Pro-rich.				multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		GCCTCCGCCTCAAGTGGATTA	0.488													35	324	---	---	---	---	PASS	G	59373224	G	G	59373224	3	3	156	1	0	0	0	0	1	0	0	0	13425	827	29	2	2064	2	RNF111	15	59373224	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	5066971	59373224	43158168	496	55760										
VPS13C	54832	broad.mit.edu	37	chr15	62173948	62173948	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caacttattttattttacctGaatctaaagcaatagatttt	3	6	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:62173948G>A	uc002agz.2	-	70	9778	c.9704C>T	c.(9703-9705)TCA>TTA	p.S3235L	VPS13C_uc002aha.2_Missense_Mutation_p.S3192L|VPS13C_uc002ahb.1_Missense_Mutation_p.S3235L|VPS13C_uc002ahc.1_Missense_Mutation_p.S3192L	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	3235					protein localization					ovary(2)	2						TATTTTACCTGAATCTAAAGC	0.299													6	58	---	---	---	---	PASS	A	62173948	A	A	62173948	3	1	156	1	0	0	0	0	1	0	0	0	17188	1294	45	2	1649	2	VPS13C	15	62173948	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2800724	62173948	40357444	497	55761										
LACTB	114294	broad.mit.edu	37	chr15	63433984	63433984	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgaagattgcccttgaatttGataaagacagatcagactga	9	6	1	8			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:63433984G>C	uc002alw.2	+	6	1663	c.1624G>C	c.(1624-1626)GAT>CAT	p.D542H		NM_032857	NP_116246	P83111	LACTB_HUMAN	lactamase, beta isoform a	542						mitochondrion	hydrolase activity				0						CCTTGAATTTGATAAAGACAG	0.353													9	114	---	---	---	---	PASS	C	63433984	C	C	63433984	3	2	156	1	0	0	0	0	1	0	0	0	8597	1290	45	2	1650	2	LACTB	15	63433984	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1260036	63433984	39097408	498	55762										
IQCH	64799	broad.mit.edu	37	chr15	67571822	67571822	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	accccaaagacagcacagttCatctctgcctgtctttccaa	5	15	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:67571822C>T	uc002aqo.1	+	4	406	c.359C>T	c.(358-360)TCA>TTA	p.S120L	IQCH_uc010ujv.1_5'UTR|IQCH_uc002aqn.1_Intron|IQCH_uc002aqq.1_Intron|IQCH_uc002aqp.1_Intron|IQCH_uc002aqm.2_Missense_Mutation_p.S120L	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	120										skin(3)|ovary(1)	4				Colorectal(3;0.0856)		CAGCACAGTTCATCTCTGCCT	0.274													28	123	---	---	---	---	PASS	T	67571822	T	T	67571822	3	4	156	1	0	0	0	0	1	0	0	0	7811	838	29	2	373	2	IQCH	15	67571822	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4137838	67571822	34959570	499	55763										
ISLR	3671	broad.mit.edu	37	chr15	74467562	74467562	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggagcgacctgcacaacctCagtgccctccaattgctcaa	8	15	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:74467562C>T	uc002axg.1	+	2	645	c.363C>T	c.(361-363)CTC>CTT	p.L121L	ISLR_uc002axh.1_Silent_p.L121L	NM_005545	NP_005536	O14498	ISLR_HUMAN	immunoglobulin superfamily containing	121	LRR 3.				cell adhesion	extracellular region				large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						TGCACAACCTCAGTGCCCTCC	0.622													20	160	---	---	---	---	PASS	T	74467562	T	T	74467562	2	4	156	1	0	0	0	0	0	0	0	1	7858	813	29	2		2	ISLR	15	74467562	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	6895740	74467562	28063830	500	55764										
CSPG4	1464	broad.mit.edu	37	chr15	75974642	75974642	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttgggcccttacctctgcctGagtgaagttcaccagggcct	11	13	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:75974642G>C	uc002baw.2	-	8	5035	c.4942C>G	c.(4942-4944)CAG>GAG	p.Q1648E		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1648	Extracellular (Potential).|Cysteine-containing.|Neurite growth inhibition (By similarity).|CSPG 11.				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						ACCTCTGCCTGAGTGAAGTTC	0.652													22	235	---	---	---	---	PASS	C	75974642	C	C	75974642	3	2	156	1	0	0	0	0	1	0	0	0	3960	1299	45	2	2038	2	CSPG4	15	75974642	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1507080	75974642	26556750	501	55765										
ETFA	2108	broad.mit.edu	37	chr15	76576104	76576104	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaaaataactttacctgcagCatgtagttgatctgccaagt	8	8	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:76576104C>A	uc002bbt.2	-	8	808	c.727G>T	c.(727-729)GCT>TCT	p.A243S	ETFA_uc010bkq.1_Missense_Mutation_p.A194S|ETFA_uc002bbu.1_Missense_Mutation_p.A243S	NM_000126	NP_000117	P13804	ETFA_HUMAN	electron transfer flavoprotein, alpha	243					respiratory electron transport chain|transport	mitochondrial matrix	electron carrier activity|flavin adenine dinucleotide binding|oxidoreductase activity				0						TTACCTGCAGCATGTAGTTGA	0.318													6	83	---	---	---	---	PASS	A	76576104	A	A	76576104	3	1	156	1	0	0	0	0	1	0	0	0	5269	710	25	3	294	3	ETFA	15	76576104	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	601462	76576104	25955288	502	55766										
ADAMTS7	11173	broad.mit.edu	37	chr15	79063573	79063573	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaacacgggcggcgggacctCgtcgtggccacctgcctccc	14	17	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:79063573C>T	uc002bej.3	-	16	2660	c.2449G>A	c.(2449-2451)GAG>AAG	p.E817K	ADAMTS7_uc010und.1_Intron|ADAMTS7_uc002bek.1_3'UTR	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	817					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						GGCGGGACCTCGTCGTGGCCA	0.667													5	38	---	---	---	---	PASS	T	79063573	T	T	79063573	3	4	156	1	0	0	0	0	1	0	0	0	271	893	31	2	2647	2	ADAMTS7	15	79063573	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2487469	79063573	23467819	503	55767										
ALPK3	57538	broad.mit.edu	37	chr15	85383195	85383195	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agcgaaagcggcgattgagcGgggctcaagcgccgggcccc	17	13	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:85383195G>A	uc002ble.2	+	5	1458	c.1291G>A	c.(1291-1293)GGG>AGG	p.G431R		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	431					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GCGATTGAGCGGGGCTCAAGC	0.677													5	71	---	---	---	---	PASS	A	85383195	A	A	85383195	3	1	156	1	0	0	0	0	1	0	0	0	546	1116	39	1	1309	1	ALPK3	15	85383195	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	6319622	85383195	17148197	504	55768										
AKAP13	11214	broad.mit.edu	37	chr15	86284642	86284642	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gagcgactgcgtgctgcccaGaaacagcttgagagggaaca	14	10	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:86284642G>C	uc002blv.1	+	35	8144	c.7974G>C	c.(7972-7974)CAG>CAC	p.Q2658H	AKAP13_uc002blu.1_Missense_Mutation_p.Q2662H|AKAP13_uc002blw.1_Missense_Mutation_p.Q1123H|AKAP13_uc002blx.1_Missense_Mutation_p.Q903H	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2658	Interaction with ESR1.|Potential.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						GTGCTGCCCAGAAACAGCTTG	0.627													23	144	---	---	---	---	PASS	C	86284642	C	C	86284642	3	2	156	1	0	0	0	0	1	0	0	0	449	933	33	2	8178	2	AKAP13	15	86284642	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	901447	86284642	16246750	505	55769										
C15orf42	90381	broad.mit.edu	37	chr15	90138667	90138667	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agacagaagatgaataccatGtgccgttccttaaagatgtt	9	7	0	5			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:90138667G>T	uc002boe.2	+	7	1725	c.1725G>T	c.(1723-1725)ATG>ATT	p.M575I		NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	575					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			TGAATACCATGTGCCGTTCCT	0.488													40	112	---	---	---	---	PASS	T	90138667	T	T	90138667	3	4	156	1	0	0	0	0	1	0	0	0	1796	1377	48	3	1751	3	C15orf42	15	90138667	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3854025	90138667	12392725	506	55770										
PLIN1	5346	broad.mit.edu	37	chr15	90210935	90210935	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcctcctcctgggcggctgcGaggctgtgcagccagggtac	15	14	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:90210935G>A	uc010upx.1	-	7	971	c.861C>T	c.(859-861)CTC>CTT	p.L287L	PLIN1_uc002boh.2_Silent_p.L287L	NM_001145311	NP_001138783	O60240	PLIN1_HUMAN	perilipin 1	287					triglyceride catabolic process	lipid particle	lipid binding			central_nervous_system(1)|skin(1)	2						GGGCGGCTGCGAGGCTGTGCA	0.423													3	26	---	---	---	---	PASS	A	90210935	A	A	90210935	2	1	156	1	0	0	0	0	0	0	0	1	12089	1045	37	2		2	PLIN1	15	90210935	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	72268	90210935	12320457	507	55771										
AP3S2	10239	broad.mit.edu	37	chr15	90378816	90378816	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttgatgttccgaggaatctcTggcaggttgatgtttttcac	11	7	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:90378816T>C	uc002boq.3	-	6	949	c.513A>G	c.(511-513)CCA>CCG	p.P171P	AP3S2_uc002bos.3_Silent_p.P372P|AP3S2_uc010bns.2_RNA|AP3S2_uc002bor.3_RNA|AP3S2_uc010bnt.2_RNA	NM_005829	NP_005820	P59780	AP3S2_HUMAN	adaptor-related protein complex 3, sigma 2	171					intracellular protein transport|vesicle-mediated transport	cytoplasmic vesicle membrane|Golgi apparatus|membrane coat	protein transporter activity				0	Lung NSC(78;0.0181)|all_lung(78;0.0384)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.223)			GAGGAATCTCTGGCAGGTTGA	0.483													148	330	---	---	---	---	PASS	C	90378816	C	C	90378816	2	2	156	1	0	0	0	0	0	0	0	1	750	1567	55	5		5	AP3S2	15	90378816	Silent	SNP	T	TCGA-66-2773-01A-01D-1267-08	167881	90378816	12152576	508	55772										
CRTC3	64784	broad.mit.edu	37	chr15	91181992	91181992	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atctttgaccaacttcttccCagatgtgggttttgaccagc	8	11	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:91181992C>G	uc002bpp.2	+	13	1599	c.1493C>G	c.(1492-1494)CCA>CGA	p.P498R	CRTC3_uc002bpo.2_Missense_Mutation_p.P498R	NM_022769	NP_073606	Q6UUV7	CRTC3_HUMAN	transducer of regulated CREB protein 3 isoform	498					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus			CRTC3/MAML2(26)	salivary_gland(26)|ovary(1)	27	Melanoma(11;0.00551)|Lung NSC(78;0.0931)|all_lung(78;0.163)		BRCA - Breast invasive adenocarcinoma(143;0.0745)			AACTTCTTCCCAGATGTGGGT	0.522			T	MAML2	salivary gland mucoepidermoid								27	345	---	---	---	---	PASS	G	91181992	G	G	91181992	3	3	156	1	0	0	0	0	1	0	0	0	3901	594	21	4	1543	4	CRTC3	15	91181992	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	803176	91181992	11349400	509	55773										
C15orf32	145858	broad.mit.edu	37	chr15	93015580	93015580	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tagcccttgttggggtgttgCacccattttacagatcaaac	9	10	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:93015580C>A	uc002brc.1	+	1	674	c.202C>A	c.(202-204)CAC>AAC	p.H68N	C15orf32_uc010bod.1_RNA	NM_153040	NP_694585	Q32M92	CO032_HUMAN	hypothetical protein LOC145858	68								p.H68Y(1)		ovary(1)	1	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0493)|OV - Ovarian serous cystadenocarcinoma(32;0.125)			TGGGGTGTTGCAcccatttta	0.333													79	214	---	---	---	---	PASS	A	93015580	A	A	93015580	3	1	156	1	0	0	0	0	1	0	0	0	1790	710	25	3	204	3	C15orf32	15	93015580	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1833588	93015580	9515812	510	55774										
MEF2A	4205	broad.mit.edu	37	chr15	100214787	100214787	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaaatgtgtctcctggagctCctcagagaccaccaagtact	9	12	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr15:100214787C>T	uc010urw.1	+	5	945	c.586C>T	c.(586-588)CCT>TCT	p.P196S	MEF2A_uc010urv.1_Missense_Mutation_p.P126S|MEF2A_uc010bos.2_Missense_Mutation_p.P194S|MEF2A_uc002bvf.2_Missense_Mutation_p.P196S|MEF2A_uc002bve.2_Missense_Mutation_p.P194S|MEF2A_uc002bvg.2_Missense_Mutation_p.P194S|MEF2A_uc002bvi.2_Missense_Mutation_p.P194S|MEF2A_uc010bot.2_Missense_Mutation_p.P126S	NM_005587	NP_005578	Q02078	MEF2A_HUMAN	myocyte enhancer factor 2A isoform 1	196					apoptosis|BMK cascade|cardiac conduction|cellular response to calcium ion|dendrite morphogenesis|innate immune response|mitochondrial genome maintenance|mitochondrion distribution|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|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|ventricular cardiac myofibril development	nuclear chromatin|nucleoplasm	activating transcription factor binding|histone acetyltransferase binding|histone deacetylase binding|protein heterodimerization activity|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|SMAD binding			ovary(1)	1	Lung NSC(78;0.00335)|all_lung(78;0.00659)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00085)			TCCTGGAGCTCCTCAGAGACC	0.433													52	307	---	---	---	---	PASS	T	100214787	T	T	100214787	3	4	156	1	0	0	0	0	1	0	0	0	9455	855	30	2	736	2	MEF2A	15	100214787	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	7199207	100214787	2316605	511	55775										
BAIAP3	8938	broad.mit.edu	37	chr16	1398482	1398482	+	Nonstop_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtgcatggaggcggacccctGagtccatcagctgccagccc	13	15	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:1398482G>C	uc002clk.1	+	34	3563	c.3563G>C	c.(3562-3564)TGA>TCA	p.*1188S	BAIAP3_uc002clj.2_Nonstop_Mutation_p.*1170S|BAIAP3_uc010uuz.1_Nonstop_Mutation_p.*1153S|BAIAP3_uc010uva.1_Nonstop_Mutation_p.*1125S|BAIAP3_uc010uvc.1_Nonstop_Mutation_p.*1117S	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	1188					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				GCGGACCCCTGAGTCCATCAG	0.642													4	33	---	---	---	---	PASS	C	1398482	C	C	1398482	4	2	156	1	0	0	0	0	0	0	0	0	1304	1285	45	2	3697	2	BAIAP3	16	1398482	Nonstop_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08		1398482	88956271	512	55776										
C16orf91	283951	broad.mit.edu	37	chr16	1470348	1470348	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tctcaaccactggtccgcctCgctctcctccctcaggtagc	7	19	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:1470348C>T	uc002clr.2	-	2	319	c.298G>A	c.(298-300)GAG>AAG	p.E100K	C16orf91_uc010uvd.1_Missense_Mutation_p.E257K	NM_001010878	NP_001010878	Q4G0I0	CSMT1_HUMAN	hypothetical protein LOC283951	100	Cytoplasmic (Potential).					integral to membrane					0						TGGTCCGCCTCGCTCTCCTCC	0.612													74	308	---	---	---	---	PASS	T	1470348	T	T	1470348	3	4	156	1	0	0	0	0	1	0	0	0	1844	893	31	2	307	2	C16orf91	16	1470348	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	71866	1470348	88884405	513	55777										
CRAMP1L	57585	broad.mit.edu	37	chr16	1706267	1706267	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gagggggctgccctaagcttGagcagcccggacgctcctga	15	13	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:1706267G>C	uc010uvh.1	+	9	1509	c.1509G>C	c.(1507-1509)TTG>TTC	p.L503F	CRAMP1L_uc002cmf.2_Intron	NM_020825	NP_065876	Q96RY5	CRML_HUMAN	Crm, cramped-like	503				L -> S (in Ref. 4; BAA92664).		nucleus	DNA binding				0						CCCTAAGCTTGAGCAGCCCGG	0.697													6	35	---	---	---	---	PASS	C	1706267	C	C	1706267	3	2	156	1	0	0	0	0	1	0	0	0	3846	1281	45	2	1543	2	CRAMP1L	16	1706267	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	235919	1706267	88648486	514	55778										
PDILT	204474	broad.mit.edu	37	chr16	20395969	20395969	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acacacaagcaccattacctTtgcagctgatgggctctgac	8	13	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:20395969T>A	uc002dhc.1	-	3	630	c.407A>T	c.(406-408)AAA>ATA	p.K136I		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	136					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						ACCATTACCTTTGCAGCTGAT	0.313													27	395	---	---	---	---	PASS	A	20395969	A	A	20395969	3	1	156	1	0	0	0	0	1	0	0	0	11674	1841	64	5	1387	5	PDILT	16	20395969	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	18689702	20395969	69958784	515	55779										
ACSM2B	348158	broad.mit.edu	37	chr16	20554476	20554476	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cccgctggagttaatgatatCatctgcccgtcccataaact	7	13	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:20554476C>T	uc002dhj.3	-	12	1600	c.1390G>A	c.(1390-1392)GAT>AAT	p.D464N	ACSM2B_uc002dhk.3_Missense_Mutation_p.D464N|ACSM2B_uc010bwf.1_Missense_Mutation_p.D464N	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	464					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						TTAATGATATCATCTGCCCGT	0.507													71	782	---	---	---	---	PASS	T	20554476	T	T	20554476	3	4	156	1	0	0	0	0	1	0	0	0	184	826	29	2	359	2	ACSM2B	16	20554476	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	158507	20554476	69800277	516	55780										
ACSM3	6296	broad.mit.edu	37	chr16	20788787	20788787	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caaactgcattatcaccaatGatgttttagccccagcagta	6	11	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:20788787G>C	uc002dhr.2	+	4	710	c.523G>C	c.(523-525)GAT>CAT	p.D175H	ACSM3_uc002dhq.2_Missense_Mutation_p.D175H|ACSM3_uc010vba.1_Missense_Mutation_p.D167H	NM_005622	NP_005613	Q53FZ2	ACSM3_HUMAN	SA hypertension-associated homolog isoform 1	175					regulation of blood pressure	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			ovary(1)	1						TATCACCAATGATGTTTTAGC	0.453													27	110	---	---	---	---	PASS	C	20788787	C	C	20788787	3	2	156	1	0	0	0	0	1	0	0	0	185	1290	45	2	533	2	ACSM3	16	20788787	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	234311	20788787	69565966	517	55781										
OTOA	146183	broad.mit.edu	37	chr16	21693107	21693107	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cacagagtcctggcctatctGaattcccggaatgttgcctt	9	12	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:21693107G>C	uc002djh.2	+	5	229	c.228G>C	c.(226-228)CTG>CTC	p.L76L	uc002diq.3_Intron|OTOA_uc010vbj.1_5'Flank	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	76					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		TGGCCTATCTGAATTCCCGGA	0.512													9	139	---	---	---	---	PASS	C	21693107	C	C	21693107	2	2	156	1	0	0	0	0	0	0	0	1	11302	1277	45	2		2	OTOA	16	21693107	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	904320	21693107	68661646	518	55782										
SCNN1G	6340	broad.mit.edu	37	chr16	23226587	23226587	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aacaggctcccccatgtccaGaagctccccgtagcccacag	8	18	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:23226587G>T	uc002dlm.1	+	13	1886	c.1747G>T	c.(1747-1749)GAA>TAA	p.E583*		NM_001039	NP_001030	P51170	SCNNG_HUMAN	sodium channel, nonvoltage-gated 1, gamma	583	Cytoplasmic (By similarity).				excretion|sensory perception of taste	apical plasma membrane|integral to plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(48;0.0366)	Amiloride(DB00594)|Triamterene(DB00384)	CCCATGTCCAGAAGCTCCCCG	0.572													9	218	---	---	---	---	PASS	T	23226587	T	T	23226587	4	4	156	1	0	0	0	0	0	1	0	0	13930	943	33	2	1793	2	SCNN1G	16	23226587	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1533480	23226587	67128166	519	55783										
ARHGAP17	55114	broad.mit.edu	37	chr16	24980063	24980063	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agctcgagagccagctgattCtcagcatctccacacgtctc	8	15	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:24980063C>G	uc002dnb.2	-	5	396	c.303G>C	c.(301-303)GAG>GAC	p.E101D	ARHGAP17_uc002dnc.2_Missense_Mutation_p.E101D|ARHGAP17_uc010vcf.1_Intron|ARHGAP17_uc002dnf.2_Missense_Mutation_p.E9D|ARHGAP17_uc002dng.1_Missense_Mutation_p.E101D	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	101	BAR.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		CCAGCTGATTCTCAGCATCTC	0.517													26	161	---	---	---	---	PASS	G	24980063	G	G	24980063	3	3	156	1	0	0	0	0	1	0	0	0	867	912	32	2	2406	2	ARHGAP17	16	24980063	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1753476	24980063	65374690	520	55784										
HS3ST4	9951	broad.mit.edu	37	chr16	26147491	26147491	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atccacagactgaggaaattCtacaaacccttcaacttgat	5	11	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:26147491C>A	uc002dof.2	+	2	1685	c.1293C>A	c.(1291-1293)TTC>TTA	p.F431L		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	431	Lumenal (Potential).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		TGAGGAAATTCTACAAACCCT	0.488													5	39	---	---	---	---	PASS	A	26147491	A	A	26147491	3	1	156	1	0	0	0	0	1	0	0	0	7367	912	32	2	1299	2	HS3ST4	16	26147491	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1167428	26147491	64207262	521	55785										
ZNF689	115509	broad.mit.edu	37	chr16	30616764	30616764	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccattcttctttctggttctGctttctatagaaatacagaa	5	9	5	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:30616764G>A	uc002dyx.2	-	3	644	c.324C>T	c.(322-324)AGC>AGT	p.S108S	ZNF689_uc010bzy.2_5'UTR	NM_138447	NP_612456	Q96CS4	ZN689_HUMAN	zinc finger protein HIT-39	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			TTCTGGTTCTGCTTTCTATAG	0.478													15	310	---	---	---	---	PASS	A	30616764	A	A	30616764	2	1	156	1	0	0	0	0	0	0	0	1	18091	1310	46	3		3	ZNF689	16	30616764	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	4469273	30616764	59737989	522	55786										
SRCAP	10847	broad.mit.edu	37	chr16	30721048	30721048	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	accccctgcttctcgcctggAtgatgaaggtgtgtgttctc	11	12	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:30721048A>T	uc002dze.1	+	7	1233	c.848A>T	c.(847-849)GAT>GTT	p.D283V	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.D140V|SRCAP_uc010bzz.1_5'Flank|SNORA30_uc002dzh.1_5'Flank	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	283					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			TCTCGCCTGGATGATGAAGGT	0.562													28	199	---	---	---	---	PASS	T	30721048	T	T	30721048	3	4	156	1	0	0	0	0	1	0	0	0	15134	333	12	5	866	5	SRCAP	16	30721048	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	104284	30721048	59633705	523	55787										
MYST1	84148	broad.mit.edu	37	chr16	31131554	31131554	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgaacgaccaggagggccgaGaggaattctatgtacactac	12	9	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:31131554G>C	uc002eay.2	+	2	277	c.259G>C	c.(259-261)GAG>CAG	p.E87Q	MYST1_uc002eax.2_Missense_Mutation_p.E87Q	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	87	Chromo.				histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						GGAGGGCCGAGAGGAATTCTA	0.542													14	315	---	---	---	---	PASS	C	31131554	C	C	31131554	3	2	156	1	0	0	0	0	1	0	0	0	10102	943	33	2	265	2	MYST1	16	31131554	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	410506	31131554	59223199	524	55788										
TGFB1I1	7041	broad.mit.edu	37	chr16	31488639	31488639	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcccttccccaggaatgcttCgcgcccttctcgggaggcag	11	16	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:31488639C>T	uc002ecd.1	+	11	1154	c.1128C>T	c.(1126-1128)TTC>TTT	p.F376F	TGFB1I1_uc002ece.1_Silent_p.F359F|TGFB1I1_uc010caq.1_Silent_p.F215F	NM_001042454	NP_001035919	O43294	TGFI1_HUMAN	transforming growth factor beta 1 induced	376	LIM zinc-binding 3.				androgen receptor signaling pathway|cell adhesion|negative regulation of cell proliferation|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|transcription from RNA polymerase II promoter|ubiquitin-dependent SMAD protein catabolic process|Wnt receptor signaling pathway	cytoplasm|cytoskeleton|focal adhesion|nuclear matrix	androgen receptor binding|I-SMAD binding|Roundabout binding|transcription coactivator activity|zinc ion binding				0						AGGAATGCTTCGCGCCCTTCT	0.662													13	46	---	---	---	---	PASS	T	31488639	T	T	31488639	2	4	156	1	0	0	0	0	0	0	0	1	15814	883	31	2		2	TGFB1I1	16	31488639	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	357085	31488639	58866114	525	55789										
ZNF267	10308	broad.mit.edu	37	chr16	31927420	31927420	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caaagcctttagttatagttCagatgttattcagcatcgga	8	7	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:31927420C>G	uc002ecs.3	+	4	2059	c.1850C>G	c.(1849-1851)TCA>TGA	p.S617*		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	617	C2H2-type 11.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						AGTTATAGTTCAGATGTTATT	0.418													8	91	---	---	---	---	PASS	G	31927420	G	G	31927420	4	3	156	1	0	0	0	0	0	1	0	0	17803	838	29	2	1864	2	ZNF267	16	31927420	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	438781	31927420	58427333	526	55790										
ABCC12	94160	broad.mit.edu	37	chr16	48149494	48149494	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gccaggctaatcctctgcctCtgccccccagagaggttgag	11	15	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:48149494C>G	uc002efc.1	-	13	2167	c.1821G>C	c.(1819-1821)CAG>CAC	p.Q607H	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	607	ABC transporter 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TCCTCTGCCTCTGCCCCCCAG	0.642													14	61	---	---	---	---	PASS	G	48149494	G	G	48149494	3	3	156	1	0	0	0	0	1	0	0	0	52	912	32	2	2326	2	ABCC12	16	48149494	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	16222074	48149494	42205259	527	55791										
ABCC11	85320	broad.mit.edu	37	chr16	48204038	48204038	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggagttgcgaagcacagccCtggcaatgcagagcagctgc	14	11	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:48204038C>T	uc002eff.1	-	27	4219	c.3869G>A	c.(3868-3870)AGG>AAG	p.R1290K	ABCC11_uc002efg.1_Missense_Mutation_p.R1290K|ABCC11_uc002efh.1_Intron|ABCC11_uc010cbg.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	1290	ABC transporter 2.|Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				AAGCACAGCCCTGGCAATGCA	0.572									Cerumen_Type				60	201	---	---	---	---	PASS	T	48204038	T	T	48204038	3	4	156	1	0	0	0	0	1	0	0	0	51	681	24	3	291	3	ABCC11	16	48204038	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	54544	48204038	42150715	528	55792										
ZNF423	23090	broad.mit.edu	37	chr16	49669853	49669853	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgcttgctgcggaactccttGaggcacagggcgcacttgta	13	11	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:49669853G>C	uc002efs.2	-	5	3508	c.3210C>G	c.(3208-3210)CTC>CTG	p.L1070L	ZNF423_uc010vgn.1_Silent_p.L953L	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	1070	C2H2-type 25; degenerate.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GGAACTCCTTGAGGCACAGGG	0.657													13	56	---	---	---	---	PASS	C	49669853	C	C	49669853	2	2	156	1	0	0	0	0	0	0	0	1	17895	1277	45	2		2	ZNF423	16	49669853	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1465815	49669853	40684900	529	55793										
RPGRIP1L	23322	broad.mit.edu	37	chr16	53671722	53671722	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcttttccttgctgcattttCtcagtattctcttttacctc	3	12	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:53671722C>G	uc002ehp.2	-	21	3169	c.3105G>C	c.(3103-3105)GAG>GAC	p.E1035D	RPGRIP1L_uc002eho.3_Missense_Mutation_p.E1001D|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.E1035D|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.E1001D|RPGRIP1L_uc010vgz.1_Missense_Mutation_p.E1035D	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	1035					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)				GCTGCATTTTCTCAGTATTCT	0.363													18	212	---	---	---	---	PASS	G	53671722	G	G	53671722	3	3	156	1	0	0	0	0	1	0	0	0	13550	912	32	2	870	2	RPGRIP1L	16	53671722	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4001869	53671722	36683031	530	55794										
IRX3	79191	broad.mit.edu	37	chr16	54319207	54319207	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcctcgtcagtgcggctgcGaggcgcccaagtcatcttat	11	14	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:54319207G>C	uc002eht.1	-	2	1002	c.586C>G	c.(586-588)CGC>GGC	p.R196G		NM_024336	NP_077312	P78415	IRX3_HUMAN	iroquois homeobox 3	196					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GTGCGGCTGCGAGGCGCCCAA	0.517													10	67	---	---	---	---	PASS	C	54319207	C	C	54319207	3	2	156	1	0	0	0	0	1	0	0	0	7845	1058	37	2	931	2	IRX3	16	54319207	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	647485	54319207	36035546	531	55795										
CAPNS2	84290	broad.mit.edu	37	chr16	55601347	55601347	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttcgtgccttcaagtctctgGatagagatagagatggcctg	12	8	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:55601347G>C	uc002eid.1	+	1	764	c.679G>C	c.(679-681)GAT>CAT	p.D227H	LPCAT2_uc002eie.3_Intron|LPCAT2_uc002eic.2_Intron	NM_032330	NP_115706	Q96L46	CPNS2_HUMAN	calpain small subunit 2	227	EF-hand 4.					cytoplasm|plasma membrane	calcium ion binding				0						CAAGTCTCTGGATAGAGATAG	0.463													42	226	---	---	---	---	PASS	C	55601347	C	C	55601347	3	2	156	1	0	0	0	0	1	0	0	0	2634	1174	41	2	681	2	CAPNS2	16	55601347	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1282140	55601347	34753406	532	55796										
TEPP	374739	broad.mit.edu	37	chr16	58010447	58010447	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agggctcgtccacctcccttCctcttctgcccattgagcag	8	17	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:58010447C>T	uc002emw.3	+	1	109	c.72C>T	c.(70-72)TTC>TTT	p.F24F	TEPP_uc002emv.3_Silent_p.F24F	NM_199456	NP_955535	Q6URK8	TEPP_HUMAN	testis/prostate/placenta-expressed protein	24						extracellular region				kidney(1)|central_nervous_system(1)|skin(1)	3						CACCTCCCTTCCTCTTCTGCC	0.512													26	221	---	---	---	---	PASS	T	58010447	T	T	58010447	2	4	156	1	0	0	0	0	0	0	0	1	15757	854	30	2		2	TEPP	16	58010447	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	2409100	58010447	32344306	533	55797										
KIAA0895L	653319	broad.mit.edu	37	chr16	67214260	67214260	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gccggccagtactatttacaGagtaggtgctctcactgcga	11	11	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:67214260G>C	uc002ert.2	-	2	1029	c.254C>G	c.(253-255)TCT>TGT	p.S85C	KIAA0895L_uc002err.2_5'Flank|KIAA0895L_uc002ers.2_5'Flank|KIAA0895L_uc002eru.2_Missense_Mutation_p.S85C|EXOC3L_uc002erv.1_RNA	NM_001040715	NP_001035805	Q68EN5	K895L_HUMAN	hypothetical protein LOC653319	85											0						ACTATTTACAGAGTAGGTGCT	0.697													4	56	---	---	---	---	PASS	C	67214260	C	C	67214260	3	2	156	1	0	0	0	0	1	0	0	0	8198	942	33	2	1185	2	KIAA0895L	16	67214260	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	9203813	67214260	23140493	534	55798										
RLTPR	146206	broad.mit.edu	37	chr16	67688560	67688560	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cgatgatactgctgcctgccGaggaggaggcaacgctgggt	16	10	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:67688560G>T	uc002etn.2	+	31	3667	c.3547G>T	c.(3547-3549)GAG>TAG	p.E1183*	RLTPR_uc010vjr.1_Nonsense_Mutation_p.E1147*	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	1183										breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		GCTGCCTGCCGAGGAGGAGGC	0.652													10	92	---	---	---	---	PASS	T	67688560	T	T	67688560	4	4	156	1	0	0	0	0	0	1	0	0	13394	1059	37	2	3669	2	RLTPR	16	67688560	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	474300	67688560	22666193	535	55799										
PDPR	55066	broad.mit.edu	37	chr16	70187417	70187417	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttgccttctggggtcaggatAtaaataacctcaccacgccc	8	13	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:70187417A>G	uc002eyf.1	+	18	3133	c.2176A>G	c.(2176-2178)ATA>GTA	p.I726V	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.I626V|PDPR_uc002eyg.1_Intron|PDPR_uc002eyh.2_Missense_Mutation_p.I71V|PDPR_uc010vls.1_Missense_Mutation_p.I71V	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	726					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)		GGGTCAGGATATAAATAACCT	0.488													11	69	---	---	---	---	PASS	G	70187417	G	G	70187417	3	3	156	1	0	0	0	0	1	0	0	0	11689	449	16	5	2238	5	PDPR	16	70187417	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	2498857	70187417	20167336	536	55800										
VAT1L	57687	broad.mit.edu	37	chr16	77850897	77850897	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcccctggtgccaggatttGagtgttctgggattgttgaa	13	8	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:77850897G>C	uc002ffg.1	+	2	410	c.313G>C	c.(313-315)GAG>CAG	p.E105Q		NM_020927	NP_065978	Q9HCJ6	VAT1L_HUMAN	vesicle amine transport protein 1 homolog (T.	105							oxidoreductase activity|zinc ion binding			central_nervous_system(1)	1						GCCAGGATTTGAGTGTTCTGG	0.428													20	297	---	---	---	---	PASS	C	77850897	C	C	77850897	3	2	156	1	0	0	0	0	1	0	0	0	17127	1291	45	2	319	2	VAT1L	16	77850897	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	7663480	77850897	12503856	537	55801										
CDT1	81620	broad.mit.edu	37	chr16	88870964	88870964	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcccaccaggtttccagcccCagtacccccgaggccccaga	8	20	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:88870964C>T	uc002flu.2	+	2	294	c.240C>T	c.(238-240)CCC>CCT	p.P80P		NM_030928	NP_112190	Q9H211	CDT1_HUMAN	chromatin licensing and DNA replication factor	80					DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|regulation of DNA-dependent DNA replication initiation|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0476)		TTTCCAGCCCCAGTACCCCCG	0.637													40	103	---	---	---	---	PASS	T	88870964	T	T	88870964	2	4	156	1	0	0	0	0	0	0	0	1	3180	581	21	3		3	CDT1	16	88870964	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	11020067	88870964	1483789	538	55802										
GALNS	2588	broad.mit.edu	37	chr16	88909127	88909127	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gacttacatggcgagcacagAgggttggcagaatagaagtt	14	6	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:88909127A>G	uc002fly.3	-	2	320	c.231T>C	c.(229-231)CCT>CCC	p.P77P	GALNS_uc010cid.2_Silent_p.P83P|GALNS_uc002flz.3_Intron	NM_000512	NP_000503	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfate sulfatase	77			P -> R (in MPS4A; severe form).			lysosome	metal ion binding|N-acetylgalactosamine-4-sulfatase activity|N-acetylgalactosamine-6-sulfatase activity			large_intestine(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0496)	Hyaluronidase(DB00070)	GCGAGCACAGAGGGTTGGCAG	0.637													16	37	---	---	---	---	PASS	G	88909127	G	G	88909127	2	3	156	1	0	0	0	0	0	0	0	1	6206	291	11	5		5	GALNS	16	88909127	Silent	SNP	A	TCGA-66-2773-01A-01D-1267-08	38163	88909127	1445626	539	55803										
ANKRD11	29123	broad.mit.edu	37	chr16	89348549	89348549	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tccttctcgtctctccatttCtccctgtgtttctctctctt	3	16	5	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:89348549C>T	uc002fmx.1	-	9	4862	c.4401G>A	c.(4399-4401)GAG>GAA	p.E1467E	ANKRD11_uc002fmy.1_Silent_p.E1467E|ANKRD11_uc002fnc.1_Silent_p.E1467E|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Silent_p.E1424E	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1467	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		ctctccatttctccctgtgtt	0.388													8	169	---	---	---	---	PASS	T	89348549	T	T	89348549	2	4	156	1	0	0	0	0	0	0	0	1	639	912	32	2		2	ANKRD11	16	89348549	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	439422	89348549	1006204	540	55804										
ANKRD11	29123	broad.mit.edu	37	chr16	89348736	89348736	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgtcagctttcatgttgtaaGaaactccgtaagcatccgcc	8	11	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:89348736G>A	uc002fmx.1	-	9	4675	c.4214C>T	c.(4213-4215)TCT>TTT	p.S1405F	ANKRD11_uc002fmy.1_Missense_Mutation_p.S1405F|ANKRD11_uc002fnc.1_Missense_Mutation_p.S1405F|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Missense_Mutation_p.S1362F	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1405	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CATGTTGTAAGAAACTCCGTA	0.443													17	445	---	---	---	---	PASS	A	89348736	A	A	89348736	3	1	156	1	0	0	0	0	1	0	0	0	639	942	33	2	3797	2	ANKRD11	16	89348736	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	187	89348736	1006017	541	55805										
CPNE7	27132	broad.mit.edu	37	chr16	89655134	89655134	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acccgcggaacagctgctccCtgcactacatcaacccctac	6	19	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr16:89655134C>T	uc002fnp.2	+	12	1334	c.1204C>T	c.(1204-1206)CTG>TTG	p.L402L	CPNE7_uc002fnq.2_Silent_p.L327L	NM_014427	NP_055242	Q9UBL6	CPNE7_HUMAN	copine 7 isoform b	402	VWFA.				lipid metabolic process		transporter activity				0		all_hematologic(23;0.0748)		all cancers(4;3.63e-08)|OV - Ovarian serous cystadenocarcinoma(4;1.7e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0147)		CAGCTGCTCCCTGCACTACAT	0.647													10	80	---	---	---	---	PASS	T	89655134	T	T	89655134	2	4	156	1	0	0	0	0	0	0	0	1	3817	680	24	3		3	CPNE7	16	89655134	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	306398	89655134	699619	542	55806										
OR1E1	8387	broad.mit.edu	37	chr17	3300801	3300801	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cttctgatgaatgactctgcTcagggctcccttcatgtctc	8	13	5	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:3300801T>C	uc002fvj.1	-	1	904	c.904A>G	c.(904-906)AGC>GGC	p.S302G		NM_003553	NP_003544	P30953	OR1E1_HUMAN	olfactory receptor, family 1, subfamily E,	302	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGACTCTGCTCAGGGCTCCC	0.413													59	92	---	---	---	---	PASS	C	3300801	C	C	3300801	3	2	156	1	0	0	0	0	1	0	0	0	10954	1551	54	5	44	5	OR1E1	17	3300801	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08		3300801	77894409	543	55807										
SHPK	23729	broad.mit.edu	37	chr17	3514080	3514080	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcaggttctgaacaatgcctCggcacagagcccgggtcacg	13	13	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:3514080C>T	uc002fvz.1	-	7	1314	c.1211G>A	c.(1210-1212)CGA>CAA	p.R404Q	TRPV1_uc010vru.1_5'Flank	NM_013276	NP_037408	Q9UHJ6	SHPK_HUMAN	carbohydrate kinase-like	404					carbohydrate metabolic process	cytoplasm	ATP binding|sedoheptulokinase activity			ovary(1)	1				COAD - Colon adenocarcinoma(5;0.0828)		AACAATGCCTCGGCACAGAGC	0.637													21	437	---	---	---	---	PASS	T	3514080	T	T	3514080	3	4	156	1	0	0	0	0	1	0	0	0	14290	884	31	2	229	2	SHPK	17	3514080	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	213279	3514080	77681130	544	55808										
ZNF594	84622	broad.mit.edu	37	chr17	5087217	5087217	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tctgatgttcagttaatcctGacttctgtttgaagttttgg	9	6	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:5087217G>C	uc010cla.1	-	2	491	c.335C>G	c.(334-336)TCA>TGA	p.S112*		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	112					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						AGTTAATCCTGACTTCTGTTT	0.358													6	102	---	---	---	---	PASS	C	5087217	C	C	5087217	4	2	156	1	0	0	0	0	0	1	0	0	18021	1294	45	2	2092	2	ZNF594	17	5087217	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1573137	5087217	76107993	545	55809										
MYH8	4626	broad.mit.edu	37	chr17	10297613	10297613	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	actggcatccaggagctcctGttcggcgattttcctgcttc	10	13	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:10297613G>T	uc002gmm.2	-	35	5214	c.5119C>A	c.(5119-5121)CAG>AAG	p.Q1707K	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1707	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						AGGAGCTCCTGTTCGGCGATT	0.567									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				76	118	---	---	---	---	PASS	T	10297613	T	T	10297613	3	4	156	1	0	0	0	0	1	0	0	0	10041	1386	48	3	718	3	MYH8	17	10297613	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5210396	10297613	70897597	546	55810										
LRRC48	83450	broad.mit.edu	37	chr17	17900878	17900878	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caccttcagtgaatgtgtccGtgaggccatccaggaaaacc	10	12	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:17900878G>A	uc010vxd.1	+	10	1308	c.929G>A	c.(928-930)CGT>CAT	p.R310H	LRRC48_uc002gsa.2_Missense_Mutation_p.R310H|LRRC48_uc010vxc.1_Missense_Mutation_p.R310H|LRRC48_uc002gsb.2_Missense_Mutation_p.R310H|LRRC48_uc010vxe.1_RNA	NM_001130090	NP_001123562	Q9H069	LRC48_HUMAN	leucine rich repeat containing 48 isoform a	310						cytoplasm				pancreas(1)	1	all_neural(463;0.228)					GAATGTGTCCGTGAGGCCATC	0.517													7	49	---	---	---	---	PASS	A	17900878	A	A	17900878	3	1	156	1	0	0	0	0	1	0	0	0	9005	1145	40	1	955	1	LRRC48	17	17900878	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	7603265	17900878	63294332	547	55811										
EFCAB5	374786	broad.mit.edu	37	chr17	28380316	28380316	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ataaacttgactgagttgtgGggagacatggataatcagaa	12	4	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:28380316G>A	uc002het.2	+	10	1536	c.1344G>A	c.(1342-1344)TGG>TGA	p.W448*	EFCAB5_uc010wbi.1_Nonsense_Mutation_p.W191*|EFCAB5_uc010wbj.1_Nonsense_Mutation_p.W392*|EFCAB5_uc010wbk.1_Nonsense_Mutation_p.W105*|EFCAB5_uc010csd.2_RNA|EFCAB5_uc010cse.2_Nonsense_Mutation_p.W327*|EFCAB5_uc010csf.2_Nonsense_Mutation_p.W327*	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	448							calcium ion binding			ovary(1)|skin(1)	2						CTGAGTTGTGGGGAGACATGG	0.338													46	285	---	---	---	---	PASS	A	28380316	A	A	28380316	4	1	156	1	0	0	0	0	0	1	0	0	4938	1241	43	3	1382	3	EFCAB5	17	28380316	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	10479438	28380316	52814894	548	55812										
SUZ12	23512	broad.mit.edu	37	chr17	30320965	30320965	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggtgtactctgaactgccgcAaactttatagtttactcaag	8	9	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:30320965A>G	uc002hgs.2	+	12	1597	c.1375A>G	c.(1375-1377)AAA>GAA	p.K459E	SUZ12_uc002hgt.2_Missense_Mutation_p.K436E	NM_015355	NP_056170	Q15022	SUZ12_HUMAN	joined to JAZF1	459	C2H2-type.				negative regulation of cell differentiation|transcription, DNA-dependent	ESC/E(Z) complex	histone methyltransferase activity|methylated histone residue binding|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.041)|Ovarian(249;0.182)|Breast(31;0.231)				GAACTGCCGCAAACTTTATAG	0.313			T	JAZF1	endometrial stromal tumours								31	111	---	---	---	---	PASS	G	30320965	G	G	30320965	3	3	156	1	0	0	0	0	1	0	0	0	15413	131	5	5	1421	5	SUZ12	17	30320965	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	1940649	30320965	50874245	549	55813										
LRRC37B	114659	broad.mit.edu	37	chr17	30348235	30348235	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tattgtctttactagtcaagGaggctcagcctctggtgtgg	12	8	4	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:30348235G>C	uc002hgu.2	+	1	81	c.70G>C	c.(70-72)GAG>CAG	p.E24Q	LRRC37B_uc010wbx.1_Intron|LRRC37B_uc010csu.2_Missense_Mutation_p.E24Q	NM_052888	NP_443120	Q96QE4	LR37B_HUMAN	leucine rich repeat containing 37B precursor	24				FWGPWPLLTWQLLSLLVKE -> ITAMAPPYVATIVFTSQG (in Ref. 1; CAC44536).		integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)				ACTAGTCAAGGAGGCTCAGCC	0.592													22	342	---	---	---	---	PASS	C	30348235	C	C	30348235	3	2	156	1	0	0	0	0	1	0	0	0	8994	1175	41	2	72	2	LRRC37B	17	30348235	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	27270	30348235	50846975	550	55814										
MYO1D	4642	broad.mit.edu	37	chr17	30986349	30986349	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcatgcgggccagggtgcccCgccacaccttcacaatagag	12	15	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:30986349C>T	uc002hho.1	-	17	2141	c.2129G>A	c.(2128-2130)CGG>CAG	p.R710Q	MYO1D_uc002hhp.1_Missense_Mutation_p.R710Q	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	710	IQ 1.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			CAGGGTGCCCCGCCACACCTT	0.483											OREG0024311	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	81	---	---	---	---	PASS	T	30986349	T	T	30986349	3	4	156	1	0	0	0	0	1	0	0	0	10071	652	23	1	915	1	MYO1D	17	30986349	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	638114	30986349	50208861	551	55815										
ACCN1	40	broad.mit.edu	37	chr17	31438962	31438962	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tccccagatgggcaggtactCatcctgctgaatgtccagca	10	13	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:31438962C>A	uc002hhu.2	-	2	953	c.679G>T	c.(679-681)GAG>TAG	p.E227*	ACCN1_uc002hht.2_Nonsense_Mutation_p.E278*	NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	227	Extracellular (By similarity).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	GGCAGGTACTCATCCTGCTGA	0.587													14	294	---	---	---	---	PASS	A	31438962	A	A	31438962	4	1	156	1	0	0	0	0	0	1	0	0	128	835	29	2	895	2	ACCN1	17	31438962	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	452613	31438962	49756248	552	55816										
GGNBP2	79893	broad.mit.edu	37	chr17	34912988	34912988	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtgacatcacgcgaagtcctGagtgcactttctcagcttgt	10	11	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:34912988G>C	uc002hnb.2	+	4	489	c.240G>C	c.(238-240)CTG>CTC	p.L80L	GGNBP2_uc002hna.2_Silent_p.L80L	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	80					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		GCGAAGTCCTGAGTGCACTTT	0.483													69	331	---	---	---	---	PASS	C	34912988	C	C	34912988	2	2	156	1	0	0	0	0	0	0	0	1	6359	1277	45	2		2	GGNBP2	17	34912988	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	3474026	34912988	46282222	553	55817										
KRT23	25984	broad.mit.edu	37	chr17	39084790	39084790	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctccaggaccttaatcagatCttccctgggacctgtatcca	7	14	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:39084790C>T	uc002hvm.1	-	5	1295	c.706G>A	c.(706-708)GAT>AAT	p.D236N	KRT23_uc010wfl.1_Missense_Mutation_p.D99N|KRT23_uc010cxf.1_Missense_Mutation_p.D23N|KRT23_uc010cxg.2_Missense_Mutation_p.D236N|KRT23_uc002hvn.1_Missense_Mutation_p.D236N	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	236	Rod.|Linker 12.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				TTAATCAGATCTTCCCTGGGA	0.393													113	449	---	---	---	---	PASS	T	39084790	T	T	39084790	3	4	156	1	0	0	0	0	1	0	0	0	8460	913	32	2	582	2	KRT23	17	39084790	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4171802	39084790	42110420	554	55818										
KCNH4	23415	broad.mit.edu	37	chr17	40317581	40317581	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcagccagccctcggctgctCagctgctgcaggccacagta	11	16	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:40317581C>T	uc002hzb.2	-	11	2304	c.1971G>A	c.(1969-1971)CTG>CTA	p.L657L		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	657	Cytoplasmic (Potential).|cNMP.				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)		CTCGGCTGCTCAGCTGCTGCA	0.637													32	156	---	---	---	---	PASS	T	40317581	T	T	40317581	2	4	156	1	0	0	0	0	0	0	0	1	8034	813	29	2		2	KCNH4	17	40317581	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1232791	40317581	40877629	555	55819										
KCNH4	23415	broad.mit.edu	37	chr17	40318427	40318427	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aggtactcgcccggagcgcaGaacgaggtcttgatgtgcag	15	10	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:40318427G>C	uc002hzb.2	-	10	2061	c.1728C>G	c.(1726-1728)TTC>TTG	p.F576L		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	576	Cytoplasmic (Potential).|cNMP.				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)		CCGGAGCGCAGAACGAGGTCT	0.627													13	102	---	---	---	---	PASS	C	40318427	C	C	40318427	3	2	156	1	0	0	0	0	1	0	0	0	8034	933	33	2	1353	2	KCNH4	17	40318427	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	846	40318427	40876783	556	55820										
FAM134C	162427	broad.mit.edu	37	chr17	40733896	40733896	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctggtccagaagttcaaagtCatccccctcagcatcagtgt	8	13	4	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:40733896C>T	uc002ial.2	-	9	1439	c.1336G>A	c.(1336-1338)GAC>AAC	p.D446N	FAM134C_uc010wgq.1_Missense_Mutation_p.D246N|FAM134C_uc002iam.1_Missense_Mutation_p.D246N|FAM134C_uc010cyk.1_Missense_Mutation_p.D349N	NM_178126	NP_835227	Q86VR2	F134C_HUMAN	hypothetical protein LOC162427	446						integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.134)		AGTTCAAAGTCATCCCCCTCA	0.592													31	120	---	---	---	---	PASS	T	40733896	T	T	40733896	3	4	156	1	0	0	0	0	1	0	0	0	5447	826	29	2	68	2	FAM134C	17	40733896	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	415469	40733896	40461314	557	55821										
LRRC46	90506	broad.mit.edu	37	chr17	45914174	45914174	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agggagcaccggcaacagacGgccctgacagagcacctgct	13	14	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:45914174G>A	uc002ima.2	+	8	910	c.654G>A	c.(652-654)ACG>ACA	p.T218T	LRRC46_uc002imb.2_Silent_p.T171T	NM_033413	NP_219481	Q96FV0	LRC46_HUMAN	leucine rich repeat containing 46	218	Potential.									ovary(1)	1						GGCAACAGACGGCCCTGACAG	0.682													7	150	---	---	---	---	PASS	A	45914174	A	A	45914174	2	1	156	1	0	0	0	0	0	0	0	1	9003	1103	39	1		1	LRRC46	17	45914174	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	5180278	45914174	35281036	558	55822										
HOXB8	3218	broad.mit.edu	37	chr17	46690586	46690586	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	acttcttgtcgcccttctgcGcgtcgccctcgtccgccgcc	9	20	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:46690586G>T	uc002inw.2	-	2	945	c.710C>A	c.(709-711)GCG>GAG	p.A237E	HOXB7_uc002inv.2_5'Flank	NM_024016	NP_076921	P17481	HXB8_HUMAN	homeobox B8	237						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GCCCTTCTGCGCGTCGCCCTC	0.443													55	227	---	---	---	---	PASS	T	46690586	T	T	46690586	3	4	156	1	0	0	0	0	1	0	0	0	7307	1087	38	1	25	1	HOXB8	17	46690586	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	776412	46690586	34504624	559	55823										
SGCA	6442	broad.mit.edu	37	chr17	48243412	48243412	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccgggcagccatggctgagaCactcttctggactcctctcc	10	16	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:48243412C>A	uc002iqi.2	+	1	47	c.11C>A	c.(10-12)ACA>AAA	p.T4K	SGCA_uc010wmh.1_5'UTR|SGCA_uc002iqj.2_Missense_Mutation_p.T4K|SGCA_uc010wmi.1_RNA	NM_000023	NP_000014	Q16586	SGCA_HUMAN	sarcoglycan, alpha isoform 1 precursor	4					muscle contraction|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(2)	2						ATGGCTGAGACACTCTTCTGG	0.483													83	472	---	---	---	---	PASS	A	48243412	A	A	48243412	3	1	156	1	0	0	0	0	1	0	0	0	14199	478	17	3	13	3	SGCA	17	48243412	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1552826	48243412	32951798	560	55824										
CACNA1G	8913	broad.mit.edu	37	chr17	48669396	48669396	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	attgccctcatgaccttcggCaactacgtgctcttcaattt	6	13	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:48669396C>A	uc002irk.1	+	13	3225	c.2853C>A	c.(2851-2853)GGC>GGA	p.G951G	CACNA1G_uc002iri.1_Silent_p.G951G|CACNA1G_uc002irj.1_Silent_p.G951G|CACNA1G_uc002irl.1_Silent_p.G951G|CACNA1G_uc002irm.1_Silent_p.G951G|CACNA1G_uc002irn.1_Silent_p.G951G|CACNA1G_uc002iro.1_Silent_p.G951G|CACNA1G_uc002irp.1_Silent_p.G951G|CACNA1G_uc002irq.1_Silent_p.G951G|CACNA1G_uc002irr.1_Silent_p.G951G|CACNA1G_uc002irs.1_Silent_p.G951G|CACNA1G_uc002irt.1_Silent_p.G951G|CACNA1G_uc002irv.1_Silent_p.G951G|CACNA1G_uc002irw.1_Silent_p.G951G|CACNA1G_uc002iru.1_Silent_p.G951G|CACNA1G_uc002irx.1_Silent_p.G864G|CACNA1G_uc002iry.1_Silent_p.G864G|CACNA1G_uc002irz.1_Silent_p.G864G|CACNA1G_uc002isa.1_Silent_p.G864G|CACNA1G_uc002isb.1_Silent_p.G864G|CACNA1G_uc002isc.1_Silent_p.G864G|CACNA1G_uc002isd.1_Silent_p.G864G|CACNA1G_uc002ise.1_Silent_p.G864G|CACNA1G_uc002isf.1_Silent_p.G864G|CACNA1G_uc002isg.1_Silent_p.G864G|CACNA1G_uc002ish.1_Silent_p.G864G|CACNA1G_uc002isi.1_Silent_p.G864G	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	951	II.|Helical; Name=S6 of repeat II; (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	TGACCTTCGGCAACTACGTGC	0.577													24	136	---	---	---	---	PASS	A	48669396	A	A	48669396	2	1	156	1	0	0	0	0	0	0	0	1	2544	697	25	3		3	CACNA1G	17	48669396	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	425984	48669396	32525814	561	55825										
RNF43	54894	broad.mit.edu	37	chr17	56434896	56434896	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccctctgcggtgtcagaactCcattcagaaggcccctcccc	8	18	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:56434896C>T	uc002iwf.2	-	8	4197	c.2241G>A	c.(2239-2241)TGG>TGA	p.W747*	RNF43_uc010wnv.1_Nonsense_Mutation_p.W706*|RNF43_uc002iwh.3_Nonsense_Mutation_p.W747*|RNF43_uc002iwg.3_Nonsense_Mutation_p.W747*|RNF43_uc010dcw.2_Nonsense_Mutation_p.W620*	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	747	Pro-rich.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGTCAGAACTCCATTCAGAAG	0.617													82	313	---	---	---	---	PASS	T	56434896	T	T	56434896	4	4	156	1	0	0	0	0	0	1	0	0	13495	856	30	2	118	2	RNF43	17	56434896	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	7765500	56434896	24760314	562	55826										
C17orf71	55181	broad.mit.edu	37	chr17	57290419	57290419	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cgacaggcatccacagttgaGtatctcccaggcatgctaca	9	13	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:57290419G>T	uc002ixi.2	+	3	2277	c.2235G>T	c.(2233-2235)GAG>GAT	p.E745D		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	745					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					CCACAGTTGAGTATCTCCCAG	0.448													49	272	---	---	---	---	PASS	T	57290419	T	T	57290419	3	4	156	1	0	0	0	0	1	0	0	0	1878	1020	36	3	2245	3	C17orf71	17	57290419	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	855523	57290419	23904791	563	55827										
ARSG	22901	broad.mit.edu	37	chr17	66381253	66381253	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggaaggagggcaccgggtccCagcactggcttactggcctg	16	12	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:66381253C>T	uc002jhc.2	+	9	1827	c.1031C>T	c.(1030-1032)CCA>CTA	p.P344L	ARSG_uc002jhb.1_Missense_Mutation_p.P180L	NM_014960	NP_055775	Q96EG1	ARSG_HUMAN	Arylsulfatase G precursor	344					sulfur compound metabolic process	endoplasmic reticulum|extracellular space|lysosome	arylsulfatase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;5.34e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			CACCGGGTCCCAGCACTGGCT	0.562													28	264	---	---	---	---	PASS	T	66381253	T	T	66381253	3	4	156	1	0	0	0	0	1	0	0	0	992	594	21	3	1061	3	ARSG	17	66381253	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	9090834	66381253	14813957	564	55828										
DNAI2	64446	broad.mit.edu	37	chr17	72310317	72310317	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agggagaggaagcagcggggGaagaaggggatgaagaagtg	22	2	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:72310317G>A	uc002jkf.2	+	13	1879	c.1780G>A	c.(1780-1782)GAA>AAA	p.E594K	DNAI2_uc002jkg.2_RNA|DNAI2_uc010dfp.2_RNA|DNAI2_uc002jki.2_RNA	NM_023036	NP_075462	Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate polypeptide 2	594					cilium assembly	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	microtubule motor activity			ovary(2)|central_nervous_system(1)	3						agcagcgggggaagaagggga	0.358									Kartagener_syndrome				86	79	---	---	---	---	PASS	A	72310317	A	A	72310317	3	1	156	1	0	0	0	0	1	0	0	0	4610	1175	41	2	1826	2	DNAI2	17	72310317	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5929064	72310317	8884893	565	55829										
SFRS2	6427	broad.mit.edu	37	chr17	74732373	74732373	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gggacctggaccgcgaacgaGatctggagaccgacgaggac	16	11	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:74732373G>C	uc002jsv.2	-	2	706	c.536C>G	c.(535-537)TCT>TGT	p.S179C	SFRS2_uc002jsw.1_RNA|SFRS2_uc002jsx.1_RNA|SFRS2_uc002jsy.3_Missense_Mutation_p.S179C|SFRS2_uc010wtg.1_Missense_Mutation_p.S167C|MFSD11_uc002jsz.1_RNA|MFSD11_uc002jta.2_5'UTR|MFSD11_uc002jtb.2_5'Flank|MFSD11_uc010dha.2_5'Flank|MFSD11_uc002jtc.2_5'Flank|MFSD11_uc002jtd.3_5'Flank|MFSD11_uc010dhb.2_5'Flank|MFSD11_uc002jte.2_5'Flank	NM_003016	NP_003007	Q01130	SRSF2_HUMAN	splicing factor, arginine/serine-rich 2	179	Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|protein binding|RNA binding|transcription corepressor activity				0						CCGCGAACGAGATCTGGAGAC	0.612													66	246	---	---	---	---	PASS	C	74732373	C	C	74732373	3	2	156	1	0	0	0	0	1	0	0	0	14175	942	33	2	133	2	SFRS2	17	74732373	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	2422056	74732373	6462837	566	55830										
SFRS2	6427	broad.mit.edu	37	chr17	74733066	74733066	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cgcttgtcgtgaaagcgaacGaaggcgaagccgcgggactc	15	11	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr17:74733066G>A	uc002jsv.2	-	1	347	c.177C>T	c.(175-177)TTC>TTT	p.F59F	SFRS2_uc002jsw.1_5'Flank|SFRS2_uc002jsx.1_RNA|SFRS2_uc002jsy.3_Silent_p.F59F|SFRS2_uc010wtg.1_Silent_p.F59F|MFSD11_uc002jsz.1_RNA|MFSD11_uc002jta.2_5'UTR|MIR636_hsa-mir-636|MI0003651_5'Flank|MFSD11_uc002jtb.2_5'Flank|MFSD11_uc010dha.2_5'Flank|MFSD11_uc002jtc.2_5'Flank|MFSD11_uc002jtd.3_5'Flank|MFSD11_uc010dhb.2_5'Flank|MFSD11_uc002jte.2_5'Flank	NM_003016	NP_003007	Q01130	SRSF2_HUMAN	splicing factor, arginine/serine-rich 2	59	RRM.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|protein binding|RNA binding|transcription corepressor activity				0						GAAAGCGAACGAAGGCGAAGC	0.682													24	54	---	---	---	---	PASS	A	74733066	A	A	74733066	2	1	156	1	0	0	0	0	0	0	0	1	14175	1049	37	2		2	SFRS2	17	74733066	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	693	74733066	6462144	567	55831										
EMILIN2	84034	broad.mit.edu	37	chr18	2909706	2909706	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caggagctccggtgccttctCtggtgtctttttctgcgggg	14	11	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr18:2909706C>T	uc002kln.2	+	7	2872	c.2713C>T	c.(2713-2715)CTG>TTG	p.L905L		NM_032048	NP_114437	Q9BXX0	EMIL2_HUMAN	elastin microfibril interfacer 2 precursor	905	C1q.				cell adhesion	collagen	extracellular matrix constituent conferring elasticity|protein binding			skin(2)|ovary(1)	3				READ - Rectum adenocarcinoma(2;0.1)		GGTGCCTTCTCTGGTGTCTTT	0.567													18	199	---	---	---	---	PASS	T	2909706	T	T	2909706	2	4	156	1	0	0	0	0	0	0	0	1	5094	912	32	2		2	EMILIN2	18	2909706	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08		2909706	75167542	568	55832										
ZNF519	162655	broad.mit.edu	37	chr18	14105884	14105884	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtaagctttgagaatgggtCagaagtttcaccacattcat	9	7	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr18:14105884C>T	uc002kst.1	-	3	808	c.655G>A	c.(655-657)GAC>AAC	p.D219N	ZNF519_uc002ksq.1_Intron|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_Intron	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	219					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAGAATGGGTCAGAAGTTTCA	0.303													6	113	---	---	---	---	PASS	T	14105884	T	T	14105884	3	4	156	1	0	0	0	0	1	0	0	0	17961	826	29	2	971	2	ZNF519	18	14105884	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	11196178	14105884	63971364	569	55833										
MEP1B	4225	broad.mit.edu	37	chr18	29770096	29770096	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cttctcgtgatttctggcttGgtaaggaaacagtatataga	10	6	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr18:29770096G>T	uc002kxj.3	+	1	110	c.63G>T	c.(61-63)TTG>TTT	p.L21F		NM_005925	NP_005916	Q16820	MEP1B_HUMAN	meprin A beta precursor	21					digestion|proteolysis	extracellular space|integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)	2						TTTCTGGCTTGGTAAGGAAAC	0.318													5	35	---	---	---	---	PASS	T	29770096	T	T	29770096	3	4	156	1	0	0	0	0	1	0	0	0	9476	1362	47	3	65	3	MEP1B	18	29770096	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	15664212	29770096	48307152	570	55834										
ASXL3	80816	broad.mit.edu	37	chr18	31318747	31318747	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aattgcagaagaggtagagaCtagtatctgtgaatgccagg	13	5	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr18:31318747C>G	uc010dmg.1	+	11	1434	c.1379C>G	c.(1378-1380)ACT>AGT	p.T460S	ASXL3_uc002kxq.2_Missense_Mutation_p.T167S	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	460					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						GAGGTAGAGACTAGTATCTGT	0.388													13	85	---	---	---	---	PASS	G	31318747	G	G	31318747	3	3	156	1	0	0	0	0	1	0	0	0	1068	565	20	4	1421	4	ASXL3	18	31318747	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1548651	31318747	46758501	571	55835										
SETBP1	26040	broad.mit.edu	37	chr18	42532367	42532367	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtcaaagaagaagcgtggtaGgcctgcaaaaaccaatgaca	11	8	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr18:42532367G>T	uc010dni.2	+	4	3358	c.3062G>T	c.(3061-3063)AGG>ATG	p.R1021M		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1021	A.T hook 2.					nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		AAGCGTGGTAGGCCTGCAAAA	0.438									Schinzel-Giedion_syndrome				42	133	---	---	---	---	PASS	T	42532367	T	T	42532367	3	4	156	1	0	0	0	0	1	0	0	0	14129	1000	35	3	3265	3	SETBP1	18	42532367	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	11213620	42532367	35544881	572	55836										
LMAN1	3998	broad.mit.edu	37	chr18	56998750	56998750	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaatggtggtagttctgggcAtttcggcttttcatttgatg	12	5	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr18:56998750A>G	uc002lhz.2	-	12	1428	c.1396T>C	c.(1396-1398)TGC>CGC	p.C466R		NM_005570	NP_005561	P49257	LMAN1_HUMAN	lectin, mannose-binding, 1 precursor	466	Lumenal (Potential).				blood coagulation|ER to Golgi vesicle-mediated transport|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	mannose binding|metal ion binding|unfolded protein binding			skin(1)	1		Colorectal(73;0.0946)			Antihemophilic Factor(DB00025)	AGTTCTGGGCATTTCGGCTTT	0.328													22	86	---	---	---	---	PASS	G	56998750	G	G	56998750	3	3	156	1	0	0	0	0	1	0	0	0	8836	217	8	5	144	5	LMAN1	18	56998750	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	14466383	56998750	21078498	573	55837										
CDH19	28513	broad.mit.edu	37	chr18	64172297	64172297	+	Missense_Mutation	SNP	C	T	T													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tttcctgaatatggcactgtCggggccaacttgcaaagact							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr18:64172297C>T	uc002lkc.1	-	12	2209	c.2071G>A	c.(2071-2073)GAC>AAC	p.D691N	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_3'UTR	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	691	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				ATGGCACTGTCGGGGCCAACT	0.493													26	175	---	---	---	---	PASS	T	64172297	T	T	64172297	3	4	156	1	0	0	0	0	1	0	0	0	3104	884	31	2	251	2	CDH19	18	64172297	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	7173547	64172297	13904951	574	55838	996	2								
CDH19	28513	broad.mit.edu	37	chr18	64172298	64172298	+	Silent	SNP	G	C	C													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttcctgaatatggcactgtcGgggccaacttgcaaagactg							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr18:64172298G>C	uc002lkc.1	-	12	2208	c.2070C>G	c.(2068-2070)CCC>CCG	p.P690P	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_3'UTR	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	690	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				TGGCACTGTCGGGGCCAACTT	0.498													25	175	---	---	---	---	PASS	C	64172298	C	C	64172298	2	2	156	1	0	0	0	0	0	0	0	1	3104	1103	39	4		4	CDH19	18	64172298	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1	64172298	13904950	575	55839	996	2								
DOK6	220164	broad.mit.edu	37	chr18	67344978	67344978	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggttactttcagagctggagGccgaggagtggtgcaagcac	16	8	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr18:67344978G>T	uc002lkl.2	+	4	488	c.298G>T	c.(298-300)GCC>TCC	p.A100S		NM_152721	NP_689934	Q6PKX4	DOK6_HUMAN	docking protein 6	100	PH.						insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)				AGAGCTGGAGGCCGAGGAGTG	0.537													22	144	---	---	---	---	PASS	T	67344978	T	T	67344978	3	4	156	1	0	0	0	0	1	0	0	0	4701	1203	42	3	312	3	DOK6	18	67344978	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3172680	67344978	10732270	576	55840										
ZNF236	7776	broad.mit.edu	37	chr18	74587461	74587461	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	actctaggtgaaaggccgttCaaatgtagtgaatgtggaaa	12	5	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr18:74587461C>G	uc002lmi.2	+	6	873	c.675C>G	c.(673-675)TTC>TTG	p.F225L	ZNF236_uc002lmj.2_RNA|ZNF236_uc002lmk.1_Missense_Mutation_p.F225L	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	225	C2H2-type 7.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		AAAGGCCGTTCAAATGTAGTG	0.418											OREG0025069	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	129	---	---	---	---	PASS	G	74587461	G	G	74587461	3	3	156	1	0	0	0	0	1	0	0	0	17786	825	29	2	697	2	ZNF236	18	74587461	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	7242483	74587461	3489787	577	55841										
C19orf21	126353	broad.mit.edu	37	chr19	758596	758596	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tctgatctgctggaaagggaGagggagagtgtcctgcgccg	17	8	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:758596G>A	uc002lpo.2	+	2	1733	c.1650G>A	c.(1648-1650)GAG>GAA	p.E550E		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	550	Potential.									upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGAAAGGGAGAGGGAGAGTG	0.627													13	275	---	---	---	---	PASS	A	758596	A	A	758596	2	1	156	1	0	0	0	0	0	0	0	1	1913	933	33	2		2	C19orf21	19	758596	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08		758596	58370387	578	55842										
SH3GL1	6455	broad.mit.edu	37	chr19	4361705	4361705	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcgatctggttggtcagcgtGatgacgtcgccctcatggaa	13	10	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:4361705G>C	uc002maj.2	-	10	1105	c.999C>G	c.(997-999)ATC>ATG	p.I333M	SH3GL1_uc002mak.2_Missense_Mutation_p.I269M|SH3GL1_uc010xig.1_Missense_Mutation_p.I285M	NM_003025	NP_003016	Q99961	SH3G1_HUMAN	SH3-domain GRB2-like 1	333	SH3.				central nervous system development|endocytosis|signal transduction	early endosome membrane	lipid binding|protein binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0152)|STAD - Stomach adenocarcinoma(1328;0.182)		TGGTCAGCGTGATGACGTCGC	0.657			T	MLL	AL								17	114	---	---	---	---	PASS	C	4361705	C	C	4361705	3	2	156	1	0	0	0	0	1	0	0	0	14250	1280	45	2	111	2	SH3GL1	19	4361705	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3603109	4361705	54767278	579	55843										
MUC16	94025	broad.mit.edu	37	chr19	9070578	9070578	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agctggtttcttccacagggGgagttgtcatccatgacaca	11	10	2	1	rs141378906	by1000genomes	TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:9070578G>C	uc002mkp.2	-	3	17072	c.16868C>G	c.(16867-16869)CCC>CGC	p.P5623R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5625	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTCCACAGGGGGAGTTGTCAT	0.537													43	56	---	---	---	---	PASS	C	9070578	C	C	9070578	3	2	156	1	0	0	0	0	1	0	0	0	9973	1232	43	4	26983	4	MUC16	19	9070578	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	4708873	9070578	50058405	580	55844										
ZNF559	84527	broad.mit.edu	37	chr19	9452522	9452522	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaaagccttcagaaaaccctCtatctttactttacacaaga	3	11	3	2	rs145348538		TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:9452522C>G	uc002mlg.2	+	7	1042	c.395C>G	c.(394-396)TCT>TGT	p.S132C	ZNF559_uc002mlf.2_5'UTR|ZNF559_uc010dwl.1_5'UTR|ZNF559_uc010xkn.1_Missense_Mutation_p.S124C|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Missense_Mutation_p.S196C|ZNF559_uc010dwk.1_5'UTR|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	132	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGAAAACCCTCTATCTTTACT	0.388													30	167	---	---	---	---	PASS	G	9452522	G	G	9452522	3	3	156	1	0	0	0	0	1	0	0	0	17987	913	32	2	409	2	ZNF559	19	9452522	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	381944	9452522	49676461	581	55845										
OLFM2	93145	broad.mit.edu	37	chr19	9965213	9965213	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atgttgcccgcgttctggttGgtggtgtacacagcccagag	14	10	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:9965213G>A	uc002mmp.2	-	6	1042	c.1014C>T	c.(1012-1014)ACC>ACT	p.T338T	OLFM2_uc002mmo.2_Silent_p.T260T	NM_058164	NP_477512	O95897	NOE2_HUMAN	olfactomedin 2 precursor	338	Olfactomedin-like.					extracellular region				large_intestine(1)|skin(1)	2						CGTTCTGGTTGGTGGTGTACA	0.662													34	135	---	---	---	---	PASS	A	9965213	A	A	9965213	2	1	156	1	0	0	0	0	0	0	0	1	10853	1335	47	3		3	OLFM2	19	9965213	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	512691	9965213	49163770	582	55846										
KEAP1	9817	broad.mit.edu	37	chr19	10600447	10600447	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccccacggcataaaggagacGattgaggacagccacgccca	11	14	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:10600447G>A	uc002moq.1	-	4	1564	c.1408C>T	c.(1408-1410)CGT>TGT	p.R470C	KEAP1_uc002mop.1_Missense_Mutation_p.R188C|KEAP1_uc002mor.1_Missense_Mutation_p.R470C	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	470	Kelch 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			TAAAGGAGACGATTGAGGACA	0.557													26	84	---	---	---	---	PASS	A	10600447	A	A	10600447	3	1	156	1	0	0	0	0	1	0	0	0	8141	1058	37	2	478	2	KEAP1	19	10600447	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	635234	10600447	48528536	583	55847										
KEAP1	9817	broad.mit.edu	37	chr19	10602619	10602619	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggcggcccaccttgggcgccCggcagggcatcacctgcgtg	16	16	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:10602619C>T	uc002moq.1	-	3	1115	c.959G>A	c.(958-960)CGG>CAG	p.R320Q	KEAP1_uc002mop.1_Missense_Mutation_p.R38Q|KEAP1_uc002mor.1_Missense_Mutation_p.R320Q	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	320					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CTTGGGCGCCCGGCAGGGCAT	0.642													20	83	---	---	---	---	PASS	T	10602619	T	T	10602619	3	4	156	1	0	0	0	0	1	0	0	0	8141	652	23	1	931	1	KEAP1	19	10602619	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2172	10602619	48526364	584	55848										
CYP4F3	4051	broad.mit.edu	37	chr19	15760021	15760021	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtgcccgtctggacatgtttGagcacatcagcctcatgacc	10	13	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:15760021G>T	uc002nbj.2	+	6	627	c.577G>T	c.(577-579)GAG>TAG	p.E193*	CYP4F3_uc010xok.1_Nonsense_Mutation_p.E193*|CYP4F3_uc010xol.1_Nonsense_Mutation_p.E193*|CYP4F3_uc010xom.1_Nonsense_Mutation_p.E44*|CYP4F3_uc002nbk.2_Nonsense_Mutation_p.E193*|CYP4F3_uc010xon.1_5'Flank	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	193					leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						GGACATGTTTGAGCACATCAG	0.572													78	162	---	---	---	---	PASS	T	15760021	T	T	15760021	4	4	156	1	0	0	0	0	0	1	0	0	4190	1291	45	2	595	2	CYP4F3	19	15760021	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	5157402	15760021	43368962	585	55849										
SIN3B	23309	broad.mit.edu	37	chr19	16973243	16973243	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cgcgccacccatgagcgacaGatccggggacgggataagcc	14	14	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:16973243G>C	uc002ney.1	+	9	1153	c.1139G>C	c.(1138-1140)AGA>ACA	p.R380T	SIN3B_uc002nex.2_Missense_Mutation_p.R312T|SIN3B_uc002nez.1_Missense_Mutation_p.R380T|SIN3B_uc010xpi.1_5'Flank	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	380	Interaction with NCOR1 (By similarity).				cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						ATGAGCGACAGATCCGGGGAC	0.522													22	182	---	---	---	---	PASS	C	16973243	C	C	16973243	3	2	156	1	0	0	0	0	1	0	0	0	14326	942	33	2	1173	2	SIN3B	19	16973243	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1213222	16973243	42155740	586	55850										
UNC13A	23025	broad.mit.edu	37	chr19	17732678	17732678	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	catgttttctcaagaggttcCcctgcagagataatgtcaca	8	10	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:17732678C>T	uc002nhd.2	-	36	4469	c.4469G>A	c.(4468-4470)GGG>GAG	p.G1490E		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1402	MHD2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						CAAGAGGTTCCCCTGCAGAGA	0.532													28	221	---	---	---	---	PASS	T	17732678	T	T	17732678	3	4	156	1	0	0	0	0	1	0	0	0	16981	637	22	3	938	3	UNC13A	19	17732678	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	759435	17732678	41396305	587	55851										
KIAA1683	80726	broad.mit.edu	37	chr19	18377278	18377278	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gggtggggtggtggtcatcgTggacgctggatatgtctgtg	20	5	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:18377278T>C	uc002nin.2	-	3	1288	c.1072A>G	c.(1072-1074)ACG>GCG	p.T358A	KIAA1683_uc010ebn.2_Missense_Mutation_p.T358A|KIAA1683_uc010xqe.1_Missense_Mutation_p.T312A	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	358	Thr-rich.					mitochondrion				ovary(2)	2						GTGGTCATCGTGGACGCTGGA	0.552													49	243	---	---	---	---	PASS	C	18377278	C	C	18377278	3	2	156	1	0	0	0	0	1	0	0	0	8251	1696	59	5	3039	5	KIAA1683	19	18377278	Missense_Mutation	SNP	T	TCGA-66-2773-01A-01D-1267-08	644600	18377278	40751705	588	55852										
ZNF493	284443	broad.mit.edu	37	chr19	21606071	21606071	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tatgtcagcataaaagaattCatattagagagaattcttac	6	5	3	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:21606071C>T	uc002npx.2	+	2	506	c.226C>T	c.(226-228)CAT>TAT	p.H76Y	ZNF493_uc002npw.2_Missense_Mutation_p.H204Y|ZNF493_uc002npy.2_Missense_Mutation_p.H76Y	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	76	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TAAAAGAATTCATATTAGAGA	0.348													10	131	---	---	---	---	PASS	T	21606071	T	T	21606071	3	4	156	1	0	0	0	0	1	0	0	0	17941	826	29	2	687	2	ZNF493	19	21606071	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3228793	21606071	37522912	589	55853										
ZNF429	353088	broad.mit.edu	37	chr19	21720462	21720462	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aattcatactggagagaaacCttacaaatgtgaagaatgtg	9	5	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:21720462C>T	uc002nqd.1	+	4	1744	c.1607C>T	c.(1606-1608)CCT>CTT	p.P536L	ZNF429_uc010ecu.1_Intron	NM_001001415	NP_001001415	Q86V71	ZN429_HUMAN	zinc finger protein 429	536					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GGAGAGAAACCTTACAAATGT	0.368													7	104	---	---	---	---	PASS	T	21720462	T	T	21720462	3	4	156	1	0	0	0	0	1	0	0	0	17899	681	24	3	1621	3	ZNF429	19	21720462	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	114391	21720462	37408521	590	55854										
ZNF43	7594	broad.mit.edu	37	chr19	21992534	21992534	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gttcacagtttttatatcttCtcagtgtcgctttttggaaa	7	7	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:21992534C>T	uc002nqj.2	-	4	435	c.305G>A	c.(304-306)AGA>AAA	p.R102K	ZNF43_uc010ecv.2_Missense_Mutation_p.R96K|ZNF43_uc002nql.2_Missense_Mutation_p.R96K|ZNF43_uc002nqm.2_Missense_Mutation_p.R96K|ZNF43_uc002nqk.2_Missense_Mutation_p.R32K	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	102					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		TTTATATCTTCTCAGTGTCGC	0.313													29	158	---	---	---	---	PASS	T	21992534	T	T	21992534	3	4	156	1	0	0	0	0	1	0	0	0	17900	913	32	2	2128	2	ZNF43	19	21992534	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	272072	21992534	37136449	591	55855										
ZNF208	7757	broad.mit.edu	37	chr19	22155700	22155700	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttctctccagtatgaattctCttatgttccataaggtttga	6	8	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:22155700C>T	uc002nqp.2	-	5	1985	c.1836G>A	c.(1834-1836)AAG>AAA	p.K612K	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TATGAATTCTCTTATGTTCCA	0.368													19	106	---	---	---	---	PASS	T	22155700	T	T	22155700	2	4	156	1	0	0	0	0	0	0	0	1	17763	912	32	2		2	ZNF208	19	22155700	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	163166	22155700	36973283	592	55856										
ZNF676	163223	broad.mit.edu	37	chr19	22363232	22363232	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aggcttgaggaccagctgaaGgctttgccacattcttcaca	10	11	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:22363232G>T	uc002nqs.1	-	3	1605	c.1287C>A	c.(1285-1287)GCC>GCA	p.A429A		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	429	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				ACCAGCTGAAGGCTTTGCCAC	0.443													60	169	---	---	---	---	PASS	T	22363232	T	T	22363232	2	4	156	1	0	0	0	0	0	0	0	1	18080	987	35	3		3	ZNF676	19	22363232	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	207532	22363232	36765751	593	55857										
ZNF676	163223	broad.mit.edu	37	chr19	22363386	22363386	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccttatgtgtattaagggttGagaccttactaaaggctttg	10	6	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:22363386G>A	uc002nqs.1	-	3	1451	c.1133C>T	c.(1132-1134)TCA>TTA	p.S378L		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	378	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				ATTAAGGGTTGAGACCTTACT	0.393													9	174	---	---	---	---	PASS	A	22363386	A	A	22363386	3	1	156	1	0	0	0	0	1	0	0	0	18080	1294	45	2	637	2	ZNF676	19	22363386	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	154	22363386	36765597	594	55858										
ZNF98	148198	broad.mit.edu	37	chr19	22574587	22574587	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtagggcttctctccagtatGaattaccttatgtttagaaa	8	7	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:22574587G>A	uc002nqt.2	-	4	1572	c.1450C>T	c.(1450-1452)CAT>TAT	p.H484Y		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	484	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				TCTCCAGTATGAATTACCTTA	0.378													21	172	---	---	---	---	PASS	A	22574587	A	A	22574587	3	1	156	1	0	0	0	0	1	0	0	0	18200	1290	45	2	272	2	ZNF98	19	22574587	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	211201	22574587	36554396	595	55859										
ZNF536	9745	broad.mit.edu	37	chr19	31039095	31039095	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcagaggaggccctgcatctCagcagtggacatcaggggtt	14	10	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:31039095C>T	uc002nsu.1	+	4	2707	c.2569C>T	c.(2569-2571)CAG>TAG	p.Q857*	ZNF536_uc010edd.1_Nonsense_Mutation_p.Q857*	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	857					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CCCTGCATCTCAGCAGTGGAC	0.577													24	280	---	---	---	---	PASS	T	31039095	T	T	31039095	4	4	156	1	0	0	0	0	0	1	0	0	17971	827	29	2	2579	2	ZNF536	19	31039095	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	8464508	31039095	28089888	596	55860										
CD22	933	broad.mit.edu	37	chr19	35837110	35837110	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggactgcgatgacacggtcaCttattcagcattgcacaagc	10	11	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:35837110C>G	uc010edt.2	+	13	2461	c.2384C>G	c.(2383-2385)ACT>AGT	p.T795S	CD22_uc010xst.1_Missense_Mutation_p.T623S|CD22_uc010edu.2_Missense_Mutation_p.T707S|CD22_uc010edv.2_3'UTR|CD22_uc002nzb.3_Missense_Mutation_p.T618S|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	795	Cytoplasmic (Potential).|ITIM motif 2.				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)	GACACGGTCACTTATTCAGCA	0.602													10	276	---	---	---	---	PASS	G	35837110	G	G	35837110	3	3	156	1	0	0	0	0	1	0	0	0	2985	565	20	4	2430	4	CD22	19	35837110	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4798015	35837110	23291873	597	55861										
ETV2	2116	broad.mit.edu	37	chr19	36135685	36135685	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cgaaagtacacgtaccgcttCgggggccgcgtgcccagcct	13	15	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:36135685C>T	uc002oas.2	+	6	1483	c.1044C>T	c.(1042-1044)TTC>TTT	p.F348F	ETV2_uc002oar.2_Silent_p.F320F|ETV2_uc002oat.2_Silent_p.F227F|ETV2_uc002oau.2_Silent_p.F133F	NM_014209	NP_055024	O00321	ETV2_HUMAN	ets variant gene 2	319							sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CGTACCGCTTCGGGGGCCGCG	0.627													4	26	---	---	---	---	PASS	T	36135685	T	T	36135685	2	4	156	1	0	0	0	0	0	0	0	1	5278	883	31	2		2	ETV2	19	36135685	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	298575	36135685	22993298	598	55862										
ALKBH6	84964	broad.mit.edu	37	chr19	36501816	36501816	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	catgatgccctccccaggcaGatactggttcacgaggacat	10	13	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:36501816G>C	uc002oct.2	-	5	416	c.316C>G	c.(316-318)CTG>GTG	p.L106V	C19orf46_uc002ocr.1_5'Flank|C19orf46_uc002ocs.1_5'Flank|C19orf46_uc002ocq.1_5'Flank|C19orf46_uc010een.1_5'Flank|ALKBH6_uc002ocv.1_Missense_Mutation_p.L134V|ALKBH6_uc002ocx.1_Missense_Mutation_p.L37V|ALKBH6_uc002ocw.1_Missense_Mutation_p.L134V|ALKBH6_uc010eeo.1_Missense_Mutation_p.L106V|ALKBH6_uc010eep.1_Missense_Mutation_p.L134V	NM_032878	NP_116267	Q3KRA9	ALKB6_HUMAN	alkB, alkylation repair homolog 6 isoform 2	106	Fe2OG dioxygenase.					cytoplasm|nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0	all_lung(56;1.35e-06)|Lung NSC(56;2.15e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TCCCCAGGCAGATACTGGTTC	0.617													12	219	---	---	---	---	PASS	C	36501816	C	C	36501816	3	2	156	1	0	0	0	0	1	0	0	0	531	933	33	2	412	2	ALKBH6	19	36501816	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	366131	36501816	22627167	599	55863										
ZNF527	84503	broad.mit.edu	37	chr19	37880588	37880588	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atatcttaatcaacatcaaaGaattcatactggagagaaac	5	7	4	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:37880588G>T	uc010efk.1	+	5	1748	c.1637G>T	c.(1636-1638)AGA>ATA	p.R546I	ZNF527_uc002ogf.3_Missense_Mutation_p.R514I|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	546	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CAACATCAAAGAATTCATACT	0.403													11	161	---	---	---	---	PASS	T	37880588	T	T	37880588	3	4	156	1	0	0	0	0	1	0	0	0	17965	942	33	2	1651	2	ZNF527	19	37880588	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1378772	37880588	21248395	600	55864										
EIF3K	27335	broad.mit.edu	37	chr19	39116687	39116687	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcaagaagaacggccaatccGacagattttgtacctcgggg	12	10	0	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:39116687G>A	uc002oiz.1	+	4	486	c.299G>A	c.(298-300)CGA>CAA	p.R100Q	EIF3K_uc010xuh.1_Missense_Mutation_p.R100Q|EIF3K_uc010xui.1_Missense_Mutation_p.R13Q	NM_013234	NP_037366	Q9UBQ5	EIF3K_HUMAN	eukaryotic translation initiation factor 3,	100					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex|nucleus	protein binding|ribosome binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CGGCCAATCCGACAGATTTTG	0.587													50	341	---	---	---	---	PASS	A	39116687	A	A	39116687	3	1	156	1	0	0	0	0	1	0	0	0	5021	1058	37	2	313	2	EIF3K	19	39116687	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1236099	39116687	20012296	601	55865										
PSG8	440533	broad.mit.edu	37	chr19	43268417	43268417	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcagtcgtgggtgggttccaGaagtttaaaagtgatgctag	15	5	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:43268417G>T	uc002ouo.2	-	2	179	c.81C>A	c.(79-81)TTC>TTA	p.F27L	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc002oui.2_Intron|PSG8_uc002ouh.2_Missense_Mutation_p.F27L|PSG8_uc010ein.2_Intron|PSG8_uc002ouj.3_Translation_Start_Site|PSG8_uc002ouk.3_Intron|PSG8_uc002oul.3_Missense_Mutation_p.F27L|PSG8_uc002oum.3_Missense_Mutation_p.F27L|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Missense_Mutation_p.F27L	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	27						extracellular region					0		Prostate(69;0.00899)				GTGGGTTCCAGAAGTTTAAAA	0.488													40	372	---	---	---	---	PASS	T	43268417	T	T	43268417	3	4	156	1	0	0	0	0	1	0	0	0	12661	933	33	2	1236	2	PSG8	19	43268417	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	4151730	43268417	15860566	602	55866										
CADM4	199731	broad.mit.edu	37	chr19	44128312	44128312	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atgcccactagcacacatatGatcagaaacaccagcagcgc	7	14	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:44128312G>A	uc002oxc.1	-	8	1060	c.1011C>T	c.(1009-1011)ATC>ATT	p.I337I		NM_145296	NP_660339	Q8NFZ8	CADM4_HUMAN	cell adhesion molecule 4 precursor	337	Helical; (Potential).				cell adhesion	integral to membrane					0		Prostate(69;0.0199)				GCACACATATGATCAGAAACA	0.612													42	202	---	---	---	---	PASS	A	44128312	A	A	44128312	2	1	156	1	0	0	0	0	0	0	0	1	2569	1280	45	2		2	CADM4	19	44128312	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	859895	44128312	15000671	603	55867										
ZNF227	7770	broad.mit.edu	37	chr19	44739709	44739709	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gccatcagagagtccacactGaagaaaaaccatacaaatgc	7	11	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:44739709G>A	uc002oyu.2	+	6	1331	c.1126G>A	c.(1126-1128)GAA>AAA	p.E376K	ZNF227_uc010xwu.1_Missense_Mutation_p.E325K|ZNF227_uc002oyv.2_Missense_Mutation_p.E376K|ZNF227_uc010xwv.1_Missense_Mutation_p.E325K|ZNF227_uc010xww.1_Missense_Mutation_p.E297K|ZNF227_uc002oyw.2_Missense_Mutation_p.E348K|ZNF227_uc010ejh.2_Missense_Mutation_p.E369K|ZNF235_uc002oyx.1_Intron	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	376					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)				AGTCCACACTGAAGAAAAACC	0.438													21	108	---	---	---	---	PASS	A	44739709	A	A	44739709	3	1	156	1	0	0	0	0	1	0	0	0	17778	1291	45	2	1140	2	ZNF227	19	44739709	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	611397	44739709	14389274	604	55868										
SIX5	147912	broad.mit.edu	37	chr19	46269050	46269050	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggcgccgggaagttgggcagGaggccaggggagtcagggga	23	7	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:46269050G>A	uc002pdb.2	-	3	2324	c.1929C>T	c.(1927-1929)CTC>CTT	p.L643L	SIX5_uc002pdc.2_3'UTR	NM_175875	NP_787071	Q8N196	SIX5_HUMAN	SIX homeobox 5	643						cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00783)|GBM - Glioblastoma multiforme(486;0.0802)|Epithelial(262;0.235)		AGTTGGGCAGGAGGCCAGGGG	0.687													6	108	---	---	---	---	PASS	A	46269050	A	A	46269050	2	1	156	1	0	0	0	0	0	0	0	1	14350	1161	41	2		2	SIX5	19	46269050	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1529341	46269050	12859933	605	55869										
GYS1	2997	broad.mit.edu	37	chr19	49489218	49489218	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtcgccgggcacgacacagGcagagtccaacgcctgccaa	12	15	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:49489218G>A	uc002plp.2	-	4	808	c.567C>T	c.(565-567)TGC>TGT	p.C189C	GYS1_uc010xzy.1_Intron|GYS1_uc010emm.2_Silent_p.C125C|GYS1_uc010xzz.1_Silent_p.C109C|GYS1_uc010yaa.1_RNA	NM_002103	NP_002094	P13807	GYS1_HUMAN	glycogen synthase 1 (muscle) isoform 1	189					glucose metabolic process|glycogen biosynthetic process	cytosol	glycogen (starch) synthase activity|protein binding			ovary(2)	2		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000164)|all cancers(93;0.000226)|GBM - Glioblastoma multiforme(486;0.00561)|Epithelial(262;0.0286)		CACGACACAGGCAGAGTCCAA	0.607													24	110	---	---	---	---	PASS	A	49489218	A	A	49489218	2	1	156	1	0	0	0	0	0	0	0	1	6912	1195	42	3		3	GYS1	19	49489218	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	3220168	49489218	9639765	606	55870										
SIGLEC6	946	broad.mit.edu	37	chr19	52033942	52033942	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcccagcactcacaggagacAttgagctggatggttctctc	11	12	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:52033942A>G	uc002pwy.2	-	3	861	c.699T>C	c.(697-699)AAT>AAC	p.N233N	SIGLEC6_uc002pwz.2_Silent_p.N233N|SIGLEC6_uc002pxa.2_Silent_p.N233N|SIGLEC6_uc010ydb.1_Silent_p.N186N|SIGLEC6_uc010ydc.1_Silent_p.N222N|SIGLEC6_uc010eoz.1_Silent_p.N211N|SIGLEC6_uc010epb.1_Silent_p.N186N|SIGLEC6_uc010epa.1_Silent_p.N222N	NM_001245	NP_001236	O43699	SIGL6_HUMAN	sialic acid binding Ig-like lectin 6 isoform 1	233	Extracellular (Potential).				cell adhesion|cell-cell signaling	cytoplasm|extracellular region|integral to plasma membrane|membrane fraction|nucleus				ovary(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00115)|OV - Ovarian serous cystadenocarcinoma(262;0.0165)		CACAGGAGACATTGAGCTGGA	0.627													78	209	---	---	---	---	PASS	G	52033942	G	G	52033942	2	3	156	1	0	0	0	0	0	0	0	1	14312	214	8	5		5	SIGLEC6	19	52033942	Silent	SNP	A	TCGA-66-2773-01A-01D-1267-08	2544724	52033942	7095041	607	55871										
ZNF816A	125893	broad.mit.edu	37	chr19	53454331	53454331	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	attaaaggctttgccacactCattactttggcaaggttttt	7	8	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:53454331C>G	uc002qal.1	-	5	998	c.697G>C	c.(697-699)GAG>CAG	p.E233Q	ZNF321_uc010eqj.2_Intron|ZNF321_uc002qak.1_Intron|ZNF816A_uc002qam.1_Missense_Mutation_p.E217Q	NM_001031665	NP_001026835	Q0VGE8	ZN816_HUMAN	zinc finger protein 816A	233	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0313)		TTGCCACACTCATTACTTTGG	0.353													24	187	---	---	---	---	PASS	G	53454331	G	G	53454331	3	3	156	1	0	0	0	0	1	0	0	0	18174	835	29	2	1262	2	ZNF816A	19	53454331	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1420389	53454331	5674652	608	55872										
ZNF665	79788	broad.mit.edu	37	chr19	53668754	53668754	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gatgggtagtcaggcttgagCgaacactaaaggctttgcca	13	8	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:53668754C>A	uc010eqm.1	-	4	1089	c.989G>T	c.(988-990)CGC>CTC	p.R330L		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	265	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		CAGGCTTGAGCGAACACTAAA	0.428													10	260	---	---	---	---	PASS	A	53668754	A	A	53668754	3	1	156	1	0	0	0	0	1	0	0	0	18070	768	27	1	1051	1	ZNF665	19	53668754	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	214423	53668754	5460229	609	55873										
ZNF665	79788	broad.mit.edu	37	chr19	53669024	53669024	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaggttgactgaagacctttCcacattcattacatttgtaa	6	8	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:53669024C>T	uc010eqm.1	-	4	819	c.719G>A	c.(718-720)GGA>GAA	p.G240E		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	175	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		GAAGACCTTTCCACATTCATT	0.403													52	258	---	---	---	---	PASS	T	53669024	T	T	53669024	3	4	156	1	0	0	0	0	1	0	0	0	18070	855	30	2	1321	2	ZNF665	19	53669024	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	270	53669024	5459959	610	55874										
TMC4	147798	broad.mit.edu	37	chr19	54665951	54665951	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtagatgagccccagcacctCgtcgggcacctggaactcct	11	15	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:54665951C>T	uc010erf.2	-	11	1723	c.1591G>A	c.(1591-1593)GAG>AAG	p.E531K	LENG1_uc002qdm.2_5'Flank|TMC4_uc002qdn.2_Missense_Mutation_p.E245K|TMC4_uc002qdo.2_Missense_Mutation_p.E525K	NM_001145303	NP_001138775	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 1	531	Extracellular (Potential).					integral to membrane				pancreas(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CCCAGCACCTCGTCGGGCACC	0.652													15	51	---	---	---	---	PASS	T	54665951	T	T	54665951	3	4	156	1	0	0	0	0	1	0	0	0	15984	893	31	2	567	2	TMC4	19	54665951	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	996927	54665951	4463032	611	55875										
LILRA2	11027	broad.mit.edu	37	chr19	55085814	55085814	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gctgagccaggctctgtgatCatccagggaagtcctgtgac	13	11	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:55085814C>T	uc002qgg.3	+	3	206	c.117C>T	c.(115-117)ATC>ATT	p.I39I	LILRA2_uc010ern.2_Silent_p.I39I|LILRA2_uc002qgf.2_Silent_p.I39I|LILRA2_uc010yfe.1_Silent_p.I39I|LILRA2_uc010yff.1_Silent_p.I27I|LILRA2_uc010ero.2_Silent_p.I27I|LILRA2_uc010yfg.1_Silent_p.I39I	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	39	Extracellular (Potential).|Ig-like C2-type 1.				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		GCTCTGTGATCATCCAGGGAA	0.542													39	313	---	---	---	---	PASS	T	55085814	T	T	55085814	2	4	156	1	0	0	0	0	0	0	0	1	8785	816	29	2		2	LILRA2	19	55085814	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	419863	55085814	4043169	612	55876										
ZSCAN5B	342933	broad.mit.edu	37	chr19	56702224	56702224	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	actgggactctttggaagctGaggctctggggatgacagtc	15	8	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:56702224G>A	uc010ygh.1	-	3	721	c.721C>T	c.(721-723)CAG>TAG	p.Q241*		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	241					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TTTGGAAGCTGAGGCTCTGGG	0.557													11	275	---	---	---	---	PASS	A	56702224	A	A	56702224	4	1	156	1	0	0	0	0	0	1	0	0	18236	1299	45	2	774	2	ZSCAN5B	19	56702224	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1616410	56702224	2426759	613	55877										
ZNF583	147949	broad.mit.edu	37	chr19	56935138	56935138	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtggatacctaattgtacatCagagaattcatactggagag	10	6	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr19:56935138C>T	uc010ygl.1	+	5	1276	c.1111C>T	c.(1111-1113)CAG>TAG	p.Q371*	ZNF583_uc002qnc.2_Nonsense_Mutation_p.Q371*|ZNF583_uc010ygm.1_Nonsense_Mutation_p.Q371*	NM_001159860	NP_001153332	Q96ND8	ZN583_HUMAN	zinc finger protein 583	371	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0564)		AATTGTACATCAGAGAATTCA	0.428													9	161	---	---	---	---	PASS	T	56935138	T	T	56935138	4	4	156	1	0	0	0	0	0	1	0	0	18012	827	29	2	1125	2	ZNF583	19	56935138	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	232914	56935138	2193845	614	55878										
TGM6	343641	broad.mit.edu	37	chr20	2411116	2411116	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gagaatcccaattacaatatCttactctaagtataaagaag	5	7	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:2411116C>G	uc002wfy.1	+	11	1764	c.1703C>G	c.(1702-1704)TCT>TGT	p.S568C	TGM6_uc010gal.1_Missense_Mutation_p.S568C	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	568					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	ATTACAATATCTTACTCTAAG	0.468													9	273	---	---	---	---	PASS	G	2411116	G	G	2411116	3	3	156	1	0	0	0	0	1	0	0	0	15831	913	32	2	1745	2	TGM6	20	2411116	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08		2411116	60614404	615	55879										
BTBD3	22903	broad.mit.edu	37	chr20	11899807	11899807	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggccaccaggtgggactcaaCggttgccaggacacaaagta	13	11	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:11899807C>T	uc002wnz.2	+	2	759	c.400C>T	c.(400-402)CGG>TGG	p.R134W	BTBD3_uc002wny.2_Missense_Mutation_p.R73W|BTBD3_uc002woa.2_Missense_Mutation_p.R73W|BTBD3_uc010zrf.1_Intron|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	134	BTB.									ovary(2)|central_nervous_system(1)	3						TGGGACTCAACGGTTGCCAGG	0.453													7	60	---	---	---	---	PASS	T	11899807	T	T	11899807	3	4	156	1	0	0	0	0	1	0	0	0	1544	527	19	1	406	1	BTBD3	20	11899807	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	9488691	11899807	51125713	616	55880										
CRNKL1	51340	broad.mit.edu	37	chr20	20033046	20033046	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggacgctagaaatcggctctGagagctcaccgaaaccacaa	10	12	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:20033046G>A	uc002wrs.2	-	2	456	c.424C>T	c.(424-426)CAG>TAG	p.Q142*	C20orf26_uc010gcw.1_5'Flank|C20orf26_uc010zse.1_5'Flank|C20orf26_uc002wru.2_5'Flank|CRNKL1_uc002wrt.1_Nonsense_Mutation_p.Q130*	NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	142					spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						AATCGGCTCTGAGAGCTCACC	0.592													13	173	---	---	---	---	PASS	A	20033046	A	A	20033046	4	1	156	1	0	0	0	0	0	1	0	0	3891	1299	45	2	2178	2	CRNKL1	20	20033046	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	8133239	20033046	42992474	617	55881										
XRN2	22803	broad.mit.edu	37	chr20	21314742	21314742	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cttacagaaagtggttatgtCaatctgcaaagagtacagat	9	6	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:21314742C>T	uc002wsf.1	+	13	1247	c.1152C>T	c.(1150-1152)GTC>GTT	p.V384V	XRN2_uc002wsg.1_Silent_p.V308V|XRN2_uc010zsk.1_Silent_p.V330V	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	384					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						GTGGTTATGTCAATCTGCAAA	0.313													17	173	---	---	---	---	PASS	T	21314742	T	T	21314742	2	4	156	1	0	0	0	0	0	0	0	1	17457	813	29	2		2	XRN2	20	21314742	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1281696	21314742	41710778	618	55882										
NKX2-2	4821	broad.mit.edu	37	chr20	21492991	21492991	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccttggagaaaagcactcgcCgctttcgcttcttgccggcg	11	14	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:21492991C>A	uc002wsi.2	-	2	749	c.392G>T	c.(391-393)CGG>CTG	p.R131L		NM_002509	NP_002500	O95096	NKX22_HUMAN	NK2 transcription factor related, locus 2	131	Homeobox.				brain development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	chromatin binding|core promoter proximal region DNA binding|transcription coactivator activity			pancreas(1)|skin(1)	2						AAGCACTCGCCGCTTTCGCTT	0.687													13	24	---	---	---	---	PASS	A	21492991	A	A	21492991	3	1	156	1	0	0	0	0	1	0	0	0	10450	652	23	1	433	1	NKX2-2	20	21492991	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	178249	21492991	41532529	619	55883										
CDK5RAP1	51654	broad.mit.edu	37	chr20	31967306	31967306	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gggtggggagaggtaaaacgGatcctcatttcaggatctac	14	7	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:31967306G>T	uc010gek.2	-	9	1234	c.1110C>A	c.(1108-1110)ATC>ATA	p.I370I	CDK5RAP1_uc002wyy.2_Silent_p.I266I|CDK5RAP1_uc002wyz.2_Silent_p.I356I|CDK5RAP1_uc002wza.2_Silent_p.I356I|CDK5RAP1_uc010gel.2_Silent_p.I265I|CDK5RAP1_uc010gem.2_Intron|CDK5RAP1_uc002wzc.1_Silent_p.I356I	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	370					brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5						AGGTAAAACGGATCCTCATTT	0.468													11	69	---	---	---	---	PASS	T	31967306	T	T	31967306	2	4	156	1	0	0	0	0	0	0	0	1	3145	1164	41	2		2	CDK5RAP1	20	31967306	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	10474315	31967306	31058214	620	55884										
NDRG3	57446	broad.mit.edu	37	chr20	35350132	35350132	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gagctgaacatcctgaagttCatccatgaggtcagataacg	10	9	2	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:35350132C>T	uc002xfw.2	-	2	89	c.7G>A	c.(7-9)GAA>AAA	p.E3K	NDRG3_uc002xfx.2_Missense_Mutation_p.E3K|NDRG3_uc010zvq.1_5'UTR|NDRG3_uc010zvr.1_5'UTR	NM_032013	NP_114402	Q9UGV2	NDRG3_HUMAN	N-myc downstream regulated gene 3 isoform a	3					cell differentiation|negative regulation of cell growth|spermatogenesis	cytoplasm				ovary(1)	1		Myeloproliferative disorder(115;0.00878)				TCCTGAAGTTCATCCATGAGG	0.363													8	126	---	---	---	---	PASS	T	35350132	T	T	35350132	3	4	156	1	0	0	0	0	1	0	0	0	10253	835	29	2	1180	2	NDRG3	20	35350132	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3382826	35350132	27675388	621	55885										
RALGAPB	57148	broad.mit.edu	37	chr20	37153584	37153584	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctcttgaaaccattttgcctGacaggtaagctatcattctc	6	11	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:37153584G>C	uc002xiw.2	+	11	2040	c.1783G>C	c.(1783-1785)GAC>CAC	p.D595H	RALGAPB_uc010zvz.1_3'UTR|RALGAPB_uc002xix.2_Missense_Mutation_p.D595H|RALGAPB_uc002xiy.1_Missense_Mutation_p.D595H|RALGAPB_uc002xiz.2_Missense_Mutation_p.D373H|RALGAPB_uc002xja.1_Missense_Mutation_p.D322H	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	595					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						CATTTTGCCTGACAGGTAAGC	0.423													33	450	---	---	---	---	PASS	C	37153584	C	C	37153584	3	2	156	1	0	0	0	0	1	0	0	0	13015	1290	45	2	1821	2	RALGAPB	20	37153584	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1803452	37153584	25871936	622	55886										
RALGAPB	57148	broad.mit.edu	37	chr20	37154046	37154046	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tagctttttattttttggcaGagaactctcaaaattcaaaa	5	6	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:37154046G>A	uc002xiw.2	+	12	2045	c.1788_splice	c.e12-1	p.R596_splice	RALGAPB_uc002xix.2_Splice_Site_p.R596_splice|RALGAPB_uc002xiy.1_Splice_Site_p.R596_splice|RALGAPB_uc002xiz.2_Splice_Site_p.R374_splice|RALGAPB_uc002xja.1_Splice_Site_p.R323_splice	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit						activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						TTTTTTGGCAGAGAACTCTCA	0.343													13	204	---	---	---	---	PASS	A	37154046	A	A	37154046	5	1	156	1	0	0	0	0	0	0	1	0	13015	956	33	2	1829	2	RALGAPB	20	37154046	Splice_Site	SNP	G	TCGA-66-2773-01A-01D-1267-08	462	37154046	25871474	623	55887										
TOP1	7150	broad.mit.edu	37	chr20	39704838	39704838	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaagattctgaaaagaaacaCaaagagaaggagaagaccaa	9	5	1	6			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:39704838C>G	uc002xjl.2	+	4	429	c.183C>G	c.(181-183)CAC>CAG	p.H61Q	TOP1_uc010gge.1_RNA	NM_003286	NP_003277	P11387	TOP1_HUMAN	DNA topoisomerase I	61	Lys-rich.				DNA topological change|interspecies interaction between organisms|phosphorylation|programmed cell death|response to drug	chromosome|nucleolus|nucleoplasm	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity|protein binding			breast(3)|ovary(2)|central_nervous_system(1)|kidney(1)	7		Myeloproliferative disorder(115;0.00878)			Irinotecan(DB00762)|Lucanthone(DB04967)|Topotecan(DB01030)	aaaagaaacacaaagagaagg	0.204			T	NUP98	AML*								17	155	---	---	---	---	PASS	G	39704838	G	G	39704838	3	3	156	1	0	0	0	0	1	0	0	0	16360	477	17	4	197	4	TOP1	20	39704838	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2550792	39704838	23320682	624	55888										
HNF4A	3172	broad.mit.edu	37	chr20	43057096	43057096	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cacctcagcaacggacagatGtgtgagtggccccgacccag	12	14	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:43057096G>A	uc002xma.2	+	9	1340	c.1251G>A	c.(1249-1251)ATG>ATA	p.M417I	HNF4A_uc002xlu.2_Missense_Mutation_p.M395I|HNF4A_uc002xlv.2_Missense_Mutation_p.M395I|HNF4A_uc002xlz.2_Missense_Mutation_p.M417I|HNF4A_uc010ggq.2_Missense_Mutation_p.M410I	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	417					blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			ACGGACAGATGTGTGAGTGGC	0.572													10	73	---	---	---	---	PASS	A	43057096	A	A	43057096	3	1	156	1	0	0	0	0	1	0	0	0	7253	1391	48	3	1463	3	HNF4A	20	43057096	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3352258	43057096	19968424	625	55889										
NCOA3	8202	broad.mit.edu	37	chr20	46266425	46266425	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggataatctagatgctattCttggtgatctgactagttct	9	6	4	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:46266425C>T	uc002xtk.2	+	13	2615	c.2410C>T	c.(2410-2412)CTT>TTT	p.L804F	NCOA3_uc010ght.1_Missense_Mutation_p.L814F|NCOA3_uc002xtl.2_Missense_Mutation_p.L804F|NCOA3_uc002xtm.2_Missense_Mutation_p.L804F|NCOA3_uc002xtn.2_Missense_Mutation_p.L804F|NCOA3_uc010zyc.1_Missense_Mutation_p.L599F	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	804					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						AGATGCTATTCTTGGTGATCT	0.358													12	322	---	---	---	---	PASS	T	46266425	T	T	46266425	3	4	156	1	0	0	0	0	1	0	0	0	10230	913	32	2	2482	2	NCOA3	20	46266425	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3209329	46266425	16759095	626	55890										
ZNFX1	57169	broad.mit.edu	37	chr20	47874027	47874027	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggtctagcctcatggccagaAgcattttagccaactcctgg	10	12	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:47874027A>C	uc002xui.2	-	8	2838	c.2591T>G	c.(2590-2592)CTT>CGT	p.L864R		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	864							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CATGGCCAGAAGCATTTTAGC	0.557													31	139	---	---	---	---	PASS	C	47874027	C	C	47874027	3	2	156	1	0	0	0	0	1	0	0	0	18202	72	3	5	3193	5	ZNFX1	20	47874027	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08	1607602	47874027	15151493	627	55891										
CASS4	57091	broad.mit.edu	37	chr20	55026901	55026901	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggtgttcccctgatatcagtGactaccttaagaagaggcgg	12	9	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:55026901G>A	uc002xxp.2	+	6	894	c.669G>A	c.(667-669)GTG>GTA	p.V223V	CASS4_uc002xxq.3_Silent_p.V223V|CASS4_uc002xxr.2_Silent_p.V223V|CASS4_uc010zze.1_Silent_p.V169V|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	223					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						TGATATCAGTGACTACCTTAA	0.493													25	113	---	---	---	---	PASS	A	55026901	A	A	55026901	2	1	156	1	0	0	0	0	0	0	0	1	2683	1277	45	2		2	CASS4	20	55026901	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	7152874	55026901	7998619	628	55892										
DIDO1	11083	broad.mit.edu	37	chr20	61512009	61512009	+	Missense_Mutation	SNP	G	A	A													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcccgggaaattggggccgtGaagccctgacatccccaaag							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:61512009G>A	uc002ydr.1	-	16	5563	c.5299C>T	c.(5299-5301)CAC>TAC	p.H1767Y	DIDO1_uc002yds.1_Missense_Mutation_p.H1767Y	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1767	Pro-rich.				apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					TTGGGGCCGTGAAGCCCTGAC	0.642													17	290	---	---	---	---	PASS	A	61512009	A	A	61512009	3	1	156	1	0	0	0	0	1	0	0	0	4522	1290	45	2	1427	2	DIDO1	20	61512009	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	6485108	61512009	1513511	629	55893	997	2								
DIDO1	11083	broad.mit.edu	37	chr20	61512017	61512017	+	Nonsense_Mutation	SNP	G	T	T													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aattggggccgtgaagccctGacatccccaaagcatgaggt							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:61512017G>T	uc002ydr.1	-	16	5555	c.5291C>A	c.(5290-5292)TCA>TAA	p.S1764*	DIDO1_uc002yds.1_Nonsense_Mutation_p.S1764*	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1764	Pro-rich.				apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GTGAAGCCCTGACATCCCCAA	0.652													18	277	---	---	---	---	PASS	T	61512017	T	T	61512017	4	4	156	1	0	0	0	0	0	1	0	0	4522	1294	45	2	1435	2	DIDO1	20	61512017	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	8	61512017	1513503	630	55894	997	2								
DIDO1	11083	broad.mit.edu	37	chr20	61512069	61512069	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctgaccctgaaacgggggctGagagccccccactttctgtc	11	15	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:61512069G>C	uc002ydr.1	-	16	5503	c.5239C>G	c.(5239-5241)CAG>GAG	p.Q1747E	DIDO1_uc002yds.1_Missense_Mutation_p.Q1747E	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1747	Pro-rich.				apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					AACGGGGGCTGAGAGCCCCCC	0.682													13	282	---	---	---	---	PASS	C	61512069	C	C	61512069	3	2	156	1	0	0	0	0	1	0	0	0	4522	1299	45	2	1487	2	DIDO1	20	61512069	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	52	61512069	1513451	631	55895										
DIDO1	11083	broad.mit.edu	37	chr20	61512895	61512895	+	Silent	SNP	G	A	A													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atcttctgttgctccaccagGgagggcgtcgcagccccggc							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:61512895G>A	uc002ydr.1	-	16	4677	c.4413C>T	c.(4411-4413)TCC>TCT	p.S1471S	DIDO1_uc002yds.1_Silent_p.S1471S	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1471					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GCTCCACCAGGGAGGGCGTCG	0.592													16	323	---	---	---	---	PASS	A	61512895	A	A	61512895	2	1	156	1	0	0	0	0	0	0	0	1	4522	1219	43	3		3	DIDO1	20	61512895	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	826	61512895	1512625	632	55896	998	2								
DIDO1	11083	broad.mit.edu	37	chr20	61512896	61512896	+	Missense_Mutation	SNP	G	A	A													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tcttctgttgctccaccaggGagggcgtcgcagccccggcc							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr20:61512896G>A	uc002ydr.1	-	16	4676	c.4412C>T	c.(4411-4413)TCC>TTC	p.S1471F	DIDO1_uc002yds.1_Missense_Mutation_p.S1471F	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1471					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CTCCACCAGGGAGGGCGTCGC	0.587													16	318	---	---	---	---	PASS	A	61512896	A	A	61512896	3	1	156	1	0	0	0	0	1	0	0	0	4522	1174	41	2	2314	2	DIDO1	20	61512896	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1	61512896	1512624	633	55897	998	2								
NRIP1	8204	broad.mit.edu	37	chr21	16338048	16338048	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctatcttgattttgtcttagCaatcgacttagcagaccatt	6	9	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr21:16338048C>T	uc002yjx.2	-	4	3064	c.2466G>A	c.(2464-2466)TTG>TTA	p.L822L		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	822	Repression domain 3.|LXXLL motif 8.				androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		TTTGTCTTAGCAATCGACTTA	0.423													57	125	---	---	---	---	PASS	T	16338048	T	T	16338048	2	4	156	1	0	0	0	0	0	0	0	1	10652	709	25	3		3	NRIP1	21	16338048	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08		16338048	31791847	634	55898										
KRTAP13-2	337959	broad.mit.edu	37	chr21	31744142	31744142	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagccacagcttccataaccCagggatctgacaccactgga	8	14	1	1	rs145274953		TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr21:31744142C>A	uc002ynz.3	-	1	416	c.390G>T	c.(388-390)CTG>CTT	p.L130L		NM_181621	NP_853652	Q52LG2	KR132_HUMAN	keratin associated protein 13-2	130						intermediate filament					0						TTCCATAACCCAGGGATCTGA	0.582													19	80	---	---	---	---	PASS	A	31744142	A	A	31744142	2	1	156	1	0	0	0	0	0	0	0	1	8523	581	21	3		3	KRTAP13-2	21	31744142	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	15406094	31744142	16385753	635	55899										
SLC37A1	54020	broad.mit.edu	37	chr21	43983979	43983979	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caccctgtttgacgtgggcgGaatctttggtgagttcatta	12	8	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr21:43983979G>T	uc002zbi.2	+	14	1539	c.1127G>T	c.(1126-1128)GGA>GTA	p.G376V	SLC37A1_uc002zbj.2_Missense_Mutation_p.G376V	NM_018964	NP_061837	P57057	GLPT_HUMAN	solute carrier family 37 member 1	376	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane					0						GACGTGGGCGGAATCTTTGGT	0.488													26	117	---	---	---	---	PASS	T	43983979	T	T	43983979	3	4	156	1	0	0	0	0	1	0	0	0	14597	1174	41	2	1173	2	SLC37A1	21	43983979	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	12239837	43983979	4145916	636	55900										
WDR4	10785	broad.mit.edu	37	chr21	44293671	44293671	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	catctcatacctgacactcaGacattgccatggttttgtac	6	12	2	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr21:44293671G>C	uc002zci.2	-	3	359	c.286C>G	c.(286-288)CTG>GTG	p.L96V	WDR4_uc002zck.1_Missense_Mutation_p.L96V|WDR4_uc002zcl.1_Intron|WDR4_uc010gpg.1_Missense_Mutation_p.L96V|WDR4_uc011aew.1_5'UTR|WDR4_uc010gph.1_Intron	NM_033661	NP_387510	P57081	WDR4_HUMAN	WD repeat domain 4 protein	96	WD 1.				tRNA modification	cytoplasm|nucleoplasm	protein binding			ovary(1)	1				Colorectal(79;0.0165)|Lung(125;0.0484)|STAD - Stomach adenocarcinoma(101;0.0624)|COAD - Colon adenocarcinoma(84;0.128)|LUSC - Lung squamous cell carcinoma(216;0.244)		CTGACACTCAGACATTGCCAT	0.448													84	622	---	---	---	---	PASS	C	44293671	C	C	44293671	3	2	156	1	0	0	0	0	1	0	0	0	17290	933	33	2	988	2	WDR4	21	44293671	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	309692	44293671	3836224	637	55901										
ITGB2	3689	broad.mit.edu	37	chr21	46321448	46321448	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	catggcgtccagcccaccctCgggtgcatccaggtttccgg	12	16	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr21:46321448C>G	uc002zgd.2	-	5	744	c.700G>C	c.(700-702)GAG>CAG	p.E234Q	ITGB2_uc002zge.2_Missense_Mutation_p.E234Q|ITGB2_uc002zgf.3_Missense_Mutation_p.E234Q|ITGB2_uc011afl.1_Missense_Mutation_p.E156Q|ITGB2_uc010gpw.2_Missense_Mutation_p.E177Q|ITGB2_uc002zgg.2_Missense_Mutation_p.E234Q	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	234	Extracellular (Potential).|VWFA.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	AGCCCACCCTCGGGTGCATCC	0.647													10	110	---	---	---	---	PASS	G	46321448	G	G	46321448	3	3	156	1	0	0	0	0	1	0	0	0	7894	893	31	2	1653	2	ITGB2	21	46321448	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2027777	46321448	1808447	638	55902										
CDC45	8318	broad.mit.edu	37	chr22	19483524	19483524	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagagacatcctctttgactAcgagcagtatgaatatcatg	8	8	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:19483524A>G	uc002zpr.2	+	7	639	c.563A>G	c.(562-564)TAC>TGC	p.Y188C	CDC45_uc011agz.1_Missense_Mutation_p.Y183C|CDC45_uc011aha.1_Missense_Mutation_p.Y220C|CDC45_uc002zps.2_Missense_Mutation_p.Y188C|CDC45_uc002zpt.2_Missense_Mutation_p.Y142C	NM_003504	NP_003495	O75419	CDC45_HUMAN	CDC45-like	188					DNA replication checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	centrosome|nucleoplasm	protein binding			lung(1)	1						CTCTTTGACTACGAGCAGTAT	0.388													107	362	---	---	---	---	PASS	G	19483524	G	G	19483524	3	3	156	1	0	0	0	0	1	0	0	0	3081	391	14	5	689	5	CDC45	22	19483524	Missense_Mutation	SNP	A	TCGA-66-2773-01A-01D-1267-08		19483524	31821042	639	55903										
CCDC116	164592	broad.mit.edu	37	chr22	21990876	21990876	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtcatccgcaagtacgagttCgaaaaggacctcagtaagca	10	10	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:21990876C>T	uc002zve.2	+	5	1452	c.1359C>T	c.(1357-1359)TTC>TTT	p.F453F		NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	453										ovary(1)|skin(1)	2	Colorectal(54;0.105)					AGTACGAGTTCGAAAAGGACC	0.562													28	226	---	---	---	---	PASS	T	21990876	T	T	21990876	2	4	156	1	0	0	0	0	0	0	0	1	2753	883	31	2		2	CCDC116	22	21990876	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	2507352	21990876	29313690	640	55904										
CABIN1	23523	broad.mit.edu	37	chr22	24483605	24483605	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	catgtcctatgccttgcactCattcgcctcacgtcaattga	6	14	3	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:24483605C>G	uc002zzi.1	+	23	3591	c.3464C>G	c.(3463-3465)TCA>TGA	p.S1155*	CABIN1_uc002zzj.1_Nonsense_Mutation_p.S1105*|CABIN1_uc002zzl.1_Nonsense_Mutation_p.S1155*	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1155					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GCCTTGCACTCATTCGCCTCA	0.587													46	277	---	---	---	---	PASS	G	24483605	G	G	24483605	4	3	156	1	0	0	0	0	0	1	0	0	2528	838	29	2	3550	2	CABIN1	22	24483605	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2492729	24483605	26820961	641	55905										
MYO18B	84700	broad.mit.edu	37	chr22	26219576	26219576	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccaccttcaagcaccaccttCgacagatcatccagcaaatg	5	16	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:26219576C>T	uc003abz.1	+	13	2876	c.2626C>T	c.(2626-2628)CGA>TGA	p.R876*	MYO18B_uc003aca.1_Nonsense_Mutation_p.R757*|MYO18B_uc010guy.1_Nonsense_Mutation_p.R757*|MYO18B_uc010guz.1_Nonsense_Mutation_p.R757*|MYO18B_uc011aka.1_Nonsense_Mutation_p.R30*|MYO18B_uc011akb.1_Nonsense_Mutation_p.R389*	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	876	Myosin head-like.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GCACCACCTTCGACAGATCAT	0.572													24	694	---	---	---	---	PASS	T	26219576	T	T	26219576	4	4	156	1	0	0	0	0	0	1	0	0	10066	876	31	2	2672	2	MYO18B	22	26219576	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1735971	26219576	25084990	642	55906										
NIPSNAP1	8508	broad.mit.edu	37	chr22	29957616	29957616	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcagcatctggctccgctccCttcggaactccaggtactcc	9	17	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:29957616C>A	uc003afx.3	-	6	531	c.458G>T	c.(457-459)AGG>ATG	p.R153M	NIPSNAP1_uc011akp.1_Missense_Mutation_p.R133M	NM_003634	NP_003625	Q9BPW8	NIPS1_HUMAN	nipsnap homolog 1	153								p.?(1)		skin(1)	1						GCTCCGCTCCCTTCGGAACTC	0.567													107	245	---	---	---	---	PASS	A	29957616	A	A	29957616	3	1	156	1	0	0	0	0	1	0	0	0	10429	681	24	3	416	3	NIPSNAP1	22	29957616	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	3738040	29957616	21346950	643	55907										
MTP18	51537	broad.mit.edu	37	chr22	30823381	30823381	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	catccccatcattatccaccCcattgacaggtgggtacctt	6	15	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:30823381C>A	uc003ahw.1	+	3	567	c.419C>A	c.(418-420)CCC>CAC	p.P140H	SEC14L2_uc010gvw.1_Intron|MTP18_uc010gvx.1_Intron|MTP18_uc003ahv.1_Missense_Mutation_p.P302H|MTP18_uc010gvy.1_Intron|MTP18_uc003ahx.1_Intron	NM_016498	NP_057582	Q9UDX5	MTFP1_HUMAN	mitochondrial protein 18 kDa isoform a	140	Helical; (Potential).				apoptosis|carbon utilization	integral to membrane|mitochondrial inner membrane	carbonate dehydratase activity|zinc ion binding				0						ATTATCCACCCCATTGACAGG	0.577													143	369	---	---	---	---	PASS	A	30823381	A	A	30823381	3	1	156	1	0	0	0	0	1	0	0	0	9955	623	22	3	429	3	MTP18	22	30823381	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	865765	30823381	20481185	644	55908										
OSBP2	23762	broad.mit.edu	37	chr22	31302239	31302239	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gagaagaggctggatccgctGaccggggagatggcctgtgt	18	8	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:31302239G>A	uc003aiy.1	+	14	2768	c.2664G>A	c.(2662-2664)CTG>CTA	p.L888L	OSBP2_uc011ala.1_Silent_p.L722L|OSBP2_uc010gwc.1_Silent_p.L715L|OSBP2_uc011alb.1_3'UTR|OSBP2_uc003aiz.1_Silent_p.L887L|OSBP2_uc003aja.1_Silent_p.L521L|OSBP2_uc011alc.1_Silent_p.L631L|OSBP2_uc003ajb.2_Silent_p.L433L|OSBP2_uc011ald.1_Silent_p.L432L|OSBP2_uc010gwd.1_3'UTR	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	888					lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						TGGATCCGCTGACCGGGGAGA	0.622													26	229	---	---	---	---	PASS	A	31302239	A	A	31302239	2	1	156	1	0	0	0	0	0	0	0	1	11274	1277	45	2		2	OSBP2	22	31302239	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	478858	31302239	20002327	645	55909										
DEPDC5	9681	broad.mit.edu	37	chr22	32218747	32218747	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cagtggaacagaggagctttCtgtcggcctgcttagcaaca	12	10	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:32218747C>T	uc003als.2	+	24	2217	c.2075C>T	c.(2074-2076)TCT>TTT	p.S692F	DEPDC5_uc011als.1_Intron|DEPDC5_uc011alu.1_Missense_Mutation_p.S692F|DEPDC5_uc011alv.1_Intron|DEPDC5_uc003alt.2_Missense_Mutation_p.S692F|DEPDC5_uc003alu.2_Missense_Mutation_p.S132F|DEPDC5_uc003alv.2_Intron|DEPDC5_uc011alw.1_Missense_Mutation_p.S13F|DEPDC5_uc011alt.1_Intron	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	692					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						GAGGAGCTTTCTGTCGGCCTG	0.527													17	97	---	---	---	---	PASS	T	32218747	T	T	32218747	3	4	156	1	0	0	0	0	1	0	0	0	4442	913	32	2	2183	2	DEPDC5	22	32218747	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	916508	32218747	19085819	646	55910										
MYH9	4627	broad.mit.edu	37	chr22	36688126	36688126	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cgtccagctcctgctgcagcCgcgtcttggtcttctccagc	10	17	3	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:36688126C>T	uc003apg.2	-	31	4481	c.4250G>A	c.(4249-4251)CGG>CAG	p.R1417Q		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1417	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CTGCTGCAGCCGCGTCTTGGT	0.622			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				10	213	---	---	---	---	PASS	T	36688126	T	T	36688126	3	4	156	1	0	0	0	0	1	0	0	0	10042	652	23	1	1676	1	MYH9	22	36688126	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4469379	36688126	14616440	647	55911										
MYH9	4627	broad.mit.edu	37	chr22	36710282	36710282	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gcgctggtactcctcctgctCcaggatgaacatggtgtggt	13	11	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:36710282C>G	uc003apg.2	-	13	1693	c.1462G>C	c.(1462-1464)GAG>CAG	p.E488Q	MYH9_uc003aph.1_Missense_Mutation_p.E352Q	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	488	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						TCCTCCTGCTCCAGGATGAAC	0.527			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				12	268	---	---	---	---	PASS	G	36710282	G	G	36710282	3	3	156	1	0	0	0	0	1	0	0	0	10042	864	30	2	4536	2	MYH9	22	36710282	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	22156	36710282	14594284	648	55912										
TRIOBP	11078	broad.mit.edu	37	chr22	38111832	38111832	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgggacgagctcgcagtgatGatcccgaggaggcctcggga	17	10	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:38111832G>A	uc003atr.2	+	6	790	c.519G>A	c.(517-519)ATG>ATA	p.M173I	TRIOBP_uc003atu.2_Missense_Mutation_p.M1I|TRIOBP_uc003atq.1_Missense_Mutation_p.M173I|TRIOBP_uc003ats.1_Missense_Mutation_p.M1I	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	173					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					TCGCAGTGATGATCCCGAGGA	0.642													20	94	---	---	---	---	PASS	A	38111832	A	A	38111832	3	1	156	1	0	0	0	0	1	0	0	0	16550	1290	45	2	533	2	TRIOBP	22	38111832	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1401550	38111832	13192734	649	55913										
KCNJ4	3761	broad.mit.edu	37	chr22	38823646	38823646	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atggtgccaatcatgaaggaGtcgatgacgcagcccacgat	12	10	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:38823646G>T	uc003avs.1	-	2	589	c.492C>A	c.(490-492)GAC>GAA	p.D164E	KCNJ4_uc003avt.1_Missense_Mutation_p.D164E	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	164	Helical; Name=M2; (By similarity).	Role in the control of polyamine-mediated channel gating and in the blocking by intracellular magnesium (By similarity).			synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					TCATGAAGGAGTCGATGACGC	0.632													48	93	---	---	---	---	PASS	T	38823646	T	T	38823646	3	4	156	1	0	0	0	0	1	0	0	0	8053	1020	36	3	849	3	KCNJ4	22	38823646	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	711814	38823646	12480920	650	55914										
GTPBP1	9567	broad.mit.edu	37	chr22	39112737	39112737	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tggggagctggacaatggccGaggctttgcccgccagaaac	15	11	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:39112737G>A	uc003awg.2	+	4	720	c.566G>A	c.(565-567)CGA>CAA	p.R189Q		NM_004286	NP_004277	O00178	GTPB1_HUMAN	GTP binding protein 1	189					immune response|positive regulation of mRNA catabolic process|signal transduction	cytoplasmic exosome (RNase complex)|cytosol	GTP binding|GTPase activity			ovary(1)	1	Melanoma(58;0.04)					GACAATGGCCGAGGCTTTGCC	0.562													20	107	---	---	---	---	PASS	A	39112737	A	A	39112737	3	1	156	1	0	0	0	0	1	0	0	0	6878	1058	37	2	580	2	GTPBP1	22	39112737	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	289091	39112737	12191829	651	55915										
CBX7	23492	broad.mit.edu	37	chr22	39530740	39530740	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gccttgtgggagctccgcagGtccatgctgtacagccgctg	14	13	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:39530740G>T	uc003axb.2	-	5	353	c.264C>A	c.(262-264)GAC>GAA	p.D88E	CBX7_uc003axc.2_Intron	NM_175709	NP_783640	O95931	CBX7_HUMAN	chromobox homolog 7	88					chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear chromatin|PcG protein complex				ovary(1)	1	Melanoma(58;0.04)					AGCTCCGCAGGTCCATGCTGT	0.697													6	6	---	---	---	---	PASS	T	39530740	T	T	39530740	3	4	156	1	0	0	0	0	1	0	0	0	2723	1252	44	3	499	3	CBX7	22	39530740	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	418003	39530740	11773826	652	55916										
SGSM3	27352	broad.mit.edu	37	chr22	40802122	40802122	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cactggttcctcacggccttCgccagcgtggtggacatcaa	11	14	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:40802122C>T	uc003ayu.1	+	9	1064	c.855C>T	c.(853-855)TTC>TTT	p.F285F	SGSM3_uc010gyc.1_Silent_p.F285F|SGSM3_uc011aos.1_Silent_p.F218F|SGSM3_uc011aot.1_Silent_p.F222F|SGSM3_uc010gyd.1_Silent_p.F285F	NM_015705	NP_056520	Q96HU1	SGSM3_HUMAN	small G protein signaling modulator 3	285	Rab-GAP TBC.				cell cycle arrest|Rap protein signal transduction	cytoplasm	Rab GTPase activator activity|Rab GTPase binding			ovary(2)	2						TCACGGCCTTCGCCAGCGTGG	0.617													12	270	---	---	---	---	PASS	T	40802122	T	T	40802122	2	4	156	1	0	0	0	0	0	0	0	1	14224	883	31	2		2	SGSM3	22	40802122	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1271382	40802122	10502444	653	55917										
XPNPEP3	63929	broad.mit.edu	37	chr22	41265114	41265114	+	Missense_Mutation	SNP	G	C	C													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tacacacccacacctcctcaGaccaggtaaggccttttaac							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:41265114G>C	uc003azh.2	+	2	268	c.176G>C	c.(175-177)AGA>ACA	p.R59T	XPNPEP3_uc011aox.1_Missense_Mutation_p.R59T|XPNPEP3_uc003azi.2_5'UTR|XPNPEP3_uc011aoy.1_RNA|XPNPEP3_uc010gyh.1_RNA	NM_022098	NP_071381	Q9NQH7	XPP3_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 3,	59					cellular process	mitochondrion	aminopeptidase activity|manganese ion binding|metallopeptidase activity				0						CACCTCCTCAGACCAGGTAAG	0.398													9	275	---	---	---	---	PASS	C	41265114	C	C	41265114	3	2	156	1	0	0	0	0	1	0	0	0	17441	942	33	2	182	2	XPNPEP3	22	41265114	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	462992	41265114	10039452	654	55918	999	2								
XPNPEP3	63929	broad.mit.edu	37	chr22	41265120	41265120	+	Splice_Site	SNP	G	T	T													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cccacacctcctcagaccagGtaaggccttttaactgtgct							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:41265120G>T	uc003azh.2	+	2	273	c.181_splice	c.e2+1	p.G61_splice	XPNPEP3_uc011aox.1_Splice_Site_p.G61_splice|XPNPEP3_uc003azi.2_Splice_Site|XPNPEP3_uc011aoy.1_Splice_Site|XPNPEP3_uc010gyh.1_Splice_Site	NM_022098	NP_071381	Q9NQH7	XPP3_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 3,						cellular process	mitochondrion	aminopeptidase activity|manganese ion binding|metallopeptidase activity				0						CTCAGACCAGGTAAGGCCTTT	0.388													8	263	---	---	---	---	PASS	T	41265120	T	T	41265120	5	4	156	1	0	0	0	0	0	0	1	0	17441	1275	44	3	188	3	XPNPEP3	22	41265120	Splice_Site	SNP	G	TCGA-66-2773-01A-01D-1267-08	6	41265120	10039446	655	55919	999	2								
XPNPEP3	63929	broad.mit.edu	37	chr22	41322407	41322407	+	Missense_Mutation	SNP	G	C	C													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	actgtcccaaagagatgaatGacattgaacagatatgcagc							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:41322407G>C	uc003azh.2	+	10	1584	c.1492G>C	c.(1492-1494)GAC>CAC	p.D498H	XPNPEP3_uc003azi.2_Missense_Mutation_p.D419H|XPNPEP3_uc011aoy.1_RNA	NM_022098	NP_071381	Q9NQH7	XPP3_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 3,	498					cellular process	mitochondrion	aminopeptidase activity|manganese ion binding|metallopeptidase activity				0						AGAGATGAATGACATTGAACA	0.507													16	416	---	---	---	---	PASS	C	41322407	C	C	41322407	3	2	156	1	0	0	0	0	1	0	0	0	17441	1290	45	2	1530	2	XPNPEP3	22	41322407	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	57287	41322407	9982159	656	55920	1000	2								
XPNPEP3	63929	broad.mit.edu	37	chr22	41322413	41322413	+	Missense_Mutation	SNP	G	A	A													0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccaaagagatgaatgacattGaacagatatgcagccaggct							TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:41322413G>A	uc003azh.2	+	10	1590	c.1498G>A	c.(1498-1500)GAA>AAA	p.E500K	XPNPEP3_uc003azi.2_Missense_Mutation_p.E421K|XPNPEP3_uc011aoy.1_RNA	NM_022098	NP_071381	Q9NQH7	XPP3_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 3,	500					cellular process	mitochondrion	aminopeptidase activity|manganese ion binding|metallopeptidase activity				0						GAATGACATTGAACAGATATG	0.507													15	411	---	---	---	---	PASS	A	41322413	A	A	41322413	3	1	156	1	0	0	0	0	1	0	0	0	17441	1291	45	2	1536	2	XPNPEP3	22	41322413	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	6	41322413	9982153	657	55921	1000	2								
EP300	2033	broad.mit.edu	37	chr22	41574082	41574082	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctaccatgccaggtcagcagGgggtccactccaatccagcc	10	16	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:41574082G>T	uc003azl.3	+	31	6762	c.6367G>T	c.(6367-6369)GGG>TGG	p.G2123W		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	2123	Interaction with HTLV-1 Tax.|Interaction with NCOA2.				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						AGGTCAGCAGGGGGTCCACTC	0.622			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				41	144	---	---	---	---	PASS	T	41574082	T	T	41574082	3	4	156	1	0	0	0	0	1	0	0	0	5148	1232	43	3	6489	3	EP300	22	41574082	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	251669	41574082	9730484	658	55922										
PHF21B	112885	broad.mit.edu	37	chr22	45312239	45312239	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cggcggtgctgggggccatgGcggcggcattgctgggggag	23	9	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:45312239G>A	uc003bfn.2	-	4	636	c.485C>T	c.(484-486)GCC>GTC	p.A162V	PHF21B_uc003bfm.2_5'UTR|PHF21B_uc011aqk.1_Missense_Mutation_p.A150V|PHF21B_uc011aql.1_Missense_Mutation_p.A162V|PHF21B_uc011aqm.1_Missense_Mutation_p.A150V	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	PHD finger protein 21B isoform 1	162							zinc ion binding			ovary(2)|skin(1)	3		all_neural(38;0.00802)|Glioma(61;0.0353)|Ovarian(80;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0203)		GGGGGCCATGGCGGCGGCATT	0.682													21	52	---	---	---	---	PASS	A	45312239	A	A	45312239	3	1	156	1	0	0	0	0	1	0	0	0	11834	1203	42	3	1150	3	PHF21B	22	45312239	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3738157	45312239	5992327	659	55923										
PLXNB2	23654	broad.mit.edu	37	chr22	50718176	50718176	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	tgatgtttgatggccttgaaGagcttgtacaggggctcccc	13	9	0	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chr22:50718176G>A	uc003bkv.3	-	27	4378	c.4272C>T	c.(4270-4272)CTC>CTT	p.L1424L	PLXNB2_uc003bkt.1_Silent_p.L216L|PLXNB2_uc003bku.1_Silent_p.L409L	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1424	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TGGCCTTGAAGAGCTTGTACA	0.632													46	592	---	---	---	---	PASS	A	50718176	A	A	50718176	2	1	156	1	0	0	0	0	0	0	0	1	12124	929	33	2		2	PLXNB2	22	50718176	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	5405937	50718176	586390	660	55924										
PPP2R3B	28227	broad.mit.edu	37	chrX	322173	322173	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cccatgtcatccatggtggcCctctcgtgggggaaccgggc	14	14	2	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:322173C>T	uc004cpg.2	-	2	678	c.477G>A	c.(475-477)AGG>AGA	p.R159R	PPP2R3B_uc011mha.1_5'UTR	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	159					cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCATGGTGGCCCTCTCGTGGG	0.647													22	95	---	---	---	---	PASS	T	322173	T	T	322173	2	4	156	1	0	0	0	0	0	0	0	1	12389	622	22	3		3	PPP2R3B	23	322173	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08		322173	154948387	661	55925										
P2RY8	286530	broad.mit.edu	37	chrX	1584849	1584849	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atcacgaacgggatgaggaaCagcaggatgaagatggtgaa	15	5	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:1584849C>A	uc004cpz.2	-	2	851	c.603G>T	c.(601-603)CTG>CTT	p.L201L		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	201	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GGATGAGGAACAGCAGGATGA	0.632			T	CRLF2	B-ALL|Downs associated ALL								17	64	---	---	---	---	PASS	A	1584849	A	A	1584849	2	1	156	1	0	0	0	0	0	0	0	1	11355	465	17	3		3	P2RY8	23	1584849	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	1262676	1584849	153685711	662	55926										
PRKX	5613	broad.mit.edu	37	chrX	3573384	3573384	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ccccggttgcgcaggtagctGaagagctcgccgcccggcac	14	16	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:3573384G>A	uc010nde.2	-	3	772	c.405C>T	c.(403-405)TTC>TTT	p.F135F		NM_005044	NP_005035	P51817	PRKX_HUMAN	protein kinase, X-linked	135	Protein kinase.						ATP binding|cAMP-dependent protein kinase activity			skin(2)|lung(1)	3		all_lung(23;0.000396)|Lung NSC(23;0.00123)				GCAGGTAGCTGAAGAGCTCGC	0.612													44	49	---	---	---	---	PASS	A	3573384	A	A	3573384	2	1	156	1	0	0	0	0	0	0	0	1	12527	1281	45	2		2	PRKX	23	3573384	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1988535	3573384	151697176	663	55927										
MSL3	10943	broad.mit.edu	37	chrX	11780326	11780326	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gaaatccctgaagttctgaaGaagcagctggaggatgattg	13	6	1	4			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:11780326G>C	uc004cuw.2	+	6	648	c.543G>C	c.(541-543)AAG>AAC	p.K181N	MSL3_uc004cuv.1_Missense_Mutation_p.K181N|MSL3_uc004cux.2_Missense_Mutation_p.K122N|MSL3_uc011mig.1_Missense_Mutation_p.K32N|MSL3_uc011mih.1_Missense_Mutation_p.K169N|MSL3_uc004cuy.2_Missense_Mutation_p.K15N|MSL3_uc011mii.1_Missense_Mutation_p.K15N	NM_078629	NP_523353	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	181					histone H4-K16 acetylation|multicellular organismal development|transcription from RNA polymerase II promoter	MSL complex	DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AAGTTCTGAAGAAGCAGCTGG	0.348													5	111	---	---	---	---	PASS	C	11780326	C	C	11780326	3	2	156	1	0	0	0	0	1	0	0	0	9879	933	33	2	565	2	MSL3	23	11780326	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	8206942	11780326	143490234	664	55928										
GRPR	2925	broad.mit.edu	37	chrX	16170735	16170735	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtggccacctttagcctcatCaatggaaacatctgtcacga	8	12	4	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:16170735C>T	uc004cxj.2	+	3	1775	c.1122C>T	c.(1120-1122)ATC>ATT	p.I374I		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	374	Cytoplasmic (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					TTAGCCTCATCAATGGAAACA	0.532													70	100	---	---	---	---	PASS	T	16170735	T	T	16170735	2	4	156	1	0	0	0	0	0	0	0	1	6808	816	29	2		2	GRPR	23	16170735	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	4390409	16170735	139099825	665	55929										
HUWE1	10075	broad.mit.edu	37	chrX	53634648	53634648	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	attgttgctcagaatagattCcacaaatttcatctaggtaa	6	7	3	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:53634648C>T	uc004dsp.2	-	25	2734	c.2332G>A	c.(2332-2334)GAA>AAA	p.E778K		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	778					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						AGAATAGATTCCACAAATTTC	0.403													5	10	---	---	---	---	PASS	T	53634648	T	T	53634648	3	4	156	1	0	0	0	0	1	0	0	0	7461	864	30	2	11032	2	HUWE1	23	53634648	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	37463913	53634648	101635912	666	55930										
ITIH5L	347365	broad.mit.edu	37	chrX	54814948	54814948	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gatgtcctccatgaccacatCgtactgaaccaggaagtcag	9	12	1	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:54814948C>T	uc004dtj.2	-	5	781	c.751G>A	c.(751-753)GAT>AAT	p.D251N		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	251					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						ATGACCACATCGTACTGAACC	0.577													6	76	---	---	---	---	PASS	T	54814948	T	T	54814948	3	4	156	1	0	0	0	0	1	0	0	0	7908	884	31	2	3226	2	ITIH5L	23	54814948	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	1180300	54814948	100455612	667	55931										
ARHGEF9	23229	broad.mit.edu	37	chrX	62885838	62885838	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttgcggccgtagggctggtaGatccaggccatctccccagt	13	13	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:62885838G>A	uc004dvl.2	-	7	1823	c.984C>T	c.(982-984)ATC>ATT	p.I328I	ARHGEF9_uc004dvj.1_Silent_p.I217I|ARHGEF9_uc004dvk.1_Intron|ARHGEF9_uc011mos.1_Silent_p.I307I|ARHGEF9_uc004dvm.1_Silent_p.I307I|ARHGEF9_uc011mot.1_Silent_p.I275I|ARHGEF9_uc004dvn.2_Silent_p.I335I	NM_015185	NP_056000	O43307	ARHG9_HUMAN	Cdc42 guanine exchange factor 9	328	PH.				apoptosis|induction of apoptosis by extracellular signals|ion transmembrane transport|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(5)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	8						AGGGCTGGTAGATCCAGGCCA	0.592													5	37	---	---	---	---	PASS	A	62885838	A	A	62885838	2	1	156	1	0	0	0	0	0	0	0	1	912	932	33	2		2	ARHGEF9	23	62885838	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	8070890	62885838	92384722	668	55932										
APOOL	139322	broad.mit.edu	37	chrX	84306418	84306418	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cccatatatactgcaccaccGctccagtctaaatatgttga	5	13	1	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:84306418G>T	uc004eem.2	+	3	158	c.144G>T	c.(142-144)CCG>CCT	p.P48P	APOOL_uc010nmp.2_Intron	NM_198450	NP_940852	Q6UXV4	APOOL_HUMAN	apolipoprotein O-like precursor	48						extracellular region					0						CTGCACCACCGCTCCAGTCTA	0.443													22	21	---	---	---	---	PASS	T	84306418	T	T	84306418	2	4	156	1	0	0	0	0	0	0	0	1	814	1074	38	1		1	APOOL	23	84306418	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	21420580	84306418	70964142	669	55933										
PCDH11X	27328	broad.mit.edu	37	chrX	91873448	91873448	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	cacaggcctctactcagcacCacagcccacgagtgacacag	8	17	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:91873448C>T	uc004efk.1	+	7	4398	c.3553C>T	c.(3553-3555)CAC>TAC	p.H1185Y	PCDH11X_uc004efl.1_Missense_Mutation_p.H1175Y|PCDH11X_uc004efo.1_Missense_Mutation_p.H1148Y|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Missense_Mutation_p.H1177Y|PCDH11X_uc004efn.1_Missense_Mutation_p.H1167Y	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1185	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TACTCAGCACCACAGCCCACG	0.592													39	149	---	---	---	---	PASS	T	91873448	T	T	91873448	3	4	156	1	0	0	0	0	1	0	0	0	11508	594	21	3	3701	3	PCDH11X	23	91873448	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	7567030	91873448	63397112	670	55934										
RPA4	29935	broad.mit.edu	37	chrX	96139863	96139863	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aagtgtgcctgtgtctccatCagaagtgaatgatgctgggg	14	7	2	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:96139863C>G	uc004efv.3	+	1	852	c.554C>G	c.(553-555)TCA>TGA	p.S185*	DIAPH2_uc004eft.3_Intron|DIAPH2_uc004efu.3_Intron|DIAPH2_uc004efs.2_Intron	NM_013347	NP_037479	Q13156	RFA4_HUMAN	replication protein A4, 34kDa	185					DNA damage checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair	DNA replication factor A complex|nucleoplasm	single-stranded DNA binding				0						GTGTCTCCATCAGAAGTGAAT	0.483								Other_identified_genes_with_known_or_suspected_DNA_repair_function					15	136	---	---	---	---	PASS	G	96139863	G	G	96139863	4	3	156	1	0	0	0	0	0	1	0	0	13539	838	29	2	556	2	RPA4	23	96139863	Nonsense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	4266415	96139863	59130697	671	55935										
TCEAL6	158931	broad.mit.edu	37	chrX	101396087	101396087	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ttgtggcttgccctcaccttCggacttgccctgcttttcct	8	15	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:101396087C>T	uc004eiq.2	-	3	378	c.217G>A	c.(217-219)GAA>AAA	p.E73K		NM_001006938	NP_001006939	Q6IPX3	TCAL6_HUMAN	transcription elongation factor A (SII)-like 6	73	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						CCCTCACCTTCGGACTTGCCC	0.448													82	248	---	---	---	---	PASS	T	101396087	T	T	101396087	3	4	156	1	0	0	0	0	1	0	0	0	15672	893	31	2	338	2	TCEAL6	23	101396087	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	5256224	101396087	53874473	672	55936										
FAM127B	26071	broad.mit.edu	37	chrX	134185839	134185839	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	catccaaagacccgcttcatCtcggccaggaagccccggta	9	16	2	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:134185839C>A	uc004eyf.2	-	1	383	c.300G>T	c.(298-300)GAG>GAT	p.E100D	FAM127B_uc004eyg.3_Intron	NM_001078172	NP_001071640	Q9BWD3	F127B_HUMAN	family with sequence similarity 127, member B	100											0	Acute lymphoblastic leukemia(192;0.000127)					CCCGCTTCATCTCGGCCAGGA	0.642													27	68	---	---	---	---	PASS	A	134185839	A	A	134185839	3	1	156	1	0	0	0	0	1	0	0	0	5432	912	32	2	109	2	FAM127B	23	134185839	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	32789752	134185839	21084721	673	55937										
F9	2158	broad.mit.edu	37	chrX	138619261	138619261	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	agtttgttcaagggaaccttGagagagaatgtatggaagaa	13	3	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:138619261G>C	uc004fas.1	+	2	210	c.181G>C	c.(181-183)GAG>CAG	p.E61Q	F9_uc004fat.1_Missense_Mutation_p.E61Q	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	61	Gla.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	AGGGAACCTTGAGAGAGAATG	0.358													7	212	---	---	---	---	PASS	C	138619261	C	C	138619261	3	2	156	1	0	0	0	0	1	0	0	0	5351	1291	45	2	187	2	F9	23	138619261	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	4433422	138619261	16651299	674	55938										
MAGEC3	139081	broad.mit.edu	37	chrX	140985492	140985492	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	atccctagtgcctttccatcCtggtacatggatgctttgaa	8	11	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:140985492C>T	uc011mwp.1	+	8	1806	c.1806C>T	c.(1804-1806)TCC>TCT	p.S602S	MAGEC3_uc004fbs.2_3'UTR|MAGEC3_uc010nsj.2_3'UTR	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	602	MAGE 2.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCTTTCCATCCTGGTACATGG	0.478													38	119	---	---	---	---	PASS	T	140985492	T	T	140985492	2	4	156	1	0	0	0	0	0	0	0	1	9182	668	24	3		3	MAGEC3	23	140985492	Silent	SNP	C	TCGA-66-2773-01A-01D-1267-08	2366231	140985492	14285068	675	55939										
SLITRK2	84631	broad.mit.edu	37	chrX	144904038	144904038	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caaagacatttgcaagatccGctgtctgtgcgaagaaaagg	11	8	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:144904038G>C	uc004fcd.2	+	5	1085	c.95G>C	c.(94-96)CGC>CCC	p.R32P	SLITRK2_uc010nsp.2_Missense_Mutation_p.R32P|SLITRK2_uc010nso.2_Missense_Mutation_p.R32P|SLITRK2_uc011mwq.1_Missense_Mutation_p.R32P|SLITRK2_uc011mwr.1_Missense_Mutation_p.R32P|SLITRK2_uc011mws.1_Missense_Mutation_p.R32P|SLITRK2_uc004fcg.2_Missense_Mutation_p.R32P|SLITRK2_uc011mwt.1_Missense_Mutation_p.R32P	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	32	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					TGCAAGATCCGCTGTCTGTGC	0.473													59	56	---	---	---	---	PASS	C	144904038	C	C	144904038	3	2	156	1	0	0	0	0	1	0	0	0	14743	1087	38	4	97	4	SLITRK2	23	144904038	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	3918546	144904038	10366522	676	55940										
SLITRK2	84631	broad.mit.edu	37	chrX	144906362	144906362	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	aaaccgttttatatggaactCccaggaaatgctttgtgggg	11	7	0	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:144906362C>T	uc004fcd.2	+	5	3409	c.2419C>T	c.(2419-2421)CCC>TCC	p.P807S	SLITRK2_uc010nsp.2_Missense_Mutation_p.P807S|SLITRK2_uc010nso.2_Missense_Mutation_p.P807S|SLITRK2_uc011mwq.1_Missense_Mutation_p.P807S|SLITRK2_uc011mwr.1_Missense_Mutation_p.P807S|SLITRK2_uc011mws.1_Missense_Mutation_p.P807S|SLITRK2_uc004fcg.2_Missense_Mutation_p.P807S|SLITRK2_uc011mwt.1_Missense_Mutation_p.P807S|CXorf1_uc004fch.2_5'Flank	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	807	Cytoplasmic (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					ATATGGAACTCCCAGGAAATG	0.438													34	129	---	---	---	---	PASS	T	144906362	T	T	144906362	3	4	156	1	0	0	0	0	1	0	0	0	14743	855	30	2	2421	2	SLITRK2	23	144906362	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	2324	144906362	10364198	677	55941										
MAGEA3	4102	broad.mit.edu	37	chrX	151935416	151935416	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ctccaggtagttttcctgcaCgaaatgttgggtgagcagct	12	9	0	1			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:151935416C>A	uc004fgp.2	-	3	960	c.751G>T	c.(751-753)GTG>TTG	p.V251L		NM_005362	NP_005353	P43357	MAGA3_HUMAN	melanoma antigen family A, 3	251	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					TTTTCCTGCACGAAATGTTGG	0.532													171	128	---	---	---	---	PASS	A	151935416	A	A	151935416	3	1	156	1	0	0	0	0	1	0	0	0	9167	536	19	1	197	1	MAGEA3	23	151935416	Missense_Mutation	SNP	C	TCGA-66-2773-01A-01D-1267-08	7029054	151935416	3335144	678	55942										
PDZD4	57595	broad.mit.edu	37	chrX	153069296	153069296	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggccgccaccccgcccacccGagggccaccggccaagctca	11	22	1	0			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:153069296G>T	uc004fiz.1	-	8	2072	c.1822C>A	c.(1822-1824)CGG>AGG	p.R608R	PDZD4_uc004fiy.1_Silent_p.R533R|PDZD4_uc004fix.2_Silent_p.R512R|PDZD4_uc004fja.1_Silent_p.R614R|PDZD4_uc011mze.1_Silent_p.R499R	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	608						cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCGCCCACCCGAGGGCCACCG	0.736													5	11	---	---	---	---	PASS	T	153069296	T	T	153069296	2	4	156	1	0	0	0	0	0	0	0	1	11703	1057	37	2		2	PDZD4	23	153069296	Silent	SNP	G	TCGA-66-2773-01A-01D-1267-08	1133880	153069296	2201264	679	55943										
AVPR2	554	broad.mit.edu	37	chrX	153171764	153171764	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	gtgtcagcagctgtggccaaGactgtgaggatgacgctagt	15	8	1	3			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:153171764G>C	uc004fjh.3	+	2	875	c.804G>C	c.(802-804)AAG>AAC	p.K268N	AVPR2_uc004fjg.3_Missense_Mutation_p.K57N|AVPR2_uc004fji.2_Missense_Mutation_p.K268N	NM_000054	NP_000045	P30518	V2R_HUMAN	arginine vasopressin receptor 2 isoform 1	268	Cytoplasmic (Potential).				activation of adenylate cyclase activity|excretion|G-protein signaling, coupled to cAMP nucleotide second messenger|hemostasis|positive regulation of gene expression|transmembrane transport|water transport	endoplasmic reticulum|endosome|Golgi apparatus|integral to plasma membrane	vasopressin receptor activity			breast(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Conivaptan(DB00872)|Terlipressin(DB02638)|Vasopressin(DB00067)	CTGTGGCCAAGACTGTGAGGA	0.677													31	136	---	---	---	---	PASS	C	153171764	C	C	153171764	3	2	156	1	0	0	0	0	1	0	0	0	1233	933	33	2	810	2	AVPR2	23	153171764	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	102468	153171764	2098796	680	55944										
ARHGAP4	393	broad.mit.edu	37	chrX	153173229	153173229	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	ggccctgggggtgggaagctGagggtgaggctggggcccca	22	9	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:153173229G>C	uc004fjk.1	-	22	2837	c.2795C>G	c.(2794-2796)TCA>TGA	p.S932*	ARHGAP4_uc004fjj.1_Nonsense_Mutation_p.S283*|ARHGAP4_uc011mzf.1_Nonsense_Mutation_p.S909*|ARHGAP4_uc004fjl.1_Nonsense_Mutation_p.S972*|ARHGAP4_uc010nup.1_RNA	NM_001666	NP_001657	P98171	RHG04_HUMAN	Rho GTPase activating protein 4 isoform 2	932					apoptosis|cytoskeleton organization|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|Rho protein signal transduction	cytosol|focal adhesion|nucleus	Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			central_nervous_system(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GTGGGAAGCTGAGGGTGAGGC	0.721													11	31	---	---	---	---	PASS	C	153173229	C	C	153173229	4	2	156	1	0	0	0	0	0	1	0	0	885	1294	45	2	49	2	ARHGAP4	23	153173229	Nonsense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	1465	153173229	2097331	681	55945										
ARHGAP4	393	broad.mit.edu	37	chrX	153173337	153173337	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.425595238095238	286	3.5948550660198e-94	3.68736917541037	4.79295270590952	3.04215481218531	0.374861379852703	0.771517025975912	208	caggactgggagaggtggtaGatgctggcccaaggccctgg	18	9	0	2			TCGA-66-2773-01A-01D-1267-08	TCGA-66-2773-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	fb0b515b-afc4-40c3-abe6-e90c442f0249	bf751309-7731-474c-b806-e2e4e53cb505	g.chrX:153173337G>C	uc004fjk.1	-	22	2729	c.2687C>G	c.(2686-2688)TCT>TGT	p.S896C	ARHGAP4_uc004fjj.1_Missense_Mutation_p.S247C|ARHGAP4_uc011mzf.1_Missense_Mutation_p.S873C|ARHGAP4_uc004fjl.1_Missense_Mutation_p.S936C|ARHGAP4_uc010nup.1_RNA	NM_001666	NP_001657	P98171	RHG04_HUMAN	Rho GTPase activating protein 4 isoform 2	896					apoptosis|cytoskeleton organization|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|Rho protein signal transduction	cytosol|focal adhesion|nucleus	Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			central_nervous_system(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGAGGTGGTAGATGCTGGCCC	0.652													45	133	---	---	---	---	PASS	C	153173337	C	C	153173337	3	2	156	1	0	0	0	0	1	0	0	0	885	942	33	2	157	2	ARHGAP4	23	153173337	Missense_Mutation	SNP	G	TCGA-66-2773-01A-01D-1267-08	108	153173337	2097223	682	55946										
PRAMEF4	400735	broad.mit.edu	37	chr1	12943166	12943166	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cttggtcccttagcaggctcCgccctgcaagctccaggagt	11	15	0	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:12943166C>T	uc001aun.2	-	2	121	c.50G>A	c.(49-51)CGG>CAG	p.R17Q		NM_001009611	NP_001009611	O60810	PRAM4_HUMAN	PRAME family member 4	17										ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TAGCAGGCTCCGCCCTGCAAG	0.562													151	280	---	---	---	---	PASS	T	12943166	T	T	12943166	3	4	157	1	0	0	0	0	1	0	0	0	12437	652	23	1	1398	1	PRAMEF4	1	12943166	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08		12943166	236307455	1	55947										
CYP4A22	284541	broad.mit.edu	37	chr1	47607784	47607784	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttcgtgtctaccttagggtaCggcttgctcctgttgaatgg	12	9	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:47607784C>G	uc001cqv.1	+	4	438	c.387C>G	c.(385-387)TAC>TAG	p.Y129*	CYP4A22_uc009vyo.2_Nonsense_Mutation_p.Y129*|CYP4A22_uc009vyp.2_Nonsense_Mutation_p.Y129*	NM_001010969	NP_001010969	Q5TCH4	CP4AM_HUMAN	cytochrome P450, family 4, subfamily A,	129						endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding			skin(2)|ovary(1)|breast(1)	4						CCTTAGGGTACGGCTTGCTCC	0.537													13	50	---	---	---	---	PASS	G	47607784	G	G	47607784	4	3	157	1	0	0	0	0	0	1	0	0	4184	547	19	4	401	4	CYP4A22	1	47607784	Nonsense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	34664618	47607784	201642837	2	55948										
ZYG11B	79699	broad.mit.edu	37	chr1	53262037	53262037	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	acatgcaaaggatggcagttGctatcatttctatcctggct	9	9	2	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:53262037G>T	uc001cuj.2	+	7	1603	c.1408G>T	c.(1408-1410)GCT>TCT	p.A470S	ZYG11B_uc009vzg.2_RNA|ZYG11B_uc010onj.1_Missense_Mutation_p.A461S|ZYG11B_uc009vzh.2_5'Flank	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B	470							protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						GATGGCAGTTGCTATCATTTC	0.428													13	63	---	---	---	---	PASS	T	53262037	T	T	53262037	3	4	157	1	0	0	0	0	1	0	0	0	18250	1319	46	3	1434	3	ZYG11B	1	53262037	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	5654253	53262037	195988584	3	55949										
C1orf173	127254	broad.mit.edu	37	chr1	75037416	75037416	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cccatgccctcattcttttgTgtgtttccttctccttccat	4	15	3	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:75037416T>A	uc001dgg.2	-	14	4197	c.3978A>T	c.(3976-3978)ACA>ACT	p.T1326T		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1326	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CATTCTTTTGTGTGTTTCCTT	0.557													119	237	---	---	---	---	PASS	A	75037416	A	A	75037416	2	1	157	1	0	0	0	0	0	0	0	1	2014	1683	59	5		5	C1orf173	1	75037416	Silent	SNP	T	TCGA-66-2777-01A-01D-1267-08	21775379	75037416	174213205	4	55950										
BTBD8	284697	broad.mit.edu	37	chr1	92613244	92613244	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttcttttattttaacaggtgGattgtaaagcattttgcaag	8	4	1	0	rs150938488		TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:92613244G>T	uc001doo.2	+	9	1290	c.1023G>T	c.(1021-1023)TGG>TGT	p.W341C	BTBD8_uc010otc.1_RNA	NM_183242	NP_899065	Q5XKL5	BTBD8_HUMAN	BTB (POZ) domain containing 8	341						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)		TTAACAGGTGGATTGTAAAGC	0.289													12	35	---	---	---	---	PASS	T	92613244	T	T	92613244	3	4	157	1	0	0	0	0	1	0	0	0	1547	1183	41	2	1057	2	BTBD8	1	92613244	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	17575828	92613244	156637377	5	55951										
CCDC76	54482	broad.mit.edu	37	chr1	100614189	100614189	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tattcaatttaggcttcttaGtgttgaagaaaagaagaaaa	8	3	2	4			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:100614189G>C	uc001dsv.2	+	11	1278	c.1259G>C	c.(1258-1260)AGT>ACT	p.S420T	CCDC76_uc010ouf.1_RNA|CCDC76_uc009wea.2_Missense_Mutation_p.V276L	NM_019083	NP_061956	Q9NUP7	TRM13_HUMAN	coiled-coil domain containing 76	420					tRNA processing		metal ion binding|methyltransferase activity			ovary(1)	1		all_epithelial(167;0.000542)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0814)|all cancers(265;0.133)|COAD - Colon adenocarcinoma(174;0.146)|Lung(183;0.194)		AGGCTTCTTAGTGTTGAAGAA	0.318													39	60	---	---	---	---	PASS	C	100614189	C	C	100614189	3	2	157	1	0	0	0	0	1	0	0	0	2850	1029	36	4	1301	4	CCDC76	1	100614189	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	8000945	100614189	148636432	6	55952										
COL11A1	1301	broad.mit.edu	37	chr1	103480073	103480073	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttatcctgtcttacccgagcCtgctgaagaatagcttgagc	9	11	1	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:103480073C>T	uc001dul.2	-	13	1884	c.1566G>A	c.(1564-1566)CAG>CAA	p.Q522Q	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Silent_p.Q534Q|COL11A1_uc001dun.2_Silent_p.Q483Q|COL11A1_uc009weh.2_Silent_p.Q406Q	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	522	Telopeptide.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TTACCCGAGCCTGCTGAAGAA	0.423													11	24	---	---	---	---	PASS	T	103480073	T	T	103480073	2	4	157	1	0	0	0	0	0	0	0	1	3667	680	24	3		3	COL11A1	1	103480073	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	2865884	103480073	145770548	7	55953										
PHGDH	26227	broad.mit.edu	37	chr1	120279815	120279815	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgggtgccagcaccaaggagGctcagagccgctgtggggag	18	10	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:120279815G>A	uc001ehz.2	+	8	1098	c.871G>A	c.(871-873)GCT>ACT	p.A291T	PHGDH_uc009whm.2_Missense_Mutation_p.A189T|PHGDH_uc001eia.2_Missense_Mutation_p.A291T|PHGDH_uc009whn.2_Missense_Mutation_p.A291T|PHGDH_uc001eib.2_Missense_Mutation_p.A257T	NM_006623	NP_006614	O43175	SERA_HUMAN	phosphoglycerate dehydrogenase	291					brain development|L-serine biosynthetic process		electron carrier activity|NAD binding|phosphoglycerate dehydrogenase activity			ovary(1)	1	all_cancers(5;1.18e-09)|all_epithelial(5;2.16e-10)|Melanoma(3;1.93e-05)|all_neural(166;0.219)	all_lung(203;3.66e-05)|Lung NSC(69;0.000202)|all_epithelial(167;0.0347)		Lung(183;0.0111)|LUSC - Lung squamous cell carcinoma(189;0.0593)	NADH(DB00157)	CACCAAGGAGGCTCAGAGCCG	0.597													94	122	---	---	---	---	PASS	A	120279815	A	A	120279815	3	1	157	1	0	0	0	0	1	0	0	0	11841	1203	42	3	901	3	PHGDH	1	120279815	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	16799742	120279815	128970806	8	55954										
PPIAL4G	644591	broad.mit.edu	37	chr1	143767794	143767794	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aaactgtttgatggagatgcGgcccaagggcttgccgtcga	14	9	0	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:143767794G>A	uc001ejt.2	-	1	88	c.55C>T	c.(55-57)CGC>TGC	p.R19C		NM_001123068	NP_001116540	A2BFH1	PAL4G_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	19	PPIase cyclophilin-type.				protein folding	cytoplasm	peptidyl-prolyl cis-trans isomerase activity				0						ATGGAGATGCGGCCCAAGGGC	0.493													11	662	---	---	---	---	PASS	A	143767794	A	A	143767794	3	1	157	1	0	0	0	0	1	0	0	0	12318	1116	39	1	443	1	PPIAL4G	1	143767794	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	23487979	143767794	105482827	9	55955										
SEC22B	9554	broad.mit.edu	37	chr1	145109536	145109536	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctcaccagctacattattgaGcagggggtgtgtgatttggt	13	7	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:145109536G>A	uc001eml.1	+	5	338	c.198G>A	c.(196-198)GAG>GAA	p.E66E	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron	NM_004892	NP_004883	O75396	SC22B_HUMAN	SEC22 vesicle trafficking protein homolog B	66	Longin.|Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|melanosome	protein binding				0						ACATTATTGAGCAGGGGGTGT	0.403													23	756	---	---	---	---	PASS	A	145109536	A	A	145109536	2	1	157	1	0	0	0	0	0	0	0	1	13989	962	34	3		3	SEC22B	1	145109536	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	1341742	145109536	104141085	10	55956										
HIST2H3D	653604	broad.mit.edu	37	chr1	149785213	149785213	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttgccgccggtcgacttgcgGgcagtctgcttagtacgggc	15	12	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:149785213G>A	uc010pbl.1	-	1	24	c.24C>T	c.(22-24)GCC>GCT	p.A8A	HIST2H2BF_uc010pbj.1_5'Flank|HIST2H2BF_uc010pbk.1_5'Flank|HIST2H2BF_uc001esr.2_5'Flank	NM_001123375	NP_001116847	Q71DI3	H32_HUMAN	histone cluster 2, H3d	8					blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding|protein binding				0						TCGACTTGCGGGCAGTCTGCT	0.602													26	62	---	---	---	---	PASS	A	149785213	A	A	149785213	2	1	157	1	0	0	0	0	0	0	0	1	7181	1219	43	3		3	HIST2H3D	1	149785213	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	4675677	149785213	99465408	11	55957										
FAM63A	55793	broad.mit.edu	37	chr1	150971905	150971905	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aagacgctaagttcaccctcCttagcagctgctgtcagctc	8	14	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:150971905C>T	uc001ewf.2	-	8	2605	c.921G>A	c.(919-921)AAG>AAA	p.K307K	FAM63A_uc001ewc.2_Silent_p.K165K|FAM63A_uc010pcm.1_Silent_p.K212K|FAM63A_uc001ewd.2_Silent_p.K165K|FAM63A_uc001ewe.2_Silent_p.K141K|FAM63A_uc010pcn.1_Silent_p.K355K|FAM63A_uc001ewg.2_Silent_p.K307K	NM_018379	NP_001156731	Q8N5J2	FA63A_HUMAN	hypothetical protein LOC55793 isoform 1	307							protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GTTCACCCTCCTTAGCAGCTG	0.557													243	393	---	---	---	---	PASS	T	150971905	T	T	150971905	2	4	157	1	0	0	0	0	0	0	0	1	5596	680	24	3		3	FAM63A	1	150971905	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	1186692	150971905	98278716	12	55958										
CRTC2	200186	broad.mit.edu	37	chr1	153920731	153920731	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aagccctagctccaatccagCtgctgacacctcaaagccag	7	16	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:153920731C>G	uc010ped.1	-	14	2006	c.1936G>C	c.(1936-1938)GCT>CCT	p.A646P	DENND4B_uc001fdd.1_5'Flank|CRTC2_uc001fde.3_RNA|CRTC2_uc001fdf.3_Missense_Mutation_p.A182P	NM_181715	NP_859066	Q53ET0	CRTC2_HUMAN	CREB regulated transcription coactivator 2	646					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)	2	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TCCAATCCAGCTGCTGACACC	0.597													64	356	---	---	---	---	PASS	G	153920731	G	G	153920731	3	3	157	1	0	0	0	0	1	0	0	0	3900	797	28	4	149	4	CRTC2	1	153920731	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	2948826	153920731	95329890	13	55959										
NTRK1	4914	broad.mit.edu	37	chr1	156845314	156845314	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gctgtgtctcctctctaggcCcggctgtgctggctccagag	13	14	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:156845314C>A	uc001fqh.1	+	12	1413	c.1357C>A	c.(1357-1359)CCG>ACG	p.P453T	NTRK1_uc001fqf.1_Missense_Mutation_p.P417T|NTRK1_uc009wsi.1_Missense_Mutation_p.P152T|NTRK1_uc001fqi.1_Missense_Mutation_p.P447T|NTRK1_uc009wsk.1_Missense_Mutation_p.P447T	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	453	Cytoplasmic (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	CTCTCTAGGCCCGGCTGTGCT	0.637			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			99	146	---	---	---	---	PASS	A	156845314	A	A	156845314	3	1	157	1	0	0	0	0	1	0	0	0	10706	623	22	3	1533	3	NTRK1	1	156845314	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	2924583	156845314	92405307	14	55960										
ARHGEF11	9826	broad.mit.edu	37	chr1	156933370	156933370	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ggccaataattaaaggctttGggctttgatctacaccctgg	10	9	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:156933370G>A	uc001fqo.2	-	11	1900	c.860C>T	c.(859-861)CCA>CTA	p.P287L	ARHGEF11_uc001fqn.2_Missense_Mutation_p.P327L	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	287					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)					TAAAGGCTTTGGGCTTTGATC	0.423													14	246	---	---	---	---	PASS	A	156933370	A	A	156933370	3	1	157	1	0	0	0	0	1	0	0	0	896	1348	47	3	3828	3	ARHGEF11	1	156933370	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	88056	156933370	92317251	15	55961										
DUSP27	92235	broad.mit.edu	37	chr1	167095218	167095218	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	agttgatggaggagagagaaGaggactatggccgggagggg	21	3	0	4			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:167095218G>C	uc001geb.1	+	5	850	c.850G>C	c.(850-852)GAG>CAG	p.E284Q		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	284					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						GGAGAGAGAAGAGGACTATGG	0.617													23	113	---	---	---	---	PASS	C	167095218	C	C	167095218	3	2	157	1	0	0	0	0	1	0	0	0	4824	943	33	2	868	2	DUSP27	1	167095218	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	10161848	167095218	82155403	16	55962										
TNFSF4	7292	broad.mit.edu	37	chr1	173155730	173155730	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttcacatggaagtcatccagGgaggtattgtcagtggtcac	12	8	4	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:173155730G>A	uc001giw.2	-	3	633	c.477C>T	c.(475-477)TCC>TCT	p.S159S	TNFSF4_uc001giv.2_Silent_p.S109S	NM_003326	NP_003317	P23510	TNFL4_HUMAN	tumor necrosis factor (ligand) superfamily,	159	Extracellular (Potential).				acute inflammatory response|cellular response to lipopolysaccharide|cellular response to prostaglandin E stimulus|chemokine (C-C motif) ligand 11 production|defense response to nematode|interleukin-4-dependent isotype switching to IgE isotypes|memory T cell activation|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of regulatory T cell differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T-helper 1 cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of alpha-beta T cell proliferation|positive regulation of B cell activation|positive regulation of immunoglobulin mediated immune response|positive regulation of immunoglobulin secretion|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-13 production|positive regulation of interleukin-4 production|positive regulation of interleukin-6 production|positive regulation of memory T cell differentiation|positive regulation of T cell cytokine production|positive regulation of T-helper 2 cell differentiation|positive regulation of type 2 immune response|response to virus|signal transduction|T-helper 2 cell activation	cell surface|extracellular space|integral to plasma membrane	cytokine activity			central_nervous_system(1)	1						AGTCATCCAGGGAGGTATTGT	0.448													23	216	---	---	---	---	PASS	A	173155730	A	A	173155730	2	1	157	1	0	0	0	0	0	0	0	1	16307	1219	43	3		3	TNFSF4	1	173155730	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	6060512	173155730	76094891	17	55963										
CFHR4	10877	broad.mit.edu	37	chr1	196884210	196884210	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cagtcctactatgaacttcaGggttctaattatgtaacatg	7	8	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:196884210G>C	uc001gto.2	+	5	810	c.741G>C	c.(739-741)CAG>CAC	p.Q247H	CFHR4_uc009wyy.2_Missense_Mutation_p.Q493H|CFHR4_uc001gtp.2_Missense_Mutation_p.Q494H	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	247	Sushi 4.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						ATGAACTTCAGGGTTCTAATT	0.403													122	251	---	---	---	---	PASS	C	196884210	C	C	196884210	3	2	157	1	0	0	0	0	1	0	0	0	3287	991	35	4	759	4	CFHR4	1	196884210	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	23728480	196884210	52366411	18	55964										
ATF3	467	broad.mit.edu	37	chr1	212788511	212788511	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aagagctgaggtttgccatcCagaacaagcacctctgccac	9	13	1	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:212788511C>A	uc001hjf.2	+	2	281	c.148C>A	c.(148-150)CAG>AAG	p.Q50K	ATF3_uc001hjj.2_Missense_Mutation_p.Q50K|ATF3_uc009xdg.1_RNA|ATF3_uc001hjh.2_Missense_Mutation_p.Q50K|ATF3_uc001hji.2_Missense_Mutation_p.Q50K|ATF3_uc010ptg.1_RNA	NM_001030287	NP_001025458	P18847	ATF3_HUMAN	activating transcription factor 3 isoform 1	50						nucleolus	identical protein binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.00628)|all cancers(67;0.0097)|GBM - Glioblastoma multiforme(131;0.0388)|Epithelial(68;0.0933)		GTTTGCCATCCAGAACAAGCA	0.572													5	218	---	---	---	---	PASS	A	212788511	A	A	212788511	3	1	157	1	0	0	0	0	1	0	0	0	1081	595	21	3	150	3	ATF3	1	212788511	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	15904301	212788511	36462110	19	55965										
USH2A	7399	broad.mit.edu	37	chr1	215848479	215848479	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ccttctggaggtgcttgcaaTgtcctcaccacattccaaga	8	13	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:215848479T>C	uc001hku.1	-	63	13161	c.12774A>G	c.(12772-12774)ACA>ACG	p.T4258T		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4258	Extracellular (Potential).|Fibronectin type-III 27.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GTGCTTGCAATGTCCTCACCA	0.363										HNSCC(13;0.011)			48	73	---	---	---	---	PASS	C	215848479	C	C	215848479	2	2	157	1	0	0	0	0	0	0	0	1	17033	1451	51	5		5	USH2A	1	215848479	Silent	SNP	T	TCGA-66-2777-01A-01D-1267-08	3059968	215848479	33402142	20	55966										
URB2	9816	broad.mit.edu	37	chr1	229770687	229770687	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	atcaatgagagagtagctgaGttctctctttcgggatccca	10	9	3	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:229770687G>A	uc001hts.1	+	4	463	c.327G>A	c.(325-327)GAG>GAA	p.E109E	URB2_uc009xfd.1_Silent_p.E109E	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	109						nucleolus				central_nervous_system(2)|ovary(1)	3						GAGTAGCTGAGTTCTCTCTTT	0.413													9	121	---	---	---	---	PASS	A	229770687	A	A	229770687	2	1	157	1	0	0	0	0	0	0	0	1	17022	1020	36	3		3	URB2	1	229770687	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	13922208	229770687	19479934	21	55967										
RYR2	6262	broad.mit.edu	37	chr1	237936937	237936937	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aagtctttaacactcttacaGagtatattcaggtaaacatt	5	7	3	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:237936937G>T	uc001hyl.1	+	87	11884	c.11764G>T	c.(11764-11766)GAG>TAG	p.E3922*	RYR2_uc010pya.1_Nonsense_Mutation_p.E337*	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3922					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)			CACTCTTACAGAGTATATTCA	0.353													7	18	---	---	---	---	PASS	T	237936937	T	T	237936937	4	4	157	1	0	0	0	0	0	1	0	0	13769	943	33	2	12110	2	RYR2	1	237936937	Nonsense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	8166250	237936937	11313684	22	55968										
FMN2	56776	broad.mit.edu	37	chr1	240371436	240371436	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctacccggagtgggcataccTcctccgccccctctacccgg	9	20	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:240371436T>C	uc010pyd.1	+	5	3549	c.3324T>C	c.(3322-3324)CCT>CCC	p.P1108P	FMN2_uc010pye.1_Silent_p.P1112P	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1108	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TGGGCATACCTCCTCCGCCCC	0.731													3	23	---	---	---	---	PASS	C	240371436	C	C	240371436	2	2	157	1	0	0	0	0	0	0	0	1	5950	1538	54	5		5	FMN2	1	240371436	Silent	SNP	T	TCGA-66-2777-01A-01D-1267-08	2434499	240371436	8879185	23	55969										
AHCTF1	25909	broad.mit.edu	37	chr1	247053361	247053361	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttgacaactgcacagaatcaTctagatttttaagagttgga	8	6	2	4			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:247053361T>C	uc001ibu.1	-	16	2058	c.2051A>G	c.(2050-2052)GAT>GGT	p.D684G	AHCTF1_uc001ibv.1_Missense_Mutation_p.D693G|AHCTF1_uc009xgs.1_5'UTR	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	684	Necessary for cytoplasmic localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			CACAGAATCATCTAGATTTTT	0.338													26	144	---	---	---	---	PASS	C	247053361	C	C	247053361	3	2	157	1	0	0	0	0	1	0	0	0	408	1449	50	5	4829	5	AHCTF1	1	247053361	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	6681925	247053361	2197260	24	55970										
TRIM58	25893	broad.mit.edu	37	chr1	248031301	248031301	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aggctggaagcagagaacatCcccatggaactgaagacagc	12	10	0	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:248031301C>T	uc001ido.2	+	5	855	c.807C>T	c.(805-807)ATC>ATT	p.I269I	OR2W3_uc001idp.1_5'UTR	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	269						intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CAGAGAACATCCCCATGGAAC	0.532													19	44	---	---	---	---	PASS	T	248031301	T	T	248031301	2	4	157	1	0	0	0	0	0	0	0	1	16528	845	30	2		2	TRIM58	1	248031301	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	977940	248031301	1219320	25	55971										
OR2M5	127059	broad.mit.edu	37	chr1	248308992	248308992	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gcccacttcttctgtgacttCccttccctactaatcctctc	3	18	3	1	rs141891339		TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:248308992C>T	uc010pze.1	+	1	543	c.543C>T	c.(541-543)TTC>TTT	p.F181F		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			TCTGTGACTTCCCTTCCCTAC	0.423													95	754	---	---	---	---	PASS	T	248308992	T	T	248308992	2	4	157	1	0	0	0	0	0	0	0	1	11013	854	30	2		2	OR2M5	1	248308992	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	277691	248308992	941629	26	55972										
OR2T12	127064	broad.mit.edu	37	chr1	248458744	248458744	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gccggtggtcccagtgaatcAggagaatcatgagggcattg	15	8	2	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr1:248458744A>T	uc010pzj.1	-	1	137	c.137T>A	c.(136-138)CTG>CAG	p.L46Q		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	46	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			CCAGTGAATCAGGAGAATCAT	0.527													35	238	---	---	---	---	PASS	T	248458744	T	T	248458744	3	4	157	1	0	0	0	0	1	0	0	0	11019	188	7	5	828	5	OR2T12	1	248458744	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	149752	248458744	791877	27	55973										
NT5C1B	93034	broad.mit.edu	37	chr2	18736983	18736983	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	agtgccccagatggttcactCcgaactgcatctcaaaccca	7	15	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:18736983C>T	uc010exr.2	-	9	1531	c.1427G>A	c.(1426-1428)GGA>GAA	p.G476E	NT5C1B_uc002rcy.2_3'UTR|RDH14_uc002rcx.3_Missense_Mutation_p.G162E	NM_033253	NP_150278	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 2	Error:Variant_position_missing_in_Q96P26_after_alignment					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				ATGGTTCACTCCGAACTGCAT	0.458													105	201	---	---	---	---	PASS	T	18736983	T	T	18736983	3	4	157	1	0	0	0	0	1	0	0	0	10686	855	30	2		2	NT5C1B	2	18736983	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08		18736983	224462390	28	55974										
CAD	790	broad.mit.edu	37	chr2	27459695	27459695	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cccaaaagcttgtgcgactgCcgggtaagtctttggggaga	14	9	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:27459695C>T	uc002rji.2	+	27	4555	c.4393C>T	c.(4393-4395)CCG>TCG	p.P1465S	CAD_uc010eyw.2_Missense_Mutation_p.P1402S	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1465	DHOase (dihydroorotase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	TGTGCGACTGCCGGGTAAGTC	0.577													5	401	---	---	---	---	PASS	T	27459695	T	T	27459695	3	4	157	1	0	0	0	0	1	0	0	0	2565	739	26	3	4499	3	CAD	2	27459695	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	8722712	27459695	215739678	29	55975										
CLEC4F	165530	broad.mit.edu	37	chr2	71036442	71036442	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ggacagggaggggtgtctatGaagctgcaagctcccatccc	14	11	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:71036442G>A	uc002shf.2	-	7	1808	c.1731C>T	c.(1729-1731)TTC>TTT	p.F577F	CLEC4F_uc010yqv.1_Intron	NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	577	Extracellular (Potential).|C-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5						GGGTGTCTATGAAGCTGCAAG	0.527													44	69	---	---	---	---	PASS	A	71036442	A	A	71036442	2	1	157	1	0	0	0	0	0	0	0	1	3516	1281	45	2		2	CLEC4F	2	71036442	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	43576747	71036442	172162931	30	55976										
REG1A	5967	broad.mit.edu	37	chr2	79350070	79350070	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctactgtgtgagcctgacctCaagcacaggtgagaggcaga	13	10	1	4			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:79350070C>T	uc002snz.2	+	5	528	c.425C>T	c.(424-426)TCA>TTA	p.S142L	REG1A_uc010ysd.1_Missense_Mutation_p.S142L	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	142	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						AGCCTGACCTCAAGCACAGGT	0.567													50	182	---	---	---	---	PASS	T	79350070	T	T	79350070	3	4	157	1	0	0	0	0	1	0	0	0	13210	838	29	2	439	2	REG1A	2	79350070	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	8313628	79350070	163849303	31	55977										
STARD7	56910	broad.mit.edu	37	chr2	96873906	96873906	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgcaactcctcctcctggatCctctcctcgtcccaaacgaa	5	18	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:96873906C>A	uc002svm.3	-	1	668	c.267G>T	c.(265-267)AGG>AGT	p.R89S	LOC285033_uc002svn.2_5'Flank|LOC285033_uc002svo.2_5'Flank	NM_020151	NP_064536	Q9NQZ5	STAR7_HUMAN	START domain containing 7 precursor	89	Potential.					mitochondrion					0						CCTCCTGGATCCTCTCCTCGT	0.687													13	44	---	---	---	---	PASS	A	96873906	A	A	96873906	3	1	157	1	0	0	0	0	1	0	0	0	15261	854	30	2	877	2	STARD7	2	96873906	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	17523836	96873906	146325467	32	55978										
C2orf40	84417	broad.mit.edu	37	chr2	106694236	106694236	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tccagaaatttgaagatgacAtcacctattggcttaacaga	7	8	1	5			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:106694236A>T	uc010fjf.2	+	4	409	c.301A>T	c.(301-303)ATC>TTC	p.I101F		NM_032411	NP_115787	Q9H1Z8	AUGN_HUMAN	esophageal cancer related gene 4 protein	101						extracellular region|transport vesicle					0						TGAAGATGACATCACCTATTG	0.423													29	207	---	---	---	---	PASS	T	106694236	T	T	106694236	3	4	157	1	0	0	0	0	1	0	0	0	2165	217	8	5	315	5	C2orf40	2	106694236	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	9820330	106694236	136505137	33	55979										
EPB41L5	57669	broad.mit.edu	37	chr2	120889225	120889225	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	acctcagagaagctcaaacaGcttgagatggagaacagtcc	10	10	2	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:120889225G>T	uc002tmg.2	+	18	1659	c.1533G>T	c.(1531-1533)CAG>CAT	p.Q511H	EPB41L5_uc010fll.2_Missense_Mutation_p.Q511H|EPB41L5_uc010flm.2_Missense_Mutation_p.Q315H	NM_020909	NP_065960	Q9HCM4	E41L5_HUMAN	erythrocyte membrane protein band 4.1 like 5	511						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1						AGCTCAAACAGCTTGAGATGG	0.443													14	137	---	---	---	---	PASS	T	120889225	T	T	120889225	3	4	157	1	0	0	0	0	1	0	0	0	5157	962	34	3	1784	3	EPB41L5	2	120889225	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	14194989	120889225	122310148	34	55980										
POTEE	445582	broad.mit.edu	37	chr2	132010529	132010529	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	atcgaagaaatgaagaagcaCggaagtactcatgtcggatt	11	6	1	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:132010529C>T	uc002tsn.2	+	13	1687	c.1635C>T	c.(1633-1635)CAC>CAT	p.H545H	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Silent_p.H145H|POTEE_uc002tsl.2_Silent_p.H127H|POTEE_uc010fmy.1_Silent_p.H9H	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	545							ATP binding				0						TGAAGAAGCACGGAAGTACTC	0.393													14	153	---	---	---	---	PASS	T	132010529	T	T	132010529	2	4	157	1	0	0	0	0	0	0	0	1	12264	535	19	1		1	POTEE	2	132010529	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	11121304	132010529	111188844	35	55981										
RAB3GAP1	22930	broad.mit.edu	37	chr2	135884226	135884226	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	agaatcctcagtgtttgctaGgtaaggtatattatgctcct	9	7	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:135884226G>T	uc002tuj.2	+	11	998	c.973G>T	c.(973-975)GGT>TGT	p.G325C	RAB3GAP1_uc010fnf.2_Missense_Mutation_p.G325C|RAB3GAP1_uc010fng.2_Missense_Mutation_p.G150C|RAB3GAP1_uc010fnh.1_RNA	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein	325						centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		GTGTTTGCTAGGTAAGGTATA	0.373													85	249	---	---	---	---	PASS	T	135884226	T	T	135884226	3	4	157	1	0	0	0	0	1	0	0	0	12935	1014	35	3	1015	3	RAB3GAP1	2	135884226	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	3873697	135884226	107315147	36	55982										
CXCR4	7852	broad.mit.edu	37	chr2	136873271	136873271	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ccactgacaggtgcagcctgTacttgtccgtcatgcttctc	9	14	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:136873271T>C	uc002tuz.2	-	2	322	c.227A>G	c.(226-228)TAC>TGC	p.Y76C	CXCR4_uc002tuy.2_Missense_Mutation_p.Y80C|CXCR4_uc010fnk.2_Missense_Mutation_p.Y61C	NM_003467	NP_003458	P61073	CXCR4_HUMAN	chemokine (C-X-C motif) receptor 4 isoform b	76	Cytoplasmic.				activation of MAPK activity|apoptosis|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|inflammatory response|initiation of viral infection|regulation of chemotaxis|response to hypoxia|response to virus	cell leading edge|cell surface|cytoplasmic membrane-bounded vesicle|integral to membrane|plasma membrane	actin binding|C-X-C chemokine receptor activity|coreceptor activity|myosin light chain binding|ubiquitin binding|ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.155)	Framycetin(DB00452)	GTGCAGCCTGTACTTGTCCGT	0.507													53	255	---	---	---	---	PASS	C	136873271	C	C	136873271	3	2	157	1	0	0	0	0	1	0	0	0	4093	1638	57	5	835	5	CXCR4	2	136873271	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	989045	136873271	106326102	37	55983										
LRP2	4036	broad.mit.edu	37	chr2	170002329	170002329	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gttcactaccagcgttttctCtttctttccttgcccaaatt	4	13	3	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:170002329C>T	uc002ues.2	-	70	13129	c.12916G>A	c.(12916-12918)GAG>AAG	p.E4306K		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4306	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AGCGTTTTCTCTTTCTTTCCT	0.393													28	100	---	---	---	---	PASS	T	170002329	T	T	170002329	3	4	157	1	0	0	0	0	1	0	0	0	8956	922	32	2	1091	2	LRP2	2	170002329	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	33129058	170002329	73197044	38	55984										
LRP2	4036	broad.mit.edu	37	chr2	170038679	170038679	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	attgcagggagacaatacccAtattgagggtgaagggcaag	14	6	0	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:170038679A>T	uc002ues.2	-	51	10209	c.9996T>A	c.(9994-9996)TAT>TAA	p.Y3332*		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3332	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GACAATACCCATATTGAGGGT	0.507													65	172	---	---	---	---	PASS	T	170038679	T	T	170038679	4	4	157	1	0	0	0	0	0	1	0	0	8956	224	8	5	4087	5	LRP2	2	170038679	Nonsense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	36350	170038679	73160694	39	55985										
LRP2	4036	broad.mit.edu	37	chr2	170127502	170127502	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgggcgtcaaaatcaatcccGacaaagaaagaaggattccc	9	10	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:170127502G>A	uc002ues.2	-	16	2445	c.2232C>T	c.(2230-2232)GTC>GTT	p.V744V	LRP2_uc010zdf.1_Intron	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	744	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AATCAATCCCGACAAAGAAAG	0.418													4	168	---	---	---	---	PASS	A	170127502	A	A	170127502	2	1	157	1	0	0	0	0	0	0	0	1	8956	1045	37	2		2	LRP2	2	170127502	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	88823	170127502	73071871	40	55986										
TTN	7273	broad.mit.edu	37	chr2	179421741	179421741	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aagctggccttggtccatctGccatctggaaggtcacgtct	11	12	4	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:179421741G>A	uc010zfg.1	-	279	80660	c.80436C>T	c.(80434-80436)GGC>GGT	p.G26812G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G20507G|TTN_uc010zfi.1_Silent_p.G20440G|TTN_uc010zfj.1_Silent_p.G20315G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27739							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)			TGGTCCATCTGCCATCTGGAA	0.453													23	61	---	---	---	---	PASS	A	179421741	A	A	179421741	2	1	157	1	0	0	0	0	0	0	0	1	16732	1306	46	3		3	TTN	2	179421741	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	9294239	179421741	63777632	41	55987										
ALS2	57679	broad.mit.edu	37	chr2	202609061	202609061	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gtctttctgtagtagctaacTcgtggagactggcaatatac	10	8	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:202609061T>A	uc002uyo.2	-	10	2446	c.2090A>T	c.(2089-2091)GAG>GTG	p.E697V	ALS2_uc002uyp.3_Missense_Mutation_p.E697V|ALS2_uc002uyq.2_Missense_Mutation_p.E697V|ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	697	DH.				cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						AGTAGCTAACTCGTGGAGACT	0.403													31	107	---	---	---	---	PASS	A	202609061	A	A	202609061	3	1	157	1	0	0	0	0	1	0	0	0	550	1551	54	5	2983	5	ALS2	2	202609061	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	23187320	202609061	40590312	42	55988										
ABCA12	26154	broad.mit.edu	37	chr2	215855660	215855660	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttgccaaacttgagtataatGatgaggatcacgatggtaac	10	6	1	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr2:215855660G>A	uc002vew.2	-	24	3610	c.3390C>T	c.(3388-3390)ATC>ATT	p.I1130I	ABCA12_uc002vev.2_Silent_p.I812I|ABCA12_uc010zjn.1_Silent_p.I57I	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1130	Helical; (Potential).				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TGAGTATAATGATGAGGATCA	0.398													37	143	---	---	---	---	PASS	A	215855660	A	A	215855660	2	1	157	1	0	0	0	0	0	0	0	1	30	1280	45	2		2	ABCA12	2	215855660	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	13246599	215855660	27343713	43	55989										
TOP2B	7155	broad.mit.edu	37	chr3	25686854	25686854	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	agaagaatgtgttcaagttgTgtcttcttctgatacactct	8	7	5	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:25686854T>G	uc011awn.1	-	2	220	c.177A>C	c.(175-177)ACA>ACC	p.T59T	TOP2B_uc003cdj.2_Silent_p.T54T	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	59					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						GTTCAAGTTGTGTCTTCTTCT	0.363													66	166	---	---	---	---	PASS	G	25686854	G	G	25686854	2	3	157	1	0	0	0	0	0	0	0	1	16363	1683	59	5		5	TOP2B	3	25686854	Silent	SNP	T	TCGA-66-2777-01A-01D-1267-08		25686854	172335576	44	55990										
C3orf39	84892	broad.mit.edu	37	chr3	43122452	43122452	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gaggttgtcggggttgaagcGgttggcgatgagggccacgt	20	6	0	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:43122452G>A	uc003cmq.1	-	2	613	c.472C>T	c.(472-474)CGC>TGC	p.R158C	C3orf39_uc003cmr.1_Missense_Mutation_p.R158C	NM_032806	NP_116195	Q8NAT1	AGO61_HUMAN	glycosyltransferase precursor	158						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)|skin(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0571)|Kidney(284;0.0718)		GGGTTGAAGCGGTTGGCGATG	0.617													7	117	---	---	---	---	PASS	A	43122452	A	A	43122452	3	1	157	1	0	0	0	0	1	0	0	0	2229	1116	39	1	1274	1	C3orf39	3	43122452	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	17435598	43122452	154899978	45	55991										
C3orf45	132228	broad.mit.edu	37	chr3	50324115	50324115	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	atccacccagcaggcacactGcgcccctatctaactgaaga	7	16	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:50324115G>A	uc003cyz.2	+	3	210	c.183G>A	c.(181-183)CTG>CTA	p.L61L		NM_153215	NP_694947	Q8N112	CC045_HUMAN	hypothetical protein LOC132228	61						integral to membrane				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CAGGCACACTGCGCCCCTATC	0.637													12	60	---	---	---	---	PASS	A	50324115	A	A	50324115	2	1	157	1	0	0	0	0	0	0	0	1	2231	1306	46	3		3	C3orf45	3	50324115	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	7201663	50324115	147698315	46	55992										
ROBO1	6091	broad.mit.edu	37	chr3	78796020	78796020	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctactgcaaccatgacatccGaagggttttgtctgaagtca	9	10	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:78796020G>T	uc003dqe.2	-	5	738	c.530C>A	c.(529-531)TCG>TAG	p.S177*	ROBO1_uc003dqb.2_Nonsense_Mutation_p.S138*|ROBO1_uc003dqc.2_Nonsense_Mutation_p.S138*|ROBO1_uc003dqd.2_Nonsense_Mutation_p.S138*	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	177	Extracellular (Potential).|Ig-like C2-type 2.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		CATGACATCCGAAGGGTTTTG	0.458													3	47	---	---	---	---	PASS	T	78796020	T	T	78796020	4	4	157	1	0	0	0	0	0	1	0	0	13513	1059	37	2	4546	2	ROBO1	3	78796020	Nonsense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	28471905	78796020	119226410	47	55993										
ARL6	84100	broad.mit.edu	37	chr3	97499500	97499500	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	catgtcaggtcaaggaagatAcagaaatctctgggaacact	10	8	3	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:97499500A>G	uc003drv.2	+	5	540	c.227A>G	c.(226-228)TAC>TGC	p.Y76C	ARL6_uc003drw.2_RNA|ARL6_uc003dru.2_Missense_Mutation_p.Y76C|ARL6_uc010hoy.2_Missense_Mutation_p.Y76C	NM_177976	NP_816931	Q9H0F7	ARL6_HUMAN	ADP-ribosylation factor-like 6	76					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)		CAAGGAAGATACAGAAATCTC	0.284									Bardet-Biedl_syndrome				83	135	---	---	---	---	PASS	G	97499500	G	G	97499500	3	3	157	1	0	0	0	0	1	0	0	0	941	391	14	5	237	5	ARL6	3	97499500	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	18703480	97499500	100522930	48	55994										
TRAT1	50852	broad.mit.edu	37	chr3	108549571	108549571	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tctagcattgttgggcttggCtttggttatatcactgatct	10	7	3	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:108549571C>G	uc003dxi.1	+	2	206	c.62C>G	c.(61-63)GCT>GGT	p.A21G	TRAT1_uc010hpx.1_Intron	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	21	Helical; Signal-anchor for type III membrane protein; (Potential).				cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						TTGGGCTTGGCTTTGGTTATA	0.398													111	251	---	---	---	---	PASS	G	108549571	G	G	108549571	3	3	157	1	0	0	0	0	1	0	0	0	16463	797	28	4	68	4	TRAT1	3	108549571	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	11050071	108549571	89472859	49	55995										
C3orf30	152405	broad.mit.edu	37	chr3	118865136	118865136	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctaagggccaggaagaagacGaccagaagaaccaggccgaa	13	10	0	4			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:118865136G>T	uc003ecb.1	+	1	140	c.100G>T	c.(100-102)GAC>TAC	p.D34Y	IGSF11_uc003eby.2_5'Flank|IGSF11_uc003ebz.2_5'Flank|IGSF11_uc010hqs.2_5'Flank|C3orf30_uc011biw.1_Missense_Mutation_p.D34Y	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	34										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		GGAAGAAGACGACCAGAAGAA	0.552													32	68	---	---	---	---	PASS	T	118865136	T	T	118865136	3	4	157	1	0	0	0	0	1	0	0	0	2220	1058	37	2	102	2	C3orf30	3	118865136	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	10315565	118865136	79157294	50	55996										
RABL3	285282	broad.mit.edu	37	chr3	120461339	120461339	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	caacaccagtaccttcacccGatccagggacgccatcttgc	7	17	2	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:120461339G>T	uc003edx.2	-	1	46	c.16C>A	c.(16-18)CGG>AGG	p.R6R	GTF2E1_uc003edy.2_5'Flank|GTF2E1_uc003edz.3_5'Flank	NM_173825	NP_776186	Q5HYI8	RABL3_HUMAN	RAB, member of RAS oncogene family-like 3	6	Small GTPase-like.				small GTPase mediated signal transduction		GTP binding				0				GBM - Glioblastoma multiforme(114;0.151)		ACCTTCACCCGATCCAGGGAC	0.552													22	155	---	---	---	---	PASS	T	120461339	T	T	120461339	2	4	157	1	0	0	0	0	0	0	0	1	12972	1057	37	2		2	RABL3	3	120461339	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	1596203	120461339	77561091	51	55997										
ABTB1	80325	broad.mit.edu	37	chr3	127398972	127398972	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ggcgcgtggccaagctcttcCgcctggcgcggcttgaggac	16	14	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:127398972C>T	uc003ejt.2	+	11	1262	c.1174C>T	c.(1174-1176)CGC>TGC	p.R392C	ABTB1_uc003ejr.2_Missense_Mutation_p.R250C|ABTB1_uc003ejs.2_Missense_Mutation_p.R367C|ABTB1_uc003eju.2_Missense_Mutation_p.R250C|ABTB1_uc010hsm.2_Missense_Mutation_p.R119C	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	392						cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						CAAGCTCTTCCGCCTGGCGCG	0.642													97	401	---	---	---	---	PASS	T	127398972	T	T	127398972	3	4	157	1	0	0	0	0	1	0	0	0	102	652	23	1	1216	1	ABTB1	3	127398972	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	6937633	127398972	70623458	52	55998										
PPP2R3A	5523	broad.mit.edu	37	chr3	135721425	135721425	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgacaagcctaattctaggaAgatggacactgtacaatcca	8	9	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:135721425A>G	uc003eqv.1	+	2	1650	c.1085A>G	c.(1084-1086)AAG>AGG	p.K362R	PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	362					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						AATTCTAGGAAGATGGACACT	0.388													3	146	---	---	---	---	PASS	G	135721425	G	G	135721425	3	3	157	1	0	0	0	0	1	0	0	0	12388	72	3	5	1087	5	PPP2R3A	3	135721425	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	8322453	135721425	62301005	53	55999										
AGTR1	185	broad.mit.edu	37	chr3	148459391	148459391	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttatgagtcccaaaattcaaCcctcccgatagggctgggcc	9	13	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:148459391C>A	uc003ewg.2	+	4	1015	c.569C>A	c.(568-570)ACC>AAC	p.T190N	AGTR1_uc003ewh.2_Missense_Mutation_p.T190N|AGTR1_uc003ewi.2_Missense_Mutation_p.T190N|AGTR1_uc003ewj.2_Missense_Mutation_p.T190N|AGTR1_uc003ewk.2_Missense_Mutation_p.T190N	NM_031850	NP_114038	P30556	AGTR1_HUMAN	angiotensin II receptor, type 1	190	Extracellular (Potential).				calcium-mediated signaling|cell chemotaxis|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|kidney development|low-density lipoprotein particle remodeling|positive regulation of cellular protein metabolic process|positive regulation of cholesterol esterification|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of phospholipase A2 activity|positive regulation of reactive oxygen species metabolic process|regulation of cell growth|regulation of cell proliferation|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|Rho protein signal transduction		acetyltransferase activator activity|angiotensin type I receptor activity|angiotensin type II receptor activity|bradykinin receptor binding|protein heterodimerization activity				0			LUSC - Lung squamous cell carcinoma(72;0.127)|Lung(72;0.152)		Candesartan(DB00796)|Eprosartan(DB00876)|Forasartan(DB01342)|Irbesartan(DB01029)|Losartan(DB00678)|Olmesartan(DB00275)|Saprisartan(DB01347)|Spironolactone(DB00421)|Tasosartan(DB01349)|Telmisartan(DB00966)|Valsartan(DB00177)	CAAAATTCAACCCTCCCGATA	0.403													14	173	---	---	---	---	PASS	A	148459391	A	A	148459391	3	1	157	1	0	0	0	0	1	0	0	0	401	507	18	3	571	3	AGTR1	3	148459391	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	12737966	148459391	49563039	54	56000										
CLRN1	7401	broad.mit.edu	37	chr3	150659451	150659451	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aaagcattgtacatgaagaaGgctgtccccaccatggttaa	9	9	0	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:150659451G>T	uc003eyk.1	-	2	642	c.351C>A	c.(349-351)GCC>GCA	p.A117A	CLRN1OS_uc011bny.1_Intron|CLRN1_uc003eyj.2_Silent_p.A41A|CLRN1_uc010hvj.1_RNA	NM_174878	NP_777367	P58418	CLRN1_HUMAN	clarin 1 isoform a	117	Helical; (Potential).				equilibrioception|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			ACATGAAGAAGGCTGTCCCCA	0.428													34	103	---	---	---	---	PASS	T	150659451	T	T	150659451	2	4	157	1	0	0	0	0	0	0	0	1	3557	987	35	3		3	CLRN1	3	150659451	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	2200060	150659451	47362979	55	56001										
SGEF	26084	broad.mit.edu	37	chr3	153870648	153870648	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttaaaaattctaaagaactgAgtgatacaatgactaaaacc	5	6	1	4			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:153870648A>T	uc011bog.1	+	6	1625	c.1414A>T	c.(1414-1416)AGT>TGT	p.S472C	SGEF_uc011boh.1_Missense_Mutation_p.S472C	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	472	DH.				regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TAAAGAACTGAGTGATACAAT	0.383													6	17	---	---	---	---	PASS	T	153870648	T	T	153870648	3	4	157	1	0	0	0	0	1	0	0	0	14205	304	11	5	1432	5	SGEF	3	153870648	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	3211197	153870648	44151782	56	56002										
NCEH1	57552	broad.mit.edu	37	chr3	172351674	172351674	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cagcctcttccacatcaagtGaagtgtgattgttaacgatc	8	10	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:172351674G>A	uc011bpx.1	-	5	1076	c.938C>T	c.(937-939)TCA>TTA	p.S313L	NCEH1_uc003fig.2_Missense_Mutation_p.S305L|NCEH1_uc011bpw.1_Missense_Mutation_p.S140L|NCEH1_uc011bpy.1_Missense_Mutation_p.S140L	NM_001146276	NP_001139748	Q6PIU2	NCEH1_HUMAN	arylacetamide deacetylase-like 1 isoform a	273	Lumenal (Potential).				lipid catabolic process	endoplasmic reticulum|integral to membrane|microsome	carboxylesterase activity				0						CACATCAAGTGAAGTGTGATT	0.493													16	306	---	---	---	---	PASS	A	172351674	A	A	172351674	3	1	157	1	0	0	0	0	1	0	0	0	10215	1294	45	2	412	2	NCEH1	3	172351674	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	18481026	172351674	25670756	57	56003										
KNG1	3827	broad.mit.edu	37	chr3	186457173	186457173	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ccctgggagaaaaaaatttaCcctactgtcaactgtcaacc	6	12	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr3:186457173C>T	uc011bsa.1	+	9	1307	c.1095C>T	c.(1093-1095)TAC>TAT	p.Y365Y	KNG1_uc003fqr.2_Silent_p.Y365Y	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	365	Cystatin 3.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	AAAAAATTTACCCTACTGTCA	0.423													105	293	---	---	---	---	PASS	T	186457173	T	T	186457173	2	4	157	1	0	0	0	0	0	0	0	1	8427	518	18	3		3	KNG1	3	186457173	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	14105499	186457173	11565257	58	56004										
GRK4	2868	broad.mit.edu	37	chr4	3029676	3029676	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gacctcggtttggccacagaGatcccagaaggacagagggt	14	10	0	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr4:3029676G>A	uc003ggn.1	+	11	1463	c.1008G>A	c.(1006-1008)GAG>GAA	p.E336E	GRK4_uc003ggo.1_Silent_p.E336E|GRK4_uc003ggp.1_Silent_p.E304E|GRK4_uc003ggq.1_Silent_p.E304E	NM_182982	NP_892027	P32298	GRK4_HUMAN	G protein-coupled receptor kinase 4 isoform	336	Protein kinase.					cell cortex	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TGGCCACAGAGATCCCAGAAG	0.507													75	155	---	---	---	---	PASS	A	3029676	A	A	3029676	2	1	157	1	0	0	0	0	0	0	0	1	6791	933	33	2		2	GRK4	4	3029676	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08		3029676	188124600	59	56005										
STK32B	55351	broad.mit.edu	37	chr4	5468481	5468481	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	agcttgaagagatgattctaGaatccaagccacttcacaaa	7	9	2	4			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr4:5468481G>C	uc003gih.1	+	10	1025	c.961G>C	c.(961-963)GAA>CAA	p.E321Q	STK32B_uc010ida.1_Missense_Mutation_p.E274Q	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	321							ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						GATGATTCTAGAATCCAAGCC	0.493													31	63	---	---	---	---	PASS	C	5468481	C	C	5468481	3	2	157	1	0	0	0	0	1	0	0	0	15297	943	33	2	999	2	STK32B	4	5468481	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	2438805	5468481	185685795	60	56006										
ARAP2	116984	broad.mit.edu	37	chr4	36126522	36126522	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	atagctgctagtgttgctcgGttgacccctggaagagaacg	13	9	0	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr4:36126522G>C	uc003gsq.1	-	22	4046	c.3708C>G	c.(3706-3708)AAC>AAG	p.N1236K		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1236	Rho-GAP.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						GTGTTGCTCGGTTGACCCCTG	0.373													22	49	---	---	---	---	PASS	C	36126522	C	C	36126522	3	2	157	1	0	0	0	0	1	0	0	0	839	1252	44	4	1454	4	ARAP2	4	36126522	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	30658041	36126522	155027754	61	56007										
GABRA2	2555	broad.mit.edu	37	chr4	46307591	46307591	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctaattttactaacctgtacTggatttaattgtctcctttc	4	9	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr4:46307591T>A	uc003gxc.3	-	6	1370	c.697A>T	c.(697-699)AGT>TGT	p.S233C	GABRA2_uc010igc.2_Missense_Mutation_p.S233C|GABRA2_uc011bzc.1_Missense_Mutation_p.S178C|GABRA2_uc003gxe.2_Missense_Mutation_p.S233C	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	233	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TAACCTGTACTGGATTTAATT	0.368													25	85	---	---	---	---	PASS	A	46307591	A	A	46307591	3	1	157	1	0	0	0	0	1	0	0	0	6161	1580	55	5	674	5	GABRA2	4	46307591	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	10181069	46307591	144846685	62	56008										
LIN54	132660	broad.mit.edu	37	chr4	83857171	83857171	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	agtttttaagacatcctgatCgtttgcaattacaccctttg	6	9	0	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr4:83857171C>A	uc003hnx.3	-	11	2186	c.1808G>T	c.(1807-1809)CGA>CTA	p.R603L	LIN54_uc003hnz.3_Missense_Mutation_p.R382L|LIN54_uc003hny.3_Missense_Mutation_p.R202L|LIN54_uc010ijt.2_Missense_Mutation_p.R514L|LIN54_uc010iju.2_Missense_Mutation_p.R202L|LIN54_uc010ijv.2_Missense_Mutation_p.R382L	NM_194282	NP_919258	Q6MZP7	LIN54_HUMAN	lin-54 homolog isoform a	603	CXC 2.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Hepatocellular(203;0.114)				ACATCCTGATCGTTTGCAATT	0.403													4	250	---	---	---	---	PASS	A	83857171	A	A	83857171	3	1	157	1	0	0	0	0	1	0	0	0	8809	884	31	2	453	2	LIN54	4	83857171	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	37549580	83857171	107297105	63	56009										
ENPEP	2028	broad.mit.edu	37	chr4	111463936	111463936	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgaactcctctaatcctagtGgaaatgcttttctcaaaata	5	9	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr4:111463936G>T	uc003iab.3	+	12	2179	c.1837G>T	c.(1837-1839)GGA>TGA	p.G613*		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	613	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	TAATCCTAGTGGAAATGCTTT	0.383													28	84	---	---	---	---	PASS	T	111463936	T	T	111463936	4	4	157	1	0	0	0	0	0	1	0	0	5128	1349	47	3	1883	3	ENPEP	4	111463936	Nonsense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	27606765	111463936	79690340	64	56010										
SEC24D	9871	broad.mit.edu	37	chr4	119644736	119644736	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tccacataagaagagcctccGtaaagtcctttgtcttctac	6	12	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr4:119644736G>A	uc003ici.3	-	23	3305	c.3033C>T	c.(3031-3033)TAC>TAT	p.Y1011Y	SEC24D_uc003ich.3_RNA|SEC24D_uc003icj.3_Silent_p.Y1012Y	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D	1011					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0						AAGAGCCTCCGTAAAGTCCTT	0.383													5	180	---	---	---	---	PASS	A	119644736	A	A	119644736	2	1	157	1	0	0	0	0	0	0	0	1	13997	1140	40	1		1	SEC24D	4	119644736	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	8180800	119644736	71509540	65	56011										
GRIA2	2891	broad.mit.edu	37	chr4	158254042	158254042	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cgcaacctaaggaagcaaagAattgaaatctcccgaagggg	11	9	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr4:158254042A>G	uc003ipm.3	+	7	1413	c.954A>G	c.(952-954)AGA>AGG	p.R318R	GRIA2_uc011cit.1_Silent_p.R271R|GRIA2_uc003ipl.3_Silent_p.R318R|GRIA2_uc003ipk.3_Silent_p.R271R|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	318	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	GGAAGCAAAGAATTGAAATCT	0.483													19	73	---	---	---	---	PASS	G	158254042	G	G	158254042	2	3	157	1	0	0	0	0	0	0	0	1	6768	243	9	5		5	GRIA2	4	158254042	Silent	SNP	A	TCGA-66-2777-01A-01D-1267-08	38609306	158254042	32900234	66	56012										
DNAH5	1767	broad.mit.edu	37	chr5	13729589	13729589	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctgtctgagtttgctaagttCcaccaaattcagccatgtta	7	10	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr5:13729589C>T	uc003jfd.2	-	69	11884	c.11842G>A	c.(11842-11844)GAA>AAA	p.E3948K	DNAH5_uc003jfc.2_Missense_Mutation_p.E116K	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3948					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTGCTAAGTTCCACCAAATTC	0.378									Kartagener_syndrome				31	121	---	---	---	---	PASS	T	13729589	T	T	13729589	3	4	157	1	0	0	0	0	1	0	0	0	4604	864	30	2	2076	2	DNAH5	5	13729589	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08		13729589	167185671	67	56013										
CDH10	1008	broad.mit.edu	37	chr5	24491929	24491929	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tttctggttaagattctggcAgtattatctaaaacaaattt	6	5	3	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr5:24491929A>T	uc003jgr.1	-	11	1964	c.1632T>A	c.(1630-1632)ACT>ACA	p.T544T	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	544	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AGATTCTGGCAGTATTATCTA	0.294										HNSCC(23;0.051)			9	35	---	---	---	---	PASS	T	24491929	T	T	24491929	2	4	157	1	0	0	0	0	0	0	0	1	3096	175	7	5		5	CDH10	5	24491929	Silent	SNP	A	TCGA-66-2777-01A-01D-1267-08	10762340	24491929	156423331	68	56014										
CDH9	1007	broad.mit.edu	37	chr5	26915759	26915759	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gactccagacatttcaggaaCactggcagtgtataagtctt	9	9	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr5:26915759C>T	uc003jgs.1	-	3	671	c.502G>A	c.(502-504)GTT>ATT	p.V168I	CDH9_uc010iug.2_Missense_Mutation_p.V168I	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	168	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						ATTTCAGGAACACTGGCAGTG	0.353													21	63	---	---	---	---	PASS	T	26915759	T	T	26915759	3	4	157	1	0	0	0	0	1	0	0	0	3117	478	17	3	1907	3	CDH9	5	26915759	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	2423830	26915759	153999501	69	56015										
RXFP3	51289	broad.mit.edu	37	chr5	33937484	33937484	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ggggacagctgctgcttctcGgccaaggcgctgtgtgtgtg	17	10	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr5:33937484G>T	uc003jic.1	+	1	996	c.639G>T	c.(637-639)TCG>TCT	p.S213S		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	213	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						GCTGCTTCTCGGCCAAGGCGC	0.677													13	38	---	---	---	---	PASS	T	33937484	T	T	33937484	2	4	157	1	0	0	0	0	0	0	0	1	13761	1103	39	1		1	RXFP3	5	33937484	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	7021725	33937484	146977776	70	56016										
CHSY3	337876	broad.mit.edu	37	chr5	129521341	129521341	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tggtgcatattttccatccaGttcattgtgatcctaacttg	7	9	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr5:129521341G>T	uc003kvd.2	+	3	2506	c.2506G>T	c.(2506-2508)GTT>TTT	p.V836F		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	836	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		TTTCCATCCAGTTCATTGTGA	0.443													28	105	---	---	---	---	PASS	T	129521341	T	T	129521341	3	4	157	1	0	0	0	0	1	0	0	0	3413	1029	36	3	2516	3	CHSY3	5	129521341	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	95583857	129521341	51393919	71	56017										
KDM3B	51780	broad.mit.edu	37	chr5	137721893	137721893	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gatggaggtgaggcaagccgAgggccctggaaaggagggaa	20	6	0	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr5:137721893A>G	uc003lcy.1	+	7	1163	c.963A>G	c.(961-963)CGA>CGG	p.R321R	KDM3B_uc010jew.1_Intron|KDM3B_uc011cys.1_5'Flank	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	321					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						AGGCAAGCCGAGGGCCCTGGA	0.542													67	168	---	---	---	---	PASS	G	137721893	G	G	137721893	2	3	157	1	0	0	0	0	0	0	0	1	8127	291	11	5		5	KDM3B	5	137721893	Silent	SNP	A	TCGA-66-2777-01A-01D-1267-08	8200552	137721893	43193367	72	56018										
PCDHB10	56126	broad.mit.edu	37	chr5	140573603	140573603	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cacctactcgctgctgccgcCccaagacccgcacctgcccc	7	23	0	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr5:140573603C>T	uc003lix.2	+	1	1652	c.1478C>T	c.(1477-1479)CCC>CTC	p.P493L		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	493	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGCTGCCGCCCCAAGACCCG	0.682													23	145	---	---	---	---	PASS	T	140573603	T	T	140573603	3	4	157	1	0	0	0	0	1	0	0	0	11535	623	22	3	1480	3	PCDHB10	5	140573603	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	2851710	140573603	40341657	73	56019										
JAKMIP2	9832	broad.mit.edu	37	chr5	147029969	147029969	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tcgttttgggctgctcatgtTgcactcagcctccttgacca	9	13	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr5:147029969T>G	uc003loq.1	-	4	1151	c.769A>C	c.(769-771)AAC>CAC	p.N257H	JAKMIP2_uc011dbx.1_Missense_Mutation_p.N215H|JAKMIP2_uc003lor.1_Missense_Mutation_p.N257H|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.N257H	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	257						Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCTCATGTTGCACTCAGCC	0.483													5	131	---	---	---	---	PASS	G	147029969	G	G	147029969	3	3	157	1	0	0	0	0	1	0	0	0	7941	1812	63	5	1735	5	JAKMIP2	5	147029969	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	6456366	147029969	33885291	74	56020										
GALNT10	55568	broad.mit.edu	37	chr5	153760052	153760052	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ccattgtgtgcccgatgattGatgtaattgaccatgacgac	10	9	0	4			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr5:153760052G>T	uc003lvh.2	+	6	931	c.799G>T	c.(799-801)GAT>TAT	p.D267Y	GALNT10_uc003lvg.1_Missense_Mutation_p.D267Y|GALNT10_uc010jic.2_RNA|GALNT10_uc010jid.2_Missense_Mutation_p.D108Y	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	267	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			CCCGATGATTGATGTAATTGA	0.537													97	221	---	---	---	---	PASS	T	153760052	T	T	153760052	3	4	157	1	0	0	0	0	1	0	0	0	6208	1290	45	2	821	2	GALNT10	5	153760052	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	6730083	153760052	27155208	75	56021										
OR2B6	26212	broad.mit.edu	37	chr6	27925357	27925357	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttgggggctactgaatatctTctcctggccgtcatgtcctt	10	11	3	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr6:27925357T>C	uc011dkx.1	+	1	339	c.339T>C	c.(337-339)CTT>CTC	p.L113L		NM_012367	NP_036499	P58173	OR2B6_HUMAN	olfactory receptor, family 2, subfamily B,	113	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CTGAATATCTTCTCCTGGCCG	0.458													16	157	---	---	---	---	PASS	C	27925357	C	C	27925357	2	2	157	1	0	0	0	0	0	0	0	1	10991	1770	62	5		5	OR2B6	6	27925357	Silent	SNP	T	TCGA-66-2777-01A-01D-1267-08		27925357	143189710	76	56022										
OR12D2	26529	broad.mit.edu	37	chr6	29365344	29365344	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tactaaacccactgatctatActttgaggaacaaggaagtg	8	8	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr6:29365344A>T	uc003nmf.3	+	1	929	c.868A>T	c.(868-870)ACT>TCT	p.T290S		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	290	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACTGATCTATACTTTGAGGAA	0.458													68	236	---	---	---	---	PASS	T	29365344	T	T	29365344	3	4	157	1	0	0	0	0	1	0	0	0	10931	391	14	5	870	5	OR12D2	6	29365344	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	1439987	29365344	141749723	77	56023										
ZNF451	26036	broad.mit.edu	37	chr6	56993549	56993549	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aaaaattgattttcagcatgCtcatgggttacaagaattgg	9	5	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr6:56993549C>T	uc003pdm.1	+	5	559	c.335C>T	c.(334-336)GCT>GTT	p.A112V	ZNF451_uc003pdl.2_Missense_Mutation_p.A112V|ZNF451_uc003pdn.1_Missense_Mutation_p.A112V|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Missense_Mutation_p.A112V	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	112					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TTTCAGCATGCTCATGGGTTA	0.358													10	90	---	---	---	---	PASS	T	56993549	T	T	56993549	3	4	157	1	0	0	0	0	1	0	0	0	17919	797	28	3	353	3	ZNF451	6	56993549	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	27628205	56993549	114121518	78	56024										
FILIP1	27145	broad.mit.edu	37	chr6	76022396	76022396	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tggcattggagttgtatttcCgtactggagttggaacagtc	13	6	0	0	rs144029973		TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr6:76022396C>A	uc003pia.2	-	5	3525	c.3152G>T	c.(3151-3153)CGG>CTG	p.R1051L	FILIP1_uc003phy.1_Missense_Mutation_p.R1051L|FILIP1_uc003phz.2_Missense_Mutation_p.R952L|FILIP1_uc010kbe.2_Missense_Mutation_p.R1054L|FILIP1_uc003pib.1_Missense_Mutation_p.R803L	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	1051										skin(3)|ovary(1)	4						GTTGTATTTCCGTACTGGAGT	0.463													6	825	---	---	---	---	PASS	A	76022396	A	A	76022396	3	1	157	1	0	0	0	0	1	0	0	0	5894	652	23	1	497	1	FILIP1	6	76022396	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	19028847	76022396	95092671	79	56025										
HTR1E	3354	broad.mit.edu	37	chr6	87725810	87725810	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cttctccacctcagaccctaCcacagagtttgaaaagttcc	5	15	2	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr6:87725810C>A	uc003pli.2	+	2	1461	c.758C>A	c.(757-759)ACC>AAC	p.T253N		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	253	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	TCAGACCCTACCACAGAGTTT	0.478													66	506	---	---	---	---	PASS	A	87725810	A	A	87725810	3	1	157	1	0	0	0	0	1	0	0	0	7439	507	18	3	760	3	HTR1E	6	87725810	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	11703414	87725810	83389257	80	56026										
CDK19	23097	broad.mit.edu	37	chr6	110953250	110953250	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	taccaatggcctttgtataaTgccttgcaccaagcaaaagt	7	10	0	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr6:110953250T>C	uc003puh.1	-	6	702	c.629A>G	c.(628-630)CAT>CGT	p.H210R	CDK19_uc003pui.1_Missense_Mutation_p.H150R|CDK19_uc011eax.1_Missense_Mutation_p.H86R	NM_015076	NP_055891	Q9BWU1	CDK19_HUMAN	cell division cycle 2-like 6 (CDK8-like)	210	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						CTTTGTATAATGCCTTGCACC	0.353													24	188	---	---	---	---	PASS	C	110953250	C	C	110953250	3	2	157	1	0	0	0	0	1	0	0	0	3135	1464	51	5	911	5	CDK19	6	110953250	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	23227440	110953250	60161817	81	56027										
SHPRH	257218	broad.mit.edu	37	chr6	146276093	146276093	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aaactctgtgcaggaagaagCtgaagagttaattctcctag	10	7	2	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr6:146276093C>A	uc003qlf.2	-	2	765	c.366G>T	c.(364-366)CAG>CAT	p.Q122H	SHPRH_uc003qld.2_Missense_Mutation_p.Q122H|SHPRH_uc003qle.2_Missense_Mutation_p.Q122H|SHPRH_uc003qlg.1_5'UTR|SHPRH_uc003qlj.1_Intron|SHPRH_uc003qlk.1_Missense_Mutation_p.Q122H	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	122					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		CAGGAAGAAGCTGAAGAGTTA	0.328													16	72	---	---	---	---	PASS	A	146276093	A	A	146276093	3	1	157	1	0	0	0	0	1	0	0	0	14291	796	28	3	4845	3	SHPRH	6	146276093	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	35322843	146276093	24838974	82	56028										
SYNE1	23345	broad.mit.edu	37	chr6	152786540	152786540	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctcacttctactgagagattCctccactgagcggtggtttc	9	12	2	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr6:152786540C>A	uc010kiw.2	-	18	2387	c.1785G>T	c.(1783-1785)AGG>AGT	p.R595S	SYNE1_uc003qot.3_Missense_Mutation_p.R602S|SYNE1_uc003qou.3_Missense_Mutation_p.R595S|SYNE1_uc010kjb.1_Missense_Mutation_p.R578S|SYNE1_uc003qpa.1_Missense_Mutation_p.R595S|SYNE1_uc003qow.2_5'Flank|SYNE1_uc003qox.1_Missense_Mutation_p.R111S|SYNE1_uc003qoz.2_Missense_Mutation_p.R27S|SYNE1_uc003qoy.2_Missense_Mutation_p.R162S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	595	Cytoplasmic (Potential).|HAT 1.				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)		CTGAGAGATTCCTCCACTGAG	0.428										HNSCC(10;0.0054)			25	61	---	---	---	---	PASS	A	152786540	A	A	152786540	3	1	157	1	0	0	0	0	1	0	0	0	15442	854	30	2	25197	2	SYNE1	6	152786540	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	6510447	152786540	18328527	83	56029										
IGF2R	3482	broad.mit.edu	37	chr6	160477534	160477534	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cagaggctgcctgtcccattCagacaacgacggatacagac	10	13	1	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr6:160477534C>G	uc003qta.2	+	20	2921	c.2773C>G	c.(2773-2775)CAG>GAG	p.Q925E		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	925	6.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		CTGTCCCATTCAGACAACGAC	0.552													26	155	---	---	---	---	PASS	G	160477534	G	G	160477534	3	3	157	1	0	0	0	0	1	0	0	0	7576	827	29	2	2851	2	IGF2R	6	160477534	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	7690994	160477534	10637533	84	56030										
PARK2	5071	broad.mit.edu	37	chr6	162683555	162683555	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aatcttagagcattccaattAcctggacttccagctggtgg	9	10	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr6:162683555A>T	uc003qtx.3	-	3	546	c.412_splice	c.e3+1	p.A138_splice	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_Splice_Site|PARK2_uc003qty.3_Splice_Site_p.A138_splice|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Splice_Site_p.A138_splice	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1						aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		CATTCCAATTACCTGGACTTC	0.488													35	190	---	---	---	---	PASS	T	162683555	T	T	162683555	5	4	157	1	0	0	0	0	0	0	1	0	11449	405	14	5	1023	5	PARK2	6	162683555	Splice_Site	SNP	A	TCGA-66-2777-01A-01D-1267-08	2206021	162683555	8431512	85	56031										
ICA1	3382	broad.mit.edu	37	chr7	8272244	8272244	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	agcttggcatccaggtccgcGtcagaggcaacaacatgttc	11	12	1	1	rs149823604	byFrequency	TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:8272244G>A	uc003srm.2	-	3	226	c.159C>T	c.(157-159)GAC>GAT	p.D53D	ICA1_uc010ktr.2_Silent_p.D53D|ICA1_uc003srl.2_Silent_p.D41D|ICA1_uc003srn.3_Translation_Start_Site|ICA1_uc003srp.3_Silent_p.D52D|ICA1_uc010kts.2_RNA|ICA1_uc003srq.2_Silent_p.D53D|ICA1_uc003srr.2_Silent_p.D52D|ICA1_uc003sro.3_Silent_p.D53D|ICA1_uc011jxg.1_Silent_p.D53D|ICA1_uc003srs.1_Silent_p.D53D	NM_022307	NP_071682	Q05084	ICA69_HUMAN	islet cell autoantigen 1	53	AH.				neurotransmitter transport	cell junction|cytosol|Golgi membrane|nucleus|secretory granule membrane|synaptic vesicle membrane|transport vesicle membrane				central_nervous_system(1)	1		Ovarian(82;0.0612)		UCEC - Uterine corpus endometrioid carcinoma (126;0.246)		CCAGGTCCGCGTCAGAGGCAA	0.478													5	62	---	---	---	---	PASS	A	8272244	A	A	8272244	2	1	157	1	0	0	0	0	0	0	0	1	7477	1136	40	1		1	ICA1	7	8272244	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08		8272244	150866419	86	56032										
GPNMB	10457	broad.mit.edu	37	chr7	23296641	23296641	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aaaccttttcctcaccacccCggatggagaagatggaattt	8	11	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:23296641C>T	uc003swc.2	+	4	659	c.498C>T	c.(496-498)CCC>CCT	p.P166P	GPNMB_uc003swa.2_Silent_p.P166P|GPNMB_uc003swb.2_Silent_p.P166P|GPNMB_uc011jyy.1_Intron|GPNMB_uc011jyz.1_Silent_p.P67P	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	166	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			CTCACCACCCCGGATGGAGAA	0.468													107	192	---	---	---	---	PASS	T	23296641	T	T	23296641	2	4	157	1	0	0	0	0	0	0	0	1	6620	639	23	1		1	GPNMB	7	23296641	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	15024397	23296641	135842022	87	56033										
AQP1	358	broad.mit.edu	37	chr7	30951901	30951901	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gactgggaactcgcttggccGcaatgacgtgagtggggtgt	17	8	0	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:30951901G>A	uc003tbv.1	+	1	434	c.377G>A	c.(376-378)CGC>CAC	p.R126H	AQP1_uc011kac.1_Missense_Mutation_p.R186H	NM_198098	NP_932766	P29972	AQP1_HUMAN	aquaporin 1	126	Extracellular.				ammonium transport|cell volume homeostasis|cellular hyperosmotic response|cellular response to cAMP|cellular response to copper ion|cellular response to dexamethasone stimulus|cellular response to hydrogen peroxide|cellular response to hypoxia|cellular response to mechanical stimulus|cellular response to mercury ion|cellular response to nitric oxide|cellular response to retinoic acid|cellular response to salt stress|cellular response to UV|cerebrospinal fluid secretion|cGMP biosynthetic process|establishment or maintenance of actin cytoskeleton polarity|lateral ventricle development|maintenance of symbiont-containing vacuole via substance secreted by host|negative regulation of apoptosis|odontogenesis|pancreatic juice secretion|positive regulation of angiogenesis|positive regulation of fibroblast proliferation|positive regulation of saliva secretion|renal water transport|response to drug|transepithelial water transport	apical plasma membrane|basal plasma membrane|brush border membrane|cytoplasm|integral to plasma membrane|nuclear membrane|sarcolemma|symbiont-containing vacuole	ammonia transmembrane transporter activity|carbon dioxide transmembrane transporter activity|glycerol transmembrane transporter activity|intracellular cGMP activated cation channel activity|nitric oxide transmembrane transporter activity|potassium channel activity|potassium ion transmembrane transporter activity|protein binding|water channel activity				0		Melanoma(862;0.16)			Acetazolamide(DB00819)	TCGCTTGGCCGCAATGACGTG	0.498													5	298	---	---	---	---	PASS	A	30951901	A	A	30951901	3	1	157	1	0	0	0	0	1	0	0	0	821	1087	38	1	379	1	AQP1	7	30951901	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	7655260	30951901	128186762	88	56034										
NPSR1	387129	broad.mit.edu	37	chr7	34851432	34851432	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctggtgtccctcagcatagaCagataccatgccatcgtcta	8	13	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:34851432C>T	uc003teg.1	+	4	563	c.435C>T	c.(433-435)GAC>GAT	p.D145D	AAA1_uc010kwq.1_Intron|AAA1_uc011kaq.1_Intron|NPSR1_uc003teh.1_Silent_p.D145D|NPSR1_uc010kwt.1_5'UTR|NPSR1_uc010kwu.1_Intron|NPSR1_uc010kwv.1_Intron|NPSR1_uc003tei.1_Silent_p.D145D|NPSR1_uc010kww.1_Silent_p.D134D|NPSR1_uc011kar.1_Intron|AAA1_uc010kwy.2_Intron|AAA1_uc003tek.3_Intron	NM_207172	NP_997055	Q6W5P4	NPSR1_HUMAN	G protein-coupled receptor for asthma	145	Cytoplasmic (Potential).					cytoplasm|integral to membrane|plasma membrane	vasopressin receptor activity			skin(3)|pancreas(1)	4					Halothane(DB01159)	TCAGCATAGACAGATACCATG	0.498													44	277	---	---	---	---	PASS	T	34851432	T	T	34851432	2	4	157	1	0	0	0	0	0	0	0	1	10600	477	17	3		3	NPSR1	7	34851432	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	3899531	34851432	124287231	89	56035										
TBX20	57057	broad.mit.edu	37	chr7	35242156	35242156	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tggaatgaagggaatgtgggGccactcccttgcatggagct	15	8	0	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:35242156G>T	uc011kas.1	-	8	1241	c.1230C>A	c.(1228-1230)GGC>GGA	p.G410G		NM_001077653	NP_001071121	Q9UMR3	TBX20_HUMAN	T-box transcription factor TBX20	410						nucleus	DNA binding			central_nervous_system(1)	1						GGAATGTGGGGCCACTCCCTT	0.557													17	40	---	---	---	---	PASS	T	35242156	T	T	35242156	2	4	157	1	0	0	0	0	0	0	0	1	15653	1190	42	3		3	TBX20	7	35242156	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	390724	35242156	123896507	90	56036										
HECW1	23072	broad.mit.edu	37	chr7	43485045	43485045	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tccatgcagagccctgagctGgacccggagtccacgaacgg	13	14	0	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:43485045G>A	uc003tid.1	+	11	2879	c.2274G>A	c.(2272-2274)CTG>CTA	p.L758L	HECW1_uc011kbi.1_Silent_p.L758L	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	758					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GCCCTGAGCTGGACCCGGAGT	0.657													40	82	---	---	---	---	PASS	A	43485045	A	A	43485045	2	1	157	1	0	0	0	0	0	0	0	1	7042	1335	47	3		3	HECW1	7	43485045	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	8242889	43485045	115653618	91	56037										
SUN3	256979	broad.mit.edu	37	chr7	48046905	48046905	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aatttgacgaaaattgttttCcagattctggctttccttcc	6	9	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:48046905C>T	uc003tof.2	-	6	446	c.349G>A	c.(349-351)GAA>AAA	p.E117K	SUN3_uc010kyq.2_Missense_Mutation_p.E17K|SUN3_uc003tog.2_Missense_Mutation_p.E117K|SUN3_uc011kcf.1_Missense_Mutation_p.E105K	NM_152782	NP_689995	Q8TAQ9	SUN3_HUMAN	Sad1 and UNC84 domain containing 1	117	Potential.					integral to membrane				central_nervous_system(1)	1						AAATTGTTTTCCAGATTCTGG	0.413													46	120	---	---	---	---	PASS	T	48046905	T	T	48046905	3	4	157	1	0	0	0	0	1	0	0	0	15390	864	30	2	748	2	SUN3	7	48046905	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	4561860	48046905	111091758	92	56038										
DDC	1644	broad.mit.edu	37	chr7	50571751	50571751	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgttgtggtccccagggtggCaaccatctagagggtaaaaa	13	8	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:50571751C>A	uc003tpf.3	-	7	807	c.721G>T	c.(721-723)GCC>TCC	p.A241S	DDC_uc010kza.2_Missense_Mutation_p.A156S|DDC_uc003tpg.3_Missense_Mutation_p.A241S	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	241					cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	CCCAGGGTGGCAACCATCTAG	0.488													40	177	---	---	---	---	PASS	A	50571751	A	A	50571751	3	1	157	1	0	0	0	0	1	0	0	0	4325	710	25	3	753	3	DDC	7	50571751	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	2524846	50571751	108566912	93	56039										
CCT6A	908	broad.mit.edu	37	chr7	56130730	56130730	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gtgattgccaccaacattctCttggttgatgagatcatgcg	10	9	2	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:56130730C>G	uc003trl.1	+	14	1712	c.1548C>G	c.(1546-1548)CTC>CTG	p.L516L	PSPH_uc003trj.2_Intron|CCT6A_uc003trm.1_Silent_p.L471L|CCT6A_uc011kcu.1_Silent_p.L485L|SUMF2_uc003tro.2_5'Flank|SUMF2_uc011kcv.1_5'Flank|SUMF2_uc011kcw.1_5'Flank|SUMF2_uc011kcx.1_5'Flank|SUMF2_uc003trv.2_5'Flank|SUMF2_uc003trt.2_5'Flank|SUMF2_uc011kcy.1_5'Flank|SUMF2_uc011kcz.1_5'Flank|SUMF2_uc003tru.2_5'Flank|SUMF2_uc011kda.1_5'Flank|SUMF2_uc003trx.2_5'Flank	NM_001762	NP_001753	P40227	TCPZ_HUMAN	chaperonin containing TCP1, subunit 6A isoform	516					'de novo' posttranslational protein folding	cytosol	ATP binding|unfolded protein binding			upper_aerodigestive_tract(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CCAACATTCTCTTGGTTGATG	0.443													49	550	---	---	---	---	PASS	G	56130730	G	G	56130730	2	3	157	1	0	0	0	0	0	0	0	1	2957	900	32	2		2	CCT6A	7	56130730	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	5558979	56130730	103007933	94	56040										
KRIT1	889	broad.mit.edu	37	chr7	91864747	91864747	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tactgaagatctgatccaaaCaaagggttgtaaatacaggt	9	6	1	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:91864747C>G	uc003ulq.1	-	6	870	c.699G>C	c.(697-699)TTG>TTC	p.L233F	KRIT1_uc010lev.1_Missense_Mutation_p.L26F|KRIT1_uc003ulr.1_Missense_Mutation_p.L233F|KRIT1_uc003uls.1_Missense_Mutation_p.L233F|KRIT1_uc003ult.1_Missense_Mutation_p.L233F|KRIT1_uc003ulu.1_Missense_Mutation_p.L233F|KRIT1_uc003ulv.1_Missense_Mutation_p.L233F	NM_194456	NP_919438	O00522	KRIT1_HUMAN	krev interaction trapped 1 isoform 1	233					angiogenesis|cell redox homeostasis|negative regulation of angiogenesis|negative regulation of endothelial cell apoptosis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|regulation of establishment of cell polarity|small GTPase mediated signal transduction	cell-cell junction|cytoskeleton	protein binding|small GTPase regulator activity			ovary(2)|lung(1)	3	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CTGATCCAAACAAAGGGTTGT	0.343									Familial_Cerebral_Cavernous_Angioma				9	144	---	---	---	---	PASS	G	91864747	G	G	91864747	3	3	157	1	0	0	0	0	1	0	0	0	8445	477	17	4	1559	4	KRIT1	7	91864747	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	35734017	91864747	67273916	95	56041										
CCDC132	55610	broad.mit.edu	37	chr7	92970853	92970853	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	catctggggatacgctgtatGggttggcagaaagagtggta	16	5	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:92970853G>A	uc003umo.2	+	23	2301	c.2173G>A	c.(2173-2175)GGG>AGG	p.G725R	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.G695R|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Missense_Mutation_p.G445R	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	725											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			TACGCTGTATGGGTTGGCAGA	0.433													56	132	---	---	---	---	PASS	A	92970853	A	A	92970853	3	1	157	1	0	0	0	0	1	0	0	0	2767	1348	47	3	2305	3	CCDC132	7	92970853	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	1106106	92970853	66167810	96	56042										
PON1	5444	broad.mit.edu	37	chr7	94947701	94947701	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctctcggagagcattaagtcGtgttctgtgggggagaaaga	15	6	2	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:94947701G>A	uc003uns.2	-	2	176	c.79C>T	c.(79-81)CGA>TGA	p.R27*	PON1_uc011kih.1_Intron	NM_000446	NP_000437	P27169	PON1_HUMAN	paraoxonase 1 precursor	27					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	GCATTAAGTCGTGTTCTGTGG	0.388													6	61	---	---	---	---	PASS	A	94947701	A	A	94947701	4	1	157	1	0	0	0	0	0	1	0	0	12248	1153	40	1	1020	1	PON1	7	94947701	Nonsense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	1976848	94947701	64190962	97	56043										
TAF6	6878	broad.mit.edu	37	chr7	99711348	99711348	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tcccggcccccaccagaggcGaagcggaaaggaatgaactc	12	14	0	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr7:99711348G>A	uc003uti.2	-	4	369	c.288C>T	c.(286-288)TTC>TTT	p.F96F	TAF6_uc003utg.2_Silent_p.F37F|TAF6_uc003uth.2_Silent_p.F153F|TAF6_uc003utk.2_Silent_p.F96F|TAF6_uc011kji.1_Silent_p.F133F|TAF6_uc003utj.2_Silent_p.F86F|TAF6_uc003utl.2_Silent_p.F96F|TAF6_uc003utm.2_Silent_p.F96F|TAF6_uc003utn.1_RNA	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha	96					negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|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 TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CACCAGAGGCGAAGCGGAAAG	0.597													37	53	---	---	---	---	PASS	A	99711348	A	A	99711348	2	1	157	1	0	0	0	0	0	0	0	1	15527	1049	37	2		2	TAF6	7	99711348	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	4763647	99711348	59427315	98	56044										
SLC20A2	6575	broad.mit.edu	37	chr8	42297058	42297058	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cgtgagcgggatggtgctgtCatcattagccttggcacctg	14	10	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr8:42297058C>T	uc010lxl.2	-	7	1538	c.844G>A	c.(844-846)GAC>AAC	p.D282N	SLC20A2_uc010lxm.2_Missense_Mutation_p.D282N|SLC20A2_uc003xpe.2_Missense_Mutation_p.D282N|SLC20A2_uc011lcu.1_Missense_Mutation_p.D84N	NM_006749	NP_006740	Q08357	S20A2_HUMAN	solute carrier family 20, member 2	282	Cytoplasmic (Potential).				interspecies interaction between organisms	integral to plasma membrane|membrane fraction	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			ovary(2)	2	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;5.73e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00419)|Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			ATGGTGCTGTCATCATTAGCC	0.557													19	224	---	---	---	---	PASS	T	42297058	T	T	42297058	3	4	157	1	0	0	0	0	1	0	0	0	14439	826	29	2	1134	2	SLC20A2	8	42297058	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08		42297058	104066964	99	56045										
STAU2	27067	broad.mit.edu	37	chr8	74516011	74516011	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tcctctttctgaaagcaaaaCataatccggctccttttcct	4	13	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr8:74516011C>A	uc003xzm.2	-	10	1215	c.979G>T	c.(979-981)GTT>TTT	p.V327F	STAU2_uc011lfg.1_Missense_Mutation_p.V155F|STAU2_uc003xzn.2_Missense_Mutation_p.V295F|STAU2_uc011lfh.1_Missense_Mutation_p.V223F|STAU2_uc003xzo.2_Missense_Mutation_p.V327F|STAU2_uc003xzp.2_Missense_Mutation_p.V295F|STAU2_uc011lfi.1_Missense_Mutation_p.V289F|STAU2_uc003xzq.2_Missense_Mutation_p.V107F|STAU2_uc010lzk.2_Missense_Mutation_p.V295F|STAU2_uc010lzl.1_Missense_Mutation_p.V155F	NM_014393	NP_055208	Q9NUL3	STAU2_HUMAN	staufen homolog 2 isoform e	327	DRBM 4.				transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)			GAAAGCAAAACATAATCCGGC	0.413													27	95	---	---	---	---	PASS	A	74516011	A	A	74516011	3	1	157	1	0	0	0	0	1	0	0	0	15272	478	17	3	881	3	STAU2	8	74516011	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	32218953	74516011	71848011	100	56046										
UBR5	51366	broad.mit.edu	37	chr8	103340026	103340026	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	taaagggcacagcaatgtaaAgaaactatccgctctccttg	8	10	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr8:103340026A>T	uc003ykr.1	-	12	1458	c.1425T>A	c.(1423-1425)TCT>TCA	p.S475S	UBR5_uc003yks.1_Silent_p.S475S	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	475					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			AGCAATGTAAAGAAACTATCC	0.433													16	181	---	---	---	---	PASS	T	103340026	T	T	103340026	2	4	157	1	0	0	0	0	0	0	0	1	16902	59	3	5		5	UBR5	8	103340026	Silent	SNP	A	TCGA-66-2777-01A-01D-1267-08	28824015	103340026	43023996	101	56047										
ZFPM2	23414	broad.mit.edu	37	chr8	106815442	106815442	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aatcgaggaatggtaatagtGaatggtggactgaaacaaga	13	3	0	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr8:106815442G>A	uc003ymd.2	+	8	3155	c.3132G>A	c.(3130-3132)GTG>GTA	p.V1044V	ZFPM2_uc011lhs.1_Silent_p.V775V	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	1044					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			TGGTAATAGTGAATGGTGGAC	0.473													24	43	---	---	---	---	PASS	A	106815442	A	A	106815442	2	1	157	1	0	0	0	0	0	0	0	1	17655	1277	45	2		2	ZFPM2	8	106815442	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	3475416	106815442	39548580	102	56048										
PKHD1L1	93035	broad.mit.edu	37	chr8	110504122	110504122	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gcataagaatatgggggaatGccaaccgagtccgagggaat	14	7	0	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr8:110504122G>A	uc003yne.2	+	62	10239	c.10135G>A	c.(10135-10137)GCC>ACC	p.A3379T		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3379	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ATGGGGGAATGCCAACCGAGT	0.378										HNSCC(38;0.096)			6	7	---	---	---	---	PASS	A	110504122	A	A	110504122	3	1	157	1	0	0	0	0	1	0	0	0	11972	1319	46	3	10381	3	PKHD1L1	8	110504122	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	3688680	110504122	35859900	103	56049										
FAM135B	51059	broad.mit.edu	37	chr8	139164580	139164580	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttcgaacaaacgggtgcaagActtcccgatcactgggcaac	10	12	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr8:139164580A>G	uc003yuy.2	-	13	2309	c.2138T>C	c.(2137-2139)GTC>GCC	p.V713A	FAM135B_uc003yux.2_Missense_Mutation_p.V614A|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.V275A|FAM135B_uc003yvb.2_Missense_Mutation_p.V275A	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	713										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)			CGGGTGCAAGACTTCCCGATC	0.552										HNSCC(54;0.14)			22	114	---	---	---	---	PASS	G	139164580	G	G	139164580	3	3	157	1	0	0	0	0	1	0	0	0	5449	275	10	5	2114	5	FAM135B	8	139164580	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	28660458	139164580	7199442	104	56050										
VPS13A	23230	broad.mit.edu	37	chr9	79836154	79836154	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aaatgtttgccccaggttatGgatgtggtcatggaagcata	12	6	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr9:79836154G>T	uc004akr.2	+	13	1303	c.1043G>T	c.(1042-1044)TGG>TTG	p.W348L	VPS13A_uc004akp.3_Missense_Mutation_p.W348L|VPS13A_uc004akq.3_Missense_Mutation_p.W348L|VPS13A_uc004aks.2_Missense_Mutation_p.W348L	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	348					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						CCCAGGTTATGGATGTGGTCA	0.348													4	155	---	---	---	---	PASS	T	79836154	T	T	79836154	3	4	157	1	0	0	0	0	1	0	0	0	17186	1357	47	3	1093	3	VPS13A	9	79836154	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08		79836154	61377277	105	56051										
COL15A1	1306	broad.mit.edu	37	chr9	101817581	101817581	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ggggttcaaaggtgaaaaagGagaaaaaggagacattaatg	14	2	1	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr9:101817581G>T	uc004azb.1	+	34	3325	c.3119G>T	c.(3118-3120)GGA>GTA	p.G1040V		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1040	Triple-helical region 7 (COL7).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				GGTGAAAAAGGAGAAAAAGGA	0.498													36	128	---	---	---	---	PASS	T	101817581	T	T	101817581	3	4	157	1	0	0	0	0	1	0	0	0	3672	1174	41	2	3253	2	COL15A1	9	101817581	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	21981427	101817581	39395850	106	56052										
MUSK	4593	broad.mit.edu	37	chr9	113431191	113431191	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	agcctggattaatcatgagaGagctcgtcaacattccactg	9	10	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr9:113431191G>A	uc004bey.2	+	1	105	c.7G>A	c.(7-9)GAG>AAG	p.E3K	MUSK_uc004bex.2_Missense_Mutation_p.E3K	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	3					transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						AATCATGAGAGAGCTCGTCAA	0.433													7	603	---	---	---	---	PASS	A	113431191	A	A	113431191	3	1	157	1	0	0	0	0	1	0	0	0	9989	943	33	2	9	2	MUSK	9	113431191	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	11613610	113431191	27782240	107	56053										
ZNF618	114991	broad.mit.edu	37	chr9	116812085	116812085	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aggtctgtgagctcatcaacGaggtgaaggagtcctgggcc	15	9	3	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr9:116812085G>T	uc004bid.2	+	15	2602	c.2503G>T	c.(2503-2505)GAG>TAG	p.E835*	ZNF618_uc004bic.2_Nonsense_Mutation_p.E742*|ZNF618_uc011lxi.1_Nonsense_Mutation_p.E802*|ZNF618_uc011lxj.1_Nonsense_Mutation_p.E803*|ZNF618_uc010mvb.2_Nonsense_Mutation_p.E425*	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	835					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCTCATCAACGAGGTGAAGGA	0.637													47	105	---	---	---	---	PASS	T	116812085	T	T	116812085	4	4	157	1	0	0	0	0	0	1	0	0	18039	1059	37	2	2278	2	ZNF618	9	116812085	Nonsense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	3380894	116812085	24401346	108	56054										
FBXW5	54461	broad.mit.edu	37	chr9	139835842	139835842	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cagcaggtcaatctcctccgCgattggtggcggctgcatgg	14	12	2	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr9:139835842C>T	uc004cjx.2	-	8	1469	c.1318G>A	c.(1318-1320)GCG>ACG	p.A440T	FBXW5_uc010nbx.2_RNA|FBXW5_uc004cjy.2_Missense_Mutation_p.A188T|FBXW5_uc004cjz.2_Missense_Mutation_p.A170T	NM_018998	NP_061871	Q969U6	FBXW5_HUMAN	F-box and WD repeat domain containing 5	440							catalytic activity|protein binding				0	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.19)	OV - Ovarian serous cystadenocarcinoma(145;7.8e-06)|Epithelial(140;0.000106)		ATCTCCTCCGCGATTGGTGGC	0.667													6	33	---	---	---	---	PASS	T	139835842	T	T	139835842	3	4	157	1	0	0	0	0	1	0	0	0	5768	768	27	1	390	1	FBXW5	9	139835842	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	23023757	139835842	1377589	109	56055										
CUBN	8029	broad.mit.edu	37	chr10	17146477	17146477	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gtgtgcattcacaactgaaaGaatcaacgccatcaacacaa	6	11	3	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr10:17146477G>C	uc001ioo.2	-	12	1410	c.1358C>G	c.(1357-1359)TCT>TGT	p.S453C		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	453	EGF-like 7; calcium-binding (Potential).				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)	ACAACTGAAAGAATCAACGCC	0.468													3	123	---	---	---	---	PASS	C	17146477	C	C	17146477	3	2	157	1	0	0	0	0	1	0	0	0	4051	942	33	2	9737	2	CUBN	10	17146477	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08		17146477	118388270	110	56056										
PCDH15	65217	broad.mit.edu	37	chr10	55566745	55566745	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tcaccacagaaccattctgtGcaatatatatattgccgttg	6	10	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr10:55566745G>T	uc010qhq.1	-	36	5038	c.4643C>A	c.(4642-4644)GCA>GAA	p.A1548E	PCDH15_uc010qhr.1_Missense_Mutation_p.A1543E	NM_001142771	NP_001136243	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD3-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ACCATTCTGTGCAATATATAT	0.478										HNSCC(58;0.16)			20	92	---	---	---	---	PASS	T	55566745	T	T	55566745	3	4	157	1	0	0	0	0	1	0	0	0	11511	1319	46	3	409	3	PCDH15	10	55566745	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	38420268	55566745	79968002	111	56057										
PCDH15	65217	broad.mit.edu	37	chr10	55582824	55582824	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttactcttggcttgtattttGggtgaaaatgggtctacaaa	10	5	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr10:55582824G>A	uc001jju.1	-	33	5057	c.4662C>T	c.(4660-4662)CCC>CCT	p.P1554P	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.P1551P|PCDH15_uc010qhw.1_Silent_p.P1514P|PCDH15_uc010qhx.1_Silent_p.P1485P|PCDH15_uc010qhy.1_Silent_p.P1561P|PCDH15_uc010qhz.1_Silent_p.P1556P|PCDH15_uc010qia.1_Silent_p.P1534P|PCDH15_uc010qib.1_Silent_p.P1531P	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1554	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CTTGTATTTTGGGTGAAAATG	0.423										HNSCC(58;0.16)			41	199	---	---	---	---	PASS	A	55582824	A	A	55582824	2	1	157	1	0	0	0	0	0	0	0	1	11511	1335	47	3		3	PCDH15	10	55582824	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	16079	55582824	79951923	112	56058										
LRRTM3	347731	broad.mit.edu	37	chr10	68687433	68687433	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	accatgtcctggacctggagCtccttacaaaggcttgattt	9	11	0	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr10:68687433C>A	uc001jmz.1	+	2	1309	c.759C>A	c.(757-759)AGC>AGA	p.S253R	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.S253R	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	253	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GGACCTGGAGCTCCTTACAAA	0.483													85	295	---	---	---	---	PASS	A	68687433	A	A	68687433	3	1	157	1	0	0	0	0	1	0	0	0	9041	796	28	3	765	3	LRRTM3	10	68687433	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	13104609	68687433	66847314	113	56059										
COL13A1	1305	broad.mit.edu	37	chr10	71678051	71678051	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tctctgccagggggcgcccgGaattgccgtggctgggatga	17	11	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr10:71678051G>A	uc001jpr.1	+	18	1543	c.1007G>A	c.(1006-1008)GGA>GAA	p.G336E	COL13A1_uc001jqj.1_Missense_Mutation_p.G336E|COL13A1_uc001jps.1_Missense_Mutation_p.G307E|COL13A1_uc001jpt.1_Missense_Mutation_p.G295E|COL13A1_uc001jpu.1_Missense_Mutation_p.G317E|COL13A1_uc001jpv.1_Missense_Mutation_p.G336E|COL13A1_uc001jpx.1_Missense_Mutation_p.G314E|COL13A1_uc001jpw.1_Missense_Mutation_p.G283E|COL13A1_uc001jpy.1_Missense_Mutation_p.G274E|COL13A1_uc001jpz.1_Missense_Mutation_p.G279E|COL13A1_uc001jqa.1_Missense_Mutation_p.G276E|COL13A1_uc001jqc.1_Missense_Mutation_p.G336E|COL13A1_uc001jqb.1_Missense_Mutation_p.G285E|COL13A1_uc001jql.2_Missense_Mutation_p.G336E|COL13A1_uc001jqd.1_Missense_Mutation_p.G324E|COL13A1_uc001jqe.1_Missense_Mutation_p.G319E|COL13A1_uc001jqf.1_Missense_Mutation_p.G317E|COL13A1_uc001jqg.1_Missense_Mutation_p.G314E|COL13A1_uc001jqh.1_Missense_Mutation_p.G336E|COL13A1_uc001jqi.1_Missense_Mutation_p.G336E|COL13A1_uc010qjf.1_Missense_Mutation_p.G126E|COL13A1_uc001jqk.1_Missense_Mutation_p.G174E	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	336	Extracellular (Potential).|Triple-helical region 2 (COL2).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	GGGGCGCCCGGAATTGCCGTG	0.592													17	53	---	---	---	---	PASS	A	71678051	A	A	71678051	3	1	157	1	0	0	0	0	1	0	0	0	3670	1174	41	2	1081	2	COL13A1	10	71678051	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	2990618	71678051	63856696	114	56060										
PSD	5662	broad.mit.edu	37	chr10	104171506	104171506	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	attgcactggaagtatcgctGggagaagtgggccagcacgc	15	9	0	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr10:104171506G>A	uc001kvg.1	-	8	2427	c.1900C>T	c.(1900-1902)CAG>TAG	p.Q634*	PSD_uc001kvf.1_5'Flank|PSD_uc001kvh.1_Nonsense_Mutation_p.Q255*|PSD_uc009xxd.1_Nonsense_Mutation_p.Q634*	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	634	SEC7.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		AAGTATCGCTGGGAGAAGTGG	0.592													6	55	---	---	---	---	PASS	A	104171506	A	A	104171506	4	1	157	1	0	0	0	0	0	1	0	0	12646	1357	47	3	1214	3	PSD	10	104171506	Nonsense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	32493455	104171506	31363241	115	56061										
FAM160B1	57700	broad.mit.edu	37	chr10	116596002	116596002	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tacctggttaactttttcctAgaggtatgatacacttttta	6	7	0	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr10:116596002A>G	uc001lcb.2	+	5	854	c.519A>G	c.(517-519)CTA>CTG	p.L173L	FAM160B1_uc001lcc.2_Silent_p.L173L	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	173										lung(1)	1						ACTTTTTCCTAGAGGTATGAT	0.343													91	250	---	---	---	---	PASS	G	116596002	G	G	116596002	2	3	157	1	0	0	0	0	0	0	0	1	5470	407	15	5		5	FAM160B1	10	116596002	Silent	SNP	A	TCGA-66-2777-01A-01D-1267-08	12424496	116596002	18938745	116	56062										
TCERG1L	256536	broad.mit.edu	37	chr10	133106502	133106502	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ggctgaggtgctaacaccacCgtggggagcggcctggaggc	18	11	0	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr10:133106502C>T	uc001lkp.2	-	3	728	c.642G>A	c.(640-642)ACG>ACA	p.T214T		NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	214										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		CTAACACCACCGTGGGGAGCG	0.478													11	33	---	---	---	---	PASS	T	133106502	T	T	133106502	2	4	157	1	0	0	0	0	0	0	0	1	15683	639	23	1		1	TCERG1L	10	133106502	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	16510500	133106502	2428245	117	56063										
JAKMIP3	282973	broad.mit.edu	37	chr10	133930716	133930716	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgaaggagctacaggctgtgCgtgagacgctgctgcggcag	17	9	0	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr10:133930716C>T	uc001lkx.3	+	2	271	c.271C>T	c.(271-273)CGT>TGT	p.R91C		NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		ACAGGCTGTGCGTGAGACGCT	0.607													8	57	---	---	---	---	PASS	T	133930716	T	T	133930716	3	4	157	1	0	0	0	0	1	0	0	0	7942	768	27	1	277	1	JAKMIP3	10	133930716	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	824214	133930716	1604031	118	56064										
DPYSL4	10570	broad.mit.edu	37	chr10	134013907	134013907	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ccgccagcctgggcaccgacGgttcacactactggagcaag	12	15	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr10:134013907G>A	uc009ybb.2	+	9	1013	c.859G>A	c.(859-861)GGT>AGT	p.G287S		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	287					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-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;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		GGGCACCGACGGTTCACACTA	0.667													4	135	---	---	---	---	PASS	A	134013907	A	A	134013907	3	1	157	1	0	0	0	0	1	0	0	0	4749	1116	39	1	893	1	DPYSL4	10	134013907	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	83191	134013907	1520840	119	56065										
NLRP6	171389	broad.mit.edu	37	chr11	281697	281697	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gagtgcgcttctgccgcatgGacgtggctgttctgagctac	14	11	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:281697G>A	uc010qvs.1	+	4	1963	c.1963G>A	c.(1963-1965)GAC>AAC	p.D655N	NLRP6_uc010qvt.1_Missense_Mutation_p.D655N	NM_138329	NP_612202	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	655						cytoplasm	ATP binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.28e-28)|Epithelial(43;2.47e-27)|OV - Ovarian serous cystadenocarcinoma(40;4.66e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.0485)|LUSC - Lung squamous cell carcinoma(625;0.122)		CTGCCGCATGGACGTGGCTGT	0.627													64	211	---	---	---	---	PASS	A	281697	A	A	281697	3	1	157	1	0	0	0	0	1	0	0	0	10481	1174	41	2	1977	2	NLRP6	11	281697	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08		281697	134724819	120	56066										
OR2AG1	144125	broad.mit.edu	37	chr11	6806907	6806907	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctgattccctctcttgctgcTatactggcctcctatacaca	5	15	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:6806907T>A	uc001mer.1	+	1	639	c.639T>A	c.(637-639)GCT>GCA	p.A213A		NM_001004489	NP_001004489	Q9H205	O2AG1_HUMAN	olfactory receptor, family 2, subfamily AG,	213	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.19e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CTCTTGCTGCTATACTGGCCT	0.498													67	215	---	---	---	---	PASS	A	6806907	A	A	6806907	2	1	157	1	0	0	0	0	0	0	0	1	10984	1509	53	5		5	OR2AG1	11	6806907	Silent	SNP	T	TCGA-66-2777-01A-01D-1267-08	6525210	6806907	128199609	121	56067										
ST5	6764	broad.mit.edu	37	chr11	8732709	8732709	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aagccagtccttggcatcagGgaagcaaaactggggaatgg	14	8	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:8732709G>A	uc001mgt.2	-	10	2428	c.2242C>T	c.(2242-2244)CCT>TCT	p.P748S	ST5_uc009yfr.2_Missense_Mutation_p.P328S|ST5_uc001mgu.2_Missense_Mutation_p.P328S|ST5_uc001mgv.2_Missense_Mutation_p.P748S|ST5_uc010rbq.1_RNA|ST5_uc010rbp.1_Missense_Mutation_p.P261S|ST5_uc009yfs.2_RNA	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	748	UDENN.				positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		TTGGCATCAGGGAAGCAAAAC	0.567													51	204	---	---	---	---	PASS	A	8732709	A	A	8732709	3	1	157	1	0	0	0	0	1	0	0	0	15219	1232	43	3	1215	3	ST5	11	8732709	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	1925802	8732709	126273807	122	56068										
TEAD1	7003	broad.mit.edu	37	chr11	12904622	12904622	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ccattggcacaaccaagcttCgcctggtggaattttcagct	9	12	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:12904622C>T	uc001mkj.3	+	9	1269	c.604C>T	c.(604-606)CGC>TGC	p.R202C	TEAD1_uc001mkk.3_Missense_Mutation_p.R121C|TEAD1_uc009ygl.2_Missense_Mutation_p.R96C	NM_021961	NP_068780	P28347	TEAD1_HUMAN	TEA domain family member 1	217	Transcriptional activation (Potential).				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0				Epithelial(150;0.00223)|BRCA - Breast invasive adenocarcinoma(625;0.236)		AACCAAGCTTCGCCTGGTGGA	0.547													8	341	---	---	---	---	PASS	T	12904622	T	T	12904622	3	4	157	1	0	0	0	0	1	0	0	0	15735	884	31	2	675	2	TEAD1	11	12904622	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	4171913	12904622	122101894	123	56069										
ANO5	203859	broad.mit.edu	37	chr11	22249017	22249017	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	acctgtaagactcccactgaGtgtgaagtatccccatcctg	8	13	0	3	rs146725859		TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:22249017G>T	uc001mqi.2	+	7	850	c.533G>T	c.(532-534)AGT>ATT	p.S178I	ANO5_uc001mqj.2_Missense_Mutation_p.S177I	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	178	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						CTCCCACTGAGTGTGAAGTAT	0.463													44	187	---	---	---	---	PASS	T	22249017	T	T	22249017	3	4	157	1	0	0	0	0	1	0	0	0	700	1029	36	3	559	3	ANO5	11	22249017	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	9344395	22249017	112757499	124	56070										
OR4C11	219429	broad.mit.edu	37	chr11	55371597	55371597	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ggttataattttcttttcagAgagagcatccacaattaatc	6	7	2	2	rs143807541	byFrequency	TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:55371597A>T	uc010rii.1	-	1	253	c.253T>A	c.(253-255)TCT>ACT	p.S85T		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTCTTTTCAGAGAGAGCATCC	0.393													28	113	---	---	---	---	PASS	T	55371597	T	T	55371597	3	4	157	1	0	0	0	0	1	0	0	0	11045	304	11	5	681	5	OR4C11	11	55371597	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	33122580	55371597	79634919	125	56071										
OR4C6	219432	broad.mit.edu	37	chr11	55432849	55432849	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttcttgtcccttttggatgtCatgttctcatctgtcgttgc	8	10	4	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:55432849C>A	uc001nht.3	+	3	472	c.207C>A	c.(205-207)GTC>GTA	p.V69V	OR4C6_uc010rik.1_Silent_p.V69V	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TTTTGGATGTCATGTTCTCAT	0.453													87	284	---	---	---	---	PASS	A	55432849	A	A	55432849	2	1	157	1	0	0	0	0	0	0	0	1	11052	813	29	2		2	OR4C6	11	55432849	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	61252	55432849	79573667	126	56072										
OR5T3	390154	broad.mit.edu	37	chr11	56020624	56020624	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttgtgattcccaagttgaatCccatcatctatagtttgagg	8	8	2	3	rs147827901		TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:56020624C>A	uc010rjd.1	+	1	949	c.949C>A	c.(949-951)CCC>ACC	p.P317T		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	317	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					CAAGTTGAATCCCATCATCTA	0.323													9	49	---	---	---	---	PASS	A	56020624	A	A	56020624	3	1	157	1	0	0	0	0	1	0	0	0	11183	855	30	2	951	2	OR5T3	11	56020624	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	587775	56020624	78985892	127	56073										
OR5A1	219982	broad.mit.edu	37	chr11	59211379	59211379	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gcctgcaacacgtgtgcctcGcatctgatggtggtgactct	12	12	2	2	rs147466806		TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:59211379G>A	uc001nnx.1	+	1	738	c.738G>A	c.(736-738)TCG>TCA	p.S246S		NM_001004728	NP_001004728	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2						CGTGTGCCTCGCATCTGATGG	0.542													133	431	---	---	---	---	PASS	A	59211379	A	A	59211379	2	1	157	1	0	0	0	0	0	0	0	1	11139	1074	38	1		1	OR5A1	11	59211379	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	3190755	59211379	75795137	128	56074										
PCNXL3	399909	broad.mit.edu	37	chr11	65389837	65389837	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cctgctggctctgctggaccGgtgagtgtcccgcagccttg	14	14	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:65389837G>T	uc001oey.2	+	11	2357	c.2357G>T	c.(2356-2358)CGG>CTG	p.R786L	PCNXL3_uc009yqn.2_5'Flank	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	786						integral to membrane					0						CTGCTGGACCGGTGAGTGTCC	0.642													3	10	---	---	---	---	PASS	T	65389837	T	T	65389837	3	4	157	1	0	0	0	0	1	0	0	0	11593	1130	39	1	2399	1	PCNXL3	11	65389837	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	6178458	65389837	69616679	129	56075										
PCNXL3	399909	broad.mit.edu	37	chr11	65396071	65396071	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgttggccctgccagctgtgGgacttgctgtacaagctgcg	14	11	0	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:65396071G>A	uc001oey.2	+	23	3708	c.3708G>A	c.(3706-3708)TGG>TGA	p.W1236*	PCNXL3_uc001oez.2_Nonsense_Mutation_p.W123*	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1236						integral to membrane					0						GCCAGCTGTGGGACTTGCTGT	0.602													19	69	---	---	---	---	PASS	A	65396071	A	A	65396071	4	1	157	1	0	0	0	0	0	1	0	0	11593	1241	43	3	3798	3	PCNXL3	11	65396071	Nonsense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	6234	65396071	69610445	130	56076										
GDPD5	81544	broad.mit.edu	37	chr11	75160035	75160035	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cactcaccatgggggccccgCggtggccaatgagagcaggc	15	14	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:75160035C>T	uc001owo.3	-	10	1238	c.701G>A	c.(700-702)CGC>CAC	p.R234H	GDPD5_uc001owp.3_Missense_Mutation_p.R234H|GDPD5_uc001own.3_5'UTR|GDPD5_uc009yuc.2_Missense_Mutation_p.R96H|GDPD5_uc009yud.2_Missense_Mutation_p.R115H|GDPD5_uc009yue.1_Missense_Mutation_p.R122H	NM_030792	NP_110419	Q8WTR4	GDPD5_HUMAN	glycerophosphodiester phosphodiesterase domain	234	Extracellular (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process|nervous system development	endomembrane system|growth cone|integral to membrane|perinuclear region of cytoplasm	glycerophosphodiester phosphodiesterase activity			ovary(1)	1						GGGGGCCCCGCGGTGGCCAAT	0.607													22	58	---	---	---	---	PASS	T	75160035	T	T	75160035	3	4	157	1	0	0	0	0	1	0	0	0	6327	768	27	1	1152	1	GDPD5	11	75160035	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	9763964	75160035	59846481	131	56077										
MAML2	84441	broad.mit.edu	37	chr11	95825560	95825560	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cggggctccatggctgggtgCgggttgttaataaaacttcg	15	8	0	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:95825560C>A	uc001pfw.1	-	2	2920	c.1635G>T	c.(1633-1635)CCG>CCT	p.P545P		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	545					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				TGGCTGGGTGCGGGTTGTTAA	0.527			T	MECT1|CRTC3	salivary gland mucoepidermoid								11	41	---	---	---	---	PASS	A	95825560	A	A	95825560	2	1	157	1	0	0	0	0	0	0	0	1	9206	755	27	1		1	MAML2	11	95825560	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	20665525	95825560	39180956	132	56078										
MMP1	4312	broad.mit.edu	37	chr11	102667842	102667842	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cagagttggaaggctttctcAatggcatggtccacatctgc	11	10	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:102667842A>T	uc001phi.2	-	3	545	c.402T>A	c.(400-402)ATT>ATA	p.I134I	uc001phh.1_Intron|MMP1_uc010ruv.1_Silent_p.I68I	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	134	Metalloprotease.				blood coagulation|collagen catabolic process|interspecies interaction between organisms|leukocyte migration|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)|lung(1)	4	all_epithelial(12;0.0127)	all_neural(303;0.000318)|all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.072)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.233)	OV - Ovarian serous cystadenocarcinoma(223;1.82e-07)|Epithelial(105;1.51e-06)|BRCA - Breast invasive adenocarcinoma(274;0.014)		AGGCTTTCTCAATGGCATGGT	0.433													100	351	---	---	---	---	PASS	T	102667842	T	T	102667842	2	4	157	1	0	0	0	0	0	0	0	1	9648	126	5	5		5	MMP1	11	102667842	Silent	SNP	A	TCGA-66-2777-01A-01D-1267-08	6842282	102667842	32338674	133	56079										
USP28	57646	broad.mit.edu	37	chr11	113688476	113688476	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gtggacagctttctgaggcaGgttttgtactagcaaattca	11	7	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:113688476G>A	uc001poh.2	-	13	1400	c.1367C>T	c.(1366-1368)CCT>CTT	p.P456L	USP28_uc001pog.2_Missense_Mutation_p.P164L|USP28_uc010rwy.1_Missense_Mutation_p.P331L|USP28_uc001poi.2_Intron|USP28_uc001poj.3_Missense_Mutation_p.P456L	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	456					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)		TTCTGAGGCAGGTTTTGTACT	0.463													4	348	---	---	---	---	PASS	A	113688476	A	A	113688476	3	1	157	1	0	0	0	0	1	0	0	0	17055	1000	35	3	1918	3	USP28	11	113688476	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	11020634	113688476	21318040	134	56080										
OR8D4	338662	broad.mit.edu	37	chr11	123777604	123777604	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tctcagtaggtttcactgatGctgtgatccatggaggttgt	12	7	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:123777604G>A	uc010saa.1	+	1	466	c.466G>A	c.(466-468)GCT>ACT	p.A156T		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		TTTCACTGATGCTGTGATCCA	0.468													104	383	---	---	---	---	PASS	A	123777604	A	A	123777604	3	1	157	1	0	0	0	0	1	0	0	0	11233	1319	46	3	468	3	OR8D4	11	123777604	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	10089128	123777604	11228912	135	56081										
ROBO4	54538	broad.mit.edu	37	chr11	124766107	124766107	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cccttaccctggatggaaacCcgggctgcgcggctctccct	11	17	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr11:124766107C>T	uc001qbg.2	-	4	806	c.666G>A	c.(664-666)CGG>CGA	p.R222R	ROBO4_uc010sas.1_Silent_p.R77R|ROBO4_uc001qbh.2_Silent_p.R112R|ROBO4_uc001qbi.2_5'Flank|ROBO4_uc010sat.1_5'Flank	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	222	Ig-like C2-type 2.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		GGATGGAAACCCGGGCTGCGC	0.602													61	179	---	---	---	---	PASS	T	124766107	T	T	124766107	2	4	157	1	0	0	0	0	0	0	0	1	13516	610	22	3		3	ROBO4	11	124766107	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	988503	124766107	10240409	136	56082										
VWF	7450	broad.mit.edu	37	chr12	6058318	6058318	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	agagcagcaggagcactggtCctgcacatcgttgatgtcaa	12	10	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:6058318C>T	uc001qnn.1	-	52	8555	c.8305G>A	c.(8305-8307)GAC>AAC	p.D2769N	ANO2_uc001qnm.2_5'Flank|VWF_uc010set.1_3'UTR	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2769	CTCK.				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)	GAGCACTGGTCCTGCACATCG	0.547													33	91	---	---	---	---	PASS	T	6058318	T	T	6058318	3	4	157	1	0	0	0	0	1	0	0	0	17243	855	30	2	140	2	VWF	12	6058318	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08		6058318	127793577	137	56083										
CHD4	1108	broad.mit.edu	37	chr12	6690881	6690881	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	agtggagggtgtaggagtttTtggggagggtgaccctggct	20	4	0	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:6690881T>C	uc001qpo.2	-	31	4779	c.4615A>G	c.(4615-4617)AAA>GAA	p.K1539E	CHD4_uc001qpn.2_Missense_Mutation_p.K1532E|CHD4_uc001qpp.2_Missense_Mutation_p.K1564E|uc001qpq.1_Intron|SCARNA11_uc001qpr.1_5'Flank	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1539					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						GTAGGAGTTTTTGGGGAGGGT	0.557													70	202	---	---	---	---	PASS	C	6690881	C	C	6690881	3	2	157	1	0	0	0	0	1	0	0	0	3327	1850	64	5	1163	5	CHD4	12	6690881	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	632563	6690881	127161014	138	56084										
C12orf59	120939	broad.mit.edu	37	chr12	10342551	10342551	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tcctggctgtggctcactccCacagctccctgggccagctg	11	17	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:10342551C>A	uc001qxr.2	+	5	981	c.364C>A	c.(364-366)CAC>AAC	p.H122N	C12orf59_uc001qxq.2_Missense_Mutation_p.H102N			Q4KMG9	CL059_HUMAN	RecName: Full=Uncharacterized protein C12orf59; Flags: Precursor;	122						integral to membrane				ovary(1)	1						GGCTCACTCCCACAGCTCCCT	0.562													16	144	---	---	---	---	PASS	A	10342551	A	A	10342551	3	1	157	1	0	0	0	0	1	0	0	0	1702	594	21	3	318	3	C12orf59	12	10342551	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	3651670	10342551	123509344	139	56085										
LRP6	4040	broad.mit.edu	37	chr12	12317355	12317355	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tatctgctctccgtgaaaacAaaaggaaagcctctgggaca	9	10	3	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:12317355A>C	uc001rah.3	-	9	2046	c.1904T>G	c.(1903-1905)TTG>TGG	p.L635W	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.L635W	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	635	Extracellular (Potential).|Beta-propeller 3.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				CCGTGAAAACAAAAGGAAAGC	0.453													18	277	---	---	---	---	PASS	C	12317355	C	C	12317355	3	2	157	1	0	0	0	0	1	0	0	0	8962	131	5	5	2997	5	LRP6	12	12317355	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	1974804	12317355	121534540	140	56086										
GUCY2C	2984	broad.mit.edu	37	chr12	14792812	14792812	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tcacttctagctctttttccTctgctgtttccaagaataaa	4	11	4	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:14792812T>C	uc001rcd.2	-	19	2278	c.2141A>G	c.(2140-2142)GAG>GGG	p.E714G		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	714	Cytoplasmic (Potential).|Protein kinase.				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						CTCTTTTTCCTCTGCTGTTTC	0.254													68	221	---	---	---	---	PASS	C	14792812	C	C	14792812	3	2	157	1	0	0	0	0	1	0	0	0	6896	1551	54	5	1116	5	GUCY2C	12	14792812	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	2475457	14792812	119059083	141	56087										
NCKAP5L	57701	broad.mit.edu	37	chr12	50189134	50189134	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gtcaggcttgggggactcctTggtgactagcggagccccag	16	11	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:50189134T>C	uc009zlk.2	-	8	2711	c.2509A>G	c.(2509-2511)AAG>GAG	p.K837E	NCKAP5L_uc001rvc.3_Missense_Mutation_p.K41E|NCKAP5L_uc001rvb.2_Missense_Mutation_p.K430E	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	833	Pro-rich.									central_nervous_system(1)	1						GGGGACTCCTTGGTGACTAGC	0.637													23	165	---	---	---	---	PASS	C	50189134	C	C	50189134	3	2	157	1	0	0	0	0	1	0	0	0	10224	1821	63	5	1519	5	NCKAP5L	12	50189134	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	35396322	50189134	83662761	142	56088										
NCKAP5L	57701	broad.mit.edu	37	chr12	50196740	50196740	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cagggtgtctgggttactcaCcttctggttcagcaacgcct	11	12	4	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:50196740C>A	uc009zlk.2	-	5	433	c.231_splice	c.e5+1	p.K77_splice		NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like											central_nervous_system(1)	1						GGGTTACTCACCTTCTGGTTC	0.602													15	47	---	---	---	---	PASS	A	50196740	A	A	50196740	5	1	157	1	0	0	0	0	0	0	1	0	10224	521	18	3	3808	3	NCKAP5L	12	50196740	Splice_Site	SNP	C	TCGA-66-2777-01A-01D-1267-08	7606	50196740	83655155	143	56089										
ATP5G2	517	broad.mit.edu	37	chr12	54059103	54059103	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gtggagacggctccttcacaTggcaaagaggatgagaaagg	15	7	1	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:54059103T>C	uc009znc.2	-	6	1122	c.421A>G	c.(421-423)ATG>GTG	p.M141V	ATP5G2_uc001sec.2_Missense_Mutation_p.M198V|ATP5G2_uc001sed.2_Missense_Mutation_p.M157V	NM_001002031	NP_001002031	Q06055	AT5G2_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	141					ATP hydrolysis coupled proton transport|ATP synthesis coupled proton transport	integral to membrane|mitochondrial proton-transporting ATP synthase complex|proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity|lipid binding			ovary(1)	1						CTCCTTCACATGGCAAAGAGG	0.567													19	53	---	---	---	---	PASS	C	54059103	C	C	54059103	3	2	157	1	0	0	0	0	1	0	0	0	1154	1464	51	5	8	5	ATP5G2	12	54059103	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	3862363	54059103	79792792	144	56090										
OR6C65	403282	broad.mit.edu	37	chr12	55794749	55794749	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	taattggcttgtaatcagctCctggctggctggttttctca	10	9	2	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:55794749C>A	uc010spl.1	+	1	437	c.437C>A	c.(436-438)TCC>TAC	p.S146Y		NM_001005518	NP_001005518	A6NJZ3	O6C65_HUMAN	olfactory receptor, family 6, subfamily C,	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTAATCAGCTCCTGGCTGGCT	0.428													47	204	---	---	---	---	PASS	A	55794749	A	A	55794749	3	1	157	1	0	0	0	0	1	0	0	0	11195	855	30	2	439	2	OR6C65	12	55794749	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	1735646	55794749	78057146	145	56091										
ERBB3	2065	broad.mit.edu	37	chr12	56477570	56477570	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgaatggcctgagtgtgaccGgcgatgctgagaaccaatac	13	9	0	4			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:56477570G>A	uc001sjh.2	+	2	311	c.118G>A	c.(118-120)GGC>AGC	p.G40S	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_5'UTR|ERBB3_uc001sjg.2_Missense_Mutation_p.G40S	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	40	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			GAGTGTGACCGGCGATGCTGA	0.547													9	445	---	---	---	---	PASS	A	56477570	A	A	56477570	3	1	157	1	0	0	0	0	1	0	0	0	5208	1116	39	1	124	1	ERBB3	12	56477570	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	682821	56477570	77374325	146	56092										
ZBTB39	9880	broad.mit.edu	37	chr12	57398015	57398015	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cccgtgctgacagtgcctagGagtggctgggtcatcatgct	14	11	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:57398015G>A	uc001sml.1	-	2	773	c.687C>T	c.(685-687)CTC>CTT	p.L229L	RDH16_uc010sqx.1_5'Flank	NM_014830	NP_055645	O15060	ZBT39_HUMAN	zinc finger and BTB domain containing 39	229					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						CAGTGCCTAGGAGTGGCTGGG	0.572													8	76	---	---	---	---	PASS	A	57398015	A	A	57398015	2	1	157	1	0	0	0	0	0	0	0	1	17537	1161	41	2		2	ZBTB39	12	57398015	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	920445	57398015	76453880	147	56093										
SRGAP1	57522	broad.mit.edu	37	chr12	64238638	64238638	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aagaaggacaaagagatcatAgccgagtatgaaagtcaagt	11	5	2	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:64238638A>G	uc010ssp.1	+	1	98	c.42A>G	c.(40-42)ATA>ATG	p.I14M	SRGAP1_uc001srt.2_Missense_Mutation_p.I14M	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	14					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		AAGAGATCATAGCCGAGTATG	0.493													21	195	---	---	---	---	PASS	G	64238638	G	G	64238638	3	3	157	1	0	0	0	0	1	0	0	0	15144	410	15	5	44	5	SRGAP1	12	64238638	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	6840623	64238638	69613257	148	56094										
ZFC3H1	196441	broad.mit.edu	37	chr12	72050788	72050788	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gagtggttttaattcaaatgCctgaaaagttttgacttgtg	10	4	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:72050788C>G	uc001swo.2	-	2	1251	c.892G>C	c.(892-894)GCA>CCA	p.A298P	ZFC3H1_uc010sts.1_Missense_Mutation_p.A298P|ZFC3H1_uc001swp.2_Missense_Mutation_p.A298P	NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	298					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						AATTCAAATGCCTGAAAAGTT	0.368													52	180	---	---	---	---	PASS	G	72050788	G	G	72050788	3	3	157	1	0	0	0	0	1	0	0	0	17630	739	26	4	5213	4	ZFC3H1	12	72050788	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	7812150	72050788	61801107	149	56095										
NAV3	89795	broad.mit.edu	37	chr12	78452816	78452816	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttaacctatatactagaagtCtgaaccgaataccagacaca	5	10	1	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:78452816C>A	uc001syp.2	+	12	2730	c.2557C>A	c.(2557-2559)CTG>ATG	p.L853M	NAV3_uc001syo.2_Missense_Mutation_p.L853M|NAV3_uc010sub.1_Missense_Mutation_p.L353M	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	853						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TACTAGAAGTCTGAACCGAAT	0.398										HNSCC(70;0.22)			18	119	---	---	---	---	PASS	A	78452816	A	A	78452816	3	1	157	1	0	0	0	0	1	0	0	0	10185	912	32	2	2603	2	NAV3	12	78452816	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	6402028	78452816	55399079	150	56096										
SDS	10993	broad.mit.edu	37	chr12	113835191	113835191	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tctttcacgatggaagcgtgGccttccctggagggtgggga	16	9	2	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:113835191G>A	uc001tvg.2	-	6	554	c.432C>T	c.(430-432)GGC>GGT	p.G144G	SDS_uc001tvh.1_Silent_p.G144G	NM_006843	NP_006834	P20132	SDHL_HUMAN	serine dehydratase	144					gluconeogenesis|L-serine catabolic process|pyruvate biosynthetic process	cytoplasm	L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|protein homodimerization activity|pyridoxal phosphate binding			pancreas(1)	1					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	TGGAAGCGTGGCCTTCCCTGG	0.657													20	80	---	---	---	---	PASS	A	113835191	A	A	113835191	2	1	157	1	0	0	0	0	0	0	0	1	13975	1190	42	3		3	SDS	12	113835191	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	35382375	113835191	20016704	151	56097										
FBXO21	23014	broad.mit.edu	37	chr12	117610395	117610395	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gacatgctgattgggattccTgttctgcgaatcaaaaccta	9	9	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:117610395T>A	uc001twk.2	-	7	933	c.894A>T	c.(892-894)ACA>ACT	p.T298T	FBXO21_uc001twj.2_Silent_p.T298T|FBXO21_uc009zwq.2_Silent_p.T298T	NM_033624	NP_296373	O94952	FBX21_HUMAN	F-box only protein 21 isoform 1	298					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			kidney(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		TTGGGATTCCTGTTCTGCGAA	0.353													38	101	---	---	---	---	PASS	A	117610395	A	A	117610395	2	1	157	1	0	0	0	0	0	0	0	1	5733	1567	55	5		5	FBXO21	12	117610395	Silent	SNP	T	TCGA-66-2777-01A-01D-1267-08	3775204	117610395	16241500	152	56098										
PIWIL1	9271	broad.mit.edu	37	chr12	130847603	130847603	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	atcatcgtgtaccgcgatggCgtaggagacggccagctgaa	14	10	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr12:130847603C>T	uc001uik.2	+	18	2199	c.2109C>T	c.(2107-2109)GGC>GGT	p.G703G	PIWIL1_uc001uij.1_Silent_p.G703G	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	703	Piwi.				gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		ACCGCGATGGCGTAGGAGACG	0.478													48	150	---	---	---	---	PASS	T	130847603	T	T	130847603	2	4	157	1	0	0	0	0	0	0	0	1	11957	755	27	1		1	PIWIL1	12	130847603	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	13237208	130847603	3004292	153	56099										
ATP8A2	51761	broad.mit.edu	37	chr13	26127982	26127982	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	actgacgttcatcatcttatAcaacaatcttattcccatca	2	12	5	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr13:26127982A>T	uc001uqk.2	+	12	1251	c.1109A>T	c.(1108-1110)TAC>TTC	p.Y370F	ATP8A2_uc010tdi.1_Missense_Mutation_p.Y330F|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc001uql.1_Missense_Mutation_p.Y330F	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	330	Helical; (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		ATCATCTTATACAACAATCTT	0.393													85	244	---	---	---	---	PASS	T	26127982	T	T	26127982	3	4	157	1	0	0	0	0	1	0	0	0	1193	391	14	5	1155	5	ATP8A2	13	26127982	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08		26127982	89041896	154	56100										
LMO7	4008	broad.mit.edu	37	chr13	76432057	76432057	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttttctccttgcccgatcagCtggacggccaaccgccatgt	9	15	2	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr13:76432057C>G	uc001vjv.2	+	27	4826	c.4066C>G	c.(4066-4068)CTG>GTG	p.L1356V	LMO7_uc010thv.1_Missense_Mutation_p.S1343C|LMO7_uc010thw.1_Missense_Mutation_p.S1269C|LMO7_uc001vjx.1_RNA	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	Error:Variant_position_missing_in_Q8WWI1_after_alignment						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		GCCCGATCAGCTGGACGGCCA	0.448													4	109	---	---	---	---	PASS	G	76432057	G	G	76432057	3	3	157	1	0	0	0	0	1	0	0	0	8855	811	28	4	5156	4	LMO7	13	76432057	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	50304075	76432057	38737821	155	56101										
OR4L1	122742	broad.mit.edu	37	chr14	20528999	20528999	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tttggccattcagtagtttgGcaagcaataaaactcttgcc	8	9	2	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr14:20528999G>C	uc001vwn.1	+	1	796	c.796G>C	c.(796-798)GCA>CCA	p.A266P		NM_001004717	NP_001004717	Q8NH43	OR4L1_HUMAN	olfactory receptor, family 4, subfamily L,	266	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		CAGTAGTTTGGCAAGCAATAA	0.408													37	80	---	---	---	---	PASS	C	20528999	C	C	20528999	3	2	157	1	0	0	0	0	1	0	0	0	11074	1203	42	4	798	4	OR4L1	14	20528999	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08		20528999	86820541	156	56102										
RNASE13	440163	broad.mit.edu	37	chr14	21502245	21502245	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tcacataatggatctttgggCaatctgaattttgcatcttg	8	7	4	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr14:21502245C>A	uc001vzj.2	-	2	341	c.203G>T	c.(202-204)TGC>TTC	p.C68F	NDRG2_uc010tll.1_Intron	NM_001012264	NP_001012264	Q5GAN3	RNS13_HUMAN	ribonuclease, RNase A family, 13 precursor	68						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			upper_aerodigestive_tract(1)	1	all_cancers(95;0.000759)		OV - Ovarian serous cystadenocarcinoma(11;6.85e-11)|Epithelial(56;9.49e-09)|all cancers(55;3.84e-08)	GBM - Glioblastoma multiforme(265;0.019)		GATCTTTGGGCAATCTGAATT	0.433													61	133	---	---	---	---	PASS	A	21502245	A	A	21502245	3	1	157	1	0	0	0	0	1	0	0	0	13403	710	25	3	271	3	RNASE13	14	21502245	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	973246	21502245	85847295	157	56103										
NID2	22795	broad.mit.edu	37	chr14	52507411	52507411	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctccttgtagggagagatgtGggctgtgaaatttgctgaga	15	5	0	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr14:52507411G>A	uc001wzo.2	-	8	2218	c.1984C>T	c.(1984-1986)CAC>TAC	p.H662Y	NID2_uc010tqs.1_Missense_Mutation_p.H662Y|NID2_uc010tqt.1_Missense_Mutation_p.H662Y|NID2_uc001wzp.2_Missense_Mutation_p.H662Y	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	662	Nidogen G2 beta-barrel.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					GGAGAGATGTGGGCTGTGAAA	0.368													5	377	---	---	---	---	PASS	A	52507411	A	A	52507411	3	1	157	1	0	0	0	0	1	0	0	0	10415	1348	47	3	2203	3	NID2	14	52507411	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	31005166	52507411	54842129	158	56104										
PTGDR	5729	broad.mit.edu	37	chr14	52734677	52734677	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cgcgctcggggctggggtggTgctcgcggcgtccactgcgc	19	14	0	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr14:52734677T>G	uc001wzq.2	+	1	247	c.145T>G	c.(145-147)TGC>GGC	p.C49G		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	49	Cytoplasmic (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	GCTGGGGTGGTGCTCGCGGCG	0.692													4	22	---	---	---	---	PASS	G	52734677	G	G	52734677	3	3	157	1	0	0	0	0	1	0	0	0	12741	1696	59	5	147	5	PTGDR	14	52734677	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	227266	52734677	54614863	159	56105										
PPP2R5E	5529	broad.mit.edu	37	chr14	63851287	63851287	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	taatagagtgctctttctgcCacctttgggaaaagaaaaat	8	7	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr14:63851287C>A	uc001xgd.1	-	12	1667	c.1077G>T	c.(1075-1077)GTG>GTT	p.V359V	PPP2R5E_uc010tsf.1_Silent_p.V283V|PPP2R5E_uc010tsg.1_Silent_p.V283V|PPP2R5E_uc001xge.2_Silent_p.V359V|PPP2R5E_uc010tsh.1_Silent_p.V359V|PPP2R5E_uc001xgf.1_RNA	NM_006246	NP_006237	Q16537	2A5E_HUMAN	epsilon isoform of regulatory subunit B56,	359					signal transduction	cytoplasm|intracellular membrane-bounded organelle|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00197)|all cancers(60;0.0153)|BRCA - Breast invasive adenocarcinoma(234;0.128)		CTCTTTCTGCCACCTTTGGGA	0.299													57	104	---	---	---	---	PASS	A	63851287	A	A	63851287	2	1	157	1	0	0	0	0	0	0	0	1	12396	581	21	3		3	PPP2R5E	14	63851287	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	11116610	63851287	43498253	160	56106										
LTBP2	4053	broad.mit.edu	37	chr14	74975375	74975375	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gacagaagaaagacccgtggCtgttgaggcactcgccgtgg	15	10	0	4			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr14:74975375C>T	uc001xqa.2	-	24	3971	c.3584G>A	c.(3583-3585)AGC>AAC	p.S1195N		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1195	Cys-rich.|EGF-like 12; calcium-binding (Potential).				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		AGACCCGTGGCTGTTGAGGCA	0.632													31	60	---	---	---	---	PASS	T	74975375	T	T	74975375	3	4	157	1	0	0	0	0	1	0	0	0	9074	797	28	3	1933	3	LTBP2	14	74975375	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	11124088	74975375	32374165	161	56107										
AMN	81693	broad.mit.edu	37	chr14	103390101	103390101	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ccaacacggacttcgacgtcGcagccaactggagccagaac	10	15	0	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr14:103390101G>A	uc001ymg.3	+	2	130	c.97G>A	c.(97-99)GCA>ACA	p.A33T	AMN_uc001ymh.3_5'UTR	NM_030943	NP_112205	Q9BXJ7	AMNLS_HUMAN	amnionless protein precursor	33	Extracellular (Potential).				lipid metabolic process|lipoprotein metabolic process|multicellular organismal development	integral to membrane|plasma membrane					0				Colorectal(3;0.00739)|READ - Rectum adenocarcinoma(2;0.0336)|Epithelial(152;0.0363)|all cancers(159;0.147)	Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CTTCGACGTCGCAGCCAACTG	0.706													13	81	---	---	---	---	PASS	A	103390101	A	A	103390101	3	1	157	1	0	0	0	0	1	0	0	0	580	1087	38	1	103	1	AMN	14	103390101	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	28414726	103390101	3959439	162	56108										
PPP1R13B	23368	broad.mit.edu	37	chr14	104208451	104208451	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgtggcgggcagcagggtggGcctctgtcgacttggcaggc	19	10	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr14:104208451G>T	uc001yof.1	-	11	1781	c.1498C>A	c.(1498-1500)CCC>ACC	p.P500T	PPP1R13B_uc010awv.1_RNA|PPP1R13B_uc001yog.1_Missense_Mutation_p.P367T	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	500	Pro-rich.				apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				AGCAGGGTGGGCCTCTGTCGA	0.642													8	106	---	---	---	---	PASS	T	104208451	T	T	104208451	3	4	157	1	0	0	0	0	1	0	0	0	12357	1203	42	3	1802	3	PPP1R13B	14	104208451	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	818350	104208451	3141089	163	56109										
ATP10A	57194	broad.mit.edu	37	chr15	25936908	25936908	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ccacacccacatctgccaccTggatcatgctgacatcattg	6	16	3	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr15:25936908T>A	uc010ayu.2	-	15	3225	c.3119A>T	c.(3118-3120)CAG>CTG	p.Q1040L		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1040	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		ATCTGCCACCTGGATCATGCT	0.473													93	411	---	---	---	---	PASS	A	25936908	A	A	25936908	3	1	157	1	0	0	0	0	1	0	0	0	1116	1580	55	5	1408	5	ATP10A	15	25936908	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08		25936908	76594484	164	56110										
APBA2	321	broad.mit.edu	37	chr15	29346291	29346291	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gagtgccacaaccacagcccCgatggggactccagctctga	11	15	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr15:29346291C>T	uc001zck.2	+	3	411	c.204C>T	c.(202-204)CCC>CCT	p.P68P	APBA2_uc010azj.2_Silent_p.P68P|APBA2_uc010uat.1_Silent_p.P68P|APBA2_uc001zcl.2_Silent_p.P68P|APBA2_uc010uas.1_Silent_p.P68P	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	68					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)		ACCACAGCCCCGATGGGGACT	0.642													51	349	---	---	---	---	PASS	T	29346291	T	T	29346291	2	4	157	1	0	0	0	0	0	0	0	1	757	639	23	1		1	APBA2	15	29346291	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	3409383	29346291	73185101	165	56111										
SLC24A5	283652	broad.mit.edu	37	chr15	48431199	48431199	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tttcaacatgcctgaagcagActtaaaaagaattttttggg	8	6	1	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr15:48431199A>G	uc001zwe.2	+	7	978	c.905A>G	c.(904-906)GAC>GGC	p.D302G	SLC24A5_uc010bel.2_Missense_Mutation_p.D242G|uc001zwf.1_5'Flank|SLC24A5_uc001zwk.2_5'Flank	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	302	Cytoplasmic (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)		CCTGAAGCAGACTTAAAAAGA	0.313													18	59	---	---	---	---	PASS	G	48431199	G	G	48431199	3	3	157	1	0	0	0	0	1	0	0	0	14469	275	10	5	931	5	SLC24A5	15	48431199	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	19084908	48431199	54100193	166	56112										
PRTG	283659	broad.mit.edu	37	chr15	55929437	55929437	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgcatataagatagtatagcGggtcacaactgtttctgggc	11	7	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr15:55929437G>T	uc002adg.2	-	15	2602	c.2554C>A	c.(2554-2556)CGC>AGC	p.R852S		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	852	Fibronectin type-III 5.				multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		ATAGTATAGCGGGTCACAACT	0.473													6	463	---	---	---	---	PASS	T	55929437	T	T	55929437	3	4	157	1	0	0	0	0	1	0	0	0	12638	1116	39	1	922	1	PRTG	15	55929437	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	7498238	55929437	46601955	167	56113										
ACSBG1	23205	broad.mit.edu	37	chr15	78475066	78475066	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ccgtgtacacattggccatcTtgtttggaggaggttcttta	11	8	2	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr15:78475066T>A	uc002bdh.2	-	6	781	c.725A>T	c.(724-726)AAG>ATG	p.K242M	ACSBG1_uc010umw.1_Missense_Mutation_p.K238M|ACSBG1_uc010umx.1_Translation_Start_Site|ACSBG1_uc010umy.1_Missense_Mutation_p.K135M	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	242					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						ATTGGCCATCTTGTTTGGAGG	0.527													28	361	---	---	---	---	PASS	A	78475066	A	A	78475066	3	1	157	1	0	0	0	0	1	0	0	0	173	1609	56	5	1485	5	ACSBG1	15	78475066	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	22545629	78475066	24056326	168	56114										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84611716	84611716	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cacctgtcggcagctgctaaCggatggcagctttttgaatc	11	11	0	1	rs144077662		TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr15:84611716C>T	uc002bjz.3	+	19	2596	c.2372C>T	c.(2371-2373)ACG>ATG	p.T791M	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.T791M|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.T791M	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	791	TSP type-1 6.					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)			CAGCTGCTAACGGATGGCAGC	0.547													23	87	---	---	---	---	PASS	T	84611716	T	T	84611716	3	4	157	1	0	0	0	0	1	0	0	0	276	536	19	1	2442	1	ADAMTSL3	15	84611716	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	6136650	84611716	17919676	169	56115										
NTRK3	4916	broad.mit.edu	37	chr15	88726675	88726675	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cgcaaatgggggttcttggcAaaggctctgggctgaatgct	15	8	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr15:88726675A>C	uc002bme.1	-	4	531	c.369T>G	c.(367-369)TTT>TTG	p.F123L	NTRK3_uc002bmh.2_Missense_Mutation_p.F123L|NTRK3_uc002bmf.1_Missense_Mutation_p.F123L|NTRK3_uc010upl.1_Missense_Mutation_p.F25L|NTRK3_uc010bnh.1_Missense_Mutation_p.F123L|NTRK3_uc002bmg.2_Missense_Mutation_p.F123L	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	123	LRR 1.|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)			GGTTCTTGGCAAAGGCTCTGG	0.463			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			42	378	---	---	---	---	PASS	C	88726675	C	C	88726675	3	2	157	1	0	0	0	0	1	0	0	0	10708	127	5	5	2476	5	NTRK3	15	88726675	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	4114959	88726675	13804717	170	56116										
SEPT12	124404	broad.mit.edu	37	chr16	4827908	4827908	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gttcacccagccgggcccgcGgggcagcaggtggctttcat	15	14	2	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr16:4827908G>A	uc002cxq.2	-	10	1108	c.967C>T	c.(967-969)CGC>TGC	p.R323C	SEPT12_uc002cxr.2_Missense_Mutation_p.R277C|SEPT12_uc010bty.2_RNA	NM_144605	NP_653206	Q8IYM1	SEP12_HUMAN	septin 12 isoform 2	323					cell cycle|cell division	cleavage furrow|midbody|perinuclear region of cytoplasm|septin complex|spindle|stress fiber	GDP binding|GTP binding|phosphatidylinositol binding|protein homodimerization activity			skin(1)	1						CCGGGCCCGCGGGGCAGCAGG	0.627													9	18	---	---	---	---	PASS	A	4827908	A	A	4827908	3	1	157	1	0	0	0	0	1	0	0	0	14062	1116	39	1	113	1	SEPT12	16	4827908	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08		4827908	85526845	171	56117										
ERCC4	2072	broad.mit.edu	37	chr16	14029165	14029165	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	atttaggaaggaagacagttCaaagagaattaggaaatctc	10	4	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr16:14029165C>T	uc002dce.2	+	8	1385	c.1376C>T	c.(1375-1377)TCA>TTA	p.S459L	ERCC4_uc010uyz.1_Missense_Mutation_p.S9L	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	459					double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						GAAGACAGTTCAAAGAGAATT	0.413			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				28	109	---	---	---	---	PASS	T	14029165	T	T	14029165	3	4	157	1	0	0	0	0	1	0	0	0	5215	838	29	2	1406	2	ERCC4	16	14029165	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	9201257	14029165	76325588	172	56118										
UMOD	7369	broad.mit.edu	37	chr16	20359547	20359547	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cctccccactggcctcaccaGtgatgttgaagtcctgtttg	9	14	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr16:20359547G>C	uc002dgz.2	-	4	1100	c.971C>G	c.(970-972)ACT>AGT	p.T324S	UMOD_uc002dha.2_Missense_Mutation_p.T324S|UMOD_uc002dhb.2_Missense_Mutation_p.T357S	NM_003361	NP_003352	P07911	UROM_HUMAN	uromodulin precursor	324					cellular defense response|negative regulation of cell proliferation	anchored to membrane|apical plasma membrane|basolateral plasma membrane|cilium membrane|extrinsic to membrane|primary cilium|spindle pole	calcium ion binding			ovary(1)|skin(1)	2						GGCCTCACCAGTGATGTTGAA	0.557													6	261	---	---	---	---	PASS	C	20359547	C	C	20359547	3	2	157	1	0	0	0	0	1	0	0	0	16976	1029	36	4	983	4	UMOD	16	20359547	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	6330382	20359547	69995206	173	56119										
ACSM2B	348158	broad.mit.edu	37	chr16	20548681	20548681	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gggcaggttcaagacaaactCtatctgttgaaaaacaaatc	8	8	3	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr16:20548681C>A	uc002dhj.3	-	15	1843	c.1633G>T	c.(1633-1635)GAG>TAG	p.E545*	ACSM2B_uc002dhk.3_Nonsense_Mutation_p.E545*	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	545					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						AAGACAAACTCTATCTGTTGA	0.483													5	359	---	---	---	---	PASS	A	20548681	A	A	20548681	4	1	157	1	0	0	0	0	0	1	0	0	184	922	32	2	104	2	ACSM2B	16	20548681	Nonsense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	189134	20548681	69806072	174	56120										
ERI2	112479	broad.mit.edu	37	chr16	20812550	20812550	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	caagtaacaaatgcacataaTtttacttcagaagcagaagg	7	7	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr16:20812550T>A	uc010vbb.1	-	5	478	c.435A>T	c.(433-435)AAA>AAT	p.K145N	ERI2_uc002dht.3_Missense_Mutation_p.K52N|ERI2_uc002dhs.2_Missense_Mutation_p.K145N|ERI2_uc010bwh.2_Missense_Mutation_p.K52N|ERI2_uc010vbc.1_5'UTR|ERI2_uc002dhu.1_Missense_Mutation_p.K145N	NM_001142725	NP_001136197	A8K979	ERI2_HUMAN	exoribonuclease 2 isoform 1	145	Exonuclease.					intracellular	exonuclease activity|nucleic acid binding|zinc ion binding			large_intestine(1)	1						ATGCACATAATTTTACTTCAG	0.318													22	90	---	---	---	---	PASS	A	20812550	A	A	20812550	3	1	157	1	0	0	0	0	1	0	0	0	5228	1490	52	5	1927	5	ERI2	16	20812550	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	263869	20812550	69542203	175	56121										
IL27	246778	broad.mit.edu	37	chr16	28515293	28515293	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gcagctcctgcaggctcagcTggggcctccctgggggcctt	15	15	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr16:28515293T>A	uc002dqc.2	-	2	133	c.110A>T	c.(109-111)CAG>CTG	p.Q37L	uc010vct.1_Intron	NM_145659	NP_663634	Q8NEV9	IL27A_HUMAN	interleukin 27 precursor	37					inflammatory response|innate immune response|positive regulation of interferon-gamma biosynthetic process|regulation of defense response to virus|regulation of T cell proliferation|regulation of T-helper 1 cell differentiation	extracellular space	cytokine activity|interleukin-27 receptor binding				0						CAGGCTCAGCTGGGGCCTCCC	0.637													38	102	---	---	---	---	PASS	A	28515293	A	A	28515293	3	1	157	1	0	0	0	0	1	0	0	0	7680	1580	55	5	637	5	IL27	16	28515293	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	7702743	28515293	61839460	176	56122										
CDH13	1012	broad.mit.edu	37	chr16	83712002	83712002	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ccaggcaggaggacctctctGtgggcagcgtgctgctgaca	15	12	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr16:83712002G>T	uc002fgx.2	+	10	1594	c.1474G>T	c.(1474-1476)GTG>TTG	p.V492L	CDH13_uc010vns.1_Missense_Mutation_p.V539L|CDH13_uc010vnt.1_Missense_Mutation_p.V238L|CDH13_uc010vnu.1_Missense_Mutation_p.V453L	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	492	Cadherin 4.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		GGACCTCTCTGTGGGCAGCGT	0.617													37	123	---	---	---	---	PASS	T	83712002	T	T	83712002	3	4	157	1	0	0	0	0	1	0	0	0	3099	1377	48	3	1512	3	CDH13	16	83712002	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	55196709	83712002	6642751	177	56123										
FANCA	2175	broad.mit.edu	37	chr16	89858948	89858948	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tctctctgcatctgaacagcAtcagatgctgcagggggaga	12	10	4	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr16:89858948A>G	uc002fou.1	-	12	1056	c.1014T>C	c.(1012-1014)GAT>GAC	p.D338D	FANCA_uc010vpn.1_Silent_p.D338D	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	338					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		TCTGAACAGCATCAGATGCTG	0.413			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				25	117	---	---	---	---	PASS	G	89858948	G	G	89858948	2	3	157	1	0	0	0	0	0	0	0	1	5662	214	8	5		5	FANCA	16	89858948	Silent	SNP	A	TCGA-66-2777-01A-01D-1267-08	6146946	89858948	495805	178	56124										
SPIRE2	84501	broad.mit.edu	37	chr16	89936619	89936619	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cgtcctcaacactacgccacGacgcagtcgccagacccaat	7	18	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr16:89936619G>A	uc002foz.1	+	15	2136	c.2084G>A	c.(2083-2085)CGA>CAA	p.R695Q	SPIRE2_uc010ciw.1_Missense_Mutation_p.R647Q|SPIRE2_uc002fpa.1_Missense_Mutation_p.R647Q|SPIRE2_uc010cix.1_Missense_Mutation_p.R562Q	NM_032451	NP_115827	Q8WWL2	SPIR2_HUMAN	spire homolog 2	695					transport	cytoplasm|cytoskeleton	actin binding			central_nervous_system(1)	1		Lung NSC(15;5.15e-06)|all_lung(18;8.38e-06)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0286)		ACTACGCCACGACGCAGTCGC	0.607													4	17	---	---	---	---	PASS	A	89936619	A	A	89936619	3	1	157	1	0	0	0	0	1	0	0	0	15071	1058	37	2	2142	2	SPIRE2	16	89936619	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	77671	89936619	418134	179	56125										
DVL2	1856	broad.mit.edu	37	chr17	7133693	7133693	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gctggaggcgccagttctgcCcgaggctcatggactggagg	17	11	2	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr17:7133693C>G	uc002gez.1	-	3	603	c.321G>C	c.(319-321)CGG>CGC	p.R107R	DVL2_uc010vtr.1_Silent_p.R107R|DVL2_uc010vts.1_Silent_p.R9R|DVL2_uc010clz.1_Silent_p.R107R	NM_004422	NP_004413	O14641	DVL2_HUMAN	dishevelled 2	107					canonical Wnt receptor signaling pathway involved in regulation of cell proliferation|intracellular signal transduction|neural tube closure|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|segment specification|transcription from RNA polymerase II promoter	cytosol|nucleus|plasma membrane	frizzled binding|identical protein binding|signal transducer activity			lung(1)|kidney(1)	2						CCAGTTCTGCCCGAGGCTCAT	0.587													27	120	---	---	---	---	PASS	G	7133693	G	G	7133693	2	3	157	1	0	0	0	0	0	0	0	1	4836	610	22	4		4	DVL2	17	7133693	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08		7133693	74061517	180	56126										
TP53	7157	broad.mit.edu	37	chr17	7577538	7577538	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgatggtgaggatgggcctcCggttcatgccgcccatgcag	15	11	1	2	rs11540652		TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr17:7577538C>A	uc002gim.2	-	7	937	c.743G>T	c.(742-744)CGG>CTG	p.R248L	TP53_uc002gig.1_Missense_Mutation_p.R248L|TP53_uc002gih.2_Missense_Mutation_p.R248L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R116L|TP53_uc010cng.1_Missense_Mutation_p.R116L|TP53_uc002gii.1_Missense_Mutation_p.R116L|TP53_uc010cnh.1_Missense_Mutation_p.R248L|TP53_uc010cni.1_Missense_Mutation_p.R248L|TP53_uc002gij.2_Missense_Mutation_p.R248L|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R155L|TP53_uc002gio.2_Missense_Mutation_p.R116L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	248	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		R -> W (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|NR -> KW (in sporadic cancers; somatic mutation).|R -> C (in a sporadic cancer; somatic mutation).|NR -> IP (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R248Q(523)|p.R248W(443)|p.R248L(63)|p.R248P(12)|p.R248G(11)|p.R248R(10)|p.0?(7)|p.R155Q(4)|p.N247_R248delNR(2)|p.N247_R248>KW(2)|p.M246_P250delMNRRP(2)|p.R248fs*97(2)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.N247_P250delNRRP(1)|p.R249fs*96(1)|p.R248C(1)|p.G245fs*14(1)|p.N247_R248>IP(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)		GATGGGCCTCCGGTTCATGCC	0.572	R248Q(KASUMI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HS683_CENTRAL_NERVOUS_SYSTEM)|R248Q(NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HCC1143_BREAST)|R248Q(BL41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SKUT1_SOFT_TISSUE)|R248Q(HSC4_UPPER_AERODIGESTIVE_TRACT)|R248Q(HEC1A_ENDOMETRIUM)|R248Q(SF295_CENTRAL_NERVOUS_SYSTEM)|R248Q(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(WSUDLCL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIN87_STOMACH)|R248Q(P12ICHIKAWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(RT112_URINARY_TRACT)|R248Q(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PANC0203_PANCREAS)|R248Q(EM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(CI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(MOLM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NIHOVCAR3_OVARY)|R248Q(CA46_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SW1463_LARGE_INTESTINE)|R248Q(HCC70_BREAST)|R248Q(KYSE150_OESOPHAGUS)|R248Q(NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIH211_LUNG)|R248Q(KYO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PC14_LUNG)	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)			37	88	---	---	---	---	PASS	A	7577538	A	A	7577538	3	1	157	1	0	0	0	0	1	0	0	0	16378	652	23	1	547	1	TP53	17	7577538	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	443845	7577538	73617672	181	56127										
NCOR1	9611	broad.mit.edu	37	chr17	15978954	15978954	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctgtcttcaatgggcattctCgaaatggaccccttcaccaa	7	13	4	0	rs144012103	by1000genomes	TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr17:15978954C>A	uc002gpo.2	-	27	3804	c.3564G>T	c.(3562-3564)TCG>TCT	p.S1188S	NCOR1_uc002gpn.2_Silent_p.S1204S|NCOR1_uc002gpp.1_Silent_p.S1095S|NCOR1_uc010vwb.1_Intron|NCOR1_uc010coy.2_Silent_p.S96S|NCOR1_uc010vwc.1_5'UTR	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1188	Interaction with ETO.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		TGGGCATTCTCGAAATGGACC	0.493													4	269	---	---	---	---	PASS	A	15978954	A	A	15978954	2	1	157	1	0	0	0	0	0	0	0	1	10235	871	31	2		2	NCOR1	17	15978954	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	8401416	15978954	65216256	182	56128										
NF1	4763	broad.mit.edu	37	chr17	29670080	29670080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cctctggagtggcactgcaaGcaaatggatcattttgttgg	12	8	2	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr17:29670080G>T	uc002hgg.2	+	48	7449	c.7116G>T	c.(7114-7116)AAG>AAT	p.K2372N	NF1_uc002hgh.2_Missense_Mutation_p.K2351N|NF1_uc010cso.2_Missense_Mutation_p.K560N|NF1_uc010wbt.1_5'UTR|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2372					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		GGCACTGCAAGCAAATGGATC	0.363			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			4	144	---	---	---	---	PASS	T	29670080	T	T	29670080	3	4	157	1	0	0	0	0	1	0	0	0	10356	962	34	3	7367	3	NF1	17	29670080	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	13691126	29670080	51525130	183	56129										
TTC25	83538	broad.mit.edu	37	chr17	40113408	40113408	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	taccatccacaggccttggaCgatgccaacaagggtatcat	9	12	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr17:40113408C>T	uc002hyj.3	+	10	1541	c.1452C>T	c.(1450-1452)GAC>GAT	p.D484D	TTC25_uc010cxt.2_RNA	NM_031421	NP_113609	Q96NG3	TTC25_HUMAN	tetratricopeptide repeat domain 25	484						cytoplasm	protein binding			ovary(1)	1		all_cancers(22;8.16e-06)|Breast(137;0.000143)|all_epithelial(22;0.000236)				AGGCCTTGGACGATGCCAACA	0.498													4	13	---	---	---	---	PASS	T	40113408	T	T	40113408	2	4	157	1	0	0	0	0	0	0	0	1	16690	535	19	1		1	TTC25	17	40113408	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	10443328	40113408	41081802	184	56130										
B4GALNT2	124872	broad.mit.edu	37	chr17	47237971	47237971	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tccagtgaccatccgccatcCtgtcatacccaagctatacg	6	16	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr17:47237971C>A	uc002ion.2	+	7	973	c.914C>A	c.(913-915)CCT>CAT	p.P305H	B4GALNT2_uc010wlt.1_Missense_Mutation_p.P219H|B4GALNT2_uc010wlu.1_Missense_Mutation_p.P245H	NM_153446	NP_703147	Q8NHY0	B4GN2_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 2	305	Lumenal (Potential).				lipid glycosylation|negative regulation of cell-cell adhesion|UDP-N-acetylgalactosamine metabolic process	integral to Golgi membrane	acetylgalactosaminyltransferase activity			large_intestine(1)|ovary(1)	2			all cancers(6;0.000316)			ATCCGCCATCCTGTCATACCC	0.532													6	476	---	---	---	---	PASS	A	47237971	A	A	47237971	3	1	157	1	0	0	0	0	1	0	0	0	1267	681	24	3	958	3	B4GALNT2	17	47237971	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	7124563	47237971	33957239	185	56131										
ABCA10	10349	broad.mit.edu	37	chr17	67152038	67152038	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttcgggctcttccggattggGatgagtttctctactccgtg	12	10	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr17:67152038G>T	uc010dfa.1	-	30	4363	c.3484C>A	c.(3484-3486)CCC>ACC	p.P1162T	ABCA10_uc010wqs.1_Missense_Mutation_p.P154T|ABCA10_uc010wqt.1_RNA	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	1162					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TCCGGATTGGGATGAGTTTCT	0.413													31	143	---	---	---	---	PASS	T	67152038	T	T	67152038	3	4	157	1	0	0	0	0	1	0	0	0	29	1174	41	2	1191	2	ABCA10	17	67152038	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	19914067	67152038	14043172	186	56132										
SSTR2	6752	broad.mit.edu	37	chr17	71166457	71166457	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctctgcttggtcaaggtgagCggcacagatgatggggagcg	17	8	2	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr17:71166457C>A	uc002jje.2	+	2	1359	c.999C>A	c.(997-999)AGC>AGA	p.S333R		NM_001050	NP_001041	P30874	SSR2_HUMAN	somatostatin receptor 2	333	Cytoplasmic (Potential).				digestion|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	PDZ domain binding|somatostatin receptor activity				0			LUSC - Lung squamous cell carcinoma(166;0.197)			TCAAGGTGAGCGGCACAGATG	0.522													5	211	---	---	---	---	PASS	A	71166457	A	A	71166457	3	1	157	1	0	0	0	0	1	0	0	0	15197	767	27	1	1001	1	SSTR2	17	71166457	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	4014419	71166457	10028753	187	56133										
LAMA1	284217	broad.mit.edu	37	chr18	6973094	6973094	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	acctccaacaaacatgagtgTtgaattgtttacatccagaa	6	9	0	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr18:6973094T>C	uc002knm.2	-	47	6830	c.6736A>G	c.(6736-6738)ACA>GCA	p.T2246A	LAMA1_uc010wzj.1_Missense_Mutation_p.T1722A	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2246	Laminin G-like 1.				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)	AACATGAGTGTTGAATTGTTT	0.368													137	477	---	---	---	---	PASS	C	6973094	C	C	6973094	3	2	157	1	0	0	0	0	1	0	0	0	8605	1725	60	5	2559	5	LAMA1	18	6973094	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08		6973094	71104154	188	56134										
KIAA0802	23255	broad.mit.edu	37	chr18	8798272	8798272	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ggctgcagaccgcggacaggGgacagccccacaaacaggtg	15	13	0	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr18:8798272G>T	uc002knr.2	+	10	2561	c.2419G>T	c.(2419-2421)GGA>TGA	p.G807*	KIAA0802_uc002knq.2_Nonsense_Mutation_p.G766*|KIAA0802_uc002kns.2_Nonsense_Mutation_p.G137*	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1117											0						CGCGGACAGGGGACAGCCCCA	0.632													13	47	---	---	---	---	PASS	T	8798272	T	T	8798272	4	4	157	1	0	0	0	0	0	1	0	0	8194	1233	43	3	2449	3	KIAA0802	18	8798272	Nonsense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	1825178	8798272	69278976	189	56135										
DSG2	1829	broad.mit.edu	37	chr18	29125982	29125982	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgagcaaactatggttaattCagagaatacctactcctctg	7	9	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr18:29125982C>T	uc002kwu.3	+	15	2821	c.2633C>T	c.(2632-2634)TCA>TTA	p.S878L	uc002kwv.3_Intron	NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	878	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			ATGGTTAATTCAGAGAATACC	0.388													69	198	---	---	---	---	PASS	T	29125982	T	T	29125982	3	4	157	1	0	0	0	0	1	0	0	0	4777	838	29	2	2691	2	DSG2	18	29125982	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	20327710	29125982	48951266	190	56136										
PIK3C3	5289	broad.mit.edu	37	chr18	39595531	39595531	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cagatggcgaaaatctggaaGtgagtacaaagcttttccag	11	7	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr18:39595531G>T	uc002lap.2	+	12	1474	c.1416_splice	c.e12+1	p.E472_splice	PIK3C3_uc010xcl.1_Splice_Site_p.E409_splice	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3						cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						AAATCTGGAAGTGAGTACAAA	0.373										TSP Lung(28;0.18)			4	154	---	---	---	---	PASS	T	39595531	T	T	39595531	5	4	157	1	0	0	0	0	0	0	1	0	11912	1043	36	3	1463	3	PIK3C3	18	39595531	Splice_Site	SNP	G	TCGA-66-2777-01A-01D-1267-08	10469549	39595531	38481717	191	56137										
ZNF414	84330	broad.mit.edu	37	chr19	8577341	8577341	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctgcatgctggggaaggtctCggtgcagctcagggctgagc	17	10	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr19:8577341C>A	uc002mkf.2	-	4	578	c.460G>T	c.(460-462)GAG>TAG	p.E154*	ZNF414_uc002mke.3_Nonsense_Mutation_p.E154*|ZNF414_uc010dwf.2_Nonsense_Mutation_p.E143*	NM_032370	NP_115746	Q96IQ9	ZN414_HUMAN	zinc finger protein 414 isoform 2	154	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGGAAGGTCTCGGTGCAGCTC	0.607													4	192	---	---	---	---	PASS	A	8577341	A	A	8577341	4	1	157	1	0	0	0	0	0	1	0	0	17888	893	31	2	746	2	ZNF414	19	8577341	Nonsense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08		8577341	50551642	192	56138										
KEAP1	9817	broad.mit.edu	37	chr19	10602907	10602907	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gggtcaccagttggcagtggGacaggttgaagaactcctct	14	9	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr19:10602907G>T	uc002moq.1	-	3	827	c.671C>A	c.(670-672)TCC>TAC	p.S224Y	KEAP1_uc002mop.1_5'UTR|KEAP1_uc002mor.1_Missense_Mutation_p.S224Y	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	224	BACK.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			TTGGCAGTGGGACAGGTTGAA	0.612													25	57	---	---	---	---	PASS	T	10602907	T	T	10602907	3	4	157	1	0	0	0	0	1	0	0	0	8141	1174	41	2	1219	2	KEAP1	19	10602907	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	2025566	10602907	48526076	193	56139										
FARSA	2193	broad.mit.edu	37	chr19	13044510	13044510	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cgccacctgaccatccgccaTgactccttccagtgtgctca	7	18	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr19:13044510T>G	uc002mvs.2	-	1	49	c.1A>C	c.(1-3)ATG>CTG	p.M1L	FARSA_uc002mvt.2_RNA|FARSA_uc010xmv.1_Missense_Mutation_p.M1L|FARSA_uc010dyy.1_Missense_Mutation_p.M1L	NM_004461	NP_004452	Q9Y285	SYFA_HUMAN	phenylalanyl-tRNA synthetase, alpha subunit	1					phenylalanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|phenylalanine-tRNA ligase activity|protein binding|tRNA binding			ovary(1)	1					L-Phenylalanine(DB00120)	CCATCCGCCATGACTCCTTCC	0.677													2	3	---	---	---	---	PASS	G	13044510	G	G	13044510	3	3	157	1	0	0	0	0	1	0	0	0	5679	1464	51	5	1577	5	FARSA	19	13044510	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	2441603	13044510	46084473	194	56140										
DYRK1B	9149	broad.mit.edu	37	chr19	40318157	40318157	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cctgggggcacacctcattgGagccactgaagaggggctct	14	12	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr19:40318157G>C	uc002omj.2	-	7	1227	c.947C>G	c.(946-948)TCC>TGC	p.S316C	DYRK1B_uc002omi.2_Missense_Mutation_p.S316C|DYRK1B_uc002omk.2_Missense_Mutation_p.S316C	NM_004714	NP_004705	Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	316	Protein kinase.				positive regulation of transcription, DNA-dependent	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|transcription coactivator activity			ovary(4)|stomach(1)|central_nervous_system(1)|skin(1)	7	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)		Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)			CACCTCATTGGAGCCACTGAA	0.642													55	64	---	---	---	---	PASS	C	40318157	C	C	40318157	3	2	157	1	0	0	0	0	1	0	0	0	4855	1174	41	2	962	2	DYRK1B	19	40318157	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	27273647	40318157	18810826	195	56141										
MEGF8	1954	broad.mit.edu	37	chr19	42853772	42853772	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gtatgcagtagagatccaggGccagctcaatggctcggcag	14	10	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr19:42853772G>T	uc002otl.3	+	13	2854	c.2219G>T	c.(2218-2220)GGC>GTC	p.G740V	MEGF8_uc002otm.3_Missense_Mutation_p.G348V	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	807	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				GAGATCCAGGGCCAGCTCAAT	0.647													10	219	---	---	---	---	PASS	T	42853772	T	T	42853772	3	4	157	1	0	0	0	0	1	0	0	0	9463	1203	42	3	2269	3	MEGF8	19	42853772	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	2535615	42853772	16275211	196	56142										
ZNF577	84765	broad.mit.edu	37	chr19	52380565	52380565	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttgactgtgggctgctccttCtgctatccctgggggttctc	12	12	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr19:52380565C>T	uc010yde.1	-	6	644	c.253G>A	c.(253-255)GAA>AAA	p.E85K	ZNF577_uc010ydd.1_RNA|ZNF577_uc002pxx.3_Missense_Mutation_p.E85K|ZNF577_uc002pxv.2_Missense_Mutation_p.E78K|ZNF577_uc002pxw.2_Missense_Mutation_p.E78K	NM_032679	NP_116068	Q9BSK1	ZN577_HUMAN	zinc finger protein 577 isoform a	85	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		GCTGCTCCTTCTGCTATCCCT	0.507													78	188	---	---	---	---	PASS	T	52380565	T	T	52380565	3	4	157	1	0	0	0	0	1	0	0	0	18006	922	32	2	1212	2	ZNF577	19	52380565	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	9526793	52380565	6748418	197	56143										
PEG3	5178	broad.mit.edu	37	chr19	57327379	57327379	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tctctgatggttgatagcatCgaagctctgaatggtagact	11	7	2	4			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr19:57327379C>G	uc002qnu.2	-	7	2782	c.2431G>C	c.(2431-2433)GAT>CAT	p.D811H	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.D782H|PEG3_uc002qnv.2_Missense_Mutation_p.D811H|PEG3_uc002qnw.2_Missense_Mutation_p.D687H|PEG3_uc002qnx.2_Missense_Mutation_p.D685H|PEG3_uc010etr.2_Missense_Mutation_p.D811H	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	811					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TTGATAGCATCGAAGCTCTGA	0.468													57	537	---	---	---	---	PASS	G	57327379	G	G	57327379	3	3	157	1	0	0	0	0	1	0	0	0	11720	884	31	2	2339	2	PEG3	19	57327379	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	4946814	57327379	1801604	198	56144										
PEG3	5178	broad.mit.edu	37	chr19	57328935	57328935	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttgattttttggcttcaggcAtagtttttagacctggaaag	10	5	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr19:57328935A>T	uc002qnu.2	-	7	1226	c.875T>A	c.(874-876)ATG>AAG	p.M292K	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.M263K|PEG3_uc002qnv.2_Missense_Mutation_p.M292K|PEG3_uc002qnw.2_Missense_Mutation_p.M168K|PEG3_uc002qnx.2_Missense_Mutation_p.M166K|PEG3_uc010etr.2_Missense_Mutation_p.M292K	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	292					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GGCTTCAGGCATAGTTTTTAG	0.458													20	189	---	---	---	---	PASS	T	57328935	T	T	57328935	3	4	157	1	0	0	0	0	1	0	0	0	11720	217	8	5	3895	5	PEG3	19	57328935	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	1556	57328935	1800048	199	56145										
ZNF671	79891	broad.mit.edu	37	chr19	58238825	58238825	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gctgccgggagcggcaggcgTctcgatcggggacgcaggca	19	12	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr19:58238825T>G	uc002qpz.3	-	1	171	c.72A>C	c.(70-72)AGA>AGC	p.R24S	ZNF776_uc002qpx.2_Intron|ZNF671_uc010eug.2_5'UTR|ZNF671_uc010yhf.1_5'UTR	NM_024833	NP_079109	Q8TAW3	ZN671_HUMAN	zinc finger protein 671	24					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GCGGCAGGCGTCTCGATCGGG	0.692													4	24	---	---	---	---	PASS	G	58238825	G	G	58238825	3	3	157	1	0	0	0	0	1	0	0	0	18075	1664	58	5	1548	5	ZNF671	19	58238825	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	909890	58238825	890158	200	56146										
RBCK1	10616	broad.mit.edu	37	chr20	398440	398440	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gattgggcagcggctggcacGagaccaggagaccctgcact	15	12	0	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr20:398440G>A	uc002wdp.3	+	4	1019	c.326G>A	c.(325-327)CGA>CAA	p.R109Q	RBCK1_uc010zpl.1_Missense_Mutation_p.R109Q|RBCK1_uc010zpm.1_RNA|RBCK1_uc002wdq.3_Missense_Mutation_p.R67Q|RBCK1_uc010fzy.2_RNA|RBCK1_uc002wdr.3_5'UTR	NM_031229	NP_112506	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing	109	Interaction with IRF3.|Ubiquitin-like.|Interaction with RNF31.|Interaction with TAB2.				interspecies interaction between organisms|negative regulation of NF-kappaB transcription factor activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|proteasomal ubiquitin-dependent protein catabolic process|protein linear polyubiquitination|T cell receptor signaling pathway	LUBAC complex	protein binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)				CGGCTGGCACGAGACCAGGAG	0.517													17	71	---	---	---	---	PASS	A	398440	A	A	398440	3	1	157	1	0	0	0	0	1	0	0	0	13107	1058	37	2	359	2	RBCK1	20	398440	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08		398440	62627080	201	56147										
TBC1D20	128637	broad.mit.edu	37	chr20	420942	420942	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gtggcaggccaggaagaagtCatataaccgcacgacgtgcc	13	11	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr20:420942C>G	uc002wds.2	-	6	856	c.718G>C	c.(718-720)GAC>CAC	p.D240H	TBC1D20_uc002wdv.2_Missense_Mutation_p.D63H|TBC1D20_uc002wdt.2_RNA|TBC1D20_uc002wdu.2_RNA	NM_144628	NP_653229	Q96BZ9	TBC20_HUMAN	TBC1 domain family, member 20	240	Rab-GAP TBC.|Helical; (Potential).				interspecies interaction between organisms	integral to membrane|intracellular	Rab GTPase activator activity			central_nervous_system(1)	1		all_epithelial(17;0.228)|Breast(17;0.231)				AGGAAGAAGTCATATAACCGC	0.562													14	57	---	---	---	---	PASS	G	420942	G	G	420942	3	3	157	1	0	0	0	0	1	0	0	0	15606	826	29	2	505	2	TBC1D20	20	420942	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	22502	420942	62604578	202	56148										
CHGB	1114	broad.mit.edu	37	chr20	5903669	5903669	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aggagcaggcccgacaggtcCtctcaaggagggagtcttcc	14	12	2	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr20:5903669C>T	uc002wmg.2	+	4	1185	c.879C>T	c.(877-879)TCC>TCT	p.S293S	CHGB_uc010zqz.1_5'UTR	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	293						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						CCGACAGGTCCTCTCAAGGAG	0.582													5	39	---	---	---	---	PASS	T	5903669	T	T	5903669	2	4	157	1	0	0	0	0	0	0	0	1	3339	668	24	3		3	CHGB	20	5903669	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	5482727	5903669	57121851	203	56149										
MCM8	84515	broad.mit.edu	37	chr20	5963711	5963711	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gtattagtcttgctaaggctGgtgtggtttgtagccttcct	12	7	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr20:5963711G>A	uc002wmi.2	+	14	2010	c.1633G>A	c.(1633-1635)GGT>AGT	p.G545S	MCM8_uc002wmj.2_Missense_Mutation_p.G529S|MCM8_uc002wmk.2_Missense_Mutation_p.G585S|MCM8_uc002wml.2_Missense_Mutation_p.G545S|MCM8_uc010gbp.2_Missense_Mutation_p.G498S|MCM8_uc002wmm.2_Missense_Mutation_p.G83S	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	545	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						TGCTAAGGCTGGTGTGGTTTG	0.403													10	169	---	---	---	---	PASS	A	5963711	A	A	5963711	3	1	157	1	0	0	0	0	1	0	0	0	9393	1348	47	3	1683	3	MCM8	20	5963711	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	60042	5963711	57061809	204	56150										
CST1	1469	broad.mit.edu	37	chr20	23728456	23728456	+	Silent	SNP	G	T	T													0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tggcctggcacagatccctaGgattcttgacacctggattt							TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr20:23728456G>T	uc002wtp.2	-	3	494	c.423C>A	c.(421-423)TCC>TCA	p.S141S		NM_001898	NP_001889	P01037	CYTN_HUMAN	cystatin SN precursor	141						extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1	Lung NSC(19;0.0676)|all_lung(19;0.148)					CAGATCCCTAGGATTCTTGAC	0.587													12	57	---	---	---	---	PASS	T	23728456	T	T	23728456	2	4	157	1	0	0	0	0	0	0	0	1	3970	987	35	3		3	CST1	20	23728456	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	17764745	23728456	39297064	205	56151	1001	2								
CST1	1469	broad.mit.edu	37	chr20	23728457	23728457	+	Missense_Mutation	SNP	G	T	T													0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ggcctggcacagatccctagGattcttgacacctggatttc					rs142792460		TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr20:23728457G>T	uc002wtp.2	-	3	493	c.422C>A	c.(421-423)TCC>TAC	p.S141Y		NM_001898	NP_001889	P01037	CYTN_HUMAN	cystatin SN precursor	141						extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1	Lung NSC(19;0.0676)|all_lung(19;0.148)					AGATCCCTAGGATTCTTGACA	0.592													13	56	---	---	---	---	PASS	T	23728457	T	T	23728457	3	4	157	1	0	0	0	0	1	0	0	0	3970	1174	41	2	7	2	CST1	20	23728457	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	1	23728457	39297063	206	56152	1001	2								
GDF5	8200	broad.mit.edu	37	chr20	34025387	34025387	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tgtttggggagggtgtcctgGcttgggttcagggccgcccg	19	9	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr20:34025387G>T	uc002xck.1	-	1	641	c.322C>A	c.(322-324)CCA>ACA	p.P108T	GDF5_uc010gfc.1_Missense_Mutation_p.P108T|GDF5_uc010zvc.1_Missense_Mutation_p.P108T	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	108					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			GGGTGTCCTGGCTTGGGTTCA	0.637													14	114	---	---	---	---	PASS	T	34025387	T	T	34025387	3	4	157	1	0	0	0	0	1	0	0	0	6316	1203	42	3	1191	3	GDF5	20	34025387	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	10296930	34025387	29000133	207	56153										
SPINT4	391253	broad.mit.edu	37	chr20	44352615	44352615	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	aagatgtgaaacttttgtctTctccggctgtaatggcaacc	9	9	2	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr20:44352615T>A	uc002xpe.1	+	2	231	c.212T>A	c.(211-213)TTC>TAC	p.F71Y		NM_178455	NP_848550	Q6UDR6	SPIT4_HUMAN	serine peptidase inhibitor, Kunitz type 4	71	BPTI/Kunitz inhibitor.					extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2		Myeloproliferative disorder(115;0.028)				ACTTTTGTCTTCTCCGGCTGT	0.388													62	212	---	---	---	---	PASS	A	44352615	A	A	44352615	3	1	157	1	0	0	0	0	1	0	0	0	15069	1783	62	5	218	5	SPINT4	20	44352615	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08	10327228	44352615	18672905	208	56154										
TSHZ2	128553	broad.mit.edu	37	chr20	51872316	51872316	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctgaccaagtccaaaagcaaGaaagccgagtcctcgcaagc	9	13	0	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr20:51872316G>A	uc002xwo.2	+	2	3275	c.2319G>A	c.(2317-2319)AAG>AAA	p.K773K		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	773					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CCAAAAGCAAGAAAGCCGAGT	0.557													89	209	---	---	---	---	PASS	A	51872316	A	A	51872316	2	1	157	1	0	0	0	0	0	0	0	1	16621	933	33	2		2	TSHZ2	20	51872316	Silent	SNP	G	TCGA-66-2777-01A-01D-1267-08	7519701	51872316	11153204	209	56155										
GNAS	2778	broad.mit.edu	37	chr20	57484842	57484842	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gaggctctgaacctcttcaaGagcatctggaacaacaggtt	10	10	4	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr20:57484842G>C	uc002xzw.2	+	10	3036	c.2751G>C	c.(2749-2751)AAG>AAC	p.K917N	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Missense_Mutation_p.K215N|GNAS_uc002xzx.2_Missense_Mutation_p.K215N|GNAS_uc010gjr.2_Missense_Mutation_p.K165N|GNAS_uc002xzy.2_Missense_Mutation_p.K200N|GNAS_uc002yaa.2_Missense_Mutation_p.K260N|GNAS_uc010zzt.1_Missense_Mutation_p.K275N|GNAS_uc002yab.2_Intron|GNAS_uc002yad.2_Missense_Mutation_p.K165N|GNAS_uc002yae.2_Missense_Mutation_p.K199N	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	274					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			ACCTCTTCAAGAGCATCTGGA	0.582			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			27	178	---	---	---	---	PASS	C	57484842	C	C	57484842	3	2	157	1	0	0	0	0	1	0	0	0	6510	933	33	2	3677	2	GNAS	20	57484842	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	5612526	57484842	5540678	210	56156										
PHACTR3	116154	broad.mit.edu	37	chr20	58348476	58348476	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cgcgtcattgaggagctgcaCagggcgctggccacgaagca	15	12	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr20:58348476C>G	uc002yau.2	+	6	1361	c.894C>G	c.(892-894)CAC>CAG	p.H298Q	PHACTR3_uc002yat.2_Missense_Mutation_p.H295Q|PHACTR3_uc010zzw.1_Missense_Mutation_p.H257Q|PHACTR3_uc002yav.2_Missense_Mutation_p.H257Q|PHACTR3_uc002yaw.2_Missense_Mutation_p.H257Q|PHACTR3_uc002yax.2_Missense_Mutation_p.H187Q	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	298						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			AGGAGCTGCACAGGGCGCTGG	0.687													3	7	---	---	---	---	PASS	G	58348476	G	G	58348476	3	3	157	1	0	0	0	0	1	0	0	0	11811	477	17	4	916	4	PHACTR3	20	58348476	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	863634	58348476	4677044	211	56157										
SFRS15	57466	broad.mit.edu	37	chr21	33074583	33074583	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tattggtaacattttctgctActggggctgcattactggtt	10	7	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr21:33074583A>T	uc002ypd.2	-	5	857	c.431T>A	c.(430-432)GTA>GAA	p.V144E	SFRS15_uc002ype.2_Missense_Mutation_p.V144E|SFRS15_uc010glu.2_Missense_Mutation_p.V129E|SFRS15_uc002ypf.1_5'Flank|SFRS15_uc002ypg.2_Missense_Mutation_p.V144E	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	144						nucleus	nucleotide binding|RNA binding				0						ATTTTCTGCTACTGGGGCTGC	0.398													50	112	---	---	---	---	PASS	T	33074583	T	T	33074583	3	4	157	1	0	0	0	0	1	0	0	0	14171	391	14	5	3076	5	SFRS15	21	33074583	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08		33074583	15055312	212	56158										
PI4KA	5297	broad.mit.edu	37	chr22	21096998	21096998	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tagatcctggaccatcatttTgttcaggtcagacatctggc	9	10	4	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr22:21096998T>C	uc002zsz.3	-	31	3568	c.3337A>G	c.(3337-3339)AAA>GAA	p.K1113E		NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1113					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			ACCATCATTTTGTTCAGGTCA	0.463													192	284	---	---	---	---	PASS	C	21096998	C	C	21096998	3	2	157	1	0	0	0	0	1	0	0	0	11873	1821	63	5	2897	5	PI4KA	22	21096998	Missense_Mutation	SNP	T	TCGA-66-2777-01A-01D-1267-08		21096998	30207568	213	56159										
HIC2	23119	broad.mit.edu	37	chr22	21800555	21800555	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ttccccagctctgagcagctCaatgcgcacgtggagactca	10	14	3	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr22:21800555C>T	uc002zur.3	+	3	1601	c.1371C>T	c.(1369-1371)CTC>CTT	p.L457L	HIC2_uc002zus.3_Silent_p.L457L	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	457	C2H2-type 1.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CTGAGCAGCTCAATGCGCACG	0.612													8	356	---	---	---	---	PASS	T	21800555	T	T	21800555	2	4	157	1	0	0	0	0	0	0	0	1	7102	813	29	2		2	HIC2	22	21800555	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	703557	21800555	29504011	214	56160										
ZNRF3	84133	broad.mit.edu	37	chr22	29442802	29442802	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cgggaggggagctgtggggcCctggacacactcagcagcag	18	11	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr22:29442802C>T	uc003aeg.2	+	6	708	c.543C>T	c.(541-543)GCC>GCT	p.A181A	ZNRF3_uc003aeh.1_Silent_p.A181A	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	281	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						GCTGTGGGGCCCTGGACACAC	0.577													306	427	---	---	---	---	PASS	T	29442802	T	T	29442802	2	4	157	1	0	0	0	0	0	0	0	1	18210	610	22	3		3	ZNRF3	22	29442802	Silent	SNP	C	TCGA-66-2777-01A-01D-1267-08	7642247	29442802	21861764	215	56161										
MCM5	4174	broad.mit.edu	37	chr22	35802676	35802676	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cctcaccaacattgccatgcGccctggcctcgagggctatg	10	16	1	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr22:35802676G>A	uc003anu.3	+	5	648	c.554G>A	c.(553-555)CGC>CAC	p.R185H	MCM5_uc010gwr.2_5'UTR|MCM5_uc003anv.3_Missense_Mutation_p.R142H|MCM5_uc010gws.1_5'Flank	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	185					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						ATTGCCATGCGCCCTGGCCTC	0.622													9	102	---	---	---	---	PASS	A	35802676	A	A	35802676	3	1	157	1	0	0	0	0	1	0	0	0	9390	1087	38	1	568	1	MCM5	22	35802676	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	6359874	35802676	15501890	216	56162										
GTPBP1	9567	broad.mit.edu	37	chr22	39122021	39122021	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctctgcttaggatgtgcccgAtattccagatctccaacgtt	8	12	2	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chr22:39122021A>T	uc003awg.2	+	7	1238	c.1084A>T	c.(1084-1086)ATA>TTA	p.I362L		NM_004286	NP_004277	O00178	GTPB1_HUMAN	GTP binding protein 1	362					immune response|positive regulation of mRNA catabolic process|signal transduction	cytoplasmic exosome (RNase complex)|cytosol	GTP binding|GTPase activity			ovary(1)	1	Melanoma(58;0.04)					GATGTGCCCGATATTCCAGAT	0.572													67	705	---	---	---	---	PASS	T	39122021	T	T	39122021	3	4	157	1	0	0	0	0	1	0	0	0	6878	333	12	5	1110	5	GTPBP1	22	39122021	Missense_Mutation	SNP	A	TCGA-66-2777-01A-01D-1267-08	3319345	39122021	12182545	217	56163										
STARD8	9754	broad.mit.edu	37	chrX	67942420	67942420	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	tccaggacctgctgcgtgatGctgctgagcgcttcaagggc	14	12	1	2			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chrX:67942420G>T	uc004dxa.2	+	11	2863	c.2491G>T	c.(2491-2493)GCT>TCT	p.A831S	STARD8_uc004dxb.2_Missense_Mutation_p.A911S|STARD8_uc004dxc.3_Missense_Mutation_p.A831S	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	831	START.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						GCTGCGTGATGCTGCTGAGCG	0.647													28	43	---	---	---	---	PASS	T	67942420	T	T	67942420	3	4	157	1	0	0	0	0	1	0	0	0	15262	1319	46	3	2777	3	STARD8	23	67942420	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08		67942420	87328140	218	56164										
DCAF12L2	340578	broad.mit.edu	37	chrX	125299017	125299017	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ggcagcctgatggacaggagCctggatagtgtgctccgggc	17	10	0	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chrX:125299017C>A	uc004euk.1	-	1	918	c.891G>T	c.(889-891)AGG>AGT	p.R297S		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	297	WD 3.									lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						TGGACAGGAGCCTGGATAGTG	0.607													69	113	---	---	---	---	PASS	A	125299017	A	A	125299017	3	1	157	1	0	0	0	0	1	0	0	0	4265	738	26	3	504	3	DCAF12L2	23	125299017	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	57356597	125299017	29971543	219	56165										
DCAF12L1	139170	broad.mit.edu	37	chrX	125686398	125686398	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	cgaagccctggagcctggcgGggccccacccgcctacctcc	12	20	0	0			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chrX:125686398G>A	uc004eul.2	-	1	445	c.194C>T	c.(193-195)CCC>CTC	p.P65L		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	65										skin(3)|ovary(1)	4						GAGCCTGGCGGGGCCCCACCC	0.692													29	27	---	---	---	---	PASS	A	125686398	A	A	125686398	3	1	157	1	0	0	0	0	1	0	0	0	4264	1232	43	3	1201	3	DCAF12L1	23	125686398	Missense_Mutation	SNP	G	TCGA-66-2777-01A-01D-1267-08	387381	125686398	29584162	220	56166										
ATP11C	286410	broad.mit.edu	37	chrX	138878475	138878475	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	ctgatgtgttaaccagggctCcttcattaatttcttcatca	6	10	4	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chrX:138878475C>G	uc004faz.2	-	12	1271	c.1172G>C	c.(1171-1173)GGA>GCA	p.G391A	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Missense_Mutation_p.G391A	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	391	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					AACCAGGGCTCCTTCATTAAT	0.358													16	10	---	---	---	---	PASS	G	138878475	G	G	138878475	3	3	157	1	0	0	0	0	1	0	0	0	1121	855	30	2	2365	2	ATP11C	23	138878475	Missense_Mutation	SNP	C	TCGA-66-2777-01A-01D-1267-08	13192077	138878475	16392085	221	56167										
MAGEA12	4111	broad.mit.edu	37	chrX	151900357	151900357	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	gaggctttgctgaagatcacAggaaagaagtcctggaaatt	12	6	1	3			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chrX:151900357A>G	uc010ntp.2	-	3	798	c.444T>C	c.(442-444)CCT>CCC	p.P148P	MAGEA12_uc004fgb.2_Intron|MAGEA12_uc004fgc.2_Silent_p.P148P|CSAG1_uc004fge.2_5'Flank|CSAG1_uc004fgf.2_5'Flank|CSAG1_uc004fgd.2_5'Flank	NM_005367	NP_005358	P43365	MAGAC_HUMAN	melanoma antigen family A, 12	148	MAGE.									skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TGAAGATCACAGGAAAGAAGT	0.512													5	289	---	---	---	---	PASS	G	151900357	G	G	151900357	2	3	157	1	0	0	0	0	0	0	0	1	9166	175	7	5		5	MAGEA12	23	151900357	Silent	SNP	A	TCGA-66-2777-01A-01D-1267-08	13021882	151900357	3370203	222	56168										
FLNA	2316	broad.mit.edu	37	chrX	153592742	153592742	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0945945945945946	21	0.0970792219445024	1.40730676328502	2.20274102079395	1.1920716112532	0.0888790871291686	0.365851126089834	0	caggcccacgtgccttcaccTagcgggagaccacccagctg	11	17	1	1			TCGA-66-2777-01A-01D-1267-08	TCGA-66-2777-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ea52fb8-d7c9-48ce-9aef-50df7c42e5d5	210f08ab-aef8-4b9e-8866-bb7644e7e8f3	g.chrX:153592742T>G	uc004fkk.2	-	14	2272	c.2023_splice	c.e14-1	p.V675_splice	FLNA_uc010nuu.1_Splice_Site_p.V675_splice	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2						actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGCCTTCACCTAGCGGGAGAC	0.637													66	38	---	---	---	---	PASS	G	153592742	G	G	153592742	5	3	157	1	0	0	0	0	0	0	1	0	5933	1536	53	5	6062	5	FLNA	23	153592742	Splice_Site	SNP	T	TCGA-66-2777-01A-01D-1267-08	1692385	153592742	1677818	223	56169										
NPHP4	261734	broad.mit.edu	37	chr1	5967195	5967195	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tgcctgggccggggaggcctGagagccatggggtagctgtg	20	9	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:5967195G>C	uc001alq.1	-	13	1857	c.1591C>G	c.(1591-1593)CAG>GAG	p.Q531E	NPHP4_uc001als.1_RNA|NPHP4_uc009vlt.1_Intron|NPHP4_uc001alt.1_Intron|NPHP4_uc009vlu.1_5'Flank	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	531					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		GGGGAGGCCTGAGAGCCATGG	0.617													6	7	---	---	---	---	PASS	C	5967195	C	C	5967195	3	2	158	1	0	0	0	0	1	0	0	0	10581	1299	45	2	2761	2	NPHP4	1	5967195	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08		5967195	243283426	1	56170										
CASZ1	54897	broad.mit.edu	37	chr1	10699644	10699644	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ctgaactggcagaagcccgcGgcgctgatcacgtcctgttt	12	13	1	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:10699644G>A	uc001aro.2	-	21	4955	c.4635C>T	c.(4633-4635)GCC>GCT	p.A1545A		NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	1545					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		AGAAGCCCGCGGCGCTGATCA	0.662													7	28	---	---	---	---	PASS	A	10699644	A	A	10699644	2	1	158	1	0	0	0	0	0	0	0	1	2685	1103	39	1		1	CASZ1	1	10699644	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	4732449	10699644	238550977	2	56171										
PLEKHM2	23207	broad.mit.edu	37	chr1	16053734	16053734	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	acggagagcagcgagcgctcCgagccgggcctgctgatccc	15	15	0	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:16053734C>T	uc010obo.1	+	9	1394	c.1167C>T	c.(1165-1167)TCC>TCT	p.S389S		NM_015164	NP_055979	Q8IWE5	PKHM2_HUMAN	pleckstrin homology domain containing, family M	389					Golgi organization	cytoplasm	kinesin binding			ovary(1)	1		Colorectal(325;0.000259)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00057)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		GCGAGCGCTCCGAGCCGGGCC	0.672													3	5	---	---	---	---	PASS	T	16053734	T	T	16053734	2	4	158	1	0	0	0	0	0	0	0	1	12081	639	23	1		1	PLEKHM2	1	16053734	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	5354090	16053734	233196887	3	56172										
PLA2G5	5322	broad.mit.edu	37	chr1	20412659	20412659	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	agaacgccctgacaaactacGgcttctacggctgttactgc	9	13	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:20412659G>A	uc001bcy.2	+	3	392	c.124G>A	c.(124-126)GGC>AGC	p.G42S	PLA2G5_uc001bcw.2_RNA|PLA2G5_uc001bcx.2_Missense_Mutation_p.G73S	NM_000929	NP_000920	P39877	PA2G5_HUMAN	phospholipase A2, group V precursor	42					lipid catabolic process	extracellular region	calcium ion binding|calcium-dependent phospholipase A2 activity			skin(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000249)|Lung NSC(340;0.000287)|Breast(348;0.000812)|Ovarian(437;0.00328)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.22e-05)|BRCA - Breast invasive adenocarcinoma(304;8.15e-05)|Kidney(64;0.000184)|GBM - Glioblastoma multiforme(114;0.00089)|KIRC - Kidney renal clear cell carcinoma(64;0.0027)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0652)		GACAAACTACGGCTTCTACGG	0.557													17	72	---	---	---	---	PASS	A	20412659	A	A	20412659	3	1	158	1	0	0	0	0	1	0	0	0	12007	1116	39	1	130	1	PLA2G5	1	20412659	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	4358925	20412659	228837962	4	56173										
C1orf128	57095	broad.mit.edu	37	chr1	24112837	24112837	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttcaaatgtctatcatctctCaattcatatttcaaaaaact	1	9	7	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:24112837C>T	uc001bhq.2	+	5	588	c.458C>T	c.(457-459)TCA>TTA	p.S153L	C1orf128_uc010oeb.1_Missense_Mutation_p.S60L	NM_020362	NP_065095	Q9GZP4	PITH1_HUMAN	chromosome 1 open reading frame 128	153	PITH.										0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.0034)|all_lung(284;0.00519)|Breast(348;0.0222)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0561)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;1.97e-24)|Colorectal(126;5.06e-08)|COAD - Colon adenocarcinoma(152;2.92e-06)|GBM - Glioblastoma multiforme(114;4.4e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|KIRC - Kidney renal clear cell carcinoma(1967;0.00322)|STAD - Stomach adenocarcinoma(196;0.0124)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0837)|LUSC - Lung squamous cell carcinoma(448;0.185)		TATCATCTCTCAATTCATATT	0.383													14	88	---	---	---	---	PASS	T	24112837	T	T	24112837	3	4	158	1	0	0	0	0	1	0	0	0	1995	838	29	2	476	2	C1orf128	1	24112837	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	3700178	24112837	225137784	5	56174										
CSMD2	114784	broad.mit.edu	37	chr1	34071503	34071503	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tcccagacataggaagcggcGacgggaggagttgagttggt	17	7	0	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:34071503G>T	uc001bxn.1	-	42	6338	c.6309C>A	c.(6307-6309)GTC>GTA	p.V2103V	CSMD2_uc001bxm.1_Intron|CSMD2_uc001bxo.1_Intron	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2103	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AGGAAGCGGCGACGGGAGGAG	0.328													6	55	---	---	---	---	PASS	T	34071503	T	T	34071503	2	4	158	1	0	0	0	0	0	0	0	1	3945	1045	37	2		2	CSMD2	1	34071503	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	9958666	34071503	215179118	6	56175										
DMRTB1	63948	broad.mit.edu	37	chr1	53925207	53925207	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gtgcccgtcaagggacacgcGggcaaatgccgctggaagca	15	12	1	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:53925207G>A	uc001cvq.1	+	1	136	c.81G>A	c.(79-81)GCG>GCA	p.A27A		NM_033067	NP_149056	Q96MA1	DMRTB_HUMAN	DMRT-like family B with proline-rich C-terminal,	27	DM.				sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						AGGGACACGCGGGCAAATGCC	0.617													11	30	---	---	---	---	PASS	A	53925207	A	A	53925207	2	1	158	1	0	0	0	0	0	0	0	1	4590	1103	39	1		1	DMRTB1	1	53925207	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	19853704	53925207	195325414	7	56176										
GBP2	2634	broad.mit.edu	37	chr1	89586879	89586879	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cagaactagggtgtgttctgGcttcttgggatgaggcacac	14	8	2	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:89586879G>A	uc001dmz.1	-	3	536	c.265C>T	c.(265-267)CCA>TCA	p.P89S	GBP2_uc001dmy.1_RNA	NM_004120	NP_004111	P32456	GBP2_HUMAN	guanylate binding protein 2,	89					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)	1		Lung NSC(277;0.0908)		all cancers(265;0.0151)|Epithelial(280;0.0284)		GTGTGTTCTGGCTTCTTGGGA	0.428													42	168	---	---	---	---	PASS	A	89586879	A	A	89586879	3	1	158	1	0	0	0	0	1	0	0	0	6274	1203	42	3	1546	3	GBP2	1	89586879	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	35661672	89586879	159663742	8	56177										
GBP2	2634	broad.mit.edu	37	chr1	89587622	89587622	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gttatcaatgaggctcattgGgcccggcaagttgatctctg	12	9	3	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:89587622G>A	uc001dmz.1	-	2	299	c.28C>T	c.(28-30)CCA>TCA	p.P10S	GBP2_uc001dmy.1_RNA	NM_004120	NP_004111	P32456	GBP2_HUMAN	guanylate binding protein 2,	10					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)	1		Lung NSC(277;0.0908)		all cancers(265;0.0151)|Epithelial(280;0.0284)		AGGCTCATTGGGCCCGGCAAG	0.488													42	188	---	---	---	---	PASS	A	89587622	A	A	89587622	3	1	158	1	0	0	0	0	1	0	0	0	6274	1232	43	3	1787	3	GBP2	1	89587622	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	743	89587622	159662999	9	56178										
DENND2D	79961	broad.mit.edu	37	chr1	111738540	111738540	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cccattttgctaacccacctCagtgcctgagtcggggatga	10	13	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:111738540C>T	uc001eak.1	-	6	843	c.643G>A	c.(643-645)GAG>AAG	p.E215K	DENND2D_uc001eal.1_Missense_Mutation_p.E212K	NM_024901	NP_079177	Q9H6A0	DEN2D_HUMAN	DENN/MADD domain containing 2D	215	DENN.									ovary(1)	1		all_cancers(81;0.00198)|all_epithelial(167;0.000686)|all_lung(203;0.00318)|Lung NSC(277;0.00499)		Lung(183;0.0162)|Colorectal(144;0.069)|all cancers(265;0.0757)|LUSC - Lung squamous cell carcinoma(189;0.0845)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.14)		TAACCCACCTCAGTGCCTGAG	0.552													37	197	---	---	---	---	PASS	T	111738540	T	T	111738540	3	4	158	1	0	0	0	0	1	0	0	0	4431	835	29	2	800	2	DENND2D	1	111738540	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	22150918	111738540	137512081	10	56179										
HIST2H2AB	317772	broad.mit.edu	37	chr1	149859299	149859299	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	atttccgcggtcaggtactcGaggaccgccgccaggtacac	12	14	1	0	rs140091148	byFrequency	TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:149859299G>C	uc001ete.2	-	1	168	c.168C>G	c.(166-168)CTC>CTG	p.L56L	HIST2H2BE_uc001etc.2_5'Flank	NM_175065	NP_778235	Q8IUE6	H2A2B_HUMAN	histone cluster 2, H2ab	56					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|breast(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			TCAGGTACTCGAGGACCGCCG	0.667													17	97	---	---	---	---	PASS	C	149859299	C	C	149859299	2	2	158	1	0	0	0	0	0	0	0	1	7177	1045	37	2		2	HIST2H2AB	1	149859299	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	38120759	149859299	99391322	11	56180										
HIST2H2AB	317772	broad.mit.edu	37	chr1	149859370	149859370	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gttgcctttgcgcagcaagcGgtgcactcgccccaccggga	13	15	0	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:149859370G>C	uc001ete.2	-	1	97	c.97C>G	c.(97-99)CGC>GGC	p.R33G	HIST2H2BE_uc001etc.2_5'Flank	NM_175065	NP_778235	Q8IUE6	H2A2B_HUMAN	histone cluster 2, H2ab	33					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|breast(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			CGCAGCAAGCGGTGCACTCGC	0.682													26	150	---	---	---	---	PASS	C	149859370	C	C	149859370	3	2	158	1	0	0	0	0	1	0	0	0	7177	1116	39	4	299	4	HIST2H2AB	1	149859370	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	71	149859370	99391251	12	56181										
TARS2	80222	broad.mit.edu	37	chr1	150469036	150469036	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ggatttccttccccacaacaGaattgctgagggtctgggaa	11	10	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:150469036G>A	uc001euq.2	+	8	860	c.853G>A	c.(853-855)GAA>AAA	p.E285K	TARS2_uc010pcd.1_RNA|TARS2_uc001eur.2_Intron|TARS2_uc009wlt.2_Intron|TARS2_uc009wls.2_Intron	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	285					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	CCCCACAACAGAATTGCTGAG	0.547													38	185	---	---	---	---	PASS	A	150469036	A	A	150469036	3	1	158	1	0	0	0	0	1	0	0	0	15557	943	33	2	883	2	TARS2	1	150469036	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	609666	150469036	98781585	13	56182										
THBS3	7059	broad.mit.edu	37	chr1	155171307	155171307	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gtccgggctgggaggcagccCtggctctggttgcccaggaa	17	12	1	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:155171307C>T	uc001fix.2	-	11	1253	c.1230G>A	c.(1228-1230)CAG>CAA	p.Q410Q	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Silent_p.Q401Q|THBS3_uc001fiz.2_Silent_p.Q410Q|THBS3_uc001fiy.2_5'UTR|THBS3_uc010pfu.1_Silent_p.Q290Q|THBS3_uc010pfv.1_RNA|THBS3_uc001fja.2_RNA	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	410	EGF-like 3; calcium-binding (Potential).				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		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)			GGAGGCAGCCCTGGCTCTGGT	0.627													12	65	---	---	---	---	PASS	T	155171307	T	T	155171307	2	4	158	1	0	0	0	0	0	0	0	1	15852	680	24	3		3	THBS3	1	155171307	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	4702271	155171307	94079314	14	56183										
C1orf61	10485	broad.mit.edu	37	chr1	156376974	156376974	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttcccaagacaggaataagcAagatcatggaatttcctggt	9	8	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:156376974A>G	uc001fou.1	-	6	438	c.321T>C	c.(319-321)CTT>CTC	p.L107L	C1orf61_uc001fot.1_3'UTR|C1orf61_uc001fov.1_Intron|C1orf61_uc001fow.1_Intron|C1orf61_uc001fox.1_Intron	NM_006365	NP_006356	Q13536	CROC4_HUMAN	transcriptional activator of the c-fos promoter	107						nucleus				skin(1)	1	Hepatocellular(266;0.158)					aggaataagcaagatcatgga	0.139													5	25	---	---	---	---	PASS	G	156376974	G	G	156376974	2	3	158	1	0	0	0	0	0	0	0	1	2052	117	5	5		5	C1orf61	1	156376974	Silent	SNP	A	TCGA-66-2778-01A-02D-1522-08	1205667	156376974	92873647	15	56184										
C1orf92	149499	broad.mit.edu	37	chr1	156897312	156897312	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gcgcacttgtctctgcggaaCaataacatcgacgaccgcgg	11	13	1	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:156897312C>T	uc001fqm.2	+	7	859	c.687C>T	c.(685-687)AAC>AAT	p.N229N	C1orf92_uc001fql.2_Silent_p.N14N	NM_144702	NP_653303	Q8N4P6	LRC71_HUMAN	hypothetical protein LOC149499	229	LRR 3.										0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CTCTGCGGAACAATAACATCG	0.627													9	21	---	---	---	---	PASS	T	156897312	T	T	156897312	2	4	158	1	0	0	0	0	0	0	0	1	2069	477	17	3		3	C1orf92	1	156897312	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	520338	156897312	92353309	16	56185										
FCRL2	79368	broad.mit.edu	37	chr1	157737189	157737189	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	atcctcatgataaaattggtAcaagattgggggagagcctc	11	7	1	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:157737189A>G	uc001fre.2	-	6	1053	c.994T>C	c.(994-996)TAC>CAC	p.Y332H	FCRL2_uc001frd.2_Missense_Mutation_p.Y79H|FCRL2_uc010phz.1_Missense_Mutation_p.Y332H|FCRL2_uc009wsp.2_Intron	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	332	Ig-like C2-type 4.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TAAAATTGGTACAAGATTGGG	0.587													26	132	---	---	---	---	PASS	G	157737189	G	G	157737189	3	3	158	1	0	0	0	0	1	0	0	0	5795	391	14	5	560	5	FCRL2	1	157737189	Missense_Mutation	SNP	A	TCGA-66-2778-01A-02D-1522-08	839877	157737189	91513432	17	56186										
RGS4	5999	broad.mit.edu	37	chr1	163044272	163044272	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tatcttgatttggtcaacccGtccagctgtggggcagaaaa	11	9	2	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:163044272G>A	uc009wuy.2	+	5	1051	c.540G>A	c.(538-540)CCG>CCA	p.P180P	RGS4_uc001gcl.3_Silent_p.P277P|RGS4_uc009wuz.2_3'UTR|RGS4_uc009wva.2_Silent_p.P162P	NM_005613	NP_005604	P49798	RGS4_HUMAN	regulator of G-protein signaling 4 isoform 2	180					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity			ovary(2)|central_nervous_system(1)	3						TGGTCAACCCGTCCAGCTGTG	0.517													8	349	---	---	---	---	PASS	A	163044272	A	A	163044272	2	1	158	1	0	0	0	0	0	0	0	1	13307	1132	40	1		1	RGS4	1	163044272	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	5307083	163044272	86206349	18	56187										
ATP1B1	481	broad.mit.edu	37	chr1	169101419	169101419	+	RNA	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tttgtcatgggggaactgccCtttaaattttaagtgacact	9	7	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:169101419C>G	uc001gfs.1	+	6		c.1663C>G						P05026	AT1B1_HUMAN	Synthetic construct DNA, clone: pF1KB8186, Homo sapiens ATP1B1 gene for ATPase, Na+/K+ transporting, beta 1 polypeptide, without stop codon, in Flexi system.						ATP biosynthetic process|blood coagulation|leukocyte migration	sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	all_hematologic(923;0.208)					GGGAACTGCCCTTTAAATTTT	0.413													5	17	---	---	---	---	PASS	G	169101419	G	G	169101419	1	3	158	0	1	0	0	0	0	0	0	0	1132	696	24	4		4	ATP1B1	1	169101419	RNA	SNP	C	TCGA-66-2778-01A-02D-1522-08	6057147	169101419	80149202	19	56188										
C1orf49	84066	broad.mit.edu	37	chr1	178485756	178485756	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttcttccttgttagataaagGatctaatggacaaggatttt	8	5	2	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:178485756G>T	uc001glt.1	+	5	335	c.223G>T	c.(223-225)GAT>TAT	p.D75Y	C1orf49_uc001glu.1_Missense_Mutation_p.D75Y|C1orf49_uc001glv.1_RNA|C1orf49_uc001glw.1_Missense_Mutation_p.D83Y	NM_032126	NP_115502	Q5T0J7	CA049_HUMAN	hypothetical protein LOC84066	75	Potential.					microtubule cytoskeleton					0						TTAGATAAAGGATCTAATGGA	0.299													7	58	---	---	---	---	PASS	T	178485756	T	T	178485756	3	4	158	1	0	0	0	0	1	0	0	0	2041	1174	41	2	265	2	C1orf49	1	178485756	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	9384337	178485756	70764865	20	56189										
IRF6	3664	broad.mit.edu	37	chr1	209964183	209964183	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gggttgctcacggtcatggtCtgcccgtactccttcccacg	11	15	3	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:209964183C>G	uc001hhq.1	-	7	980	c.717G>C	c.(715-717)CAG>CAC	p.Q239H	IRF6_uc010psm.1_Missense_Mutation_p.Q144H|IRF6_uc009xct.1_Missense_Mutation_p.Q239H	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	239					cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		CGGTCATGGTCTGCCCGTACT	0.577										HNSCC(57;0.16)			38	165	---	---	---	---	PASS	G	209964183	G	G	209964183	3	3	158	1	0	0	0	0	1	0	0	0	7834	912	32	2	698	2	IRF6	1	209964183	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	31478427	209964183	39286438	21	56190										
OBSCN	84033	broad.mit.edu	37	chr1	228468045	228468045	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tgagatctcacacaagggccGgcgccacacgctggtactga	12	13	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:228468045G>A	uc009xez.1	+	29	7873	c.7829G>A	c.(7828-7830)CGG>CAG	p.R2610Q	OBSCN_uc001hsn.2_Missense_Mutation_p.R2610Q|OBSCN_uc001hsp.1_Missense_Mutation_p.R309Q|OBSCN_uc001hsq.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2610	Ig-like 25.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CACAAGGGCCGGCGCCACACG	0.622													6	10	---	---	---	---	PASS	A	228468045	A	A	228468045	3	1	158	1	0	0	0	0	1	0	0	0	10812	1116	39	1	7939	1	OBSCN	1	228468045	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	18503862	228468045	20782576	22	56191										
LYST	1130	broad.mit.edu	37	chr1	235866082	235866082	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tttgacctgttctcgggtctCcctgaaagcaaactgcacta	8	12	2	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:235866082C>G	uc001hxj.2	-	45	10514	c.10339G>C	c.(10339-10341)GAG>CAG	p.E3447Q	LYST_uc001hxi.2_Missense_Mutation_p.E671Q	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3447					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TCTCGGGTCTCCCTGAAAGCA	0.498									Chediak-Higashi_syndrome				4	243	---	---	---	---	PASS	G	235866082	G	G	235866082	3	3	158	1	0	0	0	0	1	0	0	0	9128	864	30	2	1102	2	LYST	1	235866082	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	7398037	235866082	13384539	23	56192										
VN1R5	317705	broad.mit.edu	37	chr1	247419665	247419665	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	acatactgctgctcttcaccCaggcaatattggtgtcctta	7	12	2	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr1:247419665C>G	uc010pyu.1	+	2	292	c.292C>G	c.(292-294)CAG>GAG	p.Q98E		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	98	Helical; Name=3; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			GCTCTTCACCCAGGCAATATT	0.413													33	170	---	---	---	---	PASS	G	247419665	G	G	247419665	3	3	158	1	0	0	0	0	1	0	0	0	17178	595	21	4	294	4	VN1R5	1	247419665	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	11553583	247419665	1830956	24	56193										
ITGB1BP1	9270	broad.mit.edu	37	chr2	9558757	9558757	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	caaattccatttccctacctTgctcttagtactgatttcgc	4	13	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:9558757T>A	uc002qzj.2	-	2	247	c.70A>T	c.(70-72)AAG>TAG	p.K24*	ITGB1BP1_uc002qzk.2_Nonsense_Mutation_p.K24*|ITGB1BP1_uc002qzl.2_RNA|ITGB1BP1_uc002qzm.2_RNA|ITGB1BP1_uc010yiy.1_Intron|ITGB1BP1_uc002qzn.1_Nonsense_Mutation_p.K24*	NM_004763	NP_004754	O14713	ITBP1_HUMAN	integrin cytoplasmic domain-associated protein 1	24	Ser/Thr-rich.				cell migration|cell-matrix adhesion|intracellular protein kinase cascade	cytosol|lamellipodium|membrane|ruffle	protein binding|protein binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.23)		TTCCCTACCTTGCTCTTAGTA	0.428													81	388	---	---	---	---	PASS	A	9558757	A	A	9558757	4	1	158	1	0	0	0	0	0	1	0	0	7891	1821	63	5	556	5	ITGB1BP1	2	9558757	Nonsense_Mutation	SNP	T	TCGA-66-2778-01A-02D-1522-08		9558757	233640616	25	56194										
NCOA1	8648	broad.mit.edu	37	chr2	24964741	24964741	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gcagctaatacagcagcaaaGagccatgcttatgaggcagc	11	10	0	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:24964741G>C	uc002rfk.2	+	17	3650	c.3392G>C	c.(3391-3393)AGA>ACA	p.R1131T	NCOA1_uc010eye.2_Missense_Mutation_p.R1131T|NCOA1_uc002rfi.2_Missense_Mutation_p.R980T|NCOA1_uc002rfj.2_Missense_Mutation_p.R1131T|NCOA1_uc002rfl.2_Missense_Mutation_p.R1131T|NCOA1_uc010eyf.2_Missense_Mutation_p.R24T	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	1131	Gln-rich.								PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGCAGCAAAGAGCCATGCTT	0.537			T	PAX3	alveolar rhadomyosarcoma								6	52	---	---	---	---	PASS	C	24964741	C	C	24964741	3	2	158	1	0	0	0	0	1	0	0	0	10228	942	33	2	3450	2	NCOA1	2	24964741	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	15405984	24964741	218234632	26	56195										
CDC42EP3	10602	broad.mit.edu	37	chr2	37873428	37873428	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gagatggcatttttgagcacCggggagggcgtttctgtgaa	16	6	1	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:37873428C>A	uc002rqi.1	-	2	1296	c.303G>T	c.(301-303)CCG>CCT	p.P101P		NM_006449	NP_006440	Q9UKI2	BORG2_HUMAN	Cdc42 effector protein 3	101					regulation of cell shape|signal transduction	actin cytoskeleton|cytoplasm|endomembrane system|membrane	cytoskeletal regulatory protein binding				0		all_hematologic(82;0.172)				TTTTGAGCACCGGGGAGGGCG	0.532													4	182	---	---	---	---	PASS	A	37873428	A	A	37873428	2	1	158	1	0	0	0	0	0	0	0	1	3077	639	23	1		1	CDC42EP3	2	37873428	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	12908687	37873428	205325945	27	56196										
ATP6V1B1	525	broad.mit.edu	37	chr2	71185479	71185479	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	acaggtgtttgaagggacatCagggatcgatgccaggaaga	15	6	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:71185479C>A	uc002shj.2	+	4	377	c.290C>A	c.(289-291)TCA>TAA	p.S97*	ATP6V1B1_uc002shi.1_Nonsense_Mutation_p.S97*|ATP6V1B1_uc010fdv.2_Nonsense_Mutation_p.S97*|ATP6V1B1_uc010fdw.2_RNA|ATP6V1B1_uc010fdx.2_Nonsense_Mutation_p.S55*	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	97					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						GAAGGGACATCAGGGATCGAT	0.542													23	75	---	---	---	---	PASS	A	71185479	A	A	71185479	4	1	158	1	0	0	0	0	0	1	0	0	1178	838	29	2	304	2	ATP6V1B1	2	71185479	Nonsense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	33312051	71185479	172013894	28	56197										
LOXL3	84695	broad.mit.edu	37	chr2	74761715	74761715	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ccttgggcctgaagtcagctCgtcccaggttgtggatctgg	14	11	2	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:74761715C>T	uc002smp.1	-	10	1838	c.1766G>A	c.(1765-1767)CGA>CAA	p.R589Q	LOXL3_uc002smo.1_Missense_Mutation_p.R228Q|LOXL3_uc010ffm.1_Missense_Mutation_p.R533Q|LOXL3_uc002smq.1_Missense_Mutation_p.R444Q|LOXL3_uc010ffn.1_Missense_Mutation_p.R444Q	NM_032603	NP_115992	P58215	LOXL3_HUMAN	lysyl oxidase-like 3 precursor	589	Lysyl-oxidase like.					extracellular space|membrane	copper ion binding|protein-lysine 6-oxidase activity|scavenger receptor activity				0						GAAGTCAGCTCGTCCCAGGTT	0.642													14	51	---	---	---	---	PASS	T	74761715	T	T	74761715	3	4	158	1	0	0	0	0	1	0	0	0	8901	884	31	2	515	2	LOXL3	2	74761715	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	3576236	74761715	168437658	29	56198										
PTCD3	55037	broad.mit.edu	37	chr2	86352933	86352933	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tacagctgatgtatacacatTtaatgcattgattgaagcaa	7	6	0	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:86352933T>G	uc002sqw.2	+	12	947	c.881T>G	c.(880-882)TTT>TGT	p.F294C	PTCD3_uc010ytc.1_RNA|PTCD3_uc002sqx.1_Translation_Start_Site	NM_017952	NP_060422	Q96EY7	PTCD3_HUMAN	pentatricopeptide repeat domain 3 precursor	294	PPR 4.					mitochondrion	protein binding			ovary(1)	1						GTATACACATTTAATGCATTG	0.313													9	54	---	---	---	---	PASS	G	86352933	G	G	86352933	3	3	158	1	0	0	0	0	1	0	0	0	12729	1841	64	5	927	5	PTCD3	2	86352933	Missense_Mutation	SNP	T	TCGA-66-2778-01A-02D-1522-08	11591218	86352933	156846440	30	56199										
KDM3A	55818	broad.mit.edu	37	chr2	86693609	86693609	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttgctctcaaagtcctctcaGattggaactggagacttgaa	9	9	2	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:86693609G>A	uc002sri.3	+	10	1449	c.1122G>A	c.(1120-1122)CAG>CAA	p.Q374Q	KDM3A_uc010ytj.1_Silent_p.Q374Q|KDM3A_uc010ytk.1_Silent_p.Q322Q	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	374					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						AGTCCTCTCAGATTGGAACTG	0.433													56	274	---	---	---	---	PASS	A	86693609	A	A	86693609	2	1	158	1	0	0	0	0	0	0	0	1	8126	933	33	2		2	KDM3A	2	86693609	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	340676	86693609	156505764	31	56200										
ZEB2	9839	broad.mit.edu	37	chr2	145156292	145156292	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tgggttctttcatttgttttGgtaatgacaagtctaaaggc	10	5	3	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:145156292G>T	uc002tvu.2	-	8	2942	c.2462C>A	c.(2461-2463)CCA>CAA	p.P821Q	ZEB2_uc002tvv.2_Missense_Mutation_p.P815Q|ZEB2_uc010zbm.1_Missense_Mutation_p.P792Q|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.P850Q	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	821						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		CATTTGTTTTGGTAATGACAA	0.388													5	248	---	---	---	---	PASS	T	145156292	T	T	145156292	3	4	158	1	0	0	0	0	1	0	0	0	17621	1348	47	3	1194	3	ZEB2	2	145156292	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	58462683	145156292	98043081	32	56201										
NEB	4703	broad.mit.edu	37	chr2	152410492	152410492	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	atctctaccatgtcgggcacGatgtggattttcatcttgtt	9	9	3	0	rs113068669		TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:152410492G>A	uc010fnx.2	-	98	14564	c.14373C>T	c.(14371-14373)ATC>ATT	p.I4791I	NEB_uc002txr.2_Silent_p.I1214I	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	4791	Nebulin 131.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGTCGGGCACGATGTGGATTT	0.458													41	221	---	---	---	---	PASS	A	152410492	A	A	152410492	2	1	158	1	0	0	0	0	0	0	0	1	10302	1048	37	2		2	NEB	2	152410492	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	7254200	152410492	90788881	33	56202										
KIAA1715	80856	broad.mit.edu	37	chr2	176860294	176860294	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aaagtaccttaccctccatcGagaaaataatccacccatct	3	14	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:176860294G>C	uc002ukc.1	-	2	212	c.19C>G	c.(19-21)CGA>GGA	p.R7G	KIAA1715_uc010zer.1_Missense_Mutation_p.R7G|KIAA1715_uc010fqw.1_Missense_Mutation_p.S71W|KIAA1715_uc010zes.1_Missense_Mutation_p.S71W|KIAA1715_uc002ukd.1_5'UTR|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	7	Cytoplasmic (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			ACCCTCCATCGAGAAAATAAT	0.333													3	96	---	---	---	---	PASS	C	176860294	C	C	176860294	3	2	158	1	0	0	0	0	1	0	0	0	8254	1066	37	2	1315	2	KIAA1715	2	176860294	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	24449802	176860294	66339079	34	56203										
TTN	7273	broad.mit.edu	37	chr2	179476841	179476841	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cccactttaggtcaacatgtCgttttgtcacatcaaccact	5	13	3	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:179476841C>G	uc010zfg.1	-	216	42817	c.42593G>C	c.(42592-42594)CGA>CCA	p.R14198P	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R7893P|TTN_uc010zfi.1_Missense_Mutation_p.R7826P|TTN_uc010zfj.1_Missense_Mutation_p.R7701P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15125							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)			GTCAACATGTCGTTTTGTCAC	0.398													6	44	---	---	---	---	PASS	G	179476841	G	G	179476841	3	3	158	1	0	0	0	0	1	0	0	0	16732	884	31	2	57780	2	TTN	2	179476841	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	2616547	179476841	63722532	35	56204										
TTN	7273	broad.mit.edu	37	chr2	179593707	179593707	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cactgtgtccattatccacaCttctgatttgaagtgtggcc	8	11	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:179593707C>A	uc010zfg.1	-	62	15550	c.15326G>T	c.(15325-15327)AGT>ATT	p.S5109I	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S1770I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6036							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)			ATTATCCACACTTCTGATTTG	0.393													10	36	---	---	---	---	PASS	A	179593707	A	A	179593707	3	1	158	1	0	0	0	0	1	0	0	0	16732	565	20	3	85663	3	TTN	2	179593707	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	116866	179593707	63605666	36	56205										
CASP10	843	broad.mit.edu	37	chr2	202060607	202060607	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tgtagacaaggaagccgagtCgtatcaaggagaggaagaac	14	6	1	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:202060607C>T	uc002uxl.1	+	5	1038	c.620C>T	c.(619-621)TCG>TTG	p.S207L	CASP10_uc002uxi.1_Missense_Mutation_p.S207L|CASP10_uc010zhn.1_RNA|CASP10_uc002uxj.1_Missense_Mutation_p.S207L|CASP10_uc002uxk.1_Missense_Mutation_p.S207L|CASP10_uc010fta.1_Missense_Mutation_p.S207L|CASP10_uc002uxm.1_Missense_Mutation_p.S207L|CASP10_uc010ftb.1_RNA	NM_032974	NP_116756	Q92851	CASPA_HUMAN	caspase 10 isoform b preproprotein	207					apoptosis|induction of apoptosis by extracellular signals|proteolysis	cytosol|plasma membrane	cysteine-type endopeptidase activity|identical protein binding|protein binding			skin(3)|ovary(1)|pancreas(1)|breast(1)	6						GAAGCCGAGTCGTATCAAGGA	0.333													48	270	---	---	---	---	PASS	T	202060607	T	T	202060607	3	4	158	1	0	0	0	0	1	0	0	0	2669	893	31	2	634	2	CASP10	2	202060607	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	22466900	202060607	41138766	37	56206										
PAX3	5077	broad.mit.edu	37	chr2	223163256	223163256	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aggccctcccttaccttccaGcgggaacccgctacgcgggt	11	17	0	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr2:223163256G>A	uc010fwo.2	-	1	445	c.79C>T	c.(79-81)CTG>TTG	p.L27L	PAX3_uc002vmt.1_Silent_p.L27L|PAX3_uc002vmy.1_Silent_p.L27L|PAX3_uc002vmv.1_Silent_p.L27L|PAX3_uc002vmw.1_Silent_p.L27L|PAX3_uc002vmx.1_Silent_p.L27L|PAX3_uc002vmz.1_Silent_p.L27L|PAX3_uc002vna.1_Silent_p.L27L|CCDC140_uc002vnb.1_Intron	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	27					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)		TTACCTTCCAGCGGGAACCCG	0.716			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						4	16	---	---	---	---	PASS	A	223163256	A	A	223163256	2	1	158	1	0	0	0	0	0	0	0	1	11480	962	34	3		3	PAX3	2	223163256	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	21102649	223163256	20036117	38	56207										
MYH15	22989	broad.mit.edu	37	chr3	108159979	108159979	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	agtttccgccccctggcagtCagctcagaatttatctcctc	7	15	3	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr3:108159979C>T	uc003dxa.1	-	24	2901	c.2844G>A	c.(2842-2844)CTG>CTA	p.L948L		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	948	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CCCTGGCAGTCAGCTCAGAAT	0.483													34	194	---	---	---	---	PASS	T	108159979	T	T	108159979	2	4	158	1	0	0	0	0	0	0	0	1	10034	813	29	2		2	MYH15	3	108159979	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08		108159979	89862451	39	56208										
PHLDB2	90102	broad.mit.edu	37	chr3	111603564	111603564	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aagccaggaaaatgagcattCaggacagcctggcgcttcaa	11	10	2	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr3:111603564C>T	uc010hqa.2	+	2	1051	c.640C>T	c.(640-642)CAG>TAG	p.Q214*	PHLDB2_uc003dyc.2_Nonsense_Mutation_p.Q241*|PHLDB2_uc003dyd.2_Nonsense_Mutation_p.Q214*|PHLDB2_uc003dyg.2_Nonsense_Mutation_p.Q214*|PHLDB2_uc003dyh.2_Nonsense_Mutation_p.Q214*|PHLDB2_uc003dye.3_Nonsense_Mutation_p.Q214*|PHLDB2_uc003dyf.3_Nonsense_Mutation_p.Q214*	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	214						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						AATGAGCATTCAGGACAGCCT	0.517													17	101	---	---	---	---	PASS	T	111603564	T	T	111603564	4	4	158	1	0	0	0	0	0	1	0	0	11852	827	29	2	727	2	PHLDB2	3	111603564	Nonsense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	3443585	111603564	86418866	40	56209										
RNF168	165918	broad.mit.edu	37	chr3	196198983	196198983	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ggaggatgtagcgcgtaagtGatactcatctggggatcctt	14	7	2	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr3:196198983G>C	uc003fwq.2	-	6	1961	c.1423C>G	c.(1423-1425)CAC>GAC	p.H475D	RNF168_uc010iah.2_Missense_Mutation_p.H308D|uc010iag.1_5'Flank	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	475					double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		GCGCGTAAGTGATACTCATCT	0.458													77	604	---	---	---	---	PASS	C	196198983	C	C	196198983	3	2	158	1	0	0	0	0	1	0	0	0	13459	1290	45	2	296	2	RNF168	3	196198983	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	84595419	196198983	1823447	41	56210										
MRPL1	65008	broad.mit.edu	37	chr4	78870971	78870971	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttggatatgtcaagtgaccaGatagctgccaatctgcaagc	10	9	2	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr4:78870971G>C	uc003hku.2	+	8	996	c.798G>C	c.(796-798)CAG>CAC	p.Q266H	MRPL1_uc010iji.1_Intron	NM_020236	NP_064621	Q9BYD6	RM01_HUMAN	mitochondrial ribosomal protein L1 precursor	266							RNA binding				0						CAAGTGACCAGATAGCTGCCA	0.358													3	136	---	---	---	---	PASS	C	78870971	C	C	78870971	3	2	158	1	0	0	0	0	1	0	0	0	9774	933	33	2	828	2	MRPL1	4	78870971	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08		78870971	112283305	42	56211										
PPP3CA	5530	broad.mit.edu	37	chr4	102019574	102019574	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tggagacaaaccaccatgcaCacacaggaactgttggttca	9	11	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr4:102019574C>A	uc011cen.1	-	5	1267	c.592G>T	c.(592-594)GTG>TTG	p.V198L	PPP3CA_uc003hvu.2_Missense_Mutation_p.V198L|PPP3CA_uc010ilj.2_Missense_Mutation_p.V198L|PPP3CA_uc003hvt.2_Missense_Mutation_p.V185L|PPP3CA_uc003hvs.2_Missense_Mutation_p.V131L|PPP3CA_uc010ilk.2_Intron	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha	198	Catalytic.				protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)		CCACCATGCACACACAGGAAC	0.393													24	92	---	---	---	---	PASS	A	102019574	A	A	102019574	3	1	158	1	0	0	0	0	1	0	0	0	12397	478	17	3	1013	3	PPP3CA	4	102019574	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	23148603	102019574	89134702	43	56212										
CCRN4L	25819	broad.mit.edu	37	chr4	139966110	139966110	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttaggctgacagccatgacaTtgaaaaccaaccaggtggcc	10	11	0	3	rs140314273		TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr4:139966110T>C	uc003ihl.2	+	3	971	c.778T>C	c.(778-780)TTG>CTG	p.L260L		NM_012118	NP_036250	Q9UK39	NOCT_HUMAN	CCR4 carbon catabolite repression 4-like	260					rhythmic process|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_hematologic(180;0.162)					AGCCATGACATTGAAAACCAA	0.478													18	65	---	---	---	---	PASS	C	139966110	C	C	139966110	2	2	158	1	0	0	0	0	0	0	0	1	2951	1490	52	5		5	CCRN4L	4	139966110	Silent	SNP	T	TCGA-66-2778-01A-02D-1522-08	37946536	139966110	51188166	44	56213										
FSTL5	56884	broad.mit.edu	37	chr4	162307103	162307103	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttgagtggttccttgagactCtttatcatcttgaccttccc	7	11	3	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr4:162307103C>G	uc003iqh.2	-	16	2776	c.2340G>C	c.(2338-2340)AAG>AAC	p.K780N	FSTL5_uc003iqi.2_Missense_Mutation_p.K779N|FSTL5_uc010iqv.2_Missense_Mutation_p.K770N|uc010iqu.1_RNA	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	780						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CCTTGAGACTCTTTATCATCT	0.458													42	169	---	---	---	---	PASS	G	162307103	G	G	162307103	3	3	158	1	0	0	0	0	1	0	0	0	6080	912	32	2	207	2	FSTL5	4	162307103	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	22340993	162307103	28847173	45	56214										
SPATA4	132851	broad.mit.edu	37	chr4	177116539	177116539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gctgagatccagaccctgaaGccaacgcagaacggaacgag	12	12	0	4			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr4:177116539G>T	uc003iuo.1	-	1	284	c.175C>A	c.(175-177)CTT>ATT	p.L59I		NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4	59					apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)		AGACCCTGAAGCCAACGCAGA	0.622													15	111	---	---	---	---	PASS	T	177116539	T	T	177116539	3	4	158	1	0	0	0	0	1	0	0	0	15009	971	34	3	766	3	SPATA4	4	177116539	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	14809436	177116539	14037737	46	56215										
ADCY2	108	broad.mit.edu	37	chr5	7709351	7709351	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gacggagcccccagcatctcTtcagacctcgccacaccctt	7	19	2	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr5:7709351T>C	uc003jdz.1	+	10	1496	c.1429T>C	c.(1429-1431)TTC>CTC	p.F477L	ADCY2_uc011cmo.1_Missense_Mutation_p.F297L	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	477	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CCAGCATCTCTTCAGACCTCG	0.592													19	108	---	---	---	---	PASS	C	7709351	C	C	7709351	3	2	158	1	0	0	0	0	1	0	0	0	294	1609	56	5	1467	5	ADCY2	5	7709351	Missense_Mutation	SNP	T	TCGA-66-2778-01A-02D-1522-08		7709351	173205909	47	56216										
ADCY2	108	broad.mit.edu	37	chr5	7709429	7709429	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ggtacttggagtcctgggggGcagccaagccctttgcacac	14	12	0	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr5:7709429G>A	uc003jdz.1	+	10	1574	c.1507G>A	c.(1507-1509)GCA>ACA	p.A503T	ADCY2_uc011cmo.1_Missense_Mutation_p.A323T	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	503	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						GTCCTGGGGGGCAGCCAAGCC	0.607													10	75	---	---	---	---	PASS	A	7709429	A	A	7709429	3	1	158	1	0	0	0	0	1	0	0	0	294	1203	42	3	1545	3	ADCY2	5	7709429	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	78	7709429	173205831	48	56217										
SEMA5A	9037	broad.mit.edu	37	chr5	9063029	9063029	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	caaaatgttgcattcctggtAttccagagatgggccaaggc	11	9	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr5:9063029A>G	uc003jek.2	-	18	3200	c.2488T>C	c.(2488-2490)TAC>CAC	p.Y830H		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	830	TSP type-1 5.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						CATTCCTGGTATTCCAGAGAT	0.512													4	134	---	---	---	---	PASS	G	9063029	G	G	9063029	3	3	158	1	0	0	0	0	1	0	0	0	14037	449	16	5	760	5	SEMA5A	5	9063029	Missense_Mutation	SNP	A	TCGA-66-2778-01A-02D-1522-08	1353600	9063029	171852231	49	56218										
CDH12	1010	broad.mit.edu	37	chr5	21802373	21802373	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aacctccatggtgtagagcgGcttgctgaaaaccggtggct	13	10	0	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr5:21802373G>C	uc010iuc.2	-	7	1617	c.1159C>G	c.(1159-1161)CCG>GCG	p.P387A	CDH12_uc011cno.1_Missense_Mutation_p.P347A|CDH12_uc003jgk.2_Missense_Mutation_p.P387A	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	387	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						GTGTAGAGCGGCTTGCTGAAA	0.552										HNSCC(59;0.17)			40	41	---	---	---	---	PASS	C	21802373	C	C	21802373	3	2	158	1	0	0	0	0	1	0	0	0	3098	1203	42	4	1249	4	CDH12	5	21802373	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	12739344	21802373	159112887	50	56219										
GOLPH3	64083	broad.mit.edu	37	chr5	32143959	32143959	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gccacgtaatccagatgataTacagtcattccaaaatgatg	7	9	1	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr5:32143959T>C	uc003jhp.1	-	2	538	c.253A>G	c.(253-255)ATA>GTA	p.I85V		NM_022130	NP_071413	Q9H4A6	GOLP3_HUMAN	golgi phosphoprotein 3	85					cell proliferation|positive regulation of TOR signaling cascade|regulation of mitochondrion organization	cytosol|endosome|Golgi cisterna membrane|mitochondrial intermembrane space|plasma membrane|trans-Golgi network	protein binding			ovary(1)	1						CCAGATGATATACAGTCATTC	0.308													60	114	---	---	---	---	PASS	C	32143959	C	C	32143959	3	2	158	1	0	0	0	0	1	0	0	0	6568	1406	49	5	655	5	GOLPH3	5	32143959	Missense_Mutation	SNP	T	TCGA-66-2778-01A-02D-1522-08	10341586	32143959	148771301	51	56220										
PRR16	51334	broad.mit.edu	37	chr5	120021831	120021831	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gcacacccgtctgctatcctCacggtcctgagaaagccaaa	8	15	2	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr5:120021831C>G	uc003ksq.2	+	2	505	c.342C>G	c.(340-342)CTC>CTG	p.L114L	PRR16_uc003ksp.2_Silent_p.L91L|PRR16_uc003ksr.2_Silent_p.L44L	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16	114	Pro-rich.									pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		CTGCTATCCTCACGGTCCTGA	0.522													28	112	---	---	---	---	PASS	G	120021831	G	G	120021831	2	3	158	1	0	0	0	0	0	0	0	1	12589	813	29	2		2	PRR16	5	120021831	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	87877872	120021831	60893429	52	56221										
MATR3	9782	broad.mit.edu	37	chr5	138661310	138661310	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ggacgactatacaatcccagAtgagtatagaattggaccat	9	8	0	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr5:138661310A>G	uc003ldu.2	+	16	2757	c.2330A>G	c.(2329-2331)GAT>GGT	p.D777G	MATR3_uc003ldt.2_Missense_Mutation_p.D439G|MATR3_uc003ldw.2_Missense_Mutation_p.D825G|MATR3_uc003ldx.2_Missense_Mutation_p.D777G|MATR3_uc010jfc.2_Missense_Mutation_p.D777G|MATR3_uc011czb.1_Missense_Mutation_p.D489G|MATR3_uc003ldz.2_Missense_Mutation_p.D777G|MATR3_uc003lea.2_Missense_Mutation_p.D777G|MATR3_uc003leb.2_Missense_Mutation_p.D439G|MATR3_uc003lec.2_Missense_Mutation_p.D454G	NM_199189	NP_954659	P43243	MATR3_HUMAN	matrin 3	777						nuclear inner membrane|nuclear matrix	nucleotide binding|protein binding|RNA binding|structural molecule activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ACAATCCCAGATGAGTATAGA	0.418													20	47	---	---	---	---	PASS	G	138661310	G	G	138661310	3	3	158	1	0	0	0	0	1	0	0	0	9337	333	12	5	2376	5	MATR3	5	138661310	Missense_Mutation	SNP	A	TCGA-66-2778-01A-02D-1522-08	18639479	138661310	42253950	53	56222										
PAIP2	51247	broad.mit.edu	37	chr5	138704469	138704469	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aaggagtttgttcctggggtGaagtacggaaatatttgagt	14	3	0	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr5:138704469G>T	uc003led.2	+	4	543	c.366G>T	c.(364-366)GTG>GTT	p.V122V	PAIP2_uc003lee.2_Silent_p.V122V|PAIP2_uc003lef.2_Silent_p.V122V|SLC23A1_uc003leh.2_Intron|SLC23A1_uc003leg.2_Intron	NM_016480	NP_057564	Q9BPZ3	PAIP2_HUMAN	poly(A) binding protein interacting protein 2	122					negative regulation of translational initiation	cytoplasm	protein binding|translation repressor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TTCCTGGGGTGAAGTACGGAA	0.393													18	113	---	---	---	---	PASS	T	138704469	T	T	138704469	2	4	158	1	0	0	0	0	0	0	0	1	11397	1277	45	2		2	PAIP2	5	138704469	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	43159	138704469	42210791	54	56223										
PCDHB13	56123	broad.mit.edu	37	chr5	140594887	140594887	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ccttcctcctgaaatccgcgGaaaacttttacaccctacta	4	15	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr5:140594887G>A	uc003lja.1	+	1	1379	c.1192G>A	c.(1192-1194)GAA>AAA	p.E398K		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	398	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAAATCCGCGGAAAACTTTTA	0.453													22	89	---	---	---	---	PASS	A	140594887	A	A	140594887	3	1	158	1	0	0	0	0	1	0	0	0	11538	1175	41	2	1194	2	PCDHB13	5	140594887	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	1890418	140594887	40320373	55	56224										
HAVCR2	84868	broad.mit.edu	37	chr5	156514243	156514243	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tatagatgttttcttctgagCgaattccctctgctactgca	7	10	3	2	rs138681649		TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr5:156514243C>A	uc003lwk.1	-	7	920	c.776G>T	c.(775-777)CGC>CTC	p.R259L		NM_032782	NP_116171	Q8TDQ0	HAVR2_HUMAN	T cell immunoglobulin mucin 3 precursor	259	Cytoplasmic (Potential).					integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TTCTTCTGAGCGAATTCCCTC	0.458													11	59	---	---	---	---	PASS	A	156514243	A	A	156514243	3	1	158	1	0	0	0	0	1	0	0	0	6974	768	27	1	133	1	HAVCR2	5	156514243	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	15919356	156514243	24401017	56	56225										
DTNBP1	84062	broad.mit.edu	37	chr6	15627683	15627683	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttctcccagtgcgcagaaagCatgaccacctcgctatccac	7	16	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr6:15627683C>T	uc003nbm.2	-	5	417	c.246G>A	c.(244-246)ATG>ATA	p.M82I	DTNBP1_uc003nbl.2_Missense_Mutation_p.M1I|DTNBP1_uc003nbn.2_RNA|DTNBP1_uc003nbo.2_RNA|DTNBP1_uc003nbp.2_Missense_Mutation_p.M82I|DTNBP1_uc010jph.2_Missense_Mutation_p.M69I	NM_032122	NP_115498	Q96EV8	DTBP1_HUMAN	dystrobrevin binding protein 1 isoform a	82					actin cytoskeleton reorganization|cellular membrane organization|neuron projection morphogenesis|post-Golgi vesicle-mediated transport|regulation of dopamine receptor signaling pathway	axon part|BLOC-1 complex|cell junction|dendritic spine|endoplasmic reticulum membrane|endosome membrane|growth cone|melanosome membrane|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|synaptic vesicle membrane|synaptosome	identical protein binding				0	Breast(50;0.0289)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.211)			GCGCAGAAAGCATGACCACCT	0.488									Hermansky-Pudlak_syndrome				12	76	---	---	---	---	PASS	T	15627683	T	T	15627683	3	4	158	1	0	0	0	0	1	0	0	0	4790	710	25	3	934	3	DTNBP1	6	15627683	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08		15627683	155487384	57	56226										
HIST1H2BH	8345	broad.mit.edu	37	chr6	26252107	26252107	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tcttcgagcgcatcgccggcGaggcttcccgcctggctcat	12	16	2	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr6:26252107G>A	uc003nhh.2	+	1	229	c.229G>A	c.(229-231)GAG>AAG	p.E77K	HIST1H3F_uc003nhg.1_5'Flank	NM_003524	NP_003515	Q93079	H2B1H_HUMAN	histone cluster 1, H2bh	77					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)	3						CATCGCCGGCGAGGCTTCCCG	0.592													8	197	---	---	---	---	PASS	A	26252107	A	A	26252107	3	1	158	1	0	0	0	0	1	0	0	0	7147	1059	37	2	231	2	HIST1H2BH	6	26252107	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	10624424	26252107	144862960	58	56227										
HIST1H2BK	85236	broad.mit.edu	37	chr6	27114419	27114419	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	atggccttagaggagatgccGgtgtcggggtggacctgctt	17	8	0	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr6:27114419G>A	uc003nix.1	-	1	201	c.159C>T	c.(157-159)ACC>ACT	p.T53T	HIST1H2AH_uc003niz.2_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080593	NP_542160	O60814	H2B1K_HUMAN	histone cluster 1, H2bk	53					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						AGGAGATGCCGGTGTCGGGGT	0.577													47	282	---	---	---	---	PASS	A	27114419	A	A	27114419	2	1	158	1	0	0	0	0	0	0	0	1	7150	1103	39	1		1	HIST1H2BK	6	27114419	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	862312	27114419	144000648	59	56228										
ZNF184	7738	broad.mit.edu	37	chr6	27420015	27420015	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	caatcatagggtttctccccAgtatgagttttttgatgctg	9	8	2	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr6:27420015A>T	uc003njj.2	-	5	2134	c.1323T>A	c.(1321-1323)ACT>ACA	p.T441T	ZNF184_uc010jqv.2_Silent_p.T441T|ZNF184_uc003nji.2_Silent_p.T441T	NM_007149	NP_009080	Q99676	ZN184_HUMAN	zinc finger protein 184	441					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GTTTCTCCCCAGTATGAGTTT	0.403													37	194	---	---	---	---	PASS	T	27420015	T	T	27420015	2	4	158	1	0	0	0	0	0	0	0	1	17748	175	7	5		5	ZNF184	6	27420015	Silent	SNP	A	TCGA-66-2778-01A-02D-1522-08	305596	27420015	143695052	60	56229										
MDC1	9656	broad.mit.edu	37	chr6	30671677	30671677	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gtaagggattcagctgctctCactgctccccatctttggtt	9	12	3	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr6:30671677C>T	uc003nrg.3	-	10	5723	c.5283G>A	c.(5281-5283)GTG>GTA	p.V1761V	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Silent_p.V1368V	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1761	Required for nuclear localization (NLS2).				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						CAGCTGCTCTCACTGCTCCCC	0.557								Other_conserved_DNA_damage_response_genes					6	107	---	---	---	---	PASS	T	30671677	T	T	30671677	2	4	158	1	0	0	0	0	0	0	0	1	9403	813	29	2		2	MDC1	6	30671677	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	3251662	30671677	140443390	61	56230										
HLA-DRA	3122	broad.mit.edu	37	chr6	32410335	32410335	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	atgtggatatggcaaagaagGagacggtctggcggcttgaa	16	5	1	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr6:32410335G>A	uc003obh.2	+	2	274	c.193G>A	c.(193-195)GAG>AAG	p.E65K	HLA-DRA_uc003obi.2_Missense_Mutation_p.E65K	NM_019111	NP_061984	P01903	DRA_HUMAN	major histocompatibility complex, class II, DR	65	Extracellular (Potential).|Alpha-1.				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|Golgi apparatus|integral to plasma membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity			ovary(1)|skin(1)	2						GGCAAAGAAGGAGACGGTCTG	0.468									T-cell_Lymphoma_(Cutaneous)__Familial_Clustering_of|Kaposi_Sarcoma_Familial_Clustering_of				32	146	---	---	---	---	PASS	A	32410335	A	A	32410335	3	1	158	1	0	0	0	0	1	0	0	0	7207	1175	41	2	199	2	HLA-DRA	6	32410335	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	1738658	32410335	138704732	62	56231										
SYNGAP1	8831	broad.mit.edu	37	chr6	33405597	33405597	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cgctctgcctctggggacacCgtcttctggggcgagcactt	13	14	4	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr6:33405597C>A	uc011dri.1	+	8	1110	c.915C>A	c.(913-915)ACC>ACA	p.T305T	SYNGAP1_uc003oeo.1_Silent_p.T290T|SYNGAP1_uc010juy.2_Silent_p.T290T|SYNGAP1_uc010juz.2_Silent_p.T17T	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	305	C2.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						CTGGGGACACCGTCTTCTGGG	0.602													3	95	---	---	---	---	PASS	A	33405597	A	A	33405597	2	1	158	1	0	0	0	0	0	0	0	1	15444	639	23	1		1	SYNGAP1	6	33405597	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	995262	33405597	137709470	63	56232										
KCNK17	89822	broad.mit.edu	37	chr6	39271753	39271753	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	caatcacgtagtcgccgaagCccacggtgctgagggtgatg	14	11	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr6:39271753C>A	uc003ooo.2	-	4	808	c.668G>T	c.(667-669)GGC>GTC	p.G223V	KCNK17_uc003oop.2_Missense_Mutation_p.G223V	NM_031460	NP_113648	Q96T54	KCNKH_HUMAN	potassium channel, subfamily K, member 17	223						integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2						GTCGCCGAAGCCCACGGTGCT	0.617													18	128	---	---	---	---	PASS	A	39271753	A	A	39271753	3	1	158	1	0	0	0	0	1	0	0	0	8064	739	26	3	470	3	KCNK17	6	39271753	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	5866156	39271753	131843314	64	56233										
MOCS1	4337	broad.mit.edu	37	chr6	39874531	39874531	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cacggctgaagccacagccaCccgctctgtgtctggcttcc	10	17	2	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr6:39874531C>A	uc003opb.2	-	10	1651	c.1513G>T	c.(1513-1515)GTG>TTG	p.V505L	MOCS1_uc003opa.2_3'UTR|MOCS1_uc003opc.2_Missense_Mutation_p.V489L|MOCS1_uc003opd.2_3'UTR|MOCS1_uc003ope.2_Missense_Mutation_p.V402L	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	505	Molybdenum cofactor biosynthesis protein C.				Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding			ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GCCACAGCCACCCGCTCTGTG	0.592													3	78	---	---	---	---	PASS	A	39874531	A	A	39874531	3	1	158	1	0	0	0	0	1	0	0	0	9690	522	18	3		3	MOCS1	6	39874531	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	602778	39874531	131240536	65	56234										
COL9A1	1297	broad.mit.edu	37	chr6	70942343	70942343	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cttaatgcccggaaggccacGaattcccatctggcctggga	11	13	1	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr6:70942343G>C	uc003pfg.3	-	36	2605	c.2446C>G	c.(2446-2448)CGT>GGT	p.R816G	COL9A1_uc003pfe.3_Missense_Mutation_p.R365G|COL9A1_uc003pff.3_Missense_Mutation_p.R573G	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	816	Triple-helical region (COL1).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						GGAAGGCCACGAATTCCCATC	0.592													33	209	---	---	---	---	PASS	C	70942343	C	C	70942343	3	2	158	1	0	0	0	0	1	0	0	0	3707	1058	37	2	331	2	COL9A1	6	70942343	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	31067812	70942343	100172724	66	56235										
SESN1	27244	broad.mit.edu	37	chr6	109322510	109322510	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ccattattccaatgtagtgaCgataatgtaggggtaacggc	11	7	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr6:109322510C>A	uc003pst.3	-	3	442	c.350G>T	c.(349-351)CGT>CTT	p.R117L	SESN1_uc003psu.2_Missense_Mutation_p.R176L	NM_014454	NP_055269	Q9Y6P5	SESN1_HUMAN	sestrin 1	117					cell cycle arrest|negative regulation of cell proliferation|response to DNA damage stimulus	nucleus				ovary(1)	1		all_cancers(87;6.45e-05)|Acute lymphoblastic leukemia(125;3.55e-10)|all_hematologic(75;1.68e-07)|all_epithelial(87;0.0106)|Colorectal(196;0.0637)		Epithelial(106;0.0014)|BRCA - Breast invasive adenocarcinoma(108;0.00146)|all cancers(137;0.0031)|OV - Ovarian serous cystadenocarcinoma(136;0.0117)		AATGTAGTGACGATAATGTAG	0.333													18	117	---	---	---	---	PASS	A	109322510	A	A	109322510	3	1	158	1	0	0	0	0	1	0	0	0	14124	536	19	1	1160	1	SESN1	6	109322510	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	38380167	109322510	61792557	67	56236										
PDE10A	10846	broad.mit.edu	37	chr6	165808737	165808737	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ccacatgttttcaaaaggacCaatgtcaaagtggaatctga	8	8	3	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr6:165808737C>A	uc003qun.2	-	16	1649	c.1408G>T	c.(1408-1410)GGT>TGT	p.G470C	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.G400C|PDE10A_uc003quo.2_Missense_Mutation_p.G480C	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	470					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	TCAAAAGGACCAATGTCAAAG	0.333													7	56	---	---	---	---	PASS	A	165808737	A	A	165808737	3	1	158	1	0	0	0	0	1	0	0	0	11630	594	21	3	963	3	PDE10A	6	165808737	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	56486227	165808737	5306330	68	56237										
EIF3B	8662	broad.mit.edu	37	chr7	2402315	2402315	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gtacgcgtcccctgcccacgCtgtggatgctgtgaagaacg	13	13	0	2	rs150739455		TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr7:2402315C>A	uc003slx.2	+	3	811	c.728C>A	c.(727-729)GCT>GAT	p.A243D	EIF3B_uc003sly.2_Missense_Mutation_p.A243D|EIF3B_uc003slz.1_Missense_Mutation_p.A204D|EIF3B_uc003sma.2_Translation_Start_Site	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,	243	Sufficient for interaction with EIF3E.|RRM.|Sufficient for interaction with EIF3J.				regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		CCTGCCCACgctgtggatgct	0.408													4	76	---	---	---	---	PASS	A	2402315	A	A	2402315	3	1	158	1	0	0	0	0	1	0	0	0	5013	797	28	3	738	3	EIF3B	7	2402315	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08		2402315	156736348	69	56238										
TTYH3	80727	broad.mit.edu	37	chr7	2701348	2701348	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cctcgccacgagccagcctcGccctgactccagcggcagcc	10	21	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr7:2701348G>A	uc003smp.2	+	14	1734	c.1547G>A	c.(1546-1548)CGC>CAC	p.R516H	TTYH3_uc010ksn.2_Missense_Mutation_p.R236H|TTYH3_uc003smq.2_Missense_Mutation_p.R345H	NM_025250	NP_079526	Q9C0H2	TTYH3_HUMAN	tweety 3	516	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.04e-14)		AGCCAGCCTCGCCCTGACTCC	0.692													3	13	---	---	---	---	PASS	A	2701348	A	A	2701348	3	1	158	1	0	0	0	0	1	0	0	0	16738	1087	38	1	1601	1	TTYH3	7	2701348	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	299033	2701348	156437315	70	56239										
SAMD9	54809	broad.mit.edu	37	chr7	92731019	92731019	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	atatgtttatattgccccttGaaagaattttttagtgcttg	7	5	0	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr7:92731019G>C	uc003umf.2	-	3	4648	c.4392C>G	c.(4390-4392)TTC>TTG	p.F1464L	SAMD9_uc003umg.2_Missense_Mutation_p.F1464L	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1464						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			ATTGCCCCTTGAAAGAATTTT	0.343													35	200	---	---	---	---	PASS	C	92731019	C	C	92731019	3	2	158	1	0	0	0	0	1	0	0	0	13826	1281	45	2	381	2	SAMD9	7	92731019	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	90029671	92731019	66407644	71	56240										
LAMB1	3912	broad.mit.edu	37	chr7	107599767	107599767	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cactgggtcgcagtcatcggCgtggccattgcactggcagg	15	12	1	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr7:107599767C>A	uc003vew.2	-	20	2952	c.2617G>T	c.(2617-2619)GCC>TCC	p.A873S	LAMB1_uc003vev.2_Missense_Mutation_p.A897S	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	873	Laminin EGF-like 8.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAGTCATCGGCGTGGCCATTG	0.557													41	203	---	---	---	---	PASS	A	107599767	A	A	107599767	3	1	158	1	0	0	0	0	1	0	0	0	8610	768	27	1	2803	1	LAMB1	7	107599767	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	14868748	107599767	51538896	72	56241										
LAMB1	3912	broad.mit.edu	37	chr7	107615434	107615434	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aatgaggatttacttaccagGcactggtcacaatgctgtcc	9	10	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr7:107615434G>A	uc003vew.2	-	12	1814	c.1479C>T	c.(1477-1479)TGC>TGT	p.C493C	LAMB1_uc003vev.2_Silent_p.C517C|LAMB1_uc003vex.2_Silent_p.C493C|LAMB1_uc010ljn.1_Silent_p.C579C	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	493	Laminin EGF-like 4.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TACTTACCAGGCACTGGTCAC	0.498													27	114	---	---	---	---	PASS	A	107615434	A	A	107615434	2	1	158	1	0	0	0	0	0	0	0	1	8610	1195	42	3		3	LAMB1	7	107615434	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	15667	107615434	51523229	73	56242										
LMOD2	442721	broad.mit.edu	37	chr7	123302662	123302662	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttttgaactcccaggaccaaGaatgagcatgacgagcattt	9	9	0	4			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr7:123302662G>C	uc003vky.2	+	2	1179	c.1022G>C	c.(1021-1023)AGA>ACA	p.R341T		NM_207163	NP_997046	Q6P5Q4	LMOD2_HUMAN	leiomodin 2 (cardiac)	341						cytoskeleton	actin binding|tropomyosin binding				0						CCAGGACCAAGAATGAGCATG	0.483													5	183	---	---	---	---	PASS	C	123302662	C	C	123302662	3	2	158	1	0	0	0	0	1	0	0	0	8857	942	33	2	1028	2	LMOD2	7	123302662	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	15687228	123302662	35836001	74	56243										
PLXNA4	91584	broad.mit.edu	37	chr7	131853158	131853158	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	acatcagtggcgtactccagCttgctctgcagcacggtcat	10	13	3	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr7:131853158C>G	uc003vra.3	-	22	4420	c.4191G>C	c.(4189-4191)AAG>AAC	p.K1397N		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1397	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CGTACTCCAGCTTGCTCTGCA	0.587													13	43	---	---	---	---	PASS	G	131853158	G	G	131853158	3	3	158	1	0	0	0	0	1	0	0	0	12122	796	28	4	1537	4	PLXNA4	7	131853158	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	8550496	131853158	27285505	75	56244										
MKRN1	23608	broad.mit.edu	37	chr7	140154376	140154376	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aaacaagtcccactcatcttCagagtctgttagttcgtcgt	7	11	4	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr7:140154376C>T	uc003vvt.2	-	8	1615	c.1390G>A	c.(1390-1392)GAA>AAA	p.E464K	MKRN1_uc003vvs.2_Missense_Mutation_p.E400K|MKRN1_uc011krd.1_Missense_Mutation_p.E198K	NM_013446	NP_038474	Q9UHC7	MKRN1_HUMAN	makorin ring finger protein 1 isoform 1	464							ligase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.00956)					CACTCATCTTCAGAGTCTGTT	0.488													12	65	---	---	---	---	PASS	T	140154376	T	T	140154376	3	4	158	1	0	0	0	0	1	0	0	0	9606	835	29	2	62	2	MKRN1	7	140154376	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	8301218	140154376	18984287	76	56245										
MLL3	58508	broad.mit.edu	37	chr7	151960110	151960110	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aaacaacttactttgcatttCcagccattggttggtactga	7	9	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr7:151960110C>G	uc003wla.2	-	9	1509	c.1290G>C	c.(1288-1290)TGG>TGC	p.W430C		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	430	PHD-type 2.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CTTTGCATTTCCAGCCATTGG	0.348			N		medulloblastoma								37	159	---	---	---	---	PASS	G	151960110	G	G	151960110	3	3	158	1	0	0	0	0	1	0	0	0	9622	856	30	2	13649	2	MLL3	7	151960110	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	11805734	151960110	7178553	77	56246										
CSMD1	64478	broad.mit.edu	37	chr8	2796131	2796131	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	accactgtacagactgtgttCagagttgtgtcaaacctcac	8	11	3	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr8:2796131C>T	uc011kwk.1	-	70	11064	c.10674G>A	c.(10672-10674)CTG>CTA	p.L3558L	CSMD1_uc011kwj.1_Silent_p.L2872L|CSMD1_uc010lrg.2_Silent_p.L1449L	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3558	Cytoplasmic (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)		AGACTGTGTTCAGAGTTGTGT	0.458													5	40	---	---	---	---	PASS	T	2796131	T	T	2796131	2	4	158	1	0	0	0	0	0	0	0	1	3944	813	29	2		2	CSMD1	8	2796131	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08		2796131	143567891	78	56247										
CSMD1	64478	broad.mit.edu	37	chr8	2830790	2830790	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cgagacccatgtgctggggtCcccggatcaccacagaatcc	11	15	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr8:2830790C>G	uc011kwk.1	-	57	9165	c.8775G>C	c.(8773-8775)GGG>GGC	p.G2925G	CSMD1_uc011kwj.1_Silent_p.G2254G|CSMD1_uc010lrg.2_Silent_p.G935G	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2925	Extracellular (Potential).|Sushi 22.					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)		GTGCTGGGGTCCCCGGATCAC	0.483													48	279	---	---	---	---	PASS	G	2830790	G	G	2830790	2	3	158	1	0	0	0	0	0	0	0	1	3944	842	30	2		2	CSMD1	8	2830790	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	34659	2830790	143533232	79	56248										
XKR5	389610	broad.mit.edu	37	chr8	6690416	6690416	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tgaagtagtaagccacggtgTaaaggcctgggtgagaaggg	17	5	0	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr8:6690416T>A	uc003wqp.2	-	2	87	c.65A>T	c.(64-66)TAC>TTC	p.Y22F	XKR5_uc003wqq.2_5'UTR|XKR5_uc003wqr.1_RNA	NM_207411	NP_997294	Q6UX68	XKR5_HUMAN	XK-related protein 5a	22						integral to membrane					0			STAD - Stomach adenocarcinoma(24;0.0984)	READ - Rectum adenocarcinoma(644;0.137)|COAD - Colon adenocarcinoma(149;0.166)		AGCCACGGTGTAAAGGCCTGG	0.532													12	15	---	---	---	---	PASS	A	6690416	A	A	6690416	3	1	158	1	0	0	0	0	1	0	0	0	17431	1638	57	5	2020	5	XKR5	8	6690416	Missense_Mutation	SNP	T	TCGA-66-2778-01A-02D-1522-08	3859626	6690416	139673606	80	56249										
GPR124	25960	broad.mit.edu	37	chr8	37686463	37686463	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ggcgccttcctgggcctgggGgagctgaagcgtttgtgagt	18	9	0	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr8:37686463G>A	uc003xkj.2	+	3	759	c.396G>A	c.(394-396)GGG>GGA	p.G132G	GPR124_uc003xki.2_Silent_p.G132G|GPR124_uc010lvy.2_Silent_p.G132G	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	132	Extracellular (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			TGGGCCTGGGGGAGCTGAAGC	0.667													6	66	---	---	---	---	PASS	A	37686463	A	A	37686463	2	1	158	1	0	0	0	0	0	0	0	1	6638	1219	43	3		3	GPR124	8	37686463	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	30996047	37686463	108677559	81	56250										
STAR	6770	broad.mit.edu	37	chr8	38005810	38005810	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ctgctggagataggccagctCctggtcactgtagagagtct	13	10	2	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr8:38005810C>T	uc003xkv.1	-	3	478	c.214G>A	c.(214-216)GAG>AAG	p.E72K	STAR_uc010lwc.1_Missense_Mutation_p.E34K	NM_001007243	NP_001007244	P49675	STAR_HUMAN	steroidogenic acute regulatory protein isoform	72	START.				C21-steroid hormone biosynthetic process	mitochondrial intermembrane space	cholesterol transporter activity			ovary(1)	1	Colorectal(12;0.000442)	all_lung(54;0.0151)|Lung NSC(58;0.0295)		READ - Rectum adenocarcinoma(644;0.188)		TAGGCCAGCTCCTGGTCACTG	0.572													9	26	---	---	---	---	PASS	T	38005810	T	T	38005810	3	4	158	1	0	0	0	0	1	0	0	0	15253	864	30	2	663	2	STAR	8	38005810	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	319347	38005810	108358212	82	56251										
ZFHX4	79776	broad.mit.edu	37	chr8	77765105	77765105	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	agcgctagaaaaatttgctcGtcaatacagggaggcctatg	11	8	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr8:77765105G>A	uc003yav.2	+	10	6200	c.5813G>A	c.(5812-5814)CGT>CAT	p.R1938H	ZFHX4_uc003yau.1_Missense_Mutation_p.R1983H|ZFHX4_uc003yaw.1_Missense_Mutation_p.R1938H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1938						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAATTTGCTCGTCAATACAGG	0.299										HNSCC(33;0.089)			21	41	---	---	---	---	PASS	A	77765105	A	A	77765105	3	1	158	1	0	0	0	0	1	0	0	0	17632	1145	40	1	5982	1	ZFHX4	8	77765105	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	39759295	77765105	68598917	83	56252										
RNF19A	25897	broad.mit.edu	37	chr8	101287334	101287334	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aaactctgttccacagccctCtcgcccacaagttaattttg	5	14	2	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr8:101287334C>G	uc003yjj.1	-	4	1047	c.730G>C	c.(730-732)GAG>CAG	p.E244Q	RNF19A_uc003yjk.1_Missense_Mutation_p.E244Q	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	244	IBR-type.				microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)			CCACAGCCCTCTCGCCCACAA	0.433													22	141	---	---	---	---	PASS	G	101287334	G	G	101287334	3	3	158	1	0	0	0	0	1	0	0	0	13470	922	32	2	1818	2	RNF19A	8	101287334	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	23522229	101287334	45076688	84	56253										
CSMD3	114788	broad.mit.edu	37	chr8	113697923	113697923	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tgggtaatcaggagaaagaaCtgttcccattggtgcagtaa	12	6	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr8:113697923C>G	uc003ynu.2	-	15	2353	c.2194G>C	c.(2194-2196)GTT>CTT	p.V732L	CSMD3_uc003yns.2_Missense_Mutation_p.V4L|CSMD3_uc003ynt.2_Missense_Mutation_p.V692L|CSMD3_uc011lhx.1_Missense_Mutation_p.V628L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	732	Extracellular (Potential).|CUB 4.					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						GGAGAAAGAACTGTTCCCATT	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			68	147	---	---	---	---	PASS	G	113697923	G	G	113697923	3	3	158	1	0	0	0	0	1	0	0	0	3946	565	20	4	9157	4	CSMD3	8	113697923	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	12410589	113697923	32666099	85	56254										
PTPRD	5789	broad.mit.edu	37	chr9	8485848	8485848	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gagcacgtacttttacatcgTatgtggtatctggttttaag	10	6	1	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr9:8485848T>A	uc003zkk.2	-	27	3680	c.2969A>T	c.(2968-2970)TAC>TTC	p.Y990F	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Missense_Mutation_p.Y981F|PTPRD_uc003zkm.2_Missense_Mutation_p.Y977F|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	990	Fibronectin type-III 7.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TTTTACATCGTATGTGGTATC	0.488										TSP Lung(15;0.13)			12	71	---	---	---	---	PASS	A	8485848	A	A	8485848	3	1	158	1	0	0	0	0	1	0	0	0	12799	1638	57	5	2913	5	PTPRD	9	8485848	Missense_Mutation	SNP	T	TCGA-66-2778-01A-02D-1522-08		8485848	132727583	86	56255										
SPINK4	27290	broad.mit.edu	37	chr9	33246680	33246680	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ccaacctggtctgcggcactGatgggctcacatatacgaat	10	12	2	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr9:33246680G>C	uc003zsh.2	+	3	180	c.169G>C	c.(169-171)GAT>CAT	p.D57H	SUGT1P1_uc010mjq.1_Intron	NM_014471	NP_055286	O60575	ISK4_HUMAN	serine peptidase inhibitor, Kazal type 4	57	Kazal-like.					extracellular region	serine-type endopeptidase inhibitor activity				0			LUSC - Lung squamous cell carcinoma(29;0.00506)			CTGCGGCACTGATGGGCTCAC	0.572													33	262	---	---	---	---	PASS	C	33246680	C	C	33246680	3	2	158	1	0	0	0	0	1	0	0	0	15060	1290	45	2	179	2	SPINK4	9	33246680	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	24760832	33246680	107966751	87	56256										
FRMPD1	22844	broad.mit.edu	37	chr9	37746211	37746211	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tgcaccaccgcacccctgtcGaggaaaagccacatctggcc	9	17	1	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr9:37746211G>A	uc004aag.1	+	16	4226	c.4182G>A	c.(4180-4182)TCG>TCA	p.S1394S	FRMPD1_uc004aah.1_Silent_p.S1394S	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1394						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		CACCCCTGTCGAGGAAAAGCC	0.657													6	70	---	---	---	---	PASS	A	37746211	A	A	37746211	2	1	158	1	0	0	0	0	0	0	0	1	6057	1045	37	2		2	FRMPD1	9	37746211	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	4499531	37746211	103467220	88	56257										
OR2K2	26248	broad.mit.edu	37	chr9	114089856	114089856	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tttcttaaactgtaaattatGgggttcaacataggggtaag	10	4	2	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr9:114089856G>A	uc011lwp.1	-	1	858	c.858C>T	c.(856-858)CCC>CCT	p.P286P		NM_205859	NP_995581	Q8NGT1	OR2K2_HUMAN	olfactory receptor, family 2, subfamily K,	315	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TGTAAATTATGGGGTTCAACA	0.388													34	129	---	---	---	---	PASS	A	114089856	A	A	114089856	2	1	158	1	0	0	0	0	0	0	0	1	11005	1335	47	3		3	OR2K2	9	114089856	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	76343645	114089856	27123575	89	56258										
C10orf18	54906	broad.mit.edu	37	chr10	5772786	5772786	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tgcttacattttggaagtgtCtactgctttggacttgctag	10	7	1	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr10:5772786C>G	uc001iij.2	+	11	1449	c.824C>G	c.(823-825)TCT>TGT	p.S275C	C10orf18_uc001iik.2_5'UTR	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	275										ovary(1)|central_nervous_system(1)	2						TTGGAAGTGTCTACTGCTTTG	0.423													26	587	---	---	---	---	PASS	G	5772786	G	G	5772786	3	3	158	1	0	0	0	0	1	0	0	0	1596	913	32	2	854	2	C10orf18	10	5772786	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08		5772786	129761961	90	56259										
DHTKD1	55526	broad.mit.edu	37	chr10	12142178	12142178	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cttcctctgaattttacagtCcagaatggagaagatgatgg	10	7	1	5			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr10:12142178C>G	uc001ild.3	+	9	1772	c.1673C>G	c.(1672-1674)TCC>TGC	p.S558C		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	558					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			ATTTTACAGTCCAGAATGGAG	0.353													44	319	---	---	---	---	PASS	G	12142178	G	G	12142178	3	3	158	1	0	0	0	0	1	0	0	0	4500	869	30	2	1707	2	DHTKD1	10	12142178	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	6369392	12142178	123392569	91	56260										
PHYH	5264	broad.mit.edu	37	chr10	13330464	13330464	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gtgctccatcgccgtccaggCgcaaacgatgagatcgctgg	13	13	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr10:13330464C>T	uc001imf.2	-	6	662	c.574G>A	c.(574-576)GCC>ACC	p.A192T	PHYH_uc001ime.2_Missense_Mutation_p.A92T|PHYH_uc001img.2_Missense_Mutation_p.A175T	NM_006214	NP_006205	O14832	PAHX_HUMAN	phytanoyl-CoA 2-hydroxylase isoform a precursor	192			A -> AA (in RD).		fatty acid alpha-oxidation|nervous system development	peroxisomal matrix	electron carrier activity|L-ascorbic acid binding|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|phytanoyl-CoA dioxygenase activity|protein binding				0		Ovarian(717;0.0448)			Antihemophilic Factor(DB00025)|Vitamin C(DB00126)	GCCGTCCAGGCGCAAACGATG	0.582													31	125	---	---	---	---	PASS	T	13330464	T	T	13330464	3	4	158	1	0	0	0	0	1	0	0	0	11864	768	27	1	458	1	PHYH	10	13330464	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	1188286	13330464	122204283	92	56261										
WAC	51322	broad.mit.edu	37	chr10	28900789	28900789	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ctccaagaataagcacacctCaaactaacacagtccctatc	3	15	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr10:28900789C>G	uc001iuf.2	+	10	1460	c.1375C>G	c.(1375-1377)CAA>GAA	p.Q459E	WAC_uc001iud.2_Missense_Mutation_p.Q414E|WAC_uc001iue.2_Missense_Mutation_p.Q149E|WAC_uc001iug.2_Missense_Mutation_p.Q356E|WAC_uc001iuh.2_Missense_Mutation_p.Q411E	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	459					cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						AAGCACACCTCAAACTAACAC	0.433													20	282	---	---	---	---	PASS	G	28900789	G	G	28900789	3	3	158	1	0	0	0	0	1	0	0	0	17244	827	29	2	1413	2	WAC	10	28900789	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	15570325	28900789	106633958	93	56262										
RGR	5995	broad.mit.edu	37	chr10	86017684	86017684	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ccagcaaggacgctgctgctCggctggggcccctatgccat	13	15	0	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr10:86017684C>A	uc001kdc.1	+	6	704	c.666C>A	c.(664-666)CTC>CTA	p.L222L	RGR_uc001kdd.1_Silent_p.L226L|RGR_uc001kde.1_Intron	NM_001012720	NP_001012738	P47804	RGR_HUMAN	retinal G-protein coupled receptor isoform 2	222	Helical; Name=6; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity|protein binding			ovary(1)	1						CGCTGCTGCTCGGCTGGGGCC	0.547													30	80	---	---	---	---	PASS	A	86017684	A	A	86017684	2	1	158	1	0	0	0	0	0	0	0	1	13291	871	31	2		2	RGR	10	86017684	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	57116895	86017684	49517063	94	56263										
C10orf79	80217	broad.mit.edu	37	chr10	105906076	105906076	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tgcacacatccaggtcttctCtagatttccgaacagcttct	6	13	3	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr10:105906076C>G	uc001kxw.2	-	30	3916	c.3800G>C	c.(3799-3801)AGA>ACA	p.R1267T	C10orf79_uc009xxq.2_Intron	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1267											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		CAGGTCTTCTCTAGATTTCCG	0.413													10	184	---	---	---	---	PASS	G	105906076	G	G	105906076	3	3	158	1	0	0	0	0	1	0	0	0	1618	913	32	2	1233	2	C10orf79	10	105906076	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	19888392	105906076	29628671	95	56264										
TPH1	7166	broad.mit.edu	37	chr11	18062260	18062260	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aggaaaaaatgagacttgctCttcccctttctaaggaatgg	9	8	2	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:18062260C>G	uc001mnp.2	-	1	76	c.50G>C	c.(49-51)AGA>ACA	p.R17T	TPH1_uc009yhe.2_RNA	NM_004179	NP_004170	P17752	TPH1_HUMAN	tryptophan hydroxylase 1	17					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity				0					L-Tryptophan(DB00150)|Tetrahydrobiopterin(DB00360)	GAGACTTGCTCTTCCCCTTTC	0.333													22	70	---	---	---	---	PASS	G	18062260	G	G	18062260	3	3	158	1	0	0	0	0	1	0	0	0	16398	913	32	2	1324	2	TPH1	11	18062260	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08		18062260	116944256	96	56265										
NELL1	4745	broad.mit.edu	37	chr11	20869208	20869208	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	atgggaagccaaggacagagGcacttccttaccgcatggca	12	11	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:20869208G>T	uc001mqe.2	+	4	568	c.415G>T	c.(415-417)GCA>TCA	p.A139S	NELL1_uc001mqf.2_Missense_Mutation_p.A139S|NELL1_uc009yid.2_Missense_Mutation_p.A167S|NELL1_uc010rdo.1_Intron|NELL1_uc010rdp.1_Intron	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	139	TSP N-terminal.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						AAGGACAGAGGCACTTCCTTA	0.478													10	51	---	---	---	---	PASS	T	20869208	T	T	20869208	3	4	158	1	0	0	0	0	1	0	0	0	10333	1203	42	3	429	3	NELL1	11	20869208	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	2806948	20869208	114137308	97	56266										
ZNF408	79797	broad.mit.edu	37	chr11	46726988	46726988	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	actccggagagaggccctttCcctgtccccagtgtggccgt	12	15	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:46726988C>T	uc001nde.1	+	5	1968	c.1738C>T	c.(1738-1740)CCC>TCC	p.P580S	ZNF408_uc010rgw.1_Missense_Mutation_p.P572S	NM_024741	NP_079017	Q9H9D4	ZN408_HUMAN	zinc finger protein 408	580	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding				0						GAGGCCCTTTCCCTGTCCCCA	0.672													11	54	---	---	---	---	PASS	T	46726988	T	T	46726988	3	4	158	1	0	0	0	0	1	0	0	0	17885	855	30	2	1788	2	ZNF408	11	46726988	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	25857780	46726988	88279528	98	56267										
CKAP5	9793	broad.mit.edu	37	chr11	46832582	46832582	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cagagtttatattttgtaatGggggtctcagagcatcccga	11	7	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:46832582G>T	uc001ndi.1	-	5	715	c.605C>A	c.(604-606)CCA>CAA	p.P202Q	CKAP5_uc009ylg.1_Missense_Mutation_p.P88Q|CKAP5_uc001ndj.1_Missense_Mutation_p.P202Q	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	202					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						ATTTTGTAATGGGGGTCTCAG	0.388													33	149	---	---	---	---	PASS	T	46832582	T	T	46832582	3	4	158	1	0	0	0	0	1	0	0	0	3445	1348	47	3	5653	3	CKAP5	11	46832582	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	105594	46832582	88173934	99	56268										
OR5AR1	219493	broad.mit.edu	37	chr11	56431560	56431560	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tgtcgacccctccactatagCaccttcatgtccaagcaggt	7	15	1	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:56431560C>A	uc010rjm.1	+	1	399	c.399C>A	c.(397-399)AGC>AGA	p.S133R		NM_001004730	NP_001004730	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR,	133	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCCACTATAGCACCTTCATGT	0.512													59	338	---	---	---	---	PASS	A	56431560	A	A	56431560	3	1	158	1	0	0	0	0	1	0	0	0	11145	709	25	3	401	3	OR5AR1	11	56431560	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	9598978	56431560	78574956	100	56269										
ZDHHC5	25921	broad.mit.edu	37	chr11	57464264	57464264	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttggccaaggacagccccccGacacctaccatgtacaagta	8	15	0	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:57464264G>A	uc001nkx.1	+	10	2297	c.1041G>A	c.(1039-1041)CCG>CCA	p.P347P	ZDHHC5_uc001nky.1_Silent_p.P294P|ZDHHC5_uc001nkz.1_Silent_p.P161P	NM_015457	NP_056272	Q9C0B5	ZDHC5_HUMAN	zinc finger, DHHC domain containing 5	347						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)	1						ACAGCCCCCCGACACCTACCA	0.458													15	69	---	---	---	---	PASS	A	57464264	A	A	57464264	2	1	158	1	0	0	0	0	0	0	0	1	17615	1045	37	2		2	ZDHHC5	11	57464264	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	1032704	57464264	77542252	101	56270										
OR5B12	390191	broad.mit.edu	37	chr11	58206915	58206915	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	taaggtgggaagcacaagtaGaaaaggccttctggcgtcct	13	8	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:58206915G>C	uc010rkh.1	-	1	710	c.710C>G	c.(709-711)TCT>TGT	p.S237C		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	237	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AGCACAAGTAGAAAAGGCCTT	0.418													5	120	---	---	---	---	PASS	C	58206915	C	C	58206915	3	2	158	1	0	0	0	0	1	0	0	0	11148	942	33	2	238	2	OR5B12	11	58206915	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	742651	58206915	76799601	102	56271										
SLC22A10	387775	broad.mit.edu	37	chr11	63058004	63058004	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gtgtggatggctgggtatatGatcaaagctacttcccttcg	12	8	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:63058004G>A	uc009yor.2	+	1	575	c.367G>A	c.(367-369)GAT>AAT	p.D123N	SLC22A10_uc010rmo.1_Intron|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_Missense_Mutation_p.D71N	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	123	Extracellular (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						CTGGGTATATGATCAAAGCTA	0.468													5	130	---	---	---	---	PASS	A	63058004	A	A	63058004	3	1	158	1	0	0	0	0	1	0	0	0	14441	1290	45	2	369	2	SLC22A10	11	63058004	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	4851089	63058004	71948512	103	56272										
FAM86C	55199	broad.mit.edu	37	chr11	71500881	71500881	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttctgagctgctgcgggataTtttgcagaaggtaagaattc	12	6	1	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:71500881T>C	uc001oqv.3	+	2	175	c.149T>C	c.(148-150)ATT>ACT	p.I50T	FAM86C_uc009ysr.2_Missense_Mutation_p.I50T|FAM86C_uc001oqw.3_Missense_Mutation_p.I50T|FAM86C_uc009yss.2_RNA|FAM86C_uc010rqq.1_RNA	NM_018172	NP_060642	Q9NVL1	FA86C_HUMAN	hypothetical protein LOC55199 isoform 1	50											0						CTGCGGGATATTTTGCAGAAG	0.493													16	114	---	---	---	---	PASS	C	71500881	C	C	71500881	3	2	158	1	0	0	0	0	1	0	0	0	5646	1493	52	5	155	5	FAM86C	11	71500881	Missense_Mutation	SNP	T	TCGA-66-2778-01A-02D-1522-08	8442877	71500881	63505635	104	56273										
FAT3	120114	broad.mit.edu	37	chr11	92533601	92533601	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aatgtgtctgtctctgatggGttgttcaccagcactgcaca	10	10	3	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:92533601G>A	uc001pdj.3	+	9	7439	c.7422G>A	c.(7420-7422)GGG>GGA	p.G2474G		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2474	Cadherin 22.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCTCTGATGGGTTGTTCACCA	0.498										TCGA Ovarian(4;0.039)			30	97	---	---	---	---	PASS	A	92533601	A	A	92533601	2	1	158	1	0	0	0	0	0	0	0	1	5691	1248	44	3		3	FAT3	11	92533601	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	21032720	92533601	42472915	105	56274										
BCO2	83875	broad.mit.edu	37	chr11	112065424	112065424	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	atggagcaactgcacatcctCattatgacctggatggaaca	9	10	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:112065424C>T	uc001pnf.2	+	5	799	c.682C>T	c.(682-684)CAT>TAT	p.H228Y	BCO2_uc001pne.1_Missense_Mutation_p.H55Y|BCO2_uc001png.2_Intron|BCO2_uc001pnh.2_Missense_Mutation_p.H194Y|BCO2_uc010rwt.1_Missense_Mutation_p.H123Y|BCO2_uc009yyn.2_Missense_Mutation_p.H194Y|BCO2_uc001pni.2_Missense_Mutation_p.H194Y	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	228					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TGCACATCCTCATTATGACCT	0.398													39	160	---	---	---	---	PASS	T	112065424	T	T	112065424	3	4	158	1	0	0	0	0	1	0	0	0	1385	826	29	2	700	2	BCO2	11	112065424	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	19531823	112065424	22941092	106	56275										
NFRKB	4798	broad.mit.edu	37	chr11	129758544	129758544	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ccaaagcggaagttctccccActgaacaaggctaagatgag	10	11	1	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:129758544A>C	uc001qfi.2	-	4	483	c.282T>G	c.(280-282)AGT>AGG	p.S94R	NFRKB_uc001qfg.2_Missense_Mutation_p.S107R|NFRKB_uc001qfh.2_Missense_Mutation_p.S117R|NFRKB_uc010sbw.1_Missense_Mutation_p.S94R	NM_001143835	NP_001137307	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein	94					DNA recombination|DNA repair|inflammatory response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Ino80 complex	DNA binding|protease binding			ovary(3)	3	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0167)|Lung(977;0.171)|LUSC - Lung squamous cell carcinoma(976;0.184)		AGTTCTCCCCACTGAACAAGG	0.498													28	159	---	---	---	---	PASS	C	129758544	C	C	129758544	3	2	158	1	0	0	0	0	1	0	0	0	10384	156	6	5	3749	5	NFRKB	11	129758544	Missense_Mutation	SNP	A	TCGA-66-2778-01A-02D-1522-08	17693120	129758544	5247972	107	56276										
OPCML	4978	broad.mit.edu	37	chr11	132307140	132307140	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tacagtgatttttactttccGcacatcgggcgcagcgacat	9	11	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr11:132307140G>T	uc001qgs.2	-	4	690	c.640C>A	c.(640-642)CGG>AGG	p.R214R	OPCML_uc001qgu.2_Silent_p.R207R|OPCML_uc010sck.1_Silent_p.R214R|OPCML_uc001qgt.2_Silent_p.R213R|OPCML_uc010scl.1_Silent_p.R173R	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	214	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		TTTACTTTCCGCACATCGGGC	0.537													22	188	---	---	---	---	PASS	T	132307140	T	T	132307140	2	4	158	1	0	0	0	0	0	0	0	1	10874	1086	38	1		1	OPCML	11	132307140	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	2548596	132307140	2699376	108	56277										
KDM5A	5927	broad.mit.edu	37	chr12	475139	475139	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tggaaaagctcatatgggtaGagaattctttcataatgtga	10	4	3	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr12:475139G>C	uc001qif.1	-	4	861	c.498C>G	c.(496-498)CTC>CTG	p.L166L	KDM5A_uc001qie.1_Silent_p.L166L|KDM5A_uc010sdn.1_Silent_p.L125L|KDM5A_uc010sdo.1_Intron	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	166	ARID.				chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						CATATGGGTAGAGAATTCTTT	0.393			T 	NUP98	AML								80	395	---	---	---	---	PASS	C	475139	C	C	475139	2	2	158	1	0	0	0	0	0	0	0	1	8133	929	33	2		2	KDM5A	12	475139	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08		475139	133376756	109	56278										
KDM5A	5927	broad.mit.edu	37	chr12	475168	475168	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttcataatgtgacttcaaaaGagacccagttccttttcctg	6	10	2	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr12:475168G>C	uc001qif.1	-	4	832	c.469C>G	c.(469-471)CTT>GTT	p.L157V	KDM5A_uc001qie.1_Missense_Mutation_p.L157V|KDM5A_uc010sdn.1_Missense_Mutation_p.L116V|KDM5A_uc010sdo.1_Intron	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	157	ARID.				chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						GACTTCAAAAGAGACCCAGTT	0.408			T 	NUP98	AML								99	515	---	---	---	---	PASS	C	475168	C	C	475168	3	2	158	1	0	0	0	0	1	0	0	0	8133	942	33	2	4703	2	KDM5A	12	475168	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	29	475168	133376727	110	56279										
PLCZ1	89869	broad.mit.edu	37	chr12	18841147	18841147	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	agaggcaactggataccactGatgagctgcacaaatatata	9	8	0	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr12:18841147G>A	uc010sid.1	-	13	1658	c.1467C>T	c.(1465-1467)ATC>ATT	p.I489I	PLCZ1_uc001rdv.3_Silent_p.I385I|PLCZ1_uc001rdw.3_Silent_p.I230I|PLCZ1_uc001rdu.1_Silent_p.I271I|PLCZ1_uc009zil.1_RNA	NM_033123	NP_149114	Q86YW0	PLCZ1_HUMAN	phospholipase C, zeta 1	489	C2.			I -> T (in Ref. 2; AAK61372).	intracellular signal transduction|lipid catabolic process|multicellular organismal development	nucleus|perinuclear region of cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)					GGATACCACTGATGAGCTGCA	0.294													42	209	---	---	---	---	PASS	A	18841147	A	A	18841147	2	1	158	1	0	0	0	0	0	0	0	1	12044	1280	45	2		2	PLCZ1	12	18841147	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	18365979	18841147	115010748	111	56280										
H1FNT	341567	broad.mit.edu	37	chr12	48723703	48723703	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	agccaaggaggaagcgggagCgacagcggcagacgaggggc	20	9	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr12:48723703C>A	uc001rrm.2	+	1	941	c.629C>A	c.(628-630)GCG>GAG	p.A210E		NM_181788	NP_861453	Q75WM6	H1FNT_HUMAN	H1 histone family, member N, testis-specific	210					chromosome condensation|multicellular organismal development|sperm chromatin condensation|spermatid nucleus elongation	nuclear chromatin	ATP binding|DNA binding			pancreas(1)	1						GAAGCGGGAGCGACAGCGGCA	0.662													7	9	---	---	---	---	PASS	A	48723703	A	A	48723703	3	1	158	1	0	0	0	0	1	0	0	0	6921	768	27	1	631	1	H1FNT	12	48723703	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	29882556	48723703	85128192	112	56281										
FREM2	341640	broad.mit.edu	37	chr13	39266156	39266156	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ctccttttgagctcactgtcGaagacagagatactcctgac	8	12	1	4			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr13:39266156G>A	uc001uwv.2	+	1	4984	c.4675G>A	c.(4675-4677)GAA>AAA	p.E1559K		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1559	Extracellular (Potential).|CSPG 11.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GCTCACTGTCGAAGACAGAGA	0.443													39	122	---	---	---	---	PASS	A	39266156	A	A	39266156	3	1	158	1	0	0	0	0	1	0	0	0	6045	1059	37	2	4677	2	FREM2	13	39266156	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08		39266156	75903722	113	56282										
MYCBP2	23077	broad.mit.edu	37	chr13	77657221	77657221	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ggagagacatcataaggtctGagatggtctgcagcaagcgg	15	7	3	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr13:77657221G>A	uc001vkf.2	-	64	10959	c.10868C>T	c.(10867-10869)TCA>TTA	p.S3623L	MYCBP2_uc010aev.2_Missense_Mutation_p.S3027L|MYCBP2_uc001vke.2_Missense_Mutation_p.S243L	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3623					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CATAAGGTCTGAGATGGTCTG	0.473													43	116	---	---	---	---	PASS	A	77657221	A	A	77657221	3	1	158	1	0	0	0	0	1	0	0	0	10018	1294	45	2	3138	2	MYCBP2	13	77657221	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	38391065	77657221	37512657	114	56283										
RNF219	79596	broad.mit.edu	37	chr13	79213126	79213126	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	accaaggttaaaggatccagAatagttttgatctgtgactc	9	7	1	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr13:79213126A>G	uc001vkw.1	-	4	440	c.381T>C	c.(379-381)ATT>ATC	p.I127I	RNF219_uc010afb.1_5'UTR|RNF219_uc010afc.2_Silent_p.I127I	NM_024546	NP_078822	Q5W0B1	RN219_HUMAN	ring finger protein 219	127	Potential.						zinc ion binding			large_intestine(2)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.0414)		AAGGATCCAGAATAGTTTTGA	0.373													61	188	---	---	---	---	PASS	G	79213126	G	G	79213126	2	3	158	1	0	0	0	0	0	0	0	1	13482	242	9	5		5	RNF219	13	79213126	Silent	SNP	A	TCGA-66-2778-01A-02D-1522-08	1555905	79213126	35956752	115	56284										
KLHL28	54813	broad.mit.edu	37	chr14	45400541	45400541	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ataaattcttattacctgttCtaggttctttcattggtcta	5	7	5	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr14:45400541C>G	uc001wvq.2	-	4	1793	c.1547G>C	c.(1546-1548)AGA>ACA	p.R516T	KLHL28_uc001wvr.2_Missense_Mutation_p.R516T	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	516	Kelch 5.									ovary(1)	1						ATTACCTGTTCTAGGTTCTTT	0.358													13	61	---	---	---	---	PASS	G	45400541	G	G	45400541	3	3	158	1	0	0	0	0	1	0	0	0	8382	913	32	2	176	2	KLHL28	14	45400541	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08		45400541	61948999	116	56285										
FANCM	57697	broad.mit.edu	37	chr14	45645812	45645812	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gcactaataccaagagatcaTagtaaaaattttactagtgg	7	6	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr14:45645812T>C	uc001wwd.3	+	14	3954	c.3855T>C	c.(3853-3855)CAT>CAC	p.H1285H	FANCM_uc010anf.2_Silent_p.H1259H|FANCM_uc001wwe.3_Silent_p.H821H|FANCM_uc010ang.2_Silent_p.H499H	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1285					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						CAAGAGATCATAGTAAAAATT	0.328								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				25	107	---	---	---	---	PASS	C	45645812	C	C	45645812	2	2	158	1	0	0	0	0	0	0	0	1	5671	1403	49	5		5	FANCM	14	45645812	Silent	SNP	T	TCGA-66-2778-01A-02D-1522-08	245271	45645812	61703728	117	56286										
KLHDC2	23588	broad.mit.edu	37	chr14	50247037	50247037	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttaccactgataaacagccaCtaagtaagtccttgaaaaat	5	9	0	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr14:50247037C>T	uc001wwx.2	+	9	1280	c.880C>T	c.(880-882)CTA>TTA	p.L294L	SDCCAG1_uc010anj.1_Intron|KLHDC2_uc001wwy.2_Silent_p.L294L|KLHDC2_uc010anp.2_Silent_p.L294L	NM_014315	NP_055130	Q9Y2U9	KLDC2_HUMAN	kelch domain containing 2	294	Kelch 5.					nucleus	protein binding			ovary(1)	1	all_epithelial(31;0.000959)|Breast(41;0.0117)					TAAACAGCCACTAAGTAAGTC	0.368													29	92	---	---	---	---	PASS	T	50247037	T	T	50247037	2	4	158	1	0	0	0	0	0	0	0	1	8356	564	20	3		3	KLHDC2	14	50247037	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	4601225	50247037	57102503	118	56287										
DCAF5	8816	broad.mit.edu	37	chr14	69521476	69521476	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tggtgatgcccggcttggttGaatctctagcgtggaagtgc	15	8	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr14:69521476G>A	uc001xkp.2	-	9	2146	c.1927C>T	c.(1927-1929)CAA>TAA	p.Q643*	DCAF5_uc001xkq.2_Nonsense_Mutation_p.Q642*	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	643						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						CGGCTTGGTTGAATCTCTAGC	0.473													10	135	---	---	---	---	PASS	A	69521476	A	A	69521476	4	1	158	1	0	0	0	0	0	1	0	0	4273	1299	45	2	905	2	DCAF5	14	69521476	Nonsense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	19274439	69521476	37828064	119	56288										
SPATA7	55812	broad.mit.edu	37	chr14	88883116	88883116	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gcacaatgtgaaaaagagttCaaattaactaaaactgcaat	6	6	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr14:88883116C>G	uc001xwq.2	+	5	451	c.300C>G	c.(298-300)TTC>TTG	p.F100L	SPATA7_uc001xwr.2_Missense_Mutation_p.F68L|SPATA7_uc001xws.2_Missense_Mutation_p.F36L|SPATA7_uc001xwt.2_5'UTR	NM_018418	NP_060888	Q9P0W8	SPAT7_HUMAN	spermatogenesis-associated protein 7 isoform a	100					response to stimulus|visual perception					ovary(1)	1						AAAAAGAGTTCAAATTAACTA	0.279													5	92	---	---	---	---	PASS	G	88883116	G	G	88883116	3	3	158	1	0	0	0	0	1	0	0	0	15013	825	29	2	318	2	SPATA7	14	88883116	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	19361640	88883116	18466424	120	56289										
CATSPERB	79820	broad.mit.edu	37	chr14	92091277	92091277	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	caaagggctctttcatttctGcaataactgaggacaaaaat	7	8	3	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr14:92091277G>T	uc001xzs.1	-	18	1957	c.1817C>A	c.(1816-1818)GCA>GAA	p.A606E	CATSPERB_uc010aub.1_Missense_Mutation_p.A128E	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	606					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				TTTCATTTCTGCAATAACTGA	0.343													19	113	---	---	---	---	PASS	T	92091277	T	T	92091277	3	4	158	1	0	0	0	0	1	0	0	0	2691	1319	46	3	1573	3	CATSPERB	14	92091277	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	3208161	92091277	15258263	121	56290										
SERPINA11	256394	broad.mit.edu	37	chr14	94914713	94914713	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gagtttcctacttttagttcGagtttggggctgggcagggc	15	7	0	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr14:94914713G>C	uc001ydd.1	-	2	459	c.399C>G	c.(397-399)CTC>CTG	p.L133L		NM_001080451	NP_001073920	Q86U17	SPA11_HUMAN	serpin peptidase inhibitor, clade A (alpha-1	133					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			kidney(1)	1				COAD - Colon adenocarcinoma(157;0.211)		CTTTTAGTTCGAGTTTGGGGC	0.537													52	264	---	---	---	---	PASS	C	94914713	C	C	94914713	2	2	158	1	0	0	0	0	0	0	0	1	14088	1045	37	2		2	SERPINA11	14	94914713	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	2823436	94914713	12434827	122	56291										
ATP10A	57194	broad.mit.edu	37	chr15	25947152	25947152	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gacagctgtttcttgtttgtCaccagtgagaacccaaatct	8	10	3	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr15:25947152C>T	uc010ayu.2	-	13	2777	c.2671G>A	c.(2671-2673)GAC>AAC	p.D891N		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	891	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TCTTGTTTGTCACCAGTGAGA	0.532													6	236	---	---	---	---	PASS	T	25947152	T	T	25947152	3	4	158	1	0	0	0	0	1	0	0	0	1116	826	29	2	1864	2	ATP10A	15	25947152	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08		25947152	76584240	123	56292										
RYR3	6263	broad.mit.edu	37	chr15	34034598	34034598	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ctgaaaaattggaatacatcGtcaccaagtatgctgagcat	8	8	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr15:34034598G>A	uc001zhi.2	+	52	7922	c.7852G>A	c.(7852-7854)GTC>ATC	p.V2618I	RYR3_uc010bar.2_Missense_Mutation_p.V2618I	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2618	3.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGAATACATCGTCACCAAGTA	0.413													11	67	---	---	---	---	PASS	A	34034598	A	A	34034598	3	1	158	1	0	0	0	0	1	0	0	0	13770	1145	40	1	8058	1	RYR3	15	34034598	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	8087446	34034598	68496794	124	56293										
SLC12A6	9990	broad.mit.edu	37	chr15	34551037	34551037	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ggtgggcttctttttcccttCagtgatgttttctgcctctt	9	10	4	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr15:34551037C>T	uc001zhw.2	-	4	684	c.520G>A	c.(520-522)GAA>AAA	p.E174K	SLC12A6_uc001zhv.2_Missense_Mutation_p.E123K|SLC12A6_uc001zhx.2_Missense_Mutation_p.E159K|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.E115K|SLC12A6_uc001zib.2_Missense_Mutation_p.E165K|SLC12A6_uc001zic.2_Missense_Mutation_p.E174K|SLC12A6_uc010bau.2_Missense_Mutation_p.E174K|SLC12A6_uc001zid.2_Missense_Mutation_p.E115K|SLC12A6_uc001zhu.2_Missense_Mutation_p.E35K	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	174	Cytoplasmic (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	TTTTTCCCTTCAGTGATGTTT	0.453													65	375	---	---	---	---	PASS	T	34551037	T	T	34551037	3	4	158	1	0	0	0	0	1	0	0	0	14387	835	29	2	3020	2	SLC12A6	15	34551037	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	516439	34551037	67980355	125	56294										
C15orf52	388115	broad.mit.edu	37	chr15	40627419	40627419	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ctcacacctgctgtgcctctCgacctttggctgcctcctct	7	18	3	0	rs144372797		TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr15:40627419C>G	uc001zlh.3	-	11	1561	c.1545G>C	c.(1543-1545)TCG>TCC	p.S515S	C15orf52_uc010ucn.1_Silent_p.S305S	NM_207380	NP_997263	Q6ZUT6	CO052_HUMAN	hypothetical protein LOC388115	515										large_intestine(1)	1		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.06e-06)|Colorectal(105;0.0107)|BRCA - Breast invasive adenocarcinoma(123;0.0505)|READ - Rectum adenocarcinoma(2;0.0649)|Lung(196;0.0781)|LUAD - Lung adenocarcinoma(183;0.0841)		CTGTGCCTCTCGACCTTTGGC	0.692													76	343	---	---	---	---	PASS	G	40627419	G	G	40627419	2	3	158	1	0	0	0	0	0	0	0	1	1800	871	31	2		2	C15orf52	15	40627419	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	6076382	40627419	61903973	126	56295										
GATM	2628	broad.mit.edu	37	chr15	45658353	45658353	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	taaaggagatgatatgcactCtgtagtctggagcaagatgc	12	6	2	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr15:45658353C>T	uc001zvc.2	-	6	1198	c.869G>A	c.(868-870)AGA>AAA	p.R290K	GATM_uc001zvb.2_Missense_Mutation_p.R161K|GATM_uc010uev.1_Missense_Mutation_p.R343K	NM_001482	NP_001473	P50440	GATM_HUMAN	L-arginine:glycine amidinotransferase precursor	290					creatine biosynthetic process	mitochondrial inner membrane|mitochondrial intermembrane space	glycine amidinotransferase activity|protein binding				0		all_cancers(109;1.25e-09)|all_epithelial(112;5.56e-08)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;4.87e-16)|GBM - Glioblastoma multiforme(94;1.97e-06)	Creatine(DB00148)|Glycine(DB00145)|L-Ornithine(DB00129)	GATATGCACTCTGTAGTCTGG	0.413													21	92	---	---	---	---	PASS	T	45658353	T	T	45658353	3	4	158	1	0	0	0	0	1	0	0	0	6263	913	32	2	418	2	GATM	15	45658353	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	5030934	45658353	56873039	127	56296										
AP4E1	23431	broad.mit.edu	37	chr15	51242119	51242119	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gatattcccaataactttctGagactactagcggaaggttg	9	8	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr15:51242119G>C	uc001zyx.1	+	12	1443	c.1413G>C	c.(1411-1413)CTG>CTC	p.L471L		NM_007347	NP_031373	Q9UPM8	AP4E1_HUMAN	adaptor-related protein complex 4, epsilon 1	471					intracellular protein transport|vesicle-mediated transport	COPI vesicle coat	binding|structural molecule activity				0				all cancers(107;0.000893)|GBM - Glioblastoma multiforme(94;0.00364)		ATAACTTTCTGAGACTACTAG	0.333													7	215	---	---	---	---	PASS	C	51242119	C	C	51242119	2	2	158	1	0	0	0	0	0	0	0	1	752	1277	45	2		2	AP4E1	15	51242119	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	5583766	51242119	51289273	128	56297										
HOMER2	9455	broad.mit.edu	37	chr15	83561500	83561500	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	acatcatagaagtaggaaacGgtgaccgcctgcttgctcgc	11	11	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr15:83561500G>A	uc002bjg.2	-	2	285	c.99C>T	c.(97-99)ACC>ACT	p.T33T	HOMER2_uc002bjh.2_Silent_p.T33T|HOMER2_uc002bjj.2_Silent_p.T33T|HOMER2_uc002bji.2_Silent_p.T33T	NM_199330	NP_955362	Q9NSB8	HOME2_HUMAN	homer 2 isoform 2	33	WH1.				metabotropic glutamate receptor signaling pathway	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane					0						AGTAGGAAACGGTGACCGCCT	0.522													50	237	---	---	---	---	PASS	A	83561500	A	A	83561500	2	1	158	1	0	0	0	0	0	0	0	1	7279	1103	39	1		1	HOMER2	15	83561500	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	32319381	83561500	18969892	129	56298										
SV2B	9899	broad.mit.edu	37	chr15	91795168	91795168	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tcaatgcctccttcgcctccCtctcttccttcgtgcaggga	7	17	2	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr15:91795168C>G	uc002bqv.2	+	2	962	c.571C>G	c.(571-573)CTC>GTC	p.L191V	SV2B_uc002bqt.2_Missense_Mutation_p.L191V|SV2B_uc010uqv.1_Missense_Mutation_p.L40V|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	191	Helical; (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			CTTCGCCTCCCTCTCTTCCTT	0.587													5	147	---	---	---	---	PASS	G	91795168	G	G	91795168	3	3	158	1	0	0	0	0	1	0	0	0	15415	681	24	4	577	4	SV2B	15	91795168	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	8233668	91795168	10736224	130	56299										
NME4	4833	broad.mit.edu	37	chr16	450284	450284	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gatccagctgtggttccagaGcagtgagctggtgagctggg	17	8	0	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr16:450284G>T	uc002cgz.2	+	5	537	c.506G>T	c.(505-507)AGC>ATC	p.S169I	NME4_uc002cgy.2_Missense_Mutation_p.S99I|NME4_uc002cha.2_RNA|DECR2_uc002chb.2_5'Flank|DECR2_uc002chc.2_5'Flank|DECR2_uc010bqv.2_5'Flank|DECR2_uc002chd.2_5'Flank	NM_005009	NP_005000	O00746	NDKM_HUMAN	nucleoside diphosphate kinase 4 precursor	169					CTP biosynthetic process|GTP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|UTP biosynthetic process	mitochondrial inner membrane|mitochondrial intermembrane space	ATP binding|metal ion binding|nucleoside diphosphate kinase activity				0		Hepatocellular(16;0.00015)				TGGTTCCAGAGCAGTGAGCTG	0.652													13	103	---	---	---	---	PASS	T	450284	T	T	450284	3	4	158	1	0	0	0	0	1	0	0	0	10493	971	34	3	524	3	NME4	16	450284	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08		450284	89904469	131	56300										
CHD9	80205	broad.mit.edu	37	chr16	53358634	53358634	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	taggctcgtctaagtctgtaGaagtaaaagaagaagattcc	10	6	2	4			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr16:53358634G>C	uc002ehb.2	+	38	8685	c.8521G>C	c.(8521-8523)GAA>CAA	p.E2841Q	CHD9_uc002egy.2_Missense_Mutation_p.E2825Q|CHD9_uc002ehc.2_Missense_Mutation_p.E2826Q|CHD9_uc002ehf.2_Missense_Mutation_p.E1939Q|CHD9_uc010cbw.2_Missense_Mutation_p.E907Q	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	2841					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)				TAAGTCTGTAGAAGTAAAAGA	0.393													5	29	---	---	---	---	PASS	C	53358634	C	C	53358634	3	2	158	1	0	0	0	0	1	0	0	0	3332	943	33	2	8623	2	CHD9	16	53358634	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	52908350	53358634	36996119	132	56301										
NUP93	9688	broad.mit.edu	37	chr16	56878437	56878437	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cgaagtcaagcccgcactctGattacctttgctggaatgat	9	11	2	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr16:56878437G>A	uc002eka.2	+	22	2497	c.2376G>A	c.(2374-2376)CTG>CTA	p.L792L	NUP93_uc002ekb.2_Silent_p.L669L|NUP93_uc010vhi.1_Silent_p.L669L	NM_014669	NP_055484	Q8N1F7	NUP93_HUMAN	nucleoporin 93kDa	792					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(1)|lung(1)	2						CCCGCACTCTGATTACCTTTG	0.498													10	53	---	---	---	---	PASS	A	56878437	A	A	56878437	2	1	158	1	0	0	0	0	0	0	0	1	10772	1277	45	2		2	NUP93	16	56878437	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	3519803	56878437	33476316	133	56302										
PRMT7	54496	broad.mit.edu	37	chr16	68349904	68349904	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tgaagatcttctgcagtcggGccaatccgaccacggggtct	12	12	3	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr16:68349904G>A	uc002evy.1	+	3	298	c.22G>A	c.(22-24)GCC>ACC	p.A8T	PRMT7_uc002evx.1_Missense_Mutation_p.A8T|PRMT7_uc010vlg.1_Missense_Mutation_p.A8T	NM_019023	NP_061896	Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	8					cell differentiation|DNA methylation involved in gamete generation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	[myelin basic protein]-arginine N-methyltransferase activity|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N monomethyltransferase activity|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		CTGCAGTCGGGCCAATCCGAC	0.532													3	44	---	---	---	---	PASS	A	68349904	A	A	68349904	3	1	158	1	0	0	0	0	1	0	0	0	12541	1203	42	3	24	3	PRMT7	16	68349904	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	11471467	68349904	22004849	134	56303										
ZC3H18	124245	broad.mit.edu	37	chr16	88697587	88697587	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aaagcctcggatcccggcgcCgccagcaccaaatcagggaa	11	15	1	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr16:88697587C>A	uc002fky.2	+	18	2942	c.2742C>A	c.(2740-2742)GCC>GCA	p.A914A	ZC3H18_uc010voz.1_Silent_p.A938A|ZC3H18_uc010chw.2_RNA|ZC3H18_uc002fkz.2_Silent_p.A184A	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	914						nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		ATCCCGGCGCCGCCAGCACCA	0.652													3	63	---	---	---	---	PASS	A	88697587	A	A	88697587	2	1	158	1	0	0	0	0	0	0	0	1	17565	639	23	1		1	ZC3H18	16	88697587	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	20347683	88697587	1657166	135	56304										
MVD	4597	broad.mit.edu	37	chr16	88722562	88722562	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	agtgtgactcgggggccactTgccgagcgatgctgtccttc	14	12	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr16:88722562T>C	uc002flg.1	-	5	561	c.554A>G	c.(553-555)CAA>CGA	p.Q185R	MVD_uc002flf.1_Missense_Mutation_p.Q54R	NM_002461	NP_002452	P53602	MVD1_HUMAN	diphosphomevalonate decarboxylase	185					cholesterol biosynthetic process|positive regulation of cell proliferation	cytosol	ATP binding|diphosphomevalonate decarboxylase activity|Hsp70 protein binding|kinase activity|protein homodimerization activity				0				BRCA - Breast invasive adenocarcinoma(80;0.0478)		GGGGGCCACTTGCCGAGCGAT	0.687													21	82	---	---	---	---	PASS	C	88722562	C	C	88722562	3	2	158	1	0	0	0	0	1	0	0	0	9994	1812	63	5	672	5	MVD	16	88722562	Missense_Mutation	SNP	T	TCGA-66-2778-01A-02D-1522-08	24975	88722562	1632191	136	56305										
DHRS7C	201140	broad.mit.edu	37	chr17	9680518	9680518	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttagcaacttacaagtcgtaCggaacgggattccaaacttc	8	10	0	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr17:9680518C>A	uc010vvb.1	-	4	566	c.566G>T	c.(565-567)CGT>CTT	p.R189L	DHRS7C_uc010cof.2_Missense_Mutation_p.R188L	NM_001105571	NP_001099041	A6NNS2	DRS7C_HUMAN	dehydrogenase/reductase (SDR family) member 7C	189						extracellular region	binding|oxidoreductase activity				0						ACAAGTCGTACGGAACGGGAT	0.423													15	51	---	---	---	---	PASS	A	9680518	A	A	9680518	3	1	158	1	0	0	0	0	1	0	0	0	4497	536	19	1	384	1	DHRS7C	17	9680518	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08		9680518	71514692	137	56306										
KLHL10	317719	broad.mit.edu	37	chr17	39998268	39998268	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gtatcgtcaggggttgctgcGagttcctcaagtcagagctg	14	9	3	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr17:39998268G>A	uc010cxr.2	+	2	530	c.388G>A	c.(388-390)GAG>AAG	p.E130K	KLHL10_uc010wfv.1_Missense_Mutation_p.E124K|KLHL10_uc010wfw.1_Missense_Mutation_p.E42K	NM_152467	NP_689680	Q6JEL2	KLH10_HUMAN	kelch-like 10	130						cytoplasm				ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		Breast(137;0.000162)				GGGTTGCTGCGAGTTCCTCAA	0.507													5	145	---	---	---	---	PASS	A	39998268	A	A	39998268	3	1	158	1	0	0	0	0	1	0	0	0	8366	1059	37	2	394	2	KLHL10	17	39998268	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	30317750	39998268	41196942	138	56307										
KLHL10	317719	broad.mit.edu	37	chr17	39998457	39998457	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ttaaggatatcattgagaaaGatgagctcaatgtcaaacag	9	5	3	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr17:39998457G>C	uc010cxr.2	+	2	719	c.577G>C	c.(577-579)GAT>CAT	p.D193H	KLHL10_uc010wfv.1_Missense_Mutation_p.D187H|KLHL10_uc010wfw.1_Missense_Mutation_p.D105H	NM_152467	NP_689680	Q6JEL2	KLH10_HUMAN	kelch-like 10	193						cytoplasm				ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		Breast(137;0.000162)				CATTGAGAAAGATGAGCTCAA	0.403													4	163	---	---	---	---	PASS	C	39998457	C	C	39998457	3	2	158	1	0	0	0	0	1	0	0	0	8366	942	33	2	583	2	KLHL10	17	39998457	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	189	39998457	41196753	139	56308										
KLHL10	317719	broad.mit.edu	37	chr17	40004407	40004407	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	atgagtggtatgatgctcatGacatgagtatataccgcagt	11	6	1	4			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr17:40004407G>C	uc010cxr.2	+	5	1817	c.1675G>C	c.(1675-1677)GAC>CAC	p.D559H	KLHL10_uc010wfw.1_Missense_Mutation_p.D471H	NM_152467	NP_689680	Q6JEL2	KLH10_HUMAN	kelch-like 10	559	Kelch 6.			D -> G (in Ref. 2; BAB71387).		cytoplasm				ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		Breast(137;0.000162)				TGATGCTCATGACATGAGTAT	0.473													6	155	---	---	---	---	PASS	C	40004407	C	C	40004407	3	2	158	1	0	0	0	0	1	0	0	0	8366	1290	45	2	1693	2	KLHL10	17	40004407	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	5950	40004407	41190803	140	56309										
TTC25	83538	broad.mit.edu	37	chr17	40087031	40087031	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cctttccctcttatatggccGaaggcgagcggctctacctg	10	14	2	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr17:40087031G>A	uc002hyj.3	+	1	144	c.55G>A	c.(55-57)GAA>AAA	p.E19K	TTC25_uc010cxt.2_RNA|TTC25_uc010cxs.1_Missense_Mutation_p.E19K	NM_031421	NP_113609	Q96NG3	TTC25_HUMAN	tetratricopeptide repeat domain 25	19	TPR 1.					cytoplasm	protein binding			ovary(1)	1		all_cancers(22;8.16e-06)|Breast(137;0.000143)|all_epithelial(22;0.000236)				TTATATGGCCGAAGGCGAGCG	0.542													5	17	---	---	---	---	PASS	A	40087031	A	A	40087031	3	1	158	1	0	0	0	0	1	0	0	0	16690	1059	37	2	57	2	TTC25	17	40087031	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	82624	40087031	41108179	141	56310										
C17orf71	55181	broad.mit.edu	37	chr17	57289136	57289136	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gaggagtttaactgatcaacActgtgtgcacaaatttcact	8	8	2	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr17:57289136A>G	uc002ixi.2	+	1	1766	c.1724A>G	c.(1723-1725)CAC>CGC	p.H575R		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	575					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					ACTGATCAACACTGTGTGCAC	0.373													13	92	---	---	---	---	PASS	G	57289136	G	G	57289136	3	3	158	1	0	0	0	0	1	0	0	0	1878	159	6	5	1726	5	C17orf71	17	57289136	Missense_Mutation	SNP	A	TCGA-66-2778-01A-02D-1522-08	17202105	57289136	23906074	142	56311										
AZI1	22994	broad.mit.edu	37	chr17	79176050	79176050	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gatcggtcacctctcagcctCctcctccgtcacctccttcc	5	21	3	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr17:79176050C>T	uc002jzp.1	-	7	978	c.778G>A	c.(778-780)GAG>AAG	p.E260K	AZI1_uc002jzn.1_Missense_Mutation_p.E260K|AZI1_uc002jzo.1_Missense_Mutation_p.E260K|AZI1_uc010wum.1_Missense_Mutation_p.E260K	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	260					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CTCTCAGCCTCCTCCTCCGTC	0.662													4	88	---	---	---	---	PASS	T	79176050	T	T	79176050	3	4	158	1	0	0	0	0	1	0	0	0	1240	864	30	2	2544	2	AZI1	17	79176050	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	21886914	79176050	2019160	143	56312										
L3MBTL4	91133	broad.mit.edu	37	chr18	6241381	6241381	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cttctgtttctgaataatttCtttggagcattttgcaattt	6	6	3	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr18:6241381C>A	uc002kmz.3	-	8	688	c.528G>T	c.(526-528)AAG>AAT	p.K176N	L3MBTL4_uc010dkt.2_Missense_Mutation_p.K176N|L3MBTL4_uc002kmy.3_Missense_Mutation_p.K14N	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	176	MBT 2.				chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				TGAATAATTTCTTTGGAGCAT	0.303													40	229	---	---	---	---	PASS	A	6241381	A	A	6241381	3	1	158	1	0	0	0	0	1	0	0	0	8594	912	32	2	1395	2	L3MBTL4	18	6241381	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08		6241381	71835867	144	56313										
ALPK2	115701	broad.mit.edu	37	chr18	56278980	56278980	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gaaccttctgggaaagcaatGtagataaaaaacacagcggg	11	7	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr18:56278980G>A	uc002lhj.3	-	2	264	c.50C>T	c.(49-51)ACA>ATA	p.T17I		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	17	Ig-like 1.						ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						GGAAAGCAATGTAGATAAAAA	0.463													36	157	---	---	---	---	PASS	A	56278980	A	A	56278980	3	1	158	1	0	0	0	0	1	0	0	0	545	1377	48	3	6510	3	ALPK2	18	56278980	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	50037599	56278980	21798268	145	56314										
TLE2	7089	broad.mit.edu	37	chr19	3028720	3028720	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tcacctgtggtattgagcctGaagaaactggaattcttctt	9	8	3	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:3028720G>A	uc002lww.2	-	2	369	c.106C>T	c.(106-108)CAG>TAG	p.Q36*	TLE2_uc010dth.2_Nonsense_Mutation_p.Q36*|TLE2_uc010xhc.1_5'UTR|TLE2_uc010dti.2_Nonsense_Mutation_p.Q49*|TLE2_uc010xhd.1_Nonsense_Mutation_p.Q36*	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1	36	Gln-rich.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TATTGAGCCTGAAGAAACTGG	0.672													19	101	---	---	---	---	PASS	A	3028720	A	A	3028720	4	1	158	1	0	0	0	0	0	1	0	0	15936	1299	45	2	2204	2	TLE2	19	3028720	Nonsense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08		3028720	56100263	146	56315										
MATK	4145	broad.mit.edu	37	chr19	3783854	3783854	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cagaagaacacggcctcatcGattgtgaggtggccgtcgcg	14	11	1	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:3783854G>A	uc002lyt.2	-	6	940	c.540C>T	c.(538-540)ATC>ATT	p.I180I	MATK_uc002lyv.2_Silent_p.I181I|MATK_uc002lyu.2_Silent_p.I139I|MATK_uc010dtq.2_Silent_p.I180I	NM_139355	NP_647612	P42679	MATK_HUMAN	megakaryocyte-associated tyrosine kinase isoform	180	SH2.				cell proliferation|mesoderm development|positive regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(2)|ovary(1)|lung(1)|large_intestine(1)	5		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGCCTCATCGATTGTGAGGT	0.682													13	54	---	---	---	---	PASS	A	3783854	A	A	3783854	2	1	158	1	0	0	0	0	0	0	0	1	9332	1048	37	2		2	MATK	19	3783854	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	755134	3783854	55345129	147	56316										
MPND	84954	broad.mit.edu	37	chr19	4355107	4355107	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cccacagtgctgacggtgctCagagccttcccttgtcggag	12	14	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:4355107C>G	uc002mae.2	+	8	1000	c.933C>G	c.(931-933)CTC>CTG	p.L311L	MPND_uc010dtx.2_RNA|MPND_uc002mag.2_Intron|MPND_uc002maf.2_Silent_p.L311L|MPND_uc002mah.2_Silent_p.L199L|MPND_uc002mai.2_Silent_p.L199L	NM_032868	NP_116257	Q8N594	MPND_HUMAN	MPN domain containing isoform 1	311	MPN.						peptidase activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		TGACGGTGCTCAGAGCCTTCC	0.677													9	72	---	---	---	---	PASS	G	4355107	G	G	4355107	2	3	158	1	0	0	0	0	0	0	0	1	9731	813	29	2		2	MPND	19	4355107	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	571253	4355107	54773876	148	56317										
FBN3	84467	broad.mit.edu	37	chr19	8175749	8175749	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ctgtgcagttgccaccccctCggtccagttcgtagccacca	9	17	0	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:8175749C>G	uc002mjf.2	-	33	4334	c.4313G>C	c.(4312-4314)CGA>CCA	p.R1438P		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1438	EGF-like 22; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GCCACCCCCTCGGTCCAGTTC	0.532													27	161	---	---	---	---	PASS	G	8175749	G	G	8175749	3	3	158	1	0	0	0	0	1	0	0	0	5704	884	31	2	4240	2	FBN3	19	8175749	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	3820642	8175749	50953234	149	56318										
MUC16	94025	broad.mit.edu	37	chr19	9009681	9009681	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	agattggtgatggtaaagttGagggtgaacggcaccaggag	17	4	0	4			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:9009681G>C	uc002mkp.2	-	39	39249	c.39045C>G	c.(39043-39045)CTC>CTG	p.L13015L	MUC16_uc010dwi.2_5'Flank|MUC16_uc010dwj.2_5'Flank|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13017	Extracellular (Potential).|SEA 7.				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						TGGTAAAGTTGAGGGTGAACG	0.498													4	168	---	---	---	---	PASS	C	9009681	C	C	9009681	2	2	158	1	0	0	0	0	0	0	0	1	9973	1277	45	2		2	MUC16	19	9009681	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	833932	9009681	50119302	150	56319										
QTRT1	81890	broad.mit.edu	37	chr19	10812667	10812667	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gccaacggtctccacggcttCatgaattggcctcataatct	8	13	4	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:10812667C>T	uc002mpr.2	+	2	310	c.285C>T	c.(283-285)TTC>TTT	p.F95F		NM_031209	NP_112486	Q9BXR0	TGT_HUMAN	queuine tRNA-ribosyltransferase 1	95					queuosine biosynthetic process	mitochondrion|nucleus|ribosome	metal ion binding|queuine tRNA-ribosyltransferase activity			skin(1)	1			Epithelial(33;1.55e-05)|all cancers(31;3.42e-05)			TCCACGGCTTCATGAATTGGC	0.572													37	142	---	---	---	---	PASS	T	10812667	T	T	10812667	2	4	158	1	0	0	0	0	0	0	0	1	12885	825	29	2		2	QTRT1	19	10812667	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	1802986	10812667	48316316	151	56320										
CCDC105	126402	broad.mit.edu	37	chr19	15132721	15132721	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ccaactcccggaggctgcgcGcctcgcacaggtaaaccccc	10	19	0	0	rs144636554		TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:15132721G>A	uc002nae.2	+	6	1340	c.1241G>A	c.(1240-1242)CGC>CAC	p.R414H		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	414					microtubule cytoskeleton organization	microtubule				ovary(1)	1						GAGGCTGCGCGCCTCGCACAG	0.622													11	68	---	---	---	---	PASS	A	15132721	A	A	15132721	3	1	158	1	0	0	0	0	1	0	0	0	2740	1087	38	1	1263	1	CCDC105	19	15132721	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	4320054	15132721	43996262	152	56321										
PRX	57716	broad.mit.edu	37	chr19	40902362	40902362	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cacctcagggagtttcatctCagggagcttcatctctggga	11	11	5	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:40902362C>T	uc002onr.2	-	7	2166	c.1897G>A	c.(1897-1899)GAG>AAG	p.E633K	PRX_uc002onq.2_Missense_Mutation_p.E494K|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	633	32.|55 X 5 AA approximate tandem repeats of [LVMAG]-[PSREQC]-[EDKL]-[LIVMAP]- [AQKHRPE]; that may have a tripeptide spacer of [LV]-P-[KER].				axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AGTTTCATCTCAGGGAGCTTC	0.587													54	285	---	---	---	---	PASS	T	40902362	T	T	40902362	3	4	158	1	0	0	0	0	1	0	0	0	12642	835	29	2	2492	2	PRX	19	40902362	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	25769641	40902362	18226621	153	56322										
PRX	57716	broad.mit.edu	37	chr19	40902675	40902675	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tctggcacctttgggagtttCatctccgacactttcagcag	9	12	4	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:40902675C>A	uc002onr.2	-	7	1853	c.1584G>T	c.(1582-1584)ATG>ATT	p.M528I	PRX_uc002onq.2_Missense_Mutation_p.M389I|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	528	15.|55 X 5 AA approximate tandem repeats of [LVMAG]-[PSREQC]-[EDKL]-[LIVMAP]- [AQKHRPE]; that may have a tripeptide spacer of [LV]-P-[KER].				axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TTGGGAGTTTCATCTCCGACA	0.567													35	186	---	---	---	---	PASS	A	40902675	A	A	40902675	3	1	158	1	0	0	0	0	1	0	0	0	12642	826	29	2	2805	2	PRX	19	40902675	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	313	40902675	18226308	154	56323										
TMEM145	284339	broad.mit.edu	37	chr19	42818842	42818842	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	accacccagtatgcctggtcCggctgtcaggtgcaggctca	12	14	2	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:42818842C>T	uc002otk.1	+	4	403	c.351C>T	c.(349-351)TCC>TCT	p.S117S		NM_173633	NP_775904	Q8NBT3	TM145_HUMAN	transmembrane protein 145	117						integral to membrane					0		Prostate(69;0.00682)				ATGCCTGGTCCGGCTGTCAGG	0.622													37	166	---	---	---	---	PASS	T	42818842	T	T	42818842	2	4	158	1	0	0	0	0	0	0	0	1	16056	639	23	1		1	TMEM145	19	42818842	Silent	SNP	C	TCGA-66-2778-01A-02D-1522-08	1916167	42818842	16310141	155	56324										
PPP1R13L	10848	broad.mit.edu	37	chr19	45895149	45895149	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	attacttaccatgctctgcgGctgctctggtgggctgctct	11	12	3	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:45895149G>C	uc002pbn.2	-	8	1881	c.1804C>G	c.(1804-1806)CCG>GCG	p.P602A	PPP1R13L_uc002pbm.2_Missense_Mutation_p.P181A|PPP1R13L_uc002pbo.2_Missense_Mutation_p.P602A	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	602	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		ATGCTCTGCGGCTGCTCTGGT	0.547													19	61	---	---	---	---	PASS	C	45895149	C	C	45895149	3	2	158	1	0	0	0	0	1	0	0	0	12358	1203	42	4	706	4	PPP1R13L	19	45895149	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	3076307	45895149	13233834	156	56325										
BBC3	27113	broad.mit.edu	37	chr19	47725147	47725147	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	acaggaccctccagggtgagGggcggtgccgctgctgctcc	16	14	0	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:47725147G>A	uc002pgf.3	-	4	775	c.494C>T	c.(493-495)CCC>CTC	p.P165L	BBC3_uc010xyl.1_Silent_p.P199P|BBC3_uc010eky.2_Missense_Mutation_p.P103L|BBC3_uc010ekz.2_Silent_p.P39P	NM_014417	NP_055232	Q9BXH1	BBC3_HUMAN	BCL2 binding component 3 isoform 4	165					activation of caspase activity|activation of pro-apoptotic gene products|cellular response to hypoxia|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of growth|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria|positive regulation of thymocyte apoptosis|protein insertion into mitochondrial membrane involved in induction of apoptosis|reduction of endoplasmic reticulum calcium ion concentration|release of cytochrome c from mitochondria|release of sequestered calcium ion into cytosol	cytosol|mitochondrial outer membrane	protein binding|protein binding				0		all_cancers(25;1.13e-05)|all_lung(116;0.000192)|all_epithelial(76;0.000274)|Lung NSC(112;0.000446)|all_neural(266;0.0652)|Ovarian(192;0.15)		all cancers(93;0.000179)|OV - Ovarian serous cystadenocarcinoma(262;0.00029)|Epithelial(262;0.0103)|GBM - Glioblastoma multiforme(486;0.0234)		CCAGGGTGAGGGGCGGTGCCG	0.612													16	52	---	---	---	---	PASS	A	47725147	A	A	47725147	3	1	158	1	0	0	0	0	1	0	0	0	1333	1232	43	3	192	3	BBC3	19	47725147	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	1829998	47725147	11403836	157	56326										
C19orf75	284369	broad.mit.edu	37	chr19	51770708	51770708	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tctaaagtcagagcaagccaAgaacttgagatgtctctgaa	9	8	3	4			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:51770708A>G	uc002pwb.1	+	5	873	c.492A>G	c.(490-492)CAA>CAG	p.Q164Q	C19orf75_uc010eov.1_RNA|C19orf75_uc010ycw.1_Silent_p.Q70Q	NM_173635	NP_775906	Q8N7X8	CS075_HUMAN	hypothetical protein LOC284369	164						integral to membrane				ovary(1)|pancreas(1)	2						GAGCAAGCCAAGAACTTGAGA	0.453													42	197	---	---	---	---	PASS	G	51770708	G	G	51770708	2	3	158	1	0	0	0	0	0	0	0	1	1949	69	3	5		5	C19orf75	19	51770708	Silent	SNP	A	TCGA-66-2778-01A-02D-1522-08	4045561	51770708	7358275	158	56327										
PPP2R1A	5518	broad.mit.edu	37	chr19	52723032	52723032	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gctgtcccagtccctgctccCtgccattgtggagctggctg	12	15	0	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr19:52723032C>G	uc002pyp.2	+	10	1376	c.1217C>G	c.(1216-1218)CCT>CGT	p.P406R	PPP2R1A_uc010ydk.1_Missense_Mutation_p.P351R|PPP2R1A_uc002pyq.2_Missense_Mutation_p.P227R	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	406	HEAT 11.|PP2A subunit C binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		TCCCTGCTCCCTGCCATTGTG	0.612			Mis		clear cell ovarian carcinoma								21	67	---	---	---	---	PASS	G	52723032	G	G	52723032	3	3	158	1	0	0	0	0	1	0	0	0	12382	681	24	4	1255	4	PPP2R1A	19	52723032	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	952324	52723032	6405951	159	56328										
BLCAP	10904	broad.mit.edu	37	chr20	36147493	36147493	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ctgagcaggtagaagcccatGaacatggagtggctgaacca	13	9	0	4			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr20:36147493G>T	uc002xha.2	-	2	287	c.84C>A	c.(82-84)TTC>TTA	p.F28L	BLCAP_uc002xhb.2_Missense_Mutation_p.F28L|BLCAP_uc002xhc.2_Missense_Mutation_p.F28L|NNAT_uc002xhd.2_5'Flank|NNAT_uc002xhe.2_5'Flank	NM_006698	NP_006689	P62952	BLCAP_HUMAN	bladder cancer associated protein	28	Helical; (Potential).				apoptosis|cell cycle	integral to membrane					0		Myeloproliferative disorder(115;0.00878)				AGAAGCCCATGAACATGGAGT	0.577													8	31	---	---	---	---	PASS	T	36147493	T	T	36147493	3	4	158	1	0	0	0	0	1	0	0	0	1442	1281	45	2	183	2	BLCAP	20	36147493	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08		36147493	26878027	160	56329										
C20orf43	51507	broad.mit.edu	37	chr20	55048360	55048360	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tttttgttttttattaggtcGacaaagatgctgaattagtg	9	3	0	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr20:55048360G>A	uc002xxt.2	+	2	180	c.73G>A	c.(73-75)GAC>AAC	p.D25N	C20orf43_uc010zzf.1_Missense_Mutation_p.D55N|C20orf43_uc002xxu.2_Missense_Mutation_p.D25N|C20orf43_uc002xxv.2_Missense_Mutation_p.D25N	NM_016407	NP_057491	Q9BY42	CT043_HUMAN	hypothetical protein LOC51507	25										ovary(1)	1			Colorectal(105;0.202)			TTATTAGGTCGACAAAGATGC	0.338													16	103	---	---	---	---	PASS	A	55048360	A	A	55048360	3	1	158	1	0	0	0	0	1	0	0	0	2112	1058	37	2	79	2	C20orf43	20	55048360	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	18900867	55048360	7977160	161	56330										
RBM38	55544	broad.mit.edu	37	chr20	55967737	55967737	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tggccgaccgggcggcagctGagagggcttgcaaagacccg	17	12	0	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr20:55967737G>A	uc010zzj.1	+	2	440	c.265G>A	c.(265-267)GAG>AAG	p.E89K	RBM38_uc010zzk.1_Missense_Mutation_p.E89K	NM_017495	NP_059965	Q9H0Z9	RBM38_HUMAN	RNA-binding region containing protein 1 isoform	89	RRM.				3'-UTR-mediated mRNA stabilization|cell cycle|cell cycle arrest|cell differentiation|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 transcription of p21 class mediator|mRNA processing|negative regulation of cell proliferation|regulation of RNA splicing|RNA splicing	cytosol|cytosol|nucleus|nucleus	mRNA 3'-UTR binding|mRNA binding|nucleotide binding|RNA binding				0	Lung NSC(12;0.00242)|all_lung(29;0.00767)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;1.55e-12)|Epithelial(14;9.49e-09)|all cancers(14;5.01e-08)			GGCGGCAGCTGAGAGGGCTTG	0.677													15	48	---	---	---	---	PASS	A	55967737	A	A	55967737	3	1	158	1	0	0	0	0	1	0	0	0	13132	1291	45	2	30	2	RBM38	20	55967737	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08	919377	55967737	7057783	162	56331										
TAF4	6874	broad.mit.edu	37	chr20	60578311	60578311	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gctttggttccaggtaacacGgcgggtttcaccacagggac	13	11	1	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr20:60578311G>A	uc002ybs.2	-	9	2391	c.2391C>T	c.(2389-2391)GCC>GCT	p.A797A		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	797					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)			CAGGTAACACGGCGGGTTTCA	0.488													16	94	---	---	---	---	PASS	A	60578311	A	A	60578311	2	1	158	1	0	0	0	0	0	0	0	1	15523	1103	39	1		1	TAF4	20	60578311	Silent	SNP	G	TCGA-66-2778-01A-02D-1522-08	4610574	60578311	2447209	163	56332										
DNMT3L	29947	broad.mit.edu	37	chr21	45674549	45674549	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ccacatgcttcagttgtcccGggtcagaaccactttccaaa	7	14	2	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr21:45674549G>C	uc002zeg.1	-	8	1128	c.644C>G	c.(643-645)CCG>CGG	p.P215R	DNMT3L_uc002zeh.1_Missense_Mutation_p.P215R	NM_175867	NP_787063	Q9UJW3	DNM3L_HUMAN	cytosine-5-methyltransferase 3-like protein	215					DNA methylation|negative regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|spermatogenesis	cytosol	enzyme activator activity|enzyme binding|metal ion binding			skin(2)	2				Colorectal(79;0.0165)|READ - Rectum adenocarcinoma(84;0.0781)		CAGTTGTCCCGGGTCAGAACC	0.572													3	98	---	---	---	---	PASS	C	45674549	C	C	45674549	3	2	158	1	0	0	0	0	1	0	0	0	4678	1116	39	4	539	4	DNMT3L	21	45674549	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08		45674549	2455346	164	56333										
SF3A1	10291	broad.mit.edu	37	chr22	30735139	30735139	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	cttttcctctggcttctggaTctcctcctcaccgatcttct	5	16	6	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr22:30735139T>A	uc003ahl.2	-	10	1609	c.1477A>T	c.(1477-1479)ATC>TTC	p.I493F		NM_005877	NP_005868	Q15459	SF3A1_HUMAN	splicing factor 3a, subunit 1, 120kDa isoform 1	493					nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|U2-type spliceosomal complex	protein binding|RNA binding			ovary(3)|large_intestine(1)|pancreas(1)	5						GGCTTCTGGATCTCCTCCTCA	0.512													6	291	---	---	---	---	PASS	A	30735139	A	A	30735139	3	1	158	1	0	0	0	0	1	0	0	0	14146	1435	50	5	932	5	SF3A1	22	30735139	Missense_Mutation	SNP	T	TCGA-66-2778-01A-02D-1522-08		30735139	20569427	165	56334										
LGALS1	3956	broad.mit.edu	37	chr22	38075647	38075647	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ccaggccaacctgaccgtcaAgctgccagatggatacgaat	10	13	1	2			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chr22:38075647A>G	uc003atn.2	+	4	396	c.299A>G	c.(298-300)AAG>AGG	p.K100R		NM_002305	NP_002296	P09382	LEG1_HUMAN	galectin-1	100	Galectin.				apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of apoptosis	cytoplasm|extracellular space|proteinaceous extracellular matrix	galactoside binding|signal transducer activity				0	Melanoma(58;0.0574)					CTGACCGTCAAGCTGCCAGAT	0.582													16	54	---	---	---	---	PASS	G	38075647	G	G	38075647	3	3	158	1	0	0	0	0	1	0	0	0	8738	72	3	5	313	5	LGALS1	22	38075647	Missense_Mutation	SNP	A	TCGA-66-2778-01A-02D-1522-08	7340508	38075647	13228919	166	56335										
ASMTL	8623	broad.mit.edu	37	chrX	1546948	1546948	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	aatcccaccacgttcagaaaGtccccgtgtacggactccac	7	16	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chrX:1546948G>C	uc004cpx.1	-	7	687	c.576C>G	c.(574-576)GAC>GAG	p.D192E	ASMTL_uc011mhe.1_Missense_Mutation_p.D116E|ASMTL_uc004cpy.1_Missense_Mutation_p.D176E|ASMTL_uc011mhf.1_Missense_Mutation_p.D134E	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	192	MAF-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CGTTCAGAAAGTCCCCGTGTA	0.637													10	44	---	---	---	---	PASS	C	1546948	C	C	1546948	3	2	158	1	0	0	0	0	1	0	0	0	1046	1020	36	4	1317	4	ASMTL	23	1546948	Missense_Mutation	SNP	G	TCGA-66-2778-01A-02D-1522-08		1546948	153723612	167	56336										
FAM47C	442444	broad.mit.edu	37	chrX	37026697	37026697	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	ctgaagatacgcttgtttgtCgccgtgacgagtttttactc	10	9	0	3			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chrX:37026697C>T	uc004ddl.1	+	1	228	c.214C>T	c.(214-216)CGC>TGC	p.R72C		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	72										ovary(3)	3						GCTTGTTTGTCGCCGTGACGA	0.532													22	99	---	---	---	---	PASS	T	37026697	T	T	37026697	3	4	158	1	0	0	0	0	1	0	0	0	5571	884	31	2	216	2	FAM47C	23	37026697	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	35479749	37026697	118243863	168	56337										
KIAA2022	340533	broad.mit.edu	37	chrX	73960686	73960686	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gccaatgccaatttgcatttTctctccattgatggcagcca	7	12	1	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chrX:73960686T>C	uc004eby.2	-	3	4323	c.3706A>G	c.(3706-3708)AAA>GAA	p.K1236E		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1236					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						ATTTGCATTTTCTCTCCATTG	0.493													17	79	---	---	---	---	PASS	C	73960686	C	C	73960686	3	2	158	1	0	0	0	0	1	0	0	0	8269	1792	62	5	852	5	KIAA2022	23	73960686	Missense_Mutation	SNP	T	TCGA-66-2778-01A-02D-1522-08	36933989	73960686	81309874	169	56338										
PNMA5	114824	broad.mit.edu	37	chrX	152159319	152159319	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	gcactgacaaggggctcttgTgcacggctttctgcagcagg	14	11	2	1			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chrX:152159319T>A	uc010ntw.2	-	3	1163	c.824A>T	c.(823-825)CAC>CTC	p.H275L	PNMA5_uc004fha.3_Missense_Mutation_p.H275L|PNMA5_uc010ntx.2_Missense_Mutation_p.H275L|PNMA5_uc004fgy.3_Missense_Mutation_p.H275L	NM_001103151	NP_001096621	Q96PV4	PNMA5_HUMAN	paraneoplastic antigen like 5	275					apoptosis					ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GGGGCTCTTGTGCACGGCTTT	0.567													112	196	---	---	---	---	PASS	A	152159319	A	A	152159319	3	1	158	1	0	0	0	0	1	0	0	0	12156	1696	59	5	526	5	PNMA5	23	152159319	Missense_Mutation	SNP	T	TCGA-66-2778-01A-02D-1522-08	78198633	152159319	3111241	170	56339										
PDZD4	57595	broad.mit.edu	37	chrX	153072220	153072220	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.280701754385965	48	3.94371140956514e-12	3.04047467683831	4.01437672176309	2.36297760210804	0.558523904562372	0.859641140065564	32	tccgacataaatgcccaggtCctcctcgtcgtccgtgcggt	10	15	0	0			TCGA-66-2778-01A-02D-1522-08	TCGA-66-2778-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	5215060d-5ffd-49f3-a7a7-73167e7af74a	e93edfbf-333c-4f5f-94db-96bb9941221a	g.chrX:153072220C>A	uc004fiz.1	-	4	713	c.463G>T	c.(463-465)GAC>TAC	p.D155Y	PDZD4_uc004fiy.1_Missense_Mutation_p.D80Y|PDZD4_uc004fix.2_Missense_Mutation_p.D59Y|PDZD4_uc004fja.1_Missense_Mutation_p.D161Y|PDZD4_uc011mze.1_Missense_Mutation_p.D46Y	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	155	PDZ.					cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ATGCCCAGGTCCTCCTCGTCG	0.627													48	78	---	---	---	---	PASS	A	153072220	A	A	153072220	3	1	158	1	0	0	0	0	1	0	0	0	11703	855	30	2	1866	2	PDZD4	23	153072220	Missense_Mutation	SNP	C	TCGA-66-2778-01A-02D-1522-08	912901	153072220	2198340	171	56340										
CCDC27	148870	broad.mit.edu	37	chr1	3669114	3669114	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gatccacgggaaaagccgggCctgtcctcattcaggtccac	11	14	2	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:3669114C>A	uc001akv.2	+	1	150	c.69C>A	c.(67-69)GGC>GGA	p.G23G		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	23										skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		AAAAGCCGGGCCTGTCCTCAT	0.572													45	66	---	---	---	---	PASS	A	3669114	A	A	3669114	2	1	159	1	0	0	0	0	0	0	0	1	2801	726	26	3		3	CCDC27	1	3669114	Silent	SNP	C	TCGA-66-2780-01A-01D-1522-08		3669114	245581507	1	56341										
CTRC	11330	broad.mit.edu	37	chr1	15769956	15769956	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	cttgcagagcatgtggagctGagtgacaccatccaggtggc	14	10	0	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:15769956G>C	uc001awi.1	+	5	422	c.399G>C	c.(397-399)CTG>CTC	p.L133L	CTRC_uc001awj.1_Silent_p.L133L	NM_007272	NP_009203	Q99895	CTRC_HUMAN	chymotrypsin C preproprotein	133	Peptidase S1.				proteolysis		serine-type endopeptidase activity				0		Breast(348;0.000207)|all_lung(284;0.00021)|Colorectal(325;0.000257)|Lung NSC(340;0.000269)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)|Hepatocellular(190;0.0634)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.56e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		ATGTGGAGCTGAGTGACACCA	0.607													38	361	---	---	---	---	PASS	C	15769956	C	C	15769956	2	2	159	1	0	0	0	0	0	0	0	1	4027	1277	45	2		2	CTRC	1	15769956	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08	12100842	15769956	233480665	2	56342										
EPHA8	2046	broad.mit.edu	37	chr1	22922656	22922656	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gaggagaagatgcactatcaGaatggacagggtgagtgcag	16	5	1	4			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:22922656G>A	uc001bfx.1	+	9	1880	c.1755G>A	c.(1753-1755)CAG>CAA	p.Q585Q		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	585	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TGCACTATCAGAATGGACAGG	0.657													12	41	---	---	---	---	PASS	A	22922656	A	A	22922656	2	1	159	1	0	0	0	0	0	0	0	1	5173	933	33	2		2	EPHA8	1	22922656	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08	7152700	22922656	226327965	3	56343										
CSMD2	114784	broad.mit.edu	37	chr1	34076646	34076646	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gctccttgtccttaccctgaTactccagcttgaatcctggc	7	15	0	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:34076646T>C	uc001bxn.1	-	41	6247	c.6218A>G	c.(6217-6219)TAT>TGT	p.Y2073C	CSMD2_uc001bxm.1_Missense_Mutation_p.Y2113C|CSMD2_uc001bxo.1_Missense_Mutation_p.Y986C	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2073	CUB 12.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CTTACCCTGATACTCCAGCTT	0.572													5	29	---	---	---	---	PASS	C	34076646	C	C	34076646	3	2	159	1	0	0	0	0	1	0	0	0	3945	1406	49	5	4361	5	CSMD2	1	34076646	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	11153990	34076646	215173975	4	56344										
PPAP2B	8613	broad.mit.edu	37	chr1	56989495	56989495	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	atcaaagggtgggtacttacCaccaaatacagcatagtgta	9	8	1	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:56989495C>G	uc001cyj.1	-	5	1134	c.633G>C	c.(631-633)GTG>GTC	p.V211V		NM_177414	NP_803133	O14495	LPP3_HUMAN	phosphatidic acid phosphatase type 2B	211	Helical; (Potential).				canonical Wnt receptor signaling pathway involved in positive regulation of cell-cell adhesion|canonical Wnt receptor signaling pathway involved in positive regulation of endothelial cell migration|canonical Wnt receptor signaling pathway involved in positive regulation of wound healing|germ cell migration|homotypic cell-cell adhesion|negative regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|sphingolipid metabolic process	adherens junction|Golgi apparatus|integral to membrane	phosphatidate phosphatase activity|phosphoprotein phosphatase activity|protein binding|sphingosine-1-phosphate phosphatase activity				0						GGGTACTTACCACCAAATACA	0.488													16	59	---	---	---	---	PASS	G	56989495	G	G	56989495	2	3	159	1	0	0	0	0	0	0	0	1	12291	608	21	4		4	PPAP2B	1	56989495	Silent	SNP	C	TCGA-66-2780-01A-01D-1522-08	22912849	56989495	192261126	5	56345										
ST6GALNAC3	256435	broad.mit.edu	37	chr1	76878011	76878011	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	acatgttgaaaaagacagttGgtatctatccgaatgcccaa	8	8	1	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:76878011G>T	uc001dhh.2	+	3	695	c.532G>T	c.(532-534)GGT>TGT	p.G178C	ST6GALNAC3_uc001dhg.3_Missense_Mutation_p.G178C|ST6GALNAC3_uc010orh.1_Missense_Mutation_p.G113C	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	178	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						AAAGACAGTTGGTATCTATCC	0.423													46	177	---	---	---	---	PASS	T	76878011	T	T	76878011	3	4	159	1	0	0	0	0	1	0	0	0	15224	1348	47	3	542	3	ST6GALNAC3	1	76878011	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	19888516	76878011	172372610	6	56346										
USP33	23032	broad.mit.edu	37	chr1	78177450	78177450	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	acccgaataaaaatttccaaTtcagtttttcttcttttttc	2	9	3	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:78177450T>C	uc001dht.2	-	22	2828	c.2481A>G	c.(2479-2481)GAA>GAG	p.E827E	USP33_uc001dhs.2_Silent_p.E548E|USP33_uc001dhu.2_Silent_p.E796E|USP33_uc001dhv.2_Silent_p.E632E|USP33_uc001dhw.2_Silent_p.E819E	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	827	DUSP 2.				axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						AAATTTCCAATTCAGTTTTTC	0.328													23	112	---	---	---	---	PASS	C	78177450	C	C	78177450	2	2	159	1	0	0	0	0	0	0	0	1	17061	1490	52	5		5	USP33	1	78177450	Silent	SNP	T	TCGA-66-2780-01A-01D-1522-08	1299439	78177450	171073171	7	56347										
SPAG17	200162	broad.mit.edu	37	chr1	118550722	118550722	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ttccatctccaaaggtggcaCagcagctactgtcctcacag	8	14	2	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:118550722C>A	uc001ehk.2	-	31	4600	c.4532G>T	c.(4531-4533)TGT>TTT	p.C1511F		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1511						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		AAAGGTGGCACAGCAGCTACT	0.512													20	107	---	---	---	---	PASS	A	118550722	A	A	118550722	3	1	159	1	0	0	0	0	1	0	0	0	14979	478	17	3	2211	3	SPAG17	1	118550722	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	40373272	118550722	130699899	8	56348										
POGZ	23126	broad.mit.edu	37	chr1	151378546	151378546	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gtgttcagctgcctgttctgTattgcagcatagagcaaaca	10	9	2	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:151378546T>A	uc001eyd.1	-	19	3271	c.2965A>T	c.(2965-2967)ACA>TCA	p.T989S	POGZ_uc001eye.1_Missense_Mutation_p.T936S|POGZ_uc010pdb.1_Missense_Mutation_p.T980S|POGZ_uc001eyf.1_Missense_Mutation_p.T945S|POGZ_uc010pdc.1_Missense_Mutation_p.T927S|POGZ_uc009wmv.1_Missense_Mutation_p.T894S|POGZ_uc010pdd.1_Missense_Mutation_p.T480S	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	989					cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GCCTGTTCTGTATTGCAGCAT	0.522													12	79	---	---	---	---	PASS	A	151378546	A	A	151378546	3	1	159	1	0	0	0	0	1	0	0	0	12186	1638	57	5	1271	5	POGZ	1	151378546	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	32827824	151378546	97872075	9	56349										
C1orf77	26097	broad.mit.edu	37	chr1	153610803	153610803	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gctgaagaacaaacagccgaCgccagtgaatattcgggctt	11	10	0	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:153610803C>T	uc001fcm.1	+	3	410	c.98C>T	c.(97-99)ACG>ATG	p.T33M	C1orf77_uc001fcn.1_Missense_Mutation_p.T33M|C1orf77_uc001fco.1_Missense_Mutation_p.T8M|C1orf77_uc009woi.1_Missense_Mutation_p.T33M|C1orf77_uc009woj.1_Missense_Mutation_p.T33M	NM_015607	NP_056422	Q9Y3Y2	CHTOP_HUMAN	small protein rich in arginine and glycine	33					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	protein binding|RNA binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			AAACAGCCGACGCCAGTGAAT	0.428													14	144	---	---	---	---	PASS	T	153610803	T	T	153610803	3	4	159	1	0	0	0	0	1	0	0	0	2059	536	19	1	104	1	C1orf77	1	153610803	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	2232257	153610803	95639818	10	56350										
CD1C	911	broad.mit.edu	37	chr1	158259855	158259855	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	aagaaacatctgcaaatgacAtgctgtttctgcagtttctg	8	8	3	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:158259855A>C	uc001fru.2	+	1	293	c.1A>C	c.(1-3)ATG>CTG	p.M1L	CD1C_uc001frv.2_5'Flank	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	1					antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					TGCAAATGACATGCTGTTTCT	0.438													35	127	---	---	---	---	PASS	C	158259855	C	C	158259855	3	2	159	1	0	0	0	0	1	0	0	0	2976	217	8	5	3	5	CD1C	1	158259855	Missense_Mutation	SNP	A	TCGA-66-2780-01A-01D-1522-08	4649052	158259855	90990766	11	56351										
SPTA1	6708	broad.mit.edu	37	chr1	158590102	158590102	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	agtctgcttgagccctagccAgggaggccaagaagtcctca	12	12	2	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:158590102A>T	uc001fst.1	-	44	6474	c.6275T>A	c.(6274-6276)CTG>CAG	p.L2092Q		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2092	Spectrin 20.				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)					AGCCCTAGCCAGGGAGGCCAA	0.493													25	96	---	---	---	---	PASS	T	158590102	T	T	158590102	3	4	159	1	0	0	0	0	1	0	0	0	15115	188	7	5	1020	5	SPTA1	1	158590102	Missense_Mutation	SNP	A	TCGA-66-2780-01A-01D-1522-08	330247	158590102	90660519	12	56352										
F13B	2165	broad.mit.edu	37	chr1	197030071	197030071	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ccatccgtatgtgagacattCtacctcctctgtcttctttc	5	14	4	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:197030071C>G	uc001gtt.1	-	4	630	c.586G>C	c.(586-588)GAA>CAA	p.E196Q		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	196	Sushi 3.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						GTGAGACATTCTACCTCCTCT	0.398													34	165	---	---	---	---	PASS	G	197030071	G	G	197030071	3	3	159	1	0	0	0	0	1	0	0	0	5341	922	32	2	1435	2	F13B	1	197030071	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	38439969	197030071	52220550	13	56353										
ZP4	57829	broad.mit.edu	37	chr1	238053451	238053451	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ccacagtcggagtcattctgCagctcgtgcagcagcccttg	11	14	2	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:238053451C>A	uc001hym.2	-	2	201	c.201G>T	c.(199-201)CTG>CTT	p.L67L	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	67	Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			AGTCATTCTGCAGCTCGTGCA	0.557													9	127	---	---	---	---	PASS	A	238053451	A	A	238053451	2	1	159	1	0	0	0	0	0	0	0	1	18215	697	25	3		3	ZP4	1	238053451	Silent	SNP	C	TCGA-66-2780-01A-01D-1522-08	41023380	238053451	11197170	14	56354										
SDCCAG8	10806	broad.mit.edu	37	chr1	243507555	243507555	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tatcagctgaataaaaccaaCatggagaaggatgaggcaga	11	6	1	4			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:243507555C>A	uc001hzw.2	+	12	1551	c.1395C>A	c.(1393-1395)AAC>AAA	p.N465K	SDCCAG8_uc010pyk.1_Missense_Mutation_p.N320K|SDCCAG8_uc010pyl.1_Missense_Mutation_p.N277K|SDCCAG8_uc001hzx.2_Missense_Mutation_p.N277K	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	465	Potential.|Sufficient for homodimerization (By similarity).				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		ATAAAACCAACATGGAGAAGG	0.413													21	71	---	---	---	---	PASS	A	243507555	A	A	243507555	3	1	159	1	0	0	0	0	1	0	0	0	13959	477	17	3	1441	3	SDCCAG8	1	243507555	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	5454104	243507555	5743066	15	56355										
OR2M2	391194	broad.mit.edu	37	chr1	248343396	248343396	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tggtcctgggcatctttttaGtggccttcatgggaaactct	11	9	3	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr1:248343396G>A	uc010pzf.1	+	1	109	c.109G>A	c.(109-111)GTG>ATG	p.V37M		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	37	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CATCTTTTTAGTGGCCTTCAT	0.517													109	372	---	---	---	---	PASS	A	248343396	A	A	248343396	3	1	159	1	0	0	0	0	1	0	0	0	11010	1029	36	3	111	3	OR2M2	1	248343396	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	4835841	248343396	907225	16	56356										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48898734	48898734	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	catctttcgtctttaggaccCtttaaattctggagatgatg	8	8	3	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr2:48898734C>T	uc010yol.1	+	7	3262	c.3215C>T	c.(3214-3216)CCT>CTT	p.P1072L	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.P1119L|GTF2A1L_uc002rws.1_Missense_Mutation_p.P415L|GTF2A1L_uc010yom.1_Missense_Mutation_p.P381L|GTF2A1L_uc002rwt.2_Missense_Mutation_p.P415L	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	1072					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CTTTAGGACCCTTTAAATTCT	0.328													53	212	---	---	---	---	PASS	T	48898734	T	T	48898734	3	4	159	1	0	0	0	0	1	0	0	0	15316	681	24	3	3390	3	STON1-GTF2A1L	2	48898734	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08		48898734	194300639	17	56357										
MDH1	4190	broad.mit.edu	37	chr2	63834097	63834097	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	acagaagaaaaagaaagtgcTtttgaatttctttcctctgc	7	7	2	4			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr2:63834097T>A	uc002scj.1	+	9	1037	c.981T>A	c.(979-981)GCT>GCA	p.A327A	MDH1_uc010ypv.1_Silent_p.A345A|MDH1_uc010ypw.1_Silent_p.A232A	NM_005917	NP_005908	P40925	MDHC_HUMAN	cytosolic malate dehydrogenase	327					gluconeogenesis|tricarboxylic acid cycle	centrosome|cytosol	L-malate dehydrogenase activity|malic enzyme activity			kidney(2)	2					NADH(DB00157)	AAGAAAGTGCTTTTGAATTTC	0.358													39	122	---	---	---	---	PASS	A	63834097	A	A	63834097	2	1	159	1	0	0	0	0	0	0	0	1	9408	1596	56	5		5	MDH1	2	63834097	Silent	SNP	T	TCGA-66-2780-01A-01D-1522-08	14935363	63834097	179365276	18	56358										
ZNF638	27332	broad.mit.edu	37	chr2	71607682	71607682	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	aaagctgttgaaattgttacTtcaacttctgctggtaagtt	8	6	2	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr2:71607682T>G	uc002shx.2	+	10	2683	c.2364T>G	c.(2362-2364)ACT>ACG	p.T788T	ZNF638_uc010fec.2_Silent_p.T894T|ZNF638_uc010yqw.1_Silent_p.T367T|ZNF638_uc002shw.2_Silent_p.T788T|ZNF638_uc002shy.2_Silent_p.T788T|ZNF638_uc002shz.2_Silent_p.T788T|ZNF638_uc002sia.2_Silent_p.T788T|ZNF638_uc002sib.1_Silent_p.T788T|ZNF638_uc010fed.2_RNA	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	788					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AAATTGTTACTTCAACTTCTG	0.308													25	137	---	---	---	---	PASS	G	71607682	G	G	71607682	2	3	159	1	0	0	0	0	0	0	0	1	18052	1596	56	5		5	ZNF638	2	71607682	Silent	SNP	T	TCGA-66-2780-01A-01D-1522-08	7773585	71607682	171591691	19	56359										
SPOPL	339745	broad.mit.edu	37	chr2	139308568	139308568	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ctgccccaaaagtgaagttcGagcaaaattcaaattttccc	6	11	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr2:139308568G>C	uc002tvh.2	+	4	696	c.296G>C	c.(295-297)CGA>CCA	p.R99P		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	99	MATH.					nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		AGTGAAGTTCGAGCAAAATTC	0.368													38	178	---	---	---	---	PASS	C	139308568	C	C	139308568	3	2	159	1	0	0	0	0	1	0	0	0	15084	1058	37	2	306	2	SPOPL	2	139308568	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	67700886	139308568	103890805	20	56360										
TTN	7273	broad.mit.edu	37	chr2	179409130	179409130	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgcatttccagaacatatccTacaatgtcagtaccaccatc	4	13	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr2:179409130T>A	uc010zfg.1	-	294	88346	c.88122A>T	c.(88120-88122)GTA>GTT	p.V29374V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.V23069V|TTN_uc010zfi.1_Silent_p.V23002V|TTN_uc010zfj.1_Silent_p.V22877V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30301							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)			GAACATATCCTACAATGTCAG	0.463													20	111	---	---	---	---	PASS	A	179409130	A	A	179409130	2	1	159	1	0	0	0	0	0	0	0	1	16732	1509	53	5		5	TTN	2	179409130	Silent	SNP	T	TCGA-66-2780-01A-01D-1522-08	40100562	179409130	63790243	21	56361										
TMEFF2	23671	broad.mit.edu	37	chr2	193049091	193049091	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	cacacatacctgtggcacatGatccttctgacaccacaagt	6	14	1	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr2:193049091G>T	uc002utc.2	-	3	795	c.401C>A	c.(400-402)TCA>TAA	p.S134*	TMEFF2_uc002utd.1_Nonsense_Mutation_p.S134*	NM_016192	NP_057276	Q9UIK5	TEFF2_HUMAN	transmembrane protein with EGF-like and two	134	Kazal-like 1.|Extracellular (Potential).					extracellular region|integral to membrane				lung(2)|pancreas(1)|breast(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.0835)			TGTGGCACATGATCCTTCTGA	0.443													46	154	---	---	---	---	PASS	T	193049091	T	T	193049091	4	4	159	1	0	0	0	0	0	1	0	0	16011	1294	45	2	755	2	TMEFF2	2	193049091	Nonsense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	13639961	193049091	50150282	22	56362										
LOC200726	200726	broad.mit.edu	37	chr2	207509208	207509208	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gatctacctgaagtcatctgAgaacttgaagcatggagcac	10	9	3	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr2:207509208A>T	uc010fuh.1	+	2	423	c.248A>T	c.(247-249)GAG>GTG	p.E83V		NM_001102659	NP_001096129			hypothetical protein LOC200726												0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.115)|Lung(261;0.133)		AAGTCATCTGAGAACTTGAAG	0.488													21	80	---	---	---	---	PASS	T	207509208	T	T	207509208	3	4	159	1	0	0	0	0	1	0	0	0	8872	304	11	5	250	5	LOC200726	2	207509208	Missense_Mutation	SNP	A	TCGA-66-2780-01A-01D-1522-08	14460117	207509208	35690165	23	56363										
DYTN	391475	broad.mit.edu	37	chr2	207558005	207558005	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	cccctgaagaaggttgtttcTgagggtcctgaagagaagtt	13	7	1	5			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr2:207558005T>C	uc002vbr.1	-	9	991	c.874A>G	c.(874-876)AGA>GGA	p.R292G		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	292						plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		AGGTTGTTTCTGAGGGTCCTG	0.498													16	108	---	---	---	---	PASS	C	207558005	C	C	207558005	3	2	159	1	0	0	0	0	1	0	0	0	4861	1588	55	5	878	5	DYTN	2	207558005	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	48797	207558005	35641368	24	56364										
CYP27A1	1593	broad.mit.edu	37	chr2	219679704	219679704	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gagtgtggcccgcattgtccTggttcccaataagaaagtgg	13	9	0	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr2:219679704T>A	uc002viz.3	+	9	1981	c.1547T>A	c.(1546-1548)CTG>CAG	p.L516Q		NM_000784	NP_000775	Q02318	CP27A_HUMAN	cytochrome P450, family 27, subfamily A,	516					bile acid biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	cholestanetriol 26-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;9.48e-07)|all cancers(144;0.000171)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00981)	Cholecalciferol(DB00169)	CGCATTGTCCTGGTTCCCAAT	0.592													27	103	---	---	---	---	PASS	A	219679704	A	A	219679704	3	1	159	1	0	0	0	0	1	0	0	0	4158	1580	55	5	1581	5	CYP27A1	2	219679704	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	12121699	219679704	23519669	25	56365										
GRM7	2917	broad.mit.edu	37	chr3	7620360	7620361	+	Frame_Shift_Ins	INS	-	T	T													0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	aactggagtggcactcccccINStgggctgtgattcctgtctt							TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr3:7620360_7620361insT	uc003bqm.2	+	8	2041_2042	c.1767_1768insT	c.(1765-1770)CCCTGGfs	p.P589fs	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Frame_Shift_Ins_p.P589fs|GRM7_uc003bql.2_Frame_Shift_Ins_p.P589fs|GRM7_uc003bqn.1_Frame_Shift_Ins_p.P172fs|GRM7_uc010hch.1_Frame_Shift_Ins_p.P100fs	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	589_590	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	GGCACTCCCCCTGGGCTGTGAT	0.53													83	37	---	---	---	---		T	7620361	T	T	7620360	7	5	159	1	0	1	1	0	0	0	0	0	6802	668	24	0	1797	0	GRM7	3	7620360	Frame_Shift_Ins	INS	-	TCGA-66-2780-01A-01D-1522-08		7620360	190402070	26	56366										
KIAA1257	57501	broad.mit.edu	37	chr3	128696888	128696888	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	caaaggccttctccgctcacCttgcaaagactttgggtgtt	9	12	2	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr3:128696888C>G	uc003elj.3	-	5	1004	c.808G>C	c.(808-810)GGT>CGT	p.G270R	KIAA1257_uc003elg.1_Missense_Mutation_p.G270R|KIAA1257_uc003eli.3_Missense_Mutation_p.G158R	NM_020741	NP_065792	Q9ULG3	K1257_HUMAN	hypothetical protein LOC57501	270											0						CTCCGCTCACCTTGCAAAGAC	0.507													16	130	---	---	---	---	PASS	G	128696888	G	G	128696888	3	3	159	1	0	0	0	0	1	0	0	0	8218	695	24	4	437	4	KIAA1257	3	128696888	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	121076528	128696888	69325542	27	56367										
TNIK	23043	broad.mit.edu	37	chr3	170784432	170784432	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	atccggccataggtgtttacAtacaccccctcatcctcata	5	15	2	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr3:170784432A>G	uc003fhh.2	-	31	4137	c.3792T>C	c.(3790-3792)TAT>TAC	p.Y1264Y	TNIK_uc003fhi.2_Silent_p.Y1209Y|TNIK_uc003fhj.2_Silent_p.Y1235Y|TNIK_uc003fhk.2_Silent_p.Y1256Y|TNIK_uc003fhl.2_Silent_p.Y1180Y|TNIK_uc003fhm.2_Silent_p.Y1201Y|TNIK_uc003fhn.2_Silent_p.Y1227Y|TNIK_uc003fho.2_Silent_p.Y1172Y|TNIK_uc003fhg.2_Silent_p.Y442Y|TNIK_uc003fhp.2_Silent_p.Y196Y	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	1264	CNH.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			AGGTGTTTACATACACCCCCT	0.453													60	155	---	---	---	---	PASS	G	170784432	G	G	170784432	2	3	159	1	0	0	0	0	0	0	0	1	16310	224	8	5		5	TNIK	3	170784432	Silent	SNP	A	TCGA-66-2780-01A-01D-1522-08	42087544	170784432	27237998	28	56368										
LRCH3	84859	broad.mit.edu	37	chr3	197579450	197579450	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	agcaaaaagcatcacaaagtCcacaaaaacagcacccgctc	5	14	1	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr3:197579450C>G	uc011bul.1	+	13	1554	c.1549C>G	c.(1549-1551)CCA>GCA	p.P517A	LRCH3_uc003fyj.1_Missense_Mutation_p.P517A|LRCH3_uc011bum.1_Missense_Mutation_p.P489A|LRCH3_uc011bun.1_Missense_Mutation_p.P363A|LRCH3_uc003fyk.2_Missense_Mutation_p.P112A	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	517						extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		ATCACAAAGTCCACAAAAACA	0.373													28	320	---	---	---	---	PASS	G	197579450	G	G	197579450	3	3	159	1	0	0	0	0	1	0	0	0	8934	855	30	2	1599	2	LRCH3	3	197579450	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	26795018	197579450	442980	29	56369										
MED28	80306	broad.mit.edu	37	chr4	17616310	17616310	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ctagggggtatgttttctggGcagccacccggtccccctca	12	14	2	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr4:17616310G>T	uc003gpi.1	+	1	45	c.33G>T	c.(31-33)GGG>GGT	p.G11G	MED28_uc003gpj.2_RNA	NM_025205	NP_079481	Q9H204	MED28_HUMAN	mediator complex subunit 28	11					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|membrane|nucleus	actin binding				0						TGTTTTCTGGGCAGCCACCCG	0.647													17	67	---	---	---	---	PASS	T	17616310	T	T	17616310	2	4	159	1	0	0	0	0	0	0	0	1	9446	1190	42	3		3	MED28	4	17616310	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08		17616310	173537966	30	56370										
FAM13A	10144	broad.mit.edu	37	chr4	89950644	89950644	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	atattccactatattccacaCtactgctggaatgccattct	4	12	1	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr4:89950644C>T	uc003hse.1	-	2	392	c.184G>A	c.(184-186)GTG>ATG	p.V62M	FAM13A_uc003hsf.1_Translation_Start_Site|FAM13A_uc003hsh.1_Translation_Start_Site|FAM13A_uc003hsi.2_Missense_Mutation_p.V62M|FAM13A_uc003hsj.2_Missense_Mutation_p.V62M	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	62	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						ATATTCCACACTACTGCTGGA	0.398													57	183	---	---	---	---	PASS	T	89950644	T	T	89950644	3	4	159	1	0	0	0	0	1	0	0	0	5452	565	20	3	3012	3	FAM13A	4	89950644	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	72334334	89950644	101203632	31	56371										
ODZ3	55714	broad.mit.edu	37	chr4	183601476	183601476	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	aacttgccattgttttccagGatttctgggtccggattgtt	10	8	1	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr4:183601476G>A	uc003ivd.1	+	8	1650	c.1613G>A	c.(1612-1614)GGA>GAA	p.G538E	ODZ3_uc003ive.1_5'UTR	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	538	Extracellular (Potential).|EGF-like 1.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TGTTTTCCAGGATTTCTGGGT	0.413													14	45	---	---	---	---	PASS	A	183601476	A	A	183601476	3	1	159	1	0	0	0	0	1	0	0	0	10836	1174	41	2	1643	2	ODZ3	4	183601476	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	93650832	183601476	7552800	32	56372										
MTMR12	54545	broad.mit.edu	37	chr5	32243668	32243668	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ctactttccaacagagaaaaCcattttatatctgtgtccca	4	11	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr5:32243668C>G	uc003jhq.2	-	11	1229	c.1059G>C	c.(1057-1059)TGG>TGC	p.W353C	MTMR12_uc010iuk.2_Missense_Mutation_p.W353C|MTMR12_uc010iul.2_Missense_Mutation_p.W353C	NM_001040446	NP_001035536	Q9C0I1	MTMRC_HUMAN	myotubularin related protein 12	353	Myotubularin phosphatase.					cytoplasm	phosphatase activity			ovary(1)	1						ACAGAGAAAACCATTTTATAT	0.343													37	119	---	---	---	---	PASS	G	32243668	G	G	32243668	3	3	159	1	0	0	0	0	1	0	0	0	9941	508	18	4	1208	4	MTMR12	5	32243668	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08		32243668	148671592	33	56373										
RASA1	5921	broad.mit.edu	37	chr5	86685301	86685301	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgagatttgcgtggctcattCagatgaacttcgaacgctca	10	9	3	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr5:86685301C>G	uc003kiw.2	+	24	3135	c.3017C>G	c.(3016-3018)TCA>TGA	p.S1006*	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Nonsense_Mutation_p.S829*|RASA1_uc011ctv.1_Nonsense_Mutation_p.S839*|RASA1_uc011ctw.1_Nonsense_Mutation_p.S840*|RASA1_uc010jaw.2_Nonsense_Mutation_p.S828*	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	1006					cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		GTGGCTCATTCAGATGAACTT	0.458													58	176	---	---	---	---	PASS	G	86685301	G	G	86685301	4	3	159	1	0	0	0	0	0	1	0	0	13060	838	29	2	3123	2	RASA1	5	86685301	Nonsense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	54441633	86685301	94229959	34	56374										
SEC24A	10802	broad.mit.edu	37	chr5	134015299	134015299	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tttttttttccagcaattgcCtgtggttacctccagtacaa	6	10	0	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr5:134015299C>T	uc003kzs.2	+	8	1550	c.1262C>T	c.(1261-1263)CCT>CTT	p.P421L	SEC24A_uc011cxu.1_Missense_Mutation_p.P185L	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A	421					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CAGCAATTGCCTGTGGTTACC	0.363													47	140	---	---	---	---	PASS	T	134015299	T	T	134015299	3	4	159	1	0	0	0	0	1	0	0	0	13994	681	24	3	1292	3	SEC24A	5	134015299	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	47329998	134015299	46899961	35	56375										
PCDHB16	57717	broad.mit.edu	37	chr5	140564054	140564054	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gacgcagccaagcagaggctGgtggtgctggtcaaggacaa	16	9	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr5:140564054G>A	uc003liv.2	+	1	3075	c.1920G>A	c.(1918-1920)CTG>CTA	p.L640L	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	640	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCAGAGGCTGGTGGTGCTGG	0.701													9	16	---	---	---	---	PASS	A	140564054	A	A	140564054	2	1	159	1	0	0	0	0	0	0	0	1	11541	1335	47	3		3	PCDHB16	5	140564054	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08	6548755	140564054	40351206	36	56376										
PCDHB13	56123	broad.mit.edu	37	chr5	140594628	140594628	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	aaaaaacaactcgatttcgaAaaacttcagtcctatgaagt	5	8	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr5:140594628A>G	uc003lja.1	+	1	1120	c.933A>G	c.(931-933)GAA>GAG	p.E311E		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	311	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGATTTCGAAAAACTTCAGT	0.378													37	231	---	---	---	---	PASS	G	140594628	G	G	140594628	2	3	159	1	0	0	0	0	0	0	0	1	11538	11	1	5		5	PCDHB13	5	140594628	Silent	SNP	A	TCGA-66-2780-01A-01D-1522-08	30574	140594628	40320632	37	56377										
PCDHB15	56121	broad.mit.edu	37	chr5	140625809	140625809	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gtggacggtggctctccaccCcgatctggcaccgtccagat	12	15	2	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr5:140625809C>G	uc003lje.2	+	1	663	c.663C>G	c.(661-663)CCC>CCG	p.P221P		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	221	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTCTCCACCCCGATCTGGCA	0.592													14	36	---	---	---	---	PASS	G	140625809	G	G	140625809	2	3	159	1	0	0	0	0	0	0	0	1	11540	610	22	4		4	PCDHB15	5	140625809	Silent	SNP	C	TCGA-66-2780-01A-01D-1522-08	31181	140625809	40289451	38	56378										
PCDHGA2	56113	broad.mit.edu	37	chr5	140720501	140720501	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	accacggccagccccctctcTccgccactgtcacgctcacc	6	23	3	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr5:140720501T>C	uc003ljk.1	+	1	2148	c.1963T>C	c.(1963-1965)TCC>CCC	p.S655P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.S655P	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	655	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCCCCTCTCTCCGCCACTGT	0.701													18	26	---	---	---	---	PASS	C	140720501	C	C	140720501	3	2	159	1	0	0	0	0	1	0	0	0	11554	1551	54	5	1965	5	PCDHGA2	5	140720501	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	94692	140720501	40194759	39	56379										
PCDHGB3	56102	broad.mit.edu	37	chr5	140750023	140750023	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gcgaatgctatttctcttccTgctctctttgttagaccagg	8	11	2	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr5:140750023T>C	uc003ljw.1	+	1	62	c.62T>C	c.(61-63)CTG>CCG	p.L21P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc011dat.1_Missense_Mutation_p.L21P	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	21					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTCTCTTCCTGCTCTCTTTG	0.582													17	61	---	---	---	---	PASS	C	140750023	C	C	140750023	3	2	159	1	0	0	0	0	1	0	0	0	11564	1580	55	5	64	5	PCDHGB3	5	140750023	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	29522	140750023	40165237	40	56380										
ADAM19	8728	broad.mit.edu	37	chr5	156932793	156932793	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgggccatggtggcagccacGccaatggcattctcggagtg	15	11	1	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr5:156932793G>T	uc003lwz.2	-	11	1078	c.1014C>A	c.(1012-1014)GGC>GGA	p.G338G	ADAM19_uc003lww.1_Silent_p.G71G|ADAM19_uc003lwy.2_5'Flank|ADAM19_uc011ddr.1_Silent_p.G269G	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	338	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TGGCAGCCACGCCAATGGCAT	0.582													8	18	---	---	---	---	PASS	T	156932793	T	T	156932793	2	4	159	1	0	0	0	0	0	0	0	1	240	1074	38	1		1	ADAM19	5	156932793	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08	16182770	156932793	23982467	41	56381										
RARS	5917	broad.mit.edu	37	chr5	167944983	167944983	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	atgacttatttctccacactCtctgtgattatatatatgag	5	8	2	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr5:167944983C>G	uc003lzx.2	+	14	1830	c.1789C>G	c.(1789-1791)CTC>GTC	p.L597V	RARS_uc011deo.1_Missense_Mutation_p.L391V	NM_002887	NP_002878	P54136	SYRC_HUMAN	arginyl-tRNA synthetase	597					arginyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|skin(1)	3	Renal(175;0.000159)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0208)|all_neural(177;0.0227)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0693)|Epithelial(171;0.131)|OV - Ovarian serous cystadenocarcinoma(192;0.156)		TCTCCACACTCTCTGTGATTA	0.398													31	115	---	---	---	---	PASS	G	167944983	G	G	167944983	3	3	159	1	0	0	0	0	1	0	0	0	13058	913	32	2	1843	2	RARS	5	167944983	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	11012190	167944983	12970277	42	56382										
RANBP17	64901	broad.mit.edu	37	chr5	170351426	170351426	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gcagttggagcagttgtgcaCggtcagcagatgtgaatatg	15	6	1	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr5:170351426C>T	uc003mba.2	+	12	1356	c.1340C>T	c.(1339-1341)ACG>ATG	p.T447M	RANBP17_uc003max.1_RNA|RANBP17_uc003may.1_RNA|RANBP17_uc003maz.1_RNA|RANBP17_uc010jjr.1_RNA	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	447					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)			CAGTTGTGCACGGTCAGCAGA	0.413			T	TRD@	ALL								29	71	---	---	---	---	PASS	T	170351426	T	T	170351426	3	4	159	1	0	0	0	0	1	0	0	0	13027	536	19	1	1386	1	RANBP17	5	170351426	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	2406443	170351426	10563834	43	56383										
ZNF184	7738	broad.mit.edu	37	chr6	27419665	27419665	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tcccacattcatgacactgaTagggtttctctccagtatga	7	11	2	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr6:27419665T>C	uc003njj.2	-	5	2484	c.1673A>G	c.(1672-1674)TAT>TGT	p.Y558C	ZNF184_uc010jqv.2_Missense_Mutation_p.Y558C|ZNF184_uc003nji.2_Missense_Mutation_p.Y558C	NM_007149	NP_009080	Q99676	ZN184_HUMAN	zinc finger protein 184	558	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATGACACTGATAGGGTTTCTC	0.388													23	142	---	---	---	---	PASS	C	27419665	C	C	27419665	3	2	159	1	0	0	0	0	1	0	0	0	17748	1406	49	5	586	5	ZNF184	6	27419665	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08		27419665	143695402	44	56384										
BAT3	7917	broad.mit.edu	37	chr6	31609651	31609651	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ttgtagtggctggaaatgccCatggagaagcatcactacgt	12	8	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr6:31609651C>A	uc003nvg.3	-	16	2631	c.2317G>T	c.(2317-2319)GGG>TGG	p.G773W	BAT3_uc003nvf.3_Missense_Mutation_p.G767W|BAT3_uc003nvh.3_Missense_Mutation_p.G767W|BAT3_uc003nvi.3_Missense_Mutation_p.G767W|BAT3_uc011dnw.1_Missense_Mutation_p.G767W|BAT3_uc011dnx.1_Missense_Mutation_p.G641W	NM_004639	NP_004630	P46379	BAG6_HUMAN	HLA-B associated transcript-3 isoform a	773					apoptosis in response to endoplasmic reticulum stress|brain development|cell differentiation|chromatin modification|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|embryo development|internal peptidyl-lysine acetylation|kidney development|lung development|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|protein stabilization|spermatogenesis|synaptonemal complex assembly|tail-anchored membrane protein insertion into ER membrane|transport|ubiquitin-dependent protein catabolic process	BAT3 complex|nucleus	polyubiquitin binding|proteasome binding|ribosome binding				0						TGGAAATGCCCATGGAGAAGC	0.557													19	55	---	---	---	---	PASS	A	31609651	A	A	31609651	3	1	159	1	0	0	0	0	1	0	0	0	1322	594	21	3	1121	3	BAT3	6	31609651	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	4189986	31609651	139505416	45	56385										
PPARD	5467	broad.mit.edu	37	chr6	35393715	35393715	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	caccctgatgcccagtacctCttccccaagctgctgcagaa	7	17	1	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr6:35393715C>G	uc003okm.2	+	8	1494	c.1185C>G	c.(1183-1185)CTC>CTG	p.L395L	PPARD_uc003okn.2_Silent_p.L395L|PPARD_uc011dtb.1_Silent_p.L356L|PPARD_uc011dtc.1_Silent_p.L297L	NM_006238	NP_006229	Q03181	PPARD_HUMAN	peroxisome proliferative activated receptor,	395	Ligand-binding.				apoptosis|axon ensheathment|cholesterol metabolic process|decidualization|embryo implantation|fatty acid beta-oxidation|fatty acid transport|generation of precursor metabolites and energy|glucose metabolic process|glucose transport|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fat cell differentiation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|linoleic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1					Icosapent(DB00159)|Sulindac(DB00605)|Treprostinil(DB00374)	CCCAGTACCTCTTCCCCAAGC	0.607													19	68	---	---	---	---	PASS	G	35393715	G	G	35393715	2	3	159	1	0	0	0	0	0	0	0	1	12298	900	32	2		2	PPARD	6	35393715	Silent	SNP	C	TCGA-66-2780-01A-01D-1522-08	3784064	35393715	135721352	46	56386										
TTBK1	84630	broad.mit.edu	37	chr6	43250735	43250735	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	aagaggatgaggaagaagaaGaggaggaagaggaagaggag	20	0	0	7			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr6:43250735G>T	uc003ouq.1	+	14	2536	c.2257G>T	c.(2257-2259)GAG>TAG	p.E753*		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	753	Glu-rich.|Potential.					cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			ggaagaagaagaggaggaaga	0.264													9	19	---	---	---	---	PASS	T	43250735	T	T	43250735	4	4	159	1	0	0	0	0	0	1	0	0	16673	943	33	2	2307	2	TTBK1	6	43250735	Nonsense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	7857020	43250735	127864332	47	56387										
AARS2	57505	broad.mit.edu	37	chr6	44279932	44279932	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gctctcacacatttctggctGttggccacacgtcggaagcc	10	14	2	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr6:44279932G>C	uc010jza.1	-	2	315	c.312C>G	c.(310-312)AAC>AAG	p.N104K	SPATS1_uc003oxg.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	104					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	ATTTCTGGCTGTTGGCCACAC	0.542													11	95	---	---	---	---	PASS	C	44279932	C	C	44279932	3	2	159	1	0	0	0	0	1	0	0	0	20	1368	48	4	2729	4	AARS2	6	44279932	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	1029197	44279932	126835135	48	56388										
IMPG1	3617	broad.mit.edu	37	chr6	76713617	76713617	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tataacagcaaaagatgtggGcagctctgattgggtgtcag	13	6	2	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr6:76713617G>A	uc003pik.1	-	11	1316	c.1186C>T	c.(1186-1188)CCC>TCC	p.P396S		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	396					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				AAAGATGTGGGCAGCTCTGAT	0.383													20	86	---	---	---	---	PASS	A	76713617	A	A	76713617	3	1	159	1	0	0	0	0	1	0	0	0	7728	1203	42	3	1235	3	IMPG1	6	76713617	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	32433685	76713617	94401450	49	56389										
TPBG	7162	broad.mit.edu	37	chr6	83075249	83075249	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgccccctgaagatgagcggCagaaccggagcttcgagggc	15	12	0	4			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr6:83075249C>T	uc003pjn.3	+	3	1507	c.571C>T	c.(571-573)CAG>TAG	p.Q191*	TPBG_uc010kbj.2_Nonsense_Mutation_p.Q191*|TPBG_uc003pjo.2_Nonsense_Mutation_p.Q191*	NM_006670	NP_006661	Q13641	TPBG_HUMAN	trophoblast glycoprotein precursor	191	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(1)	1		all_cancers(76;0.000805)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0897)		BRCA - Breast invasive adenocarcinoma(397;0.107)		AGATGAGCGGCAGAACCGGAG	0.652													22	196	---	---	---	---	PASS	T	83075249	T	T	83075249	4	4	159	1	0	0	0	0	0	1	0	0	16391	711	25	3	573	3	TPBG	6	83075249	Nonsense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	6361632	83075249	88039818	50	56390										
DCBLD1	285761	broad.mit.edu	37	chr6	117862184	117862184	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	atcccctcggaagaaacatcCacaggtagagccgtgattgt	10	11	0	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr6:117862184C>T	uc003pxs.2	+	11	1478	c.1353C>T	c.(1351-1353)TCC>TCT	p.S451S	GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxr.1_Silent_p.S451S|DCBLD1_uc003pxt.1_Silent_p.S106S	NM_173674	NP_775945	Q8N8Z6	DCBD1_HUMAN	discoidin, CUB and LCCL domain containing 1	451	Extracellular (Potential).				cell adhesion	integral to membrane				ovary(1)	1		all_cancers(87;0.171)		GBM - Glioblastoma multiforme(226;0.0447)|OV - Ovarian serous cystadenocarcinoma(136;0.0921)|all cancers(137;0.125)		AAGAAACATCCACAGGTAGAG	0.418													14	47	---	---	---	---	PASS	T	117862184	T	T	117862184	2	4	159	1	0	0	0	0	0	0	0	1	4280	581	21	3		3	DCBLD1	6	117862184	Silent	SNP	C	TCGA-66-2780-01A-01D-1522-08	34786935	117862184	53252883	51	56391										
DGKB	1607	broad.mit.edu	37	chr7	14620493	14620493	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgcagctgctttacctcctcCccatcgcaggcatcttgcta	7	16	1	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr7:14620493C>G	uc003ssz.2	-	18	1793	c.1606G>C	c.(1606-1608)GGA>CGA	p.G536R	DGKB_uc011jxt.1_Missense_Mutation_p.G517R|DGKB_uc003sta.2_Missense_Mutation_p.G536R|DGKB_uc011jxu.1_Missense_Mutation_p.G535R	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	536	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	TTACCTCCTCCCCATCGCAGG	0.428													11	78	---	---	---	---	PASS	G	14620493	G	G	14620493	3	3	159	1	0	0	0	0	1	0	0	0	4466	632	22	4	855	4	DGKB	7	14620493	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08		14620493	144518170	52	56392										
NPVF	64111	broad.mit.edu	37	chr7	25266624	25266624	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ctcaaaattgaggcttctttCcccttttgggtatcctctag	7	11	3	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr7:25266624C>T	uc003sxo.2	-	2	207	c.160G>A	c.(160-162)GAA>AAA	p.E54K		NM_022150	NP_071433	Q9HCQ7	RFRP_HUMAN	neuropeptide VF precursor	54					neuropeptide signaling pathway	extracellular region|membrane	G-protein coupled receptor activity			ovary(1)	1						AGGCTTCTTTCCCCTTTTGGG	0.348													48	214	---	---	---	---	PASS	T	25266624	T	T	25266624	3	4	159	1	0	0	0	0	1	0	0	0	10605	864	30	2	438	2	NPVF	7	25266624	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	10646131	25266624	133872039	53	56393										
BBS9	27241	broad.mit.edu	37	chr7	33427616	33427616	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	cattgcagctacggataaatGgtgaaaaattagaagaactc	9	6	0	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr7:33427616G>T	uc003tdn.1	+	19	2488	c.1975G>T	c.(1975-1977)GGT>TGT	p.G659C	BBS9_uc003tdo.1_Missense_Mutation_p.G624C|BBS9_uc003tdp.1_Missense_Mutation_p.G654C|BBS9_uc003tdq.1_Missense_Mutation_p.G619C|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Missense_Mutation_p.G183C|BBS9_uc003tds.1_Missense_Mutation_p.G82C|BBS9_uc003tdt.2_RNA	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	659					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			ACGGATAAATGGTGAAAAATT	0.333									Bardet-Biedl_syndrome				55	280	---	---	---	---	PASS	T	33427616	T	T	33427616	3	4	159	1	0	0	0	0	1	0	0	0	1342	1348	47	3	2045	3	BBS9	7	33427616	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	8160992	33427616	125711047	54	56394										
HECW1	23072	broad.mit.edu	37	chr7	43484125	43484125	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgcaaaaggacatccagcctGcccccagtgcagaagagctg	11	13	0	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr7:43484125G>T	uc003tid.1	+	11	1959	c.1354G>T	c.(1354-1356)GCC>TCC	p.A452S	HECW1_uc011kbi.1_Missense_Mutation_p.A452S	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	452					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CATCCAGCCTGCCCCCAGTGC	0.642													4	19	---	---	---	---	PASS	T	43484125	T	T	43484125	3	4	159	1	0	0	0	0	1	0	0	0	7042	1319	46	3	1388	3	HECW1	7	43484125	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	10056509	43484125	115654538	55	56395										
PCLO	27445	broad.mit.edu	37	chr7	82581271	82581271	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gaaaaaatgtccagcttctgCtaaatttgtgtcagacatgg	9	7	2	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr7:82581271C>A	uc003uhx.2	-	5	9287	c.8998G>T	c.(8998-9000)GCA>TCA	p.A3000S	PCLO_uc003uhv.2_Missense_Mutation_p.A3000S|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2931					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CCAGCTTCTGCTAAATTTGTG	0.403													56	327	---	---	---	---	PASS	A	82581271	A	A	82581271	3	1	159	1	0	0	0	0	1	0	0	0	11583	797	28	3	6531	3	PCLO	7	82581271	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	39097146	82581271	76557392	56	56396										
TAS2R40	259286	broad.mit.edu	37	chr7	142919990	142919990	+	Frame_Shift_Del	DEL	T	-	-													0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	acgtccaacatctttgacacTtacagttcctggaatatttt							TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr7:142919990delT	uc011ksx.1	+	1	819	c.819delT	c.(817-819)ACTfs	p.T273fs		NM_176882	NP_795363	P59535	T2R40_HUMAN	taste receptor, type 2, member 40	273	Extracellular (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			ovary(1)	1	Melanoma(164;0.059)					TCTTTGACACTTACAGTTCCT	0.478													213	99	---	---	---	---		-	142919990	-	-	142919990	7	5	159	1	0	1	0	1	0	0	0	0	15575	1596	56	0	821	0	TAS2R40	7	142919990	Frame_Shift_Del	DEL	T	TCGA-66-2780-01A-01D-1522-08	60338719	142919990	16218673	57	56397										
ABP1	26	broad.mit.edu	37	chr7	150554527	150554527	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gtgctctacggcggctggagCtttgccttccggctgcgctc	14	14	1	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr7:150554527C>G	uc003why.1	+	3	5187	c.969C>G	c.(967-969)AGC>AGG	p.S323R	ABP1_uc003whz.1_Missense_Mutation_p.S323R|ABP1_uc003wia.1_Missense_Mutation_p.S323R	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	323					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	GCGGCTGGAGCTTTGCCTTCC	0.672													14	13	---	---	---	---	PASS	G	150554527	G	G	150554527	3	3	159	1	0	0	0	0	1	0	0	0	98	796	28	4	971	4	ABP1	7	150554527	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	7634537	150554527	8584136	58	56398										
TNKS	8658	broad.mit.edu	37	chr8	9634202	9634202	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	cttaccagatcatgaagccaGaagccccttcccagaccgca	7	16	1	4	rs140882876		TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr8:9634202G>A	uc003wss.2	+	27	3945	c.3940G>A	c.(3940-3942)GAA>AAA	p.E1314K	TNKS_uc011kww.1_Missense_Mutation_p.E1077K	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1314	PARP catalytic.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		CATGAAGCCAGAAGCCCCTTC	0.483													8	57	---	---	---	---	PASS	A	9634202	A	A	9634202	3	1	159	1	0	0	0	0	1	0	0	0	16316	943	33	2	4046	2	TNKS	8	9634202	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08		9634202	136729820	59	56399										
GATA4	2626	broad.mit.edu	37	chr8	11607664	11607664	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tcctgtgccaactgccagacCaccaccaccacgctgtggcg	9	18	0	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr8:11607664C>A	uc003wuc.2	+	4	1382	c.828C>A	c.(826-828)ACC>ACA	p.T276T	GATA4_uc003wub.1_Silent_p.T70T|GATA4_uc011kxc.1_Silent_p.T277T	NM_002052	NP_002043	P43694	GATA4_HUMAN	GATA binding protein 4	276	GATA-type 2.|Poly-Thr.				atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)		ACTGCCAGACCACCACCACCA	0.627													13	33	---	---	---	---	PASS	A	11607664	A	A	11607664	2	1	159	1	0	0	0	0	0	0	0	1	6256	581	21	3		3	GATA4	8	11607664	Silent	SNP	C	TCGA-66-2780-01A-01D-1522-08	1973462	11607664	134756358	60	56400										
COPS5	10987	broad.mit.edu	37	chr8	67970337	67970337	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ccaccactgctacaaatggtTcctggaactgctgattgagc	9	12	0	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr8:67970337T>C	uc003xxe.2	-	3	819	c.488A>G	c.(487-489)GAA>GGA	p.E163G	COPS5_uc003xxd.2_Missense_Mutation_p.E99G|COPS5_uc003xxf.2_Missense_Mutation_p.E208G|COPS5_uc010lyu.1_5'Flank|COPS5_uc010lyv.1_Missense_Mutation_p.E163G	NM_006837	NP_006828	Q92905	CSN5_HUMAN	COP9 signalosome subunit 5	163	MPN.				cullin deneddylation|transcription from RNA polymerase II promoter	eukaryotic translation initiation factor 3 complex|signalosome	metal ion binding|metallopeptidase activity|protein binding|transcription coactivator activity|translation initiation factor activity			ovary(1)|skin(1)	2	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00389)|OV - Ovarian serous cystadenocarcinoma(28;0.00691)|all cancers(69;0.0205)|BRCA - Breast invasive adenocarcinoma(89;0.153)			TACAAATGGTTCCTGGAACTG	0.378													26	139	---	---	---	---	PASS	C	67970337	C	C	67970337	3	2	159	1	0	0	0	0	1	0	0	0	3736	1783	62	5	540	5	COPS5	8	67970337	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	56362673	67970337	78393685	61	56401										
RDH10	157506	broad.mit.edu	37	chr8	74209534	74209534	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ctacctgacggctgaaagagTccgcaaggaggttggcgaag	15	9	0	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr8:74209534T>A	uc003xzi.2	+	2	655	c.395T>A	c.(394-396)GTC>GAC	p.V132D	RDH10_uc003xzj.2_5'UTR	NM_172037	NP_742034	Q8IZV5	RDH10_HUMAN	retinol dehydrogenase 10	132					retinal metabolic process|retinol metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|microsome	binding|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity				0	Breast(64;0.0954)		Epithelial(68;0.0105)|all cancers(69;0.0465)|BRCA - Breast invasive adenocarcinoma(89;0.0608)			GCTGAAAGAGTCCGCAAGGAG	0.512													36	150	---	---	---	---	PASS	A	74209534	A	A	74209534	3	1	159	1	0	0	0	0	1	0	0	0	13189	1667	58	5	401	5	RDH10	8	74209534	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	6239197	74209534	72154488	62	56402										
CSMD3	114788	broad.mit.edu	37	chr8	113256749	113256749	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	atacccatgagatggaaggtCcatccctacgacatttgcat	8	11	0	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr8:113256749C>G	uc003ynu.2	-	65	10435	c.10276G>C	c.(10276-10278)GAC>CAC	p.D3426H	CSMD3_uc003yns.2_Missense_Mutation_p.D2628H|CSMD3_uc003ynt.2_Missense_Mutation_p.D3386H|CSMD3_uc011lhx.1_Missense_Mutation_p.D3257H	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3426	Extracellular (Potential).|Sushi 28.					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						GATGGAAGGTCCATCCCTACG	0.408										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			28	129	---	---	---	---	PASS	G	113256749	G	G	113256749	3	3	159	1	0	0	0	0	1	0	0	0	3946	855	30	2	875	2	CSMD3	8	113256749	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	39047215	113256749	33107273	63	56403										
EFR3A	23167	broad.mit.edu	37	chr8	132980672	132980672	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgccattgctgctaaaggttCcataggtgagtgccaataaa	10	8	0	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr8:132980672C>G	uc003yte.2	+	9	1187	c.986C>G	c.(985-987)TCC>TGC	p.S329C		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	329						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			GCTAAAGGTTCCATAGGTGAG	0.403													17	58	---	---	---	---	PASS	G	132980672	G	G	132980672	3	3	159	1	0	0	0	0	1	0	0	0	4958	855	30	2	1020	2	EFR3A	8	132980672	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	19723923	132980672	13383350	64	56404										
XPA	7507	broad.mit.edu	37	chr9	100459559	100459559	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	cgccgcctccggcaaagcccCgtcggccgccgccatctctg	11	21	1	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr9:100459559C>T	uc004axr.3	-	1	133	c.16G>A	c.(16-18)GGG>AGG	p.G6R	XPA_uc004axs.3_RNA	NM_000380	NP_000371	P23025	XPA_HUMAN	xeroderma pigmentosum, complementation group A	6	Interaction with CEP164 and required for UV resistance.				nucleotide-excision repair, DNA damage removal	nucleoplasm	damaged DNA binding|metal ion binding|nucleotide binding|protein domain specific binding|protein homodimerization activity			breast(1)	1		Acute lymphoblastic leukemia(62;0.158)				GGCAAAGCCCCGTCGGCCGCC	0.726			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		NER	Xeroderma_Pigmentosum				12	22	---	---	---	---	PASS	T	100459559	T	T	100459559	3	4	159	1	0	0	0	0	1	0	0	0	17437	652	23	1	829	1	XPA	9	100459559	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08		100459559	40753872	65	56405										
GRIN3A	116443	broad.mit.edu	37	chr9	104433333	104433333	+	Missense_Mutation	SNP	G	A	A													0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tttctgagctgacgatggtgGaaccttttactctgatggaa							TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr9:104433333G>A	uc004bbp.1	-	3	1962	c.1361C>T	c.(1360-1362)TCC>TTC	p.S454F	GRIN3A_uc004bbq.1_Missense_Mutation_p.S454F	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	454	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	GACGATGGTGGAACCTTTTAC	0.493													71	205	---	---	---	---	PASS	A	104433333	A	A	104433333	3	1	159	1	0	0	0	0	1	0	0	0	6783	1174	41	2	2014	2	GRIN3A	9	104433333	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	3973774	104433333	36780098	66	56406	1002	2								
GRIN3A	116443	broad.mit.edu	37	chr9	104433334	104433334	+	Missense_Mutation	SNP	A	T	T													0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ttctgagctgacgatggtggAaccttttactctgatggaac							TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr9:104433334A>T	uc004bbp.1	-	3	1961	c.1360T>A	c.(1360-1362)TCC>ACC	p.S454T	GRIN3A_uc004bbq.1_Missense_Mutation_p.S454T	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	454	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	ACGATGGTGGAACCTTTTACT	0.498													71	203	---	---	---	---	PASS	T	104433334	T	T	104433334	3	4	159	1	0	0	0	0	1	0	0	0	6783	246	9	5	2015	5	GRIN3A	9	104433334	Missense_Mutation	SNP	A	TCGA-66-2780-01A-01D-1522-08	1	104433334	36780097	67	56407	1002	2								
SVEP1	79987	broad.mit.edu	37	chr9	113170734	113170734	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	aaggaaattaggggaggtggGgtacaaagaacaatcttaca	13	4	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr9:113170734G>A	uc010mtz.2	-	38	7483	c.7146C>T	c.(7144-7146)ACC>ACT	p.T2382T	SVEP1_uc010mty.2_Silent_p.T308T	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	2382	Sushi 17.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GGGGAGGTGGGGTACAAAGAA	0.458													15	46	---	---	---	---	PASS	A	113170734	A	A	113170734	2	1	159	1	0	0	0	0	0	0	0	1	15417	1219	43	3		3	SVEP1	9	113170734	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08	8737400	113170734	28042697	68	56408										
SARDH	1757	broad.mit.edu	37	chr9	136529034	136529034	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gtagattcccttcaccctctTgttgttggggtcgaagggcg	13	10	2	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr9:136529034T>C	uc004cep.3	-	21	2868	c.2734A>G	c.(2734-2736)AAG>GAG	p.K912E	SARDH_uc004ceo.2_Missense_Mutation_p.K912E|SARDH_uc011mdn.1_Missense_Mutation_p.K912E|SARDH_uc011mdo.1_Missense_Mutation_p.K744E|SARDH_uc004cen.2_Missense_Mutation_p.K362E	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	912					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		TTCACCCTCTTGTTGTTGGGG	0.592													61	132	---	---	---	---	PASS	C	136529034	C	C	136529034	3	2	159	1	0	0	0	0	1	0	0	0	13841	1821	63	5	26	5	SARDH	9	136529034	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	23358300	136529034	4684397	69	56409										
CUBN	8029	broad.mit.edu	37	chr10	16882993	16882993	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ataaaaggagcaggtactgtGgaaccacaaaacgttccagc	10	9	0	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr10:16882993G>C	uc001ioo.2	-	61	9769	c.9717C>G	c.(9715-9717)TCC>TCG	p.S3239S		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3239	CUB 24.				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)	CAGGTACTGTGGAACCACAAA	0.368													16	62	---	---	---	---	PASS	C	16882993	C	C	16882993	2	2	159	1	0	0	0	0	0	0	0	1	4051	1335	47	4		4	CUBN	10	16882993	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08		16882993	118651754	70	56410										
GPR158	57512	broad.mit.edu	37	chr10	25464669	25464669	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	cggccgctacgagttggcggGcctgccggggaagtggccag	19	12	0	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr10:25464669G>A	uc001isj.2	+	1	380	c.320G>A	c.(319-321)GGC>GAC	p.G107D	LOC100128811_uc010qde.1_Missense_Mutation_p.P95S	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	107	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GAGTTGGCGGGCCTGCCGGGG	0.677													7	39	---	---	---	---	PASS	A	25464669	A	A	25464669	3	1	159	1	0	0	0	0	1	0	0	0	6663	1203	42	3	322	3	GPR158	10	25464669	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	8581676	25464669	110070078	71	56411										
RET	5979	broad.mit.edu	37	chr10	43600539	43600539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gcgcgcgaggaggtggtgatGgtgcccttcccggtgaccgt	18	11	0	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr10:43600539G>T	uc001jal.2	+	4	955	c.765G>T	c.(763-765)ATG>ATT	p.M255I	RET_uc001jak.1_Missense_Mutation_p.M255I|RET_uc010qez.1_Missense_Mutation_p.M1I	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	255	Cadherin.|Extracellular (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	AGGTGGTGATGGTGCCCTTCC	0.716		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				5	25	---	---	---	---	PASS	T	43600539	T	T	43600539	3	4	159	1	0	0	0	0	1	0	0	0	13235	1348	47	3	779	3	RET	10	43600539	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	18135870	43600539	91934208	72	56412										
RBP3	5949	broad.mit.edu	37	chr10	48389921	48389921	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	agggcgctgcgcagagtgagGatggccagggctttctccag	17	10	1	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr10:48389921G>T	uc001jez.2	-	1	1071	c.957C>A	c.(955-957)ATC>ATA	p.I319I		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	319	4 X approximate tandem repeats.|1.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	GCAGAGTGAGGATGGCCAGGG	0.687													10	67	---	---	---	---	PASS	T	48389921	T	T	48389921	2	4	159	1	0	0	0	0	0	0	0	1	13157	1164	41	2		2	RBP3	10	48389921	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08	4789382	48389921	87144826	73	56413										
LRIT1	26103	broad.mit.edu	37	chr10	85991773	85991773	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gctgagagaagcctgtcagcCtcgctgacactgtgccggga	14	12	1	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr10:85991773C>A	uc001kcz.1	-	4	1804	c.1782G>T	c.(1780-1782)GAG>GAT	p.E594D		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	594	Cytoplasmic (Potential).|LRR 6.					integral to endoplasmic reticulum membrane					0						GCCTGTCAGCCTCGCTGACAC	0.562													9	44	---	---	---	---	PASS	A	85991773	A	A	85991773	3	1	159	1	0	0	0	0	1	0	0	0	8947	680	24	3	93	3	LRIT1	10	85991773	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	37601852	85991773	49542974	74	56414										
INPP5F	22876	broad.mit.edu	37	chr10	121571349	121571349	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	aacatgaagctttgcataagGaaaatcagagaagccaccag	9	8	1	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr10:121571349G>A	uc001leo.2	+	15	1934	c.1768G>A	c.(1768-1770)GAA>AAA	p.E590K		NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	590							phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		TTTGCATAAGGAAAATCAGAG	0.413													49	186	---	---	---	---	PASS	A	121571349	A	A	121571349	3	1	159	1	0	0	0	0	1	0	0	0	7758	1175	41	2	1826	2	INPP5F	10	121571349	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	35579576	121571349	13963398	75	56415										
FGFR2	2263	broad.mit.edu	37	chr10	123247514	123247514	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	catcgacttacattggtggtCtttttgtaatagtctatatt	7	6	2	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr10:123247514C>G	uc010qtk.1	-	15	2624	c.1977G>C	c.(1975-1977)AAG>AAC	p.K659N	FGFR2_uc010qtg.1_Missense_Mutation_p.K547N|FGFR2_uc010qth.1_Missense_Mutation_p.K544N|FGFR2_uc010qti.1_Missense_Mutation_p.K570N|FGFR2_uc010qtj.1_Missense_Mutation_p.K660N|FGFR2_uc010qtl.1_Missense_Mutation_p.K543N|FGFR2_uc010qtm.1_Missense_Mutation_p.K542N|FGFR2_uc001lfl.3_Missense_Mutation_p.K660N|FGFR2_uc001lfm.2_Missense_Mutation_p.K571N|FGFR2_uc001lfg.3_Missense_Mutation_p.K267N	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	659	Cytoplasmic (Potential).|Protein kinase.		K -> N (in craniosynostosis).		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	p.K659E(1)|p.K659N(1)|p.K659M(1)		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)	CATTGGTGGTCTTTTTGTAAT	0.448		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				62	260	---	---	---	---	PASS	G	123247514	G	G	123247514	3	3	159	1	0	0	0	0	1	0	0	0	5866	912	32	2	612	2	FGFR2	10	123247514	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	1676165	123247514	12287233	76	56416										
PWWP2B	170394	broad.mit.edu	37	chr10	134219581	134219581	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	agagccgtcttggcgagaagCgaaggtctcgtggtttggtt	16	7	2	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr10:134219581C>T	uc001lll.3	+	2	1606	c.1577C>T	c.(1576-1578)GCG>GTG	p.A526V	PWWP2B_uc009ybe.2_Intron	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	526	PWWP.										0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		TGGCGAGAAGCGAAGGTCTCG	0.493													8	115	---	---	---	---	PASS	T	134219581	T	T	134219581	3	4	159	1	0	0	0	0	1	0	0	0	12846	768	27	1	1583	1	PWWP2B	10	134219581	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	10972067	134219581	1315166	77	56417										
RAG1	5896	broad.mit.edu	37	chr11	36595189	36595189	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	caaccttcgacatctctgccGcatctgtgggaattctttta	7	12	3	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr11:36595189G>T	uc001mwu.3	+	2	459	c.335G>T	c.(334-336)CGC>CTC	p.R112L	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	112	Interaction with importin alpha-1.				histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				CATCTCTGCCGCATCTGTGGG	0.453									Familial_Hemophagocytic_Lymphohistiocytosis				35	161	---	---	---	---	PASS	T	36595189	T	T	36595189	3	4	159	1	0	0	0	0	1	0	0	0	13003	1087	38	1	337	1	RAG1	11	36595189	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08		36595189	98411327	78	56418										
OR4C15	81309	broad.mit.edu	37	chr11	55322705	55322705	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tttgttctttgtcccatgcaTatttgtatatacacgacctc	5	10	1	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr11:55322705T>C	uc010rig.1	+	1	923	c.923T>C	c.(922-924)ATA>ACA	p.I308T		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GTCCCATGCATATTTGTATAT	0.413										HNSCC(20;0.049)			76	298	---	---	---	---	PASS	C	55322705	C	C	55322705	3	2	159	1	0	0	0	0	1	0	0	0	11048	1406	49	5	925	5	OR4C15	11	55322705	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	18727516	55322705	79683811	79	56419										
SPRYD5	84767	broad.mit.edu	37	chr11	55658883	55658883	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gatggagaggagggactcttTcttcttggatgtgttaagga	15	4	3	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr11:55658883T>C	uc010rip.1	+	7	1226	c.1134T>C	c.(1132-1134)TTT>TTC	p.F378F	SPRYD5_uc010riq.1_Silent_p.F235F	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	378	B30.2/SPRY.					intracellular	zinc ion binding				0		all_epithelial(135;0.226)				AGGGACTCTTTCTTCTTGGAT	0.443													22	89	---	---	---	---	PASS	C	55658883	C	C	55658883	2	2	159	1	0	0	0	0	0	0	0	1	15110	1780	62	5		5	SPRYD5	11	55658883	Silent	SNP	T	TCGA-66-2780-01A-01D-1522-08	336178	55658883	79347633	80	56420										
OR5T2	219464	broad.mit.edu	37	chr11	55999725	55999725	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	aatggtgtaaaatattgacaCtatcatgtcatggtccgaag	9	6	2	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr11:55999725C>A	uc010rjc.1	-	1	937	c.937G>T	c.(937-939)GTG>TTG	p.V313L		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	313	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AATATTGACACTATCATGTCA	0.393													45	251	---	---	---	---	PASS	A	55999725	A	A	55999725	3	1	159	1	0	0	0	0	1	0	0	0	11182	565	20	3	141	3	OR5T2	11	55999725	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	340842	55999725	79006791	81	56421										
OR5M8	219484	broad.mit.edu	37	chr11	56258303	56258303	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	acaagccagcttaatcagtgGtgggtccgcacagtagaagt	12	9	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr11:56258303G>A	uc001nix.1	-	1	544	c.544C>T	c.(544-546)CCA>TCA	p.P182S		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					TTAATCAGTGGTGGGTCCGCA	0.463													44	117	---	---	---	---	PASS	A	56258303	A	A	56258303	3	1	159	1	0	0	0	0	1	0	0	0	11176	1261	44	3	395	3	OR5M8	11	56258303	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	258578	56258303	78748213	82	56422										
OR10Q1	219960	broad.mit.edu	37	chr11	57995454	57995454	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gcacctttgacatccttgttCctaaggctgtaaagcaaagg	9	10	0	1	rs149201883	byFrequency	TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr11:57995454C>A	uc010rkd.1	-	1	894	c.894G>T	c.(892-894)AGG>AGT	p.R298S		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	298	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				CATCCTTGTTCCTAAGGCTGT	0.542													46	216	---	---	---	---	PASS	A	57995454	A	A	57995454	3	1	159	1	0	0	0	0	1	0	0	0	10916	854	30	2	69	2	OR10Q1	11	57995454	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	1737151	57995454	77011062	83	56423										
OR4D6	219983	broad.mit.edu	37	chr11	59224673	59224673	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tcatctatcaccgtccccaaGttcctggtggatcttttatc	6	13	4	0	rs139230114	byFrequency	TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr11:59224673G>T	uc010rku.1	+	1	240	c.240G>T	c.(238-240)AAG>AAT	p.K80N		NM_001004708	NP_001004708	Q8NGJ1	OR4D6_HUMAN	olfactory receptor, family 4, subfamily D,	80	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCGTCCCCAAGTTCCTGGTGG	0.448													49	188	---	---	---	---	PASS	T	59224673	T	T	59224673	3	4	159	1	0	0	0	0	1	0	0	0	11058	1020	36	3	242	3	OR4D6	11	59224673	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	1229219	59224673	75781843	84	56424										
NRXN2	9379	broad.mit.edu	37	chr11	64390513	64390513	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgatcccggcccccgatcttGatggcagcctggctgttgaa	12	13	1	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr11:64390513G>C	uc001oap.2	-	6	1258	c.747C>G	c.(745-747)ATC>ATG	p.I249M	NRXN2_uc001oar.2_Missense_Mutation_p.I1295M|NRXN2_uc001oas.2_Missense_Mutation_p.I1225M|NRXN2_uc001oao.2_Translation_Start_Site|NRXN2_uc001oaq.2_Missense_Mutation_p.I962M	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	249	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CCCCGATCTTGATGGCAGCCT	0.483													7	17	---	---	---	---	PASS	C	64390513	C	C	64390513	3	2	159	1	0	0	0	0	1	0	0	0	10666	1280	45	2	1265	2	NRXN2	11	64390513	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	5165840	64390513	70616003	85	56425										
CTTN	2017	broad.mit.edu	37	chr11	70266527	70266527	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ctatgtgaaagggtttggagGaaaatttggtgtgcagacag	15	3	0	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr11:70266527G>A	uc001opv.3	+	10	907	c.701G>A	c.(700-702)GGA>GAA	p.G234E	CTTN_uc001opu.2_Missense_Mutation_p.G234E|CTTN_uc001opw.3_Missense_Mutation_p.G234E|CTTN_uc010rqm.1_5'UTR|CTTN_uc001opx.2_5'Flank	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	234	Cortactin 5.					cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		GGGTTTGGAGGAAAATTTGGT	0.443													19	89	---	---	---	---	PASS	A	70266527	A	A	70266527	3	1	159	1	0	0	0	0	1	0	0	0	4044	1174	41	2	731	2	CTTN	11	70266527	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	5876014	70266527	64739989	86	56426										
FAT3	120114	broad.mit.edu	37	chr11	92087169	92087169	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tttatttaaacccagattctGgtgttttacagcttaaaaaa	5	6	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr11:92087169G>C	uc001pdj.3	+	1	1908	c.1891G>C	c.(1891-1893)GGT>CGT	p.G631R		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	631	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CCCAGATTCTGGTGTTTTACA	0.373										TCGA Ovarian(4;0.039)			9	34	---	---	---	---	PASS	C	92087169	C	C	92087169	3	2	159	1	0	0	0	0	1	0	0	0	5691	1348	47	4	1893	4	FAT3	11	92087169	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	21820642	92087169	42919347	87	56427										
ZNF202	7753	broad.mit.edu	37	chr11	123601319	123601319	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	caggtaggacggtaagaaatTgttccagcacaagcagctct	11	9	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr11:123601319T>A	uc001pzd.1	-	4	678	c.278A>T	c.(277-279)CAA>CTA	p.Q93L	ZNF202_uc001pzc.1_5'UTR|ZNF202_uc001pze.1_Missense_Mutation_p.Q93L|ZNF202_uc001pzf.1_Missense_Mutation_p.Q93L	NM_003455	NP_003446	O95125	ZN202_HUMAN	zinc finger protein 202	93	SCAN box.				lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.03)		GGTAAGAAATTGTTCCAGCAC	0.557													27	109	---	---	---	---	PASS	A	123601319	A	A	123601319	3	1	159	1	0	0	0	0	1	0	0	0	17760	1812	63	5	1692	5	ZNF202	11	123601319	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	31514150	123601319	11405197	88	56428										
ROBO4	54538	broad.mit.edu	37	chr11	124767626	124767626	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	agggagagcaactcacccatGatgagcaggagcagcagagg	15	9	1	4			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr11:124767626G>A	uc001qbg.2	-	1	206	c.66C>T	c.(64-66)ATC>ATT	p.I22I	ROBO4_uc010sas.1_5'UTR|ROBO4_uc001qbh.2_Silent_p.I22I|ROBO4_uc010sat.1_5'Flank	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	22					angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		ACTCACCCATGATGAGCAGGA	0.632													20	57	---	---	---	---	PASS	A	124767626	A	A	124767626	2	1	159	1	0	0	0	0	0	0	0	1	13516	1280	45	2		2	ROBO4	11	124767626	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08	1166307	124767626	10238890	89	56429										
CCND2	894	broad.mit.edu	37	chr12	4383320	4383320	+	Silent	SNP	T	C	C													0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	accatcgaggagcgctacctTccgcagtgctcctacttcaa					rs146122734	byFrequency	TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr12:4383320T>C	uc001qmo.2	+	1	419	c.114T>C	c.(112-114)CTT>CTC	p.L38L		NM_001759	NP_001750	P30279	CCND2_HUMAN	cyclin D2	38	Cyclin N-terminal.				cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding			haematopoietic_and_lymphoid_tissue(1)|breast(1)|kidney(1)	3			all cancers(3;4.15e-10)|GBM - Glioblastoma multiforme(3;6.34e-05)|Colorectal(7;0.00245)|OV - Ovarian serous cystadenocarcinoma(31;0.00301)|COAD - Colon adenocarcinoma(12;0.0264)|STAD - Stomach adenocarcinoma(119;0.206)			AGCGCTACCTTCCGCAGTGCT	0.657			T	IGL@	NHL,CLL								16	81	---	---	---	---	PASS	C	4383320	C	C	4383320	2	2	159	1	0	0	0	0	0	0	0	1	2917	1770	62	5		5	CCND2	12	4383320	Silent	SNP	T	TCGA-66-2780-01A-01D-1522-08		4383320	129468575	90	56430	1003	2								
CCND2	894	broad.mit.edu	37	chr12	4383326	4383326	+	Missense_Mutation	SNP	G	T	T													0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gaggagcgctaccttccgcaGtgctcctacttcaagtgcgt							TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr12:4383326G>T	uc001qmo.2	+	1	425	c.120G>T	c.(118-120)CAG>CAT	p.Q40H		NM_001759	NP_001750	P30279	CCND2_HUMAN	cyclin D2	40	Cyclin N-terminal.				cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding			haematopoietic_and_lymphoid_tissue(1)|breast(1)|kidney(1)	3			all cancers(3;4.15e-10)|GBM - Glioblastoma multiforme(3;6.34e-05)|Colorectal(7;0.00245)|OV - Ovarian serous cystadenocarcinoma(31;0.00301)|COAD - Colon adenocarcinoma(12;0.0264)|STAD - Stomach adenocarcinoma(119;0.206)			ACCTTCCGCAGTGCTCCTACT	0.652			T	IGL@	NHL,CLL								17	85	---	---	---	---	PASS	T	4383326	T	T	4383326	3	4	159	1	0	0	0	0	1	0	0	0	2917	1020	36	3	122	3	CCND2	12	4383326	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	6	4383326	129468569	91	56431	1003	2								
ACSM4	341392	broad.mit.edu	37	chr12	7479581	7479581	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ttctgttgcaggtggtgaaaGcttttgttgtcttagctgca	12	6	2	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr12:7479581G>A	uc001qsx.1	+	12	1546	c.1546G>A	c.(1546-1548)GCT>ACT	p.A516T		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	516					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						GGTGGTGAAAGCTTTTGTTGT	0.363													4	38	---	---	---	---	PASS	A	7479581	A	A	7479581	3	1	159	1	0	0	0	0	1	0	0	0	186	971	34	3	1592	3	ACSM4	12	7479581	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	3096255	7479581	126372314	92	56432										
APOBEC1	339	broad.mit.edu	37	chr12	7803649	7803649	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	cagtgcagctccagtgcgtaCaacatcatccacagaggtgg	11	12	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr12:7803649C>T	uc001qtb.2	-	4	565	c.531G>A	c.(529-531)TTG>TTA	p.L177L	APOBEC1_uc001qtc.2_Silent_p.L132L|APOBEC1_uc010sgf.1_Silent_p.L177L	NM_001644	NP_001635	P41238	ABEC1_HUMAN	apolipoprotein B mRNA editing enzyme	177					cytidine to uridine editing|DNA demethylation|lipid metabolic process|mRNA modification|mRNA processing|negative regulation of methylation-dependent chromatin silencing	nucleoplasm	cytidine deaminase activity|RNA binding|zinc ion binding				0						CCAGTGCGTACAACATCATCC	0.443													57	184	---	---	---	---	PASS	T	7803649	T	T	7803649	2	4	159	1	0	0	0	0	0	0	0	1	787	477	17	3		3	APOBEC1	12	7803649	Silent	SNP	C	TCGA-66-2780-01A-01D-1522-08	324068	7803649	126048246	93	56433										
PDE3A	5139	broad.mit.edu	37	chr12	20799885	20799885	+	Splice_Site	SNP	G	T	T													0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ttgcaactagtgctcctcagGtaaatctttagattttggtt							TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr12:20799885G>T	uc001reh.1	+	12	2587	c.2565_splice	c.e12+1	p.Q855_splice		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A						lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	TGCTCCTCAGGTAAATCTTTA	0.403													41	144	---	---	---	---	PASS	T	20799885	T	T	20799885	5	4	159	1	0	0	0	0	0	0	1	0	11637	1275	44	3	2612	3	PDE3A	12	20799885	Splice_Site	SNP	G	TCGA-66-2780-01A-01D-1522-08	12996236	20799885	113052010	94	56434	1004	2								
PDE3A	5139	broad.mit.edu	37	chr12	20799886	20799886	+	Splice_Site	SNP	T	A	A													0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgcaactagtgctcctcaggTaaatctttagattttggtta							TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr12:20799886T>A	uc001reh.1	+	12	2587	c.2565_splice	c.e12+2	p.Q855_splice		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A						lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	GCTCCTCAGGTAAATCTTTAG	0.408													40	144	---	---	---	---	PASS	A	20799886	A	A	20799886	5	1	159	1	0	0	0	0	0	0	1	0	11637	1652	57	5	2613	5	PDE3A	12	20799886	Splice_Site	SNP	T	TCGA-66-2780-01A-01D-1522-08	1	20799886	113052009	95	56435	1004	2								
MLL2	8085	broad.mit.edu	37	chr12	49421838	49421838	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ggctcagtgcctgcccgggcGgggctctctgggaacagcac	16	14	2	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr12:49421838G>A	uc001rta.3	-	46	14469	c.14469C>T	c.(14467-14469)CCC>CCT	p.P4823P		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4823					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTGCCCGGGCGGGGCTCTCTG	0.622			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			12	66	---	---	---	---	PASS	A	49421838	A	A	49421838	2	1	159	1	0	0	0	0	0	0	0	1	9621	1103	39	1		1	MLL2	12	49421838	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08	28621952	49421838	84430057	96	56436										
MLL2	8085	broad.mit.edu	37	chr12	49445909	49445909	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gactcttccggtggagacaaGggcgactcctccagtggaga	14	11	1	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr12:49445909G>A	uc001rta.3	-	10	1557	c.1557C>T	c.(1555-1557)CCC>CCT	p.P519P		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	519	15 X 5 AA repeats of S/P-P-P-E/P-E/A.|Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GTGGAGACAAGGGCGACTCCT	0.607			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			15	54	---	---	---	---	PASS	A	49445909	A	A	49445909	2	1	159	1	0	0	0	0	0	0	0	1	9621	987	35	3		3	MLL2	12	49445909	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08	24071	49445909	84405986	97	56437										
KIF5A	3798	broad.mit.edu	37	chr12	57974791	57974791	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gcttcctaaattggaaaaacGacttagggctacggctgaga	11	8	0	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr12:57974791G>T	uc001sor.1	+	24	2799	c.2591G>T	c.(2590-2592)CGA>CTA	p.R864L	KIF5A_uc010srr.1_Missense_Mutation_p.R775L	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	864					blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						TTGGAAAAACGACTTAGGGCT	0.557													11	41	---	---	---	---	PASS	T	57974791	T	T	57974791	3	4	159	1	0	0	0	0	1	0	0	0	8305	1058	37	2	2685	2	KIF5A	12	57974791	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	8528882	57974791	75877104	98	56438										
CNOT2	4848	broad.mit.edu	37	chr12	70740017	70740017	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gtatggattaccagggcaccAggcatggagccaacaatgaa	12	9	0	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr12:70740017A>G	uc001svv.2	+	15	2028	c.1449A>G	c.(1447-1449)CCA>CCG	p.P483P	CNOT2_uc009zro.2_Silent_p.P483P|CNOT2_uc009zrp.2_Silent_p.P463P|CNOT2_uc009zrq.2_Silent_p.P483P	NM_014515	NP_055330	Q9NZN8	CNOT2_HUMAN	CCR4-NOT transcription complex, subunit 2	483					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	protein binding|RNA polymerase II transcription cofactor activity				0	Renal(347;0.236)		GBM - Glioblastoma multiforme(1;4.77e-09)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			CCAGGGCACCAGGCATGGAGC	0.373													25	138	---	---	---	---	PASS	G	70740017	G	G	70740017	2	3	159	1	0	0	0	0	0	0	0	1	3619	175	7	5		5	CNOT2	12	70740017	Silent	SNP	A	TCGA-66-2780-01A-01D-1522-08	12765226	70740017	63111878	99	56439										
MED13L	23389	broad.mit.edu	37	chr12	116457205	116457205	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	caaatgctgaagggtaaaccAtccgaacaccacctataagc	7	12	0	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr12:116457205A>C	uc001tvw.2	-	7	888	c.833T>G	c.(832-834)ATG>AGG	p.M278R		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	278					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		AGGGTAAACCATCCGAACACC	0.438													16	82	---	---	---	---	PASS	C	116457205	C	C	116457205	3	2	159	1	0	0	0	0	1	0	0	0	9431	217	8	5	5899	5	MED13L	12	116457205	Missense_Mutation	SNP	A	TCGA-66-2780-01A-01D-1522-08	45717188	116457205	17394690	100	56440										
FLT3	2322	broad.mit.edu	37	chr13	28601260	28601260	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gattggaaagtggggtaaaaActgaaattgtgttccttgaa	12	3	0	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr13:28601260A>T	uc001urw.2	-	17	2254	c.2172T>A	c.(2170-2172)AGT>AGA	p.S724R	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Missense_Mutation_p.S724R	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	724	Protein kinase.|Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	TGGGGTAAAAACTGAAATTGT	0.383			Mis|O		AML|ALL								64	214	---	---	---	---	PASS	T	28601260	T	T	28601260	3	4	159	1	0	0	0	0	1	0	0	0	5942	40	2	5	841	5	FLT3	13	28601260	Missense_Mutation	SNP	A	TCGA-66-2780-01A-01D-1522-08		28601260	86568618	101	56441										
DCLK1	9201	broad.mit.edu	37	chr13	36521578	36521578	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgtcatcatcaccaaaaaagTcctgaaggcacatcacctac	5	13	4	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr13:36521578T>G	uc001uvf.2	-	4	973	c.740A>C	c.(739-741)GAC>GCC	p.D247A		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	247	Doublecortin 2.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		ACCAAAAAAGTCCTGAAGGCA	0.423													10	29	---	---	---	---	PASS	G	36521578	G	G	36521578	3	3	159	1	0	0	0	0	1	0	0	0	4291	1667	58	5	1509	5	DCLK1	13	36521578	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	7920318	36521578	78648300	102	56442										
MYH7	4625	broad.mit.edu	37	chr14	23894936	23894936	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	aaacttgtactggttgtgatCaatgtccagggagctgagca	12	7	1	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr14:23894936C>G	uc001wjx.2	-	20	2360	c.2254G>C	c.(2254-2256)GAT>CAT	p.D752H		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	752	Myosin head-like.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TGGTTGTGATCAATGTCCAGG	0.498													24	137	---	---	---	---	PASS	G	23894936	G	G	23894936	3	3	159	1	0	0	0	0	1	0	0	0	10039	826	29	2	3637	2	MYH7	14	23894936	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08		23894936	83454604	103	56443										
DHRS4L2	317749	broad.mit.edu	37	chr14	24470139	24470139	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ggtgccagaaatggagaaacGagggtacagagagtgagaga	17	4	0	5			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr14:24470139G>A	uc001wli.3	+	4	606	c.476G>A	c.(475-477)CGA>CAA	p.R159Q	DHRS4_uc001wlc.3_Intron|DHRS4L2_uc001wld.3_Intron|DHRS4L2_uc001wle.3_Intron|DHRS4L2_uc001wlg.3_Intron|DHRS4L2_uc001wlh.3_Intron|DHRS4L2_uc010tnt.1_Intron|DHRS4L2_uc010alb.2_Missense_Mutation_p.R33Q	NM_198083	NP_932349	D5KJA1	D5KJA1_HUMAN	dehydrogenase/reductase (SDR family) member 4	97							binding|oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00962)		ATGGAGAAACGAGGGTACAGA	0.547													11	69	---	---	---	---	PASS	A	24470139	A	A	24470139	3	1	159	1	0	0	0	0	1	0	0	0	4494	1058	37	2	490	2	DHRS4L2	14	24470139	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	575203	24470139	82879401	104	56444										
LTBP2	4053	broad.mit.edu	37	chr14	75070376	75070376	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgctgtttgctgttgtccatCctgggcagcactgtcccccg	11	14	0	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr14:75070376C>G	uc001xqa.2	-	2	914	c.527G>C	c.(526-528)GGA>GCA	p.G176A		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	176					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		TGTTGTCCATCCTGGGCAGCA	0.562													21	54	---	---	---	---	PASS	G	75070376	G	G	75070376	3	3	159	1	0	0	0	0	1	0	0	0	9074	855	30	2	5078	2	LTBP2	14	75070376	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	50600237	75070376	32279164	105	56445										
PACS2	23241	broad.mit.edu	37	chr14	105860993	105860993	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	catctgcatcttcggacactCcaaggccaccttctagcccc	6	18	3	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr14:105860993C>G	uc001yqt.2	+	24	2829	c.2654C>G	c.(2653-2655)TCC>TGC	p.S885C	PACS2_uc001yqs.2_Missense_Mutation_p.S810C|PACS2_uc001yqv.2_Missense_Mutation_p.S889C|PACS2_uc001yqu.2_Missense_Mutation_p.S900C	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	885					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		TTCGGACACTCCAAGGCCACC	0.597													19	106	---	---	---	---	PASS	G	105860993	G	G	105860993	3	3	159	1	0	0	0	0	1	0	0	0	11373	855	30	2	2760	2	PACS2	14	105860993	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	30790617	105860993	1488547	106	56446										
SNRPN	6638	broad.mit.edu	37	chr15	25220572	25220572	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gagatgtatcctgcaagatgGccgaatcttcattggcacct	10	10	2	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr15:25220572G>T	uc001ywp.1	+	8	961	c.71G>T	c.(70-72)GGC>GTC	p.G24V	SNRPN_uc001ywq.1_Missense_Mutation_p.G24V|SNRPN_uc001ywr.1_Missense_Mutation_p.G24V|SNRPN_uc001yws.1_Missense_Mutation_p.G24V|SNRPN_uc001ywt.1_Missense_Mutation_p.G24V|SNRPN_uc001ywv.1_Missense_Mutation_p.G27V|SNRPN_uc001yww.1_Missense_Mutation_p.G24V|SNRPN_uc001ywx.1_Missense_Mutation_p.G24V|SNRPN_uc001ywz.1_Intron|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	24					RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		CTGCAAGATGGCCGAATCTTC	0.418									Prader-Willi_syndrome				31	174	---	---	---	---	PASS	T	25220572	T	T	25220572	3	4	159	1	0	0	0	0	1	0	0	0	14870	1203	42	3	77	3	SNRPN	15	25220572	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08		25220572	77310820	107	56447										
TRPM1	4308	broad.mit.edu	37	chr15	31294542	31294542	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ttctggacttcattgttttaCaagcattgatcgtttcatcg	7	8	3	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr15:31294542C>A	uc001zfm.2	-	27	4423	c.4295G>T	c.(4294-4296)TGT>TTT	p.C1432F	TRPM1_uc010azy.2_Missense_Mutation_p.C1339F|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1432	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		CATTGTTTTACAAGCATTGAT	0.448													52	222	---	---	---	---	PASS	A	31294542	A	A	31294542	3	1	159	1	0	0	0	0	1	0	0	0	16582	478	17	3	520	3	TRPM1	15	31294542	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	6073970	31294542	71236850	108	56448										
CHRM5	1133	broad.mit.edu	37	chr15	34356323	34356323	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tcctggtttctaccttctgtGacaagtgtgtcccagtcacc	8	13	3	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr15:34356323G>C	uc001zhk.1	+	3	2075	c.1405G>C	c.(1405-1407)GAC>CAC	p.D469H	CHRM5_uc001zhl.1_Missense_Mutation_p.D469H	NM_012125	NP_036257	P08912	ACM5_HUMAN	cholinergic receptor, muscarinic 5	469	Extracellular (By similarity).				cell proliferation|inhibition of adenylate cyclase activity by muscarinic acetylcholine receptor signaling pathway	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;1.76e-08)		all cancers(64;4.82e-17)|GBM - Glioblastoma multiforme(113;2.58e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0262)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)	TACCTTCTGTGACAAGTGTGT	0.507													30	162	---	---	---	---	PASS	C	34356323	C	C	34356323	3	2	159	1	0	0	0	0	1	0	0	0	3380	1290	45	2	1407	2	CHRM5	15	34356323	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	3061781	34356323	68175069	109	56449										
ATPBD4	89978	broad.mit.edu	37	chr15	35746978	35746978	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ctcgaatacgctgatagtcaGaaagtatagcacctactgat	8	9	1	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr15:35746978G>C	uc001zja.2	-	4	418	c.356C>G	c.(355-357)TCT>TGT	p.S119C	ATPBD4_uc001ziz.2_Missense_Mutation_p.S103C	NM_080650	NP_542381	Q7L8W6	ATBD4_HUMAN	ATP binding domain 4 isoform 1	119											0		all_epithelial(112;2.11e-09)|Lung NSC(122;2.38e-08)|all_lung(180;3.65e-07)		all cancers(64;9.9e-19)|GBM - Glioblastoma multiforme(113;2.01e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)		CTGATAGTCAGAAAGTATAGC	0.284													28	166	---	---	---	---	PASS	C	35746978	C	C	35746978	3	2	159	1	0	0	0	0	1	0	0	0	1202	942	33	2	471	2	ATPBD4	15	35746978	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	1390655	35746978	66784414	110	56450										
ZSCAN29	146050	broad.mit.edu	37	chr15	43662013	43662013	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	cagagttggctgaaagcctcCcgcggcccagccacctcctg	11	17	0	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr15:43662013C>G	uc001zrk.1	-	1	246	c.99G>C	c.(97-99)CGG>CGC	p.R33R	ZSCAN29_uc001zrj.1_5'Flank|ZSCAN29_uc010bdf.1_Silent_p.R32R|ZSCAN29_uc001zrl.1_RNA|ZSCAN29_uc010bdg.1_Silent_p.R32R|ZSCAN29_uc001zrm.2_Silent_p.R32R|TUBGCP4_uc001zrn.2_5'Flank|TUBGCP4_uc001zro.2_5'Flank	NM_152455	NP_689668	Q8IWY8	ZSC29_HUMAN	zinc finger protein 690	33	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.97e-07)		TGAAAGCCTCCCGCGGCCCAG	0.542													14	97	---	---	---	---	PASS	G	43662013	G	G	43662013	2	3	159	1	0	0	0	0	0	0	0	1	18233	610	22	4		4	ZSCAN29	15	43662013	Silent	SNP	C	TCGA-66-2780-01A-01D-1522-08	7915035	43662013	58869379	111	56451										
TP53BP1	7158	broad.mit.edu	37	chr15	43762214	43762214	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	accactttgaagtttcttctGaaaaggctctcctccttctt	5	12	4	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr15:43762214G>A	uc001zrs.2	-	11	1364	c.1216C>T	c.(1216-1218)CAG>TAG	p.Q406*	TP53BP1_uc010udp.1_Nonsense_Mutation_p.Q406*|TP53BP1_uc001zrq.3_Nonsense_Mutation_p.Q411*|TP53BP1_uc001zrr.3_Nonsense_Mutation_p.Q411*|TP53BP1_uc010udq.1_Nonsense_Mutation_p.Q411*	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	406					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		AGTTTCTTCTGAAAAGGCTCT	0.423								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					44	157	---	---	---	---	PASS	A	43762214	A	A	43762214	4	1	159	1	0	0	0	0	0	1	0	0	16380	1299	45	2	4774	2	TP53BP1	15	43762214	Nonsense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	100201	43762214	58769178	112	56452										
WDR72	256764	broad.mit.edu	37	chr15	53992045	53992045	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tcatcctcacaggaaaaaggTgcttccgggcatgcaggagg	13	10	2	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr15:53992045T>G	uc002acj.2	-	13	1709	c.1667A>C	c.(1666-1668)CAC>CCC	p.H556P	WDR72_uc010bfi.1_Missense_Mutation_p.H556P	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	556	WD 8.									lung(1)|skin(1)	2				all cancers(107;0.0511)		AGGAAAAAGGTGCTTCCGGGC	0.468													71	250	---	---	---	---	PASS	G	53992045	G	G	53992045	3	3	159	1	0	0	0	0	1	0	0	0	17319	1696	59	5	1673	5	WDR72	15	53992045	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	10229831	53992045	48539347	113	56453										
IGDCC3	9543	broad.mit.edu	37	chr15	65623451	65623451	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ggccccccttggtgtgtaggCcttgatgtagaaactgtagg	14	9	0	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr15:65623451C>T	uc002aos.2	-	9	1750	c.1498G>A	c.(1498-1500)GCC>ACC	p.A500T	IGDCC3_uc002aor.1_5'Flank	NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	500	Extracellular (Potential).|Fibronectin type-III 1.									ovary(3)	3						GGTGTGTAGGCCTTGATGTAG	0.607													51	247	---	---	---	---	PASS	T	65623451	T	T	65623451	3	4	159	1	0	0	0	0	1	0	0	0	7568	739	26	3	970	3	IGDCC3	15	65623451	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	11631406	65623451	36907941	114	56454										
TLE3	7090	broad.mit.edu	37	chr15	70351755	70351755	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gggcctgcccatacctcattGgaaacatccaccaccagatc	7	16	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr15:70351755G>A	uc002asm.2	-	10	1878	c.759C>T	c.(757-759)TCC>TCT	p.S253S	TLE3_uc002ask.2_Silent_p.S197S|TLE3_uc002asl.2_Silent_p.S258S|TLE3_uc010ukd.1_Silent_p.S246S|TLE3_uc010bik.1_Intron|TLE3_uc010bil.1_Silent_p.S253S|TLE3_uc002asn.2_Silent_p.S253S|TLE3_uc002asp.2_Silent_p.S253S|TLE3_uc002aso.2_Silent_p.S253S	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	253	CCN domain.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						ATACCTCATTGGAAACATCCA	0.522													5	24	---	---	---	---	PASS	A	70351755	A	A	70351755	2	1	159	1	0	0	0	0	0	0	0	1	15937	1335	47	3		3	TLE3	15	70351755	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08	4728304	70351755	32179637	115	56455										
C15orf60	283677	broad.mit.edu	37	chr15	73843356	73843356	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gaacactgctgcagttgtgtTcagaagctggcacaatacat	10	9	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr15:73843356T>C	uc002avq.2	+	4	439	c.411T>C	c.(409-411)GTT>GTC	p.V137V	C15orf60_uc010bjb.2_Silent_p.V109V	NM_001042367	NP_001035826	Q7Z4M0	CO060_HUMAN	hypothetical protein LOC283677	137										pancreas(1)	1						GCAGTTGTGTTCAGAAGCTGG	0.502													13	89	---	---	---	---	PASS	C	73843356	C	C	73843356	2	2	159	1	0	0	0	0	0	0	0	1	1808	1770	62	5		5	C15orf60	15	73843356	Silent	SNP	T	TCGA-66-2780-01A-01D-1522-08	3491601	73843356	28688036	116	56456										
SGK269	79834	broad.mit.edu	37	chr15	77425619	77425619	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgcttgtctctgcggcttctGgatgcctcggccctgtctgc	12	14	3	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr15:77425619G>A	uc002bcm.2	-	5	4113	c.3805C>T	c.(3805-3807)CAG>TAG	p.Q1269*		NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	1269					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		TGCGGCTTCTGGATGCCTCGG	0.512													46	122	---	---	---	---	PASS	A	77425619	A	A	77425619	4	1	159	1	0	0	0	0	0	1	0	0	14211	1357	47	3	1443	3	SGK269	15	77425619	Nonsense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	3582263	77425619	25105773	117	56457										
TELO2	9894	broad.mit.edu	37	chr16	1545551	1545551	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gagaacttggccgagttcttCccccagaactacttccgcct	8	15	1	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr16:1545551C>A	uc002cly.2	+	3	831	c.540C>A	c.(538-540)TTC>TTA	p.F180L	TELO2_uc010uvg.1_Missense_Mutation_p.F180L	NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	180						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				CCGAGTTCTTCCCCCAGAACT	0.672													9	103	---	---	---	---	PASS	A	1545551	A	A	1545551	3	1	159	1	0	0	0	0	1	0	0	0	15754	854	30	2	546	2	TELO2	16	1545551	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08		1545551	88809202	118	56458										
IFT140	9742	broad.mit.edu	37	chr16	1561094	1561094	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	cacggcctgcgggctcacgtAgtaggacatgttggccaagg	15	11	1	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr16:1561094A>G	uc002cmb.2	-	31	4602	c.4240T>C	c.(4240-4242)TAC>CAC	p.Y1414H	IFT140_uc002clz.2_Missense_Mutation_p.Y1027H	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	1414										ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				GGGCTCACGTAGTAGGACATG	0.652													5	15	---	---	---	---	PASS	G	1561094	G	G	1561094	3	3	159	1	0	0	0	0	1	0	0	0	7556	420	15	5	152	5	IFT140	16	1561094	Missense_Mutation	SNP	A	TCGA-66-2780-01A-01D-1522-08	15543	1561094	88793659	119	56459										
SEZ6L2	26470	broad.mit.edu	37	chr16	29883585	29883585	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gtgggagcccgagaagccgaAaagggactttccctgaagcc	14	11	0	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr16:29883585A>G	uc002duq.3	-	16	2866	c.2626T>C	c.(2626-2628)TTC>CTC	p.F876L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.F819L|SEZ6L2_uc002dur.3_Missense_Mutation_p.F806L|SEZ6L2_uc002dus.3_Missense_Mutation_p.F775L|SEZ6L2_uc010vec.1_Missense_Mutation_p.F889L|SEZ6L2_uc010ved.1_Missense_Mutation_p.F845L	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	876	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						GAGAAGCCGAAAAGGGACTTT	0.607													14	52	---	---	---	---	PASS	G	29883585	G	G	29883585	3	3	159	1	0	0	0	0	1	0	0	0	14144	14	1	5	114	5	SEZ6L2	16	29883585	Missense_Mutation	SNP	A	TCGA-66-2780-01A-01D-1522-08	28322491	29883585	60471168	120	56460										
ZNF423	23090	broad.mit.edu	37	chr16	49672053	49672053	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tgtccaggtggcagtagacaCcttccactgaggagaactgc	12	11	0	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr16:49672053C>A	uc002efs.2	-	5	1308	c.1010G>T	c.(1009-1011)GGT>GTT	p.G337V	ZNF423_uc010vgn.1_Missense_Mutation_p.G220V	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	337	C2H2-type 8.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GCAGTAGACACCTTCCACTGA	0.617													8	41	---	---	---	---	PASS	A	49672053	A	A	49672053	3	1	159	1	0	0	0	0	1	0	0	0	17895	507	18	3	2864	3	ZNF423	16	49672053	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	19788468	49672053	40682700	121	56461										
TXNL4B	54957	broad.mit.edu	37	chr16	72122950	72122950	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	agatggaatataactgatgtCaaaatactgtgtataaactg	8	4	1	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr16:72122950C>G	uc002fca.2	-	3	531	c.220G>C	c.(220-222)GAC>CAC	p.D74H	TXNL4B_uc010cgl.2_RNA|TXNL4B_uc010vmn.1_Missense_Mutation_p.D74H|TXNL4B_uc010vmo.1_Missense_Mutation_p.D74H	NM_017853	NP_060323	Q9NX01	TXN4B_HUMAN	thioredoxin-like 4B	74					mitosis|mRNA processing|RNA splicing	spliceosomal complex				ovary(1)	1						TAACTGATGTCAAAATACTGT	0.378													40	184	---	---	---	---	PASS	G	72122950	G	G	72122950	3	3	159	1	0	0	0	0	1	0	0	0	16803	826	29	2	237	2	TXNL4B	16	72122950	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	22450897	72122950	18231803	122	56462										
NUDT7	283927	broad.mit.edu	37	chr16	77775789	77775789	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	atttaatcttaatgatgtatTagcatcctctgaagagttat	6	5	2	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr16:77775789T>C	uc010chd.2	+	4	728	c.659T>C	c.(658-660)TTA>TCA	p.L220S	NUDT7_uc010vnj.1_Missense_Mutation_p.L167S	NM_001105663	NP_001099133	P0C024	NUDT7_HUMAN	nudix motif 7	220					nucleoside diphosphate metabolic process	peroxisome	hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides|magnesium ion binding|manganese ion binding			ovary(1)|kidney(1)	2						AATGATGTATTAGCATCCTCT	0.378													41	151	---	---	---	---	PASS	C	77775789	C	C	77775789	3	2	159	1	0	0	0	0	1	0	0	0	10744	1764	61	5	673	5	NUDT7	16	77775789	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	5652839	77775789	12578964	123	56463										
KIAA0513	9764	broad.mit.edu	37	chr16	85111096	85111096	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gcagcatcgactcctacctgAaatccgcaaacagctggctg	9	14	0	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr16:85111096A>T	uc002fiu.2	+	6	860	c.640A>T	c.(640-642)AAA>TAA	p.K214*	KIAA0513_uc002fis.3_Nonsense_Mutation_p.K214*|KIAA0513_uc010voj.1_Nonsense_Mutation_p.K214*|KIAA0513_uc002fit.2_Nonsense_Mutation_p.K214*	NM_014732	NP_055547	O60268	K0513_HUMAN	hypothetical protein LOC9764	214						cytoplasm				breast(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.234)		CTCCTACCTGAAATCCGCAAA	0.607													8	47	---	---	---	---	PASS	T	85111096	T	T	85111096	4	4	159	1	0	0	0	0	0	1	0	0	8181	247	9	5	658	5	KIAA0513	16	85111096	Nonsense_Mutation	SNP	A	TCGA-66-2780-01A-01D-1522-08	7335307	85111096	5243657	124	56464										
GSDMB	55876	broad.mit.edu	37	chr17	38073396	38073396	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tctgtgtccagaatgtccatCagggtgaggcctgttgtgta	13	8	2	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr17:38073396C>T	uc010cwj.2	-	1	179	c.174G>A	c.(172-174)CTG>CTA	p.L58L	GSDMB_uc010cwk.2_RNA|GSDMB_uc010cwl.2_RNA|GSDMB_uc010cwm.2_RNA|GSDMB_uc002htg.2_Silent_p.L58L|GSDMB_uc002hth.2_Silent_p.L58L|GSDMB_uc010wem.1_Silent_p.L58L	NM_001042471	NP_001035936	Q8TAX9	GSDMB_HUMAN	gasdermin B isoform 1	58						cytoplasm				breast(1)|pancreas(1)	2						GAATGTCCATCAGGGTGAGGC	0.517													29	127	---	---	---	---	PASS	T	38073396	T	T	38073396	2	4	159	1	0	0	0	0	0	0	0	1	6817	813	29	2		2	GSDMB	17	38073396	Silent	SNP	C	TCGA-66-2780-01A-01D-1522-08		38073396	43121814	125	56465										
KRT20	54474	broad.mit.edu	37	chr17	39034494	39034494	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	atggtattcgttgttctggcGttccatgttactccgaatct	9	9	2	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr17:39034494G>A	uc002hvl.2	-	6	1084	c.1042C>T	c.(1042-1044)CGC>TGC	p.R348C		NM_019010	NP_061883	P35900	K1C20_HUMAN	keratin 20	348	Rod.|Coil 2.				apoptosis|intermediate filament organization	Golgi apparatus|intermediate filament	protein binding|structural constituent of cytoskeleton			large_intestine(1)|kidney(1)|skin(1)	3		Breast(137;0.000301)|Ovarian(249;0.15)				TTGTTCTGGCGTTCCATGTTA	0.498													66	190	---	---	---	---	PASS	A	39034494	A	A	39034494	3	1	159	1	0	0	0	0	1	0	0	0	8458	1145	40	1	244	1	KRT20	17	39034494	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	961098	39034494	42160716	126	56466										
ENGASE	64772	broad.mit.edu	37	chr17	77073513	77073513	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	caactccctctttgcttagcAtcaaagatgaagaagaagag	8	9	2	5			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr17:77073513A>T	uc002jwv.2	+	2	156	c.148A>T	c.(148-150)ATC>TTC	p.I50F	ENGASE_uc002jwu.1_Missense_Mutation_p.I50F|ENGASE_uc010wtz.1_5'UTR|ENGASE_uc002jww.2_5'Flank	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	50						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						TTTGCTTAGCATCAAAGATGA	0.423													6	56	---	---	---	---	PASS	T	77073513	T	T	77073513	3	4	159	1	0	0	0	0	1	0	0	0	5118	231	8	5	154	5	ENGASE	17	77073513	Missense_Mutation	SNP	A	TCGA-66-2780-01A-01D-1522-08	38039019	77073513	4121697	127	56467										
ENPP7	339221	broad.mit.edu	37	chr17	77705076	77705076	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ccaacctggacgccatggccCgagacggggtgaaggcacgc	15	14	0	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr17:77705076C>T	uc002jxa.2	+	1	195	c.175C>T	c.(175-177)CGA>TGA	p.R59*		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	59					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CGCCATGGCCCGAGACGGGGT	0.632													6	18	---	---	---	---	PASS	T	77705076	T	T	77705076	4	4	159	1	0	0	0	0	0	1	0	0	5135	644	23	1	177	1	ENPP7	17	77705076	Nonsense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	631563	77705076	3490134	128	56468										
SMAD4	4089	broad.mit.edu	37	chr18	48581243	48581243	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gacattcaattcaaaccatcCagcatccaccaagtaatcgt	4	13	2	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr18:48581243C>T	uc010xdp.1	+	5	1085	c.547C>T	c.(547-549)CAG>TAG	p.Q183*	SMAD4_uc010xdo.1_RNA|SMAD4_uc002lfb.3_Nonsense_Mutation_p.Q28*	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	183					BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(3)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TCAAACCATCCAGCATCCACC	0.468									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				48	152	---	---	---	---	PASS	T	48581243	T	T	48581243	4	4	159	1	0	0	0	0	0	1	0	0	14760	595	21	3	561	3	SMAD4	18	48581243	Nonsense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08		48581243	29496005	129	56469										
TMX3	54495	broad.mit.edu	37	chr18	66344308	66344308	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tcacttttagacacttcataTcgttcttctatataacctcc	2	12	4	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr18:66344308T>G	uc002lkf.2	-	16	1362	c.1227A>C	c.(1225-1227)CGA>CGC	p.R409R	TMX3_uc010xez.1_Silent_p.R268R	NM_019022	NP_061895	Q96JJ7	TMX3_HUMAN	thioredoxin domain containing 10 precursor	409	Cytoplasmic (Potential).				cell redox homeostasis|glycerol ether metabolic process	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			skin(1)	1						ACACTTCATATCGTTCTTCTA	0.458													42	182	---	---	---	---	PASS	G	66344308	G	G	66344308	2	3	159	1	0	0	0	0	0	0	0	1	16265	1422	50	5		5	TMX3	18	66344308	Silent	SNP	T	TCGA-66-2780-01A-01D-1522-08	17763065	66344308	11732940	130	56470										
MUC16	94025	broad.mit.edu	37	chr19	9085145	9085145	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ggacaagccaggtggacctgCgctgtttactgggatgcttg	15	9	0	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr19:9085145C>G	uc002mkp.2	-	1	6874	c.6670G>C	c.(6670-6672)GCA>CCA	p.A2224P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2224	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTGGACCTGCGCTGTTTACT	0.483													28	62	---	---	---	---	PASS	G	9085145	G	G	9085145	3	3	159	1	0	0	0	0	1	0	0	0	9973	768	27	4	37189	4	MUC16	19	9085145	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08		9085145	50043838	131	56471										
OR10H1	26539	broad.mit.edu	37	chr19	15918457	15918457	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gctcatgagcacgttgtagcGcagggggtggcagatggcca	17	9	1	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr19:15918457G>T	uc002nbq.2	-	1	480	c.391C>A	c.(391-393)CGC>AGC	p.R131S		NM_013940	NP_039228	Q9Y4A9	O10H1_HUMAN	olfactory receptor, family 10, subfamily H,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACGTTGTAGCGCAGGGGGTGG	0.632													11	24	---	---	---	---	PASS	T	15918457	T	T	15918457	3	4	159	1	0	0	0	0	1	0	0	0	10905	1087	38	1	569	1	OR10H1	19	15918457	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	6833312	15918457	43210526	132	56472										
MEGF8	1954	broad.mit.edu	37	chr19	42839328	42839328	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	cccgtattggggcagctggcGccttcctgtccccaccaggg	13	16	0	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr19:42839328G>T	uc002otl.3	+	4	1335	c.700G>T	c.(700-702)GCC>TCC	p.A234S	MEGF8_uc002otm.3_5'Flank	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	234	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				GGCAGCTGGCGCCTTCCTGTC	0.652													13	21	---	---	---	---	PASS	T	42839328	T	T	42839328	3	4	159	1	0	0	0	0	1	0	0	0	9463	1087	38	1	714	1	MEGF8	19	42839328	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	26920871	42839328	16289655	133	56473										
PSG11	5680	broad.mit.edu	37	chr19	43523115	43523115	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	aggtagcttgcgtccggagtCtcaggattacaggttaagat	13	7	1	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr19:43523115C>G	uc002ovm.1	-	3	623	c.516G>C	c.(514-516)GAG>GAC	p.E172D	PSG11_uc002ouw.2_Missense_Mutation_p.E178D|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Missense_Mutation_p.E178D|PSG11_uc002ovn.1_Missense_Mutation_p.E178D|PSG11_uc002ovo.1_Missense_Mutation_p.E50D|PSG11_uc002ovp.1_Missense_Mutation_p.E50D	NM_002785	NP_002776	Q9UQ72	PSG11_HUMAN	pregnancy specific beta-1-glycoprotein 11	172	Ig-like C2-type 1.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				CGTCCGGAGTCTCAGGATTAC	0.517													90	375	---	---	---	---	PASS	G	43523115	G	G	43523115	3	3	159	1	0	0	0	0	1	0	0	0	12654	912	32	2	503	2	PSG11	19	43523115	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	683787	43523115	15605868	134	56474										
KLK5	25818	broad.mit.edu	37	chr19	51453310	51453310	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	agctcccaggtcctggttgcTcccagagggcacggtgttag	14	12	0	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr19:51453310T>A	uc002pue.2	-	4	354	c.136A>T	c.(136-138)AGC>TGC	p.S46C	KLK5_uc002puf.2_Missense_Mutation_p.S46C|KLK5_uc002pug.2_Missense_Mutation_p.S46C	NM_001077491	NP_001070959	Q9Y337	KLK5_HUMAN	kallikrein-related peptidase 5 preproprotein	46				Missing (in Ref. 3; AAG33358).	epidermis development|positive regulation of G-protein coupled receptor protein signaling pathway|proteolysis	extracellular space	protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00379)|GBM - Glioblastoma multiforme(134;0.00888)		TCCTGGTTGCTCCCAGAGGGC	0.617													6	22	---	---	---	---	PASS	A	51453310	A	A	51453310	3	1	159	1	0	0	0	0	1	0	0	0	8407	1551	54	5	761	5	KLK5	19	51453310	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08	7930195	51453310	7675673	135	56475										
SIGLEC8	27181	broad.mit.edu	37	chr19	51958757	51958757	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	cggcaggtgaattccccttcAtccctcacgtgcactcgagg	10	15	2	1			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr19:51958757A>T	uc002pwt.2	-	4	1033	c.966T>A	c.(964-966)GAT>GAA	p.D322E	SIGLEC8_uc010yda.1_Missense_Mutation_p.D213E|SIGLEC8_uc002pwu.2_RNA|SIGLEC8_uc010eox.2_Missense_Mutation_p.D229E	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	322	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		ATTCCCCTTCATCCCTCACGT	0.652													12	24	---	---	---	---	PASS	T	51958757	T	T	51958757	3	4	159	1	0	0	0	0	1	0	0	0	14314	214	8	5	549	5	SIGLEC8	19	51958757	Missense_Mutation	SNP	A	TCGA-66-2780-01A-01D-1522-08	505447	51958757	7170226	136	56476										
EPS8L1	54869	broad.mit.edu	37	chr19	55592768	55592768	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	aggaggcgcagaggcctgagCcggtggggacctcgagcaac	18	11	0	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr19:55592768C>G	uc002qis.3	+	8	786	c.682C>G	c.(682-684)CCG>GCG	p.P228A	EPS8L1_uc010ess.1_Missense_Mutation_p.P210A|EPS8L1_uc010est.1_Missense_Mutation_p.P228A|EPS8L1_uc010yfr.1_Missense_Mutation_p.P164A|EPS8L1_uc010esu.1_RNA|EPS8L1_uc002qiu.2_Missense_Mutation_p.P101A|EPS8L1_uc002qiv.2_5'Flank|EPS8L1_uc002qiw.2_5'Flank	NM_133180	NP_573441	Q8TE68	ES8L1_HUMAN	epidermal growth factor receptor pathway	228						cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		GAGGCCTGAGCCGGTGGGGAC	0.726													4	7	---	---	---	---	PASS	G	55592768	G	G	55592768	3	3	159	1	0	0	0	0	1	0	0	0	5195	739	26	4	760	4	EPS8L1	19	55592768	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	3634011	55592768	3536215	137	56477										
C20orf71	128861	broad.mit.edu	37	chr20	31814274	31814274	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	agagaatctgcaaaaagttcTcccacacatggtagaaagtc	8	9	2	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr20:31814274T>A	uc002wyr.2	+	5	807	c.599T>A	c.(598-600)CTC>CAC	p.L200H	C20orf71_uc002wys.2_Missense_Mutation_p.L164H	NM_178466	NP_848561	Q9BQP9	SPLC3_HUMAN	short long palate, lung and nasal epithelium	200						extracellular region	lipid binding			ovary(1)|skin(1)	2						CAAAAAGTTCTCCCACACATG	0.408													50	125	---	---	---	---	PASS	A	31814274	A	A	31814274	3	1	159	1	0	0	0	0	1	0	0	0	2117	1551	54	5	617	5	C20orf71	20	31814274	Missense_Mutation	SNP	T	TCGA-66-2780-01A-01D-1522-08		31814274	31211246	138	56478										
PPP1R16B	26051	broad.mit.edu	37	chr20	37531333	37531333	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	atcacccaagagaaaatcaaCgagatgcgggtggctcctga	11	10	2	3			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr20:37531333C>T	uc002xje.2	+	6	783	c.594C>T	c.(592-594)AAC>AAT	p.N198N	PPP1R16B_uc010ggc.2_Silent_p.N198N	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	198					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AGAAAATCAACGAGATGCGGG	0.587													93	122	---	---	---	---	PASS	T	37531333	T	T	37531333	2	4	159	1	0	0	0	0	0	0	0	1	12366	535	19	1		1	PPP1R16B	20	37531333	Silent	SNP	C	TCGA-66-2780-01A-01D-1522-08	5717059	37531333	25494187	139	56479										
TSHZ2	128553	broad.mit.edu	37	chr20	51870996	51870996	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gtcaatcggccgtgttccccCgattcaaccacaggatcttt	8	14	3	0	rs138194448		TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr20:51870996C>T	uc002xwo.2	+	2	1955	c.999C>T	c.(997-999)CCC>CCT	p.P333P		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	333					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CGTGTTCCCCCGATTCAACCA	0.483													166	158	---	---	---	---	PASS	T	51870996	T	T	51870996	2	4	159	1	0	0	0	0	0	0	0	1	16621	639	23	1		1	TSHZ2	20	51870996	Silent	SNP	C	TCGA-66-2780-01A-01D-1522-08	14339663	51870996	11154524	140	56480										
LZTR1	8216	broad.mit.edu	37	chr22	21337317	21337317	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tccactcctttctttccaggCgcagcaagcacacagtggtg	9	14	1	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr22:21337317C>G	uc002zto.2	+	2	305	c.202C>G	c.(202-204)CGC>GGC	p.R68G	LZTR1_uc002ztn.2_Missense_Mutation_p.R27G|LZTR1_uc011ahy.1_Missense_Mutation_p.R68G	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	68					anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			TCTTTCCAGGCGCAGCAAGCA	0.542													22	90	---	---	---	---	PASS	G	21337317	G	G	21337317	3	3	159	1	0	0	0	0	1	0	0	0	9137	782	27	4	208	4	LZTR1	22	21337317	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08		21337317	29967249	141	56481										
SEZ6L	23544	broad.mit.edu	37	chr22	26695130	26695130	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	gagcagccaggagcccatctGctcaggtatgctccagcctc	11	15	2	0			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr22:26695130G>A	uc003acb.2	+	5	1499	c.1343G>A	c.(1342-1344)TGC>TAC	p.C448Y	SEZ6L_uc003acc.2_Missense_Mutation_p.C448Y|SEZ6L_uc011akc.1_Missense_Mutation_p.C448Y|SEZ6L_uc003acd.2_Missense_Mutation_p.C448Y|SEZ6L_uc011akd.1_Missense_Mutation_p.C448Y|SEZ6L_uc003ace.2_Missense_Mutation_p.C448Y|SEZ6L_uc003acf.1_Missense_Mutation_p.C221Y|SEZ6L_uc010gvc.1_Missense_Mutation_p.C221Y	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	448	Sushi 1.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						GAGCCCATCTGCTCAGGTATG	0.582													3	6	---	---	---	---	PASS	A	26695130	A	A	26695130	3	1	159	1	0	0	0	0	1	0	0	0	14143	1319	46	3	1361	3	SEZ6L	22	26695130	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	5357813	26695130	24609436	142	56482										
THOC5	8563	broad.mit.edu	37	chr22	29924107	29924107	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	atgacagacagtgggtgcctCttcagcatctccttgcgttt	10	11	3	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr22:29924107C>A	uc003afr.2	-	12	1361	c.1026G>T	c.(1024-1026)AAG>AAT	p.K342N	THOC5_uc003afq.2_Missense_Mutation_p.K3N|THOC5_uc003afs.2_Missense_Mutation_p.K342N|THOC5_uc003aft.2_Missense_Mutation_p.K342N|THOC5_uc003afu.2_Missense_Mutation_p.K342N|THOC5_uc010gvo.2_Missense_Mutation_p.K86N	NM_001002878	NP_001002878	Q13769	THOC5_HUMAN	THO complex 5	342					intronless viral mRNA export from host nucleus|monocyte differentiation|mRNA processing|primitive hemopoiesis|RNA splicing	cytoplasm|intermediate filament cytoskeleton|THO complex part of transcription export complex	protein binding|RNA binding			breast(3)	3						GTGGGTGCCTCTTCAGCATCT	0.527													37	104	---	---	---	---	PASS	A	29924107	A	A	29924107	3	1	159	1	0	0	0	0	1	0	0	0	15865	912	32	2	1065	2	THOC5	22	29924107	Missense_Mutation	SNP	C	TCGA-66-2780-01A-01D-1522-08	3228977	29924107	21380459	143	56483										
SOX10	6663	broad.mit.edu	37	chr22	38369863	38369863	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ctttggcatccacaccaggtGgtgagaccgtgggcagagcc	14	12	0	2			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chr22:38369863G>A	uc003aun.1	-	4	1318	c.1040C>T	c.(1039-1041)CCA>CTA	p.P347L	POLR2F_uc003aum.2_Intron|SOX10_uc003auo.1_Missense_Mutation_p.P347L	NM_006941	NP_008872	P56693	SOX10_HUMAN	SRY (sex determining region Y)-box 10	347						cytoplasm|nucleus	DNA binding|identical protein binding|transcription coactivator activity				0	Melanoma(58;0.045)					CACACCAGGTGGTGAGACCGT	0.672													11	55	---	---	---	---	PASS	A	38369863	A	A	38369863	3	1	159	1	0	0	0	0	1	0	0	0	14941	1348	47	3	364	3	SOX10	22	38369863	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	8445756	38369863	12934703	144	56484										
KLHL34	257240	broad.mit.edu	37	chrX	21675151	21675151	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	tggtagttgagggcctggatGatgaggcccttgacccgggc	17	9	0	4			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chrX:21675151G>A	uc004czz.1	-	1	1298	c.756C>T	c.(754-756)ATC>ATT	p.I252I		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	252										ovary(1)	1						GGGCCTGGATGATGAGGCCCT	0.687													7	9	---	---	---	---	PASS	A	21675151	A	A	21675151	2	1	159	1	0	0	0	0	0	0	0	1	8387	1280	45	2		2	KLHL34	23	21675151	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08		21675151	133595409	145	56485										
PRRG1	5638	broad.mit.edu	37	chrX	37312768	37312768	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ccaagtgaacctgcagaggaGtgaaacagaacctcatttag	10	9	1	4			TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chrX:37312768G>C	uc004ddn.2	+	5	804	c.551G>C	c.(550-552)AGT>ACT	p.S184T	PRRG1_uc004ddo.2_Missense_Mutation_p.S184T	NM_000950	NP_000941	O14668	TMG1_HUMAN	proline rich Gla (G-carboxyglutamic acid) 1	184	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	calcium ion binding			ovary(1)|breast(1)	2						CTGCAGAGGAGTGAAACAGAA	0.532													14	35	---	---	---	---	PASS	C	37312768	C	C	37312768	3	2	159	1	0	0	0	0	1	0	0	0	12605	1029	36	4	643	4	PRRG1	23	37312768	Missense_Mutation	SNP	G	TCGA-66-2780-01A-01D-1522-08	15637617	37312768	117957792	146	56486										
DCAF12L1	139170	broad.mit.edu	37	chrX	125685455	125685455	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.125	18	0.0154191266462292	1.83008093052587	2.69890723087654	1.11329923273657	0.117971798543708	0.420728408894326	8	ctttcctccaggaatttctgGgcccggacgtcatagaagag	11	11	2	2	rs149056465	byFrequency	TCGA-66-2780-01A-01D-1522-08	TCGA-66-2780-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	d088bd17-a1a0-4bd9-bfe1-d57b5725c53b	2ceee15a-1eca-47f3-8c33-6daeaf8fca69	g.chrX:125685455G>C	uc004eul.2	-	1	1388	c.1137C>G	c.(1135-1137)GCC>GCG	p.A379A		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	379	WD 4.									skin(3)|ovary(1)	4						GGAATTTCTGGGCCCGGACGT	0.632													24	46	---	---	---	---	PASS	C	125685455	C	C	125685455	2	2	159	1	0	0	0	0	0	0	0	1	4264	1219	43	4		4	DCAF12L1	23	125685455	Silent	SNP	G	TCGA-66-2780-01A-01D-1522-08	88372687	125685455	29585105	147	56487										
PADI1	29943	broad.mit.edu	37	chr1	17552360	17552360	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ctatcttgctggtgaactgtGaccgggacaatcacaggtcc	11	11	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:17552360G>A	uc001bah.1	+	5	555	c.463G>A	c.(463-465)GAC>AAC	p.D155N		NM_013358	NP_037490	Q9ULC6	PADI1_HUMAN	peptidylarginine deiminase type I	155					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity				0		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00522)|BRCA - Breast invasive adenocarcinoma(304;1.3e-05)|COAD - Colon adenocarcinoma(227;1.31e-05)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(196;0.0069)|READ - Rectum adenocarcinoma(331;0.0681)|Lung(427;0.197)	L-Citrulline(DB00155)	GGTGAACTGTGACCGGGACAA	0.592													41	144	---	---	---	---	PASS	A	17552360	A	A	17552360	3	1	160	1	0	0	0	0	1	0	0	0	11377	1290	45	2	481	2	PADI1	1	17552360	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08		17552360	231698261	1	56488										
RAP1GAP	5909	broad.mit.edu	37	chr1	21936075	21936075	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gggtgcccctcaccttcctgAacacagcggggtccgggagg	15	14	1	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:21936075A>G	uc001bex.2	-	15	1322	c.1064T>C	c.(1063-1065)TTC>TCC	p.F355S	RAP1GAP_uc001bev.2_Missense_Mutation_p.F355S|RAP1GAP_uc001bew.2_Missense_Mutation_p.F419S|RAP1GAP_uc001bey.2_Missense_Mutation_p.F355S	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	355	Rap-GAP.				regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		CACCTTCCTGAACACAGCGGG	0.612													27	145	---	---	---	---	PASS	G	21936075	G	G	21936075	3	3	160	1	0	0	0	0	1	0	0	0	13037	246	9	5	1049	5	RAP1GAP	1	21936075	Missense_Mutation	SNP	A	TCGA-66-2781-01A-01D-1522-08	4383715	21936075	227314546	2	56489										
MTF1	4520	broad.mit.edu	37	chr1	38300828	38300828	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tttcatgtgacttttgagacTgtattgagtgctgaatgttt	10	4	1	4			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:38300828T>C	uc001cce.1	-	6	1054	c.913A>G	c.(913-915)AGT>GGT	p.S305G	MTF1_uc009vvj.1_5'UTR	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	305	C2H2-type 6.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CTTTTGAGACTGTATTGAGTG	0.393													3	176	---	---	---	---	PASS	C	38300828	C	C	38300828	3	2	160	1	0	0	0	0	1	0	0	0	9922	1580	55	5	1372	5	MTF1	1	38300828	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	16364753	38300828	210949793	3	56490										
MACF1	23499	broad.mit.edu	37	chr1	39799867	39799867	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	agatttagccgagaaactcaAaagagttgagaacttaaaca	8	6	1	4			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:39799867A>G	uc010oiu.1	+	1	3058	c.2927A>G	c.(2926-2928)AAA>AGA	p.K976R	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2541	Plectin 9.				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)			GAGAAACTCAAAAGAGTTGAG	0.363													5	153	---	---	---	---	PASS	G	39799867	G	G	39799867	3	3	160	1	0	0	0	0	1	0	0	0	9144	14	1	5	7698	5	MACF1	1	39799867	Missense_Mutation	SNP	A	TCGA-66-2781-01A-01D-1522-08	1499039	39799867	209450754	4	56491										
C1orf87	127795	broad.mit.edu	37	chr1	60476071	60476071	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	taatggaactcacctgtaggCaaatcagataacaaatcaga	7	8	3	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:60476071C>T	uc001czs.1	-	9	1277	c.1185G>A	c.(1183-1185)TTG>TTA	p.L395L	C1orf87_uc001czr.1_5'Flank	NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	395							calcium ion binding			ovary(1)|breast(1)	2						CACCTGTAGGCAAATCAGATA	0.388													16	102	---	---	---	---	PASS	T	60476071	T	T	60476071	2	4	160	1	0	0	0	0	0	0	0	1	2064	709	25	3		3	C1orf87	1	60476071	Silent	SNP	C	TCGA-66-2781-01A-01D-1522-08	20676204	60476071	188774550	5	56492										
SFRS11	9295	broad.mit.edu	37	chr1	70716181	70716181	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aatcagagagtgataaagatGtaaaagtatgtttacaaatt	8	2	1	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:70716181G>A	uc001des.2	+	12	1376	c.1252G>A	c.(1252-1254)GTA>ATA	p.V418I	SFRS11_uc001det.2_Missense_Mutation_p.V418I|SFRS11_uc001deu.2_Missense_Mutation_p.V425I|SFRS11_uc001dev.2_Missense_Mutation_p.V228I|SFRS11_uc001dew.2_Missense_Mutation_p.V358I	NM_004768	NP_004759	Q05519	SRS11_HUMAN	splicing factor, arginine/serine-rich 11	418					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0						TGATAAAGATGTAAAAGTATG	0.189													32	115	---	---	---	---	PASS	A	70716181	A	A	70716181	3	1	160	1	0	0	0	0	1	0	0	0	14166	1377	48	3	1294	3	SFRS11	1	70716181	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	10240110	70716181	178534440	6	56493										
TNNI3K	51086	broad.mit.edu	37	chr1	74701805	74701805	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gatgaatggaagaaaaaagtCagtgaatcatatgttatcac	9	4	3	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:74701805C>T	uc001dgf.1	+	2	111	c.60C>T	c.(58-60)GTC>GTT	p.V20V	TNNI3K_uc001dgc.1_Silent_p.V121V|TNNI3K_uc001dgd.2_Silent_p.V121V|TNNI3K_uc001dge.1_Silent_p.V121V	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	20						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						AGAAAAAAGTCAGTGAATCAT	0.308													5	55	---	---	---	---	PASS	T	74701805	T	T	74701805	2	4	160	1	0	0	0	0	0	0	0	1	16326	813	29	2		2	TNNI3K	1	74701805	Silent	SNP	C	TCGA-66-2781-01A-01D-1522-08	3985624	74701805	174548816	7	56494										
LPHN2	23266	broad.mit.edu	37	chr1	82408777	82408777	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gataaaatttatttcatgccCtggactccctatcgtaccga	6	11	1	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:82408777C>T	uc001dit.3	+	6	703	c.522C>T	c.(520-522)CCC>CCT	p.P174P	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Silent_p.P174P|LPHN2_uc001div.2_Silent_p.P174P|LPHN2_uc009wcd.2_Silent_p.P174P	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	174	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		ATTTCATGCCCTGGACTCCCT	0.398													36	151	---	---	---	---	PASS	T	82408777	T	T	82408777	2	4	160	1	0	0	0	0	0	0	0	1	8916	668	24	3		3	LPHN2	1	82408777	Silent	SNP	C	TCGA-66-2781-01A-01D-1522-08	7706972	82408777	166841844	8	56495										
LPAR3	23566	broad.mit.edu	37	chr1	85279701	85279701	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tggtgccatacatgtcctcgTccttgtaggagtagatgatg	12	8	0	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:85279701T>C	uc001dkl.2	-	2	929	c.890A>G	c.(889-891)GAC>GGC	p.D297G	LPAR3_uc009wcj.1_Missense_Mutation_p.D297G	NM_012152	NP_036284	Q9UBY5	LPAR3_HUMAN	lysophosphatidic acid receptor 3	297	Helical; Name=7; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane|intracellular membrane-bounded organelle				lung(3)|ovary(2)	5						CATGTCCTCGTCCTTGTAGGA	0.567													23	129	---	---	---	---	PASS	C	85279701	C	C	85279701	3	2	160	1	0	0	0	0	1	0	0	0	8906	1667	58	5	175	5	LPAR3	1	85279701	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	2870924	85279701	163970920	9	56496										
CHIA	27159	broad.mit.edu	37	chr1	111854925	111854925	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tctgtacccacctgatctacGcctttgctgggaggcagaac	10	13	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:111854925G>A	uc001eas.2	+	4	272	c.169G>A	c.(169-171)GCC>ACC	p.A57T	CHIA_uc001ear.2_Intron|CHIA_uc001eaq.2_Intron|CHIA_uc009wgc.2_Intron|CHIA_uc001eat.2_Intron|CHIA_uc001eav.2_Intron|CHIA_uc001eau.2_Intron|CHIA_uc009wgd.2_Intron	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	57					apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		CCTGATCTACGCCTTTGCTGG	0.542													21	126	---	---	---	---	PASS	A	111854925	A	A	111854925	3	1	160	1	0	0	0	0	1	0	0	0	3342	1087	38	1	179	1	CHIA	1	111854925	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	26575224	111854925	137395696	10	56497										
FLG	2312	broad.mit.edu	37	chr1	152277864	152277864	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tctcctgattgttcctcattAcgtgttgttctgcttgcact	7	11	3	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:152277864A>G	uc001ezu.1	-	3	9534	c.9498T>C	c.(9496-9498)CGT>CGC	p.R3166R		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3166	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTTCCTCATTACGTGTTGTTC	0.557									Ichthyosis				207	422	---	---	---	---	PASS	G	152277864	G	G	152277864	2	3	160	1	0	0	0	0	0	0	0	1	5922	378	14	5		5	FLG	1	152277864	Silent	SNP	A	TCGA-66-2781-01A-01D-1522-08	40422939	152277864	96972757	11	56498										
FLG	2312	broad.mit.edu	37	chr1	152283889	152283889	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tggtgtcctgaccctcttggGacgctgagtgcctggagctg	15	11	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:152283889G>C	uc001ezu.1	-	3	3509	c.3473C>G	c.(3472-3474)TCC>TGC	p.S1158C	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1158	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACCCTCTTGGGACGCTGAGTG	0.597									Ichthyosis				9	694	---	---	---	---	PASS	C	152283889	C	C	152283889	3	2	160	1	0	0	0	0	1	0	0	0	5922	1174	41	2	8716	2	FLG	1	152283889	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	6025	152283889	96966732	12	56499										
FLG2	388698	broad.mit.edu	37	chr1	152325143	152325143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ggttaatccatgatgatagtGggcatgtctagtggtatctc	12	6	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:152325143G>T	uc001ezw.3	-	3	5192	c.5119C>A	c.(5119-5121)CAC>AAC	p.H1707N	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1707							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGATGATAGTGGGCATGTCTA	0.488													110	531	---	---	---	---	PASS	T	152325143	T	T	152325143	3	4	160	1	0	0	0	0	1	0	0	0	5923	1348	47	3	2060	3	FLG2	1	152325143	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	41254	152325143	96925478	13	56500										
SPTA1	6708	broad.mit.edu	37	chr1	158651388	158651388	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gaacttcagggcccgcagcaActggtcacccttctccaggg	11	15	3	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:158651388A>G	uc001fst.1	-	4	659	c.460T>C	c.(460-462)TTG>CTG	p.L154L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	154	Spectrin 2.		L -> LL (in EL2).		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)					GCCCGCAGCAACTGGTCACCC	0.522													83	224	---	---	---	---	PASS	G	158651388	G	G	158651388	2	3	160	1	0	0	0	0	0	0	0	1	15115	40	2	5		5	SPTA1	1	158651388	Silent	SNP	A	TCGA-66-2781-01A-01D-1522-08	6326245	158651388	90599233	14	56501										
ITLN1	55600	broad.mit.edu	37	chr1	160850481	160850481	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gtccaacactttccttctccAtatttcactggatatttcta	3	12	3	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:160850481A>T	uc001fxc.2	-	6	698	c.582T>A	c.(580-582)TAT>TAA	p.Y194*		NM_017625	NP_060095	Q8WWA0	ITLN1_HUMAN	intelectin precursor	194	Fibrinogen C-terminal.				positive regulation of glucose import|positive regulation of protein phosphorylation|response to nematode|signal transduction	anchored to membrane|brush border membrane|extracellular region|membrane raft	receptor binding|sugar binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)	7	all_cancers(52;2.99e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			TTCCTTCTCCATATTTCACTG	0.453													102	225	---	---	---	---	PASS	T	160850481	T	T	160850481	4	4	160	1	0	0	0	0	0	1	0	0	7910	224	8	5	371	5	ITLN1	1	160850481	Nonsense_Mutation	SNP	A	TCGA-66-2781-01A-01D-1522-08	2199093	160850481	88400140	15	56502										
RC3H1	149041	broad.mit.edu	37	chr1	173933297	173933297	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	atgtggattcacaggtaaggCagaaatactcttaggaacag	11	6	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:173933297C>A	uc001gju.3	-	10	1732	c.1645G>T	c.(1645-1647)GCC>TCC	p.A549S	RC3H1_uc010pms.1_Missense_Mutation_p.A549S|RC3H1_uc001gjv.2_Missense_Mutation_p.A549S|RC3H1_uc010pmt.1_Missense_Mutation_p.A549S	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	549	Pro-rich.				cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						ACAGGTAAGGCAGAAATACTC	0.398													24	68	---	---	---	---	PASS	A	173933297	A	A	173933297	3	1	160	1	0	0	0	0	1	0	0	0	13166	710	25	3	1796	3	RC3H1	1	173933297	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	13082816	173933297	75317324	16	56503										
KCNT2	343450	broad.mit.edu	37	chr1	196436902	196436902	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gggacaaatagattccttaaGgaaggccagaatatctggaa	11	6	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:196436902G>A	uc001gtd.1	-	7	534	c.474C>T	c.(472-474)TCC>TCT	p.S158S	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Silent_p.S158S|KCNT2_uc001gtf.1_Silent_p.S158S|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Silent_p.S158S|KCNT2_uc009wyv.1_Silent_p.S133S	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	158	Helical; Name=Segment S3; (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						GATTCCTTAAGGAAGGCCAGA	0.303													6	59	---	---	---	---	PASS	A	196436902	A	A	196436902	2	1	160	1	0	0	0	0	0	0	0	1	8092	987	35	3		3	KCNT2	1	196436902	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	22503605	196436902	52813719	17	56504										
DENND1B	163486	broad.mit.edu	37	chr1	197576299	197576299	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tcttccaatgatttgtttttCactctctataaaaaaaacac	2	9	3	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:197576299C>A	uc001guf.3	-	13	1163	c.825G>T	c.(823-825)GTG>GTT	p.V275V	DENND1B_uc010ppe.1_Silent_p.V255V|DENND1B_uc010ppf.1_RNA|DENND1B_uc001gue.3_Silent_p.V245V|DENND1B_uc001gug.3_Silent_p.V74V	NM_144977	NP_659414	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 2	275	DENN.					clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						ATTTGTTTTTCACTCTCTATA	0.274													3	58	---	---	---	---	PASS	A	197576299	A	A	197576299	2	1	160	1	0	0	0	0	0	0	0	1	4427	813	29	2		2	DENND1B	1	197576299	Silent	SNP	C	TCGA-66-2781-01A-01D-1522-08	1139397	197576299	51674322	18	56505										
USH2A	7399	broad.mit.edu	37	chr1	215848337	215848337	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	atcaaagctaaaaggatagaGcatttcattcctttgaagcc	7	8	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:215848337G>T	uc001hku.1	-	63	13303	c.12916C>A	c.(12916-12918)CTC>ATC	p.L4306I		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4306	Fibronectin type-III 28.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AAAGGATAGAGCATTTCATTC	0.393										HNSCC(13;0.011)			56	138	---	---	---	---	PASS	T	215848337	T	T	215848337	3	4	160	1	0	0	0	0	1	0	0	0	17033	971	34	3	2732	3	USH2A	1	215848337	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	18272038	215848337	33402284	19	56506										
ESRRG	2104	broad.mit.edu	37	chr1	216850766	216850766	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ggaggctgggctggaaggttCcgtcttgatgaaggacgaac	17	7	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:216850766C>G	uc001hkw.1	-	2	290	c.124G>C	c.(124-126)GAA>CAA	p.E42Q	ESRRG_uc001hky.1_Missense_Mutation_p.E19Q|ESRRG_uc009xdp.1_Missense_Mutation_p.E19Q|ESRRG_uc001hkz.1_Missense_Mutation_p.E19Q|ESRRG_uc010puc.1_Missense_Mutation_p.E19Q|ESRRG_uc001hla.1_Missense_Mutation_p.E19Q|ESRRG_uc001hlb.1_Missense_Mutation_p.E19Q|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Missense_Mutation_p.E19Q|ESRRG_uc001hld.1_Missense_Mutation_p.E19Q|ESRRG_uc001hkx.1_Missense_Mutation_p.E47Q|ESRRG_uc009xdo.1_Missense_Mutation_p.E19Q|ESRRG_uc001hle.1_Missense_Mutation_p.E19Q	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	42				E->A: 4-fold increase in transcriptional activity.	positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	CTGGAAGGTTCCGTCTTGATG	0.478													30	66	---	---	---	---	PASS	G	216850766	G	G	216850766	3	3	160	1	0	0	0	0	1	0	0	0	5262	864	30	2	1276	2	ESRRG	1	216850766	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	1002429	216850766	32399855	20	56507										
DISP1	84976	broad.mit.edu	37	chr1	223177009	223177009	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	cgagttccaggtgttccggtCgtcccatccttttgagcgtt	11	12	0	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:223177009C>G	uc001hnu.1	+	8	2417	c.2270C>G	c.(2269-2271)TCG>TGG	p.S757W		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	757					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		GTGTTCCGGTCGTCCCATCCT	0.463													45	151	---	---	---	---	PASS	G	223177009	G	G	223177009	3	3	160	1	0	0	0	0	1	0	0	0	4539	893	31	2	2296	2	DISP1	1	223177009	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	6326243	223177009	26073612	21	56508										
OBSCN	84033	broad.mit.edu	37	chr1	228509756	228509756	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tcactgaggcccgccaggcgGtaactcgcttccaggagatg	13	13	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:228509756G>A	uc009xez.1	+	55	15258	c.15214G>A	c.(15214-15216)GTA>ATA	p.V5072I	OBSCN_uc001hsn.2_Missense_Mutation_p.V5072I	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5072					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCGCCAGGCGGTAACTCGCTT	0.592													3	17	---	---	---	---	PASS	A	228509756	A	A	228509756	3	1	160	1	0	0	0	0	1	0	0	0	10812	1261	44	3	15428	3	OBSCN	1	228509756	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	5332747	228509756	20740865	22	56509										
OR2T1	26696	broad.mit.edu	37	chr1	248570209	248570209	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gtccttgttctacggggctgCcatgtacacctacatgctgc	10	13	1	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr1:248570209C>A	uc010pzm.1	+	1	914	c.914C>A	c.(913-915)GCC>GAC	p.A305D		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	305	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TACGGGGCTGCCATGTACACC	0.527													84	139	---	---	---	---	PASS	A	248570209	A	A	248570209	3	1	160	1	0	0	0	0	1	0	0	0	11016	739	26	3	916	3	OR2T1	1	248570209	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	20060453	248570209	680412	23	56510										
IFT172	26160	broad.mit.edu	37	chr2	27676897	27676897	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ctctgggcccggagcagcagCccttctgctttctgaaagtc	11	14	3	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:27676897C>T	uc002rku.2	-	33	3714	c.3663G>A	c.(3661-3663)GGG>GGA	p.G1221G	IFT172_uc010ezb.2_RNA	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	1221					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					GGAGCAGCAGCCCTTCTGCTT	0.622													49	247	---	---	---	---	PASS	T	27676897	T	T	27676897	2	4	160	1	0	0	0	0	0	0	0	1	7557	726	26	3		3	IFT172	2	27676897	Silent	SNP	C	TCGA-66-2781-01A-01D-1522-08		27676897	215522476	24	56511										
NLRC4	58484	broad.mit.edu	37	chr2	32466102	32466102	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tatgagaacagaaatctgacCtagttttatagcatcttctt	6	7	3	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:32466102C>G	uc002roi.2	-	5	2596	c.2350G>C	c.(2350-2352)GCT>CCT	p.A784P	NLRC4_uc002roj.1_Missense_Mutation_p.A784P|NLRC4_uc010ezt.1_Missense_Mutation_p.A119P	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	784	LRR 6.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					GAAATCTGACCTAGTTTTATA	0.378													38	64	---	---	---	---	PASS	G	32466102	G	G	32466102	3	3	160	1	0	0	0	0	1	0	0	0	10469	695	24	4	744	4	NLRC4	2	32466102	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	4789205	32466102	210733271	25	56512										
PKDCC	91461	broad.mit.edu	37	chr2	42275911	42275912	+	Frame_Shift_Ins	INS	-	G	G													0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	cggaggggctgctatcggctINSggcggcccacaagctgctta							TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:42275911_42275912insG	uc002rsg.2	+	1	751_752	c.572_573insG	c.(571-573)CTGfs	p.L191fs		NM_138370	NP_612379	Q504Y2	PKDCC_HUMAN	protein kinase-like protein SgK493	191	Protein kinase.				cell differentiation|embryonic digestive tract development|lung alveolus development|negative regulation of Golgi to plasma membrane protein transport|ossification|palate development|positive regulation of bone mineralization|positive regulation of chondrocyte differentiation|protein transport	Golgi apparatus	ATP binding|protein kinase activity			breast(1)	1						TGCTATCGGCTGGCGGCCCACA	0.693													11	10	---	---	---	---		G	42275912	G	G	42275911	7	5	160	1	0	1	1	0	0	0	0	0	11969	1580	55	0	574	0	PKDCC	2	42275911	Frame_Shift_Ins	INS	-	TCGA-66-2781-01A-01D-1522-08	9809809	42275911	200923462	26	56513										
MTA3	57504	broad.mit.edu	37	chr2	42871290	42871290	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	accttcttctactcattggtCtatgacccctcattgaaaac	4	13	5	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:42871290C>G	uc002rso.1	+	7	907	c.237C>G	c.(235-237)GTC>GTG	p.V79V	MTA3_uc002rsp.1_Silent_p.V79V|MTA3_uc002rsq.2_Silent_p.V135V|MTA3_uc002rsr.2_Silent_p.V135V	NM_020744	NP_065795	Q9BTC8	MTA3_HUMAN	metastasis associated 1 family, member 3	135	BAH.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						ACTCATTGGTCTATGACCCCT	0.353													10	103	---	---	---	---	PASS	G	42871290	G	G	42871290	2	3	160	1	0	0	0	0	0	0	0	1	9910	900	32	2		2	MTA3	2	42871290	Silent	SNP	C	TCGA-66-2781-01A-01D-1522-08	595379	42871290	200328083	27	56514										
CLEC4F	165530	broad.mit.edu	37	chr2	71043700	71043700	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aaactatttcttaaaacctgGttctgggtcctcaagtcatt	6	9	4	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:71043700G>T	uc002shf.2	-	4	890	c.813C>A	c.(811-813)AAC>AAA	p.N271K	CLEC4F_uc010yqv.1_Missense_Mutation_p.N271K	NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	271	Extracellular (Potential).				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5						TTAAAACCTGGTTCTGGGTCC	0.438													77	225	---	---	---	---	PASS	T	71043700	T	T	71043700	3	4	160	1	0	0	0	0	1	0	0	0	3516	1252	44	3	972	3	CLEC4F	2	71043700	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	28172410	71043700	172155673	28	56515										
REG1B	5968	broad.mit.edu	37	chr2	79313613	79313613	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gacaccaggttgcctgaattCatgttctggcaatagagctg	11	9	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:79313613C>A	uc002sny.2	-	4	313	c.201G>T	c.(199-201)ATG>ATT	p.M67I	REG1B_uc010ffv.1_Missense_Mutation_p.M67I|REG1B_uc010ffw.2_3'UTR	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	67	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						TGCCTGAATTCATGTTCTGGC	0.498													50	101	---	---	---	---	PASS	A	79313613	A	A	79313613	3	1	160	1	0	0	0	0	1	0	0	0	13211	826	29	2	311	2	REG1B	2	79313613	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	8269913	79313613	163885760	29	56516										
TBC1D8	11138	broad.mit.edu	37	chr2	101646111	101646111	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ctctctagaggcatgatgctGaggaacagggtcaggaacca	13	9	2	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:101646111G>A	uc010fiv.2	-	12	2150	c.2019C>T	c.(2017-2019)CTC>CTT	p.L673L	TBC1D8_uc002tau.3_Silent_p.L430L	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8	673	Rab-GAP TBC.				blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						GCATGATGCTGAGGAACAGGG	0.557													7	94	---	---	---	---	PASS	A	101646111	A	A	101646111	2	1	160	1	0	0	0	0	0	0	0	1	15622	1277	45	2		2	TBC1D8	2	101646111	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	22332498	101646111	141553262	30	56517										
RANBP2	5903	broad.mit.edu	37	chr2	109380809	109380809	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tatggcatgcccttgattatGcagatgagttgccaaaacca	9	9	0	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:109380809G>A	uc002tem.3	+	20	3940	c.3814G>A	c.(3814-3816)GCA>ACA	p.A1272T		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1272	RanBD1 1.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						CCTTGATTATGCAGATGAGTT	0.383													60	226	---	---	---	---	PASS	A	109380809	A	A	109380809	3	1	160	1	0	0	0	0	1	0	0	0	13028	1319	46	3	3892	3	RANBP2	2	109380809	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	7734698	109380809	133818564	31	56518										
YSK4	80122	broad.mit.edu	37	chr2	135744425	135744425	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	cctttcagtctctcgcacatGacaataaacaggggtcccaa	7	13	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:135744425G>A	uc002tue.1	-	7	2048	c.2017C>T	c.(2017-2019)CAT>TAT	p.H673Y	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Missense_Mutation_p.H560Y|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Missense_Mutation_p.H401Y|YSK4_uc002tui.3_Missense_Mutation_p.H690Y	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	673							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TCTCGCACATGACAATAAACA	0.393													52	348	---	---	---	---	PASS	A	135744425	A	A	135744425	3	1	160	1	0	0	0	0	1	0	0	0	17492	1290	45	2	1985	2	YSK4	2	135744425	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	26363616	135744425	107454948	32	56519										
LCT	3938	broad.mit.edu	37	chr2	136566354	136566354	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tcttctcttcctcagtgaagCttggcaggcgggaggtggct	14	10	3	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:136566354C>A	uc002tuu.1	-	8	3574	c.3563G>T	c.(3562-3564)AGC>ATC	p.S1188I		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1188	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CTCAGTGAAGCTTGGCAGGCG	0.537													59	155	---	---	---	---	PASS	A	136566354	A	A	136566354	3	1	160	1	0	0	0	0	1	0	0	0	8693	797	28	3	2260	3	LCT	2	136566354	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	821929	136566354	106633019	33	56520										
SPOPL	339745	broad.mit.edu	37	chr2	139316664	139316664	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ctttgaaggtgcctgagtgtCgtctagcagaagatttaggt	13	6	1	4			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:139316664C>G	uc002tvh.2	+	6	953	c.553C>G	c.(553-555)CGT>GGT	p.R185G		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	185						nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		GCCTGAGTGTCGTCTAGCAGA	0.373													6	200	---	---	---	---	PASS	G	139316664	G	G	139316664	3	3	160	1	0	0	0	0	1	0	0	0	15084	884	31	2	571	2	SPOPL	2	139316664	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	2750310	139316664	103882709	34	56521										
XIRP2	129446	broad.mit.edu	37	chr2	168105153	168105153	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	atcataacaggaaaaaccggTgtgttgccacctcccacatt	7	12	1	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:168105153T>A	uc002udx.2	+	8	7269	c.7251T>A	c.(7249-7251)GGT>GGA	p.G2417G	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.G2242G|XIRP2_uc010fpq.2_Silent_p.G2195G|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2242					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GAAAAACCGGTGTGTTGCCAC	0.438													48	121	---	---	---	---	PASS	A	168105153	A	A	168105153	2	1	160	1	0	0	0	0	0	0	0	1	17427	1683	59	5		5	XIRP2	2	168105153	Silent	SNP	T	TCGA-66-2781-01A-01D-1522-08	28788489	168105153	75094220	35	56522										
LRP2	4036	broad.mit.edu	37	chr2	170029730	170029730	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ttgtcacagagatgggcagaGctcactgaaaagggaggagg	16	6	2	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:170029730G>T	uc002ues.2	-	57	11232	c.11019C>A	c.(11017-11019)AGC>AGA	p.S3673R		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3673	LDL-receptor class A 29.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GATGGGCAGAGCTCACTGAAA	0.468													10	46	---	---	---	---	PASS	T	170029730	T	T	170029730	3	4	160	1	0	0	0	0	1	0	0	0	8956	962	34	3	3040	3	LRP2	2	170029730	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	1924577	170029730	73169643	36	56523										
LRP2	4036	broad.mit.edu	37	chr2	170042283	170042283	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gttcgatgttactgttttgcCggcaggtctttccatctggt	11	9	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:170042283C>T	uc002ues.2	-	50	9788	c.9575G>A	c.(9574-9576)CGG>CAG	p.R3192Q		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3192	EGF-like 12; calcium-binding (Potential).|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ACTGTTTTGCCGGCAGGTCTT	0.428													82	225	---	---	---	---	PASS	T	170042283	T	T	170042283	3	4	160	1	0	0	0	0	1	0	0	0	8956	652	23	1	4512	1	LRP2	2	170042283	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	12553	170042283	73157090	37	56524										
CCDC141	285025	broad.mit.edu	37	chr2	179736969	179736969	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	taagttcttcccgttctgctTtctggttttccatggtgttc	8	10	3	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:179736969T>C	uc002unf.1	-	3	302	c.245A>G	c.(244-246)AAA>AGA	p.K82R		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	82	Potential.						protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			CCGTTCTGCTTTCTGGTTTTC	0.423													3	140	---	---	---	---	PASS	C	179736969	C	C	179736969	3	2	160	1	0	0	0	0	1	0	0	0	2775	1841	64	5	2426	5	CCDC141	2	179736969	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	9694686	179736969	63462404	38	56525										
NIF3L1	60491	broad.mit.edu	37	chr2	201760025	201760025	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aacacggattaatctgaattGtactcagaaggctttgatgc	9	7	2	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:201760025G>A	uc002uwm.2	+	4	729	c.638G>A	c.(637-639)TGT>TAT	p.C213Y	NIF3L1_uc002uwl.2_Missense_Mutation_p.C186Y|NIF3L1_uc002uwn.2_Missense_Mutation_p.C186Y|NIF3L1_uc002uwo.2_Missense_Mutation_p.C213Y|NIF3L1_uc002uwp.2_Missense_Mutation_p.C213Y|NIF3L1_uc002uwq.2_Missense_Mutation_p.C213Y	NM_001136039	NP_001129511	Q9GZT8	NIF3L_HUMAN	NIF3 NGG1 interacting factor 3-like 1 isoform 1	213					positive regulation of transcription, DNA-dependent		transcription factor binding			skin(1)	1						AATCTGAATTGTACTCAGAAG	0.373													46	181	---	---	---	---	PASS	A	201760025	A	A	201760025	3	1	160	1	0	0	0	0	1	0	0	0	10416	1377	48	3	648	3	NIF3L1	2	201760025	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	22023056	201760025	41439348	39	56526										
KCNE4	23704	broad.mit.edu	37	chr2	223917651	223917651	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gcggcagcggcaatggcaacGagtacttctacattctggtt	12	10	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:223917651G>A	uc002vnl.3	+	2	257	c.103G>A	c.(103-105)GAG>AAG	p.E35K		NM_080671	NP_542402	Q8WWG9	KCNE4_HUMAN	potassium voltage-gated channel, Isk-related	35						integral to membrane	voltage-gated potassium channel activity			ovary(1)	1		Renal(207;0.0183)|Lung NSC(271;0.137)|all_lung(227;0.175)		Epithelial(121;4.48e-11)|all cancers(144;2.88e-08)|Lung(261;0.00688)|LUSC - Lung squamous cell carcinoma(224;0.008)		CAATGGCAACGAGTACTTCTA	0.592													5	99	---	---	---	---	PASS	A	223917651	A	A	223917651	3	1	160	1	0	0	0	0	1	0	0	0	8025	1059	37	2	105	2	KCNE4	2	223917651	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	22157626	223917651	19281722	40	56527										
ECEL1	9427	broad.mit.edu	37	chr2	233344865	233344865	+	Nonstop_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gcaggcgggcagccaggctcAccacacggaacacttgtggg	15	13	1	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:233344865A>G	uc002vsv.2	-	18	2531	c.2326T>C	c.(2326-2328)TGA>CGA	p.*776R	ECEL1_uc010fya.1_Nonstop_Mutation_p.*774R|ECEL1_uc010fyb.1_Nonstop_Mutation_p.*483R	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	776					neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		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;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		AGCCAGGCTCACCACACGGAA	0.672													14	34	---	---	---	---	PASS	G	233344865	G	G	233344865	4	3	160	1	0	0	0	0	0	0	0	0	4891	172	6	5	5	5	ECEL1	2	233344865	Nonstop_Mutation	SNP	A	TCGA-66-2781-01A-01D-1522-08	9427214	233344865	9854508	41	56528										
NDUFA10	4705	broad.mit.edu	37	chr2	240951107	240951107	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ggcagaggtgatcttcatttCatgtggctaaacagaagcag	12	7	3	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr2:240951107C>T	uc002vyn.2	-	6	756	c.676G>A	c.(676-678)GAA>AAA	p.E226K	NDUFA10_uc010fzc.1_Missense_Mutation_p.E256K	NM_004544	NP_004535	O95299	NDUAA_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	226					mitochondrial electron transport, NADH to ubiquinone|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transport	mitochondrial matrix|mitochondrial respiratory chain complex I	ATP binding|NADH dehydrogenase (ubiquinone) activity|phosphotransferase activity, alcohol group as acceptor			central_nervous_system(1)	1		all_epithelial(40;4.26e-15)|Breast(86;4.4e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0396)|Lung NSC(271;0.128)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(121;7.82e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.5e-13)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;2.39e-05)|Lung(119;0.00519)|LUSC - Lung squamous cell carcinoma(224;0.0202)	NADH(DB00157)	ATCTTCATTTCATGTGGCTAA	0.403													34	81	---	---	---	---	PASS	T	240951107	T	T	240951107	3	4	160	1	0	0	0	0	1	0	0	0	10260	835	29	2	411	2	NDUFA10	2	240951107	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	7606242	240951107	2248266	42	56529										
ZNF197	10168	broad.mit.edu	37	chr3	44685345	44685345	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ttataaatgtaatgagtgtgGaaaagactttagtcagaata	9	2	1	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr3:44685345G>A	uc003cnm.2	+	6	2929	c.2723G>A	c.(2722-2724)GGA>GAA	p.G908E	ZNF197_uc003cnn.2_Intron|ZNF197_uc003cno.2_Intron|ZNF197_uc003cnp.2_Intron	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	908	C2H2-type 20.				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)		AATGAGTGTGGAAAAGACTTT	0.358													66	144	---	---	---	---	PASS	A	44685345	A	A	44685345	3	1	160	1	0	0	0	0	1	0	0	0	17756	1174	41	2	2741	2	ZNF197	3	44685345	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08		44685345	153337085	43	56530										
KIF9	64147	broad.mit.edu	37	chr3	47316965	47316965	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tctccgaatgtctttttttaAgtgaatatcaatgctctagg	7	7	4	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr3:47316965A>G	uc010hjp.2	-	4	713	c.109T>C	c.(109-111)TTA>CTA	p.L37L	KIF9_uc003cqx.2_Silent_p.L37L|KIF9_uc003cqy.2_Silent_p.L37L|KIF9_uc011bat.1_RNA|KIF9_uc011bau.1_RNA|KIF9_uc003cra.3_RNA	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	37	Kinesin-motor.				blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		TCTTTTTTTAAGTGAATATCA	0.363													16	85	---	---	---	---	PASS	G	47316965	G	G	47316965	2	3	160	1	0	0	0	0	0	0	0	1	8310	69	3	5		5	KIF9	3	47316965	Silent	SNP	A	TCGA-66-2781-01A-01D-1522-08	2631620	47316965	150705465	44	56531										
DNAH1	25981	broad.mit.edu	37	chr3	52366376	52366376	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tgagcaagatcaagcagtggGccctgagcacgcctcggatg	14	11	1	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr3:52366376G>T	uc011bef.1	+	8	1513	c.1252G>T	c.(1252-1254)GCC>TCC	p.A418S	DNAH1_uc003ddt.1_Missense_Mutation_p.A418S	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	418	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CAAGCAGTGGGCCCTGAGCAC	0.582													13	46	---	---	---	---	PASS	T	52366376	T	T	52366376	3	4	160	1	0	0	0	0	1	0	0	0	4597	1203	42	3	1278	3	DNAH1	3	52366376	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	5049411	52366376	145656054	45	56532										
TIGIT	201633	broad.mit.edu	37	chr3	114026870	114026870	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gcagaagctgcacctgctggGctctgtggagagcagcgggg	18	10	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr3:114026870G>A	uc003ebg.1	+	4	661	c.627G>A	c.(625-627)GGG>GGA	p.G209G		NM_173799	NP_776160	Q495A1	TIGIT_HUMAN	T cell immunoreceptor with Ig and ITIM domains	209	Cytoplasmic (Potential).				negative regulation of interleukin-12 production|negative regulation of T cell activation|positive regulation of interleukin-10 production	cell surface|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)	1						CACCTGCTGGGCTCTGTGGAG	0.572													50	267	---	---	---	---	PASS	A	114026870	A	A	114026870	2	1	160	1	0	0	0	0	0	0	0	1	15899	1190	42	3		3	TIGIT	3	114026870	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	61660494	114026870	83995560	46	56533										
PCOLCE2	26577	broad.mit.edu	37	chr3	142567068	142567068	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ggaaacagtacctctttcgtTtggttcagcagcggagaaca	11	9	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr3:142567068T>G	uc003evd.2	-	3	635	c.439A>C	c.(439-441)AAC>CAC	p.N147H		NM_013363	NP_037495	Q9UKZ9	PCOC2_HUMAN	procollagen C-endopeptidase enhancer 2	147						extracellular region	collagen binding|heparin binding|peptidase activator activity			ovary(2)|skin(1)	3						CCTCTTTCGTTTGGTTCAGCA	0.438													109	62	---	---	---	---	PASS	G	142567068	G	G	142567068	3	3	160	1	0	0	0	0	1	0	0	0	11595	1841	64	5	836	5	PCOLCE2	3	142567068	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	28540198	142567068	55455362	47	56534										
PLCH1	23007	broad.mit.edu	37	chr3	155203221	155203221	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aaagctcccagaaggtttctGtcaacaggcatagagacagg	11	9	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr3:155203221G>A	uc011bok.1	-	22	3199	c.2922C>T	c.(2920-2922)GAC>GAT	p.D974D	PLCH1_uc011boj.1_Silent_p.D974D|PLCH1_uc011bol.1_Silent_p.D936D	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	974					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GAAGGTTTCTGTCAACAGGCA	0.468													47	263	---	---	---	---	PASS	A	155203221	A	A	155203221	2	1	160	1	0	0	0	0	0	0	0	1	12037	1368	48	3		3	PLCH1	3	155203221	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	12636153	155203221	42819209	48	56535										
SI	6476	broad.mit.edu	37	chr3	164786893	164786893	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tgttgttgtcatgtcttgaaCgttataaccatgattatcaa	7	6	3	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr3:164786893C>A	uc003fei.2	-	4	408	c.346G>T	c.(346-348)GTT>TTT	p.V116F		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	116	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)	ATGTCTTGAACGTTATAACCA	0.378										HNSCC(35;0.089)			69	61	---	---	---	---	PASS	A	164786893	A	A	164786893	3	1	160	1	0	0	0	0	1	0	0	0	14297	536	19	1	5317	1	SI	3	164786893	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	9583672	164786893	33235537	49	56536										
SLITRK3	22865	broad.mit.edu	37	chr3	164907836	164907836	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tggaagtggaaaggggtctcAcaggtaatgtctcccaccag	13	9	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr3:164907836A>C	uc003fej.3	-	2	1227	c.783T>G	c.(781-783)TGT>TGG	p.C261W	SLITRK3_uc003fek.2_Missense_Mutation_p.C261W	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	261	LRRCT 1.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						AAGGGGTCTCACAGGTAATGT	0.473										HNSCC(40;0.11)			6	447	---	---	---	---	PASS	C	164907836	C	C	164907836	3	2	160	1	0	0	0	0	1	0	0	0	14744	157	6	5	2154	5	SLITRK3	3	164907836	Missense_Mutation	SNP	A	TCGA-66-2781-01A-01D-1522-08	120943	164907836	33114594	50	56537										
MRPL47	57129	broad.mit.edu	37	chr3	179320569	179320569	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	atttggtgtactcttaggcaAcaaactaagaaaaaacctgc	7	8	1	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr3:179320569A>G	uc003fjz.2	-	2	137	c.115T>C	c.(115-117)TTG>CTG	p.L39L	MRPL47_uc003fka.2_Intron|MRPL47_uc003fkb.2_Intron|NDUFB5_uc003fkc.2_5'Flank|NDUFB5_uc003fkd.2_5'Flank|NDUFB5_uc003fke.2_5'Flank	NM_020409	NP_065142	Q9HD33	RM47_HUMAN	mitochondrial ribosomal protein L47 isoform a	39					translation	mitochondrial ribosome	structural constituent of ribosome				0	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)			CTCTTAGGCAACAAACTAAGA	0.289													24	321	---	---	---	---	PASS	G	179320569	G	G	179320569	2	3	160	1	0	0	0	0	0	0	0	1	9811	40	2	5		5	MRPL47	3	179320569	Silent	SNP	A	TCGA-66-2781-01A-01D-1522-08	14412733	179320569	18701861	51	56538										
GUCY1A3	2982	broad.mit.edu	37	chr4	156634686	156634686	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ggtcatcaccatgctcaatgCactgtacactcgcttcgacc	7	15	3	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr4:156634686C>T	uc003iov.2	+	8	2059	c.1523C>T	c.(1522-1524)GCA>GTA	p.A508V	GUCY1A3_uc010iqc.2_Missense_Mutation_p.A508V|GUCY1A3_uc003iow.2_Missense_Mutation_p.A508V|GUCY1A3_uc010iqd.2_Missense_Mutation_p.A507V|GUCY1A3_uc003iox.2_Missense_Mutation_p.A508V|GUCY1A3_uc003ioz.2_Missense_Mutation_p.A273V|GUCY1A3_uc003ioy.2_Missense_Mutation_p.A508V|GUCY1A3_uc010iqe.2_Missense_Mutation_p.A273V|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Missense_Mutation_p.A508V	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	508	Guanylate cyclase.				blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		ATGCTCAATGCACTGTACACT	0.502													27	47	---	---	---	---	PASS	T	156634686	T	T	156634686	3	4	160	1	0	0	0	0	1	0	0	0	6894	710	25	3	1556	3	GUCY1A3	4	156634686	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08		156634686	34519590	52	56539										
HCN1	348980	broad.mit.edu	37	chr5	45262200	45262200	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	acgcgctgcgggacagtgctCctgccccctgcctgaaggcc	13	17	0	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr5:45262200C>G	uc003jok.2	-	8	2521	c.2496G>C	c.(2494-2496)AGG>AGC	p.R832S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	832	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GGACAGTGCTCCTGCCCCCTG	0.677													27	56	---	---	---	---	PASS	G	45262200	G	G	45262200	3	3	160	1	0	0	0	0	1	0	0	0	6996	854	30	2	180	2	HCN1	5	45262200	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08		45262200	135653060	53	56540										
HCN1	348980	broad.mit.edu	37	chr5	45262826	45262826	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	cctgtcatgtttcacaatctGcttgaggatttcgttctcct	7	11	4	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr5:45262826G>A	uc003jok.2	-	8	1895	c.1870C>T	c.(1870-1872)CAG>TAG	p.Q624*		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	624	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TTCACAATCTGCTTGAGGATT	0.433													20	162	---	---	---	---	PASS	A	45262826	A	A	45262826	4	1	160	1	0	0	0	0	0	1	0	0	6996	1328	46	3	806	3	HCN1	5	45262826	Nonsense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	626	45262826	135652434	54	56541										
PPIP5K2	23262	broad.mit.edu	37	chr5	102465368	102465368	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ggaaattatcgacatttcttCcaccatgcagatgaagacga	8	9	1	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr5:102465368C>A	uc003kod.3	+	2	594	c.75C>A	c.(73-75)TTC>TTA	p.F25L	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.F25L|PPIP5K2_uc010jbo.1_Intron	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	25					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						GACATTTCTTCCACCATGCAG	0.358													10	33	---	---	---	---	PASS	A	102465368	A	A	102465368	3	1	160	1	0	0	0	0	1	0	0	0	12333	854	30	2	77	2	PPIP5K2	5	102465368	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	57202542	102465368	78449892	55	56542										
GRIA1	2890	broad.mit.edu	37	chr5	153056685	153056685	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gctaacccagctgttccctgGggccaagggatcgacatcca	11	14	0	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr5:153056685G>C	uc003lva.3	+	7	1358	c.993G>C	c.(991-993)TGG>TGC	p.W331C	GRIA1_uc003luy.3_Missense_Mutation_p.W331C|GRIA1_uc003luz.3_Missense_Mutation_p.W236C|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.W251C|GRIA1_uc011dcx.1_Missense_Mutation_p.W262C|GRIA1_uc011dcy.1_Missense_Mutation_p.W341C|GRIA1_uc011dcz.1_Missense_Mutation_p.W341C|GRIA1_uc010jia.1_Missense_Mutation_p.W311C	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	331	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CTGTTCCCTGGGGCCAAGGGA	0.552													9	34	---	---	---	---	PASS	C	153056685	C	C	153056685	3	2	160	1	0	0	0	0	1	0	0	0	6767	1241	43	4	1019	4	GRIA1	5	153056685	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	50591317	153056685	27858575	56	56543										
GABRB2	2561	broad.mit.edu	37	chr5	160838029	160838029	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ttcatccagtgggtacctccTtaggtccatcatgcaggcag	10	12	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr5:160838029T>A	uc003lys.1	-	6	711	c.493A>T	c.(493-495)AGG>TGG	p.R165W	GABRB2_uc011deh.1_Missense_Mutation_p.R4W|GABRB2_uc003lyr.1_Missense_Mutation_p.R165W|GABRB2_uc003lyt.1_Missense_Mutation_p.R165W|GABRB2_uc010jiu.1_Missense_Mutation_p.R102W	NM_021911	NP_068711	P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	165	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|GABA-A receptor activity				0	Renal(175;0.00259)	Medulloblastoma(196;0.021)|all_neural(177;0.0463)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	GGGTACCTCCTTAGGTCCATC	0.443													26	78	---	---	---	---	PASS	A	160838029	A	A	160838029	3	1	160	1	0	0	0	0	1	0	0	0	6167	1608	56	5	1069	5	GABRB2	5	160838029	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	7781344	160838029	20077231	57	56544										
DOCK2	1794	broad.mit.edu	37	chr5	169446101	169446101	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gtgaatatcaaagaagtgggGatttcaaaaaggtaaaaaat	10	2	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr5:169446101G>T	uc003maf.2	+	33	3450	c.3370G>T	c.(3370-3372)GAT>TAT	p.D1124Y	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.D616Y	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1124	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AAGAAGTGGGGATTTCAAAAA	0.453													85	173	---	---	---	---	PASS	T	169446101	T	T	169446101	3	4	160	1	0	0	0	0	1	0	0	0	4687	1174	41	2	3500	2	DOCK2	5	169446101	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	8608072	169446101	11469159	58	56545										
MAK	4117	broad.mit.edu	37	chr6	10764777	10764777	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	cacaatatttaggttttttgCtgtaggattataagtacgtc	8	5	0	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:10764777C>G	uc003mzl.2	-	13	2009	c.1780G>C	c.(1780-1782)GCA>CCA	p.A594P	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Missense_Mutation_p.A594P	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	594					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				AGGTTTTTTGCTGTAGGATTA	0.458													71	169	---	---	---	---	PASS	G	10764777	G	G	10764777	3	3	160	1	0	0	0	0	1	0	0	0	9197	797	28	4	95	4	MAK	6	10764777	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08		10764777	160350290	59	56546										
NEDD9	4739	broad.mit.edu	37	chr6	11190369	11190369	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gggagccaccgtgtgggtacTccgttgagttcatgatgctc	14	10	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:11190369T>A	uc003mzv.2	-	5	1900	c.1733A>T	c.(1732-1734)GAG>GTG	p.E578V	NEDD9_uc010joz.2_Missense_Mutation_p.E578V|NEDD9_uc003mzw.3_Missense_Mutation_p.E432V	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	578					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			GTGTGGGTACTCCGTTGAGTT	0.617													41	105	---	---	---	---	PASS	A	11190369	A	A	11190369	3	1	160	1	0	0	0	0	1	0	0	0	10313	1551	54	5	783	5	NEDD9	6	11190369	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	425592	11190369	159924698	60	56547										
HIVEP1	3096	broad.mit.edu	37	chr6	12161770	12161770	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aaaatgaagacgatgatgagGacagccaggctgaatcagtc	12	7	1	5			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:12161770G>T	uc003nac.2	+	8	6765	c.6586G>T	c.(6586-6588)GAC>TAC	p.D2196Y	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2196					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				CGATGATGAGGACAGCCAGGC	0.478													34	83	---	---	---	---	PASS	T	12161770	T	T	12161770	3	4	160	1	0	0	0	0	1	0	0	0	7186	1174	41	2	6612	2	HIVEP1	6	12161770	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	971401	12161770	158953297	61	56548										
FAM8A1	51439	broad.mit.edu	37	chr6	17601125	17601125	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	cgctgcagtcccccaggccgCggcgccgccgcccccgcagc	13	23	0	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:17601125C>T	uc003ncc.2	+	1	608	c.485C>T	c.(484-486)GCG>GTG	p.A162V		NM_016255	NP_057339	Q9UBU6	FA8A1_HUMAN	family with sequence similarity 8, member A1	162						integral to membrane					0	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.143)	all cancers(50;0.176)|Epithelial(50;0.204)			CCCCAggccgcggcgccgccg	0.632													4	19	---	---	---	---	PASS	T	17601125	T	T	17601125	3	4	160	1	0	0	0	0	1	0	0	0	5649	768	27	1	487	1	FAM8A1	6	17601125	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	5439355	17601125	153513942	62	56549										
HSPA1L	3305	broad.mit.edu	37	chr6	31777883	31777883	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tccaggcacataccctgttcCgcaggcaggcccagtgcatc	10	16	0	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:31777883C>T	uc003nxh.2	-	2	2050	c.1867G>A	c.(1867-1869)GGA>AGA	p.G623R	HSPA1L_uc010jte.2_Missense_Mutation_p.G623R	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	623					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						TACCCTGTTCCGCAGGCAGGC	0.458													27	96	---	---	---	---	PASS	T	31777883	T	T	31777883	3	4	160	1	0	0	0	0	1	0	0	0	7410	661	23	1	62	1	HSPA1L	6	31777883	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	14176758	31777883	139337184	63	56550										
DNAH8	1769	broad.mit.edu	37	chr6	38952061	38952061	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gacagatgactttgacaaacGtctacttaattgctttgcca	7	9	1	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:38952061G>A	uc003ooe.1	+	85	12980	c.12380G>A	c.(12379-12381)CGT>CAT	p.R4127H	DNAH8_uc003oog.1_Missense_Mutation_p.R576H	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTTGACAAACGTCTACTTAAT	0.348													29	89	---	---	---	---	PASS	A	38952061	A	A	38952061	3	1	160	1	0	0	0	0	1	0	0	0	4607	1145	40	1	12710	1	DNAH8	6	38952061	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	7174178	38952061	132163006	64	56551										
GPR111	222611	broad.mit.edu	37	chr6	47649746	47649746	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gacagagatcacctatttacGccatgtgtgcattgttaaca	8	9	1	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:47649746G>T	uc010jzj.1	+	6	1452	c.1451G>T	c.(1450-1452)CGC>CTC	p.R484L	GPR111_uc010jzk.1_Missense_Mutation_p.R416L|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	484	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						ACCTATTTACGCCATGTGTGC	0.468													39	132	---	---	---	---	PASS	T	47649746	T	T	47649746	3	4	160	1	0	0	0	0	1	0	0	0	6628	1087	38	1	1265	1	GPR111	6	47649746	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	8697685	47649746	123465321	65	56552										
PGK2	5232	broad.mit.edu	37	chr6	49754437	49754437	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	catagacgtcccctagcttgGaaagtgatgctcggaaggct	12	10	0	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:49754437G>A	uc003ozu.2	-	1	571	c.464C>T	c.(463-465)TCC>TTC	p.S155F		NM_138733	NP_620061	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	155					glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			ovary(1)	1	Lung NSC(77;0.0402)					CCCTAGCTTGGAAAGTGATGC	0.498													40	106	---	---	---	---	PASS	A	49754437	A	A	49754437	3	1	160	1	0	0	0	0	1	0	0	0	11791	1174	41	2	793	2	PGK2	6	49754437	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	2104691	49754437	121360630	66	56553										
CNR1	1268	broad.mit.edu	37	chr6	88854426	88854426	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gaccccacccagtttgaacaGaaacacgttgcggctatctt	8	13	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:88854426G>C	uc011dzq.1	-	2	4131	c.568C>G	c.(568-570)CTG>GTG	p.L190V	CNR1_uc010kbz.2_Missense_Mutation_p.L190V|CNR1_uc011dzr.1_Missense_Mutation_p.L190V|CNR1_uc011dzs.1_Missense_Mutation_p.L190V|CNR1_uc003pmq.3_Missense_Mutation_p.L190V|CNR1_uc011dzt.1_Missense_Mutation_p.L190V|CNR1_uc010kca.2_Missense_Mutation_p.L157V	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	190	Helical; Name=3; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	AGTTTGAACAGAAACACGTTG	0.577													5	56	---	---	---	---	PASS	C	88854426	C	C	88854426	3	2	160	1	0	0	0	0	1	0	0	0	3631	933	33	2	854	2	CNR1	6	88854426	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	39099989	88854426	82260641	67	56554										
AKD1	221264	broad.mit.edu	37	chr6	109871346	109871346	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aggatgctccaaaaacttttCtttagcctcagcacttgaaa	6	10	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:109871346C>T	uc003ptn.2	-	25	2988	c.2911G>A	c.(2911-2913)GAA>AAA	p.E971K	AKD1_uc011eat.1_Missense_Mutation_p.E50K	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	971					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						AAAAACTTTTCTTTAGCCTCA	0.408													30	213	---	---	---	---	PASS	T	109871346	T	T	109871346	3	4	160	1	0	0	0	0	1	0	0	0	460	922	32	2	2892	2	AKD1	6	109871346	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	21016920	109871346	61243721	68	56555										
SERINC1	57515	broad.mit.edu	37	chr6	122772854	122772854	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tgtcaaatacattgtgtagaCtgtaattactgaagactgta	8	5	1	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:122772854C>A	uc003pyy.1	-	7	875	c.805G>T	c.(805-807)GTC>TTC	p.V269F		NM_020755	NP_065806	Q9NRX5	SERC1_HUMAN	serine incorporator 1	269	Helical; (Potential).				phosphatidylserine metabolic process|phospholipid biosynthetic process|positive regulation of transferase activity|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	L-serine transmembrane transporter activity|protein binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.126)		ATTGTGTAGACTGTAATTACT	0.299													3	68	---	---	---	---	PASS	A	122772854	A	A	122772854	3	1	160	1	0	0	0	0	1	0	0	0	14079	565	20	3	572	3	SERINC1	6	122772854	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	12901508	122772854	48342213	69	56556										
BCLAF1	9774	broad.mit.edu	37	chr6	136599751	136599751	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gacaggtctataaccacctcGatgatatctacctcctcctc	5	15	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:136599751G>T	uc003qgx.1	-	4	521	c.268C>A	c.(268-270)CGA>AGA	p.R90R	BCLAF1_uc003qgw.1_Silent_p.R90R|BCLAF1_uc003qgy.1_Silent_p.R88R|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.R88R	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	90					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TAACCACCTCGATGATATCTA	0.458													39	315	---	---	---	---	PASS	T	136599751	T	T	136599751	2	4	160	1	0	0	0	0	0	0	0	1	1383	1066	37	2		2	BCLAF1	6	136599751	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	13826897	136599751	34515316	70	56557										
OPRM1	4988	broad.mit.edu	37	chr6	154412554	154412554	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	actccactcgaattcgtcagAacactagagaccacccctcc	5	17	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr6:154412554A>C	uc003qpr.2	+	3	1348	c.1111A>C	c.(1111-1113)AAC>CAC	p.N371H	OPRM1_uc011efc.1_Missense_Mutation_p.N290H|OPRM1_uc011efd.1_Missense_Mutation_p.N271H|OPRM1_uc011efe.1_Missense_Mutation_p.N464H|OPRM1_uc003qpn.2_Missense_Mutation_p.N371H|OPRM1_uc003qpo.1_Missense_Mutation_p.N371H|OPRM1_uc011eff.1_Missense_Mutation_p.N371H|OPRM1_uc011efg.1_Missense_Mutation_p.N371H|OPRM1_uc011efh.1_Missense_Mutation_p.N371H|OPRM1_uc003qpq.1_Missense_Mutation_p.N371H|OPRM1_uc003qpt.1_Missense_Mutation_p.N371H|OPRM1_uc011efi.1_Missense_Mutation_p.N371H|OPRM1_uc003qpp.2_RNA|OPRM1_uc003qps.2_RNA|OPRM1_uc010kjg.2_Missense_Mutation_p.N271H|OPRM1_uc003qpu.2_Missense_Mutation_p.N271H	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	371	Cytoplasmic (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	AATTCGTCAGAACACTAGAGA	0.423													12	86	---	---	---	---	PASS	C	154412554	C	C	154412554	3	2	160	1	0	0	0	0	1	0	0	0	10887	246	9	5	1455	5	OPRM1	6	154412554	Missense_Mutation	SNP	A	TCGA-66-2781-01A-01D-1522-08	17812803	154412554	16702513	71	56558										
NPSR1	387129	broad.mit.edu	37	chr7	34698163	34698163	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aatggggttccttctactacTcctttaaggtaagtttcttg	8	8	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr7:34698163T>C	uc003teg.1	+	1	267	c.139T>C	c.(139-141)TCC>CCC	p.S47P	AAA1_uc010kwo.1_Intron|AAA1_uc010kwp.1_Intron|AAA1_uc003tdz.2_Intron|AAA1_uc010kwq.1_Intron|AAA1_uc003teb.1_Intron|AAA1_uc011kaq.1_Intron|NPSR1_uc003teh.1_Missense_Mutation_p.S47P|NPSR1_uc010kwt.1_5'UTR|NPSR1_uc010kwu.1_5'UTR|NPSR1_uc010kwv.1_Missense_Mutation_p.S47P|NPSR1_uc003tei.1_Missense_Mutation_p.S47P|NPSR1_uc010kww.1_Missense_Mutation_p.S47P|NPSR1_uc011kar.1_Missense_Mutation_p.S47P	NM_207172	NP_997055	Q6W5P4	NPSR1_HUMAN	G protein-coupled receptor for asthma	47	Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane	vasopressin receptor activity			skin(3)|pancreas(1)	4					Halothane(DB01159)	CTTCTACTACTCCTTTAAGGT	0.453													22	98	---	---	---	---	PASS	C	34698163	C	C	34698163	3	2	160	1	0	0	0	0	1	0	0	0	10600	1551	54	5	141	5	NPSR1	7	34698163	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08		34698163	124440500	72	56559										
AOAH	313	broad.mit.edu	37	chr7	36552884	36552884	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	cccgccttggtctccaaacaCctgtttaatctgggggttga	10	12	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr7:36552884C>A	uc003tfh.3	-	21	2103	c.1702G>T	c.(1702-1704)GTG>TTG	p.V568L	AOAH_uc010kxf.2_Missense_Mutation_p.R607S|AOAH_uc011kba.1_Missense_Mutation_p.V536L	NM_001637	NP_001628	P28039	AOAH_HUMAN	acyloxyacyl hydrolase precursor	568					inflammatory response|lipid metabolic process	extracellular region	acyloxyacyl hydrolase activity|lipoprotein lipase activity			skin(1)	1						TCTCCAAACACCTGTTTAATC	0.552													39	126	---	---	---	---	PASS	A	36552884	A	A	36552884	3	1	160	1	0	0	0	0	1	0	0	0	726	507	18	3	247	3	AOAH	7	36552884	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	1854721	36552884	122585779	73	56560										
TYW1	55253	broad.mit.edu	37	chr7	66474576	66474576	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tttggtcctattagggattcGcaacagttcttgctgaagca	10	8	1	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr7:66474576G>T	uc003tvn.2	+	4	429	c.280G>T	c.(280-282)GCA>TCA	p.A94S	TYW1_uc010lai.2_RNA	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	94	Flavodoxin-like.				tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				TTAGGGATTCGCAACAGTTCT	0.398													61	144	---	---	---	---	PASS	T	66474576	T	T	66474576	3	4	160	1	0	0	0	0	1	0	0	0	16815	1087	38	1	294	1	TYW1	7	66474576	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	29921692	66474576	92664087	74	56561										
TRIM50	135892	broad.mit.edu	37	chr7	72727109	72727109	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tcggcatcgaagaaggtgagTtcgccctgctcatagtgcag	13	10	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr7:72727109T>G	uc010lbd.1	-	7	1397	c.1272A>C	c.(1270-1272)GAA>GAC	p.E424D	FKBP6_uc003twz.2_Intron|TRIM50_uc003txy.1_Missense_Mutation_p.E424D|TRIM50_uc003txz.1_Missense_Mutation_p.E423D	NM_178125	NP_835226	Q86XT4	TRI50_HUMAN	tripartite motif protein 50A	424	B30.2/SPRY.					cytoplasm|intracellular membrane-bounded organelle	ligase activity|zinc ion binding			skin(1)	1						AGAAGGTGAGTTCGCCCTGCT	0.672													2	6	---	---	---	---	PASS	G	72727109	G	G	72727109	3	3	160	1	0	0	0	0	1	0	0	0	16523	1722	60	5	195	5	TRIM50	7	72727109	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	6252533	72727109	86411554	75	56562										
PCLO	27445	broad.mit.edu	37	chr7	82545860	82545860	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	cgttctctcttttctctctcCtttaatagggcctctttcct	4	14	5	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr7:82545860C>T	uc003uhx.2	-	7	11731	c.11442G>A	c.(11440-11442)AAG>AAA	p.K3814K	PCLO_uc003uhv.2_Silent_p.K3814K|PCLO_uc010lec.2_Silent_p.K779K	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3745					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTTCTCTCTCCTTTAATAGGG	0.448													32	153	---	---	---	---	PASS	T	82545860	T	T	82545860	2	4	160	1	0	0	0	0	0	0	0	1	11583	680	24	3		3	PCLO	7	82545860	Silent	SNP	C	TCGA-66-2781-01A-01D-1522-08	9818751	82545860	76592803	76	56563										
COL1A2	1278	broad.mit.edu	37	chr7	94058634	94058634	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	attgcatacatggatgaggaGactggcaacctgaaaaaggc	12	7	0	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr7:94058634G>T	uc003ung.1	+	51	4317	c.3846G>T	c.(3844-3846)GAG>GAT	p.E1282D	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1282	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TGGATGAGGAGACTGGCAACC	0.478										HNSCC(75;0.22)			49	64	---	---	---	---	PASS	T	94058634	T	T	94058634	3	4	160	1	0	0	0	0	1	0	0	0	3678	933	33	2	4048	2	COL1A2	7	94058634	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	11512774	94058634	65080029	77	56564										
TRIM56	81844	broad.mit.edu	37	chr7	100732826	100732826	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tgtccctcagtaacgggaccAtccacatctttcgggtccgt	9	14	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr7:100732826A>G	uc003uxq.2	+	3	2464	c.2233A>G	c.(2233-2235)ATC>GTC	p.I745V	TRIM56_uc003uxr.2_Intron	NM_030961	NP_112223	Q9BRZ2	TRI56_HUMAN	tripartite motif-containing 56	745					defense response to virus|interferon-beta production|protein K63-linked ubiquitination|response to type I interferon	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			kidney(1)|central_nervous_system(1)|skin(1)	3	Lung NSC(181;0.136)|all_lung(186;0.182)					TAACGGGACCATCCACATCTT	0.607													34	23	---	---	---	---	PASS	G	100732826	G	G	100732826	3	3	160	1	0	0	0	0	1	0	0	0	16527	217	8	5	2235	5	TRIM56	7	100732826	Missense_Mutation	SNP	A	TCGA-66-2781-01A-01D-1522-08	6674192	100732826	58405837	78	56565										
CUX1	1523	broad.mit.edu	37	chr7	101870787	101870787	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gcaaggacagcaagccaccaGagcccagtgacccgccagca	11	16	0	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr7:101870787G>C	uc003uyx.3	+	21	3309	c.3271G>C	c.(3271-3273)GAG>CAG	p.E1091Q	CUX1_uc003uys.3_Missense_Mutation_p.E1102Q|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	1091					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						CAAGCCACCAGAGCCCAGTGA	0.637													9	64	---	---	---	---	PASS	C	101870787	C	C	101870787	3	2	160	1	0	0	0	0	1	0	0	0	4064	943	33	2	3420	2	CUX1	7	101870787	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	1137961	101870787	57267876	79	56566										
JHDM1D	80853	broad.mit.edu	37	chr7	139791688	139791688	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	caccgagaaggaagtttcacCaactggcctttctgggctta	10	11	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr7:139791688C>T	uc003vvm.2	-	19	2651	c.2647G>A	c.(2647-2649)GGT>AGT	p.G883S	JHDM1D_uc010lng.2_RNA	NM_030647	NP_085150	Q6ZMT4	KDM7_HUMAN	jumonji C domain containing histone demethylase	883					midbrain development|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1	Melanoma(164;0.0142)					GAAGTTTCACCAACTGGCCTT	0.502													69	80	---	---	---	---	PASS	T	139791688	T	T	139791688	3	4	160	1	0	0	0	0	1	0	0	0	7948	594	21	3	186	3	JHDM1D	7	139791688	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	37920901	139791688	19346975	80	56567										
EPHB6	2051	broad.mit.edu	37	chr7	142562028	142562028	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	acgctggaccaaggtggacaCaattgcagcagacgagagct	13	10	0	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr7:142562028C>A	uc011kst.1	+	7	1257	c.470C>A	c.(469-471)ACA>AAA	p.T157K	EPHB6_uc011ksu.1_Missense_Mutation_p.T157K|EPHB6_uc003wbs.2_5'UTR|EPHB6_uc003wbt.2_Intron|EPHB6_uc003wbu.2_5'UTR	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	157	Extracellular (Potential).					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					AAGGTGGACACAATTGCAGCA	0.527													31	200	---	---	---	---	PASS	A	142562028	A	A	142562028	3	1	160	1	0	0	0	0	1	0	0	0	5178	478	17	3	480	3	EPHB6	7	142562028	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	2770340	142562028	16576635	81	56568										
KEL	3792	broad.mit.edu	37	chr7	142640367	142640367	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ggcccctgttacccacagagCtggtagaagatgtgcaacag	12	11	0	3	rs138511569		TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr7:142640367C>A	uc003wcb.2	-	16	1977	c.1767G>T	c.(1765-1767)CAG>CAT	p.Q589H		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	589	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					ACCCACAGAGCTGGTAGAAGA	0.557													21	27	---	---	---	---	PASS	A	142640367	A	A	142640367	3	1	160	1	0	0	0	0	1	0	0	0	8142	796	28	3	447	3	KEL	7	142640367	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	78339	142640367	16498296	82	56569										
MLL3	58508	broad.mit.edu	37	chr7	151874332	151874332	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	atcattagtttccaaattatCtaaagtatccaattcaacta	2	8	3	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr7:151874332C>G	uc003wla.2	-	38	8425	c.8206G>C	c.(8206-8208)GAT>CAT	p.D2736H	MLL3_uc003wkz.2_Missense_Mutation_p.D1797H|MLL3_uc003wky.2_Missense_Mutation_p.D245H	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2736	Asp-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TCCAAATTATCTAAAGTATCC	0.373			N		medulloblastoma								6	155	---	---	---	---	PASS	G	151874332	G	G	151874332	3	3	160	1	0	0	0	0	1	0	0	0	9622	913	32	2	6617	2	MLL3	7	151874332	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	9233965	151874332	7264331	83	56570										
SNTG1	54212	broad.mit.edu	37	chr8	51621485	51621485	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tgctagaaagtcatctaatgGgactcacaattgatttcagc	8	8	4	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr8:51621485G>T	uc010lxy.1	+	18	1602	c.1231G>T	c.(1231-1233)GGA>TGA	p.G411*	SNTG1_uc003xqs.1_Nonsense_Mutation_p.G411*|SNTG1_uc010lxz.1_Nonsense_Mutation_p.G411*|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	411					cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				TCATCTAATGGGACTCACAAT	0.358													5	180	---	---	---	---	PASS	T	51621485	T	T	51621485	4	4	160	1	0	0	0	0	0	1	0	0	14874	1233	43	3	1289	3	SNTG1	8	51621485	Nonsense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08		51621485	94742537	84	56571										
NCOA2	10499	broad.mit.edu	37	chr8	71075761	71075761	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	agaactggtctttccttcatGggaactcttcttgccacgca	8	12	4	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr8:71075761G>T	uc003xyn.1	-	8	933	c.771C>A	c.(769-771)CCC>CCA	p.P257P		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	257					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TTTCCTTCATGGGAACTCTTC	0.398			T	RUNXBP2	AML								14	53	---	---	---	---	PASS	T	71075761	T	T	71075761	2	4	160	1	0	0	0	0	0	0	0	1	10229	1335	47	3		3	NCOA2	8	71075761	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	19454276	71075761	75288261	85	56572										
CA3	761	broad.mit.edu	37	chr8	86356323	86356323	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aagaagccctgaagcagcgcGatgggatcgctgtgattggc	15	9	0	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr8:86356323G>T	uc003ydj.2	+	4	495	c.412G>T	c.(412-414)GAT>TAT	p.D138Y	CA3_uc011lfv.1_RNA	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	138					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0						GAAGCAGCGCGATGGGATCGC	0.383													35	49	---	---	---	---	PASS	T	86356323	T	T	86356323	3	4	160	1	0	0	0	0	1	0	0	0	2517	1058	37	2	426	2	CA3	8	86356323	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	15280562	86356323	60007699	86	56573										
CSMD3	114788	broad.mit.edu	37	chr8	113392599	113392599	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	acctgtgtattcaagatgaaAtcctgcagcagaaacactga	8	9	1	4			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr8:113392599A>G	uc003ynu.2	-	38	6277	c.6118T>C	c.(6118-6120)TTT>CTT	p.F2040L	CSMD3_uc003yns.2_Missense_Mutation_p.F1242L|CSMD3_uc003ynt.2_Missense_Mutation_p.F2000L|CSMD3_uc011lhx.1_Missense_Mutation_p.F1936L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2040	Extracellular (Potential).|CUB 11.					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						TCAAGATGAAATCCTGCAGCA	0.274										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			3	184	---	---	---	---	PASS	G	113392599	G	G	113392599	3	3	160	1	0	0	0	0	1	0	0	0	3946	101	4	5	5141	5	CSMD3	8	113392599	Missense_Mutation	SNP	A	TCGA-66-2781-01A-01D-1522-08	27036276	113392599	32971423	87	56574										
TRPS1	7227	broad.mit.edu	37	chr8	116616272	116616272	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	actttcatagtgaaagaggaGtacatctacgtcaggggtgg	13	6	3	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr8:116616272G>T	uc003ynz.2	-	3	2344	c.1885C>A	c.(1885-1887)CTC>ATC	p.L629I	TRPS1_uc011lhy.1_Missense_Mutation_p.L633I|TRPS1_uc003yny.2_Missense_Mutation_p.L642I|TRPS1_uc010mcy.2_Missense_Mutation_p.L629I	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	629	C2H2-type 3; atypical.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TGAAAGAGGAGTACATCTACG	0.512									Langer-Giedion_syndrome				3	88	---	---	---	---	PASS	T	116616272	T	T	116616272	3	4	160	1	0	0	0	0	1	0	0	0	16590	1029	36	3	1976	3	TRPS1	8	116616272	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	3223673	116616272	29747750	88	56575										
TRPS1	7227	broad.mit.edu	37	chr8	116632234	116632234	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tataggctccaggatctggcCctcgccttcacttgcaacgt	9	14	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr8:116632234C>A	uc003ynz.2	-	2	511	c.52G>T	c.(52-54)GGC>TGC	p.G18C	TRPS1_uc011lhy.1_Missense_Mutation_p.G22C|TRPS1_uc003yny.2_Missense_Mutation_p.G31C|TRPS1_uc010mcy.2_Missense_Mutation_p.G18C	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	18					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			AGGATCTGGCCCTCGCCTTCA	0.438									Langer-Giedion_syndrome				67	59	---	---	---	---	PASS	A	116632234	A	A	116632234	3	1	160	1	0	0	0	0	1	0	0	0	16590	623	22	3	3813	3	TRPS1	8	116632234	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	15962	116632234	29731788	89	56576										
TG	7038	broad.mit.edu	37	chr8	134030218	134030218	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	agagcccttgaactggacagGctcctgggatgccagcaagc	13	12	0	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr8:134030218G>T	uc003ytw.2	+	38	6799	c.6758G>T	c.(6757-6759)GGC>GTC	p.G2253V	TG_uc010mdw.2_Missense_Mutation_p.G1012V|TG_uc011ljb.1_Missense_Mutation_p.G622V|TG_uc011ljc.1_Missense_Mutation_p.G386V	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2253					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AACTGGACAGGCTCCTGGGAT	0.542													45	63	---	---	---	---	PASS	T	134030218	T	T	134030218	3	4	160	1	0	0	0	0	1	0	0	0	15810	1203	42	3	6908	3	TG	8	134030218	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	17397984	134030218	12333804	90	56577										
PLEC	5339	broad.mit.edu	37	chr8	145006714	145006714	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gctctccagggacctgaggcGggccttggaggagttctgtg	17	10	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr8:145006714G>A	uc003zaf.1	-	16	2412	c.2242C>T	c.(2242-2244)CGC>TGC	p.R748C	PLEC_uc003zab.1_Missense_Mutation_p.R611C|PLEC_uc003zac.1_Missense_Mutation_p.R615C|PLEC_uc003zad.2_Missense_Mutation_p.R611C|PLEC_uc003zae.1_Missense_Mutation_p.R579C|PLEC_uc003zag.1_Missense_Mutation_p.R589C|PLEC_uc003zah.2_Missense_Mutation_p.R597C|PLEC_uc003zaj.2_Missense_Mutation_p.R638C	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	748	Spectrin 2.|Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GACCTGAGGCGGGCCTTGGAG	0.657													3	109	---	---	---	---	PASS	A	145006714	A	A	145006714	3	1	160	1	0	0	0	0	1	0	0	0	12052	1116	39	1	11880	1	PLEC	8	145006714	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	10976496	145006714	1357308	91	56578										
C9orf46	55848	broad.mit.edu	37	chr9	5358283	5358283	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ctgttcctttctggctttttCaatgctttcaaaagtgatca	6	9	4	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr9:5358283C>T	uc003zjc.2	-	6	604	c.400G>A	c.(400-402)GAA>AAA	p.E134K	C9orf46_uc003zjd.2_Missense_Mutation_p.E134K	NM_018465	NP_060935	Q9HBL7	CI046_HUMAN	hypothetical protein LOC55848	134						integral to membrane				ovary(1)	1	all_hematologic(13;0.158)	Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.00106)|Lung(218;0.125)		CTGGCTTTTTCAATGCTTTCA	0.348													23	61	---	---	---	---	PASS	T	5358283	T	T	5358283	3	4	160	1	0	0	0	0	1	0	0	0	2484	835	29	2	47	2	C9orf46	9	5358283	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08		5358283	135855148	92	56579										
RPS6	6194	broad.mit.edu	37	chr9	19378869	19378869	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gtcaagacaccctgcttcatGgggaaaccttgtttgtcgtt	10	10	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr9:19378869G>A	uc003znv.1	-	3	228	c.186C>T	c.(184-186)CCC>CCT	p.P62P	RPS6_uc003znu.1_Silent_p.P31P|RPS6_uc003znw.1_Silent_p.P31P	NM_001010	NP_001001	P62753	RS6_HUMAN	ribosomal protein S6	62					endocrine pancreas development|glucose homeostasis|insulin receptor signaling pathway|positive regulation of apoptosis|rRNA processing|TOR signaling cascade|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding			ovary(1)	1		Colorectal(97;3.46e-05)|Myeloproliferative disorder(762;0.0255)		Lung(42;0.161)|LUSC - Lung squamous cell carcinoma(42;0.234)		CCTGCTTCATGGGGAAACCTT	0.448													23	33	---	---	---	---	PASS	A	19378869	A	A	19378869	2	1	160	1	0	0	0	0	0	0	0	1	13649	1335	47	3		3	RPS6	9	19378869	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	14020586	19378869	121834562	93	56580										
LINGO2	158038	broad.mit.edu	37	chr9	27949217	27949217	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	attcccagcagcattgctagCgatgcaaacatacatcccgc	7	14	0	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr9:27949217C>A	uc003zqu.1	-	2	1647	c.1453G>T	c.(1453-1455)GCT>TCT	p.A485S	LINGO2_uc010mjf.1_Missense_Mutation_p.A485S|LINGO2_uc003zqv.1_Missense_Mutation_p.A485S	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	485	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)		GCATTGCTAGCGATGCAAACA	0.493													3	115	---	---	---	---	PASS	A	27949217	A	A	27949217	3	1	160	1	0	0	0	0	1	0	0	0	8815	768	27	1	371	1	LINGO2	9	27949217	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	8570348	27949217	113264214	94	56581										
ZNF169	169841	broad.mit.edu	37	chr9	97062558	97062558	+	Frame_Shift_Del	DEL	G	-	-													0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	atcatgtgtgccctgaatgcGggagaggcttttgccagaga							TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr9:97062558delG	uc004aum.1	+	5	823	c.718delG	c.(718-720)GGGfs	p.G240fs		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	240	C2H2-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				CCCTGAATGCGGGAGAGGCTT	0.517													59	36	---	---	---	---		-	97062558	-	-	97062558	7	5	160	1	0	1	0	1	0	0	0	0	17739	1116	39	0	732	0	ZNF169	9	97062558	Frame_Shift_Del	DEL	G	TCGA-66-2781-01A-01D-1522-08	69113341	97062558	44150873	95	56582										
FCN1	2219	broad.mit.edu	37	chr9	137809662	137809662	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gcaggttcttgatatgcaggAacaagactagcaggacagcg	13	8	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr9:137809662A>G	uc004cfi.2	-	1	148	c.56T>C	c.(55-57)TTC>TCC	p.F19S		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	19					opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		GATATGCAGGAACAAGACTAG	0.577													17	99	---	---	---	---	PASS	G	137809662	G	G	137809662	3	3	160	1	0	0	0	0	1	0	0	0	5791	246	9	5	960	5	FCN1	9	137809662	Missense_Mutation	SNP	A	TCGA-66-2781-01A-01D-1522-08	40747104	137809662	3403769	96	56583										
SLC34A3	142680	broad.mit.edu	37	chr9	140130626	140130626	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	agctggccgctgtcgggggtCccctggtggggctggtgctc	19	12	0	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr9:140130626C>A	uc004cmf.1	+	13	1744	c.1558C>A	c.(1558-1560)CCC>ACC	p.P520T	SLC34A3_uc011met.1_Missense_Mutation_p.P520T	NM_080877	NP_543153	Q8N130	NPT2C_HUMAN	solute carrier family 34 (sodium phosphate),	520	Helical; Name=M8; (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|integral to membrane	sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		TGTCGGGGGTCCCCTGGTGGG	0.731											OREG0019630	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	10	---	---	---	---	PASS	A	140130626	A	A	140130626	3	1	160	1	0	0	0	0	1	0	0	0	14569	855	30	2	1604	2	SLC34A3	9	140130626	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	2320964	140130626	1082805	97	56584										
KIAA1217	56243	broad.mit.edu	37	chr10	24833113	24833113	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gacacccctgaaaacacagtGaggaggcaagagcagcccag	12	12	0	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr10:24833113G>A	uc001iru.3	+	19	5317	c.4914G>A	c.(4912-4914)GTG>GTA	p.V1638V	KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron|KIAA1217_uc001irw.2_Intron|KIAA1217_uc001irz.2_Intron|KIAA1217_uc001irx.2_Silent_p.V1321V|KIAA1217_uc001iry.2_Intron|KIAA1217_uc001isa.1_Silent_p.V474V	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	1638					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						AAAACACAGTGAGGAGGCAAG	0.473													24	102	---	---	---	---	PASS	A	24833113	A	A	24833113	2	1	160	1	0	0	0	0	0	0	0	1	8216	1277	45	2		2	KIAA1217	10	24833113	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08		24833113	110701634	98	56585										
MYPN	84665	broad.mit.edu	37	chr10	69935090	69935090	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tatcttacaggccatcccagGgattagcgaagaaaaataca	8	9	1	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr10:69935090G>A	uc001jnm.3	+	13	2760	c.2575G>A	c.(2575-2577)GGA>AGA	p.G859R	MYPN_uc001jnn.3_Missense_Mutation_p.G584R|MYPN_uc001jno.3_Missense_Mutation_p.G859R|MYPN_uc009xpt.2_Missense_Mutation_p.G859R|MYPN_uc010qit.1_Missense_Mutation_p.G565R|MYPN_uc010qiu.1_Intron	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	859						nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						GCCATCCCAGGGATTAGCGAA	0.423													14	66	---	---	---	---	PASS	A	69935090	A	A	69935090	3	1	160	1	0	0	0	0	1	0	0	0	10098	1233	43	3	2617	3	MYPN	10	69935090	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	45101977	69935090	65599657	99	56586										
HKDC1	80201	broad.mit.edu	37	chr10	71005859	71005859	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gagaagatgatcagtggcctGtacctgggggagcttgtcag	16	7	2	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr10:71005859G>T	uc001jpf.3	+	8	1033	c.900G>T	c.(898-900)CTG>CTT	p.L300L	HKDC1_uc010qje.1_Silent_p.L163L	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	300					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						TCAGTGGCCTGTACCTGGGGG	0.532													61	104	---	---	---	---	PASS	T	71005859	T	T	71005859	2	4	160	1	0	0	0	0	0	0	0	1	7193	1364	48	3		3	HKDC1	10	71005859	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	1070769	71005859	64528888	100	56587										
TMEM20	159371	broad.mit.edu	37	chr10	95660692	95660692	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tggatatgtctcaaggaaaaAtatagcccttgggatgctct	10	7	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr10:95660692A>G	uc001kjg.1	+	3	604	c.543A>G	c.(541-543)AAA>AAG	p.K181K	TMEM20_uc001kji.2_Intron|TMEM20_uc001kjf.1_Silent_p.K180K|TMEM20_uc001kjh.2_Intron|TMEM20_uc010qnw.1_Silent_p.K164K|TMEM20_uc001kjj.2_Intron	NM_001134658	NP_001128130	Q2M3R5	TMM20_HUMAN	transmembrane protein 20 isoform 1	181	DUF6 1.					integral to membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;3.46e-05)|Renal(717;0.018)|Ovarian(717;0.0228)|all_hematologic(284;0.189)		STAD - Stomach adenocarcinoma(243;0.00345)		TCAAGGAAAAATATAGCCCTT	0.453													47	122	---	---	---	---	PASS	G	95660692	G	G	95660692	2	3	160	1	0	0	0	0	0	0	0	1	16119	98	4	5		5	TMEM20	10	95660692	Silent	SNP	A	TCGA-66-2781-01A-01D-1522-08	24654833	95660692	39874055	101	56588										
TACC2	10579	broad.mit.edu	37	chr10	123970465	123970465	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ctagcatctgagacgaaaacGgaatctgccaagacggaagg	12	9	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr10:123970465G>A	uc001lfv.2	+	9	6885	c.6525G>A	c.(6523-6525)ACG>ACA	p.T2175T	TACC2_uc001lfw.2_Silent_p.T321T|TACC2_uc009xzx.2_Silent_p.T2130T|TACC2_uc010qtv.1_Silent_p.T2179T|TACC2_uc001lfx.2_5'UTR|TACC2_uc001lfy.2_5'UTR|TACC2_uc001lfz.2_Silent_p.T253T|TACC2_uc001lga.2_Silent_p.T253T|TACC2_uc009xzy.2_Silent_p.T253T|TACC2_uc001lgb.2_Silent_p.T210T|TACC2_uc010qtw.1_Silent_p.T270T	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	2175						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				AGACGAAAACGGAATCTGCCA	0.587													48	145	---	---	---	---	PASS	A	123970465	A	A	123970465	2	1	160	1	0	0	0	0	0	0	0	1	15499	1103	39	1		1	TACC2	10	123970465	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	28309773	123970465	11564282	102	56589										
NLRP14	338323	broad.mit.edu	37	chr11	7063963	7063963	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ttgctcaattgatatcaaagGactggcccagcacagaaggc	10	10	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr11:7063963G>C	uc001mfb.1	+	4	1029	c.706G>C	c.(706-708)GAC>CAC	p.D236H		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	236	NACHT.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		GATATCAAAGGACTGGCCCAG	0.418													59	110	---	---	---	---	PASS	C	7063963	C	C	7063963	3	2	160	1	0	0	0	0	1	0	0	0	10476	1174	41	2	716	2	NLRP14	11	7063963	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08		7063963	127942553	103	56590										
OR8H3	390152	broad.mit.edu	37	chr11	55890082	55890082	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ctcagttactcaactgtcgtCacacctaaaaccttagcgaa	5	13	3	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr11:55890082C>T	uc001nii.1	+	1	234	c.234C>T	c.(232-234)GTC>GTT	p.V78V		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	78	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CAACTGTCGTCACACCTAAAA	0.438													110	761	---	---	---	---	PASS	T	55890082	T	T	55890082	2	4	160	1	0	0	0	0	0	0	0	1	11239	813	29	2		2	OR8H3	11	55890082	Silent	SNP	C	TCGA-66-2781-01A-01D-1522-08	48826119	55890082	79116434	104	56591										
TNKS1BP1	85456	broad.mit.edu	37	chr11	57088079	57088079	+	Missense_Mutation	SNP	G	T	T													0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ctcagccaggggaccccgggGaggccgaggcccaacaggca							TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr11:57088079G>T	uc001njr.2	-	2	514	c.202C>A	c.(202-204)CCC>ACC	p.P68T	TNKS1BP1_uc001njs.2_Missense_Mutation_p.P68T|TNKS1BP1_uc009ymd.1_5'UTR	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	68	Arg/Glu/Lys/Pro-rich (charged).				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GGACCCCGGGGAGGCCGAGGC	0.677													10	39	---	---	---	---	PASS	T	57088079	T	T	57088079	3	4	160	1	0	0	0	0	1	0	0	0	16317	1174	41	2	5023	2	TNKS1BP1	11	57088079	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	1197997	57088079	77918437	105	56592	1005	2								
TNKS1BP1	85456	broad.mit.edu	37	chr11	57088089	57088089	+	Silent	SNP	C	A	A													0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ggaccccggggaggccgaggCccaacaggcaccagcaggct							TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr11:57088089C>A	uc001njr.2	-	2	504	c.192G>T	c.(190-192)GGG>GGT	p.G64G	TNKS1BP1_uc001njs.2_Silent_p.G64G|TNKS1BP1_uc009ymd.1_5'UTR	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	64	Arg/Glu/Lys/Pro-rich (charged).				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GAGGCCGAGGCCCAACAGGCA	0.672													10	35	---	---	---	---	PASS	A	57088089	A	A	57088089	2	1	160	1	0	0	0	0	0	0	0	1	16317	726	26	3		3	TNKS1BP1	11	57088089	Silent	SNP	C	TCGA-66-2781-01A-01D-1522-08	10	57088089	77918427	106	56593	1005	2								
LRP5	4041	broad.mit.edu	37	chr11	68181283	68181283	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ggccgacaagactagcggccGgaaccgcaccctcatccagg	12	16	1	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr11:68181283G>A	uc001ont.2	+	12	2705	c.2630G>A	c.(2629-2631)CGG>CAG	p.R877Q	LRP5_uc009ysg.2_Missense_Mutation_p.R287Q	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	877	Beta-propeller 3.|LDL-receptor class B 15.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						ACTAGCGGCCGGAACCGCACC	0.577													4	93	---	---	---	---	PASS	A	68181283	A	A	68181283	3	1	160	1	0	0	0	0	1	0	0	0	8960	1116	39	1	2676	1	LRP5	11	68181283	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	11093194	68181283	66825233	107	56594										
PDE2A	5138	broad.mit.edu	37	chr11	72292489	72292489	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	catccagttgtggtagggggGatcccggtagcccttcttca	13	11	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr11:72292489G>T	uc010rrc.1	-	23	2200	c.1957C>A	c.(1957-1959)CCC>ACC	p.P653T	PDE2A_uc001oso.2_Missense_Mutation_p.P632T|PDE2A_uc010rra.1_Missense_Mutation_p.P646T|PDE2A_uc001osn.2_Missense_Mutation_p.P397T|PDE2A_uc010rrb.1_Missense_Mutation_p.P644T|PDE2A_uc010rrd.1_Missense_Mutation_p.P538T	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	653	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	TGGTAGGGGGGATCCCGGTAG	0.587													7	11	---	---	---	---	PASS	T	72292489	T	T	72292489	3	4	160	1	0	0	0	0	1	0	0	0	11636	1174	41	2	904	2	PDE2A	11	72292489	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	4111206	72292489	62714027	108	56595										
NAALAD2	10003	broad.mit.edu	37	chr11	89911046	89911046	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	agataagtacagcagctaccCagtgtaccacacaatttatg	7	10	0	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr11:89911046C>A	uc001pdf.3	+	16	1728	c.1619C>A	c.(1618-1620)CCA>CAA	p.P540Q	NAALAD2_uc009yvx.2_Missense_Mutation_p.P507Q|NAALAD2_uc009yvy.2_Intron	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	540	Extracellular (Potential).|NAALADase.				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				AGCAGCTACCCAGTGTACCAC	0.308													56	169	---	---	---	---	PASS	A	89911046	A	A	89911046	3	1	160	1	0	0	0	0	1	0	0	0	10128	594	21	3	1681	3	NAALAD2	11	89911046	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	17618557	89911046	45095470	109	56596										
FAT3	120114	broad.mit.edu	37	chr11	92624033	92624033	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gaaacggatttggtgggcccGcctgccagctgtgaatttag	14	9	0	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr11:92624033G>T	uc001pdj.3	+	25	13445	c.13428G>T	c.(13426-13428)CCG>CCT	p.P4476P	FAT3_uc001pdi.3_Silent_p.P948P	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4508	Pro-rich.|Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TGGTGGGCCCGCCTGCCAGCT	0.567										TCGA Ovarian(4;0.039)			10	50	---	---	---	---	PASS	T	92624033	T	T	92624033	2	4	160	1	0	0	0	0	0	0	0	1	5691	1074	38	1		1	FAT3	11	92624033	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	2712987	92624033	42382483	110	56597										
TMPRSS5	80975	broad.mit.edu	37	chr11	113563832	113563832	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ctggagcctcaggagggcgaCgtcgtagtcatgattctggg	16	9	3	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr11:113563832C>G	uc001poc.3	-	9	1047	c.925G>C	c.(925-927)GTC>CTC	p.V309L	TMPRSS5_uc009yys.2_Missense_Mutation_p.V300L|TMPRSS5_uc009yyt.2_Missense_Mutation_p.V265L|TMPRSS5_uc001pod.3_Missense_Mutation_p.V50L|TMPRSS5_uc010rww.1_Missense_Mutation_p.V230L|TMPRSS5_uc009yyu.2_Missense_Mutation_p.V50L|TMPRSS5_uc010rwx.1_Missense_Mutation_p.V196L	NM_030770	NP_110397	Q9H3S3	TMPS5_HUMAN	transmembrane protease, serine 5	309	Peptidase S1.|Extracellular (Potential).				proteolysis	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(1)	1		all_cancers(61;2.71e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.75e-06)|Epithelial(105;6.34e-05)|all cancers(92;0.000502)		AGGAGGGCGACGTCGTAGTCA	0.647													4	15	---	---	---	---	PASS	G	113563832	G	G	113563832	3	3	160	1	0	0	0	0	1	0	0	0	16247	536	19	4	468	4	TMPRSS5	11	113563832	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	20939799	113563832	21442684	111	56598										
ROBO3	64221	broad.mit.edu	37	chr11	124745138	124745138	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	actgtgctaagaggactcccTccagggacccaaatccagat	9	13	0	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr11:124745138T>A	uc001qbc.2	+	14	2397	c.2205T>A	c.(2203-2205)CCT>CCA	p.P735P	ROBO3_uc010saq.1_5'Flank|ROBO3_uc001qbd.2_5'Flank|ROBO3_uc010sar.1_5'Flank|ROBO3_uc001qbe.2_5'Flank|ROBO3_uc001qbf.1_5'Flank	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	735	Fibronectin type-III 2.|Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		GAGGACTCCCTCCAGGGACCC	0.592													32	108	---	---	---	---	PASS	A	124745138	A	A	124745138	2	1	160	1	0	0	0	0	0	0	0	1	13515	1538	54	5		5	ROBO3	11	124745138	Silent	SNP	T	TCGA-66-2781-01A-01D-1522-08	11181306	124745138	10261378	112	56599										
OR10AD1	121275	broad.mit.edu	37	chr12	48596562	48596562	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gaagctttctatgtggttgtCtctgcggaagggctctcgga	14	8	3	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr12:48596562C>G	uc001rrl.1	-	1	514	c.514G>C	c.(514-516)GAC>CAC	p.D172H		NM_001004134	NP_001004134	Q8NGE0	O10AD_HUMAN	olfactory receptor, family 10, subfamily AD,	172	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ATGTGGTTGTCTCTGCGGAAG	0.512													17	44	---	---	---	---	PASS	G	48596562	G	G	48596562	3	3	160	1	0	0	0	0	1	0	0	0	10896	913	32	2	443	2	OR10AD1	12	48596562	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08		48596562	85255333	113	56600										
CEP290	80184	broad.mit.edu	37	chr12	88512421	88512421	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aactgactaccacacttgccTctttcaaaagaatctggttt	5	11	3	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr12:88512421T>A	uc001tar.2	-	16	1966	c.1622A>T	c.(1621-1623)GAG>GTG	p.E541V	CEP290_uc001tat.2_Missense_Mutation_p.E303V|CEP290_uc009zsl.1_RNA	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	541	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						CACACTTGCCTCTTTCAAAAG	0.343													7	116	---	---	---	---	PASS	A	88512421	A	A	88512421	3	1	160	1	0	0	0	0	1	0	0	0	3253	1565	54	5	5973	5	CEP290	12	88512421	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	39915859	88512421	45339474	114	56601										
C12orf48	55010	broad.mit.edu	37	chr12	102559553	102559553	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	agagcttggagggaaaggatAtgcaccaccaccatcagatc	11	10	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr12:102559553A>G	uc001tjf.2	+	6	825	c.713A>G	c.(712-714)TAT>TGT	p.Y238C	C12orf48_uc001tjg.2_Missense_Mutation_p.Y157C|C12orf48_uc010swa.1_Missense_Mutation_p.Y315C|C12orf48_uc001tjh.2_Missense_Mutation_p.Y157C|C12orf48_uc010swb.1_Missense_Mutation_p.Y124C|C12orf48_uc009zuc.2_Intron|C12orf48_uc001tjj.2_Translation_Start_Site|C12orf48_uc001tjk.2_Missense_Mutation_p.Y238C|C12orf48_uc009zud.2_Missense_Mutation_p.Y238C	NM_017915	NP_060385	Q9NWS1	PR1BP_HUMAN	hypothetical protein LOC55010	238					response to DNA damage stimulus	cytoplasm|nucleus	DNA binding				0						GGGAAAGGATATGCACCACCA	0.338													70	109	---	---	---	---	PASS	G	102559553	G	G	102559553	3	3	160	1	0	0	0	0	1	0	0	0	1692	449	16	5	484	5	C12orf48	12	102559553	Missense_Mutation	SNP	A	TCGA-66-2781-01A-01D-1522-08	14047132	102559553	31292342	115	56602										
C12orf51	283450	broad.mit.edu	37	chr12	112672921	112672921	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ttcatgggatgactggtcttCccgcttgtggataaatatcg	11	8	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr12:112672921C>T	uc009zwc.2	-	30	4627	c.4609G>A	c.(4609-4611)GAA>AAA	p.E1537K		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						GACTGGTCTTCCCGCTTGTGG	0.363													11	10	---	---	---	---	PASS	T	112672921	T	T	112672921	3	4	160	1	0	0	0	0	1	0	0	0	1696	864	30	2	7541	2	C12orf51	12	112672921	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	10113368	112672921	21178974	116	56603										
GCN1L1	10985	broad.mit.edu	37	chr12	120606105	120606105	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gaaactgctcagtttggcctCtgcaagaaacaaaaggttac	9	9	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr12:120606105C>G	uc001txo.2	-	16	1533	c.1520_splice	c.e16-1	p.E507_splice		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis						regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AGTTTGGCCTCTGCAAGAAAC	0.498													48	73	---	---	---	---	PASS	G	120606105	G	G	120606105	5	3	160	1	0	0	0	0	0	0	1	0	6299	927	32	2	6668	2	GCN1L1	12	120606105	Splice_Site	SNP	C	TCGA-66-2781-01A-01D-1522-08	7933184	120606105	13245790	117	56604										
SACS	26278	broad.mit.edu	37	chr13	23915054	23915054	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	agctttaagcagctagtggtCtttaactgttctattttcaa	7	7	3	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr13:23915054C>G	uc001uon.2	-	10	3550	c.2961G>C	c.(2959-2961)AAG>AAC	p.K987N	SACS_uc001uoo.2_Missense_Mutation_p.K840N|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	987					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AGCTAGTGGTCTTTAACTGTT	0.358													70	211	---	---	---	---	PASS	G	23915054	G	G	23915054	3	3	160	1	0	0	0	0	1	0	0	0	13804	912	32	2	10782	2	SACS	13	23915054	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08		23915054	91254824	118	56605										
MYCBP2	23077	broad.mit.edu	37	chr13	77760022	77760022	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	atacctgacactgggtaaatTtcacaggtatagacacgcaa	8	9	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr13:77760022T>A	uc001vkf.2	-	32	4405	c.4314A>T	c.(4312-4314)GAA>GAT	p.E1438D	MYCBP2_uc010aev.2_Missense_Mutation_p.E842D	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1438					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CTGGGTAAATTTCACAGGTAT	0.368													28	42	---	---	---	---	PASS	A	77760022	A	A	77760022	3	1	160	1	0	0	0	0	1	0	0	0	10018	1838	64	5	9820	5	MYCBP2	13	77760022	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	53844968	77760022	37409856	119	56606										
OR4K13	390433	broad.mit.edu	37	chr14	20502131	20502131	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tttatctaccgagtatctgcTgaagggccagacgtagataa	10	8	2	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr14:20502131T>A	uc010tkz.1	-	1	787	c.787A>T	c.(787-789)AGC>TGC	p.S263C		NM_001004714	NP_001004714	Q8NH42	OR4KD_HUMAN	olfactory receptor, family 4, subfamily K,	263	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		GAGTATCTGCTGAAGGGCCAG	0.393													5	49	---	---	---	---	PASS	A	20502131	A	A	20502131	3	1	160	1	0	0	0	0	1	0	0	0	11068	1580	55	5	129	5	OR4K13	14	20502131	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08		20502131	86847409	120	56607										
OR6S1	341799	broad.mit.edu	37	chr14	21109376	21109376	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	cacagccactgtgggaccaaGcacagggacgagtcccccca	11	16	0	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr14:21109376G>T	uc001vxv.1	-	1	475	c.475C>A	c.(475-477)CTT>ATT	p.L159I		NM_001001968	NP_001001968	Q8NH40	OR6S1_HUMAN	olfactory receptor, family 6, subfamily S,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00304)		Epithelial(56;1.23e-06)|all cancers(55;1.01e-05)	GBM - Glioblastoma multiforme(265;0.0135)		GTGGGACCAAGCACAGGGACG	0.617													8	35	---	---	---	---	PASS	T	21109376	T	T	21109376	3	4	160	1	0	0	0	0	1	0	0	0	11209	971	34	3	524	3	OR6S1	14	21109376	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	607245	21109376	86240164	121	56608										
OR5AU1	390445	broad.mit.edu	37	chr14	21623456	21623456	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	agcaggatctcacacagtgaGgtgtctacacaagacaagga	11	9	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr14:21623456G>C	uc010tlp.1	-	1	729	c.729C>G	c.(727-729)ACC>ACG	p.T243T		NM_001004731	NP_001004731	Q8NGC0	O5AU1_HUMAN	olfactory receptor, family 5, subfamily AU,	243	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(95;0.00238)		Epithelial(56;6.88e-07)|all cancers(55;6.02e-06)	GBM - Glioblastoma multiforme(265;0.0192)		CACACAGTGAGGTGTCTACAC	0.468													11	31	---	---	---	---	PASS	C	21623456	C	C	21623456	2	2	160	1	0	0	0	0	0	0	0	1	11147	987	35	4		4	OR5AU1	14	21623456	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	514080	21623456	85726084	122	56609										
MDGA2	161357	broad.mit.edu	37	chr14	47324244	47324244	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tacctgaaatgaagtaattgGgtatatattaacatgagcct	8	5	0	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr14:47324244G>T	uc001wwj.3	-	15	2855	c.2659C>A	c.(2659-2661)CCA>ACA	p.P887T	MDGA2_uc001wwh.3_Missense_Mutation_p.P89T|MDGA2_uc001wwi.3_Missense_Mutation_p.P658T	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	887	MAM.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						GAAGTAATTGGGTATATATTA	0.323													12	115	---	---	---	---	PASS	T	47324244	T	T	47324244	3	4	160	1	0	0	0	0	1	0	0	0	9407	1232	43	3	223	3	MDGA2	14	47324244	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	25700788	47324244	60025296	123	56610										
MTHFD1	4522	broad.mit.edu	37	chr14	64882081	64882081	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tggtattacttttaggtgatGaagtacattacatctttgaa	8	4	1	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr14:64882081G>A	uc001xhb.2	+	5	633	c.246G>A	c.(244-246)ATG>ATA	p.M82I	MTHFD1_uc010aqe.2_Missense_Mutation_p.M118I|MTHFD1_uc010aqf.2_Missense_Mutation_p.M138I	NM_005956	NP_005947	P11586	C1TC_HUMAN	methylenetetrahydrofolate dehydrogenase 1	82	Methylenetetrahydrofolate dehydrogenase and cyclohydrolase.				folic acid metabolic process|folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process	cytosol|mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|methylenetetrahydrofolate dehydrogenase|protein binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(108;8.7e-12)|all cancers(60;3.29e-11)|BRCA - Breast invasive adenocarcinoma(234;0.0488)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	TTTAGGTGATGAAGTACATTA	0.338													29	196	---	---	---	---	PASS	A	64882081	A	A	64882081	3	1	160	1	0	0	0	0	1	0	0	0	9927	1290	45	2	264	2	MTHFD1	14	64882081	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	17557837	64882081	42467459	124	56611										
PLEKHH1	57475	broad.mit.edu	37	chr14	68052672	68052672	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tggttcctttccacagcaagTgcacatcacttacccctact	5	15	1	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr14:68052672T>C	uc001xjl.1	+	28	3933	c.3791T>C	c.(3790-3792)GTG>GCG	p.V1264A	PLEKHH1_uc010tsw.1_Missense_Mutation_p.V832A|PLEKHH1_uc001xjn.1_Missense_Mutation_p.V779A|PLEKHH1_uc010tsx.1_Missense_Mutation_p.V129A|PLEKHH1_uc001xjo.1_Missense_Mutation_p.V129A|PLEKHH1_uc001xjp.1_Missense_Mutation_p.V129A	NM_020715	NP_065766	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H	1264	FERM.					cytoskeleton	binding				0				all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)		CCACAGCAAGTGCACATCACT	0.502													48	308	---	---	---	---	PASS	C	68052672	C	C	68052672	3	2	160	1	0	0	0	0	1	0	0	0	12076	1696	59	5	3897	5	PLEKHH1	14	68052672	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	3170591	68052672	39296868	125	56612										
ZFYVE1	53349	broad.mit.edu	37	chr14	73464861	73464861	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ccacactcccacagtgcaggActcctgggtcggggaggttt	13	13	0	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr14:73464861A>G	uc001xnm.2	-	3	1286	c.646T>C	c.(646-648)TCC>CCC	p.S216P	ZFYVE1_uc010arj.2_Missense_Mutation_p.S216P	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	216						endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		ACAGTGCAGGACTCCTGGGTC	0.502													9	90	---	---	---	---	PASS	G	73464861	G	G	73464861	3	3	160	1	0	0	0	0	1	0	0	0	17660	275	10	5	1727	5	ZFYVE1	14	73464861	Missense_Mutation	SNP	A	TCGA-66-2781-01A-01D-1522-08	5412189	73464861	33884679	126	56613										
CYP46A1	10858	broad.mit.edu	37	chr14	100157471	100157471	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aaaggatgaggttggtggccGtgtgctccaagatgtgtttt	15	5	0	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr14:100157471G>A	uc001ygo.2	+	2	173	c.173G>A	c.(172-174)CGT>CAT	p.R58H	CYP46A1_uc001ygn.1_Missense_Mutation_p.V6M	NM_006668	NP_006659	Q9Y6A2	CP46A_HUMAN	cytochrome P450, family 46	58					bile acid biosynthetic process|cholesterol catabolic process|nervous system development|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol 24-hydroxylase activity|electron carrier activity|heme binding|steroid hydroxylase activity				0		Melanoma(154;0.0866)|all_epithelial(191;0.179)				GTTGGTGGCCGTGTGCTCCAA	0.498													5	275	---	---	---	---	PASS	A	100157471	A	A	100157471	3	1	160	1	0	0	0	0	1	0	0	0	4182	1145	40	1	179	1	CYP46A1	14	100157471	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	26692610	100157471	7192069	127	56614										
ASB7	140460	broad.mit.edu	37	chr15	101188614	101188614	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	taaagctacttgatgaactaCcaattgccaaggtcatgaaa	7	8	1	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr15:101188614C>G	uc002bwk.2	+	6	1673	c.904C>G	c.(904-906)CCA>GCA	p.P302A		NM_198243	NP_937886	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box-containing protein 7	302	SOCS box.				intracellular signal transduction					skin(1)	1	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			TGATGAACTACCAATTGCCAA	0.373													56	72	---	---	---	---	PASS	G	101188614	G	G	101188614	3	3	160	1	0	0	0	0	1	0	0	0	1028	507	18	4	922	4	ASB7	15	101188614	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08		101188614	1342778	128	56615										
CLCN7	1186	broad.mit.edu	37	chr16	1505780	1505780	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aaggacgcaccctcctccaaGctgaacaggaccccacctgg	9	17	0	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr16:1505780G>C	uc002clv.2	-	11	1043	c.933C>G	c.(931-933)AGC>AGG	p.S311R	CLCN7_uc002clw.2_Missense_Mutation_p.S287R	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	311						integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				CCTCCTCCAAGCTGAACAGGA	0.642													5	50	---	---	---	---	PASS	C	1505780	C	C	1505780	3	2	160	1	0	0	0	0	1	0	0	0	3468	962	34	4	1544	4	CLCN7	16	1505780	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08		1505780	88848973	129	56616										
TXNDC11	51061	broad.mit.edu	37	chr16	11785786	11785786	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	acagtgttgcagcagggggaCgctgtgatcgttggcgggtc	18	8	0	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr16:11785786C>A	uc010buu.1	-	9	1403	c.1341G>T	c.(1339-1341)GCG>GCT	p.A447A	TXNDC11_uc002dbg.1_Silent_p.A420A	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	447					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						AGCAGGGGGACGCTGTGATCG	0.642													3	45	---	---	---	---	PASS	A	11785786	A	A	11785786	2	1	160	1	0	0	0	0	0	0	0	1	16789	523	19	1		1	TXNDC11	16	11785786	Silent	SNP	C	TCGA-66-2781-01A-01D-1522-08	10280006	11785786	78568967	130	56617										
SPNS1	83985	broad.mit.edu	37	chr16	28995152	28995152	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ggcccccctccttcttgtccGagttccgggctctgcagttc	10	17	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr16:28995152G>T	uc010vdi.1	+	12	1506	c.1366G>T	c.(1366-1368)GAG>TAG	p.E456*	uc010vct.1_Intron|SPNS1_uc002drx.2_Nonsense_Mutation_p.E383*|SPNS1_uc002dsa.2_Nonsense_Mutation_p.E456*|SPNS1_uc002drz.2_Nonsense_Mutation_p.E404*|SPNS1_uc010byp.2_Nonsense_Mutation_p.E382*|SPNS1_uc010byq.1_Intron|LAT_uc010vdj.1_5'Flank|LAT_uc002dsb.2_5'Flank|LAT_uc002dsd.2_5'Flank|LAT_uc002dsc.2_5'Flank|LAT_uc010vdk.1_5'Flank|LAT_uc010vdl.1_5'Flank	NM_001142448	NP_001135920	Q9H2V7	SPNS1_HUMAN	spinster homolog 1 isoform 1	456					lipid transport|transmembrane transport	integral to membrane|mitochondrial inner membrane	protein binding				0						CTTCTTGTCCGAGTTCCGGGC	0.642													53	103	---	---	---	---	PASS	T	28995152	T	T	28995152	4	4	160	1	0	0	0	0	0	1	0	0	15073	1059	37	2	1408	2	SPNS1	16	28995152	Nonsense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	17209366	28995152	61359601	131	56618										
ZNF689	115509	broad.mit.edu	37	chr16	30616439	30616439	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gtgctgggagaggttcttgcGctgggagaaacgtttgccac	16	8	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr16:30616439G>A	uc002dyx.2	-	3	969	c.649C>T	c.(649-651)CGC>TGC	p.R217C	ZNF689_uc010bzy.2_5'UTR	NM_138447	NP_612456	Q96CS4	ZN689_HUMAN	zinc finger protein HIT-39	217	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			AGGTTCTTGCGCTGGGAGAAA	0.612													21	118	---	---	---	---	PASS	A	30616439	A	A	30616439	3	1	160	1	0	0	0	0	1	0	0	0	18091	1087	38	1	857	1	ZNF689	16	30616439	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	1621287	30616439	59738314	132	56619										
SHCBP1	79801	broad.mit.edu	37	chr16	46655228	46655228	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ccatgcgctccggcgccatgGccgctgcctccagaccgccg	12	20	0	1	rs140408371		TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr16:46655228G>C	uc002eec.3	-	1	84	c.44C>G	c.(43-45)GCC>GGC	p.A15G		NM_024745	NP_079021	Q8NEM2	SHCBP_HUMAN	SHC SH2-domain binding protein 1	15										ovary(1)|breast(1)	2		all_cancers(37;0.00404)|all_epithelial(9;0.00527)|all_lung(18;0.0413)|Lung NSC(13;0.213)				CGGCGCCATGGCCGCTGCCTC	0.687													9	72	---	---	---	---	PASS	C	46655228	C	C	46655228	3	2	160	1	0	0	0	0	1	0	0	0	14274	1203	42	4	2026	4	SHCBP1	16	46655228	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	16038789	46655228	43699525	133	56620										
CDH15	1013	broad.mit.edu	37	chr16	89261398	89261398	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tccagccagggcgatgaggaCcaggactacgactacctcag	12	13	1	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr16:89261398C>G	uc002fmt.2	+	14	2357	c.2280C>G	c.(2278-2280)GAC>GAG	p.D760E		NM_004933	NP_004924	P55291	CAD15_HUMAN	cadherin 15 preproprotein	760	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	calcium ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0261)		GCGATGAGGACCAGGACTACG	0.657													5	17	---	---	---	---	PASS	G	89261398	G	G	89261398	3	3	160	1	0	0	0	0	1	0	0	0	3100	506	18	4	2334	4	CDH15	16	89261398	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	42606170	89261398	1093355	134	56621										
MYH13	8735	broad.mit.edu	37	chr17	10216611	10216611	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ctgctcctcctcatactgttCccgcagcaggtcacagtcgt	8	16	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr17:10216611C>T	uc002gmk.1	-	30	4135	c.4045G>A	c.(4045-4047)GAA>AAA	p.E1349K		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1349	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TCATACTGTTCCCGCAGCAGG	0.592													53	76	---	---	---	---	PASS	T	10216611	T	T	10216611	3	4	160	1	0	0	0	0	1	0	0	0	10032	864	30	2	1819	2	MYH13	17	10216611	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08		10216611	70978599	135	56622										
CNTNAP1	8506	broad.mit.edu	37	chr17	40837084	40837084	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	acttcactgcgcgctacatcCgcatcgtgcccctggcctgg	10	17	1	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr17:40837084C>A	uc002iay.2	+	4	655	c.439C>A	c.(439-441)CGC>AGC	p.R147S	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	147	Extracellular (Potential).|F5/8 type C.				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		GCGCTACATCCGCATCGTGCC	0.627													26	73	---	---	---	---	PASS	A	40837084	A	A	40837084	3	1	160	1	0	0	0	0	1	0	0	0	3646	652	23	1	453	1	CNTNAP1	17	40837084	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	30620473	40837084	40358126	136	56623										
CA10	56934	broad.mit.edu	37	chr17	49731086	49731086	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tatagctcatggttatagtgGatgagctgcacctggcagga	13	7	1	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr17:49731086G>T	uc002itw.3	-	5	1463	c.477C>A	c.(475-477)ATC>ATA	p.I159I	CA10_uc002itu.3_Silent_p.I88I|CA10_uc002itv.3_Silent_p.I165I|CA10_uc002itx.3_Silent_p.I159I|CA10_uc002ity.3_Silent_p.I159I|CA10_uc002itz.2_Silent_p.I159I	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	159					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			GGTTATAGTGGATGAGCTGCA	0.403													23	96	---	---	---	---	PASS	T	49731086	T	T	49731086	2	4	160	1	0	0	0	0	0	0	0	1	2511	1164	41	2		2	CA10	17	49731086	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	8894002	49731086	31464124	137	56624										
HELZ	9931	broad.mit.edu	37	chr17	65105343	65105343	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tctcagaggactgtggccttCttgcagcatgggagggggct	16	9	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr17:65105343C>T	uc010wqk.1	-	29	4568	c.4381G>A	c.(4381-4383)GAA>AAA	p.E1461K	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.E1460K|HELZ_uc010der.2_Missense_Mutation_p.E4K	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					CTGTGGCCTTCTTGCAGCATG	0.517													48	87	---	---	---	---	PASS	T	65105343	T	T	65105343	3	4	160	1	0	0	0	0	1	0	0	0	7049	922	32	2	1470	2	HELZ	17	65105343	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	15374257	65105343	16089867	138	56625										
CDC42EP4	23580	broad.mit.edu	37	chr17	71282411	71282411	+	Missense_Mutation	SNP	T	C	C													0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	gaacttcctggacaggagacTgcgtttggaagatgaagaag							TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr17:71282411T>C	uc002jjn.2	-	2	376	c.229A>G	c.(229-231)AGT>GGT	p.S77G	CDC42EP4_uc002jjo.2_Missense_Mutation_p.S77G|CDC42EP4_uc002jjp.1_Intron	NM_012121	NP_036253	Q9H3Q1	BORG4_HUMAN	Cdc42 effector protein 4	77					positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|cytoplasm|endomembrane system|membrane|microtubule cytoskeleton	GTP-Rho binding				0			LUSC - Lung squamous cell carcinoma(166;0.0352)|Lung(188;0.0711)			GACAGGAGACTGCGTTTGGAA	0.642													24	92	---	---	---	---	PASS	C	71282411	C	C	71282411	3	2	160	1	0	0	0	0	1	0	0	0	3078	1580	55	5	845	5	CDC42EP4	17	71282411	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	6177068	71282411	9912799	139	56626	1006	2								
CDC42EP4	23580	broad.mit.edu	37	chr17	71282412	71282412	+	Silent	SNP	G	C	C													0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aacttcctggacaggagactGcgtttggaagatgaagaaga							TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr17:71282412G>C	uc002jjn.2	-	2	375	c.228C>G	c.(226-228)CGC>CGG	p.R76R	CDC42EP4_uc002jjo.2_Silent_p.R76R|CDC42EP4_uc002jjp.1_Intron	NM_012121	NP_036253	Q9H3Q1	BORG4_HUMAN	Cdc42 effector protein 4	76					positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|cytoplasm|endomembrane system|membrane|microtubule cytoskeleton	GTP-Rho binding				0			LUSC - Lung squamous cell carcinoma(166;0.0352)|Lung(188;0.0711)			ACAGGAGACTGCGTTTGGAAG	0.642													24	92	---	---	---	---	PASS	C	71282412	C	C	71282412	2	2	160	1	0	0	0	0	0	0	0	1	3078	1306	46	4		4	CDC42EP4	17	71282412	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	1	71282412	9912798	140	56627	1006	2								
NARF	26502	broad.mit.edu	37	chr17	80417879	80417879	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ttttttaaggaatgtagtaaGaaaacaaaaactgatgacca	7	4	0	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr17:80417879G>T	uc002kfg.3	+	2	179	c.39G>T	c.(37-39)AAG>AAT	p.K13N	NARF_uc002kff.3_5'UTR|NARF_uc010wvo.1_Missense_Mutation_p.K13N|NARF_uc010wvp.1_5'UTR|NARF_uc010dit.2_Missense_Mutation_p.K13N|NARF_uc002kfj.3_Missense_Mutation_p.K13N|NARF_uc002kfi.3_RNA|NARF_uc002kfh.3_Missense_Mutation_p.K13N	NM_012336	NP_036468	Q9UHQ1	NARF_HUMAN	nuclear prelamin A recognition factor isoform a	13						lamin filament	lamin binding			skin(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			AATGTAGTAAGAAAACAAAAA	0.393													12	76	---	---	---	---	PASS	T	80417879	T	T	80417879	3	4	160	1	0	0	0	0	1	0	0	0	10167	933	33	2	45	2	NARF	17	80417879	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	9135467	80417879	777331	141	56628										
TCEB3B	51224	broad.mit.edu	37	chr18	44561086	44561086	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	cccgggcgcagcgggctcagGgccctcgggcatccggaggg	19	15	1	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr18:44561086G>T	uc002lcr.1	-	1	903	c.550C>A	c.(550-552)CCT>ACT	p.P184T	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	184					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GCGGGCTCAGGGCCCTCGGGC	0.701													35	67	---	---	---	---	PASS	T	44561086	T	T	44561086	3	4	160	1	0	0	0	0	1	0	0	0	15679	1232	43	3	1715	3	TCEB3B	18	44561086	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08		44561086	33516162	142	56629										
SALL3	27164	broad.mit.edu	37	chr18	76755137	76755137	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tctaggtcccagccaaagcaCtcctagcctgatctccagcg	8	16	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr18:76755137C>A	uc002lmt.2	+	2	3146	c.3146C>A	c.(3145-3147)ACT>AAT	p.T1049N	SALL3_uc010dra.2_Missense_Mutation_p.T584N	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1049					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		AGCCAAAGCACTCCTAGCCTG	0.547													11	65	---	---	---	---	PASS	A	76755137	A	A	76755137	3	1	160	1	0	0	0	0	1	0	0	0	13812	565	20	3	3152	3	SALL3	18	76755137	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	32194051	76755137	1322111	143	56630										
ATP8B3	148229	broad.mit.edu	37	chr19	1789540	1789540	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ctgcagcacctcggagctacGgcgggctctggagtcctggg	16	13	1	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr19:1789540G>A	uc002ltw.2	-	23	2899	c.2665C>T	c.(2665-2667)CGT>TGT	p.R889C	ATP8B3_uc002ltv.2_Missense_Mutation_p.R852C|ATP8B3_uc002ltx.2_RNA	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	889	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCGGAGCTACGGCGGGCTCTG	0.692													7	15	---	---	---	---	PASS	A	1789540	A	A	1789540	3	1	160	1	0	0	0	0	1	0	0	0	1196	1116	39	1	1265	1	ATP8B3	19	1789540	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08		1789540	57339443	144	56631										
MUC16	94025	broad.mit.edu	37	chr19	9049179	9049179	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	caatgaaactgttgtagctgGttcaccaggggagtttgtca	12	7	2	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr19:9049179G>A	uc002mkp.2	-	5	32656	c.32452C>T	c.(32452-32454)CCA>TCA	p.P10818S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10820	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTTGTAGCTGGTTCACCAGGG	0.488													91	191	---	---	---	---	PASS	A	9049179	A	A	9049179	3	1	160	1	0	0	0	0	1	0	0	0	9973	1261	44	3	11391	3	MUC16	19	9049179	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	7259639	9049179	50079804	145	56632										
ZNF430	80264	broad.mit.edu	37	chr19	21240364	21240364	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	taattggtcctcgacccttaCtaaacataaaagaattcata	4	9	1	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr19:21240364C>T	uc002npj.2	+	5	1360	c.1250C>T	c.(1249-1251)ACT>ATT	p.T417I	ZNF430_uc002npk.2_Missense_Mutation_p.T416I	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	417	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						TCGACCCTTACTAAACATAAA	0.348													20	58	---	---	---	---	PASS	T	21240364	T	T	21240364	3	4	160	1	0	0	0	0	1	0	0	0	17901	565	20	3	1268	3	ZNF430	19	21240364	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	12191185	21240364	37888619	146	56633										
TSHZ3	57616	broad.mit.edu	37	chr19	31769803	31769803	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tcagaggcactttttggtagTgttttgttttgatcatatgg	11	4	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr19:31769803T>G	uc002nsy.3	-	2	961	c.896A>C	c.(895-897)CAC>CCC	p.H299P		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	299	C2H2-type 2.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TTTTTGGTAGTGTTTTGTTTT	0.532													15	244	---	---	---	---	PASS	G	31769803	G	G	31769803	3	3	160	1	0	0	0	0	1	0	0	0	16622	1696	59	5	2353	5	TSHZ3	19	31769803	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	10529439	31769803	27359180	147	56634										
FXYD3	5349	broad.mit.edu	37	chr19	35613674	35613674	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ccactttcctcctagactggCacagcctccaggttggcggg	11	15	0	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr19:35613674C>A	uc010xsn.1	+	7	429	c.103C>A	c.(103-105)CAC>AAC	p.H35N	FXYD3_uc010xsl.1_Missense_Mutation_p.H35N|FXYD3_uc010xsm.1_Missense_Mutation_p.H92N|FXYD3_uc002nxw.2_Missense_Mutation_p.H35N|FXYD3_uc002nxv.2_Missense_Mutation_p.H35N|FXYD3_uc010xso.1_Missense_Mutation_p.H35N	NM_001136011	NP_001129483	Q14802	FXYD3_HUMAN	FXYD domain containing ion transport regulator 3	35	Extracellular (Potential).					chloride channel complex|integral to plasma membrane	chloride channel activity				0	all_lung(56;5.38e-08)|Lung NSC(56;8.61e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.54e-20)|OV - Ovarian serous cystadenocarcinoma(14;1.33e-18)|all cancers(14;4.27e-17)|LUSC - Lung squamous cell carcinoma(66;0.0849)			CCTAGACTGGCACAGCCTCCA	0.522													7	222	---	---	---	---	PASS	A	35613674	A	A	35613674	3	1	160	1	0	0	0	0	1	0	0	0	6119	710	25	3	385	3	FXYD3	19	35613674	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	3843871	35613674	23515309	148	56635										
ZFP82	284406	broad.mit.edu	37	chr19	36884570	36884570	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	cattccttacattcatagagTttttcaccagaatgaagtct	5	9	3	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr19:36884570T>A	uc002ody.1	-	5	907	c.672A>T	c.(670-672)AAA>AAT	p.K224N		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	224					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						ATTCATAGAGTTTTTCACCAG	0.408													34	383	---	---	---	---	PASS	A	36884570	A	A	36884570	3	1	160	1	0	0	0	0	1	0	0	0	17650	1722	60	5	930	5	ZFP82	19	36884570	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	1270896	36884570	22244413	149	56636										
SPTBN4	57731	broad.mit.edu	37	chr19	41081468	41081468	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tcgcagggccagcgggcgcaGgaagtgacttcccaccccca	13	16	0	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr19:41081468G>T	uc002ony.2	+	36	7774	c.7688G>T	c.(7687-7689)AGG>ATG	p.R2563M	SPTBN4_uc002onz.2_Missense_Mutation_p.R2563M|SPTBN4_uc010egx.2_Missense_Mutation_p.R1306M|SHKBP1_uc002oob.2_5'Flank|SHKBP1_uc002ooc.2_5'Flank|SHKBP1_uc002ood.2_5'Flank|SHKBP1_uc010xvl.1_5'Flank|SHKBP1_uc002ooe.2_5'Flank|SHKBP1_uc002oof.2_5'Flank|SHKBP1_uc010xvm.1_5'Flank	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	2563					actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AGCGGGCGCAGGAAGTGACTT	0.622													5	149	---	---	---	---	PASS	T	41081468	T	T	41081468	3	4	160	1	0	0	0	0	1	0	0	0	15120	1000	35	3	7920	3	SPTBN4	19	41081468	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	4196898	41081468	18047515	150	56637										
MYH14	79784	broad.mit.edu	37	chr19	50780014	50780014	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tctcctttcccccaataaagGtccaagagggaacaggaggt	10	11	1	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr19:50780014G>T	uc002prr.1	+	27	3605	c.3558G>T	c.(3556-3558)CGG>CGT	p.R1186R	MYH14_uc010enu.1_Silent_p.R1227R|MYH14_uc002prq.1_Silent_p.R1194R	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1186	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		CCCAATAAAGGTCCAAGAGGG	0.557													4	87	---	---	---	---	PASS	T	50780014	T	T	50780014	2	4	160	1	0	0	0	0	0	0	0	1	10033	1275	44	3		3	MYH14	19	50780014	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	9698546	50780014	8348969	151	56638										
KLK7	5650	broad.mit.edu	37	chr19	51480876	51480876	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	cctgggtcattgggttggccGcaagggaaagttccccagga	15	10	1	0	rs17855561		TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr19:51480876G>A	uc002puo.2	-	6	780	c.678C>T	c.(676-678)TGC>TGT	p.C226C	KLK7_uc002pup.2_Silent_p.C226C|KLK7_uc010yco.1_Silent_p.C100C|KLK7_uc010eok.2_Silent_p.C154C	NM_139277	NP_644806	P49862	KLK7_HUMAN	stratum corneum chymotryptic enzyme	226	Peptidase S1.			C -> W (in Ref. 6; AAH32005).	epidermis development|proteolysis	extracellular region	serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00382)|GBM - Glioblastoma multiforme(134;0.00895)		TGGGTTGGCCGCAAGGGAAAG	0.517													4	167	---	---	---	---	PASS	A	51480876	A	A	51480876	2	1	160	1	0	0	0	0	0	0	0	1	8409	1079	38	1		1	KLK7	19	51480876	Silent	SNP	G	TCGA-66-2781-01A-01D-1522-08	700862	51480876	7648107	152	56639										
COX4I2	84701	broad.mit.edu	37	chr20	30231265	30231265	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aaccgtcgctccaatgagtgGaagacagtgatgggttgtgt	14	7	0	3			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr20:30231265G>A	uc002wwj.1	+	4	381	c.306G>A	c.(304-306)TGG>TGA	p.W102*	COX4I2_uc002wwi.2_Nonsense_Mutation_p.W102*	NM_032609	NP_115998	Q96KJ9	COX42_HUMAN	cytochrome c oxidase subunit IV isoform 2	102					cellular respiration		cytochrome-c oxidase activity			ovary(1)	1	all_cancers(5;7.12e-06)|Lung NSC(7;3.95e-06)|all_epithelial(3;4.36e-06)|all_lung(7;6.68e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Epithelial(4;1.01e-05)|all cancers(5;9.46e-05)|OV - Ovarian serous cystadenocarcinoma(3;0.00121)|Colorectal(19;0.0055)|COAD - Colon adenocarcinoma(19;0.0264)			CCAATGAGTGGAAGACAGTGA	0.567													55	143	---	---	---	---	PASS	A	30231265	A	A	30231265	4	1	160	1	0	0	0	0	0	1	0	0	3770	1183	41	2	316	2	COX4I2	20	30231265	Nonsense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08		30231265	32794255	153	56640										
TMPRSS15	5651	broad.mit.edu	37	chr21	19715859	19715859	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tcatttagggttacttgtccAtaattccaattgtctccata	5	9	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr21:19715859A>G	uc002ykw.2	-	12	1423	c.1392T>C	c.(1390-1392)TAT>TAC	p.Y464Y		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	464	Extracellular (Potential).|MAM.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TTACTTGTCCATAATTCCAAT	0.279													40	50	---	---	---	---	PASS	G	19715859	G	G	19715859	2	3	160	1	0	0	0	0	0	0	0	1	16243	224	8	5		5	TMPRSS15	21	19715859	Silent	SNP	A	TCGA-66-2781-01A-01D-1522-08		19715859	28414036	154	56641										
ADORA2A	135	broad.mit.edu	37	chr22	24837011	24837011	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tctgccccgactgcagccacGcccctctctggctcatgtac	8	19	3	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr22:24837011G>A	uc002zzx.2	+	5	1556	c.793G>A	c.(793-795)GCC>ACC	p.A265T	ADORA2A_uc002zzy.3_Missense_Mutation_p.A265T|ADORA2A_uc011ajs.1_Missense_Mutation_p.A126T|ADORA2A_uc010gup.2_Missense_Mutation_p.A265T|ADORA2A_uc010guq.2_Missense_Mutation_p.A265T|ADORA2A_uc003aab.2_Missense_Mutation_p.A265T|ADORA2A_uc003aac.2_Missense_Mutation_p.A126T|C22orf45_uc003aad.1_Intron	NM_000675	NP_000666	P29274	AA2AR_HUMAN	adenosine A2a receptor	265	Agonist binding.|Extracellular.				apoptosis|blood coagulation|cAMP biosynthetic process|cellular defense response|inflammatory response|nerve growth factor receptor signaling pathway|phagocytosis|sensory perception	integral to plasma membrane|membrane fraction	enzyme binding				0	Colorectal(2;0.196)				Caffeine(DB00201)|Defibrotide(DB04932)|Pegademase bovine(DB00061)|Theophylline(DB00277)	CTGCAGCCACGCCCCTCTCTG	0.577													16	99	---	---	---	---	PASS	A	24837011	A	A	24837011	3	1	160	1	0	0	0	0	1	0	0	0	327	1087	38	1	799	1	ADORA2A	22	24837011	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08		24837011	26467555	155	56642										
TTC38	55020	broad.mit.edu	37	chr22	46674532	46674532	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tgatggaaaccaacttctacGaccaggcagaaaaactcgcc	8	12	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr22:46674532G>A	uc003bhi.2	+	6	665	c.589G>A	c.(589-591)GAC>AAC	p.D197N	TTC38_uc011aqx.1_Missense_Mutation_p.D139N	NM_017931	NP_060401	Q5R3I4	TTC38_HUMAN	tetratricopeptide repeat domain 38	197	TPR 2.						binding			ovary(1)	1						CAACTTCTACGACCAGGCAGA	0.473													6	200	---	---	---	---	PASS	A	46674532	A	A	46674532	3	1	160	1	0	0	0	0	1	0	0	0	16703	1058	37	2	611	2	TTC38	22	46674532	Missense_Mutation	SNP	G	TCGA-66-2781-01A-01D-1522-08	21837521	46674532	4630034	156	56643										
CPT1B	1375	broad.mit.edu	37	chr22	51011971	51011971	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tcctcctgcagtgagggctgCcagcttctcctccccaggct	10	17	1	1			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chr22:51011971C>T	uc003bmk.3	-	9	1306	c.1144G>A	c.(1144-1146)GCA>ACA	p.A382T	CPT1B_uc003bml.2_Missense_Mutation_p.A382T|CPT1B_uc003bmm.2_Missense_Mutation_p.A382T|CPT1B_uc003bmo.2_Missense_Mutation_p.A382T|CPT1B_uc011asa.1_Missense_Mutation_p.A348T|CPT1B_uc003bmn.2_Missense_Mutation_p.A382T|CPT1B_uc011asb.1_Intron|CHKB-CPT1B_uc003bmp.2_Missense_Mutation_p.A179T	NM_001145137	NP_001138609	Q92523	CPT1B_HUMAN	carnitine palmitoyltransferase 1B isoform a	382	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)	2		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		all cancers(3;3.56e-77)|OV - Ovarian serous cystadenocarcinoma(4;5.39e-74)|Epithelial(4;5.58e-70)|GBM - Glioblastoma multiforme(4;5.59e-08)|LUAD - Lung adenocarcinoma(64;0.0016)|Lung(4;0.00942)|BRCA - Breast invasive adenocarcinoma(115;0.207)		GTGAGGGCTGCCAGCTTCTCC	0.637													39	118	---	---	---	---	PASS	T	51011971	T	T	51011971	3	4	160	1	0	0	0	0	1	0	0	0	3832	739	26	3	1214	3	CPT1B	22	51011971	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	4337439	51011971	292595	157	56644										
PCYT1B	9468	broad.mit.edu	37	chrX	24597532	24597532	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	acaattctggtaatgatgtcCgatgttgagatgccttctgt	10	7	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chrX:24597532C>A	uc004dbi.2	-	6	842	c.609G>T	c.(607-609)TCG>TCT	p.S203S	PCYT1B_uc004dbk.3_Silent_p.S203S|PCYT1B_uc004dbj.2_Silent_p.S185S	NM_004845	NP_004836	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	203	Catalytic (Potential).					endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)	TAATGATGTCCGATGTTGAGA	0.433													46	81	---	---	---	---	PASS	A	24597532	A	A	24597532	2	1	160	1	0	0	0	0	0	0	0	1	11611	639	23	1		1	PCYT1B	23	24597532	Silent	SNP	C	TCGA-66-2781-01A-01D-1522-08		24597532	130673028	158	56645										
MAGEB2	4113	broad.mit.edu	37	chrX	30237095	30237095	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	taaaataaaaaagtccgttaCaaagggagaaatgctgaaaa	8	4	0	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chrX:30237095C>A	uc004dbz.2	+	2	501	c.398C>A	c.(397-399)ACA>AAA	p.T133K		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	133	MAGE.						protein binding			ovary(1)	1						AAGTCCGTTACAAAGGGAGAA	0.458													5	22	---	---	---	---	PASS	A	30237095	A	A	30237095	3	1	160	1	0	0	0	0	1	0	0	0	9176	478	17	3	400	3	MAGEB2	23	30237095	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	5639563	30237095	125033465	159	56646										
USP11	8237	broad.mit.edu	37	chrX	47104414	47104414	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ccacctctccctcacccccaGcccagccgtacattgctatc	4	22	2	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chrX:47104414G>C	uc004dhp.2	+	16	2216	c.2216_splice	c.e16-1	p.A739_splice	USP11_uc004dhq.2_Splice_Site_p.A465_splice	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11						protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CTCACCCCCAGCCCAGCCGTA	0.567													3	10	---	---	---	---	PASS	C	47104414	C	C	47104414	5	2	160	1	0	0	0	0	0	0	1	0	17039	985	34	4	2277	4	USP11	23	47104414	Splice_Site	SNP	G	TCGA-66-2781-01A-01D-1522-08	16867319	47104414	108166146	160	56647										
ATRX	546	broad.mit.edu	37	chrX	76855029	76855029	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	agctactatcttttttccccTttttcccttttttcttcttt	1	12	3	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chrX:76855029T>G	uc004ecp.3	-	25	6039	c.5807A>C	c.(5806-5808)AAG>ACG	p.K1936T	ATRX_uc004ecq.3_Missense_Mutation_p.K1898T|ATRX_uc004eco.3_Missense_Mutation_p.K1721T	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1936	Poly-Lys.				DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TTTTTTCCCCTTTTTCCCTTT	0.318			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						81	323	---	---	---	---	PASS	G	76855029	G	G	76855029	3	3	160	1	0	0	0	0	1	0	0	0	1208	1609	56	5	1715	5	ATRX	23	76855029	Missense_Mutation	SNP	T	TCGA-66-2781-01A-01D-1522-08	29750615	76855029	78415531	161	56648										
PCDH11X	27328	broad.mit.edu	37	chrX	91873392	91873392	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	tcattccagctcttcgcaagCacaggcctctgctctatgcc	7	16	4	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chrX:91873392C>T	uc004efk.1	+	7	4342	c.3497C>T	c.(3496-3498)GCA>GTA	p.A1166V	PCDH11X_uc004efl.1_Missense_Mutation_p.A1156V|PCDH11X_uc004efo.1_Missense_Mutation_p.A1129V|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Missense_Mutation_p.A1158V|PCDH11X_uc004efn.1_Missense_Mutation_p.A1148V	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1166	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TCTTCGCAAGCACAGGCCTCT	0.562													32	29	---	---	---	---	PASS	T	91873392	T	T	91873392	3	4	160	1	0	0	0	0	1	0	0	0	11508	710	25	3	3645	3	PCDH11X	23	91873392	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	15018363	91873392	63397168	162	56649										
PCDH11X	27328	broad.mit.edu	37	chrX	91873712	91873712	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ccctccatcgtagtcaggccCaatcatcagtcagtttgcag	8	14	4	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chrX:91873712C>A	uc004efk.1	+	7	4662	c.3817C>A	c.(3817-3819)CAA>AAA	p.Q1273K	PCDH11X_uc004efl.1_Missense_Mutation_p.Q1263K|PCDH11X_uc004efo.1_Missense_Mutation_p.Q1236K|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Missense_Mutation_p.Q1265K|PCDH11X_uc004efn.1_Missense_Mutation_p.Q1255K	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1273	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TAGTCAGGCCCAATCATCAGT	0.542													111	110	---	---	---	---	PASS	A	91873712	A	A	91873712	3	1	160	1	0	0	0	0	1	0	0	0	11508	595	21	3	3965	3	PCDH11X	23	91873712	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	320	91873712	63396848	163	56650										
NOX1	27035	broad.mit.edu	37	chrX	100118222	100118222	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	ccaattgctttctcagtgtgCggctgcaaaactacaaatgt	8	10	1	0			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chrX:100118222C>T	uc004egj.2	-	4	469	c.263G>A	c.(262-264)CGC>CAC	p.R88H	uc010nnf.2_Intron|NOX1_uc004egl.3_Missense_Mutation_p.R88H|NOX1_uc010nne.2_Missense_Mutation_p.R51H	NM_007052	NP_008983	Q9Y5S8	NOX1_HUMAN	NADPH oxidase 1 isoform long	88	Cytoplasmic (Potential).|Ferric oxidoreductase.				angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1						TCTCAGTGTGCGGCTGCAAAA	0.433													4	158	---	---	---	---	PASS	T	100118222	T	T	100118222	3	4	160	1	0	0	0	0	1	0	0	0	10556	768	27	1	1471	1	NOX1	23	100118222	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	8244510	100118222	55152338	164	56651										
LONRF3	79836	broad.mit.edu	37	chrX	118147105	118147105	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	agaggcgcttcagggtgctcCatcagagccagcgggatggc	16	11	2	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chrX:118147105C>T	uc004eqw.2	+	9	1946	c.1915C>T	c.(1915-1917)CAT>TAT	p.H639Y	LONRF3_uc004eqx.2_Missense_Mutation_p.H598Y|LONRF3_uc004eqy.2_RNA|LONRF3_uc004eqz.2_Missense_Mutation_p.H383Y	NM_001031855	NP_001027026	Q496Y0	LONF3_HUMAN	LON peptidase N-terminal domain and ring finger	639	Lon.				proteolysis		ATP-dependent peptidase activity|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)	2						CAGGGTGCTCCATCAGAGCCA	0.507													57	51	---	---	---	---	PASS	T	118147105	T	T	118147105	3	4	160	1	0	0	0	0	1	0	0	0	8896	594	21	3	1949	3	LONRF3	23	118147105	Missense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	18028883	118147105	37123455	165	56652										
GPR112	139378	broad.mit.edu	37	chrX	135430461	135430461	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	aaaaaagtttctgacactccCccaatagtgataactaaatc	4	10	1	2			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chrX:135430461C>A	uc004ezu.1	+	6	4887	c.4596C>A	c.(4594-4596)CCC>CCA	p.P1532P	GPR112_uc010nsb.1_Silent_p.P1327P|GPR112_uc010nsc.1_Silent_p.P1299P	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1532	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					CTGACACTCCCCCAATAGTGA	0.428													4	170	---	---	---	---	PASS	A	135430461	A	A	135430461	2	1	160	1	0	0	0	0	0	0	0	1	6629	610	22	3		3	GPR112	23	135430461	Silent	SNP	C	TCGA-66-2781-01A-01D-1522-08	17283356	135430461	19840099	166	56653										
CNGA2	1260	broad.mit.edu	37	chrX	150912664	150912664	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109090909090909	18	0.0406740971801801	1.63257199602781	2.09789444900191	1.43063961077489	0.357976754661922	0.75430816160905	7	atggaagctgtgactgagtaCcctgatgccaagaaagtcct	11	9	0	4			TCGA-66-2781-01A-01D-1522-08	TCGA-66-2781-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	bfb33630-c8a8-4ec4-9eee-8bef349339ea	1dfcaaf3-04e0-4e11-ab0e-d76df375cf5e	g.chrX:150912664C>A	uc004fey.1	+	7	1913	c.1689C>A	c.(1687-1689)TAC>TAA	p.Y563*		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	563	cAMP (By similarity).|Cytoplasmic (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TGACTGAGTACCCTGATGCCA	0.522													4	133	---	---	---	---	PASS	A	150912664	A	A	150912664	4	1	160	1	0	0	0	0	0	1	0	0	3597	518	18	3	1711	3	CNGA2	23	150912664	Nonsense_Mutation	SNP	C	TCGA-66-2781-01A-01D-1522-08	15482203	150912664	4357896	167	56654										
GPR153	387509	broad.mit.edu	37	chr1	6314831	6314831	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtggccgcgagtgtacacagCaggaactccaagggcttcca	13	12	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:6314831C>G	uc001amp.1	-	2	395	c.135G>C	c.(133-135)CTG>CTC	p.L45L		NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	45	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		GTGTACACAGCAGGAACTCCA	0.647													13	80	---	---	---	---	PASS	G	6314831	G	G	6314831	2	3	161	1	0	0	0	0	0	0	0	1	6659	697	25	4		4	GPR153	1	6314831	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08		6314831	242935790	1	56655										
PHF13	148479	broad.mit.edu	37	chr1	6680213	6680213	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caggatatcccccaggctccCagcgacccctgctcgggctg	11	18	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:6680213C>T	uc001aob.3	+	3	863	c.492C>T	c.(490-492)CCC>CCT	p.P164P		NM_153812	NP_722519	Q86YI8	PHF13_HUMAN	PHD finger protein 13	164					cell division|chromatin modification|mitotic chromosome condensation	nucleoplasm	chromatin binding|methylated histone residue binding|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;1.46e-33)|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;1.19e-07)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000501)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|STAD - Stomach adenocarcinoma(132;0.0165)|READ - Rectum adenocarcinoma(331;0.0642)		CCCAGGCTCCCAGCGACCCCT	0.592													8	61	---	---	---	---	PASS	T	6680213	T	T	6680213	2	4	161	1	0	0	0	0	0	0	0	1	11824	581	21	3		3	PHF13	1	6680213	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	365382	6680213	242570408	2	56656										
SLC2A7	155184	broad.mit.edu	37	chr1	9086385	9086385	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atggaatgggtggaggggttCccgcctctttgttctccatc	13	10	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:9086385C>T	uc009vmo.1	-	1	20	c.20G>A	c.(19-21)GGA>GAA	p.G7E		NM_207420	NP_997303	Q6PXP3	GTR7_HUMAN	intestinal facilitative glucose transporter 7	7	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity				0	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.04e-07)|COAD - Colon adenocarcinoma(227;7.66e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		TGGAGGGGTTCCCGCCTCTTT	0.587													7	17	---	---	---	---	PASS	T	9086385	T	T	9086385	3	4	161	1	0	0	0	0	1	0	0	0	14550	855	30	2	1566	2	SLC2A7	1	9086385	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2406172	9086385	240164236	3	56657										
ZMYM6	9204	broad.mit.edu	37	chr1	35484984	35484984	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttgtgcaggttttcttgggaGgaggtggcaggcaggcaggt	19	5	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:35484984G>A	uc001byh.2	-	4	626	c.398C>T	c.(397-399)CCT>CTT	p.P133L	ZMYM6_uc001byf.1_Missense_Mutation_p.P133L|ZMYM6_uc010oht.1_Missense_Mutation_p.P36L|ZMYM6_uc009vup.2_Intron|ZMYM6_uc009vuq.1_Missense_Mutation_p.P133L|ZMYM6_uc009vur.1_Intron|ZMYM6_uc001byj.2_Missense_Mutation_p.P133L|ZMYM6_uc001byi.2_Missense_Mutation_p.P133L|ZMYM6_uc001byk.2_Missense_Mutation_p.P133L	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258	133	MYM-type 1.				multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				TTTCTTGGGAGGAGGTGGCAG	0.403													42	134	---	---	---	---	PASS	A	35484984	A	A	35484984	3	1	161	1	0	0	0	0	1	0	0	0	17701	1000	35	3	3631	3	ZMYM6	1	35484984	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	26398599	35484984	213765637	4	56658										
MACF1	23499	broad.mit.edu	37	chr1	39818705	39818705	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gcagcaaaggaactggcagaGaacaagaagaagatcgatgc	13	7	0	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:39818705G>C	uc010oiu.1	+	8	6677	c.6546G>C	c.(6544-6546)GAG>GAC	p.E2182D	MACF1_uc010ois.1_Missense_Mutation_p.E1680D|MACF1_uc001cda.1_Missense_Mutation_p.E1588D|MACF1_uc001cdc.1_Missense_Mutation_p.E767D|MACF1_uc001cdb.1_Missense_Mutation_p.E767D	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3747					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)			AACTGGCAGAGAACAAGAAGA	0.483													9	74	---	---	---	---	PASS	C	39818705	C	C	39818705	3	2	161	1	0	0	0	0	1	0	0	0	9144	933	33	2	11345	2	MACF1	1	39818705	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	4333721	39818705	209431916	5	56659										
CDCP2	200008	broad.mit.edu	37	chr1	54610287	54610287	+	Silent	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttgcccttgtctggtgaggcCccattgtagatctccagaaa							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:54610287C>A	uc001cwv.1	-	2	1127	c.279G>T	c.(277-279)GGG>GGT	p.G93G		NM_201546	NP_963840	Q5VXM1	CDCP2_HUMAN	CUB domain containing protein 2 precursor	93	CUB 1.					extracellular region				ovary(1)	1						CTGGTGAGGCCCCATTGTAGA	0.597													11	38	---	---	---	---	PASS	A	54610287	A	A	54610287	2	1	161	1	0	0	0	0	0	0	0	1	3094	610	22	3		3	CDCP2	1	54610287	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	14791582	54610287	194640334	6	56660	1007	2								
CDCP2	200008	broad.mit.edu	37	chr1	54610288	54610288	+	Missense_Mutation	SNP	C	T	T													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgcccttgtctggtgaggccCcattgtagatctccagaaag							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:54610288C>T	uc001cwv.1	-	2	1126	c.278G>A	c.(277-279)GGG>GAG	p.G93E		NM_201546	NP_963840	Q5VXM1	CDCP2_HUMAN	CUB domain containing protein 2 precursor	93	CUB 1.					extracellular region				ovary(1)	1						TGGTGAGGCCCCATTGTAGAT	0.597													11	39	---	---	---	---	PASS	T	54610288	T	T	54610288	3	4	161	1	0	0	0	0	1	0	0	0	3094	623	22	3	1083	3	CDCP2	1	54610288	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	54610288	194640333	7	56661	1007	2								
NFIA	4774	broad.mit.edu	37	chr1	61553950	61553950	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agcgtatgtcaaaagaagaaGagagagccgtgaaggatgaa	14	4	1	6			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:61553950G>C	uc001czw.2	+	2	641	c.157G>C	c.(157-159)GAG>CAG	p.E53Q	NFIA_uc001czy.2_Missense_Mutation_p.E45Q|NFIA_uc010oos.1_Missense_Mutation_p.E98Q|NFIA_uc001czv.2_Missense_Mutation_p.E53Q	NM_001134673	NP_001128145	Q12857	NFIA_HUMAN	nuclear factor I/A isoform 1	53	CTF/NF-I.				DNA replication|viral genome replication	cell junction|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)|skin(1)	2						AAAAGAAGAAGAGAGAGCCGT	0.473													62	150	---	---	---	---	PASS	C	61553950	C	C	61553950	3	2	161	1	0	0	0	0	1	0	0	0	10370	943	33	2	309	2	NFIA	1	61553950	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	6943662	61553950	187696671	8	56662										
GADD45A	1647	broad.mit.edu	37	chr1	68152230	68152230	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tggccccgcggcgagcgaggGcgccgagcagcccccggacc	17	18	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:68152230G>T	uc001ddz.1	+	3	639	c.344G>T	c.(343-345)GGC>GTC	p.G115V	GADD45A_uc009wbb.1_Missense_Mutation_p.G81V|GADD45A_uc009wbc.1_Intron|GADD45A_uc009wbd.1_Intron	NM_001924	NP_001915	P24522	GA45A_HUMAN	growth arrest and DNA-damage-inducible, alpha	115					apoptosis|cell cycle arrest|cellular response to ionizing radiation|cellular response to mechanical stimulus|DNA repair|positive regulation of reactive oxygen species metabolic process|regulation of cyclin-dependent protein kinase activity|signal transduction in response to DNA damage	nucleus	protein binding			ovary(1)	1						GCGAGCGAGGGCGCCGAGCAG	0.706													6	35	---	---	---	---	PASS	T	68152230	T	T	68152230	3	4	161	1	0	0	0	0	1	0	0	0	6181	1203	42	3	354	3	GADD45A	1	68152230	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	6598280	68152230	181098391	9	56663										
C1orf173	127254	broad.mit.edu	37	chr1	75038770	75038770	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcaaggcttgcttttcaggaGcctcatctttactcagaccc	7	13	5	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:75038770G>T	uc001dgg.2	-	14	2843	c.2624C>A	c.(2623-2625)GCT>GAT	p.A875D		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	875	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTTTTCAGGAGCCTCATCTTT	0.522													123	312	---	---	---	---	PASS	T	75038770	T	T	75038770	3	4	161	1	0	0	0	0	1	0	0	0	2014	971	34	3	1972	3	C1orf173	1	75038770	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	6886540	75038770	174211851	10	56664										
USP33	23032	broad.mit.edu	37	chr1	78194184	78194184	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cattgttgtttcattattatCttcagaaaagcatctagagc	6	7	4	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:78194184C>G	uc001dht.2	-	11	1371	c.1024G>C	c.(1024-1026)GAT>CAT	p.D342H	USP33_uc001dhs.2_Missense_Mutation_p.D63H|USP33_uc001dhu.2_Missense_Mutation_p.D311H|USP33_uc001dhv.2_Missense_Mutation_p.D147H|USP33_uc001dhw.2_Missense_Mutation_p.D342H	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	342					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						TCATTATTATCTTCAGAAAAG	0.333													29	170	---	---	---	---	PASS	G	78194184	G	G	78194184	3	3	161	1	0	0	0	0	1	0	0	0	17061	913	32	2	1876	2	USP33	1	78194184	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	3155414	78194184	171056437	11	56665										
IFI44L	10964	broad.mit.edu	37	chr1	79094042	79094042	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aactaaggttttatggccacCgtcagtatttggaatgtgaa	10	6	1	1	rs273258	byFrequency	TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:79094042C>G	uc010oro.1	+	2	621	c.442C>G	c.(442-444)CGT>GGT	p.R148G	IFI44L_uc010orp.1_Intron|IFI44L_uc010orq.1_Intron	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	148						cytoplasm					0						TTATGGCCACCGTCAGTATTT	0.303													33	82	---	---	---	---	PASS	G	79094042	G	G	79094042	3	3	161	1	0	0	0	0	1	0	0	0	7518	652	23	4	444	4	IFI44L	1	79094042	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	899858	79094042	170156579	12	56666										
ELTD1	64123	broad.mit.edu	37	chr1	79387408	79387408	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	acagccctctgaagaccagcTgccattcatggtatcaggtg	10	12	3	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:79387408T>A	uc001diq.3	-	9	1303	c.1147A>T	c.(1147-1149)AGC>TGC	p.S383C		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	383	GPS.|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)		GAAGACCAGCTGCCATTCATG	0.418													20	104	---	---	---	---	PASS	A	79387408	A	A	79387408	3	1	161	1	0	0	0	0	1	0	0	0	5084	1580	55	5	953	5	ELTD1	1	79387408	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	293366	79387408	169863213	13	56667										
DRAM2	128338	broad.mit.edu	37	chr1	111663190	111663190	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aacaacagtctgatccagaaGacttgtttgccatggatttt	8	8	1	3	rs12408306		TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:111663190G>C	uc001ead.3	-	6	722	c.465C>G	c.(463-465)GTC>GTG	p.V155V	DRAM2_uc001eae.3_Silent_p.V155V|DRAM2_uc009wfy.2_RNA|DRAM2_uc001eaf.3_Silent_p.V25V	NM_178454	NP_848549	Q6UX65	DRAM2_HUMAN	transmembrane protein 77	155					apoptosis|induction of apoptosis	Golgi apparatus|integral to membrane|lysosomal membrane					0						TGATCCAGAAGACTTGTTTGC	0.423													11	89	---	---	---	---	PASS	C	111663190	C	C	111663190	2	2	161	1	0	0	0	0	0	0	0	1	4754	929	33	2		2	DRAM2	1	111663190	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	32275782	111663190	137587431	14	56668										
KCND3	3752	broad.mit.edu	37	chr1	112524810	112524810	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agtagaagaccagggccagcGtgctggtgtgggggttctcg	18	8	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:112524810G>A	uc001ebu.1	-	2	1019	c.539C>T	c.(538-540)ACG>ATG	p.T180M	KCND3_uc001ebv.1_Missense_Mutation_p.T180M	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	180	Cytoplasmic (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		CAGGGCCAGCGTGCTGGTGTG	0.632													7	41	---	---	---	---	PASS	A	112524810	A	A	112524810	3	1	161	1	0	0	0	0	1	0	0	0	8020	1145	40	1	1456	1	KCND3	1	112524810	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	861620	112524810	136725811	15	56669										
PDE4DIP	9659	broad.mit.edu	37	chr1	144855817	144855817	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggtgaggagggaagctgactCctctagggcatggtgcaggg	19	7	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:144855817C>A	uc001elw.3	-	41	7027	c.6736G>T	c.(6736-6738)GAG>TAG	p.E2246*	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Nonsense_Mutation_p.E2140*|PDE4DIP_uc001elv.3_Nonsense_Mutation_p.E1253*	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	2246					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GAAGCTGACTCCTCTAGGGCA	0.577			T	PDGFRB	MPD								13	142	---	---	---	---	PASS	A	144855817	A	A	144855817	4	1	161	1	0	0	0	0	0	1	0	0	11643	864	30	2	320	2	PDE4DIP	1	144855817	Nonsense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	32331007	144855817	104394804	16	56670										
PDE4DIP	9659	broad.mit.edu	37	chr1	144886319	144886319	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccagacttttctccaaagccAccttgacaagctaaaagaaa	5	12	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:144886319A>G	uc001elw.3	-	23	3206	c.2915T>C	c.(2914-2916)GTG>GCG	p.V972A	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.V1038A|PDE4DIP_uc001elv.3_5'UTR	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	972					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CTCCAAAGCCACCTTGACAAG	0.443			T	PDGFRB	MPD								44	447	---	---	---	---	PASS	G	144886319	G	G	144886319	3	3	161	1	0	0	0	0	1	0	0	0	11643	159	6	5	4213	5	PDE4DIP	1	144886319	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	30502	144886319	104364302	17	56671										
NOTCH2NL	388677	broad.mit.edu	37	chr1	145273436	145273436	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgagtgcacctgtcaagtcgGgtttacaggtaactaatgag	12	7	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:145273436G>A	uc001emn.3	+	3	660	c.290G>A	c.(289-291)GGG>GAG	p.G97E	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_5'UTR|NOTCH2NL_uc001emm.3_Missense_Mutation_p.G97E|NOTCH2NL_uc001emo.2_Missense_Mutation_p.G97E|NOTCH2NL_uc010oyh.1_RNA	NM_203458	NP_982283	Q7Z3S9	NT2NL_HUMAN	Notch homolog 2 N-terminal like protein	97	EGF-like 3.				cell differentiation|multicellular organismal development|Notch signaling pathway	cytoplasm|extracellular region	calcium ion binding			ovary(1)	1						TGTCAAGTCGGGTTTACAGGT	0.463													32	573	---	---	---	---	PASS	A	145273436	A	A	145273436	3	1	161	1	0	0	0	0	1	0	0	0	10549	1232	43	3	296	3	NOTCH2NL	1	145273436	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	387117	145273436	103977185	18	56672										
SF3B4	10262	broad.mit.edu	37	chr1	149898740	149898740	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cgtattggcttcccatagagTttgatcatgttcatgatctt	8	8	3	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:149898740T>C	uc001etj.1	-	3	285	c.234A>G	c.(232-234)AAA>AAG	p.K78K	SF3B4_uc001eti.1_5'Flank|SF3B4_uc001etk.1_Silent_p.K78K|SF3B4_uc009wll.1_Silent_p.K78K	NM_005850	NP_005841	Q15427	SF3B4_HUMAN	splicing factor 3b, subunit 4	78	RRM 1.					nucleoplasm|U12-type spliceosomal complex	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Breast(34;0.0009)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			TCCCATAGAGTTTGATCATGT	0.443													34	111	---	---	---	---	PASS	C	149898740	C	C	149898740	2	2	161	1	0	0	0	0	0	0	0	1	14153	1722	60	5		5	SF3B4	1	149898740	Silent	SNP	T	TCGA-66-2782-01A-01D-1522-08	4625304	149898740	99351881	19	56673										
TARS2	80222	broad.mit.edu	37	chr1	150478140	150478140	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tggactgaccctcagccggaGaatccgccgggcccagcttg	13	15	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:150478140G>C	uc001euq.2	+	17	1974	c.1967G>C	c.(1966-1968)AGA>ACA	p.R656T	TARS2_uc001eur.2_Missense_Mutation_p.R574T|TARS2_uc009wlt.2_Missense_Mutation_p.R282T|TARS2_uc009wls.2_Missense_Mutation_p.R526T|ECM1_uc010pce.1_5'Flank|ECM1_uc010pcf.1_5'Flank|ECM1_uc001eus.2_5'Flank|ECM1_uc001eut.2_5'Flank|ECM1_uc001euu.2_5'Flank|ECM1_uc001euv.2_5'Flank|ECM1_uc009wlu.2_5'Flank	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	656					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	CTCAGCCGGAGAATCCGCCGG	0.567													33	164	---	---	---	---	PASS	C	150478140	C	C	150478140	3	2	161	1	0	0	0	0	1	0	0	0	15557	942	33	2	2033	2	TARS2	1	150478140	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	579400	150478140	98772481	20	56674										
PI4KB	5298	broad.mit.edu	37	chr1	151288358	151288358	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttaatgctctggcggcaacgGtggactatgtagggcttaat	13	7	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:151288358G>T	uc001ext.2	-	2	1015	c.600C>A	c.(598-600)CAC>CAA	p.H200Q	PI4KB_uc001exr.2_Missense_Mutation_p.H212Q|PI4KB_uc001exs.2_Missense_Mutation_p.H200Q|PI4KB_uc001exu.2_Missense_Mutation_p.H200Q|PI4KB_uc010pcw.1_Intron|PI4KB_uc009wmq.1_Missense_Mutation_p.H212Q	NM_002651	NP_002642	Q9UBF8	PI4KB_HUMAN	catalytic phosphatidylinositol 4-kinase beta	200					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|receptor-mediated endocytosis	endosome|Golgi apparatus|mitochondrial outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum membrane	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			ovary(2)|skin(2)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GGCGGCAACGGTGGACTATGT	0.517													32	103	---	---	---	---	PASS	T	151288358	T	T	151288358	3	4	161	1	0	0	0	0	1	0	0	0	11874	1252	44	3	1894	3	PI4KB	1	151288358	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	810218	151288358	97962263	21	56675										
ZBTB7B	51043	broad.mit.edu	37	chr1	154987962	154987962	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gctacgaaccctatgagggtGaggaagaagaagaggagctg	16	6	0	5			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:154987962G>C	uc001fgk.3	+	3	984	c.826G>C	c.(826-828)GAG>CAG	p.E276Q	ZBTB7B_uc009wpa.2_Missense_Mutation_p.E276Q|ZBTB7B_uc001fgj.3_Missense_Mutation_p.E310Q|ZBTB7B_uc010peq.1_Missense_Mutation_p.E310Q|ZBTB7B_uc001fgl.3_Missense_Mutation_p.E276Q	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	276					cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CTATGAGGGTGAGGAAGAAGA	0.667													6	90	---	---	---	---	PASS	C	154987962	C	C	154987962	3	2	161	1	0	0	0	0	1	0	0	0	17551	1291	45	2	828	2	ZBTB7B	1	154987962	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3699604	154987962	94262659	22	56676										
DAP3	7818	broad.mit.edu	37	chr1	155701182	155701182	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttagcacttgttcacaacttGaggaaaatgatgaaaaatga	8	5	1	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:155701182G>A	uc001flq.2	+	10	1048	c.879G>A	c.(877-879)TTG>TTA	p.L293L	DAP3_uc001flr.2_Silent_p.L293L|DAP3_uc001fls.2_Silent_p.L293L|DAP3_uc010pgl.1_Silent_p.L252L|DAP3_uc001flt.2_Silent_p.L259L|DAP3_uc001flu.2_Silent_p.L266L|DAP3_uc010pgm.1_Silent_p.L259L	NM_033657	NP_387506	P51398	RT29_HUMAN	death-associated protein 3	293					induction of apoptosis by extracellular signals	mitochondrial ribosome|nucleolus|small ribosomal subunit	protein binding			ovary(1)	1	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					TTCACAACTTGAGGAAAATGA	0.378													19	225	---	---	---	---	PASS	A	155701182	A	A	155701182	2	1	161	1	0	0	0	0	0	0	0	1	4234	1281	45	2		2	DAP3	1	155701182	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	713220	155701182	93549439	23	56677			1	59		3	3	610	G		2.938421e-05
DAP3	7818	broad.mit.edu	37	chr1	155701194	155701194	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cacaacttgaggaaaatgatGaaaaatgattgggtaagtgc	11	4	0	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:155701194G>C	uc001flq.2	+	10	1060	c.891G>C	c.(889-891)ATG>ATC	p.M297I	DAP3_uc001flr.2_Missense_Mutation_p.M297I|DAP3_uc001fls.2_Missense_Mutation_p.M297I|DAP3_uc010pgl.1_Missense_Mutation_p.M256I|DAP3_uc001flt.2_Missense_Mutation_p.M263I|DAP3_uc001flu.2_Missense_Mutation_p.M270I|DAP3_uc010pgm.1_Missense_Mutation_p.M263I	NM_033657	NP_387506	P51398	RT29_HUMAN	death-associated protein 3	297					induction of apoptosis by extracellular signals	mitochondrial ribosome|nucleolus|small ribosomal subunit	protein binding			ovary(1)	1	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					GGAAAATGATGAAAAATGATT	0.358													12	200	---	---	---	---	PASS	C	155701194	C	C	155701194	3	2	161	1	0	0	0	0	1	0	0	0	4234	1290	45	2	925	2	DAP3	1	155701194	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	12	155701194	93549427	24	56678			1	59		3	3	610	G		2.938421e-05
DAP3	7818	broad.mit.edu	37	chr1	155701791	155701791	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gggtctctctttaagccccgGaaagcctatctgccccagga	10	14	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:155701791G>A	uc001flq.2	+	11	1129	c.960G>A	c.(958-960)CGG>CGA	p.R320R	DAP3_uc001flr.2_Silent_p.R320R|DAP3_uc001fls.2_Silent_p.R320R|DAP3_uc010pgl.1_Silent_p.R279R|DAP3_uc001flt.2_Silent_p.R286R|DAP3_uc001flu.2_Silent_p.R293R|DAP3_uc010pgm.1_Silent_p.R286R	NM_033657	NP_387506	P51398	RT29_HUMAN	death-associated protein 3	320					induction of apoptosis by extracellular signals	mitochondrial ribosome|nucleolus|small ribosomal subunit	protein binding			ovary(1)	1	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					TTAAGCCCCGGAAAGCCTATC	0.408													5	38	---	---	---	---	PASS	A	155701791	A	A	155701791	2	1	161	1	0	0	0	0	0	0	0	1	4234	1161	41	2		2	DAP3	1	155701791	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	597	155701791	93548830	25	56679			1	59		3	3	610	G		2.938421e-05
APOA1BP	128240	broad.mit.edu	37	chr1	156563782	156563782	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	taccggtcgctaccattaccTggggggtcgttttgtgccac	12	12	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:156563782T>C	uc001fph.2	+	6	812	c.773T>C	c.(772-774)CTG>CCG	p.L258P	APOA1BP_uc001fpg.2_3'UTR|APOA1BP_uc001fpi.2_Silent_p.P239P|APOA1BP_uc001fpj.2_Missense_Mutation_p.L175P|APOA1BP_uc001fpk.2_Missense_Mutation_p.L155P|APOA1BP_uc010php.1_Missense_Mutation_p.L155P	NM_144772	NP_658985	Q8NCW5	AIBP_HUMAN	apolipoprotein A-I binding protein precursor	258	YjeF N-terminal.					extracellular region	protein binding			central_nervous_system(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TACCATTACCTGGGGGGTCGT	0.552													66	236	---	---	---	---	PASS	C	156563782	C	C	156563782	3	2	161	1	0	0	0	0	1	0	0	0	781	1580	55	5	795	5	APOA1BP	1	156563782	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	861991	156563782	92686839	26	56680										
OR6N1	128372	broad.mit.edu	37	chr1	158736259	158736259	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gatggtggcagctgtatagcCaagctctgagaaggagagaa	15	6	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:158736259C>T	uc010piq.1	-	1	214	c.214G>A	c.(214-216)GGC>AGC	p.G72S		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	72	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GCTGTATAGCCAAGCTCTGAG	0.488													36	83	---	---	---	---	PASS	T	158736259	T	T	158736259	3	4	161	1	0	0	0	0	1	0	0	0	11206	594	21	3	727	3	OR6N1	1	158736259	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2172477	158736259	90514362	27	56681										
FMO1	2326	broad.mit.edu	37	chr1	171251429	171251429	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cccttgggctccatgataccTacaggagaaacacaagctcg	9	13	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:171251429T>A	uc009wvz.2	+	7	1276	c.1140T>A	c.(1138-1140)CCT>CCA	p.P380P	FMO1_uc010pme.1_Silent_p.P317P|FMO1_uc001ghl.2_Silent_p.P380P|FMO1_uc001ghm.2_Silent_p.P380P|FMO1_uc001ghn.2_Silent_p.P380P	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	380					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CCATGATACCTACAGGAGAAA	0.483													41	116	---	---	---	---	PASS	A	171251429	A	A	171251429	2	1	161	1	0	0	0	0	0	0	0	1	5954	1509	53	5		5	FMO1	1	171251429	Silent	SNP	T	TCGA-66-2782-01A-01D-1522-08	12515170	171251429	77999192	28	56682										
CEP350	9857	broad.mit.edu	37	chr1	180003168	180003168	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aatgcacctctcactgatctGaacccggcagccagcagaac	8	15	2	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:180003168G>A	uc001gnt.2	+	16	4280	c.3897G>A	c.(3895-3897)CTG>CTA	p.L1299L	CEP350_uc009wxl.2_Silent_p.L1298L|CEP350_uc001gnu.2_Silent_p.L1132L	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1299						centrosome|nucleus|spindle				ovary(4)	4						TCACTGATCTGAACCCGGCAG	0.403													18	62	---	---	---	---	PASS	A	180003168	A	A	180003168	2	1	161	1	0	0	0	0	0	0	0	1	3254	1277	45	2		2	CEP350	1	180003168	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	8751739	180003168	69247453	29	56683										
GLUL	2752	broad.mit.edu	37	chr1	182356423	182356423	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccatcgaaattccactcaggCaactctggggcaaaaagagg	10	11	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:182356423C>A	uc001gpa.1	-	3	383	c.171G>T	c.(169-171)TTG>TTT	p.L57F	GLUL_uc010pnt.1_5'Flank|GLUL_uc001gpb.1_Missense_Mutation_p.L57F|GLUL_uc001gpc.1_Missense_Mutation_p.L57F|GLUL_uc001gpd.1_Missense_Mutation_p.L57F	NM_001033056	NP_001028228	P15104	GLNA_HUMAN	glutamine synthetase	57					cell proliferation|glutamine biosynthetic process|neurotransmitter uptake	cytosol|Golgi apparatus|mitochondrion	ATP binding|glutamate decarboxylase activity|glutamate-ammonia ligase activity|identical protein binding				0					Asparaginase(DB00023)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)|L-Methionine(DB00134)	TCCACTCAGGCAACTCTGGGG	0.468													32	103	---	---	---	---	PASS	A	182356423	A	A	182356423	3	1	161	1	0	0	0	0	1	0	0	0	6478	709	25	3	970	3	GLUL	1	182356423	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2353255	182356423	66894198	30	56684										
CFH	3075	broad.mit.edu	37	chr1	196646728	196646728	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tatgtaactcaggctacaagAttgaaggagatgaagaaatg	11	4	1	5			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:196646728A>G	uc001gtj.3	+	5	790	c.550A>G	c.(550-552)ATT>GTT	p.I184V	CFH_uc001gti.3_Missense_Mutation_p.I184V|CFH_uc009wyw.2_Missense_Mutation_p.I184V|CFH_uc009wyx.2_Intron	NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	184	Sushi 3.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						AGGCTACAAGATTGAAGGAGA	0.383													68	218	---	---	---	---	PASS	G	196646728	G	G	196646728	3	3	161	1	0	0	0	0	1	0	0	0	3283	333	12	5	568	5	CFH	1	196646728	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	14290305	196646728	52603893	31	56685										
CFHR4	10877	broad.mit.edu	37	chr1	196883661	196883661	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgtttttgagaattccagagCcaagagtaatggcatgcggt	12	6	0	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:196883661C>A	uc001gto.2	+	4	545	c.476C>A	c.(475-477)GCC>GAC	p.A159D	CFHR4_uc009wyy.2_Missense_Mutation_p.A405D|CFHR4_uc001gtp.2_Missense_Mutation_p.A406D	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	159	Sushi 3.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						AATTCCAGAGCCAAGAGTAAT	0.383													33	129	---	---	---	---	PASS	A	196883661	A	A	196883661	3	1	161	1	0	0	0	0	1	0	0	0	3287	739	26	3	490	3	CFHR4	1	196883661	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	236933	196883661	52366960	32	56686										
NAV1	89796	broad.mit.edu	37	chr1	201682034	201682034	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgtccagcctgcgagggtccCaggtgactcacaggtaagct	13	12	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:201682034C>A	uc001gwu.2	+	2	1194	c.847C>A	c.(847-849)CAG>AAG	p.Q283K		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	283					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						GCGAGGGTCCCAGGTGACTCA	0.622													41	151	---	---	---	---	PASS	A	201682034	A	A	201682034	3	1	161	1	0	0	0	0	1	0	0	0	10183	595	21	3	853	3	NAV1	1	201682034	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	4798373	201682034	47568587	33	56687										
TIMM17A	10440	broad.mit.edu	37	chr1	201924671	201924671	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caagatggaggagtacgcgcGagagccttggtgagcttcac	15	9	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:201924671G>C	uc001gxc.2	+	1	53	c.17G>C	c.(16-18)CGA>CCA	p.R6P		NM_006335	NP_006326	Q99595	TI17A_HUMAN	translocase of inner mitochondrial membrane 17	6					protein targeting to mitochondrion	integral to membrane|mitochondrial inner membrane presequence translocase complex	P-P-bond-hydrolysis-driven protein transmembrane transporter activity				0						GAGTACGCGCGAGAGCCTTGG	0.632													13	101	---	---	---	---	PASS	C	201924671	C	C	201924671	3	2	161	1	0	0	0	0	1	0	0	0	15905	1058	37	2	19	2	TIMM17A	1	201924671	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	242637	201924671	47325950	34	56688										
DSTYK	25778	broad.mit.edu	37	chr1	205117450	205117450	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tccaaaagcgtagacatccaCggaattatcgtacttccctg	7	12	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:205117450C>G	uc001hbw.2	-	12	2549	c.2485G>C	c.(2485-2487)GTG>CTG	p.V829L	DSTYK_uc001hbx.2_Intron	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	829	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						TAGACATCCACGGAATTATCG	0.483													21	70	---	---	---	---	PASS	G	205117450	G	G	205117450	3	3	161	1	0	0	0	0	1	0	0	0	4785	536	19	4	312	4	DSTYK	1	205117450	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	3192779	205117450	44133171	35	56689										
PM20D1	148811	broad.mit.edu	37	chr1	205817012	205817012	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgcccctgatttgcagctgaCctttatgaatgtattttccg	8	10	0	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:205817012C>T	uc001hdj.2	-	2	301	c.256_splice	c.e2+1	p.V86_splice	PM20D1_uc009xbr.2_Splice_Site	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor							extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			TTGCAGCTGACCTTTATGAAT	0.433													29	119	---	---	---	---	PASS	T	205817012	T	T	205817012	5	4	161	1	0	0	0	0	0	0	1	0	12128	521	18	3	1299	3	PM20D1	1	205817012	Splice_Site	SNP	C	TCGA-66-2782-01A-01D-1522-08	699562	205817012	43433609	36	56690										
PM20D1	148811	broad.mit.edu	37	chr1	205819137	205819137	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cgggcccatcgatctggagaCggtagggaaaactaggagca	15	9	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:205819137C>T	uc001hdj.2	-	1	109	c.64G>A	c.(64-66)GTC>ATC	p.V22I	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	22						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			GATCTGGAGACGGTAGGGAAA	0.607													14	65	---	---	---	---	PASS	T	205819137	T	T	205819137	3	4	161	1	0	0	0	0	1	0	0	0	12128	536	19	1	1496	1	PM20D1	1	205819137	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2125	205819137	43431484	37	56691										
USH2A	7399	broad.mit.edu	37	chr1	215848158	215848158	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atttgagtggcactgacggcCcaaagatctggagggctgac							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:215848158C>A	uc001hku.1	-	63	13482	c.13095G>T	c.(13093-13095)TGG>TGT	p.W4365C		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4365	Extracellular (Potential).|Fibronectin type-III 29.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CACTGACGGCCCAAAGATCTG	0.483										HNSCC(13;0.011)			26	109	---	---	---	---	PASS	A	215848158	A	A	215848158	3	1	161	1	0	0	0	0	1	0	0	0	17033	624	22	3	2553	3	USH2A	1	215848158	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	10029021	215848158	33402463	38	56692	1008	2								
USH2A	7399	broad.mit.edu	37	chr1	215848159	215848159	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tttgagtggcactgacggccCaaagatctggagggctgact							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:215848159C>A	uc001hku.1	-	63	13481	c.13094G>T	c.(13093-13095)TGG>TTG	p.W4365L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4365	Extracellular (Potential).|Fibronectin type-III 29.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACTGACGGCCCAAAGATCTGG	0.483										HNSCC(13;0.011)			26	110	---	---	---	---	PASS	A	215848159	A	A	215848159	3	1	161	1	0	0	0	0	1	0	0	0	17033	595	21	3	2554	3	USH2A	1	215848159	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	215848159	33402462	39	56693	1008	2								
ESRRG	2104	broad.mit.edu	37	chr1	216850834	216850834	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttgacattctgcagagaagcCtgagattgaggagatacaaa	11	6	1	5			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:216850834C>T	uc001hkw.1	-	2	223	c.57_splice	c.e2-1	p.E19_splice	ESRRG_uc001hky.1_Splice_Site|ESRRG_uc009xdp.1_Splice_Site|ESRRG_uc001hkz.1_Splice_Site|ESRRG_uc010puc.1_Splice_Site|ESRRG_uc001hla.1_Splice_Site|ESRRG_uc001hlb.1_Splice_Site|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Splice_Site|ESRRG_uc001hld.1_Splice_Site|ESRRG_uc001hkx.1_Splice_Site_p.R24_splice|ESRRG_uc009xdo.1_Splice_Site|ESRRG_uc001hle.1_Splice_Site	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1						positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	GCAGAGAAGCCTGAGATTGAG	0.284													19	50	---	---	---	---	PASS	T	216850834	T	T	216850834	5	4	161	1	0	0	0	0	0	0	1	0	5262	695	24	3	1344	3	ESRRG	1	216850834	Splice_Site	SNP	C	TCGA-66-2782-01A-01D-1522-08	1002675	216850834	32399787	40	56694										
EPRS	2058	broad.mit.edu	37	chr1	220178660	220178660	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttgtataatatctcctttttTcaaatccttaaggcagggat	6	7	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:220178660T>A	uc001hly.1	-	16	2263	c.1993A>T	c.(1993-1995)AAA>TAA	p.K665*	EPRS_uc010puf.1_Nonsense_Mutation_p.K416*|EPRS_uc001hlz.1_Nonsense_Mutation_p.K672*|EPRS_uc009xdt.1_Nonsense_Mutation_p.K253*	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	665	Glutamyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	TCTCCTTTTTTCAAATCCTTA	0.338													48	163	---	---	---	---	PASS	A	220178660	A	A	220178660	4	1	161	1	0	0	0	0	0	1	0	0	5191	1792	62	5	2613	5	EPRS	1	220178660	Nonsense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	3327826	220178660	29071961	41	56695										
LEFTY2	7044	broad.mit.edu	37	chr1	226125443	226125443	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctgcaggtcaatgtacatctCctggcggcagcagcgggtgc	14	12	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:226125443C>A	uc001hpt.1	-	4	879	c.799G>T	c.(799-801)GAG>TAG	p.E267*	LEFTY2_uc010pvk.1_Nonsense_Mutation_p.E233*|LEFTY2_uc009xek.1_3'UTR	NM_003240	NP_003231	O00292	LFTY2_HUMAN	endometrial bleeding associated factor	267					cell growth|multicellular organismal development|platelet activation|platelet degranulation|transforming growth factor beta receptor signaling pathway	extracellular space|platelet alpha granule lumen	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)					ATGTACATCTCCTGGCGGCAG	0.637													13	22	---	---	---	---	PASS	A	226125443	A	A	226125443	4	1	161	1	0	0	0	0	0	1	0	0	8716	864	30	2	305	2	LEFTY2	1	226125443	Nonsense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	5946783	226125443	23125178	42	56696										
CDC42BPA	8476	broad.mit.edu	37	chr1	227327318	227327318	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caagtttttcttgctcaaggCgcttaattcttctttcataa	5	9	5	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:227327318C>A	uc001hqr.2	-	10	2292	c.1349G>T	c.(1348-1350)CGC>CTC	p.R450L	CDC42BPA_uc001hqs.2_Missense_Mutation_p.R450L|CDC42BPA_uc009xes.2_Missense_Mutation_p.R450L|CDC42BPA_uc010pvs.1_Missense_Mutation_p.R450L	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	450	Potential.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TTGCTCAAGGCGCTTAATTCT	0.358													16	49	---	---	---	---	PASS	A	227327318	A	A	227327318	3	1	161	1	0	0	0	0	1	0	0	0	3072	768	27	1	3918	1	CDC42BPA	1	227327318	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1201875	227327318	21923303	43	56697										
URB2	9816	broad.mit.edu	37	chr1	229773946	229773946	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cagaactgcatcccaaaaagGactccgtgtttacctccatg	7	13	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:229773946G>C	uc001hts.1	+	4	3722	c.3586G>C	c.(3586-3588)GAC>CAC	p.D1196H	URB2_uc009xfd.1_Missense_Mutation_p.D1196H	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	1196						nucleolus				central_nervous_system(2)|ovary(1)	3						TCCCAAAAAGGACTCCGTGTT	0.453													54	216	---	---	---	---	PASS	C	229773946	C	C	229773946	3	2	161	1	0	0	0	0	1	0	0	0	17022	1174	41	2	3596	2	URB2	1	229773946	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	2446628	229773946	19476675	44	56698										
ARID4B	51742	broad.mit.edu	37	chr1	235386562	235386562	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tatccaagtacaggtcgtttGttaataggtgtacctgttac	9	7	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:235386562G>T	uc001hwq.2	-	13	1482	c.984C>A	c.(982-984)AAC>AAA	p.N328K	ARID4B_uc001hwr.2_Missense_Mutation_p.N328K|ARID4B_uc001hws.3_Missense_Mutation_p.N328K|ARID4B_uc001hwt.3_Missense_Mutation_p.N9K	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	328	ARID.|Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			CAGGTCGTTTGTTAATAGGTG	0.284													17	49	---	---	---	---	PASS	T	235386562	T	T	235386562	3	4	161	1	0	0	0	0	1	0	0	0	920	1368	48	3	3002	3	ARID4B	1	235386562	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	5612616	235386562	13864059	45	56699										
HEATR1	55127	broad.mit.edu	37	chr1	236717960	236717960	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	acttataaaatgctgggtatCaaaaaggaagattttgtata	8	3	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:236717960C>G	uc001hyd.1	-	42	6141	c.6016G>C	c.(6016-6018)GAT>CAT	p.D2006H	HEATR1_uc009xgh.1_Missense_Mutation_p.D1168H	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	2006					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			TGCTGGGTATCAAAAAGGAAG	0.393													4	261	---	---	---	---	PASS	G	236717960	G	G	236717960	3	3	161	1	0	0	0	0	1	0	0	0	7027	826	29	2	434	2	HEATR1	1	236717960	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1331398	236717960	12532661	46	56700										
RYR2	6262	broad.mit.edu	37	chr1	237789106	237789106	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agtgactccaaaaagtcctgTaagcagtatgagagtgcact	10	8	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:237789106T>A	uc001hyl.1	+	40	6286	c.6166_splice	c.e40+2	p.S2056_splice		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor						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)			AAAAGTCCTGTAAGCAGTATG	0.428													15	45	---	---	---	---	PASS	A	237789106	A	A	237789106	5	1	161	1	0	0	0	0	0	0	1	0	13769	1652	57	5	6326	5	RYR2	1	237789106	Splice_Site	SNP	T	TCGA-66-2782-01A-01D-1522-08	1071146	237789106	11461515	47	56701										
ZP4	57829	broad.mit.edu	37	chr1	238053355	238053355	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggccattgggtcatactcacCcactcagtgacatagcagct	9	13	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:238053355C>G	uc001hym.2	-	2	297	c.297G>C	c.(295-297)TGG>TGC	p.W99C	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	99	Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			TCATACTCACCCACTCAGTGA	0.567													61	215	---	---	---	---	PASS	G	238053355	G	G	238053355	3	3	161	1	0	0	0	0	1	0	0	0	18215	637	22	4	1369	4	ZP4	1	238053355	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	264249	238053355	11197266	48	56702										
C1orf101	257044	broad.mit.edu	37	chr1	244735962	244735962	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agtttggactcagatcgtctAtccagaaaacactggtctgt	9	9	3	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:244735962A>G	uc001iam.2	+	11	1897	c.1838A>G	c.(1837-1839)TAT>TGT	p.Y613C	C1orf101_uc001iak.1_Missense_Mutation_p.Y167C|C1orf101_uc001ial.2_Missense_Mutation_p.Y613C|C1orf101_uc010pym.1_Missense_Mutation_p.Y462C|C1orf101_uc010pyn.1_Missense_Mutation_p.Y546C	NM_001130957	NP_001124429	Q5SY80	CA101_HUMAN	hypothetical protein LOC257044 isoform 1	613	Extracellular (Potential).					integral to membrane				ovary(1)|breast(1)	2	all_cancers(71;2.99e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)		all cancers(7;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.001)|GBM - Glioblastoma multiforme(7;0.0154)			CAGATCGTCTATCCAGAAAAC	0.393													38	123	---	---	---	---	PASS	G	244735962	G	G	244735962	3	3	161	1	0	0	0	0	1	0	0	0	1976	449	16	5	1880	5	C1orf101	1	244735962	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	6682607	244735962	4514659	49	56703										
OR2M2	391194	broad.mit.edu	37	chr1	248343775	248343775	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aatcattgatgctgtagccaCattttccttctccttttgtg	6	10	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:248343775C>T	uc010pzf.1	+	1	488	c.488C>T	c.(487-489)ACA>ATA	p.T163I		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	163	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GCTGTAGCCACATTTTCCTTC	0.418													109	436	---	---	---	---	PASS	T	248343775	T	T	248343775	3	4	161	1	0	0	0	0	1	0	0	0	11010	478	17	3	490	3	OR2M2	1	248343775	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	3607813	248343775	906846	50	56704										
OR2G6	391211	broad.mit.edu	37	chr1	248685164	248685164	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tctcgtgtgtggacatctgcTttaccaccagtgttgcccca	9	13	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:248685164T>C	uc001ien.1	+	1	217	c.217T>C	c.(217-219)TTT>CTT	p.F73L		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	73	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGACATCTGCTTTACCACCAG	0.512													45	143	---	---	---	---	PASS	C	248685164	C	C	248685164	3	2	161	1	0	0	0	0	1	0	0	0	11000	1609	56	5	219	5	OR2G6	1	248685164	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	341389	248685164	565457	51	56705										
OR2T11	127077	broad.mit.edu	37	chr1	248789685	248789685	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgtgtagaaggcagccccatAgaagatgctaactacagtca	10	9	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:248789685A>T	uc001ier.1	-	1	745	c.745T>A	c.(745-747)TAT>AAT	p.Y249N		NM_001001964	NP_001001964	Q8NH01	O2T11_HUMAN	olfactory receptor, family 2, subfamily T,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GCAGCCCCATAGAAGATGCTA	0.532													24	60	---	---	---	---	PASS	T	248789685	T	T	248789685	3	4	161	1	0	0	0	0	1	0	0	0	11018	420	15	5	209	5	OR2T11	1	248789685	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	104521	248789685	460936	52	56706										
OR2T11	127077	broad.mit.edu	37	chr1	248789955	248789955	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtaagggacattcatggtgaTgggagtgagcagaaagccat	15	5	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:248789955T>C	uc001ier.1	-	1	475	c.475A>G	c.(475-477)ATC>GTC	p.I159V		NM_001001964	NP_001001964	Q8NH01	O2T11_HUMAN	olfactory receptor, family 2, subfamily T,	159	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTCATGGTGATGGGAGTGAGC	0.527													33	111	---	---	---	---	PASS	C	248789955	C	C	248789955	3	2	161	1	0	0	0	0	1	0	0	0	11018	1464	51	5	479	5	OR2T11	1	248789955	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	270	248789955	460666	53	56707										
OR14I1	401994	broad.mit.edu	37	chr1	248845000	248845000	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aagcatcccagaaccaagcaTgagctcagggccagggtcaa	11	12	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr1:248845000T>C	uc001ieu.1	-	1	606	c.606A>G	c.(604-606)TCA>TCG	p.S202S		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	202	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GAACCAAGCATGAGCTCAGGG	0.483													28	76	---	---	---	---	PASS	C	248845000	C	C	248845000	2	2	161	1	0	0	0	0	0	0	0	1	10947	1451	51	5		5	OR14I1	1	248845000	Silent	SNP	T	TCGA-66-2782-01A-01D-1522-08	55045	248845000	405621	54	56708										
ALLC	55821	broad.mit.edu	37	chr2	3727499	3727499	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aggctggggatccaaggagtCatccggggcttcgacgtgga	17	9	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:3727499C>A	uc010ewt.2	+	5	374	c.213C>A	c.(211-213)GTC>GTA	p.V71V		NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	90							allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)		TCCAAGGAGTCATCCGGGGCT	0.552										HNSCC(21;0.051)			42	159	---	---	---	---	PASS	A	3727499	A	A	3727499	2	1	161	1	0	0	0	0	0	0	0	1	534	813	29	2		2	ALLC	2	3727499	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08		3727499	239471874	55	56709										
GREB1	9687	broad.mit.edu	37	chr2	11772040	11772040	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	acctgtactttgcagagccaTgaatatataaaaagtccgac	7	9	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:11772040T>A	uc002rbk.1	+	27	4917	c.4617T>A	c.(4615-4617)CAT>CAA	p.H1539Q	GREB1_uc002rbp.1_Missense_Mutation_p.H537Q	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1539						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)		TGCAGAGCCATGAATATATAA	0.303													22	62	---	---	---	---	PASS	A	11772040	A	A	11772040	3	1	161	1	0	0	0	0	1	0	0	0	6760	1461	51	5	4827	5	GREB1	2	11772040	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	8044541	11772040	231427333	56	56710										
EPT1	85465	broad.mit.edu	37	chr2	26597907	26597907	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttgtctgcattttccttccaGactatttcttttgtctacat	4	10	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:26597907G>T	uc010ykz.1	+	6	721	c.574_splice	c.e6-1	p.T192_splice	EPT1_uc010eyl.1_Splice_Site	NM_033505	NP_277040	Q9C0D9	EPT1_HUMAN	selenoprotein I						phospholipid biosynthetic process	integral to membrane	ethanolaminephosphotransferase activity|metal ion binding				0						TTTCCTTCCAGACTATTTCTT	0.383													79	256	---	---	---	---	PASS	T	26597907	T	T	26597907	5	4	161	1	0	0	0	0	0	0	1	0	5199	956	33	2	595	2	EPT1	2	26597907	Splice_Site	SNP	G	TCGA-66-2782-01A-01D-1522-08	14825867	26597907	216601466	57	56711										
EMILIN1	11117	broad.mit.edu	37	chr2	27306531	27306531	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggctgcagcaggaggccacaGagcatgctacagagagtgaa	15	9	0	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:27306531G>C	uc002rii.3	+	4	2520	c.2092G>C	c.(2092-2094)GAG>CAG	p.E698Q	EMILIN1_uc002rik.3_5'UTR	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	698	Potential.				cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAGGCCACAGAGCATGCTAC	0.612													31	153	---	---	---	---	PASS	C	27306531	C	C	27306531	3	2	161	1	0	0	0	0	1	0	0	0	5093	943	33	2	2106	2	EMILIN1	2	27306531	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	708624	27306531	215892842	58	56712										
SLC5A6	8884	broad.mit.edu	37	chr2	27426157	27426157	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agaactcagggaaccaaggtCgaatcaggtcttccatcgta	10	10	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:27426157C>A	uc002rjd.2	-	11	1542	c.1151G>T	c.(1150-1152)CGA>CTA	p.R384L	SLC5A6_uc010eyv.1_Missense_Mutation_p.R384L	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	384					biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	GAACCAAGGTCGAATCAGGTC	0.478													19	83	---	---	---	---	PASS	A	27426157	A	A	27426157	3	1	161	1	0	0	0	0	1	0	0	0	14669	884	31	2	784	2	SLC5A6	2	27426157	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	119626	27426157	215773216	59	56713										
SLC8A1	6546	broad.mit.edu	37	chr2	40656907	40656907	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	attgaatgcagcacttcccaCgatggtgctaggaccgaggt	12	10	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:40656907C>G	uc002rrx.2	-	1	538	c.514G>C	c.(514-516)GTG>CTG	p.V172L	SLC8A1_uc002rry.2_Missense_Mutation_p.V172L|SLC8A1_uc002rrz.2_Missense_Mutation_p.V172L|SLC8A1_uc002rsa.2_Missense_Mutation_p.V172L|SLC8A1_uc002rsd.3_Missense_Mutation_p.V172L|SLC8A1_uc002rsb.1_Missense_Mutation_p.V172L|SLC8A1_uc010fan.1_Missense_Mutation_p.V172L|SLC8A1_uc002rsc.1_Missense_Mutation_p.V172L	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	172	Alpha-1.|Helical; (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	GCACTTCCCACGATGGTGCTA	0.468													13	133	---	---	---	---	PASS	G	40656907	G	G	40656907	3	3	161	1	0	0	0	0	1	0	0	0	14706	536	19	4	2555	4	SLC8A1	2	40656907	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	13230750	40656907	202542466	60	56714										
BCL11A	53335	broad.mit.edu	37	chr2	60773218	60773218	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggattggatgcttttttcatCtcgattggtgaaggggaagg	15	4	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:60773218C>T	uc002sae.1	-	2	501	c.273G>A	c.(271-273)GAG>GAA	p.E91E	BCL11A_uc002sab.2_Silent_p.E91E|BCL11A_uc002sac.2_Silent_p.E91E|BCL11A_uc010ypi.1_5'UTR|BCL11A_uc010ypj.1_Silent_p.E91E|BCL11A_uc002saf.1_Silent_p.E91E|BCL11A_uc010fcg.2_Silent_p.E91E	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	91	Required for nuclear body formation and for SUMO1 recruitment (By similarity).				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			CTTTTTTCATCTCGATTGGTG	0.468			T	IGH@	B-CLL								18	183	---	---	---	---	PASS	T	60773218	T	T	60773218	2	4	161	1	0	0	0	0	0	0	0	1	1363	912	32	2		2	BCL11A	2	60773218	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	20116311	60773218	182426155	61	56715										
PROKR1	10887	broad.mit.edu	37	chr2	68873182	68873182	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgggcatcatgctggtctgcGgcattggaaacttcatcttt	11	9	4	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:68873182G>A	uc010yqj.1	+	1	229	c.229G>A	c.(229-231)GGC>AGC	p.G77S	PROKR1_uc002ses.2_RNA	NM_138964	NP_620414	Q8TCW9	PKR1_HUMAN	G protein-coupled receptor 73	77	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1						GCTGGTCTGCGGCATTGGAAA	0.522													81	238	---	---	---	---	PASS	A	68873182	A	A	68873182	3	1	161	1	0	0	0	0	1	0	0	0	12552	1116	39	1	231	1	PROKR1	2	68873182	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	8099964	68873182	174326191	62	56716										
ALMS1	7840	broad.mit.edu	37	chr2	73678659	73678659	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctactagctactcaaataggGggaagcctgtcattttctac	8	10	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:73678659G>T	uc002sje.1	+	10	5119	c.5008G>T	c.(5008-5010)GGG>TGG	p.G1670W	ALMS1_uc002sjf.1_Missense_Mutation_p.G1626W|ALMS1_uc002sjg.2_Missense_Mutation_p.G1056W|ALMS1_uc002sjh.1_Missense_Mutation_p.G1056W	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1668	24.|34 X 47 AA approximate tandem repeat.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CTCAAATAGGGGGAAGCCTGT	0.463													51	180	---	---	---	---	PASS	T	73678659	T	T	73678659	3	4	161	1	0	0	0	0	1	0	0	0	535	1232	43	3	5032	3	ALMS1	2	73678659	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	4805477	73678659	169520714	63	56717										
SEMA4F	10505	broad.mit.edu	37	chr2	74907075	74907075	+	Missense_Mutation	SNP	G	T	T													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	attctgattggtcggcgtcaGcagcgacggcgacagaggga							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:74907075G>T	uc002sna.1	+	14	2163	c.2052G>T	c.(2050-2052)CAG>CAT	p.Q684H	SEMA4F_uc010ffr.1_Missense_Mutation_p.Q296H|SEMA4F_uc002snb.1_Missense_Mutation_p.Q296H|SEMA4F_uc002snc.1_Missense_Mutation_p.Q529H	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	684	Cytoplasmic (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GTCGGCGTCAGCAGCGACGGC	0.627													30	92	---	---	---	---	PASS	T	74907075	T	T	74907075	3	4	161	1	0	0	0	0	1	0	0	0	14035	962	34	3	2106	3	SEMA4F	2	74907075	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1228416	74907075	168292298	64	56718	1009	2								
SEMA4F	10505	broad.mit.edu	37	chr2	74907083	74907083	+	Missense_Mutation	SNP	G	C	C													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tggtcggcgtcagcagcgacGgcgacagagggaacttctgg							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:74907083G>C	uc002sna.1	+	14	2171	c.2060G>C	c.(2059-2061)CGG>CCG	p.R687P	SEMA4F_uc010ffr.1_Missense_Mutation_p.R299P|SEMA4F_uc002snb.1_Missense_Mutation_p.R299P|SEMA4F_uc002snc.1_Missense_Mutation_p.R532P	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	687	Cytoplasmic (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CAGCAGCGACGGCGACAGAGG	0.632													34	100	---	---	---	---	PASS	C	74907083	C	C	74907083	3	2	161	1	0	0	0	0	1	0	0	0	14035	1116	39	4	2114	4	SEMA4F	2	74907083	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	8	74907083	168292290	65	56719	1009	2								
REG1A	5967	broad.mit.edu	37	chr2	79349975	79349975	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttccccatctagaaccgccgCtggcactggagcagtgggtc	12	14	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:79349975C>A	uc002snz.2	+	5	433	c.330C>A	c.(328-330)CGC>CGA	p.R110R	REG1A_uc010ysd.1_Silent_p.R110R	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	110	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						AGAACCGCCGCTGGCACTGGA	0.552													54	185	---	---	---	---	PASS	A	79349975	A	A	79349975	2	1	161	1	0	0	0	0	0	0	0	1	13210	784	28	3		3	REG1A	2	79349975	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	4442892	79349975	163849398	66	56720										
CTNNA2	1496	broad.mit.edu	37	chr2	80136755	80136755	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gaccccatgacgttcagcgaGgccaggttccggccgtccct	12	16	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:80136755G>T	uc010ysh.1	+	6	893	c.888G>T	c.(886-888)GAG>GAT	p.E296D	CTNNA2_uc010yse.1_Missense_Mutation_p.E296D|CTNNA2_uc010ysf.1_Missense_Mutation_p.E296D|CTNNA2_uc010ysg.1_Missense_Mutation_p.E296D	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	296					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						CGTTCAGCGAGGCCAGGTTCC	0.587													26	132	---	---	---	---	PASS	T	80136755	T	T	80136755	3	4	161	1	0	0	0	0	1	0	0	0	4013	991	35	3		3	CTNNA2	2	80136755	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	786780	80136755	163062618	67	56721										
EIF2AK3	9451	broad.mit.edu	37	chr2	88874543	88874543	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcgattagttttcggctcttCtttactggaagcattatcac	7	9	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:88874543C>T	uc002stc.3	-	13	2660	c.2458G>A	c.(2458-2460)GAA>AAA	p.E820K		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	820	Cytoplasmic (Potential).|Protein kinase.				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						TTCGGCTCTTCTTTACTGGAA	0.398													36	317	---	---	---	---	PASS	T	88874543	T	T	88874543	3	4	161	1	0	0	0	0	1	0	0	0	4998	922	32	2	912	2	EIF2AK3	2	88874543	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	8737788	88874543	154324830	68	56722										
PROM2	150696	broad.mit.edu	37	chr2	95947943	95947943	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cctgcagctcaacgactcctAcgacctggaggagcacctgg	11	15	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:95947943A>G	uc002suh.1	+	14	1830	c.1697A>G	c.(1696-1698)TAC>TGC	p.Y566C	PROM2_uc002sui.2_Missense_Mutation_p.Y566C|PROM2_uc002suj.2_Missense_Mutation_p.Y220C|PROM2_uc002suk.2_Missense_Mutation_p.Y566C|PROM2_uc002sul.2_Missense_Mutation_p.Y92C|PROM2_uc002sum.2_RNA	NM_144707	NP_653308	Q8N271	PROM2_HUMAN	prominin 2 precursor	566	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|cilium membrane|integral to membrane|microvillus membrane				ovary(1)	1						AACGACTCCTACGACCTGGAG	0.597													8	34	---	---	---	---	PASS	G	95947943	G	G	95947943	3	3	161	1	0	0	0	0	1	0	0	0	12556	391	14	5	1751	5	PROM2	2	95947943	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	7073400	95947943	147251430	69	56723										
SLC9A4	389015	broad.mit.edu	37	chr2	103125362	103125362	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gttaaaaaaaccaataaaaaAgaatccatcaatgaagagct	5	6	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:103125362A>G	uc002tbz.3	+	6	1915	c.1458A>G	c.(1456-1458)AAA>AAG	p.K486K		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	486	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						CCAATAAAAAAGAATCCATCA	0.353													3	181	---	---	---	---	PASS	G	103125362	G	G	103125362	2	3	161	1	0	0	0	0	0	0	0	1	14716	69	3	5		5	SLC9A4	2	103125362	Silent	SNP	A	TCGA-66-2782-01A-01D-1522-08	7177419	103125362	140074011	70	56724										
CCDC138	165055	broad.mit.edu	37	chr2	109429163	109429163	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agctcgtttagataatttacAggtaagttgcctgttcttct	8	7	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:109429163A>T	uc002ten.1	+	8	992	c.932A>T	c.(931-933)CAG>CTG	p.Q311L	CCDC138_uc002teo.1_Missense_Mutation_p.Q311L|CCDC138_uc002tep.1_5'UTR|CCDC138_uc010fjm.1_5'UTR	NM_144978	NP_659415	Q96M89	CC138_HUMAN	coiled-coil domain containing 138	311	Potential.										0						GATAATTTACAGGTAAGTTGC	0.318													57	198	---	---	---	---	PASS	T	109429163	T	T	109429163	3	4	161	1	0	0	0	0	1	0	0	0	2772	202	7	5	962	5	CCDC138	2	109429163	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	6303801	109429163	133770210	71	56725										
ANAPC1	64682	broad.mit.edu	37	chr2	112621316	112621316	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	actgggtgatgaggttgagcGactctggctgtgaatggagg	18	5	1	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:112621316G>A	uc002thi.2	-	9	1235	c.988C>T	c.(988-990)CGC>TGC	p.R330C		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	330					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						GAGGTTGAGCGACTCTGGCTG	0.478													16	136	---	---	---	---	PASS	A	112621316	A	A	112621316	3	1	161	1	0	0	0	0	1	0	0	0	598	1058	37	2	5006	2	ANAPC1	2	112621316	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3192153	112621316	130578057	72	56726										
EPB41L5	57669	broad.mit.edu	37	chr2	120776748	120776748	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tccgagaagcacaacgcgccGccacacatattcctgcagct	8	16	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:120776748G>A	uc002tmg.2	+	2	214	c.88G>A	c.(88-90)GCC>ACC	p.A30T	EPB41L5_uc010flk.2_Missense_Mutation_p.A30T|EPB41L5_uc010fll.2_Missense_Mutation_p.A30T|EPB41L5_uc002tmh.3_Missense_Mutation_p.A30T	NM_020909	NP_065960	Q9HCM4	E41L5_HUMAN	erythrocyte membrane protein band 4.1 like 5	30						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1						ACAACGCGCCGCCACACATAT	0.493													74	426	---	---	---	---	PASS	A	120776748	A	A	120776748	3	1	161	1	0	0	0	0	1	0	0	0	5157	1087	38	1	90	1	EPB41L5	2	120776748	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	8155432	120776748	122422625	73	56727										
GLI2	2736	broad.mit.edu	37	chr2	121747649	121747649	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctggccgccaccgtggggtaCgtgctgtgcagcagcagctg	16	13	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:121747649C>G	uc010flp.2	+	13	4189	c.4159C>G	c.(4159-4161)CGT>GGT	p.R1387G	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Missense_Mutation_p.R1059G|GLI2_uc002tmu.3_Missense_Mutation_p.R1042G	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	1387					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				CCGTGGGGTACGTGCTGTGCA	0.692													5	26	---	---	---	---	PASS	G	121747649	G	G	121747649	3	3	161	1	0	0	0	0	1	0	0	0	6438	536	19	4	4209	4	GLI2	2	121747649	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	970901	121747649	121451724	74	56728										
LRP1B	53353	broad.mit.edu	37	chr2	141110527	141110527	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tggttataatcttaccttctGctatgcaggtgttatttctt	7	7	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:141110527G>T	uc002tvj.1	-	76	12617	c.11645C>A	c.(11644-11646)GCA>GAA	p.A3882E		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3882	Extracellular (Potential).				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)		CTTACCTTCTGCTATGCAGGT	0.323										TSP Lung(27;0.18)			27	207	---	---	---	---	PASS	T	141110527	T	T	141110527	3	4	161	1	0	0	0	0	1	0	0	0	8955	1319	46	3	2218	3	LRP1B	2	141110527	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	19362878	141110527	102088846	75	56729										
LRP1B	53353	broad.mit.edu	37	chr2	141460034	141460034	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gccattcggccatgctattcCcatgcttacaaggacaacct	7	14	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:141460034C>T	uc002tvj.1	-	38	7084	c.6112G>A	c.(6112-6114)GGA>AGA	p.G2038R		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2038	Extracellular (Potential).|LDL-receptor class B 21.				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)		CATGCTATTCCCATGCTTACA	0.423										TSP Lung(27;0.18)			20	139	---	---	---	---	PASS	T	141460034	T	T	141460034	3	4	161	1	0	0	0	0	1	0	0	0	8955	632	22	3	7903	3	LRP1B	2	141460034	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	349507	141460034	101739339	76	56730										
LRP1B	53353	broad.mit.edu	37	chr2	141773277	141773277	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcttttaccttcctgtgagtCccattcaaaaatactttttc	3	11	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:141773277C>T	uc002tvj.1	-	13	3150	c.2178G>A	c.(2176-2178)GGG>GGA	p.G726G	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	726	Extracellular (Potential).|LDL-receptor class B 8.				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)		TCCTGTGAGTCCCATTCAAAA	0.373										TSP Lung(27;0.18)			7	62	---	---	---	---	PASS	T	141773277	T	T	141773277	2	4	161	1	0	0	0	0	0	0	0	1	8955	842	30	2		2	LRP1B	2	141773277	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	313243	141773277	101426096	77	56731										
IFIH1	64135	broad.mit.edu	37	chr2	163133387	163133387	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	attgctccattatggtatttCttaatttggtcagcttttca	6	7	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:163133387C>A	uc002uce.2	-	11	2336	c.2114G>T	c.(2113-2115)AGA>ATA	p.R705I		NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	705	Helicase C-terminal.				detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1						TATGGTATTTCTTAATTTGGT	0.328													112	272	---	---	---	---	PASS	A	163133387	A	A	163133387	3	1	161	1	0	0	0	0	1	0	0	0	7520	913	32	2	987	2	IFIH1	2	163133387	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	21360110	163133387	80065986	78	56732										
XIRP2	129446	broad.mit.edu	37	chr2	168100713	168100713	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tacacacgaacagtgaaactTgaagaagttgacagaggaga	11	6	0	6			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:168100713T>C	uc002udx.2	+	8	2829	c.2811T>C	c.(2809-2811)CTT>CTC	p.L937L	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.L762L|XIRP2_uc010fpq.2_Silent_p.L715L|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	762					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CAGTGAAACTTGAAGAAGTTG	0.338													13	89	---	---	---	---	PASS	C	168100713	C	C	168100713	2	2	161	1	0	0	0	0	0	0	0	1	17427	1799	63	5		5	XIRP2	2	168100713	Silent	SNP	T	TCGA-66-2782-01A-01D-1522-08	4967326	168100713	75098660	79	56733										
LRP2	4036	broad.mit.edu	37	chr2	170042302	170042302	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccggcaggtctttccatctgGttctcggaggtagcctgggg	15	11	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:170042302G>T	uc002ues.2	-	50	9769	c.9556C>A	c.(9556-9558)CCA>ACA	p.P3186T		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3186	EGF-like 12; calcium-binding (Potential).|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TTTCCATCTGGTTCTCGGAGG	0.413													53	268	---	---	---	---	PASS	T	170042302	T	T	170042302	3	4	161	1	0	0	0	0	1	0	0	0	8956	1261	44	3	4531	3	LRP2	2	170042302	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1941589	170042302	73157071	80	56734										
HAT1	8520	broad.mit.edu	37	chr2	172822353	172822353	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gagaatatcatgaaaggcttCagacctttttgatgtggttt	10	5	2	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:172822353C>T	uc002uhi.2	+	6	611	c.535C>T	c.(535-537)CAG>TAG	p.Q179*	HAT1_uc010fqi.2_Nonsense_Mutation_p.Q14*|HAT1_uc002uhj.2_Nonsense_Mutation_p.Q94*	NM_003642	NP_003633	O14929	HAT1_HUMAN	histone acetyltransferase 1	179					chromatin silencing at telomere|DNA packaging	cytoplasm|nuclear matrix|nucleoplasm	histone acetyltransferase activity|protein binding			large_intestine(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.216)			TGAAAGGCTTCAGACCTTTTT	0.398													126	318	---	---	---	---	PASS	T	172822353	T	T	172822353	4	4	161	1	0	0	0	0	0	1	0	0	6964	827	29	2	557	2	HAT1	2	172822353	Nonsense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2780051	172822353	70377020	81	56735										
STAT4	6775	broad.mit.edu	37	chr2	191905825	191905825	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcaggccatagaggcagatcTgtgtttcaaacgttatggaa	11	7	3	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:191905825T>G	uc002usm.1	-	15	1555	c.1301A>C	c.(1300-1302)CAG>CCG	p.Q434P	STAT4_uc002usn.1_Missense_Mutation_p.Q434P|STAT4_uc010zgk.1_Missense_Mutation_p.Q279P|STAT4_uc002uso.2_Missense_Mutation_p.Q434P	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	434					JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			GAGGCAGATCTGTGTTTCAAA	0.383													29	163	---	---	---	---	PASS	G	191905825	G	G	191905825	3	3	161	1	0	0	0	0	1	0	0	0	15266	1580	55	5	985	5	STAT4	2	191905825	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	19083472	191905825	51293548	82	56736										
DNAH7	56171	broad.mit.edu	37	chr2	196681578	196681578	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cttctgagaaatctcattagCcaaggccttggaggaagata	10	8	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:196681578C>A	uc002utj.3	-	51	9636	c.9535G>T	c.(9535-9537)GCT>TCT	p.A3179S		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3179	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						ATCTCATTAGCCAAGGCCTTG	0.398													22	125	---	---	---	---	PASS	A	196681578	A	A	196681578	3	1	161	1	0	0	0	0	1	0	0	0	4606	739	26	3	2599	3	DNAH7	2	196681578	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	4775753	196681578	46517795	83	56737										
HECW2	57520	broad.mit.edu	37	chr2	197184089	197184089	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	attctcaacagggttgtcctCcagctttgtctgagatgtca	9	10	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:197184089C>T	uc002utm.1	-	9	1708	c.1525G>A	c.(1525-1527)GAG>AAG	p.E509K	HECW2_uc002utl.1_Missense_Mutation_p.E153K	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	509					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						GGGTTGTCCTCCAGCTTTGTC	0.522													11	69	---	---	---	---	PASS	T	197184089	T	T	197184089	3	4	161	1	0	0	0	0	1	0	0	0	7043	864	30	2	3277	2	HECW2	2	197184089	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	502511	197184089	46015284	84	56738										
PARD3B	117583	broad.mit.edu	37	chr2	206165365	206165365	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gaatgaccttccctttcacaGgccccggccgcacatggttc	9	16	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:206165365G>A	uc002var.1	+	17	2504	c.2297G>A	c.(2296-2298)AGG>AAG	p.R766K	PARD3B_uc010fub.1_Missense_Mutation_p.R766K|PARD3B_uc002vao.1_Missense_Mutation_p.R766K|PARD3B_uc002vap.1_Missense_Mutation_p.R704K|PARD3B_uc002vaq.1_Intron	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	766					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		CCCTTTCACAGGCCCCGGCCG	0.522													61	115	---	---	---	---	PASS	A	206165365	A	A	206165365	3	1	161	1	0	0	0	0	1	0	0	0	11444	1000	35	3	2363	3	PARD3B	2	206165365	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	8981276	206165365	37034008	85	56739										
ADAM23	8745	broad.mit.edu	37	chr2	207436469	207436469	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aggaatgctatggattatgcTgtaagaaatgttccctctcc	9	8	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:207436469T>C	uc002vbq.2	+	17	1808	c.1585T>C	c.(1585-1587)TGT>CGT	p.C529R	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	529	Disintegrin.|Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		TGGATTATGCTGTAAGAAATG	0.458													28	96	---	---	---	---	PASS	C	207436469	C	C	207436469	3	2	161	1	0	0	0	0	1	0	0	0	245	1580	55	5	1651	5	ADAM23	2	207436469	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	1271104	207436469	35762904	86	56740										
SMARCAL1	50485	broad.mit.edu	37	chr2	217285226	217285226	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttcacaggaccttattgcgcTttttaaacagatggattcca	7	9	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:217285226T>C	uc002vgc.3	+	5	1397	c.1067T>C	c.(1066-1068)CTT>CCT	p.L356P	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Missense_Mutation_p.L356P|SMARCAL1_uc010fvg.2_Missense_Mutation_p.L356P	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	356	HARP 2.				chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		CTTATTGCGCTTTTTAAACAG	0.443									Schimke_Immuno-Osseous_Dysplasia				3	134	---	---	---	---	PASS	C	217285226	C	C	217285226	3	2	161	1	0	0	0	0	1	0	0	0	14773	1609	56	5	1077	5	SMARCAL1	2	217285226	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	9848757	217285226	25914147	87	56741										
WNT10A	80326	broad.mit.edu	37	chr2	219754802	219754802	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gggcaaactgaaggcctgtgGctgtgatgcgtcccggcgag	17	10	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:219754802G>T	uc002vjd.1	+	3	936	c.473G>T	c.(472-474)GGC>GTC	p.G158V		NM_025216	NP_079492	Q9GZT5	WN10A_HUMAN	wingless-type MMTV integration site family,	158					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to transforming growth factor beta stimulus|female gonad development|hair follicle morphogenesis|odontogenesis|regulation of odontogenesis of dentine-containing tooth|sebaceous gland development|skin development|tongue development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			lung(1)|skin(1)	2		Renal(207;0.0474)		Epithelial(149;4.26e-07)|all cancers(144;8.8e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AAGGCCTGTGGCTGTGATGCG	0.632													12	83	---	---	---	---	PASS	T	219754802	T	T	219754802	3	4	161	1	0	0	0	0	1	0	0	0	17379	1203	42	3	483	3	WNT10A	2	219754802	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	2469576	219754802	23444571	88	56742										
SPEG	10290	broad.mit.edu	37	chr2	220355204	220355204	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcgtggccaagatcgtgcccTatgctgccgagggcaagcgg	15	12	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:220355204T>C	uc010fwg.2	+	37	8995	c.8995T>C	c.(8995-8997)TAT>CAT	p.Y2999H		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2999	Protein kinase 2.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GATCGTGCCCTATGCTGCCGA	0.672													17	45	---	---	---	---	PASS	C	220355204	C	C	220355204	3	2	161	1	0	0	0	0	1	0	0	0	15035	1522	53	5	9153	5	SPEG	2	220355204	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	600402	220355204	22844169	89	56743										
NEU2	4759	broad.mit.edu	37	chr2	233899526	233899526	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctacactcaccccacacactCctggcagagggccgacctgg	9	18	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:233899526C>G	uc010zmn.1	+	2	902	c.902C>G	c.(901-903)TCC>TGC	p.S301C		NM_005383	NP_005374	Q9Y3R4	NEUR2_HUMAN	neuraminidase 2	301							exo-alpha-sialidase activity				0		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0271)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0839)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0488)		CCCACACACTCCTGGCAGAGG	0.706													20	50	---	---	---	---	PASS	G	233899526	G	G	233899526	3	3	161	1	0	0	0	0	1	0	0	0	10342	855	30	2	908	2	NEU2	2	233899526	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	13544322	233899526	9299847	90	56744										
USP40	55230	broad.mit.edu	37	chr2	234449396	234449396	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tctggcccagctgatcaacaGgaattagattattctcctcc	7	12	3	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:234449396G>C	uc010zmr.1	-	9	1115	c.1115C>G	c.(1114-1116)CCT>CGT	p.P372R	USP40_uc010zmt.1_Missense_Mutation_p.P16R	NM_018218	NP_060688	Q9NVE5	UBP40_HUMAN	ubiquitin thioesterase 40	360					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)|breast(1)	3		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0539)		Epithelial(121;1.71e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000407)|Lung(119;0.00277)|LUSC - Lung squamous cell carcinoma(224;0.00646)		CTGATCAACAGGAATTAGATT	0.378													23	213	---	---	---	---	PASS	C	234449396	C	C	234449396	3	2	161	1	0	0	0	0	1	0	0	0	17069	1000	35	4	2720	4	USP40	2	234449396	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	549870	234449396	8749977	91	56745										
UGT1A8	54576	broad.mit.edu	37	chr2	234526712	234526712	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caatggtttttttaacttatTtttttcgcattgcaggagtt	7	5	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr2:234526712T>G	uc002vup.2	+	1	422	c.359T>G	c.(358-360)TTT>TGT	p.F120C	UGT1A8_uc010zmv.1_Missense_Mutation_p.F120C	NM_019076	NP_061949	Q9HAW9	UD18_HUMAN	UDP glycosyltransferase 1 family, polypeptide A8	120					drug metabolic process|fatty acid metabolic process|flavone metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme inhibitor activity|fatty acid binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|steroid binding			ovary(2)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;2.56e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000482)|Lung(119;0.00404)|LUSC - Lung squamous cell carcinoma(224;0.008)		TTTAACTTATTTTTTTCGCAT	0.368													5	334	---	---	---	---	PASS	G	234526712	G	G	234526712	3	3	161	1	0	0	0	0	1	0	0	0	16948	1841	64	5	361	5	UGT1A8	2	234526712	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	77316	234526712	8672661	92	56746										
CNTN4	152330	broad.mit.edu	37	chr3	2787353	2787353	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aactcgtttggaacaattgtTagcagagaagcaaagcttca	9	7	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:2787353T>C	uc003bpc.2	+	5	551	c.330T>C	c.(328-330)GTT>GTC	p.V110V	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Silent_p.V110V	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	110	Ig-like C2-type 1.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		GAACAATTGTTAGCAGAGAAG	0.388													3	128	---	---	---	---	PASS	C	2787353	C	C	2787353	2	2	161	1	0	0	0	0	0	0	0	1	3643	1741	61	5		5	CNTN4	3	2787353	Silent	SNP	T	TCGA-66-2782-01A-01D-1522-08		2787353	195235077	93	56747										
ARPP21	10777	broad.mit.edu	37	chr3	35835264	35835264	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccaatcatgctacctaaccaGgcaggtcaagggtcactccc	8	15	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:35835264G>T	uc003cgb.2	+	20	2517	c.2253G>T	c.(2251-2253)CAG>CAT	p.Q751H	ARPP21_uc003cga.2_Missense_Mutation_p.Q732H|ARPP21_uc011axy.1_Missense_Mutation_p.Q752H|ARPP21_uc003cgf.2_Missense_Mutation_p.Q587H|ARPP21_uc003cgg.2_Missense_Mutation_p.Q274H	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	751	Gln-rich.					cytoplasm	nucleic acid binding	p.Q751Q(1)		ovary(2)|skin(1)	3						TACCTAACCAGGCAGGTCAAG	0.537													16	48	---	---	---	---	PASS	T	35835264	T	T	35835264	3	4	161	1	0	0	0	0	1	0	0	0	978	991	35	3	2336	3	ARPP21	3	35835264	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	33047911	35835264	162187166	94	56748										
PBRM1	55193	broad.mit.edu	37	chr3	52662986	52662986	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tatagcgtttggcattttcaAacattaaattcagatcacac	5	8	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:52662986A>G	uc003des.2	-	12	1379	c.1367T>C	c.(1366-1368)TTT>TCT	p.F456S	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.F456S|PBRM1_uc003der.2_Missense_Mutation_p.F424S|PBRM1_uc003det.2_Missense_Mutation_p.F456S|PBRM1_uc003deu.2_Missense_Mutation_p.F456S|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.F456S|PBRM1_uc010hmk.1_Missense_Mutation_p.F456S|PBRM1_uc003dey.2_Missense_Mutation_p.F456S|PBRM1_uc003dez.1_Missense_Mutation_p.F456S|PBRM1_uc003dfb.1_Missense_Mutation_p.F354S	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	456	Bromo 3.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		GGCATTTTCAAACATTAAATT	0.338			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								30	75	---	---	---	---	PASS	G	52662986	G	G	52662986	3	3	161	1	0	0	0	0	1	0	0	0	11491	14	1	5	3609	5	PBRM1	3	52662986	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	16827722	52662986	145359444	95	56749										
SPATA12	353324	broad.mit.edu	37	chr3	57107973	57107973	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccaaagtgagacctgtcagaGatatttacaagcagccatct	8	10	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:57107973G>C	uc003dij.1	+	2	926	c.251G>C	c.(250-252)AGA>ACA	p.R84T	ARHGEF3_uc003dih.2_Intron	NM_181727	NP_859078	Q7Z6I5	SPT12_HUMAN	spermatogenesis associated 12	84											0				KIRC - Kidney renal clear cell carcinoma(284;0.0111)|Kidney(284;0.0129)		ACCTGTCAGAGATATTTACAA	0.532													16	121	---	---	---	---	PASS	C	57107973	C	C	57107973	3	2	161	1	0	0	0	0	1	0	0	0	14998	942	33	2	253	2	SPATA12	3	57107973	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	4444987	57107973	140914457	96	56750										
MYH15	22989	broad.mit.edu	37	chr3	108147662	108147662	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttgggtgaggtcagctctctCcctttccatcttggctcgag	11	12	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:108147662C>T	uc003dxa.1	-	28	3496	c.3439G>A	c.(3439-3441)GAG>AAG	p.E1147K		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1147	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TCAGCTCTCTCCCTTTCCATC	0.428													69	203	---	---	---	---	PASS	T	108147662	T	T	108147662	3	4	161	1	0	0	0	0	1	0	0	0	10034	864	30	2	2461	2	MYH15	3	108147662	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	51039689	108147662	89874768	97	56751										
TRAT1	50852	broad.mit.edu	37	chr3	108572722	108572722	+	Nonstop_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctaagagagaacctataaacTagctggaccatgatctagtt	8	8	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:108572722T>C	uc003dxi.1	+	6	703	c.559T>C	c.(559-561)TAG>CAG	p.*187Q	TRAT1_uc010hpx.1_Nonstop_Mutation_p.*150Q	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	187					cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						ACCTATAAACTAGCTGGACCA	0.448													67	222	---	---	---	---	PASS	C	108572722	C	C	108572722	4	2	161	1	0	0	0	0	0	0	0	0	16463	1535	53	5	581	5	TRAT1	3	108572722	Nonstop_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	425060	108572722	89449708	98	56752										
DPPA2	151871	broad.mit.edu	37	chr3	109023503	109023503	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gagaagtctgccatggaccaCacaccacctgacgcctggaa	10	14	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:109023503C>G	uc003dxo.2	-	7	920	c.673G>C	c.(673-675)GTG>CTG	p.V225L		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	225						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						CCATGGACCACACACCACCTG	0.502													11	102	---	---	---	---	PASS	G	109023503	G	G	109023503	3	3	161	1	0	0	0	0	1	0	0	0	4734	478	17	4	231	4	DPPA2	3	109023503	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	450781	109023503	88998927	99	56753										
ATP6V1A	523	broad.mit.edu	37	chr3	113524309	113524309	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cagagtgacaataaaatcacAtggtccattattcgtgagca	8	8	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:113524309A>G	uc003eao.2	+	14	1764	c.1698A>G	c.(1696-1698)ACA>ACG	p.T566T	ATP6V1A_uc011bik.1_Silent_p.T533T	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	566					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						ATAAAATCACATGGTCCATTA	0.383													52	135	---	---	---	---	PASS	G	113524309	G	G	113524309	2	3	161	1	0	0	0	0	0	0	0	1	1177	204	8	5		5	ATP6V1A	3	113524309	Silent	SNP	A	TCGA-66-2782-01A-01D-1522-08	4500806	113524309	84498121	100	56754										
C3orf30	152405	broad.mit.edu	37	chr3	118865717	118865717	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agaccttctgtgcagattgaCagtgggtcatccgtcccatc	10	12	2	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:118865717C>A	uc003ecb.1	+	1	721	c.681C>A	c.(679-681)GAC>GAA	p.D227E	IGSF11_uc003eby.2_5'Flank|IGSF11_uc003ebz.2_5'Flank|IGSF11_uc010hqs.2_5'Flank|C3orf30_uc011biw.1_Missense_Mutation_p.D227E	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	227										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		TGCAGATTGACAGTGGGTCAT	0.493													51	144	---	---	---	---	PASS	A	118865717	A	A	118865717	3	1	161	1	0	0	0	0	1	0	0	0	2220	477	17	3	683	3	C3orf30	3	118865717	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	5341408	118865717	79156713	101	56755										
PLXNA1	5361	broad.mit.edu	37	chr3	126749164	126749164	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggggctcagccctgccgctgGccatcaagtacatgttcgac	12	14	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:126749164G>A	uc003ejg.2	+	28	5075	c.5071G>A	c.(5071-5073)GCC>ACC	p.A1691T	PLXNA1_uc003ejh.2_Missense_Mutation_p.A359T	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1714	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CCTGCCGCTGGCCATCAAGTA	0.602													20	120	---	---	---	---	PASS	A	126749164	A	A	126749164	3	1	161	1	0	0	0	0	1	0	0	0	12119	1203	42	3	5250	3	PLXNA1	3	126749164	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	7883447	126749164	71273266	102	56756										
RHO	6010	broad.mit.edu	37	chr3	129247867	129247867	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttcaccagcaccctctacacCtctctgcatggatacttcgt	5	16	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:129247867C>A	uc003emt.2	+	1	386	c.291C>A	c.(289-291)ACC>ACA	p.T97T		NM_000539	NP_000530	P08100	OPSD_HUMAN	rhodopsin	97	Helical; Name=2; (Potential).				protein-chromophore linkage|rhodopsin mediated signaling pathway	Golgi apparatus|integral to plasma membrane|photoreceptor inner segment membrane|photoreceptor outer segment membrane	G-protein coupled receptor activity|metal ion binding|photoreceptor activity|protein binding				0		all_neural(597;0.0227)|Myeloproliferative disorder(1037;0.0255)|Prostate(884;0.183)		GBM - Glioblastoma multiforme(114;2.58e-05)|Lung(219;0.0234)	Halothane(DB01159)	CCCTCTACACCTCTCTGCATG	0.587													50	182	---	---	---	---	PASS	A	129247867	A	A	129247867	2	1	161	1	0	0	0	0	0	0	0	1	13330	668	24	3		3	RHO	3	129247867	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	2498703	129247867	68774563	103	56757										
COL6A6	131873	broad.mit.edu	37	chr3	130290018	130290018	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aagtcctcattgtgatcaccGatggggaatcccatgatgct	10	10	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:130290018G>A	uc010htl.2	+	6	2789	c.2758G>A	c.(2758-2760)GAT>AAT	p.D920N		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	920	VWFA 5.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TGTGATCACCGATGGGGAATC	0.557													21	83	---	---	---	---	PASS	A	130290018	A	A	130290018	3	1	161	1	0	0	0	0	1	0	0	0	3703	1058	37	2	2780	2	COL6A6	3	130290018	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1042151	130290018	67732412	104	56758										
PRR23B	389151	broad.mit.edu	37	chr3	138738890	138738890	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtggagaacgtctctctgaaCtggggttgggggccagagca	17	8	2	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:138738890C>A	uc003esy.1	-	1	879	c.614G>T	c.(613-615)AGT>ATT	p.S205I		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	205	Pro-rich.									breast(1)	1						TCTCTCTGAACTGGGGTTGGG	0.622													9	87	---	---	---	---	PASS	A	138738890	A	A	138738890	3	1	161	1	0	0	0	0	1	0	0	0	12595	565	20	3	187	3	PRR23B	3	138738890	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	8448872	138738890	59283540	105	56759										
TNIK	23043	broad.mit.edu	37	chr3	170784011	170784011	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	acatagaaactttaacctttGagctcgcttatgcataaata	5	8	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:170784011G>C	uc003fhh.2	-	32	4309	c.3964C>G	c.(3964-3966)CAA>GAA	p.Q1322E	TNIK_uc003fhi.2_Missense_Mutation_p.Q1267E|TNIK_uc003fhj.2_Missense_Mutation_p.Q1293E|TNIK_uc003fhk.2_Missense_Mutation_p.Q1314E|TNIK_uc003fhl.2_Missense_Mutation_p.Q1238E|TNIK_uc003fhm.2_Missense_Mutation_p.Q1259E|TNIK_uc003fhn.2_Missense_Mutation_p.Q1285E|TNIK_uc003fho.2_Missense_Mutation_p.Q1230E|TNIK_uc003fhg.2_Missense_Mutation_p.Q500E	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	1322	CNH.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			TTTAACCTTTGAGCTCGCTTA	0.398													18	141	---	---	---	---	PASS	C	170784011	C	C	170784011	3	2	161	1	0	0	0	0	1	0	0	0	16310	1299	45	2	126	2	TNIK	3	170784011	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	32045121	170784011	27238419	106	56760										
MCCC1	56922	broad.mit.edu	37	chr3	182733285	182733285	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctcgactaaaggagtgtgtcTgttggcctgagcaccttctc	11	11	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr3:182733285T>C	uc003fle.2	-	19	2256	c.2119A>G	c.(2119-2121)AGA>GGA	p.R707G	MCCC1_uc010hxi.2_RNA|MCCC1_uc011bqo.1_RNA|MCCC1_uc003flf.2_Missense_Mutation_p.R590G|MCCC1_uc003flg.2_Missense_Mutation_p.R598G	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	707	Biotinyl-binding.				biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	GGAGTGTGTCTGTTGGCCTGA	0.443													97	408	---	---	---	---	PASS	C	182733285	C	C	182733285	3	2	161	1	0	0	0	0	1	0	0	0	9374	1588	55	5	62	5	MCCC1	3	182733285	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	11949274	182733285	15289145	107	56761										
TMEM175	84286	broad.mit.edu	37	chr4	941927	941927	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctgcctgtgacccacacggaGatctccccagaacaggtaac	9	15	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:941927G>T	uc003gbq.2	+	3	275	c.177G>T	c.(175-177)GAG>GAT	p.E59D	TMEM175_uc010ibl.1_Missense_Mutation_p.E59D|TMEM175_uc003gbp.1_5'UTR|TMEM175_uc003gbr.2_5'UTR|TMEM175_uc003gbu.2_Intron|TMEM175_uc003gbs.2_5'UTR|TMEM175_uc003gbt.2_5'UTR|TMEM175_uc003gbv.2_Intron	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	59						integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CCCACACGGAGATCTCCCCAG	0.607													10	105	---	---	---	---	PASS	T	941927	T	T	941927	3	4	161	1	0	0	0	0	1	0	0	0	16088	933	33	2	183	2	TMEM175	4	941927	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08		941927	190212349	108	56762										
FGFRL1	53834	broad.mit.edu	37	chr4	1019001	1019001	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cagccccccagcacttactgGgcccaggcccagttgctggc	11	18	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:1019001G>T	uc003gce.2	+	7	1542	c.1381G>T	c.(1381-1383)GGC>TGC	p.G461C	FGFRL1_uc003gcf.2_Missense_Mutation_p.G461C|FGFRL1_uc003gcg.2_Missense_Mutation_p.G461C|FGFRL1_uc010ibo.2_Missense_Mutation_p.G461C	NM_021923	NP_068742	Q8N441	FGRL1_HUMAN	fibroblast growth factor receptor-like 1	461	Cytoplasmic (Potential).				regulation of cell growth	integral to membrane|plasma membrane	fibroblast growth factor receptor activity|heparin binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GCACTTACTGGGCCCAGGCCC	0.498													8	18	---	---	---	---	PASS	T	1019001	T	T	1019001	3	4	161	1	0	0	0	0	1	0	0	0	5869	1232	43	3	1403	3	FGFRL1	4	1019001	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	77074	1019001	190135275	109	56763										
D4S234E	27065	broad.mit.edu	37	chr4	4419139	4419139	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agctgtccgagcaggagactGaagcggctgagaagtcagct	15	9	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:4419139G>A	uc011bvz.1	+	8	1816	c.535G>A	c.(535-537)GAA>AAA	p.E179K	D4S234E_uc011bwa.1_Missense_Mutation_p.E140K|D4S234E_uc003ghz.2_Missense_Mutation_p.E179K|D4S234E_uc003gia.2_Missense_Mutation_p.E179K|D4S234E_uc003gib.2_Missense_Mutation_p.E179K	NM_014392	NP_055207	P42857	NSG1_HUMAN	brain neuron cytoplasmic protein 1	179	Lumenal (Potential).				dopamine receptor signaling pathway	Golgi membrane|integral to membrane|nucleus	dopamine receptor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.166)		GCAGGAGACTGAAGCGGCTGA	0.478													14	118	---	---	---	---	PASS	A	4419139	A	A	4419139	3	1	161	1	0	0	0	0	1	0	0	0	4214	1291	45	2	549	2	D4S234E	4	4419139	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3400138	4419139	186735137	110	56764										
SH3TC1	54436	broad.mit.edu	37	chr4	8229143	8229143	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cggctgtgcagcaggaggctCaagctgtcccaggcccgggt	16	13	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:8229143C>G	uc003gkv.3	+	12	1823	c.1722C>G	c.(1720-1722)CTC>CTG	p.L574L	SH3TC1_uc003gkw.3_Silent_p.L498L|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	574	TPR 1.						binding			large_intestine(2)|pancreas(1)	3						GCAGGAGGCTCAAGCTGTCCC	0.692													3	120	---	---	---	---	PASS	G	8229143	G	G	8229143	2	3	161	1	0	0	0	0	0	0	0	1	14261	813	29	2		2	SH3TC1	4	8229143	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	3810004	8229143	182925133	111	56765										
WDR19	57728	broad.mit.edu	37	chr4	39274621	39274621	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttcatgttaaaaatggagatCacatgaaaggggctcgcatg	11	6	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:39274621C>G	uc003gtv.2	+	32	3659	c.3505C>G	c.(3505-3507)CAC>GAC	p.H1169D	WDR19_uc011byi.1_Missense_Mutation_p.H1009D|WDR19_uc003gtw.1_Missense_Mutation_p.H766D	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19	1169					cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1						AAATGGAGATCACATGAAAGG	0.423													4	15	---	---	---	---	PASS	G	39274621	G	G	39274621	3	3	161	1	0	0	0	0	1	0	0	0	17276	826	29	2	3631	2	WDR19	4	39274621	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	31045478	39274621	151879655	112	56766										
GRXCR1	389207	broad.mit.edu	37	chr4	42895560	42895560	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctgccagtgagaagggttttGgtacaagaagagtcaacatt	12	6	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:42895560G>C	uc003gwt.2	+	1	277	c.277G>C	c.(277-279)GGT>CGT	p.G93R		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	93					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						GAAGGGTTTTGGTACAAGAAG	0.448													27	159	---	---	---	---	PASS	C	42895560	C	C	42895560	3	2	161	1	0	0	0	0	1	0	0	0	6812	1348	47	4	279	4	GRXCR1	4	42895560	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3620939	42895560	148258716	113	56767										
TMPRSS11D	9407	broad.mit.edu	37	chr4	68704024	68704024	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gaaatttcatgacaacatccGctctcacaccactaccatct	3	15	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:68704024G>T	uc003hdq.2	-	5	406	c.341C>A	c.(340-342)GCG>GAG	p.A114E	LOC550112_uc003hdl.3_Intron|TMPRSS11D_uc011caj.1_5'UTR	NM_004262	NP_004253	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	114	SEA.|Extracellular (Potential).				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						GACAACATCCGCTCTCACACC	0.313													26	87	---	---	---	---	PASS	T	68704024	T	T	68704024	3	4	161	1	0	0	0	0	1	0	0	0	16238	1087	38	1	939	1	TMPRSS11D	4	68704024	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	25808464	68704024	122450252	114	56768										
PF4	5196	broad.mit.edu	37	chr4	74846927	74846927	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	taggcagctagtagctaactCtccaaaagtttcttaattat	6	8	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:74846927C>G	uc003hhi.2	-	3	345	c.300G>C	c.(298-300)GAG>GAC	p.E100D		NM_002619	NP_002610	P02776	PLF4_HUMAN	platelet factor 4 (chemokine (C-X-C motif)	100					cytokine-mediated signaling pathway|immune response|leukocyte chemotaxis|negative regulation of angiogenesis|negative regulation of apoptosis|negative regulation of cytolysis|negative regulation of megakaryocyte differentiation|negative regulation of MHC class II biosynthetic process|platelet activation|platelet degranulation|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|positive regulation of macrophage differentiation|positive regulation of tumor necrosis factor production	extracellular space|platelet alpha granule lumen	chemokine activity|heparin binding				0	Breast(15;0.00136)		all cancers(17;0.0034)|Lung(101;0.196)		Drotrecogin alfa(DB00055)	GTAGCTAACTCTCCAAAAGTT	0.398													11	64	---	---	---	---	PASS	G	74846927	G	G	74846927	3	3	161	1	0	0	0	0	1	0	0	0	11752	912	32	2	9	2	PF4	4	74846927	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	6142903	74846927	116307349	115	56769										
CCDC158	339965	broad.mit.edu	37	chr4	77305543	77305543	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttgaagctgatttcttaaatCctcctgggactgactctccc							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:77305543C>A	uc003hkb.3	-	5	577	c.424G>T	c.(424-426)GAT>TAT	p.D142Y	CCDC158_uc003hkd.2_Missense_Mutation_p.D142Y	NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	142	Potential.									skin(3)|ovary(2)|pancreas(1)	6						TTTCTTAAATCCTCCTGGGAC	0.353													32	135	---	---	---	---	PASS	A	77305543	A	A	77305543	3	1	161	1	0	0	0	0	1	0	0	0	2790	855	30	2	2997	2	CCDC158	4	77305543	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2458616	77305543	113848733	116	56770	1010	2								
CCDC158	339965	broad.mit.edu	37	chr4	77305544	77305544	+	Silent	SNP	C	T	T													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgaagctgatttcttaaatcCtcctgggactgactctccct							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:77305544C>T	uc003hkb.3	-	5	576	c.423G>A	c.(421-423)GAG>GAA	p.E141E	CCDC158_uc003hkd.2_Silent_p.E141E	NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	141	Potential.									skin(3)|ovary(2)|pancreas(1)	6						TTCTTAAATCCTCCTGGGACT	0.353													31	132	---	---	---	---	PASS	T	77305544	T	T	77305544	2	4	161	1	0	0	0	0	0	0	0	1	2790	680	24	3		3	CCDC158	4	77305544	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	77305544	113848732	117	56771	1010	2								
THAP9	79725	broad.mit.edu	37	chr4	83839905	83839905	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aatctgtttcttaaatatcaGagctaaaaatgttgcacaga	6	6	3	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:83839905G>C	uc003hnt.2	+	5	2659	c.2540G>C	c.(2539-2541)AGA>ACA	p.R847T	THAP9_uc003hns.1_Missense_Mutation_p.R703T|THAP9_uc003hnu.1_RNA|THAP9_uc003hnv.2_Missense_Mutation_p.R564T	NM_024672	NP_078948	Q9H5L6	THAP9_HUMAN	THAP domain containing 9	847							DNA binding|metal ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	5		Hepatocellular(203;0.114)				TTAAATATCAGAGCTAAAAAT	0.323													13	136	---	---	---	---	PASS	C	83839905	C	C	83839905	3	2	161	1	0	0	0	0	1	0	0	0	15848	942	33	2	2558	2	THAP9	4	83839905	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	6534361	83839905	107314371	118	56772										
WDFY3	23001	broad.mit.edu	37	chr4	85638146	85638146	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tagggccttgcctggctcctCtaggaataataggctcatgc	11	11	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:85638146C>G	uc003hpd.2	-	49	8186	c.7778G>C	c.(7777-7779)AGA>ACA	p.R2593T	WDFY3_uc003hpe.1_Missense_Mutation_p.R204T	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2593						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CCTGGCTCCTCTAGGAATAAT	0.418													41	175	---	---	---	---	PASS	G	85638146	G	G	85638146	3	3	161	1	0	0	0	0	1	0	0	0	17267	913	32	2	2882	2	WDFY3	4	85638146	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1798241	85638146	105516130	119	56773										
HERC5	51191	broad.mit.edu	37	chr4	89400577	89400577	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tttaaaacagccgtcatatgCcagttggattactgggatga	10	7	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:89400577C>A	uc003hrt.2	+	13	1809	c.1656C>A	c.(1654-1656)TGC>TGA	p.C552*	HERC5_uc011cdm.1_Nonsense_Mutation_p.C190*	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	552					innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		CCGTCATATGCCAGTTGGATT	0.418													36	121	---	---	---	---	PASS	A	89400577	A	A	89400577	4	1	161	1	0	0	0	0	0	1	0	0	7061	747	26	3	1706	3	HERC5	4	89400577	Nonsense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	3762431	89400577	101753699	120	56774										
HERC5	51191	broad.mit.edu	37	chr4	89427028	89427028	+	Nonstop_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caacaacagaggatttggctGaccagcttgcttgtccaaca	9	11	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:89427028G>T	uc003hrt.2	+	23	3227	c.3074G>T	c.(3073-3075)TGA>TTA	p.*1025L	HERC5_uc011cdm.1_Nonstop_Mutation_p.*663L	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	1025					innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		GGATTTGGCTGACCAGCTTgc	0.234													9	29	---	---	---	---	PASS	T	89427028	T	T	89427028	4	4	161	1	0	0	0	0	0	0	0	0	7061	1285	45	2	3164	2	HERC5	4	89427028	Nonstop_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	26451	89427028	101727248	121	56775										
GRID2	2895	broad.mit.edu	37	chr4	94690534	94690534	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggctgctggaattgtcctctCctgcttcatagccatgctgg	11	12	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:94690534C>G	uc011cdt.1	+	15	2792	c.2534C>G	c.(2533-2535)TCC>TGC	p.S845C	GRID2_uc011cdu.1_Missense_Mutation_p.S750C	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	845	Helical; (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	ATTGTCCTCTCCTGCTTCATA	0.498													9	123	---	---	---	---	PASS	G	94690534	G	G	94690534	3	3	161	1	0	0	0	0	1	0	0	0	6772	855	30	2	2592	2	GRID2	4	94690534	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	5263506	94690534	96463742	122	56776										
ANK2	287	broad.mit.edu	37	chr4	114120187	114120187	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aagggaaataccgctcttcaCattgcatctttggctggaca	9	10	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:114120187C>G	uc003ibe.3	+	4	406	c.306C>G	c.(304-306)CAC>CAG	p.H102Q	ANK2_uc003ibd.3_Missense_Mutation_p.H81Q|ANK2_uc003ibf.3_Missense_Mutation_p.H102Q|ANK2_uc003ibc.2_Missense_Mutation_p.H78Q|ANK2_uc011cgb.1_Missense_Mutation_p.H117Q	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	102	ANK 3.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CCGCTCTTCACATTGCATCTT	0.373													26	107	---	---	---	---	PASS	G	114120187	G	G	114120187	3	3	161	1	0	0	0	0	1	0	0	0	621	477	17	4	345	4	ANK2	4	114120187	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	19429653	114120187	77034089	123	56777										
NDST4	64579	broad.mit.edu	37	chr4	115858639	115858639	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggggccacagcatagcccatGttgattggtattccatgttc	11	10	0	1	rs139847624	byFrequency	TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:115858639G>C	uc003ibu.2	-	5	1921	c.1242C>G	c.(1240-1242)AAC>AAG	p.N414K	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	414	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		CATAGCCCATGTTGATTGGTA	0.418													27	87	---	---	---	---	PASS	C	115858639	C	C	115858639	3	2	161	1	0	0	0	0	1	0	0	0	10258	1368	48	4	1416	4	NDST4	4	115858639	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1738452	115858639	75295637	124	56778										
MYOZ2	51778	broad.mit.edu	37	chr4	120107146	120107146	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccacaccatttggaggttttGaaaaagcatcaagaatggtt	9	7	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:120107146G>T	uc003icp.3	+	6	799	c.586G>T	c.(586-588)GAA>TAA	p.E196*		NM_016599	NP_057683	Q9NPC6	MYOZ2_HUMAN	myozenin 2	196							protein phosphatase 2B binding				0						TGGAGGTTTTGAAAAAGCATC	0.323													52	131	---	---	---	---	PASS	T	120107146	T	T	120107146	4	4	161	1	0	0	0	0	0	1	0	0	10096	1291	45	2	604	2	MYOZ2	4	120107146	Nonsense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	4248507	120107146	71047130	125	56779										
TNIP3	79931	broad.mit.edu	37	chr4	122068292	122068292	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gattaagtctctctcgatccGatcgttcctttttgaagtct	7	10	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:122068292G>A	uc010ing.2	-	7	843	c.647C>T	c.(646-648)TCG>TTG	p.S216L	TNIP3_uc010inh.2_Missense_Mutation_p.S216L|TNIP3_uc011cgj.1_Missense_Mutation_p.S274L	NM_024873	NP_079149	Q96KP6	TNIP3_HUMAN	TNFAIP3 interacting protein 3	216	Potential.									ovary(1)	1						CTCTCGATCCGATCGTTCCTT	0.378													28	223	---	---	---	---	PASS	A	122068292	A	A	122068292	3	1	161	1	0	0	0	0	1	0	0	0	16313	1059	37	2	350	2	TNIP3	4	122068292	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1961146	122068292	69085984	126	56780										
FAT4	79633	broad.mit.edu	37	chr4	126240599	126240599	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctttctgagtcagaacctgtGaattctcgattctttaaagt	7	8	4	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:126240599G>T	uc003ifj.3	+	1	3033	c.3033G>T	c.(3031-3033)GTG>GTT	p.V1011V		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1011	Cadherin 10.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAGAACCTGTGAATTCTCGAT	0.388													73	246	---	---	---	---	PASS	T	126240599	T	T	126240599	2	4	161	1	0	0	0	0	0	0	0	1	5692	1277	45	2		2	FAT4	4	126240599	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	4172307	126240599	64913677	127	56781										
PCDH10	57575	broad.mit.edu	37	chr4	134072210	134072210	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gagcttttcggactctcgccGcgcactggcagactggaggt	14	12	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:134072210G>T	uc003iha.2	+	1	1741	c.915G>T	c.(913-915)CCG>CCT	p.P305P	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.P305P	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	305	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GACTCTCGCCGCGCACTGGCA	0.637													24	75	---	---	---	---	PASS	T	134072210	T	T	134072210	2	4	161	1	0	0	0	0	0	0	0	1	11507	1074	38	1		1	PCDH10	4	134072210	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	7831611	134072210	57082066	128	56782										
PCDH10	57575	broad.mit.edu	37	chr4	134084205	134084205	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gatcggtgctggatgccttcTtttgtcccttctgatggacg	12	10	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:134084205T>C	uc003iha.2	+	4	3697	c.2871T>C	c.(2869-2871)TCT>TCC	p.S957S		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	957	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GGATGCCTTCTTTTGTCCCTT	0.493													33	148	---	---	---	---	PASS	C	134084205	C	C	134084205	2	2	161	1	0	0	0	0	0	0	0	1	11507	1596	56	5		5	PCDH10	4	134084205	Silent	SNP	T	TCGA-66-2782-01A-01D-1522-08	11995	134084205	57070071	129	56783										
FGB	2244	broad.mit.edu	37	chr4	155488788	155488788	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tactcctcagaactggaaaaGcaccaattatatatagatga	6	8	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:155488788G>T	uc003ioa.3	+	4	573	c.534G>T	c.(532-534)AAG>AAT	p.K178N	FGB_uc003iob.3_Missense_Mutation_p.K175N|FGB_uc010ipv.2_Missense_Mutation_p.K116N|FGB_uc010ipw.2_Missense_Mutation_p.K175N|FGB_uc003ioc.3_5'UTR	NM_005141	NP_005132	P02675	FIBB_HUMAN	fibrinogen, beta chain preproprotein	178	Potential.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen|soluble fraction	chaperone binding|eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	AACTGGAAAAGCACCAATTAT	0.333													29	171	---	---	---	---	PASS	T	155488788	T	T	155488788	3	4	161	1	0	0	0	0	1	0	0	0	5831	962	34	3	548	3	FGB	4	155488788	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	21404583	155488788	35665488	130	56784										
GRIA2	2891	broad.mit.edu	37	chr4	158284166	158284166	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	acttataaggaaggttacaaCgtatatggcatcgaaagtgt	10	5	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:158284166C>T	uc003ipm.3	+	15	3081	c.2622C>T	c.(2620-2622)AAC>AAT	p.N874N	GRIA2_uc011cit.1_Silent_p.N827N|GRIA2_uc003ipl.3_Silent_p.N874N|GRIA2_uc003ipk.3_Silent_p.N827N|GRIA2_uc011civ.1_RNA|GRIA2_uc011ciw.1_RNA|GRIA2_uc011cix.1_3'UTR|GRIA2_uc011ciy.1_3'UTR|GRIA2_uc011ciz.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	874	Cytoplasmic (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	AAGGTTACAACGTATATGGCA	0.408													65	261	---	---	---	---	PASS	T	158284166	T	T	158284166	2	4	161	1	0	0	0	0	0	0	0	1	6768	535	19	1		1	GRIA2	4	158284166	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	2795378	158284166	32870110	131	56785										
NAF1	92345	broad.mit.edu	37	chr4	164050477	164050477	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gctatgagcattccaattctGatgtacttcagtaaaatctt	6	8	3	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:164050477G>C	uc003iqj.2	-	8	1251	c.1057C>G	c.(1057-1059)CAG>GAG	p.Q353E	NAF1_uc010iqw.1_Intron	NM_138386	NP_612395	Q96HR8	NAF1_HUMAN	nuclear assembly factor 1 homolog isoform a	353					rRNA processing|snRNA pseudouridine synthesis	cytoplasm|nucleus|small nucleolar ribonucleoprotein complex	protein binding|snoRNA binding			ovary(2)	2	all_hematologic(180;0.166)	Prostate(90;0.109)				TTCCAATTCTGATGTACTTCA	0.368													14	99	---	---	---	---	PASS	C	164050477	C	C	164050477	3	2	161	1	0	0	0	0	1	0	0	0	10140	1299	45	2	572	2	NAF1	4	164050477	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	5766311	164050477	27103799	132	56786										
DDX60	55601	broad.mit.edu	37	chr4	169197313	169197313	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atcacctgaacagctatactTaaatctttcgtggttttacc	5	10	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr4:169197313T>A	uc003irp.2	-	15	2290	c.1998A>T	c.(1996-1998)TTA>TTT	p.L666F		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	666							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		CAGCTATACTTAAATCTTTCG	0.318													31	120	---	---	---	---	PASS	A	169197313	A	A	169197313	3	1	161	1	0	0	0	0	1	0	0	0	4378	1751	61	5	3236	5	DDX60	4	169197313	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	5146836	169197313	21956963	133	56787										
ADAMTS16	170690	broad.mit.edu	37	chr5	5200358	5200358	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctcctggtcaccctgcagccGccagtatctacacaaatttc	6	16	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:5200358G>A	uc003jdl.2	+	9	1565	c.1427G>A	c.(1426-1428)CGC>CAC	p.R476H	ADAMTS16_uc003jdk.1_Missense_Mutation_p.R476H|ADAMTS16_uc003jdj.1_Missense_Mutation_p.R476H	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	476	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CCCTGCAGCCGCCAGTATCTA	0.512													32	90	---	---	---	---	PASS	A	5200358	A	A	5200358	3	1	161	1	0	0	0	0	1	0	0	0	261	1087	38	1	1461	1	ADAMTS16	5	5200358	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08		5200358	175714902	134	56788										
CTNND2	1501	broad.mit.edu	37	chr5	11397307	11397307	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aagtgcactctgggagagcaGgctgggccctgcattgaaag	15	9	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:11397307G>T	uc003jfa.1	-	6	593	c.448C>A	c.(448-450)CTG>ATG	p.L150M	CTNND2_uc010itt.2_Missense_Mutation_p.L59M|CTNND2_uc011cmy.1_Intron|CTNND2_uc011cmz.1_Translation_Start_Site|CTNND2_uc010itu.1_Intron	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	150					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						TGGGAGAGCAGGCTGGGCCCT	0.488													21	71	---	---	---	---	PASS	T	11397307	T	T	11397307	3	4	161	1	0	0	0	0	1	0	0	0	4020	991	35	3	3297	3	CTNND2	5	11397307	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	6196949	11397307	169517953	135	56789										
ANKH	56172	broad.mit.edu	37	chr5	14871536	14871536	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atcaggggccagtagtgcgtGagcgccgggaatttcaccat	14	10	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:14871536G>C	uc003jfm.3	-	1	352	c.21C>G	c.(19-21)CTC>CTG	p.L7L		NM_054027	NP_473368	Q9HCJ1	ANKH_HUMAN	progressive ankylosis protein	7	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						AGTAGTGCGTGAGCGCCGGGA	0.602													7	34	---	---	---	---	PASS	C	14871536	C	C	14871536	2	2	161	1	0	0	0	0	0	0	0	1	627	1277	45	2		2	ANKH	5	14871536	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	3474229	14871536	166043724	136	56790										
MYO10	4651	broad.mit.edu	37	chr5	16758264	16758264	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctgtaggccgccgatgtttgCttccacatttcaaggtatcc	9	12	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:16758264C>T	uc003jft.3	-	18	2279	c.1811G>A	c.(1810-1812)AGC>AAC	p.S604N	MYO10_uc010itx.2_Missense_Mutation_p.S227N	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	604	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CCGATGTTTGCTTCCACATTT	0.443													39	109	---	---	---	---	PASS	T	16758264	T	T	16758264	3	4	161	1	0	0	0	0	1	0	0	0	10062	797	28	3	4461	3	MYO10	5	16758264	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1886728	16758264	164156996	137	56791										
CDH9	1007	broad.mit.edu	37	chr5	26915968	26915968	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	catctataacaaatagactgCcagccccatctcctgttagt							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:26915968C>A	uc003jgs.1	-	3	462	c.293G>T	c.(292-294)GGC>GTC	p.G98V	CDH9_uc010iug.2_Missense_Mutation_p.G98V	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	98	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.G98C(1)		ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						AAATAGACTGCCAGCCCCATC	0.363													65	275	---	---	---	---	PASS	A	26915968	A	A	26915968	3	1	161	1	0	0	0	0	1	0	0	0	3117	739	26	3	2116	3	CDH9	5	26915968	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	10157704	26915968	153999292	138	56792	1011	2								
CDH9	1007	broad.mit.edu	37	chr5	26915969	26915969	+	Missense_Mutation	SNP	C	G	G													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atctataacaaatagactgcCagccccatctcctgttagta							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:26915969C>G	uc003jgs.1	-	3	461	c.292G>C	c.(292-294)GGC>CGC	p.G98R	CDH9_uc010iug.2_Missense_Mutation_p.G98R	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	98	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.G98C(1)		ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						AATAGACTGCCAGCCCCATCT	0.363													66	275	---	---	---	---	PASS	G	26915969	G	G	26915969	3	3	161	1	0	0	0	0	1	0	0	0	3117	594	21	4	2117	4	CDH9	5	26915969	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	26915969	153999291	139	56793	1011	2								
RXFP3	51289	broad.mit.edu	37	chr5	33937066	33937066	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cagcggcggggcagagagcgCggacacagaggcccgggtgc	20	12	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:33937066C>T	uc003jic.1	+	1	578	c.221C>T	c.(220-222)GCG>GTG	p.A74V		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	74	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						GCAGAGAGCGCGGACACAGAG	0.692													13	83	---	---	---	---	PASS	T	33937066	T	T	33937066	3	4	161	1	0	0	0	0	1	0	0	0	13761	768	27	1	223	1	RXFP3	5	33937066	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	7021097	33937066	146978194	140	56794										
RAI14	26064	broad.mit.edu	37	chr5	34818921	34818921	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggctgagatcagttctatacGagaaaacaaagacagactaa	9	7	2	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:34818921G>A	uc003jir.2	+	13	1155	c.959G>A	c.(958-960)CGA>CAA	p.R320Q	RAI14_uc010iur.2_Missense_Mutation_p.R291Q|RAI14_uc011coj.1_Missense_Mutation_p.R320Q|RAI14_uc010ius.1_Missense_Mutation_p.R249Q|RAI14_uc003jis.2_Missense_Mutation_p.R323Q|RAI14_uc003jit.2_Missense_Mutation_p.R320Q|RAI14_uc011cok.1_Missense_Mutation_p.R312Q	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	320						cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					AGTTCTATACGAGAAAACAAA	0.328													22	150	---	---	---	---	PASS	A	34818921	A	A	34818921	3	1	161	1	0	0	0	0	1	0	0	0	13008	1058	37	2	1070	2	RAI14	5	34818921	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	881855	34818921	146096339	141	56795										
HEATR7B2	133558	broad.mit.edu	37	chr5	41065440	41065440	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	attcccgctataccatagctGgttgccaattcagccagggc	9	13	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:41065440G>T	uc003jmj.3	-	4	844	c.354C>A	c.(352-354)ACC>ACA	p.T118T		NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	118							binding			ovary(6)|central_nervous_system(2)	8						TACCATAGCTGGTTGCCAATT	0.408													10	43	---	---	---	---	PASS	T	41065440	T	T	41065440	2	4	161	1	0	0	0	0	0	0	0	1	7035	1335	47	3		3	HEATR7B2	5	41065440	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	6246519	41065440	139849820	142	56796										
C6	729	broad.mit.edu	37	chr5	41160380	41160380	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cactggcaaggatcgaacttGgctgcatactcttgcaaagc	10	11	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:41160380G>A	uc003jmk.2	-	11	1758	c.1548C>T	c.(1546-1548)GCC>GCT	p.A516A	C6_uc003jml.1_Silent_p.A516A	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	516	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				GATCGAACTTGGCTGCATACT	0.517													54	147	---	---	---	---	PASS	A	41160380	A	A	41160380	2	1	161	1	0	0	0	0	0	0	0	1	2315	1335	47	3		3	C6	5	41160380	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	94940	41160380	139754880	143	56797										
HTR1A	3350	broad.mit.edu	37	chr5	63256368	63256368	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	taaatgacggggttaagcagAgagttggagtagcccagcca	14	7	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:63256368A>T	uc011cqt.1	-	1	1179	c.1179T>A	c.(1177-1179)TCT>TCA	p.S393S		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	393	Helical; Name=7; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	GGTTAAGCAGAGAGTTGGAGT	0.502													39	411	---	---	---	---	PASS	T	63256368	T	T	63256368	2	4	161	1	0	0	0	0	0	0	0	1	7436	291	11	5		5	HTR1A	5	63256368	Silent	SNP	A	TCGA-66-2782-01A-01D-1522-08	22095988	63256368	117658892	144	56798										
SLC30A5	64924	broad.mit.edu	37	chr5	68419159	68419159	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	attgctatattaatatttctCagtgttgttccactgattaa	5	6	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:68419159C>A	uc003jvh.2	+	14	2106	c.1905C>A	c.(1903-1905)CTC>CTA	p.L635L	SLC30A5_uc003jvj.2_RNA|SLC30A5_uc003jvk.2_Silent_p.L364L|SLC30A5_uc003jvi.2_Silent_p.L464L	NM_022902	NP_075053	Q8TAD4	ZNT5_HUMAN	solute carrier family 30 (zinc transporter),	635	Helical; (Potential).				cellular zinc ion homeostasis|cobalt ion transport|regulation of proton transport|response to zinc ion	apical plasma membrane|Golgi apparatus|integral to plasma membrane|membrane fraction|secretory granule membrane	zinc ion binding|zinc ion transmembrane transporter activity			central_nervous_system(1)	1		Lung NSC(167;0.000986)|Prostate(74;0.00809)|Colorectal(97;0.0508)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		TAATATTTCTCAGTGTTGTTC	0.393													21	135	---	---	---	---	PASS	A	68419159	A	A	68419159	2	1	161	1	0	0	0	0	0	0	0	1	14558	813	29	2		2	SLC30A5	5	68419159	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	5162791	68419159	112496101	145	56799										
COL4A3BP	10087	broad.mit.edu	37	chr5	74696088	74696088	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	catctccagagggcaaggatGtaggccaatgtaatctcacc	10	11	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:74696088G>A	uc011csu.1	-	10	1474	c.1052C>T	c.(1051-1053)ACA>ATA	p.T351I	COL4A3BP_uc003kds.2_Missense_Mutation_p.T351I|COL4A3BP_uc003kdt.2_Missense_Mutation_p.T479I|COL4A3BP_uc003kdu.2_Missense_Mutation_p.T351I	NM_005713	NP_005704	Q9Y5P4	C43BP_HUMAN	alpha 3 type IV collagen binding protein isoform	351					ER to Golgi ceramide transport|immune response	cytosol|endoplasmic reticulum membrane|Golgi apparatus	ceramide binding|phosphatidylinositol-4-phosphate binding|protein binding|protein kinase activity			skin(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;1e-53)		GGGCAAGGATGTAGGCCAATG	0.358													15	37	---	---	---	---	PASS	A	74696088	A	A	74696088	3	1	161	1	0	0	0	0	1	0	0	0	3692	1377	48	3	854	3	COL4A3BP	5	74696088	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	6276929	74696088	106219172	146	56800										
PAPD4	167153	broad.mit.edu	37	chr5	78952809	78952809	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gaacccatccttccatccctCcaaaaaatttacccagtaag	3	15	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:78952809C>G	uc010jae.1	+	12	1474	c.1056C>G	c.(1054-1056)CTC>CTG	p.L352L	PAPD4_uc003kgb.2_Silent_p.L352L|PAPD4_uc010jaf.1_Silent_p.L352L|PAPD4_uc003kga.2_Silent_p.L348L|PAPD4_uc003kfz.2_Silent_p.L309L	NM_001114393	NP_001107865	Q6PIY7	GLD2_HUMAN	PAP associated domain containing 4	352					histone mRNA catabolic process|mRNA processing|RNA polyadenylation	cytoplasm	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity			ovary(1)	1		Lung NSC(167;0.00293)|all_lung(232;0.00323)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;8.61e-47)|Epithelial(54;1.32e-41)|all cancers(79;2.45e-36)		TTCCATCCCTCCAAAAAATTT	0.294													24	130	---	---	---	---	PASS	G	78952809	G	G	78952809	2	3	161	1	0	0	0	0	0	0	0	1	11424	842	30	2		2	PAPD4	5	78952809	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	4256721	78952809	101962451	147	56801										
GPR98	84059	broad.mit.edu	37	chr5	90024634	90024634	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aaactcccttttattcagatGgtctggcagtgggtttatta	9	7	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:90024634G>T	uc003kju.2	+	49	10406	c.10310G>T	c.(10309-10311)TGG>TTG	p.W3437L	GPR98_uc003kjt.2_Missense_Mutation_p.W1143L|GPR98_uc003kjv.2_Missense_Mutation_p.W1037L	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3437	EAR 4.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TTATTCAGATGGTCTGGCAGT	0.473													50	62	---	---	---	---	PASS	T	90024634	T	T	90024634	3	4	161	1	0	0	0	0	1	0	0	0	6721	1357	47	3	10504	3	GPR98	5	90024634	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	11071825	90024634	90890626	148	56802										
FER	2241	broad.mit.edu	37	chr5	108207797	108207797	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttgccatgctttactagaacAacggctgctaaagaacaaga	8	9	0	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:108207797A>T	uc003kop.1	+	8	1191	c.807A>T	c.(805-807)ACA>ACT	p.T269T	FER_uc011cvf.1_RNA|FER_uc011cvg.1_Silent_p.T94T	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	269	Important for interaction with membranes containing phosphoinositides.				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)		TTACTAGAACAACGGCTGCTA	0.303													14	35	---	---	---	---	PASS	T	108207797	T	T	108207797	2	4	161	1	0	0	0	0	0	0	0	1	5813	117	5	5		5	FER	5	108207797	Silent	SNP	A	TCGA-66-2782-01A-01D-1522-08	18183163	108207797	72707463	149	56803										
MYOT	9499	broad.mit.edu	37	chr5	137222564	137222564	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttatttcagcttatatcaagAtaacactggaagagttactt	6	6	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:137222564A>G	uc011cye.1	+	9	1219	c.1202A>G	c.(1201-1203)GAT>GGT	p.D401G	PKD2L2_uc010jep.1_5'Flank|PKD2L2_uc003lbw.1_5'Flank|PKD2L2_uc003lbx.2_5'Flank|PKD2L2_uc003lby.2_5'Flank|MYOT_uc003lbv.2_Missense_Mutation_p.D401G|MYOT_uc011cyg.1_Missense_Mutation_p.D217G|MYOT_uc011cyh.1_Missense_Mutation_p.D286G	NM_001135940	NP_001129412	Q9UBF9	MYOTI_HUMAN	myotilin isoform b	401	Necessary for interaction with ACTA1.|Ig-like C2-type 2.|Necessary for interaction with FLNC.				muscle contraction	actin cytoskeleton|sarcolemma|sarcomere	actin binding|structural constituent of muscle			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TTATATCAAGATAACACTGGA	0.343													19	57	---	---	---	---	PASS	G	137222564	G	G	137222564	3	3	161	1	0	0	0	0	1	0	0	0	10094	333	12	5	1232	5	MYOT	5	137222564	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	29014767	137222564	43692696	150	56804										
PCDHB12	56124	broad.mit.edu	37	chr5	140590583	140590583	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cctcagtgtcgtcgctcttcCtcttctcggtgctcctgttc	8	16	4	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:140590583C>T	uc003liz.2	+	1	2293	c.2104C>T	c.(2104-2106)CTC>TTC	p.L702F	PCDHB12_uc011dak.1_Missense_Mutation_p.L365F|PCDHB13_uc003lja.1_5'Flank	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	702	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTCGCTCTTCCTCTTCTCGGT	0.706													53	126	---	---	---	---	PASS	T	140590583	T	T	140590583	3	4	161	1	0	0	0	0	1	0	0	0	11537	681	24	3	2106	3	PCDHB12	5	140590583	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	3368019	140590583	40324677	151	56805										
PCDHGA3	56112	broad.mit.edu	37	chr5	140723766	140723766	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctaacgacctggggctagagCcccgggagctggcggagcgc							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:140723766C>A	uc003ljm.1	+	1	166	c.166C>A	c.(166-168)CCC>ACC	p.P56T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Missense_Mutation_p.P56T	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	56	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGGCTAGAGCCCCGGGAGCT	0.607											OREG0016855	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	59	140	---	---	---	---	PASS	A	140723766	A	A	140723766	3	1	161	1	0	0	0	0	1	0	0	0	11555	739	26	3	168	3	PCDHGA3	5	140723766	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	133183	140723766	40191494	152	56806	1012	2								
PCDHGA3	56112	broad.mit.edu	37	chr5	140723767	140723767	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	taacgacctggggctagagcCccgggagctggcggagcgcg							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:140723767C>A	uc003ljm.1	+	1	167	c.167C>A	c.(166-168)CCC>CAC	p.P56H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Missense_Mutation_p.P56H	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	56	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCTAGAGCCCCGGGAGCTG	0.607											OREG0016855	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	59	139	---	---	---	---	PASS	A	140723767	A	A	140723767	3	1	161	1	0	0	0	0	1	0	0	0	11555	623	22	3	169	3	PCDHGA3	5	140723767	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	140723767	40191493	153	56807	1012	2								
HTR4	3360	broad.mit.edu	37	chr5	147889143	147889143	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gaggaaggcacgtctaaaagActtattcaagaaggcgtaga	12	6	2	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:147889143A>G	uc003lpn.2	-	6	1116	c.952T>C	c.(952-954)TCT>CCT	p.S318P	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Missense_Mutation_p.S318P|HTR4_uc003lpj.1_Missense_Mutation_p.S318P|HTR4_uc003lpk.2_Missense_Mutation_p.S318P|HTR4_uc011dby.1_Missense_Mutation_p.S318P|HTR4_uc003lpl.2_Missense_Mutation_p.S332P|HTR4_uc003lpm.2_Missense_Mutation_p.S318P|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Missense_Mutation_p.S318P	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	318	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	CGTCTAAAAGACTTATTCAAG	0.502													6	83	---	---	---	---	PASS	G	147889143	G	G	147889143	3	3	161	1	0	0	0	0	1	0	0	0	7449	275	10	5	518	5	HTR4	5	147889143	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	7165376	147889143	33026117	154	56808										
SH3TC2	79628	broad.mit.edu	37	chr5	148411217	148411217	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agggccaacagggagcatctCtcctcatcactgagaaaggc	11	12	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:148411217C>G	uc003lpu.2	-	9	1187	c.1035G>C	c.(1033-1035)GAG>GAC	p.E345D	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_5'UTR|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_5'UTR|SH3TC2_uc010jgx.2_Missense_Mutation_p.E338D|SH3TC2_uc003lpv.1_5'UTR|SH3TC2_uc011dbz.1_Missense_Mutation_p.E230D	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	345							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGAGCATCTCTCCTCATCAC	0.522													25	56	---	---	---	---	PASS	G	148411217	G	G	148411217	3	3	161	1	0	0	0	0	1	0	0	0	14262	912	32	2	2867	2	SH3TC2	5	148411217	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	522074	148411217	32504043	155	56809										
DOCK2	1794	broad.mit.edu	37	chr5	169138961	169138961	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggctgtccctattgaagacaTgcagaggatccatctgcgat	11	10	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:169138961T>A	uc003maf.2	+	16	1585	c.1505T>A	c.(1504-1506)ATG>AAG	p.M502K	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.C29S|DOCK2_uc010jjl.1_Missense_Mutation_p.M20K	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	502	DHR-1.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATTGAAGACATGCAGAGGATC	0.517													74	122	---	---	---	---	PASS	A	169138961	A	A	169138961	3	1	161	1	0	0	0	0	1	0	0	0	4687	1464	51	5	1567	5	DOCK2	5	169138961	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	20727744	169138961	11776299	156	56810										
BTNL9	153579	broad.mit.edu	37	chr5	180482998	180482998	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggttgcttcagactggagacGggctgaaggccaggctggtg	18	8	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr5:180482998G>T	uc003mmt.2	+	9	1169	c.938G>T	c.(937-939)CGG>CTG	p.R313L		NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	313	Cytoplasmic (Potential).|B30.2/SPRY.|Potential.					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GACTGGAGACGGGCTGAAGGC	0.537													61	143	---	---	---	---	PASS	T	180482998	T	T	180482998	3	4	161	1	0	0	0	0	1	0	0	0	1568	1116	39	1	968	1	BTNL9	5	180482998	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	11344037	180482998	432262	157	56811										
HIVEP1	3096	broad.mit.edu	37	chr6	12124417	12124417	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cccagtgtgaatgcagtgccAtatcaggggcctcagctcac	11	13	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:12124417A>G	uc003nac.2	+	4	4568	c.4389A>G	c.(4387-4389)CCA>CCG	p.P1463P	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1463					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				ATGCAGTGCCATATCAGGGGC	0.438													35	129	---	---	---	---	PASS	G	12124417	G	G	12124417	2	3	161	1	0	0	0	0	0	0	0	1	7186	204	8	5		5	HIVEP1	6	12124417	Silent	SNP	A	TCGA-66-2782-01A-01D-1522-08		12124417	158990650	158	56812										
PHACTR1	221692	broad.mit.edu	37	chr6	12718981	12718981	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtttggaacatcaaggatggAttatcccaaaatggattatt	9	5	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:12718981A>G	uc010jpc.2	+	3	337	c.5A>G	c.(4-6)GAT>GGT	p.D2G	PHACTR1_uc011dir.1_Missense_Mutation_p.D2G|PHACTR1_uc003nag.1_Missense_Mutation_p.D2G|PHACTR1_uc003nah.1_Missense_Mutation_p.D2G|PHACTR1_uc003nai.2_Missense_Mutation_p.D2G	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	2						cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			TCAAGGATGGATTATCCCAAA	0.373													2	11	---	---	---	---	PASS	G	12718981	G	G	12718981	3	3	161	1	0	0	0	0	1	0	0	0	11809	333	12	5	7	5	PHACTR1	6	12718981	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	594564	12718981	158396086	159	56813										
NRSN1	140767	broad.mit.edu	37	chr6	24145808	24145808	+	Silent	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcaggtacagtttttgtgatCctcggattgactgttctggc							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:24145808C>A	uc010jpq.1	+	4	459	c.222C>A	c.(220-222)ATC>ATA	p.I74I		NM_080723	NP_542454	Q8IZ57	NRSN1_HUMAN	neurensin 1	74	Helical; (Potential).				nervous system development	growth cone|integral to membrane|neuronal cell body|transport vesicle					0						TTTTTGTGATCCTCGGATTGA	0.512													22	163	---	---	---	---	PASS	A	24145808	A	A	24145808	2	1	161	1	0	0	0	0	0	0	0	1	10662	845	30	2		2	NRSN1	6	24145808	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	11426827	24145808	146969259	160	56814	1013	2								
NRSN1	140767	broad.mit.edu	37	chr6	24145809	24145809	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caggtacagtttttgtgatcCtcggattgactgttctggca							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:24145809C>A	uc010jpq.1	+	4	460	c.223C>A	c.(223-225)CTC>ATC	p.L75I		NM_080723	NP_542454	Q8IZ57	NRSN1_HUMAN	neurensin 1	75	Helical; (Potential).				nervous system development	growth cone|integral to membrane|neuronal cell body|transport vesicle					0						TTTTGTGATCCTCGGATTGAC	0.512													20	165	---	---	---	---	PASS	A	24145809	A	A	24145809	3	1	161	1	0	0	0	0	1	0	0	0	10662	681	24	3	229	3	NRSN1	6	24145809	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	24145809	146969258	161	56815	1013	2								
PRSS16	10279	broad.mit.edu	37	chr6	27215710	27215710	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	attcagcagtttcaggagagCtctgcccagggcctgggcct	13	12	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:27215710C>A	uc003nja.2	+	2	132	c.120C>A	c.(118-120)AGC>AGA	p.S40R	PRSS16_uc011dkt.1_RNA|PRSS16_uc003njb.2_Missense_Mutation_p.S40R|PRSS16_uc010jqq.1_5'Flank|PRSS16_uc010jqr.1_5'Flank|PRSS16_uc003njc.1_5'Flank	NM_005865	NP_005856	Q9NQE7	TSSP_HUMAN	protease, serine, 16 precursor	40					protein catabolic process|proteolysis	cytoplasmic membrane-bounded vesicle	serine-type peptidase activity			ovary(2)|central_nervous_system(2)|skin(1)	5						TTCAGGAGAGCTCTGCCCAGG	0.637													12	74	---	---	---	---	PASS	A	27215710	A	A	27215710	3	1	161	1	0	0	0	0	1	0	0	0	12616	796	28	3	126	3	PRSS16	6	27215710	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	3069901	27215710	143899357	162	56816										
ZNF165	7718	broad.mit.edu	37	chr6	28056825	28056825	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agtggagataaaactcatcaGtgtaatgaatgtgggaaagc	12	4	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:28056825G>T	uc003nkg.2	+	5	2119	c.1035G>T	c.(1033-1035)CAG>CAT	p.Q345H	ZNF165_uc003nkh.2_Missense_Mutation_p.Q345H|ZNF165_uc003nki.3_Missense_Mutation_p.Q345H|ZSCAN12P1_uc003nkj.3_5'Flank	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	345	C2H2-type 2.				viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AAACTCATCAGTGTAATGAAT	0.388													10	85	---	---	---	---	PASS	T	28056825	T	T	28056825	3	4	161	1	0	0	0	0	1	0	0	0	17737	1020	36	3	1045	3	ZNF165	6	28056825	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	841115	28056825	143058242	163	56817										
ZNF323	64288	broad.mit.edu	37	chr6	28294523	28294523	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tacaagtttctctgtacttaGaatccaaagatacatctctt	4	9	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:28294523G>C	uc003nla.2	-	4	1041	c.641C>G	c.(640-642)TCT>TGT	p.S214C	ZNF323_uc003nld.2_Missense_Mutation_p.S214C|ZNF323_uc010jra.2_Missense_Mutation_p.S214C|ZNF323_uc003nlb.2_Missense_Mutation_p.S55C|ZNF323_uc010jrb.2_Missense_Mutation_p.S55C|ZNF323_uc003nlc.2_Missense_Mutation_p.S214C	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	214					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TCTGTACTTAGAATCCAAAGA	0.433													38	169	---	---	---	---	PASS	C	28294523	C	C	28294523	3	2	161	1	0	0	0	0	1	0	0	0	17840	942	33	2	583	2	ZNF323	6	28294523	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	237698	28294523	142820544	164	56818										
ZNF323	64288	broad.mit.edu	37	chr6	28295160	28295160	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggacctgtcaaaatccttacCttgttcttgaaattggtgga	9	8	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:28295160C>A	uc003nla.2	-	3	932	c.532G>T	c.(532-534)GAT>TAT	p.D178Y	ZNF323_uc003nld.2_Missense_Mutation_p.D178Y|ZNF323_uc010jra.2_Missense_Mutation_p.D178Y|ZNF323_uc003nlb.2_Missense_Mutation_p.D19Y|ZNF323_uc010jrb.2_Missense_Mutation_p.D19Y|ZNF323_uc003nlc.2_Missense_Mutation_p.D178Y	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	178					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						AAATCCTTACCTTGTTCTTGA	0.328													29	193	---	---	---	---	PASS	A	28295160	A	A	28295160	3	1	161	1	0	0	0	0	1	0	0	0	17840	695	24	3	696	3	ZNF323	6	28295160	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	637	28295160	142819907	165	56819										
OR11A1	26531	broad.mit.edu	37	chr6	29395345	29395345	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caataaaaaacaagaaatgcAgttcagggatgtcatagaag	9	5	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:29395345A>G	uc003nmg.2	-	1	165	c.74T>C	c.(73-75)CTG>CCG	p.L25P		NM_013937	NP_039225	Q9GZK7	O11A1_HUMAN	olfactory receptor, family 11, subfamily A,	25	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CAAGAAATGCAGTTCAGGGAT	0.418													14	80	---	---	---	---	PASS	G	29395345	G	G	29395345	3	3	161	1	0	0	0	0	1	0	0	0	10924	188	7	5	877	5	OR11A1	6	29395345	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	1100185	29395345	141719722	166	56820										
RING1	6015	broad.mit.edu	37	chr6	33179559	33179559	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccacctctccaagtacttggCcctgcgcattgccctcgagc	8	18	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:33179559C>G	uc003odk.2	+	6	1093	c.899C>G	c.(898-900)GCC>GGC	p.A300G	RING1_uc003odl.2_Missense_Mutation_p.A271G	NM_002931	NP_002922	Q06587	RING1_HUMAN	ring finger protein 1	300	Necessary for interaction with CBX2 (By similarity).				histone H2A monoubiquitination|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear speck|PcG protein complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						AAGTACTTGGCCCTGCGCATT	0.627													31	209	---	---	---	---	PASS	G	33179559	G	G	33179559	3	3	161	1	0	0	0	0	1	0	0	0	13374	739	26	4	917	4	RING1	6	33179559	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	3784214	33179559	137935508	167	56821										
GRM4	2914	broad.mit.edu	37	chr6	34008084	34008084	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttgaaggtcacagggttcccTgcgatgcctgtaagggtggg	16	8	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:34008084T>A	uc003oir.3	-	7	1547	c.1377A>T	c.(1375-1377)GCA>GCT	p.A459A	GRM4_uc011dsn.1_Silent_p.A412A|GRM4_uc010jvh.2_Silent_p.A459A|GRM4_uc010jvi.2_Silent_p.A151A|GRM4_uc003oio.2_Silent_p.A151A|GRM4_uc003oip.2_RNA|GRM4_uc011dsl.1_Silent_p.A319A|GRM4_uc003oiq.2_Silent_p.A326A|GRM4_uc011dsm.1_Silent_p.A290A	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	459	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	CAGGGTTCCCTGCGATGCCTG	0.567													23	172	---	---	---	---	PASS	A	34008084	A	A	34008084	2	1	161	1	0	0	0	0	0	0	0	1	6799	1567	55	5		5	GRM4	6	34008084	Silent	SNP	T	TCGA-66-2782-01A-01D-1522-08	828525	34008084	137106983	168	56822										
FAM83B	222584	broad.mit.edu	37	chr6	54806713	54806713	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctagtccattgcttaattacAacactggtgtttatcgctca	6	10	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:54806713A>G	uc003pck.2	+	5	3060	c.2944A>G	c.(2944-2946)AAC>GAC	p.N982D		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	982										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					GCTTAATTACAACACTGGTGT	0.363													11	106	---	---	---	---	PASS	G	54806713	G	G	54806713	3	3	161	1	0	0	0	0	1	0	0	0	5634	130	5	5	2958	5	FAM83B	6	54806713	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	20798629	54806713	116308354	169	56823										
COL12A1	1303	broad.mit.edu	37	chr6	75843650	75843650	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttccctctgcatggtcccagCggacattcaaggtgctggta	11	12	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:75843650C>A	uc003phs.2	-	33	5754	c.5588G>T	c.(5587-5589)CGC>CTC	p.R1863L	COL12A1_uc003pht.2_Missense_Mutation_p.R699L	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1863	Fibronectin type-III 14.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						ATGGTCCCAGCGGACATTCAA	0.448													7	58	---	---	---	---	PASS	A	75843650	A	A	75843650	3	1	161	1	0	0	0	0	1	0	0	0	3669	768	27	1	3739	1	COL12A1	6	75843650	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	21036937	75843650	95271417	170	56824										
RARS2	57038	broad.mit.edu	37	chr6	88255364	88255364	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gccccaatcgccaaggtaatTtattcttattacttgatgtc	6	10	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:88255364T>A	uc003pme.2	-	7	565	c.505A>T	c.(505-507)AAT>TAT	p.N169Y	RARS2_uc003pmb.2_5'UTR|RARS2_uc003pmc.2_5'UTR|RARS2_uc003pmd.2_Intron|RARS2_uc003pmf.2_RNA	NM_020320	NP_064716	Q5T160	SYRM_HUMAN	arginyl-tRNA synthetase 2, mitochondrial	169					arginyl-tRNA aminoacylation	mitochondrial matrix	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|central_nervous_system(1)	3		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0456)		CCAAGGTAATTTATTCTTATT	0.284													50	207	---	---	---	---	PASS	A	88255364	A	A	88255364	3	1	161	1	0	0	0	0	1	0	0	0	13059	1841	64	5	1287	5	RARS2	6	88255364	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	12411714	88255364	82859703	171	56825										
C6orf203	51250	broad.mit.edu	37	chr6	107361404	107361404	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtcttttcggtatgatgttgTcctgaagacggggctagata	13	6	1	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:107361404T>G	uc003prq.2	+	2	521	c.440T>G	c.(439-441)GTC>GGC	p.V147G	C6orf203_uc011eaj.1_Missense_Mutation_p.V152G|C6orf203_uc010kde.2_Missense_Mutation_p.V147G	NM_016487	NP_057571	Q9P0P8	CF203_HUMAN	hypothetical protein LOC51250 isoform a	147											0	Breast(9;0.00124)|all_epithelial(6;0.0729)	all_cancers(87;0.00461)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|Colorectal(196;0.171)|all_epithelial(87;0.23)	BRCA - Breast invasive adenocarcinoma(8;0.000395)|all cancers(7;0.00065)|Epithelial(6;0.000834)|OV - Ovarian serous cystadenocarcinoma(5;0.244)	BRCA - Breast invasive adenocarcinoma(108;0.117)		TATGATGTTGTCCTGAAGACG	0.388													14	87	---	---	---	---	PASS	G	107361404	G	G	107361404	3	3	161	1	0	0	0	0	1	0	0	0	2352	1667	58	5	461	5	C6orf203	6	107361404	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	19106040	107361404	63753663	172	56826										
C6orf186	728464	broad.mit.edu	37	chr6	110644054	110644054	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agagcctgcccaaggctggaGatctatatgccaccggggac	13	12	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:110644054G>T	uc010kdu.1	-	2	340	c.340C>A	c.(340-342)CTC>ATC	p.L114I	C6orf186_uc003pub.2_5'UTR	NM_001123364	NP_001116836	Q5JXM2	CF186_HUMAN	chromosome 6 open reading frame 186 precursor	114						extracellular region					0						CAAGGCTGGAGATCTATATGC	0.522													15	72	---	---	---	---	PASS	T	110644054	T	T	110644054	3	4	161	1	0	0	0	0	1	0	0	0	2347	942	33	2	776	2	C6orf186	6	110644054	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3282650	110644054	60471013	173	56827										
RFPL4B	442247	broad.mit.edu	37	chr6	112671478	112671478	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gcatgaaggcaggagcaatcCatgctaacacccacctggag	11	12	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:112671478C>G	uc003pvx.1	+	3	880	c.568C>G	c.(568-570)CAT>GAT	p.H190D		NM_001013734	NP_001013756	Q6ZWI9	RFPLB_HUMAN	ret finger protein-like 4B	190	B30.2/SPRY.						zinc ion binding				0		all_cancers(87;9.44e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00265)|Colorectal(196;0.0209)		all cancers(137;0.0202)|OV - Ovarian serous cystadenocarcinoma(136;0.0477)|Epithelial(106;0.0646)|GBM - Glioblastoma multiforme(226;0.0866)|BRCA - Breast invasive adenocarcinoma(108;0.244)		AGGAGCAATCCATGCTAACAC	0.512													20	81	---	---	---	---	PASS	G	112671478	G	G	112671478	3	3	161	1	0	0	0	0	1	0	0	0	13256	594	21	4	570	4	RFPL4B	6	112671478	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2027424	112671478	58443589	174	56828										
RFX6	222546	broad.mit.edu	37	chr6	117245953	117245953	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gacaagtatatgaagaattcAggtaacttaaaataactgtt	7	4	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:117245953A>G	uc003pxm.2	+	15	1740	c.1677A>G	c.(1675-1677)TCA>TCG	p.S559S		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	559					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TGAAGAATTCAGGTAACTTAA	0.308													18	96	---	---	---	---	PASS	G	117245953	G	G	117245953	2	3	161	1	0	0	0	0	0	0	0	1	13267	202	7	5		5	RFX6	6	117245953	Silent	SNP	A	TCGA-66-2782-01A-01D-1522-08	4574475	117245953	53869114	175	56829										
ENPP3	5169	broad.mit.edu	37	chr6	131973776	131973776	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gactgtttgcagaggaaagaTtgctgtgctgactataagag	13	5	0	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:131973776T>C	uc003qcu.3	+	5	719	c.372T>C	c.(370-372)GAT>GAC	p.D124D	ENPP3_uc010kfn.1_RNA|ENPP3_uc011ecc.1_Silent_p.D90D|ENPP3_uc010kfo.1_RNA|ENPP3_uc010kfp.1_RNA|ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Silent_p.D124D	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	124	Extracellular (Potential).|SMB 2.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		AGAGGAAAGATTGCTGTGCTG	0.458													30	123	---	---	---	---	PASS	C	131973776	C	C	131973776	2	2	161	1	0	0	0	0	0	0	0	1	5131	1490	52	5		5	ENPP3	6	131973776	Silent	SNP	T	TCGA-66-2782-01A-01D-1522-08	14727823	131973776	39141291	176	56830										
EPM2A	7957	broad.mit.edu	37	chr6	145948803	145948803	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cagcgcatgcagcaggcacaCcgcctggggcagcatctgta	13	14	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:145948803C>A	uc003qkw.2	-	4	1102	c.745G>T	c.(745-747)GTG>TTG	p.V249L	EPM2A_uc003qkv.2_Missense_Mutation_p.V249L|EPM2A_uc010khr.2_Missense_Mutation_p.G168V|EPM2A_uc003qkx.2_Missense_Mutation_p.V111L|EPM2A_uc003qku.2_Missense_Mutation_p.V95L	NM_005670	NP_005661	O95278	EPM2A_HUMAN	laforin isoform a	249	Tyrosine-protein phosphatase.				glycogen metabolic process	cytosol|endoplasmic reticulum|nucleus|plasma membrane|polysome	carbohydrate binding|identical protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1		Ovarian(120;0.162)		OV - Ovarian serous cystadenocarcinoma(155;3.38e-07)|GBM - Glioblastoma multiforme(68;0.0203)		AGCAGGCACACCGCCTGGGGC	0.632													10	39	---	---	---	---	PASS	A	145948803	A	A	145948803	3	1	161	1	0	0	0	0	1	0	0	0	5183	507	18	3	288	3	EPM2A	6	145948803	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	13975027	145948803	25166264	177	56831										
GRM1	2911	broad.mit.edu	37	chr6	146755509	146755509	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tttcacgcggtgctggcaggCcccggtggtcccgggaacgg	17	13	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:146755509C>A	uc010khw.1	+	9	3632	c.3162C>A	c.(3160-3162)GGC>GGA	p.G1054G	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	1054	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	TGCTGGCAGGCCCCGGTGGTC	0.667													11	40	---	---	---	---	PASS	A	146755509	A	A	146755509	2	1	161	1	0	0	0	0	0	0	0	1	6796	726	26	3		3	GRM1	6	146755509	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	806706	146755509	24359558	178	56832										
RAB32	10981	broad.mit.edu	37	chr6	146870741	146870741	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggatagtaaagttcatcttcCaaatggcagccctatccctg	8	11	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:146870741C>T	uc003qln.1	+	2	572	c.392C>T	c.(391-393)CCA>CTA	p.P131L		NM_006834	NP_006825	Q13637	RAB32_HUMAN	RAB32, member RAS oncogene family	131					protein transport|small GTPase mediated signal transduction	mitochondrion	GTP binding				0		Ovarian(120;0.142)		OV - Ovarian serous cystadenocarcinoma(155;2.68e-09)|GBM - Glioblastoma multiforme(68;0.00608)		GTTCATCTTCCAAATGGCAGC	0.433													24	121	---	---	---	---	PASS	T	146870741	T	T	146870741	3	4	161	1	0	0	0	0	1	0	0	0	12921	594	21	3	398	3	RAB32	6	146870741	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	115232	146870741	24244326	179	56833										
LPA	4018	broad.mit.edu	37	chr6	160998304	160998304	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	accatggtagcaatcctggaCcacagggcttttctcaggtg	11	11	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:160998304C>A	uc003qtl.2	-	29	4615	c.4495G>T	c.(4495-4497)GTC>TTC	p.V1499F		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4007	Kringle 36.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	CAATCCTGGACCACAGGGCTT	0.428													21	146	---	---	---	---	PASS	A	160998304	A	A	160998304	3	1	161	1	0	0	0	0	1	0	0	0	8903	507	18	3	1675	3	LPA	6	160998304	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	14127563	160998304	10116763	180	56834										
PLG	5340	broad.mit.edu	37	chr6	161139397	161139397	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtgaaaactatcgcgggaatGtggctgttaccgtgtccggg	15	8	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr6:161139397G>C	uc003qtm.3	+	8	922	c.859G>C	c.(859-861)GTG>CTG	p.V287L		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	287	Kringle 3.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	TCGCGGGAATGTGGCTGTTAC	0.512													33	151	---	---	---	---	PASS	C	161139397	C	C	161139397	3	2	161	1	0	0	0	0	1	0	0	0	12086	1377	48	4	893	4	PLG	6	161139397	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	141093	161139397	9975670	181	56835										
GLCCI1	113263	broad.mit.edu	37	chr7	8125922	8125922	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttctgtcctgtaaaacttctAggccccctcttacctgcttc	5	15	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:8125922A>T	uc003srk.2	+	8	1957	c.1398A>T	c.(1396-1398)CTA>CTT	p.L466L		NM_138426	NP_612435	Q86VQ1	GLCI1_HUMAN	glucocorticoid induced transcript 1	466											0		Ovarian(82;0.0608)		UCEC - Uterine corpus endometrioid carcinoma (126;0.206)		TAAAACTTCTAGGCCCCCTCT	0.507													139	498	---	---	---	---	PASS	T	8125922	T	T	8125922	2	4	161	1	0	0	0	0	0	0	0	1	6431	407	15	5		5	GLCCI1	7	8125922	Silent	SNP	A	TCGA-66-2782-01A-01D-1522-08		8125922	151012741	182	56836										
MACC1	346389	broad.mit.edu	37	chr7	20198137	20198137	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttacttgctcctttgaaatcAccttgacatttttgcagtgt	6	9	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:20198137A>G	uc003sus.3	-	5	2156	c.1847T>C	c.(1846-1848)GTG>GCG	p.V616A	MACC1_uc010kug.2_Missense_Mutation_p.V616A	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	616	SH3.				positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						CTTTGAAATCACCTTGACATT	0.363													99	322	---	---	---	---	PASS	G	20198137	G	G	20198137	3	3	161	1	0	0	0	0	1	0	0	0	9143	159	6	5	723	5	MACC1	7	20198137	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	12072215	20198137	138940526	183	56837										
EVX1	2128	broad.mit.edu	37	chr7	27282757	27282757	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gccgtgggcagcccgctgccGgagccgcccgagaaaatggt	16	14	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:27282757G>T	uc003szd.1	+	1	594	c.108G>T	c.(106-108)CCG>CCT	p.P36P	EVX1_uc011jzn.1_5'UTR|EVX1_uc010kuy.1_Silent_p.P36P	NM_001989	NP_001980	P49640	EVX1_HUMAN	even-skipped homeobox 1	36						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						GCCCGCTGCCGGAGCCGCCCG	0.682													5	8	---	---	---	---	PASS	T	27282757	T	T	27282757	2	4	161	1	0	0	0	0	0	0	0	1	5294	1103	39	1		1	EVX1	7	27282757	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	7084620	27282757	131855906	184	56838										
ADCYAP1R1	117	broad.mit.edu	37	chr7	31125012	31125012	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tccgtcttcatcaaagactgGattctgtatgcggagcagga	11	9	4	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:31125012G>T	uc003tca.1	+	9	847	c.624G>T	c.(622-624)TGG>TGT	p.W208C	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.W187C|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.W208C|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.W208C|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.W208C|ADCYAP1R1_uc003tcf.1_5'Flank	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	208	Extracellular (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						TCAAAGACTGGATTCTGTATG	0.547													47	159	---	---	---	---	PASS	T	31125012	T	T	31125012	3	4	161	1	0	0	0	0	1	0	0	0	303	1183	41	2	654	2	ADCYAP1R1	7	31125012	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3842255	31125012	128013651	185	56839										
CCDC129	223075	broad.mit.edu	37	chr7	31682967	31682967	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gaccttgctcaaacatctgaAaagctcattccccacctcca	4	16	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:31682967A>G	uc003tcj.1	+	11	2976	c.1983A>G	c.(1981-1983)GAA>GAG	p.E661E	CCDC129_uc011kad.1_Silent_p.E671E|CCDC129_uc003tci.1_Silent_p.E512E|CCDC129_uc011kae.1_Silent_p.E687E|CCDC129_uc003tck.1_Silent_p.E569E	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	661											0						AAACATCTGAAAAGCTCATTC	0.488													24	90	---	---	---	---	PASS	G	31682967	G	G	31682967	2	3	161	1	0	0	0	0	0	0	0	1	2764	11	1	5		5	CCDC129	7	31682967	Silent	SNP	A	TCGA-66-2782-01A-01D-1522-08	557955	31682967	127455696	186	56840										
NPSR1	387129	broad.mit.edu	37	chr7	34851423	34851423	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	acctacgtcctggtgtccctCagcatagacagataccatgc	8	14	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:34851423C>T	uc003teg.1	+	4	554	c.426C>T	c.(424-426)CTC>CTT	p.L142L	AAA1_uc010kwq.1_Intron|AAA1_uc011kaq.1_Intron|NPSR1_uc003teh.1_Silent_p.L142L|NPSR1_uc010kwt.1_5'UTR|NPSR1_uc010kwu.1_Intron|NPSR1_uc010kwv.1_Intron|NPSR1_uc003tei.1_Silent_p.L142L|NPSR1_uc010kww.1_Silent_p.L131L|NPSR1_uc011kar.1_Intron|AAA1_uc010kwy.2_Intron|AAA1_uc003tek.3_Intron	NM_207172	NP_997055	Q6W5P4	NPSR1_HUMAN	G protein-coupled receptor for asthma	142	Helical; Name=3; (Potential).					cytoplasm|integral to membrane|plasma membrane	vasopressin receptor activity			skin(3)|pancreas(1)	4					Halothane(DB01159)	TGGTGTCCCTCAGCATAGACA	0.483													31	259	---	---	---	---	PASS	T	34851423	T	T	34851423	2	4	161	1	0	0	0	0	0	0	0	1	10600	813	29	2		2	NPSR1	7	34851423	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	3168456	34851423	124287240	187	56841										
ABCA13	154664	broad.mit.edu	37	chr7	48349667	48349667	+	Missense_Mutation	SNP	C	G	G													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cggaggaactctgtagcctgCcagggtcaaaagtgtattct							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:48349667C>G	uc003toq.2	+	24	9470	c.9445C>G	c.(9445-9447)CCA>GCA	p.P3149A	ABCA13_uc010kys.1_Missense_Mutation_p.P223A|ABCA13_uc003tos.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3149					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CTGTAGCCTGCCAGGGTCAAA	0.488													80	312	---	---	---	---	PASS	G	48349667	G	G	48349667	3	3	161	1	0	0	0	0	1	0	0	0	31	739	26	4	9368	4	ABCA13	7	48349667	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	13498244	48349667	110788996	188	56842	1014	2								
ABCA13	154664	broad.mit.edu	37	chr7	48349668	48349668	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggaggaactctgtagcctgcCagggtcaaaagtgtattctc							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:48349668C>A	uc003toq.2	+	24	9471	c.9446C>A	c.(9445-9447)CCA>CAA	p.P3149Q	ABCA13_uc010kys.1_Missense_Mutation_p.P223Q|ABCA13_uc003tos.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3149					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TGTAGCCTGCCAGGGTCAAAA	0.493													82	313	---	---	---	---	PASS	A	48349668	A	A	48349668	3	1	161	1	0	0	0	0	1	0	0	0	31	594	21	3	9369	3	ABCA13	7	48349668	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	48349668	110788995	189	56843	1014	2								
ABCA13	154664	broad.mit.edu	37	chr7	48450198	48450198	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggccgtcctccagcatgggaGgctcaggtgctgcggtcctc	15	14	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:48450198G>T	uc003toq.2	+	40	12177	c.12152G>T	c.(12151-12153)AGG>ATG	p.R4051M	ABCA13_uc010kys.1_Missense_Mutation_p.R1125M|ABCA13_uc010kyt.1_RNA	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4051	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CAGCATGGGAGGCTCAGGTGC	0.602													66	188	---	---	---	---	PASS	T	48450198	T	T	48450198	3	4	161	1	0	0	0	0	1	0	0	0	31	1000	35	3	12139	3	ABCA13	7	48450198	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	100530	48450198	110688465	190	56844										
ZNF117	51351	broad.mit.edu	37	chr7	64438970	64438970	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtagggtttctctccagtatGaatttttttatggtcagtaa	9	5	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:64438970G>A	uc003ttr.2	-	4	2264	c.979C>T	c.(979-981)CAT>TAT	p.H327Y		NM_015852	NP_056936	Q03924	ZN117_HUMAN	zinc finger protein 117	327	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Lung NSC(55;0.0295)|all_lung(88;0.0691)				TCTCCAGTATGAATTTTTTTA	0.353													24	171	---	---	---	---	PASS	A	64438970	A	A	64438970	3	1	161	1	0	0	0	0	1	0	0	0	17714	1290	45	2	476	2	ZNF117	7	64438970	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	15988772	64438970	94699693	191	56845										
TYW1	55253	broad.mit.edu	37	chr7	66483032	66483032	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gaaagaagtcctgtggcggcCactgcaagaaaggcaaatgt	13	8	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:66483032C>T	uc003tvn.2	+	6	912	c.763C>T	c.(763-765)CAC>TAC	p.H255Y	TYW1_uc010lai.2_RNA	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	255					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				CTGTGGCGGCCACTGCAAGAA	0.527													8	32	---	---	---	---	PASS	T	66483032	T	T	66483032	3	4	161	1	0	0	0	0	1	0	0	0	16815	594	21	3	785	3	TYW1	7	66483032	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2044062	66483032	92655631	192	56846										
CCL26	10344	broad.mit.edu	37	chr7	75401323	75401323	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttggatatgtcactcccaccTaaaaatcagggagaggaagg	11	8	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:75401323T>A	uc003udt.1	-	3	182	c.74_splice	c.e3-1	p.R25_splice		NM_006072	NP_006063	Q9Y258	CCL26_HUMAN	chemokine (C-C motif) ligand 26 precursor						cell-cell signaling|chemotaxis|immune response|inflammatory response|positive regulation of actin filament polymerization|positive regulation of cell migration|positive regulation of endothelial cell proliferation|positive regulation of Rac GTPase activity|signal transduction	extracellular space	chemokine activity				0						CACTCCCACCTAAAAATCAGG	0.547													31	83	---	---	---	---	PASS	A	75401323	A	A	75401323	5	1	161	1	0	0	0	0	0	0	1	0	2898	1536	53	5	220	5	CCL26	7	75401323	Splice_Site	SNP	T	TCGA-66-2782-01A-01D-1522-08	8918291	75401323	83737340	193	56847										
MAGI2	9863	broad.mit.edu	37	chr7	78150907	78150907	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggaagtatctggtctgttacAtttaacaataatggtgctgg	11	5	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:78150907A>G	uc003ugx.2	-	4	848	c.594T>C	c.(592-594)AAT>AAC	p.N198N	MAGI2_uc003ugy.2_Silent_p.N198N|MAGI2_uc011kgr.1_Silent_p.N30N|MAGI2_uc011kgs.1_Silent_p.N35N	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	198	Guanylate kinase-like.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				GGTCTGTTACATTTAACAATA	0.423													123	352	---	---	---	---	PASS	G	78150907	G	G	78150907	2	3	161	1	0	0	0	0	0	0	0	1	9191	214	8	5		5	MAGI2	7	78150907	Silent	SNP	A	TCGA-66-2782-01A-01D-1522-08	2749584	78150907	80987756	194	56848										
ZNF804B	219578	broad.mit.edu	37	chr7	88962778	88962778	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gaatggcagaaaggtatcatGcatgaagagtgctcttctcc	11	8	3	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:88962778G>T	uc011khi.1	+	4	1020	c.482G>T	c.(481-483)TGC>TTC	p.C161F		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	161						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AAGGTATCATGCATGAAGAGT	0.443										HNSCC(36;0.09)			33	85	---	---	---	---	PASS	T	88962778	T	T	88962778	3	4	161	1	0	0	0	0	1	0	0	0	18168	1319	46	3	496	3	ZNF804B	7	88962778	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	10811871	88962778	70175885	195	56849										
CLDN12	9069	broad.mit.edu	37	chr7	90042515	90042515	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttttcatttgactatgcagtGtatgtcactattgctagtgc	8	7	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:90042515G>T	uc003ukp.2	+	5	1161	c.525G>T	c.(523-525)GTG>GTT	p.V175V	CLDN12_uc003ukq.2_Silent_p.V175V|CLDN12_uc010leq.2_Silent_p.V175V|CLDN12_uc003ukr.2_Silent_p.V175V|CLDN12_uc003uks.2_Silent_p.V175V	NM_012129	NP_036261	P56749	CLD12_HUMAN	claudin 12	175	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						ACTATGCAGTGTATGTCACTA	0.418													125	399	---	---	---	---	PASS	T	90042515	T	T	90042515	2	4	161	1	0	0	0	0	0	0	0	1	3474	1364	48	3		3	CLDN12	7	90042515	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	1079737	90042515	69096148	196	56850										
COL1A2	1278	broad.mit.edu	37	chr7	94056332	94056332	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctttaaagggtcaccatggtGatcaaggtgctcctggctcc	11	11	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:94056332G>A	uc003ung.1	+	47	3589	c.3118G>A	c.(3118-3120)GAT>AAT	p.D1040N	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1040					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TCACCATGGTGATCAAGGTGC	0.438										HNSCC(75;0.22)			8	85	---	---	---	---	PASS	A	94056332	A	A	94056332	3	1	161	1	0	0	0	0	1	0	0	0	3678	1290	45	2	3304	2	COL1A2	7	94056332	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	4013817	94056332	65082331	197	56851										
MUC17	140453	broad.mit.edu	37	chr7	100681403	100681403	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccatgccggtagttacttctGaggctagcaccctttcagca	9	13	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:100681403G>C	uc003uxp.1	+	3	6759	c.6706G>C	c.(6706-6708)GAG>CAG	p.E2236Q	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2236	Extracellular (Potential).|35.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AGTTACTTCTGAGGCTAGCAC	0.498													8	688	---	---	---	---	PASS	C	100681403	C	C	100681403	3	2	161	1	0	0	0	0	1	0	0	0	9974	1291	45	2	6716	2	MUC17	7	100681403	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	6625071	100681403	58457260	198	56852										
CDHR3	222256	broad.mit.edu	37	chr7	105658488	105658488	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tatattctcagaatccaggcCaccaacaacgaagacacaag	6	12	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:105658488C>T	uc003vdl.3	+	12	1731	c.1623C>T	c.(1621-1623)GCC>GCT	p.A541A	CDHR3_uc003vdk.2_Intron|CDHR3_uc003vdm.3_Silent_p.A528A|CDHR3_uc011klt.1_Silent_p.A453A|CDHR3_uc003vdn.2_Intron	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	541	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						GAATCCAGGCCACCAACAACG	0.483													12	44	---	---	---	---	PASS	T	105658488	T	T	105658488	2	4	161	1	0	0	0	0	0	0	0	1	3120	581	21	3		3	CDHR3	7	105658488	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	4977085	105658488	53480175	199	56853										
PIK3CG	5294	broad.mit.edu	37	chr7	106509389	106509389	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aagggcaaagttcagcttctCtattatgtgaacctgctgct	9	9	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:106509389C>G	uc003vdv.3	+	2	1468	c.1383C>G	c.(1381-1383)CTC>CTG	p.L461L	PIK3CG_uc003vdu.2_Silent_p.L461L|PIK3CG_uc003vdw.2_Silent_p.L461L	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	461					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						TTCAGCTTCTCTATTATGTGA	0.532													49	138	---	---	---	---	PASS	G	106509389	G	G	106509389	2	3	161	1	0	0	0	0	0	0	0	1	11916	900	32	2		2	PIK3CG	7	106509389	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	850901	106509389	52629274	200	56854										
PPP1R3A	5506	broad.mit.edu	37	chr7	113558590	113558590	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	attcttacatatactaacttCtcaaaagaaacattcaaaac	1	9	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:113558590C>A	uc010ljy.1	-	1	493	c.462G>T	c.(460-462)GAG>GAT	p.E154D		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	154	CBM21.				glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						ATACTAACTTCTCAAAAGAAA	0.353													44	178	---	---	---	---	PASS	A	113558590	A	A	113558590	3	1	161	1	0	0	0	0	1	0	0	0	12371	912	32	2	2922	2	PPP1R3A	7	113558590	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	7049201	113558590	45580073	201	56855										
COPG2	26958	broad.mit.edu	37	chr7	130295841	130295841	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tacccatcctcagtttctttTagtaagcgactggcaattcg	7	11	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:130295841T>C	uc003vqh.1	-	9	810	c.720A>G	c.(718-720)CTA>CTG	p.L240L		NM_012133	NP_036265	Q9UBF2	COPG2_HUMAN	coatomer protein complex, subunit gamma 2	240					intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat	protein binding|structural molecule activity				0	Melanoma(18;0.0435)					CAGTTTCTTTTAGTAAGCGAC	0.363													65	165	---	---	---	---	PASS	C	130295841	C	C	130295841	2	2	161	1	0	0	0	0	0	0	0	1	3732	1741	61	5		5	COPG2	7	130295841	Silent	SNP	T	TCGA-66-2782-01A-01D-1522-08	16737251	130295841	28842822	202	56856										
OR2A12	346525	broad.mit.edu	37	chr7	143792422	143792422	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtggacatgtcctatgcctcGagtactgtccctaagatgct	10	11	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:143792422G>A	uc011kty.1	+	1	222	c.222G>A	c.(220-222)TCG>TCA	p.S74S		NM_001004135	NP_001004135	Q8NGT7	O2A12_HUMAN	olfactory receptor, family 2, subfamily A,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	Melanoma(164;0.0783)					CCTATGCCTCGAGTACTGTCC	0.453													78	173	---	---	---	---	PASS	A	143792422	A	A	143792422	2	1	161	1	0	0	0	0	0	0	0	1	10975	1045	37	2		2	OR2A12	7	143792422	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	13496581	143792422	15346241	203	56857										
CNTNAP2	26047	broad.mit.edu	37	chr7	147926793	147926793	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cgagagccatacaatattgaCgtagaccacaggaacatggc	10	10	0	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:147926793C>T	uc003weu.1	+	20	3819	c.3303C>T	c.(3301-3303)GAC>GAT	p.D1101D		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	1101	Laminin G-like 4.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ACAATATTGACGTAGACCACA	0.433										HNSCC(39;0.1)			36	87	---	---	---	---	PASS	T	147926793	T	T	147926793	2	4	161	1	0	0	0	0	0	0	0	1	3647	535	19	1		1	CNTNAP2	7	147926793	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	4134371	147926793	11211870	204	56858										
EZH2	2146	broad.mit.edu	37	chr7	148506222	148506222	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctcttggcaaaaatacctatCctgtgatcaccgttaaccat	5	12	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:148506222C>T	uc003wfd.1	-	19	2287	c.2121G>A	c.(2119-2121)AGG>AGA	p.R707R	EZH2_uc011kug.1_Silent_p.R656R|EZH2_uc003wfb.1_Silent_p.R712R|EZH2_uc003wfc.1_Silent_p.R668R|EZH2_uc011kuh.1_Silent_p.R698R	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	707	SET.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			AAATACCTATCCTGTGATCAC	0.443			Mis		DLBCL								12	237	---	---	---	---	PASS	T	148506222	T	T	148506222	2	4	161	1	0	0	0	0	0	0	0	1	5334	854	30	2		2	EZH2	7	148506222	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	579429	148506222	10632441	205	56859										
ABP1	26	broad.mit.edu	37	chr7	150556093	150556093	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	actccatggccgaccaggtgCtgcccccaggctggcaggag	14	15	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr7:150556093C>A	uc003why.1	+	4	6031	c.1813C>A	c.(1813-1815)CTG>ATG	p.L605M	ABP1_uc003whz.1_Missense_Mutation_p.L605M|ABP1_uc003wia.1_Missense_Mutation_p.L605M	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	605					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	CGACCAGGTGCTGCCCCCAGG	0.627													9	25	---	---	---	---	PASS	A	150556093	A	A	150556093	3	1	161	1	0	0	0	0	1	0	0	0	98	796	28	3	1819	3	ABP1	7	150556093	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2049871	150556093	8582570	206	56860										
MSR1	4481	broad.mit.edu	37	chr8	16026285	16026285	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgaaatctcatttcctcttcGctgtcatttccttttcccgt	4	13	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr8:16026285G>T	uc003wwz.2	-	4	510	c.312C>A	c.(310-312)AGC>AGA	p.S104R	MSR1_uc010lsu.2_Missense_Mutation_p.S122R|MSR1_uc003wxa.2_Missense_Mutation_p.S104R|MSR1_uc003wxb.2_Missense_Mutation_p.S104R|MSR1_uc011kxz.1_Intron	NM_138715	NP_619729	P21757	MSRE_HUMAN	macrophage scavenger receptor 1 isoform type 1	104	Spacer (Probable).|Extracellular (Potential).				cholesterol transport|plasma lipoprotein particle clearance|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis	collagen|integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|protein binding|scavenger receptor activity			ovary(1)	1				Colorectal(111;0.00475)|COAD - Colon adenocarcinoma(73;0.0164)		TTTCCTCTTCGCTGTCATTTC	0.398													97	220	---	---	---	---	PASS	T	16026285	T	T	16026285	3	4	161	1	0	0	0	0	1	0	0	0	9886	1078	38	1	1119	1	MSR1	8	16026285	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08		16026285	130337737	207	56861										
CLVS1	157807	broad.mit.edu	37	chr8	62212824	62212824	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	attcttttgctgtttgcagcCaattgggatcagagtaggta	11	6	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr8:62212824C>G	uc003xuh.2	+	2	762	c.438C>G	c.(436-438)GCC>GCG	p.A146A	CLVS1_uc003xug.2_Silent_p.A146A|CLVS1_uc003xui.2_Intron|CLVS1_uc010lyp.2_Silent_p.A146A	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1	146	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						TGTTTGCAGCCAATTGGGATC	0.448													29	75	---	---	---	---	PASS	G	62212824	G	G	62212824	2	3	161	1	0	0	0	0	0	0	0	1	3571	581	21	4		4	CLVS1	8	62212824	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	46186539	62212824	84151198	208	56862										
PREX2	80243	broad.mit.edu	37	chr8	68931877	68931877	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	accccgaacctaatgctcaaCaagaagtgggaacctgcttt	8	12	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr8:68931877C>T	uc003xxv.1	+	3	334	c.307C>T	c.(307-309)CAA>TAA	p.Q103*	PREX2_uc003xxu.1_Nonsense_Mutation_p.Q103*|PREX2_uc011lez.1_Intron	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	103	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TAATGCTCAACAAGAAGTGGG	0.353													22	112	---	---	---	---	PASS	T	68931877	T	T	68931877	4	4	161	1	0	0	0	0	0	1	0	0	12477	479	17	3	317	3	PREX2	8	68931877	Nonsense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	6719053	68931877	77432145	209	56863										
ZFHX4	79776	broad.mit.edu	37	chr8	77765850	77765850	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agtaaaaggtcttctagaacGagatttactgactaccagct	8	8	2	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr8:77765850G>A	uc003yav.2	+	10	6945	c.6558G>A	c.(6556-6558)ACG>ACA	p.T2186T	ZFHX4_uc003yau.1_Silent_p.T2231T|ZFHX4_uc003yaw.1_Silent_p.T2186T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2186	Homeobox 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTTCTAGAACGAGATTTACTG	0.383										HNSCC(33;0.089)			21	98	---	---	---	---	PASS	A	77765850	A	A	77765850	2	1	161	1	0	0	0	0	0	0	0	1	17632	1045	37	2		2	ZFHX4	8	77765850	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	8833973	77765850	68598172	210	56864										
UQCRB	7381	broad.mit.edu	37	chr8	97243321	97243321	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttctctttcttttctttcccGaataacctctttcagatacg	3	12	5	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr8:97243321G>A	uc003yhq.3	-	4	402	c.298C>T	c.(298-300)CGG>TGG	p.R100W	UQCRB_uc011lgt.1_RNA|UQCRB_uc010mbc.2_RNA	NM_006294	NP_006285	P14927	QCR7_HUMAN	ubiquinol-cytochrome c reductase binding	100					aerobic respiration|mitochondrial electron transport, ubiquinol to cytochrome c	mitochondrial respiratory chain	ubiquinol-cytochrome-c reductase activity			ovary(1)	1	Breast(36;5.16e-05)					TTTCTTTCCCGAATAACCTCT	0.338													156	195	---	---	---	---	PASS	A	97243321	A	A	97243321	3	1	161	1	0	0	0	0	1	0	0	0	17015	1057	37	2	41	2	UQCRB	8	97243321	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	19477471	97243321	49120701	211	56865										
VPS13B	157680	broad.mit.edu	37	chr8	100866426	100866426	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggacccatcttcaccactgcGaggcagcttgtgcacgccct	10	16	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr8:100866426G>A	uc003yiv.2	+	56	10995	c.10884G>A	c.(10882-10884)GCG>GCA	p.A3628A	VPS13B_uc003yiw.2_Silent_p.A3603A	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3628					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TCACCACTGCGAGGCAGCTTG	0.562													14	139	---	---	---	---	PASS	A	100866426	A	A	100866426	2	1	161	1	0	0	0	0	0	0	0	1	17187	1045	37	2		2	VPS13B	8	100866426	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	3623105	100866426	45497596	212	56866										
RIMS2	9699	broad.mit.edu	37	chr8	105161076	105161076	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cttctcagctcagccaaacgGgtaggaatttcaatgttact	8	10	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr8:105161076G>T	uc003yls.2	+	23	3629	c.3388G>T	c.(3388-3390)GAA>TAA	p.E1130*	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Nonsense_Mutation_p.E1119*|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CAGCCAAACGGGTAGGAATTT	0.408										HNSCC(12;0.0054)			26	252	---	---	---	---	PASS	T	105161076	T	T	105161076	4	4	161	1	0	0	0	0	0	1	0	0	13368	1247	43	3		3	RIMS2	8	105161076	Nonsense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	4294650	105161076	41202946	213	56867										
ZFPM2	23414	broad.mit.edu	37	chr8	106814808	106814808	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggacgtgcccatagatctcaGcaaaaagtgtttatctcagt	9	9	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr8:106814808G>T	uc003ymd.2	+	8	2521	c.2498G>T	c.(2497-2499)AGC>ATC	p.S833I	ZFPM2_uc011lhs.1_Missense_Mutation_p.S564I	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	833	Interaction with CTBP2 (Probable).				blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			ATAGATCTCAGCAAAAAGTGT	0.458													7	63	---	---	---	---	PASS	T	106814808	T	T	106814808	3	4	161	1	0	0	0	0	1	0	0	0	17655	971	34	3	2528	3	ZFPM2	8	106814808	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1653732	106814808	39549214	214	56868										
PKHD1L1	93035	broad.mit.edu	37	chr8	110401328	110401328	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atatggtctaaaactggatcAtccaaatggagatatgggtt	10	5	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr8:110401328A>T	uc003yne.2	+	8	748	c.644A>T	c.(643-645)CAT>CTT	p.H215L		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	215	Extracellular (Potential).|IPT/TIG 2.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			AAACTGGATCATCCAAATGGA	0.313										HNSCC(38;0.096)			157	170	---	---	---	---	PASS	T	110401328	T	T	110401328	3	4	161	1	0	0	0	0	1	0	0	0	11972	217	8	5	674	5	PKHD1L1	8	110401328	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	3586520	110401328	35962694	215	56869										
KLHL38	340359	broad.mit.edu	37	chr8	124658216	124658216	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cggtctttcatgtccgcacaTttgacaaatttgttggattg	9	8	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr8:124658216T>C	uc003yqs.1	-	3	1533	c.1509A>G	c.(1507-1509)AAA>AAG	p.K503K		NM_001081675	NP_001075144	Q2WGJ6	KLH38_HUMAN	kelch-like 38	503	Kelch 5.										0						TGTCCGCACATTTGACAAATT	0.517													26	175	---	---	---	---	PASS	C	124658216	C	C	124658216	2	2	161	1	0	0	0	0	0	0	0	1	8390	1490	52	5		5	KLHL38	8	124658216	Silent	SNP	T	TCGA-66-2782-01A-01D-1522-08	14256888	124658216	21705806	216	56870										
OC90	729330	broad.mit.edu	37	chr8	133044300	133044300	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gaaggtgaatctgtcacaggCtgaaaggaacaggaattgtc	13	6	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr8:133044300C>A	uc003ytg.2	-	11	860	c.860_splice	c.e11-1	p.A287_splice	OC90_uc011lix.1_Splice_Site_p.A287_splice	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90						lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			CTGTCACAGGCTGAAAGGAAC	0.547													16	166	---	---	---	---	PASS	A	133044300	A	A	133044300	5	1	161	1	0	0	0	0	0	0	1	0	10814	811	28	3	586	3	OC90	8	133044300	Splice_Site	SNP	C	TCGA-66-2782-01A-01D-1522-08	8386084	133044300	13319722	217	56871										
EPPK1	83481	broad.mit.edu	37	chr8	144947018	144947018	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caacctccttcccgatggccTgaaagagggccagcttctca	9	15	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr8:144947018T>C	uc003zaa.1	-	1	417	c.404A>G	c.(403-405)CAG>CGG	p.Q135R		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	135	Plectin 3.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCCGATGGCCTGAAAGAGGGC	0.677													3	80	---	---	---	---	PASS	C	144947018	C	C	144947018	3	2	161	1	0	0	0	0	1	0	0	0	5190	1580	55	5	6862	5	EPPK1	8	144947018	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	11902718	144947018	1417004	218	56872										
C9orf79	286234	broad.mit.edu	37	chr9	90498077	90498077	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tctacgtccacagtgacccaCcctcacccccgcccgggagg	9	20	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr9:90498077C>A	uc004app.3	+	1	306	c.271C>A	c.(271-273)CCC>ACC	p.P91T	C9orf79_uc004apo.1_Intron	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	91						integral to membrane				ovary(3)	3						CAGTGACCCACCCTCACCCCC	0.572													6	18	---	---	---	---	PASS	A	90498077	A	A	90498077	3	1	161	1	0	0	0	0	1	0	0	0	2497	507	18	3	273	3	C9orf79	9	90498077	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08		90498077	50715354	219	56873										
OR13C2	392376	broad.mit.edu	37	chr9	107367467	107367467	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gacagctcctatgatccaggAcccagctgccatgggtacat	10	13	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr9:107367467A>T	uc011lvq.1	-	1	442	c.442T>A	c.(442-444)TCC>ACC	p.S148T		NM_001004481	NP_001004481	Q8NGS9	O13C2_HUMAN	olfactory receptor, family 13, subfamily C,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ATGATCCAGGACCCAGCTGCC	0.458													65	106	---	---	---	---	PASS	T	107367467	T	T	107367467	3	4	161	1	0	0	0	0	1	0	0	0	10934	275	10	5	517	5	OR13C2	9	107367467	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	16869390	107367467	33845964	220	56874										
ADAMTS13	11093	broad.mit.edu	37	chr9	136298499	136298499	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agccatccttgccttgcagtGgtgctccaagggtcgctgcc	12	14	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr9:136298499G>T	uc004cdv.3	+	10	1538	c.1094G>T	c.(1093-1095)TGG>TTG	p.W365L	ADAMTS13_uc004cdp.3_Intron|ADAMTS13_uc004cdt.1_Missense_Mutation_p.W365L|ADAMTS13_uc004cdu.1_Missense_Mutation_p.W334L|ADAMTS13_uc004cdw.3_Missense_Mutation_p.W365L|ADAMTS13_uc004cdx.3_Missense_Mutation_p.W334L|ADAMTS13_uc004cdy.1_RNA|ADAMTS13_uc004cdz.3_Missense_Mutation_p.W35L|ADAMTS13_uc004cds.1_Intron|ADAMTS13_uc004cdr.1_RNA	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	365	Cysteine-rich.|Disintegrin.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		GCCTTGCAGTGGTGCTCCAAG	0.632													27	107	---	---	---	---	PASS	T	136298499	T	T	136298499	3	4	161	1	0	0	0	0	1	0	0	0	258	1362	47	3	1132	3	ADAMTS13	9	136298499	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	28931032	136298499	4914932	221	56875										
PMPCA	23203	broad.mit.edu	37	chr9	139311537	139311537	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cgcatggtgctggccggcgtGggcgtggagcacgagcatct	18	11	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr9:139311537G>A	uc004chl.2	+	7	773	c.768G>A	c.(766-768)GTG>GTA	p.V256V	PMPCA_uc010nbl.2_Silent_p.V156V|PMPCA_uc011mdz.1_Silent_p.V125V|PMPCA_uc004chm.1_Silent_p.V6V|PMPCA_uc004chn.1_5'Flank	NM_015160	NP_055975	Q10713	MPPA_HUMAN	peptidase (mitochondrial processing) alpha	256					proteolysis	mitochondrial inner membrane|mitochondrial matrix	metalloendopeptidase activity|zinc ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;9.3e-06)|Epithelial(140;1.15e-05)		TGGCCGGCGTGGGCGTGGAGC	0.612													17	42	---	---	---	---	PASS	A	139311537	A	A	139311537	2	1	161	1	0	0	0	0	0	0	0	1	12140	1335	47	3		3	PMPCA	9	139311537	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	3013038	139311537	1901894	222	56876										
SFMBT2	57713	broad.mit.edu	37	chr10	7214090	7214090	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctcactggcggtgtcatcgtCcatggcgtcagcgtcctcct							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:7214090C>A	uc009xio.1	-	19	2273	c.2182G>T	c.(2182-2184)GAC>TAC	p.D728Y	SFMBT2_uc001ijn.1_Missense_Mutation_p.D728Y|SFMBT2_uc010qay.1_Missense_Mutation_p.D563Y	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	728					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GTGTCATCGTCCATGGCGTCA	0.687													6	20	---	---	---	---	PASS	A	7214090	A	A	7214090	3	1	161	1	0	0	0	0	1	0	0	0	14158	855	30	2	514	2	SFMBT2	10	7214090	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08		7214090	128320657	223	56877	1015	2								
SFMBT2	57713	broad.mit.edu	37	chr10	7214091	7214091	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcactggcggtgtcatcgtcCatggcgtcagcgtcctcctc							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:7214091C>A	uc009xio.1	-	19	2272	c.2181G>T	c.(2179-2181)ATG>ATT	p.M727I	SFMBT2_uc001ijn.1_Missense_Mutation_p.M727I|SFMBT2_uc010qay.1_Missense_Mutation_p.M562I	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	727					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						TGTCATCGTCCATGGCGTCAG	0.692													6	20	---	---	---	---	PASS	A	7214091	A	A	7214091	3	1	161	1	0	0	0	0	1	0	0	0	14158	594	21	3	515	3	SFMBT2	10	7214091	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	7214091	128320656	224	56878	1015	2								
TAF3	83860	broad.mit.edu	37	chr10	7866291	7866291	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tttgtttcagatggccgaacAgacccaattttggatgatgt	10	7	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:7866291A>T	uc010qbd.1	+	2	177	c.177A>T	c.(175-177)ACA>ACT	p.T59T		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	59					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						ATGGCCGAACAGACCCAATTT	0.353													57	224	---	---	---	---	PASS	T	7866291	T	T	7866291	2	4	161	1	0	0	0	0	0	0	0	1	15522	175	7	5		5	TAF3	10	7866291	Silent	SNP	A	TCGA-66-2782-01A-01D-1522-08	652200	7866291	127668456	225	56879										
MCM10	55388	broad.mit.edu	37	chr10	13251236	13251236	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	catttttctaggaaaagactGgtccaaagataggaggagaa	11	5	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:13251236G>T	uc001ima.2	+	20	2655	c.2554G>T	c.(2554-2556)GGT>TGT	p.G852C	MCM10_uc001imb.2_Missense_Mutation_p.G851C|MCM10_uc001imc.2_3'UTR	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	852					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						GGAAAAGACTGGTCCAAAGAT	0.368													39	117	---	---	---	---	PASS	T	13251236	T	T	13251236	3	4	161	1	0	0	0	0	1	0	0	0	9385	1348	47	3	2628	3	MCM10	10	13251236	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	5384945	13251236	122283511	226	56880										
CUBN	8029	broad.mit.edu	37	chr10	16981140	16981140	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttcccacaatattatcattgCcaaatactaggagggaagac	7	9	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:16981140C>G	uc001ioo.2	-	38	5607	c.5555G>C	c.(5554-5556)GGC>GCC	p.G1852A		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1852	CUB 13.				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)	ATTATCATTGCCAAATACTAG	0.388													30	110	---	---	---	---	PASS	G	16981140	G	G	16981140	3	3	161	1	0	0	0	0	1	0	0	0	4051	739	26	4	5436	4	CUBN	10	16981140	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	3729904	16981140	118553607	227	56881										
CACNB2	783	broad.mit.edu	37	chr10	18789804	18789804	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gctgtgaaatcggattcattCcaagcccagtcaaactagaa	8	10	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:18789804C>T	uc001ipr.2	+	5	580	c.520C>T	c.(520-522)CCA>TCA	p.P174S	CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Missense_Mutation_p.P174S|CACNB2_uc001ipt.2_Missense_Mutation_p.P174S|CACNB2_uc010qcl.1_RNA|CACNB2_uc001ipu.2_Missense_Mutation_p.P146S|CACNB2_uc001ipv.2_Missense_Mutation_p.P146S|CACNB2_uc009xka.1_Missense_Mutation_p.P146S|CACNB2_uc001ipw.2_Missense_Mutation_p.P119S|CACNB2_uc001ipx.2_Missense_Mutation_p.P119S|CACNB2_uc009xkb.1_Missense_Mutation_p.P120S|CACNB2_uc010qcm.1_Missense_Mutation_p.P120S|CACNB2_uc001ipz.2_Missense_Mutation_p.P120S|CACNB2_uc001ipy.2_Missense_Mutation_p.P120S|CACNB2_uc010qcn.1_Missense_Mutation_p.P126S|CACNB2_uc010qco.1_Missense_Mutation_p.P126S|CACNB2_uc001iqa.2_Missense_Mutation_p.P126S	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	174	SH3.				axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	CGGATTCATTCCAAGCCCAGT	0.408													12	111	---	---	---	---	PASS	T	18789804	T	T	18789804	3	4	161	1	0	0	0	0	1	0	0	0	2553	855	30	2	758	2	CACNB2	10	18789804	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1808664	18789804	116744943	228	56882										
GAD2	2572	broad.mit.edu	37	chr10	26559634	26559634	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tacggagcatttgaccccctCttagctgtcgctgacatttg	9	12	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:26559634C>G	uc001isp.2	+	10	1544	c.1041C>G	c.(1039-1041)CTC>CTG	p.L347L	GAD2_uc001isq.2_Silent_p.L347L	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	347					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	TTGACCCCCTCTTAGCTGTCG	0.488													32	311	---	---	---	---	PASS	G	26559634	G	G	26559634	2	3	161	1	0	0	0	0	0	0	0	1	6180	900	32	2		2	GAD2	10	26559634	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	7769830	26559634	108975113	229	56883										
C10orf71	118461	broad.mit.edu	37	chr10	50530680	50530680	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gatgcagacagggaggtgagCagcctaacagaccgggcatt	15	9	0	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:50530680C>G	uc010qgp.1	+	3	429	c.90C>G	c.(88-90)AGC>AGG	p.S30R		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	30											0						GGGAGGTGAGCAGCCTAACAG	0.557													10	20	---	---	---	---	PASS	G	50530680	G	G	50530680	3	3	161	1	0	0	0	0	1	0	0	0	1614	709	25	4	92	4	C10orf71	10	50530680	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	23971046	50530680	85004067	230	56884										
OIT3	170392	broad.mit.edu	37	chr10	74684372	74684372	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccccacctccaagatcgacgAggtcctgaaatactacctca	6	16	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:74684372A>T	uc001jte.1	+	7	1555	c.1337A>T	c.(1336-1338)GAG>GTG	p.E446V	OIT3_uc009xqs.1_Intron	NM_152635	NP_689848	Q8WWZ8	OIT3_HUMAN	oncoprotein-induced transcript 3 precursor	446	ZP.					nuclear envelope	calcium ion binding			ovary(2)	2	Prostate(51;0.0198)					AAGATCGACGAGGTCCTGAAA	0.557													7	38	---	---	---	---	PASS	T	74684372	T	T	74684372	3	4	161	1	0	0	0	0	1	0	0	0	10849	304	11	5	1363	5	OIT3	10	74684372	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	24153692	74684372	60850375	231	56885										
DYDC2	84332	broad.mit.edu	37	chr10	82122201	82122201	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgttttccaggctgccaggaTggaaactaactacctgaaga	10	9	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:82122201T>A	uc001kca.1	+	3	382	c.2T>A	c.(1-3)ATG>AAG	p.M1K	DYDC2_uc001kbz.1_RNA|DYDC2_uc001kcb.1_Missense_Mutation_p.M1K	NM_032372	NP_115748	Q96IM9	DYDC2_HUMAN	DPY30 domain containing 2	1							protein binding				0			Colorectal(32;0.229)			GCTGCCAGGATGGAAACTAAC	0.423													23	105	---	---	---	---	PASS	A	82122201	A	A	82122201	3	1	161	1	0	0	0	0	1	0	0	0	4839	1464	51	5	4	5	DYDC2	10	82122201	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	7437829	82122201	53412546	232	56886										
NRG3	10718	broad.mit.edu	37	chr10	83635523	83635523	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cccccgccaccccctccgccGggggtgccgcctcctccagg	11	24	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:83635523G>A	uc001kco.2	+	1	454	c.427G>A	c.(427-429)GGG>AGG	p.G143R	NRG3_uc010qlz.1_Missense_Mutation_p.G143R|NRG3_uc001kcp.2_5'Flank|NRG3_uc001kcq.2_5'Flank	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	143	Ser/Thr-rich.|Extracellular (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)		cccctccgccGGGGGTGCCGC	0.527													4	15	---	---	---	---	PASS	A	83635523	A	A	83635523	3	1	161	1	0	0	0	0	1	0	0	0	10649	1116	39	1	429	1	NRG3	10	83635523	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1513322	83635523	51899224	233	56887										
CYP2C18	1562	broad.mit.edu	37	chr10	96447970	96447970	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tttgggatggggaagaggagCatcgaggaccgtgttcaaga	17	5	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:96447970C>T	uc001kjv.3	+	3	746	c.420C>T	c.(418-420)AGC>AGT	p.S140S	CYP2C18_uc001kjw.3_Silent_p.S140S|CYP2C19_uc009xus.1_Silent_p.S5S|CYP2C19_uc010qny.1_5'UTR	NM_000772	NP_000763	P33260	CP2CI_HUMAN	cytochrome P450 family 2 subfamily C polypeptide	140					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(3)|lung(1)|skin(1)	5		Colorectal(252;0.09)		all cancers(201;2.8e-06)|KIRC - Kidney renal clear cell carcinoma(50;0.0646)|Kidney(138;0.0805)		GGAAGAGGAGCATCGAGGACC	0.468													24	101	---	---	---	---	PASS	T	96447970	T	T	96447970	2	4	161	1	0	0	0	0	0	0	0	1	4165	709	25	3		3	CYP2C18	10	96447970	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	12812447	96447970	39086777	234	56888										
PNLIPRP3	119548	broad.mit.edu	37	chr10	118220583	118220583	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcatacaaatgcagctcgcaTcctctttgagcttggtaagt	8	10	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:118220583T>A	uc001lcl.3	+	6	772	c.671T>A	c.(670-672)ATC>AAC	p.I224N		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	224					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		GCAGCTCGCATCCTCTTTGAG	0.418													41	184	---	---	---	---	PASS	A	118220583	A	A	118220583	3	1	161	1	0	0	0	0	1	0	0	0	12152	1435	50	5	693	5	PNLIPRP3	10	118220583	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	21772613	118220583	17314164	235	56889										
PDZD8	118987	broad.mit.edu	37	chr10	119043529	119043529	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtttcctgtccttccagcctAaggtttttcagtgtcctgtc	8	12	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:119043529A>T	uc001lde.1	-	5	2914	c.2715T>A	c.(2713-2715)CTT>CTA	p.L905L		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	905					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		CTTCCAGCCTAAGGTTTTTCA	0.433													33	102	---	---	---	---	PASS	T	119043529	T	T	119043529	2	4	161	1	0	0	0	0	0	0	0	1	11705	349	13	5		5	PDZD8	10	119043529	Silent	SNP	A	TCGA-66-2782-01A-01D-1522-08	822946	119043529	16491218	236	56890										
FAM175B	23172	broad.mit.edu	37	chr10	126505162	126505162	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cagaaatccataaccatcagCcttgttcaaaactttttagg	5	10	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:126505162C>T	uc001lib.3	+	3	226	c.181C>T	c.(181-183)CCT>TCT	p.P61S		NM_032182	NP_115558	Q15018	F175B_HUMAN	hypothetical protein LOC23172	61	MPN-like.					BRISC complex	polyubiquitin binding				0						TAACCATCAGCCTTGTTCAAA	0.303													12	122	---	---	---	---	PASS	T	126505162	T	T	126505162	3	4	161	1	0	0	0	0	1	0	0	0	5498	739	26	3	191	3	FAM175B	10	126505162	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	7461633	126505162	9029585	237	56891										
C10orf137	26098	broad.mit.edu	37	chr10	127422226	127422226	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agtggcagcgatatagtgaaGctctatgacctcactactct	9	10	3	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:127422226G>A	uc001liq.1	+	11	1592	c.1299G>A	c.(1297-1299)AAG>AAA	p.K433K	C10orf137_uc001lin.2_Silent_p.K399K|C10orf137_uc001lio.1_Silent_p.K399K|C10orf137_uc001lip.1_Silent_p.K137K|C10orf137_uc001lir.2_5'Flank	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	433					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				ATATAGTGAAGCTCTATGACC	0.373													35	136	---	---	---	---	PASS	A	127422226	A	A	127422226	2	1	161	1	0	0	0	0	0	0	0	1	1594	962	34	3		3	C10orf137	10	127422226	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	917064	127422226	8112521	238	56892										
TCERG1L	256536	broad.mit.edu	37	chr10	132891470	132891470	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctgttttccttgtcccgtttCttaagaataagtatgaattg	7	7	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr10:132891470C>G	uc001lkp.2	-	12	1802	c.1716G>C	c.(1714-1716)AAG>AAC	p.K572N		NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	572										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		TGTCCCGTTTCTTAAGAATAA	0.468													3	119	---	---	---	---	PASS	G	132891470	G	G	132891470	3	3	161	1	0	0	0	0	1	0	0	0	15683	912	32	2	48	2	TCERG1L	10	132891470	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	5469244	132891470	2643277	239	56893										
PHRF1	57661	broad.mit.edu	37	chr11	608828	608828	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cctcggggaagggagtgctcCcccaccagcagcctggagag	15	14	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:608828C>T	uc001lqe.2	+	14	3503	c.3372C>T	c.(3370-3372)TCC>TCT	p.S1124S	PHRF1_uc010qwc.1_Silent_p.S1123S|PHRF1_uc010qwd.1_Silent_p.S1122S|PHRF1_uc010qwe.1_Silent_p.S1120S|PHRF1_uc009ybz.1_Silent_p.S914S|PHRF1_uc009yca.1_RNA	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	1124	Arg-rich.						RNA polymerase binding|zinc ion binding				0						GGGAGTGCTCCCCCACCAGCA	0.632													5	18	---	---	---	---	PASS	T	608828	T	T	608828	2	4	161	1	0	0	0	0	0	0	0	1	11861	610	22	3		3	PHRF1	11	608828	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08		608828	134397688	240	56894										
OR52N2	390077	broad.mit.edu	37	chr11	5841740	5841740	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gccatgaggaggccctgcacCggcccatgtactacttcctg	11	15	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:5841740C>G	uc010qzp.1	+	1	175	c.175C>G	c.(175-177)CGG>GGG	p.R59G	TRIM5_uc001mbq.1_Intron	NM_001005174	NP_001005174	Q8NGI0	O52N2_HUMAN	olfactory receptor, family 52, subfamily N,	59	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.H53_F64del(1)		ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.49e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGCCCTGCACCGGCCCATGTA	0.522													50	107	---	---	---	---	PASS	G	5841740	G	G	5841740	3	3	161	1	0	0	0	0	1	0	0	0	11128	643	23	4	177	4	OR52N2	11	5841740	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	5232912	5841740	129164776	241	56895										
OR2AG2	338755	broad.mit.edu	37	chr11	6789994	6789994	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aggaggtccatgagagagagCtgcccaagcaggaggtacat	15	8	0	2	rs148881109	by1000genomes	TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:6789994C>A	uc001meq.1	-	1	195	c.195G>T	c.(193-195)CAG>CAT	p.Q65H		NM_001004490	NP_001004490	A6NM03	O2AG2_HUMAN	olfactory receptor, family 2, subfamily AG,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TGAGAGAGAGCTGCCCAAGCA	0.547													38	107	---	---	---	---	PASS	A	6789994	A	A	6789994	3	1	161	1	0	0	0	0	1	0	0	0	10985	796	28	3	759	3	OR2AG2	11	6789994	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	948254	6789994	128216522	242	56896										
ZNF214	7761	broad.mit.edu	37	chr11	7022255	7022255	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttcctttacatttattacatCcacagtacttttcttccatt	1	11	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:7022255C>A	uc001mfa.2	-	3	962	c.659G>T	c.(658-660)GGA>GTA	p.G220V	ZNF214_uc010ray.1_Missense_Mutation_p.G220V|ZNF214_uc009yfh.1_Missense_Mutation_p.G220V	NM_013249	NP_037381	Q9UL59	ZN214_HUMAN	zinc finger protein 214	220					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				Epithelial(150;3.87e-08)|BRCA - Breast invasive adenocarcinoma(625;0.081)		TTTATTACATCCACAGTACTT	0.398													65	132	---	---	---	---	PASS	A	7022255	A	A	7022255	3	1	161	1	0	0	0	0	1	0	0	0	17767	855	30	2	1165	2	ZNF214	11	7022255	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	232261	7022255	127984261	243	56897										
KCNA4	3739	broad.mit.edu	37	chr11	30034013	30034013	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctctgagggtcatgggaggtAcaggccccgcgtgactggtg	17	10	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:30034013A>T	uc001msk.2	-	2	1365	c.213T>A	c.(211-213)TGT>TGA	p.C71*		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	71						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CATGGGAGGTACAGGCCCCGC	0.647													21	43	---	---	---	---	PASS	T	30034013	T	T	30034013	4	4	161	1	0	0	0	0	0	1	0	0	8005	389	14	5	1752	5	KCNA4	11	30034013	Nonsense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	23011758	30034013	104972503	244	56898										
SLC1A2	6506	broad.mit.edu	37	chr11	35313935	35313935	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aagtaaatcaaggggagaaaGatgcccccgtggatgatgag	14	6	1	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:35313935G>A	uc001mwd.2	-	7	1582	c.990C>T	c.(988-990)ATC>ATT	p.I330I	SLC1A2_uc001mwe.2_Silent_p.I321I|SLC1A2_uc010rev.1_Silent_p.I330I	NM_004171	NP_004162	P43004	EAA2_HUMAN	excitatory amino acid transporter 2	330	Helical; (Potential).				D-aspartate import|L-glutamate import|synaptic transmission	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|central_nervous_system(1)	3	all_lung(20;0.211)|all_epithelial(35;0.234)	all_hematologic(20;0.109)	STAD - Stomach adenocarcinoma(6;0.00731)		L-Glutamic Acid(DB00142)	AGGGGAGAAAGATGCCCCCGT	0.483													25	150	---	---	---	---	PASS	A	35313935	A	A	35313935	2	1	161	1	0	0	0	0	0	0	0	1	14432	932	33	2		2	SLC1A2	11	35313935	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	5279922	35313935	99692581	245	56899										
TTC17	55761	broad.mit.edu	37	chr11	43411364	43411364	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	acataactttggagagcaaaGacatcaggtaaagaagttct	9	6	2	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:43411364G>A	uc001mxi.2	+	3	426	c.412G>A	c.(412-414)GAC>AAC	p.D138N	TTC17_uc001mxh.2_Missense_Mutation_p.D138N|TTC17_uc010rfj.1_Missense_Mutation_p.D81N	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	138							binding			ovary(5)	5						GGAGAGCAAAGACATCAGGTA	0.363													41	92	---	---	---	---	PASS	A	43411364	A	A	43411364	3	1	161	1	0	0	0	0	1	0	0	0	16681	942	33	2	422	2	TTC17	11	43411364	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	8097429	43411364	91595152	246	56900										
ACCS	84680	broad.mit.edu	37	chr11	44102761	44102761	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tctgggctccgctttggcacGctgtacacagaaaaccagga	11	12	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:44102761G>C	uc009yks.1	+	12	1146	c.1002G>C	c.(1000-1002)ACG>ACC	p.T334T	EXT2_uc010rfo.1_Intron|ACCS_uc001mxx.2_Silent_p.T334T	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	334							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						GCTTTGGCACGCTGTACACAG	0.622													26	73	---	---	---	---	PASS	C	44102761	C	C	44102761	2	2	161	1	0	0	0	0	0	0	0	1	133	1074	38	4		4	ACCS	11	44102761	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	691397	44102761	90903755	247	56901										
PRDM11	56981	broad.mit.edu	37	chr11	45246232	45246232	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cctcccttgcatctgaccctCatgaacttcccaccacctct	3	20	3	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:45246232C>G	uc001myo.2	+	8	1558	c.1309C>G	c.(1309-1311)CAT>GAT	p.H437D		NM_020229	NP_064614	Q9NQV5	PRD11_HUMAN	PR domain containing 11	437										upper_aerodigestive_tract(1)	1						ATCTGACCCTCATGAACTTCC	0.527													62	352	---	---	---	---	PASS	G	45246232	G	G	45246232	3	3	161	1	0	0	0	0	1	0	0	0	12452	826	29	2	1335	2	PRDM11	11	45246232	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1143471	45246232	89760284	248	56902										
OR4A16	81327	broad.mit.edu	37	chr11	55111022	55111022	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aggtcttccttttggtggtgAtggcctatgatcgctatgtg	13	7	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:55111022A>T	uc010rie.1	+	1	346	c.346A>T	c.(346-348)ATG>TTG	p.M116L		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						TTTGGTGGTGATGGCCTATGA	0.463													104	357	---	---	---	---	PASS	T	55111022	T	T	55111022	3	4	161	1	0	0	0	0	1	0	0	0	11041	333	12	5	348	5	OR4A16	11	55111022	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	9864790	55111022	79895494	249	56903										
OR4C6	219432	broad.mit.edu	37	chr11	55433006	55433006	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgatggcctatgaccgctacGtggccatctgtaagcccctg	11	13	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:55433006G>T	uc001nht.3	+	3	629	c.364G>T	c.(364-366)GTG>TTG	p.V122L	OR4C6_uc010rik.1_Missense_Mutation_p.V122L	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TGACCGCTACGTGGCCATCTG	0.547													51	170	---	---	---	---	PASS	T	55433006	T	T	55433006	3	4	161	1	0	0	0	0	1	0	0	0	11052	1145	40	1	366	1	OR4C6	11	55433006	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	321984	55433006	79573510	250	56904										
OR8I2	120586	broad.mit.edu	37	chr11	55861452	55861452	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tatatcatcatcatctcagcCatcctgaggatccagtcagc	6	13	5	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:55861452C>A	uc010rix.1	+	1	669	c.669C>A	c.(667-669)GCC>GCA	p.A223A		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	223	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					TCATCTCAGCCATCCTGAGGA	0.468													61	187	---	---	---	---	PASS	A	55861452	A	A	55861452	2	1	161	1	0	0	0	0	0	0	0	1	11240	581	21	3		3	OR8I2	11	55861452	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	428446	55861452	79145064	251	56905										
OR5T2	219464	broad.mit.edu	37	chr11	56000216	56000216	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cagccaagagaaagcattctGtggttccaaaactacaagca	8	10	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:56000216G>T	uc010rjc.1	-	1	446	c.446C>A	c.(445-447)ACA>AAA	p.T149K		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	149	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AAAGCATTCTGTGGTTCCAAA	0.413													70	242	---	---	---	---	PASS	T	56000216	T	T	56000216	3	4	161	1	0	0	0	0	1	0	0	0	11182	1377	48	3	632	3	OR5T2	11	56000216	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	138764	56000216	79006300	252	56906										
OR9I1	219954	broad.mit.edu	37	chr11	57886014	57886014	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agtctcctagcgacctttctGaaggcgtcttttacatcttt	7	11	4	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:57886014G>A	uc001nml.1	-	1	903	c.903C>T	c.(901-903)TTC>TTT	p.F301F	OR9Q1_uc001nmj.2_Intron	NM_001005211	NP_001005211	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Breast(21;0.0589)				CGACCTTTCTGAAGGCGTCTT	0.428													46	357	---	---	---	---	PASS	A	57886014	A	A	57886014	2	1	161	1	0	0	0	0	0	0	0	1	11253	1281	45	2		2	OR9I1	11	57886014	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	1885798	57886014	77120502	253	56907										
OR9I1	219954	broad.mit.edu	37	chr11	57886577	57886577	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ataggccatcactgccagcaGaaagcactctgtgcctgcac	9	14	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:57886577G>C	uc001nml.1	-	1	340	c.340C>G	c.(340-342)CTG>GTG	p.L114V	OR9Q1_uc001nmj.2_Intron	NM_001005211	NP_001005211	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I,	114	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Breast(21;0.0589)				ACTGCCAGCAGAAAGCACTCT	0.552													8	65	---	---	---	---	PASS	C	57886577	C	C	57886577	3	2	161	1	0	0	0	0	1	0	0	0	11253	933	33	2	608	2	OR9I1	11	57886577	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	563	57886577	77119939	254	56908										
OR9Q2	219957	broad.mit.edu	37	chr11	57958547	57958547	+	Missense_Mutation	SNP	G	T	T													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgtggggacagctacactcaGgaagtggtgattattgtgtt							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:57958547G>T	uc010rka.1	+	1	585	c.585G>T	c.(583-585)CAG>CAT	p.Q195H		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	195	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				GCTACACTCAGGAAGTGGTGA	0.453													45	122	---	---	---	---	PASS	T	57958547	T	T	57958547	3	4	161	1	0	0	0	0	1	0	0	0	11256	991	35	3	587	3	OR9Q2	11	57958547	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	71970	57958547	77047969	255	56909	1016	2								
OR9Q2	219957	broad.mit.edu	37	chr11	57958548	57958548	+	Nonsense_Mutation	SNP	G	T	T													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtggggacagctacactcagGaagtggtgattattgtgttt							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:57958548G>T	uc010rka.1	+	1	586	c.586G>T	c.(586-588)GAA>TAA	p.E196*		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	196	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				CTACACTCAGGAAGTGGTGAT	0.448													45	122	---	---	---	---	PASS	T	57958548	T	T	57958548	4	4	161	1	0	0	0	0	0	1	0	0	11256	1175	41	2	588	2	OR9Q2	11	57958548	Nonsense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1	57958548	77047968	256	56910	1016	2								
OR5B12	390191	broad.mit.edu	37	chr11	58207079	58207079	+	Silent	SNP	G	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tctgaacatgagagagtcaaGagaggaggagcatcacagaa							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:58207079G>A	uc010rkh.1	-	1	546	c.546C>T	c.(544-546)CTC>CTT	p.L182L		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AGAGAGTCAAGAGAGGAGGAG	0.413													13	99	---	---	---	---	PASS	A	58207079	A	A	58207079	2	1	161	1	0	0	0	0	0	0	0	1	11148	929	33	2		2	OR5B12	11	58207079	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	248531	58207079	76799437	257	56911	1017	2								
OR5B12	390191	broad.mit.edu	37	chr11	58207084	58207084	+	Missense_Mutation	SNP	G	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	acatgagagagtcaagagagGaggagcatcacagaaaaagt							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:58207084G>A	uc010rkh.1	-	1	541	c.541C>T	c.(541-543)CCT>TCT	p.P181S		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GTCAAGAGAGGAGGAGCATCA	0.408													13	100	---	---	---	---	PASS	A	58207084	A	A	58207084	3	1	161	1	0	0	0	0	1	0	0	0	11148	1174	41	2	407	2	OR5B12	11	58207084	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	5	58207084	76799432	258	56912	1017	2								
DDB1	1642	broad.mit.edu	37	chr11	61067638	61067638	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cgagttagctcctccacaacCttgatgaggtcgtctgcagt	10	12	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:61067638C>A	uc001nrc.3	-	27	3619	c.3393G>T	c.(3391-3393)AAG>AAT	p.K1131N		NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	1131	Interaction with CDT1 and CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						CCTCCACAACCTTGATGAGGT	0.602								NER					13	46	---	---	---	---	PASS	A	61067638	A	A	61067638	3	1	161	1	0	0	0	0	1	0	0	0	4323	680	24	3	33	3	DDB1	11	61067638	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2860554	61067638	73938878	259	56913										
DAGLA	747	broad.mit.edu	37	chr11	61503805	61503805	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aggagatggtcctgtcccagGcctttgggcgagacctggtg	16	10	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:61503805G>T	uc001nsa.2	+	13	1465	c.1354G>T	c.(1354-1356)GCC>TCC	p.A452S		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	452	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		CCTGTCCCAGGCCTTTGGGCG	0.572													23	67	---	---	---	---	PASS	T	61503805	T	T	61503805	3	4	161	1	0	0	0	0	1	0	0	0	4226	1203	42	3	1400	3	DAGLA	11	61503805	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	436167	61503805	73502711	260	56914										
RTN3	10313	broad.mit.edu	37	chr11	63487075	63487075	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aaaactacaggacttgacatGagtgaatataattcagaaat	7	5	1	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:63487075G>A	uc001nxq.2	+	3	1288	c.1101G>A	c.(1099-1101)ATG>ATA	p.M367I	RTN3_uc001nxo.2_Intron|RTN3_uc001nxm.2_Intron|RTN3_uc001nxn.2_Missense_Mutation_p.M348I|RTN3_uc001nxp.2_Intron|RTN3_uc009yov.2_Missense_Mutation_p.M255I|RTN3_uc010rmt.1_Intron|RTN3_uc010rmu.1_Intron	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	367					apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						GACTTGACATGAGTGAATATA	0.373													7	130	---	---	---	---	PASS	A	63487075	A	A	63487075	3	1	161	1	0	0	0	0	1	0	0	0	13727	1290	45	2	1111	2	RTN3	11	63487075	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1983270	63487075	71519441	261	56915										
DLG2	1740	broad.mit.edu	37	chr11	83585513	83585513	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	attgaaggctgacgagttgcGgtgctatgttgggaatgact	15	5	0	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:83585513G>T	uc001paj.2	-	11	1503	c.1200C>A	c.(1198-1200)ACC>ACA	p.T400T	DLG2_uc001pai.2_Silent_p.T297T|DLG2_uc010rsy.1_Silent_p.T367T|DLG2_uc010rsz.1_Silent_p.T400T|DLG2_uc010rta.1_Silent_p.T400T|DLG2_uc001pak.2_Silent_p.T505T|DLG2_uc010rtb.1_Silent_p.T367T|DLG2_uc001pal.1_Silent_p.T400T|DLG2_uc001pam.1_Silent_p.T439T	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	400						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				GACGAGTTGCGGTGCTATGTT	0.338													18	57	---	---	---	---	PASS	T	83585513	T	T	83585513	2	4	161	1	0	0	0	0	0	0	0	1	4555	1103	39	1		1	DLG2	11	83585513	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	20098438	83585513	51421003	262	56916										
HEPHL1	341208	broad.mit.edu	37	chr11	93800830	93800830	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gactgatgtcgtcaacctgtTcccagccaccttccttacaa	6	15	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:93800830T>A	uc001pep.2	+	5	1134	c.977T>A	c.(976-978)TTC>TAC	p.F326Y	uc001pen.1_RNA	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	326	Plastocyanin-like 2.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				GTCAACCTGTTCCCAGCCACC	0.453													24	224	---	---	---	---	PASS	A	93800830	A	A	93800830	3	1	161	1	0	0	0	0	1	0	0	0	7055	1783	62	5	995	5	HEPHL1	11	93800830	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	10215317	93800830	41205686	263	56917										
HEPHL1	341208	broad.mit.edu	37	chr11	93844934	93844934	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gccaaggcagccttggtcatCcttttcatcattggactcct	8	13	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:93844934C>A	uc001pep.2	+	20	3511	c.3354C>A	c.(3352-3354)ATC>ATA	p.I1118I	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	1118	Helical; (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				CCTTGGTCATCCTTTTCATCA	0.478													22	188	---	---	---	---	PASS	A	93844934	A	A	93844934	2	1	161	1	0	0	0	0	0	0	0	1	7055	845	30	2		2	HEPHL1	11	93844934	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	44104	93844934	41161582	264	56918										
RNF26	79102	broad.mit.edu	37	chr11	119206154	119206154	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggcacctggcctctcatgggGcactgcggagcagggagata	16	11	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:119206154G>C	uc001pwh.2	+	1	918	c.322G>C	c.(322-324)GCA>CCA	p.A108P		NM_032015	NP_114404	Q9BY78	RNF26_HUMAN	ring finger protein 26	108	Leu-rich.						zinc ion binding			ovary(1)	1		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.8e-05)		CTCTCATGGGGCACTGCGGAG	0.602													26	189	---	---	---	---	PASS	C	119206154	C	C	119206154	3	2	161	1	0	0	0	0	1	0	0	0	13486	1203	42	4	324	4	RNF26	11	119206154	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	25361220	119206154	15800362	265	56919										
ROBO4	54538	broad.mit.edu	37	chr11	124757085	124757085	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gctggcagcaggatggaggaGggagcctgtggtgccaccgg	20	9	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:124757085G>T	uc001qbg.2	-	15	2363	c.2223C>A	c.(2221-2223)CCC>CCA	p.P741P	ROBO4_uc010sas.1_Silent_p.P596P|ROBO4_uc001qbh.2_Silent_p.P631P|ROBO4_uc001qbi.2_Silent_p.P299P	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	741	Pro/Ser-rich.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		GGATGGAGGAGGGAGCCTGTG	0.642													19	106	---	---	---	---	PASS	T	124757085	T	T	124757085	2	4	161	1	0	0	0	0	0	0	0	1	13516	987	35	3		3	ROBO4	11	124757085	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	5550931	124757085	10249431	266	56920										
ROBO4	54538	broad.mit.edu	37	chr11	124757306	124757306	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atgaggaaagaggggtgctgGagggagatgacgagtaacca	18	4	0	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr11:124757306G>A	uc001qbg.2	-	14	2286	c.2146C>T	c.(2146-2148)CCA>TCA	p.P716S	ROBO4_uc010sas.1_Missense_Mutation_p.P571S|ROBO4_uc001qbh.2_Missense_Mutation_p.P606S|ROBO4_uc001qbi.2_Missense_Mutation_p.P274S	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	716	Pro/Ser-rich.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		AGGGGTGCTGGAGGGAGATGA	0.607													13	107	---	---	---	---	PASS	A	124757306	A	A	124757306	3	1	161	1	0	0	0	0	1	0	0	0	13516	1174	41	2	897	2	ROBO4	11	124757306	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	221	124757306	10249210	267	56921										
PRMT8	56341	broad.mit.edu	37	chr12	3649958	3649958	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cccactttgggatccacgagGtaaagtgtcccgagtgggtg	14	10	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:3649958G>A	uc001qmf.2	+	2	628	c.261_splice	c.e2+1	p.E87_splice	PRMT8_uc009zed.2_Splice_Site_p.E78_splice|PRMT8_uc009zee.1_Splice_Site	NM_019854	NP_062828	Q9NR22	ANM8_HUMAN	HMT1 hnRNP methyltransferase-like 4						regulation of protein binding	cytoplasm|plasma membrane	histone-arginine N-methyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity			ovary(3)|central_nervous_system(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(31;0.0109)|COAD - Colon adenocarcinoma(12;0.0264)			GATCCACGAGGTAAAGTGTCC	0.527													55	221	---	---	---	---	PASS	A	3649958	A	A	3649958	5	1	161	1	0	0	0	0	0	0	1	0	12542	1275	44	3	268	3	PRMT8	12	3649958	Splice_Site	SNP	G	TCGA-66-2782-01A-01D-1522-08		3649958	130201937	268	56922										
ACSM4	341392	broad.mit.edu	37	chr12	7476890	7476890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	acaatccacagaaaactgctGccacgataagaggagatttt	8	9	0	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:7476890G>T	uc001qsx.1	+	10	1330	c.1330G>T	c.(1330-1332)GCC>TCC	p.A444S		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	444					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						GAAAACTGCTGCCACGATAAG	0.448													8	36	---	---	---	---	PASS	T	7476890	T	T	7476890	3	4	161	1	0	0	0	0	1	0	0	0	186	1319	46	3	1368	3	ACSM4	12	7476890	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3826932	7476890	126375005	269	56923										
DPPA3	359787	broad.mit.edu	37	chr12	7869565	7869565	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttcatcattttttttcagaaGgaatcaagaccattcaaatg	5	7	5	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:7869565G>A	uc001qtf.2	+	4	450	c.372G>A	c.(370-372)AAG>AAA	p.K124K		NM_199286	NP_954980	Q6W0C5	DPPA3_HUMAN	stella	124						cytoplasm|nucleus					0				Kidney(36;0.0887)		TTTTTCAGAAGGAATCAAGAC	0.378													37	144	---	---	---	---	PASS	A	7869565	A	A	7869565	2	1	161	1	0	0	0	0	0	0	0	1	4735	991	35	3		3	DPPA3	12	7869565	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	392675	7869565	125982330	270	56924										
CLEC12A	160364	broad.mit.edu	37	chr12	10133281	10133281	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tggcaggagagtaaaatggcCtgtgctgctcagaatgccag	14	8	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:10133281C>A	uc001qwr.3	+	4	668	c.480C>A	c.(478-480)GCC>GCA	p.A160A	CLEC12A_uc001qwq.2_Silent_p.A170A|CLEC12A_uc001qws.3_Silent_p.A127A|CLEC12A_uc001qwt.2_Silent_p.A89A	NM_138337	NP_612210	Q5QGZ9	CL12A_HUMAN	myeloid inhibitory C-type lectin-like receptor	160	Extracellular (Potential).|C-type lectin.					integral to membrane|plasma membrane	receptor activity|sugar binding	p.A160T(1)		skin(1)	1						GTAAAATGGCCTGTGCTGCTC	0.448													41	107	---	---	---	---	PASS	A	10133281	A	A	10133281	2	1	161	1	0	0	0	0	0	0	0	1	3497	668	24	3		3	CLEC12A	12	10133281	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	2263716	10133281	123718614	271	56925										
CSDA	8531	broad.mit.edu	37	chr12	10854608	10854608	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gaggacgcgggcgacgccggTaattgtagggacgccggtat	18	9	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:10854608T>A	uc001qyt.2	-	8	1247	c.1004A>T	c.(1003-1005)TAC>TTC	p.Y335F	CSDA_uc001qyu.2_Missense_Mutation_p.Y266F	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	335					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					GCGACGCCGGTAATTGTAGGG	0.542													82	256	---	---	---	---	PASS	A	10854608	A	A	10854608	3	1	161	1	0	0	0	0	1	0	0	0	3927	1638	57	5	122	5	CSDA	12	10854608	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	721327	10854608	122997287	272	56926										
GRIN2B	2904	broad.mit.edu	37	chr12	13906731	13906731	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttacaaagtcctggtagccaGggaaataggtggtgacgata	13	6	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:13906731G>A	uc001rbt.2	-	3	709	c.530C>T	c.(529-531)CCT>CTT	p.P177L		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	177	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CTGGTAGCCAGGGAAATAGGT	0.478													53	141	---	---	---	---	PASS	A	13906731	A	A	13906731	3	1	161	1	0	0	0	0	1	0	0	0	6780	1000	35	3	3968	3	GRIN2B	12	13906731	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3052123	13906731	119945164	273	56927										
PLEKHA5	54477	broad.mit.edu	37	chr12	19408041	19408041	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aataagtatgataaatgaagCttctaactataacgtgactt	6	5	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:19408041C>A	uc001reb.2	+	5	460	c.374C>A	c.(373-375)GCT>GAT	p.A125D	PLEKHA5_uc010sie.1_Missense_Mutation_p.A125D|PLEKHA5_uc001rea.2_Missense_Mutation_p.A125D|PLEKHA5_uc009zin.2_5'UTR|PLEKHA5_uc010sif.1_Missense_Mutation_p.A17D|PLEKHA5_uc010sig.1_Missense_Mutation_p.A17D|PLEKHA5_uc010sih.1_Missense_Mutation_p.A17D	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	125							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					ATAAATGAAGCTTCTAACTAT	0.348													4	174	---	---	---	---	PASS	A	19408041	A	A	19408041	3	1	161	1	0	0	0	0	1	0	0	0	12059	797	28	3	392	3	PLEKHA5	12	19408041	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	5501310	19408041	114443854	274	56928										
LDHB	3945	broad.mit.edu	37	chr12	21788641	21788641	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcattctcaatgccatacatCccctgccagaacaacaaagc	4	15	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:21788641C>A	uc001rfc.2	-	7	858	c.840G>T	c.(838-840)GGG>GGT	p.G280G	LDHB_uc001rfd.2_Silent_p.G280G|LDHB_uc001rfe.2_Silent_p.G280G	NM_002300	NP_002291	P07195	LDHB_HUMAN	L-lactate dehydrogenase B	280					glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity			breast(2)|ovary(1)	3					NADH(DB00157)	TGCCATACATCCCCTGCCAGA	0.348													24	88	---	---	---	---	PASS	A	21788641	A	A	21788641	2	1	161	1	0	0	0	0	0	0	0	1	8701	842	30	2		2	LDHB	12	21788641	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	2380600	21788641	112063254	275	56929										
LRRK2	120892	broad.mit.edu	37	chr12	40760848	40760848	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctggtattgggctacaaccgGaaaaatactgaaggtacaca	10	8	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:40760848G>T	uc001rmg.3	+	50	7552	c.7431G>T	c.(7429-7431)CGG>CGT	p.R2477R	LRRK2_uc009zjw.2_Silent_p.R1315R|LRRK2_uc001rmi.2_3'UTR	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2477					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)				GCTACAACCGGAAAAATACTG	0.328													16	83	---	---	---	---	PASS	T	40760848	T	T	40760848	2	4	161	1	0	0	0	0	0	0	0	1	9033	1161	41	2		2	LRRK2	12	40760848	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	18972207	40760848	93091047	276	56930										
ACVR1B	91	broad.mit.edu	37	chr12	52380679	52380679	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	taaatgtgctgatatttatgCcctcgggcttgtatattggg	11	6	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:52380679C>T	uc001rzn.2	+	7	1256	c.1214C>T	c.(1213-1215)GCC>GTC	p.A405V	ACVR1B_uc001rzl.2_Missense_Mutation_p.A405V|ACVR1B_uc001rzm.2_Missense_Mutation_p.A405V|ACVR1B_uc010snn.1_Missense_Mutation_p.A446V	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	405	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	GATATTTATGCCCTCGGGCTT	0.418													5	251	---	---	---	---	PASS	T	52380679	T	T	52380679	3	4	161	1	0	0	0	0	1	0	0	0	221	739	26	3	1367	3	ACVR1B	12	52380679	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	11619831	52380679	81471216	277	56931										
NR4A1	3164	broad.mit.edu	37	chr12	52451220	52451220	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gcccgtggcttcggggactgGattgacagtatcctggcctt	14	11	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:52451220G>A	uc001rzs.2	+	7	1760	c.1446G>A	c.(1444-1446)TGG>TGA	p.W482*	NR4A1_uc010sno.1_Nonsense_Mutation_p.W495*|NR4A1_uc001rzt.2_Nonsense_Mutation_p.W482*|NR4A1_uc009zmc.2_Missense_Mutation_p.G96E	NM_002135	NP_002126	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	482					nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0967)		TCGGGGACTGGATTGACAGTA	0.612													16	68	---	---	---	---	PASS	A	52451220	A	A	52451220	4	1	161	1	0	0	0	0	0	1	0	0	10632	1183	41	2	1464	2	NR4A1	12	52451220	Nonsense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	70541	52451220	81400675	278	56932										
KRT1	3848	broad.mit.edu	37	chr12	53070088	53070088	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tctccctccaggagggtcctGtaggtggcaatctccagatc	11	13	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:53070088G>A	uc001sau.1	-	7	1505	c.1446C>T	c.(1444-1446)TAC>TAT	p.Y482Y	KRT1_uc001sav.1_Silent_p.Y482Y	NM_006121	NP_006112	P04264	K2C1_HUMAN	keratin 1	482	Rod.|Coil 2.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding			ovary(1)|skin(1)	2						GGAGGGTCCTGTAGGTGGCAA	0.572													12	61	---	---	---	---	PASS	A	53070088	A	A	53070088	2	1	161	1	0	0	0	0	0	0	0	1	8447	1372	48	3		3	KRT1	12	53070088	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	618868	53070088	80781807	279	56933										
HOXC10	3226	broad.mit.edu	37	chr12	54379542	54379542	+	Missense_Mutation	SNP	G	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agacgccccactgttctgggGccaacgacttcgaagcccct							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:54379542G>A	uc001sen.2	+	1	597	c.499G>A	c.(499-501)GCC>ACC	p.A167T		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	167					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						CTGTTCTGGGGCCAACGACTT	0.657													7	55	---	---	---	---	PASS	A	54379542	A	A	54379542	3	1	161	1	0	0	0	0	1	0	0	0	7309	1203	42	3	501	3	HOXC10	12	54379542	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1309454	54379542	79472353	280	56934	1018	2								
HOXC10	3226	broad.mit.edu	37	chr12	54379543	54379543	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gacgccccactgttctggggCcaacgacttcgaagcccctt							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:54379543C>A	uc001sen.2	+	1	598	c.500C>A	c.(499-501)GCC>GAC	p.A167D		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	167					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						TGTTCTGGGGCCAACGACTTC	0.657													6	55	---	---	---	---	PASS	A	54379543	A	A	54379543	3	1	161	1	0	0	0	0	1	0	0	0	7309	739	26	3	502	3	HOXC10	12	54379543	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	54379543	79472352	281	56935	1018	2								
HSD17B6	8630	broad.mit.edu	37	chr12	57167625	57167625	+	Translation_Start_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tttctattgaaagagaaggaAgcaccctcactatgtggctc	9	9	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:57167625A>T	uc001smg.1	+	2	99	c.-11A>T	c.(-13--9)GAAGC>GATGC			NM_003725	NP_003716	O14756	H17B6_HUMAN	hydroxysteroid (17-beta) dehydrogenase 6						androgen biosynthetic process|androgen catabolic process	early endosome membrane|endoplasmic reticulum|microsome	binding|electron carrier activity|estradiol 17-beta-dehydrogenase activity|retinol dehydrogenase activity|testosterone 17-beta-dehydrogenase (NAD+) activity			upper_aerodigestive_tract(1)|pancreas(1)	2					Succinic acid(DB00139)	AAGAGAAGGAAGCACCCTCAC	0.363													24	71	---	---	---	---	PASS	T	57167625	T	T	57167625	1	4	161	1	0	0	0	0	0	0	0	0	7387	87	3	5		5	HSD17B6	12	57167625	Translation_Start_Site	SNP	A	TCGA-66-2782-01A-01D-1522-08	2788082	57167625	76684270	282	56936										
TRHDE	29953	broad.mit.edu	37	chr12	72962382	72962382	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttccattaactattgtggtaGgaaatagaagccatgtgtct	9	6	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:72962382G>C	uc001sxa.2	+	10	1972	c.1942G>C	c.(1942-1944)GGA>CGA	p.G648R		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	648	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TATTGTGGTAGGAAATAGAAG	0.318													23	121	---	---	---	---	PASS	C	72962382	C	C	72962382	3	2	161	1	0	0	0	0	1	0	0	0	16476	1001	35	4	1980	4	TRHDE	12	72962382	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	15794757	72962382	60889513	283	56937										
TRHDE	29953	broad.mit.edu	37	chr12	73056875	73056875	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgatggggtagctgctgcttCtttctcacgagctgtggaaa	13	8	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:73056875C>T	uc001sxa.2	+	19	3005	c.2975C>T	c.(2974-2976)TCT>TTT	p.S992F		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	992	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						GCTGCTGCTTCTTTCTCACGA	0.408													32	97	---	---	---	---	PASS	T	73056875	T	T	73056875	3	4	161	1	0	0	0	0	1	0	0	0	16476	913	32	2	3049	2	TRHDE	12	73056875	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	94493	73056875	60795020	284	56938										
NAV3	89795	broad.mit.edu	37	chr12	78515828	78515828	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	accacattagcgcggcaaggCagtctggagtcaccgtcgtc	12	13	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:78515828C>A	uc001syp.2	+	16	4031	c.3858C>A	c.(3856-3858)GGC>GGA	p.G1286G	NAV3_uc001syo.2_Silent_p.G1286G|NAV3_uc010sub.1_Silent_p.G786G|NAV3_uc009zsf.2_Intron	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1286	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CGCGGCAAGGCAGTCTGGAGT	0.562										HNSCC(70;0.22)			18	91	---	---	---	---	PASS	A	78515828	A	A	78515828	2	1	161	1	0	0	0	0	0	0	0	1	10185	697	25	3		3	NAV3	12	78515828	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	5458953	78515828	55336067	285	56939										
CDK17	5128	broad.mit.edu	37	chr12	96683066	96683066	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgacttggctcgggctagtcCttcatagggaaaataaaaca	10	8	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:96683066C>A	uc001tep.1	-	11	1487	c.998_splice	c.e11-1	p.G333_splice	CDK17_uc009ztk.2_Splice_Site_p.G333_splice|CDK17_uc010svb.1_Splice_Site_p.G280_splice	NM_002595	NP_002586	Q00537	CDK17_HUMAN	PCTAIRE protein kinase 2								ATP binding|cyclin-dependent protein kinase activity			ovary(3)|lung(2)|kidney(1)|central_nervous_system(1)	7						CGGGCTAGTCCTTCATAGGGA	0.448													4	160	---	---	---	---	PASS	A	96683066	A	A	96683066	5	1	161	1	0	0	0	0	0	0	1	0	3133	695	24	3	640	3	CDK17	12	96683066	Splice_Site	SNP	C	TCGA-66-2782-01A-01D-1522-08	18167238	96683066	37168829	286	56940										
ANKS1B	56899	broad.mit.edu	37	chr12	99222964	99222964	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caccttacctgagccatctgCctctccagttttgatcgggg	9	14	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:99222964C>A	uc001tge.1	-	19	3471	c.3054G>T	c.(3052-3054)AGG>AGT	p.R1018S	ANKS1B_uc001tgf.1_Intron|ANKS1B_uc001tgk.2_Missense_Mutation_p.R315S|ANKS1B_uc010svd.1_Missense_Mutation_p.R24S|ANKS1B_uc001tgd.1_Intron|ANKS1B_uc009ztq.2_5'UTR|ANKS1B_uc010sve.1_Missense_Mutation_p.R24S|ANKS1B_uc001tgh.3_Missense_Mutation_p.R24S|ANKS1B_uc001tgi.2_Missense_Mutation_p.R244S|ANKS1B_uc009ztr.2_Intron|ANKS1B_uc001tgj.2_Intron|ANKS1B_uc009ztp.2_Missense_Mutation_p.R24S|ANKS1B_uc010svf.1_Missense_Mutation_p.R24S|ANKS1B_uc001tgg.3_Intron|ANKS1B_uc010svg.1_Intron|ANKS1B_uc009zts.1_Missense_Mutation_p.R244S	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	1018						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		GAGCCATCTGCCTCTCCAGTT	0.418													72	360	---	---	---	---	PASS	A	99222964	A	A	99222964	3	1	161	1	0	0	0	0	1	0	0	0	689	738	26	3	915	3	ANKS1B	12	99222964	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2539898	99222964	34628931	287	56941										
MYBPC1	4604	broad.mit.edu	37	chr12	102067297	102067297	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aactctgagactgatacaatCatatttattagaaaagcaga	6	6	2	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:102067297C>A	uc001tii.2	+	24	2787	c.2685C>A	c.(2683-2685)ATC>ATA	p.I895I	MYBPC1_uc001tig.2_Silent_p.I902I|MYBPC1_uc010svq.1_Silent_p.I864I|MYBPC1_uc001tih.2_Silent_p.I902I|MYBPC1_uc001tij.2_Silent_p.I877I|MYBPC1_uc010svr.1_Silent_p.I877I|MYBPC1_uc010svs.1_Silent_p.I895I|MYBPC1_uc010svt.1_Silent_p.I865I|MYBPC1_uc010svu.1_Silent_p.I858I|MYBPC1_uc001tik.2_Silent_p.I851I|MYBPC1_uc001til.2_5'UTR|MYBPC1_uc001tim.2_5'UTR	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	895	Ig-like C2-type 6.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						CTGATACAATCATATTTATTA	0.383													88	248	---	---	---	---	PASS	A	102067297	A	A	102067297	2	1	161	1	0	0	0	0	0	0	0	1	10011	816	29	2		2	MYBPC1	12	102067297	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	2844333	102067297	31784598	288	56942										
NAA25	80018	broad.mit.edu	37	chr12	112513519	112513519	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccgggaaagggcattgcactCtggccacctgctcagcttct	11	14	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:112513519C>G	uc001ttm.2	-	8	759	c.739G>C	c.(739-741)GAG>CAG	p.E247Q	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Missense_Mutation_p.E219Q|NAA25_uc009zwa.1_Missense_Mutation_p.E247Q	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	247						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						GCATTGCACTCTGGCCACCTG	0.403													3	110	---	---	---	---	PASS	G	112513519	G	G	112513519	3	3	161	1	0	0	0	0	1	0	0	0	10121	922	32	2	2247	2	NAA25	12	112513519	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	10446222	112513519	21338376	289	56943										
SDSL	113675	broad.mit.edu	37	chr12	113867083	113867083	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aggctgcagggggagggggcCgaggttcagctgactggaaa	20	7	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:113867083C>T	uc001tvi.2	+	5	543	c.333C>T	c.(331-333)GCC>GCT	p.A111A	SDSL_uc009zwh.2_Silent_p.A111A	NM_138432	NP_612441	Q96GA7	SDSL_HUMAN	serine dehydratase-like	111					cellular amino acid metabolic process		L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	GGGAGGGGGCCGAGGTTCAGC	0.627													11	93	---	---	---	---	PASS	T	113867083	T	T	113867083	2	4	161	1	0	0	0	0	0	0	0	1	13976	639	23	1		1	SDSL	12	113867083	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	1353564	113867083	19984812	290	56944										
MED13L	23389	broad.mit.edu	37	chr12	116429528	116429528	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gaggctggtgatccttgatcGgtgctatcatacttaacaga	11	8	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:116429528G>A	uc001tvw.2	-	17	3286	c.3231C>T	c.(3229-3231)ACC>ACT	p.T1077T		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1077					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		ATCCTTGATCGGTGCTATCAT	0.602													11	105	---	---	---	---	PASS	A	116429528	A	A	116429528	2	1	161	1	0	0	0	0	0	0	0	1	9431	1103	39	1		1	MED13L	12	116429528	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	2562445	116429528	17422367	291	56945										
CCDC62	84660	broad.mit.edu	37	chr12	123282703	123282703	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aattctcaggaattaatacaGatgtatgactcaaagatgga	8	5	2	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:123282703G>A	uc001udc.2	+	8	1078	c.933G>A	c.(931-933)CAG>CAA	p.Q311Q	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Silent_p.Q311Q|CCDC62_uc001ude.2_Silent_p.Q72Q	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	311	Potential.					cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		AATTAATACAGATGTATGACT	0.299													23	59	---	---	---	---	PASS	A	123282703	A	A	123282703	2	1	161	1	0	0	0	0	0	0	0	1	2833	933	33	2		2	CCDC62	12	123282703	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	6853175	123282703	10569192	292	56946										
PIWIL1	9271	broad.mit.edu	37	chr12	130832721	130832721	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atgacccaattgatattccaAgtcacaggtttgtatgaagt	8	7	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:130832721A>T	uc001uik.2	+	7	817	c.727A>T	c.(727-729)AGT>TGT	p.S243C	PIWIL1_uc001uij.1_Missense_Mutation_p.S243C	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	243					gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		TGATATTCCAAGTCACAGGTT	0.328													12	91	---	---	---	---	PASS	T	130832721	T	T	130832721	3	4	161	1	0	0	0	0	1	0	0	0	11957	72	3	5	749	5	PIWIL1	12	130832721	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	7550018	130832721	3019174	293	56947										
GOLGA3	2802	broad.mit.edu	37	chr12	133363343	133363343	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctcattggcctctgtgaccgCgaccatctgctccttatcga	8	15	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr12:133363343C>A	uc001ukz.1	-	14	3401	c.2842G>T	c.(2842-2844)GCG>TCG	p.A948S	GOLGA3_uc001ula.1_Missense_Mutation_p.A948S|GOLGA3_uc001ulb.2_Missense_Mutation_p.A948S	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	948	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		TCTGTGACCGCGACCATCTGC	0.622													31	103	---	---	---	---	PASS	A	133363343	A	A	133363343	3	1	161	1	0	0	0	0	1	0	0	0	6554	768	27	1	1836	1	GOLGA3	12	133363343	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2530622	133363343	488552	294	56948										
MTUS2	23281	broad.mit.edu	37	chr13	29608164	29608164	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccgtttaccatctgcaaagaGcaggattctgattgcaagtc	9	10	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr13:29608164G>T	uc001usl.3	+	2	2436	c.2378G>T	c.(2377-2379)AGC>ATC	p.S793I		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	783	Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						TCTGCAAAGAGCAGGATTCTG	0.512													8	70	---	---	---	---	PASS	T	29608164	T	T	29608164	3	4	161	1	0	0	0	0	1	0	0	0	9966	971	34	3	2384	3	MTUS2	13	29608164	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08		29608164	85561714	295	56949										
FRY	10129	broad.mit.edu	37	chr13	32722036	32722036	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcccgcggtgtggtaccaagGgacatgcctctgaacatctt	11	12	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr13:32722036G>T	uc001utx.2	+	13	1840	c.1344G>T	c.(1342-1344)AGG>AGT	p.R448S	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	448					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		TGGTACCAAGGGACATGCCTC	0.468													28	116	---	---	---	---	PASS	T	32722036	T	T	32722036	3	4	161	1	0	0	0	0	1	0	0	0	6063	1223	43	3	1394	3	FRY	13	32722036	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3113872	32722036	82447842	296	56950										
NUFIP1	26747	broad.mit.edu	37	chr13	45533569	45533569	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctgcatttgcctccggtggaCcttctagcttcaaatcacac	7	14	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr13:45533569C>G	uc001uzp.2	-	7	1010	c.968G>C	c.(967-969)GGT>GCT	p.G323A		NM_012345	NP_036477	Q9UHK0	NUFP1_HUMAN	nuclear fragile X mental retardation protein	323					box C/D snoRNP assembly|positive regulation of transcription from RNA polymerase II promoter|RNA processing	actin cytoskeleton|cytosolic ribosome|nuclear matrix|nucleolus|perichromatin fibrils|pre-snoRNP complex|presynaptic active zone|transcription elongation factor complex	DNA binding|identical protein binding|protein binding, bridging|RNA binding|zinc ion binding				0		Lung NSC(96;8.23e-05)|Breast(139;0.00378)|Prostate(109;0.0107)|all_hematologic(4;0.014)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)|Acute lymphoblastic leukemia(4;0.143)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000306)|BRCA - Breast invasive adenocarcinoma(63;0.125)		CTCCGGTGGACCTTCTAGCTT	0.403													37	187	---	---	---	---	PASS	G	45533569	G	G	45533569	3	3	161	1	0	0	0	0	1	0	0	0	10748	507	18	4	535	4	NUFIP1	13	45533569	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	12811533	45533569	69636309	297	56951										
DACH1	1602	broad.mit.edu	37	chr13	72204792	72204792	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgatttttttcaccttcattGcttcagcaatagctgcattg	6	9	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr13:72204792G>A	uc010thn.1	-	4	1445	c.1022C>T	c.(1021-1023)GCA>GTA	p.A341V	DACH1_uc010tho.1_Missense_Mutation_p.A341V|DACH1_uc010thp.1_Intron	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	341	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)		CACCTTCATTGCTTcagcaat	0.259													17	233	---	---	---	---	PASS	A	72204792	A	A	72204792	3	1	161	1	0	0	0	0	1	0	0	0	4220	1319	46	3	1134	3	DACH1	13	72204792	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	26671223	72204792	42965086	298	56952										
KLF5	688	broad.mit.edu	37	chr13	73636282	73636282	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gactgcccctcctccggcccCgacccaggccctccctgagt	9	22	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr13:73636282C>T	uc001vje.2	+	2	869	c.545C>T	c.(544-546)CCG>CTG	p.P182L	KLF5_uc001vjd.2_Missense_Mutation_p.P91L	NM_001730	NP_001721	Q13887	KLF5_HUMAN	Kruppel-like factor 5	182					transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|pancreas(1)	3		Prostate(6;0.00187)|Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.0011)		CCTCCGGCCCCGACCCAGGCC	0.527													28	118	---	---	---	---	PASS	T	73636282	T	T	73636282	3	4	161	1	0	0	0	0	1	0	0	0	8349	652	23	1	551	1	KLF5	13	73636282	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1431490	73636282	41533596	299	56953										
SLITRK5	26050	broad.mit.edu	37	chr13	88329495	88329495	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgtgccctgactattcagatGtagtagtttccacgcccaca	8	12	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr13:88329495G>A	uc001vln.2	+	2	2071	c.1852G>A	c.(1852-1854)GTA>ATA	p.V618I	SLITRK5_uc010tic.1_Missense_Mutation_p.V377I	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	618	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CTATTCAGATGTAGTAGTTTC	0.597													21	179	---	---	---	---	PASS	A	88329495	A	A	88329495	3	1	161	1	0	0	0	0	1	0	0	0	14746	1377	48	3	1854	3	SLITRK5	13	88329495	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	14693213	88329495	26840383	300	56954										
FGF14	2259	broad.mit.edu	37	chr13	102527548	102527548	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcacttactagaattagtgcTgtcatccttggttccatcga	7	10	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr13:102527548T>A	uc001vpe.2	-	2	292	c.292A>T	c.(292-294)AGC>TGC	p.S98C	FGF14_uc001vpf.2_Missense_Mutation_p.S103C	NM_004115	NP_004106	Q92915	FGF14_HUMAN	fibroblast growth factor 14 isoform 1A	98					cell death|cell-cell signaling|JNK cascade|nervous system development|signal transduction	nucleus	growth factor activity|heparin binding			ovary(2)|lung(1)|large_intestine(1)	4	all_neural(89;0.0239)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GAATTAGTGCTGTCATCCTTG	0.433													10	76	---	---	---	---	PASS	A	102527548	A	A	102527548	3	1	161	1	0	0	0	0	1	0	0	0	5843	1580	55	5	467	5	FGF14	13	102527548	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	14198053	102527548	12642330	301	56955										
EFNB2	1948	broad.mit.edu	37	chr13	107187250	107187250	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atcgatttggaaatcgcagtTctgcataaaaccatcaaaac	6	9	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr13:107187250T>C	uc001vqi.2	-	1	88	c.63A>G	c.(61-63)AGA>AGG	p.R21R		NM_004093	NP_004084	P52799	EFNB2_HUMAN	ephrin B2 precursor	21					cell differentiation|cell-cell signaling|interspecies interaction between organisms|nervous system development	integral to plasma membrane	ephrin receptor binding			ovary(1)	1	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					AAATCGCAGTTCTGCATAAAA	0.493													6	47	---	---	---	---	PASS	C	107187250	C	C	107187250	2	2	161	1	0	0	0	0	0	0	0	1	4956	1780	62	5		5	EFNB2	13	107187250	Silent	SNP	T	TCGA-66-2782-01A-01D-1522-08	4659702	107187250	7982628	302	56956										
OR4M1	441670	broad.mit.edu	37	chr14	20249325	20249325	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgtttcatactgtaatattcCctttacttaatcccattatt	2	9	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr14:20249325C>T	uc010tku.1	+	1	844	c.844C>T	c.(844-846)CCT>TCT	p.P282S		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	282	Helical; Name=7; (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)		TGTAATATTCCCTTTACTTAA	0.383													29	204	---	---	---	---	PASS	T	20249325	T	T	20249325	3	4	161	1	0	0	0	0	1	0	0	0	11075	623	22	3	846	3	OR4M1	14	20249325	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08		20249325	87100215	303	56957										
OR4K17	390436	broad.mit.edu	37	chr14	20586279	20586279	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gccaacagtggcataatctcCctgagctgtttcattatttt	7	10	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr14:20586279C>T	uc001vwo.1	+	1	714	c.714C>T	c.(712-714)TCC>TCT	p.S238S		NM_001004715	NP_001004715	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		GCATAATCTCCCTGAGCTGTT	0.408													99	341	---	---	---	---	PASS	T	20586279	T	T	20586279	2	4	161	1	0	0	0	0	0	0	0	1	11071	610	22	3		3	OR4K17	14	20586279	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	336954	20586279	86763261	304	56958										
MYH6	4624	broad.mit.edu	37	chr14	23866269	23866269	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gcagcgcagctggtgcatgaCcagggggttgtccatcaccc					rs148915045	byFrequency	TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr14:23866269C>A	uc001wjv.2	-	18	2138	c.2071G>T	c.(2071-2073)GTC>TTC	p.V691F		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	691	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TGGTGCATGACCAGGGGGTTG	0.612													28	103	---	---	---	---	PASS	A	23866269	A	A	23866269	3	1	161	1	0	0	0	0	1	0	0	0	10038	507	18	3	3836	3	MYH6	14	23866269	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	3279990	23866269	83483271	305	56959	1019	2								
MYH6	4624	broad.mit.edu	37	chr14	23866270	23866270	+	Silent	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cagcgcagctggtgcatgacCagggggttgtccatcacccc							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr14:23866270C>A	uc001wjv.2	-	18	2137	c.2070G>T	c.(2068-2070)CTG>CTT	p.L690L		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	690	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GGTGCATGACCAGGGGGTTGT	0.612													28	107	---	---	---	---	PASS	A	23866270	A	A	23866270	2	1	161	1	0	0	0	0	0	0	0	1	10038	581	21	3		3	MYH6	14	23866270	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	23866270	83483270	306	56960	1019	2								
FAM158A	51016	broad.mit.edu	37	chr14	24610496	24610496	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttcacgtaggccagggccgaGatctccacctcccccatggc	10	17	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr14:24610496G>A	uc001wmi.2	-	2	181	c.18C>T	c.(16-18)ATC>ATT	p.I6I		NM_016049	NP_057133	Q9Y3B6	F158A_HUMAN	hypothetical protein LOC51016	6											0						CCAGGGCCGAGATCTCCACCT	0.652											OREG0022618	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	84	---	---	---	---	PASS	A	24610496	A	A	24610496	2	1	161	1	0	0	0	0	0	0	0	1	5467	932	33	2		2	FAM158A	14	24610496	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	744226	24610496	82739044	307	56961										
FOXG1	2290	broad.mit.edu	37	chr14	29237890	29237890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gttttacgacgggactgtctGggggactgtctgattatttc	13	7	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr14:29237890G>T	uc001wqe.2	+	1	1604	c.1405G>T	c.(1405-1407)GGG>TGG	p.G469W		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	469					axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		GGGACTGTCTGGGGGACTGTC	0.532													46	161	---	---	---	---	PASS	T	29237890	T	T	29237890	3	4	161	1	0	0	0	0	1	0	0	0	6007	1348	47	3	1407	3	FOXG1	14	29237890	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	4627394	29237890	78111650	308	56962										
KCNH5	27133	broad.mit.edu	37	chr14	63269063	63269063	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtacctaaaatagccaccacCtcatcatcctggatgacttc	5	14	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr14:63269063C>A	uc001xfx.2	-	9	1857	c.1806G>T	c.(1804-1806)GAG>GAT	p.E602D	KCNH5_uc001xfy.2_Missense_Mutation_p.E602D|KCNH5_uc001xfz.1_Missense_Mutation_p.E544D	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	602	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		TAGCCACCACCTCATCATCCT	0.423													4	145	---	---	---	---	PASS	A	63269063	A	A	63269063	3	1	161	1	0	0	0	0	1	0	0	0	8035	680	24	3	1206	3	KCNH5	14	63269063	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	34031173	63269063	44080477	309	56963										
GALNTL1	57452	broad.mit.edu	37	chr14	69798220	69798220	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtcccatcattgatgtcatcAgtctggataattttgcctac	7	10	4	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr14:69798220A>T	uc010aqu.1	+	7	823	c.730A>T	c.(730-732)AGT>TGT	p.S244C	GALNTL1_uc001xla.1_Missense_Mutation_p.S244C|GALNTL1_uc001xlb.1_Missense_Mutation_p.S244C	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	244	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		TGATGTCATCAGTCTGGATAA	0.542													113	322	---	---	---	---	PASS	T	69798220	T	T	69798220	3	4	161	1	0	0	0	0	1	0	0	0	6221	188	7	5	756	5	GALNTL1	14	69798220	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	6529157	69798220	37551320	310	56964										
DPF3	8110	broad.mit.edu	37	chr14	73220073	73220073	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atgtatacagctggcccgggGcaaggcctgtggacagagac	15	10	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr14:73220073G>T	uc001xnc.2	-	3	213	c.200C>A	c.(199-201)GCC>GAC	p.A67D	DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Missense_Mutation_p.A67D|DPF3_uc010ttq.1_Missense_Mutation_p.A77D	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	67					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		CTGGCCCGGGGCAAGGCCTGT	0.383													9	26	---	---	---	---	PASS	T	73220073	T	T	73220073	3	4	161	1	0	0	0	0	1	0	0	0	4718	1203	42	3	901	3	DPF3	14	73220073	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3421853	73220073	34129467	311	56965										
ATG2B	55102	broad.mit.edu	37	chr14	96768355	96768355	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gctacaaacctggtcaatatTgaggcggagcggcatcagcg	13	10	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr14:96768355T>A	uc001yfi.2	-	34	5493	c.5128A>T	c.(5128-5130)AAT>TAT	p.N1710Y		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1710										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)		TGGTCAATATTGAGGCGGAGC	0.453													17	49	---	---	---	---	PASS	A	96768355	A	A	96768355	3	1	161	1	0	0	0	0	1	0	0	0	1094	1812	63	5	1144	5	ATG2B	14	96768355	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	23548282	96768355	10581185	312	56966										
C14orf177	283598	broad.mit.edu	37	chr14	99183499	99183499	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gagacatgaagaaacttctcCagggtcatgtaatcaccaaa	8	9	3	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr14:99183499C>T	uc001yfz.1	+	4	685	c.266C>T	c.(265-267)CCA>CTA	p.P89L		NM_182560	NP_872366	Q52M58	CN177_HUMAN	hypothetical protein LOC283598	89											0		Melanoma(154;0.128)				GAAACTTCTCCAGGGTCATGT	0.438													33	133	---	---	---	---	PASS	T	99183499	T	T	99183499	3	4	161	1	0	0	0	0	1	0	0	0	1760	594	21	3	272	3	C14orf177	14	99183499	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2415144	99183499	8166041	313	56967										
AHNAK2	113146	broad.mit.edu	37	chr14	105412132	105412132	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggtgccctttgaggccagctCcctcgagaacgtggccctct	12	15	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr14:105412132C>G	uc010axc.1	-	7	9776	c.9656G>C	c.(9655-9657)GGA>GCA	p.G3219A	AHNAK2_uc001ypx.2_Missense_Mutation_p.G3119A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3219						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)			GAGGCCAGCTCCCTCGAGAAC	0.597													4	168	---	---	---	---	PASS	G	105412132	G	G	105412132	3	3	161	1	0	0	0	0	1	0	0	0	415	855	30	2	7735	2	AHNAK2	14	105412132	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	6228633	105412132	1937408	314	56968										
HERC2	8924	broad.mit.edu	37	chr15	28501024	28501024	+	Silent	SNP	C	T	T													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctccaaagccatacctggatCtctgcagtaatggctgcgtg							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:28501024C>T	uc001zbj.2	-	19	2971	c.2865G>A	c.(2863-2865)GAG>GAA	p.E955E	HERC2_uc001zbl.1_Silent_p.E650E	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	955	Potential.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ATACCTGGATCTCTGCAGTAA	0.488													29	67	---	---	---	---	PASS	T	28501024	T	T	28501024	2	4	161	1	0	0	0	0	0	0	0	1	7058	912	32	2		2	HERC2	15	28501024	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08		28501024	74030368	315	56969	1020	2								
HERC2	8924	broad.mit.edu	37	chr15	28501025	28501025	+	Missense_Mutation	SNP	T	C	C													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tccaaagccatacctggatcTctgcagtaatggctgcgtgt							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:28501025T>C	uc001zbj.2	-	19	2970	c.2864A>G	c.(2863-2865)GAG>GGG	p.E955G	HERC2_uc001zbl.1_Missense_Mutation_p.E650G	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	955	Potential.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TACCTGGATCTCTGCAGTAAT	0.483													28	65	---	---	---	---	PASS	C	28501025	C	C	28501025	3	2	161	1	0	0	0	0	1	0	0	0	7058	1551	54	5	11940	5	HERC2	15	28501025	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	1	28501025	74030367	316	56970	1020	2								
ZNF770	54989	broad.mit.edu	37	chr15	35273851	35273851	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aaaagtacattaggaagacaGggttgcccggtgctaccagg	13	8	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:35273851G>A	uc001ziw.2	-	3	2096	c.1785C>T	c.(1783-1785)CCC>CCT	p.P595P		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	595					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		TAGGAAGACAGGGTTGCCCGG	0.443													49	292	---	---	---	---	PASS	A	35273851	A	A	35273851	2	1	161	1	0	0	0	0	0	0	0	1	18140	987	35	3		3	ZNF770	15	35273851	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	6772826	35273851	67257541	317	56971										
TTBK2	146057	broad.mit.edu	37	chr15	43067484	43067484	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctgcagaaagtgctaagaccAcacctgaggtttccttcttt	8	11	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:43067484A>G	uc001zqo.2	-	13	2286	c.1847T>C	c.(1846-1848)GTG>GCG	p.V616A	TTBK2_uc010bcy.2_Missense_Mutation_p.V547A	NM_173500	NP_775771	Q6IQ55	TTBK2_HUMAN	tau tubulin kinase 2	616					cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)		TGCTAAGACCACACCTGAGGT	0.468													34	265	---	---	---	---	PASS	G	43067484	G	G	43067484	3	3	161	1	0	0	0	0	1	0	0	0	16674	159	6	5	1899	5	TTBK2	15	43067484	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	7793633	43067484	59463908	318	56972										
CCNDBP1	23582	broad.mit.edu	37	chr15	43484984	43484984	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tatatccacctatgtgtcacCtgaccgtgcgaatcaatgta	7	11	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:43484984C>T	uc001zqv.2	+	9	1135	c.904C>T	c.(904-906)CTG>TTG	p.L302L	CCNDBP1_uc001zqu.2_Silent_p.L174L|CCNDBP1_uc010bdc.2_Silent_p.L302L|CCNDBP1_uc010bdb.2_Silent_p.L174L|CCNDBP1_uc010udl.1_Silent_p.L141L|CCNDBP1_uc001zqw.2_RNA|CCNDBP1_uc001zqx.2_Silent_p.L174L|CCNDBP1_uc010bdd.2_Silent_p.L174L|CCNDBP1_uc001zqy.2_Silent_p.L174L	NM_012142	NP_036274	O95273	CCDB1_HUMAN	cyclin D-type binding-protein 1 isoform 1	302	Interaction with TCF3.|Interaction with RPLP0.				cell cycle	cytoplasm|nucleus	protein binding			ovary(1)|kidney(1)	2		all_cancers(109;3.31e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.42e-07)		TATGTGTCACCTGACCGTGCG	0.398													23	171	---	---	---	---	PASS	T	43484984	T	T	43484984	2	4	161	1	0	0	0	0	0	0	0	1	2919	680	24	3		3	CCNDBP1	15	43484984	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	417500	43484984	59046408	319	56973										
PPIP5K1	9677	broad.mit.edu	37	chr15	43827232	43827232	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gagactttctggcacagttgGctggacttctggcatggctg	14	9	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:43827232G>C	uc001zrw.2	-	31	4125	c.3942C>G	c.(3940-3942)AGC>AGG	p.S1314R	PPIP5K1_uc001zrx.1_Missense_Mutation_p.S1287R|PPIP5K1_uc001zru.2_Missense_Mutation_p.S1289R|PPIP5K1_uc001zry.3_Missense_Mutation_p.S1289R|PPIP5K1_uc001zrv.2_Missense_Mutation_p.S1075R	NM_001130858	NP_001124330	Q6PFW1	VIP1_HUMAN	histidine acid phosphatase domain containing 2A	1314					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity				0						GGCACAGTTGGCTGGACTTCT	0.567													51	153	---	---	---	---	PASS	C	43827232	C	C	43827232	3	2	161	1	0	0	0	0	1	0	0	0	12332	1194	42	4	363	4	PPIP5K1	15	43827232	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	342248	43827232	58704160	320	56974										
FBN1	2200	broad.mit.edu	37	chr15	48782253	48782253	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcctcgtcctcgtacctcagGaagcaggtttccaggcggat	11	13	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:48782253G>C	uc001zwx.1	-	25	3205	c.2877C>G	c.(2875-2877)TTC>TTG	p.F959L		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	959	TB 5.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CGTACCTCAGGAAGCAGGTTT	0.587													14	62	---	---	---	---	PASS	C	48782253	C	C	48782253	3	2	161	1	0	0	0	0	1	0	0	0	5702	1165	41	2	5906	2	FBN1	15	48782253	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	4955021	48782253	53749139	321	56975										
USP8	9101	broad.mit.edu	37	chr15	50733609	50733609	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgcagattagatcgtgatgaGgaaagggcctatgtactata	12	5	0	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:50733609G>A	uc001zym.3	+	4	668	c.168G>A	c.(166-168)GAG>GAA	p.E56E	USP8_uc001zyk.1_5'UTR|USP8_uc001zyl.3_Silent_p.E56E|USP8_uc001zyn.3_Silent_p.E56E|USP8_uc010ufh.1_Intron|USP8_uc010bev.1_5'UTR	NM_001128611	NP_001122083	P40818	UBP8_HUMAN	ubiquitin specific peptidase 8	56	MIT.				cell cycle|cell proliferation|endosome organization|protein K48-linked deubiquitination|protein K63-linked deubiquitination|ubiquitin-dependent protein catabolic process	cytosol|early endosome|extrinsic to plasma membrane|nucleus	cysteine-type endopeptidase activity|SH3 domain binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)|central_nervous_system(1)	2				all cancers(107;0.000225)|GBM - Glioblastoma multiforme(94;0.000771)		ATCGTGATGAGGAAAGGGCCT	0.323													26	84	---	---	---	---	PASS	A	50733609	A	A	50733609	2	1	161	1	0	0	0	0	0	0	0	1	17086	991	35	3		3	USP8	15	50733609	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	1951356	50733609	51797783	322	56976										
WDR72	256764	broad.mit.edu	37	chr15	53815464	53815464	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctgtcaggcatgtcctccacGtcttggaagtttgccgagtt	11	11	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:53815464G>C	uc002acj.2	-	19	3246	c.3204C>G	c.(3202-3204)GAC>GAG	p.D1068E	WDR72_uc010bfh.1_RNA	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	1068										lung(1)|skin(1)	2				all cancers(107;0.0511)		TGTCCTCCACGTCTTGGAAGT	0.363													42	366	---	---	---	---	PASS	C	53815464	C	C	53815464	3	2	161	1	0	0	0	0	1	0	0	0	17319	1136	40	4	112	4	WDR72	15	53815464	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3081855	53815464	48715928	323	56977										
NOX5	79400	broad.mit.edu	37	chr15	69323869	69323869	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttcttgcagtgtgtgcacggCagggggcgtctgcaggtaca	16	9	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:69323869C>T	uc002ars.1	+	4	357	c.337C>T	c.(337-339)CAG>TAG	p.Q113*	NOX5_uc002arp.1_Nonsense_Mutation_p.Q95*|NOX5_uc002arq.1_Intron|NOX5_uc010bid.1_Intron|NOX5_uc002arr.1_Intron|NOX5_uc010bie.1_5'UTR|NOX5_uc010bif.1_5'Flank	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	113	Cytoplasmic (Potential).|EF-hand 3; atypical; contains an insert of 28 residues.|N-terminal regulatory region; interacts with the C-terminal catalytic region in a calcium-dependent manner.				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						GTGTGCACGGCAGGGGGCGTC	0.607													4	53	---	---	---	---	PASS	T	69323869	T	T	69323869	4	4	161	1	0	0	0	0	0	1	0	0	10559	711	25	3	384	3	NOX5	15	69323869	Nonsense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	15508405	69323869	33207523	324	56978										
THAP10	56906	broad.mit.edu	37	chr15	71184338	71184338	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cttaggtgccggggcgggcaCccggtgcagggtgggcacgg							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:71184338C>A	uc002asv.2	-	1	416	c.274G>T	c.(274-276)GTG>TTG	p.V92L	LRRC49_uc002asu.2_Intron|LRRC49_uc002asw.2_5'Flank|LRRC49_uc002asx.2_5'Flank|LRRC49_uc010ukf.1_5'Flank	NM_020147	NP_064532	Q9P2Z0	THA10_HUMAN	THAP domain containing 10	92							DNA binding|metal ion binding			ovary(1)|skin(1)	2						GGGGCGGGCACCCGGTGCAGG	0.677													6	18	---	---	---	---	PASS	A	71184338	A	A	71184338	3	1	161	1	0	0	0	0	1	0	0	0	15839	507	18	3	511	3	THAP10	15	71184338	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1860469	71184338	31347054	325	56979	1021	2								
THAP10	56906	broad.mit.edu	37	chr15	71184339	71184339	+	Silent	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttaggtgccggggcgggcacCcggtgcagggtgggcacggc							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:71184339C>A	uc002asv.2	-	1	415	c.273G>T	c.(271-273)CGG>CGT	p.R91R	LRRC49_uc002asu.2_Intron|LRRC49_uc002asw.2_5'Flank|LRRC49_uc002asx.2_5'Flank|LRRC49_uc010ukf.1_5'Flank	NM_020147	NP_064532	Q9P2Z0	THA10_HUMAN	THAP domain containing 10	91							DNA binding|metal ion binding			ovary(1)|skin(1)	2						GGGCGGGCACCCGGTGCAGGG	0.672													6	18	---	---	---	---	PASS	A	71184339	A	A	71184339	2	1	161	1	0	0	0	0	0	0	0	1	15839	610	22	3		3	THAP10	15	71184339	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	71184339	31347053	326	56980	1021	2								
THSD4	79875	broad.mit.edu	37	chr15	72057526	72057526	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggagccaaatggtttagcacCgaatggagcatggtaagtca	13	7	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:72057526C>A	uc002atb.1	+	15	2836	c.2757C>A	c.(2755-2757)ACC>ACA	p.T919T	THSD4_uc002ate.2_Silent_p.T559T|THSD4_uc002atg.1_Silent_p.T122T	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	919	TSP type-1 6.					proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						GGTTTAGCACCGAATGGAGCA	0.552													3	67	---	---	---	---	PASS	A	72057526	A	A	72057526	2	1	161	1	0	0	0	0	0	0	0	1	15875	639	23	1		1	THSD4	15	72057526	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	873187	72057526	30473866	327	56981										
FBXO22	26263	broad.mit.edu	37	chr15	76225439	76225439	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	catacatctggggtcatctaAataataattaaagtggcttt	7	6	3	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:76225439A>G	uc002bbk.2	+	7	1313	c.1208A>G	c.(1207-1209)AAA>AGA	p.K403R	FBXO22_uc002bbl.2_Missense_Mutation_p.K299R|FBXO22OS_uc002bbm.1_RNA	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	403					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0						GGGTCATCTAAATAATAATTA	0.318													41	131	---	---	---	---	PASS	G	76225439	G	G	76225439	3	3	161	1	0	0	0	0	1	0	0	0	5734	14	1	5	1271	5	FBXO22	15	76225439	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	4167913	76225439	26305953	328	56982										
ZNF592	9640	broad.mit.edu	37	chr15	85326498	85326498	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttccagagctgcatatgtttGatcatttttgtaagaaagaa	8	5	1	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:85326498G>C	uc002bld.2	+	4	928	c.592G>C	c.(592-594)GAT>CAT	p.D198H	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	198					cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GCATATGTTTGATCATTTTTG	0.552													22	174	---	---	---	---	PASS	C	85326498	C	C	85326498	3	2	161	1	0	0	0	0	1	0	0	0	18019	1290	45	2	594	2	ZNF592	15	85326498	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	9101059	85326498	17204894	329	56983										
ZNF592	9640	broad.mit.edu	37	chr15	85327594	85327594	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caaggtccttcacagctccaAccccgtgcccctctatgcgc	7	19	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:85327594A>C	uc002bld.2	+	4	2024	c.1688A>C	c.(1687-1689)AAC>ACC	p.N563T	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	563					cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CACAGCTCCAACCCCGTGCCC	0.592													41	121	---	---	---	---	PASS	C	85327594	C	C	85327594	3	2	161	1	0	0	0	0	1	0	0	0	18019	43	2	5	1690	5	ZNF592	15	85327594	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	1096	85327594	17203798	330	56984										
DET1	55070	broad.mit.edu	37	chr15	89074851	89074851	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agtgggtacctgccttgcctGaactgatccgccggcgttcc	12	14	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:89074851G>C	uc002bmr.2	-	2	238	c.86C>G	c.(85-87)TCA>TGA	p.S29*	DET1_uc002bmp.3_RNA|DET1_uc010bnk.2_RNA|DET1_uc002bmq.2_Nonsense_Mutation_p.S40*	NM_001144074	NP_001137546	Q7L5Y6	DET1_HUMAN	de-etiolated 1 isoform 2	29						nucleus				lung(1)|pancreas(1)	2	Lung NSC(78;0.105)|all_lung(78;0.182)		BRCA - Breast invasive adenocarcinoma(143;0.188)			TGCCTTGCCTGAACTGATCCG	0.468													4	180	---	---	---	---	PASS	C	89074851	C	C	89074851	4	2	161	1	0	0	0	0	0	1	0	0	4450	1294	45	2	1582	2	DET1	15	89074851	Nonsense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3747257	89074851	13456541	331	56985										
ACAN	176	broad.mit.edu	37	chr15	89382026	89382026	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caccgccccttctaccgcccCactggccccaagaatcaagt	6	20	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:89382026C>A	uc010upo.1	+	3	577	c.203C>A	c.(202-204)CCA>CAA	p.P68Q	ACAN_uc002bmx.2_Missense_Mutation_p.P68Q|ACAN_uc010upp.1_Missense_Mutation_p.P68Q|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	68					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			TCTACCGCCCCACTGGCCCCA	0.632													10	69	---	---	---	---	PASS	A	89382026	A	A	89382026	3	1	161	1	0	0	0	0	1	0	0	0	117	594	21	3	209	3	ACAN	15	89382026	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	307175	89382026	13149366	332	56986										
ACAN	176	broad.mit.edu	37	chr15	89386799	89386799	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctgcggtggcaacctcctggGcgtgaggaccgtctacgtgc	15	13	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:89386799G>T	uc010upo.1	+	6	1345	c.971G>T	c.(970-972)GGC>GTC	p.G324V	ACAN_uc002bmx.2_Missense_Mutation_p.G324V|ACAN_uc010upp.1_Missense_Mutation_p.G324V|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	324					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			AACCTCCTGGGCGTGAGGACC	0.687													13	47	---	---	---	---	PASS	T	89386799	T	T	89386799	3	4	161	1	0	0	0	0	1	0	0	0	117	1203	42	3	989	3	ACAN	15	89386799	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	4773	89386799	13144593	333	56987										
PLIN1	5346	broad.mit.edu	37	chr15	90213330	90213330	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tgttggcagcaaattccgcaGtgtctctggccaccccccag	10	15	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr15:90213330G>T	uc010upx.1	-	5	589	c.479C>A	c.(478-480)ACT>AAT	p.T160N	PLIN1_uc002boh.2_Missense_Mutation_p.T160N	NM_001145311	NP_001138783	O60240	PLIN1_HUMAN	perilipin 1	160					triglyceride catabolic process	lipid particle	lipid binding			central_nervous_system(1)|skin(1)	2						AAATTCCGCAGTGTCTCTGGC	0.632													4	36	---	---	---	---	PASS	T	90213330	T	T	90213330	3	4	161	1	0	0	0	0	1	0	0	0	12089	1029	36	3	1109	3	PLIN1	15	90213330	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	826531	90213330	12318062	334	56988										
RHBDF1	64285	broad.mit.edu	37	chr16	111894	111894	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cccaccatgcccagcccataCggccgcttctcccgggcgaa	9	20	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr16:111894C>A	uc002cfl.3	-	11	1258	c.1110G>T	c.(1108-1110)CCG>CCT	p.P370P	RHBDF1_uc010uty.1_Silent_p.P393P|RHBDF1_uc010utz.1_Silent_p.P370P|RHBDF1_uc010bqo.1_RNA	NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	370	Cytoplasmic (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				CCAGCCCATACGGCCGCTTCT	0.687													8	12	---	---	---	---	PASS	A	111894	A	A	111894	2	1	161	1	0	0	0	0	0	0	0	1	13319	523	19	1		1	RHBDF1	16	111894	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08		111894	90242859	335	56989										
SMG1	23049	broad.mit.edu	37	chr16	18827849	18827849	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ataggatgttcaagaccagtGtcctaaatagaacaagcatt	8	7	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr16:18827849G>A	uc002dfm.2	-	58	10440	c.10077C>T	c.(10075-10077)GAC>GAT	p.D3359D	SMG1_uc010bwb.2_Silent_p.D3219D|SMG1_uc010bwa.2_Silent_p.D2090D	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	3359					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						CAAGACCAGTGTCCTAAATAG	0.388													6	54	---	---	---	---	PASS	A	18827849	A	A	18827849	2	1	161	1	0	0	0	0	0	0	0	1	14795	1368	48	3		3	SMG1	16	18827849	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	18715955	18827849	71526904	336	56990										
GP2	2813	broad.mit.edu	37	chr16	20331589	20331589	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtgaaagccacttacctccaGaatgttcctgcaggcactag	9	12	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr16:20331589G>A	uc002dgv.2	-	6	945	c.862C>T	c.(862-864)CTG>TTG	p.L288L	GP2_uc002dgw.2_Silent_p.L285L|GP2_uc002dgx.2_Silent_p.L141L|GP2_uc002dgy.2_Silent_p.L138L	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	288	ZP.					anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						CTTACCTCCAGAATGTTCCTG	0.458													17	142	---	---	---	---	PASS	A	20331589	A	A	20331589	2	1	161	1	0	0	0	0	0	0	0	1	6582	933	33	2		2	GP2	16	20331589	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	1503740	20331589	70023164	337	56991										
DNAH3	55567	broad.mit.edu	37	chr16	21065834	21065834	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gacaatctgcgcaatctgatCattgctctttttcagaaaat	6	9	5	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr16:21065834C>G	uc010vbe.1	-	28	3946	c.3946G>C	c.(3946-3948)GAT>CAT	p.D1316H		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1316	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GCAATCTGATCATTGCTCTTT	0.532													24	73	---	---	---	---	PASS	G	21065834	G	G	21065834	3	3	161	1	0	0	0	0	1	0	0	0	4603	826	29	2	8543	2	DNAH3	16	21065834	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	734245	21065834	69288919	338	56992										
PRKCB	5579	broad.mit.edu	37	chr16	24202448	24202448	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aggcaaacgtctgggttgtgGacctgaaggcgaacgtgata	15	7	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr16:24202448G>C	uc002dmd.2	+	16	1957	c.1760G>C	c.(1759-1761)GGA>GCA	p.G587A	PRKCB_uc002dme.2_Missense_Mutation_p.G587A	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	587	Protein kinase.				apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	CTGGGTTGTGGACCTGAAGGC	0.433													38	136	---	---	---	---	PASS	C	24202448	C	C	24202448	3	2	161	1	0	0	0	0	1	0	0	0	12508	1174	41	2	1822	2	PRKCB	16	24202448	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3136614	24202448	66152305	339	56993										
IL21R	50615	broad.mit.edu	37	chr16	27460372	27460372	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tggggaggactgggctggggGactgccctggggtggccggt	23	8	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr16:27460372G>C	uc002doq.1	+	9	1618	c.1385G>C	c.(1384-1386)GGA>GCA	p.G462A	IL21R_uc002dor.1_Missense_Mutation_p.G462A|IL21R_uc002dos.1_Missense_Mutation_p.G462A|uc002dot.2_RNA	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	462	Cytoplasmic (Potential).				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						TGGGCTGGGGGACTGCCCTGG	0.662			T	BCL6	NHL								21	61	---	---	---	---	PASS	C	27460372	C	C	27460372	3	2	161	1	0	0	0	0	1	0	0	0	7671	1174	41	2	1415	2	IL21R	16	27460372	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3257924	27460372	62894381	340	56994										
OGFOD1	55239	broad.mit.edu	37	chr16	56487240	56487240	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caaacttcatccaaagccaaGacttcttagaagggcttcag	7	11	3	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr16:56487240G>C	uc002ejb.2	+	2	321	c.220G>C	c.(220-222)GAC>CAC	p.D74H	OGFOD1_uc002ejc.2_5'UTR|NUDT21_uc002eja.2_5'Flank	NM_018233	NP_060703	Q8N543	OGFD1_HUMAN	2-oxoglutarate and iron-dependent oxygenase	74							iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)	1					Vitamin C(DB00126)	CCAAAGCCAAGACTTCTTAGA	0.393													28	148	---	---	---	---	PASS	C	56487240	C	C	56487240	3	2	161	1	0	0	0	0	1	0	0	0	10841	942	33	2	226	2	OGFOD1	16	56487240	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	29026868	56487240	33867513	341	56995										
PKD1L2	114780	broad.mit.edu	37	chr16	81161382	81161382	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttaccttgacgtgctttggcGatcagtccccaaggggacca	11	12	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr16:81161382G>T	uc002fgh.1	-	38	6334	c.6334C>A	c.(6334-6336)CGC>AGC	p.R2112S	PKD1L2_uc002fgf.1_5'UTR|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	2112	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GTGCTTTGGCGATCAGTCCCC	0.512													16	29	---	---	---	---	PASS	T	81161382	T	T	81161382	3	4	161	1	0	0	0	0	1	0	0	0	11965	1048	37	2	1077	2	PKD1L2	16	81161382	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	24674142	81161382	9193371	342	56996										
USP6	9098	broad.mit.edu	37	chr17	5039998	5039998	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccaacaggagcatgtggtacCcaagtcacaacccaagacca	8	14	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:5039998C>G	uc002gau.1	+	18	2958	c.728C>G	c.(727-729)CCC>CGC	p.P243R	USP6_uc002gav.1_Missense_Mutation_p.P243R|USP6_uc010ckz.1_5'UTR|uc002gbb.2_5'Flank|uc002gbd.2_RNA	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	243	Rab-GAP TBC.				protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						CATGTGGTACCCAAGTCACAA	0.582			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								67	146	---	---	---	---	PASS	G	5039998	G	G	5039998	3	3	161	1	0	0	0	0	1	0	0	0	17083	623	22	4	762	4	USP6	17	5039998	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08		5039998	76155212	343	56997										
TP53	7157	broad.mit.edu	37	chr17	7577079	7577079	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccctttcttgcggagattctCttcctctgtgcgccggtctc	9	15	4	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:7577079C>A	uc002gim.2	-	8	1053	c.859G>T	c.(859-861)GAG>TAG	p.E287*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.E287*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.E155*|TP53_uc010cng.1_Nonsense_Mutation_p.E155*|TP53_uc002gii.1_Nonsense_Mutation_p.E155*|TP53_uc010cnh.1_Nonsense_Mutation_p.E287*|TP53_uc010cni.1_Nonsense_Mutation_p.E287*|TP53_uc002gij.2_Nonsense_Mutation_p.E287*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	287	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> V (in sporadic cancers; somatic mutation).|E -> G (in sporadic cancers; somatic mutation).|E -> D (in sporadic cancers; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).|E -> A (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.N288fs*13(17)|p.E287*(8)|p.0?(7)|p.E287K(6)|p.E287E(5)|p.E287G(2)|p.E287D(2)|p.?(2)|p.R283fs*16(2)|p.E286fs*17(2)|p.E285_N288delEEEN(1)|p.E287V(1)|p.E287fs*17(1)|p.E287A(1)|p.R282_E287delRRTEEE(1)|p.T284_G293del10(1)|p.E285fs*13(1)|p.L265_K305del41(1)|p.T284fs*57(1)|p.R283fs*56(1)|p.V272_K292del21(1)|p.E285_L289delEEENL(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)		CGGAGATTCTCTTCCTCTGTG	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			32	54	---	---	---	---	PASS	A	7577079	A	A	7577079	4	1	161	1	0	0	0	0	0	1	0	0	16378	922	32	2	427	2	TP53	17	7577079	Nonsense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2537081	7577079	73618131	344	56998										
SLC25A35	399512	broad.mit.edu	37	chr17	8194247	8194247	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aagacaactgcaatgccactCatcatggcagccaccagcgc	8	15	2	1	rs138474953		TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:8194247C>T	uc002gla.3	-	4	687	c.642G>A	c.(640-642)ATG>ATA	p.M214I	SLC25A35_uc002gku.1_Missense_Mutation_p.M214I|SLC25A35_uc002gkt.2_Missense_Mutation_p.M214I|SLC25A35_uc002gkz.1_RNA	NM_201520	NP_958928	Q3KQZ1	S2535_HUMAN	solute carrier family 25, member 35	214	Solcar 3.|Helical; Name=5; (Potential).				transport	integral to membrane|mitochondrial inner membrane					0						CAATGCCACTCATCATGGCAG	0.547													14	68	---	---	---	---	PASS	T	8194247	T	T	8194247	3	4	161	1	0	0	0	0	1	0	0	0	14499	826	29	2	257	2	SLC25A35	17	8194247	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	617168	8194247	73000963	345	56999										
GLP2R	9340	broad.mit.edu	37	chr17	9729400	9729400	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gatgaagctgggatcgagcaGggcagggcctgggagaggaa	20	6	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:9729400G>T	uc002gmd.1	+	1	20	c.20G>T	c.(19-21)AGG>ATG	p.R7M	GLP2R_uc010cog.1_RNA	NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	7	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	GGATCGAGCAGGGCAGGGCCT	0.637													8	26	---	---	---	---	PASS	T	9729400	T	T	9729400	3	4	161	1	0	0	0	0	1	0	0	0	6453	1000	35	3	22	3	GLP2R	17	9729400	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1535153	9729400	71465810	346	57000										
MYH8	4626	broad.mit.edu	37	chr17	10298533	10298533	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gttcagctggatttccatttCattcagatctccttccattt	5	11	4	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:10298533C>A	uc002gmm.2	-	34	4974	c.4879G>T	c.(4879-4881)GAA>TAA	p.E1627*	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1627	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						ATTTCCATTTCATTCAGATCT	0.458									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				70	209	---	---	---	---	PASS	A	10298533	A	A	10298533	4	1	161	1	0	0	0	0	0	1	0	0	10041	835	29	2	962	2	MYH8	17	10298533	Nonsense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	569133	10298533	70896677	347	57001										
TAOK1	57551	broad.mit.edu	37	chr17	27794161	27794161	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tctttctttctttcttctttAggcacgagatgtgcgtacca	7	10	5	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:27794161A>T	uc002hdz.1	+	3	327	c.133_splice	c.e3-2	p.A45_splice	TAOK1_uc010wbe.1_Splice_Site_p.A45_splice|TAOK1_uc010wbf.1_Splice_Site_p.A45_splice	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1						mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			TTTCTTCTTTAGGCACGAGAT	0.353													26	71	---	---	---	---	PASS	T	27794161	T	T	27794161	5	4	161	1	0	0	0	0	0	0	1	0	15544	434	15	5	137	5	TAOK1	17	27794161	Splice_Site	SNP	A	TCGA-66-2782-01A-01D-1522-08	17495628	27794161	53401049	348	57002										
CCDC55	84081	broad.mit.edu	37	chr17	28506279	28506279	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aactgcaagagagagctgaaGaagaagaaagagaaaagagg	14	3	0	8			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:28506279G>A	uc002heu.2	+	5	500	c.472G>A	c.(472-474)GAA>AAA	p.E158K	CCDC55_uc002hev.2_Missense_Mutation_p.E104K|CCDC55_uc010wbl.1_Missense_Mutation_p.E104K|CCDC55_uc010wbm.1_Missense_Mutation_p.E104K|CCDC55_uc002hex.2_Missense_Mutation_p.E104K	NM_032141	NP_115517	Q9H0G5	NSRP1_HUMAN	coiled-coil domain containing 55 isoform 1	158	Necessary for alternative splicing activity.|Potential.				developmental process|nucleocytoplasmic transport|regulation of alternative nuclear mRNA splicing, via spliceosome	nuclear speck|ribonucleoprotein complex	mRNA binding|protein binding				0						GAGAGCTGAAGAAGAAGAAAG	0.418													5	37	---	---	---	---	PASS	A	28506279	A	A	28506279	3	1	161	1	0	0	0	0	1	0	0	0	2825	943	33	2	490	2	CCDC55	17	28506279	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	712118	28506279	52688931	349	57003										
NF1	4763	broad.mit.edu	37	chr17	29527558	29527558	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agcaagtacttacatcaattGggaagataactctgtcattt	7	7	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:29527558G>A	uc002hgg.2	+	9	1340	c.1007G>A	c.(1006-1008)TGG>TAG	p.W336*	NF1_uc002hge.1_Nonsense_Mutation_p.W336*|NF1_uc002hgf.1_Nonsense_Mutation_p.W336*|NF1_uc002hgh.2_Nonsense_Mutation_p.W336*|NF1_uc010csn.1_Nonsense_Mutation_p.W196*	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	336					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)|p.W336*(1)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TACATCAATTGGGAAGATAAC	0.393			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			62	112	---	---	---	---	PASS	A	29527558	A	A	29527558	4	1	161	1	0	0	0	0	0	1	0	0	10356	1357	47	3	1041	3	NF1	17	29527558	Nonsense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1021279	29527558	51667652	350	57004										
PEX12	5193	broad.mit.edu	37	chr17	33904106	33904106	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cttagctggtttgtgctccaGagcttgtatatcctgaactg	10	9	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:33904106G>C	uc002hjp.2	-	2	1247	c.631C>G	c.(631-633)CTG>GTG	p.L211V		NM_000286	NP_000277	O00623	PEX12_HUMAN	peroxisomal biogenesis factor 12	211	Peroxisomal matrix (Potential).				protein import into peroxisome matrix	integral to peroxisomal membrane	protein C-terminus binding|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TTGTGCTCCAGAGCTTGTATA	0.468													22	188	---	---	---	---	PASS	C	33904106	C	C	33904106	3	2	161	1	0	0	0	0	1	0	0	0	11740	933	33	2	456	2	PEX12	17	33904106	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	4376548	33904106	47291104	351	57005										
SLC4A1	6521	broad.mit.edu	37	chr17	42328923	42328923	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	acagtacagccagggggatgCgggacaggatgggctccatg	17	9	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:42328923C>A	uc002igf.3	-	18	2494	c.2345G>T	c.(2344-2346)CGC>CTC	p.R782L		NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	782	Membrane (anion exchange).				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		CAGGGGGATGCGGGACAGGAT	0.632													31	47	---	---	---	---	PASS	A	42328923	A	A	42328923	3	1	161	1	0	0	0	0	1	0	0	0	14650	768	27	1	402	1	SLC4A1	17	42328923	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	8424817	42328923	38866287	352	57006										
TTLL6	284076	broad.mit.edu	37	chr17	46868812	46868812	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atctcaaagcaggcgctgttGagtgtgtggttggggaagca	16	6	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:46868812G>C	uc010wlo.1	-	10	1187	c.1152C>G	c.(1150-1152)CTC>CTG	p.L384L	TTLL6_uc002iob.2_Silent_p.L77L|TTLL6_uc010dbi.2_RNA|TTLL6_uc002ioc.2_Silent_p.L137L|TTLL6_uc002iod.2_Silent_p.L231L	NM_001130918	NP_001124390	Q8N841	TTLL6_HUMAN	tubulin tyrosine ligase-like family, member 6	336	TTL.					cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity				0						AGGCGCTGTTGAGTGTGTGGT	0.527											OREG0024526	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	53	56	---	---	---	---	PASS	C	46868812	C	C	46868812	2	2	161	1	0	0	0	0	0	0	0	1	16728	1277	45	2		2	TTLL6	17	46868812	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	4539889	46868812	34326398	353	57007										
KIF2B	84643	broad.mit.edu	37	chr17	51901585	51901585	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gagaaagaggtgtgttgtgtGgaggaagtgctgaacctggt	18	3	0	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:51901585G>T	uc002iua.2	+	1	1347	c.1191G>T	c.(1189-1191)GTG>GTT	p.V397V	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	397	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TGTGTTGTGTGGAGGAAGTGC	0.502													33	63	---	---	---	---	PASS	T	51901585	T	T	51901585	2	4	161	1	0	0	0	0	0	0	0	1	8298	1335	47	3		3	KIF2B	17	51901585	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	5032773	51901585	29293625	354	57008										
SEC14L1	6397	broad.mit.edu	37	chr17	75210048	75210048	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cacagcggcttctcccagctGagtgccgccaccacctcctc	8	20	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:75210048G>C	uc002jto.2	+	17	2358	c.2091G>C	c.(2089-2091)CTG>CTC	p.L697L	SEC14L1_uc010dhc.2_Silent_p.L697L|SEC14L1_uc010wth.1_Silent_p.L697L|SEC14L1_uc002jtm.2_Silent_p.L697L|SEC14L1_uc010wti.1_Silent_p.L663L|SEC14L1_uc010wtj.1_3'UTR|SEC14L1_uc002jtr.2_3'UTR	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	697					transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						TCTCCCAGCTGAGTGCCGCCA	0.667													16	23	---	---	---	---	PASS	C	75210048	C	C	75210048	2	2	161	1	0	0	0	0	0	0	0	1	13981	1277	45	2		2	SEC14L1	17	75210048	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	23308463	75210048	5985162	355	57009										
ZNF750	79755	broad.mit.edu	37	chr17	80789004	80789004	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctctggcgggtagagtcttcCcagtgcgctggaggctgcct	15	12	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr17:80789004C>A	uc002kga.2	-	2	1638	c.1327G>T	c.(1327-1329)GGA>TGA	p.G443*	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	443						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			TAGAGTCTTCCCAGTGCGCTG	0.617													97	118	---	---	---	---	PASS	A	80789004	A	A	80789004	4	1	161	1	0	0	0	0	0	1	0	0	18129	632	22	3	852	3	ZNF750	17	80789004	Nonsense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	5578956	80789004	406206	356	57010										
TXNDC2	84203	broad.mit.edu	37	chr18	9886703	9886703	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cagccacacgttccacatgcGcacagaggagtctgatgcct	10	14	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr18:9886703G>A	uc002koi.3	+	2	676	c.227G>A	c.(226-228)CGC>CAC	p.R76H	TXNDC2_uc010wzq.1_RNA|TXNDC2_uc002koh.3_Missense_Mutation_p.R9H	NM_001098529	NP_001091999	Q86VQ3	TXND2_HUMAN	thioredoxin domain-containing 2 isoform 2	76					cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	cytoplasm	electron carrier activity|nutrient reservoir activity|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity			ovary(1)|pancreas(1)	2						TTCCACATGCGCACAGAGGAG	0.572													5	105	---	---	---	---	PASS	A	9886703	A	A	9886703	3	1	161	1	0	0	0	0	1	0	0	0	16794	1087	38	1	233	1	TXNDC2	18	9886703	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08		9886703	68190545	357	57011										
ESCO1	114799	broad.mit.edu	37	chr18	19154062	19154062	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctgaagtagccatttttgatCttttcacctcagaagttaca	6	9	3	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr18:19154062C>A	uc002kth.1	-	4	1677	c.743G>T	c.(742-744)AGA>ATA	p.R248I	ESCO1_uc002kti.1_RNA	NM_052911	NP_443143	Q5FWF5	ESCO1_HUMAN	establishment of cohesion 1 homolog 1	248					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding				0						CATTTTTGATCTTTTCACCTC	0.423													147	339	---	---	---	---	PASS	A	19154062	A	A	19154062	3	1	161	1	0	0	0	0	1	0	0	0	5248	913	32	2	1815	2	ESCO1	18	19154062	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	9267359	19154062	58923186	358	57012										
MBD2	8932	broad.mit.edu	37	chr18	51750520	51750520	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tggcccggggtcccctgggcCccggccccgcgctccccgac	14	22	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr18:51750520C>G	uc002lfg.1	-	1	639	c.410G>C	c.(409-411)GGG>GCG	p.G137A	MBD2_uc002lfh.1_Missense_Mutation_p.G137A|SNORA37_uc002lfi.1_5'Flank	NM_003927	NP_003918	Q9UBB5	MBD2_HUMAN	methyl-CpG binding domain protein 2 isoform 1	137	Gly-rich.				transcription, DNA-dependent		C2H2 zinc finger domain binding|methyl-CpG binding|satellite DNA binding				0				Colorectal(16;0.0212)|READ - Rectum adenocarcinoma(32;0.188)	Hexobarbital(DB01355)	TCCCCTGGGCCCCGGCCCCGC	0.537													5	16	---	---	---	---	PASS	G	51750520	G	G	51750520	3	3	161	1	0	0	0	0	1	0	0	0	9343	623	22	4	1060	4	MBD2	18	51750520	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	32596458	51750520	26326728	359	57013										
ST8SIA3	51046	broad.mit.edu	37	chr18	55024483	55024483	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	accaccttcaaccccagcatCctggaaaaatattacaacaa	3	14	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr18:55024483C>T	uc002lgn.2	+	3	999	c.642C>T	c.(640-642)ATC>ATT	p.I214I		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	214	Lumenal (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		ACCCCAGCATCCTGGAAAAAT	0.408													20	118	---	---	---	---	PASS	T	55024483	T	T	55024483	2	4	161	1	0	0	0	0	0	0	0	1	15232	845	30	2		2	ST8SIA3	18	55024483	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	3273963	55024483	23052765	360	57014										
INSR	3643	broad.mit.edu	37	chr19	7141735	7141735	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttcatacagcacgatcagacCattgggctccttcggctcct	8	14	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:7141735C>A	uc002mgd.1	-	13	2744	c.2635G>T	c.(2635-2637)GGT>TGT	p.G879C	INSR_uc002mge.1_Missense_Mutation_p.G867C	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	879	Fibronectin type-III 3.|Extracellular (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ACGATCAGACCATTGGGCTCC	0.498													21	34	---	---	---	---	PASS	A	7141735	A	A	7141735	3	1	161	1	0	0	0	0	1	0	0	0	7773	594	21	3	1553	3	INSR	19	7141735	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08		7141735	51987248	361	57015										
MUC16	94025	broad.mit.edu	37	chr19	9084880	9084880	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttgtccttctctctcccagtGtaatggagggactggctcct	10	12	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:9084880G>T	uc002mkp.2	-	1	7139	c.6935C>A	c.(6934-6936)ACA>AAA	p.T2312K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2312	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTCTCCCAGTGTAATGGAGGG	0.488													11	33	---	---	---	---	PASS	T	9084880	T	T	9084880	3	4	161	1	0	0	0	0	1	0	0	0	9973	1377	48	3	36924	3	MUC16	19	9084880	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	1943145	9084880	50044103	362	57016										
COL5A3	50509	broad.mit.edu	37	chr19	10071348	10071348	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cggcagccatcctgggggacGctgacagtggctgctgtcgt	16	12	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:10071348G>T	uc002mmq.1	-	66	5156	c.5070C>A	c.(5068-5070)AGC>AGA	p.S1690R		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1690	Fibrillar collagen NC1.				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)			CCTGGGGGACGCTGACAGTGG	0.632													31	68	---	---	---	---	PASS	T	10071348	T	T	10071348	3	4	161	1	0	0	0	0	1	0	0	0	3698	1078	38	1	175	1	COL5A3	19	10071348	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	986468	10071348	49057635	363	57017										
PGLYRP2	114770	broad.mit.edu	37	chr19	15580462	15580462	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccgcggtgaagtgcggccagGtgcgcagcaggtcgaagagc	18	11	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:15580462G>T	uc002nbf.3	-	4	1755	c.1622C>A	c.(1621-1623)ACC>AAC	p.T541N	PGLYRP2_uc002nbg.3_Missense_Mutation_p.T541N	NM_052890	NP_443122	Q96PD5	PGRP2_HUMAN	peptidoglycan recognition protein 2 precursor	541					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptide amidation|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(3)	3						GTGCGGCCAGGTGCGCAGCAG	0.731													4	3	---	---	---	---	PASS	T	15580462	T	T	15580462	3	4	161	1	0	0	0	0	1	0	0	0	11794	1261	44	3	116	3	PGLYRP2	19	15580462	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	5509114	15580462	43548521	364	57018										
UPF1	5976	broad.mit.edu	37	chr19	18971733	18971733	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cacgccctacgagggccagcGctcctacctggtgcagtaca	11	16	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:18971733G>A	uc002nkg.2	+	17	2707	c.2432G>A	c.(2431-2433)CGC>CAC	p.R811H	UPF1_uc002nkf.2_Missense_Mutation_p.R800H|UPF1_uc002nkh.2_Missense_Mutation_p.R55H	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	811					cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GAGGGCCAGCGCTCCTACCTG	0.632													5	10	---	---	---	---	PASS	A	18971733	A	A	18971733	3	1	161	1	0	0	0	0	1	0	0	0	17000	1087	38	1	2465	1	UPF1	19	18971733	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	3391271	18971733	40157250	365	57019										
ZNF493	284443	broad.mit.edu	37	chr19	21606630	21606630	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	caaagcctttagtattttctCaacccttactaaacataaga	3	10	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:21606630C>T	uc002npx.2	+	2	1065	c.785C>T	c.(784-786)TCA>TTA	p.S262L	ZNF493_uc002npw.2_Missense_Mutation_p.S390L|ZNF493_uc002npy.2_Missense_Mutation_p.S262L	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	262	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGTATTTTCTCAACCCTTACT	0.373													19	99	---	---	---	---	PASS	T	21606630	T	T	21606630	3	4	161	1	0	0	0	0	1	0	0	0	17941	838	29	2	1246	2	ZNF493	19	21606630	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	2634897	21606630	37522353	366	57020										
WDR88	126248	broad.mit.edu	37	chr19	33628618	33628618	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctgagtgggcacgagcacgcTgtgagcacctgccacttctg	13	13	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:33628618T>A	uc002nui.2	+	2	390	c.312T>A	c.(310-312)GCT>GCA	p.A104A		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	104	WD 1.									ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					ACGAGCACGCTGTGAGCACCT	0.428													33	71	---	---	---	---	PASS	A	33628618	A	A	33628618	2	1	161	1	0	0	0	0	0	0	0	1	17332	1567	55	5		5	WDR88	19	33628618	Silent	SNP	T	TCGA-66-2782-01A-01D-1522-08	12021988	33628618	25500365	367	57021										
ZNF585A	199704	broad.mit.edu	37	chr19	37644202	37644202	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttctctgatgcctgaagaggGacgacacttgaaaaaaggat	11	7	1	4			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:37644202G>T	uc002ofo.1	-	5	830	c.599C>A	c.(598-600)TCC>TAC	p.S200Y	ZNF585A_uc002ofm.1_Missense_Mutation_p.S145Y|ZNF585A_uc002ofn.1_Missense_Mutation_p.S145Y	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	200	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CCTGAAGAGGGACGACACTTG	0.393													30	272	---	---	---	---	PASS	T	37644202	T	T	37644202	3	4	161	1	0	0	0	0	1	0	0	0	18014	1174	41	2	1714	2	ZNF585A	19	37644202	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	4015584	37644202	21484781	368	57022										
SIPA1L3	23094	broad.mit.edu	37	chr19	38689102	38689102	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cggcgcctggaccctgggctGatgcccctgcctgacacagc	13	17	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:38689102G>A	uc002ohk.2	+	19	5423	c.4914G>A	c.(4912-4914)CTG>CTA	p.L1638L		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1638					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			ACCCTGGGCTGATGCCCCTGC	0.687													32	204	---	---	---	---	PASS	A	38689102	A	A	38689102	2	1	161	1	0	0	0	0	0	0	0	1	14331	1277	45	2		2	SIPA1L3	19	38689102	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	1044900	38689102	20439881	369	57023										
PRKD2	25865	broad.mit.edu	37	chr19	47181865	47181865	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ccggcgtgcccaccactgagCggcggaacgacttctcgccg	13	17	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:47181865C>T	uc002pfh.2	-	17	2468	c.2126G>A	c.(2125-2127)CGC>CAC	p.R709H	PRKD2_uc002pfd.2_Missense_Mutation_p.R83H|PRKD2_uc010eks.2_Missense_Mutation_p.R112H|PRKD2_uc010ekt.2_5'UTR|PRKD2_uc002pfe.2_Missense_Mutation_p.R229H|PRKD2_uc002pff.2_Missense_Mutation_p.R229H|PRKD2_uc002pfg.2_Missense_Mutation_p.R552H|PRKD2_uc002pfi.2_Missense_Mutation_p.R709H|PRKD2_uc002pfj.2_Missense_Mutation_p.R709H|PRKD2_uc010xye.1_Missense_Mutation_p.R709H|PRKD2_uc002pfk.2_Missense_Mutation_p.R552H	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	709	Protein kinase.				cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		CACCACTGAGCGGCGGAACGA	0.627													14	52	---	---	---	---	PASS	T	47181865	T	T	47181865	3	4	161	1	0	0	0	0	1	0	0	0	12519	768	27	1	522	1	PRKD2	19	47181865	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	8492763	47181865	11947118	370	57024										
SIGLEC11	114132	broad.mit.edu	37	chr19	50462151	50462151	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atgtgccgttcccgaggtttTccaggactagggaaggaaga	14	8	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:50462151T>C	uc010ybh.1	-	7	1203	c.1112A>G	c.(1111-1113)GAA>GGA	p.E371G	SIGLEC11_uc010ybi.1_Missense_Mutation_p.E371G	NM_052884	NP_443116	Q96RL6	SIG11_HUMAN	sialic acid binding Ig-like lectin 11 isoform 1	371	Ig-like C2-type 3.|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)		CCCGAGGTTTTCCAGGACTAG	0.657													8	84	---	---	---	---	PASS	C	50462151	C	C	50462151	3	2	161	1	0	0	0	0	1	0	0	0	14307	1783	62	5	1004	5	SIGLEC11	19	50462151	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	3280286	50462151	8666832	371	57025										
SIGLEC8	27181	broad.mit.edu	37	chr19	51955814	51955814	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aatggagctctccttcctccCctgacgagggggcaacagct	11	14	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:51955814C>A	uc002pwt.2	-	7	1386	c.1319G>T	c.(1318-1320)GGG>GTG	p.G440V	SIGLEC8_uc010yda.1_Missense_Mutation_p.G331V|SIGLEC8_uc002pwu.2_Intron|SIGLEC8_uc010eox.2_Missense_Mutation_p.G347V	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	440	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		TCCTTCCTCCCCTGACGAGGG	0.577													34	108	---	---	---	---	PASS	A	51955814	A	A	51955814	3	1	161	1	0	0	0	0	1	0	0	0	14314	623	22	3	184	3	SIGLEC8	19	51955814	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1493663	51955814	7173169	372	57026										
VSTM1	284415	broad.mit.edu	37	chr19	54567014	54567014	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcaccgaggcaaagcagggaGaggaattctgcggtcatagc	14	9	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:54567014G>C	uc002qcw.3	-	1	194	c.18C>G	c.(16-18)CTC>CTG	p.L6L	VSTM1_uc010erb.2_RNA|VSTM1_uc002qcx.3_Silent_p.L6L	NM_198481	NP_940883	Q6UX27	VSTM1_HUMAN	V-set and transmembrane domain containing 1	6						integral to membrane					0	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.165)		AAAGCAGGGAGAGGAATTCTG	0.607													23	252	---	---	---	---	PASS	C	54567014	C	C	54567014	2	2	161	1	0	0	0	0	0	0	0	1	17225	929	33	2		2	VSTM1	19	54567014	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	2611200	54567014	4561969	373	57027										
LILRB4	11006	broad.mit.edu	37	chr19	55176586	55176586	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cctgttctaacccagcaggcCctgaggaccagcccctcatg	9	17	2	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:55176586C>A	uc002qgp.2	+	6	1074	c.712C>A	c.(712-714)CCT>ACT	p.P238T	LILRB4_uc002qgq.2_Missense_Mutation_p.P238T|LILRB4_uc010ers.1_3'UTR|LILRB4_uc002qgr.2_Missense_Mutation_p.P279T|LILRB4_uc010ert.2_Missense_Mutation_p.P279T|LILRB4_uc010eru.2_Missense_Mutation_p.P267T	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	238	Extracellular (Potential).					integral to membrane|plasma membrane	antigen binding|receptor activity			ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)		CCCAGCAGGCCCTGAGGACCA	0.488													6	19	---	---	---	---	PASS	A	55176586	A	A	55176586	3	1	161	1	0	0	0	0	1	0	0	0	8793	623	22	3	734	3	LILRB4	19	55176586	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	609572	55176586	3952397	374	57028										
PTPRH	5794	broad.mit.edu	37	chr19	55693178	55693178	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gttctcgtagatgaggttttCgacatcctcatacgggactt	10	9	2	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:55693178C>T	uc002qjq.2	-	20	3365	c.3292G>A	c.(3292-3294)GAA>AAA	p.E1098K	PTPRH_uc010esv.2_Missense_Mutation_p.E920K|SYT5_uc002qjm.1_5'Flank|SYT5_uc002qjp.2_5'Flank|SYT5_uc002qjn.1_5'Flank|SYT5_uc002qjo.1_5'Flank	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	1098	Cytoplasmic (Potential).				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)		ATGAGGTTTTCGACATCCTCA	0.592													22	201	---	---	---	---	PASS	T	55693178	T	T	55693178	3	4	161	1	0	0	0	0	1	0	0	0	12803	893	31	2	59	2	PTPRH	19	55693178	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	516592	55693178	3435805	375	57029										
NLRP13	126204	broad.mit.edu	37	chr19	56424006	56424006	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aaagtgtctcatgaaatataCccgtaggtcgtcccctgtga							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:56424006C>A	uc010ygg.1	-	5	1202	c.1177G>T	c.(1177-1179)GTA>TTA	p.V393L		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	393	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)		ATGAAATATACCCGTAGGTCG	0.433													63	196	---	---	---	---	PASS	A	56424006	A	A	56424006	3	1	161	1	0	0	0	0	1	0	0	0	10475	507	18	3	1980	3	NLRP13	19	56424006	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	730828	56424006	2704977	376	57030	1022	2								
NLRP13	126204	broad.mit.edu	37	chr19	56424007	56424007	+	Silent	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aagtgtctcatgaaatatacCcgtaggtcgtcccctgtgaa							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:56424007C>A	uc010ygg.1	-	5	1201	c.1176G>T	c.(1174-1176)CGG>CGT	p.R392R		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	392	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)		TGAAATATACCCGTAGGTCGT	0.433													63	197	---	---	---	---	PASS	A	56424007	A	A	56424007	2	1	161	1	0	0	0	0	0	0	0	1	10475	610	22	3		3	NLRP13	19	56424007	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	56424007	2704976	377	57031	1022	2								
NLRP8	126205	broad.mit.edu	37	chr19	56466738	56466738	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tctagcttgtttcccaccagAgctgagaacttttccagaaa	7	11	1	3	rs138591327	byFrequency	TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:56466738A>T	uc002qmh.2	+	3	1385	c.1314A>T	c.(1312-1314)AGA>AGT	p.R438S	NLRP8_uc010etg.2_Missense_Mutation_p.R438S	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	438	NACHT.					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)		TTCCCACCAGAGCTGAGAACT	0.478													51	144	---	---	---	---	PASS	T	56466738	T	T	56466738	3	4	161	1	0	0	0	0	1	0	0	0	10483	301	11	5	1324	5	NLRP8	19	56466738	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	42731	56466738	2662245	378	57032										
ZIM2	23619	broad.mit.edu	37	chr19	57286858	57286858	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gagtcaaaagtttctcttggTtgccctggtgtggttccaat	11	8	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:57286858T>C	uc002qnr.2	-	11	1164	c.782A>G	c.(781-783)AAC>AGC	p.N261S	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Missense_Mutation_p.N57S|ZIM2_uc010ygr.1_Missense_Mutation_p.N57S|ZIM2_uc002qnq.2_Missense_Mutation_p.N261S|ZIM2_uc010etp.2_Missense_Mutation_p.N261S|ZIM2_uc010ygs.1_Missense_Mutation_p.N261S	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	261					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		TTTCTCTTGGTTGCCCTGGTG	0.458													50	122	---	---	---	---	PASS	C	57286858	C	C	57286858	3	2	161	1	0	0	0	0	1	0	0	0	17681	1725	60	5	805	5	ZIM2	19	57286858	Missense_Mutation	SNP	T	TCGA-66-2782-01A-01D-1522-08	820120	57286858	1842125	379	57033										
PEG3	5178	broad.mit.edu	37	chr19	57328312	57328312	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttcaaaacgtttccctccaaCctgacttttctgaacttcac							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:57328312C>A	uc002qnu.2	-	7	1849	c.1498G>T	c.(1498-1500)GTT>TTT	p.V500F	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.V471F|PEG3_uc002qnv.2_Missense_Mutation_p.V500F|PEG3_uc002qnw.2_Missense_Mutation_p.V376F|PEG3_uc002qnx.2_Missense_Mutation_p.V374F|PEG3_uc010etr.2_Missense_Mutation_p.V500F	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	500					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TTCCCTCCAACCTGACTTTTC	0.443													64	216	---	---	---	---	PASS	A	57328312	A	A	57328312	3	1	161	1	0	0	0	0	1	0	0	0	11720	507	18	3	3272	3	PEG3	19	57328312	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	41454	57328312	1800671	380	57034	1023	2								
PEG3	5178	broad.mit.edu	37	chr19	57328313	57328313	+	Missense_Mutation	SNP	C	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tcaaaacgtttccctccaacCtgacttttctgaacttcact							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr19:57328313C>A	uc002qnu.2	-	7	1848	c.1497G>T	c.(1495-1497)CAG>CAT	p.Q499H	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.Q470H|PEG3_uc002qnv.2_Missense_Mutation_p.Q499H|PEG3_uc002qnw.2_Missense_Mutation_p.Q375H|PEG3_uc002qnx.2_Missense_Mutation_p.Q373H|PEG3_uc010etr.2_Missense_Mutation_p.Q499H	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	499					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TCCCTCCAACCTGACTTTTCT	0.443													65	215	---	---	---	---	PASS	A	57328313	A	A	57328313	3	1	161	1	0	0	0	0	1	0	0	0	11720	680	24	3	3273	3	PEG3	19	57328313	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1	57328313	1800670	381	57035	1023	2								
TGM6	343641	broad.mit.edu	37	chr20	2384303	2384303	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctggctcacgatggccccttCgtgtttgcggaggtcaacgc	13	13	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr20:2384303C>A	uc002wfy.1	+	9	1231	c.1170C>A	c.(1168-1170)TTC>TTA	p.F390L	TGM6_uc010gal.1_Missense_Mutation_p.F390L	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	390					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	ATGGCCCCTTCGTGTTTGCGG	0.617													45	83	---	---	---	---	PASS	A	2384303	A	A	2384303	3	1	161	1	0	0	0	0	1	0	0	0	15831	883	31	2	1204	2	TGM6	20	2384303	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08		2384303	60641217	382	57036										
MACROD2	140733	broad.mit.edu	37	chr20	14665530	14665530	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cagccggcccctgtttgctaGctgaatgtcgtaacctgaat	10	12	0	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr20:14665530G>T	uc002wou.2	+	5	607	c.343G>T	c.(343-345)GCT>TCT	p.A115S	MACROD2_uc002wot.2_Missense_Mutation_p.A115S|MACROD2_uc002wox.2_RNA	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	115	Macro.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				CTGTTTGCTAGCTGAATGTCG	0.408													57	226	---	---	---	---	PASS	T	14665530	T	T	14665530	3	4	161	1	0	0	0	0	1	0	0	0	9146	971	34	3	361	3	MACROD2	20	14665530	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	12281227	14665530	48359990	383	57037										
NCOA6	23054	broad.mit.edu	37	chr20	33328762	33328762	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gggctagcctcatctggattCaattctttcacttgctgcac	8	12	5	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr20:33328762C>T	uc002xav.2	-	12	7869	c.5298G>A	c.(5296-5298)TTG>TTA	p.L1766L	NCOA6_uc002xaw.2_Silent_p.L1766L	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1766	EP300/CRSP3-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						CATCTGGATTCAATTCTTTCA	0.507													19	88	---	---	---	---	PASS	T	33328762	T	T	33328762	2	4	161	1	0	0	0	0	0	0	0	1	10233	825	29	2		2	NCOA6	20	33328762	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08	18663232	33328762	29696758	384	57038										
NCOA6	23054	broad.mit.edu	37	chr20	33370155	33370155	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gtttggaaggtcatccaaaaCcatggtgaatattattccag	9	7	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr20:33370155C>T	uc002xav.2	-	4	2575	c.4G>A	c.(4-6)GTT>ATT	p.V2I	NCOA6_uc002xaw.2_Missense_Mutation_p.V2I|NCOA6_uc010gew.1_Missense_Mutation_p.V2I	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	2	TBP/GTF2A-binding region.|NCOA1-binding region.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						TCATCCAAAACCATGGTGAAT	0.363													33	84	---	---	---	---	PASS	T	33370155	T	T	33370155	3	4	161	1	0	0	0	0	1	0	0	0	10233	507	18	3	6239	3	NCOA6	20	33370155	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	41393	33370155	29655365	385	57039										
PPP1R16B	26051	broad.mit.edu	37	chr20	37536831	37536831	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggacagaccaagagaataagGaccctgtgagtggcctcacg	13	10	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr20:37536831G>T	uc002xje.2	+	10	1378	c.1189G>T	c.(1189-1191)GAC>TAC	p.D397Y	PPP1R16B_uc010ggc.2_Missense_Mutation_p.D355Y	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	397					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AGAGAATAAGGACCCTGTGAG	0.612													20	45	---	---	---	---	PASS	T	37536831	T	T	37536831	3	4	161	1	0	0	0	0	1	0	0	0	12366	1174	41	2	1223	2	PPP1R16B	20	37536831	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	4166676	37536831	25488689	386	57040										
PREX1	57580	broad.mit.edu	37	chr20	47266097	47266097	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gatgcagtgctgggtgtacgAcatggggttcaggtggcctg	18	7	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr20:47266097A>T	uc002xtw.1	-	25	3069	c.3046T>A	c.(3046-3048)TCG>ACG	p.S1016T	PREX1_uc002xtv.1_Missense_Mutation_p.S313T	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1016					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			TGGGTGTACGACATGGGGTTC	0.587													4	22	---	---	---	---	PASS	T	47266097	T	T	47266097	3	4	161	1	0	0	0	0	1	0	0	0	12476	275	10	5	1997	5	PREX1	20	47266097	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08	9729266	47266097	15759423	387	57041										
APCDD1L	164284	broad.mit.edu	37	chr20	57042215	57042215	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gggccggtagtgccgcctctCcgccgggtcggtgtggatgt	18	12	1	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr20:57042215C>T	uc002xze.1	-	3	874	c.688G>A	c.(688-690)GAG>AAG	p.E230K	APCDD1L_uc010zzp.1_Missense_Mutation_p.E241K	NM_153360	NP_699191	Q8NCL9	APCDL_HUMAN	adenomatosis polyposis coli down-regulated	230						integral to membrane				ovary(1)	1	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)			TGCCGCCTCTCCGCCGGGTCG	0.736													12	21	---	---	---	---	PASS	T	57042215	T	T	57042215	3	4	161	1	0	0	0	0	1	0	0	0	766	864	30	2	825	2	APCDD1L	20	57042215	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	9776118	57042215	5983305	388	57042										
NCAM2	4685	broad.mit.edu	37	chr21	22656553	22656553	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tatagattggtataatcctcAaggagagaagataatttcaa	8	4	2	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr21:22656553A>T	uc002yld.1	+	3	419	c.170A>T	c.(169-171)CAA>CTA	p.Q57L	NCAM2_uc011acb.1_Intron|NCAM2_uc011acc.1_Missense_Mutation_p.Q82L	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	57	Ig-like C2-type 1.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TATAATCCTCAAGGAGAGAAG	0.358													27	72	---	---	---	---	PASS	T	22656553	T	T	22656553	3	4	161	1	0	0	0	0	1	0	0	0	10203	130	5	5	180	5	NCAM2	21	22656553	Missense_Mutation	SNP	A	TCGA-66-2782-01A-01D-1522-08		22656553	25473342	389	57043										
FTCD	10841	broad.mit.edu	37	chr21	47557212	47557212	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gatgagcacgttgaaatatgCgccaaacacgcccatctcca	8	13	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr21:47557212C>T	uc002zif.2	-	13	1524	c.1480G>A	c.(1480-1482)GCA>ACA	p.A494T	FTCD_uc002zie.2_RNA|FTCD_uc002zig.2_Missense_Mutation_p.A494T|FTCD_uc002zih.2_Missense_Mutation_p.A494T|FTCD_uc010gqf.2_Missense_Mutation_p.R479H|FTCD_uc010gqg.1_Missense_Mutation_p.A363T	NM_006657	NP_006648	O95954	FTCD_HUMAN	formiminotransferase cyclodeaminase	494	Cyclodeaminase/cyclohydrolase (By similarity).				folic acid-containing compound metabolic process|histidine catabolic process	centriole|cytosol|Golgi apparatus	folic acid binding|formimidoyltetrahydrofolate cyclodeaminase activity|glutamate formimidoyltransferase activity			pancreas(1)|skin(1)	2	Breast(49;0.214)			Colorectal(79;0.235)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	TTGAAATATGCGCCAAACACG	0.607													4	144	---	---	---	---	PASS	T	47557212	T	T	47557212	3	4	161	1	0	0	0	0	1	0	0	0	6081	768	27	1	153	1	FTCD	21	47557212	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	24900659	47557212	572683	390	57044										
PCNT	5116	broad.mit.edu	37	chr21	47777037	47777037	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	aaagaagaaattgaactcctAaaaatagaaaatagaaattt	5	3	0	5			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr21:47777037A>T	uc002zji.3	+	13	2192	c.2085A>T	c.(2083-2085)CTA>CTT	p.L695L	PCNT_uc002zjj.2_Silent_p.L577L	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	695	Glu-rich.|Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TTGAACTCCTAAAAATAGAAA	0.483													57	96	---	---	---	---	PASS	T	47777037	T	T	47777037	2	4	161	1	0	0	0	0	0	0	0	1	11590	349	13	5		5	PCNT	21	47777037	Silent	SNP	A	TCGA-66-2782-01A-01D-1522-08	219825	47777037	352858	391	57045										
IGLL1	3543	broad.mit.edu	37	chr22	23917219	23917219	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agttatgcttggattgaaacCcccggggccagcacctgggg	14	11	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr22:23917219C>A	uc002zxd.2	-	2	375	c.257G>T	c.(256-258)GGG>GTG	p.G86V	IGLL1_uc002zxe.2_Intron	NM_020070	NP_064455	P15814	IGLL1_HUMAN	immunoglobulin lambda-like polypeptide 1 isoform	86					immune response	extracellular region|membrane					0						GGATTGAAACCCCCGGGGCCA	0.617													9	77	---	---	---	---	PASS	A	23917219	A	A	23917219	3	1	161	1	0	0	0	0	1	0	0	0	7593	623	22	3	392	3	IGLL1	22	23917219	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08		23917219	27387347	392	57046										
MYO18B	84700	broad.mit.edu	37	chr22	26164642	26164642	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	acccccaagaccacagagctGaaagaggctgagccccaggg	12	14	0	5			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr22:26164642G>C	uc003abz.1	+	4	1009	c.759G>C	c.(757-759)CTG>CTC	p.L253L	MYO18B_uc003aca.1_Silent_p.L134L|MYO18B_uc010guy.1_Silent_p.L134L|MYO18B_uc010guz.1_Silent_p.L134L|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_5'Flank	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	253						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CCACAGAGCTGAAAGAGGCTG	0.637													3	13	---	---	---	---	PASS	C	26164642	C	C	26164642	2	2	161	1	0	0	0	0	0	0	0	1	10066	1277	45	2		2	MYO18B	22	26164642	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	2247423	26164642	25139924	393	57047										
DEPDC5	9681	broad.mit.edu	37	chr22	32205622	32205622	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctctgagaaagcaaaaaatgGccgtgatacatgtgagtatt	10	6	1	3			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr22:32205622G>T	uc003als.2	+	19	1455	c.1313G>T	c.(1312-1314)GGC>GTC	p.G438V	DEPDC5_uc011als.1_Missense_Mutation_p.G438V|DEPDC5_uc011alu.1_Missense_Mutation_p.G438V|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.G438V|DEPDC5_uc003alr.1_Missense_Mutation_p.G438V|DEPDC5_uc011alt.1_Missense_Mutation_p.G410V	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	438					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						GCAAAAAATGGCCGTGATACA	0.274													20	90	---	---	---	---	PASS	T	32205622	T	T	32205622	3	4	161	1	0	0	0	0	1	0	0	0	4442	1203	42	3	1383	3	DEPDC5	22	32205622	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	6040980	32205622	19098944	394	57048										
SLC5A1	6523	broad.mit.edu	37	chr22	32482219	32482219	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cttcccagaaaaaattgcctGtgtcgtcccttcagaatgtg	8	11	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr22:32482219G>T	uc003amc.2	+	10	1266	c.1034G>T	c.(1033-1035)TGT>TTT	p.C345F	SLC5A1_uc011alz.1_Missense_Mutation_p.C218F	NM_000343	NP_000334	P13866	SC5A1_HUMAN	solute carrier family 5 (sodium/glucose	345	Extracellular (Potential).				carbohydrate metabolic process	integral to plasma membrane	glucose:sodium symporter activity|protein binding			skin(1)	1						AAAATTGCCTGTGTCGTCCCT	0.418													53	180	---	---	---	---	PASS	T	32482219	T	T	32482219	3	4	161	1	0	0	0	0	1	0	0	0	14661	1377	48	3	1072	3	SLC5A1	22	32482219	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	276597	32482219	18822347	395	57049										
SH3BP1	23616	broad.mit.edu	37	chr22	38039103	38039103	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	acccccccatgcccatccccAggaggagctgccagccatcc	8	21	0	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chr22:38039103A>T	uc003ati.2	+	6	508	c.397_splice	c.e6-2	p.E133_splice	SH3BP1_uc003atg.1_Splice_Site|SH3BP1_uc011anl.1_Splice_Site_p.E133_splice|SH3BP1_uc003ath.1_Splice_Site_p.E133_splice|SH3BP1_uc003atj.1_Splice_Site_p.E69_splice|SH3BP1_uc003atk.1_Splice_Site_p.E47_splice|uc003atl.1_Intron	NM_018957	NP_061830	Q9Y3L3	3BP1_HUMAN	SH3-domain binding protein 1						signal transduction	cytoplasm	GTPase activator activity|SH3 domain binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GCCCATCCCCAGGAGGAGCTG	0.637											OREG0026546	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	9	---	---	---	---	PASS	T	38039103	T	T	38039103	5	4	161	1	0	0	0	0	0	0	1	0	14244	202	7	5	417	5	SH3BP1	22	38039103	Splice_Site	SNP	A	TCGA-66-2782-01A-01D-1522-08	5556884	38039103	13265463	396	57050										
STS	412	broad.mit.edu	37	chrX	7223133	7223133	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctgagattggctaatgatacCctcatctacttcacatcgga	7	11	3	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:7223133C>T	uc004cry.3	+	7	1250	c.1005C>T	c.(1003-1005)ACC>ACT	p.T335T		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	335	Lumenal.				female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)	CTAATGATACCCTCATCTACT	0.413									Ichthyosis				25	48	---	---	---	---	PASS	T	7223133	T	T	7223133	2	4	161	1	0	0	0	0	0	0	0	1	15331	610	22	3		3	STS	23	7223133	Silent	SNP	C	TCGA-66-2782-01A-01D-1522-08		7223133	148047427	397	57051										
MSL3	10943	broad.mit.edu	37	chrX	11786713	11786713	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	gacacctgtgcatagcagatCatcttcacctattcctctga	6	13	4	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:11786713C>A	uc004cuw.2	+	10	1298	c.1193C>A	c.(1192-1194)TCA>TAA	p.S398*	MSL3_uc004cux.2_Nonsense_Mutation_p.S339*|MSL3_uc011mig.1_Nonsense_Mutation_p.S249*|MSL3_uc011mih.1_Nonsense_Mutation_p.S386*|MSL3_uc004cuy.2_Nonsense_Mutation_p.S232*	NM_078629	NP_523353	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	398					histone H4-K16 acetylation|multicellular organismal development|transcription from RNA polymerase II promoter	MSL complex	DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CATAGCAGATCATCTTCACCT	0.398													28	55	---	---	---	---	PASS	A	11786713	A	A	11786713	4	1	161	1	0	0	0	0	0	1	0	0	9879	838	29	2	1311	2	MSL3	23	11786713	Nonsense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	4563580	11786713	143483847	398	57052										
SCML2	10389	broad.mit.edu	37	chrX	18323182	18323182	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	atcatacttgcaccagtaatCaaaagctccactccagccat	4	14	2	0			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:18323182C>G	uc004cyl.2	-	7	797	c.640G>C	c.(640-642)GAT>CAT	p.D214H	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_Missense_Mutation_p.D214H|SCML2_uc011miz.1_Missense_Mutation_p.D148H	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	214	MBT 2.				anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					CACCAGTAATCAAAAGCTCCA	0.438													56	152	---	---	---	---	PASS	G	18323182	G	G	18323182	3	3	161	1	0	0	0	0	1	0	0	0	13910	826	29	2	1498	2	SCML2	23	18323182	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	6536469	18323182	136947378	399	57053										
FAM47B	170062	broad.mit.edu	37	chrX	34962134	34962134	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cttttgagagtcggatgcccCatctccgcctggtgcttccc	10	15	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:34962134C>A	uc004ddi.1	+	1	1204	c.1186C>A	c.(1186-1188)CAT>AAT	p.H396N		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	396										ovary(3)|breast(1)	4						TCGGATGCCCCATCTCCGCCT	0.572													11	25	---	---	---	---	PASS	A	34962134	A	A	34962134	3	1	161	1	0	0	0	0	1	0	0	0	5570	594	21	3	1188	3	FAM47B	23	34962134	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	16638952	34962134	120308426	400	57054										
PHF8	23133	broad.mit.edu	37	chrX	54049215	54049215	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ggagggcccatgcaagacttCacagttggggcagtggtaga	16	8	1	2			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:54049215C>A	uc004dsu.2	-	3	341	c.268G>T	c.(268-270)GAA>TAA	p.E90*	PHF8_uc004dst.2_Nonsense_Mutation_p.E54*|PHF8_uc004dsw.2_Nonsense_Mutation_p.E54*|PHF8_uc004dsy.2_Nonsense_Mutation_p.E54*	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	90	PHD-type.				brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						TGCAAGACTTCACAGTTGGGG	0.438													14	18	---	---	---	---	PASS	A	54049215	A	A	54049215	4	1	161	1	0	0	0	0	0	1	0	0	11840	835	29	2	3164	2	PHF8	23	54049215	Nonsense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	19087081	54049215	101221345	401	57055										
TRO	7216	broad.mit.edu	37	chrX	54949443	54949443	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cccaatccccaactggccatGagggtggcactatacagctg	10	14	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:54949443G>T	uc004dtq.2	+	3	585	c.478G>T	c.(478-480)GAG>TAG	p.E160*	TRO_uc011moj.1_Nonsense_Mutation_p.E103*|TRO_uc004dts.2_Nonsense_Mutation_p.E160*|TRO_uc004dtr.2_Nonsense_Mutation_p.E160*|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Intron|TRO_uc004dtw.2_Intron|TRO_uc004dtx.2_5'Flank	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	160					embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						AACTGGCCATGAGGGTGGCAC	0.507													11	18	---	---	---	---	PASS	T	54949443	T	T	54949443	4	4	161	1	0	0	0	0	0	1	0	0	16571	1291	45	2	484	2	TRO	23	54949443	Nonsense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	900228	54949443	100321117	402	57056										
MAGEE1	57692	broad.mit.edu	37	chrX	75649297	75649297	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ctccgtgccgcccacccctgGtgggggactgagcacctccg	13	18	0	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:75649297G>T	uc004ecm.1	+	1	1181	c.974G>T	c.(973-975)GGT>GTT	p.G325V		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	325	Pro-rich.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						CCCACCCCTGGTGGGGGACTG	0.701													8	11	---	---	---	---	PASS	T	75649297	T	T	75649297	3	4	161	1	0	0	0	0	1	0	0	0	9185	1261	44	3	976	3	MAGEE1	23	75649297	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	20699854	75649297	79621263	403	57057										
PCDH11X	27328	broad.mit.edu	37	chrX	91133883	91133883	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	agcattcccctaagaacttgCtgcttaattttgtcactatt	5	10	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:91133883C>A	uc004efk.1	+	2	3489	c.2644C>A	c.(2644-2646)CTG>ATG	p.L882M	PCDH11X_uc004efl.1_Missense_Mutation_p.L882M|PCDH11X_uc004efo.1_Missense_Mutation_p.L882M|PCDH11X_uc010nmv.1_Missense_Mutation_p.L882M|PCDH11X_uc004efm.1_Missense_Mutation_p.L882M|PCDH11X_uc004efn.1_Missense_Mutation_p.L882M|PCDH11X_uc004efh.1_Missense_Mutation_p.L882M|PCDH11X_uc004efj.1_Missense_Mutation_p.L882M	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	882	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TAAGAACTTGCTGCTTAATTT	0.358													35	44	---	---	---	---	PASS	A	91133883	A	A	91133883	3	1	161	1	0	0	0	0	1	0	0	0	11508	796	28	3	2650	3	PCDH11X	23	91133883	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	15484586	91133883	64136677	404	57058										
DCX	1641	broad.mit.edu	37	chrX	110644366	110644366	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	tccgaggcttcaccccactgCggatgatggtaaccagcttg	11	13	1	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:110644366C>A	uc004epd.2	-	3	972	c.800G>T	c.(799-801)CGC>CTC	p.R267L	DCX_uc011msv.1_Missense_Mutation_p.R267L|DCX_uc004epe.2_Missense_Mutation_p.R186L|DCX_uc004epf.2_Missense_Mutation_p.R186L|DCX_uc004epg.2_Missense_Mutation_p.R186L	NM_000555	NP_000546	O43602	DCX_HUMAN	doublecortin isoform a	267	Doublecortin 2.		R -> C (in SBHX).		axon guidance|central nervous system development|intracellular signal transduction	cytosol|microtubule associated complex	microtubule binding			central_nervous_system(2)|lung(1)|skin(1)	4						CACCCCACTGCGGATGATGGT	0.537													71	62	---	---	---	---	PASS	A	110644366	A	A	110644366	3	1	161	1	0	0	0	0	1	0	0	0	4318	768	27	1	560	1	DCX	23	110644366	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	19510483	110644366	44626194	405	57059										
GPR112	139378	broad.mit.edu	37	chrX	135430658	135430658	+	Missense_Mutation	SNP	G	T	T													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	attgtcttcagttacccccaGgactactatgaccatgcaaa							TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:135430658G>T	uc004ezu.1	+	6	5084	c.4793G>T	c.(4792-4794)AGG>ATG	p.R1598M	GPR112_uc010nsb.1_Missense_Mutation_p.R1393M|GPR112_uc010nsc.1_Missense_Mutation_p.R1365M	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1598	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					GTTACCCCCAGGACTACTATG	0.408													96	127	---	---	---	---	PASS	T	135430658	T	T	135430658	3	4	161	1	0	0	0	0	1	0	0	0	6629	1000	35	3	4803	3	GPR112	23	135430658	Missense_Mutation	SNP	G	TCGA-66-2782-01A-01D-1522-08	24786292	135430658	19839902	406	57060	1024	2								
GPR112	139378	broad.mit.edu	37	chrX	135430659	135430659	+	Silent	SNP	G	A	A													0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	ttgtcttcagttacccccagGactactatgaccatgcaaac					rs149903703	by1000genomes	TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:135430659G>A	uc004ezu.1	+	6	5085	c.4794G>A	c.(4792-4794)AGG>AGA	p.R1598R	GPR112_uc010nsb.1_Silent_p.R1393R|GPR112_uc010nsc.1_Silent_p.R1365R	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1598	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TTACCCCCAGGACTACTATGA	0.413													95	127	---	---	---	---	PASS	A	135430659	A	A	135430659	2	1	161	1	0	0	0	0	0	0	0	1	6629	1165	41	2		2	GPR112	23	135430659	Silent	SNP	G	TCGA-66-2782-01A-01D-1522-08	1	135430659	19839901	407	57061	1024	2								
MAGEC1	9947	broad.mit.edu	37	chrX	140994850	140994850	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	actttcctcagagccctcctCagggggaggactccctatct	9	15	3	1			TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:140994850C>A	uc004fbt.2	+	4	1946	c.1660C>A	c.(1660-1662)CAG>AAG	p.Q554K	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	554							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GAGCCCTCCTCAGGGGGAGGA	0.567										HNSCC(15;0.026)			211	245	---	---	---	---	PASS	A	140994850	A	A	140994850	3	1	161	1	0	0	0	0	1	0	0	0	9180	827	29	2	1666	2	MAGEC1	23	140994850	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	5564191	140994850	14275710	408	57062										
SPANXN3	139067	broad.mit.edu	37	chrX	142596756	142596756	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.150895140664962	59	1.26045090583123e-10	2.45973491450694	3.66354585783555	1.58423604663159	0.0199420163025206	0.157643740096309	35	cctcctttgaaggtccttcaCatgggcctaggtcttcatcc	8	14	3	1	rs113043096		TCGA-66-2782-01A-01D-1522-08	TCGA-66-2782-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	640ff507-203c-45aa-8bc1-030ee8639b5d	8b234cc2-4308-4537-ad5b-f6df232ff846	g.chrX:142596756C>A	uc004fbw.2	-	2	402	c.314G>T	c.(313-315)TGT>TTT	p.C105F		NM_001009609	NP_001009609	Q5MJ09	SPXN3_HUMAN	SPANX-N3 protein	105										ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					AGGTCCTTCACATGGGCCTAG	0.468													91	100	---	---	---	---	PASS	A	142596756	A	A	142596756	3	1	161	1	0	0	0	0	1	0	0	0	14992	478	17	3	115	3	SPANXN3	23	142596756	Missense_Mutation	SNP	C	TCGA-66-2782-01A-01D-1522-08	1601906	142596756	12673804	409	57063										
IGSF21	84966	broad.mit.edu	37	chr1	18618451	18618451	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	catggagaactaccgcaagcGagaggacctggtgtaccagt	13	10	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:18618451G>T	uc001bau.1	+	3	658	c.275G>T	c.(274-276)CGA>CTA	p.R92L		NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	92	Ig-like 1.					extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		TACCGCAAGCGAGAGGACCTG	0.617													77	225	---	---	---	---	PASS	T	18618451	T	T	18618451	3	4	162	1	0	0	0	0	1	0	0	0	7599	1058	37	2	285	2	IGSF21	1	18618451	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08		18618451	230632170	1	57064										
RPS6KA1	6195	broad.mit.edu	37	chr1	26885313	26885313	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tacagattccccaggcatccCccccagcgctggggcccatc	9	19	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:26885313C>G	uc001bmr.1	+	14	1263	c.1100C>G	c.(1099-1101)CCC>CGC	p.P367R	RPS6KA1_uc010ofe.1_Missense_Mutation_p.P275R|RPS6KA1_uc010off.1_Missense_Mutation_p.P351R|RPS6KA1_uc001bms.1_Missense_Mutation_p.P376R|RPS6KA1_uc009vsl.1_Missense_Mutation_p.P210R	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	367	AGC-kinase C-terminal.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		CCAGGCATCCCCCCCAGCGCT	0.672													35	127	---	---	---	---	PASS	G	26885313	G	G	26885313	3	3	162	1	0	0	0	0	1	0	0	0	13650	623	22	4	1293	4	RPS6KA1	1	26885313	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	8266862	26885313	222365308	2	57065										
GNL2	29889	broad.mit.edu	37	chr1	38058403	38058403	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tttaattattttaccacgacTgttcctaaattgaggaaaga	6	6	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:38058403T>A	uc001cbk.2	-	3	317	c.154A>T	c.(154-156)AGT>TGT	p.S52C	GNL2_uc010oif.1_5'UTR|GNL2_uc009vve.2_Missense_Mutation_p.S52C	NM_013285	NP_037417	Q13823	NOG2_HUMAN	guanine nucleotide binding protein-like 2	52					ribosome biogenesis	nucleolus	GTP binding|GTPase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)				TTACCACGACTGTTCCTAAAT	0.363													86	254	---	---	---	---	PASS	A	38058403	A	A	38058403	3	1	162	1	0	0	0	0	1	0	0	0	6536	1580	55	5	2097	5	GNL2	1	38058403	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	11173090	38058403	211192218	3	57066										
MACF1	23499	broad.mit.edu	37	chr1	39798770	39798770	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	agaaacacttcctttacatgTcagaatgaacaagcacacac	5	11	1	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:39798770T>C	uc010oiu.1	+	1	1961	c.1830T>C	c.(1828-1830)TGT>TGC	p.C610C	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	2175					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)			CCTTTACATGTCAGAATGAAC	0.393													3	183	---	---	---	---	PASS	C	39798770	C	C	39798770	2	2	162	1	0	0	0	0	0	0	0	1	9144	1673	58	5		5	MACF1	1	39798770	Silent	SNP	T	TCGA-66-2783-01A-01D-1267-08	1740367	39798770	209451851	4	57067										
PTPRF	5792	broad.mit.edu	37	chr1	44056824	44056824	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	accacccgctacagcattggCggcctcagccctttctcgga	9	17	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:44056824C>T	uc001cjr.2	+	9	1471	c.1131C>T	c.(1129-1131)GGC>GGT	p.G377G	PTPRF_uc001cjs.2_Silent_p.G377G|PTPRF_uc001cju.2_5'UTR|PTPRF_uc009vwt.2_5'UTR|PTPRF_uc001cjv.2_5'UTR	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	377	Extracellular (Potential).|Fibronectin type-III 1.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ACAGCATTGGCGGCCTCAGCC	0.667													4	144	---	---	---	---	PASS	T	44056824	T	T	44056824	2	4	162	1	0	0	0	0	0	0	0	1	12801	755	27	1		1	PTPRF	1	44056824	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	4258054	44056824	205193797	5	57068										
DNAJC6	9829	broad.mit.edu	37	chr1	65845103	65845103	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aggtctcagaatgcagttggCccattaggcaggctcccagt	12	11	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:65845103C>T	uc001dcd.1	+	5	555	c.391C>T	c.(391-393)CCC>TCC	p.P131S	DNAJC6_uc001dcc.1_Missense_Mutation_p.P162S|DNAJC6_uc010opc.1_Missense_Mutation_p.P118S|DNAJC6_uc001dce.1_Missense_Mutation_p.P188S	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	131	Phosphatase tensin-type.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						ATGCAGTTGGCCCATTAGGCA	0.458													6	274	---	---	---	---	PASS	T	65845103	T	T	65845103	3	4	162	1	0	0	0	0	1	0	0	0	4653	739	26	3	409	3	DNAJC6	1	65845103	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	21788279	65845103	183405518	6	57069										
LEPR	3953	broad.mit.edu	37	chr1	66036267	66036267	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgactacttccttttgcctgCtggactctcaaagaatactt	6	11	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:66036267C>A	uc001dci.2	+	4	354	c.152C>A	c.(151-153)GCT>GAT	p.A51D	LEPR_uc001dcg.2_Missense_Mutation_p.A51D|LEPR_uc001dch.2_Missense_Mutation_p.A51D|LEPR_uc009waq.2_Missense_Mutation_p.A51D|LEPR_uc001dcj.2_Missense_Mutation_p.A51D|LEPR_uc001dck.2_Missense_Mutation_p.A51D	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	51	Extracellular (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)		CTTTTGCCTGCTGGACTCTCA	0.368													76	202	---	---	---	---	PASS	A	66036267	A	A	66036267	3	1	162	1	0	0	0	0	1	0	0	0	8728	797	28	3	158	3	LEPR	1	66036267	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	191164	66036267	183214354	7	57070										
ACADM	34	broad.mit.edu	37	chr1	76205738	76205738	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	caaagcagaaaagaaaggagAtgagtatattattaatggtc	10	3	0	4			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:76205738A>G	uc001dgw.3	+	7	972	c.542A>G	c.(541-543)GAT>GGT	p.D181G	ACADM_uc010orc.1_3'UTR|ACADM_uc010ord.1_Missense_Mutation_p.D95G|ACADM_uc009wbp.2_Missense_Mutation_p.D185G|ACADM_uc009wbr.2_Missense_Mutation_p.D214G|ACADM_uc010ore.1_Missense_Mutation_p.D145G|ACADM_uc010orf.1_5'UTR|ACADM_uc001dgx.3_Missense_Mutation_p.D95G|ACADM_uc010org.1_Missense_Mutation_p.D51G	NM_000016	NP_000007	P11310	ACADM_HUMAN	medium-chain acyl-CoA dehydrogenase isoform a	181					carnitine biosynthetic process|carnitine metabolic process, CoA-linked|fatty acid beta-oxidation using acyl-CoA dehydrogenase|medium-chain fatty acid catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|identical protein binding|medium-chain-acyl-CoA dehydrogenase activity			breast(2)|ovary(1)|skin(1)	4						AAGAAAGGAGATGAGTATATT	0.333													46	135	---	---	---	---	PASS	G	76205738	G	G	76205738	3	3	162	1	0	0	0	0	1	0	0	0	113	333	12	5	580	5	ACADM	1	76205738	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	10169471	76205738	173044883	8	57071										
COL11A1	1301	broad.mit.edu	37	chr1	103444940	103444940	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	catatttatatatcatacccGtgcacctttctctccattgg	4	12	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:103444940G>T	uc001dul.2	-	32	2926	c.2608C>A	c.(2608-2610)CGG>AGG	p.R870R	COL11A1_uc001duk.2_Silent_p.R66R|COL11A1_uc001dum.2_Silent_p.R882R|COL11A1_uc001dun.2_Silent_p.R831R|COL11A1_uc009weh.2_Silent_p.R754R	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	870	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TATCATACCCGTGCACCTTTC	0.249													9	32	---	---	---	---	PASS	T	103444940	T	T	103444940	2	4	162	1	0	0	0	0	0	0	0	1	3667	1144	40	1		1	COL11A1	1	103444940	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	27239202	103444940	145805681	9	57072										
AMPD1	270	broad.mit.edu	37	chr1	115220031	115220031	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cagtggatgcgattgcagacGaaccaggaggagagtttgct	15	7	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:115220031G>T	uc001efe.1	-	10	1413	c.1329C>A	c.(1327-1329)TTC>TTA	p.F443L	AMPD1_uc001eff.1_Missense_Mutation_p.F439L	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	443					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	GATTGCAGACGAACCAGGAGG	0.562													12	219	---	---	---	---	PASS	T	115220031	T	T	115220031	3	4	162	1	0	0	0	0	1	0	0	0	585	1049	37	2	942	2	AMPD1	1	115220031	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	11775091	115220031	134030590	10	57073										
SPAG17	200162	broad.mit.edu	37	chr1	118558588	118558588	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	taaacaatagtttgtcatacCgttccattgacaggatctgt	7	8	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:118558588C>A	uc001ehk.2	-	29	4355	c.4287G>T	c.(4285-4287)ACG>ACT	p.T1429T		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1429						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TTTGTCATACCGTTCCATTGA	0.303													33	95	---	---	---	---	PASS	A	118558588	A	A	118558588	2	1	162	1	0	0	0	0	0	0	0	1	14979	666	23	1		1	SPAG17	1	118558588	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	3338557	118558588	130692033	11	57074										
ANKRD34A	284615	broad.mit.edu	37	chr1	145473835	145473835	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccaccatccccaggggtggaGgaccctgctcccgcctctcc	10	20	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:145473835G>A	uc001enq.1	+	4	1800	c.507G>A	c.(505-507)GAG>GAA	p.E169E	NBPF10_uc001emp.3_Intron	NM_001039888	NP_001034977	Q69YU3	AN34A_HUMAN	ankyrin repeat domain 34	169											0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CAGGGGTGGAGGACCCTGCTC	0.617													86	153	---	---	---	---	PASS	A	145473835	A	A	145473835	2	1	162	1	0	0	0	0	0	0	0	1	662	991	35	3		3	ANKRD34A	1	145473835	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	26915247	145473835	103776786	12	57075										
RAB13	5872	broad.mit.edu	37	chr1	153958590	153958590	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acatggccagcgggctcaccGatggtggagatgtaagtgtt	15	8	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:153958590G>T	uc001fdt.1	-	1	217	c.123C>A	c.(121-123)ATC>ATA	p.I41I	RAB13_uc001fdu.1_Silent_p.I41I	NM_002870	NP_002861	P51153	RAB13_HUMAN	RAB13, member RAS oncogene family	41	Effector region (By similarity).				cell adhesion|protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	cytoplasmic vesicle membrane|tight junction	GTP binding|GTPase activity				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			CGGGCTCACCGATGGTGGAGA	0.552													20	71	---	---	---	---	PASS	T	153958590	T	T	153958590	2	4	162	1	0	0	0	0	0	0	0	1	12899	1072	37	2		2	RAB13	1	153958590	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	8484755	153958590	95292031	13	57076										
NUP210L	91181	broad.mit.edu	37	chr1	153984754	153984754	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccatttctgccagtggtgatGaagagcttgaatacagttga	11	7	1	5			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:153984754G>C	uc001fdw.2	-	34	4818	c.4746C>G	c.(4744-4746)TTC>TTG	p.F1582L	NUP210L_uc009woq.2_Missense_Mutation_p.F491L|NUP210L_uc010peh.1_Missense_Mutation_p.F1582L	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	1582						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			CAGTGGTGATGAAGAGCTTGA	0.398													86	467	---	---	---	---	PASS	C	153984754	C	C	153984754	3	2	162	1	0	0	0	0	1	0	0	0	10761	1281	45	2	948	2	NUP210L	1	153984754	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	26164	153984754	95265867	14	57077										
DCST2	127579	broad.mit.edu	37	chr1	155006038	155006038	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cccaggggctgtggccttccAccagtagctccagaagcccg	12	16	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:155006038A>C	uc001fgm.2	-	1	220	c.140T>G	c.(139-141)GTG>GGG	p.V47G	DCST2_uc009wpb.2_RNA|DCST1_uc010per.1_5'Flank|DCST1_uc001fgn.1_5'Flank|DCST1_uc010pes.1_5'Flank	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	47	Helical; (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			GTGGCCTTCCACCAGTAGCTC	0.627													80	179	---	---	---	---	PASS	C	155006038	C	C	155006038	3	2	162	1	0	0	0	0	1	0	0	0	4303	159	6	5	2241	5	DCST2	1	155006038	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	1021284	155006038	94244583	15	57078										
FCRL3	115352	broad.mit.edu	37	chr1	157659687	157659687	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gattcccgcagcggtaaggcCtgttctgttcctggaagttc	12	11	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:157659687C>A	uc001frb.2	-	10	2003	c.1711G>T	c.(1711-1713)GGC>TGC	p.G571C	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.G571C|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Missense_Mutation_p.G297C|FCRL3_uc001frc.1_Missense_Mutation_p.G571C	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	571	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					GCGGTAAGGCCTGTTCTGTTC	0.557													93	123	---	---	---	---	PASS	A	157659687	A	A	157659687	3	1	162	1	0	0	0	0	1	0	0	0	5796	681	24	3	517	3	FCRL3	1	157659687	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	2653649	157659687	91590934	16	57079										
SPTA1	6708	broad.mit.edu	37	chr1	158615155	158615155	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tggaaggtgggagcctctgcCtccatgtcagcacggtgctc	14	12	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:158615155C>G	uc001fst.1	-	29	4216	c.4017G>C	c.(4015-4017)GAG>GAC	p.E1339D		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1339	Spectrin 13.				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)					GAGCCTCTGCCTCCATGTCAG	0.483													106	100	---	---	---	---	PASS	G	158615155	G	G	158615155	3	3	162	1	0	0	0	0	1	0	0	0	15115	680	24	4	3338	4	SPTA1	1	158615155	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	955468	158615155	90635466	17	57080										
SPTA1	6708	broad.mit.edu	37	chr1	158623161	158623161	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atcgtgggccagtcttctgaCatagacagctgggacaatgc	12	10	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:158623161C>T	uc001fst.1	-	22	3290	c.3091G>A	c.(3091-3093)GTC>ATC	p.V1031I		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1031	SH3.				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)					AGTCTTCTGACATAGACAGCT	0.547													141	152	---	---	---	---	PASS	T	158623161	T	T	158623161	3	4	162	1	0	0	0	0	1	0	0	0	15115	478	17	3	4292	3	SPTA1	1	158623161	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	8006	158623161	90627460	18	57081										
IGSF9	57549	broad.mit.edu	37	chr1	159900969	159900969	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aatctctgcagataaccaccAtcaaagccaggctcccagga	7	14	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:159900969A>G	uc001fur.2	-	13	1794	c.1596T>C	c.(1594-1596)GAT>GAC	p.D532D	IGSF9_uc001fuq.2_Silent_p.D516D|IGSF9_uc001fup.2_5'UTR	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	532	Fibronectin type-III 1.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			GATAACCACCATCAAAGCCAG	0.557													20	92	---	---	---	---	PASS	G	159900969	G	G	159900969	2	3	162	1	0	0	0	0	0	0	0	1	7605	214	8	5		5	IGSF9	1	159900969	Silent	SNP	A	TCGA-66-2783-01A-01D-1267-08	1277808	159900969	89349652	19	57082										
KIFAP3	22920	broad.mit.edu	37	chr1	169993677	169993677	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acatgtgaactatgttcttgTtcctcattttcagttcggta	7	8	3	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:169993677T>C	uc001ggv.2	-	9	1173	c.902A>G	c.(901-903)AAC>AGC	p.N301S	KIFAP3_uc010plx.1_Missense_Mutation_p.N3S	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	301					blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TATGTTCTTGTTCCTCATTTT	0.343													21	101	---	---	---	---	PASS	C	169993677	C	C	169993677	3	2	162	1	0	0	0	0	1	0	0	0	8311	1725	60	5	1524	5	KIFAP3	1	169993677	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	10092708	169993677	79256944	20	57083										
PAPPA2	60676	broad.mit.edu	37	chr1	176563866	176563866	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccacttacgatggacggcacAtggccctgtatgtggatggc	13	11	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:176563866A>T	uc001gkz.2	+	3	2290	c.1126A>T	c.(1126-1128)ATG>TTG	p.M376L	PAPPA2_uc001gky.1_Missense_Mutation_p.M376L|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	376					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TGGACGGCACATGGCCCTGTA	0.582													41	141	---	---	---	---	PASS	T	176563866	T	T	176563866	3	4	162	1	0	0	0	0	1	0	0	0	11433	217	8	5	1132	5	PAPPA2	1	176563866	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	6570189	176563866	72686755	21	57084										
C1orf125	126859	broad.mit.edu	37	chr1	179494492	179494492	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gctgtaaaagaattcattgaGcctgaaatagacgagtcttt	9	6	2	4			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:179494492G>A	uc001gmo.2	+	22	2647	c.2520G>A	c.(2518-2520)GAG>GAA	p.E840E	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmp.2_Intron|C1orf125_uc009wxh.2_RNA	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	840	Glu-rich.										0						AATTCATTGAGCCTGAAATAG	0.289													5	66	---	---	---	---	PASS	A	179494492	A	A	179494492	2	1	162	1	0	0	0	0	0	0	0	1	1993	962	34	3		3	C1orf125	1	179494492	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	2930626	179494492	69756129	22	57085										
HMCN1	83872	broad.mit.edu	37	chr1	186008977	186008977	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tctgacctggttgaaagatgGgagtcctgtttctagttttt	11	6	2	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:186008977G>A	uc001grq.1	+	39	6375	c.6146G>A	c.(6145-6147)GGG>GAG	p.G2049E		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2049	Ig-like C2-type 18.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TTGAAAGATGGGAGTCCTGTT	0.443													151	166	---	---	---	---	PASS	A	186008977	A	A	186008977	3	1	162	1	0	0	0	0	1	0	0	0	7220	1232	43	3	6300	3	HMCN1	1	186008977	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	6514485	186008977	63241644	23	57086										
CRB1	23418	broad.mit.edu	37	chr1	197390149	197390149	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggaatccactgcgaagaagaCgtcaatgaatgttcttcaaa	9	8	3	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:197390149C>T	uc001gtz.2	+	6	1326	c.1191C>T	c.(1189-1191)GAC>GAT	p.D397D	CRB1_uc010poz.1_Silent_p.D328D|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Silent_p.D285D|CRB1_uc010ppb.1_Silent_p.D397D|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_Translation_Start_Site|CRB1_uc001gub.1_Silent_p.D46D	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	397	Extracellular (Potential).|EGF-like 10; calcium-binding (Potential).				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						GCGAAGAAGACGTCAATGAAT	0.333													88	212	---	---	---	---	PASS	T	197390149	T	T	197390149	2	4	162	1	0	0	0	0	0	0	0	1	3848	535	19	1		1	CRB1	1	197390149	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	11381172	197390149	51860472	24	57087										
TNNT2	7139	broad.mit.edu	37	chr1	201332453	201332453	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gtaacccccaaaatgcatcaTgttggacaaagccttcttct	6	12	3	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:201332453T>C	uc001gwf.2	-	12	640	c.571A>G	c.(571-573)ATG>GTG	p.M191V	TNNT2_uc009wzn.2_5'Flank|TNNT2_uc009wzo.2_5'Flank|TNNT2_uc009wzp.2_5'Flank|TNNT2_uc001gwg.2_Missense_Mutation_p.M181V|TNNT2_uc001gwh.2_Missense_Mutation_p.M176V|TNNT2_uc001gwi.2_Missense_Mutation_p.M151V|TNNT2_uc009wzr.2_Missense_Mutation_p.M122V|TNNT2_uc001gwj.1_RNA|TNNT2_uc009wzs.1_Missense_Mutation_p.M156V|TNNT2_uc001gwk.1_Missense_Mutation_p.M122V|TNNT2_uc009wzt.1_Missense_Mutation_p.M181V	NM_000364	NP_000355	P45379	TNNT2_HUMAN	troponin T type 2, cardiac isoform 1	191					ATP catabolic process|muscle filament sliding|negative regulation of ATPase activity|positive regulation of ATPase activity|regulation of heart contraction|response to calcium ion|response to calcium ion|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin binding|tropomyosin binding|troponin C binding|troponin I binding				0						AAATGCATCATGTTGGACAAA	0.552													264	450	---	---	---	---	PASS	C	201332453	C	C	201332453	3	2	162	1	0	0	0	0	1	0	0	0	16328	1464	51	5	352	5	TNNT2	1	201332453	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	3942304	201332453	47918168	25	57088										
NUAK2	81788	broad.mit.edu	37	chr1	205272861	205272861	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cccctgagggtcggctggccCgggccagggggcgaggtggg	22	12	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:205272861C>G	uc001hce.2	-	7	1731	c.1604G>C	c.(1603-1605)CGG>CCG	p.R535P		NM_030952	NP_112214	Q9H093	NUAK2_HUMAN	NUAK family, SNF1-like kinase, 2	535					actin cytoskeleton organization|apoptosis|cellular response to glucose starvation|negative regulation of apoptosis		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)	5	Breast(84;0.186)		BRCA - Breast invasive adenocarcinoma(75;0.117)			TCGGCTGGCCCGGGCCAGGGG	0.657													47	69	---	---	---	---	PASS	G	205272861	G	G	205272861	3	3	162	1	0	0	0	0	1	0	0	0	10713	652	23	4	286	4	NUAK2	1	205272861	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	3940408	205272861	43977760	26	57089										
IKBKE	9641	broad.mit.edu	37	chr1	206647710	206647710	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttgctgtgaaggtcttcaacActaccagctacctgcggccc	9	14	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:206647710A>G	uc001hdz.1	+	4	492	c.124A>G	c.(124-126)ACT>GCT	p.T42A	IKBKE_uc009xbu.1_Missense_Mutation_p.T42A|IKBKE_uc009xbv.1_Missense_Mutation_p.T42A|IKBKE_uc001hea.1_5'UTR	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	42	Protein kinase.				DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding			ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)					GGTCTTCAACACTACCAGCTA	0.577													31	130	---	---	---	---	PASS	G	206647710	G	G	206647710	3	3	162	1	0	0	0	0	1	0	0	0	7612	159	6	5	130	5	IKBKE	1	206647710	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	1374849	206647710	42602911	27	57090										
ITPKB	3707	broad.mit.edu	37	chr1	226924704	226924704	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gagctctgtgcctggatgtgCgcctcaaacatgcccacttt	10	13	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:226924704C>T	uc010pvo.1	-	2	796	c.456G>A	c.(454-456)GCG>GCA	p.A152A	ITPKB_uc001hqh.2_Silent_p.A152A	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	152							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				CCTGGATGTGCGCCTCAAACA	0.667													6	324	---	---	---	---	PASS	T	226924704	T	T	226924704	2	4	162	1	0	0	0	0	0	0	0	1	7918	755	27	1		1	ITPKB	1	226924704	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	20276994	226924704	22325917	28	57091										
NUP133	55746	broad.mit.edu	37	chr1	229633923	229633923	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ataaaattccaaaaagagaaGaaacttttcgaccaattcct	4	8	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:229633923G>A	uc001htn.2	-	6	871	c.779C>T	c.(778-780)TCT>TTT	p.S260F		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	260					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				AAAAAGAGAAGAAACTTTTCG	0.353													12	150	---	---	---	---	PASS	A	229633923	A	A	229633923	3	1	162	1	0	0	0	0	1	0	0	0	10754	942	33	2	2775	2	NUP133	1	229633923	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	2709219	229633923	19616698	29	57092										
ZNF496	84838	broad.mit.edu	37	chr1	247464543	247464543	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctcgatggtcacttcttcatCcaggctgttctctagagatc	8	12	4	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr1:247464543C>G	uc001ico.2	-	9	1507	c.1042G>C	c.(1042-1044)GAT>CAT	p.D348H	ZNF496_uc009xgv.2_Missense_Mutation_p.D384H|ZNF496_uc001icp.2_Missense_Mutation_p.D348H	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	348					positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			ACTTCTTCATCCAGGCTGTTC	0.607													31	134	---	---	---	---	PASS	G	247464543	G	G	247464543	3	3	162	1	0	0	0	0	1	0	0	0	17942	855	30	2	725	2	ZNF496	1	247464543	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	17830620	247464543	1786078	30	57093										
CMPK2	129607	broad.mit.edu	37	chr2	7005270	7005270	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acgacctgtgcgcagcccacCtgcagccgcctgccgtcttg	11	18	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:7005270C>A	uc002qyo.2	-	1	667	c.558G>T	c.(556-558)CAG>CAT	p.Q186H	CMPK2_uc010yis.1_Missense_Mutation_p.Q186H|CMPK2_uc010ewv.2_Missense_Mutation_p.Q186H	NM_207315	NP_997198	Q5EBM0	CMPK2_HUMAN	UMP-CMP kinase 2 precursor	186					dTDP biosynthetic process	mitochondrion	ATP binding|cytidylate kinase activity|thymidylate kinase activity|UMP kinase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					CGCAGCCCACCTGCAGCCGCC	0.736													2	1	---	---	---	---	PASS	A	7005270	A	A	7005270	3	1	162	1	0	0	0	0	1	0	0	0	3581	680	24	3	811	3	CMPK2	2	7005270	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08		7005270	236194103	31	57094										
HEATR5B	54497	broad.mit.edu	37	chr2	37241027	37241027	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccagtttttccatggtcgtgGcactctctcggtacagctgg	11	12	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:37241027G>A	uc002rpp.1	-	27	4337	c.4241C>T	c.(4240-4242)GCC>GTC	p.A1414V	HEATR5B_uc010ezy.1_5'UTR|HEATR5B_uc002rpq.3_5'UTR	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1414							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				CATGGTCGTGGCACTCTCTCG	0.443													5	324	---	---	---	---	PASS	A	37241027	A	A	37241027	3	1	162	1	0	0	0	0	1	0	0	0	7032	1203	42	3	2014	3	HEATR5B	2	37241027	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	30235757	37241027	205958346	32	57095										
PLEKHH2	130271	broad.mit.edu	37	chr2	43927291	43927291	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tcccagagactcgattattcAtcttcatcgagtgaagccaa	7	11	3	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:43927291A>T	uc010yny.1	+	8	1277	c.1194A>T	c.(1192-1194)TCA>TCT	p.S398S	PLEKHH2_uc002rte.3_Silent_p.S398S|PLEKHH2_uc002rtf.3_Silent_p.S397S	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	398	Poly-Ser.					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TCGATTATTCATCTTCATCGA	0.403													57	152	---	---	---	---	PASS	T	43927291	T	T	43927291	2	4	162	1	0	0	0	0	0	0	0	1	12077	204	8	5		5	PLEKHH2	2	43927291	Silent	SNP	A	TCGA-66-2783-01A-01D-1267-08	6686264	43927291	199272082	33	57096										
ABCG8	64241	broad.mit.edu	37	chr2	44078792	44078792	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cggcaagatcaagtcaggccAgatctggatcaatgggcagc	13	10	4	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:44078792A>T	uc002rtq.2	+	4	482	c.392A>T	c.(391-393)CAG>CTG	p.Q131L	ABCG8_uc010yoa.1_Missense_Mutation_p.Q131L	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	131	ABC transporter.|Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				AAGTCAGGCCAGATCTGGATC	0.602													19	71	---	---	---	---	PASS	T	44078792	T	T	44078792	3	4	162	1	0	0	0	0	1	0	0	0	72	188	7	5	406	5	ABCG8	2	44078792	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	151501	44078792	199120581	34	57097										
VWA3B	200403	broad.mit.edu	37	chr2	98928346	98928346	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgaaagaagcggacacgcagGattccagagagccaagacga	13	9	0	4			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:98928346G>T	uc002syo.2	+	27	3850	c.3586G>T	c.(3586-3588)GAT>TAT	p.D1196Y	VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.D853Y|VWA3B_uc002syp.1_Missense_Mutation_p.D588Y|VWA3B_uc002syq.1_Missense_Mutation_p.D472Y|VWA3B_uc002syr.1_Missense_Mutation_p.D513Y|VWA3B_uc002sys.2_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	1196										ovary(3)|large_intestine(2)|skin(1)	6						GGACACGCAGGATTCCAGAGA	0.602													3	11	---	---	---	---	PASS	T	98928346	T	T	98928346	3	4	162	1	0	0	0	0	1	0	0	0	17238	1174	41	2	3688	2	VWA3B	2	98928346	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	54849554	98928346	144271027	35	57098										
CNTNAP5	129684	broad.mit.edu	37	chr2	125521710	125521710	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tggcattaaagacttcattcGactcgaaataagctgtaagt	8	7	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:125521710G>C	uc002tno.2	+	16	2880	c.2516G>C	c.(2515-2517)CGA>CCA	p.R839P	CNTNAP5_uc010flu.2_Missense_Mutation_p.R840P	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	839	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GACTTCATTCGACTCGAAATA	0.289													29	118	---	---	---	---	PASS	C	125521710	C	C	125521710	3	2	162	1	0	0	0	0	1	0	0	0	3650	1058	37	2	2578	2	CNTNAP5	2	125521710	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	26593364	125521710	117677663	36	57099										
GPR39	2863	broad.mit.edu	37	chr2	133402883	133402883	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	agcagtttcggcgggtgttcGtgcaggtgctgtgctgccgc	17	10	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:133402883G>A	uc002ttl.2	+	2	1535	c.1066G>A	c.(1066-1068)GTG>ATG	p.V356M	LYPD1_uc002ttm.3_3'UTR|LYPD1_uc002ttn.2_3'UTR|LYPD1_uc002tto.2_3'UTR	NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	356	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						GCGGGTGTTCGTGCAGGTGCT	0.627													17	49	---	---	---	---	PASS	A	133402883	A	A	133402883	3	1	162	1	0	0	0	0	1	0	0	0	6693	1145	40	1	1072	1	GPR39	2	133402883	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	7881173	133402883	109796490	37	57100										
NEB	4703	broad.mit.edu	37	chr2	152382499	152382499	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acatgcttggtcacttccttGacgtgaacagtgtcccgggt	11	11	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:152382499G>C	uc010fnx.2	-	122	17222	c.17031C>G	c.(17029-17031)GTC>GTG	p.V5677V	NEB_uc002txr.2_Silent_p.V2100V|NEB_uc002txt.3_Silent_p.V182V	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	5677	Nebulin 155.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCACTTCCTTGACGTGAACAG	0.483													174	528	---	---	---	---	PASS	C	152382499	C	C	152382499	2	2	162	1	0	0	0	0	0	0	0	1	10302	1277	45	2		2	NEB	2	152382499	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	18979616	152382499	90816874	38	57101										
SCN1A	6323	broad.mit.edu	37	chr2	166895938	166895938	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tttttttttttttaccaatcGaaatgaacggagaacagata	6	5	0	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:166895938G>A	uc010zcz.1	-	14	2569	c.2551C>T	c.(2551-2553)CGA>TGA	p.R851*	SCN1A_uc002udo.3_Nonsense_Mutation_p.R731*|SCN1A_uc010fpk.2_Nonsense_Mutation_p.R703*	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	862	Helical; Voltage-sensor; Name=S4 of repeat II; (By similarity).|II.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TTTACCAATCGAAATGAACGG	0.378													33	71	---	---	---	---	PASS	A	166895938	A	A	166895938	4	1	162	1	0	0	0	0	0	1	0	0	13914	1066	37	2	3497	2	SCN1A	2	166895938	Nonsense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	14513439	166895938	76303435	39	57102										
XIRP2	129446	broad.mit.edu	37	chr2	168107591	168107591	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tcaaattaagatagaaactcGtggtagggactctccaccta	8	9	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:168107591G>C	uc002udx.2	+	8	9707	c.9689G>C	c.(9688-9690)CGT>CCT	p.R3230P	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.R3055P|XIRP2_uc010fpq.2_Missense_Mutation_p.R3008P|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3055					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ATAGAAACTCGTGGTAGGGAC	0.448													56	150	---	---	---	---	PASS	C	168107591	C	C	168107591	3	2	162	1	0	0	0	0	1	0	0	0	17427	1145	40	4	9719	4	XIRP2	2	168107591	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	1211653	168107591	75091782	40	57103										
NFE2L2	4780	broad.mit.edu	37	chr2	178098960	178098960	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttctcgacttactccaagatCtatatcttgcctccaaagta	4	12	3	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:178098960C>T	uc002ulh.3	-	2	640	c.85G>A	c.(85-87)GAT>AAT	p.D29N	NFE2L2_uc002ulg.3_Missense_Mutation_p.D13N|NFE2L2_uc010zfa.1_Missense_Mutation_p.D13N|NFE2L2_uc002uli.3_Missense_Mutation_p.D13N|NFE2L2_uc010fra.2_Missense_Mutation_p.D13N|NFE2L2_uc010frb.2_Missense_Mutation_p.D13N	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	29					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			ACTCCAAGATCTATATCTTGC	0.363			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			18	85	---	---	---	---	PASS	T	178098960	T	T	178098960	3	4	162	1	0	0	0	0	1	0	0	0	10368	913	32	2	1748	2	NFE2L2	2	178098960	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	9991369	178098960	65100413	41	57104										
TTN	7273	broad.mit.edu	37	chr2	179404238	179404238	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttttaccaccagagatgtacCtcggactctggaatcaatgg	9	10	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:179404238C>T	uc010zfg.1	-	301	91074	c.90850G>A	c.(90850-90852)GGT>AGT	p.G30284S	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G23979S|TTN_uc010zfi.1_Missense_Mutation_p.G23912S|TTN_uc010zfj.1_Missense_Mutation_p.G23787S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31211							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)			AGAGATGTACCTCGGACTCTG	0.468													104	315	---	---	---	---	PASS	T	179404238	T	T	179404238	3	4	162	1	0	0	0	0	1	0	0	0	16732	681	24	3	9469	3	TTN	2	179404238	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	1305278	179404238	63795135	42	57105										
TTN	7273	broad.mit.edu	37	chr2	179417151	179417151	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gccaactgatggatggtttgGgttttcccttataaggtaat	11	6	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:179417151G>C	uc010zfg.1	-	284	82996	c.82772C>G	c.(82771-82773)CCC>CGC	p.P27591R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P21286R|TTN_uc010zfi.1_Missense_Mutation_p.P21219R|TTN_uc010zfj.1_Missense_Mutation_p.P21094R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28518							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)			GGATGGTTTGGGTTTTCCCTT	0.398													35	66	---	---	---	---	PASS	C	179417151	C	C	179417151	3	2	162	1	0	0	0	0	1	0	0	0	16732	1232	43	4	17615	4	TTN	2	179417151	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	12913	179417151	63782222	43	57106										
TTN	7273	broad.mit.edu	37	chr2	179593713	179593713	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gtccattatccacacttctgAtttgaagtgtggccacactg	8	11	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:179593713A>C	uc010zfg.1	-	62	15544	c.15320T>G	c.(15319-15321)ATC>AGC	p.I5107S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.I1768S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6034							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)			CACACTTCTGATTTGAAGTGT	0.398													10	29	---	---	---	---	PASS	C	179593713	C	C	179593713	3	2	162	1	0	0	0	0	1	0	0	0	16732	333	12	5	85669	5	TTN	2	179593713	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	176562	179593713	63605660	44	57107										
TTN	7273	broad.mit.edu	37	chr2	179640118	179640118	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atgcgtgactggaggtttctCcagctatgttgatggctttt	12	7	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:179640118C>A	uc010zfg.1	-	28	6697	c.6473G>T	c.(6472-6474)GGA>GTA	p.G2158V	TTN_uc010zfh.1_Missense_Mutation_p.G2112V|TTN_uc010zfi.1_Missense_Mutation_p.G2112V|TTN_uc010zfj.1_Missense_Mutation_p.G2112V|TTN_uc002unb.2_Missense_Mutation_p.G2158V|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2158							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)			GGAGGTTTCTCCAGCTATGTT	0.428													54	131	---	---	---	---	PASS	A	179640118	A	A	179640118	3	1	162	1	0	0	0	0	1	0	0	0	16732	855	30	2	104855	2	TTN	2	179640118	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	46405	179640118	63559255	45	57108										
TTN	7273	broad.mit.edu	37	chr2	179664351	179664351	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggggatcttgactttggcttCggaggaatcctgggaggtgt	17	6	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:179664351C>A	uc002und.2	-	6	1002	c.777G>T	c.(775-777)CCG>CCT	p.P259P	TTN_uc010zfg.1_Silent_p.P259P|TTN_uc010zfh.1_Silent_p.P259P|TTN_uc010zfi.1_Silent_p.P259P|TTN_uc010zfj.1_Silent_p.P259P|TTN_uc002unb.2_Silent_p.P259P			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	259							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.R256_K260>K(1)		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)			ACTTTGGCTTCGGAGGAATCC	0.552													33	102	---	---	---	---	PASS	A	179664351	A	A	179664351	2	1	162	1	0	0	0	0	0	0	0	1	16732	871	31	2		2	TTN	2	179664351	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	24233	179664351	63535022	46	57109										
ERBB4	2066	broad.mit.edu	37	chr2	212812269	212812269	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttttgtcccacgaataatgcGtaaattctccagaggcaggt	9	9	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:212812269G>A	uc002veg.1	-	3	405	c.307C>T	c.(307-309)CGC>TGC	p.R103C	ERBB4_uc002veh.1_Missense_Mutation_p.R103C|ERBB4_uc010zji.1_Missense_Mutation_p.R103C|ERBB4_uc010zjj.1_Missense_Mutation_p.R103C|ERBB4_uc010fut.1_Missense_Mutation_p.R103C	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	103	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CGAATAATGCGTAAATTCTCC	0.398										TSP Lung(8;0.080)			17	70	---	---	---	---	PASS	A	212812269	A	A	212812269	3	1	162	1	0	0	0	0	1	0	0	0	5209	1145	40	1	3723	1	ERBB4	2	212812269	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	33147918	212812269	30387104	47	57110										
IKZF2	22807	broad.mit.edu	37	chr2	213921707	213921707	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gtcagccacctcgctgctctCaattaggggttcttctaggc	10	13	4	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:213921707C>T	uc002vem.2	-	4	425	c.256G>A	c.(256-258)GAG>AAG	p.E86K	IKZF2_uc010fuu.2_Intron|IKZF2_uc002vej.2_Missense_Mutation_p.E33K|IKZF2_uc002vek.2_RNA|IKZF2_uc010fuv.2_Missense_Mutation_p.E86K|IKZF2_uc002vel.2_Missense_Mutation_p.E33K|IKZF2_uc010fuw.2_5'UTR|IKZF2_uc010fux.2_Intron|IKZF2_uc010fuy.2_Missense_Mutation_p.E86K|IKZF2_uc002ven.2_Missense_Mutation_p.E86K	NM_016260	NP_057344	Q9UKS7	IKZF2_HUMAN	helios isoform 1	86					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		TCGCTGCTCTCAATTAGGGGT	0.522													65	193	---	---	---	---	PASS	T	213921707	T	T	213921707	3	4	162	1	0	0	0	0	1	0	0	0	7615	835	29	2	1344	2	IKZF2	2	213921707	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	1109438	213921707	29277666	48	57111										
VWC2L	402117	broad.mit.edu	37	chr2	215301452	215301452	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gtgtcaacccagtctatgaaCcagaacaatgttgtcctgtc	8	11	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:215301452C>G	uc002vet.2	+	3	620	c.490C>G	c.(490-492)CCA>GCA	p.P164A	VWC2L_uc010zjl.1_Intron	NM_001080500	NP_001073969	B2RUY7	VWC2L_HUMAN	von Willebrand factor C domain-containing	164	VWFC 2.					extracellular region					0						AGTCTATGAACCAGAACAATG	0.463													20	110	---	---	---	---	PASS	G	215301452	G	G	215301452	3	3	162	1	0	0	0	0	1	0	0	0	17241	507	18	4	496	4	VWC2L	2	215301452	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	1379745	215301452	27897921	49	57112										
PTPRN	5798	broad.mit.edu	37	chr2	220167082	220167082	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aggtccccgtaggagtggccAgggtggtccccaaatatgcc	14	12	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:220167082A>G	uc002vkz.2	-	6	860	c.771T>C	c.(769-771)CCT>CCC	p.P257P	PTPRN_uc010zlc.1_Silent_p.P167P|PTPRN_uc002vla.2_Silent_p.P257P	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	257	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		AGGAGTGGCCAGGGTGGTCCC	0.637													13	27	---	---	---	---	PASS	G	220167082	G	G	220167082	2	3	162	1	0	0	0	0	0	0	0	1	12807	175	7	5		5	PTPRN	2	220167082	Silent	SNP	A	TCGA-66-2783-01A-01D-1267-08	4865630	220167082	23032291	50	57113										
SPEG	10290	broad.mit.edu	37	chr2	220312995	220312995	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggcgggcaccgcggaatcccGaccccagacgccactgagcg	14	17	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:220312995G>T	uc010fwg.2	+	4	1115	c.1115G>T	c.(1114-1116)CGA>CTA	p.R372L	SPEG_uc002vlm.2_RNA|SPEG_uc010fwh.1_5'UTR|SPEG_uc002vln.1_5'UTR|SPEG_uc002vlp.1_5'Flank	NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	372					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GCGGAATCCCGACCCCAGACG	0.697													13	33	---	---	---	---	PASS	T	220312995	T	T	220312995	3	4	162	1	0	0	0	0	1	0	0	0	15035	1058	37	2	1129	2	SPEG	2	220312995	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	145913	220312995	22886378	51	57114										
GMPPA	29926	broad.mit.edu	37	chr2	220371037	220371037	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	caccgtgggacgctgggcccGcgtggagggtacccccagtg	17	14	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:220371037G>T	uc002vlr.2	+	12	1123	c.1055G>T	c.(1054-1056)CGC>CTC	p.R352L	GMPPA_uc002vls.2_Missense_Mutation_p.R352L|GMPPA_uc002vlt.2_Missense_Mutation_p.R405L|GMPPA_uc002vlu.2_Missense_Mutation_p.R405L|GMPPA_uc002vlv.2_Missense_Mutation_p.R352L|GMPPA_uc002vlw.2_RNA|GMPPA_uc002vlx.2_Missense_Mutation_p.R352L	NM_013335	NP_037467	Q96IJ6	GMPPA_HUMAN	GDP-mannose pyrophosphorylase A	352					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0		Renal(207;0.0183)		Epithelial(149;3.82e-10)|all cancers(144;6.25e-08)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00807)|READ - Rectum adenocarcinoma(5;0.148)		CGCTGGGCCCGCGTGGAGGGT	0.627													49	133	---	---	---	---	PASS	T	220371037	T	T	220371037	3	4	162	1	0	0	0	0	1	0	0	0	6494	1087	38	1	1097	1	GMPPA	2	220371037	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	58042	220371037	22828336	52	57115										
C2orf57	165100	broad.mit.edu	37	chr2	232458559	232458559	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atcctggtgtggtccgagacCaccatgggcatggccatagc	13	12	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr2:232458559C>T	uc002vrz.2	+	1	948	c.897C>T	c.(895-897)ACC>ACT	p.T299T		NM_152614	NP_689827	Q53QW1	CB057_HUMAN	hypothetical protein LOC165100	299										ovary(1)	1		Renal(207;0.025)|all_hematologic(139;0.0735)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;1.33e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)		GGTCCGAGACCACCATGGGCA	0.647													33	154	---	---	---	---	PASS	T	232458559	T	T	232458559	2	4	162	1	0	0	0	0	0	0	0	1	2178	581	21	3		3	C2orf57	2	232458559	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	12087522	232458559	10740814	53	57116										
KLHL18	23276	broad.mit.edu	37	chr3	47378109	47378109	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	catgacaacagcccgcagccGcgttggcgtggctgtggtga	15	12	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:47378109G>C	uc003crd.2	+	7	1109	c.983G>C	c.(982-984)CGC>CCC	p.R328P	KLHL18_uc003crc.2_Missense_Mutation_p.R328P|KLHL18_uc011bav.1_Missense_Mutation_p.R216P|KLHL18_uc010hjq.1_Missense_Mutation_p.R184P	NM_025010	NP_079286	O94889	KLH18_HUMAN	kelch-like 18	328	Kelch 1.										0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)		GCCCGCAGCCGCGTTGGCGTG	0.572													24	42	---	---	---	---	PASS	C	47378109	C	C	47378109	3	2	162	1	0	0	0	0	1	0	0	0	8373	1087	38	4	1009	4	KLHL18	3	47378109	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08		47378109	150644321	54	57117										
COL7A1	1294	broad.mit.edu	37	chr3	48604596	48604596	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gccctggtcacccttggggcCtggctgcccgtcaaagcctc	12	17	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:48604596C>A	uc003ctz.2	-	109	8075	c.8074G>T	c.(8074-8076)GGC>TGC	p.G2692C		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2692	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CCCTTGGGGCCTGGCTGCCCG	0.597													46	110	---	---	---	---	PASS	A	48604596	A	A	48604596	3	1	162	1	0	0	0	0	1	0	0	0	3704	681	24	3	800	3	COL7A1	3	48604596	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	1226487	48604596	149417834	55	57118										
ABI3BP	25890	broad.mit.edu	37	chr3	100645170	100645170	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tatagcttctgtgaatttccCttcagcgggaagagggaagt	12	7	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:100645170C>T	uc003dun.2	-	2	341	c.256G>A	c.(256-258)GGG>AGG	p.G86R	ABI3BP_uc003duo.2_Missense_Mutation_p.G79R|ABI3BP_uc003dup.3_Missense_Mutation_p.G79R	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	86						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						GTGAATTTCCCTTCAGCGGGA	0.478													133	77	---	---	---	---	PASS	T	100645170	T	T	100645170	3	4	162	1	0	0	0	0	1	0	0	0	91	681	24	3	3107	3	ABI3BP	3	100645170	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	52040574	100645170	97377260	56	57119										
BBX	56987	broad.mit.edu	37	chr3	107447803	107447803	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cctcagcttaactttggaatGgctggtgagttgagacacta	11	8	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:107447803G>T	uc010hpr.2	+	6	924	c.597G>T	c.(595-597)ATG>ATT	p.M199I	BBX_uc003dwk.3_Missense_Mutation_p.M199I|BBX_uc003dwl.3_Missense_Mutation_p.M199I|BBX_uc010hps.1_Missense_Mutation_p.M220I|BBX_uc003dwm.3_Missense_Mutation_p.M199I	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	199					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			ACTTTGGAATGGCTGGTGAGT	0.443													120	698	---	---	---	---	PASS	T	107447803	T	T	107447803	3	4	162	1	0	0	0	0	1	0	0	0	1343	1348	47	3	607	3	BBX	3	107447803	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	6802633	107447803	90574627	57	57120										
SEMA5B	54437	broad.mit.edu	37	chr3	122634307	122634307	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctggagcagttggcgatgtgGatggctggccccaggcagtc	17	10	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:122634307G>A	uc003efz.1	-	14	2272	c.1968C>T	c.(1966-1968)ATC>ATT	p.I656I	SEMA5B_uc011bju.1_Silent_p.I598I|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Silent_p.I656I|SEMA5B_uc010hro.1_Silent_p.I598I	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	656	Extracellular (Potential).				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		TGGCGATGTGGATGGCTGGCC	0.607													54	191	---	---	---	---	PASS	A	122634307	A	A	122634307	2	1	162	1	0	0	0	0	0	0	0	1	14038	1164	41	2		2	SEMA5B	3	122634307	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	15186504	122634307	75388123	58	57121										
MYLK	4638	broad.mit.edu	37	chr3	123471267	123471267	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccctgtcctcctcatggacaGcatgaatcacaaggctgaaa	8	13	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:123471267G>T	uc003ego.2	-	5	566	c.284C>A	c.(283-285)GCT>GAT	p.A95D	MYLK_uc011bjw.1_Missense_Mutation_p.A95D|MYLK_uc003egp.2_Missense_Mutation_p.A95D|MYLK_uc003egq.2_Missense_Mutation_p.A95D|MYLK_uc003egr.2_Missense_Mutation_p.A95D|MYLK_uc003egs.2_Intron|MYLK_uc010hrs.1_Missense_Mutation_p.A95D|MYLK_uc003egu.1_Missense_Mutation_p.A105D	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	95	Ig-like C2-type 1.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CTCATGGACAGCATGAATCAC	0.587													5	312	---	---	---	---	PASS	T	123471267	T	T	123471267	3	4	162	1	0	0	0	0	1	0	0	0	10056	971	34	3	5580	3	MYLK	3	123471267	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	836960	123471267	74551163	59	57122										
KALRN	8997	broad.mit.edu	37	chr3	124153219	124153219	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctgcaggtacagcagaaagcCgaggtgctgctccaggccgg	15	12	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:124153219C>T	uc003ehg.2	+	17	3016	c.2889C>T	c.(2887-2889)GCC>GCT	p.A963A	KALRN_uc010hrv.1_Silent_p.A954A|KALRN_uc003ehf.1_Silent_p.A963A|KALRN_uc011bjy.1_Silent_p.A954A|KALRN_uc003ehh.1_Silent_p.A309A	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	963	Spectrin 4.				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						AGCAGAAAGCCGAGGTGCTGC	0.597													35	87	---	---	---	---	PASS	T	124153219	T	T	124153219	2	4	162	1	0	0	0	0	0	0	0	1	7975	639	23	1		1	KALRN	3	124153219	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	681952	124153219	73869211	60	57123										
PLXND1	23129	broad.mit.edu	37	chr3	129290099	129290099	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gctgatgcgttgctcagggcCccgggggacgggcaggtgat	19	10	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:129290099C>T	uc003emx.2	-	18	3484	c.3384G>A	c.(3382-3384)GGG>GGA	p.G1128G		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1128	Extracellular (Potential).|IPT/TIG 3.				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						TGCTCAGGGCCCCGGGGGACG	0.657													149	80	---	---	---	---	PASS	T	129290099	T	T	129290099	2	4	162	1	0	0	0	0	0	0	0	1	12127	610	22	3		3	PLXND1	3	129290099	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	5136880	129290099	68732331	61	57124										
NCK1	4690	broad.mit.edu	37	chr3	136646961	136646961	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atgattctaagtcctggtggCgagttcgaaattccatgaat	10	7	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:136646961C>T	uc003erh.2	+	2	225	c.118C>T	c.(118-120)CGA>TGA	p.R40*	NCK1_uc011bme.1_5'Flank	NM_006153	NP_006144	P16333	NCK1_HUMAN	NCK adaptor protein 1	40	SH3 1.				axon guidance|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of translation|signal complex assembly|T cell activation|T cell receptor signaling pathway	cytosol|endoplasmic reticulum|nucleus	cytoskeletal adaptor activity|receptor binding|receptor signaling complex scaffold activity			pancreas(1)	1						GTCCTGGTGGCGAGTTCGAAA	0.398													148	421	---	---	---	---	PASS	T	136646961	T	T	136646961	4	4	162	1	0	0	0	0	0	1	0	0	10219	760	27	1	120	1	NCK1	3	136646961	Nonsense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	7356862	136646961	61375469	62	57125										
CHST2	9435	broad.mit.edu	37	chr3	142840260	142840260	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cgagccagtgtggcatgtatGgcaaaaactgtatccggggg	15	8	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:142840260G>T	uc003evm.2	+	2	1491	c.602G>T	c.(601-603)TGG>TTG	p.W201L		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	201	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						TGGCATGTATGGCAAAAACTG	0.572													117	428	---	---	---	---	PASS	T	142840260	T	T	142840260	3	4	162	1	0	0	0	0	1	0	0	0	3404	1357	47	3	604	3	CHST2	3	142840260	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	6193299	142840260	55182170	63	57126										
ZIC1	7545	broad.mit.edu	37	chr3	147130463	147130463	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccagttcgctgcgcaaacacAtgaaggtaatcgccgcactc	9	14	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:147130463A>G	uc003ewe.2	+	2	1860	c.1141A>G	c.(1141-1143)ATG>GTG	p.M381V		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	381	C2H2-type 5.				behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GCGCAAACACATGAAGGTAAT	0.617													41	343	---	---	---	---	PASS	G	147130463	G	G	147130463	3	3	162	1	0	0	0	0	1	0	0	0	17675	217	8	5	1147	5	ZIC1	3	147130463	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	4290203	147130463	50891967	64	57127										
ZIC1	7545	broad.mit.edu	37	chr3	147131289	147131289	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctcctccgcagtccaccacaCagccggccacagtgcgctct	8	20	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:147131289C>G	uc003ewe.2	+	3	2014	c.1295C>G	c.(1294-1296)ACA>AGA	p.T432R		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	432	Ser-rich.				behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GTCCACCACACAGCCGGCCAC	0.507													7	428	---	---	---	---	PASS	G	147131289	G	G	147131289	3	3	162	1	0	0	0	0	1	0	0	0	17675	478	17	4	1305	4	ZIC1	3	147131289	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	826	147131289	50891141	65	57128										
OTOL1	131149	broad.mit.edu	37	chr3	161221516	161221516	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgctcgaatcagtctggtggCccagaataagaagcagttca	11	9	3	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:161221516C>T	uc011bpb.1	+	4	1220	c.1220C>T	c.(1219-1221)GCC>GTC	p.A407V		NM_001080440	NP_001073909	A6NHN0	OTOL1_HUMAN	otolin-1 precursor	407	C1q.					collagen					0						AGTCTGGTGGCCCAGAATAAG	0.473													28	149	---	---	---	---	PASS	T	161221516	T	T	161221516	3	4	162	1	0	0	0	0	1	0	0	0	11304	739	26	3	1234	3	OTOL1	3	161221516	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	14090227	161221516	36800914	66	57129										
CCDC39	339829	broad.mit.edu	37	chr3	180377270	180377270	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttatctatgtctccatccctCttctgcatctgttctattgt	4	12	6	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:180377270C>T	uc010hxe.2	-	6	823	c.708G>A	c.(706-708)AAG>AAA	p.K236K	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	236	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			CTCCATCCCTCTTCTGCATCT	0.348													168	121	---	---	---	---	PASS	T	180377270	T	T	180377270	2	4	162	1	0	0	0	0	0	0	0	1	2811	912	32	2		2	CCDC39	3	180377270	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	19155754	180377270	17645160	67	57130										
FXR1	8087	broad.mit.edu	37	chr3	180667070	180667070	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cttaagtgacatgcatttgcGaagtattcgtacgaagttga	10	6	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:180667070G>T	uc003fkq.2	+	7	591	c.569G>T	c.(568-570)CGA>CTA	p.R190L	FXR1_uc003fkp.2_Missense_Mutation_p.R105L|FXR1_uc003fkr.2_Missense_Mutation_p.R190L|FXR1_uc011bqj.1_Missense_Mutation_p.R104L|FXR1_uc003fks.2_Missense_Mutation_p.R104L|FXR1_uc011bqk.1_Missense_Mutation_p.R141L|FXR1_uc011bql.1_Missense_Mutation_p.R177L	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	190					apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			ATGCATTTGCGAAGTATTCGT	0.368													204	552	---	---	---	---	PASS	T	180667070	T	T	180667070	3	4	162	1	0	0	0	0	1	0	0	0	6115	1058	37	2	595	2	FXR1	3	180667070	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	289800	180667070	17355360	68	57131										
MASP1	5648	broad.mit.edu	37	chr3	186980499	186980499	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggttgccagcacctggtcctCagtttctacctttgaggtca	10	12	3	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr3:186980499C>G	uc003frh.1	-	3	579	c.247G>C	c.(247-249)GAG>CAG	p.E83Q	MASP1_uc003fri.2_Missense_Mutation_p.E83Q|MASP1_uc003frj.2_Missense_Mutation_p.E52Q|MASP1_uc003frk.1_Missense_Mutation_p.E83Q|MASP1_uc011bse.1_Missense_Mutation_p.E57Q	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	83	Interaction with FCN2.|Interaction with MBL2.|Homodimerization (By similarity).|CUB 1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		ACCTGGTCCTCAGTTTCTACC	0.532													54	193	---	---	---	---	PASS	G	186980499	G	G	186980499	3	3	162	1	0	0	0	0	1	0	0	0	9322	835	29	2	2853	2	MASP1	3	186980499	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	6313429	186980499	11041931	69	57132										
FGFRL1	53834	broad.mit.edu	37	chr4	1018453	1018453	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cttcctcaccgtgctgccagGtgcgcggctgccacgccacg	12	18	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:1018453G>A	uc003gce.2	+	6	1233	c.1072_splice	c.e6+1	p.D358_splice	FGFRL1_uc003gcf.2_Splice_Site_p.D358_splice|FGFRL1_uc003gcg.2_Splice_Site_p.D358_splice|FGFRL1_uc010ibo.2_Splice_Site_p.D358_splice	NM_021923	NP_068742	Q8N441	FGRL1_HUMAN	fibroblast growth factor receptor-like 1						regulation of cell growth	integral to membrane|plasma membrane	fibroblast growth factor receptor activity|heparin binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GTGCTGCCAGGTGCGCGGCTG	0.726													5	3	---	---	---	---	PASS	A	1018453	A	A	1018453	5	1	162	1	0	0	0	0	0	0	1	0	5869	1275	44	3	1091	3	FGFRL1	4	1018453	Splice_Site	SNP	G	TCGA-66-2783-01A-01D-1267-08		1018453	190135823	70	57133										
QDPR	5860	broad.mit.edu	37	chr4	17513587	17513587	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cattacccagttgcgggcccGaaaagcctgcacgcatcgag	11	14	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:17513587G>T	uc003gpd.2	-	1	271	c.91C>A	c.(91-93)CGG>AGG	p.R31R	QDPR_uc003gpe.2_Silent_p.R31R|QDPR_uc003gpf.2_RNA	NM_000320	NP_000311	P09417	DHPR_HUMAN	quinoid dihydropteridine reductase	31	NADP.				dihydrobiopterin metabolic process|L-phenylalanine catabolic process|tetrahydrobiopterin biosynthetic process	cytosol	6,7-dihydropteridine reductase activity|binding|electron carrier activity			ovary(1)	1					NADH(DB00157)	TTGCGGGCCCGAAAAGCCTGC	0.731													4	10	---	---	---	---	PASS	T	17513587	T	T	17513587	2	4	162	1	0	0	0	0	0	0	0	1	12872	1057	37	2		2	QDPR	4	17513587	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	16495134	17513587	173640689	71	57134										
GABRA2	2555	broad.mit.edu	37	chr4	46264131	46264131	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gcttagagttgtcattgttaGgacagttgttactcctgcaa	10	7	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:46264131G>C	uc003gxc.3	-	8	1544	c.871C>G	c.(871-873)CTA>GTA	p.L291V	GABRA2_uc010igc.2_Missense_Mutation_p.L291V|GABRA2_uc011bzc.1_Missense_Mutation_p.L236V|GABRA2_uc003gxe.2_Missense_Mutation_p.L291V	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	291	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GTCATTGTTAGGACAGTTGTT	0.433													8	144	---	---	---	---	PASS	C	46264131	C	C	46264131	3	2	162	1	0	0	0	0	1	0	0	0	6161	991	35	4	492	4	GABRA2	4	46264131	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	28750544	46264131	144890145	72	57135										
TEC	7006	broad.mit.edu	37	chr4	48172291	48172291	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	caaaaagattgtatttttcaCatccgggtgctaatttttca	6	7	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:48172291C>A	uc003gxz.2	-	5	519	c.428G>T	c.(427-429)TGT>TTT	p.C143F		NM_003215	NP_003206	P42680	TEC_HUMAN	tec protein tyrosine kinase	143	Btk-type.	Zinc (By similarity).			intracellular protein kinase cascade	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)	9						GTATTTTTCACATCCGGGTGC	0.289													30	63	---	---	---	---	PASS	A	48172291	A	A	48172291	3	1	162	1	0	0	0	0	1	0	0	0	15739	478	17	3	1523	3	TEC	4	48172291	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	1908160	48172291	142981985	73	57136										
LRRC66	339977	broad.mit.edu	37	chr4	52861814	52861814	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gggtgtggctgtgtcacccaGaaaggggtctggttctcgta	16	8	3	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:52861814G>C	uc003gzi.2	-	4	1387	c.1374C>G	c.(1372-1374)TTC>TTG	p.F458L		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	458						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						GTGTCACCCAGAAAGGGGTCT	0.562													55	148	---	---	---	---	PASS	C	52861814	C	C	52861814	3	2	162	1	0	0	0	0	1	0	0	0	9018	933	33	2	1272	2	LRRC66	4	52861814	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	4689523	52861814	138292462	74	57137										
SPATA18	132671	broad.mit.edu	37	chr4	52936033	52936033	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aagaaagcaagaacagatcgGccatatcccttttggctgca	9	10	0	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:52936033G>A	uc003gzl.2	+	5	747	c.469G>A	c.(469-471)GCC>ACC	p.A157T	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Intron|SPATA18_uc003gzk.1_Missense_Mutation_p.A157T	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	157	Potential.				mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			GAACAGATCGGCCATATCCCT	0.294													11	24	---	---	---	---	PASS	A	52936033	A	A	52936033	3	1	162	1	0	0	0	0	1	0	0	0	15002	1203	42	3	487	3	SPATA18	4	52936033	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	74219	52936033	138218243	75	57138										
SPATA18	132671	broad.mit.edu	37	chr4	52944901	52944901	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgctgcatttttatgtgcagGaggcattccatgtagcaaaa	10	7	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:52944901G>A	uc003gzl.2	+	8	1299	c.1021G>A	c.(1021-1023)GAG>AAG	p.E341K	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.E309K|SPATA18_uc003gzk.1_Missense_Mutation_p.E341K	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	341					mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			TTATGTGCAGGAGGCATTCCA	0.393													66	184	---	---	---	---	PASS	A	52944901	A	A	52944901	3	1	162	1	0	0	0	0	1	0	0	0	15002	1188	41	2	1051	2	SPATA18	4	52944901	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	8868	52944901	138209375	76	57139										
SULT1B1	27284	broad.mit.edu	37	chr4	70596284	70596284	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gtagatgtgtataatttaccAaaggattgtccttcatcact	7	7	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:70596284A>G	uc003hen.2	-	7	1011	c.713T>C	c.(712-714)TTG>TCG	p.L238S		NM_014465	NP_055280	O43704	ST1B1_HUMAN	sulfotransferase family, cytosolic, 1B, member	238					3'-phosphoadenosine 5'-phosphosulfate metabolic process|cellular biogenic amine metabolic process|flavonoid metabolic process|steroid metabolic process|sulfation|thyroid hormone metabolic process|xenobiotic metabolic process	cytosol					0						ATAATTTACCAAAGGATTGTC	0.363													41	119	---	---	---	---	PASS	G	70596284	G	G	70596284	3	3	162	1	0	0	0	0	1	0	0	0	15373	131	5	5	185	5	SULT1B1	4	70596284	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	17651383	70596284	120557992	77	57140										
HTN1	3346	broad.mit.edu	37	chr4	70921229	70921229	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atgcaggaaaagcatcattcAcatcgagaatttccatttta	6	8	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:70921229A>T	uc003hex.2	+	5	184	c.117A>T	c.(115-117)TCA>TCT	p.S39S		NM_002159	NP_002150	P15515	HIS1_HUMAN	histatin 1 precursor	39					biomineral tissue development|defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular region	protein binding			skin(1)	1						AGCATCATTCACATCGAGAAT	0.348													17	87	---	---	---	---	PASS	T	70921229	T	T	70921229	2	4	162	1	0	0	0	0	0	0	0	1	7434	146	6	5		5	HTN1	4	70921229	Silent	SNP	A	TCGA-66-2783-01A-01D-1267-08	324945	70921229	120233047	78	57141										
GC	2638	broad.mit.edu	37	chr4	72635072	72635072	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atgtgaagtcctcctttcccAgatgggagaattccttgcag	10	10	0	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:72635072A>T	uc003hge.2	-	2	257	c.104T>A	c.(103-105)CTG>CAG	p.L35Q	GC_uc003hgd.2_5'UTR|GC_uc010iie.2_Missense_Mutation_p.L35Q|GC_uc010iif.2_Missense_Mutation_p.L54Q	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	35	Albumin 1.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	CTCCTTTCCCAGATGGGAGAA	0.408													11	56	---	---	---	---	PASS	T	72635072	T	T	72635072	3	4	162	1	0	0	0	0	1	0	0	0	6282	188	7	5	1364	5	GC	4	72635072	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	1713843	72635072	118519204	79	57142										
MEPE	56955	broad.mit.edu	37	chr4	88766940	88766940	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gccaggttataatgagatccCagagagagaagaaaatggtg	13	5	0	4			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:88766940C>A	uc003hqy.2	+	4	959	c.920C>A	c.(919-921)CCA>CAA	p.P307Q	MEPE_uc010ikn.2_Missense_Mutation_p.P194Q	NM_020203	NP_064588	Q9NQ76	MEPE_HUMAN	matrix, extracellular phosphoglycoprotein with	307					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			ovary(1)|lung(1)|skin(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000432)		AATGAGATCCCAGAGAGAGAA	0.453													45	135	---	---	---	---	PASS	A	88766940	A	A	88766940	3	1	162	1	0	0	0	0	1	0	0	0	9478	594	21	3	930	3	MEPE	4	88766940	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	16131868	88766940	102387336	80	57143										
TET2	54790	broad.mit.edu	37	chr4	106155322	106155322	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gaagccagaatagtcgtgtgAgtcctgactttacacaagaa	10	8	0	4			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:106155322A>T	uc003hxk.2	+	3	609	c.223A>T	c.(223-225)AGT>TGT	p.S75C	TET2_uc011cez.1_Missense_Mutation_p.S96C|TET2_uc003hxj.2_RNA|TET2_uc010ilp.1_Missense_Mutation_p.S75C|TET2_uc003hxi.1_Missense_Mutation_p.S75C	NM_001127208	NP_001120680	Q6N021	TET2_HUMAN	tet oncogene family member 2 isoform a	75					cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		TAGTCGTGTGAGTCCTGACTT	0.428			Mis N|F		MDS								66	211	---	---	---	---	PASS	T	106155322	T	T	106155322	3	4	162	1	0	0	0	0	1	0	0	0	15767	304	11	5	225	5	TET2	4	106155322	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	17388382	106155322	84998954	81	57144										
ANK2	287	broad.mit.edu	37	chr4	114251538	114251538	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gccgactggtcaagcgccacAgactggcaacaatgcctcca	10	15	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:114251538A>T	uc003ibe.3	+	27	3137	c.3037A>T	c.(3037-3039)AGA>TGA	p.R1013*	ANK2_uc003ibd.3_Nonsense_Mutation_p.R1004*|ANK2_uc003ibf.3_Nonsense_Mutation_p.R1013*|ANK2_uc011cgc.1_Nonsense_Mutation_p.R222*|ANK2_uc003ibg.3_Nonsense_Mutation_p.R41*|ANK2_uc003ibc.2_Nonsense_Mutation_p.R989*|ANK2_uc011cgb.1_Nonsense_Mutation_p.R1028*	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1013	ZU5.|Interaction with SPTBN1.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CAAGCGCCACAGACTGGCAAC	0.547													23	89	---	---	---	---	PASS	T	114251538	T	T	114251538	4	4	162	1	0	0	0	0	0	1	0	0	621	180	7	5	3208	5	ANK2	4	114251538	Nonsense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	8096216	114251538	76902738	82	57145										
ZNF330	27309	broad.mit.edu	37	chr4	142155097	142155097	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tactaatttgaatttaggaaGgacctatgctagtggctatg	10	5	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:142155097G>T	uc003iiq.3	+	10	1137	c.917G>T	c.(916-918)AGG>ATG	p.R306M	ZNF330_uc011chl.1_Missense_Mutation_p.R246M	NM_014487	NP_055302	Q9Y3S2	ZN330_HUMAN	zinc finger protein 330	306						chromosome, centromeric region|midbody|nucleolus	protein binding|zinc ion binding				0	all_hematologic(180;0.162)					AATTTAGGAAGGACCTATGCT	0.363													60	207	---	---	---	---	PASS	T	142155097	T	T	142155097	3	4	162	1	0	0	0	0	1	0	0	0	17845	1000	35	3	951	3	ZNF330	4	142155097	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	27903559	142155097	48999179	83	57146										
DCHS2	54798	broad.mit.edu	37	chr4	155156611	155156611	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccattccggagtggcatccaCagggaccacctcgttactgc	10	15	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:155156611C>T	uc003inw.2	-	25	7828	c.7828G>A	c.(7828-7830)GTG>ATG	p.V2610M		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2610					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GTGGCATCCACAGGGACCACC	0.483													71	226	---	---	---	---	PASS	T	155156611	T	T	155156611	3	4	162	1	0	0	0	0	1	0	0	0	4288	478	17	3	926	3	DCHS2	4	155156611	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	13001514	155156611	35997665	84	57147										
DCHS2	54798	broad.mit.edu	37	chr4	155253955	155253955	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atccagcccgtgtaagggcgGattccaaacatagcagagtc	11	11	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:155253955G>A	uc003inw.2	-	9	1908	c.1908C>T	c.(1906-1908)ATC>ATT	p.I636I	DCHS2_uc003inx.2_Silent_p.I1135I	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	636	Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TGTAAGGGCGGATTCCAAACA	0.522													34	85	---	---	---	---	PASS	A	155253955	A	A	155253955	2	1	162	1	0	0	0	0	0	0	0	1	4288	1164	41	2		2	DCHS2	4	155253955	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	97344	155253955	35900321	85	57148										
NAF1	92345	broad.mit.edu	37	chr4	164054361	164054361	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccttgaatctgagattttttCctctgtttggcttccttctc	6	11	3	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:164054361C>T	uc003iqj.2	-	7	1172	c.978G>A	c.(976-978)AGG>AGA	p.R326R	NAF1_uc010iqw.1_Silent_p.R326R	NM_138386	NP_612395	Q96HR8	NAF1_HUMAN	nuclear assembly factor 1 homolog isoform a	326					rRNA processing|snRNA pseudouridine synthesis	cytoplasm|nucleus|small nucleolar ribonucleoprotein complex	protein binding|snoRNA binding			ovary(2)	2	all_hematologic(180;0.166)	Prostate(90;0.109)				GAGATTTTTTCCTCTGTTTGG	0.323													35	102	---	---	---	---	PASS	T	164054361	T	T	164054361	2	4	162	1	0	0	0	0	0	0	0	1	10140	854	30	2		2	NAF1	4	164054361	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	8800406	164054361	27099915	86	57149										
CLDN22	53842	broad.mit.edu	37	chr4	184241242	184241242	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gagtcccatggtccagttttCcatttcatttaagtccaggt	8	10	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:184241242C>A	uc010isa.1	-	1	686	c.130G>T	c.(130-132)GAA>TAA	p.E44*	WWC2_uc010irx.2_3'UTR|WWC2_uc003ivk.3_3'UTR|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_3'UTR|WWC2_uc003ivn.3_3'UTR|WWC2_uc010irz.2_3'UTR|WWC2_uc003ivo.3_3'UTR	NM_001111319	NP_001104789	Q8N7P3	CLD22_HUMAN	claudin 22	44	Extracellular (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0		all_lung(41;6.9e-12)|Lung NSC(41;1.28e-11)|Colorectal(36;0.0172)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|Esophageal squamous(56;0.176)		all cancers(43;4.1e-26)|Epithelial(43;6.45e-22)|OV - Ovarian serous cystadenocarcinoma(60;7.64e-10)|Colorectal(24;5.87e-06)|GBM - Glioblastoma multiforme(59;6.5e-06)|STAD - Stomach adenocarcinoma(60;2.09e-05)|COAD - Colon adenocarcinoma(29;5.15e-05)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		GTCCAGTTTTCCATTTCATTT	0.468													95	259	---	---	---	---	PASS	A	184241242	A	A	184241242	4	1	162	1	0	0	0	0	0	1	0	0	3483	864	30	2	536	2	CLDN22	4	184241242	Nonsense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	20186881	184241242	6913034	87	57150										
SLC25A4	291	broad.mit.edu	37	chr4	186066998	186066998	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gcagtcgcagggctggtgtcCtacccctttgacactgttcg	12	13	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr4:186066998C>A	uc003ixd.2	+	3	813	c.684C>A	c.(682-684)TCC>TCA	p.S228S	SLC25A4_uc003ixe.2_RNA	NM_001151	NP_001142	P12235	ADT1_HUMAN	adenine nucleotide translocator 1	228	Helical; Name=5; (By similarity).|Solcar 3.				energy reserve metabolic process|interspecies interaction between organisms|mitochondrial genome maintenance|negative regulation of necrotic cell death|regulation of insulin secretion|viral reproduction	integral to plasma membrane|mitochondrial inner membrane	adenine transmembrane transporter activity|protein binding			ovary(1)	1		all_lung(41;1.19e-13)|Lung NSC(41;3.16e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00872)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;4.48e-44)|Epithelial(43;2.1e-41)|all cancers(43;1.37e-36)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)	Adenosine triphosphate(DB00171)|Clodronate(DB00720)	GGCTGGTGTCCTACCCCTTTG	0.542													4	96	---	---	---	---	PASS	A	186066998	A	A	186066998	2	1	162	1	0	0	0	0	0	0	0	1	14504	668	24	3		3	SLC25A4	4	186066998	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	1825756	186066998	5087278	88	57151										
LPCAT1	79888	broad.mit.edu	37	chr5	1489888	1489888	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cactttccgttggactgcgcCcgtctcttgatttcttctac	7	14	3	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:1489888C>A	uc003jcm.2	-	4	696	c.579G>T	c.(577-579)CGG>CGT	p.R193R		NM_024830	NP_079106	Q8NF37	PCAT1_HUMAN	lysophosphatidylcholine acyltransferase 1	193	Lumenal (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(19;0.0274)|all cancers(22;0.0534)	GBM - Glioblastoma multiforme(108;0.156)		TGGACTGCGCCCGTCTCTTGA	0.512													115	261	---	---	---	---	PASS	A	1489888	A	A	1489888	2	1	162	1	0	0	0	0	0	0	0	1	8910	610	22	3		3	LPCAT1	5	1489888	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08		1489888	179425372	89	57152										
FYB	2533	broad.mit.edu	37	chr5	39135117	39135117	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acttgaatagggcctgttagCtgcaaagagaaaaaaatagt	10	5	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:39135117C>T	uc003jls.2	-	7	1583	c.1516_splice	c.e7-1	p.L506_splice	FYB_uc003jlt.2_Splice_Site_p.L506_splice|FYB_uc003jlu.2_Splice_Site_p.L506_splice|FYB_uc011cpl.1_Splice_Site_p.L516_splice	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2						cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			GGCCTGTTAGCTGCAAAGAGA	0.338													43	146	---	---	---	---	PASS	T	39135117	T	T	39135117	5	4	162	1	0	0	0	0	0	0	1	0	6124	811	28	3	1022	3	FYB	5	39135117	Splice_Site	SNP	C	TCGA-66-2783-01A-01D-1267-08	37645229	39135117	141780143	90	57153										
HEATR7B2	133558	broad.mit.edu	37	chr5	41000798	41000798	+	Frame_Shift_Del	DEL	G	-	-													0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acaactccaatcttggggttGggatcccaaaggtgcagaag							TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:41000798delG	uc003jmj.3	-	38	4822	c.4332delC	c.(4330-4332)CCCfs	p.P1444fs	HEATR7B2_uc003jmi.3_Frame_Shift_Del_p.P999fs	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1444							binding			ovary(6)|central_nervous_system(2)	8						TCTTGGGGTTGGGATCCCAAA	0.488													47	23	---	---	---	---		-	41000798	-	-	41000798	7	5	162	1	0	1	0	1	0	0	0	0	7035	1335	47	0	445	0	HEATR7B2	5	41000798	Frame_Shift_Del	DEL	G	TCGA-66-2783-01A-01D-1267-08	1865681	41000798	139914462	91	57154										
PAIP1	10605	broad.mit.edu	37	chr5	43547830	43547830	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	catgctataagccaacatacCtgttgatagatgagttccac	7	10	0	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:43547830C>A	uc003job.2	-	3	868	c.621G>T	c.(619-621)CAG>CAT	p.Q207H	PAIP1_uc003joa.2_Missense_Mutation_p.Q128H|PAIP1_uc010ivp.2_Missense_Mutation_p.Q128H|PAIP1_uc010ivo.2_RNA|PAIP1_uc003joc.2_Missense_Mutation_p.Q95H	NM_006451	NP_006442	Q9H074	PAIP1_HUMAN	poly(A) binding protein interacting protein 1	207	MIF4G.				mRNA stabilization|nuclear-transcribed mRNA poly(A) tail shortening|translational initiation	cytosol	protein binding|RNA binding|translation activator activity			ovary(1)	1	Lung NSC(6;2.07e-05)					GCCAACATACCTGTTGATAGA	0.443													54	122	---	---	---	---	PASS	A	43547830	A	A	43547830	3	1	162	1	0	0	0	0	1	0	0	0	11396	695	24	3	854	3	PAIP1	5	43547830	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	2547032	43547830	137367430	92	57155										
CDK7	1022	broad.mit.edu	37	chr5	68568823	68568823	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gacttactagatctcatacaAggcttattcttatttaatcc	4	9	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:68568823A>C	uc003jvs.3	+	10	1000	c.819A>C	c.(817-819)CAA>CAC	p.Q273H	CDK7_uc003jvt.3_Missense_Mutation_p.Q232H|CDK7_uc003jvu.3_Missense_Mutation_p.Q180H	NM_001799	NP_001790	P50613	CDK7_HUMAN	cyclin-dependent kinase 7	273	Protein kinase.				androgen receptor signaling pathway|cell division|cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex|mitochondrion	androgen receptor binding|ATP binding|cyclin-dependent protein kinase activity|DNA-dependent ATPase activity|protein C-terminus binding|RNA polymerase II carboxy-terminal domain kinase activity|transcription coactivator activity			lung(1)	1		Lung NSC(167;7.26e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.98e-56)|Epithelial(20;3.54e-52)|all cancers(19;9.11e-48)|Lung(70;0.0185)		ATCTCATACAAGGCTTATTCT	0.358								NER					49	118	---	---	---	---	PASS	C	68568823	C	C	68568823	3	2	162	1	0	0	0	0	1	0	0	0	3149	69	3	5	857	5	CDK7	5	68568823	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	25020993	68568823	112346437	93	57156										
COL4A3BP	10087	broad.mit.edu	37	chr5	74676909	74676909	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atacataccattagctacatAtgtaatcttgcatagaatgt	5	7	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:74676909A>T	uc011csu.1	-	16	2157	c.1735T>A	c.(1735-1737)TAT>AAT	p.Y579N	COL4A3BP_uc003kds.2_Missense_Mutation_p.Y553N|COL4A3BP_uc003kdt.2_Missense_Mutation_p.Y707N|COL4A3BP_uc003kdu.2_Missense_Mutation_p.Y579N	NM_005713	NP_005704	Q9Y5P4	C43BP_HUMAN	alpha 3 type IV collagen binding protein isoform	579	START.				ER to Golgi ceramide transport|immune response	cytosol|endoplasmic reticulum membrane|Golgi apparatus	ceramide binding|phosphatidylinositol-4-phosphate binding|protein binding|protein kinase activity			skin(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;1e-53)		TTAGCTACATATGTAATCTTG	0.363													104	271	---	---	---	---	PASS	T	74676909	T	T	74676909	3	4	162	1	0	0	0	0	1	0	0	0	3692	449	16	5	147	5	COL4A3BP	5	74676909	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	6108086	74676909	106238351	94	57157										
DMGDH	29958	broad.mit.edu	37	chr5	78322340	78322340	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccctcctcctggcctgcattCatgatagcgtcatacagcgc	8	16	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:78322340C>T	uc003kfs.2	-	13	2103	c.2097G>A	c.(2095-2097)ATG>ATA	p.M699I	DMGDH_uc011cte.1_Missense_Mutation_p.M549I|DMGDH_uc011ctf.1_Missense_Mutation_p.M498I|DMGDH_uc011ctg.1_Missense_Mutation_p.M319I	NM_013391	NP_037523	Q9UI17	M2GD_HUMAN	dimethylglycine dehydrogenase precursor	699					choline metabolic process|glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|dimethylglycine dehydrogenase activity|electron carrier activity			ovary(2)|liver(1)|skin(1)	4		all_lung(232;0.000638)|Lung NSC(167;0.00173)|Ovarian(174;0.0262)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;6.52e-45)|Epithelial(54;5.96e-40)|all cancers(79;3.56e-35)		GGCCTGCATTCATGATAGCGT	0.512													66	166	---	---	---	---	PASS	T	78322340	T	T	78322340	3	4	162	1	0	0	0	0	1	0	0	0	4581	826	29	2	519	2	DMGDH	5	78322340	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	3645431	78322340	102592920	95	57158										
AFF4	27125	broad.mit.edu	37	chr5	132233979	132233979	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctgtcactggaactactttcActctctgagtcagatccaga	7	12	4	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:132233979A>C	uc003kyd.2	-	10	1740	c.1332T>G	c.(1330-1332)AGT>AGG	p.S444R	AFF4_uc011cxk.1_Missense_Mutation_p.S122R|AFF4_uc003kye.1_Missense_Mutation_p.S444R	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	444	Ser-rich.				transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AACTACTTTCACTCTCTGAGT	0.522													57	205	---	---	---	---	PASS	C	132233979	C	C	132233979	3	2	162	1	0	0	0	0	1	0	0	0	359	156	6	5	2207	5	AFF4	5	132233979	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	53911639	132233979	48681281	96	57159										
PCDHGA11	56105	broad.mit.edu	37	chr5	140801374	140801374	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cggatggggccaagaatccaGagctagtactggagggaagc	16	8	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:140801374G>T	uc003lkq.1	+	1	838	c.580G>T	c.(580-582)GAG>TAG	p.E194*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Nonsense_Mutation_p.E194*|PCDHGA11_uc003lkp.1_Nonsense_Mutation_p.E194*	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	194	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAAGAATCCAGAGCTAGTACT	0.562													18	72	---	---	---	---	PASS	T	140801374	T	T	140801374	4	4	162	1	0	0	0	0	0	1	0	0	11552	943	33	2	582	2	PCDHGA11	5	140801374	Nonsense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	8567395	140801374	40113886	97	57160										
RELL2	285613	broad.mit.edu	37	chr5	141019704	141019704	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gccccccagtacagaatggaGgactcagggacagcagccta	12	13	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:141019704G>T	uc003lli.2	+	6	1569	c.721G>T	c.(721-723)GGA>TGA	p.G241*	RELL2_uc003llh.2_Nonsense_Mutation_p.G241*|RELL2_uc003llg.2_Nonsense_Mutation_p.G175*|RELL2_uc010jgf.2_Nonsense_Mutation_p.G175*|FCHSD1_uc010jgg.2_3'UTR|FCHSD1_uc003llj.2_RNA|FCHSD1_uc003llk.2_3'UTR	NM_001130029	NP_001123501	Q8NC24	RELL2_HUMAN	RELT-like 2	241						integral to membrane|plasma membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAGAATGGAGGACTCAGGGA	0.667													4	82	---	---	---	---	PASS	T	141019704	T	T	141019704	4	4	162	1	0	0	0	0	0	1	0	0	13219	1001	35	3	739	3	RELL2	5	141019704	Nonsense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	218330	141019704	39895556	98	57161										
CSF1R	1436	broad.mit.edu	37	chr5	149441342	149441342	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cgttgtaaggcagctgcgtgGggtcgatgaaagtataactg	15	6	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:149441342G>A	uc003lrl.2	-	11	1892	c.1697C>T	c.(1696-1698)CCC>CTC	p.P566L	CSF1R_uc011dcd.1_Missense_Mutation_p.P418L|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Missense_Mutation_p.P566L	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	566	Cytoplasmic (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	CAGCTGCGTGGGGTCGATGAA	0.552													91	216	---	---	---	---	PASS	A	149441342	A	A	149441342	3	1	162	1	0	0	0	0	1	0	0	0	3932	1232	43	3	1265	3	CSF1R	5	149441342	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	8421638	149441342	31473918	99	57162										
FAM71B	153745	broad.mit.edu	37	chr5	156593032	156593032	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tttgtttatctgaataaaatTactctcgaacattggtgcat	6	6	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:156593032T>A	uc003lwn.2	-	1	248	c.148A>T	c.(148-150)AAT>TAT	p.N50Y		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	50						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TGAATAAAATTACTCTCGAAC	0.458													96	310	---	---	---	---	PASS	A	156593032	A	A	156593032	3	1	162	1	0	0	0	0	1	0	0	0	5608	1754	61	5	1677	5	FAM71B	5	156593032	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	7151690	156593032	24322228	100	57163										
DOCK2	1794	broad.mit.edu	37	chr5	169230202	169230202	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tcttggaagtccttagctacCaggatgcggtgagtcctcct	11	11	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr5:169230202C>A	uc003maf.2	+	26	2775	c.2695C>A	c.(2695-2697)CAG>AAG	p.Q899K	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.Q391K	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	899					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCTTAGCTACCAGGATGCGGT	0.478													70	112	---	---	---	---	PASS	A	169230202	A	A	169230202	3	1	162	1	0	0	0	0	1	0	0	0	4687	595	21	3	2797	3	DOCK2	5	169230202	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	12637170	169230202	11685058	101	57164										
DUSP22	56940	broad.mit.edu	37	chr6	348265	348265	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	caggagtttgagaagcatgaGgtccatcaggtaagcagttc	13	7	1	2	rs143018862		TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr6:348265G>T	uc003msx.2	+	6	865	c.426G>T	c.(424-426)GAG>GAT	p.E142D	DUSP22_uc011dhn.1_Missense_Mutation_p.E142D|DUSP22_uc003msy.1_Missense_Mutation_p.E99D	NM_020185	NP_064570	Q9NRW4	DUS22_HUMAN	dual specificity phosphatase 22	142					apoptosis|cell proliferation|inactivation of MAPK activity|multicellular organismal development|positive regulation of JNK cascade|regulation of cell proliferation|transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(77;0.228)	Breast(5;0.0249)|all_hematologic(90;0.0489)		OV - Ovarian serous cystadenocarcinoma(45;0.0277)|BRCA - Breast invasive adenocarcinoma(62;0.0669)		AGAAGCATGAGGTCCATCAGG	0.582													25	303	---	---	---	---	PASS	T	348265	T	T	348265	3	4	162	1	0	0	0	0	1	0	0	0	4821	991	35	3	448	3	DUSP22	6	348265	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08		348265	170766802	102	57165										
OR11A1	26531	broad.mit.edu	37	chr6	29395006	29395006	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gccccatgtaccgtctgggcCccatcaggagtgggtagtgg	15	12	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr6:29395006C>A	uc003nmg.2	-	1	504	c.413G>T	c.(412-414)GGG>GTG	p.G138V		NM_013937	NP_039225	Q9GZK7	O11A1_HUMAN	olfactory receptor, family 11, subfamily A,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCGTCTGGGCCCCATCAGGAG	0.577													69	59	---	---	---	---	PASS	A	29395006	A	A	29395006	3	1	162	1	0	0	0	0	1	0	0	0	10924	623	22	3	538	3	OR11A1	6	29395006	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	29046741	29395006	141720061	103	57166										
NFKBIL1	4795	broad.mit.edu	37	chr6	31526324	31526324	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgagacctgggagctgggccGtgtgatgggagcagtgacag	19	7	0	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr6:31526324G>T	uc003nub.2	+	4	1201	c.1082G>T	c.(1081-1083)CGT>CTT	p.R361L	NFKBIL1_uc011dnr.1_Missense_Mutation_p.R323L|NFKBIL1_uc011dns.1_Missense_Mutation_p.R338L|NFKBIL1_uc011dnt.1_RNA|NFKBIL1_uc003nuc.2_Missense_Mutation_p.R346L	NM_005007	NP_004998	Q9UBC1	IKBL1_HUMAN	nuclear factor of kappa light polypeptide gene	361					cytoplasmic sequestering of transcription factor		protein binding				0						GAGCTGGGCCGTGTGATGGGA	0.617													7	3	---	---	---	---	PASS	T	31526324	T	T	31526324	3	4	162	1	0	0	0	0	1	0	0	0	10381	1145	40	1	1096	1	NFKBIL1	6	31526324	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	2131318	31526324	139588743	104	57167										
WDR46	9277	broad.mit.edu	37	chr6	33256237	33256237	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggcttcgagttttggctttaGaatgtggtagctgtaacatt	12	5	0	1	rs34704405		TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr6:33256237G>A	uc003ods.2	-	4	415	c.371C>T	c.(370-372)TCT>TTT	p.S124F	WDR46_uc011dra.1_Missense_Mutation_p.S70F|WDR46_uc010juo.1_RNA|PFDN6_uc003odt.1_5'Flank|PFDN6_uc010jup.1_5'Flank	NM_005452	NP_005443	O15213	WDR46_HUMAN	WD repeat domain 46 isoform 1	124											0						TTTGGCTTTAGAATGTGGTAG	0.512													230	188	---	---	---	---	PASS	A	33256237	A	A	33256237	3	1	162	1	0	0	0	0	1	0	0	0	17296	942	33	2	1509	2	WDR46	6	33256237	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	1729913	33256237	137858830	105	57168										
TFAP2D	83741	broad.mit.edu	37	chr6	50696583	50696583	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cccaaggtggcacctgtgtgGtcaaccccacagacttattt	9	13	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr6:50696583G>T	uc003paf.2	+	4	1125	c.613G>T	c.(613-615)GTC>TTC	p.V205F	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	205							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					CACCTGTGTGGTCAACCCCAC	0.438													147	132	---	---	---	---	PASS	T	50696583	T	T	50696583	3	4	162	1	0	0	0	0	1	0	0	0	15787	1261	44	3	627	3	TFAP2D	6	50696583	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	17440346	50696583	120418484	106	57169										
ANKRD6	22881	broad.mit.edu	37	chr6	90323537	90323537	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gacacctgtttgcacgttgcTgcgcgctataatcacttgtc	9	12	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr6:90323537T>A	uc003pni.3	+	7	884	c.543T>A	c.(541-543)GCT>GCA	p.A181A	ANKRD6_uc003pne.3_Silent_p.A181A|ANKRD6_uc003pnf.3_Silent_p.A181A|ANKRD6_uc011dzy.1_Silent_p.A181A|ANKRD6_uc010kcd.2_Silent_p.A148A|LYRM2_uc010kce.1_Intron|LYRM2_uc003png.2_Intron|ANKRD6_uc003pnh.3_5'UTR	NM_014942	NP_055757	Q9Y2G4	ANKR6_HUMAN	ankyrin repeat domain 6	181	ANK 6.						protein binding			ovary(2)|pancreas(1)	3		all_cancers(76;1.22e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;1.83e-05)|Lung NSC(302;0.239)		BRCA - Breast invasive adenocarcinoma(108;0.0209)		TGCACGTTGCTGCGCGCTATA	0.433													26	43	---	---	---	---	PASS	A	90323537	A	A	90323537	2	1	162	1	0	0	0	0	0	0	0	1	685	1567	55	5		5	ANKRD6	6	90323537	Silent	SNP	T	TCGA-66-2783-01A-01D-1267-08	39626954	90323537	80791530	107	57170										
MOXD1	26002	broad.mit.edu	37	chr6	132649614	132649614	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gtgaggaatgcatcgggcatGttggggtgatagcactcgtg	17	6	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr6:132649614G>C	uc003qdf.2	-	5	882	c.783C>G	c.(781-783)AAC>AAG	p.N261K	MOXD1_uc003qde.2_Missense_Mutation_p.N193K	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	261	Lumenal (Potential).				catecholamine metabolic process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		CATCGGGCATGTTGGGGTGAT	0.502													42	88	---	---	---	---	PASS	C	132649614	C	C	132649614	3	2	162	1	0	0	0	0	1	0	0	0	9720	1368	48	4	1090	4	MOXD1	6	132649614	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	42326077	132649614	38465453	108	57171										
LATS1	9113	broad.mit.edu	37	chr6	149983278	149983278	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	accattcttgcctaagcgatCttcgggtcctcggcaaagtt	9	12	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr6:149983278C>T	uc003qmu.1	-	8	3528	c.2980G>A	c.(2980-2982)GAT>AAT	p.D994N	LATS1_uc010kif.1_Missense_Mutation_p.D889N	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	994	Protein kinase.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		CCTAAGCGATCTTCGGGTCCT	0.403													6	287	---	---	---	---	PASS	T	149983278	T	T	149983278	3	4	162	1	0	0	0	0	1	0	0	0	8646	913	32	2	416	2	LATS1	6	149983278	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	17333664	149983278	21131789	109	57172										
SYNE1	23345	broad.mit.edu	37	chr6	152770762	152770762	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	catttgtagatatccaagatGagaactcagagaatctgaaa	8	6	2	5			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr6:152770762G>C	uc010kiw.2	-	28	4012	c.3410C>G	c.(3409-3411)TCA>TGA	p.S1137*	SYNE1_uc003qot.3_Nonsense_Mutation_p.S1144*|SYNE1_uc003qou.3_Nonsense_Mutation_p.S1137*|SYNE1_uc010kjb.1_Nonsense_Mutation_p.S1120*|SYNE1_uc003qow.2_Nonsense_Mutation_p.S432*|SYNE1_uc003qox.1_Nonsense_Mutation_p.S653*	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1137	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)		TATCCAAGATGAGAACTCAGA	0.383										HNSCC(10;0.0054)			6	135	---	---	---	---	PASS	C	152770762	C	C	152770762	4	2	162	1	0	0	0	0	0	1	0	0	15442	1294	45	2	23532	2	SYNE1	6	152770762	Nonsense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	2787484	152770762	18344305	110	57173										
PRR18	285800	broad.mit.edu	37	chr6	166720810	166720810	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cccgcgcggcagccgcggacTccacgccgcgcagccactcc	12	22	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr6:166720810T>A	uc003quw.1	-	1	1062	c.821A>T	c.(820-822)GAG>GTG	p.E274V		NM_175922	NP_787118	Q8N4B5	PRR18_HUMAN	proline rich region 18	274						endoplasmic reticulum					0		Breast(66;2.35e-05)|Ovarian(120;0.0606)|Prostate(117;0.0959)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-19)|BRCA - Breast invasive adenocarcinoma(81;4.45e-06)|GBM - Glioblastoma multiforme(31;7.96e-05)		agccgcggACTCCACGCCGCG	0.582													4	7	---	---	---	---	PASS	A	166720810	A	A	166720810	3	1	162	1	0	0	0	0	1	0	0	0	12590	1551	54	5	70	5	PRR18	6	166720810	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	13950048	166720810	4394257	111	57174										
CALN1	83698	broad.mit.edu	37	chr7	71743773	71743773	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gtacaacaagccggcggtcaCatggtggaacggcatctttt	12	10	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr7:71743773C>A	uc003twa.3	-	2	543	c.16G>T	c.(16-18)GTG>TTG	p.V6L	CALN1_uc003twb.3_Missense_Mutation_p.V48L|CALN1_uc003twc.3_Missense_Mutation_p.V6L	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2	6	Cytoplasmic (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				CCGGCGGTCACATGGTGGAAC	0.507													16	78	---	---	---	---	PASS	A	71743773	A	A	71743773	3	1	162	1	0	0	0	0	1	0	0	0	2591	478	17	3	663	3	CALN1	7	71743773	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08		71743773	87394890	112	57175										
ADAM22	53616	broad.mit.edu	37	chr7	87792420	87792420	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atgatgtgcttagaacacagGtgtcttcctgtggcttcttt	10	8	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr7:87792420G>T	uc003ujn.2	+	23	2080	c.2001G>T	c.(1999-2001)AGG>AGT	p.R667S	ADAM22_uc003ujk.1_Missense_Mutation_p.R667S|ADAM22_uc003ujl.1_Missense_Mutation_p.R667S|ADAM22_uc003ujm.2_Missense_Mutation_p.R667S|ADAM22_uc003ujo.2_Missense_Mutation_p.R667S|ADAM22_uc003ujp.1_Missense_Mutation_p.R719S	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	667	Cys-rich.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			TAGAACACAGGTGTCTTCCTG	0.428													83	262	---	---	---	---	PASS	T	87792420	T	T	87792420	3	4	162	1	0	0	0	0	1	0	0	0	244	1252	44	3	2091	3	ADAM22	7	87792420	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	16048647	87792420	71346243	113	57176										
ASNS	440	broad.mit.edu	37	chr7	97486048	97486048	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tcataagtttccaaggaaaaTatgacttcatccagagcctg	7	9	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr7:97486048T>C	uc003uot.3	-	8	1490	c.984A>G	c.(982-984)ATA>ATG	p.I328M	ASNS_uc011kin.1_Missense_Mutation_p.I245M|ASNS_uc003uou.3_Missense_Mutation_p.I328M|ASNS_uc003uov.3_Missense_Mutation_p.I328M|ASNS_uc011kio.1_Missense_Mutation_p.I307M|ASNS_uc003uow.3_Missense_Mutation_p.I307M|ASNS_uc003uox.3_Missense_Mutation_p.I245M	NM_133436	NP_597680	P08243	ASNS_HUMAN	asparagine synthetase	328	Asparagine synthetase.				cellular response to glucose starvation|glutamine metabolic process|negative regulation of apoptosis|positive regulation of mitotic cell cycle	cytosol|soluble fraction	asparagine synthase (glutamine-hydrolyzing) activity|ATP binding			ovary(1)	1	all_cancers(62;6.64e-09)|all_epithelial(64;1.58e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0342)|all_lung(186;0.0369)				Adenosine triphosphate(DB00171)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CCAAGGAAAATATGACTTCAT	0.308													51	174	---	---	---	---	PASS	C	97486048	C	C	97486048	3	2	162	1	0	0	0	0	1	0	0	0	1048	1396	49	5	725	5	ASNS	7	97486048	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	9693628	97486048	61652615	114	57177										
LRCH4	4034	broad.mit.edu	37	chr7	100183504	100183504	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cggggcccggctgcactcacCagcctgggtgatgtctgaca	14	14	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr7:100183504C>T	uc003uvj.2	-	1	273	c.220G>A	c.(220-222)GAC>AAC	p.D74N	LRCH4_uc003uvi.2_5'Flank|LRCH4_uc011kjx.1_RNA|FBXO24_uc010lha.1_5'Flank|FBXO24_uc003uvl.1_5'Flank|FBXO24_uc003uvm.1_5'Flank|FBXO24_uc003uvn.1_5'Flank	NM_002319	NP_002310	O75427	LRCH4_HUMAN	leucine-rich repeats and calponin homology (CH)	74	LRR 2.				nervous system development	PML body	protein binding			large_intestine(1)|ovary(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CTGCACTCACCAGCCTGGGTG	0.552													3	60	---	---	---	---	PASS	T	100183504	T	T	100183504	3	4	162	1	0	0	0	0	1	0	0	0	8935	608	21	3	1903	3	LRCH4	7	100183504	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	2697456	100183504	58955159	115	57178										
ZAN	7455	broad.mit.edu	37	chr7	100349596	100349596	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	agaaaaacccaccattccctCagaaaaacccaccatcctca	2	17	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr7:100349596C>G	uc003uwj.2	+	14	2033	c.1868C>G	c.(1867-1869)TCA>TGA	p.S623*	ZAN_uc003uwk.2_Nonsense_Mutation_p.S623*|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	623	66 X heptapeptide repeats (approximate) (mucin-like domain).|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			ACCATTCCCTCAGAAAAACCC	0.478													37	111	---	---	---	---	PASS	G	100349596	G	G	100349596	4	3	162	1	0	0	0	0	0	1	0	0	17510	838	29	2	1918	2	ZAN	7	100349596	Nonsense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	166092	100349596	58789067	116	57179										
GRM8	2918	broad.mit.edu	37	chr7	126544029	126544029	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctatggtgcattcttaccatCaattgatgctcgtttgggca	9	9	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr7:126544029C>G	uc003vlr.2	-	4	1326	c.1015G>C	c.(1015-1017)GAT>CAT	p.D339H	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.D339H|GRM8_uc010lkz.1_RNA|GRM8_uc003vlu.1_Missense_Mutation_p.D60H	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	339	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TTCTTACCATCAATTGATGCT	0.408										HNSCC(24;0.065)			55	315	---	---	---	---	PASS	G	126544029	G	G	126544029	3	3	162	1	0	0	0	0	1	0	0	0	6803	826	29	2	1789	2	GRM8	7	126544029	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	26194433	126544029	32594634	117	57180										
LRGUK	136332	broad.mit.edu	37	chr7	133884059	133884059	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aaaaatatgagggatatttgCggagaaaaggattattcagt	11	2	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr7:133884059C>T	uc003vrm.1	+	14	1649	c.1633C>T	c.(1633-1635)CGG>TGG	p.R545W		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	545	Guanylate kinase-like.						ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						GGGATATTTGCGGAGAAAAGG	0.358													6	425	---	---	---	---	PASS	T	133884059	T	T	133884059	3	4	162	1	0	0	0	0	1	0	0	0	8943	759	27	1	1687	1	LRGUK	7	133884059	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	7340030	133884059	25254604	118	57181										
OR2F2	135948	broad.mit.edu	37	chr7	143632899	143632899	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tcaggctggcttgtgtggacAcctcctccaatgaggctgcc	12	13	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr7:143632899A>G	uc011ktv.1	+	1	574	c.574A>G	c.(574-576)ACC>GCC	p.T192A		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	192	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					TTGTGTGGACACCTCCTCCAA	0.493													26	89	---	---	---	---	PASS	G	143632899	G	G	143632899	3	3	162	1	0	0	0	0	1	0	0	0	10997	159	6	5	576	5	OR2F2	7	143632899	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	9748840	143632899	15505764	119	57182										
OR6B1	135946	broad.mit.edu	37	chr7	143701878	143701878	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tatgctcgacctcgagttatCcatgccttcaacatgaacaa	6	12	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr7:143701878C>G	uc003wdt.1	+	1	789	c.789C>G	c.(787-789)ATC>ATG	p.I263M		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	263	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					CTCGAGTTATCCATGCCTTCA	0.428													81	240	---	---	---	---	PASS	G	143701878	G	G	143701878	3	3	162	1	0	0	0	0	1	0	0	0	11187	845	30	2	791	2	OR6B1	7	143701878	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	68979	143701878	15436785	120	57183										
RHEB	6009	broad.mit.edu	37	chr7	151181828	151181828	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccagaggtcacttacttgccCggctgtgtctacaagttgaa	10	11	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr7:151181828C>A	uc003wkh.1	-	3	600	c.187G>T	c.(187-189)GGG>TGG	p.G63W		NM_005614	NP_005605	Q15382	RHEB_HUMAN	Ras homolog enriched in brain precursor	63					cell cycle arrest|insulin receptor signaling pathway|positive regulation of TOR signaling cascade|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|metal ion binding|protein binding			large_intestine(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.00306)	UCEC - Uterine corpus endometrioid carcinoma (81;0.174)		CTTACTTGCCCGGCTGTGTCT	0.358													36	100	---	---	---	---	PASS	A	151181828	A	A	151181828	3	1	162	1	0	0	0	0	1	0	0	0	13328	652	23	1	391	1	RHEB	7	151181828	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	7479950	151181828	7956835	121	57184										
RGS20	8601	broad.mit.edu	37	chr8	54791911	54791911	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccagcctcgcaaggttcttcTctcaccttctccggcgaccc	7	19	4	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr8:54791911T>A	uc003xrp.2	+	2	351	c.259T>A	c.(259-261)TCT>ACT	p.S87T	RGS20_uc003xrq.2_Intron|RGS20_uc010lye.2_Intron|RGS20_uc010lyf.2_Intron|RGS20_uc003xrr.2_5'Flank|RGS20_uc003xrs.2_5'Flank|RGS20_uc003xrt.2_5'Flank	NM_170587	NP_733466	O76081	RGS20_HUMAN	regulator of G-protein signaling 20 isoform a	87					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|nucleus|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(7;1.37e-06)|Epithelial(17;0.000126)|all cancers(17;0.0009)			AAGGTTCTTCTCTCACCTTCT	0.711													93	299	---	---	---	---	PASS	A	54791911	A	A	54791911	3	1	162	1	0	0	0	0	1	0	0	0	13303	1551	54	5	265	5	RGS20	8	54791911	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08		54791911	91572111	122	57185										
ARFGEF1	10565	broad.mit.edu	37	chr8	68184115	68184115	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgaaaataggtcctgcattcTgcagaatggatagaagtaac	10	6	1	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr8:68184115T>C	uc003xxo.1	-	10	1784	c.1394A>G	c.(1393-1395)CAG>CGG	p.Q465R		NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	465					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			TCCTGCATTCTGCAGAATGGA	0.358													30	81	---	---	---	---	PASS	C	68184115	C	C	68184115	3	2	162	1	0	0	0	0	1	0	0	0	852	1580	55	5	4275	5	ARFGEF1	8	68184115	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	13392204	68184115	78179907	123	57186										
NCOA2	10499	broad.mit.edu	37	chr8	71069128	71069128	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cagccactccagggctcatgCgatgccttggtgaaagcatg	12	12	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr8:71069128C>T	uc003xyn.1	-	11	1634	c.1472G>A	c.(1471-1473)CGC>CAC	p.R491H		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	491					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			AGGGCTCATGCGATGCCTTGG	0.567			T	RUNXBP2	AML								42	117	---	---	---	---	PASS	T	71069128	T	T	71069128	3	4	162	1	0	0	0	0	1	0	0	0	10229	768	27	1	2974	1	NCOA2	8	71069128	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	2885013	71069128	75294894	124	57187										
ZFHX4	79776	broad.mit.edu	37	chr8	77764395	77764395	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccattttatatacctgggacGgagttcagcttggggccaga	12	9	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr8:77764395G>A	uc003yav.2	+	10	5490	c.5103G>A	c.(5101-5103)ACG>ACA	p.T1701T	ZFHX4_uc003yau.1_Silent_p.T1746T|ZFHX4_uc003yaw.1_Silent_p.T1701T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1701	Gln-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TACCTGGGACGGAGTTCAGCT	0.507										HNSCC(33;0.089)			32	74	---	---	---	---	PASS	A	77764395	A	A	77764395	2	1	162	1	0	0	0	0	0	0	0	1	17632	1103	39	1		1	ZFHX4	8	77764395	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	6695267	77764395	68599627	125	57188										
CSMD3	114788	broad.mit.edu	37	chr8	113347704	113347704	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aattttggtctggtccatccCtatgagacaaggattgggaa	11	7	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr8:113347704C>T	uc003ynu.2	-	45	7179	c.7020_splice	c.e45-1	p.W2340_splice	CSMD3_uc003yns.2_Splice_Site_p.W1542_splice|CSMD3_uc003ynt.2_Splice_Site_p.W2300_splice|CSMD3_uc011lhx.1_Splice_Site_p.W2236_splice|CSMD3_uc003ynw.1_Splice_Site_p.W51_splice	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1							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						TGGTCCATCCCTATGAGACAA	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			33	87	---	---	---	---	PASS	T	113347704	T	T	113347704	5	4	162	1	0	0	0	0	0	0	1	0	3946	695	24	3	4212	3	CSMD3	8	113347704	Splice_Site	SNP	C	TCGA-66-2783-01A-01D-1267-08	35583309	113347704	33016318	126	57189										
CSMD3	114788	broad.mit.edu	37	chr8	113529362	113529362	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttcatatcctgggtcacattGaaaaacaacagtgtccccag	7	11	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr8:113529362G>A	uc003ynu.2	-	28	4816	c.4657C>T	c.(4657-4659)CAA>TAA	p.Q1553*	CSMD3_uc003yns.2_Nonsense_Mutation_p.Q825*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.Q1513*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.Q1449*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1553	Extracellular (Potential).|Sushi 8.					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						GGGTCACATTGAAAAACAACA	0.498										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			41	137	---	---	---	---	PASS	A	113529362	A	A	113529362	4	1	162	1	0	0	0	0	0	1	0	0	3946	1299	45	2	6642	2	CSMD3	8	113529362	Nonsense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	181658	113529362	32834660	127	57190										
TG	7038	broad.mit.edu	37	chr8	133948102	133948102	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gattctccagctgtgtatttGaaaaagggtaggttggtcag	13	5	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr8:133948102G>C	uc003ytw.2	+	25	5075	c.5034G>C	c.(5032-5034)TTG>TTC	p.L1678F	TG_uc010mdw.2_Missense_Mutation_p.L437F|TG_uc011ljb.1_Missense_Mutation_p.L111F	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1678	Type IIIA.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CTGTGTATTTGAAAAAGGGTA	0.547													24	59	---	---	---	---	PASS	C	133948102	C	C	133948102	3	2	162	1	0	0	0	0	1	0	0	0	15810	1281	45	2	5132	2	TG	8	133948102	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	20418740	133948102	12415920	128	57191										
FAM135B	51059	broad.mit.edu	37	chr8	139255189	139255189	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cccacacaggccttacctctGaggaagtcggcttgcagtac	10	14	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr8:139255189G>T	uc003yuy.2	-	7	836	c.665C>A	c.(664-666)TCA>TAA	p.S222*	FAM135B_uc003yux.2_Nonsense_Mutation_p.S123*|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	222										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)			CCTTACCTCTGAGGAAGTCGG	0.463										HNSCC(54;0.14)			22	120	---	---	---	---	PASS	T	139255189	T	T	139255189	4	4	162	1	0	0	0	0	0	1	0	0	5449	1294	45	2	3611	2	FAM135B	8	139255189	Nonsense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	5307087	139255189	7108833	129	57192										
BAI1	575	broad.mit.edu	37	chr8	143614677	143614677	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gcctccctgtggagctcctgCgtggtgctgccgctgctggc	15	15	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr8:143614677C>T	uc003ywm.2	+	24	3603	c.3420C>T	c.(3418-3420)TGC>TGT	p.C1140C		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1140	Helical; Name=6; (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GGAGCTCCTGCGTGGTGCTGC	0.701													4	3	---	---	---	---	PASS	T	143614677	T	T	143614677	2	4	162	1	0	0	0	0	0	0	0	1	1298	776	27	1		1	BAI1	8	143614677	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	4359488	143614677	2749345	130	57193										
CYP11B1	1584	broad.mit.edu	37	chr8	143960554	143960554	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cacctgttgcagcttctccaCgtcctccggcagcatcacac	7	18	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr8:143960554C>A	uc003yxi.2	-	2	296	c.289G>T	c.(289-291)GTG>TTG	p.V97L	CYP11B1_uc003yxh.2_5'Flank|CYP11B1_uc003yxj.2_Missense_Mutation_p.V97L|CYP11B1_uc010mey.2_Missense_Mutation_p.V142L	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	97					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	AGCTTCTCCACGTCCTCCGGC	0.622									Familial_Hyperaldosteronism_type_I				39	103	---	---	---	---	PASS	A	143960554	A	A	143960554	3	1	162	1	0	0	0	0	1	0	0	0	4145	536	19	1	1254	1	CYP11B1	8	143960554	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	345877	143960554	2403468	131	57194										
ZNF696	79943	broad.mit.edu	37	chr8	144378669	144378669	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggagtgcggccaggccttcaGccagagctccaacctcctcc	11	17	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr8:144378669G>T	uc003yxy.3	+	3	1233	c.824G>T	c.(823-825)AGC>ATC	p.S275I		NM_030895	NP_112157	Q9H7X3	ZN696_HUMAN	zinc finger protein 696	275	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			CAGGCCTTCAGCCAGAGCTCC	0.711													6	18	---	---	---	---	PASS	T	144378669	T	T	144378669	3	4	162	1	0	0	0	0	1	0	0	0	18096	971	34	3	830	3	ZNF696	8	144378669	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	418115	144378669	1985353	132	57195										
DMRT3	58524	broad.mit.edu	37	chr9	990423	990423	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggctgtggcggggacctggtGagcgccgtggaagtccttct	18	10	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr9:990423G>A	uc003zgw.1	+	2	875	c.837G>A	c.(835-837)GTG>GTA	p.V279V		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	279					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		GGGACCTGGTGAGCGCCGTGG	0.572													50	54	---	---	---	---	PASS	A	990423	A	A	990423	2	1	162	1	0	0	0	0	0	0	0	1	4587	1277	45	2		2	DMRT3	9	990423	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08		990423	140223008	133	57196										
TAF1L	138474	broad.mit.edu	37	chr9	32633641	32633641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggggacctggctgagagagtGcaccaaatgagtactttttc	13	8	0	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr9:32633641G>T	uc003zrg.1	-	1	2027	c.1937C>A	c.(1936-1938)GCA>GAA	p.A646E	uc003zrh.1_RNA	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	646					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CTGAGAGAGTGCACCAAATGA	0.507													130	110	---	---	---	---	PASS	T	32633641	T	T	32633641	3	4	162	1	0	0	0	0	1	0	0	0	15520	1319	46	3	3547	3	TAF1L	9	32633641	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	31643218	32633641	108579790	134	57197										
TMC1	117531	broad.mit.edu	37	chr9	75403364	75403364	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tcggcaatcctgaaacagcaGacaacaaatttaattctatc	5	10	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr9:75403364G>T	uc004aiz.1	+	14	1534	c.994G>T	c.(994-996)GAC>TAC	p.D332Y	TMC1_uc010moz.1_Missense_Mutation_p.D290Y|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Missense_Mutation_p.D186Y|TMC1_uc010mpa.1_Missense_Mutation_p.D186Y	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	332	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						TGAAACAGCAGACAACAAATT	0.398													95	76	---	---	---	---	PASS	T	75403364	T	T	75403364	3	4	162	1	0	0	0	0	1	0	0	0	15981	942	33	2	1032	2	TMC1	9	75403364	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	42769723	75403364	65810067	135	57198										
UBQLN1	29979	broad.mit.edu	37	chr9	86278932	86278932	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccgaagagcctccagtgcttCctaatgcccccaagccagga	9	16	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr9:86278932C>T	uc004amv.2	-	10	2049	c.1475G>A	c.(1474-1476)GGA>GAA	p.G492E	UBQLN1_uc004amw.2_Missense_Mutation_p.G464E	NM_013438	NP_038466	Q9UMX0	UBQL1_HUMAN	ubiquilin 1 isoform 1	492					apoptosis|regulation of protein ubiquitination|response to hypoxia	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm|proteasome complex	kinase binding				0						TCCAGTGCTTCCTAATGCCCC	0.468													75	200	---	---	---	---	PASS	T	86278932	T	T	86278932	3	4	162	1	0	0	0	0	1	0	0	0	16893	855	30	2	302	2	UBQLN1	9	86278932	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	10875568	86278932	54934499	136	57199										
C9orf89	84270	broad.mit.edu	37	chr9	95872921	95872921	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cacctgcagcggagcggtgaGcgggactgccaggagttcta	16	11	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr9:95872921G>A	uc004atd.2	+	3	400	c.222G>A	c.(220-222)GAG>GAA	p.E74E	C9orf89_uc004ate.2_RNA|C9orf89_uc004atf.2_RNA	NM_032310	NP_115686	Q96LW7	BINCA_HUMAN	chromosome 9 open reading frame 89	74	CARD.				negative regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|nucleus	CARD domain binding				0						GGAGCGGTGAGCGGGACTGCC	0.502													73	85	---	---	---	---	PASS	A	95872921	A	A	95872921	2	1	162	1	0	0	0	0	0	0	0	1	2503	962	34	3		3	C9orf89	9	95872921	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	9593989	95872921	45340510	137	57200										
COL15A1	1306	broad.mit.edu	37	chr9	101797359	101797359	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	agggacaagctggccctcctGgggtcatgggacccccaggg	16	13	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr9:101797359G>T	uc004azb.1	+	18	2349	c.2143G>T	c.(2143-2145)GGG>TGG	p.G715W		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	715	Triple-helical region 2 (COL2).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				TGGCCCTCCTGGGGTCATGGG	0.617													98	85	---	---	---	---	PASS	T	101797359	T	T	101797359	3	4	162	1	0	0	0	0	1	0	0	0	3672	1348	47	3	2213	3	COL15A1	9	101797359	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	5924438	101797359	39416072	138	57201										
RGS3	5998	broad.mit.edu	37	chr9	116269689	116269689	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acatgacctccagtcaccccCcaacaaacgggagaagaact	7	15	1	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr9:116269689C>T	uc004bhq.2	+	14	1417	c.1208C>T	c.(1207-1209)CCC>CTC	p.P403L	RGS3_uc004bhr.2_Missense_Mutation_p.P291L|RGS3_uc004bhs.2_Missense_Mutation_p.P293L|RGS3_uc004bht.2_Missense_Mutation_p.P122L|RGS3_uc010muy.2_Missense_Mutation_p.P122L|RGS3_uc004bhu.2_Missense_Mutation_p.P29L	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	403					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						CAGTCACCCCCCAACAAACGG	0.647													14	80	---	---	---	---	PASS	T	116269689	T	T	116269689	3	4	162	1	0	0	0	0	1	0	0	0	13306	623	22	3	1399	3	RGS3	9	116269689	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	14472330	116269689	24943742	139	57202										
WDR34	89891	broad.mit.edu	37	chr9	131396147	131396147	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	catcgcccgcagccaagagcTgagtctgctggctgttgaac	12	13	1	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr9:131396147T>C	uc004bvq.1	-	9	1611	c.1487A>G	c.(1486-1488)CAG>CGG	p.Q496R	WDR34_uc004bvs.1_Missense_Mutation_p.Q487R|WDR34_uc004bvr.1_Missense_Mutation_p.Q468R	NM_052844	NP_443076	Q96EX3	WDR34_HUMAN	WD repeat domain 34	496	WD 5.					cytoplasm				central_nervous_system(2)|skin(1)	3						AGCCAAGAGCTGAGTCTGCTG	0.562													4	128	---	---	---	---	PASS	C	131396147	C	C	131396147	3	2	162	1	0	0	0	0	1	0	0	0	17285	1580	55	5	127	5	WDR34	9	131396147	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	15126458	131396147	9817284	140	57203										
PFKP	5214	broad.mit.edu	37	chr10	3147652	3147652	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tccttccagaatctccaccaGaggaaggctgggaggagcag	13	11	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr10:3147652G>C	uc001igp.2	+	7	769	c.733G>C	c.(733-735)GAG>CAG	p.E245Q	PFKP_uc001igq.2_Missense_Mutation_p.E237Q|PFKP_uc009xhr.2_Missense_Mutation_p.E207Q|PFKP_uc009xhs.1_Missense_Mutation_p.E29Q|PFKP_uc009xht.2_5'Flank	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	245					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		ATCTCCACCAGAGGAAGGCTG	0.582													69	204	---	---	---	---	PASS	C	3147652	C	C	3147652	3	2	162	1	0	0	0	0	1	0	0	0	11766	943	33	2	759	2	PFKP	10	3147652	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08		3147652	132387095	141	57204										
GATA3	2625	broad.mit.edu	37	chr10	8100379	8100379	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctggaatctcagccccttctCcaagacgtccatccaccacg	6	18	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr10:8100379C>T	uc001ika.2	+	3	910	c.353C>T	c.(352-354)TCC>TTC	p.S118F	GATA3_uc001ijz.2_Missense_Mutation_p.S118F	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	118					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						AGCCCCTTCTCCAAGACGTCC	0.706			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						34	152	---	---	---	---	PASS	T	8100379	T	T	8100379	3	4	162	1	0	0	0	0	1	0	0	0	6255	855	30	2	359	2	GATA3	10	8100379	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	4952727	8100379	127434368	142	57205										
ITGA8	8516	broad.mit.edu	37	chr10	15688891	15688891	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cctaagtgtgccatagcactAccgaatctcccaaacgtctc	6	15	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr10:15688891A>G	uc001ioc.1	-	12	1161	c.1161T>C	c.(1159-1161)GGT>GGC	p.G387G	ITGA8_uc010qcb.1_Silent_p.G372G	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	387	Extracellular (Potential).|FG-GAP 6.				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						CCATAGCACTACCGAATCTCC	0.473													28	71	---	---	---	---	PASS	G	15688891	G	G	15688891	2	3	162	1	0	0	0	0	0	0	0	1	7882	378	14	5		5	ITGA8	10	15688891	Silent	SNP	A	TCGA-66-2783-01A-01D-1267-08	7588512	15688891	119845856	143	57206										
ARMC4	55130	broad.mit.edu	37	chr10	28274056	28274056	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gatcatcatctctggtaattTtgccaagaatatttaatgca	6	7	3	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr10:28274056T>A	uc009xky.2	-	4	565	c.467A>T	c.(466-468)AAA>ATA	p.K156I	ARMC4_uc010qdt.1_5'Flank|ARMC4_uc001itz.2_Missense_Mutation_p.K156I	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	156							binding			ovary(4)|skin(2)	6						TCTGGTAATTTTGCCAAGAAT	0.338													10	25	---	---	---	---	PASS	A	28274056	A	A	28274056	3	1	162	1	0	0	0	0	1	0	0	0	953	1841	64	5	2735	5	ARMC4	10	28274056	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	12585165	28274056	107260691	144	57207										
BMS1	9790	broad.mit.edu	37	chr10	43316087	43316087	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gaccacaatggaagacaaagGcttctaaagtataccccaca	7	11	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr10:43316087G>A	uc001jaj.2	+	17	3259	c.2901G>A	c.(2899-2901)AGG>AGA	p.R967R		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	967					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						GAAGACAAAGGCTTCTAAAGT	0.428													47	154	---	---	---	---	PASS	A	43316087	A	A	43316087	2	1	162	1	0	0	0	0	0	0	0	1	1472	1194	42	3		3	BMS1	10	43316087	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	15042031	43316087	92218660	145	57208										
GPRIN2	9721	broad.mit.edu	37	chr10	46999128	46999128	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggcctctggccccaaggcgcGacccagtgctggaggccact	14	16	1	0	rs149580948		TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr10:46999128G>C	uc001jec.2	+	3	383	c.248G>C	c.(247-249)CGA>CCA	p.R83P	GPRIN2_uc010qfq.1_5'Flank	NM_014696	NP_055511	O60269	GRIN2_HUMAN	G protein-regulated inducer of neurite outgrowth	83											0						CCCAAGGCGCGACCCAGTGCT	0.697													8	74	---	---	---	---	PASS	C	46999128	C	C	46999128	3	2	162	1	0	0	0	0	1	0	0	0	6730	1058	37	2	250	2	GPRIN2	10	46999128	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	3683041	46999128	88535619	146	57209										
OGDHL	55753	broad.mit.edu	37	chr10	50946033	50946033	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggatctgccggcgcagcacgTggaagtagttggccggtgtg	18	9	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr10:50946033T>A	uc001jie.2	-	19	2619	c.2477A>T	c.(2476-2478)CAC>CTC	p.H826L	OGDHL_uc009xog.2_Missense_Mutation_p.H853L|OGDHL_uc010qgt.1_Missense_Mutation_p.H769L|OGDHL_uc010qgu.1_Missense_Mutation_p.H617L	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	826					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						GCGCAGCACGTGGAAGTAGTT	0.642													119	308	---	---	---	---	PASS	A	50946033	A	A	50946033	3	1	162	1	0	0	0	0	1	0	0	0	10840	1696	59	5	575	5	OGDHL	10	50946033	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	3946905	50946033	84588714	147	57210										
TTC18	118491	broad.mit.edu	37	chr10	75113480	75113480	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gctcgaataaaggtaactggAgtatctcctttaaaaccttt	7	8	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr10:75113480A>G	uc009xrc.2	-	3	205	c.84T>C	c.(82-84)ACT>ACC	p.T28T	TTC18_uc001jty.2_Silent_p.T28T|TTC18_uc009xrd.1_5'UTR	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18	28							binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					AGGTAACTGGAGTATCTCCTT	0.363													26	105	---	---	---	---	PASS	G	75113480	G	G	75113480	2	3	162	1	0	0	0	0	0	0	0	1	16682	291	11	5		5	TTC18	10	75113480	Silent	SNP	A	TCGA-66-2783-01A-01D-1267-08	24167447	75113480	60421267	148	57211										
PTEN	5728	broad.mit.edu	37	chr10	89717708	89717708	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tcatgtactttgagttccctCagccgttacctgtgtgtggt	10	10	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr10:89717708C>T	uc001kfb.2	+	8	1764	c.733C>T	c.(733-735)CAG>TAG	p.Q245*		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	245	C2 tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.Q245*(6)|p.R55fs*1(4)|p.N212fs*1(2)|p.Y27fs*1(2)|p.G165_*404del(1)|p.?(1)|p.F243fs*9(1)|p.Q245fs*20(1)|p.G165_K342del(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TGAGTTCCCTCAGCCGTTACC	0.418		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			63	103	---	---	---	---	PASS	T	89717708	T	T	89717708	4	4	162	1	0	0	0	0	0	1	0	0	12738	827	29	2	759	2	PTEN	10	89717708	Nonsense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	14604228	89717708	45817039	149	57212										
SORCS3	22986	broad.mit.edu	37	chr10	106907400	106907400	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gcacatcatcagtacagacgAgaaccaagtatttgctgcgg	10	10	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr10:106907400A>G	uc001kyi.1	+	9	1555	c.1328A>G	c.(1327-1329)GAG>GGG	p.E443G		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	443	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		AGTACAGACGAGAACCAAGTA	0.478													38	94	---	---	---	---	PASS	G	106907400	G	G	106907400	3	3	162	1	0	0	0	0	1	0	0	0	14932	304	11	5	1362	5	SORCS3	10	106907400	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	17189692	106907400	28627347	150	57213										
SORCS3	22986	broad.mit.edu	37	chr10	106976840	106976840	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acagcctatgcagagaacaaCcttggctcagacacagctgt	9	12	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr10:106976840C>A	uc001kyi.1	+	19	2921	c.2694C>A	c.(2692-2694)AAC>AAA	p.N898K	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	898	PKD.|Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		CAGAGAACAACCTTGGCTCAG	0.527													49	117	---	---	---	---	PASS	A	106976840	A	A	106976840	3	1	162	1	0	0	0	0	1	0	0	0	14932	506	18	3	2768	3	SORCS3	10	106976840	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	69440	106976840	28557907	151	57214										
OR52N2	390077	broad.mit.edu	37	chr11	5841948	5841948	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cctggaccgctatgtggccaTctgctaccccttacgctatg	9	15	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:5841948T>C	uc010qzp.1	+	1	383	c.383T>C	c.(382-384)ATC>ACC	p.I128T	TRIM5_uc001mbq.1_Intron	NM_001005174	NP_001005174	Q8NGI0	O52N2_HUMAN	olfactory receptor, family 52, subfamily N,	128	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.49e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TATGTGGCCATCTGCTACCCC	0.542													65	150	---	---	---	---	PASS	C	5841948	C	C	5841948	3	2	162	1	0	0	0	0	1	0	0	0	11128	1435	50	5	385	5	OR52N2	11	5841948	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08		5841948	129164568	152	57215										
ZNF215	7762	broad.mit.edu	37	chr11	6964374	6964374	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aggaagagtgggggcaactgGactctgctgtaaagaacctg	15	7	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:6964374G>T	uc001mey.2	+	5	1132	c.544G>T	c.(544-546)GAC>TAC	p.D182Y	ZNF215_uc010raw.1_Intron|ZNF215_uc010rax.1_Intron|ZNF215_uc001mez.1_Missense_Mutation_p.D182Y	NM_013250	NP_037382	Q9UL58	ZN215_HUMAN	zinc finger protein 215	182	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;6.33e-08)|BRCA - Breast invasive adenocarcinoma(625;0.134)		GGGGCAACTGGACTCTGCTGT	0.403													97	298	---	---	---	---	PASS	T	6964374	T	T	6964374	3	4	162	1	0	0	0	0	1	0	0	0	17768	1174	41	2	554	2	ZNF215	11	6964374	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	1122426	6964374	128042142	153	57216										
INSC	387755	broad.mit.edu	37	chr11	15260621	15260621	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggaggccgtgcggctcagctGtgagtggtgctttctggctg	18	9	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:15260621G>C	uc001mly.2	+	11	1580	c.1534_splice	c.e11+1	p.C512_splice	INSC_uc001mlz.2_Splice_Site_p.C465_splice|INSC_uc001mma.2_Splice_Site_p.C465_splice|INSC_uc010rcs.1_Splice_Site_p.C500_splice|INSC_uc001mmb.2_Splice_Site_p.C465_splice|INSC_uc001mmc.2_Splice_Site_p.C423_splice	NM_001031853	NP_001027024	Q1MX18	INSC_HUMAN	inscuteable isoform a						cell differentiation|nervous system development	cytoplasm	binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)	5						CGGCTCAGCTGTGAGTGGTGC	0.617													23	77	---	---	---	---	PASS	C	15260621	C	C	15260621	5	2	162	1	0	0	0	0	0	0	1	0	7764	1391	48	4	1577	4	INSC	11	15260621	Splice_Site	SNP	G	TCGA-66-2783-01A-01D-1267-08	8296247	15260621	119745895	154	57217										
TTC17	55761	broad.mit.edu	37	chr11	43423094	43423094	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gtggagatatctttgaaaatGtggactatgttcaggtcttt	11	4	3	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:43423094G>A	uc001mxi.2	+	10	1332	c.1318G>A	c.(1318-1320)GTG>ATG	p.V440M	TTC17_uc001mxh.2_Missense_Mutation_p.V440M|TTC17_uc010rfj.1_Missense_Mutation_p.V383M|TTC17_uc001mxj.2_Missense_Mutation_p.V210M	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	440							binding			ovary(5)	5						CTTTGAAAATGTGGACTATGT	0.373													13	46	---	---	---	---	PASS	A	43423094	A	A	43423094	3	1	162	1	0	0	0	0	1	0	0	0	16681	1377	48	3	1356	3	TTC17	11	43423094	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	28162473	43423094	91583422	155	57218										
EXT2	2132	broad.mit.edu	37	chr11	44255735	44255735	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggtagatgctcatatgaactGtgaagatattgccatgaact	10	6	1	5			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:44255735G>T	uc001mxz.2	+	12	2211	c.1877G>T	c.(1876-1878)TGT>TTT	p.C626F	EXT2_uc010rfo.1_Missense_Mutation_p.C654F|EXT2_uc001mxy.2_Missense_Mutation_p.C639F|EXT2_uc009ykt.2_Missense_Mutation_p.C636F|EXT2_uc001mya.2_Missense_Mutation_p.C659F	NM_207122	NP_997005	Q93063	EXT2_HUMAN	exostosin 2 isoform 2	626	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity			lung(2)|breast(2)|skin(1)	5						CATATGAACTGTGAAGATATT	0.333			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses				26	105	---	---	---	---	PASS	T	44255735	T	T	44255735	3	4	162	1	0	0	0	0	1	0	0	0	5324	1377	48	3	2119	3	EXT2	11	44255735	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	832641	44255735	90750781	156	57219										
NUP160	23279	broad.mit.edu	37	chr11	47857309	47857309	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cagcagtaagccgaaggtctTtcttcacagggacatactcc	9	12	3	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:47857309T>A	uc001ngm.2	-	7	1080	c.995A>T	c.(994-996)AAA>ATA	p.K332I	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	332					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						CCGAAGGTCTTTCTTCACAGG	0.458													106	229	---	---	---	---	PASS	A	47857309	A	A	47857309	3	1	162	1	0	0	0	0	1	0	0	0	10757	1841	64	5	3435	5	NUP160	11	47857309	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	3601574	47857309	87149207	157	57220										
OR4A47	403253	broad.mit.edu	37	chr11	48511193	48511193	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	accccaatgctgaaccccttAatctacactctgagaaattc	4	14	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:48511193A>T	uc010rhx.1	+	1	849	c.849A>T	c.(847-849)TTA>TTT	p.L283F		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGAACCCCTTAATCTACACTC	0.408													151	438	---	---	---	---	PASS	T	48511193	T	T	48511193	3	4	162	1	0	0	0	0	1	0	0	0	11042	359	13	5	851	5	OR4A47	11	48511193	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	653884	48511193	86495323	158	57221										
OR4C6	219432	broad.mit.edu	37	chr11	55433289	55433289	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tcttatcttaattgcgtcctAcacggtcatcctatgctccc	5	14	3	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:55433289A>T	uc001nht.3	+	3	912	c.647A>T	c.(646-648)TAC>TTC	p.Y216F	OR4C6_uc010rik.1_Missense_Mutation_p.Y216F	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	216	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						ATTGCGTCCTACACGGTCATC	0.512													91	232	---	---	---	---	PASS	T	55433289	T	T	55433289	3	4	162	1	0	0	0	0	1	0	0	0	11052	391	14	5	649	5	OR4C6	11	55433289	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	6922096	55433289	79573227	159	57222										
OR8K5	219453	broad.mit.edu	37	chr11	55927467	55927467	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gacaggatgaaaaattcactGataatgaacataaggaagaa	9	4	1	4			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:55927467G>T	uc010rja.1	-	1	327	c.327C>A	c.(325-327)ATC>ATA	p.I109I		NM_001004058	NP_001004058	Q8NH50	OR8K5_HUMAN	olfactory receptor, family 8, subfamily K,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(21;0.00693)	Lung NSC(402;0.197)|all_epithelial(135;0.236)				AAAATTCACTGATAATGAACA	0.418													80	228	---	---	---	---	PASS	T	55927467	T	T	55927467	2	4	162	1	0	0	0	0	0	0	0	1	11245	1280	45	2		2	OR8K5	11	55927467	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	494178	55927467	79079049	160	57223										
MS4A2	2206	broad.mit.edu	37	chr11	59860957	59860957	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgatcatcaacctgaagaagAgcttggcctatatccacatc	7	11	2	4			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:59860957A>T	uc001nop.2	+	5	565	c.463A>T	c.(463-465)AGC>TGC	p.S155C	MS4A2_uc009ymu.2_Missense_Mutation_p.S155C	NM_000139	NP_000130	Q01362	FCERB_HUMAN	membrane-spanning 4-domains, subfamily A, member	155	Extracellular (Potential).				cell proliferation|humoral immune response	integral to plasma membrane	calcium channel activity			ovary(1)	1		all_epithelial(135;0.245)			Omalizumab(DB00043)	CCTGAAGAAGAGCTTGGCCTA	0.443													85	226	---	---	---	---	PASS	T	59860957	T	T	59860957	3	4	162	1	0	0	0	0	1	0	0	0	9860	304	11	5	481	5	MS4A2	11	59860957	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	3933490	59860957	75145559	161	57224										
AHNAK	79026	broad.mit.edu	37	chr11	62290332	62290332	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gggacctttcaactttccctCtgggccttcgatattcacat	7	13	3	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:62290332C>T	uc001ntl.2	-	5	11857	c.11557G>A	c.(11557-11559)GAG>AAG	p.E3853K	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3853					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				AACTTTCCCTCTGGGCCTTCG	0.493													237	524	---	---	---	---	PASS	T	62290332	T	T	62290332	3	4	162	1	0	0	0	0	1	0	0	0	414	922	32	2	6235	2	AHNAK	11	62290332	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	2429375	62290332	72716184	162	57225										
SAPS3	55291	broad.mit.edu	37	chr11	68337285	68337285	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aaatttgtattgcactgattCttgcaagtccttttgaaaac	6	7	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:68337285C>T	uc001onw.2	+	11	1465	c.1198C>T	c.(1198-1200)CTT>TTT	p.L400F	SAPS3_uc001onv.2_Missense_Mutation_p.L400F|SAPS3_uc001ony.3_Missense_Mutation_p.L400F|SAPS3_uc001onx.2_Missense_Mutation_p.L400F|SAPS3_uc009ysh.2_Missense_Mutation_p.L349F|SAPS3_uc001onu.2_Missense_Mutation_p.L349F|SAPS3_uc010rqc.1_Missense_Mutation_p.L168F|SAPS3_uc010rqd.1_Missense_Mutation_p.L112F	NM_001164161	NP_001157633	Q5H9R7	PP6R3_HUMAN	SAPS domain family, member 3 isoform 6	400					regulation of phosphoprotein phosphatase activity	cytoplasm|nucleus	protein phosphatase binding				0			LUAD - Lung adenocarcinoma(13;0.102)			TGCACTGATTCTTGCAAGTCC	0.328													96	258	---	---	---	---	PASS	T	68337285	T	T	68337285	3	4	162	1	0	0	0	0	1	0	0	0	13838	913	32	2	1232	2	SAPS3	11	68337285	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	6046953	68337285	66669231	163	57226										
GAB2	9846	broad.mit.edu	37	chr11	77936216	77936216	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gcctgcactctctccaccacGctgtgggtactcgtaggtct	10	15	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:77936216G>C	uc001ozh.2	-	5	1240	c.1240C>G	c.(1240-1242)CGT>GGT	p.R414G	GAB2_uc001ozg.2_Missense_Mutation_p.R376G	NM_080491	NP_536739	Q9UQC2	GAB2_HUMAN	GRB2-associated binding protein 2 isoform a	414					osteoclast differentiation|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mast cell degranulation	cytosol|plasma membrane	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|transmembrane receptor protein tyrosine kinase adaptor activity			ovary(5)|lung(1)	6	all_cancers(14;3.31e-18)|all_epithelial(13;5.3e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.58e-23)			TCTCCACCACGCTGTGGGTAC	0.532													21	95	---	---	---	---	PASS	C	77936216	C	C	77936216	3	2	162	1	0	0	0	0	1	0	0	0	6149	1087	38	4	814	4	GAB2	11	77936216	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	9598931	77936216	57070300	164	57227										
C11orf54	28970	broad.mit.edu	37	chr11	93494771	93494771	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acactactccagatatagtgGaatatcttggatacttctta	6	8	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:93494771G>A	uc009ywi.2	+	10	1196	c.865G>A	c.(865-867)GAA>AAA	p.E289K	C11orf54_uc001pef.2_Missense_Mutation_p.E239K|C11orf54_uc001peg.2_Missense_Mutation_p.E289K|C11orf54_uc001peh.2_Missense_Mutation_p.E289K|C11orf54_uc001pei.2_Missense_Mutation_p.E270K|C11orf54_uc001pej.2_Missense_Mutation_p.E270K|C11orf54_uc001pek.2_Missense_Mutation_p.E178K	NM_014039	NP_054758	Q9H0W9	CK054_HUMAN	hypothetical protein LOC28970	289						nucleus	hydrolase activity, acting on ester bonds|protein binding|zinc ion binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				AGATATAGTGGAATATCTTGG	0.398													15	268	---	---	---	---	PASS	A	93494771	A	A	93494771	3	1	162	1	0	0	0	0	1	0	0	0	1649	1175	41	2	741	2	C11orf54	11	93494771	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	15558555	93494771	41511745	165	57228										
HEPHL1	341208	broad.mit.edu	37	chr11	93822054	93822054	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ataagaactttttacatcgcCgctgaagaagtagaatggga	10	6	0	4			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:93822054C>A	uc001pep.2	+	12	2371	c.2214C>A	c.(2212-2214)GCC>GCA	p.A738A	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	738	Plastocyanin-like 5.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				TTTACATCGCCGCTGAAGAAG	0.532													51	152	---	---	---	---	PASS	A	93822054	A	A	93822054	2	1	162	1	0	0	0	0	0	0	0	1	7055	639	23	1		1	HEPHL1	11	93822054	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	327283	93822054	41184462	166	57229										
AASDHPPT	60496	broad.mit.edu	37	chr11	105962125	105962125	+	Nonsense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgaatttgatctatctccatTaaacttggatataggccaag	7	7	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:105962125T>G	uc001pjc.1	+	4	760	c.614T>G	c.(613-615)TTA>TGA	p.L205*	AASDHPPT_uc010rvn.1_RNA|AASDHPPT_uc001pjd.1_Nonsense_Mutation_p.L58*	NM_015423	NP_056238	Q9NRN7	ADPPT_HUMAN	aminoadipate-semialdehyde	205					macromolecule biosynthetic process|pantothenate metabolic process	cytosol	holo-[acyl-carrier-protein] synthase activity|magnesium ion binding|protein binding				0		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.78e-05)|Epithelial(105;0.00622)|all cancers(92;0.041)		CTATCTCCATTAAACTTGGAT	0.363													64	229	---	---	---	---	PASS	G	105962125	G	G	105962125	4	3	162	1	0	0	0	0	0	1	0	0	23	1764	61	5	628	5	AASDHPPT	11	105962125	Nonsense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	12140071	105962125	29044391	167	57230										
OR8B2	26595	broad.mit.edu	37	chr11	124253009	124253009	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttcattagcattttgggagtGaaaacagaggagtaacagag	12	4	1	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:124253009G>T	uc010sai.1	-	1	231	c.231C>A	c.(229-231)TTC>TTA	p.F77L	OR8B2_uc001qab.3_RNA	NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	77	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		TTTTGGGAGTGAAAACAGAGG	0.388													82	289	---	---	---	---	PASS	T	124253009	T	T	124253009	3	4	162	1	0	0	0	0	1	0	0	0	11227	1281	45	2	713	2	OR8B2	11	124253009	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	18290884	124253009	10753507	168	57231										
NCAPD3	23310	broad.mit.edu	37	chr11	134038017	134038017	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	agcttgatctcctttgagctGaggacctcaaacgtgtctga	10	10	3	4			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr11:134038017G>A	uc001qhd.1	-	27	4053	c.3447C>T	c.(3445-3447)CTC>CTT	p.L1149L	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA|NCAPD3_uc001qhc.1_Silent_p.L99L	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	1149					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		CCTTTGAGCTGAGGACCTCAA	0.488													71	188	---	---	---	---	PASS	A	134038017	A	A	134038017	2	1	162	1	0	0	0	0	0	0	0	1	10206	1277	45	2		2	NCAPD3	11	134038017	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	9785008	134038017	968499	169	57232										
CACNA1C	775	broad.mit.edu	37	chr12	2774864	2774864	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gaatctgggcagagtatgacCctgaagccaagtaagttccc	11	10	1	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:2774864C>T	uc009zdu.1	+	38	4973	c.4660C>T	c.(4660-4662)CCT>TCT	p.P1554S	CACNA1C_uc009zdv.1_Missense_Mutation_p.P1503S|CACNA1C_uc001qkb.2_Missense_Mutation_p.P1506S|CACNA1C_uc001qkc.2_Missense_Mutation_p.P1506S|CACNA1C_uc001qke.2_Missense_Mutation_p.P1495S|CACNA1C_uc001qkf.2_Missense_Mutation_p.P1495S|CACNA1C_uc001qjz.2_Missense_Mutation_p.P1506S|CACNA1C_uc001qkd.2_Missense_Mutation_p.P1506S|CACNA1C_uc001qkg.2_Missense_Mutation_p.P1493S|CACNA1C_uc009zdw.1_Missense_Mutation_p.P1528S|CACNA1C_uc001qkh.2_Missense_Mutation_p.P1495S|CACNA1C_uc001qkl.2_Missense_Mutation_p.P1554S|CACNA1C_uc001qkn.2_Missense_Mutation_p.P1506S|CACNA1C_uc001qko.2_Missense_Mutation_p.P1526S|CACNA1C_uc001qkp.2_Missense_Mutation_p.P1506S|CACNA1C_uc001qkr.2_Missense_Mutation_p.P1523S|CACNA1C_uc001qku.2_Missense_Mutation_p.P1506S|CACNA1C_uc001qkq.2_Missense_Mutation_p.P1534S|CACNA1C_uc001qks.2_Missense_Mutation_p.P1506S|CACNA1C_uc001qkt.2_Missense_Mutation_p.P1506S|CACNA1C_uc001qki.1_Missense_Mutation_p.P1242S|CACNA1C_uc001qkj.1_Missense_Mutation_p.P1242S|CACNA1C_uc001qkk.1_Missense_Mutation_p.P1242S|CACNA1C_uc001qkm.1_Missense_Mutation_p.P1231S|CACNA1C_uc010sea.1_Missense_Mutation_p.P197S	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1554	Cytoplasmic (Potential).|By similarity.				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	AGAGTATGACCCTGAAGCCAA	0.517													17	64	---	---	---	---	PASS	T	2774864	T	T	2774864	3	4	162	1	0	0	0	0	1	0	0	0	2540	623	22	3	4984	3	CACNA1C	12	2774864	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08		2774864	131077031	170	57233										
CACNA1C	775	broad.mit.edu	37	chr12	2788854	2788854	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	caccgccctgggtcgcctccCtcgccccgccggctacccca	9	24	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:2788854C>A	uc009zdu.1	+	44	5793	c.5480C>A	c.(5479-5481)CCT>CAT	p.P1827H	CACNA1C_uc009zdv.1_Missense_Mutation_p.P1776H|CACNA1C_uc001qkb.2_Missense_Mutation_p.P1779H|CACNA1C_uc001qkc.2_Missense_Mutation_p.P1798H|CACNA1C_uc001qke.2_Missense_Mutation_p.P1768H|CACNA1C_uc001qkf.2_Missense_Mutation_p.P1787H|CACNA1C_uc001qjz.2_Missense_Mutation_p.P1779H|CACNA1C_uc001qkd.2_Missense_Mutation_p.P1798H|CACNA1C_uc001qkg.2_Missense_Mutation_p.P1785H|CACNA1C_uc009zdw.1_Missense_Mutation_p.P1820H|CACNA1C_uc001qkh.2_Missense_Mutation_p.P1787H|CACNA1C_uc001qkl.2_Missense_Mutation_p.P1827H|CACNA1C_uc001qkn.2_Missense_Mutation_p.P1779H|CACNA1C_uc001qko.2_Missense_Mutation_p.P1799H|CACNA1C_uc001qkp.2_Missense_Mutation_p.P1779H|CACNA1C_uc001qkr.2_Missense_Mutation_p.P1796H|CACNA1C_uc001qku.2_Missense_Mutation_p.P1779H|CACNA1C_uc001qkq.2_Missense_Mutation_p.P1807H|CACNA1C_uc001qks.2_Missense_Mutation_p.P1779H|CACNA1C_uc001qkt.2_Missense_Mutation_p.P1798H|CACNA1C_uc001qki.1_Missense_Mutation_p.P1515H|CACNA1C_uc001qkj.1_Missense_Mutation_p.P1515H|CACNA1C_uc001qkk.1_Missense_Mutation_p.P1515H|CACNA1C_uc001qkm.1_Missense_Mutation_p.P1504H|CACNA1C_uc010sea.1_Missense_Mutation_p.P470H|uc001qkx.1_Intron|CACNA1C_uc001qky.1_Missense_Mutation_p.P97H	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1827	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GGTCGCCTCCCTCGCCCCGCC	0.682													13	10	---	---	---	---	PASS	A	2788854	A	A	2788854	3	1	162	1	0	0	0	0	1	0	0	0	2540	681	24	3	5885	3	CACNA1C	12	2788854	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	13990	2788854	131063041	171	57234										
KCNA6	3742	broad.mit.edu	37	chr12	4920492	4920492	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cggtaggttacggggacatgTaccccatgactgtgggggga	17	8	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:4920492T>A	uc001qng.2	+	1	2151	c.1285T>A	c.(1285-1287)TAC>AAC	p.Y429N		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	429						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						CGGGGACATGTACCCCATGAC	0.582										HNSCC(72;0.22)			59	149	---	---	---	---	PASS	A	4920492	A	A	4920492	3	1	162	1	0	0	0	0	1	0	0	0	8007	1638	57	5	1287	5	KCNA6	12	4920492	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	2131638	4920492	128931403	172	57235										
MANSC1	54682	broad.mit.edu	37	chr12	12483728	12483728	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctccaagtgatctgaggatcCaaacttctgagaaagtgtgt	10	8	2	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:12483728C>T	uc001rai.1	-	4	787	c.529G>A	c.(529-531)GGA>AGA	p.G177R	MANSC1_uc010shm.1_Missense_Mutation_p.G111R|MANSC1_uc001raj.1_Missense_Mutation_p.G143R|MANSC1_uc009zht.1_Missense_Mutation_p.G96R	NM_018050	NP_060520	Q9H8J5	MANS1_HUMAN	MANSC domain containing 1 precursor	177	Extracellular (Potential).					integral to membrane					0		Prostate(47;0.0865)		BRCA - Breast invasive adenocarcinoma(232;0.185)		TCTGAGGATCCAAACTTCTGA	0.433													54	162	---	---	---	---	PASS	T	12483728	T	T	12483728	3	4	162	1	0	0	0	0	1	0	0	0	9224	603	21	3	770	3	MANSC1	12	12483728	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	7563236	12483728	121368167	173	57236										
SENP1	29843	broad.mit.edu	37	chr12	48458880	48458880	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aggaaattcatcttcactatCagttaatttatgaccttttt	4	7	4	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:48458880C>G	uc001rqx.2	-	12	1689	c.1243G>C	c.(1243-1245)GAT>CAT	p.D415H	SENP1_uc001rqw.2_Missense_Mutation_p.D415H|SENP1_uc001rqy.2_Missense_Mutation_p.D216H|SENP1_uc001rqz.2_Missense_Mutation_p.D216H|SENP1_uc009zkx.2_Missense_Mutation_p.D415H	NM_014554	NP_055369	Q9P0U3	SENP1_HUMAN	sentrin/SUMO-specific protease 1	415					activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)				TCTTCACTATCAGTTAATTTA	0.333													15	53	---	---	---	---	PASS	G	48458880	G	G	48458880	3	3	162	1	0	0	0	0	1	0	0	0	14046	826	29	2	716	2	SENP1	12	48458880	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	35975152	48458880	85393015	174	57237										
KCNH3	23416	broad.mit.edu	37	chr12	49948271	49948271	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctgtaccccgagtttgccccGcgcttcagtcgtggcctccg	11	17	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:49948271G>T	uc001ruh.1	+	11	2330	c.2070G>T	c.(2068-2070)CCG>CCT	p.P690P	KCNH3_uc010smj.1_Silent_p.P630P	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	690	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						AGTTTGCCCCGCGCTTCAGTC	0.642													52	164	---	---	---	---	PASS	T	49948271	T	T	49948271	2	4	162	1	0	0	0	0	0	0	0	1	8033	1074	38	1		1	KCNH3	12	49948271	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	1489391	49948271	83903624	175	57238										
NEUROD4	58158	broad.mit.edu	37	chr12	55421134	55421134	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttttcaggctggtaccccccGttatgatgttcctatagaca	8	11	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:55421134G>A	uc001sgp.3	+	2	1289	c.911G>A	c.(910-912)CGT>CAT	p.R304H		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	304					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						GGTACCCCCCGTTATGATGTT	0.458													249	666	---	---	---	---	PASS	A	55421134	A	A	55421134	3	1	162	1	0	0	0	0	1	0	0	0	10350	1145	40	1	913	1	NEUROD4	12	55421134	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	5472863	55421134	78430761	176	57239										
LRRC10	376132	broad.mit.edu	37	chr12	70004126	70004126	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggtcctcagctcctggaggcGccggagctggcctggcagca	16	14	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:70004126G>A	uc001svc.2	-	1	817	c.493C>T	c.(493-495)CGC>TGC	p.R165C		NM_201550	NP_963844	Q5BKY1	LRC10_HUMAN	leucine rich repeat containing 10	165	LRR 5.					nucleus					0	all_cancers(2;2.83e-105)|Breast(13;9.83e-07)|Esophageal squamous(21;0.187)		Epithelial(6;1.98e-18)|GBM - Glioblastoma multiforme(2;7.43e-12)|Lung(24;0.000185)|OV - Ovarian serous cystadenocarcinoma(12;0.00126)|STAD - Stomach adenocarcinoma(21;0.00501)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			TCCTGGAGGCGCCGGAGCTGG	0.612													28	86	---	---	---	---	PASS	A	70004126	A	A	70004126	3	1	162	1	0	0	0	0	1	0	0	0	8967	1087	38	1	344	1	LRRC10	12	70004126	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	14582992	70004126	63847769	177	57240										
SYT1	6857	broad.mit.edu	37	chr12	79747301	79747301	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gcaagagaaattgggtgataTctgcttctcccttcgctacg	10	10	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:79747301T>C	uc001sys.2	+	10	1501	c.830T>C	c.(829-831)ATC>ACC	p.I277T	SYT1_uc001syt.2_Missense_Mutation_p.I277T|SYT1_uc001syu.2_Missense_Mutation_p.I274T|SYT1_uc001syv.2_Missense_Mutation_p.I277T	NM_001135805	NP_001129277	P21579	SYT1_HUMAN	synaptotagmin I	277	Cytoplasmic (Potential).|Phospholipid binding (Probable).				detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6						TTGGGTGATATCTGCTTCTCC	0.373													116	320	---	---	---	---	PASS	C	79747301	C	C	79747301	3	2	162	1	0	0	0	0	1	0	0	0	15462	1435	50	5	852	5	SYT1	12	79747301	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	9743175	79747301	54104594	178	57241										
DCN	1634	broad.mit.edu	37	chr12	91550874	91550874	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgaggaatgctggtgatattGgtatcagcaatgcggatgta	14	4	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:91550874G>T	uc001tbs.2	-	4	724	c.630C>A	c.(628-630)ACC>ACA	p.T210T	DCN_uc001tbo.2_Silent_p.T101T|DCN_uc001tbp.2_Intron|DCN_uc001tbq.2_Intron|DCN_uc001tbr.2_Intron|DCN_uc001tbt.2_Silent_p.T210T|DCN_uc001tbu.2_Silent_p.T210T	NM_133503	NP_598010	P07585	PGS2_HUMAN	decorin isoform a preproprotein	210	LRR 6.				organ morphogenesis	extracellular space				central_nervous_system(2)|ovary(1)|lung(1)	4						TGGTGATATTGGTATCAGCAA	0.373													5	309	---	---	---	---	PASS	T	91550874	T	T	91550874	2	4	162	1	0	0	0	0	0	0	0	1	4297	1335	47	3		3	DCN	12	91550874	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	11803573	91550874	42301021	179	57242										
METAP2	10988	broad.mit.edu	37	chr12	95907432	95907432	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gattttctcctcttaggcttCcaagaacaaaacacttgtta	5	10	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:95907432C>T	uc001tec.2	+	11	1323	c.1189C>T	c.(1189-1191)CCA>TCA	p.P397S	METAP2_uc010suv.1_Missense_Mutation_p.P374S|METAP2_uc009ztd.2_Missense_Mutation_p.P361S|METAP2_uc001ted.2_Missense_Mutation_p.P396S|METAP2_uc001tef.2_Missense_Mutation_p.P374S|METAP2_uc001tee.2_RNA	NM_006838	NP_006829	P50579	AMPM2_HUMAN	methionyl aminopeptidase 2	397					N-terminal protein amino acid modification|peptidyl-methionine modification|protein processing|proteolysis	cytoplasm	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0					L-Methionine(DB00134)	TCTTAGGCTTCCAAGAACAAA	0.408													56	169	---	---	---	---	PASS	T	95907432	T	T	95907432	3	4	162	1	0	0	0	0	1	0	0	0	9487	855	30	2	1231	2	METAP2	12	95907432	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	4356558	95907432	37944463	180	57243										
NTN4	59277	broad.mit.edu	37	chr12	96076537	96076537	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctcccactcccaggctggttCgctcttattgtgcacgggac	10	15	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:96076537C>T	uc001tei.2	-	7	1905	c.1456G>A	c.(1456-1458)GAA>AAA	p.E486K	NTN4_uc009ztf.2_Missense_Mutation_p.E486K|NTN4_uc009ztg.2_Missense_Mutation_p.E449K	NM_021229	NP_067052	Q9HB63	NET4_HUMAN	netrin 4 precursor	486					axon guidance	basement membrane|plasma membrane				upper_aerodigestive_tract(1)|ovary(1)	2						CAGGCTGGTTCGCTCTTATTG	0.458													56	109	---	---	---	---	PASS	T	96076537	T	T	96076537	3	4	162	1	0	0	0	0	1	0	0	0	10702	893	31	2	446	2	NTN4	12	96076537	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	169105	96076537	37775358	181	57244										
GAS2L3	283431	broad.mit.edu	37	chr12	101005805	101005805	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	caatgagaaaagtgccctgtAagaaagatgctgcatcaggt	11	7	1	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:101005805A>T	uc001thu.2	+	6	557	c.331A>T	c.(331-333)AAG>TAG	p.K111*	GAS2L3_uc009zty.2_Nonsense_Mutation_p.K111*|GAS2L3_uc001thv.2_Nonsense_Mutation_p.K7*	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	111	CH.				cell cycle arrest					skin(1)	1						AGTGCCCTGTAAGAAAGATGC	0.363													62	189	---	---	---	---	PASS	T	101005805	T	T	101005805	4	4	162	1	0	0	0	0	0	1	0	0	6248	363	13	5	345	5	GAS2L3	12	101005805	Nonsense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	4929268	101005805	32846090	182	57245										
GOLGA3	2802	broad.mit.edu	37	chr12	133372541	133372541	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctcctctgtcaagctcctccTtgccactcttggccgcctgc	7	19	3	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr12:133372541T>G	uc001ukz.1	-	11	2925	c.2366A>C	c.(2365-2367)AAG>ACG	p.K789T	GOLGA3_uc001ula.1_Missense_Mutation_p.K789T|GOLGA3_uc001ulb.2_Missense_Mutation_p.K789T	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	789	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		AAGCTCCTCCTTGCCACTCTT	0.552													53	144	---	---	---	---	PASS	G	133372541	G	G	133372541	3	3	162	1	0	0	0	0	1	0	0	0	6554	1609	56	5	2324	5	GOLGA3	12	133372541	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	32366736	133372541	479354	183	57246										
RB1	5925	broad.mit.edu	37	chr13	48953728	48953728	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttttctttttgtttgtttgtAgcgatacaaacttggagttc	8	5	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr13:48953728A>G	uc001vcb.2	+	14	1499	c.1333_splice	c.e14-2	p.R445_splice		NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1						androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(7)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GTTTGTTTGTAGCGATACAAA	0.204		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			10	23	---	---	---	---	PASS	G	48953728	G	G	48953728	5	3	162	1	0	0	0	0	0	0	1	0	13098	434	15	5	1385	5	RB1	13	48953728	Splice_Site	SNP	A	TCGA-66-2783-01A-01D-1267-08		48953728	66216150	184	57247										
KLF5	688	broad.mit.edu	37	chr13	73649905	73649905	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ggaggttcgcgcgatcggatGagctgacccgccactaccgg	15	13	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr13:73649905G>C	uc001vje.2	+	4	1579	c.1255G>C	c.(1255-1257)GAG>CAG	p.E419Q	KLF5_uc001vjd.2_Missense_Mutation_p.E328Q	NM_001730	NP_001721	Q13887	KLF5_HUMAN	Kruppel-like factor 5	419	C2H2-type 2.				transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|pancreas(1)	3		Prostate(6;0.00187)|Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.0011)		GCGATCGGATGAGCTGACCCG	0.592													38	54	---	---	---	---	PASS	C	73649905	C	C	73649905	3	2	162	1	0	0	0	0	1	0	0	0	8349	1291	45	2	1269	2	KLF5	13	73649905	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	24696177	73649905	41519973	185	57248										
NALCN	259232	broad.mit.edu	37	chr13	101726913	101726913	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	taccaaataaaacaactccaGcaaaagcgtaacacagcagc	5	12	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr13:101726913G>T	uc001vox.1	-	36	4244	c.4055C>A	c.(4054-4056)GCT>GAT	p.A1352D		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1352	Helical; Name=S5 of repeat IV; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AACAACTCCAGCAAAAGCGTA	0.378													49	80	---	---	---	---	PASS	T	101726913	T	T	101726913	3	4	162	1	0	0	0	0	1	0	0	0	10148	971	34	3	1197	3	NALCN	13	101726913	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	28077008	101726913	13442965	186	57249										
LIG4	3981	broad.mit.edu	37	chr13	108861232	108861232	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cgatattctaaatcagcaatCagagaagccatttcttcagg	7	9	5	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr13:108861232C>A	uc001vqn.2	-	2	2658	c.2385G>T	c.(2383-2385)CTG>CTT	p.L795L	LIG4_uc001vqo.2_Silent_p.L795L|LIG4_uc010agg.1_Silent_p.L728L|LIG4_uc010agf.2_Silent_p.L795L|LIG4_uc001vqp.2_Silent_p.L795L	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	795					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					AATCAGCAATCAGAGAAGCCA	0.393								NHEJ					65	57	---	---	---	---	PASS	A	108861232	A	A	108861232	2	1	162	1	0	0	0	0	0	0	0	1	8783	813	29	2		2	LIG4	13	108861232	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	7134319	108861232	6308646	187	57250										
MYH7	4625	broad.mit.edu	37	chr14	23886840	23886840	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctccagcgaggagcacttggCattaacagcctccacggcct	10	15	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr14:23886840C>T	uc001wjx.2	-	31	4331	c.4225G>A	c.(4225-4227)GCC>ACC	p.A1409T		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1409	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		GAGCACTTGGCATTAACAGCC	0.622													25	78	---	---	---	---	PASS	T	23886840	T	T	23886840	3	4	162	1	0	0	0	0	1	0	0	0	10039	710	25	3	1622	3	MYH7	14	23886840	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08		23886840	83462700	188	57251										
DHRS4L1	728635	broad.mit.edu	37	chr14	24517986	24517986	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cattagggtgaactgcctagCacctggacttatcaagacta	9	10	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr14:24517986C>A	uc010alc.2	+	8	641	c.641C>A	c.(640-642)GCA>GAA	p.A214E	DHRS4L1_uc010tnu.1_RNA	NM_001082488	NP_001075957	P0CG22	DR4L1_HUMAN	dehydrogenase/reductase (SDR family) member 4	214							binding|oxidoreductase activity				0						AACTGCCTAGCACCTGGACTT	0.527													5	472	---	---	---	---	PASS	A	24517986	A	A	24517986	3	1	162	1	0	0	0	0	1	0	0	0	4493	710	25	3	671	3	DHRS4L1	14	24517986	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	631146	24517986	82831554	189	57252										
DLGAP5	9787	broad.mit.edu	37	chr14	55642126	55642126	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tcatttctttcaagtgatggGacttcttttattggaaggcc	9	7	4	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr14:55642126G>A	uc001xbs.2	-	10	1456	c.1239C>T	c.(1237-1239)GTC>GTT	p.V413V	DLGAP5_uc001xbt.2_Silent_p.V413V	NM_014750	NP_055565	Q15398	DLGP5_HUMAN	discs large homolog 7 isoform a	413					cell proliferation|cell-cell signaling|mitotic chromosome movement towards spindle pole|positive regulation of mitotic metaphase/anaphase transition	nucleus|spindle pole centrosome	phosphoprotein phosphatase activity|protein binding			ovary(1)|skin(1)	2						CAAGTGATGGGACTTCTTTTA	0.303													11	43	---	---	---	---	PASS	A	55642126	A	A	55642126	2	1	162	1	0	0	0	0	0	0	0	1	4563	1161	41	2		2	DLGAP5	14	55642126	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	31124140	55642126	51707414	190	57253										
DACT1	51339	broad.mit.edu	37	chr14	59105230	59105230	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gtcgcctggaggagaagttcTtggaggagaacatcttgctg	15	7	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr14:59105230T>A	uc001xdw.2	+	1	474	c.310T>A	c.(310-312)TTG>ATG	p.L104M	DACT1_uc010trv.1_Intron|DACT1_uc001xdx.2_Missense_Mutation_p.L104M|DACT1_uc010trw.1_5'Flank	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	104	Potential.				multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						GGAGAAGTTCTTGGAGGAGAA	0.483													14	31	---	---	---	---	PASS	A	59105230	A	A	59105230	3	1	162	1	0	0	0	0	1	0	0	0	4222	1606	56	5	312	5	DACT1	14	59105230	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	3463104	59105230	48244310	191	57254										
SERPINA11	256394	broad.mit.edu	37	chr14	94909437	94909437	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tggagatggttttgttgagcTgcccagtgactcctgagaag	14	7	0	4			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr14:94909437T>A	uc001ydd.1	-	4	1103	c.1043A>T	c.(1042-1044)CAG>CTG	p.Q348L		NM_001080451	NP_001073920	Q86U17	SPA11_HUMAN	serpin peptidase inhibitor, clade A (alpha-1	348					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			kidney(1)	1				COAD - Colon adenocarcinoma(157;0.211)		TTTGTTGAGCTGCCCAGTGAC	0.448													90	306	---	---	---	---	PASS	A	94909437	A	A	94909437	3	1	162	1	0	0	0	0	1	0	0	0	14088	1580	55	5	233	5	SERPINA11	14	94909437	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	35804207	94909437	12440103	192	57255										
SERPINA4	5267	broad.mit.edu	37	chr14	95033547	95033547	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	agaggttctgactccagagaTgctaatgaggtggaacaact	12	7	1	4			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr14:95033547T>C	uc001ydk.2	+	3	956	c.890T>C	c.(889-891)ATG>ACG	p.M297T	SERPINA4_uc010avd.2_Missense_Mutation_p.M334T|SERPINA4_uc001ydl.2_Missense_Mutation_p.M297T	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	297					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		ACTCCAGAGATGCTAATGAGG	0.438													47	115	---	---	---	---	PASS	C	95033547	C	C	95033547	3	2	162	1	0	0	0	0	1	0	0	0	14091	1464	51	5	896	5	SERPINA4	14	95033547	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	124110	95033547	12315993	193	57256										
BTBD6	90135	broad.mit.edu	37	chr14	105716320	105716320	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aggccgtcctgaactgggccGaggcggagtgcaagaggcag	18	10	0	2	rs140283852		TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr14:105716320G>A	uc010tyq.1	+	5	877	c.769G>A	c.(769-771)GAG>AAG	p.E257K	BRF1_uc010tyo.1_Intron|BRF1_uc010typ.1_Intron|BRF1_uc001yql.2_5'Flank|BRF1_uc001yqo.2_5'Flank|BRF1_uc010axg.1_Intron|BRF1_uc001yqp.2_Intron|BRF1_uc001yqn.2_5'Flank|BRF1_uc010axh.1_5'Flank|BRF1_uc010axj.1_5'Flank	NM_033271	NP_150374	Q96KE9	BTBD6_HUMAN	BTB domain protein BDPL	257						cytoplasmic mRNA processing body					0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.0163)|Epithelial(46;0.0391)	Epithelial(152;0.18)		GAACTGGGCCGAGGCGGAGTG	0.597													21	45	---	---	---	---	PASS	A	105716320	A	A	105716320	3	1	162	1	0	0	0	0	1	0	0	0	1545	1059	37	2	783	2	BTBD6	14	105716320	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	10682773	105716320	1633220	194	57257										
TRPM1	4308	broad.mit.edu	37	chr15	31294626	31294626	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tagtgccttctatatttgtcGtttccactgttagctgagtg	9	8	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr15:31294626G>T	uc001zfm.2	-	27	4339	c.4211C>A	c.(4210-4212)ACG>AAG	p.T1404K	TRPM1_uc010azy.2_Missense_Mutation_p.T1311K|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1404	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		TATATTTGTCGTTTCCACTGT	0.363													198	171	---	---	---	---	PASS	T	31294626	T	T	31294626	3	4	162	1	0	0	0	0	1	0	0	0	16582	1145	40	1	604	1	TRPM1	15	31294626	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08		31294626	71236766	195	57258										
C15orf54	400360	broad.mit.edu	37	chr15	39544396	39544396	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	agaccccagagggctgagccGcaaagaatttgcagagcctt	12	11	0	5			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr15:39544396G>A	uc001zkg.2	+	2	428	c.60G>A	c.(58-60)CCG>CCA	p.P20P		NM_207445	NP_997328	Q8N8G6	CO054_HUMAN	hypothetical protein LOC400360	20											0		all_cancers(109;5.39e-14)|all_epithelial(112;3.14e-12)|Lung NSC(122;9.74e-10)|all_lung(180;2.23e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;1.19e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0706)		GGGCTGAGCCGCAAAGAATTT	0.468													7	864	---	---	---	---	PASS	A	39544396	A	A	39544396	2	1	162	1	0	0	0	0	0	0	0	1	1802	1074	38	1		1	C15orf54	15	39544396	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	8249770	39544396	62986996	196	57259										
PLA2G4F	255189	broad.mit.edu	37	chr15	42445844	42445844	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tccagaacaaattccacctgCagctcttgtgaatcctacat	5	13	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr15:42445844C>T	uc001zoz.2	-	5	528	c.465G>A	c.(463-465)CTG>CTA	p.L155L	PLA2G4F_uc010bcr.2_5'UTR|PLA2G4F_uc001zpa.2_5'UTR|PLA2G4F_uc010bcs.2_5'UTR	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	155					phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		ATTCCACCTGCAGCTCTTGTG	0.552													33	96	---	---	---	---	PASS	T	42445844	T	T	42445844	2	4	162	1	0	0	0	0	0	0	0	1	12006	697	25	3		3	PLA2G4F	15	42445844	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	2901448	42445844	60085548	197	57260										
EPB42	2038	broad.mit.edu	37	chr15	43494124	43494124	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gggggcatctagggagttctGgaggctgactgaggctgtga	19	6	2	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr15:43494124G>A	uc001zra.3	-	12	2131	c.1831C>T	c.(1831-1833)CAG>TAG	p.Q611*	EPB42_uc001zqz.3_Nonsense_Mutation_p.Q278*|EPB42_uc010bde.2_Missense_Mutation_p.P402L|EPB42_uc001zrb.3_Nonsense_Mutation_p.Q641*|EPB42_uc010udm.1_Nonsense_Mutation_p.Q533*	NM_001114134	NP_001107606	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2 isoform 2	611					erythrocyte maturation|peptide cross-linking|regulation of cell shape	cytoplasm|cytoskeleton|plasma membrane	ATP binding|protein binding|protein-glutamine gamma-glutamyltransferase activity|structural constituent of cytoskeleton			ovary(2)	2		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		AGGGAGTTCTGGAGGCTGACT	0.562													83	219	---	---	---	---	PASS	A	43494124	A	A	43494124	4	1	162	1	0	0	0	0	0	1	0	0	5158	1357	47	3	252	3	EPB42	15	43494124	Nonsense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	1048280	43494124	59037268	198	57261										
PYGO1	26108	broad.mit.edu	37	chr15	55838815	55838815	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aaagtgtttgggggaggaatAaaagaatgattagattctaa	12	1	1	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr15:55838815A>G	uc010bfl.1	-	3	722	c.666T>C	c.(664-666)TTT>TTC	p.F222F	PYGO1_uc002adf.1_Silent_p.F222F	NM_015617	NP_056432	Q9Y3Y4	PYGO1_HUMAN	pygopus homolog 1	222	Asn-rich.				Wnt receptor signaling pathway	nucleus	zinc ion binding			ovary(1)|skin(1)	2				all cancers(107;0.0131)|GBM - Glioblastoma multiforme(80;0.18)		GGGGAGGAATAAAAGAATGAT	0.383													99	297	---	---	---	---	PASS	G	55838815	G	G	55838815	2	3	162	1	0	0	0	0	0	0	0	1	12863	359	13	5		5	PYGO1	15	55838815	Silent	SNP	A	TCGA-66-2783-01A-01D-1267-08	12344691	55838815	46692577	199	57262										
SRRM2	23524	broad.mit.edu	37	chr16	2811974	2811974	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	taccccctcccgtaggatggGgaggtcccgtagccctgcca	12	16	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:2811974G>T	uc002crk.2	+	11	1994	c.1445G>T	c.(1444-1446)GGG>GTG	p.G482V	SRRM2_uc002crj.1_Missense_Mutation_p.G386V|SRRM2_uc002crl.1_Missense_Mutation_p.G482V|SRRM2_uc010bsu.1_Missense_Mutation_p.G386V	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	482	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CGTAGGATGGGGAGGTCCCGT	0.562													37	119	---	---	---	---	PASS	T	2811974	T	T	2811974	3	4	162	1	0	0	0	0	1	0	0	0	15168	1232	43	3	1483	3	SRRM2	16	2811974	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08		2811974	87542779	200	57263										
CLEC16A	23274	broad.mit.edu	37	chr16	11056372	11056372	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atcttgcggcaaaagtcgggCcgttacgtgtgcgttcagct	13	10	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:11056372C>T	uc002dao.2	+	3	500	c.270C>T	c.(268-270)GGC>GGT	p.G90G	CLEC16A_uc002dan.3_Silent_p.G90G	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	90										ovary(1)|central_nervous_system(1)	2						AAAAGTCGGGCCGTTACGTGT	0.473													96	253	---	---	---	---	PASS	T	11056372	T	T	11056372	2	4	162	1	0	0	0	0	0	0	0	1	3500	726	26	3		3	CLEC16A	16	11056372	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	8244398	11056372	79298381	201	57264										
SETD1A	9739	broad.mit.edu	37	chr16	30978880	30978880	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgaggaaaagaggcctcgtcCctccactcctgctgaggaag	12	12	0	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:30978880C>T	uc002ead.1	+	10	3427	c.2741C>T	c.(2740-2742)CCC>CTC	p.P914L		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	914	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						AGGCCTCGTCCCTCCACTCCT	0.557													39	61	---	---	---	---	PASS	T	30978880	T	T	30978880	3	4	162	1	0	0	0	0	1	0	0	0	14130	623	22	3	2775	3	SETD1A	16	30978880	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	19922508	30978880	59375873	202	57265										
ITGAX	3687	broad.mit.edu	37	chr16	31391090	31391090	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctgtgcaggtcaataacctgGgacagagggacctgcctgtc	13	11	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:31391090G>T	uc002ebu.1	+	25	2948	c.2881G>T	c.(2881-2883)GGA>TGA	p.G961*	ITGAX_uc002ebt.2_Nonsense_Mutation_p.G961*	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	961	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CAATAACCTGGGACAGAGGGA	0.632													25	54	---	---	---	---	PASS	T	31391090	T	T	31391090	4	4	162	1	0	0	0	0	0	1	0	0	7889	1233	43	3	2979	3	ITGAX	16	31391090	Nonsense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	412210	31391090	58963663	203	57266										
SHCBP1	79801	broad.mit.edu	37	chr16	46638350	46638350	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	caataagtcctgatggaactCggtcttcaagaatgtcataa	8	8	3	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:46638350C>G	uc002eec.3	-	6	753	c.713G>C	c.(712-714)CGA>CCA	p.R238P		NM_024745	NP_079021	Q8NEM2	SHCBP_HUMAN	SHC SH2-domain binding protein 1	238										ovary(1)|breast(1)	2		all_cancers(37;0.00404)|all_epithelial(9;0.00527)|all_lung(18;0.0413)|Lung NSC(13;0.213)				TGATGGAACTCGGTCTTCAAG	0.383													64	251	---	---	---	---	PASS	G	46638350	G	G	46638350	3	3	162	1	0	0	0	0	1	0	0	0	14274	884	31	2	1337	2	SHCBP1	16	46638350	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	15247260	46638350	43716403	204	57267										
GPT2	84706	broad.mit.edu	37	chr16	46962845	46962845	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tatcctccctccagtggagaAgctgaaaacggtgctgcaga	11	11	0	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:46962845A>T	uc002eel.2	+	12	1602	c.1508A>T	c.(1507-1509)AAG>ATG	p.K503M	GPT2_uc002eem.2_Missense_Mutation_p.K403M|GPT2_uc002een.2_Missense_Mutation_p.K146M	NM_133443	NP_597700	Q8TD30	ALAT2_HUMAN	glutamic pyruvate transaminase 2 isoform 1	503					2-oxoglutarate metabolic process|cellular amino acid biosynthetic process|L-alanine metabolic process	mitochondrial matrix	L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2		all_cancers(37;0.0276)|all_epithelial(9;0.0498)|all_lung(18;0.0522)			L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CCAGTGGAGAAGCTGAAAACG	0.562													27	81	---	---	---	---	PASS	T	46962845	T	T	46962845	3	4	162	1	0	0	0	0	1	0	0	0	6738	72	3	5	1550	5	GPT2	16	46962845	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	324495	46962845	43391908	205	57268										
ABCC12	94160	broad.mit.edu	37	chr16	48130667	48130667	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	caggcattacctggatgatgTatgacaatgacaggcctttg	11	8	0	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:48130667T>C	uc002efc.1	-	22	3531	c.3185A>G	c.(3184-3186)TAC>TGC	p.Y1062C	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1062	ABC transmembrane type-1 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CTGGATGATGTATGACAATGA	0.398													145	391	---	---	---	---	PASS	C	48130667	C	C	48130667	3	2	162	1	0	0	0	0	1	0	0	0	52	1638	57	5	926	5	ABCC12	16	48130667	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	1167822	48130667	42224086	206	57269										
BRD7	29117	broad.mit.edu	37	chr16	50357560	50357560	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	taaaacatccagtaaactatCtgccatgacatacggataat	5	9	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:50357560C>G	uc002egf.1	-	13	1448	c.1381G>C	c.(1381-1383)GAT>CAT	p.D461H	BRD7_uc002ege.1_Missense_Mutation_p.D461H	NM_013263	NP_037395	Q9NPI1	BRD7_HUMAN	bromodomain containing 7	461					cell cycle|negative regulation of cell proliferation|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of histone acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleus	histone acetyl-lysine binding|p53 binding|transcription coactivator activity|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding				0		all_cancers(37;0.0127)				AGTAAACTATCTGCCATGACA	0.413													31	81	---	---	---	---	PASS	G	50357560	G	G	50357560	3	3	162	1	0	0	0	0	1	0	0	0	1505	913	32	2	601	2	BRD7	16	50357560	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	2226893	50357560	39997193	207	57270										
SLC12A3	6559	broad.mit.edu	37	chr16	56947293	56947293	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atccgaggaaaccaggaaaaCgtgctcaccttttactgcca	8	12	1	0	rs149767532	byFrequency	TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:56947293C>T	uc010ccm.2	+	26	3071	c.3042C>T	c.(3040-3042)AAC>AAT	p.N1014N	SLC12A3_uc002ekd.3_Silent_p.N1023N|SLC12A3_uc010ccn.2_Silent_p.N1022N	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	1014	Cytoplasmic (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	ACCAGGAAAACGTGCTCACCT	0.552													48	209	---	---	---	---	PASS	T	56947293	T	T	56947293	2	4	162	1	0	0	0	0	0	0	0	1	14384	535	19	1		1	SLC12A3	16	56947293	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	6589733	56947293	33407460	208	57271										
CDH11	1009	broad.mit.edu	37	chr16	64981585	64981585	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gaggtccccagttctgtagaTaatcatagtccaagtctgaa	9	9	3	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:64981585T>C	uc002eoi.2	-	13	2746	c.2312A>G	c.(2311-2313)TAT>TGT	p.Y771C	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_3'UTR|CDH11_uc010vin.1_Missense_Mutation_p.Y645C	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	771	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		GTTCTGTAGATAATCATAGTC	0.453			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			62	191	---	---	---	---	PASS	C	64981585	C	C	64981585	3	2	162	1	0	0	0	0	1	0	0	0	3097	1406	49	5	82	5	CDH11	16	64981585	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	8034292	64981585	25373168	209	57272										
CDH5	1003	broad.mit.edu	37	chr16	66430103	66430103	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gccaaagaactggattccacTggtgagtggccacatctgcc	11	12	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:66430103T>A	uc002eom.3	+	8	1515	c.1359T>A	c.(1357-1359)ACT>ACA	p.T453T		NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	453	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		TGGATTCCACTGGTGAGTGGC	0.453													33	96	---	---	---	---	PASS	A	66430103	A	A	66430103	2	1	162	1	0	0	0	0	0	0	0	1	3113	1594	55	5		5	CDH5	16	66430103	Silent	SNP	T	TCGA-66-2783-01A-01D-1267-08	1448518	66430103	23924650	210	57273										
ZFP90	146198	broad.mit.edu	37	chr16	68591960	68591960	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	caggaagaatggtaccatgtCgaccctgctcagaggagctt	12	10	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:68591960C>T	uc010cff.2	+	3	385	c.93C>T	c.(91-93)GTC>GTT	p.V31V	ZFP90_uc002ewb.2_5'UTR|ZFP90_uc002ewc.2_5'UTR|ZFP90_uc002ewd.2_Silent_p.V31V|ZFP90_uc002ewe.2_Silent_p.V31V	NM_133458	NP_597715	Q8TF47	ZFP90_HUMAN	zinc finger protein 90	31	KRAB.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00233)|Epithelial(162;0.0184)|all cancers(182;0.0946)		GGTACCATGTCGACCCTGCTC	0.478													78	278	---	---	---	---	PASS	T	68591960	T	T	68591960	2	4	162	1	0	0	0	0	0	0	0	1	17651	871	31	2		2	ZFP90	16	68591960	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	2161857	68591960	21762793	211	57274										
FBXO31	79791	broad.mit.edu	37	chr16	87367769	87367769	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctcctggcgcaccctctcgcGcacctccaggacgatgcggg	12	18	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:87367769G>A	uc002fjw.2	-	8	1164	c.1120C>T	c.(1120-1122)CGC>TGC	p.R374C	FBXO31_uc010vot.1_Missense_Mutation_p.R202C|FBXO31_uc002fjv.2_Missense_Mutation_p.R266C	NM_024735	NP_079011	Q5XUX0	FBX31_HUMAN	F-box protein 31	374					cell cycle|cyclin catabolic process|mitotic cell cycle G1/S transition DNA damage checkpoint|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	SCF ubiquitin ligase complex	cyclin binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0272)		ACCCTCTCGCGCACCTCCAGG	0.697													4	105	---	---	---	---	PASS	A	87367769	A	A	87367769	3	1	162	1	0	0	0	0	1	0	0	0	5741	1087	38	1	507	1	FBXO31	16	87367769	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	18775809	87367769	2986984	212	57275										
KLHDC4	54758	broad.mit.edu	37	chr16	87748109	87748109	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gcacagcacctctaccttctCttccgtcctctggcttcagc	6	18	4	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr16:87748109C>A	uc002fki.2	-	8	876	c.830G>T	c.(829-831)AGA>ATA	p.R277I	KLHDC4_uc010cht.1_Missense_Mutation_p.R96I|KLHDC4_uc002fkj.2_Missense_Mutation_p.R246I|KLHDC4_uc002fkk.2_Missense_Mutation_p.R96I|KLHDC4_uc002fkl.2_Missense_Mutation_p.R220I|KLHDC4_uc010chu.1_Missense_Mutation_p.R96I	NM_017566	NP_060036	Q8TBB5	KLDC4_HUMAN	kelch domain containing 4	277	Kelch 4.									pancreas(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0283)		TCTACCTTCTCTTCCGTCCTC	0.592													85	249	---	---	---	---	PASS	A	87748109	A	A	87748109	3	1	162	1	0	0	0	0	1	0	0	0	8358	913	32	2	748	2	KLHDC4	16	87748109	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	380340	87748109	2606644	213	57276										
TP53	7157	broad.mit.edu	37	chr17	7574035	7574035	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	agcgctcacgcccacggatcTgcagcaacagaggaggggga	15	12	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr17:7574035T>C	uc002gim.2	-	10	1188	c.994_splice	c.e10-1	p.I332_splice	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_Splice_Site|TP53_uc010cng.1_Splice_Site|TP53_uc002gii.1_Splice_Site_p.I200_splice|TP53_uc010cnh.1_Splice_Site|TP53_uc010cni.1_Splice_Site|TP53_uc002gij.2_Splice_Site_p.I332_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						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.0?(7)|p.?(6)|p.I332fs*49(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)		CCCACGGATCTGCAGCAACAG	0.398		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)			13	22	---	---	---	---	PASS	C	7574035	C	C	7574035	5	2	162	1	0	0	0	0	0	0	1	0	16378	1594	55	5	197	5	TP53	17	7574035	Splice_Site	SNP	T	TCGA-66-2783-01A-01D-1267-08		7574035	73621175	214	57277										
DNAH9	1770	broad.mit.edu	37	chr17	11784584	11784584	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccaagttccggctcatcctcCacaccaagctggctaatcct	6	17	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr17:11784584C>G	uc002gne.2	+	55	10728	c.10660C>G	c.(10660-10662)CAC>GAC	p.H3554D	DNAH9_uc010coo.2_Missense_Mutation_p.H2848D|DNAH9_uc002gnf.2_5'Flank	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3554	AAA 5 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GCTCATCCTCCACACCAAGCT	0.512													71	105	---	---	---	---	PASS	G	11784584	G	G	11784584	3	3	162	1	0	0	0	0	1	0	0	0	4608	594	21	4	10878	4	DNAH9	17	11784584	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	4210549	11784584	69410626	215	57278										
ACCN1	40	broad.mit.edu	37	chr17	32483483	32483483	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cggatgccatggagggtggaGgtgttggcaaagatctggat	18	5	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr17:32483483G>T	uc002hhu.2	-	1	343	c.69C>A	c.(67-69)ACC>ACA	p.T23T		NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	23	Cytoplasmic (By similarity).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	GGAGGGTGGAGGTGTTGGCAA	0.622													23	63	---	---	---	---	PASS	T	32483483	T	T	32483483	2	4	162	1	0	0	0	0	0	0	0	1	128	987	35	3		3	ACCN1	17	32483483	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	20698899	32483483	48711727	216	57279										
PLEKHH3	79990	broad.mit.edu	37	chr17	40823051	40823051	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cgtcggccacgagggtccccCcagccagggctcgctcctgg	14	18	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr17:40823051C>T	uc002iau.2	-	9	1849	c.1382G>A	c.(1381-1383)GGG>GAG	p.G461E	PLEKHH3_uc010cyl.1_Intron|PLEKHH3_uc002iat.1_RNA|PLEKHH3_uc002iav.2_RNA|PLEKHH3_uc010cym.1_Intron|PLEKHH3_uc002iaw.2_Missense_Mutation_p.G461E	NM_024927	NP_079203	Q7Z736	PKHH3_HUMAN	pleckstrin homology domain containing, family H	461	FERM.				signal transduction	cytoskeleton				large_intestine(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.14)		GAGGGTCCCCCCAGCCAGGGC	0.652													57	120	---	---	---	---	PASS	T	40823051	T	T	40823051	3	4	162	1	0	0	0	0	1	0	0	0	12078	623	22	3	1019	3	PLEKHH3	17	40823051	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	8339568	40823051	40372159	217	57280										
BRIP1	83990	broad.mit.edu	37	chr17	59885947	59885947	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cattggaacccctgaatatgCcgtcctccggagctctctag	9	14	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr17:59885947C>T	uc002izk.1	-	7	940	c.799G>A	c.(799-801)GCA>ACA	p.A267T		NM_032043	NP_114432	Q9BX63	FANCJ_HUMAN	BRCA1 interacting protein C-terminal helicase 1	267	Helicase ATP-binding.				DNA damage checkpoint|double-strand break repair|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(1)	1						CCTGAATATGCCGTCCTCCGG	0.443			F|N|Mis			AML|leukemia|breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				5	299	---	---	---	---	PASS	T	59885947	T	T	59885947	3	4	162	1	0	0	0	0	1	0	0	0	1514	739	26	3	3006	3	BRIP1	17	59885947	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	19062896	59885947	21309263	218	57281										
KCNH6	81033	broad.mit.edu	37	chr17	61615851	61615851	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctgctgcagcactgcccagcTttcagcggcgccggcaaggg	14	15	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr17:61615851T>C	uc002jay.2	+	8	1862	c.1782T>C	c.(1780-1782)GCT>GCC	p.A594A	KCNH6_uc010wpl.1_Silent_p.A471A|KCNH6_uc010wpm.1_Silent_p.A594A|KCNH6_uc002jaz.1_Silent_p.A541A	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	594	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	ACTGCCCAGCTTTCAGCGGCG	0.701													4	10	---	---	---	---	PASS	C	61615851	C	C	61615851	2	2	162	1	0	0	0	0	0	0	0	1	8036	1596	56	5		5	KCNH6	17	61615851	Silent	SNP	T	TCGA-66-2783-01A-01D-1267-08	1729904	61615851	19579359	219	57282										
OTOP2	92736	broad.mit.edu	37	chr17	72923807	72923807	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	caacctggccatctggatggCggccgtggtggatgaatctg	15	10	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr17:72923807C>T	uc010wrp.1	+	6	646	c.557C>T	c.(556-558)GCG>GTG	p.A186V	OTOP2_uc002jmf.1_3'UTR	NM_178160	NP_835454	Q7RTS6	OTOP2_HUMAN	otopetrin 2	186						integral to membrane				ovary(3)|large_intestine(1)	4	all_lung(278;0.172)|Lung NSC(278;0.207)					ATCTGGATGGCGGCCGTGGTG	0.577													24	87	---	---	---	---	PASS	T	72923807	T	T	72923807	3	4	162	1	0	0	0	0	1	0	0	0	11306	768	27	1	571	1	OTOP2	17	72923807	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	11307956	72923807	8271403	220	57283										
UNK	85451	broad.mit.edu	37	chr17	73814897	73814897	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acacggtagagtcagtcataGgtaactaggccatttctgtt	10	8	3	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr17:73814897G>A	uc002jpm.2	+	12	1774	c.1774G>A	c.(1774-1776)GAG>AAG	p.E592K		NM_001080419	NP_001073888	Q9C0B0	UNK_HUMAN	zinc finger CCCH-type domain containing 5	516							nucleic acid binding|zinc ion binding				0			all cancers(21;2.61e-06)|Epithelial(20;7.39e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|LUSC - Lung squamous cell carcinoma(166;0.154)			GTCAGTCATAGGTAACTAGGC	0.582													14	122	---	---	---	---	PASS	A	73814897	A	A	73814897	3	1	162	1	0	0	0	0	1	0	0	0	16997	1014	35	3	1820	3	UNK	17	73814897	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	891090	73814897	7380313	221	57284										
RNF157	114804	broad.mit.edu	37	chr17	74154524	74154524	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	agagagctgtgtctccgactCgctgcaggaatgctcatctt	11	11	3	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr17:74154524C>A	uc002jqz.2	-	13	1432	c.1363G>T	c.(1363-1365)GAG>TAG	p.E455*	RNF157_uc002jra.2_Nonsense_Mutation_p.E455*	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	455	Ser-rich.						zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			GTCTCCGACTCGCTGCAGGAA	0.512													4	411	---	---	---	---	PASS	A	74154524	A	A	74154524	4	1	162	1	0	0	0	0	0	1	0	0	13454	893	31	2	704	2	RNF157	17	74154524	Nonsense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	339627	74154524	7040686	222	57285										
CBX8	57332	broad.mit.edu	37	chr17	77768705	77768705	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cccgggtgccattgggatctAgggcaccctggcctttggcc	14	14	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr17:77768705A>G	uc002jxd.1	-	5	992	c.899T>C	c.(898-900)CTA>CCA	p.L300P		NM_020649	NP_065700	Q9HC52	CBX8_HUMAN	chromobox homolog 8	300					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear chromatin|PcG protein complex	methylated histone residue binding				0			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			ATTGGGATCTAGGGCACCCTG	0.687													5	24	---	---	---	---	PASS	G	77768705	G	G	77768705	3	3	162	1	0	0	0	0	1	0	0	0	2724	407	15	5	249	5	CBX8	17	77768705	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	3614181	77768705	3426505	223	57286										
CTAGE1	64693	broad.mit.edu	37	chr18	19995852	19995852	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gatgaatcaggcacctttaaAttaccaagattatctttggt	7	7	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr18:19995852A>G	uc002ktv.1	-	1	2027	c.1923T>C	c.(1921-1923)AAT>AAC	p.N641N		NM_172241	NP_758441	Q96RT6	CTGE2_HUMAN	cutaneous T-cell lymphoma-associated antigen 1	641						integral to membrane				ovary(1)	1	all_cancers(21;0.000361)|all_epithelial(16;9.61e-06)|Colorectal(14;0.0533)|Lung NSC(20;0.0605)|Ovarian(2;0.116)|all_lung(20;0.135)					GCACCTTTAAATTACCAAGAT	0.408													151	393	---	---	---	---	PASS	G	19995852	G	G	19995852	2	3	162	1	0	0	0	0	0	0	0	1	3992	98	4	5		5	CTAGE1	18	19995852	Silent	SNP	A	TCGA-66-2783-01A-01D-1267-08		19995852	58081396	224	57287										
DTNA	1837	broad.mit.edu	37	chr18	32407610	32407610	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cctgttctcccactctgttcCctcctcaggaagtcctttta	5	16	3	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr18:32407610C>A	uc010dmn.1	+	10	1065	c.1064C>A	c.(1063-1065)CCC>CAC	p.P355H	DTNA_uc002kxu.2_Missense_Mutation_p.P355H|DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Missense_Mutation_p.P355H|DTNA_uc002kxw.2_Missense_Mutation_p.P355H|DTNA_uc002kxx.2_Missense_Mutation_p.P352H|DTNA_uc010dmj.2_Missense_Mutation_p.P352H|DTNA_uc002kxz.2_Missense_Mutation_p.P352H|DTNA_uc002kxy.2_Missense_Mutation_p.P352H|DTNA_uc010dmk.1_RNA|DTNA_uc010dml.2_Missense_Mutation_p.P352H|DTNA_uc002kyb.3_Missense_Mutation_p.P352H|DTNA_uc010dmm.2_Missense_Mutation_p.P355H|DTNA_uc010xby.1_Missense_Mutation_p.P102H|DTNA_uc010dmo.2_Missense_Mutation_p.P34H|DTNA_uc002kyd.3_Missense_Mutation_p.P34H|DTNA_uc010xbz.1_Missense_Mutation_p.P34H|DTNA_uc010xca.1_Missense_Mutation_p.P34H|DTNA_uc002kye.2_Missense_Mutation_p.P34H	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	355					neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						CACTCTGTTCCCTCCTCAGGA	0.413													6	375	---	---	---	---	PASS	A	32407610	A	A	32407610	3	1	162	1	0	0	0	0	1	0	0	0	4788	623	22	3	1102	3	DTNA	18	32407610	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	12411758	32407610	45669638	225	57288										
KIAA1632	57724	broad.mit.edu	37	chr18	43519604	43519604	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgtaggacagccctcaaaaaCagttcatcaaattcaacctg	6	11	4	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr18:43519604C>A	uc002lbm.2	-	10	2161	c.2061G>T	c.(2059-2061)CTG>CTT	p.L687L	KIAA1632_uc002lbo.1_Silent_p.L687L	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	687					autophagy						0						CCCTCAAAAACAGTTCATCAA	0.428													53	159	---	---	---	---	PASS	A	43519604	A	A	43519604	2	1	162	1	0	0	0	0	0	0	0	1	8249	465	17	3		3	KIAA1632	18	43519604	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	11111994	43519604	34557644	226	57289										
CNDP1	84735	broad.mit.edu	37	chr18	72228155	72228155	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cgaactggggagcgatcccaCgaaaggcaccgtgtgcttct	13	12	1	0	rs139749526	byFrequency	TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr18:72228155C>T	uc002llq.2	+	4	579	c.368C>T	c.(367-369)ACG>ATG	p.T123M	uc002llr.2_5'Flank	NM_032649	NP_116038	Q96KN2	CNDP1_HUMAN	carnosinase 1 precursor	123					proteolysis	extracellular region	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity|tripeptidase activity				0		Esophageal squamous(42;0.129)|Prostate(75;0.157)|Melanoma(33;0.211)		BRCA - Breast invasive adenocarcinoma(31;0.109)		AGCGATCCCACGAAAGGCACC	0.577													108	295	---	---	---	---	PASS	T	72228155	T	T	72228155	3	4	162	1	0	0	0	0	1	0	0	0	3593	536	19	1	382	1	CNDP1	18	72228155	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	28708551	72228155	5849093	227	57290										
DOT1L	84444	broad.mit.edu	37	chr19	2217885	2217885	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cggtcagcattcccctggccAgcgtggtgctgcccagccgc	13	17	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:2217885A>T	uc002lvb.3	+	22	2695	c.2659A>T	c.(2659-2661)AGC>TGC	p.S887C	DOT1L_uc002lvc.1_Missense_Mutation_p.S181C|uc002lvd.1_5'Flank|DOT1L_uc002lve.1_Missense_Mutation_p.S181C	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	887						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCCCTGGCCAGCGTGGTGCT	0.682													7	31	---	---	---	---	PASS	T	2217885	T	T	2217885	3	4	162	1	0	0	0	0	1	0	0	0	4709	188	7	5	2745	5	DOT1L	19	2217885	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08		2217885	56911098	228	57291										
NCLN	56926	broad.mit.edu	37	chr19	3193290	3193290	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tctgctccacagcaattcatGgagatcgagccggagatgct	11	11	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:3193290G>A	uc002lxi.2	+	3	538	c.384G>A	c.(382-384)ATG>ATA	p.M128I	NCLN_uc002lxh.1_RNA	NM_020170	NP_064555	Q969V3	NCLN_HUMAN	nicalin precursor	128	Lumenal (Potential).				proteolysis|regulation of signal transduction	endoplasmic reticulum membrane|integral to membrane|nucleus	peptidase activity|protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.83e-113)|Epithelial(107;1.65e-111)|all cancers(105;1.53e-103)|BRCA - Breast invasive adenocarcinoma(158;0.00139)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCAATTCATGGAGATCGAGC	0.632													26	71	---	---	---	---	PASS	A	3193290	A	A	3193290	3	1	162	1	0	0	0	0	1	0	0	0	10227	1348	47	3	394	3	NCLN	19	3193290	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	975405	3193290	55935693	229	57292										
FUT3	2525	broad.mit.edu	37	chr19	5844460	5844460	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	caagttgaaccagatccagcGctgcccctgcggcctcgggg	13	15	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:5844460G>C	uc002mdk.2	-	2	488	c.391C>G	c.(391-393)CGC>GGC	p.R131G	FUT3_uc002mdm.2_Missense_Mutation_p.R131G|FUT3_uc002mdj.2_Missense_Mutation_p.R131G|FUT3_uc002mdl.2_Missense_Mutation_p.R131G	NM_001097641	NP_001091110	P21217	FUT3_HUMAN	fucosyltransferase 3	131	Lumenal (Potential).				protein glycosylation	Golgi cisterna membrane|integral to membrane|membrane fraction	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity				0						CAGATCCAGCGCTGCCCCTGC	0.592													40	141	---	---	---	---	PASS	C	5844460	C	C	5844460	3	2	162	1	0	0	0	0	1	0	0	0	6105	1087	38	4	698	4	FUT3	19	5844460	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	2651170	5844460	53284523	230	57293										
FBN3	84467	broad.mit.edu	37	chr19	8181629	8181629	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	agcggtgaccccctggcatgTtggtgcagtggccttggtca	15	11	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:8181629T>C	uc002mjf.2	-	28	3662	c.3641A>G	c.(3640-3642)AAC>AGC	p.N1214S		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1214	EGF-like 17.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CCCTGGCATGTTGGTGCAGTG	0.622													50	98	---	---	---	---	PASS	C	8181629	C	C	8181629	3	2	162	1	0	0	0	0	1	0	0	0	5704	1725	60	5	4932	5	FBN3	19	8181629	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	2337169	8181629	50947354	231	57294										
MARCH2	51257	broad.mit.edu	37	chr19	8503280	8503280	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gctgccccacaggtctccttCcgctaccactgccagctgta	8	18	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:8503280C>T	uc002mjv.2	+	6	1032	c.591C>T	c.(589-591)TTC>TTT	p.F197F	MARCH2_uc002mjw.2_Silent_p.F197F|MARCH2_uc002mjx.2_Silent_p.F127F	NM_016496	NP_057580	Q9P0N8	MARH2_HUMAN	membrane-associated ring finger (C3HC4) 2	197					endocytosis	cytoplasmic vesicle|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						AGGTCTCCTTCCGCTACCACT	0.637													4	134	---	---	---	---	PASS	T	8503280	T	T	8503280	2	4	162	1	0	0	0	0	0	0	0	1	9301	854	30	2		2	MARCH2	19	8503280	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	321651	8503280	50625703	232	57295										
MUC16	94025	broad.mit.edu	37	chr19	9024157	9024157	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tggggctggagagggaggatGgagtccctgaggttctgaga	20	5	1	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:9024157G>T	uc002mkp.2	-	18	37319	c.37115C>A	c.(37114-37116)CCA>CAA	p.P12372Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12374	Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAGGGAGGATGGAGTCCCTGA	0.453													13	55	---	---	---	---	PASS	T	9024157	T	T	9024157	3	4	162	1	0	0	0	0	1	0	0	0	9973	1348	47	3	6676	3	MUC16	19	9024157	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	520877	9024157	50104826	233	57296										
MUC16	94025	broad.mit.edu	37	chr19	9056705	9056705	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gacatagtaaacctggattcTgggaaggaggttatcccagt	12	7	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:9056705T>A	uc002mkp.2	-	3	30945	c.30741A>T	c.(30739-30741)CCA>CCT	p.P10247P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10249	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACCTGGATTCTGGGAAGGAGG	0.458													40	121	---	---	---	---	PASS	A	9056705	A	A	9056705	2	1	162	1	0	0	0	0	0	0	0	1	9973	1567	55	5		5	MUC16	19	9056705	Silent	SNP	T	TCGA-66-2783-01A-01D-1267-08	32548	9056705	50072278	234	57297										
ZNF317	57693	broad.mit.edu	37	chr19	9272044	9272044	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gcgaccactcatccctcaggAgccacgtgaaaactcaccgg	9	16	3	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:9272044A>G	uc002mku.2	+	7	1998	c.1723A>G	c.(1723-1725)AGC>GGC	p.S575G	ZNF317_uc002mkv.2_Missense_Mutation_p.S434G|ZNF317_uc002mkw.2_Missense_Mutation_p.S543G|ZNF317_uc002mkx.2_Missense_Mutation_p.S490G|ZNF317_uc002mky.2_Missense_Mutation_p.S458G	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	575	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATCCCTCAGGAGCCACGTGAA	0.567													3	188	---	---	---	---	PASS	G	9272044	G	G	9272044	3	3	162	1	0	0	0	0	1	0	0	0	17832	304	11	5	1745	5	ZNF317	19	9272044	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	215339	9272044	49856939	235	57298										
SLC44A2	57153	broad.mit.edu	37	chr19	10745908	10745908	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttcttgctgtgcctctgcatCgcctactgggccagcactgc	10	15	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:10745908C>T	uc002mpf.2	+	13	1264	c.1125C>T	c.(1123-1125)ATC>ATT	p.I375I	SLC44A2_uc002mpe.3_Silent_p.I373I|SLC44A2_uc002mpg.1_Silent_p.I95I|SLC44A2_uc002mph.2_5'Flank	NM_020428	NP_065161	Q8IWA5	CTL2_HUMAN	solute carrier family 44, member 2 isoform 1	375	Helical; (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane|plasma membrane	choline transmembrane transporter activity|signal transducer activity			ovary(1)	1			Epithelial(33;8.7e-06)|all cancers(31;2.77e-05)		Choline(DB00122)	GCCTCTGCATCGCCTACTGGG	0.567													83	182	---	---	---	---	PASS	T	10745908	T	T	10745908	2	4	162	1	0	0	0	0	0	0	0	1	14636	874	31	2		2	SLC44A2	19	10745908	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	1473864	10745908	48383075	236	57299										
ZNF700	90592	broad.mit.edu	37	chr19	12059437	12059437	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cctatgcttgtaaagtctgtGgaaaaacctttattttccat	6	8	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:12059437G>T	uc002msu.2	+	4	724	c.598G>T	c.(598-600)GGA>TGA	p.G200*	ZNF700_uc010xme.1_Nonsense_Mutation_p.G218*|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	200	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TAAAGTCTGTGGAAAAACCTT	0.393													76	191	---	---	---	---	PASS	T	12059437	T	T	12059437	4	4	162	1	0	0	0	0	0	1	0	0	18101	1349	47	3	612	3	ZNF700	19	12059437	Nonsense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	1313529	12059437	47069546	237	57300										
SF4	57794	broad.mit.edu	37	chr19	19390148	19390148	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cttctcccacagcagctgcaTgtcctgcatggcccgcttgt	9	16	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:19390148T>A	uc002nmh.2	-	10	1404	c.1402A>T	c.(1402-1404)ATG>TTG	p.M468L	SF4_uc002nmf.2_Missense_Mutation_p.M18L|SF4_uc002nmg.2_Missense_Mutation_p.M18L|SF4_uc002nmi.2_Missense_Mutation_p.M258L|SF4_uc002nmj.2_Missense_Mutation_p.M258L|SF4_uc002nme.2_Missense_Mutation_p.M18L	NM_172231	NP_757386	Q8IWZ8	SUGP1_HUMAN	splicing factor 4	468	Gln/Met-rich.				nuclear mRNA splicing, via spliceosome	nucleoplasm|spliceosomal complex	RNA binding				0						AGCAGCTGCATGTCCTGCATG	0.627													11	47	---	---	---	---	PASS	A	19390148	A	A	19390148	3	1	162	1	0	0	0	0	1	0	0	0	14155	1464	51	5	555	5	SF4	19	19390148	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	7330711	19390148	39738835	238	57301										
ZNF93	81931	broad.mit.edu	37	chr19	20044956	20044956	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atactggagagaagccctacAaatgtgaagaatgtggcaaa	11	6	0	3			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:20044956A>G	uc002non.2	+	4	1303	c.1192A>G	c.(1192-1194)AAA>GAA	p.K398E		NM_031218	NP_112495	P35789	ZNF93_HUMAN	zinc finger protein 93	398	C2H2-type 10.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1						GAAGCCCTACAAATGTGAAGA	0.408													66	134	---	---	---	---	PASS	G	20044956	G	G	20044956	3	3	162	1	0	0	0	0	1	0	0	0	18199	131	5	5	1206	5	ZNF93	19	20044956	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	654808	20044956	39084027	239	57302										
WDR88	126248	broad.mit.edu	37	chr19	33639783	33639783	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	atggaatctgcataatggacGccgagaacatcaccaccgtt	9	11	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:33639783G>C	uc002nui.2	+	5	724	c.646G>C	c.(646-648)GCC>CCC	p.A216P		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	216	WD 3.									ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					CATAATGGACGCCGAGAACAT	0.502													76	230	---	---	---	---	PASS	C	33639783	C	C	33639783	3	2	162	1	0	0	0	0	1	0	0	0	17332	1087	38	4	664	4	WDR88	19	33639783	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	13594827	33639783	25489200	240	57303										
CATSPERG	57828	broad.mit.edu	37	chr19	38858205	38858205	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	caggagactccggcagtttcCagggcaggtaaaggcgtggc	16	10	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:38858205C>G	uc002oih.3	+	24	2914	c.2827C>G	c.(2827-2829)CAG>GAG	p.Q943E	CATSPERG_uc002oig.3_Missense_Mutation_p.Q903E|CATSPERG_uc002oif.3_Missense_Mutation_p.Q583E|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	943	Extracellular (Potential).			Q -> R (in Ref. 3; BAC87333).	cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						CGGCAGTTTCCAGGGCAGGTA	0.547													246	622	---	---	---	---	PASS	G	38858205	G	G	38858205	3	3	162	1	0	0	0	0	1	0	0	0	2692	595	21	4	2917	4	CATSPERG	19	38858205	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	5218422	38858205	20270778	241	57304										
CYP2F1	1572	broad.mit.edu	37	chr19	41630712	41630712	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gccatgccttacacagacgcGgtgatccacgaggtgcagcg	13	13	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:41630712G>C	uc002opu.1	+	8	1109	c.1053G>C	c.(1051-1053)GCG>GCC	p.A351A	CYP2F1_uc010xvw.1_Intron|CYP2F1_uc010xvv.1_3'UTR|CYP2F1_uc002opv.1_RNA	NM_000774	NP_000765	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F,	351					naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0						ACACAGACGCGGTGATCCACG	0.657													10	28	---	---	---	---	PASS	C	41630712	C	C	41630712	2	2	162	1	0	0	0	0	0	0	0	1	4171	1103	39	4		4	CYP2F1	19	41630712	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	2772507	41630712	17498271	242	57305										
CEACAM18	729767	broad.mit.edu	37	chr19	51984759	51984759	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aacatcacgtggtatgtgaaTgatgtgcctacctctagtag	10	8	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:51984759T>C	uc002pwv.1	+	4	696	c.696T>C	c.(694-696)AAT>AAC	p.N232N		NM_001080405	NP_001073874	A8MTB9	CEA18_HUMAN	carcinoembryonic antigen-related cell adhesion	232						integral to membrane				skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		GGTATGTGAATGATGTGCCTA	0.522													36	88	---	---	---	---	PASS	C	51984759	C	C	51984759	2	2	162	1	0	0	0	0	0	0	0	1	3189	1461	51	5		5	CEACAM18	19	51984759	Silent	SNP	T	TCGA-66-2783-01A-01D-1267-08	10354047	51984759	7144224	243	57306										
PRKCG	5582	broad.mit.edu	37	chr19	54387495	54387495	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctgggaagggcccccagacgGacgtgagtgctcggacacct	15	13	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:54387495G>T	uc002qcq.1	+	3	565	c.283G>T	c.(283-285)GAC>TAC	p.D95Y	PRKCG_uc010eqz.1_Missense_Mutation_p.D95Y|PRKCG_uc010yef.1_Missense_Mutation_p.D95Y|PRKCG_uc010yeg.1_Missense_Mutation_p.D95Y|PRKCG_uc010yeh.1_Missense_Mutation_p.G19V	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	95					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)		CCCCCAGACGGACGTGAGTGC	0.582													33	109	---	---	---	---	PASS	T	54387495	T	T	54387495	3	4	162	1	0	0	0	0	1	0	0	0	12512	1174	41	2	293	2	PRKCG	19	54387495	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	2402736	54387495	4741488	244	57307										
SBK2	646643	broad.mit.edu	37	chr19	56047510	56047510	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	cctcggctcggaccagggtcTgagcactcagcgtcatcatg	12	14	4	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:56047510T>C	uc010ygc.1	-	1	152	c.152A>G	c.(151-153)CAG>CGG	p.Q51R		NM_001101401	NP_001094871	P0C263	SBK2_HUMAN	SH3-binding domain kinase family, member 2	51							ATP binding|protein serine/threonine kinase activity				0						GACCAGGGTCTGAGCACTCAG	0.652													24	31	---	---	---	---	PASS	C	56047510	C	C	56047510	3	2	162	1	0	0	0	0	1	0	0	0	13861	1580	55	5	905	5	SBK2	19	56047510	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	1660015	56047510	3081473	245	57308										
NLRP4	147945	broad.mit.edu	37	chr19	56382266	56382266	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttctgcgtaacaagagcgtgCgctatctagacctcagtgcc	10	12	3	2	rs143466082		TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:56382266C>G	uc002qmd.3	+	7	2850	c.2428C>G	c.(2428-2430)CGC>GGC	p.R810G	NLRP4_uc002qmf.2_Missense_Mutation_p.R735G|NLRP4_uc010etf.2_Missense_Mutation_p.R585G	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	810	LRR 5.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		CAAGAGCGTGCGCTATCTAGA	0.517													51	158	---	---	---	---	PASS	G	56382266	G	G	56382266	3	3	162	1	0	0	0	0	1	0	0	0	10479	768	27	4	2450	4	NLRP4	19	56382266	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	334756	56382266	2746717	246	57309										
ZNF835	90485	broad.mit.edu	37	chr19	57176503	57176503	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctgcaggtcctcaacctggcCctcgtgtttccagtttcctt	8	15	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:57176503C>T	uc010ygo.1	-	2	130	c.130G>A	c.(130-132)GGC>AGC	p.G44S	ZNF835_uc010ygn.1_Missense_Mutation_p.G22S	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						TCAACCTGGCCCTCGTGTTTC	0.602													42	107	---	---	---	---	PASS	T	57176503	T	T	57176503	3	4	162	1	0	0	0	0	1	0	0	0	18183	623	22	3	1551	3	ZNF835	19	57176503	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	794237	57176503	1952480	247	57310										
ZNF304	57343	broad.mit.edu	37	chr19	57867632	57867632	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	attctcgttcagtgcaaactTttaccagcaccagaagcaac	6	12	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr19:57867632T>G	uc010ygw.1	+	3	783	c.395T>G	c.(394-396)TTT>TGT	p.F132C	ZNF304_uc010etw.2_Missense_Mutation_p.F179C|ZNF304_uc010etx.2_Missense_Mutation_p.F90C	NM_020657	NP_065708	Q9HCX3	ZN304_HUMAN	zinc finger protein 304	132	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0265)		AGTGCAAACTTTTACCAGCAC	0.478													30	91	---	---	---	---	PASS	G	57867632	G	G	57867632	3	3	162	1	0	0	0	0	1	0	0	0	17830	1841	64	5	405	5	ZNF304	19	57867632	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	691129	57867632	1261351	248	57311										
C20orf96	140680	broad.mit.edu	37	chr20	258973	258973	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tttgccagggattcttacagCtcatcttgcatttcttcttt	6	10	5	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr20:258973C>A	uc002wde.1	-	6	702	c.563G>T	c.(562-564)AGC>ATC	p.S188I	C20orf96_uc002wdc.2_Missense_Mutation_p.S135I|C20orf96_uc002wdd.2_Missense_Mutation_p.S153I|C20orf96_uc010zpi.1_Missense_Mutation_p.S135I|C20orf96_uc010zpj.1_Missense_Mutation_p.S153I|C20orf96_uc010zpk.1_Missense_Mutation_p.S126I	NM_153269	NP_695001	Q9NUD7	CT096_HUMAN	hypothetical protein LOC140680	188	Potential.										0		all_cancers(10;0.00959)|Lung NSC(37;0.227)	OV - Ovarian serous cystadenocarcinoma(29;0.149)			ATTCTTACAGCTCATCTTGCA	0.488													95	621	---	---	---	---	PASS	A	258973	A	A	258973	3	1	162	1	0	0	0	0	1	0	0	0	2122	797	28	3	552	3	C20orf96	20	258973	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08		258973	62766547	249	57312										
ZCCHC3	85364	broad.mit.edu	37	chr20	278756	278756	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tctgtttccagggagacgagGgcgcctgcccgacccgggac	15	14	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr20:278756G>C	uc002wdf.2	+	2	550	c.526G>C	c.(526-528)GGC>CGC	p.G176R	ZCCHC3_uc002wdg.2_Intron	NM_033089	NP_149080	Q9NUD5	ZCHC3_HUMAN	zinc finger, CCHC domain containing 3	177							nucleic acid binding|zinc ion binding				0		all_cancers(10;0.000209)|Lung NSC(37;0.0417)|all_lung(30;0.0713)|all_epithelial(17;0.0748)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.149)			GGGAGACGAGGGCGCCTGCCC	0.577													4	24	---	---	---	---	PASS	C	278756	C	C	278756	3	2	162	1	0	0	0	0	1	0	0	0	17586	1232	43	4	531	4	ZCCHC3	20	278756	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	19783	278756	62746764	250	57313										
MACROD2	140733	broad.mit.edu	37	chr20	15967727	15967727	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttagaactttcatcaaaccaAgaagatgccgtgattgtgga	9	7	2	4			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr20:15967727A>T	uc002wou.2	+	15	1341	c.1077A>T	c.(1075-1077)CAA>CAT	p.Q359H	MACROD2_uc002wot.2_Missense_Mutation_p.Q359H|MACROD2_uc002woz.2_Missense_Mutation_p.Q124H|MACROD2_uc002wpb.2_Missense_Mutation_p.Q124H|MACROD2_uc002wpd.2_Missense_Mutation_p.Q10H	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	359	Glu-rich.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				CATCAAACCAAGAAGATGCCG	0.383													49	242	---	---	---	---	PASS	T	15967727	T	T	15967727	3	4	162	1	0	0	0	0	1	0	0	0	9146	69	3	5	1135	5	MACROD2	20	15967727	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	15688971	15967727	47057793	251	57314										
SEC23B	10483	broad.mit.edu	37	chr20	18511331	18511331	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tcttcttacctagaggctacAtggtaatgggagattctttc	9	8	3	2	rs17849992		TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr20:18511331A>G	uc002wqz.1	+	10	1560	c.1117A>G	c.(1117-1119)ATG>GTG	p.M373V	SEC23B_uc002wra.1_Missense_Mutation_p.M373V|SEC23B_uc002wrb.1_Missense_Mutation_p.M373V|SEC23B_uc010zsb.1_Missense_Mutation_p.M355V|SEC23B_uc002wrc.1_Missense_Mutation_p.M373V	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	373					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						TAGAGGCTACATGGTAATGGG	0.333													62	246	---	---	---	---	PASS	G	18511331	G	G	18511331	3	3	162	1	0	0	0	0	1	0	0	0	13992	217	8	5	1151	5	SEC23B	20	18511331	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	2543604	18511331	44514189	252	57315										
NKX2-2	4821	broad.mit.edu	37	chr20	21492667	21492667	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gcatgtgctgcagcgactgcGcgctgtaggcagaaaaggga	16	9	0	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr20:21492667G>T	uc002wsi.2	-	2	1073	c.716C>A	c.(715-717)GCG>GAG	p.A239E		NM_002509	NP_002500	O95096	NKX22_HUMAN	NK2 transcription factor related, locus 2	239					brain development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	chromatin binding|core promoter proximal region DNA binding|transcription coactivator activity			pancreas(1)|skin(1)	2						CAGCGACTGCGCGCTGTAGGC	0.652													32	126	---	---	---	---	PASS	T	21492667	T	T	21492667	3	4	162	1	0	0	0	0	1	0	0	0	10450	1087	38	1	109	1	NKX2-2	20	21492667	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	2981336	21492667	41532853	253	57316										
GGT7	2686	broad.mit.edu	37	chr20	33447370	33447370	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acgagccaggtagtggcgggCggcccgatggcaggaacgtc	18	11	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr20:33447370C>T	uc002xay.2	-	7	933	c.890G>A	c.(889-891)CGC>CAC	p.R297H	GGT7_uc002xaz.1_Missense_Mutation_p.R314H|GGT7_uc002xba.1_3'UTR	NM_178026	NP_821158	Q9UJ14	GGT7_HUMAN	gamma-glutamyltransferase 7	297	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(1)	1						TAGTGGCGGGCGGCCCGATGG	0.687													5	12	---	---	---	---	PASS	T	33447370	T	T	33447370	3	4	162	1	0	0	0	0	1	0	0	0	6364	768	27	1	1134	1	GGT7	20	33447370	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	11954703	33447370	29578150	254	57317										
FAM83D	81610	broad.mit.edu	37	chr20	37580780	37580780	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttcctcgaggaactcaatctAcagaagggtcaccagtctca	8	12	4	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr20:37580780A>G	uc002xjg.2	+	4	1506	c.1465A>G	c.(1465-1467)ACA>GCA	p.T489A		NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	459	Ser-rich.				cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				AACTCAATCTACAGAAGGGTC	0.483													63	169	---	---	---	---	PASS	G	37580780	G	G	37580780	3	3	162	1	0	0	0	0	1	0	0	0	5636	391	14	5	1479	5	FAM83D	20	37580780	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	4133410	37580780	25444740	255	57318										
SNX21	90203	broad.mit.edu	37	chr20	44463643	44463643	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gtggggcagtcagctcctggCgcggcagctgcaggatttct	16	11	2	0	rs141041804	byFrequency	TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr20:44463643C>T	uc002xpv.1	+	3	424	c.335C>T	c.(334-336)GCG>GTG	p.A112V	SNX21_uc002xps.1_Missense_Mutation_p.A112V|SNX21_uc002xpt.1_Missense_Mutation_p.A112V|SNX21_uc002xpu.1_Missense_Mutation_p.A112V|SNX21_uc002xpw.1_5'UTR|SNX21_uc002xpx.2_Missense_Mutation_p.A102V|SNX21_uc010zxd.1_Missense_Mutation_p.A103V|SNX21_uc002xpy.1_5'UTR	NM_033421	NP_219489	Q969T3	SNX21_HUMAN	sorting nexin 21 isoform a	112					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding			breast(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				CAGCTCCTGGCGCGGCAGCTG	0.617													5	255	---	---	---	---	PASS	T	44463643	T	T	44463643	3	4	162	1	0	0	0	0	1	0	0	0	14893	768	27	1	345	1	SNX21	20	44463643	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	6882863	44463643	18561877	256	57319										
ZGPAT	84619	broad.mit.edu	37	chr20	62339934	62339934	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	agcgcctccctctctcagcaTggacgaggagagcctggagt	13	13	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr20:62339934T>A	uc002ygk.2	+	2	180	c.2T>A	c.(1-3)ATG>AAG	p.M1K	ARFRP1_uc002yga.2_5'Flank|ARFRP1_uc002ygc.2_5'Flank|ARFRP1_uc002ygh.3_5'Flank|ARFRP1_uc011abf.1_5'Flank|ARFRP1_uc011abg.1_5'Flank|ARFRP1_uc002yge.2_5'Flank|ARFRP1_uc002ygd.2_5'Flank|ARFRP1_uc002ygf.2_5'Flank|ARFRP1_uc002ygg.2_5'Flank|ARFRP1_uc011abh.1_5'Flank|ZGPAT_uc002ygi.2_Missense_Mutation_p.M1K|ZGPAT_uc002ygj.2_Missense_Mutation_p.M1K|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Missense_Mutation_p.M1K|ZGPAT_uc002ygm.2_Missense_Mutation_p.M1K|ZGPAT_uc002ygn.3_RNA	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	1					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					TCTCTCAGCATGGACGAGGAG	0.687													22	63	---	---	---	---	PASS	A	62339934	A	A	62339934	3	1	162	1	0	0	0	0	1	0	0	0	17671	1464	51	5	4	5	ZGPAT	20	62339934	Missense_Mutation	SNP	T	TCGA-66-2783-01A-01D-1267-08	17876291	62339934	685586	257	57320										
ZGPAT	84619	broad.mit.edu	37	chr20	62339951	62339951	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gcatggacgaggagagcctgGagtcggccttgcagacctac	15	11	0	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr20:62339951G>A	uc002ygk.2	+	2	197	c.19G>A	c.(19-21)GAG>AAG	p.E7K	ARFRP1_uc002yga.2_5'Flank|ARFRP1_uc002ygc.2_5'Flank|ARFRP1_uc002ygh.3_5'Flank|ARFRP1_uc011abf.1_5'Flank|ARFRP1_uc011abg.1_5'Flank|ARFRP1_uc002yge.2_5'Flank|ARFRP1_uc002ygd.2_5'Flank|ARFRP1_uc002ygf.2_5'Flank|ARFRP1_uc002ygg.2_5'Flank|ARFRP1_uc011abh.1_5'Flank|ZGPAT_uc002ygi.2_Missense_Mutation_p.E7K|ZGPAT_uc002ygj.2_Missense_Mutation_p.E7K|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Missense_Mutation_p.E7K|ZGPAT_uc002ygm.2_Missense_Mutation_p.E7K|ZGPAT_uc002ygn.3_RNA	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	7					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					GGAGAGCCTGGAGTCGGCCTT	0.677													24	70	---	---	---	---	PASS	A	62339951	A	A	62339951	3	1	162	1	0	0	0	0	1	0	0	0	17671	1175	41	2	21	2	ZGPAT	20	62339951	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	17	62339951	685569	258	57321										
TPTE	7179	broad.mit.edu	37	chr21	10970050	10970050	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tcggttgctcctttaaattcActtgtctgtggactagtgga	10	8	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr21:10970050A>T	uc002yip.1	-	6	446	c.78T>A	c.(76-78)AGT>AGA	p.S26R	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.S26R|TPTE_uc002yir.1_Missense_Mutation_p.S26R|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	26					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CTTTAAATTCACTTGTCTGTG	0.383													90	133	---	---	---	---	PASS	T	10970050	T	T	10970050	3	4	162	1	0	0	0	0	1	0	0	0	16427	156	6	5	1653	5	TPTE	21	10970050	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08		10970050	37159845	259	57322										
AIRE	326	broad.mit.edu	37	chr21	45713059	45713059	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgggtcctgagggtcagcagGtgagcggggagtgggggtca	22	6	2	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr21:45713059G>T	uc002zei.2	+	10	1405	c.1278_splice	c.e10+1	p.Q426_splice	AIRE_uc010gpq.2_Splice_Site|AIRE_uc002zej.2_Splice_Site_p.Q229_splice|AIRE_uc010gpr.2_Splice_Site_p.Q229_splice	NM_000383	NP_000374	O43918	AIRE_HUMAN	autoimmune regulator isoform 1						positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	chromatin binding|histone binding|transcription regulatory region DNA binding|translation regulator activity|zinc ion binding			skin(1)	1				Colorectal(79;0.0806)		GGGTCAGCAGGTGAGCGGGGA	0.667									Autoimmune_PolyEndocrinopathy_Candidiasis_Ectodermal_Dystrophy				3	7	---	---	---	---	PASS	T	45713059	T	T	45713059	5	4	162	1	0	0	0	0	0	0	1	0	437	1275	44	3	1605	3	AIRE	21	45713059	Splice_Site	SNP	G	TCGA-66-2783-01A-01D-1267-08	34743009	45713059	2416836	260	57323										
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31851891	31851891	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acccaagactgctggatcggCttcctgatctgctcgggtta	11	12	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr22:31851891C>A	uc003akz.1	-	8	1210	c.1046G>T	c.(1045-1047)AGC>ATC	p.S349I	EIF4ENIF1_uc003akx.1_Missense_Mutation_p.S28I|EIF4ENIF1_uc003aky.1_Missense_Mutation_p.S28I|EIF4ENIF1_uc003ala.1_Missense_Mutation_p.S349I|EIF4ENIF1_uc003alb.1_Missense_Mutation_p.S186I	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	349						nucleus	protein binding|protein transporter activity			ovary(1)	1						GCTGGATCGGCTTCCTGATCT	0.468											OREG0003517	type=REGULATORY REGION|Gene=LOC486366|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	135	134	---	---	---	---	PASS	A	31851891	A	A	31851891	3	1	162	1	0	0	0	0	1	0	0	0	5035	797	28	3	1962	3	EIF4ENIF1	22	31851891	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08		31851891	19452675	261	57324										
RFPL2	10739	broad.mit.edu	37	chr22	32587176	32587176	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	acgtccacctcccagcagtgGcggccacaggtaaagcgagg	13	14	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chr22:32587176G>A	uc003amg.3	-	5	1656	c.720C>T	c.(718-720)CGC>CGT	p.R240R	RFPL2_uc003ame.3_Silent_p.R179R|RFPL2_uc003amf.3_Silent_p.R150R|RFPL2_uc003amh.3_Silent_p.R150R	NM_001098527	NP_001091997	O75678	RFPL2_HUMAN	ret finger protein-like 2 isoform 2	240	B30.2/SPRY.						zinc ion binding			skin(1)	1						CCCAGCAGTGGCGGCCACAGG	0.592													146	138	---	---	---	---	PASS	A	32587176	A	A	32587176	2	1	162	1	0	0	0	0	0	0	0	1	13254	1190	42	3		3	RFPL2	22	32587176	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08	735285	32587176	18717390	262	57325										
ASMTL	8623	broad.mit.edu	37	chrX	1522275	1522275	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ctgatactcgcccaggctccGctccttgccttcagtctgca	8	17	2	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chrX:1522275G>T	uc004cpx.1	-	13	1864	c.1753C>A	c.(1753-1755)CGG>AGG	p.R585R	NCRNA00105_uc004cpv.2_Intron|NCRNA00105_uc004cpw.2_Intron|ASMTL_uc011mhe.1_Silent_p.R509R|ASMTL_uc004cpy.1_Silent_p.R569R|ASMTL_uc011mhf.1_Silent_p.R527R	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	585	ASMT-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCCAGGCTCCGCTCCTTGCCT	0.627													54	118	---	---	---	---	PASS	T	1522275	T	T	1522275	2	4	162	1	0	0	0	0	0	0	0	1	1046	1086	38	1		1	ASMTL	23	1522275	Silent	SNP	G	TCGA-66-2783-01A-01D-1267-08		1522275	153748285	263	57326										
SH3KBP1	30011	broad.mit.edu	37	chrX	19564056	19564056	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tcacttgggatatggtaacaGtcttggaagttttctttgac	10	6	3	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chrX:19564056G>C	uc004czm.2	-	15	1923	c.1607C>G	c.(1606-1608)ACT>AGT	p.T536S	SH3KBP1_uc011mje.1_Missense_Mutation_p.T275S|SH3KBP1_uc011mjf.1_Missense_Mutation_p.T298S|SH3KBP1_uc004czl.2_Missense_Mutation_p.T499S|SH3KBP1_uc010nfm.2_Intron	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	536					apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						TATGGTAACAGTCTTGGAAGT	0.473													42	33	---	---	---	---	PASS	C	19564056	C	C	19564056	3	2	162	1	0	0	0	0	1	0	0	0	14255	1029	36	4	406	4	SH3KBP1	23	19564056	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	18041781	19564056	135706504	264	57327										
FAM47C	442444	broad.mit.edu	37	chrX	37029201	37029201	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	agcatggagctagacgaaatGgatgaggtcaaattcttctc	11	7	3	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chrX:37029201G>C	uc004ddl.1	+	1	2732	c.2718G>C	c.(2716-2718)ATG>ATC	p.M906I		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	906										ovary(3)	3						TAGACGAAATGGATGAGGTCA	0.453													94	73	---	---	---	---	PASS	C	37029201	C	C	37029201	3	2	162	1	0	0	0	0	1	0	0	0	5571	1348	47	4	2720	4	FAM47C	23	37029201	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	17465145	37029201	118241359	265	57328										
FAM123B	139285	broad.mit.edu	37	chrX	63411391	63411391	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	taggcctccctggcgtgggcCtccctggcatgagcttctcg	13	15	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chrX:63411391C>T	uc004dvo.2	-	2	2049	c.1776G>A	c.(1774-1776)GAG>GAA	p.E592E		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	592					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						TGGCGTGGGCCTCCCTGGCAT	0.617													34	34	---	---	---	---	PASS	T	63411391	T	T	63411391	2	4	162	1	0	0	0	0	0	0	0	1	5423	680	24	3		3	FAM123B	23	63411391	Silent	SNP	C	TCGA-66-2783-01A-01D-1267-08	26382190	63411391	91859169	266	57329										
PDZD11	51248	broad.mit.edu	37	chrX	69507655	69507655	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ccccttcctgcagtcctgctCtatgtgcatcagagtcagga	9	14	3	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chrX:69507655C>A	uc004dyd.1	-	5	356	c.254G>T	c.(253-255)AGA>ATA	p.R85I	KIF4A_uc004dyg.2_5'Flank|KIF4A_uc010nkw.2_5'Flank|PDZD11_uc004dye.1_Missense_Mutation_p.R117I|KIF4A_uc004dyf.1_5'Flank	NM_016484	NP_057568	Q5EBL8	PDZ11_HUMAN	PDZ domain containing 11	85	PDZ.					basolateral plasma membrane|cytosol|extracellular region	protein C-terminus binding				0						CAGTCCTGCTCTATGTGCATC	0.458													4	169	---	---	---	---	PASS	A	69507655	A	A	69507655	3	1	162	1	0	0	0	0	1	0	0	0	11700	913	32	2	180	2	PDZD11	23	69507655	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	6096264	69507655	85762905	267	57330										
PCDH19	57526	broad.mit.edu	37	chrX	99661771	99661771	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	aaagaagccgcggtcgccctCggtcatgtcgtaggtgactc	13	12	1	2			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chrX:99661771C>T	uc010nmz.2	-	1	3501	c.1825G>A	c.(1825-1827)GAG>AAG	p.E609K	PCDH19_uc004efw.3_Missense_Mutation_p.E609K|PCDH19_uc004efx.3_Missense_Mutation_p.E609K	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	609	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CGGTCGCCCTCGGTCATGTCG	0.552													48	30	---	---	---	---	PASS	T	99661771	T	T	99661771	3	4	162	1	0	0	0	0	1	0	0	0	11514	893	31	2	1645	2	PCDH19	23	99661771	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	30154116	99661771	55608789	268	57331										
RGAG1	57529	broad.mit.edu	37	chrX	109694197	109694197	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gggcactgtccccattgctaAtgccagccttagattctgga	10	12	1	1			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chrX:109694197A>T	uc004eor.1	+	3	598	c.352A>T	c.(352-354)ATG>TTG	p.M118L	RGAG1_uc011msr.1_Missense_Mutation_p.M118L	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	118										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CCCATTGCTAATGCCAGCCTT	0.522													136	116	---	---	---	---	PASS	T	109694197	T	T	109694197	3	4	162	1	0	0	0	0	1	0	0	0	13274	101	4	5	354	5	RGAG1	23	109694197	Missense_Mutation	SNP	A	TCGA-66-2783-01A-01D-1267-08	10032426	109694197	45576363	269	57332										
ATP2B3	492	broad.mit.edu	37	chrX	152827614	152827614	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	ttgtcatcgtccagtttggcGggaagcccttcagctgctcc	11	13	2	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chrX:152827614G>T	uc004fht.1	+	18	3199	c.3073G>T	c.(3073-3075)GGG>TGG	p.G1025W	ATP2B3_uc004fhs.1_Missense_Mutation_p.G1025W|ATP2B3_uc010nuf.1_Missense_Mutation_p.G48W|ATP2B3_uc004fhu.1_5'UTR	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	1025	Extracellular (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCAGTTTGGCGGGAAGCCCTT	0.612													105	101	---	---	---	---	PASS	T	152827614	T	T	152827614	3	4	162	1	0	0	0	0	1	0	0	0	1141	1116	39	1	3143	1	ATP2B3	23	152827614	Missense_Mutation	SNP	G	TCGA-66-2783-01A-01D-1267-08	43133417	152827614	2442946	270	57333										
SPRY3	10251	broad.mit.edu	37	chrX	155003879	155003879	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	gccaatccatcatccgaaccCaacctggagcaggggtccac	9	16	1	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chrX:155003879C>T	uc004fnq.1	+	2	800	c.346C>T	c.(346-348)CAA>TAA	p.Q116*	SPRY3_uc010nvl.1_Intron	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	116					multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CATCCGAACCCAACCTGGAGC	0.552													54	73	---	---	---	---	PASS	T	155003879	T	T	155003879	4	4	162	1	0	0	0	0	0	1	0	0	15106	595	21	3	348	3	SPRY3	23	155003879	Nonsense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08	2176265	155003879	266681	271	57334										
PCDH11Y	83259	broad.mit.edu	37	chrY	5369195	5369195	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0919117647058824	25	0.0247201794067404	1.58825136612022	2.50776531492666	1.18662458388292	1	1	9	tgcaggcagccttaccagcaCatcccatggcctgccccttg	9	17	0	0			TCGA-66-2783-01A-01D-1267-08	TCGA-66-2783-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	f574d3b7-4ae4-49bc-9e05-f965fbc86119	ec252807-66f6-42aa-8ba7-1634ce644008	g.chrY:5369195C>A	uc004fqo.2	+	3	3961	c.3227C>A	c.(3226-3228)ACA>AAA	p.T1076K		NM_032973	NP_116755	Q9BZA8	PC11Y_HUMAN	protocadherin 11 Y-linked isoform c	1076	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						CTTACCAGCACATCCCATGGC	0.567													71	57	---	---	---	---	PASS	A	5369195	A	A	5369195	3	1	162	1	0	0	0	0	1	0	0	0	11509	478	17	3	3295	3	PCDH11Y	24	5369195	Missense_Mutation	SNP	C	TCGA-66-2783-01A-01D-1267-08		5369195	54004371	272	57335										
NADK	65220	broad.mit.edu	37	chr1	1696810	1696810	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccgcgtctggactcaattcCttattcatggtcattttttc	7	11	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:1696810C>A	uc009vkw.2	-	2	157	c.36G>T	c.(34-36)AAG>AAT	p.K12N	NADK_uc001aic.2_Missense_Mutation_p.K12N|NADK_uc001aid.3_Missense_Mutation_p.K12N|NADK_uc001aie.2_Missense_Mutation_p.K12N|NADK_uc009vkx.1_Translation_Start_Site	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	12					ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)		GACTCAATTCCTTATTCATGG	0.463													11	47	---	---	---	---	PASS	A	1696810	A	A	1696810	3	1	163	1	0	0	0	0	1	0	0	0	10137	680	24	3	1348	3	NADK	1	1696810	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08		1696810	247553811	1	57336										
PLCH2	9651	broad.mit.edu	37	chr1	2415982	2415982	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgccgggacctctacctgctCatgctgacctacagcaacca	8	17	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:2415982C>A	uc001aji.1	+	5	1015	c.741C>A	c.(739-741)CTC>CTA	p.L247L	PLCH2_uc010nyz.1_Silent_p.L35L|PLCH2_uc009vle.1_Silent_p.L35L|PLCH2_uc001ajj.1_Silent_p.L35L|PLCH2_uc001ajk.1_Silent_p.L35L	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	247					intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		TCTACCTGCTCATGCTGACCT	0.607													6	34	---	---	---	---	PASS	A	2415982	A	A	2415982	2	1	163	1	0	0	0	0	0	0	0	1	12038	813	29	2		2	PLCH2	1	2415982	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	719172	2415982	246834639	2	57337										
PLCH2	9651	broad.mit.edu	37	chr1	2421253	2421253	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cggaggaaggcgaggtgtctGatgaggacagtgctgatgag	19	5	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:2421253G>A	uc001aji.1	+	10	1736	c.1462G>A	c.(1462-1464)GAT>AAT	p.D488N	PLCH2_uc010nyz.1_Missense_Mutation_p.D276N|PLCH2_uc009vle.1_Missense_Mutation_p.D276N|PLCH2_uc001ajj.1_Missense_Mutation_p.D276N|PLCH2_uc001ajk.1_Missense_Mutation_p.D276N	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	488					intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		CGAGGTGTCTGATGAGGACAG	0.612													19	80	---	---	---	---	PASS	A	2421253	A	A	2421253	3	1	163	1	0	0	0	0	1	0	0	0	12038	1290	45	2	1500	2	PLCH2	1	2421253	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5271	2421253	246829368	3	57338										
CAMTA1	23261	broad.mit.edu	37	chr1	7812544	7812544	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtttgctaaccaaaaagcagGatcaagctgctcgaaaaata	8	8	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:7812544G>C	uc001aoi.2	+	21	5116	c.4909G>C	c.(4909-4911)GAT>CAT	p.D1637H	CAMTA1_uc001aok.3_Missense_Mutation_p.D680H|CAMTA1_uc001aoj.2_Missense_Mutation_p.D600H|CAMTA1_uc009vmf.2_Missense_Mutation_p.D227H	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1637					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		CAAAAAGCAGGATCAAGCTGC	0.423													9	56	---	---	---	---	PASS	C	7812544	C	C	7812544	3	2	163	1	0	0	0	0	1	0	0	0	2613	1174	41	2	4991	2	CAMTA1	1	7812544	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5391291	7812544	241438077	4	57339										
VPS13D	55187	broad.mit.edu	37	chr1	12343540	12343540	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caacatattcttggtagataAgaaacatccagaattctctt	5	8	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:12343540A>G	uc001atv.2	+	21	5522	c.5381A>G	c.(5380-5382)AAG>AGG	p.K1794R	VPS13D_uc001atw.2_Missense_Mutation_p.K1794R|VPS13D_uc001atx.2_Missense_Mutation_p.K982R	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	1794					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TTGGTAGATAAGAAACATCCA	0.408													28	132	---	---	---	---	PASS	G	12343540	G	G	12343540	3	3	163	1	0	0	0	0	1	0	0	0	17189	72	3	5	5459	5	VPS13D	1	12343540	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	4530996	12343540	236907081	5	57340										
CASP9	842	broad.mit.edu	37	chr1	15844829	15844829	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaggaagagcctgactccctCgagtctccagatctatgatc	9	12	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:15844829C>G	uc001awn.2	-	2	289	c.194G>C	c.(193-195)CGA>CCA	p.R65P	CASP9_uc001awm.1_Missense_Mutation_p.R65P|CASP9_uc001awo.2_Missense_Mutation_p.R65P|CASP9_uc001awp.2_5'UTR|CASP9_uc009voi.2_5'UTR|CASP9_uc010obm.1_5'UTR|CASP9_uc001awq.2_5'UTR	NM_001229	NP_001220	P55211	CASP9_HUMAN	caspase 9 isoform alpha preproprotein	65	CARD.				activation of caspase activity by cytochrome c|induction of apoptosis by intracellular signals|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol	cysteine-type endopeptidase activity|enzyme activator activity|protein binding			central_nervous_system(1)|kidney(1)	2		Breast(348;0.000207)|all_lung(284;0.000211)|Colorectal(325;0.000259)|Lung NSC(340;0.000269)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;8.49e-07)|COAD - Colon adenocarcinoma(227;4.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00013)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00763)|READ - Rectum adenocarcinoma(331;0.0655)		CTGACTCCCTCGAGTCTCCAG	0.527													4	115	---	---	---	---	PASS	G	15844829	G	G	15844829	3	3	163	1	0	0	0	0	1	0	0	0	2679	884	31	2	1088	2	CASP9	1	15844829	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3501289	15844829	233405792	6	57341										
CROCC	9696	broad.mit.edu	37	chr1	17250858	17250858	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agatggcatcgctgctgtcgCtgcaggaggagaaccagctg	15	10	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:17250858C>T	uc001azt.2	+	3	304	c.235C>T	c.(235-237)CTG>TTG	p.L79L	CROCC_uc009voy.1_Intron|CROCC_uc009voz.1_Intron	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	79	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		GCTGCTGTCGCTGCAGGAGGA	0.642													4	22	---	---	---	---	PASS	T	17250858	T	T	17250858	2	4	163	1	0	0	0	0	0	0	0	1	3893	796	28	3		3	CROCC	1	17250858	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1406029	17250858	231999763	7	57342										
CROCC	9696	broad.mit.edu	37	chr1	17279892	17279892	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggcccggctggaggctgaGaaggaagagctgagtgagga	19	7	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:17279892G>C	uc001azt.2	+	21	3171	c.3102G>C	c.(3100-3102)GAG>GAC	p.E1034D	CROCC_uc009voz.1_Missense_Mutation_p.E633D|CROCC_uc001azu.2_Missense_Mutation_p.E337D	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	1034	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		TGGAGGCTGAGAAGGAAGAGC	0.667													3	20	---	---	---	---	PASS	C	17279892	C	C	17279892	3	2	163	1	0	0	0	0	1	0	0	0	3893	933	33	2	3184	2	CROCC	1	17279892	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	29034	17279892	231970729	8	57343										
PADI1	29943	broad.mit.edu	37	chr1	17552530	17552530	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagggccactctctccagacCtgcaggacatgtccccaatg	10	15	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:17552530C>A	uc001bah.1	+	6	621	c.529C>A	c.(529-531)CTG>ATG	p.L177M		NM_013358	NP_037490	Q9ULC6	PADI1_HUMAN	peptidylarginine deiminase type I	177					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity				0		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00522)|BRCA - Breast invasive adenocarcinoma(304;1.3e-05)|COAD - Colon adenocarcinoma(227;1.31e-05)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(196;0.0069)|READ - Rectum adenocarcinoma(331;0.0681)|Lung(427;0.197)	L-Citrulline(DB00155)	CTCTCCAGACCTGCAGGACAT	0.562													18	86	---	---	---	---	PASS	A	17552530	A	A	17552530	3	1	163	1	0	0	0	0	1	0	0	0	11377	680	24	3	551	3	PADI1	1	17552530	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	272638	17552530	231698091	9	57344										
ACTL8	81569	broad.mit.edu	37	chr1	18152600	18152600	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gactttcgtgagaggcagcaGagtgccttggatgagagcaa	15	7	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:18152600G>C	uc001bat.2	+	3	903	c.687G>C	c.(685-687)CAG>CAC	p.Q229H		NM_030812	NP_110439	Q9H568	ACTL8_HUMAN	actin-like 8	229						cytoplasm|cytoskeleton				ovary(4)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00186)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;6.43e-06)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.00652)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)		AGAGGCAGCAGAGTGCCTTGG	0.607											OREG0013157	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	65	---	---	---	---	PASS	C	18152600	C	C	18152600	3	2	163	1	0	0	0	0	1	0	0	0	202	933	33	2	693	2	ACTL8	1	18152600	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	600070	18152600	231098021	10	57345										
HSPG2	3339	broad.mit.edu	37	chr1	22214545	22214545	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctcggcctccgtgcaggctcTtgggaactggggcactgcag	15	13	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:22214545T>C	uc001bfj.2	-	7	629	c.589A>G	c.(589-591)AGA>GGA	p.R197G	HSPG2_uc009vqd.2_Missense_Mutation_p.R197G|HSPG2_uc009vqe.1_Silent_p.Q95Q	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	197					angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GTGCAGGCTCTTGGGAACTGG	0.632													8	47	---	---	---	---	PASS	C	22214545	C	C	22214545	3	2	163	1	0	0	0	0	1	0	0	0	7430	1617	56	5	12950	5	HSPG2	1	22214545	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	4061945	22214545	227036076	11	57346										
CDC42	998	broad.mit.edu	37	chr1	22413036	22413036	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttcatttgaaaacgtgaaaGaaaaggtaagctgatcagat	9	5	2	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:22413036G>C	uc001bfq.2	+	5	575	c.283G>C	c.(283-285)GAA>CAA	p.E95Q	CDC42_uc009vqg.1_Missense_Mutation_p.E95Q|CDC42_uc001bfp.2_Missense_Mutation_p.E95Q|CDC42_uc001bfr.2_Missense_Mutation_p.E95Q|CDC42_uc010odr.1_Missense_Mutation_p.E140Q|CDC42_uc010ods.1_Missense_Mutation_p.E137Q|CDC42_uc009vqh.2_Missense_Mutation_p.E54Q	NM_001039802	NP_001034891	P60953	CDC42_HUMAN	cell division cycle 42 isoform 1	95					actin cytoskeleton organization|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|establishment or maintenance of cell polarity|macrophage differentiation|muscle cell differentiation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of protein complex assembly|positive regulation of muscle cell differentiation|positive regulation of pseudopodium assembly|regulation of filopodium assembly|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|filopodium|plasma membrane	GTP binding|GTPase activity|protein binding|thioesterase binding			haematopoietic_and_lymphoid_tissue(1)	1		Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;6.55e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)|Prostate(1639;0.0792)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0452)|OV - Ovarian serous cystadenocarcinoma(117;7.32e-26)|Colorectal(126;1.35e-07)|COAD - Colon adenocarcinoma(152;7.73e-06)|GBM - Glioblastoma multiforme(114;8.62e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000649)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00767)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.207)		AAACGTGAAAGAAAAGGTAAG	0.373													25	99	---	---	---	---	PASS	C	22413036	C	C	22413036	3	2	163	1	0	0	0	0	1	0	0	0	3071	943	33	2	293	2	CDC42	1	22413036	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	198491	22413036	226837585	12	57347										
NIPAL3	57185	broad.mit.edu	37	chr1	24795600	24795600	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctcctgccaccctgccagtCatgcaagaagagcacggctc	10	16	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:24795600C>A	uc001bjh.2	+	12	1553	c.1146C>A	c.(1144-1146)GTC>GTA	p.V382V	NIPAL3_uc009vrc.2_Silent_p.V300V	NM_020448	NP_065181	Q6P499	NPAL3_HUMAN	NIPA-like domain containing 3	382						integral to membrane					0						CCCTGCCAGTCATGCAAGAAG	0.507													17	77	---	---	---	---	PASS	A	24795600	A	A	24795600	2	1	163	1	0	0	0	0	0	0	0	1	10426	813	29	2		2	NIPAL3	1	24795600	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	2382564	24795600	224455021	13	57348										
MAN1C1	57134	broad.mit.edu	37	chr1	26085168	26085168	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggaattcttacacctcactGaactctctggcaaccaggtc	7	13	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:26085168G>A	uc001bkm.2	+	6	1345	c.1015G>A	c.(1015-1017)GAA>AAA	p.E339K	MAN1C1_uc009vry.1_Missense_Mutation_p.E159K	NM_020379	NP_065112	Q9NR34	MA1C1_HUMAN	mannosidase, alpha, class 1C, member 1	339	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(1)	1		Colorectal(325;3.78e-05)|Lung NSC(340;0.000181)|all_lung(284;0.000245)|Renal(390;0.000714)|Ovarian(437;0.00159)|Breast(348;0.0156)|Myeloproliferative disorder(586;0.0257)|all_neural(195;0.0515)|Esophageal squamous(538;0.232)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0574)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.15e-07)|COAD - Colon adenocarcinoma(152;4.31e-06)|STAD - Stomach adenocarcinoma(196;0.00125)|BRCA - Breast invasive adenocarcinoma(304;0.00141)|KIRC - Kidney renal clear cell carcinoma(1967;0.00146)|GBM - Glioblastoma multiforme(114;0.0149)|READ - Rectum adenocarcinoma(331;0.0803)		ACACCTCACTGAACTCTCTGG	0.577													15	116	---	---	---	---	PASS	A	26085168	A	A	26085168	3	1	163	1	0	0	0	0	1	0	0	0	9213	1291	45	2	1037	2	MAN1C1	1	26085168	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1289568	26085168	223165453	14	57349										
MAP3K6	9064	broad.mit.edu	37	chr1	27682180	27682180	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgatgcgggtgtagatgagGtcatctcgagtggcataggt	16	6	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:27682180G>T	uc001bny.1	-	28	4017	c.3768C>A	c.(3766-3768)GAC>GAA	p.D1256E	MAP3K6_uc009vsw.1_Missense_Mutation_p.D1248E	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	1256					activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		TGTAGATGAGGTCATCTCGAG	0.532													14	118	---	---	---	---	PASS	T	27682180	T	T	27682180	3	4	163	1	0	0	0	0	1	0	0	0	9254	1252	44	3	106	3	MAP3K6	1	27682180	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1597012	27682180	221568441	15	57350										
PTPRU	10076	broad.mit.edu	37	chr1	29638003	29638003	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggtctatgacttctggcgtAtggtgtggcaggagcactgt	15	7	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:29638003A>G	uc001bru.2	+	21	3033	c.2923A>G	c.(2923-2925)ATG>GTG	p.M975V	PTPRU_uc001brv.2_Missense_Mutation_p.M971V|PTPRU_uc001brw.2_Missense_Mutation_p.M965V|PTPRU_uc009vtq.2_Missense_Mutation_p.M971V|PTPRU_uc009vtr.2_Missense_Mutation_p.M965V	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	975	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		CTTCTGGCGTATGGTGTGGCA	0.627													11	33	---	---	---	---	PASS	G	29638003	G	G	29638003	3	3	163	1	0	0	0	0	1	0	0	0	12813	449	16	5	3027	5	PTPRU	1	29638003	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	1955823	29638003	219612618	16	57351										
GJB3	2707	broad.mit.edu	37	chr1	35250801	35250801	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcattgagttcctcttcctCtacctgctgcacactctctg	5	15	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:35250801C>G	uc001bxx.2	+	2	1053	c.438C>G	c.(436-438)CTC>CTG	p.L146L	GJB3_uc001bxy.2_Silent_p.L146L|GJB3_uc001bxz.3_Silent_p.L146L|uc010ohs.1_Intron	NM_024009	NP_076872	O75712	CXB3_HUMAN	connexin 31	146	Helical; (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				TCCTCTTCCTCTACCTGCTGC	0.582													32	99	---	---	---	---	PASS	G	35250801	G	G	35250801	2	3	163	1	0	0	0	0	0	0	0	1	6409	900	32	2		2	GJB3	1	35250801	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	5612798	35250801	213999820	17	57352										
NCDN	23154	broad.mit.edu	37	chr1	36026776	36026776	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgcctgctatgccctcatgGagttggggatccaggaatgc	13	12	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:36026776G>C	uc001bza.2	+	4	1151	c.1024G>C	c.(1024-1026)GAG>CAG	p.E342Q	NCDN_uc001bzb.2_Missense_Mutation_p.E342Q|NCDN_uc001bzc.2_Missense_Mutation_p.E325Q	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	342					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TGCCCTCATGGAGTTGGGGAT	0.602													5	10	---	---	---	---	PASS	C	36026776	C	C	36026776	3	2	163	1	0	0	0	0	1	0	0	0	10214	1175	41	2	1034	2	NCDN	1	36026776	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	775975	36026776	213223845	18	57353										
CSF3R	1441	broad.mit.edu	37	chr1	36935300	36935300	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cattctgttccatcctccagGtcttgttgctattgctcgcg	8	13	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:36935300G>A	uc001caw.1	-	11	1605	c.1427C>T	c.(1426-1428)ACC>ATC	p.T476I	CSF3R_uc001cat.1_Missense_Mutation_p.T39I|CSF3R_uc009vvc.1_Missense_Mutation_p.T39I|CSF3R_uc001cau.1_5'UTR|CSF3R_uc001cav.1_Missense_Mutation_p.T476I|CSF3R_uc001cax.1_Missense_Mutation_p.T476I|CSF3R_uc001cay.1_Missense_Mutation_p.T476I	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	476	Extracellular (Potential).|Fibronectin type-III 4.				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	CATCCTCCAGGTCTTGTTGCT	0.627													27	181	---	---	---	---	PASS	A	36935300	A	A	36935300	3	1	163	1	0	0	0	0	1	0	0	0	3937	1261	44	3	1301	3	CSF3R	1	36935300	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	908524	36935300	212315321	19	57354										
MACF1	23499	broad.mit.edu	37	chr1	39903536	39903536	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cactgatccctgctgaagtaGacaagatcagagagtgcatc	10	10	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:39903536G>C	uc010oiu.1	+	36	13536	c.13405G>C	c.(13405-13407)GAC>CAC	p.D4469H	MACF1_uc010ois.1_Missense_Mutation_p.D3967H	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)			TGCTGAAGTAGACAAGATCAG	0.478													53	455	---	---	---	---	PASS	C	39903536	C	C	39903536	3	2	163	1	0	0	0	0	1	0	0	0	9144	942	33	2	18316	2	MACF1	1	39903536	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2968236	39903536	209347085	20	57355										
MACF1	23499	broad.mit.edu	37	chr1	39914334	39914334	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attagaactggcagagcactGaaagaaaagactttgcttcc	9	8	0	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:39914334G>A	uc010oiu.1	+	49	15617	c.15486G>A	c.(15484-15486)CTG>CTA	p.L5162L	MACF1_uc010ois.1_Silent_p.L4660L	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	6728	Spectrin 16.				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)			GCAGAGCACTGAAAGAAAAGA	0.418													20	278	---	---	---	---	PASS	A	39914334	A	A	39914334	2	1	163	1	0	0	0	0	0	0	0	1	9144	1277	45	2		2	MACF1	1	39914334	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	10798	39914334	209336287	21	57356										
COL9A2	1298	broad.mit.edu	37	chr1	40777372	40777372	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgggggccccgatggtccatCtggtccagggtccccctgga	15	14	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:40777372C>T	uc001cfh.1	-	9	503	c.433G>A	c.(433-435)GAT>AAT	p.D145N	COL9A2_uc001cfi.1_5'UTR	NM_001852	NP_001843	Q14055	CO9A2_HUMAN	alpha 2 type IX collagen precursor	145	Triple-helical region 4 (COL4).				axon guidance|skeletal system development	collagen type IX				ovary(2)	2	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.08e-17)			GATGGTCCATCTGGTCCAGGG	0.607													29	294	---	---	---	---	PASS	T	40777372	T	T	40777372	3	4	163	1	0	0	0	0	1	0	0	0	3708	913	32	2	1732	2	COL9A2	1	40777372	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	863038	40777372	208473249	22	57357										
IPO13	9670	broad.mit.edu	37	chr1	44422280	44422280	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagagtttcctggcactcgtCaacatgattatgttctgcac	8	11	2	2	rs143861524		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:44422280C>A	uc001ckx.2	+	4	1806	c.1011C>A	c.(1009-1011)GTC>GTA	p.V337V		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	337	HEAT 5.				protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				TGGCACTCGTCAACATGATTA	0.542													33	241	---	---	---	---	PASS	A	44422280	A	A	44422280	2	1	163	1	0	0	0	0	0	0	0	1	7794	813	29	2		2	IPO13	1	44422280	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	3644908	44422280	204828341	23	57358										
ZSWIM5	57643	broad.mit.edu	37	chr1	45484142	45484142	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctctcagccaaagcgctctCgcaccagcagcatcaacttt	6	16	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:45484142C>T	uc001cnd.2	-	14	3770	c.3542G>A	c.(3541-3543)CGA>CAA	p.R1181Q		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	1181							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					AAAGCGCTCTCGCACCAGCAG	0.542											OREG0013450	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	286	---	---	---	---	PASS	T	45484142	T	T	45484142	3	4	163	1	0	0	0	0	1	0	0	0	18241	884	31	2	19	2	ZSWIM5	1	45484142	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1061862	45484142	203766479	24	57359										
NASP	4678	broad.mit.edu	37	chr1	46073007	46073007	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgtagaggaagcaagggaaGagttgagagaacaggtttat	15	2	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:46073007G>C	uc001coi.1	+	6	526	c.424G>C	c.(424-426)GAG>CAG	p.E142Q	NASP_uc010olq.1_Missense_Mutation_p.E105Q|NASP_uc001coh.1_Missense_Mutation_p.E144Q|NASP_uc001coj.1_Intron|NASP_uc010olr.1_Missense_Mutation_p.E78Q|NASP_uc001cok.1_Missense_Mutation_p.E25Q	NM_002482	NP_002473	P49321	NASP_HUMAN	nuclear autoantigenic sperm protein isoform 2	142	Potential.|Glu-rich (acidic).				blastocyst development|cell cycle|cell proliferation|DNA replication|histone exchange|protein transport	cytoplasm|nucleus	Hsp90 protein binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.211)					AGCAAGGGAAGAGTTGAGAGA	0.368													8	81	---	---	---	---	PASS	C	46073007	C	C	46073007	3	2	163	1	0	0	0	0	1	0	0	0	10172	943	33	2	523	2	NASP	1	46073007	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	588865	46073007	203177614	25	57360										
MAST2	23139	broad.mit.edu	37	chr1	46489559	46489559	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggccttcgtggagcgtgacAtactgactttcgctgagaac	12	10	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:46489559A>T	uc001cov.2	+	15	1970	c.1687A>T	c.(1687-1689)ATA>TTA	p.I563L	MAST2_uc001cow.2_Missense_Mutation_p.I563L|MAST2_uc001coy.1_Missense_Mutation_p.I237L|MAST2_uc001coz.1_Missense_Mutation_p.I448L|MAST2_uc009vya.2_Missense_Mutation_p.I485L|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	563	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)					GGAGCGTGACATACTGACTTT	0.532													31	91	---	---	---	---	PASS	T	46489559	T	T	46489559	3	4	163	1	0	0	0	0	1	0	0	0	9325	217	8	5	1745	5	MAST2	1	46489559	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	416552	46489559	202761062	26	57361										
EPS15	2060	broad.mit.edu	37	chr1	51822469	51822469	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caagcctctgctcttcctctCtctcactttccctcttggcc	4	19	5	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:51822469C>T	uc001csq.1	-	25	2686	c.2594G>A	c.(2593-2595)AGA>AAA	p.R865K	EPS15_uc009vyz.1_Missense_Mutation_p.R731K|EPS15_uc001csp.3_Missense_Mutation_p.R551K	NM_001981	NP_001972	P42566	EPS15_HUMAN	epidermal growth factor receptor pathway	865	UIM 1.				cell proliferation|clathrin coat assembly|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|protein transport	cytosol|early endosome membrane	calcium ion binding|SH3 domain binding			lung(1)|kidney(1)	2						CTCTTCCTCTCTCTCACTTTC	0.413			T	MLL	ALL								22	156	---	---	---	---	PASS	T	51822469	T	T	51822469	3	4	163	1	0	0	0	0	1	0	0	0	5192	913	32	2	100	2	EPS15	1	51822469	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5332910	51822469	197428152	27	57362										
ZYG11B	79699	broad.mit.edu	37	chr1	53262027	53262027	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaggatcaaaacatgcaaagGatggcagttgctatcatttc	10	7	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:53262027G>C	uc001cuj.2	+	7	1593	c.1398G>C	c.(1396-1398)AGG>AGC	p.R466S	ZYG11B_uc009vzg.2_RNA|ZYG11B_uc010onj.1_Missense_Mutation_p.R457S|ZYG11B_uc009vzh.2_5'Flank	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B	466							protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						ACATGCAAAGGATGGCAGTTG	0.418													4	130	---	---	---	---	PASS	C	53262027	C	C	53262027	3	2	163	1	0	0	0	0	1	0	0	0	18250	1165	41	2	1424	2	ZYG11B	1	53262027	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1439558	53262027	195988594	28	57363										
SLC1A7	6512	broad.mit.edu	37	chr1	53554633	53554633	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcatcacccagcacgttaatCatggtgcggaaacggtccct	10	13	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:53554633C>A	uc001cuy.2	-	10	1548	c.1380G>T	c.(1378-1380)ATG>ATT	p.M460I	SLC1A7_uc001cux.2_Missense_Mutation_p.M113I	NM_006671	NP_006662	O00341	EAA5_HUMAN	solute carrier family 1 (glutamate transporter),	460	Helical; (Potential).					integral to membrane|plasma membrane	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|large_intestine(1)	3				Colorectal(1306;0.234)	L-Glutamic Acid(DB00142)	GCACGTTAATCATGGTGCGGA	0.592													7	99	---	---	---	---	PASS	A	53554633	A	A	53554633	3	1	163	1	0	0	0	0	1	0	0	0	14437	826	29	2	310	2	SLC1A7	1	53554633	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	292606	53554633	195695988	29	57364										
TTC4	7268	broad.mit.edu	37	chr1	55194063	55194063	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaagccaacttgaaagaaaaGaaggagaggaatcagaatga	11	4	1	6			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:55194063G>C	uc001cxx.3	+	6	692	c.639G>C	c.(637-639)AAG>AAC	p.K213N	C1orf175_uc001cxq.2_RNA|TTC4_uc001cxw.3_Missense_Mutation_p.K213N|TTC4_uc001cxv.2_Missense_Mutation_p.K224N	NM_004623	NP_004614	O95801	TTC4_HUMAN	tetratricopeptide repeat domain 4	213							binding				0						TGAAAGAAAAGAAGGAGAGGA	0.418													15	53	---	---	---	---	PASS	C	55194063	C	C	55194063	3	2	163	1	0	0	0	0	1	0	0	0	16707	933	33	2	661	2	TTC4	1	55194063	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1639430	55194063	194056558	30	57365										
TMEM61	199964	broad.mit.edu	37	chr1	55457683	55457683	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccacccagctatgagagcatCagccttgctcttgatgccgt	9	14	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:55457683C>G	uc001cyd.2	+	3	814	c.540C>G	c.(538-540)ATC>ATG	p.I180M		NM_182532	NP_872338	Q8N0U2	TMM61_HUMAN	transmembrane protein 61	180						integral to membrane					0						ATGAGAGCATCAGCCTTGCTC	0.622													6	243	---	---	---	---	PASS	G	55457683	G	G	55457683	3	3	163	1	0	0	0	0	1	0	0	0	16185	816	29	2	550	2	TMEM61	1	55457683	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	263620	55457683	193792938	31	57366										
DAB1	1600	broad.mit.edu	37	chr1	57480785	57480785	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgcccattttctgcctgggCttgtcggtctgtggacttga	12	10	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:57480785C>G	uc001cys.1	-	14	1889	c.1215G>C	c.(1213-1215)AAG>AAC	p.K405N	DAB1_uc001cyt.1_Missense_Mutation_p.K403N|DAB1_uc001cyq.1_Missense_Mutation_p.K403N|DAB1_uc001cyr.1_Missense_Mutation_p.K319N|DAB1_uc009vzw.1_Missense_Mutation_p.K387N|DAB1_uc009vzx.1_Missense_Mutation_p.K405N	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	438					cell differentiation|nervous system development					skin(2)|ovary(1)	3						TCTGCCTGGGCTTGTCGGTCT	0.602													22	157	---	---	---	---	PASS	G	57480785	G	G	57480785	3	3	163	1	0	0	0	0	1	0	0	0	4217	796	28	4	464	4	DAB1	1	57480785	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2023102	57480785	191769836	32	57367										
KANK4	163782	broad.mit.edu	37	chr1	62739549	62739549	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgttcaccatcacgtccgtCtggccctgagtgtctttggc	11	13	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:62739549C>G	uc001dah.3	-	3	1604	c.1227G>C	c.(1225-1227)CAG>CAC	p.Q409H	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	409										ovary(3)|skin(2)|lung(1)	6						TCACGTCCGTCTGGCCCTGAG	0.512													54	351	---	---	---	---	PASS	G	62739549	G	G	62739549	3	3	163	1	0	0	0	0	1	0	0	0	7979	912	32	2	1792	2	KANK4	1	62739549	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5258764	62739549	186511072	33	57368										
DOCK7	85440	broad.mit.edu	37	chr1	62960018	62960018	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaatattcagcaacaagtgcTgctgagtggactagacactg	10	8	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:62960018T>G	uc001daq.2	-	40	5152	c.5118A>C	c.(5116-5118)GCA>GCC	p.A1706A	DOCK7_uc001dan.2_Silent_p.A1567A|DOCK7_uc001dao.2_Silent_p.A1567A|DOCK7_uc001dap.2_Silent_p.A1684A|DOCK7_uc001dam.2_Silent_p.A886A|DOCK7_uc010oov.1_Silent_p.A445A	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1715	DHR-2.				activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						CAACAAGTGCTGCTGAGTGGA	0.468													55	87	---	---	---	---	PASS	G	62960018	G	G	62960018	2	3	163	1	0	0	0	0	0	0	0	1	4692	1567	55	5		5	DOCK7	1	62960018	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	220469	62960018	186290603	34	57369										
CACHD1	57685	broad.mit.edu	37	chr1	65130343	65130343	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccctcatggacaaagcatttGatcccactaggagacaatgg	9	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:65130343G>C	uc001dbo.1	+	15	2209	c.2104G>C	c.(2104-2106)GAT>CAT	p.D702H	CACHD1_uc001dbp.1_Missense_Mutation_p.D457H|CACHD1_uc001dbq.1_Missense_Mutation_p.D457H|CACHD1_uc010opa.1_5'Flank	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	753	Extracellular (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						CAAAGCATTTGATCCCACTAG	0.453													38	282	---	---	---	---	PASS	C	65130343	C	C	65130343	3	2	163	1	0	0	0	0	1	0	0	0	2537	1290	45	2	2162	2	CACHD1	1	65130343	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2170325	65130343	184120278	35	57370										
SGIP1	84251	broad.mit.edu	37	chr1	67109381	67109381	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaggcatcaataggcaacatCgcactttccccatcaccagt	6	14	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:67109381C>A	uc001dcr.2	+	7	655	c.438C>A	c.(436-438)ATC>ATA	p.I146I	SGIP1_uc010opd.1_5'UTR|SGIP1_uc001dcs.2_5'UTR|SGIP1_uc001dct.2_5'UTR	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	146					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						TAGGCAACATCGCACTTTCCC	0.378													40	381	---	---	---	---	PASS	A	67109381	A	A	67109381	2	1	163	1	0	0	0	0	0	0	0	1	14206	874	31	2		2	SGIP1	1	67109381	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1979038	67109381	182141240	36	57371										
LRRC7	57554	broad.mit.edu	37	chr1	70482164	70482164	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcagattgaagaatttaccaTtctcatttaccaaacttaaa	4	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:70482164T>C	uc001dep.2	+	12	1183	c.1153T>C	c.(1153-1155)TTC>CTC	p.F385L	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	385	LRR 16.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GAATTTACCATTCTCATTTAC	0.254													23	163	---	---	---	---	PASS	C	70482164	C	C	70482164	3	2	163	1	0	0	0	0	1	0	0	0	9020	1493	52	5	1199	5	LRRC7	1	70482164	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	3372783	70482164	178768457	37	57372										
TNNI3K	51086	broad.mit.edu	37	chr1	74834918	74834918	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgggaaagtatataaaggacGatgcagaaataaaatagtgg	12	2	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:74834918G>T	uc001dgf.1	+	15	1493	c.1442G>T	c.(1441-1443)CGA>CTA	p.R481L	TNNI3K_uc001dgc.1_Missense_Mutation_p.R582L|TNNI3K_uc001dgd.2_Missense_Mutation_p.R582L|TNNI3K_uc001dge.1_Missense_Mutation_p.R582L	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	481	Protein kinase.					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						TATAAAGGACGATGCAGAAAT	0.313													7	132	---	---	---	---	PASS	T	74834918	T	T	74834918	3	4	163	1	0	0	0	0	1	0	0	0	16326	1058	37	2	1855	2	TNNI3K	1	74834918	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4352754	74834918	174415703	38	57373										
TNNI3K	51086	broad.mit.edu	37	chr1	75005943	75005943	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gacaatattcctctcaaggtCtgtctttggaggagatgaaa	10	7	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:75005943C>A	uc001dgf.1	+	24	2428	c.2377C>A	c.(2377-2379)CTG>ATG	p.L793M	TNNI3K_uc001dge.1_Missense_Mutation_p.L894M	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	793						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						CTCTCAAGGTCTGTCTTTGGA	0.348													110	94	---	---	---	---	PASS	A	75005943	A	A	75005943	3	1	163	1	0	0	0	0	1	0	0	0	16326	912	32	2	2826	2	TNNI3K	1	75005943	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	171025	75005943	174244678	39	57374										
C1orf173	127254	broad.mit.edu	37	chr1	75036851	75036851	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcagtctcgctttctccttGcaccatatgctgttgcttct	7	13	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:75036851G>T	uc001dgg.2	-	14	4762	c.4543C>A	c.(4543-4545)CAA>AAA	p.Q1515K		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1515										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTTTCTCCTTGCACCATATGC	0.502													311	278	---	---	---	---	PASS	T	75036851	T	T	75036851	3	4	163	1	0	0	0	0	1	0	0	0	2014	1328	46	3	53	3	C1orf173	1	75036851	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	30908	75036851	174213770	40	57375										
C1orf173	127254	broad.mit.edu	37	chr1	75097467	75097467	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttctccttctccatgtttcaGatctattttctcttgtgatt	4	10	5	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:75097467G>T	uc001dgg.2	-	7	968	c.749C>A	c.(748-750)TCT>TAT	p.S250Y	C1orf173_uc001dgi.3_Missense_Mutation_p.S44Y	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	250										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CCATGTTTCAGATCTATTTTC	0.373													34	284	---	---	---	---	PASS	T	75097467	T	T	75097467	3	4	163	1	0	0	0	0	1	0	0	0	2014	942	33	2	3875	2	C1orf173	1	75097467	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	60616	75097467	174153154	41	57376										
CRYZ	1429	broad.mit.edu	37	chr1	75185054	75185054	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctagtgaaaactctgtcaccTttctaggggaagagataaat	9	7	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:75185054T>A	uc001dgk.2	-	5	772	c.267A>T	c.(265-267)AAA>AAT	p.K89N	CRYZ_uc001dgj.2_Missense_Mutation_p.K89N|CRYZ_uc001dgl.2_Missense_Mutation_p.K89N|CRYZ_uc001dgm.2_Intron	NM_001130042	NP_001123514	Q08257	QOR_HUMAN	crystallin, zeta isoform a	89					protein homotetramerization|visual perception|xenobiotic catabolic process	cytosol|Golgi apparatus	mRNA 3'-UTR binding|NADPH binding|NADPH:quinone reductase activity|zinc ion binding				0					Dicumarol(DB00266)	CTCTGTCACCTTTCTAGGGGA	0.373													12	95	---	---	---	---	PASS	A	75185054	A	A	75185054	3	1	163	1	0	0	0	0	1	0	0	0	3922	1606	56	5	746	5	CRYZ	1	75185054	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	87587	75185054	174065567	42	57377										
LHX8	431707	broad.mit.edu	37	chr1	75602794	75602794	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtttcctgcaggtgagccccGagggagcgggggacgaggac	19	10	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:75602794G>A	uc001dgo.2	+	4	779	c.115G>A	c.(115-117)GAG>AAG	p.E39K	LHX8_uc001dgq.2_5'UTR	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	39						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						GGTGAGCCCCGAGGGAGCGGG	0.731													8	94	---	---	---	---	PASS	A	75602794	A	A	75602794	3	1	163	1	0	0	0	0	1	0	0	0	8776	1059	37	2	125	2	LHX8	1	75602794	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	417740	75602794	173647827	43	57378										
ST6GALNAC5	81849	broad.mit.edu	37	chr1	77510165	77510165	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccagcagctacatgcggcggGacggcaagggccaggtctac	15	13	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:77510165G>C	uc001dhi.2	+	3	713	c.538G>C	c.(538-540)GAC>CAC	p.D180H	ST6GALNAC5_uc010ori.1_Intron|ST6GALNAC5_uc009wbw.2_RNA	NM_030965	NP_112227	Q9BVH7	SIA7E_HUMAN	sialyltransferase 7E	180	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			pancreas(1)|skin(1)	2						CATGCGGCGGGACGGCAAGGG	0.602													24	147	---	---	---	---	PASS	C	77510165	C	C	77510165	3	2	163	1	0	0	0	0	1	0	0	0	15226	1174	41	2	548	2	ST6GALNAC5	1	77510165	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1907371	77510165	171740456	44	57379										
PRKACB	5567	broad.mit.edu	37	chr1	84700929	84700929	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcaactttgatgactatgaaGaagaagatatccgtgtctct	9	7	1	6			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:84700929G>A	uc001djj.2	+	10	1261	c.997G>A	c.(997-999)GAA>AAA	p.E333K	PRKACB_uc001djl.2_Missense_Mutation_p.E380K|PRKACB_uc010ort.1_Missense_Mutation_p.E340K|PRKACB_uc001djn.2_Missense_Mutation_p.E337K|PRKACB_uc010oru.1_Missense_Mutation_p.E321K|PRKACB_uc001djp.2_Missense_Mutation_p.E339K|PRKACB_uc001djq.2_Missense_Mutation_p.E303K|PRKACB_uc010orv.1_Missense_Mutation_p.E320K	NM_002731	NP_002722	P22694	KAPCB_HUMAN	cAMP-dependent protein kinase catalytic subunit	333	AGC-kinase C-terminal.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|regulation of insulin secretion|synaptic transmission|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|magnesium ion binding|protein binding			lung(2)|ovary(1)	3				all cancers(265;0.00536)|Epithelial(280;0.0161)|OV - Ovarian serous cystadenocarcinoma(397;0.141)		TGACTATGAAGAAGAAGATAT	0.368													19	159	---	---	---	---	PASS	A	84700929	A	A	84700929	3	1	163	1	0	0	0	0	1	0	0	0	12498	943	33	2	1239	2	PRKACB	1	84700929	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	7190764	84700929	164549692	45	57380										
SYDE2	84144	broad.mit.edu	37	chr1	85624809	85624809	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccttggcctaagtactcctGatgaatcagtaccactcaaa	7	12	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:85624809G>C	uc009wcm.2	-	7	3258	c.3209C>G	c.(3208-3210)TCA>TGA	p.S1070*		NM_032184	NP_115560	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2	1070					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|central_nervous_system(1)	2				all cancers(265;0.0126)|Epithelial(280;0.0336)		AAGTACTCCTGATGAATCAGT	0.408													10	331	---	---	---	---	PASS	C	85624809	C	C	85624809	4	2	163	1	0	0	0	0	0	1	0	0	15433	1294	45	2	379	2	SYDE2	1	85624809	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	923880	85624809	163625812	46	57381										
COL24A1	255631	broad.mit.edu	37	chr1	86374306	86374306	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcccaatggaccgataggtCctggaaccccaggaggacct	11	13	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:86374306C>T	uc001dlj.2	-	27	2741	c.2699G>A	c.(2698-2700)GGA>GAA	p.G900E	COL24A1_uc001dli.2_Missense_Mutation_p.G36E|COL24A1_uc010osd.1_Missense_Mutation_p.G200E|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	900	Collagen-like 7.				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)		ACCGATAGGTCCTGGAACCCC	0.328													3	28	---	---	---	---	PASS	T	86374306	T	T	86374306	3	4	163	1	0	0	0	0	1	0	0	0	3683	855	30	2	2581	2	COL24A1	1	86374306	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	749497	86374306	162876315	47	57382										
CLCA2	9635	broad.mit.edu	37	chr1	86907182	86907182	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcatgattgatgctttcagtAgaatttcctctggaactgga	10	7	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:86907182A>T	uc001dlr.3	+	9	1606	c.1444A>T	c.(1444-1446)AGA>TGA	p.R482*		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor	482	VWFA.|Extracellular (Potential).				cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		TGCTTTCAGTAGAATTTCCTC	0.378													7	92	---	---	---	---	PASS	T	86907182	T	T	86907182	4	4	163	1	0	0	0	0	0	1	0	0	3458	412	15	5	1478	5	CLCA2	1	86907182	Nonsense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	532876	86907182	162343439	48	57383										
GBP4	115361	broad.mit.edu	37	chr1	89652147	89652147	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctccatcatttgctgctgctCcttctgtttttctcttagca	5	13	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:89652147C>A	uc001dnb.2	-	10	1692	c.1576G>T	c.(1576-1578)GAG>TAG	p.E526*		NM_052941	NP_443173	Q96PP9	GBP4_HUMAN	guanylate binding protein 4	526	Potential.					cytoplasm	GTP binding|GTPase activity				0				all cancers(265;0.00723)|Epithelial(280;0.0291)		TGCTGCTGCTCCTTCTGTTTT	0.478													16	77	---	---	---	---	PASS	A	89652147	A	A	89652147	4	1	163	1	0	0	0	0	0	1	0	0	6276	864	30	2	354	2	GBP4	1	89652147	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2744965	89652147	159598474	49	57384										
GBP5	115362	broad.mit.edu	37	chr1	89729533	89729533	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccctgcttcactgcttcttcTagaggaccaaaaatatcctt	5	13	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:89729533T>C	uc001dnc.2	-	9	1785	c.1248A>G	c.(1246-1248)CTA>CTG	p.L416L	GBP5_uc001dnd.2_Silent_p.L416L|GBP5_uc001dne.1_Silent_p.L416L	NM_052942	NP_443174	Q96PP8	GBP5_HUMAN	guanylate-binding protein 5	416						plasma membrane	GTP binding|GTPase activity			ovary(1)	1				all cancers(265;0.00784)|Epithelial(280;0.0286)		CTGCTTCTTCTAGAGGACCAA	0.418													74	392	---	---	---	---	PASS	C	89729533	C	C	89729533	2	2	163	1	0	0	0	0	0	0	0	1	6277	1509	53	5		5	GBP5	1	89729533	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	77386	89729533	159521088	50	57385										
GLMN	11146	broad.mit.edu	37	chr1	92737089	92737089	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagatatgccagagaagccaTtgagtctgctaactgtttat	9	7	1	3	rs139743855		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:92737089T>C	uc001dor.2	-	8	971	c.856A>G	c.(856-858)ATG>GTG	p.M286V	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Missense_Mutation_p.M286V	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	286	Potential.				muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		AGAGAAGCCATTGAGTCTGCT	0.353									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				26	185	---	---	---	---	PASS	C	92737089	C	C	92737089	3	2	163	1	0	0	0	0	1	0	0	0	6448	1493	52	5	976	5	GLMN	1	92737089	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	3007556	92737089	156513532	51	57386										
DBT	1629	broad.mit.edu	37	chr1	100671853	100671853	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggtttggcaaaggtaccaCcaatctattttttaaaaaaa	6	7	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:100671853C>G	uc001dta.2	-	10	1247	c.1214G>C	c.(1213-1215)GGT>GCT	p.G405A	DBT_uc010oug.1_Missense_Mutation_p.G224A	NM_001918	NP_001909	P11182	ODB2_HUMAN	dihydrolipoamide branched chain transacylase	405					branched chain family amino acid catabolic process|fatty-acyl-CoA biosynthetic process	microtubule cytoskeleton|mitochondrial alpha-ketoglutarate dehydrogenase complex|mitochondrial nucleoid	acyltransferase activity|cofactor binding|dihydrolipoyllysine-residue (2-methylpropanoyl)transferase activity|protein binding			pancreas(1)	1		all_epithelial(167;5.4e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0739)|all cancers(265;0.123)|COAD - Colon adenocarcinoma(174;0.154)|Lung(183;0.199)		AAAGGTACCACCAATCtattt	0.323													16	51	---	---	---	---	PASS	G	100671853	G	G	100671853	3	3	163	1	0	0	0	0	1	0	0	0	4258	507	18	4	242	4	DBT	1	100671853	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	7934764	100671853	148578768	52	57387										
C1orf59	113802	broad.mit.edu	37	chr1	109197375	109197375	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caagtcaaatccaagcaaacGagagtctctctccacaacgg	7	13	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:109197375G>A	uc001dvt.3	-	5	599	c.361C>T	c.(361-363)CGT>TGT	p.R121C	C1orf59_uc001dvu.3_Missense_Mutation_p.R121C|C1orf59_uc009wer.2_Missense_Mutation_p.R121C	NM_001102592	NP_001096062	Q5T8I9	HENMT_HUMAN	hypothetical protein LOC113802	121					gene silencing by RNA|piRNA metabolic process	P granule	metal ion binding|O-methyltransferase activity|RNA binding|RNA methyltransferase activity				0		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0152)|Lung(183;0.0895)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.163)		CCAAGCAAACGAGAGTCTCTC	0.403													20	65	---	---	---	---	PASS	A	109197375	A	A	109197375	3	1	163	1	0	0	0	0	1	0	0	0	2051	1058	37	2	836	2	C1orf59	1	109197375	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	8525522	109197375	140053246	53	57388										
AKNAD1	254268	broad.mit.edu	37	chr1	109391602	109391602	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttcccttgggatatcttttGaaatatgtaagaagaacttg	8	5	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:109391602G>C	uc001dwa.2	-	4	1383	c.1114C>G	c.(1114-1116)CAA>GAA	p.Q372E	AKNAD1_uc010ovb.1_Missense_Mutation_p.Q79E|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	372	Potential.									ovary(3)	3						GATATCTTTTGAAATATGTAA	0.343													13	225	---	---	---	---	PASS	C	109391602	C	C	109391602	3	2	163	1	0	0	0	0	1	0	0	0	464	1299	45	2	1448	2	AKNAD1	1	109391602	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	194227	109391602	139859019	54	57389										
AMIGO1	57463	broad.mit.edu	37	chr1	110050902	110050902	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggtacagcccattcttgatCcaggccggcagcttctgcag	11	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:110050902C>A	uc001dxx.3	-	2	1015	c.633G>T	c.(631-633)TGG>TGT	p.W211C		NM_020703	NP_065754	Q86WK6	AMGO1_HUMAN	AMIGO protein precursor	211	Extracellular (Potential).				axonal fasciculation|heterophilic cell-cell adhesion|homophilic cell adhesion|myelination|positive regulation of axonogenesis	axon|integral to membrane				ovary(1)|breast(1)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Colorectal(144;0.0129)|Lung(183;0.0182)|Epithelial(280;0.046)|all cancers(265;0.0492)|READ - Rectum adenocarcinoma(129;0.0689)|LUSC - Lung squamous cell carcinoma(189;0.227)		CATTCTTGATCCAGGCCGGCA	0.527													33	168	---	---	---	---	PASS	A	110050902	A	A	110050902	3	1	163	1	0	0	0	0	1	0	0	0	575	856	30	2	852	2	AMIGO1	1	110050902	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	659300	110050902	139199719	55	57390										
GSTM4	2948	broad.mit.edu	37	chr1	110201676	110201676	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgacctccaccgtatatttGagcccaactgcttggacgcc	8	14	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:110201676G>C	uc001dyf.2	+	7	825	c.511G>C	c.(511-513)GAG>CAG	p.E171Q	GSTM4_uc001dyg.2_Missense_Mutation_p.E67Q|GSTM4_uc009wfj.2_Missense_Mutation_p.E110Q|GSTM4_uc001dyh.2_Missense_Mutation_p.E171Q|GSTM2_uc001dyi.2_Intron	NM_000850	NP_000841	Q03013	GSTM4_HUMAN	glutathione S-transferase mu 4 isoform 1	171	GST C-terminal.				xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity				0		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		all cancers(265;0.0123)|Colorectal(144;0.0129)|Epithelial(280;0.0147)|Lung(183;0.0422)|COAD - Colon adenocarcinoma(174;0.0471)|LUSC - Lung squamous cell carcinoma(189;0.227)	Glutathione(DB00143)	CCGTATATTTGAGCCCAACTG	0.502													122	623	---	---	---	---	PASS	C	110201676	C	C	110201676	3	2	163	1	0	0	0	0	1	0	0	0	6840	1291	45	2	537	2	GSTM4	1	110201676	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	150774	110201676	139048945	56	57391										
SLC16A4	9122	broad.mit.edu	37	chr1	110925519	110925519	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aatttgctctgaggtgccttCaaactcttcttgaaagacca	7	10	4	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:110925519C>T	uc001dzo.1	-	3	339	c.157G>A	c.(157-159)GAA>AAA	p.E53K	SLC16A4_uc009wfs.1_Missense_Mutation_p.E53K|SLC16A4_uc001dzp.1_Missense_Mutation_p.E53K|SLC16A4_uc010ovy.1_Intron|SLC16A4_uc001dzq.1_Intron|SLC16A4_uc010ovz.1_Intron	NM_004696	NP_004687	O15374	MOT5_HUMAN	solute carrier family 16, member 4	53	Extracellular (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			ovary(3)	3		all_cancers(81;0.000476)|all_epithelial(167;0.000401)|all_lung(203;0.00277)|Lung NSC(277;0.0043)		Lung(183;0.0251)|all cancers(265;0.0766)|Epithelial(280;0.0807)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.14)	Pyruvic acid(DB00119)	GAGGTGCCTTCAAACTCTTCT	0.418													28	128	---	---	---	---	PASS	T	110925519	T	T	110925519	3	4	163	1	0	0	0	0	1	0	0	0	14410	835	29	2	1334	2	SLC16A4	1	110925519	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	723843	110925519	138325102	57	57392										
HIPK1	204851	broad.mit.edu	37	chr1	114483936	114483936	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaagctcaagagtcttggtCtgatccacgctgaccttaag	10	10	3	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:114483936C>T	uc001eem.2	+	2	1092	c.931C>T	c.(931-933)CTG>TTG	p.L311L	HIPK1_uc001eel.2_Silent_p.L311L|HIPK1_uc001een.2_Silent_p.L311L	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	311	Protein kinase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAGTCTTGGTCTGATCCACGC	0.478													31	177	---	---	---	---	PASS	T	114483936	T	T	114483936	2	4	163	1	0	0	0	0	0	0	0	1	7116	912	32	2		2	HIPK1	1	114483936	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	3558417	114483936	134766685	58	57393										
C1orf161	126868	broad.mit.edu	37	chr1	116666819	116666819	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cctgcccgttgcgggaccctGagggtctgcagcagtggctg	16	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:116666819G>A	uc001egc.1	+	4	587	c.322G>A	c.(322-324)GAG>AAG	p.E108K		NM_152367	NP_689580	Q8N8X9	MB213_HUMAN	hypothetical protein LOC126868	108											0	Lung SC(450;0.184)	all_cancers(81;0.00142)|all_lung(203;0.000139)|all_epithelial(167;0.000401)|Lung NSC(69;0.000705)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		GCGGGACCCTGAGGGTCTGCA	0.607													13	88	---	---	---	---	PASS	A	116666819	A	A	116666819	3	1	163	1	0	0	0	0	1	0	0	0	2009	1291	45	2	332	2	C1orf161	1	116666819	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2182883	116666819	132583802	59	57394										
CD2	914	broad.mit.edu	37	chr1	117297467	117297467	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctatttaaaaatggaactctGaaaattaagcatctgaagac	6	6	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:117297467G>C	uc001egu.3	+	2	305	c.276G>C	c.(274-276)CTG>CTC	p.L92L	CD2_uc010owz.1_Silent_p.L92L|CD2_uc010oxa.1_Silent_p.L92L	NM_001767	NP_001758	P06729	CD2_HUMAN	CD2 molecule precursor	92	Extracellular (Potential).|Ig-like V-type.				blood coagulation|cell surface receptor linked signaling pathway|cell-cell adhesion|induction of apoptosis|leukocyte migration|membrane raft polarization|natural killer cell activation|positive regulation of myeloid dendritic cell activation|regulation of T cell differentiation|T cell activation	integral to plasma membrane	receptor activity			breast(1)	1	Lung SC(450;0.225)	all_cancers(81;3.15e-06)|Acute lymphoblastic leukemia(138;1.7e-08)|all_epithelial(167;8.38e-07)|all_lung(203;3.37e-06)|Lung NSC(69;2.31e-05)		Epithelial(280;6.71e-26)|OV - Ovarian serous cystadenocarcinoma(397;4.74e-24)|all cancers(265;1.93e-22)|Lung(183;0.0543)|Kidney(133;0.0813)|Colorectal(144;0.174)|KIRC - Kidney renal clear cell carcinoma(1967;0.176)|LUSC - Lung squamous cell carcinoma(189;0.189)|BRCA - Breast invasive adenocarcinoma(282;0.201)	Alefacept(DB00092)	ATGGAACTCTGAAAATTAAGC	0.294													11	85	---	---	---	---	PASS	C	117297467	C	C	117297467	2	2	163	1	0	0	0	0	0	0	0	1	2979	1277	45	2		2	CD2	1	117297467	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	630648	117297467	131953154	60	57395										
CD2	914	broad.mit.edu	37	chr1	117297543	117297543	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atacaaaaggaaaaaatgtgTtggaaaaaatatttgatttg	8	1	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:117297543T>C	uc001egu.3	+	2	381	c.352T>C	c.(352-354)TTG>CTG	p.L118L	CD2_uc010owz.1_Silent_p.L118L|CD2_uc010oxa.1_Silent_p.L118L	NM_001767	NP_001758	P06729	CD2_HUMAN	CD2 molecule precursor	118	Extracellular (Potential).|LFA-3 (CD58) binding region 2.|Ig-like V-type.				blood coagulation|cell surface receptor linked signaling pathway|cell-cell adhesion|induction of apoptosis|leukocyte migration|membrane raft polarization|natural killer cell activation|positive regulation of myeloid dendritic cell activation|regulation of T cell differentiation|T cell activation	integral to plasma membrane	receptor activity			breast(1)	1	Lung SC(450;0.225)	all_cancers(81;3.15e-06)|Acute lymphoblastic leukemia(138;1.7e-08)|all_epithelial(167;8.38e-07)|all_lung(203;3.37e-06)|Lung NSC(69;2.31e-05)		Epithelial(280;6.71e-26)|OV - Ovarian serous cystadenocarcinoma(397;4.74e-24)|all cancers(265;1.93e-22)|Lung(183;0.0543)|Kidney(133;0.0813)|Colorectal(144;0.174)|KIRC - Kidney renal clear cell carcinoma(1967;0.176)|LUSC - Lung squamous cell carcinoma(189;0.189)|BRCA - Breast invasive adenocarcinoma(282;0.201)	Alefacept(DB00092)	AAAAAATGTGTTGGAAAAAAT	0.308													11	71	---	---	---	---	PASS	C	117297543	C	C	117297543	2	2	163	1	0	0	0	0	0	0	0	1	2979	1722	60	5		5	CD2	1	117297543	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	76	117297543	131953078	61	57396										
PIAS3	10401	broad.mit.edu	37	chr1	145578463	145578463	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaagtctatggggagctcatCcggcccaccacccttggtat	11	13	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:145578463C>G	uc001eoc.1	+	2	517	c.426C>G	c.(424-426)ATC>ATG	p.I142M	NBPF10_uc001emp.3_Intron|PIAS3_uc010oyy.1_Missense_Mutation_p.I133M|PIAS3_uc001eod.1_5'Flank	NM_006099	NP_006090	Q9Y6X2	PIAS3_HUMAN	protein inhibitor of activated STAT, 3	142	PINIT.				positive regulation of protein sumoylation|protein sumoylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	enzyme binding|nucleic acid binding|protein C-terminus binding|zinc ion binding			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GGGAGCTCATCCGGCCCACCA	0.547													12	182	---	---	---	---	PASS	G	145578463	G	G	145578463	3	3	163	1	0	0	0	0	1	0	0	0	11877	845	30	2	432	2	PIAS3	1	145578463	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	28280920	145578463	103672158	62	57397										
VPS45	11311	broad.mit.edu	37	chr1	150082657	150082657	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttggaggagccacctatgaaGaggctctaacagtttataac	10	8	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:150082657G>C	uc001etp.2	+	14	2113	c.1540G>C	c.(1540-1542)GAG>CAG	p.E514Q	VPS45_uc010pbp.1_RNA|VPS45_uc010pbq.1_Missense_Mutation_p.E478Q|VPS45_uc010pbs.1_Missense_Mutation_p.E409Q|VPS45_uc001etq.2_Missense_Mutation_p.E334Q	NM_007259	NP_009190	Q9NRW7	VPS45_HUMAN	vacuolar protein sorting 45A	514					blood coagulation|intracellular protein transport|vesicle docking involved in exocytosis	endosome membrane|Golgi membrane|integral to membrane of membrane fraction				central_nervous_system(1)|skin(1)	2	Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			CACCTATGAAGAGGCTCTAAC	0.418													15	151	---	---	---	---	PASS	C	150082657	C	C	150082657	3	2	163	1	0	0	0	0	1	0	0	0	17208	943	33	2	1594	2	VPS45	1	150082657	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4504194	150082657	99167964	63	57398										
CA14	23632	broad.mit.edu	37	chr1	150236221	150236221	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgagtctaggtgtaggaatCttggttggctgtctctgcct	13	8	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:150236221C>G	uc001etx.2	+	10	1200	c.891C>G	c.(889-891)ATC>ATG	p.I297M		NM_012113	NP_036245	Q9ULX7	CAH14_HUMAN	carbonic anhydrase XIV precursor	297	Helical; (Potential).					integral to membrane	carbonate dehydratase activity|metal ion binding			ovary(1)	1	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GTGTAGGAATCTTGGTTGGCT	0.453													103	691	---	---	---	---	PASS	G	150236221	G	G	150236221	3	3	163	1	0	0	0	0	1	0	0	0	2515	903	32	2	929	2	CA14	1	150236221	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	153564	150236221	99014400	64	57399										
ADAMTSL4	54507	broad.mit.edu	37	chr1	150526437	150526437	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggggaacgggggggactcctCacgggccccgcctggagcct	18	14	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:150526437C>T	uc001eux.2	+	6	1206	c.970C>T	c.(970-972)CAC>TAC	p.H324Y	ADAMTSL4_uc001euw.2_Missense_Mutation_p.H324Y|ADAMTSL4_uc009wlw.2_Missense_Mutation_p.H324Y|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.H324Y	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	324					apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			GGGGACTCCTCACGGGCCCCG	0.711													5	39	---	---	---	---	PASS	T	150526437	T	T	150526437	3	4	163	1	0	0	0	0	1	0	0	0	277	826	29	2	984	2	ADAMTSL4	1	150526437	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	290216	150526437	98724184	65	57400										
CTSS	1520	broad.mit.edu	37	chr1	150724428	150724428	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agctttcctgttttcagcttCagctgtgcttccagggcccc	9	14	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:150724428C>T	uc001evn.2	-	5	589	c.456G>A	c.(454-456)CTG>CTA	p.L152L	CTSS_uc010pcj.1_Silent_p.L102L|CTSS_uc001evo.1_Silent_p.L152L	NM_004079	NP_004070	P25774	CATS_HUMAN	cathepsin S preproprotein	152					immune response|proteolysis	extracellular region|lysosome	cysteine-type endopeptidase activity				0	all_cancers(9;6.17e-52)|all_epithelial(9;9.7e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.00146)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0485)|Epithelial(6;5.02e-21)|all cancers(9;1.28e-20)|OV - Ovarian serous cystadenocarcinoma(6;1.09e-14)|BRCA - Breast invasive adenocarcinoma(12;0.00501)|LUSC - Lung squamous cell carcinoma(543;0.171)			TTTTCAGCTTCAGCTGTGCTT	0.478													19	153	---	---	---	---	PASS	T	150724428	T	T	150724428	2	4	163	1	0	0	0	0	0	0	0	1	4041	813	29	2		2	CTSS	1	150724428	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	197991	150724428	98526193	66	57401										
TNFAIP8L2	79626	broad.mit.edu	37	chr1	151131683	151131683	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcactcagcaccttggcaaGatctgtgacggactcaggaa	10	11	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:151131683G>C	uc001ewx.2	+	2	636	c.510G>C	c.(508-510)AAG>AAC	p.K170N		NM_024575	NP_078851	Q6P589	TP8L2_HUMAN	tumor necrosis factor, alpha-induced protein	170					innate immune response						0	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			ACCTTGGCAAGATCTGTGACG	0.542													9	84	---	---	---	---	PASS	C	151131683	C	C	151131683	3	2	163	1	0	0	0	0	1	0	0	0	16275	933	33	2	512	2	TNFAIP8L2	1	151131683	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	407255	151131683	98118938	67	57402										
FLG	2312	broad.mit.edu	37	chr1	152277254	152277254	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaccggtcacgtgcggactCttggtggctctgctgatggg	16	10	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:152277254C>G	uc001ezu.1	-	3	10144	c.10108G>C	c.(10108-10110)GAG>CAG	p.E3370Q		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3370	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGTGCGGACTCTTGGTGGCTC	0.582									Ichthyosis				86	759	---	---	---	---	PASS	G	152277254	G	G	152277254	3	3	163	1	0	0	0	0	1	0	0	0	5922	922	32	2	2081	2	FLG	1	152277254	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1145571	152277254	96973367	68	57403										
C1orf77	26097	broad.mit.edu	37	chr1	153617731	153617731	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acatggcgcagacagatcccGaaaccaatgattgaagcctg	10	11	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:153617731G>T	uc001fcm.1	+	6	1045	c.733G>T	c.(733-735)GAA>TAA	p.E245*	C1orf77_uc001fcn.1_Nonsense_Mutation_p.E246*|C1orf77_uc001fco.1_Nonsense_Mutation_p.E220*|C1orf77_uc001fcp.2_RNA	NM_015607	NP_056422	Q9Y3Y2	CHTOP_HUMAN	small protein rich in arginine and glycine	245					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	protein binding|RNA binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			GACAGATCCCGAAACCAATGA	0.448													12	64	---	---	---	---	PASS	T	153617731	T	T	153617731	4	4	163	1	0	0	0	0	0	1	0	0	2059	1059	37	2	751	2	C1orf77	1	153617731	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1340477	153617731	95632890	69	57404										
CREB3L4	148327	broad.mit.edu	37	chr1	153945266	153945266	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgatgaggagaagcgtctgcTggggcaggaaggggtttccc	18	8	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:153945266T>A	uc001fdn.3	+	5	856	c.590T>A	c.(589-591)CTG>CAG	p.L197Q	CREB3L4_uc010pef.1_Missense_Mutation_p.L50Q|CREB3L4_uc001fdo.3_Missense_Mutation_p.L177Q|CREB3L4_uc001fdm.1_Missense_Mutation_p.L197Q|CREB3L4_uc001fdp.1_Missense_Mutation_p.L177Q|CREB3L4_uc001fdr.2_Missense_Mutation_p.L197Q|CREB3L4_uc001fdq.2_Missense_Mutation_p.L177Q	NM_130898	NP_570968	Q8TEY5	CR3L4_HUMAN	cAMP responsive element binding protein 3-like	197	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			AAGCGTCTGCTGGGGCAGGAA	0.602													23	58	---	---	---	---	PASS	A	153945266	A	A	153945266	3	1	163	1	0	0	0	0	1	0	0	0	3859	1580	55	5	604	5	CREB3L4	1	153945266	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	327535	153945266	95305355	70	57405										
JTB	10899	broad.mit.edu	37	chr1	153949464	153949464	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcacccacctgacagcttctCttcctgcacgggagcctctg	8	17	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:153949464C>G	uc001fds.2	-	2	832	c.109G>C	c.(109-111)GAG>CAG	p.E37Q		NM_006694	NP_006685	O76095	JTB_HUMAN	jumping translocation breakpoint precursor	37	Extracellular (Potential).				apoptosis|cell cycle cytokinesis|mitosis|positive regulation of protein kinase activity	integral to plasma membrane|membrane fraction|microtubule organizing center|midbody|mitochondrion|spindle	protein kinase binding				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GACAGCTTCTCTTCCTGCACG	0.532													35	237	---	---	---	---	PASS	G	153949464	G	G	153949464	3	3	163	1	0	0	0	0	1	0	0	0	7967	922	32	2	347	2	JTB	1	153949464	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4198	153949464	95301157	71	57406										
ADAR	103	broad.mit.edu	37	chr1	154562783	154562783	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttctcgttctccccaatcaaGacacggagagccgcatctgc	8	15	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:154562783G>C	uc001ffh.2	-	7	2573	c.2373C>G	c.(2371-2373)GTC>GTG	p.V791V	ADAR_uc001ffj.2_Silent_p.V772V|ADAR_uc001ffi.2_Silent_p.V791V|ADAR_uc001ffk.2_Silent_p.V496V	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	791	DRBM 3.				adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		CCCCAATCAAGACACGGAGAG	0.557													6	177	---	---	---	---	PASS	C	154562783	C	C	154562783	2	2	163	1	0	0	0	0	0	0	0	1	281	929	33	2		2	ADAR	1	154562783	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	613319	154562783	94687838	72	57407										
THBS3	7059	broad.mit.edu	37	chr1	155175103	155175103	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcctcccgctggtatcgcacCagtactgcccaggaggggag	13	14	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:155175103C>T	uc001fix.2	-	3	314	c.291G>A	c.(289-291)CTG>CTA	p.L97L	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Silent_p.L97L|THBS3_uc001fiz.2_Silent_p.L97L|THBS3_uc001fiy.2_5'UTR|THBS3_uc010pfu.1_Intron|THBS3_uc010pfv.1_Intron|THBS3_uc001fja.2_RNA|THBS3_uc009wqj.1_Silent_p.L59L	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	97	TSP N-terminal.				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		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)			GGTATCGCACCAGTACTGCCC	0.597													31	74	---	---	---	---	PASS	T	155175103	T	T	155175103	2	4	163	1	0	0	0	0	0	0	0	1	15852	581	21	3		3	THBS3	1	155175103	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	612320	155175103	94075518	73	57408										
YY1AP1	55249	broad.mit.edu	37	chr1	155646348	155646348	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaaagtgttacctgctgcatCtgctgctggagtctcttcct	10	11	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:155646348C>G	uc001fln.2	-	5	537	c.513G>C	c.(511-513)CAG>CAC	p.Q171H	YY1AP1_uc010pgg.1_Missense_Mutation_p.Q39H|YY1AP1_uc010pgh.1_Missense_Mutation_p.Q94H|YY1AP1_uc010pgi.1_Missense_Mutation_p.Q243H|YY1AP1_uc001flh.2_Missense_Mutation_p.Q243H|YY1AP1_uc009wqt.2_Missense_Mutation_p.Q94H|YY1AP1_uc001flk.2_Missense_Mutation_p.Q94H|YY1AP1_uc001fll.2_Missense_Mutation_p.Q105H|YY1AP1_uc009wqv.2_5'UTR|YY1AP1_uc001flm.2_Missense_Mutation_p.Q94H|YY1AP1_uc001fli.2_Missense_Mutation_p.Q105H|YY1AP1_uc009wqu.2_5'UTR|YY1AP1_uc001flj.2_Missense_Mutation_p.Q105H|YY1AP1_uc009wqw.2_Missense_Mutation_p.Q94H|YY1AP1_uc001flo.2_Missense_Mutation_p.Q39H|YY1AP1_uc001flp.2_Missense_Mutation_p.Q105H|YY1AP1_uc010pgj.1_Missense_Mutation_p.Q171H|YY1AP1_uc009wqx.2_Missense_Mutation_p.Q243H|YY1AP1_uc010pgk.1_Missense_Mutation_p.Q243H	NM_139118	NP_620829	Q9H869	YYAP1_HUMAN	YY1-associated protein isoform 2	171					regulation of cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					CCTGCTGCATCTGCTGCTGGA	0.423													70	466	---	---	---	---	PASS	G	155646348	G	G	155646348	3	3	163	1	0	0	0	0	1	0	0	0	17505	912	32	2	1965	2	YY1AP1	1	155646348	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	471245	155646348	93604273	74	57409										
SYT11	23208	broad.mit.edu	37	chr1	155838163	155838163	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggggagagcaaaaccaccTctccatcatctccagaggag	10	13	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:155838163T>A	uc001fmg.2	+	2	705	c.442T>A	c.(442-444)TCT>ACT	p.S148T	SYT11_uc010pgq.1_Intron	NM_152280	NP_689493	Q9BT88	SYT11_HUMAN	synaptotagmin XI	148	Cytoplasmic (Potential).					cell junction|synaptic vesicle membrane	protein binding|transporter activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;0.000162)			CAAAACCACCTCTCCATCATC	0.498													64	207	---	---	---	---	PASS	A	155838163	A	A	155838163	3	1	163	1	0	0	0	0	1	0	0	0	15464	1551	54	5	448	5	SYT11	1	155838163	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	191815	155838163	93412458	75	57410										
SSR2	6746	broad.mit.edu	37	chr1	155979398	155979398	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accacaatagcagggggatgCcgatggagggaagggtcatg	17	7	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:155979398C>T	uc001fmx.2	-	6	565	c.485G>A	c.(484-486)GGC>GAC	p.G162D	SSR2_uc001fmv.2_RNA|SSR2_uc001fmw.2_RNA|SSR2_uc001fmy.2_RNA|SSR2_uc010pgv.1_3'UTR	NM_003145	NP_003136	P43308	SSRB_HUMAN	signal sequence receptor, beta precursor	162	Helical; (Potential).				cotranslational protein targeting to membrane	endoplasmic reticulum membrane|integral to membrane	signal sequence binding				0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					CAGGGGGATGCCGATGGAGGG	0.517													6	348	---	---	---	---	PASS	T	155979398	T	T	155979398	3	4	163	1	0	0	0	0	1	0	0	0	15190	739	26	3	70	3	SSR2	1	155979398	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	141235	155979398	93271223	76	57411										
CCT3	7203	broad.mit.edu	37	chr1	156280936	156280936	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggcaccagctgagggtccagGagaacattgcgacacacttg	13	11	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:156280936G>C	uc001fol.1	-	12	1426	c.1206C>G	c.(1204-1206)CTC>CTG	p.L402L	CCT3_uc001fom.1_Silent_p.L401L|CCT3_uc001fon.1_Silent_p.L364L|CCT3_uc010phj.1_Silent_p.L356L|CCT3_uc010phk.1_Silent_p.L356L|CCT3_uc010phl.1_Silent_p.L356L	NM_005998	NP_005989	P49368	TCPG_HUMAN	chaperonin containing TCP1, subunit 3 isoform a	402					'de novo' posttranslational protein folding	cytoskeleton|cytosol|plasma membrane	ATP binding|unfolded protein binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					GAGGGTCCAGGAGAACATTGC	0.532													23	139	---	---	---	---	PASS	C	156280936	C	C	156280936	2	2	163	1	0	0	0	0	0	0	0	1	2954	1161	41	2		2	CCT3	1	156280936	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	301538	156280936	92969685	77	57412										
IQGAP3	128239	broad.mit.edu	37	chr1	156509192	156509192	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcctcctggagtgctgtcttGaacagctggagcaggagata	13	9	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:156509192G>C	uc001fpf.2	-	25	3105	c.3030C>G	c.(3028-3030)TTC>TTG	p.F1010L		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1010	Ras-GAP.				small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTGCTGTCTTGAACAGCTGGA	0.522													17	60	---	---	---	---	PASS	C	156509192	C	C	156509192	3	2	163	1	0	0	0	0	1	0	0	0	7816	1281	45	2	1921	2	IQGAP3	1	156509192	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	228256	156509192	92741429	78	57413										
C1orf66	51093	broad.mit.edu	37	chr1	156703852	156703852	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accacgtggttaggtgggtaGaccccacagccctgtgtgag	14	11	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:156703852G>C	uc001fpu.2	+	6	1322	c.688G>C	c.(688-690)GAC>CAC	p.D230H	C1orf66_uc001fpv.2_Intron	NM_015997	NP_057081	Q96FB5	RRNAD_HUMAN	hypothetical protein LOC51093 isoform 1	230						integral to membrane	rRNA (adenine-N6,N6-)-dimethyltransferase activity				0	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TAGGTGGGTAGACCCCACAGC	0.607													28	156	---	---	---	---	PASS	C	156703852	C	C	156703852	3	2	163	1	0	0	0	0	1	0	0	0	2056	942	33	2	710	2	C1orf66	1	156703852	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	194660	156703852	92546769	79	57414										
FCRL5	83416	broad.mit.edu	37	chr1	157509064	157509064	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acaggatggggagtgaacctCtctgggcttcacagtgaagt	14	8	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:157509064C>G	uc001fqu.2	-	7	1372	c.1214G>C	c.(1213-1215)AGA>ACA	p.R405T	FCRL5_uc009wsm.2_Missense_Mutation_p.R405T|FCRL5_uc010phv.1_Missense_Mutation_p.R405T|FCRL5_uc010phw.1_Missense_Mutation_p.R320T|FCRL5_uc001fqv.1_Missense_Mutation_p.R405T|FCRL5_uc010phx.1_Missense_Mutation_p.R156T	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	405	Extracellular (Potential).|Ig-like C2-type 4.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				GAGTGAACCTCTCTGGGCTTC	0.557													11	82	---	---	---	---	PASS	G	157509064	G	G	157509064	3	3	163	1	0	0	0	0	1	0	0	0	5798	913	32	2	1763	2	FCRL5	1	157509064	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	805212	157509064	91741557	80	57415										
FCRL1	115350	broad.mit.edu	37	chr1	157771948	157771948	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cactgcagcctgggccctggGagccctgagcatgaggattg	15	12	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:157771948G>A	uc001frg.2	-	5	756	c.643C>T	c.(643-645)CCC>TCC	p.P215S	FCRL1_uc001frf.2_RNA|FCRL1_uc001frh.2_Missense_Mutation_p.P215S|FCRL1_uc001fri.2_Missense_Mutation_p.P215S|FCRL1_uc001frj.2_RNA	NM_052938	NP_443170	Q96LA6	FCRL1_HUMAN	Fc receptor-like 1 isoform 1 precursor	215	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(4)|ovary(3)	7	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TGGGCCCTGGGAGCCCTGAGC	0.562													5	111	---	---	---	---	PASS	A	157771948	A	A	157771948	3	1	163	1	0	0	0	0	1	0	0	0	5794	1174	41	2	740	2	FCRL1	1	157771948	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	262884	157771948	91478673	81	57416										
OR10K2	391107	broad.mit.edu	37	chr1	158389820	158389820	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgaacaatggagttataatAgtgtaggatactgatattag	10	2	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:158389820A>G	uc010pii.1	-	1	837	c.837T>C	c.(835-837)ACT>ACC	p.T279T		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	279	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					GAGTTATAATAGTGTAGGATA	0.378													33	154	---	---	---	---	PASS	G	158389820	G	G	158389820	2	3	163	1	0	0	0	0	0	0	0	1	10914	407	15	5		5	OR10K2	1	158389820	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	617872	158389820	90860801	82	57417										
SPTA1	6708	broad.mit.edu	37	chr1	158581092	158581092	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attggtgaagccaacgtagtCatagccagagagatggcttc	12	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:158581092C>T	uc001fst.1	-	52	7421	c.7222G>A	c.(7222-7224)GAC>AAC	p.D2408N		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2408				GRSHLSGYDYVGFTNSYFGN -> VEAISLAMTTLASPIPT LATNKQLLVDRRKS (in Ref. 1; AAA60577/ AAA60994).	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)					CCAACGTAGTCATAGCCAGAG	0.473													11	111	---	---	---	---	PASS	T	158581092	T	T	158581092	3	4	163	1	0	0	0	0	1	0	0	0	15115	826	29	2	41	2	SPTA1	1	158581092	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	191272	158581092	90669529	83	57418										
SPTA1	6708	broad.mit.edu	37	chr1	158612261	158612261	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcagggagttccccaggttGatgacgccatgcacctgctc	11	13	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:158612261G>C	uc001fst.1	-	33	4876	c.4677C>G	c.(4675-4677)ATC>ATG	p.I1559M		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1559	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)					TCCCCAGGTTGATGACGCCAT	0.463													25	189	---	---	---	---	PASS	C	158612261	C	C	158612261	3	2	163	1	0	0	0	0	1	0	0	0	15115	1280	45	2	2662	2	SPTA1	1	158612261	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	31169	158612261	90638360	84	57419										
SPTA1	6708	broad.mit.edu	37	chr1	158641934	158641934	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actgctcatactgacgatgaCgctcgtcccacagttccagc	8	15	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:158641934C>T	uc001fst.1	-	11	1602	c.1403G>A	c.(1402-1404)CGT>CAT	p.R468H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	468	Spectrin 5.				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)					CTGACGATGACGCTCGTCCCA	0.438													15	133	---	---	---	---	PASS	T	158641934	T	T	158641934	3	4	163	1	0	0	0	0	1	0	0	0	15115	536	19	1	6024	1	SPTA1	1	158641934	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	29673	158641934	90608687	85	57420										
OR6K3	391114	broad.mit.edu	37	chr1	158687704	158687704	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtgtaccagatctccagaaAggaaaatatactgataaaat	8	6	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:158687704A>T	uc010pip.1	-	1	250	c.250T>A	c.(250-252)TTT>ATT	p.F84I		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	84	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					ATCTCCAGAAAGGAAAATATA	0.408													58	423	---	---	---	---	PASS	T	158687704	T	T	158687704	3	4	163	1	0	0	0	0	1	0	0	0	11203	72	3	5	747	5	OR6K3	1	158687704	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	45770	158687704	90562917	86	57421										
FCER1A	2205	broad.mit.edu	37	chr1	159277627	159277627	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caggattatttatctcaactCagcagcaggtcacatttctc	6	11	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:159277627C>T	uc001ftq.2	+	6	778	c.679C>T	c.(679-681)CAG>TAG	p.Q227*		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	227	Cytoplasmic (Potential).					integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	TATCTCAACTCAGCAGCAGGT	0.423													5	266	---	---	---	---	PASS	T	159277627	T	T	159277627	4	4	163	1	0	0	0	0	0	1	0	0	5774	827	29	2	697	2	FCER1A	1	159277627	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	589923	159277627	89972994	87	57422										
ATP1A2	477	broad.mit.edu	37	chr1	160104397	160104397	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggctcaacattcccatgagtCaagtcaaccccaggtgaggc	10	13	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:160104397C>G	uc001fvc.2	+	14	2083	c.1951C>G	c.(1951-1953)CAA>GAA	p.Q651E	ATP1A2_uc001fvb.2_Missense_Mutation_p.Q651E|ATP1A2_uc001fvd.2_Missense_Mutation_p.Q387E	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	651	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			TCCCATGAGTCAAGTCAACCC	0.557													14	150	---	---	---	---	PASS	G	160104397	G	G	160104397	3	3	163	1	0	0	0	0	1	0	0	0	1129	827	29	2	2005	2	ATP1A2	1	160104397	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	826770	160104397	89146224	88	57423										
LY9	4063	broad.mit.edu	37	chr1	160765981	160765981	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctgaaaatagatcatcatgGtggcaccaaagagtcacaca	8	9	4	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:160765981G>A	uc001fwu.2	+	1	54	c.4G>A	c.(4-6)GTG>ATG	p.V2M	LY9_uc001fwt.2_Missense_Mutation_p.V2M|LY9_uc010pjs.1_Missense_Mutation_p.V2M|LY9_uc001fwv.2_Missense_Mutation_p.V2M|LY9_uc001fww.2_Missense_Mutation_p.V2M|LY9_uc001fwx.2_Missense_Mutation_p.V2M	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	2					cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			GATCATCATGGTGGCACCAAA	0.443													25	232	---	---	---	---	PASS	A	160765981	A	A	160765981	3	1	163	1	0	0	0	0	1	0	0	0	9101	1261	44	3	6	3	LY9	1	160765981	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	661584	160765981	88484640	89	57424										
LY9	4063	broad.mit.edu	37	chr1	160784311	160784311	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcccagcctgccgggacacaGagaaggttgtctggttgttt	13	10	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:160784311G>C	uc001fwu.2	+	4	882	c.832G>C	c.(832-834)GAG>CAG	p.E278Q	LY9_uc010pjs.1_Missense_Mutation_p.E278Q|LY9_uc001fwv.2_Missense_Mutation_p.E278Q|LY9_uc001fww.2_Missense_Mutation_p.E278Q|LY9_uc001fwx.2_Missense_Mutation_p.E278Q|LY9_uc001fwy.1_Missense_Mutation_p.E180Q|LY9_uc001fwz.2_5'UTR	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	278	Extracellular (Potential).|Ig-like V-type 2.				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			CCGGGACACAGAGAAGGTTGT	0.542													16	164	---	---	---	---	PASS	C	160784311	C	C	160784311	3	2	163	1	0	0	0	0	1	0	0	0	9101	943	33	2	978	2	LY9	1	160784311	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	18330	160784311	88466310	90	57425										
LY9	4063	broad.mit.edu	37	chr1	160788107	160788107	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catttggaagcgaaaaggacGgtgtgagtttccgagatcaa	13	6	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:160788107G>C	uc001fwu.2	+	6	1492	c.1442G>C	c.(1441-1443)CGG>CCG	p.R481P	LY9_uc001fwv.2_Missense_Mutation_p.R481P|LY9_uc001fww.2_Missense_Mutation_p.R391P|LY9_uc001fwx.2_Missense_Mutation_p.R391P|LY9_uc001fwy.1_Missense_Mutation_p.R293P|LY9_uc001fwz.2_Missense_Mutation_p.R133P	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	481	Cytoplasmic (Potential).				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			CGAAAAGGACGGTGTGAGTTT	0.532													23	165	---	---	---	---	PASS	C	160788107	C	C	160788107	3	2	163	1	0	0	0	0	1	0	0	0	9101	1116	39	4	1596	4	LY9	1	160788107	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3796	160788107	88462514	91	57426										
CD244	51744	broad.mit.edu	37	chr1	160811267	160811267	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccctgtaggcggggtttctCaactttatctggaagcagag	12	10	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:160811267C>G	uc009wtq.2	-	3	581	c.403G>C	c.(403-405)GAG>CAG	p.E135Q	CD244_uc001fxa.2_Missense_Mutation_p.E130Q|CD244_uc009wtp.2_RNA|CD244_uc009wtr.2_Intron|CD244_uc010pjt.1_Intron	NM_016382	NP_057466	Q9BZW8	CD244_HUMAN	CD244 natural killer cell receptor 2B4	135	Extracellular (Potential).|Ig-like 2.				blood coagulation|leukocyte migration	integral to membrane|plasma membrane	protein binding|receptor activity			ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			CGGGGTTTCTCAACTTTATCT	0.507													4	119	---	---	---	---	PASS	G	160811267	G	G	160811267	3	3	163	1	0	0	0	0	1	0	0	0	2987	835	29	2	737	2	CD244	1	160811267	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	23160	160811267	88439354	92	57427										
FCGR3A	2214	broad.mit.edu	37	chr1	161518423	161518423	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cactgtccttctcgagcaccCtgtaccattgaggctccagg	9	15	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:161518423C>T	uc001gat.3	-	4	244	c.107G>A	c.(106-108)AGG>AAG	p.R36K	FCGR3A_uc001gar.2_Missense_Mutation_p.R72K|FCGR3A_uc001gas.2_Missense_Mutation_p.R71K|FCGR3A_uc009wuh.2_Missense_Mutation_p.R35K|FCGR3A_uc009wui.2_Missense_Mutation_p.R36K	NM_001127595	NP_001121067	P08637	FCG3A_HUMAN	Fc fragment of IgG, low affinity IIIa, receptor	36	Ig-like C2-type 1.|Extracellular (Potential).				immune response|regulation of immune response	extracellular region|integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CTCGAGCACCCTGTACCATTG	0.542													23	394	---	---	---	---	PASS	T	161518423	T	T	161518423	3	4	163	1	0	0	0	0	1	0	0	0	5784	681	24	3	669	3	FCGR3A	1	161518423	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	707156	161518423	87732198	93	57428										
DUSP27	92235	broad.mit.edu	37	chr1	167097043	167097043	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggatgaggacactgacagtgCcatagggagcttccgatatt	13	8	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:167097043C>T	uc001geb.1	+	5	2675	c.2675C>T	c.(2674-2676)GCC>GTC	p.A892V		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	892	Ser-rich.				protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						ACTGACAGTGCCATAGGGAGC	0.517													25	84	---	---	---	---	PASS	T	167097043	T	T	167097043	3	4	163	1	0	0	0	0	1	0	0	0	4824	739	26	3	2693	3	DUSP27	1	167097043	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5578620	167097043	82153578	94	57429										
DCAF6	55827	broad.mit.edu	37	chr1	167962587	167962587	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggtcaagagattctcgttaGttactcttcagattacatat	7	7	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:167962587G>A	uc001gew.2	+	7	1054	c.812G>A	c.(811-813)AGT>AAT	p.S271N	DCAF6_uc001gev.2_Missense_Mutation_p.S271N|DCAF6_uc001gex.2_Missense_Mutation_p.S271N|DCAF6_uc010plk.1_Missense_Mutation_p.S240N|DCAF6_uc001gey.2_Missense_Mutation_p.S124N	NM_001017977	NP_001017977	Q58WW2	DCAF6_HUMAN	IQ motif and WD repeats 1 isoform b	271	WD 5.				positive regulation of transcription from RNA polymerase II promoter	CUL4 RING ubiquitin ligase complex|nucleus	ligand-dependent nuclear receptor transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						ATTCTCGTTAGTTACTCTTCA	0.398													43	125	---	---	---	---	PASS	A	167962587	A	A	167962587	3	1	163	1	0	0	0	0	1	0	0	0	4274	1029	36	3	838	3	DCAF6	1	167962587	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	865544	167962587	81288034	95	57430										
SELP	6403	broad.mit.edu	37	chr1	169580801	169580801	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcatgtccaagcccctcactCtgtagccgggctggcactca	10	16	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:169580801C>G	uc001ggi.3	-	7	1141	c.1076G>C	c.(1075-1077)AGA>ACA	p.R359T	SELP_uc001ggh.2_Missense_Mutation_p.R194T|SELP_uc009wvr.2_Missense_Mutation_p.R359T	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	359	Sushi 3.|Extracellular (Potential).				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	GCCCCTCACTCTGTAGCCGGG	0.542													21	177	---	---	---	---	PASS	G	169580801	G	G	169580801	3	3	163	1	0	0	0	0	1	0	0	0	14019	913	32	2	1456	2	SELP	1	169580801	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1618214	169580801	79669820	96	57431										
KIFAP3	22920	broad.mit.edu	37	chr1	169953797	169953797	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaatgagttccaagtcaattCgttcatctgaacattcaaac	5	9	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:169953797C>T	uc001ggv.2	-	12	1590	c.1319G>A	c.(1318-1320)CGA>CAA	p.R440Q	KIFAP3_uc010plx.1_Missense_Mutation_p.R142Q	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	440					blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CAAGTCAATTCGTTCATCTGA	0.368													18	158	---	---	---	---	PASS	T	169953797	T	T	169953797	3	4	163	1	0	0	0	0	1	0	0	0	8311	884	31	2	1095	2	KIFAP3	1	169953797	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	372996	169953797	79296824	97	57432										
KIFAP3	22920	broad.mit.edu	37	chr1	170024510	170024510	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttctccaagaatggtagcttCcacttcatagtgaacaatga	7	9	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:170024510C>T	uc001ggv.2	-	2	371	c.100G>A	c.(100-102)GAA>AAA	p.E34K	KIFAP3_uc010ply.1_5'UTR|KIFAP3_uc001ggw.1_Intron	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	34					blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					ATGGTAGCTTCCACTTCATAG	0.348													18	137	---	---	---	---	PASS	T	170024510	T	T	170024510	3	4	163	1	0	0	0	0	1	0	0	0	8311	864	30	2	2354	2	KIFAP3	1	170024510	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	70713	170024510	79226111	98	57433										
BAT2L2	23215	broad.mit.edu	37	chr1	171486904	171486904	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccacaggctaaactgaatgGacagcaggctgctctcgctt	10	12	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:171486904G>C	uc010pmg.1	+	6	961	c.695G>C	c.(694-696)GGA>GCA	p.G232A	BAT2L2_uc001ghr.1_Missense_Mutation_p.G234A	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	232							protein C-terminus binding				0						AAACTGAATGGACAGCAGGCT	0.438													15	70	---	---	---	---	PASS	C	171486904	C	C	171486904	3	2	163	1	0	0	0	0	1	0	0	0	1321	1174	41	2	713	2	BAT2L2	1	171486904	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1462394	171486904	77763717	99	57434										
C1orf105	92346	broad.mit.edu	37	chr1	172417620	172417620	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acttttctgacttcatccaaGaagaatatgaatttgccaat	5	8	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:172417620G>A	uc001gik.2	+	3	343	c.147G>A	c.(145-147)AAG>AAA	p.K49K		NM_139240	NP_640333	O95561	CA105_HUMAN	hypothetical protein LOC92346	49										skin(1)	1						CTTCATCCAAGAAGAATATGA	0.358													76	198	---	---	---	---	PASS	A	172417620	A	A	172417620	2	1	163	1	0	0	0	0	0	0	0	1	1979	933	33	2		2	C1orf105	1	172417620	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	930716	172417620	76833001	100	57435										
TNFSF18	8995	broad.mit.edu	37	chr1	173020013	173020013	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttgaatggcttaaaggcatAttttccaagtggctcaaaca	8	8	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:173020013A>G	uc001giu.2	-	1	91	c.90T>C	c.(88-90)AAT>AAC	p.N30N		NM_005092	NP_005083	Q9UNG2	TNF18_HUMAN	tumor necrosis factor (ligand) superfamily,	30	Cytoplasmic (Potential).				anti-apoptosis|cell-cell signaling|immune response|signal transduction	extracellular space|integral to membrane	cytokine activity|tumor necrosis factor receptor binding			central_nervous_system(1)	1						TTAAAGGCATATTTTCCAAGT	0.398													14	89	---	---	---	---	PASS	G	173020013	G	G	173020013	2	3	163	1	0	0	0	0	0	0	0	1	16306	446	16	5		5	TNFSF18	1	173020013	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	602393	173020013	76230608	101	57436										
KLHL20	27252	broad.mit.edu	37	chr1	173735424	173735424	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtcttgcctcaacattgttGagaggtgatcttttttttaa	8	6	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:173735424G>C	uc001gjc.2	+	8	1470	c.1291G>C	c.(1291-1293)GAG>CAG	p.E431Q	KLHL20_uc010pmr.1_Missense_Mutation_p.E242Q|KLHL20_uc009wwf.2_Missense_Mutation_p.E413Q	NM_014458	NP_055273	Q9Y2M5	KLH20_HUMAN	kelch-like 20	431	Kelch 3.				cytoskeleton organization|negative regulation of apoptosis|proteasomal ubiquitin-dependent protein catabolic process|response to interferon-alpha	actin cytoskeleton|cell surface|Cul3-RING ubiquitin ligase complex|Golgi apparatus|perinuclear region of cytoplasm|PML body	actin binding|interferon-gamma binding|ubiquitin-protein ligase activity			ovary(1)	1						CAACATTGTTGAGAGGTGATC	0.353													39	344	---	---	---	---	PASS	C	173735424	C	C	173735424	3	2	163	1	0	0	0	0	1	0	0	0	8375	1291	45	2	1317	2	KLHL20	1	173735424	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	715411	173735424	75515197	102	57437										
TNR	7143	broad.mit.edu	37	chr1	175375563	175375563	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccatgtactctgccagagtCtcgtcttctgcactcacctc	6	17	5	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:175375563C>A	uc001gkp.1	-	1	369	c.288G>T	c.(286-288)GAG>GAT	p.E96D	TNR_uc009wwu.1_Missense_Mutation_p.E96D|TNR_uc010pmz.1_Missense_Mutation_p.E96D	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	96					axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CTGCCAGAGTCTCGTCTTCTG	0.547													20	189	---	---	---	---	PASS	A	175375563	A	A	175375563	3	1	163	1	0	0	0	0	1	0	0	0	16335	912	32	2	3872	2	TNR	1	175375563	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1640139	175375563	73875058	103	57438										
ASTN1	460	broad.mit.edu	37	chr1	176915139	176915139	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccaaagaacatctccccaaaGagggtctggttcatgggaag	11	10	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:176915139G>C	uc001glc.2	-	13	2384	c.2172C>G	c.(2170-2172)CTC>CTG	p.L724L	ASTN1_uc001glb.1_Silent_p.L724L|ASTN1_uc001gld.1_Silent_p.L724L|ASTN1_uc009wwx.1_Silent_p.L724L	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	732					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						TCTCCCCAAAGAGGGTCTGGT	0.507													27	289	---	---	---	---	PASS	C	176915139	C	C	176915139	2	2	163	1	0	0	0	0	0	0	0	1	1064	929	33	2		2	ASTN1	1	176915139	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1539576	176915139	72335482	104	57439										
FAM20B	9917	broad.mit.edu	37	chr1	179033588	179033588	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actatgagagctttcaagatGatgaaggcgctagtatgctc	11	7	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:179033588G>A	uc001gmc.2	+	6	1188	c.895G>A	c.(895-897)GAT>AAT	p.D299N		NM_014864	NP_055679	O75063	XYLK_HUMAN	hypothetical protein LOC9917 precursor	299	Lumenal (Potential).					Golgi membrane|integral to membrane	ATP binding|kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(3)	3						CTTTCAAGATGATGAAGGCGC	0.483													14	89	---	---	---	---	PASS	A	179033588	A	A	179033588	3	1	163	1	0	0	0	0	1	0	0	0	5538	1290	45	2	913	2	FAM20B	1	179033588	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2118449	179033588	70217033	105	57440										
ABL2	27	broad.mit.edu	37	chr1	179078431	179078431	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtaggagcatttctcttcttCatgaaggagctgaagaagcc	11	8	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:179078431C>T	uc001gmj.3	-	12	2258	c.1971G>A	c.(1969-1971)ATG>ATA	p.M657I	ABL2_uc010pnf.1_Missense_Mutation_p.M657I|ABL2_uc010png.1_Missense_Mutation_p.M636I|ABL2_uc010pnh.1_Missense_Mutation_p.M636I|ABL2_uc001gmg.3_Missense_Mutation_p.M642I|ABL2_uc001gmi.3_Missense_Mutation_p.M642I|ABL2_uc001gmh.3_Missense_Mutation_p.M621I|ABL2_uc010pne.1_Missense_Mutation_p.M621I	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	657					axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	TTCTCTTCTTCATGAAGGAGC	0.502			T	ETV6	AML								14	625	---	---	---	---	PASS	T	179078431	T	T	179078431	3	4	163	1	0	0	0	0	1	0	0	0	93	826	29	2	1581	2	ABL2	1	179078431	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	44843	179078431	70172190	106	57441										
C1orf125	126859	broad.mit.edu	37	chr1	179503872	179503872	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcttccatatcagggaggttGaaaatagagccagacaggca	11	8	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:179503872G>C	uc001gmo.2	+	25	2933	c.2806G>C	c.(2806-2808)GAA>CAA	p.E936Q	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.E862Q|C1orf125_uc009wxh.2_RNA	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	936	Glu-rich.										0						CAGGGAGGTTGAAAATAGAGC	0.343													23	205	---	---	---	---	PASS	C	179503872	C	C	179503872	3	2	163	1	0	0	0	0	1	0	0	0	1993	1291	45	2	2900	2	C1orf125	1	179503872	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	425441	179503872	69746749	107	57442										
TOR1AIP2	163590	broad.mit.edu	37	chr1	179815465	179815465	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catctttaaaggcagcattcTcatgatcacaatacttatag	5	9	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:179815465T>A	uc001gnk.2	-	6	1542	c.1154A>T	c.(1153-1155)GAG>GTG	p.E385V	TOR1AIP2_uc001gnl.2_Missense_Mutation_p.E385V	NM_145034	NP_659471	Q8NFQ8	TOIP2_HUMAN	torsin A interacting protein 2	385						endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1						GGCAGCATTCTCATGATCACA	0.478													41	114	---	---	---	---	PASS	A	179815465	A	A	179815465	3	1	163	1	0	0	0	0	1	0	0	0	16370	1551	54	5	262	5	TOR1AIP2	1	179815465	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	311593	179815465	69435156	108	57443										
FAM129A	116496	broad.mit.edu	37	chr1	184853879	184853879	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagggctgccacaggtacacTgggaattccttgggcaggac	14	10	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:184853879T>C	uc001gra.2	-	5	683	c.489A>G	c.(487-489)CCA>CCG	p.P163P	FAM129A_uc009wyh.1_Intron|FAM129A_uc009wyi.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	163					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						ACAGGTACACTGGGAATTCCT	0.493													14	81	---	---	---	---	PASS	C	184853879	C	C	184853879	2	2	163	1	0	0	0	0	0	0	0	1	5436	1567	55	5		5	FAM129A	1	184853879	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	5038414	184853879	64396742	109	57444										
IVNS1ABP	10625	broad.mit.edu	37	chr1	185267261	185267261	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attcattgccatcgaatcctCccactgcataaatggtgttc	6	12	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:185267261C>A	uc001grl.2	-	15	2458	c.1835G>T	c.(1834-1836)GGA>GTA	p.G612V	IVNS1ABP_uc001gri.2_Missense_Mutation_p.G272V|IVNS1ABP_uc001grj.2_Missense_Mutation_p.G272V|IVNS1ABP_uc009wyj.2_Missense_Mutation_p.G394V|IVNS1ABP_uc009wyk.2_RNA	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	612	Kelch 6.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						ATCGAATCCTCCCACTGCATA	0.393													62	598	---	---	---	---	PASS	A	185267261	A	A	185267261	3	1	163	1	0	0	0	0	1	0	0	0	7930	855	30	2	97	2	IVNS1ABP	1	185267261	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	413382	185267261	63983360	110	57445										
IVNS1ABP	10625	broad.mit.edu	37	chr1	185270568	185270568	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caagtgtcatatacttacttGaagtcttttctgaagcaacg	7	8	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:185270568G>C	uc001grl.2	-	9	1516	c.893C>G	c.(892-894)TCA>TGA	p.S298*	IVNS1ABP_uc001gri.2_5'UTR|IVNS1ABP_uc001grj.2_5'UTR|IVNS1ABP_uc009wyj.2_Nonsense_Mutation_p.S80*|IVNS1ABP_uc009wyk.2_RNA|IVNS1ABP_uc001grm.2_5'UTR	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	298	Sufficient for AHR interaction and signaling.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						ATACTTACTTGAAGTCTTTTC	0.373													34	321	---	---	---	---	PASS	C	185270568	C	C	185270568	4	2	163	1	0	0	0	0	0	1	0	0	7930	1294	45	2	1063	2	IVNS1ABP	1	185270568	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3307	185270568	63980053	111	57446										
HMCN1	83872	broad.mit.edu	37	chr1	186099718	186099718	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcaatcctgaattgtgaggtGaaaggagaccccaccccaac	10	12	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:186099718G>C	uc001grq.1	+	85	13348	c.13119G>C	c.(13117-13119)GTG>GTC	p.V4373V	HMCN1_uc001grs.1_5'UTR	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4373	Ig-like C2-type 43.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						ATTGTGAGGTGAAAGGAGACC	0.478													26	191	---	---	---	---	PASS	C	186099718	C	C	186099718	2	2	163	1	0	0	0	0	0	0	0	1	7220	1277	45	2		2	HMCN1	1	186099718	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	829150	186099718	63150903	112	57447										
RGS13	6003	broad.mit.edu	37	chr1	192627366	192627366	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgcagcatatttaaaaatgGagcacagtgacgagaatatt	9	5	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:192627366G>A	uc001gsj.2	+	6	444	c.163G>A	c.(163-165)GAG>AAG	p.E55K	RGS13_uc001gsk.2_Missense_Mutation_p.E55K	NM_002927	NP_002918	O14921	RGS13_HUMAN	regulator of G-protein signalling 13	55	RGS.					plasma membrane	GTPase activator activity|signal transducer activity				0						TTTAAAAATGGAGCACAGTGA	0.358													25	131	---	---	---	---	PASS	A	192627366	A	A	192627366	3	1	163	1	0	0	0	0	1	0	0	0	13296	1175	41	2	173	2	RGS13	1	192627366	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	6527648	192627366	56623255	113	57448										
CFHR2	3080	broad.mit.edu	37	chr1	196928072	196928072	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ataaaattaaagtggacaaaCcaacaaaagctttattcaag	5	6	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:196928072C>A	uc001gtq.1	+	5	752	c.675C>A	c.(673-675)AAC>AAA	p.N225K	CFHR2_uc001gtr.1_Missense_Mutation_p.N101K	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	225	Sushi 4.					extracellular region				skin(2)|ovary(1)	3						AGTGGACAAACCAACAAAAGC	0.284													7	106	---	---	---	---	PASS	A	196928072	A	A	196928072	3	1	163	1	0	0	0	0	1	0	0	0	3285	506	18	3	693	3	CFHR2	1	196928072	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4300706	196928072	52322549	114	57449										
PTPRC	5788	broad.mit.edu	37	chr1	198700751	198700751	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttaatatgtttccagatgatGaaaaacaactgatgaatgtg	8	4	0	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:198700751G>A	uc001gur.1	+	18	2044	c.1864G>A	c.(1864-1866)GAA>AAA	p.E622K	PTPRC_uc001gus.1_Missense_Mutation_p.E574K|PTPRC_uc001gut.1_Missense_Mutation_p.E461K|PTPRC_uc009wzf.1_Missense_Mutation_p.E510K|PTPRC_uc010ppg.1_Missense_Mutation_p.E558K	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	622	Cytoplasmic (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TCCAGATGATGAAAAACAACT	0.348													14	174	---	---	---	---	PASS	A	198700751	A	A	198700751	3	1	163	1	0	0	0	0	1	0	0	0	12797	1291	45	2	1941	2	PTPRC	1	198700751	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1772679	198700751	50549870	115	57450										
ZNF281	23528	broad.mit.edu	37	chr1	200377663	200377663	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccctgagacaacacagccaGattacccatattggtatggt	8	11	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:200377663G>C	uc001gve.2	-	2	1278	c.1171C>G	c.(1171-1173)CTG>GTG	p.L391V	ZNF281_uc001gvf.1_Missense_Mutation_p.L391V|ZNF281_uc001gvg.1_Missense_Mutation_p.L355V	NM_012482	NP_036614	Q9Y2X9	ZN281_HUMAN	zinc finger protein 281	391					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)	2						AACACAGCCAGATTACCCATA	0.403													11	527	---	---	---	---	PASS	C	200377663	C	C	200377663	3	2	163	1	0	0	0	0	1	0	0	0	17815	933	33	2	1520	2	ZNF281	1	200377663	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1676912	200377663	48872958	116	57451										
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200801403	200801403	+	Missense_Mutation	SNP	G	C	C													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagaaaatttgttgaaggatGggacagatggctgtgcatta							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:200801403G>C	uc001gvl.2	+	6	1024	c.754G>C	c.(754-756)GGG>CGG	p.G252R	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.G241R|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.G241R	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	252	CH.					cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GTTGAAGGATGGGACAGATGG	0.383													18	231	---	---	---	---	PASS	C	200801403	C	C	200801403	3	2	163	1	0	0	0	0	1	0	0	0	2612	1348	47	4	739	4	CAMSAP1L1	1	200801403	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	423740	200801403	48449218	117	57452	1025	2								
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200801404	200801404	+	Missense_Mutation	SNP	G	T	T													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agaaaatttgttgaaggatgGgacagatggctgtgcattag							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:200801404G>T	uc001gvl.2	+	6	1025	c.755G>T	c.(754-756)GGG>GTG	p.G252V	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.G241V|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.G241V	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	252	CH.					cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TTGAAGGATGGGACAGATGGC	0.383													18	232	---	---	---	---	PASS	T	200801404	T	T	200801404	3	4	163	1	0	0	0	0	1	0	0	0	2612	1232	43	3	740	3	CAMSAP1L1	1	200801404	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1	200801404	48449217	118	57453	1025	2								
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200825142	200825142	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttattttctaattagatcaGagtctgtagaaggcttctta	7	5	4	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:200825142G>C	uc001gvl.2	+	16	4204	c.3934G>C	c.(3934-3936)GAG>CAG	p.E1312Q	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.E1301Q|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.E1285Q	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	1312						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						AATTAGATCAGAGTCTGTAGA	0.388													52	355	---	---	---	---	PASS	C	200825142	C	C	200825142	3	2	163	1	0	0	0	0	1	0	0	0	2612	943	33	2	3959	2	CAMSAP1L1	1	200825142	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	23738	200825142	48425479	119	57454										
CACNA1S	779	broad.mit.edu	37	chr1	201047027	201047027	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttggtgatcttgaagatcctCaggaggcggatgcagcggag	16	7	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:201047027C>G	uc001gvv.2	-	11	1826	c.1599G>C	c.(1597-1599)CTG>CTC	p.L533L		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	533	II.|Helical; Name=S4 of repeat II; (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TGAAGATCCTCAGGAGGCGGA	0.632													10	86	---	---	---	---	PASS	G	201047027	G	G	201047027	2	3	163	1	0	0	0	0	0	0	0	1	2547	813	29	2		2	CACNA1S	1	201047027	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	221885	201047027	48203594	120	57455										
CACNA1S	779	broad.mit.edu	37	chr1	201060808	201060808	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtcttgtgcatcttgcccttGaagagctccagcccgatgat	10	12	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:201060808G>A	uc001gvv.2	-	5	881	c.654C>T	c.(652-654)TTC>TTT	p.F218F		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	218	Helical; Name=S5 of repeat I; (Potential).|I.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TCTTGCCCTTGAAGAGCTCCA	0.562													21	234	---	---	---	---	PASS	A	201060808	A	A	201060808	2	1	163	1	0	0	0	0	0	0	0	1	2547	1281	45	2		2	CACNA1S	1	201060808	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	13781	201060808	48189813	121	57456										
ZC3H11A	9877	broad.mit.edu	37	chr1	203819065	203819065	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcggcttcccacaaagtcatCccagaaggtggaggtagaaa	12	10	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:203819065C>T	uc001hac.2	+	17	2466	c.1850C>T	c.(1849-1851)TCC>TTC	p.S617F	ZC3H11A_uc001had.2_Missense_Mutation_p.S617F|ZC3H11A_uc001hae.2_Missense_Mutation_p.S617F|ZC3H11A_uc001haf.2_Missense_Mutation_p.S617F|ZC3H11A_uc010pqm.1_Missense_Mutation_p.S563F|ZC3H11A_uc001hag.1_Missense_Mutation_p.S617F	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	617							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			ACAAAGTCATCCCAGAAGGTG	0.493													20	127	---	---	---	---	PASS	T	203819065	T	T	203819065	3	4	163	1	0	0	0	0	1	0	0	0	17557	855	30	2	1900	2	ZC3H11A	1	203819065	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2758257	203819065	45431556	122	57457										
REN	5972	broad.mit.edu	37	chr1	204131207	204131207	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtcagcctcttcatgggttgGctccactcgggaccaagcct	11	14	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:204131207G>A	uc001haq.2	-	2	227	c.183C>T	c.(181-183)AGC>AGT	p.S61S		NM_000537	NP_000528	P00797	RENI_HUMAN	renin preproprotein	61					angiotensin maturation|regulation of MAPKKK cascade	extracellular space|membrane	aspartic-type endopeptidase activity			skin(3)|central_nervous_system(1)	4	all_cancers(21;0.00965)|Breast(84;0.116)|all_epithelial(62;0.157)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)		Aliskiren(DB01258)|Remikiren(DB00212)	TCATGGGTTGGCTCCACTCGG	0.592											OREG0014128	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	56	---	---	---	---	PASS	A	204131207	A	A	204131207	2	1	163	1	0	0	0	0	0	0	0	1	13224	1194	42	3		3	REN	1	204131207	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	312142	204131207	45119414	123	57458										
PPP1R15B	84919	broad.mit.edu	37	chr1	204379147	204379147	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtcttgttcaaggtctgagtCtgacagtgagctatcactat	10	8	5	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:204379147C>G	uc001hav.3	-	1	1798	c.1393G>C	c.(1393-1395)GAC>CAC	p.D465H		NM_032833	NP_116222	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	465					regulation of translation					ovary(1)|pancreas(1)	2	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			AGGTCTGAGTCTGACAGTGAG	0.458													213	325	---	---	---	---	PASS	G	204379147	G	G	204379147	3	3	163	1	0	0	0	0	1	0	0	0	12364	913	32	2	756	2	PPP1R15B	1	204379147	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	247940	204379147	44871474	124	57459										
LRRN2	10446	broad.mit.edu	37	chr1	204587926	204587926	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcgctggaggtccggaggctCcgcacacagggtggattgcg	18	11	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:204587926C>T	uc001hbe.1	-	3	1583	c.1195G>A	c.(1195-1197)GAG>AAG	p.E399K	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Missense_Mutation_p.E399K|LRRN2_uc009xbf.1_Missense_Mutation_p.E399K|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	399	Extracellular (Potential).|LRRCT.				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			TCCGGAGGCTCCGCACACAGG	0.662													10	69	---	---	---	---	PASS	T	204587926	T	T	204587926	3	4	163	1	0	0	0	0	1	0	0	0	9035	864	30	2	950	2	LRRN2	1	204587926	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	208779	204587926	44662695	125	57460										
FAIM3	9214	broad.mit.edu	37	chr1	207085125	207085125	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagctgggcgtctggggcttGagcagcccctccagagctga	15	12	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:207085125G>C	uc001hey.2	-	4	839	c.660C>G	c.(658-660)CTC>CTG	p.L220L	FAIM3_uc010prz.1_Silent_p.L108L|FAIM3_uc010psa.1_Silent_p.L129L|FAIM3_uc010psb.1_Silent_p.L220L	NM_005449	NP_005440	O60667	FAIM3_HUMAN	Fas apoptotic inhibitory molecule 3 isoform a	220	Extracellular (Potential).				anti-apoptosis|cellular defense response	integral to membrane				central_nervous_system(1)	1	Breast(84;0.201)					TCTGGGGCTTGAGCAGCCCCT	0.557											OREG0014185	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	140	---	---	---	---	PASS	C	207085125	C	C	207085125	2	2	163	1	0	0	0	0	0	0	0	1	5377	1277	45	2		2	FAIM3	1	207085125	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	2497199	207085125	42165496	126	57461										
SYT14	255928	broad.mit.edu	37	chr1	210273457	210273457	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtgacttttgactatgactCacaagaacagaagcttctgg	9	8	2	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:210273457C>G	uc009xcv.2	+	6	887	c.815C>G	c.(814-816)TCA>TGA	p.S272*	SYT14_uc001hhs.3_Nonsense_Mutation_p.S317*|SYT14_uc001hht.3_Nonsense_Mutation_p.S272*|SYT14_uc001hhu.3_RNA|SYT14_uc010psn.1_Nonsense_Mutation_p.S317*|SYT14_uc010pso.1_Nonsense_Mutation_p.S234*	NM_153262	NP_694994	Q8NB59	SYT14_HUMAN	synaptotagmin XIV isoform 4	272	Cytoplasmic (Potential).					integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)		GACTATGACTCACAAGAACAG	0.443													12	126	---	---	---	---	PASS	G	210273457	G	G	210273457	4	3	163	1	0	0	0	0	0	1	0	0	15467	838	29	2	976	2	SYT14	1	210273457	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3188332	210273457	38977164	127	57462										
HHAT	55733	broad.mit.edu	37	chr1	210761406	210761406	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cactgtggagaatggagtccGgaggctggtggagactccct	16	9	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:210761406G>C	uc009xcx.2	+	10	1374	c.1208G>C	c.(1207-1209)CGG>CCG	p.R403P	HHAT_uc010psq.1_Missense_Mutation_p.R266P|HHAT_uc001hhz.3_Missense_Mutation_p.R403P|HHAT_uc010psr.1_Missense_Mutation_p.R404P|HHAT_uc010pss.1_Missense_Mutation_p.R358P|HHAT_uc009xcy.2_Missense_Mutation_p.R338P|HHAT_uc010pst.1_Missense_Mutation_p.R340P|HHAT_uc010psu.1_Missense_Mutation_p.R338P|HHAT_uc001hia.3_Missense_Mutation_p.R93P	NM_001122834	NP_001116306	Q5VTY9	HHAT_HUMAN	hedgehog acyltransferase	403					multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)		AATGGAGTCCGGAGGCTGGTG	0.557													8	28	---	---	---	---	PASS	C	210761406	C	C	210761406	3	2	163	1	0	0	0	0	1	0	0	0	7089	1116	39	4	1340	4	HHAT	1	210761406	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	487949	210761406	38489215	128	57463										
PPP2R5A	5525	broad.mit.edu	37	chr1	212502659	212502659	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgttgaatcagcgtattctGatatagtaaaaatggtaagc	9	4	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:212502659G>C	uc001hjb.2	+	2	938	c.364G>C	c.(364-366)GAT>CAT	p.D122H	PPP2R5A_uc010ptd.1_Missense_Mutation_p.D63H	NM_006243	NP_006234	Q15172	2A5A_HUMAN	protein phosphatase 2, regulatory subunit B	122					negative regulation of establishment of protein localization in plasma membrane|negative regulation of lipid kinase activity|positive regulation of protein dephosphorylation|signal transduction	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex	kinase binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0125)|all cancers(67;0.029)|Epithelial(68;0.154)|GBM - Glioblastoma multiforme(131;0.155)		AGCGTATTCTGATATAGTAAA	0.299													9	97	---	---	---	---	PASS	C	212502659	C	C	212502659	3	2	163	1	0	0	0	0	1	0	0	0	12392	1290	45	2	370	2	PPP2R5A	1	212502659	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1741253	212502659	36747962	129	57464										
CENPF	1063	broad.mit.edu	37	chr1	214818501	214818501	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actccagagagtagaaacttCtgaaggcctcaattctgatt	8	9	3	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:214818501C>T	uc001hkm.2	+	13	5762	c.5588C>T	c.(5587-5589)TCT>TTT	p.S1863F		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	1959	Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		GTAGAAACTTCTGAAGGCCTC	0.368													5	101	---	---	---	---	PASS	T	214818501	T	T	214818501	3	4	163	1	0	0	0	0	1	0	0	0	3231	913	32	2	5634	2	CENPF	1	214818501	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2315842	214818501	34432120	130	57465										
USH2A	7399	broad.mit.edu	37	chr1	215824088	215824088	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttctggtggggctggcccgGttctgcaccatgtccagcta	13	13	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:215824088G>T	uc001hku.1	-	65	14576	c.14189C>A	c.(14188-14190)ACC>AAC	p.T4730N		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4730	Fibronectin type-III 32.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GGCTGGCCCGGTTCTGCACCA	0.547										HNSCC(13;0.011)			111	216	---	---	---	---	PASS	T	215824088	T	T	215824088	3	4	163	1	0	0	0	0	1	0	0	0	17033	1261	44	3	1451	3	USH2A	1	215824088	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1005587	215824088	33426533	131	57466										
USH2A	7399	broad.mit.edu	37	chr1	215916526	215916526	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaaagactttcaccattttgAcatgcttgtatccttatctc	5	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:215916526A>G	uc001hku.1	-	59	11928	c.11541T>C	c.(11539-11541)TGT>TGC	p.C3847C		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3847	Fibronectin type-III 23.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CACCATTTTGACATGCTTGTA	0.368										HNSCC(13;0.011)			51	206	---	---	---	---	PASS	G	215916526	G	G	215916526	2	3	163	1	0	0	0	0	0	0	0	1	17033	273	10	5		5	USH2A	1	215916526	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	92438	215916526	33334095	132	57467										
USH2A	7399	broad.mit.edu	37	chr1	216017714	216017714	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcattccagtcttgtagagCttattatttacatagataga	6	6	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:216017714C>A	uc001hku.1	-	46	9567	c.9180G>T	c.(9178-9180)AAG>AAT	p.K3060N		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3060	Fibronectin type-III 17.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TCTTGTAGAGCTTATTATTTA	0.398										HNSCC(13;0.011)			40	146	---	---	---	---	PASS	A	216017714	A	A	216017714	3	1	163	1	0	0	0	0	1	0	0	0	17033	796	28	3	6536	3	USH2A	1	216017714	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	101188	216017714	33232907	133	57468										
USH2A	7399	broad.mit.edu	37	chr1	216251512	216251512	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aactggtgaattcaccaccaGtggctggtctccggactccg	11	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:216251512G>T	uc001hku.1	-	27	5878	c.5491C>A	c.(5491-5493)CTG>ATG	p.L1831M		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1831	Laminin G-like 2.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTCACCACCAGTGGCTGGTCT	0.438										HNSCC(13;0.011)			31	212	---	---	---	---	PASS	T	216251512	T	T	216251512	3	4	163	1	0	0	0	0	1	0	0	0	17033	1020	36	3	10301	3	USH2A	1	216251512	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	233798	216251512	32999109	134	57469										
USH2A	7399	broad.mit.edu	37	chr1	216500961	216500961	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagtgccacttggtataatcGaaaatcttgcattcttccga	7	9	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:216500961G>T	uc001hku.1	-	5	1207	c.820C>A	c.(820-822)CGA>AGA	p.R274R	USH2A_uc001hkv.2_Silent_p.R274R	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	274	Laminin N-terminal.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGGTATAATCGAAAATCTTGC	0.358										HNSCC(13;0.011)			82	132	---	---	---	---	PASS	T	216500961	T	T	216500961	2	4	163	1	0	0	0	0	0	0	0	1	17033	1066	37	2		2	USH2A	1	216500961	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	249449	216500961	32749660	135	57470										
MARK1	4139	broad.mit.edu	37	chr1	220835153	220835153	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccctttgccctcttgttccaGaagtacatcaggggaaccaa	8	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:220835153G>A	uc001hmn.3	+	18	2631	c.2034_splice	c.e18-1	p.R678_splice	MARK1_uc009xdw.2_Splice_Site_p.R679_splice|MARK1_uc010pun.1_Splice_Site_p.R663_splice|MARK1_uc001hmm.3_Splice_Site_p.R641_splice	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1						intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		TCTTGTTCCAGAAGTACATCA	0.408													11	45	---	---	---	---	PASS	A	220835153	A	A	220835153	5	1	163	1	0	0	0	0	0	0	1	0	9312	956	33	2	2103	2	MARK1	1	220835153	Splice_Site	SNP	G	TCGA-66-2785-01A-01D-1522-08	4334192	220835153	28415468	136	57471										
MOSC2	54996	broad.mit.edu	37	chr1	220955136	220955136	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcagctaccgcctgtgtgatCcttctgagagggaattgtac	11	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:220955136C>G	uc001hmq.2	+	7	1099	c.901C>G	c.(901-903)CCT>GCT	p.P301A	MOSC2_uc001hmr.2_Missense_Mutation_p.P301A|MOSC2_uc009xdx.2_Intron	NM_017898	NP_060368	Q969Z3	MOSC2_HUMAN	MOCO sulphurase C-terminal domain containing 2	301	MOSC.					mitochondrial outer membrane|peroxisome	molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.00499)|all cancers(67;0.204)		CCTGTGTGATCCTTCTGAGAG	0.393													12	364	---	---	---	---	PASS	G	220955136	G	G	220955136	3	3	163	1	0	0	0	0	1	0	0	0	9714	855	30	2	927	2	MOSC2	1	220955136	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	119983	220955136	28295485	137	57472										
HLX	3142	broad.mit.edu	37	chr1	221053614	221053614	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agccgcagcagcaacagcctCcgcctccgccccgggctggc	12	20	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:221053614C>T	uc001hmv.3	+	1	872	c.415C>T	c.(415-417)CCG>TCG	p.P139S		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	139	Pro-rich.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)		gcaacagcCTCCGCCTCCGCC	0.597													5	33	---	---	---	---	PASS	T	221053614	T	T	221053614	3	4	163	1	0	0	0	0	1	0	0	0	7216	855	30	2	417	2	HLX	1	221053614	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	98478	221053614	28197007	138	57473										
TAF1A	9015	broad.mit.edu	37	chr1	222732062	222732062	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctcttcatccgcttaattttCttccctaagatttggtgatc	5	11	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:222732062C>G	uc009xdz.1	-	11	1482	c.1293G>C	c.(1291-1293)AAG>AAC	p.K431N	TAF1A_uc009xdy.1_Missense_Mutation_p.K122N|TAF1A_uc001hni.1_Missense_Mutation_p.K317N|TAF1A_uc001hnj.2_Missense_Mutation_p.K431N|TAF1A_uc001hnk.2_Missense_Mutation_p.K317N	NM_139352	NP_647603	Q15573	TAF1A_HUMAN	TBP-associated factor 1A isoform 2	431					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	RNA polymerase I transcription factor complex	DNA binding				0				GBM - Glioblastoma multiforme(131;0.0186)		GCTTAATTTTCTTCCCTAAGA	0.294													20	140	---	---	---	---	PASS	G	222732062	G	G	222732062	3	3	163	1	0	0	0	0	1	0	0	0	15516	912	32	2	63	2	TAF1A	1	222732062	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1678448	222732062	26518559	139	57474										
MIA3	375056	broad.mit.edu	37	chr1	222838891	222838891	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttactgccgtcaggctctaGagatgagcctccacctgcct	9	15	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:222838891G>A	uc001hnl.2	+	28	5663	c.5654G>A	c.(5653-5655)AGA>AAA	p.R1885K	MIA3_uc001hnm.2_Missense_Mutation_p.R763K	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	1885	Pro-rich.|Cytoplasmic (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		TCAGGCTCTAGAGATGAGCCT	0.512													8	270	---	---	---	---	PASS	A	222838891	A	A	222838891	3	1	163	1	0	0	0	0	1	0	0	0	9565	942	33	2	5764	2	MIA3	1	222838891	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	106829	222838891	26411730	140	57475										
AIDA	64853	broad.mit.edu	37	chr1	222876525	222876525	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaattcagaattattgtgttGagcttgggcctccttttgta	10	6	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:222876525G>C	uc001hnn.2	-	2	350	c.145C>G	c.(145-147)CAA>GAA	p.Q49E	AIDA_uc001hno.2_RNA|AIDA_uc010pus.1_Missense_Mutation_p.Q25E	NM_022831	NP_073742	Q96BJ3	AIDA_HUMAN	axin interactor, dorsalization associated	49	Potential.				dorsal/ventral pattern formation|negative regulation of JNK cascade|negative regulation of JUN kinase activity|regulation of protein homodimerization activity						0						TTATTGTGTTGAGCTTGGGCC	0.318													12	136	---	---	---	---	PASS	C	222876525	C	C	222876525	3	2	163	1	0	0	0	0	1	0	0	0	423	1299	45	2	811	2	AIDA	1	222876525	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	37634	222876525	26374096	141	57476										
WNT9A	7483	broad.mit.edu	37	chr1	228109220	228109220	+	Nonstop_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctggcagggcctgggaactCagcccttgcaggtgtagacc	15	12	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:228109220C>G	uc001hri.2	-	4	1185	c.1097G>C	c.(1096-1098)TGA>TCA	p.*366S		NM_003395	NP_003386	O14904	WNT9A_HUMAN	wingless-type MMTV integration site family,	366					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|cornea development in camera-type eye|embryonic arm morphogenesis|embryonic skeletal joint morphogenesis|endoderm development|iris morphogenesis|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|neuron differentiation|positive regulation of smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding|signal transducer activity			central_nervous_system(1)|pancreas(1)	2		Prostate(94;0.0405)				CCTGGGAACTCAGCCCTTGCA	0.642													12	133	---	---	---	---	PASS	G	228109220	G	G	228109220	4	3	163	1	0	0	0	0	0	0	0	0	17395	837	29	2	4	2	WNT9A	1	228109220	Nonstop_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5232695	228109220	21141401	142	57477										
ARF1	375	broad.mit.edu	37	chr1	228284827	228284827	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccacaagcatggggaacatCttcgccaacctcttcaaggg	9	13	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:228284827C>G	uc001hrr.2	+	2	240	c.12C>G	c.(10-12)ATC>ATG	p.I4M	ARF1_uc001hrs.2_Missense_Mutation_p.I4M|ARF1_uc001hrt.2_Missense_Mutation_p.I4M|ARF1_uc009xev.2_Intron|ARF1_uc001hru.2_Missense_Mutation_p.I4M|ARF1_uc001hrv.2_Missense_Mutation_p.I4M|ARF1_uc001hrw.2_Missense_Mutation_p.I4M	NM_001024226	NP_001019397	P84077	ARF1_HUMAN	ADP-ribosylation factor 1	4					cellular copper ion homeostasis|COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|protein transport|regulation of defense response to virus by virus|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction|viral reproduction	cytosol|Golgi membrane|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity|protein binding|receptor signaling protein activity				0		Prostate(94;0.0405)				TGGGGAACATCTTCGCCAACC	0.547													4	211	---	---	---	---	PASS	G	228284827	G	G	228284827	3	3	163	1	0	0	0	0	1	0	0	0	844	903	32	2	14	2	ARF1	1	228284827	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	175607	228284827	20965794	143	57478										
ARF1	375	broad.mit.edu	37	chr1	228285672	228285672	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agcggcgacgggctctatgaAggactggactggctgtccaa	15	10	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:228285672A>G	uc001hrr.2	+	5	732	c.504A>G	c.(502-504)GAA>GAG	p.E168E	ARF1_uc001hrs.2_Silent_p.E168E|ARF1_uc001hrt.2_3'UTR|ARF1_uc009xev.2_RNA|ARF1_uc001hru.2_Silent_p.E168E|ARF1_uc001hrv.2_Silent_p.E168E|ARF1_uc001hrw.2_Silent_p.E168E	NM_001024226	NP_001019397	P84077	ARF1_HUMAN	ADP-ribosylation factor 1	168					cellular copper ion homeostasis|COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|protein transport|regulation of defense response to virus by virus|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction|viral reproduction	cytosol|Golgi membrane|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity|protein binding|receptor signaling protein activity				0		Prostate(94;0.0405)				GGCTCTATGAAGGACTGGACT	0.597													12	69	---	---	---	---	PASS	G	228285672	G	G	228285672	2	3	163	1	0	0	0	0	0	0	0	1	844	69	3	5		5	ARF1	1	228285672	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	845	228285672	20964949	144	57479										
OBSCN	84033	broad.mit.edu	37	chr1	228495998	228495998	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggccgcatccacaccctgcGgctgaagggcgtgacgcccg	14	16	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:228495998G>T	uc009xez.1	+	47	12697	c.12653G>T	c.(12652-12654)CGG>CTG	p.R4218L	OBSCN_uc001hsn.2_Missense_Mutation_p.R4218L	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4218	Ig-like 43.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CACACCCTGCGGCTGAAGGGC	0.642													7	24	---	---	---	---	PASS	T	228495998	T	T	228495998	3	4	163	1	0	0	0	0	1	0	0	0	10812	1116	39	1	12835	1	OBSCN	1	228495998	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	210326	228495998	20754623	145	57480										
HIST3H2A	92815	broad.mit.edu	37	chr1	228645302	228645302	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgcgcgtcttcttgttgtCgcgcgccgcgttgccggcaa	14	13	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:228645302C>T	uc001hsy.2	-	1	259	c.217G>A	c.(217-219)GAC>AAC	p.D73N	HIST3H2BB_uc001hsz.2_5'Flank	NM_033445	NP_254280	Q7L7L0	H2A3_HUMAN	histone cluster 3, H2a	73					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)	1		Prostate(94;0.183)				TTCTTGTTGTCGCGCGCCGCG	0.682													17	82	---	---	---	---	PASS	T	228645302	T	T	228645302	3	4	163	1	0	0	0	0	1	0	0	0	7182	884	31	2	179	2	HIST3H2A	1	228645302	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	149304	228645302	20605319	146	57481										
RHOU	58480	broad.mit.edu	37	chr1	228879380	228879380	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagccatcgtcgctggcattCaatactcggacactcagcaa	8	14	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:228879380C>G	uc001htf.2	+	3	1291	c.670C>G	c.(670-672)CAA>GAA	p.Q224E		NM_021205	NP_067028	Q7L0Q8	RHOU_HUMAN	ras homolog gene family, member U	224					regulation of small GTPase mediated signal transduction	cell projection|cytosol|focal adhesion|Golgi membrane|podosome	GTP binding|metal ion binding|protein binding				0	Breast(184;0.162)	Prostate(94;0.183)				CGCTGGCATTCAATACTCGGA	0.473													12	184	---	---	---	---	PASS	G	228879380	G	G	228879380	3	3	163	1	0	0	0	0	1	0	0	0	13345	827	29	2	680	2	RHOU	1	228879380	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	234078	228879380	20371241	147	57482										
URB2	9816	broad.mit.edu	37	chr1	229783477	229783477	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctgcacaacgtgctcttctCaatcctgcagtgtcacccta	7	15	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:229783477C>G	uc001hts.1	+	7	4263	c.4127C>G	c.(4126-4128)TCA>TGA	p.S1376*	URB2_uc009xfd.1_Nonsense_Mutation_p.S1376*	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	1376						nucleolus				central_nervous_system(2)|ovary(1)	3						GTGCTCTTCTCAATCCTGCAG	0.552													6	170	---	---	---	---	PASS	G	229783477	G	G	229783477	4	3	163	1	0	0	0	0	0	1	0	0	17022	838	29	2	4149	2	URB2	1	229783477	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	904097	229783477	19467144	148	57483										
URB2	9816	broad.mit.edu	37	chr1	229795041	229795041	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggagagaaaagatatacggcCtaaggctatgggacagaagt	14	5	0	3	rs9988520		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:229795041C>G	uc001hts.1	+	10	4708	c.4572C>G	c.(4570-4572)GCC>GCG	p.A1524A	URB2_uc009xfd.1_Silent_p.A1524A	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	1524						nucleolus				central_nervous_system(2)|ovary(1)	3						GATATACGGCCTAAGGCTATG	0.468													74	120	---	---	---	---	PASS	G	229795041	G	G	229795041	2	3	163	1	0	0	0	0	0	0	0	1	17022	668	24	4		4	URB2	1	229795041	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	11564	229795041	19455580	149	57484										
SLC35F3	148641	broad.mit.edu	37	chr1	234458779	234458779	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatcactacaccagtcagatCgtcttcaatggggtccgggt	11	11	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:234458779C>A	uc001hwa.1	+	7	1284	c.1056C>A	c.(1054-1056)ATC>ATA	p.I352I	SLC35F3_uc001hvy.1_Silent_p.I421I	NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	352	Helical; (Potential).				transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			CCAGTCAGATCGTCTTCAATG	0.577													24	109	---	---	---	---	PASS	A	234458779	A	A	234458779	2	1	163	1	0	0	0	0	0	0	0	1	14590	874	31	2		2	SLC35F3	1	234458779	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	4663738	234458779	14791842	150	57485										
GGPS1	9453	broad.mit.edu	37	chr1	235505377	235505377	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgccagtttactcatcgatGatattgaagacaactcaaaa	6	8	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:235505377G>C	uc001hwv.2	+	4	277	c.193G>C	c.(193-195)GAT>CAT	p.D65H	GGPS1_uc001hww.2_Missense_Mutation_p.D65H|GGPS1_uc001hwx.2_Missense_Mutation_p.D11H|GGPS1_uc001hwy.2_Missense_Mutation_p.D65H	NM_001037277	NP_001032354	O95749	GGPPS_HUMAN	geranylgeranyl diphosphate synthase 1 isoform A	65					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|soluble fraction	dimethylallyltranstransferase activity|farnesyltranstransferase activity|geranyltranstransferase activity|metal ion binding			central_nervous_system(1)	1	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00192)|Prostate(94;0.0294)|all_epithelial(177;0.155)|Lung SC(1967;0.238)	OV - Ovarian serous cystadenocarcinoma(106;1.39e-05)			ACTCATCGATGATATTGAAGA	0.348													3	103	---	---	---	---	PASS	C	235505377	C	C	235505377	3	2	163	1	0	0	0	0	1	0	0	0	6360	1290	45	2	203	2	GGPS1	1	235505377	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1046598	235505377	13745244	151	57486										
LYST	1130	broad.mit.edu	37	chr1	235827887	235827887	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtccaacgagatccccgttCaccgtccagagtctgaggtc	10	14	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:235827887C>G	uc001hxj.2	-	51	11248	c.11073G>C	c.(11071-11073)GTG>GTC	p.V3691V	LYST_uc001hxi.2_Silent_p.V915V	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3691	WD 5.				defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GATCCCCGTTCACCGTCCAGA	0.557									Chediak-Higashi_syndrome				7	107	---	---	---	---	PASS	G	235827887	G	G	235827887	2	3	163	1	0	0	0	0	0	0	0	1	9128	813	29	2		2	LYST	1	235827887	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	322510	235827887	13422734	152	57487										
LYST	1130	broad.mit.edu	37	chr1	235929511	235929511	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggagatccaaggacttctgCtataattttcacaaatgatc	7	8	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:235929511C>A	uc001hxj.2	-	21	6164	c.5989G>T	c.(5989-5991)GCA>TCA	p.A1997S	LYST_uc009xgb.1_Intron|LYST_uc010pxs.1_RNA	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	1997					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			AGGACTTCTGCTATAATTTTC	0.358									Chediak-Higashi_syndrome				59	456	---	---	---	---	PASS	A	235929511	A	A	235929511	3	1	163	1	0	0	0	0	1	0	0	0	9128	797	28	3	5548	3	LYST	1	235929511	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	101624	235929511	13321110	153	57488										
LYST	1130	broad.mit.edu	37	chr1	235955020	235955020	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtaccatcaaaactgctatCtggtaaaattaatgatttgt	6	6	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:235955020C>A	uc001hxj.2	-	12	4697	c.4522G>T	c.(4522-4524)GAT>TAT	p.D1508Y	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_Intron|LYST_uc001hxl.1_Missense_Mutation_p.D1508Y	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	1508					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			AAACTGCTATCTGGTAAAATT	0.338									Chediak-Higashi_syndrome				26	262	---	---	---	---	PASS	A	235955020	A	A	235955020	3	1	163	1	0	0	0	0	1	0	0	0	9128	913	32	2	7051	2	LYST	1	235955020	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	25509	235955020	13295601	154	57489										
RYR2	6262	broad.mit.edu	37	chr1	237550644	237550644	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccagcagactctctggagcGtggccccaatcagctcagga	11	14	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:237550644G>T	uc001hyl.1	+	9	760	c.640G>T	c.(640-642)GTG>TTG	p.V214L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	214	Cytoplasmic (By similarity).|MIR 2.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TCTCTGGAGCGTGGCCCCAAT	0.512													31	138	---	---	---	---	PASS	T	237550644	T	T	237550644	3	4	163	1	0	0	0	0	1	0	0	0	13769	1145	40	1	674	1	RYR2	1	237550644	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1595624	237550644	11699977	155	57490										
RYR2	6262	broad.mit.edu	37	chr1	237580371	237580371	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgttcattatgaaggtggcGctgtgtctgttcatgcacgt	12	8	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:237580371G>C	uc001hyl.1	+	11	916	c.796G>C	c.(796-798)GCT>CCT	p.A266P		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	266	Cytoplasmic (By similarity).|MIR 3.				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	p.A264T(1)		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)			TGAAGGTGGCGCTGTGTCTGT	0.388													13	102	---	---	---	---	PASS	C	237580371	C	C	237580371	3	2	163	1	0	0	0	0	1	0	0	0	13769	1087	38	4	838	4	RYR2	1	237580371	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	29727	237580371	11670250	156	57491										
RYR2	6262	broad.mit.edu	37	chr1	237794799	237794799	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggggatgcacgagactgtGatggaggtcatggtgaacgt	17	6	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:237794799G>A	uc001hyl.1	+	42	6633	c.6513G>A	c.(6511-6513)GTG>GTA	p.V2171V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2171	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			ACGAGACTGTGATGGAGGTCA	0.448													15	63	---	---	---	---	PASS	A	237794799	A	A	237794799	2	1	163	1	0	0	0	0	0	0	0	1	13769	1277	45	2		2	RYR2	1	237794799	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	214428	237794799	11455822	157	57492										
RYR2	6262	broad.mit.edu	37	chr1	237868518	237868518	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attttccacttataggcaacGttctgcattaggagaatgtc	8	8	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:237868518G>T	uc001hyl.1	+	67	9575	c.9455G>T	c.(9454-9456)CGT>CTT	p.R3152L	RYR2_uc010pxz.1_Missense_Mutation_p.R107L	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3152					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)			TATAGGCAACGTTCTGCATTA	0.338													9	42	---	---	---	---	PASS	T	237868518	T	T	237868518	3	4	163	1	0	0	0	0	1	0	0	0	13769	1145	40	1	9721	1	RYR2	1	237868518	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	73719	237868518	11382103	158	57493										
RYR2	6262	broad.mit.edu	37	chr1	237949313	237949313	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaggaagaaaaagaagaaacCaaatctgaacctgaaaaagc	8	6	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:237949313C>T	uc001hyl.1	+	91	13425	c.13305C>T	c.(13303-13305)ACC>ACT	p.T4435T	RYR2_uc010pya.1_Silent_p.T850T	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4435	Potential.|Glu-rich (acidic).				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)			aagaagaaACCAAATCTGAAC	0.323													3	18	---	---	---	---	PASS	T	237949313	T	T	237949313	2	4	163	1	0	0	0	0	0	0	0	1	13769	581	21	3		3	RYR2	1	237949313	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	80795	237949313	11301308	159	57494										
FMN2	56776	broad.mit.edu	37	chr1	240374396	240374396	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttgcttaattttagagactCcagtacttcacttatttggg	7	7	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:240374396C>T	uc010pyd.1	+	6	4151	c.3926C>T	c.(3925-3927)TCC>TTC	p.S1309F	FMN2_uc010pye.1_Missense_Mutation_p.S1313F	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1309	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TTTAGAGACTCCAGTACTTCA	0.274													18	184	---	---	---	---	PASS	T	240374396	T	T	240374396	3	4	163	1	0	0	0	0	1	0	0	0	5950	855	30	2	3948	2	FMN2	1	240374396	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2425083	240374396	8876225	160	57495										
CEP170	9859	broad.mit.edu	37	chr1	243289777	243289777	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgtactgtaacatcttcctCttccccatcggggttgaatc	7	12	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:243289777C>T	uc001hzs.2	-	20	5137	c.4729G>A	c.(4729-4731)GAG>AAG	p.E1577K	CEP170_uc001hzt.2_Missense_Mutation_p.E1453K|CEP170_uc001hzu.2_Missense_Mutation_p.E1479K|CEP170_uc001hzr.2_Missense_Mutation_p.E166K|CEP170_uc001hzv.1_Intron	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	1577	Targeting to microtubules.|Targeting to centrosomes.					centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			ACATCTTCCTCTTCCCCATCG	0.403													4	43	---	---	---	---	PASS	T	243289777	T	T	243289777	3	4	163	1	0	0	0	0	1	0	0	0	3250	922	32	2	29	2	CEP170	1	243289777	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2915381	243289777	5960844	161	57496										
ZNF695	57116	broad.mit.edu	37	chr1	247150665	247150665	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caggtaaaagctttgccacaTtcctcacatttgtatggttt	7	9	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:247150665T>C	uc009xgu.2	-	4	1297	c.1152A>G	c.(1150-1152)GAA>GAG	p.E384E	ZNF695_uc001ica.2_Intron|ZNF695_uc001icb.1_Intron|ZNF695_uc009xgt.1_Intron|ZNF695_uc001ibx.2_Intron|ZNF695_uc001iby.2_Intron	NM_020394	NP_065127	Q8IW36	ZN695_HUMAN	zinc finger protein SBZF3	384	C2H2-type 9.				regulation of transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			CTTTGCCACATTCCTCACATT	0.408													19	100	---	---	---	---	PASS	C	247150665	C	C	247150665	2	2	163	1	0	0	0	0	0	0	0	1	18095	1490	52	5		5	ZNF695	1	247150665	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	3860888	247150665	2099956	162	57497										
ZNF695	57116	broad.mit.edu	37	chr1	247150970	247150970	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aattttcttatgtttagtaaGaactgagcacaggttaaaag	8	4	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:247150970G>C	uc009xgu.2	-	4	992	c.847C>G	c.(847-849)CTT>GTT	p.L283V	ZNF695_uc001ica.2_Intron|ZNF695_uc001icb.1_Intron|ZNF695_uc009xgt.1_Intron|ZNF695_uc001ibx.2_Intron|ZNF695_uc001iby.2_Intron	NM_020394	NP_065127	Q8IW36	ZN695_HUMAN	zinc finger protein SBZF3	283	C2H2-type 5.				regulation of transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			TGTTTAGTAAGAACTGAGCAC	0.358													10	62	---	---	---	---	PASS	C	247150970	C	C	247150970	3	2	163	1	0	0	0	0	1	0	0	0	18095	942	33	2	704	2	ZNF695	1	247150970	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	305	247150970	2099651	163	57498										
OR2G3	81469	broad.mit.edu	37	chr1	247768946	247768946	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccttctaggcttctcagaccAccctcgtctggaggctgttc	9	15	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:247768946A>T	uc010pyz.1	+	1	59	c.59A>T	c.(58-60)CAC>CTC	p.H20L		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TTCTCAGACCACCCTCGTCTG	0.493													36	272	---	---	---	---	PASS	T	247768946	T	T	247768946	3	4	163	1	0	0	0	0	1	0	0	0	10999	159	6	5	61	5	OR2G3	1	247768946	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	617976	247768946	1481675	164	57499										
OR6F1	343169	broad.mit.edu	37	chr1	247875804	247875804	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggtctgacttctccccagtAggatggccagtgctttgggc	13	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:247875804A>G	uc001idj.1	-	1	254	c.254T>C	c.(253-255)CTA>CCA	p.L85P		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TCTCCCCAGTAGGATGGCCAG	0.483													22	161	---	---	---	---	PASS	G	247875804	G	G	247875804	3	3	163	1	0	0	0	0	1	0	0	0	11201	420	15	5	676	5	OR6F1	1	247875804	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	106858	247875804	1374817	165	57500										
OR11L1	391189	broad.mit.edu	37	chr1	248004613	248004613	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caggatgaagatggtcacctCggtgatataaactctggaac	11	8	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:248004613C>T	uc001idn.1	-	1	586	c.586G>A	c.(586-588)GAG>AAG	p.E196K		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	196	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			ATGGTCACCTCGGTGATATAA	0.478													16	180	---	---	---	---	PASS	T	248004613	T	T	248004613	3	4	163	1	0	0	0	0	1	0	0	0	10930	893	31	2	386	2	OR11L1	1	248004613	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	128809	248004613	1246008	166	57501										
OR2L13	284521	broad.mit.edu	37	chr1	248262678	248262678	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agttacagcagaaagttttcAtggagaaatggaatcacact	9	6	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:248262678A>G	uc001ids.2	+	3	338	c.1A>G	c.(1-3)ATG>GTG	p.M1V		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			GAAAGTTTTCATGGAGAAATG	0.254													62	209	---	---	---	---	PASS	G	248262678	G	G	248262678	3	3	163	1	0	0	0	0	1	0	0	0	11006	217	8	5	3	5	OR2L13	1	248262678	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	258065	248262678	987943	167	57502										
OR2T4	127074	broad.mit.edu	37	chr1	248525698	248525698	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cggaaaaaggcctttgccacCtgctcctcccacctgactgt	8	16	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:248525698C>A	uc001ieh.1	+	1	816	c.816C>A	c.(814-816)ACC>ACA	p.T272T		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	272	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCTTTGCCACCTGCTCCTCCC	0.547													85	258	---	---	---	---	PASS	A	248525698	A	A	248525698	2	1	163	1	0	0	0	0	0	0	0	1	11027	668	24	3		3	OR2T4	1	248525698	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	263020	248525698	724923	168	57503										
OR2T10	127069	broad.mit.edu	37	chr1	248756958	248756958	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtaatattccaagacacagCcatcaaaaatatactgaaga	5	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr1:248756958C>A	uc010pzn.1	-	1	112	c.112G>T	c.(112-114)GCT>TCT	p.A38S		NM_001004693	NP_001004693	Q8NGZ9	O2T10_HUMAN	olfactory receptor, family 2, subfamily T,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CAAGACACAGCCATCAAAAAT	0.443													16	116	---	---	---	---	PASS	A	248756958	A	A	248756958	3	1	163	1	0	0	0	0	1	0	0	0	11017	739	26	3	829	3	OR2T10	1	248756958	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	231260	248756958	493663	169	57504										
NBAS	51594	broad.mit.edu	37	chr2	15417012	15417012	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aacttcttcagcagtcgaatGtgggtttctggtttaatggc	11	7	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:15417012G>A	uc002rcc.1	-	43	5378	c.5352C>T	c.(5350-5352)CAC>CAT	p.H1784H	NBAS_uc010exl.1_Silent_p.H856H|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1784				H -> Y (in Ref. 1; AAM93544).						ovary(2)|liver(1)|skin(1)	4						GCAGTCGAATGTGGGTTTCTG	0.408													16	103	---	---	---	---	PASS	A	15417012	A	A	15417012	2	1	163	1	0	0	0	0	0	0	0	1	10186	1368	48	3		3	NBAS	2	15417012	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08		15417012	227782361	170	57505										
SMC6	79677	broad.mit.edu	37	chr2	17898106	17898106	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgattttgaaaggcctttacTctctcttttaaccaagatat	5	8	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:17898106T>A	uc002rco.2	-	14	1544	c.1248A>T	c.(1246-1248)AGA>AGT	p.R416S	SMC6_uc010exo.2_Missense_Mutation_p.R416S|SMC6_uc002rcn.2_Missense_Mutation_p.R416S|SMC6_uc002rcp.1_Missense_Mutation_p.R442S|SMC6_uc002rcq.2_Missense_Mutation_p.R442S|SMC6_uc002rcr.1_Missense_Mutation_p.R416S	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	416	Potential.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					AGGCCTTTACTCTCTCTTTTA	0.338													25	122	---	---	---	---	PASS	A	17898106	A	A	17898106	3	1	163	1	0	0	0	0	1	0	0	0	14787	1548	54	5	2087	5	SMC6	2	17898106	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	2481094	17898106	225301267	171	57506										
NT5C1B	93034	broad.mit.edu	37	chr2	18770719	18770719	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actcacctttttctgtttgaGagatgtttgactcatttttt	6	7	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:18770719G>A	uc002rcz.2	-	1	120	c.16C>T	c.(16-18)CTC>TTC	p.L6F	NT5C1B_uc002rcy.2_Missense_Mutation_p.L6F|NT5C1B_uc010exr.2_Missense_Mutation_p.L6F|NT5C1B_uc010yju.1_Intron|NT5C1B_uc002rda.2_Missense_Mutation_p.L6F|NT5C1B_uc010yjv.1_Missense_Mutation_p.L6F|NT5C1B_uc010yjw.1_Missense_Mutation_p.L6F|NT5C1B_uc010exs.2_Missense_Mutation_p.L6F	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	6					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				TTCTGTTTGAGAGATGTTTGA	0.418													22	205	---	---	---	---	PASS	A	18770719	A	A	18770719	3	1	163	1	0	0	0	0	1	0	0	0	10686	942	33	2	1856	2	NT5C1B	2	18770719	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	872613	18770719	224428654	172	57507										
C2orf79	391356	broad.mit.edu	37	chr2	25016063	25016063	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtgtgcgggtggtcgcggtGagtgtgcaaggccgcggtgg	22	7	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:25016063G>A	uc002rfm.2	-	1	189	c.184C>T	c.(184-186)CAC>TAC	p.H62Y	CENPO_uc002rfn.2_5'Flank|CENPO_uc002rfo.1_5'Flank|CENPO_uc002rfp.1_5'Flank|CENPO_uc002rfq.1_5'Flank	NM_001013663	NP_001013685	Q6GMV3	PTRD1_HUMAN	hypothetical protein LOC391356	62					translation		aminoacyl-tRNA hydrolase activity|protein tyrosine phosphatase activity				0						TGGTCGCGGTGAGTGTGCAAG	0.657													10	51	---	---	---	---	PASS	A	25016063	A	A	25016063	3	1	163	1	0	0	0	0	1	0	0	0	2196	1290	45	2	246	2	C2orf79	2	25016063	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	6245344	25016063	218183310	173	57508										
KHK	3795	broad.mit.edu	37	chr2	27320448	27320448	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggcagcctccagagcagaaGatccgggtgtccgtggaggt	16	10	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:27320448G>C	uc002ril.2	+	5	1012	c.495G>C	c.(493-495)AAG>AAC	p.K165N	KHK_uc002rim.2_Missense_Mutation_p.K165N|KHK_uc002rin.2_Missense_Mutation_p.K166N|KHK_uc002rio.2_Missense_Mutation_p.K81N	NM_000221	NP_000212	P50053	KHK_HUMAN	ketohexokinase isoform a	165					fructose catabolic process	cytosol	ATP binding|ketohexokinase activity|protein binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGAGCAGAAGATCCGGGTGT	0.612													8	122	---	---	---	---	PASS	C	27320448	C	C	27320448	3	2	163	1	0	0	0	0	1	0	0	0	8149	933	33	2	652	2	KHK	2	27320448	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2304385	27320448	215878925	174	57509										
DNAJC5G	285126	broad.mit.edu	37	chr2	27500880	27500880	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attctgaatagttgttggttCaaggtacacaattctccagg	9	7	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:27500880C>G	uc002rjl.1	+	4	790	c.372C>G	c.(370-372)TTC>TTG	p.F124L	SLC30A3_uc010ylh.1_5'Flank|DNAJC5G_uc010yli.1_Intron|DNAJC5G_uc002rjm.1_Missense_Mutation_p.F124L	NM_173650	NP_775921	Q8N7S2	DNJ5G_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	124					protein folding	membrane	heat shock protein binding|unfolded protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTTGTTGGTTCAAGGTACACA	0.398													6	198	---	---	---	---	PASS	G	27500880	G	G	27500880	3	3	163	1	0	0	0	0	1	0	0	0	4652	825	29	2	378	2	DNAJC5G	2	27500880	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	180432	27500880	215698493	175	57510										
NRBP1	29959	broad.mit.edu	37	chr2	27659661	27659661	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcatgtgaagacttgtcgaGaagagcagaagaatctacac	10	7	2	6			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:27659661G>T	uc002rko.2	+	9	1535	c.703G>T	c.(703-705)GAA>TAA	p.E235*	NRBP1_uc002rkq.2_Nonsense_Mutation_p.E235*|NRBP1_uc002rkp.2_Nonsense_Mutation_p.E235*|NRBP1_uc002rkr.2_Nonsense_Mutation_p.E26*	NM_013392	NP_037524	Q9UHY1	NRBP_HUMAN	nuclear receptor binding protein	235	Protein kinase.				ER to Golgi vesicle-mediated transport|gene expression|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cell cortex|endomembrane system|lamellipodium|membrane|nucleoplasm	ATP binding|protein homodimerization activity|protein kinase activity			ovary(2)|lung(1)	3	Acute lymphoblastic leukemia(172;0.155)					GACTTGTCGAGAAGAGCAGAA	0.483													35	63	---	---	---	---	PASS	T	27659661	T	T	27659661	4	4	163	1	0	0	0	0	0	1	0	0	10642	943	33	2	729	2	NRBP1	2	27659661	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	158781	27659661	215539712	176	57511										
C2orf16	84226	broad.mit.edu	37	chr2	27800538	27800538	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aatctgtggagttgacttctAagtcaggagtgcaggtagag	14	5	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:27800538A>G	uc002rkz.3	+	1	1150	c.1099A>G	c.(1099-1101)AAG>GAG	p.K367E		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	367										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					GTTGACTTCTAAGTCAGGAGT	0.463													13	80	---	---	---	---	PASS	G	27800538	G	G	27800538	3	3	163	1	0	0	0	0	1	0	0	0	2157	363	13	5	1101	5	C2orf16	2	27800538	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	140877	27800538	215398835	177	57512										
C2orf16	84226	broad.mit.edu	37	chr2	27802036	27802036	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcagaaaggtctcatcaagtCtttcccgggcagacaacaca	8	12	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:27802036C>G	uc002rkz.3	+	1	2648	c.2597C>G	c.(2596-2598)TCT>TGT	p.S866C		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	866										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					CTCATCAAGTCTTTCCCGGGC	0.473													20	92	---	---	---	---	PASS	G	27802036	G	G	27802036	3	3	163	1	0	0	0	0	1	0	0	0	2157	913	32	2	2599	2	C2orf16	2	27802036	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1498	27802036	215397337	178	57513										
WDR43	23160	broad.mit.edu	37	chr2	29158396	29158396	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttttctcacagaaagtacttCaaactaggaatgtaaacctt	5	8	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:29158396C>G	uc002rmo.2	+	12	1479	c.1447C>G	c.(1447-1449)CAA>GAA	p.Q483E		NM_015131	NP_055946	Q15061	WDR43_HUMAN	WD repeat domain 43	483						nucleolus				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					GAAAGTACTTCAAACTAGGAA	0.318													19	107	---	---	---	---	PASS	G	29158396	G	G	29158396	3	3	163	1	0	0	0	0	1	0	0	0	17292	827	29	2	1493	2	WDR43	2	29158396	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1356360	29158396	214040977	179	57514										
C2orf71	388939	broad.mit.edu	37	chr2	29296852	29296852	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaggttttggttcctgggatCagtccttccatatctttcct	9	10	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:29296852C>T	uc002rmt.1	-	1	276	c.276G>A	c.(274-276)CTG>CTA	p.L92L		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	92					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						TTCCTGGGATCAGTCCTTCCA	0.488													41	271	---	---	---	---	PASS	T	29296852	T	T	29296852	2	4	163	1	0	0	0	0	0	0	0	1	2191	813	29	2		2	C2orf71	2	29296852	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	138456	29296852	213902521	180	57515										
XDH	7498	broad.mit.edu	37	chr2	31590862	31590862	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgcttcggaaaaccccttcTttaggtcccctttctcgatc	6	15	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:31590862T>C	uc002rnv.1	-	20	2241	c.2162A>G	c.(2161-2163)AAG>AGG	p.K721R		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	721					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	AAACCCCTTCTTTAGGTCCCC	0.443													95	237	---	---	---	---	PASS	C	31590862	C	C	31590862	3	2	163	1	0	0	0	0	1	0	0	0	17423	1609	56	5	1907	5	XDH	2	31590862	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	2294010	31590862	211608511	181	57516										
NLRC4	58484	broad.mit.edu	37	chr2	32476252	32476252	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccatgaatgtctgcttcctGattgtgccaggtatatccag	10	10	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:32476252G>C	uc002roi.2	-	4	927	c.681C>G	c.(679-681)ATC>ATG	p.I227M	NLRC4_uc002roj.1_Missense_Mutation_p.I227M|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	227	NACHT.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TCTGCTTCCTGATTGTGCCAG	0.498													24	120	---	---	---	---	PASS	C	32476252	C	C	32476252	3	2	163	1	0	0	0	0	1	0	0	0	10469	1280	45	2	2417	2	NLRC4	2	32476252	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	885390	32476252	210723121	182	57517										
HEATR5B	54497	broad.mit.edu	37	chr2	37229651	37229651	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acaagagattttccaggaatGagaccaccgctgtcacctcc	8	13	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:37229651G>C	uc002rpp.1	-	32	5211	c.5115C>G	c.(5113-5115)CTC>CTG	p.L1705L	HEATR5B_uc002rpo.1_Silent_p.L18L|HEATR5B_uc010ezy.1_Intron	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1705							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				TTCCAGGAATGAGACCACCGC	0.438													23	147	---	---	---	---	PASS	C	37229651	C	C	37229651	2	2	163	1	0	0	0	0	0	0	0	1	7032	1277	45	2		2	HEATR5B	2	37229651	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	4753399	37229651	205969722	183	57518										
HEATR5B	54497	broad.mit.edu	37	chr2	37276911	37276911	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatggggtttgggttgtccaGaggacccataaccagtgtca	14	8	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:37276911G>C	uc002rpp.1	-	18	2677	c.2581C>G	c.(2581-2583)CTG>GTG	p.L861V		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	861	HEAT 1.						binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				GGGTTGTCCAGAGGACCCATA	0.438													20	71	---	---	---	---	PASS	C	37276911	C	C	37276911	3	2	163	1	0	0	0	0	1	0	0	0	7032	933	33	2	3710	2	HEATR5B	2	37276911	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	47260	37276911	205922462	184	57519										
SFRS7	6432	broad.mit.edu	37	chr2	38975246	38975246	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcttctgagtgaagctgatCttgatctacgaagagagata	10	6	4	6			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:38975246C>G	uc002rqz.2	-	5	753	c.515G>C	c.(514-516)AGA>ACA	p.R172T	SFRS7_uc002rra.2_RNA|SFRS7_uc010ynp.1_Missense_Mutation_p.R172T	NM_001031684	NP_001026854	Q16629	SRSF7_HUMAN	splicing factor, arginine/serine-rich 7	172	3.|6 X 8 AA repeats of R-R-S-R-S-X-S-X.|Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding|zinc ion binding				0		all_hematologic(82;0.248)				TGAAGCTGATCTTGATCTACG	0.363													21	116	---	---	---	---	PASS	G	38975246	G	G	38975246	3	3	163	1	0	0	0	0	1	0	0	0	14182	913	32	2	217	2	SFRS7	2	38975246	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1698335	38975246	204224127	185	57520										
LRPPRC	10128	broad.mit.edu	37	chr2	44115753	44115753	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gttatttcaagaagagttttCcctcaattttcttagctgct	6	8	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:44115753C>A	uc002rtr.2	-	38	4229	c.4171G>T	c.(4171-4173)GAA>TAA	p.E1391*		NM_133259	NP_573566	P42704	LPPRC_HUMAN	leucine-rich PPR motif-containing protein	1391	RNA-binding.				mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				GAAGAGTTTTCCCTCAATTTT	0.333													9	80	---	---	---	---	PASS	A	44115753	A	A	44115753	4	1	163	1	0	0	0	0	0	1	0	0	8965	864	30	2	17	2	LRPPRC	2	44115753	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5140507	44115753	199083620	186	57521										
LRPPRC	10128	broad.mit.edu	37	chr2	44139579	44139579	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actaacacttacaatgctttCacttccattgcttgtgtaaa	4	10	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:44139579C>G	uc002rtr.2	-	30	3325	c.3267G>C	c.(3265-3267)GTG>GTC	p.V1089V	LRPPRC_uc010yob.1_Silent_p.V989V	NM_133259	NP_573566	P42704	LPPRC_HUMAN	leucine-rich PPR motif-containing protein	1089	PPR 16.				mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				ACAATGCTTTCACTTCCATTG	0.308													25	120	---	---	---	---	PASS	G	44139579	G	G	44139579	2	3	163	1	0	0	0	0	0	0	0	1	8965	813	29	2		2	LRPPRC	2	44139579	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	23826	44139579	199059794	187	57522										
PREPL	9581	broad.mit.edu	37	chr2	44566303	44566303	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taccttaaattctgtaggttCtccaacattagtgagaatgt	7	7	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:44566303C>G	uc002ruf.2	-	6	987	c.952G>C	c.(952-954)GAA>CAA	p.E318Q	PREPL_uc002rug.2_Missense_Mutation_p.E318Q|PREPL_uc002ruh.2_Missense_Mutation_p.E318Q|PREPL_uc010fax.2_Missense_Mutation_p.E318Q|PREPL_uc002rui.3_Missense_Mutation_p.E229Q|PREPL_uc002ruj.1_Missense_Mutation_p.E229Q|PREPL_uc002ruk.1_Missense_Mutation_p.E318Q	NM_006036	NP_006027	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like isoform C	318					proteolysis	cytosol	serine-type endopeptidase activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TCTGTAGGTTCTCCAACATTA	0.418													22	115	---	---	---	---	PASS	G	44566303	G	G	44566303	3	3	163	1	0	0	0	0	1	0	0	0	12475	922	32	2	1267	2	PREPL	2	44566303	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	426724	44566303	198633070	188	57523										
CCDC88A	55704	broad.mit.edu	37	chr2	55549772	55549772	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccagatattggaggagagctCtgtaccatcctttcctcatc	8	12	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:55549772C>G	uc002ryv.2	-	18	3893	c.3051G>C	c.(3049-3051)CAG>CAC	p.Q1017H	CCDC88A_uc010yoz.1_Missense_Mutation_p.Q1018H|CCDC88A_uc010ypa.1_Missense_Mutation_p.Q1017H|CCDC88A_uc002ryu.2_Missense_Mutation_p.Q300H|CCDC88A_uc002rys.2_Missense_Mutation_p.Q3H|CCDC88A_uc002ryw.2_Missense_Mutation_p.Q301H|CCDC88A_uc010fby.1_Intron	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	1018	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						GAGGAGAGCTCTGTACCATCC	0.338													72	159	---	---	---	---	PASS	G	55549772	G	G	55549772	3	3	163	1	0	0	0	0	1	0	0	0	2863	912	32	2	2621	2	CCDC88A	2	55549772	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	10983469	55549772	187649601	189	57524										
CCDC85A	114800	broad.mit.edu	37	chr2	56603003	56603003	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagtaacagttcacccaactCtgcagctagcttcagtggac	9	12	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:56603003C>G	uc002rzn.2	+	5	2007	c.1505C>G	c.(1504-1506)TCT>TGT	p.S502C		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	502										breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TCACCCAACTCTGCAGCTAGC	0.433													15	88	---	---	---	---	PASS	G	56603003	G	G	56603003	3	3	163	1	0	0	0	0	1	0	0	0	2859	913	32	2	1523	2	CCDC85A	2	56603003	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1053231	56603003	186596370	190	57525										
BCL11A	53335	broad.mit.edu	37	chr2	60689006	60689006	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagggcggcttgctacctggCtggaatggttgcagtaacct	14	9	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:60689006C>G	uc002sae.1	-	4	1269	c.1041G>C	c.(1039-1041)CAG>CAC	p.Q347H	BCL11A_uc002sab.2_Missense_Mutation_p.Q347H|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Intron|BCL11A_uc010ypj.1_Missense_Mutation_p.Q313H|BCL11A_uc002sad.1_Missense_Mutation_p.Q195H|BCL11A_uc002saf.1_Missense_Mutation_p.Q313H	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	347	Pro-rich.				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			TGCTACCTGGCTGGAATGGTT	0.632			T	IGH@	B-CLL								9	145	---	---	---	---	PASS	G	60689006	G	G	60689006	3	3	163	1	0	0	0	0	1	0	0	0	1363	796	28	4	1576	4	BCL11A	2	60689006	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4086003	60689006	182510367	191	57526										
PEX13	5194	broad.mit.edu	37	chr2	61275900	61275900	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagatggagaaaagcaagatCtttgatatctttcatgtttg	9	4	3	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:61275900C>G	uc002sau.3	+	4	1290	c.1207C>G	c.(1207-1209)CTT>GTT	p.L403V		NM_002618	NP_002609	Q92968	PEX13_HUMAN	peroxisomal biogenesis factor 13	403	Cytoplasmic (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)			AAAGCAAGATCTTTGATATCT	0.333													24	130	---	---	---	---	PASS	G	61275900	G	G	61275900	3	3	163	1	0	0	0	0	1	0	0	0	11741	913	32	2	1221	2	PEX13	2	61275900	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	586894	61275900	181923473	192	57527										
TMEM17	200728	broad.mit.edu	37	chr2	62729924	62729924	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgccaaactggagaccatttCattttctacagaaggaacag	8	9	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:62729924C>T	uc002sbt.2	-	2	446	c.106G>A	c.(106-108)GAA>AAA	p.E36K	TMEM17_uc002sbu.2_Missense_Mutation_p.E36K|TMEM17_uc002sbv.1_Missense_Mutation_p.E11K	NM_198276	NP_938017	Q86X19	TMM17_HUMAN	transmembrane protein 17	36						integral to membrane					0	Lung NSC(7;0.0274)|all_lung(7;0.0568)		LUSC - Lung squamous cell carcinoma(7;1.31e-05)|Epithelial(17;0.169)			GAGACCATTTCATTTTCTACA	0.353													25	161	---	---	---	---	PASS	T	62729924	T	T	62729924	3	4	163	1	0	0	0	0	1	0	0	0	16082	835	29	2	502	2	TMEM17	2	62729924	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1454024	62729924	180469449	193	57528										
EHBP1	23301	broad.mit.edu	37	chr2	63092065	63092065	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtggatatgagcaagtacctCtatgctgatagttctaaaac	9	7	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:63092065C>G	uc002sby.2	+	10	1544	c.1062C>G	c.(1060-1062)CTC>CTG	p.L354L	EHBP1_uc010fcp.2_Silent_p.L319L|EHBP1_uc002sbx.2_Silent_p.L319L|EHBP1_uc002sbz.2_Silent_p.L319L|EHBP1_uc002scb.2_Silent_p.L319L	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	354						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			GCAAGTACCTCTATGCTGATA	0.373									Hereditary_Prostate_Cancer				27	174	---	---	---	---	PASS	G	63092065	G	G	63092065	2	3	163	1	0	0	0	0	0	0	0	1	4975	900	32	2		2	EHBP1	2	63092065	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	362141	63092065	180107308	194	57529										
EHBP1	23301	broad.mit.edu	37	chr2	63175914	63175914	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccaatacagattcaacccaaGcacaggttttgttaggcaaa	7	10	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:63175914G>T	uc002sby.2	+	14	2520	c.2038G>T	c.(2038-2040)GCA>TCA	p.A680S	EHBP1_uc010fcp.2_Missense_Mutation_p.A645S|EHBP1_uc002sbz.2_Missense_Mutation_p.A645S|EHBP1_uc002scb.2_Missense_Mutation_p.A645S	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	680						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			TTCAACCCAAGCACAGGTTTT	0.413									Hereditary_Prostate_Cancer				26	96	---	---	---	---	PASS	T	63175914	T	T	63175914	3	4	163	1	0	0	0	0	1	0	0	0	4975	971	34	3	2088	3	EHBP1	2	63175914	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	83849	63175914	180023459	195	57530										
CEP68	23177	broad.mit.edu	37	chr2	65299333	65299333	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggccactgccctgccattttCtgggcccagagagccaagcc	11	16	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:65299333C>G	uc002sdl.3	+	3	1317	c.1103C>G	c.(1102-1104)TCT>TGT	p.S368C	CEP68_uc002sdj.2_Missense_Mutation_p.S368C|CEP68_uc010yqb.1_Missense_Mutation_p.S368C|CEP68_uc002sdk.3_Missense_Mutation_p.S368C|CEP68_uc010yqc.1_Missense_Mutation_p.S368C|CEP68_uc010yqd.1_Missense_Mutation_p.S368C	NM_015147	NP_055962	Q76N32	CEP68_HUMAN	centrosomal protein 68kDa	368					centrosome organization	centrosome				skin(1)	1						CTGCCATTTTCTGGGCCCAGA	0.577													20	129	---	---	---	---	PASS	G	65299333	G	G	65299333	3	3	163	1	0	0	0	0	1	0	0	0	3258	913	32	2	1109	2	CEP68	2	65299333	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2123419	65299333	177900040	196	57531										
MTHFD2	10797	broad.mit.edu	37	chr2	74438937	74438937	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cattgatgtgggaataaataGagttcacgatcctgtaactg	10	6	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:74438937G>C	uc002skk.2	+	7	912	c.833G>C	c.(832-834)AGA>ACA	p.R278T	SLC4A5_uc002skl.2_RNA|MTHFD2_uc002skj.2_Missense_Mutation_p.R176T|MTHFD2_uc010yro.1_Missense_Mutation_p.R176T|MTHFD2_uc010ffb.2_Intron|MTHFD2_uc010yrp.1_Missense_Mutation_p.R114T	NM_006636	NP_006627	P13995	MTDC_HUMAN	methylenetetrahydrofolate dehydrogenase 2	278					folic acid-containing compound biosynthetic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	magnesium ion binding|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NAD+) activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|phosphate binding|protein binding				0					NADH(DB00157)|Tetrahydrofolic acid(DB00116)	GGAATAAATAGAGTTCACGAT	0.358													25	57	---	---	---	---	PASS	C	74438937	C	C	74438937	3	2	163	1	0	0	0	0	1	0	0	0	9929	942	33	2	859	2	MTHFD2	2	74438937	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	9139604	74438937	168760436	197	57532										
DCTN1	1639	broad.mit.edu	37	chr2	74598706	74598706	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gggactgctccaggagaggtGaggaccggcgtggggatgat	20	7	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:74598706G>C	uc002skx.2	-	8	914	c.603C>G	c.(601-603)CTC>CTG	p.L201L	DCTN1_uc002skv.2_Silent_p.L67L|DCTN1_uc002sku.2_Silent_p.L67L|DCTN1_uc002skw.1_Silent_p.L177L|DCTN1_uc010ffd.2_Silent_p.L181L|DCTN1_uc002sky.2_Silent_p.L164L	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	201					cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						CAGGAGAGGTGAGGACCGGCG	0.647													3	12	---	---	---	---	PASS	C	74598706	C	C	74598706	2	2	163	1	0	0	0	0	0	0	0	1	4306	1277	45	2		2	DCTN1	2	74598706	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	159769	74598706	168600667	198	57533										
HTRA2	27429	broad.mit.edu	37	chr2	74758161	74758161	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccggcattgttagctctgctCagcgtccagccagagacctg	11	14	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:74758161C>G	uc002smi.1	+	3	1437	c.835C>G	c.(835-837)CAG>GAG	p.Q279E	AUP1_uc002sme.2_5'Flank|AUP1_uc002smf.2_5'Flank|AUP1_uc002smg.2_5'Flank|AUP1_uc002smh.2_5'Flank|AUP1_uc010yrx.1_5'Flank|AUP1_uc010yry.1_5'Flank|HTRA2_uc002smj.1_Intron|HTRA2_uc002smk.1_Missense_Mutation_p.Q279E|HTRA2_uc002sml.1_Missense_Mutation_p.Q279E|HTRA2_uc002smm.1_Missense_Mutation_p.Q20E|HTRA2_uc002smn.1_Missense_Mutation_p.Q20E|HTRA2_uc010ffl.2_Missense_Mutation_p.Q20E	NM_013247	NP_037379	O43464	HTRA2_HUMAN	HtrA serine peptidase 2 isoform 1 preproprotein	279	Serine protease.				apoptosis|proteolysis|response to stress	CD40 receptor complex|endoplasmic reticulum membrane|internal side of plasma membrane|mitochondrial intermembrane space|mitochondrial membrane|nucleus	serine-type endopeptidase activity|unfolded protein binding			ovary(1)	1						TAGCTCTGCTCAGCGTCCAGC	0.517													57	350	---	---	---	---	PASS	G	74758161	G	G	74758161	3	3	163	1	0	0	0	0	1	0	0	0	7454	827	29	2	845	2	HTRA2	2	74758161	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	159455	74758161	168441212	199	57534										
CTNNA2	1496	broad.mit.edu	37	chr2	80801373	80801373	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgtttgaggagaatgagttCatcgatgcctctcgcctggt	12	10	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:80801373C>T	uc010ysh.1	+	12	1832	c.1827C>T	c.(1825-1827)TTC>TTT	p.F609F	CTNNA2_uc010yse.1_Silent_p.F609F|CTNNA2_uc010ysf.1_Silent_p.F609F|CTNNA2_uc010ysg.1_Silent_p.F609F|CTNNA2_uc010ysi.1_Silent_p.F241F	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	609					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						AGAATGAGTTCATCGATGCCT	0.512													30	187	---	---	---	---	PASS	T	80801373	T	T	80801373	2	4	163	1	0	0	0	0	0	0	0	1	4013	825	29	2		2	CTNNA2	2	80801373	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	6043212	80801373	162398000	200	57535										
ST3GAL5	8869	broad.mit.edu	37	chr2	86090577	86090577	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggcctcgagcaatcacttctCagtttcacataggtgtactc	8	12	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:86090577C>T	uc002sqq.1	-	2	243	c.114G>A	c.(112-114)CTG>CTA	p.L38L	ST3GAL5_uc010ysy.1_Silent_p.L38L|ST3GAL5_uc010ysz.1_Silent_p.L38L|ST3GAL5_uc010fgq.1_5'Flank|ST3GAL5_uc002sqp.1_Silent_p.L15L	NM_003896	NP_003887	Q9UNP4	SIAT9_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	38	Cytoplasmic (Potential).				ganglioside biosynthetic process|protein glycosylation	integral to Golgi membrane|integral to plasma membrane	lactosylceramide alpha-2,3-sialyltransferase activity|neolactotetraosylceramide alpha-2,3-sialyltransferase activity				0						AATCACTTCTCAGTTTCACAT	0.473													29	119	---	---	---	---	PASS	T	86090577	T	T	86090577	2	4	163	1	0	0	0	0	0	0	0	1	15217	813	29	2		2	ST3GAL5	2	86090577	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	5289204	86090577	157108796	201	57536										
CNNM3	26505	broad.mit.edu	37	chr2	97492602	97492602	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaagaggaagcctgcttctCtgatggcccctctgaagcgg	13	11	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:97492602C>G	uc002swy.2	+	3	1426	c.1402C>G	c.(1402-1404)CTG>GTG	p.L468V	CNNM3_uc002swz.2_Missense_Mutation_p.L420V	NM_017623	NP_060093	Q8NE01	CNNM3_HUMAN	cyclin M3 isoform 1	468					ion transport	integral to membrane|plasma membrane	protein binding			ovary(1)	1						GCCTGCTTCTCTGATGGCCCC	0.537													52	305	---	---	---	---	PASS	G	97492602	G	G	97492602	3	3	163	1	0	0	0	0	1	0	0	0	3614	912	32	2	1412	2	CNNM3	2	97492602	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	11402025	97492602	145706771	202	57537										
CNNM3	26505	broad.mit.edu	37	chr2	97492629	97492629	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccctctgaagcggaaggagGagttctccttgttcaaggtg	13	10	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:97492629G>A	uc002swy.2	+	3	1453	c.1429G>A	c.(1429-1431)GAG>AAG	p.E477K	CNNM3_uc002swz.2_Missense_Mutation_p.E429K	NM_017623	NP_060093	Q8NE01	CNNM3_HUMAN	cyclin M3 isoform 1	477					ion transport	integral to membrane|plasma membrane	protein binding			ovary(1)	1						GCGGAAGGAGGAGTTCTCCTT	0.562													34	273	---	---	---	---	PASS	A	97492629	A	A	97492629	3	1	163	1	0	0	0	0	1	0	0	0	3614	1175	41	2	1439	2	CNNM3	2	97492629	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	27	97492629	145706744	203	57538										
CNGA3	1261	broad.mit.edu	37	chr2	99012792	99012792	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgtggtcgtagacttcttgGtgggtgttctgatttttgcc	13	6	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:99012792G>A	uc002syt.2	+	8	1576	c.1159G>A	c.(1159-1161)GTG>ATG	p.V387M	CNGA3_uc002syu.2_Missense_Mutation_p.V369M|CNGA3_uc010fij.2_Missense_Mutation_p.V391M	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	387	Helical; (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						AGACTTCTTGGTGGGTGTTCT	0.502													75	107	---	---	---	---	PASS	A	99012792	A	A	99012792	3	1	163	1	0	0	0	0	1	0	0	0	3598	1261	44	3	1185	3	CNGA3	2	99012792	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1520163	99012792	144186581	204	57539										
AFF3	3899	broad.mit.edu	37	chr2	100168001	100168001	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggagtactggaccaggtgctCcatgctgctgtgcagggtga	16	9	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:100168001C>G	uc002tag.2	-	24	3852	c.3616G>C	c.(3616-3618)GAG>CAG	p.E1206Q	AFF3_uc002taf.2_Missense_Mutation_p.E1231Q	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	1206					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						ACCAGGTGCTCCATGCTGCTG	0.592													4	62	---	---	---	---	PASS	G	100168001	G	G	100168001	3	3	163	1	0	0	0	0	1	0	0	0	358	864	30	2	68	2	AFF3	2	100168001	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1155209	100168001	143031372	205	57540										
RANBP2	5903	broad.mit.edu	37	chr2	109384287	109384287	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actacaggatgttgcagactCgtttaagaaaatttttgatg	9	5	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:109384287C>A	uc002tem.3	+	20	7418	c.7292C>A	c.(7291-7293)TCG>TAG	p.S2431*		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2431	RanBD1 3.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GTTGCAGACTCGTTTAAGAAA	0.393													21	454	---	---	---	---	PASS	A	109384287	A	A	109384287	4	1	163	1	0	0	0	0	0	1	0	0	13028	893	31	2	7370	2	RANBP2	2	109384287	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	9216286	109384287	133815086	206	57541										
ANAPC1	64682	broad.mit.edu	37	chr2	112615953	112615953	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taggtcagatgtaataaacaCttttgaggcttgtgaatttt	9	4	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:112615953C>G	uc002thi.2	-	11	1535	c.1288G>C	c.(1288-1290)GTG>CTG	p.V430L		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	430					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						GTAATAAACACTTTTGAGGCT	0.368													6	116	---	---	---	---	PASS	G	112615953	G	G	112615953	3	3	163	1	0	0	0	0	1	0	0	0	598	565	20	4	4698	4	ANAPC1	2	112615953	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3231666	112615953	130583420	207	57542										
PAX8	7849	broad.mit.edu	37	chr2	113999695	113999695	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgactccgggggagttacaGctgagctggggactgcagtg	18	8	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:113999695G>T	uc010yxt.1	-	6	657	c.491C>A	c.(490-492)GCT>GAT	p.A164D	PAX8_uc010yxu.1_Missense_Mutation_p.A164D|PAX8_uc010yxv.1_Missense_Mutation_p.A164D|PAX8_uc002tjm.2_Missense_Mutation_p.A164D|PAX8_uc002tjn.2_Missense_Mutation_p.A164D|PAX8_uc010fku.1_Missense_Mutation_p.A164D|LOC654433_uc002tjq.3_Intron|LOC654433_uc010fks.2_Intron|LOC654433_uc010fkt.2_Intron|LOC654433_uc002tjr.3_Intron	NM_003466	NP_003457	Q06710	PAX8_HUMAN	paired box 8 isoform PAX8A	164					branching involved in ureteric bud morphogenesis|cellular response to gonadotropin stimulus|central nervous system development|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|metanephric collecting duct development|metanephric comma-shaped body morphogenesis|metanephric distal convoluted tubule development|metanephric nephron tubule formation|metanephric S-shaped body morphogenesis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|otic vesicle development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric field specification|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of thyroid-stimulating hormone secretion|thyroid gland development|transcription, DNA-dependent	nucleoplasm	protein binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid-stimulating hormone receptor activity			ovary(1)|lung(1)	2						GGGAGTTACAGCTGAGCTGGG	0.627			T	PPARG	follicular thyroid		Thyroid dysgenesis 						6	45	---	---	---	---	PASS	T	113999695	T	T	113999695	3	4	163	1	0	0	0	0	1	0	0	0	11485	971	34	3	764	3	PAX8	2	113999695	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1383742	113999695	129199678	208	57543										
DPP10	57628	broad.mit.edu	37	chr2	116520161	116520161	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtttcagaaatatgagatgaCatcagatacgtggctctctc	9	8	3	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:116520161C>A	uc002tla.1	+	12	1545	c.1088C>A	c.(1087-1089)ACA>AAA	p.T363K	DPP10_uc002tlb.1_Missense_Mutation_p.T313K|DPP10_uc002tlc.1_Missense_Mutation_p.T359K|DPP10_uc002tle.2_Missense_Mutation_p.T367K|DPP10_uc002tlf.1_Missense_Mutation_p.T356K	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	363	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TATGAGATGACATCAGATACG	0.358													26	241	---	---	---	---	PASS	A	116520161	A	A	116520161	3	1	163	1	0	0	0	0	1	0	0	0	4727	478	17	3	1305	3	DPP10	2	116520161	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2520466	116520161	126679212	209	57544										
PTPN4	5775	broad.mit.edu	37	chr2	120643436	120643436	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acgtaccttagaactctatgGagttgaattccactatgcaa	7	9	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:120643436G>C	uc002tmf.1	+	9	1424	c.653G>C	c.(652-654)GGA>GCA	p.G218A	PTPN4_uc010flj.1_5'UTR	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	218	FERM.					cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	GAACTCTATGGAGTTGAATTC	0.333													7	289	---	---	---	---	PASS	C	120643436	C	C	120643436	3	2	163	1	0	0	0	0	1	0	0	0	12790	1174	41	2	683	2	PTPN4	2	120643436	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4123275	120643436	122555937	210	57545										
CNTNAP5	129684	broad.mit.edu	37	chr2	125175063	125175063	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgacagcgtggtgcaccacaAgctattgcactcagtgagag	12	10	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:125175063A>C	uc002tno.2	+	4	789	c.425A>C	c.(424-426)AAG>ACG	p.K142T	CNTNAP5_uc010flu.2_Missense_Mutation_p.K142T	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	142	F5/8 type C.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GTGCACCACAAGCTATTGCAC	0.507													11	42	---	---	---	---	PASS	C	125175063	C	C	125175063	3	2	163	1	0	0	0	0	1	0	0	0	3650	72	3	5	439	5	CNTNAP5	2	125175063	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	4531627	125175063	118024310	211	57546										
IWS1	55677	broad.mit.edu	37	chr2	128262761	128262761	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acgaggtttgggaagctcctCattttcagagtcactggcct	11	10	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:128262761C>A	uc002ton.2	-	3	1021	c.718G>T	c.(718-720)GAG>TAG	p.E240*	IWS1_uc010yzl.1_RNA|IWS1_uc010fma.2_RNA	NM_017969	NP_060439	Q96ST2	IWS1_HUMAN	IWS1 homolog	240	Glu-rich.|1.|3 X approximate tandem repeats.				transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0735)		GGAAGCTCCTCATTTTCAGAG	0.507													12	559	---	---	---	---	PASS	A	128262761	A	A	128262761	4	1	163	1	0	0	0	0	0	1	0	0	7931	835	29	2	1789	2	IWS1	2	128262761	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3087698	128262761	114936612	212	57547										
SPOPL	339745	broad.mit.edu	37	chr2	139316676	139316676	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgagtgtcgtctagcagaaGatttaggtaatctctgggaa	12	6	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:139316676G>A	uc002tvh.2	+	6	965	c.565G>A	c.(565-567)GAT>AAT	p.D189N		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	189						nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		TCTAGCAGAAGATTTAGGTAA	0.378													66	168	---	---	---	---	PASS	A	139316676	A	A	139316676	3	1	163	1	0	0	0	0	1	0	0	0	15084	942	33	2	583	2	SPOPL	2	139316676	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	11053915	139316676	103882697	213	57548										
LRP1B	53353	broad.mit.edu	37	chr2	141055416	141055416	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtgtattccggctggcagtGgcagtaaggctggtttccag	16	8	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:141055416G>A	uc002tvj.1	-	84	13900	c.12928C>T	c.(12928-12930)CAC>TAC	p.H4310Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4310	Extracellular (Potential).|EGF-like 12.				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)		GGCTGGCAGTGGCAGTAAGGC	0.468										TSP Lung(27;0.18)			193	307	---	---	---	---	PASS	A	141055416	A	A	141055416	3	1	163	1	0	0	0	0	1	0	0	0	8955	1348	47	3	903	3	LRP1B	2	141055416	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1738740	141055416	102143957	214	57549										
LRP1B	53353	broad.mit.edu	37	chr2	141665461	141665461	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aataccacagagatagccttCatcagagccatcaggacaat	7	11	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:141665461C>T	uc002tvj.1	-	22	4477	c.3505G>A	c.(3505-3507)GAA>AAA	p.E1169K	LRP1B_uc010fnl.1_Missense_Mutation_p.E351K	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1169	Extracellular (Potential).|LDL-receptor class A 10.				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)		AGATAGCCTTCATCAGAGCCA	0.428										TSP Lung(27;0.18)			47	374	---	---	---	---	PASS	T	141665461	T	T	141665461	3	4	163	1	0	0	0	0	1	0	0	0	8955	835	29	2	10574	2	LRP1B	2	141665461	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	610045	141665461	101533912	215	57550										
ACVR2A	92	broad.mit.edu	37	chr2	148653896	148653896	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tacttggtagatcagaaactCaggagtgtcttttctttaat	8	6	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:148653896C>T	uc002twg.2	+	3	351	c.82C>T	c.(82-84)CAG>TAG	p.Q28*	ACVR2A_uc010zbn.1_Intron|ACVR2A_uc002twh.2_Nonsense_Mutation_p.Q28*	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	28	Extracellular (Potential).				activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		ATCAGAAACTCAGGAGTGTCT	0.338													31	214	---	---	---	---	PASS	T	148653896	T	T	148653896	4	4	163	1	0	0	0	0	0	1	0	0	223	827	29	2	88	2	ACVR2A	2	148653896	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6988435	148653896	94545477	216	57551										
RIF1	55183	broad.mit.edu	37	chr2	152314350	152314350	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttatgatagtgaacttcttGaacaactctccccactatta	4	11	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:152314350G>C	uc002txm.2	+	24	2858	c.2728G>C	c.(2728-2730)GAA>CAA	p.E910Q	RIF1_uc002txl.2_Missense_Mutation_p.E910Q|RIF1_uc002txn.2_Missense_Mutation_p.E910Q|RIF1_uc002txo.2_Missense_Mutation_p.E910Q	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	910					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		TGAACTTCTTGAACAACTCTC	0.368													4	184	---	---	---	---	PASS	C	152314350	C	C	152314350	3	2	163	1	0	0	0	0	1	0	0	0	13359	1291	45	2	2818	2	RIF1	2	152314350	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3660454	152314350	90885023	217	57552										
NEB	4703	broad.mit.edu	37	chr2	152496966	152496966	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agttcttgtagtccacatcgCtgactaaggtctggcacttc	9	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:152496966C>G	uc010fnx.2	-	61	8779	c.8588G>C	c.(8587-8589)AGC>ACC	p.S2863T	NEB_uc002txu.2_5'Flank	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2863	Nebulin 77.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GTCCACATCGCTGACTAAGGT	0.567													75	460	---	---	---	---	PASS	G	152496966	G	G	152496966	3	3	163	1	0	0	0	0	1	0	0	0	10302	797	28	4	17586	4	NEB	2	152496966	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	182616	152496966	90702407	218	57553										
PRPF40A	55660	broad.mit.edu	37	chr2	153537844	153537844	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgatttatgttcagtccacaTtgatttctaaagaataaaga	6	5	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:153537844T>C	uc002tyi.2	-	6	446	c.433A>G	c.(433-435)ATG>GTG	p.M145V	PRPF40A_uc002tyh.3_Missense_Mutation_p.M118V|PRPF40A_uc010zcd.1_Intron|PRPF40A_uc002tyj.2_Missense_Mutation_p.M14V|PRPF40A_uc002tyl.1_Missense_Mutation_p.M145V	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	145	WW 1.				mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						TCAGTCCACATTGATTTCTAA	0.323													53	312	---	---	---	---	PASS	C	153537844	C	C	153537844	3	2	163	1	0	0	0	0	1	0	0	0	12571	1493	52	5	2524	5	PRPF40A	2	153537844	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	1040878	153537844	89661529	219	57554										
GALNT13	114805	broad.mit.edu	37	chr2	155102386	155102386	+	Missense_Mutation	SNP	G	T	T													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atacttttgaatatatggctGggtcagacatgacttatggg							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:155102386G>T	uc002tyr.3	+	7	1315	c.748G>T	c.(748-750)GGG>TGG	p.G250W	GALNT13_uc002tyt.3_Missense_Mutation_p.G250W|GALNT13_uc010foc.1_Missense_Mutation_p.G69W|GALNT13_uc010fod.2_Missense_Mutation_p.G3W	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	250	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						ATATATGGCTGGGTCAGACAT	0.393													23	202	---	---	---	---	PASS	T	155102386	T	T	155102386	3	4	163	1	0	0	0	0	1	0	0	0	6211	1348	47	3	766	3	GALNT13	2	155102386	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1564542	155102386	88096987	220	57555	1026	2								
GALNT13	114805	broad.mit.edu	37	chr2	155102387	155102387	+	Missense_Mutation	SNP	G	T	T													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tacttttgaatatatggctgGgtcagacatgacttatgggg							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:155102387G>T	uc002tyr.3	+	7	1316	c.749G>T	c.(748-750)GGG>GTG	p.G250V	GALNT13_uc002tyt.3_Missense_Mutation_p.G250V|GALNT13_uc010foc.1_Missense_Mutation_p.G69V|GALNT13_uc010fod.2_Missense_Mutation_p.G3V	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	250	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						TATATGGCTGGGTCAGACATG	0.393													21	200	---	---	---	---	PASS	T	155102387	T	T	155102387	3	4	163	1	0	0	0	0	1	0	0	0	6211	1232	43	3	767	3	GALNT13	2	155102387	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1	155102387	88096986	221	57556	1026	2								
KCNJ3	3760	broad.mit.edu	37	chr2	155566136	155566136	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctcggcagacacctgagggtGagttccttccccttgaccaa	10	14	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:155566136G>A	uc002tyv.1	+	2	919	c.724G>A	c.(724-726)GAG>AAG	p.E242K	KCNJ3_uc010zce.1_Intron	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	242	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	ACCTGAGGGTGAGTTCCTTCC	0.453													8	127	---	---	---	---	PASS	A	155566136	A	A	155566136	3	1	163	1	0	0	0	0	1	0	0	0	8052	1291	45	2	730	2	KCNJ3	2	155566136	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	463749	155566136	87633237	222	57557										
GALNT5	11227	broad.mit.edu	37	chr2	158162286	158162286	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taatgtggctttgggtaaatGcatttccattgaaaacacta	8	6	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:158162286G>A	uc002tzg.2	+	8	2720	c.2465G>A	c.(2464-2466)TGC>TAC	p.C822Y	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	822	Lumenal (Potential).|Ricin B-type lectin.				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						TTGGGTAAATGCATTTCCATT	0.348													12	134	---	---	---	---	PASS	A	158162286	A	A	158162286	3	1	163	1	0	0	0	0	1	0	0	0	6216	1319	46	3	2495	3	GALNT5	2	158162286	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2596150	158162286	85037087	223	57558										
PKP4	8502	broad.mit.edu	37	chr2	159477908	159477908	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccatgtggtgaggaattcaaGagctgaaggacaaacactgg	13	7	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:159477908G>C	uc002tzv.2	+	6	838	c.578G>C	c.(577-579)AGA>ACA	p.R193T	PKP4_uc002tzt.1_Missense_Mutation_p.R45T|PKP4_uc002tzu.2_Missense_Mutation_p.R193T|PKP4_uc002tzw.2_Missense_Mutation_p.R193T|PKP4_uc002tzx.2_5'UTR|PKP4_uc002tzy.1_5'UTR|PKP4_uc002tzz.1_Missense_Mutation_p.R191T|PKP4_uc002uaa.2_Missense_Mutation_p.R45T	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	193					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						AGGAATTCAAGAGCTGAAGGA	0.388										HNSCC(62;0.18)			7	86	---	---	---	---	PASS	C	159477908	C	C	159477908	3	2	163	1	0	0	0	0	1	0	0	0	11987	942	33	2	596	2	PKP4	2	159477908	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1315622	159477908	83721465	224	57559										
PKP4	8502	broad.mit.edu	37	chr2	159499115	159499115	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttttggcaagtctacagatGaaaataaaatagcaatgaag	8	4	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:159499115G>A	uc002tzv.2	+	11	2073	c.1813G>A	c.(1813-1815)GAA>AAA	p.E605K	PKP4_uc002tzt.1_Missense_Mutation_p.E457K|PKP4_uc002tzu.2_Missense_Mutation_p.E605K|PKP4_uc002tzw.2_Missense_Mutation_p.E605K|PKP4_uc002tzx.2_Missense_Mutation_p.E262K|PKP4_uc002tzy.1_Missense_Mutation_p.E263K|PKP4_uc002tzz.1_Missense_Mutation_p.E603K|PKP4_uc002uaa.2_Missense_Mutation_p.E457K	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	605	ARM 4.				cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						GTCTACAGATGAAAATAAAAT	0.423										HNSCC(62;0.18)			20	207	---	---	---	---	PASS	A	159499115	A	A	159499115	3	1	163	1	0	0	0	0	1	0	0	0	11987	1291	45	2	1851	2	PKP4	2	159499115	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	21207	159499115	83700258	225	57560										
PKP4	8502	broad.mit.edu	37	chr2	159536975	159536975	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttatagtcaagatgactccaAcagaaagaactttgatgcat	7	7	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:159536975A>G	uc002tzv.2	+	22	3625	c.3365A>G	c.(3364-3366)AAC>AGC	p.N1122S	PKP4_uc002tzw.2_Missense_Mutation_p.N1079S|PKP4_uc002tzx.2_Missense_Mutation_p.N779S|PKP4_uc002uaa.2_Missense_Mutation_p.N931S|uc002uab.1_Intron|PKP4_uc002uac.2_Missense_Mutation_p.N303S|PKP4_uc002uad.2_RNA	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	1122					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						GATGACTCCAACAGAAAGAAC	0.328										HNSCC(62;0.18)			39	250	---	---	---	---	PASS	G	159536975	G	G	159536975	3	3	163	1	0	0	0	0	1	0	0	0	11987	43	2	5	3447	5	PKP4	2	159536975	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	37860	159536975	83662398	226	57561										
BAZ2B	29994	broad.mit.edu	37	chr2	160205325	160205325	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcctctgggtcaataattctCcaccaaccaaactgcatttc	4	14	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:160205325C>T	uc002uao.2	-	30	5509	c.5157G>A	c.(5155-5157)TGG>TGA	p.W1719*	BAZ2B_uc002uap.2_Nonsense_Mutation_p.W1683*	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	1719					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CAATAATTCTCCACCAACCAA	0.323													8	155	---	---	---	---	PASS	T	160205325	T	T	160205325	4	4	163	1	0	0	0	0	0	1	0	0	1332	856	30	2	1381	2	BAZ2B	2	160205325	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	668350	160205325	82994048	227	57562										
PLA2R1	22925	broad.mit.edu	37	chr2	160836387	160836387	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agccggcattcagtgggtttCttttattaaatccaatccag	8	9	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:160836387C>G	uc002ube.1	-	14	2429	c.2222G>C	c.(2221-2223)AGA>ACA	p.R741T	PLA2R1_uc010zcp.1_Missense_Mutation_p.R741T|PLA2R1_uc002ubf.2_Missense_Mutation_p.R741T	NM_007366	NP_031392	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1 isoform 1 precursor	741	Extracellular (Potential).|C-type lectin 4.				endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding			skin(2)|ovary(1)	3						CAGTGGGTTTCTTTTATTAAA	0.403													21	100	---	---	---	---	PASS	G	160836387	G	G	160836387	3	3	163	1	0	0	0	0	1	0	0	0	12010	913	32	2	2245	2	PLA2R1	2	160836387	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	631062	160836387	82362986	228	57563										
TANK	10010	broad.mit.edu	37	chr2	162088005	162088005	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcccacttctggacccatcTgatgcaccttttccctcact	4	17	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:162088005T>A	uc002ubr.1	+	7	1202	c.1044T>A	c.(1042-1044)TCT>TCA	p.S348S	TANK_uc002ubs.2_Silent_p.S348S	NM_004180	NP_004171	Q92844	TANK_HUMAN	TRAF interacting protein TANK isoform a	348						cytosol	metal ion binding|protein binding			ovary(1)	1						TGGACCCATCTGATGCACCTT	0.433													12	151	---	---	---	---	PASS	A	162088005	A	A	162088005	2	1	163	1	0	0	0	0	0	0	0	1	15543	1567	55	5		5	TANK	2	162088005	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	1251618	162088005	81111368	229	57564										
TANK	10010	broad.mit.edu	37	chr2	162088022	162088022	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atctgatgcaccttttccctCactcgattccccgggaaaag	7	14	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:162088022C>G	uc002ubr.1	+	7	1219	c.1061C>G	c.(1060-1062)TCA>TGA	p.S354*	TANK_uc002ubs.2_Nonsense_Mutation_p.S354*	NM_004180	NP_004171	Q92844	TANK_HUMAN	TRAF interacting protein TANK isoform a	354						cytosol	metal ion binding|protein binding			ovary(1)	1						CCTTTTCCCTCACTCGATTCC	0.433													11	132	---	---	---	---	PASS	G	162088022	G	G	162088022	4	3	163	1	0	0	0	0	0	1	0	0	15543	838	29	2	1116	2	TANK	2	162088022	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	17	162088022	81111351	230	57565										
PSMD14	10213	broad.mit.edu	37	chr2	162175349	162175349	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctagaaatatggacagacttCttagacttggaggaggtatg	12	5	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:162175349C>G	uc002ubu.2	+	3	480	c.13C>G	c.(13-15)CTT>GTT	p.L5V		NM_005805	NP_005796	O00487	PSDE_HUMAN	proteasome 26S subunit, non-ATPase 14	5					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K63-linked deubiquitination|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of proteasomal protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	endopeptidase activator activity|metal ion binding|metallopeptidase activity|proteasome binding|ubiquitin thiolesterase activity			breast(1)	1						GGACAGACTTCTTAGACTTGG	0.368													10	80	---	---	---	---	PASS	G	162175349	G	G	162175349	3	3	163	1	0	0	0	0	1	0	0	0	12697	913	32	2	15	2	PSMD14	2	162175349	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	87327	162175349	81024024	231	57566										
KCNH7	90134	broad.mit.edu	37	chr2	163302603	163302603	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcaatcaggaaccagcctttGaagtagtgtattgctatttt	8	7	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:163302603G>A	uc002uch.1	-	7	1691	c.1479C>T	c.(1477-1479)TTC>TTT	p.F493F	KCNH7_uc002uci.2_Silent_p.F486F	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	493	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	ACCAGCCTTTGAAGTAGTGTA	0.343													17	115	---	---	---	---	PASS	A	163302603	A	A	163302603	2	1	163	1	0	0	0	0	0	0	0	1	8037	1281	45	2		2	KCNH7	2	163302603	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1127254	163302603	79896770	232	57567										
TTC21B	79809	broad.mit.edu	37	chr2	166771904	166771904	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgcacttcttcagatgttcCagaaaattcatggatggcat	8	10	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:166771904C>T	uc002udk.2	-	15	2078	c.1945G>A	c.(1945-1947)GGA>AGA	p.G649R		NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	649	TPR 8.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TCAGATGTTCCAGAAAATTCA	0.383													74	549	---	---	---	---	PASS	T	166771904	T	T	166771904	3	4	163	1	0	0	0	0	1	0	0	0	16685	603	21	3	2065	3	TTC21B	2	166771904	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3469301	166771904	76427469	233	57568										
SCN7A	6332	broad.mit.edu	37	chr2	167279877	167279877	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgaagatataagtaaagatCatgtcagcatattctaataa	6	4	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:167279877C>T	uc002udu.1	-	18	3046	c.2919G>A	c.(2917-2919)ATG>ATA	p.M973I	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	973	Helical; Name=S2 of repeat III; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						AAGTAAAGATCATGTCAGCAT	0.328													30	48	---	---	---	---	PASS	T	167279877	T	T	167279877	3	4	163	1	0	0	0	0	1	0	0	0	13923	826	29	2	2161	2	SCN7A	2	167279877	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	507973	167279877	75919496	234	57569										
XIRP2	129446	broad.mit.edu	37	chr2	168099484	168099484	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttctgagattgtttctagtCaaatgaactcagggagttca	9	6	5	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:168099484C>G	uc002udx.2	+	8	1600	c.1582C>G	c.(1582-1584)CAA>GAA	p.Q528E	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.Q353E|XIRP2_uc010fpq.2_Missense_Mutation_p.Q306E|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	353					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TGTTTCTAGTCAAATGAACTC	0.338													9	75	---	---	---	---	PASS	G	168099484	G	G	168099484	3	3	163	1	0	0	0	0	1	0	0	0	17427	827	29	2	1612	2	XIRP2	2	168099484	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	819607	168099484	75099889	235	57570										
XIRP2	129446	broad.mit.edu	37	chr2	168106531	168106531	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agcaaacacaaatacagaccGctgaaagtaaagctgaacat	7	9	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:168106531G>A	uc002udx.2	+	8	8647	c.8629G>A	c.(8629-8631)GCT>ACT	p.A2877T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.A2702T|XIRP2_uc010fpq.2_Missense_Mutation_p.A2655T|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.A223T	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2702					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AATACAGACCGCTGAAAGTAA	0.388													28	185	---	---	---	---	PASS	A	168106531	A	A	168106531	3	1	163	1	0	0	0	0	1	0	0	0	17427	1087	38	1	8659	1	XIRP2	2	168106531	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	7047	168106531	75092842	236	57571										
LRP2	4036	broad.mit.edu	37	chr2	170090056	170090056	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agcacggtcagtccagtacaCagagtcttcaaagagagtta	10	9	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:170090056C>G	uc002ues.2	-	30	5176	c.4963G>C	c.(4963-4965)GTG>CTG	p.V1655L		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1655	LDL-receptor class B 14.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GTCCAGTACACAGAGTCTTCA	0.488													11	107	---	---	---	---	PASS	G	170090056	G	G	170090056	3	3	163	1	0	0	0	0	1	0	0	0	8956	478	17	4	9204	4	LRP2	2	170090056	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1983525	170090056	73109317	237	57572										
MYO3B	140469	broad.mit.edu	37	chr2	171264306	171264306	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgtggtcctgagaacgtcaGaaaacaagcttcttcagcag	10	9	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:171264306G>C	uc002ufy.2	+	22	2745	c.2602G>C	c.(2602-2604)GAA>CAA	p.E868Q	MYO3B_uc002ufv.2_Missense_Mutation_p.E855Q|MYO3B_uc010fqb.1_Missense_Mutation_p.E855Q|MYO3B_uc002ufz.2_Missense_Mutation_p.E868Q|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	868	Myosin head-like.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						GAGAACGTCAGAAAACAAGCT	0.453													54	317	---	---	---	---	PASS	C	171264306	C	C	171264306	3	2	163	1	0	0	0	0	1	0	0	0	10077	943	33	2	2688	2	MYO3B	2	171264306	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1174250	171264306	71935067	238	57573										
ITGA6	3655	broad.mit.edu	37	chr2	173352699	173352699	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcattttcagaacaagcaatCaagataatttggctccaatt	5	8	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:173352699C>G	uc002uhp.1	+	18	2538	c.2335C>G	c.(2335-2337)CAA>GAA	p.Q779E	ITGA6_uc010zdy.1_Missense_Mutation_p.Q660E|ITGA6_uc002uho.1_Missense_Mutation_p.Q779E|ITGA6_uc010fqm.1_Missense_Mutation_p.Q425E	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a	818	Extracellular (Potential).				blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			AACAAGCAATCAAGATAATTT	0.358													24	274	---	---	---	---	PASS	G	173352699	G	G	173352699	3	3	163	1	0	0	0	0	1	0	0	0	7880	827	29	2	2405	2	ITGA6	2	173352699	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2088393	173352699	69846674	239	57574										
RAPGEF4	11069	broad.mit.edu	37	chr2	173850168	173850168	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtttttcttctaggtgaaacGagagttagcaggtgttctca	11	6	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:173850168G>C	uc002uhv.3	+	12	1284	c.1097G>C	c.(1096-1098)CGA>CCA	p.R366P	RAPGEF4_uc002uhu.2_Missense_Mutation_p.R366P|RAPGEF4_uc002uhw.3_Missense_Mutation_p.R222P|RAPGEF4_uc010zec.1_Missense_Mutation_p.R213P|RAPGEF4_uc010zed.1_Missense_Mutation_p.R195P|RAPGEF4_uc010zee.1_Missense_Mutation_p.R213P|RAPGEF4_uc010fqo.2_Missense_Mutation_p.R195P|RAPGEF4_uc010zef.1_Missense_Mutation_p.R146P|RAPGEF4_uc010zeg.1_Missense_Mutation_p.R193P|RAPGEF4_uc010fqp.1_Missense_Mutation_p.R146P|RAPGEF4_uc010zeh.1_Missense_Mutation_p.R146P	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	366	cAMP 2.				blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			TAGGTGAAACGAGAGTTAGCA	0.483													6	435	---	---	---	---	PASS	C	173850168	C	C	173850168	3	2	163	1	0	0	0	0	1	0	0	0	13046	1058	37	2	1159	2	RAPGEF4	2	173850168	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	497469	173850168	69349205	240	57575										
KIAA1715	80856	broad.mit.edu	37	chr2	176812411	176812411	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttctttgagctgcagttcgcTgacgaatctctgagaagagt	11	8	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:176812411T>A	uc002ukc.1	-	9	696	c.503A>T	c.(502-504)CAG>CTG	p.Q168L	KIAA1715_uc010zer.1_Missense_Mutation_p.Q168L|KIAA1715_uc010fqw.1_Missense_Mutation_p.Q234L|KIAA1715_uc010zes.1_Missense_Mutation_p.Q170L|KIAA1715_uc002ukd.1_Missense_Mutation_p.Q45L|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	168	Cytoplasmic (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			TGCAGTTCGCTGACGAATCTC	0.413													31	156	---	---	---	---	PASS	A	176812411	A	A	176812411	3	1	163	1	0	0	0	0	1	0	0	0	8254	1580	55	5	803	5	KIAA1715	2	176812411	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	2962243	176812411	66386962	241	57576										
DFNB59	494513	broad.mit.edu	37	chr2	179319148	179319148	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accatattgtaaatgacgttGggattaacgttgctggatca	10	6	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179319148G>C	uc002umi.3	+	3	657	c.301G>C	c.(301-303)GGG>CGG	p.G101R	DFNB59_uc002umj.3_Missense_Mutation_p.G101R	NM_001042702	NP_001036167	Q0ZLH3	PJVK_HUMAN	deafness, autosomal recessive 59	101					sensory perception of sound						0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			AAATGACGTTGGGATTAACGT	0.338													7	187	---	---	---	---	PASS	C	179319148	C	C	179319148	3	2	163	1	0	0	0	0	1	0	0	0	4456	1348	47	4	307	4	DFNB59	2	179319148	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2506737	179319148	63880225	242	57577										
TTN	7273	broad.mit.edu	37	chr2	179407873	179407873	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctcattttgtgcccttattCtaaataagtattgttcacct	4	9	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179407873C>G	uc010zfg.1	-	296	89347	c.89123G>C	c.(89122-89124)AGA>ACA	p.R29708T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R23403T|TTN_uc010zfi.1_Missense_Mutation_p.R23336T|TTN_uc010zfj.1_Missense_Mutation_p.R23211T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30635							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)			TGCCCTTATTCTAAATAAGTA	0.418													86	540	---	---	---	---	PASS	G	179407873	G	G	179407873	3	3	163	1	0	0	0	0	1	0	0	0	16732	913	32	2	11216	2	TTN	2	179407873	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	88725	179407873	63791500	243	57578										
TTN	7273	broad.mit.edu	37	chr2	179408933	179408933	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttctgtgataaatacctattCtttccacgggctcaatttca	5	10	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179408933C>G	uc010zfg.1	-	294	88543	c.88319G>C	c.(88318-88320)AGA>ACA	p.R29440T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R23135T|TTN_uc010zfi.1_Missense_Mutation_p.R23068T|TTN_uc010zfj.1_Missense_Mutation_p.R22943T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30367							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)			AATACCTATTCTTTCCACGGG	0.373													33	130	---	---	---	---	PASS	G	179408933	G	G	179408933	3	3	163	1	0	0	0	0	1	0	0	0	16732	913	32	2	12028	2	TTN	2	179408933	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1060	179408933	63790440	244	57579										
TTN	7273	broad.mit.edu	37	chr2	179412489	179412489	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccagctgtattttccagggtCaagaagtatcttccagagtc	9	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179412489C>T	uc010zfg.1	-	288	86384	c.86160G>A	c.(86158-86160)TTG>TTA	p.L28720L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.L22415L|TTN_uc010zfi.1_Silent_p.L22348L|TTN_uc010zfj.1_Silent_p.L22223L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29647							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)			TTTCCAGGGTCAAGAAGTATC	0.458													57	75	---	---	---	---	PASS	T	179412489	T	T	179412489	2	4	163	1	0	0	0	0	0	0	0	1	16732	825	29	2		2	TTN	2	179412489	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	3556	179412489	63786884	245	57580										
TTN	7273	broad.mit.edu	37	chr2	179426190	179426190	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tatacacgatactcatacatCagtccttcatcaaggccgga	6	12	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179426190C>G	uc010zfg.1	-	275	77189	c.76965G>C	c.(76963-76965)CTG>CTC	p.L25655L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.L19350L|TTN_uc010zfi.1_Silent_p.L19283L|TTN_uc010zfj.1_Silent_p.L19158L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26582							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)			ACTCATACATCAGTCCTTCAT	0.393													35	232	---	---	---	---	PASS	G	179426190	G	G	179426190	2	3	163	1	0	0	0	0	0	0	0	1	16732	813	29	2		2	TTN	2	179426190	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	13701	179426190	63773183	246	57581										
TTN	7273	broad.mit.edu	37	chr2	179447699	179447699	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcttaatggtggctgatttaGaaccacttgaattttcagca	9	7	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179447699G>C	uc010zfg.1	-	262	58351	c.58127C>G	c.(58126-58128)TCT>TGT	p.S19376C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S13071C|TTN_uc010zfi.1_Missense_Mutation_p.S13004C|TTN_uc010zfj.1_Missense_Mutation_p.S12879C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20303							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)			GGCTGATTTAGAACCACTTGA	0.398													7	54	---	---	---	---	PASS	C	179447699	C	C	179447699	3	2	163	1	0	0	0	0	1	0	0	0	16732	942	33	2	42348	2	TTN	2	179447699	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	21509	179447699	63751674	247	57582										
TTN	7273	broad.mit.edu	37	chr2	179471884	179471884	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catttagatctctcagtctcTattggttgtctccaagtatg	7	9	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179471884T>C	uc010zfg.1	-	227	45965	c.45741A>G	c.(45739-45741)ATA>ATG	p.I15247M	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I8942M|TTN_uc010zfi.1_Missense_Mutation_p.I8875M|TTN_uc010zfj.1_Missense_Mutation_p.I8750M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16174							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)			TCTCAGTCTCTATTGGTTGTC	0.418													58	362	---	---	---	---	PASS	C	179471884	C	C	179471884	3	2	163	1	0	0	0	0	1	0	0	0	16732	1512	53	5	54588	5	TTN	2	179471884	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	24185	179471884	63727489	248	57583										
TTN	7273	broad.mit.edu	37	chr2	179516856	179516856	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actttccggtttgggaggaaTagcttcaggcaccttctttt	10	9	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179516856T>C	uc010zfg.1	-	158	32184	c.31960A>G	c.(31960-31962)ATT>GTT	p.I10654V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc010fre.1_Intron|TTN_uc002umw.1_5'Flank|TTN_uc002umx.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11581							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)			TTGGGAGGAATAGCTTCAGGC	0.343													25	212	---	---	---	---	PASS	C	179516856	C	C	179516856	3	2	163	1	0	0	0	0	1	0	0	0	16732	1406	49	5	68645	5	TTN	2	179516856	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	44972	179516856	63682517	249	57584										
TTN	7273	broad.mit.edu	37	chr2	179638667	179638667	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtcttcaatgagcagcatatGagattgtttgtctatcacaa	8	7	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179638667G>C	uc010zfg.1	-	31	7452	c.7228C>G	c.(7228-7230)CAT>GAT	p.H2410D	TTN_uc010zfh.1_Missense_Mutation_p.H2364D|TTN_uc010zfi.1_Missense_Mutation_p.H2364D|TTN_uc010zfj.1_Missense_Mutation_p.H2364D|TTN_uc002unb.2_Missense_Mutation_p.H2410D|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2410							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)			AGCAGCATATGAGATTGTTTG	0.478													20	230	---	---	---	---	PASS	C	179638667	C	C	179638667	3	2	163	1	0	0	0	0	1	0	0	0	16732	1290	45	2	104088	2	TTN	2	179638667	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	121811	179638667	63560706	250	57585										
TTN	7273	broad.mit.edu	37	chr2	179640827	179640827	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctcaagcttcactttatgctCtatcacaccttcaggatttt	4	12	5	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179640827C>T	uc010zfg.1	-	28	5988	c.5764G>A	c.(5764-5766)GAG>AAG	p.E1922K	TTN_uc010zfh.1_Missense_Mutation_p.E1876K|TTN_uc010zfi.1_Missense_Mutation_p.E1876K|TTN_uc010zfj.1_Missense_Mutation_p.E1876K|TTN_uc002unb.2_Missense_Mutation_p.E1922K|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1922							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)			ACTTTATGCTCTATCACACCT	0.463													62	450	---	---	---	---	PASS	T	179640827	T	T	179640827	3	4	163	1	0	0	0	0	1	0	0	0	16732	922	32	2	105564	2	TTN	2	179640827	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2160	179640827	63558546	251	57586										
TTN	7273	broad.mit.edu	37	chr2	179642692	179642692	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agacctgctcactgaacgtgGagagagagatctgcaaaaca	11	9	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179642692G>A	uc010zfg.1	-	25	4443	c.4219C>T	c.(4219-4221)CCA>TCA	p.P1407S	TTN_uc010zfh.1_Missense_Mutation_p.P1361S|TTN_uc010zfi.1_Missense_Mutation_p.P1361S|TTN_uc010zfj.1_Missense_Mutation_p.P1361S|TTN_uc002unb.2_Missense_Mutation_p.P1407S|uc002unc.1_RNA	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1407							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)			ACTGAACGTGGAGAGAGAGAT	0.448													8	67	---	---	---	---	PASS	A	179642692	A	A	179642692	3	1	163	1	0	0	0	0	1	0	0	0	16732	1174	41	2	107121	2	TTN	2	179642692	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1865	179642692	63556681	252	57587										
TTN	7273	broad.mit.edu	37	chr2	179659746	179659746	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cactgatggtcacttgctccTggacaccgtatctcccttcc	7	16	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179659746T>A	uc010zfg.1	-	7	1372	c.1148A>T	c.(1147-1149)CAG>CTG	p.Q383L	TTN_uc010zfh.1_Missense_Mutation_p.Q383L|TTN_uc010zfi.1_Missense_Mutation_p.Q383L|TTN_uc010zfj.1_Missense_Mutation_p.Q383L|TTN_uc002unb.2_Missense_Mutation_p.Q383L|TTN_uc010frg.1_Missense_Mutation_p.Q57L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	383							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)			CACTTGCTCCTGGACACCGTA	0.567													20	139	---	---	---	---	PASS	A	179659746	A	A	179659746	3	1	163	1	0	0	0	0	1	0	0	0	16732	1580	55	5	110264	5	TTN	2	179659746	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	17054	179659746	63539627	253	57588										
CCDC141	285025	broad.mit.edu	37	chr2	179718259	179718259	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aacttattaaactgctggtgGagaattttcacagcttcctt	7	8	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:179718259G>T	uc002unf.1	-	10	1485	c.1428C>A	c.(1426-1428)CTC>CTA	p.L476L		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	476							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			ACTGCTGGTGGAGAATTTTCA	0.423													32	201	---	---	---	---	PASS	T	179718259	T	T	179718259	2	4	163	1	0	0	0	0	0	0	0	1	2775	1161	41	2		2	CCDC141	2	179718259	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	58513	179718259	63481114	254	57589										
CERKL	375298	broad.mit.edu	37	chr2	182403949	182403949	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attattccttggatgaacttTtacttcctcaacagtgtaag	6	8	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:182403949T>C	uc002unx.2	-	13	1587	c.1486A>G	c.(1486-1488)AAA>GAA	p.K496E	CERKL_uc002uny.2_Missense_Mutation_p.K470E|CERKL_uc010zfm.1_Missense_Mutation_p.K452E|CERKL_uc002unz.2_Missense_Mutation_p.K218E|CERKL_uc002uoa.2_Missense_Mutation_p.K401E|CERKL_uc002uob.2_Missense_Mutation_p.K218E|CERKL_uc002uoc.2_Missense_Mutation_p.K357E|CERKL_uc010frk.2_RNA|CERKL_uc002unw.2_Missense_Mutation_p.K66E	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	496					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			GGATGAACTTTTACTTCCTCA	0.343													30	185	---	---	---	---	PASS	C	182403949	C	C	182403949	3	2	163	1	0	0	0	0	1	0	0	0	3268	1850	64	5	198	5	CERKL	2	182403949	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	2685690	182403949	60795424	255	57590										
SSFA2	6744	broad.mit.edu	37	chr2	182763809	182763809	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagaagtatgaattccactgGatctgggaaaagtagtggga	14	4	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:182763809G>T	uc002uoi.2	+	6	795	c.473G>T	c.(472-474)GGA>GTA	p.G158V	SSFA2_uc002uoh.2_Missense_Mutation_p.G158V|SSFA2_uc002uoj.2_Missense_Mutation_p.G158V|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Missense_Mutation_p.G5V|SSFA2_uc002uol.2_Missense_Mutation_p.G5V	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	158						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			AATTCCACTGGATCTGGGAAA	0.328													35	84	---	---	---	---	PASS	T	182763809	T	T	182763809	3	4	163	1	0	0	0	0	1	0	0	0	15182	1174	41	2	495	2	SSFA2	2	182763809	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	359860	182763809	60435564	256	57591										
FAM171B	165215	broad.mit.edu	37	chr2	187627189	187627189	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caatgacaccagtctggactCtggggtggacatgaatgagc	13	9	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:187627189C>G	uc002ups.2	+	8	2232	c.2120C>G	c.(2119-2121)TCT>TGT	p.S707C	FAM171B_uc002upr.1_Missense_Mutation_p.S674C|FAM171B_uc002upt.2_Missense_Mutation_p.S176C	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	707	Cytoplasmic (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						AGTCTGGACTCTGGGGTGGAC	0.453													14	98	---	---	---	---	PASS	G	187627189	G	G	187627189	3	3	163	1	0	0	0	0	1	0	0	0	5491	913	32	2	2150	2	FAM171B	2	187627189	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4863380	187627189	55572184	257	57592										
COL5A2	1290	broad.mit.edu	37	chr2	189968994	189968994	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcaaagtaacacttacctttCttcctctacctgtaaaaaga	4	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:189968994C>T	uc002uqk.2	-	3	607	c.332G>A	c.(331-333)AGA>AAA	p.R111K		NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	111					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			ACTTACCTTTCTTCCTCTACC	0.294													11	223	---	---	---	---	PASS	T	189968994	T	T	189968994	3	4	163	1	0	0	0	0	1	0	0	0	3697	913	32	2	4375	2	COL5A2	2	189968994	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2341805	189968994	53230379	258	57593										
ASNSD1	54529	broad.mit.edu	37	chr2	190531684	190531684	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tacttcaagtctttcttactGatgtacacatgaaggaagta	7	7	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:190531684G>A	uc002uqt.2	+	4	1260	c.826G>A	c.(826-828)GAT>AAT	p.D276N		NM_019048	NP_061921	Q9NWL6	ASND1_HUMAN	asparagine synthetase domain containing 1	276					asparagine biosynthetic process|glutamine metabolic process		asparagine synthase (glutamine-hydrolyzing) activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0449)|all cancers(119;0.118)			CTTTCTTACTGATGTACACAT	0.403													20	420	---	---	---	---	PASS	A	190531684	A	A	190531684	3	1	163	1	0	0	0	0	1	0	0	0	1049	1290	45	2	828	2	ASNSD1	2	190531684	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	562690	190531684	52667689	259	57594										
PMS1	5378	broad.mit.edu	37	chr2	190719442	190719442	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagatgagagtggggaaaatGaggaagaagcaggtcttgaa	16	2	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:190719442G>A	uc002urh.3	+	9	1973	c.1444G>A	c.(1444-1446)GAG>AAG	p.E482K	PMS1_uc010zga.1_Missense_Mutation_p.E443K|PMS1_uc010zgb.1_Missense_Mutation_p.E421K|PMS1_uc002urk.3_Missense_Mutation_p.E443K|PMS1_uc002uri.3_Missense_Mutation_p.E482K|PMS1_uc010zgc.1_Missense_Mutation_p.E306K|PMS1_uc010zgd.1_Missense_Mutation_p.E306K|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Missense_Mutation_p.E443K|PMS1_uc010frz.2_Intron|PMS1_uc002url.2_Missense_Mutation_p.E267K|PMS1_uc002urm.2_RNA|PMS1_uc002urn.1_Missense_Mutation_p.E150K	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	482					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			TGGGGAAAATGAGGAAGAAGC	0.388			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					4	151	---	---	---	---	PASS	A	190719442	A	A	190719442	3	1	163	1	0	0	0	0	1	0	0	0	12142	1291	45	2	1474	2	PMS1	2	190719442	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	187758	190719442	52479931	260	57595										
INPP1	3628	broad.mit.edu	37	chr2	191233948	191233948	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgacatacagacaggggttCccctgatgggagtcatcaat	11	9	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:191233948C>T	uc002ury.3	+	6	1286	c.586C>T	c.(586-588)CCC>TCC	p.P196S	INPP1_uc010fsb.2_Missense_Mutation_p.P196S|INPP1_uc002urx.3_Missense_Mutation_p.P196S	NM_001128928	NP_001122400	P49441	INPP_HUMAN	inositol polyphosphate-1-phosphatase	196					signal transduction		inositol-1,4-bisphosphate 1-phosphatase activity|metal ion binding			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.000286)|Epithelial(96;0.0186)|all cancers(119;0.057)		Lithium(DB01356)	GACAGGGGTTCCCCTGATGGG	0.413													52	281	---	---	---	---	PASS	T	191233948	T	T	191233948	3	4	163	1	0	0	0	0	1	0	0	0	7751	855	30	2	600	2	INPP1	2	191233948	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	514506	191233948	51965425	261	57596										
SDPR	8436	broad.mit.edu	37	chr2	192700675	192700675	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtctggtgcacctggagcaCggcgggctgcacggggtccc	18	13	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:192700675C>A	uc002utb.2	-	2	1582	c.1252G>T	c.(1252-1254)GTG>TTG	p.V418L		NM_004657	NP_004648	O95810	SDPR_HUMAN	serum deprivation response protein	418						caveola|cytosol	phosphatidylserine binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0647)		Phosphatidylserine(DB00144)	ACCTGGAGCACGGCGGGCTGC	0.627													59	75	---	---	---	---	PASS	A	192700675	A	A	192700675	3	1	163	1	0	0	0	0	1	0	0	0	13970	536	19	1	29	1	SDPR	2	192700675	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1466727	192700675	50498698	262	57597										
BOLL	66037	broad.mit.edu	37	chr2	198646462	198646462	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtaccttaaaatcaattcctCctacaaagatgcgattaggg	7	9	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:198646462C>G	uc002uus.2	-	2	423	c.113G>C	c.(112-114)GGA>GCA	p.G38A	BOLL_uc002uur.2_Missense_Mutation_p.G44A|BOLL_uc002uut.2_Missense_Mutation_p.G50A|BOLL_uc010zha.1_5'UTR|BOLL_uc002uuu.1_Missense_Mutation_p.G44A	NM_033030	NP_149019	Q8N9W6	BOLL_HUMAN	boule isoform 2	38	RRM.				cell differentiation|meiosis|multicellular organismal development|positive regulation of translational initiation|spermatogenesis	cytoplasm	nucleotide binding|protein binding|RNA binding|translation activator activity			ovary(2)	2						ATCAATTCCTCCTACAAAGAT	0.358													41	300	---	---	---	---	PASS	G	198646462	G	G	198646462	3	3	163	1	0	0	0	0	1	0	0	0	1487	855	30	2	778	2	BOLL	2	198646462	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5945787	198646462	44552911	263	57598										
SATB2	23314	broad.mit.edu	37	chr2	200193475	200193475	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccgaggagaccatgctcacAttgggattcatgctccgctc	11	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:200193475A>G	uc002uuy.1	-	8	2149	c.1332T>C	c.(1330-1332)AAT>AAC	p.N444N	SATB2_uc010fsq.1_Silent_p.N326N|SATB2_uc002uuz.1_Silent_p.N444N|SATB2_uc002uva.1_Silent_p.N444N	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	444						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCATGCTCACATTGGGATTCA	0.517													27	164	---	---	---	---	PASS	G	200193475	G	G	200193475	2	3	163	1	0	0	0	0	0	0	0	1	13854	214	8	5		5	SATB2	2	200193475	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	1547013	200193475	43005898	264	57599										
MPP4	58538	broad.mit.edu	37	chr2	202545689	202545689	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcccccttctggaaaggcaaTccagcgtccatgcaggggat	11	13	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:202545689T>C	uc002uyk.3	-	10	1009	c.801A>G	c.(799-801)GGA>GGG	p.G267G	MPP4_uc010ftj.2_Silent_p.G267G|MPP4_uc010zhq.1_Silent_p.G267G|MPP4_uc010zhr.1_Silent_p.G267G|MPP4_uc010zhs.1_Silent_p.G223G|MPP4_uc002uyj.3_Silent_p.G223G|MPP4_uc010zht.1_Silent_p.G240G|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Silent_p.G254G|MPP4_uc002uym.1_Silent_p.G236G|MPP4_uc002uyn.2_Silent_p.G223G	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	267	SH3.					cytoplasm	protein binding				0						GGAAAGGCAATCCAGCGTCCA	0.577											OREG0015145	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	78	---	---	---	---	PASS	C	202545689	C	C	202545689	2	2	163	1	0	0	0	0	0	0	0	1	9736	1422	50	5		5	MPP4	2	202545689	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	2352214	202545689	40653684	265	57600										
CD28	940	broad.mit.edu	37	chr2	204599596	204599596	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acccgcaagcattaccagccCtatgccccaccacgcgactt	6	19	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:204599596C>T	uc002vah.3	+	4	846	c.624C>T	c.(622-624)CCC>CCT	p.P208P	CD28_uc010zio.1_RNA|CD28_uc010ftx.2_Silent_p.P89P|CD28_uc002vaj.3_RNA	NM_006139	NP_006130	P10747	CD28_HUMAN	CD28 antigen precursor	208	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|cytokine biosynthetic process|humoral immune response|positive regulation of anti-apoptosis|positive regulation of interleukin-2 biosynthetic process|positive regulation of mitosis|positive regulation of translation|positive regulation of viral genome replication|regulation of defense response to virus by virus|regulatory T cell differentiation|T cell costimulation|viral reproduction	cytosol|external side of plasma membrane|integral to plasma membrane	coreceptor activity|protease binding|SH3/SH2 adaptor activity				0						ATTACCAGCCCTATGCCCCAC	0.622													5	149	---	---	---	---	PASS	T	204599596	T	T	204599596	2	4	163	1	0	0	0	0	0	0	0	1	2993	668	24	3		3	CD28	2	204599596	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	2053907	204599596	38599777	266	57601										
CPO	130749	broad.mit.edu	37	chr2	207814364	207814364	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttagcccaacacagacaagAgattgtggacaagtcagtga	10	9	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:207814364A>T	uc002vby.2	+	2	138	c.92A>T	c.(91-93)GAG>GTG	p.E31V		NM_173077	NP_775100	Q8IVL8	CBPO_HUMAN	carboxypeptidase O precursor	31					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				LUSC - Lung squamous cell carcinoma(261;0.0744)|Epithelial(149;0.0807)|Lung(261;0.142)		CACAGACAAGAGATTGTGGAC	0.478													33	123	---	---	---	---	PASS	T	207814364	T	T	207814364	3	4	163	1	0	0	0	0	1	0	0	0	3820	304	11	5	98	5	CPO	2	207814364	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	3214768	207814364	35385009	267	57602										
PIKFYVE	200576	broad.mit.edu	37	chr2	209201606	209201606	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaagggtagaaagagaccttCagttcctccaagtcctggaa	10	9	1	2	rs35021350		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:209201606C>G	uc002vcz.2	+	28	4723	c.4565C>G	c.(4564-4566)TCA>TGA	p.S1522*		NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1522					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						AAGAGACCTTCAGTTCCTCCA	0.388													18	94	---	---	---	---	PASS	G	209201606	G	G	209201606	4	3	163	1	0	0	0	0	0	1	0	0	11924	838	29	2	4682	2	PIKFYVE	2	209201606	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1387242	209201606	33997767	268	57603										
CPS1	1373	broad.mit.edu	37	chr2	211502431	211502431	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctattaaatcctagtgagtCcatgacagaagaaaccctga	7	9	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:211502431C>G	uc002vee.3	+	22	2825	c.2693C>G	c.(2692-2694)TCC>TGC	p.S898C	CPS1_uc010fur.2_Missense_Mutation_p.S904C|CPS1_uc010fus.2_Missense_Mutation_p.S447C	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	898					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)		CCTAGTGAGTCCATGACAGAA	0.413													30	128	---	---	---	---	PASS	G	211502431	G	G	211502431	3	3	163	1	0	0	0	0	1	0	0	0	3823	855	30	2	2801	2	CPS1	2	211502431	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2300825	211502431	31696942	269	57604										
ERBB4	2066	broad.mit.edu	37	chr2	212566791	212566791	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgataataacacaggttgcTgttgtcagtaatatagatgt	9	4	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:212566791T>C	uc002veg.1	-	12	1488	c.1390A>G	c.(1390-1392)AGC>GGC	p.S464G	ERBB4_uc002veh.1_Missense_Mutation_p.S464G|ERBB4_uc010zji.1_Missense_Mutation_p.S464G|ERBB4_uc010zjj.1_Missense_Mutation_p.S464G|ERBB4_uc010fut.1_Missense_Mutation_p.S464G	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	464	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CACAGGTTGCTGTTGTCAGTA	0.433										TSP Lung(8;0.080)			62	254	---	---	---	---	PASS	C	212566791	C	C	212566791	3	2	163	1	0	0	0	0	1	0	0	0	5209	1580	55	5	2604	5	ERBB4	2	212566791	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	1064360	212566791	30632582	270	57605										
FN1	2335	broad.mit.edu	37	chr2	216285490	216285490	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgcttgtggaatgtgtcgttCacattgtaagtgatgtcatc	11	7	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:216285490C>G	uc002vfa.2	-	11	1847	c.1581G>C	c.(1579-1581)GTG>GTC	p.V527V	FN1_uc002vfb.2_Silent_p.V527V|FN1_uc002vfc.2_Silent_p.V527V|FN1_uc002vfd.2_Silent_p.V527V|FN1_uc002vfe.2_Silent_p.V527V|FN1_uc002vff.2_Silent_p.V527V|FN1_uc002vfg.2_Silent_p.V527V|FN1_uc002vfh.2_Silent_p.V527V|FN1_uc002vfi.2_Silent_p.V527V|FN1_uc002vfj.2_Silent_p.V527V|FN1_uc002vfl.2_Silent_p.V527V	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	527	Collagen-binding.|Fibronectin type-I 8.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATGTGTCGTTCACATTGTAAG	0.458													18	113	---	---	---	---	PASS	G	216285490	G	G	216285490	2	3	163	1	0	0	0	0	0	0	0	1	5962	813	29	2		2	FN1	2	216285490	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	3718699	216285490	26913883	271	57606										
FN1	2335	broad.mit.edu	37	chr2	216289013	216289013	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaatggtaagacacatggctCtccatttgagttgccaccgt	10	10	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:216289013C>G	uc002vfa.2	-	8	1338	c.1072G>C	c.(1072-1074)GAG>CAG	p.E358Q	FN1_uc002vfb.2_Missense_Mutation_p.E358Q|FN1_uc002vfc.2_Missense_Mutation_p.E358Q|FN1_uc002vfd.2_Missense_Mutation_p.E358Q|FN1_uc002vfe.2_Missense_Mutation_p.E358Q|FN1_uc002vff.2_Missense_Mutation_p.E358Q|FN1_uc002vfg.2_Missense_Mutation_p.E358Q|FN1_uc002vfh.2_Missense_Mutation_p.E358Q|FN1_uc002vfi.2_Missense_Mutation_p.E358Q|FN1_uc002vfj.2_Missense_Mutation_p.E358Q|FN1_uc002vfl.2_Missense_Mutation_p.E358Q	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	358	Fibronectin type-II 1.|Collagen-binding.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACACATGGCTCTCCATTTGAG	0.478													32	158	---	---	---	---	PASS	G	216289013	G	G	216289013	3	3	163	1	0	0	0	0	1	0	0	0	5962	922	32	2	6550	2	FN1	2	216289013	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3523	216289013	26910360	272	57607										
CCDC108	255101	broad.mit.edu	37	chr2	219870931	219870931	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgacagactgctggttcttGatgggaggcagtgtctttgg	15	7	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:219870931G>C	uc002vjl.1	-	31	4818	c.4734C>G	c.(4732-4734)ATC>ATG	p.I1578M		NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	1578						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCTGGTTCTTGATGGGAGGCA	0.607													4	118	---	---	---	---	PASS	C	219870931	C	C	219870931	3	2	163	1	0	0	0	0	1	0	0	0	2743	1280	45	2	1063	2	CCDC108	2	219870931	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3581918	219870931	23328442	273	57608										
STK16	8576	broad.mit.edu	37	chr2	220111441	220111441	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acacttctacgccctgaagcGaatcctgtgtcacgagcagc	9	14	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:220111441G>A	uc002vko.2	+	3	306	c.149G>A	c.(148-150)CGA>CAA	p.R50Q	GLB1L_uc002vkm.2_5'Flank|GLB1L_uc002vkn.2_5'Flank|STK16_uc002vks.2_Intron|STK16_uc010zky.1_Missense_Mutation_p.R50Q|STK16_uc010fwf.2_Missense_Mutation_p.R50Q|STK16_uc002vkp.2_Missense_Mutation_p.R50Q|STK16_uc002vkr.2_5'UTR|STK16_uc002vkq.2_Missense_Mutation_p.R95Q	NM_001008910	NP_001008910	O75716	STK16_HUMAN	serine/threonine kinase 16	50	Protein kinase.				protein complex assembly	membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(1)	1		Renal(207;0.0474)		Epithelial(149;1.2e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCCCTGAAGCGAATCCTGTGT	0.567													10	63	---	---	---	---	PASS	A	220111441	A	A	220111441	3	1	163	1	0	0	0	0	1	0	0	0	15288	1058	37	2	155	2	STK16	2	220111441	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	240510	220111441	23087932	274	57609										
CUL3	8452	broad.mit.edu	37	chr2	225339017	225339017	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgttcgtgccaaatattctCtctcaataagtccttcaata	5	10	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:225339017C>G	uc002vny.2	-	16	2636	c.2252G>C	c.(2251-2253)AGA>ACA	p.R751T	CUL3_uc010zls.1_Missense_Mutation_p.R685T|CUL3_uc010fwy.1_Missense_Mutation_p.R757T	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	751					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CAAATATTCTCTCTCAATAAG	0.363													9	145	---	---	---	---	PASS	G	225339017	G	G	225339017	3	3	163	1	0	0	0	0	1	0	0	0	4056	913	32	2	58	2	CUL3	2	225339017	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5227576	225339017	17860356	275	57610										
KIAA1486	57624	broad.mit.edu	37	chr2	226446958	226446958	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaggaaatgaagtaccctatCtttgacgacttgggccaaga	11	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:226446958C>T	uc002voe.2	+	4	1000	c.825C>T	c.(823-825)ATC>ATT	p.I275I	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Silent_p.I45I	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	275										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		AGTACCCTATCTTTGACGACT	0.542													43	106	---	---	---	---	PASS	T	226446958	T	T	226446958	2	4	163	1	0	0	0	0	0	0	0	1	8237	903	32	2		2	KIAA1486	2	226446958	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1107941	226446958	16752415	276	57611										
SPHKAP	80309	broad.mit.edu	37	chr2	228882974	228882974	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggaaccacttctggactggcTgaccgttggggacctttgtc	13	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:228882974T>A	uc002vpq.2	-	7	2643	c.2596A>T	c.(2596-2598)AGC>TGC	p.S866C	SPHKAP_uc002vpp.2_Missense_Mutation_p.S866C|SPHKAP_uc010zlx.1_Missense_Mutation_p.S866C	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	866						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CTGGACTGGCTGACCGTTGGG	0.483													154	771	---	---	---	---	PASS	A	228882974	A	A	228882974	3	1	163	1	0	0	0	0	1	0	0	0	15047	1580	55	5	2530	5	SPHKAP	2	228882974	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	2436016	228882974	14316399	277	57612										
NCL	4691	broad.mit.edu	37	chr2	232322396	232322396	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acctctatagtcttgattttGacctttctctccagtatagt	5	10	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:232322396G>C	uc002vru.2	-	9	1546	c.1405C>G	c.(1405-1407)CAA>GAA	p.Q469E	SNORA75_uc002vrv.1_5'Flank|SNORD20_uc002vrw.1_5'Flank	NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	469					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		TCTTGATTTTGACCTTTCTCT	0.413													25	245	---	---	---	---	PASS	C	232322396	C	C	232322396	3	2	163	1	0	0	0	0	1	0	0	0	10226	1299	45	2	751	2	NCL	2	232322396	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3439422	232322396	10876977	278	57613										
CHRND	1144	broad.mit.edu	37	chr2	233393325	233393325	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcctgccccatctctgtcacCtatttccccttcgactggca	5	18	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:233393325C>G	uc002vsw.2	+	5	472	c.468C>G	c.(466-468)ACC>ACG	p.T156T	CHRND_uc010zmg.1_Silent_p.T141T|CHRND_uc010fyc.2_Missense_Mutation_p.P66R|CHRND_uc010zmh.1_Missense_Mutation_p.P66R	NM_000751	NP_000742	Q07001	ACHD_HUMAN	nicotinic acetylcholine receptor delta	156	Extracellular (Potential).				muscle contraction|musculoskeletal movement|neuromuscular process|skeletal muscle tissue growth|synaptic transmission	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)|breast(1)|skin(1)	3		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.89e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00078)|Lung(119;0.00579)|LUSC - Lung squamous cell carcinoma(224;0.00754)		TCTCTGTCACCTATTTCCCCT	0.577													43	110	---	---	---	---	PASS	G	233393325	G	G	233393325	2	3	163	1	0	0	0	0	0	0	0	1	3394	668	24	4		4	CHRND	2	233393325	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1070929	233393325	9806048	279	57614										
HDAC4	9759	broad.mit.edu	37	chr2	239990202	239990202	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tacatctggcggagaggttgTagcccccaagaggggtgggg	18	8	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:239990202T>C	uc002vyk.3	-	23	3629	c.2837A>G	c.(2836-2838)TAC>TGC	p.Y946C	HDAC4_uc010fyy.2_Missense_Mutation_p.Y903C	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	946	Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		GGAGAGGTTGTAGCCCCCAAG	0.597													8	64	---	---	---	---	PASS	C	239990202	C	C	239990202	3	2	163	1	0	0	0	0	1	0	0	0	7009	1638	57	5	437	5	HDAC4	2	239990202	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	6596877	239990202	3209171	280	57615										
RNPEPL1	57140	broad.mit.edu	37	chr2	241516041	241516041	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccagcctgacccggcccgtgGaggcccttttccagctgtgg	13	16	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:241516041G>C	uc002vzi.2	+	9	1500	c.907G>C	c.(907-909)GAG>CAG	p.E303Q	RNPEPL1_uc010fzf.2_Missense_Mutation_p.E209Q|RNPEPL1_uc002vzj.2_5'UTR	NM_018226	NP_060696	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like	303					leukotriene biosynthetic process|proteolysis		aminopeptidase activity|metallopeptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)		CCGGCCCGTGGAGGCCCTTTT	0.652													3	102	---	---	---	---	PASS	C	241516041	C	C	241516041	3	2	163	1	0	0	0	0	1	0	0	0	13510	1175	41	2	933	2	RNPEPL1	2	241516041	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1525839	241516041	1683332	281	57616										
SNED1	25992	broad.mit.edu	37	chr2	241976764	241976764	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctttgggggacccacctgtGagacaggtaagaggaaccca	14	10	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:241976764G>C	uc002wah.1	+	6	1039	c.1039G>C	c.(1039-1041)GAG>CAG	p.E347Q		NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	347	EGF-like 2.				cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		ACCCACCTGTGAGACAGGTAA	0.637													5	16	---	---	---	---	PASS	C	241976764	C	C	241976764	3	2	163	1	0	0	0	0	1	0	0	0	14845	1291	45	2	1061	2	SNED1	2	241976764	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	460723	241976764	1222609	282	57617										
C2orf85	285093	broad.mit.edu	37	chr2	242814881	242814881	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgaaggcaacgggaaggaaGgaggcggccagggcctcgtc	18	10	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr2:242814881G>T	uc010fzu.1	+	2	1197	c.1174G>T	c.(1174-1176)GGA>TGA	p.G392*		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	392						integral to membrane				ovary(1)	1						CGGGAAGGAAGGAGGCGGCCA	0.627													6	42	---	---	---	---	PASS	T	242814881	T	T	242814881	4	4	163	1	0	0	0	0	0	1	0	0	2200	1001	35	3	1180	3	C2orf85	2	242814881	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	838117	242814881	384492	283	57618										
CHL1	10752	broad.mit.edu	37	chr3	407692	407692	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccccaaattgcatatgcttGaattacattgtgaaagcaaa	6	8	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:407692G>C	uc003bou.2	+	14	1868	c.1597G>C	c.(1597-1599)GAA>CAA	p.E533Q	CHL1_uc003bot.2_Missense_Mutation_p.E549Q|CHL1_uc003bow.1_Missense_Mutation_p.E533Q|CHL1_uc011asi.1_Missense_Mutation_p.E549Q|uc003box.1_Intron	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	533	Ig-like C2-type 6.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		GCATATGCTTGAATTACATTG	0.353													18	134	---	---	---	---	PASS	C	407692	C	C	407692	3	2	163	1	0	0	0	0	1	0	0	0	3349	1291	45	2	1695	2	CHL1	3	407692	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08		407692	197614738	284	57619										
CNTN4	152330	broad.mit.edu	37	chr3	3084769	3084769	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taaaaggcagtgtgctgtatCacttagctgtcaaggcatat	10	7	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:3084769C>T	uc003bpc.2	+	21	2841	c.2620C>T	c.(2620-2622)CAC>TAC	p.H874Y	CNTN4_uc003bpb.1_Missense_Mutation_p.H545Y|CNTN4_uc003bpe.2_Missense_Mutation_p.H546Y|CNTN4_uc003bpf.2_Missense_Mutation_p.H545Y|CNTN4_uc003bpg.2_Missense_Mutation_p.H130Y	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	874	Fibronectin type-III 3.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		TGTGCTGTATCACTTAGCTGT	0.418													16	103	---	---	---	---	PASS	T	3084769	T	T	3084769	3	4	163	1	0	0	0	0	1	0	0	0	3643	826	29	2	2694	2	CNTN4	3	3084769	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2677077	3084769	194937661	285	57620										
ITPR1	3708	broad.mit.edu	37	chr3	4716893	4716893	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttagcaagatggcgaaaggaGaagagaataaaggtaacaat	12	3	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:4716893G>A	uc003bqa.2	+	23	3088	c.2740G>A	c.(2740-2742)GAA>AAA	p.E914K	ITPR1_uc010hca.1_Missense_Mutation_p.E899K|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Missense_Mutation_p.E899K	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	914	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GGCGAAAGGAGAAGAGAATAA	0.448													11	98	---	---	---	---	PASS	A	4716893	A	A	4716893	3	1	163	1	0	0	0	0	1	0	0	0	7920	943	33	2	2822	2	ITPR1	3	4716893	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1632124	4716893	193305537	286	57621										
RAD18	56852	broad.mit.edu	37	chr3	8940593	8940593	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttacctattgcatgaatctGattctgatgaagaaagaact	7	7	2	6			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:8940593G>T	uc003brd.2	-	11	1384	c.1307C>A	c.(1306-1308)TCA>TAA	p.S436*	RAD18_uc003bre.2_RNA	NM_020165	NP_064550	Q9NS91	RAD18_HUMAN	postreplication repair protein hRAD18p	436					DNA repair	nucleus|replication fork	damaged DNA binding|ligase activity|ubiquitin protein ligase binding|Y-form DNA binding|zinc ion binding			skin(3)|ovary(2)	5				OV - Ovarian serous cystadenocarcinoma(96;0.0552)		GCATGAATCTGATTCTGATGA	0.348								Rad6_pathway					11	138	---	---	---	---	PASS	T	8940593	T	T	8940593	4	4	163	1	0	0	0	0	0	1	0	0	12980	1294	45	2	192	2	RAD18	3	8940593	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4223700	8940593	189081837	287	57622										
BRPF1	7862	broad.mit.edu	37	chr3	9784741	9784741	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttgaggaggacttcaacctCatcgtcagcaactgcctcaa	8	12	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:9784741C>G	uc003bse.2	+	7	2496	c.2097C>G	c.(2095-2097)CTC>CTG	p.L699L	BRPF1_uc003bsf.2_Silent_p.L705L|BRPF1_uc003bsg.2_Silent_p.L699L|BRPF1_uc011ati.1_Silent_p.L699L	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	699	Required for RUNX1 and RUNX2 transcriptional activation.|Interaction with MEAF6 and ING5.|Bromo.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					ACTTCAACCTCATCGTCAGCA	0.522													35	104	---	---	---	---	PASS	G	9784741	G	G	9784741	2	3	163	1	0	0	0	0	0	0	0	1	1520	813	29	2		2	BRPF1	3	9784741	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	844148	9784741	188237689	288	57623										
TTLL3	26140	broad.mit.edu	37	chr3	9868872	9868872	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttaccgtgtggttctaccgcGacagctatatccgcttttcc	8	13	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:9868872G>C	uc003btg.2	+	9	1282	c.1066G>C	c.(1066-1068)GAC>CAC	p.D356H	ARPC4_uc003btc.1_Intron|TTLL3_uc003btd.3_Missense_Mutation_p.D323H|TTLL3_uc003btf.3_Intron|TTLL3_uc010hco.1_Missense_Mutation_p.D292H|TTLL3_uc003bth.3_Missense_Mutation_p.D144H|TTLL3_uc011atj.1_Missense_Mutation_p.D292H|TTLL3_uc003btj.3_Missense_Mutation_p.D144H|TTLL3_uc003bti.3_Missense_Mutation_p.D144H|TTLL3_uc003btk.2_Missense_Mutation_p.D159H	NM_001025930	NP_001021100	Q9Y4R7	TTLL3_HUMAN	tubulin tyrosine ligase-like family, member 3	356	TTL.				axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)					GTTCTACCGCGACAGCTATAT	0.393													9	142	---	---	---	---	PASS	C	9868872	C	C	9868872	3	2	163	1	0	0	0	0	1	0	0	0	16725	1058	37	2	1096	2	TTLL3	3	9868872	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	84131	9868872	188153558	289	57624										
PRRT3	285368	broad.mit.edu	37	chr3	9991146	9991146	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccttccagcactggcctcttGacagtacctgagtgggaaac	10	13	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:9991146G>A	uc003bul.2	-	2	784	c.654C>T	c.(652-654)GTC>GTT	p.V218V	CIDEC_uc003bto.2_Intron|PRRT3_uc003buk.2_RNA|PRRT3_uc003bum.2_Silent_p.V218V	NM_207351	NP_997234	Q5FWE3	PRRT3_HUMAN	proline-rich transmembrane protein 3 precursor	218	Extracellular (Potential).					integral to membrane					0						CTGGCCTCTTGACAGTACCTG	0.592													5	81	---	---	---	---	PASS	A	9991146	A	A	9991146	2	1	163	1	0	0	0	0	0	0	0	1	12611	1277	45	2		2	PRRT3	3	9991146	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	122274	9991146	188031284	290	57625										
TATDN2	9797	broad.mit.edu	37	chr3	10318076	10318076	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acagctgcagctggctgtgtCtctaaagaagcccttggtga	12	10	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:10318076C>G	uc003bvg.2	+	5	2446	c.1865C>G	c.(1864-1866)TCT>TGT	p.S622C	TATDN2_uc003bvf.2_Missense_Mutation_p.S622C|TATDN2_uc011atr.1_Missense_Mutation_p.S622C|TATDN2_uc011ats.1_RNA|TATDN2_uc011att.1_RNA|TATDN2_uc011atu.1_5'Flank|TATDN2_uc011atv.1_5'Flank	NM_014760	NP_055575	Q93075	TATD2_HUMAN	TatD DNase domain containing 2	622						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding			pancreas(2)	2						CTGGCTGTGTCTCTAAAGAAG	0.493													39	106	---	---	---	---	PASS	G	10318076	G	G	10318076	3	3	163	1	0	0	0	0	1	0	0	0	15589	913	32	2	1879	2	TATDN2	3	10318076	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	326930	10318076	187704354	291	57626										
SEC13	6396	broad.mit.edu	37	chr3	10343031	10343031	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actgatgcacacccactgccCatcaactgactccttccaca	4	18	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:10343031C>G	uc003bvn.2	-	9	1002	c.883G>C	c.(883-885)GGG>CGG	p.G295R	SEC13_uc003bvl.2_Missense_Mutation_p.G227R|SEC13_uc003bvm.2_Missense_Mutation_p.G281R|SEC13_uc003bvp.2_Missense_Mutation_p.G298R|SEC13_uc003bvo.2_Missense_Mutation_p.G341R|SEC13_uc003bvq.1_Intron	NM_183352	NP_899195	P55735	SEC13_HUMAN	SEC13 protein isoform 1	295	WD 6.				COPII vesicle coating|intracellular protein transport|mitotic prometaphase|mRNA transport|post-translational protein modification|protein N-linked glycosylation via asparagine|transmembrane transport	cytosol|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Nup107-160 complex	protein binding			ovary(1)	1						ACCCACTGCCCATCAACTGAC	0.567													4	85	---	---	---	---	PASS	G	10343031	G	G	10343031	3	3	163	1	0	0	0	0	1	0	0	0	13980	594	21	4	89	4	SEC13	3	10343031	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	24955	10343031	187679399	292	57627										
ATG7	10533	broad.mit.edu	37	chr3	11399906	11399906	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccctagaatgccagaggattCaacatgagcatacctatgcc	8	12	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:11399906C>G	uc003bwc.2	+	13	1416	c.1299C>G	c.(1297-1299)TTC>TTG	p.F433L	ATG7_uc003bwd.2_Missense_Mutation_p.F433L|ATG7_uc011aum.1_Missense_Mutation_p.F394L	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	433					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						CCAGAGGATTCAACATGAGCA	0.512													63	258	---	---	---	---	PASS	G	11399906	G	G	11399906	3	3	163	1	0	0	0	0	1	0	0	0	1101	825	29	2	1345	2	ATG7	3	11399906	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1056875	11399906	186622524	293	57628										
SATB1	6304	broad.mit.edu	37	chr3	18390710	18390710	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgtttccttccactgacagCtcttcttctagtttcactga	6	12	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:18390710C>G	uc003cbh.2	-	11	3979	c.2244G>C	c.(2242-2244)GAG>GAC	p.E748D	SATB1_uc003cbi.2_Missense_Mutation_p.E780D|SATB1_uc003cbj.2_Missense_Mutation_p.E748D	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	748					cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						CCACTGACAGCTCTTCTTCTA	0.358													40	217	---	---	---	---	PASS	G	18390710	G	G	18390710	3	3	163	1	0	0	0	0	1	0	0	0	13853	796	28	4	51	4	SATB1	3	18390710	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6990804	18390710	179631720	294	57629										
KCNH8	131096	broad.mit.edu	37	chr3	19554619	19554619	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caagaaggttggaagcaataAagcctacctgggcttaagct	11	8	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:19554619A>T	uc003cbk.1	+	13	2432	c.2237A>T	c.(2236-2238)AAA>ATA	p.K746I	KCNH8_uc010hex.1_Missense_Mutation_p.K207I	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	746	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						GGAAGCAATAAAGCCTACCTG	0.438													19	103	---	---	---	---	PASS	T	19554619	T	T	19554619	3	4	163	1	0	0	0	0	1	0	0	0	8038	14	1	5	2287	5	KCNH8	3	19554619	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	1163909	19554619	178467811	295	57630										
TOP2B	7155	broad.mit.edu	37	chr3	25657068	25657068	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggttttgtgtttcatcctCttctgctgcctgtaaaaaat	7	9	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:25657068C>G	uc011awn.1	-	26	3404	c.3361G>C	c.(3361-3363)GAG>CAG	p.E1121Q	TOP2B_uc003cdj.2_Missense_Mutation_p.E1116Q|TOP2B_uc011awm.1_5'UTR|TOP2B_uc010hff.1_Intron	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	1121					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						GTTTCATCCTCTTCTGCTGCC	0.303													5	9	---	---	---	---	PASS	G	25657068	G	G	25657068	3	3	163	1	0	0	0	0	1	0	0	0	16363	922	32	2	1563	2	TOP2B	3	25657068	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6102449	25657068	172365362	296	57631										
SLC4A7	9497	broad.mit.edu	37	chr3	27424683	27424683	+	Frame_Shift_Del	DEL	C	-	-													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggaatttgcaagagacttCccccttcaaatggaaggtgc							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:27424683delC	uc003cdv.2	-	24	3595	c.3524delG	c.(3523-3525)GGAfs	p.G1175fs	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Frame_Shift_Del_p.G1056fs|SLC4A7_uc011aww.1_Frame_Shift_Del_p.G1184fs|SLC4A7_uc011awx.1_Frame_Shift_Del_p.G1171fs|SLC4A7_uc011awy.1_Frame_Shift_Del_p.G1167fs|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Frame_Shift_Del_p.G1056fs|SLC4A7_uc011axb.1_Frame_Shift_Del_p.G1171fs|SLC4A7_uc010hfl.2_Frame_Shift_Del_p.G725fs|SLC4A7_uc003cdw.2_Frame_Shift_Del_p.G1051fs	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	1175	Cytoplasmic (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						CAAGAGACTTCCCCCTTCAAA	0.363													128	68	---	---	---	---		-	27424683	-	-	27424683	7	5	163	1	0	1	0	1	0	0	0	0	14658	855	30	0	128	0	SLC4A7	3	27424683	Frame_Shift_Del	DEL	C	TCGA-66-2785-01A-01D-1522-08	1767615	27424683	170597747	297	57632										
SLC4A7	9497	broad.mit.edu	37	chr3	27477968	27477968	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gttcaaaaagactgtgcaaaGagagagttgccacataaggt	11	6	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:27477968G>C	uc003cdv.2	-	5	544	c.473C>G	c.(472-474)TCT>TGT	p.S158C	SLC4A7_uc011awu.1_RNA|SLC4A7_uc011awv.1_RNA|SLC4A7_uc003cdu.3_Missense_Mutation_p.S163C|SLC4A7_uc011aww.1_Missense_Mutation_p.S167C|SLC4A7_uc011awx.1_Missense_Mutation_p.S167C|SLC4A7_uc011awy.1_Missense_Mutation_p.S163C|SLC4A7_uc011awz.1_RNA|SLC4A7_uc011axa.1_Missense_Mutation_p.S163C|SLC4A7_uc011axb.1_Missense_Mutation_p.S167C|SLC4A7_uc010hfm.2_Missense_Mutation_p.S163C|SLC4A7_uc003cdw.2_Missense_Mutation_p.S158C	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	158	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						ACTGTGCAAAGAGAGAGTTGC	0.383													13	89	---	---	---	---	PASS	C	27477968	C	C	27477968	3	2	163	1	0	0	0	0	1	0	0	0	14658	942	33	2	3255	2	SLC4A7	3	27477968	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	53285	27477968	170544462	298	57633										
SLC4A7	9497	broad.mit.edu	37	chr3	27498162	27498162	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggtaacttcttctccagacGaaatctttccatagtaatat	5	9	3	1	rs144006432		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:27498162G>A	uc003cdv.2	-	1	84	c.13C>T	c.(13-15)CGT>TGT	p.R5C	SLC4A7_uc011awu.1_Intron|SLC4A7_uc011awv.1_Intron|SLC4A7_uc003cdu.3_Intron|SLC4A7_uc011aww.1_Intron|SLC4A7_uc011awx.1_Intron|SLC4A7_uc011awy.1_Intron|SLC4A7_uc011awz.1_Intron|SLC4A7_uc011axa.1_Intron|SLC4A7_uc011axb.1_Intron|SLC4A7_uc010hfm.2_Intron|SLC4A7_uc003cdw.2_Missense_Mutation_p.R5C	NM_003615	NP_003606	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate	5	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|stereocilium	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|central_nervous_system(1)|skin(1)	5						TTCTCCAGACGAAATCTTTCC	0.343													25	91	---	---	---	---	PASS	A	27498162	A	A	27498162	3	1	163	1	0	0	0	0	1	0	0	0	14658	1058	37	2	3731	2	SLC4A7	3	27498162	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	20194	27498162	170524268	299	57634										
DLEC1	9940	broad.mit.edu	37	chr3	38158765	38158765	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cggtgggacccctgaaactgGacctgcatagctacgtgagg	14	11	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:38158765G>C	uc003cho.1	+	31	4393	c.4372G>C	c.(4372-4374)GAC>CAC	p.D1458H	DLEC1_uc003chp.1_Missense_Mutation_p.D1458H|DLEC1_uc010hgv.1_Missense_Mutation_p.D1461H|DLEC1_uc003chr.1_Missense_Mutation_p.D529H|DLEC1_uc010hgx.1_RNA|DLEC1_uc003chs.1_5'UTR	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	1458					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		CCTGAAACTGGACCTGCATAG	0.597													4	45	---	---	---	---	PASS	C	38158765	C	C	38158765	3	2	163	1	0	0	0	0	1	0	0	0	4552	1174	41	2	4494	2	DLEC1	3	38158765	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	10660603	38158765	159863665	300	57635										
CCDC13	152206	broad.mit.edu	37	chr3	42799624	42799624	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aacttgcatttacctcttctCaaagctatttttcgagtttg	5	9	2	0	rs140850059		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:42799624C>G	uc003cly.3	-	2	298	c.214G>C	c.(214-216)GAG>CAG	p.E72Q	CCDC13_uc003clz.2_Missense_Mutation_p.E72Q|CCDC13_uc011azq.1_Missense_Mutation_p.E72Q	NM_144719	NP_653320	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13	72	Potential.									ovary(1)	1						TACCTCTTCTCAAAGCTATTT	0.383													10	72	---	---	---	---	PASS	G	42799624	G	G	42799624	3	3	163	1	0	0	0	0	1	0	0	0	2765	835	29	2	1993	2	CCDC13	3	42799624	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4640859	42799624	155222806	301	57636										
ZNF197	10168	broad.mit.edu	37	chr3	44685566	44685566	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tacatcagaaaatccacacaGatgaaaaaccttgtgaatgt	6	8	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:44685566G>T	uc003cnm.2	+	6	3150	c.2944G>T	c.(2944-2946)GAT>TAT	p.D982Y	ZNF197_uc003cnn.2_Intron|ZNF197_uc003cno.2_Intron|ZNF197_uc003cnp.2_Intron	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	982					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)		AATCCACACAGATGAAAAACC	0.373													12	100	---	---	---	---	PASS	T	44685566	T	T	44685566	3	4	163	1	0	0	0	0	1	0	0	0	17756	942	33	2	2962	2	ZNF197	3	44685566	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1885942	44685566	153336864	302	57637										
LIMD1	8994	broad.mit.edu	37	chr3	45637322	45637322	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttccaagatcaaactcgggGctggggggtgaggtttcagg	16	8	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:45637322G>T	uc003coq.2	+	1	1000	c.951G>T	c.(949-951)GGG>GGT	p.G317G		NM_014240	NP_055055	Q9UGP4	LIMD1_HUMAN	LIM domains containing 1	317					cytoplasmic mRNA processing body assembly|gene silencing by miRNA|multicellular organismal development|negative regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasmic mRNA processing body|nucleus|RNA-induced silencing complex	protein binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.011)|KIRC - Kidney renal clear cell carcinoma(197;0.0264)|Kidney(197;0.0315)		CAAACTCGGGGCTGGGGGGTG	0.602													44	67	---	---	---	---	PASS	T	45637322	T	T	45637322	2	4	163	1	0	0	0	0	0	0	0	1	8798	1190	42	3		3	LIMD1	3	45637322	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	951756	45637322	152385108	303	57638										
XCR1	2829	broad.mit.edu	37	chr3	46062519	46062519	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgggtgcctgcagccggcaGaaccagaactgccggagaac	14	13	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:46062519G>C	uc003cpe.2	-	3	1145	c.921C>G	c.(919-921)TTC>TTG	p.F307L	uc003cpd.1_5'Flank|XCR1_uc003cpf.2_Missense_Mutation_p.F307L	NM_005283	NP_005274	P46094	XCR1_HUMAN	XC chemokine receptor 1	307	Cytoplasmic (Potential).				chemotaxis|G-protein signaling, coupled to cyclic nucleotide second messenger|inflammatory response	integral to plasma membrane	chemokine receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		GCAGCCGGCAGAACCAGAACT	0.627													3	22	---	---	---	---	PASS	C	46062519	C	C	46062519	3	2	163	1	0	0	0	0	1	0	0	0	17422	933	33	2	84	2	XCR1	3	46062519	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	425197	46062519	151959911	304	57639										
C3orf71	646450	broad.mit.edu	37	chr3	48955980	48955980	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggccgagaaacaatggttatCtgctccactgacgccaggat	11	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:48955980C>G	uc010hkk.1	-	1	839	c.603G>C	c.(601-603)CAG>CAC	p.Q201H	ARIH2_uc003cvb.2_5'Flank|ARIH2_uc003cvc.2_5'Flank	NM_001123040	NP_001116512	Q8N7S6	CC071_HUMAN	hypothetical protein LOC646450	201						integral to membrane					0						CAATGGTTATCTGCTCCACTG	0.582													4	82	---	---	---	---	PASS	G	48955980	G	G	48955980	3	3	163	1	0	0	0	0	1	0	0	0	2243	912	32	2	273	2	C3orf71	3	48955980	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2893461	48955980	149066450	305	57640										
MST1	4485	broad.mit.edu	37	chr3	49724666	49724666	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggacctccggggtcgccatCagggttacggcagaagttct	14	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:49724666C>A	uc003cxg.2	-	5	595	c.523G>T	c.(523-525)GAT>TAT	p.D175Y	MST1_uc011bcs.1_Missense_Mutation_p.D175Y|MST1_uc010hkx.2_Missense_Mutation_p.D96Y|MST1_uc011bct.1_Missense_Mutation_p.D175Y|MST1_uc011bcu.1_RNA|RNF123_uc003cxh.2_5'Flank	NM_020998	NP_066278	P26927	HGFL_HUMAN	macrophage stimulating 1 (hepatocyte growth	161	Kringle 1.				proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GGGTCGCCATCAGGGTTACGG	0.627													8	49	---	---	---	---	PASS	A	49724666	A	A	49724666	3	1	163	1	0	0	0	0	1	0	0	0	9890	826	29	2	1710	2	MST1	3	49724666	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	768686	49724666	148297764	306	57641										
DUSP7	1849	broad.mit.edu	37	chr3	52085122	52085122	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcaccaggacaccacacttCttggagcgggcttcgtctga	11	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:52085122C>T	uc003dct.2	-	3	1048	c.969G>A	c.(967-969)AAG>AAA	p.K323K		NM_001947	NP_001938	Q16829	DUS7_HUMAN	dual specificity phosphatase 7	323	Tyrosine-protein phosphatase.				inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein binding|protein tyrosine phosphatase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;5.14e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CACCACACTTCTTGGAGCGGG	0.597													11	50	---	---	---	---	PASS	T	52085122	T	T	52085122	2	4	163	1	0	0	0	0	0	0	0	1	4830	912	32	2		2	DUSP7	3	52085122	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	2360456	52085122	145937308	307	57642										
DUSP7	1849	broad.mit.edu	37	chr3	52088272	52088272	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgtcggagcagtcagagctGatgcgcaggccccccaggcc	14	16	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:52088272G>C	uc003dct.2	-	2	715	c.636C>G	c.(634-636)ATC>ATG	p.I212M	DUSP7_uc010hma.2_Missense_Mutation_p.I212M	NM_001947	NP_001938	Q16829	DUS7_HUMAN	dual specificity phosphatase 7	212	Ser-rich.				inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein binding|protein tyrosine phosphatase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;5.14e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		AGTCAGAGCTGATGCGCAGGC	0.657													27	42	---	---	---	---	PASS	C	52088272	C	C	52088272	3	2	163	1	0	0	0	0	1	0	0	0	4830	1280	45	2	631	2	DUSP7	3	52088272	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3150	52088272	145934158	308	57643										
ITIH1	3697	broad.mit.edu	37	chr3	52821623	52821623	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tacagagatgctgggacccaGaaggagtaagtggcagccat	14	8	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:52821623G>C	uc003dfs.2	+	16	1943	c.1919G>C	c.(1918-1920)AGA>ACA	p.R640T	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Missense_Mutation_p.R241T|ITIH1_uc010hmo.1_Missense_Mutation_p.R194T|ITIH1_uc003dfu.2_5'Flank	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	640	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		CTGGGACCCAGAAGGAGTAAG	0.532													14	85	---	---	---	---	PASS	C	52821623	C	C	52821623	3	2	163	1	0	0	0	0	1	0	0	0	7903	942	33	2	1981	2	ITIH1	3	52821623	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	733351	52821623	145200807	309	57644										
CACNA1D	776	broad.mit.edu	37	chr3	53766064	53766064	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttacaattgatgactatagaGaagaggatgaagacaaggac	11	4	0	6			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:53766064G>C	uc003dgv.3	+	18	2591	c.2428G>C	c.(2428-2430)GAA>CAA	p.E810Q	CACNA1D_uc003dgu.3_Missense_Mutation_p.E830Q|CACNA1D_uc003dgy.3_Missense_Mutation_p.E810Q|CACNA1D_uc003dgw.3_Missense_Mutation_p.E477Q|CACNA1D_uc003dgx.1_5'UTR	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	810	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	TGACTATAGAGAAGAGGATGA	0.512													14	68	---	---	---	---	PASS	C	53766064	C	C	53766064	3	2	163	1	0	0	0	0	1	0	0	0	2541	943	33	2	2670	2	CACNA1D	3	53766064	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	944441	53766064	144256366	310	57645										
FLNB	2317	broad.mit.edu	37	chr3	58112437	58112437	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agtgctgagtacattcctttCgcaccgggggattacgatgt	12	9	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:58112437C>T	uc003djj.2	+	24	4335	c.4170C>T	c.(4168-4170)TTC>TTT	p.F1390F	FLNB_uc010hne.2_Silent_p.F1390F|FLNB_uc003djk.2_Silent_p.F1390F|FLNB_uc010hnf.2_Silent_p.F1390F|FLNB_uc003djl.2_Silent_p.F1221F|FLNB_uc003djm.2_Silent_p.F1221F	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1390	Filamin 12.|Interaction with FBLP1.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		ACATTCCTTTCGCACCGGGGG	0.488													20	91	---	---	---	---	PASS	T	58112437	T	T	58112437	2	4	163	1	0	0	0	0	0	0	0	1	5934	883	31	2		2	FLNB	3	58112437	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	4346373	58112437	139909993	311	57646										
PXK	54899	broad.mit.edu	37	chr3	58368400	58368400	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggttaagaagtttttagatCcaaacaactattccgcaaac	6	8	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:58368400C>G	uc003djz.1	+	4	460	c.361C>G	c.(361-363)CCA>GCA	p.P121A	PXK_uc003djx.1_Missense_Mutation_p.P121A|PXK_uc003djy.1_Missense_Mutation_p.P104A|PXK_uc003dka.1_Missense_Mutation_p.P121A|PXK_uc003dkb.1_Missense_Mutation_p.P38A|PXK_uc003dkc.1_Missense_Mutation_p.P104A|PXK_uc011bfe.1_Missense_Mutation_p.P88A|PXK_uc010hnj.1_Missense_Mutation_p.P88A|PXK_uc003dkd.1_Intron|PXK_uc010hnk.1_Translation_Start_Site	NM_017771	NP_060241	Q7Z7A4	PXK_HUMAN	PX domain containing serine/threonine kinase	121	Protein kinase.|PX.				cell communication|inflammatory response|negative regulation of ATPase activity|negative regulation of ion transport|regulation of synaptic transmission	centrosome|cytoplasm|nucleus|plasma membrane	actin binding|ATP binding|phosphatidylinositol binding|phosphatidylinositol binding|protein C-terminus binding|protein kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000249)|KIRC - Kidney renal clear cell carcinoma(10;0.00346)|Kidney(10;0.00368)|OV - Ovarian serous cystadenocarcinoma(275;0.22)		GTTTTTAGATCCAAACAACTA	0.393													15	118	---	---	---	---	PASS	G	58368400	G	G	58368400	3	3	163	1	0	0	0	0	1	0	0	0	12849	855	30	2	375	2	PXK	3	58368400	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	255963	58368400	139654030	312	57647										
FAM107A	11170	broad.mit.edu	37	chr3	58555429	58555429	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catccctaccttctgtggttCatgagcagctcccggtggag	11	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:58555429C>T	uc003dkm.2	-	3	718	c.159G>A	c.(157-159)ATG>ATA	p.M53I	FAM107A_uc003dko.2_Missense_Mutation_p.M84I|FAM107A_uc003dkn.2_Missense_Mutation_p.M53I|FAM107A_uc010hnm.2_Missense_Mutation_p.M81I|FAM107A_uc003dkp.1_Missense_Mutation_p.M53I	NM_007177	NP_009108	O95990	F107A_HUMAN	downregulated in renal cell carcinoma	53					regulation of cell growth	nucleus	protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000189)|Kidney(10;0.000536)|KIRC - Kidney renal clear cell carcinoma(10;0.000716)|OV - Ovarian serous cystadenocarcinoma(275;0.154)		TTCTGTGGTTCATGAGCAGCT	0.617													23	112	---	---	---	---	PASS	T	58555429	T	T	58555429	3	4	163	1	0	0	0	0	1	0	0	0	5389	826	29	2	287	2	FAM107A	3	58555429	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	187029	58555429	139467001	313	57648										
ROBO2	6092	broad.mit.edu	37	chr3	77542411	77542411	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caagaacgacccacatttctCaggaggccaattaaccaggt	8	12	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:77542411C>G	uc003dpy.3	+	5	1327	c.684C>G	c.(682-684)CTC>CTG	p.L228L	ROBO2_uc003dpz.2_Silent_p.L228L|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Silent_p.L228L	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	228	Ig-like C2-type 3.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CCACATTTCTCAGGAGGCCAA	0.378													17	131	---	---	---	---	PASS	G	77542411	G	G	77542411	2	3	163	1	0	0	0	0	0	0	0	1	13514	813	29	2		2	ROBO2	3	77542411	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	18986982	77542411	120480019	314	57649										
HTR1F	3355	broad.mit.edu	37	chr3	88040884	88040884	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtaaaatttctgaagaaatgTccaattttttggcatggctt	8	5	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:88040884T>C	uc003dqr.2	+	2	1143	c.985T>C	c.(985-987)TCC>CCC	p.S329P		NM_000866	NP_000857	P30939	5HT1F_HUMAN	5-hydroxytryptamine (serotonin) receptor 1F	329	Extracellular (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	serotonin binding|serotonin receptor activity			ovary(3)	3	all_cancers(8;0.147)	Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00664)	Eletriptan(DB00216)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Zolmitriptan(DB00315)	TGAAGAAATGTCCAATTTTTT	0.323													17	71	---	---	---	---	PASS	C	88040884	C	C	88040884	3	2	163	1	0	0	0	0	1	0	0	0	7440	1667	58	5	987	5	HTR1F	3	88040884	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	10498473	88040884	109981546	315	57650										
OR5AC2	81050	broad.mit.edu	37	chr3	97806130	97806130	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgtttttggtggtctatctCatcaccatggtgggcaacct	11	9	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:97806130C>G	uc011bgs.1	+	1	114	c.114C>G	c.(112-114)CTC>CTG	p.L38L		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGGTCTATCTCATCACCATGG	0.448													80	408	---	---	---	---	PASS	G	97806130	G	G	97806130	2	3	163	1	0	0	0	0	0	0	0	1	11141	813	29	2		2	OR5AC2	3	97806130	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	9765246	97806130	100216300	316	57651										
COL8A1	1295	broad.mit.edu	37	chr3	99514504	99514504	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccagggagagtatctgccaGatatggggctgggaattgat	15	7	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:99514504G>C	uc003dtg.1	+	5	2004	c.1759G>C	c.(1759-1761)GAT>CAT	p.D587H	COL8A1_uc003dth.1_Missense_Mutation_p.D587H|COL8A1_uc003dti.1_Missense_Mutation_p.D588H	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	587	Nonhelical region (NC1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						GTATCTGCCAGATATGGGGCT	0.473													12	90	---	---	---	---	PASS	C	99514504	C	C	99514504	3	2	163	1	0	0	0	0	1	0	0	0	3705	942	33	2	1765	2	COL8A1	3	99514504	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1708374	99514504	98507926	317	57652										
TOMM70A	9868	broad.mit.edu	37	chr3	100087936	100087936	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccaaatcaatacatttatcaTacatttcatcagctttacca	1	11	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:100087936T>C	uc003dtw.2	-	10	1928	c.1496A>G	c.(1495-1497)TAT>TGT	p.Y499C		NM_014820	NP_055635	O94826	TOM70_HUMAN	translocase of outer mitochondrial membrane 70	499	Cytoplasmic (Potential).|TPR 8.				protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane translocase complex	protein binding|protein transmembrane transporter activity			ovary(1)	1						ACATTTATCATACATTTCATC	0.313													63	109	---	---	---	---	PASS	C	100087936	C	C	100087936	3	2	163	1	0	0	0	0	1	0	0	0	16359	1406	49	5	342	5	TOMM70A	3	100087936	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	573432	100087936	97934494	318	57653										
ABI3BP	25890	broad.mit.edu	37	chr3	100471741	100471741	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attgtttgcccttacactctGagtaagagtctgaattaaag	8	7	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:100471741G>C	uc003dun.2	-	33	2964	c.2879C>G	c.(2878-2880)TCA>TGA	p.S960*	ABI3BP_uc003duj.2_Nonsense_Mutation_p.S540*|ABI3BP_uc003duk.2_Nonsense_Mutation_p.S669*|ABI3BP_uc003dul.2_Nonsense_Mutation_p.S790*|ABI3BP_uc011bhd.1_Nonsense_Mutation_p.S914*|ABI3BP_uc003dum.2_Nonsense_Mutation_p.S371*	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	960						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						CTTACACTCTGAGTAAGAGTC	0.393													25	119	---	---	---	---	PASS	C	100471741	C	C	100471741	4	2	163	1	0	0	0	0	0	1	0	0	91	1294	45	2	360	2	ABI3BP	3	100471741	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	383805	100471741	97550689	319	57654										
ABI3BP	25890	broad.mit.edu	37	chr3	100569558	100569558	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agttttaggtgggatagaatCcagaatacgatcacttgttg	11	5	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:100569558C>G	uc003dun.2	-	14	1331	c.1246G>C	c.(1246-1248)GAT>CAT	p.D416H	ABI3BP_uc003duo.2_Missense_Mutation_p.D458H	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	416						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						GGGATAGAATCCAGAATACGA	0.328													15	130	---	---	---	---	PASS	G	100569558	G	G	100569558	3	3	163	1	0	0	0	0	1	0	0	0	91	855	30	2	2069	2	ABI3BP	3	100569558	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	97817	100569558	97452872	320	57655										
IMPG2	50939	broad.mit.edu	37	chr3	100992587	100992587	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttctcaatttcattgctaatCtgaatttttagagaaagaac	5	6	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:100992587C>G	uc003duq.1	-	7	870	c.667_splice	c.e7-1	p.I223_splice	IMPG2_uc011bhe.1_Splice_Site_p.I86_splice	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2						visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						CATTGCTAATCTGAATTTTTA	0.264													17	79	---	---	---	---	PASS	G	100992587	G	G	100992587	5	3	163	1	0	0	0	0	0	0	1	0	7729	927	32	2	3111	2	IMPG2	3	100992587	Splice_Site	SNP	C	TCGA-66-2785-01A-01D-1522-08	423029	100992587	97029843	321	57656										
RG9MTD1	54931	broad.mit.edu	37	chr3	101283965	101283965	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagtaccagaacacatcactGaagaagagctcaaaaccctt	6	11	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:101283965G>A	uc003duz.2	+	2	488	c.340G>A	c.(340-342)GAA>AAA	p.E114K		NM_017819	NP_060289	Q7L0Y3	MRRP1_HUMAN	RNA (guanine-9-) methyltransferase domain	114					tRNA processing	mitochondrion	methyltransferase activity|protein binding			ovary(1)	1						ACACATCACTGAAGAAGAGCT	0.368													27	142	---	---	---	---	PASS	A	101283965	A	A	101283965	3	1	163	1	0	0	0	0	1	0	0	0	13271	1291	45	2	342	2	RG9MTD1	3	101283965	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	291378	101283965	96738465	322	57657										
TRAT1	50852	broad.mit.edu	37	chr3	108572674	108572674	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggaaaacattcatgatgatCccatcagactgtttggattg	9	7	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:108572674C>T	uc003dxi.1	+	6	655	c.511C>T	c.(511-513)CCC>TCC	p.P171S	TRAT1_uc010hpx.1_Missense_Mutation_p.P134S	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	171	Cytoplasmic (Potential).				cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						TCATGATGATCCCATCAGACT	0.433													38	214	---	---	---	---	PASS	T	108572674	T	T	108572674	3	4	163	1	0	0	0	0	1	0	0	0	16463	855	30	2	533	2	TRAT1	3	108572674	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	7288709	108572674	89449756	323	57658										
GUCA1C	9626	broad.mit.edu	37	chr3	108672423	108672423	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taccttgttcgtgtcaaaggTattataaacttgatcaatat	6	6	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:108672423T>C	uc003dxj.2	-	1	255	c.187A>G	c.(187-189)ACC>GCC	p.T63A	GUCA1C_uc003dxk.2_Missense_Mutation_p.T63A	NM_005459	NP_005450	O95843	GUC1C_HUMAN	guanylate cyclase activator 1C	63	EF-hand 2.				signal transduction|visual perception		calcium ion binding|calcium sensitive guanylate cyclase activator activity				0						GTGTCAAAGGTATTATAAACT	0.348													42	202	---	---	---	---	PASS	C	108672423	C	C	108672423	3	2	163	1	0	0	0	0	1	0	0	0	6890	1638	57	5	458	5	GUCA1C	3	108672423	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	99749	108672423	89350007	324	57659										
MORC1	27136	broad.mit.edu	37	chr3	108776334	108776334	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcttgctgtttttaattctCtagagttacatttaaaaagt	5	5	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:108776334C>T	uc003dxl.2	-	13	1119	c.1032_splice	c.e13-1	p.R344_splice	MORC1_uc011bhn.1_Splice_Site_p.R344_splice	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1						cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						TTTTAATTCTCTAGAGTTACA	0.328													42	100	---	---	---	---	PASS	T	108776334	T	T	108776334	5	4	163	1	0	0	0	0	0	0	1	0	9701	927	32	2	1987	2	MORC1	3	108776334	Splice_Site	SNP	C	TCGA-66-2785-01A-01D-1522-08	103911	108776334	89246096	325	57660										
CCDC52	152185	broad.mit.edu	37	chr3	113222068	113222068	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgaacggttagatcagtcaCggtattctgtaaaaaaaggt	10	5	3	2	rs141190252	by1000genomes	TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:113222068C>A	uc003eag.3	-	3	397	c.106G>T	c.(106-108)GTG>TTG	p.V36L	CCDC52_uc003eaf.3_RNA|CCDC52_uc011bie.1_Missense_Mutation_p.V48L|CCDC52_uc003eai.1_Missense_Mutation_p.V36L	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52	36					cell division|mitosis	centriole|spindle	protein binding				0						AGATCAGTCACGGTATTCTGT	0.289													8	65	---	---	---	---	PASS	A	113222068	A	A	113222068	3	1	163	1	0	0	0	0	1	0	0	0	2822	536	19	1	2525	1	CCDC52	3	113222068	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4445734	113222068	84800362	326	57661										
ARHGAP31	57514	broad.mit.edu	37	chr3	119134125	119134125	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accctgccattcccattgctGacctcttctggtttgagaat	7	13	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:119134125G>T	uc003ecj.3	+	12	3881	c.3349G>T	c.(3349-3351)GAC>TAC	p.D1117Y		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	1117					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						TCCCATTGCTGACCTCTTCTG	0.517													39	173	---	---	---	---	PASS	T	119134125	T	T	119134125	3	4	163	1	0	0	0	0	1	0	0	0	880	1290	45	2	3395	2	ARHGAP31	3	119134125	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5912057	119134125	78888305	327	57662										
GOLGB1	2804	broad.mit.edu	37	chr3	121416258	121416258	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcttccacttctcccctctCagtctcactgagtgggattt	6	14	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:121416258C>G	uc003eei.3	-	13	3223	c.3097G>C	c.(3097-3099)GAG>CAG	p.E1033Q	GOLGB1_uc010hrc.2_Missense_Mutation_p.E1038Q|GOLGB1_uc003eej.3_Missense_Mutation_p.E999Q|GOLGB1_uc011bjm.1_Missense_Mutation_p.E919Q|GOLGB1_uc010hrd.1_Missense_Mutation_p.E997Q	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1033	Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TCTCCCCTCTCAGTCTCACTG	0.343													11	263	---	---	---	---	PASS	G	121416258	G	G	121416258	3	3	163	1	0	0	0	0	1	0	0	0	6565	835	29	2	6722	2	GOLGB1	3	121416258	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2282133	121416258	76606172	328	57663										
TPRA1	131601	broad.mit.edu	37	chr3	127294892	127294892	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtacaggatctccagggtcCcctgcaggggcaagcaggaa	15	11	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:127294892C>A	uc003ejl.2	-	6	791	c.500G>T	c.(499-501)GGG>GTG	p.G167V	TPRA1_uc003ejm.2_RNA|TPRA1_uc003ejo.2_Missense_Mutation_p.G167V|TPRA1_uc010hsk.2_Missense_Mutation_p.G167V|TPRA1_uc003ejn.2_Missense_Mutation_p.G167V	NM_016372	NP_057456	Q86W33	TPRA1_HUMAN	G protein-coupled receptor 175 isoform 1	167	Helical; Name=4; (Potential).				aging|lipid metabolic process	integral to membrane	G-protein coupled receptor activity				0						CTCCAGGGTCCCCTGCAGGGG	0.587													5	42	---	---	---	---	PASS	A	127294892	A	A	127294892	3	1	163	1	0	0	0	0	1	0	0	0	16414	637	22	3	641	3	TPRA1	3	127294892	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5878634	127294892	70727538	329	57664										
ASTE1	28990	broad.mit.edu	37	chr3	130735088	130735088	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acagaagatgtgagctgtgtCtaagtccagtcttgtgccca	11	9	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:130735088C>T	uc003env.1	-	5	2051	c.1609G>A	c.(1609-1611)GAC>AAC	p.D537N	ATP2C1_uc011blh.1_Silent_p.V944V|ATP2C1_uc011bli.1_Silent_p.V973V|ATP2C1_uc003enm.2_3'UTR|ATP2C1_uc003enn.2_Silent_p.V923V|ATP2C1_uc003enp.2_3'UTR|ATP2C1_uc003enr.2_3'UTR|ATP2C1_uc003ens.2_Silent_p.V949V|ATP2C1_uc003ent.2_Silent_p.V939V|ASTE1_uc010htm.1_Missense_Mutation_p.D537N|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	537					DNA repair		nuclease activity				0						TGAGCTGTGTCTAAGTCCAGT	0.522													24	174	---	---	---	---	PASS	T	130735088	T	T	130735088	3	4	163	1	0	0	0	0	1	0	0	0	1062	913	32	2	438	2	ASTE1	3	130735088	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3440196	130735088	67287342	330	57665										
RAB6B	51560	broad.mit.edu	37	chr3	133547652	133547652	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttagcaggagcagccgccctCgctggccgggggctcctggg	17	14	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:133547652C>G	uc003epy.2	-	8	988	c.607G>C	c.(607-609)GAG>CAG	p.E203Q	RAB6B_uc011blu.1_Missense_Mutation_p.E190Q	NM_016577	NP_057661	Q9NRW1	RAB6B_HUMAN	RAB6B, member RAS oncogene family	203					protein transport|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|Golgi membrane	GTP binding|GTPase activity|protein binding			pancreas(1)	1						CAGCCGCCCTCGCTGGCCGGG	0.597													47	296	---	---	---	---	PASS	G	133547652	G	G	133547652	3	3	163	1	0	0	0	0	1	0	0	0	12952	893	31	2	23	2	RAB6B	3	133547652	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2812564	133547652	64474778	331	57666										
EPHB1	2047	broad.mit.edu	37	chr3	134960004	134960004	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttcagggagggaagatcccTgtgagatggacagctccaga	14	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:134960004T>C	uc003eqt.2	+	13	2581	c.2361T>C	c.(2359-2361)CCT>CCC	p.P787P	EPHB1_uc003equ.2_Silent_p.P348P	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	787	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GGAAGATCCCTGTGAGATGGA	0.502													26	173	---	---	---	---	PASS	C	134960004	C	C	134960004	2	2	163	1	0	0	0	0	0	0	0	1	5174	1567	55	5		5	EPHB1	3	134960004	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	1412352	134960004	63062426	332	57667										
PPP2R3A	5523	broad.mit.edu	37	chr3	135721224	135721224	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctgaaaaagttaccatttgAattcatgcagtctgggaata	8	6	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:135721224A>T	uc003eqv.1	+	2	1449	c.884A>T	c.(883-885)GAA>GTA	p.E295V	PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	295					protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						TTACCATTTGAATTCATGCAG	0.388													38	143	---	---	---	---	PASS	T	135721224	T	T	135721224	3	4	163	1	0	0	0	0	1	0	0	0	12388	246	9	5	886	5	PPP2R3A	3	135721224	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	761220	135721224	62301206	333	57668										
ESYT3	83850	broad.mit.edu	37	chr3	138189849	138189849	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggcctggacagcctcatctCcatgaggctggtgcttcggg	14	12	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:138189849C>T	uc003esk.2	+	17	1947	c.1721C>T	c.(1720-1722)TCC>TTC	p.S574F	ESYT3_uc010hug.2_RNA	NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain	574						integral to membrane|plasma membrane					0						AGCCTCATCTCCATGAGGCTG	0.597													35	178	---	---	---	---	PASS	T	138189849	T	T	138189849	3	4	163	1	0	0	0	0	1	0	0	0	5266	855	30	2	1787	2	ESYT3	3	138189849	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2468625	138189849	59832581	334	57669										
PIK3CB	5291	broad.mit.edu	37	chr3	138407817	138407817	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caggaatgtgcacttctgacCtgcagaaagttaatgatatc	9	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:138407817C>A	uc011bmq.1	-	14	2037	c.2037_splice	c.e14-1	p.R679_splice	PIK3CB_uc011bmn.1_Splice_Site_p.R191_splice|PIK3CB_uc011bmo.1_Splice_Site_p.R125_splice|PIK3CB_uc011bmp.1_Splice_Site_p.R266_splice	NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta						activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						CACTTCTGACCTGCAGAAAGT	0.388													14	53	---	---	---	---	PASS	A	138407817	A	A	138407817	5	1	163	1	0	0	0	0	0	0	1	0	11914	695	24	3	1210	3	PIK3CB	3	138407817	Splice_Site	SNP	C	TCGA-66-2785-01A-01D-1522-08	217968	138407817	59614613	335	57670										
XRN1	54464	broad.mit.edu	37	chr3	142166720	142166720	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcgctcacccacctgatgctCtttcaccacttcgctgagac	6	17	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:142166720C>G	uc003eus.2	-	1	134	c.67G>C	c.(67-69)GAG>CAG	p.E23Q	XRN1_uc003eut.2_Missense_Mutation_p.E23Q|XRN1_uc003euu.2_Missense_Mutation_p.E23Q|XRN1_uc003euw.2_Missense_Mutation_p.E23Q|XRN1_uc011bnh.1_5'UTR	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	23					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						ACCTGATGCTCTTTCACCACT	0.587													25	238	---	---	---	---	PASS	G	142166720	G	G	142166720	3	3	163	1	0	0	0	0	1	0	0	0	17456	922	32	2	5221	2	XRN1	3	142166720	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3758903	142166720	55855710	336	57671										
ATR	545	broad.mit.edu	37	chr3	142215323	142215323	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttctagctaccctggcactCtgcagccagcattctccaac	6	16	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:142215323C>G	uc003eux.3	-	34	5900	c.5778G>C	c.(5776-5778)CAG>CAC	p.Q1926H		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1926	FAT.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						CCCTGGCACTCTGCAGCCAGC	0.473								Other_conserved_DNA_damage_response_genes					27	124	---	---	---	---	PASS	G	142215323	G	G	142215323	3	3	163	1	0	0	0	0	1	0	0	0	1204	912	32	2	2212	2	ATR	3	142215323	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	48603	142215323	55807107	337	57672										
ATR	545	broad.mit.edu	37	chr3	142224118	142224118	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actgactccggccactccatCaggttcatgcatagcagcat	8	14	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:142224118C>G	uc003eux.3	-	29	5181	c.5059G>C	c.(5059-5061)GAT>CAT	p.D1687H		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1687	FAT.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						GCCACTCCATCAGGTTCATGC	0.388								Other_conserved_DNA_damage_response_genes					145	376	---	---	---	---	PASS	G	142224118	G	G	142224118	3	3	163	1	0	0	0	0	1	0	0	0	1204	826	29	2	2951	2	ATR	3	142224118	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	8795	142224118	55798312	338	57673										
SCHIP1	29970	broad.mit.edu	37	chr3	158980417	158980417	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtccccaccctctgtctcctCagagaagctgagcagctctg	9	16	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:158980417C>G	uc003fcq.1	+	4	341	c.236C>G	c.(235-237)TCA>TGA	p.S79*	SCHIP1_uc003fcr.1_5'UTR|IQCJ_uc003fco.2_Nonsense_Mutation_p.S79*|IQCJ_uc010hvy.1_Nonsense_Mutation_p.S52*|IQCJ_uc003fcp.1_Nonsense_Mutation_p.S79*	NM_014575	NP_055390	Q9P0W5	SCHI1_HUMAN	schwannomin interacting protein 1	Error:Variant_position_missing_in_Q9P0W5_after_alignment						cytoplasm	identical protein binding|protein binding			ovary(1)|central_nervous_system(1)	2			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			TCTGTCTCCTCAGAGAAGCTG	0.532													10	199	---	---	---	---	PASS	G	158980417	G	G	158980417	4	3	163	1	0	0	0	0	0	1	0	0	13904	838	29	2		2	SCHIP1	3	158980417	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	16756299	158980417	39042013	339	57674										
SMC4	10051	broad.mit.edu	37	chr3	160132222	160132222	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttacacagctagatttggaaGatgttcaagttagagaaaag	10	4	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:160132222G>C	uc003fdh.2	+	9	1302	c.1189G>C	c.(1189-1191)GAT>CAT	p.D397H	IFT80_uc003fda.2_Intron|SMC4_uc003fdf.1_RNA|SMC4_uc003fdg.1_Missense_Mutation_p.D397H|SMC4_uc010hwc.1_Missense_Mutation_p.D161H|SMC4_uc003fdi.2_Missense_Mutation_p.D372H|SMC4_uc003fdj.2_Missense_Mutation_p.D397H|SMC4_uc010hwd.2_Missense_Mutation_p.D397H|SMC4_uc003fdl.2_Missense_Mutation_p.D100H	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	397	Potential.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			AGATTTGGAAGATGTTCAAGT	0.284													14	115	---	---	---	---	PASS	C	160132222	C	C	160132222	3	2	163	1	0	0	0	0	1	0	0	0	14785	942	33	2	1219	2	SMC4	3	160132222	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1151805	160132222	37890208	340	57675										
PDCD10	11235	broad.mit.edu	37	chr3	167413428	167413428	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgtcattgatctcatctggGatcttactgagaatttgttt	8	7	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:167413428G>A	uc003fex.2	-	6	749	c.351C>T	c.(349-351)ATC>ATT	p.I117I	PDCD10_uc003fez.2_Silent_p.I117I|PDCD10_uc003fey.2_Silent_p.I117I	NM_007217	NP_009148	Q9BUL8	PDC10_HUMAN	programmed cell death 10	117					angiogenesis|apoptosis|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of MAP kinase activity	cytosol|Golgi membrane|plasma membrane	protein homodimerization activity|protein N-terminus binding			lung(1)|central_nervous_system(1)	2						TCTCATCTGGGATCTTACTGA	0.358									Familial_Cerebral_Cavernous_Angioma				77	266	---	---	---	---	PASS	A	167413428	A	A	167413428	2	1	163	1	0	0	0	0	0	0	0	1	11616	1164	41	2		2	PDCD10	3	167413428	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	7281206	167413428	30609002	341	57676										
SLC7A14	57709	broad.mit.edu	37	chr3	170219054	170219054	+	Nonsense_Mutation	SNP	C	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aatgaaaaatgccacaaattCcccaacagtgacatagctgt							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:170219054C>A	uc003fgz.2	-	3	701	c.385G>T	c.(385-387)GAA>TAA	p.E129*	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	129	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			GCCACAAATTCCCCAACAGTG	0.527													5	49	---	---	---	---	PASS	A	170219054	A	A	170219054	4	1	163	1	0	0	0	0	0	1	0	0	14696	864	30	2	1954	2	SLC7A14	3	170219054	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2805626	170219054	27803376	342	57677	1027	2								
SLC7A14	57709	broad.mit.edu	37	chr3	170219055	170219055	+	Silent	SNP	C	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgaaaaatgccacaaattcCccaacagtgacatagctgta							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:170219055C>A	uc003fgz.2	-	3	700	c.384G>T	c.(382-384)GGG>GGT	p.G128G	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	128	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			CCACAAATTCCCCAACAGTGA	0.527													5	50	---	---	---	---	PASS	A	170219055	A	A	170219055	2	1	163	1	0	0	0	0	0	0	0	1	14696	610	22	3		3	SLC7A14	3	170219055	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1	170219055	27803375	343	57678	1027	2								
NAALADL2	254827	broad.mit.edu	37	chr3	175520973	175520973	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttgatgtgttcaagagtgtCttggatgggaagaattgaga	14	3	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:175520973C>G	uc003fit.2	+	14	2457	c.2370C>G	c.(2368-2370)GTC>GTG	p.V790V		NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	790	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		TCAAGAGTGTCTTGGATGGGA	0.378													12	63	---	---	---	---	PASS	G	175520973	G	G	175520973	2	3	163	1	0	0	0	0	0	0	0	1	10130	900	32	2		2	NAALADL2	3	175520973	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	5301918	175520973	22501457	344	57679										
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcctctctctgaaatcactGagcaggagaaagattttcta	7	9	4	4	rs104886003		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			11	100	---	---	---	---	PASS	A	178936091	A	A	178936091	3	1	163	1	0	0	0	0	1	0	0	0	11913	1291	45	2	1667	2	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3415118	178936091	19086339	345	57680										
PEX5L	51555	broad.mit.edu	37	chr3	179537695	179537695	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gttctgggcttcttggttctCagatatccagttcctccgag	10	11	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:179537695C>G	uc003fki.1	-	9	1022	c.892G>C	c.(892-894)GAG>CAG	p.E298Q	PEX5L_uc011bqd.1_Missense_Mutation_p.E255Q|PEX5L_uc011bqe.1_Missense_Mutation_p.E106Q|PEX5L_uc011bqf.1_Missense_Mutation_p.E190Q|PEX5L_uc003fkj.1_Missense_Mutation_p.E263Q|PEX5L_uc010hxd.1_Missense_Mutation_p.E296Q|PEX5L_uc011bqg.1_Missense_Mutation_p.E274Q|PEX5L_uc011bqh.1_Missense_Mutation_p.E239Q	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	298					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			TCTTGGTTCTCAGATATCCAG	0.438													6	188	---	---	---	---	PASS	G	179537695	G	G	179537695	3	3	163	1	0	0	0	0	1	0	0	0	11749	835	29	2	1016	2	PEX5L	3	179537695	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	601604	179537695	18484735	346	57681										
MCF2L2	23101	broad.mit.edu	37	chr3	182925608	182925608	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttgcctagttttccaatatCgtccttttggaaacacacat	5	11	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:182925608C>A	uc003fli.1	-	23	2590	c.2500G>T	c.(2500-2502)GAT>TAT	p.D834Y		NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	834	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TTTCCAATATCGTCCTTTTGG	0.388													10	71	---	---	---	---	PASS	A	182925608	A	A	182925608	3	1	163	1	0	0	0	0	1	0	0	0	9380	884	31	2	876	2	MCF2L2	3	182925608	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3387913	182925608	15096822	347	57682										
C3orf59	151963	broad.mit.edu	37	chr3	192516720	192516720	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgatggctttgcaggcctGataggcctgcatgaggctgc	15	9	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:192516720G>C	uc011bsp.1	-	2	1252	c.931C>G	c.(931-933)CAG>GAG	p.Q311E		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	311											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		TTGCAGGCCTGATAGGCCTGC	0.557													7	85	---	---	---	---	PASS	C	192516720	C	C	192516720	3	2	163	1	0	0	0	0	1	0	0	0	2237	1299	45	2	548	2	C3orf59	3	192516720	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	9591112	192516720	5505710	348	57683										
LRRC33	375387	broad.mit.edu	37	chr3	196386967	196386967	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acggaggacatggcagccctCatgctccagaacctctcctc	9	16	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr3:196386967C>T	uc003fwv.2	+	3	557	c.453C>T	c.(451-453)CTC>CTT	p.L151L		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	151	Extracellular (Potential).|LRR 4.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		TGGCAGCCCTCATGCTCCAGA	0.672													7	37	---	---	---	---	PASS	T	196386967	T	T	196386967	2	4	163	1	0	0	0	0	0	0	0	1	8988	813	29	2		2	LRRC33	3	196386967	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	3870247	196386967	1635463	349	57684										
KIAA1530	57654	broad.mit.edu	37	chr4	1341946	1341946	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagaaccccgactaaatcctGagaaaatgaaggaactgaag	10	8	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:1341946G>C	uc003gde.3	+	2	514	c.67G>C	c.(67-69)GAG>CAG	p.E23Q		NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	23											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			ACTAAATCCTGAGAAAATGAA	0.443													37	194	---	---	---	---	PASS	C	1341946	C	C	1341946	3	2	163	1	0	0	0	0	1	0	0	0	8241	1291	45	2	69	2	KIAA1530	4	1341946	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08		1341946	189812330	350	57685										
PDS5A	23244	broad.mit.edu	37	chr4	39904022	39904022	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atataagcatttcattctctCttctgtttccaggttgtggg	8	8	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:39904022C>T	uc003guv.3	-	13	1984	c.1444G>A	c.(1444-1446)GAG>AAG	p.E482K	PDS5A_uc010ifo.2_Missense_Mutation_p.E442K|PDS5A_uc003guw.3_Missense_Mutation_p.E482K	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	482					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						TTCATTCTCTCTTCTGTTTCC	0.333													8	56	---	---	---	---	PASS	T	39904022	T	T	39904022	3	4	163	1	0	0	0	0	1	0	0	0	11691	922	32	2	2686	2	PDS5A	4	39904022	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	38562076	39904022	151250254	351	57686										
RBM47	54502	broad.mit.edu	37	chr4	40438646	40438646	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgccagctgcacctcgccctCggcctcttatgctgcctgct	9	18	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:40438646C>G	uc003gvc.2	-	5	1852	c.1142G>C	c.(1141-1143)CGA>CCA	p.R381P	RBM47_uc003gvd.2_Intron|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Missense_Mutation_p.R343P	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	381						nucleus	nucleotide binding|RNA binding			breast(3)	3						ACCTCGCCCTCGGCCTCTTAT	0.552													45	202	---	---	---	---	PASS	G	40438646	G	G	40438646	3	3	163	1	0	0	0	0	1	0	0	0	13141	884	31	2	651	2	RBM47	4	40438646	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	534624	40438646	150715630	352	57687										
LIMCH1	22998	broad.mit.edu	37	chr4	41648662	41648662	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggaaagaagccattcaacaGagccaaatttatcctccttc	6	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:41648662G>C	uc003gvu.3	+	12	1471	c.1417G>C	c.(1417-1419)GAG>CAG	p.E473Q	LIMCH1_uc003gvv.3_Missense_Mutation_p.E473Q|LIMCH1_uc003gvw.3_Missense_Mutation_p.E473Q|LIMCH1_uc003gvx.3_Missense_Mutation_p.E461Q|LIMCH1_uc003gwe.3_Missense_Mutation_p.E473Q|LIMCH1_uc003gvy.3_Missense_Mutation_p.E302Q|LIMCH1_uc003gwa.3_Missense_Mutation_p.E314Q|LIMCH1_uc003gvz.3_Missense_Mutation_p.E858Q|LIMCH1_uc011byu.1_Missense_Mutation_p.E307Q|LIMCH1_uc003gwc.3_Missense_Mutation_p.E319Q|LIMCH1_uc003gwd.3_Missense_Mutation_p.E307Q|LIMCH1_uc011byv.1_Missense_Mutation_p.E224Q	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	473					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						CCATTCAACAGAGCCAAATTT	0.478													88	324	---	---	---	---	PASS	C	41648662	C	C	41648662	3	2	163	1	0	0	0	0	1	0	0	0	8797	943	33	2	1491	2	LIMCH1	4	41648662	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1210016	41648662	149505614	353	57688										
TMEM33	55161	broad.mit.edu	37	chr4	41956198	41956198	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attgcctttataagcagattGgcaccaacagttccatagtt	7	9	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:41956198G>A	uc003gwi.2	+	7	1091	c.726G>A	c.(724-726)TTG>TTA	p.L242L	TMEM33_uc010ifw.2_RNA	NM_018126	NP_060596	P57088	TMM33_HUMAN	transmembrane protein 33	242						integral to membrane|melanosome	protein binding			ovary(1)	1						TAAGCAGATTGGCACCAACAG	0.388													47	159	---	---	---	---	PASS	A	41956198	A	A	41956198	2	1	163	1	0	0	0	0	0	0	0	1	16153	1339	47	3		3	TMEM33	4	41956198	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	307536	41956198	149198078	354	57689										
KCTD8	386617	broad.mit.edu	37	chr4	44450335	44450335	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcgagaacatgctggccaaaGtactgtccgggacgctgagc	14	11	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:44450335G>T	uc003gwu.2	-	1	490	c.206C>A	c.(205-207)ACT>AAT	p.T69N		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	69	BTB.					cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						GCTGGCCAAAGTACTGTCCGG	0.552										HNSCC(17;0.042)			5	10	---	---	---	---	PASS	T	44450335	T	T	44450335	3	4	163	1	0	0	0	0	1	0	0	0	8115	1029	36	3	1223	3	KCTD8	4	44450335	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2494137	44450335	146703941	355	57690										
CNGA1	1259	broad.mit.edu	37	chr4	47938785	47938785	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catgaggtcatcttttgagaGacagaacaggtctgagtagc	12	7	3	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:47938785G>A	uc003gxt.3	-	11	1992	c.1726C>T	c.(1726-1728)CTC>TTC	p.L576F	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.L645F	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	576	cGMP (Potential).|Cytoplasmic (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						TCTTTTGAGAGACAGAACAGG	0.418													95	142	---	---	---	---	PASS	A	47938785	A	A	47938785	3	1	163	1	0	0	0	0	1	0	0	0	3596	942	33	2	350	2	CNGA1	4	47938785	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3488450	47938785	143215491	356	57691										
CNGA1	1259	broad.mit.edu	37	chr4	47939043	47939043	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgcaatttcaagaccaactCcaccaacagaccagcttcac	4	15	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:47939043C>G	uc003gxt.3	-	11	1734	c.1468G>C	c.(1468-1470)GAG>CAG	p.E490Q	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.E559Q	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	490	cGMP (Potential).|Helical; Name=H6; (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						AAGACCAACTCCACCAACAGA	0.408													47	266	---	---	---	---	PASS	G	47939043	G	G	47939043	3	3	163	1	0	0	0	0	1	0	0	0	3596	864	30	2	608	2	CNGA1	4	47939043	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	258	47939043	143215233	357	57692										
EXOC1	55763	broad.mit.edu	37	chr4	56744117	56744117	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcgactcttgcccaacactCtgttgaactgactttaccca	5	14	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:56744117C>G	uc003hbe.1	+	9	1267	c.1109C>G	c.(1108-1110)TCT>TGT	p.S370C	EXOC1_uc003hbf.1_Missense_Mutation_p.S370C|EXOC1_uc003hbg.1_Missense_Mutation_p.S370C	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	370					exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					GCCCAACACTCTGTTGAACTG	0.358													3	130	---	---	---	---	PASS	G	56744117	G	G	56744117	3	3	163	1	0	0	0	0	1	0	0	0	5301	913	32	2	1139	2	EXOC1	4	56744117	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	8805074	56744117	134410159	358	57693										
KIAA1211	57482	broad.mit.edu	37	chr4	57181915	57181915	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaaagcatacgaaaaagaccCatgctgggacccagcgaaga	11	10	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:57181915C>A	uc003hbk.2	+	8	2638	c.2247C>A	c.(2245-2247)CCC>CCA	p.P749P	KIAA1211_uc010iha.2_Silent_p.P742P|KIAA1211_uc011bzz.1_Silent_p.P659P|KIAA1211_uc003hbm.1_Silent_p.P635P	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	749										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					GAAAAAGACCCATGCTGGGAC	0.582													28	43	---	---	---	---	PASS	A	57181915	A	A	57181915	2	1	163	1	0	0	0	0	0	0	0	1	8215	581	21	3		3	KIAA1211	4	57181915	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	437798	57181915	133972361	359	57694										
REST	5978	broad.mit.edu	37	chr4	57797315	57797315	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaaggaacctgttaagatagAgctgtctcctcccatagagg	11	9	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:57797315A>T	uc003hch.2	+	4	2638	c.2291A>T	c.(2290-2292)GAG>GTG	p.E764V	REST_uc003hci.2_Missense_Mutation_p.E764V|REST_uc010ihf.2_Missense_Mutation_p.E438V	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	764	Pro-rich.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding	p.M753_P768delMEVVQKEPVKIELSPP(1)		skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					GTTAAGATAGAGCTGTCTCCT	0.562													226	368	---	---	---	---	PASS	T	57797315	T	T	57797315	3	4	163	1	0	0	0	0	1	0	0	0	13234	304	11	5	2301	5	REST	4	57797315	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	615400	57797315	133356961	360	57695										
TMPRSS11B	132724	broad.mit.edu	37	chr4	69100194	69100194	+	Silent	SNP	G	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caaatacccatgagtttaatGgaagcaggaactgcattcca							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:69100194G>A	uc003hdw.3	-	5	592	c.456C>T	c.(454-456)TCC>TCT	p.S152S		NM_182502	NP_872308	Q86T26	TM11B_HUMAN	transmembrane protease, serine 11B	152	SEA.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						TGAGTTTAATGGAAGCAGGAA	0.328													50	97	---	---	---	---	PASS	A	69100194	A	A	69100194	2	1	163	1	0	0	0	0	0	0	0	1	16237	1335	47	3		3	TMPRSS11B	4	69100194	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	11302879	69100194	122054082	361	57696	1028	2								
TMPRSS11B	132724	broad.mit.edu	37	chr4	69100195	69100195	+	Missense_Mutation	SNP	G	T	T													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaatacccatgagtttaatgGaagcaggaactgcattccag							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:69100195G>T	uc003hdw.3	-	5	591	c.455C>A	c.(454-456)TCC>TAC	p.S152Y		NM_182502	NP_872308	Q86T26	TM11B_HUMAN	transmembrane protease, serine 11B	152	SEA.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						GAGTTTAATGGAAGCAGGAAC	0.328													50	96	---	---	---	---	PASS	T	69100195	T	T	69100195	3	4	163	1	0	0	0	0	1	0	0	0	16237	1174	41	2	819	2	TMPRSS11B	4	69100195	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1	69100195	122054081	362	57697	1028	2								
ADAMTS3	9508	broad.mit.edu	37	chr4	73178020	73178020	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctactcacggtcaggatgttCatatggcaaccagtggtgtt	11	9	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:73178020C>T	uc003hgk.1	-	13	1946	c.1909G>A	c.(1909-1911)GAA>AAA	p.E637K	ADAMTS3_uc003hgl.2_5'Flank	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	637	Cys-rich.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCAGGATGTTCATATGGCAAC	0.488													31	138	---	---	---	---	PASS	T	73178020	T	T	73178020	3	4	163	1	0	0	0	0	1	0	0	0	267	835	29	2	1748	2	ADAMTS3	4	73178020	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4077825	73178020	117976256	363	57698										
AFP	174	broad.mit.edu	37	chr4	74318154	74318154	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gacacttatgtatcagacatGaaatgactccagtaaaccct	6	10	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:74318154G>A	uc003hgz.1	+	12	1512	c.1465G>A	c.(1465-1467)GAA>AAA	p.E489K	AFP_uc003hha.1_Missense_Mutation_p.E489K|AFP_uc011cbg.1_Missense_Mutation_p.E263K	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	489	Albumin 3.				transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TATCAGACATGAAATGACTCC	0.433									Alpha-Fetoprotein_Hereditary_Persistence_of				23	92	---	---	---	---	PASS	A	74318154	A	A	74318154	3	1	163	1	0	0	0	0	1	0	0	0	363	1291	45	2	1511	2	AFP	4	74318154	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1140134	74318154	116836122	364	57699										
MRPL1	65008	broad.mit.edu	37	chr4	78871002	78871002	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atctgcaagcagttattaatGaagtttgtaggcacagaccg	10	7	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:78871002G>C	uc003hku.2	+	8	1027	c.829G>C	c.(829-831)GAA>CAA	p.E277Q	MRPL1_uc010iji.1_Intron	NM_020236	NP_064621	Q9BYD6	RM01_HUMAN	mitochondrial ribosomal protein L1 precursor	277							RNA binding				0						AGTTATTAATGAAGTTTGTAG	0.358													4	128	---	---	---	---	PASS	C	78871002	C	C	78871002	3	2	163	1	0	0	0	0	1	0	0	0	9774	1291	45	2	859	2	MRPL1	4	78871002	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4552848	78871002	112283274	365	57700										
COPS4	51138	broad.mit.edu	37	chr4	83978197	83978197	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagcatcgttgcttcagaatGaatcaaccaatgaacaatta	7	8	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:83978197G>A	uc003hoa.2	+	5	668	c.529G>A	c.(529-531)GAA>AAA	p.E177K	COPS4_uc003hob.2_Missense_Mutation_p.E177K|COPS4_uc010ijw.2_Missense_Mutation_p.E177K|COPS4_uc010ijx.2_Missense_Mutation_p.E177K	NM_016129	NP_057213	Q9BT78	CSN4_HUMAN	COP9 signalosome subunit 4	177					cullin deneddylation	cytoplasm|signalosome	protein binding			kidney(1)	1		Hepatocellular(203;0.114)				GCTTCAGAATGAATCAACCAA	0.363													69	92	---	---	---	---	PASS	A	83978197	A	A	83978197	3	1	163	1	0	0	0	0	1	0	0	0	3735	1291	45	2	547	2	COPS4	4	83978197	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5107195	83978197	107176079	366	57701										
WDFY3	23001	broad.mit.edu	37	chr4	85611771	85611771	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggggttggggcagattgcaCagagaatctggccccactca	14	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:85611771C>A	uc003hpd.2	-	61	9659	c.9251G>T	c.(9250-9252)TGT>TTT	p.C3084F		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	3084	WD 1.					cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		GCAGATTGCACAGAGAATCTG	0.493													25	59	---	---	---	---	PASS	A	85611771	A	A	85611771	3	1	163	1	0	0	0	0	1	0	0	0	17267	478	17	3	1361	3	WDFY3	4	85611771	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1633574	85611771	105542505	367	57702										
HERC6	55008	broad.mit.edu	37	chr4	89352393	89352393	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgtatgtttgaagagatgaCcaagccagaatatggaatgt	11	5	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:89352393C>G	uc011cdi.1	+	17	2369	c.2186C>G	c.(2185-2187)ACC>AGC	p.T729S	HERC6_uc011cdj.1_Missense_Mutation_p.T693S|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	729	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		GAAGAGATGACCAAGCCAGAA	0.393													46	233	---	---	---	---	PASS	G	89352393	G	G	89352393	3	3	163	1	0	0	0	0	1	0	0	0	7062	507	18	4	2049	4	HERC6	4	89352393	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3740622	89352393	101801883	368	57703										
FAM13A	10144	broad.mit.edu	37	chr4	89668850	89668850	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cctctgaatagattccaatgTggcttcaacactgggcttta	8	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:89668850T>C	uc003hse.1	-	18	2522	c.2314A>G	c.(2314-2316)ACA>GCA	p.T772A	FAM13A_uc003hsa.1_Missense_Mutation_p.T243A|FAM13A_uc003hsb.1_Missense_Mutation_p.T446A|FAM13A_uc003hsd.1_Missense_Mutation_p.T446A|FAM13A_uc003hsc.1_Missense_Mutation_p.T432A|FAM13A_uc011cdq.1_Missense_Mutation_p.T418A|FAM13A_uc003hsf.1_Missense_Mutation_p.T358A|FAM13A_uc003hsg.1_Missense_Mutation_p.T243A	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	772					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						GATTCCAATGTGGCTTCAACA	0.478													50	223	---	---	---	---	PASS	C	89668850	C	C	89668850	3	2	163	1	0	0	0	0	1	0	0	0	5452	1696	59	5	785	5	FAM13A	4	89668850	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	316457	89668850	101485426	369	57704										
PDHA2	5161	broad.mit.edu	37	chr4	96762179	96762179	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttatcatggacacagtatgaGtgatcctggagtcagttatc	10	7	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:96762179G>C	uc003htr.3	+	1	941	c.878G>C	c.(877-879)AGT>ACT	p.S293T		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	293					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	CACAGTATGAGTGATCCTGGA	0.423													28	60	---	---	---	---	PASS	C	96762179	C	C	96762179	3	2	163	1	0	0	0	0	1	0	0	0	11665	1029	36	4	880	4	PDHA2	4	96762179	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	7093329	96762179	94392097	370	57705										
TACR3	6870	broad.mit.edu	37	chr4	104512829	104512829	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtcatgacaacaataatcatCattttgacaacctataaaga	4	8	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:104512829C>G	uc003hxe.1	-	4	1043	c.900G>C	c.(898-900)ATG>ATC	p.M300I		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	300	Helical; Name=6; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		CAATAATCATCATTTTGACAA	0.308													12	45	---	---	---	---	PASS	G	104512829	G	G	104512829	3	3	163	1	0	0	0	0	1	0	0	0	15504	826	29	2	505	2	TACR3	4	104512829	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	7750650	104512829	86641447	371	57706										
UGT8	7368	broad.mit.edu	37	chr4	115597237	115597237	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atctccttttgtcagtatttTttactggatattgcctttgt	6	7	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:115597237T>G	uc003ibs.2	+	6	1941	c.1419T>G	c.(1417-1419)TTT>TTG	p.F473L	UGT8_uc003ibt.2_Missense_Mutation_p.F473L|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	473	Helical; (Potential).				central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		GTCAGTATTTTTTACTGGATA	0.383													42	160	---	---	---	---	PASS	G	115597237	G	G	115597237	3	3	163	1	0	0	0	0	1	0	0	0	16962	1838	64	5	1437	5	UGT8	4	115597237	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	11084408	115597237	75557039	372	57707										
TNIP3	79931	broad.mit.edu	37	chr4	122082298	122082298	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atttctaagttacctcttttCtttgtttttccaaacacctt	2	10	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:122082298C>T	uc010ing.2	-	2	336	c.140G>A	c.(139-141)AGA>AAA	p.R47K	TNIP3_uc010inh.2_Missense_Mutation_p.R47K|TNIP3_uc011cgj.1_Missense_Mutation_p.R105K|TNIP3_uc010ini.2_Missense_Mutation_p.R47K	NM_024873	NP_079149	Q96KP6	TNIP3_HUMAN	TNFAIP3 interacting protein 3	47	Potential.									ovary(1)	1						TACCTCTTTTCTTTGTTTTTC	0.313													4	23	---	---	---	---	PASS	T	122082298	T	T	122082298	3	4	163	1	0	0	0	0	1	0	0	0	16313	913	32	2	877	2	TNIP3	4	122082298	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6485061	122082298	69071978	373	57708										
KIAA1109	84162	broad.mit.edu	37	chr4	123179939	123179939	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggacctgtaactggagctGagataatgaggaaactttct	11	7	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:123179939G>C	uc003ieh.2	+	40	6748	c.6703G>C	c.(6703-6705)GAG>CAG	p.E2235Q	KIAA1109_uc003iel.1_Missense_Mutation_p.E170Q|KIAA1109_uc003iek.2_Missense_Mutation_p.E854Q	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2235					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AACTGGAGCTGAGATAATGAG	0.403													29	107	---	---	---	---	PASS	C	123179939	C	C	123179939	3	2	163	1	0	0	0	0	1	0	0	0	8208	1291	45	2	6861	2	KIAA1109	4	123179939	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1097641	123179939	67974337	374	57709										
KIAA1109	84162	broad.mit.edu	37	chr4	123270402	123270402	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catgtctgttggtctgggaaGatcacaattagattctaaag	10	6	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:123270402G>A	uc003ieh.2	+	76	13415	c.13370G>A	c.(13369-13371)AGA>AAA	p.R4457K	KIAA1109_uc003iem.2_Missense_Mutation_p.R813K	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4457					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GGTCTGGGAAGATCACAATTA	0.413													5	107	---	---	---	---	PASS	A	123270402	A	A	123270402	3	1	163	1	0	0	0	0	1	0	0	0	8208	942	33	2	13672	2	KIAA1109	4	123270402	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	90463	123270402	67883874	375	57710										
FAT4	79633	broad.mit.edu	37	chr4	126241507	126241507	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaaaatgacaataccccttCtttccctaaatcaacactct	2	13	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:126241507C>G	uc003ifj.3	+	1	3941	c.3941C>G	c.(3940-3942)TCT>TGT	p.S1314C		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1314	Cadherin 12.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AATACCCCTTCTTTCCCTAAA	0.373													41	177	---	---	---	---	PASS	G	126241507	G	G	126241507	3	3	163	1	0	0	0	0	1	0	0	0	5692	913	32	2	3943	2	FAT4	4	126241507	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2971105	126241507	64912769	376	57711										
SCLT1	132320	broad.mit.edu	37	chr4	129891542	129891542	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atagaaaataccttctttttCatctgtccctgcagatcttc	4	11	4	2	rs141863899	byFrequency	TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:129891542C>T	uc003igp.2	-	10	1274	c.768G>A	c.(766-768)ATG>ATA	p.M256I	SCLT1_uc003ign.2_5'UTR|SCLT1_uc003igo.2_5'UTR|SCLT1_uc003igq.2_Intron|SCLT1_uc010iob.1_Intron	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	256	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						CCTTCTTTTTCATCTGTCCCT	0.328													17	72	---	---	---	---	PASS	T	129891542	T	T	129891542	3	4	163	1	0	0	0	0	1	0	0	0	13906	826	29	2	1346	2	SCLT1	4	129891542	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3650035	129891542	61262734	377	57712										
PCDH10	57575	broad.mit.edu	37	chr4	134073056	134073056	+	Silent	SNP	T	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgcaacgggactccagcgcgTgaggtgctgccccgctcggc							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:134073056T>A	uc003iha.2	+	1	2587	c.1761T>A	c.(1759-1761)CGT>CGA	p.R587R	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.R587R	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	587	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CTCCAGCGCGTGAGGTGCTGC	0.662													8	53	---	---	---	---	PASS	A	134073056	A	A	134073056	2	1	163	1	0	0	0	0	0	0	0	1	11507	1683	59	5		5	PCDH10	4	134073056	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	4181514	134073056	57081220	378	57713	1029	2								
PCDH10	57575	broad.mit.edu	37	chr4	134073059	134073059	+	Missense_Mutation	SNP	G	T	T													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aacgggactccagcgcgtgaGgtgctgccccgctcggcgga							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:134073059G>T	uc003iha.2	+	1	2590	c.1764G>T	c.(1762-1764)GAG>GAT	p.E588D	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.E588D	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	588	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CAGCGCGTGAGGTGCTGCCCC	0.662													8	53	---	---	---	---	PASS	T	134073059	T	T	134073059	3	4	163	1	0	0	0	0	1	0	0	0	11507	991	35	3	1766	3	PCDH10	4	134073059	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3	134073059	57081217	379	57714	1029	2								
OTUD4	54726	broad.mit.edu	37	chr4	146080657	146080657	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttaggatttcattcttacttGcaactgtcatcctctgaatc	5	10	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:146080657G>C	uc003ika.3	-	7	570	c.432C>G	c.(430-432)TGC>TGG	p.C144W	OTUD4_uc003ijz.3_Missense_Mutation_p.C144W|OTUD4_uc003ikb.3_Missense_Mutation_p.C144W	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	209							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					ATTCTTACTTGCAACTGTCAT	0.303													80	177	---	---	---	---	PASS	C	146080657	C	C	146080657	3	2	163	1	0	0	0	0	1	0	0	0	11314	1311	46	4	2781	4	OTUD4	4	146080657	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	12007598	146080657	45073619	380	57715										
EDNRA	1909	broad.mit.edu	37	chr4	148453689	148453689	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgcctcctggagtcgtgttCagggaattgggattcctttg	13	8	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:148453689C>T	uc003iky.2	+	4	1272	c.580C>T	c.(580-582)CAG>TAG	p.Q194*	EDNRA_uc011cid.1_5'UTR|EDNRA_uc010ipe.1_Missense_Mutation_p.S151L|EDNRA_uc010ipf.1_Intron|EDNRA_uc010ipg.1_Intron	NM_001957	NP_001948	P25101	EDNRA_HUMAN	endothelin receptor type A isoform a precursor	194	Cytoplasmic (Potential).				activation of adenylate cyclase activity|artery smooth muscle contraction|cell proliferation|glucose transport|respiratory gaseous exchange	integral to plasma membrane	endothelin-A receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|breast(1)	2	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.154)	Bosentan(DB00559)	GAGTCGTGTTCAGGGAATTGG	0.408													65	234	---	---	---	---	PASS	T	148453689	T	T	148453689	4	4	163	1	0	0	0	0	0	1	0	0	4919	827	29	2	590	2	EDNRA	4	148453689	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2373032	148453689	42700587	381	57716										
SH3D19	152503	broad.mit.edu	37	chr4	152054354	152054354	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caactcatccttctgctctcCaatatattcaaaccgagcaa	3	14	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:152054354C>A	uc010ipl.1	-	17	2840	c.1750G>T	c.(1750-1752)GGA>TGA	p.G584*	SH3D19_uc003imb.2_Nonsense_Mutation_p.G339*|SH3D19_uc003imc.2_Nonsense_Mutation_p.G525*|SH3D19_uc003ime.2_Nonsense_Mutation_p.G561*|SH3D19_uc010ipm.2_Nonsense_Mutation_p.G561*	NM_001009555	NP_001009555	Q5HYK7	SH319_HUMAN	SH3 domain containing 19 isoform a	584	SH3 3.				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)				TTCTGCTCTCCAATATATTCA	0.388													4	133	---	---	---	---	PASS	A	152054354	A	A	152054354	4	1	163	1	0	0	0	0	0	1	0	0	14249	603	21	3	642	3	SH3D19	4	152054354	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3600665	152054354	39099922	382	57717										
DCHS2	54798	broad.mit.edu	37	chr4	155249247	155249247	+	Missense_Mutation	SNP	G	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgaacagtaagttttacctGaagatactgagtatgtaact							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:155249247G>A	uc003inw.2	-	12	2651	c.2651C>T	c.(2650-2652)TCA>TTA	p.S884L	DCHS2_uc003inx.2_Missense_Mutation_p.S1339L	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	884	Cadherin 7.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AGTTTTACCTGAAGATACTGA	0.358													24	121	---	---	---	---	PASS	A	155249247	A	A	155249247	3	1	163	1	0	0	0	0	1	0	0	0	4288	1294	45	2	6251	2	DCHS2	4	155249247	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3194893	155249247	35905029	383	57718	1030	2								
DCHS2	54798	broad.mit.edu	37	chr4	155249256	155249256	+	Nonsense_Mutation	SNP	G	C	C													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagttttacctgaagatactGagtatgtaacttctgcatta							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:155249256G>C	uc003inw.2	-	12	2642	c.2642C>G	c.(2641-2643)TCA>TGA	p.S881*	DCHS2_uc003inx.2_Nonsense_Mutation_p.S1336*	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	881	Cadherin 7.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TGAAGATACTGAGTATGTAAC	0.358													24	141	---	---	---	---	PASS	C	155249256	C	C	155249256	4	2	163	1	0	0	0	0	0	1	0	0	4288	1294	45	2	6260	2	DCHS2	4	155249256	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	9	155249256	35905020	384	57719	1030	2								
FGB	2244	broad.mit.edu	37	chr4	155490729	155490729	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgggacccacagaactttTgatagaaatggaggactgga	13	6	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:155490729T>C	uc003ioa.3	+	7	1061	c.1022T>C	c.(1021-1023)TTG>TCG	p.L341S	FGB_uc003iob.3_Intron|FGB_uc010ipv.2_Missense_Mutation_p.L279S|FGB_uc010ipw.2_Intron|FGB_uc003ioc.3_Missense_Mutation_p.L122S	NM_005141	NP_005132	P02675	FIBB_HUMAN	fibrinogen, beta chain preproprotein	341	Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen|soluble fraction	chaperone binding|eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	ACAGAACTTTTGATAGAAATG	0.368													49	71	---	---	---	---	PASS	C	155490729	C	C	155490729	3	2	163	1	0	0	0	0	1	0	0	0	5831	1821	63	5	1048	5	FGB	4	155490729	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	241473	155490729	35663547	385	57720										
C4orf45	152940	broad.mit.edu	37	chr4	159956200	159956200	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttacctgtaaaaatcatttGttttcccacagtagtagatg	6	7	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:159956200G>C	uc003iqf.1	-	1	134	c.49C>G	c.(49-51)CAA>GAA	p.Q17E	C4orf45_uc010iqt.1_Intron	NM_152543	NP_689756	Q96LM5	CD045_HUMAN	hypothetical protein LOC152940	17											0						AAAATCATTTGTTTTCCCACA	0.328													20	24	---	---	---	---	PASS	C	159956200	C	C	159956200	3	2	163	1	0	0	0	0	1	0	0	0	2273	1386	48	4	531	4	C4orf45	4	159956200	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4465471	159956200	31198076	386	57721										
GPM6A	2823	broad.mit.edu	37	chr4	176622910	176622910	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caggcatttgatacagcattCaaaacaccctgtagaagatc	7	10	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:176622910C>G	uc003iuf.2	-	2	850	c.46G>C	c.(46-48)GAA>CAA	p.E16Q	GPM6A_uc011ckj.1_Missense_Mutation_p.E9Q|GPM6A_uc003iug.2_Missense_Mutation_p.E16Q|GPM6A_uc003iuh.2_Missense_Mutation_p.E5Q	NM_201591	NP_963885	P51674	GPM6A_HUMAN	glycoprotein M6A isoform 2	16	Cytoplasmic (Potential).					cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)		ATACAGCATTCAAAACACCCT	0.418													24	123	---	---	---	---	PASS	G	176622910	G	G	176622910	3	3	163	1	0	0	0	0	1	0	0	0	6615	835	29	2	814	2	GPM6A	4	176622910	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	16666710	176622910	14531366	387	57722										
WDR17	116966	broad.mit.edu	37	chr4	177070988	177070988	+	Missense_Mutation	SNP	C	G	G													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccatcccagtcgccccttcaCtatggcctcttgctcccgtg							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:177070988C>G	uc003iuj.2	+	15	2156	c.2000C>G	c.(1999-2001)ACT>AGT	p.T667S	WDR17_uc003iuk.2_Missense_Mutation_p.T643S|WDR17_uc003ium.3_Missense_Mutation_p.T643S|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_5'Flank	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	667	WD 12.									ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		CGCCCCTTCACTATGGCCTCT	0.383													11	291	---	---	---	---	PASS	G	177070988	G	G	177070988	3	3	163	1	0	0	0	0	1	0	0	0	17274	565	20	4	2054	4	WDR17	4	177070988	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	448078	177070988	14083288	388	57723	1031	2								
WDR17	116966	broad.mit.edu	37	chr4	177070997	177070997	+	Missense_Mutation	SNP	C	G	G													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcgccccttcactatggcctCttgctcccgtgactctacag							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:177070997C>G	uc003iuj.2	+	15	2165	c.2009C>G	c.(2008-2010)TCT>TGT	p.S670C	WDR17_uc003iuk.2_Missense_Mutation_p.S646C|WDR17_uc003ium.3_Missense_Mutation_p.S646C|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_5'Flank	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	670	WD 12.									ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		ACTATGGCCTCTTGCTCCCGT	0.368													9	294	---	---	---	---	PASS	G	177070997	G	G	177070997	3	3	163	1	0	0	0	0	1	0	0	0	17274	913	32	2	2063	2	WDR17	4	177070997	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	9	177070997	14083279	389	57724	1031	2								
STOX2	56977	broad.mit.edu	37	chr4	184932482	184932482	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcttgctccaaaagaaaccGacagcagcagcaaccagaga	8	12	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:184932482G>C	uc003ivz.1	+	3	3926	c.2491G>C	c.(2491-2493)GAC>CAC	p.D831H	STOX2_uc003iwa.1_Missense_Mutation_p.D520H	NM_020225	NP_064610	Q9P2F5	STOX2_HUMAN	storkhead box 2	831					embryo development|maternal placenta development						0		all_lung(41;1.89e-12)|Lung NSC(41;3.48e-12)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|all_hematologic(60;0.027)|Prostate(90;0.0283)		all cancers(43;2.85e-26)|Epithelial(43;2.27e-22)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-10)|Colorectal(24;8.23e-06)|GBM - Glioblastoma multiforme(59;1.64e-05)|STAD - Stomach adenocarcinoma(60;3.6e-05)|COAD - Colon adenocarcinoma(29;4.37e-05)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.227)		AAAAGAAACCGACAGCAGCAG	0.557													9	36	---	---	---	---	PASS	C	184932482	C	C	184932482	3	2	163	1	0	0	0	0	1	0	0	0	15319	1058	37	2	2501	2	STOX2	4	184932482	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	7861485	184932482	6221794	390	57725										
KLKB1	3818	broad.mit.edu	37	chr4	187173216	187173216	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cattgttggaggaacaaactCttcttggggagagtggccct	13	8	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:187173216C>G	uc003iyy.2	+	11	1261	c.1190C>G	c.(1189-1191)TCT>TGT	p.S397C	KLKB1_uc011clc.1_Missense_Mutation_p.S195C|KLKB1_uc011cld.1_Missense_Mutation_p.S359C	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	397	Peptidase S1.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		GGAACAAACTCTTCTTGGGGA	0.517													19	117	---	---	---	---	PASS	G	187173216	G	G	187173216	3	3	163	1	0	0	0	0	1	0	0	0	8412	913	32	2	1228	2	KLKB1	4	187173216	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2240734	187173216	3981060	391	57726										
TRIML2	205860	broad.mit.edu	37	chr4	189020233	189020233	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccacactttttctcaagctCcacgatgagctttaggaggc	8	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr4:189020233C>A	uc003izl.2	-	4	463	c.427G>T	c.(427-429)GAG>TAG	p.E143*	TRIML2_uc003izj.1_5'UTR|TRIML2_uc003izk.1_5'UTR|TRIML2_uc011cle.1_Nonsense_Mutation_p.E193*|TRIML2_uc011clf.1_Nonsense_Mutation_p.E193*	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	143	Potential.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		TTCTCAAGCTCCACGATGAGC	0.483													19	134	---	---	---	---	PASS	A	189020233	A	A	189020233	4	1	163	1	0	0	0	0	0	1	0	0	16548	864	30	2	752	2	TRIML2	4	189020233	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1847017	189020233	2134043	392	57727										
ADAMTS16	170690	broad.mit.edu	37	chr5	5200278	5200278	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catgatggagaagggaacatGtgcaaaaagtccgagggcaa	14	6	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:5200278G>T	uc003jdl.2	+	9	1485	c.1347G>T	c.(1345-1347)ATG>ATT	p.M449I	ADAMTS16_uc003jdk.1_Missense_Mutation_p.M449I|ADAMTS16_uc003jdj.1_Missense_Mutation_p.M449I	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	449	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						AAGGGAACATGTGCAAAAAGT	0.403													8	62	---	---	---	---	PASS	T	5200278	T	T	5200278	3	4	163	1	0	0	0	0	1	0	0	0	261	1377	48	3	1381	3	ADAMTS16	5	5200278	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08		5200278	175714982	393	57728										
ADCY2	108	broad.mit.edu	37	chr5	7727363	7727363	+	Silent	SNP	C	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcttcattgtgcagattctCgtgctgccaaagtaagtact							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:7727363C>A	uc003jdz.1	+	14	1927	c.1860C>A	c.(1858-1860)CTC>CTA	p.L620L	ADCY2_uc011cmo.1_Silent_p.L440L	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	620	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						TGCAGATTCTCGTGCTGCCAA	0.483													31	140	---	---	---	---	PASS	A	7727363	A	A	7727363	2	1	163	1	0	0	0	0	0	0	0	1	294	871	31	2		2	ADCY2	5	7727363	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	2527085	7727363	173187897	394	57729	1032	2								
ADCY2	108	broad.mit.edu	37	chr5	7727364	7727364	+	Missense_Mutation	SNP	G	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcttcattgtgcagattctcGtgctgccaaagtaagtactt					rs149172094		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:7727364G>A	uc003jdz.1	+	14	1928	c.1861G>A	c.(1861-1863)GTG>ATG	p.V621M	ADCY2_uc011cmo.1_Missense_Mutation_p.V441M	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	621	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						GCAGATTCTCGTGCTGCCAAA	0.483													31	140	---	---	---	---	PASS	A	7727364	A	A	7727364	3	1	163	1	0	0	0	0	1	0	0	0	294	1145	40	1	1915	1	ADCY2	5	7727364	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1	7727364	173187896	395	57730	1032	2								
C5orf49	134121	broad.mit.edu	37	chr5	7835508	7835508	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atattacctcttcgttaacaTgaagtcccaggctttttgca	6	10	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:7835508T>C	uc003jea.3	-	2	381	c.251A>G	c.(250-252)CAT>CGT	p.H84R		NM_001089584	NP_001083053	A4QMS7	CE049_HUMAN	hypothetical protein LOC134121	84											0						TTCGTTAACATGAAGTCCCAG	0.294													56	241	---	---	---	---	PASS	C	7835508	C	C	7835508	3	2	163	1	0	0	0	0	1	0	0	0	2307	1464	51	5	200	5	C5orf49	5	7835508	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	108144	7835508	173079752	396	57731										
MTRR	4552	broad.mit.edu	37	chr5	7900156	7900156	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaagaaaaacgctaccttcaGgatatttggtcataaaacca	7	8	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:7900156G>C	uc003jed.2	+	15	2193	c.2163G>C	c.(2161-2163)CAG>CAC	p.Q721H	MTRR_uc003jee.3_Missense_Mutation_p.Q694H|MTRR_uc003jef.3_RNA|MTRR_uc003jeg.3_RNA|MTRR_uc010ito.2_RNA	NM_024010	NP_076915	Q9UBK8	MTRR_HUMAN	methionine synthase reductase isoform 2	721					methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	GCTACCTTCAGGATATTTGGT	0.338													42	117	---	---	---	---	PASS	C	7900156	C	C	7900156	3	2	163	1	0	0	0	0	1	0	0	0	9961	991	35	4	2221	4	MTRR	5	7900156	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	64648	7900156	173015104	397	57732										
FAM173B	134145	broad.mit.edu	37	chr5	10236624	10236624	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaatataaaatttggcagatCcatgcacaccttctcgccaa	5	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:10236624C>A	uc003jeo.2	-	3	439	c.410G>T	c.(409-411)GGA>GTA	p.G137V	FAM173B_uc003jep.2_RNA|FAM173B_uc010itr.2_Missense_Mutation_p.G137V	NM_199133	NP_954584	Q6P4H8	F173B_HUMAN	hypothetical protein LOC134145	137						integral to membrane				kidney(1)|central_nervous_system(1)	2						TTTGGCAGATCCATGCACACC	0.408													16	157	---	---	---	---	PASS	A	10236624	A	A	10236624	3	1	163	1	0	0	0	0	1	0	0	0	5494	855	30	2	303	2	FAM173B	5	10236624	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2336468	10236624	170678636	398	57733										
CTNND2	1501	broad.mit.edu	37	chr5	11117664	11117664	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttctgcgggcctcctctccGgccgaactaacattcctgca	8	17	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:11117664G>A	uc003jfa.1	-	13	2320	c.2175C>T	c.(2173-2175)GCC>GCT	p.A725A	CTNND2_uc010itt.2_Silent_p.A634A|CTNND2_uc011cmy.1_Silent_p.A388A|CTNND2_uc011cmz.1_Silent_p.A292A|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Silent_p.A292A	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	725				A -> P (in Ref. 1; AAC63103).	multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						CCTCCTCTCCGGCCGAACTAA	0.527													35	107	---	---	---	---	PASS	A	11117664	A	A	11117664	2	1	163	1	0	0	0	0	0	0	0	1	4020	1103	39	1		1	CTNND2	5	11117664	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	881040	11117664	169797596	399	57734										
CDH12	1010	broad.mit.edu	37	chr5	21765088	21765088	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aacaatatttataagataccTgtcctggcttggcattttca	6	8	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:21765088T>A	uc010iuc.2	-	9	1972	c.1514A>T	c.(1513-1515)CAG>CTG	p.Q505L	CDH12_uc011cno.1_Missense_Mutation_p.Q465L|CDH12_uc003jgk.2_Missense_Mutation_p.Q505L|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	505	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						ATAAGATACCTGTCCTGGCTT	0.338										HNSCC(59;0.17)			79	238	---	---	---	---	PASS	A	21765088	A	A	21765088	3	1	163	1	0	0	0	0	1	0	0	0	3098	1594	55	5	886	5	CDH12	5	21765088	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	10647424	21765088	159150172	400	57735										
CDH12	1010	broad.mit.edu	37	chr5	22078562	22078562	+	Missense_Mutation	SNP	A	G	G													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aatacgccattacctttcccAcatactgaggctcggagccc							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:22078562A>G	uc010iuc.2	-	2	682	c.224T>C	c.(223-225)GTG>GCG	p.V75A	CDH12_uc011cno.1_Missense_Mutation_p.V75A|CDH12_uc003jgk.2_Missense_Mutation_p.V75A	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	75	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TACCTTTCCCACATACTGAGG	0.443										HNSCC(59;0.17)			42	114	---	---	---	---	PASS	G	22078562	G	G	22078562	3	3	163	1	0	0	0	0	1	0	0	0	3098	159	6	5	2204	5	CDH12	5	22078562	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	313474	22078562	158836698	401	57736	1033	2								
CDH12	1010	broad.mit.edu	37	chr5	22078567	22078567	+	Missense_Mutation	SNP	C	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccattacctttcccacataCtgaggctcggagcccacgta							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:22078567C>A	uc010iuc.2	-	2	677	c.219G>T	c.(217-219)CAG>CAT	p.Q73H	CDH12_uc011cno.1_Missense_Mutation_p.Q73H|CDH12_uc003jgk.2_Missense_Mutation_p.Q73H	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	73	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TTCCCACATACTGAGGCTCGG	0.448										HNSCC(59;0.17)			47	122	---	---	---	---	PASS	A	22078567	A	A	22078567	3	1	163	1	0	0	0	0	1	0	0	0	3098	564	20	3	2209	3	CDH12	5	22078567	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5	22078567	158836693	402	57737	1033	2								
RNASEN	29102	broad.mit.edu	37	chr5	31468104	31468104	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccaaagtggacgataatcgGaaaagtaatcacatcggggt	11	8	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:31468104G>A	uc003jhg.2	-	17	2667	c.2308C>T	c.(2308-2310)CCG>TCG	p.P770S	RNASEN_uc003jhh.2_Missense_Mutation_p.P733S|RNASEN_uc003jhi.2_Missense_Mutation_p.P733S	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	770	Necessary for interaction with DGCR8 and pri-miRNA processing activity.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						ACGATAATCGGAAAAGTAATC	0.428													10	35	---	---	---	---	PASS	A	31468104	A	A	31468104	3	1	163	1	0	0	0	0	1	0	0	0	13417	1174	41	2	1892	2	RNASEN	5	31468104	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	9389537	31468104	149447156	403	57738										
ADAMTS12	81792	broad.mit.edu	37	chr5	33684141	33684141	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcccgccatagctcttgcttCtgggagatgttaacactgtc	9	12	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:33684141C>G	uc003jia.1	-	4	817	c.654G>C	c.(652-654)CAG>CAC	p.Q218H	ADAMTS12_uc010iuq.1_Missense_Mutation_p.Q218H	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	218					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GCTCTTGCTTCTGGGAGATGT	0.458										HNSCC(64;0.19)			5	70	---	---	---	---	PASS	G	33684141	G	G	33684141	3	3	163	1	0	0	0	0	1	0	0	0	257	912	32	2	4214	2	ADAMTS12	5	33684141	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2216037	33684141	147231119	404	57739										
UGT3A2	167127	broad.mit.edu	37	chr5	36037942	36037942	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catcttaagagccaatgtctCtgccttgagcttctttaact	6	11	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:36037942C>A	uc003jjz.1	-	6	1345	c.1252G>T	c.(1252-1254)GAG>TAG	p.E418*	UGT3A2_uc011cos.1_Nonsense_Mutation_p.E384*|UGT3A2_uc011cot.1_Nonsense_Mutation_p.E116*	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	418	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GCCAATGTCTCTGCCTTGAGC	0.443													47	358	---	---	---	---	PASS	A	36037942	A	A	36037942	4	1	163	1	0	0	0	0	0	1	0	0	16961	922	32	2	327	2	UGT3A2	5	36037942	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2353801	36037942	144877318	405	57740										
SKP2	6502	broad.mit.edu	37	chr5	36168476	36168476	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagaagtgtccaccctccacGgcatactgtctcagtgttcc	8	14	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:36168476G>T	uc003jkc.1	+	5	780	c.598G>T	c.(598-600)GGC>TGC	p.G200C	SKP2_uc011cou.1_Intron|SKP2_uc003jkd.2_Missense_Mutation_p.G200C	NM_005983	NP_005974	Q13309	SKP2_HUMAN	S-phase kinase-associated protein 2 isoform 1	200	LRR 3.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G1/S transition of mitotic cell cycle|S phase of mitotic cell cycle	nucleoplasm|SCF ubiquitin ligase complex	protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4	all_lung(31;5.63e-05)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CACCCTCCACGGCATACTGTC	0.507													141	333	---	---	---	---	PASS	T	36168476	T	T	36168476	3	4	163	1	0	0	0	0	1	0	0	0	14362	1116	39	1	616	1	SKP2	5	36168476	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	130534	36168476	144746784	406	57741										
NIPBL	25836	broad.mit.edu	37	chr5	37048604	37048604	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atttttcccctctcccatagGatttgcctttattcagcatc	4	13	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:37048604G>T	uc003jkl.3	+	39	7089	c.6590G>T	c.(6589-6591)GGA>GTA	p.G2197V	NIPBL_uc003jkk.3_Missense_Mutation_p.G2197V|NIPBL_uc003jkn.2_5'Flank	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	2197					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			TCTCCCATAGGATTTGCCTTT	0.244													38	141	---	---	---	---	PASS	T	37048604	T	T	37048604	3	4	163	1	0	0	0	0	1	0	0	0	10428	1188	41	2	6740	2	NIPBL	5	37048604	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	880128	37048604	143866656	407	57742										
C5orf42	65250	broad.mit.edu	37	chr5	37183312	37183312	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggatattgtaaaaaaggtttGatcccttgattaaccagtac	8	6	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:37183312G>C	uc011cpa.1	-	26	5202	c.4971C>G	c.(4969-4971)ATC>ATG	p.I1657M	C5orf42_uc011coy.1_Missense_Mutation_p.I158M|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.I732M|C5orf42_uc011cpb.1_Missense_Mutation_p.I538M	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1657										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			AAAAAGGTTTGATCCCTTGAT	0.308													12	89	---	---	---	---	PASS	C	37183312	C	C	37183312	3	2	163	1	0	0	0	0	1	0	0	0	2301	1280	45	2	4730	2	C5orf42	5	37183312	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	134708	37183312	143731948	408	57743										
C5orf42	65250	broad.mit.edu	37	chr5	37183337	37183337	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttgattaaccagtactgatGatgaaagtttctggttttct	8	6	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:37183337G>A	uc011cpa.1	-	26	5177	c.4946C>T	c.(4945-4947)TCA>TTA	p.S1649L	C5orf42_uc011coy.1_Missense_Mutation_p.S150L|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.S724L|C5orf42_uc011cpb.1_Missense_Mutation_p.S530L	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1649										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			CAGTACTGATGATGAAAGTTT	0.333													13	104	---	---	---	---	PASS	A	37183337	A	A	37183337	3	1	163	1	0	0	0	0	1	0	0	0	2301	1294	45	2	4755	2	C5orf42	5	37183337	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	25	37183337	143731923	409	57744										
GDNF	2668	broad.mit.edu	37	chr5	37816081	37816081	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctctccgaccttttcctctgGaattctctgggttggcagct	9	13	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:37816081G>C	uc011cpi.1	-	3	508	c.308C>G	c.(307-309)TCC>TGC	p.S103C	GDNF_uc011cpc.1_Missense_Mutation_p.S25C|GDNF_uc011cpd.1_Missense_Mutation_p.S51C|GDNF_uc011cpe.1_Missense_Mutation_p.S77C|GDNF_uc011cpf.1_Missense_Mutation_p.S77C|GDNF_uc011cpg.1_Missense_Mutation_p.S120C|GDNF_uc011cph.1_Missense_Mutation_p.S94C	NM_000514	NP_000505	P39905	GDNF_HUMAN	glial cell derived neurotrophic factor isoform 1	103					adult locomotory behavior|anti-apoptosis|axon guidance|branching involved in ureteric bud morphogenesis|enteric nervous system development|mRNA stabilization|negative regulation of neuron apoptosis|neural crest cell migration|peristalsis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of dopamine secretion|positive regulation of monooxygenase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|postganglionic parasympathetic nervous system development|regulation of dopamine uptake|signal transduction|sympathetic nervous system development	extracellular region	growth factor activity|protein homodimerization activity				0	all_lung(31;0.00118)					TTTTCCTCTGGAATTCTCTGG	0.493													29	167	---	---	---	---	PASS	C	37816081	C	C	37816081	3	2	163	1	0	0	0	0	1	0	0	0	6322	1174	41	2	330	2	GDNF	5	37816081	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	632744	37816081	143099179	410	57745										
OSMR	9180	broad.mit.edu	37	chr5	38921868	38921868	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagtggaagaatgtaggtccCaataccacaagcacagtcat	9	10	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:38921868C>T	uc003jln.1	+	12	2104	c.1737C>T	c.(1735-1737)CCC>CCT	p.P579P	OSMR_uc011cpj.1_5'UTR	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	579	Fibronectin type-III 3.|Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					ATGTAGGTCCCAATACCACAA	0.453													57	98	---	---	---	---	PASS	T	38921868	T	T	38921868	2	4	163	1	0	0	0	0	0	0	0	1	11292	581	21	3		3	OSMR	5	38921868	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1105787	38921868	141993392	411	57746										
HEATR7B2	133558	broad.mit.edu	37	chr5	41051135	41051135	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taagacctcaaggcttgtttCtcggacagattcctcttcct	7	12	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:41051135C>T	uc003jmj.3	-	13	1778	c.1288G>A	c.(1288-1290)GAA>AAA	p.E430K	HEATR7B2_uc003jmi.3_5'UTR	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	430	HEAT 5.						binding			ovary(6)|central_nervous_system(2)	8						AGGCTTGTTTCTCGGACAGAT	0.408													6	57	---	---	---	---	PASS	T	41051135	T	T	41051135	3	4	163	1	0	0	0	0	1	0	0	0	7035	922	32	2	3589	2	HEATR7B2	5	41051135	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2129267	41051135	139864125	412	57747										
PAIP1	10605	broad.mit.edu	37	chr5	43547890	43547890	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctgttgtaacacaaccattCagggtctctgcaaactgttc	7	11	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:43547890C>T	uc003job.2	-	3	808	c.561G>A	c.(559-561)CTG>CTA	p.L187L	PAIP1_uc003joa.2_Silent_p.L108L|PAIP1_uc010ivp.2_Silent_p.L108L|PAIP1_uc010ivo.2_RNA|PAIP1_uc003joc.2_Silent_p.L75L	NM_006451	NP_006442	Q9H074	PAIP1_HUMAN	poly(A) binding protein interacting protein 1	187	MIF4G.				mRNA stabilization|nuclear-transcribed mRNA poly(A) tail shortening|translational initiation	cytosol	protein binding|RNA binding|translation activator activity			ovary(1)	1	Lung NSC(6;2.07e-05)					CACAACCATTCAGGGTCTCTG	0.388													63	158	---	---	---	---	PASS	T	43547890	T	T	43547890	2	4	163	1	0	0	0	0	0	0	0	1	11396	813	29	2		2	PAIP1	5	43547890	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	2496755	43547890	137367370	413	57748										
MRPS30	10884	broad.mit.edu	37	chr5	44809298	44809298	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctgcggagtcggtagacgaGaagctgcgaatcctcaccaa	13	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:44809298G>A	uc003joh.2	+	1	272	c.234G>A	c.(232-234)GAG>GAA	p.E78E	MRPS30_uc003joi.1_5'Flank	NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	78					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)					CGGTAGACGAGAAGCTGCGAA	0.597													4	21	---	---	---	---	PASS	A	44809298	A	A	44809298	2	1	163	1	0	0	0	0	0	0	0	1	9840	933	33	2		2	MRPS30	5	44809298	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1261408	44809298	136105962	414	57749										
MRPS30	10884	broad.mit.edu	37	chr5	44813255	44813255	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acggtcacacccagtttcatCtgttacctgacaaattaaga	6	11	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:44813255C>T	uc003joh.2	+	4	939	c.901C>T	c.(901-903)CTG>TTG	p.L301L		NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	301					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)					CCAGTTTCATCTGTTACCTGA	0.383													20	172	---	---	---	---	PASS	T	44813255	T	T	44813255	2	4	163	1	0	0	0	0	0	0	0	1	9840	912	32	2		2	MRPS30	5	44813255	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	3957	44813255	136102005	415	57750										
ACTBL2	345651	broad.mit.edu	37	chr5	56778368	56778368	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcttgctctgagcctcatctCccacgtagcagtccttctgg	8	15	5	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:56778368C>G	uc003jrm.2	-	1	269	c.167G>C	c.(166-168)GGA>GCA	p.G56A		NM_001017992	NP_001017992	Q562R1	ACTBL_HUMAN	actin, beta-like 2	56						cytoplasm|cytoskeleton	ATP binding			ovary(3)	3		Lung NSC(810;0.000135)|Prostate(74;0.055)|Breast(144;0.0707)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;4.24e-37)		AGCCTCATCTCCCACGTAGCA	0.582													5	26	---	---	---	---	PASS	G	56778368	G	G	56778368	3	3	163	1	0	0	0	0	1	0	0	0	194	855	30	2	967	2	ACTBL2	5	56778368	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	11965113	56778368	124136892	416	57751										
PIK3R1	5295	broad.mit.edu	37	chr5	67592064	67592064	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgagaagacatggaatgttgGaagcagcaaccgaaacaaag	12	6	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:67592064G>C	uc003jva.2	+	15	2440	c.1880G>C	c.(1879-1881)GGA>GCA	p.G627A	PIK3R1_uc003jvb.2_Missense_Mutation_p.G627A|PIK3R1_uc003jvc.2_Missense_Mutation_p.G327A|PIK3R1_uc003jvd.2_Missense_Mutation_p.G357A|PIK3R1_uc003jve.2_Missense_Mutation_p.G306A	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	627	SH2 2.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoproterenol(DB01064)	TGGAATGTTGGAAGCAGCAAC	0.473			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			20	94	---	---	---	---	PASS	C	67592064	C	C	67592064	3	2	163	1	0	0	0	0	1	0	0	0	11918	1174	41	2	2064	2	PIK3R1	5	67592064	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	10813696	67592064	113323196	417	57752										
FAM169A	26049	broad.mit.edu	37	chr5	74134873	74134873	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcagcaaggtaaagtgccaCagctaaaatagaataaataa	7	6	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:74134873C>A	uc003kdm.2	-	4	278	c.235G>T	c.(235-237)GTG>TTG	p.V79L	FAM169A_uc010izm.2_Missense_Mutation_p.V79L|FAM169A_uc003kdl.2_5'UTR	NM_015566	NP_056381	Q9Y6X4	F169A_HUMAN	hypothetical protein LOC26049	79											0						TAAAGTGCCACAGCTAAAATA	0.333													52	181	---	---	---	---	PASS	A	74134873	A	A	74134873	3	1	163	1	0	0	0	0	1	0	0	0	5487	478	17	3	1817	3	FAM169A	5	74134873	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6542809	74134873	106780387	418	57753										
RASGRF2	5924	broad.mit.edu	37	chr5	80408537	80408537	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agcgtggagcgcctcttggaAcgactgacagacttgcggtt	14	10	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:80408537A>G	uc003kha.1	+	14	1947	c.1947A>G	c.(1945-1947)GAA>GAG	p.E649E	RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	649	N-terminal Ras-GEF.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		GCCTCTTGGAACGACTGACAG	0.488													70	251	---	---	---	---	PASS	G	80408537	G	G	80408537	2	3	163	1	0	0	0	0	0	0	0	1	13073	40	2	5		5	RASGRF2	5	80408537	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	6273664	80408537	100506723	419	57754										
XRCC4	7518	broad.mit.edu	37	chr5	82554407	82554407	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgtcactgatattgcaccAagtagaaaaaggagacagcg	11	7	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:82554407A>T	uc003kib.2	+	7	932	c.804A>T	c.(802-804)CCA>CCT	p.P268P	XRCC4_uc003kia.1_Silent_p.P268P|XRCC4_uc003kid.2_Silent_p.P268P|XRCC4_uc003kic.2_Silent_p.P268P|XRCC4_uc003kie.2_Silent_p.P268P|XRCC4_uc003kif.1_Silent_p.P268P|XRCC4_uc003kig.2_RNA	NM_022406	NP_071801	Q13426	XRCC4_HUMAN	X-ray repair cross complementing protein 4	268					DNA ligation involved in DNA repair|double-strand break repair via nonhomologous end joining|initiation of viral infection|positive regulation of ligase activity|provirus integration|response to X-ray	cytosol|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|nucleoplasm	DNA binding|protein C-terminus binding			skin(3)	3		Lung NSC(167;0.00132)|all_lung(232;0.00154)|Ovarian(174;0.034)		OV - Ovarian serous cystadenocarcinoma(54;1.44e-38)|Epithelial(54;3.72e-33)|all cancers(79;9.22e-28)		ATATTGCACCAAGTAGAAAAA	0.363								NHEJ					27	117	---	---	---	---	PASS	T	82554407	T	T	82554407	2	4	163	1	0	0	0	0	0	0	0	1	17452	117	5	5		5	XRCC4	5	82554407	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	2145870	82554407	98360853	420	57755										
VCAN	1462	broad.mit.edu	37	chr5	82833254	82833254	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagaaacaactgagtctcttGaagttacatggaagcctgag	10	8	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:82833254G>C	uc003kii.3	+	8	4788	c.4432G>C	c.(4432-4434)GAA>CAA	p.E1478Q	VCAN_uc003kij.3_Missense_Mutation_p.E491Q|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.E142Q	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1478	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TGAGTCTCTTGAAGTTACATG	0.423													27	75	---	---	---	---	PASS	C	82833254	C	C	82833254	3	2	163	1	0	0	0	0	1	0	0	0	17135	1291	45	2	4458	2	VCAN	5	82833254	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	278847	82833254	98082006	421	57756										
POU5F2	134187	broad.mit.edu	37	chr5	93076968	93076968	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcagggcaatgtagggccccGggagggcgccttcggagggg	21	10	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:93076968G>A	uc003kkl.1	-	1	342	c.302C>T	c.(301-303)CCG>CTG	p.P101L	FAM172A_uc010jbd.2_Intron|FAM172A_uc011cuf.1_Intron|FAM172A_uc011cug.1_Intron|FAM172A_uc011cuh.1_Intron|FAM172A_uc011cui.1_Intron|FAM172A_uc011cuj.1_Intron	NM_153216	NP_694948	Q8N7G0	PO5F2_HUMAN	POU domain class 5, transcription factor 2	101						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(142;3.87e-05)|all_epithelial(76;4.59e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0415)|all cancers(79;2.03e-19)		GTAGGGCCCCGGGAGGGCGCC	0.637													12	43	---	---	---	---	PASS	A	93076968	A	A	93076968	3	1	163	1	0	0	0	0	1	0	0	0	12283	1116	39	1	688	1	POU5F2	5	93076968	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	10243714	93076968	87838292	422	57757										
ARSK	153642	broad.mit.edu	37	chr5	94903634	94903634	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actcacttaacagaatcttgGaataattttaagggtctaga	7	6	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:94903634G>C	uc003kld.2	+	3	455	c.297G>C	c.(295-297)TGG>TGC	p.W99C	ARSK_uc010jbg.2_5'UTR|ARSK_uc011cum.1_RNA	NM_198150	NP_937793	Q6UWY0	ARSK_HUMAN	arylsulfatase K precursor	99						extracellular region	arylsulfatase activity|metal ion binding			pancreas(1)	1		all_cancers(142;3.38e-06)|all_epithelial(76;6.57e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.00473)		all cancers(79;6.5e-16)		CAGAATCTTGGAATAATTTTA	0.363													18	73	---	---	---	---	PASS	C	94903634	C	C	94903634	3	2	163	1	0	0	0	0	1	0	0	0	996	1183	41	2	307	2	ARSK	5	94903634	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1826666	94903634	86011626	423	57758										
ELL2	22936	broad.mit.edu	37	chr5	95224604	95224604	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgactctgcttgctgttggtCaaattcacctattagccttt	7	10	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:95224604C>T	uc003klr.3	-	12	2244	c.1894G>A	c.(1894-1896)GAC>AAC	p.D632N		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	632					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		TGCTGTTGGTCAAATTCACCT	0.363													12	101	---	---	---	---	PASS	T	95224604	T	T	95224604	3	4	163	1	0	0	0	0	1	0	0	0	5063	826	29	2	32	2	ELL2	5	95224604	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	320970	95224604	85690656	424	57759										
ELL2	22936	broad.mit.edu	37	chr5	95224673	95224673	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcacatctgtatttttcttCatggtaattgggactagact	7	7	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:95224673C>A	uc003klr.3	-	12	2175	c.1825G>T	c.(1825-1827)GAA>TAA	p.E609*		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	609					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		TATTTTTCTTCATGGTAATTG	0.348													11	49	---	---	---	---	PASS	A	95224673	A	A	95224673	4	1	163	1	0	0	0	0	0	1	0	0	5063	835	29	2	101	2	ELL2	5	95224673	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	69	95224673	85690587	425	57760										
CHD1	1105	broad.mit.edu	37	chr5	98262090	98262090	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcatcactgtgtccattcaTtgtaaattattatcaagaag	5	7	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:98262090T>C	uc003knf.2	-	1	149	c.1A>G	c.(1-3)ATG>GTG	p.M1V		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	1	Ser-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	TGTCCATTCATTGTAAATTAT	0.279													18	51	---	---	---	---	PASS	C	98262090	C	C	98262090	3	2	163	1	0	0	0	0	1	0	0	0	3323	1493	52	5	5271	5	CHD1	5	98262090	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	3037417	98262090	82653170	426	57761										
MCC	4163	broad.mit.edu	37	chr5	112487112	112487112	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttagtgatgccagggctgctGaatggagctgtggtgacaga	16	6	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:112487112G>T	uc003kqj.3	-	2	595	c.65C>A	c.(64-66)TCA>TAA	p.S22*	MCC_uc003kqk.3_RNA|MCC_uc003kql.3_Nonsense_Mutation_p.S212*|MCC_uc011cwb.1_Nonsense_Mutation_p.S22*|MCC_uc010jcd.1_Intron	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2	22					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		CAGGGCTGCTGAATGGAGCTG	0.413													19	41	---	---	---	---	PASS	T	112487112	T	T	112487112	4	4	163	1	0	0	0	0	0	1	0	0	9373	1294	45	2	2488	2	MCC	5	112487112	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	14225022	112487112	68428148	427	57762										
KCNN2	3781	broad.mit.edu	37	chr5	113831614	113831614	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccagaacatcatgtatgataTgatttctgacttaaacgaaa	6	7	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:113831614T>A	uc003kqo.2	+	8	1932	c.1475T>A	c.(1474-1476)ATG>AAG	p.M492K	KCNN2_uc003kqp.2_Missense_Mutation_p.M144K|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	492						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		ATGTATGATATGATTTCTGAC	0.418													58	197	---	---	---	---	PASS	A	113831614	A	A	113831614	3	1	163	1	0	0	0	0	1	0	0	0	8079	1464	51	5	1505	5	KCNN2	5	113831614	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	1344502	113831614	67083646	428	57763										
ZNF474	133923	broad.mit.edu	37	chr5	121487777	121487777	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttccttatcaaccaagctgGgcttctctctagtgactcct	6	13	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:121487777G>T	uc003ksv.2	+	2	468	c.92G>T	c.(91-93)GGG>GTG	p.G31V		NM_207317	NP_997200	Q6S9Z5	ZN474_HUMAN	zinc finger protein 474	31						intracellular	zinc ion binding				0		all_cancers(142;0.229)|Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000197)|Epithelial(69;0.00029)|all cancers(49;0.00415)		AACCAAGCTGGGCTTCTCTCT	0.383													54	196	---	---	---	---	PASS	T	121487777	T	T	121487777	3	4	163	1	0	0	0	0	1	0	0	0	17929	1232	43	3	94	3	ZNF474	5	121487777	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	7656163	121487777	59427483	429	57764										
FBN2	2201	broad.mit.edu	37	chr5	127671680	127671680	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cctgcttggtctccccttacCtgtacagccctggcggtctg	10	16	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:127671680C>G	uc003kuu.2	-	28	4163	c.3724G>C	c.(3724-3726)GAT>CAT	p.D1242H	FBN2_uc003kuv.2_Missense_Mutation_p.D1209H	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1242	EGF-like 19; calcium-binding.				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)		CTCCCCTTACCTGTACAGCCC	0.458													13	36	---	---	---	---	PASS	G	127671680	G	G	127671680	3	3	163	1	0	0	0	0	1	0	0	0	5703	695	24	4	5166	4	FBN2	5	127671680	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6183903	127671680	53243580	430	57765										
CAMLG	819	broad.mit.edu	37	chr5	134086449	134086449	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgagtctttctctacacagAgtgaaaagaagataaagaca	8	6	2	6			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:134086449A>T	uc003kzt.2	+	4	805	c.700A>T	c.(700-702)AGT>TGT	p.S234C	CAMLG_uc003kzu.2_Missense_Mutation_p.E80V	NM_001745	NP_001736	P49069	CAMLG_HUMAN	calcium modulating ligand	234	Extracellular (Potential).				defense response	endoplasmic reticulum|integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Cyclosporine(DB00091)	CTCTACACAGAGTGAAAAGAA	0.358													13	62	---	---	---	---	PASS	T	134086449	T	T	134086449	3	4	163	1	0	0	0	0	1	0	0	0	2609	318	11	5	714	5	CAMLG	5	134086449	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	6414769	134086449	46828811	431	57766										
DDX46	9879	broad.mit.edu	37	chr5	134131738	134131738	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agcttctaggccattatcaaGagtcaggatctgtcattata	8	8	5	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:134131738G>C	uc003kzw.2	+	15	2020	c.1852G>C	c.(1852-1854)GAG>CAG	p.E618Q	DDX46_uc003kzv.1_RNA	NM_014829	NP_055644	Q7L014	DDX46_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46	618	Helicase C-terminal.				mRNA processing|RNA splicing	Cajal body|nuclear speck	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CCATTATCAAGAGTCAGGATC	0.348													6	118	---	---	---	---	PASS	C	134131738	C	C	134131738	3	2	163	1	0	0	0	0	1	0	0	0	4364	943	33	2	1910	2	DDX46	5	134131738	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	45289	134131738	46783522	432	57767										
TXNDC15	79770	broad.mit.edu	37	chr5	134223872	134223872	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaaattttaaatatgtcacaGgtaaggaaaaattatttagt	6	2	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:134223872G>A	uc003lac.1	+	2	1249	c.591G>A	c.(589-591)CAG>CAA	p.Q197Q	TXNDC15_uc010jdy.1_Intron|TXNDC15_uc011cxv.1_RNA	NM_024715	NP_078991	Q96J42	TXD15_HUMAN	disulfide isomerase precursor	197	Extracellular (Potential).|Thioredoxin.				cell redox homeostasis	integral to membrane				ovary(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ATATGTCACAGGTAAGGAAAA	0.303													8	67	---	---	---	---	PASS	A	134223872	A	A	134223872	2	1	163	1	0	0	0	0	0	0	0	1	16791	1014	35	3		3	TXNDC15	5	134223872	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	92134	134223872	46691388	433	57768										
SLC4A9	83697	broad.mit.edu	37	chr5	139747319	139747319	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgcagaagggagctggcttCcacctggacctcttctgtgt	12	12	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:139747319C>G	uc003lfm.2	+	16	2297	c.2262C>G	c.(2260-2262)TTC>TTG	p.F754L	SLC4A9_uc003lfj.2_Missense_Mutation_p.F730L|SLC4A9_uc011czg.1_Missense_Mutation_p.F667L|SLC4A9_uc003lfl.2_Missense_Mutation_p.F730L|SLC4A9_uc003lfk.2_Missense_Mutation_p.F716L	NM_031467	NP_113655	Q96Q91	B3A4_HUMAN	solute carrier family 4, sodium bicarbonate	754	Membrane (anion exchange).					integral to membrane|plasma membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGCTGGCTTCCACCTGGACC	0.587													3	45	---	---	---	---	PASS	G	139747319	G	G	139747319	3	3	163	1	0	0	0	0	1	0	0	0	14660	854	30	2	2252	2	SLC4A9	5	139747319	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5523447	139747319	41167941	434	57769										
ZMAT2	153527	broad.mit.edu	37	chr5	140080051	140080051	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cacttcgctgtgaagatggcGtcgggcagcggggtaggtgt	18	8	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:140080051G>T	uc003lgy.1	+	1	20	c.6G>T	c.(4-6)GCG>GCT	p.A2A		NM_144723	NP_653324	Q96NC0	ZMAT2_HUMAN	zinc finger, matrin type 2	2						nucleus	DNA binding|zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAAGATGGCGTCGGGCAGCG	0.542													17	65	---	---	---	---	PASS	T	140080051	T	T	140080051	2	4	163	1	0	0	0	0	0	0	0	1	17689	1132	40	1		1	ZMAT2	5	140080051	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	332732	140080051	40835209	435	57770										
PCDHA3	56145	broad.mit.edu	37	chr5	140180824	140180824	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatcctggagcccagtgcctGctgctttctcttctgctcct	9	15	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:140180824G>C	uc003lhf.2	+	1	42	c.42G>C	c.(40-42)CTG>CTC	p.L14L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.L14L	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	14					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCAGTGCCTGCTGCTTTCTC	0.512													20	115	---	---	---	---	PASS	C	140180824	C	C	140180824	2	2	163	1	0	0	0	0	0	0	0	1	11525	1306	46	4		4	PCDHA3	5	140180824	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	100773	140180824	40734436	436	57771										
PCDHA9	9752	broad.mit.edu	37	chr5	140229714	140229714	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgacgcgggcgtgccgcctcTgggcagcaacgtgacgctgc	16	15	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:140229714T>C	uc003lhu.2	+	1	2358	c.1634T>C	c.(1633-1635)CTG>CCG	p.L545P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.L545P	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	545	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCCGCCTCTGGGCAGCAAC	0.682													17	97	---	---	---	---	PASS	C	140229714	C	C	140229714	3	2	163	1	0	0	0	0	1	0	0	0	11531	1580	55	5	1636	5	PCDHA9	5	140229714	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	48890	140229714	40685546	437	57772										
PCDHB6	56130	broad.mit.edu	37	chr5	140530988	140530988	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aacaggttatttgttcaataGagaacaatctcccctttcta	5	9	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:140530988G>T	uc003lir.2	+	1	1150	c.1150G>T	c.(1150-1152)GAG>TAG	p.E384*	PCDHB6_uc011dah.1_Nonsense_Mutation_p.E248*	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	384	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTGTTCAATAGAGAACAATCT	0.463													21	168	---	---	---	---	PASS	T	140530988	T	T	140530988	4	4	163	1	0	0	0	0	0	1	0	0	11546	943	33	2	1152	2	PCDHB6	5	140530988	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	301274	140530988	40384272	438	57773										
PCDHB7	56129	broad.mit.edu	37	chr5	140553281	140553281	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttacgccactgaaagaattCtcaaaacgtttcaaatcaat	4	10	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:140553281C>T	uc003lit.2	+	1	1039	c.865C>T	c.(865-867)CTC>TTC	p.L289F		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	289	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGAAAGAATTCTCAAAACGTT	0.418													32	140	---	---	---	---	PASS	T	140553281	T	T	140553281	3	4	163	1	0	0	0	0	1	0	0	0	11547	913	32	2	867	2	PCDHB7	5	140553281	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	22293	140553281	40361979	439	57774										
PCDHB12	56124	broad.mit.edu	37	chr5	140588647	140588647	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagaccctgggactcgaggtGagtgagctgtcttcgcgggg	17	9	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:140588647G>C	uc003liz.2	+	1	357	c.168G>C	c.(166-168)GTG>GTC	p.V56V	PCDHB12_uc011dak.1_Intron	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	56	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GACTCGAGGTGAGTGAGCTGT	0.517													20	125	---	---	---	---	PASS	C	140588647	C	C	140588647	2	2	163	1	0	0	0	0	0	0	0	1	11537	1277	45	2		2	PCDHB12	5	140588647	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	35366	140588647	40326613	440	57775										
PCDHGA12	26025	broad.mit.edu	37	chr5	140811775	140811775	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cacgaccccgactgtgaagaGaacgcccagatcacttattc	8	14	1	3	rs150518735	byFrequency	TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:140811775G>C	uc003lkt.1	+	1	1618	c.1449G>C	c.(1447-1449)GAG>GAC	p.E483D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.E483D	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	483	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTGTGAAGAGAACGCCCAGA	0.562													5	69	---	---	---	---	PASS	C	140811775	C	C	140811775	3	2	163	1	0	0	0	0	1	0	0	0	11553	933	33	2	1451	2	PCDHGA12	5	140811775	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	223128	140811775	40103485	441	57776										
PCDHGC4	56098	broad.mit.edu	37	chr5	140866045	140866045	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgctgggaaccctcctctCagtacccacagaactatttt	7	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:140866045C>G	uc003lky.1	+	1	1305	c.1305C>G	c.(1303-1305)CTC>CTG	p.L435L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Silent_p.L435L|PCDHGC5_uc011dbc.1_5'Flank|PCDHGC5_uc003lla.1_5'Flank	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	435	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCCTCCTCTCAGTACCCACA	0.468													29	129	---	---	---	---	PASS	G	140866045	G	G	140866045	2	3	163	1	0	0	0	0	0	0	0	1	11570	813	29	2		2	PCDHGC4	5	140866045	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	54270	140866045	40049215	442	57777										
AFAP1L1	134265	broad.mit.edu	37	chr5	148695757	148695757	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcagaactgaagggctcaatGagcagggctgcgggccgcaa	16	10	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:148695757G>C	uc003lqh.2	+	11	1289	c.1158G>C	c.(1156-1158)ATG>ATC	p.M386I	AFAP1L1_uc010jgy.2_Missense_Mutation_p.M386I|AFAP1L1_uc003lqi.1_Missense_Mutation_p.M1I	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	386							protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGGCTCAATGAGCAGGGCTG	0.592													26	80	---	---	---	---	PASS	C	148695757	C	C	148695757	3	2	163	1	0	0	0	0	1	0	0	0	354	1290	45	2	1200	2	AFAP1L1	5	148695757	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	7829712	148695757	32219503	443	57778										
SYNPO	11346	broad.mit.edu	37	chr5	150028853	150028853	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgggtgaggtctcctccctCatattctgtcctgtatccca	8	14	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:150028853C>G	uc003lsn.2	+	3	2122	c.1748C>G	c.(1747-1749)TCA>TGA	p.S583*	SYNPO_uc003lso.3_Nonsense_Mutation_p.S339*|SYNPO_uc003lsp.2_Nonsense_Mutation_p.S339*	NM_001109974	NP_001103444	Q8N3V7	SYNPO_HUMAN	synaptopodin isoform B	583	PPxY motif.				positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCTCCTCCCTCATATTCTGTC	0.607													31	118	---	---	---	---	PASS	G	150028853	G	G	150028853	4	3	163	1	0	0	0	0	0	1	0	0	15453	838	29	2	1754	2	SYNPO	5	150028853	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1333096	150028853	30886407	444	57779										
ZNF300	91975	broad.mit.edu	37	chr5	150275763	150275763	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagggtttttccccagtgtgAactctctgatgtataataag	9	7	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:150275763A>T	uc003lsy.1	-	6	1305	c.1038T>A	c.(1036-1038)GTT>GTA	p.V346V	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	346	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCCCAGTGTGAACTCTCTGAT	0.413													37	146	---	---	---	---	PASS	T	150275763	T	T	150275763	2	4	163	1	0	0	0	0	0	0	0	1	17828	233	9	5		5	ZNF300	5	150275763	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	246910	150275763	30639497	445	57780										
TNIP1	10318	broad.mit.edu	37	chr5	150436437	150436437	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggccgtggtccggctcctCggcacacacactcagcgtgg	13	16	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:150436437C>T	uc003ltf.2	-	6	1106	c.517G>A	c.(517-519)GAG>AAG	p.E173K	TNIP1_uc010jhl.2_RNA|TNIP1_uc010jhm.2_Missense_Mutation_p.E173K|TNIP1_uc010jhn.2_Missense_Mutation_p.E173K|TNIP1_uc011dco.1_Missense_Mutation_p.E173K|TNIP1_uc003lth.2_RNA|TNIP1_uc003lti.2_Missense_Mutation_p.E173K|TNIP1_uc003ltg.2_Missense_Mutation_p.E120K|TNIP1_uc003ltj.2_Missense_Mutation_p.E173K|TNIP1_uc010jho.1_RNA|TNIP1_uc010jhq.1_Missense_Mutation_p.E120K|TNIP1_uc010jhp.1_Missense_Mutation_p.E120K|TNIP1_uc010jhr.1_Missense_Mutation_p.E173K|TNIP1_uc003ltk.2_Missense_Mutation_p.E173K	NM_006058	NP_006049	Q15025	TNIP1_HUMAN	TNFAIP3 interacting protein 1	173	Interacts with Nef.				defense response|glycoprotein biosynthetic process|negative regulation of viral genome replication|translation	cytoplasm|nucleus	protein binding			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.0911)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCCGGCTCCTCGGCACACACA	0.667													10	60	---	---	---	---	PASS	T	150436437	T	T	150436437	3	4	163	1	0	0	0	0	1	0	0	0	16311	893	31	2	1445	2	TNIP1	5	150436437	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	160674	150436437	30478823	446	57781										
CYFIP2	26999	broad.mit.edu	37	chr5	156787316	156787316	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggaaccattctccagtatgtGaaaacactgatagaggtgat	10	7	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:156787316G>T	uc003lwq.2	+	27	2982	c.2844G>T	c.(2842-2844)GTG>GTT	p.V948V	CYFIP2_uc011ddn.1_Silent_p.V922V|CYFIP2_uc011ddo.1_Silent_p.V752V|CYFIP2_uc003lwr.2_Silent_p.V948V|CYFIP2_uc003lws.2_Silent_p.V948V|CYFIP2_uc003lwt.2_Silent_p.V851V|CYFIP2_uc011ddp.1_Silent_p.V682V	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	973					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)			TCCAGTATGTGAAAACACTGA	0.507													33	148	---	---	---	---	PASS	T	156787316	T	T	156787316	2	4	163	1	0	0	0	0	0	0	0	1	4138	1277	45	2		2	CYFIP2	5	156787316	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	6350879	156787316	24127944	447	57782										
EBF1	1879	broad.mit.edu	37	chr5	158223456	158223456	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgtcgtccatccttcactcGggctgatggctttgatacag	10	13	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:158223456G>C	uc010jip.2	-	9	1108	c.806C>G	c.(805-807)CCG>CGG	p.P269R	EBF1_uc011ddw.1_Missense_Mutation_p.P137R|EBF1_uc011ddx.1_Missense_Mutation_p.P270R|EBF1_uc003lxl.3_Missense_Mutation_p.P238R	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	269	IPT/TIG.				multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCCTTCACTCGGGCTGATGGC	0.458			T	HMGA2	lipoma								16	46	---	---	---	---	PASS	C	158223456	C	C	158223456	3	2	163	1	0	0	0	0	1	0	0	0	4880	1116	39	4	1001	4	EBF1	5	158223456	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1436140	158223456	22691804	448	57783										
STK10	6793	broad.mit.edu	37	chr5	171520427	171520427	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cggtgttaccttgatggacaGagagcccatctctttgttca	10	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:171520427G>C	uc003mbo.1	-	9	1843	c.1543C>G	c.(1543-1545)CTG>GTG	p.L515V		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	515							ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TTGATGGACAGAGAGCCCATC	0.537													21	67	---	---	---	---	PASS	C	171520427	C	C	171520427	3	2	163	1	0	0	0	0	1	0	0	0	15285	933	33	2	1407	2	STK10	5	171520427	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	13296971	171520427	9394833	449	57784										
SH3PXD2B	285590	broad.mit.edu	37	chr5	171765617	171765617	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctccctgttttctccaatcTtgccggtcccccatggcccc	6	19	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:171765617T>C	uc003mbr.2	-	13	2663	c.2492A>G	c.(2491-2493)AAG>AGG	p.K831R		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	831					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TTCTCCAATCTTGCCGGTCCC	0.587													5	30	---	---	---	---	PASS	C	171765617	C	C	171765617	3	2	163	1	0	0	0	0	1	0	0	0	14257	1609	56	5	247	5	SH3PXD2B	5	171765617	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	245190	171765617	9149643	450	57785										
CDHR2	54825	broad.mit.edu	37	chr5	176001165	176001165	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caggcatggtcgtgtactccAtagagaaggtgagtgtgaag	15	6	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:176001165A>G	uc003mem.1	+	7	553	c.487A>G	c.(487-489)ATA>GTA	p.I163V	CDHR2_uc003men.1_Missense_Mutation_p.I163V	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	163	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						CGTGTACTCCATAGAGAAGGT	0.627											OREG0017077	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	29	---	---	---	---	PASS	G	176001165	G	G	176001165	3	3	163	1	0	0	0	0	1	0	0	0	3119	217	8	5	509	5	CDHR2	5	176001165	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	4235548	176001165	4914095	451	57786										
FGFR4	2264	broad.mit.edu	37	chr5	176520456	176520456	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtcaagctcatccctggtacGaggcgtgcgtctctcctcca	10	15	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:176520456G>A	uc003mfl.2	+	10	1468	c.1301G>A	c.(1300-1302)CGA>CAA	p.R434Q	FGFR4_uc003mfm.2_Missense_Mutation_p.R434Q|FGFR4_uc011dfu.1_Missense_Mutation_p.E383K|FGFR4_uc003mfo.2_Missense_Mutation_p.R394Q	NM_002011	NP_002002	P22455	FGFR4_HUMAN	fibroblast growth factor receptor 4 isoform 1	434	Cytoplasmic (Potential).				insulin receptor signaling pathway|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity			lung(11)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|prostate(1)	16	all_cancers(89;5.93e-05)|Renal(175;0.000269)|Lung NSC(126;0.0088)|all_lung(126;0.0142)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Palifermin(DB00039)	TCCCTGGTACGAGGCGTGCGT	0.617										TSP Lung(9;0.080)			38	113	---	---	---	---	PASS	A	176520456	A	A	176520456	3	1	163	1	0	0	0	0	1	0	0	0	5868	1058	37	2	1405	2	FGFR4	5	176520456	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	519291	176520456	4394804	452	57787										
RUFY1	80230	broad.mit.edu	37	chr5	179016623	179016623	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agaacaaaatgaattaattcGagaaagaagtgaaaagagtg	10	2	0	6			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:179016623G>A	uc003mka.1	+	9	1103	c.1103G>A	c.(1102-1104)CGA>CAA	p.R368Q	RUFY1_uc003mkb.1_Missense_Mutation_p.R260Q|RUFY1_uc003mkc.1_Missense_Mutation_p.R260Q|RUFY1_uc003mkd.1_5'Flank	NM_025158	NP_079434	Q96T51	RUFY1_HUMAN	RUN and FYVE domain-containing 1 isoform a	368	Potential.				endocytosis|protein transport	early endosome membrane	lipid binding|zinc ion binding			ovary(4)|breast(1)	5	all_cancers(89;0.00018)|all_epithelial(37;8.37e-05)|Renal(175;0.000159)|Lung NSC(126;0.00108)|all_lung(126;0.00195)	all_cancers(40;0.0322)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GAATTAATTCGAGAAAGAAGT	0.388										HNSCC(44;0.11)			16	86	---	---	---	---	PASS	A	179016623	A	A	179016623	3	1	163	1	0	0	0	0	1	0	0	0	13738	1058	37	2	1137	2	RUFY1	5	179016623	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2496167	179016623	1898637	453	57788										
MAML1	9794	broad.mit.edu	37	chr5	179201470	179201470	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaaatgtctagcccgcaattCtcccaggcagtgcccaacag	8	14	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr5:179201470C>G	uc003mkm.2	+	5	2906	c.2643C>G	c.(2641-2643)TTC>TTG	p.F881L	MAML1_uc003mkn.1_Intron	NM_014757	NP_055572	Q92585	MAML1_HUMAN	mastermind-like 1	881					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	peptide antigen binding|protein kinase binding|transcription coactivator activity			lung(4)|ovary(2)	6	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCCCGCAATTCTCCCAGGCAG	0.627													14	42	---	---	---	---	PASS	G	179201470	G	G	179201470	3	3	163	1	0	0	0	0	1	0	0	0	9205	912	32	2	2661	2	MAML1	5	179201470	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	184847	179201470	1713790	454	57789										
FOXF2	2295	broad.mit.edu	37	chr6	1390815	1390815	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccatgtaccaccgcgtggtGagcggcttgggcttcggggc	16	13	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:1390815G>T	uc003mtm.2	+	1	747	c.633G>T	c.(631-633)GTG>GTT	p.V211V	FOXF2_uc003mtn.2_Silent_p.V211V	NM_001452	NP_001443	Q12947	FOXF2_HUMAN	forkhead box F2	211					epithelial to mesenchymal transition|genitalia development|palate development|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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 factor binding				0	Ovarian(93;0.0733)	all_lung(73;0.0713)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.095)		ACCGCGTGGTGAGCGGCTTGG	0.736													5	53	---	---	---	---	PASS	T	1390815	T	T	1390815	2	4	163	1	0	0	0	0	0	0	0	1	6006	1277	45	2		2	FOXF2	6	1390815	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08		1390815	169724252	455	57790										
SERPINB9	5272	broad.mit.edu	37	chr6	2890510	2890510	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccagattccatgcagcactCtgcaactacaaagcagctcg	8	14	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:2890510C>G	uc003mug.2	-	7	1139	c.1018G>C	c.(1018-1020)GAG>CAG	p.E340Q	uc003mue.2_Intron|SERPINB9_uc003muf.2_Missense_Mutation_p.E143Q	NM_004155	NP_004146	P50453	SPB9_HUMAN	serpin peptidase inhibitor, clade B, member 9	340		Reactive bond (By similarity).			anti-apoptosis|cellular response to estrogen stimulus|immune response|mast cell mediated immunity|regulation of proteolysis	cytosol|extracellular space|nucleus	caspase inhibitor activity|protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.108)				ATGCAGCACTCTGCAACTACA	0.532													24	102	---	---	---	---	PASS	G	2890510	G	G	2890510	3	3	163	1	0	0	0	0	1	0	0	0	14108	922	32	2	116	2	SERPINB9	6	2890510	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1499695	2890510	168224557	456	57791										
FARS2	10667	broad.mit.edu	37	chr6	5431349	5431349	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatggagatcaactttcatgGagaatggctggaagttcttg	13	5	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:5431349G>A	uc010jnv.1	+	4	1184	c.848G>A	c.(847-849)GGA>GAA	p.G283E	FARS2_uc003mwr.2_Missense_Mutation_p.G283E|FARS2_uc003mws.1_Missense_Mutation_p.G283E	NM_006567	NP_006558	O95363	SYFM_HUMAN	phenylalanyl-tRNA synthetase 2 precursor	283					phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)	AACTTTCATGGAGAATGGCTG	0.418													53	257	---	---	---	---	PASS	A	5431349	A	A	5431349	3	1	163	1	0	0	0	0	1	0	0	0	5678	1174	41	2	858	2	FARS2	6	5431349	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2540839	5431349	165683718	457	57792										
DSP	1832	broad.mit.edu	37	chr6	7584134	7584134	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agcatgtccttccaaggaatCagacaacctgtgaccgtcac	8	13	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:7584134C>G	uc003mxp.1	+	24	6918	c.6639C>G	c.(6637-6639)ATC>ATG	p.I2213M	DSP_uc003mxq.1_Missense_Mutation_p.I1614M	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2213	Plectin 6.|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TCCAAGGAATCAGACAACCTG	0.468													13	127	---	---	---	---	PASS	G	7584134	G	G	7584134	3	3	163	1	0	0	0	0	1	0	0	0	4781	816	29	2	6733	2	DSP	6	7584134	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2152785	7584134	163530933	458	57793										
GCM2	9247	broad.mit.edu	37	chr6	10877569	10877569	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcttctcatcgctgctgtaGatgaagcgcacatagccgtc	9	12	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:10877569G>C	uc003mzn.3	-	2	219	c.147C>G	c.(145-147)ATC>ATG	p.I49M	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	49	GCM.				cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				CGCTGCTGTAGATGAAGCGCA	0.567													9	98	---	---	---	---	PASS	C	10877569	C	C	10877569	3	2	163	1	0	0	0	0	1	0	0	0	6298	932	33	2	1389	2	GCM2	6	10877569	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3293435	10877569	160237498	459	57794										
FAM65B	9750	broad.mit.edu	37	chr6	24848350	24848350	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgccttgttcccagcgcctGaggatgcggtcatgtcctcc	11	15	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:24848350G>C	uc003neo.1	-	12	1156	c.980C>G	c.(979-981)TCA>TGA	p.S327*	FAM65B_uc011djs.1_Nonsense_Mutation_p.S356*|FAM65B_uc011dju.1_Nonsense_Mutation_p.S361*|FAM65B_uc003nep.2_Nonsense_Mutation_p.S327*|FAM65B_uc011djt.1_Nonsense_Mutation_p.S327*	NM_014722	NP_055537	Q9Y4F9	FA65B_HUMAN	hypothetical protein LOC9750 isoform 1	327					cell differentiation|muscle organ development	cytoskeleton|filopodium|mitochondrion	binding			ovary(1)	1						CCCAGCGCCTGAGGATGCGGT	0.527													5	42	---	---	---	---	PASS	C	24848350	C	C	24848350	4	2	163	1	0	0	0	0	0	1	0	0	5600	1294	45	2	2284	2	FAM65B	6	24848350	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	13970781	24848350	146266717	460	57795										
HIST1H1E	3008	broad.mit.edu	37	chr6	26157146	26157146	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcgaaaagcccgaaaaaggcGaaagcagccaagccaaaaaa	10	10	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:26157146G>T	uc003ngq.2	+	1	588	c.528G>T	c.(526-528)GCG>GCT	p.A176A	HIST1H2BD_uc003ngr.2_5'Flank|HIST1H2BD_uc003ngs.2_5'Flank	NM_005321	NP_005312	P10412	H14_HUMAN	histone cluster 1, H1e	176					nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			large_intestine(1)|ovary(1)	2						CGAAAAAGGCGAAAGCAGCCA	0.587													5	26	---	---	---	---	PASS	T	26157146	T	T	26157146	2	4	163	1	0	0	0	0	0	0	0	1	7126	1045	37	2		2	HIST1H1E	6	26157146	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1308796	26157146	144957921	461	57796										
HIST1H2BD	3017	broad.mit.edu	37	chr6	26158469	26158469	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcggtgactaaggctcagaaGaaggacgggaagaagcgcaa	16	7	1	4	rs145666937	byFrequency	TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:26158469G>A	uc003ngr.2	+	1	121	c.72G>A	c.(70-72)AAG>AAA	p.K24K	HIST1H2BD_uc003ngs.2_Silent_p.K24K	NM_021063	NP_066407	P58876	H2B1D_HUMAN	histone cluster 1, H2bd	24					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|pancreas(1)	2						AGGCTCAGAAGAAGGACGGGA	0.537													42	229	---	---	---	---	PASS	A	26158469	A	A	26158469	2	1	163	1	0	0	0	0	0	0	0	1	7143	933	33	2		2	HIST1H2BD	6	26158469	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1323	26158469	144956598	462	57797										
HIST1H3D	8351	broad.mit.edu	37	chr6	26197163	26197163	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggcgcataggttggtgtcctCaaacagccccaccaggtagg	13	12	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:26197163C>G	uc003ngv.2	-	2	713	c.316G>C	c.(316-318)GAG>CAG	p.E106Q	HIST1H2BF_uc003ngx.2_5'Flank	NM_003530	NP_003521	P68431	H31_HUMAN	histone cluster 1, H3d	106					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.196)				TTGGTGTCCTCAAACAGCCCC	0.592													51	62	---	---	---	---	PASS	G	26197163	G	G	26197163	3	3	163	1	0	0	0	0	1	0	0	0	7158	835	29	2	98	2	HIST1H3D	6	26197163	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	38694	26197163	144917904	463	57798										
HIST1H3D	8351	broad.mit.edu	37	chr6	26197472	26197472	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcgagcagtctgcttggtacGagccattgcgaacttctaaa	11	10	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:26197472G>C	uc003ngv.2	-	2	404	c.7C>G	c.(7-9)CGT>GGT	p.R3G	HIST1H2BF_uc003ngx.2_5'Flank	NM_003530	NP_003521	P68431	H31_HUMAN	histone cluster 1, H3d	3					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.196)				TGCTTGGTACGAGCCATTGCG	0.542													11	84	---	---	---	---	PASS	C	26197472	C	C	26197472	3	2	163	1	0	0	0	0	1	0	0	0	7158	1058	37	2	407	2	HIST1H3D	6	26197472	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	309	26197472	144917595	464	57799										
BTN2A1	11120	broad.mit.edu	37	chr6	26465625	26465625	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcaaaaagaggaagaacttCaagtaaaaggtaaaagaggc	11	4	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:26465625C>G	uc003nib.1	+	5	1137	c.925C>G	c.(925-927)CAA>GAA	p.Q309E	BTN2A1_uc003nic.1_Missense_Mutation_p.Q309E|BTN2A1_uc003nid.1_Missense_Mutation_p.Q157E|BTN2A1_uc011dko.1_Missense_Mutation_p.Q248E|BTN2A1_uc010jqk.1_Missense_Mutation_p.Q69E	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1	309	Cytoplasmic (Potential).				lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						GGAAGAACTTCAAGTAAAAGG	0.219													12	131	---	---	---	---	PASS	G	26465625	G	G	26465625	3	3	163	1	0	0	0	0	1	0	0	0	1560	827	29	2	939	2	BTN2A1	6	26465625	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	268153	26465625	144649442	465	57800										
PRSS16	10279	broad.mit.edu	37	chr6	27216714	27216714	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gggcagccttgggcctggctCagtgatgagaggtaagaggc	18	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:27216714C>T	uc003nja.2	+	3	338	c.326C>T	c.(325-327)TCA>TTA	p.S109L	PRSS16_uc011dkt.1_RNA|PRSS16_uc003njb.2_Intron|PRSS16_uc010jqq.1_5'UTR|PRSS16_uc010jqr.1_5'UTR|PRSS16_uc003njc.1_RNA|PRSS16_uc003njd.2_5'Flank	NM_005865	NP_005856	Q9NQE7	TSSP_HUMAN	protease, serine, 16 precursor	109					protein catabolic process|proteolysis	cytoplasmic membrane-bounded vesicle	serine-type peptidase activity			ovary(2)|central_nervous_system(2)|skin(1)	5						GGGCCTGGCTCAGTGATGAGA	0.567													37	127	---	---	---	---	PASS	T	27216714	T	T	27216714	3	4	163	1	0	0	0	0	1	0	0	0	12616	838	29	2	336	2	PRSS16	6	27216714	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	751089	27216714	143898353	466	57801										
ZNF184	7738	broad.mit.edu	37	chr6	27420473	27420473	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgagtaagagatggaccctCaatgaagccttttccacact	8	10	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:27420473C>T	uc003njj.2	-	5	1676	c.865G>A	c.(865-867)GAG>AAG	p.E289K	ZNF184_uc010jqv.2_Missense_Mutation_p.E289K|ZNF184_uc003nji.2_Missense_Mutation_p.E289K	NM_007149	NP_009080	Q99676	ZN184_HUMAN	zinc finger protein 184	289	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GATGGACCCTCAATGAAGCCT	0.378													40	175	---	---	---	---	PASS	T	27420473	T	T	27420473	3	4	163	1	0	0	0	0	1	0	0	0	17748	835	29	2	1394	2	ZNF184	6	27420473	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	203759	27420473	143694594	467	57802										
OR2B3	442184	broad.mit.edu	37	chr6	29054830	29054830	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcagagatctaagatggagaGattagtgagaaagaaataca	12	3	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:29054830G>C	uc003nlx.2	-	1	261	c.196C>G	c.(196-198)CTC>GTC	p.L66V		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						AAGATGGAGAGATTAGTGAGA	0.403													22	196	---	---	---	---	PASS	C	29054830	C	C	29054830	3	2	163	1	0	0	0	0	1	0	0	0	10990	942	33	2	749	2	OR2B3	6	29054830	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1634357	29054830	142060237	468	57803										
OR14J1	442191	broad.mit.edu	37	chr6	29274746	29274746	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acggttacatttctcttgttCagtgcattcttcaggttttc	7	9	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:29274746C>G	uc011dln.1	+	1	280	c.280C>G	c.(280-282)CAG>GAG	p.Q94E		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTCTCTTGTTCAGTGCATTCT	0.458													6	438	---	---	---	---	PASS	G	29274746	G	G	29274746	3	3	163	1	0	0	0	0	1	0	0	0	10948	827	29	2	282	2	OR14J1	6	29274746	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	219916	29274746	141840321	469	57804										
OR14J1	442191	broad.mit.edu	37	chr6	29275385	29275385	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggaagatgctgtcaaaggaaGagcttcctcagagaaaaatg	12	6	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:29275385G>C	uc011dln.1	+	1	919	c.919G>C	c.(919-921)GAG>CAG	p.E307Q		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	307	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTCAAAGGAAGAGCTTCCTCA	0.294													53	138	---	---	---	---	PASS	C	29275385	C	C	29275385	3	2	163	1	0	0	0	0	1	0	0	0	10948	943	33	2	921	2	OR14J1	6	29275385	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	639	29275385	141839682	470	57805										
TRIM40	135644	broad.mit.edu	37	chr6	30104956	30104956	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtggagaaggcctcagcctCtggggtcttctgctgccccc	13	14	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:30104956C>G	uc003npk.2	+	2	529	c.143C>G	c.(142-144)TCT>TGT	p.S48C	TRIM40_uc003npl.1_RNA|TRIM40_uc003npm.2_Missense_Mutation_p.S48C	NM_138700	NP_619645	Q6P9F5	TRI40_HUMAN	tripartite motif-containing 40	48	RING-type.					intracellular	zinc ion binding			ovary(1)	1						GCCTCAGCCTCTGGGGTCTTC	0.607													14	89	---	---	---	---	PASS	G	30104956	G	G	30104956	3	3	163	1	0	0	0	0	1	0	0	0	16512	913	32	2	145	2	TRIM40	6	30104956	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	829571	30104956	141010111	471	57806										
TRIM40	135644	broad.mit.edu	37	chr6	30105078	30105078	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgaggagagcagacttcttCtatgtgtggaatgcctggtg	15	6	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:30105078C>T	uc003npk.2	+	2	651	c.265C>T	c.(265-267)CTA>TTA	p.L89L	TRIM40_uc003npl.1_RNA|TRIM40_uc003npm.2_Silent_p.L89L	NM_138700	NP_619645	Q6P9F5	TRI40_HUMAN	tripartite motif-containing 40	89	B box-type.					intracellular	zinc ion binding			ovary(1)	1						CAGACTTCTTCTATGTGTGGA	0.542													34	221	---	---	---	---	PASS	T	30105078	T	T	30105078	2	4	163	1	0	0	0	0	0	0	0	1	16512	912	32	2		2	TRIM40	6	30105078	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	122	30105078	141009989	472	57807										
GNL1	2794	broad.mit.edu	37	chr6	30523492	30523492	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actggagcgcagcccatcttGaagccctgcggggaggggcc	16	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:30523492G>C	uc003nqh.2	-	2	1107	c.79C>G	c.(79-81)CAA>GAA	p.Q27E	GNL1_uc011dmi.1_5'UTR|GNL1_uc011dmj.1_Missense_Mutation_p.Q25E|GNL1_uc011dmk.1_Intron|PRR3_uc003nqi.1_5'Flank|PRR3_uc003nqj.1_5'Flank	NM_005275	NP_005266	P36915	GNL1_HUMAN	guanine nucleotide binding protein-like 1	27					response to DNA damage stimulus|signal transduction|T cell mediated immunity	extracellular space|intracellular	GTP binding|structural molecule activity			ovary(3)	3						AGCCCATCTTGAAGCCCTGCG	0.652													10	71	---	---	---	---	PASS	C	30523492	C	C	30523492	3	2	163	1	0	0	0	0	1	0	0	0	6535	1299	45	2	1788	2	GNL1	6	30523492	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	418414	30523492	140591575	473	57808										
TCF19	6941	broad.mit.edu	37	chr6	31129585	31129585	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cctagttggggtggaccaaaGagcctgcctgttcccgcccc	12	15	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:31129585G>C	uc003nss.2	+	3	1124	c.600G>C	c.(598-600)AAG>AAC	p.K200N	TCF19_uc003nst.2_Missense_Mutation_p.K200N	NM_001077511	NP_001070979	Q9Y242	TCF19_HUMAN	transcription factor 19	200	Pro-rich.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GTGGACCAAAGAGCCTGCCTG	0.622													4	36	---	---	---	---	PASS	C	31129585	C	C	31129585	3	2	163	1	0	0	0	0	1	0	0	0	15686	933	33	2	606	2	TCF19	6	31129585	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	606093	31129585	139985482	474	57809										
BAT2	7916	broad.mit.edu	37	chr6	31593854	31593854	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccaccaatgcgcttagtagaGcctgtgggtcgtccctctat	10	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:31593854G>T	uc003nvb.3	+	9	1146	c.897G>T	c.(895-897)GAG>GAT	p.E299D	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Missense_Mutation_p.E299D|BAT2_uc003nve.2_3'UTR	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	299	1-3.|4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						GCTTAGTAGAGCCTGTGGGTC	0.473													6	123	---	---	---	---	PASS	T	31593854	T	T	31593854	3	4	163	1	0	0	0	0	1	0	0	0	1319	962	34	3	927	3	BAT2	6	31593854	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	464269	31593854	139521213	475	57810										
BAT2	7916	broad.mit.edu	37	chr6	31599685	31599685	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaccaaaccaccctcctgctCcccgaggccgcactgccagc	8	21	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:31599685C>T	uc003nvb.3	+	16	3484	c.3235C>T	c.(3235-3237)CCC>TCC	p.P1079S	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.P1079S	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1079	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						CCCTCCTGCTCCCCGAGGCCG	0.657													6	35	---	---	---	---	PASS	T	31599685	T	T	31599685	3	4	163	1	0	0	0	0	1	0	0	0	1319	855	30	2	3293	2	BAT2	6	31599685	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5831	31599685	139515382	476	57811										
NEU1	4758	broad.mit.edu	37	chr6	31829147	31829147	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tactactcctgtctcaacatCgctcactactgccccaaggt	5	16	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:31829147C>T	uc003nxq.3	-	3	589	c.433G>A	c.(433-435)GAT>AAT	p.D145N	NEU1_uc010jtg.2_RNA|NEU1_uc003nxr.3_RNA|NEU1_uc010jth.2_5'UTR|NEU1_uc003nxs.3_Missense_Mutation_p.D145N	NM_000434	NP_000425	Q99519	NEUR1_HUMAN	neuraminidase precursor	145						cytoplasmic membrane-bounded vesicle|lysosomal lumen|lysosomal membrane|plasma membrane	exo-alpha-sialidase activity|protein binding			ovary(1)	1					Oseltamivir(DB00198)|Zanamivir(DB00558)	GTCTCAACATCGCTCACTACT	0.512													8	128	---	---	---	---	PASS	T	31829147	T	T	31829147	3	4	163	1	0	0	0	0	1	0	0	0	10341	884	31	2	830	2	NEU1	6	31829147	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	229462	31829147	139285920	477	57812										
C4A	720	broad.mit.edu	37	chr6	31996957	31996957	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttccaggaagcctccatctCaaaggcaagctcatttttgg	8	12	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:31996957C>G	uc011dpd.1	+	28	3569	c.3518C>G	c.(3517-3519)TCA>TGA	p.S1173*	C4A_uc011dpe.1_Nonsense_Mutation_p.S1173*	NM_007293	NP_009224	P0C0L4	CO4A_HUMAN	complement component 4A preproprotein	1173					complement activation, classical pathway|inflammatory response|innate immune response	extracellular space	endopeptidase inhibitor activity				0						GCCTCCATCTCAAAGGCAAGC	0.612													36	261	---	---	---	---	PASS	G	31996957	G	G	31996957	4	3	163	1	0	0	0	0	0	1	0	0	2247	838	29	2		2	C4A	6	31996957	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	167810	31996957	139118110	478	57813										
MAPK14	1432	broad.mit.edu	37	chr6	36041850	36041850	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taaaacctagtaatctagctGtgaatgaagactgtgagctg	10	6	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:36041850G>A	uc003olp.2	+	6	953	c.472G>A	c.(472-474)GTG>ATG	p.V158M	MAPK14_uc011dth.1_Missense_Mutation_p.V158M|MAPK14_uc003olo.2_Missense_Mutation_p.V158M|MAPK14_uc003olq.2_Missense_Mutation_p.V158M|MAPK14_uc003olr.2_Missense_Mutation_p.V158M|MAPK14_uc011dti.1_Missense_Mutation_p.V81M	NM_001315	NP_001306	Q16539	MK14_HUMAN	mitogen-activated protein kinase 14 isoform 1	158	Protein kinase.				activation of MAPK activity|cellular component movement|cellular response to ionizing radiation|chemotaxis|innate immune response|mRNA metabolic process|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of muscle cell differentiation|positive regulation of reactive oxygen species metabolic process|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|signal transduction in response to DNA damage|stress-activated MAPK cascade|stress-induced premature senescence|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|MAP kinase kinase activity|protein binding			ovary(2)|stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	6						TAATCTAGCTGTGAATGAAGA	0.378													68	127	---	---	---	---	PASS	A	36041850	A	A	36041850	3	1	163	1	0	0	0	0	1	0	0	0	9276	1377	48	3	494	3	MAPK14	6	36041850	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4044893	36041850	135073217	479	57814										
C6orf89	221477	broad.mit.edu	37	chr6	36870107	36870107	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctcacacctggcgctcactCatccatcacattaggctgat	7	15	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:36870107C>A	uc003omx.2	+	4	584	c.300C>A	c.(298-300)CTC>CTA	p.L100L	C6orf89_uc003omv.2_5'UTR|C6orf89_uc003omw.2_Silent_p.L107L|C6orf89_uc011dtr.1_5'UTR	NM_152734	NP_689947	Q6UWU4	CF089_HUMAN	hypothetical protein LOC221477	100						integral to membrane				ovary(1)	1						GGCGCTCACTCATCCATCACA	0.493													11	259	---	---	---	---	PASS	A	36870107	A	A	36870107	2	1	163	1	0	0	0	0	0	0	0	1	2373	813	29	2		2	C6orf89	6	36870107	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	828257	36870107	134244960	480	57815										
PI16	221476	broad.mit.edu	37	chr6	36922627	36922627	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgttggagccctcacagatGaggagaaacgtttgatggtg	14	8	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:36922627G>T	uc003ona.2	+	1	419	c.91G>T	c.(91-93)GAG>TAG	p.E31*	PI16_uc003omz.1_Nonsense_Mutation_p.E31*|PI16_uc003onb.2_Nonsense_Mutation_p.E31*	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	31	Extracellular (Potential).					extracellular region|integral to membrane	peptidase inhibitor activity				0						CCTCACAGATGAGGAGAAACG	0.512													6	93	---	---	---	---	PASS	T	36922627	T	T	36922627	4	4	163	1	0	0	0	0	0	1	0	0	11869	1291	45	2	93	2	PI16	6	36922627	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	52520	36922627	134192440	481	57816										
RNF8	9025	broad.mit.edu	37	chr6	37344705	37344705	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gattgtgtgtcttgcaggaaGagaaggagaagatgcaagca	15	4	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:37344705G>C	uc003onq.3	+	6	1325	c.1132G>C	c.(1132-1134)GAG>CAG	p.E378Q	RNF8_uc003onr.3_Missense_Mutation_p.E378Q|RNF8_uc011dtx.1_Missense_Mutation_p.E310Q	NM_003958	NP_003949	O76064	RNF8_HUMAN	ring finger protein 8 isoform 1	378					cell division|double-strand break repair|histone H2A ubiquitination|histone H2B ubiquitination|mitosis|positive regulation of DNA repair|response to ionizing radiation	midbody|nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1						CTTGCAGGAAGAGAAGGAGAA	0.403													13	107	---	---	---	---	PASS	C	37344705	C	C	37344705	3	2	163	1	0	0	0	0	1	0	0	0	13500	943	33	2	1154	2	RNF8	6	37344705	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	422078	37344705	133770362	482	57817										
DNAH8	1769	broad.mit.edu	37	chr6	38850814	38850814	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attttttgatagacaccattGcaaaacaacataaagtaagt	5	6	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:38850814G>T	uc003ooe.1	+	52	7936	c.7336G>T	c.(7336-7338)GCA>TCA	p.A2446S		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AGACACCATTGCAAAACAACA	0.328													78	251	---	---	---	---	PASS	T	38850814	T	T	38850814	3	4	163	1	0	0	0	0	1	0	0	0	4607	1319	46	3	7534	3	DNAH8	6	38850814	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1506109	38850814	132264253	483	57818										
DNAH8	1769	broad.mit.edu	37	chr6	38866091	38866091	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttaccagagacagttcaatGaaatcattagaggaacatct	7	7	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:38866091G>C	uc003ooe.1	+	59	8947	c.8347G>C	c.(8347-8349)GAA>CAA	p.E2783Q		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ACAGTTCAATGAAATCATTAG	0.328													44	324	---	---	---	---	PASS	C	38866091	C	C	38866091	3	2	163	1	0	0	0	0	1	0	0	0	4607	1291	45	2	8573	2	DNAH8	6	38866091	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	15277	38866091	132248976	484	57819										
DNAH8	1769	broad.mit.edu	37	chr6	38883047	38883047	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaagtacaggaggtaaaggAcaaagcccaaaaaattgtgg	12	5	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:38883047A>T	uc003ooe.1	+	66	9983	c.9383A>T	c.(9382-9384)GAC>GTC	p.D3128V	uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GAGGTAAAGGACAAAGCCCAA	0.418													37	57	---	---	---	---	PASS	T	38883047	T	T	38883047	3	4	163	1	0	0	0	0	1	0	0	0	4607	275	10	5	9637	5	DNAH8	6	38883047	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	16956	38883047	132232020	485	57820										
LRFN2	57497	broad.mit.edu	37	chr6	40399929	40399929	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccccaatggctttgcacttGagtgtggccgcctggccctc	11	15	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:40399929G>A	uc003oph.1	-	2	1389	c.924C>T	c.(922-924)CTC>CTT	p.L308L		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	308	Extracellular (Potential).|Ig-like.					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					CTTTGCACTTGAGTGTGGCCG	0.597													19	94	---	---	---	---	PASS	A	40399929	A	A	40399929	2	1	163	1	0	0	0	0	0	0	0	1	8938	1277	45	2		2	LRFN2	6	40399929	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1516882	40399929	130715138	486	57821										
PGC	5225	broad.mit.edu	37	chr6	41704736	41704736	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gactcccacggtgcagtagcCgttgttctgctcaacaaaga	10	12	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:41704736C>A	uc003ora.1	-	9	1070	c.1021G>T	c.(1021-1023)GGC>TGC	p.G341C	TFEB_uc003oqs.1_5'Flank|TFEB_uc003oqt.1_5'Flank|TFEB_uc003oqu.1_5'Flank|TFEB_uc010jxq.1_5'Flank	NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor	341					digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GTGCAGTAGCCGTTGTTCTGC	0.378													3	35	---	---	---	---	PASS	A	41704736	A	A	41704736	3	1	163	1	0	0	0	0	1	0	0	0	11785	652	23	1	149	1	PGC	6	41704736	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1304807	41704736	129410331	487	57822										
TRERF1	55809	broad.mit.edu	37	chr6	42237280	42237280	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgttggtagaaaaggttctCactaccatgggccacatggt	11	9	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:42237280C>G	uc003osd.2	-	5	612	c.49G>C	c.(49-51)GAG>CAG	p.E17Q	TRERF1_uc011duq.1_Missense_Mutation_p.E17Q|TRERF1_uc003osb.2_5'UTR|TRERF1_uc003osc.2_5'UTR|TRERF1_uc003ose.2_Missense_Mutation_p.E17Q|TRERF1_uc010jxu.1_RNA	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	17					cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			AAAAGGTTCTCACTACCATGG	0.527													14	140	---	---	---	---	PASS	G	42237280	G	G	42237280	3	3	163	1	0	0	0	0	1	0	0	0	16472	835	29	2	3609	2	TRERF1	6	42237280	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	532544	42237280	128877787	488	57823										
SRF	6722	broad.mit.edu	37	chr6	43143550	43143550	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcaagtcagcagcggcccctCctttcccatcaccaactacc	6	19	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:43143550C>G	uc003oui.2	+	3	1362	c.887C>G	c.(886-888)TCC>TGC	p.S296C	SRF_uc011dvf.1_Missense_Mutation_p.S92C	NM_003131	NP_003122	P11831	SRF_HUMAN	serum response factor (c-fos serum response	296					angiogenesis involved in wound healing|cell migration involved in sprouting angiogenesis|cellular senescence|heart looping|muscle cell homeostasis|neuron development|positive regulation of cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of smooth muscle cell differentiation|response to cytokine stimulus|response to hormone stimulus|response to toxin|transcription from RNA polymerase II promoter|trophectodermal cell differentiation	endoplasmic reticulum	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			ovary(1)|breast(1)|central_nervous_system(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.011)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			AGCGGCCCCTCCTTTCCCATC	0.592													34	187	---	---	---	---	PASS	G	43143550	G	G	43143550	3	3	163	1	0	0	0	0	1	0	0	0	15142	855	30	2	897	2	SRF	6	43143550	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	906270	43143550	127971517	489	57824										
CUL9	23113	broad.mit.edu	37	chr6	43153205	43153205	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggattacagggagtcgggctCacgtccttctatcactgagc	12	11	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:43153205C>G	uc003ouk.2	+	3	682	c.607C>G	c.(607-609)CAC>GAC	p.H203D	CUL9_uc003ouj.1_Missense_Mutation_p.H203D|CUL9_uc003oul.2_Missense_Mutation_p.H203D|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_5'Flank	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	203					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GAGTCGGGCTCACGTCCTTCT	0.488													14	88	---	---	---	---	PASS	G	43153205	G	G	43153205	3	3	163	1	0	0	0	0	1	0	0	0	4061	826	29	2	613	2	CUL9	6	43153205	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	9655	43153205	127961862	490	57825										
CUL9	23113	broad.mit.edu	37	chr6	43153813	43153813	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaagctccccatgtgccacaAgagagaaaagccggggacag	12	11	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:43153813A>G	uc003ouk.2	+	4	946	c.871A>G	c.(871-873)AGA>GGA	p.R291G	CUL9_uc003ouj.1_Missense_Mutation_p.R291G|CUL9_uc003oul.2_Missense_Mutation_p.R291G|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_5'Flank	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	291					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						ATGTGCCACAAGAGAGAAAAG	0.592													32	131	---	---	---	---	PASS	G	43153813	G	G	43153813	3	3	163	1	0	0	0	0	1	0	0	0	4061	64	3	5	881	5	CUL9	6	43153813	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	608	43153813	127961254	491	57826										
ABCC10	89845	broad.mit.edu	37	chr6	43400778	43400778	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggtatataaggtaacacttCaggcacggggggctgtgctg	15	7	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:43400778C>A	uc003ouy.1	+	3	1275	c.1060C>A	c.(1060-1062)CAG>AAG	p.Q354K	ABCC10_uc003ouz.1_Missense_Mutation_p.Q311K|ABCC10_uc010jyo.1_5'Flank	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	354	ABC transmembrane type-1 1.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances	p.Q311*(1)		ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			GGTAACACTTCAGGCACGGGG	0.592													8	191	---	---	---	---	PASS	A	43400778	A	A	43400778	3	1	163	1	0	0	0	0	1	0	0	0	50	827	29	2	933	2	ABCC10	6	43400778	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	246965	43400778	127714289	492	57827										
ABCC10	89845	broad.mit.edu	37	chr6	43417159	43417159	+	Splice_Site	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taccccattcccatattccaGatcctgtgtatcgatgaggc	7	13	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:43417159G>C	uc003ouy.1	+	21	4419	c.4204_splice	c.e21-1	p.I1402_splice	ABCC10_uc003ouz.1_Splice_Site_p.I1374_splice|ABCC10_uc010jyo.1_Splice_Site_p.I508_splice	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10							integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CCATATTCCAGATCCTGTGTA	0.567													9	140	---	---	---	---	PASS	C	43417159	C	C	43417159	5	2	163	1	0	0	0	0	0	0	1	0	50	956	33	2	4193	2	ABCC10	6	43417159	Splice_Site	SNP	G	TCGA-66-2785-01A-01D-1522-08	16381	43417159	127697908	493	57828										
TJAP1	93643	broad.mit.edu	37	chr6	43473279	43473279	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccatagccccgctgacagaGatgaggtggtccaggcacct	12	14	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:43473279G>C	uc003ovd.2	+	11	1736	c.1360G>C	c.(1360-1362)GAT>CAT	p.D454H	TJAP1_uc003ovf.2_Missense_Mutation_p.D444H|TJAP1_uc003ove.2_Missense_Mutation_p.D444H|TJAP1_uc003ovc.2_Missense_Mutation_p.D444H|TJAP1_uc010jyp.2_Missense_Mutation_p.D413H|TJAP1_uc011dvh.1_Missense_Mutation_p.D444H|TJAP1_uc003ovg.2_Missense_Mutation_p.D320H|TJAP1_uc011dvi.1_Missense_Mutation_p.D454H|TJAP1_uc011dvj.1_Missense_Mutation_p.D254H|TJAP1_uc003ovi.2_Missense_Mutation_p.D320H	NM_001146016	NP_001139488	Q5JTD0	TJAP1_HUMAN	tight junction associated protein 1 isoform a	454						Golgi apparatus|tight junction	protein binding				0	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0122)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CGCTGACAGAGATGAGGTGGT	0.607													16	250	---	---	---	---	PASS	C	43473279	C	C	43473279	3	2	163	1	0	0	0	0	1	0	0	0	15925	942	33	2	1390	2	TJAP1	6	43473279	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	56120	43473279	127641788	494	57829										
TMEM63B	55362	broad.mit.edu	37	chr6	44107446	44107446	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccctcttcccaccccacagaGaacaatgcctacagctttgg	6	17	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:44107446G>C	uc003owr.2	+	8	616	c.552G>C	c.(550-552)GAG>GAC	p.E184D	TMEM63B_uc003owq.1_Missense_Mutation_p.E184D|TMEM63B_uc010jyy.1_Missense_Mutation_p.E87D|TMEM63B_uc003ows.2_Missense_Mutation_p.E87D|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	184						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			ACCCCACAGAGAACAATGCCT	0.592													7	280	---	---	---	---	PASS	C	44107446	C	C	44107446	3	2	163	1	0	0	0	0	1	0	0	0	16188	956	33	2	578	2	TMEM63B	6	44107446	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	634167	44107446	127007621	495	57830										
TMEM63B	55362	broad.mit.edu	37	chr6	44116030	44116030	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acaaagctggagcagaagctGaaggaagactacaagcggga	14	7	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:44116030G>A	uc003owr.2	+	13	1093	c.1029G>A	c.(1027-1029)CTG>CTA	p.L343L	TMEM63B_uc003owq.1_Silent_p.L343L|TMEM63B_uc003ows.2_Silent_p.L246L|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	343						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			AGCAGAAGCTGAAGGAAGACT	0.547													21	178	---	---	---	---	PASS	A	44116030	A	A	44116030	2	1	163	1	0	0	0	0	0	0	0	1	16188	1277	45	2		2	TMEM63B	6	44116030	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	8584	44116030	126999037	496	57831										
HSP90AB1	3326	broad.mit.edu	37	chr6	44217143	44217143	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagattcgctatgagagcctGacagacccttcgaagttgga	11	9	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:44217143G>C	uc003oxa.1	+	3	261	c.177G>C	c.(175-177)CTG>CTC	p.L59L	HSP90AB1_uc011dvr.1_Silent_p.L59L|HSP90AB1_uc003oxb.1_Silent_p.L59L|HSP90AB1_uc011dvs.1_5'UTR|HSP90AB1_uc003oxc.1_5'Flank	NM_007355	NP_031381	P08238	HS90B_HUMAN	heat shock 90kDa protein 1, beta	59					axon guidance|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of nitric oxide biosynthetic process|protein folding|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to unfolded protein	cytosol|melanosome	ATP binding|nitric-oxide synthase regulator activity|TPR domain binding|unfolded protein binding			lung(3)|breast(1)	4	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			ATGAGAGCCTGACAGACCCTT	0.368													16	162	---	---	---	---	PASS	C	44217143	C	C	44217143	2	2	163	1	0	0	0	0	0	0	0	1	7402	1277	45	2		2	HSP90AB1	6	44217143	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	101113	44217143	126897924	497	57832										
TDRD6	221400	broad.mit.edu	37	chr6	46669616	46669616	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaaggggtttggaggtgatgGagatttaaccgtggatctat	15	3	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:46669616G>T	uc003oyj.2	+	4	6283	c.6283G>T	c.(6283-6285)GAG>TAG	p.E2095*	TDRD6_uc010jze.2_Nonsense_Mutation_p.E2059*	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	2095					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			GGAGGTGATGGAGATTTAACC	0.383													42	346	---	---	---	---	PASS	T	46669616	T	T	46669616	4	4	163	1	0	0	0	0	0	1	0	0	15731	1175	41	2	6297	2	TDRD6	6	46669616	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2452473	46669616	124445451	498	57833										
OPN5	221391	broad.mit.edu	37	chr6	47762984	47762984	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggggtttggctgaaaagaaaGcacgcctacatctgcctggc	13	10	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:47762984G>C	uc003ozc.2	+	4	446	c.441G>C	c.(439-441)AAG>AAC	p.K147N	OPN5_uc003ozd.2_5'UTR	NM_181744	NP_859528	Q6U736	OPN5_HUMAN	opsin 5 isoform 1	147	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1						TGAAAAGAAAGCACGCCTACA	0.517													13	59	---	---	---	---	PASS	C	47762984	C	C	47762984	3	2	163	1	0	0	0	0	1	0	0	0	10883	962	34	4	455	4	OPN5	6	47762984	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1093368	47762984	123352083	499	57834										
ICK	22858	broad.mit.edu	37	chr6	52874338	52874338	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taaattccttgcctggattcGagagtatgccatttcttata	7	8	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:52874338G>A	uc003pbh.2	-	13	2010	c.1520C>T	c.(1519-1521)TCG>TTG	p.S507L	ICK_uc003pbi.2_Missense_Mutation_p.S507L	NM_016513	NP_057597	Q9UPZ9	ICK_HUMAN	intestinal cell kinase	507					intracellular protein kinase cascade|multicellular organismal development	cytosol|nucleus	ATP binding|cyclin-dependent protein kinase activity|magnesium ion binding			ovary(1)|large_intestine(1)|lung(1)|kidney(1)|central_nervous_system(1)	5	Lung NSC(77;0.103)					GCCTGGATTCGAGAGTATgcc	0.264													81	138	---	---	---	---	PASS	A	52874338	A	A	52874338	3	1	163	1	0	0	0	0	1	0	0	0	7484	1059	37	2	390	2	ICK	6	52874338	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5111354	52874338	118240729	500	57835										
GFRAL	389400	broad.mit.edu	37	chr6	55214895	55214895	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgttttccttctagataacGtgaaagaggataaattcaaa	7	5	2	3	rs147652095	byFrequency	TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:55214895G>T	uc003pcm.1	+	4	408	c.322G>T	c.(322-324)GTG>TTG	p.V108L		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	108	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			TCTAGATAACGTGAAAGAGGA	0.299													45	91	---	---	---	---	PASS	T	55214895	T	T	55214895	3	4	163	1	0	0	0	0	1	0	0	0	6351	1145	40	1	336	1	GFRAL	6	55214895	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2340557	55214895	115900172	501	57836										
DST	667	broad.mit.edu	37	chr6	56504285	56504285	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcctagctatgttggtgtttCtctcactccagtcataagca	7	11	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:56504285C>G	uc003pdf.2	-	20	2751	c.2723G>C	c.(2722-2724)AGA>ACA	p.R908T	DST_uc003pcz.3_Missense_Mutation_p.R730T|DST_uc011dxj.1_Missense_Mutation_p.R759T|DST_uc011dxk.1_Missense_Mutation_p.R770T|DST_uc011dxl.1_Missense_Mutation_p.R759T|DST_uc003pcy.3_Missense_Mutation_p.R404T|DST_uc003pdb.2_Missense_Mutation_p.R404T|DST_uc003pdc.3_Missense_Mutation_p.R404T|DST_uc003pdd.3_Missense_Mutation_p.R404T|DST_uc003pde.2_Missense_Mutation_p.R846T	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	730	Spectrin 1.				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)			GTTGGTGTTTCTCTCACTCCA	0.353													46	332	---	---	---	---	PASS	G	56504285	G	G	56504285	3	3	163	1	0	0	0	0	1	0	0	0	4783	913	32	2	19256	2	DST	6	56504285	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1289390	56504285	114610782	502	57837										
PHF3	23469	broad.mit.edu	37	chr6	64421998	64421998	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttaaatgagcagaccaactCaaaaatagagaaaacagata	6	6	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:64421998C>G	uc003pep.1	+	15	4540	c.4514C>G	c.(4513-4515)TCA>TGA	p.S1505*	PHF3_uc003pen.2_Nonsense_Mutation_p.S1417*|PHF3_uc011dxs.1_Nonsense_Mutation_p.S774*	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	1505					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			CAGACCAACTCAAAAATAGAG	0.358													26	140	---	---	---	---	PASS	G	64421998	G	G	64421998	4	3	163	1	0	0	0	0	0	1	0	0	11836	838	29	2	4572	2	PHF3	6	64421998	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	7917713	64421998	106693069	503	57838										
BAI3	577	broad.mit.edu	37	chr6	69703688	69703688	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcaccttgctaaggggcagcGaatgctggcaggtgatggaa	16	8	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:69703688G>C	uc003pev.3	+	11	2211	c.1763G>C	c.(1762-1764)CGA>CCA	p.R588P	BAI3_uc010kak.2_Missense_Mutation_p.R588P	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	588	Extracellular (Potential).				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)				AAGGGGCAGCGAATGCTGGCA	0.418													58	509	---	---	---	---	PASS	C	69703688	C	C	69703688	3	2	163	1	0	0	0	0	1	0	0	0	1300	1058	37	2	1797	2	BAI3	6	69703688	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5281690	69703688	101411379	504	57839										
LMBRD1	55788	broad.mit.edu	37	chr6	70386398	70386398	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actgaagaaccagaacttgtGaaggaataggtatgtccggg	13	6	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:70386398G>A	uc003pfa.2	-	15	1568	c.1453C>T	c.(1453-1455)CAC>TAC	p.H485Y	LMBRD1_uc003pey.2_Missense_Mutation_p.H281Y|LMBRD1_uc003pez.2_Missense_Mutation_p.H412Y|LMBRD1_uc010kal.2_Missense_Mutation_p.H412Y|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	485	Extracellular (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						CAGAACTTGTGAAGGAATAGG	0.383													14	97	---	---	---	---	PASS	A	70386398	A	A	70386398	3	1	163	1	0	0	0	0	1	0	0	0	8842	1290	45	2	177	2	LMBRD1	6	70386398	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	682710	70386398	100728669	505	57840										
COL19A1	1310	broad.mit.edu	37	chr6	70859600	70859600	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctcatttgtactcagggcgCccaaggaccagctggagagc	12	12	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:70859600C>G	uc003pfc.1	+	28	2015	c.1898C>G	c.(1897-1899)GCC>GGC	p.A633G	COL19A1_uc010kam.1_Missense_Mutation_p.A529G	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	633	Triple-helical region 3 (COL3).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						ACTCAGGGCGCCCAAGGACCA	0.378													44	81	---	---	---	---	PASS	G	70859600	G	G	70859600	3	3	163	1	0	0	0	0	1	0	0	0	3676	739	26	4	2004	4	COL19A1	6	70859600	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	473202	70859600	100255467	506	57841										
FAM135A	57579	broad.mit.edu	37	chr6	71236201	71236201	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaaataaacagtgactatctGagagatggtataaacatgcc	8	6	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:71236201G>C	uc003pfj.2	+	13	3547	c.3414G>C	c.(3412-3414)CTG>CTC	p.L1138L	FAM135A_uc003pfi.2_Silent_p.L942L|FAM135A_uc003pfh.2_Silent_p.L925L|FAM135A_uc003pfl.2_Silent_p.L805L|FAM135A_uc003pfn.2_Silent_p.L344L|FAM135A_uc003pfo.1_Silent_p.L509L|FAM135A_uc010kan.1_5'Flank	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	1138										central_nervous_system(1)	1						GTGACTATCTGAGAGATGGTA	0.368													45	385	---	---	---	---	PASS	C	71236201	C	C	71236201	2	2	163	1	0	0	0	0	0	0	0	1	5448	1277	45	2		2	FAM135A	6	71236201	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	376601	71236201	99878866	507	57842										
KCNQ5	56479	broad.mit.edu	37	chr6	73815019	73815019	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctatggagacaaaactcccCtaacttggctgggaagattg	11	9	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:73815019C>A	uc003pgk.2	+	6	1305	c.958C>A	c.(958-960)CTA>ATA	p.L320I	KCNQ5_uc003pgj.3_Missense_Mutation_p.L320I|KCNQ5_uc011dyh.1_Missense_Mutation_p.L320I|KCNQ5_uc011dyi.1_Missense_Mutation_p.L320I|KCNQ5_uc010kat.2_Missense_Mutation_p.L320I|KCNQ5_uc011dyj.1_Missense_Mutation_p.L320I|KCNQ5_uc011dyk.1_Missense_Mutation_p.L79I	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	320					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CAAAACTCCCCTAACTTGGCT	0.408													123	432	---	---	---	---	PASS	A	73815019	A	A	73815019	3	1	163	1	0	0	0	0	1	0	0	0	8086	680	24	3	980	3	KCNQ5	6	73815019	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2578818	73815019	97300048	508	57843										
CD109	135228	broad.mit.edu	37	chr6	74466381	74466381	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aataggaccagacatactatCaatcatttcaggtttcagaa	6	8	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:74466381C>G	uc003php.2	+	6	1074	c.649C>G	c.(649-651)CAA>GAA	p.Q217E	CD109_uc010kaz.2_Missense_Mutation_p.Q217E|CD109_uc003phq.2_Missense_Mutation_p.Q217E|CD109_uc010kba.2_Missense_Mutation_p.Q140E	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	217						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						GACATACTATCAATCATTTCA	0.313													34	275	---	---	---	---	PASS	G	74466381	G	G	74466381	3	3	163	1	0	0	0	0	1	0	0	0	2963	827	29	2	671	2	CD109	6	74466381	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	651362	74466381	96648686	509	57844										
IRAK1BP1	134728	broad.mit.edu	37	chr6	79607914	79607914	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagaatgggaaggccaaataGatgatcaccagtcatccaga	10	8	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:79607914G>C	uc003pim.2	+	4	751	c.646G>C	c.(646-648)GAT>CAT	p.D216H	IRAK1BP1_uc010kbg.1_Intron|IRAK1BP1_uc003pin.2_Missense_Mutation_p.D129H	NM_001010844	NP_001010844	Q5VVH5	IKBP1_HUMAN	interleukin-1 receptor-associated kinase 1	216					I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus					0		all_cancers(76;0.0398)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)		BRCA - Breast invasive adenocarcinoma(397;0.21)		AGGCCAAATAGATGATCACCA	0.363													3	127	---	---	---	---	PASS	C	79607914	C	C	79607914	3	2	163	1	0	0	0	0	1	0	0	0	7822	942	33	2	660	2	IRAK1BP1	6	79607914	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5141533	79607914	91507153	510	57845										
PHIP	55023	broad.mit.edu	37	chr6	79650830	79650830	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaaggaagtacttcatctctGatgggatgcacattattttg	10	6	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:79650830G>C	uc003pir.2	-	40	5272	c.5046C>G	c.(5044-5046)ATC>ATG	p.I1682M	PHIP_uc003piq.2_Missense_Mutation_p.I706M|PHIP_uc011dyp.1_Missense_Mutation_p.I1681M|IRAK1BP1_uc010kbg.1_Intron|PHIP_uc003pio.3_Missense_Mutation_p.I568M	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1682					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)		CTTCATCTCTGATGGGATGCA	0.363													18	553	---	---	---	---	PASS	C	79650830	C	C	79650830	3	2	163	1	0	0	0	0	1	0	0	0	11842	1280	45	2	423	2	PHIP	6	79650830	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	42916	79650830	91464237	511	57846										
UBE2CBP	90025	broad.mit.edu	37	chr6	83748181	83748181	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accttgcaacgcttacaaatTactttggtatttgcctttgg	7	9	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:83748181T>C	uc003pjp.2	-	5	729	c.621A>G	c.(619-621)GTA>GTG	p.V207V	UBE2CBP_uc011dyx.1_RNA|UBE2CBP_uc003pjr.2_Silent_p.V175V	NM_198920	NP_944602	Q7Z6J8	UB2CB_HUMAN	ubiquitin-conjugating enzyme E2C binding	207						cytoplasm	ligase activity			ovary(1)	1		all_cancers(76;0.000374)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0548)		BRCA - Breast invasive adenocarcinoma(397;0.0944)		GCTTACAAATTACTTTGGTAT	0.348													61	196	---	---	---	---	PASS	C	83748181	C	C	83748181	2	2	163	1	0	0	0	0	0	0	0	1	16844	1741	61	5		5	UBE2CBP	6	83748181	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	4097351	83748181	87366886	512	57847										
ANKRD6	22881	broad.mit.edu	37	chr6	90333770	90333770	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cggggcaaggatgggaaagtGatgcaggtacctgcaaagca	16	7	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:90333770G>A	uc003pni.3	+	12	1553	c.1212G>A	c.(1210-1212)GTG>GTA	p.V404V	ANKRD6_uc003pne.3_Silent_p.V404V|ANKRD6_uc003pnf.3_Silent_p.V369V|ANKRD6_uc011dzy.1_Silent_p.V404V|ANKRD6_uc010kcd.2_Silent_p.V345V|LYRM2_uc010kce.1_Intron|LYRM2_uc003png.2_Intron|ANKRD6_uc003pnh.3_5'UTR|LYRM2_uc010kcf.1_Intron|ANKRD6_uc003pnj.3_5'UTR	NM_014942	NP_055757	Q9Y2G4	ANKR6_HUMAN	ankyrin repeat domain 6	404							protein binding			ovary(2)|pancreas(1)	3		all_cancers(76;1.22e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;1.83e-05)|Lung NSC(302;0.239)		BRCA - Breast invasive adenocarcinoma(108;0.0209)		ATGGGAAAGTGATGCAGGTAC	0.527													11	25	---	---	---	---	PASS	A	90333770	A	A	90333770	2	1	163	1	0	0	0	0	0	0	0	1	685	1277	45	2		2	ANKRD6	6	90333770	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	6585589	90333770	80781297	513	57848										
MDN1	23195	broad.mit.edu	37	chr6	90382322	90382322	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cctctgctttttcattctttCtttcttctaagttctggatg	5	10	7	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:90382322C>G	uc003pnn.1	-	81	13690	c.13574G>C	c.(13573-13575)AGA>ACA	p.R4525T		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4525					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)		TTCATTCTTTCTTTCTTCTAA	0.403													5	229	---	---	---	---	PASS	G	90382322	G	G	90382322	3	3	163	1	0	0	0	0	1	0	0	0	9415	913	32	2	3304	2	MDN1	6	90382322	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	48552	90382322	80732745	514	57849										
MDN1	23195	broad.mit.edu	37	chr6	90440532	90440532	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctgtcataaatcttcaactCatttttctgatattctgtaa	3	8	7	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:90440532C>G	uc003pnn.1	-	35	5169	c.5053G>C	c.(5053-5055)GAG>CAG	p.E1685Q		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1685					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)		ATCTTCAACTCATTTTTCTGA	0.368													24	186	---	---	---	---	PASS	G	90440532	G	G	90440532	3	3	163	1	0	0	0	0	1	0	0	0	9415	835	29	2	12009	2	MDN1	6	90440532	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	58210	90440532	80674535	515	57850										
CASP8AP2	9994	broad.mit.edu	37	chr6	90574048	90574048	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagcaaaagttcttagaaatGaaagcccacctcaagttcca	6	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:90574048G>C	uc003pnr.2	+	7	2816	c.2620G>C	c.(2620-2622)GAA>CAA	p.E874Q	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.E874Q|CASP8AP2_uc011dzz.1_Missense_Mutation_p.E874Q	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	874					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		TCTTAGAAATGAAAGCCCACC	0.358													3	28	---	---	---	---	PASS	C	90574048	C	C	90574048	3	2	163	1	0	0	0	0	1	0	0	0	2678	1291	45	2	2642	2	CASP8AP2	6	90574048	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	133516	90574048	80541019	516	57851										
CASP8AP2	9994	broad.mit.edu	37	chr6	90576206	90576206	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attttcattaatacaatttcAcagaattattgagtcagcaa	4	6	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:90576206A>G	uc003pnr.2	+	8	3393	c.3197A>G	c.(3196-3198)CAC>CGC	p.H1066R	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.H1066R|CASP8AP2_uc011dzz.1_Missense_Mutation_p.H1066R	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	1066					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		ATACAATTTCACAGAATTATT	0.284													10	22	---	---	---	---	PASS	G	90576206	G	G	90576206	3	3	163	1	0	0	0	0	1	0	0	0	2678	159	6	5	3223	5	CASP8AP2	6	90576206	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	2158	90576206	80538861	517	57852										
CASP8AP2	9994	broad.mit.edu	37	chr6	90578413	90578413	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcgacttgaccacagaatctCccagttcatgtgaagtaaaa	7	10	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:90578413C>A	uc003pnr.2	+	8	5600	c.5404C>A	c.(5404-5406)CCC>ACC	p.P1802T	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.P1802T|CASP8AP2_uc011dzz.1_Missense_Mutation_p.P1802T	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	1802	NCOA2-binding.				cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		CACAGAATCTCCCAGTTCATG	0.383													34	52	---	---	---	---	PASS	A	90578413	A	A	90578413	3	1	163	1	0	0	0	0	1	0	0	0	2678	855	30	2	5430	2	CASP8AP2	6	90578413	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2207	90578413	80536654	518	57853										
EPHA7	2045	broad.mit.edu	37	chr6	93956688	93956688	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggtaaacgataaccttcttCtattgcttttataacctaat	4	8	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:93956688C>G	uc003poe.2	-	15	2789	c.2548G>C	c.(2548-2550)GAA>CAA	p.E850Q	EPHA7_uc003pof.2_Missense_Mutation_p.E845Q|EPHA7_uc011eac.1_Missense_Mutation_p.E846Q	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	850	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		TAACCTTCTTCTATTGCTTTT	0.378													10	113	---	---	---	---	PASS	G	93956688	G	G	93956688	3	3	163	1	0	0	0	0	1	0	0	0	5172	922	32	2	460	2	EPHA7	6	93956688	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3378275	93956688	77158379	519	57854										
POU3F2	5454	broad.mit.edu	37	chr6	99283482	99283482	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agccgccgcccccgccgcccCcgcagggtccgcctggccac	12	24	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:99283482C>T	uc003ppe.2	+	1	903	c.733C>T	c.(733-735)CCG>TCG	p.P245S		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	245					positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)		cccgccgcccccgcAGGGTCC	0.627													20	69	---	---	---	---	PASS	T	99283482	T	T	99283482	3	4	163	1	0	0	0	0	1	0	0	0	12275	623	22	3	735	3	POU3F2	6	99283482	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5326794	99283482	71831585	520	57855										
PRDM13	59336	broad.mit.edu	37	chr6	100062549	100062549	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccccggagcctggggatcccAagagcgacgacagtgacgtg	15	13	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:100062549A>G	uc003pqg.1	+	4	2299	c.2038A>G	c.(2038-2040)AAG>GAG	p.K680E		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	680					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		TGGGGATCCCAAGAGCGACGA	0.692													32	73	---	---	---	---	PASS	G	100062549	G	G	100062549	3	3	163	1	0	0	0	0	1	0	0	0	12454	131	5	5	2052	5	PRDM13	6	100062549	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	779067	100062549	71052518	521	57856										
ASCC3	10973	broad.mit.edu	37	chr6	101095199	101095199	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtaggattgaaaattgtctCaaagggctagcccaacccca	10	10	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:101095199C>G	uc003pqk.2	-	21	3710	c.3381G>C	c.(3379-3381)TTG>TTC	p.L1127F	ASCC3_uc011eai.1_Missense_Mutation_p.L1029F	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1127	SEC63 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		AAAATTGTCTCAAAGGGCTAG	0.413													20	187	---	---	---	---	PASS	G	101095199	G	G	101095199	3	3	163	1	0	0	0	0	1	0	0	0	1033	825	29	2	3315	2	ASCC3	6	101095199	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1032650	101095199	70019868	522	57857										
AKD1	221264	broad.mit.edu	37	chr6	109867070	109867070	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acaaaaaaagagattactacCtgcttttttgtattttcttc	4	7	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:109867070C>G	uc003ptn.2	-	26	3302	c.3225G>C	c.(3223-3225)CAG>CAC	p.Q1075H	AKD1_uc011eat.1_Missense_Mutation_p.Q154H	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1075					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						AGATTACTACCTGCTTTTTTG	0.224													27	222	---	---	---	---	PASS	G	109867070	G	G	109867070	3	3	163	1	0	0	0	0	1	0	0	0	460	695	24	4	2574	4	AKD1	6	109867070	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	8771871	109867070	61247997	523	57858										
REV3L	5980	broad.mit.edu	37	chr6	111634600	111634600	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttctgactgtttctattccTtttgcatcaaatactgggtc	6	10	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:111634600T>C	uc003puy.3	-	28	8882	c.8559A>G	c.(8557-8559)AAA>AAG	p.K2853K	REV3L_uc003pux.3_Silent_p.K2775K|REV3L_uc003puz.3_Silent_p.K2775K|REV3L_uc003pva.1_RNA	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2853					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TTTCTATTCCTTTTGCATCAA	0.383								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					28	203	---	---	---	---	PASS	C	111634600	C	C	111634600	2	2	163	1	0	0	0	0	0	0	0	1	13240	1606	56	5		5	REV3L	6	111634600	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	1767530	111634600	59480467	524	57859										
REV3L	5980	broad.mit.edu	37	chr6	111737632	111737632	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taaccatcgtatggcacataGaggtaaggaaagatgccatg	11	7	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:111737632G>C	uc003puy.3	-	2	506	c.183C>G	c.(181-183)CTC>CTG	p.L61L	REV3L_uc003pux.3_5'UTR|REV3L_uc003puz.3_5'UTR	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	61					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		ATGGCACATAGAGGTAAGGAA	0.388								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					21	65	---	---	---	---	PASS	C	111737632	C	C	111737632	2	2	163	1	0	0	0	0	0	0	0	1	13240	929	33	2		2	REV3L	6	111737632	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	103032	111737632	59377435	525	57860										
LAMA4	3910	broad.mit.edu	37	chr6	112439049	112439049	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagcagaggtgatggaggccCcattgagctggagattgctg	16	7	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:112439049C>A	uc003pvu.2	-	35	5183	c.4874G>T	c.(4873-4875)GGG>GTG	p.G1625V	LAMA4_uc003pvv.2_Missense_Mutation_p.G1618V|LAMA4_uc003pvt.2_Missense_Mutation_p.G1618V	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1625	Laminin G-like 4.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		GATGGAGGCCCCATTGAGCTG	0.438													45	112	---	---	---	---	PASS	A	112439049	A	A	112439049	3	1	163	1	0	0	0	0	1	0	0	0	8608	623	22	3	617	3	LAMA4	6	112439049	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	701417	112439049	58676018	526	57861										
DSE	29940	broad.mit.edu	37	chr6	116747819	116747819	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgcttatgacttcttgtacAactacctgagcaagacacaa	6	11	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:116747819A>C	uc003pws.2	+	3	693	c.499A>C	c.(499-501)AAC>CAC	p.N167H	DSE_uc011ebf.1_Missense_Mutation_p.N167H|DSE_uc011ebg.1_Missense_Mutation_p.N186H|DSE_uc003pwt.2_Missense_Mutation_p.N167H	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	167					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		CTTCTTGTACAACTACCTGAG	0.443													29	170	---	---	---	---	PASS	C	116747819	C	C	116747819	3	2	163	1	0	0	0	0	1	0	0	0	4774	130	5	5	505	5	DSE	6	116747819	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	4308770	116747819	54367248	527	57862										
SLC35F1	222553	broad.mit.edu	37	chr6	118635325	118635325	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccttcaggacctgttgtggaCttaccgaccacagctcaggt	10	13	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:118635325C>G	uc003pxx.3	+	8	1338	c.1137C>G	c.(1135-1137)GAC>GAG	p.D379E	SLC35F1_uc003pxy.1_Missense_Mutation_p.D184E	NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	379					transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		CTGTTGTGGACTTACCGACCA	0.592													42	183	---	---	---	---	PASS	G	118635325	G	G	118635325	3	3	163	1	0	0	0	0	1	0	0	0	14588	564	20	4	1167	4	SLC35F1	6	118635325	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1887506	118635325	52479742	528	57863										
NCOA7	135112	broad.mit.edu	37	chr6	126176272	126176272	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atacagtagttttagagccaGacaagtgcaacattgctgtg	10	7	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:126176272G>C	uc010kes.2	+	5	606	c.157G>C	c.(157-159)GAC>CAC	p.D53H	NCOA7_uc003qae.3_Missense_Mutation_p.D53H|NCOA7_uc003qah.2_Missense_Mutation_p.D53H|NCOA7_uc003qai.2_Missense_Mutation_p.D53H|NCOA7_uc010ket.2_Intron|NCOA7_uc003qaf.2_Missense_Mutation_p.D53H|NCOA7_uc003qag.2_Missense_Mutation_p.D53H|NCOA7_uc003qaj.2_Missense_Mutation_p.D53H	NM_181782	NP_861447	Q8NI08	NCOA7_HUMAN	nuclear receptor coactivator 7 isoform 1	53					cell wall macromolecule catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)		TTTAGAGCCAGACAAGTGCAA	0.378													28	292	---	---	---	---	PASS	C	126176272	C	C	126176272	3	2	163	1	0	0	0	0	1	0	0	0	10234	942	33	2	163	2	NCOA7	6	126176272	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	7540947	126176272	44938795	529	57864										
PTPRK	5796	broad.mit.edu	37	chr6	128304106	128304106	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggcttctaaaatggcatcaTgaataaaaatgtactgttcc	7	7	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:128304106T>C	uc003qbk.2	-	24	3771	c.3404A>G	c.(3403-3405)CAT>CGT	p.H1135R	PTPRK_uc003qbj.2_Missense_Mutation_p.H1136R|PTPRK_uc010kfc.2_Missense_Mutation_p.H1142R|PTPRK_uc011ebu.1_Missense_Mutation_p.H1158R	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	1135	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		AATGGCATCATGAATAAAAAT	0.318													52	112	---	---	---	---	PASS	C	128304106	C	C	128304106	3	2	163	1	0	0	0	0	1	0	0	0	12805	1464	51	5	943	5	PTPRK	6	128304106	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	2127834	128304106	42810961	530	57865										
LAMA2	3908	broad.mit.edu	37	chr6	129691052	129691052	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcagcacttgctgtcacctCagcgggccccagagaggctt	11	14	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:129691052C>T	uc003qbn.2	+	34	4981	c.4876C>T	c.(4876-4878)CAG>TAG	p.Q1626*	LAMA2_uc003qbo.2_Nonsense_Mutation_p.Q1626*	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1626	Domain II and I.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GCTGTCACCTCAGCGGGCCCC	0.443													5	138	---	---	---	---	PASS	T	129691052	T	T	129691052	4	4	163	1	0	0	0	0	0	1	0	0	8606	827	29	2	5010	2	LAMA2	6	129691052	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1386946	129691052	41424015	531	57866										
L3MBTL3	84456	broad.mit.edu	37	chr6	130372465	130372465	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagaagggcttcagttctgtGagaactgttgtcagtatggc	13	6	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:130372465G>A	uc003qbt.2	+	6	531	c.361G>A	c.(361-363)GAG>AAG	p.E121K	L3MBTL3_uc003qbu.2_Missense_Mutation_p.E96K	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	121					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		TCAGTTCTGTGAGAACTGTTG	0.418													5	202	---	---	---	---	PASS	A	130372465	A	A	130372465	3	1	163	1	0	0	0	0	1	0	0	0	8593	1291	45	2	375	2	L3MBTL3	6	130372465	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	681413	130372465	40742602	532	57867										
TAAR1	134864	broad.mit.edu	37	chr6	132967047	132967047	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acgagtgtggtcagaattatGagcaccattaaactgtacag	10	7	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:132967047G>C	uc003qdm.1	-	1	96	c.96C>G	c.(94-96)CTC>CTG	p.L32L		NM_138327	NP_612200	Q96RJ0	TAAR1_HUMAN	trace amine associated receptor 1	32	Helical; Name=1; (Potential).					plasma membrane					0	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00616)|GBM - Glioblastoma multiforme(226;0.0154)	Amphetamine(DB00182)	TCAGAATTATGAGCACCATTA	0.383													71	365	---	---	---	---	PASS	C	132967047	C	C	132967047	2	2	163	1	0	0	0	0	0	0	0	1	15486	1277	45	2		2	TAAR1	6	132967047	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	2594582	132967047	38148020	533	57868										
SGK1	6446	broad.mit.edu	37	chr6	134495197	134495197	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcctgaggttgggagatcttCaagatggactgaacttcagg	13	7	3	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:134495197C>G	uc003qen.3	-	3	263	c.174G>C	c.(172-174)TTG>TTC	p.L58F	SGK1_uc003qeo.3_Missense_Mutation_p.L153F|SGK1_uc011ect.1_Missense_Mutation_p.L48F|SGK1_uc011ecu.1_Missense_Mutation_p.L58F|SGK1_uc011ecv.1_Missense_Mutation_p.L72F|SGK1_uc011ecw.1_Missense_Mutation_p.L86F	NM_005627	NP_005618	O00141	SGK1_HUMAN	serum/glucocorticoid regulated kinase 1 isoform	58	Necessary for localization to the cytoplasm.				apoptosis|response to stress|sodium ion transport	endoplasmic reticulum|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(3)|stomach(1)|lung(1)|central_nervous_system(1)	6	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00317)|GBM - Glioblastoma multiforme(68;0.00847)		GGGAGATCTTCAAGATGGACT	0.498													31	155	---	---	---	---	PASS	G	134495197	G	G	134495197	3	3	163	1	0	0	0	0	1	0	0	0	14207	825	29	2	1161	2	SGK1	6	134495197	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1528150	134495197	36619870	534	57869										
PDE7B	27115	broad.mit.edu	37	chr6	136512787	136512787	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcgtggagccgctcttccggGaatgggcccatttcacgggt	14	12	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:136512787G>T	uc003qgp.2	+	13	1465	c.1162G>T	c.(1162-1164)GAA>TAA	p.E388*	uc003qgq.1_Intron|PDE7B_uc003qgr.2_Nonsense_Mutation_p.E440*	NM_018945	NP_061818	Q9NP56	PDE7B_HUMAN	phosphodiesterase 7B	388	Catalytic (By similarity).				signal transduction|synaptic transmission	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(1)	1	Colorectal(23;0.24)			OV - Ovarian serous cystadenocarcinoma(155;0.0136)|GBM - Glioblastoma multiforme(68;0.0147)	Dyphylline(DB00651)|Ketotifen(DB00920)	GCTCTTCCGGGAATGGGCCCA	0.587													5	36	---	---	---	---	PASS	T	136512787	T	T	136512787	4	4	163	1	0	0	0	0	0	1	0	0	11652	1175	41	2	1212	2	PDE7B	6	136512787	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2017590	136512787	34602280	535	57870										
MAP3K5	4217	broad.mit.edu	37	chr6	136904834	136904834	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aattctctgaggcttgcaatGagggttgtgatgtgttccca	12	7	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:136904834G>C	uc003qhc.2	-	24	3631	c.3270C>G	c.(3268-3270)CTC>CTG	p.L1090L	MAP3K5_uc011edj.1_Silent_p.L337L|MAP3K5_uc011edk.1_Silent_p.L936L	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	1090					activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		GGCTTGCAATGAGGGTTGTGA	0.448													29	185	---	---	---	---	PASS	C	136904834	C	C	136904834	2	2	163	1	0	0	0	0	0	0	0	1	9253	1277	45	2		2	MAP3K5	6	136904834	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	392047	136904834	34210233	536	57871										
NMBR	4829	broad.mit.edu	37	chr6	142409670	142409670	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agggacgggatcacacagcgGatcaccaactccgtggtggt	14	11	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:142409670G>C	uc003qiu.2	-	1	267	c.126C>G	c.(124-126)ATC>ATG	p.I42M		NM_002511	NP_002502	P28336	NMBR_HUMAN	neuromedin B receptor	42	Helical; Name=1; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			central_nervous_system(3)|breast(1)	4	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		TCACACAGCGGATCACCAACT	0.607													11	56	---	---	---	---	PASS	C	142409670	C	C	142409670	3	2	163	1	0	0	0	0	1	0	0	0	10487	1164	41	2	1058	2	NMBR	6	142409670	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5504836	142409670	28705397	537	57872										
C6orf72	116254	broad.mit.edu	37	chr6	149899972	149899972	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttatagtgaagaatgaaaatCttgaaaatttggaggaaaaa	9	1	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:149899972C>G	uc003qmq.1	+	4	319	c.292C>G	c.(292-294)CTT>GTT	p.L98V	C6orf72_uc010kie.1_Translation_Start_Site	NM_138785	NP_620140	Q9NU53	CF072_HUMAN	hypothetical protein LOC116254 precursor	98	Extracellular (Potential).					integral to membrane					0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;9.66e-12)|GBM - Glioblastoma multiforme(68;0.171)		GAATGAAAATCTTGAAAATTT	0.318													5	54	---	---	---	---	PASS	G	149899972	G	G	149899972	3	3	163	1	0	0	0	0	1	0	0	0	2371	913	32	2	306	2	C6orf72	6	149899972	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	7490302	149899972	21215095	538	57873										
C6orf72	116254	broad.mit.edu	37	chr6	149901832	149901832	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagttacctgaaactcctctCagagcagagccgccatcttc	7	14	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:149901832C>G	uc003qmq.1	+	6	717	c.690C>G	c.(688-690)CTC>CTG	p.L230L	C6orf72_uc010kie.1_Silent_p.L110L	NM_138785	NP_620140	Q9NU53	CF072_HUMAN	hypothetical protein LOC116254 precursor	230	Extracellular (Potential).					integral to membrane					0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;9.66e-12)|GBM - Glioblastoma multiforme(68;0.171)		AAACTCCTCTCAGAGCAGAGC	0.388													4	142	---	---	---	---	PASS	G	149901832	G	G	149901832	2	3	163	1	0	0	0	0	0	0	0	1	2371	813	29	2		2	C6orf72	6	149901832	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1860	149901832	21213235	539	57874										
C6orf97	80129	broad.mit.edu	37	chr6	151917551	151917551	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaatagcccagctggaggagGagaagcaggcacgcacggcc	15	11	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:151917551G>T	uc003qol.2	+	9	1638	c.1549G>T	c.(1549-1551)GAG>TAG	p.E517*		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	517	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		GCTGGAGGAGGAGAAGCAGGC	0.522													12	88	---	---	---	---	PASS	T	151917551	T	T	151917551	4	4	163	1	0	0	0	0	0	1	0	0	2374	1175	41	2	1583	2	C6orf97	6	151917551	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2015719	151917551	19197516	540	57875										
SYNE1	23345	broad.mit.edu	37	chr6	152532704	152532704	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcaaaatctgctgacgactgAacatctcggcttgaaacaac	8	11	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:152532704A>C	uc010kiw.2	-	124	23116	c.22514T>G	c.(22513-22515)TTC>TGC	p.F7505C	SYNE1_uc010kiv.2_Missense_Mutation_p.F2029C|SYNE1_uc003qos.3_Missense_Mutation_p.F2029C|SYNE1_uc003qot.3_Missense_Mutation_p.F7434C|SYNE1_uc003qou.3_Missense_Mutation_p.F7505C|SYNE1_uc003qor.3_Missense_Mutation_p.F405C	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7505	Cytoplasmic (Potential).|Spectrin 25.				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)		CTGACGACTGAACATCTCGGC	0.333										HNSCC(10;0.0054)			25	100	---	---	---	---	PASS	C	152532704	C	C	152532704	3	2	163	1	0	0	0	0	1	0	0	0	15442	246	9	5	4044	5	SYNE1	6	152532704	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	615153	152532704	18582363	541	57876										
SYNE1	23345	broad.mit.edu	37	chr6	152629663	152629663	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcctgcagctcctgtatgttActggtggcaacaggtttatc	11	10	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:152629663A>G	uc010kiw.2	-	91	17909	c.17307T>C	c.(17305-17307)AGT>AGC	p.S5769S	SYNE1_uc010kiv.2_Silent_p.S293S|SYNE1_uc003qos.3_Silent_p.S293S|SYNE1_uc003qot.3_Silent_p.S5698S|SYNE1_uc003qou.3_Silent_p.S5769S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5769	Cytoplasmic (Potential).|Spectrin 19.				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)		CCTGTATGTTACTGGTGGCAA	0.443										HNSCC(10;0.0054)			97	209	---	---	---	---	PASS	G	152629663	G	G	152629663	2	3	163	1	0	0	0	0	0	0	0	1	15442	388	14	5		5	SYNE1	6	152629663	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	96959	152629663	18485404	542	57877										
SYNE1	23345	broad.mit.edu	37	chr6	152697611	152697611	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcattaaccaaccactgctGgaaatccctgaaggcctttc	7	13	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:152697611G>A	uc010kiw.2	-	58	9831	c.9229C>T	c.(9229-9231)CAG>TAG	p.Q3077*	SYNE1_uc003qot.3_Nonsense_Mutation_p.Q3084*|SYNE1_uc003qou.3_Nonsense_Mutation_p.Q3077*|SYNE1_uc010kja.1_5'UTR|SYNE1_uc003qov.2_Nonsense_Mutation_p.Q155*|SYNE1_uc010kjb.1_3'UTR	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3077	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)		AACCACTGCTGGAAATCCCTG	0.388										HNSCC(10;0.0054)			24	116	---	---	---	---	PASS	A	152697611	A	A	152697611	4	1	163	1	0	0	0	0	0	1	0	0	15442	1357	47	3	17593	3	SYNE1	6	152697611	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	67948	152697611	18417456	543	57878										
FNDC1	84624	broad.mit.edu	37	chr6	159670162	159670162	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcccagaggaaggcgccatCagttcctttcctgaagaaga	10	11	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:159670162C>G	uc010kjv.2	+	16	4982	c.4782C>G	c.(4780-4782)ATC>ATG	p.I1594M		NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	1594						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		AAGGCGCCATCAGTTCCTTTC	0.448													5	23	---	---	---	---	PASS	G	159670162	G	G	159670162	3	3	163	1	0	0	0	0	1	0	0	0	5968	816	29	2	4844	2	FNDC1	6	159670162	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6972551	159670162	11444905	544	57879										
WTAP	9589	broad.mit.edu	37	chr6	160176217	160176217	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccaagtaccagcaggactacAgcttctgaacctgtagaaca	8	12	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:160176217A>T	uc003qsl.2	+	8	987	c.765A>T	c.(763-765)ACA>ACT	p.T255T	WTAP_uc003qso.2_Silent_p.T136T	NM_004906	NP_004897	Q15007	FL2D_HUMAN	Wilms' tumour 1-associating protein isoform 1	255					cell cycle|mRNA processing|RNA splicing	nuclear membrane|nucleolus					0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.75e-18)|BRCA - Breast invasive adenocarcinoma(81;5.93e-06)		GCAGGACTACAGCTTCTGAAC	0.552													15	52	---	---	---	---	PASS	T	160176217	T	T	160176217	2	4	163	1	0	0	0	0	0	0	0	1	17406	175	7	5		5	WTAP	6	160176217	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	506055	160176217	10938850	545	57880										
ACAT2	39	broad.mit.edu	37	chr6	160198422	160198422	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cctttagcacggatagtttcCtggtcccaagtgggtgtgga	13	9	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:160198422C>G	uc010kjy.2	+	7	977	c.846C>G	c.(844-846)TCC>TCG	p.S282S	ACAT2_uc011efw.1_Silent_p.S311S	NM_005891	NP_005882	Q9BWD1	THIC_HUMAN	acetyl-Coenzyme A acetyltransferase 2	282						mitochondrion|nucleolus	acetyl-CoA C-acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.51e-18)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		GGATAGTTTCCTGGTCCCAAG	0.428													31	87	---	---	---	---	PASS	G	160198422	G	G	160198422	2	3	163	1	0	0	0	0	0	0	0	1	122	668	24	4		4	ACAT2	6	160198422	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	22205	160198422	10916645	546	57881										
IGF2R	3482	broad.mit.edu	37	chr6	160468358	160468358	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agacgcgggagtgggcttccCtgaatatcaggtaggaatgt	15	7	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:160468358C>G	uc003qta.2	+	16	2367	c.2219C>G	c.(2218-2220)CCT>CGT	p.P740R		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	740	5.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GTGGGCTTCCCTGAATATCAG	0.512													7	66	---	---	---	---	PASS	G	160468358	G	G	160468358	3	3	163	1	0	0	0	0	1	0	0	0	7576	681	24	4	2281	4	IGF2R	6	160468358	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	269936	160468358	10646709	547	57882										
MAP3K4	4216	broad.mit.edu	37	chr6	161470172	161470172	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttttatatacagcccgtcaaGccatcccagatattattaat	4	10	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:161470172G>C	uc003qtn.2	+	3	1010	c.868G>C	c.(868-870)GCC>CCC	p.A290P	MAP3K4_uc010kkc.1_Missense_Mutation_p.A290P|MAP3K4_uc003qto.2_Missense_Mutation_p.A290P|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_5'UTR	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	290					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)		AGCCCGTCAAGCCATCCCAGA	0.423													25	146	---	---	---	---	PASS	C	161470172	C	C	161470172	3	2	163	1	0	0	0	0	1	0	0	0	9252	971	34	4	878	4	MAP3K4	6	161470172	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1001814	161470172	9644895	548	57883										
FAM120B	84498	broad.mit.edu	37	chr6	170639566	170639566	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcacctgcctagctgtcaagGagtggtttgtgtatcctggg	14	9	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr6:170639566G>C	uc003qxp.2	+	4	2053	c.1945G>C	c.(1945-1947)GAG>CAG	p.E649Q	FAM120B_uc003qxo.1_Missense_Mutation_p.E649Q|FAM120B_uc011ehd.1_5'UTR	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	649					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		AGCTGTCAAGGAGTGGTTTGT	0.542													10	101	---	---	---	---	PASS	C	170639566	C	C	170639566	3	2	163	1	0	0	0	0	1	0	0	0	5417	1175	41	2	1955	2	FAM120B	6	170639566	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	9169394	170639566	475501	549	57884										
COL28A1	340267	broad.mit.edu	37	chr7	7546791	7546791	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtccatatggccctggggatCcctgtggaataaaattgaaa	11	8	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:7546791C>T	uc003src.1	-	10	1046	c.929G>A	c.(928-930)GGA>GAA	p.G310E	COL28A1_uc011jxe.1_5'UTR|COL28A1_uc003srd.2_5'UTR	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	310	Collagen-like 2.				cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		CCCTGGGGATCCCTGTGGAAT	0.363													43	262	---	---	---	---	PASS	T	7546791	T	T	7546791	3	4	163	1	0	0	0	0	1	0	0	0	3686	869	30	2	2552	2	COL28A1	7	7546791	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08		7546791	151591872	550	57885										
ARL4A	10124	broad.mit.edu	37	chr7	12728313	12728313	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaggaactcattgtcactttCagaaattgagaaattgttag	9	5	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:12728313C>G	uc003ssp.2	+	2	711	c.434C>G	c.(433-435)TCA>TGA	p.S145*	ARL4A_uc003ssq.2_Nonsense_Mutation_p.S145*|ARL4A_uc003ssr.2_Nonsense_Mutation_p.S145*|ARL4A_uc003sss.2_Nonsense_Mutation_p.S145*	NM_001037164	NP_001032241	P40617	ARL4A_HUMAN	ADP-ribosylation factor-like 4A	145					small GTPase mediated signal transduction	cytoplasm|nucleolus|plasma membrane	GTP binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.176)		TTGTCACTTTCAGAAATTGAG	0.393													56	151	---	---	---	---	PASS	G	12728313	G	G	12728313	4	3	163	1	0	0	0	0	0	1	0	0	936	838	29	2	436	2	ARL4A	7	12728313	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5181522	12728313	146410350	551	57886										
DGKB	1607	broad.mit.edu	37	chr7	14724925	14724925	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agcatgttcaggcaaaggttGcaataggcaggtttgttaaa	12	5	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:14724925G>A	uc003ssz.2	-	9	961	c.774C>T	c.(772-774)TGC>TGT	p.C258C	DGKB_uc011jxt.1_Silent_p.C251C|DGKB_uc003sta.2_Silent_p.C258C|DGKB_uc011jxu.1_Silent_p.C258C|DGKB_uc011jxv.1_Silent_p.C258C	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	258	Phorbol-ester/DAG-type 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	GGCAAAGGTTGCAATAGGCAG	0.493													7	89	---	---	---	---	PASS	A	14724925	A	A	14724925	2	1	163	1	0	0	0	0	0	0	0	1	4466	1311	46	3		3	DGKB	7	14724925	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1996612	14724925	144413738	552	57887										
ABCB5	340273	broad.mit.edu	37	chr7	20782508	20782508	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcctttcacaggacacatgTgaagggaatttagagtttcg	10	7	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:20782508T>A	uc003suw.3	+	16	2244	c.1698T>A	c.(1696-1698)TGT>TGA	p.C566*	ABCB5_uc010kuh.2_Nonsense_Mutation_p.C1011*	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	566	Cytoplasmic (Potential).				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						AGGACACATGTGAAGGGAATT	0.428													30	73	---	---	---	---	PASS	A	20782508	A	A	20782508	4	1	163	1	0	0	0	0	0	1	0	0	44	1702	59	5	3168	5	ABCB5	7	20782508	Nonsense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	6057583	20782508	138356155	553	57888										
FAM126A	84668	broad.mit.edu	37	chr7	23030703	23030703	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaactctgacaaccattcctCcacaacccctttctctgaag	3	16	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:23030703C>G	uc003svm.3	-	2	283	c.28G>C	c.(28-30)GAG>CAG	p.E10Q	FAM126A_uc003svn.3_Intron|FAM126A_uc011jyr.1_Missense_Mutation_p.E10Q	NM_032581	NP_115970	Q9BYI3	HYCCI_HUMAN	family with sequence similarity 126, member A	10						cytoplasm|membrane	signal transducer activity			central_nervous_system(1)	1						AACCATTCCTCCACAACCCCT	0.303													4	165	---	---	---	---	PASS	G	23030703	G	G	23030703	3	3	163	1	0	0	0	0	1	0	0	0	5429	864	30	2	1577	2	FAM126A	7	23030703	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2248195	23030703	136107960	554	57889										
HOXA11	3207	broad.mit.edu	37	chr7	27224326	27224326	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttttccggggtgccgtaggcTgtctcgaaaaactggtcgaa	13	9	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:27224326T>A	uc003syx.2	-	1	510	c.438A>T	c.(436-438)ACA>ACT	p.T146T	HOXA11_uc003syy.2_RNA|HOXA11AS_uc003syz.1_5'Flank	NM_005523	NP_005514	P31270	HXA11_HUMAN	homeobox A11	146					branching involved in ureteric bud morphogenesis|cartilage development involved in endochondral bone morphogenesis|developmental growth|dorsal/ventral pattern formation|mesodermal cell fate specification|positive regulation of cell development|positive regulation of chondrocyte differentiation	protein-DNA complex|transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)	2						TGCCGTAGGCTGTCTCGAAAA	0.542			T	NUP98	CML								6	59	---	---	---	---	PASS	A	27224326	A	A	27224326	2	1	163	1	0	0	0	0	0	0	0	1	7290	1567	55	5		5	HOXA11	7	27224326	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	4193623	27224326	131914337	555	57890										
ZNRF2	223082	broad.mit.edu	37	chr7	30402003	30402003	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcctttctagctgcatagatGaatggtttgaagtaaataga	9	5	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:30402003G>C	uc003tat.2	+	4	1733	c.682G>C	c.(682-684)GAA>CAA	p.E228Q		NM_147128	NP_667339	Q8NHG8	ZNRF2_HUMAN	zinc finger/RING finger 2	228	RING-type; atypical.					cell junction|endosome membrane|lysosomal membrane|presynaptic membrane	ligase activity|zinc ion binding				0						CTGCATAGATGAATGGTTTGA	0.303													18	119	---	---	---	---	PASS	C	30402003	C	C	30402003	3	2	163	1	0	0	0	0	1	0	0	0	18209	1291	45	2	696	2	ZNRF2	7	30402003	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3177677	30402003	128736660	556	57891										
FKBP9	11328	broad.mit.edu	37	chr7	33014871	33014871	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggaattctgaagaccaggttCagattcacacctatttcaag	8	9	4	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:33014871C>G	uc003tdh.2	+	3	626	c.445C>G	c.(445-447)CAG>GAG	p.Q149E	AVL9_uc011kai.1_Intron|FKBP9_uc011kak.1_RNA|FKBP9_uc011kal.1_Missense_Mutation_p.Q202E|FKBP9_uc003tdg.2_Missense_Mutation_p.Q149E|FKBP9_uc010kwm.2_Missense_Mutation_p.Q56E	NM_007270	NP_009201	O95302	FKBP9_HUMAN	FK506 binding protein 9 precursor	149					protein folding	endoplasmic reticulum|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			central_nervous_system(13)|ovary(1)	14			GBM - Glioblastoma multiforme(11;0.0156)			AGACCAGGTTCAGATTCACAC	0.463													32	182	---	---	---	---	PASS	G	33014871	G	G	33014871	3	3	163	1	0	0	0	0	1	0	0	0	5915	827	29	2	455	2	FKBP9	7	33014871	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2612868	33014871	126123792	557	57892										
PGAM2	5224	broad.mit.edu	37	chr7	44102386	44102386	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttggccttgccctgggcagCcacagcctccatggccttcc	10	18	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:44102386C>T	uc003tjs.2	-	3	774	c.739G>A	c.(739-741)GCT>ACT	p.A247T		NM_000290	NP_000281	P15259	PGAM2_HUMAN	phosphoglycerate mutase 2	247					gluconeogenesis|glycolysis|striated muscle contraction	cytosol	2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity				0						CCCTGGGCAGCCACAGCCTCC	0.617													18	51	---	---	---	---	PASS	T	44102386	T	T	44102386	3	4	163	1	0	0	0	0	1	0	0	0	11774	739	26	3	26	3	PGAM2	7	44102386	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	11087515	44102386	115036277	558	57893										
GCK	2645	broad.mit.edu	37	chr7	44186117	44186117	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccgcgtgtgcgcagctgctCggaggcctccccgtggaaga	15	14	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:44186117C>T	uc003tkl.2	-	8	1434	c.964G>A	c.(964-966)GAG>AAG	p.E322K	GCK_uc003tkh.1_5'Flank|GCK_uc003tki.1_5'Flank|GCK_uc003tkj.1_Missense_Mutation_p.E321K|GCK_uc003tkk.1_Missense_Mutation_p.E323K	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	322					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						CGCAGCTGCTCGGAGGCCTCC	0.647													11	107	---	---	---	---	PASS	T	44186117	T	T	44186117	3	4	163	1	0	0	0	0	1	0	0	0	6293	893	31	2	445	2	GCK	7	44186117	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	83731	44186117	114952546	559	57894										
TMED4	222068	broad.mit.edu	37	chr7	44621733	44621733	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtagagcccctgggcgcctgTggcgcacagcgcgagaagca	16	13	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:44621733T>C	uc003tli.2	-	1	95	c.73A>G	c.(73-75)ACA>GCA	p.T25A	TMED4_uc003tlj.2_5'UTR|TMED4_uc003tlk.2_Missense_Mutation_p.T25A|uc003tll.2_5'Flank	NM_182547	NP_872353	Q7Z7H5	TMED4_HUMAN	transmembrane emp24 protein transport domain	25					positive regulation of I-kappaB kinase/NF-kappaB cascade|transport	endoplasmic reticulum membrane|integral to membrane	signal transducer activity				0						TGGGCGCCTGTGGCGCACAGC	0.687													3	1	---	---	---	---	PASS	C	44621733	C	C	44621733	3	2	163	1	0	0	0	0	1	0	0	0	16003	1696	59	5	630	5	TMED4	7	44621733	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	435616	44621733	114516930	560	57895										
C7orf42	55069	broad.mit.edu	37	chr7	66416110	66416110	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttaaatcccaagcttacagtGattgttccagatgtaagtga	8	7	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:66416110G>A	uc003tvk.2	+	5	1032	c.768G>A	c.(766-768)GTG>GTA	p.V256V	C7orf42_uc010lah.2_Intron|C7orf42_uc003tvl.2_Silent_p.V256V	NM_017994	NP_060464	Q9NWD8	CG042_HUMAN	hypothetical protein LOC55069	256	Helical; (Potential).					integral to membrane				ovary(1)	1						AGCTTACAGTGATTGTTCCAG	0.328													25	129	---	---	---	---	PASS	A	66416110	A	A	66416110	2	1	163	1	0	0	0	0	0	0	0	1	2392	1277	45	2		2	C7orf42	7	66416110	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	21794377	66416110	92722553	561	57896										
WBSCR17	64409	broad.mit.edu	37	chr7	70885909	70885909	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcagggctgagccggttctAtcccgcatccaggaaaaccg	11	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:70885909A>T	uc003tvy.2	+	5	780	c.780A>T	c.(778-780)CTA>CTT	p.L260L	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	260	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				AGCCGGTTCTATCCCGCATCC	0.522													125	310	---	---	---	---	PASS	T	70885909	T	T	70885909	2	4	163	1	0	0	0	0	0	0	0	1	17261	436	16	5		5	WBSCR17	7	70885909	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	4469799	70885909	88252754	562	57897										
DNAJC30	84277	broad.mit.edu	37	chr7	73097249	73097249	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgttccccgtagtgggcctGgtagaaggcgtcaaagttga	14	8	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:73097249G>C	uc003tys.1	-	1	533	c.505C>G	c.(505-507)CAG>GAG	p.Q169E	WBSCR22_uc010lbi.1_5'Flank|WBSCR22_uc003tyt.2_5'Flank|WBSCR22_uc003tyu.2_5'Flank|WBSCR22_uc003tyv.2_5'Flank|WBSCR22_uc003tyw.1_5'Flank	NM_032317	NP_115693	Q96LL9	DJC30_HUMAN	DnaJ (Hsp40) homolog subfamily C member 30	169					protein folding		heat shock protein binding|unfolded protein binding				0						TAGTGGGCCTGGTAGAAGGCG	0.692													14	82	---	---	---	---	PASS	C	73097249	C	C	73097249	3	2	163	1	0	0	0	0	1	0	0	0	4648	1357	47	4	179	4	DNAJC30	7	73097249	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2211340	73097249	86041414	563	57898										
TMEM60	85025	broad.mit.edu	37	chr7	77423415	77423415	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccagtttagcacagagtgcGaggcagaaggctaatttaag	12	7	0	2	rs145350174		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:77423415G>C	uc003ugn.2	-	2	503	c.276C>G	c.(274-276)CTC>CTG	p.L92L		NM_032936	NP_116325	Q9H2L4	TMM60_HUMAN	transmembrane protein 60	92	Helical; (Potential).					integral to membrane					0						CACAGAGTGCGAGGCAGAAGG	0.438													29	236	---	---	---	---	PASS	C	77423415	C	C	77423415	2	2	163	1	0	0	0	0	0	0	0	1	16184	1045	37	2		2	TMEM60	7	77423415	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	4326166	77423415	81715248	564	57899										
TMEM60	85025	broad.mit.edu	37	chr7	77423646	77423646	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgatcaagaagagtagtgtGaaaagccaggtgagtagtac	13	4	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:77423646G>C	uc003ugn.2	-	2	272	c.45C>G	c.(43-45)TTC>TTG	p.F15L		NM_032936	NP_116325	Q9H2L4	TMM60_HUMAN	transmembrane protein 60	15	Helical; (Potential).					integral to membrane					0						AGAGTAGTGTGAAAAGCCAGG	0.403													5	116	---	---	---	---	PASS	C	77423646	C	C	77423646	3	2	163	1	0	0	0	0	1	0	0	0	16184	1281	45	2	360	2	TMEM60	7	77423646	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	231	77423646	81715017	565	57900										
MAGI2	9863	broad.mit.edu	37	chr7	78636448	78636448	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gttgtcacgaatgatttgctGaagctcatggtccacagaac	10	9	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:78636448G>A	uc003ugx.2	-	2	630	c.376C>T	c.(376-378)CAG>TAG	p.Q126*	MAGI2_uc003ugy.2_Nonsense_Mutation_p.Q126*	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	126	Guanylate kinase-like.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				ATGATTTGCTGAAGCTCATGG	0.373													23	215	---	---	---	---	PASS	A	78636448	A	A	78636448	4	1	163	1	0	0	0	0	0	1	0	0	9191	1299	45	2	4075	2	MAGI2	7	78636448	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1212802	78636448	80502215	566	57901										
SEMA3C	10512	broad.mit.edu	37	chr7	80378224	80378224	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctttactcacctctttcctcCtgtctttgtctttctgtaac	3	14	5	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:80378224C>A	uc003uhj.2	-	17	2394	c.1832G>T	c.(1831-1833)AGG>ATG	p.R611M	SEMA3C_uc011kgw.1_Missense_Mutation_p.R629M	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	611	Ig-like C2-type.				immune response|response to drug	membrane	receptor activity			ovary(1)	1						CTCTTTCCTCCTGTCTTTGTC	0.458													33	142	---	---	---	---	PASS	A	80378224	A	A	80378224	3	1	163	1	0	0	0	0	1	0	0	0	14026	681	24	3	431	3	SEMA3C	7	80378224	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1741776	80378224	78760439	567	57902										
GRM3	2913	broad.mit.edu	37	chr7	86394595	86394595	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccttgttttagggggcctgtTtcctattaacgaaaaaggca	10	8	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:86394595T>A	uc003uid.2	+	2	1233	c.134T>A	c.(133-135)TTT>TAT	p.F45Y	GRM3_uc010lef.2_Missense_Mutation_p.F43Y|GRM3_uc010leg.2_Intron|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	45	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GGGGGCCTGTTTCCTATTAAC	0.408													67	151	---	---	---	---	PASS	A	86394595	A	A	86394595	3	1	163	1	0	0	0	0	1	0	0	0	6798	1841	64	5	136	5	GRM3	7	86394595	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	6016371	86394595	72744068	568	57903										
ABCB4	5244	broad.mit.edu	37	chr7	87035754	87035754	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggctcctgagacacgattccGagttgagctctgagccactg	12	12	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:87035754G>C	uc003uiv.1	-	26	3433	c.3357C>G	c.(3355-3357)CTC>CTG	p.L1119L	ABCB4_uc003uiw.1_Silent_p.L1112L|ABCB4_uc003uix.1_Silent_p.L1065L	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	1119	ABC transporter 2.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					ACACGATTCCGAGTTGAGCTC	0.438													11	219	---	---	---	---	PASS	C	87035754	C	C	87035754	2	2	163	1	0	0	0	0	0	0	0	1	43	1045	37	2		2	ABCB4	7	87035754	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	641159	87035754	72102909	569	57904										
ABCB1	5243	broad.mit.edu	37	chr7	87135326	87135326	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttctggccaccagagagctGagttcctttgtctcctactt	8	12	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:87135326G>A	uc003uiz.1	-	28	3941	c.3523C>T	c.(3523-3525)CAG>TAG	p.Q1175*	ABCB1_uc011khc.1_Nonsense_Mutation_p.Q1111*	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	1175	Cytoplasmic (Potential).|ABC transporter 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	CCAGAGAGCTGAGTTCCTTTG	0.408													17	152	---	---	---	---	PASS	A	87135326	A	A	87135326	4	1	163	1	0	0	0	0	0	1	0	0	40	1299	45	2	327	2	ABCB1	7	87135326	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	99572	87135326	72003337	570	57905										
ABCB1	5243	broad.mit.edu	37	chr7	87178835	87178835	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccaaccagggtgtcaaatttCtaccacagaaaacccagaat	6	12	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:87178835C>T	uc003uiz.1	-	15	1973	c.1555_splice	c.e15-1	p.K519_splice	ABCB1_uc011khc.1_Splice_Site_p.K455_splice	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1						G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	TGTCAAATTTCTACCACAGAA	0.483													21	157	---	---	---	---	PASS	T	87178835	T	T	87178835	5	4	163	1	0	0	0	0	0	0	1	0	40	927	32	2	2348	2	ABCB1	7	87178835	Splice_Site	SNP	C	TCGA-66-2785-01A-01D-1522-08	43509	87178835	71959828	571	57906										
ADAM22	53616	broad.mit.edu	37	chr7	87778317	87778317	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcctatgggcactgtgtgccGagaagcagtaaatgattgtg	14	7	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:87778317G>C	uc003ujn.2	+	18	1590	c.1511G>C	c.(1510-1512)CGA>CCA	p.R504P	ADAM22_uc003ujk.1_Missense_Mutation_p.R504P|ADAM22_uc003ujl.1_Missense_Mutation_p.R504P|ADAM22_uc003ujm.2_Missense_Mutation_p.R504P|ADAM22_uc003ujo.2_Missense_Mutation_p.R504P|ADAM22_uc003ujp.1_Missense_Mutation_p.R556P	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	504	Disintegrin.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			ACTGTGTGCCGAGAAGCAGTA	0.348													10	56	---	---	---	---	PASS	C	87778317	C	C	87778317	3	2	163	1	0	0	0	0	1	0	0	0	244	1058	37	2	1581	2	ADAM22	7	87778317	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	599482	87778317	71360346	572	57907										
STEAP4	79689	broad.mit.edu	37	chr7	87912107	87912107	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtcaagccagtctgggaatCgacggtattttgtgcctcgg	14	9	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:87912107C>G	uc003ujs.2	-	3	938	c.833G>C	c.(832-834)CGA>CCA	p.R278P	STEAP4_uc010lek.2_Intron|STEAP4_uc003ujt.2_Missense_Mutation_p.R278P	NM_024636	NP_078912	Q687X5	STEA4_HUMAN	tumor necrosis factor, alpha-induced protein 9	278	Ferric oxidoreductase.				fat cell differentiation|ion transport|iron ion homeostasis	Golgi membrane|integral to membrane|plasma membrane	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	Esophageal squamous(14;0.00802)					GTCTGGGAATCGACGGTATTT	0.478													8	83	---	---	---	---	PASS	G	87912107	G	G	87912107	3	3	163	1	0	0	0	0	1	0	0	0	15279	884	31	2	558	2	STEAP4	7	87912107	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	133790	87912107	71226556	573	57908										
ZNF804B	219578	broad.mit.edu	37	chr7	88965543	88965543	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttttccgtctaataaatatActggtgtgactgattcaaca	6	8	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:88965543A>G	uc011khi.1	+	4	3785	c.3247A>G	c.(3247-3249)ACT>GCT	p.T1083A		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1083						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TAATAAATATACTGGTGTGAC	0.353										HNSCC(36;0.09)			49	105	---	---	---	---	PASS	G	88965543	G	G	88965543	3	3	163	1	0	0	0	0	1	0	0	0	18168	391	14	5	3261	5	ZNF804B	7	88965543	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	1053436	88965543	70173120	574	57909										
ZNF804B	219578	broad.mit.edu	37	chr7	88965729	88965729	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctatctctccccctttaattCaacagcccataacattttct	1	15	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:88965729C>T	uc011khi.1	+	4	3971	c.3433C>T	c.(3433-3435)CAA>TAA	p.Q1145*		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1145						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CCCTTTAATTCAACAGCCCAT	0.383										HNSCC(36;0.09)			23	159	---	---	---	---	PASS	T	88965729	T	T	88965729	4	4	163	1	0	0	0	0	0	1	0	0	18168	827	29	2	3447	2	ZNF804B	7	88965729	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	186	88965729	70172934	575	57910										
PEX1	5189	broad.mit.edu	37	chr7	92120593	92120593	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgcacaagataccaaatcaGaagaggttccatttccaagt	7	10	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:92120593G>C	uc003uly.2	-	21	3527	c.3431C>G	c.(3430-3432)TCT>TGT	p.S1144C	PEX1_uc011khr.1_Missense_Mutation_p.S936C|PEX1_uc010ley.2_Missense_Mutation_p.S1087C|PEX1_uc011khs.1_Missense_Mutation_p.S822C	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	1144					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			TACCAAATCAGAAGAGGTTCC	0.383													21	164	---	---	---	---	PASS	C	92120593	C	C	92120593	3	2	163	1	0	0	0	0	1	0	0	0	11735	942	33	2	436	2	PEX1	7	92120593	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3154864	92120593	67018070	576	57911										
SAMD9L	219285	broad.mit.edu	37	chr7	92760988	92760988	+	Silent	SNP	G	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgattttctggccagaacaGgaggcaggccaagaaataag							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:92760988G>A	uc003umh.1	-	5	5513	c.4297C>T	c.(4297-4299)CTG>TTG	p.L1433L	SAMD9L_uc003umj.1_Silent_p.L1433L|SAMD9L_uc003umi.1_Silent_p.L1433L|SAMD9L_uc010lfb.1_Silent_p.L1433L|SAMD9L_uc003umk.1_Silent_p.L1433L|SAMD9L_uc010lfc.1_Silent_p.L1433L|SAMD9L_uc010lfd.1_Silent_p.L1433L|SAMD9L_uc011khx.1_3'UTR	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1433										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			GGCCAGAACAGGAGGCAGGCC	0.403													103	308	---	---	---	---	PASS	A	92760988	A	A	92760988	2	1	163	1	0	0	0	0	0	0	0	1	13827	991	35	3		3	SAMD9L	7	92760988	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	640395	92760988	66377675	577	57912	1034	2								
SAMD9L	219285	broad.mit.edu	37	chr7	92760989	92760989	+	Silent	SNP	G	T	T													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgattttctggccagaacagGaggcaggccaagaaataagg							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:92760989G>T	uc003umh.1	-	5	5512	c.4296C>A	c.(4294-4296)CTC>CTA	p.L1432L	SAMD9L_uc003umj.1_Silent_p.L1432L|SAMD9L_uc003umi.1_Silent_p.L1432L|SAMD9L_uc010lfb.1_Silent_p.L1432L|SAMD9L_uc003umk.1_Silent_p.L1432L|SAMD9L_uc010lfc.1_Silent_p.L1432L|SAMD9L_uc010lfd.1_Silent_p.L1432L|SAMD9L_uc011khx.1_3'UTR	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1432										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			GCCAGAACAGGAGGCAGGCCA	0.403													102	309	---	---	---	---	PASS	T	92760989	T	T	92760989	2	4	163	1	0	0	0	0	0	0	0	1	13827	1161	41	2		2	SAMD9L	7	92760989	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1	92760989	66377674	578	57913	1034	2								
SAMD9L	219285	broad.mit.edu	37	chr7	92761651	92761651	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtggaaaaagggagtgagctGaagaatctggatagtgtaaa	15	2	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:92761651G>A	uc003umh.1	-	5	4850	c.3634C>T	c.(3634-3636)CAG>TAG	p.Q1212*	SAMD9L_uc003umj.1_Nonsense_Mutation_p.Q1212*|SAMD9L_uc003umi.1_Nonsense_Mutation_p.Q1212*|SAMD9L_uc010lfb.1_Nonsense_Mutation_p.Q1212*|SAMD9L_uc003umk.1_Nonsense_Mutation_p.Q1212*|SAMD9L_uc010lfc.1_Nonsense_Mutation_p.Q1212*|SAMD9L_uc010lfd.1_Nonsense_Mutation_p.Q1212*|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1212										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			GGAGTGAGCTGAAGAATCTGG	0.393													121	306	---	---	---	---	PASS	A	92761651	A	A	92761651	4	1	163	1	0	0	0	0	0	1	0	0	13827	1299	45	2	1124	2	SAMD9L	7	92761651	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	662	92761651	66377012	579	57914										
SAMD9L	219285	broad.mit.edu	37	chr7	92762173	92762173	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcgctgtcttgtaagcagaaGagtttgaacatcatgttgaa	11	6	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:92762173G>C	uc003umh.1	-	5	4328	c.3112C>G	c.(3112-3114)CTT>GTT	p.L1038V	SAMD9L_uc003umj.1_Missense_Mutation_p.L1038V|SAMD9L_uc003umi.1_Missense_Mutation_p.L1038V|SAMD9L_uc010lfb.1_Missense_Mutation_p.L1038V|SAMD9L_uc003umk.1_Missense_Mutation_p.L1038V|SAMD9L_uc010lfc.1_Missense_Mutation_p.L1038V|SAMD9L_uc010lfd.1_Missense_Mutation_p.L1038V|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1038										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			GTAAGCAGAAGAGTTTGAACA	0.338													71	212	---	---	---	---	PASS	C	92762173	C	C	92762173	3	2	163	1	0	0	0	0	1	0	0	0	13827	942	33	2	1646	2	SAMD9L	7	92762173	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	522	92762173	66376490	580	57915										
TRRAP	8295	broad.mit.edu	37	chr7	98508016	98508016	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtcaagacaatcacgtgggGcataacatcatgcaaagcac	9	10	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:98508016G>A	uc003upp.2	+	15	1897	c.1688G>A	c.(1687-1689)GGC>GAC	p.G563D	TRRAP_uc011kis.1_Missense_Mutation_p.G563D|TRRAP_uc003upr.2_Missense_Mutation_p.G255D	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	563					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			ATCACGTGGGGCATAACATCA	0.393													44	265	---	---	---	---	PASS	A	98508016	A	A	98508016	3	1	163	1	0	0	0	0	1	0	0	0	16598	1203	42	3	1742	3	TRRAP	7	98508016	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5745843	98508016	60630647	581	57916										
PTCD1	26024	broad.mit.edu	37	chr7	99022723	99022723	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgctgcctgtgctctgccaTcttgctcaggaagccctcca	9	16	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:99022723T>C	uc003uqh.2	-	6	1563	c.1432A>G	c.(1432-1434)ATG>GTG	p.M478V	PTCD1_uc011kiw.1_Missense_Mutation_p.M527V	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	478										ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			TGCTCTGCCATCTTGCTCAGG	0.662													22	102	---	---	---	---	PASS	C	99022723	C	C	99022723	3	2	163	1	0	0	0	0	1	0	0	0	12727	1435	50	5	682	5	PTCD1	7	99022723	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	514707	99022723	60115940	582	57917										
ZNF394	84124	broad.mit.edu	37	chr7	99091386	99091386	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggattctgtggtgtttaaaGaggtcagagcgctgtttgaa	14	4	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:99091386G>C	uc003uqs.2	-	3	1613	c.1452C>G	c.(1450-1452)CTC>CTG	p.L484L	ZNF394_uc003uqt.2_Silent_p.L277L	NM_032164	NP_115540	Q53GI3	ZN394_HUMAN	zinc finger protein 394	484	C2H2-type 5.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					GGTGTTTAAAGAGGTCAGAGC	0.448													11	251	---	---	---	---	PASS	C	99091386	C	C	99091386	2	2	163	1	0	0	0	0	0	0	0	1	17877	929	33	2		2	ZNF394	7	99091386	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	68663	99091386	60047277	583	57918										
CYP3A7	1551	broad.mit.edu	37	chr7	99306722	99306722	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgatgaagaacatagcttgGaatcatcaccaccacccctt	6	12	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:99306722G>C	uc003uru.2	-	11	1294	c.1189C>G	c.(1189-1191)CCA>GCA	p.P397A	ZNF498_uc003urn.2_Intron|CYP3A5_uc003urs.2_Intron|CYP3A5_uc010lgg.2_Intron	NM_000765	NP_000756	P24462	CP3A7_HUMAN	cytochrome P450, family 3, subfamily A,	397					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)	1	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)					ACATAGCTTGGAATCATCACC	0.483													28	205	---	---	---	---	PASS	C	99306722	C	C	99306722	3	2	163	1	0	0	0	0	1	0	0	0	4181	1174	41	2	334	2	CYP3A7	7	99306722	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	215336	99306722	59831941	584	57919										
CYP3A43	64816	broad.mit.edu	37	chr7	99445849	99445849	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaagcctgaggcaggaagcaGagaacagcaagtccatcaac	12	10	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:99445849G>C	uc003urx.1	+	6	596	c.493G>C	c.(493-495)GAG>CAG	p.E165Q	CYP3A43_uc003ury.1_Missense_Mutation_p.E165Q|CYP3A43_uc003urz.1_Missense_Mutation_p.E165Q|CYP3A43_uc003usa.1_RNA|CYP3A43_uc010lgi.1_Intron|CYP3A43_uc003usb.1_Missense_Mutation_p.R27T	NM_057095	NP_476436	Q9HB55	CP343_HUMAN	cytochrome P450, family 3, subfamily A,	165			Missing (in allele CYP3A43*2).		xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)				Cetirizine(DB00341)|Doxycycline(DB00254)	GCAGGAAGCAGAGAACAGCAA	0.493													6	64	---	---	---	---	PASS	C	99445849	C	C	99445849	3	2	163	1	0	0	0	0	1	0	0	0	4179	943	33	2	515	2	CYP3A43	7	99445849	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	139127	99445849	59692814	585	57920										
MOSPD3	64598	broad.mit.edu	37	chr7	100211221	100211221	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcaaggacattacctccattCtgagagccccagcgtacccc	8	16	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:100211221C>T	uc003uvq.2	+	4	605	c.403C>T	c.(403-405)CTG>TTG	p.L135L	MOSPD3_uc003uvr.2_Silent_p.L135L|MOSPD3_uc003uvs.2_Silent_p.L135L|MOSPD3_uc003uvt.2_Silent_p.L125L	NM_001040097	NP_001035186	O75425	MSPD3_HUMAN	motile sperm domain containing 3 isoform a	135	MSP.					integral to membrane	structural molecule activity			ovary(2)	2	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					TACCTCCATTCTGAGAGCCCC	0.622													15	123	---	---	---	---	PASS	T	100211221	T	T	100211221	2	4	163	1	0	0	0	0	0	0	0	1	9717	912	32	2		2	MOSPD3	7	100211221	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	765372	100211221	58927442	586	57921										
EPHB4	2050	broad.mit.edu	37	chr7	100421299	100421299	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttctccatccaggctggcgtGagggccgtggccgtgtccgc	15	14	1	1	rs145080354	byFrequency	TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:100421299G>A	uc003uwn.1	-	3	869	c.378C>T	c.(376-378)CTC>CTT	p.L126L	EPHB4_uc003uwm.1_Silent_p.L33L|EPHB4_uc010lhj.1_Silent_p.L126L|EPHB4_uc011kkf.1_Silent_p.L126L|EPHB4_uc011kkg.1_Silent_p.L126L|EPHB4_uc011kkh.1_Silent_p.L126L	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	126	Extracellular (Potential).				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					AGGCTGGCGTGAGGGCCGTGG	0.657													10	89	---	---	---	---	PASS	A	100421299	A	A	100421299	2	1	163	1	0	0	0	0	0	0	0	1	5177	1277	45	2		2	EPHB4	7	100421299	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	210078	100421299	58717364	587	57922										
SLC12A9	56996	broad.mit.edu	37	chr7	100459086	100459086	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcctgctcatgatgttcctCatcagtcctggcgcggctgg	12	13	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:100459086C>G	uc003uwp.2	+	11	1558	c.1416C>G	c.(1414-1416)CTC>CTG	p.L472L	SLC12A9_uc003uwq.2_Silent_p.L383L|SLC12A9_uc011kki.1_Silent_p.L3L|SLC12A9_uc003uwr.2_Silent_p.L208L|SLC12A9_uc003uws.2_Silent_p.L3L|SLC12A9_uc003uwt.2_Silent_p.L208L|SLC12A9_uc003uwv.2_Silent_p.L3L	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	472	Helical; (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					TGATGTTCCTCATCAGTCCTG	0.677													18	187	---	---	---	---	PASS	G	100459086	G	G	100459086	2	3	163	1	0	0	0	0	0	0	0	1	14390	813	29	2		2	SLC12A9	7	100459086	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	37787	100459086	58679577	588	57923										
MUC17	140453	broad.mit.edu	37	chr7	100684352	100684352	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttccaacctcaactcctagtGaaggaatgactccattaact	5	12	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:100684352G>A	uc003uxp.1	+	3	9708	c.9655G>A	c.(9655-9657)GAA>AAA	p.E3219K	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3219	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|52.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AACTCCTAGTGAAGGAATGAC	0.498													73	509	---	---	---	---	PASS	A	100684352	A	A	100684352	3	1	163	1	0	0	0	0	1	0	0	0	9974	1291	45	2	9665	2	MUC17	7	100684352	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	225266	100684352	58454311	589	57924										
PLOD3	8985	broad.mit.edu	37	chr7	100852175	100852175	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggccgtagtgctccatctCtgccaccagctcatcacaca	7	17	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:100852175C>G	uc003uyd.2	-	16	2203	c.1747G>C	c.(1747-1749)GAG>CAG	p.E583Q	PLOD3_uc010lhs.2_Missense_Mutation_p.E148Q	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	583					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	TGCTCCATCTCTGCCACCAGC	0.627													12	105	---	---	---	---	PASS	G	100852175	G	G	100852175	3	3	163	1	0	0	0	0	1	0	0	0	12103	922	32	2	485	2	PLOD3	7	100852175	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	167823	100852175	58286488	590	57925										
NAMPT	10135	broad.mit.edu	37	chr7	105913032	105913032	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtgttttccaccgtgaagaGaacatttcctctgggaatga	10	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:105913032G>C	uc003vdq.2	-	4	699	c.391C>G	c.(391-393)CTC>GTC	p.L131V	NAMPT_uc003vdr.1_Missense_Mutation_p.L131V|NAMPT_uc011klu.1_Missense_Mutation_p.L44V	NM_005746	NP_005737	P43490	NAMPT_HUMAN	nicotinamide phosphoribosyltransferase	131					cell-cell signaling|NAD biosynthetic process|nicotinamide metabolic process|positive regulation of cell proliferation|positive regulation of nitric-oxide synthase biosynthetic process|signal transduction|water-soluble vitamin metabolic process	cytosol	cytokine activity|nicotinamide phosphoribosyltransferase activity|nicotinate phosphoribosyltransferase activity|nicotinate-nucleotide diphosphorylase (carboxylating) activity			large_intestine(1)	1						ACCGTGAAGAGAACATTTCCT	0.333													26	154	---	---	---	---	PASS	C	105913032	C	C	105913032	3	2	163	1	0	0	0	0	1	0	0	0	10149	942	33	2	1116	2	NAMPT	7	105913032	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5060857	105913032	53225631	591	57926										
PIK3CG	5294	broad.mit.edu	37	chr7	106508159	106508159	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccaccagccagcgcaaatgCaagagccccgaaacggcgct	10	17	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:106508159C>G	uc003vdv.3	+	2	238	c.153C>G	c.(151-153)TGC>TGG	p.C51W	PIK3CG_uc003vdu.2_Missense_Mutation_p.C51W|PIK3CG_uc003vdw.2_Missense_Mutation_p.C51W	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	51					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						AGCGCAAATGCAAGAGCCCCG	0.682													19	62	---	---	---	---	PASS	G	106508159	G	G	106508159	3	3	163	1	0	0	0	0	1	0	0	0	11916	718	25	4	155	4	PIK3CG	7	106508159	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	595127	106508159	52630504	592	57927										
BCAP29	55973	broad.mit.edu	37	chr7	107240935	107240935	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agaaactgaaaactgaattaAggaagacttcagatggtaac	9	5	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:107240935A>T	uc003vej.2	+	6	913	c.574A>T	c.(574-576)AGG>TGG	p.R192W	BCAP29_uc011kly.1_Missense_Mutation_p.R98W|BCAP29_uc011klz.1_Missense_Mutation_p.R192W|BCAP29_uc011kma.1_Missense_Mutation_p.R192W	NM_018844	NP_061332	Q9UHQ4	BAP29_HUMAN	B-cell receptor-associated protein BAP29 isoform	192	Cytoplasmic (Potential).				apoptosis|intracellular protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|integral to membrane				large_intestine(1)|ovary(1)	2						AACTGAATTAAGGAAGACTTC	0.318													30	61	---	---	---	---	PASS	T	107240935	T	T	107240935	3	4	163	1	0	0	0	0	1	0	0	0	1346	63	3	5	592	5	BCAP29	7	107240935	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	732776	107240935	51897728	593	57928										
SLC26A4	5172	broad.mit.edu	37	chr7	107314718	107314718	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actgtattaaatactactatGatagacactgcagctagaga	7	7	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:107314718G>C	uc003vep.2	+	5	749	c.525G>C	c.(523-525)ATG>ATC	p.M175I		NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	175	Extracellular (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						ATACTACTATGATAGACACTG	0.433									Pendred_syndrome				8	188	---	---	---	---	PASS	C	107314718	C	C	107314718	3	2	163	1	0	0	0	0	1	0	0	0	14519	1290	45	2	539	2	SLC26A4	7	107314718	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	73783	107314718	51823945	594	57929										
NRCAM	4897	broad.mit.edu	37	chr7	107849976	107849976	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aatgatctgcaaggttttctCaaagttcttataaactgtcc	6	8	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:107849976C>T	uc003vfb.2	-	12	1435	c.964G>A	c.(964-966)GAG>AAG	p.E322K	NRCAM_uc003vfc.2_Missense_Mutation_p.E316K|NRCAM_uc011kmk.1_Missense_Mutation_p.E317K|NRCAM_uc003vfd.2_Missense_Mutation_p.E298K|NRCAM_uc003vfe.2_Missense_Mutation_p.E298K	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	322	Ig-like 3.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						AAGGTTTTCTCAAAGTTCTTA	0.373													16	241	---	---	---	---	PASS	T	107849976	T	T	107849976	3	4	163	1	0	0	0	0	1	0	0	0	10644	835	29	2	3068	2	NRCAM	7	107849976	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	535258	107849976	51288687	595	57930										
C7orf66	154907	broad.mit.edu	37	chr7	108524189	108524189	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctagttctgtatctctgatCcatcatgtgacgatattgag	8	8	4	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:108524189C>G	uc003vfo.2	-	2	271	c.223G>C	c.(223-225)GAT>CAT	p.D75H		NM_001024607	NP_001019778	A4D0T2	CG066_HUMAN	hypothetical protein LOC154907	75						integral to membrane				ovary(2)	2						TATCTCTGATCCATCATGTGA	0.413													28	248	---	---	---	---	PASS	G	108524189	G	G	108524189	3	3	163	1	0	0	0	0	1	0	0	0	2412	855	30	2	128	2	C7orf66	7	108524189	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	674213	108524189	50614474	596	57931										
TMEM168	64418	broad.mit.edu	37	chr7	112415351	112415351	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcaaaacgattagaaacatgCtcaagaaaattccatttgtt	6	7	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:112415351C>T	uc003vgn.2	-	3	1543	c.1151G>A	c.(1150-1152)AGC>AAC	p.S384N	TMEM168_uc010lju.2_Missense_Mutation_p.S384N|TMEM168_uc011kmr.1_5'UTR	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	384	Helical; (Potential).					integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						TAGAAACATGCTCAAGAAAAT	0.358													12	77	---	---	---	---	PASS	T	112415351	T	T	112415351	3	4	163	1	0	0	0	0	1	0	0	0	16080	797	28	3	954	3	TMEM168	7	112415351	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3891162	112415351	46723312	597	57932										
C7orf60	154743	broad.mit.edu	37	chr7	112461888	112461888	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atctgagtcatatggcgcatCagggagttctgtgaaaccat	11	8	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:112461888C>G	uc003vgo.1	-	5	1256	c.1129G>C	c.(1129-1131)GAT>CAT	p.D377H	C7orf60_uc011kms.1_Missense_Mutation_p.D403H	NM_152556	NP_689769	Q1RMZ1	CG060_HUMAN	hypothetical protein LOC154743	377										ovary(2)|skin(1)	3						TATGGCGCATCAGGGAgttct	0.308													30	166	---	---	---	---	PASS	G	112461888	G	G	112461888	3	3	163	1	0	0	0	0	1	0	0	0	2407	826	29	2	92	2	C7orf60	7	112461888	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	46537	112461888	46676775	598	57933										
MET	4233	broad.mit.edu	37	chr7	116397818	116397818	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caattggtggaaaaacatgtActttaaaaaggtgttgtaaa	9	3	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:116397818A>T	uc003vij.2	+	8	2279	c.2092A>T	c.(2092-2094)ACT>TCT	p.T698S	MET_uc010lkh.2_Missense_Mutation_p.T698S|MET_uc011kne.1_Missense_Mutation_p.T670S|MET_uc011knf.1_Missense_Mutation_p.T698S|MET_uc011kng.1_Missense_Mutation_p.T698S|MET_uc011knh.1_Missense_Mutation_p.T698S|MET_uc011kni.1_Missense_Mutation_p.T698S|MET_uc011knj.1_Missense_Mutation_p.T268S	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	698	Extracellular (Potential).|IPT/TIG 2.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			AAAAACATGTACTTTAAAAAG	0.323			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				51	171	---	---	---	---	PASS	T	116397818	T	T	116397818	3	4	163	1	0	0	0	0	1	0	0	0	9485	391	14	5	2118	5	MET	7	116397818	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	3935930	116397818	42740845	599	57934										
ANKRD7	56311	broad.mit.edu	37	chr7	117864918	117864918	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcagcttctggaagaggaagAatgagacccgcagccagggc	14	10	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:117864918A>T	uc003vji.2	+	1	207	c.34A>T	c.(34-36)AAT>TAT	p.N12Y		NM_019644	NP_062618	Q92527	ANKR7_HUMAN	ankyrin repeat domain 7	12					male gonad development						0						GAAGAGGAAGAATGAGACCCG	0.507													9	109	---	---	---	---	PASS	T	117864918	T	T	117864918	3	4	163	1	0	0	0	0	1	0	0	0	686	246	9	5	36	5	ANKRD7	7	117864918	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	1467100	117864918	41273745	600	57935										
KCND2	3751	broad.mit.edu	37	chr7	119915141	119915141	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgagcgcctgcaggacgacgCggataccgacaccgctgggg	16	14	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:119915141C>A	uc003vjj.1	+	1	1420	c.455C>A	c.(454-456)GCG>GAG	p.A152E		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	152	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					CAGGACGACGCGGATACCGAC	0.632													47	122	---	---	---	---	PASS	A	119915141	A	A	119915141	3	1	163	1	0	0	0	0	1	0	0	0	8019	768	27	1	457	1	KCND2	7	119915141	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2050223	119915141	39223522	601	57936										
PTPRZ1	5803	broad.mit.edu	37	chr7	121653533	121653533	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccaatctcatactcactatCtgagaattctgaagaagata	5	9	4	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:121653533C>T	uc003vjy.2	+	12	4828	c.4433C>T	c.(4432-4434)TCT>TTT	p.S1478F	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	1478	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						TACTCACTATCTGAGAATTCT	0.393													19	116	---	---	---	---	PASS	T	121653533	T	T	121653533	3	4	163	1	0	0	0	0	1	0	0	0	12814	913	32	2	4479	2	PTPRZ1	7	121653533	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1738392	121653533	37485130	602	57937										
CADPS2	93664	broad.mit.edu	37	chr7	122261611	122261611	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctcctatgtccaaaaatgcaGagttctgtgaacgttttaat	7	8	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:122261611G>C	uc010lkp.2	-	5	1191	c.1028C>G	c.(1027-1029)TCT>TGT	p.S343C	CADPS2_uc003vkg.3_Missense_Mutation_p.S43C|CADPS2_uc010lkq.2_Missense_Mutation_p.S343C	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	343					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						CAAAAATGCAGAGTTCTGTGA	0.398													25	221	---	---	---	---	PASS	C	122261611	C	C	122261611	3	2	163	1	0	0	0	0	1	0	0	0	2571	942	33	2	3010	2	CADPS2	7	122261611	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	608078	122261611	36877052	603	57938										
CADPS2	93664	broad.mit.edu	37	chr7	122261629	122261629	+	Nonsense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagagttctgtgaacgttttAatttttgtaatttaaattcc	6	5	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:122261629A>C	uc010lkp.2	-	5	1173	c.1010T>G	c.(1009-1011)TTA>TGA	p.L337*	CADPS2_uc003vkg.3_Nonsense_Mutation_p.L37*|CADPS2_uc010lkq.2_Nonsense_Mutation_p.L337*	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	337					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						TGAACGTTTTAATTTTTGTAA	0.388													17	207	---	---	---	---	PASS	C	122261629	C	C	122261629	4	2	163	1	0	0	0	0	0	1	0	0	2571	372	13	5	3028	5	CADPS2	7	122261629	Nonsense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	18	122261629	36877034	604	57939										
GRM8	2918	broad.mit.edu	37	chr7	126410082	126410082	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acaaattggacctttccttcCtgttcataagatgaatcccg	6	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:126410082C>A	uc003vlr.2	-	6	1505	c.1194G>T	c.(1192-1194)CAG>CAT	p.Q398H	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.Q398H|GRM8_uc010lkz.1_RNA|GRM8_uc003vlu.1_Missense_Mutation_p.Q119H	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	398	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	CCTTTCCTTCCTGTTCATAAG	0.403										HNSCC(24;0.065)			27	65	---	---	---	---	PASS	A	126410082	A	A	126410082	3	1	163	1	0	0	0	0	1	0	0	0	6803	680	24	3	1602	3	GRM8	7	126410082	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4148453	126410082	32728581	605	57940										
GCC1	79571	broad.mit.edu	37	chr7	127222843	127222843	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caagctgttcctgggctgccTccagctcctttcccaggtta	9	15	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:127222843T>A	uc003vma.2	-	2	1971	c.1553A>T	c.(1552-1554)GAG>GTG	p.E518V		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	518	Potential.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						CTGGGCTGCCTCCAGCTCCTT	0.527													28	189	---	---	---	---	PASS	A	127222843	A	A	127222843	3	1	163	1	0	0	0	0	1	0	0	0	6285	1551	54	5	778	5	GCC1	7	127222843	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	812761	127222843	31915820	606	57941										
CALD1	800	broad.mit.edu	37	chr7	134643009	134643009	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caatagtctccaagattgacAgcagactggagcagtatacc	9	10	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:134643009A>C	uc003vrz.2	+	11	2488	c.2029A>C	c.(2029-2031)AGC>CGC	p.S677R	CALD1_uc003vry.2_Missense_Mutation_p.S422R|CALD1_uc003vsa.2_Missense_Mutation_p.S448R|CALD1_uc003vsb.2_Missense_Mutation_p.S422R|CALD1_uc010lmm.2_Missense_Mutation_p.S447R|CALD1_uc011kpt.1_Missense_Mutation_p.S196R|CALD1_uc003vsc.2_Missense_Mutation_p.S442R|CALD1_uc003vsd.2_Missense_Mutation_p.S416R|CALD1_uc011kpu.1_Missense_Mutation_p.S427R|CALD1_uc011kpv.1_Missense_Mutation_p.S286R|CALD1_uc003vse.2_Missense_Mutation_p.S540R|CALD1_uc010lmn.2_5'Flank	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	677	Strong actin-binding (By similarity).				cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						CAAGATTGACAGCAGACTGGA	0.393													46	243	---	---	---	---	PASS	C	134643009	C	C	134643009	3	2	163	1	0	0	0	0	1	0	0	0	2581	188	7	5	2120	5	CALD1	7	134643009	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	7420166	134643009	24495654	607	57942										
NUP205	23165	broad.mit.edu	37	chr7	135291576	135291576	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaatcttctcattacctctCtggaatgcaatccacccaat	4	13	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:135291576C>G	uc003vsw.2	+	21	3014	c.2983C>G	c.(2983-2985)CTG>GTG	p.L995V		NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	995					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						CATTACCTCTCTGGAATGCAA	0.378													37	255	---	---	---	---	PASS	G	135291576	G	G	135291576	3	3	163	1	0	0	0	0	1	0	0	0	10759	912	32	2	3065	2	NUP205	7	135291576	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	648567	135291576	23847087	608	57943										
NUP205	23165	broad.mit.edu	37	chr7	135304536	135304536	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gacatcttcctaatctccctAggtggtggattccaacgagt	9	11	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:135304536A>C	uc003vsw.2	+	30	4263	c.4232_splice	c.e30-2	p.G1411_splice	NUP205_uc003vsx.2_5'Flank	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa						carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						TAATCTCCCTAGGTGGTGGAT	0.358													99	652	---	---	---	---	PASS	C	135304536	C	C	135304536	5	2	163	1	0	0	0	0	0	0	1	0	10759	434	15	5	4348	5	NUP205	7	135304536	Splice_Site	SNP	A	TCGA-66-2785-01A-01D-1522-08	12960	135304536	23834127	609	57944										
ZC3HAV1	56829	broad.mit.edu	37	chr7	138764635	138764635	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgggggctgatgttgaattgGaagcaaggtaagtgctgcct	16	5	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:138764635G>A	uc003vun.2	-	4	1440	c.1052C>T	c.(1051-1053)TCC>TTC	p.S351F	ZC3HAV1_uc003vuo.2_5'Flank|ZC3HAV1_uc003vup.2_Missense_Mutation_p.S351F	NM_020119	NP_064504	Q7Z2W4	ZCCHV_HUMAN	zinc finger antiviral protein isoform 1	351					response to virus	cytoplasm|nucleus	NAD+ ADP-ribosyltransferase activity|RNA binding|zinc ion binding			ovary(1)	1						TGTTGAATTGGAAGCAAGGTA	0.542													27	194	---	---	---	---	PASS	A	138764635	A	A	138764635	3	1	163	1	0	0	0	0	1	0	0	0	17572	1174	41	2	1700	2	ZC3HAV1	7	138764635	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3460099	138764635	20374028	610	57945										
UBN2	254048	broad.mit.edu	37	chr7	138968151	138968151	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cacattcttcaagtcttattGctggtcacacagggccagta	8	11	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:138968151G>T	uc011kqr.1	+	15	2500	c.2500G>T	c.(2500-2502)GCT>TCT	p.A834S		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	834										ovary(1)|skin(1)	2						AAGTCTTATTGCTGGTCACAC	0.423													25	156	---	---	---	---	PASS	T	138968151	T	T	138968151	3	4	163	1	0	0	0	0	1	0	0	0	16890	1319	46	3	2558	3	UBN2	7	138968151	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	203516	138968151	20170512	611	57946										
MGAM	8972	broad.mit.edu	37	chr7	141752640	141752640	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtcaacgacctatactctgtCagtgatgttcagtataattc	7	9	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:141752640C>T	uc003vwy.2	+	26	3069	c.3015C>T	c.(3013-3015)GTC>GTT	p.V1005V		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1005	Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	TATACTCTGTCAGTGATGTTC	0.473													8	322	---	---	---	---	PASS	T	141752640	T	T	141752640	2	4	163	1	0	0	0	0	0	0	0	1	9541	813	29	2		2	MGAM	7	141752640	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	2784489	141752640	17386023	612	57947										
TRPV5	56302	broad.mit.edu	37	chr7	142606708	142606708	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcacccacagatcccggagcGaggccacaggcagcgaggca	14	15	0	1	rs148001669		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:142606708G>A	uc003wby.1	-	14	2107	c.1843C>T	c.(1843-1845)CGC>TGC	p.R615C		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	615	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					ATCCCGGAGCGAGGCCACAGG	0.592													24	86	---	---	---	---	PASS	A	142606708	A	A	142606708	3	1	163	1	0	0	0	0	1	0	0	0	16596	1058	37	2	354	2	TRPV5	7	142606708	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	854068	142606708	16531955	613	57948										
TPK1	27010	broad.mit.edu	37	chr7	144380014	144380014	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagcatacctttctctctctCcttcggtgatatcatataag	5	11	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:144380014C>A	uc003weq.2	-	4	276	c.173G>T	c.(172-174)GGA>GTA	p.G58V	TPK1_uc003weo.2_Nonsense_Mutation_p.E13*|TPK1_uc003wep.2_RNA|TPK1_uc003wer.2_Missense_Mutation_p.G58V|TPK1_uc003wes.2_RNA	NM_022445	NP_071890	Q9H3S4	TPK1_HUMAN	thiamin pyrophosphokinase 1 isoform a	58					thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)	TTCTCTCTCTCCTTCGGTGAT	0.378													52	367	---	---	---	---	PASS	A	144380014	A	A	144380014	3	1	163	1	0	0	0	0	1	0	0	0	16401	855	30	2	582	2	TPK1	7	144380014	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1773306	144380014	14758649	614	57949										
ZNF786	136051	broad.mit.edu	37	chr7	148769427	148769427	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctagtggtggaggagccctgGcgtcgtgtctctgtgggctc	17	10	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:148769427G>C	uc003wfh.2	-	4	574	c.437C>G	c.(436-438)GCC>GGC	p.A146G	ZNF786_uc011kuk.1_Missense_Mutation_p.A109G|ZNF786_uc003wfi.2_Missense_Mutation_p.A60G	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	146					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			AGGAGCCCTGGCGTCGTGTCT	0.542													7	17	---	---	---	---	PASS	C	148769427	C	C	148769427	3	2	163	1	0	0	0	0	1	0	0	0	18155	1203	42	4	1915	4	ZNF786	7	148769427	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4389413	148769427	10369236	615	57950										
ATP6V0E2	155066	broad.mit.edu	37	chr7	149572732	149572732	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accgccgtctgctgttacctCttgtaagtactactctcccc	6	16	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:149572732C>G	uc003wgr.2	+	2	1248	c.297C>G	c.(295-297)CTC>CTG	p.L99L	LOC401431_uc003wgn.3_5'Flank|LOC401431_uc011kur.1_5'Flank|ATP6V0E2_uc003wgo.1_RNA|ATP6V0E2_uc003wgs.2_Silent_p.L99L|ATP6V0E2_uc003wgp.2_Silent_p.L99L|ATP6V0E2_uc003wgq.2_RNA	NM_145230	NP_660265	Q8NHE4	VA0E2_HUMAN	ATPase, H+ transporting, V0 subunit isoform 1	50	Helical; (Potential).				ATP hydrolysis coupled proton transport|cell growth|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport|vacuolar acidification	endosome membrane|integral to membrane|proton-transporting V-type ATPase, V0 domain|vacuole	ATPase activity, coupled to transmembrane movement of ions|hydrogen ion transmembrane transporter activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.00256)			GCTGTTACCTCTTGTAAGTAC	0.547													8	221	---	---	---	---	PASS	G	149572732	G	G	149572732	2	3	163	1	0	0	0	0	0	0	0	1	1176	900	32	2		2	ATP6V0E2	7	149572732	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	803305	149572732	9565931	616	57951										
SLC4A2	6522	broad.mit.edu	37	chr7	150767389	150767389	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acccccacgtcaccgagcctCtcatgggaggtgttcctgag	11	15	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:150767389C>G	uc003wit.3	+	10	1661	c.1405C>G	c.(1405-1407)CTC>GTC	p.L469V	SLC4A2_uc011kve.1_Missense_Mutation_p.L460V|SLC4A2_uc003wiu.3_Missense_Mutation_p.L455V|SLC4A2_uc003wiv.3_5'Flank	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	469	Cytoplasmic (Potential).			LLGHHHGQGAESDPHVTEPLMGGVPE -> CWGITMVRGLR VTPTSPSLSWEVFLR (in Ref. 6; CAA27556).	bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CACCGAGCCTCTCATGGGAGG	0.672													14	75	---	---	---	---	PASS	G	150767389	G	G	150767389	3	3	163	1	0	0	0	0	1	0	0	0	14654	913	32	2	1439	2	SLC4A2	7	150767389	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1194657	150767389	8371274	617	57952										
GBX1	2636	broad.mit.edu	37	chr7	150846114	150846114	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccccctgcagaactgtccagGaaaccgtcatcctcgctgtc	8	17	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:150846114G>T	uc011kvg.1	-	2	886	c.654C>A	c.(652-654)TTC>TTA	p.F218L		NM_001098834	NP_001092304	Q14549	GBX1_HUMAN	gastrulation brain homeo box 1	218						nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AACTGTCCAGGAAACCGTCAT	0.622													101	640	---	---	---	---	PASS	T	150846114	T	T	150846114	3	4	163	1	0	0	0	0	1	0	0	0	6280	1165	41	2	440	2	GBX1	7	150846114	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	78725	150846114	8292549	618	57953										
PRKAG2	51422	broad.mit.edu	37	chr7	151269752	151269752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acatccaatagtgcttacccCtccatgtttcaattttatgt	4	11	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:151269752C>A	uc003wkk.2	-	9	1660	c.1049G>T	c.(1048-1050)AGG>ATG	p.R350M	PRKAG2_uc003wki.2_Missense_Mutation_p.R109M|PRKAG2_uc011kvl.1_Missense_Mutation_p.R225M|PRKAG2_uc003wkj.2_Missense_Mutation_p.R306M|PRKAG2_uc003wkl.2_Intron|PRKAG2_uc010lqe.1_RNA	NM_016203	NP_057287	Q9UGJ0	AAKG2_HUMAN	AMP-activated protein kinase gamma2 subunit	350			R -> RL (in CMH-WPWS; severe).		ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)		GTGCTTACCCCTCCATGTTTC	0.269													18	110	---	---	---	---	PASS	A	151269752	A	A	151269752	3	1	163	1	0	0	0	0	1	0	0	0	12501	681	24	3	692	3	PRKAG2	7	151269752	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	423638	151269752	7868911	619	57954										
PRKAG2	51422	broad.mit.edu	37	chr7	151292541	151292541	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actttctgagtcttctactgCtaaaagaaaaaaaggcaaaa	6	7	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:151292541C>G	uc003wkk.2	-	6	1366	c.755_splice	c.e6-1	p.A252_splice	PRKAG2_uc003wki.2_Splice_Site_p.A11_splice|PRKAG2_uc011kvl.1_Intron|PRKAG2_uc003wkj.2_Splice_Site_p.A208_splice|PRKAG2_uc003wkl.2_5'Flank|PRKAG2_uc010lqe.1_Splice_Site	NM_016203	NP_057287	Q9UGJ0	AAKG2_HUMAN	AMP-activated protein kinase gamma2 subunit						ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)		TCTTCTACTGCTAAAAGAAAA	0.224													19	92	---	---	---	---	PASS	G	151292541	G	G	151292541	5	3	163	1	0	0	0	0	0	0	1	0	12501	811	28	4	999	4	PRKAG2	7	151292541	Splice_Site	SNP	C	TCGA-66-2785-01A-01D-1522-08	22789	151292541	7846122	620	57955										
MLL3	58508	broad.mit.edu	37	chr7	151946970	151946970	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atactgcttaccagcaataaGaagactatctgtgtcaagac	7	9	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:151946970G>C	uc003wla.2	-	13	2023	c.1804C>G	c.(1804-1806)CTT>GTT	p.L602V		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	602					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CCAGCAATAAGAAGACTATCT	0.358			N		medulloblastoma								33	107	---	---	---	---	PASS	C	151946970	C	C	151946970	3	2	163	1	0	0	0	0	1	0	0	0	9622	942	33	2	13119	2	MLL3	7	151946970	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	654429	151946970	7191693	621	57956										
XRCC2	7516	broad.mit.edu	37	chr7	152345752	152345752	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaaattcaaccccactttctCcaataataaaaaaatgtttt	1	9	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr7:152345752C>G	uc003wld.2	-	3	904	c.818G>C	c.(817-819)GGA>GCA	p.G273A		NM_005431	NP_005422	O43543	XRCC2_HUMAN	X-ray repair cross complementing protein 2	273					meiosis	nucleus	ATP binding|DNA binding|DNA-dependent ATPase activity			breast(1)|liver(1)	2		all_hematologic(28;0.0592)|Prostate(32;0.081)	OV - Ovarian serous cystadenocarcinoma(82;0.0423)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0429)		CCCACTTTCTCCAATAATAAA	0.254								Homologous_recombination					25	104	---	---	---	---	PASS	G	152345752	G	G	152345752	3	3	163	1	0	0	0	0	1	0	0	0	17450	855	30	2	28	2	XRCC2	7	152345752	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	398782	152345752	6792911	622	57957										
MCPH1	79648	broad.mit.edu	37	chr8	6302244	6302244	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agagaagtatcgtttgtctcCtaccttatcttcaacaaaag	6	9	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:6302244C>T	uc003wqi.2	+	8	1069	c.1001C>T	c.(1000-1002)CCT>CTT	p.P334L	MCPH1_uc003wqh.2_Missense_Mutation_p.P334L|MCPH1_uc011kwl.1_Missense_Mutation_p.P286L	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	334						microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		CGTTTGTCTCCTACCTTATCT	0.438													11	42	---	---	---	---	PASS	T	6302244	T	T	6302244	3	4	163	1	0	0	0	0	1	0	0	0	9398	681	24	3	1031	3	MCPH1	8	6302244	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08		6302244	140061778	623	57958										
LONRF1	91694	broad.mit.edu	37	chr8	12583331	12583331	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgaaaccagctgcaggcttGagagtaaaccaaatcatgaa	9	9	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:12583331G>A	uc003wwd.1	-	11	2131	c.2068C>T	c.(2068-2070)CAA>TAA	p.Q690*	LONRF1_uc011kxv.1_Nonsense_Mutation_p.Q279*|LONRF1_uc010lsp.1_Nonsense_Mutation_p.Q290*	NM_152271	NP_689484	Q17RB8	LONF1_HUMAN	LON peptidase N-terminal domain and ring finger	690	Lon.				proteolysis		ATP-dependent peptidase activity|zinc ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(644;0.236)		CTGCAGGCTTGAGAGTAAACC	0.413													23	95	---	---	---	---	PASS	A	12583331	A	A	12583331	4	1	163	1	0	0	0	0	0	1	0	0	8894	1299	45	2	261	2	LONRF1	8	12583331	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	6281087	12583331	133780691	624	57959										
TUSC3	7991	broad.mit.edu	37	chr8	15531304	15531304	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agatgtggaaccatatccgtGgacctccatatgctcataag	9	10	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:15531304G>A	uc003wwt.2	+	6	967	c.757G>A	c.(757-759)GGA>AGA	p.G253R	TUSC3_uc003wwr.2_Missense_Mutation_p.G253R|TUSC3_uc003wws.2_Missense_Mutation_p.G253R|TUSC3_uc003wwu.2_Missense_Mutation_p.G253R|TUSC3_uc003wwv.2_Missense_Mutation_p.G253R|TUSC3_uc003www.2_Missense_Mutation_p.G253R|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.G253R	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	253					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		CCATATCCGTGGACCTCCATA	0.373													30	135	---	---	---	---	PASS	A	15531304	A	A	15531304	3	1	163	1	0	0	0	0	1	0	0	0	16775	1349	47	3	779	3	TUSC3	8	15531304	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2947973	15531304	130832718	625	57960										
PSD3	23362	broad.mit.edu	37	chr8	18662066	18662066	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagcgtcattcctgtaaaatCaaaaaacttcagatattctt	4	9	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:18662066C>G	uc003wza.2	-	6	1979	c.1876G>C	c.(1876-1878)GAT>CAT	p.D626H	PSD3_uc003wyy.2_Missense_Mutation_p.D92H|PSD3_uc003wyz.2_5'UTR	NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	626	SEC7.				regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		CCTGTAAAATCAAAAAACTTC	0.343													24	83	---	---	---	---	PASS	G	18662066	G	G	18662066	3	3	163	1	0	0	0	0	1	0	0	0	12648	826	29	2	1311	2	PSD3	8	18662066	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3130762	18662066	127701956	626	57961										
LGI3	203190	broad.mit.edu	37	chr8	22006032	22006032	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtagctgtcgcggccggcacGaaagtgtttcacagcttggg	15	10	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:22006032G>C	uc003xav.2	-	8	1577	c.1288C>G	c.(1288-1290)CGT>GGT	p.R430G	LGI3_uc010ltu.2_Missense_Mutation_p.R406G	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	430	EAR 5.				exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		CGGCCGGCACGAAAGTGTTTC	0.632													5	15	---	---	---	---	PASS	C	22006032	C	C	22006032	3	2	163	1	0	0	0	0	1	0	0	0	8753	1058	37	2	362	2	LGI3	8	22006032	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3343966	22006032	124357990	627	57962										
POLR3D	661	broad.mit.edu	37	chr8	22105711	22105711	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtcagacatgggaccttctCatatcatcaacatcaaaaaa	5	10	5	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:22105711C>G	uc003xbl.2	+	5	489	c.406C>G	c.(406-408)CAT>GAT	p.H136D	POLR3D_uc003xbm.2_Missense_Mutation_p.H136D|POLR3D_uc011kze.1_Intron	NM_001722	NP_001713	P05423	RPC4_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	136					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity				0				Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		GGGACCTTCTCATATCATCAA	0.483													24	125	---	---	---	---	PASS	G	22105711	G	G	22105711	3	3	163	1	0	0	0	0	1	0	0	0	12231	826	29	2	420	2	POLR3D	8	22105711	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	99679	22105711	124258311	628	57963										
SLC39A14	23516	broad.mit.edu	37	chr8	22272336	22272336	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agattattatgtctccaagtCtgcagtggtgtttgggggct	13	6	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:22272336C>G	uc003xbq.3	+	5	846	c.671C>G	c.(670-672)TCT>TGT	p.S224C	SLC39A14_uc011kzg.1_Missense_Mutation_p.S224C|SLC39A14_uc003xbp.3_Missense_Mutation_p.S224C|SLC39A14_uc011kzh.1_Missense_Mutation_p.S224C	NM_001128431	NP_001121903	Q15043	S39AE_HUMAN	solute carrier family 39 (zinc transporter),	224	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|lamellipodium|plasma membrane	zinc ion transmembrane transporter activity				0				Colorectal(74;0.019)|COAD - Colon adenocarcinoma(73;0.0731)		GTCTCCAAGTCTGCAGTGGTG	0.383													17	236	---	---	---	---	PASS	G	22272336	G	G	22272336	3	3	163	1	0	0	0	0	1	0	0	0	14617	913	32	2	859	2	SLC39A14	8	22272336	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	166625	22272336	124091686	629	57964										
EBF2	64641	broad.mit.edu	37	chr8	25899692	25899692	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgtcatagagcgccaggacGaagtgaaagaagttggattt	13	6	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:25899692G>A	uc003xes.1	-	2	224	c.207C>T	c.(205-207)TTC>TTT	p.F69F	PPP2R2A_uc003xek.2_Intron|EBF2_uc003xet.1_Silent_p.F69F	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	69					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		GCGCCAGGACGAAGTGAAAGA	0.577													23	61	---	---	---	---	PASS	A	25899692	A	A	25899692	2	1	163	1	0	0	0	0	0	0	0	1	4881	1049	37	2		2	EBF2	8	25899692	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	3627356	25899692	120464330	630	57965										
EPHX2	2053	broad.mit.edu	37	chr8	27361127	27361127	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttcactttgacagtggataCcactcatggaagaaaactgc	8	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:27361127C>A	uc003xfu.2	+	3	274	c.193C>A	c.(193-195)CCA>ACA	p.P65T	EPHX2_uc010lut.1_Missense_Mutation_p.P65T|EPHX2_uc010luu.2_Missense_Mutation_p.P65T|EPHX2_uc010luv.2_5'UTR|EPHX2_uc003xfv.2_Missense_Mutation_p.P12T|EPHX2_uc010luw.2_5'UTR|EPHX2_uc011lam.1_5'Flank	NM_001979	NP_001970	P34913	HYES_HUMAN	epoxide hydrolase 2, cytoplasmic	65	Phosphatase.				aromatic compound catabolic process|cellular calcium ion homeostasis|drug metabolic process|inflammatory response|positive regulation of vasodilation|reactive oxygen species metabolic process|regulation of blood pressure|response to toxin|xenobiotic metabolic process	cytosol|focal adhesion|Golgi apparatus|nucleolus|peroxisome|soluble fraction	epoxide hydrolase activity|metal ion binding|protein homodimerization activity			ovary(1)	1		Ovarian(32;2.61e-05)|all_epithelial(46;0.207)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0226)|Epithelial(17;1.12e-09)|Colorectal(74;0.157)	Tamoxifen(DB00675)	ACAGTGGATACCACTCATGGA	0.303													4	24	---	---	---	---	PASS	A	27361127	A	A	27361127	3	1	163	1	0	0	0	0	1	0	0	0	5180	507	18	3	203	3	EPHX2	8	27361127	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1461435	27361127	119002895	631	57966										
FUT10	84750	broad.mit.edu	37	chr8	33246663	33246663	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ataggcctcatacaatctgtCatcagaatccagtcgtctga	7	11	5	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:33246663C>G	uc003xje.2	-	4	1386	c.1030G>C	c.(1030-1032)GAC>CAC	p.D344H	FUT10_uc003xjc.2_Missense_Mutation_p.D351H|FUT10_uc003xjd.2_Missense_Mutation_p.D316H|FUT10_uc011lbi.1_Missense_Mutation_p.D394H|FUT10_uc003xjf.2_Missense_Mutation_p.D282H|FUT10_uc003xjg.2_Missense_Mutation_p.D316H|FUT10_uc003xjh.2_Missense_Mutation_p.D344H	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	344	Lumenal (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		TACAATCTGTCATCAGAATCC	0.463													28	99	---	---	---	---	PASS	G	33246663	G	G	33246663	3	3	163	1	0	0	0	0	1	0	0	0	6102	826	29	2	417	2	FUT10	8	33246663	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5885536	33246663	113117359	632	57967										
WHSC1L1	54904	broad.mit.edu	37	chr8	38187168	38187168	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgagagtgaggaggccacctCccctgcattggtctgttctg	13	11	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:38187168C>G	uc003xli.2	-	6	1827	c.1309G>C	c.(1309-1311)GAG>CAG	p.E437Q	WHSC1L1_uc011lbm.1_Missense_Mutation_p.E437Q|WHSC1L1_uc010lwe.2_Missense_Mutation_p.E437Q|WHSC1L1_uc003xlj.2_Missense_Mutation_p.E437Q	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	437					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			GAGGCCACCTCCCCTGCATTG	0.502			T	NUP98	AML								18	169	---	---	---	---	PASS	G	38187168	G	G	38187168	3	3	163	1	0	0	0	0	1	0	0	0	17360	864	30	2	3167	2	WHSC1L1	8	38187168	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4940505	38187168	108176854	633	57968										
ANK1	286	broad.mit.edu	37	chr8	41591515	41591515	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtcgtttctagaatgatttCtttgtgcagaagttcaacca	8	7	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:41591515C>G	uc003xok.2	-	3	286	c.202G>C	c.(202-204)GAA>CAA	p.E68Q	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Missense_Mutation_p.E68Q|ANK1_uc003xoj.2_Missense_Mutation_p.E68Q|ANK1_uc003xol.2_Missense_Mutation_p.E68Q|ANK1_uc003xom.2_Missense_Mutation_p.E101Q	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	68	ANK 1.|89 kDa domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			AGAATGATTTCTTTGTGCAGA	0.463													10	192	---	---	---	---	PASS	G	41591515	G	G	41591515	3	3	163	1	0	0	0	0	1	0	0	0	620	922	32	2	5957	2	ANK1	8	41591515	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3404347	41591515	104772507	634	57969										
MYST3	7994	broad.mit.edu	37	chr8	41834549	41834549	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgggccaatctgaagtgcttGatttcctgttgcccctcttt	9	11	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:41834549G>C	uc010lxb.2	-	8	1884	c.1340C>G	c.(1339-1341)TCA>TGA	p.S447*	MYST3_uc010lxc.2_Nonsense_Mutation_p.S447*|MYST3_uc003xon.3_Nonsense_Mutation_p.S447*|MYST3_uc010lxd.2_Nonsense_Mutation_p.S447*	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	447	Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			TGAAGTGCTTGATTTCCTGTT	0.418													18	111	---	---	---	---	PASS	C	41834549	C	C	41834549	4	2	163	1	0	0	0	0	0	1	0	0	10104	1294	45	2	4718	2	MYST3	8	41834549	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	243034	41834549	104529473	635	57970										
MYST3	7994	broad.mit.edu	37	chr8	41834802	41834802	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agtgatttttcgtttcctacCccttccagggccagttcgaa	8	12	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:41834802C>A	uc010lxb.2	-	8	1631	c.1087G>T	c.(1087-1089)GGT>TGT	p.G363C	MYST3_uc010lxc.2_Missense_Mutation_p.G363C|MYST3_uc003xon.3_Missense_Mutation_p.G363C|MYST3_uc010lxd.2_Missense_Mutation_p.G363C	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	363	Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			CGTTTCCTACCCCTTCCAGGG	0.413													28	112	---	---	---	---	PASS	A	41834802	A	A	41834802	3	1	163	1	0	0	0	0	1	0	0	0	10104	623	22	3	4971	3	MYST3	8	41834802	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	253	41834802	104529220	636	57971										
MYST3	7994	broad.mit.edu	37	chr8	41838388	41838388	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggcatacgggtgagtggcgGatcacaacactccatgtgaa	13	9	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:41838388G>C	uc010lxb.2	-	6	1427	c.883C>G	c.(883-885)CCG>GCG	p.P295A	MYST3_uc010lxc.2_Missense_Mutation_p.P295A|MYST3_uc003xon.3_Missense_Mutation_p.P295A|MYST3_uc010lxd.2_Missense_Mutation_p.P295A	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	295	PHD-type 2.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			GTGAGTGGCGGATCACAACAC	0.368													53	223	---	---	---	---	PASS	C	41838388	C	C	41838388	3	2	163	1	0	0	0	0	1	0	0	0	10104	1174	41	2	5183	2	MYST3	8	41838388	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3586	41838388	104525634	637	57972										
SNAI2	6591	broad.mit.edu	37	chr8	49832466	49832466	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttctcttacccgtgtgagttCtaatgtgtccttgaagcaac	8	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:49832466C>T	uc003xqp.2	-	2	778	c.614G>A	c.(613-615)AGA>AAA	p.R205K		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	205	C2H2-type 3.				canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				CGTGTGAGTTCTAATGTGTCC	0.483													26	110	---	---	---	---	PASS	T	49832466	T	T	49832466	3	4	163	1	0	0	0	0	1	0	0	0	14827	913	32	2	200	2	SNAI2	8	49832466	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	7994078	49832466	96531556	638	57973										
RP1	6101	broad.mit.edu	37	chr8	55541287	55541287	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgatcccaatgacagtggCgaacttacccaagagaaaga	10	9	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:55541287C>A	uc003xsd.1	+	4	4993	c.4845C>A	c.(4843-4845)GGC>GGA	p.G1615G	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1615					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			ATGACAGTGGCGAACTTACCC	0.398													27	115	---	---	---	---	PASS	A	55541287	A	A	55541287	2	1	163	1	0	0	0	0	0	0	0	1	13532	755	27	1		1	RP1	8	55541287	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	5708821	55541287	90822735	639	57974										
TMEM68	137695	broad.mit.edu	37	chr8	56663694	56663694	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtccatgtagagcacaaaaCacatccagtaataaactaaa	6	9	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:56663694C>A	uc003xsg.1	-	3	585	c.516G>T	c.(514-516)GTG>GTT	p.V172V	TMEM68_uc003xsh.1_Silent_p.V172V	NM_152417	NP_689630	Q96MH6	TMM68_HUMAN	transmembrane protein 68	172						integral to membrane	acyltransferase activity			skin(1)	1			Epithelial(17;0.000361)|all cancers(17;0.00326)			GAGCACAAAACACATCCAGTA	0.353													14	114	---	---	---	---	PASS	A	56663694	A	A	56663694	2	1	163	1	0	0	0	0	0	0	0	1	16194	465	17	3		3	TMEM68	8	56663694	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1122407	56663694	89700328	640	57975										
MOS	4342	broad.mit.edu	37	chr8	57025860	57025860	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtctggaagcacagcagatCttccaacttctcagagcaac	8	12	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:57025860C>G	uc011leb.1	-	1	682	c.682G>C	c.(682-684)GAT>CAT	p.D228H		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	228	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			CACAGCAGATCTTCCAACTTC	0.542													21	72	---	---	---	---	PASS	G	57025860	G	G	57025860	3	3	163	1	0	0	0	0	1	0	0	0	9712	913	32	2	361	2	MOS	8	57025860	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	362166	57025860	89338162	641	57976										
MOS	4342	broad.mit.edu	37	chr8	57025872	57025872	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagcagatcttccaacttctCagagcaaccgaagtcactaa	6	13	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:57025872C>G	uc011leb.1	-	1	670	c.670G>C	c.(670-672)GAG>CAG	p.E224Q		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	224	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			TCCAACTTCTCAGAGCAACCG	0.542													12	75	---	---	---	---	PASS	G	57025872	G	G	57025872	3	3	163	1	0	0	0	0	1	0	0	0	9712	835	29	2	373	2	MOS	8	57025872	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	12	57025872	89338150	642	57977										
ARFGEF1	10565	broad.mit.edu	37	chr8	68151048	68151048	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttattgtgtcaatgttcttCtgtttcatttcagtaatacc	5	7	5	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:68151048C>G	uc003xxo.1	-	21	3450	c.3060G>C	c.(3058-3060)CAG>CAC	p.Q1020H	ARFGEF1_uc003xxl.1_Missense_Mutation_p.Q474H|ARFGEF1_uc003xxn.1_Missense_Mutation_p.Q3H	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	1020					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			CAATGTTCTTCTGTTTCATTT	0.353													23	98	---	---	---	---	PASS	G	68151048	G	G	68151048	3	3	163	1	0	0	0	0	1	0	0	0	852	912	32	2	2565	2	ARFGEF1	8	68151048	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	11125176	68151048	78212974	643	57978										
SLCO5A1	81796	broad.mit.edu	37	chr8	70591617	70591617	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaatgctgttctcacctgaGtgttactatgatagctgatg	10	7	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:70591617G>T	uc003xyl.2	-	8	2727	c.2020C>A	c.(2020-2022)CTC>ATC	p.L674I	SLCO5A1_uc010lzb.2_Missense_Mutation_p.L619I|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Missense_Mutation_p.L674I	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	674	Helical; Name=10; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			TCTCACCTGAGTGTTACTATG	0.423													38	177	---	---	---	---	PASS	T	70591617	T	T	70591617	3	4	163	1	0	0	0	0	1	0	0	0	14731	1029	36	3	538	3	SLCO5A1	8	70591617	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2440569	70591617	75772405	644	57979										
SLCO5A1	81796	broad.mit.edu	37	chr8	70744042	70744042	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctttcttgacattgtcatcTaagtaggttggtcccagggt	10	8	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:70744042T>C	uc003xyl.2	-	2	1574	c.867A>G	c.(865-867)TTA>TTG	p.L289L	SLCO5A1_uc010lzb.2_Silent_p.L289L|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Silent_p.L289L|SLCO5A1_uc010lzc.2_Silent_p.L289L	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	289	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			CATTGTCATCTAAGTAGGTTG	0.418													32	131	---	---	---	---	PASS	C	70744042	C	C	70744042	2	2	163	1	0	0	0	0	0	0	0	1	14731	1519	53	5		5	SLCO5A1	8	70744042	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	152425	70744042	75619980	645	57980										
C8orf84	157869	broad.mit.edu	37	chr8	73979610	73979610	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aactgtgaacagctggacaaGaacactggtctactcgccga	10	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:73979610G>C	uc003xzf.2	-	5	966	c.761C>G	c.(760-762)TCT>TGT	p.S254C		NM_153225	NP_694957	Q8IVN8	RPESP_HUMAN	RPE-spondin precursor	254					immune response	extracellular region	polysaccharide binding|scavenger receptor activity				0						AGCTGGACAAGAACACTGGTC	0.353													51	105	---	---	---	---	PASS	C	73979610	C	C	73979610	3	2	163	1	0	0	0	0	1	0	0	0	2440	942	33	2	37	2	C8orf84	8	73979610	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3235568	73979610	72384412	646	57981										
CNGB3	54714	broad.mit.edu	37	chr8	87616376	87616376	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaccagaactttagtaccatCagggcctccaagaacttgga	8	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:87616376C>G	uc003ydx.2	-	15	1772	c.1726G>C	c.(1726-1728)GAT>CAT	p.D576H	CNGB3_uc010maj.2_Missense_Mutation_p.D438H	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	576	Cytoplasmic (Potential).|cGMP (By similarity).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						TTAGTACCATCAGGGCCTCCA	0.373													27	99	---	---	---	---	PASS	G	87616376	G	G	87616376	3	3	163	1	0	0	0	0	1	0	0	0	3601	826	29	2	719	2	CNGB3	8	87616376	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	13636766	87616376	58747646	647	57982										
CNGB3	54714	broad.mit.edu	37	chr8	87656908	87656908	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgattaaattcaaaaaatgAagtgtactatatagaaaagc	6	3	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:87656908A>T	uc003ydx.2	-	9	1043	c.997T>A	c.(997-999)TCA>ACA	p.S333T	CNGB3_uc010maj.2_Missense_Mutation_p.S195T	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	333	Extracellular (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						TCAAAAAATGAAGTGTACTAT	0.249													19	96	---	---	---	---	PASS	T	87656908	T	T	87656908	3	4	163	1	0	0	0	0	1	0	0	0	3601	246	9	5	1472	5	CNGB3	8	87656908	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	40532	87656908	58707114	648	57983										
RUNX1T1	862	broad.mit.edu	37	chr8	92982954	92982954	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgcctgccgtttggcctcggCgaccgtgcgctccatcttgg	13	16	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:92982954C>T	uc003yfd.2	-	10	1555	c.1471G>A	c.(1471-1473)GCC>ACC	p.A491T	RUNX1T1_uc003yfc.1_Missense_Mutation_p.A464T|RUNX1T1_uc003yfe.1_Missense_Mutation_p.A454T|RUNX1T1_uc010mao.2_Missense_Mutation_p.A464T|RUNX1T1_uc011lgi.1_Missense_Mutation_p.A502T|RUNX1T1_uc010man.1_Missense_Mutation_p.A116T|RUNX1T1_uc003yfb.1_Missense_Mutation_p.A454T	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	491					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			TTGGCCTCGGCGACCGTGCGC	0.602													21	35	---	---	---	---	PASS	T	92982954	T	T	92982954	3	4	163	1	0	0	0	0	1	0	0	0	13747	768	27	1	351	1	RUNX1T1	8	92982954	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5326046	92982954	53381068	649	57984										
KIAA1429	25962	broad.mit.edu	37	chr8	95503956	95503956	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccatcttgaggaaccacttCtttactttcagcagcaacaa	5	12	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:95503956C>G	uc003ygo.1	-	22	5003	c.4990G>C	c.(4990-4992)GAA>CAA	p.E1664Q	KIAA1429_uc010maz.1_Intron	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1664					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			GGAACCACTTCTTTACTTTCA	0.443													36	206	---	---	---	---	PASS	G	95503956	G	G	95503956	3	3	163	1	0	0	0	0	1	0	0	0	8231	922	32	2	460	2	KIAA1429	8	95503956	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2521002	95503956	50860066	650	57985										
C8orf37	157657	broad.mit.edu	37	chr8	96275974	96275974	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attaataagactgtcaagatCatcttcttttttaaatgttt	4	5	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:96275974C>G	uc003yho.1	-	2	204	c.184G>C	c.(184-186)GAT>CAT	p.D62H		NM_177965	NP_808880	Q96NL8	CH037_HUMAN	hypothetical protein LOC157657	62											0	Breast(36;3.41e-05)					CTGTCAAGATCATCTTCTTTT	0.318													15	99	---	---	---	---	PASS	G	96275974	G	G	96275974	3	3	163	1	0	0	0	0	1	0	0	0	2423	826	29	2	459	2	C8orf37	8	96275974	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	772018	96275974	50088048	651	57986										
GDF6	392255	broad.mit.edu	37	chr8	97172861	97172861	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaagcctgctggaaaccgggCaaatcccacagaaaactgat	10	11	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:97172861C>T	uc003yhp.2	-	1	160	c.60G>A	c.(58-60)TTG>TTA	p.L20L		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	20					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GGAAACCGGGCAAATCCCACA	0.637													39	66	---	---	---	---	PASS	T	97172861	T	T	97172861	2	4	163	1	0	0	0	0	0	0	0	1	6317	709	25	3		3	GDF6	8	97172861	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	896887	97172861	49191161	652	57987										
PTDSS1	9791	broad.mit.edu	37	chr8	97316271	97316271	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccattctcttcttacagggaCattcataccaccaccgggaa	6	14	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:97316271C>T	uc003yht.1	+	7	858	c.756C>T	c.(754-756)GAC>GAT	p.D252D	PTDSS1_uc003yhu.1_Silent_p.D106D	NM_014754	NP_055569	P48651	PTSS1_HUMAN	phosphatidylserine synthase 1	252					phosphatidylserine biosynthetic process	integral to membrane	transferase activity			ovary(1)	1	Breast(36;6.18e-05)				Phosphatidylserine(DB00144)	CTTACAGGGACATTCATACCA	0.433													42	271	---	---	---	---	PASS	T	97316271	T	T	97316271	2	4	163	1	0	0	0	0	0	0	0	1	12736	477	17	3		3	PTDSS1	8	97316271	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	143410	97316271	49047751	653	57988										
TSPYL5	85453	broad.mit.edu	37	chr8	98290039	98290039	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttgccccggtttttggcgcGggaggactttcgaccccgac	13	13	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:98290039G>T	uc003yhy.2	-	1	138	c.34C>A	c.(34-36)CGC>AGC	p.R12S		NM_033512	NP_277047	Q86VY4	TSYL5_HUMAN	TSPY-like 5	12					cellular response to gamma radiation|nucleosome assembly|positive regulation of cell proliferation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|regulation of growth	nucleus	protein binding	p.R12H(1)		large_intestine(1)|ovary(1)	2	Breast(36;2.56e-06)					TTTTTGGCGCGGGAGGACTTT	0.692													4	12	---	---	---	---	PASS	T	98290039	T	T	98290039	3	4	163	1	0	0	0	0	1	0	0	0	16659	1116	39	1	1223	1	TSPYL5	8	98290039	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	973768	98290039	48073983	654	57989										
VPS13B	157680	broad.mit.edu	37	chr8	100568706	100568706	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaacttaggaattcttcgaGatcctggatcagaaatcgaa	9	7	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:100568706G>T	uc003yiv.2	+	31	4960	c.4849G>T	c.(4849-4851)GAT>TAT	p.D1617Y	VPS13B_uc003yiw.2_Missense_Mutation_p.D1592Y	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1617					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AATTCTTCGAGATCCTGGATC	0.358													13	67	---	---	---	---	PASS	T	100568706	T	T	100568706	3	4	163	1	0	0	0	0	1	0	0	0	17187	942	33	2	5161	2	VPS13B	8	100568706	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2278667	100568706	45795316	655	57990										
VPS13B	157680	broad.mit.edu	37	chr8	100865863	100865863	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agcctgtggctgcgttgtttGaactttactgtgtggagatc	13	7	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:100865863G>C	uc003yiv.2	+	56	10432	c.10321G>C	c.(10321-10323)GAA>CAA	p.E3441Q	VPS13B_uc003yiw.2_Missense_Mutation_p.E3416Q	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3441					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TGCGTTGTTTGAACTTTACTG	0.522													18	88	---	---	---	---	PASS	C	100865863	C	C	100865863	3	2	163	1	0	0	0	0	1	0	0	0	17187	1291	45	2	10733	2	VPS13B	8	100865863	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	297157	100865863	45498159	656	57991										
RGS22	26166	broad.mit.edu	37	chr8	100999760	100999760	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttttagagccacaaaacgttGaaattgtcttgaagtaactg	8	6	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:100999760G>C	uc003yjb.1	-	21	3301	c.3106C>G	c.(3106-3108)CAA>GAA	p.Q1036E	RGS22_uc003yja.1_Missense_Mutation_p.Q855E|RGS22_uc003yjc.1_Missense_Mutation_p.Q1024E	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	1036	RGS 2.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			ACAAAACGTTGAAATTGTCTT	0.358													3	113	---	---	---	---	PASS	C	100999760	C	C	100999760	3	2	163	1	0	0	0	0	1	0	0	0	13305	1299	45	2	716	2	RGS22	8	100999760	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	133897	100999760	45364262	657	57992										
DPYS	1807	broad.mit.edu	37	chr8	105436529	105436529	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catctgatcctacagctattCttccttttcttggatagaga	6	10	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:105436529C>G	uc003yly.3	-	7	1310	c.1181G>C	c.(1180-1182)AGA>ACA	p.R394T		NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	394					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			TACAGCTATTCTTCCTTTTCT	0.378													7	233	---	---	---	---	PASS	G	105436529	G	G	105436529	3	3	163	1	0	0	0	0	1	0	0	0	4746	913	32	2	390	2	DPYS	8	105436529	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4436769	105436529	40927493	658	57993										
ZFPM2	23414	broad.mit.edu	37	chr8	106431476	106431476	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggaggaaagcttttccacaGaatttgggcctgaaaatctg	11	7	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:106431476G>T	uc003ymd.2	+	2	168	c.145G>T	c.(145-147)GAA>TAA	p.E49*		NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	49					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			CTTTTCCACAGAATTTGGGCC	0.398													24	119	---	---	---	---	PASS	T	106431476	T	T	106431476	4	4	163	1	0	0	0	0	0	1	0	0	17655	943	33	2	151	2	ZFPM2	8	106431476	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	994947	106431476	39932546	659	57994										
PKHD1L1	93035	broad.mit.edu	37	chr8	110413772	110413772	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgccaacagttatttttccaGtccaacacaaagatcagatg	6	10	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:110413772G>T	uc003yne.2	+	14	1432	c.1328G>T	c.(1327-1329)AGT>ATT	p.S443I		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	443	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TATTTTTCCAGTCCAACACAA	0.348										HNSCC(38;0.096)			23	57	---	---	---	---	PASS	T	110413772	T	T	110413772	3	4	163	1	0	0	0	0	1	0	0	0	11972	1029	36	3	1382	3	PKHD1L1	8	110413772	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3982296	110413772	35950250	660	57995										
CSMD3	114788	broad.mit.edu	37	chr8	113314138	113314138	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagctgttgagccatatgaaGtttgagttccaatcttattt	8	6	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:113314138G>C	uc003ynu.2	-	53	8483	c.8324C>G	c.(8323-8325)ACT>AGT	p.T2775S	CSMD3_uc003yns.2_Missense_Mutation_p.T1977S|CSMD3_uc003ynt.2_Missense_Mutation_p.T2735S|CSMD3_uc011lhx.1_Missense_Mutation_p.T2606S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2775	Extracellular (Potential).|Sushi 17.					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						GCCATATGAAGTTTGAGTTCC	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			26	102	---	---	---	---	PASS	C	113314138	C	C	113314138	3	2	163	1	0	0	0	0	1	0	0	0	3946	1029	36	4	2875	4	CSMD3	8	113314138	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2900366	113314138	33049884	661	57996										
CSMD3	114788	broad.mit.edu	37	chr8	113668386	113668386	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gttttatcattacttactttCataatgaatcttgaaaccat	3	7	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:113668386C>T	uc003ynu.2	-	18	3160	c.3001G>A	c.(3001-3003)GAA>AAA	p.E1001K	CSMD3_uc003yns.2_Missense_Mutation_p.E273K|CSMD3_uc003ynt.2_Missense_Mutation_p.E961K|CSMD3_uc011lhx.1_Missense_Mutation_p.E897K	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1001	Extracellular (Potential).|CUB 5.					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						TACTTACTTTCATAATGAATC	0.294										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	100	---	---	---	---	PASS	T	113668386	T	T	113668386	3	4	163	1	0	0	0	0	1	0	0	0	3946	835	29	2	8338	2	CSMD3	8	113668386	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	354248	113668386	32695636	662	57997										
ENPP2	5168	broad.mit.edu	37	chr8	120594819	120594819	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccatgggtcccattattagGagctggcttcaatcccagga	10	11	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:120594819G>C	uc003yot.1	-	18	1653	c.1567C>G	c.(1567-1569)CCT>GCT	p.P523A	ENPP2_uc011lic.1_Missense_Mutation_p.P40A|ENPP2_uc003yor.1_Missense_Mutation_p.P162A|ENPP2_uc003yos.1_Missense_Mutation_p.P575A|ENPP2_uc010mdd.1_Missense_Mutation_p.P523A	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	523					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CCATTATTAGGAGCTGGCTTC	0.413													41	359	---	---	---	---	PASS	C	120594819	C	C	120594819	3	2	163	1	0	0	0	0	1	0	0	0	5130	1174	41	2	1135	2	ENPP2	8	120594819	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	6926433	120594819	25769203	663	57998										
FAM83A	84985	broad.mit.edu	37	chr8	124206350	124206350	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caaatccgggagaagttcatCatctcggactggagatttgt	11	8	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:124206350C>T	uc003ypv.2	+	4	2749	c.735C>T	c.(733-735)ATC>ATT	p.I245I	FAM83A_uc003ypw.2_Silent_p.I245I|FAM83A_uc003ypy.2_Silent_p.I189I|FAM83A_uc003ypx.2_Silent_p.I245I|FAM83A_uc003ypz.2_Silent_p.I245I	NM_032899	NP_116288	Q86UY5	FA83A_HUMAN	hypothetical protein LOC84985 isoform a	245										ovary(3)|skin(1)	4	Lung NSC(37;1.55e-09)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			AGAAGTTCATCATCTCGGACT	0.498													15	138	---	---	---	---	PASS	T	124206350	T	T	124206350	2	4	163	1	0	0	0	0	0	0	0	1	5633	816	29	2		2	FAM83A	8	124206350	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	3611531	124206350	22157672	664	57999										
C8orf76	84933	broad.mit.edu	37	chr8	124253535	124253535	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgccgctccggcctctcctCgaacaccgagtcctcgaact	8	20	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:124253535C>G	uc003yqc.1	-	1	83	c.52G>C	c.(52-54)GAG>CAG	p.E18Q	C8orf76_uc003yqd.2_Intron	NM_032847	NP_116236	Q96K31	CH076_HUMAN	hypothetical protein LOC84933	18							binding			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			GGCCTCTCCTCGAACACCGAG	0.672													4	22	---	---	---	---	PASS	G	124253535	G	G	124253535	3	3	163	1	0	0	0	0	1	0	0	0	2437	893	31	2	1114	2	C8orf76	8	124253535	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	47185	124253535	22110487	665	58000										
ATAD2	29028	broad.mit.edu	37	chr8	124349909	124349909	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaacactcggaatcgcttgtCaatagcaagcctatgtgtaa	8	9	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:124349909C>G	uc003yqh.3	-	21	3115	c.3007G>C	c.(3007-3009)GAC>CAC	p.D1003H	ATAD2_uc011lii.1_Missense_Mutation_p.D794H|ATAD2_uc003yqi.3_RNA	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	1003	Bromo.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			AATCGCTTGTCAATAGCAAGC	0.373													14	171	---	---	---	---	PASS	G	124349909	G	G	124349909	3	3	163	1	0	0	0	0	1	0	0	0	1071	826	29	2	1197	2	ATAD2	8	124349909	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	96374	124349909	22014113	666	58001										
ANXA13	312	broad.mit.edu	37	chr8	124707798	124707798	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acttgtatcacctttgacatCtgattcgaggctcctatcaa	6	11	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:124707798C>G	uc003yqu.2	-	6	488	c.415G>C	c.(415-417)GAT>CAT	p.D139H	ANXA13_uc003yqt.2_Missense_Mutation_p.D180H	NM_004306	NP_004297	P27216	ANX13_HUMAN	annexin A13 isoform a	139	Annexin 2.				cell differentiation	plasma membrane	calcium ion binding|calcium-dependent phospholipid binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(37;2.06e-11)|Ovarian(258;0.00579)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00288)			CCTTTGACATCTGATTCGAGG	0.388													51	455	---	---	---	---	PASS	G	124707798	G	G	124707798	3	3	163	1	0	0	0	0	1	0	0	0	717	913	32	2	559	2	ANXA13	8	124707798	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	357889	124707798	21656224	667	58002										
SQLE	6713	broad.mit.edu	37	chr8	126011914	126011914	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccccctgaatcagaaaataAggagcagctcgaggccagga	11	12	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:126011914A>C	uc011liq.1	+	1	1195	c.269A>C	c.(268-270)AAG>ACG	p.K90T		NM_003129	NP_003120	Q14534	ERG1_HUMAN	squalene epoxidase	90					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome	flavin adenine dinucleotide binding|squalene monooxygenase activity			ovary(1)|breast(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)		Butenafine(DB01091)|Naftifine(DB00735)|Terbinafine(DB00857)	TCAGAAAATAAGGAGCAGCTC	0.483													4	49	---	---	---	---	PASS	C	126011914	C	C	126011914	3	2	163	1	0	0	0	0	1	0	0	0	15127	72	3	5	271	5	SQLE	8	126011914	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	1304116	126011914	20352108	668	58003										
MYC	4609	broad.mit.edu	37	chr8	128752800	128752800	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtgccacgtctccacacatCagcacaactacgcagcgcct	8	17	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:128752800C>G	uc003ysi.2	+	3	1486	c.961C>G	c.(961-963)CAG>GAG	p.Q321E		NM_002467	NP_002458	P01106	MYC_HUMAN	myc proto-oncogene protein	306					branching involved in ureteric bud morphogenesis|cell cycle arrest|cell proliferation|cellular iron ion homeostasis|positive regulation of metanephric cap mesenchymal cell proliferation|positive regulation of transcription, DNA-dependent|regulation of telomere maintenance|regulation of transcription from RNA polymerase II promoter|response to drug	nucleolus|nucleoplasm	E-box binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(3)|ovary(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(1;6.19e-134)|all_epithelial(1;1.75e-119)|all_lung(1;5.66e-51)|Breast(1;1.08e-22)|all_neural(1;4.45e-21)|Medulloblastoma(1;1.88e-20)|Colorectal(1;1.92e-09)|Lung SC(1;4.52e-07)|Ovarian(5;0.000122)|Esophageal squamous(12;0.000995)|Renal(1;0.0921)|Hepatocellular(40;0.108)|Myeloproliferative disorder(2;0.135)|Melanoma(291;0.185)	Myeloproliferative disorder(644;0.0255)|Ovarian(118;0.0654)|Breast(495;0.212)|Acute lymphoblastic leukemia(644;0.22)	Epithelial(1;1.63e-94)|all cancers(1;5.82e-87)|OV - Ovarian serous cystadenocarcinoma(1;2.12e-71)|BRCA - Breast invasive adenocarcinoma(1;4.3e-14)|Lung(2;0.000381)|Colorectal(2;0.0102)|LUAD - Lung adenocarcinoma(14;0.0172)|READ - Rectum adenocarcinoma(2;0.0723)|LUSC - Lung squamous cell carcinoma(258;0.151)	KIRC - Kidney renal clear cell carcinoma(542;0.248)		CTCCACACATCAGCACAACTA	0.562		3	A|T	IGK@|BCL5|BCL7A |BTG1|TRA@|IGH@	Burkitt lymphoma| amplified in other cancers|B-CLL								8	72	---	---	---	---	PASS	G	128752800	G	G	128752800	3	3	163	1	0	0	0	0	1	0	0	0	10016	827	29	2	971	2	MYC	8	128752800	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2740886	128752800	17611222	669	58004										
PHF20L1	51105	broad.mit.edu	37	chr8	133806669	133806669	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttttgaggtatccatcacgaAttgaaaaaattgactatgag	8	5	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:133806669A>G	uc003ytt.2	+	3	422	c.97A>G	c.(97-99)ATT>GTT	p.I33V	PHF20L1_uc003ytr.2_Missense_Mutation_p.I33V|PHF20L1_uc010mdv.2_Missense_Mutation_p.I33V|PHF20L1_uc003yts.2_Missense_Mutation_p.I33V|PHF20L1_uc011lja.1_Missense_Mutation_p.I33V|PHF20L1_uc003ytu.1_RNA|PHF20L1_uc003ytq.2_Missense_Mutation_p.I33V	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	33	Tudor 1.						nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			TCCATCACGAATTGAAAAAAT	0.348													16	159	---	---	---	---	PASS	G	133806669	G	G	133806669	3	3	163	1	0	0	0	0	1	0	0	0	11832	101	4	5	103	5	PHF20L1	8	133806669	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	5053869	133806669	12557353	670	58005										
KHDRBS3	10656	broad.mit.edu	37	chr8	136619262	136619262	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgattcctatgataacagctAtagcaccccagcccaaaggt	7	12	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:136619262A>G	uc003yuv.2	+	7	1266	c.872A>G	c.(871-873)TAT>TGT	p.Y291C	KHDRBS3_uc003yuw.2_Intron|KHDRBS3_uc010mek.2_RNA	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal	291	Tyr-rich.				regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			GATAACAGCTATAGCACCCCA	0.403													38	307	---	---	---	---	PASS	G	136619262	G	G	136619262	3	3	163	1	0	0	0	0	1	0	0	0	8148	449	16	5	898	5	KHDRBS3	8	136619262	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	2812593	136619262	9744760	671	58006										
COL22A1	169044	broad.mit.edu	37	chr8	139601674	139601674	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctttagcatagccaggttccCcgggttgacctggcccaagg	12	13	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:139601674C>A	uc003yvd.2	-	65	5150	c.4703G>T	c.(4702-4704)GGG>GTG	p.G1568V	COL22A1_uc011ljo.1_Missense_Mutation_p.G848V	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1568	Pro-rich.|Gly-rich.				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)			GCCAGGTTCCCCGGGTTGACC	0.582										HNSCC(7;0.00092)			6	26	---	---	---	---	PASS	A	139601674	A	A	139601674	3	1	163	1	0	0	0	0	1	0	0	0	3681	623	22	3	181	3	COL22A1	8	139601674	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2982412	139601674	6762348	672	58007										
PTK2	5747	broad.mit.edu	37	chr8	141745438	141745438	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaggctgtagagggtaggagGacaatttggaggcattggta	17	3	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:141745438G>A	uc003yvu.2	-	22	2172	c.1942C>T	c.(1942-1944)CCT>TCT	p.P648S	PTK2_uc003yvo.2_Missense_Mutation_p.P276S|PTK2_uc011ljq.1_Missense_Mutation_p.P343S|PTK2_uc003yvp.2_Missense_Mutation_p.P316S|PTK2_uc003yvq.2_Missense_Mutation_p.P174S|PTK2_uc003yvr.2_Missense_Mutation_p.P588S|PTK2_uc003yvs.2_Missense_Mutation_p.P648S|PTK2_uc003yvt.2_Missense_Mutation_p.P670S|PTK2_uc003yvv.2_Missense_Mutation_p.P548S|PTK2_uc011ljr.1_Missense_Mutation_p.P648S|MIR151_hsa-mir-151|MI0000809_5'Flank	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	648	Protein kinase.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			AGGGTAGGAGGACAATTTGGA	0.478													36	129	---	---	---	---	PASS	A	141745438	A	A	141745438	3	1	163	1	0	0	0	0	1	0	0	0	12762	1174	41	2	1260	2	PTK2	8	141745438	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2143764	141745438	4618584	673	58008										
SLURP1	57152	broad.mit.edu	37	chr8	143823764	143823764	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accacagcccatgctccaggCtgccacgagcagcagctgca	10	17	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:143823764C>T	uc003ywy.2	-	1	66	c.40G>A	c.(40-42)GCC>ACC	p.A14T		NM_020427	NP_065160	P55000	SLUR1_HUMAN	ARS component B precursor	14					cell activation|cell adhesion	extracellular space	cytokine activity				0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					ATGCTCCAGGCTGCCACGAGC	0.637													13	45	---	---	---	---	PASS	T	143823764	T	T	143823764	3	4	163	1	0	0	0	0	1	0	0	0	14756	797	28	3	283	3	SLURP1	8	143823764	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2078326	143823764	2540258	674	58009										
CYP11B1	1584	broad.mit.edu	37	chr8	143960579	143960579	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccggcagcatcacacacacCatgcctgctcctcccaagtc	6	19	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:143960579C>A	uc003yxi.2	-	2	271	c.264G>T	c.(262-264)ATG>ATT	p.M88I	CYP11B1_uc003yxh.2_5'Flank|CYP11B1_uc003yxj.2_Missense_Mutation_p.M88I|CYP11B1_uc010mey.2_Missense_Mutation_p.M133I	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	88					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	TCACACACACCATGCCTGCTC	0.632									Familial_Hyperaldosteronism_type_I				29	124	---	---	---	---	PASS	A	143960579	A	A	143960579	3	1	163	1	0	0	0	0	1	0	0	0	4145	594	21	3	1279	3	CYP11B1	8	143960579	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	136815	143960579	2403443	675	58010										
CYP11B2	1585	broad.mit.edu	37	chr8	143996191	143996191	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gggctgatccagcgagacagGctcctgggcatgaacatgag	15	10	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:143996191G>T	uc003yxk.1	-	4	732	c.729C>A	c.(727-729)AGC>AGA	p.S243R		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	243					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	AGCGAGACAGGCTCCTGGGCA	0.607									Familial_Hyperaldosteronism_type_I				7	40	---	---	---	---	PASS	T	143996191	T	T	143996191	3	4	163	1	0	0	0	0	1	0	0	0	4146	1194	42	3	806	3	CYP11B2	8	143996191	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	35612	143996191	2367831	676	58011										
ZNF707	286075	broad.mit.edu	37	chr8	144776412	144776412	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagcagaagtccaaccttctCagacaccagctggtgcacac	8	14	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:144776412C>G	uc003yze.3	+	7	1143	c.828C>G	c.(826-828)CTC>CTG	p.L276L	ZNF707_uc010mfh.2_Silent_p.L276L|ZNF707_uc010mfi.2_Silent_p.L276L|ZNF707_uc003yzf.3_Silent_p.L276L|ZNF707_uc003yzh.3_Silent_p.L203L|ZNF707_uc011lkq.1_RNA|BREA2_uc010mfj.1_5'Flank	NM_173831	NP_776192	Q96C28	ZN707_HUMAN	zinc finger protein 707	276	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)	1	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;5.6e-41)|Epithelial(56;1.02e-39)|all cancers(56;9.65e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CCAACCTTCTCAGACACCAGC	0.632													9	9	---	---	---	---	PASS	G	144776412	G	G	144776412	2	3	163	1	0	0	0	0	0	0	0	1	18108	813	29	2		2	ZNF707	8	144776412	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	780221	144776412	1587610	677	58012										
PLEC	5339	broad.mit.edu	37	chr8	144992859	144992859	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcactcagcagccctttcttGagagcctggtagatgctcag	11	12	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:144992859G>C	uc003zaf.1	-	32	11711	c.11541C>G	c.(11539-11541)CTC>CTG	p.L3847L	PLEC_uc003zab.1_Silent_p.L3710L|PLEC_uc003zac.1_Silent_p.L3714L|PLEC_uc003zad.2_Silent_p.L3710L|PLEC_uc003zae.1_Silent_p.L3678L|PLEC_uc003zag.1_Silent_p.L3688L|PLEC_uc003zah.2_Silent_p.L3696L|PLEC_uc003zaj.2_Silent_p.L3737L	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3847	Globular 2.|Plectin 17.				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						GCCCTTTCTTGAGAGCCTGGT	0.662													12	114	---	---	---	---	PASS	C	144992859	C	C	144992859	2	2	163	1	0	0	0	0	0	0	0	1	12052	1277	45	2		2	PLEC	8	144992859	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	216447	144992859	1371163	678	58013										
PLEC	5339	broad.mit.edu	37	chr8	144998187	144998187	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccgccagctgccgctgcctCgcagcctccagctcggcctg	12	20	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:144998187C>T	uc003zaf.1	-	31	6491	c.6321G>A	c.(6319-6321)GCG>GCA	p.A2107A	PLEC_uc003zab.1_Silent_p.A1970A|PLEC_uc003zac.1_Silent_p.A1974A|PLEC_uc003zad.2_Silent_p.A1970A|PLEC_uc003zae.1_Silent_p.A1938A|PLEC_uc003zag.1_Silent_p.A1948A|PLEC_uc003zah.2_Silent_p.A1956A|PLEC_uc003zaj.2_Silent_p.A1997A	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2107	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						GCCGCTGCCTCGCAGCCTCCA	0.746													6	17	---	---	---	---	PASS	T	144998187	T	T	144998187	2	4	163	1	0	0	0	0	0	0	0	1	12052	871	31	2		2	PLEC	8	144998187	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	5328	144998187	1365835	679	58014										
GPAA1	8733	broad.mit.edu	37	chr8	145138624	145138624	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgctgcatacagatggtgtCgggcaccaacgtgtacggca	13	10	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:145138624C>G	uc003zax.2	+	4	484	c.374C>G	c.(373-375)TCG>TGG	p.S125W	GPAA1_uc003zav.1_Missense_Mutation_p.S3W|GPAA1_uc003zaw.1_Missense_Mutation_p.S65W	NM_003801	NP_003792	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment	125	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein complex assembly|protein retention in ER lumen	GPI-anchor transamidase complex	tubulin binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CAGATGGTGTCGGGCACCAAC	0.637													11	68	---	---	---	---	PASS	G	145138624	G	G	145138624	3	3	163	1	0	0	0	0	1	0	0	0	6587	893	31	2	388	2	GPAA1	8	145138624	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	140437	145138624	1225398	680	58015										
ZNF34	80778	broad.mit.edu	37	chr8	145999641	145999641	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acaactaagtttgcactgaaGatttccccagagttacgaac	7	10	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr8:145999641G>C	uc003zdy.3	-	6	795	c.693C>G	c.(691-693)ATC>ATG	p.I231M	ZNF34_uc010mgb.2_Missense_Mutation_p.I128M|ZNF34_uc003zdx.3_Missense_Mutation_p.I210M	NM_030580	NP_085057	Q8IZ26	ZNF34_HUMAN	zinc finger protein 34	231					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.221)	OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;5.18e-38)|all cancers(56;4.41e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.0179)		TTGCACTGAAGATTTCCCCAG	0.358													9	77	---	---	---	---	PASS	C	145999641	C	C	145999641	3	2	163	1	0	0	0	0	1	0	0	0	17853	932	33	2	993	2	ZNF34	8	145999641	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	861017	145999641	364381	681	58016										
IFNA10	3446	broad.mit.edu	37	chr9	21206859	21206859	+	Missense_Mutation	SNP	G	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgctggatcatctcatggaGgacagagatggcttgagcct							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:21206859G>A	uc003zoq.1	-	1	284	c.238C>T	c.(238-240)CTC>TTC	p.L80F	IFNA14_uc003zoo.1_Intron	NM_002171	NP_002162	P01566	IFN10_HUMAN	interferon, alpha 10 precursor	80					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;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.17)		ATCTCATGGAGGACAGAGATG	0.483													4	96	---	---	---	---	PASS	A	21206859	A	A	21206859	3	1	163	1	0	0	0	0	1	0	0	0	7532	1000	35	3	335	3	IFNA10	9	21206859	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08		21206859	120006572	682	58017	1035	2								
IFNA10	3446	broad.mit.edu	37	chr9	21206861	21206861	+	Missense_Mutation	SNP	A	G	G													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctggatcatctcatggaggAcagagatggcttgagccttc							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:21206861A>G	uc003zoq.1	-	1	282	c.236T>C	c.(235-237)GTC>GCC	p.V79A	IFNA14_uc003zoo.1_Intron	NM_002171	NP_002162	P01566	IFN10_HUMAN	interferon, alpha 10 precursor	79					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;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.17)		CTCATGGAGGACAGAGATGGC	0.488													4	99	---	---	---	---	PASS	G	21206861	G	G	21206861	3	3	163	1	0	0	0	0	1	0	0	0	7532	275	10	5	337	5	IFNA10	9	21206861	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	2	21206861	120006570	683	58018	1035	2								
UBAP1	51271	broad.mit.edu	37	chr9	34241603	34241603	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccactggacccattatggctCagttattggacaataacttg	8	10	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:34241603C>G	uc003ztx.2	+	4	815	c.580C>G	c.(580-582)CAG>GAG	p.Q194E	UBAP1_uc010mka.1_Missense_Mutation_p.Q230E|UBAP1_uc003zty.2_Missense_Mutation_p.Q194E|UBAP1_uc011loi.1_Missense_Mutation_p.Q230E|UBAP1_uc011loj.1_Missense_Mutation_p.Q258E|KIF24_uc010mkb.2_Intron|UBAP1_uc003ztz.2_Missense_Mutation_p.Q194E	NM_016525	NP_057609	Q9NZ09	UBAP1_HUMAN	ubiquitin associated protein 1	194						cytoplasm					0			LUSC - Lung squamous cell carcinoma(29;0.00272)			CATTATGGCTCAGTTATTGGA	0.468													3	81	---	---	---	---	PASS	G	34241603	G	G	34241603	3	3	163	1	0	0	0	0	1	0	0	0	16833	827	29	2	827	2	UBAP1	9	34241603	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	13034742	34241603	106971828	684	58019										
TMEM8B	51754	broad.mit.edu	37	chr9	35853186	35853186	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtccatggctctgcagcttGaccgacatggactctggaac	11	12	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:35853186G>C	uc003zym.2	+	13	2030	c.1015G>C	c.(1015-1017)GAC>CAC	p.D339H	TMEM8B_uc003zyo.2_Missense_Mutation_p.D339H	NM_001042589	NP_001036054	A6NDV4	TMM8B_HUMAN	transmembrane protein 8B isoform a	339	Extracellular (Potential).				cell-matrix adhesion|regulation of growth|regulation of mitotic cell cycle	cell surface|endoplasmic reticulum|integral to membrane|mitochondrion|nucleus|plasma membrane	protein binding			ovary(1)	1						TCTGCAGCTTGACCGACATGG	0.602													41	240	---	---	---	---	PASS	C	35853186	C	C	35853186	3	2	163	1	0	0	0	0	1	0	0	0	16212	1290	45	2	1239	2	TMEM8B	9	35853186	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1611583	35853186	105360245	685	58020										
OR2S2	56656	broad.mit.edu	37	chr9	35957495	35957495	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaagatcacattcgtcacctCcatgctgatcacattgatgg	8	11	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:35957495C>G	uc011lpi.1	-	1	657	c.601G>C	c.(601-603)GAG>CAG	p.E201Q		NM_019897	NP_063950	Q9NQN1	OR2S1_HUMAN	olfactory receptor, family 2, subfamily S,	201	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00613)|STAD - Stomach adenocarcinoma(86;0.194)			TTCGTCACCTCCATGCTGATC	0.493													21	133	---	---	---	---	PASS	G	35957495	G	G	35957495	3	3	163	1	0	0	0	0	1	0	0	0	11015	864	30	2	362	2	OR2S2	9	35957495	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	104309	35957495	105255936	686	58021										
OR2S2	56656	broad.mit.edu	37	chr9	35957889	35957889	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtagtgaagcagatgtccagGaaggagaggttccctaggaa	15	6	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:35957889G>C	uc011lpi.1	-	1	263	c.207C>G	c.(205-207)TTC>TTG	p.F69L		NM_019897	NP_063950	Q9NQN1	OR2S1_HUMAN	olfactory receptor, family 2, subfamily S,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00613)|STAD - Stomach adenocarcinoma(86;0.194)			AGATGTCCAGGAAGGAGAGGT	0.567													19	35	---	---	---	---	PASS	C	35957889	C	C	35957889	3	2	163	1	0	0	0	0	1	0	0	0	11015	1165	41	2	756	2	OR2S2	9	35957889	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	394	35957889	105255542	687	58022										
PIP5K1B	8395	broad.mit.edu	37	chr9	71478840	71478840	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccaagccagaacgagatgttCttatgcaagacttttatgtg	9	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:71478840C>G	uc004agu.2	+	5	462	c.157C>G	c.(157-159)CTT>GTT	p.L53V	PIP5K1B_uc011lrq.1_Missense_Mutation_p.L53V|PIP5K1B_uc004agv.2_RNA	NM_003558	NP_003549	O14986	PI51B_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	53	PIPK.					endomembrane system|membrane|uropod	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|protein binding			stomach(1)	1				Lung(182;0.133)		ACGAGATGTTCTTATGCAAGA	0.403													7	301	---	---	---	---	PASS	G	71478840	G	G	71478840	3	3	163	1	0	0	0	0	1	0	0	0	11940	913	32	2	163	2	PIP5K1B	9	71478840	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	35520951	71478840	69734591	688	58023										
DAPK1	1612	broad.mit.edu	37	chr9	90312079	90312079	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaccaagtgattttctggctCagtttcctgaagtcccttgt	8	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:90312079C>G	uc004apc.2	+	22	2709	c.2571C>G	c.(2569-2571)CTC>CTG	p.L857L	DAPK1_uc004apd.2_Silent_p.L857L|DAPK1_uc011ltg.1_Intron|DAPK1_uc011lth.1_Silent_p.L594L	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	857					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						TTTTCTGGCTCAGTTTCCTGA	0.488									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				18	96	---	---	---	---	PASS	G	90312079	G	G	90312079	2	3	163	1	0	0	0	0	0	0	0	1	4235	813	29	2		2	DAPK1	9	90312079	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	18833239	90312079	50901352	689	58024										
FAM22G	441457	broad.mit.edu	37	chr9	99694157	99694157	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agccggccctctggtgctctCtgccttccccagcacccctc	8	21	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:99694157C>G	uc004awq.1	+	2	885	c.170C>G	c.(169-171)TCT>TGT	p.S57C		NM_001045477	NP_001038942	Q5VZR2	FA22G_HUMAN	hypothetical protein LOC441457	57										skin(1)	1		Acute lymphoblastic leukemia(62;0.0527)				CTGGTGCTCTCTGCCTTCCCC	0.657													3	18	---	---	---	---	PASS	G	99694157	G	G	99694157	3	3	163	1	0	0	0	0	1	0	0	0	5546	913	32	2	176	2	FAM22G	9	99694157	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	9382078	99694157	41519274	690	58025										
C9orf125	84302	broad.mit.edu	37	chr9	104238938	104238938	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aatggctcacactacgctccAcgttgcacaggaagagttgg	11	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:104238938A>G	uc004bbm.2	-	2	759	c.437T>C	c.(436-438)GTG>GCG	p.V146A	uc004bbl.1_5'Flank	NM_032342	NP_115718	Q9BRR3	CI125_HUMAN	hypothetical protein LOC84302	146						integral to membrane					0		Acute lymphoblastic leukemia(62;0.0527)				ACTACGCTCCACGTTGCACAG	0.557													20	80	---	---	---	---	PASS	G	104238938	G	G	104238938	3	3	163	1	0	0	0	0	1	0	0	0	2454	159	6	5	778	5	C9orf125	9	104238938	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	4544781	104238938	36974493	691	58026										
ABCA1	19	broad.mit.edu	37	chr9	107560723	107560723	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atatcccagacaaaattagaGagccagtagatgacaggctt	9	8	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:107560723G>C	uc004bcl.2	-	37	5413	c.5100C>G	c.(5098-5100)CTC>CTG	p.L1700L		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1700					Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CAAAATTAGAGAGCCAGTAGA	0.483													32	67	---	---	---	---	PASS	C	107560723	C	C	107560723	2	2	163	1	0	0	0	0	0	0	0	1	28	929	33	2		2	ABCA1	9	107560723	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	3321785	107560723	33652708	692	58027										
ABCA1	19	broad.mit.edu	37	chr9	107560846	107560846	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gacattgcaaagatgacacaGatggacacaaggacatccac	9	10	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:107560846G>A	uc004bcl.2	-	37	5290	c.4977C>T	c.(4975-4977)ATC>ATT	p.I1659I		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1659	Helical; (Potential).				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AGATGACACAGATGGACACAA	0.498													3	62	---	---	---	---	PASS	A	107560846	A	A	107560846	2	1	163	1	0	0	0	0	0	0	0	1	28	932	33	2		2	ABCA1	9	107560846	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	123	107560846	33652585	693	58028										
SVEP1	79987	broad.mit.edu	37	chr9	113265483	113265483	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgtttcggctggcggagatGaggacatgttcttactatgt	13	6	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:113265483G>A	uc010mtz.2	-	6	1655	c.1318C>T	c.(1318-1320)CAT>TAT	p.H440Y	SVEP1_uc010mua.1_Missense_Mutation_p.H440Y|SVEP1_uc004beu.2_Missense_Mutation_p.H440Y	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	440	Sushi 2.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TGGCGGAGATGAGGACATGTT	0.373													59	84	---	---	---	---	PASS	A	113265483	A	A	113265483	3	1	163	1	0	0	0	0	1	0	0	0	15417	1290	45	2	9569	2	SVEP1	9	113265483	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5704637	113265483	27947948	694	58029										
ZFP37	7539	broad.mit.edu	37	chr9	115818839	115818839	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctcatcacagctctcaccgCggcgctggcctcgggctcgg	12	17	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:115818839C>T	uc004bgm.1	-	1	158	c.130G>A	c.(130-132)GCG>ACG	p.A44T	ZFP37_uc011lwz.1_Missense_Mutation_p.A44T|ZFP37_uc011lxa.1_Missense_Mutation_p.A44T	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	44	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GCTCTCACCGCGGCGCTGGCC	0.592													109	177	---	---	---	---	PASS	T	115818839	T	T	115818839	3	4	163	1	0	0	0	0	1	0	0	0	17645	768	27	1	1778	1	ZFP37	9	115818839	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2553356	115818839	25394592	695	58030										
RABGAP1	23637	broad.mit.edu	37	chr9	125782649	125782649	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagtaagaaacggtgtccctGaagctcttcgaggagaagtc	12	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:125782649G>A	uc011lzh.1	+	13	1839	c.1705G>A	c.(1705-1707)GAA>AAA	p.E569K	RABGAP1_uc004bnl.3_RNA	NM_012197	NP_036329	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	569	Rab-GAP TBC.				cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5						CGGTGTCCCTGAAGCTCTTCG	0.443													20	104	---	---	---	---	PASS	A	125782649	A	A	125782649	3	1	163	1	0	0	0	0	1	0	0	0	12964	1291	45	2	1751	2	RABGAP1	9	125782649	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	9963810	125782649	15430782	696	58031										
RALGPS1	9649	broad.mit.edu	37	chr9	129937052	129937052	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gactagtctcttccaaggaaGatcttgcaggtatcgtagct	10	9	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:129937052G>T	uc004bqo.1	+	11	1168	c.901G>T	c.(901-903)GAT>TAT	p.D301Y	RALGPS1_uc011mab.1_Missense_Mutation_p.D301Y|RALGPS1_uc011mac.1_Missense_Mutation_p.D301Y|RALGPS1_uc004bqq.3_Missense_Mutation_p.D301Y	NM_014636	NP_055451	Q5JS13	RGPS1_HUMAN	Ral GEF with PH domain and SH3 binding motif 1	301					small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity			ovary(1)	1						TTCCAAGGAAGATCTTGCAGG	0.493													7	212	---	---	---	---	PASS	T	129937052	T	T	129937052	3	4	163	1	0	0	0	0	1	0	0	0	13017	942	33	2	939	2	RALGPS1	9	129937052	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4154403	129937052	11276379	697	58032										
DNM1	1759	broad.mit.edu	37	chr9	130984795	130984795	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcattgagggctcaggagatCagatcgacacctacgaactg	12	10	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:130984795C>G	uc011mau.1	+	8	1135	c.1048C>G	c.(1048-1050)CAG>GAG	p.Q350E	DNM1_uc010mxr.2_Missense_Mutation_p.Q350E|DNM1_uc011mat.1_Missense_Mutation_p.Q350E	NM_004408	NP_004399	Q05193	DYN1_HUMAN	dynamin 1 isoform 1	350					receptor-mediated endocytosis	microtubule	GTP binding|GTPase activity			ovary(2)	2						CTCAGGAGATCAGATCGACAC	0.607													18	101	---	---	---	---	PASS	G	130984795	G	G	130984795	3	3	163	1	0	0	0	0	1	0	0	0	4670	827	29	2	1078	2	DNM1	9	130984795	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1047743	130984795	10228636	698	58033										
SPTAN1	6709	broad.mit.edu	37	chr9	131345472	131345472	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggccaaaagctgattgatgtCaaccactatgccaaggatga	10	9	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:131345472C>A	uc004bvl.3	+	15	2036	c.1923C>A	c.(1921-1923)GTC>GTA	p.V641V	SPTAN1_uc011mbg.1_Silent_p.V641V|SPTAN1_uc011mbh.1_Silent_p.V653V|SPTAN1_uc004bvm.3_Silent_p.V641V|SPTAN1_uc004bvn.3_Silent_p.V641V	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	641	Spectrin 7.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						TGATTGATGTCAACCACTATG	0.463													3	62	---	---	---	---	PASS	A	131345472	A	A	131345472	2	1	163	1	0	0	0	0	0	0	0	1	15116	813	29	2		2	SPTAN1	9	131345472	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	360677	131345472	9867959	699	58034										
TBC1D13	54662	broad.mit.edu	37	chr9	131568141	131568141	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccacgctgtctccccagcaaGagcagaacatcaagcctcag	8	16	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:131568141G>A	uc010myj.2	+	10	1045	c.922G>A	c.(922-924)GAG>AAG	p.E308K	TBC1D13_uc010myk.2_Missense_Mutation_p.E183K|TBC1D13_uc010myl.2_Missense_Mutation_p.E127K	NM_018201	NP_060671	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	308	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0						TCCCCAGCAAGAGCAGAACAT	0.597													6	30	---	---	---	---	PASS	A	131568141	A	A	131568141	3	1	163	1	0	0	0	0	1	0	0	0	15599	943	33	2	960	2	TBC1D13	9	131568141	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	222669	131568141	9645290	700	58035										
BAT2L1	84726	broad.mit.edu	37	chr9	134348896	134348896	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagtctttgccttcttcaggActgatgaagcccatgatgcc	9	12	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:134348896A>G	uc004can.3	+	14	2164	c.2109A>G	c.(2107-2109)GGA>GGG	p.G703G	BAT2L1_uc010mzj.1_Silent_p.G286G|BAT2L1_uc004cao.3_Silent_p.G61G	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	703							protein binding				0						CTTCTTCAGGACTGATGAAGC	0.502													3	13	---	---	---	---	PASS	G	134348896	G	G	134348896	2	3	163	1	0	0	0	0	0	0	0	1	1320	289	10	5		5	BAT2L1	9	134348896	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	2780755	134348896	6864535	701	58036										
C9orf98	158067	broad.mit.edu	37	chr9	135702386	135702386	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagatgtcctctggcaccatGagacggttctggatttcaga	12	9	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:135702386G>C	uc004cbu.1	-	8	1168	c.612C>G	c.(610-612)CTC>CTG	p.L204L	C9orf98_uc010mzx.1_RNA|C9orf98_uc004cbv.1_5'UTR	NM_152572	NP_689785	Q96MA6	KAD8_HUMAN	putative adenylate kinase-like protein C9orf98	204						cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;4.89e-06)|Epithelial(140;0.00016)		CTGGCACCATGAGACGGTTCT	0.517													52	283	---	---	---	---	PASS	C	135702386	C	C	135702386	2	2	163	1	0	0	0	0	0	0	0	1	2509	1277	45	2		2	C9orf98	9	135702386	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1353490	135702386	5511045	702	58037										
TSC1	7248	broad.mit.edu	37	chr9	135804213	135804213	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccgcacacccagcatggggGagtccagcatggcaagaagc	13	14	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:135804213G>C	uc004cca.2	-	3	281	c.47C>G	c.(46-48)TCC>TGC	p.S16C	TSC1_uc004ccb.3_Missense_Mutation_p.S16C|TSC1_uc011mcq.1_Missense_Mutation_p.S16C|TSC1_uc011mcr.1_Intron|TSC1_uc011mcs.1_5'UTR|TSC1_uc004ccc.1_Missense_Mutation_p.S16C|TSC1_uc004ccd.2_Missense_Mutation_p.S16C|TSC1_uc004cce.1_Missense_Mutation_p.S16C	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	16					activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding			lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		CAGCATGGGGGAGTCCAGCAT	0.502			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				24	116	---	---	---	---	PASS	C	135804213	C	C	135804213	3	2	163	1	0	0	0	0	1	0	0	0	16602	1174	41	2	3531	2	TSC1	9	135804213	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	101827	135804213	5409218	703	58038										
BRD3	8019	broad.mit.edu	37	chr9	136917502	136917502	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcttgcactccaataataatTattttctagtctcttcttaa	3	9	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:136917502T>A	uc004cew.2	-	3	465	c.277A>T	c.(277-279)AAT>TAT	p.N93Y	BRD3_uc004cex.2_Missense_Mutation_p.N93Y	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	93	Bromo 1.					nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		CAATAATAATTATTTTCTAGT	0.358			T	NUT|C15orf55	lethal midline carcinoma of young people								25	98	---	---	---	---	PASS	A	136917502	A	A	136917502	3	1	163	1	0	0	0	0	1	0	0	0	1503	1754	61	5	1943	5	BRD3	9	136917502	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	1113289	136917502	4295929	704	58039										
KIAA0649	9858	broad.mit.edu	37	chr9	138376850	138376850	+	Frame_Shift_Del	DEL	C	-	-													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcagcccagccttccagggCcgcaggcggaggcagtagat							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:138376850delC	uc004cfr.1	+	4	1043	c.494delC	c.(493-495)GCCfs	p.A165fs		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	165						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		CCTTCCAGGGCCGCAGGCGGA	0.672													37	35	---	---	---	---		-	138376850	-	-	138376850	7	5	163	1	0	1	0	1	0	0	0	0	8187	739	26	0	496	0	KIAA0649	9	138376850	Frame_Shift_Del	DEL	C	TCGA-66-2785-01A-01D-1522-08	1459348	138376850	2836581	705	58040										
SNAPC4	6621	broad.mit.edu	37	chr9	139272375	139272375	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagggctgggggctgataggGcagtctgctgcccagaagag	18	9	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:139272375G>A	uc004chh.2	-	21	3913	c.3904C>T	c.(3904-3906)CCC>TCC	p.P1302S		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	1302	SNAPC2-binding.				snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		GGCTGATAGGGCAGTCTGCTG	0.701													9	24	---	---	---	---	PASS	A	139272375	A	A	139272375	3	1	163	1	0	0	0	0	1	0	0	0	14837	1203	42	3	513	3	SNAPC4	9	139272375	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	895525	139272375	1941056	706	58041										
C9orf86	55684	broad.mit.edu	37	chr9	139734662	139734662	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agaagaagaaaaaaggcaaaGaggtactggctactcccctt	10	8	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:139734662G>C	uc004cji.1	+	14	2255	c.1987G>C	c.(1987-1989)GAG>CAG	p.E663Q	C9orf86_uc004cjj.1_Missense_Mutation_p.E664Q|C9orf86_uc004cjk.1_RNA|C9orf86_uc010nbr.1_Intron|C9orf86_uc004cjl.1_RNA|C9orf86_uc010nbs.1_Missense_Mutation_p.E548Q|C9orf86_uc004cjn.1_Missense_Mutation_p.E457Q	NM_024718	NP_078994	Q3YEC7	PARF_HUMAN	Rab-like GTP-binding protein 1 isoform 1	663	Interaction with CDKN2A.|Lys-rich.				small GTPase mediated signal transduction	cytoplasm|nucleus	GTP binding|protein binding				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.61e-05)|Epithelial(140;0.000183)		aaaAGGCAAAGAGGTACTGGC	0.537													10	35	---	---	---	---	PASS	C	139734662	C	C	139734662	3	2	163	1	0	0	0	0	1	0	0	0	2502	943	33	2	2288	2	C9orf86	9	139734662	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	462287	139734662	1478769	707	58042										
RNF208	727800	broad.mit.edu	37	chr9	140115307	140115307	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccaggccgaatcacgtactGattcacaatgacctcatcct	7	14	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:140115307G>C	uc004clz.1	-	1	469	c.358C>G	c.(358-360)CAG>GAG	p.Q120E		NM_031297	NP_112587	Q9H0X6	RN208_HUMAN	ring finger protein 208	120							zinc ion binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		ATCACGTACTGATTCACAATG	0.682													12	21	---	---	---	---	PASS	C	140115307	C	C	140115307	3	2	163	1	0	0	0	0	1	0	0	0	13475	1299	45	2	431	2	RNF208	9	140115307	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	380645	140115307	1098124	708	58043										
FAM166A	401565	broad.mit.edu	37	chr9	140140245	140140245	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gggtctgtgagcagctgcccCgtggtacgcccataggtgtt	15	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:140140245C>T	uc004cmi.1	-	2	172	c.117G>A	c.(115-117)ACG>ACA	p.T39T		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	39										ovary(1)	1						GCAGCTGCCCCGTGGTACGCC	0.602													16	51	---	---	---	---	PASS	T	140140245	T	T	140140245	2	4	163	1	0	0	0	0	0	0	0	1	5481	639	23	1		1	FAM166A	9	140140245	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	24938	140140245	1073186	709	58044										
WDR85	92715	broad.mit.edu	37	chr9	140449841	140449841	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agccaggtgccattcttcctCatgccctctgtgagtggctt	10	13	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr9:140449841C>T	uc004cnk.1	-	9	1367	c.1209G>A	c.(1207-1209)ATG>ATA	p.M403I	WDR85_uc004cnj.1_Missense_Mutation_p.M132I|WDR85_uc004cnl.1_Missense_Mutation_p.M227I|WDR85_uc004cnm.1_Missense_Mutation_p.M164I|WDR85_uc004cnn.1_Missense_Mutation_p.M132I|WDR85_uc004cni.2_RNA	NM_138778	NP_620133	Q9BTV6	WDR85_HUMAN	WD repeat domain 85	403					peptidyl-diphthamide biosynthetic process from peptidyl-histidine						0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.00029)|Epithelial(140;0.000509)		CATTCTTCCTCATGCCCTCTG	0.582													17	69	---	---	---	---	PASS	T	140449841	T	T	140449841	3	4	163	1	0	0	0	0	1	0	0	0	17330	826	29	2	153	2	WDR85	9	140449841	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	309596	140449841	763590	710	58045										
DIP2C	22982	broad.mit.edu	37	chr10	468776	468776	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgctcacctatgtgggtctGagccatgacgtccgccagcc	12	14	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:468776G>A	uc001ifp.2	-	5	682	c.592C>T	c.(592-594)CAG>TAG	p.Q198*	DIP2C_uc009xhk.1_Silent_p.L199L	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	198						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		ATGTGGGTCTGAGCCATGACG	0.607													22	119	---	---	---	---	PASS	A	468776	A	A	468776	4	1	163	1	0	0	0	0	0	1	0	0	4529	1299	45	2	4210	2	DIP2C	10	468776	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08		468776	135065971	711	58046										
AKR1C2	1646	broad.mit.edu	37	chr10	5040915	5040915	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccgatggacttggccaatcCtgcatctttacacttctcca	6	15	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:5040915C>A	uc010qan.1	-	5	651	c.472G>T	c.(472-474)GGA>TGA	p.G158*	AKR1E2_uc001ihl.1_Intron|AKR1C3_uc001ihr.2_Intron|AKR1C2_uc009xhy.2_Nonsense_Mutation_p.G132*|AKR1C2_uc001ihs.2_Nonsense_Mutation_p.G158*|AKR1C2_uc001iht.2_Nonsense_Mutation_p.G158*	NM_205845	NP_995317	P52895	AK1C2_HUMAN	aldo-keto reductase family 1, member C2	158					digestion|prostaglandin metabolic process|steroid metabolic process	cytoplasm	androsterone dehydrogenase (A-specific) activity|bile acid binding|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity				0					NADH(DB00157)|Ursodeoxycholic acid(DB01586)	TTGGCCAATCCTGCATCTTTA	0.473													51	107	---	---	---	---	PASS	A	5040915	A	A	5040915	4	1	163	1	0	0	0	0	0	1	0	0	470	690	24	3	519	3	AKR1C2	10	5040915	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4572139	5040915	130493832	712	58047										
PRKCQ	5588	broad.mit.edu	37	chr10	6533699	6533699	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagcagggtcccacagtgttCacagaaggtcgggctcttgt	13	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:6533699C>T	uc001ijj.1	-	8	811	c.736G>A	c.(736-738)GAA>AAA	p.E246K	PRKCQ_uc009xim.1_Missense_Mutation_p.E246K|PRKCQ_uc001iji.1_Missense_Mutation_p.E279K|PRKCQ_uc009xin.1_Missense_Mutation_p.E210K|PRKCQ_uc010qax.1_Missense_Mutation_p.E121K	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	246	Phorbol-ester/DAG-type 2.				axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						CCACAGTGTTCACAGAAGGTC	0.517													29	156	---	---	---	---	PASS	T	6533699	T	T	6533699	3	4	163	1	0	0	0	0	1	0	0	0	12515	835	29	2	1428	2	PRKCQ	10	6533699	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1492784	6533699	129001048	713	58048										
DHTKD1	55526	broad.mit.edu	37	chr10	12150012	12150012	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtcgaatagagcgtttcctgCaggtaagggtaacgtcttcc	12	9	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:12150012C>G	uc001ild.3	+	12	2251	c.2152C>G	c.(2152-2154)CAG>GAG	p.Q718E		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	718					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			GCGTTTCCTGCAGGTAAGGGT	0.527													15	97	---	---	---	---	PASS	G	12150012	G	G	12150012	3	3	163	1	0	0	0	0	1	0	0	0	4500	711	25	4	2198	4	DHTKD1	10	12150012	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5616313	12150012	123384735	714	58049										
CDC123	8872	broad.mit.edu	37	chr10	12279228	12279228	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agatgcatacaagactttttCaagaaacacatacagtacaa	5	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:12279228C>G	uc001ill.2	+	9	935	c.651C>G	c.(649-651)TTC>TTG	p.F217L	CDC123_uc001ilm.2_Missense_Mutation_p.F229L	NM_006023	NP_006014	O75794	CD123_HUMAN	cell division cycle 123	217					cell cycle arrest|cell division|positive regulation of cell proliferation|regulation of mitotic cell cycle	cytoplasm				central_nervous_system(1)	1						AAGACTTTTTCAAGAAACACA	0.289													8	141	---	---	---	---	PASS	G	12279228	G	G	12279228	3	3	163	1	0	0	0	0	1	0	0	0	3055	825	29	2	685	2	CDC123	10	12279228	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	129216	12279228	123255519	715	58050										
CUBN	8029	broad.mit.edu	37	chr10	16911750	16911750	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttggtgggcgcttggaaccGcagaatttgccaagaagggg	16	7	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:16911750G>A	uc001ioo.2	-	59	9391	c.9339C>T	c.(9337-9339)TGC>TGT	p.C3113C	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Silent_p.C469C	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3113	CUB 23.				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)	GCTTGGAACCGCAGAATTTGC	0.478													40	225	---	---	---	---	PASS	A	16911750	A	A	16911750	2	1	163	1	0	0	0	0	0	0	0	1	4051	1079	38	1		1	CUBN	10	16911750	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	4632522	16911750	118622997	716	58051										
PRTFDC1	56952	broad.mit.edu	37	chr10	25231336	25231336	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtgggtacgtgaataaattCaagtcataccctggccaatc	9	9	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:25231336C>G	uc001ise.1	-	2	107	c.78G>C	c.(76-78)TTG>TTC	p.L26F	PRTFDC1_uc010qdd.1_Missense_Mutation_p.L26F|PRTFDC1_uc001isf.1_RNA|PRTFDC1_uc009xkm.1_RNA	NM_020200	NP_064585	Q9NRG1	PRDC1_HUMAN	phosphoribosyl transferase domain containing 1	26					adenine salvage|central nervous system neuron development|cerebral cortex neuron differentiation|cytolysis|dendrite morphogenesis|GMP salvage|grooming behavior|hypoxanthine metabolic process|IMP salvage|lymphocyte proliferation|positive regulation of dopamine metabolic process|purine ribonucleoside salvage|response to amphetamine|striatum development	cytosol	hypoxanthine phosphoribosyltransferase activity|magnesium ion binding|nucleotide binding|protein homodimerization activity			ovary(1)	1						TGAATAAATTCAAGTCATACC	0.358													32	180	---	---	---	---	PASS	G	25231336	G	G	25231336	3	3	163	1	0	0	0	0	1	0	0	0	12637	825	29	2	631	2	PRTFDC1	10	25231336	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	8319586	25231336	110303411	717	58052										
ANKRD26	22852	broad.mit.edu	37	chr10	27306664	27306664	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgaagaatttggttctttgTatccagatgtagacattttg	9	4	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:27306664T>A	uc001ith.2	-	30	4442	c.4270A>T	c.(4270-4272)ACA>TCA	p.T1424S	ANKRD26_uc001itg.2_Missense_Mutation_p.T1111S|ANKRD26_uc009xku.1_Missense_Mutation_p.T1425S	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1424	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TGGTTCTTTGTATCCAGATGT	0.328													39	110	---	---	---	---	PASS	A	27306664	A	A	27306664	3	1	163	1	0	0	0	0	1	0	0	0	654	1638	57	5	879	5	ANKRD26	10	27306664	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	2075328	27306664	108228083	718	58053										
PARD3	56288	broad.mit.edu	37	chr10	34620181	34620181	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggaaaggaatatccccattCaaagtcacctcggcaactgc	8	12	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:34620181C>G	uc010qej.1	-	19	2706	c.2706G>C	c.(2704-2706)TTG>TTC	p.L902F	PARD3_uc010qek.1_Missense_Mutation_p.L899F|PARD3_uc010qel.1_Missense_Mutation_p.L902F|PARD3_uc010qem.1_Missense_Mutation_p.L886F|PARD3_uc010qen.1_Missense_Mutation_p.L856F|PARD3_uc010qeo.1_Missense_Mutation_p.L856F|PARD3_uc010qep.1_Missense_Mutation_p.L812F|PARD3_uc010qeq.1_Missense_Mutation_p.L827F|PARD3_uc001ixo.1_Missense_Mutation_p.L615F|PARD3_uc001ixp.1_Missense_Mutation_p.L733F|PARD3_uc001ixq.1_Missense_Mutation_p.L856F|PARD3_uc001ixr.1_Missense_Mutation_p.L899F|PARD3_uc001ixt.1_Missense_Mutation_p.L720F|PARD3_uc001ixu.1_Missense_Mutation_p.L844F|PARD3_uc001ixs.1_Missense_Mutation_p.L525F	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	902	Interacts with PRKCZ (By similarity).				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)				TATCCCCATTCAAAGTCACCT	0.532													21	105	---	---	---	---	PASS	G	34620181	G	G	34620181	3	3	163	1	0	0	0	0	1	0	0	0	11443	825	29	2	1427	2	PARD3	10	34620181	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	7313517	34620181	100914566	719	58054										
ZNF33A	7581	broad.mit.edu	37	chr10	38345149	38345149	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tatgaatgcaatgaatgtggGaaattcttcaggcacaaatc	9	6	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:38345149G>A	uc001izh.2	+	5	2272	c.2094G>A	c.(2092-2094)GGG>GGA	p.G698G	ZNF33A_uc001izg.2_Silent_p.G699G|ZNF33A_uc010qev.1_Silent_p.G705G|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	698	C2H2-type 14.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						ATGAATGTGGGAAATTCTTCA	0.383													24	174	---	---	---	---	PASS	A	38345149	A	A	38345149	2	1	163	1	0	0	0	0	0	0	0	1	17851	1161	41	2		2	ZNF33A	10	38345149	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	3724968	38345149	97189598	720	58055										
ZNF33B	7582	broad.mit.edu	37	chr10	43088960	43088960	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgtgtaagatgtgacttttGacaaaaggatttcccacact	8	8	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:43088960G>A	uc001jaf.1	-	5	1553	c.1438C>T	c.(1438-1440)CAA>TAA	p.Q480*	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Nonsense_Mutation_p.Q368*|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	480	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TGTGACTTTTGACAAAAGGAT	0.393													29	251	---	---	---	---	PASS	A	43088960	A	A	43088960	4	1	163	1	0	0	0	0	0	1	0	0	17852	1299	45	2	902	2	ZNF33B	10	43088960	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4743811	43088960	92445787	721	58056										
RET	5979	broad.mit.edu	37	chr10	43615124	43615124	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cacccggatgagcgggccctCaccatgggcgacctcatctc	11	17	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:43615124C>T	uc001jal.2	+	14	2728	c.2538C>T	c.(2536-2538)CTC>CTT	p.L846L	RET_uc001jak.1_Silent_p.L846L|RET_uc010qez.1_Silent_p.L592L	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	846	Protein kinase.|Cytoplasmic (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	AGCGGGCCCTCACCATGGGCG	0.647		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				19	71	---	---	---	---	PASS	T	43615124	T	T	43615124	2	4	163	1	0	0	0	0	0	0	0	1	13235	813	29	2		2	RET	10	43615124	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	526164	43615124	91919623	722	58057										
PPYR1	5540	broad.mit.edu	37	chr10	47086923	47086923	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatggtcttcatcgtcacttCctacagcattgagactgtcg	9	11	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:47086923C>T	uc001jee.2	+	3	559	c.140C>T	c.(139-141)TCC>TTC	p.S47F	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.S47F	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	47	Helical; Name=1; (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						ATCGTCACTTCCTACAGCATT	0.522													15	304	---	---	---	---	PASS	T	47086923	T	T	47086923	3	4	163	1	0	0	0	0	1	0	0	0	12416	855	30	2	142	2	PPYR1	10	47086923	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3471799	47086923	88447824	723	58058										
RBP3	5949	broad.mit.edu	37	chr10	48389546	48389546	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaggcgtcagcaaaactatcGaagcgcaggtagcccacatt	11	11	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:48389546G>A	uc001jez.2	-	1	1446	c.1332C>T	c.(1330-1332)TTC>TTT	p.F444F		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	444	4 X approximate tandem repeats.|2.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	CAAAACTATCGAAGCGCAGGT	0.617													14	63	---	---	---	---	PASS	A	48389546	A	A	48389546	2	1	163	1	0	0	0	0	0	0	0	1	13157	1049	37	2		2	RBP3	10	48389546	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1302623	48389546	87145201	724	58059										
CSTF2T	23283	broad.mit.edu	37	chr10	53458459	53458459	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caagttggggctgcattgctCctccaggagttaaggaacca	12	10	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:53458459C>G	uc001jjp.2	-	1	897	c.851G>C	c.(850-852)GGA>GCA	p.G284A	PRKG1_uc001jjm.2_Intron|PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron	NM_015235	NP_056050	Q9H0L4	CSTFT_HUMAN	cleavage stimulation factor, 3' pre-RNA, subunit	284	Gly-rich.				mRNA processing	nucleus	nucleotide binding|RNA binding			ovary(1)	1				COAD - Colon adenocarcinoma(2;0.00736)|Colorectal(2;0.00898)|all cancers(4;0.0188)|GBM - Glioblastoma multiforme(4;0.0778)|Epithelial(53;0.122)		CTGCATTGCTCCTCCAGGAGT	0.577													24	157	---	---	---	---	PASS	G	53458459	G	G	53458459	3	3	163	1	0	0	0	0	1	0	0	0	3985	855	30	2	1003	2	CSTF2T	10	53458459	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5068913	53458459	82076288	725	58060										
ADO	84890	broad.mit.edu	37	chr10	64565598	64565598	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgatgacttctggtgcgaggGagaaccctatccaggtccca	12	12	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:64565598G>C	uc001jmg.2	+	1	1083	c.779G>C	c.(778-780)GGA>GCA	p.G260A		NM_032804	NP_116193	Q96SZ5	AEDO_HUMAN	2-aminoethanethiol (cysteamine) dioxygenase	260							cysteamine dioxygenase activity|metal ion binding				0	Prostate(12;0.0297)|all_hematologic(501;0.228)					TGGTGCGAGGGAGAACCCTAT	0.652													2	2	---	---	---	---	PASS	C	64565598	C	C	64565598	3	2	163	1	0	0	0	0	1	0	0	0	325	1174	41	2	781	2	ADO	10	64565598	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	11107139	64565598	70969149	726	58061										
EGR2	1959	broad.mit.edu	37	chr10	64573644	64573644	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cacccgcagggtgtccagtgGgcagggaaagggcttacggt	17	10	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:64573644G>T	uc010qim.1	-	3	908	c.754C>A	c.(754-756)CCA>ACA	p.P252T	EGR2_uc010qin.1_Missense_Mutation_p.P202T|EGR2_uc001jmi.2_Missense_Mutation_p.P252T|EGR2_uc010qio.1_Missense_Mutation_p.P265T|EGR2_uc009xph.2_Missense_Mutation_p.P252T	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	252					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GTGTCCAGTGGGCAGGGAAAG	0.597													26	62	---	---	---	---	PASS	T	64573644	T	T	64573644	3	4	163	1	0	0	0	0	1	0	0	0	4972	1232	43	3	680	3	EGR2	10	64573644	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	8046	64573644	70961103	727	58062										
MYPN	84665	broad.mit.edu	37	chr10	69934114	69934114	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agcactcctcaaactattcaGaggacagtgagcaaagaaag	9	9	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:69934114G>C	uc001jnm.3	+	12	2450	c.2265G>C	c.(2263-2265)CAG>CAC	p.Q755H	MYPN_uc001jnn.3_Missense_Mutation_p.Q480H|MYPN_uc001jno.3_Missense_Mutation_p.Q755H|MYPN_uc009xpt.2_Missense_Mutation_p.Q755H|MYPN_uc010qit.1_Missense_Mutation_p.Q461H|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	755						nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						AAACTATTCAGAGGACAGTGA	0.542													40	178	---	---	---	---	PASS	C	69934114	C	C	69934114	3	2	163	1	0	0	0	0	1	0	0	0	10098	933	33	2	2303	2	MYPN	10	69934114	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5360470	69934114	65600633	728	58063										
MYPN	84665	broad.mit.edu	37	chr10	69961666	69961666	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaggccaccccgtgagactgGagtgccgcgtgataggcatg	15	11	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:69961666G>C	uc001jnm.3	+	19	3759	c.3574G>C	c.(3574-3576)GAG>CAG	p.E1192Q	MYPN_uc001jnn.3_Missense_Mutation_p.E917Q|MYPN_uc001jno.3_Missense_Mutation_p.E1192Q|MYPN_uc009xpt.2_Missense_Mutation_p.E1192Q|MYPN_uc010qit.1_Missense_Mutation_p.E898Q|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	1192	Interaction with ACTN.|Ig-like 5.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						CGTGAGACTGGAGTGCCGCGT	0.547													36	153	---	---	---	---	PASS	C	69961666	C	C	69961666	3	2	163	1	0	0	0	0	1	0	0	0	10098	1175	41	2	3640	2	MYPN	10	69961666	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	27552	69961666	65573081	729	58064										
CCAR1	55749	broad.mit.edu	37	chr10	70525822	70525822	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acagattagaggataataaaGaacattcatttgaggtaatg	9	3	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:70525822G>C	uc001joo.2	+	17	2403	c.2284G>C	c.(2284-2286)GAA>CAA	p.E762Q	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Missense_Mutation_p.E567Q|CCAR1_uc009xpx.1_Missense_Mutation_p.E736Q|CCAR1_uc001jon.1_Missense_Mutation_p.E708Q|CCAR1_uc010qiz.1_Missense_Mutation_p.E747Q|CCAR1_uc010qja.1_Missense_Mutation_p.E747Q|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	762	Glu-rich.				apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						GGATAATAAAGAACATTCATT	0.239													14	111	---	---	---	---	PASS	C	70525822	C	C	70525822	3	2	163	1	0	0	0	0	1	0	0	0	2730	943	33	2	2346	2	CCAR1	10	70525822	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	564156	70525822	65008925	730	58065										
SYNPO2L	79933	broad.mit.edu	37	chr10	75407379	75407379	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caggcttcagccccgaggctCagagcatcttcttcaggacc	10	15	5	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:75407379C>G	uc001jut.3	-	4	2183	c.2031G>C	c.(2029-2031)CTG>CTC	p.L677L	SYNPO2L_uc001jus.3_Silent_p.L453L	NM_001114133	NP_001107605	Q9H987	SYP2L_HUMAN	synaptopodin 2-like isoform a	677	Pro-rich.					cytoplasm|cytoskeleton	actin binding			ovary(1)	1	Prostate(51;0.0112)					CCCCGAGGCTCAGAGCATCTT	0.597													27	129	---	---	---	---	PASS	G	75407379	G	G	75407379	2	3	163	1	0	0	0	0	0	0	0	1	15455	813	29	2		2	SYNPO2L	10	75407379	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	4881557	75407379	60127368	731	58066										
SFTPA1	653509	broad.mit.edu	37	chr10	81373854	81373854	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcctgtactcccgactgacCatctgtgagttctgagaggc	11	12	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:81373854C>T	uc001kap.2	+	6	853	c.732C>T	c.(730-732)ACC>ACT	p.T244T	SFTPA1_uc001kaq.2_Silent_p.T244T|SFTPA1_uc009xry.2_Silent_p.T259T|SFTPA1_uc001kar.2_Silent_p.T244T|SFTPA1_uc010qlt.1_Silent_p.T185T|SFTPA1_uc009xrz.2_Silent_p.T174T|SFTPA1_uc009xsa.2_Silent_p.T244T|SFTPA1_uc009xsf.2_RNA	NM_005411	NP_005402	Q8IWL2	SFTA1_HUMAN	surfactant protein A1 isoform 1	244	C-type lectin.				cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	lipid transporter activity|sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			CCCGACTGACCATCTGTGAGT	0.582													30	95	---	---	---	---	PASS	T	81373854	T	T	81373854	2	4	163	1	0	0	0	0	0	0	0	1	14189	581	21	3		3	SFTPA1	10	81373854	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	5966475	81373854	54160893	732	58067										
GHITM	27069	broad.mit.edu	37	chr10	85904678	85904678	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aattcattccacctatatgtActtagcagggagtattggtt	8	7	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:85904678A>T	uc001kcs.1	+	5	593	c.389A>T	c.(388-390)TAC>TTC	p.Y130F	GHITM_uc010qma.1_Intron|GHITM_uc010qmb.1_Missense_Mutation_p.Y60F	NM_014394	NP_055209	Q9H3K2	GHITM_HUMAN	growth hormone inducible transmembrane protein	130	Helical; (Potential).				apoptosis	integral to membrane|mitochondrial inner membrane					0						ACCTATATGTACTTAGCAGGG	0.363													66	118	---	---	---	---	PASS	T	85904678	T	T	85904678	3	4	163	1	0	0	0	0	1	0	0	0	6370	391	14	5	403	5	GHITM	10	85904678	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	4530824	85904678	49630069	733	58068										
BTAF1	9044	broad.mit.edu	37	chr10	93741417	93741417	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caggtttggatggaactgttGagtaaggcttcagttcagta	13	5	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:93741417G>C	uc001khr.2	+	16	1871	c.1773G>C	c.(1771-1773)TTG>TTC	p.L591F	BTAF1_uc001khs.1_Missense_Mutation_p.L261F|BTAF1_uc001kht.1_Missense_Mutation_p.L29F	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	591	HEAT 4.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				TGGAACTGTTGAGTAAGGCTT	0.403													29	163	---	---	---	---	PASS	C	93741417	C	C	93741417	3	2	163	1	0	0	0	0	1	0	0	0	1536	1281	45	2	1835	2	BTAF1	10	93741417	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	7836739	93741417	41793330	734	58069										
BTAF1	9044	broad.mit.edu	37	chr10	93749178	93749178	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagtgcaaaactatgcagctCagtgcatagctaaactcctt	7	10	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:93749178C>T	uc001khr.2	+	20	2793	c.2695C>T	c.(2695-2697)CAG>TAG	p.Q899*	BTAF1_uc001khs.1_Nonsense_Mutation_p.Q569*|BTAF1_uc001kht.1_Nonsense_Mutation_p.Q337*	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	899	HEAT 6.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				CTATGCAGCTCAGTGCATAGC	0.398													15	86	---	---	---	---	PASS	T	93749178	T	T	93749178	4	4	163	1	0	0	0	0	0	1	0	0	1536	827	29	2	2773	2	BTAF1	10	93749178	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	7761	93749178	41785569	735	58070										
LGI1	9211	broad.mit.edu	37	chr10	95557191	95557191	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atggaggatgtgtacgcagtGaagcacttctcagtgaaagg	14	6	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:95557191G>T	uc001kjc.3	+	8	1641	c.1305G>T	c.(1303-1305)GTG>GTT	p.V435V	LGI1_uc010qnv.1_Silent_p.V387V|LGI1_uc001kjd.3_Intron|LGI1_uc009xui.2_RNA|LGI1_uc001kje.2_Intron	NM_005097	NP_005088	O95970	LGI1_HUMAN	leucine-rich, glioma inactivated 1 precursor	435	EAR 5.				axon guidance|cell proliferation|positive regulation of cell growth|positive regulation of synaptic transmission	cell junction|extracellular space|synapse	receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4		Colorectal(252;0.124)				TGTACGCAGTGAAGCACTTCT	0.433													19	98	---	---	---	---	PASS	T	95557191	T	T	95557191	2	4	163	1	0	0	0	0	0	0	0	1	8751	1277	45	2		2	LGI1	10	95557191	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1808013	95557191	39977556	736	58071										
TMEM20	159371	broad.mit.edu	37	chr10	95658372	95658372	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggacttggcttgttttacAcattattgtctgccttcctt	7	10	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:95658372A>C	uc001kjg.1	+	2	284	c.223A>C	c.(223-225)ACA>CCA	p.T75P	TMEM20_uc001kji.2_Intron|TMEM20_uc001kjf.1_Missense_Mutation_p.T74P|TMEM20_uc001kjh.2_Intron|TMEM20_uc010qnw.1_Missense_Mutation_p.T58P|TMEM20_uc001kjj.2_Intron	NM_001134658	NP_001128130	Q2M3R5	TMM20_HUMAN	transmembrane protein 20 isoform 1	75	Helical; (Potential).					integral to membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;3.46e-05)|Renal(717;0.018)|Ovarian(717;0.0228)|all_hematologic(284;0.189)		STAD - Stomach adenocarcinoma(243;0.00345)		CTTGTTTTACACATTATTGTC	0.398													24	127	---	---	---	---	PASS	C	95658372	C	C	95658372	3	2	163	1	0	0	0	0	1	0	0	0	16119	159	6	5	229	5	TMEM20	10	95658372	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	101181	95658372	39876375	737	58072										
ALDH18A1	5832	broad.mit.edu	37	chr10	97392719	97392719	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaagcattactttgtaccttCtacatctgaaagaacaatca	4	9	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:97392719C>G	uc001kkz.2	-	7	1047	c.805G>C	c.(805-807)GAA>CAA	p.E269Q	ALDH18A1_uc001kky.2_Missense_Mutation_p.E267Q|ALDH18A1_uc010qog.1_Missense_Mutation_p.E158Q|ALDH18A1_uc010qoh.1_Missense_Mutation_p.E57Q	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	269	Glutamate 5-kinase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)	TTTGTACCTTCTACATCTGAA	0.383													5	88	---	---	---	---	PASS	G	97392719	G	G	97392719	3	3	163	1	0	0	0	0	1	0	0	0	489	922	32	2	1630	2	ALDH18A1	10	97392719	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1734347	97392719	38142028	738	58073										
TLL2	7093	broad.mit.edu	37	chr10	98273363	98273363	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cggtggcgtccgggcgctccCcgagtcccccggcgccgcga	16	19	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:98273363C>G	uc001kml.1	-	1	306	c.80G>C	c.(79-81)GGG>GCG	p.G27A	TLL2_uc009xvf.1_Missense_Mutation_p.G27A	NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	27					cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		CGGGCGCTCCCCGAGTCCCCC	0.726													3	17	---	---	---	---	PASS	G	98273363	G	G	98273363	3	3	163	1	0	0	0	0	1	0	0	0	15943	623	22	4	3051	4	TLL2	10	98273363	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	880644	98273363	37261384	739	58074										
CPN1	1369	broad.mit.edu	37	chr10	101802191	101802191	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggcactgtgggtttcaggcaGggcctctctgcagctgcctc	14	13	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:101802191G>T	uc001kql.2	-	9	1630	c.1370C>A	c.(1369-1371)CCT>CAT	p.P457H		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	457					proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		GTTTCAGGCAGGGCCTCTCTG	0.512													50	76	---	---	---	---	PASS	T	101802191	T	T	101802191	3	4	163	1	0	0	0	0	1	0	0	0	3809	1000	35	3	10	3	CPN1	10	101802191	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3528828	101802191	33732556	740	58075										
PCGF6	84108	broad.mit.edu	37	chr10	105110820	105110820	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgtcaccaccgcgaccccctCcatggtcgggagagacacca	10	18	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:105110820C>G	uc001kwt.2	-	1	72	c.4G>C	c.(4-6)GAG>CAG	p.E2Q	PCGF6_uc001kwu.2_Missense_Mutation_p.E2Q|PCGF6_uc009xxk.2_RNA|PCGF6_uc009xxl.2_RNA|PCGF6_uc009xxm.2_RNA	NM_001011663	NP_001011663	Q9BYE7	PCGF6_HUMAN	polycomb group ring finger 6 isoform a	2					negative regulation of transcription, DNA-dependent	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			kidney(1)	1		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;2.57e-09)|all cancers(201;7.21e-08)|BRCA - Breast invasive adenocarcinoma(275;0.205)		GCGACCCCCTCCATGGTCGGG	0.612													3	22	---	---	---	---	PASS	G	105110820	G	G	105110820	3	3	163	1	0	0	0	0	1	0	0	0	11578	864	30	2	1088	2	PCGF6	10	105110820	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3308629	105110820	30423927	741	58076										
C10orf79	80217	broad.mit.edu	37	chr10	105912413	105912413	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctcctttcaaaaagtcttttCaaatgttcatcaaaggcctg	5	10	5	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:105912413C>G	uc001kxw.2	-	28	3728	c.3612G>C	c.(3610-3612)TTG>TTC	p.L1204F	C10orf79_uc009xxq.2_Missense_Mutation_p.L512F	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1204	Potential.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		AAAGTCTTTTCAAATGTTCAT	0.318													30	178	---	---	---	---	PASS	G	105912413	G	G	105912413	3	3	163	1	0	0	0	0	1	0	0	0	1618	825	29	2	1429	2	C10orf79	10	105912413	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	801593	105912413	29622334	742	58077										
ITPRIP	85450	broad.mit.edu	37	chr10	106075282	106075282	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgtcccggttgcagaggctCctcagggcttccagcaagtc	13	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:106075282C>G	uc001kye.2	-	2	601	c.528G>C	c.(526-528)AGG>AGC	p.R176S	ITPRIP_uc001kyf.2_Missense_Mutation_p.R176S|ITPRIP_uc001kyg.2_Missense_Mutation_p.R176S	NM_033397	NP_203755	Q8IWB1	IPRI_HUMAN	inositol 1,4,5-triphosphate receptor interacting	176						plasma membrane					0						TGCAGAGGCTCCTCAGGGCTT	0.627													9	88	---	---	---	---	PASS	G	106075282	G	G	106075282	3	3	163	1	0	0	0	0	1	0	0	0	7923	854	30	2	1119	2	ITPRIP	10	106075282	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	162869	106075282	29459465	743	58078										
SORCS1	114815	broad.mit.edu	37	chr10	108430994	108430994	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagataattgcacaagctcaCcaatcaaaatcagcctcagt	6	11	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:108430994C>G	uc001kym.2	-	16	2197	c.2189_splice	c.e16+1	p.C730_splice	SORCS1_uc001kyl.2_Splice_Site_p.C730_splice|SORCS1_uc009xxs.2_Splice_Site_p.C730_splice|SORCS1_uc001kyn.1_Splice_Site_p.C730_splice|SORCS1_uc001kyo.2_Splice_Site_p.C730_splice	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a							integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CACAAGCTCACCAATCAAAAT	0.408													32	68	---	---	---	---	PASS	G	108430994	G	G	108430994	5	3	163	1	0	0	0	0	0	0	1	0	14930	521	18	4	1594	4	SORCS1	10	108430994	Splice_Site	SNP	C	TCGA-66-2785-01A-01D-1522-08	2355712	108430994	27103753	744	58079										
TECTB	6975	broad.mit.edu	37	chr10	114059307	114059307	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgggggagtcctggtcgtgGagctctccctgcggagtaag	17	11	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:114059307G>C	uc001kzr.1	+	8	892	c.892G>C	c.(892-894)GAG>CAG	p.E298Q		NM_058222	NP_478129	Q96PL2	TECTB_HUMAN	tectorin beta precursor	298						anchored to membrane|plasma membrane|proteinaceous extracellular matrix					0		Colorectal(252;0.198)		Epithelial(162;0.0143)|all cancers(201;0.0242)		CCTGGTCGTGGAGCTCTCCCT	0.587													17	79	---	---	---	---	PASS	C	114059307	C	C	114059307	3	2	163	1	0	0	0	0	1	0	0	0	15745	1175	41	2	922	2	TECTB	10	114059307	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5628313	114059307	21475440	745	58080										
TDRD1	56165	broad.mit.edu	37	chr10	115980379	115980379	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaagccataacaagattccaGatgtgtgttgctgggataaa	11	6	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:115980379G>C	uc001lbg.1	+	19	2700	c.2547G>C	c.(2545-2547)CAG>CAC	p.Q849H	TDRD1_uc001lbf.2_Missense_Mutation_p.Q726H|TDRD1_uc001lbh.1_Missense_Mutation_p.Q840H|TDRD1_uc001lbi.1_Missense_Mutation_p.Q840H|TDRD1_uc010qsc.1_Missense_Mutation_p.Q453H|TDRD1_uc001lbj.2_Missense_Mutation_p.Q558H	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	849					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		CAAGATTCCAGATGTGTGTTG	0.388													24	99	---	---	---	---	PASS	C	115980379	C	C	115980379	3	2	163	1	0	0	0	0	1	0	0	0	15727	933	33	2	2617	2	TDRD1	10	115980379	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1921072	115980379	19554368	746	58081										
C10orf84	63877	broad.mit.edu	37	chr10	120095918	120095918	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taggccaggaggtagcagccCactccacatcttttcttcta	8	13	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:120095918C>A	uc001ldo.2	-	3	277	c.10G>T	c.(10-12)GGG>TGG	p.G4W	C10orf84_uc010qss.1_Missense_Mutation_p.G4W	NM_022063	NP_071346	Q9H8W3	F204A_HUMAN	hypothetical protein LOC63877	4											0		Colorectal(252;0.101)		all cancers(201;0.0244)		GGTAGCAGCCCACTCCACATC	0.388													13	64	---	---	---	---	PASS	A	120095918	A	A	120095918	3	1	163	1	0	0	0	0	1	0	0	0	1621	594	21	3	719	3	C10orf84	10	120095918	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4115539	120095918	15438829	747	58082										
C10orf137	26098	broad.mit.edu	37	chr10	127434418	127434418	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aacacgggaaggctcatgcgGatttgtgcgcaggcccactg	14	11	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:127434418G>A	uc001liq.1	+	19	3026	c.2733G>A	c.(2731-2733)CGG>CGA	p.R911R	C10orf137_uc001lin.2_Silent_p.R877R|C10orf137_uc001lio.1_Silent_p.R877R|C10orf137_uc001lip.1_Silent_p.R615R|C10orf137_uc001lis.1_Silent_p.R237R	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	911					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GGCTCATGCGGATTTGTGCGC	0.428													30	139	---	---	---	---	PASS	A	127434418	A	A	127434418	2	1	163	1	0	0	0	0	0	0	0	1	1594	1161	41	2		2	C10orf137	10	127434418	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	7338500	127434418	8100329	748	58083										
FANK1	92565	broad.mit.edu	37	chr10	127693455	127693455	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcttccatatgttgcagtcTaatgctggcgtgctatgcgg	11	9	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr10:127693455T>C	uc001ljh.3	+	7	646	c.542T>C	c.(541-543)CTA>CCA	p.L181P	FANK1_uc009yan.2_Missense_Mutation_p.L207P|FANK1_uc001lji.2_Missense_Mutation_p.L175P	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains	181	ANK 3.					cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)				TGTTGCAGTCTAATGCTGGCG	0.488													50	79	---	---	---	---	PASS	C	127693455	C	C	127693455	3	2	163	1	0	0	0	0	1	0	0	0	5672	1522	53	5	568	5	FANK1	10	127693455	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	259037	127693455	7841292	749	58084										
RASSF7	8045	broad.mit.edu	37	chr11	562244	562244	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cctagctgggaggccctcctCagacagctgtccacccccgg	11	18	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:562244C>G	uc001lqc.2	+	3	325	c.290C>G	c.(289-291)TCA>TGA	p.S97*	C11orf35_uc001lpx.2_5'Flank|RASSF7_uc001lqa.2_Nonsense_Mutation_p.S97*|RASSF7_uc001lqb.2_Nonsense_Mutation_p.S97*|RASSF7_uc001lqd.2_Nonsense_Mutation_p.S97*	NM_003475	NP_003466	Q02833	RASF7_HUMAN	Ras association (RalGDS/AF-6) domain family	97					regulation of transcription, DNA-dependent|signal transduction	nucleus	DNA binding|protein binding			skin(1)	1		all_cancers(49;2.16e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;7.18e-28)|Epithelial(43;6.93e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.97e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGGCCCTCCTCAGACAGCTGT	0.662													11	52	---	---	---	---	PASS	G	562244	G	G	562244	4	3	163	1	0	0	0	0	0	1	0	0	13091	838	29	2	296	2	RASSF7	11	562244	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08		562244	134444272	750	58085										
PHRF1	57661	broad.mit.edu	37	chr11	601622	601622	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaaaaccccgtccggaccatCcgcaaaaagtaagagctcag	9	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:601622C>G	uc001lqe.2	+	10	1204	c.1073C>G	c.(1072-1074)TCC>TGC	p.S358C	PHRF1_uc010qwc.1_Missense_Mutation_p.S358C|PHRF1_uc010qwd.1_Missense_Mutation_p.S357C|PHRF1_uc010qwe.1_Missense_Mutation_p.S354C|PHRF1_uc009ybz.1_Missense_Mutation_p.S149C	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	358	Arg-rich.						RNA polymerase binding|zinc ion binding				0						TCCGGACCATCCGCAAAAAGT	0.522													12	34	---	---	---	---	PASS	G	601622	G	G	601622	3	3	163	1	0	0	0	0	1	0	0	0	11861	855	30	2	1107	2	PHRF1	11	601622	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	39378	601622	134404894	751	58086										
DRD4	1815	broad.mit.edu	37	chr11	639799	639799	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcgcggccgcgaccccgccGtgtgccgcctggaggaccgc	16	18	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:639799G>A	uc001lqp.1	+	3	550	c.550G>A	c.(550-552)GTG>ATG	p.V184M		NM_000797	NP_000788	P21917	DRD4_HUMAN	dopamine receptor D4	184	Extracellular (Potential).				activation of MAPK activity|adult locomotory behavior|arachidonic acid secretion|behavioral fear response|behavioral response to cocaine|behavioral response to ethanol|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cAMP biosynthetic process|negative regulation of protein secretion|positive regulation of sodium:hydrogen antiporter activity|regulation of dopamine metabolic process|regulation of inhibitory postsynaptic membrane potential|response to amphetamine|response to histamine|social behavior	integral to plasma membrane	dopamine D4 receptor activity|drug binding|potassium channel regulator activity|SH3 domain binding				0		all_cancers(49;1.69e-08)|all_epithelial(84;1.65e-05)|Breast(177;0.000231)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.36e-28)|Epithelial(43;2.59e-27)|OV - Ovarian serous cystadenocarcinoma(40;3.53e-21)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Apomorphine(DB00714)|Clozapine(DB00363)|Olanzapine(DB00334)|Pramipexole(DB00413)|Promazine(DB00420)|Propiomazine(DB00777)|Ropinirole(DB00268)|Thiethylperazine(DB00372)|Ziprasidone(DB00246)	CGACCCCGCCGTGTGCCGCCT	0.711													6	20	---	---	---	---	PASS	A	639799	A	A	639799	3	1	163	1	0	0	0	0	1	0	0	0	4759	1145	40	1	560	1	DRD4	11	639799	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	38177	639799	134366717	752	58087										
MUC5B	727897	broad.mit.edu	37	chr11	1265952	1265952	+	Frame_Shift_Del	DEL	G	-	-													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgctgactaccacaaccacGggcttcacagccaccccctc							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:1265952delG	uc009ycr.1	+	48	9882	c.9756delG	c.(9754-9756)ACGfs	p.T3252fs	MUC5B_uc001ltb.2_Frame_Shift_Del_p.T2617fs	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2614	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCACAACCACGGGCTTCACAG	0.647													59	39	---	---	---	---		-	1265952	-	-	1265952	7	5	163	1	0	1	0	1	0	0	0	0	9979	1103	39	0	7973	0	MUC5B	11	1265952	Frame_Shift_Del	DEL	G	TCGA-66-2785-01A-01D-1522-08	626153	1265952	133740564	753	58088										
OR51A4	401666	broad.mit.edu	37	chr11	4967535	4967535	+	Frame_Shift_Del	DEL	C	-	-													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaggggagagacatgccgggCaaagcggtggacaacggcca							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:4967535delC	uc010qys.1	-	1	796	c.796delG	c.(796-798)GCCfs	p.A266fs		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	266	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACATGCCGGGCAAAGCGGTGG	0.453													91	48	---	---	---	---		-	4967535	-	-	4967535	7	5	163	1	0	1	0	1	0	0	0	0	11087	710	25	0	147	0	OR51A4	11	4967535	Frame_Shift_Del	DEL	C	TCGA-66-2785-01A-01D-1522-08	3701583	4967535	130038981	754	58089										
OR51A4	401666	broad.mit.edu	37	chr11	4967872	4967872	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggaagaaccaggagcatgctCttaaaggagaatactatccc	10	9	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:4967872C>G	uc010qys.1	-	1	459	c.459G>C	c.(457-459)AAG>AAC	p.K153N		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	153	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGAGCATGCTCTTAAAGGAGA	0.423													127	182	---	---	---	---	PASS	G	4967872	G	G	4967872	3	3	163	1	0	0	0	0	1	0	0	0	11087	912	32	2	484	2	OR51A4	11	4967872	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	337	4967872	130038644	755	58090										
OR51B2	79345	broad.mit.edu	37	chr11	5344952	5344952	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attacagggtaaagtctattGaaagttatgtcagcacaagc	9	6	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:5344952G>C	uc001mao.1	-	1	631	c.576C>G	c.(574-576)TTC>TTG	p.F192L	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	192	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAAGTCTATTGAAAGTTATGT	0.363													7	70	---	---	---	---	PASS	C	5344952	C	C	5344952	3	2	163	1	0	0	0	0	1	0	0	0	11089	1281	45	2	366	2	OR51B2	11	5344952	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	377080	5344952	129661564	756	58091										
OR52N4	390072	broad.mit.edu	37	chr11	5776200	5776200	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tactgaccttgttatgtgctCtagtacaatccctaaagccc	6	12	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:5776200C>G	uc001mbu.2	+	1	278	c.230C>G	c.(229-231)TCT>TGT	p.S77C	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005175	NP_001005175	Q8NGI2	O52N4_HUMAN	olfactory receptor, family 52, subfamily N,	77	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;1.87e-10)|LUSC - Lung squamous cell carcinoma(625;0.114)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.197)		GTTATGTGCTCTAGTACAATC	0.448													7	133	---	---	---	---	PASS	G	5776200	G	G	5776200	3	3	163	1	0	0	0	0	1	0	0	0	11129	913	32	2	232	2	OR52N4	11	5776200	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	431248	5776200	129230316	757	58092										
SMPD1	6609	broad.mit.edu	37	chr11	6413202	6413202	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gggccctgaccaccgtcacaGcacttgtgaggaagttcctg	12	13	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:6413202G>A	uc001mcw.2	+	2	1081	c.907G>A	c.(907-909)GCA>ACA	p.A303T	SMPD1_uc001mcv.1_Intron|SMPD1_uc009yex.2_RNA|SMPD1_uc001mcx.2_Missense_Mutation_p.A303T|SMPD1_uc009yew.2_Missense_Mutation_p.A302T	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	301					cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)	CACCGTCACAGCACTTGTGAG	0.577													52	82	---	---	---	---	PASS	A	6413202	A	A	6413202	3	1	163	1	0	0	0	0	1	0	0	0	14804	971	34	3	913	3	SMPD1	11	6413202	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	637002	6413202	128593314	758	58093										
OR2AG1	144125	broad.mit.edu	37	chr11	6807104	6807104	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catcatctctgttttctacaCaattgtcactccagccctga	4	14	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:6807104C>G	uc001mer.1	+	1	836	c.836C>G	c.(835-837)ACA>AGA	p.T279R		NM_001004489	NP_001004489	Q9H205	O2AG1_HUMAN	olfactory receptor, family 2, subfamily AG,	279	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.19e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GTTTTCTACACAATTGTCACT	0.498													3	134	---	---	---	---	PASS	G	6807104	G	G	6807104	3	3	163	1	0	0	0	0	1	0	0	0	10984	478	17	4	838	4	OR2AG1	11	6807104	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	393902	6807104	128199412	759	58094										
C11orf17	56672	broad.mit.edu	37	chr11	8934078	8934078	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actatacttcaagtcagtgtGgggtaagttggtgtgaacca	12	6	2	1	rs146611149		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:8934078G>C	uc001mgx.2	+	3	377	c.301G>C	c.(301-303)GGG>CGG	p.G101R	ST5_uc001mgv.2_5'Flank|C11orf17_uc001mgz.2_Missense_Mutation_p.G101R|C11orf17_uc001mgy.2_Intron|C11orf17_uc010rbr.1_Missense_Mutation_p.G101R|C11orf17_uc010rbs.1_Intron|C11orf17_uc001mha.2_Missense_Mutation_p.G101R	NM_020642	NP_065693	Q9NQ31	AKIP1_HUMAN	chromosome 11 open reading frame 17	101						nucleus	protein binding				0				Epithelial(150;5.08e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0243)		AAGTCAGTGTGGGGTAAGTTG	0.448													12	62	---	---	---	---	PASS	C	8934078	C	C	8934078	3	2	163	1	0	0	0	0	1	0	0	0	1632	1348	47	4	307	4	C11orf17	11	8934078	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2126974	8934078	126072438	760	58095										
SPON1	10418	broad.mit.edu	37	chr11	14277308	14277308	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catcactcaagtagccagagTtgtcatcgagagaatcgcac	9	11	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:14277308T>G	uc001mle.2	+	10	1746	c.1208T>G	c.(1207-1209)GTT>GGT	p.V403G		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	403					cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		GTAGCCAGAGTTGTCATCGAG	0.557													15	109	---	---	---	---	PASS	G	14277308	G	G	14277308	3	3	163	1	0	0	0	0	1	0	0	0	15081	1725	60	5	1241	5	SPON1	11	14277308	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	5343230	14277308	120729208	761	58096										
PDE3B	5140	broad.mit.edu	37	chr11	14889102	14889102	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcagtccattcatggatcgTtcttctcctcaactagcaaa	5	12	5	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:14889102T>C	uc001mln.2	+	15	3290	c.2937T>C	c.(2935-2937)CGT>CGC	p.R979R	PDE3B_uc010rcr.1_Silent_p.R928R	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	979	Catalytic (By similarity).				cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						TCATGGATCGTTCTTCTCCTC	0.423													26	123	---	---	---	---	PASS	C	14889102	C	C	14889102	2	2	163	1	0	0	0	0	0	0	0	1	11638	1712	60	5		5	PDE3B	11	14889102	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	611794	14889102	120117414	762	58097										
INSC	387755	broad.mit.edu	37	chr11	15247260	15247260	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctgcggcccttgccaacatCacgttctttgacacaatggc	8	14	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:15247260C>T	uc001mly.2	+	9	1243	c.1197C>T	c.(1195-1197)ATC>ATT	p.I399I	INSC_uc001mlz.2_Silent_p.I352I|INSC_uc001mma.2_Silent_p.I352I|INSC_uc010rcs.1_Silent_p.I387I|INSC_uc001mmb.2_Silent_p.I352I|INSC_uc001mmc.2_Silent_p.I310I	NM_001031853	NP_001027024	Q1MX18	INSC_HUMAN	inscuteable isoform a	399					cell differentiation|nervous system development	cytoplasm	binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)	5						TTGCCAACATCACGTTCTTTG	0.507													12	56	---	---	---	---	PASS	T	15247260	T	T	15247260	2	4	163	1	0	0	0	0	0	0	0	1	7764	816	29	2		2	INSC	11	15247260	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	358158	15247260	119759256	763	58098										
SOX6	55553	broad.mit.edu	37	chr11	16068081	16068081	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttttcattcctgcagctgttCagccccatattatttatgga	6	10	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:16068081C>G	uc001mme.2	-	12	1674	c.1641G>C	c.(1639-1641)CTG>CTC	p.L547L	SOX6_uc001mmd.2_Silent_p.L510L|SOX6_uc001mmf.2_Silent_p.L507L|SOX6_uc001mmg.2_Silent_p.L534L	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	534					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						TGCAGCTGTTCAGCCCCATAT	0.512													33	172	---	---	---	---	PASS	G	16068081	G	G	16068081	2	3	163	1	0	0	0	0	0	0	0	1	14955	813	29	2		2	SOX6	11	16068081	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	820821	16068081	118938435	764	58099										
PTPN5	84867	broad.mit.edu	37	chr11	18755112	18755112	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggaatacgtacccggatgtaGttggcattgatgtaggaact	13	6	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:18755112G>T	uc001mpd.2	-	10	1502	c.1071C>A	c.(1069-1071)AAC>AAA	p.N357K	PTPN5_uc001mpb.2_Missense_Mutation_p.N325K|PTPN5_uc001mpc.2_Missense_Mutation_p.N357K|PTPN5_uc001mpe.2_Missense_Mutation_p.N325K|PTPN5_uc010rdj.1_Missense_Mutation_p.N301K|PTPN5_uc001mpf.2_Missense_Mutation_p.N333K|PTPN5_uc010rdk.1_Missense_Mutation_p.N302K	NM_006906	NP_008837	P54829	PTN5_HUMAN	protein-tyrosine-phosphatase non-receptor 5	357	Tyrosine-protein phosphatase.					integral to membrane	phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(2)	2						CCCGGATGTAGTTGGCATTGA	0.582													41	110	---	---	---	---	PASS	T	18755112	T	T	18755112	3	4	163	1	0	0	0	0	1	0	0	0	12791	1020	36	3	650	3	PTPN5	11	18755112	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2687031	18755112	116251404	765	58100										
PRMT3	10196	broad.mit.edu	37	chr11	20483558	20483558	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttgcactatcagccttgtaGcagtgagtgatgtgaataaa	10	6	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:20483558G>A	uc001mqb.2	+	12	1322	c.1105G>A	c.(1105-1107)GCA>ACA	p.A369T	PRMT3_uc001mqc.2_Missense_Mutation_p.A292T|PRMT3_uc010rdn.1_Missense_Mutation_p.A307T	NM_005788	NP_005779	O60678	ANM3_HUMAN	protein arginine methyltransferase 3 isoform 1	369							zinc ion binding				0						CAGCCTTGTAGCAGTGAGTGA	0.368													85	230	---	---	---	---	PASS	A	20483558	A	A	20483558	3	1	163	1	0	0	0	0	1	0	0	0	12538	971	34	3	1151	3	PRMT3	11	20483558	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1728446	20483558	114522958	766	58101										
PRMT3	10196	broad.mit.edu	37	chr11	20515483	20515483	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggcaattgctggctactttGatatatattttgagaagaat	9	4	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:20515483G>T	uc001mqb.2	+	14	1583	c.1366G>T	c.(1366-1368)GAT>TAT	p.D456Y	PRMT3_uc001mqc.2_Missense_Mutation_p.D379Y|PRMT3_uc010rdn.1_Missense_Mutation_p.D394Y	NM_005788	NP_005779	O60678	ANM3_HUMAN	protein arginine methyltransferase 3 isoform 1	456							zinc ion binding				0						TGGCTACTTTGATATATATTT	0.269													16	140	---	---	---	---	PASS	T	20515483	T	T	20515483	3	4	163	1	0	0	0	0	1	0	0	0	12538	1290	45	2	1420	2	PRMT3	11	20515483	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	31925	20515483	114491033	767	58102										
KCNA4	3739	broad.mit.edu	37	chr11	30033664	30033664	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagagttttcatttgggtctCaaagcgtaggcctgacacat	10	9	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:30033664C>T	uc001msk.2	-	2	1714	c.562G>A	c.(562-564)GAG>AAG	p.E188K		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	188						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						ATTTGGGTCTCAAAGCGTAGG	0.498													20	100	---	---	---	---	PASS	T	30033664	T	T	30033664	3	4	163	1	0	0	0	0	1	0	0	0	8005	835	29	2	1403	2	KCNA4	11	30033664	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	9518181	30033664	104972852	768	58103										
FSHB	2488	broad.mit.edu	37	chr11	30255159	30255159	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccaggcccaaaatccagaaaAcatgtaccttcaaggaactg	7	12	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:30255159A>T	uc001msl.2	+	3	271	c.202A>T	c.(202-204)ACA>TCA	p.T68S	FSHB_uc001msm.2_Missense_Mutation_p.T68S|FSHB_uc001msn.2_Missense_Mutation_p.T68S	NM_000510	NP_000501	P01225	FSHB_HUMAN	follicle stimulating hormone, beta polypeptide	68					cellular nitrogen compound metabolic process|female gamete generation|female pregnancy|ovarian follicle development|peptide hormone processing|progesterone biosynthetic process|spermatogenesis|transforming growth factor beta receptor signaling pathway	cytoplasm|extracellular region|soluble fraction	follicle-stimulating hormone activity|protein heterodimerization activity			ovary(3)	3					Follitropin beta(DB00066)|Thyrotropin Alfa(DB00024)|Urofollitropin(DB00094)	AATCCAGAAAACATGTACCTT	0.463													7	106	---	---	---	---	PASS	T	30255159	T	T	30255159	3	4	163	1	0	0	0	0	1	0	0	0	6072	43	2	5	208	5	FSHB	11	30255159	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	221495	30255159	104751357	769	58104										
LRRC4C	57689	broad.mit.edu	37	chr11	40136590	40136590	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtacatgcctgtatcttgcAcagttacatttgtgaaattt	7	7	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:40136590A>C	uc001mxa.1	-	2	3217	c.1253T>G	c.(1252-1254)GTG>GGG	p.V418G	LRRC4C_uc001mxc.1_Missense_Mutation_p.V414G|LRRC4C_uc001mxd.1_Missense_Mutation_p.V414G|LRRC4C_uc001mxb.1_Missense_Mutation_p.V414G	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	418	Ig-like C2-type.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				TGTATCTTGCACAGTTACATT	0.443													51	370	---	---	---	---	PASS	C	40136590	C	C	40136590	3	2	163	1	0	0	0	0	1	0	0	0	9008	159	6	5	673	5	LRRC4C	11	40136590	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	9881431	40136590	94869926	770	58105										
TTC17	55761	broad.mit.edu	37	chr11	43436245	43436245	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aattaaccaccaaatgtccaGagtgtgaaaacagcctgaag	8	9	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:43436245G>C	uc001mxi.2	+	16	2184	c.2170G>C	c.(2170-2172)GAG>CAG	p.E724Q	TTC17_uc001mxh.2_Missense_Mutation_p.E724Q|TTC17_uc010rfj.1_Missense_Mutation_p.E667Q|TTC17_uc001mxj.2_Missense_Mutation_p.E494Q	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	724							binding			ovary(5)	5						CAAATGTCCAGAGTGTGAAAA	0.438													45	251	---	---	---	---	PASS	C	43436245	C	C	43436245	3	2	163	1	0	0	0	0	1	0	0	0	16681	943	33	2	2232	2	TTC17	11	43436245	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3299655	43436245	91570271	771	58106										
KIAA0652	9776	broad.mit.edu	37	chr11	46690091	46690091	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taccctttgccatgtttgctCccaagaatttggagctggag	10	10	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:46690091C>T	uc009yld.2	+	15	1879	c.1195C>T	c.(1195-1197)CCC>TCC	p.P399S	KIAA0652_uc001nda.2_Missense_Mutation_p.P432S|KIAA0652_uc001ndb.2_Missense_Mutation_p.P399S|KIAA0652_uc001ncz.2_Missense_Mutation_p.P362S|KIAA0652_uc001ndc.2_Missense_Mutation_p.P362S|KIAA0652_uc010rgv.1_Missense_Mutation_p.P283S	NM_001142673	NP_001136145	O75143	ATG13_HUMAN	autophagy-related protein 13 isoform 1	399					autophagic vacuole assembly	cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding				0				GBM - Glioblastoma multiforme(35;0.226)		CATGTTTGCTCCCAAGAATTT	0.512													41	145	---	---	---	---	PASS	T	46690091	T	T	46690091	3	4	163	1	0	0	0	0	1	0	0	0	8188	855	30	2	1245	2	KIAA0652	11	46690091	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3253846	46690091	88316425	772	58107										
ARFGAP2	84364	broad.mit.edu	37	chr11	47188357	47188357	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acatgtcagatgagatggctTtggctcctgcgaatttctga	11	8	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:47188357T>C	uc001ndt.2	-	13	1301	c.1286A>G	c.(1285-1287)AAA>AGA	p.K429R	ARFGAP2_uc010rha.1_Missense_Mutation_p.K160R|ARFGAP2_uc010rhb.1_Missense_Mutation_p.K401R|ARFGAP2_uc001ndu.2_Missense_Mutation_p.K293R|ARFGAP2_uc010rhc.1_Missense_Mutation_p.K160R	NM_032389	NP_115765	Q8N6H7	ARFG2_HUMAN	ADP-ribosylation factor GTPase activating	429	Required for interaction with coatomer.				protein transport|regulation of ARF GTPase activity|vesicle-mediated transport	Golgi membrane|nucleolus|plasma membrane	ARF GTPase activator activity|zinc ion binding			ovary(1)	1						TGAGATGGCTTTGGCTCCTGC	0.582													62	368	---	---	---	---	PASS	C	47188357	C	C	47188357	3	2	163	1	0	0	0	0	1	0	0	0	850	1841	64	5	295	5	ARFGAP2	11	47188357	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	498266	47188357	87818159	773	58108										
SPI1	6688	broad.mit.edu	37	chr11	47397209	47397209	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggctctccccatcactgctGagataggggtaatactcgtg	11	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:47397209G>A	uc001nfc.1	-	2	340	c.117C>T	c.(115-117)CTC>CTT	p.L39L	SPI1_uc001nfb.1_Silent_p.L40L|SLC39A13_uc001nfd.2_Intron|SPI1_uc009ylp.1_Silent_p.L33L	NM_003120	NP_003111	P17947	SPI1_HUMAN	hematopoietic transcription factor PU.1 isoform	39					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of erythrocyte differentiation	nucleus	protein binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)	2				Lung(87;0.0967)		CATCACTGCTGAGATAGGGGT	0.597													62	134	---	---	---	---	PASS	A	47397209	A	A	47397209	2	1	163	1	0	0	0	0	0	0	0	1	15048	1277	45	2		2	SPI1	11	47397209	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	208852	47397209	87609307	774	58109										
FNBP4	23360	broad.mit.edu	37	chr11	47776136	47776136	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgactggtttccatttgtctCtttggattgtgctagttttt	9	6	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:47776136C>G	uc009ylv.2	-	3	547	c.394G>C	c.(394-396)GAG>CAG	p.E132Q	FNBP4_uc001ngj.2_Missense_Mutation_p.E39Q|FNBP4_uc001ngl.2_Intron	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	132										ovary(1)	1						CCATTTGTCTCTTTGGATTGT	0.408													26	184	---	---	---	---	PASS	G	47776136	G	G	47776136	3	3	163	1	0	0	0	0	1	0	0	0	5967	922	32	2	2719	2	FNBP4	11	47776136	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	378927	47776136	87230380	775	58110										
OR4X2	119764	broad.mit.edu	37	chr11	48266731	48266731	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctttgtgatatttctgttcTtgtacacagcaattgtgctg	9	7	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:48266731T>C	uc001ngs.1	+	1	76	c.76T>C	c.(76-78)TTG>CTG	p.L26L		NM_001004727	NP_001004727	Q8NGF9	OR4X2_HUMAN	olfactory receptor, family 4, subfamily X,	26	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATTTCTGTTCTTGTACACAGC	0.458													46	318	---	---	---	---	PASS	C	48266731	C	C	48266731	2	2	163	1	0	0	0	0	0	0	0	1	11085	1606	56	5		5	OR4X2	11	48266731	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	490595	48266731	86739785	776	58111										
OR4P4	81300	broad.mit.edu	37	chr11	55406327	55406327	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcttctcaccatctttgtacCattttgtggcccaaatgaga	6	11	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:55406327C>G	uc010rij.1	+	1	494	c.494C>G	c.(493-495)CCA>CGA	p.P165R		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						ATCTTTGTACCATTTTGTGGC	0.373													33	230	---	---	---	---	PASS	G	55406327	G	G	55406327	3	3	163	1	0	0	0	0	1	0	0	0	11080	594	21	4	496	4	OR4P4	11	55406327	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	7139596	55406327	79600189	777	58112										
OR4S2	219431	broad.mit.edu	37	chr11	55418433	55418433	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttctggggtctttctcagagCccagagattgagaaagtttg	12	7	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:55418433C>A	uc001nhs.1	+	1	54	c.54C>A	c.(52-54)AGC>AGA	p.S18R		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				TTTCTCAGAGCCCAGAGATTG	0.373													76	202	---	---	---	---	PASS	A	55418433	A	A	55418433	3	1	163	1	0	0	0	0	1	0	0	0	11083	738	26	3	56	3	OR4S2	11	55418433	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	12106	55418433	79588083	778	58113										
OR8H2	390151	broad.mit.edu	37	chr11	55873189	55873189	+	Missense_Mutation	SNP	C	T	T													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctatgtgttcattctctttaCcatcctgaaaattaattcca					rs138370909		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:55873189C>T	uc010riy.1	+	1	671	c.671C>T	c.(670-672)ACC>ATC	p.T224I		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	224	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					ATTCTCTTTACCATCCTGAAA	0.388										HNSCC(53;0.14)			71	209	---	---	---	---	PASS	T	55873189	T	T	55873189	3	4	163	1	0	0	0	0	1	0	0	0	11238	507	18	3	673	3	OR8H2	11	55873189	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	454756	55873189	79133327	779	58114	1036	2								
OR8H2	390151	broad.mit.edu	37	chr11	55873190	55873190	+	Silent	SNP	C	G	G													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tatgtgttcattctctttacCatcctgaaaattaattccac							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:55873190C>G	uc010riy.1	+	1	672	c.672C>G	c.(670-672)ACC>ACG	p.T224T		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	224	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					TTCTCTTTACCATCCTGAAAA	0.383										HNSCC(53;0.14)			69	209	---	---	---	---	PASS	G	55873190	G	G	55873190	2	3	163	1	0	0	0	0	0	0	0	1	11238	581	21	4		4	OR8H2	11	55873190	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1	55873190	79133326	780	58115	1036	2								
OR5T3	390154	broad.mit.edu	37	chr11	56020666	56020666	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acaaagaagtaaaaaaggcaGtgaagaaaatgttgaaattg	10	2	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:56020666G>T	uc010rjd.1	+	1	991	c.991G>T	c.(991-993)GTG>TTG	p.V331L		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	331	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					AAAAAAGGCAGTGAAGAAAAT	0.299													20	66	---	---	---	---	PASS	T	56020666	T	T	56020666	3	4	163	1	0	0	0	0	1	0	0	0	11183	1029	36	3	993	3	OR5T3	11	56020666	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	147476	56020666	78985850	781	58116										
OR8H1	219469	broad.mit.edu	37	chr11	56057802	56057802	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttccataaaagatggtgactCccaagagatgagaggcacaa	10	8	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:56057802C>G	uc010rje.1	-	1	737	c.737G>C	c.(736-738)GGA>GCA	p.G246A		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					GATGGTGACTCCCAAGAGATG	0.358													32	176	---	---	---	---	PASS	G	56057802	G	G	56057802	3	3	163	1	0	0	0	0	1	0	0	0	11237	855	30	2	200	2	OR8H1	11	56057802	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	37136	56057802	78948714	782	58117										
SMTNL1	219537	broad.mit.edu	37	chr11	57310459	57310459	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcaggagatgactggcaggaAagaagagaccaaatctgaac	12	7	2	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:57310459A>T	uc009ymh.1	+	2	398	c.398A>T	c.(397-399)AAA>ATA	p.K133I		NM_001105565	NP_001099035	E9PPJ3	E9PPJ3_HUMAN	smoothelin-like 1	115										ovary(1)	1						ACTGGCAGGAAAGAAGAGACC	0.517													4	15	---	---	---	---	PASS	T	57310459	T	T	57310459	3	4	163	1	0	0	0	0	1	0	0	0	14815	14	1	5	404	5	SMTNL1	11	57310459	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	1252657	57310459	77696057	783	58118										
CLP1	10978	broad.mit.edu	37	chr11	57428587	57428587	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tatccccatgccttcaatgtCaaattttcagatgtgaaaat	5	9	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:57428587C>A	uc001nkw.2	+	3	1096	c.957C>A	c.(955-957)GTC>GTA	p.V319V	CLP1_uc010rjw.1_Silent_p.V255V|CLP1_uc009yml.2_Silent_p.V319V	NM_006831	NP_006822	Q92989	CLP1_HUMAN	ATP/GTP-binding protein isoform 1	319					mRNA 3'-end processing|nuclear mRNA splicing, via spliceosome|siRNA loading onto RISC involved in RNA interference|targeting of mRNA for destruction involved in RNA interference|termination of RNA polymerase II transcription|tRNA splicing, via endonucleolytic cleavage and ligation	nucleoplasm|tRNA-intron endonuclease complex	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity			ovary(1)	1						CCTTCAATGTCAAATTTTCAG	0.478													57	360	---	---	---	---	PASS	A	57428587	A	A	57428587	2	1	163	1	0	0	0	0	0	0	0	1	3550	813	29	2		2	CLP1	11	57428587	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	118128	57428587	77577929	784	58119										
OR6Q1	219952	broad.mit.edu	37	chr11	57799089	57799089	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tatggtcattgctgtgtcctAtggcaacatcgtctggacac	10	10	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:57799089A>T	uc010rjz.1	+	1	665	c.665A>T	c.(664-666)TAT>TTT	p.Y222F	OR9Q1_uc001nmj.2_Intron	NM_001005186	NP_001005186	Q8NGQ2	OR6Q1_HUMAN	olfactory receptor, family 6, subfamily Q,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(1)	1		Breast(21;0.0707)|all_epithelial(135;0.142)				GCTGTGTCCTATGGCAACATC	0.557													78	145	---	---	---	---	PASS	T	57799089	T	T	57799089	3	4	163	1	0	0	0	0	1	0	0	0	11208	449	16	5	667	5	OR6Q1	11	57799089	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	370502	57799089	77207427	785	58120										
OR10W1	81341	broad.mit.edu	37	chr11	58034692	58034692	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggatcttgagcagagcagcCactatgaaggtgtaggaggt	15	6	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:58034692C>T	uc001nmq.1	-	1	1041	c.639G>A	c.(637-639)GTG>GTA	p.V213V		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	213	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				GCAGAGCAGCCACTATGAAGG	0.577													12	33	---	---	---	---	PASS	T	58034692	T	T	58034692	2	4	163	1	0	0	0	0	0	0	0	1	10921	581	21	3		3	OR10W1	11	58034692	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	235603	58034692	76971824	786	58121										
GLYATL1	92292	broad.mit.edu	37	chr11	58715439	58715439	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttatccggcctcaaaagcagGtaggcacacagacagggact	11	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:58715439G>A	uc001nnf.2	+	5	562	c.186_splice	c.e5+1	p.Q62_splice	uc001nng.1_Intron|GLYATL1_uc001nnh.1_Splice_Site_p.Q93_splice|GLYATL1_uc001nni.1_Splice_Site_p.Q62_splice|GLYATL1_uc001nnj.1_Splice_Site_p.Q62_splice			Q969I3	GLYL1_HUMAN	SubName: Full=Glycine acyltransferase family-C; SubName: Full=Glycine-N-acyltransferase-like 1, isoform CRA_a;							mitochondrion	glycine N-acyltransferase activity			ovary(1)	1					Glycine(DB00145)	TCAAAAGCAGGTAGGCACACA	0.522													22	69	---	---	---	---	PASS	A	58715439	A	A	58715439	5	1	163	1	0	0	0	0	0	0	1	0	6480	1275	44	3	294	3	GLYATL1	11	58715439	Splice_Site	SNP	G	TCGA-66-2785-01A-01D-1522-08	680747	58715439	76291077	787	58122										
MPEG1	219972	broad.mit.edu	37	chr11	58978605	58978605	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cctgtgaagagcccggatttGacgcaataggacacttggca	12	10	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:58978605G>C	uc001nnu.3	-	1	1890	c.1734C>G	c.(1732-1734)GTC>GTG	p.V578V		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	578	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				GCCCGGATTTGACGCAATAGG	0.597													73	186	---	---	---	---	PASS	C	58978605	C	C	58978605	2	2	163	1	0	0	0	0	0	0	0	1	9723	1277	45	2		2	MPEG1	11	58978605	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	263166	58978605	76027911	788	58123										
OR5AN1	390195	broad.mit.edu	37	chr11	59131934	59131934	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attaggagcactgagccaatGactgggggaggaaatattac	13	6	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:59131934G>C	uc010rks.1	+	1	3	c.3G>C	c.(1-3)ATG>ATC	p.M1I		NM_001004729	NP_001004729	Q8NGI8	O5AN1_HUMAN	olfactory receptor, family 5, subfamily AN,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTGAGCCAATGACTGGGGGAG	0.398													18	151	---	---	---	---	PASS	C	59131934	C	C	59131934	3	2	163	1	0	0	0	0	1	0	0	0	11143	1290	45	2	5	2	OR5AN1	11	59131934	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	153329	59131934	75874582	789	58124										
OSBP	5007	broad.mit.edu	37	chr11	59368769	59368769	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aactcacttgtggcccaaatTttcaggcatggtgatgatct	9	9	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:59368769T>G	uc001noc.1	-	5	1591	c.1111A>C	c.(1111-1113)AAT>CAT	p.N371H	OSBP_uc009ymr.1_5'Flank	NM_002556	NP_002547	P22059	OSBP1_HUMAN	oxysterol binding protein	371					lipid transport	Golgi membrane	oxysterol binding			large_intestine(1)	1		all_epithelial(135;0.000236)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		TGGCCCAAATTTTCAGGCATG	0.378													21	122	---	---	---	---	PASS	G	59368769	G	G	59368769	3	3	163	1	0	0	0	0	1	0	0	0	11273	1841	64	5	1352	5	OSBP	11	59368769	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	236835	59368769	75637747	790	58125										
OSBP	5007	broad.mit.edu	37	chr11	59368814	59368814	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcatcaaaaaattcattctCatcatcttcatcgctcatgt	3	11	7	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:59368814C>G	uc001noc.1	-	5	1546	c.1066G>C	c.(1066-1068)GAG>CAG	p.E356Q	OSBP_uc009ymr.1_5'Flank	NM_002556	NP_002547	P22059	OSBP1_HUMAN	oxysterol binding protein	356					lipid transport	Golgi membrane	oxysterol binding			large_intestine(1)	1		all_epithelial(135;0.000236)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		AATTCATTCTCATCATCTTCA	0.393													21	143	---	---	---	---	PASS	G	59368814	G	G	59368814	3	3	163	1	0	0	0	0	1	0	0	0	11273	835	29	2	1397	2	OSBP	11	59368814	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	45	59368814	75637702	791	58126										
MS4A8B	83661	broad.mit.edu	37	chr11	60470904	60470904	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggcctcggctccatcatggcGacggttctcgtaggggaata	14	11	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:60470904G>C	uc001npv.2	+	3	476	c.273G>C	c.(271-273)GCG>GCC	p.A91A	MS4A8B_uc009yne.1_Silent_p.A91A	NM_031457	NP_113645	Q9BY19	M4A8B_HUMAN	membrane-spanning 4-domains, subfamily A, member	91	Helical; (Potential).					integral to membrane	receptor activity				0						CCATCATGGCGACGGTTCTCG	0.557													39	209	---	---	---	---	PASS	C	60470904	C	C	60470904	2	2	163	1	0	0	0	0	0	0	0	1	9867	1045	37	2		2	MS4A8B	11	60470904	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1102090	60470904	74535612	792	58127										
SLC15A3	51296	broad.mit.edu	37	chr11	60714117	60714117	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgaagacgggggtggcaaaGaggaagatgaaaaatgccag	16	4	0	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:60714117G>C	uc001nqn.2	-	2	969	c.735C>G	c.(733-735)CTC>CTG	p.L245L	SLC15A3_uc001nqo.2_Silent_p.L245L	NM_016582	NP_057666	Q8IY34	S15A3_HUMAN	solute carrier family 15, member 3	245	Helical; (Potential).				oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0						GGGTGGCAAAGAGGAAGATGA	0.572													26	164	---	---	---	---	PASS	C	60714117	C	C	60714117	2	2	163	1	0	0	0	0	0	0	0	1	14400	929	33	2		2	SLC15A3	11	60714117	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	243213	60714117	74292399	793	58128										
FTH1	2495	broad.mit.edu	37	chr11	61732578	61732578	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctctcccagtcatcacagtCtggtttctgaatgagaatag	9	10	5	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:61732578C>T	uc001nsu.2	-	3	503	c.268G>A	c.(268-270)GAC>AAC	p.D90N		NM_002032	NP_002023	P02794	FRIH_HUMAN	ferritin, heavy polypeptide 1	90	Ferritin-like diiron.				cell proliferation|cellular membrane organization|immune response|intracellular sequestering of iron ion|iron ion transport|negative regulation of cell proliferation|post-Golgi vesicle-mediated transport	cytosol|intracellular ferritin complex	ferric iron binding|ferroxidase activity|protein binding			ovary(1)	1					Iron Dextran(DB00893)	TCATCACAGTCTGGTTTCTGA	0.443													51	486	---	---	---	---	PASS	T	61732578	T	T	61732578	3	4	163	1	0	0	0	0	1	0	0	0	6082	913	32	2	291	2	FTH1	11	61732578	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1018461	61732578	73273938	794	58129										
AHNAK	79026	broad.mit.edu	37	chr11	62288670	62288670	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcaccttccactttgggcaGagagacatccacatcacctt	6	14	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:62288670G>C	uc001ntl.2	-	5	13519	c.13219C>G	c.(13219-13221)CTG>GTG	p.L4407V	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4407					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				ACTTTGGGCAGAGAGACATCC	0.473													65	404	---	---	---	---	PASS	C	62288670	C	C	62288670	3	2	163	1	0	0	0	0	1	0	0	0	414	933	33	2	4573	2	AHNAK	11	62288670	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	556092	62288670	72717846	795	58130										
ZBTB3	79842	broad.mit.edu	37	chr11	62519630	62519630	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accactgctgctctgtctgtCtgctgttggggagccaggga	14	11	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:62519630C>G	uc001nuz.2	-	2	1779	c.1657G>C	c.(1657-1659)GAC>CAC	p.D553H		NM_024784	NP_079060	Q9H5J0	ZBTB3_HUMAN	zinc finger and BTB domain containing 3	553					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3						CTCTGTCTGTCTGCTGTTGGG	0.552													30	121	---	---	---	---	PASS	G	62519630	G	G	62519630	3	3	163	1	0	0	0	0	1	0	0	0	17531	913	32	2	71	2	ZBTB3	11	62519630	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	230960	62519630	72486886	796	58131										
TAF6L	10629	broad.mit.edu	37	chr11	62554031	62554031	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agatgaaggcccaggcagcaGagcccaacaggggtggccca	15	12	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:62554031G>C	uc001nvc.2	+	11	1233	c.1132G>C	c.(1132-1134)GAG>CAG	p.E378Q	TMEM179B_uc001nvd.3_5'Flank	NM_006473	NP_006464	Q9Y6J9	TAF6L_HUMAN	TAF6-like RNA polymerase II	378					chromatin remodeling|histone H3 acetylation|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	histone deacetylase complex|STAGA complex	DNA binding|protein binding|transcription coactivator activity			ovary(3)	3						CCAGGCAGCAGAGCCCAACAG	0.612											OREG0021030	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	20	---	---	---	---	PASS	C	62554031	C	C	62554031	3	2	163	1	0	0	0	0	1	0	0	0	15528	943	33	2	1170	2	TAF6L	11	62554031	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	34401	62554031	72452485	797	58132										
SLC3A2	6520	broad.mit.edu	37	chr11	62650436	62650436	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggggtgagaactcgtggttcTccactcaggttgacactgtg	14	9	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:62650436T>C	uc001nwd.2	+	6	1182	c.958T>C	c.(958-960)TCC>CCC	p.S320P	SLC3A2_uc001nwb.2_Missense_Mutation_p.S351P|SLC3A2_uc001nwc.2_Missense_Mutation_p.S321P|SLC3A2_uc001nwe.2_Missense_Mutation_p.S289P|SLC3A2_uc001nwf.2_Missense_Mutation_p.S258P|SLC3A2_uc001nwg.2_Missense_Mutation_p.S219P|SLC3A2_uc010rml.1_RNA	NM_002394	NP_002385	P08195	4F2_HUMAN	solute carrier family 3, member 2 isoform c	320	Extracellular (Potential).			S -> F (in Ref. 5; AAA35489).	blood coagulation|carbohydrate metabolic process|cell growth|cellular nitrogen compound metabolic process|leucine import|leukocyte migration|tryptophan transport	apical plasma membrane|cell surface|integral to membrane|melanosome	calcium:sodium antiporter activity|catalytic activity|cation binding|neutral amino acid transmembrane transporter activity|protein binding				0						CTCGTGGTTCTCCACTCAGGT	0.532													50	141	---	---	---	---	PASS	C	62650436	C	C	62650436	3	2	163	1	0	0	0	0	1	0	0	0	14627	1551	54	5	1080	5	SLC3A2	11	62650436	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	96405	62650436	72356080	798	58133										
SLC22A25	387601	broad.mit.edu	37	chr11	62933655	62933655	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgactgcaccaaagagagtCtgcaacaggaaaacattgtt	10	8	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:62933655C>G	uc001nwr.1	-	7	1146	c.1146G>C	c.(1144-1146)CAG>CAC	p.Q382H	SLC22A10_uc010rmo.1_Intron|SLC22A25_uc009yoq.1_RNA|SLC22A25_uc001nws.1_RNA|SLC22A25_uc001nwt.1_3'UTR	NM_199352	NP_955384	Q6T423	S22AP_HUMAN	putative UST1-like organic anion transporter	382	Helical; Name=8; (Potential).				transmembrane transport	integral to membrane				ovary(3)|skin(1)	4						CAAAGAGAGTCTGCAACAGGA	0.498													23	78	---	---	---	---	PASS	G	62933655	G	G	62933655	3	3	163	1	0	0	0	0	1	0	0	0	14454	912	32	2	509	2	SLC22A25	11	62933655	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	283219	62933655	72072861	799	58134										
LGALS12	85329	broad.mit.edu	37	chr11	63276044	63276044	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtggttccttatgtcacgaCgatttttggaggcctgcatg	13	8	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:63276044C>G	uc001nxa.2	+	2	496	c.155C>G	c.(154-156)ACG>AGG	p.T52R	LGALS12_uc001nxb.2_Missense_Mutation_p.T52R|LGALS12_uc001nxc.2_Missense_Mutation_p.T52R|LGALS12_uc001nxd.2_5'UTR|LGALS12_uc001nxe.2_5'UTR|LGALS12_uc009yot.2_Missense_Mutation_p.D14E	NM_033101	NP_149092	Q96DT0	LEG12_HUMAN	lectin, galactoside-binding, soluble, 12 isoform	52	Galectin 1.				apoptosis|induction of apoptosis by intracellular signals	nucleus	lactose binding			ovary(2)	2						TATGTCACGACGATTTTTGGA	0.547													17	76	---	---	---	---	PASS	G	63276044	G	G	63276044	3	3	163	1	0	0	0	0	1	0	0	0	8739	536	19	4	161	4	LGALS12	11	63276044	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	342389	63276044	71730472	800	58135										
STIP1	10963	broad.mit.edu	37	chr11	63961973	63961973	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agaaaattcatgaaccctttCaacatgcctaatctgtatca	4	10	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:63961973C>G	uc001nyk.1	+	4	531	c.384C>G	c.(382-384)TTC>TTG	p.F128L	STIP1_uc001nyj.2_Missense_Mutation_p.F128L|STIP1_uc010rnb.1_Missense_Mutation_p.F104L	NM_006819	NP_006810	P31948	STIP1_HUMAN	stress-induced-phosphoprotein 1	128					axon guidance|response to stress	Golgi apparatus|nucleus				ovary(2)|liver(1)	3						TGAACCCTTTCAACATGCCTA	0.438													4	143	---	---	---	---	PASS	G	63961973	G	G	63961973	3	3	163	1	0	0	0	0	1	0	0	0	15284	825	29	2	398	2	STIP1	11	63961973	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	685929	63961973	71044543	801	58136										
STIP1	10963	broad.mit.edu	37	chr11	63963170	63963170	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagcgtcctccttggggtcgAtctgggcagtatggatgagg	16	9	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:63963170A>T	uc001nyk.1	+	5	704	c.557A>T	c.(556-558)GAT>GTT	p.D186V	STIP1_uc001nyj.2_Missense_Mutation_p.D186V|STIP1_uc010rnb.1_Missense_Mutation_p.D162V	NM_006819	NP_006810	P31948	STIP1_HUMAN	stress-induced-phosphoprotein 1	186					axon guidance|response to stress	Golgi apparatus|nucleus				ovary(2)|liver(1)	3						CTTGGGGTCGATCTGGGCAGT	0.468													10	55	---	---	---	---	PASS	T	63963170	T	T	63963170	3	4	163	1	0	0	0	0	1	0	0	0	15284	333	12	5	575	5	STIP1	11	63963170	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	1197	63963170	71043346	802	58137										
SLC22A20	440044	broad.mit.edu	37	chr11	64990981	64990981	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agtttgcaagtgtctgcaccTccaactcaatcttggacctc	7	13	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:64990981T>G	uc010roc.1	+	7	976	c.973T>G	c.(973-975)TCC>GCC	p.S325A	SLC22A20_uc010rob.1_Missense_Mutation_p.L268R	NM_001004326	NP_001004326	A6NK97	S22AK_HUMAN	solute carrier family 22, member 20	325	Cytoplasmic (Potential).				ion transport	integral to membrane	transmembrane transporter activity			central_nervous_system(1)	1						TGTCTGCACCTCCAACTCAAT	0.542													7	56	---	---	---	---	PASS	G	64990981	G	G	64990981	3	3	163	1	0	0	0	0	1	0	0	0	14451	1551	54	5	827	5	SLC22A20	11	64990981	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	1027811	64990981	70015535	803	58138										
FRMD8	83786	broad.mit.edu	37	chr11	65161798	65161798	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aacgtgctggctgcacggtaCccgtgcgacgtggaggactg	16	11	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:65161798C>G	uc001odu.3	+	6	675	c.483C>G	c.(481-483)TAC>TAG	p.Y161*	FRMD8_uc009yqj.2_Nonsense_Mutation_p.Y105*|FRMD8_uc010rof.1_Nonsense_Mutation_p.Y127*	NM_031904	NP_114110	Q9BZ67	FRMD8_HUMAN	FERM domain containing 8	161	FERM.					cytoskeleton	binding			lung(1)|pancreas(1)	2						CTGCACGGTACCCGTGCGACG	0.701													3	8	---	---	---	---	PASS	G	65161798	G	G	65161798	4	3	163	1	0	0	0	0	0	1	0	0	6056	518	18	4	501	4	FRMD8	11	65161798	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	170817	65161798	69844718	804	58139										
LTBP3	4054	broad.mit.edu	37	chr11	65308030	65308030	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcgtagccaggctgcgtgttCacgcacttgccctccttgca	10	15	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:65308030C>T	uc001oej.2	-	22	3302	c.3033G>A	c.(3031-3033)GTG>GTA	p.V1011V	LTBP3_uc001oef.2_Silent_p.V14V|LTBP3_uc001oeg.2_Silent_p.V14V|LTBP3_uc001oeh.2_Silent_p.V441V|LTBP3_uc010roi.1_Silent_p.V894V|LTBP3_uc001oei.2_Silent_p.V1011V|LTBP3_uc010roj.1_Silent_p.V712V|LTBP3_uc010rok.1_Silent_p.V922V	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	1011	EGF-like 10; calcium-binding (Potential).					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						GCTGCGTGTTCACGCACTTGC	0.642											OREG0021080	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	118	---	---	---	---	PASS	T	65308030	T	T	65308030	2	4	163	1	0	0	0	0	0	0	0	1	9075	813	29	2		2	LTBP3	11	65308030	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	146232	65308030	69698486	805	58140										
SSH3	54961	broad.mit.edu	37	chr11	67074336	67074336	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agctggaggcaccccggcctCcccggctccgctacctgctg	12	19	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:67074336C>T	uc001okj.2	+	4	545	c.367C>T	c.(367-369)CCC>TCC	p.P123S	SSH3_uc001okk.2_RNA|SSH3_uc001okl.2_5'UTR	NM_017857	NP_060327	Q8TE77	SSH3_HUMAN	slingshot homolog 3	123					regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton|nucleus	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			ACCCCGGCCTCCCCGGCTCCG	0.652													8	40	---	---	---	---	PASS	T	67074336	T	T	67074336	3	4	163	1	0	0	0	0	1	0	0	0	15185	855	30	2	381	2	SSH3	11	67074336	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1766306	67074336	67932180	806	58141										
CHKA	1119	broad.mit.edu	37	chr11	67832066	67832066	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggttttcaaagtcattttgGaatgcaggcaagtaactgga	11	5	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:67832066G>C	uc001onj.2	-	10	1372	c.1158C>G	c.(1156-1158)TTC>TTG	p.F386L	CHKA_uc001onk.2_Missense_Mutation_p.F368L	NM_001277	NP_001268	P35790	CHKA_HUMAN	choline kinase alpha isoform a	386					lipid transport|phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|choline kinase activity|drug binding|ethanolamine kinase activity|signal transducer activity			ovary(1)|central_nervous_system(1)	2					Choline(DB00122)	AGTCATTTTGGAATGCAGGCA	0.294													3	106	---	---	---	---	PASS	C	67832066	C	C	67832066	3	2	163	1	0	0	0	0	1	0	0	0	3347	1165	41	2	227	2	CHKA	11	67832066	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	757730	67832066	67174450	807	58142										
SUV420H1	51111	broad.mit.edu	37	chr11	67934503	67934503	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agtgttagagctgacagattGactgtctgaatttttgctgc	11	6	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:67934503G>C	uc001onm.1	-	10	1376	c.1120C>G	c.(1120-1122)CAA>GAA	p.Q374E	SUV420H1_uc009yse.1_5'UTR|SUV420H1_uc001onn.1_Missense_Mutation_p.Q202E|SUV420H1_uc009ysf.2_Missense_Mutation_p.Q134E|SUV420H1_uc001ono.1_Missense_Mutation_p.Q374E|SUV420H1_uc001onp.2_Missense_Mutation_p.Q374E|SUV420H1_uc010rqa.1_Missense_Mutation_p.Q351E|SUV420H1_uc001onq.2_Missense_Mutation_p.Q374E	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	374					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						CTGACAGATTGACTGTCTGAA	0.353													13	135	---	---	---	---	PASS	C	67934503	C	C	67934503	3	2	163	1	0	0	0	0	1	0	0	0	15411	1299	45	2	1553	2	SUV420H1	11	67934503	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	102437	67934503	67072013	808	58143										
SUV420H1	51111	broad.mit.edu	37	chr11	67953375	67953375	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tacatagcgactctgtccttCaaatcccgagttaccattac	5	13	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:67953375C>G	uc001onm.1	-	3	437	c.181G>C	c.(181-183)GAA>CAA	p.E61Q	SUV420H1_uc009yse.1_5'UTR|SUV420H1_uc001onn.1_5'UTR|SUV420H1_uc009ysf.2_5'UTR|SUV420H1_uc001ono.1_Missense_Mutation_p.E61Q|SUV420H1_uc001onp.2_Missense_Mutation_p.E61Q|SUV420H1_uc010rqa.1_Missense_Mutation_p.E61Q|SUV420H1_uc001onq.2_Missense_Mutation_p.E61Q	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	61					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						CTCTGTCCTTCAAATCCCGAG	0.408													25	130	---	---	---	---	PASS	G	67953375	G	G	67953375	3	3	163	1	0	0	0	0	1	0	0	0	15411	835	29	2	2520	2	SUV420H1	11	67953375	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	18872	67953375	67053141	809	58144										
TPCN2	219931	broad.mit.edu	37	chr11	68855388	68855388	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgagctcacagagaggctGagccagcacccgcacctgtg	13	13	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:68855388G>A	uc001oos.2	+	25	2342	c.2226G>A	c.(2224-2226)CTG>CTA	p.L742L	TPCN2_uc010rqg.1_Silent_p.L560L|TPCN2_uc001oot.2_RNA	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	742	Cytoplasmic (Potential).				cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CAGAGAGGCTGAGCCAGCACC	0.642													4	19	---	---	---	---	PASS	A	68855388	A	A	68855388	2	1	163	1	0	0	0	0	0	0	0	1	16393	1277	45	2		2	TPCN2	11	68855388	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	902013	68855388	66151128	810	58145										
FADD	8772	broad.mit.edu	37	chr11	70049751	70049751	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagcccgggcacaccgagctCctgcgcgagctgctcgcctc	13	18	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:70049751C>T	uc001opm.2	+	1	483	c.186C>T	c.(184-186)CTC>CTT	p.L62L		NM_003824	NP_003815	Q13158	FADD_HUMAN	Fas-associated via death domain	62	DED.				activation of caspase activity|activation of pro-apoptotic gene products|cellular response to mechanical stimulus|defense response to virus|induction of apoptosis via death domain receptors|innate immune response|interspecies interaction between organisms|necrotic cell death|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|signal transduction	cytosol	death receptor binding|identical protein binding			ovary(1)|lung(1)|pancreas(1)	3	Esophageal squamous(2;1.19e-45)		LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			ACACCGAGCTCCTGCGCGAGC	0.567													14	48	---	---	---	---	PASS	T	70049751	T	T	70049751	2	4	163	1	0	0	0	0	0	0	0	1	5364	842	30	2		2	FADD	11	70049751	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1194363	70049751	64956765	811	58146										
SHANK2	22941	broad.mit.edu	37	chr11	70333442	70333442	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cacctctgagtatgggttttCtggcatctggcctctcttgt	10	11	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:70333442C>G	uc001oqc.2	-	21	3034	c.2956G>C	c.(2956-2958)GAA>CAA	p.E986Q	SHANK2_uc010rqn.1_Missense_Mutation_p.E398Q|SHANK2_uc001opz.2_Missense_Mutation_p.E391Q|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	607					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)			TATGGGTTTTCTGGCATCTGG	0.602													28	253	---	---	---	---	PASS	G	70333442	G	G	70333442	3	3	163	1	0	0	0	0	1	0	0	0	14265	922	32	2	2601	2	SHANK2	11	70333442	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	283691	70333442	64673074	812	58147										
NADSYN1	55191	broad.mit.edu	37	chr11	71175151	71175151	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggccaatgaaggcaactacCgcgagctgcgctggttcacc	12	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:71175151C>T	uc001oqn.2	+	5	496	c.370C>T	c.(370-372)CGC>TGC	p.R124C	NADSYN1_uc001oqm.2_RNA|NADSYN1_uc001oqo.2_5'UTR	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	124	CN hydrolase.				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	AGGCAACTACCGCGAGCTGCG	0.607													11	24	---	---	---	---	PASS	T	71175151	T	T	71175151	3	4	163	1	0	0	0	0	1	0	0	0	10138	652	23	1	388	1	NADSYN1	11	71175151	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	841709	71175151	63831365	813	58148										
NUMA1	4926	broad.mit.edu	37	chr11	71724238	71724238	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcgccttcttcagcatgctCagctgctctgcatagctggc	10	14	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:71724238C>T	uc001orl.1	-	15	4483	c.4311G>A	c.(4309-4311)CTG>CTA	p.L1437L	NUMA1_uc009ysw.1_Silent_p.L1000L|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Silent_p.L1437L|NUMA1_uc001orn.2_Silent_p.L1000L|NUMA1_uc009ysx.1_Silent_p.L1437L|NUMA1_uc001oro.1_Silent_p.L1437L	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1437	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						TCAGCATGCTCAGCTGCTCTG	0.637			T	RARA	APL								26	142	---	---	---	---	PASS	T	71724238	T	T	71724238	2	4	163	1	0	0	0	0	0	0	0	1	10750	813	29	2		2	NUMA1	11	71724238	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	549087	71724238	63282278	814	58149										
INPPL1	3636	broad.mit.edu	37	chr11	71940529	71940529	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaggtggacaaggtcctgtCaggcctggagatcctgtcca	14	10	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:71940529C>G	uc001osf.2	+	6	827	c.680C>G	c.(679-681)TCA>TGA	p.S227*	INPPL1_uc001osg.2_5'UTR	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	227					actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						AAGGTCCTGTCAGGCCTGGAG	0.572													28	166	---	---	---	---	PASS	G	71940529	G	G	71940529	4	3	163	1	0	0	0	0	0	1	0	0	7761	838	29	2	702	2	INPPL1	11	71940529	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	216291	71940529	63065987	815	58150										
CHCHD8	51287	broad.mit.edu	37	chr11	73584241	73584241	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgttcactcatgcaatccttGaacgcctgcacctgtggctg	9	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:73584241G>C	uc001ouj.2	-	2	288	c.183C>G	c.(181-183)TTC>TTG	p.F61L	CHCHD8_uc009ytw.2_RNA	NM_016565	NP_057649	Q9NYJ1	CHCH8_HUMAN	coiled-coil-helix-coiled-coil-helix domain	61	CHCH.										0	Breast(11;7.42e-05)					TGCAATCCTTGAACGCCTGCA	0.617													14	80	---	---	---	---	PASS	C	73584241	C	C	73584241	3	2	163	1	0	0	0	0	1	0	0	0	3322	1281	45	2	84	2	CHCHD8	11	73584241	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1643712	73584241	61422275	816	58151										
SLCO2B1	11309	broad.mit.edu	37	chr11	74862428	74862428	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcactgcactccagcagtcaTgggacccaggataggtaagt	11	11	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:74862428T>C	uc001owb.2	+	1	389	c.2T>C	c.(1-3)ATG>ACG	p.M1T	SLCO2B1_uc010rrp.1_Intron|SLCO2B1_uc010rrq.1_Missense_Mutation_p.M1T|SLCO2B1_uc010rrr.1_Missense_Mutation_p.M1T|SLCO2B1_uc010rrs.1_5'UTR|SLCO2B1_uc001owc.2_5'UTR	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	1	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	CCAGCAGTCATGGGACCCAGG	0.552													8	27	---	---	---	---	PASS	C	74862428	C	C	74862428	3	2	163	1	0	0	0	0	1	0	0	0	14727	1464	51	5	4	5	SLCO2B1	11	74862428	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	1278187	74862428	60144088	817	58152										
C11orf82	220042	broad.mit.edu	37	chr11	82642927	82642927	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgtcattgactacttccatCaacttttgcagacttttaat	4	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:82642927C>G	uc001ozt.2	+	6	791	c.547C>G	c.(547-549)CAA>GAA	p.Q183E	C11orf82_uc010rsr.1_Translation_Start_Site|C11orf82_uc010rss.1_Translation_Start_Site|C11orf82_uc009yvd.2_Intron	NM_145018	NP_659455	Q8IXT1	NOXIN_HUMAN	nitric oxide-inducible gene protein	183					apoptosis|cell cycle arrest	cytoplasm|nucleus				ovary(2)	2						CTACTTCCATCAACTTTTGCA	0.418													42	299	---	---	---	---	PASS	G	82642927	G	G	82642927	3	3	163	1	0	0	0	0	1	0	0	0	1665	827	29	2	561	2	C11orf82	11	82642927	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	7780499	82642927	52363589	818	58153										
C11orf82	220042	broad.mit.edu	37	chr11	82643305	82643305	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggataaaaagagtacagcaGaaaagttgggtaaagaactt	11	3	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:82643305G>C	uc001ozt.2	+	6	1169	c.925G>C	c.(925-927)GAA>CAA	p.E309Q	C11orf82_uc010rsr.1_Missense_Mutation_p.E8Q|C11orf82_uc010rss.1_Missense_Mutation_p.E8Q|C11orf82_uc009yvd.2_Intron	NM_145018	NP_659455	Q8IXT1	NOXIN_HUMAN	nitric oxide-inducible gene protein	309					apoptosis|cell cycle arrest	cytoplasm|nucleus				ovary(2)	2						GAGTACAGCAGAAAAGTTGGG	0.418													28	142	---	---	---	---	PASS	C	82643305	C	C	82643305	3	2	163	1	0	0	0	0	1	0	0	0	1665	943	33	2	939	2	C11orf82	11	82643305	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	378	82643305	52363211	819	58154										
DLG2	1740	broad.mit.edu	37	chr11	83170885	83170885	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aacttttcctttgagggaatCcagatgaaaggcccagattg	10	8	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:83170885C>A	uc001paj.2	-	23	2892	c.2589G>T	c.(2587-2589)TGG>TGT	p.W863C	DLG2_uc001pai.2_Missense_Mutation_p.W742C|DLG2_uc010rsy.1_Missense_Mutation_p.W812C|DLG2_uc010rsz.1_Missense_Mutation_p.W859C|DLG2_uc010rta.1_Missense_Mutation_p.W845C|DLG2_uc001pak.2_Missense_Mutation_p.W968C|DLG2_uc010rsw.1_Missense_Mutation_p.W327C|DLG2_uc010rsx.1_Missense_Mutation_p.W340C	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	863						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				TTGAGGGAATCCAGATGAAAG	0.363													24	85	---	---	---	---	PASS	A	83170885	A	A	83170885	3	1	163	1	0	0	0	0	1	0	0	0	4555	856	30	2	27	2	DLG2	11	83170885	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	527580	83170885	51835631	820	58155										
DLG2	1740	broad.mit.edu	37	chr11	83641521	83641521	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagtgctgtaaacaggttccGgaggcctggtgatacaagag	14	8	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:83641521G>A	uc001paj.2	-	10	1334	c.1031C>T	c.(1030-1032)CCG>CTG	p.P344L	DLG2_uc001pai.2_Intron|DLG2_uc010rsy.1_Missense_Mutation_p.P311L|DLG2_uc010rsz.1_Missense_Mutation_p.P344L|DLG2_uc010rta.1_Missense_Mutation_p.P344L|DLG2_uc001pak.2_Missense_Mutation_p.P449L|DLG2_uc010rtb.1_Missense_Mutation_p.P311L|DLG2_uc001pal.1_Missense_Mutation_p.P344L|DLG2_uc001pam.1_Missense_Mutation_p.P383L	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	344						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				AACAGGTTCCGGAGGCCTGGT	0.458													17	124	---	---	---	---	PASS	A	83641521	A	A	83641521	3	1	163	1	0	0	0	0	1	0	0	0	4555	1116	39	1	1687	1	DLG2	11	83641521	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	470636	83641521	51364995	821	58156										
TYR	7299	broad.mit.edu	37	chr11	88911272	88911272	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtccctgtggccagctttcaGgcagaggttcctgtcagaat	12	11	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:88911272G>A	uc001pcs.2	+	1	233	c.151G>A	c.(151-153)GGC>AGC	p.G51S		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	51	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	CCAGCTTTCAGGCAGAGGTTC	0.562									Oculocutaneous_Albinism				7	70	---	---	---	---	PASS	A	88911272	A	A	88911272	3	1	163	1	0	0	0	0	1	0	0	0	16810	1000	35	3	153	3	TYR	11	88911272	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5269751	88911272	46095244	822	58157										
NOX4	50507	broad.mit.edu	37	chr11	89073286	89073286	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aacggaaggactggatatctCtgcatacccaaataaagtat	8	8	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:89073286C>T	uc001pct.2	-	15	1630	c.1391G>A	c.(1390-1392)AGA>AAA	p.R464K	NOX4_uc009yvr.2_Missense_Mutation_p.R439K|NOX4_uc001pcu.2_Missense_Mutation_p.R390K|NOX4_uc001pcw.2_Missense_Mutation_p.R157K|NOX4_uc001pcx.2_Missense_Mutation_p.R117K|NOX4_uc001pcv.2_Missense_Mutation_p.R424K|NOX4_uc009yvo.2_RNA|NOX4_uc010rtu.1_Intron|NOX4_uc009yvp.2_Missense_Mutation_p.R228K|NOX4_uc010rtv.1_Missense_Mutation_p.R400K|NOX4_uc009yvq.2_Missense_Mutation_p.R440K	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	464	Cytoplasmic (Potential).|Mediates interaction with TLR4.				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				CTGGATATCTCTGCATACCCA	0.338													29	185	---	---	---	---	PASS	T	89073286	T	T	89073286	3	4	163	1	0	0	0	0	1	0	0	0	10558	913	32	2	361	2	NOX4	11	89073286	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	162014	89073286	45933230	823	58158										
NOX4	50507	broad.mit.edu	37	chr11	89135642	89135642	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtaaggaaatattctgagagCtggttcggttaagactgatg	13	4	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:89135642C>G	uc001pct.2	-	9	937	c.698G>C	c.(697-699)AGC>ACC	p.S233T	NOX4_uc009yvr.2_Missense_Mutation_p.S208T|NOX4_uc001pcu.2_Missense_Mutation_p.S159T|NOX4_uc001pcw.2_Intron|NOX4_uc001pcx.2_Intron|NOX4_uc001pcv.2_Missense_Mutation_p.S233T|NOX4_uc009yvo.2_Intron|NOX4_uc010rtu.1_Missense_Mutation_p.S67T|NOX4_uc009yvp.2_Intron|NOX4_uc010rtv.1_Missense_Mutation_p.S209T|NOX4_uc009yvq.2_Missense_Mutation_p.S209T|NOX4_uc009yvs.1_RNA	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	233	Extracellular (Potential).|Ferric oxidoreductase.				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				ATTCTGAGAGCTGGTTCGGTT	0.393													39	257	---	---	---	---	PASS	G	89135642	G	G	89135642	3	3	163	1	0	0	0	0	1	0	0	0	10558	797	28	4	1078	4	NOX4	11	89135642	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	62356	89135642	45870874	824	58159										
NAALAD2	10003	broad.mit.edu	37	chr11	89882195	89882195	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttttcaaaacatcataccttGaaccaccaccagatggctat	4	12	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:89882195G>C	uc001pdf.3	+	4	512	c.403G>C	c.(403-405)GAA>CAA	p.E135Q	NAALAD2_uc009yvx.2_Missense_Mutation_p.E135Q|NAALAD2_uc009yvy.2_Missense_Mutation_p.E135Q|NAALAD2_uc001pdd.2_Missense_Mutation_p.E135Q|NAALAD2_uc001pde.2_Missense_Mutation_p.E135Q	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	135	Extracellular (Potential).				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				ATCATACCTTGAACCACCACC	0.318													29	275	---	---	---	---	PASS	C	89882195	C	C	89882195	3	2	163	1	0	0	0	0	1	0	0	0	10128	1291	45	2	417	2	NAALAD2	11	89882195	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	746553	89882195	45124321	825	58160										
KIAA1377	57562	broad.mit.edu	37	chr11	101834523	101834523	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtttgtgaagaaagttatccGtctgtgactctaagaactgc	10	7	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:101834523G>A	uc001pgm.2	+	6	3027	c.2757G>A	c.(2755-2757)CCG>CCA	p.P919P	KIAA1377_uc001pgn.2_Silent_p.P875P|KIAA1377_uc010run.1_Silent_p.P720P|KIAA1377_uc009yxa.1_Silent_p.P720P	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	919							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		AAAGTTATCCGTCTGTGACTC	0.403													38	253	---	---	---	---	PASS	A	101834523	A	A	101834523	2	1	163	1	0	0	0	0	0	0	0	1	8227	1132	40	1		1	KIAA1377	11	101834523	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	11952328	101834523	33171993	826	58161										
GRIA4	2893	broad.mit.edu	37	chr11	105797515	105797515	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtttggtggttctttacactCatcattatatcatcttatac	5	8	5	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:105797515C>T	uc001pix.2	+	13	2342	c.1896C>T	c.(1894-1896)CTC>CTT	p.L632L	GRIA4_uc001piw.2_Silent_p.L632L	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	632	Helical; (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	TCTTTACACTCATCATTATAT	0.338													32	217	---	---	---	---	PASS	T	105797515	T	T	105797515	2	4	163	1	0	0	0	0	0	0	0	1	6770	813	29	2		2	GRIA4	11	105797515	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	3962992	105797515	29209001	827	58162										
GUCY1A2	2977	broad.mit.edu	37	chr11	106888687	106888687	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgccattccagcagagcctaGacagggggcactccccctcc	10	17	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:106888687G>A	uc001pjg.1	-	1	485	c.95C>T	c.(94-96)TCT>TTT	p.S32F	GUCY1A2_uc010rvo.1_Missense_Mutation_p.S32F|GUCY1A2_uc009yxn.1_Missense_Mutation_p.S32F	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	32					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		GCAGAGCCTAGACAGGGGGCA	0.532													4	26	---	---	---	---	PASS	A	106888687	A	A	106888687	3	1	163	1	0	0	0	0	1	0	0	0	6893	942	33	2	2135	2	GUCY1A2	11	106888687	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1091172	106888687	28117829	828	58163										
CWF19L2	143884	broad.mit.edu	37	chr11	107263540	107263540	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcttcctccttgtgattccaGagattttccgggtgtgttca	9	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:107263540G>C	uc010rvp.1	-	11	1729	c.1699C>G	c.(1699-1701)CTG>GTG	p.L567V	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	567							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		TGTGATTCCAGAGATTTTCCG	0.388													14	88	---	---	---	---	PASS	C	107263540	C	C	107263540	3	2	163	1	0	0	0	0	1	0	0	0	4072	933	33	2	1017	2	CWF19L2	11	107263540	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	374853	107263540	27742976	829	58164										
EXPH5	23086	broad.mit.edu	37	chr11	108383146	108383146	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgactgcctgccatgtatgaGaaaactgcttgattttcttg	9	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:108383146G>A	uc001pkk.2	-	6	3199	c.3088C>T	c.(3088-3090)CTC>TTC	p.L1030F	EXPH5_uc010rvy.1_Missense_Mutation_p.L842F|EXPH5_uc010rvz.1_Missense_Mutation_p.L874F|EXPH5_uc010rwa.1_Missense_Mutation_p.L954F	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1030					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		CCATGTATGAGAAAACTGCTT	0.408													11	130	---	---	---	---	PASS	A	108383146	A	A	108383146	3	1	163	1	0	0	0	0	1	0	0	0	5322	942	33	2	2885	2	EXPH5	11	108383146	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1119606	108383146	26623370	830	58165										
ANKK1	255239	broad.mit.edu	37	chr11	113265686	113265686	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgtccaagtggatggaacaGtccacccggatgcagtacat	11	11	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:113265686G>A	uc001pny.2	+	3	610	c.516G>A	c.(514-516)CAG>CAA	p.Q172Q		NM_178510	NP_848605	Q8NFD2	ANKK1_HUMAN	ankyrin repeat and kinase domain containing 1	172	Protein kinase.						ATP binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|ovary(1)|breast(1)	8		all_cancers(61;1.53e-11)|all_epithelial(67;3e-06)|Melanoma(852;4.04e-05)|all_hematologic(158;0.000315)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0461)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Prostate(24;0.194)		BRCA - Breast invasive adenocarcinoma(274;4.82e-06)|Epithelial(105;5.41e-05)|all cancers(92;0.000442)|OV - Ovarian serous cystadenocarcinoma(223;0.238)		GGATGGAACAGTCCACCCGGA	0.567													7	26	---	---	---	---	PASS	A	113265686	A	A	113265686	2	1	163	1	0	0	0	0	0	0	0	1	631	1020	36	3		3	ANKK1	11	113265686	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	4882540	113265686	21740830	831	58166										
ZBTB16	7704	broad.mit.edu	37	chr11	113934591	113934591	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagcccttcagtctccacttCatttggtctttcagccatga	7	13	5	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:113934591C>T	uc001pop.2	+	2	833	c.569C>T	c.(568-570)TCA>TTA	p.S190L	ZBTB16_uc001poo.1_Missense_Mutation_p.S190L|ZBTB16_uc001poq.2_Missense_Mutation_p.S190L	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	190					apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		GTCTCCACTTCATTTGGTCTT	0.567													6	101	---	---	---	---	PASS	T	113934591	T	T	113934591	3	4	163	1	0	0	0	0	1	0	0	0	17523	838	29	2	571	2	ZBTB16	11	113934591	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	668905	113934591	21071925	832	58167										
PCSK7	9159	broad.mit.edu	37	chr11	117090469	117090469	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttctgaaggtcccagtcagtGgtcacctggaagtgaaacag	12	9	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:117090469G>A	uc001pqr.2	-	10	1362	c.1161C>T	c.(1159-1161)ACC>ACT	p.T387T		NM_004716	NP_004707	Q16549	PCSK7_HUMAN	proprotein convertase subtilisin/kexin type 7	387	Catalytic.|Extracellular (Potential).				peptide hormone processing	integral to Golgi membrane	serine-type endopeptidase activity				0	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;1.72e-06)|Epithelial(105;6.71e-05)|all cancers(92;0.000537)		CCCAGTCAGTGGTCACCTGGA	0.418			T	IGH@	MLCLS								3	53	---	---	---	---	PASS	A	117090469	A	A	117090469	2	1	163	1	0	0	0	0	0	0	0	1	11605	1335	47	3		3	PCSK7	11	117090469	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	3155878	117090469	17916047	833	58168										
DSCAML1	57453	broad.mit.edu	37	chr11	117335878	117335878	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagccccggatgacaccgttCtgcagctccttcttgggtgc	11	14	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:117335878C>G	uc001prh.1	-	17	3227	c.3225G>C	c.(3223-3225)CAG>CAC	p.Q1075H		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1015	Extracellular (Potential).|Fibronectin type-III 2.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TGACACCGTTCTGCAGCTCCT	0.483													4	114	---	---	---	---	PASS	G	117335878	G	G	117335878	3	3	163	1	0	0	0	0	1	0	0	0	4769	912	32	2	3184	2	DSCAML1	11	117335878	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	245409	117335878	17670638	834	58169										
DSCAML1	57453	broad.mit.edu	37	chr11	117351983	117351983	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccccacggtcagcgggcttGagctgggagaccaccagcag	14	14	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:117351983G>C	uc001prh.1	-	13	2744	c.2742C>G	c.(2740-2742)CTC>CTG	p.L914L		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	854	Extracellular (Potential).|Ig-like C2-type 9.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CAGCGGGCTTGAGCTGGGAGA	0.592													10	79	---	---	---	---	PASS	C	117351983	C	C	117351983	2	2	163	1	0	0	0	0	0	0	0	1	4769	1277	45	2		2	DSCAML1	11	117351983	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	16105	117351983	17654533	835	58170										
DSCAML1	57453	broad.mit.edu	37	chr11	117389208	117389208	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtttattcgcgcctgatattCagcactgcccaccaagttcc	7	14	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:117389208C>G	uc001prh.1	-	7	1665	c.1663G>C	c.(1663-1665)GAA>CAA	p.E555Q	DSCAML1_uc001pri.1_Missense_Mutation_p.E359Q	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	495	Extracellular (Potential).|Ig-like C2-type 5.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GCCTGATATTCAGCACTGCCC	0.522													7	176	---	---	---	---	PASS	G	117389208	G	G	117389208	3	3	163	1	0	0	0	0	1	0	0	0	4769	835	29	2	4786	2	DSCAML1	11	117389208	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	37225	117389208	17617308	836	58171										
TMPRSS4	56649	broad.mit.edu	37	chr11	117973862	117973862	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcctctgcgggcagcctctCcacttcatcccgaggaagca	9	16	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:117973862C>G	uc010rxo.1	+	4	495	c.204C>G	c.(202-204)CTC>CTG	p.L68L	TMPRSS4_uc010rxp.1_Silent_p.L68L|TMPRSS4_uc010rxq.1_5'UTR|TMPRSS4_uc010rxr.1_Silent_p.L43L|TMPRSS4_uc010rxs.1_Silent_p.L28L|TMPRSS4_uc009yzu.2_RNA|TMPRSS4_uc010rxt.1_Silent_p.L43L	NM_019894	NP_063947	Q9NRS4	TMPS4_HUMAN	transmembrane protease, serine 4 isoform 1	68	Extracellular (Potential).|LDL-receptor class A.				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0431)|all_hematologic(192;0.164)|Breast(348;0.183)|all_neural(223;0.238)		BRCA - Breast invasive adenocarcinoma(274;4.16e-05)|Epithelial(105;0.00204)		GGCAGCCTCTCCACTTCATCC	0.592													5	283	---	---	---	---	PASS	G	117973862	G	G	117973862	2	3	163	1	0	0	0	0	0	0	0	1	16246	842	30	2		2	TMPRSS4	11	117973862	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	584654	117973862	17032654	837	58172										
UBE4A	9354	broad.mit.edu	37	chr11	118247311	118247311	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttggacaaagaaacctgtttGatcccagctgtgcaggagcc	11	10	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:118247311G>A	uc001psw.2	+	10	1602	c.1473G>A	c.(1471-1473)TTG>TTA	p.L491L	UBE4A_uc001psv.2_Silent_p.L498L	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	491					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		AAACCTGTTTGATCCCAGCTG	0.418													85	183	---	---	---	---	PASS	A	118247311	A	A	118247311	2	1	163	1	0	0	0	0	0	0	0	1	16879	1281	45	2		2	UBE4A	11	118247311	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	273449	118247311	16759205	838	58173										
PHLDB1	23187	broad.mit.edu	37	chr11	118521218	118521218	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagaagcgctggtttgtcttCgaccggctcaagcgcaccct	11	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:118521218C>T	uc001ptr.1	+	21	4193	c.3840C>T	c.(3838-3840)TTC>TTT	p.F1280F	PHLDB1_uc001pts.2_Silent_p.F1280F|PHLDB1_uc001ptt.2_Silent_p.F1233F|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Silent_p.F1095F|PHLDB1_uc001ptw.1_Silent_p.F635F|PHLDB1_uc009zai.1_Silent_p.F316F|PHLDB1_uc001ptx.1_Silent_p.F316F	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	1280	PH.										0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		GGTTTGTCTTCGACCGGCTCA	0.572													22	108	---	---	---	---	PASS	T	118521218	T	T	118521218	2	4	163	1	0	0	0	0	0	0	0	1	11851	883	31	2		2	PHLDB1	11	118521218	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	273907	118521218	16485298	839	58174										
HYOU1	10525	broad.mit.edu	37	chr11	118919196	118919196	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgcccactgacctgggtctCaaatatgaatgcttccaagc	8	13	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:118919196C>G	uc001puu.2	-	19	2438	c.2245G>C	c.(2245-2247)GAG>CAG	p.E749Q	HYOU1_uc001put.2_Missense_Mutation_p.E714Q|HYOU1_uc010ryu.1_Missense_Mutation_p.E707Q|HYOU1_uc010ryv.1_Missense_Mutation_p.E638Q|HYOU1_uc001pux.3_Missense_Mutation_p.E749Q|HYOU1_uc010ryw.1_RNA	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	749						endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)		ACCTGGGTCTCAAATATGAAT	0.562													22	160	---	---	---	---	PASS	G	118919196	G	G	118919196	3	3	163	1	0	0	0	0	1	0	0	0	7470	835	29	2	786	2	HYOU1	11	118919196	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	397978	118919196	16087320	840	58175										
HYOU1	10525	broad.mit.edu	37	chr11	118919543	118919543	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgggcttctgcttcttctctCcctctggggctggagcgacg	13	14	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:118919543C>G	uc001puu.2	-	18	2241	c.2048G>C	c.(2047-2049)GGA>GCA	p.G683A	HYOU1_uc001put.2_Missense_Mutation_p.G648A|HYOU1_uc010ryu.1_Missense_Mutation_p.G641A|HYOU1_uc010ryv.1_Missense_Mutation_p.G572A|HYOU1_uc001pux.3_Missense_Mutation_p.G683A|HYOU1_uc010ryw.1_RNA	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	683						endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)		CTTCTTCTCTCCCTCTGGGGC	0.612													6	83	---	---	---	---	PASS	G	118919543	G	G	118919543	3	3	163	1	0	0	0	0	1	0	0	0	7470	855	30	2	987	2	HYOU1	11	118919543	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	347	118919543	16086973	841	58176										
C2CD2L	9854	broad.mit.edu	37	chr11	118984642	118984642	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgacagagcccagtgggcggGtggccaagaagacacccacc	14	13	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:118984642G>A	uc001pvo.2	+	12	1926	c.1567G>A	c.(1567-1569)GTG>ATG	p.V523M	C2CD2L_uc001pvn.2_Missense_Mutation_p.V524M	NM_014807	NP_055622	O14523	C2C2L_HUMAN	transmembrane protein 24	523						integral to membrane					0						CAGTGGGCGGGTGGCCAAGAA	0.597													17	66	---	---	---	---	PASS	A	118984642	A	A	118984642	3	1	163	1	0	0	0	0	1	0	0	0	2153	1261	44	3	1616	3	C2CD2L	11	118984642	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	65099	118984642	16021874	842	58177										
ABCG4	64137	broad.mit.edu	37	chr11	119029033	119029033	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggaccttcctgtccatcctCagggacacggtgaggcgtca	12	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:119029033C>G	uc001pvs.2	+	10	1494	c.1158C>G	c.(1156-1158)CTC>CTG	p.L386L	ABCG4_uc009zar.2_Silent_p.L386L	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	386	Cytoplasmic (Potential).|ABC transmembrane type-2.				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		TGTCCATCCTCAGGGACACGG	0.582													61	305	---	---	---	---	PASS	G	119029033	G	G	119029033	2	3	163	1	0	0	0	0	0	0	0	1	70	813	29	2		2	ABCG4	11	119029033	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	44391	119029033	15977483	843	58178										
POU2F3	25833	broad.mit.edu	37	chr11	120178198	120178198	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtccctgcagagtcctctccGtcagacccctcagtgagcac	9	17	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:120178198G>A	uc001pxc.2	+	9	882	c.780G>A	c.(778-780)CCG>CCA	p.P260P	POU2F3_uc010rzk.1_Silent_p.P214P|POU2F3_uc010rzl.1_Silent_p.P190P|POU2F3_uc001pxe.1_Silent_p.P45P	NM_014352	NP_055167	Q9UKI9	PO2F3_HUMAN	POU transcription factor	260					negative regulation by host of viral transcription	cytoplasm	sequence-specific DNA binding			ovary(1)|skin(1)	2		Breast(109;0.0011)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;6.85e-06)		AGTCCTCTCCGTCAGACCCCT	0.577													27	157	---	---	---	---	PASS	A	120178198	A	A	120178198	2	1	163	1	0	0	0	0	0	0	0	1	12273	1132	40	1		1	POU2F3	11	120178198	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1149165	120178198	14828318	844	58179										
ARHGEF12	23365	broad.mit.edu	37	chr11	120346150	120346150	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agattctggcatctacagctGatagcaaacacacgtttagc	8	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:120346150G>C	uc001pxl.1	+	33	3218	c.3211G>C	c.(3211-3213)GAT>CAT	p.D1071H	ARHGEF12_uc009zat.2_Missense_Mutation_p.D1052H|ARHGEF12_uc010rzn.1_Missense_Mutation_p.D968H|ARHGEF12_uc009zau.1_Missense_Mutation_p.D968H	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	1071	PH.				apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		ATCTACAGCTGATAGCAAACA	0.408			T	MLL	AML								31	213	---	---	---	---	PASS	C	120346150	C	C	120346150	3	2	163	1	0	0	0	0	1	0	0	0	897	1290	45	2	3341	2	ARHGEF12	11	120346150	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	167952	120346150	14660366	845	58180										
BSX	390259	broad.mit.edu	37	chr11	122850019	122850019	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagctccactcgttctggcgTggacaggtagcgctggatct	13	12	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:122850019T>A	uc010rzs.1	-	2	409	c.409A>T	c.(409-411)ACG>TCG	p.T137S		NM_001098169	NP_001091639	Q3C1V8	BSH_HUMAN	brain specific homeobox	137	Homeobox.										0		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0361)		CGTTCTGGCGTGGACAGGTAG	0.662													17	121	---	---	---	---	PASS	A	122850019	A	A	122850019	3	1	163	1	0	0	0	0	1	0	0	0	1535	1696	59	5	299	5	BSX	11	122850019	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	2503869	122850019	12156497	846	58181										
OR10G9	219870	broad.mit.edu	37	chr11	123894542	123894542	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atggagttgtggccattttcTacactgtgctgacacccctt	9	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:123894542T>A	uc010sad.1	+	1	823	c.823T>A	c.(823-825)TAC>AAC	p.Y275N		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	275	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GGCCATTTTCTACACTGTGCT	0.488													33	168	---	---	---	---	PASS	A	123894542	A	A	123894542	3	1	163	1	0	0	0	0	1	0	0	0	10904	1522	53	5	825	5	OR10G9	11	123894542	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	1044523	123894542	11111974	847	58182										
OR8B8	26493	broad.mit.edu	37	chr11	124310156	124310156	+	Frame_Shift_Del	DEL	G	-	-													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caccacagtggtatagaataGggaagacaccttgccctggt							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:124310156delG	uc010sal.1	-	1	826	c.826delC	c.(826-828)CTAfs	p.L276fs		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	276	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GTATAGAATAGGGAAGACACC	0.418													100	58	---	---	---	---		-	124310156	-	-	124310156	7	5	163	1	0	1	0	1	0	0	0	0	11230	991	35	0	112	0	OR8B8	11	124310156	Frame_Shift_Del	DEL	G	TCGA-66-2785-01A-01D-1522-08	415614	124310156	10696360	848	58183										
ROBO4	54538	broad.mit.edu	37	chr11	124766924	124766924	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtctgtggacagggcctggcCatcgtgggcatgtccccggg	17	12	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:124766924C>A	uc001qbg.2	-	2	444	c.304G>T	c.(304-306)GGC>TGC	p.G102C	ROBO4_uc010sas.1_5'UTR|ROBO4_uc001qbh.2_Intron|ROBO4_uc001qbi.2_5'Flank|ROBO4_uc010sat.1_5'Flank	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	102	Ig-like C2-type 1.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		AGGGCCTGGCCATCGTGGGCA	0.667													10	38	---	---	---	---	PASS	A	124766924	A	A	124766924	3	1	163	1	0	0	0	0	1	0	0	0	13516	594	21	3	2787	3	ROBO4	11	124766924	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	456768	124766924	10239592	849	58184										
STT3A	3703	broad.mit.edu	37	chr11	125483013	125483013	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccgtggtggggatggcagtAggatcatatttgatgacttc	14	7	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:125483013A>G	uc001qcd.2	+	13	1605	c.1495A>G	c.(1495-1497)AGG>GGG	p.R499G	STT3A_uc001qce.2_Missense_Mutation_p.R499G|STT3A_uc010sbg.1_Missense_Mutation_p.R407G|STT3A_uc009zbn.2_Missense_Mutation_p.R221G	NM_152713	NP_689926	P46977	STT3A_HUMAN	integral membrane protein 1	499	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity				0	all_hematologic(175;0.228)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0996)		GGATGGCAGTAGGATCATATT	0.478													50	276	---	---	---	---	PASS	G	125483013	G	G	125483013	3	3	163	1	0	0	0	0	1	0	0	0	15332	411	15	5	1541	5	STT3A	11	125483013	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	716089	125483013	9523503	850	58185										
NCAPD3	23310	broad.mit.edu	37	chr11	134086933	134086933	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actatttgaacaaaatgataGaacaatgccaccagtgtact	6	8	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:134086933G>C	uc001qhd.1	-	3	885	c.279C>G	c.(277-279)TTC>TTG	p.F93L	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	93					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		CAAAATGATAGAACAATGCCA	0.408													17	107	---	---	---	---	PASS	C	134086933	C	C	134086933	3	2	163	1	0	0	0	0	1	0	0	0	10206	933	33	2	4349	2	NCAPD3	11	134086933	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	8603920	134086933	919583	851	58186										
THYN1	29087	broad.mit.edu	37	chr11	134118800	134118800	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgagcttgatgataggatttGagctcagccaggggaatgaa	14	5	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr11:134118800G>C	uc001qhf.2	-	7	636	c.534C>G	c.(532-534)CTC>CTG	p.L178L	THYN1_uc001qhg.2_Silent_p.L178L|THYN1_uc001qhh.2_Silent_p.L178L|THYN1_uc001qhi.2_Intron|THYN1_uc001qhj.2_Intron	NM_001037305	NP_001032382	Q9P016	THYN1_HUMAN	thymocyte nuclear protein 1 isoform 1	178						nucleus					0	all_hematologic(175;0.127)	all_cancers(12;1.1e-21)|all_epithelial(12;3.77e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;1.68e-10)|all cancers(11;1.95e-09)|BRCA - Breast invasive adenocarcinoma(10;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00148)|Lung(977;0.207)		GATAGGATTTGAGCTCAGCCA	0.413													44	213	---	---	---	---	PASS	C	134118800	C	C	134118800	2	2	163	1	0	0	0	0	0	0	0	1	15883	1277	45	2		2	THYN1	11	134118800	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	31867	134118800	887716	852	58187										
IQSEC3	440073	broad.mit.edu	37	chr12	247613	247613	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggtgcggtcacccacggccGagagcctggcggccgagaaa	16	13	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:247613G>C	uc001qhw.1	+	1	181	c.175G>C	c.(175-177)GAG>CAG	p.E59Q	IQSEC3_uc001qhu.1_Missense_Mutation_p.E59Q|IQSEC3_uc001qht.1_Missense_Mutation_p.E144Q|uc001qhv.1_RNA	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	362					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		ACCCACGGCCGAGAGCCTGGC	0.677													7	23	---	---	---	---	PASS	C	247613	C	C	247613	3	2	163	1	0	0	0	0	1	0	0	0	7819	1059	37	2	1098	2	IQSEC3	12	247613	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08		247613	133604282	853	58188										
ADIPOR2	79602	broad.mit.edu	37	chr12	1889746	1889746	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cattctctgcctttctttttCatggctcttccacacagtct	4	14	5	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:1889746C>T	uc001qjm.2	+	5	790	c.593C>T	c.(592-594)TCA>TTA	p.S198L	ADIPOR2_uc001qjn.2_Missense_Mutation_p.S198L	NM_024551	NP_078827	Q86V24	ADR2_HUMAN	adiponectin receptor 2	198	Helical; Name=2; (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane	hormone binding|receptor activity				0	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000382)			CTTTCTTTTTCATGGCTCTTC	0.438													150	647	---	---	---	---	PASS	T	1889746	T	T	1889746	3	4	163	1	0	0	0	0	1	0	0	0	319	838	29	2	607	2	ADIPOR2	12	1889746	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1642133	1889746	131962149	854	58189										
ANO2	57101	broad.mit.edu	37	chr12	5756892	5756892	+	Splice_Site	SNP	C	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtggtccctcaaggaaattaCcatgaataagatggaggcaa							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:5756892C>A	uc001qnm.2	-	16	1692	c.1620_splice	c.e16+1	p.M540_splice		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2							chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						AAGGAAATTACCATGAATAAG	0.443													4	38	---	---	---	---	PASS	A	5756892	A	A	5756892	5	1	163	1	0	0	0	0	0	0	1	0	697	521	18	3	1419	3	ANO2	12	5756892	Splice_Site	SNP	C	TCGA-66-2785-01A-01D-1522-08	3867146	5756892	128095003	855	58190	1037	2								
ANO2	57101	broad.mit.edu	37	chr12	5756893	5756893	+	Missense_Mutation	SNP	C	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggtccctcaaggaaattacCatgaataagatggaggcaaa							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:5756893C>A	uc001qnm.2	-	16	1692	c.1620G>T	c.(1618-1620)ATG>ATT	p.M540I		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	545	Helical; (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						AGGAAATTACCATGAATAAGA	0.443													4	38	---	---	---	---	PASS	A	5756893	A	A	5756893	3	1	163	1	0	0	0	0	1	0	0	0	697	608	21	3	1420	3	ANO2	12	5756893	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1	5756893	128095002	856	58191	1037	2								
IFFO1	25900	broad.mit.edu	37	chr12	6657950	6657950	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agggaggtgtcctcctcgacGgcagccttgcgctcccgctt	13	15	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:6657950G>A	uc001qpd.1	-	5	1147	c.1113C>T	c.(1111-1113)GCC>GCT	p.A371A	IFFO1_uc001qoy.2_RNA|IFFO1_uc001qpa.1_Silent_p.A11A|IFFO1_uc001qpb.1_Silent_p.A48A|IFFO1_uc001qpe.1_RNA|IFFO1_uc010sfe.1_Silent_p.A382A|IFFO1_uc001qpf.1_Silent_p.A374A|IFFO1_uc001qoz.1_Silent_p.A11A|IFFO1_uc001qpc.1_Silent_p.A374A|IFFO1_uc001qpg.2_Silent_p.A11A	NM_080730	NP_542768	Q0D2I5	IFFO1_HUMAN	intermediate filament family orphan isoform 2	371						intermediate filament					0						CCTCCTCGACGGCAGCCTTGC	0.642													5	66	---	---	---	---	PASS	A	6657950	A	A	6657950	2	1	163	1	0	0	0	0	0	0	0	1	7510	1103	39	1		1	IFFO1	12	6657950	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	901057	6657950	127193945	857	58192										
LAG3	3902	broad.mit.edu	37	chr12	6886553	6886553	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccatcccagaggagtttctCaggaccttggctggaggcac	12	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:6886553C>G	uc001qqt.3	+	6	1530	c.1181C>G	c.(1180-1182)TCA>TGA	p.S394*	LAG3_uc001qqu.2_Nonsense_Mutation_p.S224*	NM_002286	NP_002277	P18627	LAG3_HUMAN	lymphocyte-activation protein 3 precursor	394	Extracellular (Potential).|Ig-like C2-type 3.					integral to membrane	antigen binding|MHC class II protein binding				0						AGGAGTTTCTCAGGACCTTGG	0.582													37	347	---	---	---	---	PASS	G	6886553	G	G	6886553	4	3	163	1	0	0	0	0	0	1	0	0	8600	838	29	2	1203	2	LAG3	12	6886553	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	228603	6886553	126965342	858	58193										
TPI1	7167	broad.mit.edu	37	chr12	6976808	6976808	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagagtctgggggagctcatCggcactctgaacgcggccaa	14	12	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:6976808C>T	uc001qrk.2	+	1	116	c.78C>T	c.(76-78)ATC>ATT	p.I26I	TPI1_uc010sfo.1_5'Flank	NM_000365	NP_000356	P60174	TPIS_HUMAN	triosephosphate isomerase 1 isoform 1	26					fatty acid biosynthetic process|gluconeogenesis|glycolysis|pentose-phosphate shunt	cytosol	triose-phosphate isomerase activity				0						GGGAGCTCATCGGCACTCTGA	0.572													4	66	---	---	---	---	PASS	T	6976808	T	T	6976808	2	4	163	1	0	0	0	0	0	0	0	1	16400	874	31	2		2	TPI1	12	6976808	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	90255	6976808	126875087	859	58194										
TPI1	7167	broad.mit.edu	37	chr12	6978455	6978455	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagtggcccatgctctggcaGagggactcggagtaatcgcc	14	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:6978455G>C	uc001qrk.2	+	4	396	c.358G>C	c.(358-360)GAG>CAG	p.E120Q	TPI1_uc010sfo.1_Missense_Mutation_p.E38Q	NM_000365	NP_000356	P60174	TPIS_HUMAN	triosephosphate isomerase 1 isoform 1	120					fatty acid biosynthetic process|gluconeogenesis|glycolysis|pentose-phosphate shunt	cytosol	triose-phosphate isomerase activity				0						TGCTCTGGCAGAGGGACTCGG	0.502											OREG0021638	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	851	---	---	---	---	PASS	C	6978455	C	C	6978455	3	2	163	1	0	0	0	0	1	0	0	0	16400	943	33	2	483	2	TPI1	12	6978455	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1647	6978455	126873440	860	58195										
C1RL	51279	broad.mit.edu	37	chr12	7249728	7249728	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaaccgagggtcgtctgattCtgggcaatgggggtgactgg	18	7	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:7249728C>G	uc001qsn.2	-	6	740	c.723G>C	c.(721-723)CAG>CAC	p.Q241H	C1RL_uc009zft.2_Missense_Mutation_p.R257T	NM_016546	NP_057630	Q9NZP8	C1RL_HUMAN	complement component 1, r subcomponent-like	241					complement activation, classical pathway|innate immune response|proteolysis		serine-type endopeptidase activity			pancreas(1)	1						TCGTCTGATTCTGGGCAATGG	0.627													10	97	---	---	---	---	PASS	G	7249728	G	G	7249728	3	3	163	1	0	0	0	0	1	0	0	0	1973	912	32	2	744	2	C1RL	12	7249728	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	271273	7249728	126602167	861	58196										
CD163	9332	broad.mit.edu	37	chr12	7651770	7651770	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccacgcgtcagcctcatttCcaaattggatccatctggag	8	13	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:7651770C>G	uc001qsz.3	-	4	600	c.472G>C	c.(472-474)GAA>CAA	p.E158Q	CD163_uc001qta.3_Missense_Mutation_p.E158Q|CD163_uc009zfw.2_Missense_Mutation_p.E158Q	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	158	Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						AGCCTCATTTCCAAATTGGAT	0.413													47	714	---	---	---	---	PASS	G	7651770	G	G	7651770	3	3	163	1	0	0	0	0	1	0	0	0	2967	864	30	2	3050	2	CD163	12	7651770	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	402042	7651770	126200125	862	58197										
APOBEC1	339	broad.mit.edu	37	chr12	7803718	7803718	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtgggtagttgacaaaattCctccagcagtgataatactc	10	8	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:7803718C>A	uc001qtb.2	-	4	496	c.462G>T	c.(460-462)AGG>AGT	p.R154S	APOBEC1_uc001qtc.2_Missense_Mutation_p.R109S|APOBEC1_uc010sgf.1_Missense_Mutation_p.R154S	NM_001644	NP_001635	P41238	ABEC1_HUMAN	apolipoprotein B mRNA editing enzyme	154					cytidine to uridine editing|DNA demethylation|lipid metabolic process|mRNA modification|mRNA processing|negative regulation of methylation-dependent chromatin silencing	nucleoplasm	cytidine deaminase activity|RNA binding|zinc ion binding				0						TGACAAAATTCCTCCAGCAGT	0.448													14	263	---	---	---	---	PASS	A	7803718	A	A	7803718	3	1	163	1	0	0	0	0	1	0	0	0	787	854	30	2	256	2	APOBEC1	12	7803718	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	151948	7803718	126048177	863	58198										
NECAP1	25977	broad.mit.edu	37	chr12	8248226	8248226	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagatttggattctcctgctCctgtcacgacaccagcacca	7	14	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:8248226C>A	uc001qtx.2	+	7	784	c.706C>A	c.(706-708)CCT>ACT	p.P236T	NECAP1_uc001qty.2_Missense_Mutation_p.P94T	NM_015509	NP_056324	Q8NC96	NECP1_HUMAN	NECAP endocytosis associated 1	236					endocytosis|protein transport	clathrin coated vesicle membrane|plasma membrane				ovary(1)	1				Kidney(36;0.0915)		TTCTCCTGCTCCTGTCACGAC	0.373													15	317	---	---	---	---	PASS	A	8248226	A	A	8248226	3	1	163	1	0	0	0	0	1	0	0	0	10307	855	30	2	732	2	NECAP1	12	8248226	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	444508	8248226	125603669	864	58199										
KLRB1	3820	broad.mit.edu	37	chr12	9747874	9747874	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagatgggattcatagtcaaGagtcaggatacactttattt	10	5	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:9747874G>C	uc010sgt.1	-	6	736	c.674C>G	c.(673-675)TCT>TGT	p.S225C		NM_002258	NP_002249	Q12918	KLRB1_HUMAN	killer cell lectin-like receptor subfamily B,	225	Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	sugar binding|transmembrane receptor activity				0						TCATAGTCAAGAGTCAGGATA	0.378													30	323	---	---	---	---	PASS	C	9747874	C	C	9747874	3	2	163	1	0	0	0	0	1	0	0	0	8414	942	33	2	6	2	KLRB1	12	9747874	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1499648	9747874	124104021	865	58200										
KLRC1	3821	broad.mit.edu	37	chr12	10603638	10603638	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgaaggtttaattccgcatAggttatttcctgttcagttg	9	6	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:10603638A>G	uc001qyl.2	-	2	282	c.118T>C	c.(118-120)TAT>CAT	p.Y40H	KLRC1_uc009zhm.1_Missense_Mutation_p.Y40H|KLRC1_uc001qym.2_Missense_Mutation_p.Y40H|KLRC1_uc001qyn.2_Missense_Mutation_p.Y40H|KLRC1_uc001qyo.2_Missense_Mutation_p.Y40H	NM_002259	NP_002250	P26715	NKG2A_HUMAN	killer cell lectin-like receptor subfamily C,	40	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|regulation of immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0						AATTCCGCATAGGTTATTTCC	0.378													49	473	---	---	---	---	PASS	G	10603638	G	G	10603638	3	3	163	1	0	0	0	0	1	0	0	0	8415	420	15	5	607	5	KLRC1	12	10603638	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	855764	10603638	123248257	866	58201										
TAS2R9	50835	broad.mit.edu	37	chr12	10961880	10961880	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acagttactatgtcaccaatCatcaacactaattttccctg	3	12	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:10961880C>G	uc001qyx.2	-	1	888	c.795G>C	c.(793-795)ATG>ATC	p.M265I	TAS2R8_uc010shh.1_5'Flank	NM_023917	NP_076406	Q9NYW1	TA2R9_HUMAN	taste receptor, type 2, member 9	265	Helical; Name=7; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			skin(1)	1						TGTCACCAATCATCAACACTA	0.403													27	303	---	---	---	---	PASS	G	10961880	G	G	10961880	3	3	163	1	0	0	0	0	1	0	0	0	15585	826	29	2	147	2	TAS2R9	12	10961880	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	358242	10961880	122890015	867	58202										
TAS2R19	259294	broad.mit.edu	37	chr12	11174300	11174300	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catctgccacaaaactgaaaGaaaggtctgttttagcttcc	7	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:11174300G>C	uc010shj.1	-	1	871	c.871C>G	c.(871-873)CTT>GTT	p.L291V	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176888	NP_795369	P59542	T2R19_HUMAN	taste receptor, type 2, member 19	291	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			skin(1)	1						AAAACTGAAAGAAAGGTCTGT	0.428													33	248	---	---	---	---	PASS	C	11174300	C	C	11174300	3	2	163	1	0	0	0	0	1	0	0	0	15567	942	33	2	31	2	TAS2R19	12	11174300	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	212420	11174300	122677595	868	58203										
TAS2R19	259294	broad.mit.edu	37	chr12	11174553	11174553	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctatggagccgcatcttcttGagatgtttacaaagagaaca	9	8	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:11174553G>C	uc010shj.1	-	1	618	c.618C>G	c.(616-618)CTC>CTG	p.L206L	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176888	NP_795369	P59542	T2R19_HUMAN	taste receptor, type 2, member 19	206	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			skin(1)	1						GCATCTTCTTGAGATGTTTAC	0.413													18	544	---	---	---	---	PASS	C	11174553	C	C	11174553	2	2	163	1	0	0	0	0	0	0	0	1	15567	1277	45	2		2	TAS2R19	12	11174553	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	253	11174553	122677342	869	58204										
ETV6	2120	broad.mit.edu	37	chr12	12006363	12006363	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttcctttttctttccaggtGatgtgctctatgaactcctt	6	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:12006363G>A	uc001qzz.2	+	4	605	c.331G>A	c.(331-333)GAT>AAT	p.D111N		NM_001987	NP_001978	P41212	ETV6_HUMAN	ets variant 6	111	PNT.					cytoplasm|nucleolus	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		ETV6/NTRK3(234)|ETV6/JAK2(11)	soft_tissue(85)|kidney(66)|breast(55)|salivary_gland(26)|haematopoietic_and_lymphoid_tissue(13)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)|pancreas(1)	250		all_cancers(2;1.88e-12)|Acute lymphoblastic leukemia(2;6.91e-39)|all_hematologic(2;2.7e-36)				CTTTCCAGGTGATGTGCTCTA	0.453			T	NTRK3|RUNX1|PDGFRB|ABL1|MN1|ABL2|FACL6|CHIC2|ARNT|JAK2|EVI1|CDX2|STL|HLXB9|MDS2|PER1|SYK|TTL|FGFR3|PAX5	congenital fibrosarcoma|multiple leukemia and lymphoma| secretory breast|MDS|ALL								33	416	---	---	---	---	PASS	A	12006363	A	A	12006363	3	1	163	1	0	0	0	0	1	0	0	0	5283	1290	45	2	345	2	ETV6	12	12006363	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	831810	12006363	121845532	870	58205										
GRIN2B	2904	broad.mit.edu	37	chr12	13906545	13906545	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agttggccacttcaaagatgTaggtggcttcttccttggta	11	8	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:13906545T>A	uc001rbt.2	-	3	895	c.716A>T	c.(715-717)TAC>TTC	p.Y239F		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	239	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TTCAAAGATGTAGGTGGCTTC	0.512													57	190	---	---	---	---	PASS	A	13906545	A	A	13906545	3	1	163	1	0	0	0	0	1	0	0	0	6780	1638	57	5	3782	5	GRIN2B	12	13906545	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	1900182	13906545	119945350	871	58206										
GUCY2C	2984	broad.mit.edu	37	chr12	14796593	14796593	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actacgcagttggtagatttCagacgaccatggacttctgt	10	9	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:14796593C>G	uc001rcd.2	-	17	1982	c.1845G>C	c.(1843-1845)CTG>CTC	p.L615L		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	615	Cytoplasmic (Potential).|Protein kinase.				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TGGTAGATTTCAGACGACCAT	0.398													63	371	---	---	---	---	PASS	G	14796593	G	G	14796593	2	3	163	1	0	0	0	0	0	0	0	1	6896	813	29	2		2	GUCY2C	12	14796593	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	890048	14796593	119055302	872	58207										
RERG	85004	broad.mit.edu	37	chr12	15262294	15262294	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtccaagtcagctttgtttCcaaccaagatgagagtcaca	9	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:15262294C>G	uc001rcs.2	-	4	490	c.350G>C	c.(349-351)GGA>GCA	p.G117A	RERG_uc001rct.2_Missense_Mutation_p.G117A|RERG_uc010shu.1_Missense_Mutation_p.G98A	NM_032918	NP_116307	Q96A58	RERG_HUMAN	RAS-like, estrogen-regulated, growth inhibitor	117					negative regulation of cell growth|negative regulation of cell proliferation|response to hormone stimulus|small GTPase mediated signal transduction	cytosol|membrane|nucleus	estrogen receptor binding|GDP binding|GTP binding|GTPase activity			lung(1)	1						AGCTTTGTTTCCAACCAAGAT	0.473													58	362	---	---	---	---	PASS	G	15262294	G	G	15262294	3	3	163	1	0	0	0	0	1	0	0	0	13232	855	30	2	253	2	RERG	12	15262294	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	465701	15262294	118589601	873	58208										
PLCZ1	89869	broad.mit.edu	37	chr12	18889229	18889229	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taacctctgagttttttctaGgttaatttttccacctctga	5	9	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:18889229G>T	uc010sid.1	-	3	252	c.61C>A	c.(61-63)CTA>ATA	p.L21I	PLCZ1_uc001rdv.3_5'UTR|PLCZ1_uc001rdw.3_5'UTR|CAPZA3_uc001rdy.2_5'Flank	NM_033123	NP_149114	Q86YW0	PLCZ1_HUMAN	phospholipase C, zeta 1	21					intracellular signal transduction|lipid catabolic process|multicellular organismal development	nucleus|perinuclear region of cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)					GTTTTTTCTAGGTTAATTTTT	0.338													22	67	---	---	---	---	PASS	T	18889229	T	T	18889229	3	4	163	1	0	0	0	0	1	0	0	0	12044	991	35	3	1817	3	PLCZ1	12	18889229	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3626935	18889229	114962666	874	58209										
RASSF8	11228	broad.mit.edu	37	chr12	26217997	26217997	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgtagaaattgaggaggaaGaattctgggaaaatgaatta	12	1	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:26217997G>C	uc001rgx.2	+	3	891	c.670G>C	c.(670-672)GAA>CAA	p.E224Q	RASSF8_uc001rgy.2_Missense_Mutation_p.E224Q|RASSF8_uc001rgz.2_Missense_Mutation_p.E224Q|RASSF8_uc009zjd.1_Missense_Mutation_p.E224Q|RASSF8_uc009zje.1_Missense_Mutation_p.E224Q	NM_007211	NP_009142	Q8NHQ8	RASF8_HUMAN	Ras association (RalGDS/AF-6) domain family	224	Glu-rich.				signal transduction						0	Colorectal(261;0.0847)					TGAGGAGGAAGAATTCTGGGA	0.328													19	146	---	---	---	---	PASS	C	26217997	C	C	26217997	3	2	163	1	0	0	0	0	1	0	0	0	13092	943	33	2	676	2	RASSF8	12	26217997	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	7328768	26217997	107633898	875	58210										
TM7SF3	51768	broad.mit.edu	37	chr12	27135731	27135731	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttccagaatctgtgtccaaaGaaacaaatgaagaaaccaag	7	8	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:27135731G>C	uc010sjl.1	-	7	1168	c.930C>G	c.(928-930)TTC>TTG	p.F310L		NM_016551	NP_057635	Q9NS93	TM7S3_HUMAN	transmembrane 7 superfamily member 3 precursor	310	Phe-rich.|Helical; (Potential).					integral to membrane|plasma membrane				upper_aerodigestive_tract(2)	2	Colorectal(261;0.0847)					TGTGTCCAAAGAAACAAATGA	0.368													7	40	---	---	---	---	PASS	C	27135731	C	C	27135731	3	2	163	1	0	0	0	0	1	0	0	0	15972	933	33	2	806	2	TM7SF3	12	27135731	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	917734	27135731	106716164	876	58211										
OVCH1	341350	broad.mit.edu	37	chr12	29639178	29639178	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttctctaattagaaccacaCataccctttcctctctggct	3	15	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:29639178C>G	uc001rix.1	-	8	995	c.995_splice	c.e8+1	p.I332_splice		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor						proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					TAGAACCACACATACCCTTTC	0.428													19	128	---	---	---	---	PASS	G	29639178	G	G	29639178	5	3	163	1	0	0	0	0	0	0	1	0	11323	492	17	4	2492	4	OVCH1	12	29639178	Splice_Site	SNP	C	TCGA-66-2785-01A-01D-1522-08	2503447	29639178	104212717	877	58212										
PKP2	5318	broad.mit.edu	37	chr12	32945394	32945394	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggtaggctttggcagtccgGctgttgacaaaatctgtctt	12	8	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:32945394G>T	uc001rlj.3	-	14	2725	c.2610C>A	c.(2608-2610)AGC>AGA	p.S870R	PKP2_uc001rlk.3_Missense_Mutation_p.S826R|PKP2_uc010skj.1_Missense_Mutation_p.S823R	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	870					cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					TGGCAGTCCGGCTGTTGACAA	0.398													43	123	---	---	---	---	PASS	T	32945394	T	T	32945394	3	4	163	1	0	0	0	0	1	0	0	0	11985	1194	42	3	39	3	PKP2	12	32945394	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3306216	32945394	100906501	878	58213										
SLC2A13	114134	broad.mit.edu	37	chr12	40158639	40158639	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caaaatatatcttctgttttGaacttggtttcattttcaca	4	7	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:40158639G>C	uc010skm.1	-	8	1518	c.1467C>G	c.(1465-1467)TTC>TTG	p.F489L	C12orf40_uc009zjv.1_Intron	NM_052885	NP_443117	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose	489	Extracellular (Potential).					integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)				CTTCTGTTTTGAACTTGGTTT	0.328										HNSCC(50;0.14)			9	90	---	---	---	---	PASS	C	40158639	C	C	40158639	3	2	163	1	0	0	0	0	1	0	0	0	14542	1281	45	2	491	2	SLC2A13	12	40158639	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	7213245	40158639	93693256	879	58214										
LRRK2	120892	broad.mit.edu	37	chr12	40637414	40637414	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ataatattgtggtggaagctAtgaaagcattccctatgagt	10	5	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:40637414A>G	uc001rmg.3	+	7	890	c.769A>G	c.(769-771)ATG>GTG	p.M257V		NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	257					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)				GGTGGAAGCTATGAAAGCATT	0.363													39	219	---	---	---	---	PASS	G	40637414	G	G	40637414	3	3	163	1	0	0	0	0	1	0	0	0	9033	449	16	5	795	5	LRRK2	12	40637414	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	478775	40637414	93214481	880	58215										
PUS7L	83448	broad.mit.edu	37	chr12	44148331	44148331	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtggacagcttttctgtggtCtttgtttgtatcaggtttaa	11	5	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:44148331C>A	uc001rnq.3	-	2	1207	c.718G>T	c.(718-720)GAC>TAC	p.D240Y	PUS7L_uc001rnr.3_Missense_Mutation_p.D240Y|PUS7L_uc001rns.3_Missense_Mutation_p.D240Y|PUS7L_uc009zkb.2_Intron	NM_001098615	NP_001092085	Q9H0K6	PUS7L_HUMAN	pseudouridylate synthase 7 homolog (S.	240					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)		TTTCTGTGGTCTTTGTTTGTA	0.328													32	187	---	---	---	---	PASS	A	44148331	A	A	44148331	3	1	163	1	0	0	0	0	1	0	0	0	12834	913	32	2	1419	2	PUS7L	12	44148331	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3510917	44148331	89703564	881	58216										
NELL2	4753	broad.mit.edu	37	chr12	44913929	44913929	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caagggtctgtgacacagcgCgggcagcactcattctctgg	13	12	3	1	rs139052675	by1000genomes	TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:44913929C>A	uc001rog.2	-	19	2854	c.2259G>T	c.(2257-2259)CCG>CCT	p.P753P	NELL2_uc001rof.3_Silent_p.P752P|NELL2_uc001roh.2_Silent_p.P753P|NELL2_uc009zkd.2_Silent_p.P705P|NELL2_uc010skz.1_Silent_p.P803P|NELL2_uc010sla.1_Silent_p.P776P	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	753	VWFC 4.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		TGACACAGCGCGGGCAGCACT	0.537													6	52	---	---	---	---	PASS	A	44913929	A	A	44913929	2	1	163	1	0	0	0	0	0	0	0	1	10334	755	27	1		1	NELL2	12	44913929	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	765598	44913929	88937966	882	58217										
ANO6	196527	broad.mit.edu	37	chr12	45744461	45744461	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgcaaattccgccgtcagtCagaggatcccagctgcccta	10	14	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:45744461C>G	uc001roo.2	+	7	1102	c.767C>G	c.(766-768)TCA>TGA	p.S256*	ANO6_uc010sld.1_Nonsense_Mutation_p.S256*|ANO6_uc010sle.1_Nonsense_Mutation_p.S256*|ANO6_uc010slf.1_Nonsense_Mutation_p.S277*|ANO6_uc010slg.1_Nonsense_Mutation_p.S238*	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	256	Cytoplasmic (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						CGCCGTCAGTCAGAGGATCCC	0.443													7	46	---	---	---	---	PASS	G	45744461	G	G	45744461	4	3	163	1	0	0	0	0	0	1	0	0	701	838	29	2	813	2	ANO6	12	45744461	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	830532	45744461	88107434	883	58218										
ARID2	196528	broad.mit.edu	37	chr12	46231199	46231199	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatagatttttaaagatgagAggtgagttttcactgaagta	11	2	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:46231199A>C	uc001ros.1	+	9	1119	c.1119A>C	c.(1117-1119)AGA>AGC	p.R373S	ARID2_uc001ror.2_Missense_Mutation_p.R373S|ARID2_uc009zkg.1_5'UTR|ARID2_uc009zkh.1_Missense_Mutation_p.R19S|ARID2_uc001rot.1_Missense_Mutation_p.R19S	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	373					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TAAAGATGAGAGGTGAGTTTT	0.308													65	137	---	---	---	---	PASS	C	46231199	C	C	46231199	3	2	163	1	0	0	0	0	1	0	0	0	915	318	11	5	1153	5	ARID2	12	46231199	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	486738	46231199	87620696	884	58219										
FAM113B	91523	broad.mit.edu	37	chr12	47629398	47629398	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgcccaagctccggcggcaGaaggccaccttcctgaaaaa	10	16	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:47629398G>C	uc001rpn.2	+	4	1283	c.552G>C	c.(550-552)CAG>CAC	p.Q184H	FAM113B_uc010slj.1_Missense_Mutation_p.Q64H|FAM113B_uc001rpq.2_Missense_Mutation_p.Q184H	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	184							hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					TCCGGCGGCAGAAGGCCACCT	0.582													3	54	---	---	---	---	PASS	C	47629398	C	C	47629398	3	2	163	1	0	0	0	0	1	0	0	0	5402	933	33	2	554	2	FAM113B	12	47629398	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1398199	47629398	86222497	885	58220										
WNT1	7471	broad.mit.edu	37	chr12	49375060	49375060	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgtgctgcgcgaccgcttCgacggcgcctcgcgcgtcct	14	16	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:49375060C>A	uc001rsu.2	+	4	948	c.750C>A	c.(748-750)TTC>TTA	p.F250L		NM_005430	NP_005421	P04628	WNT1_HUMAN	wingless-type MMTV integration site family,	250					brain segmentation|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|central nervous system morphogenesis|cerebellum formation|dermatome development|diencephalon development|embryonic axis specification|forebrain anterior/posterior pattern formation|fourth ventricle development|hemopoietic stem cell proliferation|hepatocyte differentiation|inner ear morphogenesis|mesoderm morphogenesis|midbrain development|midbrain-hindbrain boundary maturation during brain development|negative regulation of cell-cell adhesion|negative regulation of cell-substrate adhesion|negative regulation of DNA damage checkpoint|negative regulation of fat cell differentiation|neuron fate determination|positive regulation of fibroblast proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of lamellipodium assembly|positive regulation of Notch signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to wounding|signal transduction in response to DNA damage|Spemann organizer formation|T cell differentiation in thymus|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled-2 binding|transcription regulatory region DNA binding			kidney(1)	1				BRCA - Breast invasive adenocarcinoma(357;0.244)		GCGACCGCTTCGACGGCGCCT	0.726													3	11	---	---	---	---	PASS	A	49375060	A	A	49375060	3	1	163	1	0	0	0	0	1	0	0	0	17378	883	31	2	764	2	WNT1	12	49375060	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1745662	49375060	84476835	886	58221										
AQP6	363	broad.mit.edu	37	chr12	50368169	50368169	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgcttctgaccctgcagctGgtgctctgtgtcttcgcttc	10	14	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:50368169G>A	uc001rvr.1	+	2	802	c.465G>A	c.(463-465)CTG>CTA	p.L155L	AQP6_uc001rvp.1_5'UTR|AQP6_uc001rvq.1_RNA	NM_001652	NP_001643	Q13520	AQP6_HUMAN	aquaporin 6	155	Helical; (Potential).				excretion|odontogenesis	integral to plasma membrane|transport vesicle membrane	anion channel activity|water channel activity				0						CCCTGCAGCTGGTGCTCTGTG	0.617											OREG0021809	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	66	---	---	---	---	PASS	A	50368169	A	A	50368169	2	1	163	1	0	0	0	0	0	0	0	1	830	1335	47	3		3	AQP6	12	50368169	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	993109	50368169	83483726	887	58222										
AQP6	363	broad.mit.edu	37	chr12	50369453	50369453	+	Nonstop_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgtggagatggagagtgtgtGaaacagcctacgcctggccg	16	9	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:50369453G>C	uc001rvr.1	+	4	1185	c.848G>C	c.(847-849)TGA>TCA	p.*283S	AQP6_uc001rvp.1_Nonstop_Mutation_p.*109S|AQP6_uc001rvq.1_RNA	NM_001652	NP_001643	Q13520	AQP6_HUMAN	aquaporin 6	283					excretion|odontogenesis	integral to plasma membrane|transport vesicle membrane	anion channel activity|water channel activity				0						GAGAGTGTGTGAAACAGCCTA	0.672													3	20	---	---	---	---	PASS	C	50369453	C	C	50369453	4	2	163	1	0	0	0	0	0	0	0	0	830	1285	45	2	862	2	AQP6	12	50369453	Nonstop_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1284	50369453	83482442	888	58223										
METTL7A	25840	broad.mit.edu	37	chr12	51319290	51319290	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaagaaccaggagcggattCtccgcgaggtgtgcagagtg	16	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:51319290C>T	uc001rxb.2	+	1	757	c.469C>T	c.(469-471)CTC>TTC	p.L157F	METTL7A_uc010smv.1_Intron	NM_014033	NP_054752	Q9H8H3	MET7A_HUMAN	methyltransferase like 7A precursor	157						endoplasmic reticulum|lipid particle|membrane	methyltransferase activity				0						GGAGCGGATTCTCCGCGAGGT	0.562													9	45	---	---	---	---	PASS	T	51319290	T	T	51319290	3	4	163	1	0	0	0	0	1	0	0	0	9505	913	32	2	471	2	METTL7A	12	51319290	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	949837	51319290	82532605	889	58224										
TFCP2	7024	broad.mit.edu	37	chr12	51495742	51495742	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttttaatgcattaaaaagtCtgattccatctgcagggcca	7	9	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:51495742C>G	uc001rxw.2	-	11	1586	c.1127G>C	c.(1126-1128)AGA>ACA	p.R376T	TFCP2_uc001rxv.1_Missense_Mutation_p.R376T|TFCP2_uc009zlx.1_Missense_Mutation_p.R325T|TFCP2_uc001rxx.2_Intron|TFCP2_uc009zly.1_Missense_Mutation_p.R278T	NM_005653	NP_005644	Q12800	TFCP2_HUMAN	transcription factor CP2	376	DNA-binding.				regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ATTAAAAAGTCTGATTCCATC	0.343													18	151	---	---	---	---	PASS	G	51495742	G	G	51495742	3	3	163	1	0	0	0	0	1	0	0	0	15792	913	32	2	401	2	TFCP2	12	51495742	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	176452	51495742	82356153	890	58225										
KRT77	374454	broad.mit.edu	37	chr12	53086361	53086361	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtcctgcagcttctgccacGcatcctggagggcctgctcg	13	15	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:53086361G>T	uc001saw.2	-	7	1300	c.1271C>A	c.(1270-1272)GCG>GAG	p.A424E	KRT77_uc009zmi.2_Missense_Mutation_p.A182E	NM_175078	NP_778253	Q7Z794	K2C1B_HUMAN	keratin 77	424	Rod.|Coil 2.					keratin filament	structural molecule activity			ovary(1)	1						CTTCTGCCACGCATCCTGGAG	0.592													25	56	---	---	---	---	PASS	T	53086361	T	T	53086361	3	4	163	1	0	0	0	0	1	0	0	0	8490	1087	38	1	477	1	KRT77	12	53086361	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1590619	53086361	80765534	891	58226										
MAP3K12	7786	broad.mit.edu	37	chr12	53879117	53879117	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcaccagatgtcgaccttctCagacacaggttcattgcgga	9	12	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:53879117C>G	uc001sdm.1	-	6	963	c.865G>C	c.(865-867)GAG>CAG	p.E289Q	MAP3K12_uc001sdn.1_Missense_Mutation_p.E322Q	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	289	Protein kinase.				histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						TCGACCTTCTCAGACACAGGT	0.552													7	283	---	---	---	---	PASS	G	53879117	G	G	53879117	3	3	163	1	0	0	0	0	1	0	0	0	9246	835	29	2	1754	2	MAP3K12	12	53879117	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	792756	53879117	79972778	892	58227										
HOXC10	3226	broad.mit.edu	37	chr12	54379177	54379177	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttcaattgcggggtgatgaGgggctgcgggctcgcgccct	17	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:54379177G>A	uc001sen.2	+	1	232	c.134G>A	c.(133-135)AGG>AAG	p.R45K		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	45					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						GGGGTGATGAGGGGCTGCGGG	0.662													14	89	---	---	---	---	PASS	A	54379177	A	A	54379177	3	1	163	1	0	0	0	0	1	0	0	0	7309	1000	35	3	136	3	HOXC10	12	54379177	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	500060	54379177	79472718	893	58228										
ANKRD52	283373	broad.mit.edu	37	chr12	56637078	56637078	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctgaagctgaaaggactgaCggcgtccttgggtgggaaag	17	7	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:56637078C>T	uc001skm.3	-	28	3169	c.3079G>A	c.(3079-3081)GTC>ATC	p.V1027I		NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	1027							protein binding			ovary(2)	2						AAAGGACTGACGGCGTCCTTG	0.627													10	33	---	---	---	---	PASS	T	56637078	T	T	56637078	3	4	163	1	0	0	0	0	1	0	0	0	678	536	19	1	155	1	ANKRD52	12	56637078	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2257901	56637078	77214817	894	58229										
STAT6	6778	broad.mit.edu	37	chr12	57490445	57490445	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcaggaggggctgtgccccCaaggaccctccccccgactc	12	18	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:57490445C>G	uc009zpe.2	-	22	2705	c.2454G>C	c.(2452-2454)TTG>TTC	p.L818F	STAT6_uc009zpf.2_Missense_Mutation_p.L818F|STAT6_uc001sna.2_Missense_Mutation_p.L818F|STAT6_uc010srb.1_Missense_Mutation_p.L708F|STAT6_uc010src.1_Missense_Mutation_p.L708F|STAT6_uc010srd.1_Missense_Mutation_p.L708F|STAT6_uc009zpg.2_Missense_Mutation_p.L867F	NM_003153	NP_003144	P42226	STAT6_HUMAN	signal transducer and activator of transcription	818					regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(2)|lung(1)|skin(1)	4						GCTGTGCCCCCAAGGACCCTC	0.607													13	88	---	---	---	---	PASS	G	57490445	G	G	57490445	3	3	163	1	0	0	0	0	1	0	0	0	15269	593	21	4	93	4	STAT6	12	57490445	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	853367	57490445	76361450	895	58230										
GLI1	2735	broad.mit.edu	37	chr12	57857804	57857804	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgtctggcccgcccttctgCcaccaagctaacctcatgtc	7	18	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:57857804C>A	uc001snx.2	+	3	201	c.123C>A	c.(121-123)TGC>TGA	p.C41*	GLI1_uc009zpp.2_RNA|GLI1_uc009zpq.2_Intron|GLI1_uc009zpr.1_Intron	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	41					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			CGCCCTTCTGCCACCAAGCTA	0.552													43	288	---	---	---	---	PASS	A	57857804	A	A	57857804	4	1	163	1	0	0	0	0	0	1	0	0	6437	747	26	3	129	3	GLI1	12	57857804	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	367359	57857804	75994091	896	58231										
AGAP2	116986	broad.mit.edu	37	chr12	58127952	58127952	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcacagcatctgcccagcctGagaacttgcggggagtgagg	14	11	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:58127952G>A	uc001spq.2	-	5	1406	c.1406C>T	c.(1405-1407)TCA>TTA	p.S469L	AGAP2_uc001spp.2_Missense_Mutation_p.S469L|AGAP2_uc001spr.2_Missense_Mutation_p.S133L	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	469	G domain.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						TGCCCAGCCTGAGAACTTGCG	0.562													8	58	---	---	---	---	PASS	A	58127952	A	A	58127952	3	1	163	1	0	0	0	0	1	0	0	0	368	1294	45	2	2232	2	AGAP2	12	58127952	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	270148	58127952	75723943	897	58232										
USP15	9958	broad.mit.edu	37	chr12	62790074	62790074	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttggtttcttttttaaacaGtgacttggatatgtcggaat	9	5	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:62790074G>A	uc001src.1	+	20	2580	c.2571_splice	c.e20-1	p.N857_splice	USP15_uc001srb.1_Splice_Site_p.N828_splice	NM_006313	NP_006304	Q9Y4E8	UBP15_HUMAN	ubiquitin specific peptidase 15						protein deubiquitination|ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)	3			GBM - Glioblastoma multiforme(1;0.000276)	GBM - Glioblastoma multiforme(28;0.0622)		TTTTTAAACAGTGACTTGGAT	0.348													38	94	---	---	---	---	PASS	A	62790074	A	A	62790074	5	1	163	1	0	0	0	0	0	0	1	0	17043	1043	36	3	2557	3	USP15	12	62790074	Splice_Site	SNP	G	TCGA-66-2785-01A-01D-1522-08	4662122	62790074	71061821	898	58233										
MON2	23041	broad.mit.edu	37	chr12	62931381	62931381	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtatcctttttaaaatataGctgacttccaaaaatatcca	3	8	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:62931381G>T	uc001sre.2	+	16	2405	c.2014_splice	c.e16-1	p.L672_splice	MON2_uc009zqj.2_Splice_Site_p.L672_splice|MON2_uc010ssl.1_Splice_Site_p.L600_splice|MON2_uc010ssm.1_Splice_Site_p.L649_splice|MON2_uc010ssn.1_Splice_Site_p.L672_splice|MON2_uc001srf.2_Splice_Site_p.L435_splice	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog						Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		TTAAAATATAGCTGACTTCCA	0.308													45	128	---	---	---	---	PASS	T	62931381	T	T	62931381	5	4	163	1	0	0	0	0	0	0	1	0	9700	985	34	3	2075	3	MON2	12	62931381	Splice_Site	SNP	G	TCGA-66-2785-01A-01D-1522-08	141307	62931381	70920514	899	58234										
C12orf66	144577	broad.mit.edu	37	chr12	64587969	64587969	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctgtaggaatgggggtggtGataaccatgaccctgaaaac	13	7	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:64587969G>C	uc001srw.3	-	3	1050	c.991C>G	c.(991-993)CAC>GAC	p.H331D	C12orf66_uc009zql.2_Missense_Mutation_p.H278D	NM_152440	NP_689653	Q96MD2	CL066_HUMAN	hypothetical protein LOC144577	331										ovary(1)	1						TGGGGGTGGTGATAACCATGA	0.488													41	191	---	---	---	---	PASS	C	64587969	C	C	64587969	3	2	163	1	0	0	0	0	1	0	0	0	1709	1290	45	2	350	2	C12orf66	12	64587969	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1656588	64587969	69263926	900	58235										
GNS	2799	broad.mit.edu	37	chr12	65113896	65113896	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctttcctaaaagctctgggtCtatggttttagcaatgttag	9	7	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:65113896C>G	uc001ssg.3	-	13	1656	c.1486G>C	c.(1486-1488)GAC>CAC	p.D496H	GNS_uc001ssf.2_Missense_Mutation_p.D440H|GNS_uc010ssq.1_Missense_Mutation_p.D528H|GNS_uc010ssr.1_Missense_Mutation_p.D476H	NM_002076	NP_002067	P15586	GNS_HUMAN	glucosamine (N-acetyl)-6-sulfatase precursor	496						lysosome	metal ion binding|N-acetylglucosamine-6-sulfatase activity|protein binding			central_nervous_system(1)	1	Lung NSC(1;7.25e-14)|all_lung(1;1.25e-12)		LUAD - Lung adenocarcinoma(6;0.115)	GBM - Glioblastoma multiforme(28;0.0435)		AGCTCTGGGTCTATGGTTTTA	0.443													70	450	---	---	---	---	PASS	G	65113896	G	G	65113896	3	3	163	1	0	0	0	0	1	0	0	0	6550	913	32	2	180	2	GNS	12	65113896	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	525927	65113896	68737999	901	58236										
GRIP1	23426	broad.mit.edu	37	chr12	66849292	66849292	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtccccatgttcagggaactCaggctgtatgcactcatgga	11	11	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:66849292C>G	uc001stk.2	-	10	1336	c.1095G>C	c.(1093-1095)CTG>CTC	p.L365L	GRIP1_uc010sta.1_Silent_p.L309L|GRIP1_uc001stj.2_Silent_p.L147L|GRIP1_uc001stl.1_Intron|GRIP1_uc001stm.2_Silent_p.L365L	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	417					androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		TCAGGGAACTCAGGCTGTATG	0.512													28	138	---	---	---	---	PASS	G	66849292	G	G	66849292	2	3	163	1	0	0	0	0	0	0	0	1	6787	813	29	2		2	GRIP1	12	66849292	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1735396	66849292	67002603	902	58237										
DYRK2	8445	broad.mit.edu	37	chr12	68051554	68051554	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aatgtcatccatatgctggaGaatttcaccttccgcaacca	6	12	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:68051554G>A	uc001str.3	+	3	1269	c.867G>A	c.(865-867)GAG>GAA	p.E289E	DYRK2_uc001sts.3_Silent_p.E216E	NM_006482	NP_006473	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	289	Protein kinase.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|positive regulation of glycogen biosynthetic process|smoothened signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|manganese ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(1)|central_nervous_system(1)	4			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		ATATGCTGGAGAATTTCACCT	0.498													43	291	---	---	---	---	PASS	A	68051554	A	A	68051554	2	1	163	1	0	0	0	0	0	0	0	1	4856	933	33	2		2	DYRK2	12	68051554	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1202262	68051554	65800341	903	58238										
ZFC3H1	196441	broad.mit.edu	37	chr12	72025649	72025649	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actttgtgctgtgacaaaatCcacatctacagaaatctcct	5	11	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:72025649C>T	uc001swo.2	-	16	3738	c.3379G>A	c.(3379-3381)GAT>AAT	p.D1127N		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	1127					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						GTGACAAAATCCACATCTACA	0.343													24	154	---	---	---	---	PASS	T	72025649	T	T	72025649	3	4	163	1	0	0	0	0	1	0	0	0	17630	855	30	2	2670	2	ZFC3H1	12	72025649	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3974095	72025649	61826246	904	58239										
NAV3	89795	broad.mit.edu	37	chr12	78598824	78598824	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccagccttacttcagctgcGaccagaagatgttgggtatg	11	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:78598824G>T	uc001syp.2	+	39	7117	c.6944G>T	c.(6943-6945)CGA>CTA	p.R2315L	NAV3_uc001syo.2_Missense_Mutation_p.R2293L|NAV3_uc010sub.1_Missense_Mutation_p.R1772L|NAV3_uc009zsf.2_Missense_Mutation_p.R1124L	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2315						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CTTCAGCTGCGACCAGAAGAT	0.507										HNSCC(70;0.22)			18	43	---	---	---	---	PASS	T	78598824	T	T	78598824	3	4	163	1	0	0	0	0	1	0	0	0	10185	1058	37	2	7028	2	NAV3	12	78598824	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	6573175	78598824	55253071	905	58240										
PPFIA2	8499	broad.mit.edu	37	chr12	81675037	81675037	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaaaagaaaaaacacctaccGatggaaactatccaccattt	4	10	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:81675037G>A	uc001szo.1	-	27	3372	c.3211C>T	c.(3211-3213)CGA>TGA	p.R1071*	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	970										ovary(3)|lung(2)|pancreas(1)	6						AACACCTACCGATGGAAACTA	0.313													15	33	---	---	---	---	PASS	A	81675037	A	A	81675037	4	1	163	1	0	0	0	0	0	1	0	0	12310	1072	37	2	586	2	PPFIA2	12	81675037	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3076213	81675037	52176858	906	58241										
LRRIQ1	84125	broad.mit.edu	37	chr12	85441104	85441104	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaggcttggcaagagaaacaGaaggaattagaagataaaga	13	3	0	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:85441104G>A	uc001tac.2	+	6	645	c.534G>A	c.(532-534)CAG>CAA	p.Q178Q	LRRIQ1_uc001tab.1_Silent_p.Q178Q|LRRIQ1_uc001taa.1_Silent_p.Q178Q|LRRIQ1_uc001tad.2_Silent_p.Q86Q	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	178	Glu-rich.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		AAGAGAAACAGAAGGAATTAG	0.353													18	117	---	---	---	---	PASS	A	85441104	A	A	85441104	2	1	163	1	0	0	0	0	0	0	0	1	9029	933	33	2		2	LRRIQ1	12	85441104	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	3766067	85441104	48410791	907	58242										
POC1B	282809	broad.mit.edu	37	chr12	89861417	89861417	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtgtctgcacctcctgatgCaaatagctctccaccttttg	7	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:89861417C>A	uc001tbc.2	-	8	961	c.856G>T	c.(856-858)GCA>TCA	p.A286S	POC1B_uc001tba.2_Missense_Mutation_p.A244S|POC1B_uc001tbb.2_Missense_Mutation_p.A156S|POC1B_uc010sun.1_RNA|POC1B_uc009zsp.2_RNA|POC1B_uc009zsq.2_RNA	NM_172240	NP_758440	Q8TC44	POC1B_HUMAN	WD repeat domain 51B	286	WD 7.				cell projection organization	centriole|microtubule basal body				ovary(1)	1						CCTCCTGATGCAAATAGCTCT	0.388													4	73	---	---	---	---	PASS	A	89861417	A	A	89861417	3	1	163	1	0	0	0	0	1	0	0	0	12176	710	25	3	600	3	POC1B	12	89861417	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4420313	89861417	43990478	908	58243										
LUM	4060	broad.mit.edu	37	chr12	91498030	91498030	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agatgcgattgccatccaaaCgcaaatgcttgatcttggag	10	9	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:91498030C>A	uc001tbm.2	-	3	1318	c.929G>T	c.(928-930)CGT>CTT	p.R310L	LUM_uc001tbn.2_RNA	NM_002345	NP_002336	P51884	LUM_HUMAN	lumican precursor	310	LRR 11.				collagen fibril organization|visual perception	extracellular space|fibrillar collagen	collagen binding|extracellular matrix structural constituent			central_nervous_system(2)	2						GCCATCCAAACGCAAATGCTT	0.373													22	122	---	---	---	---	PASS	A	91498030	A	A	91498030	3	1	163	1	0	0	0	0	1	0	0	0	9085	536	19	1	91	1	LUM	12	91498030	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1636613	91498030	42353865	909	58244										
MRPL42	28977	broad.mit.edu	37	chr12	93863109	93863109	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgtcaaagagaactatcttGaaacatttatttccagtcca	5	8	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:93863109G>C	uc001tcr.2	+	2	206	c.48G>C	c.(46-48)TTG>TTC	p.L16F	MRPL42_uc001tcq.2_Missense_Mutation_p.E10Q|MRPL42_uc001tcs.2_Missense_Mutation_p.L16F|MRPL42_uc001tct.2_RNA	NM_172177	NP_751917	Q9Y6G3	RM42_HUMAN	mitochondrial ribosomal protein L42 isoform a	16					translation	mitochondrial small ribosomal subunit	structural constituent of ribosome			ovary(2)	2						GAACTATCTTGAAACATTTAT	0.254													17	84	---	---	---	---	PASS	C	93863109	C	C	93863109	3	2	163	1	0	0	0	0	1	0	0	0	9806	1291	45	2	50	2	MRPL42	12	93863109	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2365079	93863109	39988786	910	58245										
TMCC3	57458	broad.mit.edu	37	chr12	94976028	94976028	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctgggcgatggagtgagctGatttctgattcttcttctca	12	8	4	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:94976028G>A	uc001tdj.2	-	2	483	c.365C>T	c.(364-366)TCA>TTA	p.S122L	TMCC3_uc001tdi.2_Missense_Mutation_p.S91L	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	122	Potential.					integral to membrane				ovary(1)|skin(1)	2						GGAGTGAGCTGATTTCTGATT	0.488													31	167	---	---	---	---	PASS	A	94976028	A	A	94976028	3	1	163	1	0	0	0	0	1	0	0	0	15991	1294	45	2	1080	2	TMCC3	12	94976028	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1112919	94976028	38875867	911	58246										
VEZT	55591	broad.mit.edu	37	chr12	95676299	95676299	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgagttctatcggtactttGaaactcagcaccagtcagta	8	9	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:95676299G>A	uc001tdz.2	+	8	1312	c.1207G>A	c.(1207-1209)GAA>AAA	p.E403K	VEZT_uc009ztb.1_RNA|VEZT_uc009ztc.1_Intron|VEZT_uc001tdy.2_RNA	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	403						acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						TCGGTACTTTGAAACTCAGCA	0.453													92	234	---	---	---	---	PASS	A	95676299	A	A	95676299	3	1	163	1	0	0	0	0	1	0	0	0	17153	1291	45	2	1237	2	VEZT	12	95676299	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	700271	95676299	38175596	912	58247										
DEPDC4	120863	broad.mit.edu	37	chr12	100656172	100656172	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtgctagaggatttgaaatCatttcatatcctggtctgtt	9	6	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:100656172C>T	uc001thi.2	-	3	573	c.570G>A	c.(568-570)ATG>ATA	p.M190I	DEPDC4_uc001thh.1_RNA|DEPDC4_uc001thj.1_Missense_Mutation_p.M123I|DEPDC4_uc009ztv.1_Missense_Mutation_p.M190I|DEPDC4_uc001thk.1_Missense_Mutation_p.M1I|DEPDC4_uc001thl.1_RNA	NM_152317	NP_689530	Q8N2C3	DEPD4_HUMAN	DEP domain containing 4	190					intracellular signal transduction						0						GATTTGAAATCATTTCATATC	0.279													5	157	---	---	---	---	PASS	T	100656172	T	T	100656172	3	4	163	1	0	0	0	0	1	0	0	0	4441	826	29	2	326	2	DEPDC4	12	100656172	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4979873	100656172	33195723	913	58248										
UTP20	27340	broad.mit.edu	37	chr12	101721006	101721006	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttagacctgctgtttgaaccTgtgaggcatttcaagaatgg	11	7	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:101721006T>A	uc001tia.1	+	26	3345	c.3189T>A	c.(3187-3189)CCT>CCA	p.P1063P		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1063					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TGTTTGAACCTGTGAGGCATT	0.512													81	213	---	---	---	---	PASS	A	101721006	A	A	101721006	2	1	163	1	0	0	0	0	0	0	0	1	17096	1567	55	5		5	UTP20	12	101721006	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	1064834	101721006	32130889	914	58249										
STAB2	55576	broad.mit.edu	37	chr12	104134505	104134505	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatacagatccccaggtgctGcaagggctacttcgggcgag	14	11	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:104134505G>A	uc001tjw.2	+	55	6038	c.5852G>A	c.(5851-5853)TGC>TAC	p.C1951Y	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1951	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CCCAGGTGCTGCAAGGGCTAC	0.567													32	153	---	---	---	---	PASS	A	104134505	A	A	104134505	3	1	163	1	0	0	0	0	1	0	0	0	15237	1319	46	3	6070	3	STAB2	12	104134505	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2413499	104134505	29717390	915	58250										
HSP90B1	7184	broad.mit.edu	37	chr12	104331551	104331551	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtcaaaaaatattcacagttCataaactttcctatttatgt	3	7	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:104331551C>G	uc001tkb.1	+	6	927	c.822C>G	c.(820-822)TTC>TTG	p.F274L	HSP90B1_uc010swg.1_Intron|HSP90B1_uc009zui.1_Missense_Mutation_p.F274L	NM_003299	NP_003290	P14625	ENPL_HUMAN	heat shock protein 90kDa beta, member 1	274					actin rod assembly|anti-apoptosis|cellular response to ATP|ER-associated protein catabolic process|protein folding|protein transport|regulation of phosphoprotein phosphatase activity|response to hypoxia|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|melanosome|microsome|midbody|perinuclear region of cytoplasm	ATP binding|calcium ion binding|low-density lipoprotein particle receptor binding|protein phosphatase binding|RNA binding|unfolded protein binding|virion binding			ovary(2)|skin(1)	3					Rifabutin(DB00615)	ATTCACAGTTCATAAACTTTC	0.284													5	44	---	---	---	---	PASS	G	104331551	G	G	104331551	3	3	163	1	0	0	0	0	1	0	0	0	7403	825	29	2	844	2	HSP90B1	12	104331551	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	197046	104331551	29520344	916	58251										
APPL2	55198	broad.mit.edu	37	chr12	105583854	105583854	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccaggcgcgatcagctcctCtgcttcaggtagactggctg	12	13	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:105583854C>G	uc001tlf.1	-	15	1539	c.1321G>C	c.(1321-1323)GAG>CAG	p.E441Q	APPL2_uc010swt.1_Missense_Mutation_p.E398Q|APPL2_uc001tlg.1_Missense_Mutation_p.E195Q|APPL2_uc010swu.1_Missense_Mutation_p.E447Q|APPL2_uc009zuq.2_Missense_Mutation_p.E398Q	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH	441					cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1						ATCAGCTCCTCTGCTTCAGGT	0.453													21	116	---	---	---	---	PASS	G	105583854	G	G	105583854	3	3	163	1	0	0	0	0	1	0	0	0	818	922	32	2	701	2	APPL2	12	105583854	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1252303	105583854	28268041	917	58252										
RIC8B	55188	broad.mit.edu	37	chr12	107208966	107208966	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcaagtggaccgatgagtatGaatcggccatagaccataat	10	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:107208966G>C	uc001tlx.2	+	3	750	c.625G>C	c.(625-627)GAA>CAA	p.E209Q	RIC8B_uc001tlw.2_Missense_Mutation_p.E209Q|RIC8B_uc001tly.2_Missense_Mutation_p.E169Q|RIC8B_uc001tlz.2_RNA	NM_018157	NP_060627	Q9NVN3	RIC8B_HUMAN	resistance to inhibitors of cholinesterase 8	209					regulation of G-protein coupled receptor protein signaling pathway	cell cortex|cytosol|plasma membrane	G-protein alpha-subunit binding|guanyl-nucleotide exchange factor activity			ovary(1)	1						CGATGAGTATGAATCGGCCAT	0.512													38	172	---	---	---	---	PASS	C	107208966	C	C	107208966	3	2	163	1	0	0	0	0	1	0	0	0	13356	1291	45	2	635	2	RIC8B	12	107208966	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1625112	107208966	26642929	918	58253										
USP30	84749	broad.mit.edu	37	chr12	109510129	109510129	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcagcagtcagaaataactcCcaaacaaattacctgccgca	6	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:109510129C>G	uc010sxi.1	+	6	703	c.599C>G	c.(598-600)CCC>CGC	p.P200R	USP30_uc001tnu.3_Missense_Mutation_p.P169R	NM_032663	NP_116052	Q70CQ3	UBP30_HUMAN	ubiquitin specific peptidase 30	200	Cytoplasmic (Potential).				ubiquitin-dependent protein catabolic process	integral to membrane|mitochondrial outer membrane	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(1)	1						GAAATAACTCCCAAACAAATT	0.368													17	99	---	---	---	---	PASS	G	109510129	G	G	109510129	3	3	163	1	0	0	0	0	1	0	0	0	17058	623	22	4	621	4	USP30	12	109510129	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2301163	109510129	24341766	919	58254										
TRPV4	59341	broad.mit.edu	37	chr12	110252356	110252356	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtggactccagcagatcgatGgggttgggcacccccttgcg	15	12	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:110252356G>A	uc001tpj.1	-	1	341	c.246C>T	c.(244-246)CCC>CCT	p.P82P	TRPV4_uc001tpg.1_Silent_p.P48P|TRPV4_uc001tph.1_Silent_p.P82P|TRPV4_uc001tpi.1_Silent_p.P82P|TRPV4_uc001tpk.1_Silent_p.P82P|TRPV4_uc001tpl.1_Silent_p.P82P	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	82	Cytoplasmic (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						GCAGATCGATGGGGTTGGGCA	0.622													5	73	---	---	---	---	PASS	A	110252356	A	A	110252356	2	1	163	1	0	0	0	0	0	0	0	1	16595	1335	47	3		3	TRPV4	12	110252356	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	742227	110252356	23599539	920	58255										
IFT81	28981	broad.mit.edu	37	chr12	110643430	110643430	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcaacttcgtcgtgctactGatgagatgaaggcatatatc	9	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:110643430G>C	uc001tqi.2	+	17	1877	c.1747G>C	c.(1747-1749)GAT>CAT	p.D583H	IFT81_uc001tqh.2_Missense_Mutation_p.D583H|IFT81_uc001tqj.2_RNA	NM_001143779	NP_001137251	Q8WYA0	IFT81_HUMAN	intraflagellar transport 81-like isoform 1	583	Potential.				cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1						TCGTGCTACTGATGAGATGAA	0.313													44	265	---	---	---	---	PASS	C	110643430	C	C	110643430	3	2	163	1	0	0	0	0	1	0	0	0	7565	1290	45	2	1921	2	IFT81	12	110643430	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	391074	110643430	23208465	921	58256										
ACAD10	80724	broad.mit.edu	37	chr12	112143635	112143635	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgatgactgaggccataactCaaattcgggcaaaaggtctt	10	8	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:112143635C>G	uc001tsq.2	+	4	630	c.430C>G	c.(430-432)CAA>GAA	p.Q144E	ACAD10_uc009zvw.2_Missense_Mutation_p.Q144E|ACAD10_uc001tso.3_Missense_Mutation_p.Q144E|ACAD10_uc001tsp.2_Missense_Mutation_p.Q144E|ACAD10_uc009zvx.2_Missense_Mutation_p.Q144E	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	144							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						GGCCATAACTCAAATTCGGGC	0.453													7	138	---	---	---	---	PASS	G	112143635	G	G	112143635	3	3	163	1	0	0	0	0	1	0	0	0	108	827	29	2	440	2	ACAD10	12	112143635	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1500205	112143635	21708260	922	58257										
TBX5	6910	broad.mit.edu	37	chr12	114793393	114793393	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccgtgcacagagtggtactGatgaggggatagagtccttg	15	7	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:114793393G>C	uc001tvo.2	-	9	1996	c.1501C>G	c.(1501-1503)CAG>GAG	p.Q501E	TBX5_uc001tvp.2_Missense_Mutation_p.Q501E|TBX5_uc001tvq.2_Missense_Mutation_p.Q451E	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	501				PRTLSPHQYHSVHGVGMVPEWSDNS -> QGLYPLISTTLC TELAWCRVERQ (in Ref. 1; CAA70592).	cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		GAGTGGTACTGATGAGGGGAT	0.537													20	53	---	---	---	---	PASS	C	114793393	C	C	114793393	3	2	163	1	0	0	0	0	1	0	0	0	15658	1299	45	2	59	2	TBX5	12	114793393	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2649758	114793393	19058502	923	58258										
PXN	5829	broad.mit.edu	37	chr12	120652667	120652667	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagtagtagcagcgcggggaGaagaggttgtggtagtcctt	17	6	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:120652667G>C	uc001txt.2	-	9	1370	c.1239C>G	c.(1237-1239)TTC>TTG	p.F413L	PXN_uc001txu.2_Missense_Mutation_p.F225L|PXN_uc001txv.2_Missense_Mutation_p.F294L|PXN_uc001txx.2_Missense_Mutation_p.F246L|PXN_uc001txy.2_Missense_Mutation_p.F379L|PXN_uc001txz.2_RNA	NM_001080855	NP_001074324	P49023	PAXI_HUMAN	paxillin isoform 1	413	LIM zinc-binding 1.			F -> S (in Ref. 5; CAI46024).	cell junction assembly|cell-matrix adhesion|cellular response to reactive oxygen species|epidermal growth factor receptor signaling pathway|growth hormone receptor signaling pathway|muscle contraction|signal complex assembly	cytoplasm|focal adhesion|lamellipodium|microtubule associated complex	beta-catenin binding|vinculin binding|zinc ion binding			ovary(1)|breast(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AGCGCGGGGAGAAGAGGTTGT	0.607													12	66	---	---	---	---	PASS	C	120652667	C	C	120652667	3	2	163	1	0	0	0	0	1	0	0	0	12852	933	33	2	552	2	PXN	12	120652667	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5859274	120652667	13199228	924	58259										
PXN	5829	broad.mit.edu	37	chr12	120652718	120652718	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggctgtccatcccgctcgaaGaagttccgggatccgatctc	11	14	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:120652718G>C	uc001txt.2	-	9	1319	c.1188C>G	c.(1186-1188)TTC>TTG	p.F396L	PXN_uc001txu.2_Missense_Mutation_p.F208L|PXN_uc001txv.2_Missense_Mutation_p.F277L|PXN_uc001txx.2_Missense_Mutation_p.F229L|PXN_uc001txy.2_Missense_Mutation_p.F362L|PXN_uc001txz.2_RNA	NM_001080855	NP_001074324	P49023	PAXI_HUMAN	paxillin isoform 1	396	LIM zinc-binding 1.				cell junction assembly|cell-matrix adhesion|cellular response to reactive oxygen species|epidermal growth factor receptor signaling pathway|growth hormone receptor signaling pathway|muscle contraction|signal complex assembly	cytoplasm|focal adhesion|lamellipodium|microtubule associated complex	beta-catenin binding|vinculin binding|zinc ion binding			ovary(1)|breast(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CCCGCTCGAAGAAGTTCCGGG	0.592													5	54	---	---	---	---	PASS	C	120652718	C	C	120652718	3	2	163	1	0	0	0	0	1	0	0	0	12852	933	33	2	603	2	PXN	12	120652718	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	51	120652718	13199177	925	58260										
OASL	8638	broad.mit.edu	37	chr12	121465579	121465579	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gttagaagttcaagagcataGagagggggcagattggctct	15	5	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:121465579G>C	uc001tzj.1	-	4	705	c.699C>G	c.(697-699)CTC>CTG	p.L233L	OASL_uc001tzk.1_Intron	NM_003733	NP_003724	Q15646	OASL_HUMAN	2'-5'-oligoadenylate synthetase-like isoform a	233					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoplasm|nucleolus	ATP binding|DNA binding|double-stranded RNA binding|thyroid hormone receptor binding|transferase activity			skin(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CAAGAGCATAGAGAGGGGGCA	0.453													17	66	---	---	---	---	PASS	C	121465579	C	C	121465579	2	2	163	1	0	0	0	0	0	0	0	1	10802	929	33	2		2	OASL	12	121465579	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	812861	121465579	12386316	926	58261										
CLIP1	6249	broad.mit.edu	37	chr12	122803817	122803817	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atttgtttgcttggtgtcctCcaaggaggccagagtctcag	12	9	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:122803817C>A	uc001ucg.1	-	17	3434	c.3328G>T	c.(3328-3330)GAG>TAG	p.E1110*	CLIP1_uc001uch.1_Nonsense_Mutation_p.E1099*|CLIP1_uc001uci.1_Nonsense_Mutation_p.E1064*|CLIP1_uc001ucj.1_Nonsense_Mutation_p.E685*	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	1110	Potential.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		TTGGTGTCCTCCAAGGAGGCC	0.403													48	112	---	---	---	---	PASS	A	122803817	A	A	122803817	4	1	163	1	0	0	0	0	0	1	0	0	3532	864	30	2	1024	2	CLIP1	12	122803817	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1338238	122803817	11048078	927	58262										
RSRC2	65117	broad.mit.edu	37	chr12	122991435	122991435	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggtccttgtttccaaaattCaatttttcccatatttcagc	4	10	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:122991435C>T	uc001ucr.2	-	9	1217	c.1071G>A	c.(1069-1071)TTG>TTA	p.L357L	RSRC2_uc001uco.2_Silent_p.L126L|RSRC2_uc001ucp.2_Silent_p.L298L|RSRC2_uc001ucq.2_Silent_p.L125L|RSRC2_uc001ucs.2_Silent_p.L126L|RSRC2_uc001uct.2_Silent_p.L309L|RSRC2_uc001ucu.2_Silent_p.L358L	NM_023012	NP_075388	Q7L4I2	RSRC2_HUMAN	arginine/serine-rich coiled-coil 2 isoform a	357										ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.14e-05)|Epithelial(86;0.000183)|BRCA - Breast invasive adenocarcinoma(302;0.201)		TTCCAAAATTCAATTTTTCCC	0.313													17	151	---	---	---	---	PASS	T	122991435	T	T	122991435	2	4	163	1	0	0	0	0	0	0	0	1	13715	825	29	2		2	RSRC2	12	122991435	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	187618	122991435	10860460	928	58263										
SBNO1	55206	broad.mit.edu	37	chr12	123805125	123805125	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agcatcctgacttgttataaGgctactgttactgttggtgt	10	7	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:123805125G>A	uc010tap.1	-	18	2521	c.2521C>T	c.(2521-2523)CTT>TTT	p.L841F	SBNO1_uc010tao.1_Missense_Mutation_p.L840F|SBNO1_uc010taq.1_Intron	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	841							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		CTTGTTATAAGGCTACTGTTA	0.353													39	270	---	---	---	---	PASS	A	123805125	A	A	123805125	3	1	163	1	0	0	0	0	1	0	0	0	13862	1000	35	3	1716	3	SBNO1	12	123805125	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	813690	123805125	10046770	929	58264										
DNAH10	196385	broad.mit.edu	37	chr12	124297756	124297756	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctgcatagaatgcccacctCagaagggggaggaagaggaa	15	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:124297756C>T	uc001uft.3	+	19	2861	c.2836C>T	c.(2836-2838)CAG>TAG	p.Q946*	DNAH10_uc010tav.1_Nonsense_Mutation_p.Q488*|DNAH10_uc010taw.1_Nonsense_Mutation_p.Q431*	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	946	Stem (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)		ATGCCCACCTCAGAAGGGGGA	0.388													20	77	---	---	---	---	PASS	T	124297756	T	T	124297756	4	4	163	1	0	0	0	0	0	1	0	0	4598	827	29	2	2910	2	DNAH10	12	124297756	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	492631	124297756	9554139	930	58265										
DNAH10	196385	broad.mit.edu	37	chr12	124311323	124311323	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaaggttttctcagggctctCagaaagctacctcggccagt	11	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:124311323C>G	uc001uft.3	+	24	3940	c.3915C>G	c.(3913-3915)CTC>CTG	p.L1305L		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1305	Stem (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)		TCAGGGCTCTCAGAAAGCTAC	0.453													22	172	---	---	---	---	PASS	G	124311323	G	G	124311323	2	3	163	1	0	0	0	0	0	0	0	1	4598	813	29	2		2	DNAH10	12	124311323	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	13567	124311323	9540572	931	58266										
RIMBP2	23504	broad.mit.edu	37	chr12	130884263	130884263	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attggcgtatcttgagagtaGtgggatggagcatcagaaag	15	4	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:130884263G>A	uc001uil.2	-	18	3257	c.3093C>T	c.(3091-3093)CAC>CAT	p.H1031H		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	1031						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		CTTGAGAGTAGTGGGATGGAG	0.458													34	145	---	---	---	---	PASS	A	130884263	A	A	130884263	2	1	163	1	0	0	0	0	0	0	0	1	13363	1020	36	3		3	RIMBP2	12	130884263	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	6572940	130884263	2967632	932	58267										
RIMBP2	23504	broad.mit.edu	37	chr12	130926707	130926707	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccaccagcagcgtgcactgcAgctcatccgagctgcccctg	10	18	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:130926707A>T	uc001uil.2	-	8	1303	c.1139T>A	c.(1138-1140)CTG>CAG	p.L380Q	RIMBP2_uc001uim.2_Missense_Mutation_p.L288Q|RIMBP2_uc001uin.1_Missense_Mutation_p.L39Q	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	380						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		CGTGCACTGCAGCTCATCCGA	0.642													16	55	---	---	---	---	PASS	T	130926707	T	T	130926707	3	4	163	1	0	0	0	0	1	0	0	0	13363	188	7	5	2067	5	RIMBP2	12	130926707	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	42444	130926707	2925188	933	58268										
RIMBP2	23504	broad.mit.edu	37	chr12	130935770	130935770	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatctgcatcttgcgctaccGgatctcgacaggaaggtggg	14	10	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:130935770G>A	uc001uil.2	-	5	587	c.423C>T	c.(421-423)TCC>TCT	p.S141S	RIMBP2_uc001uim.2_Silent_p.S49S	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	141						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		TTGCGCTACCGGATCTCGACA	0.637													19	57	---	---	---	---	PASS	A	130935770	A	A	130935770	2	1	163	1	0	0	0	0	0	0	0	1	13363	1103	39	1		1	RIMBP2	12	130935770	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	9063	130935770	2916125	934	58269										
PGAM5	192111	broad.mit.edu	37	chr12	133294611	133294611	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcccggatcgaggccgccttCcggaactacatccaccgcgc	11	18	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:133294611C>T	uc009zyv.2	+	5	651	c.624C>T	c.(622-624)TTC>TTT	p.F208F	PGAM5_uc010tbr.1_RNA|PGAM5_uc001uku.2_Silent_p.F208F	NM_138575	NP_612642	Q96HS1	PGAM5_HUMAN	phosphoglycerate mutase family member 5	208						integral to membrane|mitochondrial outer membrane	phosphoprotein phosphatase activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.89e-08)|Epithelial(86;1.14e-07)|all cancers(50;3.57e-06)		AGGCCGCCTTCCGGAACTACA	0.617													13	87	---	---	---	---	PASS	T	133294611	T	T	133294611	2	4	163	1	0	0	0	0	0	0	0	1	11776	854	30	2		2	PGAM5	12	133294611	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	2358841	133294611	557284	935	58270										
GOLGA3	2802	broad.mit.edu	37	chr12	133373127	133373127	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agggctgcagggacttacctGctccagctgctgctccaggg	14	13	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr12:133373127G>A	uc001ukz.1	-	10	2657	c.2098C>T	c.(2098-2100)CAG>TAG	p.Q700*	GOLGA3_uc001ula.1_Nonsense_Mutation_p.Q700*|GOLGA3_uc001ulb.2_Nonsense_Mutation_p.Q700*	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	700	Gln-rich.|Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GGACTTACCTGCTCCAGCTGC	0.647													24	117	---	---	---	---	PASS	A	133373127	A	A	133373127	4	1	163	1	0	0	0	0	0	1	0	0	6554	1328	46	3	2596	3	GOLGA3	12	133373127	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	78516	133373127	478768	936	58271										
SACS	26278	broad.mit.edu	37	chr13	23912025	23912025	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catctcttcttttaagtataGagtcatctagaaatcttacg	5	8	5	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:23912025G>C	uc001uon.2	-	10	6579	c.5990C>G	c.(5989-5991)TCT>TGT	p.S1997C	SACS_uc001uoo.2_Missense_Mutation_p.S1850C|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1997					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TTTAAGTATAGAGTCATCTAG	0.378													20	83	---	---	---	---	PASS	C	23912025	C	C	23912025	3	2	163	1	0	0	0	0	1	0	0	0	13804	942	33	2	7753	2	SACS	13	23912025	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08		23912025	91257853	937	58272										
GPR12	2835	broad.mit.edu	37	chr13	27333804	27333804	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cacaggagatgagggttcccGaggtacacaagacaatgtcc	12	10	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:27333804G>C	uc010aal.2	-	2	383	c.161C>G	c.(160-162)TCG>TGG	p.S54W	GPR12_uc010tdl.1_Intron	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	54	Helical; Name=1; (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		GAGGGTTCCCGAGGTACACAA	0.572													31	97	---	---	---	---	PASS	C	27333804	C	C	27333804	3	2	163	1	0	0	0	0	1	0	0	0	6635	1059	37	2	847	2	GPR12	13	27333804	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3421779	27333804	87836074	938	58273										
FLT1	2321	broad.mit.edu	37	chr13	28964033	28964033	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcttgcagggaaacattcatGatggtaagattaagagtgat	11	4	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:28964033G>C	uc001usb.3	-	13	2154	c.1869C>G	c.(1867-1869)ATC>ATG	p.I623M	FLT1_uc010aar.1_Missense_Mutation_p.I623M|FLT1_uc001usc.3_Missense_Mutation_p.I623M|FLT1_uc010aas.1_RNA|FLT1_uc010aat.1_Missense_Mutation_p.I106M	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	623	Ig-like C2-type 6.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	AAACATTCATGATGGTAAGAT	0.413													64	213	---	---	---	---	PASS	C	28964033	C	C	28964033	3	2	163	1	0	0	0	0	1	0	0	0	5941	1280	45	2	2404	2	FLT1	13	28964033	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1630229	28964033	86205845	939	58274										
MTUS2	23281	broad.mit.edu	37	chr13	29599656	29599656	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcaggtgtgcagtgagcacaCatcacattccgcccatccag	10	14	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:29599656C>A	uc001usl.3	+	1	909	c.851C>A	c.(850-852)ACA>AAA	p.T284K		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	274						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						AGTGAGCACACATCACATTCC	0.512													5	24	---	---	---	---	PASS	A	29599656	A	A	29599656	3	1	163	1	0	0	0	0	1	0	0	0	9966	478	17	3	853	3	MTUS2	13	29599656	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	635623	29599656	85570222	940	58275										
NBEA	26960	broad.mit.edu	37	chr13	35644898	35644898	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attcaattcatagtgcaattCattcaattggagggattcaa	7	6	5	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:35644898C>T	uc001uvb.2	+	11	1686	c.1480C>T	c.(1480-1482)CAT>TAT	p.H494Y		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	494						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TAGTGCAATTCATTCAATTGG	0.333													55	75	---	---	---	---	PASS	T	35644898	T	T	35644898	3	4	163	1	0	0	0	0	1	0	0	0	10187	826	29	2	1518	2	NBEA	13	35644898	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6045242	35644898	79524980	941	58276										
FREM2	341640	broad.mit.edu	37	chr13	39433451	39433451	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accccaaatattcagactacGataaaacaggctctatctgt	5	11	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:39433451G>C	uc001uwv.2	+	14	7552	c.7243G>C	c.(7243-7245)GAT>CAT	p.D2415H	FREM2_uc001uww.2_Missense_Mutation_p.D501H	NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2415	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TTCAGACTACGATAAAACAGG	0.498													39	158	---	---	---	---	PASS	C	39433451	C	C	39433451	3	2	163	1	0	0	0	0	1	0	0	0	6045	1058	37	2	7297	2	FREM2	13	39433451	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3788553	39433451	75736427	942	58277										
AKAP11	11215	broad.mit.edu	37	chr13	42873499	42873499	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atttcattcttttcctatagGaatgaacattactgtgctaa	5	7	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:42873499G>C	uc001uys.1	+	8	792	c.617G>C	c.(616-618)GGA>GCA	p.G206A		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	206					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		TTTCCTATAGGAATGAACATT	0.318													21	58	---	---	---	---	PASS	C	42873499	C	C	42873499	3	2	163	1	0	0	0	0	1	0	0	0	447	1188	41	2	639	2	AKAP11	13	42873499	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3440048	42873499	72296379	943	58278										
KLF5	688	broad.mit.edu	37	chr13	73649905	73649905	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggaggttcgcgcgatcggatGagctgacccgccactaccgg	15	13	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:73649905G>C	uc001vje.2	+	4	1579	c.1255G>C	c.(1255-1257)GAG>CAG	p.E419Q	KLF5_uc001vjd.2_Missense_Mutation_p.E328Q	NM_001730	NP_001721	Q13887	KLF5_HUMAN	Kruppel-like factor 5	419	C2H2-type 2.				transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|pancreas(1)	3		Prostate(6;0.00187)|Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.0011)		GCGATCGGATGAGCTGACCCG	0.592													12	67	---	---	---	---	PASS	C	73649905	C	C	73649905	3	2	163	1	0	0	0	0	1	0	0	0	8349	1291	45	2	1269	2	KLF5	13	73649905	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	30776406	73649905	41519973	944	58279										
MYCBP2	23077	broad.mit.edu	37	chr13	77695532	77695532	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctatttccgagtccataatCaaatccttgggcactgcaac	7	12	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:77695532C>G	uc001vkf.2	-	56	8093	c.8002G>C	c.(8002-8004)GAT>CAT	p.D2668H	MYCBP2_uc010aev.2_Missense_Mutation_p.D2072H|MYCBP2_uc001vkg.1_Missense_Mutation_p.D131H	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2668					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AGTCCATAATCAAATCCTTGG	0.358													9	167	---	---	---	---	PASS	G	77695532	G	G	77695532	3	3	163	1	0	0	0	0	1	0	0	0	10018	826	29	2	6036	2	MYCBP2	13	77695532	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4045627	77695532	37474346	945	58280										
SLITRK5	26050	broad.mit.edu	37	chr13	88329935	88329935	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cacatgtgcaaaaaccccatCtaccgctcccgagagggcaa	8	15	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:88329935C>T	uc001vln.2	+	2	2511	c.2292C>T	c.(2290-2292)ATC>ATT	p.I764I	SLITRK5_uc010tic.1_Silent_p.I523I	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	764	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					AAAACCCCATCTACCGCTCCC	0.557													15	68	---	---	---	---	PASS	T	88329935	T	T	88329935	2	4	163	1	0	0	0	0	0	0	0	1	14746	903	32	2		2	SLITRK5	13	88329935	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	10634403	88329935	26839943	946	58281										
DZIP1	22873	broad.mit.edu	37	chr13	96237022	96237022	+	Frame_Shift_Del	DEL	C	-	-													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccccttaggattaaatgcgCcccaggcatttagcacatga							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:96237022delC	uc001vmk.2	-	22	3344	c.2492delG	c.(2491-2493)GGCfs	p.G831fs	DZIP1_uc001vmi.2_Frame_Shift_Del_p.G79fs|DZIP1_uc001vmj.2_Frame_Shift_Del_p.G307fs|DZIP1_uc001vml.2_Frame_Shift_Del_p.G812fs|DZIP1_uc001vmm.2_5'Flank	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	831					germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			ATTAAATGCGCCCCAGGCATT	0.413													156	103	---	---	---	---		-	96237022	-	-	96237022	7	5	163	1	0	1	0	1	0	0	0	0	4863	739	26	0	119	0	DZIP1	13	96237022	Frame_Shift_Del	DEL	C	TCGA-66-2785-01A-01D-1522-08	7907087	96237022	18932856	947	58282										
TPP2	7174	broad.mit.edu	37	chr13	103296993	103296993	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tataccatttctttccatggGatagtgtgtactgctcctca	7	10	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:103296993G>T	uc001vpi.3	+	18	2365	c.2262G>T	c.(2260-2262)GGG>GGT	p.G754G		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	754					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CTTTCCATGGGATAGTGTGTA	0.368													22	104	---	---	---	---	PASS	T	103296993	T	T	103296993	2	4	163	1	0	0	0	0	0	0	0	1	16409	1161	41	2		2	TPP2	13	103296993	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	7059971	103296993	11872885	948	58283										
MCF2L	23263	broad.mit.edu	37	chr13	113730391	113730391	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggaaatcgagaagtttttgGagaccggtgcggaaaataag	14	4	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:113730391G>C	uc001vsu.2	+	12	1613	c.1591G>C	c.(1591-1593)GAG>CAG	p.E531Q	MCF2L_uc001vsq.2_Missense_Mutation_p.E531Q|MCF2L_uc010tjr.1_Missense_Mutation_p.E474Q|MCF2L_uc001vsr.2_Missense_Mutation_p.E478Q|MCF2L_uc001vss.3_Missense_Mutation_p.E472Q|MCF2L_uc010tjs.1_Missense_Mutation_p.E472Q|MCF2L_uc001vst.1_Missense_Mutation_p.E436Q	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	504	Potential.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				GAAGTTTTTGGAGACCGGTGC	0.532													12	36	---	---	---	---	PASS	C	113730391	C	C	113730391	3	2	163	1	0	0	0	0	1	0	0	0	9379	1175	41	2	1732	2	MCF2L	13	113730391	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	10433398	113730391	1439487	949	58284										
CDC16	8881	broad.mit.edu	37	chr13	115009418	115009418	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagtgtctttagctgagagaCattattataactgtgatttt	8	4	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr13:115009418C>A	uc001vuk.1	+	8	919	c.721C>A	c.(721-723)CAT>AAT	p.H241N	CDC16_uc001vul.1_Missense_Mutation_p.H241N|CDC16_uc001vum.1_Missense_Mutation_p.H147N|CDC16_uc001vun.1_Missense_Mutation_p.H240N|CDC16_uc001vuo.1_Missense_Mutation_p.H240N	NM_003903	NP_003894	Q13042	CDC16_HUMAN	anaphase-promoting complex, subunit 6	241					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cell proliferation|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	binding				0	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)			AGCTGAGAGACATTATTATAA	0.378													24	101	---	---	---	---	PASS	A	115009418	A	A	115009418	3	1	163	1	0	0	0	0	1	0	0	0	3058	478	17	3	751	3	CDC16	13	115009418	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1279027	115009418	160460	950	58285										
OR6S1	341799	broad.mit.edu	37	chr14	21109424	21109424	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggccaaggccacacgaaagcAcacagccccactcatgagca	9	16	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:21109424A>C	uc001vxv.1	-	1	427	c.427T>G	c.(427-429)TGC>GGC	p.C143G		NM_001001968	NP_001001968	Q8NH40	OR6S1_HUMAN	olfactory receptor, family 6, subfamily S,	143	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00304)		Epithelial(56;1.23e-06)|all cancers(55;1.01e-05)	GBM - Glioblastoma multiforme(265;0.0135)		ACACGAAAGCACACAGCCCCA	0.607													9	55	---	---	---	---	PASS	C	21109424	C	C	21109424	3	2	163	1	0	0	0	0	1	0	0	0	11209	159	6	5	572	5	OR6S1	14	21109424	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08		21109424	86240116	951	58286										
RNASE3	6037	broad.mit.edu	37	chr14	21359978	21359978	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgccatccagcacatcagtCtgaacccccctcgatgcacc	6	18	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:21359978C>G	uc001vyj.2	+	2	187	c.133C>G	c.(133-135)CTG>GTG	p.L45V		NM_002935	NP_002926	P12724	ECP_HUMAN	ribonuclease, RNase A family, 3 (eosinophil	45					defense response to bacterium|RNA catabolic process	extracellular region|soluble fraction	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00453)		OV - Ovarian serous cystadenocarcinoma(11;6.3e-09)|Epithelial(56;1.42e-07)|all cancers(55;5.48e-07)	GBM - Glioblastoma multiforme(265;0.0187)	Pranlukast(DB01411)	GCACATCAGTCTGAACCCCCC	0.488													34	179	---	---	---	---	PASS	G	21359978	G	G	21359978	3	3	163	1	0	0	0	0	1	0	0	0	13405	912	32	2	135	2	RNASE3	14	21359978	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	250554	21359978	85989562	952	58287										
FLJ10357	55701	broad.mit.edu	37	chr14	21552086	21552086	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cggctcctggaggagctcctGagggaagctgggcctgagct	17	11	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:21552086G>A	uc001vzp.2	+	17	3695	c.3666G>A	c.(3664-3666)CTG>CTA	p.L1222L	FLJ10357_uc001vzo.1_Silent_p.L301L|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_Silent_p.L508L	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	1222	DH.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		AGGAGCTCCTGAGGGAAGCTG	0.667													12	66	---	---	---	---	PASS	A	21552086	A	A	21552086	2	1	163	1	0	0	0	0	0	0	0	1	5926	1277	45	2		2	FLJ10357	14	21552086	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	192108	21552086	85797454	953	58288										
PRMT5	10419	broad.mit.edu	37	chr14	23393852	23393852	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acacagtacctgctggtactGagagtatttgatggggtcct	12	8	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:23393852G>A	uc001whm.1	-	9	1097	c.1006C>T	c.(1006-1008)CAG>TAG	p.Q336*	PRMT5_uc001whl.1_Nonsense_Mutation_p.Q319*|PRMT5_uc010akd.1_RNA|PRMT5_uc010tnf.1_Nonsense_Mutation_p.Q230*|PRMT5_uc010tng.1_Nonsense_Mutation_p.Q275*|PRMT5_uc010tnh.1_Nonsense_Mutation_p.Q292*|PRMT5_uc001whn.1_Nonsense_Mutation_p.Q165*	NM_006109	NP_006100	O14744	ANM5_HUMAN	protein arginine methyltransferase 5 isoform a	336					cell proliferation|histone H4-R3 methylation|ncRNA metabolic process|regulation of mitosis|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	histone-arginine N-methyltransferase activity|protein binding|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding	p.Q336E(1)		ovary(1)	1	all_cancers(95;2.76e-05)			GBM - Glioblastoma multiforme(265;0.0126)		TGCTGGTACTGAGAGTATTTG	0.493													10	112	---	---	---	---	PASS	A	23393852	A	A	23393852	4	1	163	1	0	0	0	0	0	1	0	0	12539	1299	45	2	943	2	PRMT5	14	23393852	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1841766	23393852	83955688	954	58289										
AP1G2	8906	broad.mit.edu	37	chr14	24030804	24030804	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcctcatcagcctgagggcCatctcgctccacaagaggca	9	15	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:24030804C>T	uc001wkl.2	-	18	2111	c.1774G>A	c.(1774-1776)GGC>AGC	p.G592S	AP1G2_uc001wkj.2_Missense_Mutation_p.G211S|AP1G2_uc001wkk.3_Missense_Mutation_p.G520S|AP1G2_uc001wkn.2_Missense_Mutation_p.G211S|uc001wko.1_RNA|AP1G2_uc001wkp.1_RNA	NM_003917	NP_003908	O75843	AP1G2_HUMAN	adaptor-related protein complex 1, gamma 2	592					interspecies interaction between organisms|intracellular protein transport|vesicle-mediated transport	AP-1 adaptor complex|endosome membrane	protein binding|protein transporter activity			ovary(1)	1	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)		GCCTGAGGGCCATCTCGCTCC	0.552													5	79	---	---	---	---	PASS	T	24030804	T	T	24030804	3	4	163	1	0	0	0	0	1	0	0	0	733	594	21	3	603	3	AP1G2	14	24030804	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	636952	24030804	83318736	955	58290										
PSME2	5721	broad.mit.edu	37	chr14	24614467	24614467	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttaccttctttcttctcctGcttatctgtttccatctaag	3	13	5	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:24614467G>C	uc001wmj.2	-	5	312	c.247C>G	c.(247-249)CAG>GAG	p.Q83E	PSME2_uc001wmk.2_Missense_Mutation_p.Q6E|RNF31_uc001wml.1_5'Flank|RNF31_uc001wmm.1_5'Flank|RNF31_uc001wmn.1_5'Flank|RNF31_uc010alg.1_5'Flank	NM_002818	NP_002809	Q9UL46	PSME2_HUMAN	proteasome activator subunit 2	83					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome activator complex					0				GBM - Glioblastoma multiforme(265;0.00839)		TTCTTCTCCTGCTTATCTGTT	0.458													21	134	---	---	---	---	PASS	C	24614467	C	C	24614467	3	2	163	1	0	0	0	0	1	0	0	0	12707	1328	46	4	500	4	PSME2	14	24614467	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	583663	24614467	82735073	956	58291										
TGM1	7051	broad.mit.edu	37	chr14	24723420	24723420	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agccggaagacgacattggtGagggtgacgggaagggggtt	20	5	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:24723420G>A	uc001wod.2	-	14	2287	c.2163C>T	c.(2161-2163)CTC>CTT	p.L721L	TGM1_uc010tog.1_Silent_p.L279L	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	721					cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	CGACATTGGTGAGGGTGACGG	0.572													13	48	---	---	---	---	PASS	A	24723420	A	A	24723420	2	1	163	1	0	0	0	0	0	0	0	1	15826	1277	45	2		2	TGM1	14	24723420	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	108953	24723420	82626120	957	58292										
COCH	1690	broad.mit.edu	37	chr14	31354661	31354661	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgctggagtaagaaaaggGatccccaaagtggtggtggt	16	5	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:31354661G>C	uc001wqr.2	+	10	875	c.795G>C	c.(793-795)GGG>GGC	p.G265G	COCH_uc001wqp.2_Silent_p.G265G|COCH_uc001wqq.3_Silent_p.G265G|uc001wqs.2_RNA|COCH_uc001wqt.1_Silent_p.G116G	NM_004086	NP_004077	O43405	COCH_HUMAN	cochlin precursor	265	VWFA 1.				sensory perception of sound	proteinaceous extracellular matrix				pancreas(1)|central_nervous_system(1)|skin(1)	3	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.00645)		TAAGAAAAGGGATCCCCAAAG	0.418													20	172	---	---	---	---	PASS	C	31354661	C	C	31354661	2	2	163	1	0	0	0	0	0	0	0	1	3656	1161	41	2		2	COCH	14	31354661	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	6631241	31354661	75994879	958	58293										
COCH	1690	broad.mit.edu	37	chr14	31355340	31355340	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaagagaatgtcctagctgtCatcagaaacatccgctatat	7	9	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:31355340C>T	uc001wqr.2	+	11	1379	c.1299C>T	c.(1297-1299)GTC>GTT	p.V433V	COCH_uc001wqp.2_Silent_p.V433V|COCH_uc001wqq.3_Silent_p.V433V|uc001wqs.2_RNA|COCH_uc001wqt.1_Silent_p.V284V	NM_004086	NP_004077	O43405	COCH_HUMAN	cochlin precursor	433	VWFA 2.				sensory perception of sound	proteinaceous extracellular matrix				pancreas(1)|central_nervous_system(1)|skin(1)	3	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.00645)		TCCTAGCTGTCATCAGAAACA	0.463													30	211	---	---	---	---	PASS	T	31355340	T	T	31355340	2	4	163	1	0	0	0	0	0	0	0	1	3656	813	29	2		2	COCH	14	31355340	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	679	31355340	75994200	959	58294										
BAZ1A	11177	broad.mit.edu	37	chr14	35263991	35263991	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggaaactcatcttgaagatCaaaaagttccccaaatgcat	6	9	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:35263991C>G	uc001wsk.2	-	11	1895	c.1327G>C	c.(1327-1329)GAT>CAT	p.D443H	BAZ1A_uc001wsl.2_Missense_Mutation_p.D443H	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	443	DDT.				chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		TCTTGAAGATCAAAAAGTTCC	0.299													15	160	---	---	---	---	PASS	G	35263991	G	G	35263991	3	3	163	1	0	0	0	0	1	0	0	0	1329	826	29	2	3411	2	BAZ1A	14	35263991	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3908651	35263991	72085549	960	58295										
BAZ1A	11177	broad.mit.edu	37	chr14	35295249	35295249	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagaacagctttgtgtttctGaatcatcactatcactgatg	7	8	4	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:35295249G>C	uc001wsk.2	-	4	1074	c.506C>G	c.(505-507)TCA>TGA	p.S169*	BAZ1A_uc001wsl.2_Nonsense_Mutation_p.S169*|BAZ1A_uc001wsm.1_Nonsense_Mutation_p.S169*	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	169					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		TTGTGTTTCTGAATCATCACT	0.313													5	21	---	---	---	---	PASS	C	35295249	C	C	35295249	4	2	163	1	0	0	0	0	0	1	0	0	1329	1294	45	2	4260	2	BAZ1A	14	35295249	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	31258	35295249	72054291	961	58296										
NKX2-1	7080	broad.mit.edu	37	chr14	36986504	36986504	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caccaggtccgaccgtatagCaaggtggagcaggacatggt	14	10	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:36986504C>T	uc001wtt.2	-	2	1436	c.1095G>A	c.(1093-1095)TTG>TTA	p.L365L	SFTA3_uc001wts.2_Intron|NKX2-1_uc001wtu.2_Silent_p.L395L|NKX2-1_uc001wtv.2_Silent_p.L365L|uc001wtw.1_5'Flank	NM_003317	NP_003308	P43699	NKX21_HUMAN	thyroid transcription factor 1 isoform 2	365					epithelial tube branching involved in lung morphogenesis|globus pallidus development|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|thyroid gland development		protein binding|transcription regulatory region DNA binding			skin(1)	1	all_cancers(3;4.47e-51)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.165)		Lung(8;1.8e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.014)|all cancers(34;0.0366)|LUSC - Lung squamous cell carcinoma(13;0.132)	GBM - Glioblastoma multiforme(112;0.0171)		GACCGTATAGCAAGGTGGAGC	0.697			A		NSCLC								3	12	---	---	---	---	PASS	T	36986504	T	T	36986504	2	4	163	1	0	0	0	0	0	0	0	1	10449	709	25	3		3	NKX2-1	14	36986504	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1691255	36986504	70363036	962	58297										
PNN	5411	broad.mit.edu	37	chr14	39649715	39649715	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttattctttagctttatttGaaggtagacgcatcgaattt	7	5	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:39649715G>C	uc001wuw.3	+	9	899	c.802G>C	c.(802-804)GAA>CAA	p.E268Q		NM_002687	NP_002678	Q9H307	PININ_HUMAN	pinin, desmosome associated protein	268	Necessary for interaction with RNPS1.|Glu-rich.			E -> D (in Ref. 1; AAB48304).	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)		AGCTTTATTTGAAGGTAGACG	0.318													9	72	---	---	---	---	PASS	C	39649715	C	C	39649715	3	2	163	1	0	0	0	0	1	0	0	0	12160	1291	45	2	836	2	PNN	14	39649715	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2663211	39649715	67699825	963	58298										
MIA2	117153	broad.mit.edu	37	chr14	39722273	39722273	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atttttatttataaatcaacAgaagatgcttctgagtttca	5	5	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:39722273A>T	uc001wux.2	+	6	1981	c.1787_splice	c.e6-2	p.E596_splice		NM_054024	NP_473365	Q96PC5	MIA2_HUMAN	melanoma inhibitory activity 2							extracellular region				ovary(1)|breast(1)	2	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0216)		ATAAATCAACAGAAGATGCTT	0.254													23	53	---	---	---	---	PASS	T	39722273	T	T	39722273	5	4	163	1	0	0	0	0	0	0	1	0	9564	202	7	5	1807	5	MIA2	14	39722273	Splice_Site	SNP	A	TCGA-66-2785-01A-01D-1522-08	72558	39722273	67627267	964	58299										
FSCB	84075	broad.mit.edu	37	chr14	44975997	44975997	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acttactagtcatttcctgtCcatgctttctctttgtccaa	4	12	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:44975997C>A	uc001wvn.2	-	1	503	c.194G>T	c.(193-195)GGA>GTA	p.G65V		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	65						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		CATTTCCTGTCCATGCTTTCT	0.418													50	329	---	---	---	---	PASS	A	44975997	A	A	44975997	3	1	163	1	0	0	0	0	1	0	0	0	6066	855	30	2	2287	2	FSCB	14	44975997	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5253724	44975997	62373543	965	58300										
KLHDC1	122773	broad.mit.edu	37	chr14	50176427	50176427	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccatgttattcttgctgcagGagaatgcacctcatggaagg	11	9	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:50176427G>A	uc001www.2	+	3	196	c.168G>A	c.(166-168)TGG>TGA	p.W56*	SDCCAG1_uc010anj.1_Intron|KLHDC1_uc010tqg.1_Missense_Mutation_p.G20E|KLHDC1_uc010tqh.1_5'UTR	NM_172193	NP_751943	Q8N7A1	KLDC1_HUMAN	kelch domain containing 1	56	Kelch 1.					cytoplasm				pancreas(1)	1	all_epithelial(31;0.00244)|Breast(41;0.00964)					CTTGCTGCAGGAGAATGCACC	0.413													23	88	---	---	---	---	PASS	A	50176427	A	A	50176427	4	1	163	1	0	0	0	0	0	1	0	0	8354	1188	41	2	178	2	KLHDC1	14	50176427	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5200430	50176427	57173113	966	58301										
NIN	51199	broad.mit.edu	37	chr14	51223634	51223634	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cctaaccctgggcacacactCttccagtgtctgattgagct	8	14	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:51223634C>G	uc001wym.2	-	18	4305	c.4114G>C	c.(4114-4116)GAG>CAG	p.E1372Q	NIN_uc001wyi.2_Missense_Mutation_p.E1372Q|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Intron|NIN_uc010tqp.1_Missense_Mutation_p.E1378Q|NIN_uc001wyo.2_Missense_Mutation_p.E1372Q	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1372					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					ggcacacactcttccagtgtc	0.02			T	PDGFRB	MPD								3	12	---	---	---	---	PASS	G	51223634	G	G	51223634	3	3	163	1	0	0	0	0	1	0	0	0	10417	922	32	2	2491	2	NIN	14	51223634	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1047207	51223634	56125906	967	58302										
NIN	51199	broad.mit.edu	37	chr14	51224085	51224085	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acatcaaaaagtaggtcctgTttcttttcagaagctcgatc	7	9	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:51224085T>A	uc001wym.2	-	18	3854	c.3663A>T	c.(3661-3663)AAA>AAT	p.K1221N	NIN_uc001wyi.2_Missense_Mutation_p.K1221N|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Intron|NIN_uc010tqp.1_Missense_Mutation_p.K1227N|NIN_uc001wyo.2_Missense_Mutation_p.K1221N	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1221	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					GTAGGTCCTGTTTCTTTTCAG	0.418			T	PDGFRB	MPD								62	314	---	---	---	---	PASS	A	51224085	A	A	51224085	3	1	163	1	0	0	0	0	1	0	0	0	10417	1722	60	5	2942	5	NIN	14	51224085	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	451	51224085	56125455	968	58303										
DDHD1	80821	broad.mit.edu	37	chr14	53521243	53521243	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaggcaactggcttcttctCatcttccattgagtcttttg	8	10	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:53521243C>G	uc001xai.2	-	11	2580	c.2350G>C	c.(2350-2352)GAG>CAG	p.E784Q	DDHD1_uc001xaj.2_Missense_Mutation_p.E791Q|DDHD1_uc001xah.2_Missense_Mutation_p.E784Q|DDHD1_uc001xag.2_Missense_Mutation_p.E366Q|DDHD1_uc001xak.1_Missense_Mutation_p.E180Q	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	784	DDHD.				lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					GGCTTCTTCTCATCTTCCATT	0.453													24	146	---	---	---	---	PASS	G	53521243	G	G	53521243	3	3	163	1	0	0	0	0	1	0	0	0	4326	835	29	2	364	2	DDHD1	14	53521243	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2297158	53521243	53828297	969	58304										
WDHD1	11169	broad.mit.edu	37	chr14	55475034	55475034	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atttaaattgctgagtttacCtgatctgaaatttgccacac	6	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:55475034C>A	uc001xbm.1	-	6	582	c.504G>T	c.(502-504)CAG>CAT	p.Q168H	WDHD1_uc001xbn.1_Missense_Mutation_p.Q45H	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	168	WD 4.					cytoplasm|nucleoplasm	DNA binding			skin(1)	1						CTGAGTTTACCTGATCTGAAA	0.328													13	72	---	---	---	---	PASS	A	55475034	A	A	55475034	3	1	163	1	0	0	0	0	1	0	0	0	17268	695	24	3	2969	3	WDHD1	14	55475034	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1953791	55475034	51874506	970	58305										
SOCS4	122809	broad.mit.edu	37	chr14	55510378	55510378	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgacaatgctttgtgtagaGaaggtcctatgactggctct	11	9	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:55510378G>C	uc001xbo.2	+	3	1184	c.619G>C	c.(619-621)GAA>CAA	p.E207Q	SOCS4_uc001xbp.2_Missense_Mutation_p.E207Q	NM_199421	NP_955453	Q8WXH5	SOCS4_HUMAN	suppressor of cytokine signaling 4	207					intracellular signal transduction|negative regulation of signal transduction|regulation of growth					ovary(1)|kidney(1)	2						TTTGTGTAGAGAAGGTCCTAT	0.383													34	198	---	---	---	---	PASS	C	55510378	C	C	55510378	3	2	163	1	0	0	0	0	1	0	0	0	14916	943	33	2	621	2	SOCS4	14	55510378	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	35344	55510378	51839162	971	58306										
SOCS4	122809	broad.mit.edu	37	chr14	55510516	55510516	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aacccaaatgggatttggatGatgaaatcctgcagttggaa	11	6	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:55510516G>T	uc001xbo.2	+	3	1322	c.757G>T	c.(757-759)GAT>TAT	p.D253Y	SOCS4_uc001xbp.2_Missense_Mutation_p.D253Y	NM_199421	NP_955453	Q8WXH5	SOCS4_HUMAN	suppressor of cytokine signaling 4	253					intracellular signal transduction|negative regulation of signal transduction|regulation of growth					ovary(1)|kidney(1)	2						GGATTTGGATGATGAAATCCT	0.383													24	107	---	---	---	---	PASS	T	55510516	T	T	55510516	3	4	163	1	0	0	0	0	1	0	0	0	14916	1290	45	2	759	2	SOCS4	14	55510516	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	138	55510516	51839024	972	58307										
ACTR10	55860	broad.mit.edu	37	chr14	58701237	58701237	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcgggaaaactcaaccacctCtgatgaagagagcattttcc	8	11	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:58701237C>T	uc001xdf.2	+	13	1325	c.1222C>T	c.(1222-1224)CTG>TTG	p.L408L	C14orf37_uc010tro.1_Intron|ACTR10_uc001xdg.2_Silent_p.L210L|ACTR10_uc001xdh.2_Silent_p.L210L|ACTR10_uc010trp.1_RNA|ACTR10_uc010apc.2_Silent_p.L198L	NM_018477	NP_060947	Q9NZ32	ARP10_HUMAN	uncharacterized hypothalamus protein HARP11	408						cytoplasm				central_nervous_system(1)	1						TCAACCACCTCTGATGAAGAG	0.348													30	150	---	---	---	---	PASS	T	58701237	T	T	58701237	2	4	163	1	0	0	0	0	0	0	0	1	208	912	32	2		2	ACTR10	14	58701237	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	3190721	58701237	48648303	973	58308										
C14orf149	112849	broad.mit.edu	37	chr14	59951017	59951017	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcgggggcagccggggcacCgccagcgcgctctccatggt	17	15	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:59951017C>T	uc001xee.1	-	1	57	c.18G>A	c.(16-18)GCG>GCA	p.A6A	C14orf149_uc010trx.1_Silent_p.A6A|JKAMP_uc001xef.3_5'Flank|JKAMP_uc001xeh.3_5'Flank|JKAMP_uc001xeg.3_5'Flank|JKAMP_uc010try.1_5'Flank|JKAMP_uc001xei.3_5'Flank|JKAMP_uc001xej.3_5'Flank	NM_144581	NP_653182	Q96EM0	PRCM_HUMAN	proline racemase-like	6							proline racemase activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.14)	L-Proline(DB00172)	GCCGGGGCACCGCCAGCGCGC	0.706													9	38	---	---	---	---	PASS	T	59951017	T	T	59951017	2	4	163	1	0	0	0	0	0	0	0	1	1752	639	23	1		1	C14orf149	14	59951017	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1249780	59951017	47398523	974	58309										
SIX4	51804	broad.mit.edu	37	chr14	61180302	61180302	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcagaatttgataagaaattCtctttcatgttagctaccga	6	7	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:61180302C>A	uc001xfc.2	-	3	2169	c.2169G>T	c.(2167-2169)GAG>GAT	p.E723D		NM_017420	NP_059116	Q9UIU6	SIX4_HUMAN	sine oculis homeobox homolog 4	723						nucleus				breast(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0275)		ATAAGAAATTCTCTTTCATGT	0.423													20	108	---	---	---	---	PASS	A	61180302	A	A	61180302	3	1	163	1	0	0	0	0	1	0	0	0	14349	912	32	2	180	2	SIX4	14	61180302	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1229285	61180302	46169238	975	58310										
SYNE2	23224	broad.mit.edu	37	chr14	64416564	64416564	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgagaagcttgcccagactCtttcttgcaattacaatcag	7	10	3	2	rs142000273	by1000genomes	TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:64416564C>G	uc001xgm.2	+	7	660	c.430C>G	c.(430-432)CTT>GTT	p.L144V	SYNE2_uc001xgk.2_Missense_Mutation_p.L144V|SYNE2_uc001xgl.2_Missense_Mutation_p.L144V	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	144	Cytoplasmic (Potential).|Actin-binding.				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)		TGCCCAGACTCTTTCTTGCAA	0.423													50	308	---	---	---	---	PASS	G	64416564	G	G	64416564	3	3	163	1	0	0	0	0	1	0	0	0	15443	913	32	2	452	2	SYNE2	14	64416564	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3236262	64416564	42932976	976	58311										
SYNE2	23224	broad.mit.edu	37	chr14	64644158	64644158	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acaaagtgaagatcctcttcCagagcttcacgaggacctcc	8	13	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:64644158C>T	uc001xgm.2	+	96	17743	c.17513C>T	c.(17512-17514)CCA>CTA	p.P5838L	SYNE2_uc001xgl.2_Missense_Mutation_p.P5838L|SYNE2_uc010apy.2_Missense_Mutation_p.P2223L|SYNE2_uc001xgn.2_Missense_Mutation_p.P800L|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_5'UTR|SYNE2_uc001xgq.2_Missense_Mutation_p.P203L	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5838	Cytoplasmic (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)		GATCCTCTTCCAGAGCTTCAC	0.393													24	110	---	---	---	---	PASS	T	64644158	T	T	64644158	3	4	163	1	0	0	0	0	1	0	0	0	15443	594	21	3	17891	3	SYNE2	14	64644158	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	227594	64644158	42705382	977	58312										
ZFYVE26	23503	broad.mit.edu	37	chr14	68256264	68256264	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcatggggatggggtctccaGaggtgttgagcagcttgtca	17	7	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:68256264G>C	uc001xka.2	-	16	2946	c.2807C>G	c.(2806-2808)TCT>TGT	p.S936C	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.S936C	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	936					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		GGGGTCTCCAGAGGTGTTGAG	0.522													6	179	---	---	---	---	PASS	C	68256264	C	C	68256264	3	2	163	1	0	0	0	0	1	0	0	0	17665	942	33	2	4920	2	ZFYVE26	14	68256264	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3612106	68256264	39093276	978	58313										
PCNX	22990	broad.mit.edu	37	chr14	71444958	71444958	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cacttctcattcctgtcagtCtcctgagggcagatacagtg	9	12	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:71444958C>G	uc001xmo.2	+	6	2350	c.1904C>G	c.(1903-1905)TCT>TGT	p.S635C	PCNX_uc001xmn.3_Missense_Mutation_p.S635C|PCNX_uc010are.1_Missense_Mutation_p.S635C	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	635	Ser-rich.					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)		TCCTGTCAGTCTCCTGAGGGC	0.463													26	148	---	---	---	---	PASS	G	71444958	G	G	71444958	3	3	163	1	0	0	0	0	1	0	0	0	11591	913	32	2	1926	2	PCNX	14	71444958	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3188694	71444958	35904582	979	58314										
DPF3	8110	broad.mit.edu	37	chr14	73190343	73190343	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgtcatccccaacttacccGtcctctagtcctgttctttc	4	16	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:73190343G>A	uc001xnc.2	-	5	536	c.523C>T	c.(523-525)CGG>TGG	p.R175W	DPF3_uc001xnd.1_RNA|DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Missense_Mutation_p.R175W|DPF3_uc010ttq.1_Missense_Mutation_p.R185W	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	175					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		CAACTTACCCGTCCTCTAGTC	0.478													49	235	---	---	---	---	PASS	A	73190343	A	A	73190343	3	1	163	1	0	0	0	0	1	0	0	0	4718	1144	40	1	570	1	DPF3	14	73190343	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1745385	73190343	34159197	980	58315										
PTGR2	145482	broad.mit.edu	37	chr14	74340877	74340877	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gacttctttctattggccctGgcaaaccaaggttattctgg	9	10	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:74340877G>T	uc001xow.2	+	4	468	c.308G>T	c.(307-309)TGG>TTG	p.W103L	PTGR2_uc010tue.1_Missense_Mutation_p.W103L|PTGR2_uc001xox.2_Missense_Mutation_p.W103L|ZNF410_uc001xoy.1_RNA	NM_001146154	NP_001139626	Q8N8N7	PTGR2_HUMAN	prostaglandin reductase 2	103					prostaglandin metabolic process		15-oxoprostaglandin 13-oxidase activity|zinc ion binding				0						TATTGGCCCTGGCAAACCAAG	0.353													16	159	---	---	---	---	PASS	T	74340877	T	T	74340877	3	4	163	1	0	0	0	0	1	0	0	0	12754	1357	47	3	318	3	PTGR2	14	74340877	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1150534	74340877	33008663	981	58316										
ZNF410	57862	broad.mit.edu	37	chr14	74370752	74370752	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agaagctcaagtgtacagttGaaggttgtgaccggacattt	12	6	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:74370752G>C	uc001xoz.1	+	6	852	c.670G>C	c.(670-672)GAA>CAA	p.E224Q	ZNF410_uc001xoy.1_RNA|ZNF410_uc010ary.1_RNA|ZNF410_uc010tuf.1_Intron|ZNF410_uc010tug.1_5'UTR|ZNF410_uc010tuh.1_Missense_Mutation_p.E151Q|ZNF410_uc010tui.1_RNA|ZNF410_uc010arz.1_Missense_Mutation_p.E241Q|ZNF410_uc001xpa.1_Missense_Mutation_p.L37F|ZNF410_uc001xpb.1_Missense_Mutation_p.E224Q|ZNF410_uc001xpc.1_Missense_Mutation_p.E171Q|ZNF410_uc010tuj.1_Missense_Mutation_p.L37F	NM_021188	NP_067011	Q86VK4	ZN410_HUMAN	zinc finger protein 410	224	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00369)		GTGTACAGTTGAAGGTTGTGA	0.453													5	154	---	---	---	---	PASS	C	74370752	C	C	74370752	3	2	163	1	0	0	0	0	1	0	0	0	17887	1291	45	2	688	2	ZNF410	14	74370752	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	29875	74370752	32978788	982	58317										
C14orf45	80127	broad.mit.edu	37	chr14	74516731	74516731	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgcaccaagtgaagcaacaGatcctaattagcaggaagca	9	10	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:74516731G>C	uc010tup.1	+	8	1242	c.1119G>C	c.(1117-1119)CAG>CAC	p.Q373H	C14orf45_uc001xpm.1_RNA	NM_025057	NP_079333	Q8ND07	CN045_HUMAN	hypothetical protein LOC80127	373											0				BRCA - Breast invasive adenocarcinoma(234;0.00351)		TGAAGCAACAGATCCTAATTA	0.398													12	78	---	---	---	---	PASS	C	74516731	C	C	74516731	3	2	163	1	0	0	0	0	1	0	0	0	1775	933	33	2	1149	2	C14orf45	14	74516731	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	145979	74516731	32832809	983	58318										
KIAA0317	9870	broad.mit.edu	37	chr14	75151330	75151330	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gactacacgtgcggcaagctCaaagaggaacttaattgtga	11	8	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:75151330C>G	uc001xqb.2	-	4	575	c.70G>C	c.(70-72)GAG>CAG	p.E24Q	KIAA0317_uc010tut.1_Intron|KIAA0317_uc001xqc.2_Missense_Mutation_p.E24Q|KIAA0317_uc001xqd.1_Intron	NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870	24					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		GCGGCAAGCTCAAAGAGGAAC	0.502													9	52	---	---	---	---	PASS	G	75151330	G	G	75151330	3	3	163	1	0	0	0	0	1	0	0	0	8167	835	29	2	2469	2	KIAA0317	14	75151330	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	634599	75151330	32198210	984	58319										
NEK9	91754	broad.mit.edu	37	chr14	75574085	75574085	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcatcaccacatgacacctGacggatagctttgccttgca	7	13	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:75574085G>A	uc001xrl.2	-	11	1442	c.1288C>T	c.(1288-1290)CAG>TAG	p.Q430*	NEK9_uc001xrk.2_5'UTR	NM_033116	NP_149107	Q8TD19	NEK9_HUMAN	NIMA-related kinase 9	430	RCC1 1.				cell division|mitosis	mitochondrion|nucleus	ATP binding|metal ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(2)|stomach(2)|ovary(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00718)		CATGACACCTGACGGATAGCT	0.473													20	96	---	---	---	---	PASS	A	75574085	A	A	75574085	4	1	163	1	0	0	0	0	0	1	0	0	10331	1299	45	2	1699	2	NEK9	14	75574085	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	422755	75574085	31775455	985	58320										
NGB	58157	broad.mit.edu	37	chr14	77732898	77732898	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttactcgccatcccagcctCgactcatggcctgcactacg	7	18	1	0	rs150881015		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:77732898C>G	uc001xtg.1	-	4	812	c.437G>C	c.(436-438)CGA>CCA	p.R146P		NM_021257	NP_067080	Q9NPG2	NGB_HUMAN	neuroglobin	146	Globin.					hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0273)		ATCCCAGCCTCGACTCATGGC	0.632													9	73	---	---	---	---	PASS	G	77732898	G	G	77732898	3	3	163	1	0	0	0	0	1	0	0	0	10392	884	31	2	22	2	NGB	14	77732898	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2158813	77732898	29616642	986	58321										
TMED8	283578	broad.mit.edu	37	chr14	77808183	77808183	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagtaggagttgtcgaacttGagcaggtagatgccctcacc	13	9	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:77808183G>C	uc001xto.1	-	6	909	c.909C>G	c.(907-909)CTC>CTG	p.L303L	TMED8_uc010ast.1_RNA|TMED8_uc001xtn.1_Silent_p.L147L	NM_213601	NP_998766	Q6PL24	TMED8_HUMAN	transmembrane emp24 protein transport domain	303	GOLD.				transport	integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		TGTCGAACTTGAGCAGGTAGA	0.587													11	73	---	---	---	---	PASS	C	77808183	C	C	77808183	2	2	163	1	0	0	0	0	0	0	0	1	16008	1277	45	2		2	TMED8	14	77808183	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	75285	77808183	29541357	987	58322										
ISM2	145501	broad.mit.edu	37	chr14	77948773	77948773	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgctcttcctcatcttcctCtttgtcctcttgatcctcac	3	17	6	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:77948773C>G	uc001xtz.2	-	4	939	c.865G>C	c.(865-867)GAG>CAG	p.E289Q	ISM2_uc001xua.2_Intron|ISM2_uc001xty.2_Missense_Mutation_p.E201Q|ISM2_uc010tvl.1_Missense_Mutation_p.E208Q	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	289						extracellular region				skin(1)	1						tcatcttcctctttgtcctct	0.289													19	70	---	---	---	---	PASS	G	77948773	G	G	77948773	3	3	163	1	0	0	0	0	1	0	0	0	7861	922	32	2	866	2	ISM2	14	77948773	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	140590	77948773	29400767	988	58323										
TTC7B	145567	broad.mit.edu	37	chr14	91110546	91110546	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcggacataccccagagcctCtgggatctggtttaaaacaa	10	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:91110546C>G	uc001xyp.2	-	15	1719	c.1597G>C	c.(1597-1599)GAG>CAG	p.E533Q	TTC7B_uc001xyo.2_5'UTR|TTC7B_uc010ats.2_RNA|uc001xyq.2_Intron	NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	533	TPR 6.						binding			ovary(2)	2		Melanoma(154;0.222)				CCCAGAGCCTCTGGGATCTGG	0.398													25	121	---	---	---	---	PASS	G	91110546	G	G	91110546	3	3	163	1	0	0	0	0	1	0	0	0	16710	922	32	2	958	2	TTC7B	14	91110546	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	13161773	91110546	16238994	989	58324										
CCDC88C	440193	broad.mit.edu	37	chr14	91779949	91779949	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acgttcttcctcagctcctcCttctcacgctccagctgctg	6	18	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:91779949C>A	uc010aty.2	-	15	2310	c.2211G>T	c.(2209-2211)AAG>AAT	p.K737N		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	737	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				TCAGCTCCTCCTTCTCACGCT	0.617													46	99	---	---	---	---	PASS	A	91779949	A	A	91779949	3	1	163	1	0	0	0	0	1	0	0	0	2865	680	24	3	3939	3	CCDC88C	14	91779949	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	669403	91779949	15569591	990	58325										
KIAA1409	57578	broad.mit.edu	37	chr14	94084612	94084612	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acagtcaatacactcaatgcGcagtatcatagctgcaagcc	7	12	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:94084612G>T	uc001ybv.1	+	27	3917	c.3834G>T	c.(3832-3834)GCG>GCT	p.A1278A	KIAA1409_uc001ybs.1_Silent_p.A1256A	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1433						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CACTCAATGCGCAGTATCATA	0.428													13	91	---	---	---	---	PASS	T	94084612	T	T	94084612	2	4	163	1	0	0	0	0	0	0	0	1	8230	1074	38	1		1	KIAA1409	14	94084612	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	2304663	94084612	13264928	991	58326										
KIAA1409	57578	broad.mit.edu	37	chr14	94158226	94158226	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcagcttcacggcgatactGacagcactagaattttggag	10	9	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:94158226G>A	uc001ybv.1	+	45	7139	c.7056G>A	c.(7054-7056)CTG>CTA	p.L2352L	KIAA1409_uc001ybs.1_Silent_p.L2330L	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2507						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CGGCGATACTGACAGCACTAG	0.473													19	114	---	---	---	---	PASS	A	94158226	A	A	94158226	2	1	163	1	0	0	0	0	0	0	0	1	8230	1277	45	2		2	KIAA1409	14	94158226	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	73614	94158226	13191314	992	58327										
IFI27	3429	broad.mit.edu	37	chr14	94578051	94578051	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggaggcctctgctctcacctCatcagcagtgaccagtgtgg	12	13	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:94578051C>T	uc010tws.1	+	2	211	c.90C>T	c.(88-90)CTC>CTT	p.L30L	IFI27_uc001ycm.1_RNA|IFI27_uc001ycn.1_Intron|IFI27_uc001yco.2_Missense_Mutation_p.S8L	NM_005532	NP_005523	P40305	IFI27_HUMAN	interferon, alpha-inducible protein 27 isoform	Error:Variant_position_missing_in_P40305_after_alignment					activation of caspase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|type I interferon-mediated signaling pathway	integral to membrane|mitochondrion					0				Epithelial(152;0.112)|all cancers(159;0.187)|COAD - Colon adenocarcinoma(157;0.206)		GCTCTCACCTCATCAGCAGTG	0.602													15	59	---	---	---	---	PASS	T	94578051	T	T	94578051	2	4	163	1	0	0	0	0	0	0	0	1	7512	838	29	2		2	IFI27	14	94578051	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	419825	94578051	12771489	993	58328										
CLMN	79789	broad.mit.edu	37	chr14	95669505	95669505	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acctcatagtgtgggaaataGaagaggtcgtggggaatgac	15	5	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:95669505G>C	uc001yef.2	-	9	2297	c.2181C>G	c.(2179-2181)TTC>TTG	p.F727L		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	727						integral to membrane	actin binding				0				Epithelial(152;0.193)		GTGGGAAATAGAAGAGGTCGT	0.517													23	65	---	---	---	---	PASS	C	95669505	C	C	95669505	3	2	163	1	0	0	0	0	1	0	0	0	3542	933	33	2	847	2	CLMN	14	95669505	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1091454	95669505	11680035	994	58329										
CLMN	79789	broad.mit.edu	37	chr14	95670395	95670395	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaaaggatccttgtaggtgtCagcctcaaagtgaactgttt	11	7	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:95670395C>G	uc001yef.2	-	9	1407	c.1291G>C	c.(1291-1293)GAC>CAC	p.D431H		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	431						integral to membrane	actin binding				0				Epithelial(152;0.193)		TTGTAGGTGTCAGCCTCAAAG	0.473													24	162	---	---	---	---	PASS	G	95670395	G	G	95670395	3	3	163	1	0	0	0	0	1	0	0	0	3542	826	29	2	1737	2	CLMN	14	95670395	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	890	95670395	11679145	995	58330										
BDKRB2	624	broad.mit.edu	37	chr14	96706942	96706942	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agagcagctgcacggtggcaGagatctacctggggaacctg	15	10	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:96706942G>C	uc010avm.1	+	3	473	c.277G>C	c.(277-279)GAG>CAG	p.E93Q	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Missense_Mutation_p.E66Q|BDKRB2_uc001yfg.2_Missense_Mutation_p.E93Q	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	93	Cytoplasmic (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		CACGGTGGCAGAGATCTACCT	0.612													6	270	---	---	---	---	PASS	C	96706942	C	C	96706942	3	2	163	1	0	0	0	0	1	0	0	0	1393	943	33	2	283	2	BDKRB2	14	96706942	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1036547	96706942	10642598	996	58331										
AK7	122481	broad.mit.edu	37	chr14	96937902	96937902	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcaaggttatattttggatgGattcccaaagacctatgatc	8	7	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:96937902G>A	uc001yfn.2	+	13	1489	c.1445G>A	c.(1444-1446)GGA>GAA	p.G482E		NM_152327	NP_689540	Q96M32	KAD7_HUMAN	adenylate kinase 7	482	Adenylate kinase.				cell projection organization	cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity			ovary(1)	1		all_cancers(154;0.0482)|all_epithelial(191;0.128)|Melanoma(154;0.155)		Epithelial(152;0.134)|COAD - Colon adenocarcinoma(157;0.228)		ATTTTGGATGGATTCCCAAAG	0.303													6	108	---	---	---	---	PASS	A	96937902	A	A	96937902	3	1	163	1	0	0	0	0	1	0	0	0	444	1174	41	2	1495	2	AK7	14	96937902	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	230960	96937902	10411638	997	58332										
SETD3	84193	broad.mit.edu	37	chr14	99865289	99865289	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccaacagcccaaggttactCtcttcatatttgggaagcgg	9	11	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:99865289C>G	uc001ygc.2	-	13	1682	c.1512G>C	c.(1510-1512)GAG>GAC	p.E504D		NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	504					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				CAAGGTTACTCTCTTCATATT	0.522													78	376	---	---	---	---	PASS	G	99865289	G	G	99865289	3	3	163	1	0	0	0	0	1	0	0	0	14132	912	32	2	276	2	SETD3	14	99865289	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2927387	99865289	7484251	998	58333										
DYNC1H1	1778	broad.mit.edu	37	chr14	102481630	102481630	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagcggcggcgtaagggcaaAgaggatgagggggaggaggc	22	6	0	2	rs150888094	byFrequency	TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:102481630A>C	uc001yks.2	+	35	7367	c.7203A>C	c.(7201-7203)AAA>AAC	p.K2401N	DYNC1H1_uc001ykt.1_5'UTR	NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2401	AAA 2 (By similarity).				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						GTAAGGGCAAAGAGGATGAGG	0.582													3	32	---	---	---	---	PASS	C	102481630	C	C	102481630	3	2	163	1	0	0	0	0	1	0	0	0	4841	69	3	5	7341	5	DYNC1H1	14	102481630	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	2616341	102481630	4867910	999	58334										
PPP1R13B	23368	broad.mit.edu	37	chr14	104209151	104209151	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gttttaatgttggccagtttCcatcattagcttgaaaagaa	8	6	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:104209151C>G	uc001yof.1	-	10	1443	c.1160G>C	c.(1159-1161)GGA>GCA	p.G387A	PPP1R13B_uc010awv.1_RNA|PPP1R13B_uc001yog.1_Missense_Mutation_p.G254A	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	387					apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				TGGCCAGTTTCCATCATTAGC	0.443													5	175	---	---	---	---	PASS	G	104209151	G	G	104209151	3	3	163	1	0	0	0	0	1	0	0	0	12357	855	30	2	2144	2	PPP1R13B	14	104209151	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1727521	104209151	3140389	1000	58335										
TDRD9	122402	broad.mit.edu	37	chr14	104472825	104472825	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagcccaacttcctgtaaatCagcaacttggtaaactcata	5	11	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:104472825C>G	uc001yom.3	+	16	1843	c.1813C>G	c.(1813-1815)CAG>GAG	p.Q605E	TDRD9_uc001yon.3_Missense_Mutation_p.Q343E	NM_153046	NP_694591	Q8NDG6	TDRD9_HUMAN	tudor domain containing 9	605					cell differentiation|DNA methylation involved in gamete generation|fertilization|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	nucleus|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0768)				TCCTGTAAATCAGCAACTTGG	0.408													20	92	---	---	---	---	PASS	G	104472825	G	G	104472825	3	3	163	1	0	0	0	0	1	0	0	0	15733	827	29	2	1875	2	TDRD9	14	104472825	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	263674	104472825	2876715	1001	58336										
AHNAK2	113146	broad.mit.edu	37	chr14	105415937	105415937	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atccacctccatgctgggcaGagacacctcgacatcggggg	12	14	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:105415937G>C	uc010axc.1	-	7	5971	c.5851C>G	c.(5851-5853)CTG>GTG	p.L1951V	AHNAK2_uc001ypx.2_Missense_Mutation_p.L1851V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1951						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)			ATGCTGGGCAGAGACACCTCG	0.622													50	278	---	---	---	---	PASS	C	105415937	C	C	105415937	3	2	163	1	0	0	0	0	1	0	0	0	415	933	33	2	11540	2	AHNAK2	14	105415937	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	943112	105415937	1933603	1002	58337										
AHNAK2	113146	broad.mit.edu	37	chr14	105420834	105420834	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgaggaacttccgcctcctCtggctgcccggccctgcctt	10	17	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:105420834C>G	uc010axc.1	-	7	1074	c.954G>C	c.(952-954)CAG>CAC	p.Q318H	AHNAK2_uc001ypx.2_Missense_Mutation_p.Q218H	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	318						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)			TCCGCCTCCTCTGGCTGCCCG	0.642													3	20	---	---	---	---	PASS	G	105420834	G	G	105420834	3	3	163	1	0	0	0	0	1	0	0	0	415	912	32	2	16437	2	AHNAK2	14	105420834	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4897	105420834	1928706	1003	58338										
BTBD6	90135	broad.mit.edu	37	chr14	105716777	105716777	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaccaagttcatgtcagacgGatccagtaacaccttcccgg	9	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:105716777G>T	uc010tyq.1	+	5	1334	c.1226G>T	c.(1225-1227)GGA>GTA	p.G409V	BRF1_uc010tyo.1_Intron|BRF1_uc010typ.1_Intron|BRF1_uc001yql.2_5'Flank|BRF1_uc001yqo.2_5'Flank|BRF1_uc010axg.1_Intron|BRF1_uc001yqp.2_Intron|BRF1_uc001yqn.2_5'Flank|BRF1_uc010axh.1_5'Flank|BRF1_uc010axj.1_5'Flank	NM_033271	NP_150374	Q96KE9	BTBD6_HUMAN	BTB domain protein BDPL	409						cytoplasmic mRNA processing body					0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.0163)|Epithelial(46;0.0391)	Epithelial(152;0.18)		ATGTCAGACGGATCCAGTAAC	0.567													4	100	---	---	---	---	PASS	T	105716777	T	T	105716777	3	4	163	1	0	0	0	0	1	0	0	0	1545	1174	41	2	1240	2	BTBD6	14	105716777	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	295943	105716777	1632763	1004	58339										
MTA1	9112	broad.mit.edu	37	chr14	105905016	105905016	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgctgtttgcagactacgtCtactttgagaactcctccag	8	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr14:105905016C>G	uc001yqx.2	+	2	223	c.36C>G	c.(34-36)GTC>GTG	p.V12V	MTA1_uc001yqy.2_RNA|MTA1_uc001yqz.1_5'UTR|MTA1_uc001yra.1_5'UTR	NM_004689	NP_004680	Q13330	MTA1_HUMAN	metastasis associated protein	12	BAH.				signal transduction	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		CAGACTACGTCTACTTTGAGA	0.617													43	229	---	---	---	---	PASS	G	105905016	G	G	105905016	2	3	163	1	0	0	0	0	0	0	0	1	9908	900	32	2		2	MTA1	14	105905016	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	188239	105905016	1444524	1005	58340										
CYFIP1	23191	broad.mit.edu	37	chr15	22962537	22962537	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acgagacgctgctgaagcagAggcatgtgcaggtgagctgg	17	8	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:22962537A>T	uc001yus.2	+	20	2361	c.2257A>T	c.(2257-2259)AGG>TGG	p.R753W	CYFIP1_uc001yut.2_Missense_Mutation_p.R753W|CYFIP1_uc010aya.1_Missense_Mutation_p.R781W|CYFIP1_uc001yuu.2_Missense_Mutation_p.R322W	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	753					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		GCTGAAGCAGAGGCATGTGCA	0.468													7	48	---	---	---	---	PASS	T	22962537	T	T	22962537	3	4	163	1	0	0	0	0	1	0	0	0	4137	295	11	5	2712	5	CYFIP1	15	22962537	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08		22962537	79568855	1006	58341										
MAGEL2	54551	broad.mit.edu	37	chr15	23890133	23890133	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctttggacctcccagtcactCagatttagattctcccaggg	8	13	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:23890133C>G	uc001ywj.3	-	1	1043	c.948G>C	c.(946-948)CTG>CTC	p.L316L		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		CCCAGTCACTCAGATTTAGAT	0.612													19	91	---	---	---	---	PASS	G	23890133	G	G	23890133	2	3	163	1	0	0	0	0	0	0	0	1	9189	813	29	2		2	MAGEL2	15	23890133	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	927596	23890133	78641259	1007	58342										
NDN	4692	broad.mit.edu	37	chr15	23931634	23931634	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggacgcgctggtacttcaggTaattcatttggacgaactcc	11	10	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:23931634T>C	uc001ywk.2	-	1	817	c.731A>G	c.(730-732)TAC>TGC	p.Y244C		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	244	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		GTACTTCAGGTAATTCATTTG	0.587									Prader-Willi_syndrome				18	51	---	---	---	---	PASS	C	23931634	C	C	23931634	3	2	163	1	0	0	0	0	1	0	0	0	10247	1638	57	5	238	5	NDN	15	23931634	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	41501	23931634	78599758	1008	58343										
NDN	4692	broad.mit.edu	37	chr15	23931908	23931908	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctggttagcctcaggtgcaGcccgaacacccgggcgagga	15	13	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:23931908G>T	uc001ywk.2	-	1	543	c.457C>A	c.(457-459)CTG>ATG	p.L153M		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	153	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		CTCAGGTGCAGCCCGAACACC	0.622									Prader-Willi_syndrome				9	31	---	---	---	---	PASS	T	23931908	T	T	23931908	3	4	163	1	0	0	0	0	1	0	0	0	10247	962	34	3	512	3	NDN	15	23931908	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	274	23931908	78599484	1009	58344										
OCA2	4948	broad.mit.edu	37	chr15	28228542	28228542	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgacatttggagggtccccGatggcagtggcagctcctcc	13	12	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:28228542G>A	uc001zbh.3	-	14	1562	c.1452C>T	c.(1450-1452)ATC>ATT	p.I484I	OCA2_uc010ayv.2_Silent_p.I460I	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	484	Extracellular (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		GAGGGTCCCCGATGGCAGTGG	0.493									Oculocutaneous_Albinism				14	92	---	---	---	---	PASS	A	28228542	A	A	28228542	2	1	163	1	0	0	0	0	0	0	0	1	10815	1048	37	2		2	OCA2	15	28228542	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	4296634	28228542	74302850	1010	58345										
FMN1	342184	broad.mit.edu	37	chr15	33359865	33359865	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtggatccaagccattgctgGaatcatcctgctgagatgtg	12	9	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:33359865G>T	uc001zhf.3	-	1	221	c.221C>A	c.(220-222)TCC>TAC	p.S74Y	FMN1_uc001zhg.2_Missense_Mutation_p.S74Y	NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	Error:Variant_position_missing_in_Q68DA7_after_alignment					actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		GCCATTGCTGGAATCATCCTG	0.458													17	104	---	---	---	---	PASS	T	33359865	T	T	33359865	3	4	163	1	0	0	0	0	1	0	0	0	5949	1174	41	2	3437	2	FMN1	15	33359865	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5131323	33359865	69171527	1011	58346										
CASC5	57082	broad.mit.edu	37	chr15	40902467	40902467	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttccagacggagtctcatatGaaaatagtgagaaagtcaga	10	6	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:40902467G>C	uc010bbs.1	+	6	383	c.222G>C	c.(220-222)ATG>ATC	p.M74I	CASC5_uc010ucq.1_5'UTR|CASC5_uc001zme.2_Missense_Mutation_p.M74I|CASC5_uc010bbt.1_Missense_Mutation_p.M74I	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	74	Interaction with BUB1 and BUB1B.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		AGTCTCATATGAAAATAGTGA	0.308													37	152	---	---	---	---	PASS	C	40902467	C	C	40902467	3	2	163	1	0	0	0	0	1	0	0	0	2663	1290	45	2	240	2	CASC5	15	40902467	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	7542602	40902467	61628925	1012	58347										
CASC5	57082	broad.mit.edu	37	chr15	40912985	40912985	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcccataagtgaaaagtccAccaagatagataccacatca	5	11	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:40912985A>C	uc010bbs.1	+	11	762	c.601A>C	c.(601-603)ACC>CCC	p.T201P	CASC5_uc010ucq.1_Missense_Mutation_p.T25P|CASC5_uc001zme.2_Missense_Mutation_p.T175P|CASC5_uc010bbt.1_Missense_Mutation_p.T175P	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	201	Interaction with BUB1 and BUB1B.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		TGAAAAGTCCACCAAGATAGA	0.363													19	125	---	---	---	---	PASS	C	40912985	C	C	40912985	3	2	163	1	0	0	0	0	1	0	0	0	2663	159	6	5	639	5	CASC5	15	40912985	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	10518	40912985	61618407	1013	58348										
SPINT1	6692	broad.mit.edu	37	chr15	41146845	41146845	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcctctctgcagacacgagtGgctttgacgagctccagcgc	11	14	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:41146845G>C	uc001zna.2	+	8	1327	c.1123G>C	c.(1123-1125)GGC>CGC	p.G375R	SPINT1_uc001znb.2_Missense_Mutation_p.G359R|SPINT1_uc001znc.2_Missense_Mutation_p.G359R|SPINT1_uc010ucs.1_Missense_Mutation_p.G366R	NM_181642	NP_857593	O43278	SPIT1_HUMAN	serine peptidase inhibitor, Kunitz type 1	375						extracellular region|membrane fraction	protein binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;2.91e-05)|COAD - Colon adenocarcinoma(120;0.153)|BRCA - Breast invasive adenocarcinoma(123;0.166)		AGACACGAGTGGCTTTGACGA	0.592													34	145	---	---	---	---	PASS	C	41146845	C	C	41146845	3	2	163	1	0	0	0	0	1	0	0	0	15067	1348	47	4	1149	4	SPINT1	15	41146845	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	233860	41146845	61384547	1014	58349										
EHD4	30844	broad.mit.edu	37	chr15	42192959	42192959	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaggtgcttggccagcgcgaActcctcctcatcaagcatgc	11	14	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:42192959A>C	uc001zot.2	-	6	1573	c.1510T>G	c.(1510-1512)TTC>GTC	p.F504V		NM_139265	NP_644670	Q9H223	EHD4_HUMAN	EH-domain containing 4	504	EF-hand.|EH.				endocytic recycling|protein homooligomerization	early endosome membrane|endoplasmic reticulum|nucleus|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			ovary(2)	2		all_cancers(109;2.54e-12)|all_epithelial(112;6.59e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		OV - Ovarian serous cystadenocarcinoma(18;1.6e-19)|GBM - Glioblastoma multiforme(94;3.77e-06)|COAD - Colon adenocarcinoma(120;0.0474)|Colorectal(105;0.0538)		GCCAGCGCGAACTCCTCCTCA	0.632													24	43	---	---	---	---	PASS	C	42192959	C	C	42192959	3	2	163	1	0	0	0	0	1	0	0	0	4980	43	2	5	119	5	EHD4	15	42192959	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	1046114	42192959	60338433	1015	58350										
TTBK2	146057	broad.mit.edu	37	chr15	43044761	43044761	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgcaaaaaagtagagaggtCtccttgatgacctggcaagt	12	7	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:43044761C>G	uc001zqo.2	-	14	3122	c.2683G>C	c.(2683-2685)GAC>CAC	p.D895H	TTBK2_uc010bcy.2_Missense_Mutation_p.D826H	NM_173500	NP_775771	Q6IQ55	TTBK2_HUMAN	tau tubulin kinase 2	895					cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)		GTAGAGAGGTCTCCTTGATGA	0.418													40	144	---	---	---	---	PASS	G	43044761	G	G	43044761	3	3	163	1	0	0	0	0	1	0	0	0	16674	913	32	2	1059	2	TTBK2	15	43044761	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	851802	43044761	59486631	1016	58351										
ZSCAN29	146050	broad.mit.edu	37	chr15	43661911	43661911	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atctccccaggtaagacggtCaggaactgctctagcaccaa	9	13	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:43661911C>G	uc001zrk.1	-	1	348	c.201G>C	c.(199-201)CTG>CTC	p.L67L	ZSCAN29_uc001zrj.1_5'Flank|ZSCAN29_uc010bdf.1_Silent_p.L66L|ZSCAN29_uc001zrl.1_RNA|ZSCAN29_uc010bdg.1_Silent_p.L66L|ZSCAN29_uc001zrm.2_Silent_p.L66L|TUBGCP4_uc001zrn.2_5'Flank|TUBGCP4_uc001zro.2_5'Flank	NM_152455	NP_689668	Q8IWY8	ZSC29_HUMAN	zinc finger protein 690	67	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.97e-07)		GTAAGACGGTCAGGAACTGCT	0.522													28	161	---	---	---	---	PASS	G	43661911	G	G	43661911	2	3	163	1	0	0	0	0	0	0	0	1	18233	813	29	2		2	ZSCAN29	15	43661911	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	617150	43661911	58869481	1017	58352										
MAP1A	4130	broad.mit.edu	37	chr15	43821418	43821418	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgtgtgcatggctgaccccGaggggctcagctcagagtct	14	11	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:43821418G>A	uc001zrt.2	+	4	8214	c.7747G>A	c.(7747-7749)GAG>AAG	p.E2583K		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	2583						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	GGCTGACCCCGAGGGGCTCAG	0.667													9	43	---	---	---	---	PASS	A	43821418	A	A	43821418	3	1	163	1	0	0	0	0	1	0	0	0	9227	1059	37	2	7749	2	MAP1A	15	43821418	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	159507	43821418	58709974	1018	58353										
SPG11	80208	broad.mit.edu	37	chr15	44943814	44943814	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taatggtatagcccatccttTccacttcccaagtaaacagt	5	12	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:44943814T>C	uc001ztx.2	-	6	1362	c.1331A>G	c.(1330-1332)GAA>GGA	p.E444G	SPG11_uc010ueh.1_Missense_Mutation_p.E444G|SPG11_uc010uei.1_Missense_Mutation_p.E444G|SPG11_uc001zua.1_Missense_Mutation_p.E444G	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	444	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		GCCCATCCTTTCCACTTCCCA	0.453													39	284	---	---	---	---	PASS	C	44943814	C	C	44943814	3	2	163	1	0	0	0	0	1	0	0	0	15040	1783	62	5	6140	5	SPG11	15	44943814	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	1122396	44943814	57587578	1019	58354										
DMXL2	23312	broad.mit.edu	37	chr15	51828679	51828679	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcattatgatgagaggatgtCaataacagtggtaaaactga	11	4	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:51828679C>G	uc002abf.2	-	12	2223	c.1998G>C	c.(1996-1998)TTG>TTC	p.L666F	DMXL2_uc010ufy.1_Missense_Mutation_p.L666F|DMXL2_uc010bfa.2_Missense_Mutation_p.L666F	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	666						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		GAGAGGATGTCAATAACAGTG	0.363													31	155	---	---	---	---	PASS	G	51828679	G	G	51828679	3	3	163	1	0	0	0	0	1	0	0	0	4595	825	29	2	7243	2	DMXL2	15	51828679	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6884865	51828679	50702713	1020	58355										
UNC13C	440279	broad.mit.edu	37	chr15	54847657	54847657	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgattcgagaggatgccaggGgtctgacgccaagacaatgc	14	9	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:54847657G>C	uc002ack.2	+	27	5905	c.5905G>C	c.(5905-5907)GGT>CGT	p.G1969R		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1969	MHD2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GGATGCCAGGGGTCTGACGCC	0.423													7	48	---	---	---	---	PASS	C	54847657	C	C	54847657	3	2	163	1	0	0	0	0	1	0	0	0	16983	1232	43	4	6011	4	UNC13C	15	54847657	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3018978	54847657	47683735	1021	58356										
PIGB	9488	broad.mit.edu	37	chr15	55611485	55611485	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcaagtgcggaatggagccgGggggcggagatgccagcctc	19	10	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:55611485G>C	uc002act.2	+	1	353	c.37G>C	c.(37-39)GGG>CGG	p.G13R	uc002acs.2_5'Flank|PIGB_uc010ugg.1_5'UTR	NM_004855	NP_004846	Q92521	PIGB_HUMAN	phosphatidylinositol glycan, class B	13					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	integral to membrane|intrinsic to endoplasmic reticulum membrane	glycolipid mannosyltransferase activity				0				all cancers(107;0.0255)		AATGGAGCCGGGGGGCGGAGA	0.577													3	11	---	---	---	---	PASS	C	55611485	C	C	55611485	3	2	163	1	0	0	0	0	1	0	0	0	11885	1232	43	4	39	4	PIGB	15	55611485	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	763828	55611485	46919907	1022	58357										
TPM1	7168	broad.mit.edu	37	chr15	63356324	63356324	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaggagctggaccacgctctCaacgatatgacttccatgta	10	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:63356324C>G	uc002alg.2	+	9	1025	c.834C>G	c.(832-834)CTC>CTG	p.L278L	TPM1_uc002alh.2_Silent_p.L278L|TPM1_uc010bgn.2_Intron|TPM1_uc002ali.2_Intron|TPM1_uc002alj.2_Intron|TPM1_uc002alk.2_Intron|TPM1_uc002all.2_Intron|TPM1_uc002alm.2_Intron|TPM1_uc010uie.1_Silent_p.L278L|TPM1_uc002alp.2_Silent_p.L278L|TPM1_uc002alr.2_Intron|TPM1_uc002als.2_Intron|TPM1_uc010uig.1_Intron|TPM1_uc002alt.2_Intron|TPM1_uc010bgp.2_Intron	NM_001018005	NP_001018005	P09493	TPM1_HUMAN	tropomyosin 1 alpha chain isoform 1	278	By similarity.				cardiac muscle contraction|cellular component movement|cellular response to reactive oxygen species|muscle filament sliding|negative regulation of cell migration|positive regulation of ATPase activity|positive regulation of cell adhesion|positive regulation of heart rate by epinephrine|positive regulation of stress fiber assembly|regulation of muscle contraction|ruffle organization|sarcomere organization|ventricular cardiac muscle tissue morphogenesis|wound healing	bleb|cytosol|muscle thin filament tropomyosin|ruffle membrane|stress fiber	actin binding|structural constituent of cytoskeleton|structural constituent of muscle				0						ACCACGCTCTCAACGATATGA	0.502													5	42	---	---	---	---	PASS	G	63356324	G	G	63356324	2	3	163	1	0	0	0	0	0	0	0	1	16402	813	29	2		2	TPM1	15	63356324	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	7744839	63356324	39175068	1023	58358										
ZNF609	23060	broad.mit.edu	37	chr15	64967613	64967613	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acatctctgatgctggggagGatggggagggcaaggtagac	18	6	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:64967613G>T	uc002ann.2	+	4	2560	c.2560G>T	c.(2560-2562)GAT>TAT	p.D854Y		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	854						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						TGCTGGGGAGGATGGGGAGGG	0.522													23	124	---	---	---	---	PASS	T	64967613	T	T	64967613	3	4	163	1	0	0	0	0	1	0	0	0	18032	1174	41	2	2574	2	ZNF609	15	64967613	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1611289	64967613	37563779	1024	58359										
ANKDD1A	348094	broad.mit.edu	37	chr15	65235752	65235752	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagatatgctcctcattgctGgggttgacttaaacctgaga	10	9	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:65235752G>T	uc002aoa.2	+	11	1068	c.1039G>T	c.(1039-1041)GGG>TGG	p.G347W	ANKDD1A_uc002aoc.2_RNA|ANKDD1A_uc010bha.2_Missense_Mutation_p.G256W	NM_182703	NP_874362	Q495B1	AKD1A_HUMAN	ankyrin repeat and death domain containing 1A	347	ANK 10.				signal transduction					ovary(1)	1						CCTCATTGCTGGGGTTGACTT	0.358													74	391	---	---	---	---	PASS	T	65235752	T	T	65235752	3	4	163	1	0	0	0	0	1	0	0	0	624	1348	47	3	1081	3	ANKDD1A	15	65235752	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	268139	65235752	37295640	1025	58360										
DPP8	54878	broad.mit.edu	37	chr15	65793003	65793003	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccactaccggcttgaaacaGaaatgttccacttccttggt	7	12	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:65793003G>C	uc002aov.2	-	4	2113	c.535C>G	c.(535-537)CTG>GTG	p.L179V	DPP8_uc002aow.2_Missense_Mutation_p.L179V|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.L163V|DPP8_uc002aoy.2_Missense_Mutation_p.L179V|DPP8_uc002aoz.2_Missense_Mutation_p.L163V|DPP8_uc010bhj.2_Missense_Mutation_p.L179V|DPP8_uc002apa.2_Missense_Mutation_p.L76V	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	179					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						GCTTGAAACAGAAATGTTCCA	0.403													63	282	---	---	---	---	PASS	C	65793003	C	C	65793003	3	2	163	1	0	0	0	0	1	0	0	0	4732	933	33	2	2229	2	DPP8	15	65793003	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	557251	65793003	36738389	1026	58361										
RPL4	6124	broad.mit.edu	37	chr15	66793360	66793360	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taacttccggaaagcactttCagtccaaatgcagaaacgtc	7	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:66793360C>T	uc002apv.2	-	7	816	c.760G>A	c.(760-762)GAA>AAA	p.E254K	RPL4_uc010bhr.2_Missense_Mutation_p.E160K|RPL4_uc002apw.2_Missense_Mutation_p.E160K|RPL4_uc002apx.2_Missense_Mutation_p.E160K|RPL4_uc010ujq.1_3'UTR	NM_000968	NP_000959	P36578	RL4_HUMAN	ribosomal protein L4	254					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						AAAGCACTTTCAGTCCAAATG	0.418													24	130	---	---	---	---	PASS	T	66793360	T	T	66793360	3	4	163	1	0	0	0	0	1	0	0	0	13595	835	29	2	539	2	RPL4	15	66793360	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1000357	66793360	35738032	1027	58362										
CCDC33	80125	broad.mit.edu	37	chr15	74573101	74573101	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accagaagatgctgacagggAaaggcttggacgggcttcac	14	9	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:74573101A>G	uc002axo.2	+	9	1376	c.982A>G	c.(982-984)AAA>GAA	p.K328E	CCDC33_uc002axp.2_Missense_Mutation_p.K150E	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	531				K -> E (in Ref. 1; BAG51911).			protein binding			ovary(3)|skin(2)	5						GCTGACAGGGAAAGGCTTGGA	0.552													19	104	---	---	---	---	PASS	G	74573101	G	G	74573101	3	3	163	1	0	0	0	0	1	0	0	0	2806	247	9	5	1016	5	CCDC33	15	74573101	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	7779741	74573101	27958291	1028	58363										
MAN2C1	4123	broad.mit.edu	37	chr15	75652298	75652298	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggatgcagcttccagtcaCcacatcatggaactggttca	9	12	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:75652298C>T	uc002baf.2	-	15	1755	c.1738G>A	c.(1738-1740)GTG>ATG	p.V580M	MAN2C1_uc002bag.2_Missense_Mutation_p.V580M|MAN2C1_uc002bah.2_Missense_Mutation_p.V580M|MAN2C1_uc010bkk.2_Missense_Mutation_p.V481M|MAN2C1_uc010umi.1_Missense_Mutation_p.V362M	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	580					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						CTTCCAGTCACCACATCATGG	0.577													8	36	---	---	---	---	PASS	T	75652298	T	T	75652298	3	4	163	1	0	0	0	0	1	0	0	0	9218	507	18	3	1432	3	MAN2C1	15	75652298	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1079197	75652298	26879094	1029	58364										
CHRNB4	1143	broad.mit.edu	37	chr15	78922232	78922232	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gggcagccacaggacgctgcCgttggaccggactatcaagt	14	12	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:78922232C>A	uc002bed.1	-	5	527	c.415G>T	c.(415-417)GGC>TGC	p.G139C	CHRNB4_uc002bee.1_Intron|CHRNB4_uc010blh.1_5'UTR	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	139	Extracellular (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						AGGACGCTGCCGTTGGACCGG	0.572													15	41	---	---	---	---	PASS	A	78922232	A	A	78922232	3	1	163	1	0	0	0	0	1	0	0	0	3393	652	23	1	1089	1	CHRNB4	15	78922232	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3269934	78922232	23609160	1030	58365										
BNC1	646	broad.mit.edu	37	chr15	83933054	83933054	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggagtcacttaaatgggtgcTgtcttcttttttagtaatag	10	5	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:83933054T>C	uc002bjt.1	-	4	1037	c.949A>G	c.(949-951)AGC>GGC	p.S317G	BNC1_uc010uos.1_Missense_Mutation_p.S305G	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	317					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						AAATGGGTGCTGTCTTCTTTT	0.428													62	139	---	---	---	---	PASS	C	83933054	C	C	83933054	3	2	163	1	0	0	0	0	1	0	0	0	1474	1580	55	5	2043	5	BNC1	15	83933054	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	5010822	83933054	18598338	1031	58366										
ZNF592	9640	broad.mit.edu	37	chr15	85326210	85326210	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccggggctcagatctgcctCcagatccccacaactgtggg	11	15	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:85326210C>T	uc002bld.2	+	4	640	c.304C>T	c.(304-306)CCA>TCA	p.P102S	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	102					cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			AGATCTGCCTCCAGATCCCCA	0.502													37	88	---	---	---	---	PASS	T	85326210	T	T	85326210	3	4	163	1	0	0	0	0	1	0	0	0	18019	855	30	2	306	2	ZNF592	15	85326210	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1393156	85326210	17205182	1032	58367										
SLC28A1	9154	broad.mit.edu	37	chr15	85478750	85478750	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acaggaagcagtggatctccGtgagtgtcccagtcccttcc	11	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:85478750G>A	uc002blg.2	+	15	1783	c.1581_splice	c.e15+1	p.S527_splice	SLC28A1_uc010bnb.2_Splice_Site_p.S527_splice|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Splice_Site_p.S527_splice|SLC28A1_uc010upg.1_Splice_Site_p.S527_splice	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1						nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GTGGATCTCCGTGAGTGTCCC	0.647													56	93	---	---	---	---	PASS	A	85478750	A	A	85478750	5	1	163	1	0	0	0	0	0	0	1	0	14531	1159	40	1	1703	1	SLC28A1	15	85478750	Splice_Site	SNP	G	TCGA-66-2785-01A-01D-1522-08	152540	85478750	17052642	1033	58368										
AGBL1	123624	broad.mit.edu	37	chr15	86807964	86807964	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tatggccaaagccagaagaaCcagctctgtggtggacttca	11	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:86807964C>A	uc002blz.1	+	10	1504	c.1424C>A	c.(1423-1425)ACC>AAC	p.T475N	AGBL1_uc002bma.1_Missense_Mutation_p.T206N|AGBL1_uc002bmb.1_Missense_Mutation_p.T169N	NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	475					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						GCCAGAAGAACCAGCTCTGTG	0.483													70	148	---	---	---	---	PASS	A	86807964	A	A	86807964	3	1	163	1	0	0	0	0	1	0	0	0	375	507	18	3	1458	3	AGBL1	15	86807964	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1329214	86807964	15723428	1034	58369										
DET1	55070	broad.mit.edu	37	chr15	89074044	89074044	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccacaaatataccagcaacCggtgtttgagggaattgatg	11	8	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:89074044C>A	uc002bmr.2	-	2	1045	c.893G>T	c.(892-894)CGG>CTG	p.R298L	DET1_uc002bmp.3_RNA|DET1_uc010bnk.2_RNA|DET1_uc002bmq.2_Missense_Mutation_p.R309L	NM_001144074	NP_001137546	Q7L5Y6	DET1_HUMAN	de-etiolated 1 isoform 2	298						nucleus				lung(1)|pancreas(1)	2	Lung NSC(78;0.105)|all_lung(78;0.182)		BRCA - Breast invasive adenocarcinoma(143;0.188)			TACCAGCAACCGGTGTTTGAG	0.532													12	72	---	---	---	---	PASS	A	89074044	A	A	89074044	3	1	163	1	0	0	0	0	1	0	0	0	4450	652	23	1	775	1	DET1	15	89074044	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2266080	89074044	13457348	1035	58370										
C15orf42	90381	broad.mit.edu	37	chr15	90149999	90149999	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggattttctcatgtttcagGagaactctcaccctgctcct	7	12	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:90149999G>C	uc002boe.2	+	14	2665	c.2665G>C	c.(2665-2667)GAG>CAG	p.E889Q		NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	889					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			CATGTTTCAGGAGAACTCTCA	0.303													8	82	---	---	---	---	PASS	C	90149999	C	C	90149999	3	2	163	1	0	0	0	0	1	0	0	0	1796	1188	41	2	2719	2	C15orf42	15	90149999	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1075955	90149999	12381393	1036	58371										
IQGAP1	8826	broad.mit.edu	37	chr15	90996132	90996132	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catttgccgccgatctctatCagaaggagctggctaccctg	10	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:90996132C>G	uc002bpl.1	+	12	1389	c.1288C>G	c.(1288-1290)CAG>GAG	p.Q430E		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	430					energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			CGATCTCTATCAGAAGGAGCT	0.512													4	53	---	---	---	---	PASS	G	90996132	G	G	90996132	3	3	163	1	0	0	0	0	1	0	0	0	7814	827	29	2	1334	2	IQGAP1	15	90996132	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	846133	90996132	11535260	1037	58372										
SV2B	9899	broad.mit.edu	37	chr15	91827444	91827444	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatagaattggaaggctcaaGatgattggtgagttgccagc	14	5	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:91827444G>C	uc002bqv.2	+	10	2092	c.1701G>C	c.(1699-1701)AAG>AAC	p.K567N	SV2B_uc010uqv.1_Missense_Mutation_p.K416N|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	567	Helical; (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			GAAGGCTCAAGATGATTGGTG	0.473													28	139	---	---	---	---	PASS	C	91827444	C	C	91827444	3	2	163	1	0	0	0	0	1	0	0	0	15415	933	33	2	1739	2	SV2B	15	91827444	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	831312	91827444	10703948	1038	58373										
LASS3	204219	broad.mit.edu	37	chr15	100996212	100996212	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgtatgaaaagaaaggctcGaggtgatacataggcaagat	12	4	0	4	rs149637953		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr15:100996212G>C	uc002bvz.2	-	12	1387	c.885C>G	c.(883-885)CTC>CTG	p.L295L	LASS3_uc002bwa.2_Silent_p.L306L|LASS3_uc002bwb.2_Silent_p.L295L	NM_178842	NP_849164	Q8IU89	CERS3_HUMAN	LAG1 longevity assurance homolog 3	295	TLC.					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4	Lung NSC(78;0.0018)|all_lung(78;0.00278)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000867)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)			AGAAAGGCTCGAGGTGATACA	0.388													18	63	---	---	---	---	PASS	C	100996212	C	C	100996212	2	2	163	1	0	0	0	0	0	0	0	1	8640	1045	37	2		2	LASS3	15	100996212	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	9168768	100996212	1535180	1039	58374										
RAB11FIP3	9727	broad.mit.edu	37	chr16	553072	553072	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcccccgagctcatggaggGcccagaggaggacattgctg	14	12	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:553072G>C	uc002chf.2	+	7	1709	c.1370G>C	c.(1369-1371)GGC>GCC	p.G457A	RAB11FIP3_uc010uuf.1_Missense_Mutation_p.G161A|RAB11FIP3_uc010uug.1_Missense_Mutation_p.G192A	NM_014700	NP_055515	O75154	RFIP3_HUMAN	rab11-family interacting protein 3 isoform 1	457					cell cycle|cytokinesis|endocytic recycling|protein transport	centrosome|cleavage furrow|midbody|recycling endosome membrane	ADP-ribosylation factor binding|calcium ion binding|protein homodimerization activity|Rab GTPase binding				0		Hepatocellular(16;0.0218)				CTCATGGAGGGCCCAGAGGAG	0.602													20	114	---	---	---	---	PASS	C	553072	C	C	553072	3	2	163	1	0	0	0	0	1	0	0	0	12895	1203	42	4	1415	4	RAB11FIP3	16	553072	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08		553072	89801681	1040	58375										
MSLN	10232	broad.mit.edu	37	chr16	815722	815722	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgcgtggcggcaacgctcctCtcgggacccatcctggcggc	14	17	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:815722C>T	uc002cjw.1	+	10	878	c.827C>T	c.(826-828)TCT>TTT	p.S276F	MSLN_uc002cjt.1_Missense_Mutation_p.S276F|MSLN_uc002cju.1_Missense_Mutation_p.S276F|MSLN_uc010brd.1_Missense_Mutation_p.S275F|MSLN_uc002cjv.1_Missense_Mutation_p.S276F|MSLN_uc002cjx.1_Missense_Mutation_p.S276F|MSLN_uc002cjy.1_5'Flank	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein	276	Required for megakaryocyte-potentiating factor activity.				cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)				CAACGCTCCTCTCGGGACCCA	0.716													5	46	---	---	---	---	PASS	T	815722	T	T	815722	3	4	163	1	0	0	0	0	1	0	0	0	9881	913	32	2	861	2	MSLN	16	815722	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	262650	815722	89539031	1041	58376										
RPUSD1	113000	broad.mit.edu	37	chr16	837161	837161	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctgatggttacccggctctCctggatgtgcccccgcagct	12	15	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:837161C>G	uc002cka.2	-	3	559	c.325G>C	c.(325-327)GAG>CAG	p.E109Q	RPUSD1_uc002ckb.2_Missense_Mutation_p.E109Q|RPUSD1_uc002ckc.2_5'UTR|RPUSD1_uc002ckd.2_Intron|CHTF18_uc010uus.1_5'Flank|CHTF18_uc010bre.1_5'Flank|CHTF18_uc002cke.3_5'Flank|CHTF18_uc002ckf.3_5'Flank|CHTF18_uc010brf.2_5'Flank|CHTF18_uc002ckg.3_5'Flank	NM_058192	NP_478072	Q9UJJ7	RUSD1_HUMAN	RNA pseudouridylate synthase domain containing	109					pseudouridine synthesis		pseudouridine synthase activity|RNA binding				0		Hepatocellular(780;0.00335)				ACCCGGCTCTCCTGGATGTGC	0.662													3	24	---	---	---	---	PASS	G	837161	G	G	837161	3	3	163	1	0	0	0	0	1	0	0	0	13666	864	30	2	625	2	RPUSD1	16	837161	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	21439	837161	89517592	1042	58377										
CACNA1H	8912	broad.mit.edu	37	chr16	1257399	1257399	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtgctcttcaacctgctggTggccatcctcgtggagggct	13	12	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:1257399T>C	uc002cks.2	+	14	3280	c.3032T>C	c.(3031-3033)GTG>GCG	p.V1011A	CACNA1H_uc002ckt.2_Missense_Mutation_p.V1011A|CACNA1H_uc002cku.2_5'Flank|CACNA1H_uc010brj.2_5'Flank|CACNA1H_uc002ckv.2_5'Flank	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1011	II.|Helical; Name=S6 of repeat II; (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	AACCTGCTGGTGGCCATCCTC	0.647													4	22	---	---	---	---	PASS	C	1257399	C	C	1257399	3	2	163	1	0	0	0	0	1	0	0	0	2545	1696	59	5	3082	5	CACNA1H	16	1257399	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	420238	1257399	89097354	1043	58378										
TRAF7	84231	broad.mit.edu	37	chr16	2223818	2223818	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcccacatcaacgcgcggctGaacatgggcatcctaggctg	11	14	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:2223818G>A	uc002cow.2	+	12	1215	c.1116G>A	c.(1114-1116)CTG>CTA	p.L372L		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	372					activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						ACGCGCGGCTGAACATGGGCA	0.697													3	35	---	---	---	---	PASS	A	2223818	A	A	2223818	2	1	163	1	0	0	0	0	0	0	0	1	16443	1277	45	2		2	TRAF7	16	2223818	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	966419	2223818	88130935	1044	58379										
MLST8	64223	broad.mit.edu	37	chr16	2257038	2257038	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccccggcccggcccgcaggtCccggaacctgcagtgccagc	13	20	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:2257038C>T	uc002coz.2	+	5	466	c.347C>T	c.(346-348)TCC>TTC	p.S116F	MLST8_uc002coy.2_Missense_Mutation_p.S116F|MLST8_uc002cpa.2_5'UTR|MLST8_uc002cpb.2_Missense_Mutation_p.S115F|MLST8_uc010uvx.1_Missense_Mutation_p.S50F|MLST8_uc002cpc.2_Missense_Mutation_p.S116F|MLST8_uc002cpd.2_Missense_Mutation_p.S50F|MLST8_uc002cpe.2_Missense_Mutation_p.S116F|MLST8_uc002cpg.2_Missense_Mutation_p.S135F|MLST8_uc002cph.2_RNA|MLST8_uc002cpf.2_Missense_Mutation_p.S116F	NM_022372	NP_071767	Q9BVC4	LST8_HUMAN	G protein beta subunit-like	116	WD 3.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|T cell costimulation	cytosol	protein binding				0						GCCCGCAGGTCCCGGAACCTG	0.662													36	117	---	---	---	---	PASS	T	2257038	T	T	2257038	3	4	163	1	0	0	0	0	1	0	0	0	9634	855	30	2	361	2	MLST8	16	2257038	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	33220	2257038	88097715	1045	58380										
C16orf79	283870	broad.mit.edu	37	chr16	2260557	2260557	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagcagagccaagaagccctCcagccacaacccccacagcg	9	18	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:2260557C>G	uc010bsh.2	-	2	323	c.146G>C	c.(145-147)GGA>GCA	p.G49A	C16orf79_uc002cpi.1_Missense_Mutation_p.G49A	NM_182563	NP_872369	Q6PL45	CP079_HUMAN	hypothetical protein LOC283870	49	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						AAGAAGCCCTCCAGCCACAAC	0.557													11	24	---	---	---	---	PASS	G	2260557	G	G	2260557	3	3	163	1	0	0	0	0	1	0	0	0	1836	855	30	2	560	2	C16orf79	16	2260557	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3519	2260557	88094196	1046	58381										
SRRM2	23524	broad.mit.edu	37	chr16	2814714	2814714	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgcagtggaaaaggcaggGatgtcttcaaatcagagcat	13	6	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:2814714G>A	uc002crk.2	+	11	4734	c.4185G>A	c.(4183-4185)GGG>GGA	p.G1395G	SRRM2_uc002crj.1_Silent_p.G1299G|SRRM2_uc002crl.1_Silent_p.G1395G|SRRM2_uc010bsu.1_Silent_p.G1299G	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1395	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						AAAAGGCAGGGATGTCTTCAA	0.458													284	384	---	---	---	---	PASS	A	2814714	A	A	2814714	2	1	163	1	0	0	0	0	0	0	0	1	15168	1161	41	2		2	SRRM2	16	2814714	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	554157	2814714	87540039	1047	58382										
SRRM2	23524	broad.mit.edu	37	chr16	2818169	2818169	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tagctcctcctcttcttcatCatcgtcgtcgtcgtcctcct	5	17	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:2818169C>G	uc002crk.2	+	11	8189	c.7640C>G	c.(7639-7641)TCA>TGA	p.S2547*	SRRM2_uc002crj.1_Nonsense_Mutation_p.S2451*|SRRM2_uc002crl.1_Nonsense_Mutation_p.S2547*|SRRM2_uc010bsu.1_Nonsense_Mutation_p.S2451*	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2547	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						tcttcttcatcatcgtcgtcg	0.403													5	40	---	---	---	---	PASS	G	2818169	G	G	2818169	4	3	163	1	0	0	0	0	0	1	0	0	15168	838	29	2	7678	2	SRRM2	16	2818169	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3455	2818169	87536584	1048	58383										
MEFV	4210	broad.mit.edu	37	chr16	3304485	3304485	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gacctcggcctggcccccctCtagcgccctgcaggggccgg	14	19	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:3304485C>G	uc002cun.1	-	2	623	c.583G>C	c.(583-585)GAG>CAG	p.E195Q		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	195					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)	TGGCCCCCCTCTAGCGCCCTG	0.781													3	17	---	---	---	---	PASS	G	3304485	G	G	3304485	3	3	163	1	0	0	0	0	1	0	0	0	9459	922	32	2	1798	2	MEFV	16	3304485	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	486316	3304485	87050268	1049	58384										
ZNF75A	7627	broad.mit.edu	37	chr16	3367379	3367379	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agattttccagtgaagaaaaGaaagaaactttcaacctgga	8	6	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:3367379G>C	uc002cut.3	+	6	927	c.401G>C	c.(400-402)AGA>ACA	p.R134T	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	134					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						GTGAAGAAAAGAAAGAAACTT	0.398													18	95	---	---	---	---	PASS	C	3367379	C	C	3367379	3	2	163	1	0	0	0	0	1	0	0	0	18130	942	33	2	411	2	ZNF75A	16	3367379	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	62894	3367379	86987374	1050	58385										
ZNF75A	7627	broad.mit.edu	37	chr16	3367399	3367399	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaaagaaactttcaacctggAaacaagagctgctcaaactt	7	9	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:3367399A>C	uc002cut.3	+	6	947	c.421A>C	c.(421-423)AAA>CAA	p.K141Q	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	141					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						TTCAACCTGGAAACAAGAGCT	0.398													14	109	---	---	---	---	PASS	C	3367399	C	C	3367399	3	2	163	1	0	0	0	0	1	0	0	0	18130	247	9	5	431	5	ZNF75A	16	3367399	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	20	3367399	86987354	1051	58386										
ZNF434	54925	broad.mit.edu	37	chr16	3433224	3433224	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcccacactgatagggcctCtcccctgtgtgagttcgtag	11	13	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:3433224C>G	uc002cuz.2	-	6	1888	c.1086G>C	c.(1084-1086)GAG>GAC	p.E362D	ZNF434_uc002cux.3_Missense_Mutation_p.E573D|ZNF434_uc010uwx.1_Missense_Mutation_p.E285D|ZNF434_uc002cuy.3_Missense_Mutation_p.E285D	NM_017810	NP_060280	Q9NX65	ZN434_HUMAN	zinc finger protein 434	362					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GATAGGGCCTCTCCCCTGTGT	0.562													21	131	---	---	---	---	PASS	G	3433224	G	G	3433224	3	3	163	1	0	0	0	0	1	0	0	0	17905	912	32	2	375	2	ZNF434	16	3433224	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	65825	3433224	86921529	1052	58387										
ADCY9	115	broad.mit.edu	37	chr16	4164000	4164000	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gactctcatgttcaccatctCcttcttctcctggcagaact	5	15	5	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:4164000C>G	uc002cvx.2	-	2	1983	c.1444G>C	c.(1444-1446)GAG>CAG	p.E482Q		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	482	Cytoplasmic (Potential).|Guanylate cyclase 1.				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						TTCACCATCTCCTTCTTCTCC	0.597													41	177	---	---	---	---	PASS	G	4164000	G	G	4164000	3	3	163	1	0	0	0	0	1	0	0	0	301	864	30	2	2657	2	ADCY9	16	4164000	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	730776	4164000	86190753	1053	58388										
ERCC4	2072	broad.mit.edu	37	chr16	14026042	14026042	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttcttgactccagcacctcGatgtttataaatgctcgagc	7	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:14026042G>A	uc002dce.2	+	6	1011	c.1002G>A	c.(1000-1002)TCG>TCA	p.S334S	ERCC4_uc010bva.2_Silent_p.S334S|ERCC4_uc010uyz.1_5'UTR	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	334					double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						CCAGCACCTCGATGTTTATAA	0.338			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				34	187	---	---	---	---	PASS	A	14026042	A	A	14026042	2	1	163	1	0	0	0	0	0	0	0	1	5215	1045	37	2		2	ERCC4	16	14026042	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	9862042	14026042	76328711	1054	58389										
MPV17L	255027	broad.mit.edu	37	chr16	15494693	15494693	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atatttttggacctgaaacaGaaattctggaatacctatct	6	7	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:15494693G>C	uc002ddn.2	+	2	504	c.360G>C	c.(358-360)CAG>CAC	p.Q120H	MPV17L_uc002ddm.2_Intron	NM_001128423	NP_001121895	Q2QL34	MP17L_HUMAN	MPV17 mitochondrial membrane protein-like	120	Lumenal.					integral to membrane|peroxisomal membrane					0						ACCTGAAACAGAAATTCTGGA	0.254													8	28	---	---	---	---	PASS	C	15494693	C	C	15494693	3	2	163	1	0	0	0	0	1	0	0	0	9746	933	33	2	366	2	MPV17L	16	15494693	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1468651	15494693	74860060	1055	58390										
KIAA0430	9665	broad.mit.edu	37	chr16	15702352	15702352	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acctctgtcagagtaaggatCttttcttctccacattccaa	5	12	5	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:15702352C>G	uc002ddr.2	-	21	4171	c.3978G>C	c.(3976-3978)AAG>AAC	p.K1326N	KIAA0430_uc002ddq.2_Missense_Mutation_p.K1160N|KIAA0430_uc010uzv.1_Missense_Mutation_p.K1322N|KIAA0430_uc010uzw.1_Missense_Mutation_p.K1325N	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	1325						peroxisome	nucleotide binding|RNA binding				0						GAGTAAGGATCTTTTCTTCTC	0.423													13	62	---	---	---	---	PASS	G	15702352	G	G	15702352	3	3	163	1	0	0	0	0	1	0	0	0	8177	912	32	2	1278	2	KIAA0430	16	15702352	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	207659	15702352	74652401	1056	58391										
ABCC1	4363	broad.mit.edu	37	chr16	16205279	16205279	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgaaggccatcggactcttCatctccttcctcagcatctt	6	14	5	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:16205279C>A	uc010bvi.2	+	22	3094	c.2919C>A	c.(2917-2919)TTC>TTA	p.F973L	ABCC1_uc010bvj.2_Missense_Mutation_p.F914L|ABCC1_uc010bvk.2_Missense_Mutation_p.F917L|ABCC1_uc010bvl.2_Missense_Mutation_p.F973L|ABCC1_uc010bvm.2_Missense_Mutation_p.F858L|ABCC1_uc002del.3_Missense_Mutation_p.F867L	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	973	Helical; Name=12.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TCGGACTCTTCATCTCCTTCC	0.493													38	170	---	---	---	---	PASS	A	16205279	A	A	16205279	3	1	163	1	0	0	0	0	1	0	0	0	49	825	29	2	3005	2	ABCC1	16	16205279	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	502927	16205279	74149474	1057	58392										
ACSM1	116285	broad.mit.edu	37	chr16	20636813	20636813	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgctgggtgctccaccaaagCgctttcaacctctgcaggcc	10	16	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:20636813C>T	uc002dhm.1	-	11	1527	c.1459G>A	c.(1459-1461)GCT>ACT	p.A487T	ACSM1_uc002dhn.1_Intron|ACSM1_uc010bwg.1_Missense_Mutation_p.A487T	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	487					benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						TCCACCAAAGCGCTTTCAACC	0.602													8	38	---	---	---	---	PASS	T	20636813	T	T	20636813	3	4	163	1	0	0	0	0	1	0	0	0	182	768	27	1	286	1	ACSM1	16	20636813	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4431534	20636813	69717940	1058	58393										
TNRC6A	27327	broad.mit.edu	37	chr16	24788259	24788259	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttttgttgggattagtgccaGaacagataaagcccagtgta	11	6	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:24788259G>C	uc002dmm.2	+	5	283	c.169G>C	c.(169-171)GAA>CAA	p.E57Q	TNRC6A_uc010bxs.2_5'UTR	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	57					negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		ATTAGTGCCAGAACAGATAAA	0.433													13	79	---	---	---	---	PASS	C	24788259	C	C	24788259	3	2	163	1	0	0	0	0	1	0	0	0	16337	943	33	2	187	2	TNRC6A	16	24788259	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4151446	24788259	65566494	1059	58394										
SLC5A11	115584	broad.mit.edu	37	chr16	24902291	24902291	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctgcgggctgccccgggaaGatgccttccatattttccga	12	13	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:24902291G>A	uc002dmu.2	+	9	998	c.766G>A	c.(766-768)GAT>AAT	p.D256N	SLC5A11_uc002dms.2_Missense_Mutation_p.D192N|SLC5A11_uc010vcd.1_Missense_Mutation_p.D221N|SLC5A11_uc002dmt.2_Intron|SLC5A11_uc010vce.1_Missense_Mutation_p.D186N|SLC5A11_uc010bxt.2_Missense_Mutation_p.D192N	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	256	Extracellular (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		GCCCCGGGAAGATGCCTTCCA	0.577													41	157	---	---	---	---	PASS	A	24902291	A	A	24902291	3	1	163	1	0	0	0	0	1	0	0	0	14663	942	33	2	796	2	SLC5A11	16	24902291	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	114032	24902291	65452462	1060	58395										
JMJD5	79831	broad.mit.edu	37	chr16	27221543	27221543	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgcacagtaaagaagacctGaagttggacctcggggagaa	13	9	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:27221543G>C	uc002doh.2	+	2	281	c.99G>C	c.(97-99)CTG>CTC	p.L33L	JMJD5_uc010bxv.2_Silent_p.L33L|JMJD5_uc010vcn.1_Silent_p.L71L|JMJD5_uc010bxw.2_Silent_p.L33L	NM_024773	NP_079049	Q8N371	KDM8_HUMAN	jumonji domain containing 5 isoform 2	33					G2/M transition of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|histone demethylase activity (H3-K36 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(2)|upper_aerodigestive_tract(1)	3						AAGAAGACCTGAAGTTGGACC	0.612													11	64	---	---	---	---	PASS	C	27221543	C	C	27221543	2	2	163	1	0	0	0	0	0	0	0	1	7952	1277	45	2		2	JMJD5	16	27221543	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	2319252	27221543	63133210	1061	58396										
IL4R	3566	broad.mit.edu	37	chr16	27363887	27363887	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atctataacgtgacctacctAgaaccctccctccgcatcgc	5	17	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:27363887A>G	uc002don.2	+	7	782	c.540A>G	c.(538-540)CTA>CTG	p.L180L	IL4R_uc002dom.2_Silent_p.L180L|IL4R_uc002dop.3_Silent_p.L165L|IL4R_uc010bxy.2_Silent_p.L180L|IL4R_uc002doo.2_Silent_p.L20L	NM_000418	NP_000409	P24394	IL4RA_HUMAN	interleukin 4 receptor alpha chain isoform a	180	Extracellular (Potential).|Fibronectin type-III.				immune response|production of molecular mediator involved in inflammatory response	integral to plasma membrane	identical protein binding|interleukin-4 receptor activity|receptor signaling protein activity			ovary(1)|skin(1)	2						TGACCTACCTAGAACCCTCCC	0.597													31	95	---	---	---	---	PASS	G	27363887	G	G	27363887	2	3	163	1	0	0	0	0	0	0	0	1	7698	407	15	5		5	IL4R	16	27363887	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	142344	27363887	62990866	1062	58397										
ATP2A1	487	broad.mit.edu	37	chr16	28914161	28914161	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggcatagactgtgaggtcttCgaggcccccgagcccatgac	13	13	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:28914161C>T	uc002dro.1	+	19	2857	c.2673C>T	c.(2671-2673)TTC>TTT	p.F891F	uc010vct.1_Intron|ATP2A1_uc002drn.1_Silent_p.F891F|ATP2A1_uc002drp.1_Silent_p.F766F	NM_173201	NP_775293	O14983	AT2A1_HUMAN	ATPase, Ca++ transporting, fast twitch 1 isoform	891	Lumenal (By similarity).				apoptosis in response to endoplasmic reticulum stress|apoptotic mitochondrial changes|ATP biosynthetic process|calcium ion import|elevation of endoplasmic reticulum calcium ion concentration|elevation of mitochondrial calcium ion concentration|maintenance of mitochondrion location|negative regulation of striated muscle contraction|platelet activation|positive regulation of fast-twitch skeletal muscle fiber contraction|reduction of endoplasmic reticulum calcium ion concentration|relaxation of skeletal muscle|response to endoplasmic reticulum stress	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|H zone|I band|microsome|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum|sarcoplasmic reticulum membrane	ATP binding|ATP binding|calcium ion binding|calcium ion binding|calcium-transporting ATPase activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GTGAGGTCTTCGAGGCCCCCG	0.617													7	23	---	---	---	---	PASS	T	28914161	T	T	28914161	2	4	163	1	0	0	0	0	0	0	0	1	1136	883	31	2		2	ATP2A1	16	28914161	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1550274	28914161	61440592	1063	58398										
ZNF48	197407	broad.mit.edu	37	chr16	30409555	30409555	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgcgggtgcacacgggtgaGaagccctacctctgcccaga	13	14	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:30409555G>A	uc002dya.1	+	2	1043	c.984G>A	c.(982-984)GAG>GAA	p.E328E	ZNF48_uc002dxz.1_Silent_p.E205E	NM_152652	NP_689865	Q96MX3	ZNF48_HUMAN	zinc finger protein 48	328					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACACGGGTGAGAAGCCCTACC	0.637													13	68	---	---	---	---	PASS	A	30409555	A	A	30409555	2	1	163	1	0	0	0	0	0	0	0	1	17931	933	33	2		2	ZNF48	16	30409555	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1495394	30409555	59945198	1064	58399										
ZNF646	9726	broad.mit.edu	37	chr16	31091514	31091514	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcgtgggggtgggggcacccGaaaggcgactcgggaagatc	20	9	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:31091514G>A	uc002eap.2	+	2	4158	c.3869G>A	c.(3868-3870)CGA>CAA	p.R1290Q		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	1290					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						GGGGGCACCCGAAAGGCGACT	0.701													6	27	---	---	---	---	PASS	A	31091514	A	A	31091514	3	1	163	1	0	0	0	0	1	0	0	0	18059	1058	37	2	3871	2	ZNF646	16	31091514	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	681959	31091514	59263239	1065	58400										
ZNF646	9726	broad.mit.edu	37	chr16	31091695	31091695	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caccagaggctgcactcagaGaatcggcggcgacgggctgg	16	12	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:31091695G>C	uc002eap.2	+	2	4339	c.4050G>C	c.(4048-4050)GAG>GAC	p.E1350D		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	1350					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						TGCACTCAGAGAATCGGCGGC	0.687													8	52	---	---	---	---	PASS	C	31091695	C	C	31091695	3	2	163	1	0	0	0	0	1	0	0	0	18059	933	33	2	4052	2	ZNF646	16	31091695	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	181	31091695	59263058	1066	58401										
PRSS53	339105	broad.mit.edu	37	chr16	31098057	31098057	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtgtgtgggtcgtggggtgGgcgagctgcagcagggccag	23	7	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:31098057G>C	uc002eaq.2	-	4	405	c.405C>G	c.(403-405)GCC>GCG	p.A135A	PRSS53_uc002ear.2_5'UTR	NM_001039503	NP_001034592	Q2L4Q9	PRS53_HUMAN	polyserase 3 precursor	135	Peptidase S1 1.				proteolysis	extracellular region	serine-type endopeptidase activity				0						TCGTGGGGTGGGCGAGCTGCA	0.687													10	41	---	---	---	---	PASS	C	31098057	C	C	31098057	2	2	163	1	0	0	0	0	0	0	0	1	12632	1219	43	4		4	PRSS53	16	31098057	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	6362	31098057	59256696	1067	58402										
PRSS36	146547	broad.mit.edu	37	chr16	31150511	31150511	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggaagtagactgcatgcgggGatcccgaggccttggccagt	16	10	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:31150511G>T	uc002ebd.2	-	15	2575	c.2516C>A	c.(2515-2517)TCC>TAC	p.S839Y	PRSS36_uc010vff.1_Missense_Mutation_p.S614Y|PRSS36_uc010vfg.1_Missense_Mutation_p.S834Y|PRSS36_uc010vfh.1_Missense_Mutation_p.S736Y	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	839					proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						TGCATGCGGGGATCCCGAGGC	0.637													16	74	---	---	---	---	PASS	T	31150511	T	T	31150511	3	4	163	1	0	0	0	0	1	0	0	0	12625	1174	41	2	55	2	PRSS36	16	31150511	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	52454	31150511	59204242	1068	58403										
GPT2	84706	broad.mit.edu	37	chr16	46931634	46931634	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctatggggcagcagccaatCaccttcctccggcaggtgag	13	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:46931634C>T	uc002eel.2	+	3	412	c.318C>T	c.(316-318)ATC>ATT	p.I106I	GPT2_uc002eem.2_Silent_p.I6I	NM_133443	NP_597700	Q8TD30	ALAT2_HUMAN	glutamic pyruvate transaminase 2 isoform 1	106					2-oxoglutarate metabolic process|cellular amino acid biosynthetic process|L-alanine metabolic process	mitochondrial matrix	L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2		all_cancers(37;0.0276)|all_epithelial(9;0.0498)|all_lung(18;0.0522)			L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AGCAGCCAATCACCTTCCTCC	0.662													35	32	---	---	---	---	PASS	T	46931634	T	T	46931634	2	4	163	1	0	0	0	0	0	0	0	1	6738	816	29	2		2	GPT2	16	46931634	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	15781123	46931634	43423119	1069	58404										
ADCY7	113	broad.mit.edu	37	chr16	50348317	50348317	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actccttccgcctccgcgtcGgtgagcccgggtgatggagc	14	15	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:50348317G>T	uc002egd.1	+	23	3239	c.2971G>T	c.(2971-2973)GGC>TGC	p.G991C		NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	991	Cytoplasmic (Potential).|Guanylate cyclase 2.				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	CCTCCGCGTCGGTGAGCCCGG	0.607													14	16	---	---	---	---	PASS	T	50348317	T	T	50348317	3	4	163	1	0	0	0	0	1	0	0	0	299	1130	39	1	3061	1	ADCY7	16	50348317	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3416683	50348317	40006436	1070	58405										
NKD1	85407	broad.mit.edu	37	chr16	50655581	50655581	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agaagatggagagagtgagcGaaccctgcccaggctccaag	14	10	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:50655581G>A	uc002egg.1	+	5	552	c.328G>A	c.(328-330)GAA>AAA	p.E110K		NM_033119	NP_149110	Q969G9	NKD1_HUMAN	naked cuticle homolog 1	110					Wnt receptor signaling pathway	cytoplasm|plasma membrane	calcium ion binding|protein binding				0		all_cancers(37;0.229)		GBM - Glioblastoma multiforme(240;0.243)		GAGAGTGAGCGAACCCTGCCC	0.567													8	47	---	---	---	---	PASS	A	50655581	A	A	50655581	3	1	163	1	0	0	0	0	1	0	0	0	10441	1059	37	2	346	2	NKD1	16	50655581	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	307264	50655581	39699172	1071	58406										
CYLD	1540	broad.mit.edu	37	chr16	50821699	50821699	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttttaaattttctcctagatCctgaggaattcttgaatatt	5	6	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:50821699C>A	uc002egp.1	+	14	2459	c.2044C>A	c.(2044-2046)CCT>ACT	p.P682T	CYLD_uc010cbs.1_Missense_Mutation_p.P679T|CYLD_uc002egq.1_Missense_Mutation_p.P679T|CYLD_uc002egr.1_Missense_Mutation_p.P679T	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	682					cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				TCTCCTAGATCCTGAGGAATT	0.254			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				18	32	---	---	---	---	PASS	A	50821699	A	A	50821699	3	1	163	1	0	0	0	0	1	0	0	0	4143	855	30	2	2090	2	CYLD	16	50821699	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	166118	50821699	39533054	1072	58407										
SALL1	6299	broad.mit.edu	37	chr16	51175747	51175747	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgcttttgttagcaaccgggGcctccacctccatggactct	9	15	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:51175747G>T	uc010vgs.1	-	2	417	c.386C>A	c.(385-387)GCC>GAC	p.A129D	SALL1_uc010vgr.1_Missense_Mutation_p.A32D|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	129					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			AGCAACCGGGGCCTCCACCTC	0.438													54	58	---	---	---	---	PASS	T	51175747	T	T	51175747	3	4	163	1	0	0	0	0	1	0	0	0	13810	1203	42	3	3596	3	SALL1	16	51175747	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	354048	51175747	39179006	1073	58408										
SLC12A3	6559	broad.mit.edu	37	chr16	56933518	56933518	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgacatcaaccagaaccctCgggctgagcagtaagttctg	10	12	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:56933518C>G	uc010ccm.2	+	23	2739	c.2710C>G	c.(2710-2712)CGG>GGG	p.R904G	SLC12A3_uc002ekd.3_Missense_Mutation_p.R913G|SLC12A3_uc010ccn.2_Missense_Mutation_p.R912G	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	904	Cytoplasmic (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	CCAGAACCCTCGGGCTGAGCA	0.547													6	172	---	---	---	---	PASS	G	56933518	G	G	56933518	3	3	163	1	0	0	0	0	1	0	0	0	14384	875	31	2	2827	2	SLC12A3	16	56933518	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5757771	56933518	33421235	1074	58409										
KIAA0895L	653319	broad.mit.edu	37	chr16	67214480	67214480	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggcgggctggggggtgcctGatcatacgcctgagcccctg	17	12	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:67214480G>C	uc002ert.2	-	2	809	c.34C>G	c.(34-36)CAG>GAG	p.Q12E	KIAA0895L_uc002err.2_5'Flank|KIAA0895L_uc002ers.2_5'Flank|KIAA0895L_uc002eru.2_Missense_Mutation_p.Q12E|EXOC3L_uc002erv.1_RNA	NM_001040715	NP_001035805	Q68EN5	K895L_HUMAN	hypothetical protein LOC653319	12											0						GGGGGTGCCTGATCATACGCC	0.642													10	39	---	---	---	---	PASS	C	67214480	C	C	67214480	3	2	163	1	0	0	0	0	1	0	0	0	8198	1299	45	2	1405	2	KIAA0895L	16	67214480	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	10280962	67214480	23140273	1075	58410										
FHOD1	29109	broad.mit.edu	37	chr16	67264021	67264021	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggcctgctggtcagcagactCttcatactagcatgactgtc	10	12	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:67264021C>G	uc002esl.2	-	20	3274	c.3162G>C	c.(3160-3162)AAG>AAC	p.K1054N	FHOD1_uc002esk.2_Missense_Mutation_p.K113N|FHOD1_uc010ced.2_Missense_Mutation_p.K861N	NM_013241	NP_037373	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	1054					actin cytoskeleton organization	cytoplasm|cytoskeleton|nucleus	actin binding			breast(2)|ovary(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		TCAGCAGACTCTTCATACTAG	0.627													36	198	---	---	---	---	PASS	G	67264021	G	G	67264021	3	3	163	1	0	0	0	0	1	0	0	0	5882	912	32	2	344	2	FHOD1	16	67264021	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	49541	67264021	23090732	1076	58411										
PLEKHG4	25894	broad.mit.edu	37	chr16	67314196	67314196	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgagtcgggggatgcccaGaggggcacagtagaaagctc	17	8	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:67314196G>C	uc002eso.3	+	1	2784	c.249G>C	c.(247-249)CAG>CAC	p.Q83H	PLEKHG4_uc002esp.3_5'UTR|PLEKHG4_uc002esq.3_Missense_Mutation_p.Q83H|PLEKHG4_uc002esr.1_Intron|PLEKHG4_uc010cef.2_Missense_Mutation_p.Q83H|PLEKHG4_uc002ess.3_Missense_Mutation_p.Q83H|PLEKHG4_uc010ceg.2_Missense_Mutation_p.Q83H	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	83					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		GGGATGCCCAGAGGGGCACAG	0.627													6	51	---	---	---	---	PASS	C	67314196	C	C	67314196	3	2	163	1	0	0	0	0	1	0	0	0	12071	933	33	2	251	2	PLEKHG4	16	67314196	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	50175	67314196	23040557	1077	58412										
LRRC36	55282	broad.mit.edu	37	chr16	67409289	67409289	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcactggaatggctccggctCcctcctcctcaacaagaagt	9	15	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:67409289C>G	uc002esv.2	+	10	1653	c.1634C>G	c.(1633-1635)TCC>TGC	p.S545C	LRRC36_uc002esw.2_RNA|LRRC36_uc002esx.2_Missense_Mutation_p.S424C|LRRC36_uc010vjk.1_Intron|LRRC36_uc010vjl.1_Missense_Mutation_p.P66A|LRRC36_uc002esy.2_Missense_Mutation_p.S55C	NM_018296	NP_060766	Q1X8D7	LRC36_HUMAN	leucine rich repeat containing 36 isoform 1	545											0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0669)|Epithelial(162;0.161)		GGCTCCGGCTCCCTCCTCCTC	0.542													77	290	---	---	---	---	PASS	G	67409289	G	G	67409289	3	3	163	1	0	0	0	0	1	0	0	0	8990	855	30	2	1700	2	LRRC36	16	67409289	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	95093	67409289	22945464	1078	58413										
EDC4	23644	broad.mit.edu	37	chr16	67912273	67912273	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctacctgcaggtgtctgcacGagtggaaacctcatgatggg	13	10	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:67912273G>A	uc002eur.2	+	9	1181	c.1015G>A	c.(1015-1017)GAG>AAG	p.E339K	EDC4_uc010cer.2_5'UTR|EDC4_uc010vkg.1_Missense_Mutation_p.E271K|EDC4_uc010ces.1_Missense_Mutation_p.E182K|EDC4_uc002eus.2_Missense_Mutation_p.E69K	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	339					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		GTGTCTGCACGAGTGGAAACC	0.607													5	166	---	---	---	---	PASS	A	67912273	A	A	67912273	3	1	163	1	0	0	0	0	1	0	0	0	4908	1059	37	2	1049	2	EDC4	16	67912273	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	502984	67912273	22442480	1079	58414										
SLC12A4	6560	broad.mit.edu	37	chr16	67980942	67980942	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccttgagctgggaggcgaaGgtgaggagccgcgggtactt	19	8	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:67980942G>C	uc002euz.2	-	17	2280	c.2139C>G	c.(2137-2139)ACC>ACG	p.T713T	LCAT_uc002euy.1_5'Flank|SLC12A4_uc010ceu.2_Silent_p.T707T|SLC12A4_uc010vkh.1_Silent_p.T682T|SLC12A4_uc010vki.1_Silent_p.T713T|SLC12A4_uc010vkj.1_Silent_p.T715T|SLC12A4_uc002eva.2_Silent_p.T713T|SLC12A4_uc010cev.1_RNA|SLC12A4_uc002evb.2_RNA	NM_005072	NP_005063	Q9UP95	S12A4_HUMAN	solute carrier family 12, member 4 isoform a	713					cell volume homeostasis|potassium ion transport|sodium ion transport	integral to plasma membrane|membrane fraction	potassium:chloride symporter activity			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	GGGAGGCGAAGGTGAGGAGCC	0.657													6	31	---	---	---	---	PASS	C	67980942	C	C	67980942	2	2	163	1	0	0	0	0	0	0	0	1	14385	987	35	4		4	SLC12A4	16	67980942	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	68669	67980942	22373811	1080	58415										
CIRH1A	84916	broad.mit.edu	37	chr16	69199280	69199280	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcccagacaaacagtatacaGattggagccggactgtccag	10	11	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:69199280G>T	uc002ews.3	+	15	1780	c.1684G>T	c.(1684-1686)GAT>TAT	p.D562Y	CIRH1A_uc002ewr.2_Missense_Mutation_p.D562Y|CIRH1A_uc002ewt.3_Missense_Mutation_p.D479Y|CIRH1A_uc010cfi.2_Missense_Mutation_p.D364Y	NM_032830	NP_116219	Q969X6	CIR1A_HUMAN	cirhin	562	WD 11.					nucleolus	protein binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.125)		ACAGTATACAGATTGGAGCCG	0.488													16	86	---	---	---	---	PASS	T	69199280	T	T	69199280	3	4	163	1	0	0	0	0	1	0	0	0	3434	942	33	2	1738	2	CIRH1A	16	69199280	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1218338	69199280	21155473	1081	58416										
KIAA0174	9798	broad.mit.edu	37	chr16	71956497	71956497	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagcaccagttggtggacctGatggaacggtgccaatgccc	13	12	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:71956497G>C	uc002fbj.1	+	9	995	c.712G>C	c.(712-714)GAT>CAT	p.D238H	KIAA0174_uc010cgh.1_Missense_Mutation_p.D238H|KIAA0174_uc002fbk.1_Missense_Mutation_p.D225H|KIAA0174_uc002fbm.1_Missense_Mutation_p.D225H|KIAA0174_uc002fbl.1_Missense_Mutation_p.D225H|KIAA0174_uc002fbn.1_Missense_Mutation_p.D77H|KIAA0174_uc010cgi.1_5'UTR|KIAA0174_uc010cgj.1_Missense_Mutation_p.D157H|KIAA0174_uc010vml.1_RNA|KIAA0174_uc010vmk.1_Missense_Mutation_p.D77H			P53990	IST1_HUMAN	SubName: Full=cDNA FLJ32696 fis, clone TESTI2000358; SubName: Full=cDNA FLJ77725;	225	Interaction with VPS37B.|Interaction with VTA1.				cell cycle|cell division	cytoplasmic membrane-bounded vesicle|ER-Golgi intermediate compartment	protein binding			ovary(1)	1						TGGTGGACCTGATGGAACGGt	0.388													3	135	---	---	---	---	PASS	C	71956497	C	C	71956497	3	2	163	1	0	0	0	0	1	0	0	0	8158	1290	45	2	695	2	KIAA0174	16	71956497	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2757217	71956497	18398256	1082	58417										
CHST6	4166	broad.mit.edu	37	chr16	75512624	75512624	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccagatcaagggcgaggttgCgctgctcgtcctcagagtac	13	12	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:75512624C>G	uc002fef.2	-	3	1283	c.1103G>C	c.(1102-1104)CGC>CCC	p.R368P	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Missense_Mutation_p.R368P	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	368	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						GGCGAGGTTGCGCTGCTCGTC	0.637													54	53	---	---	---	---	PASS	G	75512624	G	G	75512624	3	3	163	1	0	0	0	0	1	0	0	0	3408	768	27	4	88	4	CHST6	16	75512624	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3556127	75512624	14842129	1083	58418										
ADAT1	23536	broad.mit.edu	37	chr16	75642805	75642805	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcctgcaccgcactgcggctCtgttcaaatagtaaatctga	9	12	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:75642805C>G	uc002feo.1	-	8	1227	c.1125G>C	c.(1123-1125)CAG>CAC	p.Q375H	ADAT1_uc002fep.1_Missense_Mutation_p.Q226H	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	375	A to I editase.				tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						CACTGCGGCTCTGTTCAAATA	0.463													22	97	---	---	---	---	PASS	G	75642805	G	G	75642805	3	3	163	1	0	0	0	0	1	0	0	0	284	912	32	2	399	2	ADAT1	16	75642805	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	130181	75642805	14711948	1084	58419										
ADAT1	23536	broad.mit.edu	37	chr16	75642880	75642880	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttggtaaagcagacacattCtgacacctaaatacaaggga	8	8	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:75642880C>G	uc002feo.1	-	8	1152	c.1050G>C	c.(1048-1050)CAG>CAC	p.Q350H	ADAT1_uc002fep.1_Missense_Mutation_p.Q201H	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	350	A to I editase.				tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						CAGACACATTCTGACACCTAA	0.428													22	94	---	---	---	---	PASS	G	75642880	G	G	75642880	3	3	163	1	0	0	0	0	1	0	0	0	284	912	32	2	474	2	ADAT1	16	75642880	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	75	75642880	14711873	1085	58420										
KIAA1609	57707	broad.mit.edu	37	chr16	84514298	84514298	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccaaagcccaaagtaattgTgctgcccccccataccctgc	6	18	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:84514298T>C	uc002fib.2	-	7	1201	c.1094A>G	c.(1093-1095)CAC>CGC	p.H365R	KIAA1609_uc010vod.1_Missense_Mutation_p.H338R|KIAA1609_uc002fic.2_RNA	NM_020947	NP_065998	Q6P9B6	K1609_HUMAN	hypothetical protein LOC57707	365	TLD.						protein binding			ovary(2)	2						AAAGTAATTGTGCTGCCCCCC	0.557													24	56	---	---	---	---	PASS	C	84514298	C	C	84514298	3	2	163	1	0	0	0	0	1	0	0	0	8247	1696	59	5	284	5	KIAA1609	16	84514298	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	8871418	84514298	5840455	1086	58421										
CBFA2T3	863	broad.mit.edu	37	chr16	88945803	88945803	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagctcgtgcgctttgcgctCcgcgtccgacacggctttct	12	15	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:88945803C>G	uc002fmm.1	-	11	1723	c.1537G>C	c.(1537-1539)GAG>CAG	p.E513Q	CBFA2T3_uc002fml.1_Missense_Mutation_p.E427Q|CBFA2T3_uc002fmk.1_Missense_Mutation_p.E12Q	NM_005187	NP_005178	O75081	MTG16_HUMAN	myeloid translocation gene on chromosome 16	513	Potential.				cell proliferation|granulocyte differentiation	Golgi membrane|nucleolus|nucleoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(3)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(80;0.0275)		GCTTTGCGCTCCGCGTCCGAC	0.662			T	RUNX1	AML								7	51	---	---	---	---	PASS	G	88945803	G	G	88945803	3	3	163	1	0	0	0	0	1	0	0	0	2698	864	30	2	432	2	CBFA2T3	16	88945803	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4431505	88945803	1408950	1087	58422										
ZNF778	197320	broad.mit.edu	37	chr16	89293455	89293455	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cacaacggagaagaaacatgGaaatggaagccgtgtgggaa	14	6	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr16:89293455G>A	uc002fmv.2	+	6	1014	c.675G>A	c.(673-675)TGG>TGA	p.W225*	ZNF778_uc010vpf.1_Intron|ZNF778_uc002fmw.1_Nonsense_Mutation_p.W183*|ZNF778_uc010vpg.1_5'UTR	NM_182531	NP_872337	Q96MU6	ZN778_HUMAN	zinc finger protein 778	225					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0269)		AAGAAACATGGAAATGGAAGC	0.522													37	221	---	---	---	---	PASS	A	89293455	A	A	89293455	4	1	163	1	0	0	0	0	0	1	0	0	18148	1183	41	2	693	2	ZNF778	16	89293455	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	347652	89293455	1061298	1088	58423										
PRPF8	10594	broad.mit.edu	37	chr17	1554484	1554484	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gacagcagcatctgcaccctCtcatagtgtgaaggcaggta	11	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:1554484C>G	uc002fte.2	-	42	6885	c.6771G>C	c.(6769-6771)GAG>GAC	p.E2257D	RILP_uc002ftd.2_5'Flank	NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	2257						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		TCTGCACCCTCTCATAGTGTG	0.582													6	47	---	---	---	---	PASS	G	1554484	G	G	1554484	3	3	163	1	0	0	0	0	1	0	0	0	12575	912	32	2	244	2	PRPF8	17	1554484	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08		1554484	79640726	1089	58424										
KIAA0664	23277	broad.mit.edu	37	chr17	2604712	2604712	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgctgacttgccggtcctCggctgtgatcacaaacaggt	12	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:2604712C>T	uc002fuy.1	-	6	819	c.733G>A	c.(733-735)GAG>AAG	p.E245K	KIAA0664_uc002fux.1_Missense_Mutation_p.E177K	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	245							binding			breast(2)	2						TGCCGGTCCTCGGCTGTGATC	0.622													6	9	---	---	---	---	PASS	T	2604712	T	T	2604712	3	4	163	1	0	0	0	0	1	0	0	0	8189	893	31	2	3280	2	KIAA0664	17	2604712	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1050228	2604712	78590498	1090	58425										
ITGAE	3682	broad.mit.edu	37	chr17	3665221	3665221	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcactcaccaaaacaccgtgGtggctccggacaacggtcac	10	15	2	0	rs112400595		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:3665221G>T	uc002fwo.3	-	4	402	c.303C>A	c.(301-303)CAC>CAA	p.H101Q		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	101	FG-GAP 2.|Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		AAACACCGTGGTGGCTCCGGA	0.612													17	38	---	---	---	---	PASS	T	3665221	T	T	3665221	3	4	163	1	0	0	0	0	1	0	0	0	7885	1252	44	3	3348	3	ITGAE	17	3665221	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1060509	3665221	77529989	1091	58426										
ANKFY1	51479	broad.mit.edu	37	chr17	4085544	4085544	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cggggggttccccttctcatCtggcacagacatgtcagctc	11	14	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:4085544C>G	uc002fxq.1	-	15	2091	c.2053G>C	c.(2053-2055)GAT>CAT	p.D685H	ANKFY1_uc002fxn.2_Missense_Mutation_p.D727H|ANKFY1_uc002fxo.2_Missense_Mutation_p.D686H|ANKFY1_uc002fxp.2_Missense_Mutation_p.D684H|ANKFY1_uc010ckp.2_Missense_Mutation_p.D627H	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	685						endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						CCCTTCTCATCTGGCACAGAC	0.562													49	200	---	---	---	---	PASS	G	4085544	G	G	4085544	3	3	163	1	0	0	0	0	1	0	0	0	626	913	32	2	1500	2	ANKFY1	17	4085544	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	420323	4085544	77109666	1092	58427										
VMO1	284013	broad.mit.edu	37	chr17	4689561	4689561	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgaccgccgtgtagccgttCcggccatctgtctgtgcaca	11	14	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:4689561C>G	uc002fyx.2	-	1	169	c.87G>C	c.(85-87)CGG>CGC	p.R29R	VMO1_uc010vsh.1_Silent_p.R29R|VMO1_uc010vsi.1_Silent_p.R29R|VMO1_uc002fyy.2_Silent_p.R29R|GLTPD2_uc002fza.1_5'Flank	NM_182566	NP_872372	Q7Z5L0	VMO1_HUMAN	vitelline membrane outer layer 1 isoform 1	29					vitelline membrane formation	extracellular region				ovary(1)	1						TGTAGCCGTTCCGGCCATCTG	0.557													7	44	---	---	---	---	PASS	G	4689561	G	G	4689561	2	3	163	1	0	0	0	0	0	0	0	1	17174	842	30	2		2	VMO1	17	4689561	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	604017	4689561	76505649	1093	58428										
SPEM1	374768	broad.mit.edu	37	chr17	7324338	7324338	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agctcaccgccatcgccgtcGaggctctcccacacgctgtg	10	18	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:7324338G>A	uc002ggv.2	+	3	369	c.344G>A	c.(343-345)CGA>CAA	p.R115Q	FGF11_uc010vtw.1_Intron	NM_199339	NP_955371	Q8N4L4	SPEM1_HUMAN	spermatid maturation 1	115					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|integral to membrane					0		Prostate(122;0.173)				CATCGCCGTCGAGGCTCTCCC	0.607													14	57	---	---	---	---	PASS	A	7324338	A	A	7324338	3	1	163	1	0	0	0	0	1	0	0	0	15036	1058	37	2	354	2	SPEM1	17	7324338	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2634777	7324338	73870872	1094	58429										
EIF4A1	1973	broad.mit.edu	37	chr17	7481183	7481183	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaggaacgagacgtgattatGagggagtttcgttctggctc	14	6	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:7481183G>C	uc002gho.1	+	17	2270	c.945G>C	c.(943-945)ATG>ATC	p.M315I	EIF4A1_uc002ghr.1_Missense_Mutation_p.M315I|EIF4A1_uc002ghq.1_Missense_Mutation_p.M315I|EIF4A1_uc002ghp.1_Missense_Mutation_p.M315I|SNORA67_uc010cml.1_5'Flank|CD68_uc002ghv.2_5'Flank|CD68_uc002ghu.2_5'Flank	NM_001416	NP_001407	P60842	IF4A1_HUMAN	eukaryotic translation initiation factor 4A	315	Helicase C-terminal.				nuclear-transcribed mRNA poly(A) tail shortening	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA cap binding|translation initiation factor activity			ovary(1)	1						ACGTGATTATGAGGGAGTTTC	0.498													4	98	---	---	---	---	PASS	C	7481183	C	C	7481183	3	2	163	1	0	0	0	0	1	0	0	0	5024	1290	45	2	979	2	EIF4A1	17	7481183	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	156845	7481183	73714027	1095	58430										
EIF4A1	1973	broad.mit.edu	37	chr17	7481745	7481745	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agaggactcttcgagacattGagaccttctacaacacctcc	7	13	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:7481745G>C	uc002gho.1	+	19	2487	c.1162G>C	c.(1162-1164)GAG>CAG	p.E388Q	EIF4A1_uc002ghr.1_3'UTR|EIF4A1_uc002ghq.1_3'UTR|EIF4A1_uc002ghp.1_Missense_Mutation_p.E388Q|CD68_uc002ghv.2_5'Flank|CD68_uc002ghu.2_5'Flank	NM_001416	NP_001407	P60842	IF4A1_HUMAN	eukaryotic translation initiation factor 4A	388	Helicase C-terminal.				nuclear-transcribed mRNA poly(A) tail shortening	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA cap binding|translation initiation factor activity			ovary(1)	1						TCGAGACATTGAGACCTTCTA	0.522													4	128	---	---	---	---	PASS	C	7481745	C	C	7481745	3	2	163	1	0	0	0	0	1	0	0	0	5024	1291	45	2	1204	2	EIF4A1	17	7481745	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	562	7481745	73713465	1096	58431										
FXR2	9513	broad.mit.edu	37	chr17	7498076	7498076	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtcggcaagcctcgggagtCtaaaggaagaacagcaggga	15	8	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:7498076C>G	uc002gia.1	-	9	1059	c.832_splice	c.e9-1	p.T278_splice	FXR2_uc010vud.1_Splice_Site_p.T278_splice	NM_004860	NP_004851	P51116	FXR2_HUMAN	fragile X mental retardation syndrome related							cytosolic large ribosomal subunit	protein binding|RNA binding				0				READ - Rectum adenocarcinoma(115;0.17)		CCTCGGGAGTCTAAAGGAAGA	0.363													12	76	---	---	---	---	PASS	G	7498076	G	G	7498076	5	3	163	1	0	0	0	0	0	0	1	0	6116	927	32	2	1126	2	FXR2	17	7498076	Splice_Site	SNP	C	TCGA-66-2785-01A-01D-1522-08	16331	7498076	73697134	1097	58432										
DNAH2	146754	broad.mit.edu	37	chr17	7695336	7695336	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctgtggatgaggagggccgGaagaggatcgacagctacct	16	8	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:7695336G>C	uc002giu.1	+	44	7016	c.7002G>C	c.(7000-7002)CGG>CGC	p.R2334R		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2334					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				AGGAGGGCCGGAAGAGGATCG	0.547													31	158	---	---	---	---	PASS	C	7695336	C	C	7695336	2	2	163	1	0	0	0	0	0	0	0	1	4602	1161	41	2		2	DNAH2	17	7695336	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	197260	7695336	73499874	1098	58433										
KDM6B	23135	broad.mit.edu	37	chr17	7751800	7751800	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaaggagccctttgcatctCtgcagtctcctttccccacc	7	16	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:7751800C>G	uc002giw.1	+	11	2570	c.2194C>G	c.(2194-2196)CTG>GTG	p.L732V	KDM6B_uc002gix.2_Missense_Mutation_p.L34V	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	732	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						CTTTGCATCTCTGCAGTCTCC	0.478													26	74	---	---	---	---	PASS	G	7751800	G	G	7751800	3	3	163	1	0	0	0	0	1	0	0	0	8138	912	32	2	2224	2	KDM6B	17	7751800	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	56464	7751800	73443410	1099	58434										
GAS7	8522	broad.mit.edu	37	chr17	9830003	9830003	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcgagctgcttgcgaaggtcGgcaatgtggtggtcgcactt	16	9	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:9830003G>A	uc002gmg.1	-	10	1130	c.969C>T	c.(967-969)GCC>GCT	p.A323A	GAS7_uc010vvc.1_Silent_p.A137A|GAS7_uc002gmh.1_Silent_p.A183A|GAS7_uc010vvd.1_Silent_p.A275A|GAS7_uc002gmi.2_Silent_p.A259A|GAS7_uc002gmj.1_Silent_p.A263A|GAS7_uc010coh.1_Silent_p.A263A	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	323	Potential.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						TGCGAAGGTCGGCAATGTGGT	0.592			T	MLL	AML*								12	79	---	---	---	---	PASS	A	9830003	A	A	9830003	2	1	163	1	0	0	0	0	0	0	0	1	6250	1103	39	1		1	GAS7	17	9830003	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	2078203	9830003	71365207	1100	58435										
MYH13	8735	broad.mit.edu	37	chr17	10231375	10231375	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attttgaagaacaggttcatCcagggccagtgcttgacgtt	11	8	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:10231375C>G	uc002gmk.1	-	22	2589	c.2499G>C	c.(2497-2499)TGG>TGC	p.W833C		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	833					muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						ACAGGTTCATCCAGGGCCAGT	0.483											OREG0024177	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	58	---	---	---	---	PASS	G	10231375	G	G	10231375	3	3	163	1	0	0	0	0	1	0	0	0	10032	856	30	2	3397	2	MYH13	17	10231375	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	401372	10231375	70963835	1101	58436										
MYH1	4619	broad.mit.edu	37	chr17	10417367	10417367	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttcttccttcttcttctccCcagtaactgcaattgttgca	4	14	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:10417367C>A	uc002gmo.2	-	7	702	c.608G>T	c.(607-609)GGG>GTG	p.G203V	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	203	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CTTCTTCTCCCCAGTAACTGC	0.473													50	76	---	---	---	---	PASS	A	10417367	A	A	10417367	3	1	163	1	0	0	0	0	1	0	0	0	10029	623	22	3	5347	3	MYH1	17	10417367	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	185992	10417367	70777843	1102	58437										
MYOCD	93649	broad.mit.edu	37	chr17	12666889	12666889	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accagcagccccagcatcttCaacatcgatttcctggatgt	7	14	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:12666889C>G	uc002gnn.2	+	13	3044	c.2745C>G	c.(2743-2745)TTC>TTG	p.F915L	MYOCD_uc002gno.2_Missense_Mutation_p.F963L|MYOCD_uc002gnq.2_Missense_Mutation_p.F639L	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	915					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CCAGCATCTTCAACATCGATT	0.517													33	58	---	---	---	---	PASS	G	12666889	G	G	12666889	3	3	163	1	0	0	0	0	1	0	0	0	10087	825	29	2	2955	2	MYOCD	17	12666889	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2249522	12666889	68528321	1103	58438										
PRPSAP2	5636	broad.mit.edu	37	chr17	18775920	18775920	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagagtacaaattcaagagtCtgtgaggggaaaagatgttt	12	3	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:18775920C>G	uc002gup.1	+	5	408	c.197C>G	c.(196-198)TCT>TGT	p.S66C	PRPSAP2_uc002guo.1_5'UTR|PRPSAP2_uc010vyi.1_Intron|PRPSAP2_uc010vyj.1_5'UTR|PRPSAP2_uc010vyk.1_Missense_Mutation_p.S54C	NM_002767	NP_002758	O60256	KPRB_HUMAN	phosphoribosyl pyrophosphate	66					nucleotide biosynthetic process		enzyme inhibitor activity|magnesium ion binding|ribose phosphate diphosphokinase activity			skin(1)	1						ATTCAAGAGTCTGTGAGGGGA	0.353													57	283	---	---	---	---	PASS	G	18775920	G	G	18775920	3	3	163	1	0	0	0	0	1	0	0	0	12582	913	32	2	207	2	PRPSAP2	17	18775920	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6109031	18775920	62419290	1104	58439										
USP22	23326	broad.mit.edu	37	chr17	20922416	20922416	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cctatggtgcagttcgaggtGatctttctccttttcgggtt	11	9	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:20922416G>A	uc002gym.3	-	4	705	c.501C>T	c.(499-501)ATC>ATT	p.I167I	USP22_uc002gyn.3_Silent_p.I155I|USP22_uc002gyl.3_Silent_p.I62I	NM_015276	NP_056091	Q9UPT9	UBP22_HUMAN	ubiquitin thiolesterase 22	167					cell cycle|embryo development|histone deubiquitination|histone H4 acetylation|histone ubiquitination|positive regulation of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1						AGTTCGAGGTGATCTTTCTCC	0.468													5	260	---	---	---	---	PASS	A	20922416	A	A	20922416	2	1	163	1	0	0	0	0	0	0	0	1	17051	1280	45	2		2	USP22	17	20922416	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	2146496	20922416	60272794	1105	58440										
LIG3	3980	broad.mit.edu	37	chr17	33323664	33323664	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tactttaatgatgtcagcttGatggacaggtgagttggcta	12	5	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:33323664G>A	uc002hik.1	+	11	1923	c.1815G>A	c.(1813-1815)TTG>TTA	p.L605L	LIG3_uc002hij.2_Silent_p.L605L	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	605					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	ATGTCAGCTTGATGGACAGGT	0.438								Other_BER_factors					45	214	---	---	---	---	PASS	A	33323664	A	A	33323664	2	1	163	1	0	0	0	0	0	0	0	1	8782	1281	45	2		2	LIG3	17	33323664	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	12401248	33323664	47871546	1106	58441										
MMP28	79148	broad.mit.edu	37	chr17	34095265	34095265	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttacctacagtgatggcatcGaaggaagagtggcagtattt	12	6	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:34095265G>A	uc002hjy.1	-	8	1243	c.984C>T	c.(982-984)TTC>TTT	p.F328F	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	328	Hemopexin-like 1.				proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		TGATGGCATCGAAGGAAGAGT	0.532													26	30	---	---	---	---	PASS	A	34095265	A	A	34095265	2	1	163	1	0	0	0	0	0	0	0	1	9665	1049	37	2		2	MMP28	17	34095265	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	771601	34095265	47099945	1107	58442										
PLEKHH3	79990	broad.mit.edu	37	chr17	40825296	40825296	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtaaatgagggcaacggcctCtgggtccccgcaactttcct	11	13	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:40825296C>G	uc002iau.2	-	6	1134	c.667G>C	c.(667-669)GAG>CAG	p.E223Q	PLEKHH3_uc010cyl.1_5'Flank|PLEKHH3_uc002iat.1_RNA|PLEKHH3_uc002iav.2_RNA|PLEKHH3_uc010cym.1_Intron|PLEKHH3_uc002iaw.2_Missense_Mutation_p.E223Q	NM_024927	NP_079203	Q7Z736	PKHH3_HUMAN	pleckstrin homology domain containing, family H	223					signal transduction	cytoskeleton				large_intestine(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.14)		GCAACGGCCTCTGGGTCCCCG	0.607													34	136	---	---	---	---	PASS	G	40825296	G	G	40825296	3	3	163	1	0	0	0	0	1	0	0	0	12078	922	32	2	1746	2	PLEKHH3	17	40825296	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6730031	40825296	40369914	1108	58443										
GPATCH8	23131	broad.mit.edu	37	chr17	42513912	42513912	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attggaatgggatctgttctCcctgtaacaggaacacataa	9	8	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:42513912C>T	uc002igw.1	-	4	259	c.195G>A	c.(193-195)GGG>GGA	p.G65G	GPATCH8_uc002igv.1_5'UTR|GPATCH8_uc010wiz.1_5'UTR	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	65	G-patch.					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)		GATCTGTTCTCCCTGTAACAG	0.423													51	70	---	---	---	---	PASS	T	42513912	T	T	42513912	2	4	163	1	0	0	0	0	0	0	0	1	6594	869	30	2		2	GPATCH8	17	42513912	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1688616	42513912	38681298	1109	58444										
PLEKHM1	9842	broad.mit.edu	37	chr17	43531171	43531171	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagggactccttgatggcatCtggctctggaacctgggcgg	15	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:43531171C>G	uc002ija.2	-	7	2217	c.2047G>C	c.(2047-2049)GAT>CAT	p.D683H	PLEKHM1_uc010wjm.1_Missense_Mutation_p.D655H|PLEKHM1_uc002ijb.2_Missense_Mutation_p.D158H|PLEKHM1_uc010wjn.1_Missense_Mutation_p.D632H|PLEKHM1_uc002ijc.2_Missense_Mutation_p.D137H	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	683	PH 2.				intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					TTGATGGCATCTGGCTCTGGA	0.592													23	120	---	---	---	---	PASS	G	43531171	G	G	43531171	3	3	163	1	0	0	0	0	1	0	0	0	12080	913	32	2	1147	2	PLEKHM1	17	43531171	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1017259	43531171	37664039	1110	58445										
HOXB9	3219	broad.mit.edu	37	chr17	46700471	46700471	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctttttccgggaagagcgagCgtgcagccagttggcggagg	17	9	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:46700471C>T	uc002inx.2	-	2	748	c.544G>A	c.(544-546)GCT>ACT	p.A182T		NM_024017	NP_076922	P17482	HXB9_HUMAN	homeobox B9	182					canonical Wnt receptor signaling pathway|cell chemotaxis	mitochondrion|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GAAGAGCGAGCGTGCAGCCAG	0.547													35	158	---	---	---	---	PASS	T	46700471	T	T	46700471	3	4	163	1	0	0	0	0	1	0	0	0	7308	768	27	1	212	1	HOXB9	17	46700471	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3169300	46700471	34494739	1111	58446										
COL1A1	1277	broad.mit.edu	37	chr17	48263143	48263143	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gattctgggcactcaccgtgCagccatcgacagtgacgctg	12	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:48263143C>A	uc002iqm.2	-	50	4370	c.4244G>T	c.(4243-4245)TGC>TTC	p.C1415F		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	1415	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	ACTCACCGTGCAGCCATCGAC	0.637			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						13	50	---	---	---	---	PASS	A	48263143	A	A	48263143	3	1	163	1	0	0	0	0	1	0	0	0	3677	710	25	3	158	3	COL1A1	17	48263143	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1562672	48263143	32932067	1112	58447										
EPN3	55040	broad.mit.edu	37	chr17	48616632	48616632	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcagcgggacagagagcctGagagagaagagagaaaggag	17	5	1	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:48616632G>C	uc002ira.3	+	5	1282	c.847G>C	c.(847-849)GAG>CAG	p.E283Q	EPN3_uc010wms.1_Missense_Mutation_p.E311Q|EPN3_uc010wmt.1_RNA|EPN3_uc010wmu.1_Missense_Mutation_p.E256Q	NM_017957	NP_060427	Q9H201	EPN3_HUMAN	epsin 3	283						clathrin-coated vesicle|nucleus|perinuclear region of cytoplasm	lipid binding			ovary(1)	1	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;2.88e-09)			CAGAGAGCCTGAGAGAGAAGA	0.577													14	79	---	---	---	---	PASS	C	48616632	C	C	48616632	3	2	163	1	0	0	0	0	1	0	0	0	5187	1291	45	2	861	2	EPN3	17	48616632	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	353489	48616632	32578578	1113	58448										
MMD	23531	broad.mit.edu	37	chr17	53499048	53499048	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caccgctggaatcgattcttGaaccgcattgatcctctgct	8	13	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:53499048G>C	uc002iui.2	-	1	294	c.9C>G	c.(7-9)TTC>TTG	p.F3L		NM_012329	NP_036461	Q15546	PAQRB_HUMAN	monocyte to macrophage	3	Cytoplasmic (Potential).				cytolysis	integral to plasma membrane|late endosome membrane|lysosomal membrane|membrane fraction	receptor activity				0						ATCGATTCTTGAACCGCATTG	0.577													4	127	---	---	---	---	PASS	C	53499048	C	C	53499048	3	2	163	1	0	0	0	0	1	0	0	0	9643	1281	45	2	735	2	MMD	17	53499048	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4882416	53499048	27696162	1114	58449										
ANKFN1	162282	broad.mit.edu	37	chr17	54428250	54428250	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggaacctctctgagaaactGaaagggagccactcttcctt	9	11	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:54428250G>A	uc002iun.1	+	4	356	c.321G>A	c.(319-321)CTG>CTA	p.L107L		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	107										large_intestine(1)|ovary(1)	2						CTGAGAAACTGAAAGGGAGCC	0.443													17	83	---	---	---	---	PASS	A	54428250	A	A	54428250	2	1	163	1	0	0	0	0	0	0	0	1	625	1277	45	2		2	ANKFN1	17	54428250	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	929202	54428250	26766960	1115	58450										
COIL	8161	broad.mit.edu	37	chr17	55027748	55027748	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctgcagttgtatttttggtAgagggttcttcctttgataa	10	5	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:55027748A>T	uc002iuu.2	-	2	886	c.855T>A	c.(853-855)TCT>TCA	p.S285S		NM_004645	NP_004636	P38432	COIL_HUMAN	coilin	285						Cajal body|nucleolus	protein C-terminus binding			ovary(1)	1	Breast(9;6.15e-08)					TATTTTTGGTAGAGGGTTCTT	0.438													52	273	---	---	---	---	PASS	T	55027748	T	T	55027748	2	4	163	1	0	0	0	0	0	0	0	1	3665	407	15	5		5	COIL	17	55027748	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	599498	55027748	26167462	1116	58451										
SKA2	348235	broad.mit.edu	37	chr17	57208656	57208656	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gattacctcacttgctgaatCaggatgattagtcttgattt	8	7	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:57208656C>G	uc002ixd.2	-	2	382	c.106G>C	c.(106-108)GAT>CAT	p.D36H	SKA2_uc002ixc.2_RNA|SKA2_uc010dde.1_Silent_p.L67L|SKA2_uc002ixe.2_RNA	NM_182620	NP_872426	Q8WVK7	SKA2_HUMAN	spindle and KT associated 2 isoform 1	36					cell division|chromosome segregation|mitotic anaphase|mitotic prometaphase|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytosol|spindle microtubule	microtubule binding				0						CTTGCTGAATCAGGATGATTA	0.328													3	14	---	---	---	---	PASS	G	57208656	G	G	57208656	3	3	163	1	0	0	0	0	1	0	0	0	14353	826	29	2	271	2	SKA2	17	57208656	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2180908	57208656	23986554	1117	58452										
ACE	1636	broad.mit.edu	37	chr17	61574285	61574287	+	In_Frame_Del	DEL	GGA	-	-													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgctggactggctccgcacGgagaacgagctgcatgggga					rs138240046		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:61574285_61574287delGGA	uc002jau.1	+	24	3652_3654	c.3630_3632delGGA	c.(3628-3633)ACGGAG>ACG	p.E1211del	ACE_uc002jav.1_In_Frame_Del_p.E637del|ACE_uc010ddv.1_In_Frame_Del_p.E438del|ACE_uc010wpj.1_In_Frame_Del_p.E596del|ACE_uc002jaw.1_RNA|ACE_uc010wpk.1_In_Frame_Del_p.E416del	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	1211	Extracellular (Potential).|Peptidase M2 2.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	GGCTCCGCACGGAGAACGAGCTG	0.655													32	18	---	---	---	---		-	61574287	-	-	61574285	7	5	163	1	0	1	0	1	0	0	0	0	136	1103	39	0	3927	0	ACE	17	61574285	In_Frame_Del	DEL	GGA	TCGA-66-2785-01A-01D-1522-08	4365629	61574285	19620925	1118	58453										
ICAM2	3384	broad.mit.edu	37	chr17	62081218	62081218	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccacggaacaggaagagggtGaggctgtccaggggctccac	16	11	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:62081218G>C	uc002jdu.3	-	3	667	c.435C>G	c.(433-435)CTC>CTG	p.L145L	C17orf72_uc002jdt.3_3'UTR|C17orf72_uc010wpu.1_3'UTR|C17orf72_uc010wpv.1_3'UTR|C17orf72_uc010wpw.1_3'UTR|ICAM2_uc002jdw.3_Silent_p.L145L|ICAM2_uc010ded.2_Silent_p.L145L|ICAM2_uc002jdx.3_Silent_p.L145L|ICAM2_uc002jdv.3_Silent_p.L145L	NM_000873	NP_000864	P13598	ICAM2_HUMAN	intercellular adhesion molecule 2 precursor	145	Ig-like C2-type 2.|Extracellular (Potential).				cell-cell adhesion|regulation of immune response	integral to plasma membrane	integrin binding			ovary(1)	1						GGAAGAGGGTGAGGCTGTCCA	0.607													15	75	---	---	---	---	PASS	C	62081218	C	C	62081218	2	2	163	1	0	0	0	0	0	0	0	1	7480	1277	45	2		2	ICAM2	17	62081218	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	506933	62081218	19113992	1119	58454										
RGS9	8787	broad.mit.edu	37	chr17	63221470	63221470	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgtccttcagcaggtttctGagacgaggctgtctggcctc	12	12	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:63221470G>C	uc002jfe.2	+	18	1868	c.1758G>C	c.(1756-1758)CTG>CTC	p.L586L	RGS9_uc010dem.2_Silent_p.L583L|RGS9_uc002jfd.2_Silent_p.L583L|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Silent_p.L357L	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	586					intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						GCAGGTTTCTGAGACGAGGCT	0.682													24	220	---	---	---	---	PASS	C	63221470	C	C	63221470	2	2	163	1	0	0	0	0	0	0	0	1	13313	1277	45	2		2	RGS9	17	63221470	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1140252	63221470	17973740	1120	58455										
CCDC46	201134	broad.mit.edu	37	chr17	63898434	63898434	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgtcttctcctgttcatgctCcagcttcagctctactatct	5	15	6	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:63898434C>G	uc002jfl.2	-	20	2218	c.1999G>C	c.(1999-2001)GAG>CAG	p.E667Q	CCDC46_uc010deo.2_Missense_Mutation_p.E409Q|CCDC46_uc002jfm.2_Missense_Mutation_p.E667Q|CCDC46_uc010dep.2_Missense_Mutation_p.E625Q	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	667	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			TGTTCATGCTCCAGCTTCAGC	0.438													16	99	---	---	---	---	PASS	G	63898434	G	G	63898434	3	3	163	1	0	0	0	0	1	0	0	0	2817	864	30	2	1066	2	CCDC46	17	63898434	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	676964	63898434	17296776	1121	58456										
ABCA9	10350	broad.mit.edu	37	chr17	66992106	66992106	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggtgccaaaaaatagccctAgaaatccatattcatttaga	6	8	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:66992106A>G	uc002jhu.2	-	26	3628	c.3485T>C	c.(3484-3486)CTA>CCA	p.L1162P	ABCA9_uc010dez.2_Missense_Mutation_p.L1124P	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1162					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					AAATAGCCCTAGAAATCCATA	0.373													18	90	---	---	---	---	PASS	G	66992106	G	G	66992106	3	3	163	1	0	0	0	0	1	0	0	0	39	420	15	5	1445	5	ABCA9	17	66992106	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	3093672	66992106	14203104	1122	58457										
DNAI2	64446	broad.mit.edu	37	chr17	72285829	72285829	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tactcctgcttggattttcaGcgggcacctgtgggcatgag	13	10	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:72285829G>T	uc002jkf.2	+	5	663	c.564G>T	c.(562-564)CAG>CAT	p.Q188H	DNAI2_uc002jkg.2_RNA|DNAI2_uc010dfp.2_RNA	NM_023036	NP_075462	Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate polypeptide 2	188	WD 1.				cilium assembly	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	microtubule motor activity			ovary(2)|central_nervous_system(1)	3						TGGATTTTCAGCGGGCACCTG	0.622									Kartagener_syndrome				13	65	---	---	---	---	PASS	T	72285829	T	T	72285829	3	4	163	1	0	0	0	0	1	0	0	0	4610	962	34	3	578	3	DNAI2	17	72285829	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5293723	72285829	8909381	1123	58458										
CASKIN2	57513	broad.mit.edu	37	chr17	73499763	73499763	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgtagctgggcagccactCggcgatgctgagctgagcga	16	10	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:73499763C>T	uc002joc.2	-	16	2207	c.1657G>A	c.(1657-1659)GAG>AAG	p.E553K	CASKIN2_uc010wsc.1_Missense_Mutation_p.E471K	NM_020753	NP_065804	Q8WXE0	CSKI2_HUMAN	cask-interacting protein 2 isoform a	553						cytoplasm				pancreas(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGCAGCCACTCGGCGATGCTG	0.617													16	43	---	---	---	---	PASS	T	73499763	T	T	73499763	3	4	163	1	0	0	0	0	1	0	0	0	2667	893	31	2	1971	2	CASKIN2	17	73499763	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1213934	73499763	7695447	1124	58459										
EVPL	2125	broad.mit.edu	37	chr17	74011346	74011346	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctcctgcagagcccccggttCagcagggatgggggcctcct	14	15	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:74011346C>T	uc002jqi.2	-	16	2218	c.1990G>A	c.(1990-1992)GAA>AAA	p.E664K	EVPL_uc010wss.1_Missense_Mutation_p.E686K|EVPL_uc010wst.1_Missense_Mutation_p.E134K	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	664	Globular 1.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						GCCCCCGGTTCAGCAGGGATG	0.682													3	19	---	---	---	---	PASS	T	74011346	T	T	74011346	3	4	163	1	0	0	0	0	1	0	0	0	5292	835	29	2	4139	2	EVPL	17	74011346	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	511583	74011346	7183864	1125	58460										
RNF157	114804	broad.mit.edu	37	chr17	74148493	74148493	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgctttcacgcttgcgatgtCaaagtcattgttattgtcac	8	9	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:74148493C>G	uc002jqz.2	-	18	1933	c.1864G>C	c.(1864-1866)GAC>CAC	p.D622H	RNF157_uc002jra.2_Missense_Mutation_p.D600H|uc002jqy.1_Intron	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	622							zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			CTTGCGATGTCAAAGTCATTG	0.488													23	131	---	---	---	---	PASS	G	74148493	G	G	74148493	3	3	163	1	0	0	0	0	1	0	0	0	13454	826	29	2	183	2	RNF157	17	74148493	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	137147	74148493	7046717	1126	58461										
DNAH17	8632	broad.mit.edu	37	chr17	76433779	76433779	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgcatgcccgtggggggctCgttggtgatcttgatggcgt	18	8	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:76433779C>G	uc010dhp.1	-	19	3199	c.2977G>C	c.(2977-2979)GAG>CAG	p.E993Q	DNAH17_uc002jvq.2_Missense_Mutation_p.E278Q|DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			GTGGGGGGCTCGTTGGTGATC	0.657													12	30	---	---	---	---	PASS	G	76433779	G	G	76433779	3	3	163	1	0	0	0	0	1	0	0	0	4601	893	31	2	1443	2	DNAH17	17	76433779	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2285286	76433779	4761431	1127	58462										
TIMP2	7077	broad.mit.edu	37	chr17	76869934	76869934	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atctcatactggatcctcttGatagggttgccataaatgtc	8	9	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:76869934G>C	uc002jwf.2	-	2	500	c.198C>G	c.(196-198)ATC>ATG	p.I66M	TIMP2_uc002jwe.2_Translation_Start_Site|TIMP2_uc010wty.1_Translation_Start_Site	NM_003255	NP_003246	P16035	TIMP2_HUMAN	TIMP metallopeptidase inhibitor 2 precursor	66	NTR.						metal ion binding|metalloendopeptidase inhibitor activity			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.194)			GGATCCTCTTGATAGGGTTGC	0.527													29	96	---	---	---	---	PASS	C	76869934	C	C	76869934	3	2	163	1	0	0	0	0	1	0	0	0	15915	1280	45	2	480	2	TIMP2	17	76869934	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	436155	76869934	4325276	1128	58463										
CCDC40	55036	broad.mit.edu	37	chr17	78021137	78021137	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgggcgtccagcaccgcttCcggctgagccacgggagcga	15	14	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:78021137C>G	uc010dht.2	+	4	639	c.612C>G	c.(610-612)TTC>TTG	p.F204L	CCDC40_uc010wub.1_Missense_Mutation_p.F204L|CCDC40_uc002jxm.3_5'Flank	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	204					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			AGCACCGCTTCCGGCTGAGCC	0.617													7	39	---	---	---	---	PASS	G	78021137	G	G	78021137	3	3	163	1	0	0	0	0	1	0	0	0	2812	854	30	2	626	2	CCDC40	17	78021137	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1151203	78021137	3174073	1129	58464										
BAIAP2	10458	broad.mit.edu	37	chr17	79077806	79077806	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accgcaaggctgcccagcccAaatccctgtctcctccgcag	8	19	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:79077806A>G	uc002jzg.2	+	9	1072	c.964A>G	c.(964-966)AAA>GAA	p.K322E	BAIAP2_uc002jyz.3_Missense_Mutation_p.K322E|BAIAP2_uc002jza.2_Missense_Mutation_p.K322E|BAIAP2_uc002jzc.2_Missense_Mutation_p.K322E|BAIAP2_uc002jzb.2_Missense_Mutation_p.K79E|BAIAP2_uc002jzd.2_Missense_Mutation_p.K322E|BAIAP2_uc002jzf.2_Missense_Mutation_p.K322E|BAIAP2_uc002jze.2_Missense_Mutation_p.K355E|BAIAP2_uc010wuh.1_Missense_Mutation_p.K244E|BAIAP2_uc002jzh.2_Missense_Mutation_p.K323E|BAIAP2_uc010wui.1_Missense_Mutation_p.K185E	NM_017451	NP_059345	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2 isoform 2	322					axonogenesis|filopodium assembly|insulin receptor signaling pathway|regulation of actin cytoskeleton organization|response to bacterium	cell junction|cytoskeleton|cytosol|filopodium|nucleus|ruffle	cytoskeletal adaptor activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding				0	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			TGCCCAGCCCAAATCCCTGTC	0.622													27	86	---	---	---	---	PASS	G	79077806	G	G	79077806	3	3	163	1	0	0	0	0	1	0	0	0	1301	131	5	5	998	5	BAIAP2	17	79077806	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	1056669	79077806	2117404	1130	58465										
DCXR	51181	broad.mit.edu	37	chr17	79994269	79994269	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccctgctcaccttgtggggCccgagctctagggccatcac	12	16	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:79994269C>G	uc002kdg.2	-	6	519	c.504G>C	c.(502-504)GGG>GGC	p.G168G		NM_016286	NP_057370	Q7Z4W1	DCXR_HUMAN	dicarbonyl/L-xylulose reductase	168					D-xylose metabolic process|glucose metabolic process|protein homotetramerization|xylulose metabolic process	membrane	binding|L-xylulose reductase (NADP+) activity				0	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			CCTTGTGGGGCCCGAGCTCTA	0.552													13	55	---	---	---	---	PASS	G	79994269	G	G	79994269	2	3	163	1	0	0	0	0	0	0	0	1	4319	726	26	4		4	DCXR	17	79994269	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	916463	79994269	1200941	1131	58466										
TBCD	6904	broad.mit.edu	37	chr17	80897338	80897338	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gacgaggtggtgactgtgctCagtgacactgcgtggtgagt	17	7	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr17:80897338C>G	uc002kfz.2	+	37	3595	c.3465C>G	c.(3463-3465)CTC>CTG	p.L1155L	TBCD_uc002kfy.1_Silent_p.L1193L|TBCD_uc002kgc.2_Silent_p.L274L|TBCD_uc002kgd.2_Silent_p.L147L	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	1155					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			TGACTGTGCTCAGTGACACTG	0.632													3	16	---	---	---	---	PASS	G	80897338	G	G	80897338	2	3	163	1	0	0	0	0	0	0	0	1	15630	813	29	2		2	TBCD	17	80897338	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	903069	80897338	297872	1132	58467										
ZFP161	7541	broad.mit.edu	37	chr18	5291254	5291254	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttaggtgttctttcaggtggGcctgtgtggtgaaacctttt	13	6	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr18:5291254G>T	uc002kmq.2	-	4	1114	c.953C>A	c.(952-954)GCC>GAC	p.A318D	ZFP161_uc002kmr.2_Missense_Mutation_p.A318D|ZFP161_uc010dkp.2_Missense_Mutation_p.A318D	NM_003409	NP_003400	O43829	ZF161_HUMAN	zinc finger protein 161 homolog	318	C2H2-type 2.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTTCAGGTGGGCCTGTGTGGT	0.453													5	105	---	---	---	---	PASS	T	5291254	T	T	5291254	3	4	163	1	0	0	0	0	1	0	0	0	17637	1203	42	3	400	3	ZFP161	18	5291254	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08		5291254	72785994	1133	58468										
GATA6	2627	broad.mit.edu	37	chr18	19780785	19780785	+	Nonstop_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgcgccctggccctggcctGagcccacgccgccaggaggc	15	18	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr18:19780785G>C	uc002ktt.1	+	7	2052	c.1787G>C	c.(1786-1788)TGA>TCA	p.*596S	GATA6_uc002ktu.1_Nonstop_Mutation_p.*596S	NM_005257	NP_005248	Q92908	GATA6_HUMAN	GATA binding protein 6	596					blood coagulation|cardiac vascular smooth muscle cell differentiation|cellular response to hypoxia|intestinal epithelial cell differentiation|male gonad development|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor-beta1 production|negative regulation of transforming growth factor-beta2 production|outflow tract septum morphogenesis|positive regulation of angiogenesis|positive regulation of cell cycle arrest|positive regulation of transcription from RNA polymerase II promoter|response to drug|response to growth factor stimulus		protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(3)	3	all_cancers(21;0.00271)|all_epithelial(16;7.31e-05)|Ovarian(2;0.116)|Lung NSC(20;0.123)|all_lung(20;0.246)		STAD - Stomach adenocarcinoma(5;0.106)			GCCCTGGCCTGAGCCCACGCC	0.682													7	26	---	---	---	---	PASS	C	19780785	C	C	19780785	4	2	163	1	0	0	0	0	0	0	0	0	6258	1285	45	2	1809	2	GATA6	18	19780785	Nonstop_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	14489531	19780785	58296463	1134	58469										
OSBPL1A	114876	broad.mit.edu	37	chr18	21913048	21913048	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcaggaggattgggcctgttGagctaacaattaaaaaaatg	11	5	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr18:21913048G>A	uc002kve.2	-	7	657	c.483C>T	c.(481-483)CTC>CTT	p.L161L		NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	161					cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					TGGGCCTGTTGAGCTAACAAT	0.418													18	79	---	---	---	---	PASS	A	21913048	A	A	21913048	2	1	163	1	0	0	0	0	0	0	0	1	11277	1277	45	2		2	OSBPL1A	18	21913048	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	2132263	21913048	56164200	1135	58470										
ZNF521	25925	broad.mit.edu	37	chr18	22805569	22805569	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttttccaggtggttgtgtttCacatggagctgcaagtcagt	12	7	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr18:22805569C>T	uc002kvk.2	-	4	2560	c.2313G>A	c.(2311-2313)GTG>GTA	p.V771V	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.V771V|ZNF521_uc002kvl.2_Silent_p.V551V	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	771	C2H2-type 18.				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)					GGTTGTGTTTCACATGGAGCT	0.498			T	PAX5	ALL								9	93	---	---	---	---	PASS	T	22805569	T	T	22805569	2	4	163	1	0	0	0	0	0	0	0	1	17962	813	29	2		2	ZNF521	18	22805569	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	892521	22805569	55271679	1136	58471										
SS18	6760	broad.mit.edu	37	chr18	23619391	23619391	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgtggcatattgtattgctGagaaggaggctgctgatgca	14	6	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr18:23619391G>C	uc002kvm.2	-	6	715	c.637C>G	c.(637-639)CAG>GAG	p.Q213E	SS18_uc002kvn.2_Missense_Mutation_p.Q213E|SS18_uc010xbf.1_Missense_Mutation_p.Q131E|SS18_uc010xbg.1_Missense_Mutation_p.Q161E|SS18_uc010xbh.1_Missense_Mutation_p.Q161E|SS18_uc010xbi.1_Missense_Mutation_p.Q190E|SS18_uc010dlz.1_Missense_Mutation_p.Q161E	NM_001007559	NP_001007560	Q15532	SSXT_HUMAN	synovial sarcoma translocation, chromosome 18	213	Gln-rich.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	ligand-dependent nuclear receptor transcription coactivator activity|protein binding		SS18/SSX1(1169)|SS18/SSX2(702)|SS18/SSX4(12)	soft_tissue(1883)|ovary(1)	1884	all_cancers(21;0.000194)|Lung NSC(5;0.000413)|all_lung(6;0.00118)|Ovarian(20;0.124)					TTGTATTGCTGAGAAGGAGGC	0.408			T	SSX1| SSX2	synovial sarcoma								24	153	---	---	---	---	PASS	C	23619391	C	C	23619391	3	2	163	1	0	0	0	0	1	0	0	0	15174	1299	45	2	643	2	SS18	18	23619391	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	813822	23619391	54457857	1137	58472										
KATNAL2	83473	broad.mit.edu	37	chr18	44627345	44627345	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaatctggctcagagatactCagactggcaaagagagttcg	12	8	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr18:44627345C>T	uc002lco.2	+	15	1564	c.1370C>T	c.(1369-1371)TCA>TTA	p.S457L	KATNAL2_uc002lcp.3_Missense_Mutation_p.S384L	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2	529						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						CAGAGATACTCAGACTGGCAA	0.488											OREG0024959	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	54	---	---	---	---	PASS	T	44627345	T	T	44627345	3	4	163	1	0	0	0	0	1	0	0	0	7986	838	29	2	1424	2	KATNAL2	18	44627345	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	21007954	44627345	33449903	1138	58473										
CCDC11	220136	broad.mit.edu	37	chr18	47787576	47787576	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgcatttctgtaaaatactCattttcttctaatgctaaaa	3	7	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr18:47787576C>G	uc002lee.2	-	3	422	c.331G>C	c.(331-333)GAG>CAG	p.E111Q		NM_145020	NP_659457	Q96M91	CCD11_HUMAN	coiled-coil domain containing 11	111	Potential.									ovary(1)|pancreas(1)|skin(1)	3				STAD - Stomach adenocarcinoma(97;2.66e-05)|Colorectal(21;7.57e-05)|Lung(128;0.00932)|READ - Rectum adenocarcinoma(32;0.164)		GTAAAATACTCATTTTCTTCT	0.284													4	91	---	---	---	---	PASS	G	47787576	G	G	47787576	3	3	163	1	0	0	0	0	1	0	0	0	2746	835	29	2	1237	2	CCDC11	18	47787576	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3160231	47787576	30289672	1139	58474										
ME2	4200	broad.mit.edu	37	chr18	48450551	48450551	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cctgatacttttgaagatgcAgtgaatatactgaagccttc	8	8	0	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr18:48450551A>G	uc002ley.2	+	11	1396	c.1140A>G	c.(1138-1140)GCA>GCG	p.A380A	ME2_uc010dpd.2_Silent_p.A380A	NM_002396	NP_002387	P23368	MAOM_HUMAN	malic enzyme 2, NAD(+)-dependent, mitochondrial	380					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)	TTGAAGATGCAGTGAATATAC	0.348													28	125	---	---	---	---	PASS	G	48450551	G	G	48450551	2	3	163	1	0	0	0	0	0	0	0	1	9418	175	7	5		5	ME2	18	48450551	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	662975	48450551	29626697	1140	58475										
ALPK2	115701	broad.mit.edu	37	chr18	56205344	56205344	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtggacccctcctaagtttGagaaggaaattgttgtggtc	12	7	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr18:56205344G>C	uc002lhj.3	-	5	2289	c.2075C>G	c.(2074-2076)TCA>TGA	p.S692*	ALPK2_uc002lhk.1_Nonsense_Mutation_p.S23*	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	692							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						TCCTAAGTTTGAGAAGGAAAT	0.493													32	107	---	---	---	---	PASS	C	56205344	C	C	56205344	4	2	163	1	0	0	0	0	0	1	0	0	545	1294	45	2	4473	2	ALPK2	18	56205344	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	7754793	56205344	21871904	1141	58476										
ZNF516	9658	broad.mit.edu	37	chr18	74091239	74091239	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccacaggcttgctattggccGagggctgcgcgccagcccgg	15	15	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr18:74091239G>A	uc010dqx.1	-	3	3066	c.2831C>T	c.(2830-2832)TCG>TTG	p.S944L	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	944					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		GCTATTGGCCGAGGGCTGCGC	0.682													9	39	---	---	---	---	PASS	A	74091239	A	A	74091239	3	1	163	1	0	0	0	0	1	0	0	0	17957	1059	37	2	677	2	ZNF516	18	74091239	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	17885895	74091239	3986009	1142	58477										
PRSSL1	400668	broad.mit.edu	37	chr19	694935	694935	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cctggagtggggggtcacctCgtggcccccgatgatctggg	17	12	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:694935C>G	uc002lpl.1	-	2	146	c.115G>C	c.(115-117)GAG>CAG	p.E39Q	PRSSL1_uc010xfs.1_Missense_Mutation_p.E38Q	NM_214710	NP_999875	Q6UWY2	PRS57_HUMAN	protease, serine-like 1 precursor	39	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGGTCACCTCGTGGCCCCCG	0.706													6	0	---	---	---	---	PASS	G	694935	G	G	694935	3	3	163	1	0	0	0	0	1	0	0	0	12636	893	31	2	752	2	PRSSL1	19	694935	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08		694935	58434048	1143	58478										
ELANE	1991	broad.mit.edu	37	chr19	855618	855618	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggtggcccagctgccggctCagggacgccgcctgggcaac	16	15	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:855618C>G	uc002lqb.2	+	4	459	c.421C>G	c.(421-423)CAG>GAG	p.Q141E		NM_001972	NP_001963	P08246	ELNE_HUMAN	neutrophil elastase preproprotein	141	Peptidase S1.				cellular calcium ion homeostasis|negative regulation of chemokine biosynthetic process|negative regulation of chemotaxis|negative regulation of inflammatory response|negative regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of MAP kinase activity|positive regulation of smooth muscle cell proliferation|protein catabolic process|proteolysis|response to UV	cell surface|extracellular region|stored secretory granule	bacterial cell surface binding|cytokine binding|heparin binding			pancreas(1)	1					Alpha-1-proteinase inhibitor(DB00058)|Filgrastim(DB00099)|Pegfilgrastim(DB00019)	GCTGCCGGCTCAGGGACGCCG	0.692									Kostmann_syndrome				19	39	---	---	---	---	PASS	G	855618	G	G	855618	3	3	163	1	0	0	0	0	1	0	0	0	5048	827	29	2	435	2	ELANE	19	855618	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	160683	855618	58273365	1144	58479										
CNN2	1265	broad.mit.edu	37	chr19	1036486	1036486	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agaaggcatctctatgacccCaagaaccatatcctgccccc	6	16	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:1036486C>G	uc002lqu.2	+	6	942	c.579C>G	c.(577-579)CCC>CCG	p.P193P	CNN2_uc002lqt.1_Silent_p.P154P|CNN2_uc010drz.1_Silent_p.P45P|CNN2_uc002lqv.2_Silent_p.P154P|CNN2_uc010xgb.1_Silent_p.P182P|CNN2_uc010xgc.1_Silent_p.P214P	NM_004368	NP_004359	Q99439	CNN2_HUMAN	calponin 2 isoform a	193				RRHLYDPKNHILPPMD -> AGISMTPRTISCPPWT (in Ref. 4; BAA20887).	actomyosin structure organization|cellular response to mechanical stimulus|regulation of actin filament-based process	cell-cell junction|stress fiber	actin binding|calmodulin binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCTATGACCCCAAGAACCATA	0.627													14	101	---	---	---	---	PASS	G	1036486	G	G	1036486	2	3	163	1	0	0	0	0	0	0	0	1	3610	581	21	4		4	CNN2	19	1036486	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	180868	1036486	58092497	1145	58480										
MIDN	90007	broad.mit.edu	37	chr19	1255491	1255491	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atcggcaccatcctgcagatCctgaacgacctcctgagcgc	9	16	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:1255491C>T	uc002lrp.2	+	7	1442	c.927C>T	c.(925-927)ATC>ATT	p.I309I		NM_177401	NP_796375	Q504T8	MIDN_HUMAN	midnolin	309						nucleolus					0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCTGCAGATCCTGAACGACC	0.721													5	15	---	---	---	---	PASS	T	1255491	T	T	1255491	2	4	163	1	0	0	0	0	0	0	0	1	9579	845	30	2		2	MIDN	19	1255491	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	219005	1255491	57873492	1146	58481										
SH2D3A	10045	broad.mit.edu	37	chr19	6754983	6754983	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagggggcatcatgggggcaGaaagagatctcagcctgtgg	18	7	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:6754983G>T	uc002mft.2	-	5	1034	c.840C>A	c.(838-840)TTC>TTA	p.F280L	SH2D3A_uc010xjg.1_Missense_Mutation_p.F158L	NM_005490	NP_005481	Q9BRG2	SH23A_HUMAN	SH2 domain containing 3A	280					JNK cascade|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			breast(2)	2						CATGGGGGCAGAAAGAGATCT	0.612													89	325	---	---	---	---	PASS	T	6754983	T	T	6754983	3	4	163	1	0	0	0	0	1	0	0	0	14233	933	33	2	914	2	SH2D3A	19	6754983	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5499492	6754983	52374000	1147	58482										
INSR	3643	broad.mit.edu	37	chr19	7141796	7141796	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgttctcaaagatttcatgCgtcacagggccaacaatgtc	8	10	3	1	rs79490496		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:7141796C>G	uc002mgd.1	-	13	2683	c.2574G>C	c.(2572-2574)ACG>ACC	p.T858T	INSR_uc002mge.1_Silent_p.T846T	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	858	Fibronectin type-III 3.|Extracellular (Potential).		T -> A (in NIDDM).		activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AGATTTCATGCGTCACAGGGC	0.323													13	59	---	---	---	---	PASS	G	7141796	G	G	7141796	2	3	163	1	0	0	0	0	0	0	0	1	7773	755	27	4		4	INSR	19	7141796	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	386813	7141796	51987187	1148	58483										
HNRNPM	4670	broad.mit.edu	37	chr19	8530377	8530377	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attacaggctggaagacttgGaagcacagtatttgtagcaa	11	6	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:8530377G>T	uc010dwe.2	+	6	688	c.608G>T	c.(607-609)GGA>GTA	p.G203V	HNRNPM_uc010dwc.1_Missense_Mutation_p.G203V|HNRNPM_uc010xke.1_Missense_Mutation_p.G164V|HNRNPM_uc010dwd.2_Missense_Mutation_p.G164V|HNRNPM_uc002mka.2_Missense_Mutation_p.G83V	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	203					alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						GGAAGACTTGGAAGCACAGTA	0.378													19	337	---	---	---	---	PASS	T	8530377	T	T	8530377	3	4	163	1	0	0	0	0	1	0	0	0	7271	1174	41	2	630	2	HNRNPM	19	8530377	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1388581	8530377	50598606	1149	58484										
ADAMTS10	81794	broad.mit.edu	37	chr19	8651080	8651080	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgggcactgcagtagtggggGgcgaccgcggagctgtccag	19	10	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:8651080G>A	uc002mkj.1	-	22	2860	c.2586C>T	c.(2584-2586)GCC>GCT	p.A862A	ADAMTS10_uc002mki.1_Silent_p.A349A|ADAMTS10_uc002mkk.1_Silent_p.A494A	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	862	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						AGTAGTGGGGGGCGACCGCGG	0.692											OREG0025221	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	75	---	---	---	---	PASS	A	8651080	A	A	8651080	2	1	163	1	0	0	0	0	0	0	0	1	256	1219	43	3		3	ADAMTS10	19	8651080	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	120703	8651080	50477903	1150	58485										
ZNF558	148156	broad.mit.edu	37	chr19	8922163	8922163	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tattctcttgtgcacagtaaGagaaaagctactgctgaagg	10	7	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:8922163G>C	uc002mkn.1	-	6	1233	c.1003C>G	c.(1003-1005)CTT>GTT	p.L335V	ZNF558_uc010xkh.1_Missense_Mutation_p.L264V|ZNF558_uc010dwg.1_Missense_Mutation_p.L335V	NM_144693	NP_653294	Q96NG5	ZN558_HUMAN	zinc finger protein 558	335	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1						TGCACAGTAAGAGAAAAGCTA	0.433													27	440	---	---	---	---	PASS	C	8922163	C	C	8922163	3	2	163	1	0	0	0	0	1	0	0	0	17986	942	33	2	209	2	ZNF558	19	8922163	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	271083	8922163	50206820	1151	58486										
MUC16	94025	broad.mit.edu	37	chr19	9002184	9002184	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtcatagagctctgatgggtGaaacctgcattgagatggag	14	6	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9002184G>A	uc002mkp.2	-	52	40524	c.40320C>T	c.(40318-40320)TTC>TTT	p.F13440F	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.F257F|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13442	Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTGATGGGTGAAACCTGCAT	0.507													4	69	---	---	---	---	PASS	A	9002184	A	A	9002184	2	1	163	1	0	0	0	0	0	0	0	1	9973	1281	45	2		2	MUC16	19	9002184	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	80021	9002184	50126799	1152	58487										
MUC16	94025	broad.mit.edu	37	chr19	9009662	9009662	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catgtcctccccatactgcaGattggtgatggtaaagttga	10	9	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9009662G>A	uc002mkp.2	-	39	39268	c.39064C>T	c.(39064-39066)CTG>TTG	p.L13022L	MUC16_uc010dwi.2_5'Flank|MUC16_uc010dwj.2_5'Flank|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13024	Extracellular (Potential).|SEA 7.				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						CCATACTGCAGATTGGTGATG	0.537													31	378	---	---	---	---	PASS	A	9009662	A	A	9009662	2	1	163	1	0	0	0	0	0	0	0	1	9973	933	33	2		2	MUC16	19	9009662	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	7478	9009662	50119321	1153	58488										
MUC16	94025	broad.mit.edu	37	chr19	9048215	9048215	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgaaacagttagaacagctGagctggcttctaccccatga	10	10	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9048215G>C	uc002mkp.2	-	5	33620	c.33416C>G	c.(33415-33417)TCA>TGA	p.S11139*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11141	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TAGAACAGCTGAGCTGGCTTC	0.468													14	219	---	---	---	---	PASS	C	9048215	C	C	9048215	4	2	163	1	0	0	0	0	0	1	0	0	9973	1294	45	2	10427	2	MUC16	19	9048215	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	38553	9048215	50080768	1154	58489										
MUC16	94025	broad.mit.edu	37	chr19	9048822	9048822	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgccctagaactagtgaccaGagaggtcaccactcctggta	10	12	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9048822G>C	uc002mkp.2	-	5	33013	c.32809C>G	c.(32809-32811)CTG>GTG	p.L10937V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10939	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTAGTGACCAGAGAGGTCACC	0.498													32	445	---	---	---	---	PASS	C	9048822	C	C	9048822	3	2	163	1	0	0	0	0	1	0	0	0	9973	933	33	2	11034	2	MUC16	19	9048822	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	607	9048822	50080161	1155	58490										
MUC16	94025	broad.mit.edu	37	chr19	9064726	9064726	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatggcttctgtcctggagaCctcagtagtagcaccagtgg	13	10	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9064726C>A	uc002mkp.2	-	3	22924	c.22720G>T	c.(22720-22722)GTC>TTC	p.V7574F		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7576	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTCCTGGAGACCTCAGTAGTA	0.507													24	446	---	---	---	---	PASS	A	9064726	A	A	9064726	3	1	163	1	0	0	0	0	1	0	0	0	9973	507	18	3	21131	3	MUC16	19	9064726	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	15904	9064726	50064257	1156	58491										
MUC16	94025	broad.mit.edu	37	chr19	9072073	9072073	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gttggctttcacattggtctCttctgtgtttatagaaggaa	10	6	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9072073C>G	uc002mkp.2	-	3	15577	c.15373G>C	c.(15373-15375)GAG>CAG	p.E5125Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5127	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACATTGGTCTCTTCTGTGTTT	0.438													42	480	---	---	---	---	PASS	G	9072073	G	G	9072073	3	3	163	1	0	0	0	0	1	0	0	0	9973	922	32	2	28478	2	MUC16	19	9072073	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	7347	9072073	50056910	1157	58492										
MUC16	94025	broad.mit.edu	37	chr19	9085379	9085379	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agaagttatggccattggaaGagggacttcagagctgatac	13	6	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9085379G>C	uc002mkp.2	-	1	6640	c.6436C>G	c.(6436-6438)CTT>GTT	p.L2146V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2146	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCCATTGGAAGAGGGACTTCA	0.498													37	259	---	---	---	---	PASS	C	9085379	C	C	9085379	3	2	163	1	0	0	0	0	1	0	0	0	9973	942	33	2	37423	2	MUC16	19	9085379	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	13306	9085379	50043604	1158	58493			1	60		12	11	5931	N	G_C	2.25539e-13
MUC16	94025	broad.mit.edu	37	chr19	9086274	9086274	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggtgtgcaccccatggctGaggtcaagtgaatctgtggt	14	9	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9086274G>T	uc002mkp.2	-	1	5745	c.5541C>A	c.(5539-5541)CTC>CTA	p.L1847L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1847	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCCCATGGCTGAGGTCAAGTG	0.502													33	201	---	---	---	---	PASS	T	9086274	T	T	9086274	2	4	163	1	0	0	0	0	0	0	0	1	9973	1277	45	2		2	MUC16	19	9086274	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	895	9086274	50042709	1159	58494			1	60		12	11	5931	N	G_C	2.25539e-13
MUC16	94025	broad.mit.edu	37	chr19	9087316	9087316	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggtatctgcctctgactttGaaagttcatgagaaggtgtg	12	6	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9087316G>C	uc002mkp.2	-	1	4703	c.4499C>G	c.(4498-4500)TCA>TGA	p.S1500*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1500	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTCTGACTTTGAAAGTTCATG	0.428													118	742	---	---	---	---	PASS	C	9087316	C	C	9087316	4	2	163	1	0	0	0	0	0	1	0	0	9973	1294	45	2	39360	2	MUC16	19	9087316	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1042	9087316	50041667	1160	58495			1	60		12	11	5931	N	G_C	2.25539e-13
MUC16	94025	broad.mit.edu	37	chr19	9087418	9087418	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgttgaagccatttcctctGtcaaactggtactcagccat	7	12	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9087418G>C	uc002mkp.2	-	1	4601	c.4397C>G	c.(4396-4398)ACA>AGA	p.T1466R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1466	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CATTTCCTCTGTCAAACTGGT	0.473													66	405	---	---	---	---	PASS	C	9087418	C	C	9087418	3	2	163	1	0	0	0	0	1	0	0	0	9973	1377	48	4	39462	4	MUC16	19	9087418	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	102	9087418	50041565	1161	58496			1	60		12	11	5931	N	G_C	2.25539e-13
MUC16	94025	broad.mit.edu	37	chr19	9087899	9087899	+	Missense_Mutation	SNP	C	G	G													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctctccaggagctgtcatctCaggtgaagacccagaagagt							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9087899C>G	uc002mkp.2	-	1	4120	c.3916G>C	c.(3916-3918)GAG>CAG	p.E1306Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1306	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCTGTCATCTCAGGTGAAGAC	0.498													31	388	---	---	---	---	PASS	G	9087899	G	G	9087899	3	3	163	1	0	0	0	0	1	0	0	0	9973	835	29	2	39943	2	MUC16	19	9087899	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	481	9087899	50041084	1162	58497	1038	2	1	60		12	11	5931	N	G_C	2.25539e-13
MUC16	94025	broad.mit.edu	37	chr19	9087904	9087904	+	Missense_Mutation	SNP	G	A	A													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caggagctgtcatctcaggtGaagacccagaagagtaagcc							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9087904G>A	uc002mkp.2	-	1	4115	c.3911C>T	c.(3910-3912)TCA>TTA	p.S1304L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1304	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CATCTCAGGTGAAGACCCAGA	0.493													51	373	---	---	---	---	PASS	A	9087904	A	A	9087904	3	1	163	1	0	0	0	0	1	0	0	0	9973	1294	45	2	39948	2	MUC16	19	9087904	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5	9087904	50041079	1163	58498	1038	2	1	60		12	11	5931	N	G_C	2.25539e-13
MUC16	94025	broad.mit.edu	37	chr19	9088081	9088081	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggatgctgggtgtgtttgttGattcagggtaggtgctgagg	19	3	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9088081G>C	uc002mkp.2	-	1	3938	c.3734C>G	c.(3733-3735)TCA>TGA	p.S1245*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1245	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTGTTTGTTGATTCAGGGTA	0.507													133	802	---	---	---	---	PASS	C	9088081	C	C	9088081	4	2	163	1	0	0	0	0	0	1	0	0	9973	1294	45	2	40125	2	MUC16	19	9088081	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	177	9088081	50040902	1164	58499			1	60		12	11	5931	N	G_C	2.25539e-13
MUC16	94025	broad.mit.edu	37	chr19	9089023	9089023	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	taggaagagctgaaccagttGagtttgtaactgaggtactg	13	5	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9089023G>C	uc002mkp.2	-	1	2996	c.2792C>G	c.(2791-2793)TCA>TGA	p.S931*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	931	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGAACCAGTTGAGTTTGTAAC	0.498													48	238	---	---	---	---	PASS	C	9089023	C	C	9089023	4	2	163	1	0	0	0	0	0	1	0	0	9973	1294	45	2	41067	2	MUC16	19	9089023	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	942	9089023	50039960	1165	58500			1	60		12	11	5931	N	G_C	2.25539e-13
MUC16	94025	broad.mit.edu	37	chr19	9089301	9089301	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccagagacacttgggaggctGagagtgctaggactctctga	14	9	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9089301G>C	uc002mkp.2	-	1	2718	c.2514C>G	c.(2512-2514)CTC>CTG	p.L838L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	838	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTGGGAGGCTGAGAGTGCTAG	0.473													88	462	---	---	---	---	PASS	C	9089301	C	C	9089301	2	2	163	1	0	0	0	0	0	0	0	1	9973	1277	45	2		2	MUC16	19	9089301	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	278	9089301	50039682	1166	58501			1	60		12	11	5931	N	G_C	2.25539e-13
MUC16	94025	broad.mit.edu	37	chr19	9089422	9089422	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccctgctgtctcttcccctGatggagatggatgagtcaga	11	11	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9089422G>A	uc002mkp.2	-	1	2597	c.2393C>T	c.(2392-2394)TCA>TTA	p.S798L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	798	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTCTTCCCCTGATGGAGATGG	0.522													14	798	---	---	---	---	PASS	A	9089422	A	A	9089422	3	1	163	1	0	0	0	0	1	0	0	0	9973	1294	45	2	41466	2	MUC16	19	9089422	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	121	9089422	50039561	1167	58502			1	60		12	11	5931	N	G_C	2.25539e-13
MUC16	94025	broad.mit.edu	37	chr19	9090194	9090194	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctctctgttttcatgctagGacttgtctccacccactgtg	7	13	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9090194G>C	uc002mkp.2	-	1	1825	c.1621C>G	c.(1621-1623)CCT>GCT	p.P541A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	541	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTCATGCTAGGACTTGTCTCC	0.532													24	249	---	---	---	---	PASS	C	9090194	C	C	9090194	3	2	163	1	0	0	0	0	1	0	0	0	9973	1174	41	2	42238	2	MUC16	19	9090194	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	772	9090194	50038789	1168	58503			1	60		12	11	5931	N	G_C	2.25539e-13
MUC16	94025	broad.mit.edu	37	chr19	9091309	9091309	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgctgtcaccttcagttgttGaggtctcagtggggactgtg	14	8	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9091309G>A	uc002mkp.2	-	1	710	c.506C>T	c.(505-507)TCA>TTA	p.S169L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	169	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTCAGTTGTTGAGGTCTCAGT	0.443													17	329	---	---	---	---	PASS	A	9091309	A	A	9091309	3	1	163	1	0	0	0	0	1	0	0	0	9973	1294	45	2	43353	2	MUC16	19	9091309	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1115	9091309	50037674	1169	58504			1	60		12	11	5931	N	G_C	2.25539e-13
OR7D2	162998	broad.mit.edu	37	chr19	9296535	9296535	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatccagaactacagccgttCatatttgggctgttcctgtc	9	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9296535C>G	uc002mkz.1	+	1	266	c.78C>G	c.(76-78)TTC>TTG	p.F26L		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	26	Helical; Name=1; (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						TACAGCCGTTCATATTTGGGC	0.493													7	220	---	---	---	---	PASS	G	9296535	G	G	9296535	3	3	163	1	0	0	0	0	1	0	0	0	11219	825	29	2	80	2	OR7D2	19	9296535	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	205226	9296535	49832448	1170	58505										
ZNF562	54811	broad.mit.edu	37	chr19	9763789	9763789	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttcccacattccttacactGatagggtttctctccagtgt	6	12	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9763789G>C	uc010xks.1	-	6	1280	c.1117C>G	c.(1117-1119)CAG>GAG	p.Q373E	ZNF562_uc002mly.2_Missense_Mutation_p.Q373E|ZNF562_uc002mlx.2_Missense_Mutation_p.Q301E|ZNF562_uc010xkt.1_Missense_Mutation_p.Q336E|ZNF562_uc010xku.1_Missense_Mutation_p.Q304E|ZNF562_uc010xkv.1_Missense_Mutation_p.Q372E|ZNF562_uc010xkw.1_Missense_Mutation_p.Q257E	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	373	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCCTTACACTGATAGGGTTTC	0.423													25	671	---	---	---	---	PASS	C	9763789	C	C	9763789	3	2	163	1	0	0	0	0	1	0	0	0	17990	1299	45	2	167	2	ZNF562	19	9763789	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	467254	9763789	49365194	1171	58506										
OLFM2	93145	broad.mit.edu	37	chr19	9965171	9965171	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgcatgacctcgagggtgtgCgggtccagccggctgaccac	15	14	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:9965171C>T	uc002mmp.2	-	6	1084	c.1056G>A	c.(1054-1056)CCG>CCA	p.P352P	OLFM2_uc002mmo.2_Silent_p.P274P	NM_058164	NP_477512	O95897	NOE2_HUMAN	olfactomedin 2 precursor	352	Olfactomedin-like.					extracellular region				large_intestine(1)|skin(1)	2						CGAGGGTGTGCGGGTCCAGCC	0.642													6	284	---	---	---	---	PASS	T	9965171	T	T	9965171	2	4	163	1	0	0	0	0	0	0	0	1	10853	755	27	1		1	OLFM2	19	9965171	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	201382	9965171	49163812	1172	58507										
PPAN-P2RY11	692312	broad.mit.edu	37	chr19	10224736	10224736	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccaagcacgcctgggccgtGagcgctgccggctgggtcct	15	16	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:10224736G>C	uc002mna.2	+	13	1707	c.1707G>C	c.(1705-1707)GTG>GTC	p.V569V	PPAN-P2RY11_uc010xla.1_3'UTR|P2RY11_uc002mnc.2_Silent_p.V149V	NM_001040664	NP_001035754	Q9NQ55	SSF1_HUMAN	PPAN-P2RY11 protein	Error:Variant_position_missing_in_Q9NQ55_after_alignment					RNA splicing	nucleolus	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(20;2.19e-08)|Epithelial(33;1.76e-05)|all cancers(31;3.54e-05)			CCTGGGCCGTGAGCGCTGCCG	0.682													16	95	---	---	---	---	PASS	C	10224736	C	C	10224736	2	2	163	1	0	0	0	0	0	0	0	1	12289	1277	45	2		2	PPAN-P2RY11	19	10224736	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	259565	10224736	48904247	1173	58508										
ICAM1	3383	broad.mit.edu	37	chr19	10395132	10395132	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagaggtctcagaagggaccGaggtgacagtgaagtgtgag	17	6	1	5	rs143008699		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:10395132G>A	uc002mnq.2	+	5	1298	c.979G>A	c.(979-981)GAG>AAG	p.E327K	ICAM1_uc010xle.1_Missense_Mutation_p.E105K|ICAM4_uc002mnr.1_5'Flank|ICAM4_uc002mns.1_5'Flank|ICAM4_uc002mnt.1_5'Flank	NM_000201	NP_000192	P05362	ICAM1_HUMAN	intercellular adhesion molecule 1 precursor	327	Ig-like C2-type 4.|Extracellular (Potential).				adhesion to symbiont|heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking|positive regulation of cellular extravasation|regulation of immune response|regulation of leukocyte mediated cytotoxicity|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell|virion attachment, binding of host cell surface receptor	extracellular space|integral to plasma membrane	integrin binding|transmembrane receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;2.81e-06)|all cancers(31;6.56e-06)		Natalizumab(DB00108)|Simvastatin(DB00641)	AGAAGGGACCGAGGTGACAGT	0.642													23	333	---	---	---	---	PASS	A	10395132	A	A	10395132	3	1	163	1	0	0	0	0	1	0	0	0	7479	1059	37	2	997	2	ICAM1	19	10395132	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	170396	10395132	48733851	1174	58509										
ICAM5	7087	broad.mit.edu	37	chr19	10403472	10403472	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gacgacagacgcagcttcttCtgcgacgccaccctcgatgt	10	15	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:10403472C>G	uc002mnu.3	+	5	1211	c.1146C>G	c.(1144-1146)TTC>TTG	p.F382L	ICAM5_uc002mnv.3_Missense_Mutation_p.F257L	NM_003259	NP_003250	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5 precursor	382	Extracellular (Potential).|Ig-like C2-type 4.				cell-cell adhesion	integral to plasma membrane				breast(3)	3			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			GCAGCTTCTTCTGCGACGCCA	0.622													19	181	---	---	---	---	PASS	G	10403472	G	G	10403472	3	3	163	1	0	0	0	0	1	0	0	0	7483	912	32	2	1164	2	ICAM5	19	10403472	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	8340	10403472	48725511	1175	58510										
ATG4D	84971	broad.mit.edu	37	chr19	10657529	10657529	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caccagactggacatgggccGagggcatgggcctgggcccc	16	14	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:10657529G>A	uc002mov.2	+	4	628	c.508G>A	c.(508-510)GAG>AAG	p.E170K	ATG4D_uc010xlg.1_Missense_Mutation_p.E193K|ATG4D_uc010xlh.1_Missense_Mutation_p.E107K|ATG4D_uc010dxh.2_RNA|ATG4D_uc010dxi.2_Intron|ATG4D_uc010dxj.2_Intron	NM_032885	NP_116274	Q86TL0	ATG4D_HUMAN	APG4 autophagy 4 homolog D	170					autophagy|protein transport	cytoplasm	cysteine-type endopeptidase activity				0			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			GACATGGGCCGAGGGCATGGG	0.647													13	198	---	---	---	---	PASS	A	10657529	A	A	10657529	3	1	163	1	0	0	0	0	1	0	0	0	1099	1059	37	2	522	2	ATG4D	19	10657529	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	254057	10657529	48471454	1176	58511										
YIPF2	78992	broad.mit.edu	37	chr19	11034586	11034586	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtgtagggccccatgcgctCctggacacccttgcgccacc	12	17	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:11034586C>G	uc002mqb.2	-	7	698	c.574G>C	c.(574-576)GAG>CAG	p.E192Q	YIPF2_uc002mqc.2_Missense_Mutation_p.E192Q	NM_024029	NP_076934	Q9BWQ6	YIPF2_HUMAN	Yip1 domain family, member 2	192	Cytoplasmic (Potential).					integral to membrane|transport vesicle					0						CCCATGCGCTCCTGGACACCC	0.647													4	58	---	---	---	---	PASS	G	11034586	G	G	11034586	3	3	163	1	0	0	0	0	1	0	0	0	17475	864	30	2	388	2	YIPF2	19	11034586	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	377057	11034586	48094397	1177	58512										
SMARCA4	6597	broad.mit.edu	37	chr19	11144055	11144055	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accgtcaacagcgtggaggaGaagatcctagctgcagccaa	12	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:11144055G>C	uc002mqf.3	+	26	3920	c.3636G>C	c.(3634-3636)GAG>GAC	p.E1212D	SMARCA4_uc010dxp.2_Missense_Mutation_p.E1212D|SMARCA4_uc010dxo.2_Missense_Mutation_p.E1212D|SMARCA4_uc010dxq.2_Missense_Mutation_p.E1212D|SMARCA4_uc010dxr.2_Missense_Mutation_p.E1212D|SMARCA4_uc002mqj.3_Missense_Mutation_p.E1212D|SMARCA4_uc010dxs.2_Missense_Mutation_p.E1212D|SMARCA4_uc010dxt.1_Missense_Mutation_p.E432D|SMARCA4_uc002mqh.3_Missense_Mutation_p.E335D|SMARCA4_uc002mqi.1_Missense_Mutation_p.E415D	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	1212	Helicase C-terminal.				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity			lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GCGTGGAGGAGAAGATCCTAG	0.632			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				6	412	---	---	---	---	PASS	C	11144055	C	C	11144055	3	2	163	1	0	0	0	0	1	0	0	0	14770	933	33	2	3734	2	SMARCA4	19	11144055	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	109469	11144055	47984928	1178	58513										
LDLR	3949	broad.mit.edu	37	chr19	11215973	11215973	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggcagttcgtctgtgactcaGaccgggactgcttggacggc	15	11	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:11215973G>C	uc002mqk.3	+	4	559	c.391G>C	c.(391-393)GAC>CAC	p.D131H	LDLR_uc010xlk.1_Missense_Mutation_p.D131H|LDLR_uc010xll.1_Missense_Mutation_p.D90H|LDLR_uc010xlm.1_Intron|LDLR_uc010xln.1_Intron|LDLR_uc010xlo.1_Intron	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	131	Extracellular (Potential).|LDL-receptor class A 3.				cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		Lung NSC(9;0.000245)|Renal(1328;0.0007)|Hepatocellular(1079;0.0524)		GBM - Glioblastoma multiforme(1328;1.36e-05)|STAD - Stomach adenocarcinoma(1328;0.000766)|Lung(535;0.197)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	CTGTGACTCAGACCGGGACTG	0.642													103	723	---	---	---	---	PASS	C	11215973	C	C	11215973	3	2	163	1	0	0	0	0	1	0	0	0	8704	942	33	2	405	2	LDLR	19	11215973	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	71918	11215973	47913010	1179	58514										
KANK2	25959	broad.mit.edu	37	chr19	11280562	11280562	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgagactcaccgagcacttGatgttcatgcgggaatacag	11	9	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:11280562G>C	uc010dxv.2	-	14	3051	c.2493C>G	c.(2491-2493)ATC>ATG	p.I831M	KANK2_uc002mqm.2_Missense_Mutation_p.I839M|KANK2_uc002mqo.3_Missense_Mutation_p.I831M|KANK2_uc002mqp.1_Missense_Mutation_p.I640M	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	831	ANK 5.										0						CCGAGCACTTGATGTTCATGC	0.478													10	170	---	---	---	---	PASS	C	11280562	C	C	11280562	3	2	163	1	0	0	0	0	1	0	0	0	7977	1280	45	2	70	2	KANK2	19	11280562	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	64589	11280562	47848421	1180	58515										
RGL3	57139	broad.mit.edu	37	chr19	11517430	11517430	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggtcagctgctcggccacctCgtccacgctgaagtccagga	12	15	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:11517430C>T	uc002mrp.2	-	6	812	c.748G>A	c.(748-750)GAG>AAG	p.E250K	RGL3_uc002mrn.2_Missense_Mutation_p.E14K|RGL3_uc002mrm.2_Missense_Mutation_p.E14K|RGL3_uc002mro.2_Missense_Mutation_p.E250K	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	250	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						TCGGCCACCTCGTCCACGCTG	0.602													4	57	---	---	---	---	PASS	T	11517430	T	T	11517430	3	4	163	1	0	0	0	0	1	0	0	0	13278	893	31	2	1458	2	RGL3	19	11517430	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	236868	11517430	47611553	1181	58516										
ZNF491	126069	broad.mit.edu	37	chr19	11917204	11917204	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccttggattgtctcagtttaTaccttacccatgaacgaact	6	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:11917204T>C	uc002mso.1	+	3	721	c.436T>C	c.(436-438)TAC>CAC	p.Y146H		NM_152356	NP_689569	Q8N8L2	ZN491_HUMAN	zinc finger protein 491	146	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TCTCAGTTTATACCTTACCCA	0.408													26	112	---	---	---	---	PASS	C	11917204	C	C	11917204	3	2	163	1	0	0	0	0	1	0	0	0	17939	1406	49	5	438	5	ZNF491	19	11917204	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	399774	11917204	47211779	1182	58517										
LPHN1	22859	broad.mit.edu	37	chr19	14262404	14262404	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagggtgtccatgccacaggCttcccggcctcccaaggggt	13	15	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:14262404C>G	uc010xnn.1	-	24	4002	c.3706G>C	c.(3706-3708)GCC>CCC	p.A1236P	LPHN1_uc010xno.1_Missense_Mutation_p.A1231P|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	1236	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						ATGCCACAGGCTTCCCGGCCT	0.642													27	128	---	---	---	---	PASS	G	14262404	G	G	14262404	3	3	163	1	0	0	0	0	1	0	0	0	8915	797	28	4	722	4	LPHN1	19	14262404	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2345200	14262404	44866579	1183	58518										
AKAP8	10270	broad.mit.edu	37	chr19	15465941	15465941	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgctcttccagcagctgttCggcttgaggatcactaccgg	11	13	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:15465941C>T	uc002nav.2	-	14	1925	c.1864G>A	c.(1864-1866)GAA>AAA	p.E622K	AKAP8_uc010dzy.2_Missense_Mutation_p.E171K	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	622					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						AGCAGCTGTTCGGCTTGAGGA	0.657													12	67	---	---	---	---	PASS	T	15465941	T	T	15465941	3	4	163	1	0	0	0	0	1	0	0	0	457	893	31	2	218	2	AKAP8	19	15465941	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1203537	15465941	43663042	1184	58519										
RASAL3	64926	broad.mit.edu	37	chr19	15575156	15575156	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttgggaggtccggcttggcGacggtgggtccatggttggg	20	7	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:15575156G>T	uc002nbe.2	-	2	100	c.14C>A	c.(13-15)TCG>TAG	p.S5*		NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	5					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0						CCGGCTTGGCGACGGTGGGTC	0.602													4	7	---	---	---	---	PASS	T	15575156	T	T	15575156	4	4	163	1	0	0	0	0	0	1	0	0	13065	1059	37	2	3089	2	RASAL3	19	15575156	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	109215	15575156	43553827	1185	58520										
OR10H2	26538	broad.mit.edu	37	chr19	15839699	15839699	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccaccacctacgcagtcctCacgcccttcctcagccccat	5	22	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:15839699C>A	uc002nbm.2	+	1	866	c.846C>A	c.(844-846)CTC>CTA	p.L282L		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	282	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					ACGCAGTCCTCACGCCCTTCC	0.547													19	114	---	---	---	---	PASS	A	15839699	A	A	15839699	2	1	163	1	0	0	0	0	0	0	0	1	10906	813	29	2		2	OR10H2	19	15839699	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	264543	15839699	43289284	1186	58521										
CHERP	10523	broad.mit.edu	37	chr19	16641589	16641589	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggcccacgcacccgggcgatCttctgctgcttgtcttcctc	10	17	3	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:16641589C>A	uc002nei.1	-	6	851	c.777G>T	c.(775-777)AAG>AAT	p.K259N	MED26_uc002nee.2_Intron	NM_006387	NP_006378	Q8IWX8	CHERP_HUMAN	calcium homeostasis endoplasmic reticulum	259	CID.				cellular calcium ion homeostasis|negative regulation of cell proliferation|nervous system development|RNA processing	endoplasmic reticulum|perinuclear region of cytoplasm	RNA binding			ovary(2)	2						CCCGGGCGATCTTCTGCTGCT	0.692													18	34	---	---	---	---	PASS	A	16641589	A	A	16641589	3	1	163	1	0	0	0	0	1	0	0	0	3336	912	32	2	2021	2	CHERP	19	16641589	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	801890	16641589	42487394	1187	58522										
NWD1	284434	broad.mit.edu	37	chr19	16910739	16910739	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggacccttctggacatcctgGaaggcgtcggggcccccgtg	15	14	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:16910739G>A	uc002neu.3	+	17	3924	c.3502G>A	c.(3502-3504)GAA>AAA	p.E1168K	NWD1_uc002net.3_Missense_Mutation_p.E1033K|NWD1_uc002nev.3_Missense_Mutation_p.E962K			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1168	WD 9.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						GGACATCCTGGAAGGCGTCGG	0.592													7	62	---	---	---	---	PASS	A	16910739	A	A	16910739	3	1	163	1	0	0	0	0	1	0	0	0	10781	1175	41	2	3147	2	NWD1	19	16910739	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	269150	16910739	42218244	1188	58523										
MYO9B	4650	broad.mit.edu	37	chr19	17312971	17312971	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cacgtgggctacaaggatctGatggagaactaccagatcgt	12	9	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:17312971G>C	uc010eak.2	+	28	4847	c.4695G>C	c.(4693-4695)CTG>CTC	p.L1565L	MYO9B_uc002nfi.2_Silent_p.L1565L|MYO9B_uc002nfj.1_Silent_p.L1565L|MYO9B_uc002nfl.1_Silent_p.L114L	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	1565	Tail.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						ACAAGGATCTGATGGAGAACT	0.577													8	36	---	---	---	---	PASS	C	17312971	C	C	17312971	2	2	163	1	0	0	0	0	0	0	0	1	10085	1277	45	2		2	MYO9B	19	17312971	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	402232	17312971	41816012	1189	58524										
UNC13A	23025	broad.mit.edu	37	chr19	17743637	17743637	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaaggcgggaagttccgtcaCatactcattgtagagccatt	11	9	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:17743637C>T	uc002nhd.2	-	28	3646	c.3646G>A	c.(3646-3648)GTG>ATG	p.V1216M		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1128	MHD1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						AGTTCCGTCACATACTCATTG	0.552													50	115	---	---	---	---	PASS	T	17743637	T	T	17743637	3	4	163	1	0	0	0	0	1	0	0	0	16981	478	17	3	1793	3	UNC13A	19	17743637	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	430666	17743637	41385346	1190	58525										
RAB3A	5864	broad.mit.edu	37	chr19	18313413	18313413	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgacgaaggcaggcgtgaaCgagtcgtcagcatagcggaa	15	9	1	2	rs144222621		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:18313413C>A	uc002nie.2	-	2	307	c.138G>T	c.(136-138)TCG>TCT	p.S46S		NM_002866	NP_002857	P20336	RAB3A_HUMAN	RAB3A, member RAS oncogene family	46					glutamate secretion|protein transport|small GTPase mediated signal transduction	clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|plasma membrane|synaptic vesicle	GTP binding|GTPase activity				0						CAGGCGTGAACGAGTCGTCAG	0.542											OREG0025360	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	198	---	---	---	---	PASS	A	18313413	A	A	18313413	2	1	163	1	0	0	0	0	0	0	0	1	12931	523	19	1		1	RAB3A	19	18313413	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	569776	18313413	40815570	1191	58526										
LSM4	25804	broad.mit.edu	37	chr19	18423448	18423448	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgacttctcgcaggttaatgTtcatccagttgtcgcagctc	9	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:18423448T>C	uc002niq.2	-	3	281	c.110A>G	c.(109-111)AAC>AGC	p.N37S		NM_012321	NP_036453	Q9Y4Z0	LSM4_HUMAN	U6 snRNA-associated Sm-like protein 4	37					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|mRNA processing|RNA splicing	cytosol|U6 snRNP	protein binding|RNA binding				0						CAGGTTAATGTTCATCCAGTT	0.582													57	120	---	---	---	---	PASS	C	18423448	C	C	18423448	3	2	163	1	0	0	0	0	1	0	0	0	9058	1725	60	5	321	5	LSM4	19	18423448	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	110035	18423448	40705535	1192	58527										
CILP2	148113	broad.mit.edu	37	chr19	19655002	19655002	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaggtgccggcgtgtaccacGaggtcaaggccatgcggaag	17	10	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:19655002G>C	uc002nmv.3	+	8	1733	c.1648G>C	c.(1648-1650)GAG>CAG	p.E550Q	CILP2_uc002nmw.3_Missense_Mutation_p.E556Q	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	550						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						CGTGTACCACGAGGTCAAGGC	0.617													20	156	---	---	---	---	PASS	C	19655002	C	C	19655002	3	2	163	1	0	0	0	0	1	0	0	0	3430	1059	37	2	1678	2	CILP2	19	19655002	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1231554	19655002	39473981	1193	58528										
CILP2	148113	broad.mit.edu	37	chr19	19655137	19655137	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctggcgctttccgcagagccGacggcaaaccctactcgggg	13	15	0	1	rs147931006		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:19655137G>C	uc002nmv.3	+	8	1868	c.1783G>C	c.(1783-1785)GAC>CAC	p.D595H	CILP2_uc002nmw.3_Missense_Mutation_p.D601H	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	595						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						CCGCAGAGCCGACGGCAAACC	0.672													22	153	---	---	---	---	PASS	C	19655137	C	C	19655137	3	2	163	1	0	0	0	0	1	0	0	0	3430	1058	37	2	1813	2	CILP2	19	19655137	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	135	19655137	39473846	1194	58529										
ZNF429	353088	broad.mit.edu	37	chr19	21719720	21719720	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agaagccctacaaatgtgatGaatgtggcaaaacctttagc	9	8	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:21719720G>C	uc002nqd.1	+	4	1002	c.865G>C	c.(865-867)GAA>CAA	p.E289Q	ZNF429_uc010ecu.1_Intron	NM_001001415	NP_001001415	Q86V71	ZN429_HUMAN	zinc finger protein 429	289	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CAAATGTGATGAATGTGGCAA	0.378													11	92	---	---	---	---	PASS	C	21719720	C	C	21719720	3	2	163	1	0	0	0	0	1	0	0	0	17899	1291	45	2	879	2	ZNF429	19	21719720	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2064583	21719720	37409263	1195	58530										
ZNF100	163227	broad.mit.edu	37	chr19	21910188	21910188	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtttcactccagtatgaattCttttatgtgtagtaaggtgt	9	5	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:21910188C>G	uc002nqi.2	-	5	1125	c.926G>C	c.(925-927)AGA>ACA	p.R309T	ZNF100_uc002nqh.2_Missense_Mutation_p.R245T	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	309	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGTATGAATTCTTTTATGTGT	0.388													55	118	---	---	---	---	PASS	G	21910188	G	G	21910188	3	3	163	1	0	0	0	0	1	0	0	0	17710	913	32	2	706	2	ZNF100	19	21910188	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	190468	21910188	37218795	1196	58531										
ZNF208	7757	broad.mit.edu	37	chr19	22154213	22154213	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatatctaagggttgagggcCacttataggctttgccacat	11	8	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:22154213C>A	uc002nqp.2	-	6	3388	c.3239G>T	c.(3238-3240)TGG>TTG	p.W1080L	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GGTTGAGGGCCACTTATAGGC	0.393													17	78	---	---	---	---	PASS	A	22154213	A	A	22154213	3	1	163	1	0	0	0	0	1	0	0	0	17763	595	21	3	223	3	ZNF208	19	22154213	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	244025	22154213	36974770	1197	58532										
ZNF208	7757	broad.mit.edu	37	chr19	22157406	22157406	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atatttgccacgttgaaataCtttgctctgtgtagttgtca	8	7	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:22157406C>T	uc002nqp.2	-	4	579	c.430G>A	c.(430-432)GTA>ATA	p.V144I	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				CGTTGAAATACTTTGCTCTGT	0.318													29	175	---	---	---	---	PASS	T	22157406	T	T	22157406	3	4	163	1	0	0	0	0	1	0	0	0	17763	565	20	3	3416	3	ZNF208	19	22157406	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3193	22157406	36971577	1198	58533										
ZNF492	57615	broad.mit.edu	37	chr19	22846700	22846700	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatataaaaaatgtggatgtGaaaatttacagttaagaaaa	8	1	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:22846700G>A	uc002nqw.3	+	4	473	c.229G>A	c.(229-231)GAA>AAA	p.E77K		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	77					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				ATGTGGATGTGAAAATTTACA	0.348													8	25	---	---	---	---	PASS	A	22846700	A	A	22846700	3	1	163	1	0	0	0	0	1	0	0	0	17940	1291	45	2	239	2	ZNF492	19	22846700	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	689294	22846700	36282283	1199	58534										
TSHZ3	57616	broad.mit.edu	37	chr19	31768443	31768443	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccgccaggctgttgctcatCttgaaaagcatgctcatggg	11	11	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:31768443C>G	uc002nsy.3	-	2	2321	c.2256G>C	c.(2254-2256)AAG>AAC	p.K752N		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	752					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TGTTGCTCATCTTGAAAAGCA	0.602													4	135	---	---	---	---	PASS	G	31768443	G	G	31768443	3	3	163	1	0	0	0	0	1	0	0	0	16622	912	32	2	993	2	TSHZ3	19	31768443	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	8921743	31768443	27360540	1200	58535										
TSHZ3	57616	broad.mit.edu	37	chr19	31770267	31770267	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgctgctgccgttgttcttCtccgaggagggctggtgcag	15	11	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:31770267C>T	uc002nsy.3	-	2	497	c.432G>A	c.(430-432)GAG>GAA	p.E144E		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	144	Ser-rich.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					cgttgTTCTTCTCCGAGGAGG	0.438													9	19	---	---	---	---	PASS	T	31770267	T	T	31770267	2	4	163	1	0	0	0	0	0	0	0	1	16622	912	32	2		2	TSHZ3	19	31770267	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1824	31770267	27358716	1201	58536										
ZNF507	22847	broad.mit.edu	37	chr19	32844814	32844814	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccctggaccccaatgaggaaGaaatgctagaagtgatttct	10	9	1	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:32844814G>C	uc002nte.2	+	3	1350	c.1078G>C	c.(1078-1080)GAA>CAA	p.E360Q	ZNF507_uc002ntc.2_Missense_Mutation_p.E360Q|ZNF507_uc010xrn.1_Missense_Mutation_p.E360Q|ZNF507_uc002ntd.2_Missense_Mutation_p.E360Q	NM_001136156	NP_001129628	Q8TCN5	ZN507_HUMAN	zinc finger protein 507	360					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|kidney(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(110;0.162)					CAATGAGGAAGAAATGCTAGA	0.438													28	175	---	---	---	---	PASS	C	32844814	C	C	32844814	3	2	163	1	0	0	0	0	1	0	0	0	17950	943	33	2	1080	2	ZNF507	19	32844814	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1074547	32844814	26284169	1202	58537										
ANKRD27	84079	broad.mit.edu	37	chr19	33117720	33117720	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttggaaaccaggaggtcgatGagggatgcctgccctgcaga	15	9	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:33117720G>C	uc002ntn.1	-	16	1590	c.1434C>G	c.(1432-1434)CTC>CTG	p.L478L		NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	478	ANK 2.				early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					GGAGGTCGATGAGGGATGCCT	0.572													8	31	---	---	---	---	PASS	C	33117720	C	C	33117720	2	2	163	1	0	0	0	0	0	0	0	1	655	1277	45	2		2	ANKRD27	19	33117720	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	272906	33117720	26011263	1203	58538										
ATP4A	495	broad.mit.edu	37	chr19	36054161	36054161	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagctccgccactgacagctGgtggtcgttctgtgtggtgg	15	11	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:36054161G>C	uc002oal.1	-	3	195	c.166C>G	c.(166-168)CAG>GAG	p.Q56E		NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	56	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	ACTGACAGCTGGTGGTCGTTC	0.592													11	305	---	---	---	---	PASS	C	36054161	C	C	36054161	3	2	163	1	0	0	0	0	1	0	0	0	1145	1357	47	4	3021	4	ATP4A	19	36054161	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2936441	36054161	23074822	1204	58539										
MLL4	9757	broad.mit.edu	37	chr19	36227820	36227820	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctgtctccccaggggcgtgGagaactctgatcgagaaagt	14	10	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:36227820G>A	uc010eei.2	+	33	7305	c.7305G>A	c.(7303-7305)TGG>TGA	p.W2435*		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2435	FYR C-terminal.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CAGGGGCGTGGAGAACTCTGA	0.607													10	74	---	---	---	---	PASS	A	36227820	A	A	36227820	4	1	163	1	0	0	0	0	0	1	0	0	9623	1183	41	2	7431	2	MLL4	19	36227820	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	173659	36227820	22901163	1205	58540										
APLP1	333	broad.mit.edu	37	chr19	36370332	36370332	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccacttaccgcttcctggagGaacgaccctgacccggcccc	9	19	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:36370332G>C	uc002oce.2	+	17	2080	c.1942G>C	c.(1942-1944)GAA>CAA	p.E648Q	APLP1_uc010xsz.1_Missense_Mutation_p.E609Q|APLP1_uc002ocf.2_Missense_Mutation_p.E649Q|APLP1_uc002ocg.2_Missense_Mutation_p.E552Q|APLP1_uc010xta.1_Missense_Mutation_p.E642Q	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	648	Cytoplasmic (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTTCCTGGAGGAACGACCCTG	0.662													5	136	---	---	---	---	PASS	C	36370332	C	C	36370332	3	2	163	1	0	0	0	0	1	0	0	0	778	1175	41	2	2011	2	APLP1	19	36370332	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	142512	36370332	22758651	1206	58541										
ZNF829	374899	broad.mit.edu	37	chr19	37383109	37383109	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtcgagtaacgagtgagccaCgactaaaggacttcccatac	10	11	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:37383109C>G	uc002ofa.1	-	6	946	c.584G>C	c.(583-585)CGT>CCT	p.R195P	ZNF345_uc002oez.2_Intron	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	195	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAGTGAGCCACGACTAAAGGA	0.368													56	89	---	---	---	---	PASS	G	37383109	G	G	37383109	3	3	163	1	0	0	0	0	1	0	0	0	18179	536	19	4	718	4	ZNF829	19	37383109	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1012777	37383109	21745874	1207	58542										
ZNF573	126231	broad.mit.edu	37	chr19	38229665	38229665	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atagggttttttatcagcatGaatgctctgatgtgcagtaa	10	5	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:38229665G>C	uc002ohe.2	-	4	1748	c.1726C>G	c.(1726-1728)CAT>GAT	p.H576D	ZNF573_uc010efs.2_Missense_Mutation_p.H489D|ZNF573_uc002ohd.2_Missense_Mutation_p.H574D|ZNF573_uc002ohf.2_Missense_Mutation_p.H518D|ZNF573_uc002ohg.2_Missense_Mutation_p.H488D	NM_152360	NP_689573	Q86YE8	ZN573_HUMAN	zinc finger protein 573	556	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)|Lung(45;0.0813)|LUSC - Lung squamous cell carcinoma(53;0.146)			TTATCAGCATGAATGCTCTGA	0.373													30	212	---	---	---	---	PASS	C	38229665	C	C	38229665	3	2	163	1	0	0	0	0	1	0	0	0	18002	1290	45	2	275	2	ZNF573	19	38229665	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	846556	38229665	20899318	1208	58543										
CATSPERG	57828	broad.mit.edu	37	chr19	38853195	38853195	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcggcgcagggccactcgttCcggacgcagtcagaactcgg	14	14	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:38853195C>G	uc002oih.3	+	19	2424	c.2337C>G	c.(2335-2337)TTC>TTG	p.F779L	CATSPERG_uc002oig.3_Missense_Mutation_p.F739L|CATSPERG_uc002oif.3_Missense_Mutation_p.F419L|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	779	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						GCCACTCGTTCCGGACGCAGT	0.657													14	91	---	---	---	---	PASS	G	38853195	G	G	38853195	3	3	163	1	0	0	0	0	1	0	0	0	2692	854	30	2	2407	2	CATSPERG	19	38853195	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	623530	38853195	20275788	1209	58544										
RYR1	6261	broad.mit.edu	37	chr19	38934255	38934255	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccatgccatcctgctccggCatgcacacagccgcatggtg	11	16	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:38934255C>A	uc002oit.2	+	4	458	c.328C>A	c.(328-330)CAT>AAT	p.H110N	RYR1_uc002oiu.2_Missense_Mutation_p.H110N	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	110	Cytoplasmic.|MIR 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CCTGCTCCGGCATGCACACAG	0.647													8	58	---	---	---	---	PASS	A	38934255	A	A	38934255	3	1	163	1	0	0	0	0	1	0	0	0	13768	710	25	3	342	3	RYR1	19	38934255	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	81060	38934255	20194728	1210	58545										
RYR1	6261	broad.mit.edu	37	chr19	38991553	38991553	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggaccgtgtgtatggcatcGagaaccaggacttcttgctg	13	9	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:38991553G>T	uc002oit.2	+	47	7667	c.7537G>T	c.(7537-7539)GAG>TAG	p.E2513*	RYR1_uc002oiu.2_Nonsense_Mutation_p.E2513*|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2513	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GTATGGCATCGAGAACCAGGA	0.632													14	77	---	---	---	---	PASS	T	38991553	T	T	38991553	4	4	163	1	0	0	0	0	0	1	0	0	13768	1059	37	2	7723	2	RYR1	19	38991553	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	57298	38991553	20137430	1211	58546										
FCGBP	8857	broad.mit.edu	37	chr19	40362766	40362766	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cacggccacgccagctgcctGacaggccgccgtgtaggctg	14	16	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:40362766G>C	uc002omp.3	-	32	15312	c.15304C>G	c.(15304-15306)CAG>GAG	p.Q5102E		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	5102						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CCAGCTGCCTGACAGGCCGCC	0.637													7	76	---	---	---	---	PASS	C	40362766	C	C	40362766	3	2	163	1	0	0	0	0	1	0	0	0	5778	1299	45	2	933	2	FCGBP	19	40362766	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1371213	40362766	18766217	1212	58547										
ZNF780A	284323	broad.mit.edu	37	chr19	40580841	40580841	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aagccttcccacactccttaCattcatagggcttctcacca	4	16	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:40580841C>G	uc002omy.2	-	6	1733	c.1508G>C	c.(1507-1509)TGT>TCT	p.C503S	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.C503S|ZNF780A_uc010xvh.1_Missense_Mutation_p.C504S	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	503	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					ACACTCCTTACATTCATAGGG	0.428													9	264	---	---	---	---	PASS	G	40580841	G	G	40580841	3	3	163	1	0	0	0	0	1	0	0	0	18149	478	17	4	548	4	ZNF780A	19	40580841	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	218075	40580841	18548142	1213	58548										
PRX	57716	broad.mit.edu	37	chr19	40902216	40902216	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acttttggcagctgcacctcGgggagtcgaacctctggcac	12	13	1	0	rs56743160	byFrequency	TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:40902216G>C	uc002onr.2	-	7	2312	c.2043C>G	c.(2041-2043)CCC>CCG	p.P681P	PRX_uc002onq.2_Silent_p.P542P|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	681	55 X 5 AA approximate tandem repeats of [LVMAG]-[PSREQC]-[EDKL]-[LIVMAP]- [AQKHRPE]; that may have a tripeptide spacer of [LV]-P-[KER].				axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GCTGCACCTCGGGGAGTCGAA	0.582													8	362	---	---	---	---	PASS	C	40902216	C	C	40902216	2	2	163	1	0	0	0	0	0	0	0	1	12642	1103	39	4		4	PRX	19	40902216	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	321375	40902216	18226767	1214	58549										
SPTBN4	57731	broad.mit.edu	37	chr19	41063159	41063159	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgggagcttcataagttcttCagtgacgcccgagagcttca	11	11	4	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:41063159C>G	uc002ony.2	+	26	5606	c.5520C>G	c.(5518-5520)TTC>TTG	p.F1840L	SPTBN4_uc002onx.2_Missense_Mutation_p.F1840L|SPTBN4_uc002onz.2_Missense_Mutation_p.F1840L|SPTBN4_uc010egx.2_Missense_Mutation_p.F583L|SPTBN4_uc002ooa.2_Missense_Mutation_p.F516L	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1840	Spectrin 16.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			ATAAGTTCTTCAGTGACGCCC	0.652													18	51	---	---	---	---	PASS	G	41063159	G	G	41063159	3	3	163	1	0	0	0	0	1	0	0	0	15120	825	29	2	5618	2	SPTBN4	19	41063159	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	160943	41063159	18065824	1215	58550										
RAB4B	53916	broad.mit.edu	37	chr19	41285940	41285940	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcagacttcctcttcaaattCctggtgattggcagtgcagg	10	10	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:41285940C>G	uc002opd.1	+	2	143	c.33C>G	c.(31-33)TTC>TTG	p.F11L	MIA_uc010xvt.1_RNA|RAB4B_uc002opc.1_RNA|RAB4B_uc002ope.1_RNA|EGLN2_uc010ehd.2_5'UTR|RAB4B_uc002opf.1_Missense_Mutation_p.F37L	NM_016154	NP_057238	P61018	RAB4B_HUMAN	ras-related GTP-binding protein 4b	11					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	intracellular|plasma membrane	GTP binding|GTPase activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			TCTTCAAATTCCTGGTGATTG	0.468													9	183	---	---	---	---	PASS	G	41285940	G	G	41285940	3	3	163	1	0	0	0	0	1	0	0	0	12947	854	30	2	39	2	RAB4B	19	41285940	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	222781	41285940	17843043	1216	58551										
CYP2S1	29785	broad.mit.edu	37	chr19	41707208	41707208	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcatttatttgctgtttgctGggacgatgacggtcagcacc	11	9	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:41707208G>T	uc002opw.2	+	6	962	c.907G>T	c.(907-909)GGG>TGG	p.G303W	CYP2F1_uc010xvw.1_Intron|CYP2S1_uc010xvx.1_Missense_Mutation_p.G28W	NM_030622	NP_085125	Q96SQ9	CP2S1_HUMAN	cytochrome P450, family 2, subfamily S,	303					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity			skin(1)	1						GCTGTTTGCTGGGACGATGAC	0.507													43	236	---	---	---	---	PASS	T	41707208	T	T	41707208	3	4	163	1	0	0	0	0	1	0	0	0	4174	1348	47	3	929	3	CYP2S1	19	41707208	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	421268	41707208	17421775	1217	58552										
CEACAM5	1048	broad.mit.edu	37	chr19	42213743	42213743	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggctacagctggtacaaagGtgaaagagtggatggcaacc	14	7	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:42213743G>C	uc002ork.2	+	2	330	c.209G>C	c.(208-210)GGT>GCT	p.G70A	CEACAM5_uc010ehz.1_Missense_Mutation_p.G70A|CEACAM5_uc002orj.1_Missense_Mutation_p.G70A|CEACAM5_uc002orl.2_Missense_Mutation_p.G70A	NM_004363	NP_004354	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion	70	Ig-like 1.					anchored to membrane|basolateral plasma membrane|integral to plasma membrane				skin(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		TGGTACAAAGGTGAAAGAGTG	0.483													33	128	---	---	---	---	PASS	C	42213743	C	C	42213743	3	2	163	1	0	0	0	0	1	0	0	0	3195	1261	44	4	215	4	CEACAM5	19	42213743	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	506535	42213743	16915240	1218	58553										
LIPE	3991	broad.mit.edu	37	chr19	42910326	42910326	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcctcaccagcataggcgctGacacacttggagagcacact	10	14	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:42910326G>C	uc002otr.2	-	7	2629	c.2352C>G	c.(2350-2352)GTC>GTG	p.V784V	uc010eif.1_Intron	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	784					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				CATAGGCGCTGACACACTTGG	0.488													13	79	---	---	---	---	PASS	C	42910326	C	C	42910326	2	2	163	1	0	0	0	0	0	0	0	1	8821	1277	45	2		2	LIPE	19	42910326	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	696583	42910326	16218657	1219	58554										
APOC2	344	broad.mit.edu	37	chr19	45452058	45452058	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agttactgggagtcagcaaaGacagccgcccagaacctgta	11	11	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:45452058G>C	uc002pah.2	+	3	259	c.156G>C	c.(154-156)AAG>AAC	p.K52N		NM_000483	NP_000474	P02655	APOC2_HUMAN	apolipoprotein C-II precursor	52					cholesterol efflux|chylomicron remnant clearance|high-density lipoprotein particle clearance|lipid catabolic process|lipoprotein metabolic process|negative regulation of cholesterol transport|negative regulation of lipid metabolic process|negative regulation of receptor-mediated endocytosis|negative regulation of very-low-density lipoprotein particle clearance|phospholipid efflux|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of phospholipase activity|positive regulation of phospholipid catabolic process|positive regulation of triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	chylomicron|intermediate-density lipoprotein particle|low-density lipoprotein particle|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	lipase inhibitor activity|lipid binding|lipoprotein lipase activator activity|phospholipase activator activity|phospholipase binding|protein homodimerization activity			kidney(1)	1	Lung NSC(12;0.00858)|all_lung(12;0.0197)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00327)|Epithelial(262;0.174)		AGTCAGCAAAGACAGCCGCCC	0.572													87	81	---	---	---	---	PASS	C	45452058	C	C	45452058	3	2	163	1	0	0	0	0	1	0	0	0	798	933	33	2	162	2	APOC2	19	45452058	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2541732	45452058	13676925	1220	58555										
MARK4	57787	broad.mit.edu	37	chr19	45803085	45803085	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctagggtcgcagacgaacctGagagaatcgggggacctgag	16	9	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:45803085G>C	uc002pbb.1	+	16	1899	c.1894G>C	c.(1894-1896)GAG>CAG	p.E632Q	MARK4_uc002pba.1_Silent_p.L658L			Q96L34	MARK4_HUMAN	RecName: Full=MAP/microtubule affinity-regulating kinase 4;          EC=2.7.11.1; AltName: Full=MAP/microtubule affinity-regulating kinase-like 1;	632					microtubule bundle formation|nervous system development|positive regulation of programmed cell death	centrosome|neuron projection	ATP binding|gamma-tubulin binding|microtubule binding|protein serine/threonine kinase activity|tau-protein kinase activity|ubiquitin binding			central_nervous_system(2)|large_intestine(1)	3		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		AGACGAACCTGAGAGAATCGG	0.622													11	39	---	---	---	---	PASS	C	45803085	C	C	45803085	3	2	163	1	0	0	0	0	1	0	0	0	9315	1277	45	2	2040	2	MARK4	19	45803085	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	351027	45803085	13325898	1221	58556										
NPAS1	4861	broad.mit.edu	37	chr19	47548655	47548655	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caggggtcctgaagcaggatCcggtgcggccatggggcctg	18	11	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:47548655C>T	uc002pfw.2	+	12	1715	c.1519C>T	c.(1519-1521)CCG>TCG	p.P507S	NPAS1_uc002pfx.2_Missense_Mutation_p.P332S|NPAS1_uc002pfy.2_Missense_Mutation_p.P507S|NPAS1_uc010xyj.1_3'UTR	NM_002517	NP_002508	Q99742	NPAS1_HUMAN	neuronal PAS domain protein 1	507					central nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0		all_cancers(25;4.31e-08)|all_epithelial(76;2.96e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.102)		all cancers(93;6.02e-05)|OV - Ovarian serous cystadenocarcinoma(262;7.35e-05)|Epithelial(262;0.00389)|GBM - Glioblastoma multiforme(486;0.0252)		GAAGCAGGATCCGGTGCGGCC	0.741													30	18	---	---	---	---	PASS	T	47548655	T	T	47548655	3	4	163	1	0	0	0	0	1	0	0	0	10562	855	30	2	1561	2	NPAS1	19	47548655	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1745570	47548655	11580328	1222	58557										
CA11	770	broad.mit.edu	37	chr19	49142645	49142645	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cggggtgctgagagagccctGataggtgatgaagccgaagg	18	7	0	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:49142645G>C	uc002pjz.1	-	7	1274	c.712C>G	c.(712-714)CAG>GAG	p.Q238E	SEC1_uc010xzv.1_Intron|SEC1_uc002pka.2_Intron|SEC1_uc010xzw.1_Intron|SEC1_uc010ema.2_Intron|DBP_uc002pjx.3_5'Flank|DBP_uc002pjy.2_5'Flank|DBP_uc010elz.1_5'Flank	NM_001217	NP_001208	O75493	CAH11_HUMAN	carbonic anhydrase XI precursor	238						extracellular region					0		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000103)|all cancers(93;0.000119)|GBM - Glioblastoma multiforme(486;0.00634)|Epithelial(262;0.016)		AGAGAGCCCTGATAGGTGATG	0.562													3	72	---	---	---	---	PASS	C	49142645	C	C	49142645	3	2	163	1	0	0	0	0	1	0	0	0	2512	1299	45	2	286	2	CA11	19	49142645	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1593990	49142645	9986338	1223	58558										
CA11	770	broad.mit.edu	37	chr19	49143373	49143373	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcagcagagaagccctggtgGttgatctgatgttccgagcc	13	10	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:49143373G>C	uc002pjz.1	-	4	1012	c.450C>G	c.(448-450)AAC>AAG	p.N150K	SEC1_uc010xzv.1_Intron|SEC1_uc002pka.2_Intron|SEC1_uc010xzw.1_Intron|SEC1_uc010ema.2_Intron|DBP_uc002pjx.3_5'Flank|DBP_uc002pjy.2_5'Flank|DBP_uc010elz.1_5'Flank	NM_001217	NP_001208	O75493	CAH11_HUMAN	carbonic anhydrase XI precursor	150						extracellular region					0		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000103)|all cancers(93;0.000119)|GBM - Glioblastoma multiforme(486;0.00634)|Epithelial(262;0.016)		AGCCCTGGTGGTTGATCTGAT	0.587													10	87	---	---	---	---	PASS	C	49143373	C	C	49143373	3	2	163	1	0	0	0	0	1	0	0	0	2512	1252	44	4	560	4	CA11	19	49143373	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	728	49143373	9985610	1224	58559										
CGB7	94027	broad.mit.edu	37	chr19	49557573	49557573	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgggaggatcggggtgtctGagggccccgggagtcgggat	22	7	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:49557573G>C	uc002pmd.2	-	3	838	c.473C>G	c.(472-474)TCA>TGA	p.S158*	CGB_uc010yad.1_Intron|CGB8_uc002pmc.2_Intron|CGB7_uc002pme.2_Nonsense_Mutation_p.S158*	NM_033142	NP_149133	P01233	CGHB_HUMAN	chorionic gonadotropin, beta polypeptide 7	158					apoptosis|cell-cell signaling|cellular nitrogen compound metabolic process|female gamete generation|hormone biosynthetic process|peptide hormone processing|signal transduction	extracellular region|soluble fraction	hormone activity				0		all_epithelial(76;9.62e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)	Choriogonadotropin alfa(DB00097)	CGGGGTGTCTGAGGGCCCCGG	0.627													3	125	---	---	---	---	PASS	C	49557573	C	C	49557573	4	2	163	1	0	0	0	0	0	1	0	0	3300	1294	45	2	28	2	CGB7	19	49557573	Nonsense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	414200	49557573	9571410	1225	58560										
TRPM4	54795	broad.mit.edu	37	chr19	49675295	49675295	+	Silent	SNP	C	T	T													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	attatgacccggaaggagctCctgacagtctattcttctga							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:49675295C>T	uc002pmw.2	+	9	1152	c.1080C>T	c.(1078-1080)CTC>CTT	p.L360L	TRPM4_uc010emu.2_Silent_p.L360L|TRPM4_uc010yak.1_5'UTR|TRPM4_uc002pmx.2_Silent_p.L186L|TRPM4_uc010emv.2_Silent_p.L245L|TRPM4_uc010yal.1_Intron	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	360	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		GGAAGGAGCTCCTGACAGTCT	0.537													17	71	---	---	---	---	PASS	T	49675295	T	T	49675295	2	4	163	1	0	0	0	0	0	0	0	1	16585	842	30	2		2	TRPM4	19	49675295	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	117722	49675295	9453688	1226	58561	1039	2								
TRPM4	54795	broad.mit.edu	37	chr19	49675296	49675296	+	Silent	SNP	C	T	T													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttatgacccggaaggagctcCtgacagtctattcttctgag							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:49675296C>T	uc002pmw.2	+	9	1153	c.1081C>T	c.(1081-1083)CTG>TTG	p.L361L	TRPM4_uc010emu.2_Silent_p.L361L|TRPM4_uc010yak.1_5'UTR|TRPM4_uc002pmx.2_Silent_p.L187L|TRPM4_uc010emv.2_Silent_p.L246L|TRPM4_uc010yal.1_Intron	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	361	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		GAAGGAGCTCCTGACAGTCTA	0.537													18	72	---	---	---	---	PASS	T	49675296	T	T	49675296	2	4	163	1	0	0	0	0	0	0	0	1	16585	680	24	3		3	TRPM4	19	49675296	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1	49675296	9453687	1227	58562	1039	2								
TBC1D17	79735	broad.mit.edu	37	chr19	50387614	50387614	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcctcacctactgcatgtatCacttcgacctcggtgggtgc	9	14	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:50387614C>T	uc002pqo.2	+	11	1383	c.1231C>T	c.(1231-1233)CAC>TAC	p.H411Y	TBC1D17_uc010ybg.1_Missense_Mutation_p.H378Y|TBC1D17_uc002pqp.2_Missense_Mutation_p.H62Y|TBC1D17_uc002pqq.1_RNA|TBC1D17_uc002pqr.2_Missense_Mutation_p.H62Y|TBC1D17_uc002pqs.2_RNA	NM_024682	NP_078958	Q9HA65	TBC17_HUMAN	TBC1 domain family, member 17	411	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0		all_lung(116;0.000338)|Lung NSC(112;0.000446)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.017)		CTGCATGTATCACTTCGACCT	0.662													7	344	---	---	---	---	PASS	T	50387614	T	T	50387614	3	4	163	1	0	0	0	0	1	0	0	0	15603	826	29	2	1273	2	TBC1D17	19	50387614	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	712318	50387614	8741369	1228	58563										
SIGLEC8	27181	broad.mit.edu	37	chr19	51955867	51955867	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcagggggttgccatctttCcaggattcagtcaggggtcc	13	10	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:51955867C>A	uc002pwt.2	-	7	1333	c.1266G>T	c.(1264-1266)TGG>TGT	p.W422C	SIGLEC8_uc010yda.1_Missense_Mutation_p.W313C|SIGLEC8_uc002pwu.2_Intron|SIGLEC8_uc010eox.2_Missense_Mutation_p.W329C	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	422	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		TGCCATCTTTCCAGGATTCAG	0.587													12	54	---	---	---	---	PASS	A	51955867	A	A	51955867	3	1	163	1	0	0	0	0	1	0	0	0	14314	856	30	2	237	2	SIGLEC8	19	51955867	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1568253	51955867	7173116	1229	58564										
ZNF615	284370	broad.mit.edu	37	chr19	52496580	52496580	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgagttcgctgatgtgcaatGagcatgcttttcccagttaa	10	8	0	3	rs147050024		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:52496580G>A	uc002pye.1	-	6	2041	c.1749C>T	c.(1747-1749)CTC>CTT	p.L583L	ZNF615_uc002pyf.1_Silent_p.L594L|ZNF615_uc002pyg.1_Silent_p.L475L|ZNF615_uc002pyh.1_Silent_p.L594L|ZNF615_uc010epi.1_Silent_p.L590L|ZNF615_uc010ydg.1_Silent_p.L588L	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	583	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		GATGTGCAATGAGCATGCTTT	0.438													5	273	---	---	---	---	PASS	A	52496580	A	A	52496580	2	1	163	1	0	0	0	0	0	0	0	1	18037	1277	45	2		2	ZNF615	19	52496580	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	540713	52496580	6632403	1230	58565										
PPP2R1A	5518	broad.mit.edu	37	chr19	52725424	52725424	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cggttctgcgcatggctgggGacccggttgccaatgtccgc	15	13	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:52725424G>C	uc002pyp.2	+	13	1750	c.1591G>C	c.(1591-1593)GAC>CAC	p.D531H	PPP2R1A_uc010ydk.1_Missense_Mutation_p.D476H|PPP2R1A_uc002pyq.2_Missense_Mutation_p.D352H	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	531	PP2A subunit C binding.|HEAT 14.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		CATGGCTGGGGACCCGGTTGC	0.607			Mis		clear cell ovarian carcinoma								5	37	---	---	---	---	PASS	C	52725424	C	C	52725424	3	2	163	1	0	0	0	0	1	0	0	0	12382	1174	41	2	1641	2	PPP2R1A	19	52725424	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	228844	52725424	6403559	1231	58566										
ZNF665	79788	broad.mit.edu	37	chr19	53667918	53667918	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atttgcaagatgtgaattttGagtgaagaccttgccacatt	9	6	0	5			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:53667918G>T	uc010eqm.1	-	4	1925	c.1825C>A	c.(1825-1827)CAA>AAA	p.Q609K		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	544	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		TGTGAATTTTGAGTGAAGACC	0.398													36	141	---	---	---	---	PASS	T	53667918	T	T	53667918	3	4	163	1	0	0	0	0	1	0	0	0	18070	1299	45	2	215	2	ZNF665	19	53667918	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	942494	53667918	5461065	1232	58567										
LILRB1	10859	broad.mit.edu	37	chr19	55147045	55147045	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acacagcctgaggatggggtGgagatggacactcgggtgag	18	7	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:55147045G>A	uc002qgj.2	+	14	1975	c.1635G>A	c.(1633-1635)GTG>GTA	p.V545V	LILRB1_uc010erp.1_Silent_p.V160V|LILRB1_uc002qgl.2_Silent_p.V545V|LILRB1_uc002qgk.2_Silent_p.V546V|LILRB1_uc002qgm.2_Silent_p.V546V|LILRB1_uc010erq.2_Silent_p.V529V|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	545	Cytoplasmic (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		AGGATGGGGTGGAGATGGACA	0.612										HNSCC(37;0.09)			35	122	---	---	---	---	PASS	A	55147045	A	A	55147045	2	1	163	1	0	0	0	0	0	0	0	1	8790	1335	47	3		3	LILRB1	19	55147045	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1479127	55147045	3981938	1233	58568										
FCAR	2204	broad.mit.edu	37	chr19	55396759	55396759	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcttacctgacccagctgatGatcataaaaaactccacgta	6	12	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:55396759G>A	uc002qhr.1	+	3	380	c.183G>A	c.(181-183)ATG>ATA	p.M61I	FCAR_uc002qhq.2_Missense_Mutation_p.M61I|FCAR_uc002qhs.1_RNA|FCAR_uc002qht.1_Missense_Mutation_p.M34I|FCAR_uc010esi.1_Missense_Mutation_p.M34I|FCAR_uc002qhu.1_Missense_Mutation_p.M61I|FCAR_uc002qhv.1_Missense_Mutation_p.M61I|FCAR_uc002qhw.1_Missense_Mutation_p.M49I|FCAR_uc002qhx.1_Missense_Mutation_p.M49I|FCAR_uc002qhy.1_Missense_Mutation_p.M49I|FCAR_uc002qhz.1_Missense_Mutation_p.M49I|FCAR_uc002qia.1_Intron	NM_002000	NP_001991	P24071	FCAR_HUMAN	Fc alpha receptor isoform a precursor	61	Extracellular (Potential).|Ig-like C2-type 1.				immune response	extracellular region|integral to plasma membrane	IgA binding|receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0443)		CCCAGCTGATGATCATAAAAA	0.468													12	71	---	---	---	---	PASS	A	55396759	A	A	55396759	3	1	163	1	0	0	0	0	1	0	0	0	5773	1290	45	2	193	2	FCAR	19	55396759	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	249714	55396759	3732224	1234	58569										
TNNI3	7137	broad.mit.edu	37	chr19	55666173	55666173	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttcatccaccttgtccacaCgggcgtggagctgtcggcac	11	15	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:55666173C>A	uc002qjg.3	-	6	308	c.308G>T	c.(307-309)CGT>CTT	p.R103L	TNNI3_uc010yft.1_Missense_Mutation_p.R95L	NM_000363	NP_000354	P19429	TNNI3_HUMAN	troponin I, cardiac	103					cardiac muscle contraction|cellular calcium ion homeostasis|muscle filament sliding|negative regulation of ATPase activity|regulation of systemic arterial blood pressure by ischemic conditions|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin binding|calcium channel inhibitor activity|calcium-dependent protein binding|protein domain specific binding|protein kinase binding|troponin C binding|troponin T binding			lung(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		CTTGTCCACACGGGCGTGGAG	0.478													9	33	---	---	---	---	PASS	A	55666173	A	A	55666173	3	1	163	1	0	0	0	0	1	0	0	0	16325	536	19	1	336	1	TNNI3	19	55666173	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	269414	55666173	3462810	1235	58570										
C19orf51	352909	broad.mit.edu	37	chr19	55671358	55671358	+	Missense_Mutation	SNP	T	C	C													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gagcggcaggaagtggacggTgaaagattccggggtcgggg							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:55671358T>C	uc002qji.1	-	10	1106	c.1072A>G	c.(1072-1074)ACC>GCC	p.T358A	TNNI3_uc002qjg.3_5'Flank|TNNI3_uc010yft.1_5'Flank|C19orf51_uc002qjh.1_Missense_Mutation_p.T173A|C19orf51_uc002qjj.1_Missense_Mutation_p.T405A|C19orf51_uc002qjk.1_Missense_Mutation_p.T304A|C19orf51_uc002qjl.1_Missense_Mutation_p.T425A			Q8N9W5	CS051_HUMAN	RecName: Full=UPF0470 protein C19orf51;	358											0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		AAGTGGACGGTGAAAGATTCC	0.597													5	53	---	---	---	---	PASS	C	55671358	C	C	55671358	3	2	163	1	0	0	0	0	1	0	0	0	1933	1696	59	5	565	5	C19orf51	19	55671358	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	5185	55671358	3457625	1236	58571	1040	2								
C19orf51	352909	broad.mit.edu	37	chr19	55671359	55671359	+	Missense_Mutation	SNP	G	T	T													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agcggcaggaagtggacggtGaaagattccggggtcggggc							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:55671359G>T	uc002qji.1	-	10	1105	c.1071C>A	c.(1069-1071)TTC>TTA	p.F357L	TNNI3_uc002qjg.3_5'Flank|TNNI3_uc010yft.1_5'Flank|C19orf51_uc002qjh.1_Missense_Mutation_p.F172L|C19orf51_uc002qjj.1_Missense_Mutation_p.F404L|C19orf51_uc002qjk.1_Missense_Mutation_p.F303L|C19orf51_uc002qjl.1_Missense_Mutation_p.F424L			Q8N9W5	CS051_HUMAN	RecName: Full=UPF0470 protein C19orf51;	357											0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		AGTGGACGGTGAAAGATTCCG	0.597													5	54	---	---	---	---	PASS	T	55671359	T	T	55671359	3	4	163	1	0	0	0	0	1	0	0	0	1933	1281	45	2	566	2	C19orf51	19	55671359	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1	55671359	3457624	1237	58572	1040	2								
ZNF71	58491	broad.mit.edu	37	chr19	57133271	57133271	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaacctcactgtgcaccagCgcacgcacacgggcgagaag	12	14	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:57133271C>T	uc002qnm.3	+	3	854	c.616C>T	c.(616-618)CGC>TGC	p.R206C		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	206	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		TGTGCACCAGCGCACGCACAC	0.652													11	37	---	---	---	---	PASS	T	57133271	T	T	57133271	3	4	163	1	0	0	0	0	1	0	0	0	18111	768	27	1	618	1	ZNF71	19	57133271	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1461912	57133271	1995712	1238	58573										
PEG3	5178	broad.mit.edu	37	chr19	57325348	57325348	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcaccttcttctgggtcttCaattcccacaccgtcaggct	6	15	6	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:57325348C>T	uc002qnu.2	-	7	4813	c.4462G>A	c.(4462-4464)GAA>AAA	p.E1488K	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.E1459K|PEG3_uc002qnv.2_Missense_Mutation_p.E1488K|PEG3_uc002qnw.2_Missense_Mutation_p.E1364K|PEG3_uc002qnx.2_Missense_Mutation_p.E1362K|PEG3_uc010etr.2_Missense_Mutation_p.E1488K	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1488	Glu-rich.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TCTGGGTCTTCAATTCCCACA	0.493													13	239	---	---	---	---	PASS	T	57325348	T	T	57325348	3	4	163	1	0	0	0	0	1	0	0	0	11720	835	29	2	308	2	PEG3	19	57325348	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	192077	57325348	1803635	1239	58574										
ZIK1	284307	broad.mit.edu	37	chr19	58101644	58101644	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atggacagagcctcatatgtGaagtgctgcctattctgtat	10	8	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:58101644G>A	uc002qpg.2	+	4	562	c.465G>A	c.(463-465)GTG>GTA	p.V155V	ZNF547_uc002qpm.3_Intron|ZIK1_uc002qph.2_Silent_p.V100V|ZIK1_uc002qpi.2_Silent_p.V142V|ZIK1_uc002qpj.2_Silent_p.V52V	NM_001010879	NP_001010879	Q3SY52	ZIK1_HUMAN	zinc finger protein interacting with K protein	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		CCTCATATGTGAAGTGCTGCC	0.483													18	79	---	---	---	---	PASS	A	58101644	A	A	58101644	2	1	163	1	0	0	0	0	0	0	0	1	17680	1277	45	2		2	ZIK1	19	58101644	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	776296	58101644	1027339	1240	58575										
ZNF776	284309	broad.mit.edu	37	chr19	58265642	58265642	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttttgagtgtacggcatgtGggaagttatttaggagcaac	13	5	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr19:58265642G>A	uc002qpx.2	+	3	1367	c.1144G>A	c.(1144-1146)GGG>AGG	p.G382R	ZNF587_uc002qqb.2_Intron|ZNF776_uc002qqa.2_Missense_Mutation_p.G382R	NM_173632	NP_775903	Q68DI1	ZN776_HUMAN	zinc finger protein 776	382	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0256)		TACGGCATGTGGGAAGTTATT	0.433													34	117	---	---	---	---	PASS	A	58265642	A	A	58265642	3	1	163	1	0	0	0	0	1	0	0	0	18146	1348	47	3	1154	3	ZNF776	19	58265642	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	163998	58265642	863341	1241	58576										
SIRPA	140885	broad.mit.edu	37	chr20	1903162	1903162	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgagctggctcctggtgaatGtatctgcccacagggatgat	13	9	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:1903162G>C	uc002wfq.2	+	5	1318	c.958G>C	c.(958-960)GTA>CTA	p.V320L	SIRPA_uc010zps.1_Missense_Mutation_p.V300L|SIRPA_uc002wfr.2_Missense_Mutation_p.V320L|SIRPA_uc002wfs.2_Missense_Mutation_p.V320L|SIRPA_uc002wft.2_Missense_Mutation_p.V320L	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	320	Ig-like C1-type 2.|Extracellular (Potential).				blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		CCTGGTGAATGTATCTGCCCA	0.562													11	79	---	---	---	---	PASS	C	1903162	C	C	1903162	3	2	163	1	0	0	0	0	1	0	0	0	14332	1377	48	4	972	4	SIRPA	20	1903162	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08		1903162	61122358	1242	58577										
HAO1	54363	broad.mit.edu	37	chr20	7886891	7886891	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatagatgggtctattgcttTagccacatatgcagcaagtc	10	8	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:7886891T>C	uc002wmw.1	-	4	655	c.631A>G	c.(631-633)AAA>GAA	p.K211E	HAO1_uc010gbu.2_Missense_Mutation_p.K211E	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	211	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						TCTATTGCTTTAGCCACATAT	0.378													38	196	---	---	---	---	PASS	C	7886891	C	C	7886891	3	2	163	1	0	0	0	0	1	0	0	0	6951	1763	61	5	501	5	HAO1	20	7886891	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	5983729	7886891	55138629	1243	58578										
KIF16B	55614	broad.mit.edu	37	chr20	16362393	16362393	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gttgcctctcaaattcaagtCtaataaaatcaaatgaaaat	4	7	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:16362393C>G	uc002wpg.1	-	18	1943	c.1785_splice	c.e18-1	p.G595_splice	KIF16B_uc002wpe.1_5'Flank|KIF16B_uc002wpf.1_5'Flank|KIF16B_uc010gch.1_Splice_Site_p.G595_splice|KIF16B_uc010gci.1_Splice_Site_p.G595_splice|KIF16B_uc010gcj.1_Splice_Site_p.R606_splice	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23						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			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						AAATTCAAGTCTAATAAAATC	0.348													6	48	---	---	---	---	PASS	G	16362393	G	G	16362393	5	3	163	1	0	0	0	0	0	0	1	0	8278	927	32	2	2205	2	KIF16B	20	16362393	Splice_Site	SNP	C	TCGA-66-2785-01A-01D-1522-08	8475502	16362393	46663127	1244	58579										
C20orf26	26074	broad.mit.edu	37	chr20	20269276	20269276	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcttcagcttctgtgagaaGaatgtggattatgaaacgtt	10	5	3	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:20269276G>C	uc002wru.2	+	23	2896	c.2820G>C	c.(2818-2820)AAG>AAC	p.K940N	C20orf26_uc002wrw.2_Intron	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	940										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TCTGTGAGAAGAATGTGGATT	0.398													9	347	---	---	---	---	PASS	C	20269276	C	C	20269276	3	2	163	1	0	0	0	0	1	0	0	0	2106	933	33	2	2938	2	C20orf26	20	20269276	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3906883	20269276	42756244	1245	58580										
ACSS1	84532	broad.mit.edu	37	chr20	25011462	25011462	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgactgtgtggacagctccGatcctggcacaggccagcat	12	12	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:25011462G>A	uc002wub.2	-	3	1442	c.564C>T	c.(562-564)ATC>ATT	p.I188I	ACSS1_uc002wuc.2_Silent_p.I188I|ACSS1_uc010gdc.2_Silent_p.I188I|ACSS1_uc002wua.2_Silent_p.I105I	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	188					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GGACAGCTCCGATCCTGGCAC	0.597													12	29	---	---	---	---	PASS	A	25011462	A	A	25011462	2	1	163	1	0	0	0	0	0	0	0	1	188	1048	37	2		2	ACSS1	20	25011462	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	4742186	25011462	38014058	1246	58581										
C20orf186	149954	broad.mit.edu	37	chr20	31695567	31695567	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagctgtgctgggttctggcGtccctctccccaaaatcctc	9	16	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:31695567G>A	uc010zue.1	+	15	1777	c.1762G>A	c.(1762-1764)GTC>ATC	p.V588I		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	588						cytoplasm|extracellular region	lipid binding				0						GGGTTCTGGCGTCCCTCTCCC	0.488													61	73	---	---	---	---	PASS	A	31695567	A	A	31695567	3	1	163	1	0	0	0	0	1	0	0	0	2098	1145	40	1	1820	1	C20orf186	20	31695567	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	6684105	31695567	31329953	1247	58582										
E2F1	1869	broad.mit.edu	37	chr20	32266052	32266052	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcaggcgcagctgcgtagtaCagatattcatcaggtggtcc	13	10	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:32266052C>A	uc002wzu.3	-	4	820	c.680G>T	c.(679-681)TGT>TTT	p.C227F		NM_005225	NP_005216	Q01094	E2F1_HUMAN	E2F transcription factor 1	227	Dimerization (Potential).|Required for interaction with TRIM28.				apoptosis|cell proliferation|G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|mRNA stabilization|negative regulation of transcription involved in G1/S phase of mitotic cell cycle|positive regulation of fibroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle	mitochondrion|Rb-E2F complex	sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription factor binding				0						CTGCGTAGTACAGATATTCAT	0.627													25	40	---	---	---	---	PASS	A	32266052	A	A	32266052	3	1	163	1	0	0	0	0	1	0	0	0	4866	478	17	3	649	3	E2F1	20	32266052	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	570485	32266052	30759468	1248	58583										
NCOA6	23054	broad.mit.edu	37	chr20	33345597	33345597	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctccagaaggcagctggttCcagcctggaggaacaggcac	14	12	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:33345597C>G	uc002xav.2	-	8	3525	c.954G>C	c.(952-954)TGG>TGC	p.W318C	NCOA6_uc002xaw.2_Missense_Mutation_p.W318C|NCOA6_uc010gew.1_Missense_Mutation_p.W275C	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	318	TBP/GTF2A-binding region.|NCOA1-binding region.|Gln-rich.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						GCAGCTGGTTCCAGCCTGGAG	0.592													14	119	---	---	---	---	PASS	G	33345597	G	G	33345597	3	3	163	1	0	0	0	0	1	0	0	0	10233	856	30	2	5273	2	NCOA6	20	33345597	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1079545	33345597	29679923	1249	58584										
MMP24	10893	broad.mit.edu	37	chr20	33839711	33839711	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtcctctctctgcccaggtgGatgaagaaaccccgatgtgg	12	12	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:33839711G>C	uc002xbu.2	+	3	402	c.399G>C	c.(397-399)TGG>TGC	p.W133C	EDEM2_uc010zuv.1_Intron	NM_006690	NP_006681	Q9Y5R2	MMP24_HUMAN	matrix metalloproteinase 24 preproprotein	133	Extracellular (Potential).				proteolysis	integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TGCCCAGGTGGATGAAGAAAC	0.542													24	129	---	---	---	---	PASS	C	33839711	C	C	33839711	3	2	163	1	0	0	0	0	1	0	0	0	9661	1183	41	2	159	2	MMP24	20	33839711	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	494114	33839711	29185809	1250	58585										
RBM12	10137	broad.mit.edu	37	chr20	34240637	34240637	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaagaaatctaaaatctcatCaatagacacagtaaagggca	6	7	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:34240637C>G	uc002xdq.2	-	3	2840	c.2608G>C	c.(2608-2610)GAT>CAT	p.D870H	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.D870H|RBM12_uc002xds.2_Missense_Mutation_p.D870H	NM_152838	NP_690051	Q9NTZ6	RBM12_HUMAN	RNA binding motif protein 12	870	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)			AAAATCTCATCAATAGACACA	0.408													25	154	---	---	---	---	PASS	G	34240637	G	G	34240637	3	3	163	1	0	0	0	0	1	0	0	0	13113	826	29	2	194	2	RBM12	20	34240637	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	400926	34240637	28784883	1251	58586										
RBM39	9584	broad.mit.edu	37	chr20	34302155	34302155	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acgaccagttgttcccaaatCaattccagtcctttccagtt	5	13	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:34302155C>G	uc002xeb.2	-	11	1392	c.1048G>C	c.(1048-1050)GAT>CAT	p.D350H	RBM39_uc002xdz.2_Missense_Mutation_p.D326H|RBM39_uc002xea.2_Missense_Mutation_p.D193H|RBM39_uc010gfn.2_Missense_Mutation_p.D193H|RBM39_uc010zvm.1_Missense_Mutation_p.D328H|RBM39_uc002xeg.2_Missense_Mutation_p.D328H|RBM39_uc002xec.2_Missense_Mutation_p.D350H|RBM39_uc002xed.2_Missense_Mutation_p.D68H|RBM39_uc002xee.2_Missense_Mutation_p.D193H|RBM39_uc002xef.2_Missense_Mutation_p.D193H|RBM39_uc010zvn.1_Missense_Mutation_p.D193H	NM_184234	NP_909122	Q14498	RBM39_HUMAN	RNA binding motif protein 39 isoform a	350	Activating domain (By similarity).|Interaction with JUN (By similarity).				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	centrosome|nuclear speck	nucleotide binding|protein binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_epithelial(2;0.00295)|Lung NSC(9;0.00453)|Breast(12;0.00544)|all_lung(11;0.00676)					GTTCCCAAATCAATTCCAGTC	0.413													22	197	---	---	---	---	PASS	G	34302155	G	G	34302155	3	3	163	1	0	0	0	0	1	0	0	0	13133	826	29	2	572	2	RBM39	20	34302155	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	61518	34302155	28723365	1252	58587										
RBL1	5933	broad.mit.edu	37	chr20	35661184	35661184	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agaagcaccaattaatgaatGagcagtaagtgatacaggac	10	6	0	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:35661184G>T	uc002xgi.2	-	16	2345	c.2266C>A	c.(2266-2268)CAT>AAT	p.H756N	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.H756N	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	756	Pocket; binds T and E1A.|Spacer.				cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				ATTAATGAATGAGCAGTAAGT	0.423													71	439	---	---	---	---	PASS	T	35661184	T	T	35661184	3	4	163	1	0	0	0	0	1	0	0	0	13109	1290	45	2	977	2	RBL1	20	35661184	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1359029	35661184	27364336	1253	58588										
PTPRT	11122	broad.mit.edu	37	chr20	40944533	40944533	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtagtgtagagaatcgaggcTggaggcattccgatagctca	14	7	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:40944533T>A	uc002xkg.2	-	12	2153	c.1969A>T	c.(1969-1971)AGC>TGC	p.S657C	PTPRT_uc010ggj.2_Missense_Mutation_p.S657C	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	657	Extracellular (Potential).|Fibronectin type-III 4.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GAATCGAGGCTGGAGGCATTC	0.507													32	169	---	---	---	---	PASS	A	40944533	A	A	40944533	3	1	163	1	0	0	0	0	1	0	0	0	12812	1580	55	5	2497	5	PTPRT	20	40944533	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	5283349	40944533	22080987	1254	58589										
PABPC1L	80336	broad.mit.edu	37	chr20	43566779	43566779	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cgggcatgctgctggagattGacaactcagagctgttgctc	13	10	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:43566779G>C	uc010ggv.1	+	13	1805	c.1723G>C	c.(1723-1725)GAC>CAC	p.D575H	PABPC1L_uc010zwq.1_RNA|PABPC1L_uc002xmv.2_RNA|PABPC1L_uc002xmw.2_Missense_Mutation_p.D129H|PABPC1L_uc002xmx.2_Missense_Mutation_p.D129H	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	575	PABC.						nucleotide binding|RNA binding			ovary(1)	1						GCTGGAGATTGACAACTCAGA	0.587													20	48	---	---	---	---	PASS	C	43566779	C	C	43566779	3	2	163	1	0	0	0	0	1	0	0	0	11364	1290	45	2	1773	2	PABPC1L	20	43566779	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2622246	43566779	19458741	1255	58590										
NEURL2	140825	broad.mit.edu	37	chr20	44517426	44517426	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttgcagaaatccttaagttCtttgggcaggtggagcccat	11	9	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:44517426C>A	uc002xqg.1	-	2	1100	c.829G>T	c.(829-831)GAA>TAA	p.E277*	C20orf165_uc002xqf.2_5'Flank|CTSA_uc002xqh.2_5'Flank|CTSA_uc002xqj.3_5'Flank|CTSA_uc002xqi.2_5'Flank|CTSA_uc010zxi.1_5'Flank|CTSA_uc002xqk.3_5'Flank	NM_080749	NP_542787	Q9BR09	NEUL2_HUMAN	neuralized-like protein 2	277	SOCS box.				intracellular signal transduction						0		Myeloproliferative disorder(115;0.0122)				TCCTTAAGTTCTTTGGGCAGG	0.567													8	100	---	---	---	---	PASS	A	44517426	A	A	44517426	4	1	163	1	0	0	0	0	0	1	0	0	10346	922	32	2	32	2	NEURL2	20	44517426	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	950647	44517426	18508094	1256	58591										
MMP9	4318	broad.mit.edu	37	chr20	44640944	44640944	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	caagaagtggggcttctgccCggaccaaggtaggcgtggtc	16	10	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:44640944C>T	uc002xqz.2	+	7	1185	c.1166C>T	c.(1165-1167)CCG>CTG	p.P389L		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	389	Fibronectin type-II 3.				collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	GGCTTCTGCCCGGACCAAGGT	0.697													10	121	---	---	---	---	PASS	T	44640944	T	T	44640944	3	4	163	1	0	0	0	0	1	0	0	0	9669	652	23	1	1192	1	MMP9	20	44640944	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	123518	44640944	18384576	1257	58592										
ZNF334	55713	broad.mit.edu	37	chr20	45131354	45131354	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccacatttattatagtcaaaCggttgtttcaaaatctgaat	5	7	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:45131354C>A	uc002xsc.2	-	5	808	c.624G>T	c.(622-624)CCG>CCT	p.P208P	ZNF334_uc002xsa.2_Silent_p.P231P|ZNF334_uc002xsb.2_Silent_p.P170P|ZNF334_uc002xsd.2_Silent_p.P170P|ZNF334_uc010ghl.2_Silent_p.P207P	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	208					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				TATAGTCAAACGGTTGTTTCA	0.348													33	258	---	---	---	---	PASS	A	45131354	A	A	45131354	2	1	163	1	0	0	0	0	0	0	0	1	17848	523	19	1		1	ZNF334	20	45131354	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	490410	45131354	17894166	1258	58593										
SULF2	55959	broad.mit.edu	37	chr20	46365469	46365469	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtccggtagccagtgctattGaggtacacggcaaaggtgcg	15	9	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:46365469G>C	uc002xto.2	-	3	723	c.393C>G	c.(391-393)CTC>CTG	p.L131L	SULF2_uc002xtr.2_Silent_p.L131L|SULF2_uc002xtq.2_Silent_p.L131L|SULF2_uc010ghv.1_Silent_p.L131L	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	131					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						CAGTGCTATTGAGGTACACGG	0.542													7	60	---	---	---	---	PASS	C	46365469	C	C	46365469	2	2	163	1	0	0	0	0	0	0	0	1	15370	1277	45	2		2	SULF2	20	46365469	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1234115	46365469	16660051	1259	58594										
ARFGEF2	10564	broad.mit.edu	37	chr20	47626853	47626853	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aacatccgctcaggttggaaGaacatctttgccgtgttcca	9	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:47626853G>C	uc002xtx.3	+	27	3821	c.3669G>C	c.(3667-3669)AAG>AAC	p.K1223N	ARFGEF2_uc010zyf.1_Missense_Mutation_p.K516N	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1223					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			CAGGTTGGAAGAACATCTTTG	0.562													5	179	---	---	---	---	PASS	C	47626853	C	C	47626853	3	2	163	1	0	0	0	0	1	0	0	0	853	933	33	2	3775	2	ARFGEF2	20	47626853	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1261384	47626853	15398667	1260	58595										
ADNP	23394	broad.mit.edu	37	chr20	49509542	49509542	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagctggggcatccctcagaTtgtatgtagttaccaggaga	12	9	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:49509542T>C	uc002xvt.1	-	5	2054	c.1709A>G	c.(1708-1710)AAT>AGT	p.N570S	ADNP_uc002xvu.1_Missense_Mutation_p.N570S	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	570						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						ATCCCTCAGATTGTATGTAGT	0.443													10	355	---	---	---	---	PASS	C	49509542	C	C	49509542	3	2	163	1	0	0	0	0	1	0	0	0	323	1493	52	5	1603	5	ADNP	20	49509542	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	1882689	49509542	13515978	1261	58596										
NFATC2	4773	broad.mit.edu	37	chr20	50048903	50048903	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgagtagtggatcacaggcGaggcctgctggttggtcgga	18	7	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:50048903G>A	uc002xwd.2	-	9	2643	c.2423C>T	c.(2422-2424)TCG>TTG	p.S808L	NFATC2_uc002xwc.2_Missense_Mutation_p.S808L|NFATC2_uc010zyv.1_Missense_Mutation_p.S589L|NFATC2_uc010zyw.1_Missense_Mutation_p.S589L|NFATC2_uc010zyx.1_Missense_Mutation_p.S788L|NFATC2_uc010zyy.1_Missense_Mutation_p.S589L|NFATC2_uc010zyz.1_Missense_Mutation_p.S589L|NFATC2_uc002xwe.2_Missense_Mutation_p.S788L	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	808					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					GATCACAGGCGAGGCCTGCTG	0.647													41	108	---	---	---	---	PASS	A	50048903	A	A	50048903	3	1	163	1	0	0	0	0	1	0	0	0	10362	1059	37	2	410	2	NFATC2	20	50048903	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	539361	50048903	12976617	1262	58597										
CYP24A1	1591	broad.mit.edu	37	chr20	52774666	52774666	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acccagaactgttgccttgtCaagagtccgagttgtaaatg	10	9	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:52774666C>T	uc002xwv.2	-	9	1593	c.1195G>A	c.(1195-1197)GAC>AAC	p.D399N	CYP24A1_uc002xwu.1_Missense_Mutation_p.D257N|CYP24A1_uc002xww.2_Missense_Mutation_p.D399N	NM_000782	NP_000773	Q07973	CP24A_HUMAN	cytochrome P450 family 24 subfamily A	399					hormone biosynthetic process|osteoblast differentiation|vitamin D catabolic process|vitamin D receptor signaling pathway|xenobiotic metabolic process	mitochondrial inner membrane	1-alpha,25-dihydroxyvitamin D3 24-hydroxylase activity|electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		STAD - Stomach adenocarcinoma(23;0.206)		Calcidiol(DB00146)|Calcitriol(DB00136)|Cholecalciferol(DB00169)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	GTTGCCTTGTCAAGAGTCCGA	0.378													17	154	---	---	---	---	PASS	T	52774666	T	T	52774666	3	4	163	1	0	0	0	0	1	0	0	0	4154	826	29	2	361	2	CYP24A1	20	52774666	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2725763	52774666	10250854	1263	58598										
NPEPL1	79716	broad.mit.edu	37	chr20	57269496	57269496	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	agatggtctgcgagcagccgGaggtctttgcttccgcctgt	14	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:57269496G>A	uc010zzs.1	+	3	450	c.355G>A	c.(355-357)GAG>AAG	p.E119K	NPEPL1_uc010zzr.1_Missense_Mutation_p.E71K|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Missense_Mutation_p.E91K|NPEPL1_uc002xzp.2_Missense_Mutation_p.E7K	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	119					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			CGAGCAGCCGGAGGTCTTTGC	0.667													5	152	---	---	---	---	PASS	A	57269496	A	A	57269496	3	1	163	1	0	0	0	0	1	0	0	0	10574	1175	41	2	211	2	NPEPL1	20	57269496	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4494830	57269496	5756024	1264	58599										
CDH4	1002	broad.mit.edu	37	chr20	60509210	60509210	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggatgagcggccggtgggcGctgagccccagtacccgatc	16	13	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:60509210G>A	uc002ybn.1	+	15	2490	c.2476G>A	c.(2476-2478)GCT>ACT	p.A826T	CDH4_uc002ybp.1_Missense_Mutation_p.A752T	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	826	Cytoplasmic (Potential).			A -> P (in Ref. 1; AAA35627 and 4; no nucleotide entry).	adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GCCGGTGGGCGCTGAGCCCCA	0.687													13	49	---	---	---	---	PASS	A	60509210	A	A	60509210	3	1	163	1	0	0	0	0	1	0	0	0	3112	1087	38	1	2534	1	CDH4	20	60509210	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3239714	60509210	2516310	1265	58600										
DIDO1	11083	broad.mit.edu	37	chr20	61512756	61512756	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggtggagacatcaaggcgtCcgacaccgagaagtgggcca	15	10	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr20:61512756C>T	uc002ydr.1	-	16	4816	c.4552G>A	c.(4552-4554)GAC>AAC	p.D1518N	DIDO1_uc002yds.1_Missense_Mutation_p.D1518N	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1518					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					ATCAAGGCGTCCGACACCGAG	0.622													29	233	---	---	---	---	PASS	T	61512756	T	T	61512756	3	4	163	1	0	0	0	0	1	0	0	0	4522	855	30	2	2174	2	DIDO1	20	61512756	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1003546	61512756	1512764	1266	58601										
TMPRSS15	5651	broad.mit.edu	37	chr21	19647652	19647652	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcaatatgtttgcagtagtAcctgctcaaaatggagaatg	10	6	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr21:19647652A>C	uc002ykw.2	-	24	2797	c.2766T>G	c.(2764-2766)GGT>GGG	p.G922G		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	922	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TTGCAGTAGTACCTGCTCAAA	0.388													17	101	---	---	---	---	PASS	C	19647652	C	C	19647652	2	2	163	1	0	0	0	0	0	0	0	1	16243	405	14	5		5	TMPRSS15	21	19647652	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08		19647652	28482243	1267	58602										
ADAMTS5	11096	broad.mit.edu	37	chr21	28306991	28306991	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gaatgtcaggttgcactgctGggtggcatcgtaggtctgtc	15	8	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr21:28306991G>T	uc002ymg.2	-	4	2212	c.1483C>A	c.(1483-1485)CAG>AAG	p.Q495K		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	495	Disintegrin.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						TTGCACTGCTGGGTGGCATCG	0.567													15	77	---	---	---	---	PASS	T	28306991	T	T	28306991	3	4	163	1	0	0	0	0	1	0	0	0	269	1357	47	3	1329	3	ADAMTS5	21	28306991	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	8659339	28306991	19822904	1268	58603										
SFRS15	57466	broad.mit.edu	37	chr21	33065631	33065631	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcagtttccggtttcacttGagggaggcctttttgtcgac	12	9	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr21:33065631G>C	uc002ypd.2	-	12	1915	c.1489C>G	c.(1489-1491)CAA>GAA	p.Q497E	SFRS15_uc002ype.2_Missense_Mutation_p.Q497E|SFRS15_uc010glu.2_Missense_Mutation_p.Q482E|SFRS15_uc002ypf.1_Missense_Mutation_p.Q171E	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	497						nucleus	nucleotide binding|RNA binding				0						GGTTTCACTTGAGGGAGGCCT	0.428													4	181	---	---	---	---	PASS	C	33065631	C	C	33065631	3	2	163	1	0	0	0	0	1	0	0	0	14171	1299	45	2	1990	2	SFRS15	21	33065631	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4758640	33065631	15064264	1269	58604										
HUNK	30811	broad.mit.edu	37	chr21	33346872	33346872	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctctgcacctcgcaggatttCtctggaagatctgagcccga	10	13	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr21:33346872C>T	uc002yph.2	+	7	1376	c.1016C>T	c.(1015-1017)TCT>TTT	p.S339F		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	339					multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						CGCAGGATTTCTCTGGAAGAT	0.552													33	192	---	---	---	---	PASS	T	33346872	T	T	33346872	3	4	163	1	0	0	0	0	1	0	0	0	7458	913	32	2	1042	2	HUNK	21	33346872	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	281241	33346872	14783023	1270	58605										
IFNAR1	3454	broad.mit.edu	37	chr21	34721847	34721847	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gggaaaacacttcaaatgctGaggtaaaaagactgtatagt	10	5	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr21:34721847G>C	uc002yrn.2	+	8	1288	c.1141G>C	c.(1141-1143)GAG>CAG	p.E381Q	IFNAR1_uc011adv.1_Missense_Mutation_p.E312Q	NM_000629	NP_000620	P17181	INAR1_HUMAN	interferon-alpha receptor 1 precursor	381	Fibronectin type-III 3.|Extracellular (Potential).				JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	integral to plasma membrane	type I interferon receptor activity			central_nervous_system(1)|skin(1)	2					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	TTCAAATGCTGAGGTAAAAAG	0.308													7	31	---	---	---	---	PASS	C	34721847	C	C	34721847	3	2	163	1	0	0	0	0	1	0	0	0	7544	1291	45	2	1171	2	IFNAR1	21	34721847	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	1374975	34721847	13408048	1271	58606										
KRTAP10-2	386679	broad.mit.edu	37	chr21	45971181	45971181	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgcctggcagcaggggctgGacacacagctcactggggtg	16	13	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr21:45971181G>A	uc002zfi.1	-	1	208	c.161C>T	c.(160-162)TCC>TTC	p.S54F	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198693	NP_941966	P60368	KR102_HUMAN	keratin associated protein 10-2	54	22 X 5 AA repeats of C-C-X(3).					keratin filament				large_intestine(1)	1						GCAGGGGCTGGACACACAGCT	0.701													16	49	---	---	---	---	PASS	A	45971181	A	A	45971181	3	1	163	1	0	0	0	0	1	0	0	0	8509	1174	41	2	610	2	KRTAP10-2	21	45971181	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	11249334	45971181	2158714	1272	58607										
KRTAP10-7	386675	broad.mit.edu	37	chr21	46021108	46021108	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccctgctgccaggcggtctGtgagcccagcccctgccaat	11	18	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr21:46021108G>C	uc002zfn.3	+	2	597	c.572G>C	c.(571-573)TGT>TCT	p.C191S	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198689	NP_941962	P60409	KR107_HUMAN	keratin associated protein 10-7	196	30 X 5 AA repeats of C-C-X(3).					keratin filament					0						CAGGCGGTCTGTGAGCCCAGC	0.647													6	50	---	---	---	---	PASS	C	46021108	C	C	46021108	3	2	163	1	0	0	0	0	1	0	0	0	8514	1377	48	4	578	4	KRTAP10-7	21	46021108	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	49927	46021108	2108787	1273	58608										
UBE2G2	7327	broad.mit.edu	37	chr21	46191303	46191303	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggccaggtctcacagtcccaGagacttctggacgatctgct	11	13	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr21:46191303G>C	uc002zfy.2	-	6	562	c.487C>G	c.(487-489)CTG>GTG	p.L163V	UBE2G2_uc002zfx.2_Missense_Mutation_p.L135V	NM_003343	NP_003334	P60604	UB2G2_HUMAN	ubiquitin-conjugating enzyme E2G 2 isoform 1	163					protein K48-linked ubiquitination	cytosol	ATP binding|protein binding|ubiquitin-protein ligase activity			breast(3)|central_nervous_system(1)	4				Colorectal(79;0.0638)		CACAGTCCCAGAGACTTCTGG	0.572													29	108	---	---	---	---	PASS	C	46191303	C	C	46191303	3	2	163	1	0	0	0	0	1	0	0	0	16854	933	33	2	14	2	UBE2G2	21	46191303	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	170195	46191303	1938592	1274	58609										
CECR2	27443	broad.mit.edu	37	chr22	18022049	18022049	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttcattcctccccggcatggGggggctccagcccggccacc	12	18	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:18022049G>A	uc010gqw.1	+	15	2277	c.2151G>A	c.(2149-2151)GGG>GGA	p.G717G	CECR2_uc010gqv.1_Silent_p.G576G|CECR2_uc002zml.2_Silent_p.G576G	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	759					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		CCCGGCATGGGGGGGCTCCAG	0.552													12	30	---	---	---	---	PASS	A	18022049	A	A	18022049	2	1	163	1	0	0	0	0	0	0	0	1	3206	1219	43	3		3	CECR2	22	18022049	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08		18022049	33282517	1275	58610										
ZNF280B	140883	broad.mit.edu	37	chr22	22842929	22842929	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgttttgacttgttagactCaaaatgtctgtttttgccaa	7	6	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:22842929C>G	uc002zwc.1	-	4	1571	c.795G>C	c.(793-795)TTG>TTC	p.L265F	LOC96610_uc011aim.1_Intron	NM_080764	NP_542942	Q86YH2	Z280B_HUMAN	zinc finger protein 280B	265					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		TTGTTAGACTCAAAATGTCTG	0.373													31	96	---	---	---	---	PASS	G	22842929	G	G	22842929	3	3	163	1	0	0	0	0	1	0	0	0	17812	825	29	2	840	2	ZNF280B	22	22842929	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4820880	22842929	28461637	1276	58611										
ZNF70	7621	broad.mit.edu	37	chr22	24086611	24086611	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgaattctctcgtgttttctGaggctggagctccggctgaa	12	9	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:24086611G>A	uc002zxs.2	-	2	1178	c.717C>T	c.(715-717)CTC>CTT	p.L239L	ZNF70_uc002zxr.1_5'Flank	NM_021916	NP_068735	Q9UC06	ZNF70_HUMAN	zinc finger protein 70	239	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						CGTGTTTTCTGAGGCTGGAGC	0.532													8	145	---	---	---	---	PASS	A	24086611	A	A	24086611	2	1	163	1	0	0	0	0	0	0	0	1	18100	1277	45	2		2	ZNF70	22	24086611	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	1243682	24086611	27217955	1277	58612										
CABIN1	23523	broad.mit.edu	37	chr22	24432570	24432570	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccttaaatgccagctccaccAttgaggatgatcatgaagga	9	10	1	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:24432570A>G	uc002zzi.1	+	3	164	c.37A>G	c.(37-39)ATT>GTT	p.I13V	CABIN1_uc002zzj.1_Missense_Mutation_p.I13V|CABIN1_uc002zzl.1_Missense_Mutation_p.I13V|CABIN1_uc010guk.1_Missense_Mutation_p.I13V|CABIN1_uc002zzk.1_Missense_Mutation_p.I13V	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	13					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CAGCTCCACCATTGAGGATGA	0.448													125	394	---	---	---	---	PASS	G	24432570	G	G	24432570	3	3	163	1	0	0	0	0	1	0	0	0	2528	217	8	5	43	5	CABIN1	22	24432570	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	345959	24432570	26871996	1278	58613										
CYTSA	23384	broad.mit.edu	37	chr22	24718054	24718054	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gctggatgcaccatcctcctCagagtcggaaggcatcccca	10	15	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:24718054C>G	uc002zzw.2	+	5	1413	c.1106C>G	c.(1105-1107)TCA>TGA	p.S369*	CYTSA_uc002zzv.3_Nonsense_Mutation_p.S369*|CYTSA_uc011ajq.1_Nonsense_Mutation_p.S369*	NM_015330	NP_056145	Q69YQ0	CYTSA_HUMAN	cytospin A	369					cell cycle|cell division						0						CCATCCTCCTCAGAGTCGGAA	0.572													13	95	---	---	---	---	PASS	G	24718054	G	G	24718054	4	3	163	1	0	0	0	0	0	1	0	0	4209	838	29	2	1116	2	CYTSA	22	24718054	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	285484	24718054	26586512	1279	58614										
PIWIL3	440822	broad.mit.edu	37	chr22	25115858	25115858	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgactcacaataaaaaagtCatacctggaaatataggaca	6	8	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:25115858C>T	uc003abd.1	-	20	2806	c.2389G>A	c.(2389-2391)GAC>AAC	p.D797N	PIWIL3_uc011ajx.1_Missense_Mutation_p.D679N|PIWIL3_uc011ajy.1_Missense_Mutation_p.D679N|PIWIL3_uc010gut.1_Missense_Mutation_p.D788N	NM_001008496	NP_001008496	Q7Z3Z3	PIWL3_HUMAN	piwi-like 3	797	Piwi.				cell differentiation|gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatogenesis	cytoplasm	RNA binding			ovary(3)|central_nervous_system(1)	4						ATAAAAAAGTCATACCTGGAA	0.368													17	107	---	---	---	---	PASS	T	25115858	T	T	25115858	3	4	163	1	0	0	0	0	1	0	0	0	11959	826	29	2	267	2	PIWIL3	22	25115858	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	397804	25115858	26188708	1280	58615										
RHBDD3	25807	broad.mit.edu	37	chr22	29656762	29656762	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcaaggagcctcaggggccaGcaccccgccaaggtcctgca	13	16	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:29656762G>C	uc003aeq.1	-	5	996	c.624C>G	c.(622-624)TGC>TGG	p.C208W	RHBDD3_uc003aer.1_RNA	NM_012265	NP_036397	Q9Y3P4	RHBD3_HUMAN	rhomboid domain containing 3	208						integral to membrane	serine-type endopeptidase activity			ovary(1)	1						TCAGGGGCCAGCACCCCGCCA	0.687													5	9	---	---	---	---	PASS	C	29656762	C	C	29656762	3	2	163	1	0	0	0	0	1	0	0	0	13318	963	34	4	548	4	RHBDD3	22	29656762	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4540904	29656762	21647804	1281	58616										
AP1B1	162	broad.mit.edu	37	chr22	29754886	29754886	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggctcgcacaggtactctgtGatcttgtcaacgcggatgca	12	11	3	1	rs139994318		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:29754886G>A	uc003afj.2	-	5	538	c.354C>T	c.(352-354)ATC>ATT	p.I118I	AP1B1_uc003afi.2_Silent_p.I118I|AP1B1_uc003afk.2_Silent_p.I118I|AP1B1_uc003afl.2_Silent_p.I118I	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	118					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						GGTACTCTGTGATCTTGTCAA	0.622													4	33	---	---	---	---	PASS	A	29754886	A	A	29754886	2	1	163	1	0	0	0	0	0	0	0	1	731	1280	45	2		2	AP1B1	22	29754886	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	98124	29754886	21549680	1282	58617										
MTMR3	8897	broad.mit.edu	37	chr22	30416605	30416605	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagctctgcccacttacactCaaggaacttgcaccacaagt	6	15	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:30416605C>G	uc003agv.3	+	17	3285	c.2957C>G	c.(2956-2958)TCA>TGA	p.S986*	MTMR3_uc003agu.3_Nonsense_Mutation_p.S986*|MTMR3_uc003agw.3_Nonsense_Mutation_p.S986*	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	986					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			CACTTACACTCAAGGAACTTG	0.597													15	98	---	---	---	---	PASS	G	30416605	G	G	30416605	4	3	163	1	0	0	0	0	0	1	0	0	9945	838	29	2	3015	2	MTMR3	22	30416605	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	661719	30416605	20887961	1283	58618										
OSBP2	23762	broad.mit.edu	37	chr22	31091221	31091221	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aggggtcgcggccggggtcaGagtcaagctcaggtgtaggg	20	8	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:31091221G>C	uc003aiy.1	+	1	429	c.325G>C	c.(325-327)GAG>CAG	p.E109Q	OSBP2_uc011ala.1_Intron|OSBP2_uc010gwc.1_Intron|OSBP2_uc003aix.1_Missense_Mutation_p.E109Q|OSBP2_uc011alb.1_Missense_Mutation_p.E109Q|OSBP2_uc003aiz.1_Missense_Mutation_p.E109Q	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	109					lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						GCCGGGGTCAGAGTCAAGCTC	0.682													14	61	---	---	---	---	PASS	C	31091221	C	C	31091221	3	2	163	1	0	0	0	0	1	0	0	0	11274	943	33	2	327	2	OSBP2	22	31091221	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	674616	31091221	20213345	1284	58619										
RNF185	91445	broad.mit.edu	37	chr22	31600551	31600551	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttgtggccctggtgatcatGttctggctcctgattgccta	11	10	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:31600551G>T	uc003akb.2	+	7	758	c.558G>T	c.(556-558)ATG>ATT	p.M186I	RNF185_uc010gwh.2_RNA|RNF185_uc011alm.1_Missense_Mutation_p.M124I|RNF185_uc003akc.2_Missense_Mutation_p.M124I|RNF185_uc003ake.2_Missense_Mutation_p.M130I	NM_152267	NP_689480	Q96GF1	RN185_HUMAN	ring finger protein 185 isoform 1	186	Helical; (Potential).					integral to membrane	zinc ion binding				0						TGGTGATCATGTTCTGGCTCC	0.572													68	170	---	---	---	---	PASS	T	31600551	T	T	31600551	3	4	163	1	0	0	0	0	1	0	0	0	13468	1377	48	3	580	3	RNF185	22	31600551	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	509330	31600551	19704015	1285	58620										
DRG1	4733	broad.mit.edu	37	chr22	31829895	31829895	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tctctgtgaaacacaatcctCagaaagtgggtaaagaccat	8	9	2	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:31829895C>G	uc003aku.2	+	9	1173	c.1042C>G	c.(1042-1044)CAG>GAG	p.Q348E	uc003akv.1_5'Flank	NM_004147	NP_004138	Q9Y295	DRG1_HUMAN	developmentally regulated GTP binding protein 1	348					multicellular organismal development|transcription, DNA-dependent	cytoplasm|intermediate filament cytoskeleton|nucleus	GTP binding|transcription factor binding			central_nervous_system(1)	1						ACACAATCCTCAGAAAGTGGG	0.453													23	102	---	---	---	---	PASS	G	31829895	G	G	31829895	3	3	163	1	0	0	0	0	1	0	0	0	4761	827	29	2	1076	2	DRG1	22	31829895	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	229344	31829895	19474671	1286	58621										
DEPDC5	9681	broad.mit.edu	37	chr22	32289687	32289687	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttctctgaatgcagcctttGagatcaagctgcactggatg	10	9	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:32289687G>C	uc003als.2	+	38	4202	c.4060G>C	c.(4060-4062)GAG>CAG	p.E1354Q	DEPDC5_uc011als.1_Missense_Mutation_p.E1285Q|DEPDC5_uc011alu.1_Missense_Mutation_p.E1385Q|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.E1376Q|DEPDC5_uc003alu.2_Missense_Mutation_p.E803Q|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Missense_Mutation_p.E652Q|DEPDC5_uc011alx.1_Missense_Mutation_p.E202Q|DEPDC5_uc010gwk.2_Missense_Mutation_p.E380Q|DEPDC5_uc011aly.1_Missense_Mutation_p.E202Q	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1354					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						TGCAGCCTTTGAGATCAAGCT	0.537													7	112	---	---	---	---	PASS	C	32289687	C	C	32289687	3	2	163	1	0	0	0	0	1	0	0	0	4442	1291	45	2	4294	2	DEPDC5	22	32289687	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	459792	32289687	19014879	1287	58622										
BPIL2	254240	broad.mit.edu	37	chr22	32813092	32813092	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cattggccagtgggaggactCcaaagtgaagaatggacgat	14	7	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:32813092C>G	uc003amn.2	-	13	1304	c.1304G>C	c.(1303-1305)GGA>GCA	p.G435A	BPIL2_uc010gwo.2_Missense_Mutation_p.G192A|BPIL2_uc011amb.1_Missense_Mutation_p.G159A	NM_174932	NP_777592	Q8NFQ6	BPIL2_HUMAN	bactericidal/permeability-increasing	435						extracellular region	lipopolysaccharide binding|phospholipid binding			ovary(1)|skin(1)	2						TGGGAGGACTCCAAAGTGAAG	0.378													16	399	---	---	---	---	PASS	G	32813092	G	G	32813092	3	3	163	1	0	0	0	0	1	0	0	0	1492	855	30	2	231	2	BPIL2	22	32813092	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	523405	32813092	18491474	1288	58623										
SYN3	8224	broad.mit.edu	37	chr22	32929781	32929781	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccctgcttcatccctcacctCgatgatgtaatctctgccat	5	16	3	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:32929781C>G	uc003amx.2	-	9	1252	c.1093G>C	c.(1093-1095)GAG>CAG	p.E365Q	SYN3_uc003amy.2_Missense_Mutation_p.E365Q|SYN3_uc003amz.2_Missense_Mutation_p.E364Q	NM_003490	NP_003481	O14994	SYN3_HUMAN	synapsin III isoform IIIa	365	C; actin-binding and synaptic-vesicle binding.				neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1						TCCCTCACCTCGATGATGTAA	0.597													8	54	---	---	---	---	PASS	G	32929781	G	G	32929781	3	3	163	1	0	0	0	0	1	0	0	0	15439	893	31	2	669	2	SYN3	22	32929781	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	116689	32929781	18374785	1289	58624										
KCNJ4	3761	broad.mit.edu	37	chr22	38823708	38823708	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gactgccagcgggcactcctCtgtcacgcaccggaacccat	10	17	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:38823708C>G	uc003avs.1	-	2	527	c.430G>C	c.(430-432)GAG>CAG	p.E144Q	KCNJ4_uc003avt.1_Missense_Mutation_p.E144Q	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	144	Extracellular (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					GGGCACTCCTCTGTCACGCAC	0.617													12	103	---	---	---	---	PASS	G	38823708	G	G	38823708	3	3	163	1	0	0	0	0	1	0	0	0	8053	922	32	2	911	2	KCNJ4	22	38823708	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5893927	38823708	12480858	1290	58625										
WBP2NL	164684	broad.mit.edu	37	chr22	42423026	42423026	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggatatggagccccacctctCggatatggagccccacctgc	11	15	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:42423026C>T	uc011ape.1	+	7	787	c.771C>T	c.(769-771)CTC>CTT	p.L257L	WBP2NL_uc003bbt.2_Silent_p.L257L|WBP2NL_uc011apk.1_Silent_p.L129L|WBP2NL_uc003bbu.2_RNA|WBP2NL_uc003bbv.1_RNA	NM_152613	NP_689826	Q6ICG8	WBP2L_HUMAN	WBP2 N-terminal like	257	10 X 7 AA tandem repeat of Y-G-X-P-P-X-G.|9.|Gly-rich.				egg activation|male pronucleus assembly|meiosis	perinuclear theca	WW domain binding			ovary(2)	2						CCCCACCTCTCGGATATGGAG	0.612													66	402	---	---	---	---	PASS	T	42423026	T	T	42423026	2	4	163	1	0	0	0	0	0	0	0	1	17257	871	31	2		2	WBP2NL	22	42423026	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	3599318	42423026	8881540	1291	58626										
SERHL2	253190	broad.mit.edu	37	chr22	42956238	42956238	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gtgaggagtgcggggagcttCtcctgcaaagaggaaccacg	16	9	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:42956238C>G	uc003bcr.2	+	8	682	c.580C>G	c.(580-582)CTC>GTC	p.L194V	SERHL_uc011apm.1_Intron|SERHL2_uc011apn.1_Missense_Mutation_p.L180V|SERHL2_uc010gyz.2_Missense_Mutation_p.L130V|SERHL2_uc010gyy.2_RNA|SERHL2_uc011apo.1_RNA|RRP7B_uc003bcs.2_Intron	NM_014509	NP_055324	Q9H4I8	SEHL2_HUMAN	serine hydrolase-like 2	194						perinuclear region of cytoplasm|peroxisome	hydrolase activity				0						CGGGGAGCTTCTCCTGCAAAG	0.488													11	126	---	---	---	---	PASS	G	42956238	G	G	42956238	3	3	163	1	0	0	0	0	1	0	0	0	14078	913	32	2	610	2	SERHL2	22	42956238	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	533212	42956238	8348328	1292	58627										
C22orf9	23313	broad.mit.edu	37	chr22	45598926	45598926	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cttcagtcccacagggggatGtgtcacctgtagacactcgg	12	12	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:45598926G>T	uc003bfx.1	-	7	863	c.797C>A	c.(796-798)ACA>AAA	p.T266K	C22orf9_uc010gzw.1_Missense_Mutation_p.T118K|C22orf9_uc003bfv.1_Missense_Mutation_p.T275K|C22orf9_uc003bfw.1_Missense_Mutation_p.T271K|C22orf9_uc010gzx.2_Missense_Mutation_p.T248K|MIR1249_hsa-mir-1249|MI0006384_5'Flank	NM_001009880	NP_001009880	Q6ICG6	K0930_HUMAN	hypothetical protein LOC23313 isoform b	266							protein binding				0		Ovarian(80;0.00965)|all_neural(38;0.0244)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|READ - Rectum adenocarcinoma(1;0.000617)|Colorectal(1;0.0024)		ACAGGGGGATGTGTCACCTGT	0.632													45	140	---	---	---	---	PASS	T	45598926	T	T	45598926	3	4	163	1	0	0	0	0	1	0	0	0	2151	1377	48	3	433	3	C22orf9	22	45598926	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2642688	45598926	5705640	1293	58628										
C22orf9	23313	broad.mit.edu	37	chr22	45601129	45601129	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgtcaatcatgaagaagatgTtggggtagctgatcttggac	13	5	3	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:45601129T>A	uc003bfx.1	-	5	551	c.485A>T	c.(484-486)AAC>ATC	p.N162I	C22orf9_uc010gzw.1_Missense_Mutation_p.N14I|C22orf9_uc003bfv.1_Missense_Mutation_p.N171I|C22orf9_uc003bfw.1_Missense_Mutation_p.N167I|C22orf9_uc010gzx.2_Missense_Mutation_p.N144I	NM_001009880	NP_001009880	Q6ICG6	K0930_HUMAN	hypothetical protein LOC23313 isoform b	162							protein binding				0		Ovarian(80;0.00965)|all_neural(38;0.0244)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|READ - Rectum adenocarcinoma(1;0.000617)|Colorectal(1;0.0024)		GAAGAAGATGTTGGGGTAGCT	0.547													30	125	---	---	---	---	PASS	A	45601129	A	A	45601129	3	1	163	1	0	0	0	0	1	0	0	0	2151	1725	60	5	753	5	C22orf9	22	45601129	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	2203	45601129	5703437	1294	58629										
ZBED4	9889	broad.mit.edu	37	chr22	50279761	50279761	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gccagcatcgggaagacgctGaacgagggggagcactcgag	17	10	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:50279761G>A	uc003bix.2	+	2	2921	c.2451G>A	c.(2449-2451)CTG>CTA	p.L817L		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	817						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		GGAAGACGCTGAACGAGGGGG	0.612													6	26	---	---	---	---	PASS	A	50279761	A	A	50279761	2	1	163	1	0	0	0	0	0	0	0	1	17517	1277	45	2		2	ZBED4	22	50279761	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	4678632	50279761	1024805	1295	58630										
SAPS2	9701	broad.mit.edu	37	chr22	50845188	50845188	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcgaccgcctcggtggggacGagagcctgctgagcctcctg	16	14	0	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chr22:50845188G>A	uc003blb.1	+	5	720	c.298G>A	c.(298-300)GAG>AAG	p.E100K	SAPS2_uc003bky.1_Missense_Mutation_p.E100K|SAPS2_uc003bkz.1_Missense_Mutation_p.E100K|SAPS2_uc003blc.2_Missense_Mutation_p.E100K|SAPS2_uc003bla.1_Missense_Mutation_p.E100K	NM_014678	NP_055493	O75170	PP6R2_HUMAN	SAPS domain family, member 2	100						cytoplasm|intracellular membrane-bounded organelle	protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.222)		CGGTGGGGACGAGAGCCTGCT	0.547													64	399	---	---	---	---	PASS	A	50845188	A	A	50845188	3	1	163	1	0	0	0	0	1	0	0	0	13837	1059	37	2	304	2	SAPS2	22	50845188	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	565427	50845188	459378	1296	58631										
ARSF	416	broad.mit.edu	37	chrX	3021944	3021944	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aactgtcgcatcagtgtcagGaggaagtctccctcaggaca	11	11	4	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:3021944G>A	uc004cre.1	+	9	1465	c.1244G>A	c.(1243-1245)GGA>GAA	p.G415E	ARSF_uc004crf.1_Missense_Mutation_p.G415E	NM_004042	NP_004033	P54793	ARSF_HUMAN	arylsulfatase F precursor	415						extracellular region	arylsulfatase activity|metal ion binding			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TCAGTGTCAGGAGGAAGTCTC	0.443													53	44	---	---	---	---	PASS	A	3021944	A	A	3021944	3	1	163	1	0	0	0	0	1	0	0	0	991	1174	41	2	1274	2	ARSF	23	3021944	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08		3021944	152248616	1297	58632										
OFD1	8481	broad.mit.edu	37	chrX	13771553	13771553	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctgattgaagatgaaaggaaGaataaaggtgatgtttgggg	15	1	0	6			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:13771553G>C	uc004cvp.3	+	11	1481	c.1122G>C	c.(1120-1122)AAG>AAC	p.K374N	OFD1_uc004cvr.3_5'UTR|OFD1_uc011mil.1_5'UTR|OFD1_uc004cvq.3_Missense_Mutation_p.K234N|OFD1_uc010nen.2_Missense_Mutation_p.K373N|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Missense_Mutation_p.K333N|OFD1_uc004cvv.3_Missense_Mutation_p.K333N|OFD1_uc010neo.1_Missense_Mutation_p.K120N	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	374	Potential.				cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0						ATGAAAGGAAGAATAAAGGTG	0.353													4	118	---	---	---	---	PASS	C	13771553	C	C	13771553	3	2	163	1	0	0	0	0	1	0	0	0	10838	933	33	2	1164	2	OFD1	23	13771553	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	10749609	13771553	141499007	1298	58633										
PDHA1	5160	broad.mit.edu	37	chrX	19369418	19369418	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ggaagcttgctgtgtgggccTggaggccggcatcaacccca	15	12	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:19369418T>C	uc004czg.3	+	4	456	c.311T>C	c.(310-312)CTG>CCG	p.L104P	PDHA1_uc004czh.3_Missense_Mutation_p.L139P|PDHA1_uc011mjc.1_Missense_Mutation_p.L108P|PDHA1_uc011mjd.1_Missense_Mutation_p.L101P|PDHA1_uc010nfk.2_Missense_Mutation_p.L101P	NM_000284	NP_000275	P08559	ODPA_HUMAN	pyruvate dehydrogenase E1 alpha 1 precursor	104					glycolysis|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	protein binding|pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)	1	Hepatocellular(33;0.183)				NADH(DB00157)	TGTGTGGGCCTGGAGGCCGGC	0.498													33	103	---	---	---	---	PASS	C	19369418	C	C	19369418	3	2	163	1	0	0	0	0	1	0	0	0	11664	1580	55	5	464	5	PDHA1	23	19369418	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	5597865	19369418	135901142	1299	58634										
ZNF645	158506	broad.mit.edu	37	chrX	22292313	22292313	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actgtcaccttgtccaccaaCgcggagtccacctccttcaa	6	17	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:22292313C>A	uc004dai.1	+	1	1254	c.1205C>A	c.(1204-1206)ACG>AAG	p.T402K		NM_152577	NP_689790	Q8N7E2	ZN645_HUMAN	zinc finger protein 645	402						intracellular	zinc ion binding			lung(1)|pancreas(1)	2						TGTCCACCAACGCGGAGTCCA	0.458													42	98	---	---	---	---	PASS	A	22292313	A	A	22292313	3	1	163	1	0	0	0	0	1	0	0	0	18058	536	19	1	1207	1	ZNF645	23	22292313	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2922895	22292313	132978247	1300	58635										
EIF2S3	1968	broad.mit.edu	37	chrX	24078262	24078262	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ttgatggctactatgctgaaCggtgcagcagtgatggatgc	14	7	0	3			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:24078262C>T	uc004dbc.2	+	5	462	c.441C>T	c.(439-441)AAC>AAT	p.N147N		NM_001415	NP_001406	P41091	IF2G_HUMAN	eukaryotic translation initiation factor 2,	147						cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			lung(1)	1						CTATGCTGAACGGTGCAGCAG	0.373													11	54	---	---	---	---	PASS	T	24078262	T	T	24078262	2	4	163	1	0	0	0	0	0	0	0	1	5011	535	19	1		1	EIF2S3	23	24078262	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	1785949	24078262	131192298	1301	58636										
DMD	1756	broad.mit.edu	37	chrX	31496327	31496327	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gcgcagcttgaggtccagctCatccgtggcctcttgaagtt	12	12	2	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:31496327C>T	uc004dda.1	-	59	9077	c.8833G>A	c.(8833-8835)GAG>AAG	p.E2945K	DMD_uc004dcq.1_Missense_Mutation_p.E216K|DMD_uc004dcr.1_Missense_Mutation_p.E485K|DMD_uc004dcs.1_Missense_Mutation_p.E485K|DMD_uc004dct.1_Missense_Mutation_p.E485K|DMD_uc004dcu.1_Missense_Mutation_p.E485K|DMD_uc004dcv.1_Missense_Mutation_p.E485K|DMD_uc004dcw.2_Missense_Mutation_p.E1601K|DMD_uc004dcx.2_Missense_Mutation_p.E1604K|DMD_uc004dcz.2_Missense_Mutation_p.E2822K|DMD_uc004dcy.1_Missense_Mutation_p.E2941K|DMD_uc004ddb.1_Missense_Mutation_p.E2937K	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2945	Spectrin 22.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AGGTCCAGCTCATCCGTGGCC	0.527													18	14	---	---	---	---	PASS	T	31496327	T	T	31496327	3	4	163	1	0	0	0	0	1	0	0	0	4580	835	29	2	2422	2	DMD	23	31496327	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	7418065	31496327	123774233	1302	58637										
DMD	1756	broad.mit.edu	37	chrX	32305648	32305648	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aatatatgtgttacctacccTtgtcggtccttgtacatttt	6	9	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:32305648T>C	uc004dda.1	-	43	6532	c.6288A>G	c.(6286-6288)CAA>CAG	p.Q2096Q	DMD_uc004dcw.2_Silent_p.Q752Q|DMD_uc004dcx.2_Silent_p.Q755Q|DMD_uc004dcz.2_Silent_p.Q1973Q|DMD_uc004dcy.1_Silent_p.Q2092Q|DMD_uc004ddb.1_Silent_p.Q2088Q|DMD_uc010ngo.1_Intron|DMD_uc010ngn.1_RNA	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2096	Spectrin 14.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTACCTACCCTTGTCGGTCCT	0.403													47	57	---	---	---	---	PASS	C	32305648	C	C	32305648	2	2	163	1	0	0	0	0	0	0	0	1	4580	1606	56	5		5	DMD	23	32305648	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	809321	32305648	122964912	1303	58638										
FAM47C	442444	broad.mit.edu	37	chrX	37027712	37027712	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccggagcctcccaagactcGcatatctaatctccgctcgg	8	17	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:37027712G>T	uc004ddl.1	+	1	1243	c.1229G>T	c.(1228-1230)CGC>CTC	p.R410L		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	410										ovary(3)	3						CCCAAGACTCGCATATCTAAT	0.607													40	32	---	---	---	---	PASS	T	37027712	T	T	37027712	3	4	163	1	0	0	0	0	1	0	0	0	5571	1087	38	1	1231	1	FAM47C	23	37027712	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	4722064	37027712	118242848	1304	58639										
RPGR	6103	broad.mit.edu	37	chrX	38163977	38163977	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgactttgggttctgaagttTcaaaaagaaaagtgccaaga	10	5	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:38163977T>C	uc004ded.1	-	8	1013	c.845A>G	c.(844-846)GAA>GGA	p.E282G	RPGR_uc004deb.2_Missense_Mutation_p.E282G|RPGR_uc004dea.2_RNA|RPGR_uc004dec.2_RNA|RPGR_uc004dee.1_5'UTR	NM_001034853	NP_001030025	Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator isoform C	282	RCC1 5.				intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						TTCTGAAGTTTCAAAAAGAAA	0.383													29	22	---	---	---	---	PASS	C	38163977	C	C	38163977	3	2	163	1	0	0	0	0	1	0	0	0	13548	1783	62	5	3204	5	RPGR	23	38163977	Missense_Mutation	SNP	T	TCGA-66-2785-01A-01D-1522-08	1136265	38163977	117106583	1305	58640										
ZNF673	55634	broad.mit.edu	37	chrX	46332325	46332325	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	catgtagaaaaagcatttatCtgagcacagaatttgattct	7	6	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:46332325C>T	uc004dgn.3	+	6	693	c.394C>T	c.(394-396)CTG>TTG	p.L132L	ZNF673_uc004dgp.3_3'UTR|ZNF673_uc010nhl.2_3'UTR|ZNF673_uc004dgm.3_Silent_p.L127L	NM_001129898	NP_001123370	Q5JUW0	ZN673_HUMAN	zinc finger family member 673 isoform 1	132					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding				0						AAGCATTTATCTGAGCACAGA	0.378													30	74	---	---	---	---	PASS	T	46332325	T	T	46332325	2	4	163	1	0	0	0	0	0	0	0	1	18077	912	32	2		2	ZNF673	23	46332325	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	8168348	46332325	108938235	1306	58641										
ERAS	3266	broad.mit.edu	37	chrX	48688086	48688086	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tggagacctcggccaaaacaCggcaaggcgtggaggaggcc	16	11	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:48688086C>T	uc004dky.1	+	1	804	c.553C>T	c.(553-555)CGG>TGG	p.R185W		NM_181532	NP_853510	Q7Z444	RASE_HUMAN	ES cell expressed Ras precursor	185					small GTPase mediated signal transduction	intracellular|plasma membrane	GTP binding|GTPase activity			lung(4)|urinary_tract(1)	5						GGCCAAAACACGGCAAGGCGT	0.622													12	6	---	---	---	---	PASS	T	48688086	T	T	48688086	3	4	163	1	0	0	0	0	1	0	0	0	5205	527	19	1	555	1	ERAS	23	48688086	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	2355761	48688086	106582474	1307	58642										
GRIPAP1	56850	broad.mit.edu	37	chrX	48858606	48858606	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccgcgagcggcacctgcatcCgctgaaactcctcctcagac	9	18	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:48858606C>T	uc004dly.1	-	1	70	c.35G>A	c.(34-36)CGG>CAG	p.R12Q	GRIPAP1_uc004dma.2_Missense_Mutation_p.R12Q	NM_020137	NP_064522	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1 isoform 1	12	Potential.					early endosome				breast(2)|kidney(1)	3						CACCTGCATCCGCTGAAACTC	0.652													6	28	---	---	---	---	PASS	T	48858606	T	T	48858606	3	4	163	1	0	0	0	0	1	0	0	0	6789	652	23	1	2648	1	GRIPAP1	23	48858606	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	170520	48858606	106411954	1308	58643										
FOXP3	50943	broad.mit.edu	37	chrX	49107902	49107902	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccccttctcgctctccacccGcacaaagcacttgtgcagac	6	19	2	1	rs28935477		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:49107902G>A	uc004dnf.3	-	12	1377	c.1189C>T	c.(1189-1191)CGG>TGG	p.R397W	FOXP3_uc011mnb.1_Missense_Mutation_p.R420W|FOXP3_uc011mnc.1_Missense_Mutation_p.R370W|FOXP3_uc004dne.3_Missense_Mutation_p.R362W|FOXP3_uc010niq.1_Missense_Mutation_p.R422W	NM_014009	NP_054728	Q9BZS1	FOXP3_HUMAN	forkhead box P3 isoform a	397	Fork-head.				B cell homeostasis|cerebellum development|chromatin remodeling|embryo development|myeloid cell homeostasis|negative regulation of activated T cell proliferation|negative regulation of chronic inflammatory response|negative regulation of CREB transcription factor activity|negative regulation of cytokine secretion|negative regulation of histone acetylation|negative regulation of histone deacetylation|negative regulation of interferon-gamma biosynthetic process|negative regulation of interferon-gamma production|negative regulation of interleukin-10 production|negative regulation of interleukin-2 biosynthetic process|negative regulation of interleukin-2 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of interleukin-6 production|negative regulation of isotype switching to IgE isotypes|negative regulation of NF-kappaB transcription factor activity|negative regulation of T cell cytokine production|negative regulation of tumor necrosis factor production|pattern specification process|positive regulation of CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation|positive regulation of histone acetylation|positive regulation of immature T cell proliferation in thymus|positive regulation of peripheral T cell tolerance induction|positive regulation of T cell anergy|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transforming growth factor-beta1 production|post-embryonic development|regulation of isotype switching to IgG isotypes|response to virus|T cell homeostasis|T cell receptor signaling pathway|tolerance induction to self antigen	cytoplasm|cytoplasm|nucleus|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|histone acetyltransferase binding|histone deacetylase binding|NF-kappaB binding|NFAT protein 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 corepressor activity|zinc ion binding				0	Ovarian(276;0.236)					CTCTCCACCCGCACAAAGCAC	0.632													3	39	---	---	---	---	PASS	A	49107902	A	A	49107902	3	1	163	1	0	0	0	0	1	0	0	0	6028	1086	38	1	110	1	FOXP3	23	49107902	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	249296	49107902	106162658	1309	58644										
CCNB3	85417	broad.mit.edu	37	chrX	50052096	50052096	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccagtattgcagacaaccatCtgtggagcaatgtcctccat	8	12	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:50052096C>T	uc004dox.3	+	6	1225	c.927C>T	c.(925-927)ATC>ATT	p.I309I	CCNB3_uc004doy.2_Silent_p.I309I|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	309					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					AGACAACCATCTGTGGAGCAA	0.423													35	121	---	---	---	---	PASS	T	50052096	T	T	50052096	2	4	163	1	0	0	0	0	0	0	0	1	2914	903	32	2		2	CCNB3	23	50052096	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	944194	50052096	105218464	1310	58645										
CCNB3	85417	broad.mit.edu	37	chrX	50054316	50054316	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acctttctggaaacattcttGatcccccaaattggaaccag	6	12	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:50054316G>C	uc004dox.3	+	6	3445	c.3147G>C	c.(3145-3147)TTG>TTC	p.L1049F	CCNB3_uc004doy.2_Missense_Mutation_p.L1049F|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1049					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					AAACATTCTTGATCCCCCAAA	0.502													37	129	---	---	---	---	PASS	C	50054316	C	C	50054316	3	2	163	1	0	0	0	0	1	0	0	0	2914	1281	45	2	3161	2	CCNB3	23	50054316	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	2220	50054316	105216244	1311	58646										
WNK3	65267	broad.mit.edu	37	chrX	54275803	54275803	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgcttgcttgtttggtgagtCcctcacattcagctggaact	10	10	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:54275803C>A	uc004dtd.1	-	17	3417	c.2978G>T	c.(2977-2979)GGA>GTA	p.G993V	WNK3_uc004dtc.1_Missense_Mutation_p.G993V	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	993					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						TTTGGTGAGTCCCTCACATTC	0.448													39	50	---	---	---	---	PASS	A	54275803	A	A	54275803	3	1	163	1	0	0	0	0	1	0	0	0	17376	855	30	2	2456	2	WNK3	23	54275803	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	4221487	54275803	100994757	1312	58647										
TRO	7216	broad.mit.edu	37	chrX	54955416	54955416	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tccagtggtggcttcagtggTggacctggcattacctttgg	14	9	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:54955416T>C	uc004dtq.2	+	12	2366	c.2259T>C	c.(2257-2259)GGT>GGC	p.G753G	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Silent_p.G284G|TRO_uc004dtw.2_Silent_p.G356G|TRO_uc004dtx.2_Silent_p.G136G	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	753	1.|62 X 10 AA approximate tandem repeats.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GCTTCAGTGGTGGACCTGGCA	0.542													8	25	---	---	---	---	PASS	C	54955416	C	C	54955416	2	2	163	1	0	0	0	0	0	0	0	1	16571	1683	59	5		5	TRO	23	54955416	Silent	SNP	T	TCGA-66-2785-01A-01D-1522-08	679613	54955416	100315144	1313	58648										
TAF1	6872	broad.mit.edu	37	chrX	70601652	70601652	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccatttttcccattgacaatGaggatctggtatatggacgc	9	9	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:70601652G>A	uc004dzu.3	+	9	1468	c.1417G>A	c.(1417-1419)GAG>AAG	p.E473K	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.E494K	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	473					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				CATTGACAATGAGGATCTGGT	0.453													7	185	---	---	---	---	PASS	A	70601652	A	A	70601652	3	1	163	1	0	0	0	0	1	0	0	0	15510	1291	45	2	1514	2	TAF1	23	70601652	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	15646236	70601652	84668908	1314	58649										
ABCB7	22	broad.mit.edu	37	chrX	74284974	74284974	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cattcgaagaattgcatcatGaagtccagctaattttgcca	7	9	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:74284974G>A	uc004eca.2	-	13	1787	c.1762C>T	c.(1762-1764)CAT>TAT	p.H588Y	ABCB7_uc004ebz.2_Missense_Mutation_p.H589Y|ABCB7_uc011mqn.1_Missense_Mutation_p.H562Y|ABCB7_uc010nls.2_Missense_Mutation_p.H549Y|ABCB7_uc010nlt.2_Missense_Mutation_p.H548Y	NM_004299	NP_004290	O75027	ABCB7_HUMAN	ATP-binding cassette, sub-family B, member 7	588	ABC transporter.				cellular iron ion homeostasis	integral to membrane|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|heme transporter activity			ovary(1)	1						ATTGCATCATGAAGTCCAGCT	0.433													12	57	---	---	---	---	PASS	A	74284974	A	A	74284974	3	1	163	1	0	0	0	0	1	0	0	0	46	1290	45	2	512	2	ABCB7	23	74284974	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	3683322	74284974	80985586	1315	58650										
MAGEE1	57692	broad.mit.edu	37	chrX	75650539	75650539	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ctcaaaatatgccccacattCatggcctgagtcaagattgg	8	11	3	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:75650539C>T	uc004ecm.1	+	1	2423	c.2216C>T	c.(2215-2217)TCA>TTA	p.S739L		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	739						dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						GCCCCACATTCATGGCCTGAG	0.468													20	57	---	---	---	---	PASS	T	75650539	T	T	75650539	3	4	163	1	0	0	0	0	1	0	0	0	9185	838	29	2	2218	2	MAGEE1	23	75650539	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1365565	75650539	79620021	1316	58651										
ATRX	546	broad.mit.edu	37	chrX	76890178	76890178	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	acagactcacagcagcaatcCcacataaactgaacacctaa	4	14	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:76890178C>T	uc004ecp.3	-	17	4948	c.4716G>A	c.(4714-4716)TGG>TGA	p.W1572*	ATRX_uc004ecq.3_Nonsense_Mutation_p.W1534*|ATRX_uc004eco.3_Nonsense_Mutation_p.W1357*	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1572					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	AGCAGCAATCCCACATAAACT	0.358			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						48	151	---	---	---	---	PASS	T	76890178	T	T	76890178	4	4	163	1	0	0	0	0	0	1	0	0	1208	624	22	3	2838	3	ATRX	23	76890178	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	1239639	76890178	78380382	1317	58652										
ATP7A	538	broad.mit.edu	37	chrX	77301851	77301851	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cggagccagataggacagaaGagtccttcagaaatcagcgt	12	9	2	4			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:77301851G>C	uc004ecx.3	+	23	4447	c.4287G>C	c.(4285-4287)AAG>AAC	p.K1429N		NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	1429	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						TAGGACAGAAGAGTCCTTCAG	0.423													163	151	---	---	---	---	PASS	C	77301851	C	C	77301851	3	2	163	1	0	0	0	0	1	0	0	0	1190	933	33	2	4373	2	ATP7A	23	77301851	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	411673	77301851	77968709	1318	58653										
LPAR4	2846	broad.mit.edu	37	chrX	78010547	78010547	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tgataaccaacagtgtctctCtgtttgtcttctgtttccgc	7	11	4	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:78010547C>G	uc010nme.2	+	2	586	c.181C>G	c.(181-183)CTG>GTG	p.L61V		NM_005296	NP_005287	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	61	Helical; Name=1; (Potential).					integral to plasma membrane	lipid binding|purinergic nucleotide receptor activity, G-protein coupled			ovary(3)	3						CAGTGTCTCTCTGTTTGTCTT	0.373													99	264	---	---	---	---	PASS	G	78010547	G	G	78010547	3	3	163	1	0	0	0	0	1	0	0	0	8907	912	32	2	183	2	LPAR4	23	78010547	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	708696	78010547	77260013	1319	58654										
TBX22	50945	broad.mit.edu	37	chrX	79279607	79279607	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaggtgaaagggttggatccAgggaagcagtaccatgtggc	16	6	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:79279607A>T	uc010nmg.1	+	4	536	c.402A>T	c.(400-402)CCA>CCT	p.P134P	TBX22_uc004edi.1_Silent_p.P14P|TBX22_uc004edj.1_Silent_p.P134P	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	134	T-box.				multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						GGTTGGATCCAGGGAAGCAGT	0.507													30	38	---	---	---	---	PASS	T	79279607	T	T	79279607	2	4	163	1	0	0	0	0	0	0	0	1	15655	175	7	5		5	TBX22	23	79279607	Silent	SNP	A	TCGA-66-2785-01A-01D-1522-08	1269060	79279607	75990953	1320	58655										
MORC4	79710	broad.mit.edu	37	chrX	106228351	106228351	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	gatgttccaaatgagaacacGagtgccttttttgcctggga	11	8	0	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:106228351G>A	uc004emu.3	-	5	892	c.649C>T	c.(649-651)CGT>TGT	p.R217C	MORC4_uc004emp.3_Intron|MORC4_uc004emv.3_Missense_Mutation_p.R217C|MORC4_uc004emw.3_Intron	NM_024657	NP_078933	Q8TE76	MORC4_HUMAN	zinc finger, CW type with coiled-coil domain 2	217							ATP binding|zinc ion binding			ovary(1)	1						ATGAGAACACGAGTGCCTTTT	0.388													43	115	---	---	---	---	PASS	A	106228351	A	A	106228351	3	1	163	1	0	0	0	0	1	0	0	0	9704	1058	37	2	2216	2	MORC4	23	106228351	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	26948744	106228351	49042209	1321	58656										
CXorf41	139212	broad.mit.edu	37	chrX	106466060	106466060	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actcctcaacaggttgttgcAgtgaactagtggtaagcctc	10	10	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:106466060A>G	uc004enc.2	+	5	480	c.418A>G	c.(418-420)AGT>GGT	p.S140G	CXorf41_uc004end.2_Missense_Mutation_p.S140G	NM_173494	NP_775765	Q9NQM4	CX041_HUMAN	hypothetical protein LOC139212	140											0						AGGTTGTTGCAGTGAACTAGT	0.358													37	89	---	---	---	---	PASS	G	106466060	G	G	106466060	3	3	163	1	0	0	0	0	1	0	0	0	4110	188	7	5	432	5	CXorf41	23	106466060	Missense_Mutation	SNP	A	TCGA-66-2785-01A-01D-1522-08	237709	106466060	48804500	1322	58657										
COL4A6	1288	broad.mit.edu	37	chrX	107403859	107403859	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccaggcattccaggcatcccGaaggggccttgctgccctgg	13	15	0	0	rs139555294	byFrequency	TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:107403859G>A	uc004enw.3	-	43	4465	c.4362C>T	c.(4360-4362)TTC>TTT	p.F1454F	COL4A6_uc004env.3_Silent_p.F1453F|COL4A6_uc011msn.1_Silent_p.F1429F|COL4A6_uc010npk.2_Silent_p.F1396F|COL4A6_uc011msm.1_5'Flank|COL4A6_uc010npj.2_Intron	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1454	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						CAGGCATCCCGAAGGGGCCTT	0.522									Alport_syndrome_with_Diffuse_Leiomyomatosis				6	117	---	---	---	---	PASS	A	107403859	A	A	107403859	2	1	163	1	0	0	0	0	0	0	0	1	3695	1049	37	2		2	COL4A6	23	107403859	Silent	SNP	G	TCGA-66-2785-01A-01D-1522-08	937799	107403859	47866701	1323	58658										
TRPC5	7224	broad.mit.edu	37	chrX	111195371	111195371	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	atgcatcacccacatacacgCtgtggttcagcagtagctcc	8	14	2	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:111195371C>G	uc004epl.1	-	2	1197	c.278G>C	c.(277-279)AGC>ACC	p.S93T	TRPC5_uc004epm.1_Missense_Mutation_p.S93T	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	93	ANK 2.|Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						CACATACACGCTGTGGTTCAG	0.557													81	93	---	---	---	---	PASS	G	111195371	G	G	111195371	3	3	163	1	0	0	0	0	1	0	0	0	16579	797	28	4	2683	4	TRPC5	23	111195371	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	3791512	111195371	44075189	1324	58659										
LONRF3	79836	broad.mit.edu	37	chrX	118143099	118143099	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	ccccatgtagtgcttggcatCaagaaaatacagcaaaaatg	8	9	1	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:118143099C>G	uc004eqw.2	+	7	1572	c.1541C>G	c.(1540-1542)TCA>TGA	p.S514*	LONRF3_uc004eqx.2_Nonsense_Mutation_p.S473*|LONRF3_uc004eqy.2_RNA|LONRF3_uc004eqz.2_Nonsense_Mutation_p.S258*	NM_001031855	NP_001027026	Q496Y0	LONF3_HUMAN	LON peptidase N-terminal domain and ring finger	514					proteolysis		ATP-dependent peptidase activity|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)	2						TGCTTGGCATCAAGAAAATAC	0.383													26	85	---	---	---	---	PASS	G	118143099	G	G	118143099	4	3	163	1	0	0	0	0	0	1	0	0	8896	838	29	2	1567	2	LONRF3	23	118143099	Nonsense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6947728	118143099	37127461	1325	58660										
ODZ1	10178	broad.mit.edu	37	chrX	124029949	124029949	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cccttatccacattcttagtGcatggtcaggtgaggcagca	10	11	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:124029949G>C	uc004euj.2	-	2	423	c.359C>G	c.(358-360)GCA>GGA	p.A120G	ODZ1_uc011muj.1_Missense_Mutation_p.A120G|ODZ1_uc010nqy.2_Missense_Mutation_p.A120G	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	120	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CATTCTTAGTGCATGGTCAGG	0.498													82	243	---	---	---	---	PASS	C	124029949	C	C	124029949	3	2	163	1	0	0	0	0	1	0	0	0	10834	1319	46	4	7963	4	ODZ1	23	124029949	Missense_Mutation	SNP	G	TCGA-66-2785-01A-01D-1522-08	5886850	124029949	31240611	1326	58661										
OCRL	4952	broad.mit.edu	37	chrX	128692883	128692883	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	accaacaccatgcggaagctCtttgtaccaaatacccaatc	5	14	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:128692883C>G	uc004euq.2	+	8	792	c.627C>G	c.(625-627)CTC>CTG	p.L209L	OCRL_uc004eur.2_Silent_p.L209L	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	209					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TGCGGAAGCTCTTTGTACCAA	0.428													10	120	---	---	---	---	PASS	G	128692883	G	G	128692883	2	3	163	1	0	0	0	0	0	0	0	1	10823	900	32	2		2	OCRL	23	128692883	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	4662934	128692883	26577677	1327	58662										
MAGEC2	51438	broad.mit.edu	37	chrX	141291553	141291553	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cggtaagatttggtatcacaCcagagggcacctcctcctcc	9	14	1	2			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:141291553C>A	uc004fbu.1	-	3	569	c.221G>T	c.(220-222)GGT>GTT	p.G74V		NM_016249	NP_057333	Q9UBF1	MAGC2_HUMAN	melanoma antigen family C, 2	74						cytoplasm|nucleus				breast(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TGGTATCACACCAGAGGGCAC	0.393										HNSCC(46;0.14)			51	25	---	---	---	---	PASS	A	141291553	A	A	141291553	3	1	163	1	0	0	0	0	1	0	0	0	9181	507	18	3	904	3	MAGEC2	23	141291553	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	12598670	141291553	13979007	1328	58663										
FMR1	2332	broad.mit.edu	37	chrX	147018994	147018994	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tttttaccaaggaaattatgCcaccaaattcccttccttcc	3	13	0	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:147018994C>T	uc010nst.2	+	11	1189	c.1000C>T	c.(1000-1002)CCA>TCA	p.P334S	FMR1_uc004fcj.2_Missense_Mutation_p.P332S|FMR1_uc004fck.3_Missense_Mutation_p.P334S|FMR1_uc004fcl.3_Missense_Mutation_p.P195S|FMR1_uc011mxa.1_Missense_Mutation_p.P2S	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	334					mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGAAATTATGCCACCAAATTC	0.264									Fragile_X_syndrome				4	141	---	---	---	---	PASS	T	147018994	T	T	147018994	3	4	163	1	0	0	0	0	1	0	0	0	5960	739	26	3	1042	3	FMR1	23	147018994	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	5727441	147018994	8251566	1329	58664										
OPN1LW	5956	broad.mit.edu	37	chrX	153416362	153416362	+	Missense_Mutation	SNP	C	G	G													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	cagcattgtgaaccaggtctCtggctacttcgtgctgggcc					rs1065422		TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:153416362C>G	uc004fjz.3	+	2	380	c.347C>G	c.(346-348)TCT>TGT	p.S116C		NM_020061	NP_064445	P04000	OPSR_HUMAN	opsin 1 (cone pigments), long-wave-sensitive	116	Extracellular.				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0	all_cancers(53;1.83e-16)|all_epithelial(53;2.73e-10)|all_lung(58;6.39e-07)|Lung NSC(58;8.37e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AACCAGGTCTCTGGCTACTTC	0.617													30	107	---	---	---	---	PASS	G	153416362	G	G	153416362	3	3	163	1	0	0	0	0	1	0	0	0	10877	913	32	2	353	2	OPN1LW	23	153416362	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	6397368	153416362	1854198	1330	58665	1041	2								
OPN1LW	5956	broad.mit.edu	37	chrX	153416372	153416372	+	Missense_Mutation	SNP	C	G	G													0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	aaccaggtctctggctacttCgtgctgggccaccctatgtg							TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:153416372C>G	uc004fjz.3	+	2	390	c.357C>G	c.(355-357)TTC>TTG	p.F119L		NM_020061	NP_064445	P04000	OPSR_HUMAN	opsin 1 (cone pigments), long-wave-sensitive	119	Extracellular.				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0	all_cancers(53;1.83e-16)|all_epithelial(53;2.73e-10)|all_lung(58;6.39e-07)|Lung NSC(58;8.37e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTGGCTACTTCGTGCTGGGCC	0.607													27	104	---	---	---	---	PASS	G	153416372	G	G	153416372	3	3	163	1	0	0	0	0	1	0	0	0	10877	883	31	2	363	2	OPN1LW	23	153416372	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	10	153416372	1854188	1331	58666	1041	2								
F8	2157	broad.mit.edu	37	chrX	154159454	154159454	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	tcttaattggaggcctgactCaggggtaaataccatgtccc	10	10	2	1			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:154159454C>G	uc004fmt.2	-	14	2782	c.2611G>C	c.(2611-2613)GAG>CAG	p.E871Q		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	871	B.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	AGGCCTGACTCAGGGGTAAAT	0.423													35	76	---	---	---	---	PASS	G	154159454	G	G	154159454	3	3	163	1	0	0	0	0	1	0	0	0	5350	835	29	2	4524	2	F8	23	154159454	Missense_Mutation	SNP	C	TCGA-66-2785-01A-01D-1522-08	743082	154159454	1111106	1332	58667										
MTCP1	4515	broad.mit.edu	37	chrX	154294059	154294059	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.458206686930091	603	3.05876871387999e-222	3.94887233813094	4.47718242706323	3.05893027283091	7.76588048548739e-47	6.87280422965634e-45	450	actcgtgcccttaggaaactCgtctcctaatggaaaggaat	9	10	1	0			TCGA-66-2785-01A-01D-1522-08	TCGA-66-2785-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	57debe39-f57d-400a-a860-3de357d6bec1	9f36f553-8a12-4eb2-85e9-61c56d1c56e3	g.chrX:154294059C>T	uc004fmz.2	-	3	737	c.111G>A	c.(109-111)ACG>ACA	p.T37T	MTCP1NB_uc004fmy.2_Intron	NM_001018025	NP_001018025	P56278	MTCP1_HUMAN	mature T-cell proliferation 1	37					cell proliferation					lung(1)	1	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TTAGGAAACTCGTCTCCTAAT	0.423			T	TRA@	T cell prolymphocytic leukemia								62	47	---	---	---	---	PASS	T	154294059	T	T	154294059	2	4	163	1	0	0	0	0	0	0	0	1	9915	871	31	2		2	MTCP1	23	154294059	Silent	SNP	C	TCGA-66-2785-01A-01D-1522-08	134605	154294059	976501	1333	58668										
HSPG2	3339	broad.mit.edu	37	chr1	22200485	22200485	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggggtggccgtctgtgtccaGaaaacaagtgtgggcagccc	16	10	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:22200485G>C	uc001bfj.2	-	29	3716	c.3676C>G	c.(3676-3678)CTG>GTG	p.L1226V	HSPG2_uc009vqd.2_Missense_Mutation_p.L1227V	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	1226	Laminin EGF-like 7.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TCTGTGTCCAGAAAACAAGTG	0.637													3	16	---	---	---	---	PASS	C	22200485	C	C	22200485	3	2	164	1	0	0	0	0	1	0	0	0	7430	933	33	2	9775	2	HSPG2	1	22200485	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08		22200485	227050136	1	58669										
LUZP1	7798	broad.mit.edu	37	chr1	23419764	23419764	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggctaataatttgtttttatTttgttcacttaggtaattat	6	3	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:23419764T>G	uc001bgk.2	-	4	1375	c.991A>C	c.(991-993)AAT>CAT	p.N331H	LUZP1_uc010odv.1_Missense_Mutation_p.N331H|LUZP1_uc001bgl.2_Missense_Mutation_p.N331H|LUZP1_uc001bgm.1_Missense_Mutation_p.N331H	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	331	Potential.					nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		TTGTTTTTATTTTGTTCACTT	0.343													38	259	---	---	---	---	PASS	G	23419764	G	G	23419764	3	3	164	1	0	0	0	0	1	0	0	0	9086	1841	64	5	2247	5	LUZP1	1	23419764	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	1219279	23419764	225830857	2	58670										
CSMD2	114784	broad.mit.edu	37	chr1	34190152	34190152	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gggcccggctccactggaagTtgggctcacactccagaggc	14	14	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:34190152T>C	uc001bxn.1	-	18	2758	c.2729A>G	c.(2728-2730)AAC>AGC	p.N910S	CSMD2_uc001bxm.1_Missense_Mutation_p.N950S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	910	Sushi 5.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CCACTGGAAGTTGGGCTCACA	0.597													3	71	---	---	---	---	PASS	C	34190152	C	C	34190152	3	2	164	1	0	0	0	0	1	0	0	0	3945	1725	60	5	7942	5	CSMD2	1	34190152	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	10770388	34190152	215060469	3	58671										
ZMYM6	9204	broad.mit.edu	37	chr1	35480744	35480744	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aaagcgagttgtgatcacatCcttaggatttaaaatgtctc	8	7	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:35480744C>G	uc001byh.2	-	5	676	c.448G>C	c.(448-450)GAT>CAT	p.D150H	ZMYM6_uc001byf.1_Missense_Mutation_p.D150H|ZMYM6_uc010oht.1_Missense_Mutation_p.D53H|ZMYM6_uc009vup.2_5'UTR|ZMYM6_uc009vuq.1_Missense_Mutation_p.D150H|ZMYM6_uc009vur.1_5'UTR	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258	150	MYM-type 1.				multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				GTGATCACATCCTTAGGATTT	0.338													3	73	---	---	---	---	PASS	G	35480744	G	G	35480744	3	3	164	1	0	0	0	0	1	0	0	0	17701	855	30	2	3577	2	ZMYM6	1	35480744	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	1290592	35480744	213769877	4	58672										
CC2D1B	200014	broad.mit.edu	37	chr1	52825395	52825395	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	accttcccaatcctcatgagCtctcgggcacggtctagctc	8	16	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:52825395C>A	uc001ctq.1	-	8	1062	c.924G>T	c.(922-924)GAG>GAT	p.E308D	CC2D1B_uc001ctr.2_5'Flank|CC2D1B_uc001cts.2_5'UTR	NM_032449	NP_115825	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B	308										ovary(2)	2						TCCTCATGAGCTCTCGGGCAC	0.423													4	14	---	---	---	---	PASS	A	52825395	A	A	52825395	3	1	164	1	0	0	0	0	1	0	0	0	2727	796	28	3	1720	3	CC2D1B	1	52825395	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	17344651	52825395	196425226	5	58673										
TYW3	127253	broad.mit.edu	37	chr1	75204423	75204423	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgccactttgaaatttgaacCatttgttcttcatgtgcagt	7	8	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:75204423C>T	uc001dgn.2	+	3	394	c.305C>T	c.(304-306)CCA>CTA	p.P102L	TYW3_uc010oqw.1_Intron|TYW3_uc010oqx.1_Intron|TYW3_uc010oqy.1_RNA	NM_138467	NP_612476	Q6IPR3	TYW3_HUMAN	tRNA-yW synthesizing protein 3 homolog isoform	102					tRNA processing		methyltransferase activity	p.P102R(1)		ovary(2)	2						AAATTTGAACCATTTGTTCTT	0.363													29	75	---	---	---	---	PASS	T	75204423	T	T	75204423	3	4	164	1	0	0	0	0	1	0	0	0	16817	594	21	3	315	3	TYW3	1	75204423	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	22379028	75204423	174046198	6	58674										
EPHX4	253152	broad.mit.edu	37	chr1	92511107	92511107	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agggtatagcaaatgtgttcTtattggccatgactgggggg	15	5	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:92511107T>C	uc001don.2	+	4	598	c.494T>C	c.(493-495)CTT>CCT	p.L165P		NM_173567	NP_775838	Q8IUS5	EPHX4_HUMAN	abhydrolase domain containing 7	165						integral to membrane	hydrolase activity			central_nervous_system(1)	1						AAATGTGTTCTTATTGGCCAT	0.373													24	276	---	---	---	---	PASS	C	92511107	C	C	92511107	3	2	164	1	0	0	0	0	1	0	0	0	5182	1609	56	5	508	5	EPHX4	1	92511107	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	17306684	92511107	156739514	7	58675										
BCAR3	8412	broad.mit.edu	37	chr1	94027879	94027879	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tggttgaatttctcatatctCtctgtctgattgacttgtgc	8	8	4	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:94027879C>G	uc001dpz.2	-	12	2672	c.2397G>C	c.(2395-2397)GAG>GAC	p.E799D	BCAR3_uc001dqa.2_Missense_Mutation_p.E799D|BCAR3_uc001dqb.2_Missense_Mutation_p.E799D|BCAR3_uc001dpx.3_Missense_Mutation_p.E475D|BCAR3_uc001dpy.2_Missense_Mutation_p.E708D	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	799	Ras-GEF.				response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		TCTCATATCTCTCTGTCTGAT	0.418													63	207	---	---	---	---	PASS	G	94027879	G	G	94027879	3	3	164	1	0	0	0	0	1	0	0	0	1349	912	32	2	84	2	BCAR3	1	94027879	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	1516772	94027879	155222742	8	58676										
LPPR4	9890	broad.mit.edu	37	chr1	99772302	99772302	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcagaaagctgtgagtctctGaaagacagctttggttctgg	12	7	3	4			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:99772302G>C	uc001dse.2	+	7	2134	c.2028G>C	c.(2026-2028)CTG>CTC	p.L676L	LPPR4_uc010oue.1_Silent_p.L618L	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	676							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		GTGAGTCTCTGAAAGACAGCT	0.522													13	41	---	---	---	---	PASS	C	99772302	C	C	99772302	2	2	164	1	0	0	0	0	0	0	0	1	8927	1277	45	2		2	LPPR4	1	99772302	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	5744423	99772302	149478319	9	58677										
WDR3	10885	broad.mit.edu	37	chr1	118491082	118491082	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggaatctgctggagacaataGatgcacatgatggagctttg	13	6	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:118491082G>T	uc010oxe.1	+	13	1543	c.1477G>T	c.(1477-1479)GAT>TAT	p.D493Y	WDR3_uc001ehi.2_Intron	NM_006784	NP_006775	Q9UNX4	WDR3_HUMAN	WD repeat-containing protein 3	493	WD 8.					nuclear membrane|nucleolus				upper_aerodigestive_tract(1)	1	Esophageal squamous(2;0.162)	all_cancers(81;2.72e-05)|Acute lymphoblastic leukemia(138;1e-08)|all_epithelial(167;4.4e-07)|all_lung(203;1.7e-06)|Lung NSC(69;1.98e-05)|Prostate(1639;0.00955)|Breast(1374;0.244)		OV - Ovarian serous cystadenocarcinoma(397;1.39e-08)|Epithelial(280;1.82e-07)|all cancers(265;2.04e-05)|Lung(183;0.0525)|BRCA - Breast invasive adenocarcinoma(282;0.0695)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.185)		GGAGACAATAGATGCACATGA	0.478													12	89	---	---	---	---	PASS	T	118491082	T	T	118491082	3	4	164	1	0	0	0	0	1	0	0	0	17282	942	33	2	1523	2	WDR3	1	118491082	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	18718780	118491082	130759539	10	58678										
TRIM46	80128	broad.mit.edu	37	chr1	155148067	155148067	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cccttccacccgcagcccccGcctctcccgcagaactctcc	5	25	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:155148067G>A	uc001fhs.1	+	2	352	c.269G>A	c.(268-270)CGC>CAC	p.R90H	RAG1AP1_uc010pey.1_Intron|KRTCAP2_uc001fho.2_5'Flank|KRTCAP2_uc001fhp.1_5'Flank|TRIM46_uc009wpe.1_RNA|TRIM46_uc010pez.1_Missense_Mutation_p.R77H|TRIM46_uc001fhq.2_RNA|TRIM46_uc001fhr.2_Missense_Mutation_p.R90H|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_Intron|TRIM46_uc001fhu.1_Missense_Mutation_p.R67H|TRIM46_uc009wpg.1_Missense_Mutation_p.R77H|TRIM46_uc009wpf.2_Missense_Mutation_p.R77H|TRIM46_uc001fhv.3_Missense_Mutation_p.R77H|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	90						intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CGCAGCCCCCGCCTCTCCCGC	0.672													13	54	---	---	---	---	PASS	A	155148067	A	A	155148067	3	1	164	1	0	0	0	0	1	0	0	0	16518	1087	38	1	275	1	TRIM46	1	155148067	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	36656985	155148067	94102554	11	58679										
CADM3	57863	broad.mit.edu	37	chr1	159163779	159163779	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcgtgtgctctgtgaaccatGaatctctaaagggagctgac	11	9	2	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:159163779G>C	uc001ftl.2	+	5	782	c.640G>C	c.(640-642)GAA>CAA	p.E214Q	CADM3_uc009wsy.1_Intron|CADM3_uc001ftk.2_Missense_Mutation_p.E248Q	NM_001127173	NP_001120645	Q8N126	CADM3_HUMAN	cell adhesion molecule 3 isoform 2	214	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|heterophilic cell-cell adhesion|homophilic cell adhesion	cell-cell junction|integral to membrane	protein homodimerization activity			ovary(2)	2	all_hematologic(112;0.0429)					TGTGAACCATGAATCTCTAAA	0.498													20	69	---	---	---	---	PASS	C	159163779	C	C	159163779	3	2	164	1	0	0	0	0	1	0	0	0	2568	1291	45	2	764	2	CADM3	1	159163779	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	4015712	159163779	90086842	12	58680										
DARS2	55157	broad.mit.edu	37	chr1	173802512	173802512	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aaaaatctttcaatttctttAgaaaacagaggctcttcggt	6	7	4	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:173802512A>G	uc001gjh.1	+	6	903	c.493_splice	c.e6-2	p.K165_splice		NM_018122	NP_060592	Q6PI48	SYDM_HUMAN	aspartyl-tRNA synthetase 2, mitochondrial						tRNA aminoacylation for protein translation	mitochondrial matrix|nucleus	aspartate-tRNA ligase activity|ATP binding|nucleic acid binding			central_nervous_system(2)	2					L-Aspartic Acid(DB00128)	CAATTTCTTTAGAAAACAGAG	0.313													6	18	---	---	---	---	PASS	G	173802512	G	G	173802512	5	3	164	1	0	0	0	0	0	0	1	0	4242	434	15	5	513	5	DARS2	1	173802512	Splice_Site	SNP	A	TCGA-66-2786-01A-01D-1522-08	14638733	173802512	75448109	13	58681										
TNN	63923	broad.mit.edu	37	chr1	175046622	175046622	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ctctgtgctcctggtggcttCggccccagccactctggagc	12	16	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:175046622C>T	uc001gkl.1	+	2	181	c.68C>T	c.(67-69)TCG>TTG	p.S23L	TNN_uc010pmx.1_Missense_Mutation_p.S23L	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	23					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		CTGGTGGCTTCGGCCCCAGCC	0.592													15	62	---	---	---	---	PASS	T	175046622	T	T	175046622	3	4	164	1	0	0	0	0	1	0	0	0	16320	893	31	2	70	2	TNN	1	175046622	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	1244110	175046622	74203999	14	58682										
HMCN1	83872	broad.mit.edu	37	chr1	186072603	186072603	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tttttgattccctttaaataGaaccacctcacattaatgga	4	9	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:186072603G>A	uc001grq.1	+	69	10803	c.10574_splice	c.e69-1	p.E3525_splice		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor						response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CCTTTAAATAGAACCACCTCA	0.338													37	113	---	---	---	---	PASS	A	186072603	A	A	186072603	5	1	164	1	0	0	0	0	0	0	1	0	7220	956	33	2	10847	2	HMCN1	1	186072603	Splice_Site	SNP	G	TCGA-66-2786-01A-01D-1522-08	11025981	186072603	63178018	15	58683										
EXOC8	149371	broad.mit.edu	37	chr1	231473325	231473325	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cgttgcgcttcaggttctgcGccgtctcctccgccagcgcc	11	18	3	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:231473325G>C	uc001huq.2	-	1	254	c.167C>G	c.(166-168)GCG>GGG	p.A56G	C1orf124_uc001hur.2_5'Flank|C1orf124_uc001hus.2_5'Flank|C1orf124_uc001hut.2_5'Flank	NM_175876	NP_787072	Q8IYI6	EXOC8_HUMAN	exocyst complex 84-kDa subunit	56					exocytosis|protein transport	growth cone|nucleus	protein binding			skin(1)	1	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				CAGGTTCTGCGCCGTCTCCTC	0.642													3	81	---	---	---	---	PASS	C	231473325	C	C	231473325	3	2	164	1	0	0	0	0	1	0	0	0	5311	1087	38	4	2014	4	EXOC8	1	231473325	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	45400722	231473325	17777296	16	58684										
RYR2	6262	broad.mit.edu	37	chr1	237494252	237494252	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtccgggcgctgcaggagatGctggctaacaccgtggagaa	16	10	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:237494252G>T	uc001hyl.1	+	3	363	c.243G>T	c.(241-243)ATG>ATT	p.M81I		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	81	Cytoplasmic (By similarity).				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)			TGCAGGAGATGCTGGCTAACA	0.488													29	78	---	---	---	---	PASS	T	237494252	T	T	237494252	3	4	164	1	0	0	0	0	1	0	0	0	13769	1319	46	3	253	3	RYR2	1	237494252	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	6020927	237494252	11756369	17	58685										
RYR2	6262	broad.mit.edu	37	chr1	237819249	237819249	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cagtcatcaatggattctgaAgggaactttaacccacaacc	7	11	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:237819249A>G	uc001hyl.1	+	53	8214	c.8094A>G	c.(8092-8094)GAA>GAG	p.E2698E		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2698	Modulator (Potential).|Cytoplasmic (By similarity).|3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TGGATTCTGAAGGGAACTTTA	0.403													18	45	---	---	---	---	PASS	G	237819249	G	G	237819249	2	3	164	1	0	0	0	0	0	0	0	1	13769	69	3	5		5	RYR2	1	237819249	Silent	SNP	A	TCGA-66-2786-01A-01D-1522-08	324997	237819249	11431372	18	58686										
OR2M7	391196	broad.mit.edu	37	chr1	248487030	248487030	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aggattcagcatgggagtgaCgatggtgtagaatacagaca	14	5	1	3	rs143090101	byFrequency	TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr1:248487030C>T	uc010pzk.1	-	1	841	c.841G>A	c.(841-843)GTC>ATC	p.V281I		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	281	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATGGGAGTGACGATGGTGTAG	0.453													42	103	---	---	---	---	PASS	T	248487030	T	T	248487030	3	4	164	1	0	0	0	0	1	0	0	0	11014	536	19	1	100	1	OR2M7	1	248487030	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	10667781	248487030	763591	19	58687										
RNF144A	9781	broad.mit.edu	37	chr2	7154628	7154628	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cttgatcaaagaaggattagAaactgcaattagctgcccag	9	8	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:7154628A>T	uc002qys.2	+	4	621	c.179A>T	c.(178-180)GAA>GTA	p.E60V	RNF144A_uc002qyt.2_Intron	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	60	RING-type 1; atypical.					Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		GAAGGATTAGAAACTGCAATT	0.443													54	131	---	---	---	---	PASS	T	7154628	T	T	7154628	3	4	164	1	0	0	0	0	1	0	0	0	13445	246	9	5	185	5	RNF144A	2	7154628	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08		7154628	236044745	20	58688										
NTSR2	23620	broad.mit.edu	37	chr2	11802132	11802132	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ctggaggctgcggatccggcGcacgtctttatgtctcacca	12	13	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:11802132G>A	uc002rbq.3	-	2	933	c.859C>T	c.(859-861)CGC>TGC	p.R287C		NM_012344	NP_036476	O95665	NTR2_HUMAN	neurotensin receptor 2	287	Cytoplasmic (Potential).				sensory perception	integral to plasma membrane					0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.129)|OV - Ovarian serous cystadenocarcinoma(76;0.24)	Levocabastine(DB01106)	CGGATCCGGCGCACGTCTTTA	0.493													68	160	---	---	---	---	PASS	A	11802132	A	A	11802132	3	1	164	1	0	0	0	0	1	0	0	0	10711	1087	38	1	385	1	NTSR2	2	11802132	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	4647504	11802132	231397241	21	58689										
NCOA1	8648	broad.mit.edu	37	chr2	24929797	24929797	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggaatatccctagcacagttCatgtctccaaggagacaggt	10	10	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:24929797C>T	uc002rfk.2	+	11	1716	c.1458C>T	c.(1456-1458)TTC>TTT	p.F486F	NCOA1_uc010eye.2_Silent_p.F486F|NCOA1_uc002rfi.2_Silent_p.F335F|NCOA1_uc002rfj.2_Silent_p.F486F|NCOA1_uc002rfl.2_Silent_p.F486F	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	486	Interaction with STAT3.|Ser-rich.								PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TAGCACAGTTCATGTCTCCAA	0.448			T	PAX3	alveolar rhadomyosarcoma								46	118	---	---	---	---	PASS	T	24929797	T	T	24929797	2	4	164	1	0	0	0	0	0	0	0	1	10228	825	29	2		2	NCOA1	2	24929797	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	13127665	24929797	218269576	22	58690										
NRXN1	9378	broad.mit.edu	37	chr2	50765611	50765611	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aacaaatccctgatgcagccCacgtagccatagttgagcag	9	12	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:50765611C>A	uc010fbq.2	-	10	3520	c.2043G>T	c.(2041-2043)GTG>GTT	p.V681V	NRXN1_uc002rxb.3_Silent_p.V313V|NRXN1_uc002rxe.3_Silent_p.V641V|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TGATGCAGCCCACGTAGCCAT	0.522													36	171	---	---	---	---	PASS	A	50765611	A	A	50765611	2	1	164	1	0	0	0	0	0	0	0	1	10665	581	21	3		3	NRXN1	2	50765611	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	25835814	50765611	192433762	23	58691										
MEIS1	4211	broad.mit.edu	37	chr2	66668595	66668595	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcatctattggaattagagaAggtaatttctctagcctctt	7	7	4	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:66668595A>C	uc002sdu.2	+	5	939	c.482A>C	c.(481-483)AAG>ACG	p.K161T	MEIS1_uc002sdt.2_Missense_Mutation_p.K161T|MEIS1_uc002sdv.2_Missense_Mutation_p.K159T|MEIS1_uc010yqh.1_RNA|MEIS1_uc010yqi.1_Missense_Mutation_p.K96T|MEIS1_uc002sdw.1_Missense_Mutation_p.K17T	NM_002398	NP_002389	O00470	MEIS1_HUMAN	Meis homeobox 1	161							sequence-specific DNA binding transcription factor activity				0						GAATTAGAGAAGGTAATTTCT	0.413													4	9	---	---	---	---	PASS	C	66668595	C	C	66668595	3	2	164	1	0	0	0	0	1	0	0	0	9467	86	3	5	500	5	MEIS1	2	66668595	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	15902984	66668595	176530778	24	58692										
CTNNA2	1496	broad.mit.edu	37	chr2	79971593	79971593	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aagaaagcccatgtactagcTgcctctgtagagcaagccac	9	12	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:79971593T>G	uc010ysh.1	+	2	188	c.183T>G	c.(181-183)GCT>GCG	p.A61A	CTNNA2_uc010yse.1_Silent_p.A61A|CTNNA2_uc010ysf.1_Silent_p.A61A|CTNNA2_uc010ysg.1_Silent_p.A61A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	61					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						ATGTACTAGCTGCCTCTGTAG	0.443													17	39	---	---	---	---	PASS	G	79971593	G	G	79971593	2	3	164	1	0	0	0	0	0	0	0	1	4013	1567	55	5		5	CTNNA2	2	79971593	Silent	SNP	T	TCGA-66-2786-01A-01D-1522-08	13302998	79971593	163227780	25	58693										
CTNNA2	1496	broad.mit.edu	37	chr2	80782969	80782969	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atggagaactatgaagctggGgtttatactgagaaggtgtt	14	3	0	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:80782969G>A	uc010ysh.1	+	11	1697	c.1692G>A	c.(1690-1692)GGG>GGA	p.G564G	CTNNA2_uc010yse.1_Silent_p.G564G|CTNNA2_uc010ysf.1_Silent_p.G564G|CTNNA2_uc010ysg.1_Silent_p.G564G|CTNNA2_uc010ysi.1_Silent_p.G196G	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	564					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						ATGAAGCTGGGGTTTATACTG	0.488													12	218	---	---	---	---	PASS	A	80782969	A	A	80782969	2	1	164	1	0	0	0	0	0	0	0	1	4013	1219	43	3		3	CTNNA2	2	80782969	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	811376	80782969	162416404	26	58694										
TGFBRAP1	9392	broad.mit.edu	37	chr2	105889313	105889313	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atactgagatcatcctcaccGagaagaaagtggactcggta	10	9	2	3	rs61738978		TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:105889313G>A	uc002tcq.2	-	10	2055	c.1971C>T	c.(1969-1971)CTC>CTT	p.L657L	TGFBRAP1_uc010fjc.2_Silent_p.L426L|TGFBRAP1_uc002tcr.3_Silent_p.L657L	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	657					regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						CATCCTCACCGAGAAGAAAGT	0.552													20	47	---	---	---	---	PASS	A	105889313	A	A	105889313	2	1	164	1	0	0	0	0	0	0	0	1	15821	1072	37	2		2	TGFBRAP1	2	105889313	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	25106344	105889313	137310060	27	58695										
TFCP2L1	29842	broad.mit.edu	37	chr2	122007221	122007221	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tagtcggatttcataagactGacctggatgggggttaaaag	13	5	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:122007221G>C	uc002tmx.2	-	3	310	c.217C>G	c.(217-219)CAG>GAG	p.Q73E	TFCP2L1_uc010flr.2_Missense_Mutation_p.Q73E	NM_014553	NP_055368	Q9NZI6	TF2L1_HUMAN	LBP-9	73					female pregnancy|steroid biosynthetic process	mitochondrion|nucleolus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			pancreas(2)|ovary(1)	3	Renal(3;0.01)					TCATAAGACTGACCTGGATGG	0.443													21	132	---	---	---	---	PASS	C	122007221	C	C	122007221	3	2	164	1	0	0	0	0	1	0	0	0	15793	1299	45	2	1274	2	TFCP2L1	2	122007221	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	16117908	122007221	121192152	28	58696										
RAB3GAP1	22930	broad.mit.edu	37	chr2	135920135	135920135	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cctccttcaggtgctgcactAtctggcaatccagaaacctg	8	14	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:135920135A>T	uc002tuj.2	+	20	2325	c.2300A>T	c.(2299-2301)TAT>TTT	p.Y767F	RAB3GAP1_uc010fnf.2_Missense_Mutation_p.Y767F|RAB3GAP1_uc010fng.2_Missense_Mutation_p.Y592F|RAB3GAP1_uc010fnh.1_RNA	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein	767						centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		GTGCTGCACTATCTGGCAATC	0.483													6	72	---	---	---	---	PASS	T	135920135	T	T	135920135	3	4	164	1	0	0	0	0	1	0	0	0	12935	449	16	5	2378	5	RAB3GAP1	2	135920135	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	13912914	135920135	107279238	29	58697										
NEB	4703	broad.mit.edu	37	chr2	152427027	152427027	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcacgtcactggcaatctccCtggaggccttggcagcctgg	12	14	3	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:152427027C>A	uc010fnx.2	-	80	12190	c.11999G>T	c.(11998-12000)AGG>ATG	p.R4000M	NEB_uc002txr.2_Missense_Mutation_p.R423M	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	4000	Nebulin 109.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GGCAATCTCCCTGGAGGCCTT	0.522													4	15	---	---	---	---	PASS	A	152427027	A	A	152427027	3	1	164	1	0	0	0	0	1	0	0	0	10302	681	24	3	8884	3	NEB	2	152427027	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	16506892	152427027	90772346	30	58698										
PKP4	8502	broad.mit.edu	37	chr2	159537068	159537068	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ccgagttcactttccagcttCtactgattactcaacacagt	5	13	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:159537068C>G	uc002tzv.2	+	22	3718	c.3458C>G	c.(3457-3459)TCT>TGT	p.S1153C	PKP4_uc002tzw.2_Missense_Mutation_p.S1110C|PKP4_uc002tzx.2_Missense_Mutation_p.S810C|PKP4_uc002uaa.2_Missense_Mutation_p.S962C|uc002uab.1_Intron|PKP4_uc002uac.2_Missense_Mutation_p.S334C|PKP4_uc002uad.2_RNA	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	1153					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						TTTCCAGCTTCTACTGATTAC	0.393										HNSCC(62;0.18)			26	272	---	---	---	---	PASS	G	159537068	G	G	159537068	3	3	164	1	0	0	0	0	1	0	0	0	11987	913	32	2	3540	2	PKP4	2	159537068	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	7110041	159537068	83662305	31	58699										
SCN3A	6328	broad.mit.edu	37	chr2	165984340	165984340	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tggtggttccattcccatctCtaagataattaagctctttg	7	9	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:165984340C>G	uc002ucx.2	-	18	3686	c.3194G>C	c.(3193-3195)AGA>ACA	p.R1065T	SCN3A_uc002ucy.2_Missense_Mutation_p.R1016T|SCN3A_uc002ucz.2_Missense_Mutation_p.R1016T|SCN3A_uc002uda.1_Missense_Mutation_p.R885T|SCN3A_uc002udb.1_Missense_Mutation_p.R885T	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1065						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	ATTCCCATCTCTAAGATAATT	0.363													19	181	---	---	---	---	PASS	G	165984340	G	G	165984340	3	3	164	1	0	0	0	0	1	0	0	0	13918	913	32	2	2852	2	SCN3A	2	165984340	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	6447272	165984340	77215033	32	58700										
LRP2	4036	broad.mit.edu	37	chr2	170103423	170103423	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gggcacccacacactcgctgGaaatttggcaccgggaagca	12	13	0	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:170103423G>A	uc002ues.2	-	21	3195	c.2982C>T	c.(2980-2982)TTC>TTT	p.F994F	LRP2_uc010zdf.1_Silent_p.F857F	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	994	EGF-like 4.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ACACTCGCTGGAAATTTGGCA	0.557													26	67	---	---	---	---	PASS	A	170103423	A	A	170103423	2	1	164	1	0	0	0	0	0	0	0	1	8956	1165	41	2		2	LRP2	2	170103423	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	4119083	170103423	73095950	33	58701										
TTN	7273	broad.mit.edu	37	chr2	179411914	179411914	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	attgtattacgttctttcttCtcaacccagtagccaatgat	5	10	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:179411914C>G	uc010zfg.1	-	289	86858	c.86634G>C	c.(86632-86634)GAG>GAC	p.E28878D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E22573D|TTN_uc010zfi.1_Missense_Mutation_p.E22506D|TTN_uc010zfj.1_Missense_Mutation_p.E22381D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29805							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)			GTTCTTTCTTCTCAACCCAGT	0.433													96	228	---	---	---	---	PASS	G	179411914	G	G	179411914	3	3	164	1	0	0	0	0	1	0	0	0	16732	912	32	2	13733	2	TTN	2	179411914	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	9308491	179411914	63787459	34	58702										
TTN	7273	broad.mit.edu	37	chr2	179449653	179449653	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gggagcaagcatcagcgtctAtatcagaaatgtcaaatgga	11	7	4	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:179449653A>G	uc010zfg.1	-	259	57235	c.57011T>C	c.(57010-57012)ATA>ACA	p.I19004T	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I12699T|TTN_uc010zfi.1_Missense_Mutation_p.I12632T|TTN_uc010zfj.1_Missense_Mutation_p.I12507T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19931							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)			ATCAGCGTCTATATCAGAAAT	0.458													47	145	---	---	---	---	PASS	G	179449653	G	G	179449653	3	3	164	1	0	0	0	0	1	0	0	0	16732	449	16	5	43476	5	TTN	2	179449653	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	37739	179449653	63749720	35	58703										
TTN	7273	broad.mit.edu	37	chr2	179497054	179497054	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ccatttaactcggatgttatCatgagataactccacagtaa	6	9	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:179497054C>T	uc010zfg.1	-	185	36087	c.35863G>A	c.(35863-35865)GAT>AAT	p.D11955N	TTN_uc010zfh.1_Missense_Mutation_p.D5650N|TTN_uc010zfi.1_Missense_Mutation_p.D5583N|TTN_uc010zfj.1_Missense_Mutation_p.D5458N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12882							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)			CGGATGTTATCATGAGATAAC	0.428													8	27	---	---	---	---	PASS	T	179497054	T	T	179497054	3	4	164	1	0	0	0	0	1	0	0	0	16732	826	29	2	64634	2	TTN	2	179497054	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	47401	179497054	63702319	36	58704										
TTN	7273	broad.mit.edu	37	chr2	179605601	179605601	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tttcaggagtgagcttgtctTgctccaaaatggattgcaat	10	7	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:179605601T>C	uc010zfh.1	-	46	12070	c.11846A>G	c.(11845-11847)CAA>CGA	p.Q3949R	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.Q3882R|TTN_uc010zfj.1_Missense_Mutation_p.Q3757R|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			GAGCTTGTCTTGCTCCAAAAT	0.448													76	192	---	---	---	---	PASS	C	179605601	C	C	179605601	3	2	164	1	0	0	0	0	1	0	0	0	16732	1812	63	5	92430	5	TTN	2	179605601	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	108547	179605601	63593772	37	58705										
SLC39A10	57181	broad.mit.edu	37	chr2	196548476	196548476	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggtcatggtgccaactctccCatctcaactgatttatttac	6	12	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:196548476C>T	uc002utg.3	+	3	1276	c.1062C>T	c.(1060-1062)CCC>CCT	p.P354P	SLC39A10_uc002uth.3_Silent_p.P354P|SLC39A10_uc010zgp.1_5'UTR	NM_001127257	NP_001120729	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter),	354					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.221)			CCAACTCTCCCATCTCAACTG	0.338													45	186	---	---	---	---	PASS	T	196548476	T	T	196548476	2	4	164	1	0	0	0	0	0	0	0	1	14613	581	21	3		3	SLC39A10	2	196548476	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	16942875	196548476	46650897	38	58706										
CPS1	1373	broad.mit.edu	37	chr2	211515145	211515145	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgaaaaaattcctagaagagGcgactagagtttctcaggta	10	6	1	4			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:211515145G>T	uc002vee.3	+	28	3595	c.3463G>T	c.(3463-3465)GCG>TCG	p.A1155S	CPS1_uc010fur.2_Missense_Mutation_p.A1161S|CPS1_uc010fus.2_Missense_Mutation_p.A704S	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1155	ATP-grasp 2.				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)		CCTAGAAGAGGCGACTAGAGT	0.368													11	145	---	---	---	---	PASS	T	211515145	T	T	211515145	3	4	164	1	0	0	0	0	1	0	0	0	3823	1203	42	3	3595	3	CPS1	2	211515145	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	14966669	211515145	31684228	39	58707										
CPS1	1373	broad.mit.edu	37	chr2	211542649	211542649	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gaagctgtgcagaaatctcgCaaggtggactccaagagtct	12	9	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:211542649C>T	uc002vee.3	+	38	4575	c.4443C>T	c.(4441-4443)CGC>CGT	p.R1481R	CPS1_uc010fur.2_Silent_p.R1487R|CPS1_uc010fus.2_Silent_p.R1030R	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1481					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)		AGAAATCTCGCAAGGTGGACT	0.428													133	406	---	---	---	---	PASS	T	211542649	T	T	211542649	2	4	164	1	0	0	0	0	0	0	0	1	3823	697	25	3		3	CPS1	2	211542649	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	27504	211542649	31656724	40	58708										
ACCN4	55515	broad.mit.edu	37	chr2	220401788	220401788	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cctgcttcctgtctccacagGgagaacttcctggtcctaga	9	14	1	2	rs142124538	byFrequency	TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:220401788G>A	uc002vma.2	+	6	1568	c.1554G>A	c.(1552-1554)CGG>CGA	p.R518R	ACCN4_uc002vlz.2_Silent_p.R537R|ACCN4_uc002vmb.2_Silent_p.R191R	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	518	Extracellular (Potential).					integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		GTCTCCACAGGGAGAACTTCC	0.577													32	91	---	---	---	---	PASS	A	220401788	A	A	220401788	2	1	164	1	0	0	0	0	0	0	0	1	131	1246	43	3		3	ACCN4	2	220401788	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	8859139	220401788	22797585	41	58709										
STK11IP	114790	broad.mit.edu	37	chr2	220471540	220471540	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cctgagtgacagcctctcctCagggggtgttgtgacccagc	13	13	2	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:220471540C>T	uc002vml.2	+	12	1170	c.1127C>T	c.(1126-1128)TCA>TTA	p.S376L	STK11IP_uc010zll.1_Missense_Mutation_p.S333L|STK11IP_uc002vmm.1_Missense_Mutation_p.S365L	NM_052902	NP_443134	Q8N1F8	S11IP_HUMAN	LKB1 interacting protein	376					protein localization	cytoplasm	protein kinase binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;2.69e-07)|all cancers(144;5.91e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGCCTCTCCTCAGGGGGTGTT	0.627													24	44	---	---	---	---	PASS	T	220471540	T	T	220471540	3	4	164	1	0	0	0	0	1	0	0	0	15287	838	29	2	1173	2	STK11IP	2	220471540	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	69752	220471540	22727833	42	58710										
ACSL3	2181	broad.mit.edu	37	chr2	223773836	223773836	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aagttttaaatgaggaagatGaagtacaaccaaatggaaaa	9	3	0	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:223773836G>C	uc002vni.2	+	4	797	c.346G>C	c.(346-348)GAA>CAA	p.E116Q	ACSL3_uc002vnj.2_Missense_Mutation_p.E116Q	NM_004457	NP_004448	O95573	ACSL3_HUMAN	acyl-CoA synthetase long-chain family member 3	116	Cytoplasmic (Potential).				long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|fatty-acyl-CoA synthase activity|long-chain fatty acid-CoA ligase activity|protein binding			ovary(2)	2		Renal(207;0.0183)		Epithelial(121;1.28e-10)|all cancers(144;8.06e-08)|Lung(261;0.00834)|LUSC - Lung squamous cell carcinoma(224;0.00864)	Icosapent(DB00159)	TGAGGAAGATGAAGTACAACC	0.299			T	ETV1	prostate								28	70	---	---	---	---	PASS	C	223773836	C	C	223773836	3	2	164	1	0	0	0	0	1	0	0	0	178	1291	45	2	348	2	ACSL3	2	223773836	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	3302296	223773836	19425537	43	58711										
TRIP12	9320	broad.mit.edu	37	chr2	230678586	230678586	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aaaatagatgcatattttacCtgatgtgttagcctttgggt	9	5	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:230678586C>G	uc002vpw.1	-	12	1951	c.1842G>C	c.(1840-1842)CAG>CAC	p.Q614H	TRIP12_uc002vpx.1_Missense_Mutation_p.Q662H|TRIP12_uc002vpy.1_Missense_Mutation_p.Q317H|TRIP12_uc010zlz.1_Intron|TRIP12_uc010fxh.1_Missense_Mutation_p.Q620H	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	614					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)		CATATTTTACCTGATGTGTTA	0.274													20	74	---	---	---	---	PASS	G	230678586	G	G	230678586	3	3	164	1	0	0	0	0	1	0	0	0	16553	695	24	4	4256	4	TRIP12	2	230678586	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	6904750	230678586	12520787	44	58712										
FARP2	9855	broad.mit.edu	37	chr2	242432343	242432343	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcatttttcctttattgacaGaaccagctttcaggatatct	6	9	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr2:242432343G>A	uc002wbi.1	+	25	2905	c.2788_splice	c.e25-1	p.N930_splice		NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2						axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		TTTATTGACAGAACCAGCTTT	0.463													14	127	---	---	---	---	PASS	A	242432343	A	A	242432343	5	1	164	1	0	0	0	0	0	0	1	0	5677	956	33	2	2881	2	FARP2	2	242432343	Splice_Site	SNP	G	TCGA-66-2786-01A-01D-1522-08	11753757	242432343	767030	45	58713										
CNTN6	27255	broad.mit.edu	37	chr3	1363395	1363395	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cgttgccagggaaagtcaagTacagcaaatcccaagctatc	9	11	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:1363395T>C	uc003boz.2	+	8	1090	c.823T>C	c.(823-825)TAC>CAC	p.Y275H	CNTN6_uc011asj.1_Missense_Mutation_p.Y203H|CNTN6_uc003bpa.2_Missense_Mutation_p.Y275H	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	275	Ig-like C2-type 3.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		GAAAGTCAAGTACAGCAAATC	0.453													84	137	---	---	---	---	PASS	C	1363395	C	C	1363395	3	2	164	1	0	0	0	0	1	0	0	0	3645	1638	57	5	849	5	CNTN6	3	1363395	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08		1363395	196659035	46	58714										
FBXL2	25827	broad.mit.edu	37	chr3	33400471	33400471	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ctctgtagaatattttccttCttggatatagtaactttgtg	7	6	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:33400471C>G	uc003cfp.2	+	3	149	c.78C>G	c.(76-78)TTC>TTG	p.F26L	FBXL2_uc011axm.1_RNA|FBXL2_uc011axn.1_RNA|FBXL2_uc011axo.1_5'UTR|FBXL2_uc011axp.1_Intron|FBXL2_uc011axq.1_Intron|FBXL2_uc011axr.1_Intron|FBXL2_uc011axs.1_RNA	NM_012157	NP_036289	Q9UKC9	FBXL2_HUMAN	F-box and leucine-rich repeat protein 2	26	F-box.				interspecies interaction between organisms|proteolysis	cytoplasm|membrane	protein binding|ubiquitin-protein ligase activity			large_intestine(1)	1						TATTTTCCTTCTTGGATATAG	0.313													13	28	---	---	---	---	PASS	G	33400471	G	G	33400471	3	3	164	1	0	0	0	0	1	0	0	0	5716	912	32	2	88	2	FBXL2	3	33400471	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	32037076	33400471	164621959	47	58715										
CX3CR1	1524	broad.mit.edu	37	chr3	39307160	39307160	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcaacaatggctaaatgcaaCcgtctcagtcacactgaggg	10	11	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:39307160C>A	uc003cjl.2	-	2	933	c.841G>T	c.(841-843)GTT>TTT	p.V281F		NM_001337	NP_001328	P49238	CX3C1_HUMAN	chemokine (C-X3-C motif) receptor 1	281	Helical; Name=7; (Potential).				cell adhesion|cellular defense response|chemotaxis|interspecies interaction between organisms|response to wounding	integral to plasma membrane	chemokine receptor activity			lung(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.0557)|Kidney(284;0.0699)		CTAAATGCAACCGTCTCAGTC	0.473													33	86	---	---	---	---	PASS	A	39307160	A	A	39307160	3	1	164	1	0	0	0	0	1	0	0	0	4075	507	18	3	230	3	CX3CR1	3	39307160	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	5906689	39307160	158715270	48	58716										
SETD2	29072	broad.mit.edu	37	chr3	47129614	47129614	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agtgttcacctgtatgagttCcagacaggtaagtttctgct	10	8	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:47129614C>A	uc003cqs.2	-	10	5319	c.5266G>T	c.(5266-5268)GAA>TAA	p.E1756*	SETD2_uc003cqv.2_Nonsense_Mutation_p.E1823*	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1756					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		TGTATGAGTTCCAGACAGGTA	0.378			N|F|S|Mis		clear cell renal carcinoma								64	100	---	---	---	---	PASS	A	47129614	A	A	47129614	4	1	164	1	0	0	0	0	0	1	0	0	14131	864	30	2	2476	2	SETD2	3	47129614	Nonsense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	7822454	47129614	150892816	49	58717										
KLHL18	23276	broad.mit.edu	37	chr3	47382151	47382151	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cagctccgtggagacctactCacctgagacggacaagtaag	11	12	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:47382151C>T	uc003crd.2	+	8	1337	c.1211C>T	c.(1210-1212)TCA>TTA	p.S404L	KLHL18_uc011bav.1_Missense_Mutation_p.S292L	NM_025010	NP_079286	O94889	KLH18_HUMAN	kelch-like 18	404	Kelch 3.										0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)		GAGACCTACTCACCTGAGACG	0.483													6	144	---	---	---	---	PASS	T	47382151	T	T	47382151	3	4	164	1	0	0	0	0	1	0	0	0	8373	838	29	2	1241	2	KLHL18	3	47382151	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	252537	47382151	150640279	50	58718										
SCAP	22937	broad.mit.edu	37	chr3	47455557	47455557	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtcaccagcaggttgtctgaGatgacacccaagcttgcacc	10	13	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:47455557G>C	uc003crh.1	-	23	3882	c.3627C>G	c.(3625-3627)ATC>ATG	p.I1209M	SCAP_uc011baz.1_Missense_Mutation_p.I953M|SCAP_uc003crg.2_Missense_Mutation_p.I816M|uc003cri.2_5'Flank	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	1209	Interaction with SREBF2 (By similarity).|Cytoplasmic (By similarity).|WD 7.				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		GGTTGTCTGAGATGACACCCA	0.547													30	51	---	---	---	---	PASS	C	47455557	C	C	47455557	3	2	164	1	0	0	0	0	1	0	0	0	13877	932	33	2	216	2	SCAP	3	47455557	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	73406	47455557	150566873	51	58719										
BBX	56987	broad.mit.edu	37	chr3	107492023	107492023	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcggaatctgacattgagagCgtcatatataccattgaagc	9	8	2	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:107492023C>T	uc010hpr.2	+	11	1782	c.1455C>T	c.(1453-1455)AGC>AGT	p.S485S	BBX_uc003dwk.3_Silent_p.S485S|BBX_uc003dwl.3_Intron|BBX_uc010hps.1_Silent_p.S506S|BBX_uc003dwm.3_Silent_p.S485S|BBX_uc003dwo.3_5'Flank	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	485	Lys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			ACATTGAGAGCGTCATATATA	0.453													13	162	---	---	---	---	PASS	T	107492023	T	T	107492023	2	4	164	1	0	0	0	0	0	0	0	1	1343	767	27	1		1	BBX	3	107492023	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	60036466	107492023	90530407	52	58720										
CD200R1L	344807	broad.mit.edu	37	chr3	112546226	112546226	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ctccttacctaacacttggaGgtgatatccacgatggaaat	8	10	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:112546226G>A	uc003dzi.1	-	3	644	c.418C>T	c.(418-420)CTC>TTC	p.L140F	CD200R1L_uc011bhw.1_Missense_Mutation_p.L119F|CD200R1L_uc010hqf.1_Missense_Mutation_p.L119F	NM_001008784	NP_001008784	Q6Q8B3	MO2R2_HUMAN	CD200 cell surface glycoprotein receptor 2	140	Extracellular (Potential).|Ig-like C2-type.					integral to membrane	receptor activity			ovary(1)	1						AACACTTGGAGGTGATATCCA	0.438													21	288	---	---	---	---	PASS	A	112546226	A	A	112546226	3	1	164	1	0	0	0	0	1	0	0	0	2982	1000	35	3	413	3	CD200R1L	3	112546226	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	5054203	112546226	85476204	53	58721										
SEMA5B	54437	broad.mit.edu	37	chr3	122629801	122629801	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcctgggactgacgctggcaGtgctggcaagacaggtacac	14	11	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:122629801G>A	uc003efz.1	-	22	3487	c.3183C>T	c.(3181-3183)CAC>CAT	p.H1061H	SEMA5B_uc011bju.1_Silent_p.H967H|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Silent_p.H1061H|SEMA5B_uc003efy.1_Silent_p.H39H	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	1061	Cytoplasmic (Potential).				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		GACGCTGGCAGTGCTGGCAAG	0.582													33	78	---	---	---	---	PASS	A	122629801	A	A	122629801	2	1	164	1	0	0	0	0	0	0	0	1	14038	1020	36	3		3	SEMA5B	3	122629801	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	10083575	122629801	75392629	54	58722										
COL6A6	131873	broad.mit.edu	37	chr3	130289871	130289871	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atgactttggcacaaaactgGaggtaatttcagtgctccag	10	8	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:130289871G>T	uc010htl.2	+	6	2642	c.2611G>T	c.(2611-2613)GAG>TAG	p.E871*		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	871	VWFA 5.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CACAAAACTGGAGGTAATTTC	0.507													13	62	---	---	---	---	PASS	T	130289871	T	T	130289871	4	4	164	1	0	0	0	0	0	1	0	0	3703	1175	41	2	2633	2	COL6A6	3	130289871	Nonsense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	7660070	130289871	67732559	55	58723										
TF	7018	broad.mit.edu	37	chr3	133472451	133472451	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tctttcaggcaaacgaagcgGatgctgtgacactggatgca	12	9	2	1	rs121918681		TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:133472451G>A	uc003epu.1	+	8	1957	c.229G>A	c.(229-231)GAT>AAT	p.D77N	TF_uc011bls.1_Missense_Mutation_p.D77N|TF_uc011blt.1_5'UTR|TF_uc003epw.1_Intron|TF_uc003epv.1_Missense_Mutation_p.D77N	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	77	Transferrin-like 1.		D -> N (in ATRAF).		cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	AAACGAAGCGGATGCTGTGAC	0.522													19	80	---	---	---	---	PASS	A	133472451	A	A	133472451	3	1	164	1	0	0	0	0	1	0	0	0	15782	1174	41	2	239	2	TF	3	133472451	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	3182580	133472451	64549979	56	58724										
PPP2R3A	5523	broad.mit.edu	37	chr3	135759780	135759780	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gacaggatttgtgacagcacAgtcattcattgccatgtgga	11	8	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:135759780A>T	uc003eqv.1	+	4	2907	c.2342A>T	c.(2341-2343)CAG>CTG	p.Q781L	PPP2R3A_uc011blz.1_Missense_Mutation_p.Q45L|PPP2R3A_uc003eqw.1_Missense_Mutation_p.Q160L|PPP2R3A_uc011bma.1_RNA	NM_002718	NP_002709	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'',	781	EF-hand 1.				protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7						GTGACAGCACAGTCATTCATT	0.478													13	44	---	---	---	---	PASS	T	135759780	T	T	135759780	3	4	164	1	0	0	0	0	1	0	0	0	12388	188	7	5	2488	5	PPP2R3A	3	135759780	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	2287329	135759780	62262650	57	58725										
CLSTN2	64084	broad.mit.edu	37	chr3	140123518	140123518	+	Missense_Mutation	SNP	G	T	T													0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	acagcattctgcaggtggagGccattgacgaggactgctcc							TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:140123518G>T	uc003etn.2	+	4	737	c.547G>T	c.(547-549)GCC>TCC	p.A183S	CLSTN2_uc003etm.2_Missense_Mutation_p.A183S	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	183	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						GCAGGTGGAGGCCATTGACGA	0.522										HNSCC(16;0.037)			19	178	---	---	---	---	PASS	T	140123518	T	T	140123518	3	4	164	1	0	0	0	0	1	0	0	0	3562	1203	42	3	561	3	CLSTN2	3	140123518	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	4363738	140123518	57898912	58	58726	1042	2								
CLSTN2	64084	broad.mit.edu	37	chr3	140123519	140123519	+	Missense_Mutation	SNP	C	T	T													0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cagcattctgcaggtggaggCcattgacgaggactgctccc							TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:140123519C>T	uc003etn.2	+	4	738	c.548C>T	c.(547-549)GCC>GTC	p.A183V	CLSTN2_uc003etm.2_Missense_Mutation_p.A183V	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	183	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						CAGGTGGAGGCCATTGACGAG	0.517										HNSCC(16;0.037)			20	173	---	---	---	---	PASS	T	140123519	T	T	140123519	3	4	164	1	0	0	0	0	1	0	0	0	3562	739	26	3	562	3	CLSTN2	3	140123519	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	1	140123519	57898911	59	58727	1042	2								
SR140	23350	broad.mit.edu	37	chr3	142735709	142735709	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	catgaaacagatgaaaaaagAggtaaaatctataagccatc	7	6	1	4			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:142735709A>T	uc003evh.1	+	6	561	c.462A>T	c.(460-462)AGA>AGT	p.R154S	SR140_uc003evi.1_5'UTR|SR140_uc011bnj.1_Missense_Mutation_p.R154S|SR140_uc003evj.1_RNA|SR140_uc003evk.1_Missense_Mutation_p.R154S	NM_001080415	NP_001073884	O15042	SR140_HUMAN	U2-associated SR140 protein	154					RNA processing	nucleus	nucleotide binding|RNA binding				0						ATGAAAAAAGAGGTAAAATCT	0.284													6	58	---	---	---	---	PASS	T	142735709	T	T	142735709	3	4	164	1	0	0	0	0	1	0	0	0	15130	301	11	5	484	5	SR140	3	142735709	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	2612190	142735709	55286721	60	58728										
HLTF	6596	broad.mit.edu	37	chr3	148759977	148759977	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggggccattggaagacactgCatttgtaagaaggtaagtat	13	5	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:148759977C>A	uc003ewq.1	-	19	2391	c.2173G>T	c.(2173-2175)GCA>TCA	p.A725S	HLTF_uc003ewr.1_Missense_Mutation_p.A725S|HLTF_uc003ews.1_Missense_Mutation_p.A724S|HLTF_uc010hve.1_Missense_Mutation_p.A724S	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	725					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			GAAGACACTGCATTTGTAAGA	0.368													39	119	---	---	---	---	PASS	A	148759977	A	A	148759977	3	1	164	1	0	0	0	0	1	0	0	0	7215	710	25	3	884	3	HLTF	3	148759977	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	6024268	148759977	49262453	61	58729										
SLITRK3	22865	broad.mit.edu	37	chr3	164905718	164905718	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gttgtcttctccaggacttcGaggtaatccggcttggtttg	12	9	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:164905718G>C	uc003fej.3	-	2	3345	c.2901C>G	c.(2899-2901)CTC>CTG	p.L967L	SLITRK3_uc003fek.2_Silent_p.L967L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	967	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						CCAGGACTTCGAGGTAATCCG	0.388										HNSCC(40;0.11)			94	356	---	---	---	---	PASS	C	164905718	C	C	164905718	2	2	164	1	0	0	0	0	0	0	0	1	14744	1045	37	2		2	SLITRK3	3	164905718	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	16145741	164905718	33116712	62	58730										
MFN1	55669	broad.mit.edu	37	chr3	179085308	179085308	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atgctttagaagcacagaatCgtatcttctttgtttcagca	7	8	3	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:179085308C>A	uc003fjs.2	+	8	961	c.835C>A	c.(835-837)CGT>AGT	p.R279S	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Missense_Mutation_p.R307S|MFN1_uc010hxc.2_Missense_Mutation_p.R132S	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	279	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			AGCACAGAATCGTATCTTCTT	0.413													24	79	---	---	---	---	PASS	A	179085308	A	A	179085308	3	1	164	1	0	0	0	0	1	0	0	0	9523	884	31	2	861	2	MFN1	3	179085308	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	14179590	179085308	18937122	63	58731										
DVL3	1857	broad.mit.edu	37	chr3	183887879	183887879	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcccctttgccgcacccgggGgccgccccttggcccatggc	13	20	0	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:183887879G>A	uc003fms.2	+	14	1724	c.1584G>A	c.(1582-1584)GGG>GGA	p.G528G	DVL3_uc011bqw.1_Silent_p.G511G|DVL3_uc003fmt.2_Silent_p.G199G|DVL3_uc003fmu.2_Silent_p.G360G	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	528					canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			CGCACCCGGGGGCCGCCCCTT	0.682													24	79	---	---	---	---	PASS	A	183887879	A	A	183887879	2	1	164	1	0	0	0	0	0	0	0	1	4837	1219	43	3		3	DVL3	3	183887879	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	4802571	183887879	14134551	64	58732										
SENP2	59343	broad.mit.edu	37	chr3	185316794	185316794	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgacaggttctggatcctggAacaacatgctgaaactgggt	12	8	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:185316794A>G	uc003fpn.2	+	4	511	c.340A>G	c.(340-342)AAC>GAC	p.N114D	SENP2_uc011brv.1_Missense_Mutation_p.N104D|SENP2_uc011brw.1_Intron	NM_021627	NP_067640	Q9HC62	SENP2_HUMAN	SUMO1/sentrin/SMT3 specific protease 2	114					mRNA transport|protein desumoylation|protein transport|proteolysis|regulation of Wnt receptor signaling pathway|transmembrane transport|Wnt receptor signaling pathway	cytoplasm|nuclear membrane|nuclear pore	protein binding|SUMO-specific protease activity				0	all_cancers(143;1.28e-10)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			TGGATCCTGGAACAACATGCT	0.368													40	150	---	---	---	---	PASS	G	185316794	G	G	185316794	3	3	164	1	0	0	0	0	1	0	0	0	14047	246	9	5	354	5	SENP2	3	185316794	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	1428915	185316794	12705636	65	58733										
KNG1	3827	broad.mit.edu	37	chr3	186450324	186450324	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	acaaccacctaccaagatttGcgtgggctgccccagagata	9	13	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr3:186450324G>T	uc011bsa.1	+	7	1003	c.791G>T	c.(790-792)TGC>TTC	p.C264F	KNG1_uc003fqr.2_Missense_Mutation_p.C264F	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	264	Cystatin 3.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)	ACCAAGATTTGCGTGGGCTGC	0.493													50	158	---	---	---	---	PASS	T	186450324	T	T	186450324	3	4	164	1	0	0	0	0	1	0	0	0	8427	1319	46	3	817	3	KNG1	3	186450324	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	1133530	186450324	11572106	66	58734										
MAN2B2	23324	broad.mit.edu	37	chr4	6611581	6611581	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ctcccggctcacccatgtgcCgcagggccatgacggggagc	14	16	1	1	rs140604370	byFrequency	TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr4:6611581C>T	uc003gjf.1	+	13	2099	c.2063C>T	c.(2062-2064)CCG>CTG	p.P688L	MAN2B2_uc003gje.1_Missense_Mutation_p.P688L|MAN2B2_uc011bwf.1_Missense_Mutation_p.P637L	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	688					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						ACCCATGTGCCGCAGGGCCAT	0.602													12	61	---	---	---	---	PASS	T	6611581	T	T	6611581	3	4	164	1	0	0	0	0	1	0	0	0	9217	652	23	1	2113	1	MAN2B2	4	6611581	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08		6611581	184542695	67	58735										
PDS5A	23244	broad.mit.edu	37	chr4	39851220	39851220	+	Frame_Shift_Del	DEL	G	-	-													0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	catcttcttcataaaggcatGgctattgttttcattctttg							TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr4:39851220delG	uc003guv.3	-	27	3679	c.3139delC	c.(3139-3141)CATfs	p.H1047fs	PDS5A_uc010ifo.2_Frame_Shift_Del_p.H1007fs	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1047					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						ATAAAGGCATGGCTATTGTTT	0.378													48	28	---	---	---	---		-	39851220	-	-	39851220	7	5	164	1	0	1	0	1	0	0	0	0	11691	1348	47	0	902	0	PDS5A	4	39851220	Frame_Shift_Del	DEL	G	TCGA-66-2786-01A-01D-1522-08	33239639	39851220	151303056	68	58736										
RASL11B	65997	broad.mit.edu	37	chr4	53728716	53728716	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgcaccatcgccgagtacccCgcgccgggcaacgccgcggc	13	19	0	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr4:53728716C>G	uc003gzt.2	+	1	222	c.42C>G	c.(40-42)CCC>CCG	p.P14P		NM_023940	NP_076429	Q9BPW5	RSLBB_HUMAN	RAS-like family 11 member B	14					small GTPase mediated signal transduction	membrane	GTP binding|GTPase activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0302)			CCGAGTACCCCGCGCCGGGCA	0.721													9	36	---	---	---	---	PASS	G	53728716	G	G	53728716	2	3	164	1	0	0	0	0	0	0	0	1	13082	639	23	4		4	RASL11B	4	53728716	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	13877496	53728716	137425560	69	58737										
GPRIN3	285513	broad.mit.edu	37	chr4	90170193	90170193	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtggcaaatgacacgcagctGctcttgttcaaaatgctcag	10	10	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr4:90170193G>T	uc003hsm.1	-	2	1588	c.1069C>A	c.(1069-1071)CAG>AAG	p.Q357K		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	357										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		ACACGCAGCTGCTCTTGTTCA	0.592													53	57	---	---	---	---	PASS	T	90170193	T	T	90170193	3	4	164	1	0	0	0	0	1	0	0	0	6731	1328	46	3	1265	3	GPRIN3	4	90170193	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	36441477	90170193	100984083	70	58738										
QRFPR	84109	broad.mit.edu	37	chr4	122301659	122301659	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atgagcacgccggtgagcacGagggccagcttggcgcgtcc	16	13	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr4:122301659G>C	uc010inj.1	-	1	523	c.144C>G	c.(142-144)CTC>CTG	p.L48L	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Silent_p.L48L|QRFPR_uc010inl.1_Silent_p.L48L	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	48	Helical; Name=1; (Potential).					plasma membrane	neuropeptide Y receptor activity				0						CGGTGAGCACGAGGGCCAGCT	0.652													4	21	---	---	---	---	PASS	C	122301659	C	C	122301659	2	2	164	1	0	0	0	0	0	0	0	1	12878	1045	37	2		2	QRFPR	4	122301659	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	32131466	122301659	68852617	71	58739										
FAT4	79633	broad.mit.edu	37	chr4	126412763	126412763	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcagcaagcagggactttcaActgggacaaccttttgaact	10	10	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr4:126412763A>G	uc003ifj.3	+	17	14786	c.14786A>G	c.(14785-14787)AAC>AGC	p.N4929S	FAT4_uc011cgp.1_Missense_Mutation_p.N3170S|FAT4_uc003ifi.1_Missense_Mutation_p.N2406S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4929	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GGGACTTTCAACTGGGACAAC	0.532													21	46	---	---	---	---	PASS	G	126412763	G	G	126412763	3	3	164	1	0	0	0	0	1	0	0	0	5692	43	2	5	14852	5	FAT4	4	126412763	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	4111104	126412763	64741513	72	58740										
SH3RF1	57630	broad.mit.edu	37	chr4	170038713	170038713	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggcctggttgactgtcatttGccccgtcatgtgcaacaaga	11	11	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr4:170038713G>T	uc003isa.1	-	9	2073	c.1738C>A	c.(1738-1740)CAA>AAA	p.Q580K	SH3RF1_uc010irc.1_Missense_Mutation_p.Q280K	NM_020870	NP_065921	Q7Z6J0	SH3R1_HUMAN	SH3 domain containing ring finger 1	580						Golgi apparatus|lamellipodium|perinuclear region of cytoplasm	ligase activity|zinc ion binding			breast(2)|lung(1)	3		Prostate(90;0.00267)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)		ACTGTCATTTGCCCCGTCATG	0.542													66	112	---	---	---	---	PASS	T	170038713	T	T	170038713	3	4	164	1	0	0	0	0	1	0	0	0	14258	1328	46	3	944	3	SH3RF1	4	170038713	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	43625950	170038713	21115563	73	58741										
MORF4	10934	broad.mit.edu	37	chr4	174537102	174537102	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcctctcacacagctttccgAtggtactcaggaagagccac	9	14	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr4:174537102A>T	uc011cke.1	-	1	693	c.693T>A	c.(691-693)CAT>CAA	p.H231Q		NM_006792	NP_006783			mortality factor 4												0		Prostate(90;0.00201)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0765)|all_hematologic(60;0.107)		all cancers(43;1.88e-18)|Epithelial(43;1.19e-16)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		CAGCTTTCCGATGGTACTCAG	0.398													58	56	---	---	---	---	PASS	T	174537102	T	T	174537102	3	4	164	1	0	0	0	0	1	0	0	0	9705	330	12	5	17	5	MORF4	4	174537102	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	4498389	174537102	16617174	74	58742										
SLC6A18	348932	broad.mit.edu	37	chr5	1242883	1242883	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agagcatctccagggacgacTacccagccgtcctcatgcac	9	16	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:1242883T>C	uc003jby.1	+	8	1159	c.1036T>C	c.(1036-1038)TAC>CAC	p.Y346H		NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18	346	Extracellular (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			CAGGGACGACTACCCAGCCGT	0.602													35	186	---	---	---	---	PASS	C	1242883	C	C	1242883	3	2	164	1	0	0	0	0	1	0	0	0	14681	1522	53	5	1066	5	SLC6A18	5	1242883	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08		1242883	179672377	75	58743										
NDUFS6	4726	broad.mit.edu	37	chr5	1816017	1816017	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ctgtgggctccagttcagacAgcaccaccactagagcgtgt	11	13	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:1816017A>G	uc003jcy.2	+	4	385	c.362A>G	c.(361-363)CAG>CGG	p.Q121R		NM_004553	NP_004544	O75380	NDUS6_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 6,	121					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I	electron carrier activity|NADH dehydrogenase (ubiquinone) activity			central_nervous_system(1)	1					NADH(DB00157)	CAGTTCAGACAGCACCACCAC	0.517													23	234	---	---	---	---	PASS	G	1816017	G	G	1816017	3	3	164	1	0	0	0	0	1	0	0	0	10296	188	7	5	376	5	NDUFS6	5	1816017	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	573134	1816017	179099243	76	58744										
DNAH5	1767	broad.mit.edu	37	chr5	13845038	13845038	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cgacgcctgccccagaatctCtagaagggcaggatctgaga	12	12	2	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:13845038C>G	uc003jfd.2	-	32	5221	c.5179G>C	c.(5179-5181)GAG>CAG	p.E1727Q		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1727	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CCCAGAATCTCTAGAAGGGCA	0.448									Kartagener_syndrome				7	333	---	---	---	---	PASS	G	13845038	G	G	13845038	3	3	164	1	0	0	0	0	1	0	0	0	4604	922	32	2	8887	2	DNAH5	5	13845038	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	12029021	13845038	167070222	77	58745										
MYO10	4651	broad.mit.edu	37	chr5	16754955	16754955	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	accttctgcatgtttggcttGatacagcgaacaaagaaagg	10	8	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:16754955G>C	uc003jft.3	-	19	2379	c.1911C>G	c.(1909-1911)ATC>ATG	p.I637M	MYO10_uc010itx.2_Missense_Mutation_p.I260M	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	637	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						TGTTTGGCTTGATACAGCGAA	0.428													10	47	---	---	---	---	PASS	C	16754955	C	C	16754955	3	2	164	1	0	0	0	0	1	0	0	0	10062	1280	45	2	4357	2	MYO10	5	16754955	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	2909917	16754955	164160305	78	58746										
CDH12	1010	broad.mit.edu	37	chr5	21752226	21752226	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gatgtcgaaagcctgggtatCttcctccccacctccttcat	7	15	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:21752226C>G	uc010iuc.2	-	12	2463	c.2005G>C	c.(2005-2007)GAT>CAT	p.D669H	CDH12_uc011cno.1_Missense_Mutation_p.D629H|CDH12_uc003jgk.2_Missense_Mutation_p.D669H|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	669	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						GCCTGGGTATCTTCCTCCCCA	0.468										HNSCC(59;0.17)			19	306	---	---	---	---	PASS	G	21752226	G	G	21752226	3	3	164	1	0	0	0	0	1	0	0	0	3098	913	32	2	383	2	CDH12	5	21752226	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	4997271	21752226	159163034	79	58747										
CDH10	1008	broad.mit.edu	37	chr5	24488152	24488152	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggcctgggtgtcctcctctcCaccaccctcatcgttatagc	8	17	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:24488152C>A	uc003jgr.1	-	12	2319	c.1987G>T	c.(1987-1989)GGA>TGA	p.G663*	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	663	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TCCTCCTCTCCACCACCCTCA	0.453										HNSCC(23;0.051)			51	242	---	---	---	---	PASS	A	24488152	A	A	24488152	4	1	164	1	0	0	0	0	0	1	0	0	3096	603	21	3	383	3	CDH10	5	24488152	Nonsense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	2735926	24488152	156427108	80	58748										
CDH10	1008	broad.mit.edu	37	chr5	24535363	24535363	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tctctgttttctctgttcatGttcggtaaagcagtcctgat	8	9	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:24535363G>C	uc003jgr.1	-	5	1004	c.672C>G	c.(670-672)AAC>AAG	p.N224K	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	224	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CTCTGTTCATGTTCGGTAAAG	0.408										HNSCC(23;0.051)			66	178	---	---	---	---	PASS	C	24535363	C	C	24535363	3	2	164	1	0	0	0	0	1	0	0	0	3096	1368	48	4	1726	4	CDH10	5	24535363	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	47211	24535363	156379897	81	58749										
ADAMTS12	81792	broad.mit.edu	37	chr5	33527326	33527326	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gacttttggagcaaccgttgCcttctttgcctttgggtgtg	12	9	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:33527326C>A	uc003jia.1	-	24	4915	c.4752G>T	c.(4750-4752)AGG>AGT	p.R1584S	ADAMTS12_uc010iuq.1_Missense_Mutation_p.R1499S	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1584					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GCAACCGTTGCCTTCTTTGCC	0.527										HNSCC(64;0.19)			62	523	---	---	---	---	PASS	A	33527326	A	A	33527326	3	1	164	1	0	0	0	0	1	0	0	0	257	738	26	3	36	3	ADAMTS12	5	33527326	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	8991963	33527326	147387934	82	58750										
PTGER4	5734	broad.mit.edu	37	chr5	40681532	40681532	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gctctttgcagtctatgcgtCcaacgtgctcttttgcgcgc	10	13	3	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:40681532C>A	uc003jlz.2	+	2	1029	c.437C>A	c.(436-438)TCC>TAC	p.S146Y		NM_000958	NP_000949	P35408	PE2R4_HUMAN	prostaglandin E receptor 4, subtype EP4	146	Helical; Name=4; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|immune response	integral to membrane|plasma membrane	prostaglandin E receptor activity			lung(2)	2						GTCTATGCGTCCAACGTGCTC	0.582											OREG0016588	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	285	---	---	---	---	PASS	A	40681532	A	A	40681532	3	1	164	1	0	0	0	0	1	0	0	0	12745	855	30	2	439	2	PTGER4	5	40681532	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	7154206	40681532	140233728	83	58751										
FBXO4	26272	broad.mit.edu	37	chr5	41927307	41927307	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tagaaatcttaaaaaagcctAtatctgaggtcactgatggt	8	6	3	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:41927307A>G	uc003jmq.2	+	2	438	c.382A>G	c.(382-384)ATA>GTA	p.I128V	FBXO4_uc003jmp.2_Missense_Mutation_p.I128V|FBXO4_uc003jmr.2_Missense_Mutation_p.I128V	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	128					positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)				AAAAAAGCCTATATCTGAGGT	0.343													116	310	---	---	---	---	PASS	G	41927307	G	G	41927307	3	3	164	1	0	0	0	0	1	0	0	0	5748	449	16	5	388	5	FBXO4	5	41927307	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	1245775	41927307	138987953	84	58752										
BDP1	55814	broad.mit.edu	37	chr5	70844517	70844517	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tttttatggcagtatacaccAacaagtattccagaagtcca	6	9	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:70844517A>G	uc003kbp.1	+	33	7016	c.6753A>G	c.(6751-6753)CCA>CCG	p.P2251P	BDP1_uc003kbq.1_RNA|BDP1_uc003kbr.1_RNA	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	2251					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AGTATACACCAACAAGTATTC	0.313													24	208	---	---	---	---	PASS	G	70844517	G	G	70844517	2	3	164	1	0	0	0	0	0	0	0	1	1395	117	5	5		5	BDP1	5	70844517	Silent	SNP	A	TCGA-66-2786-01A-01D-1522-08	28917210	70844517	110070743	85	58753										
ARSB	411	broad.mit.edu	37	chr5	78181606	78181606	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	caggctccattttcttcctcGaaggggccagttattacccc	8	14	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:78181606G>A	uc003kfq.2	-	5	2229	c.943C>T	c.(943-945)CGA>TGA	p.R315*	ARSB_uc003kfr.3_Nonsense_Mutation_p.R315*	NM_000046	NP_000037	P15848	ARSB_HUMAN	arylsulfatase B isoform 1 precursor	315			R -> Q (in MPS6; intermediate form).		lysosomal transport|lysosome organization	lysosome	arylsulfatase activity|metal ion binding|N-acetylgalactosamine-4-sulfatase activity			upper_aerodigestive_tract(1)	1		all_lung(232;0.000637)|Lung NSC(167;0.00173)|Ovarian(174;0.0105)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;4.24e-44)|Epithelial(54;3.12e-39)|all cancers(79;3.02e-34)		TTTCTTCCTCGAAGGGGCCAG	0.517													75	128	---	---	---	---	PASS	A	78181606	A	A	78181606	4	1	164	1	0	0	0	0	0	1	0	0	988	1066	37	2	707	2	ARSB	5	78181606	Nonsense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	7337089	78181606	102733654	86	58754										
NSD1	64324	broad.mit.edu	37	chr5	176673711	176673711	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tatttgacaagccaaggaagCgaaaacgacagaggcatgct	11	8	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:176673711C>T	uc003mfr.3	+	10	4549	c.4411C>T	c.(4411-4413)CGA>TGA	p.R1471*	NSD1_uc003mft.3_Nonsense_Mutation_p.R1202*|NSD1_uc003mfs.1_Nonsense_Mutation_p.R1368*|NSD1_uc011dfx.1_Nonsense_Mutation_p.R1119*	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1471					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		GCCAAGGAAGCGAAAACGACA	0.413			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			5	67	---	---	---	---	PASS	T	176673711	T	T	176673711	4	4	164	1	0	0	0	0	0	1	0	0	10669	760	27	1	4445	1	NSD1	5	176673711	Nonsense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	98492105	176673711	4241549	87	58755										
ZNF354C	30832	broad.mit.edu	37	chr5	178489082	178489082	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aggaagggatggctgtggatCtgctgtctgctcaggtgaga	17	6	3	1	rs149113509		TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:178489082C>T	uc003mju.2	+	2	128	c.13C>T	c.(13-15)CTG>TTG	p.L5L		NM_014594	NP_055409	Q86Y25	Z354C_HUMAN	zinc finger protein 354C	5					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(89;0.00065)|all_epithelial(37;0.000153)|Renal(175;0.000159)|Lung NSC(126;0.00175)|all_lung(126;0.00309)	all_cancers(40;0.19)|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;0.247)		GGCTGTGGATCTGCTGTCTGC	0.512													25	150	---	---	---	---	PASS	T	178489082	T	T	178489082	2	4	164	1	0	0	0	0	0	0	0	1	17863	912	32	2		2	ZNF354C	5	178489082	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	1815371	178489082	2426178	88	58756										
RUFY1	80230	broad.mit.edu	37	chr5	179007956	179007956	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tccttttaaaaggcatgaaaGaattactgatgtccttgatc	7	7	0	4			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr5:179007956G>C	uc003mka.1	+	7	899	c.899G>C	c.(898-900)AGA>ACA	p.R300T	RUFY1_uc003mkb.1_Missense_Mutation_p.R192T|RUFY1_uc003mkc.1_Missense_Mutation_p.R192T	NM_025158	NP_079434	Q96T51	RUFY1_HUMAN	RUN and FYVE domain-containing 1 isoform a	300					endocytosis|protein transport	early endosome membrane	lipid binding|zinc ion binding			ovary(4)|breast(1)	5	all_cancers(89;0.00018)|all_epithelial(37;8.37e-05)|Renal(175;0.000159)|Lung NSC(126;0.00108)|all_lung(126;0.00195)	all_cancers(40;0.0322)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGGCATGAAAGAATTACTGAT	0.333										HNSCC(44;0.11)			25	44	---	---	---	---	PASS	C	179007956	C	C	179007956	3	2	164	1	0	0	0	0	1	0	0	0	13738	942	33	2	925	2	RUFY1	5	179007956	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	518874	179007956	1907304	89	58757										
TUBB2A	7280	broad.mit.edu	37	chr6	3154115	3154115	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttttaagcctcgtcctcgccCtcctcctcctcgaactcccc	4	21	0	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:3154115C>G	uc003mvc.2	-	4	1406	c.1320G>C	c.(1318-1320)GAG>GAC	p.E440D	TUBB2A_uc003mvb.2_Missense_Mutation_p.E433D|TUBB2A_uc003mvd.2_Missense_Mutation_p.E403D	NM_001069	NP_001060	Q13885	TBB2A_HUMAN	tubulin, beta 2	440					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			skin(1)	1	Ovarian(93;0.0386)	all_hematologic(90;0.0895)				CGTCCTCGCCCTCCTCCTCCT	0.527													4	102	---	---	---	---	PASS	G	3154115	G	G	3154115	3	3	164	1	0	0	0	0	1	0	0	0	16751	680	24	4	21	4	TUBB2A	6	3154115	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08		3154115	167960952	90	58758										
BTN1A1	696	broad.mit.edu	37	chr6	26509079	26509079	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcccattggcagggcccccaCgccgggttgggattttccta	12	14	0	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:26509079C>T	uc003nif.3	+	7	1278	c.1258C>T	c.(1258-1260)CGC>TGC	p.R420C		NM_001732	NP_001723	Q13410	BT1A1_HUMAN	butyrophilin, subfamily 1, member A1 precursor	420	B30.2/SPRY.|Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2						AGGGCCCCCACGCCGGGTTGG	0.502													13	80	---	---	---	---	PASS	T	26509079	T	T	26509079	3	4	164	1	0	0	0	0	1	0	0	0	1559	536	19	1	1284	1	BTN1A1	6	26509079	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	23354964	26509079	144605988	91	58759										
HLA-A	3105	broad.mit.edu	37	chr6	29911963	29911963	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gaggccaccctgaggtgctgGgccctgggcttctaccctgc	14	15	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:29911963G>A	uc003nol.2	+	4	684	c.684G>A	c.(682-684)TGG>TGA	p.W228*	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_5'Flank|HLA-A_uc010jrq.2_Nonsense_Mutation_p.W107*|HLA-A_uc003nok.2_Nonsense_Mutation_p.W107*|HLA-A_uc003non.2_Nonsense_Mutation_p.W228*|HLA-A_uc003noo.2_Nonsense_Mutation_p.W228*|HLA-A_uc010jrr.2_Nonsense_Mutation_p.W228*|HLA-A_uc003nom.2_Nonsense_Mutation_p.W107*|HLA-A_uc010klp.2_Nonsense_Mutation_p.W200*|HLA-A_uc011dmc.1_Nonsense_Mutation_p.W107*|HLA-A_uc011dmd.1_Nonsense_Mutation_p.W107*	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A	228	Extracellular (Potential).|Alpha-3.|Ig-like C1-type.				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						TGAGGTGCTGGGCCCTGGGCT	0.617									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)			8	216	---	---	---	---	PASS	A	29911963	A	A	29911963	4	1	164	1	0	0	0	0	0	1	0	0	7195	1241	43	3	698	3	HLA-A	6	29911963	Nonsense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	3402884	29911963	141203104	92	58760										
SLC26A8	116369	broad.mit.edu	37	chr6	35949981	35949981	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atcacagtgaagccaataatCtgtagggggtaaaaaaagaa	10	5	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:35949981C>G	uc003olm.2	-	8	1054	c.943_splice	c.e8-1	p.I315_splice	SLC26A8_uc003oln.2_Splice_Site_p.I315_splice|SLC26A8_uc003oll.2_Splice_Site_p.I210_splice	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a						cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						AGCCAATAATCTGTAGGGGGT	0.433													52	58	---	---	---	---	PASS	G	35949981	G	G	35949981	5	3	164	1	0	0	0	0	0	0	1	0	14523	927	32	2	2022	2	SLC26A8	6	35949981	Splice_Site	SNP	C	TCGA-66-2786-01A-01D-1522-08	6038018	35949981	135165086	93	58761										
ABCC10	89845	broad.mit.edu	37	chr6	43410821	43410821	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agctacaccacacggctgctCtgcacccaccgcactgagta	8	17	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:43410821C>G	uc003ouy.1	+	10	2555	c.2340C>G	c.(2338-2340)CTC>CTG	p.L780L	ABCC10_uc003ouz.1_Silent_p.L752L|ABCC10_uc010jyo.1_5'UTR	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	780	ABC transporter 1.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CACGGCTGCTCTGCACCCACC	0.652													8	59	---	---	---	---	PASS	G	43410821	G	G	43410821	2	3	164	1	0	0	0	0	0	0	0	1	50	900	32	2		2	ABCC10	6	43410821	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	7460840	43410821	127704246	94	58762										
GCM1	8521	broad.mit.edu	37	chr6	52993048	52993048	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aagcatatcattgttgcagtGatccaaacccaagtatgtca	7	9	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:52993048G>T	uc003pbp.2	-	6	1476	c.1267C>A	c.(1267-1269)CAC>AAC	p.H423N		NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	423						transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					TTGTTGCAGTGATCCAAACCC	0.458													121	672	---	---	---	---	PASS	T	52993048	T	T	52993048	3	4	164	1	0	0	0	0	1	0	0	0	6297	1290	45	2	47	2	GCM1	6	52993048	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	9582227	52993048	118122019	95	58763			1	61		5	5	193	G		2.942662e-13
GCM1	8521	broad.mit.edu	37	chr6	52993120	52993120	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcttggcagtgaatattgctGatgaggatgagaggcgtagg	17	4	0	4			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:52993120G>A	uc003pbp.2	-	6	1404	c.1195C>T	c.(1195-1197)CAG>TAG	p.Q399*		NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	399						transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					GAATATTGCTGATGAGGATGA	0.438													103	723	---	---	---	---	PASS	A	52993120	A	A	52993120	4	1	164	1	0	0	0	0	0	1	0	0	6297	1299	45	2	119	2	GCM1	6	52993120	Nonsense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	72	52993120	118121947	96	58764			1	61		5	5	193	G		2.942662e-13
GCM1	8521	broad.mit.edu	37	chr6	52993134	52993134	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	attgctgatgaggatgagagGcgtaggtgaagagaaagggg	19	2	0	5			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:52993134G>T	uc003pbp.2	-	6	1390	c.1181C>A	c.(1180-1182)GCC>GAC	p.A394D		NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	394						transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					AGGATGAGAGGCGTAGGTGAA	0.428													100	701	---	---	---	---	PASS	T	52993134	T	T	52993134	3	4	164	1	0	0	0	0	1	0	0	0	6297	1203	42	3	133	3	GCM1	6	52993134	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	14	52993134	118121933	97	58765			1	61		5	5	193	G		2.942662e-13
GCM1	8521	broad.mit.edu	37	chr6	52993228	52993228	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atgtactttctcttcataaaGattacccgctggatttggcc	7	10	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:52993228G>C	uc003pbp.2	-	6	1296	c.1087C>G	c.(1087-1089)CTT>GTT	p.L363V		NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	363						transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					TCTTCATAAAGATTACCCGCT	0.478													46	264	---	---	---	---	PASS	C	52993228	C	C	52993228	3	2	164	1	0	0	0	0	1	0	0	0	6297	942	33	2	227	2	GCM1	6	52993228	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	94	52993228	118121839	98	58766			1	61		5	5	193	G		2.942662e-13
GCM1	8521	broad.mit.edu	37	chr6	52993240	52993240	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttcataaagattacccgctgGatttggccataatgggggac	11	8	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:52993240G>A	uc003pbp.2	-	6	1284	c.1075C>T	c.(1075-1077)CCA>TCA	p.P359S		NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	359						transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					TTACCCGCTGGATTTGGCCAT	0.478													40	238	---	---	---	---	PASS	A	52993240	A	A	52993240	3	1	164	1	0	0	0	0	1	0	0	0	6297	1174	41	2	239	2	GCM1	6	52993240	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	12	52993240	118121827	99	58767			1	61		5	5	193	G		2.942662e-13
COL9A1	1297	broad.mit.edu	37	chr6	70993461	70993461	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gttattctggctggcagctcAtggcaagtttctctcctggg	12	10	3	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:70993461A>G	uc003pfg.3	-	6	918	c.759T>C	c.(757-759)CAT>CAC	p.H253H	COL9A1_uc003pff.3_5'Flank	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	253	Nonhelical region (NC4).	Zinc.			axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						CTGGCAGCTCATGGCAAGTTT	0.522													12	26	---	---	---	---	PASS	G	70993461	G	G	70993461	2	3	164	1	0	0	0	0	0	0	0	1	3707	214	8	5		5	COL9A1	6	70993461	Silent	SNP	A	TCGA-66-2786-01A-01D-1522-08	18000221	70993461	100121606	100	58768										
MYO6	4646	broad.mit.edu	37	chr6	76582983	76582983	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atgacaagccaccactttgaAggtgctcaaattctgtctca	7	11	3	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:76582983A>G	uc003pih.1	+	20	2322	c.2043A>G	c.(2041-2043)GAA>GAG	p.E681E	MYO6_uc003pig.1_Silent_p.E681E|MYO6_uc003pii.1_Silent_p.E681E	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	681	Myosin head-like.				actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		ACCACTTTGAAGGTGCTCAAA	0.358													8	131	---	---	---	---	PASS	G	76582983	G	G	76582983	2	3	164	1	0	0	0	0	0	0	0	1	10081	69	3	5		5	MYO6	6	76582983	Silent	SNP	A	TCGA-66-2786-01A-01D-1522-08	5589522	76582983	94532084	101	58769										
CLVS2	134829	broad.mit.edu	37	chr6	123377156	123377156	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agtagagaaggaactctcccCaaagtccatgaagaggtatg	11	8	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:123377156C>G	uc003pzi.1	+	5	1750	c.881C>G	c.(880-882)CCA>CGA	p.P294R		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	294					lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GAACTCTCCCCAAAGTCCATG	0.507													23	36	---	---	---	---	PASS	G	123377156	G	G	123377156	3	3	164	1	0	0	0	0	1	0	0	0	3572	594	21	4	895	4	CLVS2	6	123377156	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	46794173	123377156	47737911	102	58770										
LTV1	84946	broad.mit.edu	37	chr6	144165676	144165676	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aagaaagctgtgtcttttcaCttggtccaccggagccaacg	10	11	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:144165676C>G	uc003qjs.2	+	2	164	c.57C>G	c.(55-57)CAC>CAG	p.H19Q		NM_032860	NP_116249	Q96GA3	LTV1_HUMAN	LTV1 homolog	19										ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;2.72e-06)|GBM - Glioblastoma multiforme(68;0.0372)		TGTCTTTTCACTTGGTCCACC	0.428													25	277	---	---	---	---	PASS	G	144165676	G	G	144165676	3	3	164	1	0	0	0	0	1	0	0	0	9081	564	20	4	63	4	LTV1	6	144165676	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	20788520	144165676	26949391	103	58771										
SHPRH	257218	broad.mit.edu	37	chr6	146216035	146216035	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttataccgttgagaaaacgaGtgctttggcccctggatctc	10	10	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:146216035G>C	uc003qlf.2	-	26	4993	c.4594C>G	c.(4594-4596)CTC>GTC	p.L1532V	SHPRH_uc003qld.2_Missense_Mutation_p.L1536V|SHPRH_uc003qle.2_Missense_Mutation_p.L1536V	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	1532	Helicase C-terminal.				DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		GAGAAAACGAGTGCTTTGGCC	0.383													39	472	---	---	---	---	PASS	C	146216035	C	C	146216035	3	2	164	1	0	0	0	0	1	0	0	0	14291	1029	36	4	494	4	SHPRH	6	146216035	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	2050359	146216035	24899032	104	58772										
SYNE1	23345	broad.mit.edu	37	chr6	152576119	152576119	+	Missense_Mutation	SNP	C	A	A													0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	caaaagacaacccaaagtatCttcaataacatctcgattat							TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:152576119C>A	uc010kiw.2	-	104	19968	c.19366G>T	c.(19366-19368)GAT>TAT	p.D6456Y	SYNE1_uc010kiv.2_Missense_Mutation_p.D980Y|SYNE1_uc003qos.3_Missense_Mutation_p.D980Y|SYNE1_uc003qot.3_Missense_Mutation_p.D6385Y|SYNE1_uc003qou.3_Missense_Mutation_p.D6456Y	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6456	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)		CCCAAAGTATCTTCAATAACA	0.358										HNSCC(10;0.0054)			49	67	---	---	---	---	PASS	A	152576119	A	A	152576119	3	1	164	1	0	0	0	0	1	0	0	0	15442	913	32	2	7272	2	SYNE1	6	152576119	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	6360084	152576119	18538948	105	58773	1043	2								
SYNE1	23345	broad.mit.edu	37	chr6	152576120	152576120	+	Missense_Mutation	SNP	T	A	A													0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aaaagacaacccaaagtatcTtcaataacatctcgattatc							TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr6:152576120T>A	uc010kiw.2	-	104	19967	c.19365A>T	c.(19363-19365)GAA>GAT	p.E6455D	SYNE1_uc010kiv.2_Missense_Mutation_p.E979D|SYNE1_uc003qos.3_Missense_Mutation_p.E979D|SYNE1_uc003qot.3_Missense_Mutation_p.E6384D|SYNE1_uc003qou.3_Missense_Mutation_p.E6455D	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6455	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)		CCAAAGTATCTTCAATAACAT	0.358										HNSCC(10;0.0054)			47	68	---	---	---	---	PASS	A	152576120	A	A	152576120	3	1	164	1	0	0	0	0	1	0	0	0	15442	1606	56	5	7273	5	SYNE1	6	152576120	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	1	152576120	18538947	106	58774	1043	2								
DGKB	1607	broad.mit.edu	37	chr7	14378241	14378241	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttcgtcttttcttagactctCcccaaagattggatcctcca	5	13	3	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr7:14378241C>A	uc003ssz.2	-	22	2211	c.2024G>T	c.(2023-2025)GGA>GTA	p.G675V	DGKB_uc011jxt.1_Missense_Mutation_p.G656V|DGKB_uc003sta.2_Missense_Mutation_p.G675V|DGKB_uc011jxu.1_Missense_Mutation_p.G674V	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	675					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	CTTAGACTCTCCCCAAAGATT	0.408													59	146	---	---	---	---	PASS	A	14378241	A	A	14378241	3	1	164	1	0	0	0	0	1	0	0	0	4466	855	30	2	421	2	DGKB	7	14378241	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08		14378241	144760422	107	58775										
TNS3	64759	broad.mit.edu	37	chr7	47409020	47409020	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcctggttcctggggccaggCgctcttccgtcttatccgtc	11	15	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr7:47409020C>A	uc003tnv.2	-	17	1590	c.1223G>T	c.(1222-1224)CGC>CTC	p.R408L	TNS3_uc003tnw.2_Missense_Mutation_p.R408L	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	408						focal adhesion	protein binding			ovary(4)	4						TGGGGCCAGGCGCTCTTCCGT	0.627													33	71	---	---	---	---	PASS	A	47409020	A	A	47409020	3	1	164	1	0	0	0	0	1	0	0	0	16341	768	27	1	3174	1	TNS3	7	47409020	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	33030779	47409020	111729643	108	58776										
CCDC132	55610	broad.mit.edu	37	chr7	92985380	92985380	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aatgacatggaacggtggatCaaagagcacagggtgagagc	15	6	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr7:92985380C>T	uc003umo.2	+	27	2891	c.2763C>T	c.(2761-2763)ATC>ATT	p.I921I	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Silent_p.I891I|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Silent_p.I641I	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	921											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			AACGGTGGATCAAAGAGCACA	0.318													19	65	---	---	---	---	PASS	T	92985380	T	T	92985380	2	4	164	1	0	0	0	0	0	0	0	1	2767	816	29	2		2	CCDC132	7	92985380	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	45576360	92985380	66153283	109	58777										
PPP1R3A	5506	broad.mit.edu	37	chr7	113518175	113518175	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggaaaatctggcctatgcatCtttcttttctactacctgat	6	10	4	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr7:113518175C>T	uc010ljy.1	-	4	3003	c.2972G>A	c.(2971-2973)AGA>AAA	p.R991K		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	991					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						GCCTATGCATCTTTCTTTTCT	0.388													74	179	---	---	---	---	PASS	T	113518175	T	T	113518175	3	4	164	1	0	0	0	0	1	0	0	0	12371	913	32	2	400	2	PPP1R3A	7	113518175	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	20532795	113518175	45620488	110	58778										
CADPS2	93664	broad.mit.edu	37	chr7	122261657	122261657	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	taatttaaattccggaccacCtttcgaaactggaagacttt	6	9	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr7:122261657C>A	uc010lkp.2	-	5	1145	c.982G>T	c.(982-984)GGT>TGT	p.G328C	CADPS2_uc003vkg.3_Missense_Mutation_p.G28C|CADPS2_uc010lkq.2_Missense_Mutation_p.G328C	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	328					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						TCCGGACCACCTTTCGAAACT	0.363													25	174	---	---	---	---	PASS	A	122261657	A	A	122261657	3	1	164	1	0	0	0	0	1	0	0	0	2571	681	24	3	3056	3	CADPS2	7	122261657	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	8743482	122261657	36877006	111	58779										
TRPV5	56302	broad.mit.edu	37	chr7	142606734	142606734	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	acaggcagcgaggcagcttcCgctccagcatcactgtggtg	13	13	1	0	rs143560130		TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr7:142606734C>T	uc003wby.1	-	14	2081	c.1817G>A	c.(1816-1818)CGG>CAG	p.R606Q		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	606	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					AGGCAGCTTCCGCTCCAGCAT	0.612													15	52	---	---	---	---	PASS	T	142606734	T	T	142606734	3	4	164	1	0	0	0	0	1	0	0	0	16596	652	23	1	380	1	TRPV5	7	142606734	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	20345077	142606734	16531929	112	58780										
OR2A12	346525	broad.mit.edu	37	chr7	143792604	143792604	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cttgcaatacaccctcattaTgaactggagagtgtgcactg	9	10	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr7:143792604T>A	uc011kty.1	+	1	404	c.404T>A	c.(403-405)ATG>AAG	p.M135K		NM_001004135	NP_001004135	Q8NGT7	O2A12_HUMAN	olfactory receptor, family 2, subfamily A,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	Melanoma(164;0.0783)					ACCCTCATTATGAACTGGAGA	0.438													9	316	---	---	---	---	PASS	A	143792604	A	A	143792604	3	1	164	1	0	0	0	0	1	0	0	0	10975	1464	51	5	406	5	OR2A12	7	143792604	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	1185870	143792604	15346059	113	58781										
SLC4A2	6522	broad.mit.edu	37	chr7	150761614	150761614	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtccccctcctccctgcagaCcaccgccagtcctcccacca	5	24	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr7:150761614C>A	uc003wit.3	+	4	475	c.219C>A	c.(217-219)TAC>TAA	p.Y73*	SLC4A2_uc011kve.1_Nonsense_Mutation_p.Y64*|SLC4A2_uc003wiu.3_Nonsense_Mutation_p.Y59*	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	73	Cytoplasmic (Potential).|Pro-rich.				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TCCCTGCAGACCACCGCCAGT	0.682													13	44	---	---	---	---	PASS	A	150761614	A	A	150761614	4	1	164	1	0	0	0	0	0	1	0	0	14654	521	18	3	229	3	SLC4A2	7	150761614	Nonsense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	6969010	150761614	8377049	114	58782										
SLC18A1	6570	broad.mit.edu	37	chr8	20031880	20031880	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgccagtgttacctgcaacaGatgaaaatgaagatccaatg	9	8	0	4			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr8:20031880G>C	uc011kyq.1	-	6	1094	c.623C>G	c.(622-624)TCT>TGT	p.S208C	SLC18A1_uc003wzl.2_5'Flank|SLC18A1_uc003wzm.2_Missense_Mutation_p.S208C|SLC18A1_uc011kyr.1_Missense_Mutation_p.S208C|SLC18A1_uc003wzn.2_Missense_Mutation_p.S208C|SLC18A1_uc010ltf.2_RNA|SLC18A1_uc003wzo.2_Missense_Mutation_p.S208C	NM_001135691	NP_001129163	P54219	VMAT1_HUMAN	solute carrier family 18 (vesicular monoamine),	208	Helical; (Potential).				neurotransmitter transport	clathrin sculpted monoamine transport vesicle membrane|integral to membrane|membrane fraction	drug transmembrane transporter activity|monoamine transmembrane transporter activity			ovary(2)	2				Colorectal(74;0.0747)		ACCTGCAACAGATGAAAATGA	0.438													19	59	---	---	---	---	PASS	C	20031880	C	C	20031880	3	2	164	1	0	0	0	0	1	0	0	0	14425	942	33	2	1002	2	SLC18A1	8	20031880	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08		20031880	126332142	115	58783										
FAM160B2	64760	broad.mit.edu	37	chr8	21960417	21960417	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgatcctcgccagaacgtctCcccagccccggaagggcagg	12	16	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr8:21960417C>A	uc011kyx.1	+	17	2258	c.2207C>A	c.(2206-2208)TCC>TAC	p.S736Y	FAM160B2_uc011kyy.1_RNA	NM_022749	NP_073586	Q86V87	F16B2_HUMAN	retinoic acid induced 16	736											0						CAGAACGTCTCCCCAGCCCCG	0.657													13	31	---	---	---	---	PASS	A	21960417	A	A	21960417	3	1	164	1	0	0	0	0	1	0	0	0	5471	855	30	2	2072	2	FAM160B2	8	21960417	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	1928537	21960417	124403605	116	58784										
ADAM32	203102	broad.mit.edu	37	chr8	39068795	39068795	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tctccgaaaccagtctgtggCaatggcagattggagggaaa	13	8	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr8:39068795C>A	uc003xmt.3	+	12	1430	c.1185C>A	c.(1183-1185)GGC>GGA	p.G395G	ADAM32_uc011lch.1_Intron|ADAM32_uc003xmu.3_Intron	NM_145004	NP_659441	Q8TC27	ADA32_HUMAN	a disintegrin and metalloprotease domain 32	395	Disintegrin.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)			CAGTCTGTGGCAATGGCAGAT	0.338													10	26	---	---	---	---	PASS	A	39068795	A	A	39068795	2	1	164	1	0	0	0	0	0	0	0	1	249	697	25	3		3	ADAM32	8	39068795	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	17108378	39068795	107295227	117	58785										
IDO2	169355	broad.mit.edu	37	chr8	39840260	39840260	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtccactcagacttggtgctGacgaactggaccaaaaaaga	10	10	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr8:39840260G>T	uc010lwy.1	+	5	686	c.444G>T	c.(442-444)CTG>CTT	p.L148L	IDO2_uc003xno.1_RNA|IDO2_uc010lwz.1_Intron	NM_194294	NP_919270	Q6ZQW0	I23O2_HUMAN	indoleamine-pyrrole 2,3 dioxygenase-like 1	135					tryptophan catabolic process to kynurenine	cytosol	heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			ovary(2)	2						ACTTGGTGCTGACGAACTGGA	0.468													9	25	---	---	---	---	PASS	T	39840260	T	T	39840260	2	4	164	1	0	0	0	0	0	0	0	1	7502	1277	45	2		2	IDO2	8	39840260	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	771465	39840260	106523762	118	58786										
GDAP1	54332	broad.mit.edu	37	chr8	75275219	75275219	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcaagtatttgaagaaaattCttgatgagttggagaaagtc	10	3	2	5			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr8:75275219C>G	uc003yah.2	+	5	704	c.625C>G	c.(625-627)CTT>GTT	p.L209V	GDAP1_uc011lfj.1_Missense_Mutation_p.L94V|GDAP1_uc003yai.2_Missense_Mutation_p.L141V	NM_018972	NP_061845	Q8TB36	GDAP1_HUMAN	ganglioside-induced differentiation-associated	209	GST C-terminal.					cytoplasm					0	Breast(64;0.00769)	Myeloproliferative disorder(644;0.0122)	BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.104)|all cancers(69;0.234)			GAAGAAAATTCTTGATGAGTT	0.318													27	217	---	---	---	---	PASS	G	75275219	G	G	75275219	3	3	164	1	0	0	0	0	1	0	0	0	6307	913	32	2	643	2	GDAP1	8	75275219	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	35434959	75275219	71088803	119	58787										
PKHD1L1	93035	broad.mit.edu	37	chr8	110417312	110417312	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cccatgtgtggaagctaattCatgttcactttaccaatata	6	9	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr8:110417312C>T	uc003yne.2	+	16	1726	c.1622C>T	c.(1621-1623)TCA>TTA	p.S541L		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	541	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GAAGCTAATTCATGTTCACTT	0.313										HNSCC(38;0.096)			4	12	---	---	---	---	PASS	T	110417312	T	T	110417312	3	4	164	1	0	0	0	0	1	0	0	0	11972	838	29	2	1684	2	PKHD1L1	8	110417312	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	35142093	110417312	35946710	120	58788										
CSMD3	114788	broad.mit.edu	37	chr8	113418818	113418818	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcactgtttcacacctaattGctatggatccatggagaata	8	9	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr8:113418818G>A	uc003ynu.2	-	35	5903	c.5744C>T	c.(5743-5745)GCA>GTA	p.A1915V	CSMD3_uc003yns.2_Missense_Mutation_p.A1117V|CSMD3_uc003ynt.2_Missense_Mutation_p.A1875V|CSMD3_uc011lhx.1_Missense_Mutation_p.A1811V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1915	Sushi 10.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ACACCTAATTGCTATGGATCC	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	172	---	---	---	---	PASS	A	113418818	A	A	113418818	3	1	164	1	0	0	0	0	1	0	0	0	3946	1319	46	3	5527	3	CSMD3	8	113418818	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	3001506	113418818	32945204	121	58789										
COL22A1	169044	broad.mit.edu	37	chr8	139706804	139706804	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tccaggacggccctgcagtcCctgtaagcacacaagttgcc	10	15	0	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr8:139706804C>A	uc003yvd.2	-	34	3094	c.2647G>T	c.(2647-2649)GGA>TGA	p.G883*	COL22A1_uc011ljo.1_Nonsense_Mutation_p.G183*	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	883	Pro-rich.|Gly-rich.|Collagen-like 7.				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)			CCCTGCAGTCCCTGTAAGCAC	0.572										HNSCC(7;0.00092)			25	74	---	---	---	---	PASS	A	139706804	A	A	139706804	4	1	164	1	0	0	0	0	0	1	0	0	3681	637	22	3	2361	3	COL22A1	8	139706804	Nonsense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	26287986	139706804	6657218	122	58790										
PLEC	5339	broad.mit.edu	37	chr8	144993708	144993708	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtgacggccttctcggcagaCagcagctgctcgtgaagctc	13	13	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr8:144993708C>G	uc003zaf.1	-	32	10862	c.10692G>C	c.(10690-10692)CTG>CTC	p.L3564L	PLEC_uc003zab.1_Silent_p.L3427L|PLEC_uc003zac.1_Silent_p.L3431L|PLEC_uc003zad.2_Silent_p.L3427L|PLEC_uc003zae.1_Silent_p.L3395L|PLEC_uc003zag.1_Silent_p.L3405L|PLEC_uc003zah.2_Silent_p.L3413L|PLEC_uc003zaj.2_Silent_p.L3454L	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3564	Plectin 14.|Globular 2.				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						TCTCGGCAGACAGCAGCTGCT	0.672													7	25	---	---	---	---	PASS	G	144993708	G	G	144993708	2	3	164	1	0	0	0	0	0	0	0	1	12052	465	17	4		4	PLEC	8	144993708	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	5286904	144993708	1370314	123	58791										
MPDZ	8777	broad.mit.edu	37	chr9	13138074	13138074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgttcccagcaagacttaggCccaaaccactatgacctttc	6	14	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr9:13138074C>A	uc010mia.1	-	28	4139	c.4082G>T	c.(4081-4083)GGC>GTC	p.G1361V	MPDZ_uc003zky.3_5'Flank|MPDZ_uc010mib.2_Missense_Mutation_p.G66V|MPDZ_uc010mhx.2_Missense_Mutation_p.G183V|MPDZ_uc011lmm.1_Missense_Mutation_p.G220V|MPDZ_uc003zkz.3_Missense_Mutation_p.G54V|MPDZ_uc010mhy.2_Missense_Mutation_p.G1361V|MPDZ_uc010mhz.2_Missense_Mutation_p.G1328V|MPDZ_uc011lmn.1_Missense_Mutation_p.G1328V|MPDZ_uc003zlb.3_Missense_Mutation_p.G1361V	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1361	PDZ 8.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		AAGACTTAGGCCCAAACCACT	0.438													20	33	---	---	---	---	PASS	A	13138074	A	A	13138074	3	1	164	1	0	0	0	0	1	0	0	0	9722	739	26	3	2115	3	MPDZ	9	13138074	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08		13138074	128075357	124	58792										
CDKN2A	1029	broad.mit.edu	37	chr9	21974748	21974748	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ctccagcagcgcccgcacctCctctacccgaccccgggccg	9	23	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr9:21974748C>A	uc003zpk.2	-	1	291	c.79G>T	c.(79-81)GAG>TAG	p.E27*	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_Nonsense_Mutation_p.E27*|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Intron	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	27	ANK 1.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(23)|p.E27*(1)|p.R22fs*14(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		GCCCGCACCTCCTCTACCCGA	0.741		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			5	6	---	---	---	---	PASS	A	21974748	A	A	21974748	4	1	164	1	0	0	0	0	0	1	0	0	3161	864	30	2	604	2	CDKN2A	9	21974748	Nonsense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	8836674	21974748	119238683	125	58793										
VPS13A	23230	broad.mit.edu	37	chr9	79954514	79954514	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gttgggtaaagccaggctacAtttaaaattacttgactatc	8	7	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr9:79954514A>G	uc004akr.2	+	48	6721	c.6461A>G	c.(6460-6462)CAT>CGT	p.H2154R	VPS13A_uc004akp.3_Missense_Mutation_p.H2154R|VPS13A_uc004akq.3_Missense_Mutation_p.H2154R|VPS13A_uc004aks.2_Missense_Mutation_p.H2115R	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2154					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GCCAGGCTACATTTAAAATTA	0.333													14	36	---	---	---	---	PASS	G	79954514	G	G	79954514	3	3	164	1	0	0	0	0	1	0	0	0	17186	217	8	5	6651	5	VPS13A	9	79954514	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	57979766	79954514	61258917	126	58794										
ZCCHC6	79670	broad.mit.edu	37	chr9	88943339	88943339	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcactgtcagtatgttcccaGatcacaacatctttttcaat	5	11	4	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr9:88943339G>C	uc004aoq.2	-	11	1739	c.1524C>G	c.(1522-1524)ATC>ATG	p.I508M	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.I385M|ZCCHC6_uc004aou.2_Missense_Mutation_p.I508M	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	508					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						TATGTTCCCAGATCACAACAT	0.398													104	281	---	---	---	---	PASS	C	88943339	C	C	88943339	3	2	164	1	0	0	0	0	1	0	0	0	17589	932	33	2	3031	2	ZCCHC6	9	88943339	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	8988825	88943339	52270092	127	58795										
PTCH1	5727	broad.mit.edu	37	chr9	98244316	98244316	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	caaacaagggtaaagatattCtattatctgtcaaagttaaa	6	5	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr9:98244316C>T	uc004avk.3	-	5	849	c.661G>A	c.(661-663)GAA>AAA	p.E221K	PTCH1_uc010mro.2_Missense_Mutation_p.E70K|PTCH1_uc010mrp.2_Missense_Mutation_p.E70K|PTCH1_uc010mrq.2_Missense_Mutation_p.E70K|PTCH1_uc004avl.3_Missense_Mutation_p.E70K|PTCH1_uc010mrr.2_Missense_Mutation_p.E155K|PTCH1_uc004avm.3_Missense_Mutation_p.E220K|PTCH1_uc010mrs.1_5'Flank|PTCH1_uc010mrt.1_RNA|PTCH1_uc010mru.1_Intron|PTCH1_uc004avo.2_Missense_Mutation_p.E155K|PTCH1_uc010mrv.1_RNA	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	221	Extracellular (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				TAAAGATATTCTATTATCTGT	0.408									Basal_Cell_Nevus_syndrome				4	88	---	---	---	---	PASS	T	98244316	T	T	98244316	3	4	164	1	0	0	0	0	1	0	0	0	12730	922	32	2	3758	2	PTCH1	9	98244316	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	9300977	98244316	42969115	128	58796										
ABL1	25	broad.mit.edu	37	chr9	133753888	133753888	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cccaggtgtatgagctgctaGagaaggactaccgcatggag	14	9	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr9:133753888G>C	uc004bzw.2	+	8	1360	c.1357G>C	c.(1357-1359)GAG>CAG	p.E453Q	ABL1_uc004bzv.2_Missense_Mutation_p.E472Q	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	453	Protein kinase.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding	p.E453K(2)|p.E453D(1)|p.E453L(1)		haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	TGAGCTGCTAGAGAAGGACTA	0.507			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								28	410	---	---	---	---	PASS	C	133753888	C	C	133753888	3	2	164	1	0	0	0	0	1	0	0	0	92	943	33	2	1527	2	ABL1	9	133753888	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	35509572	133753888	7459543	129	58797										
C10orf71	118461	broad.mit.edu	37	chr10	50531322	50531322	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcagccaatgacacggccacCttatgtgagtcaaagttccc	9	13	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr10:50531322C>T	uc010qgp.1	+	3	1071	c.732C>T	c.(730-732)ACC>ACT	p.T244T		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	244											0						ACACGGCCACCTTATGTGAGT	0.552													11	7	---	---	---	---	PASS	T	50531322	T	T	50531322	2	4	164	1	0	0	0	0	0	0	0	1	1614	668	24	3		3	C10orf71	10	50531322	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08		50531322	85003425	130	58798										
NCOA4	8031	broad.mit.edu	37	chr10	51582221	51582221	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atggctcatgctagttcagcAaatattgggcccttcctgga	10	10	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr10:51582221A>T	uc001jis.3	+	6	722	c.519A>T	c.(517-519)GCA>GCT	p.A173A	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|NCOA4_uc009xon.2_Silent_p.A189A|NCOA4_uc010qhd.1_Silent_p.A189A|NCOA4_uc010qhe.1_Silent_p.A73A|NCOA4_uc010qhf.1_Silent_p.A7A|NCOA4_uc001jit.2_Silent_p.A173A|NCOA4_uc009xoo.2_Silent_p.A173A	NM_001145263	NP_001138735	Q13772	NCOA4_HUMAN	nuclear receptor coactivator 4 isoform 3	173					androgen receptor signaling pathway|male gonad development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	androgen receptor binding|transcription coactivator activity			central_nervous_system(1)|kidney(1)	2						CTAGTTCAGCAAATATTGGGC	0.363			T	RET	papillary thyroid 								38	92	---	---	---	---	PASS	T	51582221	T	T	51582221	2	4	164	1	0	0	0	0	0	0	0	1	10231	117	5	5		5	NCOA4	10	51582221	Silent	SNP	A	TCGA-66-2786-01A-01D-1522-08	1050899	51582221	83952526	131	58799										
PRKG1	5592	broad.mit.edu	37	chr10	54032153	54032153	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcttgtttgcaatttacagaCtgtacagaacatttaaggac	7	7	1	2	rs142314590	by1000genomes	TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr10:54032153C>A	uc001jjm.2	+	12	1464	c.1270C>A	c.(1270-1272)CTG>ATG	p.L424M	PRKG1_uc001jjo.2_Missense_Mutation_p.L439M|PRKG1_uc009xow.1_Missense_Mutation_p.L142M|uc001jjq.1_Intron	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	424	Protein kinase.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		AATTTACAGACTGTACAGAAC	0.373													17	108	---	---	---	---	PASS	A	54032153	A	A	54032153	3	1	164	1	0	0	0	0	1	0	0	0	12522	579	20	3	1631	3	PRKG1	10	54032153	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	2449932	54032153	81502594	132	58800										
C10orf28	27291	broad.mit.edu	37	chr10	99994210	99994210	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttttgtgttgcagaaagaaaGgatttgatattaaatgggtg	12	1	0	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr10:99994210G>T	uc001kow.3	+	6	2264	c.1969G>T	c.(1969-1971)GGA>TGA	p.G657*	C10orf28_uc001kox.3_Nonsense_Mutation_p.G671*|C10orf28_uc001koy.3_Nonsense_Mutation_p.G657*|C10orf28_uc009xvx.2_Nonsense_Mutation_p.G657*|C10orf28_uc009xvy.2_Nonsense_Mutation_p.G63*|C10orf28_uc001koz.3_RNA	NM_014472	NP_055287	Q4KMY3	Q4KMY3_HUMAN	growth inhibition and differentiation related	657							nucleotide binding			large_intestine(1)|skin(1)	2		Colorectal(252;0.234)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)		CAGAAAGAAAGGATTTGATAT	0.313													5	180	---	---	---	---	PASS	T	99994210	T	T	99994210	4	4	164	1	0	0	0	0	0	1	0	0	1601	1001	35	3	1979	3	C10orf28	10	99994210	Nonsense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	45962057	99994210	35540537	133	58801										
EIF3A	8661	broad.mit.edu	37	chr10	120802129	120802129	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cttcctcaggaccacgtctaGggcctctgtcatcatccatg	8	15	5	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr10:120802129G>C	uc001ldu.2	-	19	3049	c.2903C>G	c.(2902-2904)CCT>CGT	p.P968R	EIF3A_uc010qsu.1_Missense_Mutation_p.P934R|EIF3A_uc009xzg.1_Missense_Mutation_p.P7R	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	968	Asp-rich.|25 X 10 AA approximate tandem repeats of [DE]-[DE]-[DE]-R-[SEVGFPILV]-[HPSN]- [RSW]-[RL]-[DRGTIHN]-[EPMANLGDT].|5.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		ACCACGTCTAGGGCCTCTGTC	0.592													8	228	---	---	---	---	PASS	C	120802129	C	C	120802129	3	2	164	1	0	0	0	0	1	0	0	0	5012	1000	35	4	1261	4	EIF3A	10	120802129	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	20807919	120802129	14732618	134	58802										
ZNF215	7762	broad.mit.edu	37	chr11	6953621	6953621	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aggaaaccaaccccgtcgtgGagacacatgactctgaggca	11	12	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:6953621G>C	uc001mey.2	+	3	706	c.118G>C	c.(118-120)GAG>CAG	p.E40Q	ZNF215_uc010raw.1_Missense_Mutation_p.E40Q|ZNF215_uc010rax.1_5'UTR|ZNF215_uc001mez.1_Missense_Mutation_p.E40Q	NM_013250	NP_037382	Q9UL58	ZN215_HUMAN	zinc finger protein 215	40					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;6.33e-08)|BRCA - Breast invasive adenocarcinoma(625;0.134)		CCCCGTCGTGGAGACACATGA	0.498													4	143	---	---	---	---	PASS	C	6953621	C	C	6953621	3	2	164	1	0	0	0	0	1	0	0	0	17768	1175	41	2	120	2	ZNF215	11	6953621	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08		6953621	128052895	135	58803										
PPFIBP2	8495	broad.mit.edu	37	chr11	7670765	7670765	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	caaactttcctctttcagaaCgatttactcttcttaaaagt	3	10	4	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:7670765C>T	uc001mfj.3	+	21	2389	c.2001C>T	c.(1999-2001)AAC>AAT	p.N667N	PPFIBP2_uc010rbb.1_Silent_p.N590N|PPFIBP2_uc001mfk.1_Intron|PPFIBP2_uc010rbc.1_Silent_p.N601N|PPFIBP2_uc010rbe.1_Silent_p.N555N|PPFIBP2_uc001mfl.3_Silent_p.N524N|PPFIBP2_uc009yfj.1_Silent_p.N311N	NM_003621	NP_003612	Q8ND30	LIPB2_HUMAN	PTPRF interacting protein, binding protein 2	667	SAM 2.				cell communication|DNA integration	intracellular	DNA binding|integrase activity|protein binding			ovary(2)|breast(2)	4				Epithelial(150;2.01e-07)|BRCA - Breast invasive adenocarcinoma(625;0.236)		TCTTTCAGAACGATTTACTCT	0.443													109	294	---	---	---	---	PASS	T	7670765	T	T	7670765	2	4	164	1	0	0	0	0	0	0	0	1	12314	535	19	1		1	PPFIBP2	11	7670765	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	717144	7670765	127335751	136	58804										
NELL1	4745	broad.mit.edu	37	chr11	20940796	20940796	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gttttatattttctttattgAgcttgcccaacctgcagtga	7	8	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:20940796A>T	uc001mqe.2	+	7	830	c.677_splice	c.e7-2	p.T226_splice	NELL1_uc001mqf.2_Splice_Site_p.T226_splice|NELL1_uc009yid.2_Splice_Site_p.T254_splice|NELL1_uc010rdo.1_Splice_Site_p.T169_splice|NELL1_uc010rdp.1_Intron	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor						cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						ttCTTTATTGAGCTTGCCCAA	0.289													25	83	---	---	---	---	PASS	T	20940796	T	T	20940796	5	4	164	1	0	0	0	0	0	0	1	0	10333	318	11	5	701	5	NELL1	11	20940796	Splice_Site	SNP	A	TCGA-66-2786-01A-01D-1522-08	13270031	20940796	114065720	137	58805										
ANO5	203859	broad.mit.edu	37	chr11	22242675	22242675	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cagcaaagcaaagattctatCttcttccgagatgggattag	9	8	3	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:22242675C>A	uc001mqi.2	+	5	530	c.213C>A	c.(211-213)ATC>ATA	p.I71I	ANO5_uc001mqj.2_Silent_p.I70I	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	71	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						AAGATTCTATCTTCTTCCGAG	0.348													23	80	---	---	---	---	PASS	A	22242675	A	A	22242675	2	1	164	1	0	0	0	0	0	0	0	1	700	903	32	2		2	ANO5	11	22242675	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	1301879	22242675	112763841	138	58806										
ANO5	203859	broad.mit.edu	37	chr11	22291937	22291937	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtcgatgggagcaggatcatGaccttgaaagttttggaccc	13	8	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:22291937G>T	uc001mqi.2	+	18	2295	c.1978G>T	c.(1978-1980)GAC>TAC	p.D660Y	ANO5_uc001mqj.2_Missense_Mutation_p.D659Y	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	660	Extracellular (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						GCAGGATCATGACCTTGAAAG	0.423													74	185	---	---	---	---	PASS	T	22291937	T	T	22291937	3	4	164	1	0	0	0	0	1	0	0	0	700	1290	45	2	2048	2	ANO5	11	22291937	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	49262	22291937	112714579	139	58807										
MAPK8IP1	9479	broad.mit.edu	37	chr11	45923588	45923588	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gttggcaggatcgggtgtctCgatcatcctcacccctgaag	12	12	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:45923588C>A	uc001nbr.2	+	4	750	c.580C>A	c.(580-582)CGA>AGA	p.R194R		NM_005456	NP_005447	Q9UQF2	JIP1_HUMAN	mitogen-activated protein kinase 8 interacting	194	JNK-binding domain (JBD).				vesicle-mediated transport	nucleus|perinuclear region of cytoplasm	kinesin binding|MAP-kinase scaffold activity|protein kinase inhibitor activity			ovary(2)|breast(1)|skin(1)	4				GBM - Glioblastoma multiforme(35;0.231)		TCGGGTGTCTCGATCATCCTC	0.527													9	362	---	---	---	---	PASS	A	45923588	A	A	45923588	2	1	164	1	0	0	0	0	0	0	0	1	9284	876	31	2		2	MAPK8IP1	11	45923588	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	23631651	45923588	89082928	140	58808										
OR4C46	119749	broad.mit.edu	37	chr11	51515930	51515930	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ccctcctgctggtctcctatGtggtcatcttgtgctcccta	8	15	3	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:51515930G>A	uc010ric.1	+	1	649	c.649G>A	c.(649-651)GTG>ATG	p.V217M		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	217	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GGTCTCCTATGTGGTCATCTT	0.502													26	136	---	---	---	---	PASS	A	51515930	A	A	51515930	3	1	164	1	0	0	0	0	1	0	0	0	11051	1377	48	3	651	3	OR4C46	11	51515930	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	5592342	51515930	83490586	141	58809										
ZDHHC5	25921	broad.mit.edu	37	chr11	57467477	57467477	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agaaggtgtcaggggttggtGgtaccacctatgagatttcg	15	6	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:57467477G>A	uc001nkx.1	+	12	3378	c.2122G>A	c.(2122-2124)GGT>AGT	p.G708S	ZDHHC5_uc001nky.1_Missense_Mutation_p.G655S|ZDHHC5_uc001nkz.1_Missense_Mutation_p.G522S	NM_015457	NP_056272	Q9C0B5	ZDHC5_HUMAN	zinc finger, DHHC domain containing 5	708						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)	1						AGGGGTTGGTGGTACCACCTA	0.647													24	71	---	---	---	---	PASS	A	57467477	A	A	57467477	3	1	164	1	0	0	0	0	1	0	0	0	17615	1348	47	3	2164	3	ZDHHC5	11	57467477	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	5951547	57467477	77539039	142	58810										
SLC22A8	9376	broad.mit.edu	37	chr11	62761028	62761028	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgaagggctgtacctcacccGtgattttcaccagcggggac	12	12	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:62761028G>T	uc001nwo.2	-	10	1533	c.1397C>A	c.(1396-1398)ACG>AAG	p.T466K	SLC22A8_uc001nwn.1_3'UTR|SLC22A8_uc001nwp.2_Missense_Mutation_p.T466K|SLC22A8_uc009yom.2_Missense_Mutation_p.T343K|SLC22A8_uc010rmm.1_Missense_Mutation_p.T375K|SLC22A8_uc009yon.2_Missense_Mutation_p.T466K	NM_004254	NP_004245	Q8TCC7	S22A8_HUMAN	solute carrier family 22 member 8	466	Cytoplasmic (Potential).				response to toxin	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|organic anion transmembrane transporter activity			skin(2)|ovary(1)	3						TACCTCACCCGTGATTTTCAC	0.592													12	169	---	---	---	---	PASS	T	62761028	T	T	62761028	3	4	164	1	0	0	0	0	1	0	0	0	14460	1145	40	1	239	1	SLC22A8	11	62761028	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	5293551	62761028	72245488	143	58811										
GPR152	390212	broad.mit.edu	37	chr11	67219032	67219032	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atgaggttcagctgtggctgGgctgtgggatccgactgtgg	18	7	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:67219032G>A	uc001olm.2	-	1	1169	c.1164C>T	c.(1162-1164)GCC>GCT	p.A388A	uc009yrw.1_5'Flank|CABP4_uc001oln.2_5'Flank	NM_206997	NP_996880	Q8TDT2	GP152_HUMAN	G protein-coupled receptor 152	388	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			GCTGTGGCTGGGCTGTGGGAT	0.632													6	35	---	---	---	---	PASS	A	67219032	A	A	67219032	2	1	164	1	0	0	0	0	0	0	0	1	6658	1219	43	3		3	GPR152	11	67219032	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	4458004	67219032	67787484	144	58812										
C11orf30	56946	broad.mit.edu	37	chr11	76256898	76256898	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	caaagataacttttgaggggCgccagcctcccacagttaca	9	12	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:76256898C>T	uc001oxl.2	+	20	3474	c.3331C>T	c.(3331-3333)CGC>TGC	p.R1111C	C11orf30_uc001oxm.2_Missense_Mutation_p.R1013C|C11orf30_uc010rsb.1_Missense_Mutation_p.R1126C|C11orf30_uc010rsc.1_Missense_Mutation_p.R1112C|C11orf30_uc001oxn.2_Missense_Mutation_p.R1112C|C11orf30_uc010rsd.1_Missense_Mutation_p.R1020C|C11orf30_uc010rse.1_Missense_Mutation_p.R358C|C11orf30_uc001oxp.2_Intron	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	1111					chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						TTTTGAGGGGCGCCAGCCTCC	0.453													19	174	---	---	---	---	PASS	T	76256898	T	T	76256898	3	4	164	1	0	0	0	0	1	0	0	0	1636	768	27	1	3405	1	C11orf30	11	76256898	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	9037866	76256898	58749618	145	58813										
CHORDC1	26973	broad.mit.edu	37	chr11	89939369	89939369	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aataagtcatgcataagttaCccctcatggaaaataggtac	7	8	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:89939369C>A	uc001pdg.2	-	7	973	c.563_splice	c.e7+1	p.G188_splice	CHORDC1_uc009yvz.2_Splice_Site_p.G169_splice	NM_012124	NP_036256	Q9UHD1	CHRD1_HUMAN	cysteine and histidine-rich domain-containing						chaperone-mediated protein folding|regulation of response to stress|response to stress		Hsp90 protein binding|identical protein binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.00915)				GCATAAGTTACCCCTCATGGA	0.269													57	154	---	---	---	---	PASS	A	89939369	A	A	89939369	5	1	164	1	0	0	0	0	0	0	1	0	3365	521	18	3	454	3	CHORDC1	11	89939369	Splice_Site	SNP	C	TCGA-66-2786-01A-01D-1522-08	13682471	89939369	45067147	146	58814										
PGR	5241	broad.mit.edu	37	chr11	100999559	100999559	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gaatatgcgccctccacgtcCgacagcgactgctggtcctg	11	15	0	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:100999559C>A	uc001pgh.2	-	1	986	c.243G>T	c.(241-243)TCG>TCT	p.S81S	PGR_uc001pgi.2_Silent_p.S81S|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	81	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	CCTCCACGTCCGACAGCGACT	0.607													3	69	---	---	---	---	PASS	A	100999559	A	A	100999559	2	1	164	1	0	0	0	0	0	0	0	1	11805	639	23	1		1	PGR	11	100999559	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	11060190	100999559	34006957	147	58815										
SIK2	23235	broad.mit.edu	37	chr11	111558844	111558844	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgcaccgtgacctcaaagctGaaaatctcctgctggataac	8	12	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:111558844G>C	uc001plt.2	+	4	554	c.436G>C	c.(436-438)GAA>CAA	p.E146Q		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	146	Protein kinase.				intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						CCTCAAAGCTGAAAATCTCCT	0.453													52	80	---	---	---	---	PASS	C	111558844	C	C	111558844	3	2	164	1	0	0	0	0	1	0	0	0	14318	1291	45	2	450	2	SIK2	11	111558844	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	10559285	111558844	23447672	148	58816										
HTR3A	3359	broad.mit.edu	37	chr11	113856854	113856854	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gctgccctactttcgggagtTcagcatggaaagcagtaact	11	10	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:113856854T>C	uc010rxb.1	+	6	913	c.680T>C	c.(679-681)TTC>TCC	p.F227S	HTR3A_uc010rxa.1_Missense_Mutation_p.F227S|HTR3A_uc009yyx.2_Intron|HTR3A_uc010rxc.1_Missense_Mutation_p.F206S	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	221	Extracellular (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	TTTCGGGAGTTCAGCATGGAA	0.478													11	410	---	---	---	---	PASS	C	113856854	C	C	113856854	3	2	164	1	0	0	0	0	1	0	0	0	7444	1783	62	5	728	5	HTR3A	11	113856854	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	2298010	113856854	21149662	149	58817										
APOC3	345	broad.mit.edu	37	chr11	116701317	116701317	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ccatgcagccccgggtactcCttgttgttgccctcctggcg	11	16	0	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:116701317C>G	uc001ppt.1	+	2	65	c.19C>G	c.(19-21)CTT>GTT	p.L7V		NM_000040	NP_000031	P02656	APOC3_HUMAN	apolipoprotein C-III precursor	7					Cdc42 protein signal transduction|cholesterol efflux|cholesterol homeostasis|chylomicron remnant clearance|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle remodeling|lipoprotein metabolic process|negative regulation of cholesterol import|negative regulation of fatty acid biosynthetic process|negative regulation of high-density lipoprotein particle clearance|negative regulation of lipoprotein lipase activity|negative regulation of low-density lipoprotein particle clearance|negative regulation of receptor-mediated endocytosis|negative regulation of triglyceride catabolic process|negative regulation of very-low-density lipoprotein particle clearance|negative regulation of very-low-density lipoprotein particle remodeling|phospholipid efflux|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle assembly	chylomicron|intermediate-density lipoprotein particle|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	high-density lipoprotein particle receptor binding|lipase inhibitor activity|phospholipid binding				0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		CCGGGTACTCCTTGTTGTTGC	0.657													11	64	---	---	---	---	PASS	G	116701317	G	G	116701317	3	3	164	1	0	0	0	0	1	0	0	0	799	681	24	4	21	4	APOC3	11	116701317	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	2844463	116701317	18305199	150	58818										
MLL	4297	broad.mit.edu	37	chr11	118376731	118376731	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	caacccaaggttgcttggtaCcccagatattggctcaataa	8	11	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:118376731C>G	uc001pta.2	+	27	10138	c.10115C>G	c.(10114-10116)ACC>AGC	p.T3372S	MLL_uc001ptb.2_Missense_Mutation_p.T3375S	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3372					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TTGCTTGGTACCCCAGATATT	0.483			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								42	470	---	---	---	---	PASS	G	118376731	G	G	118376731	3	3	164	1	0	0	0	0	1	0	0	0	9620	507	18	4	10221	4	MLL	11	118376731	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	1675414	118376731	16629785	151	58819										
TECTA	7007	broad.mit.edu	37	chr11	121028662	121028662	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agacgaggagtgtgcgctgcGcaacggggtgcgcggctgct	19	10	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr11:121028662G>A	uc010rzo.1	+	13	4418	c.4418G>A	c.(4417-4419)CGC>CAC	p.R1473H		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1473					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TGTGCGCTGCGCAACGGGGTG	0.667													15	78	---	---	---	---	PASS	A	121028662	A	A	121028662	3	1	164	1	0	0	0	0	1	0	0	0	15744	1087	38	1	4468	1	TECTA	11	121028662	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	2651931	121028662	13977854	152	58820										
CLEC9A	283420	broad.mit.edu	37	chr12	10215734	10215734	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tctctgaaatttggagcattTggcacaccagtcaagagaat	9	8	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:10215734T>A	uc001qxa.2	+	7	1013	c.400T>A	c.(400-402)TGG>AGG	p.W134R		NM_207345	NP_997228	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	134	Extracellular (Potential).|C-type lectin.				positive regulation of cytokine secretion|receptor-mediated endocytosis	cell surface|integral to membrane	receptor activity|sugar binding			ovary(1)	1						TTGGAGCATTTGGCACACCAG	0.368													23	233	---	---	---	---	PASS	A	10215734	A	A	10215734	3	1	164	1	0	0	0	0	1	0	0	0	3522	1812	63	5	414	5	CLEC9A	12	10215734	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08		10215734	123636161	153	58821										
PRB4	5545	broad.mit.edu	37	chr12	11461259	11461259	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cccctggggctttccagcagGaggtgcctgaggctgctggg	17	12	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:11461259G>T	uc001qzf.1	-	3	692	c.658C>A	c.(658-660)CCT>ACT	p.P220T	PRB4_uc001qzt.2_Missense_Mutation_p.P220T	NM_002723	NP_002714	P10163	PRB4_HUMAN	proline-rich protein BstNI subfamily 4	283						extracellular region				ovary(1)	1						TTTCCAGCAGGAGGTGCCTGA	0.632										HNSCC(22;0.051)			82	201	---	---	---	---	PASS	T	11461259	T	T	11461259	3	4	164	1	0	0	0	0	1	0	0	0	12445	1174	41	2	89	2	PRB4	12	11461259	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	1245525	11461259	122390636	154	58822										
PRB4	5545	broad.mit.edu	37	chr12	11461447	11461447	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cttctggctttcctggatgaGgtgggggaccttgggactgg	17	8	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:11461447G>A	uc001qzf.1	-	3	504	c.470C>T	c.(469-471)CCT>CTT	p.P157L	PRB4_uc001qzt.2_Missense_Mutation_p.P157L	NM_002723	NP_002714	P10163	PRB4_HUMAN	proline-rich protein BstNI subfamily 4	220	9.5 X 21 AA tandem repeats of K-P-[EQ]- [GR]-[PR]-[PR]-P-Q-G-G-N-Q-[PS]-[QH]- [RG]-[PT]-P-P-[PH]-P-G.|9.					extracellular region				ovary(1)	1						TCCTGGATGAGGTGGGGGACC	0.602										HNSCC(22;0.051)			167	501	---	---	---	---	PASS	A	11461447	A	A	11461447	3	1	164	1	0	0	0	0	1	0	0	0	12445	1000	35	3	277	3	PRB4	12	11461447	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	188	11461447	122390448	155	58823										
SLCO1C1	53919	broad.mit.edu	37	chr12	20893186	20893186	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aattcctcaggcatagtgggAagatgtcagaaagacaatgg	12	6	2	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:20893186A>G	uc001rej.3	+	13	1972	c.1617A>G	c.(1615-1617)GGA>GGG	p.G539G	SLCO1C1_uc010sii.1_Silent_p.G539G|SLCO1C1_uc010sij.1_Silent_p.G490G|SLCO1C1_uc009zip.2_Silent_p.G373G|SLCO1C1_uc001rei.2_Silent_p.G539G|SLCO1C1_uc010sik.1_Silent_p.G421G	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	539	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					GCATAGTGGGAAGATGTCAGA	0.393													72	186	---	---	---	---	PASS	G	20893186	G	G	20893186	2	3	164	1	0	0	0	0	0	0	0	1	14725	233	9	5		5	SLCO1C1	12	20893186	Silent	SNP	A	TCGA-66-2786-01A-01D-1522-08	9431739	20893186	112958709	156	58824										
TM7SF3	51768	broad.mit.edu	37	chr12	27143425	27143425	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcctgcctcaaagctgcaagCgtatgtgtgagcaggaatgt	12	9	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:27143425C>T	uc010sjl.1	-	6	1064	c.826G>A	c.(826-828)GCT>ACT	p.A276T		NM_016551	NP_057635	Q9NS93	TM7S3_HUMAN	transmembrane 7 superfamily member 3 precursor	276						integral to membrane|plasma membrane				upper_aerodigestive_tract(2)	2	Colorectal(261;0.0847)					AAGCTGCAAGCGTATGTGTGA	0.458													50	116	---	---	---	---	PASS	T	27143425	T	T	27143425	3	4	164	1	0	0	0	0	1	0	0	0	15972	768	27	1	914	1	TM7SF3	12	27143425	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	6250239	27143425	106708470	157	58825										
C12orf41	54934	broad.mit.edu	37	chr12	49075195	49075195	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tctctggctttggggcagcaTtgggacatctttttccattc	10	10	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:49075195T>C	uc001rrx.2	-	2	296	c.221A>G	c.(220-222)AAT>AGT	p.N74S	C12orf41_uc001rrw.2_5'Flank|C12orf41_uc001rrz.2_Missense_Mutation_p.N257S|C12orf41_uc001rry.2_RNA	NM_017822	NP_060292	Q9H9L4	CL041_HUMAN	hypothetical protein LOC54934	74										ovary(2)	2						TGGGGCAGCATTGGGACATCT	0.418													27	74	---	---	---	---	PASS	C	49075195	C	C	49075195	3	2	164	1	0	0	0	0	1	0	0	0	1687	1493	52	5	1293	5	C12orf41	12	49075195	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	21931770	49075195	84776700	158	58826										
KRT8	3856	broad.mit.edu	37	chr12	53298547	53298547	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	acctccaggacaagggggctCagcaggctctggttgaccgt	14	12	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:53298547C>T	uc001sbd.2	-	1	322	c.219G>A	c.(217-219)CTG>CTA	p.L73L	KRT8_uc009zmj.2_Silent_p.L73L|KRT8_uc009zmk.1_Silent_p.L101L|KRT8_uc009zml.1_Silent_p.L73L|KRT8_uc009zmm.1_Silent_p.L73L	NM_002273	NP_002264	P05787	K2C8_HUMAN	keratin 8	73	Head.				cytoskeleton organization|interspecies interaction between organisms	cytoplasm|keratin filament|nuclear matrix|nucleoplasm	protein binding|structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.108)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAAGGGGGCTCAGCAGGCTCT	0.627													10	91	---	---	---	---	PASS	T	53298547	T	T	53298547	2	4	164	1	0	0	0	0	0	0	0	1	8493	813	29	2		2	KRT8	12	53298547	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	4223352	53298547	80553348	159	58827										
EIF4B	1975	broad.mit.edu	37	chr12	53431196	53431196	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcactctggcttcacagatgCacgaaggagagagagtgaga	13	8	3	4			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:53431196C>T	uc001sbh.3	+	11	1516	c.1310C>T	c.(1309-1311)GCA>GTA	p.A437V	EIF4B_uc010snu.1_Missense_Mutation_p.A442V|EIF4B_uc010snv.1_Missense_Mutation_p.A398V|EIF4B_uc001sbi.2_Missense_Mutation_p.A189V	NM_001417	NP_001408	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	437					insulin receptor signaling pathway|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	nucleotide binding|translation initiation factor activity			breast(1)|kidney(1)	2						TTCACAGATGCACGAAGGAGA	0.448													7	33	---	---	---	---	PASS	T	53431196	T	T	53431196	3	4	164	1	0	0	0	0	1	0	0	0	5027	710	25	3	1352	3	EIF4B	12	53431196	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	132649	53431196	80420699	160	58828										
HOXC10	3226	broad.mit.edu	37	chr12	54379069	54379069	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atgccctcgcaatgtaactcCgaactcgtacgcggagccct	9	15	0	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:54379069C>T	uc001sen.2	+	1	124	c.26C>T	c.(25-27)CCG>CTG	p.P9L		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	9					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						AATGTAACTCCGAACTCGTAC	0.532													41	209	---	---	---	---	PASS	T	54379069	T	T	54379069	3	4	164	1	0	0	0	0	1	0	0	0	7309	652	23	1	28	1	HOXC10	12	54379069	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	947873	54379069	79472826	161	58829										
SMARCC2	6601	broad.mit.edu	37	chr12	56563645	56563645	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tccttcttgggagcctcgctGgttttctcttttgcttcctc	8	13	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:56563645G>C	uc001skb.2	-	23	2476	c.2370C>G	c.(2368-2370)ACC>ACG	p.T790T	SMARCC2_uc001skd.2_Silent_p.T821T|SMARCC2_uc001ska.2_Silent_p.T821T|SMARCC2_uc001skc.2_Silent_p.T820T|SMARCC2_uc010sqf.1_Silent_p.T710T	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	790	Glu-rich.				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)			GAGCCTCGCTGGTTTTCTCTT	0.498													47	130	---	---	---	---	PASS	C	56563645	C	C	56563645	2	2	164	1	0	0	0	0	0	0	0	1	14776	1335	47	4		4	SMARCC2	12	56563645	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	2184576	56563645	77288250	162	58830										
MYF5	4617	broad.mit.edu	37	chr12	81111152	81111152	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agaaggtcaaccaggctttcGaaaccctcaagaggtgtacc	10	11	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:81111152G>A	uc001szg.2	+	1	445	c.310G>A	c.(310-312)GAA>AAA	p.E104K		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	104	Helix-loop-helix motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						CCAGGCTTTCGAAACCCTCAA	0.597													8	107	---	---	---	---	PASS	A	81111152	A	A	81111152	3	1	164	1	0	0	0	0	1	0	0	0	10027	1059	37	2	312	2	MYF5	12	81111152	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	24547507	81111152	52740743	163	58831										
PPFIA2	8499	broad.mit.edu	37	chr12	81688753	81688753	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cagataaagcagacatgatgGcaccactcttcacgttggct	9	11	2	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:81688753G>A	uc001szo.1	-	24	2947	c.2786C>T	c.(2785-2787)GCC>GTC	p.A929V	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	855										ovary(3)|lung(2)|pancreas(1)	6						AGACATGATGGCACCACTCTT	0.438													15	26	---	---	---	---	PASS	A	81688753	A	A	81688753	3	1	164	1	0	0	0	0	1	0	0	0	12310	1203	42	3	1023	3	PPFIA2	12	81688753	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	577601	81688753	52163142	164	58832										
ANKS1B	56899	broad.mit.edu	37	chr12	99145241	99145241	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ccttttcttgcttgtagtgcTagctggtaagcgacttcgaa	10	9	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:99145241T>A	uc001tge.1	-	25	3981	c.3564A>T	c.(3562-3564)CTA>CTT	p.L1188L	ANKS1B_uc001tgf.1_Silent_p.L704L|ANKS1B_uc001tgk.2_Silent_p.L485L|ANKS1B_uc010svd.1_Silent_p.L194L|ANKS1B_uc001tgd.1_Silent_p.L354L|ANKS1B_uc009ztq.2_Silent_p.L90L|ANKS1B_uc010sve.1_Silent_p.L218L|ANKS1B_uc001tgh.3_Silent_p.L194L|ANKS1B_uc001tgi.2_Silent_p.L438L|ANKS1B_uc009ztr.2_Silent_p.L378L|ANKS1B_uc001tgj.2_Silent_p.L354L|ANKS1B_uc009ztp.2_Silent_p.L219L|ANKS1B_uc010svf.1_Silent_p.L218L|ANKS1B_uc001tgg.3_Silent_p.L286L|ANKS1B_uc010svg.1_Silent_p.L323L|ANKS1B_uc009zts.1_Silent_p.L414L	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	1188	PID.					Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		CTTGTAGTGCTAGCTGGTAAG	0.483													61	179	---	---	---	---	PASS	A	99145241	A	A	99145241	2	1	164	1	0	0	0	0	0	0	0	1	689	1509	53	5		5	ANKS1B	12	99145241	Silent	SNP	T	TCGA-66-2786-01A-01D-1522-08	17456488	99145241	34706654	165	58833										
STAB2	55576	broad.mit.edu	37	chr12	104077060	104077060	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	acttcatgcttggaacaaacCgggaaatgtcatccattggt	9	9	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:104077060C>A	uc001tjw.2	+	26	3069	c.2883C>A	c.(2881-2883)ACC>ACA	p.T961T		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	961	Extracellular (Potential).|EGF-like 10.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						TGGAACAAACCGGGAAATGTC	0.333													31	108	---	---	---	---	PASS	A	104077060	A	A	104077060	2	1	164	1	0	0	0	0	0	0	0	1	15237	639	23	1		1	STAB2	12	104077060	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	4931819	104077060	29774835	166	58834										
WSCD2	9671	broad.mit.edu	37	chr12	108642091	108642091	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcaaagggcggaacctaacgGgtgtccccgatgactactac	11	12	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:108642091G>C	uc001tms.2	+	9	2413	c.1669G>C	c.(1669-1671)GGT>CGT	p.G557R	WSCD2_uc001tmt.2_Missense_Mutation_p.G557R|WSCD2_uc001tmu.2_Missense_Mutation_p.G325R	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	557						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						GAACCTAACGGGTGTCCCCGA	0.587													20	51	---	---	---	---	PASS	C	108642091	C	C	108642091	3	2	164	1	0	0	0	0	1	0	0	0	17404	1232	43	4	1699	4	WSCD2	12	108642091	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	4565031	108642091	25209804	167	58835										
TMEM132B	114795	broad.mit.edu	37	chr12	126128791	126128791	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agacaccgagctgagccagaTcaagggctggaggatcccgg	15	11	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:126128791T>C	uc001uhe.1	+	6	1600	c.1592T>C	c.(1591-1593)ATC>ACC	p.I531T	TMEM132B_uc001uhf.1_Missense_Mutation_p.I43T	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	531	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		CTGAGCCAGATCAAGGGCTGG	0.567													20	60	---	---	---	---	PASS	C	126128791	C	C	126128791	3	2	164	1	0	0	0	0	1	0	0	0	16043	1435	50	5	1614	5	TMEM132B	12	126128791	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	17486700	126128791	7723104	168	58836										
PIWIL1	9271	broad.mit.edu	37	chr12	130840130	130840130	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcaaagggagcttcgagactGgggtttgagctttgattcca	13	7	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:130840130G>A	uc001uik.2	+	12	1412	c.1322G>A	c.(1321-1323)TGG>TAG	p.W441*	PIWIL1_uc001uij.1_Nonsense_Mutation_p.W441*	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	441					gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		CTTCGAGACTGGGGTTTGAGC	0.378													34	385	---	---	---	---	PASS	A	130840130	A	A	130840130	4	1	164	1	0	0	0	0	0	1	0	0	11957	1357	47	3	1364	3	PIWIL1	12	130840130	Nonsense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	4711339	130840130	3011765	169	58837										
GOLGA3	2802	broad.mit.edu	37	chr12	133393317	133393317	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gagggtctgggaagggtggcGttggcccgttctgacagagg	20	7	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr12:133393317G>A	uc001ukz.1	-	3	774	c.215C>T	c.(214-216)ACG>ATG	p.T72M	GOLGA3_uc001ula.1_Missense_Mutation_p.T72M|GOLGA3_uc001ulb.2_Missense_Mutation_p.T72M	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	72	Pro-rich.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GAAGGGTGGCGTTGGCCCGTT	0.622													36	73	---	---	---	---	PASS	A	133393317	A	A	133393317	3	1	164	1	0	0	0	0	1	0	0	0	6554	1145	40	1	4507	1	GOLGA3	12	133393317	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	2553187	133393317	458578	170	58838										
NALCN	259232	broad.mit.edu	37	chr13	101753188	101753188	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cagttttccagcaaaaagctGaactccaaagcttgcaaaaa	6	10	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr13:101753188G>A	uc001vox.1	-	27	3298	c.3109C>T	c.(3109-3111)CAG>TAG	p.Q1037*		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1037	Extracellular (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GCAAAAAGCTGAACTCCAAAG	0.308													4	63	---	---	---	---	PASS	A	101753188	A	A	101753188	4	1	164	1	0	0	0	0	0	1	0	0	10148	1299	45	2	2179	2	NALCN	13	101753188	Nonsense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08		101753188	13416690	171	58839										
CHD8	57680	broad.mit.edu	37	chr14	21868389	21868389	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gttatatttccggatccaatCtgccttatggatatcaaaag	7	8	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr14:21868389C>T	uc001was.1	-	24	3905	c.3811G>A	c.(3811-3813)GAT>AAT	p.D1271N	CHD8_uc001war.1_Missense_Mutation_p.D1167N|SNORD8_uc001wau.1_5'Flank	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	1550					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		CGGATCCAATCTGCCTTATGG	0.403													59	121	---	---	---	---	PASS	T	21868389	T	T	21868389	3	4	164	1	0	0	0	0	1	0	0	0	3331	913	32	2	3157	2	CHD8	14	21868389	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08		21868389	85481151	172	58840										
CTAGE5	4253	broad.mit.edu	37	chr14	39772705	39772705	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atcctccaaaaggagctttgAagaaactgattcatgctgct	8	9	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr14:39772705A>T	uc001wvg.3	+	11	1276	c.940A>T	c.(940-942)AAG>TAG	p.K314*	CTAGE5_uc010tqe.1_Nonsense_Mutation_p.K276*|CTAGE5_uc001wuz.3_Nonsense_Mutation_p.K302*|CTAGE5_uc001wuy.3_Nonsense_Mutation_p.K234*|CTAGE5_uc001wvb.3_Nonsense_Mutation_p.K285*|CTAGE5_uc001wvc.3_Nonsense_Mutation_p.K259*|CTAGE5_uc001wva.3_Nonsense_Mutation_p.K285*|CTAGE5_uc001wve.1_Nonsense_Mutation_p.K290*|CTAGE5_uc001wvh.3_Nonsense_Mutation_p.K314*|CTAGE5_uc001wvf.3_Nonsense_Mutation_p.K239*|CTAGE5_uc001wvi.3_Nonsense_Mutation_p.K319*|CTAGE5_uc010amz.2_5'UTR|CTAGE5_uc001wvj.3_Nonsense_Mutation_p.K285*	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	314							enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		AGGAGCTTTGAAGAAACTGAT	0.328													53	87	---	---	---	---	PASS	T	39772705	T	T	39772705	4	4	164	1	0	0	0	0	0	1	0	0	3994	247	9	5	1013	5	CTAGE5	14	39772705	Nonsense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	17904316	39772705	67576835	173	58841										
EXD2	55218	broad.mit.edu	37	chr14	69704332	69704332	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agtaccggaagcacttccccAtcgagatgaaggaccacaac	9	13	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr14:69704332A>T	uc001xkt.2	+	10	1617	c.958A>T	c.(958-960)ATC>TTC	p.I320F	EXD2_uc001xku.2_Missense_Mutation_p.I190F|EXD2_uc001xkv.2_Missense_Mutation_p.I445F|EXD2_uc001xkw.2_Missense_Mutation_p.I320F|EXD2_uc010aqt.2_Missense_Mutation_p.I445F|EXD2_uc010tte.1_Missense_Mutation_p.I445F|EXD2_uc001xky.2_Missense_Mutation_p.I320F	NM_018199	NP_060669	Q9NVH0	EXD2_HUMAN	exonuclease 3'-5' domain containing 2	320					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						GCACTTCCCCATCGAGATGAA	0.532													24	36	---	---	---	---	PASS	T	69704332	T	T	69704332	3	4	164	1	0	0	0	0	1	0	0	0	5298	217	8	5	980	5	EXD2	14	69704332	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	29931627	69704332	37645208	174	58842										
RYR3	6263	broad.mit.edu	37	chr15	34064318	34064318	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ccccatcctgacgtccatctTtgagcacgtcactcagcatc	6	17	3	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:34064318T>C	uc001zhi.2	+	63	9084	c.9014T>C	c.(9013-9015)TTT>TCT	p.F3005S	RYR3_uc010bar.2_Missense_Mutation_p.F3005S	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3005	Helical; Name=M'; (Potential).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		ACGTCCATCTTTGAGCACGTC	0.478													8	44	---	---	---	---	PASS	C	34064318	C	C	34064318	3	2	164	1	0	0	0	0	1	0	0	0	13770	1841	64	5	9264	5	RYR3	15	34064318	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08		34064318	68467074	175	58843										
TYRO3	7301	broad.mit.edu	37	chr15	41853468	41853468	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tccagaacttggaccagttgTacatcccagtcagcgagcag	10	12	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:41853468T>C	uc001zof.1	+	2	492	c.268T>C	c.(268-270)TAC>CAC	p.Y90H	TYRO3_uc001zoe.2_Missense_Mutation_p.Y90H	NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	90	Extracellular (Potential).|Ig-like C2-type 1.					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GGACCAGTTGTACATCCCAGT	0.622													10	77	---	---	---	---	PASS	C	41853468	C	C	41853468	3	2	164	1	0	0	0	0	1	0	0	0	16811	1638	57	5	274	5	TYRO3	15	41853468	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	7789150	41853468	60677924	176	58844										
MAP1A	4130	broad.mit.edu	37	chr15	43822398	43822398	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtgatgcaggatgagtccttCcctgcctgcaagattgagtt	12	9	0	4			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:43822398C>T	uc001zrt.2	+	6	8855	c.8388C>T	c.(8386-8388)TTC>TTT	p.F2796F		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	2796						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	ATGAGTCCTTCCCTGCCTGCA	0.552													12	149	---	---	---	---	PASS	T	43822398	T	T	43822398	2	4	164	1	0	0	0	0	0	0	0	1	9227	854	30	2		2	MAP1A	15	43822398	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	1968930	43822398	58708994	177	58845										
GALK2	2585	broad.mit.edu	37	chr15	49493405	49493405	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	actccaagtttggatctattCccaagttttatgttcgagca	7	9	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:49493405C>A	uc001zxj.1	+	2	198	c.100C>A	c.(100-102)CCC>ACC	p.P34T	GALK2_uc001zxi.1_Missense_Mutation_p.P23T|GALK2_uc010ufb.1_Missense_Mutation_p.P10T|GALK2_uc001zxk.2_RNA|GALK2_uc010ufc.1_Missense_Mutation_p.P10T	NM_002044	NP_002035	Q01415	GALK2_HUMAN	galactokinase 2 isoform 1	34					galactose metabolic process	cytoplasm	ATP binding|galactokinase activity|N-acetylgalactosamine kinase activity			breast(1)	1		all_lung(180;0.000325)		all cancers(107;3.71e-08)|GBM - Glioblastoma multiforme(94;7e-05)		TGGATCTATTCCCAAGTTTTA	0.303													24	75	---	---	---	---	PASS	A	49493405	A	A	49493405	3	1	164	1	0	0	0	0	1	0	0	0	6204	855	30	2	130	2	GALK2	15	49493405	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	5671007	49493405	53037987	178	58846										
ONECUT1	3175	broad.mit.edu	37	chr15	53081523	53081523	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggagttgtggatgctgcccaGaccggagctggagaggggcg	20	8	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:53081523G>A	uc002aci.1	-	1	687	c.559C>T	c.(559-561)CTG>TTG	p.L187L		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	187					endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		ATGCTGCCCAGACCGGAGCTG	0.662													25	71	---	---	---	---	PASS	A	53081523	A	A	53081523	2	1	164	1	0	0	0	0	0	0	0	1	10868	933	33	2		2	ONECUT1	15	53081523	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	3588118	53081523	49449869	179	58847										
WDR72	256764	broad.mit.edu	37	chr15	54007474	54007474	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aaaactgtgaacaacagccaAagttttggcatcaattataa	6	7	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:54007474A>T	uc002acj.2	-	5	472	c.430T>A	c.(430-432)TTG>ATG	p.L144M	WDR72_uc010bfi.1_Missense_Mutation_p.L144M	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	144										lung(1)|skin(1)	2				all cancers(107;0.0511)		ACAACAGCCAAAGTTTTGGCA	0.398													18	104	---	---	---	---	PASS	T	54007474	T	T	54007474	3	4	164	1	0	0	0	0	1	0	0	0	17319	11	1	5	2942	5	WDR72	15	54007474	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	925951	54007474	48523918	180	58848										
NEDD4	4734	broad.mit.edu	37	chr15	56144621	56144621	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agttgatagattacaggataCctgtacagtgggctttgtcc	11	7	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:56144621C>T	uc002adj.2	-	9	2703	c.2403_splice	c.e9+1	p.Q801_splice	NEDD4_uc002adl.2_Splice_Site_p.Q382_splice|NEDD4_uc002adi.2_Splice_Site_p.Q729_splice|NEDD4_uc010ugj.1_Splice_Site_p.Q785_splice|NEDD4_uc010bfm.2_Splice_Site_p.Q784_splice|NEDD4_uc002adk.2_Splice_Site	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally						development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		TTACAGGATACCTGTACAGTG	0.373													40	128	---	---	---	---	PASS	T	56144621	T	T	56144621	5	4	164	1	0	0	0	0	0	0	1	0	10310	521	18	3	1623	3	NEDD4	15	56144621	Splice_Site	SNP	C	TCGA-66-2786-01A-01D-1522-08	2137147	56144621	46386771	181	58849										
LDHAL6B	92483	broad.mit.edu	37	chr15	59499577	59499577	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ctagtgattatcacagcaggTgcacgccaagaaaagggaga	12	8	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:59499577T>A	uc002agb.2	+	1	536	c.438T>A	c.(436-438)GGT>GGA	p.G146G	MYO1E_uc002aga.2_Intron	NM_033195	NP_149972	Q9BYZ2	LDH6B_HUMAN	lactate dehydrogenase A-like 6B	146					glycolysis	cytoplasm	L-lactate dehydrogenase activity|protein binding				0					NADH(DB00157)	TCACAGCAGGTGCACGCCAAG	0.433													93	223	---	---	---	---	PASS	A	59499577	A	A	59499577	2	1	164	1	0	0	0	0	0	0	0	1	8700	1683	59	5		5	LDHAL6B	15	59499577	Silent	SNP	T	TCGA-66-2786-01A-01D-1522-08	3354956	59499577	43031815	182	58850										
TPM1	7168	broad.mit.edu	37	chr15	63353941	63353941	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cgagcttgaagaagaattgaAaactgtgacgaacaacttga	10	6	0	6			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:63353941A>G	uc002alg.2	+	6	784	c.593A>G	c.(592-594)AAA>AGA	p.K198R	TPM1_uc002alh.2_Intron|TPM1_uc010bgn.2_Intron|TPM1_uc002ali.2_Missense_Mutation_p.K198R|TPM1_uc002alj.2_Missense_Mutation_p.K198R|TPM1_uc002alk.2_Intron|TPM1_uc002all.2_Intron|TPM1_uc002alm.2_Missense_Mutation_p.K240R|TPM1_uc010uie.1_Missense_Mutation_p.K198R|TPM1_uc002alp.2_Missense_Mutation_p.K198R|TPM1_uc010uif.1_Intron|TPM1_uc002alr.2_Intron|TPM1_uc002als.2_Missense_Mutation_p.K162R|TPM1_uc010uig.1_Missense_Mutation_p.K162R|TPM1_uc002alt.2_Intron|TPM1_uc010bgp.2_Intron	NM_001018005	NP_001018005	P09493	TPM1_HUMAN	tropomyosin 1 alpha chain isoform 1	198	By similarity.				cardiac muscle contraction|cellular component movement|cellular response to reactive oxygen species|muscle filament sliding|negative regulation of cell migration|positive regulation of ATPase activity|positive regulation of cell adhesion|positive regulation of heart rate by epinephrine|positive regulation of stress fiber assembly|regulation of muscle contraction|ruffle organization|sarcomere organization|ventricular cardiac muscle tissue morphogenesis|wound healing	bleb|cytosol|muscle thin filament tropomyosin|ruffle membrane|stress fiber	actin binding|structural constituent of cytoskeleton|structural constituent of muscle				0						GAAGAATTGAAAACTGTGACG	0.488													8	99	---	---	---	---	PASS	G	63353941	G	G	63353941	3	3	164	1	0	0	0	0	1	0	0	0	16402	14	1	5	961	5	TPM1	15	63353941	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	3854364	63353941	39177451	183	58851										
TLE3	7090	broad.mit.edu	37	chr15	70342518	70342518	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	catccgctgaaatgtcacaaCtcaagacagacgaggattct	8	11	3	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:70342518C>G	uc002asm.2	-	20	3356	c.2237G>C	c.(2236-2238)AGT>ACT	p.S746T	TLE3_uc002ask.2_Missense_Mutation_p.S673T|TLE3_uc002asl.2_Missense_Mutation_p.S746T|TLE3_uc010ukd.1_Missense_Mutation_p.S736T|TLE3_uc010bik.1_Missense_Mutation_p.S327T|TLE3_uc010bil.1_Missense_Mutation_p.S743T|TLE3_uc002asn.2_Missense_Mutation_p.S734T|TLE3_uc002asp.2_Missense_Mutation_p.S738T|TLE3_uc002aso.2_Missense_Mutation_p.S741T	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	746	WD 7.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						AATGTCACAACTCAAGACAGA	0.473													5	263	---	---	---	---	PASS	G	70342518	G	G	70342518	3	3	164	1	0	0	0	0	1	0	0	0	15937	565	20	4	85	4	TLE3	15	70342518	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	6988577	70342518	32188874	184	58852										
PKM2	5315	broad.mit.edu	37	chr15	72509778	72509778	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttccatgagagaagttcagaCgagccacattcattccagac	8	11	2	4			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:72509778C>T	uc002atx.1	-	3	459	c.218G>A	c.(217-219)CGT>CAT	p.R73H	PKM2_uc010bit.1_Missense_Mutation_p.R78H|PKM2_uc010uki.1_Missense_Mutation_p.R147H|PKM2_uc002atv.1_Missense_Mutation_p.R108H|PKM2_uc002atw.1_Missense_Mutation_p.R73H|PKM2_uc002aty.1_Missense_Mutation_p.R73H|PKM2_uc010ukj.1_Intron|PKM2_uc010ukk.1_Intron|PKM2_uc010biu.1_Missense_Mutation_p.R94H|PKM2_uc002atz.1_RNA	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	73		Substrate (By similarity).			glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	GAAGTTCAGACGAGCCACATT	0.473													20	56	---	---	---	---	PASS	T	72509778	T	T	72509778	3	4	164	1	0	0	0	0	1	0	0	0	11977	536	19	1	1584	1	PKM2	15	72509778	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	2167260	72509778	30021614	185	58853										
CHRNB4	1143	broad.mit.edu	37	chr15	78922133	78922133	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtggtcataggtccaggagcGgaacttgagggtgcagttct	16	7	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:78922133G>A	uc002bed.1	-	5	626	c.514C>T	c.(514-516)CGC>TGC	p.R172C	CHRNB4_uc002bee.1_Intron|CHRNB4_uc010blh.1_5'UTR	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	172	Extracellular (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						GTCCAGGAGCGGAACTTGAGG	0.572													31	89	---	---	---	---	PASS	A	78922133	A	A	78922133	3	1	164	1	0	0	0	0	1	0	0	0	3393	1116	39	1	990	1	CHRNB4	15	78922133	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	6412355	78922133	23609259	186	58854										
AGBL1	123624	broad.mit.edu	37	chr15	86838602	86838602	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttggtgaccatcacggccatGcctgagtccaacagtgatga	11	11	1	4			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:86838602G>T	uc002blz.1	+	16	2279	c.2199G>T	c.(2197-2199)ATG>ATT	p.M733I	AGBL1_uc002bma.1_Missense_Mutation_p.M464I|AGBL1_uc002bmb.1_Missense_Mutation_p.M427I	NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	733					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						TCACGGCCATGCCTGAGTCCA	0.493													51	128	---	---	---	---	PASS	T	86838602	T	T	86838602	3	4	164	1	0	0	0	0	1	0	0	0	375	1319	46	3	2257	3	AGBL1	15	86838602	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	7916469	86838602	15692790	187	58855										
NTRK3	4916	broad.mit.edu	37	chr15	88679149	88679149	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cagtagacagtgagggcaacActggcattgctcatgcccac	11	12	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:88679149A>C	uc002bme.1	-	8	1050	c.888T>G	c.(886-888)AGT>AGG	p.S296R	NTRK3_uc002bmh.2_Missense_Mutation_p.S296R|NTRK3_uc002bmf.1_Missense_Mutation_p.S296R|NTRK3_uc010upl.1_Missense_Mutation_p.S198R|NTRK3_uc010bnh.1_Missense_Mutation_p.S296R|NTRK3_uc002bmg.2_Missense_Mutation_p.S296R	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	296	Ig-like C2-type 1.|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)			TGAGGGCAACACTGGCATTGC	0.542			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			30	66	---	---	---	---	PASS	C	88679149	C	C	88679149	3	2	164	1	0	0	0	0	1	0	0	0	10708	156	6	5	1941	5	NTRK3	15	88679149	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	1840547	88679149	13852243	188	58856										
C15orf42	90381	broad.mit.edu	37	chr15	90145164	90145164	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgtcaggcagccctgaatctGatgaactgcaggaacttcgt	11	10	2	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr15:90145164G>A	uc002boe.2	+	12	2524	c.2524G>A	c.(2524-2526)GAT>AAT	p.D842N		NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	842					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			CCCTGAATCTGATGAACTGCA	0.408													52	96	---	---	---	---	PASS	A	90145164	A	A	90145164	3	1	164	1	0	0	0	0	1	0	0	0	1796	1290	45	2	2570	2	C15orf42	15	90145164	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	1466015	90145164	12386228	189	58857										
SOLH	6650	broad.mit.edu	37	chr16	603040	603040	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atagcgtgccacccctgcacAggtgcgcccccgcccctgcc	10	21	0	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr16:603040A>T	uc002chi.2	+	13	3445	c.3082A>T	c.(3082-3084)AGG>TGG	p.R1028W	SOLH_uc002chj.2_Missense_Mutation_p.R88W	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	1028					proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				ACCCCTGCACAGGTGcgcccc	0.333													4	15	---	---	---	---	PASS	T	603040	T	T	603040	3	4	164	1	0	0	0	0	1	0	0	0	14925	202	7	5	3120	5	SOLH	16	603040	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08		603040	89751713	190	58858										
HS3ST4	9951	broad.mit.edu	37	chr16	26147055	26147055	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggacatcaaactgattgtggTggtgagaaaccccgtgacca	12	9	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr16:26147055T>C	uc002dof.2	+	2	1249	c.857T>C	c.(856-858)GTG>GCG	p.V286A		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	286	Lumenal (Potential).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		CTGATTGTGGTGGTGAGAAAC	0.512													34	120	---	---	---	---	PASS	C	26147055	C	C	26147055	3	2	164	1	0	0	0	0	1	0	0	0	7367	1696	59	5	863	5	HS3ST4	16	26147055	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	25544015	26147055	64207698	191	58859										
ABCC12	94160	broad.mit.edu	37	chr16	48172191	48172191	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcatacattttgatcagcctGatgcaggtcagaaactcatt	8	9	3	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr16:48172191G>C	uc002efc.1	-	6	1273	c.927C>G	c.(925-927)ATC>ATG	p.I309M	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.I309M|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	309	ABC transmembrane type-1 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TGATCAGCCTGATGCAGGTCA	0.418													68	139	---	---	---	---	PASS	C	48172191	C	C	48172191	3	2	164	1	0	0	0	0	1	0	0	0	52	1280	45	2	3248	2	ABCC12	16	48172191	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	22025136	48172191	42182562	192	58860										
CTCF	10664	broad.mit.edu	37	chr16	67662443	67662443	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgttctaagtgtgggaaaacAtttacacgtcgggtaagggt	13	5	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr16:67662443A>G	uc002etl.2	+	9	1979	c.1689A>G	c.(1687-1689)ACA>ACG	p.T563T	CTCF_uc010cek.2_Silent_p.T235T|CTCF_uc002etm.1_Silent_p.T52T	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor	563	C2H2-type 11; atypical.				chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)		GTGGGAAAACATTTACACGTC	0.463													79	186	---	---	---	---	PASS	G	67662443	G	G	67662443	2	3	164	1	0	0	0	0	0	0	0	1	4000	204	8	5		5	CTCF	16	67662443	Silent	SNP	A	TCGA-66-2786-01A-01D-1522-08	19490252	67662443	22692310	193	58861										
DUS2L	54920	broad.mit.edu	37	chr16	68112719	68112719	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgcggagccagggcctccctGagggtcggctgggtgaggag	20	10	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr16:68112719G>C	uc002evi.2	+	17	1461	c.1312G>C	c.(1312-1314)GAG>CAG	p.E438Q	DUS2L_uc002evj.2_Missense_Mutation_p.E438Q|DUS2L_uc010vkk.1_Missense_Mutation_p.E403Q|DUS2L_uc010cez.2_Missense_Mutation_p.E351Q	NM_017803	NP_060273	Q9NX74	DUS2L_HUMAN	dihydrouridine synthase 2-like, SMM1 homolog	438					tRNA processing	endoplasmic reticulum	double-stranded RNA binding|flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0131)|Epithelial(162;0.0564)		GGGCCTCCCTGAGGGTCGGCT	0.632													16	47	---	---	---	---	PASS	C	68112719	C	C	68112719	3	2	164	1	0	0	0	0	1	0	0	0	4806	1291	45	2	1370	2	DUS2L	16	68112719	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	450276	68112719	22242034	194	58862										
FTSJD1	55783	broad.mit.edu	37	chr16	71319141	71319141	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ctgcagtgaccaagtgaacaGtagccatgctgcttatgaaa	10	9	0	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr16:71319141G>C	uc010cga.2	-	3	1089	c.683C>G	c.(682-684)ACT>AGT	p.T228S	FTSJD1_uc002ezy.3_Missense_Mutation_p.T228S|FTSJD1_uc002ezz.3_Missense_Mutation_p.T228S	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	228						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						CAAGTGAACAGTAGCCATGCT	0.423													10	133	---	---	---	---	PASS	C	71319141	C	C	71319141	3	2	164	1	0	0	0	0	1	0	0	0	6090	1029	36	4	1633	4	FTSJD1	16	71319141	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	3206422	71319141	19035612	195	58863										
KIAA0182	23199	broad.mit.edu	37	chr16	85694958	85694958	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggctgcatttgagcccagccGccaggcagccgtgccgctgg	15	15	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr16:85694958G>A	uc002fix.2	+	9	1921	c.1847G>A	c.(1846-1848)CGC>CAC	p.R616H	KIAA0182_uc002fiw.2_Missense_Mutation_p.R512H|KIAA0182_uc002fiy.2_Missense_Mutation_p.R543H|KIAA0182_uc002fiz.2_5'Flank|KIAA0182_uc010cho.2_5'Flank	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	616	Pro-rich.						protein binding			large_intestine(3)|ovary(1)|skin(1)	5						GAGCCCAGCCGCCAGGCAGCC	0.667													13	38	---	---	---	---	PASS	A	85694958	A	A	85694958	3	1	164	1	0	0	0	0	1	0	0	0	8159	1087	38	1	1881	1	KIAA0182	16	85694958	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	14375817	85694958	4659795	196	58864										
GEMIN4	50628	broad.mit.edu	37	chr17	649357	649357	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tctggctcaagaagagcagcCactggaatcccttggggttt	12	10	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr17:649357C>T	uc002frs.1	-	2	2045	c.1926G>A	c.(1924-1926)GTG>GTA	p.V642V		NM_015721	NP_056536	P57678	GEMI4_HUMAN	gemin 4	642					rRNA processing|spliceosomal snRNP assembly	Cajal body|cytosol|nucleolus|small nuclear ribonucleoprotein complex|spliceosomal complex	protein binding			ovary(2)|kidney(1)|skin(1)	4		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		GAAGAGCAGCCACTGGAATCC	0.483													4	117	---	---	---	---	PASS	T	649357	T	T	649357	2	4	164	1	0	0	0	0	0	0	0	1	6330	581	21	3		3	GEMIN4	17	649357	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08		649357	80545853	197	58865										
C17orf85	55421	broad.mit.edu	37	chr17	3717728	3717728	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cgaacgacggggttactactAaaagccttttccggagaatg	11	9	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr17:3717728A>G	uc010ckl.1	-	12	1538	c.1515T>C	c.(1513-1515)TTT>TTC	p.F505F	C17orf85_uc002fwr.2_Silent_p.F215F|C17orf85_uc002fwq.2_Silent_p.F225F	NM_001114118	NP_001107590	Q53F19	CQ085_HUMAN	ELG protein isoform a	505							nucleotide binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (3;0.0725)		GGTTACTACTAAAAGCCTTTT	0.498													45	66	---	---	---	---	PASS	G	3717728	G	G	3717728	2	3	164	1	0	0	0	0	0	0	0	1	1888	359	13	5		5	C17orf85	17	3717728	Silent	SNP	A	TCGA-66-2786-01A-01D-1522-08	3068371	3717728	77477482	198	58866										
POLR2A	5430	broad.mit.edu	37	chr17	7411633	7411633	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttggagaacctgccacccagAtgaccttgaataccttccac	7	14	0	4			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr17:7411633A>G	uc002ghf.3	+	20	3538	c.3304A>G	c.(3304-3306)ATG>GTG	p.M1102V		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1102					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				TGCCACCCAGATGACCTTGAA	0.542													25	39	---	---	---	---	PASS	G	7411633	G	G	7411633	3	3	164	1	0	0	0	0	1	0	0	0	12214	333	12	5	3382	5	POLR2A	17	7411633	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	3693905	7411633	73783577	199	58867										
TP53	7157	broad.mit.edu	37	chr17	7578458	7578458	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cttgtagatggccatggcgcGgacgcgggtgccgggcgggg	21	10	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr17:7578458G>C	uc002gim.2	-	5	666	c.472C>G	c.(472-474)CGC>GGC	p.R158G	TP53_uc002gig.1_Missense_Mutation_p.R158G|TP53_uc002gih.2_Missense_Mutation_p.R158G|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R26G|TP53_uc010cng.1_Missense_Mutation_p.R26G|TP53_uc002gii.1_Missense_Mutation_p.R26G|TP53_uc010cnh.1_Missense_Mutation_p.R158G|TP53_uc010cni.1_Missense_Mutation_p.R158G|TP53_uc002gij.2_Missense_Mutation_p.R158G|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R65G|TP53_uc002gio.2_Missense_Mutation_p.R26G|TP53_uc010vug.1_Missense_Mutation_p.R119G	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	158	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> F (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> Y (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.R158H(58)|p.R158L(53)|p.R158C(17)|p.R158G(10)|p.R158P(9)|p.0?(7)|p.R158R(6)|p.R158fs*12(5)|p.R158_A159insX(4)|p.R158_A159delRA(2)|p.R156_I162delRVRAMAI(2)|p.V157fs*9(2)|p.P153fs*22(2)|p.R158fs*11(2)|p.V157fs*22(2)|p.V157_C176del20(1)|p.R156_A161delRVRAMA(1)|p.V157_R158delVR(1)|p.P151_V173del23(1)|p.R158fs*24(1)|p.R156_R158delRVR(1)|p.R156fs*18(1)|p.R156_A161del(1)|p.R158_A159insXX(1)|p.V157_M160delVRAM(1)|p.R156fs*12(1)|p.R158F(1)|p.S149fs*72(1)|p.A159fs*21(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.R156fs*20(1)|p.V157_I162delVRAMAI(1)|p.V157fs*21(1)|p.R158fs*8(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)		GCCATGGCGCGGACGCGGGTG	0.622		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)			25	40	---	---	---	---	PASS	C	7578458	C	C	7578458	3	2	164	1	0	0	0	0	1	0	0	0	16378	1116	39	4	826	4	TP53	17	7578458	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	166825	7578458	73616752	200	58868										
PER1	5187	broad.mit.edu	37	chr17	8046002	8046002	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aggtgctgcccccttcatggGagcctgaaccagacccagag	12	14	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr17:8046002G>C	uc002gkd.2	-	20	3462	c.3224C>G	c.(3223-3225)TCC>TGC	p.S1075C	PER1_uc010cns.2_5'Flank|PER1_uc010vuq.1_RNA	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	1075	Ser-rich.				circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						CCCTTCATGGGAGCCTGAACC	0.667			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					31	45	---	---	---	---	PASS	C	8046002	C	C	8046002	3	2	164	1	0	0	0	0	1	0	0	0	11729	1174	41	2	664	2	PER1	17	8046002	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	467544	8046002	73149208	201	58869										
PER1	5187	broad.mit.edu	37	chr17	8051538	8051538	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agaggcagctgggtgtgtgcCgcgtagtgaaaatcctcttg	15	8	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr17:8051538C>G	uc002gkd.2	-	9	1326	c.1088G>C	c.(1087-1089)CGG>CCG	p.R363P	PER1_uc010vuq.1_RNA|PER1_uc010vur.1_Missense_Mutation_p.R347P	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	363	PAS 2.				circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						GGGTGTGTGCCGCGTAGTGAA	0.597			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					33	66	---	---	---	---	PASS	G	8051538	G	G	8051538	3	3	164	1	0	0	0	0	1	0	0	0	11729	652	23	4	2844	4	PER1	17	8051538	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	5536	8051538	73143672	202	58870										
SMCR8	140775	broad.mit.edu	37	chr17	18219655	18219655	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agagcttctgagtgcttgaaGactggcaacaggaaggcatt	13	7	1	4			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr17:18219655G>C	uc002gsy.3	+	1	1062	c.552G>C	c.(550-552)AAG>AAC	p.K184N		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	184										central_nervous_system(1)	1						AGTGCTTGAAGACTGGCAACA	0.468													6	84	---	---	---	---	PASS	C	18219655	C	C	18219655	3	2	164	1	0	0	0	0	1	0	0	0	14792	933	33	2	554	2	SMCR8	17	18219655	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	10168117	18219655	62975555	203	58871										
MYCBPAP	84073	broad.mit.edu	37	chr17	48602368	48602368	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	caccgaggaagacttgttccGgcacagaaatcctccggtga	11	12	0	3	rs149888826		TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr17:48602368G>A	uc010wmr.1	+	13	2057	c.1895G>A	c.(1894-1896)CGG>CAG	p.R632Q	MYCBPAP_uc002iqz.2_RNA	NM_032133	NP_115509	Q8TBZ2	MYBPP_HUMAN	Myc-binding protein-associated protein	595					cell differentiation|multicellular organismal development|spermatogenesis|synaptic transmission	cytoplasm|membrane	protein binding			urinary_tract(2)|skin(2)|ovary(1)|pancreas(1)	6	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;1.23e-09)			GACTTGTTCCGGCACAGAAAT	0.572													4	95	---	---	---	---	PASS	A	48602368	A	A	48602368	3	1	164	1	0	0	0	0	1	0	0	0	10019	1116	39	1	1945	1	MYCBPAP	17	48602368	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	30382713	48602368	32592842	204	58872										
PRKCA	5578	broad.mit.edu	37	chr17	64637581	64637581	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tccatcaagggatgaaatgtGacagtaagtaagttttcttt	9	5	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr17:64637581G>A	uc002jfp.1	+	4	441	c.397G>A	c.(397-399)GAC>AAC	p.D133N	PRKCA_uc002jfo.1_Missense_Mutation_p.D4N	NM_002737	NP_002728	P17252	KPCA_HUMAN	protein kinase C, alpha	133	Phorbol-ester/DAG-type 2.				activation of phospholipase C activity|energy reserve metabolic process|induction of apoptosis by extracellular signals|intracellular signal transduction|mRNA metabolic process|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of blood vessel endothelial cell migration|regulation of insulin secretion|response to interleukin-1|synaptic transmission	cytosol|endoplasmic reticulum|membrane fraction|nucleoplasm|plasma membrane	ATP binding|enzyme binding|histone kinase activity (H3-T6 specific)|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(1)|stomach(1)|lung(1)|breast(1)|ovary(1)	9			BRCA - Breast invasive adenocarcinoma(6;4.68e-09)		Phosphatidylserine(DB00144)|Vitamin E(DB00163)	GATGAAATGTGACAGTAAGTA	0.463													6	120	---	---	---	---	PASS	A	64637581	A	A	64637581	3	1	164	1	0	0	0	0	1	0	0	0	12507	1290	45	2	411	2	PRKCA	17	64637581	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	16035213	64637581	16557629	205	58873										
COLEC12	81035	broad.mit.edu	37	chr18	334892	334904	+	Frame_Shift_Del	DEL	GCTCCCCAACGGT	-	-													0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ccgaggtccaggcaccccagGctccccaacggtgccctgaa							TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr18:334892_334904delGCTCCCCAACGGT	uc002kkm.2	-	6	1869_1881	c.1654_1666delACCGTTGGGGAGC	c.(1654-1668)ACCGTTGGGGAGCCTfs	p.T552fs		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	552_556	Collagen-like 3.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				GGCACCCCAGGCTCCCCAACGGTGCCCTGAAGT	0.737													3	5	---	---	---	---		-	334904	-	-	334892	7	5	164	1	0	1	0	1	0	0	0	0	3712	1203	42	0	582	0	COLEC12	18	334892	Frame_Shift_Del	DEL	GCTCCCCAACGGT	TCGA-66-2786-01A-01D-1522-08		334892	77742356	206	58874										
CTAGE1	64693	broad.mit.edu	37	chr18	19997382	19997382	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tccgccatcaattcattttgTtcagaatgtttagatttctc	5	9	4	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr18:19997382T>G	uc002ktv.1	-	1	497	c.393A>C	c.(391-393)GAA>GAC	p.E131D		NM_172241	NP_758441	Q96RT6	CTGE2_HUMAN	cutaneous T-cell lymphoma-associated antigen 1	131	Potential.					integral to membrane				ovary(1)	1	all_cancers(21;0.000361)|all_epithelial(16;9.61e-06)|Colorectal(14;0.0533)|Lung NSC(20;0.0605)|Ovarian(2;0.116)|all_lung(20;0.135)					ATTCATTTTGTTCAGAATGTT	0.373													11	323	---	---	---	---	PASS	G	19997382	G	G	19997382	3	3	164	1	0	0	0	0	1	0	0	0	3992	1722	60	5	1848	5	CTAGE1	18	19997382	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	19662490	19997382	58079866	207	58875										
MEP1B	4225	broad.mit.edu	37	chr18	29800198	29800198	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttctttccccttttagcagcAtgctttttgaagattaactc	5	10	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr18:29800198A>G	uc002kxj.3	+	15	2143	c.2096A>G	c.(2095-2097)CAT>CGT	p.H699R		NM_005925	NP_005916	Q16820	MEP1B_HUMAN	meprin A beta precursor	699	Cytoplasmic (Potential).				digestion|proteolysis	extracellular space|integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)	2						TTTTAGCAGCATGCTTTTTGA	0.303													9	19	---	---	---	---	PASS	G	29800198	G	G	29800198	3	3	164	1	0	0	0	0	1	0	0	0	9476	217	8	5	2154	5	MEP1B	18	29800198	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	9802816	29800198	48277050	208	58876										
WDR7	23335	broad.mit.edu	37	chr18	54398814	54398814	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	caactaacctcttggcttctGaggcatctgacaaggtaagt	9	10	3	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr18:54398814G>C	uc002lgk.1	+	14	2186	c.1975G>C	c.(1975-1977)GAG>CAG	p.E659Q	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.E659Q	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	659										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		CTTGGCTTCTGAGGCATCTGA	0.398													14	181	---	---	---	---	PASS	C	54398814	C	C	54398814	3	2	164	1	0	0	0	0	1	0	0	0	17317	1291	45	2	2025	2	WDR7	18	54398814	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	24598616	54398814	23678434	209	58877										
TMX3	54495	broad.mit.edu	37	chr18	66367644	66367644	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cctttcctaataacttacccAgatactctgtgagcaaactc	4	13	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr18:66367644A>G	uc002lkf.2	-	6	525	c.390T>C	c.(388-390)TCT>TCC	p.S130S	TMX3_uc010xez.1_5'UTR|TMX3_uc010xfa.1_Intron|TMX3_uc002lkg.3_Silent_p.S130S	NM_019022	NP_061895	Q96JJ7	TMX3_HUMAN	thioredoxin domain containing 10 precursor	130	Lumenal (Potential).				cell redox homeostasis|glycerol ether metabolic process	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			skin(1)	1						TAACTTACCCAGATACTCTGT	0.244													20	211	---	---	---	---	PASS	G	66367644	G	G	66367644	2	3	164	1	0	0	0	0	0	0	0	1	16265	175	7	5		5	TMX3	18	66367644	Silent	SNP	A	TCGA-66-2786-01A-01D-1522-08	11968830	66367644	11709604	210	58878										
NETO1	81832	broad.mit.edu	37	chr18	70417473	70417473	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggctgtgtgggcatctctgtCaagatagaagcatctcttgt	12	8	3	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr18:70417473C>A	uc002lkw.2	-	9	1649	c.1365G>T	c.(1363-1365)TTG>TTT	p.L455F	NETO1_uc002lkx.1_Missense_Mutation_p.L454F|NETO1_uc002lky.1_Missense_Mutation_p.L455F	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	455	Cytoplasmic (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		GCATCTCTGTCAAGATAGAAG	0.488													24	87	---	---	---	---	PASS	A	70417473	A	A	70417473	3	1	164	1	0	0	0	0	1	0	0	0	10339	825	29	2	244	2	NETO1	18	70417473	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	4049829	70417473	7659775	211	58879										
FBXO15	201456	broad.mit.edu	37	chr18	71797764	71797764	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tttgtgatatattctttcttCcaataaccagcttctttatc	3	9	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr18:71797764C>A	uc002lle.2	-	4	570	c.234G>T	c.(232-234)TGG>TGT	p.W78C	FBXO15_uc002llf.2_Missense_Mutation_p.W154C	NM_152676	NP_689889	Q8NCQ5	FBX15_HUMAN	F-box protein 15 isoform 1	78										ovary(2)|pancreas(1)	3		Esophageal squamous(42;0.103)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.143)		ATTCTTTCTTCCAATAACCAG	0.378													5	126	---	---	---	---	PASS	A	71797764	A	A	71797764	3	1	164	1	0	0	0	0	1	0	0	0	5728	856	30	2	1098	2	FBXO15	18	71797764	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	1380291	71797764	6279484	212	58880										
ZNF407	55628	broad.mit.edu	37	chr18	72345581	72345581	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tacaaacttgactgttcacaTtagacgaaaacacagtcacc	5	11	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr18:72345581T>G	uc002llw.2	+	1	2663	c.2606T>G	c.(2605-2607)ATT>AGT	p.I869S	ZNF407_uc010xfc.1_Missense_Mutation_p.I869S|ZNF407_uc010dqu.1_Missense_Mutation_p.I869S|ZNF407_uc002llu.2_Missense_Mutation_p.I868S	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	869	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		ACTGTTCACATTAGACGAAAA	0.413													39	121	---	---	---	---	PASS	G	72345581	G	G	72345581	3	3	164	1	0	0	0	0	1	0	0	0	17884	1493	52	5	2608	5	ZNF407	18	72345581	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	547817	72345581	5731667	213	58881										
ZNF516	9658	broad.mit.edu	37	chr18	74153304	74153308	+	Frame_Shift_Del	DEL	GCTGG	-	-													0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcacaggcggagccagggctGctgggctgggaggccgagtc							TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr18:74153304_74153308delGCTGG	uc010dqx.1	-	2	1938_1942	c.1703_1707delCCAGC	c.(1702-1707)CCCAGCfs	p.P568fs	ZNF516_uc002lme.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	568_569					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		AGCCAGGGCTGCTGGGCTGGGAGGC	0.741													20	10	---	---	---	---		-	74153308	-	-	74153304	7	5	164	1	0	1	0	1	0	0	0	0	17957	1310	46	0	1805	0	ZNF516	18	74153304	Frame_Shift_Del	DEL	GCTGG	TCGA-66-2786-01A-01D-1522-08	1807723	74153304	3923944	214	58882										
ZBTB7A	51341	broad.mit.edu	37	chr19	4054023	4054023	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agggcttctcgcccgtgtggGtgcggatgtgtcgcggcagc	18	11	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:4054023G>T	uc002lzh.2	-	2	1283	c.1208C>A	c.(1207-1209)ACC>AAC	p.T403N	ZBTB7A_uc002lzi.2_Missense_Mutation_p.T403N	NM_015898	NP_056982	O95365	ZBT7A_HUMAN	zinc finger and BTB domain containing 7A	403	C2H2-type 1.				cell differentiation|multicellular organismal development|transcription, DNA-dependent	nucleus	DNA binding|histone acetyltransferase binding|zinc ion binding			pancreas(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.014)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCCGTGTGGGTGCGGATGTG	0.657													7	35	---	---	---	---	PASS	T	4054023	T	T	4054023	3	4	164	1	0	0	0	0	1	0	0	0	17550	1261	44	3	554	3	ZBTB7A	19	4054023	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08		4054023	55074960	215	58883										
HOOK2	29911	broad.mit.edu	37	chr19	12881986	12881986	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	accacacctgaagttctcctCctgcaactgctccagctggg	8	16	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:12881986C>A	uc002muy.2	-	9	919	c.748G>T	c.(748-750)GAG>TAG	p.E250*	HOOK2_uc002muz.2_Nonsense_Mutation_p.E250*	NM_013312	NP_037444	Q96ED9	HOOK2_HUMAN	hook homolog 2 isoform 1	250	Sufficient for interaction with microtubules.|Potential.				early endosome to late endosome transport|endocytosis|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|protein transport	centrosome|FHF complex|microtubule	identical protein binding|microtubule binding			ovary(1)|breast(1)|skin(1)	3						AAGTTCTCCTCCTGCAACTGC	0.672													9	11	---	---	---	---	PASS	A	12881986	A	A	12881986	4	1	164	1	0	0	0	0	0	1	0	0	7283	864	30	2	1471	2	HOOK2	19	12881986	Nonsense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	8827963	12881986	46246997	216	58884										
TMEM161A	54929	broad.mit.edu	37	chr19	19231853	19231853	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cagcctcccttcgcagctgcTccacccgggccttggccagg	11	19	0	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:19231853T>A	uc002nlg.2	-	10	1067	c.1037A>T	c.(1036-1038)GAG>GTG	p.E346V	TMEM161A_uc010eca.2_RNA|TMEM161A_uc002nlh.2_Missense_Mutation_p.E321V|TMEM161A_uc002nli.2_Missense_Mutation_p.E243V|TMEM161A_uc002nlj.2_Missense_Mutation_p.E221V	NM_017814	NP_060284	Q9NX61	T161A_HUMAN	transmembrane protein 161A precursor	346	Extracellular (Potential).				cellular response to oxidative stress|cellular response to UV|negative regulation of apoptosis|positive regulation of DNA repair|response to retinoic acid	integral to membrane				breast(2)	2			OV - Ovarian serous cystadenocarcinoma(5;1.19e-05)|Epithelial(12;0.0011)			TCGCAGCTGCTCCACCCGGGC	0.692													14	23	---	---	---	---	PASS	A	19231853	A	A	19231853	3	1	164	1	0	0	0	0	1	0	0	0	16073	1551	54	5	414	5	TMEM161A	19	19231853	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	6349867	19231853	39897130	217	58885										
ZNF569	148266	broad.mit.edu	37	chr19	37903707	37903707	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tatgtatagtaagggatgagCtttgggagaaggcttttcca	13	4	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:37903707C>T	uc002ogi.2	-	6	2411	c.1853G>A	c.(1852-1854)AGC>AAC	p.S618N	ZNF569_uc002ogh.2_Missense_Mutation_p.S459N|ZNF569_uc002ogj.2_Missense_Mutation_p.S642N	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	618	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AAGGGATGAGCTTTGGGAGAA	0.408													91	227	---	---	---	---	PASS	T	37903707	T	T	37903707	3	4	164	1	0	0	0	0	1	0	0	0	17997	797	28	3	211	3	ZNF569	19	37903707	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	18671854	37903707	21225276	218	58886										
ZNF540	163255	broad.mit.edu	37	chr19	38102891	38102891	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tactctgcatcagagatttcAtactggtgagaaaccctatg	8	9	3	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:38102891A>G	uc002ogq.2	+	5	1042	c.710A>G	c.(709-711)CAT>CGT	p.H237R	ZNF540_uc002ogu.2_Missense_Mutation_p.H237R|ZNF540_uc010efq.2_Missense_Mutation_p.H205R	NM_152606	NP_689819	Q8NDQ6	ZN540_HUMAN	zinc finger protein 540	237	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CAGAGATTTCATACTGGTGAG	0.368													6	122	---	---	---	---	PASS	G	38102891	G	G	38102891	3	3	164	1	0	0	0	0	1	0	0	0	17972	217	8	5	724	5	ZNF540	19	38102891	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	199184	38102891	21026092	219	58887										
CEACAM21	90273	broad.mit.edu	37	chr19	42083652	42083652	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gagaatgttcatctctctgtGgtttatctgcccgagaatct	9	9	5	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:42083652G>A	uc002ore.3	+	2	261	c.165G>A	c.(163-165)GTG>GTA	p.V55V	CEACAM21_uc002orc.1_RNA|CEACAM21_uc002ord.1_RNA|CEACAM21_uc002orf.2_RNA|CEACAM21_uc002org.3_Silent_p.V55V	NM_001098506	NP_001091976	Q3KPI0	CEA21_HUMAN	carcinoembryonic antigen-related cell adhesion	55	Extracellular (Potential).					integral to membrane				ovary(1)	1						ATCTCTCTGTGGTTTATCTGC	0.478													30	70	---	---	---	---	PASS	A	42083652	A	A	42083652	2	1	164	1	0	0	0	0	0	0	0	1	3192	1335	47	3		3	CEACAM21	19	42083652	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	3980761	42083652	17045331	220	58888										
ATP1A3	478	broad.mit.edu	37	chr19	42480657	42480657	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtgattctgcaggatctcgtCgatttgctcggaggtgaagt	14	7	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:42480657C>T	uc002osg.2	-	15	2159	c.2005G>A	c.(2005-2007)GAC>AAC	p.D669N	ATP1A3_uc010xwf.1_Missense_Mutation_p.D680N|ATP1A3_uc010xwg.1_Missense_Mutation_p.D639N|ATP1A3_uc010xwh.1_Missense_Mutation_p.D682N|ATP1A3_uc002osh.2_Missense_Mutation_p.D669N	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	669	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						AGGATCTCGTCGATTTGCTCG	0.607													37	93	---	---	---	---	PASS	T	42480657	T	T	42480657	3	4	164	1	0	0	0	0	1	0	0	0	1130	884	31	2	1072	2	ATP1A3	19	42480657	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	397005	42480657	16648326	221	58889										
CCDC61	729440	broad.mit.edu	37	chr19	46498682	46498682	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tggtaagctgtgaccaatcaGaagcgagaacgccggatcct	12	10	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:46498682G>A	uc002pdw.2	+	2	81	c.81_splice	c.e2-1	p.R27_splice		NM_001080402	NP_001073871			coiled-coil domain containing 61											ovary(1)	1		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00221)|GBM - Glioblastoma multiforme(486;0.0233)|Epithelial(262;0.164)		TGACCAATCAGAAGCGAGAAC	0.602													3	12	---	---	---	---	PASS	A	46498682	A	A	46498682	5	1	164	1	0	0	0	0	0	0	1	0	2832	956	33	2	86	2	CCDC61	19	46498682	Splice_Site	SNP	G	TCGA-66-2786-01A-01D-1522-08	4018025	46498682	12630301	222	58890										
PRKD2	25865	broad.mit.edu	37	chr19	47193887	47193887	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gccacttcattccggagctgGctctcctgcttggtagggaa	12	12	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:47193887G>T	uc002pfh.2	-	14	2121	c.1779C>A	c.(1777-1779)AGC>AGA	p.S593R	PRKD2_uc002pfd.2_5'Flank|PRKD2_uc010eks.2_5'UTR|PRKD2_uc010ekt.2_5'UTR|PRKD2_uc002pfe.2_Missense_Mutation_p.S113R|PRKD2_uc002pff.2_Missense_Mutation_p.S113R|PRKD2_uc002pfg.2_Missense_Mutation_p.S436R|PRKD2_uc002pfi.2_Missense_Mutation_p.S593R|PRKD2_uc002pfj.2_Missense_Mutation_p.S593R|PRKD2_uc010xye.1_Missense_Mutation_p.S593R|PRKD2_uc002pfk.2_Missense_Mutation_p.S436R	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	593	Protein kinase.				cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		TCCGGAGCTGGCTCTCCTGCT	0.502													30	88	---	---	---	---	PASS	T	47193887	T	T	47193887	3	4	164	1	0	0	0	0	1	0	0	0	12519	1194	42	3	881	3	PRKD2	19	47193887	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	695205	47193887	11935096	223	58891										
PPFIA3	8541	broad.mit.edu	37	chr19	49652839	49652839	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttcagccgctccccatcctgGcggaagatgttccgggagaa	12	13	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:49652839G>T	uc002pmr.2	+	28	3722	c.3390G>T	c.(3388-3390)TGG>TGT	p.W1130C	PPFIA3_uc010yai.1_RNA|PPFIA3_uc002pms.2_Missense_Mutation_p.W989C|PPFIA3_uc002pmt.2_Missense_Mutation_p.W269C|PPFIA3_uc002pmu.1_Missense_Mutation_p.W179C	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	1130						cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		CCCCATCCTGGCGGAAGATGT	0.627													3	38	---	---	---	---	PASS	T	49652839	T	T	49652839	3	4	164	1	0	0	0	0	1	0	0	0	12311	1212	42	3	3496	3	PPFIA3	19	49652839	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	2458952	49652839	9476144	224	58892										
SIGLEC7	27036	broad.mit.edu	37	chr19	51647820	51647820	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cccctgcacccctccaccacCcgctcctcagtgctcaccct	4	25	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:51647820C>A	uc002pvv.1	+	2	660	c.591C>A	c.(589-591)ACC>ACA	p.T197T	SIGLEC7_uc002pvw.1_Intron|SIGLEC7_uc010eoq.1_Intron|SIGLEC7_uc010eor.1_Intron	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	197	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		CCTCCACCACCCGCTCCTCAG	0.662													22	132	---	---	---	---	PASS	A	51647820	A	A	51647820	2	1	164	1	0	0	0	0	0	0	0	1	14313	610	22	3		3	SIGLEC7	19	51647820	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	1994981	51647820	7481163	225	58893										
HAS1	3036	broad.mit.edu	37	chr19	52222524	52222524	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	catgacctcgcgcttgccgcCccagcgctgcgccacgcaca	10	20	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:52222524C>G	uc002pxo.1	-	2	672	c.637G>C	c.(637-639)GGC>CGC	p.G213R	HAS1_uc010epc.1_5'Flank|HAS1_uc010epd.1_Missense_Mutation_p.G178R|HAS1_uc002pxn.1_Missense_Mutation_p.G220R|HAS1_uc002pxp.1_Missense_Mutation_p.G212R	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1	213	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding			ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		CGCTTGCCGCCCCAGCGCTGC	0.652													7	48	---	---	---	---	PASS	G	52222524	G	G	52222524	3	3	164	1	0	0	0	0	1	0	0	0	6961	623	22	4	1115	4	HAS1	19	52222524	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	574704	52222524	6906459	226	58894										
PEG3	5178	broad.mit.edu	37	chr19	57328242	57328242	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ctctagcatgaatcttccgaTgttcagccaaggcggcactc	9	13	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:57328242T>A	uc002qnu.2	-	7	1919	c.1568A>T	c.(1567-1569)CAT>CTT	p.H523L	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.H494L|PEG3_uc002qnv.2_Missense_Mutation_p.H523L|PEG3_uc002qnw.2_Missense_Mutation_p.H399L|PEG3_uc002qnx.2_Missense_Mutation_p.H397L|PEG3_uc010etr.2_Missense_Mutation_p.H523L	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	523	C2H2-type 2.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		AATCTTCCGATGTTCAGCCAA	0.453													25	294	---	---	---	---	PASS	A	57328242	A	A	57328242	3	1	164	1	0	0	0	0	1	0	0	0	11720	1464	51	5	3202	5	PEG3	19	57328242	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	5105718	57328242	1800741	227	58895										
ZNF586	54807	broad.mit.edu	37	chr19	58290764	58290764	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atgcgttgagtgtggaaaatCatttcgccgaagctcttcac	10	9	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr19:58290764C>T	uc002qqd.2	+	3	995	c.809C>T	c.(808-810)TCA>TTA	p.S270L	ZNF587_uc002qqb.2_Intron|ZNF586_uc002qqe.2_3'UTR|ZNF586_uc010euh.2_Missense_Mutation_p.S227L|ZNF586_uc002qqf.1_Intron	NM_017652	NP_060122	Q9NXT0	ZN586_HUMAN	zinc finger protein 586	270	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGTGGAAAATCATTTCGCCGA	0.428													24	81	---	---	---	---	PASS	T	58290764	T	T	58290764	3	4	164	1	0	0	0	0	1	0	0	0	18016	838	29	2	819	2	ZNF586	19	58290764	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	962522	58290764	838219	228	58896										
SIGLEC1	6614	broad.mit.edu	37	chr20	3674246	3674246	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcccatcctggtaccatgtgTaggtgagctgggccgggtga	16	10	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr20:3674246T>C	uc002wja.2	-	13	3356	c.3356A>G	c.(3355-3357)TAC>TGC	p.Y1119C	SIGLEC1_uc002wjb.1_5'Flank|SIGLEC1_uc002wiz.3_Missense_Mutation_p.Y1119C	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1119	Ig-like C2-type 11.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						GTACCATGTGTAGGTGAGCTG	0.662													10	27	---	---	---	---	PASS	C	3674246	C	C	3674246	3	2	164	1	0	0	0	0	1	0	0	0	14305	1638	57	5	1809	5	SIGLEC1	20	3674246	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08		3674246	59351274	229	58897										
PROKR2	128674	broad.mit.edu	37	chr20	5283025	5283025	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cacatgagcaccaggaccgtCttcctgcggcagcgcagccg	12	16	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr20:5283025C>T	uc010zqw.1	-	2	816	c.816G>A	c.(814-816)AAG>AAA	p.K272K	PROKR2_uc010zqx.1_Silent_p.K272K|PROKR2_uc010zqy.1_Silent_p.K272K	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	272	Cytoplasmic (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						CCAGGACCGTCTTCCTGCGGC	0.597										HNSCC(71;0.22)			15	38	---	---	---	---	PASS	T	5283025	T	T	5283025	2	4	164	1	0	0	0	0	0	0	0	1	12553	912	32	2		2	PROKR2	20	5283025	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	1608779	5283025	57742495	230	58898										
PLK1S1	55857	broad.mit.edu	37	chr20	21143633	21143633	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttagagagcccagaaccacaGccaaatccaggtggcaagat	10	11	0	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr20:21143633G>A	uc002wsb.2	+	6	1318	c.1185G>A	c.(1183-1185)CAG>CAA	p.Q395Q	PLK1S1_uc010zsh.1_Silent_p.Q292Q|PLK1S1_uc010zsi.1_Silent_p.Q262Q|PLK1S1_uc010zsj.1_RNA|uc002wsc.2_Intron|PLK1S1_uc002wsd.2_RNA	NM_018474	NP_060944	Q2M2Z5	KIZ_HUMAN	polo-like kinase 1 substrate 1 isoform 1	395					spindle organization	centrosome	protein kinase binding				0						CAGAACCACAGCCAAATCCAG	0.433													19	57	---	---	---	---	PASS	A	21143633	A	A	21143633	2	1	164	1	0	0	0	0	0	0	0	1	12095	962	34	3		3	PLK1S1	20	21143633	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	15860608	21143633	41881887	231	58899										
NKX2-2	4821	broad.mit.edu	37	chr20	21494122	21494122	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ctgctgtcgtagaaggggttCttcaggggcaggctctgcac	15	10	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr20:21494122C>T	uc002wsi.2	-	1	543	c.186G>A	c.(184-186)AAG>AAA	p.K62K		NM_002509	NP_002500	O95096	NKX22_HUMAN	NK2 transcription factor related, locus 2	62					brain development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	chromatin binding|core promoter proximal region DNA binding|transcription coactivator activity			pancreas(1)|skin(1)	2						AGAAGGGGTTCTTCAGGGGCA	0.677													11	28	---	---	---	---	PASS	T	21494122	T	T	21494122	2	4	164	1	0	0	0	0	0	0	0	1	10450	912	32	2		2	NKX2-2	20	21494122	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	350489	21494122	41531398	232	58900										
REM1	28954	broad.mit.edu	37	chr20	30070090	30070090	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cttgggtccctctcctgcagGataaaagctggagccaggag	13	11	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr20:30070090G>A	uc002wwa.2	+	4	708	c.424G>A	c.(424-426)GAT>AAT	p.D142N		NM_014012	NP_054731	O75628	REM1_HUMAN	RAS-like GTP-binding protein REM	142					small GTPase mediated signal transduction	membrane	calmodulin binding|GTP binding|GTPase activity			lung(2)|pancreas(2)	4	all_cancers(5;0.000119)|Lung NSC(7;1.32e-05)|all_lung(7;2.14e-05)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			TCTCCTGCAGGATAAAAGCTG	0.582													32	72	---	---	---	---	PASS	A	30070090	A	A	30070090	3	1	164	1	0	0	0	0	1	0	0	0	13222	1188	41	2	434	2	REM1	20	30070090	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	8575968	30070090	32955430	233	58901										
C20orf185	359710	broad.mit.edu	37	chr20	31656643	31656643	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gcccctgcaccagcaactccTactgttcctgcgggtgaggg	12	15	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr20:31656643T>C	uc002wym.1	+	10	1013	c.1013T>C	c.(1012-1014)CTA>CCA	p.L338P		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	338					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						CAGCAACTCCTACTGTTCCTG	0.522													4	96	---	---	---	---	PASS	C	31656643	C	C	31656643	3	2	164	1	0	0	0	0	1	0	0	0	2097	1522	53	5	1051	5	C20orf185	20	31656643	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	1586553	31656643	31368877	234	58902										
SAMHD1	25939	broad.mit.edu	37	chr20	35526237	35526237	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ccacctacctgcggcttggtGaaatttctgtctgcacacca	8	14	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr20:35526237G>A	uc002xgh.1	-	15	1864	c.1734C>T	c.(1732-1734)TTC>TTT	p.F578F	SAMHD1_uc010gft.1_RNA	NM_015474	NP_056289	Q9Y3Z3	SAMH1_HUMAN	SAM domain- and HD domain-containing protein 1	578					defense response to virus|innate immune response|regulation of innate immune response	nucleus	metal ion binding|phosphoric diester hydrolase activity				0		Myeloproliferative disorder(115;0.00878)				GCGGCTTGGTGAAATTTCTGT	0.388													5	111	---	---	---	---	PASS	A	35526237	A	A	35526237	2	1	164	1	0	0	0	0	0	0	0	1	13828	1281	45	2		2	SAMHD1	20	35526237	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	3869594	35526237	27499283	235	58903										
RALGAPB	57148	broad.mit.edu	37	chr20	37169683	37169683	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	atctgcctttcctgcttttaGgactgccttaaggaagtact	8	10	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr20:37169683G>C	uc002xiw.2	+	18	2820	c.2563_splice	c.e18-1	p.D855_splice	RALGAPB_uc002xix.2_Splice_Site_p.D851_splice|RALGAPB_uc002xiy.1_Splice_Site_p.D855_splice|RALGAPB_uc002xiz.2_Splice_Site_p.D633_splice|RALGAPB_uc002xja.1_Splice_Site_p.D582_splice	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit						activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						CCTGCTTTTAGGACTGCCTTA	0.318													44	133	---	---	---	---	PASS	C	37169683	C	C	37169683	5	2	164	1	0	0	0	0	0	0	1	0	13015	1014	35	4	2628	4	RALGAPB	20	37169683	Splice_Site	SNP	G	TCGA-66-2786-01A-01D-1522-08	1643446	37169683	25855837	236	58904										
CHD6	84181	broad.mit.edu	37	chr20	40045305	40045305	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cggctctgagaggctggttcGagaaccagcactgctggtta	14	10	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr20:40045305G>A	uc002xka.1	-	33	6587	c.6409C>T	c.(6409-6411)CGA>TGA	p.R2137*	CHD6_uc002xjz.1_5'Flank	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2137					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				AGGCTGGTTCGAGAACCAGCA	0.587													36	81	---	---	---	---	PASS	A	40045305	A	A	40045305	4	1	164	1	0	0	0	0	0	1	0	0	3329	1066	37	2	1758	2	CHD6	20	40045305	Nonsense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	2875622	40045305	22980215	237	58905										
C20orf106	200232	broad.mit.edu	37	chr20	55100911	55100911	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aacttcactctccattaaagAaaaaaagaaatgcttccccc	3	12	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr20:55100911A>T	uc002xxx.2	+	2	381	c.301A>T	c.(301-303)AAA>TAA	p.K101*	GCNT7_uc010zzg.1_5'UTR|C20orf107_uc010zzh.1_Intron	NM_001012971	NP_001012989	Q5JX71	CT106_HUMAN	hypothetical protein LOC200232 precursor	101	Cytoplasmic (Potential).					integral to membrane					0			Colorectal(105;0.202)			TCCATTAAAGAAAAAAAGAAA	0.428													74	226	---	---	---	---	PASS	T	55100911	T	T	55100911	4	4	164	1	0	0	0	0	0	1	0	0	2076	247	9	5	307	5	C20orf106	20	55100911	Nonsense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	15055606	55100911	7924609	238	58906										
TTC3	7267	broad.mit.edu	37	chr21	38573770	38573770	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cagtggcttaaagggcagagCgcttgcccggcctgccaggg	16	12	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr21:38573770C>T	uc002yvz.2	+	46	6078	c.5973C>T	c.(5971-5973)AGC>AGT	p.S1991S	TTC3_uc002ywa.2_Silent_p.S1991S|TTC3_uc002ywb.2_Silent_p.S1991S|TTC3_uc010gnf.2_Silent_p.S1756S|TTC3_uc002ywc.2_Silent_p.S1681S	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1991	RING-type.				protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				AAGGGCAGAGCGCTTGCCCGG	0.537													4	128	---	---	---	---	PASS	T	38573770	T	T	38573770	2	4	164	1	0	0	0	0	0	0	0	1	16694	767	27	1		1	TTC3	21	38573770	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08		38573770	9556125	239	58907										
GGT5	2687	broad.mit.edu	37	chr22	24615949	24615949	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agcagtgtcttagtagcctgCggcctccccactcttcctca	8	16	3	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr22:24615949C>A	uc002zzo.3	-	12	2167	c.1750G>T	c.(1750-1752)GCA>TCA	p.A584S	GGT5_uc002zzp.3_Missense_Mutation_p.A585S|GGT5_uc002zzr.3_Missense_Mutation_p.A552S|GGT5_uc002zzq.3_3'UTR|GGT5_uc011ajm.1_Missense_Mutation_p.A508S	NM_004121	NP_004112	P36269	GGT5_HUMAN	gamma-glutamyltransferase 5 isoform b	584	Extracellular (Potential).				glutathione biosynthetic process|hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	integral to membrane|plasma membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(2)|skin(1)	3						TAGTAGCCTGCGGCCTCCCCA	0.637													19	52	---	---	---	---	PASS	A	24615949	A	A	24615949	3	1	164	1	0	0	0	0	1	0	0	0	6362	768	27	1	14	1	GGT5	22	24615949	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08		24615949	26688617	240	58908										
ENTHD1	150350	broad.mit.edu	37	chr22	40139799	40139799	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgatgacattaagttcttggAtcactgtgctcagatcttca	8	8	5	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chr22:40139799A>G	uc003ayg.2	-	7	1960	c.1709T>C	c.(1708-1710)ATC>ACC	p.I570T		NM_152512	NP_689725	Q8IYW4	ENTD1_HUMAN	ENTH domain containing 1	570	Potential.									ovary(2)|skin(1)	3	Melanoma(58;0.0749)					AAGTTCTTGGATCACTGTGCT	0.443													37	127	---	---	---	---	PASS	G	40139799	G	G	40139799	3	3	164	1	0	0	0	0	1	0	0	0	5137	333	12	5	118	5	ENTHD1	22	40139799	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	15523850	40139799	11164767	241	58909										
GYG2	8908	broad.mit.edu	37	chrX	2773121	2773121	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cggattgcttcaatagcgggGtgtttgtcttccagccttct	11	10	3	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:2773121G>T	uc004cqs.1	+	6	787	c.505G>T	c.(505-507)GTG>TTG	p.V169L	GYG2_uc004cqt.1_Missense_Mutation_p.V138L|GYG2_uc004cqu.1_Missense_Mutation_p.V138L|GYG2_uc004cqv.1_5'UTR|GYG2_uc004cqw.1_Missense_Mutation_p.V129L|GYG2_uc004cqx.1_Missense_Mutation_p.V138L|GYG2_uc010ndc.1_5'UTR	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b	169					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CAATAGCGGGGTGTTTGTCTT	0.572													58	127	---	---	---	---	PASS	T	2773121	T	T	2773121	3	4	164	1	0	0	0	0	1	0	0	0	6906	1261	44	3	523	3	GYG2	23	2773121	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08		2773121	152497439	242	58910										
CA5B	11238	broad.mit.edu	37	chrX	15793398	15793398	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	catcataaggagctacagaaAttagtggatactttgccgtc	9	8	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:15793398A>T	uc004cxe.2	+	6	702	c.585A>T	c.(583-585)AAA>AAT	p.K195N		NM_007220	NP_009151	Q9Y2D0	CAH5B_HUMAN	carbonic anhydrase VB, mitochondrial precursor	195					one-carbon metabolic process	mitochondrion	carbonate dehydratase activity|zinc ion binding				0	Hepatocellular(33;0.183)					AGCTACAGAAATTAGTGGATA	0.323													15	162	---	---	---	---	PASS	T	15793398	T	T	15793398	3	4	164	1	0	0	0	0	1	0	0	0	2520	98	4	5	603	5	CA5B	23	15793398	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	13020277	15793398	139477162	243	58911										
NHS	4810	broad.mit.edu	37	chrX	17750110	17750110	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agcagtaatgtgacaaccccCaacagccagaggtctcctgg	10	13	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:17750110C>A	uc004cxx.2	+	8	4757	c.4419C>A	c.(4417-4419)CCC>CCA	p.P1473P	NHS_uc011mix.1_Silent_p.P1494P|NHS_uc004cxy.2_Silent_p.P1317P|NHS_uc004cxz.2_Silent_p.P1296P|NHS_uc004cya.2_Silent_p.P1196P	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1473						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					TGACAACCCCCAACAGCCAGA	0.512													76	238	---	---	---	---	PASS	A	17750110	A	A	17750110	2	1	164	1	0	0	0	0	0	0	0	1	10411	581	21	3		3	NHS	23	17750110	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	1956712	17750110	137520450	244	58912										
GPR64	10149	broad.mit.edu	37	chrX	19028829	19028829	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttaggctccaggctgcccaaGgacagagccttctccatctg	10	14	2	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:19028829G>T	uc004cyx.2	-	17	1331	c.1167C>A	c.(1165-1167)TCC>TCA	p.S389S	GPR64_uc004cyy.2_Silent_p.S386S|GPR64_uc004cyz.2_Silent_p.S375S|GPR64_uc004czb.2_Silent_p.S389S|GPR64_uc004czc.2_Silent_p.S373S|GPR64_uc004czd.2_Silent_p.S365S|GPR64_uc004cze.2_Silent_p.S359S|GPR64_uc004czf.2_Silent_p.S351S|GPR64_uc004cza.2_Silent_p.S367S|GPR64_uc004cyw.2_Silent_p.S373S|GPR64_uc010nfj.2_Silent_p.S359S	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	389	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					GGCTGCCCAAGGACAGAGCCT	0.502													91	256	---	---	---	---	PASS	T	19028829	T	T	19028829	2	4	164	1	0	0	0	0	0	0	0	1	6705	987	35	3		3	GPR64	23	19028829	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	1278719	19028829	136241731	245	58913										
MAGEB10	139422	broad.mit.edu	37	chrX	27839977	27839977	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tgtccttgtcaacaaactagAtctaggctgtgatgcaaagc	9	9	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:27839977A>G	uc004dbw.2	+	3	781	c.554A>G	c.(553-555)GAT>GGT	p.D185G		NM_182506	NP_872312	Q96LZ2	MAGBA_HUMAN	melanoma antigen family B, 10	185	MAGE.									lung(1)|breast(1)|central_nervous_system(1)	3						AACAAACTAGATCTAGGCTGT	0.478													11	161	---	---	---	---	PASS	G	27839977	G	G	27839977	3	3	164	1	0	0	0	0	1	0	0	0	9173	333	12	5	556	5	MAGEB10	23	27839977	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	8811148	27839977	127430583	246	58914										
BCOR	54880	broad.mit.edu	37	chrX	39934138	39934138	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ctacagcacttttttgtattCcaggcggtgttttgtatata	8	7	0	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:39934138C>G	uc004den.3	-	4	753	c.461G>C	c.(460-462)GGA>GCA	p.G154A	BCOR_uc004dep.3_Missense_Mutation_p.G154A|BCOR_uc004deo.3_Missense_Mutation_p.G154A|BCOR_uc004dem.3_Missense_Mutation_p.G154A|BCOR_uc004deq.3_Missense_Mutation_p.G154A	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	154					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						TTTTTGTATTCCAGGCGGTGT	0.512													25	82	---	---	---	---	PASS	G	39934138	G	G	39934138	3	3	164	1	0	0	0	0	1	0	0	0	1386	855	30	2	4854	2	BCOR	23	39934138	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	12094161	39934138	115336422	247	58915										
USP9X	8239	broad.mit.edu	37	chrX	41075775	41075775	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	catcagattattatgccatcAgccattgagagaagtgtacg	9	8	2	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:41075775A>T	uc004dfb.2	+	35	6588	c.5955A>T	c.(5953-5955)TCA>TCT	p.S1985S	USP9X_uc004dfc.2_Silent_p.S1985S	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1985					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						TTATGCCATCAGCCATTGAGA	0.368													85	166	---	---	---	---	PASS	T	41075775	T	T	41075775	2	4	164	1	0	0	0	0	0	0	0	1	17087	175	7	5		5	USP9X	23	41075775	Silent	SNP	A	TCGA-66-2786-01A-01D-1522-08	1141637	41075775	114194785	248	58916										
TBC1D25	4943	broad.mit.edu	37	chrX	48418240	48418240	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cccacatctacgggcgctgcAcgacctgctcaccacctatg	8	18	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:48418240A>G	uc004dka.1	+	6	1055	c.944A>G	c.(943-945)CAC>CGC	p.H315R	TBC1D25_uc011mly.1_Missense_Mutation_p.H257R|TBC1D25_uc004dkb.1_Missense_Mutation_p.H61R|TBC1D25_uc011mlz.1_Missense_Mutation_p.H61R|TBC1D25_uc011mma.1_Missense_Mutation_p.H61R|TBC1D25_uc004dkc.1_Missense_Mutation_p.H61R|TBC1D25_uc011mmb.1_Missense_Mutation_p.H319R|TBC1D25_uc011mmc.1_Missense_Mutation_p.H61R|TBC1D25_uc011mmd.1_Missense_Mutation_p.H61R	NM_002536	NP_002527	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	315	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			ovary(1)	1						CGGGCGCTGCACGACCTGCTC	0.617													16	51	---	---	---	---	PASS	G	48418240	G	G	48418240	3	3	164	1	0	0	0	0	1	0	0	0	15612	159	6	5	966	5	TBC1D25	23	48418240	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	7342465	48418240	106852320	249	58917										
CCNB3	85417	broad.mit.edu	37	chrX	50094351	50094351	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	acgatagtctcaaggctgtgTattacaagtattctcacccg	8	10	2	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:50094351T>C	uc004dox.3	+	12	4370	c.4072T>C	c.(4072-4074)TAT>CAT	p.Y1358H	CCNB3_uc004doy.2_Missense_Mutation_p.Y1358H|CCNB3_uc004doz.2_Missense_Mutation_p.Y254H|CCNB3_uc010njq.2_Missense_Mutation_p.Y250H|CCNB3_uc004dpa.2_Missense_Mutation_p.Y197H	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1358					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					CAAGGCTGTGTATTACAAGTA	0.453													146	321	---	---	---	---	PASS	C	50094351	C	C	50094351	3	2	164	1	0	0	0	0	1	0	0	0	2914	1638	57	5	4110	5	CCNB3	23	50094351	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	1676111	50094351	105176209	250	58918										
STARD8	9754	broad.mit.edu	37	chrX	67936270	67936270	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gaggttcattttcaaagcaaGcaggtgagtcatggcaaagc	12	7	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:67936270G>T	uc004dxa.2	+	4	426	c.54G>T	c.(52-54)AAG>AAT	p.K18N	STARD8_uc004dxb.2_Missense_Mutation_p.K98N|STARD8_uc004dxc.3_Missense_Mutation_p.K18N	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	18					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						TTCAAAGCAAGCAGGTGAGTC	0.478													18	61	---	---	---	---	PASS	T	67936270	T	T	67936270	3	4	164	1	0	0	0	0	1	0	0	0	15262	962	34	3	312	3	STARD8	23	67936270	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	17841919	67936270	87334290	251	58919										
OTUD6A	139562	broad.mit.edu	37	chrX	69283241	69283241	+	Nonstop_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtgctcccgcgtctcctgtaGgccccaaggcgctgagcagc	13	16	1	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:69283241G>T	uc004dxu.1	+	1	901	c.867G>T	c.(865-867)TAG>TAT	p.*289Y		NM_207320	NP_997203	Q7L8S5	OTU6A_HUMAN	OTU domain containing 6A	289										lung(1)|skin(1)	2						GTCTCCTGTAGGCCCCAAGGC	0.567													4	12	---	---	---	---	PASS	T	69283241	T	T	69283241	4	4	164	1	0	0	0	0	0	0	0	0	11316	995	35	3	869	3	OTUD6A	23	69283241	Nonstop_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	1346971	69283241	85987319	252	58920										
NLGN3	54413	broad.mit.edu	37	chrX	70389799	70389799	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	cctgaccctgcggcgctcccCggatgacatcccactcatga	9	18	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:70389799C>A	uc004dzb.2	+	7	2643	c.2339C>A	c.(2338-2340)CCG>CAG	p.P780Q	NLGN3_uc004dzc.2_Missense_Mutation_p.P663Q|NLGN3_uc011mps.1_Missense_Mutation_p.P760Q|NLGN3_uc004dze.2_Missense_Mutation_p.P598Q	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	800	Cytoplasmic (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					CGGCGCTCCCCGGATGACATC	0.632													9	13	---	---	---	---	PASS	A	70389799	A	A	70389799	3	1	164	1	0	0	0	0	1	0	0	0	10463	652	23	1	2425	1	NLGN3	23	70389799	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	1106558	70389799	84880761	253	58921										
ATRX	546	broad.mit.edu	37	chrX	76938248	76938248	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tctttttttggtggttctggCagcaccaattttactcatgc	8	9	3	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:76938248C>T	uc004ecp.3	-	9	2732	c.2500G>A	c.(2500-2502)GCC>ACC	p.A834T	ATRX_uc004ecq.3_Missense_Mutation_p.A796T|ATRX_uc004eco.3_Missense_Mutation_p.A619T|ATRX_uc004ecr.2_Missense_Mutation_p.A766T|ATRX_uc010nlx.1_Missense_Mutation_p.A805T|ATRX_uc010nly.1_Missense_Mutation_p.A779T	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	834					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	GTGGTTCTGGcagcaccaatt	0.219			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						24	566	---	---	---	---	PASS	T	76938248	T	T	76938248	3	4	164	1	0	0	0	0	1	0	0	0	1208	710	25	3	5086	3	ATRX	23	76938248	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	6548449	76938248	78332312	254	58922										
CSTF2	1478	broad.mit.edu	37	chrX	100087736	100087736	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tctccagaggttacttgggaCcacctcatcagggtccaccc	9	15	3	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:100087736C>A	uc004egh.2	+	10	1103	c.1045C>A	c.(1045-1047)CCA>ACA	p.P349T	CSTF2_uc010nnd.2_Missense_Mutation_p.P369T|CSTF2_uc004egi.2_Missense_Mutation_p.P332T	NM_001325	NP_001316	P33240	CSTF2_HUMAN	cleavage stimulation factor subunit 2	349	Gly/Pro-rich.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cleavage body|mRNA cleavage and polyadenylation specificity factor complex	nucleotide binding|protein binding|protein binding|RNA binding			skin(1)	1						TTACTTGGGACCACCTCATCA	0.493													11	52	---	---	---	---	PASS	A	100087736	A	A	100087736	3	1	164	1	0	0	0	0	1	0	0	0	3984	507	18	3	1083	3	CSTF2	23	100087736	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	23149488	100087736	55182824	255	58923										
MUM1L1	139221	broad.mit.edu	37	chrX	105451326	105451326	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gataaaagatgataaaattaAatttatcctagaagttcttc	5	4	1	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:105451326A>G	uc004emf.1	+	4	2550	c.1901A>G	c.(1900-1902)AAA>AGA	p.K634R	MUM1L1_uc004emg.1_Missense_Mutation_p.K634R	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	634										ovary(2)|pancreas(1)|skin(1)	4						GATAAAATTAAATTTATCCTA	0.338													5	20	---	---	---	---	PASS	G	105451326	G	G	105451326	3	3	164	1	0	0	0	0	1	0	0	0	9986	14	1	5	1903	5	MUM1L1	23	105451326	Missense_Mutation	SNP	A	TCGA-66-2786-01A-01D-1522-08	5363590	105451326	49819234	256	58924										
DCAF12L2	340578	broad.mit.edu	37	chrX	125299528	125299528	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggatgcgcgtgatgtggcctGactgcacgtccaccacaaac	12	13	0	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:125299528G>A	uc004euk.1	-	1	407	c.380C>T	c.(379-381)TCA>TTA	p.S127L		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	127										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						GATGTGGCCTGACTGCACGTC	0.642													48	139	---	---	---	---	PASS	A	125299528	A	A	125299528	3	1	164	1	0	0	0	0	1	0	0	0	4265	1294	45	2	1015	2	DCAF12L2	23	125299528	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	19848202	125299528	29971032	257	58925										
BCORL1	63035	broad.mit.edu	37	chrX	129189940	129189940	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	accaccatgcccaaggccgaGttctacaggcaggtggcctc	11	15	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:129189940G>T	uc004evb.1	+	13	5079	c.4965G>T	c.(4963-4965)GAG>GAT	p.E1655D	BCORL1_uc004evc.1_Missense_Mutation_p.E491D	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1655					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						CCAAGGCCGAGTTCTACAGGC	0.597													63	198	---	---	---	---	PASS	T	129189940	T	T	129189940	3	4	164	1	0	0	0	0	1	0	0	0	1387	1020	36	3	5237	3	BCORL1	23	129189940	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	3890412	129189940	26080620	258	58926										
SLITRK4	139065	broad.mit.edu	37	chrX	142718090	142718090	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ggtgtagccattttccagctGagatggaggcaggatgcgca	15	8	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:142718090G>A	uc004fbx.2	-	2	1211	c.835C>T	c.(835-837)CAG>TAG	p.Q279*	SLITRK4_uc004fby.2_Nonsense_Mutation_p.Q279*	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	279	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TTTTCCAGCTGAGATGGAGGC	0.438													82	181	---	---	---	---	PASS	A	142718090	A	A	142718090	4	1	164	1	0	0	0	0	0	1	0	0	14745	1299	45	2	1682	2	SLITRK4	23	142718090	Nonsense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	13528150	142718090	12552470	259	58927										
FMR1	2332	broad.mit.edu	37	chrX	147024736	147024736	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	ttctagaccaccaccaaatcGtacagataaggaaaaaagct	6	10	1	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:147024736G>C	uc010nst.2	+	14	1550	c.1361G>C	c.(1360-1362)CGT>CCT	p.R454P	FMR1_uc004fcj.2_Missense_Mutation_p.R431P|FMR1_uc004fck.3_Missense_Mutation_p.R433P|FMR1_uc004fcl.3_Missense_Mutation_p.R294P|FMR1_uc011mxa.1_Missense_Mutation_p.R101P	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	454	Interaction with RANBP9.				mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCACCAAATCGTACAGATAAG	0.448									Fragile_X_syndrome				73	252	---	---	---	---	PASS	C	147024736	C	C	147024736	3	2	164	1	0	0	0	0	1	0	0	0	5960	1145	40	4	1415	4	FMR1	23	147024736	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	4306646	147024736	8245824	260	58928										
TMEM185A	84548	broad.mit.edu	37	chrX	148685678	148685678	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	agggccagtggatgatcttgTccagtcttaaggcaatgaat	12	7	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:148685678T>C	uc011mxq.1	-	5	793	c.482A>G	c.(481-483)GAC>GGC	p.D161G	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|TMEM185A_uc011mxp.1_Missense_Mutation_p.D102G|TMEM185A_uc004fdo.2_Intron|TMEM185A_uc004fdp.3_Missense_Mutation_p.D78G	NM_032508	NP_115897	Q8NFB2	T185A_HUMAN	transmembrane protein 185A	161	Helical; (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					GATGATCTTGTCCAGTCTTAA	0.254													5	143	---	---	---	---	PASS	C	148685678	C	C	148685678	3	2	164	1	0	0	0	0	1	0	0	0	16104	1667	58	5	586	5	TMEM185A	23	148685678	Missense_Mutation	SNP	T	TCGA-66-2786-01A-01D-1522-08	1660942	148685678	6584882	261	58929										
PRRG3	79057	broad.mit.edu	37	chrX	150869314	150869314	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtcgggggggcaggaccacaGtccggctagagagcaccctc	16	13	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:150869314G>C	uc004few.1	+	4	895	c.505G>C	c.(505-507)GTC>CTC	p.V169L		NM_024082	NP_076987	Q9BZD7	TMG3_HUMAN	proline rich Gla (G-carboxyglutamic acid) 3	169	Cytoplasmic (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CAGGACCACAGTCCGGCTAGA	0.672													19	61	---	---	---	---	PASS	C	150869314	C	C	150869314	3	2	164	1	0	0	0	0	1	0	0	0	12607	1029	36	4	515	4	PRRG3	23	150869314	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	2183636	150869314	4401246	262	58930										
ATP2B3	492	broad.mit.edu	37	chrX	152818658	152818658	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	caggagcccgactgggacaaCgagaatgaggtcgtgggtga	17	8	0	3			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:152818658C>T	uc004fht.1	+	11	2115	c.1989C>T	c.(1987-1989)AAC>AAT	p.N663N	ATP2B3_uc004fhs.1_Silent_p.N663N	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	663	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACTGGGACAACGAGAATGAGG	0.622													24	132	---	---	---	---	PASS	T	152818658	T	T	152818658	2	4	164	1	0	0	0	0	0	0	0	1	1141	535	19	1		1	ATP2B3	23	152818658	Silent	SNP	C	TCGA-66-2786-01A-01D-1522-08	1949344	152818658	2451902	263	58931										
ATP2B3	492	broad.mit.edu	37	chrX	152821585	152821585	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gggacaacatcaacacggccCgggccatcgcagccaaatgc	11	15	1	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:152821585C>T	uc004fht.1	+	12	2263	c.2137C>T	c.(2137-2139)CGG>TGG	p.R713W	ATP2B3_uc004fhs.1_Missense_Mutation_p.R713W	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	713	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CAACACGGCCCGGGCCATCGC	0.587													49	120	---	---	---	---	PASS	T	152821585	T	T	152821585	3	4	164	1	0	0	0	0	1	0	0	0	1141	643	23	1	2183	1	ATP2B3	23	152821585	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	2927	152821585	2448975	264	58932										
PNCK	139728	broad.mit.edu	37	chrX	152937050	152937050	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	gtgcctagcatgttcccagcCtggattttggagagtccaaa	11	10	0	1			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:152937050C>A	uc011myu.1	-	6	927	c.741G>T	c.(739-741)CAG>CAT	p.Q247H	PNCK_uc011myt.1_Missense_Mutation_p.Q181H|PNCK_uc004fia.2_Missense_Mutation_p.Q176H|PNCK_uc004fhz.3_Missense_Mutation_p.Q62H|PNCK_uc010nuh.2_3'UTR|PNCK_uc011myv.1_Missense_Mutation_p.Q191H|PNCK_uc011myw.1_Missense_Mutation_p.Q191H	NM_001039582	NP_001034671	Q6P2M8	KCC1B_HUMAN	pregnancy upregulated non-ubiquitously expressed	164	Protein kinase.					cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TGTTCCCAGCCTGGATTTTGG	0.597													74	206	---	---	---	---	PASS	A	152937050	A	A	152937050	3	1	164	1	0	0	0	0	1	0	0	0	12145	680	24	3	563	3	PNCK	23	152937050	Missense_Mutation	SNP	C	TCGA-66-2786-01A-01D-1522-08	115465	152937050	2333510	265	58933										
PDZD4	57595	broad.mit.edu	37	chrX	153070266	153070266	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	tcttcgttccgggtgctctcGtcagtccggcccaccccgct	10	18	3	0			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:153070266G>T	uc004fiz.1	-	8	1102	c.852C>A	c.(850-852)GAC>GAA	p.D284E	PDZD4_uc004fiy.1_Missense_Mutation_p.D209E|PDZD4_uc004fix.2_Missense_Mutation_p.D188E|PDZD4_uc004fja.1_Missense_Mutation_p.D290E|PDZD4_uc011mze.1_Missense_Mutation_p.D175E	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	284						cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGGTGCTCTCGTCAGTCCGGC	0.667													10	85	---	---	---	---	PASS	T	153070266	T	T	153070266	3	4	164	1	0	0	0	0	1	0	0	0	11703	1136	40	1	1461	1	PDZD4	23	153070266	Missense_Mutation	SNP	G	TCGA-66-2786-01A-01D-1522-08	133216	153070266	2200294	266	58934										
FLNA	2316	broad.mit.edu	37	chrX	153585881	153585881	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.19622641509434	52	1.02688532032567e-10	2.6365486213527	3.40999767495931	2.11777181710436	0.852011098744621	1	32	aaggggatctcgtcaccaccGtacttgatgaggatggtgta	13	8	2	2			TCGA-66-2786-01A-01D-1522-08	TCGA-66-2786-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	999a6582-33cf-47ca-b268-9b2da102e99b	e029f62d-7883-4ae8-a6dd-3c8a9cbe1f4f	g.chrX:153585881G>A	uc004fkk.2	-	29	5115	c.4866C>T	c.(4864-4866)TAC>TAT	p.Y1622Y	FLNA_uc011mzn.1_Translation_Start_Site|FLNA_uc010nuu.1_Silent_p.Y1622Y	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1622	Filamin 14.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CGTCACCACCGTACTTGATGA	0.617													19	38	---	---	---	---	PASS	A	153585881	A	A	153585881	2	1	164	1	0	0	0	0	0	0	0	1	5933	1140	40	1		1	FLNA	23	153585881	Silent	SNP	G	TCGA-66-2786-01A-01D-1522-08	515615	153585881	1684679	267	58935										
PRDM16	63976	broad.mit.edu	37	chr1	3328212	3328212	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cctcaatcacgccagcctggGcttcaacgagtactttccct	7	16	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:3328212G>T	uc001akf.2	+	9	1531	c.1451G>T	c.(1450-1452)GGC>GTC	p.G484V	PRDM16_uc001akc.2_Missense_Mutation_p.G484V|PRDM16_uc001akd.2_Missense_Mutation_p.G484V|PRDM16_uc001ake.2_Missense_Mutation_p.G484V|PRDM16_uc009vlh.2_Missense_Mutation_p.G185V	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	484	Pro-rich.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		GCCAGCCTGGGCTTCAACGAG	0.687			T	EVI1	MDS|AML								17	24	---	---	---	---	PASS	T	3328212	T	T	3328212	3	4	165	1	0	0	0	0	1	0	0	0	12457	1203	42	3	1485	3	PRDM16	1	3328212	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08		3328212	245922409	1	58936										
CLSTN1	22883	broad.mit.edu	37	chr1	9791432	9791432	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cacaccacgatcacaactgtCgcagtgctggggacgactgt	11	13	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:9791432C>A	uc001aqh.2	-	18	3339	c.2580G>T	c.(2578-2580)GCG>GCT	p.A860A	CLSTN1_uc001aqi.2_Silent_p.A850A|CLSTN1_uc010oag.1_Silent_p.A841A|CLSTN1_uc001aqf.2_Silent_p.A96A	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	860	Helical; (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		TCACAACTGTCGCAGTGCTGG	0.627													13	19	---	---	---	---	PASS	A	9791432	A	A	9791432	2	1	165	1	0	0	0	0	0	0	0	1	3561	871	31	2		2	CLSTN1	1	9791432	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	6463220	9791432	239459189	2	58937										
MTOR	2475	broad.mit.edu	37	chr1	11187830	11187830	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttcatgccacatctcatgccAgaggatggccactcggatca	9	13	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:11187830A>C	uc001asd.2	-	44	6188	c.6067T>G	c.(6067-6069)TGG>GGG	p.W2023G	MTOR_uc001asc.2_Missense_Mutation_p.W228G	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	2023					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						ATCTCATGCCAGAGGATGGCC	0.517													10	105	---	---	---	---	PASS	C	11187830	C	C	11187830	3	2	165	1	0	0	0	0	1	0	0	0	9954	188	7	5	1642	5	MTOR	1	11187830	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1396398	11187830	238062791	3	58938										
EPHB2	2048	broad.mit.edu	37	chr1	23240007	23240007	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gccaccagaaaaaaatcctgAacagtatccaggtgatgcgg	10	10	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:23240007A>T	uc009vqj.1	+	16	3050	c.2905A>T	c.(2905-2907)AAC>TAC	p.N969Y	EPHB2_uc001bge.2_Missense_Mutation_p.N970Y|EPHB2_uc001bgf.2_Missense_Mutation_p.N969Y|EPHB2_uc010odu.1_Missense_Mutation_p.N911Y	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	969	Cytoplasmic (Potential).|SAM.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		AAAAATCCTGAACAGTATCCA	0.557									Hereditary_Prostate_Cancer				8	20	---	---	---	---	PASS	T	23240007	T	T	23240007	3	4	165	1	0	0	0	0	1	0	0	0	5175	246	9	5	2970	5	EPHB2	1	23240007	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	12052177	23240007	226010614	4	58939										
HMGB4	127540	broad.mit.edu	37	chr1	34330035	34330035	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atgatgaattatgttggcaaGaggaagaaacggagaaagcg	14	3	0	5			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:34330035G>T	uc001bxp.2	+	2	1986	c.243G>T	c.(241-243)AAG>AAT	p.K81N	CSMD2_uc001bxm.1_Intron|CSMD2_uc001bxn.1_Intron|HMGB4_uc001bxq.2_Missense_Mutation_p.K7N	NM_145205	NP_660206	Q8WW32	HMGB4_HUMAN	HMG2 like isoform 1	81						nucleus	DNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				ATGTTGGCAAGAGGAAGAAAC	0.493													6	96	---	---	---	---	PASS	T	34330035	T	T	34330035	3	4	165	1	0	0	0	0	1	0	0	0	7228	933	33	2	245	2	HMGB4	1	34330035	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	11090028	34330035	214920586	5	58940										
SNIP1	79753	broad.mit.edu	37	chr1	38019758	38019758	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgcttcaccaccacccccgCcggcagcaccacgtccccgt	7	23	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:38019758C>A	uc001cbi.2	-	1	146	c.73G>T	c.(73-75)GCG>TCG	p.A25S	SNIP1_uc010oid.1_RNA|DNALI1_uc001cbj.2_5'Flank|DNALI1_uc010oie.1_5'Flank	NM_024700	NP_078976	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein	25					production of miRNAs involved in gene silencing by miRNA	nucleus	protein binding			upper_aerodigestive_tract(1)|lung(1)	2		Myeloproliferative disorder(586;0.0393)				ACCACCCCCGCCGGCAGCACC	0.672													7	4	---	---	---	---	PASS	A	38019758	A	A	38019758	3	1	165	1	0	0	0	0	1	0	0	0	14848	739	26	3	1133	3	SNIP1	1	38019758	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3689723	38019758	211230863	6	58941										
CDC20	991	broad.mit.edu	37	chr1	43825396	43825396	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttcactaccctttatgccagGaacatcagaaagcctgggct	8	12	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:43825396G>A	uc001cix.2	+	4	432	c.331G>A	c.(331-333)GAA>AAA	p.E111K	CDC20_uc001ciy.2_Missense_Mutation_p.E111K	NM_001255	NP_001246	Q12834	CDC20_HUMAN	cell division cycle 20	111					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of synapse maturation|positive regulation of synaptic plasticity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	cytosol|nucleoplasm|spindle	enzyme binding|protein C-terminus binding				0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				TTTATGCCAGGAACATCAGAA	0.502													60	94	---	---	---	---	PASS	A	43825396	A	A	43825396	3	1	165	1	0	0	0	0	1	0	0	0	3059	1188	41	2	341	2	CDC20	1	43825396	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	5805638	43825396	205425225	7	58942										
CYP4X1	260293	broad.mit.edu	37	chr1	47504418	47504418	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggaagtaccaggattttctgGatattgtcctttctgccaag	10	8	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:47504418G>T	uc001cqt.2	+	7	1112	c.862G>T	c.(862-864)GAT>TAT	p.D288Y	CYP4X1_uc001cqr.2_Missense_Mutation_p.D287Y|CYP4X1_uc001cqs.2_Missense_Mutation_p.D223Y	NM_178033	NP_828847	Q8N118	CP4X1_HUMAN	cytochrome P450, family 4, subfamily X,	288						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2						GGATTTTCTGGATATTGTCCT	0.423													12	25	---	---	---	---	PASS	T	47504418	T	T	47504418	3	4	165	1	0	0	0	0	1	0	0	0	4193	1174	41	2	888	2	CYP4X1	1	47504418	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3679022	47504418	201746203	8	58943										
C1orf173	127254	broad.mit.edu	37	chr1	75055611	75055611	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggtgagactttcttggcttaTcattttcactcagttcctga	8	9	4	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:75055611T>C	uc001dgg.2	-	12	2099	c.1880A>G	c.(1879-1881)GAT>GGT	p.D627G	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Missense_Mutation_p.D421G	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	627	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TCTTGGCTTATCATTTTCACT	0.453													3	67	---	---	---	---	PASS	C	75055611	C	C	75055611	3	2	165	1	0	0	0	0	1	0	0	0	2014	1435	50	5	2724	5	C1orf173	1	75055611	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	27551193	75055611	174195010	9	58944										
EVI5	7813	broad.mit.edu	37	chr1	92979449	92979449	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atggaatgattcatcatctcCtattaaatggttgacaatgt	7	6	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:92979449C>A	uc001dox.2	-	18	2207	c.2197G>T	c.(2197-2199)GGA>TGA	p.G733*	EVI5_uc010otf.1_Nonsense_Mutation_p.G744*	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	733	Targeting to the centrosomes.|Interaction with AURKB and INCENP.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		TCATCATCTCCTATTAAATGG	0.408													4	28	---	---	---	---	PASS	A	92979449	A	A	92979449	4	1	165	1	0	0	0	0	0	1	0	0	5289	690	24	3	239	3	EVI5	1	92979449	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	17923838	92979449	156271172	10	58945										
COL11A1	1301	broad.mit.edu	37	chr1	103355028	103355028	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caccccatccccttttgctcCtggagatccttgagttccag	7	16	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:103355028C>A	uc001dul.2	-	59	4765	c.4447G>T	c.(4447-4449)GGA>TGA	p.G1483*	COL11A1_uc001duk.2_Nonsense_Mutation_p.G679*|COL11A1_uc001dum.2_Nonsense_Mutation_p.G1495*|COL11A1_uc001dun.2_Nonsense_Mutation_p.G1444*|COL11A1_uc009weh.2_Nonsense_Mutation_p.G1367*	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1483	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCTTTTGCTCCTGGAGATCCT	0.383													24	27	---	---	---	---	PASS	A	103355028	A	A	103355028	4	1	165	1	0	0	0	0	0	1	0	0	3667	690	24	3	1009	3	COL11A1	1	103355028	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	10375579	103355028	145895593	11	58946										
CSF1	1435	broad.mit.edu	37	chr1	110466223	110466223	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gacagagctttccccctccaGgccaggagggggcagcatgc	14	14	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:110466223G>T	uc001dyu.2	+	6	1393	c.980G>T	c.(979-981)AGG>ATG	p.R327M	CSF1_uc001dyt.2_Missense_Mutation_p.R327M|CSF1_uc001dyv.3_Intron|CSF1_uc001dyw.3_Missense_Mutation_p.R327M	NM_172212	NP_757351	P09603	CSF1_HUMAN	colony stimulating factor 1 isoform a precursor	327	Lumenal (Potential).				cell proliferation|developmental process involved in reproduction|macrophage differentiation|monocyte activation|osteoclast differentiation|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of cellular protein metabolic process|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|positive regulation of macrophage differentiation|positive regulation of monocyte differentiation|positive regulation of mononuclear cell proliferation|positive regulation of protein kinase activity	extracellular space|integral to membrane|perinuclear region of cytoplasm|plasma membrane|receptor complex	cytokine activity|growth factor activity|macrophage colony-stimulating factor receptor binding|protein homodimerization activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Acute lymphoblastic leukemia(138;0.204)		Lung(183;0.0238)|Colorectal(144;0.112)|all cancers(265;0.117)|Epithelial(280;0.127)|LUSC - Lung squamous cell carcinoma(189;0.135)		TCCCCCTCCAGGCCAGGAGGG	0.592											OREG0013645	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	22	---	---	---	---	PASS	T	110466223	T	T	110466223	3	4	165	1	0	0	0	0	1	0	0	0	3931	1000	35	3	1002	3	CSF1	1	110466223	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	7111195	110466223	138784398	12	58947										
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112999425	112999425	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccggtactcactaagcgtttAttggggtcatcagctagcag	11	10	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:112999425A>T	uc001ebx.2	+	6	1539	c.1311A>T	c.(1309-1311)TTA>TTT	p.L437F	CTTNBP2NL_uc001ebz.2_5'Flank	NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	437						actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTAAGCGTTTATTGGGGTCAT	0.552													51	110	---	---	---	---	PASS	T	112999425	T	T	112999425	3	4	165	1	0	0	0	0	1	0	0	0	4046	446	16	5	1325	5	CTTNBP2NL	1	112999425	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	2533202	112999425	136251196	13	58948										
THEM4	117145	broad.mit.edu	37	chr1	151861829	151861829	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgggcctgtgacatttgttCttctttcataagctttgggt	10	8	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:151861829C>T	uc001ezj.1	-	3	486	c.307G>A	c.(307-309)GAA>AAA	p.E103K	THEM4_uc001ezk.1_RNA	NM_053055	NP_444283	Q5T1C6	THEM4_HUMAN	thioesterase superfamily member 4	103					insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|ruffle membrane					0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			GACATTTGTTCTTCTTTCATA	0.453													21	31	---	---	---	---	PASS	T	151861829	T	T	151861829	3	4	165	1	0	0	0	0	1	0	0	0	15855	922	32	2	431	2	THEM4	1	151861829	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	38862404	151861829	97388792	14	58949										
S100A11	6282	broad.mit.edu	37	chr1	152006196	152006196	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gagagagtgtagttataaccAtcctttccagcatacttctg	8	9	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:152006196A>G	uc001ezn.2	-	2	204	c.84T>C	c.(82-84)GAT>GAC	p.D28D	uc001ezm.1_Intron	NM_005620	NP_005611	P31949	S10AB_HUMAN	S100 calcium binding protein A11	28	1; low affinity (Potential).|EF-hand 1.				negative regulation of cell proliferation|negative regulation of DNA replication|signal transduction	cytoplasm|nucleus|ruffle	calcium ion binding|calcium-dependent protein binding|protein homodimerization activity|S100 beta binding				0	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			AGTTATAACCATCCTTTCCAG	0.473													29	50	---	---	---	---	PASS	G	152006196	G	G	152006196	2	3	165	1	0	0	0	0	0	0	0	1	13773	214	8	5		5	S100A11	1	152006196	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	144367	152006196	97244425	15	58950										
FLG2	388698	broad.mit.edu	37	chr1	152328465	152328465	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aagccagaggattgtcctgaGccagacccatgttgtccaaa	10	11	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:152328465G>T	uc001ezw.3	-	3	1870	c.1797C>A	c.(1795-1797)GGC>GGA	p.G599G	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	599	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATTGTCCTGAGCCAGACCCAT	0.522													76	122	---	---	---	---	PASS	T	152328465	T	T	152328465	2	4	165	1	0	0	0	0	0	0	0	1	5923	958	34	3		3	FLG2	1	152328465	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	322269	152328465	96922156	16	58951										
YY1AP1	55249	broad.mit.edu	37	chr1	155657886	155657886	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcggaggccgagagcgatgaGagtacagggaagtgaggaag	19	5	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:155657886G>T	uc001fln.2	-	2	178	c.154C>A	c.(154-156)CTC>ATC	p.L52I	YY1AP1_uc010pgi.1_Missense_Mutation_p.L124I|YY1AP1_uc001flh.2_Missense_Mutation_p.L124I|YY1AP1_uc009wqt.2_5'UTR|YY1AP1_uc001flk.2_5'UTR|YY1AP1_uc001fll.2_Intron|YY1AP1_uc009wqv.2_5'UTR|YY1AP1_uc001flm.2_5'UTR|YY1AP1_uc001fli.2_5'UTR|YY1AP1_uc009wqu.2_5'UTR|YY1AP1_uc001flj.2_5'UTR|YY1AP1_uc009wqw.2_5'UTR|YY1AP1_uc001flo.2_Intron|YY1AP1_uc001flp.2_Intron|YY1AP1_uc010pgj.1_Missense_Mutation_p.L52I|YY1AP1_uc009wqx.2_Missense_Mutation_p.L124I|YY1AP1_uc010pgk.1_Missense_Mutation_p.L124I|DAP3_uc001flq.2_5'Flank|DAP3_uc001flr.2_5'Flank|DAP3_uc001fls.2_5'Flank|DAP3_uc010pgl.1_5'Flank|DAP3_uc001flt.2_5'Flank|DAP3_uc001flu.2_5'Flank|DAP3_uc010pgm.1_5'Flank	NM_139118	NP_620829	Q9H869	YYAP1_HUMAN	YY1-associated protein isoform 2	52					regulation of cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					AGAGCGATGAGAGTACAGGGA	0.642													5	35	---	---	---	---	PASS	T	155657886	T	T	155657886	3	4	165	1	0	0	0	0	1	0	0	0	17505	942	33	2	2336	2	YY1AP1	1	155657886	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3329421	155657886	93592735	17	58952										
ARHGEF11	9826	broad.mit.edu	37	chr1	156926247	156926247	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaagaacggtagccacttgtCcttgtcaggagcagactggg	14	9	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:156926247C>A	uc001fqo.2	-	18	2556	c.1516G>T	c.(1516-1518)GAC>TAC	p.D506Y	ARHGEF11_uc001fqn.2_Missense_Mutation_p.D546Y|ARHGEF11_uc001fqp.1_Missense_Mutation_p.D35Y	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	506					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)					AGCCACTTGTCCTTGTCAGGA	0.383													55	33	---	---	---	---	PASS	A	156926247	A	A	156926247	3	1	165	1	0	0	0	0	1	0	0	0	896	855	30	2	3144	2	ARHGEF11	1	156926247	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1268361	156926247	92324374	18	58953										
OR10T2	128360	broad.mit.edu	37	chr1	158369188	158369188	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acaaaaagcagcagctggagCtcccccaggctggagaaacc	11	13	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:158369188C>T	uc010pih.1	-	1	69	c.69G>A	c.(67-69)GAG>GAA	p.E23E		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	23	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					GCAGCTGGAGCTCCCCCAGGC	0.478													6	24	---	---	---	---	PASS	T	158369188	T	T	158369188	2	4	165	1	0	0	0	0	0	0	0	1	10919	796	28	3		3	OR10T2	1	158369188	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	1442941	158369188	90881433	19	58954										
NUF2	83540	broad.mit.edu	37	chr1	163295923	163295923	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agatcttaacaggagctgatGgtaaaaacctcaccaagaat	8	8	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:163295923G>T	uc001gcq.1	+	2	382	c.82G>T	c.(82-84)GGT>TGT	p.G28C	NUF2_uc001gcp.2_Missense_Mutation_p.G28C|NUF2_uc001gcr.1_Missense_Mutation_p.G28C|NUF2_uc009wvc.1_Missense_Mutation_p.G28C	NM_145697	NP_663735	Q9BZD4	NUF2_HUMAN	NUF2, NDC80 kinetochore complex component	28	Interaction with the N-terminus of NDC80.				cell division|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding			ovary(3)|skin(1)	4	all_hematologic(923;0.101)					AGGAGCTGATGGTAAAAACCT	0.358													5	67	---	---	---	---	PASS	T	163295923	T	T	163295923	3	4	165	1	0	0	0	0	1	0	0	0	10747	1348	47	3	84	3	NUF2	1	163295923	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	4926735	163295923	85954698	20	58955										
MAEL	84944	broad.mit.edu	37	chr1	166990397	166990397	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaagatcaaacacacccattGgtaagcaacttatattttac	4	9	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:166990397G>T	uc001gdy.1	+	11	1188	c.1117G>T	c.(1117-1119)GGT>TGT	p.G373C	MAEL_uc001gdz.1_Missense_Mutation_p.G342C|MAEL_uc009wvf.1_RNA	NM_032858	NP_116247	Q96JY0	MAEL_HUMAN	maelstrom homolog	373					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|multicellular organismal development|piRNA metabolic process|spermatogenesis	piP-body	DNA binding			skin(1)	1						CACACCCATTGGTAAGCAACT	0.363													5	42	---	---	---	---	PASS	T	166990397	T	T	166990397	3	4	165	1	0	0	0	0	1	0	0	0	9154	1362	47	3	1159	3	MAEL	1	166990397	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3694474	166990397	82260224	21	58956										
POU2F1	5451	broad.mit.edu	37	chr1	167301757	167301757	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtaaaccatctatggagagtGgagatggcaacacaggtaag	13	6	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:167301757G>A	uc001gec.2	+	3	205	c.43G>A	c.(43-45)GGA>AGA	p.G15R	POU2F1_uc010plg.1_RNA|POU2F1_uc001ged.2_5'UTR|POU2F1_uc001gee.2_Missense_Mutation_p.G15R|POU2F1_uc010plh.1_Missense_Mutation_p.G15R|POU2F1_uc001gef.2_Missense_Mutation_p.G27R	NM_002697	NP_002688	P14859	PO2F1_HUMAN	POU class 2 homeobox 1	15					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|skin(2)|breast(1)	5						TATGGAGAGTGGAGATGGCAA	0.373													4	55	---	---	---	---	PASS	A	167301757	A	A	167301757	3	1	165	1	0	0	0	0	1	0	0	0	12271	1349	47	3	45	3	POU2F1	1	167301757	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	311360	167301757	81948864	22	58957										
BAT2L2	23215	broad.mit.edu	37	chr1	171509367	171509367	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttcagctgtagaaagtcagcCttcccggaaaagaagtgttt	10	8	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:171509367C>T	uc010pmg.1	+	16	3022	c.2756C>T	c.(2755-2757)CCT>CTT	p.P919L	BAT2L2_uc010pmh.1_5'UTR	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	919							protein C-terminus binding				0						GAAAGTCAGCCTTCCCGGAAA	0.453													12	70	---	---	---	---	PASS	T	171509367	T	T	171509367	3	4	165	1	0	0	0	0	1	0	0	0	1321	681	24	3	2814	3	BAT2L2	1	171509367	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	4207610	171509367	77741254	23	58958										
PAPPA2	60676	broad.mit.edu	37	chr1	176564488	176564488	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cctgcgacaccgggttgtgcTtgtgaactgtgagcccagca	13	12	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:176564488T>A	uc001gkz.2	+	3	2912	c.1748T>A	c.(1747-1749)CTT>CAT	p.L583H	PAPPA2_uc001gky.1_Missense_Mutation_p.L583H|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	583	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CGGGTTGTGCTTGTGAACTGT	0.597													74	54	---	---	---	---	PASS	A	176564488	A	A	176564488	3	1	165	1	0	0	0	0	1	0	0	0	11433	1609	56	5	1754	5	PAPPA2	1	176564488	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	5055121	176564488	72686133	24	58959										
FAM5B	57795	broad.mit.edu	37	chr1	177247876	177247876	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acgccggctcttcaacctctGcaagcgctgccatcgccagc	9	18	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:177247876G>A	uc001glf.2	+	7	1502	c.1190G>A	c.(1189-1191)TGC>TAC	p.C397Y	FAM5B_uc010pna.1_Missense_Mutation_p.C147Y|FAM5B_uc001glg.2_Missense_Mutation_p.C292Y	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	397						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TTCAACCTCTGCAAGCGCTGC	0.617													48	48	---	---	---	---	PASS	A	177247876	A	A	177247876	3	1	165	1	0	0	0	0	1	0	0	0	5593	1319	46	3	1212	3	FAM5B	1	177247876	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	683388	177247876	72002745	25	58960										
C1orf125	126859	broad.mit.edu	37	chr1	179462086	179462086	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tatgaggtggataagttgaaGgtaataactctgtcttcccc	10	7	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:179462086G>C	uc001gmo.2	+	20	2515	c.2388G>C	c.(2386-2388)AAG>AAC	p.K796N	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.K796N|C1orf125_uc009wxh.2_RNA	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	796											0						ATAAGTTGAAGGTAATAACTC	0.279													26	35	---	---	---	---	PASS	C	179462086	C	C	179462086	3	2	165	1	0	0	0	0	1	0	0	0	1993	1014	35	4	2462	4	C1orf125	1	179462086	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2214210	179462086	69788535	26	58961										
TDRD5	163589	broad.mit.edu	37	chr1	179632621	179632621	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atactggcacaaacaggactCaaaaggtaaatgtctaatgc	8	8	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:179632621C>T	uc001gnf.1	+	15	2732	c.2482C>T	c.(2482-2484)CAA>TAA	p.Q828*	TDRD5_uc010pnp.1_Nonsense_Mutation_p.Q882*|TDRD5_uc001gnh.1_Nonsense_Mutation_p.Q383*	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	828					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						AAACAGGACTCAAAAGGTAAA	0.348													19	26	---	---	---	---	PASS	T	179632621	T	T	179632621	4	4	165	1	0	0	0	0	0	1	0	0	15730	827	29	2	2536	2	TDRD5	1	179632621	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	170535	179632621	69618000	27	58962										
SMG7	9887	broad.mit.edu	37	chr1	183518931	183518931	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aataatagtatgttcaatgaGgtatatgggaaaaacctgac	9	4	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:183518931G>T	uc001gqg.2	+	19	2978	c.2856G>T	c.(2854-2856)GAG>GAT	p.E952D	SMG7_uc001gqf.2_Missense_Mutation_p.E956D|SMG7_uc001gqh.2_Missense_Mutation_p.E906D|SMG7_uc001gqi.2_Missense_Mutation_p.E864D|SMG7_uc010poc.1_Missense_Mutation_p.E960D	NM_173156	NP_775179	Q92540	SMG7_HUMAN	SMG-7 homolog isoform 1	952	Ser-rich.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|intermediate filament cytoskeleton|nucleus	protein phosphatase 2A binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TGTTCAATGAGGTATATGGGA	0.418													5	85	---	---	---	---	PASS	T	183518931	T	T	183518931	3	4	165	1	0	0	0	0	1	0	0	0	14798	991	35	3	3084	3	SMG7	1	183518931	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3886310	183518931	65731690	28	58963										
C1orf26	54823	broad.mit.edu	37	chr1	185143653	185143653	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tggaactaaaaaagacatacAtaaatgtgtagactttaaac	6	5	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:185143653A>G	uc001grg.3	+	5	488	c.374A>G	c.(373-375)CAT>CGT	p.H125R	C1orf26_uc001grh.3_Missense_Mutation_p.H125R	NM_001105518	NP_001098988	Q5T5J6	SWT1_HUMAN	hypothetical protein LOC54823	125											0						AAAGACATACATAAATGTGTA	0.328													20	19	---	---	---	---	PASS	G	185143653	G	G	185143653	3	3	165	1	0	0	0	0	1	0	0	0	2035	217	8	5	388	5	C1orf26	1	185143653	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1624722	185143653	64106968	29	58964										
PLA2G4A	5321	broad.mit.edu	37	chr1	186946790	186946790	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttccaaagattgatccttaTgtgtttgatcgggaagggct	11	6	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:186946790T>C	uc001gsc.2	+	16	2035	c.1830T>C	c.(1828-1830)TAT>TAC	p.Y610Y	PLA2G4A_uc010pos.1_Silent_p.Y550Y	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	610	PLA2c.				phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	TTGATCCTTATGTGTTTGATC	0.413													9	66	---	---	---	---	PASS	C	186946790	C	C	186946790	2	2	165	1	0	0	0	0	0	0	0	1	12001	1471	51	5		5	PLA2G4A	1	186946790	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08	1803137	186946790	62303831	30	58965										
KIF21B	23046	broad.mit.edu	37	chr1	200946367	200946367	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gctcccagatgcggacggcaTtgcccgaggcggcgtacagc	15	14	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:200946367T>A	uc001gvs.1	-	31	4615	c.4298A>T	c.(4297-4299)AAT>ATT	p.N1433I	KIF21B_uc001gvr.1_Missense_Mutation_p.N1420I|KIF21B_uc009wzl.1_Missense_Mutation_p.N1433I|KIF21B_uc010ppn.1_Missense_Mutation_p.N1420I	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	1433	WD 3.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						GCGGACGGCATTGCCCGAGGC	0.637													8	75	---	---	---	---	PASS	A	200946367	A	A	200946367	3	1	165	1	0	0	0	0	1	0	0	0	8289	1493	52	5	635	5	KIF21B	1	200946367	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	13999577	200946367	48304254	31	58966										
KDM5B	10765	broad.mit.edu	37	chr1	202711560	202711560	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaggacacatggaagagcatAcagctgtgttacaaactgcc	11	9	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:202711560A>G	uc001gyf.2	-	18	2664	c.2548T>C	c.(2548-2550)TAT>CAT	p.Y850H	KDM5B_uc009xag.2_Missense_Mutation_p.Y886H|KDM5B_uc001gyg.1_Missense_Mutation_p.Y692H	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	850					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						GGAAGAGCATACAGCTGTGTT	0.433													12	78	---	---	---	---	PASS	G	202711560	G	G	202711560	3	3	165	1	0	0	0	0	1	0	0	0	8134	391	14	5	2126	5	KDM5B	1	202711560	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1765193	202711560	46539061	32	58967										
PIGR	5284	broad.mit.edu	37	chr1	207107865	207107865	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	taccagccctcatcagccctGgtcaccaggttcagggtcag	10	15	5	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:207107865G>T	uc001hez.2	-	6	1789	c.1605C>A	c.(1603-1605)ACC>ACA	p.T535T	PIGR_uc009xbz.2_Silent_p.T535T	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	535	Ig-like V-type 5.|Extracellular (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CATCAGCCCTGGTCACCAGGT	0.612													14	62	---	---	---	---	PASS	T	207107865	T	T	207107865	2	4	165	1	0	0	0	0	0	0	0	1	11897	1335	47	3		3	PIGR	1	207107865	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	4396305	207107865	42142756	33	58968										
PIGR	5284	broad.mit.edu	37	chr1	207107996	207107996	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccacttgcaccagtatttctCgtacgaggagaatttgcatg	9	10	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:207107996C>A	uc001hez.2	-	6	1658	c.1474G>T	c.(1474-1476)GAG>TAG	p.E492*	PIGR_uc009xbz.2_Nonsense_Mutation_p.E492*	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	492	Ig-like V-type 5.|Extracellular (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CAGTATTTCTCGTACGAGGAG	0.562													4	44	---	---	---	---	PASS	A	207107996	A	A	207107996	4	1	165	1	0	0	0	0	0	1	0	0	11897	893	31	2	844	2	PIGR	1	207107996	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	131	207107996	42142625	34	58969										
USH2A	7399	broad.mit.edu	37	chr1	215848148	215848148	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acatacattcatttgagtggCactgacggcccaaagatctg	9	10	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:215848148C>A	uc001hku.1	-	63	13492	c.13105G>T	c.(13105-13107)GCC>TCC	p.A4369S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4369	Extracellular (Potential).|Fibronectin type-III 29.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATTTGAGTGGCACTGACGGCC	0.483										HNSCC(13;0.011)			22	22	---	---	---	---	PASS	A	215848148	A	A	215848148	3	1	165	1	0	0	0	0	1	0	0	0	17033	710	25	3	2543	3	USH2A	1	215848148	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	8740152	215848148	33402473	35	58970										
USH2A	7399	broad.mit.edu	37	chr1	215848713	215848713	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgaattatttttccatttggGttaacaggctcagaccagct	8	9	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:215848713G>T	uc001hku.1	-	63	12927	c.12540C>A	c.(12538-12540)AAC>AAA	p.N4180K		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4180	Extracellular (Potential).|Fibronectin type-III 27.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTCCATTTGGGTTAACAGGCT	0.488										HNSCC(13;0.011)			29	56	---	---	---	---	PASS	T	215848713	T	T	215848713	3	4	165	1	0	0	0	0	1	0	0	0	17033	1252	44	3	3108	3	USH2A	1	215848713	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	565	215848713	33401908	36	58971										
USH2A	7399	broad.mit.edu	37	chr1	216405331	216405331	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caaatccaaagtaatggtctTtgcattggtcacaacgttgc	8	9	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:216405331T>A	uc001hku.1	-	14	3344	c.2957A>T	c.(2956-2958)AAA>ATA	p.K986I	USH2A_uc001hkv.2_Missense_Mutation_p.K986I	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	986	Extracellular (Potential).|Laminin EGF-like 9.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GTAATGGTCTTTGCATTGGTC	0.393										HNSCC(13;0.011)			21	137	---	---	---	---	PASS	A	216405331	A	A	216405331	3	1	165	1	0	0	0	0	1	0	0	0	17033	1841	64	5	12901	5	USH2A	1	216405331	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	556618	216405331	32845290	37	58972										
OBSCN	84033	broad.mit.edu	37	chr1	228437810	228437810	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgggaagaagctgagctccaGctcgaaagttcgaatggagg	15	8	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:228437810G>T	uc009xez.1	+	14	4222	c.4178G>T	c.(4177-4179)AGC>ATC	p.S1393I	OBSCN_uc001hsn.2_Missense_Mutation_p.S1393I	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1393	Poly-Ser.|Ig-like 14.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CTGAGCTCCAGCTCGAAAGTT	0.672													6	84	---	---	---	---	PASS	T	228437810	T	T	228437810	3	4	165	1	0	0	0	0	1	0	0	0	10812	971	34	3	4228	3	OBSCN	1	228437810	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	12032479	228437810	20812811	38	58973										
KIAA1804	84451	broad.mit.edu	37	chr1	233507859	233507859	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cctgaacagcagcagttccaGtcccccgagcagccccacaa	8	18	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:233507859G>T	uc001hvt.3	+	6	1889	c.1628G>T	c.(1627-1629)AGT>ATT	p.S543I	KIAA1804_uc001hvs.1_Missense_Mutation_p.S543I	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	543					activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				AGCAGTTCCAGTCCCCCGAGC	0.567													5	45	---	---	---	---	PASS	T	233507859	T	T	233507859	3	4	165	1	0	0	0	0	1	0	0	0	8259	1029	36	3	1650	3	KIAA1804	1	233507859	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	5070049	233507859	15742762	39	58974										
WDR64	128025	broad.mit.edu	37	chr1	241901793	241901793	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	catggcatgcttattacgggTaagtgtacccaattaatgtc	9	8	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:241901793T>C	uc001hze.1	+	10	1498	c.1291_splice	c.e10+2	p.G431_splice	WDR64_uc001hzf.1_Splice_Site_p.G151_splice			B1ANS9	WDR64_HUMAN	RecName: Full=WD repeat-containing protein 64;											skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			TTATTACGGGTAAGTGTACCC	0.368													7	27	---	---	---	---	PASS	C	241901793	C	C	241901793	5	2	165	1	0	0	0	0	0	0	1	0	17312	1652	57	5	1331	5	WDR64	1	241901793	Splice_Site	SNP	T	TCGA-66-2787-01A-01D-0983-08	8393934	241901793	7348828	40	58975										
ZNF670	93474	broad.mit.edu	37	chr1	247202712	247202712	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aataagtgttgttattcttaCctacagaagccaggttcctg	8	8	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:247202712C>A	uc001icd.1	-	2	301	c.130_splice	c.e2+1	p.G44_splice	ZNF695_uc001ica.2_Intron|ZNF695_uc001icb.1_Intron	NM_033213	NP_149990	Q9BS34	ZN670_HUMAN	zinc finger protein 670						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00427)			GTTATTCTTACCTACAGAAGC	0.313													13	35	---	---	---	---	PASS	A	247202712	A	A	247202712	5	1	165	1	0	0	0	0	0	0	1	0	18074	521	18	3	1050	3	ZNF670	1	247202712	Splice_Site	SNP	C	TCGA-66-2787-01A-01D-0983-08	5300919	247202712	2047909	41	58976										
VN1R5	317705	broad.mit.edu	37	chr1	247419472	247419472	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atcctttgctttaattttccTtctaagatgatcaaacttcc	3	10	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:247419472T>A	uc010pyu.1	+	1	99	c.99T>A	c.(97-99)CCT>CCA	p.P33P		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	33	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			TTAATTTTCCTTCTAAGATGA	0.333													7	58	---	---	---	---	PASS	A	247419472	A	A	247419472	2	1	165	1	0	0	0	0	0	0	0	1	17178	1596	56	5		5	VN1R5	1	247419472	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08	216760	247419472	1831149	42	58977										
OR2C3	81472	broad.mit.edu	37	chr1	247695176	247695176	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgtaagagaccaggatgagcCccagaggcaggacaacaaag	13	10	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:247695176C>A	uc009xgy.2	-	2	1000	c.638G>T	c.(637-639)GGG>GTG	p.G213V	C1orf150_uc009xgw.2_Intron|C1orf150_uc001ida.3_Intron|C1orf150_uc001idb.3_Intron|C1orf150_uc009xgx.2_Intron|LOC148824_uc001idd.2_5'Flank	NM_198074	NP_932340	Q8N628	OR2C3_HUMAN	olfactory receptor, family 2, subfamily C,	213	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0242)	OV - Ovarian serous cystadenocarcinoma(106;0.0241)			CAGGATGAGCCCCAGAGGCAG	0.547													26	18	---	---	---	---	PASS	A	247695176	A	A	247695176	3	1	165	1	0	0	0	0	1	0	0	0	10993	623	22	3	328	3	OR2C3	1	247695176	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	275704	247695176	1555445	43	58978										
OR13G1	441933	broad.mit.edu	37	chr1	247835814	247835814	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aagccagcaatgggggtatcTcacagaagaagtggtcaatg	13	7	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:247835814T>A	uc001idi.1	-	1	530	c.530A>T	c.(529-531)GAG>GTG	p.E177V		NM_001005487	NP_001005487	Q8NGZ3	O13G1_HUMAN	olfactory receptor, family 13, subfamily G,	177	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TGGGGGTATCTCACAGAAGAA	0.468													17	83	---	---	---	---	PASS	A	247835814	A	A	247835814	3	1	165	1	0	0	0	0	1	0	0	0	10942	1551	54	5	397	5	OR13G1	1	247835814	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	140638	247835814	1414807	44	58979										
OR2M2	391194	broad.mit.edu	37	chr1	248343551	248343551	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gccttcaactacctgtctggCagcaagtccatttctatggc	8	13	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:248343551C>A	uc010pzf.1	+	1	264	c.264C>A	c.(262-264)GGC>GGA	p.G88G		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ACCTGTCTGGCAGCAAGTCCA	0.478													21	171	---	---	---	---	PASS	A	248343551	A	A	248343551	2	1	165	1	0	0	0	0	0	0	0	1	11010	697	25	3		3	OR2M2	1	248343551	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	507737	248343551	907070	45	58980										
OR2M3	127062	broad.mit.edu	37	chr1	248366465	248366465	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttcctcttctttctggtcctGgccatcttttcagtggcctt	7	13	5	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:248366465G>C	uc010pzg.1	+	1	96	c.96G>C	c.(94-96)CTG>CTC	p.L32L		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TTCTGGTCCTGGCCATCTTTT	0.532													25	125	---	---	---	---	PASS	C	248366465	C	C	248366465	2	2	165	1	0	0	0	0	0	0	0	1	11011	1335	47	4		4	OR2M3	1	248366465	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	22914	248366465	884156	46	58981										
OR2T4	127074	broad.mit.edu	37	chr1	248525048	248525048	+	Missense_Mutation	SNP	C	A	A													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcttcagacaatccaaacatCcagcactactttgtgtggtc							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:248525048C>A	uc001ieh.1	+	1	166	c.166C>A	c.(166-168)CCA>ACA	p.P56T		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	56	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATCCAAACATCCAGCACTACT	0.483													15	102	---	---	---	---	PASS	A	248525048	A	A	248525048	3	1	165	1	0	0	0	0	1	0	0	0	11027	855	30	2	168	2	OR2T4	1	248525048	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	158583	248525048	725573	47	58982	1044	2								
OR2T4	127074	broad.mit.edu	37	chr1	248525049	248525049	+	Missense_Mutation	SNP	C	T	T													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cttcagacaatccaaacatcCagcactactttgtgtggtca							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:248525049C>T	uc001ieh.1	+	1	167	c.167C>T	c.(166-168)CCA>CTA	p.P56L		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	56	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCCAAACATCCAGCACTACTT	0.483													15	103	---	---	---	---	PASS	T	248525049	T	T	248525049	3	4	165	1	0	0	0	0	1	0	0	0	11027	594	21	3	169	3	OR2T4	1	248525049	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1	248525049	725572	48	58983	1044	2								
OR2T3	343173	broad.mit.edu	37	chr1	248637406	248637406	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgctcctcccacatgatcaTagtgctgctgctcttcggtg	9	14	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr1:248637406T>C	uc001iel.1	+	1	755	c.755T>C	c.(754-756)ATA>ACA	p.I252T		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	252	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CACATGATCATAGTGCTGCTG	0.547													42	111	---	---	---	---	PASS	C	248637406	C	C	248637406	3	2	165	1	0	0	0	0	1	0	0	0	11023	1406	49	5	757	5	OR2T3	1	248637406	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	112357	248637406	613215	49	58984										
MYT1L	23040	broad.mit.edu	37	chr2	1926334	1926334	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtcccgctcatgacacccatCctccttcgcacagctggcaa	7	18	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:1926334C>A	uc002qxe.2	-	10	2034	c.1207G>T	c.(1207-1209)GAT>TAT	p.D403Y	MYT1L_uc002qxd.2_Missense_Mutation_p.D403Y|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	403					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		TGACACCCATCCTCCTTCGCA	0.582													7	50	---	---	---	---	PASS	A	1926334	A	A	1926334	3	1	165	1	0	0	0	0	1	0	0	0	10107	855	30	2	2411	2	MYT1L	2	1926334	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08		1926334	241273039	50	58985										
NBAS	51594	broad.mit.edu	37	chr2	15374743	15374743	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atgtcaagagggccaactgcCacctctagcagctgctgaat	10	12	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:15374743C>A	uc002rcc.1	-	46	6098	c.6072G>T	c.(6070-6072)GTG>GTT	p.V2024V	NBAS_uc002rcb.1_5'UTR|NBAS_uc010exl.1_Silent_p.V1096V|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	2024										ovary(2)|liver(1)|skin(1)	4						GGCCAACTGCCACCTCTAGCA	0.433													6	29	---	---	---	---	PASS	A	15374743	A	A	15374743	2	1	165	1	0	0	0	0	0	0	0	1	10186	581	21	3		3	NBAS	2	15374743	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	13448409	15374743	227824630	51	58986										
CAD	790	broad.mit.edu	37	chr2	27454372	27454372	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgggcgttcatttgaggaggCcttccagaaggccctgcgca	14	11	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:27454372C>T	uc002rji.2	+	16	2486	c.2324C>T	c.(2323-2325)GCC>GTC	p.A775V	CAD_uc010eyw.2_Missense_Mutation_p.A712V	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	775	CPSase (Carbamoyl-phosphate synthase).|CPSase A.				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	TTTGAGGAGGCCTTCCAGAAG	0.547													5	28	---	---	---	---	PASS	T	27454372	T	T	27454372	3	4	165	1	0	0	0	0	1	0	0	0	2565	739	26	3	2386	3	CAD	2	27454372	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	12079629	27454372	215745001	52	58987										
C2orf16	84226	broad.mit.edu	37	chr2	27799968	27799968	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaggcatagatactgtagagAaatctgtggggttgacccca	12	7	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:27799968A>C	uc002rkz.3	+	1	580	c.529A>C	c.(529-531)AAA>CAA	p.K177Q		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	177										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					TACTGTAGAGAAATCTGTGGG	0.418													5	46	---	---	---	---	PASS	C	27799968	C	C	27799968	3	2	165	1	0	0	0	0	1	0	0	0	2157	247	9	5	531	5	C2orf16	2	27799968	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	345596	27799968	215399405	53	58988										
SUPT7L	9913	broad.mit.edu	37	chr2	27876565	27876565	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcttcactttcttgaggctcCattttcacatgggccagatt	7	11	4	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:27876565C>T	uc002rlh.1	-	6	1375	c.1032G>A	c.(1030-1032)ATG>ATA	p.M344I	SUPT7L_uc002rli.1_Missense_Mutation_p.M344I|SUPT7L_uc010ymf.1_Missense_Mutation_p.M209I|SUPT7L_uc002rlj.1_Missense_Mutation_p.M342I|SUPT7L_uc010ezh.1_Missense_Mutation_p.M342I	NM_014860	NP_055675	O94864	ST65G_HUMAN	SPTF-associated factor 65 gamma	344					histone H3 acetylation|maintenance of protein location in nucleus|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					CTTGAGGCTCCATTTTCACAT	0.483													86	133	---	---	---	---	PASS	T	27876565	T	T	27876565	3	4	165	1	0	0	0	0	1	0	0	0	15398	594	21	3	216	3	SUPT7L	2	27876565	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	76597	27876565	215322808	54	58989										
CLIP4	79745	broad.mit.edu	37	chr2	29404610	29404610	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caggtatctggcttggacttGagctccgaagcgccaaggga	14	10	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:29404610G>A	uc002rmv.2	+	16	2208	c.1969G>A	c.(1969-1971)GAG>AAG	p.E657K	CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	657	CAP-Gly 3.									ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					GCTTGGACTTGAGCTCCGAAG	0.537													28	54	---	---	---	---	PASS	A	29404610	A	A	29404610	3	1	165	1	0	0	0	0	1	0	0	0	3535	1291	45	2	2027	2	CLIP4	2	29404610	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1528045	29404610	213794763	55	58990										
ABCG8	64241	broad.mit.edu	37	chr2	44078879	44078879	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcacaaccagctgctccccaActtgactgtgcgagagacct	9	15	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:44078879A>G	uc002rtq.2	+	4	569	c.479A>G	c.(478-480)AAC>AGC	p.N160S	ABCG8_uc010yoa.1_Missense_Mutation_p.N160S	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	160	ABC transporter.|Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CTGCTCCCCAACTTGACTGTG	0.602													10	83	---	---	---	---	PASS	G	44078879	G	G	44078879	3	3	165	1	0	0	0	0	1	0	0	0	72	43	2	5	493	5	ABCG8	2	44078879	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	14674269	44078879	199120494	56	58991										
SRBD1	55133	broad.mit.edu	37	chr2	45616719	45616719	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aggcatactatgcttctcttGaaatcaggtttatcaaaatc	6	8	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:45616719G>T	uc002rus.2	-	21	2794	c.2718C>A	c.(2716-2718)TTC>TTA	p.F906L	SRBD1_uc010yoc.1_Missense_Mutation_p.F425L	NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	906					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			TGCTTCTCTTGAAATCAGGTT	0.353													7	37	---	---	---	---	PASS	T	45616719	T	T	45616719	3	4	165	1	0	0	0	0	1	0	0	0	15132	1281	45	2	273	2	SRBD1	2	45616719	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1537840	45616719	197582654	57	58992										
USP34	9736	broad.mit.edu	37	chr2	61546343	61546343	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atgtttgtaggtttccatacCcatagcatgttgatctttac	7	8	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:61546343C>A	uc002sbe.2	-	22	3155	c.3133G>T	c.(3133-3135)GGT>TGT	p.G1045C		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	1045					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			GTTTCCATACCCATAGCATGT	0.333													15	39	---	---	---	---	PASS	A	61546343	A	A	61546343	3	1	165	1	0	0	0	0	1	0	0	0	17062	623	22	3	7743	3	USP34	2	61546343	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	15929624	61546343	181653030	58	58993										
DCTN1	1639	broad.mit.edu	37	chr2	74593124	74593124	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctctgcacgaagggcagcagCccgcagttcaaccggtggag	14	13	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:74593124C>T	uc002skx.2	-	24	3093	c.2782G>A	c.(2782-2784)GCT>ACT	p.A928T	SLC4A5_uc002skl.2_5'Flank|DCTN1_uc002skt.1_5'Flank|DCTN1_uc002skv.2_Missense_Mutation_p.A794T|DCTN1_uc002sku.2_Missense_Mutation_p.A794T|DCTN1_uc002skw.1_Missense_Mutation_p.A904T|DCTN1_uc010ffd.2_Missense_Mutation_p.A908T|DCTN1_uc002sky.2_Missense_Mutation_p.A891T	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	928					cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						AGGGCAGCAGCCCGCAGTTCA	0.512													21	25	---	---	---	---	PASS	T	74593124	T	T	74593124	3	4	165	1	0	0	0	0	1	0	0	0	4306	739	26	3	1090	3	DCTN1	2	74593124	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	13046781	74593124	168606249	59	58994										
REG3A	5068	broad.mit.edu	37	chr2	79384706	79384706	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tctgtttcttacctgtgcttCtcgacaggctcgcacagtgg	10	12	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:79384706C>T	uc002sod.1	-	4	707	c.452G>A	c.(451-453)AGA>AAA	p.R151K	REG3A_uc002soe.1_Missense_Mutation_p.R151K|REG3A_uc002sof.1_Missense_Mutation_p.R151K	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	151	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						ACCTGTGCTTCTCGACAGGCT	0.517													7	84	---	---	---	---	PASS	T	79384706	T	T	79384706	3	4	165	1	0	0	0	0	1	0	0	0	13212	913	32	2	83	2	REG3A	2	79384706	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	4791582	79384706	163814667	60	58995										
CTNNA2	1496	broad.mit.edu	37	chr2	80096942	80096942	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gttgtttttcaccactgcagGtggaagaggccctggaagct	13	9	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:80096942G>T	uc010ysh.1	+	4	471	c.466G>T	c.(466-468)GTG>TTG	p.V156L	CTNNA2_uc010yse.1_Missense_Mutation_p.V156L|CTNNA2_uc010ysf.1_Missense_Mutation_p.V156L|CTNNA2_uc010ysg.1_Missense_Mutation_p.V156L	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	156					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						ACCACTGCAGGTGGAAGAGGC	0.353													18	52	---	---	---	---	PASS	T	80096942	T	T	80096942	3	4	165	1	0	0	0	0	1	0	0	0	4013	1275	44	3	480	3	CTNNA2	2	80096942	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	712236	80096942	163102431	61	58996										
LRRTM1	347730	broad.mit.edu	37	chr2	80530054	80530054	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttccaagagttgaggatccgGggctcgatgtaggtgaggcg	17	7	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:80530054G>C	uc002sok.1	-	2	1161	c.891C>G	c.(889-891)CCC>CCG	p.P297P	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	297	LRR 9.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						TGAGGATCCGGGGCTCGATGT	0.622										HNSCC(69;0.2)			5	26	---	---	---	---	PASS	C	80530054	C	C	80530054	2	2	165	1	0	0	0	0	0	0	0	1	9039	1219	43	4		4	LRRTM1	2	80530054	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	433112	80530054	162669319	62	58997										
PTCD3	55037	broad.mit.edu	37	chr2	86359468	86359468	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctctcagagatctagaacttGcctaccaagtacatggcctt	7	12	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:86359468G>A	uc002sqw.2	+	17	1360	c.1294G>A	c.(1294-1296)GCC>ACC	p.A432T	PTCD3_uc002sqx.1_Missense_Mutation_p.A22T	NM_017952	NP_060422	Q96EY7	PTCD3_HUMAN	pentatricopeptide repeat domain 3 precursor	432	PPR 7.					mitochondrion	protein binding			ovary(1)	1						TCTAGAACTTGCCTACCAAGT	0.378													27	100	---	---	---	---	PASS	A	86359468	A	A	86359468	3	1	165	1	0	0	0	0	1	0	0	0	12729	1319	46	3	1360	3	PTCD3	2	86359468	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	5829414	86359468	156839905	63	58998										
SLC5A7	60482	broad.mit.edu	37	chr2	108608572	108608572	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tctgtttcagctacctgggtCggaggagggtatatcaatgg	14	7	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:108608572C>T	uc002tdv.2	+	3	465	c.189C>T	c.(187-189)GTC>GTT	p.V63V	SLC5A7_uc010ywm.1_5'UTR|SLC5A7_uc010fjj.2_Silent_p.V63V|SLC5A7_uc010ywn.1_5'UTR	NM_021815	NP_068587	Q9GZV3	SC5A7_HUMAN	solute carrier family 5 (choline transporter),	63	Helical; (Potential).				acetylcholine biosynthetic process|neurotransmitter secretion	integral to membrane|plasma membrane	choline:sodium symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4					Choline(DB00122)	CTACCTGGGTCGGAGGAGGGT	0.368													20	38	---	---	---	---	PASS	T	108608572	T	T	108608572	2	4	165	1	0	0	0	0	0	0	0	1	14670	871	31	2		2	SLC5A7	2	108608572	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	22249104	108608572	134590801	64	58999										
GLI2	2736	broad.mit.edu	37	chr2	121708906	121708906	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gctggccctggggagtccccCttcaacgccccccacccgta	10	20	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:121708906C>T	uc010flp.2	+	3	372	c.342C>T	c.(340-342)CCC>CCT	p.P114P	GLI2_uc010yyu.1_Silent_p.P114P|GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Intron|GLI2_uc002tmu.3_Intron|GLI2_uc002tmv.1_Intron|GLI2_uc010flo.1_5'UTR|GLI2_uc002tmw.1_Silent_p.P114P	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	114					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				GGGAGTCCCCCTTCAACGCCC	0.657													12	32	---	---	---	---	PASS	T	121708906	T	T	121708906	2	4	165	1	0	0	0	0	0	0	0	1	6438	668	24	3		3	GLI2	2	121708906	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	13100334	121708906	121490467	65	59000										
LRP1B	53353	broad.mit.edu	37	chr2	141245278	141245278	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gatgaattcttctctgtaatCaaagtctatagcaataacat	5	7	4	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:141245278C>A	uc002tvj.1	-	58	10123	c.9151G>T	c.(9151-9153)GAT>TAT	p.D3051Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3051	Extracellular (Potential).				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)		TCTCTGTAATCAAAGTCTATA	0.299										TSP Lung(27;0.18)			10	27	---	---	---	---	PASS	A	141245278	A	A	141245278	3	1	165	1	0	0	0	0	1	0	0	0	8955	826	29	2	4784	2	LRP1B	2	141245278	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	19536372	141245278	101954095	66	59001										
LRP1B	53353	broad.mit.edu	37	chr2	141260667	141260667	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttcttctgtaccacactgtcGatatcctagagacgcagaaa	7	11	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:141260667G>T	uc002tvj.1	-	54	9499	c.8527C>A	c.(8527-8529)CGA>AGA	p.R2843R		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2843	Extracellular (Potential).				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)		CCACACTGTCGATATCCTAGA	0.398										TSP Lung(27;0.18)			9	27	---	---	---	---	PASS	T	141260667	T	T	141260667	2	4	165	1	0	0	0	0	0	0	0	1	8955	1066	37	2		2	LRP1B	2	141260667	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	15389	141260667	101938706	67	59002										
LRP1B	53353	broad.mit.edu	37	chr2	141806660	141806660	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	attggtttctgcgtgaaagtCtaaagcacgagggtttacca	11	7	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:141806660C>T	uc002tvj.1	-	11	2656	c.1684G>A	c.(1684-1686)GAC>AAC	p.D562N	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	562	Extracellular (Potential).				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)		GCGTGAAAGTCTAAAGCACGA	0.438										TSP Lung(27;0.18)			14	89	---	---	---	---	PASS	T	141806660	T	T	141806660	3	4	165	1	0	0	0	0	1	0	0	0	8955	913	32	2	12439	2	LRP1B	2	141806660	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	545993	141806660	101392713	68	59003										
ZEB2	9839	broad.mit.edu	37	chr2	145157345	145157345	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccattttttgcctggaaacaGtattgtccacaatctgtaga	7	9	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:145157345G>T	uc002tvu.2	-	8	1889	c.1409C>A	c.(1408-1410)ACT>AAT	p.T470N	ZEB2_uc002tvv.2_Missense_Mutation_p.T464N|ZEB2_uc010zbm.1_Missense_Mutation_p.T441N|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.T499N	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	470	SMAD-MH2 binding domain (By similarity).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		CCTGGAAACAGTATTGTCCAC	0.418													9	53	---	---	---	---	PASS	T	145157345	T	T	145157345	3	4	165	1	0	0	0	0	1	0	0	0	17621	1029	36	3	2247	3	ZEB2	2	145157345	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3350685	145157345	98042028	69	59004										
MBD5	55777	broad.mit.edu	37	chr2	149227994	149227994	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctccagtgataccaaacagcAttgttagcagctataatcaa	6	10	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:149227994A>T	uc002twm.3	+	9	3470	c.2482A>T	c.(2482-2484)ATT>TTT	p.I828F	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.I828F|MBD5_uc002twn.1_Missense_Mutation_p.I269F	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	828						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		ACCAAACAGCATTGTTAGCAG	0.378													5	30	---	---	---	---	PASS	T	149227994	T	T	149227994	3	4	165	1	0	0	0	0	1	0	0	0	9347	217	8	5	2496	5	MBD5	2	149227994	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	4070649	149227994	93971379	70	59005										
NEB	4703	broad.mit.edu	37	chr2	152385743	152385743	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cattggtgttgactttgtagGcgtccttggctgctttgata	12	7	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:152385743G>T	uc010fnx.2	-	118	16804	c.16613C>A	c.(16612-16614)GCC>GAC	p.A5538D	NEB_uc002txr.2_Missense_Mutation_p.A1961D|NEB_uc002txt.3_Missense_Mutation_p.A43D	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	5538	Nebulin 151.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GACTTTGTAGGCGTCCTTGGC	0.438													10	49	---	---	---	---	PASS	T	152385743	T	T	152385743	3	4	165	1	0	0	0	0	1	0	0	0	10302	1203	42	3	4009	3	NEB	2	152385743	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3157749	152385743	90813630	71	59006										
NEB	4703	broad.mit.edu	37	chr2	152402505	152402505	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttgccttatcagtgtataggTaattagacttaaaaaaaaaa	6	4	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:152402505T>A	uc010fnx.2	-	107	15562	c.15371A>T	c.(15370-15372)TAC>TTC	p.Y5124F	NEB_uc002txr.2_Missense_Mutation_p.Y1547F	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	5124					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		AGTGTATAGGTAATTAGACTT	0.338													3	4	---	---	---	---	PASS	A	152402505	A	A	152402505	3	1	165	1	0	0	0	0	1	0	0	0	10302	1638	57	5	5404	5	NEB	2	152402505	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	16762	152402505	90796868	72	59007										
SCN1A	6323	broad.mit.edu	37	chr2	166848156	166848156	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atccatctctccactctctcCtagaacccgctttgtaaaag	4	15	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:166848156C>T	uc010zcz.1	-	26	5614	c.5596G>A	c.(5596-5598)GGA>AGA	p.G1866R		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1877						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CCACTCTCTCCTAGAACCCGC	0.458													19	46	---	---	---	---	PASS	T	166848156	T	T	166848156	3	4	165	1	0	0	0	0	1	0	0	0	13914	690	24	3	404	3	SCN1A	2	166848156	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	14445651	166848156	76351217	73	59008										
XIRP2	129446	broad.mit.edu	37	chr2	167760089	167760089	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtcatcccagggacagccatTgtacaattttccagcctcag	8	13	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:167760089T>A	uc002udx.2	+	1	115	c.97T>A	c.(97-99)TGT>AGT	p.C33S	XIRP2_uc010fpn.2_Missense_Mutation_p.C33S|XIRP2_uc010fpo.2_Missense_Mutation_p.C33S|XIRP2_uc010fpp.2_Missense_Mutation_p.C33S	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	Error:Variant_position_missing_in_A4UGR9_after_alignment					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GGACAGCCATTGTACAATTTT	0.488													4	27	---	---	---	---	PASS	A	167760089	A	A	167760089	3	1	165	1	0	0	0	0	1	0	0	0	17427	1812	63	5	99	5	XIRP2	2	167760089	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	911933	167760089	75439284	74	59009										
LASS6	253782	broad.mit.edu	37	chr2	169626093	169626093	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agaacctccgggaaagaatcCccacactgcgacaaccacca	7	16	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:169626093C>A	uc002ueb.1	+	10	1200	c.1076C>A	c.(1075-1077)CCC>CAC	p.P359H	LASS6_uc002uec.1_Missense_Mutation_p.P367H	NM_203463	NP_982288	Q6ZMG9	CERS6_HUMAN	longevity assurance homolog 6	359	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			skin(1)	1						GGAAAGAATCCCCACACTGCG	0.493													6	45	---	---	---	---	PASS	A	169626093	A	A	169626093	3	1	165	1	0	0	0	0	1	0	0	0	8643	623	22	3	1114	3	LASS6	2	169626093	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1866004	169626093	73573280	75	59010										
LRP2	4036	broad.mit.edu	37	chr2	170175293	170175293	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcaatcttgacgttcatctgAgccatcatcacagtcttgat	7	11	6	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:170175293A>T	uc002ues.2	-	3	502	c.289T>A	c.(289-291)TCA>ACA	p.S97T	LRP2_uc010zdf.1_Missense_Mutation_p.S97T	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	97	LDL-receptor class A 2.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CGTTCATCTGAGCCATCATCA	0.478													9	61	---	---	---	---	PASS	T	170175293	T	T	170175293	3	4	165	1	0	0	0	0	1	0	0	0	8956	304	11	5	13986	5	LRP2	2	170175293	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	549200	170175293	73024080	76	59011										
NFE2L2	4780	broad.mit.edu	37	chr2	178098804	178098804	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgaattgggagaaattcacCtgtctcttcatctagttgta	8	8	4	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:178098804C>T	uc002ulh.3	-	2	796	c.241G>A	c.(241-243)GGT>AGT	p.G81S	NFE2L2_uc002ulg.3_Missense_Mutation_p.G65S|NFE2L2_uc010zfa.1_Missense_Mutation_p.G65S|NFE2L2_uc002uli.3_Missense_Mutation_p.G65S|NFE2L2_uc010fra.2_Missense_Mutation_p.G65S|NFE2L2_uc010frb.2_Missense_Mutation_p.G65S	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	81					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			AGAAATTCACCTGTCTCTTCA	0.438			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			12	29	---	---	---	---	PASS	T	178098804	T	T	178098804	3	4	165	1	0	0	0	0	1	0	0	0	10368	681	24	3	1592	3	NFE2L2	2	178098804	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	7923511	178098804	65100569	77	59012										
TTN	7273	broad.mit.edu	37	chr2	179426284	179426284	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgctgcttctttctttatacTcaagatgatagccaattact	5	9	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:179426284T>C	uc010zfg.1	-	275	77095	c.76871A>G	c.(76870-76872)GAG>GGG	p.E25624G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E19319G|TTN_uc010zfi.1_Missense_Mutation_p.E19252G|TTN_uc010zfj.1_Missense_Mutation_p.E19127G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26551							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)			TTCTTTATACTCAAGATGATA	0.403													7	25	---	---	---	---	PASS	C	179426284	C	C	179426284	3	2	165	1	0	0	0	0	1	0	0	0	16732	1551	54	5	23552	5	TTN	2	179426284	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	1327480	179426284	63773089	78	59013										
TTN	7273	broad.mit.edu	37	chr2	179553856	179553856	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gggacgggtttcttaggcagAgctggcactttagagacatt	14	7	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:179553856A>T	uc010zfg.1	-	122	28511	c.28287T>A	c.(28285-28287)GCT>GCA	p.A9429A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.A6090A|TTN_uc010fre.1_Silent_p.A540A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10356							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)			TCTTAGGCAGAGCTGGCACTT	0.458													8	51	---	---	---	---	PASS	T	179553856	T	T	179553856	2	4	165	1	0	0	0	0	0	0	0	1	16732	291	11	5		5	TTN	2	179553856	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	127572	179553856	63645517	79	59014										
TTN	7273	broad.mit.edu	37	chr2	179581848	179581848	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cacccagctgagcagaacaaGagtcttttccagcgatgttg	10	11	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:179581848G>T	uc010zfg.1	-	85	22105	c.21881C>A	c.(21880-21882)TCT>TAT	p.S7294Y	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S3955Y	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8221							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)			AGCAGAACAAGAGTCTTTTCC	0.448													7	26	---	---	---	---	PASS	T	179581848	T	T	179581848	3	4	165	1	0	0	0	0	1	0	0	0	16732	942	33	2	79016	2	TTN	2	179581848	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	27992	179581848	63617525	80	59015										
TTN	7273	broad.mit.edu	37	chr2	179590510	179590510	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttacctttcaattttacagTacaaacacaagtatcacttc	2	10	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:179590510T>C	uc010zfg.1	-	67	17031	c.16807A>G	c.(16807-16809)ACT>GCT	p.T5603A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T2264A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6530							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)			AATTTTACAGTACAAACACAA	0.378													7	73	---	---	---	---	PASS	C	179590510	C	C	179590510	3	2	165	1	0	0	0	0	1	0	0	0	16732	1638	57	5	84162	5	TTN	2	179590510	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	8662	179590510	63608863	81	59016										
TTN	7273	broad.mit.edu	37	chr2	179598616	179598616	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctttctttacaaaggttggaGgttctagttaaggaaagaga	11	4	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:179598616G>T	uc010zfg.1	-	50	11992	c.11768C>A	c.(11767-11769)CCT>CAT	p.P3923H	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P584H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4850							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)			AAAGGTTGGAGGTTCTAGTTA	0.368													12	32	---	---	---	---	PASS	T	179598616	T	T	179598616	3	4	165	1	0	0	0	0	1	0	0	0	16732	1000	35	3	89269	3	TTN	2	179598616	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	8106	179598616	63600757	82	59017										
TTN	7273	broad.mit.edu	37	chr2	179616020	179616020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tctagcctcccttaaacgttGcaacttcactttggtctcct	5	14	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:179616020G>T	uc002unb.2	-	46	11331	c.11107C>A	c.(11107-11109)CAA>AAA	p.Q3703K	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CTTAAACGTTGCAACTTCACT	0.343													11	51	---	---	---	---	PASS	T	179616020	T	T	179616020	3	4	165	1	0	0	0	0	1	0	0	0	16732	1328	46	3	99190	3	TTN	2	179616020	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	17404	179616020	63583353	83	59018										
CWC22	57703	broad.mit.edu	37	chr2	180815259	180815259	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgaggcagagctatgactaCtgatggatgaagagtcgctc	13	8	0	6			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:180815259C>A	uc010frh.1	-	19	2420	c.2120G>T	c.(2119-2121)AGT>ATT	p.S707I	CWC22_uc002uno.2_Missense_Mutation_p.S229I|CWC22_uc002unp.2_Missense_Mutation_p.S707I	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	707	Ser-rich.					catalytic step 2 spliceosome	protein binding|RNA binding				0						GCTATGACTACTGATGGATGA	0.408													5	14	---	---	---	---	PASS	A	180815259	A	A	180815259	3	1	165	1	0	0	0	0	1	0	0	0	4068	565	20	3	614	3	CWC22	2	180815259	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1199239	180815259	62384114	84	59019										
CWC22	57703	broad.mit.edu	37	chr2	180815448	180815448	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtgtatttttgagatgctccCgcagttcatccctaatttaa	7	9	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:180815448C>A	uc010frh.1	-	19	2231	c.1931G>T	c.(1930-1932)CGG>CTG	p.R644L	CWC22_uc002uno.2_Missense_Mutation_p.R166L|CWC22_uc002unp.2_Missense_Mutation_p.R644L	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	644						catalytic step 2 spliceosome	protein binding|RNA binding				0						GAGATGCTCCCGCAGTTCATC	0.358													27	45	---	---	---	---	PASS	A	180815448	A	A	180815448	3	1	165	1	0	0	0	0	1	0	0	0	4068	652	23	1	803	1	CWC22	2	180815448	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	189	180815448	62383925	85	59020										
SSFA2	6744	broad.mit.edu	37	chr2	182787078	182787078	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tggaaaactcccatcaatgcCagctgctgaggaaatgcata	9	10	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:182787078C>T	uc002uoi.2	+	16	3936	c.3614C>T	c.(3613-3615)CCA>CTA	p.P1205L	SSFA2_uc002uoh.2_Missense_Mutation_p.P1205L|SSFA2_uc002uoj.2_Missense_Mutation_p.P1183L|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Missense_Mutation_p.P1030L|SSFA2_uc002uol.2_Missense_Mutation_p.P1052L|SSFA2_uc002uom.2_Missense_Mutation_p.P669L	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	1205						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			CCATCAATGCCAGCTGCTGAG	0.443													6	32	---	---	---	---	PASS	T	182787078	T	T	182787078	3	4	165	1	0	0	0	0	1	0	0	0	15182	594	21	3	3676	3	SSFA2	2	182787078	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1971630	182787078	60412295	86	59021										
FRZB	2487	broad.mit.edu	37	chr2	183699610	183699610	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gccgggggttcgagttcctgCcagacttctgactctgagtg	14	11	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:183699610C>A	uc002upa.1	-	6	1162	c.944G>T	c.(943-945)GGC>GTC	p.G315V		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein precursor	315	Ser-rich.				brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)			CGAGTTCCTGCCAGACTTCTG	0.433													17	46	---	---	---	---	PASS	A	183699610	A	A	183699610	3	1	165	1	0	0	0	0	1	0	0	0	6065	739	26	3	37	3	FRZB	2	183699610	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	912532	183699610	59499763	87	59022										
SLC39A10	57181	broad.mit.edu	37	chr2	196599666	196599666	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	catggcttttgtcctgtgggGcaattcatccttcagaattt	9	9	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:196599666G>T	uc002utg.3	+	10	2611	c.2397G>T	c.(2395-2397)GGG>GGT	p.G799G	SLC39A10_uc002uth.3_Silent_p.G799G|SLC39A10_uc010zgp.1_Silent_p.G349G	NM_001127257	NP_001120729	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter),	799					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.221)			GTCCTGTGGGGCAATTCATCC	0.363													31	65	---	---	---	---	PASS	T	196599666	T	T	196599666	2	4	165	1	0	0	0	0	0	0	0	1	14613	1190	42	3		3	SLC39A10	2	196599666	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	12900056	196599666	46599707	88	59023										
DNAH7	56171	broad.mit.edu	37	chr2	196619071	196619071	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgcacttaccatcctcaggAggatgcttgtattctttgtc	8	11	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:196619071A>T	uc002utj.3	-	63	11855	c.11754T>A	c.(11752-11754)CCT>CCA	p.P3918P	DNAH7_uc002uti.3_Silent_p.P401P	NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3918					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CATCCTCAGGAGGATGCTTGT	0.438													16	45	---	---	---	---	PASS	T	196619071	T	T	196619071	2	4	165	1	0	0	0	0	0	0	0	1	4606	291	11	5		5	DNAH7	2	196619071	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	19405	196619071	46580302	89	59024										
HECW2	57520	broad.mit.edu	37	chr2	197194300	197194300	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgtttaaagacattcttaccTgacaatgtaaagctaacaag	6	8	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:197194300T>A	uc002utm.1	-	5	753	c.570A>T	c.(568-570)TCA>TCT	p.S190S	HECW2_uc002utl.1_5'UTR	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	190	C2.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						CATTCTTACCTGACAATGTAA	0.398													15	59	---	---	---	---	PASS	A	197194300	A	A	197194300	2	1	165	1	0	0	0	0	0	0	0	1	7043	1594	55	5		5	HECW2	2	197194300	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08	575229	197194300	46005073	90	59025										
PLCL1	5334	broad.mit.edu	37	chr2	198949214	198949214	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcttacttgtacagatatctAaaaacaaagaatatttggat	5	5	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:198949214A>T	uc010fsp.2	+	2	1264	c.973A>T	c.(973-975)AAA>TAA	p.K325*	PLCL1_uc002uuv.3_Nonsense_Mutation_p.K246*	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	325					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	ACAGATATCTAAAAACAAAGA	0.398													15	46	---	---	---	---	PASS	T	198949214	T	T	198949214	4	4	165	1	0	0	0	0	0	1	0	0	12039	363	13	5	979	5	PLCL1	2	198949214	Nonsense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1754914	198949214	44250159	91	59026										
C2orf69	205327	broad.mit.edu	37	chr2	200789838	200789838	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aattatcaatgggaaaactgGagtctagaaaatgttgctac	9	5	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:200789838G>T	uc010zhb.1	+	2	570	c.387G>T	c.(385-387)TGG>TGT	p.W129C		NM_153689	NP_710156	Q8N8R5	CB069_HUMAN	hypothetical protein LOC205327 precursor	129						extracellular region				central_nervous_system(1)	1						GGGAAAACTGGAGTCTAGAAA	0.343													4	26	---	---	---	---	PASS	T	200789838	T	T	200789838	3	4	165	1	0	0	0	0	1	0	0	0	2188	1183	41	2	393	2	C2orf69	2	200789838	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1840624	200789838	42409535	92	59027										
ZDBF2	57683	broad.mit.edu	37	chr2	207176006	207176006	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttggaaggtatctgaagaagAaaaaatctgttgtcagtagg	12	3	3	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:207176006A>T	uc002vbp.2	+	5	7004	c.6754A>T	c.(6754-6756)AAA>TAA	p.K2252*		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	2252	Poly-Lys.						nucleic acid binding|zinc ion binding			ovary(3)	3						TCTGAAGAAGAAAAAATCTGT	0.413													8	12	---	---	---	---	PASS	T	207176006	T	T	207176006	4	4	165	1	0	0	0	0	0	1	0	0	17596	247	9	5	6764	5	ZDBF2	2	207176006	Nonsense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	6386168	207176006	36023367	93	59028										
PIKFYVE	200576	broad.mit.edu	37	chr2	209163433	209163433	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggtaccttcatatgagacatCtgtcagtccccaggctaacc	8	13	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:209163433C>T	uc002vcz.2	+	8	1138	c.980C>T	c.(979-981)TCT>TTT	p.S327F	PIKFYVE_uc010fun.1_Missense_Mutation_p.S8F|PIKFYVE_uc002vcy.1_Missense_Mutation_p.S327F|PIKFYVE_uc002vcv.2_Missense_Mutation_p.S230F|PIKFYVE_uc002vcw.2_Missense_Mutation_p.S327F|PIKFYVE_uc002vcx.2_Missense_Mutation_p.S241F	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	327					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						TATGAGACATCTGTCAGTCCC	0.438													3	17	---	---	---	---	PASS	T	209163433	T	T	209163433	3	4	165	1	0	0	0	0	1	0	0	0	11924	913	32	2	1006	2	PIKFYVE	2	209163433	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1987427	209163433	34035940	94	59029										
SPAG16	79582	broad.mit.edu	37	chr2	214181983	214181983	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gagtgactgaacttagaactGttgggaatgttccagatgtc	12	6	0	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:214181983G>C	uc002veq.2	+	5	531	c.439G>C	c.(439-441)GTT>CTT	p.V147L	SPAG16_uc010fuz.1_Intron|SPAG16_uc002ver.2_Missense_Mutation_p.V93L|SPAG16_uc010zjk.1_Missense_Mutation_p.V53L|SPAG16_uc002veo.2_Missense_Mutation_p.V147L|SPAG16_uc002vep.1_Intron|SPAG16_uc002ves.1_Missense_Mutation_p.V116L	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	147					cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		ACTTAGAACTGTTGGGAATGT	0.333													12	26	---	---	---	---	PASS	C	214181983	C	C	214181983	3	2	165	1	0	0	0	0	1	0	0	0	14978	1377	48	4	457	4	SPAG16	2	214181983	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	5018550	214181983	29017390	95	59030										
ALPP	250	broad.mit.edu	37	chr2	233245187	233245187	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aggcttccctggacccgtctGtgacccatctcatgggtaat	10	13	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr2:233245187G>T	uc002vsq.2	+	7	1015	c.850G>T	c.(850-852)GTG>TTG	p.V284L	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	284						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		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;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		GGACCCGTCTGTGACCCATCT	0.637													5	80	---	---	---	---	PASS	T	233245187	T	T	233245187	3	4	165	1	0	0	0	0	1	0	0	0	548	1377	48	3	876	3	ALPP	2	233245187	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	19063204	233245187	9954186	96	59031										
CNTN6	27255	broad.mit.edu	37	chr3	1443184	1443184	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaattatgcttgaactgggaGcatgtaaaaaccatggaaaa	9	5	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:1443184G>T	uc003boz.2	+	21	3039	c.2772G>T	c.(2770-2772)GAG>GAT	p.E924D	CNTN6_uc011asj.1_Missense_Mutation_p.E852D|CNTN6_uc003bpa.2_Missense_Mutation_p.E924D	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	924	Fibronectin type-III 4.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TGAACTGGGAGCATGTAAAAA	0.358													7	18	---	---	---	---	PASS	T	1443184	T	T	1443184	3	4	165	1	0	0	0	0	1	0	0	0	3645	962	34	3	2850	3	CNTN6	3	1443184	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08		1443184	196579246	97	59032										
THUMPD3	25917	broad.mit.edu	37	chr3	9426217	9426217	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgtgtacacaggcgttatctGgaatgcgacacgtatggcga	13	8	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:9426217G>T	uc003bro.3	+	10	1517	c.1369G>T	c.(1369-1371)GGA>TGA	p.G457*	LOC440944_uc003brm.2_Intron|THUMPD3_uc003brn.3_Nonsense_Mutation_p.G457*	NM_001114092	NP_001107564	Q9BV44	THUM3_HUMAN	THUMP domain containing 3	457							methyltransferase activity|protein binding|RNA binding			ovary(1)	1	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.101)		GGCGTTATCTGGAATGCGACA	0.428													6	147	---	---	---	---	PASS	T	9426217	T	T	9426217	4	4	165	1	0	0	0	0	0	1	0	0	15881	1349	47	3	1403	3	THUMPD3	3	9426217	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	7983033	9426217	188596213	98	59033										
COLQ	8292	broad.mit.edu	37	chr3	15512050	15512050	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgggatccttacctgcttgCctcgttttcctggtcttcct	8	14	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:15512050C>A	uc003bzx.2	-	11	836	c.710G>T	c.(709-711)GGC>GTC	p.G237V	COLQ_uc003bzv.2_Missense_Mutation_p.G227V|COLQ_uc003bzz.2_Missense_Mutation_p.G228V|COLQ_uc010heo.2_Missense_Mutation_p.G203V|COLQ_uc003cac.1_RNA|COLQ_uc003cae.1_Missense_Mutation_p.G96V|COLQ_uc003cad.1_RNA	NM_005677	NP_005668	Q9Y215	COLQ_HUMAN	acetylcholinesterase collagen-like tail subunit	237	Heparan sulfate proteoglycan binding (Potential).|Collagen-like 1.				acetylcholine catabolic process in synaptic cleft|asymmetric protein localization	basal lamina|cell junction|collagen|extracellular space|synaptic cleft					0						TACCTGCTTGCCTCGTTTTCC	0.547													23	28	---	---	---	---	PASS	A	15512050	A	A	15512050	3	1	165	1	0	0	0	0	1	0	0	0	3713	739	26	3	685	3	COLQ	3	15512050	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	6085833	15512050	182510380	99	59034										
SCN11A	11280	broad.mit.edu	37	chr3	38938418	38938418	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcgcttcttgcatacattccCacatattttcgatccattcc	3	14	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:38938418C>T	uc011ays.1	-	14	2520	c.2321G>A	c.(2320-2322)TGG>TAG	p.W774*	SCN11A_uc010hhn.1_5'Flank	NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	774	II.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CATACATTCCCACATATTTTC	0.443													20	21	---	---	---	---	PASS	T	38938418	T	T	38938418	4	4	165	1	0	0	0	0	0	1	0	0	13913	595	21	3	3106	3	SCN11A	3	38938418	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	23426368	38938418	159084012	100	59035										
ZBTB47	92999	broad.mit.edu	37	chr3	42703103	42703103	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agaagttctacaccatggccCacgtgcgtaagcacatggtt	10	11	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:42703103C>T	uc003clu.1	+	2	574	c.472C>T	c.(472-474)CAC>TAC	p.H158Y		NM_145166	NP_660149	Q9UFB7	ZBT47_HUMAN	zinc finger protein 651	158	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.216)		CACCATGGCCCACGTGCGTAA	0.527													10	27	---	---	---	---	PASS	T	42703103	T	T	42703103	3	4	165	1	0	0	0	0	1	0	0	0	17545	594	21	3	1606	3	ZBTB47	3	42703103	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3764685	42703103	155319327	101	59036										
CCR1	1230	broad.mit.edu	37	chr3	46244987	46244987	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccaaatgtctgctctgctcaCactcatgggtgaacaggaag	10	11	4	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:46244987C>A	uc003cph.1	-	2	889	c.818G>T	c.(817-819)TGT>TTT	p.C273F	CCR3_uc003cpg.1_Intron	NM_001295	NP_001286	P32246	CCR1_HUMAN	chemokine (C-C motif) receptor 1	273	Extracellular (Potential).				cell adhesion|cell-cell signaling|cytokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	integral to plasma membrane	C-C chemokine receptor activity			skin(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		GCTCTGCTCACACTCATGGGT	0.458													6	28	---	---	---	---	PASS	A	46244987	A	A	46244987	3	1	165	1	0	0	0	0	1	0	0	0	2939	478	17	3	253	3	CCR1	3	46244987	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3541884	46244987	151777443	102	59037										
ADAMTS9	56999	broad.mit.edu	37	chr3	64601826	64601826	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cacactgggcactacattcaCtcctgctggcaacatgccac	7	16	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:64601826C>A	uc003dmg.2	-	20	2866	c.2834G>T	c.(2833-2835)AGT>ATT	p.S945I	ADAMTS9_uc011bfo.1_Missense_Mutation_p.S917I|ADAMTS9_uc003dmh.1_Missense_Mutation_p.S774I|ADAMTS9_uc003dmk.1_Missense_Mutation_p.S945I|ADAMTS9_uc011bfp.1_5'UTR	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	945	TSP type-1 3.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		ACTACATTCACTCCTGCTGGC	0.428													26	95	---	---	---	---	PASS	A	64601826	A	A	64601826	3	1	165	1	0	0	0	0	1	0	0	0	273	565	20	3	3053	3	ADAMTS9	3	64601826	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	18356839	64601826	133420604	103	59038										
EIF4E3	317649	broad.mit.edu	37	chr3	71739215	71739215	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagaagttcatagatcttttCtaaaacagtcgcttcaccca	5	11	4	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:71739215C>G	uc003dov.3	-	6	582	c.574G>C	c.(574-576)GAA>CAA	p.E192Q	EIF4E3_uc011bgc.1_Missense_Mutation_p.E86Q|EIF4E3_uc003dox.2_Missense_Mutation_p.E86Q|EIF4E3_uc011bgd.1_Missense_Mutation_p.E86Q|EIF4E3_uc010hoc.2_Missense_Mutation_p.E86Q	NM_001134651	NP_001128123	Q8N5X7	IF4E3_HUMAN	eukaryotic translation initiation factor 4E	192					regulation of translation	cytoplasm|mRNA cap binding complex	translation initiation factor activity				0		Prostate(10;0.0166)		BRCA - Breast invasive adenocarcinoma(55;2.56e-05)|Epithelial(33;2.9e-05)|Lung(16;9.28e-05)|LUSC - Lung squamous cell carcinoma(21;0.00227)		TAGATCTTTTCTAAAACAGTC	0.383													9	30	---	---	---	---	PASS	G	71739215	G	G	71739215	3	3	165	1	0	0	0	0	1	0	0	0	5031	922	32	2	108	2	EIF4E3	3	71739215	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	7137389	71739215	126283215	104	59039										
GBE1	2632	broad.mit.edu	37	chr3	81719992	81719992	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aggagggaggaaagtaccttTaatttggatccatgaggcac	13	6	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:81719992T>G	uc003dqg.2	-	4	709	c.426A>C	c.(424-426)TTA>TTC	p.L142F	GBE1_uc011bgm.1_Missense_Mutation_p.L101F	NM_000158	NP_000149	Q04446	GLGB_HUMAN	glucan (1,4-alpha-), branching enzyme 1	142					glucose metabolic process|glycogen biosynthetic process	cytosol	1,4-alpha-glucan branching enzyme activity|cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(3)	3		Lung NSC(201;0.0117)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0654)|Epithelial(33;0.00305)|LUSC - Lung squamous cell carcinoma(29;0.00646)|BRCA - Breast invasive adenocarcinoma(55;0.00813)|Lung(72;0.0129)|KIRC - Kidney renal clear cell carcinoma(39;0.212)|Kidney(39;0.247)		AAAGTACCTTTAATTTGGATC	0.343									Glycogen_Storage_Disease_type_IV				3	11	---	---	---	---	PASS	G	81719992	G	G	81719992	3	3	165	1	0	0	0	0	1	0	0	0	6270	1751	61	5	1738	5	GBE1	3	81719992	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	9980777	81719992	116302438	105	59040										
EPHA6	285220	broad.mit.edu	37	chr3	96706678	96706678	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgataccattccaagggttGattcctcctctttggttgaa	8	10	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:96706678G>T	uc010how.1	+	3	998	c.955G>T	c.(955-957)GAT>TAT	p.D319Y	EPHA6_uc003drp.1_Missense_Mutation_p.D319Y	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	224	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						TCCAAGGGTTGATTCCTCCTC	0.488													22	192	---	---	---	---	PASS	T	96706678	T	T	96706678	3	4	165	1	0	0	0	0	1	0	0	0	5171	1290	45	2	965	2	EPHA6	3	96706678	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	14986686	96706678	101315752	106	59041										
GPR15	2838	broad.mit.edu	37	chr3	98250924	98250924	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttggattattactatgctaCgagcccaaactctgacatca	6	10	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:98250924C>A	uc011bgy.1	+	1	47	c.47C>A	c.(46-48)ACG>AAG	p.T16K		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	16	Extracellular (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		TACTATGCTACGAGCCCAAAC	0.438													6	34	---	---	---	---	PASS	A	98250924	A	A	98250924	3	1	165	1	0	0	0	0	1	0	0	0	6655	536	19	1	49	1	GPR15	3	98250924	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1544246	98250924	99771506	107	59042										
DPPA2	151871	broad.mit.edu	37	chr3	109028117	109028117	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tggtcggcaagggaagggctGgtattttgcatctagctttt	14	6	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:109028117G>A	uc003dxo.2	-	4	489	c.242C>T	c.(241-243)CCA>CTA	p.P81L		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	81						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						GGGAAGGGCTGGTATTTTGCA	0.418													18	122	---	---	---	---	PASS	A	109028117	A	A	109028117	3	1	165	1	0	0	0	0	1	0	0	0	4734	1348	47	3	674	3	DPPA2	3	109028117	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	10777193	109028117	88994313	108	59043										
CD96	10225	broad.mit.edu	37	chr3	111357003	111357003	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gatctacgaaaactaatcacGtccatatcactggtaagtca	6	10	4	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:111357003G>T	uc003dxw.2	+	13	1683	c.1513G>T	c.(1513-1515)GTC>TTC	p.V505F	CD96_uc003dxx.2_Missense_Mutation_p.V489F|CD96_uc010hpy.1_Missense_Mutation_p.V488F	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor	505	Extracellular (Potential).				cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						AACTAATCACGTCCATATCAC	0.303									Opitz_Trigonocephaly_syndrome				19	74	---	---	---	---	PASS	T	111357003	T	T	111357003	3	4	165	1	0	0	0	0	1	0	0	0	3048	1145	40	1	1563	1	CD96	3	111357003	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2328886	111357003	86665427	109	59044										
WDR52	55779	broad.mit.edu	37	chr3	113135435	113135435	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gataatatctggaaaactccCtttttcagctactgtgaaat	6	8	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:113135435C>A	uc003eae.1	-	6	656	c.610G>T	c.(610-612)GGG>TGG	p.G204W		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	204										central_nervous_system(1)	1						GGAAAACTCCCTTTTTCAGCT	0.303													13	36	---	---	---	---	PASS	A	113135435	A	A	113135435	3	1	165	1	0	0	0	0	1	0	0	0	17301	681	24	3	5089	3	WDR52	3	113135435	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1778432	113135435	84886995	110	59045										
GAP43	2596	broad.mit.edu	37	chr3	115439702	115439702	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gacgagggtaaagaagaggaAcctgaggctgaccaagaaca	14	7	0	5			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:115439702A>C	uc003ebq.2	+	3	1076	c.690A>C	c.(688-690)GAA>GAC	p.E230D	GAP43_uc003ebr.2_Missense_Mutation_p.E266D	NM_002045	NP_002036	P17677	NEUM_HUMAN	growth associated protein 43 isoform 2	230					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell differentiation|nervous system development|regulation of filopodium assembly|regulation of growth|response to wounding	cell junction|filopodium membrane|growth cone membrane|synapse	calmodulin binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.164)		AAGAAGAGGAACCTGAGGCTG	0.512													7	252	---	---	---	---	PASS	C	115439702	C	C	115439702	3	2	165	1	0	0	0	0	1	0	0	0	6235	40	2	5	842	5	GAP43	3	115439702	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	2304267	115439702	82582728	111	59046										
C3orf15	89876	broad.mit.edu	37	chr3	119462960	119462960	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcatgctggctgagcgccagCggcgggtacgagaggctgaa	17	10	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:119462960C>G	uc003ede.3	+	14	1896	c.1819C>G	c.(1819-1821)CGG>GGG	p.R607G	C3orf15_uc010hqz.2_Missense_Mutation_p.R545G|C3orf15_uc011bjd.1_Missense_Mutation_p.R481G|C3orf15_uc011bje.1_Missense_Mutation_p.R587G	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	443						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		TGAGCGCCAGCGGCGGGTACG	0.582													13	39	---	---	---	---	PASS	G	119462960	G	G	119462960	3	3	165	1	0	0	0	0	1	0	0	0	2209	759	27	4	1873	4	C3orf15	3	119462960	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	4023258	119462960	78559470	112	59047										
GPR156	165829	broad.mit.edu	37	chr3	119887051	119887051	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtcagagaggtgacccgaagGcccctgagcagctgccaggg	16	12	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:119887051G>C	uc011bjf.1	-	9	1273	c.1273C>G	c.(1273-1275)CCT>GCT	p.P425A	GPR156_uc011bjg.1_Missense_Mutation_p.P421A	NM_153002	NP_694547	Q8NFN8	GP156_HUMAN	G protein-coupled receptor 156	425	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.19)		TGACCCGAAGGCCCCTGAGCA	0.627													7	22	---	---	---	---	PASS	C	119887051	C	C	119887051	3	2	165	1	0	0	0	0	1	0	0	0	6661	1203	42	4	1175	4	GPR156	3	119887051	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	424091	119887051	78135379	113	59048										
EAF2	55840	broad.mit.edu	37	chr3	121554135	121554135	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caaagcaggagagtaattatGaatagcgcagcgggattctc	12	7	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:121554135G>T	uc003een.2	+	1	102	c.3G>T	c.(1-3)ATG>ATT	p.M1I	IQCB1_uc010hre.1_5'Flank|IQCB1_uc003eek.2_5'Flank|IQCB1_uc010hrf.1_5'Flank|EAF2_uc003eem.2_RNA|EAF2_uc003eeo.2_5'UTR	NM_018456	NP_060926	Q96CJ1	EAF2_HUMAN	ELL associated factor 2	1					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	protein binding				0				GBM - Glioblastoma multiforme(114;0.0972)		GAGTAATTATGAATAGCGCAG	0.572													9	60	---	---	---	---	PASS	T	121554135	T	T	121554135	3	4	165	1	0	0	0	0	1	0	0	0	4876	1290	45	2	5	2	EAF2	3	121554135	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1667084	121554135	76468295	114	59049										
UMPS	7372	broad.mit.edu	37	chr3	124462860	124462860	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtggcataatctcagcagctGatcgtctggaagcagcagag	13	9	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:124462860G>C	uc003ehl.3	+	6	1478	c.1372G>C	c.(1372-1374)GAT>CAT	p.D458H	UMPS_uc003ehm.3_RNA|UMPS_uc011bka.1_Missense_Mutation_p.D280H|UMPS_uc011bkb.1_Missense_Mutation_p.D366H|UMPS_uc011bkc.1_Missense_Mutation_p.D280H|UMPS_uc003ehn.3_Missense_Mutation_p.D280H|UMPS_uc011bkd.1_Missense_Mutation_p.D183H	NM_000373	NP_000364	P11172	UMPS_HUMAN	uridine monophosphate synthase	458	OMPdecase.				'de novo' pyrimidine base biosynthetic process|'de novo' UMP biosynthetic process|pyrimidine nucleoside biosynthetic process	cytosol|nucleus	orotate phosphoribosyltransferase activity|orotidine-5'-phosphate decarboxylase activity			kidney(1)	1				GBM - Glioblastoma multiforme(114;0.146)		CTCAGCAGCTGATCGTCTGGA	0.428													18	72	---	---	---	---	PASS	C	124462860	C	C	124462860	3	2	165	1	0	0	0	0	1	0	0	0	16978	1290	45	2	1394	2	UMPS	3	124462860	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2908725	124462860	73559570	115	59050										
SLC12A8	84561	broad.mit.edu	37	chr3	124826404	124826404	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccctcaggctgagtcccttcGctcttggaagtctgcttgtt	10	13	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:124826404G>C	uc003ehv.3	-	10	1737	c.1626C>G	c.(1624-1626)AGC>AGG	p.S542R	SLC12A8_uc003ehw.3_Missense_Mutation_p.S571R|SLC12A8_uc003eht.3_Missense_Mutation_p.S343R|SLC12A8_uc003ehu.3_Missense_Mutation_p.S295R|SLC12A8_uc010hry.2_Missense_Mutation_p.S295R	NM_024628	NP_078904	A0AV02	S12A8_HUMAN	solute carrier family 12, member 8	542					potassium ion transport	integral to membrane	symporter activity				0						GAGTCCCTTCGCTCTTGGAAG	0.552													18	93	---	---	---	---	PASS	C	124826404	C	C	124826404	3	2	165	1	0	0	0	0	1	0	0	0	14389	1078	38	4	538	4	SLC12A8	3	124826404	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	363544	124826404	73196026	116	59051										
IFT122	55764	broad.mit.edu	37	chr3	129221605	129221605	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gctgagcgcgagcccctgctGctgtgcgctacctacctcaa	11	16	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:129221605G>T	uc003emm.2	+	20	2633	c.2427G>T	c.(2425-2427)CTG>CTT	p.L809L	IFT122_uc003eml.2_Silent_p.L860L|IFT122_uc003emn.2_Silent_p.L750L|IFT122_uc003emo.2_Silent_p.L698L|IFT122_uc003emp.2_Silent_p.L659L|IFT122_uc010htc.2_Silent_p.L801L|IFT122_uc011bky.1_Silent_p.L600L|IFT122_uc003emq.2_Silent_p.L649L|IFT122_uc003emr.2_Silent_p.L561L|IFT122_uc011bla.1_Silent_p.L582L|IFT122_uc010hte.2_Silent_p.L135L|IFT122_uc003ems.2_Silent_p.L190L|IFT122_uc011bkx.1_Silent_p.L649L|IFT122_uc010htd.1_Silent_p.L288L	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	809					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						AGCCCCTGCTGCTGTGCGCTA	0.552													9	101	---	---	---	---	PASS	T	129221605	T	T	129221605	2	4	165	1	0	0	0	0	0	0	0	1	7555	1306	46	3		3	IFT122	3	129221605	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	4395201	129221605	68800825	117	59052										
NEK11	79858	broad.mit.edu	37	chr3	130852747	130852747	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttaactggaactccccattaTatgagtcctgaggctctgaa	8	10	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:130852747T>C	uc003eny.2	+	7	920	c.594T>C	c.(592-594)TAT>TAC	p.Y198Y	NEK11_uc003enx.2_Silent_p.Y198Y|NEK11_uc003eoa.2_Silent_p.Y198Y|NEK11_uc003enz.2_Silent_p.Y16Y|NEK11_uc010htn.2_RNA|NEK11_uc011blk.1_Silent_p.Y50Y|NEK11_uc011bll.1_Silent_p.Y198Y|NEK11_uc003enw.1_Silent_p.Y198Y|NEK11_uc011blm.1_Silent_p.Y198Y|NEK11_uc010hto.1_Silent_p.Y50Y	NM_024800	NP_079076	Q8NG66	NEK11_HUMAN	NIMA-related kinase 11 isoform 1	198	Protein kinase.				cell cycle|intra-S DNA damage checkpoint|intracellular protein kinase cascade	nucleolus	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(4)|stomach(1)|central_nervous_system(1)	6						CTCCCCATTATATGAGTCCTG	0.423													55	56	---	---	---	---	PASS	C	130852747	C	C	130852747	2	2	165	1	0	0	0	0	0	0	0	1	10323	1413	49	5		5	NEK11	3	130852747	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08	1631142	130852747	67169683	118	59053										
TMEM108	66000	broad.mit.edu	37	chr3	133098855	133098855	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acgcacaccatctccaccatCgctgcgacagtaaccgcccc	6	20	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:133098855C>G	uc003eph.2	+	4	574	c.300C>G	c.(298-300)ATC>ATG	p.I100M	TMEM108_uc003epi.2_Missense_Mutation_p.I100M|TMEM108_uc003epj.1_Missense_Mutation_p.I100M|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_Missense_Mutation_p.I51M	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	100	Pro-rich.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						TCTCCACCATCGCTGCGACAG	0.662													5	77	---	---	---	---	PASS	G	133098855	G	G	133098855	3	3	165	1	0	0	0	0	1	0	0	0	16021	874	31	2	306	2	TMEM108	3	133098855	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	2246108	133098855	64923575	119	59054										
EPHB1	2047	broad.mit.edu	37	chr3	134873074	134873074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	catggccacagccggagcagCccaatggcatcatcctggac	11	15	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:134873074C>A	uc003eqt.2	+	6	1598	c.1378C>A	c.(1378-1380)CCC>ACC	p.P460T	EPHB1_uc003equ.2_Missense_Mutation_p.P21T	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	460	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GCCGGAGCAGCCCAATGGCAT	0.557													19	143	---	---	---	---	PASS	A	134873074	A	A	134873074	3	1	165	1	0	0	0	0	1	0	0	0	5174	739	26	3	1400	3	EPHB1	3	134873074	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1774219	134873074	63149356	120	59055										
PCCB	5096	broad.mit.edu	37	chr3	136016830	136016830	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttttgaaaatgatgttgatgCcttgtgtaatctccgggatt	10	5	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:136016830C>G	uc003eqy.1	+	8	851	c.800C>G	c.(799-801)GCC>GGC	p.A267G	PCCB_uc003eqz.1_Missense_Mutation_p.A267G|PCCB_uc011bmc.1_Missense_Mutation_p.A287G|PCCB_uc011bmd.1_Missense_Mutation_p.A184G	NM_000532	NP_000523	P05166	PCCB_HUMAN	propionyl Coenzyme A carboxylase, beta	267	Carboxyltransferase.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|propionyl-CoA carboxylase activity				0					Biotin(DB00121)|L-Valine(DB00161)	GATGTTGATGCCTTGTGTAAT	0.542													23	160	---	---	---	---	PASS	G	136016830	G	G	136016830	3	3	165	1	0	0	0	0	1	0	0	0	11505	739	26	4	894	4	PCCB	3	136016830	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1143756	136016830	62005600	121	59056										
STAG1	10274	broad.mit.edu	37	chr3	136082280	136082280	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctggttttactcagtgtttcCttaataatatcaccatagtc	5	9	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:136082280C>A	uc003era.1	-	26	3007	c.2715G>T	c.(2713-2715)AAG>AAT	p.K905N	STAG1_uc003erb.1_Missense_Mutation_p.K905N	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	905					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						TCAGTGTTTCCTTAATAATAT	0.353													5	44	---	---	---	---	PASS	A	136082280	A	A	136082280	3	1	165	1	0	0	0	0	1	0	0	0	15241	680	24	3	1097	3	STAG1	3	136082280	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	65450	136082280	61940150	122	59057										
ZBTB38	253461	broad.mit.edu	37	chr3	141163969	141163969	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agtgaccaggattccactgaCaaaccgtggcgcccttacta	9	13	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:141163969C>A	uc003etw.2	+	8	3721	c.2739C>A	c.(2737-2739)GAC>GAA	p.D913E	ZBTB38_uc010hun.2_Missense_Mutation_p.D910E|ZBTB38_uc010huo.2_Missense_Mutation_p.D913E|ZBTB38_uc003ety.2_Missense_Mutation_p.D913E|ZBTB38_uc010hup.2_Missense_Mutation_p.D914E	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	913					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						ATTCCACTGACAAACCGTGGC	0.498													8	49	---	---	---	---	PASS	A	141163969	A	A	141163969	3	1	165	1	0	0	0	0	1	0	0	0	17536	477	17	3	2741	3	ZBTB38	3	141163969	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	5081689	141163969	56858461	123	59058										
ZBTB38	253461	broad.mit.edu	37	chr3	141164615	141164615	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggaagggctatgcctgcttcCagtgccccaaaatttgcaaa	10	11	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:141164615C>T	uc003etw.2	+	8	4367	c.3385C>T	c.(3385-3387)CAG>TAG	p.Q1129*	ZBTB38_uc010hun.2_Nonsense_Mutation_p.Q1126*|ZBTB38_uc010huo.2_Nonsense_Mutation_p.Q1129*|ZBTB38_uc003ety.2_Nonsense_Mutation_p.Q1129*|ZBTB38_uc010hup.2_Nonsense_Mutation_p.Q1130*	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	1129	C2H2-type 10.				positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						TGCCTGCTTCCAGTGCCCCAA	0.463													13	181	---	---	---	---	PASS	T	141164615	T	T	141164615	4	4	165	1	0	0	0	0	0	1	0	0	17536	595	21	3	3387	3	ZBTB38	3	141164615	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	646	141164615	56857815	124	59059										
SLC9A9	285195	broad.mit.edu	37	chr3	142985708	142985708	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gggtgaggaggcttgctcctGgtaatttatggctagttcat	14	6	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:142985708G>T	uc003evn.2	-	16	1956	c.1774C>A	c.(1774-1776)CAG>AAG	p.Q592K		NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	592					regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						GCTTGCTCCTGGTAATTTATG	0.488													17	80	---	---	---	---	PASS	T	142985708	T	T	142985708	3	4	165	1	0	0	0	0	1	0	0	0	14721	1357	47	3	167	3	SLC9A9	3	142985708	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1821093	142985708	55036722	125	59060										
COMMD2	51122	broad.mit.edu	37	chr3	149459448	149459448	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtgatctccattttgattaaGgtgtagctttatagtcactg	9	6	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:149459448G>T	uc003exk.2	-	5	507	c.460C>A	c.(460-462)CTT>ATT	p.L154I	COMMD2_uc003exj.1_5'Flank	NM_016094	NP_057178	Q86X83	COMD2_HUMAN	COMM domain containing 2	154	COMM.						protein binding				0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			TTTTGATTAAGGTGTAGCTTT	0.393													6	156	---	---	---	---	PASS	T	149459448	T	T	149459448	3	4	165	1	0	0	0	0	1	0	0	0	3716	1000	35	3	143	3	COMMD2	3	149459448	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	6473740	149459448	48562982	126	59061										
CLRN1	7401	broad.mit.edu	37	chr3	150690325	150690325	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccgtactgcatttcacccatAaacttgtccagctcctgccc	5	17	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:150690325A>T	uc003eyk.1	-	1	462	c.171T>A	c.(169-171)TTT>TTA	p.F57L	CLRN1OS_uc011bny.1_Intron|CLRN1OS_uc003eyl.2_5'Flank	NM_174878	NP_777367	P58418	CLRN1_HUMAN	clarin 1 isoform a	57					equilibrioception|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			TTTCACCCATAAACTTGTCCA	0.537													11	98	---	---	---	---	PASS	T	150690325	T	T	150690325	3	4	165	1	0	0	0	0	1	0	0	0	3557	359	13	5	593	5	CLRN1	3	150690325	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1230877	150690325	47332105	127	59062										
IGSF10	285313	broad.mit.edu	37	chr3	151163652	151163652	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tagaacaggaggtgtcatagCagtgggtgtagtgaagccag	16	5	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:151163652C>A	uc011bod.1	-	4	4117	c.4117G>T	c.(4117-4119)GCT>TCT	p.A1373S		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1373					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GGTGTCATAGCAGTGGGTGTA	0.473													30	146	---	---	---	---	PASS	A	151163652	A	A	151163652	3	1	165	1	0	0	0	0	1	0	0	0	7597	710	25	3	3814	3	IGSF10	3	151163652	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	473327	151163652	46858778	128	59063										
VEPH1	79674	broad.mit.edu	37	chr3	157188180	157188180	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttcccaaagggtctcaggtTatgttccaagcaggagtccc	10	11	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:157188180T>G	uc003fbj.1	-	3	594	c.277A>C	c.(277-279)AAC>CAC	p.N93H	VEPH1_uc003fbk.1_Missense_Mutation_p.N93H|VEPH1_uc010hvu.1_Missense_Mutation_p.N93H|VEPH1_uc003fbm.2_Missense_Mutation_p.N93H|VEPH1_uc003fbn.2_Missense_Mutation_p.N93H	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	93						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			GGTCTCAGGTTATGTTCCAAG	0.458													33	45	---	---	---	---	PASS	G	157188180	G	G	157188180	3	3	165	1	0	0	0	0	1	0	0	0	17151	1754	61	5	2394	5	VEPH1	3	157188180	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	6024528	157188180	40834250	129	59064										
IFT80	57560	broad.mit.edu	37	chr3	159997010	159997010	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcgacaaagtctcacagcatCttcccattttgaactgctta	6	12	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:159997010C>G	uc011boy.1	-	16	2240	c.1807G>C	c.(1807-1809)GAT>CAT	p.D603H	IFT80_uc003fda.2_RNA|IFT80_uc003fdb.1_Missense_Mutation_p.D466H|IFT80_uc003fdd.1_Missense_Mutation_p.D286H|IFT80_uc003fde.1_Missense_Mutation_p.D466H	NM_020800	NP_065851	Q9P2H3	IFT80_HUMAN	WD repeat domain 56	603						cilium axoneme|microtubule basal body				ovary(1)	1			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			CTCACAGCATCTTCCCATTTT	0.343													18	71	---	---	---	---	PASS	G	159997010	G	G	159997010	3	3	165	1	0	0	0	0	1	0	0	0	7564	913	32	2	546	2	IFT80	3	159997010	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	2808830	159997010	38025420	130	59065										
SI	6476	broad.mit.edu	37	chr3	164766995	164766995	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagttctgcacagcatccatGcaaattgttttggaatacat	7	9	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:164766995G>T	uc003fei.2	-	15	1697	c.1635C>A	c.(1633-1635)TGC>TGA	p.C545*		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	545	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)	CAGCATCCATGCAAATTGTTT	0.328										HNSCC(35;0.089)			6	27	---	---	---	---	PASS	T	164766995	T	T	164766995	4	4	165	1	0	0	0	0	0	1	0	0	14297	1311	46	3	3984	3	SI	3	164766995	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	4769985	164766995	33255435	131	59066										
SLITRK3	22865	broad.mit.edu	37	chr3	164906058	164906058	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggaaccctgccaagtctcccCcagttcccccaactactcct	5	20	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:164906058C>G	uc003fej.3	-	2	3005	c.2561G>C	c.(2560-2562)GGG>GCG	p.G854A	SLITRK3_uc003fek.2_Missense_Mutation_p.G854A	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	854	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						CAAGTCTCCCCCAGTTCCCCC	0.567										HNSCC(40;0.11)			19	99	---	---	---	---	PASS	G	164906058	G	G	164906058	3	3	165	1	0	0	0	0	1	0	0	0	14744	623	22	4	376	4	SLITRK3	3	164906058	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	139063	164906058	33116372	132	59067										
SLITRK3	22865	broad.mit.edu	37	chr3	164906748	164906748	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gagaatctccaggctgggctGgggattctccagctggtgca	15	10	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:164906748G>A	uc003fej.3	-	2	2315	c.1871C>T	c.(1870-1872)CCA>CTA	p.P624L	SLITRK3_uc003fek.2_Missense_Mutation_p.P624L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	624	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						AGGCTGGGCTGGGGATTCTCC	0.547										HNSCC(40;0.11)			7	27	---	---	---	---	PASS	A	164906748	A	A	164906748	3	1	165	1	0	0	0	0	1	0	0	0	14744	1348	47	3	1066	3	SLITRK3	3	164906748	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	690	164906748	33115682	133	59068										
ZBBX	79740	broad.mit.edu	37	chr3	167000262	167000262	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaagtggaaaatttgctgttGaaggtctctgtgatttctga	11	4	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:167000262G>T	uc003fep.2	-	19	2224	c.1901C>A	c.(1900-1902)TCA>TAA	p.S634*	ZBBX_uc011bpc.1_Nonsense_Mutation_p.S673*|ZBBX_uc003feq.2_Nonsense_Mutation_p.S605*	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	634						intracellular	zinc ion binding			ovary(2)	2						ATTTGCTGTTGAAGGTCTCTG	0.343													33	151	---	---	---	---	PASS	T	167000262	T	T	167000262	4	4	165	1	0	0	0	0	0	1	0	0	17513	1294	45	2	513	2	ZBBX	3	167000262	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2093514	167000262	31022168	134	59069										
ZNF639	51193	broad.mit.edu	37	chr3	179052110	179052110	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	taaaattcatctagatttcaAgcattcagctgacttgcctc	5	10	4	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:179052110A>G	uc003fjq.1	+	6	1701	c.1358A>G	c.(1357-1359)AAG>AGG	p.K453R	ZNF639_uc003fjr.1_Missense_Mutation_p.K453R	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	453	Interaction with CTNNA2.|C2H2-type 7.				initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			CTAGATTTCAAGCATTCAGCT	0.328													9	40	---	---	---	---	PASS	G	179052110	G	G	179052110	3	3	165	1	0	0	0	0	1	0	0	0	18053	72	3	5	1372	5	ZNF639	3	179052110	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	12051848	179052110	18970320	135	59070										
MCCC1	56922	broad.mit.edu	37	chr3	182756857	182756857	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcagttttgtcaatgccgccTggcgatctgctgcccacacg	10	14	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:182756857T>C	uc003fle.2	-	12	1471	c.1334A>G	c.(1333-1335)CAG>CGG	p.Q445R	MCCC1_uc010hxi.2_RNA|MCCC1_uc011bqo.1_RNA|MCCC1_uc003flf.2_Missense_Mutation_p.Q328R|MCCC1_uc003flg.2_Missense_Mutation_p.Q336R|MCCC1_uc011bqp.1_Missense_Mutation_p.Q398R	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	445	Biotin carboxylation.				biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	CAATGCCGCCTGGCGATCTGC	0.512													50	38	---	---	---	---	PASS	C	182756857	C	C	182756857	3	2	165	1	0	0	0	0	1	0	0	0	9374	1580	55	5	875	5	MCCC1	3	182756857	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	3704747	182756857	15265573	136	59071										
C3orf59	151963	broad.mit.edu	37	chr3	192635441	192635441	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agcatggaaaagatgaaatcCttggctgtgtgaatctccag	11	7	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:192635441C>A	uc011bsp.1	-	1	510	c.189G>T	c.(187-189)AAG>AAT	p.K63N		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	63											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		AGATGAAATCCTTGGCTGTGT	0.453													6	78	---	---	---	---	PASS	A	192635441	A	A	192635441	3	1	165	1	0	0	0	0	1	0	0	0	2237	680	24	3	1294	3	C3orf59	3	192635441	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	9878584	192635441	5386989	137	59072										
CPN2	1370	broad.mit.edu	37	chr3	194062993	194062993	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgcaggtggagggactccaGggcagccaggtgctggaaaa	17	9	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:194062993G>A	uc003fts.2	-	2	529	c.439C>T	c.(439-441)CTG>TTG	p.L147L		NM_001080513	NP_001073982	P22792	CPN2_HUMAN	carboxypeptidase N, polypeptide 2	147	LRR 3.				protein stabilization	extracellular region	enzyme regulator activity			ovary(5)	5	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.65e-05)		AGGGACTCCAGGGCAGCCAGG	0.612													8	32	---	---	---	---	PASS	A	194062993	A	A	194062993	2	1	165	1	0	0	0	0	0	0	0	1	3810	991	35	3		3	CPN2	3	194062993	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	1427552	194062993	3959437	138	59073										
LRRC15	131578	broad.mit.edu	37	chr3	194080603	194080603	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgcagctggatggccatgagGccattgacgttggcgaagat	15	8	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:194080603G>C	uc003ftu.2	-	2	1256	c.1170C>G	c.(1168-1170)GGC>GGG	p.G390G	LRRC15_uc003ftt.2_Silent_p.G396G	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	390	LRR 15.|Extracellular (Potential).					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		TGGCCATGAGGCCATTGACGT	0.562													8	32	---	---	---	---	PASS	C	194080603	C	C	194080603	2	2	165	1	0	0	0	0	0	0	0	1	8970	1190	42	4		4	LRRC15	3	194080603	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	17610	194080603	3941827	139	59074										
TM4SF19	116211	broad.mit.edu	37	chr3	196050764	196050764	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccaccaggagaagctggagcAggctgatgcacagaagggcg	16	10	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:196050764A>T	uc003fwl.1	-	5	679	c.554T>A	c.(553-555)CTG>CAG	p.L185Q	TM4SF19_uc003fwj.2_RNA|uc003fwk.1_Missense_Mutation_p.Q10L|TM4SF19_uc010iad.1_Missense_Mutation_p.C184S|TM4SF19_uc011btv.1_Missense_Mutation_p.L159Q	NM_138461	NP_612470	Q96DZ7	T4S19_HUMAN	transmembrane 4 L six family member 19	185	Helical; (Potential).					integral to membrane					0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;4.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		AAGCTGGAGCAGGCTGATGCA	0.572													11	73	---	---	---	---	PASS	T	196050764	T	T	196050764	3	4	165	1	0	0	0	0	1	0	0	0	15965	188	7	5	79	5	TM4SF19	3	196050764	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1970161	196050764	1971666	140	59075										
KIAA0226	9711	broad.mit.edu	37	chr3	197410253	197410253	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agctgcatcccctcaaactgCttcaggagccccatggccac	8	17	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr3:197410253C>T	uc003fyc.2	-	13	2088	c.1905G>A	c.(1903-1905)AAG>AAA	p.K635K	KIAA0226_uc003fyd.3_Silent_p.K590K|KIAA0226_uc003fye.1_Silent_p.K367K	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	635					autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		CCTCAAACTGCTTCAGGAGCC	0.597													15	53	---	---	---	---	PASS	T	197410253	T	T	197410253	2	4	165	1	0	0	0	0	0	0	0	1	8162	796	28	3		3	KIAA0226	3	197410253	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	1359489	197410253	612177	141	59076										
ZFYVE28	57732	broad.mit.edu	37	chr4	2274976	2274976	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agtgttttaagaatacttctCaggtcactggcatagttcgt	9	7	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:2274976C>G	uc003gex.1	-	10	2566	c.2247G>C	c.(2245-2247)CTG>CTC	p.L749L	ZFYVE28_uc011bvk.1_Silent_p.L679L|ZFYVE28_uc011bvl.1_Silent_p.L719L|ZFYVE28_uc003gew.1_Silent_p.L635L	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	749					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						GAATACTTCTCAGGTCACTGG	0.527													4	47	---	---	---	---	PASS	G	2274976	G	G	2274976	2	3	165	1	0	0	0	0	0	0	0	1	17667	813	29	2		2	ZFYVE28	4	2274976	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08		2274976	188879300	142	59077										
RGS12	6002	broad.mit.edu	37	chr4	3319286	3319286	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgggacggtgtgggtgggagGggtgcccagccctggggtgc	23	8	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:3319286G>T	uc003ggw.2	+	2	2293	c.1389G>T	c.(1387-1389)AGG>AGT	p.R463S	RGS12_uc003ggu.2_Missense_Mutation_p.R463S|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Missense_Mutation_p.R463S|RGS12_uc003ggx.1_Missense_Mutation_p.R463S	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	463						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TGGGTGGGAGGGGTGCCCAGC	0.687													8	15	---	---	---	---	PASS	T	3319286	T	T	3319286	3	4	165	1	0	0	0	0	1	0	0	0	13295	1223	43	3	1391	3	RGS12	4	3319286	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1044310	3319286	187834990	143	59078										
EVC2	132884	broad.mit.edu	37	chr4	5699318	5699318	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atcaaccagaagaaaaactcAcctgcagtcttaaagtgaca	6	10	3	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:5699318A>G	uc003gij.2	-	2	337	c.283_splice	c.e2+1	p.V95_splice	EVC2_uc011bwb.1_Splice_Site|EVC2_uc003gik.2_Splice_Site_p.V15_splice	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin							integral to membrane				large_intestine(3)|ovary(2)	5						AGAAAAACTCACCTGCAGTCT	0.448													13	17	---	---	---	---	PASS	G	5699318	G	G	5699318	5	3	165	1	0	0	0	0	0	0	1	0	5286	173	6	5	3725	5	EVC2	4	5699318	Splice_Site	SNP	A	TCGA-66-2787-01A-01D-0983-08	2380032	5699318	185454958	144	59079										
JAKMIP1	152789	broad.mit.edu	37	chr4	6080723	6080723	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gagcgcaacagccgttctctCtcctagaaggaaacacaacg	9	13	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:6080723C>A	uc003giu.3	-	8	1521	c.1245G>T	c.(1243-1245)GAG>GAT	p.E415D	JAKMIP1_uc010idb.1_Missense_Mutation_p.E415D|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Missense_Mutation_p.E415D|JAKMIP1_uc011bwc.1_Missense_Mutation_p.E250D|JAKMIP1_uc003giv.3_Missense_Mutation_p.E415D|JAKMIP1_uc010ide.2_Missense_Mutation_p.E415D	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	415	Mediates interaction with TYK2 and GABBR1.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GCCGTTCTCTCTCCTAGAAGG	0.577													7	18	---	---	---	---	PASS	A	6080723	A	A	6080723	3	1	165	1	0	0	0	0	1	0	0	0	7940	912	32	2	1381	2	JAKMIP1	4	6080723	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	381405	6080723	185073553	145	59080										
PPP2R2C	5522	broad.mit.edu	37	chr4	6374278	6374278	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgtcggtgatggccaggtgCcagaggttgatgcgcaggtc	17	9	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:6374278C>A	uc003gjc.2	-	5	967	c.597G>T	c.(595-597)TGG>TGT	p.W199C	PPP2R2C_uc003gjb.2_Missense_Mutation_p.W182C|PPP2R2C_uc011bwd.1_Missense_Mutation_p.W192C|PPP2R2C_uc011bwe.1_Missense_Mutation_p.W192C|PPP2R2C_uc003gja.2_Missense_Mutation_p.W199C|PPP2R2C_uc003gjd.1_Missense_Mutation_p.W287C	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	199	WD 3.				signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						TGGCCAGGTGCCAGAGGTTGA	0.577													15	55	---	---	---	---	PASS	A	6374278	A	A	6374278	3	1	165	1	0	0	0	0	1	0	0	0	12386	740	26	3	766	3	PPP2R2C	4	6374278	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	293555	6374278	184779998	146	59081										
BOD1L	259282	broad.mit.edu	37	chr4	13603499	13603499	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctaataaaagtaatagttccTtcaactatttctgagtctct	4	8	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:13603499T>C	uc003gmz.1	-	10	5142	c.5025A>G	c.(5023-5025)GAA>GAG	p.E1675E	BOD1L_uc010idr.1_Silent_p.E1012E	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1675							DNA binding			ovary(5)|breast(1)	6						TAATAGTTCCTTCAACTATTT	0.393													27	129	---	---	---	---	PASS	C	13603499	C	C	13603499	2	2	165	1	0	0	0	0	0	0	0	1	1483	1606	56	5		5	BOD1L	4	13603499	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08	7229221	13603499	177550777	147	59082										
FGFBP1	9982	broad.mit.edu	37	chr4	15937711	15937711	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tctgggtcactgctaggctaGagggggtggtctctttgcct	15	9	3	1	rs143807110	byFrequency	TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:15937711G>C	uc003gom.2	-	2	663	c.545C>G	c.(544-546)TCT>TGT	p.S182C		NM_005130	NP_005121	Q14512	FGFP1_HUMAN	fibroblast growth factor binding protein 1	182					cell-cell signaling|negative regulation of cell proliferation|signal transduction	extracellular space|plasma membrane	heparin binding				0						TGCTAGGCTAGAGGGGGTGGT	0.547													13	56	---	---	---	---	PASS	C	15937711	C	C	15937711	3	2	165	1	0	0	0	0	1	0	0	0	5860	942	33	2	163	2	FGFBP1	4	15937711	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2334212	15937711	175216565	148	59083										
LDB2	9079	broad.mit.edu	37	chr4	16504481	16504481	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcccatcagagttggctctcCtaccaccatcacatcctgtg	6	16	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:16504481C>A	uc003goz.2	-	8	1223	c.907G>T	c.(907-909)GGA>TGA	p.G303*	LDB2_uc003gpa.2_3'UTR|LDB2_uc003gpb.2_Nonsense_Mutation_p.G301*|LDB2_uc011bxh.1_Nonsense_Mutation_p.G275*|LDB2_uc010iee.2_3'UTR|LDB2_uc003goy.2_Nonsense_Mutation_p.G178*|LDB2_uc011bxi.1_3'UTR	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	303	LIM-binding domain (LID) (By similarity).						LIM domain binding|transcription cofactor activity				0						GTTGGCTCTCCTACCACCATC	0.493													10	73	---	---	---	---	PASS	A	16504481	A	A	16504481	4	1	165	1	0	0	0	0	0	1	0	0	8696	690	24	3	218	3	LDB2	4	16504481	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	566770	16504481	174649795	149	59084										
SLIT2	9353	broad.mit.edu	37	chr4	20620527	20620527	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gggcagtgctgtggaccgctGaggagcaagcggcggaaata	18	8	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:20620527G>T	uc003gpr.1	+	37	4689	c.4485G>T	c.(4483-4485)CTG>CTT	p.L1495L	SLIT2_uc003gps.1_Silent_p.L1487L	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1495	CTCK.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GTGGACCGCTGAGGAGCAAGC	0.557													10	17	---	---	---	---	PASS	T	20620527	T	T	20620527	2	4	165	1	0	0	0	0	0	0	0	1	14740	1277	45	2		2	SLIT2	4	20620527	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	4116046	20620527	170533749	150	59085										
GABRA2	2555	broad.mit.edu	37	chr4	46388100	46388100	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	actatttttacctcccagtcCtggtctaagccgattatcgt	6	12	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:46388100C>A	uc003gxc.3	-	2	851	c.178G>T	c.(178-180)GGA>TGA	p.G60*	GABRA2_uc010igc.2_Nonsense_Mutation_p.G60*|GABRA2_uc011bzc.1_Missense_Mutation_p.Q27H|GABRA2_uc003gxe.2_Nonsense_Mutation_p.G60*|GABRA2_uc010igd.1_Nonsense_Mutation_p.G60*	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	60	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CCTCCCAGTCCTGGTCTAAGC	0.333													11	27	---	---	---	---	PASS	A	46388100	A	A	46388100	4	1	165	1	0	0	0	0	0	1	0	0	6161	690	24	3	1209	3	GABRA2	4	46388100	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	25767573	46388100	144766176	151	59086										
TEC	7006	broad.mit.edu	37	chr4	48230636	48230636	+	Translation_Start_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tagtgttaaaattcatctccGtcttctgattactcctcctg	5	11	4	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:48230636G>A	uc003gxz.2	-	2	87	c.-4C>T	c.(-6--2)GACGG>GATGG			NM_003215	NP_003206	P42680	TEC_HUMAN	tec protein tyrosine kinase						intracellular protein kinase cascade	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)	9						ATTCATCTCCGTCTTCTGATT	0.353													5	56	---	---	---	---	PASS	A	48230636	A	A	48230636	1	1	165	1	0	0	0	0	0	0	0	0	15739	1160	40	1		1	TEC	4	48230636	Translation_Start_Site	SNP	G	TCGA-66-2787-01A-01D-0983-08	1842536	48230636	142923640	152	59087										
CWH43	80157	broad.mit.edu	37	chr4	49052848	49052848	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccacagagaagtttctgagaAaattcattttaatcccaggt	7	8	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:49052848A>C	uc003gyv.2	+	15	2185	c.2003A>C	c.(2002-2004)AAA>ACA	p.K668T	CWH43_uc011bzl.1_Missense_Mutation_p.K641T	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	668					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						GTTTCTGAGAAAATTCATTTT	0.393													8	39	---	---	---	---	PASS	C	49052848	C	C	49052848	3	2	165	1	0	0	0	0	1	0	0	0	4073	14	1	5	2061	5	CWH43	4	49052848	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	822212	49052848	142101428	153	59088										
LRRC66	339977	broad.mit.edu	37	chr4	52883611	52883611	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggctgctgtctgtgatatgtCcacaggtatatcacactttc	9	10	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:52883611C>A	uc003gzi.2	-	1	182	c.169G>T	c.(169-171)GAC>TAC	p.D57Y		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	57						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						TGTGATATGTCCACAGGTATA	0.338													18	23	---	---	---	---	PASS	A	52883611	A	A	52883611	3	1	165	1	0	0	0	0	1	0	0	0	9018	855	30	2	2489	2	LRRC66	4	52883611	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3830763	52883611	138270665	154	59089										
KIT	3815	broad.mit.edu	37	chr4	55602887	55602887	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctttgcaaactgtgtctcagGaagcagcccctatcctggaa	9	12	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:55602887G>C	uc010igr.2	+	19	2684	c.2597G>C	c.(2596-2598)GGA>GCA	p.G866A	KIT_uc010igs.2_Missense_Mutation_p.G862A	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	866	Protein kinase.|Cytoplasmic (Potential).				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TGTGTCTCAGGAAGCAGCCCC	0.473		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				35	96	---	---	---	---	PASS	C	55602887	C	C	55602887	3	2	165	1	0	0	0	0	1	0	0	0	8329	1188	41	2	2671	2	KIT	4	55602887	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2719276	55602887	135551389	155	59090										
EXOC1	55763	broad.mit.edu	37	chr4	56768606	56768606	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acaaacaagaacttcgtaaaGtcattaaggagtaccctgga	8	8	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:56768606G>T	uc003hbe.1	+	18	2592	c.2434G>T	c.(2434-2436)GTC>TTC	p.V812F	EXOC1_uc003hbf.1_Missense_Mutation_p.V812F|EXOC1_uc003hbg.1_Missense_Mutation_p.V797F	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	812					exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					ACTTCGTAAAGTCATTAAGGA	0.388													8	109	---	---	---	---	PASS	T	56768606	T	T	56768606	3	4	165	1	0	0	0	0	1	0	0	0	5301	1029	36	3	2500	3	EXOC1	4	56768606	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1165719	56768606	134385670	156	59091										
EPHA5	2044	broad.mit.edu	37	chr4	66189906	66189906	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	catgatcttcttctggtgacCgacaagagtcactccaagcc	8	13	4	3	rs149835568		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:66189906C>T	uc003hcy.2	-	18	3233	c.3040G>A	c.(3040-3042)GGT>AGT	p.G1014S	EPHA5_uc003hcx.2_Missense_Mutation_p.G946S|EPHA5_uc003hcz.2_Missense_Mutation_p.G992S|EPHA5_uc011cah.1_Missense_Mutation_p.G1015S|EPHA5_uc011cai.1_Missense_Mutation_p.G993S	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	1014	Cytoplasmic (Potential).|SAM.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TTCTGGTGACCGACAAGAGTC	0.428										TSP Lung(17;0.13)			12	17	---	---	---	---	PASS	T	66189906	T	T	66189906	3	4	165	1	0	0	0	0	1	0	0	0	5170	652	23	1	77	1	EPHA5	4	66189906	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	9421300	66189906	124964370	157	59092										
TMPRSS11D	9407	broad.mit.edu	37	chr4	68725388	68725388	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atcttgaagtcgaagttacaCgtgctggccttacaagagag	11	8	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:68725388C>T	uc003hdq.2	-	2	82	c.17G>A	c.(16-18)CGT>CAT	p.R6H	LOC550112_uc003hdl.3_Intron|TMPRSS11D_uc011caj.1_Intron	NM_004262	NP_004253	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	6	Cytoplasmic (Potential).				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						CGAAGTTACACGTGCTGGCCT	0.413													14	34	---	---	---	---	PASS	T	68725388	T	T	68725388	3	4	165	1	0	0	0	0	1	0	0	0	16238	536	19	1	1275	1	TMPRSS11D	4	68725388	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	2535482	68725388	122428888	158	59093										
AMBN	258	broad.mit.edu	37	chr4	71469636	71469636	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcatgagttcagaagaagtgGcagtgagtaatgtcttctaa	11	5	4	4	rs141521373		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:71469636G>T	uc003hfl.2	+	12	871	c.796G>T	c.(796-798)GCA>TCA	p.A266S		NM_016519	NP_057603	Q9NP70	AMBN_HUMAN	ameloblastin precursor	266					bone mineralization|cell adhesion|cell proliferation|odontogenesis of dentine-containing tooth	proteinaceous extracellular matrix	growth factor activity|structural constituent of tooth enamel			ovary(3)|skin(1)	4			Lung(101;0.235)			AGAAGAAGTGGCAGTGAGTAA	0.423													8	19	---	---	---	---	PASS	T	71469636	T	T	71469636	3	4	165	1	0	0	0	0	1	0	0	0	563	1203	42	3	842	3	AMBN	4	71469636	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2744248	71469636	119684640	159	59094										
SLC4A4	8671	broad.mit.edu	37	chr4	72332198	72332198	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cctgggcactgctgtctctgGagccatcttttgcctttttg	10	12	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:72332198G>A	uc003hfy.2	+	13	1652	c.1535G>A	c.(1534-1536)GGA>GAA	p.G512E	SLC4A4_uc010iic.2_Missense_Mutation_p.G512E|SLC4A4_uc010iib.2_Missense_Mutation_p.G512E|SLC4A4_uc003hfz.2_Missense_Mutation_p.G512E|SLC4A4_uc003hgc.3_Missense_Mutation_p.G468E|SLC4A4_uc010iid.2_Intron|SLC4A4_uc003hga.2_Missense_Mutation_p.G390E|SLC4A4_uc003hgb.3_Missense_Mutation_p.G468E	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	512	Helical; (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			GCTGTCTCTGGAGCCATCTTT	0.403													23	40	---	---	---	---	PASS	A	72332198	A	A	72332198	3	1	165	1	0	0	0	0	1	0	0	0	14656	1174	41	2	1702	2	SLC4A4	4	72332198	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	862562	72332198	118822078	160	59095										
GPRIN3	285513	broad.mit.edu	37	chr4	90169902	90169902	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agaattagtacctgcgagctTtttagcagttgactcttccc	8	10	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:90169902T>C	uc003hsm.1	-	2	1879	c.1360A>G	c.(1360-1362)AAG>GAG	p.K454E		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	454										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		CCTGCGAGCTTTTTAGCAGTT	0.453													6	43	---	---	---	---	PASS	C	90169902	C	C	90169902	3	2	165	1	0	0	0	0	1	0	0	0	6731	1850	64	5	974	5	GPRIN3	4	90169902	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	17837704	90169902	100984374	161	59096										
UNC5C	8633	broad.mit.edu	37	chr4	96222890	96222890	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atctcaatgctcacttcccgGacaatgagacctgacaagag	8	12	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:96222890G>T	uc003htp.1	-	3	511	c.357C>A	c.(355-357)GTC>GTA	p.V119V	UNC5C_uc010ilc.1_Silent_p.V119V|UNC5C_uc003htq.2_Silent_p.V119V	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	119	Extracellular (Potential).|Ig-like.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		TCACTTCCCGGACAATGAGAC	0.448													5	17	---	---	---	---	PASS	T	96222890	T	T	96222890	2	4	165	1	0	0	0	0	0	0	0	1	16990	1161	41	2		2	UNC5C	4	96222890	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	6052988	96222890	94931386	162	59097										
METAP1	23173	broad.mit.edu	37	chr4	99960601	99960601	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tctgaagatatagaagggatGcgacttgtatgtagggtaag	14	3	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:99960601G>A	uc003huf.3	+	5	534	c.417G>A	c.(415-417)ATG>ATA	p.M139I	METAP1_uc003hug.2_RNA	NM_015143	NP_055958	P53582	AMPM1_HUMAN	methionyl aminopeptidase 1	139					N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis|regulation of translation	cytoplasm	aminopeptidase activity|metal ion binding|metalloexopeptidase activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;3.12e-07)		TAGAAGGGATGCGACTTGTAT	0.363													15	48	---	---	---	---	PASS	A	99960601	A	A	99960601	3	1	165	1	0	0	0	0	1	0	0	0	9486	1319	46	3	435	3	METAP1	4	99960601	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3737711	99960601	91193675	163	59098										
FAT4	79633	broad.mit.edu	37	chr4	126239869	126239869	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcaaatagtagctactgatgGtggcaatttacaatctccca	8	9	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:126239869G>A	uc003ifj.3	+	1	2303	c.2303G>A	c.(2302-2304)GGT>GAT	p.G768D		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	768	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GCTACTGATGGTGGCAATTTA	0.438													42	23	---	---	---	---	PASS	A	126239869	A	A	126239869	3	1	165	1	0	0	0	0	1	0	0	0	5692	1261	44	3	2305	3	FAT4	4	126239869	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	26279268	126239869	64914407	164	59099										
FAT4	79633	broad.mit.edu	37	chr4	126369935	126369935	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtcagctctcttgtcaccacCatcacaggatcctctttaag	6	14	5	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:126369935C>T	uc003ifj.3	+	9	7764	c.7764C>T	c.(7762-7764)ACC>ACT	p.T2588T	FAT4_uc011cgp.1_Silent_p.T886T|FAT4_uc003ifi.1_Silent_p.T66T	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2588	Extracellular (Potential).|Cadherin 25.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TTGTCACCACCATCACAGGAT	0.333													13	28	---	---	---	---	PASS	T	126369935	T	T	126369935	2	4	165	1	0	0	0	0	0	0	0	1	5692	581	21	3		3	FAT4	4	126369935	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	130066	126369935	64784341	165	59100										
SLC10A7	84068	broad.mit.edu	37	chr4	147247142	147247142	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caggagcaggggtgttataaCgatgccctgaaagaaataaa	12	6	0	2	rs147461877	byFrequency	TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:147247142C>A	uc010ioz.2	-	6	696	c.442G>T	c.(442-444)GTT>TTT	p.V148F	SLC10A7_uc003ikr.2_Missense_Mutation_p.V148F|SLC10A7_uc010ipa.2_Missense_Mutation_p.V135F|SLC10A7_uc003iks.2_RNA	NM_001029998	NP_001025169	Q0GE19	NTCP7_HUMAN	solute carrier family 10 (sodium/bile acid	148	Helical; (Potential).					integral to membrane	bile acid:sodium symporter activity				0	all_hematologic(180;0.151)					GGTGTTATAACGATGCCCTGA	0.358													6	10	---	---	---	---	PASS	A	147247142	A	A	147247142	3	1	165	1	0	0	0	0	1	0	0	0	14379	536	19	1	608	1	SLC10A7	4	147247142	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	20877207	147247142	43907134	166	59101										
DCLK2	166614	broad.mit.edu	37	chr4	151153526	151153526	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgaagtgtcaatactgcgccGagtgaaacatcccaatatca	8	10	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:151153526G>T	uc003ilm.3	+	9	1437	c.1337G>T	c.(1336-1338)CGA>CTA	p.R446L	DCLK2_uc003iln.3_Missense_Mutation_p.R445L|DCLK2_uc003ilo.3_Missense_Mutation_p.R463L|DCLK2_uc003ilp.3_RNA	NM_001040260	NP_001035350	Q8N568	DCLK2_HUMAN	doublecortin-like kinase 2 isoform a	446	Protein kinase.				intracellular signal transduction	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)					ATACTGCGCCGAGTGAAACAT	0.448													44	73	---	---	---	---	PASS	T	151153526	T	T	151153526	3	4	165	1	0	0	0	0	1	0	0	0	4292	1058	37	2	1371	2	DCLK2	4	151153526	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3906384	151153526	40000750	167	59102										
KLKB1	3818	broad.mit.edu	37	chr4	187172721	187172721	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cttttgttaaaggagtgaatGtttgccaagagacttgcaca	10	6	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr4:187172721G>C	uc003iyy.2	+	9	1020	c.949G>C	c.(949-951)GTT>CTT	p.V317L	KLKB1_uc011clc.1_Missense_Mutation_p.V115L|KLKB1_uc011cld.1_Missense_Mutation_p.V279L	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	317	Apple 4.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		AGGAGTGAATGTTTGCCAAGA	0.363													3	30	---	---	---	---	PASS	C	187172721	C	C	187172721	3	2	165	1	0	0	0	0	1	0	0	0	8412	1377	48	4	979	4	KLKB1	4	187172721	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	36019195	187172721	3981555	168	59103										
ADAMTS16	170690	broad.mit.edu	37	chr5	5186325	5186325	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atgatgcaaaaccatggccaTgaaaatatcaccacctacgt	6	11	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:5186325T>C	uc003jdl.2	+	5	1062	c.924T>C	c.(922-924)CAT>CAC	p.H308H	ADAMTS16_uc003jdk.1_Silent_p.H308H|ADAMTS16_uc003jdj.1_Silent_p.H308H	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	308	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						ACCATGGCCATGAAAATATCA	0.453													13	36	---	---	---	---	PASS	C	5186325	C	C	5186325	2	2	165	1	0	0	0	0	0	0	0	1	261	1461	51	5		5	ADAMTS16	5	5186325	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08		5186325	175728935	169	59104										
FASTKD3	79072	broad.mit.edu	37	chr5	7867883	7867883	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atgaagtcaagttgctcagtCtcctgtaaaacatctgactc	7	10	4	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:7867883C>A	uc003jeb.2	-	2	451	c.314G>T	c.(313-315)AGA>ATA	p.R105I	FASTKD3_uc011cmp.1_Intron|FASTKD3_uc003jec.2_Intron|MTRR_uc010itn.1_5'Flank|MTRR_uc003jee.3_5'Flank|MTRR_uc003jed.2_5'Flank|MTRR_uc003jef.3_5'Flank|MTRR_uc003jeg.3_5'Flank|MTRR_uc010ito.2_5'Flank	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	105					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						GTTGCTCAGTCTCCTGTAAAA	0.438													10	27	---	---	---	---	PASS	A	7867883	A	A	7867883	3	1	165	1	0	0	0	0	1	0	0	0	5687	913	32	2	1698	2	FASTKD3	5	7867883	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	2681558	7867883	173047377	170	59105										
DNAH5	1767	broad.mit.edu	37	chr5	13735337	13735337	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aacaggaatttgtgctcctcGtacagccctcgggcagcata	10	12	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:13735337G>T	uc003jfd.2	-	68	11706	c.11664C>A	c.(11662-11664)TAC>TAA	p.Y3888*	DNAH5_uc003jfc.2_Nonsense_Mutation_p.Y56*	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3888					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TGTGCTCCTCGTACAGCCCTC	0.458									Kartagener_syndrome				15	37	---	---	---	---	PASS	T	13735337	T	T	13735337	4	4	165	1	0	0	0	0	0	1	0	0	4604	1140	40	1	2258	1	DNAH5	5	13735337	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	5867454	13735337	167179923	171	59106										
DNAH5	1767	broad.mit.edu	37	chr5	13864711	13864711	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcttcaggtccaaaaaagccTgccagtccttcaaggcccgg	9	14	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:13864711T>A	uc003jfd.2	-	28	4433	c.4391A>T	c.(4390-4392)CAG>CTG	p.Q1464L		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1464	Potential.|Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CAAAAAAGCCTGCCAGTCCTT	0.502									Kartagener_syndrome				5	38	---	---	---	---	PASS	A	13864711	A	A	13864711	3	1	165	1	0	0	0	0	1	0	0	0	4604	1580	55	5	9691	5	DNAH5	5	13864711	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	129374	13864711	167050549	172	59107										
MYO10	4651	broad.mit.edu	37	chr5	16818205	16818205	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaggacgccatgtcatccacGccctcctcgttcgtggggtg	12	14	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:16818205G>A	uc003jft.3	-	3	660	c.192C>T	c.(190-192)GGC>GGT	p.G64G	MYO10_uc003jfu.2_Silent_p.G31G|MYO10_uc003jfv.2_Silent_p.G64G	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	64	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						TGTCATCCACGCCCTCCTCGT	0.463													5	30	---	---	---	---	PASS	A	16818205	A	A	16818205	2	1	165	1	0	0	0	0	0	0	0	1	10062	1074	38	1		1	MYO10	5	16818205	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	2953494	16818205	164097055	173	59108										
CDH12	1010	broad.mit.edu	37	chr5	21975358	21975358	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gagcacgaagagtgtagaaaGgtttctcttctctatctagg	11	7	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:21975358G>A	uc010iuc.2	-	3	826	c.368C>T	c.(367-369)CCT>CTT	p.P123L	CDH12_uc011cno.1_Missense_Mutation_p.P123L|CDH12_uc003jgk.2_Missense_Mutation_p.P123L	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	123	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						AGTGTAGAAAGGTTTCTCTTC	0.443										HNSCC(59;0.17)			11	50	---	---	---	---	PASS	A	21975358	A	A	21975358	3	1	165	1	0	0	0	0	1	0	0	0	3098	1000	35	3	2056	3	CDH12	5	21975358	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	5157153	21975358	158939902	174	59109										
SPEF2	79925	broad.mit.edu	37	chr5	35705881	35705881	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaaagtaaaagaaattcttaCgactgaaatagcaaaaaaaa	5	4	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:35705881C>T	uc003jjo.2	+	18	2747	c.2636C>T	c.(2635-2637)ACG>ATG	p.T879M	SPEF2_uc003jjq.3_Missense_Mutation_p.T874M|SPEF2_uc003jjp.1_Missense_Mutation_p.T365M	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	879	Potential.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GAAATTCTTACGACTGAAATA	0.269													6	24	---	---	---	---	PASS	T	35705881	T	T	35705881	3	4	165	1	0	0	0	0	1	0	0	0	15034	536	19	1	2727	1	SPEF2	5	35705881	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	13730523	35705881	145209379	175	59110										
DDX4	54514	broad.mit.edu	37	chr5	55110787	55110787	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	attttcgctttggaaagtgcCcagttcttgttgctacttca	8	9	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:55110787C>A	uc003jqg.3	+	20	1848	c.1774C>A	c.(1774-1776)CCA>ACA	p.P592T	DDX4_uc010ivz.2_Missense_Mutation_p.P572T|DDX4_uc003jqh.3_Missense_Mutation_p.P558T|DDX4_uc003jqj.2_Missense_Mutation_p.P443T	NM_001136034	NP_001129506	Q9NQI0	DDX4_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4 isoform	592	Helicase C-terminal.				multicellular organismal development|sperm motility	perinuclear region of cytoplasm|pi-body|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|skin(1)	2		Lung NSC(810;6.93e-05)|all_neural(839;0.00409)|Prostate(74;0.0107)|Breast(144;0.0544)|Ovarian(174;0.223)				TGGAAAGTGCCCAGTTCTTGT	0.403													16	43	---	---	---	---	PASS	A	55110787	A	A	55110787	3	1	165	1	0	0	0	0	1	0	0	0	4360	623	22	3	1889	3	DDX4	5	55110787	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	19404906	55110787	125804473	176	59111										
MAP3K1	4214	broad.mit.edu	37	chr5	56184162	56184162	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaatgcagaaaaacactccaAtcatcttgctttgatattta	5	8	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:56184162A>G	uc003jqw.3	+	19	4868	c.4367A>G	c.(4366-4368)AAT>AGT	p.N1456S		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	1456	Protein kinase.				cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		AAACACTCCAATCATCTTGCT	0.388													8	23	---	---	---	---	PASS	G	56184162	G	G	56184162	3	3	165	1	0	0	0	0	1	0	0	0	9243	101	4	5	4441	5	MAP3K1	5	56184162	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1073375	56184162	124731098	177	59112										
TRIM23	373	broad.mit.edu	37	chr5	64905270	64905270	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aatacatgaccgggcattctCtgcagtccctggtacctaag	9	12	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:64905270C>T	uc003jty.2	-	6	930	c.844G>A	c.(844-846)GAG>AAG	p.E282K	TRIM23_uc003jtw.2_Missense_Mutation_p.E282K|TRIM23_uc003jtx.2_Missense_Mutation_p.E282K	NM_001656	NP_001647	P36406	TRI23_HUMAN	ADP-ribosylation factor domain protein 1 isoform	282					interspecies interaction between organisms|small GTPase mediated signal transduction	Golgi membrane|lysosomal membrane	enzyme activator activity|GDP binding|GTP binding|GTPase activity|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Breast(144;0.0433)|Ovarian(174;0.0545)|Colorectal(97;0.234)		Lung(70;0.00473)		CGGGCATTCTCTGCAGTCCCT	0.313													8	17	---	---	---	---	PASS	T	64905270	T	T	64905270	3	4	165	1	0	0	0	0	1	0	0	0	16494	922	32	2	971	2	TRIM23	5	64905270	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	8721108	64905270	116009990	178	59113										
ERBB2IP	55914	broad.mit.edu	37	chr5	65342183	65342183	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atcttttcttttacttagacCtcagaaagtactactacagt	4	9	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:65342183C>A	uc003juk.1	+	18	1913	c.1605C>A	c.(1603-1605)ACC>ACA	p.T535T	ERBB2IP_uc003juh.1_Silent_p.T531T|ERBB2IP_uc003jui.1_Silent_p.T535T|ERBB2IP_uc003juj.1_Silent_p.T535T|ERBB2IP_uc011cqx.1_Silent_p.T535T|ERBB2IP_uc011cqy.1_Silent_p.T535T|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Silent_p.T531T|ERBB2IP_uc003jul.1_Silent_p.T531T	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	535					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		TTACTTAGACCTCAGAAAGTA	0.289													30	58	---	---	---	---	PASS	A	65342183	A	A	65342183	2	1	165	1	0	0	0	0	0	0	0	1	5207	668	24	3		3	ERBB2IP	5	65342183	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	436913	65342183	115573077	179	59114										
GPR98	84059	broad.mit.edu	37	chr5	89989742	89989742	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcggctgttgttgttctacaGtacttccgacattgatgtag	10	8	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:89989742G>C	uc003kju.2	+	33	7265	c.7169G>C	c.(7168-7170)AGT>ACT	p.S2390T	GPR98_uc003kjt.2_Missense_Mutation_p.S96T|GPR98_uc003kjv.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2390	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TTGTTCTACAGTACTTCCGAC	0.438													5	11	---	---	---	---	PASS	C	89989742	C	C	89989742	3	2	165	1	0	0	0	0	1	0	0	0	6721	1029	36	4	7299	4	GPR98	5	89989742	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	24647559	89989742	90925518	180	59115										
GPR98	84059	broad.mit.edu	37	chr5	90368330	90368330	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gttcctttgacgtgcctcgtGgtggtgttcgtggtgttcat	14	8	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:90368330G>A	uc003kju.2	+	86	18315	c.18219G>A	c.(18217-18219)GTG>GTA	p.V6073V	GPR98_uc003kjt.2_Silent_p.V3779V|GPR98_uc003kjw.2_Silent_p.V1734V|GPR98_uc003kjx.2_Silent_p.V101V	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	6073	Helical; (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CGTGCCTCGTGGTGGTGTTCG	0.463													42	74	---	---	---	---	PASS	A	90368330	A	A	90368330	2	1	165	1	0	0	0	0	0	0	0	1	6721	1335	47	3		3	GPR98	5	90368330	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	378588	90368330	90546930	181	59116										
CHD1	1105	broad.mit.edu	37	chr5	98232003	98232003	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cccaagtctgaatttcccttTgccaggaagtaagagtggag	11	9	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:98232003T>G	uc003knf.2	-	11	1785	c.1637A>C	c.(1636-1638)CAA>CCA	p.Q546P		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	546	Helicase ATP-binding.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	AATTTCCCTTTGCCAGGAAGT	0.363													11	23	---	---	---	---	PASS	G	98232003	G	G	98232003	3	3	165	1	0	0	0	0	1	0	0	0	3323	1812	63	5	3595	5	CHD1	5	98232003	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	7863673	98232003	82683257	182	59117										
FER	2241	broad.mit.edu	37	chr5	108207163	108207163	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaatgtcggttgaacagataGatcctagtacagaatacaat	8	6	0	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:108207163G>C	uc003kop.1	+	7	1147	c.763G>C	c.(763-765)GAT>CAT	p.D255H	FER_uc011cve.1_Missense_Mutation_p.D195H|FER_uc011cvf.1_RNA|FER_uc011cvg.1_Missense_Mutation_p.D80H	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	255	Important for interaction with membranes containing phosphoinositides.				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)		TGAACAGATAGATCCTAGTAC	0.323													14	22	---	---	---	---	PASS	C	108207163	C	C	108207163	3	2	165	1	0	0	0	0	1	0	0	0	5813	942	33	2	781	2	FER	5	108207163	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	9975160	108207163	72708097	183	59118										
WDR36	134430	broad.mit.edu	37	chr5	110461440	110461440	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaatgattgggatgatgctgGacagaaagcgtgattttgag	14	3	0	5			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:110461440G>A	uc003kpd.2	+	22	2770	c.2653G>A	c.(2653-2655)GAC>AAC	p.D885N	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	885					response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		GATGATGCTGGACAGAAAGCG	0.453													11	40	---	---	---	---	PASS	A	110461440	A	A	110461440	3	1	165	1	0	0	0	0	1	0	0	0	17287	1174	41	2	2739	2	WDR36	5	110461440	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2254277	110461440	70453820	184	59119										
KCNN2	3781	broad.mit.edu	37	chr5	113822787	113822787	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgtactcagggaaacatggcTaatttacaaaaatacaaagc	7	7	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:113822787T>A	uc003kqo.2	+	6	1752	c.1295T>A	c.(1294-1296)CTA>CAA	p.L432Q	KCNN2_uc003kqp.2_Missense_Mutation_p.L84Q|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	432	Calmodulin-binding (By similarity).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		GAAACATGGCTAATTTACAAA	0.333													22	34	---	---	---	---	PASS	A	113822787	A	A	113822787	3	1	165	1	0	0	0	0	1	0	0	0	8079	1522	53	5	1317	5	KCNN2	5	113822787	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	3361347	113822787	67092473	185	59120										
FBN2	2201	broad.mit.edu	37	chr5	127702111	127702111	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctactccactactacaaaggCcgtggaattcagctgtatga	8	11	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:127702111C>A	uc003kuu.2	-	17	2700	c.2261G>T	c.(2260-2262)GGC>GTC	p.G754V	FBN2_uc003kuv.2_Missense_Mutation_p.G721V	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	754	TB 3.		G -> S (in CCA).		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)		ACTACAAAGGCCGTGGAATTC	0.323													7	10	---	---	---	---	PASS	A	127702111	A	A	127702111	3	1	165	1	0	0	0	0	1	0	0	0	5703	739	26	3	6673	3	FBN2	5	127702111	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	13879324	127702111	53213149	186	59121										
SLC27A6	28965	broad.mit.edu	37	chr5	128320941	128320941	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctcaaagaaaaactgagcacCtcacctgatgagcccgtgcc	8	14	2	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:128320941C>A	uc003kuy.2	+	3	993	c.597C>A	c.(595-597)ACC>ACA	p.T199T	SLC27A6_uc003kuz.2_Silent_p.T199T	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	199					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		AACTGAGCACCTCACCTGATG	0.433													19	23	---	---	---	---	PASS	A	128320941	A	A	128320941	2	1	165	1	0	0	0	0	0	0	0	1	14530	668	24	3		3	SLC27A6	5	128320941	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	618830	128320941	52594319	187	59122										
IL4	3565	broad.mit.edu	37	chr5	132015524	132015524	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acagcagttccacaggcacaAgcagctgatccgattcctga	9	13	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:132015524A>G	uc003kxk.1	+	3	672	c.302A>G	c.(301-303)AAG>AGG	p.K101R	IL4_uc003kxl.1_Missense_Mutation_p.K85R	NM_000589	NP_000580	P05112	IL4_HUMAN	interleukin 4 isoform 1 precursor	101					B cell differentiation|cellular defense response|chemotaxis|cholesterol metabolic process|connective tissue growth factor biosynthetic process|negative regulation of apoptosis|negative regulation of osteoclast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of interleukin-13 production|positive regulation of isotype switching to IgE isotypes|positive regulation of isotype switching to IgG isotypes|positive regulation of MHC class II biosynthetic process|positive regulation of T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|T-helper 2 cell cytokine production	extracellular space	cytokine activity|growth factor activity|interleukin-4 receptor binding				0		all_cancers(142;2.81e-05)|all_lung(232;1.47e-05)|Lung NSC(810;2.31e-05)|all_neural(839;0.0459)|Ovarian(839;0.0481)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	GBM - Glioblastoma multiforme(465;0.00245)		CACAGGCACAAGCAGCTGATC	0.622													15	33	---	---	---	---	PASS	G	132015524	G	G	132015524	3	3	165	1	0	0	0	0	1	0	0	0	7696	72	3	5	312	5	IL4	5	132015524	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	3694583	132015524	48899736	188	59123										
FBXL21	26223	broad.mit.edu	37	chr5	135276949	135276949	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agagttaatgttgttatgcaCttctttctatatgaagagga	9	4	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:135276949C>T	uc010jec.1	+	5	915	c.894C>T	c.(892-894)CAC>CAT	p.H298H	FBXL21_uc003lbc.2_Intron	NM_012159	NP_036291	Q9UKT6	FXL21_HUMAN	F-box and leucine-rich repeat protein 21	298					rhythmic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TTGTTATGCACTTCTTTCTAT	0.368													20	32	---	---	---	---	PASS	T	135276949	T	T	135276949	2	4	165	1	0	0	0	0	0	0	0	1	5718	564	20	3		3	FBXL21	5	135276949	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	3261425	135276949	45638311	189	59124										
NRG2	9542	broad.mit.edu	37	chr5	139267090	139267090	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcatcttcttcaacttgggcCgggtggctgtgggttacaag	13	9	4	0	rs146573130	byFrequency	TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:139267090C>G	uc003lex.1	-	2	932	c.707G>C	c.(706-708)CGG>CCG	p.R236P	NRG2_uc003lev.1_Missense_Mutation_p.R236P|NRG2_uc003lew.1_Missense_Mutation_p.R236P|NRG2_uc003ley.1_Missense_Mutation_p.R236P	NM_004883	NP_004874	O14511	NRG2_HUMAN	neuregulin 2 isoform 1	236	Extracellular (Potential).				embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAACTTGGGCCGGGTGGCTGT	0.587													7	4	---	---	---	---	PASS	G	139267090	G	G	139267090	3	3	165	1	0	0	0	0	1	0	0	0	10648	652	23	4	1972	4	NRG2	5	139267090	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3990141	139267090	41648170	190	59125										
PCDHA2	56146	broad.mit.edu	37	chr5	140176274	140176274	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agggctggcaccgctgctggCgcagtgagtgagctggtgcc	18	11	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:140176274C>A	uc003lhd.2	+	1	1831	c.1725C>A	c.(1723-1725)GGC>GGA	p.G575G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.G575G|PCDHA2_uc011czy.1_Silent_p.G575G	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	575	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGCTGCTGGCGCAGTGAGTG	0.672													30	55	---	---	---	---	PASS	A	140176274	A	A	140176274	2	1	165	1	0	0	0	0	0	0	0	1	11524	755	27	1		1	PCDHA2	5	140176274	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	909184	140176274	40738986	191	59126										
PCDHA3	56145	broad.mit.edu	37	chr5	140180879	140180879	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tggggagcggccagctccacTactccgtctctgaggaggcc	14	14	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:140180879T>A	uc003lhf.2	+	1	97	c.97T>A	c.(97-99)TAC>AAC	p.Y33N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.Y33N	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	33	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGCTCCACTACTCCGTCTC	0.657													10	27	---	---	---	---	PASS	A	140180879	A	A	140180879	3	1	165	1	0	0	0	0	1	0	0	0	11525	1522	53	5	99	5	PCDHA3	5	140180879	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	4605	140180879	40734381	192	59127										
PCDHA4	56144	broad.mit.edu	37	chr5	140188675	140188675	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctggcgagatcagcacaacgCgtgccctggacgaaacggac	13	13	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:140188675C>G	uc003lhi.2	+	1	2004	c.1903C>G	c.(1903-1905)CGT>GGT	p.R635G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.R635G|PCDHA4_uc011daa.1_Missense_Mutation_p.R635G	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	635	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCACAACGCGTGCCCTGGA	0.687													30	46	---	---	---	---	PASS	G	140188675	G	G	140188675	3	3	165	1	0	0	0	0	1	0	0	0	11526	768	27	4	1905	4	PCDHA4	5	140188675	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	7796	140188675	40726585	193	59128										
PCDHA13	56136	broad.mit.edu	37	chr5	140263823	140263823	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggtgaaggaccacggtgagcCcgcgctgacggccacggcaa	16	13	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:140263823C>A	uc003lif.2	+	1	1970	c.1970C>A	c.(1969-1971)CCC>CAC	p.P657H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.P657H|PCDHA13_uc003lid.2_Missense_Mutation_p.P657H	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	657	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACGGTGAGCCCGCGCTGACG	0.692													16	32	---	---	---	---	PASS	A	140263823	A	A	140263823	3	1	165	1	0	0	0	0	1	0	0	0	11523	623	22	3	1972	3	PCDHA13	5	140263823	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	75148	140263823	40651437	194	59129										
PCDHB9	56127	broad.mit.edu	37	chr5	140567751	140567751	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cattttttgatgcttctgaaGatattttaacaacgtttcaa	5	6	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:140567751G>A	uc003liw.1	+	1	859	c.859G>A	c.(859-861)GAT>AAT	p.D287N		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	287	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGCTTCTGAAGATATTTTAAC	0.338													5	12	---	---	---	---	PASS	A	140567751	A	A	140567751	3	1	165	1	0	0	0	0	1	0	0	0	11549	942	33	2	861	2	PCDHB9	5	140567751	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	303928	140567751	40347509	195	59130										
SH3TC2	79628	broad.mit.edu	37	chr5	148427424	148427424	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acctgtttccttcatgctcaCcttaaacagcatgcgcacct	5	15	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:148427424C>A	uc003lpu.2	-	3	431	c.279_splice	c.e3+1	p.K93_splice	SH3TC2_uc003lpp.1_Splice_Site|SH3TC2_uc003lpt.2_Splice_Site|SH3TC2_uc010jgx.2_Splice_Site_p.K93_splice|SH3TC2_uc003lpv.1_Splice_Site|SH3TC2_uc011dbz.1_Splice_Site|SH3TC2_uc003lpw.1_Missense_Mutation_p.V94L	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2								binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ttcatgctcacCTTAAACAGC	0.299													19	34	---	---	---	---	PASS	A	148427424	A	A	148427424	5	1	165	1	0	0	0	0	0	0	1	0	14262	521	18	3	3646	3	SH3TC2	5	148427424	Splice_Site	SNP	C	TCGA-66-2787-01A-01D-0983-08	7859673	148427424	32487836	196	59131										
NDST1	3340	broad.mit.edu	37	chr5	149912589	149912589	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctactcagggaaattcttccAcacaggtaagtgggcctgcc	10	12	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:149912589A>C	uc003lsk.3	+	4	1593	c.1091A>C	c.(1090-1092)CAC>CCC	p.H364P	NDST1_uc011dcj.1_Missense_Mutation_p.H364P|NDST1_uc003lsl.2_Missense_Mutation_p.H364P	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	364	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).			H -> Q (in Ref. 4; AAH12888).	heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AAATTCTTCCACACAGGTAAG	0.572													21	37	---	---	---	---	PASS	C	149912589	C	C	149912589	3	2	165	1	0	0	0	0	1	0	0	0	10255	159	6	5	1101	5	NDST1	5	149912589	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1485165	149912589	31002671	197	59132										
C5orf4	10826	broad.mit.edu	37	chr5	154200021	154200021	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcacacccagcaccccatagCactggttgaacctagaagag	9	14	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:154200021C>A	uc003lvs.3	-	9	1028	c.857G>T	c.(856-858)TGC>TTC	p.C286F	C5orf4_uc003lvq.2_5'Flank|C5orf4_uc003lvr.2_Missense_Mutation_p.A26S|C5orf4_uc011dde.1_Missense_Mutation_p.C263F	NM_032385	NP_115761	Q96IV6	CE004_HUMAN	hypothetical protein LOC10826	286					fatty acid biosynthetic process	integral to membrane	iron ion binding|oxidoreductase activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CACCCCATAGCACTGGTTGAA	0.562													14	30	---	---	---	---	PASS	A	154200021	A	A	154200021	3	1	165	1	0	0	0	0	1	0	0	0	2298	710	25	3	148	3	C5orf4	5	154200021	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	4287432	154200021	26715239	198	59133										
DOCK2	1794	broad.mit.edu	37	chr5	169461420	169461420	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagcctgatggaatgtgctgCagagcacccaaccattgcca	10	13	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:169461420C>A	uc003maf.2	+	35	3565	c.3485C>A	c.(3484-3486)GCA>GAA	p.A1162E	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.A654E	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1162	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAATGTGCTGCAGAGCACCCA	0.592													19	30	---	---	---	---	PASS	A	169461420	A	A	169461420	3	1	165	1	0	0	0	0	1	0	0	0	4687	710	25	3	3623	3	DOCK2	5	169461420	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	15261399	169461420	11453840	199	59134										
COL23A1	91522	broad.mit.edu	37	chr5	177690210	177690210	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	actccatgccctctcttaccGctgggccttgtgctcccctg	8	18	1	0	rs112924647		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:177690210G>T	uc003mje.2	-	9	996	c.638C>A	c.(637-639)GCG>GAG	p.A213E	COL23A1_uc010jkt.2_Silent_p.R61R	NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	213	Extracellular (Potential).|Collagen-like 1.|Gly-rich.					collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	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)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		CTCTCTTACCGCTGGGCCTTG	0.552													6	25	---	---	---	---	PASS	T	177690210	T	T	177690210	3	4	165	1	0	0	0	0	1	0	0	0	3682	1101	38	1	1068	1	COL23A1	5	177690210	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	8228790	177690210	3225050	200	59135										
TBC1D9B	23061	broad.mit.edu	37	chr5	179305398	179305398	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagctcgttctggaaggcagGgtgctcgggcatggagcggt	18	9	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:179305398G>T	uc003mlh.2	-	10	1730	c.1693C>A	c.(1693-1695)CCT>ACT	p.P565T	TBC1D9B_uc003mli.2_Missense_Mutation_p.P565T|TBC1D9B_uc003mlj.2_Missense_Mutation_p.P565T	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	565	Rab-GAP TBC.					integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGGAAGGCAGGGTGCTCGGGC	0.642													4	8	---	---	---	---	PASS	T	179305398	T	T	179305398	3	4	165	1	0	0	0	0	1	0	0	0	15625	1232	43	3	2111	3	TBC1D9B	5	179305398	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1615188	179305398	1609862	201	59136										
BTNL8	79908	broad.mit.edu	37	chr5	180338406	180338406	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gacatccagctactctgtcaGtcctcgggctggttcccccg	10	16	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr5:180338406G>T	uc003mmp.2	+	3	699	c.465G>T	c.(463-465)CAG>CAT	p.Q155H	BTNL8_uc003mmq.2_Missense_Mutation_p.Q155H|BTNL8_uc011dhg.1_Missense_Mutation_p.Q30H|BTNL8_uc010jll.2_Missense_Mutation_p.Q155H|BTNL8_uc010jlm.2_Missense_Mutation_p.Q39H|BTNL8_uc011dhh.1_5'UTR	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	155	Ig-like V-type 2.|Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TACTCTGTCAGTCCTCGGGCT	0.532													54	93	---	---	---	---	PASS	T	180338406	T	T	180338406	3	4	165	1	0	0	0	0	1	0	0	0	1567	1020	36	3	501	3	BTNL8	5	180338406	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1033008	180338406	576854	202	59137										
PRPF4B	8899	broad.mit.edu	37	chr6	4032634	4032634	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaggtaaaaaatccagatccCcagttgatttaagaggtaaa	9	6	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:4032634C>T	uc003mvv.2	+	2	974	c.883C>T	c.(883-885)CCA>TCA	p.P295S	PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	295	Arg/Lys-rich (basic).					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				ATCCAGATCCCCAGTTGATTT	0.333													51	135	---	---	---	---	PASS	T	4032634	T	T	4032634	3	4	165	1	0	0	0	0	1	0	0	0	12573	623	22	3	889	3	PRPF4B	6	4032634	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08		4032634	167082433	203	59138										
F13A1	2162	broad.mit.edu	37	chr6	6266881	6266881	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gggagtccagacagcaacatAcatgcggaatttccccacaa	9	12	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:6266881A>T	uc003mwv.2	-	4	604	c.481T>A	c.(481-483)TAT>AAT	p.Y161N	F13A1_uc011dib.1_Missense_Mutation_p.Y98N	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	161					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	ACAGCAACATACATGCGGAAT	0.502													18	31	---	---	---	---	PASS	T	6266881	T	T	6266881	3	4	165	1	0	0	0	0	1	0	0	0	5340	391	14	5	1765	5	F13A1	6	6266881	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	2234247	6266881	164848186	204	59139										
CAGE1	285782	broad.mit.edu	37	chr6	7365779	7365779	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtaggtacatctctgatactCttggcttcatctgaatcaca	7	10	5	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:7365779C>A	uc003mxi.2	-	7	2347	c.1626G>T	c.(1624-1626)AAG>AAT	p.K542N	CAGE1_uc003mxh.2_RNA|CAGE1_uc003mxj.2_Missense_Mutation_p.K460N|CAGE1_uc003mxk.1_Missense_Mutation_p.K460N	NM_205864	NP_995586	Q8TC20	CAGE1_HUMAN	cancer antigen 1	678											0	Ovarian(93;0.0418)					CTCTGATACTCTTGGCTTCAT	0.368													4	34	---	---	---	---	PASS	A	7365779	A	A	7365779	3	1	165	1	0	0	0	0	1	0	0	0	2572	912	32	2	534	2	CAGE1	6	7365779	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1098898	7365779	163749288	205	59140										
NHLRC1	378884	broad.mit.edu	37	chr6	18121939	18121939	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cttggccgacaagctgcataCttgagctaaacactttcacc	7	13	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:18121939C>G	uc003ncl.1	-	1	913	c.899G>C	c.(898-900)AGT>ACT	p.S300T		NM_198586	NP_940988	Q6VVB1	NHLC1_HUMAN	NHL repeat containing 1	300	NHL 4.				proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	endoplasmic reticulum|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0	Ovarian(93;0.016)|Breast(50;0.0245)	all_hematologic(90;0.165)	all cancers(50;0.0451)|Epithelial(50;0.0493)			AAGCTGCATACTTGAGCTAAA	0.572													16	50	---	---	---	---	PASS	G	18121939	G	G	18121939	3	3	165	1	0	0	0	0	1	0	0	0	10405	565	20	4	292	4	NHLRC1	6	18121939	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	10756160	18121939	152993128	206	59141										
HIST1H4C	8364	broad.mit.edu	37	chr6	26104290	26104290	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaccggctattcgccgtttgGctcggcgcggtggcgtcaag	15	12	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:26104290G>T	uc003ngi.2	+	1	115	c.115G>T	c.(115-117)GCT>TCT	p.A39S		NM_003542	NP_003533	P62805	H4_HUMAN	histone cluster 1, H4c	39					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding				0						TCGCCGTTTGGCTCGGCGCGG	0.542													9	35	---	---	---	---	PASS	T	26104290	T	T	26104290	3	4	165	1	0	0	0	0	1	0	0	0	7167	1203	42	3	117	3	HIST1H4C	6	26104290	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	7982351	26104290	145010777	207	59142										
HIST1H3E	8353	broad.mit.edu	37	chr6	26225436	26225436	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acaggcggtaaagcaccgcgCaaacagctggccactaaggc	12	13	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:26225436C>A	uc003nhb.2	+	2	414	c.54C>A	c.(52-54)CGC>CGA	p.R18R	HIST1H3E_uc003nhc.3_Silent_p.R18R	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	18					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.0223)|Acute lymphoblastic leukemia(11;0.0351)				AAGCACCGCGCAAACAGCTGG	0.592													14	36	---	---	---	---	PASS	A	26225436	A	A	26225436	2	1	165	1	0	0	0	0	0	0	0	1	7159	697	25	3		3	HIST1H3E	6	26225436	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	121146	26225436	144889631	208	59143										
ZNF391	346157	broad.mit.edu	37	chr6	27368915	27368915	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atgaatgcagtaaatgtggaAaagctttcagttggatctca	10	5	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:27368915A>T	uc003njf.1	+	3	1284	c.766A>T	c.(766-768)AAA>TAA	p.K256*		NM_001076781	NP_001070249	Q9UJN7	ZN391_HUMAN	zinc finger protein 391	256	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(2)|skin(1)	3						TAAATGTGGAAAAGCTTTCAG	0.443													10	25	---	---	---	---	PASS	T	27368915	T	T	27368915	4	4	165	1	0	0	0	0	0	1	0	0	17876	15	1	5	768	5	ZNF391	6	27368915	Nonsense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1143479	27368915	143746152	209	59144										
OR14J1	442191	broad.mit.edu	37	chr6	29275320	29275320	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gatacctccaacactcaatcCagtcatttatagcttacgga	5	12	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:29275320C>A	uc011dln.1	+	1	854	c.854C>A	c.(853-855)CCA>CAA	p.P285Q		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACACTCAATCCAGTCATTTAT	0.408													22	68	---	---	---	---	PASS	A	29275320	A	A	29275320	3	1	165	1	0	0	0	0	1	0	0	0	10948	594	21	3	856	3	OR14J1	6	29275320	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1906405	29275320	141839747	210	59145										
KIFC1	3833	broad.mit.edu	37	chr6	33371295	33371295	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaagccagttcctgctgttcCtgtccagaagtctggcagta	11	11	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:33371295C>A	uc003oef.3	+	5	788	c.338C>A	c.(337-339)CCT>CAT	p.P113H	KIFC1_uc011drf.1_Missense_Mutation_p.P113H	NM_002263	NP_002254	Q9BW19	KIFC1_HUMAN	kinesin family member C1	113					blood coagulation|cell division|microtubule-based movement|mitotic sister chromatid segregation	early endosome|microtubule|microtubule associated complex|microtubule organizing center|nucleus|spindle	ATP binding|microtubule motor activity				0						CCTGCTGTTCCTGTCCAGAAG	0.488													5	60	---	---	---	---	PASS	A	33371295	A	A	33371295	3	1	165	1	0	0	0	0	1	0	0	0	8312	681	24	3	356	3	KIFC1	6	33371295	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	4095975	33371295	137743772	211	59146										
DNAH8	1769	broad.mit.edu	37	chr6	38802366	38802366	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tccttacaggaaggacctatGgttccaaatataccacccca	6	13	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:38802366G>T	uc003ooe.1	+	30	4263	c.3663G>T	c.(3661-3663)ATG>ATT	p.M1221I		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AAGGACCTATGGTTCCAAATA	0.308													27	68	---	---	---	---	PASS	T	38802366	T	T	38802366	3	4	165	1	0	0	0	0	1	0	0	0	4607	1348	47	3	3773	3	DNAH8	6	38802366	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	5431071	38802366	132312701	212	59147										
KCNK5	8645	broad.mit.edu	37	chr6	39162006	39162006	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaggagtagtagaggccctcGatgtagttccacccctcagt	11	11	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:39162006G>T	uc003oon.2	-	4	937	c.573C>A	c.(571-573)ATC>ATA	p.I191I		NM_003740	NP_003731	O95279	KCNK5_HUMAN	potassium channel, subfamily K, member 5	191					excretion	integral to plasma membrane	potassium channel activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						AGAGGCCCTCGATGTAGTTCC	0.562													18	50	---	---	---	---	PASS	T	39162006	T	T	39162006	2	4	165	1	0	0	0	0	0	0	0	1	8069	1048	37	2		2	KCNK5	6	39162006	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	359640	39162006	131953061	213	59148										
LRFN2	57497	broad.mit.edu	37	chr6	40399687	40399687	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggcgggacttggggggtgcaGtgcggctggtgctgttgctg	22	7	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:40399687G>C	uc003oph.1	-	2	1631	c.1166C>G	c.(1165-1167)ACT>AGT	p.T389S		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	389	Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GGGGGGTGCAGTGCGGCTGGT	0.667													5	22	---	---	---	---	PASS	C	40399687	C	C	40399687	3	2	165	1	0	0	0	0	1	0	0	0	8938	1029	36	4	1211	4	LRFN2	6	40399687	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1237681	40399687	130715380	214	59149										
TDRD6	221400	broad.mit.edu	37	chr6	46656980	46656980	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atattttcgaatgccggtggTgacctacccttgtgctttgt	10	9	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:46656980T>A	uc003oyj.2	+	1	1115	c.1115T>A	c.(1114-1116)GTG>GAG	p.V372E	TDRD6_uc010jze.2_Missense_Mutation_p.V366E	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	372					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			ATGCCGGTGGTGACCTACCCT	0.547													14	56	---	---	---	---	PASS	A	46656980	A	A	46656980	3	1	165	1	0	0	0	0	1	0	0	0	15731	1696	59	5	1117	5	TDRD6	6	46656980	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	6257293	46656980	124458087	215	59150										
CRISP1	167	broad.mit.edu	37	chr6	49816007	49816007	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttttgtgcagcctcttcactCcaactctgtagtggaaagaa	8	10	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:49816007C>A	uc003ozw.2	-	4	280	c.201G>T	c.(199-201)TGG>TGT	p.W67C	CRISP1_uc003ozx.2_Missense_Mutation_p.W67C	NM_001131	NP_001122	P54107	CRIS1_HUMAN	acidic epididymal glycoprotein-like 1 isoform 1	67					fusion of sperm to egg plasma membrane	extracellular space					0	Lung NSC(77;0.0358)					CCTCTTCACTCCAACTCTGTA	0.328													8	34	---	---	---	---	PASS	A	49816007	A	A	49816007	3	1	165	1	0	0	0	0	1	0	0	0	3879	856	30	2	568	2	CRISP1	6	49816007	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3159027	49816007	121299060	216	59151										
DEFB112	245915	broad.mit.edu	37	chr6	50011464	50011464	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttacatcgacctccaatcgCtgtacatgacttccacctac	4	15	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:50011464C>G	uc011dws.1	-	2	166	c.166G>C	c.(166-168)GCG>CCG	p.A56P		NM_001037498	NP_001032587	Q30KQ8	DB112_HUMAN	beta-defensin 112 precursor	56					defense response to bacterium	extracellular region				central_nervous_system(1)	1	Lung NSC(77;0.042)					CCTCCAATCGCTGTACATGAC	0.438													15	53	---	---	---	---	PASS	G	50011464	G	G	50011464	3	3	165	1	0	0	0	0	1	0	0	0	4401	797	28	4	178	4	DEFB112	6	50011464	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	195457	50011464	121103603	217	59152										
PKHD1	5314	broad.mit.edu	37	chr6	51907739	51907739	+	Silent	SNP	G	C	C													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcttctccagtggcactgatGgcaagaccagagggtctcac							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:51907739G>C	uc003pah.1	-	27	3291	c.3015C>G	c.(3013-3015)GCC>GCG	p.A1005A	PKHD1_uc003pai.2_Silent_p.A1005A	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1005	IPT/TIG 4.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TGGCACTGATGGCAAGACCAG	0.473													34	48	---	---	---	---	PASS	C	51907739	C	C	51907739	2	2	165	1	0	0	0	0	0	0	0	1	11971	1335	47	4		4	PKHD1	6	51907739	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	1896275	51907739	119207328	218	59153	1045	2								
PKHD1	5314	broad.mit.edu	37	chr6	51907740	51907740	+	Missense_Mutation	SNP	G	T	T													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cttctccagtggcactgatgGcaagaccagagggtctcacc							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:51907740G>T	uc003pah.1	-	27	3290	c.3014C>A	c.(3013-3015)GCC>GAC	p.A1005D	PKHD1_uc003pai.2_Missense_Mutation_p.A1005D	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1005	IPT/TIG 4.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GGCACTGATGGCAAGACCAGA	0.473													34	49	---	---	---	---	PASS	T	51907740	T	T	51907740	3	4	165	1	0	0	0	0	1	0	0	0	11971	1203	42	3	9413	3	PKHD1	6	51907740	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1	51907740	119207327	219	59154	1045	2								
GSTA1	2938	broad.mit.edu	37	chr6	52661110	52661110	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttgctggaacatcaaatatcCatctttagaaggaagaaaaa	7	6	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:52661110C>A	uc003paz.2	-	4	254	c.142G>T	c.(142-144)GGA>TGA	p.G48*		NM_145740	NP_665683	P08263	GSTA1_HUMAN	glutathione S-transferase alpha 1	48	GST N-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.118)				Amsacrine(DB00276)|Busulfan(DB01008)|Glutathione(DB00143)	ATCAAATATCCATCTTTAGAA	0.403													5	119	---	---	---	---	PASS	A	52661110	A	A	52661110	4	1	165	1	0	0	0	0	0	1	0	0	6830	603	21	3	542	3	GSTA1	6	52661110	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	753370	52661110	118453957	220	59155										
DST	667	broad.mit.edu	37	chr6	56394534	56394534	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccaatgctaacagcctggtgTaaatgtttattgtgattgat	9	6	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:56394534T>C	uc003pdf.2	-	60	10978	c.10950A>G	c.(10948-10950)TTA>TTG	p.L3650L	DST_uc003pcz.3_Silent_p.L3472L|DST_uc011dxj.1_Silent_p.L3501L|DST_uc011dxk.1_Silent_p.L3512L|DST_uc003pcy.3_Silent_p.L3146L	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5558	Spectrin 9.				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)			CAGCCTGGTGTAAATGTTTAT	0.299													9	21	---	---	---	---	PASS	C	56394534	C	C	56394534	2	2	165	1	0	0	0	0	0	0	0	1	4783	1635	57	5		5	DST	6	56394534	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08	3733424	56394534	114720533	221	59156										
EEF1A1	1915	broad.mit.edu	37	chr6	74228328	74228328	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcggccaacaggaacagtacCaatacctaaaaatatttaca	5	10	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:74228328C>A	uc003phi.2	-	5	815	c.778G>T	c.(778-780)GGT>TGT	p.G260C	EEF1A1_uc003phd.2_5'UTR|EEF1A1_uc003phe.2_Missense_Mutation_p.G250C|EEF1A1_uc003phf.2_Missense_Mutation_p.G260C|EEF1A1_uc003phg.2_Missense_Mutation_p.G260C|EEF1A1_uc003phh.2_Missense_Mutation_p.G106C|EEF1A1_uc003phj.2_Missense_Mutation_p.G260C|EEF1A1_uc003phk.2_Missense_Mutation_p.G260C|EEF1A1_uc003phl.2_Intron|EEF1A1_uc003phm.1_Intron	NM_001402	NP_001393	P68104	EF1A1_HUMAN	eukaryotic translation elongation factor 1 alpha	260						cytosol|eukaryotic translation elongation factor 1 complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0						GGAACAGTACCAATACCTAAA	0.413											OREG0003895	type=REGULATORY REGION|Gene=D16891|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	5	38	---	---	---	---	PASS	A	74228328	A	A	74228328	3	1	165	1	0	0	0	0	1	0	0	0	4923	594	21	3	622	3	EEF1A1	6	74228328	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	17833794	74228328	96886739	222	59157										
COL12A1	1303	broad.mit.edu	37	chr6	75825592	75825592	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaagatactccttgtacagaAgcaaaattcttttctgtcag	6	8	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:75825592A>T	uc003phs.2	-	49	7771	c.7605T>A	c.(7603-7605)GCT>GCA	p.A2535A	COL12A1_uc003pht.2_Silent_p.A1371A	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2535	TSP N-terminal.|Nonhelical region (NC3).				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CTTGTACAGAAGCAAAATTCT	0.363													16	80	---	---	---	---	PASS	T	75825592	T	T	75825592	2	4	165	1	0	0	0	0	0	0	0	1	3669	59	3	5		5	COL12A1	6	75825592	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	1597264	75825592	95289475	223	59158										
HTR1E	3354	broad.mit.edu	37	chr6	87726039	87726039	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcggaagtggccgactttctGacgtggctcggttatgtgaa	14	8	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:87726039G>T	uc003pli.2	+	2	1690	c.987G>T	c.(985-987)CTG>CTT	p.L329L		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	329	Helical; Name=7; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	CCGACTTTCTGACGTGGCTCG	0.443													23	91	---	---	---	---	PASS	T	87726039	T	T	87726039	2	4	165	1	0	0	0	0	0	0	0	1	7439	1277	45	2		2	HTR1E	6	87726039	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	11900447	87726039	83389028	224	59159										
CNR1	1268	broad.mit.edu	37	chr6	88853983	88853983	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtcttggctaacctaatgtcCatgcgggcttggtctggccg	13	11	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:88853983C>A	uc011dzq.1	-	2	4574	c.1011G>T	c.(1009-1011)ATG>ATT	p.M337I	CNR1_uc010kbz.2_Missense_Mutation_p.M337I|CNR1_uc011dzr.1_Missense_Mutation_p.M337I|CNR1_uc011dzs.1_Missense_Mutation_p.M337I|CNR1_uc003pmq.3_Missense_Mutation_p.M337I|CNR1_uc011dzt.1_Missense_Mutation_p.M337I|CNR1_uc010kca.2_Missense_Mutation_p.M304I	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	337	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	ACCTAATGTCCATGCGGGCTT	0.557													23	64	---	---	---	---	PASS	A	88853983	A	A	88853983	3	1	165	1	0	0	0	0	1	0	0	0	3631	594	21	3	411	3	CNR1	6	88853983	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1127944	88853983	82261084	225	59160										
EPHA7	2045	broad.mit.edu	37	chr6	93969136	93969136	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tccttggcgaattgatggacAgctctatttgggtcctcata	10	9	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:93969136A>T	uc003poe.2	-	10	2101	c.1860T>A	c.(1858-1860)GCT>GCA	p.A620A	EPHA7_uc003pof.2_Silent_p.A615A|EPHA7_uc011eac.1_Silent_p.A616A	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	620	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		ATTGATGGACAGCTCTATTTG	0.433													8	60	---	---	---	---	PASS	T	93969136	T	T	93969136	2	4	165	1	0	0	0	0	0	0	0	1	5172	175	7	5		5	EPHA7	6	93969136	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	5115153	93969136	77145931	226	59161										
BEND3	57673	broad.mit.edu	37	chr6	107391211	107391211	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccaggaactcagtgaggtccTgcgtgtccaccacgtggtct	12	13	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:107391211T>A	uc003prs.2	-	5	1834	c.1184A>T	c.(1183-1185)CAG>CTG	p.Q395L		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	395	BEN 2.									ovary(3)	3						AGTGAGGTCCTGCGTGTCCAC	0.632													12	57	---	---	---	---	PASS	A	107391211	A	A	107391211	3	1	165	1	0	0	0	0	1	0	0	0	1399	1580	55	5	1306	5	BEND3	6	107391211	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	13422075	107391211	63723856	227	59162										
FRK	2444	broad.mit.edu	37	chr6	116288787	116288787	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	catacttcgccaaactgaccAgatcccaatcgcttcagaag	6	14	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:116288787A>T	uc003pwi.1	-	4	1173	c.726T>A	c.(724-726)TCT>TCA	p.S242S		NM_002031	NP_002022	P42685	FRK_HUMAN	fyn-related kinase	242	ATP (By similarity).|Protein kinase.				negative regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|lung(3)	6		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)		CAAACTGACCAGATCCCAATC	0.458													15	84	---	---	---	---	PASS	T	116288787	T	T	116288787	2	4	165	1	0	0	0	0	0	0	0	1	6048	175	7	5		5	FRK	6	116288787	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	8897576	116288787	54826280	228	59163										
ROS1	6098	broad.mit.edu	37	chr6	117714485	117714485	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tctaaatcacagacacatacCtaaaaaaataaaaaatatac	1	8	2	1	rs150002762		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:117714485C>G	uc003pxp.1	-	11	1364	c.1165_splice	c.e11-1	p.V389_splice	ROS1_uc011ebi.1_Splice_Site|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor						transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		AGACACATACCTAAAAAAATA	0.368			T	GOPC|ROS1	glioblastoma|NSCLC								5	139	---	---	---	---	PASS	G	117714485	G	G	117714485	5	3	165	1	0	0	0	0	0	0	1	0	13531	695	24	4	6011	4	ROS1	6	117714485	Splice_Site	SNP	C	TCGA-66-2787-01A-01D-0983-08	1425698	117714485	53400582	229	59164										
MAN1A1	4121	broad.mit.edu	37	chr6	119514988	119514988	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tagcttccagatctgtcttgTcagacattaaccaggccttc	7	12	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:119514988T>A	uc003pym.1	-	9	1722	c.1280A>T	c.(1279-1281)GAC>GTC	p.D427V		NM_005907	NP_005898	P33908	MA1A1_HUMAN	mannosidase, alpha, class 1A, member 1	427	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_epithelial(87;0.173)		OV - Ovarian serous cystadenocarcinoma(136;0.0612)|GBM - Glioblastoma multiforme(226;0.0702)|all cancers(137;0.115)		ATCTGTCTTGTCAGACATTAA	0.383													8	39	---	---	---	---	PASS	A	119514988	A	A	119514988	3	1	165	1	0	0	0	0	1	0	0	0	9210	1667	58	5	701	5	MAN1A1	6	119514988	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	1800503	119514988	51600079	230	59165										
C6orf170	221322	broad.mit.edu	37	chr6	121577251	121577251	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttttccatgcctttgctatAgattcatgcaaattataagt	5	7	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:121577251A>G	uc003pyo.1	-	16	1982	c.1914T>C	c.(1912-1914)TCT>TCC	p.S638S	C6orf170_uc003pyq.1_RNA|C6orf170_uc003pyp.1_Silent_p.S157S	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	638					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		CCTTTGCTATAGATTCATGCA	0.338													8	20	---	---	---	---	PASS	G	121577251	G	G	121577251	2	3	165	1	0	0	0	0	0	0	0	1	2344	407	15	5		5	C6orf170	6	121577251	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	2062263	121577251	49537816	231	59166										
GJA1	2697	broad.mit.edu	37	chr6	121768886	121768886	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgacagaaacaattcttcttGccgcaattacaacaagcaag	6	11	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:121768886G>C	uc003pyr.2	+	2	1143	c.893G>C	c.(892-894)TGC>TCC	p.C298S	GJA1_uc011ebo.1_Missense_Mutation_p.C199S|GJA1_uc011ebp.1_Missense_Mutation_p.C86S	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	298	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	AATTCTTCTTGCCGCAATTAC	0.493													28	68	---	---	---	---	PASS	C	121768886	C	C	121768886	3	2	165	1	0	0	0	0	1	0	0	0	6400	1319	46	4	895	4	GJA1	6	121768886	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	191635	121768886	49346181	232	59167										
FABP7	2173	broad.mit.edu	37	chr6	123101603	123101603	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccactgcagatgatagaaacTgtaaggtgagaaactgcttc	10	8	0	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:123101603T>C	uc003pzf.2	+	2	535	c.241T>C	c.(241-243)TGT>CGT	p.C81R	FABP7_uc003pzd.2_Missense_Mutation_p.C81R|FABP7_uc003pze.1_Missense_Mutation_p.C81R	NM_001446	NP_001437	O15540	FABP7_HUMAN	fatty acid binding protein 7, brain	81					negative regulation of cell proliferation	cytoplasm	lipid binding|transporter activity				0				GBM - Glioblastoma multiforme(226;0.226)	Alpha-Linolenic Acid(DB00132)|gamma-Homolinolenic acid(DB00154)|Icosapent(DB00159)	TGATAGAAACTGTAAGGTGAG	0.413													10	37	---	---	---	---	PASS	C	123101603	C	C	123101603	3	2	165	1	0	0	0	0	1	0	0	0	5362	1580	55	5	247	5	FABP7	6	123101603	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	1332717	123101603	48013464	233	59168										
CLVS2	134829	broad.mit.edu	37	chr6	123376952	123376952	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgtcttcttgcatttatagaTatttttgcatggtaacaacc	6	8	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:123376952T>G	uc003pzi.1	+	5	1546	c.677T>G	c.(676-678)ATA>AGA	p.I226R		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	226	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CATTTATAGATATTTTTGCAT	0.433													14	31	---	---	---	---	PASS	G	123376952	G	G	123376952	3	3	165	1	0	0	0	0	1	0	0	0	3572	1420	49	5	691	5	CLVS2	6	123376952	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	275349	123376952	47738115	234	59169										
THEMIS	387357	broad.mit.edu	37	chr6	128134372	128134372	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcctggtgtggcagccaacaCgtcctcttcaatggaaagat	10	11	2	1	rs144858181		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:128134372C>A	uc003qbi.2	-	5	1733	c.1414G>T	c.(1414-1416)GTG>TTG	p.V472L	THEMIS_uc010kfa.2_Missense_Mutation_p.V375L|THEMIS_uc011ebt.1_Missense_Mutation_p.V472L|THEMIS_uc010kfb.2_Missense_Mutation_p.V437L	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	472	CABIT 2.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						GCAGCCAACACGTCCTCTTCA	0.483													5	22	---	---	---	---	PASS	A	128134372	A	A	128134372	3	1	165	1	0	0	0	0	1	0	0	0	15857	536	19	1	644	1	THEMIS	6	128134372	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	4757420	128134372	42980695	235	59170										
THEMIS	387357	broad.mit.edu	37	chr6	128150997	128150997	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tagaagcaaggatgccctagTctacttggtccaatatgaat	9	8	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:128150997T>A	uc003qbi.2	-	4	652	c.333A>T	c.(331-333)AGA>AGT	p.R111S	THEMIS_uc010kfa.2_Missense_Mutation_p.R14S|THEMIS_uc011ebt.1_Missense_Mutation_p.R111S|THEMIS_uc010kfb.2_Missense_Mutation_p.R76S	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	111	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						GATGCCCTAGTCTACTTGGTC	0.383													12	34	---	---	---	---	PASS	A	128150997	A	A	128150997	3	1	165	1	0	0	0	0	1	0	0	0	15857	1664	58	5	1729	5	THEMIS	6	128150997	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	16625	128150997	42964070	236	59171										
LAMA2	3908	broad.mit.edu	37	chr6	129759879	129759879	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttgagaactttgaatgacacTttgggaaagttatcagctat	9	5	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:129759879T>G	uc003qbn.2	+	42	6162	c.6057T>G	c.(6055-6057)ACT>ACG	p.T2019T	LAMA2_uc003qbo.2_Silent_p.T2019T	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2019	Domain II and I.|Potential.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TGAATGACACTTTGGGAAAGT	0.368													10	57	---	---	---	---	PASS	G	129759879	G	G	129759879	2	3	165	1	0	0	0	0	0	0	0	1	8606	1596	56	5		5	LAMA2	6	129759879	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08	1608882	129759879	41355188	237	59172										
TMEM200A	114801	broad.mit.edu	37	chr6	130762800	130762800	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tccactctaactgttcaggcAgaacaacggaaacatccaag	7	12	2	1	rs141922342	byFrequency	TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:130762800A>G	uc003qca.2	+	3	2104	c.1233A>G	c.(1231-1233)GCA>GCG	p.A411A	TMEM200A_uc010kfh.2_Silent_p.A411A|TMEM200A_uc010kfi.2_Silent_p.A411A|TMEM200A_uc003qcb.2_Silent_p.A411A	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	411	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		CTGTTCAGGCAGAACAACGGA	0.478													18	43	---	---	---	---	PASS	G	130762800	G	G	130762800	2	3	165	1	0	0	0	0	0	0	0	1	16120	175	7	5		5	TMEM200A	6	130762800	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	1002921	130762800	40352267	238	59173										
TXLNB	167838	broad.mit.edu	37	chr6	139609763	139609763	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctcgttgtcaggtgattctgCattctcaggctgctcactgg	11	11	4	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:139609763C>A	uc011eds.1	-	2	439	c.274G>T	c.(274-276)GCA>TCA	p.A92S		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	92						cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		GGTGATTCTGCATTCTCAGGC	0.547													23	41	---	---	---	---	PASS	A	139609763	A	A	139609763	3	1	165	1	0	0	0	0	1	0	0	0	16785	710	25	3	1816	3	TXLNB	6	139609763	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	8846963	139609763	31505304	239	59174										
SHPRH	257218	broad.mit.edu	37	chr6	146264293	146264293	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccttaccaagactcgaagagAtgacgacctcacatgcctgt	8	13	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:146264293A>T	uc003qlf.2	-	9	2623	c.2224T>A	c.(2224-2226)TCT>ACT	p.S742T	SHPRH_uc003qld.2_Missense_Mutation_p.S742T|SHPRH_uc003qle.2_Missense_Mutation_p.S742T|SHPRH_uc003qlg.1_Missense_Mutation_p.S298T|SHPRH_uc003qlj.1_Missense_Mutation_p.S631T	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	742	Helicase ATP-binding; second part.				DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		ACTCGAAGAGATGACGACCTC	0.438													13	42	---	---	---	---	PASS	T	146264293	T	T	146264293	3	4	165	1	0	0	0	0	1	0	0	0	14291	333	12	5	2959	5	SHPRH	6	146264293	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	6654530	146264293	24850774	240	59175										
SYNE1	23345	broad.mit.edu	37	chr6	152644691	152644691	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gggttggggcggctccatccTggagcatgctcagggtttgc	17	10	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:152644691T>C	uc010kiw.2	-	82	16441	c.15839A>G	c.(15838-15840)CAG>CGG	p.Q5280R	SYNE1_uc003qot.3_Missense_Mutation_p.Q5209R|SYNE1_uc003qou.3_Missense_Mutation_p.Q5280R|SYNE1_uc010kiz.2_Missense_Mutation_p.Q1035R	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5280	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)		GGCTCCATCCTGGAGCATGCT	0.562										HNSCC(10;0.0054)			4	15	---	---	---	---	PASS	C	152644691	C	C	152644691	3	2	165	1	0	0	0	0	1	0	0	0	15442	1580	55	5	10887	5	SYNE1	6	152644691	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	6380398	152644691	18470376	241	59176										
SLC22A2	6582	broad.mit.edu	37	chr6	160671686	160671686	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atggccatgagaactccagcTgcagcatttatgaggactgt	11	9	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:160671686T>A	uc003qtf.2	-	3	737	c.567A>T	c.(565-567)GCA>GCT	p.A189A	SLC22A2_uc003qte.1_Silent_p.A189A|SLC22A2_uc003qth.1_Silent_p.A189A	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	189	Helical; (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		GAACTCCAGCTGCAGCATTTA	0.433													26	33	---	---	---	---	PASS	A	160671686	A	A	160671686	2	1	165	1	0	0	0	0	0	0	0	1	14450	1567	55	5		5	SLC22A2	6	160671686	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08	8026995	160671686	10443381	242	59177										
RPS6KA2	6196	broad.mit.edu	37	chr6	166952269	166952269	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tatctccttcacgacgccttCttcctgcaagagagcggcac	8	15	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:166952269C>G	uc003qvb.1	-	2	322	c.103G>C	c.(103-105)GAA>CAA	p.E35Q	RPS6KA2_uc011ego.1_5'UTR|RPS6KA2_uc010kkl.1_5'UTR|RPS6KA2_uc003qvc.1_Missense_Mutation_p.E43Q|RPS6KA2_uc003qvd.1_Missense_Mutation_p.E60Q	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	35					axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		ACGACGCCTTCTTCCTGCAAG	0.557													13	59	---	---	---	---	PASS	G	166952269	G	G	166952269	3	3	165	1	0	0	0	0	1	0	0	0	13651	922	32	2	2178	2	RPS6KA2	6	166952269	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	6280583	166952269	4162798	243	59178										
TCP10	6953	broad.mit.edu	37	chr6	167791471	167791471	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gagctaagtggttagatgacCatctttgtcccaggagagtg	13	7	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:167791471C>A	uc003qvv.1	-	4	601	c.389G>T	c.(388-390)TGG>TTG	p.W130L	TCP10_uc003qvu.2_Missense_Mutation_p.W130L|TCP10_uc003qvw.2_Missense_Mutation_p.W106L	NM_004610	NP_004601	Q12799	TCP10_HUMAN	t-complex 10	157						cytosol				breast(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;4.05e-20)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)|GBM - Glioblastoma multiforme(31;0.0386)		GTTAGATGACCATCTTTGTCC	0.493													18	71	---	---	---	---	PASS	A	167791471	A	A	167791471	3	1	165	1	0	0	0	0	1	0	0	0	15707	595	21	3	611	3	TCP10	6	167791471	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	839202	167791471	3323596	244	59179										
MLLT4	4301	broad.mit.edu	37	chr6	168352705	168352705	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagagcaaaccggaccgcagCgccgaggagagcgaccggct	15	14	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr6:168352705C>G	uc003qwd.2	+	29	4789	c.4647C>G	c.(4645-4647)AGC>AGG	p.S1549R	MLLT4_uc003qwb.1_Missense_Mutation_p.S1534R|MLLT4_uc003qwc.1_Missense_Mutation_p.S1550R|MLLT4_uc003qwg.1_Missense_Mutation_p.S859R	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1550	Potential.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		CGGACCGCAGCGCCGAGGAGA	0.498			T	MLL	AL								5	19	---	---	---	---	PASS	G	168352705	G	G	168352705	3	3	165	1	0	0	0	0	1	0	0	0	9629	767	27	4	4764	4	MLLT4	6	168352705	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	561234	168352705	2762362	245	59180										
DNAH11	8701	broad.mit.edu	37	chr7	21630856	21630856	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tataataaactcaaacagacGctcctggaagttgaataccc	6	10	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:21630856G>T	uc003svc.2	+	14	2359	c.2328G>T	c.(2326-2328)ACG>ACT	p.T776T		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	776	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TCAAACAGACGCTCCTGGAAG	0.448									Kartagener_syndrome				10	17	---	---	---	---	PASS	T	21630856	T	T	21630856	2	4	165	1	0	0	0	0	0	0	0	1	4599	1074	38	1		1	DNAH11	7	21630856	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08		21630856	137507807	246	59181										
DNAH11	8701	broad.mit.edu	37	chr7	21775367	21775367	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaatgcaggagtgggaaaaaCagtctttgtaggtgacacat	12	5	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:21775367C>A	uc003svc.2	+	47	7602	c.7571C>A	c.(7570-7572)ACA>AAA	p.T2524K		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2524	AAA 3 (By similarity).|ATP (Potential).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GTGGGAAAAACAGTCTTTGTA	0.433									Kartagener_syndrome				18	34	---	---	---	---	PASS	A	21775367	A	A	21775367	3	1	165	1	0	0	0	0	1	0	0	0	4599	478	17	3	7754	3	DNAH11	7	21775367	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	144511	21775367	137363296	247	59182										
FAM188B	84182	broad.mit.edu	37	chr7	30915170	30915170	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acgttttcaacgatgtggttGagctggattctggggatggg	16	5	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:30915170G>T	uc003tbt.2	+	15	1947	c.1870G>T	c.(1870-1872)GAG>TAG	p.E624*	FAM188B_uc010kwe.2_Nonsense_Mutation_p.E595*|AQP1_uc011kac.1_5'UTR|FAM188B_uc003tbu.2_Nonsense_Mutation_p.E144*	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	624											0						CGATGTGGTTGAGCTGGATTC	0.468													56	89	---	---	---	---	PASS	T	30915170	T	T	30915170	4	4	165	1	0	0	0	0	0	1	0	0	5515	1291	45	2	1928	2	FAM188B	7	30915170	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	9139803	30915170	128223493	248	59183										
RALA	5898	broad.mit.edu	37	chr7	39730117	39730117	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aattagagacaactacttccGaagtggggaggggttcctct	12	8	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:39730117G>A	uc003thd.2	+	3	551	c.251G>A	c.(250-252)CGA>CAA	p.R84Q		NM_005402	NP_005393	P11233	RALA_HUMAN	ras related v-ral simian leukemia viral oncogene	84					actin cytoskeleton reorganization|cell cycle|chemotaxis|cytokinesis|exocytosis|interspecies interaction between organisms|membrane raft localization|nerve growth factor receptor signaling pathway|positive regulation of filopodium assembly|Ras protein signal transduction|regulation of exocytosis	cell surface|cleavage furrow|cytosol|midbody|plasma membrane	Edg-2 lysophosphatidic acid receptor binding|GTP binding|GTPase activity			lung(1)|skin(1)	2						AACTACTTCCGAAGTGGGGAG	0.463													18	35	---	---	---	---	PASS	A	39730117	A	A	39730117	3	1	165	1	0	0	0	0	1	0	0	0	13010	1058	37	2	257	2	RALA	7	39730117	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	8814947	39730117	119408546	249	59184										
C7orf10	79783	broad.mit.edu	37	chr7	40899991	40899991	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctcgggcagcacacaacgcaCatcctgaaggaggtcctgag	12	13	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:40899991C>T	uc003thn.1	+	14	1275	c.1230C>T	c.(1228-1230)CAC>CAT	p.H410H	C7orf10_uc003thm.1_Silent_p.H406H|C7orf10_uc003tho.1_Silent_p.H362H|C7orf10_uc003thp.1_RNA	NM_024728	NP_079004	Q9HAC7	CG010_HUMAN	dermal papilla derived protein 13	417							transferase activity			ovary(2)	2						ACACAACGCACATCCTGAAGG	0.577													14	48	---	---	---	---	PASS	T	40899991	T	T	40899991	2	4	165	1	0	0	0	0	0	0	0	1	2376	477	17	3		3	C7orf10	7	40899991	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	1169874	40899991	118238672	250	59185										
SUN3	256979	broad.mit.edu	37	chr7	48026964	48026964	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtgtgccatggaccctgaatCgatataaacaagtatacttc	8	9	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:48026964C>A	uc003tof.2	-	11	1134	c.1037G>T	c.(1036-1038)CGA>CTA	p.R346L	SUN3_uc010kyq.2_Missense_Mutation_p.R258L|SUN3_uc003tog.2_Missense_Mutation_p.R346L|SUN3_uc011kcf.1_Missense_Mutation_p.R334L	NM_152782	NP_689995	Q8TAQ9	SUN3_HUMAN	Sad1 and UNC84 domain containing 1	346	SUN.					integral to membrane				central_nervous_system(1)	1						GACCCTGAATCGATATAAACA	0.383													4	76	---	---	---	---	PASS	A	48026964	A	A	48026964	3	1	165	1	0	0	0	0	1	0	0	0	15390	884	31	2	40	2	SUN3	7	48026964	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	7126973	48026964	111111699	251	59186										
SRCRB4D	136853	broad.mit.edu	37	chr7	76033672	76033672	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggcttgggggaggaagggagGggcagcactcccatctccca	17	11	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:76033672G>C	uc003ufb.2	-	2	433	c.85C>G	c.(85-87)CCT>GCT	p.P29A	ZP3_uc003ufc.3_Intron	NM_080744	NP_542782	Q8WTU2	SRB4D_HUMAN	scavenger receptor cysteine rich domain	29						extracellular region|membrane	scavenger receptor activity			pancreas(1)	1						AGGAAGGGAGGGGCAGCACTC	0.507													3	20	---	---	---	---	PASS	C	76033672	C	C	76033672	3	2	165	1	0	0	0	0	1	0	0	0	15136	1232	43	4	1682	4	SRCRB4D	7	76033672	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	28006708	76033672	83104991	252	59187										
HGF	3082	broad.mit.edu	37	chr7	81331913	81331913	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcagctatgactgtggtaccTtatatgttaaaataattttg	7	5	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:81331913T>A	uc003uhl.2	-	18	2336	c.2171A>T	c.(2170-2172)AAG>ATG	p.K724M	HGF_uc003uhm.2_Missense_Mutation_p.K719M	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	724					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						CTGTGGTACCTTATATGTTAA	0.368													35	27	---	---	---	---	PASS	A	81331913	A	A	81331913	3	1	165	1	0	0	0	0	1	0	0	0	7085	1609	56	5	19	5	HGF	7	81331913	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	5298241	81331913	77806750	253	59188										
C7orf63	79846	broad.mit.edu	37	chr7	89874839	89874839	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cccggtggttggggtggtgaCggaggacgatgaggcgcagg	22	7	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:89874839C>A	uc010lep.2	+	1	352	c.101C>A	c.(100-102)ACG>AAG	p.T34K	C7orf63_uc003ukf.2_RNA|C7orf63_uc003ukg.2_5'UTR|C7orf63_uc011khj.1_Missense_Mutation_p.T34K|C7orf63_uc010leo.2_Missense_Mutation_p.T34K	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	34							binding			ovary(1)	1						GGGGTGGTGACGGAGGACGAT	0.622													61	65	---	---	---	---	PASS	A	89874839	A	A	89874839	3	1	165	1	0	0	0	0	1	0	0	0	2409	536	19	1	103	1	C7orf63	7	89874839	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	8542926	89874839	69263824	254	59189										
CDK14	5218	broad.mit.edu	37	chr7	90419888	90419888	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttatctttcatttctcacagGgtaaatgggaagttggtagc	10	6	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:90419888G>A	uc003uky.2	+	5	687	c.465G>A	c.(463-465)AAG>AAA	p.K155K	CDK14_uc003ukt.1_Silent_p.K109K|CDK14_uc003ukv.1_Silent_p.K109K|CDK14_uc003uku.1_Silent_p.K109K|CDK14_uc003ukx.1_RNA|CDK14_uc003ukz.1_Silent_p.K137K|CDK14_uc010les.1_Silent_p.K109K|CDK14_uc011khl.1_Silent_p.R26R	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	155	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						TTTCTCACAGGGTAAATGGGA	0.358													14	20	---	---	---	---	PASS	A	90419888	A	A	90419888	2	1	165	1	0	0	0	0	0	0	0	1	3130	1246	43	3		3	CDK14	7	90419888	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	545049	90419888	68718775	255	59190										
HEPACAM2	253012	broad.mit.edu	37	chr7	92848755	92848755	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcactgtcaccttcagccccGagcaagcacctgttgcaaag	9	15	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:92848755G>T	uc003umm.2	-	2	112	c.89C>A	c.(88-90)TCG>TAG	p.S30*	HEPACAM2_uc003uml.2_Nonsense_Mutation_p.S18*|HEPACAM2_uc010lff.2_Nonsense_Mutation_p.S18*|HEPACAM2_uc011khy.1_Nonsense_Mutation_p.S53*	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	30						integral to membrane				ovary(3)|breast(1)|kidney(1)	5						CTTCAGCCCCGAGCAAGCACC	0.517													5	114	---	---	---	---	PASS	T	92848755	T	T	92848755	4	4	165	1	0	0	0	0	0	1	0	0	7053	1059	37	2	1335	2	HEPACAM2	7	92848755	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2428867	92848755	66289908	256	59191										
COL1A2	1278	broad.mit.edu	37	chr7	94058503	94058503	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	catcctattttctgtagtttGaatataatgtagaaggagtg	9	4	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:94058503G>T	uc003ung.1	+	51	4186	c.3715G>T	c.(3715-3717)GAA>TAA	p.E1239*	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1239	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TCTGTAGTTTGAATATAATGT	0.383										HNSCC(75;0.22)			17	21	---	---	---	---	PASS	T	94058503	T	T	94058503	4	4	165	1	0	0	0	0	0	1	0	0	3678	1291	45	2	3917	2	COL1A2	7	94058503	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1209748	94058503	65080160	257	59192										
TRRAP	8295	broad.mit.edu	37	chr7	98601940	98601940	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttcctcatagaggaaaagtgCcggttcttgagcaatttctc	9	9	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:98601940C>A	uc003upp.2	+	67	10604	c.10395C>A	c.(10393-10395)TGC>TGA	p.C3465*	TRRAP_uc011kis.1_Nonsense_Mutation_p.C3436*|TRRAP_uc003upr.2_Nonsense_Mutation_p.C3171*	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3465					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			AGGAAAAGTGCCGGTTCTTGA	0.428													5	161	---	---	---	---	PASS	A	98601940	A	A	98601940	4	1	165	1	0	0	0	0	0	1	0	0	16598	747	26	3	10566	3	TRRAP	7	98601940	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	4543437	98601940	60536723	258	59193										
C7orf51	222950	broad.mit.edu	37	chr7	100086350	100086350	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acctccttcagcaccggcctCcactcctggccttcccccaa	5	22	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:100086350C>A	uc003uvd.1	+	4	1165	c.1006C>A	c.(1006-1008)CCA>ACA	p.P336T	C7orf51_uc003uve.1_Missense_Mutation_p.P118T	NM_173564	NP_775835	Q6ZVC0	CG051_HUMAN	hypothetical protein FLJ37538	336	Pro-rich.									skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GCACCGGCCTCCACTCCTGGC	0.667													27	18	---	---	---	---	PASS	A	100086350	A	A	100086350	3	1	165	1	0	0	0	0	1	0	0	0	2400	855	30	2	1016	2	C7orf51	7	100086350	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1484410	100086350	59052313	259	59194										
ACHE	43	broad.mit.edu	37	chr7	100490928	100490928	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgtggttcaccaggacctgcGctggtcgtgtccgaaggcag	15	12	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:100490928G>C	uc003uxd.2	-	1	1082	c.926C>G	c.(925-927)GCG>GGG	p.A309G	ACHE_uc003uxe.2_Missense_Mutation_p.A309G|ACHE_uc003uxf.2_Missense_Mutation_p.A309G|ACHE_uc003uxg.2_Missense_Mutation_p.A309G|ACHE_uc003uxh.2_Missense_Mutation_p.A309G|ACHE_uc003uxi.2_Missense_Mutation_p.A309G|ACHE_uc003uxj.1_Missense_Mutation_p.A428G	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	309					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	CAGGACCTGCGCTGGTCGTGT	0.622													11	9	---	---	---	---	PASS	C	100490928	C	C	100490928	3	2	165	1	0	0	0	0	1	0	0	0	141	1087	38	4	1069	4	ACHE	7	100490928	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	404578	100490928	58647735	260	59195										
PSMC2	5701	broad.mit.edu	37	chr7	103004624	103004624	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaaccttggcattgagcctcCcaagggcgtgctgctctttg	12	12	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:103004624C>A	uc003vbs.2	+	8	696	c.626C>A	c.(625-627)CCC>CAC	p.P209H	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011klo.1_Missense_Mutation_p.P72H	NM_002803	NP_002794	P35998	PRS7_HUMAN	proteasome 26S ATPase subunit 2	209					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|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0						ATTGAGCCTCCCAAGGGCGTG	0.478													5	43	---	---	---	---	PASS	A	103004624	A	A	103004624	3	1	165	1	0	0	0	0	1	0	0	0	12686	623	22	3	656	3	PSMC2	7	103004624	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	2513696	103004624	56134039	261	59196										
SLC13A1	6561	broad.mit.edu	37	chr7	122774567	122774567	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgatccaaagttgaggcaacGacagtcaggatagcgtctgt	12	8	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:122774567G>T	uc003vkm.2	-	8	854	c.829C>A	c.(829-831)CGT>AGT	p.R277S	SLC13A1_uc010lks.2_Missense_Mutation_p.R153S	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	277						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	TTGAGGCAACGACAGTCAGGA	0.483													39	23	---	---	---	---	PASS	T	122774567	T	T	122774567	3	4	165	1	0	0	0	0	1	0	0	0	14391	1058	37	2	990	2	SLC13A1	7	122774567	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	19769943	122774567	36364096	262	59197										
PLXNA4	91584	broad.mit.edu	37	chr7	131817907	131817907	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gactgctcagccaggtatgcGttcatgtcttggtcgctgat	12	10	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:131817907G>A	uc003vra.3	-	31	5719	c.5490C>T	c.(5488-5490)AAC>AAT	p.N1830N	PLXNA4_uc003vqz.3_Silent_p.N115N	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1830	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CCAGGTATGCGTTCATGTCTT	0.507													28	56	---	---	---	---	PASS	A	131817907	A	A	131817907	2	1	165	1	0	0	0	0	0	0	0	1	12122	1136	40	1		1	PLXNA4	7	131817907	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	9043340	131817907	27320756	263	59198										
KIAA1549	57670	broad.mit.edu	37	chr7	138591710	138591710	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcccagatagaaactgaactCcaccacactcaagtttctga	5	13	2	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:138591710C>A	uc011kql.1	-	6	3464	c.3415G>T	c.(3415-3417)GAG>TAG	p.E1139*	KIAA1549_uc003vuk.3_Nonsense_Mutation_p.E1089*|KIAA1549_uc011kqj.1_Nonsense_Mutation_p.E1139*	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1139						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						AAACTGAACTCCACCACACTC	0.537			O	BRAF	pilocytic astrocytoma								46	56	---	---	---	---	PASS	A	138591710	A	A	138591710	4	1	165	1	0	0	0	0	0	1	0	0	8244	864	30	2	2497	2	KIAA1549	7	138591710	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	6773803	138591710	20546953	264	59199										
MGAM	8972	broad.mit.edu	37	chr7	141722156	141722156	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcactaacgtgtatggcctgGgagagcatgtgcaccagcag	14	10	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:141722156G>T	uc003vwy.2	+	7	853	c.799G>T	c.(799-801)GGA>TGA	p.G267*		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	267	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GTATGGCCTGGGAGAGCATGT	0.502													66	75	---	---	---	---	PASS	T	141722156	T	T	141722156	4	4	165	1	0	0	0	0	0	1	0	0	9541	1233	43	3	821	3	MGAM	7	141722156	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3130446	141722156	17416507	265	59200										
EPHB6	2051	broad.mit.edu	37	chr7	142562440	142562440	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggggagggcaagtggatggtAgctgtcgggggctgccgctg	22	7	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:142562440A>T	uc011kst.1	+	7	1669	c.882A>T	c.(880-882)GTA>GTT	p.V294V	EPHB6_uc011ksu.1_Silent_p.V294V|EPHB6_uc003wbs.2_Silent_p.V2V|EPHB6_uc003wbt.2_5'UTR|EPHB6_uc003wbu.2_Silent_p.V2V|EPHB6_uc003wbv.2_5'Flank	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	294	Extracellular (Potential).|Cys-rich.					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					AGTGGATGGTAGCTGTCGGGG	0.657													9	11	---	---	---	---	PASS	T	142562440	T	T	142562440	2	4	165	1	0	0	0	0	0	0	0	1	5178	407	15	5		5	EPHB6	7	142562440	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	840284	142562440	16576223	266	59201										
TRPV5	56302	broad.mit.edu	37	chr7	142609900	142609900	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctggttgggtcctctgtctgGaaaatgatatagaacgctgc	12	8	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:142609900G>T	uc003wby.1	-	13	1800	c.1536C>A	c.(1534-1536)TTC>TTA	p.F512L		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	512	Helical; (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					CCTCTGTCTGGAAAATGATAT	0.463													9	83	---	---	---	---	PASS	T	142609900	T	T	142609900	3	4	165	1	0	0	0	0	1	0	0	0	16596	1165	41	2	665	2	TRPV5	7	142609900	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	47460	142609900	16528763	267	59202										
OR2A7	401427	broad.mit.edu	37	chr7	143956017	143956017	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gagaagcaggtgcagaaggcTttcctctgaacttcccttga	11	10	1	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:143956017T>A	uc011kuc.1	-	1	705	c.705A>T	c.(703-705)AAA>AAT	p.K235N	OR2A9P_uc003wec.1_Intron|uc003wed.2_5'Flank	NM_001005328	NP_001005328	Q96R45	OR2A7_HUMAN	olfactory receptor, family 2, subfamily A,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.14)					TGCAGAAGGCTTTCCTCTGAA	0.478													8	81	---	---	---	---	PASS	A	143956017	A	A	143956017	3	1	165	1	0	0	0	0	1	0	0	0	10982	1606	56	5	230	5	OR2A7	7	143956017	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	1346117	143956017	15182646	268	59203										
ZNF746	155061	broad.mit.edu	37	chr7	149191124	149191124	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgcccctcatcacgtgcttgTagagctccttctgccagtcc	8	16	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:149191124T>C	uc003wfw.2	-	3	633	c.362A>G	c.(361-363)TAC>TGC	p.Y121C	ZNF746_uc010lpi.2_Missense_Mutation_p.Y121C	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2	121	KRAB.				negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			CACGTGCTTGTAGAGCTCCTT	0.532													7	130	---	---	---	---	PASS	C	149191124	C	C	149191124	3	2	165	1	0	0	0	0	1	0	0	0	18126	1638	57	5	1595	5	ZNF746	7	149191124	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	5235107	149191124	9947539	269	59204										
SSPO	23145	broad.mit.edu	37	chr7	149478003	149478003	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtcaaggttgccgctacagcCtggtgcaggtgggcagagga	17	9	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:149478003C>T	uc010lpk.2	+	13	1774	c.1774C>T	c.(1774-1776)CTG>TTG	p.L592L	SSPO_uc010lpl.1_Intron	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	592	VWFD 2.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCGCTACAGCCTGGTGCAGGT	0.642													15	7	---	---	---	---	PASS	T	149478003	T	T	149478003	2	4	165	1	0	0	0	0	0	0	0	1	15188	680	24	3		3	SSPO	7	149478003	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	286879	149478003	9660660	270	59205										
GBX1	2636	broad.mit.edu	37	chr7	150846205	150846205	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atgcctccagcttctcctcaTctgagctgtacaccttcccc	5	18	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:150846205T>C	uc011kvg.1	-	2	795	c.563A>G	c.(562-564)GAT>GGT	p.D188G		NM_001098834	NP_001092304	Q14549	GBX1_HUMAN	gastrulation brain homeo box 1	188						nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTTCTCCTCATCTGAGCTGTA	0.572													55	181	---	---	---	---	PASS	C	150846205	C	C	150846205	3	2	165	1	0	0	0	0	1	0	0	0	6280	1435	50	5	531	5	GBX1	7	150846205	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	1368202	150846205	8292458	271	59206										
ASB10	136371	broad.mit.edu	37	chr7	150883938	150883938	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaagcggaaatccctccatcGctctgggtcgctggtatcaa	11	12	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:150883938G>T	uc003wjm.1	-	1	541	c.415C>A	c.(415-417)CGA>AGA	p.R139R	ASB10_uc003wjl.1_Silent_p.R139R|ASB10_uc003wjn.1_Intron	NM_001142459	NP_001135931	Q8WXI3	ASB10_HUMAN	ankyrin repeat and SOCS box-containing 10	94					intracellular signal transduction						0			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TCCCTCCATCGCTCTGGGTCG	0.642													10	8	---	---	---	---	PASS	T	150883938	T	T	150883938	2	4	165	1	0	0	0	0	0	0	0	1	1014	1095	38	1		1	ASB10	7	150883938	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	37733	150883938	8254725	272	59207										
ASB10	136371	broad.mit.edu	37	chr7	150884185	150884185	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcgaggggctctccctgcccCttgcactcttctggagacca	10	16	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:150884185C>G	uc003wjm.1	-	1	294	c.168G>C	c.(166-168)AAG>AAC	p.K56N	ASB10_uc003wjl.1_Missense_Mutation_p.K56N|ASB10_uc003wjn.1_Intron	NM_001142459	NP_001135931	Q8WXI3	ASB10_HUMAN	ankyrin repeat and SOCS box-containing 10	11					intracellular signal transduction						0			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTCCCTGCCCCTTGCACTCTT	0.562													4	1	---	---	---	---	PASS	G	150884185	G	G	150884185	3	3	165	1	0	0	0	0	1	0	0	0	1014	680	24	4	1390	4	ASB10	7	150884185	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	247	150884185	8254478	273	59208										
GALNT11	63917	broad.mit.edu	37	chr7	151791434	151791434	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcagccacttaagaatgtgcCcgtcaaggggtctgggcccc	12	13	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:151791434C>T	uc010lqg.1	+	2	352	c.122C>T	c.(121-123)CCC>CTC	p.P41L	GALNT11_uc011kvm.1_Intron|GALNT11_uc003wku.2_Missense_Mutation_p.P41L|GALNT11_uc003wkv.1_Missense_Mutation_p.P41L|GALNT11_uc011kvn.1_RNA	NM_022087	NP_071370	Q8NCW6	GLT11_HUMAN	N-acetylgalactosaminyltransferase 11	41	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.214)	OV - Ovarian serous cystadenocarcinoma(82;0.00168)	UCEC - Uterine corpus endometrioid carcinoma (81;0.177)|BRCA - Breast invasive adenocarcinoma(188;0.0932)		AAGAATGTGCCCGTCAAGGGG	0.473													6	106	---	---	---	---	PASS	T	151791434	T	T	151791434	3	4	165	1	0	0	0	0	1	0	0	0	6209	623	22	3	124	3	GALNT11	7	151791434	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	907249	151791434	7347229	274	59209										
MLL3	58508	broad.mit.edu	37	chr7	151851428	151851428	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggctcctccttgaccaatgaCagatctggatacctgctcac	8	14	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:151851428C>A	uc003wla.2	-	47	12282	c.12063G>T	c.(12061-12063)CTG>CTT	p.L4021L	MLL3_uc003wkz.2_Silent_p.L3139L|MLL3_uc003wkx.2_Silent_p.L179L|MLL3_uc003wky.2_Silent_p.L1585L	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4021					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TGACCAATGACAGATCTGGAT	0.488			N		medulloblastoma								34	82	---	---	---	---	PASS	A	151851428	A	A	151851428	2	1	165	1	0	0	0	0	0	0	0	1	9622	465	17	3		3	MLL3	7	151851428	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	59994	151851428	7287235	275	59210										
MLL3	58508	broad.mit.edu	37	chr7	151962250	151962250	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acaaaagaactgatctaagaGgtctcccgggctgtcgcaca	10	11	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr7:151962250G>A	uc003wla.2	-	8	1276	c.1057C>T	c.(1057-1059)CTC>TTC	p.L353F		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	353	PHD-type 1.|RING-type.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TGATCTAAGAGGTCTCCCGGG	0.403			N		medulloblastoma								8	202	---	---	---	---	PASS	A	151962250	A	A	151962250	3	1	165	1	0	0	0	0	1	0	0	0	9622	1000	35	3	13886	3	MLL3	7	151962250	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	110822	151962250	7176413	276	59211										
ARHGEF10	9639	broad.mit.edu	37	chr8	1851599	1851599	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caaatagccaaagccataaaCgaaagatacctgaacaaggt	7	9	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:1851599C>A	uc003wpr.2	+	16	1981	c.1803C>A	c.(1801-1803)AAC>AAA	p.N601K	ARHGEF10_uc003wpq.1_Missense_Mutation_p.N625K|ARHGEF10_uc003wps.2_Missense_Mutation_p.N563K|ARHGEF10_uc003wpt.2_Missense_Mutation_p.N477K|ARHGEF10_uc003wpv.2_Missense_Mutation_p.N334K|ARHGEF10_uc010lre.2_Missense_Mutation_p.N281K	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	626					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		AAGCCATAAACGAAAGATACC	0.393													13	47	---	---	---	---	PASS	A	1851599	A	A	1851599	3	1	165	1	0	0	0	0	1	0	0	0	894	535	19	1	1861	1	ARHGEF10	8	1851599	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08		1851599	144512423	277	59212										
CSMD1	64478	broad.mit.edu	37	chr8	2796240	2796240	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgttttcatgcccagcatagCcattgtattgaacttttggt	8	8	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:2796240C>T	uc011kwk.1	-	70	10955	c.10565G>A	c.(10564-10566)GGC>GAC	p.G3522D	CSMD1_uc011kwj.1_Missense_Mutation_p.G2836D|CSMD1_uc010lrg.2_Missense_Mutation_p.G1413D	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3522	Cytoplasmic (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)		CCCAGCATAGCCATTGTATTG	0.418													7	17	---	---	---	---	PASS	T	2796240	T	T	2796240	3	4	165	1	0	0	0	0	1	0	0	0	3944	739	26	3	136	3	CSMD1	8	2796240	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	944641	2796240	143567782	278	59213										
CSMD1	64478	broad.mit.edu	37	chr8	2965277	2965277	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcctcagtaagcatttctgcCtgtggaaccgctgggggagg	14	10	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:2965277C>A	uc011kwk.1	-	45	7191	c.6801G>T	c.(6799-6801)CAG>CAT	p.Q2267H	CSMD1_uc011kwj.1_Missense_Mutation_p.Q1659H|CSMD1_uc010lrg.2_Missense_Mutation_p.Q335H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2267	Extracellular (Potential).|Sushi 13.					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)		GCATTTCTGCCTGTGGAACCG	0.358													8	53	---	---	---	---	PASS	A	2965277	A	A	2965277	3	1	165	1	0	0	0	0	1	0	0	0	3944	680	24	3	4000	3	CSMD1	8	2965277	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	169037	2965277	143398745	279	59214										
BLK	640	broad.mit.edu	37	chr8	11403590	11403590	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaccaccttactcctccaccGcccgatgaacacctggatga	6	17	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:11403590G>T	uc003wty.2	+	3	734	c.153G>T	c.(151-153)CCG>CCT	p.P51P	BLK_uc003wtz.2_5'UTR	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	51					intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		CTCCTCCACCGCCCGATGAAC	0.547													18	117	---	---	---	---	PASS	T	11403590	T	T	11403590	2	4	165	1	0	0	0	0	0	0	0	1	1444	1074	38	1		1	BLK	8	11403590	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	8438313	11403590	134960432	280	59215										
PCM1	5108	broad.mit.edu	37	chr8	17822100	17822100	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gatggcaacttggggagggtCtacccagtgtgcactagatg	15	8	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:17822100C>G	uc003wyi.3	+	18	3100	c.2678C>G	c.(2677-2679)TCT>TGT	p.S893C	PCM1_uc011kyh.1_Missense_Mutation_p.S893C|PCM1_uc003wyj.3_Missense_Mutation_p.S894C	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	893					centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		TGGGGAGGGTCTACCCAGTGT	0.393			T	RET|JAK2	papillary thyroid|CML|MPD								5	41	---	---	---	---	PASS	G	17822100	G	G	17822100	3	3	165	1	0	0	0	0	1	0	0	0	11584	913	32	2	2740	2	PCM1	8	17822100	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	6418510	17822100	128541922	281	59216										
INTS10	55174	broad.mit.edu	37	chr8	19700393	19700393	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctcctgccttgtaccagcaaGgctatcatgccatactgcct	7	15	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:19700393G>T	uc003wzj.2	+	14	1805	c.1674G>T	c.(1672-1674)AAG>AAT	p.K558N		NM_018142	NP_060612	Q9NVR2	INT10_HUMAN	integrator complex subunit 10	558					snRNA processing	integrator complex	protein binding			ovary(1)	1				Colorectal(111;0.057)|COAD - Colon adenocarcinoma(73;0.215)		GTACCAGCAAGGCTATCATGC	0.348													20	53	---	---	---	---	PASS	T	19700393	T	T	19700393	3	4	165	1	0	0	0	0	1	0	0	0	7776	991	35	3	1728	3	INTS10	8	19700393	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1878293	19700393	126663629	282	59217										
DOCK5	80005	broad.mit.edu	37	chr8	25258515	25258515	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcagctgaagccgctgcatgAgcggttgtcttcttgcttcc	12	12	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:25258515A>T	uc003xeg.2	+	47	4996	c.4859A>T	c.(4858-4860)GAG>GTG	p.E1620V	PPP2R2A_uc003xek.2_Intron|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1620	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		CCGCTGCATGAGCGGTTGTCT	0.483													13	104	---	---	---	---	PASS	T	25258515	T	T	25258515	3	4	165	1	0	0	0	0	1	0	0	0	4690	304	11	5	5045	5	DOCK5	8	25258515	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	5558122	25258515	121105507	283	59218										
TEX15	56154	broad.mit.edu	37	chr8	30700808	30700808	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttcttcgtccttcttttgtGagtattttttgctgaaggat	8	6	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:30700808G>C	uc003xil.2	-	1	5726	c.5726C>G	c.(5725-5727)TCA>TGA	p.S1909*		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1909										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		CTTCTTTTGTGAGTATTTTTT	0.323													10	46	---	---	---	---	PASS	C	30700808	C	C	30700808	4	2	165	1	0	0	0	0	0	1	0	0	15776	1294	45	2	2659	2	TEX15	8	30700808	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	5442293	30700808	115663214	284	59219										
CHD7	55636	broad.mit.edu	37	chr8	61693855	61693855	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaggcaaaaaaagacccgaaGgaaccgaaagaacccaagga	10	9	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:61693855G>T	uc003xue.2	+	3	2439	c.1962G>T	c.(1960-1962)AAG>AAT	p.K654N		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	654	Lys-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	p.556_871dup(1)		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)			AAGACCCGAAGGAACCGAAAG	0.438													8	20	---	---	---	---	PASS	T	61693855	T	T	61693855	3	4	165	1	0	0	0	0	1	0	0	0	3330	991	35	3	1968	3	CHD7	8	61693855	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	30993047	61693855	84670167	285	59220										
C8orf34	116328	broad.mit.edu	37	chr8	69688635	69688635	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcttcctctttacttctaggGagaagcctccagtggagtag	10	10	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:69688635G>T	uc010lyz.2	+	11	1197	c.1148G>T	c.(1147-1149)GGA>GTA	p.G383V	C8orf34_uc003xyb.2_Missense_Mutation_p.G358V	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)			TACTTCTAGGGAGAAGCCTCC	0.398													9	50	---	---	---	---	PASS	T	69688635	T	T	69688635	3	4	165	1	0	0	0	0	1	0	0	0	2422	1188	41	2	1111	2	C8orf34	8	69688635	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	7994780	69688635	76675387	286	59221										
ZFHX4	79776	broad.mit.edu	37	chr8	77765818	77765818	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctttagaacattacaaatctGatgcatcattcagtaaaagg	6	7	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:77765818G>C	uc003yav.2	+	10	6913	c.6526G>C	c.(6526-6528)GAT>CAT	p.D2176H	ZFHX4_uc003yau.1_Missense_Mutation_p.D2221H|ZFHX4_uc003yaw.1_Missense_Mutation_p.D2176H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2176						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTACAAATCTGATGCATCATT	0.373										HNSCC(33;0.089)			14	47	---	---	---	---	PASS	C	77765818	C	C	77765818	3	2	165	1	0	0	0	0	1	0	0	0	17632	1290	45	2	6695	2	ZFHX4	8	77765818	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	8077183	77765818	68598204	287	59222										
ZNF704	619279	broad.mit.edu	37	chr8	81555340	81555340	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgtctctgctctcctgtgcCcaccggatgatgtgtgggtg	13	12	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:81555340C>A	uc003yby.1	-	8	1289	c.1057G>T	c.(1057-1059)GGC>TGC	p.G353C		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	353						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			TCTCCTGTGCCCACCGGATGA	0.527													5	22	---	---	---	---	PASS	A	81555340	A	A	81555340	3	1	165	1	0	0	0	0	1	0	0	0	18104	623	22	3	189	3	ZNF704	8	81555340	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3789522	81555340	64808682	288	59223										
WWP1	11059	broad.mit.edu	37	chr8	87423938	87423938	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caatgaatgtattccttctaCcagtgcagaattggaatctg	8	8	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:87423938C>G	uc003ydt.2	+	9	1176	c.896C>G	c.(895-897)ACC>AGC	p.T299S	WWP1_uc010mai.2_Missense_Mutation_p.T75S	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	299					central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						ATTCCTTCTACCAGTGCAGAA	0.393													13	28	---	---	---	---	PASS	G	87423938	G	G	87423938	3	3	165	1	0	0	0	0	1	0	0	0	17412	507	18	4	922	4	WWP1	8	87423938	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	5868598	87423938	58940084	289	59224										
DCAF4L2	138009	broad.mit.edu	37	chr8	88885776	88885776	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcccacgaagcacagcagaaGgtgggaatccaagtgattca	11	10	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:88885776G>A	uc003ydz.2	-	1	521	c.424C>T	c.(424-426)CTT>TTT	p.L142F		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	142										ovary(1)	1						CACAGCAGAAGGTGGGAATCC	0.567													4	50	---	---	---	---	PASS	A	88885776	A	A	88885776	3	1	165	1	0	0	0	0	1	0	0	0	4272	1000	35	3	767	3	DCAF4L2	8	88885776	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1461838	88885776	57478246	290	59225										
SLC26A7	115111	broad.mit.edu	37	chr8	92378817	92378817	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcctccaaaaggaaaccctgCagcaggtgaaaattatctca	7	11	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:92378817C>A	uc003yex.2	+	15	1776	c.1498C>A	c.(1498-1500)CAG>AAG	p.Q500K	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Missense_Mutation_p.Q500K|SLC26A7_uc003yfa.2_Missense_Mutation_p.Q500K	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	500	STAS.|Cytoplasmic (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)			GGAAACCCTGCAGCAGGTGAA	0.318													9	17	---	---	---	---	PASS	A	92378817	A	A	92378817	3	1	165	1	0	0	0	0	1	0	0	0	14522	711	25	3	1548	3	SLC26A7	8	92378817	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3493041	92378817	53985205	291	59226										
UBR5	51366	broad.mit.edu	37	chr8	103284843	103284843	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atgcttgtgcaatggctgtaTaaaaacttcgtgctacacca	8	9	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:103284843T>C	uc003ykr.1	-	48	6920	c.6887A>G	c.(6886-6888)TAT>TGT	p.Y2296C	UBR5_uc003yks.1_Missense_Mutation_p.Y2296C	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	2296					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			AATGGCTGTATAAAAACTTCG	0.408													17	35	---	---	---	---	PASS	C	103284843	C	C	103284843	3	2	165	1	0	0	0	0	1	0	0	0	16902	1406	49	5	1560	5	UBR5	8	103284843	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	10906026	103284843	43079179	292	59227										
CSMD3	114788	broad.mit.edu	37	chr8	113569084	113569084	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggagagtgtagcctggattgCatccataaatgatggtgcta	13	6	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:113569084C>A	uc003ynu.2	-	25	4301	c.4142G>T	c.(4141-4143)TGC>TTC	p.C1381F	CSMD3_uc003yns.2_Missense_Mutation_p.C653F|CSMD3_uc003ynt.2_Missense_Mutation_p.C1341F|CSMD3_uc011lhx.1_Missense_Mutation_p.C1277F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1381	Extracellular (Potential).|Sushi 7.					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						GCCTGGATTGCATCCATAAAT	0.483										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			8	43	---	---	---	---	PASS	A	113569084	A	A	113569084	3	1	165	1	0	0	0	0	1	0	0	0	3946	710	25	3	7169	3	CSMD3	8	113569084	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	10284241	113569084	32794938	293	59228										
CSMD3	114788	broad.mit.edu	37	chr8	113697808	113697808	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagcaaggaaatcaaactggGattccaggtcaaagtcattg	10	8	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:113697808G>C	uc003ynu.2	-	15	2468	c.2309C>G	c.(2308-2310)TCC>TGC	p.S770C	CSMD3_uc003yns.2_Missense_Mutation_p.S42C|CSMD3_uc003ynt.2_Missense_Mutation_p.S730C|CSMD3_uc011lhx.1_Missense_Mutation_p.S666C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	770	Extracellular (Potential).|CUB 4.					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						ATCAAACTGGGATTCCAGGTC	0.428										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	58	---	---	---	---	PASS	C	113697808	C	C	113697808	3	2	165	1	0	0	0	0	1	0	0	0	3946	1174	41	2	9042	2	CSMD3	8	113697808	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	128724	113697808	32666214	294	59229										
CSMD3	114788	broad.mit.edu	37	chr8	114290852	114290852	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	accttaaatccatgagcactAactgcaaaatcactggtcaa	5	11	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:114290852A>G	uc003ynu.2	-	3	642	c.483T>C	c.(481-483)GTT>GTC	p.V161V	CSMD3_uc003ynt.2_Silent_p.V121V|CSMD3_uc011lhx.1_Silent_p.V161V|CSMD3_uc010mcx.1_Silent_p.V161V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	161	Extracellular (Potential).|CUB 1.					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						CATGAGCACTAACTGCAAAAT	0.373										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			15	26	---	---	---	---	PASS	G	114290852	G	G	114290852	2	3	165	1	0	0	0	0	0	0	0	1	3946	349	13	5		5	CSMD3	8	114290852	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	593044	114290852	32073170	295	59230										
PHF20L1	51105	broad.mit.edu	37	chr8	133856422	133856422	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atccagctgaagggaatacaGtatttgtttataatgataaa	8	4	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:133856422G>A	uc003ytt.2	+	20	3095	c.2770G>A	c.(2770-2772)GTA>ATA	p.V924I	PHF20L1_uc011lja.1_Missense_Mutation_p.V898I	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	924							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			AGGGAATACAGTATTTGTTTA	0.408													9	43	---	---	---	---	PASS	A	133856422	A	A	133856422	3	1	165	1	0	0	0	0	1	0	0	0	11832	1029	36	3	2940	3	PHF20L1	8	133856422	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	19565570	133856422	12507600	296	59231										
WISP1	8840	broad.mit.edu	37	chr8	134239682	134239682	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaagtgtctggctgtgtaccAgccagaggcatccatgaact	12	10	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:134239682A>T	uc003yub.2	+	5	909	c.833A>T	c.(832-834)CAG>CTG	p.Q278L	WISP1_uc003yuc.2_Missense_Mutation_p.Q191L|WISP1_uc010meb.2_Missense_Mutation_p.Q106L|WISP1_uc010mec.2_Silent_p.P126P|WISP1_uc010med.2_Missense_Mutation_p.Q33L|WISP1_uc003yud.2_RNA	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	278	CTCK.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GCTGTGTACCAGCCAGAGGCA	0.537													16	16	---	---	---	---	PASS	T	134239682	T	T	134239682	3	4	165	1	0	0	0	0	1	0	0	0	17369	188	7	5	851	5	WISP1	8	134239682	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	383260	134239682	12124340	297	59232										
FAM135B	51059	broad.mit.edu	37	chr8	139180280	139180280	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atatccagggacagctggctGtgcgtctgtatcctggggag	15	9	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:139180280G>A	uc003yuy.2	-	12	1287	c.1116C>T	c.(1114-1116)CAC>CAT	p.H372H	FAM135B_uc003yux.2_Silent_p.H273H|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	372										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)			ACAGCTGGCTGTGCGTCTGTA	0.592										HNSCC(54;0.14)			20	65	---	---	---	---	PASS	A	139180280	A	A	139180280	2	1	165	1	0	0	0	0	0	0	0	1	5449	1368	48	3		3	FAM135B	8	139180280	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	4940598	139180280	7183742	298	59233										
FAM135B	51059	broad.mit.edu	37	chr8	139263259	139263259	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cccagccacatccctcaaccTagaaggcaagcatgtgagct	8	15	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:139263259T>A	uc003yuy.2	-	6	540	c.369_splice	c.e6-1	p.Q123_splice	FAM135B_uc003yux.2_Splice_Site_p.Q24_splice|FAM135B_uc003yuz.2_Splice_Site	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059											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)			TCCCTCAACCTAGAAGGCAAG	0.532										HNSCC(54;0.14)			6	30	---	---	---	---	PASS	A	139263259	A	A	139263259	5	1	165	1	0	0	0	0	0	0	1	0	5449	1536	53	5	3913	5	FAM135B	8	139263259	Splice_Site	SNP	T	TCGA-66-2787-01A-01D-0983-08	82979	139263259	7100763	299	59234										
HEATR7A	727957	broad.mit.edu	37	chr8	145278049	145278049	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caggtgattagcgccatggcCcaccacggctacctggagca	12	14	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr8:145278049C>T	uc003zbk.3	+	14	1491	c.1254C>T	c.(1252-1254)GCC>GCT	p.A418A	HEATR7A_uc011lla.1_Silent_p.A418A|HEATR7A_uc010mft.2_Silent_p.A418A	NM_032450	NP_115826	Q8NDA8	HTR7A_HUMAN	HEAT repeat containing 7A isoform 1	418	HEAT 4.						binding				0						GCGCCATGGCCCACCACGGCT	0.642													5	7	---	---	---	---	PASS	T	145278049	T	T	145278049	2	4	165	1	0	0	0	0	0	0	0	1	7034	610	22	3		3	HEATR7A	8	145278049	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	6014790	145278049	1085973	300	59235										
GLIS3	169792	broad.mit.edu	37	chr9	3898798	3898798	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	actgcacggtgaggcaatctGtgagcaggtctggatggagc	16	8	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:3898798G>T	uc003zhw.1	-	6	1750	c.1556C>A	c.(1555-1557)ACA>AAA	p.T519K	GLIS3_uc003zhx.1_Missense_Mutation_p.T674K|GLIS3_uc010mhf.1_Missense_Mutation_p.T68K|GLIS3_uc003zhv.1_RNA|GLIS3_uc003zhy.1_Missense_Mutation_p.T452K|GLIS3_uc003zhz.1_Missense_Mutation_p.T452K|C9orf70_uc003zia.2_RNA	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	519					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		GAGGCAATCTGTGAGCAGGTC	0.597													4	27	---	---	---	---	PASS	T	3898798	T	T	3898798	3	4	165	1	0	0	0	0	1	0	0	0	6447	1377	48	3	791	3	GLIS3	9	3898798	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08		3898798	137314633	301	59236										
TTC39B	158219	broad.mit.edu	37	chr9	15192619	15192619	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccccactgccaagcttgacaCccccttcaaactcatagaag	5	17	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:15192619C>A	uc003zlr.1	-	9	822	c.701G>T	c.(700-702)GGT>GTT	p.G234V	TTC39B_uc003zlq.1_Missense_Mutation_p.G203V|TTC39B_uc011lmp.1_Missense_Mutation_p.G135V|TTC39B_uc010mie.1_Missense_Mutation_p.G232V|TTC39B_uc011lmq.1_Missense_Mutation_p.G234V|TTC39B_uc011lmr.1_Missense_Mutation_p.G165V|TTC39B_uc010mif.1_Missense_Mutation_p.G234V|TTC39B_uc003zls.1_Missense_Mutation_p.G135V|TTC39B_uc010mig.1_Missense_Mutation_p.G203V|TTC39B_uc011lms.1_RNA	NM_152574	NP_689787	Q5VTQ0	TT39B_HUMAN	tetratricopeptide repeat domain 39B	234							binding			ovary(1)	1						AAGCTTGACACCCCCTTCAAA	0.408													28	53	---	---	---	---	PASS	A	15192619	A	A	15192619	3	1	165	1	0	0	0	0	1	0	0	0	16705	507	18	3	1218	3	TTC39B	9	15192619	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	11293821	15192619	126020812	302	59237										
CDKN2A	1029	broad.mit.edu	37	chr9	21974677	21974677	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gctgcagaccctctacccacCtggatcggcctccgaccgta	9	18	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:21974677C>G	uc003zpk.2	-	1	362	c.150G>C	c.(148-150)CAG>CAC	p.Q50H	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_Missense_Mutation_p.Q50H|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Intron	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	50	ANK 2.		Q -> R (in CMM2).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(25)|p.Q50*(5)|p.Q50R(1)|p.V28_V51del(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CTCTACCCACCTGGATCGGCC	0.677		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			45	46	---	---	---	---	PASS	G	21974677	G	G	21974677	3	3	165	1	0	0	0	0	1	0	0	0	3161	695	24	4	533	4	CDKN2A	9	21974677	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	6782058	21974677	119238754	303	59238										
C9orf72	203228	broad.mit.edu	37	chr9	27567113	27567113	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gatggcggtgggcaaagagtCgacatcactgcattccaact	12	10	1	1	rs138028443		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:27567113C>T	uc003zqq.2	-	2	103	c.6G>A	c.(4-6)TCG>TCA	p.S2S	C9orf72_uc003zqr.1_Silent_p.S2S	NM_018325	NP_060795	Q96LT7	CI072_HUMAN	hypothetical protein LOC203228 isoform a	2										ovary(3)|central_nervous_system(1)	4		all_neural(11;7.57e-10)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.00016)		GGCAAAGAGTCGACATCACTG	0.403													14	21	---	---	---	---	PASS	T	27567113	T	T	27567113	2	4	165	1	0	0	0	0	0	0	0	1	2495	871	31	2		2	C9orf72	9	27567113	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	5592436	27567113	113646318	304	59239										
ARID3C	138715	broad.mit.edu	37	chr9	34623546	34623546	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gggccgggacccaaggctggGtcctgagcgccccgaggggg	20	13	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:34623546G>T	uc011lon.1	-	4	741	c.741C>A	c.(739-741)GAC>GAA	p.D247E		NM_001017363	NP_001017363	A6NKF2	ARI3C_HUMAN	AT rich interactive domain 3C (BRIGHT- like)	247	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.175)		CCAAGGCTGGGTCCTGAGCGC	0.736													6	5	---	---	---	---	PASS	T	34623546	T	T	34623546	3	4	165	1	0	0	0	0	1	0	0	0	918	1252	44	3	512	3	ARID3C	9	34623546	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	7056433	34623546	106589885	305	59240										
RECK	8434	broad.mit.edu	37	chr9	36100327	36100327	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tctggccttttttctctttaGgccaacagaacttttcagga	7	10	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:36100327G>T	uc003zyv.2	+	11	1172	c.1086_splice	c.e11-1	p.R362_splice	RECK_uc003zyw.2_Splice_Site_p.R234_splice|RECK_uc003zyx.2_Splice_Site	NM_021111	NP_066934	O95980	RECK_HUMAN	RECK protein precursor							anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)			TTTCTCTTTAGGCCAACAGAA	0.378													4	16	---	---	---	---	PASS	T	36100327	T	T	36100327	5	4	165	1	0	0	0	0	0	0	1	0	13200	1014	35	3	1127	3	RECK	9	36100327	Splice_Site	SNP	G	TCGA-66-2787-01A-01D-0983-08	1476781	36100327	105113104	306	59241										
CCIN	881	broad.mit.edu	37	chr9	36170237	36170237	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctggtgggcatggagaacacCtcatcccatacaaccctgat	9	13	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:36170237C>A	uc003zzb.3	+	1	849	c.738C>A	c.(736-738)ACC>ACA	p.T246T		NM_005893	NP_005884	Q13939	CALI_HUMAN	calicin	246					cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			ovary(1)|skin(1)	2			STAD - Stomach adenocarcinoma(86;0.228)			TGGAGAACACCTCATCCCATA	0.507													9	24	---	---	---	---	PASS	A	36170237	A	A	36170237	2	1	165	1	0	0	0	0	0	0	0	1	2878	668	24	3		3	CCIN	9	36170237	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	69910	36170237	105043194	307	59242										
TRPM3	80036	broad.mit.edu	37	chr9	73151786	73151786	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctcatccatagcagagacatAgatgtctatacacgatgatg	8	9	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:73151786A>G	uc004aid.2	-	25	4451	c.4207T>C	c.(4207-4209)TAT>CAT	p.Y1403H	TRPM3_uc004ahu.2_Missense_Mutation_p.Y1245H|TRPM3_uc004ahv.2_Missense_Mutation_p.Y1205H|TRPM3_uc004ahw.2_Missense_Mutation_p.Y1275H|TRPM3_uc004ahx.2_Missense_Mutation_p.Y1262H|TRPM3_uc004ahy.2_Missense_Mutation_p.Y1265H|TRPM3_uc004ahz.2_Missense_Mutation_p.Y1252H|TRPM3_uc004aia.2_Missense_Mutation_p.Y1250H|TRPM3_uc004aib.2_Missense_Mutation_p.Y1240H|TRPM3_uc004aic.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1428	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GCAGAGACATAGATGTCTATA	0.502													23	33	---	---	---	---	PASS	G	73151786	G	G	73151786	3	3	165	1	0	0	0	0	1	0	0	0	16584	420	15	5	920	5	TRPM3	9	73151786	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	36981549	73151786	68061645	308	59243										
TRPM6	140803	broad.mit.edu	37	chr9	77457212	77457212	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tggcagctgagatggtccagGaataatctatcccagcatgg	12	9	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:77457212G>A	uc004ajl.1	-	4	438	c.200C>T	c.(199-201)TCC>TTC	p.S67F	TRPM6_uc004ajk.1_Missense_Mutation_p.S62F|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.S67F|TRPM6_uc010mpd.1_Missense_Mutation_p.S67F|TRPM6_uc010mpe.1_Missense_Mutation_p.S67F|TRPM6_uc004ajn.1_Missense_Mutation_p.S67F	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	67	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						GATGGTCCAGGAATAATCTAT	0.393													24	70	---	---	---	---	PASS	A	77457212	A	A	77457212	3	1	165	1	0	0	0	0	1	0	0	0	16587	1174	41	2	6012	2	TRPM6	9	77457212	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	4305426	77457212	63756219	309	59244										
PRUNE2	158471	broad.mit.edu	37	chr9	79322427	79322427	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttctacttggccatcagtgGtaattagttcagattcttgg	9	7	4	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:79322427G>C	uc010mpk.2	-	8	4887	c.4763C>G	c.(4762-4764)ACC>AGC	p.T1588S		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1588					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						GCCATCAGTGGTAATTAGTTC	0.408													16	40	---	---	---	---	PASS	C	79322427	C	C	79322427	3	2	165	1	0	0	0	0	1	0	0	0	12641	1261	44	4	4551	4	PRUNE2	9	79322427	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1865215	79322427	61891004	310	59245										
PRUNE2	158471	broad.mit.edu	37	chr9	79441626	79441626	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atcttctctgattccatggtCatccacttgaaaagaatgct	6	10	3	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:79441626C>G	uc010mpk.2	-	5	655	c.531G>C	c.(529-531)ATG>ATC	p.M177I	PRUNE2_uc004akn.2_Missense_Mutation_p.M177I	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	177					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						ATTCCATGGTCATCCACTTGA	0.418													6	57	---	---	---	---	PASS	G	79441626	G	G	79441626	3	3	165	1	0	0	0	0	1	0	0	0	12641	826	29	2	8795	2	PRUNE2	9	79441626	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	119199	79441626	61771805	311	59246										
PRUNE2	158471	broad.mit.edu	37	chr9	79441638	79441638	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tccatggtcatccacttgaaAagaatgctacctgaaaggta	8	9	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:79441638A>G	uc010mpk.2	-	5	643	c.519T>C	c.(517-519)CTT>CTC	p.L173L	PRUNE2_uc004akn.2_Silent_p.L173L	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	173					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TCCACTTGAAAAGAATGCTAC	0.423													5	55	---	---	---	---	PASS	G	79441638	G	G	79441638	2	3	165	1	0	0	0	0	0	0	0	1	12641	1	1	5		5	PRUNE2	9	79441638	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	12	79441638	61771793	312	59247										
PHF2	5253	broad.mit.edu	37	chr9	96418814	96418814	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgaaactgggcagcctgactCagtttcccaactttgaaact	8	11	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:96418814C>G	uc004aub.2	+	9	1231	c.1084C>G	c.(1084-1086)CAG>GAG	p.Q362E	PHF2_uc011lug.1_Missense_Mutation_p.Q245E	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	362					liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		CAGCCTGACTCAGTTTCCCAA	0.557													35	70	---	---	---	---	PASS	G	96418814	G	G	96418814	3	3	165	1	0	0	0	0	1	0	0	0	11830	827	29	2	1118	2	PHF2	9	96418814	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	16977176	96418814	44794617	313	59248										
KIAA1529	57653	broad.mit.edu	37	chr9	100119949	100119949	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aacaaatggattaaatttctCtctgcaacagcttcagaaca	5	9	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:100119949C>A	uc011lut.1	+	37	4627	c.3854C>A	c.(3853-3855)TCT>TAT	p.S1285Y	KIAA1529_uc004axe.1_Missense_Mutation_p.S1117Y|KIAA1529_uc004axg.1_Missense_Mutation_p.S1146Y|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Missense_Mutation_p.S302Y	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				TTAAATTTCTCTCTGCAACAG	0.358													6	112	---	---	---	---	PASS	A	100119949	A	A	100119949	3	1	165	1	0	0	0	0	1	0	0	0	8240	913	32	2	3448	2	KIAA1529	9	100119949	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3701135	100119949	41093482	314	59249										
ANKS6	203286	broad.mit.edu	37	chr9	101518738	101518738	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gccactgctggagcccccacTgctcttggactgccgatggg	13	15	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:101518738T>A	uc004ayu.2	-	12	2311	c.2290A>T	c.(2290-2292)AGT>TGT	p.S764C	ANKS6_uc004ayt.2_Missense_Mutation_p.S463C|ANKS6_uc004ayv.1_Missense_Mutation_p.S227C|ANKS6_uc004ayw.1_Missense_Mutation_p.S347C|ANKS6_uc004ayx.1_RNA|ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	764	Ser-rich.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				GAGCCCCCACTGCTCTTGGAC	0.602													13	24	---	---	---	---	PASS	A	101518738	A	A	101518738	3	1	165	1	0	0	0	0	1	0	0	0	692	1580	55	5	341	5	ANKS6	9	101518738	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	1398789	101518738	39694693	315	59250										
CYLC2	1539	broad.mit.edu	37	chr9	105767117	105767117	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccaactcgtactgtcgaggtGgattctaaagcagcaggtag	12	9	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:105767117G>T	uc004bbs.2	+	4	391	c.321G>T	c.(319-321)GTG>GTT	p.V107V		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	107	31 X 3 AA repeats of K-K-X.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				CTGTCGAGGTGGATTCTAAAG	0.363													4	19	---	---	---	---	PASS	T	105767117	T	T	105767117	2	4	165	1	0	0	0	0	0	0	0	1	4142	1335	47	3		3	CYLC2	9	105767117	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	4248379	105767117	35446314	316	59251										
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112918631	112918631	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aagtcaaacctcctccatccCccaccactgaaggccccagc	5	20	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:112918631C>G	uc004bej.3	+	9	3208	c.3028C>G	c.(3028-3030)CCC>GCC	p.P1010A	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.P1010A|AKAP2_uc011lwi.1_Missense_Mutation_p.P868A|AKAP2_uc004bem.2_Missense_Mutation_p.P868A|AKAP2_uc011lwj.1_Missense_Mutation_p.P779A|PALM2-AKAP2_uc004ben.2_Intron	NM_007203	NP_009134	Q9Y2D5	AKAP2_HUMAN	PALM2-AKAP2 protein isoform 1	779							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						TCCTCCATCCCCCACCACTGA	0.498													8	52	---	---	---	---	PASS	G	112918631	G	G	112918631	3	3	165	1	0	0	0	0	1	0	0	0	11410	623	22	4	3062	4	PALM2-AKAP2	9	112918631	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	7151514	112918631	28294800	317	59252										
AKNA	80709	broad.mit.edu	37	chr9	117103916	117103916	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagataccacagtccgggggGtgggcgtggcgacgaccccg	17	13	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:117103916G>T	uc004biq.3	-	20	4099	c.3964C>A	c.(3964-3966)CCC>ACC	p.P1322T	AKNA_uc004bin.3_Missense_Mutation_p.P569T|AKNA_uc004bio.3_Missense_Mutation_p.P782T|AKNA_uc004bip.3_Missense_Mutation_p.P1241T|AKNA_uc004bir.3_Missense_Mutation_p.P1322T|AKNA_uc004bis.3_Missense_Mutation_p.P1322T|AKNA_uc010mve.2_Missense_Mutation_p.P1203T	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	1322					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(2)	6						AGTCCGGGGGGTGGGCGTGGC	0.637													4	23	---	---	---	---	PASS	T	117103916	T	T	117103916	3	4	165	1	0	0	0	0	1	0	0	0	463	1261	44	3	363	3	AKNA	9	117103916	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	4185285	117103916	24109515	318	59253										
TNC	3371	broad.mit.edu	37	chr9	117810681	117810681	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agtgtgaattcctgggggtcCagcagcttcccagaatccac	11	12	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:117810681C>G	uc004bjj.3	-	16	5072	c.4710G>C	c.(4708-4710)CTG>CTC	p.L1570L	TNC_uc010mvf.2_Intron	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1570	Fibronectin type-III 11.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CCTGGGGGTCCAGCAGCTTCC	0.512													5	37	---	---	---	---	PASS	G	117810681	G	G	117810681	2	3	165	1	0	0	0	0	0	0	0	1	16267	581	21	4		4	TNC	9	117810681	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	706765	117810681	23402750	319	59254										
ASTN2	23245	broad.mit.edu	37	chr9	120176822	120176822	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgtccaggtcgtcctgcaccGcgatgcgccccggcagctcg	13	17	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:120176822G>T	uc004bjs.1	-	1	496	c.395C>A	c.(394-396)GCG>GAG	p.A132E	ASTN2_uc004bjr.1_Missense_Mutation_p.A132E|ASTN2_uc004bjt.1_Missense_Mutation_p.A132E	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	132	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GTCCTGCACCGCGATGCGCCC	0.721													6	7	---	---	---	---	PASS	T	120176822	T	T	120176822	3	4	165	1	0	0	0	0	1	0	0	0	1065	1087	38	1	3791	1	ASTN2	9	120176822	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2366141	120176822	21036609	320	59255										
RC3H2	54542	broad.mit.edu	37	chr9	125613661	125613661	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aagtgctgaaagctctaactCgatatccctatcaggtttag	8	9	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr9:125613661C>A	uc010mwc.1	-	19	3413	c.3172G>T	c.(3172-3174)GAG>TAG	p.E1058*	uc004bnb.1_5'Flank|RC3H2_uc004bnc.2_RNA|RC3H2_uc004bnd.1_Nonsense_Mutation_p.E1058*	NM_001100588	NP_001094058	Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type zinc finger domains 2	1058						cell surface|endomembrane system|membrane|membrane fraction|perinuclear region of cytoplasm	DNA binding|zinc ion binding			ovary(2)|lung(2)	4						AGCTCTAACTCGATATCCCTA	0.308													12	31	---	---	---	---	PASS	A	125613661	A	A	125613661	4	1	165	1	0	0	0	0	0	1	0	0	13167	893	31	2	415	2	RC3H2	9	125613661	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	5436839	125613661	15599770	321	59256										
TAF3	83860	broad.mit.edu	37	chr10	8055717	8055717	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgagatgagtggggcaatcaGatctggatctgccctgggtg	16	8	3	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:8055717G>T	uc010qbd.1	+	6	2592	c.2592G>T	c.(2590-2592)CAG>CAT	p.Q864H		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	864					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						GGGGCAATCAGATCTGGATCT	0.517													28	41	---	---	---	---	PASS	T	8055717	T	T	8055717	3	4	165	1	0	0	0	0	1	0	0	0	15522	933	33	2	2614	2	TAF3	10	8055717	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08		8055717	127479030	322	59257										
UPF2	26019	broad.mit.edu	37	chr10	11997498	11997498	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgcctctgattaaatttaggTtgattaacctaaaaggcaac	7	8	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:11997498T>C	uc001ila.2	-	13	3057	c.2583A>G	c.(2581-2583)CAA>CAG	p.Q861Q	UPF2_uc001ilb.2_Silent_p.Q861Q|UPF2_uc001ilc.2_Silent_p.Q861Q|UPF2_uc009xiz.1_Silent_p.Q861Q	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog	861	Sufficient for interaction with UPF3A and UPF3B.|MIF4G 3.|Sufficient for interaction with EIF4A1 and EIF1.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				TAAATTTAGGTTGATTAACCT	0.343													12	32	---	---	---	---	PASS	C	11997498	C	C	11997498	2	2	165	1	0	0	0	0	0	0	0	1	17001	1722	60	5		5	UPF2	10	11997498	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08	3941781	11997498	123537249	323	59258										
RPP38	10557	broad.mit.edu	37	chr10	15145543	15145543	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttttctgaaaaaagaaagcaGagagaaatgcagcattgctg	10	5	1	4	rs141142473		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:15145543G>T	uc001iny.3	+	3	943	c.230G>T	c.(229-231)AGA>ATA	p.R77I	RPP38_uc009xjm.2_Missense_Mutation_p.R77I|RPP38_uc001inx.3_Missense_Mutation_p.R77I	NM_183005	NP_892117	P78345	RPP38_HUMAN	ribonuclease P/MRP 38 subunit	77					tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity			ovary(1)	1						AAAGAAAGCAGAGAGAAATGC	0.418													5	9	---	---	---	---	PASS	T	15145543	T	T	15145543	3	4	165	1	0	0	0	0	1	0	0	0	13613	942	33	2	232	2	RPP38	10	15145543	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3148045	15145543	120389204	324	59259										
NEBL	10529	broad.mit.edu	37	chr10	21115440	21115440	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggctatctttcactgcagtgCcagctcccacttctttctta	6	14	4	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:21115440C>T	uc001iqi.2	-	18	2202	c.1805G>A	c.(1804-1806)GGC>GAC	p.G602D	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_RNA	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	602	Nebulin 17.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						CACTGCAGTGCCAGCTCCCAC	0.343													32	42	---	---	---	---	PASS	T	21115440	T	T	21115440	3	4	165	1	0	0	0	0	1	0	0	0	10303	739	26	3	1283	3	NEBL	10	21115440	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	5969897	21115440	114419307	325	59260										
ANKRD26	22852	broad.mit.edu	37	chr10	27306604	27306604	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttattcttctgtagtttttCacatttcttttgtactgttt	4	6	4	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:27306604C>A	uc001ith.2	-	30	4502	c.4330G>T	c.(4330-4332)GAA>TAA	p.E1444*	ANKRD26_uc001itg.2_Nonsense_Mutation_p.E1131*|ANKRD26_uc009xku.1_Nonsense_Mutation_p.E1445*	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1444	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TGTAGTTTTTCACATTTCTTT	0.343													20	16	---	---	---	---	PASS	A	27306604	A	A	27306604	4	1	165	1	0	0	0	0	0	1	0	0	654	835	29	2	819	2	ANKRD26	10	27306604	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	6191164	27306604	108228143	326	59261										
ZEB1	6935	broad.mit.edu	37	chr10	31809581	31809581	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aagccaatcttgcatccaaaGaacaagaaacaatcaatgct	5	10	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:31809581G>A	uc001ivs.3	+	7	1381	c.1318G>A	c.(1318-1320)GAA>AAA	p.E440K	ZEB1_uc001ivr.3_Missense_Mutation_p.E222K|ZEB1_uc010qee.1_Missense_Mutation_p.E222K|ZEB1_uc010qef.1_Missense_Mutation_p.E222K|ZEB1_uc009xlj.1_Missense_Mutation_p.E366K|ZEB1_uc010qeg.1_Missense_Mutation_p.E299K|ZEB1_uc009xlk.1_Missense_Mutation_p.E222K|ZEB1_uc001ivt.3_Missense_Mutation_p.E222K|ZEB1_uc001ivu.3_Missense_Mutation_p.E441K|ZEB1_uc001ivv.3_Missense_Mutation_p.E420K|ZEB1_uc010qeh.1_Missense_Mutation_p.E373K|ZEB1_uc009xlo.1_Missense_Mutation_p.E423K|ZEB1_uc009xlp.2_Missense_Mutation_p.E424K	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	440					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				TGCATCCAAAGAACAAGAAAC	0.368													15	13	---	---	---	---	PASS	A	31809581	A	A	31809581	3	1	165	1	0	0	0	0	1	0	0	0	17620	943	33	2	1358	2	ZEB1	10	31809581	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	4502977	31809581	103725166	327	59262										
ANKRD30A	91074	broad.mit.edu	37	chr10	37508167	37508167	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agttctgatagctgagaacaCaatgctcacttctaaattga	7	8	3	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:37508167C>G	uc001iza.1	+	34	3458	c.3359C>G	c.(3358-3360)ACA>AGA	p.T1120R		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1176	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GCTGAGAACACAATGCTCACT	0.383													45	79	---	---	---	---	PASS	G	37508167	G	G	37508167	3	3	165	1	0	0	0	0	1	0	0	0	658	478	17	4	3493	4	ANKRD30A	10	37508167	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	5698586	37508167	98026580	328	59263										
GDF2	2658	broad.mit.edu	37	chr10	48413941	48413941	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctggctaaagtcgaccccgcAgccacgtggccatccgtgtc	11	16	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:48413941A>T	uc001jfa.1	-	2	1090	c.927T>A	c.(925-927)GCT>GCA	p.A309A		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	309					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						TCGACCCCGCAGCCACGTGGC	0.612													11	12	---	---	---	---	PASS	T	48413941	T	T	48413941	2	4	165	1	0	0	0	0	0	0	0	1	6314	175	7	5		5	GDF2	10	48413941	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	10905774	48413941	87120806	329	59264										
MAPK8	5599	broad.mit.edu	37	chr10	49628312	49628312	+	Missense_Mutation	SNP	C	T	T													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgacgccttatgtagtgactCgctactacagagcacccgag							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:49628312C>T	uc009xnz.2	+	6	789	c.565C>T	c.(565-567)CGC>TGC	p.R189C	MAPK8_uc001jgl.2_Missense_Mutation_p.R189C|MAPK8_uc001jgm.2_Missense_Mutation_p.R189C|MAPK8_uc001jgo.2_Missense_Mutation_p.R189C|MAPK8_uc009xoa.2_Missense_Mutation_p.R189C|MAPK8_uc001jgn.2_Missense_Mutation_p.R189C|MAPK8_uc010qgk.1_Missense_Mutation_p.R189C|MAPK8_uc001jgp.2_Missense_Mutation_p.R189C|MAPK8_uc001jgq.2_Missense_Mutation_p.R189C	NM_139047	NP_620635	P45983	MK08_HUMAN	mitogen-activated protein kinase 8 isoform JNK1	189	Protein kinase.				activation of pro-apoptotic gene products|cellular response to mechanical stimulus|induction of apoptosis by intracellular signals|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of apoptosis|negative regulation of protein binding|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of deacetylase activity|regulation of protein localization|regulation of sequence-specific DNA binding transcription factor activity|response to UV|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|nucleoplasm	ATP binding|histone deacetylase binding|histone deacetylase regulator activity|JUN kinase activity|protein binding			central_nervous_system(3)|lung(2)|stomach(1)|ovary(1)|kidney(1)	8		Ovarian(717;0.0221)|Lung SC(717;0.113)|all_neural(218;0.116)		Epithelial(53;3.46e-65)|Lung(62;0.125)		TGTAGTGACTCGCTACTACAG	0.408													22	35	---	---	---	---	PASS	T	49628312	T	T	49628312	3	4	165	1	0	0	0	0	1	0	0	0	9283	884	31	2	583	2	MAPK8	10	49628312	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1214371	49628312	85906435	330	59265	1046	2								
MAPK8	5599	broad.mit.edu	37	chr10	49628313	49628313	+	Missense_Mutation	SNP	G	T	T													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gacgccttatgtagtgactcGctactacagagcacccgagg							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:49628313G>T	uc009xnz.2	+	6	790	c.566G>T	c.(565-567)CGC>CTC	p.R189L	MAPK8_uc001jgl.2_Missense_Mutation_p.R189L|MAPK8_uc001jgm.2_Missense_Mutation_p.R189L|MAPK8_uc001jgo.2_Missense_Mutation_p.R189L|MAPK8_uc009xoa.2_Missense_Mutation_p.R189L|MAPK8_uc001jgn.2_Missense_Mutation_p.R189L|MAPK8_uc010qgk.1_Missense_Mutation_p.R189L|MAPK8_uc001jgp.2_Missense_Mutation_p.R189L|MAPK8_uc001jgq.2_Missense_Mutation_p.R189L	NM_139047	NP_620635	P45983	MK08_HUMAN	mitogen-activated protein kinase 8 isoform JNK1	189	Protein kinase.				activation of pro-apoptotic gene products|cellular response to mechanical stimulus|induction of apoptosis by intracellular signals|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of apoptosis|negative regulation of protein binding|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of deacetylase activity|regulation of protein localization|regulation of sequence-specific DNA binding transcription factor activity|response to UV|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|nucleoplasm	ATP binding|histone deacetylase binding|histone deacetylase regulator activity|JUN kinase activity|protein binding			central_nervous_system(3)|lung(2)|stomach(1)|ovary(1)|kidney(1)	8		Ovarian(717;0.0221)|Lung SC(717;0.113)|all_neural(218;0.116)		Epithelial(53;3.46e-65)|Lung(62;0.125)		GTAGTGACTCGCTACTACAGA	0.408													22	35	---	---	---	---	PASS	T	49628313	T	T	49628313	3	4	165	1	0	0	0	0	1	0	0	0	9283	1087	38	1	584	1	MAPK8	10	49628313	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1	49628313	85906434	331	59266	1046	2								
C10orf71	118461	broad.mit.edu	37	chr10	50530641	50530641	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcgttcagcgactcctccagCatcggcagcgtgttggatga	13	12	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:50530641C>G	uc010qgp.1	+	3	390	c.51C>G	c.(49-51)AGC>AGG	p.S17R		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	17											0						ACTCCTCCAGCATCGGCAGCG	0.552													6	15	---	---	---	---	PASS	G	50530641	G	G	50530641	3	3	165	1	0	0	0	0	1	0	0	0	1614	709	25	4	53	4	C10orf71	10	50530641	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	902328	50530641	85004106	332	59267										
AGAP7	653268	broad.mit.edu	37	chr10	51465367	51465367	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gggggcgggttgagcttgggGatggtggtgctggagatact	22	4	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:51465367G>C	uc001jio.2	-	7	1215	c.1089C>G	c.(1087-1089)ATC>ATG	p.I363M	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron	NM_001077685	NP_001071153	Q5VUJ5	AGAP7_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	363	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						TGAGCTTGGGGATGGTGGTGC	0.517													4	96	---	---	---	---	PASS	C	51465367	C	C	51465367	3	2	165	1	0	0	0	0	1	0	0	0	373	1164	41	2	906	2	AGAP7	10	51465367	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	934726	51465367	84069380	333	59268										
USP54	159195	broad.mit.edu	37	chr10	75290488	75290488	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgtggtatcccgaggcctggGgctcatcgcctttcctccta	11	14	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:75290488G>A	uc001juo.2	-	11	1438	c.1421C>T	c.(1420-1422)CCC>CTC	p.P474L	USP54_uc001juk.2_5'UTR|USP54_uc001jul.2_5'UTR|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA|USP54_uc001jup.2_Missense_Mutation_p.P474L|USP54_uc010qkl.1_Missense_Mutation_p.P474L	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	474					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					CGAGGCCTGGGGCTCATCGCC	0.502													9	31	---	---	---	---	PASS	A	75290488	A	A	75290488	3	1	165	1	0	0	0	0	1	0	0	0	17082	1232	43	3	3681	3	USP54	10	75290488	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	23825121	75290488	60244259	334	59269										
LRIT1	26103	broad.mit.edu	37	chr10	85992438	85992438	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caccagcttgttgttgtaagCagcagcttcccctccgccac	8	16	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:85992438C>A	uc001kcz.1	-	4	1139	c.1117G>T	c.(1117-1119)GCT>TCT	p.A373S		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	373	Lumenal (Potential).					integral to endoplasmic reticulum membrane					0						TTGTTGTAAGCAGCAGCTTCC	0.587													3	7	---	---	---	---	PASS	A	85992438	A	A	85992438	3	1	165	1	0	0	0	0	1	0	0	0	8947	710	25	3	758	3	LRIT1	10	85992438	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	10701950	85992438	49542309	335	59270										
PANK1	53354	broad.mit.edu	37	chr10	91405006	91405006	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcgcctcccagactggtcccCgccactgagcatgcccagtc	9	19	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:91405006C>G	uc001kgp.1	-	1	210	c.54G>C	c.(52-54)GCG>GCC	p.A18A	PANK1_uc001kgn.1_5'Flank|PANK1_uc001kgo.1_5'Flank|PANK1_uc009xtu.1_5'Flank	NM_148977	NP_683878	Q8TE04	PANK1_HUMAN	pantothenate kinase 1 isoform alpha	18					coenzyme A biosynthetic process|pantothenate metabolic process	cytosol|nucleus	ATP binding|pantothenate kinase activity				0					Bezafibrate(DB01393)	GACTGGTCCCCGCCACTGAGC	0.692													4	4	---	---	---	---	PASS	G	91405006	G	G	91405006	2	3	165	1	0	0	0	0	0	0	0	1	11416	639	23	4		4	PANK1	10	91405006	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	5412568	91405006	44129741	336	59271										
NT5C2	22978	broad.mit.edu	37	chr10	104854165	104854165	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agtggtttccgtgcatccacCaagatcaagtcaaagtagga	10	9	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:104854165C>A	uc001kwo.2	-	13	1047	c.861G>T	c.(859-861)TTG>TTT	p.L287F	NT5C2_uc010qqp.1_Missense_Mutation_p.L258F|NT5C2_uc001kwq.2_Missense_Mutation_p.L287F|NT5C2_uc001kwp.2_Missense_Mutation_p.L134F	NM_012229	NP_036361	P49902	5NTC_HUMAN	5'-nucleotidase, cytosolic II	287					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|metal ion binding|nucleotide binding|protein binding				0		all_hematologic(284;0.176)|Colorectal(252;0.178)		Epithelial(162;1.33e-08)|all cancers(201;1.04e-07)|BRCA - Breast invasive adenocarcinoma(275;0.159)	Adenosine triphosphate(DB00171)|Ribavirin(DB00811)	GTGCATCCACCAAGATCAAGT	0.473													4	27	---	---	---	---	PASS	A	104854165	A	A	104854165	3	1	165	1	0	0	0	0	1	0	0	0	10687	593	21	3	852	3	NT5C2	10	104854165	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	13449159	104854165	30680582	337	59272										
GPAM	57678	broad.mit.edu	37	chr10	113924340	113924340	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gggaaagtagagcagacaccGgtttctgactttggctttct	12	8	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:113924340G>A	uc009xxy.1	-	13	1448	c.1250C>T	c.(1249-1251)CCG>CTG	p.P417L	GPAM_uc001kzp.2_Missense_Mutation_p.P417L|GPAM_uc001kzq.1_Missense_Mutation_p.P417L	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate	417					phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		AGCAGACACCGGTTTCTGACT	0.368													13	25	---	---	---	---	PASS	A	113924340	A	A	113924340	3	1	165	1	0	0	0	0	1	0	0	0	6588	1116	39	1	1276	1	GPAM	10	113924340	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	9070175	113924340	21610407	338	59273										
NRAP	4892	broad.mit.edu	37	chr10	115348836	115348836	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcctccactgcttctgccccCcgctgctgaaatcaaacata	6	17	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:115348836C>G	uc001laj.2	-	42	5255	c.5091G>C	c.(5089-5091)CGG>CGC	p.R1697R	HABP2_uc001lai.3_3'UTR|NRAP_uc009xyb.2_Silent_p.R450R|NRAP_uc001lak.2_Silent_p.R1662R|NRAP_uc001lal.3_Silent_p.R1698R	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	1697				R -> Q (in Ref. 3; CAD89899).		fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		CTTCTGCCCCCCGCTGCTGAA	0.562													12	14	---	---	---	---	PASS	G	115348836	G	G	115348836	2	3	165	1	0	0	0	0	0	0	0	1	10638	610	22	4		4	NRAP	10	115348836	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	1424496	115348836	20185911	339	59274										
FANK1	92565	broad.mit.edu	37	chr10	127685989	127685989	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cttaagtttgtttcctttagGcttgtgaaaatcctagtttc	7	7	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:127685989G>A	uc001ljh.3	+	6	578	c.474G>A	c.(472-474)AGG>AGA	p.R158R	FANK1_uc009yan.2_Silent_p.R184R|FANK1_uc001lji.2_Silent_p.R152R	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains	158	ANK 2.					cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)				TTTCCTTTAGGCTTGTGAAAA	0.408													12	26	---	---	---	---	PASS	A	127685989	A	A	127685989	2	1	165	1	0	0	0	0	0	0	0	1	5672	1217	42	3		3	FANK1	10	127685989	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	12337153	127685989	7848758	340	59275										
PPP2R2D	55844	broad.mit.edu	37	chr10	133769242	133769242	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aggatgtttgatagagacacGcggagggatgtgaccctgga	16	6	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr10:133769242G>T	uc001lks.2	+	7	1281	c.1038G>T	c.(1036-1038)ACG>ACT	p.T346T	PPP2R2D_uc001lkr.2_Silent_p.T152T|PPP2R2D_uc001lkt.2_Silent_p.T152T|PPP2R2D_uc009yay.2_Silent_p.T214T	NM_018461	NP_060931	Q66LE6	2ABD_HUMAN	protein phosphatase 2, regulatory subunit B,	379	WD 6.				cell division|exit from mitosis|mitosis|signal transduction	cytoplasm|protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			skin(1)	1		all_cancers(35;2.16e-12)|all_epithelial(44;2.77e-09)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Colorectal(31;0.0124)|Breast(234;0.023)|all_neural(114;0.0299)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.86e-05)|Epithelial(32;8.82e-05)|all cancers(32;0.000106)|BRCA - Breast invasive adenocarcinoma(275;0.21)		ATAGAGACACGCGGAGGGATG	0.582													4	16	---	---	---	---	PASS	T	133769242	T	T	133769242	2	4	165	1	0	0	0	0	0	0	0	1	12387	1074	38	1		1	PPP2R2D	10	133769242	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	6083253	133769242	1765505	341	59276										
OR51L1	119682	broad.mit.edu	37	chr11	5020998	5020998	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccagttattggggtgtcaatGgtccatcgctttgggaagca	13	8	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:5020998G>C	uc010qyu.1	+	1	786	c.786G>C	c.(784-786)ATG>ATC	p.M262I		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGGTGTCAATGGTCCATCGCT	0.463													4	30	---	---	---	---	PASS	C	5020998	C	C	5020998	3	2	165	1	0	0	0	0	1	0	0	0	11102	1348	47	4	788	4	OR51L1	11	5020998	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08		5020998	129985518	342	59277										
OR52A4	390053	broad.mit.edu	37	chr11	5142501	5142501	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgtggatgagccacatctgaAagaggcaagcatcaaaatat	10	7	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:5142501A>G	uc001lzz.1	-	1	308	c.308T>C	c.(307-309)TTT>TCT	p.F103S	OR52A4_uc001maa.2_RNA	NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		CCACATCTGAAAGAGGCAAGC	0.463													5	40	---	---	---	---	PASS	G	5142501	G	G	5142501	3	3	165	1	0	0	0	0	1	0	0	0	11109	14	1	5	610	5	OR52A4	11	5142501	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	121503	5142501	129864015	343	59278										
UBQLNL	143630	broad.mit.edu	37	chr11	5537174	5537174	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gctttgcactctgggtggctCacttccaagttttgggtatg	12	9	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:5537174C>A	uc001maz.3	-	1	783	c.498G>T	c.(496-498)GTG>GTT	p.V166V	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	166										large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		CTGGGTGGCTCACTTCCAAGT	0.507													16	40	---	---	---	---	PASS	A	5537174	A	A	5537174	2	1	165	1	0	0	0	0	0	0	0	1	16897	813	29	2		2	UBQLNL	11	5537174	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	394673	5537174	129469342	344	59279										
FAM160A2	84067	broad.mit.edu	37	chr11	6238899	6238899	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gccccctcaggccatgatccTggcactccattgagctgggg	12	15	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:6238899T>A	uc001mcl.3	-	9	2276	c.1917A>T	c.(1915-1917)CCA>CCT	p.P639P	FAM160A2_uc001mck.3_Silent_p.P653P|FAM160A2_uc001mcm.2_Silent_p.P639P	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	639					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						GCCATGATCCTGGCACTCCAT	0.443													8	18	---	---	---	---	PASS	A	6238899	A	A	6238899	2	1	165	1	0	0	0	0	0	0	0	1	5469	1567	55	5		5	FAM160A2	11	6238899	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08	701725	6238899	128767617	345	59280										
FAM160A2	84067	broad.mit.edu	37	chr11	6243821	6243821	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagataggcggtactggcgaTcatctcctccacagaggtct	11	12	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:6243821T>A	uc001mcl.3	-	6	1401	c.1042A>T	c.(1042-1044)ATC>TTC	p.I348F	FAM160A2_uc001mck.3_Missense_Mutation_p.I348F|FAM160A2_uc001mcm.2_Missense_Mutation_p.I348F	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	348					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						GTACTGGCGATCATCTCCTCC	0.502													9	29	---	---	---	---	PASS	A	6243821	A	A	6243821	3	1	165	1	0	0	0	0	1	0	0	0	5469	1435	50	5	1946	5	FAM160A2	11	6243821	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	4922	6243821	128762695	346	59281										
CCKBR	887	broad.mit.edu	37	chr11	6290904	6290904	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccttttcttacccagaattgGagctggccattagaatcact	7	11	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:6290904G>T	uc001mcp.2	+	2	350	c.157G>T	c.(157-159)GAG>TAG	p.E53*	CCKBR_uc001mcq.2_5'UTR|CCKBR_uc001mcr.2_Nonsense_Mutation_p.E53*|CCKBR_uc001mcs.2_Nonsense_Mutation_p.E53*	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	53	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	CCCAGAATTGGAGCTGGCCAT	0.537													8	20	---	---	---	---	PASS	T	6290904	T	T	6290904	4	4	165	1	0	0	0	0	0	1	0	0	2881	1175	41	2	163	2	CCKBR	11	6290904	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	47083	6290904	128715612	347	59282										
DCHS1	8642	broad.mit.edu	37	chr11	6661842	6661842	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agggtgagccccaccatctcGtgcttgcaccaccagttcat	9	15	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:6661842G>T	uc001mem.1	-	2	1413	c.1003C>A	c.(1003-1005)CGA>AGA	p.R335R		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	335	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCACCATCTCGTGCTTGCACC	0.587													12	54	---	---	---	---	PASS	T	6661842	T	T	6661842	2	4	165	1	0	0	0	0	0	0	0	1	4287	1153	40	1		1	DCHS1	11	6661842	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	370938	6661842	128344674	348	59283										
OR6A2	8590	broad.mit.edu	37	chr11	6816414	6816414	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaagtggttgatgatgttggGgccacagtaagagaggccag	16	5	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:6816414G>T	uc001mes.1	-	1	726	c.526C>A	c.(526-528)CCC>ACC	p.P176T		NM_003696	NP_003687	O95222	OR6A2_HUMAN	olfactory receptor, family 6, subfamily A,	176	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		ATGATGTTGGGGCCACAGTAA	0.493													14	86	---	---	---	---	PASS	T	6816414	T	T	6816414	3	4	165	1	0	0	0	0	1	0	0	0	11186	1232	43	3	461	3	OR6A2	11	6816414	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	154572	6816414	128190102	349	59284										
KCNA4	3739	broad.mit.edu	37	chr11	30033705	30033705	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttatcaccacacgttcacaaCagtcactgtagcggactgaa	7	12	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:30033705C>A	uc001msk.2	-	2	1673	c.521G>T	c.(520-522)TGT>TTT	p.C174F		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	174						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						ACGTTCACAACAGTCACTGTA	0.502													7	24	---	---	---	---	PASS	A	30033705	A	A	30033705	3	1	165	1	0	0	0	0	1	0	0	0	8005	478	17	3	1444	3	KCNA4	11	30033705	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	23217291	30033705	104972811	350	59285										
PAX6	5080	broad.mit.edu	37	chr11	31822244	31822244	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgcttgggttttaccttgcGtaggttgccctggcaccgaa	12	11	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:31822244G>A	uc001mtd.3	-	6	1408	c.518C>T	c.(517-519)ACG>ATG	p.T173M	PAX6_uc001mte.3_Missense_Mutation_p.T173M|PAX6_uc001mtg.3_Missense_Mutation_p.T187M|PAX6_uc001mtf.3_Missense_Mutation_p.T173M|PAX6_uc001mth.3_Missense_Mutation_p.T173M|PAX6_uc009yjr.2_Missense_Mutation_p.T173M	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	173	Gln/Gly-rich.				blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					TTTACCTTGCGTAGGTTGCCC	0.572									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				41	74	---	---	---	---	PASS	A	31822244	A	A	31822244	3	1	165	1	0	0	0	0	1	0	0	0	11483	1145	40	1	778	1	PAX6	11	31822244	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1788539	31822244	103184272	351	59286										
FOLH1	2346	broad.mit.edu	37	chr11	49214371	49214371	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cattccttgaggagagaaagCactgaaaggtggtacaatat	11	6	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:49214371C>A	uc001ngy.2	-	4	748	c.487G>T	c.(487-489)GCT>TCT	p.A163S	FOLH1_uc001ngz.2_Missense_Mutation_p.A163S|FOLH1_uc009yly.2_Missense_Mutation_p.A148S|FOLH1_uc009ylz.2_Missense_Mutation_p.A148S|FOLH1_uc009yma.2_5'UTR|FOLH1_uc001nha.2_Missense_Mutation_p.A148S	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	163	Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	GGAGAGAAAGCACTGAAAGGT	0.348													11	41	---	---	---	---	PASS	A	49214371	A	A	49214371	3	1	165	1	0	0	0	0	1	0	0	0	5979	710	25	3	1829	3	FOLH1	11	49214371	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	17392127	49214371	85792145	352	59287										
OR5D13	390142	broad.mit.edu	37	chr11	55541493	55541493	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttctgcctcctactcagacCcctatatcagccagaggcta	6	15	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:55541493C>A	uc010ril.1	+	1	580	c.580C>A	c.(580-582)CCC>ACC	p.P194T		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	194	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				CTACTCAGACCCCTATATCAG	0.353													23	73	---	---	---	---	PASS	A	55541493	A	A	55541493	3	1	165	1	0	0	0	0	1	0	0	0	11154	623	22	3	582	3	OR5D13	11	55541493	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	6327122	55541493	79465023	353	59288										
OR5F1	338674	broad.mit.edu	37	chr11	55761640	55761640	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cttgtgttgaccatgaagttCagcaaccctgcagcaaaagc	9	11	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:55761640C>T	uc010riv.1	-	1	462	c.462G>A	c.(460-462)CTG>CTA	p.L154L		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					CCATGAAGTTCAGCAACCCTG	0.507													14	34	---	---	---	---	PASS	T	55761640	T	T	55761640	2	4	165	1	0	0	0	0	0	0	0	1	11158	813	29	2		2	OR5F1	11	55761640	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	220147	55761640	79244876	354	59289										
OR8K5	219453	broad.mit.edu	37	chr11	55926940	55926940	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agctgtaaatcaaagggttaAgcatggggattactaaagtg	12	4	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:55926940A>G	uc010rja.1	-	1	854	c.854T>C	c.(853-855)CTT>CCT	p.L285P		NM_001004058	NP_001004058	Q8NH50	OR8K5_HUMAN	olfactory receptor, family 8, subfamily K,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(21;0.00693)	Lung NSC(402;0.197)|all_epithelial(135;0.236)				CAAAGGGTTAAGCATGGGGAT	0.343													4	43	---	---	---	---	PASS	G	55926940	G	G	55926940	3	3	165	1	0	0	0	0	1	0	0	0	11245	72	3	5	72	5	OR8K5	11	55926940	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	165300	55926940	79079576	355	59290										
OR5T1	390155	broad.mit.edu	37	chr11	56043811	56043811	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcctgatctcctatggttttAttctgttggccattctgaag	8	9	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:56043811A>T	uc001nio.1	+	1	697	c.697A>T	c.(697-699)ATT>TTT	p.I233F		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	233	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					CTATGGTTTTATTCTGTTGGC	0.428													43	119	---	---	---	---	PASS	T	56043811	T	T	56043811	3	4	165	1	0	0	0	0	1	0	0	0	11181	449	16	5	699	5	OR5T1	11	56043811	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	116871	56043811	78962705	356	59291										
OR9I1	219954	broad.mit.edu	37	chr11	57886523	57886523	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gggattcatggccacggtatAgagcagtgggttgcgaatgg	17	6	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:57886523A>G	uc001nml.1	-	1	394	c.394T>C	c.(394-396)TAT>CAT	p.Y132H	OR9Q1_uc001nmj.2_Intron	NM_001005211	NP_001005211	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I,	132	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Breast(21;0.0589)				GCCACGGTATAGAGCAGTGGG	0.552													11	22	---	---	---	---	PASS	G	57886523	G	G	57886523	3	3	165	1	0	0	0	0	1	0	0	0	11253	420	15	5	554	5	OR9I1	11	57886523	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1842712	57886523	77119993	357	59292										
OR5B12	390191	broad.mit.edu	37	chr11	58206843	58206843	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgcccatgaaatggctggagTtaggtcgtaagtacataaag	12	6	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:58206843T>A	uc010rkh.1	-	1	782	c.782A>T	c.(781-783)AAC>ATC	p.N261I		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				ATGGCTGGAGTTAGGTCGTAA	0.458													11	40	---	---	---	---	PASS	A	58206843	A	A	58206843	3	1	165	1	0	0	0	0	1	0	0	0	11148	1725	60	5	166	5	OR5B12	11	58206843	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	320320	58206843	76799673	358	59293										
MS4A6E	245802	broad.mit.edu	37	chr11	60102436	60102436	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaatgtcatcaacttctcccAagcagagaaacccgaaccca	5	14	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:60102436A>T	uc001npd.2	+	1	82	c.68A>T	c.(67-69)CAA>CTA	p.Q23L		NM_139249	NP_640342	Q96DS6	M4A6E_HUMAN	membrane-spanning 4-domains, subfamily A, member	23	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						AACTTCTCCCAAGCAGAGAAA	0.423													36	54	---	---	---	---	PASS	T	60102436	T	T	60102436	3	4	165	1	0	0	0	0	1	0	0	0	9865	130	5	5	70	5	MS4A6E	11	60102436	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1895593	60102436	74904080	359	59294										
MS4A6E	245802	broad.mit.edu	37	chr11	60102450	60102450	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tctcccaagcagagaaacccGaacccaccaaccaggggcag	9	16	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:60102450G>T	uc001npd.2	+	1	96	c.82G>T	c.(82-84)GAA>TAA	p.E28*		NM_139249	NP_640342	Q96DS6	M4A6E_HUMAN	membrane-spanning 4-domains, subfamily A, member	28	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						AGAGAAACCCGAACCCACCAA	0.443													25	57	---	---	---	---	PASS	T	60102450	T	T	60102450	4	4	165	1	0	0	0	0	0	1	0	0	9865	1059	37	2	84	2	MS4A6E	11	60102450	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	14	60102450	74904066	360	59295										
MS4A7	58475	broad.mit.edu	37	chr11	60150658	60150658	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gggggtttctcacagctttaCaccaaagggcatcactatcc	9	12	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:60150658C>A	uc001npe.2	+	2	189	c.44C>A	c.(43-45)ACA>AAA	p.T15K	MS4A7_uc001npf.2_Missense_Mutation_p.T15K|MS4A7_uc001npg.2_Missense_Mutation_p.T15K|MS4A7_uc001nph.2_Missense_Mutation_p.T15K|MS4A14_uc001npi.2_Intron|MS4A7_uc009ymx.1_Missense_Mutation_p.T15K	NM_206939	NP_996822	Q9GZW8	MS4A7_HUMAN	membrane-spanning 4-domains, subfamily A, member	15	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(1)|central_nervous_system(1)	2						CACAGCTTTACACCAAAGGGC	0.458													19	62	---	---	---	---	PASS	A	60150658	A	A	60150658	3	1	165	1	0	0	0	0	1	0	0	0	9866	478	17	3	46	3	MS4A7	11	60150658	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	48208	60150658	74855858	361	59296										
NXF1	10482	broad.mit.edu	37	chr11	62568599	62568599	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aggtttaggatcttcaggttGggtgccttctgaacaatgct	12	7	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:62568599G>T	uc001nvf.1	-	9	1009	c.873C>A	c.(871-873)CCC>CCA	p.P291P	NXF1_uc001nvg.1_Silent_p.P291P|NXF1_uc009yog.1_Silent_p.P334P|NXF1_uc010rmh.1_Silent_p.P154P	NM_006362	NP_006353	Q9UBU9	NXF1_HUMAN	nuclear RNA export factor 1 isoform 1	291	Interaction with THOC4.|LRR 1.				gene expression|interspecies interaction between organisms	cytosol|nuclear speck	nucleotide binding|protein binding			skin(3)	3						TCTTCAGGTTGGGTGCCTTCT	0.453													16	28	---	---	---	---	PASS	T	62568599	T	T	62568599	2	4	165	1	0	0	0	0	0	0	0	1	10782	1335	47	3		3	NXF1	11	62568599	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	2417941	62568599	72437917	362	59297										
SLC22A9	114571	broad.mit.edu	37	chr11	63175607	63175607	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgcagacgctgcgtgaggttTtggcaacactgggcttagga	15	8	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:63175607T>A	uc001nww.2	+	8	1580	c.1312T>A	c.(1312-1314)TTG>ATG	p.L438M	SLC22A9_uc001nwx.2_Intron	NM_080866	NP_543142	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion/cation	438	Helical; (Potential).				transmembrane transport	integral to membrane				breast(2)|large_intestine(1)	3						GCGTGAGGTTTTGGCAACACT	0.478													21	14	---	---	---	---	PASS	A	63175607	A	A	63175607	3	1	165	1	0	0	0	0	1	0	0	0	14461	1838	64	5	1342	5	SLC22A9	11	63175607	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	607008	63175607	71830909	363	59298										
P4HA3	283208	broad.mit.edu	37	chr11	74013462	74013462	+	Frame_Shift_Del	DEL	G	-	-													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtgagagaaaagagccgtttGgggctgtacaggtcagtgat							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:74013462delG	uc001ouz.2	-	3	562	c.519delC	c.(517-519)CCCfs	p.P173fs	P4HA3_uc001ouy.3_RNA|P4HA3_uc010rrj.1_Frame_Shift_Del_p.P173fs	NM_182904	NP_878907	Q7Z4N8	P4HA3_HUMAN	prolyl 4-hydroxylase, alpha III subunit	173						endoplasmic reticulum lumen	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			skin(1)	1	Breast(11;2.31e-05)					AGAGCCGTTTGGGGCTGTACA	0.512													94	79	---	---	---	---		-	74013462	-	-	74013462	7	5	165	1	0	1	0	1	0	0	0	0	11358	1335	47	0	1159	0	P4HA3	11	74013462	Frame_Shift_Del	DEL	G	TCGA-66-2787-01A-01D-0983-08	10837855	74013462	60993054	364	59299										
MOGAT2	80168	broad.mit.edu	37	chr11	75442217	75442217	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagaagacgctgcatccctcGgaggaggaggtgaaccagct	14	11	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:75442217G>A	uc010rru.1	+	6	891	c.891G>A	c.(889-891)TCG>TCA	p.S297S	MOGAT2_uc010rrv.1_Silent_p.S215S	NM_025098	NP_079374	Q3SYC2	MOGT2_HUMAN	monoacylglycerol O-acyltransferase 2	297					glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			ovary(2)	2	Ovarian(111;0.103)					TGCATCCCTCGGAGGAGGAGG	0.572													25	32	---	---	---	---	PASS	A	75442217	A	A	75442217	2	1	165	1	0	0	0	0	0	0	0	1	9695	1103	39	1		1	MOGAT2	11	75442217	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	1428755	75442217	59564299	365	59300										
GRM5	2915	broad.mit.edu	37	chr11	88338018	88338018	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	catcacagagtcctgcatagCctgggcagagggacatctgc	12	12	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:88338018C>A	uc001pcq.2	-	4	1462	c.1262G>T	c.(1261-1263)GGC>GTC	p.G421V	GRM5_uc009yvm.2_Missense_Mutation_p.G421V	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	421	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	TCCTGCATAGCCTGGGCAGAG	0.463													15	22	---	---	---	---	PASS	A	88338018	A	A	88338018	3	1	165	1	0	0	0	0	1	0	0	0	6800	739	26	3	2400	3	GRM5	11	88338018	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	12895801	88338018	46668498	366	59301										
NOX4	50507	broad.mit.edu	37	chr11	89059961	89059961	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tattgtattcaaatcttgtcCcatatgagttgttctggtta	7	6	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:89059961C>A	uc001pct.2	-	18	1939	c.1700G>T	c.(1699-1701)GGG>GTG	p.G567V	NOX4_uc009yvr.2_Missense_Mutation_p.G542V|NOX4_uc001pcu.2_Missense_Mutation_p.G493V|NOX4_uc001pcw.2_Missense_Mutation_p.G260V|NOX4_uc001pcx.2_Missense_Mutation_p.G220V|NOX4_uc001pcv.2_Missense_Mutation_p.G527V|NOX4_uc009yvo.2_RNA|NOX4_uc010rtu.1_Missense_Mutation_p.G380V|NOX4_uc009yvp.2_Missense_Mutation_p.G331V|NOX4_uc010rtv.1_Missense_Mutation_p.G503V|NOX4_uc009yvq.2_Missense_Mutation_p.G543V	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	567	Cytoplasmic (Potential).|Mediates interaction with TLR4.				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				AAATCTTGTCCCATATGAGTT	0.373													18	16	---	---	---	---	PASS	A	89059961	A	A	89059961	3	1	165	1	0	0	0	0	1	0	0	0	10558	623	22	3	40	3	NOX4	11	89059961	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	721943	89059961	45946555	367	59302										
MTNR1B	4544	broad.mit.edu	37	chr11	92715302	92715302	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atttcaacagctgcctgaatGccattgtctatgggctcttg	9	10	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:92715302G>A	uc001pdk.1	+	2	1016	c.913G>A	c.(913-915)GCC>ACC	p.A305T		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	305	Helical; Name=7; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	CTGCCTGAATGCCATTGTCTA	0.512													14	210	---	---	---	---	PASS	A	92715302	A	A	92715302	3	1	165	1	0	0	0	0	1	0	0	0	9952	1319	46	3	919	3	MTNR1B	11	92715302	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3655341	92715302	42291214	368	59303										
HEPHL1	341208	broad.mit.edu	37	chr11	93797542	93797542	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acggaatgatgtggatcgagAgtttgttataatgtttactc	11	4	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:93797542A>G	uc001pep.2	+	4	831	c.674A>G	c.(673-675)GAG>GGG	p.E225G		NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	225	Plastocyanin-like 2.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				GTGGATCGAGAGTTTGTTATA	0.378													10	32	---	---	---	---	PASS	G	93797542	G	G	93797542	3	3	165	1	0	0	0	0	1	0	0	0	7055	304	11	5	688	5	HEPHL1	11	93797542	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1082240	93797542	41208974	369	59304										
DYNC2H1	79659	broad.mit.edu	37	chr11	103325989	103325989	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagaacttttccatccagacAcatttcttaatgctcttcgc	4	13	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:103325989A>T	uc001pho.2	+	86	12676	c.12532A>T	c.(12532-12534)ACA>TCA	p.T4178S	DYNC2H1_uc001phn.1_Missense_Mutation_p.T4185S|DYNC2H1_uc009yxe.1_Missense_Mutation_p.T791S	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	4178					cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CCATCCAGACACATTTCTTAA	0.383													25	31	---	---	---	---	PASS	T	103325989	T	T	103325989	3	4	165	1	0	0	0	0	1	0	0	0	4846	159	6	5	12899	5	DYNC2H1	11	103325989	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	9528447	103325989	31680527	370	59305										
ZBTB16	7704	broad.mit.edu	37	chr11	114112921	114112921	+	Frame_Shift_Del	DEL	G	-	-													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccgtcttctgtctgctgtgtGggaagcgcttccaggcgcag							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:114112921delG	uc001pop.2	+	5	1750	c.1486delG	c.(1486-1488)GGGfs	p.G496fs	ZBTB16_uc001poq.2_Frame_Shift_Del_p.G496fs	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	496	C2H2-type 4.				apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		TCTGCTGTGTGGGAAGCGCTT	0.607													22	28	---	---	---	---		-	114112921	-	-	114112921	7	5	165	1	0	1	0	1	0	0	0	0	17523	1348	47	0	1500	0	ZBTB16	11	114112921	Frame_Shift_Del	DEL	G	TCGA-66-2787-01A-01D-0983-08	10786932	114112921	20893595	371	59306										
APOC3	345	broad.mit.edu	37	chr11	116703578	116703578	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttggaccctgaggtcagacCaacttcagccgtggctgcct	11	13	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:116703578C>A	uc001ppt.1	+	4	324	c.278C>A	c.(277-279)CCA>CAA	p.P93Q		NM_000040	NP_000031	P02656	APOC3_HUMAN	apolipoprotein C-III precursor	93	Lipid-binding.				Cdc42 protein signal transduction|cholesterol efflux|cholesterol homeostasis|chylomicron remnant clearance|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle remodeling|lipoprotein metabolic process|negative regulation of cholesterol import|negative regulation of fatty acid biosynthetic process|negative regulation of high-density lipoprotein particle clearance|negative regulation of lipoprotein lipase activity|negative regulation of low-density lipoprotein particle clearance|negative regulation of receptor-mediated endocytosis|negative regulation of triglyceride catabolic process|negative regulation of very-low-density lipoprotein particle clearance|negative regulation of very-low-density lipoprotein particle remodeling|phospholipid efflux|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle assembly	chylomicron|intermediate-density lipoprotein particle|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	high-density lipoprotein particle receptor binding|lipase inhibitor activity|phospholipid binding				0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		GAGGTCAGACCAACTTCAGCC	0.572													11	10	---	---	---	---	PASS	A	116703578	A	A	116703578	3	1	165	1	0	0	0	0	1	0	0	0	799	594	21	3	288	3	APOC3	11	116703578	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	2590657	116703578	18302938	372	59307										
MFRP	83552	broad.mit.edu	37	chr11	119215587	119215587	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggtgggaacacactcaccgcGcccaggggccatagcctggt	14	14	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:119215587G>T	uc001pwj.2	-	6	929	c.769C>A	c.(769-771)CGC>AGC	p.R257S	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Missense_Mutation_p.R257S	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		CACTCACCGCGCCCAGGGGCC	0.602													8	4	---	---	---	---	PASS	T	119215587	T	T	119215587	3	4	165	1	0	0	0	0	1	0	0	0	9526	1087	38	1	1002	1	MFRP	11	119215587	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2512009	119215587	15790929	373	59308										
UBASH3B	84959	broad.mit.edu	37	chr11	122678809	122678809	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	attgtggcccacgcatcttcCcttgaagcgtgtacctgcca	9	14	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:122678809C>A	uc001pyi.3	+	13	2097	c.1737C>A	c.(1735-1737)TCC>TCA	p.S579S		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	579	Protein tyrosine phosphatase (By similarity).					cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		ACGCATCTTCCCTTGAAGCGT	0.463													10	328	---	---	---	---	PASS	A	122678809	A	A	122678809	2	1	165	1	0	0	0	0	0	0	0	1	16837	610	22	3		3	UBASH3B	11	122678809	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	3463222	122678809	12327707	374	59309										
OR10G7	390265	broad.mit.edu	37	chr11	123909083	123909083	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acagcactatcaggacaaagCagcccgaggccactagccca	9	15	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:123909083C>A	uc001pzq.1	-	1	626	c.626G>T	c.(625-627)TGC>TTC	p.C209F		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	209	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		CAGGACAAAGCAGCCCGAGGC	0.562													37	41	---	---	---	---	PASS	A	123909083	A	A	123909083	3	1	165	1	0	0	0	0	1	0	0	0	10902	710	25	3	313	3	OR10G7	11	123909083	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1230274	123909083	11097433	375	59310										
OR8A1	390275	broad.mit.edu	37	chr11	124440836	124440836	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gacccaggagaatgtggcctCtgtgttctacaccacggtaa	11	11	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:124440836C>G	uc010san.1	+	1	872	c.872C>G	c.(871-873)TCT>TGT	p.S291C		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	291	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		AATGTGGCCTCTGTGTTCTAC	0.493													6	42	---	---	---	---	PASS	G	124440836	G	G	124440836	3	3	165	1	0	0	0	0	1	0	0	0	11225	913	32	2	874	2	OR8A1	11	124440836	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	531753	124440836	10565680	376	59311										
PANX3	116337	broad.mit.edu	37	chr11	124481592	124481592	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgtagctgtgggctccccctTgttgctgatgtccctggcat	12	13	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:124481592T>C	uc001qah.2	+	1	140	c.140T>C	c.(139-141)TTG>TCG	p.L47S		NM_052959	NP_443191	Q96QZ0	PANX3_HUMAN	pannexin 3	47	Helical; (Potential).				protein hexamerization	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0219)		GGCTCCCCCTTGTTGCTGATG	0.602													10	21	---	---	---	---	PASS	C	124481592	C	C	124481592	3	2	165	1	0	0	0	0	1	0	0	0	11422	1821	63	5	142	5	PANX3	11	124481592	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	40756	124481592	10524924	377	59312										
GLB1L2	89944	broad.mit.edu	37	chr11	134212647	134212647	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agaatgtctttgtctttccaGgctggactggagcaccctgg	12	10	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr11:134212647G>T	uc001qhp.2	+	2	275	c.87_splice	c.e2-1	p.R29_splice		NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor						carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		TGTCTTTCCAGGCTGGACTGG	0.637													10	10	---	---	---	---	PASS	T	134212647	T	T	134212647	5	4	165	1	0	0	0	0	0	0	1	0	6429	1014	35	3	92	3	GLB1L2	11	134212647	Splice_Site	SNP	G	TCGA-66-2787-01A-01D-0983-08	9731055	134212647	793869	378	59313										
IQSEC3	440073	broad.mit.edu	37	chr12	247987	247987	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	accctcatgatggctttccgGgacgtcacggtgcagatcgc	12	13	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:247987G>T	uc001qhw.1	+	1	555	c.549G>T	c.(547-549)CGG>CGT	p.R183R	IQSEC3_uc001qhu.1_Silent_p.R183R|IQSEC3_uc001qht.1_Silent_p.R268R|uc001qhv.1_Intron	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	486					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		TGGCTTTCCGGGACGTCACGG	0.567													7	7	---	---	---	---	PASS	T	247987	T	T	247987	2	4	165	1	0	0	0	0	0	0	0	1	7819	1219	43	3		3	IQSEC3	12	247987	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08		247987	133603908	379	59314										
SLC6A13	6540	broad.mit.edu	37	chr12	330116	330116	+	Nonstop_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	catccaagggcctgccccctAgcagtgagactctagctctg	10	15	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:330116A>G	uc001qic.1	-	15	1860	c.1807T>C	c.(1807-1809)TAG>CAG	p.*603Q	SLC6A13_uc009zdj.1_Nonstop_Mutation_p.*593Q|SLC6A13_uc010sdl.1_Nonstop_Mutation_p.*511Q	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	603					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			CCTGCCCCCTAGCAGTGAGAC	0.677													4	12	---	---	---	---	PASS	G	330116	G	G	330116	4	3	165	1	0	0	0	0	0	0	0	0	14676	433	15	5	5	5	SLC6A13	12	330116	Nonstop_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	82129	330116	133521779	380	59315										
LAG3	3902	broad.mit.edu	37	chr12	6884475	6884475	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcccttgacagtgtacgctgGagcaggttccagggtggggc	16	10	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:6884475G>T	uc001qqt.3	+	5	1167	c.818G>T	c.(817-819)GGA>GTA	p.G273V	LAG3_uc001qqs.2_Missense_Mutation_p.G273V|LAG3_uc001qqu.2_Missense_Mutation_p.G103V	NM_002286	NP_002277	P18627	LAG3_HUMAN	lymphocyte-activation protein 3 precursor	273	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane	antigen binding|MHC class II protein binding				0						GTGTACGCTGGAGCAGGTTCC	0.627													26	58	---	---	---	---	PASS	T	6884475	T	T	6884475	3	4	165	1	0	0	0	0	1	0	0	0	8600	1174	41	2	836	2	LAG3	12	6884475	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	6554359	6884475	126967420	381	59316										
TAS2R19	259294	broad.mit.edu	37	chr12	11174863	11174863	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcttgagcaaacaaaatatgCtgaggctagcagcaagccac	9	10	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:11174863C>A	uc010shj.1	-	1	308	c.308G>T	c.(307-309)AGC>ATC	p.S103I	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176888	NP_795369	P59542	T2R19_HUMAN	taste receptor, type 2, member 19	103	Helical; Name=3; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			skin(1)	1						ACAAAATATGCTGAGGCTAGC	0.408													24	72	---	---	---	---	PASS	A	11174863	A	A	11174863	3	1	165	1	0	0	0	0	1	0	0	0	15567	797	28	3	594	3	TAS2R19	12	11174863	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	4290388	11174863	122677032	382	59317										
PRB2	653247	broad.mit.edu	37	chr12	11546701	11546701	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gacttcgggacttgtctcctTgtgggggtggtccttgtggc	16	9	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:11546701T>A	uc010shk.1	-	3	346	c.311A>T	c.(310-312)CAA>CTA	p.Q104L		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			CTTGTCTCCTTGTGGGGGTGG	0.617													9	450	---	---	---	---	PASS	A	11546701	A	A	11546701	3	1	165	1	0	0	0	0	1	0	0	0	12443	1812	63	5	943	5	PRB2	12	11546701	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	371838	11546701	122305194	383	59318										
SLCO1B3	28234	broad.mit.edu	37	chr12	21069129	21069129	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttttgtaccttctgctggaaCagatagtaaaacatgtaatt	7	6	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:21069129C>G	uc001rek.2	+	15	2183	c.2057C>G	c.(2056-2058)ACA>AGA	p.T686R	SLCO1B3_uc001rel.2_Missense_Mutation_p.T686R|SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Intron	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	686	Cytoplasmic (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TCTGCTGGAACAGATAGTAAA	0.353													13	29	---	---	---	---	PASS	G	21069129	G	G	21069129	3	3	165	1	0	0	0	0	1	0	0	0	14724	478	17	4	2111	4	SLCO1B3	12	21069129	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	9522428	21069129	112782766	384	59319										
ITPR2	3709	broad.mit.edu	37	chr12	26775186	26775186	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atcttacctgcttaaatgccTgtaaaacctctgccctctgg	6	13	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:26775186T>C	uc001rhg.2	-	25	3692	c.3275A>G	c.(3274-3276)CAG>CGG	p.Q1092R		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1092	Cytoplasmic (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)					CTTAAATGCCTGTAAAACCTC	0.488													3	42	---	---	---	---	PASS	C	26775186	C	C	26775186	3	2	165	1	0	0	0	0	1	0	0	0	7921	1580	55	5	4962	5	ITPR2	12	26775186	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	5706057	26775186	107076709	385	59320										
CCDC91	55297	broad.mit.edu	37	chr12	28515395	28515395	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aacataaacaagaattggaaGacatgaggaaagctggtcac	10	6	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:28515395G>T	uc001riq.2	+	6	617	c.601G>T	c.(601-603)GAC>TAC	p.D201Y	CCDC91_uc001rio.2_Missense_Mutation_p.D171Y|CCDC91_uc009zjk.2_RNA|CCDC91_uc001rip.1_Missense_Mutation_p.D201Y|CCDC91_uc001rir.2_Missense_Mutation_p.D39Y|CCDC91_uc009zjl.2_Missense_Mutation_p.D39Y	NM_018318	NP_060788	Q7Z6B0	CCD91_HUMAN	GGA binding partner	201	Potential.				protein transport	Golgi apparatus|membrane				central_nervous_system(1)	1	Acute lymphoblastic leukemia(23;0.00718)|all_hematologic(23;0.0113)|Lung SC(9;0.184)					AGAATTGGAAGACATGAGGAA	0.303													6	4	---	---	---	---	PASS	T	28515395	T	T	28515395	3	4	165	1	0	0	0	0	1	0	0	0	2870	942	33	2	623	2	CCDC91	12	28515395	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1740209	28515395	105336500	386	59321										
ABCD2	225	broad.mit.edu	37	chr12	39967558	39967558	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tatagacagtaaggaaattcCagccccttttgcagcctgaa	8	10	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:39967558C>A	uc001rmb.2	-	9	2389	c.1963G>T	c.(1963-1965)GGA>TGA	p.G655*		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	655	ABC transporter.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						AAGGAAATTCCAGCCCCTTTT	0.368													10	67	---	---	---	---	PASS	A	39967558	A	A	39967558	4	1	165	1	0	0	0	0	0	1	0	0	61	603	21	3	267	3	ABCD2	12	39967558	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	11452163	39967558	93884337	387	59322										
CNTN1	1272	broad.mit.edu	37	chr12	41318436	41318436	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaatggtgcttctctgtgacCccccataccattttccaggt	8	13	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:41318436C>A	uc001rmm.1	+	6	591	c.478C>A	c.(478-480)CCC>ACC	p.P160T	CNTN1_uc009zjy.1_Missense_Mutation_p.P160T|CNTN1_uc001rmn.1_Missense_Mutation_p.P149T|CNTN1_uc001rmo.2_Missense_Mutation_p.P160T	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	160	Ig-like C2-type 2.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				TCTCTGTGACCCCCCATACCA	0.383													8	28	---	---	---	---	PASS	A	41318436	A	A	41318436	3	1	165	1	0	0	0	0	1	0	0	0	3640	623	22	3	496	3	CNTN1	12	41318436	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1350878	41318436	92533459	388	59323										
RPAP3	79657	broad.mit.edu	37	chr12	48090107	48090107	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgttcgttggcaacacgggaTtatatggatcggcatccatg	12	8	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:48090107T>G	uc001rpr.2	-	5	613	c.497A>C	c.(496-498)AAT>ACT	p.N166T	RPAP3_uc010slk.1_Missense_Mutation_p.N7T|RPAP3_uc001rps.2_Missense_Mutation_p.N166T	NM_024604	NP_078880	Q9H6T3	RPAP3_HUMAN	RNA polymerase II associated protein 3 isoform	166	TPR 2.						binding			ovary(1)	1	Lung SC(27;0.192)					CAACACGGGATTATATGGATC	0.358													17	50	---	---	---	---	PASS	G	48090107	G	G	48090107	3	3	165	1	0	0	0	0	1	0	0	0	13543	1493	52	5	1552	5	RPAP3	12	48090107	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	6771671	48090107	85761788	389	59324										
MCRS1	10445	broad.mit.edu	37	chr12	49952448	49952448	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	actgtggtgtgatcttggcaGcctcagccctgatgagggca	14	10	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:49952448G>T	uc001ruk.1	-	15	1558	c.1367C>A	c.(1366-1368)GCT>GAT	p.A456D	MCRS1_uc001rui.1_Missense_Mutation_p.A469D|MCRS1_uc001ruj.1_Missense_Mutation_p.A443D|MCRS1_uc001rul.1_Missense_Mutation_p.A456D|MCRS1_uc009zlj.1_Missense_Mutation_p.A265D|MCRS1_uc001rum.1_Missense_Mutation_p.A443D	NM_006337	NP_006328	Q96EZ8	MCRS1_HUMAN	microspherule protein 1 isoform 1	456					DNA recombination|DNA repair|protein modification process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|MLL1 complex|nucleolus	protein binding			large_intestine(1)	1						GATCTTGGCAGCCTCAGCCCT	0.602													22	30	---	---	---	---	PASS	T	49952448	T	T	49952448	3	4	165	1	0	0	0	0	1	0	0	0	9399	971	34	3	25	3	MCRS1	12	49952448	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1862341	49952448	83899447	390	59325										
KRT3	3850	broad.mit.edu	37	chr12	53189723	53189723	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cccctccgccagctcccccaGagtgggccacacagctcatc	8	21	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:53189723G>T	uc001say.2	-	1	170	c.104C>A	c.(103-105)TCT>TAT	p.S35Y		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	35	Gly-rich.|Head.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						AGCTCCCCCAGAGTGGGCCAC	0.647													10	25	---	---	---	---	PASS	T	53189723	T	T	53189723	3	4	165	1	0	0	0	0	1	0	0	0	8466	942	33	2	1818	2	KRT3	12	53189723	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3237275	53189723	80662172	391	59326										
EIF4B	1975	broad.mit.edu	37	chr12	53410353	53410353	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aagcacctatgtttccaaacCagtcagctgggctgatgaaa	9	10	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:53410353C>A	uc001sbh.3	+	2	316	c.110C>A	c.(109-111)CCA>CAA	p.P37Q	EIF4B_uc009zmp.1_RNA|EIF4B_uc010snu.1_Missense_Mutation_p.P37Q|EIF4B_uc010snv.1_Missense_Mutation_p.P37Q|EIF4B_uc001sbi.2_5'UTR	NM_001417	NP_001408	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	37					insulin receptor signaling pathway|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	nucleotide binding|translation initiation factor activity			breast(1)|kidney(1)	2						GTTTCCAAACCAGTCAGCTGG	0.423													7	54	---	---	---	---	PASS	A	53410353	A	A	53410353	3	1	165	1	0	0	0	0	1	0	0	0	5027	594	21	3	116	3	EIF4B	12	53410353	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	220630	53410353	80441542	392	59327										
NEUROD4	58158	broad.mit.edu	37	chr12	55421039	55421039	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aagcaagatgggtctcctgaCctagaaaaatcctacagctt	8	10	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:55421039C>A	uc001sgp.3	+	2	1194	c.816C>A	c.(814-816)GAC>GAA	p.D272E		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	272					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						GGTCTCCTGACCTAGAAAAAT	0.522													41	146	---	---	---	---	PASS	A	55421039	A	A	55421039	3	1	165	1	0	0	0	0	1	0	0	0	10350	506	18	3	818	3	NEUROD4	12	55421039	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	2010686	55421039	78430856	393	59328										
OR10P1	121130	broad.mit.edu	37	chr12	56031355	56031355	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccgcatcctgggtgccatccTagcaatggcctccacccaga	9	17	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:56031355T>C	uc010spq.1	+	1	680	c.680T>C	c.(679-681)CTA>CCA	p.L227P		NM_206899	NP_996782	Q8NGE3	O10P1_HUMAN	olfactory receptor, family 10, subfamily P,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						GGTGCCATCCTAGCAATGGCC	0.552													19	53	---	---	---	---	PASS	C	56031355	C	C	56031355	3	2	165	1	0	0	0	0	1	0	0	0	10915	1522	53	5	682	5	OR10P1	12	56031355	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	610316	56031355	77820540	394	59329										
KIF5A	3798	broad.mit.edu	37	chr12	57957891	57957891	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caaataccttcactcgccagGgaaagctgcacgaccctcag	8	15	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:57957891G>T	uc001sor.1	+	4	500	c.292G>T	c.(292-294)GGA>TGA	p.G98*	KIF5A_uc010srr.1_Intron	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	98	Kinesin-motor.				blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						CACTCGCCAGGGAAAGCTGCA	0.488													4	33	---	---	---	---	PASS	T	57957891	T	T	57957891	4	4	165	1	0	0	0	0	0	1	0	0	8305	1246	43	3	306	3	KIF5A	12	57957891	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1926536	57957891	75894004	395	59330										
CAND1	55832	broad.mit.edu	37	chr12	67700314	67700314	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atgttgttgctgaatgtctaGgaaaactcactctaattgat	8	6	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:67700314G>C	uc001stn.2	+	10	3303	c.2866G>C	c.(2866-2868)GGA>CGA	p.G956R	CAND1_uc001sto.2_Missense_Mutation_p.G466R	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	956	HEAT 22.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		TGAATGTCTAGGAAAACTCAC	0.393													17	35	---	---	---	---	PASS	C	67700314	C	C	67700314	3	2	165	1	0	0	0	0	1	0	0	0	2615	1001	35	4	2904	4	CAND1	12	67700314	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	9742423	67700314	66151581	396	59331										
RAB3IP	117177	broad.mit.edu	37	chr12	70150440	70150440	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaagaactcgcaaaagctcaGagggtaagaaagaagatatt	11	5	1	5			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:70150440G>T	uc001svp.2	+	3	1002	c.555G>T	c.(553-555)CAG>CAT	p.Q185H	RAB3IP_uc001svl.1_Missense_Mutation_p.Q169H|RAB3IP_uc001svm.2_Missense_Mutation_p.Q169H|RAB3IP_uc001svn.2_Missense_Mutation_p.Q169H|RAB3IP_uc001svo.2_RNA|RAB3IP_uc001svq.2_Missense_Mutation_p.Q185H|RAB3IP_uc001svr.2_RNA|RAB3IP_uc001svs.2_RNA	NM_175623	NP_783322	Q96QF0	RAB3I_HUMAN	RAB3A interacting protein isoform alpha 2	185	Potential.				cilium assembly|Golgi to plasma membrane transport|protein localization to organelle|protein transport	actin cortical patch|centrosome|cytosol|lamellipodium|microtubule basal body|nucleus	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Esophageal squamous(21;0.187)		Lung(24;0.000381)|OV - Ovarian serous cystadenocarcinoma(12;0.00168)|STAD - Stomach adenocarcinoma(21;0.00694)			CAAAAGCTCAGAGGGTAAGAA	0.373													8	57	---	---	---	---	PASS	T	70150440	T	T	70150440	3	4	165	1	0	0	0	0	1	0	0	0	12938	933	33	2	565	2	RAB3IP	12	70150440	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2450126	70150440	63701455	397	59332										
LGR5	8549	broad.mit.edu	37	chr12	71833879	71833879	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccatggacacctcccggctcGgtgtgctcctgtccttgcct	10	17	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:71833879G>C	uc001swl.2	+	1	67	c.19G>C	c.(19-21)GGT>CGT	p.G7R	TSPAN8_uc001swk.1_Intron|LGR5_uc001swm.2_Missense_Mutation_p.G7R|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	7						integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						CTCCCGGCTCGGTGTGCTCCT	0.711													4	9	---	---	---	---	PASS	C	71833879	C	C	71833879	3	2	165	1	0	0	0	0	1	0	0	0	8757	1116	39	4	21	4	LGR5	12	71833879	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1683439	71833879	62018016	398	59333										
TRHDE	29953	broad.mit.edu	37	chr12	72893378	72893378	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggaagtgctgcaggcaacagAtattgacagggtgtttgact	14	6	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:72893378A>T	uc001sxa.2	+	6	1580	c.1550A>T	c.(1549-1551)GAT>GTT	p.D517V		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	517	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						CAGGCAACAGATATTGACAGG	0.423													11	17	---	---	---	---	PASS	T	72893378	T	T	72893378	3	4	165	1	0	0	0	0	1	0	0	0	16476	333	12	5	1572	5	TRHDE	12	72893378	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1059499	72893378	60958517	399	59334										
NAV3	89795	broad.mit.edu	37	chr12	78513023	78513023	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttctccttaattagggaaaaCcgatgatgccaaagcttctg	8	9	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:78513023C>A	uc001syp.2	+	15	3220	c.3047C>A	c.(3046-3048)ACC>AAC	p.T1016N	NAV3_uc001syo.2_Missense_Mutation_p.T1016N|NAV3_uc010sub.1_Missense_Mutation_p.T516N|NAV3_uc009zsf.2_Missense_Mutation_p.T24N	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1016						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TTAGGGAAAACCGATGATGCC	0.388										HNSCC(70;0.22)			29	94	---	---	---	---	PASS	A	78513023	A	A	78513023	3	1	165	1	0	0	0	0	1	0	0	0	10185	507	18	3	3105	3	NAV3	12	78513023	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	5619645	78513023	55338872	400	59335										
MYF5	4617	broad.mit.edu	37	chr12	81112685	81112685	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atccagcttggattgcttatCcaacatagtggaccggatca	9	10	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:81112685C>G	uc001szg.2	+	3	758	c.623C>G	c.(622-624)TCC>TGC	p.S208C		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	208					muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GATTGCTTATCCAACATAGTG	0.453													18	53	---	---	---	---	PASS	G	81112685	G	G	81112685	3	3	165	1	0	0	0	0	1	0	0	0	10027	855	30	2	633	2	MYF5	12	81112685	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	2599662	81112685	52739210	401	59336										
SLC6A15	55117	broad.mit.edu	37	chr12	85255584	85255584	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttttccgtgaatgaggcttgTatcatcgccctctaagttca	8	10	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:85255584T>A	uc001szv.2	-	12	2513	c.2020A>T	c.(2020-2022)ACA>TCA	p.T674S	SLC6A15_uc010sul.1_Missense_Mutation_p.T567S|SLC6A15_uc001szw.1_3'UTR	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	674	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						ATGAGGCTTGTATCATCGCCC	0.423													18	60	---	---	---	---	PASS	A	85255584	A	A	85255584	3	1	165	1	0	0	0	0	1	0	0	0	14678	1638	57	5	176	5	SLC6A15	12	85255584	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	4142899	85255584	48596311	402	59337										
ALX1	8092	broad.mit.edu	37	chr12	85674127	85674127	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcgcaggaggtcctctggagCacgttatggagacgctggac	16	10	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:85674127C>T	uc001tae.3	+	1	92	c.88C>T	c.(88-90)CAC>TAC	p.H30Y		NM_006982	NP_008913	Q15699	ALX1_HUMAN	cartilage paired-class homeoprotein 1	30					brain development|cartilage condensation|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(134;0.134)		TCCTCTGGAGCACGTTATGGA	0.552													9	56	---	---	---	---	PASS	T	85674127	T	T	85674127	3	4	165	1	0	0	0	0	1	0	0	0	556	710	25	3	90	3	ALX1	12	85674127	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	418543	85674127	48177768	403	59338										
SLC25A3	5250	broad.mit.edu	37	chr12	98989309	98989309	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cacatacagcattggttcctCtagatctggttaaatgcaga	8	9	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:98989309C>A	uc001tfo.2	+	3	376	c.256C>A	c.(256-258)CTA>ATA	p.L86I	SLC25A3_uc001tfm.2_Intron|SLC25A3_uc001tfn.2_Intron|SLC25A3_uc001tfp.2_Intron|SLC25A3_uc001tfq.2_5'UTR|SLC25A3_uc001tfr.2_Missense_Mutation_p.L86I|SLC25A3_uc001tfs.2_5'UTR|SLC25A3_uc009ztn.2_Intron|SLC25A3_uc001tft.2_Intron	NM_005888	NP_005879	Q00325	MPCP_HUMAN	solute carrier family 25 member 3 isoform a	86	Helical; Name=1; (Potential).|Solcar 1.				generation of precursor metabolites and energy	integral to plasma membrane|mitochondrial inner membrane	phosphate carrier activity|symporter activity				0		Lung NSC(355;4.08e-05)|Breast(359;0.00191)|Colorectal(145;0.00205)|Myeloproliferative disorder(1001;0.0255)		GBM - Glioblastoma multiforme(134;1.36e-23)|BRCA - Breast invasive adenocarcinoma(302;0.000115)		ATTGGTTCCTCTAGATCTGGT	0.398													5	67	---	---	---	---	PASS	A	98989309	A	A	98989309	3	1	165	1	0	0	0	0	1	0	0	0	14493	912	32	2	262	2	SLC25A3	12	98989309	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	13315182	98989309	34862586	404	59339										
SCYL2	55681	broad.mit.edu	37	chr12	100732317	100732317	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atttttcagactaaggacttGacagacacactgatggataa	8	7	1	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:100732317G>A	uc001thn.2	+	18	2207	c.2157G>A	c.(2155-2157)TTG>TTA	p.L719L		NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein	719	Necessary for interaction with AP2 complex and clathrin, interaction with clathrin is necessary for its targeting to the TGN and endosomal membranes.				endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						CTAAGGACTTGACAGACACAC	0.323													17	35	---	---	---	---	PASS	A	100732317	A	A	100732317	2	1	165	1	0	0	0	0	0	0	0	1	13948	1281	45	2		2	SCYL2	12	100732317	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	1743008	100732317	33119578	405	59340										
SLC17A8	246213	broad.mit.edu	37	chr12	100806574	100806574	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcatggaggcaaccttactcCtggtggttggcttttcgcat	12	10	0	0	rs138338989		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:100806574C>A	uc010svi.1	+	10	1526	c.1213C>A	c.(1213-1215)CTG>ATG	p.L405M	SLC17A8_uc009ztx.2_Missense_Mutation_p.L355M	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	405	Helical; (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						AACCTTACTCCTGGTGGTTGG	0.423													11	53	---	---	---	---	PASS	A	100806574	A	A	100806574	3	1	165	1	0	0	0	0	1	0	0	0	14423	680	24	3	1251	3	SLC17A8	12	100806574	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	74257	100806574	33045321	406	59341										
NUP37	79023	broad.mit.edu	37	chr12	102468805	102468805	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtgtcctaaatgatgaatttGaaactggcttgccattttgc	9	7	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:102468805G>T	uc001tjc.2	-	8	906	c.841C>A	c.(841-843)CAA>AAA	p.Q281K		NM_024057	NP_076962	Q8NFH4	NUP37_HUMAN	nucleoporin 37kDa	281					carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			ovary(1)	1						TGATGAATTTGAAACTGGCTT	0.348													15	26	---	---	---	---	PASS	T	102468805	T	T	102468805	3	4	165	1	0	0	0	0	1	0	0	0	10764	1299	45	2	147	2	NUP37	12	102468805	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1662231	102468805	31383090	407	59342										
RNFT2	84900	broad.mit.edu	37	chr12	117287248	117287248	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgtccgcacacttccaggtgTactaggaccgaacactgagg	11	13	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:117287248T>C	uc009zwn.2	+	11	1563	c.1330T>C	c.(1330-1332)TAC>CAC	p.Y444H	RNFT2_uc001twb.3_Intron|RNFT2_uc001twa.3_Intron|RNFT2_uc001twc.3_Missense_Mutation_p.Y192H|RNFT2_uc001twd.2_5'Flank	NM_001109903	NP_001103373	Q96EX2	RNFT2_HUMAN	transmembrane protein 118 isoform 1	444	Extracellular (Potential).					integral to membrane	zinc ion binding				0	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.034)		CTTCCAGGTGTACTAGGACCG	0.667													5	6	---	---	---	---	PASS	C	117287248	C	C	117287248	3	2	165	1	0	0	0	0	1	0	0	0	13502	1638	57	5	1368	5	RNFT2	12	117287248	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	14818443	117287248	16564647	408	59343										
NOS1	4842	broad.mit.edu	37	chr12	117672400	117672400	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gttccgctcctccagcagttCcactttcaccatctggttga	7	15	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:117672400C>A	uc001twm.1	-	21	3891	c.3205G>T	c.(3205-3207)GAA>TAA	p.E1069*		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1069	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	TCCAGCAGTTCCACTTTCACC	0.607													8	30	---	---	---	---	PASS	A	117672400	A	A	117672400	4	1	165	1	0	0	0	0	0	1	0	0	10541	864	30	2	1135	2	NOS1	12	117672400	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	385152	117672400	16179495	409	59344										
SLC15A4	121260	broad.mit.edu	37	chr12	129299466	129299466	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	accacaaaagcaaggccgacGcagacagtggggatcgcata	12	11	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:129299466G>T	uc001uhu.2	-	2	749	c.696C>A	c.(694-696)TGC>TGA	p.C232*	SLC15A4_uc001uhv.2_RNA|MGC16384_uc001uhw.2_5'Flank	NM_145648	NP_663623	Q8N697	S15A4_HUMAN	solute carrier family 15, member 4	232	Helical; (Potential).				oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.69e-06)|Epithelial(86;1.17e-05)|all cancers(50;5.07e-05)		CAAGGCCGACGCAGACAGTGG	0.517													31	81	---	---	---	---	PASS	T	129299466	T	T	129299466	4	4	165	1	0	0	0	0	0	1	0	0	14401	1079	38	1	1065	1	SLC15A4	12	129299466	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	11627066	129299466	4552429	410	59345										
TMEM132D	121256	broad.mit.edu	37	chr12	129569127	129569127	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gatctgcagcggaagccgggGcacccacaccgtcatctcca	11	16	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:129569127G>A	uc009zyl.1	-	6	1892	c.1564C>T	c.(1564-1566)CCC>TCC	p.P522S	TMEM132D_uc001uia.2_Missense_Mutation_p.P60S	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	522	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GGAAGCCGGGGCACCCACACC	0.577													6	20	---	---	---	---	PASS	A	129569127	A	A	129569127	3	1	165	1	0	0	0	0	1	0	0	0	16044	1203	42	3	1751	3	TMEM132D	12	129569127	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	269661	129569127	4282768	411	59346										
TMEM132D	121256	broad.mit.edu	37	chr12	129822289	129822289	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gacctgccacgtgaccagctGtgtggctggcaggtcaccag	14	13	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr12:129822289G>C	uc009zyl.1	-	4	1517	c.1189C>G	c.(1189-1191)CAG>GAG	p.Q397E		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	397	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GTGACCAGCTGTGTGGCTGGC	0.572													16	91	---	---	---	---	PASS	C	129822289	C	C	129822289	3	2	165	1	0	0	0	0	1	0	0	0	16044	1386	48	4	2134	4	TMEM132D	12	129822289	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	253162	129822289	4029606	412	59347										
PABPC3	5042	broad.mit.edu	37	chr13	25671601	25671601	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atactatcctcctagccaaaTtgctcgactaagaccaagtc	5	13	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr13:25671601T>C	uc001upy.2	+	1	1326	c.1265T>C	c.(1264-1266)ATT>ACT	p.I422T		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	422					mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		CCTAGCCAAATTGCTCGACTA	0.537													48	98	---	---	---	---	PASS	C	25671601	C	C	25671601	3	2	165	1	0	0	0	0	1	0	0	0	11365	1493	52	5	1267	5	PABPC3	13	25671601	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08		25671601	89498277	413	59348										
BRCA2	675	broad.mit.edu	37	chr13	32911471	32911471	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aatgattacatgaacaaatgGgcaggactcttaggtccaat	9	7	1	2	rs80358544		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr13:32911471G>C	uc001uub.1	+	11	3206	c.2979G>C	c.(2977-2979)TGG>TGC	p.W993C		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	993	Interaction with NPM1.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TGAACAAATGGGCAGGACTCT	0.333			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			18	32	---	---	---	---	PASS	C	32911471	C	C	32911471	3	2	165	1	0	0	0	0	1	0	0	0	1499	1241	43	4	3017	4	BRCA2	13	32911471	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	7239870	32911471	82258407	414	59349										
HTR2A	3356	broad.mit.edu	37	chr13	47409740	47409740	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttaaagaccttcgaatcgtcCtgtagcccaaagactggtat	8	10	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr13:47409740C>A	uc001vbq.2	-	3	782	c.648G>T	c.(646-648)CAG>CAT	p.Q216H	HTR2A_uc001vbr.2_Missense_Mutation_p.Q116H|HTR2A_uc010acr.2_Missense_Mutation_p.Q216H	NM_000621	NP_000612	P28223	5HT2A_HUMAN	5-hydroxytryptamine receptor 2A isoform 1	216	Extracellular (By similarity).				ERK1 and ERK2 cascade|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	integral to plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|serotonin binding|serotonin receptor activity			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		all_lung(13;7.2e-10)|Lung NSC(96;3.77e-07)|Breast(56;2.06e-05)|Prostate(109;0.00116)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Myeloproliferative disorder(33;0.0333)		GBM - Glioblastoma multiforme(144;4.67e-05)|COAD - Colon adenocarcinoma(199;0.224)	Aripiprazole(DB01238)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cisapride(DB00604)|Clomipramine(DB01242)|Clozapine(DB00363)|Cyclobenzaprine(DB00924)|Cyproheptadine(DB00434)|Dihydroergotamine(DB00320)|Donepezil(DB00843)|Epinastine(DB00751)|Ergotamine(DB00696)|Fluvoxamine(DB00176)|Mesoridazine(DB00933)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Olanzapine(DB00334)|Paliperidone(DB01267)|Paroxetine(DB00715)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TCGAATCGTCCTGTAGCCCAA	0.403													6	44	---	---	---	---	PASS	A	47409740	A	A	47409740	3	1	165	1	0	0	0	0	1	0	0	0	7441	680	24	3	771	3	HTR2A	13	47409740	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	14498269	47409740	67760138	415	59350										
PCDH8	5100	broad.mit.edu	37	chr13	53422133	53422133	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcgcgtgcccactgccgcacCctcggacacctctaccggga	11	19	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr13:53422133C>A	uc001vhi.2	-	1	642	c.439G>T	c.(439-441)GGT>TGT	p.G147C	PCDH8_uc001vhj.2_Missense_Mutation_p.G147C	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	147	Extracellular (Potential).|Cadherin 2.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		ACTGCCGCACCCTCGGACACC	0.716													10	6	---	---	---	---	PASS	A	53422133	A	A	53422133	3	1	165	1	0	0	0	0	1	0	0	0	11517	623	22	3	2785	3	PCDH8	13	53422133	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	6012393	53422133	61747745	416	59351										
DOCK9	23348	broad.mit.edu	37	chr13	99489835	99489835	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcttcaagtaatgactggtgCagaacatctgcgtccgagtg	12	9	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr13:99489835C>A	uc001vnt.2	-	39	4216	c.4161G>T	c.(4159-4161)CTG>CTT	p.L1387L	DOCK9_uc001vnw.2_Silent_p.L1386L|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Silent_p.L1387L|DOCK9_uc001vnq.2_5'UTR|DOCK9_uc001vnr.2_Silent_p.L30L|DOCK9_uc010tin.1_Silent_p.L30L|DOCK9_uc001vns.2_5'UTR|DOCK9_uc010tio.1_Silent_p.L79L|DOCK9_uc010tip.1_Silent_p.L97L|DOCK9_uc001vnu.1_5'UTR|DOCK9_uc010tiq.1_Silent_p.L365L	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1387					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					ATGACTGGTGCAGAACATCTG	0.478													10	21	---	---	---	---	PASS	A	99489835	A	A	99489835	2	1	165	1	0	0	0	0	0	0	0	1	4694	697	25	3		3	DOCK9	13	99489835	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	46067702	99489835	15680043	417	59352										
BIVM	54841	broad.mit.edu	37	chr13	103492203	103492203	+	Missense_Mutation	SNP	T	A	A													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagggttacagtgattacgaTgggaatgattgactatgctt							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr13:103492203T>A	uc001vps.2	+	11	2179	c.1500T>A	c.(1498-1500)GAT>GAA	p.D500E	BIVM_uc010agc.2_Missense_Mutation_p.D278E|ERCC5_uc001vpu.1_Intron|BIVM_uc001vpv.2_Missense_Mutation_p.D271E	NM_017693	NP_060163	Q86UB2	BIVM_HUMAN	basic, immunoglobulin-like variable motif	500						cytoplasm|nucleus					0	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					GTGATTACGATGGGAATGATT	0.403													29	59	---	---	---	---	PASS	A	103492203	A	A	103492203	3	1	165	1	0	0	0	0	1	0	0	0	1441	1461	51	5	1555	5	BIVM	13	103492203	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	4002368	103492203	11677675	418	59353	1047	2								
BIVM	54841	broad.mit.edu	37	chr13	103492204	103492204	+	Missense_Mutation	SNP	G	T	T													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agggttacagtgattacgatGggaatgattgactatgcttg							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr13:103492204G>T	uc001vps.2	+	11	2180	c.1501G>T	c.(1501-1503)GGG>TGG	p.G501W	BIVM_uc010agc.2_Missense_Mutation_p.G279W|ERCC5_uc001vpu.1_Intron|BIVM_uc001vpv.2_Missense_Mutation_p.G272W	NM_017693	NP_060163	Q86UB2	BIVM_HUMAN	basic, immunoglobulin-like variable motif	501						cytoplasm|nucleus					0	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					TGATTACGATGGGAATGATTG	0.403													30	57	---	---	---	---	PASS	T	103492204	T	T	103492204	3	4	165	1	0	0	0	0	1	0	0	0	1441	1348	47	3	1556	3	BIVM	13	103492204	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1	103492204	11677674	419	59354	1047	2								
ABHD13	84945	broad.mit.edu	37	chr13	108882199	108882199	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaaaattcacataggatttcAgccattatggtggagaacac	9	7	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr13:108882199A>C	uc001vqq.2	+	2	898	c.633A>C	c.(631-633)TCA>TCC	p.S211S		NM_032859	NP_116248	Q7L211	ABHDD_HUMAN	abhydrolase domain containing 13	211						integral to membrane	hydrolase activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					ATAGGATTTCAGCCATTATGG	0.388													17	16	---	---	---	---	PASS	C	108882199	C	C	108882199	2	2	165	1	0	0	0	0	0	0	0	1	78	175	7	5		5	ABHD13	13	108882199	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	5389995	108882199	6287679	420	59355										
RASA3	22821	broad.mit.edu	37	chr13	114784270	114784270	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagacttcaacagcaggtccCgcagagggctgtaatagtca	11	11	2	2	rs151265782		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr13:114784270C>A	uc001vui.2	-	10	1042	c.911G>T	c.(910-912)CGG>CTG	p.R304L	RASA3_uc010tkk.1_Missense_Mutation_p.R272L|RASA3_uc001vuj.2_5'UTR|RASA3_uc010tkl.1_RNA	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	304					intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			CAGCAGGTCCCGCAGAGGGCT	0.612													15	15	---	---	---	---	PASS	A	114784270	A	A	114784270	3	1	165	1	0	0	0	0	1	0	0	0	13062	652	23	1	1653	1	RASA3	13	114784270	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	5902071	114784270	385608	421	59356										
OXA1L	5018	broad.mit.edu	37	chr14	23239049	23239049	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cctctcatcgtgacgggccaGcgagaggcagccaggatcca	13	14	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:23239049G>C	uc001wgn.2	+	4	669	c.669G>C	c.(667-669)CAG>CAC	p.Q223H	OXA1L_uc001wgo.2_RNA|OXA1L_uc010akc.2_Missense_Mutation_p.Q223H|OXA1L_uc001wgp.2_Missense_Mutation_p.Q147H|OXA1L_uc001wgq.2_5'UTR	NM_005015	NP_005006	Q15070	OXA1L_HUMAN	oxidase (cytochrome c) assembly 1-like	163	Mitochondrial intermembrane (Potential).				aerobic respiration|mitochondrial proton-transporting ATP synthase complex assembly|mitochondrial respiratory chain complex I assembly|negative regulation of ATPase activity|negative regulation of oxidoreductase activity|protein insertion into membrane|protein tetramerization	integral to mitochondrial membrane|mitochondrial respiratory chain|protein complex	protein homodimerization activity|ribosome binding			central_nervous_system(1)	1	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.0096)		TGACGGGCCAGCGAGAGGCAG	0.483													13	428	---	---	---	---	PASS	C	23239049	C	C	23239049	3	2	165	1	0	0	0	0	1	0	0	0	11328	962	34	4	683	4	OXA1L	14	23239049	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08		23239049	84110491	422	59357										
HOMEZ	57594	broad.mit.edu	37	chr14	23745067	23745067	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtatatccggtgggggtggaGggatcggcagaggtggtgtc	21	5	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:23745067G>C	uc001wja.2	-	2	1518	c.1370C>G	c.(1369-1371)CCT>CGT	p.P457R	HOMEZ_uc001wjb.2_Missense_Mutation_p.P459R	NM_020834	NP_065885	Q8IX15	HOMEZ_HUMAN	homeodomain leucine zipper protein	457	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		TGGGGGTGGAGGGATCGGCAG	0.557													5	18	---	---	---	---	PASS	C	23745067	C	C	23745067	3	2	165	1	0	0	0	0	1	0	0	0	7281	1000	35	4	286	4	HOMEZ	14	23745067	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	506018	23745067	83604473	423	59358										
DHRS4L1	728635	broad.mit.edu	37	chr14	24517437	24517437	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagaaatggagaaacgagggTacagagagtgagagagagcc	16	5	0	5			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:24517437T>A	uc010alc.2	+	6	488	c.488_splice	c.e6+2	p.G163_splice	DHRS4L1_uc010tnu.1_RNA	NM_001082488	NP_001075957	P0CG22	DR4L1_HUMAN	dehydrogenase/reductase (SDR family) member 4								binding|oxidoreductase activity				0						GAAACGAGGGTACAGAGAGTG	0.527													7	35	---	---	---	---	PASS	A	24517437	A	A	24517437	5	1	165	1	0	0	0	0	0	0	1	0	4493	1652	57	5	512	5	DHRS4L1	14	24517437	Splice_Site	SNP	T	TCGA-66-2787-01A-01D-0983-08	772370	24517437	82832103	424	59359										
G2E3	55632	broad.mit.edu	37	chr14	31055950	31055950	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttttctgtcgaaaacatgatGactgtcctaataaatacgga	7	7	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:31055950G>A	uc001wqk.2	+	3	218	c.64G>A	c.(64-66)GAC>AAC	p.D22N	G2E3_uc010tpe.1_5'UTR|G2E3_uc010tpf.1_5'UTR	NM_017769	NP_060239	Q7L622	G2E3_HUMAN	G2/M-phase specific E3 ubiquitin ligase	22					apoptosis|multicellular organismal development|protein modification process	Golgi apparatus|nucleolus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						AAAACATGATGACTGTCCTAA	0.274													6	19	---	---	---	---	PASS	A	31055950	A	A	31055950	3	1	165	1	0	0	0	0	1	0	0	0	6140	1290	45	2	70	2	G2E3	14	31055950	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	6538513	31055950	76293590	425	59360										
SEC23A	10484	broad.mit.edu	37	chr14	39514366	39514366	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atttttttctgtccctcttaCctctggtggtccactaaaag	6	11	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:39514366C>A	uc001wup.1	-	16	2122	c.1899_splice	c.e16+1	p.E633_splice	SEC23A_uc010tqa.1_Splice_Site_p.E519_splice|SEC23A_uc010tqb.1_Splice_Site_p.E604_splice	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A						COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		GTCCCTCTTACCTCTGGTGGT	0.333													7	37	---	---	---	---	PASS	A	39514366	A	A	39514366	5	1	165	1	0	0	0	0	0	0	1	0	13991	521	18	3	417	3	SEC23A	14	39514366	Splice_Site	SNP	C	TCGA-66-2787-01A-01D-0983-08	8458416	39514366	67835174	426	59361										
FSCB	84075	broad.mit.edu	37	chr14	44975700	44975700	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctggcctggaaataaccactAtttctgattcactaaagtat	6	9	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:44975700A>G	uc001wvn.2	-	1	800	c.491T>C	c.(490-492)ATA>ACA	p.I164T		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	164						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		AATAACCACTATTTCTGATTC	0.428													15	75	---	---	---	---	PASS	G	44975700	G	G	44975700	3	3	165	1	0	0	0	0	1	0	0	0	6066	449	16	5	1990	5	FSCB	14	44975700	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	5461334	44975700	62373840	427	59362										
C14orf106	55320	broad.mit.edu	37	chr14	45687519	45687519	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaattggctggcttcttcttAgtgacatgtttctgggatcc	11	8	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:45687519A>G	uc001wwf.2	-	12	3267	c.2808T>C	c.(2806-2808)ACT>ACC	p.T936T		NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	936					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						GCTTCTTCTTAGTGACATGTT	0.428													4	37	---	---	---	---	PASS	G	45687519	G	G	45687519	2	3	165	1	0	0	0	0	0	0	0	1	1738	407	15	5		5	C14orf106	14	45687519	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	711819	45687519	61662021	428	59363										
MDGA2	161357	broad.mit.edu	37	chr14	47530539	47530539	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acatgtgtacgtcccaaaatCcgtgaattttaaatcaatga	6	8	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:47530539C>A	uc001wwj.3	-	7	1427	c.1231G>T	c.(1231-1233)GAT>TAT	p.D411Y	MDGA2_uc001wwi.3_Missense_Mutation_p.D182Y|MDGA2_uc010ani.2_5'UTR	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	411	Ig-like 4.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						GTCCCAAAATCCGTGAATTTT	0.418													19	66	---	---	---	---	PASS	A	47530539	A	A	47530539	3	1	165	1	0	0	0	0	1	0	0	0	9407	855	30	2	1683	2	MDGA2	14	47530539	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1843020	47530539	59819001	429	59364										
NIN	51199	broad.mit.edu	37	chr14	51223968	51223968	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctcagctcttcctgaaggcaGtcattttctcggctcacatc	7	14	5	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:51223968G>T	uc001wym.2	-	18	3971	c.3780C>A	c.(3778-3780)GAC>GAA	p.D1260E	NIN_uc001wyi.2_Missense_Mutation_p.D1260E|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Intron|NIN_uc010tqp.1_Missense_Mutation_p.D1266E|NIN_uc001wyo.2_Missense_Mutation_p.D1260E	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1260	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CCTGAAGGCAGTCATTTTCTC	0.433			T	PDGFRB	MPD								12	77	---	---	---	---	PASS	T	51223968	T	T	51223968	3	4	165	1	0	0	0	0	1	0	0	0	10417	1020	36	3	2825	3	NIN	14	51223968	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3693429	51223968	56125572	430	59365										
NID2	22795	broad.mit.edu	37	chr14	52520461	52520461	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctggccctccatctgggtagGgctggatgcttccgttttcg	13	12	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:52520461G>T	uc001wzo.2	-	5	1499	c.1265C>A	c.(1264-1266)CCC>CAC	p.P422H	NID2_uc010tqs.1_Missense_Mutation_p.P422H|NID2_uc010tqt.1_Missense_Mutation_p.P422H|NID2_uc001wzp.2_Missense_Mutation_p.P422H	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	422						basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					ATCTGGGTAGGGCTGGATGCT	0.547													7	34	---	---	---	---	PASS	T	52520461	T	T	52520461	3	4	165	1	0	0	0	0	1	0	0	0	10415	1232	43	3	2934	3	NID2	14	52520461	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1296493	52520461	54829079	431	59366										
SLC10A1	6554	broad.mit.edu	37	chr14	70245071	70245071	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cttgggagtcttgaatttctCatagcaccaaaatatggcaa	8	8	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:70245071C>A	uc001xlr.2	-	4	1056	c.922G>T	c.(922-924)GAG>TAG	p.E308*		NM_003049	NP_003040	Q14973	NTCP_HUMAN	solute carrier family 10, member 1	308					bile acid metabolic process|organic anion transport	integral to plasma membrane	bile acid:sodium symporter activity			ovary(1)	1				all cancers(60;0.00228)|BRCA - Breast invasive adenocarcinoma(234;0.0137)|OV - Ovarian serous cystadenocarcinoma(108;0.0226)		TTGAATTTCTCATAGCACCAA	0.448													6	118	---	---	---	---	PASS	A	70245071	A	A	70245071	4	1	165	1	0	0	0	0	0	1	0	0	14373	835	29	2	135	2	SLC10A1	14	70245071	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	17724610	70245071	37104469	432	59367										
RGS6	9628	broad.mit.edu	37	chr14	72944990	72944990	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcccagataacatttttgaaCgcacagatcgacagacattg	7	10	0	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:72944990C>A	uc001xna.3	+	12	1330	c.807C>A	c.(805-807)AAC>AAA	p.N269K	RGS6_uc010ttn.1_Missense_Mutation_p.N269K|RGS6_uc001xmx.3_Missense_Mutation_p.N269K|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.N269K|RGS6_uc010ttp.1_Missense_Mutation_p.N200K|RGS6_uc001xmz.1_Missense_Mutation_p.N130K	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	269	G protein gamma.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		CATTTTTGAACGCACAGATCG	0.343													5	20	---	---	---	---	PASS	A	72944990	A	A	72944990	3	1	165	1	0	0	0	0	1	0	0	0	13309	535	19	1	849	1	RGS6	14	72944990	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	2699919	72944990	34404550	433	59368										
PROX2	283571	broad.mit.edu	37	chr14	75329286	75329286	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agcatgcaggcctctctgttCcatcttcaccgagggaagaa	10	12	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:75329286C>T	uc001xqr.1	-	1	1252	c.1252G>A	c.(1252-1254)GAA>AAA	p.E418K	PROX2_uc001xqq.1_Intron	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2	418					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		CCTCTCTGTTCCATCTTCACC	0.468													7	60	---	---	---	---	PASS	T	75329286	T	T	75329286	3	4	165	1	0	0	0	0	1	0	0	0	12561	864	30	2	542	2	PROX2	14	75329286	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	2384296	75329286	32020254	434	59369										
C14orf145	145508	broad.mit.edu	37	chr14	80993276	80993276	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgaagagaatttctgcgaacCctgtatttggaatatcttcc	8	8	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:80993276C>A	uc001xux.2	-	22	3180	c.3009G>T	c.(3007-3009)AGG>AGT	p.R1003S	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	1003						centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TTCTGCGAACCCTGTATTTGG	0.348													7	19	---	---	---	---	PASS	A	80993276	A	A	80993276	3	1	165	1	0	0	0	0	1	0	0	0	1749	622	22	3	287	3	C14orf145	14	80993276	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	5663990	80993276	26356264	435	59370										
TRIP11	9321	broad.mit.edu	37	chr14	92488010	92488010	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atcaccaaagtccatgtcatCgtcatggaaagctgaaggat	9	9	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:92488010C>T	uc001xzy.2	-	4	1266	c.478G>A	c.(478-480)GAT>AAT	p.D160N		NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	160	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		TCCATGTCATCGTCATGGAAA	0.438			T	PDGFRB	AML								15	25	---	---	---	---	PASS	T	92488010	T	T	92488010	3	4	165	1	0	0	0	0	1	0	0	0	16552	884	31	2	5533	2	TRIP11	14	92488010	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	11494734	92488010	14861530	436	59371										
ATG2B	55102	broad.mit.edu	37	chr14	96775918	96775918	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaccacgtgaggatgatcgaCcactggaatctacctatagc	10	11	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:96775918C>A	uc001yfi.2	-	29	4540	c.4175G>T	c.(4174-4176)GGT>GTT	p.G1392V		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1392										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)		GGATGATCGACCACTGGAATC	0.368													8	45	---	---	---	---	PASS	A	96775918	A	A	96775918	3	1	165	1	0	0	0	0	1	0	0	0	1094	507	18	3	2117	3	ATG2B	14	96775918	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	4287908	96775918	10573622	437	59372										
RAGE	5891	broad.mit.edu	37	chr14	102698904	102698904	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aagtaggggtgctgcagggcCtggtgggcggcgattctctc	18	9	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr14:102698904C>A	uc001ylm.2	-	9	1060	c.834G>T	c.(832-834)CAG>CAT	p.Q278H	RAGE_uc010txv.1_Missense_Mutation_p.Q248H|RAGE_uc001yln.2_Missense_Mutation_p.Q96H|RAGE_uc001ylh.2_RNA|RAGE_uc001yli.2_RNA|RAGE_uc001yll.2_RNA|RAGE_uc001ylj.2_RNA|RAGE_uc001ylk.2_RNA	NM_014226	NP_055041	Q9UQ07	MOK_HUMAN	MAPK/MAK/MRK overlapping kinase	278	Protein kinase.				signal transduction	Golgi apparatus	ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						GCTGCAGGGCCTGGTGGGCGG	0.572													22	44	---	---	---	---	PASS	A	102698904	A	A	102698904	3	1	165	1	0	0	0	0	1	0	0	0	13006	680	24	3	441	3	RAGE	14	102698904	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	5922986	102698904	4650636	438	59373										
NIPA1	123606	broad.mit.edu	37	chr15	23048951	23048951	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acaggccatccccaagaagtCcaccaggcccacgttgctcc	8	18	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:23048951C>G	uc001yvc.2	-	5	893	c.868G>C	c.(868-870)GAC>CAC	p.D290H	NIPA1_uc001yvd.2_Missense_Mutation_p.D120H|NIPA1_uc001yve.2_Missense_Mutation_p.D215H	NM_144599	NP_653200	Q7RTP0	NIPA1_HUMAN	non-imprinted in Prader-Willi/Angelman syndrome	290	Extracellular (Potential).				cell death	early endosome|integral to membrane|plasma membrane					0		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;4.18e-06)|Epithelial(43;3.97e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00165)		CCCAAGAAGTCCACCAGGCCC	0.557													13	7	---	---	---	---	PASS	G	23048951	G	G	23048951	3	3	165	1	0	0	0	0	1	0	0	0	10422	855	30	2	125	2	NIPA1	15	23048951	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08		23048951	79482441	439	59374										
RASGRP1	10125	broad.mit.edu	37	chr15	38794623	38794623	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcatagttcttgaagacagaCtgtgaaaaaggagttttttt	9	4	2	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:38794623C>T	uc001zke.3	-	12	1607	c.1429_splice	c.e12-1	p.S477_splice	RASGRP1_uc010bbe.2_Splice_Site|RASGRP1_uc010bbf.2_Splice_Site_p.S304_splice|RASGRP1_uc010bbg.2_Splice_Site_p.S304_splice|RASGRP1_uc001zkd.3_Splice_Site_p.S442_splice	NM_005739	NP_005730	O95267	GRP1_HUMAN	RAS guanyl releasing protein 1 isoform a						cell differentiation|platelet activation|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|lipid binding|protein binding			large_intestine(1)|ovary(1)	2		all_cancers(109;6.38e-17)|all_epithelial(112;5.51e-15)|Lung NSC(122;2.12e-11)|all_lung(180;5.63e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;1.97e-07)|BRCA - Breast invasive adenocarcinoma(123;0.00248)		TGAAGACAGACTGTGAAAAAG	0.398													7	21	---	---	---	---	PASS	T	38794623	T	T	38794623	5	4	165	1	0	0	0	0	0	0	1	0	13074	579	20	3	989	3	RASGRP1	15	38794623	Splice_Site	SNP	C	TCGA-66-2787-01A-01D-0983-08	15745672	38794623	63736769	440	59375										
PAK6	56924	broad.mit.edu	37	chr15	40564857	40564857	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cccgggagaagcactcgggcCgccaggtggccgtcaagatg	16	13	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:40564857C>A	uc010bbl.2	+	6	1731	c.1291C>A	c.(1291-1293)CGC>AGC	p.R431S	PAK6_uc010bbm.2_Missense_Mutation_p.R431S|PAK6_uc001zky.3_Missense_Mutation_p.R431S|PAK6_uc010bbn.2_Missense_Mutation_p.R431S|PAK6_uc001zlb.2_Missense_Mutation_p.R431S	NM_001128628	NP_001122100	Q9NQU5	PAK6_HUMAN	p21-activated kinase 6	431	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(5)|large_intestine(1)|ovary(1)|skin(1)	8		all_cancers(109;1.13e-18)|all_epithelial(112;1.62e-15)|Lung NSC(122;5.67e-11)|all_lung(180;1.41e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0823)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.51e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0544)		GCACTCGGGCCGCCAGGTGGC	0.662													3	6	---	---	---	---	PASS	A	40564857	A	A	40564857	3	1	165	1	0	0	0	0	1	0	0	0	11404	652	23	1	1301	1	PAK6	15	40564857	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1770234	40564857	61966535	441	59376										
TMEM87A	25963	broad.mit.edu	37	chr15	42519099	42519099	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcatcgtctacccacagctcCcgccagtcctacaatacagg	7	17	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:42519099C>A	uc010udd.1	-	15	1467	c.1308G>T	c.(1306-1308)CGG>CGT	p.R436R		NM_015497	NP_056312	Q8NBN3	TM87A_HUMAN	transmembrane protein 87A isoform 1	436						integral to membrane				ovary(1)	1		all_cancers(109;4.28e-16)|all_epithelial(112;1.04e-14)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;1.03e-06)		CCCACAGCTCCCGCCAGTCCT	0.443													5	55	---	---	---	---	PASS	A	42519099	A	A	42519099	2	1	165	1	0	0	0	0	0	0	0	1	16207	610	22	3		3	TMEM87A	15	42519099	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	1954242	42519099	60012293	442	59377										
TGM7	116179	broad.mit.edu	37	chr15	43574172	43574172	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcctggccatccccaaggagCcaaatgacttcatcggcgtt	10	14	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:43574172C>G	uc001zrf.1	-	9	1226	c.1221G>C	c.(1219-1221)TGG>TGC	p.W407C		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	407					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	CCCCAAGGAGCCAAATGACTT	0.587													5	22	---	---	---	---	PASS	G	43574172	G	G	43574172	3	3	165	1	0	0	0	0	1	0	0	0	15832	740	26	4	931	4	TGM7	15	43574172	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1055073	43574172	58957220	443	59378										
CYP19A1	1588	broad.mit.edu	37	chr15	51503140	51503140	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgtccttgcaatgtcttcacGtggaatcgtctcagaagtgt	10	9	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:51503140G>T	uc001zyz.3	-	11	1628	c.1377C>A	c.(1375-1377)CAC>CAA	p.H459Q	CYP19A1_uc001zza.3_Missense_Mutation_p.H459Q	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	459					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	ATGTCTTCACGTGGAATCGTC	0.468													15	27	---	---	---	---	PASS	T	51503140	T	T	51503140	3	4	165	1	0	0	0	0	1	0	0	0	4148	1136	40	1	138	1	CYP19A1	15	51503140	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	7928968	51503140	51028252	444	59379										
ADAM10	102	broad.mit.edu	37	chr15	58891797	58891797	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcttgctcaaatattcttacCtggaagtggtttaggaggag	11	6	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:58891797C>A	uc002afd.1	-	15	2596	c.2152G>T	c.(2152-2154)GGC>TGC	p.G718C	ADAM10_uc010bgc.1_RNA|ADAM10_uc010ugz.1_Missense_Mutation_p.G417C|ADAM10_uc002afe.1_Intron	NM_001110	NP_001101	O14672	ADA10_HUMAN	ADAM metallopeptidase domain 10 precursor	718	Cytoplasmic (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)		ATATTCTTACCTGGAAGTGGT	0.348													5	88	---	---	---	---	PASS	A	58891797	A	A	58891797	3	1	165	1	0	0	0	0	1	0	0	0	234	695	24	3	102	3	ADAM10	15	58891797	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	7388657	58891797	43639595	445	59380										
DPP8	54878	broad.mit.edu	37	chr15	65771329	65771329	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttcagaggcaaaaataaactCaatttcctcttcgtgacttt	5	9	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:65771329C>T	uc002aov.2	-	11	2971	c.1393G>A	c.(1393-1395)GAG>AAG	p.E465K	DPP8_uc002aow.2_Missense_Mutation_p.E465K|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.E449K|DPP8_uc002aoy.2_Missense_Mutation_p.E465K|DPP8_uc002aoz.2_Missense_Mutation_p.E449K|DPP8_uc010bhj.2_Missense_Mutation_p.E465K|DPP8_uc002apa.2_Missense_Mutation_p.E362K|DPP8_uc010bhk.1_Intron	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	465					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						AAAATAAACTCAATTTCCTCT	0.308													5	12	---	---	---	---	PASS	T	65771329	T	T	65771329	3	4	165	1	0	0	0	0	1	0	0	0	4732	835	29	2	1343	2	DPP8	15	65771329	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	6879532	65771329	36760063	446	59381										
LCTL	197021	broad.mit.edu	37	chr15	66857146	66857146	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcccaggcgccctccgtctgGtaggcagaactgcccacgcc	11	18	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:66857146G>A	uc002aqc.2	-	2	282	c.150C>T	c.(148-150)TAC>TAT	p.Y50Y	LCTL_uc002aqd.3_Intron|LCTL_uc010bhw.2_5'UTR	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	50	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						CCTCCGTCTGGTAGGCAGAAC	0.647													8	40	---	---	---	---	PASS	A	66857146	A	A	66857146	2	1	165	1	0	0	0	0	0	0	0	1	8694	1256	44	3		3	LCTL	15	66857146	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	1085817	66857146	35674246	447	59382										
ADAMTS7	11173	broad.mit.edu	37	chr15	79056289	79056289	+	Frame_Shift_Del	DEL	C	-	-													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tccctccaggaagatgtgtaCcagctgaggcagggctgggc							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:79056289delC	uc002bej.3	-	21	4783	c.4572delG	c.(4570-4572)TGGfs	p.W1524fs		NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1524	TSP type-1 7.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						AAGATGTGTACCAGCTGAGGC	0.706													4	2	---	---	---	---		-	79056289	-	-	79056289	7	5	165	1	0	1	0	1	0	0	0	0	271	508	18	0	504	0	ADAMTS7	15	79056289	Frame_Shift_Del	DEL	C	TCGA-66-2787-01A-01D-0983-08	12199143	79056289	23475103	448	59383										
FAH	2184	broad.mit.edu	37	chr15	80478522	80478522	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gctttggccagtgtgctggaAaagtgctgcctgctctcctg	13	11	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:80478522A>T	uc002bfj.2	+	15	1313	c.1231A>T	c.(1231-1233)AAA>TAA	p.K411*	FAH_uc002bfk.1_Nonsense_Mutation_p.K411*|FAH_uc002bfm.1_Nonsense_Mutation_p.K411*|FAH_uc002bfn.1_Nonsense_Mutation_p.K341*	NM_000137	NP_000128	P16930	FAAA_HUMAN	fumarylacetoacetase	411					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	fumarylacetoacetase activity|metal ion binding				0						GTGTGCTGGAAAAGTGCTGCC	0.562									Tyrosinemia_type_1				20	30	---	---	---	---	PASS	T	80478522	T	T	80478522	4	4	165	1	0	0	0	0	0	1	0	0	5371	15	1	5	1285	5	FAH	15	80478522	Nonsense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1422233	80478522	22052870	449	59384										
CPEB1	64506	broad.mit.edu	37	chr15	83218354	83218354	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cctgctggggtcaagcctctGagatgggctccggacaaagt	14	11	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:83218354G>T	uc002bit.2	-	9	1587	c.1450C>A	c.(1450-1452)CAG>AAG	p.Q484K	CPEB1_uc002biq.2_Missense_Mutation_p.Q344K|CPEB1_uc002bir.2_Missense_Mutation_p.Q349K|CPEB1_uc002bis.2_Missense_Mutation_p.Q344K|CPEB1_uc010uod.1_Missense_Mutation_p.Q193K|CPEB1_uc010uoe.1_Missense_Mutation_p.Q422K|CPEB1_uc002biu.2_Missense_Mutation_p.Q446K|CPEB1_uc010uof.1_Missense_Mutation_p.Q344K|CPEB1_uc002biv.2_Missense_Mutation_p.Q419K|CPEB1_uc002bip.2_Missense_Mutation_p.Q193K	NM_001079533	NP_001073001	Q9BZB8	CPEB1_HUMAN	cytoplasmic polyadenylation element binding	424	Necessary for stress granule assembly and correct localization in dcp1 bodies.				mRNA processing|regulation of translation	cell junction|cytoplasmic mRNA processing body|dendrite|postsynaptic density|postsynaptic membrane	nucleotide binding|RNA binding			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(143;0.229)			TCAAGCCTCTGAGATGGGCTC	0.552													26	31	---	---	---	---	PASS	T	83218354	T	T	83218354	3	4	165	1	0	0	0	0	1	0	0	0	3800	1299	45	2	446	2	CPEB1	15	83218354	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2739832	83218354	19313038	450	59385										
ACAN	176	broad.mit.edu	37	chr15	89400176	89400176	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agatcagcgggcttccttctGgagaagttctagagacttct	11	9	4	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:89400176G>A	uc010upo.1	+	12	4734	c.4360G>A	c.(4360-4362)GGA>AGA	p.G1454R	ACAN_uc010upp.1_Missense_Mutation_p.G1454R|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	1454					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			GCTTCCTTCTGGAGAAGTTCT	0.517													60	102	---	---	---	---	PASS	A	89400176	A	A	89400176	3	1	165	1	0	0	0	0	1	0	0	0	117	1349	47	3	4402	3	ACAN	15	89400176	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	6181822	89400176	13131216	451	59386										
CRTC3	64784	broad.mit.edu	37	chr15	91157683	91157683	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttctttttcctttcccgctAggtttctgtgatggtgagaa	9	8	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:91157683A>G	uc002bpp.2	+	7	684	c.578_splice	c.e7-2	p.G193_splice	CRTC3_uc002bpo.2_Splice_Site_p.G193_splice	NM_022769	NP_073606	Q6UUV7	CRTC3_HUMAN	transducer of regulated CREB protein 3 isoform						interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus			CRTC3/MAML2(26)	salivary_gland(26)|ovary(1)	27	Melanoma(11;0.00551)|Lung NSC(78;0.0931)|all_lung(78;0.163)		BRCA - Breast invasive adenocarcinoma(143;0.0745)			CTTTCCCGCTAGGTTTCTGTG	0.333			T	MAML2	salivary gland mucoepidermoid								19	32	---	---	---	---	PASS	G	91157683	G	G	91157683	5	3	165	1	0	0	0	0	0	0	1	0	3901	434	15	5	602	5	CRTC3	15	91157683	Splice_Site	SNP	A	TCGA-66-2787-01A-01D-0983-08	1757507	91157683	11373709	452	59387										
ARRDC4	91947	broad.mit.edu	37	chr15	98512595	98512595	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	attgctgcattatcagagtgGactattccttagctgtaagc	9	8	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:98512595G>T	uc010bom.2	+	5	1027	c.868G>T	c.(868-870)GAC>TAC	p.D290Y	ARRDC4_uc002bui.3_Missense_Mutation_p.D203Y	NM_183376	NP_899232	Q8NCT1	ARRD4_HUMAN	arrestin domain containing 4	290					signal transduction						0	Melanoma(26;0.00539)|Lung NSC(78;0.0125)|all_lung(78;0.0222)		OV - Ovarian serous cystadenocarcinoma(32;0.0417)			TATCAGAGTGGACTATTCCTT	0.403													6	39	---	---	---	---	PASS	T	98512595	T	T	98512595	3	4	165	1	0	0	0	0	1	0	0	0	985	1174	41	2	886	2	ARRDC4	15	98512595	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	7354912	98512595	4018797	453	59388										
LRRK1	79705	broad.mit.edu	37	chr15	101598339	101598339	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgttttgggatggaaaagagGagtccaggtaagctcctgcg	15	6	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr15:101598339G>A	uc002bwr.2	+	29	4991	c.4672G>A	c.(4672-4674)GAG>AAG	p.E1558K	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bws.2_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	1558					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGGAAAAGAGGAGTCCAGGTA	0.448													5	21	---	---	---	---	PASS	A	101598339	A	A	101598339	3	1	165	1	0	0	0	0	1	0	0	0	9032	1175	41	2	4782	2	LRRK1	15	101598339	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3085744	101598339	933053	454	59389										
PKD1	5310	broad.mit.edu	37	chr16	2156207	2156207	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tccgtagctggagaggctgcCcttgtagacacagaactcct	11	12	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:2156207C>A	uc002cos.1	-	19	7797	c.7588G>T	c.(7588-7590)GGC>TGC	p.G2530C	PKD1_uc002cot.1_Missense_Mutation_p.G2530C|PKD1_uc010bse.1_5'Flank	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2530	Extracellular (Potential).|REJ.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GAGAGGCTGCCCTTGTAGACA	0.692													4	1	---	---	---	---	PASS	A	2156207	A	A	2156207	3	1	165	1	0	0	0	0	1	0	0	0	11963	623	22	3	5435	3	PKD1	16	2156207	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08		2156207	88198546	455	59390										
USP7	7874	broad.mit.edu	37	chr16	8993508	8993508	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgtaaccacaaatccaggatCattagggattgttttatcac	7	9	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:8993508C>A	uc002czl.2	-	22	2615	c.2416G>T	c.(2416-2418)GAT>TAT	p.D806Y	USP7_uc010uyk.1_Missense_Mutation_p.D707Y|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.D707Y|USP7_uc002czk.2_Missense_Mutation_p.D790Y	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	806					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						AATCCAGGATCATTAGGGATT	0.373													13	34	---	---	---	---	PASS	A	8993508	A	A	8993508	3	1	165	1	0	0	0	0	1	0	0	0	17085	826	29	2	932	2	USP7	16	8993508	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	6837301	8993508	81361245	456	59391										
GRIN2A	2903	broad.mit.edu	37	chr16	9862768	9862768	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acgcccgtgaaacagaagcgCagcttccagtagaagaggtg	13	10	0	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:9862768C>A	uc002czo.3	-	12	3083	c.2535G>T	c.(2533-2535)CTG>CTT	p.L845L	GRIN2A_uc010uym.1_Silent_p.L845L|GRIN2A_uc010uyn.1_Silent_p.L688L|GRIN2A_uc002czr.3_Silent_p.L845L	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	845	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AACAGAAGCGCAGCTTCCAGT	0.577													9	37	---	---	---	---	PASS	A	9862768	A	A	9862768	2	1	165	1	0	0	0	0	0	0	0	1	6779	697	25	3		3	GRIN2A	16	9862768	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	869260	9862768	80491985	457	59392										
SMG1	23049	broad.mit.edu	37	chr16	18826808	18826808	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caaggtgggagtgatttcctGgagcatttcaacgtgttctt	12	7	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:18826808G>T	uc002dfm.2	-	59	10831	c.10468C>A	c.(10468-10470)CAG>AAG	p.Q3490K	SMG1_uc010bwb.2_Missense_Mutation_p.Q3350K|SMG1_uc010bwa.2_Missense_Mutation_p.Q2221K	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	3490					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						GTGATTTCCTGGAGCATTTCA	0.383													5	61	---	---	---	---	PASS	T	18826808	T	T	18826808	3	4	165	1	0	0	0	0	1	0	0	0	14795	1357	47	3	537	3	SMG1	16	18826808	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	8964040	18826808	71527945	458	59393										
SMG1	23049	broad.mit.edu	37	chr16	18856853	18856853	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcaccatagttatcctgaaaCcatttttcatgaggtgtttc	6	9	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:18856853C>A	uc002dfm.2	-	39	6480	c.6117G>T	c.(6115-6117)TGG>TGT	p.W2039C	SMG1_uc010bwb.2_Missense_Mutation_p.W1899C|SMG1_uc010bwa.2_Missense_Mutation_p.W770C|SMG1_uc002dfo.3_Missense_Mutation_p.W337C	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2039					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TATCCTGAAACCATTTTTCAT	0.458													23	40	---	---	---	---	PASS	A	18856853	A	A	18856853	3	1	165	1	0	0	0	0	1	0	0	0	14795	508	18	3	4968	3	SMG1	16	18856853	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	30045	18856853	71497900	459	59394										
GPR139	124274	broad.mit.edu	37	chr16	20043574	20043574	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agcagtggatccagatgaggAcgtgatgcacagaggtgctg	16	7	0	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:20043574A>G	uc002dgu.1	-	2	707	c.545T>C	c.(544-546)GTC>GCC	p.V182A	GPR139_uc010vaw.1_Missense_Mutation_p.V89A	NM_001002911	NP_001002911	Q6DWJ6	GP139_HUMAN	G protein-coupled receptor 139	182	Helical; Name=5; (Potential).					integral to membrane|plasma membrane				ovary(2)	2						CCAGATGAGGACGTGATGCAC	0.488													11	21	---	---	---	---	PASS	G	20043574	G	G	20043574	3	3	165	1	0	0	0	0	1	0	0	0	6648	275	10	5	520	5	GPR139	16	20043574	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1186721	20043574	70311179	460	59395										
CHP2	63928	broad.mit.edu	37	chr16	23768853	23768853	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	catttgtttttccctcagtcCttagagaagatggacgttga	9	8	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:23768853C>G	uc002dmb.1	+	7	963	c.540C>G	c.(538-540)TCC>TCG	p.S180S		NM_022097	NP_071380	O43745	CHP2_HUMAN	hepatocellular carcinoma antigen gene 520	180	EF-hand 4.						calcium ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(48;0.0144)		TCCCTCAGTCCTTAGAGAAGA	0.522													49	113	---	---	---	---	PASS	G	23768853	G	G	23768853	2	3	165	1	0	0	0	0	0	0	0	1	3367	668	24	4		4	CHP2	16	23768853	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	3725279	23768853	66585900	461	59396										
SEZ6L2	26470	broad.mit.edu	37	chr16	29906726	29906726	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggggggccaggcctggggatCccccaccagccagcaccagg	16	16	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:29906726C>G	uc002duq.3	-	5	947	c.707G>C	c.(706-708)GGA>GCA	p.G236A	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.G166A|SEZ6L2_uc002dur.3_Missense_Mutation_p.G166A|SEZ6L2_uc002dus.3_Intron|SEZ6L2_uc010vec.1_Missense_Mutation_p.G236A|SEZ6L2_uc010ved.1_Missense_Mutation_p.G192A	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	236	CUB 1.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						GCCTGGGGATCCCCCACCAGC	0.627													7	12	---	---	---	---	PASS	G	29906726	G	G	29906726	3	3	165	1	0	0	0	0	1	0	0	0	14144	855	30	2	2120	2	SEZ6L2	16	29906726	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	6137873	29906726	60448027	462	59397										
ITGAL	3683	broad.mit.edu	37	chr16	30522395	30522395	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aatgaggactcagacctcctGgaggacaactcagccactac	9	13	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:30522395G>T	uc002dyi.3	+	24	2900	c.2724G>T	c.(2722-2724)CTG>CTT	p.L908L	ITGAL_uc002dyj.3_Silent_p.L824L|ITGAL_uc010vev.1_Silent_p.L142L	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	908	Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	CAGACCTCCTGGAGGACAACT	0.562													26	39	---	---	---	---	PASS	T	30522395	T	T	30522395	2	4	165	1	0	0	0	0	0	0	0	1	7886	1335	47	3		3	ITGAL	16	30522395	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	615669	30522395	59832358	463	59398										
FBXL19	54620	broad.mit.edu	37	chr16	30941629	30941629	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gccagcccggggcagctctgGcgagaaggagaaccgtgggg	19	11	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:30941629G>T	uc002eab.2	+	7	1243	c.1085G>T	c.(1084-1086)GGC>GTC	p.G362V	FBXL19_uc002dzz.1_Missense_Mutation_p.G50V|FBXL19_uc002eaa.1_Missense_Mutation_p.G261V	NM_001099784	NP_001093254	Q6PCT2	FXL19_HUMAN	F-box and leucine-rich repeat protein 19	362							DNA binding|zinc ion binding			ovary(2)|lung(1)|breast(1)	4						GGCAGCTCTGGCGAGAAGGAG	0.736													6	7	---	---	---	---	PASS	T	30941629	T	T	30941629	3	4	165	1	0	0	0	0	1	0	0	0	5715	1203	42	3	1111	3	FBXL19	16	30941629	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	419234	30941629	59413124	464	59399										
MMP2	4313	broad.mit.edu	37	chr16	55530863	55530863	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttggcggactgtgacgccaCgtgacaagcccatggggccc	14	13	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:55530863C>A	uc002ehz.3	+	10	1809	c.1498C>A	c.(1498-1500)CGT>AGT	p.R500S	MMP2_uc010vhd.1_Missense_Mutation_p.R424S|MMP2_uc010ccc.2_Missense_Mutation_p.R450S|MMP2_uc002eia.3_5'UTR	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	500	Required for inhibitor TIMP2 binding.|Hemopexin-like 1.				angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	TGTGACGCCACGTGACAAGCC	0.602													11	21	---	---	---	---	PASS	A	55530863	A	A	55530863	3	1	165	1	0	0	0	0	1	0	0	0	9658	536	19	1	1543	1	MMP2	16	55530863	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	24589234	55530863	34823890	465	59400										
TMCO7	79613	broad.mit.edu	37	chr16	69074319	69074319	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggggactcagccagaaagctActgaggtcagtccgtctctc	12	12	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:69074319A>T	uc002ewi.3	+	17	3115	c.3103A>T	c.(3103-3105)ACT>TCT	p.T1035S		NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	1035						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		CCAGAAAGCTACTGAGGTCAG	0.483													9	4	---	---	---	---	PASS	T	69074319	T	T	69074319	3	4	165	1	0	0	0	0	1	0	0	0	15998	391	14	5	3169	5	TMCO7	16	69074319	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	13543456	69074319	21280434	466	59401										
ZNF23	7571	broad.mit.edu	37	chr16	71483409	71483409	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcacacctaaagggctctacTaattcttcacatttgaaagg	6	10	4	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:71483409T>C	uc002faf.2	-	6	1333	c.519A>G	c.(517-519)TTA>TTG	p.L173L	ZNF23_uc002fad.2_Silent_p.L115L|ZNF23_uc002fae.2_Silent_p.L115L|ZNF23_uc010vmf.1_Silent_p.L115L|ZNF23_uc002fag.2_Silent_p.L115L|ZNF23_uc002fah.2_Silent_p.L173L|ZNF23_uc002fai.2_Silent_p.L212L	NM_145911	NP_666016	P17027	ZNF23_HUMAN	zinc finger protein 23	173	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(137;0.00768)		BRCA - Breast invasive adenocarcinoma(221;0.0686)		AGGGCTCTACTAATTCTTCAC	0.403													15	25	---	---	---	---	PASS	C	71483409	C	C	71483409	2	2	165	1	0	0	0	0	0	0	0	1	17780	1519	53	5		5	ZNF23	16	71483409	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08	2409090	71483409	18871344	467	59402										
DHX38	9785	broad.mit.edu	37	chr16	72141386	72141386	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cacttcatggacccgcccccGgaggacaacatgctcaactc	8	17	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:72141386G>T	uc002fcb.2	+	20	3103	c.2748G>T	c.(2746-2748)CCG>CCT	p.P916P	DHX38_uc010vmp.1_Silent_p.P228P	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	916					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				ACCCGCCCCCGGAGGACAACA	0.632													15	11	---	---	---	---	PASS	T	72141386	T	T	72141386	2	4	165	1	0	0	0	0	0	0	0	1	4511	1103	39	1		1	DHX38	16	72141386	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	657977	72141386	18213367	468	59403										
ZFHX3	463	broad.mit.edu	37	chr16	72821528	72821528	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgtgtttgtgcaaggccgaCtcgagatgttgactcagagc	13	9	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:72821528C>A	uc002fck.2	-	10	11320	c.10647G>T	c.(10645-10647)GAG>GAT	p.E3549D	uc002fcj.1_Intron|ZFHX3_uc002fcl.2_Missense_Mutation_p.E2635D	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3549	C2H2-type 22.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GCAAGGCCGACTCGAGATGTT	0.458													43	78	---	---	---	---	PASS	A	72821528	A	A	72821528	3	1	165	1	0	0	0	0	1	0	0	0	17631	564	20	3	468	3	ZFHX3	16	72821528	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	680142	72821528	17533225	469	59404										
LDHD	197257	broad.mit.edu	37	chr16	75149456	75149456	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cctcccatacctgtgcaccgActcatcgcgcccgtgctgct	8	19	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:75149456A>T	uc002fdm.2	-	2	222	c.175T>A	c.(175-177)TCG>ACG	p.S59T	LDHD_uc002fdn.2_Missense_Mutation_p.S59T	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	59							D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						CTGTGCACCGACTCATCGCGC	0.647													3	4	---	---	---	---	PASS	T	75149456	T	T	75149456	3	4	165	1	0	0	0	0	1	0	0	0	8703	275	10	5	1388	5	LDHD	16	75149456	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	2327928	75149456	15205297	470	59405										
WWOX	51741	broad.mit.edu	37	chr16	78198080	78198080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gactttcctttaaaccatagGgttcgaaaccgccaagtctt	7	11	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:78198080G>T	uc002ffk.2	+	5	535	c.410G>T	c.(409-411)GGG>GTG	p.G137V	WWOX_uc010vnk.1_Missense_Mutation_p.G24V|WWOX_uc002ffl.2_Missense_Mutation_p.G137V|WWOX_uc010che.2_Intron|WWOX_uc002ffj.1_Missense_Mutation_p.G137V	NM_016373	NP_057457	Q9NZC7	WWOX_HUMAN	WW domain-containing oxidoreductase isoform 1	137	NADP (By similarity).|Interaction with MAPT (By similarity).				apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)		TAAACCATAGGGTTCGAAACC	0.448													10	16	---	---	---	---	PASS	T	78198080	T	T	78198080	3	4	165	1	0	0	0	0	1	0	0	0	17411	1246	43	3	432	3	WWOX	16	78198080	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3048624	78198080	12156673	471	59406										
ATP2C2	9914	broad.mit.edu	37	chr16	84486818	84486818	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tggacagcgtggagaagggcGagctggccgaccgcgtgggg	21	9	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr16:84486818G>T	uc002fhx.2	+	19	1995	c.1906G>T	c.(1906-1908)GAG>TAG	p.E636*	ATP2C2_uc010chj.2_Nonsense_Mutation_p.E636*|ATP2C2_uc002fhy.2_Nonsense_Mutation_p.E653*|ATP2C2_uc002fhz.2_Nonsense_Mutation_p.E485*	NM_014861	NP_055676	O75185	AT2C2_HUMAN	ATPase, Ca++ transporting, type 2C, member 2	636	Extracellular (Potential).				ATP biosynthetic process	Golgi membrane|integral to membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			breast(1)|central_nervous_system(1)	2						GGAGAAGGGCGAGCTGGCCGA	0.622													3	15	---	---	---	---	PASS	T	84486818	T	T	84486818	4	4	165	1	0	0	0	0	0	1	0	0	1144	1059	37	2	1980	2	ATP2C2	16	84486818	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	6288738	84486818	5867935	472	59407										
OR1G1	8390	broad.mit.edu	37	chr17	3030761	3030761	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtacatgaacaggaaggaccCaaagaggggcttctgctcct	12	10	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:3030761C>T	uc002fvc.1	-	1	85	c.85G>A	c.(85-87)GGG>AGG	p.G29R		NM_003555	NP_003546	P47890	OR1G1_HUMAN	olfactory receptor, family 1, subfamily G,	29	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGGAAGGACCCAAAGAGGGGC	0.493													48	49	---	---	---	---	PASS	T	3030761	T	T	3030761	3	4	165	1	0	0	0	0	1	0	0	0	10957	594	21	3	860	3	OR1G1	17	3030761	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08		3030761	78164449	473	59408										
TP53	7157	broad.mit.edu	37	chr17	7578458	7578458	+	Frame_Shift_Del	DEL	G	-	-													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cttgtagatggccatggcgcGgacgcgggtgccgggcgggg							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:7578458delG	uc002gim.2	-	5	666	c.472delC	c.(472-474)CGCfs	p.R158fs	TP53_uc002gig.1_Frame_Shift_Del_p.R158fs|TP53_uc002gih.2_Frame_Shift_Del_p.R158fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.R26fs|TP53_uc010cng.1_Frame_Shift_Del_p.R26fs|TP53_uc002gii.1_Frame_Shift_Del_p.R26fs|TP53_uc010cnh.1_Frame_Shift_Del_p.R158fs|TP53_uc010cni.1_Frame_Shift_Del_p.R158fs|TP53_uc002gij.2_Frame_Shift_Del_p.R158fs|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Frame_Shift_Del_p.R65fs|TP53_uc002gio.2_Frame_Shift_Del_p.R26fs|TP53_uc010vug.1_Frame_Shift_Del_p.R119fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	158	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> F (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> Y (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.R158H(58)|p.R158L(53)|p.R158C(17)|p.R158G(10)|p.R158P(9)|p.0?(7)|p.R158R(6)|p.R158fs*12(5)|p.R158_A159insX(4)|p.R158_A159delRA(2)|p.R156_I162delRVRAMAI(2)|p.V157fs*9(2)|p.P153fs*22(2)|p.R158fs*11(2)|p.V157fs*22(2)|p.V157_C176del20(1)|p.R156_A161delRVRAMA(1)|p.V157_R158delVR(1)|p.P151_V173del23(1)|p.R158fs*24(1)|p.R156_R158delRVR(1)|p.R156fs*18(1)|p.R156_A161del(1)|p.R158_A159insXX(1)|p.V157_M160delVRAM(1)|p.R156fs*12(1)|p.R158F(1)|p.S149fs*72(1)|p.A159fs*21(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.R156fs*20(1)|p.V157_I162delVRAMAI(1)|p.V157fs*21(1)|p.R158fs*8(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)		GCCATGGCGCGGACGCGGGTG	0.622		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)			13	15	---	---	---	---		-	7578458	-	-	7578458	7	5	165	1	0	1	0	1	0	0	0	0	16378	1116	39	0	826	0	TP53	17	7578458	Frame_Shift_Del	DEL	G	TCGA-66-2787-01A-01D-0983-08	4547697	7578458	73616752	474	59409										
DNAH2	146754	broad.mit.edu	37	chr17	7644287	7644287	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gctgggtgcacatcctccggCgtcgcatcgacagagtcatg	13	13	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:7644287C>G	uc002giu.1	+	10	1680	c.1666C>G	c.(1666-1668)CGT>GGT	p.R556G	DNAH2_uc002git.2_Missense_Mutation_p.R638G|DNAH2_uc010vuk.1_Missense_Mutation_p.R556G	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	556	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CATCCTCCGGCGTCGCATCGA	0.607													26	33	---	---	---	---	PASS	G	7644287	G	G	7644287	3	3	165	1	0	0	0	0	1	0	0	0	4602	768	27	4	1704	4	DNAH2	17	7644287	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	65829	7644287	73550923	475	59410										
GAS7	8522	broad.mit.edu	37	chr17	9923211	9923211	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cggaggggggaccattccagGcttctgttggagaagaaaga	16	7	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:9923211G>T	uc002gmg.1	-	2	348	c.187C>A	c.(187-189)CCT>ACT	p.P63T	GAS7_uc010vvd.1_Missense_Mutation_p.P15T|GAS7_uc002gmi.2_5'UTR|GAS7_uc002gmj.1_Missense_Mutation_p.P3T|GAS7_uc010coh.1_Missense_Mutation_p.P3T	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	63					cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						ACCATTCCAGGCTTCTGTTGG	0.532			T	MLL	AML*								8	21	---	---	---	---	PASS	T	9923211	T	T	9923211	3	4	165	1	0	0	0	0	1	0	0	0	6250	1203	42	3	1346	3	GAS7	17	9923211	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2278924	9923211	71271999	476	59411										
MYH8	4626	broad.mit.edu	37	chr17	10303705	10303705	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atttagagacagtattgggtAccttggctttggaaatggcc	12	6	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:10303705A>G	uc002gmm.2	-	27	3830	c.3735_splice	c.e27+1	p.K1245_splice	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,						muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						AGTATTGGGTACCTTGGCTTT	0.433									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				5	119	---	---	---	---	PASS	G	10303705	G	G	10303705	5	3	165	1	0	0	0	0	0	0	1	0	10041	405	14	5	2132	5	MYH8	17	10303705	Splice_Site	SNP	A	TCGA-66-2787-01A-01D-0983-08	380494	10303705	70891505	477	59412										
MYH4	4622	broad.mit.edu	37	chr17	10360881	10360881	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtagtccacggtgccggcatAgtgcaccagtgagaagtgag	15	9	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:10360881A>C	uc002gmn.2	-	16	1864	c.1753T>G	c.(1753-1755)TAT>GAT	p.Y585D	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	585	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						GTGCCGGCATAGTGCACCAGT	0.522													52	21	---	---	---	---	PASS	C	10360881	C	C	10360881	3	2	165	1	0	0	0	0	1	0	0	0	10037	420	15	5	4166	5	MYH4	17	10360881	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	57176	10360881	70834329	478	59413										
MYH2	4620	broad.mit.edu	37	chr17	10432170	10432170	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcttcctcagggtggccgctGtggcttcatgctgtagggtg	15	10	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:10432170G>T	uc010coi.2	-	27	3709	c.3581C>A	c.(3580-3582)ACA>AAA	p.T1194K	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.T1194K|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1194	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GGTGGCCGCTGTGGCTTCATG	0.577													15	71	---	---	---	---	PASS	T	10432170	T	T	10432170	3	4	165	1	0	0	0	0	1	0	0	0	10035	1377	48	3	2300	3	MYH2	17	10432170	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	71289	10432170	70763040	479	59414										
DNAH9	1770	broad.mit.edu	37	chr17	11572467	11572467	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tctatccgtctctggagtctGgagtgaaggggggtttctgt	15	7	4	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:11572467G>A	uc002gne.2	+	16	2886	c.2818G>A	c.(2818-2820)GGA>AGA	p.G940R	DNAH9_uc010coo.2_Missense_Mutation_p.G234R	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	940	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TCTGGAGTCTGGAGTGAAGGG	0.483													8	120	---	---	---	---	PASS	A	11572467	A	A	11572467	3	1	165	1	0	0	0	0	1	0	0	0	4608	1349	47	3	2880	3	DNAH9	17	11572467	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1140297	11572467	69622743	480	59415										
ZNF18	7566	broad.mit.edu	37	chr17	11896038	11896038	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aagctggcgtgcggtctcagGgctggagagttcctcttgaa	15	9	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:11896038G>A	uc002gng.1	-	4	714	c.109C>T	c.(109-111)CCT>TCT	p.P37S	ZNF18_uc002gnh.1_Missense_Mutation_p.P37S|ZNF18_uc002gni.1_Missense_Mutation_p.P37S	NM_144680	NP_653281	P17022	ZNF18_HUMAN	zinc finger protein 18	37					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)	1				Colorectal(4;3.33e-05)|COAD - Colon adenocarcinoma(4;0.000494)|READ - Rectum adenocarcinoma(10;0.233)		GCGGTCTCAGGGCTGGAGAGT	0.582													38	23	---	---	---	---	PASS	A	11896038	A	A	11896038	3	1	165	1	0	0	0	0	1	0	0	0	17744	1232	43	3	1564	3	ZNF18	17	11896038	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	323571	11896038	69299172	481	59416										
MAP2K4	6416	broad.mit.edu	37	chr17	11984822	11984822	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caacaaaatggtccacaaacCaagtgggcaaataatggcag	9	9	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:11984822C>A	uc002gnj.2	+	3	437	c.368C>A	c.(367-369)CCA>CAA	p.P123Q	MAP2K4_uc002gnk.2_Missense_Mutation_p.P134Q|MAP2K4_uc010vvi.1_Missense_Mutation_p.P5Q|MAP2K4_uc010vvj.1_Intron|MIR744_hsa-mir-744|MI0005559_5'Flank	NM_003010	NP_003001	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4	123	Protein kinase.				cellular response to mechanical stimulus|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|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	ATP binding|JUN kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.?(1)		large_intestine(14)|breast(12)|lung(8)|ovary(8)|pancreas(8)|stomach(2)|central_nervous_system(1)|biliary_tract(1)|testis(1)|endometrium(1)|urinary_tract(1)|skin(1)	58		all_cancers(5;0.0413)|Breast(5;0.000625)|all_epithelial(5;0.00978)|all_lung(20;0.0449)|Lung NSC(33;0.163)		Epithelial(2;4.12e-09)|all cancers(2;6.86e-07)|BRCA - Breast invasive adenocarcinoma(2;8.74e-07)|Colorectal(4;5.32e-05)|COAD - Colon adenocarcinoma(4;0.0039)|READ - Rectum adenocarcinoma(10;0.0681)		GTCCACAAACCAAGTGGGCAA	0.413			D|Mis|N		pancreatic|breast|colorectal								5	48	---	---	---	---	PASS	A	11984822	A	A	11984822	3	1	165	1	0	0	0	0	1	0	0	0	9239	594	21	3	378	3	MAP2K4	17	11984822	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	88784	11984822	69210388	482	59417										
MYOCD	93649	broad.mit.edu	37	chr17	12664015	12664015	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aactcctggacgtgcttattGaaagcggaggtaagactgcc	12	9	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:12664015G>T	uc002gnn.2	+	12	2535	c.2236G>T	c.(2236-2238)GAA>TAA	p.E746*	MYOCD_uc002gno.2_Nonsense_Mutation_p.E794*|MYOCD_uc002gnq.2_Nonsense_Mutation_p.E470*	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	746					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CGTGCTTATTGAAAGCGGAGG	0.458													5	7	---	---	---	---	PASS	T	12664015	T	T	12664015	4	4	165	1	0	0	0	0	0	1	0	0	10087	1291	45	2	2442	2	MYOCD	17	12664015	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	679193	12664015	68531195	483	59418										
NOS2	4843	broad.mit.edu	37	chr17	26084309	26084309	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccaggctgctgggctgcaccGccaccctgtccttcttcgcc	10	19	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:26084309G>A	uc002gzu.2	-	27	3689	c.3425C>T	c.(3424-3426)GCG>GTG	p.A1142V		NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	1142					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GGGCTGCACCGCCACCCTGTC	0.532											OREG0024267	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	31	---	---	---	---	PASS	A	26084309	A	A	26084309	3	1	165	1	0	0	0	0	1	0	0	0	10543	1087	38	1	40	1	NOS2	17	26084309	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	13420294	26084309	55110901	484	59419										
TRAF4	9618	broad.mit.edu	37	chr17	27075299	27075299	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gagccatgagggtatgtgccCccaggagagtgtctactgtg	15	9	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:27075299C>T	uc002hcs.2	+	5	590	c.482C>T	c.(481-483)CCC>CTC	p.P161L	TRAF4_uc002hcq.1_Intron	NM_004295	NP_004286	Q9BUZ4	TRAF4_HUMAN	TNF receptor-associated factor 4	161	TRAF-type 2.				apoptosis|positive regulation of JNK cascade|positive regulation of protein homodimerization activity|positive regulation of protein kinase activity|regulation of apoptosis|signal transduction	cytoskeleton|nucleus|perinuclear region of cytoplasm|tight junction	DNA binding|ubiquitin-protein ligase activity|WW domain binding|zinc ion binding			upper_aerodigestive_tract(1)|lung(1)	2	Lung NSC(42;0.01)		Epithelial(11;3.26e-05)|all cancers(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.235)			GGTATGTGCCCCCAGGAGAGT	0.602													11	26	---	---	---	---	PASS	T	27075299	T	T	27075299	3	4	165	1	0	0	0	0	1	0	0	0	16440	623	22	3	500	3	TRAF4	17	27075299	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	990990	27075299	54119911	485	59420										
UNC45B	146862	broad.mit.edu	37	chr17	33498366	33498366	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgacaagaccatcctgtactCggtggccaccaccctggtga	10	14	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:33498366C>A	uc002hja.2	+	13	1818	c.1721C>A	c.(1720-1722)TCG>TAG	p.S574*	UNC45B_uc002hjb.2_Nonsense_Mutation_p.S572*|UNC45B_uc002hjc.2_Nonsense_Mutation_p.S572*|UNC45B_uc010cto.2_Nonsense_Mutation_p.S493*	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	574					cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				ATCCTGTACTCGGTGGCCACC	0.557											OREG0024327	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	51	---	---	---	---	PASS	A	33498366	A	A	33498366	4	1	165	1	0	0	0	0	0	1	0	0	16986	893	31	2	1767	2	UNC45B	17	33498366	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	6423067	33498366	47696844	486	59421										
UNC45B	146862	broad.mit.edu	37	chr17	33501267	33501267	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tttcatctcctcaggacaagAaggactttatagacatgcgg	9	9	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:33501267A>T	uc002hja.2	+	14	1940	c.1843A>T	c.(1843-1845)AAG>TAG	p.K615*	UNC45B_uc002hjb.2_Nonsense_Mutation_p.K613*|UNC45B_uc002hjc.2_Nonsense_Mutation_p.K613*|UNC45B_uc010cto.2_Nonsense_Mutation_p.K534*	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	615					cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				TCAGGACAAGAAGGACTTTAT	0.502													25	86	---	---	---	---	PASS	T	33501267	T	T	33501267	4	4	165	1	0	0	0	0	0	1	0	0	16986	247	9	5	1893	5	UNC45B	17	33501267	Nonsense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	2901	33501267	47693943	487	59422										
CWC25	54883	broad.mit.edu	37	chr17	36959000	36959000	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agcttctctagcctctgctcCcgttcctcatccttagcatg	6	16	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:36959000C>A	uc002hqu.2	-	9	1269	c.1116G>T	c.(1114-1116)CGG>CGT	p.R372R	CWC25_uc010wdv.1_Silent_p.R309R|CWC25_uc010wdw.1_RNA|PIP4K2B_uc002hqs.2_5'Flank|PIP4K2B_uc010wdt.1_5'Flank	NM_017748	NP_060218	Q9NXE8	CWC25_HUMAN	coiled-coil domain containing 49	372	Potential.										0						GCCTCTGCTCCCGTTCCTCAT	0.522													24	74	---	---	---	---	PASS	A	36959000	A	A	36959000	2	1	165	1	0	0	0	0	0	0	0	1	4069	610	22	3		3	CWC25	17	36959000	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	3457733	36959000	44236210	488	59423										
WIPF2	147179	broad.mit.edu	37	chr17	38421393	38421393	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccgagaccctcccagtcgggGagcaggtaagtgcttggaag	15	11	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:38421393G>T	uc002hug.1	+	5	1205	c.965G>T	c.(964-966)GGA>GTA	p.G322V	WIPF2_uc002huh.1_Missense_Mutation_p.G172V|WIPF2_uc010cww.1_Missense_Mutation_p.G172V|WIPF2_uc002hui.1_Missense_Mutation_p.G322V|WIPF2_uc010cwx.1_Intron|WIPF2_uc010cwy.1_Missense_Mutation_p.G322V	NM_133264	NP_573571	Q8TF74	WIPF2_HUMAN	WIRE protein	322						cytoplasm|cytoskeleton	actin binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						CCCAGTCGGGGAGCAGGTAAG	0.522										HNSCC(43;0.11)			9	37	---	---	---	---	PASS	T	38421393	T	T	38421393	3	4	165	1	0	0	0	0	1	0	0	0	17365	1174	41	2	979	2	WIPF2	17	38421393	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1462393	38421393	42773817	489	59424										
KRT33B	3884	broad.mit.edu	37	chr17	39521219	39521219	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgggagctgtagcgggcctcGctctctgtcagcgtgttttc	14	11	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:39521219G>A	uc002hwl.2	-	6	954	c.909C>T	c.(907-909)AGC>AGT	p.S303S		NM_002279	NP_002270	Q14525	KT33B_HUMAN	type I hair keratin 3B	303	Coil 2.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				AGCGGGCCTCGCTCTCTGTCA	0.582													12	38	---	---	---	---	PASS	A	39521219	A	A	39521219	2	1	165	1	0	0	0	0	0	0	0	1	8470	1078	38	1		1	KRT33B	17	39521219	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	1099826	39521219	41673991	490	59425										
PTRF	284119	broad.mit.edu	37	chr17	40574766	40574766	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cggtcttcacgttgacgctgAccttgcgcaccttctccagc	9	16	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:40574766A>T	uc002hzo.2	-	1	509	c.350T>A	c.(349-351)GTC>GAC	p.V117D	PTRF_uc010wgi.1_Missense_Mutation_p.V99D	NM_012232	NP_036364	Q6NZI2	PTRF_HUMAN	polymerase I and transcript release factor	117					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)		GTTGACGCTGACCTTGCGCAC	0.667													3	5	---	---	---	---	PASS	T	40574766	T	T	40574766	3	4	165	1	0	0	0	0	1	0	0	0	12815	275	10	5	830	5	PTRF	17	40574766	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1053547	40574766	40620444	491	59426										
IGF2BP1	10642	broad.mit.edu	37	chr17	47120878	47120878	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agtcccgccgcctcccagcaGcgttactggggctgctccct	11	18	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:47120878G>T	uc002iom.2	+	10	1500	c.1166G>T	c.(1165-1167)AGC>ATC	p.S389I	IGF2BP1_uc010dbj.2_Missense_Mutation_p.S250I	NM_006546	NP_006537	Q9NZI8	IF2B1_HUMAN	insulin-like growth factor 2 mRNA binding	389	Necessary for interaction with ELAVL4 and binding to TAU mRNA (By similarity).				CRD-mediated mRNA stabilization|negative regulation of translation|regulation of mRNA stability involved in response to stress	CRD-mediated mRNA stability complex|cytosol|dendritic spine|lamellipodium|nucleus|plasma membrane|stress granule	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			kidney(1)	1						CCTCCCAGCAGCGTTACTGGG	0.577													10	35	---	---	---	---	PASS	T	47120878	T	T	47120878	3	4	165	1	0	0	0	0	1	0	0	0	7573	971	34	3	1204	3	IGF2BP1	17	47120878	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	6546112	47120878	34074332	492	59427										
PPP1R9B	84687	broad.mit.edu	37	chr17	48216853	48216853	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cacaggggacagtgcatcctCgttctccgctagctcaaaca	9	14	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:48216853C>A	uc002iqh.3	-	8	1963	c.1960G>T	c.(1960-1962)GAG>TAG	p.E654*		NM_032595	NP_115984	Q96SB3	NEB2_HUMAN	protein phosphatase 1, regulatory subunit 9B	652	Interacts with TGN38 (By similarity).				cell cycle arrest|cell differentiation|cell migration|filopodium assembly|negative regulation of cell growth|nervous system development|regulation of cell growth by extracellular stimulus|regulation of cell proliferation|regulation of exit from mitosis|RNA splicing	adherens junction|cytoskeleton|dendritic spine|filopodium|lamellipodium|nucleoplasm|protein phosphatase type 1 complex|ruffle membrane|synapse	actin binding|protein phosphatase 1 binding|protein phosphatase inhibitor activity				0						AGTGCATCCTCGTTCTCCGCT	0.612													5	157	---	---	---	---	PASS	A	48216853	A	A	48216853	4	1	165	1	0	0	0	0	0	1	0	0	12379	893	31	2	513	2	PPP1R9B	17	48216853	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1095975	48216853	32978357	493	59428										
TMEM100	55273	broad.mit.edu	37	chr17	53798268	53798268	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagcaaaggggatgatgcagCggtagcaggagagctcggta	17	7	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:53798268C>A	uc002iuj.3	-	2	475	c.164G>T	c.(163-165)CGC>CTC	p.R55L	TMEM100_uc002iuk.3_Missense_Mutation_p.R55L	NM_018286	NP_060756	Q9NV29	TM100_HUMAN	transmembrane protein 100	55						integral to membrane					0						GATGATGCAGCGGTAGCAGGA	0.537													35	66	---	---	---	---	PASS	A	53798268	A	A	53798268	3	1	165	1	0	0	0	0	1	0	0	0	16012	768	27	1	244	1	TMEM100	17	53798268	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	5581415	53798268	27396942	494	59429										
ANKFN1	162282	broad.mit.edu	37	chr17	54520245	54520245	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtctcggcttacaatatgaaAggatggggacctgctcagac	12	9	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:54520245A>T	uc002iun.1	+	9	1094	c.1059A>T	c.(1057-1059)AAA>AAT	p.K353N		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain	353	Fibronectin type-III.									large_intestine(1)|ovary(1)	2						ACAATATGAAAGGATGGGGAC	0.458													13	54	---	---	---	---	PASS	T	54520245	T	T	54520245	3	4	165	1	0	0	0	0	1	0	0	0	625	69	3	5	1093	5	ANKFN1	17	54520245	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	721977	54520245	26674965	495	59430										
HELZ	9931	broad.mit.edu	37	chr17	65162609	65162609	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgtacctgttaggactccatGgtatggtgggagtcatactg	13	7	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:65162609G>T	uc010wqk.1	-	15	2067	c.1880C>A	c.(1879-1881)CCA>CAA	p.P627Q	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.P627Q	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					AGGACTCCATGGTATGGTGGG	0.358													5	84	---	---	---	---	PASS	T	65162609	T	T	65162609	3	4	165	1	0	0	0	0	1	0	0	0	7049	1348	47	3	4024	3	HELZ	17	65162609	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	10642364	65162609	16032601	496	59431										
PITPNC1	26207	broad.mit.edu	37	chr17	65688927	65688927	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cagaaactctcacacttccaGaccctgagaaaaaagccacc	5	15	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:65688927G>T	uc002jgc.2	+	9	1269	c.922G>T	c.(922-924)GAC>TAC	p.D308Y	PITPNC1_uc002jgb.2_3'UTR	NM_012417	NP_036549	Q9UKF7	PITC1_HUMAN	phosphatidylinositol transfer protein,	308					signal transduction	cytoplasm	lipid binding|phosphatidylinositol transporter activity|protein binding	p.D308D(1)		skin(1)	1	all_cancers(12;3.03e-10)		BRCA - Breast invasive adenocarcinoma(8;2.08e-08)|Colorectal(3;0.198)			CACACTTCCAGACCCTGAGAA	0.502													35	122	---	---	---	---	PASS	T	65688927	T	T	65688927	3	4	165	1	0	0	0	0	1	0	0	0	11949	942	33	2	1079	2	PITPNC1	17	65688927	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	526318	65688927	15506283	497	59432										
BPTF	2186	broad.mit.edu	37	chr17	65955663	65955663	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttaattgataacaggaagagCtgaagagagacctgaaaatt	10	4	0	6			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:65955663C>A	uc002jgf.2	+	24	7994	c.7933C>A	c.(7933-7935)CTG>ATG	p.L2645M	BPTF_uc002jge.2_Missense_Mutation_p.L2628M|BPTF_uc002jgg.2_Missense_Mutation_p.L302M|BPTF_uc002jgh.2_Missense_Mutation_p.L104M	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2771					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			ACAGGAAGAGCTGAAGAGAGA	0.418													32	89	---	---	---	---	PASS	A	65955663	A	A	65955663	3	1	165	1	0	0	0	0	1	0	0	0	1495	796	28	3	8413	3	BPTF	17	65955663	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	266736	65955663	15239547	498	59433										
C17orf80	55028	broad.mit.edu	37	chr17	71232591	71232591	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgtctgcaacagaaaagcagGaacggactgtcatgagccat	11	9	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:71232591G>A	uc002jjm.3	+	3	1164	c.970G>A	c.(970-972)GAA>AAA	p.E324K	C17orf80_uc010wqu.1_Missense_Mutation_p.E324K|C17orf80_uc010dfj.2_Missense_Mutation_p.E324K|C17orf80_uc002jjk.1_Missense_Mutation_p.E324K|C17orf80_uc002jjl.3_Missense_Mutation_p.E324K	NM_017941	NP_060411	Q9BSJ5	CQ080_HUMAN	lung cancer-related protein 8 isoform a	324	Extracellular (Potential).					integral to membrane				skin(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			AGAAAAGCAGGAACGGACTGT	0.463													4	35	---	---	---	---	PASS	A	71232591	A	A	71232591	3	1	165	1	0	0	0	0	1	0	0	0	1885	1175	41	2	972	2	C17orf80	17	71232591	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	5276928	71232591	9962619	499	59434										
BTBD17	388419	broad.mit.edu	37	chr17	72352885	72352885	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aaccaggtactcggagttgcGccgctgcaggtcggcgtgcg	16	12	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:72352885G>T	uc002jkn.2	-	3	1348	c.1348C>A	c.(1348-1350)CGC>AGC	p.R450S		NM_001080466	NP_001073935	A6NE02	BTBDH_HUMAN	BTB (POZ) domain containing 17 precursor	450						extracellular region					0						TCGGAGTTGCGCCGCTGCAGG	0.677													4	10	---	---	---	---	PASS	T	72352885	T	T	72352885	3	4	165	1	0	0	0	0	1	0	0	0	1542	1087	38	1	92	1	BTBD17	17	72352885	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1120294	72352885	8842325	500	59435										
UNK	85451	broad.mit.edu	37	chr17	73780809	73780809	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgccgacggtaaaattccagCcggacatagaaccacaactc	8	13	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:73780809C>G	uc002jpm.2	+	2	76	c.76C>G	c.(76-78)CCG>GCG	p.P26A	UNK_uc002jpn.2_RNA|UNK_uc002jpo.2_RNA	NM_001080419	NP_001073888	Q9C0B0	UNK_HUMAN	zinc finger CCCH-type domain containing 5	Error:Variant_position_missing_in_Q9C0B0_after_alignment							nucleic acid binding|zinc ion binding				0			all cancers(21;2.61e-06)|Epithelial(20;7.39e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|LUSC - Lung squamous cell carcinoma(166;0.154)			AAAATTCCAGCCGGACATAGA	0.642													10	13	---	---	---	---	PASS	G	73780809	G	G	73780809	3	3	165	1	0	0	0	0	1	0	0	0	16997	753	26	4	82	4	UNK	17	73780809	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1427924	73780809	7414401	501	59436										
ACOX1	51	broad.mit.edu	37	chr17	73945424	73945424	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tctgaaaagagcttaactacCacatagtggcaatgtgccta	8	9	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:73945424C>A	uc002jqf.2	-	12	1892	c.1602G>T	c.(1600-1602)GTG>GTT	p.V534V	ACOX1_uc010wsq.1_Silent_p.V496V|ACOX1_uc002jqe.2_Silent_p.V534V|ACOX1_uc010wsr.1_Silent_p.V466V	NM_007292	NP_009223	Q15067	ACOX1_HUMAN	acyl-Coenzyme A oxidase 1 isoform b	534				VV -> GL (in Ref. 1; AAA19113 and 2; AAA18595).	fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1						GCTTAACTACCACATAGTGGC	0.358													5	105	---	---	---	---	PASS	A	73945424	A	A	73945424	2	1	165	1	0	0	0	0	0	0	0	1	158	581	21	3		3	ACOX1	17	73945424	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	164615	73945424	7249786	502	59437										
ACOX1	51	broad.mit.edu	37	chr17	73969781	73969781	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aagcagccatttctctttctGagcagtggtgccctgattca	9	11	3	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:73969781G>A	uc002jqf.2	-	3	645	c.355C>T	c.(355-357)CAG>TAG	p.Q119*	ACOX1_uc010wsq.1_Intron|ACOX1_uc002jqe.2_Intron|ACOX1_uc010wsr.1_5'UTR	NM_007292	NP_009223	Q15067	ACOX1_HUMAN	acyl-Coenzyme A oxidase 1 isoform b	119				Q -> E (in Ref. 4; AAB30019).	fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1						TTCTCTTTCTGAGCAGTGGTG	0.483													22	48	---	---	---	---	PASS	A	73969781	A	A	73969781	4	1	165	1	0	0	0	0	0	1	0	0	158	1299	45	2	1840	2	ACOX1	17	73969781	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	24357	73969781	7225429	503	59438										
HGS	9146	broad.mit.edu	37	chr17	79667556	79667556	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccactggggcgcaggcggccCcccaggcccaggccggaccc	15	20	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr17:79667556C>T	uc002kbg.2	+	19	2019	c.1942C>T	c.(1942-1944)CCC>TCC	p.P648S	MRPL12_uc002kbh.1_5'Flank|SLC25A10_uc010wut.1_5'Flank	NM_004712	NP_004703	O14964	HGS_HUMAN	hepatocyte growth factor-regulated tyrosine	648	Interaction with NF2.|Gln-rich.				cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of JAK-STAT cascade|regulation of protein catabolic process	cytosol|early endosome membrane|multivesicular body membrane	metal ion binding|protein domain specific binding			ovary(1)	1	all_neural(118;0.0878)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)			GCAGGCGGCCCCCCAGGCCCA	0.652													7	20	---	---	---	---	PASS	T	79667556	T	T	79667556	3	4	165	1	0	0	0	0	1	0	0	0	7087	623	22	3	2016	3	HGS	17	79667556	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	5697775	79667556	1527654	504	59439										
COLEC12	81035	broad.mit.edu	37	chr18	335079	335079	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cctttgccgccacgctctccGgggggaccagctggtccaat	12	16	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr18:335079G>A	uc002kkm.2	-	6	1694	c.1479C>T	c.(1477-1479)CCC>CCT	p.P493P		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	493	Collagen-like 2.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				CACGCTCTCCGGGGGGACCAG	0.672													4	17	---	---	---	---	PASS	A	335079	A	A	335079	2	1	165	1	0	0	0	0	0	0	0	1	3712	1103	39	1		1	COLEC12	18	335079	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08		335079	77742169	505	59440										
CHST9	83539	broad.mit.edu	37	chr18	24496619	24496619	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcacaggcatttggtcgataTttcttgataattgcctttcc	7	9	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr18:24496619T>A	uc002kwd.2	-	5	1134	c.936A>T	c.(934-936)AAA>AAT	p.K312N	C18orf16_uc002kwb.2_Intron|C18orf16_uc010xbm.1_Intron|CHST9_uc002kwc.2_Missense_Mutation_p.K227N|CHST9_uc002kwe.2_Missense_Mutation_p.K312N	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	312	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					TTGGTCGATATTTCTTGATAA	0.398													31	72	---	---	---	---	PASS	A	24496619	A	A	24496619	3	1	165	1	0	0	0	0	1	0	0	0	3411	1490	52	5	399	5	CHST9	18	24496619	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	24161540	24496619	53580629	506	59441										
DTNA	1837	broad.mit.edu	37	chr18	32398154	32398154	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atccggttgagtgttcctacTgccacagtgagagtatgatg	12	8	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr18:32398154T>A	uc010dmn.1	+	7	737	c.736T>A	c.(736-738)TGC>AGC	p.C246S	DTNA_uc002kxu.2_Missense_Mutation_p.C246S|DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Missense_Mutation_p.C246S|DTNA_uc002kxw.2_Missense_Mutation_p.C246S|DTNA_uc002kxx.2_Missense_Mutation_p.C246S|DTNA_uc010dmj.2_Missense_Mutation_p.C246S|DTNA_uc002kxz.2_Missense_Mutation_p.C246S|DTNA_uc002kxy.2_Missense_Mutation_p.C246S|DTNA_uc010dmk.1_RNA|DTNA_uc010dml.2_Missense_Mutation_p.C246S|DTNA_uc002kyb.3_Missense_Mutation_p.C246S|DTNA_uc010dmm.2_Missense_Mutation_p.C246S|DTNA_uc010xby.1_5'UTR|DTNA_uc010dmo.2_5'Flank|DTNA_uc002kyd.3_5'Flank|DTNA_uc010xbz.1_5'Flank|DTNA_uc010xca.1_5'Flank|DTNA_uc002kye.2_5'Flank	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	246	Interaction with MAGEE1 (By similarity).|ZZ-type.				neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						GTGTTCCTACTGCCACAGTGA	0.468													21	61	---	---	---	---	PASS	A	32398154	A	A	32398154	3	1	165	1	0	0	0	0	1	0	0	0	4788	1580	55	5	762	5	DTNA	18	32398154	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	7901535	32398154	45679094	507	59442										
ELP2	55250	broad.mit.edu	37	chr18	33726217	33726217	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtctgttattgtacaggttcGagtaggtgaagtaggtggga	16	3	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr18:33726217G>T	uc002kzk.1	+	11	1008	c.998G>T	c.(997-999)CGA>CTA	p.R333L	ELP2_uc010xcg.1_Missense_Mutation_p.R398L|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Missense_Mutation_p.R307L|ELP2_uc010xch.1_Intron|ELP2_uc002kzn.1_Intron|ELP2_uc002kzo.1_Missense_Mutation_p.R263L	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	333					regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						GTACAGGTTCGAGTAGGTGAA	0.398													5	120	---	---	---	---	PASS	T	33726217	T	T	33726217	3	4	165	1	0	0	0	0	1	0	0	0	5080	1058	37	2	1040	2	ELP2	18	33726217	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1328063	33726217	44351031	508	59443										
C18orf10	25941	broad.mit.edu	37	chr18	34380196	34380196	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgtagacaaggcaaactttcCcactgccattgcatgaatcc	7	12	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr18:34380196C>A	uc002kzw.1	-	5	889	c.461G>T	c.(460-462)GGG>GTG	p.G154V	C18orf10_uc002kzv.1_Missense_Mutation_p.G154V|C18orf10_uc010xci.1_Missense_Mutation_p.G119V|C18orf10_uc002kzx.1_Missense_Mutation_p.G111V|C18orf10_uc002kzy.3_Missense_Mutation_p.G154V	NM_015476	NP_056291	Q68CL5	TPGS2_HUMAN	tubulin polyglutamylase complex subunit 2	154						cytoplasm|microtubule				skin(1)	1						GCAAACTTTCCCACTGCCATT	0.478													7	158	---	---	---	---	PASS	A	34380196	A	A	34380196	3	1	165	1	0	0	0	0	1	0	0	0	1895	623	22	3	453	3	C18orf10	18	34380196	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	653979	34380196	43697052	509	59444										
ATP5A1	498	broad.mit.edu	37	chr18	43664494	43664494	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tagtgcccaacaaggcttggTgctggctgacgacatgagac	13	10	0	2	rs146748835		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr18:43664494T>A	uc002lbr.1	-	11	1646	c.1556A>T	c.(1555-1557)CAC>CTC	p.H519L	ATP5A1_uc010dnl.1_Missense_Mutation_p.H469L|ATP5A1_uc002lbs.1_Missense_Mutation_p.H469L|ATP5A1_uc002lbt.1_Missense_Mutation_p.H519L	NM_004046	NP_004037	P25705	ATPA_HUMAN	ATP synthase, H+ transporting, mitochondrial F1	519					ATP hydrolysis coupled proton transport|embryo development|lipid metabolic process|negative regulation of endothelial cell proliferation|respiratory electron transport chain	mitochondrial matrix|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism				0						CAAGGCTTGGTGCTGGCTGAC	0.373													6	34	---	---	---	---	PASS	A	43664494	A	A	43664494	3	1	165	1	0	0	0	0	1	0	0	0	1147	1696	59	5	113	5	ATP5A1	18	43664494	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	9284298	43664494	34412754	510	59445										
NETO1	81832	broad.mit.edu	37	chr18	70526196	70526196	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acagaaacgtccaattattgGagaaaagccaaaaggtccat	8	8	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr18:70526196G>T	uc002lkw.2	-	4	618	c.334C>A	c.(334-336)CCA>ACA	p.P112T	NETO1_uc002lkx.1_Missense_Mutation_p.P111T|NETO1_uc002lky.1_Missense_Mutation_p.P112T|NETO1_uc002lkz.2_Missense_Mutation_p.P111T	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	112	CUB 1.|Extracellular (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		CCAATTATTGGAGAAAAGCCA	0.373													5	75	---	---	---	---	PASS	T	70526196	T	T	70526196	3	4	165	1	0	0	0	0	1	0	0	0	10339	1174	41	2	1304	2	NETO1	18	70526196	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	26861702	70526196	7551052	511	59446										
TSHZ1	10194	broad.mit.edu	37	chr18	73000059	73000059	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aacccgcagcaccttctcatCctgcaggcccagttcgcctc	7	19	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr18:73000059C>A	uc002lly.2	+	2	3125	c.2562C>A	c.(2560-2562)ATC>ATA	p.I854I		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	899	Homeobox; atypical.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		ACCTTCTCATCCTGCAGGCCC	0.602													6	17	---	---	---	---	PASS	A	73000059	A	A	73000059	2	1	165	1	0	0	0	0	0	0	0	1	16620	845	30	2		2	TSHZ1	18	73000059	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	2473863	73000059	5077189	512	59447										
DIRAS1	148252	broad.mit.edu	37	chr19	2717615	2717615	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggccgggaactggtggctgcCggtggtgtctgtgatctgca	18	9	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:2717615C>A	uc002lwf.3	-	2	348	c.190G>T	c.(190-192)GGC>TGC	p.G64C		NM_145173	NP_660156	O95057	DIRA1_HUMAN	DIRAS family, GTP-binding RAS-like 1	64	GTP (By similarity).				small GTPase mediated signal transduction	intracellular|plasma membrane	GTP binding|GTPase activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGTGGCTGCCGGTGGTGTCT	0.627													8	18	---	---	---	---	PASS	A	2717615	A	A	2717615	3	1	165	1	0	0	0	0	1	0	0	0	4530	652	23	1	410	1	DIRAS1	19	2717615	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08		2717615	56411368	513	59448										
ARRDC5	645432	broad.mit.edu	37	chr19	4902594	4902594	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctcgtccttaccctccactgGgaatgtctttgtcttatgca	7	13	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:4902594G>T	uc002mbm.2	-	1	286	c.286C>A	c.(286-288)CCA>ACA	p.P96T		NM_001080523	NP_001073992	A6NEK1	ARRD5_HUMAN	arrestin domain containing 5	96					signal transduction						0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0257)		CCCTCCACTGGGAATGTCTTT	0.473													5	66	---	---	---	---	PASS	T	4902594	T	T	4902594	3	4	165	1	0	0	0	0	1	0	0	0	986	1232	43	3	754	3	ARRDC5	19	4902594	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2184979	4902594	54226389	514	59449										
INSR	3643	broad.mit.edu	37	chr19	7152890	7152890	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tctggttgtgcttctgagaaTcttcagactcgaatggtgga	12	7	4	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:7152890T>C	uc002mgd.1	-	10	2187	c.2078A>G	c.(2077-2079)GAT>GGT	p.D693G	INSR_uc002mge.1_Missense_Mutation_p.D693G|INSR_uc002mgf.2_Missense_Mutation_p.D693G	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	693	Fibronectin type-III 1.				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CTTCTGAGAATCTTCAGACTC	0.532													21	77	---	---	---	---	PASS	C	7152890	C	C	7152890	3	2	165	1	0	0	0	0	1	0	0	0	7773	1435	50	5	2122	5	INSR	19	7152890	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	2250296	7152890	51976093	515	59450										
MUC16	94025	broad.mit.edu	37	chr19	9071136	9071136	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agtcagctaggacagaggatTgtgatttatgtccagacccg	12	8	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:9071136T>G	uc002mkp.2	-	3	16514	c.16310A>C	c.(16309-16311)CAA>CCA	p.Q5437P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5439	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GACAGAGGATTGTGATTTATG	0.507													14	214	---	---	---	---	PASS	G	9071136	G	G	9071136	3	3	165	1	0	0	0	0	1	0	0	0	9973	1812	63	5	27541	5	MUC16	19	9071136	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	1918246	9071136	50057847	516	59451										
MUC16	94025	broad.mit.edu	37	chr19	9074850	9074850	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgtctgtggtcttccccaggCcagaggtctcagacaagaaa	11	11	3	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:9074850C>T	uc002mkp.2	-	3	12800	c.12596G>A	c.(12595-12597)GGC>GAC	p.G4199D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4201	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTTCCCCAGGCCAGAGGTCTC	0.498													5	69	---	---	---	---	PASS	T	9074850	T	T	9074850	3	4	165	1	0	0	0	0	1	0	0	0	9973	739	26	3	31255	3	MUC16	19	9074850	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3714	9074850	50054133	517	59452										
RAD23A	5886	broad.mit.edu	37	chr19	13059563	13059563	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	catgggctatgagcgagagcGggtcgtggccgccctgagag	18	10	0	3	rs4987203	byFrequency	TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:13059563G>T	uc002mvw.1	+	5	645	c.536G>T	c.(535-537)CGG>CTG	p.R179L	RAD23A_uc002mvx.1_Missense_Mutation_p.R179L|RAD23A_uc002mvz.1_Missense_Mutation_p.R179L|RAD23A_uc002mwa.1_Missense_Mutation_p.R179L|RAD23A_uc002mvy.1_Missense_Mutation_p.R14L|RAD23A_uc010xmw.1_Missense_Mutation_p.R14L	NM_005053	NP_005044	P54725	RD23A_HUMAN	UV excision repair protein RAD23 homolog A	179	UBA 1.				interspecies interaction between organisms|nucleotide-excision repair|positive regulation of viral genome replication|proteasomal ubiquitin-dependent protein catabolic process|regulation of proteasomal ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	damaged DNA binding|polyubiquitin binding|single-stranded DNA binding			central_nervous_system(1)	1						GAGCGAGAGCGGGTCGTGGCC	0.622								NER					21	54	---	---	---	---	PASS	T	13059563	T	T	13059563	3	4	165	1	0	0	0	0	1	0	0	0	12982	1116	39	1	554	1	RAD23A	19	13059563	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	3984713	13059563	46069420	518	59453										
LPHN1	22859	broad.mit.edu	37	chr19	14288365	14288365	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgtgacatgatcttgaaggCgtccggcaggtagcactgca	13	10	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:14288365C>A	uc010xnn.1	-	3	558	c.262G>T	c.(262-264)GCC>TCC	p.A88S	LPHN1_uc010xno.1_Missense_Mutation_p.A88S	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	88	SUEL-type lectin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						ATCTTGAAGGCGTCCGGCAGG	0.567													27	91	---	---	---	---	PASS	A	14288365	A	A	14288365	3	1	165	1	0	0	0	0	1	0	0	0	8915	768	27	1	4250	1	LPHN1	19	14288365	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1228802	14288365	44840618	519	59454										
SLC1A6	6511	broad.mit.edu	37	chr19	15083565	15083565	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaatgaaggcgtttcggcgcAggaagcgcagcacgtgctcg	16	10	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:15083565A>T	uc002naa.1	-	1	166	c.158T>A	c.(157-159)CTG>CAG	p.L53Q	SLC1A6_uc010dzu.1_Missense_Mutation_p.L53Q|SLC1A6_uc010xod.1_Silent_p.P57P|SLC1A6_uc002nab.2_Missense_Mutation_p.L53Q|SLC1A6_uc002nac.2_Missense_Mutation_p.L53Q|SLC1A6_uc002nad.1_Missense_Mutation_p.L53Q	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	53	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	GTTTCGGCGCAGGAAGCGCAG	0.657													4	20	---	---	---	---	PASS	T	15083565	T	T	15083565	3	4	165	1	0	0	0	0	1	0	0	0	14436	188	7	5	1572	5	SLC1A6	19	15083565	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	795200	15083565	44045418	520	59455										
C19orf44	84167	broad.mit.edu	37	chr19	16611672	16611672	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gacttcagtgatgtttccttGgaagattcaacaatggaaga	10	6	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:16611672G>T	uc002neh.1	+	2	142	c.69G>T	c.(67-69)TTG>TTT	p.L23F	MED26_uc002nee.2_Intron|C19orf44_uc002nef.1_Missense_Mutation_p.L23F|C19orf44_uc002neg.2_Missense_Mutation_p.L23F|C19orf44_uc010eai.1_RNA	NM_032207	NP_115583	Q9H6X5	CS044_HUMAN	hypothetical protein LOC84167	23											0						ATGTTTCCTTGGAAGATTCAA	0.413													5	84	---	---	---	---	PASS	T	16611672	T	T	16611672	3	4	165	1	0	0	0	0	1	0	0	0	1927	1339	47	3	71	3	C19orf44	19	16611672	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1528107	16611672	42517311	521	59456										
ZNF682	91120	broad.mit.edu	37	chr19	20117806	20117806	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acatttgaaaagtttctctgTagtatgtcttatgttttctc	6	6	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:20117806T>C	uc002noq.2	-	4	628	c.505A>G	c.(505-507)ACA>GCA	p.T169A	ZNF682_uc002noo.2_Missense_Mutation_p.T137A|ZNF682_uc002nop.2_Missense_Mutation_p.T137A|ZNF682_uc010eck.2_Missense_Mutation_p.T93A	NM_033196	NP_149973	O95780	ZN682_HUMAN	zinc finger protein 682 isoform 1	169					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						AGTTTCTCTGTAGTATGTCTT	0.308													7	10	---	---	---	---	PASS	C	20117806	C	C	20117806	3	2	165	1	0	0	0	0	1	0	0	0	18086	1638	57	5	995	5	ZNF682	19	20117806	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	3506134	20117806	39011177	522	59457										
ZNF714	148206	broad.mit.edu	37	chr19	21300743	21300743	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atactggagagaaactctacAaatgtgaagaatgtggcaaa	10	5	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:21300743A>T	uc002npo.3	+	6	1636	c.1276A>T	c.(1276-1278)AAA>TAA	p.K426*	ZNF714_uc002npl.2_Nonsense_Mutation_p.K271*|ZNF714_uc010ecp.1_Nonsense_Mutation_p.K377*|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	426	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAAACTCTACAAATGTGAAGA	0.373													19	47	---	---	---	---	PASS	T	21300743	T	T	21300743	4	4	165	1	0	0	0	0	0	1	0	0	18115	131	5	5	1283	5	ZNF714	19	21300743	Nonsense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	1182937	21300743	37828240	523	59458										
ZNF99	7652	broad.mit.edu	37	chr19	22939151	22939151	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aggtgtgaggactggttaaaGgctttgccacattcttcaca	11	8	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:22939151G>T	uc010xrh.1	-	8	2967	c.2967C>A	c.(2965-2967)GCC>GCA	p.A989A		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)				ACTGGTTAAAGGCTTTGCCAC	0.373													5	68	---	---	---	---	PASS	T	22939151	T	T	22939151	2	4	165	1	0	0	0	0	0	0	0	1	18201	987	35	3		3	ZNF99	19	22939151	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	1638408	22939151	36189832	524	59459										
ZNF675	171392	broad.mit.edu	37	chr19	23836363	23836363	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggattggataaaagctttgcCacattcttcacatttgtagg	9	7	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:23836363C>A	uc002nri.2	-	4	1554	c.1372G>T	c.(1372-1374)GGC>TGC	p.G458C		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	458	C2H2-type 12.				bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				AAAGCTTTGCCACATTCTTCA	0.353													6	40	---	---	---	---	PASS	A	23836363	A	A	23836363	3	1	165	1	0	0	0	0	1	0	0	0	18079	594	21	3	338	3	ZNF675	19	23836363	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	897212	23836363	35292620	525	59460										
PLEKHF1	79156	broad.mit.edu	37	chr19	30164785	30164785	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aacacggagatcaacagccaGcgcatcgcggcagtggagag	14	11	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:30164785G>C	uc002nsh.3	+	2	141	c.39G>C	c.(37-39)CAG>CAC	p.Q13H	PLEKHF1_uc002nsi.3_Missense_Mutation_p.Q98H	NM_024310	NP_077286	Q96S99	PKHF1_HUMAN	apoptosis-inducing protein D	13					apoptosis	lysosome|nucleus|perinuclear region of cytoplasm	metal ion binding				0	Ovarian(5;0.000567)|Breast(6;0.0602)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0623)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.225)			TCAACAGCCAGCGCATCGCGG	0.667													12	32	---	---	---	---	PASS	C	30164785	C	C	30164785	3	2	165	1	0	0	0	0	1	0	0	0	12066	962	34	4	41	4	PLEKHF1	19	30164785	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	6328422	30164785	28964198	526	59461										
ZNF420	147923	broad.mit.edu	37	chr19	37618677	37618677	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aatgtgggaaggcctttactCagaattcacaacttacacta	7	9	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:37618677C>G	uc002ofl.2	+	5	999	c.784C>G	c.(784-786)CAG>GAG	p.Q262E		NM_144689	NP_653290	Q8TAQ5	ZN420_HUMAN	zinc finger protein 420	262	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GGCCTTTACTCAGAATTCACA	0.388													24	62	---	---	---	---	PASS	G	37618677	G	G	37618677	3	3	165	1	0	0	0	0	1	0	0	0	17894	827	29	2	794	2	ZNF420	19	37618677	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	7453892	37618677	21510306	527	59462										
RASGRP4	115727	broad.mit.edu	37	chr19	38911579	38911579	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acagatctgcagccgtctcaGctcctgggtgtcccctgtgg	12	14	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:38911579G>T	uc002oir.2	-	4	560	c.346C>A	c.(346-348)CTG>ATG	p.L116M	RASGRP4_uc010efz.1_RNA|RASGRP4_uc010ega.1_RNA|RASGRP4_uc010xua.1_Missense_Mutation_p.L116M|RASGRP4_uc010xub.1_Missense_Mutation_p.L116M|RASGRP4_uc010xuc.1_Missense_Mutation_p.L116M|RASGRP4_uc010xud.1_Missense_Mutation_p.L116M|RASGRP4_uc010xue.1_Missense_Mutation_p.L116M|RASGRP4_uc010egb.2_Missense_Mutation_p.L116M	NM_170604	NP_733749	Q8TDF6	GRP4_HUMAN	RAS guanyl releasing protein 4 isoform a	116	N-terminal Ras-GEF.				activation of phospholipase C activity|cell growth|cell proliferation|myeloid cell differentiation|positive regulation of Ras protein signal transduction|regulation of G-protein coupled receptor protein signaling pathway|response to extracellular stimulus|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|membrane fraction|plasma membrane|soluble fraction	diacylglycerol binding|GTP-dependent protein binding|metal ion binding|Ras guanyl-nucleotide exchange factor activity			pancreas(1)|lung(1)|skin(1)	3	all_cancers(60;4.21e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			AGCCGTCTCAGCTCCTGGGTG	0.577													17	44	---	---	---	---	PASS	T	38911579	T	T	38911579	3	4	165	1	0	0	0	0	1	0	0	0	13077	962	34	3	1731	3	RASGRP4	19	38911579	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1292902	38911579	20217404	528	59463										
RYR1	6261	broad.mit.edu	37	chr19	38993342	38993342	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aggcgcagcgtgacgtcatcGaggactgcctcatgtcgctc	13	13	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:38993342G>A	uc002oit.2	+	48	7940	c.7810G>A	c.(7810-7812)GAG>AAG	p.E2604K	RYR1_uc002oiu.2_Missense_Mutation_p.E2604K|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2604	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TGACGTCATCGAGGACTGCCT	0.458													6	12	---	---	---	---	PASS	A	38993342	A	A	38993342	3	1	165	1	0	0	0	0	1	0	0	0	13768	1059	37	2	8000	2	RYR1	19	38993342	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	81763	38993342	20135641	529	59464										
MAP4K1	11184	broad.mit.edu	37	chr19	39100635	39100635	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aagatccaggatcaggcctcGattcagcccaggctgggata	12	11	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:39100635G>T	uc002oix.1	-	12	949	c.841C>A	c.(841-843)CGA>AGA	p.R281R	MAP4K1_uc002oiw.1_5'Flank|MAP4K1_uc002oiy.1_Silent_p.R281R|MAP4K1_uc010xug.1_5'UTR	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	281					activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			ATCAGGCCTCGATTCAGCCCA	0.577													16	30	---	---	---	---	PASS	T	39100635	T	T	39100635	2	4	165	1	0	0	0	0	0	0	0	1	9259	1066	37	2		2	MAP4K1	19	39100635	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	107293	39100635	20028348	530	59465										
FCGBP	8857	broad.mit.edu	37	chr19	40368472	40368472	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggcacatgagcatggcaggtGgtgaaggggccccctgtgcc	17	11	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:40368472G>A	uc002omp.3	-	28	12884	c.12876C>T	c.(12874-12876)ACC>ACT	p.T4292T		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4292	VWFD 10.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CATGGCAGGTGGTGAAGGGGC	0.627													13	61	---	---	---	---	PASS	A	40368472	A	A	40368472	2	1	165	1	0	0	0	0	0	0	0	1	5778	1335	47	3		3	FCGBP	19	40368472	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	1267837	40368472	18760511	531	59466										
FCGBP	8857	broad.mit.edu	37	chr19	40433521	40433521	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cgtgggtactacatagtgggTgccccaggcagacgtgggta	16	9	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:40433521T>A	uc002omp.3	-	2	756	c.748A>T	c.(748-750)ACC>TCC	p.T250S		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	250	IgGFc-binding.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			ACATAGTGGGTGCCCCAGGCA	0.582													13	23	---	---	---	---	PASS	A	40433521	A	A	40433521	3	1	165	1	0	0	0	0	1	0	0	0	5778	1696	59	5	15609	5	FCGBP	19	40433521	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	65049	40433521	18695462	532	59467										
ATP1A3	478	broad.mit.edu	37	chr19	42486229	42486229	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	accaggcagttcttccgggcCatgcgcttggcggtcagcgt	14	13	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:42486229C>A	uc002osg.2	-	9	1177	c.1023G>T	c.(1021-1023)ATG>ATT	p.M341I	ATP1A3_uc010xwf.1_Missense_Mutation_p.M352I|ATP1A3_uc010xwg.1_Missense_Mutation_p.M311I|ATP1A3_uc010xwh.1_Missense_Mutation_p.M354I|ATP1A3_uc002osh.2_Missense_Mutation_p.M341I	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	341	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						tcttccGGGCCATGCGCTTGG	0.478													18	59	---	---	---	---	PASS	A	42486229	A	A	42486229	3	1	165	1	0	0	0	0	1	0	0	0	1130	594	21	3	2078	3	ATP1A3	19	42486229	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	2052708	42486229	16642754	533	59468										
PSG1	5669	broad.mit.edu	37	chr19	43375969	43375969	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggctggcactcactgggttcCgtatttcacattcatagggt	11	10	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:43375969C>T	uc002ovb.2	-	3	797	c.659G>A	c.(658-660)CGG>CAG	p.R220Q	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Missense_Mutation_p.R220Q|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_RNA|PSG1_uc002our.1_Missense_Mutation_p.R220Q|PSG1_uc010eio.1_Missense_Mutation_p.R220Q|PSG1_uc002oux.1_Missense_Mutation_p.R149Q|PSG1_uc002ouy.1_Missense_Mutation_p.R220Q|PSG1_uc002ouz.1_Missense_Mutation_p.R220Q|PSG1_uc002ova.1_Intron|PSG1_uc002ovc.2_Intron|PSG1_uc002ovd.1_Missense_Mutation_p.R220Q	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	220	Ig-like C2-type 1.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				CACTGGGTTCCGTATTTCACA	0.517													8	294	---	---	---	---	PASS	T	43375969	T	T	43375969	3	4	165	1	0	0	0	0	1	0	0	0	12653	652	23	1	669	1	PSG1	19	43375969	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	889740	43375969	15753014	534	59469										
PSG7	5676	broad.mit.edu	37	chr19	43430142	43430142	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttttgtcctgaatggtaataGgtgaatgaagggtaaattct	11	3	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:43430142G>A	uc002ovl.3	-	6	1128	c.1026C>T	c.(1024-1026)ACC>ACT	p.T342T	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Silent_p.T255T|PSG7_uc002ous.1_RNA|PSG7_uc002out.1_Silent_p.T68T|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Silent_p.T255T|PSG7_uc010xwl.1_Silent_p.T220T	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	342	Ig-like C2-type 3.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				AATGGTAATAGGTGAATGAAG	0.478													44	150	---	---	---	---	PASS	A	43430142	A	A	43430142	2	1	165	1	0	0	0	0	0	0	0	1	12660	987	35	3		3	PSG7	19	43430142	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	54173	43430142	15698841	535	59470										
BCAM	4059	broad.mit.edu	37	chr19	45317915	45317915	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aggggaacttgaccctggagGgagtgacccggggccagagc	18	10	0	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:45317915G>T	uc002ozu.2	+	8	1020	c.976G>T	c.(976-978)GGA>TGA	p.G326*	BCAM_uc002ozt.1_Nonsense_Mutation_p.G326*	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	326	Extracellular (Potential).|Ig-like C2-type 1.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				GACCCTGGAGGGAGTGACCCG	0.632													12	27	---	---	---	---	PASS	T	45317915	T	T	45317915	4	4	165	1	0	0	0	0	0	1	0	0	1344	1233	43	3	1006	3	BCAM	19	45317915	Nonsense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1887773	45317915	13811068	536	59471										
RSPH6A	81492	broad.mit.edu	37	chr19	46313920	46313920	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tccactccgggtgaacagcgCcttctgtttctccgccatct	8	16	3	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:46313920C>G	uc002pdm.2	-	2	972	c.829G>C	c.(829-831)GCG>CCG	p.A277P	RSPH6A_uc002pdl.2_Missense_Mutation_p.A13P	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	277						intracellular				ovary(1)|central_nervous_system(1)	2						GTGAACAGCGCCTTCTGTTTC	0.632													22	62	---	---	---	---	PASS	G	46313920	G	G	46313920	3	3	165	1	0	0	0	0	1	0	0	0	13707	739	26	4	1344	4	RSPH6A	19	46313920	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	996005	46313920	12815063	537	59472										
NTN5	126147	broad.mit.edu	37	chr19	49174065	49174066	+	Frame_Shift_Ins	INS	-	T	T													0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agtcaggctgccattgcaggINStttccctggcgccaaggtgg							TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:49174065_49174066insT	uc002pkb.2	-	2	274_275	c.178_179insA	c.(178-180)ACCfs	p.T60fs	SEC1_uc010xzv.1_Intron|SEC1_uc002pka.2_Intron|SEC1_uc010xzw.1_Intron|SEC1_uc010ema.2_Intron|NTN5_uc002pkc.2_Frame_Shift_Ins_p.T60fs	NM_145807	NP_665806	Q8WTR8	NET5_HUMAN	netrin 5 precursor	60						extracellular region				large_intestine(1)|pancreas(1)	2						GCCATTGCAGGTTTCCCTGGCG	0.649													21	13	---	---	---	---		T	49174066	T	T	49174065	7	5	165	1	0	1	1	0	0	0	0	0	10703	1261	44	0	1314	0	NTN5	19	49174065	Frame_Shift_Ins	INS	-	TCGA-66-2787-01A-01D-0983-08	2860145	49174065	9954918	538	59473										
HRC	3270	broad.mit.edu	37	chr19	49658431	49658431	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgggtcatggccggggggaGgagcaggctggccaccccag	19	12	1	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:49658431G>A	uc002pmv.2	-	1	251	c.64C>T	c.(64-66)CTC>TTC	p.L22F	TRPM4_uc002pmw.2_5'Flank|TRPM4_uc010emu.2_5'Flank|TRPM4_uc010yak.1_5'Flank|TRPM4_uc002pmx.2_5'Flank|TRPM4_uc010emv.2_5'Flank|TRPM4_uc010yal.1_5'Flank	NM_002152	NP_002143	P23327	SRCH_HUMAN	histidine rich calcium binding protein	22					muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			ovary(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		GCCGGGGGGAGGAGCAGGCTG	0.667													11	15	---	---	---	---	PASS	A	49658431	A	A	49658431	3	1	165	1	0	0	0	0	1	0	0	0	7352	1000	35	3	2059	3	HRC	19	49658431	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	484366	49658431	9470552	539	59474										
KLK15	55554	broad.mit.edu	37	chr19	51329879	51329879	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gcccctctaggctctgacctCacaggattctgcgcctctgc	9	17	5	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:51329879C>T	uc002ptl.2	-	4	647	c.616G>A	c.(616-618)GAG>AAG	p.E206K	KLK1_uc002ptk.1_5'Flank|KLK1_uc010ycg.1_5'Flank|KLK15_uc002ptm.2_Intron|KLK15_uc002ptn.2_Intron|KLK15_uc002pto.2_Missense_Mutation_p.E205K|KLK15_uc010ych.1_RNA|KLK15_uc010yci.1_Intron|KLK15_uc010eod.2_Intron	NM_017509	NP_059979	Q9H2R5	KLK15_HUMAN	kallikrein-related peptidase 15 isoform 4	206	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)|breast(1)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00758)|GBM - Glioblastoma multiforme(134;0.0143)		GCTCTGACCTCACAGGATTCT	0.582													11	56	---	---	---	---	PASS	T	51329879	T	T	51329879	3	4	165	1	0	0	0	0	1	0	0	0	8403	835	29	2	162	2	KLK15	19	51329879	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1671448	51329879	7799104	540	59475										
KLK5	25818	broad.mit.edu	37	chr19	51452188	51452188	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gagggacaatgagaggagacGttgatgggtctgacatcttt	15	5	2	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:51452188G>A	uc002pue.2	-	5	737	c.519C>T	c.(517-519)AAC>AAT	p.N173N	KLK5_uc002puf.2_Silent_p.N173N|KLK5_uc002pug.2_Silent_p.N173N	NM_001077491	NP_001070959	Q9Y337	KLK5_HUMAN	kallikrein-related peptidase 5 preproprotein	173	Peptidase S1.				epidermis development|positive regulation of G-protein coupled receptor protein signaling pathway|proteolysis	extracellular space	protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00379)|GBM - Glioblastoma multiforme(134;0.00888)		GAGAGGAGACGTTGATGGGTC	0.537													8	30	---	---	---	---	PASS	A	51452188	A	A	51452188	2	1	165	1	0	0	0	0	0	0	0	1	8407	1136	40	1		1	KLK5	19	51452188	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	122309	51452188	7676795	541	59476										
ZNF613	79898	broad.mit.edu	37	chr19	52448633	52448633	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttcagagataaatcatgtctCaacagacatcggagaactca	7	9	4	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:52448633C>T	uc002pxz.1	+	6	1920	c.1497C>T	c.(1495-1497)CTC>CTT	p.L499L	ZNF613_uc002pya.1_Silent_p.L463L	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	499	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		AATCATGTCTCAACAGACATC	0.448													15	33	---	---	---	---	PASS	T	52448633	T	T	52448633	2	4	165	1	0	0	0	0	0	0	0	1	18035	813	29	2		2	ZNF613	19	52448633	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	996445	52448633	6680350	542	59477										
ZNF677	342926	broad.mit.edu	37	chr19	53741317	53741317	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggtgaaactgaggaactattGatagacttctcaactggatt	10	6	1	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:53741317G>T	uc002qbf.1	-	5	848	c.663C>A	c.(661-663)ATC>ATA	p.I221I	ZNF677_uc002qbg.1_Silent_p.I221I	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	221					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		AGGAACTATTGATAGACTTCT	0.343													8	32	---	---	---	---	PASS	T	53741317	T	T	53741317	2	4	165	1	0	0	0	0	0	0	0	1	18081	1280	45	2		2	ZNF677	19	53741317	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	1292684	53741317	5387666	543	59478										
NLRP12	91662	broad.mit.edu	37	chr19	54314451	54314451	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	aggagccgggtgtaccggtgGctgaggttgacacattcccc	15	11	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:54314451G>T	uc002qch.3	-	3	682	c.462C>A	c.(460-462)AGC>AGA	p.S154R	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Missense_Mutation_p.S154R|NLRP12_uc002qcj.3_Missense_Mutation_p.S154R|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.S154R	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	154					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		TGTACCGGTGGCTGAGGTTGA	0.617													25	62	---	---	---	---	PASS	T	54314451	T	T	54314451	3	4	165	1	0	0	0	0	1	0	0	0	10474	1194	42	3	2851	3	NLRP12	19	54314451	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	573134	54314451	4814532	544	59479										
ZNF667	63934	broad.mit.edu	37	chr19	56953379	56953379	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acattttctgcatttaaaagGattctctaaatggtgacttc	6	7	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:56953379G>T	uc002qnd.2	-	5	1147	c.985C>A	c.(985-987)CCT>ACT	p.P329T	ZNF667_uc010etl.2_Missense_Mutation_p.P111T|ZNF667_uc002qne.2_Missense_Mutation_p.P329T|ZNF667_uc010etm.2_Missense_Mutation_p.P272T	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	329					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		CATTTAAAAGGATTCTCTAAA	0.368													15	66	---	---	---	---	PASS	T	56953379	T	T	56953379	3	4	165	1	0	0	0	0	1	0	0	0	18071	1174	41	2	851	2	ZNF667	19	56953379	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	2638928	56953379	2175604	545	59480										
ZNF835	90485	broad.mit.edu	37	chr19	57175029	57175029	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctcctccctgtgagagcccaGgtgttgagtcaggcgtggga	15	11	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:57175029G>T	uc010ygo.1	-	2	1604	c.1604C>A	c.(1603-1605)CCT>CAT	p.P535H	ZNF835_uc010ygn.1_Missense_Mutation_p.P513H	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						TGAGAGCCCAGGTGTTGAGTC	0.602													5	77	---	---	---	---	PASS	T	57175029	T	T	57175029	3	4	165	1	0	0	0	0	1	0	0	0	18183	1000	35	3	77	3	ZNF835	19	57175029	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	221650	57175029	1953954	546	59481										
PEG3	5178	broad.mit.edu	37	chr19	57326183	57326183	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctctctgcagcacgattcctCcgtggcttcatgggcaagag	11	13	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:57326183C>A	uc002qnu.2	-	7	3978	c.3627G>T	c.(3625-3627)CGG>CGT	p.R1209R	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.R1180R|PEG3_uc002qnv.2_Silent_p.R1209R|PEG3_uc002qnw.2_Silent_p.R1085R|PEG3_uc002qnx.2_Silent_p.R1083R|PEG3_uc010etr.2_Silent_p.R1209R	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1209					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CACGATTCCTCCGTGGCTTCA	0.493													28	70	---	---	---	---	PASS	A	57326183	A	A	57326183	2	1	165	1	0	0	0	0	0	0	0	1	11720	842	30	2		2	PEG3	19	57326183	Silent	SNP	C	TCGA-66-2787-01A-01D-0983-08	151154	57326183	1802800	547	59482										
PEG3	5178	broad.mit.edu	37	chr19	57327459	57327459	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gacttttctgagcttccacaGaggctaagctatgaataaca	8	9	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:57327459G>T	uc002qnu.2	-	7	2702	c.2351C>A	c.(2350-2352)TCT>TAT	p.S784Y	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.S755Y|PEG3_uc002qnv.2_Missense_Mutation_p.S784Y|PEG3_uc002qnw.2_Missense_Mutation_p.S660Y|PEG3_uc002qnx.2_Missense_Mutation_p.S658Y|PEG3_uc010etr.2_Missense_Mutation_p.S784Y	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	784					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		AGCTTCCACAGAGGCTAAGCT	0.428													6	142	---	---	---	---	PASS	T	57327459	T	T	57327459	3	4	165	1	0	0	0	0	1	0	0	0	11720	942	33	2	2419	2	PEG3	19	57327459	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	1276	57327459	1801524	548	59483										
ZIM3	114026	broad.mit.edu	37	chr19	57646983	57646983	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctttagtatgcattttctgaTgttgaaagagatttgacttc	8	5	1	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:57646983T>G	uc002qnz.1	-	5	1108	c.722A>C	c.(721-723)CAT>CCT	p.H241P		NM_052882	NP_443114	Q96PE6	ZIM3_HUMAN	zinc finger, imprinted 3	241	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.243)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CATTTTCTGATGTTGAAAGAG	0.373													13	58	---	---	---	---	PASS	G	57646983	G	G	57646983	3	3	165	1	0	0	0	0	1	0	0	0	17682	1464	51	5	700	5	ZIM3	19	57646983	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	319524	57646983	1482000	549	59484										
ZSCAN4	201516	broad.mit.edu	37	chr19	58187877	58187877	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tggagagattcatagaagacCtgactgatgacagcataaat	10	6	1	6			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr19:58187877C>A	uc002qpu.2	+	3	1061	c.364C>A	c.(364-366)CTG>ATG	p.L122M		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	122	SCAN box.				telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CATAGAAGACCTGACTGATGA	0.423													15	39	---	---	---	---	PASS	A	58187877	A	A	58187877	3	1	165	1	0	0	0	0	1	0	0	0	18234	680	24	3	366	3	ZSCAN4	19	58187877	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	540894	58187877	941106	550	59485										
PANK2	80025	broad.mit.edu	37	chr20	3888926	3888926	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttgagcaggattttctcacaGtatgcattttttagcttata	7	6	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr20:3888926G>A	uc002wkc.2	+	2	987	c.981_splice	c.e2+1	p.T327_splice	PANK2_uc002wkb.2_Splice_Site_p.T36_splice|PANK2_uc010gbd.1_Splice_Site|PANK2_uc002wkd.2_Intron|PANK2_uc002wke.2_Splice_Site_p.T36_splice|PANK2_uc002wkf.2_Intron	NM_153638	NP_705902	Q9BZ23	PANK2_HUMAN	pantothenate kinase 2 isoform 1 preproprotein						cell death|coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial intermembrane space|nucleus	ATP binding|pantothenate kinase activity|protein binding				0						TTTTCTCACAGTATGCATTTT	0.348													6	16	---	---	---	---	PASS	A	3888926	A	A	3888926	5	1	165	1	0	0	0	0	0	0	1	0	11417	1043	36	3	988	3	PANK2	20	3888926	Splice_Site	SNP	G	TCGA-66-2787-01A-01D-0983-08		3888926	59136594	551	59486										
ASXL1	171023	broad.mit.edu	37	chr20	31022723	31022723	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgcctactacagagggctacAgttggactcacagatgggct	12	10	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr20:31022723A>T	uc002wxs.2	+	12	2634	c.2208A>T	c.(2206-2208)ACA>ACT	p.T736T	ASXL1_uc010geb.2_Silent_p.T627T	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	736					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						AGAGGGCTACAGTTGGACTCA	0.592			F|N|Mis		MDS|CMML								6	25	---	---	---	---	PASS	T	31022723	T	T	31022723	2	4	165	1	0	0	0	0	0	0	0	1	1066	175	7	5		5	ASXL1	20	31022723	Silent	SNP	A	TCGA-66-2787-01A-01D-0983-08	27133797	31022723	32002797	552	59487										
DNMT3B	1789	broad.mit.edu	37	chr20	31381363	31381363	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggttaataagtcgaaggtgcGtcgtgcaggcagtaggaaat	15	5	0	0	rs138596278		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr20:31381363G>A	uc002wyc.2	+	10	1409	c.1088G>A	c.(1087-1089)CGT>CAT	p.R363H	DNMT3B_uc010ztx.1_Intron|DNMT3B_uc010zty.1_Intron|DNMT3B_uc002wyd.2_Intron|DNMT3B_uc002wye.2_Intron|DNMT3B_uc010gee.2_Intron|DNMT3B_uc010gef.2_Intron|DNMT3B_uc010ztz.1_Intron|DNMT3B_uc010zua.1_Intron|DNMT3B_uc002wyf.2_Intron|DNMT3B_uc002wyg.2_Missense_Mutation_p.R62H	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	363					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						tcgaaggtgcgtcgtgcaggc	0.134													6	19	---	---	---	---	PASS	A	31381363	A	A	31381363	3	1	165	1	0	0	0	0	1	0	0	0	4677	1145	40	1	1162	1	DNMT3B	20	31381363	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	358640	31381363	31644157	553	59488										
CTNNBL1	56259	broad.mit.edu	37	chr20	36375010	36375010	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gctcggacacgataatacagAtatcctttcagatctgacct	7	11	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr20:36375010A>T	uc010zvw.1	+	4	556	c.465_splice	c.e4+2	p.T155_splice	CTNNBL1_uc002xhh.2_5'UTR|CTNNBL1_uc010zvv.1_Missense_Mutation_p.D129V	NM_030877	NP_110517	Q8WYA6	CTBL1_HUMAN	beta catenin-like 1						apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)				GATAATACAGATATCCTTTCA	0.498													5	54	---	---	---	---	PASS	T	36375010	T	T	36375010	5	4	165	1	0	0	0	0	0	0	1	0	4018	347	12	5	481	5	CTNNBL1	20	36375010	Splice_Site	SNP	A	TCGA-66-2787-01A-01D-0983-08	4993647	36375010	26650510	554	59489										
CHD6	84181	broad.mit.edu	37	chr20	40068760	40068760	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctgctcgcatggcattgtacCtttcataacctgatcaagag	8	11	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr20:40068760C>T	uc002xka.1	-	26	4065	c.3887G>A	c.(3886-3888)AGG>AAG	p.R1296K	CHD6_uc002xkb.1_Missense_Mutation_p.R62K	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1296					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				GGCATTGTACCTTTCATAACC	0.443													10	42	---	---	---	---	PASS	T	40068760	T	T	40068760	3	4	165	1	0	0	0	0	1	0	0	0	3329	681	24	3	4308	3	CHD6	20	40068760	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3693750	40068760	22956760	555	59490										
SLC12A5	57468	broad.mit.edu	37	chr20	44675020	44675020	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ttgtgaatctggcctgtgcaGtgcagacgctgctgaggaca	14	9	1	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr20:44675020G>T	uc010zxl.1	+	14	1877	c.1801G>T	c.(1801-1803)GTG>TTG	p.V601L	SLC12A5_uc010zxm.1_RNA|SLC12A5_uc002xrb.2_Missense_Mutation_p.V578L	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	601	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	GGCCTGTGCAGTGCAGACGCT	0.552													7	35	---	---	---	---	PASS	T	44675020	T	T	44675020	3	4	165	1	0	0	0	0	1	0	0	0	14386	1029	36	3	1911	3	SLC12A5	20	44675020	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	4606260	44675020	18350500	556	59491										
CASS4	57091	broad.mit.edu	37	chr20	55027876	55027876	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tggcctctggaagttcttgtGactgacagtgtccagaacag	12	9	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr20:55027876G>A	uc002xxp.2	+	6	1869	c.1644G>A	c.(1642-1644)GTG>GTA	p.V548V	CASS4_uc002xxq.3_Silent_p.V548V|CASS4_uc002xxr.2_Silent_p.V548V|CASS4_uc010zze.1_Silent_p.V494V|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	548					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						AAGTTCTTGTGACTGACAGTG	0.493													6	35	---	---	---	---	PASS	A	55027876	A	A	55027876	2	1	165	1	0	0	0	0	0	0	0	1	2683	1277	45	2		2	CASS4	20	55027876	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	10352856	55027876	7997644	557	59492										
EDN3	1908	broad.mit.edu	37	chr20	57896155	57896155	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gccacttccagggaatctgcAgctctcacatcggccacact	8	16	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr20:57896155A>T	uc002yap.2	+	3	818	c.449A>T	c.(448-450)CAG>CTG	p.Q150L	EDN3_uc002yao.1_Missense_Mutation_p.Q150L|EDN3_uc002yaq.2_Missense_Mutation_p.Q150L|EDN3_uc002yar.2_Missense_Mutation_p.Q150L|EDN3_uc002yas.2_Missense_Mutation_p.Q150L	NM_000114	NP_000105	P14138	EDN3_HUMAN	endothelin 3 isoform 1 preproprotein	150					cell surface receptor linked signaling pathway|inositol phosphate-mediated signaling|neutrophil chemotaxis|peptide hormone secretion|positive regulation of heart rate|positive regulation of hormone secretion|positive regulation of leukocyte chemotaxis|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	extracellular space|soluble fraction	endothelin B receptor binding|hormone activity			skin(1)	1	all_lung(29;0.0115)					GGGAATCTGCAGCTCTCACAT	0.577													11	37	---	---	---	---	PASS	T	57896155	T	T	57896155	3	4	165	1	0	0	0	0	1	0	0	0	4918	188	7	5	459	5	EDN3	20	57896155	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	2868279	57896155	5129365	558	59493										
RTEL1	51750	broad.mit.edu	37	chr20	62319501	62319501	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tccggctctaggttttccgaGgagtgcttatcctccctggg	12	12	1	0	rs114292675	byFrequency	TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr20:62319501G>A	uc002yfu.1	+	19	1948	c.1605G>A	c.(1603-1605)GAG>GAA	p.E535E	RTEL1_uc011abc.1_RNA|RTEL1_uc002yft.1_Silent_p.E535E|RTEL1_uc011abd.1_Silent_p.E559E|RTEL1_uc011abe.1_Silent_p.E312E|RTEL1_uc002yfw.2_RNA|RTEL1_uc002yfx.1_5'Flank	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1	535					DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)			GGTTTTCCGAGGAGTGCTTAT	0.657													8	34	---	---	---	---	PASS	A	62319501	A	A	62319501	2	1	165	1	0	0	0	0	0	0	0	1	13720	991	35	3		3	RTEL1	20	62319501	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	4423346	62319501	706019	559	59494										
UMODL1	89766	broad.mit.edu	37	chr21	43510517	43510517	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caccaggaagctccagccacGtctccacggaagctgaacct	9	16	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr21:43510517G>T	uc002zaf.1	+	6	900	c.900G>T	c.(898-900)ACG>ACT	p.T300T	UMODL1_uc002zad.1_Silent_p.T228T|UMODL1_uc002zae.1_Silent_p.T228T|UMODL1_uc002zag.1_Silent_p.T300T|UMODL1_uc010gow.1_Silent_p.T92T|UMODL1_uc002zai.1_5'UTR|UMODL1_uc010gox.1_RNA|UMODL1_uc010goy.1_5'UTR|UMODL1_uc002zaj.1_RNA|UMODL1_uc010goz.1_Intron	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	300	Extracellular (Potential).|EGF-like 1; calcium-binding (Potential).					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						CTCCAGCCACGTCTCCACGGA	0.478													19	25	---	---	---	---	PASS	T	43510517	T	T	43510517	2	4	165	1	0	0	0	0	0	0	0	1	16977	1132	40	1		1	UMODL1	21	43510517	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08		43510517	4619378	560	59495										
DIP2A	23181	broad.mit.edu	37	chr21	47931501	47931501	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gactgccttggatacaactgGgaaagccgtctacactctca	9	12	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr21:47931501G>T	uc002zjo.2	+	8	1259	c.1076G>T	c.(1075-1077)GGG>GTG	p.G359V	DIP2A_uc011afy.1_Missense_Mutation_p.G295V|DIP2A_uc011afz.1_Missense_Mutation_p.G355V|DIP2A_uc002zjl.2_Missense_Mutation_p.G359V|DIP2A_uc002zjm.2_Missense_Mutation_p.G359V|DIP2A_uc010gql.2_Missense_Mutation_p.G316V|DIP2A_uc002zjn.2_Missense_Mutation_p.G359V|DIP2A_uc002zjp.1_Missense_Mutation_p.G104V	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	359					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		GATACAACTGGGAAAGCCGTC	0.537													5	20	---	---	---	---	PASS	T	47931501	T	T	47931501	3	4	165	1	0	0	0	0	1	0	0	0	4527	1232	43	3	1106	3	DIP2A	21	47931501	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	4420984	47931501	198394	561	59496										
CCT8L2	150160	broad.mit.edu	37	chr22	17073266	17073266	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcctttcatggtcaccaggaActtctgccggccgtgggggc	13	13	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr22:17073266A>G	uc002zlp.1	-	1	435	c.175T>C	c.(175-177)TTC>CTC	p.F59L		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	59					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				GTCACCAGGAACTTCTGCCGG	0.642													6	31	---	---	---	---	PASS	G	17073266	G	G	17073266	3	3	165	1	0	0	0	0	1	0	0	0	2961	43	2	5	1502	5	CCT8L2	22	17073266	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08		17073266	34231300	562	59497										
CRYBB2	1415	broad.mit.edu	37	chr22	25627687	25627687	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ccaggtgcagtccgtgcgccGtatccgcgacatgcagtggc	14	14	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr22:25627687G>T	uc003abp.1	+	6	614	c.566G>T	c.(565-567)CGT>CTT	p.R189L		NM_000496	NP_000487	P43320	CRBB2_HUMAN	crystallin, beta B2	189	Beta/gamma crystallin 'Greek key' 4.				response to stimulus|visual perception		structural constituent of eye lens				0						TCCGTGCGCCGTATCCGCGAC	0.652													19	53	---	---	---	---	PASS	T	25627687	T	T	25627687	3	4	165	1	0	0	0	0	1	0	0	0	3911	1145	40	1	584	1	CRYBB2	22	25627687	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	8554421	25627687	25676879	563	59498										
MYO18B	84700	broad.mit.edu	37	chr22	26231332	26231332	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gggtcttagatgaggaagtcCatgtagagggctccagtgac	15	7	1	4			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr22:26231332C>A	uc003abz.1	+	17	3380	c.3130C>A	c.(3130-3132)CAT>AAT	p.H1044N	MYO18B_uc003aca.1_Missense_Mutation_p.H925N|MYO18B_uc010guy.1_Missense_Mutation_p.H926N|MYO18B_uc010guz.1_Missense_Mutation_p.H925N|MYO18B_uc011aka.1_Missense_Mutation_p.H198N|MYO18B_uc011akb.1_Missense_Mutation_p.H557N	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1044	Myosin head-like.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TGAGGAAGTCCATGTAGAGGG	0.582													7	38	---	---	---	---	PASS	A	26231332	A	A	26231332	3	1	165	1	0	0	0	0	1	0	0	0	10066	594	21	3	3192	3	MYO18B	22	26231332	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	603645	26231332	25073234	564	59499										
KREMEN1	83999	broad.mit.edu	37	chr22	29534767	29534767	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gccacccacctcagactgtcCcaggtagcaattcctgggcg	10	16	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr22:29534767C>G	uc011akm.1	+	7	1133	c.1120C>G	c.(1120-1122)CCA>GCA	p.P374A	KREMEN1_uc003ael.2_Missense_Mutation_p.P374A|KREMEN1_uc011akn.1_Missense_Mutation_p.P257A	NM_032045	NP_114434	Q96MU8	KREM1_HUMAN	kringle-containing transmembrane protein 1	372	Extracellular (Potential).				cell communication|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane|membrane fraction	protein binding			ovary(3)|lung(2)	5						TCAGACTGTCCCAGGTAGCAA	0.572													5	35	---	---	---	---	PASS	G	29534767	G	G	29534767	3	3	165	1	0	0	0	0	1	0	0	0	8442	623	22	4	1146	4	KREMEN1	22	29534767	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3303435	29534767	21769799	565	59500										
FBXO7	25793	broad.mit.edu	37	chr22	32889094	32889094	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctctttttttccttttagcaCtgaacctaccagatgtattt	4	10	1	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr22:32889094C>G	uc003amq.2	+	7	1253	c.970C>G	c.(970-972)CTG>GTG	p.L324V	FBXO7_uc003amr.2_Missense_Mutation_p.L210V|FBXO7_uc003ams.2_Missense_Mutation_p.L168V|FBXO7_uc003amt.2_Missense_Mutation_p.L245V|FBXO7_uc003amu.2_Missense_Mutation_p.L210V|FBXO7_uc003amv.2_Missense_Mutation_p.L23V	NM_012179	NP_036311	Q9Y3I1	FBX7_HUMAN	F-box only protein 7 isoform 1	324					cell death|regulation of protein stability|ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)	1						CCTTTTAGCACTGAACCTACC	0.423													23	42	---	---	---	---	PASS	G	32889094	G	G	32889094	3	3	165	1	0	0	0	0	1	0	0	0	5760	564	20	4	1037	4	FBXO7	22	32889094	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3354327	32889094	18415472	566	59501										
LARGE	9215	broad.mit.edu	37	chr22	33712090	33712090	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cctgtccatggacagctgagCgaccagggtgacgtccgtgc	14	13	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr22:33712090C>T	uc003and.3	-	12	2011	c.1432G>A	c.(1432-1434)GCT>ACT	p.A478T	LARGE_uc011amd.1_Missense_Mutation_p.A277T|LARGE_uc003ane.3_Missense_Mutation_p.A478T|LARGE_uc010gwp.2_Missense_Mutation_p.A426T|LARGE_uc011ame.1_Missense_Mutation_p.A410T|LARGE_uc011amf.1_Missense_Mutation_p.A478T|LARGE_uc010gwq.1_RNA	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	478	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				GACAGCTGAGCGACCAGGGTG	0.602													4	17	---	---	---	---	PASS	T	33712090	T	T	33712090	3	4	165	1	0	0	0	0	1	0	0	0	8627	768	27	1	858	1	LARGE	22	33712090	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	822996	33712090	17592476	567	59502										
LARGE	9215	broad.mit.edu	37	chr22	34046621	34046621	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	acctggggctgtgtgcctggGactccagcggtgacagagac	16	11	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr22:34046621G>A	uc003and.3	-	4	719	c.140C>T	c.(139-141)TCC>TTC	p.S47F	LARGE_uc003ane.3_Missense_Mutation_p.S47F|LARGE_uc010gwp.2_Missense_Mutation_p.S47F|LARGE_uc011ame.1_5'UTR|LARGE_uc011amf.1_Missense_Mutation_p.S47F	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	47	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				GTGTGCCTGGGACTCCAGCGG	0.647													5	19	---	---	---	---	PASS	A	34046621	A	A	34046621	3	1	165	1	0	0	0	0	1	0	0	0	8627	1174	41	2	2182	2	LARGE	22	34046621	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	334531	34046621	17257945	568	59503										
MGAT3	4248	broad.mit.edu	37	chr22	39884066	39884066	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtggacgcctttgtggtgtgCgagtccaacttcacggctta	13	10	1	0	rs5995740		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr22:39884066C>A	uc003axv.3	+	2	953	c.714C>A	c.(712-714)TGC>TGA	p.C238*	MGAT3_uc010gxy.2_Nonsense_Mutation_p.C238*	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	238	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					TTGTGGTGTGCGAGTCCAACT	0.617													6	13	---	---	---	---	PASS	A	39884066	A	A	39884066	4	1	165	1	0	0	0	0	0	1	0	0	9544	776	27	1	716	1	MGAT3	22	39884066	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	5837445	39884066	11420500	569	59504										
EFCAB6	64800	broad.mit.edu	37	chr22	44068001	44068001	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cctagtaattgtatcatgaaCaatttcttccacctaacatt	3	10	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr22:44068001C>T	uc003bdy.1	-	15	1707	c.1492G>A	c.(1492-1494)GTT>ATT	p.V498I	EFCAB6_uc003bdz.1_Missense_Mutation_p.V346I|EFCAB6_uc010gzi.1_Missense_Mutation_p.V346I|EFCAB6_uc010gzk.1_RNA	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	498					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				GTATCATGAACAATTTCTTCC	0.373													13	29	---	---	---	---	PASS	T	44068001	T	T	44068001	3	4	165	1	0	0	0	0	1	0	0	0	4939	478	17	3	3085	3	EFCAB6	22	44068001	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	4183935	44068001	7236565	570	59505										
SMC1B	27127	broad.mit.edu	37	chr22	45779397	45779397	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gtctcttagattctttaactCtttctcatcccagcatctag	4	12	5	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr22:45779397C>A	uc003bgc.2	-	12	2060	c.2008G>T	c.(2008-2010)GAG>TAG	p.E670*	SMC1B_uc003bgd.2_Nonsense_Mutation_p.E670*|SMC1B_uc003bge.1_Nonsense_Mutation_p.E453*	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	670	Potential.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TTCTTTAACTCTTTCTCATCC	0.353													5	55	---	---	---	---	PASS	A	45779397	A	A	45779397	4	1	165	1	0	0	0	0	0	1	0	0	14782	922	32	2	1755	2	SMC1B	22	45779397	Nonsense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1711396	45779397	5525169	571	59506										
CELSR1	9620	broad.mit.edu	37	chr22	46793652	46793652	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggggctcgaggtacaggggtCgtccacatcacagccgtcct	14	13	1	0	rs141922879		TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr22:46793652C>A	uc003bhw.1	-	12	5620	c.5620G>T	c.(5620-5622)GAC>TAC	p.D1874Y	CELSR1_uc011arc.1_Missense_Mutation_p.D195Y	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1874	Extracellular (Potential).|EGF-like 5; calcium-binding.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GTACAGGGGTCGTCCACATCA	0.642													5	7	---	---	---	---	PASS	A	46793652	A	A	46793652	3	1	165	1	0	0	0	0	1	0	0	0	3221	884	31	2	3520	2	CELSR1	22	46793652	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	1014255	46793652	4510914	572	59507										
CERK	64781	broad.mit.edu	37	chr22	47095313	47095313	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	agggacacggagtagcgaagGagtgtgctgttgtggtggac	19	5	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chr22:47095313G>T	uc003bia.2	-	8	947	c.840C>A	c.(838-840)CTC>CTA	p.L280L	CERK_uc010hae.2_Silent_p.L82L	NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	280					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		AGTAGCGAAGGAGTGTGCTGT	0.607													5	53	---	---	---	---	PASS	T	47095313	T	T	47095313	2	4	165	1	0	0	0	0	0	0	0	1	3267	1161	41	2		2	CERK	22	47095313	Silent	SNP	G	TCGA-66-2787-01A-01D-0983-08	301661	47095313	4209253	573	59508										
MAGEB4	4115	broad.mit.edu	37	chrX	30261064	30261064	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tcccccacgctatcaattccTgtggggtccaagagctcatg	9	14	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chrX:30261064T>C	uc004dcb.2	+	1	896	c.812T>C	c.(811-813)CTG>CCG	p.L271P	MAGEB1_uc004dcc.2_5'Flank|MAGEB1_uc004dcd.2_5'Flank	NM_002367	NP_002358	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	271	MAGE.									ovary(1)	1						TATCAATTCCTGTGGGGTCCA	0.493													24	24	---	---	---	---	PASS	C	30261064	C	C	30261064	3	2	165	1	0	0	0	0	1	0	0	0	9178	1580	55	5	814	5	MAGEB4	23	30261064	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08		30261064	125009496	574	59509										
GK	2710	broad.mit.edu	37	chrX	30719001	30719001	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggtgggacaaatgtgcttccAgattggacaagccaaaaata	11	7	0	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chrX:30719001A>G	uc004dch.3	+	11	1009	c.830A>G	c.(829-831)CAG>CGG	p.Q277R	GK_uc010ngj.2_Missense_Mutation_p.Q271R|GK_uc004dci.3_Missense_Mutation_p.Q271R|GK_uc011mjz.1_Missense_Mutation_p.Q72R|GK_uc011mka.1_Missense_Mutation_p.Q114R|GK_uc010ngk.2_Missense_Mutation_p.Q66R	NM_203391	NP_976325	P32189	GLPK_HUMAN	glycerol kinase isoform a	277					glycerol-3-phosphate metabolic process|triglyceride biosynthetic process	cytosol|mitochondrial outer membrane	ATP binding|glycerol kinase activity			central_nervous_system(1)	1						ATGTGCTTCCAGATTGGACAA	0.348													10	7	---	---	---	---	PASS	G	30719001	G	G	30719001	3	3	165	1	0	0	0	0	1	0	0	0	6420	188	7	5	872	5	GK	23	30719001	Missense_Mutation	SNP	A	TCGA-66-2787-01A-01D-0983-08	457937	30719001	124551559	575	59510										
FTHL17	53940	broad.mit.edu	37	chrX	31089888	31089888	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tgggcatgctccattttgtcGtccgacaggcgcaggaagta	13	10	0	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chrX:31089888G>T	uc004dcl.1	-	1	286	c.183C>A	c.(181-183)GAC>GAA	p.D61E		NM_031894	NP_114100	Q9BXU8	FHL17_HUMAN	ferritin, heavy polypeptide-like 17	61	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport		ferric iron binding|oxidoreductase activity				0						CCATTTTGTCGTCCGACAGGC	0.577													9	13	---	---	---	---	PASS	T	31089888	T	T	31089888	3	4	165	1	0	0	0	0	1	0	0	0	6083	1136	40	1	372	1	FTHL17	23	31089888	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	370887	31089888	124180672	576	59511										
CYBB	1536	broad.mit.edu	37	chrX	37663381	37663381	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	caagatgcgtggaaactaccTaagtgagtaaaaagtacata	9	6	0	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chrX:37663381T>G	uc004ddr.2	+	9	1210	c.1149T>G	c.(1147-1149)CCT>CCG	p.P383P	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Silent_p.P351P|CYBB_uc011mkg.1_Silent_p.P116P	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	383	Cytoplasmic (Potential).|FAD-binding FR-type.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						GGAAACTACCTAAGTGAGTAA	0.418													13	12	---	---	---	---	PASS	G	37663381	G	G	37663381	2	3	165	1	0	0	0	0	0	0	0	1	4133	1509	53	5		5	CYBB	23	37663381	Silent	SNP	T	TCGA-66-2787-01A-01D-0983-08	6573493	37663381	117607179	577	59512										
USP9X	8239	broad.mit.edu	37	chrX	41026799	41026799	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tctcctcaaagagatatacaCgaaccttggtccaagactac	6	12	2	2			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chrX:41026799C>T	uc004dfb.2	+	17	3026	c.2393C>T	c.(2392-2394)ACG>ATG	p.T798M	USP9X_uc004dfc.2_Missense_Mutation_p.T798M	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	798					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						GAGATATACACGAACCTTGGT	0.373													12	9	---	---	---	---	PASS	T	41026799	T	T	41026799	3	4	165	1	0	0	0	0	1	0	0	0	17087	536	19	1	2455	1	USP9X	23	41026799	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	3363418	41026799	114243761	578	59513										
HEPH	9843	broad.mit.edu	37	chrX	65474970	65474970	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctggatctattattctgcagTggatcccatcaaggtaaata	8	8	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chrX:65474970T>G	uc011moz.1	+	16	2726	c.2666T>G	c.(2665-2667)GTG>GGG	p.V889G	HEPH_uc004dwn.2_Missense_Mutation_p.V889G|HEPH_uc004dwo.2_Missense_Mutation_p.V619G|HEPH_uc010nkr.2_Missense_Mutation_p.V697G|HEPH_uc011mpa.1_Missense_Mutation_p.V889G|HEPH_uc010nks.2_Missense_Mutation_p.V178G	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	886	Extracellular (Potential).|Plastocyanin-like 5.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						TATTCTGCAGTGGATCCCATC	0.478													8	3	---	---	---	---	PASS	G	65474970	G	G	65474970	3	3	165	1	0	0	0	0	1	0	0	0	7054	1696	59	5	2881	5	HEPH	23	65474970	Missense_Mutation	SNP	T	TCGA-66-2787-01A-01D-0983-08	24448171	65474970	89795590	579	59514										
SH3BGRL	6451	broad.mit.edu	37	chrX	80532630	80532630	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	gaccagccacaggttaccccCtgccacctcagattttcaat	6	16	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chrX:80532630C>A	uc004eef.2	+	2	590	c.193C>A	c.(193-195)CTG>ATG	p.L65M	SH3BGRL_uc011mqs.1_RNA|SH3BGRL_uc010nml.2_RNA|SH3BGRL_uc010nmm.2_Missense_Mutation_p.L102M|SH3BGRL_uc010nmn.2_Missense_Mutation_p.L102M	NM_003022	NP_003013	O75368	SH3L1_HUMAN	SH3 domain binding glutamic acid-rich protein	65	SH3-binding (Potential).					cytoplasm|nucleus	SH3 domain binding|SH3/SH2 adaptor activity			ovary(1)	1		all_lung(315;5.94e-05)				AGGTTACCCCCTGCCACCTCA	0.378													6	7	---	---	---	---	PASS	A	80532630	A	A	80532630	3	1	165	1	0	0	0	0	1	0	0	0	14241	680	24	3	199	3	SH3BGRL	23	80532630	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	15057660	80532630	74737930	580	59515										
PCDH11X	27328	broad.mit.edu	37	chrX	91873599	91873599	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	tactgcacttcaccacagccCaccatcagcacaggcctcag	6	18	3	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chrX:91873599C>A	uc004efk.1	+	7	4549	c.3704C>A	c.(3703-3705)CCA>CAA	p.P1235Q	PCDH11X_uc004efl.1_Missense_Mutation_p.P1225Q|PCDH11X_uc004efo.1_Missense_Mutation_p.P1198Q|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Missense_Mutation_p.P1227Q|PCDH11X_uc004efn.1_Missense_Mutation_p.P1217Q	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1235	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CACCACAGCCCACCATCAGCA	0.582													31	29	---	---	---	---	PASS	A	91873599	A	A	91873599	3	1	165	1	0	0	0	0	1	0	0	0	11508	594	21	3	3852	3	PCDH11X	23	91873599	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	11340969	91873599	63396961	581	59516										
GPRASP1	9737	broad.mit.edu	37	chrX	101911570	101911570	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ggaaaccatttttgggtcctGgttctgggatggaaaagaag	14	5	1	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chrX:101911570G>T	uc004ejj.3	+	5	3530	c.2729G>T	c.(2728-2730)TGG>TTG	p.W910L	GPRASP1_uc004eji.3_Missense_Mutation_p.W910L|GPRASP1_uc010nod.2_Missense_Mutation_p.W910L	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	910	Glu-rich.|OPRD1-binding.					cytoplasm	protein binding			ovary(1)|lung(1)	2						TTTGGGTCCTGGTTCTGGGAT	0.483													5	57	---	---	---	---	PASS	T	101911570	T	T	101911570	3	4	165	1	0	0	0	0	1	0	0	0	6722	1357	47	3	2731	3	GPRASP1	23	101911570	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	10037971	101911570	53358990	582	59517										
ALG13	79868	broad.mit.edu	37	chrX	111003210	111003210	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	ctcccccagcttctcattatGtacctcagggtatgtaagat	7	12	2	1			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chrX:111003210G>T	uc011msy.1	+	27	3431	c.3397G>T	c.(3397-3399)GTA>TTA	p.V1133L	ALG13_uc011msx.1_Missense_Mutation_p.V950L|ALG13_uc011msz.1_Missense_Mutation_p.V1055L|ALG13_uc011mta.1_Missense_Mutation_p.V950L|ALG13_uc011mtb.1_Missense_Mutation_p.V950L			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	1133					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						TTCTCATTATGTACCTCAGGG	0.388													9	15	---	---	---	---	PASS	T	111003210	T	T	111003210	3	4	165	1	0	0	0	0	1	0	0	0	515	1377	48	3	3645	3	ALG13	23	111003210	Missense_Mutation	SNP	G	TCGA-66-2787-01A-01D-0983-08	9091640	111003210	44267350	583	59518										
ENOX2	10495	broad.mit.edu	37	chrX	129759346	129759346	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	atctcttttccaggctggctCcaactccagtcatttcctgc	6	15	2	0			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chrX:129759346C>A	uc004evw.2	-	16	2193	c.1775G>T	c.(1774-1776)GGA>GTA	p.G592V	ENOX2_uc004evx.2_Missense_Mutation_p.G563V|ENOX2_uc004evy.2_Missense_Mutation_p.G563V|ENOX2_uc004evv.2_Missense_Mutation_p.G417V	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	592				G->V: Loss of activity.	cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						CAGGCTGGCTCCAACTCCAGT	0.473													12	17	---	---	---	---	PASS	A	129759346	A	A	129759346	3	1	165	1	0	0	0	0	1	0	0	0	5127	855	30	2	61	2	ENOX2	23	129759346	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	18756136	129759346	25511214	584	59519										
MAGEC2	51438	broad.mit.edu	37	chrX	141291581	141291581	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0533562822719449	31	0.133420316460765	1.26947003209298	1.43327261687917	1.16026830890219	0.680305629507485	0.925645401874291	0	cacctcctcctcctcaggacCaccaagaatcagagaagagg	8	15	2	3			TCGA-66-2787-01A-01D-0983-08	TCGA-66-2787-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c59e5971-e243-4b00-b5f0-f4bca18530d6	1cbdc2f1-d507-4fbd-a130-73b55c54e436	g.chrX:141291581C>G	uc004fbu.1	-	3	541	c.193G>C	c.(193-195)GGT>CGT	p.G65R		NM_016249	NP_057333	Q9UBF1	MAGC2_HUMAN	melanoma antigen family C, 2	65						cytoplasm|nucleus				breast(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TCCTCAGGACCACCAAGAATC	0.413										HNSCC(46;0.14)			14	32	---	---	---	---	PASS	G	141291581	G	G	141291581	3	3	165	1	0	0	0	0	1	0	0	0	9181	594	21	4	932	4	MAGEC2	23	141291581	Missense_Mutation	SNP	C	TCGA-66-2787-01A-01D-0983-08	11532235	141291581	13978979	585	59520										
TARDBP	23435	broad.mit.edu	37	chr1	11077007	11077007	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttgggtctcccatggaaaacAaccgaacaggacctgaaaga	10	10	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:11077007A>C	uc001art.2	+	3	479	c.345A>C	c.(343-345)ACA>ACC	p.T115T	TARDBP_uc010oap.1_Intron	NM_007375	NP_031401	Q13148	TADBP_HUMAN	TAR DNA binding protein	115	RRM 1.			Missing: Completely abolishes RNA binding.	3'-UTR-mediated mRNA stabilization|cell death|mRNA processing|negative regulation by host of viral transcription|RNA splicing|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0578)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.37e-07)|COAD - Colon adenocarcinoma(227;7.38e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000299)|Kidney(185;0.000754)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)		CATGGAAAACAACCGAACAGG	0.388													14	67	---	---	---	---	PASS	C	11077007	C	C	11077007	2	2	166	1	0	0	0	0	0	0	0	1	15554	117	5	5		5	TARDBP	1	11077007	Silent	SNP	A	TCGA-66-2788-01A-01D-0983-08		11077007	238173614	1	59521										
MTOR	2475	broad.mit.edu	37	chr1	11307700	11307700	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	acctgtgaaggcagaaggtcGgaatgcagccaagcggggca	16	9	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:11307700G>A	uc001asd.2	-	8	1328	c.1207C>T	c.(1207-1209)CGA>TGA	p.R403*		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	403					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GCAGAAGGTCGGAATGCAGCC	0.478													17	48	---	---	---	---	PASS	A	11307700	A	A	11307700	4	1	166	1	0	0	0	0	0	1	0	0	9954	1124	39	1	6646	1	MTOR	1	11307700	Nonsense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	230693	11307700	237942921	2	59522										
PRAMEF12	390999	broad.mit.edu	37	chr1	12837350	12837350	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aggccaccctgcagaccctgGacttagaggactgtgggatc	13	12	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:12837350G>T	uc001aui.2	+	3	1087	c.1060G>T	c.(1060-1062)GAC>TAC	p.D354Y		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	354	LRR 2.									ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GCAGACCCTGGACTTAGAGGA	0.592													25	92	---	---	---	---	PASS	T	12837350	T	T	12837350	3	4	166	1	0	0	0	0	1	0	0	0	12428	1174	41	2	1070	2	PRAMEF12	1	12837350	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	1529650	12837350	236413271	3	59523										
ZBTB8A	653121	broad.mit.edu	37	chr1	33059073	33059073	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	taataagtggaaaatcttggAataagtataattatcatcca	6	4	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:33059073A>G	uc001bvn.2	+	3	1026	c.541A>G	c.(541-543)AAT>GAT	p.N181D	ZBTB8A_uc001bvk.2_RNA|ZBTB8A_uc001bvm.2_Missense_Mutation_p.N181D	NM_001040441	NP_001035531	Q96BR9	ZBT8A_HUMAN	zinc finger and BTB domain containing 8A	181					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAAATCTTGGAATAAGTATAA	0.418													15	47	---	---	---	---	PASS	G	33059073	G	G	33059073	3	3	166	1	0	0	0	0	1	0	0	0	17553	246	9	5	543	5	ZBTB8A	1	33059073	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	20221723	33059073	216191548	4	59524										
LHX8	431707	broad.mit.edu	37	chr1	75609574	75609574	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ccctcctcacagagcaagatGttaaccatccaaaaccagca	5	15	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:75609574G>C	uc001dgo.2	+	7	1319	c.655G>C	c.(655-657)GTT>CTT	p.V219L	LHX8_uc001dgq.2_Missense_Mutation_p.V158L	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	219						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						AGAGCAAGATGTTAACCATCC	0.413													13	53	---	---	---	---	PASS	C	75609574	C	C	75609574	3	2	166	1	0	0	0	0	1	0	0	0	8776	1377	48	4	677	4	LHX8	1	75609574	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	42550501	75609574	173641047	5	59525										
ZZZ3	26009	broad.mit.edu	37	chr1	78031388	78031388	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctggtgccctgagacacacaGtagtctctgtctaagaatgt	10	10	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:78031388G>A	uc001dhq.2	-	15	3125	c.2649C>T	c.(2647-2649)TAC>TAT	p.Y883Y	ZZZ3_uc001dhr.2_Silent_p.Y389Y|ZZZ3_uc001dhp.2_Silent_p.Y882Y	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	883					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						GAGACACACAGTAGTCTCTGT	0.378													11	38	---	---	---	---	PASS	A	78031388	A	A	78031388	2	1	166	1	0	0	0	0	0	0	0	1	18253	1024	36	3		3	ZZZ3	1	78031388	Silent	SNP	G	TCGA-66-2788-01A-01D-0983-08	2421814	78031388	171219233	6	59526										
PTGFR	5737	broad.mit.edu	37	chr1	79002271	79002271	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gtcaatgctgtggagtgcatGtcatcagcttacatatttgg	11	7	3	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:79002271G>T	uc001din.2	+	3	1245	c.979G>T	c.(979-981)GTC>TTC	p.V327F	PTGFR_uc001dim.2_3'UTR	NM_000959	NP_000950	P43088	PF2R_HUMAN	prostaglandin F receptor isoform a precursor	327	Cytoplasmic (Potential).				parturition	extracellular region|integral to plasma membrane	prostaglandin F receptor activity			ovary(3)|breast(2)|skin(1)	6				Colorectal(170;0.248)	Bimatoprost(DB00905)|Latanoprost(DB00654)|Travoprost(DB00287)	TGGAGTGCATGTCATCAGCTT	0.393													12	57	---	---	---	---	PASS	T	79002271	T	T	79002271	3	4	166	1	0	0	0	0	1	0	0	0	12749	1377	48	3	1060	3	PTGFR	1	79002271	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	970883	79002271	170248350	7	59527										
AMY2B	280	broad.mit.edu	37	chr1	104116399	104116399	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	attatgtgcgttccaagattGccgaatatatgaatcatctc	7	8	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:104116399G>T	uc001duq.2	+	6	1199	c.583G>T	c.(583-585)GCC>TCC	p.A195S	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.A195S|AMY2B_uc001dus.1_5'Flank	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	195					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		TTCCAAGATTGCCGAATATAT	0.413													39	233	---	---	---	---	PASS	T	104116399	T	T	104116399	3	4	166	1	0	0	0	0	1	0	0	0	595	1319	46	3	597	3	AMY2B	1	104116399	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	25114128	104116399	145134222	8	59528										
PDE4DIP	9659	broad.mit.edu	37	chr1	144882752	144882752	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctctcactcagaccctctttGgttaccacagtctcaaccat	4	16	4	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:144882752G>A	uc001elw.3	-	24	3558	c.3267C>T	c.(3265-3267)ACC>ACT	p.T1089T	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Intron|PDE4DIP_uc001elv.3_Silent_p.T96T	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1089					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GACCCTCTTTGGTTACCACAG	0.493			T	PDGFRB	MPD								28	235	---	---	---	---	PASS	A	144882752	A	A	144882752	2	1	166	1	0	0	0	0	0	0	0	1	11643	1335	47	3		3	PDE4DIP	1	144882752	Silent	SNP	G	TCGA-66-2788-01A-01D-0983-08	40766353	144882752	104367869	9	59529										
LCE1B	353132	broad.mit.edu	37	chr1	152785226	152785226	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gctgcagccagccctccgggGgctccagctgctgtggagga	16	14	0	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:152785226G>T	uc001faq.2	+	1	780	c.304G>T	c.(304-306)GGC>TGC	p.G102C		NM_178349	NP_848126	Q5T7P3	LCE1B_HUMAN	late cornified envelope 1B	102	Gly-rich.				keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GCCCTCCGGGGGCTCCAGCTG	0.622													11	27	---	---	---	---	PASS	T	152785226	T	T	152785226	3	4	166	1	0	0	0	0	1	0	0	0	8660	1232	43	3	306	3	LCE1B	1	152785226	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	7902474	152785226	96465395	10	59530										
INSRR	3645	broad.mit.edu	37	chr1	156814587	156814587	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	agcgcagaaggacactgttcTtgctggaggcctcccaggcc	13	13	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:156814587T>C	uc010pht.1	-	13	2740	c.2486A>G	c.(2485-2487)AAG>AGG	p.K829R	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	829	Fibronectin type-III 3.|Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GACACTGTTCTTGCTGGAGGC	0.592													11	38	---	---	---	---	PASS	C	156814587	C	C	156814587	3	2	166	1	0	0	0	0	1	0	0	0	7774	1609	56	5	1446	5	INSRR	1	156814587	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	4029361	156814587	92436034	11	59531										
FCRL5	83416	broad.mit.edu	37	chr1	157514242	157514242	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cggagcgggacatctgacctCtctagagagagctgggtctc	14	11	3	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:157514242C>G	uc001fqu.2	-	5	812	c.654G>C	c.(652-654)GAG>GAC	p.E218D	FCRL5_uc009wsm.2_Missense_Mutation_p.E218D|FCRL5_uc010phv.1_Missense_Mutation_p.E218D|FCRL5_uc010phw.1_Missense_Mutation_p.E133D|FCRL5_uc001fqv.1_Missense_Mutation_p.E218D|FCRL5_uc010phx.1_5'UTR	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	218	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				CATCTGACCTCTCTAGAGAGA	0.567													28	109	---	---	---	---	PASS	G	157514242	G	G	157514242	3	3	166	1	0	0	0	0	1	0	0	0	5798	912	32	2	2331	2	FCRL5	1	157514242	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	699655	157514242	91736379	12	59532										
FCRL5	83416	broad.mit.edu	37	chr1	157514827	157514827	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cccggcacctcagaaccacaGagtctccttcaaacacagaa	6	16	3	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:157514827G>T	uc001fqu.2	-	4	511	c.353C>A	c.(352-354)TCT>TAT	p.S118Y	FCRL5_uc009wsm.2_Missense_Mutation_p.S118Y|FCRL5_uc010phv.1_Missense_Mutation_p.S118Y|FCRL5_uc010phw.1_Missense_Mutation_p.S33Y|FCRL5_uc001fqv.1_Missense_Mutation_p.S118Y|FCRL5_uc010phx.1_Translation_Start_Site	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	118	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				CAGAACCACAGAGTCTCCTTC	0.408													14	45	---	---	---	---	PASS	T	157514827	T	T	157514827	3	4	166	1	0	0	0	0	1	0	0	0	5798	942	33	2	2636	2	FCRL5	1	157514827	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	585	157514827	91735794	13	59533										
CD1C	911	broad.mit.edu	37	chr1	158262495	158262495	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cctgtttgggtgacatggatGcggaatgaacaggagcaact	14	7	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:158262495G>T	uc001fru.2	+	4	1012	c.720G>T	c.(718-720)ATG>ATT	p.M240I	CD1C_uc001frv.2_Missense_Mutation_p.M43I	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	240	Extracellular (Potential).|Ig-like.				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					TGACATGGATGCGGAATGAAC	0.542													10	78	---	---	---	---	PASS	T	158262495	T	T	158262495	3	4	166	1	0	0	0	0	1	0	0	0	2976	1319	46	3	734	3	CD1C	1	158262495	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	747668	158262495	90988126	14	59534										
CD1B	910	broad.mit.edu	37	chr1	158299801	158299801	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gccaccttctggggaaggcaCacatgaagcattcttgacac	10	12	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:158299801C>T	uc001frx.2	-	3	556	c.448G>A	c.(448-450)GTG>ATG	p.V150M	CD1B_uc001frw.2_Missense_Mutation_p.V43M	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	150	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					GGGGAAGGCACACATGAAGCA	0.468													44	169	---	---	---	---	PASS	T	158299801	T	T	158299801	3	4	166	1	0	0	0	0	1	0	0	0	2975	478	17	3	569	3	CD1B	1	158299801	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	37306	158299801	90950820	15	59535										
SPTA1	6708	broad.mit.edu	37	chr1	158651411	158651411	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggtcacccttctccagggtcAgctctaacagcaggtcccac	9	16	4	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:158651411A>G	uc001fst.1	-	4	636	c.437T>C	c.(436-438)CTG>CCG	p.L146P		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	146	Spectrin 2.				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)					CTCCAGGGTCAGCTCTAACAG	0.547													22	89	---	---	---	---	PASS	G	158651411	G	G	158651411	3	3	166	1	0	0	0	0	1	0	0	0	15115	188	7	5	7018	5	SPTA1	1	158651411	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	351610	158651411	90599210	16	59536										
MNDA	4332	broad.mit.edu	37	chr1	158815386	158815386	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gcccaacacagaatcaggaaAcccaggcccaacggcaggtg	11	14	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:158815386A>C	uc001fsz.1	+	5	780	c.580A>C	c.(580-582)ACC>CCC	p.T194P		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	194					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					GAATCAGGAAACCCAGGCCCA	0.363													7	22	---	---	---	---	PASS	C	158815386	C	C	158815386	3	2	166	1	0	0	0	0	1	0	0	0	9676	43	2	5	594	5	MNDA	1	158815386	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	163975	158815386	90435235	17	59537										
ATP1A2	477	broad.mit.edu	37	chr1	160098516	160098516	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aacctggaggcggtggagacGctgggctccacgtccaccat	14	13	0	1	rs55741021		TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:160098516G>T	uc001fvc.2	+	9	1224	c.1092G>T	c.(1090-1092)ACG>ACT	p.T364T	ATP1A2_uc001fvb.2_Silent_p.T364T|ATP1A2_uc010piz.1_Silent_p.T209T|ATP1A2_uc001fvd.2_Silent_p.T100T|ATP1A2_uc009wtg.1_Silent_p.T52T	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	364	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CGGTGGAGACGCTGGGCTCCA	0.582													18	71	---	---	---	---	PASS	T	160098516	T	T	160098516	2	4	166	1	0	0	0	0	0	0	0	1	1129	1074	38	1		1	ATP1A2	1	160098516	Silent	SNP	G	TCGA-66-2788-01A-01D-0983-08	1283130	160098516	89152105	18	59538										
TNR	7143	broad.mit.edu	37	chr1	175325455	175325455	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gtaggtgaccatgtactcacGagtagaaaagttggtgctga	13	6	1	3	rs146606650		TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:175325455G>C	uc001gkp.1	-	14	3199	c.3118C>G	c.(3118-3120)CTC>GTC	p.L1040V	TNR_uc009wwu.1_Missense_Mutation_p.L1040V	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1040	Fibronectin type-III 9.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ATGTACTCACGAGTAGAAAAG	0.493													20	86	---	---	---	---	PASS	C	175325455	C	C	175325455	3	2	166	1	0	0	0	0	1	0	0	0	16335	1072	37	2	990	2	TNR	1	175325455	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	15226939	175325455	73925166	19	59539										
TNR	7143	broad.mit.edu	37	chr1	175372396	175372396	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gcagtcctcaccaacgtagcCctcctcgcataaacaggtac	7	16	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:175372396C>A	uc001gkp.1	-	2	937	c.856G>T	c.(856-858)GGC>TGC	p.G286C	TNR_uc009wwu.1_Missense_Mutation_p.G286C|TNR_uc010pmz.1_Missense_Mutation_p.G286C	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	286	Cys-rich.|EGF-like 4.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CCAACGTAGCCCTCCTCGCAT	0.612													12	44	---	---	---	---	PASS	A	175372396	A	A	175372396	3	1	166	1	0	0	0	0	1	0	0	0	16335	623	22	3	3300	3	TNR	1	175372396	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	46941	175372396	73878225	20	59540										
CEP350	9857	broad.mit.edu	37	chr1	180044231	180044231	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gctcctagagtggaagcgacGtttagatgcagaagaagcag	14	7	0	4			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:180044231G>C	uc001gnt.2	+	28	6025	c.5642G>C	c.(5641-5643)CGT>CCT	p.R1881P	CEP350_uc009wxl.2_Missense_Mutation_p.R1880P|CEP350_uc001gnv.2_Missense_Mutation_p.R16P	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1881	Potential.					centrosome|nucleus|spindle				ovary(4)	4						TGGAAGCGACGTTTAGATGCA	0.428													15	42	---	---	---	---	PASS	C	180044231	C	C	180044231	3	2	166	1	0	0	0	0	1	0	0	0	3254	1145	40	4	5748	4	CEP350	1	180044231	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	4671835	180044231	69206390	21	59541										
CRB1	23418	broad.mit.edu	37	chr1	197316598	197316598	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgttgacaattacacttgtcActgctggcctggtgagtgac	11	9	1	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:197316598A>C	uc001gtz.2	+	4	1112	c.977A>C	c.(976-978)CAC>CCC	p.H326P	CRB1_uc010poz.1_Missense_Mutation_p.H257P|CRB1_uc001gty.1_Missense_Mutation_p.H326P|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Intron|CRB1_uc010ppb.1_Missense_Mutation_p.H326P|CRB1_uc010ppc.1_RNA	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	326	Extracellular (Potential).|EGF-like 8.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TACACTTGTCACTGCTGGCCT	0.373													13	40	---	---	---	---	PASS	C	197316598	C	C	197316598	3	2	166	1	0	0	0	0	1	0	0	0	3848	159	6	5	991	5	CRB1	1	197316598	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	17272367	197316598	51934023	22	59542										
NFASC	23114	broad.mit.edu	37	chr1	204951142	204951142	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ccgtcatcggttactccggaGaagattgtgagtagtctcct	11	10	2	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:204951142G>T	uc001hbj.2	+	21	2792	c.2464G>T	c.(2464-2466)GAA>TAA	p.E822*	NFASC_uc010pra.1_Nonsense_Mutation_p.E818*|NFASC_uc001hbi.2_Nonsense_Mutation_p.E818*|NFASC_uc010prb.1_Nonsense_Mutation_p.E833*|NFASC_uc010prc.1_Nonsense_Mutation_p.E389*|NFASC_uc001hbk.1_Nonsense_Mutation_p.E628*|NFASC_uc001hbl.1_Nonsense_Mutation_p.E72*	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	822	Extracellular (Potential).				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			TTACTCCGGAGAAGATTGTGA	0.612													5	12	---	---	---	---	PASS	T	204951142	T	T	204951142	4	4	166	1	0	0	0	0	0	1	0	0	10359	943	33	2	2622	2	NFASC	1	204951142	Nonsense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	7634544	204951142	44299479	23	59543										
PCNXL2	80003	broad.mit.edu	37	chr1	233134126	233134126	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgtcgtcggggcccctcctcCgtccacgtcttcaatgttgc	10	16	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:233134126C>G	uc001hvl.2	-	32	5897	c.5662G>C	c.(5662-5664)GGA>CGA	p.G1888R	PCNXL2_uc001hvk.1_Missense_Mutation_p.G540R|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1888						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GCCCCTCCTCCGTCCACGTCT	0.617													8	22	---	---	---	---	PASS	G	233134126	G	G	233134126	3	3	166	1	0	0	0	0	1	0	0	0	11592	661	23	4	763	4	PCNXL2	1	233134126	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	28182984	233134126	16116495	24	59544										
RYR2	6262	broad.mit.edu	37	chr1	237604759	237604759	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tctgtggacgtgaaatccgtGagaatgggatctatacaacg	12	7	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:237604759G>A	uc001hyl.1	+	13	1266	c.1146G>A	c.(1144-1146)GTG>GTA	p.V382V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	382	Cytoplasmic (By similarity).|MIR 5.				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)			TGAAATCCGTGAGAATGGGAT	0.348													16	83	---	---	---	---	PASS	A	237604759	A	A	237604759	2	1	166	1	0	0	0	0	0	0	0	1	13769	1277	45	2		2	RYR2	1	237604759	Silent	SNP	G	TCGA-66-2788-01A-01D-0983-08	4470633	237604759	11645862	25	59545										
RYR2	6262	broad.mit.edu	37	chr1	237778056	237778056	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gtggacgatgcaaagctgcaAggagctggtgaggaagaagc	17	6	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:237778056A>T	uc001hyl.1	+	37	5748	c.5628A>T	c.(5626-5628)CAA>CAT	p.Q1876H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1876	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CAAAGCTGCAAGGAGCTGGTG	0.532													8	41	---	---	---	---	PASS	T	237778056	T	T	237778056	3	4	166	1	0	0	0	0	1	0	0	0	13769	69	3	5	5774	5	RYR2	1	237778056	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	173297	237778056	11472565	26	59546										
RYR2	6262	broad.mit.edu	37	chr1	237817703	237817703	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tctggggcatttttgatgccCtgtctcaaaaggtaatttaa	9	7	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:237817703C>T	uc001hyl.1	+	52	8074	c.7954C>T	c.(7954-7956)CTG>TTG	p.L2652L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2652	Modulator (Potential).|Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTTTGATGCCCTGTCTCAAAA	0.383													6	28	---	---	---	---	PASS	T	237817703	T	T	237817703	2	4	166	1	0	0	0	0	0	0	0	1	13769	680	24	3		3	RYR2	1	237817703	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	39647	237817703	11432918	27	59547										
OR2L2	26246	broad.mit.edu	37	chr1	248201806	248201806	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	atctccaccattgttccaaaGatggtttatgattttctgta	6	8	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:248201806G>C	uc001idw.2	+	1	333	c.237G>C	c.(235-237)AAG>AAC	p.K79N	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	79	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TTGTTCCAAAGAtggtttatg	0.299													32	157	---	---	---	---	PASS	C	248201806	C	C	248201806	3	2	166	1	0	0	0	0	1	0	0	0	11007	933	33	2	239	2	OR2L2	1	248201806	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	10384103	248201806	1048815	28	59548										
SH3BP5L	80851	broad.mit.edu	37	chr1	249106437	249106437	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gcgccgagggcccagggggtGgggaggcagacccccgcggc	21	14	0	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:249106437G>A	uc001iew.1	-	7	1396	c.844C>T	c.(844-846)CAC>TAC	p.H282Y	SH3BP5L_uc010pzp.1_Missense_Mutation_p.H175Y|SH3BP5L_uc010pzq.1_Missense_Mutation_p.H250Y|SH3BP5L_uc001iev.1_Missense_Mutation_p.H163Y	NM_030645	NP_085148	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	282											0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			CCCAGGGGGTGGGGAGGCAGA	0.716													4	15	---	---	---	---	PASS	A	249106437	A	A	249106437	3	1	166	1	0	0	0	0	1	0	0	0	14248	1348	47	3	341	3	SH3BP5L	1	249106437	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	904631	249106437	144184	29	59549										
TPO	7173	broad.mit.edu	37	chr2	1544431	1544431	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cggaggaactcccgagctgaGatgcggaaagcaccaggccg	15	12	0	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:1544431G>A	uc002qww.2	+	16	2775	c.2684G>A	c.(2683-2685)AGA>AAA	p.R895K	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Missense_Mutation_p.R838K|TPO_uc002qwr.2_Missense_Mutation_p.R895K|TPO_uc002qwx.2_Missense_Mutation_p.R838K|TPO_uc010yio.1_Missense_Mutation_p.R722K|TPO_uc010yip.1_Missense_Mutation_p.R851K|TPO_uc002qwy.1_Missense_Mutation_p.R191K|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	895	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CCCGAGCTGAGATGCGGAAAG	0.637													13	49	---	---	---	---	PASS	A	1544431	A	A	1544431	3	1	166	1	0	0	0	0	1	0	0	0	16407	942	33	2	2742	2	TPO	2	1544431	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08		1544431	241654942	30	59550										
GREB1	9687	broad.mit.edu	37	chr2	11696853	11696853	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggtgcccaggcccatcttttCccagctgtacctggaagctg	11	14	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:11696853C>T	uc002rbk.1	+	2	413	c.113C>T	c.(112-114)TCC>TTC	p.S38F	GREB1_uc002rbl.2_Missense_Mutation_p.S38F|GREB1_uc002rbm.2_Intron|GREB1_uc002rbn.1_Missense_Mutation_p.S38F	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	38						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)		CCCATCTTTTCCCAGCTGTAC	0.522													5	38	---	---	---	---	PASS	T	11696853	T	T	11696853	3	4	166	1	0	0	0	0	1	0	0	0	6760	855	30	2	115	2	GREB1	2	11696853	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	10152422	11696853	231502520	31	59551										
SFRS7	6432	broad.mit.edu	37	chr2	38975742	38975742	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttcgtcccctgctcctgctgCgtgagcgagagtatcgcctt	11	14	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:38975742C>T	uc002rqz.2	-	4	678	c.440G>A	c.(439-441)CGC>CAC	p.R147H	SFRS7_uc002rra.2_RNA|SFRS7_uc010ynp.1_Missense_Mutation_p.R147H|GEMIN6_uc002rrb.2_5'Flank	NM_001031684	NP_001026854	Q16629	SRSF7_HUMAN	splicing factor, arginine/serine-rich 7	147	Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding|zinc ion binding				0		all_hematologic(82;0.248)				GCTCCTGCTGCGTGAGCGAGA	0.398													12	59	---	---	---	---	PASS	T	38975742	T	T	38975742	3	4	166	1	0	0	0	0	1	0	0	0	14182	768	27	1	296	1	SFRS7	2	38975742	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	27278889	38975742	204223631	32	59552										
C2orf86	51057	broad.mit.edu	37	chr2	63486509	63486509	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cttgccacttcagctagtgcCaattcacctttatctagtgc	6	13	3	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:63486509C>A	uc002sch.2	-	14	2294	c.1848G>T	c.(1846-1848)TTG>TTT	p.L616F	C2orf86_uc002sce.2_Intron|C2orf86_uc002scf.2_Missense_Mutation_p.L457F|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Missense_Mutation_p.L424F	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	616					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						CAGCTAGTGCCAATTCACCTT	0.358													11	48	---	---	---	---	PASS	A	63486509	A	A	63486509	3	1	166	1	0	0	0	0	1	0	0	0	2201	593	21	3	412	3	C2orf86	2	63486509	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	24510767	63486509	179712864	33	59553										
C2orf78	388960	broad.mit.edu	37	chr2	74043036	74043036	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aaggctgcatccagcaggatCagcaaaactaagagccatgg	11	10	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:74043036C>T	uc002sjr.1	+	3	1807	c.1686C>T	c.(1684-1686)ATC>ATT	p.I562I		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	562	Lys-rich.									ovary(2)	2						CCAGCAGGATCAGCAAAACTA	0.473													9	40	---	---	---	---	PASS	T	74043036	T	T	74043036	2	4	166	1	0	0	0	0	0	0	0	1	2195	816	29	2		2	C2orf78	2	74043036	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	10556527	74043036	169156337	34	59554										
CD8A	925	broad.mit.edu	37	chr2	87017523	87017523	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggccgagcagaaatagtagcCctcgttctctcggcggaagt	13	11	1	1	rs121918660		TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:87017523C>A	uc002srt.2	-	2	1220	c.331G>T	c.(331-333)GGC>TGC	p.G111C	RMND5A_uc002srs.3_Intron|CD8A_uc002srv.2_Missense_Mutation_p.G111C|CD8A_uc010ytn.1_Missense_Mutation_p.G152C|CD8A_uc002sru.2_Missense_Mutation_p.G111C	NM_001768	NP_001759	P01732	CD8A_HUMAN	CD8 antigen alpha polypeptide isoform 1	111	Ig-like V-type.|Extracellular (Potential).		G -> S (in CD8 deficiency; prevents CD8 expression).	G->R: Prevents CD8 expression.	antigen processing and presentation|regulation of immune response|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			ovary(1)	1						AAATAGTAGCCCTCGTTCTCT	0.652													12	50	---	---	---	---	PASS	A	87017523	A	A	87017523	3	1	166	1	0	0	0	0	1	0	0	0	3044	623	22	3	396	3	CD8A	2	87017523	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	12974487	87017523	156181850	35	59555										
LIMS1	3987	broad.mit.edu	37	chr2	109276214	109276214	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cagttcccagaaggactcttCtatgaggtgagttgcactgg	12	9	2	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:109276214C>T	uc002teg.2	+	2	269	c.150C>T	c.(148-150)TTC>TTT	p.F50F	LIMS1_uc002tef.2_Silent_p.F62F|LIMS1_uc002teh.2_Silent_p.F50F|LIMS1_uc002tei.2_Silent_p.F50F|LIMS1_uc002tej.2_Silent_p.F87F|LIMS1_uc002tek.3_Silent_p.F112F	NM_004987	NP_004978	P48059	LIMS1_HUMAN	LIM and senescent cell antigen-like domains 1	50	LIM zinc-binding 1.				cell aging|cell junction assembly|cellular response to transforming growth factor beta stimulus|negative regulation of transcription, DNA-dependent	cytosol|focal adhesion|perinuclear region of cytoplasm	protein binding|zinc ion binding				0						AAGGACTCTTCTATGAGGTGA	0.552													12	69	---	---	---	---	PASS	T	109276214	T	T	109276214	2	4	166	1	0	0	0	0	0	0	0	1	8803	912	32	2		2	LIMS1	2	109276214	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	22258691	109276214	133923159	36	59556										
DPP10	57628	broad.mit.edu	37	chr2	116548748	116548748	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	attaaaatccttcatattgaCgactatggtaaaattttgtg	6	5	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:116548748C>T	uc002tla.1	+	18	2080	c.1623C>T	c.(1621-1623)GAC>GAT	p.D541D	DPP10_uc002tlb.1_Silent_p.D491D|DPP10_uc002tlc.1_Silent_p.D537D|DPP10_uc002tle.2_Silent_p.D545D|DPP10_uc002tlf.1_Silent_p.D534D	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	541	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TTCATATTGACGACTATGGTA	0.328													5	47	---	---	---	---	PASS	T	116548748	T	T	116548748	2	4	166	1	0	0	0	0	0	0	0	1	4727	535	19	1		1	DPP10	2	116548748	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	7272534	116548748	126650625	37	59557										
WDR33	55339	broad.mit.edu	37	chr2	128522490	128522490	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tttcacatatcctccgtggtCtgctgtcaacatccacatgt	6	13	3	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:128522490C>A	uc002tpg.1	-	6	721	c.538G>T	c.(538-540)GAC>TAC	p.D180Y	WDR33_uc002tph.1_Missense_Mutation_p.D180Y|WDR33_uc002tpi.1_Missense_Mutation_p.D180Y	NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	180	WD 2.				postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		CCTCCGTGGTCTGCTGTCAAC	0.468													8	45	---	---	---	---	PASS	A	128522490	A	A	128522490	3	1	166	1	0	0	0	0	1	0	0	0	17284	913	32	2	3949	2	WDR33	2	128522490	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	11973742	128522490	114676883	38	59558										
ARHGAP15	55843	broad.mit.edu	37	chr2	144194488	144194488	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tttgctgtttccagccaaagGattcaagttgtccatcaaga	8	9	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:144194488G>T	uc002tvm.3	+	8	731	c.580G>T	c.(580-582)GAT>TAT	p.D194Y	ARHGAP15_uc010zbl.1_Missense_Mutation_p.D194Y|ARHGAP15_uc002tvn.2_5'UTR	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	194					regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		CCAGCCAAAGGATTCAAGTTG	0.333													9	33	---	---	---	---	PASS	T	144194488	T	T	144194488	3	4	166	1	0	0	0	0	1	0	0	0	866	1174	41	2	606	2	ARHGAP15	2	144194488	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	15671998	144194488	99004885	39	59559										
CACNB4	785	broad.mit.edu	37	chr2	152732997	152732997	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tccgtatgttctccaatctgAgtggacttggaatgaagcca	10	9	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:152732997A>G	uc002tya.2	-	5	532	c.464T>C	c.(463-465)CTC>CCC	p.L155P	CACNB4_uc002txy.2_Missense_Mutation_p.L121P|CACNB4_uc002txz.2_Missense_Mutation_p.L137P|CACNB4_uc010fnz.2_Missense_Mutation_p.L155P|CACNB4_uc002tyb.2_Missense_Mutation_p.L121P	NM_000726	NP_000717	O00305	CACB4_HUMAN	calcium channel, voltage-dependent, beta 4	155					axon guidance|membrane depolarization|synaptic transmission	cytosol|internal side of plasma membrane|plasma membrane|synapse|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.156)	Verapamil(DB00661)	CTCCAATCTGAGTGGACTTGG	0.398													10	31	---	---	---	---	PASS	G	152732997	G	G	152732997	3	3	166	1	0	0	0	0	1	0	0	0	2555	304	11	5	1138	5	CACNB4	2	152732997	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	8538509	152732997	90466376	40	59560										
SCN7A	6332	broad.mit.edu	37	chr2	167330361	167330361	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cagggacatgaatacgcaatCaatcaggacactaattagaa	8	8	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:167330361C>T	uc002udu.1	-	4	518	c.391G>A	c.(391-393)GAT>AAT	p.D131N	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	131	Helical; Name=S1 of repeat I; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						AATACGCAATCAATCAGGACA	0.219													8	30	---	---	---	---	PASS	T	167330361	T	T	167330361	3	4	166	1	0	0	0	0	1	0	0	0	13923	826	29	2	4745	2	SCN7A	2	167330361	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	14597364	167330361	75869012	41	59561										
TTN	7273	broad.mit.edu	37	chr2	179616205	179616205	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	catcttgttttttgttaaagGgagagccagtaaacctcagg	10	7	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:179616205G>A	uc002unb.2	-	46	11146	c.10922C>T	c.(10921-10923)CCC>CTC	p.P3641L	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TTTGTTAAAGGGAGAGCCAGT	0.373													19	80	---	---	---	---	PASS	A	179616205	A	A	179616205	3	1	166	1	0	0	0	0	1	0	0	0	16732	1232	43	3	99375	3	TTN	2	179616205	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	12285844	179616205	63583168	42	59562										
PARD3B	117583	broad.mit.edu	37	chr2	206480475	206480475	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggccccgtgggggcagcccaGaccagtacccttaccgaacc	12	17	0	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:206480475G>C	uc002var.1	+	23	3763	c.3556G>C	c.(3556-3558)GAC>CAC	p.D1186H	PARD3B_uc002vao.1_Missense_Mutation_p.D1085H|PARD3B_uc002vap.1_Missense_Mutation_p.D1124H|PARD3B_uc002vaq.1_Missense_Mutation_p.D1117H|uc010fuc.1_5'Flank	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	1186					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		GGGCAGCCCAGACCAGTACCC	0.617													11	49	---	---	---	---	PASS	C	206480475	C	C	206480475	3	2	166	1	0	0	0	0	1	0	0	0	11444	942	33	2	3646	2	PARD3B	2	206480475	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	26864270	206480475	36718898	43	59563										
IKZF2	22807	broad.mit.edu	37	chr2	213886856	213886856	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cacttgtgaggtttacccacTgtgaagagaactcaaggtca	10	9	2	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:213886856T>A	uc002vem.2	-	6	744	c.575_splice	c.e6-1	p.V192_splice	IKZF2_uc010fuu.2_Splice_Site_p.M47_splice|IKZF2_uc002vej.2_Splice_Site_p.V139_splice|IKZF2_uc002vek.2_Splice_Site|IKZF2_uc010fuv.2_Splice_Site_p.V166_splice|IKZF2_uc002vel.2_Splice_Site_p.V113_splice|IKZF2_uc010fuw.2_Splice_Site|IKZF2_uc010fux.2_Splice_Site|IKZF2_uc010fuy.2_Intron|IKZF2_uc002ven.2_Splice_Site_p.V166_splice	NM_016260	NP_057344	Q9UKS7	IKZF2_HUMAN	helios isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		GTTTACCCACTGTGAAGAGAA	0.443													11	44	---	---	---	---	PASS	A	213886856	A	A	213886856	5	1	166	1	0	0	0	0	0	0	1	0	7615	1594	55	5	1019	5	IKZF2	2	213886856	Splice_Site	SNP	T	TCGA-66-2788-01A-01D-0983-08	7406381	213886856	29312517	44	59564										
ATIC	471	broad.mit.edu	37	chr2	216190789	216190789	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gaaccagaggactatgtggtGgtgtccacggagatgcagag	16	7	0	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:216190789G>C	uc002vex.3	+	6	633	c.459G>C	c.(457-459)GTG>GTC	p.V153V	ATIC_uc010zjo.1_Silent_p.V94V|ATIC_uc002vey.3_Silent_p.V152V	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	153					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity		ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	ACTATGTGGTGGTGTCCACGG	0.493			T	ALK	ALCL								6	43	---	---	---	---	PASS	C	216190789	C	C	216190789	2	2	166	1	0	0	0	0	0	0	0	1	1105	1335	47	4		4	ATIC	2	216190789	Silent	SNP	G	TCGA-66-2788-01A-01D-0983-08	2303933	216190789	27008584	45	59565										
FAM124B	79843	broad.mit.edu	37	chr2	225266389	225266389	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gacctctgggcaaatgcaatCcaggagctggtccagagtcc	12	12	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:225266389C>G	uc002vnx.2	-	1	323	c.97G>C	c.(97-99)GAT>CAT	p.D33H	FAM124B_uc002vnw.2_Missense_Mutation_p.D33H	NM_001122779	NP_001116251	Q9H5Z6	F124B_HUMAN	hypothetical protein LOC79843 isoform a	33							protein binding			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0126)|Lung NSC(271;0.0161)|all_hematologic(139;0.138)		Epithelial(121;4.4e-10)|all cancers(144;2.02e-07)|Lung(261;0.00766)|LUSC - Lung squamous cell carcinoma(224;0.00825)		CAAATGCAATCCAGGAGCTGG	0.572													12	41	---	---	---	---	PASS	G	225266389	G	G	225266389	3	3	166	1	0	0	0	0	1	0	0	0	5426	855	30	2	1369	2	FAM124B	2	225266389	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	9075600	225266389	17932984	46	59566										
UGT1A4	54657	broad.mit.edu	37	chr2	234628211	234628211	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aggtgtcagtggtggatcttGtcagctatgcatccgtgtgg	15	7	3	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:234628211G>T	uc002vux.2	+	1	774	c.745G>T	c.(745-747)GTC>TTC	p.V249F	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Missense_Mutation_p.V249F	NM_007120	NP_009051	P22310	UD14_HUMAN	UDP glycosyltransferase 1 family, polypeptide A4	249					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00266)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0456)|Lung SC(224;0.128)		Epithelial(121;3.49e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000504)|Lung(119;0.0026)|LUSC - Lung squamous cell carcinoma(224;0.00624)	Imipramine(DB00458)|Lamotrigine(DB00555)|Paricalcitol(DB00910)|Trifluoperazine(DB00831)	GGTGGATCTTGTCAGCTATGC	0.527													32	121	---	---	---	---	PASS	T	234628211	T	T	234628211	3	4	166	1	0	0	0	0	1	0	0	0	16944	1377	48	3	747	3	UGT1A4	2	234628211	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	9361822	234628211	8571162	47	59567										
OR6B2	389090	broad.mit.edu	37	chr2	240968955	240968955	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggcctttttcaaggcgtcctTaaattccttgttcctcaggc	8	12	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:240968955T>A	uc002vyr.2	-	2	938	c.892A>T	c.(892-894)AAG>TAG	p.K298*	OR6B2_uc010zoc.1_Nonsense_Mutation_p.K298*	NM_001005853	NP_001005853	Q6IFH4	OR6B2_HUMAN	olfactory receptor, family 6, subfamily B,	298	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.4e-29)|all cancers(36;2.08e-27)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)		AAGGCGTCCTTAAATTCCTTG	0.418													16	97	---	---	---	---	PASS	A	240968955	A	A	240968955	4	1	166	1	0	0	0	0	0	1	0	0	11188	1763	61	5	48	5	OR6B2	2	240968955	Nonsense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	6340744	240968955	2230418	48	59568										
MTERFD2	130916	broad.mit.edu	37	chr2	242039030	242039030	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggcattgctgaaacccatgtCcaggagggaactcatgaccc	11	12	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:242039030C>G	uc002wan.1	-	1	881	c.388G>C	c.(388-390)GAC>CAC	p.D130H	MTERFD2_uc010zoj.1_Intron|MTERFD2_uc010zok.1_Missense_Mutation_p.D101H	NM_182501	NP_872307	Q7Z6M4	MTER2_HUMAN	MTERF domain containing 2	101										ovary(1)	1		all_cancers(19;4.67e-31)|all_epithelial(40;8.67e-13)|Breast(86;0.000141)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;2.47e-32)|all cancers(36;1.79e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-14)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;2.81e-06)|Lung(119;0.000509)|LUSC - Lung squamous cell carcinoma(224;0.00442)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0886)		AAACCCATGTCCAGGAGGGAA	0.488													24	99	---	---	---	---	PASS	G	242039030	G	G	242039030	3	3	166	1	0	0	0	0	1	0	0	0	9920	855	30	2	856	2	MTERFD2	2	242039030	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	1070075	242039030	1160343	49	59569										
PASK	23178	broad.mit.edu	37	chr2	242054777	242054777	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tttcccaagtttgggatcctCaatccaacaatcctccaaga	5	13	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:242054777C>A	uc002wao.1	-	13	3216	c.3124G>T	c.(3124-3126)GAG>TAG	p.E1042*	PASK_uc010zol.1_Nonsense_Mutation_p.E856*|PASK_uc010zom.1_Nonsense_Mutation_p.E1007*|PASK_uc010fzl.1_Nonsense_Mutation_p.E1042*|PASK_uc010zon.1_Nonsense_Mutation_p.E823*|PASK_uc002wap.2_Nonsense_Mutation_p.E585*|PASK_uc002waq.2_Nonsense_Mutation_p.E1042*	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	1042	Protein kinase.				regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		TTGGGATCCTCAATCCAACAA	0.463													11	66	---	---	---	---	PASS	A	242054777	A	A	242054777	4	1	166	1	0	0	0	0	0	1	0	0	11472	835	29	2	871	2	PASK	2	242054777	Nonsense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	15747	242054777	1144596	50	59570										
SCN10A	6336	broad.mit.edu	37	chr3	38835434	38835434	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cagcaatttgcttctctatcTccaccagtgactccggagta	7	13	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:38835434T>C	uc003ciq.2	-	1	68	c.68A>G	c.(67-69)GAG>GGG	p.E23G		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	23					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CTTCTCTATCTCCACCAGTGA	0.488													24	83	---	---	---	---	PASS	C	38835434	C	C	38835434	3	2	166	1	0	0	0	0	1	0	0	0	13912	1551	54	5	5910	5	SCN10A	3	38835434	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08		38835434	159186996	51	59571										
CSRNP1	64651	broad.mit.edu	37	chr3	39184890	39184890	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgaggtgccaggaaggctgcCttcccttgacccttcaaggc	12	13	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:39184890C>T	uc003cjg.2	-	5	1640	c.1426G>A	c.(1426-1428)GGC>AGC	p.G476S	CSRNP1_uc003cjh.2_Missense_Mutation_p.G476S	NM_033027	NP_149016	Q96S65	CSRN1_HUMAN	AXIN1 up-regulated 1	476					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(4)|skin(1)	5						GGAAGGCTGCCTTCCCTTGAC	0.552													5	20	---	---	---	---	PASS	T	39184890	T	T	39184890	3	4	166	1	0	0	0	0	1	0	0	0	3963	681	24	3	347	3	CSRNP1	3	39184890	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	349456	39184890	158837540	52	59572										
ATRIP	84126	broad.mit.edu	37	chr3	48506925	48506925	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctgtgccgcggaaaccgatgTggaagaccccgaggtggagt	16	10	0	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:48506925T>C	uc003ctf.1	+	13	2380	c.2348T>C	c.(2347-2349)GTG>GCG	p.V783A	ATRIP_uc011bbj.1_Missense_Mutation_p.V656A|ATRIP_uc003ctg.1_Missense_Mutation_p.V756A|TREX1_uc010hjy.2_5'UTR|TREX1_uc003ctj.2_5'UTR|TREX1_uc003ctk.2_5'Flank|TREX1_uc010hjz.2_5'Flank|TREX1_uc010hka.2_5'Flank	NM_130384	NP_569055	Q8WXE1	ATRIP_HUMAN	ATR interacting protein isoform 1	783					DNA damage checkpoint|DNA repair|DNA replication	nucleoplasm	protein binding|protein serine/threonine kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GAAACCGATGTGGAAGACCCC	0.592								Other_conserved_DNA_damage_response_genes			OREG0015557	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	32	---	---	---	---	PASS	C	48506925	C	C	48506925	3	2	166	1	0	0	0	0	1	0	0	0	1205	1696	59	5	2398	5	ATRIP	3	48506925	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	9322035	48506925	149515505	53	59573										
DAG1	1605	broad.mit.edu	37	chr3	49548205	49548205	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tcgtcgggcgctcatttcgaGtgaccattccaacagatttg	10	11	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:49548205G>T	uc003cxc.3	+	2	656	c.238G>T	c.(238-240)GTG>TTG	p.V80L		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	80	Required for laminin recognition.				cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		CTCATTTCGAGTGACCATTCC	0.488													7	17	---	---	---	---	PASS	T	49548205	T	T	49548205	3	4	166	1	0	0	0	0	1	0	0	0	4225	1029	36	3	240	3	DAG1	3	49548205	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	1041280	49548205	148474225	54	59574										
STXBP5L	9515	broad.mit.edu	37	chr3	120977942	120977942	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gatatcaagcagaacttgttAttcaattggtgtgggtagat	11	4	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:120977942A>G	uc003eec.3	+	18	2025	c.1885A>G	c.(1885-1887)ATT>GTT	p.I629V	STXBP5L_uc011bji.1_Missense_Mutation_p.I629V	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	629	WD 9.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		AGAACTTGTTATTCAATTGGT	0.363													18	54	---	---	---	---	PASS	G	120977942	G	G	120977942	3	3	166	1	0	0	0	0	1	0	0	0	15356	449	16	5	1951	5	STXBP5L	3	120977942	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	71429737	120977942	77044488	55	59575										
PIK3R4	30849	broad.mit.edu	37	chr3	130442333	130442333	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	catacaagtaagggcataaaGagctttcacaatgacaaatt	7	7	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:130442333G>C	uc003enj.2	-	7	2487	c.1906C>G	c.(1906-1908)CTT>GTT	p.L636V		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	636					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						AGGGCATAAAGAGCTTTCACA	0.423													13	61	---	---	---	---	PASS	C	130442333	C	C	130442333	3	2	166	1	0	0	0	0	1	0	0	0	11921	942	33	2	2226	2	PIK3R4	3	130442333	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	9464391	130442333	67580097	56	59576										
SLCO2A1	6578	broad.mit.edu	37	chr3	133692622	133692622	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	atcagacgtggacggtgcacCcggctgccaaagtagctgac	13	12	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:133692622C>A	uc003eqa.3	-	3	556	c.282G>T	c.(280-282)CGG>CGT	p.R94R	SLCO2A1_uc003eqb.3_Silent_p.R94R|SLCO2A1_uc011blv.1_Silent_p.R94R|SLCO2A1_uc010htw.1_5'UTR	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	94	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						GACGGTGCACCCGGCTGCCAA	0.572													6	24	---	---	---	---	PASS	A	133692622	A	A	133692622	2	1	166	1	0	0	0	0	0	0	0	1	14726	610	22	3		3	SLCO2A1	3	133692622	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	3250289	133692622	64329808	57	59577										
SI	6476	broad.mit.edu	37	chr3	164712183	164712183	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aagtttcattccaggaagcgGgatcttgtctctgaaacaaa	9	8	3	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:164712183G>T	uc003fei.2	-	41	4765	c.4703C>A	c.(4702-4704)CCC>CAC	p.P1568H		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1568	Sucrase.|Lumenal.				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)	CCAGGAAGCGGGATCTTGTCT	0.299										HNSCC(35;0.089)			15	71	---	---	---	---	PASS	T	164712183	T	T	164712183	3	4	166	1	0	0	0	0	1	0	0	0	14297	1232	43	3	812	3	SI	3	164712183	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	31019561	164712183	33310247	58	59578										
TNIK	23043	broad.mit.edu	37	chr3	170857278	170857278	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ccagaagtagagcttgttcaTgcagtagctgctgctgcaag	12	9	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:170857278T>C	uc003fhh.2	-	14	1745	c.1400A>G	c.(1399-1401)CAT>CGT	p.H467R	TNIK_uc003fhi.2_Missense_Mutation_p.H467R|TNIK_uc003fhj.2_Intron|TNIK_uc003fhk.2_Missense_Mutation_p.H467R|TNIK_uc003fhl.2_Intron|TNIK_uc003fhm.2_Missense_Mutation_p.H467R|TNIK_uc003fhn.2_Intron|TNIK_uc003fho.2_Intron	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	467	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			AGCTTGTTCATGCAGTAGCTG	0.408													28	120	---	---	---	---	PASS	C	170857278	C	C	170857278	3	2	166	1	0	0	0	0	1	0	0	0	16310	1464	51	5	2762	5	TNIK	3	170857278	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	6145095	170857278	27165152	59	59579										
ABCC5	10057	broad.mit.edu	37	chr3	183685506	183685506	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gcctaaaatggctgaaatgaGagaggtttttccacttccca	9	9	0	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:183685506G>C	uc003fmg.2	-	12	1975	c.1810C>G	c.(1810-1812)CTC>GTC	p.L604V	ABCC5_uc011bqt.1_Missense_Mutation_p.L132V|ABCC5_uc010hxl.2_Missense_Mutation_p.L604V	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	604	ABC transporter 1.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GCTGAAATGAGAGAGGTTTTT	0.433													29	290	---	---	---	---	PASS	C	183685506	C	C	183685506	3	2	166	1	0	0	0	0	1	0	0	0	56	942	33	2	2579	2	ABCC5	3	183685506	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	12828228	183685506	14336924	60	59580										
CPZ	8532	broad.mit.edu	37	chr4	8602977	8602977	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tccgagtacatcctgctgagCgttctacaccagctcctgga	9	14	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:8602977C>A	uc003glm.2	+	3	375	c.249C>A	c.(247-249)AGC>AGA	p.S83R	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_5'UTR|CPZ_uc003glo.2_Missense_Mutation_p.S72R|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	83	FZ.				proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						TCCTGCTGAGCGTTCTACACC	0.662													4	48	---	---	---	---	PASS	A	8602977	A	A	8602977	3	1	166	1	0	0	0	0	1	0	0	0	3839	767	27	1	259	1	CPZ	4	8602977	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08		8602977	182551299	61	59581										
SLC2A9	56606	broad.mit.edu	37	chr4	9998458	9998458	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aacgtccccacaagtccaccGatggcgaatatggacacagt	9	13	0	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:9998458G>A	uc003gmc.2	-	3	418	c.357C>T	c.(355-357)ATC>ATT	p.I119I	SLC2A9_uc003gmd.2_Silent_p.I90I	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein	119	Helical; Name=2; (Potential).				glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						CAAGTCCACCGATGGCGAATA	0.493													10	47	---	---	---	---	PASS	A	9998458	A	A	9998458	2	1	166	1	0	0	0	0	0	0	0	1	14552	1048	37	2		2	SLC2A9	4	9998458	Silent	SNP	G	TCGA-66-2788-01A-01D-0983-08	1395481	9998458	181155818	62	59582										
SLIT2	9353	broad.mit.edu	37	chr4	20533637	20533637	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aataatgaatttaccgtgttGgaagccacaggaatctttaa	8	6	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:20533637G>T	uc003gpr.1	+	17	1848	c.1644G>T	c.(1642-1644)TTG>TTT	p.L548F	SLIT2_uc003gps.1_Missense_Mutation_p.L540F	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	548	LRR 12.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TTACCGTGTTGGAAGCCACAG	0.303													5	26	---	---	---	---	PASS	T	20533637	T	T	20533637	3	4	166	1	0	0	0	0	1	0	0	0	14740	1339	47	3	1710	3	SLIT2	4	20533637	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	10535179	20533637	170620639	63	59583										
GPR125	166647	broad.mit.edu	37	chr4	22444340	22444340	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	accttgcgattcatcggtttCaactattctcccatcctgat	5	13	3	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:22444340C>T	uc003gqm.1	-	7	1118	c.853G>A	c.(853-855)GAA>AAA	p.E285K	GPR125_uc010ieo.1_Missense_Mutation_p.E159K|GPR125_uc003gqn.1_Missense_Mutation_p.E59K|GPR125_uc003gqo.2_Missense_Mutation_p.E285K	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	285	Extracellular (Potential).|Ig-like.				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				TCATCGGTTTCAACTATTCTC	0.373													8	41	---	---	---	---	PASS	T	22444340	T	T	22444340	3	4	166	1	0	0	0	0	1	0	0	0	6639	835	29	2	3164	2	GPR125	4	22444340	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	1910703	22444340	168709936	64	59584										
APBB2	323	broad.mit.edu	37	chr4	41016138	41016138	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tggttctccccatttttcacCagcttgatgttggcagagcc	9	12	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:41016138C>A	uc003gvl.2	-	6	927	c.297G>T	c.(295-297)CTG>CTT	p.L99L	APBB2_uc003gvm.2_Silent_p.L99L|APBB2_uc003gvn.2_Silent_p.L99L|APBB2_uc011byt.1_Silent_p.L82L	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	99					cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						CATTTTTCACCAGCTTGATGT	0.542													9	44	---	---	---	---	PASS	A	41016138	A	A	41016138	2	1	166	1	0	0	0	0	0	0	0	1	761	581	21	3		3	APBB2	4	41016138	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	18571798	41016138	150138138	65	59585										
BEND4	389206	broad.mit.edu	37	chr4	42145770	42145770	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gtgaaaaccctcaaaaaggcAgaagtttgttgtttcctttg	9	7	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:42145770A>G	uc003gwn.2	-	3	1309	c.729T>C	c.(727-729)TCT>TCC	p.S243S	BEND4_uc003gwm.2_Silent_p.S243S|BEND4_uc011byy.1_Silent_p.S243S	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	243											0						TCAAAAAGGCAGAAGTTTGTT	0.463													10	64	---	---	---	---	PASS	G	42145770	G	G	42145770	2	3	166	1	0	0	0	0	0	0	0	1	1400	175	7	5		5	BEND4	4	42145770	Silent	SNP	A	TCGA-66-2788-01A-01D-0983-08	1129632	42145770	149008506	66	59586										
GABRG1	2565	broad.mit.edu	37	chr4	46067427	46067427	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	attccaaattcgaagcagacGattaggagttgttatccagt	9	7	0	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:46067427G>T	uc003gxb.2	-	4	648	c.496C>A	c.(496-498)CGT>AGT	p.R166S		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	166	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		CGAAGCAGACGATTAGGAGTT	0.338													12	60	---	---	---	---	PASS	T	46067427	T	T	46067427	3	4	166	1	0	0	0	0	1	0	0	0	6171	1058	37	2	925	2	GABRG1	4	46067427	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	3921657	46067427	145086849	67	59587										
GABRG1	2565	broad.mit.edu	37	chr4	46067487	46067487	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gtttctgaagaaagtgtcagGaatccaaatttttccaacca	7	8	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:46067487G>T	uc003gxb.2	-	4	588	c.436C>A	c.(436-438)CCT>ACT	p.P146T		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	146	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		AAAGTGTCAGGAATCCAAATT	0.358													4	52	---	---	---	---	PASS	T	46067487	T	T	46067487	3	4	166	1	0	0	0	0	1	0	0	0	6171	1174	41	2	985	2	GABRG1	4	46067487	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	60	46067487	145086789	68	59588										
UGT2B10	7365	broad.mit.edu	37	chr4	69682026	69682026	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgcaattggttaagagattgTcagaaattcaaaaagataca	8	4	2	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:69682026T>C	uc003hee.2	+	1	314	c.289T>C	c.(289-291)TCA>CCA	p.S97P	UGT2B10_uc011cam.1_Missense_Mutation_p.S97P	NM_001075	NP_001066	P36537	UDB10_HUMAN	UDP glucuronosyltransferase 2B10 isoform 1	97					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						TAAGAGATTGTCAGAAATTCA	0.313													14	58	---	---	---	---	PASS	C	69682026	C	C	69682026	3	2	166	1	0	0	0	0	1	0	0	0	16953	1667	58	5	291	5	UGT2B10	4	69682026	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	23614539	69682026	121472250	69	59589										
GRSF1	2926	broad.mit.edu	37	chr4	71702001	71702001	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttcatactcagggggtggtgGaaggtcttccaggtaagtag	15	6	3	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:71702001G>C	uc010iia.1	-	2	471	c.388C>G	c.(388-390)CCA>GCA	p.P130A	GRSF1_uc011caz.1_Missense_Mutation_p.P12A|GRSF1_uc003hfs.2_5'UTR	NM_002092	NP_002083	Q12849	GRSF1_HUMAN	G-rich RNA sequence binding factor 1 isoform 1	130	RRM 1.				mRNA polyadenylation		mRNA binding|nucleotide binding				0		all_hematologic(202;0.21)	Lung(101;0.235)			GGGGGTGGTGGAAGGTCTTCC	0.413													6	54	---	---	---	---	PASS	C	71702001	C	C	71702001	3	2	166	1	0	0	0	0	1	0	0	0	6809	1174	41	2	1086	2	GRSF1	4	71702001	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	2019975	71702001	119452275	70	59590										
PRKG2	5593	broad.mit.edu	37	chr4	82065400	82065400	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	acttacttcgcatgtcttttTtcatcatcacggttcaggtt	6	10	5	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:82065400T>G	uc003hmh.2	-	9	1253	c.1239A>C	c.(1237-1239)GAA>GAC	p.E413D	PRKG2_uc011ccf.1_5'UTR|PRKG2_uc011ccg.1_5'UTR|PRKG2_uc011cch.1_Missense_Mutation_p.E413D	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	413	cGMP 2.				platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						CATGTCTTTTTTCATCATCAC	0.423													9	46	---	---	---	---	PASS	G	82065400	G	G	82065400	3	3	166	1	0	0	0	0	1	0	0	0	12523	1838	64	5	1089	5	PRKG2	4	82065400	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	10363399	82065400	109088876	71	59591										
NKX6-1	4825	broad.mit.edu	37	chr4	85414579	85414579	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aggcttattgtagtcgtcgtCctcttcctcgttctccgagg	10	12	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:85414579C>A	uc003hpa.1	-	3	973	c.967G>T	c.(967-969)GAC>TAC	p.D323Y		NM_006168	NP_006159	P78426	NKX61_HUMAN	NK6 transcription factor related, locus 1	323	Involved in DNA-binding (By similarity).				detection of glucose|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|type B pancreatic cell maturation	nucleus					0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.0013)		TAGTCGTCGTCCTCTTCCTCG	0.607													14	91	---	---	---	---	PASS	A	85414579	A	A	85414579	3	1	166	1	0	0	0	0	1	0	0	0	10457	855	30	2	140	2	NKX6-1	4	85414579	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	3349179	85414579	105739697	72	59592										
GRID2	2895	broad.mit.edu	37	chr4	94693265	94693265	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctggagcacctccatagacgTgtaaatagcttgtgcacaga	10	10	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:94693265T>A	uc011cdt.1	+	16	2898	c.2640T>A	c.(2638-2640)CGT>CGA	p.R880R	GRID2_uc011cdu.1_Silent_p.R785R	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	880	Cytoplasmic (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	TCCATAGACGTGTAAATAGCT	0.423													19	81	---	---	---	---	PASS	A	94693265	A	A	94693265	2	1	166	1	0	0	0	0	0	0	0	1	6772	1683	59	5		5	GRID2	4	94693265	Silent	SNP	T	TCGA-66-2788-01A-01D-0983-08	9278686	94693265	96461011	73	59593										
USP38	84640	broad.mit.edu	37	chr4	144109067	144109067	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gttctcatcaggagccttacTacggatccaaatgtaaaaga	8	9	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:144109067T>C	uc003ijb.2	+	2	1305	c.771T>C	c.(769-771)ACT>ACC	p.T257T	USP38_uc003ija.3_Silent_p.T257T|USP38_uc003ijc.2_RNA	NM_032557	NP_115946	Q8NB14	UBP38_HUMAN	ubiquitin specific peptidase 38	257					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_hematologic(180;0.158)					GGAGCCTTACTACGGATCCAA	0.403													6	34	---	---	---	---	PASS	C	144109067	C	C	144109067	2	2	166	1	0	0	0	0	0	0	0	1	17066	1509	53	5		5	USP38	4	144109067	Silent	SNP	T	TCGA-66-2788-01A-01D-0983-08	49415802	144109067	47045209	74	59594										
ZNF827	152485	broad.mit.edu	37	chr4	146770699	146770699	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aatcttcaccatctgtgtttCcttgtagctttccgctgcaa	6	12	3	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:146770699C>A	uc003ikn.2	-	6	2044	c.1996G>T	c.(1996-1998)GAA>TAA	p.E666*	ZNF827_uc003ikm.2_Nonsense_Mutation_p.E666*|ZNF827_uc010iox.2_Nonsense_Mutation_p.E316*	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	666					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					ATCTGTGTTTCCTTGTAGCTT	0.443													25	93	---	---	---	---	PASS	A	146770699	A	A	146770699	4	1	166	1	0	0	0	0	0	1	0	0	18177	864	30	2	1269	2	ZNF827	4	146770699	Nonsense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	2661632	146770699	44383577	75	59595										
KIAA0922	23240	broad.mit.edu	37	chr4	154548808	154548808	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ccttcctgtcccagccttccTgccgggcccacaggtgttga	10	17	0	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:154548808T>A	uc003inm.3	+	31	4225	c.4173T>A	c.(4171-4173)CCT>CCA	p.P1391P	KIAA0922_uc010ipp.2_Silent_p.P1392P|KIAA0922_uc010ipq.2_Silent_p.P1160P	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	1391	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				CCAGCCTTCCTGCCGGGCCCA	0.532													5	27	---	---	---	---	PASS	A	154548808	A	A	154548808	2	1	166	1	0	0	0	0	0	0	0	1	8201	1567	55	5		5	KIAA0922	4	154548808	Silent	SNP	T	TCGA-66-2788-01A-01D-0983-08	7778109	154548808	36605468	76	59596										
KLKB1	3818	broad.mit.edu	37	chr4	187178488	187178488	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ccaacggatggtctgtgctgGctataaagaagggggaaaag	15	6	1	1	rs150832692		TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:187178488G>A	uc003iyy.2	+	14	1765	c.1694G>A	c.(1693-1695)GGC>GAC	p.G565D	KLKB1_uc011clc.1_Missense_Mutation_p.G363D|KLKB1_uc011cld.1_Intron	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	565	Peptidase S1.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		GTCTGTGCTGGCTATAAAGAA	0.318													11	79	---	---	---	---	PASS	A	187178488	A	A	187178488	3	1	166	1	0	0	0	0	1	0	0	0	8412	1203	42	3	1744	3	KLKB1	4	187178488	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	32629680	187178488	3975788	77	59597										
ZNF622	90441	broad.mit.edu	37	chr5	16451871	16451871	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctttggacatactgcatgtcTcgctctcgcataagagccgc	9	13	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:16451871T>G	uc003jfq.2	-	6	1449	c.1329A>C	c.(1327-1329)CGA>CGC	p.R443R		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	443						cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						ACTGCATGTCTCGCTCTCGCA	0.433													38	78	---	---	---	---	PASS	G	16451871	G	G	16451871	2	3	166	1	0	0	0	0	0	0	0	1	18043	1538	54	5		5	ZNF622	5	16451871	Silent	SNP	T	TCGA-66-2788-01A-01D-0983-08		16451871	164463389	78	59598										
SLC45A2	51151	broad.mit.edu	37	chr5	33982512	33982512	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cttcctccttgggttagcaaTcaaagctaaaagaaaaataa	6	8	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:33982512T>C	uc003jid.2	-	2	483	c.391A>G	c.(391-393)ATT>GTT	p.I131V	SLC45A2_uc003jie.2_Missense_Mutation_p.I131V|SLC45A2_uc003jif.3_Missense_Mutation_p.I131V|SLC45A2_uc011coe.1_Missense_Mutation_p.I131V	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	131	Helical; Name=3; (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GGGTTAGCAATCAAAGCTAAA	0.398													7	28	---	---	---	---	PASS	C	33982512	C	C	33982512	3	2	166	1	0	0	0	0	1	0	0	0	14641	1435	50	5	1240	5	SLC45A2	5	33982512	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	17530641	33982512	146932748	79	59599										
PCYOX1L	78991	broad.mit.edu	37	chr5	148745559	148745559	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tcgggtgtggaggagctgctCtactcactgggggagtccac	16	10	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:148745559C>G	uc003lqk.2	+	4	587	c.525C>G	c.(523-525)CTC>CTG	p.L175L	PCYOX1L_uc003lql.2_Silent_p.L158L|PCYOX1L_uc010jgz.2_Intron|PCYOX1L_uc003lqm.2_Silent_p.L57L|PCYOX1L_uc003lqn.2_Silent_p.L85L	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	175					prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGAGCTGCTCTACTCACTGG	0.547													14	38	---	---	---	---	PASS	G	148745559	G	G	148745559	2	3	166	1	0	0	0	0	0	0	0	1	11609	900	32	2		2	PCYOX1L	5	148745559	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	114763047	148745559	32169701	80	59600										
ANXA6	309	broad.mit.edu	37	chr5	150505989	150505989	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tcgggccactgcactaagttCccacatctgataggccacct	8	15	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:150505989C>A	uc003ltl.1	-	14	1182	c.1030G>T	c.(1030-1032)GAA>TAA	p.E344*	ANXA6_uc011dcp.1_Nonsense_Mutation_p.E312*|ANXA6_uc003ltm.1_Nonsense_Mutation_p.E344*|ANXA6_uc003ltn.1_Nonsense_Mutation_p.E137*|ANXA6_uc003lto.1_Intron	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	344						melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCACTAAGTTCCCACATCTGA	0.572											OREG0016946	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	11	---	---	---	---	PASS	A	150505989	A	A	150505989	4	1	166	1	0	0	0	0	0	1	0	0	722	864	30	2	1043	2	ANXA6	5	150505989	Nonsense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	1760430	150505989	30409271	81	59601										
DOCK2	1794	broad.mit.edu	37	chr5	169474568	169474568	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aaatcctcaggcccaaaccaGactactttgctgttggatac	7	12	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:169474568G>C	uc003maf.2	+	40	4101	c.4021G>C	c.(4021-4023)GAC>CAC	p.D1341H	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.D833H	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1341	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCCCAAACCAGACTACTTTGC	0.507													9	29	---	---	---	---	PASS	C	169474568	C	C	169474568	3	2	166	1	0	0	0	0	1	0	0	0	4687	942	33	2	4179	2	DOCK2	5	169474568	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	18968579	169474568	11440692	82	59602										
FBXW11	23291	broad.mit.edu	37	chr5	171305017	171305017	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgaagccagatcactcacctCaccgtagaatctgaagagcc	8	13	4	5			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:171305017C>A	uc003mbm.1	-	7	1277	c.906G>T	c.(904-906)GTG>GTT	p.V302V	FBXW11_uc011dey.1_Silent_p.V270V|FBXW11_uc003mbl.1_Silent_p.V289V|FBXW11_uc003mbn.1_Silent_p.V268V	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	302	WD 2.				cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TCACTCACCTCACCGTAGAAT	0.458													13	32	---	---	---	---	PASS	A	171305017	A	A	171305017	2	1	166	1	0	0	0	0	0	0	0	1	5764	813	29	2		2	FBXW11	5	171305017	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	1830449	171305017	9610243	83	59603										
PHACTR1	221692	broad.mit.edu	37	chr6	13053641	13053641	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cgatgcgttctgactccctcGtcccaggcacccacacccca	7	20	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:13053641G>A	uc010jpc.2	+	5	627	c.295G>A	c.(295-297)GTC>ATC	p.V99I	PHACTR1_uc011dir.1_Missense_Mutation_p.V99I|PHACTR1_uc003nag.1_Missense_Mutation_p.V99I|PHACTR1_uc003nah.1_Missense_Mutation_p.V99I	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	99						cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			TGACTCCCTCGTCCCAGGCAC	0.478													8	19	---	---	---	---	PASS	A	13053641	A	A	13053641	3	1	166	1	0	0	0	0	1	0	0	0	11809	1145	40	1	305	1	PHACTR1	6	13053641	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08		13053641	158061426	84	59604										
BTN2A2	10385	broad.mit.edu	37	chr6	26385438	26385438	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggagcagatggaggagtaccGgggaagaatcacctttgtga	16	6	1	3	rs144702884	byFrequency	TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:26385438G>A	uc003nhq.2	+	3	376	c.290G>A	c.(289-291)CGG>CAG	p.R97Q	BTN2A2_uc011dkf.1_Intron|BTN2A2_uc011dkg.1_Missense_Mutation_p.R97Q|BTN2A2_uc003nhr.2_Intron|BTN2A2_uc011dkh.1_Intron|BTN2A2_uc003nhs.2_Missense_Mutation_p.R97Q|BTN2A2_uc003nht.2_Missense_Mutation_p.R97Q	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	97	Extracellular (Potential).|Ig-like V-type.				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						GAGGAGTACCGGGGAAGAATC	0.552													22	64	---	---	---	---	PASS	A	26385438	A	A	26385438	3	1	166	1	0	0	0	0	1	0	0	0	1561	1116	39	1	296	1	BTN2A2	6	26385438	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	13331797	26385438	144729629	85	59605										
HIST1H2AH	85235	broad.mit.edu	37	chr6	27115008	27115008	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cgtgggccgagtgcaccgccTgctccgcaagggtaattatg	14	12	0	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:27115008T>G	uc003niz.2	+	1	101	c.101T>G	c.(100-102)CTG>CGG	p.L34R	HIST1H2BK_uc003nix.1_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080596	NP_542163	Q96KK5	H2A1H_HUMAN	histone cluster 1, H2ah	34					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GTGCACCGCCTGCTCCGCAAG	0.652													10	47	---	---	---	---	PASS	G	27115008	G	G	27115008	3	3	166	1	0	0	0	0	1	0	0	0	7134	1580	55	5	103	5	HIST1H2AH	6	27115008	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	729570	27115008	144000059	86	59606										
PGBD1	84547	broad.mit.edu	37	chr6	28268508	28268508	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttttctttcccagagagtgtGcaccccagattccttgtagt	8	11	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:28268508G>T	uc003nky.2	+	7	1247	c.877G>T	c.(877-879)GCA>TCA	p.A293S	PGBD1_uc003nkz.2_Missense_Mutation_p.A293S	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	293					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						CAGAGAGTGTGCACCCCAGAT	0.423													6	62	---	---	---	---	PASS	T	28268508	T	T	28268508	3	4	166	1	0	0	0	0	1	0	0	0	11780	1319	46	3	899	3	PGBD1	6	28268508	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	1153500	28268508	142846559	87	59607										
OR2W1	26692	broad.mit.edu	37	chr6	29012694	29012694	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gctgatggtcttatcaggtcCccacaagttgaccagcatct	9	12	3	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:29012694C>A	uc003nlw.2	-	1	259	c.259G>T	c.(259-261)GGA>TGA	p.G87*		NM_030903	NP_112165	Q9Y3N9	OR2W1_HUMAN	olfactory receptor, family 2, subfamily W,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TTATCAGGTCCCCACAAGTTG	0.438													8	48	---	---	---	---	PASS	A	29012694	A	A	29012694	4	1	166	1	0	0	0	0	0	1	0	0	11032	632	22	3	707	3	OR2W1	6	29012694	Nonsense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	744186	29012694	142102373	88	59608										
C6orf10	10665	broad.mit.edu	37	chr6	32261379	32261379	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgtcctttcagtacaaccaaCccactcttcgttacttgggc	6	14	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:32261379C>T	uc011dpy.1	-	12	1244	c.1071G>A	c.(1069-1071)GGG>GGA	p.G357G	C6orf10_uc011dpx.1_Silent_p.G139G	NM_006781	NP_006772	Q5SRN2	CF010_HUMAN	chromosome 6 open reading frame 10	357						integral to membrane				skin(1)	1						GTACAACCAACCCACTCTTCG	0.478													36	87	---	---	---	---	PASS	T	32261379	T	T	32261379	2	4	166	1	0	0	0	0	0	0	0	1	2317	494	18	3		3	C6orf10	6	32261379	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	3248685	32261379	138853688	89	59609										
FTSJD2	23070	broad.mit.edu	37	chr6	37420895	37420895	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ccaatccctatgagatgatcCgaggagtcttctttctaaac	7	11	3	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:37420895C>G	uc003ons.2	+	7	935	c.682C>G	c.(682-684)CGA>GGA	p.R228G	FTSJD2_uc010jwu.2_Intron	NM_015050	NP_055865	Q8N1G2	MTR1_HUMAN	FtsJ methyltransferase domain containing 2	228					mRNA capping	cytoplasm|nucleus	mRNA (nucleoside-2'-O-)-methyltransferase activity|nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						TGAGATGATCCGAGGAGTCTT	0.507													15	74	---	---	---	---	PASS	G	37420895	G	G	37420895	3	3	166	1	0	0	0	0	1	0	0	0	6091	644	23	4	704	4	FTSJD2	6	37420895	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	5159516	37420895	133694172	90	59610										
CENPQ	55166	broad.mit.edu	37	chr6	49459937	49459937	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cataattcatcacagatgaaGagcatgtcaaccttcattga	6	9	4	4			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:49459937G>T	uc003ozh.1	+	9	845	c.756G>T	c.(754-756)AAG>AAT	p.K252N		NM_018132	NP_060602	Q7L2Z9	CENPQ_HUMAN	centromere protein Q	252					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	chromosome, centromeric region|cytosol|nucleoplasm				ovary(2)	2	Lung NSC(77;0.0128)					CACAGATGAAGAGCATGTCAA	0.323													7	30	---	---	---	---	PASS	T	49459937	T	T	49459937	3	4	166	1	0	0	0	0	1	0	0	0	3241	933	33	2	786	2	CENPQ	6	49459937	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	12039042	49459937	121655130	91	59611										
COL19A1	1310	broad.mit.edu	37	chr6	70909429	70909429	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gcctgggccaccaggagaccCtggaccccaaggtaagtctt	12	14	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:70909429C>G	uc003pfc.1	+	49	3329	c.3212C>G	c.(3211-3213)CCT>CGT	p.P1071R		NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	1071	Triple-helical region 6 (COL6).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CCAGGAGACCCTGGACCCCAA	0.468													17	24	---	---	---	---	PASS	G	70909429	G	G	70909429	3	3	166	1	0	0	0	0	1	0	0	0	3676	681	24	4	3402	4	COL19A1	6	70909429	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	21449492	70909429	100205638	92	59612										
KIAA1009	22832	broad.mit.edu	37	chr6	84910599	84910599	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	caagattgacctctgcaacaGagtctaatgaatcaagcagc	8	10	3	4			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:84910599G>C	uc010kbp.2	-	9	840	c.743C>G	c.(742-744)TCT>TGT	p.S248C	KIAA1009_uc003pkj.3_Missense_Mutation_p.S172C|KIAA1009_uc003pkk.2_Missense_Mutation_p.S248C	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	248					cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		CTCTGCAACAGAGTCTAATGA	0.333													17	82	---	---	---	---	PASS	C	84910599	C	C	84910599	3	2	166	1	0	0	0	0	1	0	0	0	8203	942	33	2	3544	2	KIAA1009	6	84910599	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	14001170	84910599	86204468	93	59613										
HACE1	57531	broad.mit.edu	37	chr6	105259227	105259227	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gttgctcctgatacatttggCctgttaatatcagcaccact	7	11	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:105259227C>A	uc003pqu.1	-	7	853	c.576G>T	c.(574-576)AGG>AGT	p.R192S	HACE1_uc010kcy.1_5'UTR|HACE1_uc010kcz.1_Missense_Mutation_p.R192S	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	192	ANK 4.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		ATACATTTGGCCTGTTAATAT	0.313													17	61	---	---	---	---	PASS	A	105259227	A	A	105259227	3	1	166	1	0	0	0	0	1	0	0	0	6940	738	26	3	2225	3	HACE1	6	105259227	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	20348628	105259227	65855840	94	59614										
AKD1	221264	broad.mit.edu	37	chr6	109867265	109867265	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	atgtttaatttttctgccaaCtgtcttccacacatagtttt	4	9	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:109867265C>T	uc003ptn.2	-	26	3107	c.3030G>A	c.(3028-3030)CAG>CAA	p.Q1010Q	AKD1_uc011eat.1_Silent_p.Q89Q	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1010					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TTTCTGCCAACTGTCTTCCAC	0.448													12	89	---	---	---	---	PASS	T	109867265	T	T	109867265	2	4	166	1	0	0	0	0	0	0	0	1	460	564	20	3		3	AKD1	6	109867265	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	4608038	109867265	61247802	95	59615										
C6orf204	387119	broad.mit.edu	37	chr6	118791756	118791756	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttctttcttttccagctcttCcatcatcttttgagtggtca	5	11	6	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:118791756C>T	uc003pxz.1	-	11	2554	c.1966G>A	c.(1966-1968)GAA>AAA	p.E656K		NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	656	Potential.					centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		TCCAGCTCTTCCATCATCTTT	0.318													13	34	---	---	---	---	PASS	T	118791756	T	T	118791756	3	4	166	1	0	0	0	0	1	0	0	0	2353	864	30	2	463	2	C6orf204	6	118791756	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	8924491	118791756	52323311	96	59616										
C6orf204	387119	broad.mit.edu	37	chr6	118887127	118887127	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctaggcccaattgtcctcagTtgtgatgttaaagccttagc	9	10	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:118887127T>C	uc003pxz.1	-	3	1173	c.585A>G	c.(583-585)CAA>CAG	p.Q195Q	C6orf204_uc003pya.1_Silent_p.Q198Q|C6orf204_uc003pyb.2_Silent_p.Q195Q|C6orf204_uc011ebj.1_Silent_p.Q93Q|C6orf204_uc003pyc.2_Silent_p.Q198Q|C6orf204_uc011ebl.1_Silent_p.Q93Q	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	195						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		TTGTCCTCAGTTGTGATGTTA	0.453													15	53	---	---	---	---	PASS	C	118887127	C	C	118887127	2	2	166	1	0	0	0	0	0	0	0	1	2353	1722	60	5		5	C6orf204	6	118887127	Silent	SNP	T	TCGA-66-2788-01A-01D-0983-08	95371	118887127	52227940	97	59617										
PDE10A	10846	broad.mit.edu	37	chr6	165842174	165842174	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gttcaagtagagaatctattGcaactatgttatcaaaatat	6	5	3	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:165842174G>A	uc003qun.2	-	11	1038	c.797C>T	c.(796-798)GCA>GTA	p.A266V	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.A196V|PDE10A_uc003quo.2_Missense_Mutation_p.A276V	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	266	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	AGAATCTATTGCAACTATGTT	0.308													7	19	---	---	---	---	PASS	A	165842174	A	A	165842174	3	1	166	1	0	0	0	0	1	0	0	0	11630	1319	46	3	1594	3	PDE10A	6	165842174	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	46955047	165842174	5272893	98	59618										
MLLT4	4301	broad.mit.edu	37	chr6	168311987	168311987	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aagattcatttttgtctgccAttataaattatactaatagc	4	6	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:168311987A>G	uc003qwd.2	+	15	1994	c.1852A>G	c.(1852-1854)ATT>GTT	p.I618V	MLLT4_uc003qwb.1_Missense_Mutation_p.I603V|MLLT4_uc003qwc.1_Missense_Mutation_p.I619V|MLLT4_uc003qwf.2_Missense_Mutation_p.I304V|MLLT4_uc003qwg.1_5'Flank	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	619					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		TTTGTCTGCCATTATAAATTA	0.328			T	MLL	AL								44	75	---	---	---	---	PASS	G	168311987	G	G	168311987	3	3	166	1	0	0	0	0	1	0	0	0	9629	217	8	5	1913	5	MLLT4	6	168311987	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	2469813	168311987	2803080	99	59619										
MAD1L1	8379	broad.mit.edu	37	chr7	2269698	2269698	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gtccagagcctccctccacaCgctgagagatgaagttgttc	10	13	0	4			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:2269698C>A	uc003slh.1	-	3	337	c.71G>T	c.(70-72)CGT>CTT	p.R24L	MAD1L1_uc003slf.1_Missense_Mutation_p.R24L|MAD1L1_uc003slg.1_Missense_Mutation_p.R24L|MAD1L1_uc010ksh.1_Missense_Mutation_p.R24L|MAD1L1_uc003sli.1_Intron|MAD1L1_uc010ksi.1_Missense_Mutation_p.R24L|MAD1L1_uc010ksj.2_Missense_Mutation_p.R24L	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	24					cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		TCCCTCCACACGCTGAGAGAT	0.537													9	12	---	---	---	---	PASS	A	2269698	A	A	2269698	3	1	166	1	0	0	0	0	1	0	0	0	9147	536	19	1	2153	1	MAD1L1	7	2269698	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08		2269698	156868965	100	59620										
DNAH11	8701	broad.mit.edu	37	chr7	21744181	21744181	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggaggaggaagctgcactttGaacagatggtcaggcagtct	15	7	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:21744181G>C	uc003svc.2	+	39	6455	c.6424G>C	c.(6424-6426)GAA>CAA	p.E2142Q		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2142					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GCTGCACTTTGAACAGATGGT	0.537									Kartagener_syndrome				18	37	---	---	---	---	PASS	C	21744181	C	C	21744181	3	2	166	1	0	0	0	0	1	0	0	0	4599	1291	45	2	6575	2	DNAH11	7	21744181	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	19474483	21744181	137394482	101	59621										
ZPBP	11055	broad.mit.edu	37	chr7	50057903	50057903	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgggtcctttttcagtgtctAgagatgaaactgagaaaata	10	5	2	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:50057903A>T	uc003tou.2	-	6	786	c.716T>A	c.(715-717)CTA>CAA	p.L239Q	ZPBP_uc011kci.1_Missense_Mutation_p.L165Q|ZPBP_uc010kyw.2_Missense_Mutation_p.L238Q	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	239					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					TTCAGTGTCTAGAGATGAAAC	0.299													4	21	---	---	---	---	PASS	T	50057903	T	T	50057903	3	4	166	1	0	0	0	0	1	0	0	0	18216	420	15	5	351	5	ZPBP	7	50057903	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	28313722	50057903	109080760	102	59622										
ZNF804B	219578	broad.mit.edu	37	chr7	88963726	88963726	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tatctcttatggctgcaaccCactgtattttgattttaagc	6	9	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:88963726C>A	uc011khi.1	+	4	1968	c.1430C>A	c.(1429-1431)CCA>CAA	p.P477Q		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	477						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GGCTGCAACCCACTGTATTTT	0.428										HNSCC(36;0.09)			17	31	---	---	---	---	PASS	A	88963726	A	A	88963726	3	1	166	1	0	0	0	0	1	0	0	0	18168	594	21	3	1444	3	ZNF804B	7	88963726	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	38905823	88963726	70174937	103	59623										
MUC17	140453	broad.mit.edu	37	chr7	100686315	100686315	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttcaattaccagtgaaagaaGcactccattaacaactctcc	4	12	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:100686315G>A	uc003uxp.1	+	3	11671	c.11618G>A	c.(11617-11619)AGC>AAC	p.S3873N	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3873	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AGTGAAAGAAGCACTCCATTA	0.473													25	69	---	---	---	---	PASS	A	100686315	A	A	100686315	3	1	166	1	0	0	0	0	1	0	0	0	9974	971	34	3	11628	3	MUC17	7	100686315	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	11722589	100686315	58452348	104	59624										
CUX1	1523	broad.mit.edu	37	chr7	101847741	101847741	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gccatggagcaagctgacgcAgaaaggccgagaacccttca	12	12	1	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:101847741A>T	uc003uyx.3	+	19	3016	c.2978A>T	c.(2977-2979)CAG>CTG	p.Q993L	CUX1_uc003uys.3_Missense_Mutation_p.Q1004L|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	993	CUT 2.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						AAGCTGACGCAGAAAGGCCGA	0.632													22	56	---	---	---	---	PASS	T	101847741	T	T	101847741	3	4	166	1	0	0	0	0	1	0	0	0	4064	188	7	5	3119	5	CUX1	7	101847741	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	1161426	101847741	57290922	105	59625										
CADPS2	93664	broad.mit.edu	37	chr7	122047684	122047684	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctctagtgcagtgtccatatCcactgtaaataaagcccaaa	6	11	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:122047684C>A	uc010lkp.2	-	19	2819	c.2656G>T	c.(2656-2658)GAT>TAT	p.D886Y	CADPS2_uc011knx.1_Missense_Mutation_p.D261Y|CADPS2_uc003vkg.3_Missense_Mutation_p.D580Y|CADPS2_uc010lkq.2_Missense_Mutation_p.D880Y	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	886	Interaction with DRD2.|MHD1.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						GTGTCCATATCCACTGTAAAT	0.403													9	20	---	---	---	---	PASS	A	122047684	A	A	122047684	3	1	166	1	0	0	0	0	1	0	0	0	2571	855	30	2	1297	2	CADPS2	7	122047684	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	20199943	122047684	37090979	106	59626										
CHRM2	1129	broad.mit.edu	37	chr7	136700549	136700549	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	acacagtttccacttccctgGgccattccaaagatgagaac	7	13	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:136700549G>T	uc003vtf.1	+	4	1560	c.937G>T	c.(937-939)GGC>TGC	p.G313C	CHRM2_uc003vtg.1_Missense_Mutation_p.G313C|CHRM2_uc003vtj.1_Missense_Mutation_p.G313C|CHRM2_uc003vtk.1_Missense_Mutation_p.G313C|CHRM2_uc003vtl.1_Missense_Mutation_p.G313C|CHRM2_uc003vtm.1_Missense_Mutation_p.G313C|CHRM2_uc003vti.1_Missense_Mutation_p.G313C|CHRM2_uc003vto.1_Missense_Mutation_p.G313C|CHRM2_uc003vtn.1_Missense_Mutation_p.G313C|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	313	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	CACTTCCCTGGGCCATTCCAA	0.463													34	58	---	---	---	---	PASS	T	136700549	T	T	136700549	3	4	166	1	0	0	0	0	1	0	0	0	3377	1232	43	3	939	3	CHRM2	7	136700549	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	14652865	136700549	22438114	107	59627										
WDR60	55112	broad.mit.edu	37	chr7	158705762	158705762	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gaagtgtggacccagcacccGggagaaagtactgttgtatc	13	9	0	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:158705762G>T	uc003woe.3	+	13	1835	c.1677G>T	c.(1675-1677)CCG>CCT	p.P559P	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Silent_p.P191P	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	559										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		CCCAGCACCCGGGAGAAAGTA	0.378													12	26	---	---	---	---	PASS	T	158705762	T	T	158705762	2	4	166	1	0	0	0	0	0	0	0	1	17308	1103	39	1		1	WDR60	7	158705762	Silent	SNP	G	TCGA-66-2788-01A-01D-0983-08	22005213	158705762	432901	108	59628										
CSMD1	64478	broad.mit.edu	37	chr8	3224705	3224705	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggctcggaaaaacttccatcCtctgtgatcagtaaatagtc	8	10	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr8:3224705C>T	uc011kwk.1	-	20	3357	c.2967G>A	c.(2965-2967)GAG>GAA	p.E989E	CSMD1_uc011kwj.1_Silent_p.E381E|CSMD1_uc003wqe.2_Silent_p.E145E	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	989	Extracellular (Potential).|CUB 6.					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)		AACTTCCATCCTCTGTGATCA	0.468													4	40	---	---	---	---	PASS	T	3224705	T	T	3224705	2	4	166	1	0	0	0	0	0	0	0	1	3944	680	24	3		3	CSMD1	8	3224705	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08		3224705	143139317	109	59629										
ANK1	286	broad.mit.edu	37	chr8	41554238	41554238	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gggctgatgttgtctgaggtCtcggtggccgggctgctggg	20	8	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr8:41554238C>T	uc003xok.2	-	25	2775	c.2691G>A	c.(2689-2691)GAG>GAA	p.E897E	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Silent_p.E213E|ANK1_uc003xoi.2_Silent_p.E897E|ANK1_uc003xoj.2_Silent_p.E897E|ANK1_uc003xol.2_Silent_p.E897E|ANK1_uc003xom.2_Silent_p.E938E	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	897					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TGTCTGAGGTCTCGGTGGCCG	0.647													10	16	---	---	---	---	PASS	T	41554238	T	T	41554238	2	4	166	1	0	0	0	0	0	0	0	1	620	912	32	2		2	ANK1	8	41554238	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	38329533	41554238	104809784	110	59630										
CHD7	55636	broad.mit.edu	37	chr8	61654299	61654299	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cggactcgcgtctccgcactCgcagtatcacacccctcccg	8	20	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr8:61654299C>T	uc003xue.2	+	2	785	c.308C>T	c.(307-309)TCG>TTG	p.S103L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	103					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)			TCTCCGCACTCGCAGTATCAC	0.547													15	26	---	---	---	---	PASS	T	61654299	T	T	61654299	3	4	166	1	0	0	0	0	1	0	0	0	3330	893	31	2	310	2	CHD7	8	61654299	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	20100061	61654299	84709723	111	59631										
LRRCC1	85444	broad.mit.edu	37	chr8	86050585	86050585	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	catattagtacactgaatcgGaagtggcatgataaaggaga	11	5	0	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr8:86050585G>C	uc003ycw.2	+	17	2869	c.2715G>C	c.(2713-2715)CGG>CGC	p.R905R	LRRCC1_uc003ycx.2_Silent_p.R812R|LRRCC1_uc003ycy.2_Silent_p.R885R	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	905					cell division|mitosis	centriole|nucleus					0						CACTGAATCGGAAGTGGCATG	0.289													18	53	---	---	---	---	PASS	C	86050585	C	C	86050585	2	2	166	1	0	0	0	0	0	0	0	1	9026	1161	41	2		2	LRRCC1	8	86050585	Silent	SNP	G	TCGA-66-2788-01A-01D-0983-08	24396286	86050585	60313437	112	59632										
AZIN1	51582	broad.mit.edu	37	chr8	103848592	103848592	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cctcttcacctccaatattaTcttctgttgcaatatgtagt	4	11	4	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr8:103848592T>C	uc003ykx.2	-	7	1218	c.476A>G	c.(475-477)GAT>GGT	p.D159G	AZIN1_uc003yky.2_Missense_Mutation_p.D159G	NM_015878	NP_056962	O14977	AZIN1_HUMAN	ornithine decarboxylase antizyme inhibitor	159					polyamine biosynthetic process|regulation of cellular amino acid metabolic process	cytosol	catalytic activity|protein binding				0	Lung NSC(17;0.000143)|all_lung(17;0.000294)		OV - Ovarian serous cystadenocarcinoma(57;0.000196)|STAD - Stomach adenocarcinoma(118;0.0414)			TCCAATATTATCTTCTGTTGC	0.413													22	77	---	---	---	---	PASS	C	103848592	C	C	103848592	3	2	166	1	0	0	0	0	1	0	0	0	1242	1435	50	5	898	5	AZIN1	8	103848592	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	17798007	103848592	42515430	113	59633										
RLN2	6019	broad.mit.edu	37	chr9	5300281	5300281	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	agtttcttaaattcttcaaaGagaagactggaatcttttaa	6	5	4	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr9:5300281G>C	uc003zja.1	-	2	375	c.375C>G	c.(373-375)CTC>CTG	p.L125L	RLN2_uc003ziz.1_3'UTR	NM_134441	NP_604390	P04090	REL2_HUMAN	relaxin 2 isoform 1 preproprotein	125					female pregnancy	extracellular region	hormone activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0201)|Lung(218;0.0987)		ATTCTTCAAAGAGAAGACTGG	0.398													13	45	---	---	---	---	PASS	C	5300281	C	C	5300281	2	2	166	1	0	0	0	0	0	0	0	1	13392	929	33	2		2	RLN2	9	5300281	Silent	SNP	G	TCGA-66-2788-01A-01D-0983-08		5300281	135913150	114	59634										
OR13F1	138805	broad.mit.edu	37	chr9	107267037	107267037	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggaaatgatgtctgtgctgcCactgtctctctgtggtaata	11	8	3	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr9:107267037C>A	uc011lvm.1	+	1	494	c.494C>A	c.(493-495)CCA>CAA	p.P165Q		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						TCTGTGCTGCCACTGTCTCTC	0.473													17	32	---	---	---	---	PASS	A	107267037	A	A	107267037	3	1	166	1	0	0	0	0	1	0	0	0	10941	594	21	3	496	3	OR13F1	9	107267037	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	101966756	107267037	33946394	115	59635										
TOR1B	27348	broad.mit.edu	37	chr9	132565604	132565604	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cctagccatcggggccgcgtCggccatcaccggctacctgt	12	17	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr9:132565604C>T	uc004byk.1	+	1	173	c.113C>T	c.(112-114)TCG>TTG	p.S38L		NM_014506	NP_055321	O14657	TOR1B_HUMAN	torsin family 1, member B (torsin B) precursor	38					chaperone mediated protein folding requiring cofactor|response to unfolded protein	endoplasmic reticulum lumen	ATP binding|nucleoside-triphosphatase activity|unfolded protein binding				0		Ovarian(14;0.0586)				GGGGCCGCGTCGGCCATCACC	0.736													4	4	---	---	---	---	PASS	T	132565604	T	T	132565604	3	4	166	1	0	0	0	0	1	0	0	0	16371	893	31	2	115	2	TOR1B	9	132565604	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	25298567	132565604	8647827	116	59636										
KIAA1462	57608	broad.mit.edu	37	chr10	30336572	30336572	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctttccccgcggacgtcttaCgatgtgcgagggccgcaggg	15	13	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:30336572C>T	uc001iux.2	-	1	229	c.170G>A	c.(169-171)CGT>CAT	p.R57H	KIAA1462_uc001iuy.2_Missense_Mutation_p.R57H|KIAA1462_uc001iuz.2_5'UTR|KIAA1462_uc009xle.1_Missense_Mutation_p.R57H	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	57										ovary(4)	4						GGACGTCTTACGATGTGCGAG	0.662													12	38	---	---	---	---	PASS	T	30336572	T	T	30336572	3	4	166	1	0	0	0	0	1	0	0	0	8234	536	19	1	3921	1	KIAA1462	10	30336572	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08		30336572	105198175	117	59637										
ZEB1	6935	broad.mit.edu	37	chr10	31809073	31809073	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggagagaagccatatgaatgCccaaactgcaagaaacgctt	10	9	0	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:31809073C>T	uc001ivs.3	+	7	873	c.810C>T	c.(808-810)TGC>TGT	p.C270C	ZEB1_uc001ivr.3_Silent_p.C52C|ZEB1_uc010qee.1_Silent_p.C52C|ZEB1_uc010qef.1_Silent_p.C52C|ZEB1_uc009xlj.1_Silent_p.C196C|ZEB1_uc010qeg.1_Silent_p.C129C|ZEB1_uc009xlk.1_Silent_p.C52C|ZEB1_uc001ivt.3_Silent_p.C52C|ZEB1_uc001ivu.3_Silent_p.C271C|ZEB1_uc001ivv.3_Silent_p.C250C|ZEB1_uc010qeh.1_Silent_p.C203C|ZEB1_uc009xlo.1_Silent_p.C253C|ZEB1_uc009xlp.2_Silent_p.C254C	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	270	C2H2-type 4; atypical.				cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				CATATGAATGCCCAAACTGCA	0.358													8	19	---	---	---	---	PASS	T	31809073	T	T	31809073	2	4	166	1	0	0	0	0	0	0	0	1	17620	747	26	3		3	ZEB1	10	31809073	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	1472501	31809073	103725674	118	59638										
ANKRD30A	91074	broad.mit.edu	37	chr10	37431132	37431132	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	atgcgtggcaagagtaacatCtaataaaactaaagttttgg	9	5	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:37431132C>T	uc001iza.1	+	7	1238	c.1139C>T	c.(1138-1140)TCT>TTT	p.S380F		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	436						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AGAGTAACATCTAATAAAACT	0.388													27	64	---	---	---	---	PASS	T	37431132	T	T	37431132	3	4	166	1	0	0	0	0	1	0	0	0	658	913	32	2	1165	2	ANKRD30A	10	37431132	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	5622059	37431132	98103615	119	59639										
FRMPD2	143162	broad.mit.edu	37	chr10	49431303	49431303	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gtttcactgtccaggaaaaaGaactctttgcctgaaatgga	9	8	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:49431303G>C	uc001jgi.2	-	11	1286	c.1179C>G	c.(1177-1179)TTC>TTG	p.F393L	FRMPD2_uc001jgh.2_Missense_Mutation_p.F362L|FRMPD2_uc001jgj.2_Missense_Mutation_p.F371L	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	393	FERM.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		CCAGGAAAAAGAACTCTTTGC	0.478													8	36	---	---	---	---	PASS	C	49431303	C	C	49431303	3	2	166	1	0	0	0	0	1	0	0	0	6058	933	33	2	2826	2	FRMPD2	10	49431303	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	12000171	49431303	86103444	120	59640										
C10orf71	118461	broad.mit.edu	37	chr10	50532080	50532080	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cagctacaagtccaaagcccCtagcctgctgttcaacctca	6	16	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:50532080C>A	uc010qgp.1	+	3	1829	c.1490C>A	c.(1489-1491)CCT>CAT	p.P497H		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	497											0						TCCAAAGCCCCTAGCCTGCTG	0.517													15	25	---	---	---	---	PASS	A	50532080	A	A	50532080	3	1	166	1	0	0	0	0	1	0	0	0	1614	681	24	3	1492	3	C10orf71	10	50532080	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	1100777	50532080	85002667	121	59641										
UNC5B	219699	broad.mit.edu	37	chr10	73047494	73047494	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgcgagggccaggcattccaGaagaccgcctgcaccaccat	11	15	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:73047494G>A	uc001jro.2	+	6	1318	c.873G>A	c.(871-873)CAG>CAA	p.Q291Q	UNC5B_uc001jrp.2_Silent_p.Q291Q	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	291	TSP type-1 1.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						AGGCATTCCAGAAGACCGCCT	0.657													14	28	---	---	---	---	PASS	A	73047494	A	A	73047494	2	1	166	1	0	0	0	0	0	0	0	1	16989	933	33	2		2	UNC5B	10	73047494	Silent	SNP	G	TCGA-66-2788-01A-01D-0983-08	22515414	73047494	62487253	122	59642										
PTEN	5728	broad.mit.edu	37	chr10	89711960	89711960	+	Frame_Shift_Del	DEL	T	-	-													0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggattatagaccagtggcacTgttgtttcacaagatgatgt							TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:89711960delT	uc001kfb.2	+	7	1609	c.578delT	c.(577-579)CTGfs	p.L193fs		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	193	C2 tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.R55fs*1(4)|p.?(3)|p.G165fs*9(3)|p.Y27fs*1(2)|p.Y27_N212>Y(2)|p.G165_K342del(1)|p.G165_*404del(1)|p.V191fs*7(1)|p.L193P(1)|p.L193del(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		CCAGTGGCACTGTTGTTTCAC	0.398		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			90	41	---	---	---	---		-	89711960	-	-	89711960	7	5	166	1	0	1	0	1	0	0	0	0	12738	1580	55	0	600	0	PTEN	10	89711960	Frame_Shift_Del	DEL	T	TCGA-66-2788-01A-01D-0983-08	16664466	89711960	45822787	123	59643										
TDRD1	56165	broad.mit.edu	37	chr10	115973781	115973781	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aaatccattggagtggacatGggttgaacttggtgttgacc	13	6	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:115973781G>T	uc001lbg.1	+	16	2273	c.2120G>T	c.(2119-2121)TGG>TTG	p.W707L	TDRD1_uc001lbf.2_Missense_Mutation_p.W641L|TDRD1_uc001lbh.1_Missense_Mutation_p.W698L|TDRD1_uc001lbi.1_Missense_Mutation_p.W698L|TDRD1_uc010qsc.1_Missense_Mutation_p.W311L|TDRD1_uc001lbj.2_Missense_Mutation_p.W416L	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	707					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		GAGTGGACATGGGTTGAACTT	0.408													23	37	---	---	---	---	PASS	T	115973781	T	T	115973781	3	4	166	1	0	0	0	0	1	0	0	0	15727	1357	47	3	2178	3	TDRD1	10	115973781	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	26261821	115973781	19560966	124	59644										
TUBGCP2	10844	broad.mit.edu	37	chr10	135095751	135095751	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctggcgagctccttccgggcCcgctcctcggcccctgcggg	14	19	0	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:135095751C>A	uc001lmg.1	-	16	2742	c.2385G>T	c.(2383-2385)CGG>CGT	p.R795R	TUBGCP2_uc001lmf.1_Silent_p.R388R|TUBGCP2_uc010qvc.1_Silent_p.R823R|TUBGCP2_uc009ybk.1_Silent_p.R818R|TUBGCP2_uc010qvd.1_Silent_p.R665R|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	795					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		CCTTCCGGGCCCGCTCCTCGG	0.667													9	9	---	---	---	---	PASS	A	135095751	A	A	135095751	2	1	166	1	0	0	0	0	0	0	0	1	16763	610	22	3		3	TUBGCP2	10	135095751	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	19121970	135095751	438996	125	59645										
OR51S1	119692	broad.mit.edu	37	chr11	4869932	4869932	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tagggcatgtaggccagcagGaatggcaggggcagatggag	19	6	0	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:4869932G>C	uc010qyo.1	-	1	507	c.507C>G	c.(505-507)TTC>TTG	p.F169L		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGGCCAGCAGGAATGGCAGGG	0.552													21	76	---	---	---	---	PASS	C	4869932	C	C	4869932	3	2	166	1	0	0	0	0	1	0	0	0	11105	1165	41	2	467	2	OR51S1	11	4869932	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08		4869932	130136584	126	59646										
CSRP3	8048	broad.mit.edu	37	chr11	19207795	19207795	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cataaccttctcagcagcatAgactgacttgccacatcgag	7	13	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:19207795A>T	uc001mpk.2	-	4	499	c.382T>A	c.(382-384)TAT>AAT	p.Y128N		NM_003476	NP_003467	P50461	CSRP3_HUMAN	cysteine and glycine-rich protein 3	128	LIM zinc-binding 2.				cell differentiation|skeletal muscle tissue development	cytoskeleton|nucleus	protein binding|zinc ion binding				0						TCAGCAGCATAGACTGACTTG	0.527													9	56	---	---	---	---	PASS	T	19207795	T	T	19207795	3	4	166	1	0	0	0	0	1	0	0	0	3969	420	15	5	214	5	CSRP3	11	19207795	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	14337863	19207795	115798721	127	59647										
LRP4	4038	broad.mit.edu	37	chr11	46893077	46893077	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctctctcctgagccagtaccTgtgtgagggcaaaggggtgg	15	10	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:46893077T>C	uc001ndn.3	-	31	4837	c.4691A>G	c.(4690-4692)CAG>CGG	p.Q1564R	uc001ndl.2_Intron	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1564	Extracellular (Potential).|LDL-receptor class B 19.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		AGCCAGTACCTGTGTGAGGGC	0.542													3	13	---	---	---	---	PASS	C	46893077	C	C	46893077	3	2	166	1	0	0	0	0	1	0	0	0	8959	1594	55	5	1058	5	LRP4	11	46893077	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	27685282	46893077	88113439	128	59648										
MS4A3	932	broad.mit.edu	37	chr11	59828788	59828788	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	agcaaaattacaagttcttgGggtaagtcagccttagttta	9	6	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:59828788G>A	uc001nom.2	+	2	283	c.155G>A	c.(154-156)GGG>GAG	p.G52E	MS4A3_uc001non.2_Missense_Mutation_p.G52E|MS4A3_uc001noo.2_Intron	NM_006138	NP_006129	Q96HJ5	MS4A3_HUMAN	membrane-spanning 4-domains, subfamily A, member	52	Helical; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm	protein binding|receptor activity			ovary(2)|skin(1)	3		all_epithelial(135;0.245)				CAAGTTCTTGGGGTAAGTCAG	0.318													17	68	---	---	---	---	PASS	A	59828788	A	A	59828788	3	1	166	1	0	0	0	0	1	0	0	0	9861	1246	43	3	157	3	MS4A3	11	59828788	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	12935711	59828788	75177728	129	59649										
MS4A4A	51338	broad.mit.edu	37	chr11	60059779	60059779	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cctggtgtgccccagctgggAaacatggctgtcatacattc	11	12	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:60059779A>T	uc001noz.2	+	2	133	c.123A>T	c.(121-123)GGA>GGT	p.G41G	MS4A4A_uc001npa.2_Silent_p.G22G|MS4A4A_uc001npb.2_Silent_p.G22G|MS4A4A_uc001npc.2_Silent_p.G22G	NM_148975	NP_683876	Q96JQ5	M4A4A_HUMAN	membrane-spanning 4-domains, subfamily A, member	41	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						CCCAGCTGGGAAACATGGCTG	0.488													10	37	---	---	---	---	PASS	T	60059779	T	T	60059779	2	4	166	1	0	0	0	0	0	0	0	1	9862	233	9	5		5	MS4A4A	11	60059779	Silent	SNP	A	TCGA-66-2788-01A-01D-0983-08	230991	60059779	74946737	130	59650										
MS4A14	84689	broad.mit.edu	37	chr11	60183397	60183397	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cgaagatatatcacctgaagActtgccatcccaagctctac	6	13	2	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:60183397A>G	uc001npj.2	+	5	1521	c.956A>G	c.(955-957)GAC>GGC	p.D319G	MS4A14_uc001npi.2_Missense_Mutation_p.D207G|MS4A14_uc001npn.2_Missense_Mutation_p.D57G|MS4A14_uc001npk.2_Missense_Mutation_p.D302G|MS4A14_uc001npl.2_Missense_Mutation_p.D57G|MS4A14_uc001npm.2_Missense_Mutation_p.D57G	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	319						integral to membrane	receptor activity			breast(1)	1						TCACCTGAAGACTTGCCATCC	0.453													13	64	---	---	---	---	PASS	G	60183397	G	G	60183397	3	3	166	1	0	0	0	0	1	0	0	0	9858	275	10	5	974	5	MS4A14	11	60183397	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	123618	60183397	74823119	131	59651										
CAPN1	823	broad.mit.edu	37	chr11	64977857	64977857	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tcatcatcacccgctactcgGagcccgacctggcggtcgac	10	17	3	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:64977857G>A	uc009yqd.1	+	20	2104	c.1993G>A	c.(1993-1995)GAG>AAG	p.E665K	CAPN1_uc001odf.1_Missense_Mutation_p.E665K|CAPN1_uc001odg.1_Missense_Mutation_p.E665K|CAPN1_uc010roa.1_Missense_Mutation_p.E406K	NM_005186	NP_005177	P07384	CAN1_HUMAN	calpain 1, large subunit	665	Domain IV.				positive regulation of cell proliferation|proteolysis	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Lung NSC(402;0.094)|Melanoma(852;0.16)		Lung(977;0.00168)|LUSC - Lung squamous cell carcinoma(976;0.00813)		CCGCTACTCGGAGCCCGACCT	0.592													3	15	---	---	---	---	PASS	A	64977857	A	A	64977857	3	1	166	1	0	0	0	0	1	0	0	0	2622	1175	41	2	2067	2	CAPN1	11	64977857	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	4794460	64977857	70028659	132	59652										
ODZ4	26011	broad.mit.edu	37	chr11	78380075	78380075	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	catgacgttgctgctactaaGgtgcttccacagctcgtggt	11	11	0	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:78380075G>T	uc001ozl.3	-	32	7778	c.7315C>A	c.(7315-7317)CTT>ATT	p.L2439I	ODZ4_uc001ozk.3_Missense_Mutation_p.L664I|ODZ4_uc009yvb.1_Missense_Mutation_p.L1023I	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2439	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CTGCTACTAAGGTGCTTCCAC	0.507													10	40	---	---	---	---	PASS	T	78380075	T	T	78380075	3	4	166	1	0	0	0	0	1	0	0	0	10837	1000	35	3	1006	3	ODZ4	11	78380075	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	13402218	78380075	56626441	133	59653										
CASP1	834	broad.mit.edu	37	chr11	104899950	104899950	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	agttggtaaagataggtttcCagaaactcctactgaatctt	8	7	1	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:104899950C>A	uc010rve.1	-	7	924	c.907G>T	c.(907-909)GGA>TGA	p.G303*	CASP1_uc001pig.2_Nonsense_Mutation_p.G210*|CASP1_uc001pik.2_Nonsense_Mutation_p.G266*|CASP1_uc010rvf.1_Nonsense_Mutation_p.G210*|CASP1_uc010rvg.1_Nonsense_Mutation_p.G282*|CASP1_uc010rvh.1_Intron|CASP1_uc010rvi.1_Intron|CASP1_uc001pim.3_Nonsense_Mutation_p.G303*|CASP1_uc009yxi.2_Nonsense_Mutation_p.G282*|CASP1_uc010rvj.1_Nonsense_Mutation_p.G303*|CASP1_uc009yxj.2_Nonsense_Mutation_p.G148*|CASP1_uc010rvk.1_Nonsense_Mutation_p.G264*	NM_033292	NP_150634	P29466	CASP1_HUMAN	caspase 1 isoform alpha precursor	303					cellular response to mechanical stimulus|cellular response to organic substance|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis|signal transduction	cytosol	caspase activator activity|cysteine-type endopeptidase activity|protein binding			ovary(2)	2		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000525)|Epithelial(105;0.0128)|all cancers(92;0.0482)	Minocycline(DB01017)|Penicillamine(DB00859)	GATAGGTTTCCAGAAACTCCT	0.418													7	23	---	---	---	---	PASS	A	104899950	A	A	104899950	4	1	166	1	0	0	0	0	0	1	0	0	2668	603	21	3	319	3	CASP1	11	104899950	Nonsense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	26519875	104899950	30106566	134	59654										
CD163L1	283316	broad.mit.edu	37	chr12	7527242	7527242	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttgacacaccacgtgggcatCgctcaggtcccagccgtcat	10	15	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:7527242C>T	uc001qsy.2	-	13	3231	c.3205G>A	c.(3205-3207)GAT>AAT	p.D1069N	CD163L1_uc010sge.1_Missense_Mutation_p.D1079N	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	1069	SRCR 10.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity	p.D1069fs*27(1)		ovary(8)|skin(2)|central_nervous_system(1)	11						ACGTGGGCATCGCTCAGGTCC	0.617											OREG0021653	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	47	---	---	---	---	PASS	T	7527242	T	T	7527242	3	4	166	1	0	0	0	0	1	0	0	0	2968	884	31	2	1184	2	CD163L1	12	7527242	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08		7527242	126324653	135	59655										
KLRG1	10219	broad.mit.edu	37	chr12	9147764	9147764	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cctagctgcccagaccgctgGatgaaatatggtaaccattg	10	11	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:9147764G>A	uc001qvh.2	+	3	248	c.237G>A	c.(235-237)TGG>TGA	p.W79*	KLRG1_uc001qvg.2_Nonsense_Mutation_p.W79*	NM_005810	NP_005801	Q96E93	KLRG1_HUMAN	killer cell lectin-like receptor subfamily G,	79	Extracellular (Potential).				cell surface receptor linked signaling pathway|cellular defense response|inflammatory response|regulation of immune response	integral to membrane	receptor activity|sugar binding			central_nervous_system(1)	1						CAGACCGCTGGATGAAATATG	0.483													5	39	---	---	---	---	PASS	A	9147764	A	A	9147764	4	1	166	1	0	0	0	0	0	1	0	0	8421	1183	41	2	247	2	KLRG1	12	9147764	Nonsense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	1620522	9147764	124704131	136	59656										
PRB2	653247	broad.mit.edu	37	chr12	11546519	11546519	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tcgggacttgttgtctccttGtgggggtggtccttgtggct	16	8	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:11546519G>C	uc010shk.1	-	3	528	c.493C>G	c.(493-495)CAA>GAA	p.Q165E		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			TTGTCTCCTTGTGGGGGTGGT	0.607													27	261	---	---	---	---	PASS	C	11546519	C	C	11546519	3	2	166	1	0	0	0	0	1	0	0	0	12443	1386	48	4	761	4	PRB2	12	11546519	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	2398755	11546519	122305376	137	59657										
PTPRO	5800	broad.mit.edu	37	chr12	15654796	15654796	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctcagccatattggtgggacAgtgcatctgcagctcctgaa	11	11	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:15654796A>C	uc001rcv.1	+	5	1078	c.904A>C	c.(904-906)AGT>CGT	p.S302R	PTPRO_uc001rcw.1_Missense_Mutation_p.S302R|PTPRO_uc001rcu.1_Missense_Mutation_p.S302R	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	302	Fibronectin type-III 3.|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)				TTGGTGGGACAGTGCATCTGC	0.443													7	25	---	---	---	---	PASS	C	15654796	C	C	15654796	3	2	166	1	0	0	0	0	1	0	0	0	12809	188	7	5	922	5	PTPRO	12	15654796	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	4108277	15654796	118197099	138	59658										
SLCO1B3	28234	broad.mit.edu	37	chr12	21242966	21242966	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aagtattagaaaatgaaagaCaagtaatggatgaagcaaac	9	3	0	4			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:21242966C>A	uc010sil.1	+	16	2238	c.2173C>A	c.(2173-2175)CAA>AAA	p.Q725K	LST-3TM12_uc010sim.1_Missense_Mutation_p.Q664K|LST-3TM12_uc010sin.1_Missense_Mutation_p.Q617K			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					AAATGAAAGACAAGTAATGGA	0.313													8	28	---	---	---	---	PASS	A	21242966	A	A	21242966	3	1	166	1	0	0	0	0	1	0	0	0	14724	479	17	3		3	SLCO1B3	12	21242966	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	5588170	21242966	112608929	139	59659										
PFKM	5213	broad.mit.edu	37	chr12	48535133	48535133	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gctatgttgggggctggactGgccaaggtggctctaaactt	15	8	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:48535133G>C	uc001rrc.2	+	15	1551	c.1381G>C	c.(1381-1383)GGC>CGC	p.G461R	PFKM_uc001rra.1_Missense_Mutation_p.G146R|PFKM_uc001rrb.1_Missense_Mutation_p.G532R|PFKM_uc001rrd.2_Missense_Mutation_p.G146R|PFKM_uc001rre.1_Missense_Mutation_p.G461R|PFKM_uc001rrg.1_Missense_Mutation_p.G430R	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	461					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						GGGCTGGACTGGCCAAGGTGG	0.537													20	60	---	---	---	---	PASS	C	48535133	C	C	48535133	3	2	166	1	0	0	0	0	1	0	0	0	11765	1348	47	4	1656	4	PFKM	12	48535133	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	27292167	48535133	85316762	140	59660										
NCKAP5L	57701	broad.mit.edu	37	chr12	50186238	50186238	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gcaattctcaccatgggggtCctgggcagcccctccagttg	12	14	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:50186238C>G	uc009zlk.2	-	12	3985	c.3783G>C	c.(3781-3783)AGG>AGC	p.R1261S	NCKAP5L_uc001rvc.3_Missense_Mutation_p.R465S|NCKAP5L_uc001rvb.2_Missense_Mutation_p.R854S	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	1257	Pro-rich.									central_nervous_system(1)	1						CCATGGGGGTCCTGGGCAGCC	0.612													4	15	---	---	---	---	PASS	G	50186238	G	G	50186238	3	3	166	1	0	0	0	0	1	0	0	0	10224	854	30	2	229	2	NCKAP5L	12	50186238	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	1651105	50186238	83665657	141	59661										
SUOX	6821	broad.mit.edu	37	chr12	56397818	56397818	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	acacccaaccctatcttcttCacccggaaccatctgcctgt	4	18	4	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:56397818C>T	uc001six.2	+	6	971	c.645C>T	c.(643-645)TTC>TTT	p.F215F	SUOX_uc001siy.2_Silent_p.F215F|SUOX_uc001siz.2_Silent_p.F215F|SUOX_uc001sja.2_Silent_p.F215F	NM_000456	NP_000447	P51687	SUOX_HUMAN	sulfite oxidase precursor	215	Molybdenum-pterin domain (By similarity).|Molybdenum-pterin-binding (By similarity).					mitochondrial intermembrane space	electron carrier activity|molybdenum ion binding|sulfite oxidase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.119)			CTATCTTCTTCACCCGGAACC	0.552													17	69	---	---	---	---	PASS	T	56397818	T	T	56397818	2	4	166	1	0	0	0	0	0	0	0	1	15392	825	29	2		2	SUOX	12	56397818	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	6211580	56397818	77454077	142	59662										
PAN2	9924	broad.mit.edu	37	chr12	56722284	56722284	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aaatataatgaggcccccacGggccatatacttgaggttgt	10	9	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:56722284G>A	uc001skx.2	-	3	797	c.424C>T	c.(424-426)CGT>TGT	p.R142C	PAN2_uc001skz.2_Missense_Mutation_p.R142C|PAN2_uc001sky.2_Missense_Mutation_p.R142C	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	142					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						AGGCCCCCACGGGCCATATAC	0.488													26	83	---	---	---	---	PASS	A	56722284	A	A	56722284	3	1	166	1	0	0	0	0	1	0	0	0	11414	1116	39	1	3280	1	PAN2	12	56722284	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	324466	56722284	77129611	143	59663										
CRADD	8738	broad.mit.edu	37	chr12	94072576	94072576	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ggccagagacaaacaagtacTccgctcacttcgcctggagc	10	14	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:94072576T>A	uc001tda.2	+	2	130	c.26T>A	c.(25-27)CTC>CAC	p.L9H	CRADD_uc010sur.1_Missense_Mutation_p.L9H|CRADD_uc010sus.1_RNA	NM_003805	NP_003796	P78560	CRADD_HUMAN	CASP2 and RIPK1 domain containing adaptor with	9	CARD.				apoptosis|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|signal transduction	intracellular	death domain binding|protease binding|protein binding, bridging			ovary(1)	1						AAACAAGTACTCCGCTCACTT	0.488													17	34	---	---	---	---	PASS	A	94072576	A	A	94072576	3	1	166	1	0	0	0	0	1	0	0	0	3845	1551	54	5	28	5	CRADD	12	94072576	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	37350292	94072576	39779319	144	59664										
APAF1	317	broad.mit.edu	37	chr12	99061383	99061383	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gactgtatgtattggtacaaCtttctggcctatcacatggc	9	9	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:99061383C>G	uc001tfz.2	+	10	2032	c.1455C>G	c.(1453-1455)AAC>AAG	p.N485K	APAF1_uc001tfy.2_Missense_Mutation_p.N474K|APAF1_uc001tga.2_Missense_Mutation_p.N474K|APAF1_uc001tgb.2_Missense_Mutation_p.N485K|APAF1_uc001tgc.2_Intron	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	485					activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	ATTGGTACAACTTTCTGGCCT	0.393													16	49	---	---	---	---	PASS	G	99061383	G	G	99061383	3	3	166	1	0	0	0	0	1	0	0	0	755	564	20	4	1489	4	APAF1	12	99061383	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	4988807	99061383	34790512	145	59665										
SLC5A8	160728	broad.mit.edu	37	chr12	101555843	101555843	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gataaagaataccagttatcCatcagtggagtcctaagaga	9	7	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:101555843C>G	uc001thz.3	-	13	1929	c.1539G>C	c.(1537-1539)ATG>ATC	p.M513I		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	513	Extracellular (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						ACCAGTTATCCATCAGTGGAG	0.388													27	67	---	---	---	---	PASS	G	101555843	G	G	101555843	3	3	166	1	0	0	0	0	1	0	0	0	14671	594	21	4	305	4	SLC5A8	12	101555843	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	2494460	101555843	32296052	146	59666										
C12orf43	64897	broad.mit.edu	37	chr12	121442168	121442168	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cttcttggctttctttttcaActtccttttcttctttgcct	3	12	5	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:121442168A>C	uc001tzh.1	-	6	600	c.577T>G	c.(577-579)TTG>GTG	p.L193V	C12orf43_uc009zxa.1_Missense_Mutation_p.L224V|C12orf43_uc010szo.1_Missense_Mutation_p.L152V|C12orf43_uc010szp.1_Missense_Mutation_p.L183V|C12orf43_uc001tzi.1_Missense_Mutation_p.L194V	NM_022895	NP_075046	Q96C57	CL043_HUMAN	hypothetical protein LOC64897	193	Lys-rich.										0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TTCTTTTTCAACTTCCTTTTC	0.587													19	50	---	---	---	---	PASS	C	121442168	C	C	121442168	3	2	166	1	0	0	0	0	1	0	0	0	1689	40	2	5	215	5	C12orf43	12	121442168	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	19886325	121442168	12409727	147	59667										
MPHOSPH8	54737	broad.mit.edu	37	chr13	20224398	20224398	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gtgccaagcagatgagaattCaggtgagtttggaatcattt	12	5	2	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:20224398C>T	uc001umh.2	+	5	1583	c.1574C>T	c.(1573-1575)TCA>TTA	p.S525L	MPHOSPH8_uc001umg.2_Missense_Mutation_p.S525L|MPHOSPH8_uc001umi.2_Missense_Mutation_p.S222L	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	525					cell cycle	cytoplasm|nucleus					0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		GATGAGAATTCAGGTGAGTTT	0.398													42	56	---	---	---	---	PASS	T	20224398	T	T	20224398	3	4	166	1	0	0	0	0	1	0	0	0	9727	838	29	2	1592	2	MPHOSPH8	13	20224398	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08		20224398	94945480	148	59668										
PCDH17	27253	broad.mit.edu	37	chr13	58299048	58299048	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctctcctccaagaggtccccTcagcatcaagcagcccaacc	6	19	3	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:58299048T>A	uc001vhq.1	+	4	3992	c.3100T>A	c.(3100-3102)TCA>ACA	p.S1034T	PCDH17_uc010aec.1_Missense_Mutation_p.S1033T|PCDH17_uc001vhr.1_Missense_Mutation_p.S123T	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	1034	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		AGAGGTCCCCTCAGCATCAAG	0.522													28	49	---	---	---	---	PASS	A	58299048	A	A	58299048	3	1	166	1	0	0	0	0	1	0	0	0	11512	1551	54	5	3114	5	PCDH17	13	58299048	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	38074650	58299048	56870830	149	59669										
RNF219	79596	broad.mit.edu	37	chr13	79219120	79219120	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	atggttgttgatgcatatgaCaggctgacgtacctttgaaa	11	6	0	4			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:79219120C>A	uc001vkw.1	-	2	144	c.85G>T	c.(85-87)GTC>TTC	p.V29F	RNF219_uc010afb.1_5'UTR|RNF219_uc010afc.2_Missense_Mutation_p.V29F	NM_024546	NP_078822	Q5W0B1	RN219_HUMAN	ring finger protein 219	29	RING-type; degenerate.						zinc ion binding			large_intestine(2)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.0414)		ATGCATATGACAGGCTGACGT	0.383													25	34	---	---	---	---	PASS	A	79219120	A	A	79219120	3	1	166	1	0	0	0	0	1	0	0	0	13482	478	17	3	2115	3	RNF219	13	79219120	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	20920072	79219120	35950758	150	59670										
IPO5	3843	broad.mit.edu	37	chr13	98673325	98673325	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttgcggaaggagaaatgcacGaggcaattaaacatgaagat	12	5	0	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:98673325G>C	uc001vne.2	+	28	3379	c.3199G>C	c.(3199-3201)GAG>CAG	p.E1067Q		NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	1049					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						AGAAATGCACGAGGCAATTAA	0.418													44	124	---	---	---	---	PASS	C	98673325	C	C	98673325	3	2	166	1	0	0	0	0	1	0	0	0	7796	1059	37	2	3301	2	IPO5	13	98673325	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	19454205	98673325	16496553	151	59671										
NALCN	259232	broad.mit.edu	37	chr13	102029111	102029111	+	Frame_Shift_Del	DEL	A	-	-													0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttccaaacatctgaactcctAaaattccataaagaagtaga							TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:102029111delA	uc001vox.1	-	6	773	c.584delT	c.(583-585)TTAfs	p.L195fs	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Frame_Shift_Del_p.L195fs|NALCN_uc001vpa.2_Frame_Shift_Del_p.L195fs	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	195	Helical; Name=S5 of repeat I; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CTGAACTCCTAAAATTCCATA	0.318													108	50	---	---	---	---		-	102029111	-	-	102029111	7	5	166	1	0	1	0	1	0	0	0	0	10148	372	13	0	4788	0	NALCN	13	102029111	Frame_Shift_Del	DEL	A	TCGA-66-2788-01A-01D-0983-08	3355786	102029111	13140767	152	59672										
COL4A2	1284	broad.mit.edu	37	chr13	111099172	111099172	+	Nonsense_Mutation	SNP	G	T	T													0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ccggagacccagggccccctGgactacctgcctactcccct							TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:111099172G>T	uc001vqx.2	+	18	1328	c.1039G>T	c.(1039-1041)GGA>TGA	p.G347*		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	347	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			AGGGCCCCCTGGACTACCTGC	0.473													22	41	---	---	---	---	PASS	T	111099172	T	T	111099172	4	4	166	1	0	0	0	0	0	1	0	0	3690	1349	47	3	1105	3	COL4A2	13	111099172	Nonsense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	9070061	111099172	4070706	153	59673	1048	2								
COL4A2	1284	broad.mit.edu	37	chr13	111099173	111099173	+	Missense_Mutation	SNP	G	C	C													0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cggagacccagggccccctgGactacctgcctactcccctc							TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:111099173G>C	uc001vqx.2	+	18	1329	c.1040G>C	c.(1039-1041)GGA>GCA	p.G347A		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	347	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GGGCCCCCTGGACTACCTGCC	0.478													22	41	---	---	---	---	PASS	C	111099173	C	C	111099173	3	2	166	1	0	0	0	0	1	0	0	0	3690	1174	41	2	1106	2	COL4A2	13	111099173	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	1	111099173	4070705	154	59674	1048	2								
TSSK4	283629	broad.mit.edu	37	chr14	24676618	24676618	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttacactctagtggtcgcccAtctgccctttgatgacacca	7	14	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:24676618A>T	uc001wng.2	+	3	875	c.707A>T	c.(706-708)CAT>CTT	p.H236L	TM9SF1_uc010tob.1_Intron|TSSK4_uc001wne.2_Missense_Mutation_p.H160L|TSSK4_uc001wnf.2_Missense_Mutation_p.H166L|TSSK4_uc001wnh.2_Missense_Mutation_p.H246L	NM_174944	NP_777604	Q6SA08	TSSK4_HUMAN	testis-specific serine kinase 4	236	Protein kinase.				cell differentiation|multicellular organismal development|positive regulation of CREB transcription factor activity|spermatogenesis		ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity				0				GBM - Glioblastoma multiforme(265;0.018)		GTGGTCGCCCATCTGCCCTTT	0.517													34	65	---	---	---	---	PASS	T	24676618	T	T	24676618	3	4	166	1	0	0	0	0	1	0	0	0	16668	217	8	5	747	5	TSSK4	14	24676618	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08		24676618	82672922	155	59675										
MDGA2	161357	broad.mit.edu	37	chr14	47504430	47504430	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tttaggtttgccagttacttGacattgcagttctattgtgt	9	6	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:47504430G>A	uc001wwj.3	-	8	1592	c.1396C>T	c.(1396-1398)CAA>TAA	p.Q466*	MDGA2_uc001wwi.3_Nonsense_Mutation_p.Q237*|MDGA2_uc010ani.2_Nonsense_Mutation_p.Q26*	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	466	Ig-like 5.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CCAGTTACTTGACATTGCAGT	0.408													16	67	---	---	---	---	PASS	A	47504430	A	A	47504430	4	1	166	1	0	0	0	0	0	1	0	0	9407	1299	45	2	1514	2	MDGA2	14	47504430	Nonsense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	22827812	47504430	59845110	156	59676										
KTN1	3895	broad.mit.edu	37	chr14	56083372	56083372	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	agaaacaaaagacagaaaatGgtgagatgtttagatatgta	10	2	0	5			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:56083372G>T	uc001xcb.2	+	4	963	c.661G>T	c.(661-663)GTC>TTC	p.V221F	KTN1_uc001xce.2_Missense_Mutation_p.V221F|KTN1_uc001xcc.2_Missense_Mutation_p.V221F|KTN1_uc001xcd.2_Missense_Mutation_p.V221F|KTN1_uc010trb.1_Missense_Mutation_p.V221F|KTN1_uc001xcf.1_Missense_Mutation_p.V221F	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	221	Lumenal (Potential).				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						GACAGAAAATGGTGAGATGTT	0.388			T	RET	papillary thryoid								6	66	---	---	---	---	PASS	T	56083372	T	T	56083372	3	4	166	1	0	0	0	0	1	0	0	0	8585	1362	47	3	667	3	KTN1	14	56083372	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	8578942	56083372	51266168	157	59677										
C14orf37	145407	broad.mit.edu	37	chr14	58563647	58563647	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tcatcttcttcctcatcttcCtcttcttcatcttcatcttc	0	16	11	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:58563647C>G	uc001xdc.2	-	5	1995	c.1884G>C	c.(1882-1884)GAG>GAC	p.E628D	C14orf37_uc010tro.1_Missense_Mutation_p.E666D|C14orf37_uc001xdd.2_Missense_Mutation_p.E628D	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	628	Extracellular (Potential).|Glu-rich.					integral to membrane	binding				0						cctcatcttcctcttcttcat	0.279													13	29	---	---	---	---	PASS	G	58563647	G	G	58563647	3	3	166	1	0	0	0	0	1	0	0	0	1771	680	24	4	456	4	C14orf37	14	58563647	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	2480275	58563647	48785893	158	59678										
SYNE2	23224	broad.mit.edu	37	chr14	64443309	64443309	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	atggaaaataaagctaaattAtgccttgcccccacccctcc	5	14	0	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:64443309A>T	uc001xgm.2	+	12	1387	c.1157A>T	c.(1156-1158)TAT>TTT	p.Y386F	SYNE2_uc001xgl.2_Missense_Mutation_p.Y386F	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	386	Cytoplasmic (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)		AAGCTAAATTATGCCTTGCCC	0.378													78	144	---	---	---	---	PASS	T	64443309	T	T	64443309	3	4	166	1	0	0	0	0	1	0	0	0	15443	449	16	5	1199	5	SYNE2	14	64443309	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	5879662	64443309	42906231	159	59679										
SIPA1L1	26037	broad.mit.edu	37	chr14	72138134	72138134	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctaagccatatccaggagccGagctcagcagcatgggggcc	13	13	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:72138134G>T	uc001xms.2	+	8	2902	c.2554G>T	c.(2554-2556)GAG>TAG	p.E852*	SIPA1L1_uc001xmt.2_Nonsense_Mutation_p.E852*|SIPA1L1_uc001xmu.2_Nonsense_Mutation_p.E852*|SIPA1L1_uc001xmv.2_Nonsense_Mutation_p.E852*|SIPA1L1_uc010ttm.1_Nonsense_Mutation_p.E327*	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	852					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TCCAGGAGCCGAGCTCAGCAG	0.502													18	41	---	---	---	---	PASS	T	72138134	T	T	72138134	4	4	166	1	0	0	0	0	0	1	0	0	14329	1059	37	2	2580	2	SIPA1L1	14	72138134	Nonsense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	7694825	72138134	35211406	160	59680										
RGS6	9628	broad.mit.edu	37	chr14	72976929	72976929	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	atgagatattgaaggaccagGtggggcgggaccagtttcta	15	6	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:72976929G>A	uc001xna.3	+	14	1556	c.1033G>A	c.(1033-1035)GTG>ATG	p.V345M	RGS6_uc010ttn.1_Missense_Mutation_p.V345M|RGS6_uc001xmx.3_Missense_Mutation_p.V345M|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.V345M|RGS6_uc010ttp.1_Missense_Mutation_p.V276M|RGS6_uc001xmz.1_Missense_Mutation_p.V206M	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	345	RGS.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		GAAGGACCAGGTGGGGCGGGA	0.468													64	114	---	---	---	---	PASS	A	72976929	A	A	72976929	3	1	166	1	0	0	0	0	1	0	0	0	13309	1261	44	3	1083	3	RGS6	14	72976929	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	838795	72976929	34372611	161	59681										
KCNK10	54207	broad.mit.edu	37	chr14	88652109	88652109	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aacgtcctcgggcaaggtctTtttgaggtccttgtttttcc	10	10	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:88652109T>C	uc001xwo.2	-	7	1844	c.1387A>G	c.(1387-1389)AAG>GAG	p.K463E	KCNK10_uc001xwm.2_Missense_Mutation_p.K468E|KCNK10_uc001xwn.2_Missense_Mutation_p.K468E	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	463	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						GGCAAGGTCTTTTTGAGGTCC	0.507													17	94	---	---	---	---	PASS	C	88652109	C	C	88652109	3	2	166	1	0	0	0	0	1	0	0	0	8059	1850	64	5	233	5	KCNK10	14	88652109	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	15675180	88652109	18697431	162	59682										
BTBD7	55727	broad.mit.edu	37	chr14	93727992	93727992	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	actgatgctctccccatttaAtcagatatttaaggatatct	5	9	3	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:93727992A>G	uc001ybo.2	-	5	1729	c.1403T>C	c.(1402-1404)ATT>ACT	p.I468T	BTBD7_uc010aur.2_5'UTR|BTBD7_uc010two.1_Intron|BTBD7_uc001ybp.2_Missense_Mutation_p.I117T|BTBD7_uc001ybq.3_Missense_Mutation_p.I383T	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	468										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		TCCCCATTTAATCAGATATTT	0.303													7	78	---	---	---	---	PASS	G	93727992	G	G	93727992	3	3	166	1	0	0	0	0	1	0	0	0	1546	101	4	5	2023	5	BTBD7	14	93727992	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	5075883	93727992	13621548	163	59683										
BTBD7	55727	broad.mit.edu	37	chr14	93761256	93761256	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	acaactttgattcgcaaccaTagccttgctgagaataggat	8	9	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:93761256T>C	uc001ybo.2	-	3	436	c.110A>G	c.(109-111)TAT>TGT	p.Y37C	BTBD7_uc010aur.2_5'UTR|BTBD7_uc010two.1_5'UTR|BTBD7_uc001ybp.2_Intron|BTBD7_uc001ybq.3_5'UTR|BTBD7_uc001ybr.2_Missense_Mutation_p.Y37C	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	37										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		TTCGCAACCATAGCCTTGCTG	0.343													23	57	---	---	---	---	PASS	C	93761256	C	C	93761256	3	2	166	1	0	0	0	0	1	0	0	0	1546	1406	49	5	3399	5	BTBD7	14	93761256	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	33264	93761256	13588284	164	59684										
CDC42BPB	9578	broad.mit.edu	37	chr14	103406186	103406186	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ccgcctctgctgcagtctctCttcctctgggaccttgaaga	9	15	4	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:103406186C>G	uc001ymi.1	-	33	4922	c.4690G>C	c.(4690-4692)GAG>CAG	p.E1564Q		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	1564					actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TGCAGTCTCTCTTCCTCTGGG	0.612													66	123	---	---	---	---	PASS	G	103406186	G	G	103406186	3	3	166	1	0	0	0	0	1	0	0	0	3073	922	32	2	465	2	CDC42BPB	14	103406186	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	9644930	103406186	3943354	165	59685										
MKRN3	7681	broad.mit.edu	37	chr15	23811224	23811224	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gcggcatttggacaaagcagAtcatctgcaggtattatata	10	7	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:23811224A>T	uc001ywh.3	+	1	771	c.295A>T	c.(295-297)ATC>TTC	p.I99F	MKRN3_uc001ywi.2_Missense_Mutation_p.I99F|MKRN3_uc010ayi.1_Missense_Mutation_p.I99F	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	99	C3H1-type 1.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		GACAAAGCAGATCATCTGCAG	0.602													9	48	---	---	---	---	PASS	T	23811224	T	T	23811224	3	4	166	1	0	0	0	0	1	0	0	0	9608	333	12	5	297	5	MKRN3	15	23811224	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08		23811224	78720168	166	59686										
ATP10A	57194	broad.mit.edu	37	chr15	26026288	26026288	+	Missense_Mutation	SNP	G	T	T													0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gagcagcagaatgtccgcagGgaagatttcgttgcagcgaa							TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:26026288G>T	uc010ayu.2	-	2	638	c.532C>A	c.(532-534)CCT>ACT	p.P178T		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	178	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		ATGTCCGCAGGGAAGATTTCG	0.527													10	55	---	---	---	---	PASS	T	26026288	T	T	26026288	3	4	166	1	0	0	0	0	1	0	0	0	1116	1232	43	3	4047	3	ATP10A	15	26026288	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	2215064	26026288	76505104	167	59687	1049	2								
ATP10A	57194	broad.mit.edu	37	chr15	26026289	26026289	+	Missense_Mutation	SNP	G	T	T													0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	agcagcagaatgtccgcaggGaagatttcgttgcagcgaag							TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:26026289G>T	uc010ayu.2	-	2	637	c.531C>A	c.(529-531)TTC>TTA	p.F177L		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	177	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TGTCCGCAGGGAAGATTTCGT	0.527													9	56	---	---	---	---	PASS	T	26026289	T	T	26026289	3	4	166	1	0	0	0	0	1	0	0	0	1116	1165	41	2	4048	2	ATP10A	15	26026289	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	1	26026289	76505103	168	59688	1049	2								
ARHGAP11A	9824	broad.mit.edu	37	chr15	32928116	32928116	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	atgaaaagttaccaaagaaaGgtacatttacatactactgt	6	6	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:32928116G>T	uc001zgy.1	+	11	2205	c.1483G>T	c.(1483-1485)GGT>TGT	p.G495C	ARHGAP11A_uc010ubw.1_Missense_Mutation_p.G306C|ARHGAP11A_uc001zgw.2_Missense_Mutation_p.G495C|ARHGAP11A_uc001zgx.2_Missense_Mutation_p.G467C|ARHGAP11A_uc010ubx.1_Missense_Mutation_p.G306C	NM_014783	NP_055598	Q6P4F7	RHGBA_HUMAN	Rho GTPase activating protein 11A isoform 1	495					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			skin(3)|breast(2)|urinary_tract(1)	6		all_lung(180;1.3e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)		ACCAAAGAAAGGTACATTTAC	0.294													11	23	---	---	---	---	PASS	T	32928116	T	T	32928116	3	4	166	1	0	0	0	0	1	0	0	0	863	1014	35	3	1525	3	ARHGAP11A	15	32928116	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	6901827	32928116	69603276	169	59689										
RAD51	5888	broad.mit.edu	37	chr15	40993374	40993374	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aataaatattaagggaattaGtgaagccaaagctgataaaa	8	3	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:40993374G>T	uc001zmi.3	+	3	499	c.200G>T	c.(199-201)AGT>ATT	p.S67I	RAD51_uc010bbw.2_Missense_Mutation_p.S67I|RAD51_uc010bbx.2_Missense_Mutation_p.S67I|RAD51_uc001zmk.3_RNA|RAD51_uc001zml.3_Missense_Mutation_p.S67I|RAD51_uc001zmm.1_RNA|RAD51_uc001zmn.1_5'UTR	NM_002875	NP_002866	Q06609	RAD51_HUMAN	RAD51 homolog protein isoform 1	67	HhH.				DNA recombinase assembly|DNA unwinding involved in replication|mitotic recombination|positive regulation of DNA ligation|protein homooligomerization|reciprocal meiotic recombination	mitochondrial matrix|nucleus|perinuclear region of cytoplasm|PML body	ATP binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|protein C-terminus binding|single-stranded DNA binding|single-stranded DNA-dependent ATPase activity				0		all_cancers(109;1.19e-18)|all_epithelial(112;2.33e-15)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.45e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000421)|COAD - Colon adenocarcinoma(120;0.163)		AAGGGAATTAGTGAAGCCAAA	0.403								Homologous_recombination					17	81	---	---	---	---	PASS	T	40993374	T	T	40993374	3	4	166	1	0	0	0	0	1	0	0	0	12985	1029	36	3	206	3	RAD51	15	40993374	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	8065258	40993374	61538018	170	59690										
CAPN3	825	broad.mit.edu	37	chr15	42693865	42693865	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tctggaccaaccctcagtacCgtctgaagctcctggaggag	11	13	3	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:42693865C>T	uc001zpn.1	+	11	1687	c.1381C>T	c.(1381-1383)CGT>TGT	p.R461C	CAPN3_uc001zpk.1_Missense_Mutation_p.R234C|CAPN3_uc001zpl.1_Missense_Mutation_p.R374C|CAPN3_uc010udf.1_Missense_Mutation_p.R374C|CAPN3_uc010udg.1_Missense_Mutation_p.R326C|CAPN3_uc001zpo.1_Missense_Mutation_p.R461C|CAPN3_uc001zpp.1_Missense_Mutation_p.R413C|CAPN3_uc001zpq.1_5'Flank	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	461	Domain III.				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)		CCCTCAGTACCGTCTGAAGCT	0.582													13	38	---	---	---	---	PASS	T	42693865	T	T	42693865	3	4	166	1	0	0	0	0	1	0	0	0	2628	652	23	1	1475	1	CAPN3	15	42693865	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	1700491	42693865	59837527	171	59691										
DUOX1	53905	broad.mit.edu	37	chr15	45427450	45427450	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttccagagaagccgctgggaCcccgagaccggacggagtcc	14	14	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:45427450C>T	uc001zus.1	+	6	802	c.456C>T	c.(454-456)GAC>GAT	p.D152D	DUOX1_uc001zut.1_Silent_p.D152D|DUOX1_uc010bee.1_5'UTR	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	152	Peroxidase-like; mediates peroxidase activity.|Extracellular (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		GCCGCTGGGACCCCGAGACCG	0.716													5	16	---	---	---	---	PASS	T	45427450	T	T	45427450	2	4	166	1	0	0	0	0	0	0	0	1	4800	506	18	3		3	DUOX1	15	45427450	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	2733585	45427450	57103942	172	59692										
CEP152	22995	broad.mit.edu	37	chr15	49031141	49031141	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	accattatcactgagtaggtCtttcttcttgtgcaaaccaa	6	10	4	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:49031141C>T	uc001zwy.2	-	26	4304	c.4270G>A	c.(4270-4272)GAC>AAC	p.D1424N	CEP152_uc001zwz.2_Missense_Mutation_p.D1480N	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	1424					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		CTGAGTAGGTCTTTCTTCTTG	0.453													9	73	---	---	---	---	PASS	T	49031141	T	T	49031141	3	4	166	1	0	0	0	0	1	0	0	0	3248	913	32	2	698	2	CEP152	15	49031141	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	3603691	49031141	53500251	173	59693										
TEX9	374618	broad.mit.edu	37	chr15	56680704	56680704	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctgaagggatagttcatcttCattcagaaactaaggtatga	9	6	4	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:56680704C>A	uc002adp.2	+	5	303	c.298C>A	c.(298-300)CAT>AAT	p.H100N	TEX9_uc002ado.1_Missense_Mutation_p.H100N|TEX9_uc010ugl.1_Missense_Mutation_p.H25N|TEX9_uc002adq.1_Missense_Mutation_p.H25N	NM_198524	NP_940926	Q8N6V9	TEX9_HUMAN	testis expressed 9	100											0				all cancers(107;0.0394)|GBM - Glioblastoma multiforme(80;0.056)		AGTTCATCTTCATTCAGAAAC	0.328													5	41	---	---	---	---	PASS	A	56680704	A	A	56680704	3	1	166	1	0	0	0	0	1	0	0	0	15781	826	29	2	316	2	TEX9	15	56680704	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	7649563	56680704	45850688	174	59694										
HMG20A	10363	broad.mit.edu	37	chr15	77769937	77769937	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	acggtctgtttttgacatccCtatatttacagaggaattct	7	8	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:77769937C>T	uc002bcr.2	+	8	857	c.656C>T	c.(655-657)CCT>CTT	p.P219L	HMG20A_uc002bcs.2_Missense_Mutation_p.P219L	NM_018200	NP_060670	Q9NP66	HM20A_HUMAN	high-mobility group 20A	219					chromatin modification	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						TTTGACATCCCTATATTTACA	0.328													5	26	---	---	---	---	PASS	T	77769937	T	T	77769937	3	4	166	1	0	0	0	0	1	0	0	0	7221	681	24	3	678	3	HMG20A	15	77769937	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	21089233	77769937	24761455	175	59695										
NARFL	64428	broad.mit.edu	37	chr16	780560	780560	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	aggcgcgtcctcgggcgcctCagcccggaccatgccgtaca	13	17	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:780560C>T	uc002cjr.2	-	11	1300	c.1288G>A	c.(1288-1290)GAG>AAG	p.E430K	NARFL_uc002cjp.2_Missense_Mutation_p.E328K|NARFL_uc002cjq.2_Missense_Mutation_p.E328K|NARFL_uc002cjs.2_Missense_Mutation_p.E212K	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	430					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				TCGGGCGCCTCAGCCCGGACC	0.667													6	46	---	---	---	---	PASS	T	780560	T	T	780560	3	4	166	1	0	0	0	0	1	0	0	0	10168	835	29	2	146	2	NARFL	16	780560	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08		780560	89574193	176	59696										
GRIN2A	2903	broad.mit.edu	37	chr16	9857679	9857679	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgtcatagaggttccccatcCgcaggcaggcatcgcacttg	11	13	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:9857679C>T	uc002czo.3	-	13	4270	c.3722G>A	c.(3721-3723)CGG>CAG	p.R1241Q	GRIN2A_uc010uym.1_Missense_Mutation_p.R1241Q|GRIN2A_uc010uyn.1_Missense_Mutation_p.R1084Q|GRIN2A_uc002czr.3_Missense_Mutation_p.R1241Q	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1241	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GTTCCCCATCCGCAGGCAGGC	0.582													10	91	---	---	---	---	PASS	T	9857679	T	T	9857679	3	4	166	1	0	0	0	0	1	0	0	0	6779	652	23	1	676	1	GRIN2A	16	9857679	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	9077119	9857679	80497074	177	59697										
SLC5A11	115584	broad.mit.edu	37	chr16	24920378	24920378	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gtcaccctcatcactgtctcCaccgtgagctggttcacaga	8	15	5	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:24920378C>A	uc002dmu.2	+	14	1843	c.1611C>A	c.(1609-1611)TCC>TCA	p.S537S	SLC5A11_uc002dms.2_Silent_p.S473S|SLC5A11_uc010vcd.1_Silent_p.S502S|SLC5A11_uc002dmt.2_Silent_p.S381S|SLC5A11_uc010vce.1_Silent_p.S467S|SLC5A11_uc010bxt.2_Silent_p.S473S|SLC5A11_uc002dmv.2_Silent_p.S160S	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	537	Helical; (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		TCACTGTCTCCACCGTGAGCT	0.468													12	39	---	---	---	---	PASS	A	24920378	A	A	24920378	2	1	166	1	0	0	0	0	0	0	0	1	14663	581	21	3		3	SLC5A11	16	24920378	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	15062699	24920378	65434375	178	59698										
NFATC2IP	84901	broad.mit.edu	37	chr16	28967563	28967563	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	agggccaagaggatgaagtgGtcttggtggaagggcccacc	17	8	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:28967563G>T	uc002dru.2	+	5	766	c.751G>T	c.(751-753)GTC>TTC	p.V251F	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Intron|NFATC2IP_uc002drv.2_5'UTR|NFATC2IP_uc010vdh.1_5'Flank	NM_032815	NP_116204	Q8NCF5	NF2IP_HUMAN	nuclear factor of activated T-cells,	251						cytoplasm|nucleus				ovary(1)	1						GGATGAAGTGGTCTTGGTGGA	0.607													14	31	---	---	---	---	PASS	T	28967563	T	T	28967563	3	4	166	1	0	0	0	0	1	0	0	0	10363	1261	44	3	769	3	NFATC2IP	16	28967563	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	4047185	28967563	61387190	179	59699										
C16orf57	79650	broad.mit.edu	37	chr16	58043878	58043878	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tctgcttgatgtgttgctgcCccatgcccagacatatgtcc	9	13	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:58043878C>T	uc002emz.2	+	3	394	c.311C>T	c.(310-312)CCC>CTC	p.P104L	C16orf57_uc010via.1_Missense_Mutation_p.P104L|C16orf57_uc002emy.2_RNA|C16orf57_uc010vib.1_Missense_Mutation_p.P104L|C16orf57_uc010vic.1_Missense_Mutation_p.P53L	NM_024598	NP_078874	Q9BQ65	CP057_HUMAN	hypothetical protein LOC79650	104											0						GTGTTGCTGCCCCATGCCCAG	0.592													34	77	---	---	---	---	PASS	T	58043878	T	T	58043878	3	4	166	1	0	0	0	0	1	0	0	0	1821	623	22	3	321	3	C16orf57	16	58043878	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	29076315	58043878	32310875	180	59700										
PDP2	57546	broad.mit.edu	37	chr16	66918398	66918398	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gacacacatcaacagaggaaGatgattttcacttgcaactc	7	10	2	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:66918398G>T	uc002eqk.1	+	2	373	c.211G>T	c.(211-213)GAT>TAT	p.D71Y		NM_020786	NP_065837	Q9P2J9	PDP2_HUMAN	pyruvate dehydrogenase phosphatase isoenzyme 2	71					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity|metal ion binding			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		AACAGAGGAAGATGATTTTCA	0.488													5	73	---	---	---	---	PASS	T	66918398	T	T	66918398	3	4	166	1	0	0	0	0	1	0	0	0	11686	942	33	2	213	2	PDP2	16	66918398	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	8874520	66918398	23436355	181	59701										
ZFHX3	463	broad.mit.edu	37	chr16	72992122	72992122	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	accgtgtcgcatttggggcaCtccacgccactccccgaggg	12	16	0	0	rs150601682	by1000genomes	TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:72992122C>T	uc002fck.2	-	2	2596	c.1923G>A	c.(1921-1923)GAG>GAA	p.E641E	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	641	C2H2-type 2.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ATTTGGGGCACTCCACGCCAC	0.642													7	16	---	---	---	---	PASS	T	72992122	T	T	72992122	2	4	166	1	0	0	0	0	0	0	0	1	17631	564	20	3		3	ZFHX3	16	72992122	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	6073724	72992122	17362631	182	59702										
TUBB3	10381	broad.mit.edu	37	chr16	90001435	90001435	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	acgctgtccatccaccagctGgtggagaacacggatgagac	12	12	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:90001435G>T	uc002fph.1	+	4	641	c.576G>T	c.(574-576)CTG>CTT	p.L192L	TUBB3_uc002fpf.2_Silent_p.L539L|TUBB3_uc010ciz.1_Silent_p.L120L|TUBB3_uc002fpg.1_Silent_p.L46L|TUBB3_uc002fpi.1_Silent_p.L120L|TUBB3_uc002fpj.1_Silent_p.L120L|TUBB3_uc010cjb.1_Silent_p.L46L|TUBB3_uc002fpk.1_Silent_p.L46L	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	192					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		TCCACCAGCTGGTGGAGAACA	0.612													52	105	---	---	---	---	PASS	T	90001435	T	T	90001435	2	4	166	1	0	0	0	0	0	0	0	1	16754	1335	47	3		3	TUBB3	16	90001435	Silent	SNP	G	TCGA-66-2788-01A-01D-0983-08	17009313	90001435	353318	183	59703										
TP53	7157	broad.mit.edu	37	chr17	7579311	7579311	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cagcccctcagggcaactgaCcgtgcaagtcacagacttgg	11	14	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr17:7579311C>A	uc002gim.2	-	4	569	c.375_splice	c.e4+1	p.T125_splice	TP53_uc002gig.1_Splice_Site_p.T125_splice|TP53_uc002gih.2_Splice_Site_p.T125_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Splice_Site_p.T125_splice|TP53_uc010cni.1_Splice_Site_p.T125_splice|TP53_uc002gij.2_Splice_Site_p.T125_splice|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Splice_Site_p.T86_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						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.?(11)|p.0?(7)|p.V73fs*9(1)|p.Y126fs*11(1)|p.P13fs*18(1)|p.T125_Y126insX(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)		GGGCAACTGACCGTGCAAGTC	0.532		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)			11	45	---	---	---	---	PASS	A	7579311	A	A	7579311	5	1	166	1	0	0	0	0	0	0	1	0	16378	521	18	3	926	3	TP53	17	7579311	Splice_Site	SNP	C	TCGA-66-2788-01A-01D-0983-08		7579311	73615899	184	59704										
NF1	4763	broad.mit.edu	37	chr17	29663350	29663350	+	Splice_Site	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttattttccttcttcaactaGattacagatctgcttgatgt	5	8	3	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr17:29663350G>T	uc002hgg.2	+	41	6340	c.6007_splice	c.e41-1	p.I2003_splice	NF1_uc002hgh.2_Splice_Site_p.I1982_splice|NF1_uc010cso.2_Splice_Site_p.I191_splice|NF1_uc010wbt.1_5'Flank|NF1_uc010wbu.1_5'Flank	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1						actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TCTTCAACTAGATTACAGATC	0.328			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			9	26	---	---	---	---	PASS	T	29663350	T	T	29663350	5	4	166	1	0	0	0	0	0	0	1	0	10356	956	33	2	6229	2	NF1	17	29663350	Splice_Site	SNP	G	TCGA-66-2788-01A-01D-0983-08	22084039	29663350	51531860	185	59705										
HSF5	124535	broad.mit.edu	37	chr17	56540167	56540167	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgtgtgctgaatggtggcccTtcctgcacaaatactactga	10	10	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr17:56540167T>G	uc002iwi.1	-	4	1642	c.1518A>C	c.(1516-1518)GAA>GAC	p.E506D		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	506						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					ATGGTGGCCCTTCCTGCACAA	0.433													15	113	---	---	---	---	PASS	G	56540167	G	G	56540167	3	3	166	1	0	0	0	0	1	0	0	0	7399	1606	56	5	284	5	HSF5	17	56540167	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	26876817	56540167	24655043	186	59706										
DSG1	1828	broad.mit.edu	37	chr18	28934971	28934971	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ccggcatgataggtagtctgAgtatgcaccccgagttagcc	12	11	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr18:28934971A>T	uc002kwp.2	+	15	3024	c.2812A>T	c.(2812-2814)AGT>TGT	p.S938C	DSG1_uc010xbp.1_Missense_Mutation_p.S297C	NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	938	Desmoglein repeat 5.|Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			AGGTAGTCTGAGTATGCACCC	0.483													107	175	---	---	---	---	PASS	T	28934971	T	T	28934971	3	4	166	1	0	0	0	0	1	0	0	0	4776	304	11	5	2870	5	DSG1	18	28934971	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08		28934971	49142277	187	59707										
DCC	1630	broad.mit.edu	37	chr18	50976931	50976931	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	actcctcagaagaacagcaaCctgcttgtgatcattgtggt	9	10	2	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr18:50976931C>A	uc002lfe.1	+	23	3878	c.3291C>A	c.(3289-3291)AAC>AAA	p.N1097K	DCC_uc010dpf.1_Missense_Mutation_p.N732K	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1097	Extracellular (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AGAACAGCAACCTGCTTGTGA	0.527													14	29	---	---	---	---	PASS	A	50976931	A	A	50976931	3	1	166	1	0	0	0	0	1	0	0	0	4282	506	18	3	3381	3	DCC	18	50976931	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	22041960	50976931	27100317	188	59708										
TRIP10	9322	broad.mit.edu	37	chr19	6751103	6751103	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	agggcactatctctatggccGagggtgaagacctcagtctt	12	10	3	2	rs139253875	byFrequency	TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:6751103G>C	uc002mfs.2	+	15	1753	c.1687G>C	c.(1687-1689)GAG>CAG	p.E563Q	TRIP10_uc010dux.1_Silent_p.P516P|TRIP10_uc002mfr.2_Missense_Mutation_p.E507Q|TRIP10_uc010duy.2_RNA|TRIP10_uc010duz.2_Missense_Mutation_p.E326Q	NM_004240	NP_004231	Q15642	CIP4_HUMAN	thyroid hormone receptor interactor 10	563	Interaction with PDE6G (By similarity).|SH3.|Required for podosome formation.|Interaction with ARHGAP17, DAAM1, DIAPH1 and DIAPH2.|Interaction with DNM1 and WASL.|Required for interaction with FASLG and localization to lysosomes.|Interaction with WAS.				actin cytoskeleton organization|cell communication|endocytosis|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell projection|cytoskeleton|cytosol|Golgi apparatus|lysosome|perinuclear region of cytoplasm|phagocytic cup	GTPase activator activity|identical protein binding|lipid binding			ovary(1)	1						CTCTATGGCCGAGGGTGAAGA	0.527													13	29	---	---	---	---	PASS	C	6751103	C	C	6751103	3	2	166	1	0	0	0	0	1	0	0	0	16551	1059	37	2	1573	2	TRIP10	19	6751103	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08		6751103	52377880	189	59709										
MUC16	94025	broad.mit.edu	37	chr19	8971706	8971706	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gatgtccaccaactggtaggTggagcccagccaatggaatg	13	10	0	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:8971706T>A	uc002mkp.2	-	78	43090	c.42886A>T	c.(42886-42888)ACC>TCC	p.T14296S	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.T1096S|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	14379	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						AACTGGTAGGTGGAGCCCAGC	0.527													13	15	---	---	---	---	PASS	A	8971706	A	A	8971706	3	1	166	1	0	0	0	0	1	0	0	0	9973	1696	59	5	665	5	MUC16	19	8971706	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	2220603	8971706	50157277	190	59710										
EMR3	84658	broad.mit.edu	37	chr19	14736383	14736383	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	attttgattttacgatctctCtaaaccacttttgatattgt	4	7	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:14736383C>G	uc002mzi.3	-	15	1989	c.1841G>C	c.(1840-1842)AGA>ACA	p.R614T	EMR3_uc010dzp.2_Missense_Mutation_p.R562T|EMR3_uc010xnv.1_Missense_Mutation_p.R488T	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	614	Cytoplasmic (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						TACGATCTCTCTAAACCACTT	0.418													11	65	---	---	---	---	PASS	G	14736383	G	G	14736383	3	3	166	1	0	0	0	0	1	0	0	0	5106	913	32	2	125	2	EMR3	19	14736383	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	5764677	14736383	44392600	191	59711										
CEACAM5	1048	broad.mit.edu	37	chr19	42213940	42213940	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttgtgaatgaagaagcaactGgccagttccgggtataccgt	12	8	0	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:42213940G>A	uc002ork.2	+	2	527	c.406G>A	c.(406-408)GGC>AGC	p.G136S	CEACAM5_uc010ehz.1_Missense_Mutation_p.G136S|CEACAM5_uc002orj.1_Missense_Mutation_p.G136S|CEACAM5_uc002orl.2_Missense_Mutation_p.G136S	NM_004363	NP_004354	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion	136	Ig-like 1.					anchored to membrane|basolateral plasma membrane|integral to plasma membrane				skin(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		AGAAGCAACTGGCCAGTTCCG	0.517													36	170	---	---	---	---	PASS	A	42213940	A	A	42213940	3	1	166	1	0	0	0	0	1	0	0	0	3195	1348	47	3	412	3	CEACAM5	19	42213940	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	27477557	42213940	16915043	192	59712										
CD37	951	broad.mit.edu	37	chr19	49838976	49838976	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	atctcctctccccaggtcctCggcagcctgatcttctgctt	7	17	4	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:49838976C>A	uc002pnd.2	+	2	196	c.75C>A	c.(73-75)CTC>CTA	p.L25L	uc002pnb.1_Intron|CD37_uc002pnc.2_RNA|CD37_uc010yam.1_Silent_p.L25L|CD37_uc010yan.1_5'UTR|CD37_uc002pnf.3_5'UTR|CD37_uc002pne.2_5'UTR	NM_001774	NP_001765	P11049	CD37_HUMAN	CD37 antigen isoform A	25	Helical; (Potential).					integral to membrane					0		all_lung(116;2.81e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00088)|GBM - Glioblastoma multiforme(486;0.0443)		CCCAGGTCCTCGGCAGCCTGA	0.657													67	236	---	---	---	---	PASS	A	49838976	A	A	49838976	2	1	166	1	0	0	0	0	0	0	0	1	3008	871	31	2		2	CD37	19	49838976	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	7625036	49838976	9290007	193	59713										
TSKS	60385	broad.mit.edu	37	chr19	50247496	50247496	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cagccccgttacctggcacaGcgggcacagttgccttggtg	13	14	0	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:50247496G>C	uc002ppm.2	-	8	1364	c.1353C>G	c.(1351-1353)CGC>CGG	p.R451R		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	451							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		ACCTGGCACAGCGGGCACAGT	0.582													10	41	---	---	---	---	PASS	C	50247496	C	C	50247496	2	2	166	1	0	0	0	0	0	0	0	1	16623	958	34	4		4	TSKS	19	50247496	Silent	SNP	G	TCGA-66-2788-01A-01D-0983-08	408520	50247496	8881487	194	59714										
PTOV1	53635	broad.mit.edu	37	chr19	50357725	50357725	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tcctcacctgggctcaccctCgggggtctggccgtgagcga	14	15	3	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:50357725C>T	uc002pqf.1	+	2	404	c.234C>T	c.(232-234)CTC>CTT	p.L78L	uc002ppy.3_5'Flank|PTOV1_uc010ybf.1_Silent_p.L46L|PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Silent_p.L46L|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	78					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		GGCTCACCCTCGGGGGTCTGG	0.667													8	80	---	---	---	---	PASS	T	50357725	T	T	50357725	2	4	166	1	0	0	0	0	0	0	0	1	12769	871	31	2		2	PTOV1	19	50357725	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	110229	50357725	8771258	195	59715										
ZNF415	55786	broad.mit.edu	37	chr19	53612438	53612438	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gaactctccgatgtagtgcaAggcatgagttgcgactgaaa	12	8	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:53612438A>T	uc002qax.2	-	7	1353	c.1004T>A	c.(1003-1005)CTT>CAT	p.L335H	ZNF415_uc002qat.2_Missense_Mutation_p.L299H|ZNF415_uc002qaw.2_Missense_Mutation_p.L287H|ZNF415_uc010yds.1_Missense_Mutation_p.L287H|ZNF415_uc010ydt.1_Missense_Mutation_p.L287H|ZNF415_uc002qau.2_Missense_Mutation_p.L274H|ZNF415_uc002qav.2_Missense_Mutation_p.L299H|ZNF415_uc002qba.2_Missense_Mutation_p.L57H|ZNF415_uc002qay.2_Missense_Mutation_p.L274H|ZNF415_uc002qaz.2_Missense_Mutation_p.L335H	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	335	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		ATGTAGTGCAAGGCATGAGTT	0.413													7	54	---	---	---	---	PASS	T	53612438	T	T	53612438	3	4	166	1	0	0	0	0	1	0	0	0	17889	72	3	5	811	5	ZNF415	19	53612438	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	3254713	53612438	5516545	196	59716										
EPS8L1	54869	broad.mit.edu	37	chr19	55597214	55597214	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cccgcttctcctcagtcaccGagacttggagccagaatctg	9	15	4	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:55597214G>A	uc002qis.3	+	15	1495	c.1391G>A	c.(1390-1392)CGA>CAA	p.R464Q	EPS8L1_uc010ess.1_Missense_Mutation_p.R478Q|EPS8L1_uc010yfr.1_Missense_Mutation_p.R400Q|EPS8L1_uc010esu.1_RNA|EPS8L1_uc002qiu.2_Missense_Mutation_p.R337Q|EPS8L1_uc002qiv.2_Missense_Mutation_p.R142Q|EPS8L1_uc002qiw.2_Missense_Mutation_p.R243Q	NM_133180	NP_573441	Q8TE68	ES8L1_HUMAN	epidermal growth factor receptor pathway	464						cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		CTCAGTCACCGAGACTTGGAG	0.577													15	73	---	---	---	---	PASS	A	55597214	A	A	55597214	3	1	166	1	0	0	0	0	1	0	0	0	5195	1058	37	2	1497	2	EPS8L1	19	55597214	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	1984776	55597214	3531769	197	59717										
ZNF667	63934	broad.mit.edu	37	chr19	56953294	56953294	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cacatttatcacatttgtacGgtttctctgaagtgtgaatt	7	7	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:56953294G>A	uc002qnd.2	-	5	1232	c.1070C>T	c.(1069-1071)CCG>CTG	p.P357L	ZNF667_uc010etl.2_Missense_Mutation_p.P139L|ZNF667_uc002qne.2_Missense_Mutation_p.P357L|ZNF667_uc010etm.2_Missense_Mutation_p.P300L	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	357					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		ACATTTGTACGGTTTCTCTGA	0.353													11	55	---	---	---	---	PASS	A	56953294	A	A	56953294	3	1	166	1	0	0	0	0	1	0	0	0	18071	1116	39	1	766	1	ZNF667	19	56953294	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	1356080	56953294	2175689	198	59718										
AURKC	6795	broad.mit.edu	37	chr19	57746259	57746259	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgccttcctctaggaggaagAcaatgtgtgggacactggac	13	9	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:57746259A>G	uc002qoe.2	+	6	781	c.592A>G	c.(592-594)ACA>GCA	p.T198A	AURKC_uc002qoc.2_Missense_Mutation_p.T179A|AURKC_uc002qod.2_Missense_Mutation_p.T164A|AURKC_uc010etv.2_Missense_Mutation_p.T195A	NM_001015878	NP_001015878	Q9UQB9	AURKC_HUMAN	aurora kinase C isoform 1	198	Protein kinase.			T->A: Impairs kinase activity.	cell cycle|cytokinesis	condensed chromosome|cytoplasm|midbody|spindle midzone	ATP binding|protein serine/threonine kinase activity			lung(4)|ovary(2)	6		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0122)		TAGGAGGAAGACAATGTGTGG	0.483													6	46	---	---	---	---	PASS	G	57746259	G	G	57746259	3	3	166	1	0	0	0	0	1	0	0	0	1224	275	10	5	619	5	AURKC	19	57746259	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	792965	57746259	1382724	199	59719										
PDYN	5173	broad.mit.edu	37	chr20	1961247	1961247	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cttggggtcctcctcagcgaGatagagtgtgccagtctcca	12	12	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:1961247G>A	uc010gaj.2	-	3	729	c.487C>T	c.(487-489)CTC>TTC	p.L163F	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.L163F|PDYN_uc010zpt.1_Missense_Mutation_p.L8F	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	163					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						TCCTCAGCGAGATAGAGTGTG	0.602													23	75	---	---	---	---	PASS	A	1961247	A	A	1961247	3	1	166	1	0	0	0	0	1	0	0	0	11699	942	33	2	281	2	PDYN	20	1961247	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08		1961247	61064273	200	59720										
TMC2	117532	broad.mit.edu	37	chr20	2575614	2575614	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctgattattgtcattcgatcGtaagtatgaccgtctcatcc	7	10	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:2575614G>A	uc002wgf.1	+	9	1091	c.1076_splice	c.e9+1	p.S359_splice	TMC2_uc002wgg.1_Splice_Site_p.S343_splice|TMC2_uc010zpw.1_Splice_Site_p.S191_splice|TMC2_uc010zpx.1_Splice_Site_p.S190_splice	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2							integral to membrane				ovary(3)	3						TCATTCGATCGTAAGTATGAC	0.557													12	54	---	---	---	---	PASS	A	2575614	A	A	2575614	5	1	166	1	0	0	0	0	0	0	1	0	15982	1159	40	1	1111	1	TMC2	20	2575614	Splice_Site	SNP	G	TCGA-66-2788-01A-01D-0983-08	614367	2575614	60449906	201	59721										
C20orf79	140856	broad.mit.edu	37	chr20	18794684	18794684	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gtctttcagctggacatcacCaaaaatgggaagaccatttt	8	9	3	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:18794684C>A	uc002wrk.2	+	1	315	c.225C>A	c.(223-225)ACC>ACA	p.T75T	uc002wrj.1_Intron	NM_178483	NP_848578	Q9UJQ7	CT079_HUMAN	hypothetical protein LOC140856	75	SCP2.						sterol binding			skin(3)	3						TGGACATCACCAAAAATGGGA	0.493													19	65	---	---	---	---	PASS	A	18794684	A	A	18794684	2	1	166	1	0	0	0	0	0	0	0	1	2119	581	21	3		3	C20orf79	20	18794684	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	16219070	18794684	44230836	202	59722										
RALGAPA2	57186	broad.mit.edu	37	chr20	20486081	20486081	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tccaagtccagcaacaaagtCttcatatgcttggcttcctc	6	13	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:20486081C>A	uc002wrz.2	-	34	5169	c.5026G>T	c.(5026-5028)GAC>TAC	p.D1676Y	RALGAPA2_uc010gcx.2_Missense_Mutation_p.D1380Y|RALGAPA2_uc010zsg.1_Missense_Mutation_p.D1124Y|RALGAPA2_uc002wsa.1_Missense_Mutation_p.D448Y	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1676	Rap-GAP.				activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						GCAACAAAGTCTTCATATGCT	0.403													5	10	---	---	---	---	PASS	A	20486081	A	A	20486081	3	1	166	1	0	0	0	0	1	0	0	0	13014	913	32	2	619	2	RALGAPA2	20	20486081	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	1691397	20486081	42539439	203	59723										
PLK1S1	55857	broad.mit.edu	37	chr20	21143751	21143751	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	attgtattttgcaaaccctaAgctctcctgattcagaaaag	6	9	2	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:21143751A>T	uc002wsb.2	+	6	1436	c.1303A>T	c.(1303-1305)AGC>TGC	p.S435C	PLK1S1_uc010zsh.1_Missense_Mutation_p.S332C|PLK1S1_uc010zsi.1_Missense_Mutation_p.S302C|PLK1S1_uc010zsj.1_RNA|uc002wsc.2_Intron|PLK1S1_uc002wsd.2_RNA	NM_018474	NP_060944	Q2M2Z5	KIZ_HUMAN	polo-like kinase 1 substrate 1 isoform 1	435					spindle organization	centrosome	protein kinase binding				0						GCAAACCCTAAGCTCTCCTGA	0.373													35	139	---	---	---	---	PASS	T	21143751	T	T	21143751	3	4	166	1	0	0	0	0	1	0	0	0	12095	72	3	5	1325	5	PLK1S1	20	21143751	Missense_Mutation	SNP	A	TCGA-66-2788-01A-01D-0983-08	657670	21143751	41881769	204	59724										
C20orf185	359710	broad.mit.edu	37	chr20	31659950	31659950	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gctcagccatgtggtcggggCagtgtatgcaccaaagctta	13	10	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:31659950C>A	uc002wym.1	+	13	1301	c.1301C>A	c.(1300-1302)GCA>GAA	p.A434E		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	434					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						GTGGTCGGGGCAGTGTATGCA	0.522													9	38	---	---	---	---	PASS	A	31659950	A	A	31659950	3	1	166	1	0	0	0	0	1	0	0	0	2097	710	25	3	1351	3	C20orf185	20	31659950	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	10516199	31659950	31365570	205	59725										
PCK1	5105	broad.mit.edu	37	chr20	56139260	56139260	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tcaacccagaaaatggctttTtcggtgtcgctcctgggact	10	11	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:56139260T>C	uc002xyn.3	+	7	1160	c.997T>C	c.(997-999)TTC>CTC	p.F333L	PCK1_uc010zzm.1_Missense_Mutation_p.F16L	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	333					gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			AAATGGCTTTTTCGGTGTCGC	0.478													5	31	---	---	---	---	PASS	C	56139260	C	C	56139260	3	2	166	1	0	0	0	0	1	0	0	0	11581	1841	64	5	1019	5	PCK1	20	56139260	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	24479310	56139260	6886260	206	59726										
YTHDF1	54915	broad.mit.edu	37	chr20	61834312	61834312	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgttgcgtggggcaacccagCgggtctggggtggctgctga	19	9	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:61834312C>A	uc002yeh.2	-	4	1274	c.980G>T	c.(979-981)CGC>CTC	p.R327L	YTHDF1_uc011aaq.1_Missense_Mutation_p.R277L	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	327	Gln/Pro-rich.									ovary(2)	2						GGCAACCCAGCGGGTCTGGGG	0.657													10	14	---	---	---	---	PASS	A	61834312	A	A	61834312	3	1	166	1	0	0	0	0	1	0	0	0	17495	768	27	1	707	1	YTHDF1	20	61834312	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	5695052	61834312	1191208	207	59727										
TIAM1	7074	broad.mit.edu	37	chr21	32513671	32513671	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tggtagtgctcctcgctctcCgcatcggtcagggcgaacag	13	13	2	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr21:32513671C>T	uc002yow.1	-	22	4099	c.3627G>A	c.(3625-3627)GCG>GCA	p.A1209A	TIAM1_uc011adk.1_Silent_p.A1209A|TIAM1_uc011adl.1_Silent_p.A1149A	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1209	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CCTCGCTCTCCGCATCGGTCA	0.597													7	63	---	---	---	---	PASS	T	32513671	T	T	32513671	2	4	166	1	0	0	0	0	0	0	0	1	15887	639	23	1		1	TIAM1	21	32513671	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08		32513671	15616224	208	59728										
CRYAA	1409	broad.mit.edu	37	chr21	44589369	44589369	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	actaccgccagtccctcttcCgcaccgtgctggactccggc	9	19	1	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr21:44589369C>T	uc002zdd.1	+	1	229	c.160C>T	c.(160-162)CGC>TGC	p.R54C		NM_000394	NP_000385	P02489	CRYAA_HUMAN	crystallin, alpha A	54					anti-apoptosis|negative regulation of intracellular transport|protein homooligomerization|response to heat|visual perception	cytoplasm|nucleus	structural constituent of eye lens|unfolded protein binding			breast(1)|central_nervous_system(1)	2						GTCCCTCTTCCGCACCGTGCT	0.637													32	41	---	---	---	---	PASS	T	44589369	T	T	44589369	3	4	166	1	0	0	0	0	1	0	0	0	3905	652	23	1	162	1	CRYAA	21	44589369	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	12075698	44589369	3540526	209	59729										
PPIL2	23759	broad.mit.edu	37	chr22	22039088	22039088	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tcttattatctgaaaaatacAaatgccgagacccgagagac	7	9	2	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr22:22039088A>T	uc010gtj.1	+	10	716	c.600A>T	c.(598-600)ACA>ACT	p.T200T	PPIL2_uc002zvh.3_Silent_p.T200T|PPIL2_uc002zvi.3_Silent_p.T200T|PPIL2_uc002zvg.3_Silent_p.T200T|PPIL2_uc011aij.1_Silent_p.T179T|PPIL2_uc002zvk.3_5'Flank	NM_148175	NP_680480	Q13356	PPIL2_HUMAN	peptidylprolyl isomerase-like 2 isoform a	200	Potential.				blood coagulation|leukocyte migration|protein folding|protein polyubiquitination	Golgi lumen|nucleus|ubiquitin ligase complex	peptidyl-prolyl cis-trans isomerase activity|ubiquitin-ubiquitin ligase activity			ovary(2)	2	Colorectal(54;0.105)					TGAAAAATACAAATGCCGAGA	0.542													9	51	---	---	---	---	PASS	T	22039088	T	T	22039088	2	4	166	1	0	0	0	0	0	0	0	1	12327	117	5	5		5	PPIL2	22	22039088	Silent	SNP	A	TCGA-66-2788-01A-01D-0983-08		22039088	29265478	210	59730										
MYO18B	84700	broad.mit.edu	37	chr22	26422777	26422777	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gaggactggcccactctcccCatttaccagacgactggggc	11	15	1	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr22:26422777C>T	uc003abz.1	+	43	7087	c.6837C>T	c.(6835-6837)CCC>CCT	p.P2279P	MYO18B_uc003aca.1_Silent_p.P2160P|MYO18B_uc010guy.1_Silent_p.P2161P|MYO18B_uc010guz.1_Silent_p.P2159P|MYO18B_uc011aka.1_Silent_p.P1433P|MYO18B_uc011akb.1_Silent_p.P1792P|MYO18B_uc010gva.1_Silent_p.P262P|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2279						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CCACTCTCCCCATTTACCAGA	0.642													6	11	---	---	---	---	PASS	T	26422777	T	T	26422777	2	4	166	1	0	0	0	0	0	0	0	1	10066	581	21	3		3	MYO18B	22	26422777	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08	4383689	26422777	24881789	211	59731										
SFI1	9814	broad.mit.edu	37	chr22	31924738	31924738	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gacactgtccaacaagaagtCttctgcatcctttgggatcc	8	12	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr22:31924738C>G	uc003ale.2	+	3	548	c.155C>G	c.(154-156)TCT>TGT	p.S52C	SFI1_uc003ald.1_Missense_Mutation_p.S52C|SFI1_uc003alf.2_Missense_Mutation_p.S52C|SFI1_uc003alg.2_Intron|SFI1_uc011alp.1_Intron|SFI1_uc011alq.1_Missense_Mutation_p.S52C|SFI1_uc003alh.2_Intron	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	52					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						AACAAGAAGTCTTCTGCATCC	0.443													14	77	---	---	---	---	PASS	G	31924738	G	G	31924738	3	3	166	1	0	0	0	0	1	0	0	0	14156	913	32	2	161	2	SFI1	22	31924738	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	5501961	31924738	19379828	212	59732										
ST13	6767	broad.mit.edu	37	chr22	41223120	41223120	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctgcatggctgcaagaacctCtggatcactaagaatttcat	8	10	3	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr22:41223120C>G	uc003aze.2	-	11	1104	c.961G>C	c.(961-963)GAG>CAG	p.E321Q	ST13_uc011aow.1_Missense_Mutation_p.E311Q	NM_003932	NP_003923	P50502	F10A1_HUMAN	heat shock 70kD protein binding protein	321	STI1.						protein binding, bridging				0						GCAAGAACCTCTGGATCACTA	0.453													7	62	---	---	---	---	PASS	G	41223120	G	G	41223120	3	3	166	1	0	0	0	0	1	0	0	0	15209	922	32	2	156	2	ST13	22	41223120	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	9298382	41223120	10081446	213	59733										
XRCC6	2547	broad.mit.edu	37	chr22	42042926	42042926	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	gctgaagctcaacaaagataTagtgatctctgtgggcattt	10	7	2	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr22:42042926T>C	uc003bao.1	+	7	870	c.800T>C	c.(799-801)ATA>ACA	p.I267T	XRCC6_uc003bap.1_Missense_Mutation_p.I226T|XRCC6_uc011apc.1_Missense_Mutation_p.I217T|XRCC6_uc003baq.1_Missense_Mutation_p.I267T|XRCC6_uc003bar.1_Missense_Mutation_p.I267T|XRCC6_uc003bas.1_Missense_Mutation_p.I217T	NM_001469	NP_001460	P12956	XRCC6_HUMAN	ATP-dependent DNA helicase II, 70 kDa subunit	267	Ku.				DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5						AACAAAGATATAGTGATCTCT	0.398								Direct_reversal_of_damage|NHEJ					31	149	---	---	---	---	PASS	C	42042926	C	C	42042926	3	2	166	1	0	0	0	0	1	0	0	0	17454	1406	49	5	822	5	XRCC6	22	42042926	Missense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	819806	42042926	9261640	214	59734										
PIM3	415116	broad.mit.edu	37	chr22	50356677	50356677	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cggcccatccctggatgctgGgggctgacgggggcgtcccg	18	14	0	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr22:50356677G>T	uc003bjb.2	+	6	1336	c.883G>T	c.(883-885)GGG>TGG	p.G295W	PIM3_uc011arj.1_Missense_Mutation_p.G58W	NM_001001852	NP_001001852	Q86V86	PIM3_HUMAN	serine/threonine protein kinase pim-3	295					cell cycle|negative regulation of apoptosis|regulation of mitotic cell cycle		ATP binding|protein binding|protein serine/threonine kinase activity				0		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.196)|LUAD - Lung adenocarcinoma(64;0.247)		CTGGATGCTGGGGGCTGACGG	0.687													7	13	---	---	---	---	PASS	T	50356677	T	T	50356677	3	4	166	1	0	0	0	0	1	0	0	0	11929	1232	43	3	905	3	PIM3	22	50356677	Missense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	8313751	50356677	947889	215	59735										
DHRSX	207063	broad.mit.edu	37	chrX	2161142	2161142	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ttgtagacgtccgtgttgacCaccccggggtccaccacgtt	11	14	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:2161142C>A	uc004cqf.3	-	6	775	c.726G>T	c.(724-726)GTG>GTT	p.V242V		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	242							binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				CCGTGTTGACCACCCCGGGGT	0.622													11	36	---	---	---	---	PASS	A	2161142	A	A	2161142	2	1	166	1	0	0	0	0	0	0	0	1	4499	581	21	3		3	DHRSX	23	2161142	Silent	SNP	C	TCGA-66-2788-01A-01D-0983-08		2161142	153109418	216	59736										
MSL3	10943	broad.mit.edu	37	chrX	11782023	11782026	+	Frame_Shift_Del	DEL	CTTC	-	-													0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgacttcgtctaaattttttCttccaattaaggaaagtgcc							TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:11782023_11782026delCTTC	uc004cuw.2	+	8	979_982	c.874_877delCTTC	c.(874-879)CTTCCAfs	p.L292fs	MSL3_uc004cuv.1_Frame_Shift_Del_p.L292fs|MSL3_uc004cux.2_Frame_Shift_Del_p.L233fs|MSL3_uc011mig.1_Frame_Shift_Del_p.L143fs|MSL3_uc011mih.1_Frame_Shift_Del_p.L280fs|MSL3_uc004cuy.2_Frame_Shift_Del_p.L126fs|MSL3_uc011mii.1_Frame_Shift_Del_p.L126fs	NM_078629	NP_523353	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	292_293					histone H4-K16 acetylation|multicellular organismal development|transcription from RNA polymerase II promoter	MSL complex	DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TAAATTTTTTCTTCCAATTAAGGA	0.377													36	21	---	---	---	---		-	11782026	-	-	11782023	7	5	166	1	0	1	0	1	0	0	0	0	9879	913	32	0	904	0	MSL3	23	11782023	Frame_Shift_Del	DEL	CTTC	TCGA-66-2788-01A-01D-0983-08	9620881	11782023	143488537	217	59737										
EGFL6	25975	broad.mit.edu	37	chrX	13645160	13645160	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	ctatatggcagttccggcctTggcaggtcacaagaaagaca	11	10	1	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:13645160T>A	uc004cvi.2	+	11	1556	c.1316T>A	c.(1315-1317)TTG>TAG	p.L439*	EGFL6_uc004cvj.2_Nonsense_Mutation_p.L440*	NM_015507	NP_056322	Q8IUX8	EGFL6_HUMAN	epidermal growth factor-like protein 6	439	MAM.				cell adhesion|cell cycle|cell differentiation|multicellular organismal development	basement membrane|extracellular space|membrane	calcium ion binding|integrin binding			breast(2)	2						GTTCCGGCCTTGGCAGGTCAC	0.433													31	24	---	---	---	---	PASS	A	13645160	A	A	13645160	4	1	166	1	0	0	0	0	0	1	0	0	4963	1821	63	5	1361	5	EGFL6	23	13645160	Nonsense_Mutation	SNP	T	TCGA-66-2788-01A-01D-0983-08	1863137	13645160	141625400	218	59738										
FUNDC1	139341	broad.mit.edu	37	chrX	44383470	44383470	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgcaagtccgagcaaaaagcCtcccacaaatccactggata	7	13	0	0			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:44383470C>T	uc004dgc.2	-	5	585	c.442G>A	c.(442-444)GGC>AGC	p.G148S		NM_173794	NP_776155	Q8IVP5	FUND1_HUMAN	FUN14 domain containing 1	148											0						AGCAAAAAGCCTCCCACAAAT	0.333													7	16	---	---	---	---	PASS	T	44383470	T	T	44383470	3	4	166	1	0	0	0	0	1	0	0	0	6097	681	24	3	29	3	FUNDC1	23	44383470	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	30738310	44383470	110887090	219	59739										
HEPH	9843	broad.mit.edu	37	chrX	65423336	65423336	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	caagctgcaagaatctactaTatcatggcagaagaagtaga	9	7	2	4			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:65423336T>C	uc011moz.1	+	13	2277	c.2217T>C	c.(2215-2217)TAT>TAC	p.Y739Y	HEPH_uc004dwn.2_Silent_p.Y739Y|HEPH_uc004dwo.2_Silent_p.Y469Y|HEPH_uc010nkr.2_Silent_p.Y547Y|HEPH_uc011mpa.1_Silent_p.Y739Y|HEPH_uc010nks.2_Silent_p.Y28Y	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	736	Extracellular (Potential).|Plastocyanin-like 5.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						GAATCTACTATATCATGGCAG	0.527													6	12	---	---	---	---	PASS	C	65423336	C	C	65423336	2	2	166	1	0	0	0	0	0	0	0	1	7054	1413	49	5		5	HEPH	23	65423336	Silent	SNP	T	TCGA-66-2788-01A-01D-0983-08	21039866	65423336	89847224	220	59740										
CYLC1	1538	broad.mit.edu	37	chrX	83129612	83129612	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tggtgcaagatgcctcctccAcctccaaaaccaagatatgc	7	14	0	2			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:83129612A>T	uc004eei.1	+	4	1917	c.1896A>T	c.(1894-1896)CCA>CCT	p.P632P	CYLC1_uc004eeh.1_Silent_p.P631P	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	632	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						TGCCTCCTCCACCTCCAAAAC	0.393													12	6	---	---	---	---	PASS	T	83129612	T	T	83129612	2	4	166	1	0	0	0	0	0	0	0	1	4141	146	6	5		5	CYLC1	23	83129612	Silent	SNP	A	TCGA-66-2788-01A-01D-0983-08	17706276	83129612	72140948	221	59741										
SATL1	340562	broad.mit.edu	37	chrX	84363064	84363064	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	tgtctggtaggtttgtacctGattgcctcatgccagcttgg	12	9	2	1			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:84363064G>C	uc011mqx.1	-	1	911	c.911C>G	c.(910-912)TCA>TGA	p.S304*	SATL1_uc004een.2_Nonsense_Mutation_p.S304*	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	117	Gln-rich.						N-acetyltransferase activity			breast(2)	2						GTTTGTACCTGATTGCCTCAT	0.478													10	17	---	---	---	---	PASS	C	84363064	C	C	84363064	4	2	166	1	0	0	0	0	0	1	0	0	13855	1294	45	2	1007	2	SATL1	23	84363064	Nonsense_Mutation	SNP	G	TCGA-66-2788-01A-01D-0983-08	1233452	84363064	70907496	222	59742										
MAGEA11	4110	broad.mit.edu	37	chrX	148797503	148797503	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.14027149321267	31	7.82405470535757e-05	2.13388003603268	2.91710888971163	1.65880679691594	1	1	16	cttgagcaaagaagtcagcaCtgcaagcctgaggaaggcct	12	10	1	3			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:148797503C>A	uc004fdq.2	+	5	459	c.357C>A	c.(355-357)CAC>CAA	p.H119Q	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Missense_Mutation_p.H90Q	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	119						cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					GAAGTCAGCACTGCAAGCCTG	0.587													15	36	---	---	---	---	PASS	A	148797503	A	A	148797503	3	1	166	1	0	0	0	0	1	0	0	0	9165	564	20	3	384	3	MAGEA11	23	148797503	Missense_Mutation	SNP	C	TCGA-66-2788-01A-01D-0983-08	64434439	148797503	6473057	223	59743										
PRDM16	63976	broad.mit.edu	37	chr1	3334561	3334561	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	caaggagcgatacacgtgcaGgtgaggggccctttggtgct	16	9	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:3334561G>A	uc001akf.2	+	11	2941	c.2861G>A	c.(2860-2862)AGG>AAG	p.R954K	PRDM16_uc001akc.2_Missense_Mutation_p.R953K|PRDM16_uc001akd.2_Missense_Mutation_p.R953K|PRDM16_uc001ake.2_Missense_Mutation_p.R954K|PRDM16_uc009vlh.2_Missense_Mutation_p.R654K	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	954	Mediates interaction with SKI and regulation of TGF-beta signaling.|C2H2-type 8.|Interaction with CTBP1 and CTBP2 (By similarity).				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		TACACGTGCAGGTGAGGGGCC	0.652			T	EVI1	MDS|AML								9	15	---	---	---	---	PASS	A	3334561	A	A	3334561	3	1	167	1	0	0	0	0	1	0	0	0	12457	1014	35	3	2903	3	PRDM16	1	3334561	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08		3334561	245916060	1	59744										
SLC25A33	84275	broad.mit.edu	37	chr1	9613784	9613784	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tccggacagtctactatcctCaggttcatctggggaccatt	9	12	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:9613784C>G	uc001apw.2	+	2	380	c.157C>G	c.(157-159)CAG>GAG	p.Q53E	SLC25A33_uc001apx.2_5'UTR	NM_032315	NP_115691	Q9BSK2	S2533_HUMAN	mitochondrial carrier protein MGC4399	53	Helical; Name=2; (Potential).|Solcar 1.				transport	integral to membrane|mitochondrial inner membrane					0	all_lung(157;0.246)	all_epithelial(116;1.16e-18)|all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Breast(348;0.00191)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.01e-08)|COAD - Colon adenocarcinoma(227;1.44e-05)|Kidney(185;0.000262)|KIRC - Kidney renal clear cell carcinoma(229;0.000957)|BRCA - Breast invasive adenocarcinoma(304;0.0019)|STAD - Stomach adenocarcinoma(132;0.00355)|READ - Rectum adenocarcinoma(331;0.0419)		CTACTATCCTCAGGTTCATCT	0.478													17	38	---	---	---	---	PASS	G	9613784	G	G	9613784	3	3	167	1	0	0	0	0	1	0	0	0	14497	827	29	2	163	2	SLC25A33	1	9613784	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	6279223	9613784	239636837	2	59745										
VPS13D	55187	broad.mit.edu	37	chr1	12409360	12409360	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	attcattggaccaatgtagtGaagactgcagaaattagtag	10	5	1	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:12409360G>A	uc001atv.2	+	46	9501	c.9360G>A	c.(9358-9360)GTG>GTA	p.V3120V	VPS13D_uc001atw.2_Silent_p.V3095V|VPS13D_uc001atx.2_Silent_p.V2307V	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3119					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		CCAATGTAGTGAAGACTGCAG	0.468													30	76	---	---	---	---	PASS	A	12409360	A	A	12409360	2	1	167	1	0	0	0	0	0	0	0	1	17189	1277	45	2		2	VPS13D	1	12409360	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	2795576	12409360	236841261	3	59746										
PQLC2	54896	broad.mit.edu	37	chr1	19652073	19652073	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agttcaggacgcgcccctctCtgtgtgagtatggggaccgc	14	12	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:19652073C>A	uc001bby.2	+	5	731	c.379C>A	c.(379-381)CTG>ATG	p.L127M	PQLC2_uc001bbz.2_Missense_Mutation_p.L62M|PQLC2_uc001bca.2_Missense_Mutation_p.L127M|PQLC2_uc001bcb.2_Missense_Mutation_p.L16M|PQLC2_uc001bcc.2_Missense_Mutation_p.L16M	NM_017765	NP_060235	Q6ZP29	PQLC2_HUMAN	PQ loop repeat containing 2 isoform 1	127	Cytoplasmic (Potential).					integral to membrane					0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;1.89e-05)|Kidney(64;0.000177)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GCGCCCCTCTCTGTGTGAGTA	0.557													5	34	---	---	---	---	PASS	A	19652073	A	A	19652073	3	1	167	1	0	0	0	0	1	0	0	0	12419	912	32	2	389	2	PQLC2	1	19652073	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	7242713	19652073	229598548	4	59747										
UBXN10	127733	broad.mit.edu	37	chr1	20517269	20517269	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tccgcctccagccattccctAtgagttgccaagcagccaaa	7	16	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:20517269A>G	uc001bdb.2	+	2	299	c.215A>G	c.(214-216)TAT>TGT	p.Y72C		NM_152376	NP_689589	Q96LJ8	UBX10_HUMAN	UBX domain protein 10	72										ovary(1)	1						GCCATTCCCTATGAGTTGCCA	0.567													27	52	---	---	---	---	PASS	G	20517269	G	G	20517269	3	3	167	1	0	0	0	0	1	0	0	0	16909	449	16	5	217	5	UBXN10	1	20517269	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	865196	20517269	228733352	5	59748										
RPS8	6202	broad.mit.edu	37	chr1	45242381	45242381	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	catccacacagtccgtgtgcGgggaggtaacaagaaatacc	11	11	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:45242381G>T	uc001cmi.2	+	3	169	c.146G>T	c.(145-147)CGG>CTG	p.R49L	SNORD38A_uc009vxi.2_5'Flank|SNORD38B_uc001cml.2_5'Flank	NM_001012	NP_001003	P62241	RS8_HUMAN	ribosomal protein S8	49					endocrine pancreas development|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GTCCGTGTGCGGGGAGGTAAC	0.567													11	23	---	---	---	---	PASS	T	45242381	T	T	45242381	3	4	167	1	0	0	0	0	1	0	0	0	13661	1116	39	1	156	1	RPS8	1	45242381	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	24725112	45242381	204008240	6	59749										
POMGNT1	55624	broad.mit.edu	37	chr1	46660018	46660018	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccatagccctcaactttgctGcagaagcgccggcggcgacg	12	15	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:46660018G>T	uc001cpe.2	-	9	971	c.807C>A	c.(805-807)TGC>TGA	p.C269*	POMGNT1_uc010olx.1_Nonsense_Mutation_p.C247*|POMGNT1_uc010oly.1_RNA|POMGNT1_uc010olz.1_Nonsense_Mutation_p.C126*|POMGNT1_uc001cpg.2_Nonsense_Mutation_p.C269*|POMGNT1_uc001cpf.2_5'UTR|POMGNT1_uc001cph.1_5'Flank|POMGNT1_uc001cpi.1_5'Flank	NM_017739	NP_060209	Q8WZA1	PMGT1_HUMAN	O-linked mannose	269	Lumenal (Potential).		C -> Y (in MDDGA3; specific activity abolished of the membrane bound form but not the soluble form).		protein N-linked glycosylation|protein O-linked glycosylation	Golgi membrane|integral to membrane|microsome	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CAACTTTGCTGCAGAAGCGCC	0.602													9	23	---	---	---	---	PASS	T	46660018	T	T	46660018	4	4	167	1	0	0	0	0	0	1	0	0	12243	1311	46	3	1231	3	POMGNT1	1	46660018	Nonsense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1417637	46660018	202590603	7	59750										
BSND	7809	broad.mit.edu	37	chr1	55474046	55474046	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggctgcaggtgcccgctggaCcgcttccaagactttgccct	12	15	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:55474046C>G	uc001cye.2	+	4	951	c.708C>G	c.(706-708)GAC>GAG	p.D236E		NM_057176	NP_476517	Q8WZ55	BSND_HUMAN	barttin	236	Cytoplasmic (Potential).					basolateral plasma membrane|cytoplasm|integral to plasma membrane|protein complex				ovary(1)|skin(1)	2						GCCCGCTGGACCGCTTCCAAG	0.597													6	19	---	---	---	---	PASS	G	55474046	G	G	55474046	3	3	167	1	0	0	0	0	1	0	0	0	1531	506	18	4	722	4	BSND	1	55474046	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	8814028	55474046	193776575	8	59751										
C1orf173	127254	broad.mit.edu	37	chr1	75037757	75037757	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aggagctgctaaggccccctCtccatcttggcggtgccctt	11	15	2	0	rs143506603		TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:75037757C>A	uc001dgg.2	-	14	3856	c.3637G>T	c.(3637-3639)GAG>TAG	p.E1213*		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1213	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						AAGGCCCCCTCTCCATCTTGG	0.602													21	35	---	---	---	---	PASS	A	75037757	A	A	75037757	4	1	167	1	0	0	0	0	0	1	0	0	2014	922	32	2	959	2	C1orf173	1	75037757	Nonsense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	19563711	75037757	174212864	9	59752										
C1orf173	127254	broad.mit.edu	37	chr1	75038942	75038942	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctcttctgccaattctggctGctctgctgttggcttccacg	9	14	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:75038942G>T	uc001dgg.2	-	14	2671	c.2452C>A	c.(2452-2454)CAG>AAG	p.Q818K		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	818	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						AATTCTGGCTGCTCTGCTGTT	0.552													18	67	---	---	---	---	PASS	T	75038942	T	T	75038942	3	4	167	1	0	0	0	0	1	0	0	0	2014	1328	46	3	2144	3	C1orf173	1	75038942	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1185	75038942	174211679	10	59753										
PIGK	10026	broad.mit.edu	37	chr1	77620189	77620189	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aatagtctctgttgtaatttCcactttccgtacacttccaa	4	11	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:77620189C>G	uc001dhk.2	-	9	976	c.931G>C	c.(931-933)GAA>CAA	p.E311Q	PIGK_uc010orj.1_Missense_Mutation_p.E235Q|PIGK_uc009wbx.2_Missense_Mutation_p.E217Q|PIGK_uc001dhl.1_Missense_Mutation_p.E311Q	NM_005482	NP_005473	Q92643	GPI8_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	311	Lumenal (Potential).|Essential for GPI attachment.			Missing: Loss of activity.	attachment of GPI anchor to protein|C-terminal protein lipidation|protein thiol-disulfide exchange|proteolysis	GPI-anchor transamidase complex	cysteine-type endopeptidase activity|GPI-anchor transamidase activity|protein binding			ovary(2)|pancreas(1)	3						GTTGTAATTTCCACTTTCCGT	0.363													11	25	---	---	---	---	PASS	G	77620189	G	G	77620189	3	3	167	1	0	0	0	0	1	0	0	0	11890	864	30	2	268	2	PIGK	1	77620189	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2581247	77620189	171630432	11	59754										
MCOLN3	55283	broad.mit.edu	37	chr1	85488037	85488037	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctccaagccacacgagcatgGtagaagtcccaagaagtatg	10	11	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:85488037G>T	uc001dkp.2	-	10	1235	c.1142C>A	c.(1141-1143)ACC>AAC	p.T381N	MCOLN3_uc001dko.2_5'UTR|MCOLN3_uc001dkq.2_Missense_Mutation_p.T325N	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	381	Helical; (Potential).					integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		CACGAGCATGGTAGAAGTCCC	0.378													15	46	---	---	---	---	PASS	T	85488037	T	T	85488037	3	4	167	1	0	0	0	0	1	0	0	0	9397	1261	44	3	535	3	MCOLN3	1	85488037	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	7867848	85488037	163762584	12	59755										
CLCA1	1179	broad.mit.edu	37	chr1	86959196	86959196	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agcctccccaaatccttctcTgggatcccagtggacagaag	9	14	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:86959196T>G	uc001dlt.2	+	10	1723	c.1594T>G	c.(1594-1596)TGG>GGG	p.W532G	CLCA1_uc001dls.1_Missense_Mutation_p.W471G	NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	532					calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		AATCCTTCTCTGGGATCCCAG	0.507													21	48	---	---	---	---	PASS	G	86959196	G	G	86959196	3	3	167	1	0	0	0	0	1	0	0	0	3457	1580	55	5	1632	5	CLCA1	1	86959196	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	1471159	86959196	162291425	13	59756										
BARHL2	343472	broad.mit.edu	37	chr1	91180241	91180241	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aaaaagctgtccttgcttttCgaggcttcttggctctcaca	8	11	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:91180241C>A	uc001dns.2	-	2	740	c.698G>T	c.(697-699)CGA>CTA	p.R233L		NM_020063	NP_064447	Q9NY43	BARH2_HUMAN	BarH-like homeobox 2	233	Homeobox.					nucleus	sequence-specific DNA binding			ovary(1)	1		all_lung(203;0.0263)|Lung SC(238;0.128)		all cancers(265;0.000897)|Epithelial(280;0.00516)|OV - Ovarian serous cystadenocarcinoma(397;0.211)		CCTTGCTTTTCGAGGCTTCTT	0.557													39	122	---	---	---	---	PASS	A	91180241	A	A	91180241	3	1	167	1	0	0	0	0	1	0	0	0	1314	884	31	2	473	2	BARHL2	1	91180241	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	4221045	91180241	158070380	14	59757										
CCDC76	54482	broad.mit.edu	37	chr1	100598729	100598729	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agcgagccctagaattatggCgacctccgcgacgtcgccgc	12	15	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:100598729C>A	uc001dsv.2	+	1	24	c.5C>A	c.(4-6)GCG>GAG	p.A2E	SASS6_uc001dsu.2_5'Flank|SASS6_uc009wdz.2_5'Flank|CCDC76_uc010ouf.1_RNA|CCDC76_uc009wea.2_Missense_Mutation_p.A2E	NM_019083	NP_061956	Q9NUP7	TRM13_HUMAN	coiled-coil domain containing 76	2					tRNA processing		metal ion binding|methyltransferase activity			ovary(1)	1		all_epithelial(167;0.000542)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0814)|all cancers(265;0.133)|COAD - Colon adenocarcinoma(174;0.146)|Lung(183;0.194)		AGAATTATGGCGACCTCCGCG	0.557													4	32	---	---	---	---	PASS	A	100598729	A	A	100598729	3	1	167	1	0	0	0	0	1	0	0	0	2850	768	27	1	7	1	CCDC76	1	100598729	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	9418488	100598729	148651892	15	59758										
SORT1	6272	broad.mit.edu	37	chr1	109910038	109910038	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tattgatctcaccttcgataTagcttggactgtccaaaagt	7	9	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:109910038T>A	uc001dxm.1	-	3	481	c.432A>T	c.(430-432)CTA>CTT	p.L144L	SORT1_uc010ovi.1_Silent_p.L8L|SORT1_uc009wfb.2_Silent_p.L8L	NM_002959	NP_002950	Q99523	SORT_HUMAN	sortilin 1 preproprotein	144	Extracellular (Potential).				endocytosis|endosome to lysosome transport|endosome transport via multivesicular body sorting pathway|glucose import|Golgi to endosome transport|induction of apoptosis by extracellular signals|myotube differentiation|negative regulation of apoptosis|negative regulation of lipoprotein lipase activity|neuropeptide signaling pathway|ossification|plasma membrane to endosome transport|regulation of gene expression|response to insulin stimulus|vesicle organization	cell surface|coated pit|early endosome|endoplasmic reticulum membrane|endosome membrane|Golgi cisterna membrane|integral to membrane|lysosomal membrane|microsome|nuclear membrane|perinuclear region of cytoplasm|plasma membrane	enzyme binding|nerve growth factor binding|nerve growth factor receptor activity|neurotensin receptor activity, non-G-protein coupled			ovary(1)	1		all_epithelial(167;4.69e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0529)|Colorectal(144;0.142)|Epithelial(280;0.145)|Kidney(133;0.169)|all cancers(265;0.184)		ACCTTCGATATAGCTTGGACT	0.383													30	100	---	---	---	---	PASS	A	109910038	A	A	109910038	2	1	167	1	0	0	0	0	0	0	0	1	14935	1393	49	5		5	SORT1	1	109910038	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	9311309	109910038	139340583	16	59759										
ATXN7L2	127002	broad.mit.edu	37	chr1	110028702	110028702	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgagctggaggagagtagcAaaaacacgaagaagttggat	14	5	0	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:110028702A>T	uc001dxr.2	+	2	166	c.151A>T	c.(151-153)AAA>TAA	p.K51*	ATXN7L2_uc001dxs.2_5'Flank	NM_153340	NP_699171	Q5T6C5	AT7L2_HUMAN	ataxin 7-like 2	51										ovary(2)	2		all_epithelial(167;0.00197)|all_lung(203;0.00291)|Lung NSC(277;0.00453)		Colorectal(144;0.0129)|Lung(183;0.0426)|Epithelial(280;0.0675)|READ - Rectum adenocarcinoma(129;0.0693)|all cancers(265;0.071)|LUSC - Lung squamous cell carcinoma(189;0.228)		GGAGAGTAGCAAAAACACGAA	0.537													20	40	---	---	---	---	PASS	T	110028702	T	T	110028702	4	4	167	1	0	0	0	0	0	1	0	0	1217	131	5	5	157	5	ATXN7L2	1	110028702	Nonsense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	118664	110028702	139221919	17	59760										
ADAM30	11085	broad.mit.edu	37	chr1	120437651	120437651	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aagtccaatgctacagttggCacctggttgcaacttacaat	8	10	0	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:120437651C>G	uc001eij.2	-	1	1463	c.1309G>C	c.(1309-1311)GCC>CCC	p.A437P		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	437	Disintegrin.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding	p.A437G(1)		ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		CTACAGTTGGCACCTGGTTGC	0.453													30	79	---	---	---	---	PASS	G	120437651	G	G	120437651	3	3	167	1	0	0	0	0	1	0	0	0	248	710	25	4	1067	4	ADAM30	1	120437651	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	10408949	120437651	128812970	18	59761										
PDE4DIP	9659	broad.mit.edu	37	chr1	144874717	144874717	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agctttcttctcttcatagtGtgtgtactcgctgactatgt	8	9	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:144874717G>C	uc001elw.3	-	30	5182	c.4891C>G	c.(4891-4893)CAC>GAC	p.H1631D	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.H1587D|PDE4DIP_uc001elv.3_Missense_Mutation_p.H638D	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1631	NBPF.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TCTTCATAGTGTGTGTACTCG	0.522			T	PDGFRB	MPD								38	216	---	---	---	---	PASS	C	144874717	C	C	144874717	3	2	167	1	0	0	0	0	1	0	0	0	11643	1377	48	4	2209	4	PDE4DIP	1	144874717	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	24437066	144874717	104375904	19	59762										
CGN	57530	broad.mit.edu	37	chr1	151501956	151501956	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gagggtcgaggctgatcgagGtcgggagctggaagaacaga	19	6	0	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:151501956G>T	uc009wmw.2	+	11	2171	c.2027G>T	c.(2026-2028)GGT>GTT	p.G676V		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	670	Glu-rich.|Potential.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			GCTGATCGAGGTCGGGAGCTG	0.627													6	31	---	---	---	---	PASS	T	151501956	T	T	151501956	3	4	167	1	0	0	0	0	1	0	0	0	3303	1261	44	3	2065	3	CGN	1	151501956	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	6627239	151501956	97748665	20	59763										
MEF2D	4209	broad.mit.edu	37	chr1	156450738	156450738	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cgggctcggggctgtcgcagCcgttgaagcccttcttcctc	13	15	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:156450738C>A	uc001fpc.2	-	4	674	c.284G>T	c.(283-285)GGC>GTC	p.G95V	MEF2D_uc001fpb.2_Missense_Mutation_p.G95V|MEF2D_uc001fpd.2_Missense_Mutation_p.G95V|MEF2D_uc001fpe.1_Missense_Mutation_p.G95V|MEF2D_uc009wsa.2_RNA	NM_005920	NP_005911	Q14814	MEF2D_HUMAN	myocyte enhancer factor 2D	95					apoptosis|muscle organ development|nervous system development|positive regulation of transcription from RNA polymerase II promoter	nucleus	activating transcription factor binding|histone deacetylase binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCTGTCGCAGCCGTTGAAGCC	0.667											OREG0013874	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	43	---	---	---	---	PASS	A	156450738	A	A	156450738	3	1	167	1	0	0	0	0	1	0	0	0	9458	739	26	3	1317	3	MEF2D	1	156450738	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	4948782	156450738	92799883	21	59764										
APOA1BP	128240	broad.mit.edu	37	chr1	156563309	156563309	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	catcctgagtgtcctgaaggGactcactgtgcccattgcca	10	13	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:156563309G>C	uc001fph.2	+	5	665	c.626G>C	c.(625-627)GGA>GCA	p.G209A	APOA1BP_uc001fpg.2_Missense_Mutation_p.G209A|APOA1BP_uc001fpi.2_Silent_p.G190G|APOA1BP_uc001fpj.2_Missense_Mutation_p.G126A|APOA1BP_uc001fpk.2_Missense_Mutation_p.G106A|APOA1BP_uc010php.1_Missense_Mutation_p.G106A	NM_144772	NP_658985	Q8NCW5	AIBP_HUMAN	apolipoprotein A-I binding protein precursor	209	YjeF N-terminal.					extracellular region	protein binding			central_nervous_system(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTCCTGAAGGGACTCACTGTG	0.567													14	51	---	---	---	---	PASS	C	156563309	C	C	156563309	3	2	167	1	0	0	0	0	1	0	0	0	781	1174	41	2	644	2	APOA1BP	1	156563309	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	112571	156563309	92687312	22	59765										
FCRL3	115352	broad.mit.edu	37	chr1	157667113	157667113	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggagaattgcagctggacatCtggcctctgtggagagagct	15	8	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:157667113C>G	uc001frb.2	-	6	953	c.661G>C	c.(661-663)GAT>CAT	p.D221H	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.D221H|FCRL3_uc009wsn.2_Intron|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_5'UTR|FCRL3_uc001frc.1_Missense_Mutation_p.D221H	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	221	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					AGCTGGACATCTGGCCTCTGT	0.582													25	59	---	---	---	---	PASS	G	157667113	G	G	157667113	3	3	167	1	0	0	0	0	1	0	0	0	5796	913	32	2	1583	2	FCRL3	1	157667113	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1103804	157667113	91583508	23	59766										
VANGL2	57216	broad.mit.edu	37	chr1	160395042	160395042	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gatggcatcgttttcctcttAaaacgccaggacttcagcct	8	12	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:160395042A>C	uc001fwb.1	+	9	1739	c.1440A>C	c.(1438-1440)TTA>TTC	p.L480F	VANGL2_uc001fwc.1_Missense_Mutation_p.L480F	NM_020335	NP_065068	Q9ULK5	VANG2_HUMAN	vang-like 2	480	Cytoplasmic (Potential).				apical protein localization|heart looping|nonmotile primary cilium assembly	apical plasma membrane|integral to membrane				ovary(1)	1	all_cancers(52;1.08e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TTTTCCTCTTAAAACGCCAGG	0.527													20	39	---	---	---	---	PASS	C	160395042	C	C	160395042	3	2	167	1	0	0	0	0	1	0	0	0	17117	359	13	5	1466	5	VANGL2	1	160395042	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	2727929	160395042	88855579	24	59767										
FCGR2B	2213	broad.mit.edu	37	chr1	161641367	161641367	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggttcaaggccaacaacaatGacagcggggagtacacgtgc	13	10	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:161641367G>T	uc001gaz.1	+	3	411	c.319G>T	c.(319-321)GAC>TAC	p.D107Y	FCGR2B_uc009wum.1_Missense_Mutation_p.D107Y|FCGR2B_uc001gay.1_Missense_Mutation_p.D106Y|FCGR2B_uc001gba.1_Missense_Mutation_p.D106Y|FCGR2B_uc001gbb.1_Missense_Mutation_p.D107Y|FCGR2B_uc009wun.1_Missense_Mutation_p.D100Y	NM_004001	NP_003992	P31994	FCG2B_HUMAN	Fc fragment of IgG, low affinity IIb, receptor	107	Ig-like C2-type 1.|Extracellular (Potential).				immune response|interspecies interaction between organisms|regulation of immune response	integral to membrane|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CAACAACAATGACAGCGGGGA	0.587			T	?	ALL								10	33	---	---	---	---	PASS	T	161641367	T	T	161641367	3	4	167	1	0	0	0	0	1	0	0	0	5782	1290	45	2	329	2	FCGR2B	1	161641367	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1246325	161641367	87609254	25	59768										
ADCY10	55811	broad.mit.edu	37	chr1	167852846	167852846	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cgaagctcagataaatagccCtgaagctgtttgttatcaat	8	8	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:167852846C>G	uc001ger.2	-	9	1147	c.849G>C	c.(847-849)CAG>CAC	p.Q283H	ADCY10_uc009wvk.2_Missense_Mutation_p.Q191H|ADCY10_uc010plj.1_Missense_Mutation_p.Q130H|ADCY10_uc009wvl.2_Missense_Mutation_p.Q282H|ADCY10_uc009wvm.2_RNA	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	283					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						ATAAATAGCCCTGAAGCTGTT	0.507													14	41	---	---	---	---	PASS	G	167852846	G	G	167852846	3	3	167	1	0	0	0	0	1	0	0	0	293	680	24	4	4083	4	ADCY10	1	167852846	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	6211479	167852846	81397775	26	59769										
PAPPA2	60676	broad.mit.edu	37	chr1	176661376	176661376	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gcccacccccatccccattcCacctatggtcatcggacaga	6	19	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:176661376C>T	uc001gkz.2	+	6	3710	c.2546C>T	c.(2545-2547)CCA>CTA	p.P849L	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	849					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						ATCCCCATTCCACCTATGGTC	0.517													47	94	---	---	---	---	PASS	T	176661376	T	T	176661376	3	4	167	1	0	0	0	0	1	0	0	0	11433	594	21	3	2617	3	PAPPA2	1	176661376	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	8808530	176661376	72589245	27	59770										
ASPM	259266	broad.mit.edu	37	chr1	197071710	197071710	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgtttctttctttcattgccCagtatctttgctgtactgtt	6	9	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:197071710C>G	uc001gtu.2	-	18	6928	c.6671G>C	c.(6670-6672)TGG>TCG	p.W2224S	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Missense_Mutation_p.W72S	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2224					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TTTCATTGCCCAGTATCTTTG	0.328													15	53	---	---	---	---	PASS	G	197071710	G	G	197071710	3	3	167	1	0	0	0	0	1	0	0	0	1056	595	21	4	3806	4	ASPM	1	197071710	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	20410334	197071710	52178911	28	59771										
CD55	1604	broad.mit.edu	37	chr1	207510715	207510715	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccaggacaaccaagcattttCatgaaacaaccccaaataaa	4	12	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:207510715C>A	uc001hfq.3	+	8	1315	c.1021C>A	c.(1021-1023)CAT>AAT	p.H341N	CD55_uc001hfp.3_Missense_Mutation_p.H341N|CD55_uc001hfr.3_Missense_Mutation_p.H341N|CD55_uc010psf.1_RNA|CD55_uc009xcf.2_Missense_Mutation_p.H277N|CD55_uc009xce.2_Missense_Mutation_p.H341N|CD55_uc009xcg.2_Missense_Mutation_p.H83N	NM_000574	NP_000565	P08174	DAF_HUMAN	decay accelerating factor for complement isoform	341	Ser/Thr-rich.				complement activation, classical pathway|elevation of cytosolic calcium ion concentration|innate immune response|respiratory burst	anchored to membrane|extracellular region|integral to plasma membrane|membrane raft|soluble fraction	receptor activity			ovary(1)	1					Chloramphenicol(DB00446)	CAAGCATTTTCATGAAACAAC	0.423													20	56	---	---	---	---	PASS	A	207510715	A	A	207510715	3	1	167	1	0	0	0	0	1	0	0	0	3024	826	29	2	1051	2	CD55	1	207510715	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	10439005	207510715	41739906	29	59772										
CR2	1380	broad.mit.edu	37	chr1	207644261	207644261	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cccctgtaccccaatgcaaaGgtgccaggcctcaaatgtag	9	14	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:207644261G>T	uc001hfw.2	+	7	1496	c.1402G>T	c.(1402-1404)GTG>TTG	p.V468L	CR2_uc001hfv.2_Missense_Mutation_p.V468L|CR2_uc009xch.2_Missense_Mutation_p.V468L|CR2_uc009xci.1_5'Flank	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	468	Sushi 7.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						CCAATGCAAAGGTGCCAGGCC	0.443													10	23	---	---	---	---	PASS	T	207644261	T	T	207644261	3	4	167	1	0	0	0	0	1	0	0	0	3842	1014	35	3	1428	3	CR2	1	207644261	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	133546	207644261	41606360	30	59773										
PTPN14	5784	broad.mit.edu	37	chr1	214571303	214571303	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgttcctcacgaaaatcccCataaagaaaatgccaaggtg	7	11	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:214571303C>G	uc001hkk.1	-	8	982	c.711G>C	c.(709-711)ATG>ATC	p.M237I	PTPN14_uc010pty.1_Missense_Mutation_p.M138I	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	237	FERM.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		CGAAAATCCCCATAAAGAAAA	0.289													8	44	---	---	---	---	PASS	G	214571303	G	G	214571303	3	3	167	1	0	0	0	0	1	0	0	0	12783	594	21	4	2900	4	PTPN14	1	214571303	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	6927042	214571303	34679318	31	59774										
BPNT1	10380	broad.mit.edu	37	chr1	220232316	220232316	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggtactgaagaacattcccaTggatatcggttaacttgcct	9	9	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:220232316T>C	uc001hma.2	-	9	969	c.797A>G	c.(796-798)CAT>CGT	p.H266R	BPNT1_uc010pug.1_Missense_Mutation_p.H211R|BPNT1_uc010puh.1_Missense_Mutation_p.H230R|BPNT1_uc001hmb.3_Missense_Mutation_p.H281R	NM_006085	NP_006076	O95861	BPNT1_HUMAN	3'(2'), 5'-bisphosphate nucleotidase 1	266					3'-phosphoadenosine 5'-phosphosulfate metabolic process|nervous system development|xenobiotic metabolic process	cytosol	3'(2'),5'-bisphosphate nucleotidase activity			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0558)		AACATTCCCATGGATATCGGT	0.398													21	50	---	---	---	---	PASS	C	220232316	C	C	220232316	3	2	167	1	0	0	0	0	1	0	0	0	1494	1464	51	5	133	5	BPNT1	1	220232316	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	5661013	220232316	29018305	32	59775										
SLC35F3	148641	broad.mit.edu	37	chr1	234041399	234041399	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atctgaaatggtcgcgctccGtggaggatctcaccagcggg	14	11	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:234041399G>C	uc001hvy.1	+	2	323	c.178G>C	c.(178-180)GTG>CTG	p.V60L		NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	Error:Variant_position_missing_in_Q8IY50_after_alignment					transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			GTCGCGCTCCGTGGAGGATCT	0.642													18	43	---	---	---	---	PASS	C	234041399	C	C	234041399	3	2	167	1	0	0	0	0	1	0	0	0	14590	1145	40	4	184	4	SLC35F3	1	234041399	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	13809083	234041399	15209222	33	59776										
OR6F1	343169	broad.mit.edu	37	chr1	247875985	247875985	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aaaaagcataaagagagagaGctgaagagtttgagaaccag	12	4	0	5			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:247875985G>T	uc001idj.1	-	1	73	c.73C>A	c.(73-75)CTC>ATC	p.L25I		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	25	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			AAGAGAGAGAGCTGAAGAGTT	0.463													16	245	---	---	---	---	PASS	T	247875985	T	T	247875985	3	4	167	1	0	0	0	0	1	0	0	0	11201	971	34	3	857	3	OR6F1	1	247875985	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	13834586	247875985	1374636	34	59777										
OR14A16	284532	broad.mit.edu	37	chr1	247978670	247978670	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gagggtgacatatagcagtaTagcggtcaaaggacatcacc	12	8	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:247978670T>C	uc001idm.1	-	1	362	c.362A>G	c.(361-363)TAT>TGT	p.Y121C		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TATAGCAGTATAGCGGTCAAA	0.493													37	111	---	---	---	---	PASS	C	247978670	C	C	247978670	3	2	167	1	0	0	0	0	1	0	0	0	10945	1406	49	5	571	5	OR14A16	1	247978670	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	102685	247978670	1271951	35	59778										
OR2AK2	391191	broad.mit.edu	37	chr1	248128902	248128902	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cgttgacctcatgtacatctCcaccacagtgcccaagatgg	8	14	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:248128902C>A	uc010pzd.1	+	1	269	c.269C>A	c.(268-270)TCC>TAC	p.S90Y	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	90	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			ATGTACATCTCCACCACAGTG	0.473													30	79	---	---	---	---	PASS	A	248128902	A	A	248128902	3	1	167	1	0	0	0	0	1	0	0	0	10986	855	30	2	271	2	OR2AK2	1	248128902	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	150232	248128902	1121719	36	59779										
OR14C36	127066	broad.mit.edu	37	chr1	248512845	248512845	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tcagttcatgctcttctgtgTacctcaggccacctgcgata	8	13	5	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:248512845T>C	uc010pzl.1	+	1	769	c.769T>C	c.(769-771)TAC>CAC	p.Y257H		NM_001001918	NP_001001918	Q8NHC7	O14CZ_HUMAN	olfactory receptor, family 14, subfamily C,	257	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						CTCTTCTGTGTACCTCAGGCC	0.498													24	70	---	---	---	---	PASS	C	248512845	C	C	248512845	3	2	167	1	0	0	0	0	1	0	0	0	10946	1638	57	5	771	5	OR14C36	1	248512845	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	383943	248512845	737776	37	59780										
OR14C36	127066	broad.mit.edu	37	chr1	248512948	248512948	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccctattatttacagtcttaGaaataagcaaataaaggtgg	7	6	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:248512948G>A	uc010pzl.1	+	1	872	c.872G>A	c.(871-873)AGA>AAA	p.R291K		NM_001001918	NP_001001918	Q8NHC7	O14CZ_HUMAN	olfactory receptor, family 14, subfamily C,	291	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						TACAGTCTTAGAAATAAGCAA	0.413													33	89	---	---	---	---	PASS	A	248512948	A	A	248512948	3	1	167	1	0	0	0	0	1	0	0	0	10946	942	33	2	874	2	OR14C36	1	248512948	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	103	248512948	737673	38	59781										
OR2T27	403239	broad.mit.edu	37	chr1	248813460	248813460	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgacaaccaccatgtgtgaGgagcaggtggccacagcctt	12	12	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:248813460G>A	uc010pzo.1	-	1	726	c.726C>T	c.(724-726)TCC>TCT	p.S242S		NM_001001824	NP_001001824	Q8NH04	O2T27_HUMAN	olfactory receptor, family 2, subfamily T,	242	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;1.15e-05)|all_epithelial(71;5.29e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.089)|Lung NSC(105;0.0969)|Melanoma(84;0.199)	all_cancers(173;0.237)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCATGTGTGAGGAGCAGGTGG	0.522													6	9	---	---	---	---	PASS	A	248813460	A	A	248813460	2	1	167	1	0	0	0	0	0	0	0	1	11021	987	35	3		3	OR2T27	1	248813460	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	300512	248813460	437161	39	59782										
OR14I1	401994	broad.mit.edu	37	chr1	248845065	248845065	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggaaaccagggccaacacatGagggatgtcacggaagaact	13	9	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr1:248845065G>A	uc001ieu.1	-	1	541	c.541C>T	c.(541-543)CAT>TAT	p.H181Y		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GCCAACACATGAGGGATGTCA	0.502													16	41	---	---	---	---	PASS	A	248845065	A	A	248845065	3	1	167	1	0	0	0	0	1	0	0	0	10947	1290	45	2	398	2	OR14I1	1	248845065	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	31605	248845065	405556	40	59783										
RNASEH1	246243	broad.mit.edu	37	chr2	3595592	3595592	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tttgttgatcacctctttccCtgcacttgtcttccacccat	4	15	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:3595592C>T	uc002qxt.2	-	7	793	c.703G>A	c.(703-705)GGG>AGG	p.G235R	RNASEH1_uc002qxs.2_Missense_Mutation_p.G118R	NM_002936	NP_002927	O60930	RNH1_HUMAN	ribonuclease H1	235	RNase H.				RNA catabolic process	cytoplasm	magnesium ion binding|ribonuclease H activity|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.0713)|Epithelial(75;0.167)|all cancers(51;0.22)		ACCTCTTTCCCTGCACTTGTC	0.448													40	126	---	---	---	---	PASS	T	3595592	T	T	3595592	3	4	167	1	0	0	0	0	1	0	0	0	13411	681	24	3	165	3	RNASEH1	2	3595592	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08		3595592	239603781	41	59784										
CMPK2	129607	broad.mit.edu	37	chr2	7001358	7001358	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggcagattctttagctatttCggaggccacaatataattgc	9	8	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:7001358C>A	uc002qyo.2	-	3	1058	c.949G>T	c.(949-951)GAA>TAA	p.E317*	CMPK2_uc010yis.1_Nonsense_Mutation_p.E317*|CMPK2_uc010ewv.2_Nonsense_Mutation_p.E317*	NM_207315	NP_997198	Q5EBM0	CMPK2_HUMAN	UMP-CMP kinase 2 precursor	317					dTDP biosynthetic process	mitochondrion	ATP binding|cytidylate kinase activity|thymidylate kinase activity|UMP kinase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TTAGCTATTTCGGAGGCCACA	0.373													13	51	---	---	---	---	PASS	A	7001358	A	A	7001358	4	1	167	1	0	0	0	0	0	1	0	0	3581	893	31	2	412	2	CMPK2	2	7001358	Nonsense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	3405766	7001358	236198015	42	59785										
APOB	338	broad.mit.edu	37	chr2	21247880	21247880	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agctggaggtcatggagactGgcaaaaccaagctcctctcc	11	12	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:21247880G>A	uc002red.2	-	16	2489	c.2361C>T	c.(2359-2361)GCC>GCT	p.A787A		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	787					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CATGGAGACTGGCAAAACCAA	0.552													22	61	---	---	---	---	PASS	A	21247880	A	A	21247880	2	1	167	1	0	0	0	0	0	0	0	1	785	1335	47	3		3	APOB	2	21247880	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	14246522	21247880	221951493	43	59786										
HEATR5B	54497	broad.mit.edu	37	chr2	37241161	37241161	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cttcctatccatgtactacaTacctagacaaagagaattca	4	11	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:37241161T>A	uc002rpp.1	-	27	4203	c.4107A>T	c.(4105-4107)GTA>GTT	p.V1369V	HEATR5B_uc010ezy.1_5'UTR|HEATR5B_uc002rpq.3_5'UTR	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1369							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				ATGTACTACATACCTAGACAA	0.333													30	52	---	---	---	---	PASS	A	37241161	A	A	37241161	2	1	167	1	0	0	0	0	0	0	0	1	7032	1393	49	5		5	HEATR5B	2	37241161	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	15993281	37241161	205958212	44	59787										
HEATR5B	54497	broad.mit.edu	37	chr2	37265146	37265146	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccaaacaagaggaacgaattGtagaagttgttgctccattc	9	8	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:37265146G>A	uc002rpp.1	-	21	3164	c.3068C>T	c.(3067-3069)ACA>ATA	p.T1023I		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1023							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				GGAACGAATTGTAGAAGTTGT	0.363													14	42	---	---	---	---	PASS	A	37265146	A	A	37265146	3	1	167	1	0	0	0	0	1	0	0	0	7032	1377	48	3	3211	3	HEATR5B	2	37265146	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	23985	37265146	205934227	45	59788										
THADA	63892	broad.mit.edu	37	chr2	43514126	43514126	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acggccagcctagactctgtAggaagatggtcttcacatga	11	10	3	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:43514126A>G	uc002rsw.3	-	35	5437	c.5085T>C	c.(5083-5085)CCT>CCC	p.P1695P	THADA_uc010far.2_Silent_p.P890P|THADA_uc002rsx.3_Silent_p.P1695P|THADA_uc002rsy.3_RNA	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1695							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				TAGACTCTGTAGGAAGATGGT	0.493													31	52	---	---	---	---	PASS	G	43514126	G	G	43514126	2	3	167	1	0	0	0	0	0	0	0	1	15837	407	15	5		5	THADA	2	43514126	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	6248980	43514126	199685247	46	59789										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48873855	48873855	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aaaatgccaccagtgatataCttgtatctcctggaaatgag	8	8	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:48873855C>T	uc010yol.1	+	5	2670	c.2623C>T	c.(2623-2625)CTT>TTT	p.L875F	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.L922F|GTF2A1L_uc002rws.1_Missense_Mutation_p.L218F|GTF2A1L_uc010yom.1_Missense_Mutation_p.L184F|GTF2A1L_uc002rwt.2_Missense_Mutation_p.L218F	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	875					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CAGTGATATACTTGTATCTCC	0.413													22	69	---	---	---	---	PASS	T	48873855	T	T	48873855	3	4	167	1	0	0	0	0	1	0	0	0	15316	565	20	3	2790	3	STON1-GTF2A1L	2	48873855	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	5359729	48873855	194325518	47	59790										
SMEK2	57223	broad.mit.edu	37	chr2	55786013	55786013	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acagatttactgtttgttccAttagcagcactggcagagtg	10	8	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:55786013A>G	uc002rzc.2	-	16	2727	c.2352T>C	c.(2350-2352)AAT>AAC	p.N784N	SMEK2_uc002rzb.2_Silent_p.N699N|SMEK2_uc002rzd.2_Silent_p.N752N|SMEK2_uc002ryz.2_Silent_p.N211N|SMEK2_uc002rza.2_Silent_p.N568N	NM_001122964	NP_001116436	Q5MIZ7	P4R3B_HUMAN	SMEK homolog 2, suppressor of mek1 isoform 1	784						microtubule organizing center|nucleus	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TGTTTGTTCCATTAGCAGCAC	0.438													9	186	---	---	---	---	PASS	G	55786013	G	G	55786013	2	3	167	1	0	0	0	0	0	0	0	1	14794	214	8	5		5	SMEK2	2	55786013	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	6912158	55786013	187413360	48	59791										
BCL11A	53335	broad.mit.edu	37	chr2	60679756	60679756	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	catccgaaaactgccacacaTcttgagctctctgggtacta	7	13	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:60679756T>G	uc010ypj.1	-	4	2554	c.2326A>C	c.(2326-2328)ATG>CTG	p.M776L	BCL11A_uc002sab.2_Missense_Mutation_p.D759A|BCL11A_uc002sac.2_Missense_Mutation_p.M226L|BCL11A_uc010ypi.1_Missense_Mutation_p.D428A	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	Error:Variant_position_missing_in_Q9H165_after_alignment					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			CTGCCACACATCTTGAGCTCT	0.537			T	IGH@	B-CLL								8	148	---	---	---	---	PASS	G	60679756	G	G	60679756	3	3	167	1	0	0	0	0	1	0	0	0	1363	1435	50	5	59	5	BCL11A	2	60679756	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	4893743	60679756	182519617	49	59792										
B3GNT2	10678	broad.mit.edu	37	chr2	62449632	62449632	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggctctccaatataagccatCtgaactactgcgaacctgac	7	13	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:62449632C>T	uc002sbs.2	+	2	515	c.277C>T	c.(277-279)CTG>TTG	p.L93L		NM_006577	NP_006568	Q9NY97	B3GN2_HUMAN	UDP-GlcNAc:betaGal	93	Lumenal (Potential).					Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1	Lung NSC(7;0.031)|all_lung(7;0.0634)		LUSC - Lung squamous cell carcinoma(7;3.55e-06)|Epithelial(17;0.0963)			TATAAGCCATCTGAACTACTG	0.532													160	214	---	---	---	---	PASS	T	62449632	T	T	62449632	2	4	167	1	0	0	0	0	0	0	0	1	1257	912	32	2		2	B3GNT2	2	62449632	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	1769876	62449632	180749741	50	59793										
REG1B	5968	broad.mit.edu	37	chr2	79312409	79312409	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	catccttccatttcttgaatCctatggtacaatgagaagtg	7	9	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:79312409C>A	uc002sny.2	-	6	546	c.434G>T	c.(433-435)GGA>GTA	p.G145V		NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	145	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						TTTCTTGAATCCTATGGTACA	0.398													24	21	---	---	---	---	PASS	A	79312409	A	A	79312409	3	1	167	1	0	0	0	0	1	0	0	0	13211	869	30	2	70	2	REG1B	2	79312409	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	16862777	79312409	163886964	51	59794										
ITPRIPL1	150771	broad.mit.edu	37	chr2	96992653	96992653	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaagaaagacatggggtggcCgttccaggccgatggccagg	17	9	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:96992653C>T	uc002svx.2	+	3	619	c.284C>T	c.(283-285)CCG>CTG	p.P95L	ITPRIPL1_uc010yuk.1_Missense_Mutation_p.P87L|ITPRIPL1_uc002svy.2_Missense_Mutation_p.P103L|ITPRIPL1_uc010yul.1_Missense_Mutation_p.P87L	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	95	Extracellular (Potential).					integral to membrane				central_nervous_system(2)|ovary(1)	3						ATGGGGTGGCCGTTCCAGGCC	0.572													16	32	---	---	---	---	PASS	T	96992653	T	T	96992653	3	4	167	1	0	0	0	0	1	0	0	0	7924	652	23	1	324	1	ITPRIPL1	2	96992653	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	17680244	96992653	146206720	52	59795										
VWA3B	200403	broad.mit.edu	37	chr2	98844703	98844703	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttagttaaggaaatggaacaGggtcacagtgatctggagaa	13	4	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:98844703G>A	uc002syo.2	+	15	2322	c.2058G>A	c.(2056-2058)CAG>CAA	p.Q686Q	VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Silent_p.Q205Q|VWA3B_uc002sym.2_Silent_p.Q686Q|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Silent_p.Q343Q|VWA3B_uc002syp.1_Silent_p.Q78Q|VWA3B_uc002syq.1_Intron|VWA3B_uc002syr.1_Silent_p.Q3Q	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	686										ovary(3)|large_intestine(2)|skin(1)	6						AAATGGAACAGGGTCACAGTG	0.398													19	51	---	---	---	---	PASS	A	98844703	A	A	98844703	2	1	167	1	0	0	0	0	0	0	0	1	17238	991	35	3		3	VWA3B	2	98844703	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	1852050	98844703	144354670	53	59796										
PDCL3	79031	broad.mit.edu	37	chr2	101185427	101185427	+	Silent	SNP	G	T	T													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gatatgactttggaagagctGgaggatcatgaagacgagtt							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:101185427G>T	uc002tao.2	+	3	280	c.168G>T	c.(166-168)CTG>CTT	p.L56L		NM_024065	NP_076970	Q9H2J4	PDCL3_HUMAN	phosducin-like 3	56					apoptosis|interspecies interaction between organisms	cytoplasm	protein binding				0						TGGAAGAGCTGGAGGATCATG	0.338													20	53	---	---	---	---	PASS	T	101185427	T	T	101185427	2	4	167	1	0	0	0	0	0	0	0	1	11628	1335	47	3		3	PDCL3	2	101185427	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	2340724	101185427	142013946	54	59797	1050	2								
PDCL3	79031	broad.mit.edu	37	chr2	101185428	101185428	+	Nonsense_Mutation	SNP	G	T	T													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atatgactttggaagagctgGaggatcatgaagacgagttt							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:101185428G>T	uc002tao.2	+	3	281	c.169G>T	c.(169-171)GAG>TAG	p.E57*		NM_024065	NP_076970	Q9H2J4	PDCL3_HUMAN	phosducin-like 3	57					apoptosis|interspecies interaction between organisms	cytoplasm	protein binding				0						GGAAGAGCTGGAGGATCATGA	0.338													19	53	---	---	---	---	PASS	T	101185428	T	T	101185428	4	4	167	1	0	0	0	0	0	1	0	0	11628	1175	41	2	179	2	PDCL3	2	101185428	Nonsense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1	101185428	142013945	55	59798	1050	2								
MYO7B	4648	broad.mit.edu	37	chr2	128346007	128346007	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gacgtgctgagcacagatatCctcaccctggtttactcctc	8	14	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:128346007C>A	uc002top.2	+	15	1784	c.1731C>A	c.(1729-1731)ATC>ATA	p.I577I		NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	577	Myosin head-like.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GCACAGATATCCTCACCCTGG	0.557													11	21	---	---	---	---	PASS	A	128346007	A	A	128346007	2	1	167	1	0	0	0	0	0	0	0	1	10083	845	30	2		2	MYO7B	2	128346007	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	27160579	128346007	114853366	56	59799										
LRP1B	53353	broad.mit.edu	37	chr2	141250260	141250260	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aagaattaaaaaaggttcttCatctaaacaccaacacaaat	3	8	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:141250260C>A	uc002tvj.1	-	57	10009	c.9037G>T	c.(9037-9039)GAA>TAA	p.E3013*		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3013	Extracellular (Potential).				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)		AAAGGTTCTTCATCTAAACAC	0.333										TSP Lung(27;0.18)			16	47	---	---	---	---	PASS	A	141250260	A	A	141250260	4	1	167	1	0	0	0	0	0	1	0	0	8955	835	29	2	4902	2	LRP1B	2	141250260	Nonsense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	12904253	141250260	101949113	57	59800										
MBD5	55777	broad.mit.edu	37	chr2	149226852	149226852	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atcccccgtgcacatgatggGgactggaattggaaggattg	14	8	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:149226852G>A	uc002twm.3	+	9	2328	c.1340G>A	c.(1339-1341)GGG>GAG	p.G447E	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.G447E|MBD5_uc002twn.1_5'Flank	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	447						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		CACATGATGGGGACTGGAATT	0.507													16	30	---	---	---	---	PASS	A	149226852	A	A	149226852	3	1	167	1	0	0	0	0	1	0	0	0	9347	1232	43	3	1354	3	MBD5	2	149226852	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	7976592	149226852	93972521	58	59801										
TANK	10010	broad.mit.edu	37	chr2	162036186	162036186	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaagaggaatggataaaaacAttggcgagcaactcaataaa	10	5	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:162036186A>G	uc002ubr.1	+	2	171	c.13A>G	c.(13-15)ATT>GTT	p.I5V	TANK_uc002ubq.1_Missense_Mutation_p.I5V|TANK_uc002ubs.2_Missense_Mutation_p.I5V	NM_004180	NP_004171	Q92844	TANK_HUMAN	TRAF interacting protein TANK isoform a	5						cytosol	metal ion binding|protein binding			ovary(1)	1						GGATAAAAACATTGGCGAGCA	0.393													14	48	---	---	---	---	PASS	G	162036186	G	G	162036186	3	3	167	1	0	0	0	0	1	0	0	0	15543	217	8	5	15	5	TANK	2	162036186	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	12809334	162036186	81163187	59	59802										
TTN	7273	broad.mit.edu	37	chr2	179425815	179425815	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggaggctcaacatcatctttAactataataggcccagtgga	9	9	3	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:179425815A>T	uc010zfg.1	-	275	77564	c.77340T>A	c.(77338-77340)GTT>GTA	p.V25780V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.V19475V|TTN_uc010zfi.1_Silent_p.V19408V|TTN_uc010zfj.1_Silent_p.V19283V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26707							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)			CATCATCTTTAACTATAATAG	0.423													39	104	---	---	---	---	PASS	T	179425815	T	T	179425815	2	4	167	1	0	0	0	0	0	0	0	1	16732	349	13	5		5	TTN	2	179425815	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	17389629	179425815	63773558	60	59803										
TTN	7273	broad.mit.edu	37	chr2	179437674	179437674	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atggcatagatgcggatcttAtattcctgattctctgtgag	10	7	2	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:179437674A>G	uc010zfg.1	-	275	65705	c.65481T>C	c.(65479-65481)TAT>TAC	p.Y21827Y	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.Y15522Y|TTN_uc010zfi.1_Silent_p.Y15455Y|TTN_uc010zfj.1_Silent_p.Y15330Y	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22754							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)			TGCGGATCTTATATTCCTGAT	0.493													11	22	---	---	---	---	PASS	G	179437674	G	G	179437674	2	3	167	1	0	0	0	0	0	0	0	1	16732	456	16	5		5	TTN	2	179437674	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	11859	179437674	63761699	61	59804										
TTN	7273	broad.mit.edu	37	chr2	179497021	179497021	+	Missense_Mutation	SNP	G	T	T													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cctggtggtgtgtaggcgctGgtcattcttgaaccatttaa							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:179497021G>T	uc010zfg.1	-	185	36120	c.35896C>A	c.(35896-35898)CAG>AAG	p.Q11966K	TTN_uc010zfh.1_Missense_Mutation_p.Q5661K|TTN_uc010zfi.1_Missense_Mutation_p.Q5594K|TTN_uc010zfj.1_Missense_Mutation_p.Q5469K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12893							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)			TGTAGGCGCTGGTCATTCTTG	0.438													5	13	---	---	---	---	PASS	T	179497021	T	T	179497021	3	4	167	1	0	0	0	0	1	0	0	0	16732	1357	47	3	64601	3	TTN	2	179497021	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	59347	179497021	63702352	62	59805	1051	2								
TTN	7273	broad.mit.edu	37	chr2	179497022	179497022	+	Missense_Mutation	SNP	G	T	T													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctggtggtgtgtaggcgctgGtcattcttgaaccatttaac							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:179497022G>T	uc010zfg.1	-	185	36119	c.35895C>A	c.(35893-35895)GAC>GAA	p.D11965E	TTN_uc010zfh.1_Missense_Mutation_p.D5660E|TTN_uc010zfi.1_Missense_Mutation_p.D5593E|TTN_uc010zfj.1_Missense_Mutation_p.D5468E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12892							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)			GTAGGCGCTGGTCATTCTTGA	0.433													5	14	---	---	---	---	PASS	T	179497022	T	T	179497022	3	4	167	1	0	0	0	0	1	0	0	0	16732	1252	44	3	64602	3	TTN	2	179497022	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1	179497022	63702351	63	59806	1051	2								
TTN	7273	broad.mit.edu	37	chr2	179556764	179556764	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttttgggggagcagcaggttCcttcttaggcacaggaactg	14	8	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:179556764C>A	uc010zfg.1	-	118	28233	c.28009G>T	c.(28009-28011)GAA>TAA	p.E9337*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.E5998*|TTN_uc010fre.1_Nonsense_Mutation_p.E448*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10264							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)			GCAGCAGGTTCCTTCTTAGGC	0.453													15	27	---	---	---	---	PASS	A	179556764	A	A	179556764	4	1	167	1	0	0	0	0	0	1	0	0	16732	864	30	2	72756	2	TTN	2	179556764	Nonsense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	59742	179556764	63642609	64	59807										
TTN	7273	broad.mit.edu	37	chr2	179588731	179588731	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtttggtactttgctccactGacaatcttggttttctcatg	8	9	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:179588731G>T	uc010zfg.1	-	70	17747	c.17523C>A	c.(17521-17523)GTC>GTA	p.V5841V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.V2502V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6768							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)			TTGCTCCACTGACAATCTTGG	0.433													22	46	---	---	---	---	PASS	T	179588731	T	T	179588731	2	4	167	1	0	0	0	0	0	0	0	1	16732	1277	45	2		2	TTN	2	179588731	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	31967	179588731	63610642	65	59808										
MSTN	2660	broad.mit.edu	37	chr2	190927155	190927155	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttactgaggatttgtatcttAatggcttctattcttgaaga	8	5	3	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:190927155A>C	uc002urp.2	-	1	301	c.168T>G	c.(166-168)ATT>ATG	p.I56M		NM_005259	NP_005250	O14793	GDF8_HUMAN	myostatin precursor	56					muscle organ development|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000742)|Epithelial(96;0.0121)|all cancers(119;0.0395)			TTTGTATCTTAATGGCTTCTA	0.388													17	45	---	---	---	---	PASS	C	190927155	C	C	190927155	3	2	167	1	0	0	0	0	1	0	0	0	9893	358	13	5	971	5	MSTN	2	190927155	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	11338424	190927155	52272218	66	59809										
DNAH7	56171	broad.mit.edu	37	chr2	196825422	196825422	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttgtcattgccaatgcatatGgagaatcatgaaaggttttc	9	6	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:196825422G>A	uc002utj.3	-	18	2554	c.2453C>T	c.(2452-2454)CCA>CTA	p.P818L		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	818	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CAATGCATATGGAGAATCATG	0.393													25	91	---	---	---	---	PASS	A	196825422	A	A	196825422	3	1	167	1	0	0	0	0	1	0	0	0	4606	1348	47	3	9813	3	DNAH7	2	196825422	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	5898267	196825422	46373951	67	59810										
CCDC150	284992	broad.mit.edu	37	chr2	197521505	197521505	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atcgaatgtgccgtcttgaaAgcctcatgcagtccttgaag	10	10	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:197521505A>T	uc002utp.1	+	3	460	c.325A>T	c.(325-327)AGC>TGC	p.S109C	CCDC150_uc002uto.1_Missense_Mutation_p.S109C|CCDC150_uc010zgq.1_RNA|CCDC150_uc010zgr.1_Intron|CCDC150_uc010zgs.1_Intron	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150	109	Potential.										0						CCGTCTTGAAAGCCTCATGCA	0.373													23	64	---	---	---	---	PASS	T	197521505	T	T	197521505	3	4	167	1	0	0	0	0	1	0	0	0	2785	72	3	5	335	5	CCDC150	2	197521505	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	696083	197521505	45677868	68	59811										
CPS1	1373	broad.mit.edu	37	chr2	211541783	211541783	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttaaccttcccaacaacaacActaaatttgtccatgataat	2	11	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:211541783A>G	uc002vee.3	+	37	4459	c.4327A>G	c.(4327-4329)ACT>GCT	p.T1443A	CPS1_uc010fur.2_Missense_Mutation_p.T1449A|CPS1_uc010fus.2_Missense_Mutation_p.T992A	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1443					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)		CAACAACAACACTAAATTTGT	0.348													22	92	---	---	---	---	PASS	G	211541783	G	G	211541783	3	3	167	1	0	0	0	0	1	0	0	0	3823	159	6	5	4495	5	CPS1	2	211541783	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	14020278	211541783	31657590	69	59812										
KIF1A	547	broad.mit.edu	37	chr2	241656788	241656788	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggagggctcaggttcagaccCgcatctgggcagacctcctt	13	13	3	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr2:241656788C>T	uc002vzy.2	-	47	5212	c.5066G>A	c.(5065-5067)CGG>CAG	p.R1689Q	KIF1A_uc010fzk.2_Missense_Mutation_p.R1790Q|KIF1A_uc002vzw.2_Missense_Mutation_p.R350Q|KIF1A_uc002vzx.2_Missense_Mutation_p.R416Q	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	1689					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		GGTTCAGACCCGCATCTGGGC	0.662													10	17	---	---	---	---	PASS	T	241656788	T	T	241656788	3	4	167	1	0	0	0	0	1	0	0	0	8283	652	23	1	10	1	KIF1A	2	241656788	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	30115005	241656788	1542585	70	59813										
ITPR1	3708	broad.mit.edu	37	chr3	4683776	4683776	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	attctcttggtgggtttttaGctcctgcatttgaaaagtaa	9	6	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:4683776G>T	uc003bqa.2	+	7	715	c.367_splice	c.e7-1	p.L123_splice	ITPR1_uc010hbz.2_Splice_Site_p.L123_splice|ITPR1_uc010hca.1_Splice_Site_p.L123_splice|ITPR1_uc011asu.1_Splice_Site_p.L123_splice|ITPR1_uc010hcb.1_Splice_Site_p.L123_splice	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1						activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		TGGGTTTTTAGCTCCTGCATT	0.408													25	27	---	---	---	---	PASS	T	4683776	T	T	4683776	5	4	167	1	0	0	0	0	0	0	1	0	7920	985	34	3	384	3	ITPR1	3	4683776	Splice_Site	SNP	G	TCGA-66-2789-01A-01D-0983-08		4683776	193338654	71	59814										
SLC6A6	6533	broad.mit.edu	37	chr3	14489188	14489188	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acctgttccagtccttccagAaggagctgccctgggcacac	10	15	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:14489188A>G	uc010heg.2	+	12	754	c.463A>G	c.(463-465)AAG>GAG	p.K155E	SLC6A6_uc003byp.2_Missense_Mutation_p.K155E|SLC6A6_uc010hef.1_RNA|SLC6A6_uc003byq.2_Missense_Mutation_p.K155E|SLC6A6_uc003byr.2_RNA	NM_001134367	NP_001127839	P31641	SC6A6_HUMAN	solute carrier family 6 (neurotransmitter	155	Extracellular (Potential).				cellular amino acid metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity|taurine:sodium symporter activity			ovary(1)	1						GTCCTTCCAGAAGGAGCTGCC	0.542													56	141	---	---	---	---	PASS	G	14489188	G	G	14489188	3	3	167	1	0	0	0	0	1	0	0	0	14688	247	9	5	473	5	SLC6A6	3	14489188	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	9805412	14489188	183533242	72	59815										
C3orf19	51244	broad.mit.edu	37	chr3	14695956	14695956	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtagatcttaaggctgaactCttccgaaagcaagaagaatt	9	7	2	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:14695956C>G	uc003byw.2	+	2	157	c.66C>G	c.(64-66)CTC>CTG	p.L22L	C3orf19_uc010hei.1_Silent_p.L22L	NM_016474	NP_057558	Q6PII3	CC019_HUMAN	hypothetical protein LOC51244	22											0						AGGCTGAACTCTTCCGAAAGC	0.299													4	22	---	---	---	---	PASS	G	14695956	G	G	14695956	2	3	167	1	0	0	0	0	0	0	0	1	2212	900	32	2		2	C3orf19	3	14695956	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	206768	14695956	183326474	73	59816										
AZI2	64343	broad.mit.edu	37	chr3	28373873	28373873	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtcataccttgaaatgcttaGtttttggagatctctgctct	8	8	3	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:28373873G>C	uc003ceb.2	-	6	1166	c.634C>G	c.(634-636)CTA>GTA	p.L212V	AZI2_uc003cec.2_Missense_Mutation_p.L100V|AZI2_uc003ced.2_Missense_Mutation_p.L212V|AZI2_uc003cee.3_Missense_Mutation_p.L212V|AZI2_uc003ceg.2_Missense_Mutation_p.L212V|AZI2_uc011axd.1_Missense_Mutation_p.L212V|AZI2_uc003cef.2_Missense_Mutation_p.L212V	NM_022461	NP_071906	Q9H6S1	AZI2_HUMAN	5-azacytidine induced 2 isoform a	212	Interaction with TBK1.					mitochondrion|plasma membrane				ovary(2)	2						GAAATGCTTAGTTTTTGGAGA	0.313													25	27	---	---	---	---	PASS	C	28373873	C	C	28373873	3	2	167	1	0	0	0	0	1	0	0	0	1241	1020	36	4	645	4	AZI2	3	28373873	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	13677917	28373873	169648557	74	59817										
TGFBR2	7048	broad.mit.edu	37	chr3	30713401	30713401	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aaccacaacacagagctgctGcccattgagctggacaccct	8	15	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:30713401G>A	uc003ceo.2	+	4	1108	c.726G>A	c.(724-726)CTG>CTA	p.L242L	TGFBR2_uc003cen.2_Silent_p.L267L	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	242	Cytoplasmic (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						CAGAGCTGCTGCCCATTGAGC	0.537													29	19	---	---	---	---	PASS	A	30713401	A	A	30713401	2	1	167	1	0	0	0	0	0	0	0	1	15819	1306	46	3		3	TGFBR2	3	30713401	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	2339528	30713401	167309029	75	59818										
SUSD5	26032	broad.mit.edu	37	chr3	33195275	33195275	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tggagcagccgtgatcctggTgaatctgcggggacactgct	15	10	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:33195275T>C	uc003cfo.1	-	5	1267	c.849A>G	c.(847-849)TCA>TCG	p.S283S		NM_015551	NP_056366	O60279	SUSD5_HUMAN	sushi domain containing 5 precursor	283	Extracellular (Potential).				cell adhesion	integral to membrane	hyaluronic acid binding			ovary(1)|central_nervous_system(1)	2						GTGATCCTGGTGAATCTGCGG	0.537													26	19	---	---	---	---	PASS	C	33195275	C	C	33195275	2	2	167	1	0	0	0	0	0	0	0	1	15408	1683	59	5		5	SUSD5	3	33195275	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	2481874	33195275	164827155	76	59819										
ARPP21	10777	broad.mit.edu	37	chr3	35730842	35730842	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tctacaggcatagacttacaCgagtttctgattaacacatt	6	9	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:35730842C>A	uc003cgb.2	+	7	714	c.450C>A	c.(448-450)CAC>CAA	p.H150Q	ARPP21_uc003cga.2_Missense_Mutation_p.H150Q|ARPP21_uc011axy.1_Missense_Mutation_p.H150Q|ARPP21_uc003cgf.2_5'Flank	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	150						cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						TAGACTTACACGAGTTTCTGA	0.353													31	36	---	---	---	---	PASS	A	35730842	A	A	35730842	3	1	167	1	0	0	0	0	1	0	0	0	978	535	19	1	481	1	ARPP21	3	35730842	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2535567	35730842	162291588	77	59820										
ARPP21	10777	broad.mit.edu	37	chr3	35770811	35770811	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccaggttccgagtcttccagCagtgcaggctcctcaggatc	11	14	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:35770811C>T	uc003cgb.2	+	15	1506	c.1242C>T	c.(1240-1242)AGC>AGT	p.S414S	ARPP21_uc003cga.2_Silent_p.S360S|ARPP21_uc011axy.1_Silent_p.S380S|ARPP21_uc003cgf.2_Silent_p.S215S|ARPP21_uc003cgg.2_5'UTR	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	414	Ser-rich.					cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						AGTCTTCCAGCAGTGCAGGCT	0.527													14	26	---	---	---	---	PASS	T	35770811	T	T	35770811	2	4	167	1	0	0	0	0	0	0	0	1	978	709	25	3		3	ARPP21	3	35770811	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	39969	35770811	162251619	78	59821										
LRIG1	26018	broad.mit.edu	37	chr3	66444471	66444471	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aagacagtcttaccgcacacGaaactctctggtggcacaga	9	12	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:66444471G>T	uc003dmx.2	-	12	1475	c.1461C>A	c.(1459-1461)TTC>TTA	p.F487L	LRIG1_uc011bfu.1_Missense_Mutation_p.F107L|LRIG1_uc003dmw.2_Missense_Mutation_p.F153L|LRIG1_uc010hnz.2_Missense_Mutation_p.F203L|LRIG1_uc010hoa.2_Missense_Mutation_p.F511L	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	487	Extracellular (Potential).|LRRCT.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		TACCGCACACGAAACTCTCTG	0.493													3	20	---	---	---	---	PASS	T	66444471	T	T	66444471	3	4	167	1	0	0	0	0	1	0	0	0	8944	1049	37	2	1852	2	LRIG1	3	66444471	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	30673660	66444471	131577959	79	59822										
PDZRN3	23024	broad.mit.edu	37	chr3	73433401	73433401	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aaggagttgtcgggggagatCtccagggtgagcggggtgct	20	6	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:73433401C>A	uc003dpl.1	-	10	2412	c.2316G>T	c.(2314-2316)GAG>GAT	p.E772D	PDZRN3_uc011bgh.1_Missense_Mutation_p.E429D|PDZRN3_uc010hoe.1_Missense_Mutation_p.E470D|PDZRN3_uc011bgf.1_Missense_Mutation_p.E489D|PDZRN3_uc011bgg.1_Missense_Mutation_p.E492D	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	772							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		CGGGGGAGATCTCCAGGGTGA	0.652													4	13	---	---	---	---	PASS	A	73433401	A	A	73433401	3	1	167	1	0	0	0	0	1	0	0	0	11709	912	32	2	888	2	PDZRN3	3	73433401	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	6988930	73433401	124589029	80	59823										
CNTN3	5067	broad.mit.edu	37	chr3	74413749	74413749	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tttctatctgtgttctctccTagatgataataaaaatatct	4	7	4	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:74413749T>A	uc003dpm.1	-	9	1164	c.1084_splice	c.e9-1	p.E362_splice		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor						cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		TGTTCTCTCCTAGATGATAAT	0.328													10	20	---	---	---	---	PASS	A	74413749	A	A	74413749	5	1	167	1	0	0	0	0	0	0	1	0	3642	1536	53	5	2060	5	CNTN3	3	74413749	Splice_Site	SNP	T	TCGA-66-2789-01A-01D-0983-08	980348	74413749	123608681	81	59824										
DRD3	1814	broad.mit.edu	37	chr3	113850162	113850162	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tcaactctcctcctctttctTggaagcctggtccacccaag	6	16	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:113850162T>C	uc003ebd.2	-	7	1232	c.809A>G	c.(808-810)CAA>CGA	p.Q270R	DRD3_uc010hqn.1_Missense_Mutation_p.Q270R|DRD3_uc003ebb.1_Missense_Mutation_p.Q270R|DRD3_uc003ebc.1_Missense_Mutation_p.Q270R	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	270	Cytoplasmic.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	TCCTCTTTCTTGGAAGCCTGG	0.532													22	54	---	---	---	---	PASS	C	113850162	C	C	113850162	3	2	167	1	0	0	0	0	1	0	0	0	4758	1812	63	5	401	5	DRD3	3	113850162	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	39436413	113850162	84172268	82	59825										
GOLGB1	2804	broad.mit.edu	37	chr3	121416536	121416536	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctttttttgcttcctcagctCtggataataaatttagctgt	6	8	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:121416536C>G	uc003eei.3	-	13	2945	c.2819G>C	c.(2818-2820)AGA>ACA	p.R940T	GOLGB1_uc010hrc.2_Missense_Mutation_p.R945T|GOLGB1_uc003eej.3_Missense_Mutation_p.R906T|GOLGB1_uc011bjm.1_Missense_Mutation_p.R826T|GOLGB1_uc010hrd.1_Missense_Mutation_p.R904T	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	940	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TTCCTCAGCTCTGGATAATAA	0.358													14	109	---	---	---	---	PASS	G	121416536	G	G	121416536	3	3	167	1	0	0	0	0	1	0	0	0	6565	913	32	2	7000	2	GOLGB1	3	121416536	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	7566374	121416536	76605894	83	59826										
CASR	846	broad.mit.edu	37	chr3	122003472	122003472	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgcccgggccacgctgcgcCgcagcaacgtctcccgcaag	12	19	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:122003472C>G	uc003eev.3	+	7	3043	c.2671C>G	c.(2671-2673)CGC>GGC	p.R891G	CASR_uc003eew.3_Missense_Mutation_p.R901G	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	891	Cytoplasmic (Potential).|Interaction with RNF19A.				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	CACGCTGCGCCGCAGCAACGT	0.627													15	20	---	---	---	---	PASS	G	122003472	G	G	122003472	3	3	167	1	0	0	0	0	1	0	0	0	2682	652	23	4	2723	4	CASR	3	122003472	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	586936	122003472	76018958	84	59827										
ALDH1L1	10840	broad.mit.edu	37	chr3	125831645	125831645	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cactctccgcacgaactcatCatgaatggagtcctccacaa	6	15	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:125831645C>G	uc003eim.1	-	19	2351	c.2161G>C	c.(2161-2163)GAT>CAT	p.D721H	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Missense_Mutation_p.D620H|ALDH1L1_uc003ein.1_Missense_Mutation_p.D256H	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	721	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	ACGAACTCATCATGAATGGAG	0.562													18	106	---	---	---	---	PASS	G	125831645	G	G	125831645	3	3	167	1	0	0	0	0	1	0	0	0	494	826	29	2	567	2	ALDH1L1	3	125831645	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	3828173	125831645	72190785	85	59828										
DBR1	51163	broad.mit.edu	37	chr3	137881387	137881387	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atgattcaatttttccaataCttctttcataccttcttctg	2	10	5	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:137881387C>A	uc003erv.2	-	8	1115	c.979G>T	c.(979-981)GTA>TTA	p.V327L	DBR1_uc003eru.2_Missense_Mutation_p.V276L|DBR1_uc003ert.2_Missense_Mutation_p.V95L	NM_016216	NP_057300	Q9UK59	DBR1_HUMAN	debranching enzyme homolog 1	327						nucleus	metal ion binding|RNA lariat debranching enzyme activity				0						TTTTCCAATACTTCTTTCATA	0.333													15	94	---	---	---	---	PASS	A	137881387	A	A	137881387	3	1	167	1	0	0	0	0	1	0	0	0	4257	565	20	3	659	3	DBR1	3	137881387	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	12049742	137881387	60141043	86	59829										
PLSCR5	389158	broad.mit.edu	37	chr3	146309615	146309615	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aatttaggcagaaaggggtcCcacttctgcgtaacgtaacc	10	10	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:146309615C>A	uc003ewb.2	-	5	1511	c.507G>T	c.(505-507)TGG>TGT	p.W169C	PLSCR5_uc010hvb.2_Missense_Mutation_p.W157C|PLSCR5_uc010hvc.2_Missense_Mutation_p.W169C	NM_001085420	NP_001078889	A0PG75	PLS5_HUMAN	phospholipid scramblase family, member 5	169											0						GAAAGGGGTCCCACTTCTGCG	0.378													5	44	---	---	---	---	PASS	A	146309615	A	A	146309615	3	1	167	1	0	0	0	0	1	0	0	0	12113	624	22	3	320	3	PLSCR5	3	146309615	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	8428228	146309615	51712815	87	59830										
MED12L	116931	broad.mit.edu	37	chr3	150874031	150874031	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acatggcctccagcacgggcGatggccctgtccctgtgcca	12	16	0	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:150874031G>T	uc003eyp.2	+	5	678	c.640G>T	c.(640-642)GAT>TAT	p.D214Y	MED12L_uc011bnz.1_Missense_Mutation_p.D214Y|MED12L_uc003eym.1_Missense_Mutation_p.D214Y|MED12L_uc003eyn.2_Missense_Mutation_p.D214Y|MED12L_uc003eyo.2_Missense_Mutation_p.D214Y	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	214					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)			CAGCACGGGCGATGGCCCTGT	0.473													10	67	---	---	---	---	PASS	T	150874031	T	T	150874031	3	4	167	1	0	0	0	0	1	0	0	0	9429	1058	37	2	658	2	MED12L	3	150874031	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	4564416	150874031	47148399	88	59831										
SHOX2	6474	broad.mit.edu	37	chr3	157820671	157820671	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttgcgatctttcagctccggGgacactggagggggcacccc	14	13	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:157820671G>A	uc003fbr.2	-	2	490	c.351C>T	c.(349-351)TCC>TCT	p.S117S	SHOX2_uc003fbs.2_Silent_p.S141S|SHOX2_uc010hvw.2_Silent_p.S117S	NM_006884	NP_006875	O60902	SHOX2_HUMAN	short stature homeobox 2 isoform a	117					nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			Lung(72;0.00318)|LUSC - Lung squamous cell carcinoma(72;0.0043)			TCAGCTCCGGGGACACTGGAG	0.483													13	82	---	---	---	---	PASS	A	157820671	A	A	157820671	2	1	167	1	0	0	0	0	0	0	0	1	14289	1219	43	3		3	SHOX2	3	157820671	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	6946640	157820671	40201759	89	59832										
YEATS2	55689	broad.mit.edu	37	chr3	183454574	183454574	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cagagttcaagttcattttaAggacagccagaacaagcgga	10	8	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:183454574A>T	uc003fly.2	+	8	1076	c.881A>T	c.(880-882)AAG>ATG	p.K294M		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	294	YEATS.				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)			GTTCATTTTAAGGACAGCCAG	0.403													22	152	---	---	---	---	PASS	T	183454574	T	T	183454574	3	4	167	1	0	0	0	0	1	0	0	0	17469	72	3	5	907	5	YEATS2	3	183454574	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	25633903	183454574	14567856	90	59833										
TPRG1	285386	broad.mit.edu	37	chr3	188956624	188956624	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atgctgagttgtgtgcagctGcagcggattcctctgagcgc	14	10	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:188956624G>T	uc003frv.1	+	9	1632	c.405G>T	c.(403-405)CTG>CTT	p.L135L	TPRG1_uc003frw.1_Silent_p.L135L	NM_198485	NP_940887	Q6ZUI0	TPRG1_HUMAN	tumor protein p63 regulated 1	135											0	all_cancers(143;6.12e-12)|all_hematologic(3;0.0359)|Ovarian(172;0.0925)	all_lung(153;8.23e-09)|Lung NSC(153;3.55e-06)|all_neural(597;0.0019)|Myeloproliferative disorder(1037;0.0255)	Lung(62;6.93e-06)	GBM - Glioblastoma multiforme(93;4.77e-14)		GTGTGCAGCTGCAGCGGATTC	0.473													34	105	---	---	---	---	PASS	T	188956624	T	T	188956624	2	4	167	1	0	0	0	0	0	0	0	1	16415	1306	46	3		3	TPRG1	3	188956624	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	5502050	188956624	9065806	91	59834										
CLDN16	10686	broad.mit.edu	37	chr3	190126254	190126254	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gggtctctgggttgctttttGgctggagctgttctcacctg	14	9	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:190126254G>C	uc003fsi.2	+	4	812	c.744G>C	c.(742-744)TTG>TTC	p.L248F	CLDN16_uc010hze.2_Intron	NM_006580	NP_006571	Q9Y5I7	CLD16_HUMAN	claudin 16	248	Helical; (Potential).				calcium-independent cell-cell adhesion|cellular metal ion homeostasis|excretion	integral to membrane|tight junction	identical protein binding|magnesium ion transmembrane transporter activity|structural molecule activity			ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.018)		GTTGCTTTTTGGCTGGAGCTG	0.388													13	92	---	---	---	---	PASS	C	190126254	C	C	190126254	3	2	167	1	0	0	0	0	1	0	0	0	3477	1339	47	4	758	4	CLDN16	3	190126254	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1169630	190126254	7896176	92	59835										
ATP13A4	84239	broad.mit.edu	37	chr3	193130151	193130151	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gagatgctttcattttgtacTgtgcaggcactaaaagggaa	11	6	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:193130151T>A	uc003ftd.2	-	27	3132	c.3024A>T	c.(3022-3024)ACA>ACT	p.T1008T	ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	1008	Cytoplasmic (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)		CATTTTGTACTGTGCAGGCAC	0.393													59	179	---	---	---	---	PASS	A	193130151	A	A	193130151	2	1	167	1	0	0	0	0	0	0	0	1	1126	1567	55	5		5	ATP13A4	3	193130151	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	3003897	193130151	4892279	93	59836										
CPN2	1370	broad.mit.edu	37	chr3	194062580	194062580	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aggcacggggtgtgggcaaaGaggccggcaggcaggacccg	20	10	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:194062580G>A	uc003fts.2	-	2	942	c.852C>T	c.(850-852)CTC>CTT	p.L284L		NM_001080513	NP_001073982	P22792	CPN2_HUMAN	carboxypeptidase N, polypeptide 2	284	LRR 8.				protein stabilization	extracellular region	enzyme regulator activity			ovary(5)	5	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.65e-05)		TGTGGGCAAAGAGGCCGGCAG	0.612													8	62	---	---	---	---	PASS	A	194062580	A	A	194062580	2	1	167	1	0	0	0	0	0	0	0	1	3810	929	33	2		2	CPN2	3	194062580	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	932429	194062580	3959850	94	59837										
IQCG	84223	broad.mit.edu	37	chr3	197670685	197670685	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctcccttcgtactgaacgggCatgatgtagttcagaataga	10	9	1	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr3:197670685C>A	uc003fyo.2	-	3	392	c.246G>T	c.(244-246)ATG>ATT	p.M82I	IQCG_uc003fyp.2_Missense_Mutation_p.M82I|IQCG_uc003fyq.3_Missense_Mutation_p.M82I	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	82											0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;7.19e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.149)		ACTGAACGGGCATGATGTAGT	0.468													22	151	---	---	---	---	PASS	A	197670685	A	A	197670685	3	1	167	1	0	0	0	0	1	0	0	0	7810	710	25	3	1121	3	IQCG	3	197670685	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	3608105	197670685	351745	95	59838										
ZNF595	152687	broad.mit.edu	37	chr4	86295	86295	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gatggtccacaagcctgaatGaacataagaatattcatact	7	8	1	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:86295G>C	uc003fzv.1	+	6	1057	c.901G>C	c.(901-903)GAA>CAA	p.E301Q	ZNF595_uc003fzu.1_Intron|ZNF718_uc003fzt.3_Intron|ZNF595_uc011bus.1_Missense_Mutation_p.E69Q|ZNF595_uc011but.1_Missense_Mutation_p.E69Q	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	301					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		AAGCCTGAATGAACATAAGAA	0.378													16	39	---	---	---	---	PASS	C	86295	C	C	86295	3	2	167	1	0	0	0	0	1	0	0	0	18022	1290	45	2	914	2	ZNF595	4	86295	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08		86295	191067981	96	59839										
CTBP1	1487	broad.mit.edu	37	chr4	1206732	1206732	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cccattgagctcagggtgcaCgacggcggggtccatgctgg	16	12	1	1	rs7687296	byFrequency	TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:1206732C>A	uc003gcv.1	-	8	1273	c.1108G>T	c.(1108-1110)GTG>TTG	p.V370L	uc003gcs.1_Intron|CTBP1_uc003gct.1_Missense_Mutation_p.V351L|CTBP1_uc003gcu.1_Missense_Mutation_p.V359L|CTBP1_uc003gcw.2_Missense_Mutation_p.V44L	NM_001328	NP_001319	Q13363	CTBP1_HUMAN	C-terminal binding protein 1 isoform 1	370					interspecies interaction between organisms|negative regulation of cell proliferation|negative regulation of histone H4 acetylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone deacetylation|protein phosphorylation|regulation of cell cycle|regulation of transcription by chromatin organization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|viral genome replication|white fat cell differentiation	cytoplasm|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein C-terminus binding|protein domain specific binding|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00818)	Colorectal(103;0.2)		TCAGGGTGCACGACGGCGGGG	0.657													4	17	---	---	---	---	PASS	A	1206732	A	A	1206732	3	1	167	1	0	0	0	0	1	0	0	0	3997	536	19	1	222	1	CTBP1	4	1206732	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1120437	1206732	189947544	97	59840										
WDR1	9948	broad.mit.edu	37	chr4	10089385	10089385	+	Frame_Shift_Del	DEL	C	-	-													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgtccagatagttgatgtaCccggacagggagacactgag							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:10089385delC	uc003gmf.2	-	8	1180	c.897delG	c.(895-897)GGGfs	p.G299fs	WDR1_uc003gmg.2_Frame_Shift_Del_p.G159fs|WDR1_uc003gmh.1_RNA|WDR1_uc011bwu.1_Frame_Shift_Del_p.G134fs	NM_017491	NP_059830	O75083	WDR1_HUMAN	WD repeat-containing protein 1 isoform 1	299					platelet activation|platelet degranulation|sensory perception of sound	cytoskeleton|cytosol|extracellular region	actin binding			ovary(2)|pancreas(1)	3				STAD - Stomach adenocarcinoma(129;0.000703)|Colorectal(103;0.0057)|LUSC - Lung squamous cell carcinoma(721;0.0232)		AGTTGATGTACCCGGACAGGG	0.607													10	7	---	---	---	---		-	10089385	-	-	10089385	7	5	167	1	0	1	0	1	0	0	0	0	17269	494	18	0	955	0	WDR1	4	10089385	Frame_Shift_Del	DEL	C	TCGA-66-2789-01A-01D-0983-08	8882653	10089385	181064891	98	59841										
SLIT2	9353	broad.mit.edu	37	chr4	20618590	20618590	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggcccctgggcagaacggaaCcagcttccacggctgcatcc	12	16	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:20618590C>A	uc003gpr.1	+	35	4109	c.3905C>A	c.(3904-3906)ACC>AAC	p.T1302N	SLIT2_uc003gps.1_Missense_Mutation_p.T1294N	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1302	Laminin G-like.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CAGAACGGAACCAGCTTCCAC	0.587													11	48	---	---	---	---	PASS	A	20618590	A	A	20618590	3	1	167	1	0	0	0	0	1	0	0	0	14740	507	18	3	4043	3	SLIT2	4	20618590	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	10529205	20618590	170535686	99	59842										
N4BP2	55728	broad.mit.edu	37	chr4	40123482	40123482	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atagcagtaagcagtcctttCcaggtattctaaaagctact	7	9	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:40123482C>T	uc003guy.3	+	9	4089	c.3751C>T	c.(3751-3753)CCA>TCA	p.P1251S	N4BP2_uc010ifq.2_Missense_Mutation_p.P1171S|N4BP2_uc010ifr.2_Missense_Mutation_p.P1171S	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	1251						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						GCAGTCCTTTCCAGGTATTCT	0.373													25	96	---	---	---	---	PASS	T	40123482	T	T	40123482	3	4	167	1	0	0	0	0	1	0	0	0	10110	855	30	2	3777	2	N4BP2	4	40123482	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	19504892	40123482	151030794	100	59843										
ATP10D	57205	broad.mit.edu	37	chr4	47514816	47514816	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agtacacacttctgaattttGtgccaagaaatttatttgaa	6	6	1	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:47514816G>C	uc003gxk.1	+	2	423	c.259G>C	c.(259-261)GTG>CTG	p.V87L	ATP10D_uc003gxj.3_Missense_Mutation_p.V87L	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	87	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						TCTGAATTTTGTGCCAAGAAA	0.333													11	37	---	---	---	---	PASS	C	47514816	C	C	47514816	3	2	167	1	0	0	0	0	1	0	0	0	1118	1377	48	4	261	4	ATP10D	4	47514816	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	7391334	47514816	143639460	101	59844										
CORIN	10699	broad.mit.edu	37	chr4	47682236	47682236	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	catggcgatgcagcgcccgtCcccgcagcgatgctctgttg	13	15	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:47682236C>G	uc003gxm.2	-	8	1147	c.1054G>C	c.(1054-1056)GAC>CAC	p.D352H	CORIN_uc011bzf.1_Missense_Mutation_p.D213H|CORIN_uc011bzg.1_Missense_Mutation_p.D285H|CORIN_uc011bzh.1_Intron|CORIN_uc011bzi.1_Intron|CORIN_uc003gxn.3_3'UTR	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	352	Extracellular (Potential).|LDL-receptor class A 3.				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						CAGCGCCCGTCCCCGCAGCGA	0.542													10	30	---	---	---	---	PASS	G	47682236	G	G	47682236	3	3	167	1	0	0	0	0	1	0	0	0	3752	855	30	2	2134	2	CORIN	4	47682236	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	167420	47682236	143472040	102	59845										
EPHA5	2044	broad.mit.edu	37	chr4	66231739	66231739	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gattgggatcctcataggtaTgtggatcaatgtaagttctt	11	5	3	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:66231739T>C	uc003hcy.2	-	11	2154	c.1961A>G	c.(1960-1962)CAT>CGT	p.H654R	EPHA5_uc003hcx.2_Missense_Mutation_p.H586R|EPHA5_uc003hcz.2_Missense_Mutation_p.H632R|EPHA5_uc011cah.1_Missense_Mutation_p.H655R|EPHA5_uc011cai.1_Missense_Mutation_p.H633R|EPHA5_uc003hda.2_Missense_Mutation_p.H655R	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	654	Cytoplasmic (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CTCATAGGTATGTGGATCAAT	0.373										TSP Lung(17;0.13)			25	34	---	---	---	---	PASS	C	66231739	C	C	66231739	3	2	167	1	0	0	0	0	1	0	0	0	5170	1464	51	5	1184	5	EPHA5	4	66231739	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	18549503	66231739	124922537	103	59846										
UGT2A3	79799	broad.mit.edu	37	chr4	69816854	69816854	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgaaagcattgaattttttaCtctttccagaaaggtcattc	6	7	2	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:69816854C>G	uc003hef.2	-	1	656	c.625G>C	c.(625-627)GTA>CTA	p.V209L	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	209	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						GAATTTTTTACTCTTTCCAGA	0.403													13	30	---	---	---	---	PASS	G	69816854	G	G	69816854	3	3	167	1	0	0	0	0	1	0	0	0	16952	565	20	4	982	4	UGT2A3	4	69816854	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	3585115	69816854	121337422	104	59847										
ENAM	10117	broad.mit.edu	37	chr4	71509397	71509397	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gctactacgttaataatgccGctggaccagaagaaagcact	9	10	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:71509397G>A	uc011caw.1	+	9	2535	c.2254G>A	c.(2254-2256)GCT>ACT	p.A752T		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	752					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			TAATAATGCCGCTGGACCAGA	0.453													21	51	---	---	---	---	PASS	A	71509397	A	A	71509397	3	1	167	1	0	0	0	0	1	0	0	0	5112	1087	38	1	2284	1	ENAM	4	71509397	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1692543	71509397	119644879	105	59848										
C4orf21	55345	broad.mit.edu	37	chr4	113462282	113462282	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	taacattataaaaacacaggGttggtagccattccaataaa	6	7	0	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:113462282G>A	uc003iau.2	-	25	5952	c.5741C>T	c.(5740-5742)ACC>ATC	p.T1914I	C4orf21_uc003iav.2_RNA|C4orf21_uc003iat.2_Missense_Mutation_p.T372I	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	736						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		AAAACACAGGGTTGGTAGCCA	0.378													5	11	---	---	---	---	PASS	A	113462282	A	A	113462282	3	1	167	1	0	0	0	0	1	0	0	0	2254	1261	44	3	589	3	C4orf21	4	113462282	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	41952885	113462282	77691994	106	59849										
ANK2	287	broad.mit.edu	37	chr4	114195750	114195750	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctctgcccgggagggccaggTggatgtggcatcagtcctat	15	11	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:114195750T>C	uc003ibe.3	+	15	1728	c.1628T>C	c.(1627-1629)GTG>GCG	p.V543A	ANK2_uc003ibd.3_Missense_Mutation_p.V522A|ANK2_uc003ibf.3_Missense_Mutation_p.V543A|ANK2_uc003ibc.2_Missense_Mutation_p.V519A|ANK2_uc011cgb.1_Missense_Mutation_p.V558A	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	543	ANK 16.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GAGGGCCAGGTGGATGTGGCA	0.512													14	43	---	---	---	---	PASS	C	114195750	C	C	114195750	3	2	167	1	0	0	0	0	1	0	0	0	621	1696	59	5	1711	5	ANK2	4	114195750	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	733468	114195750	76958526	107	59850										
IL21	59067	broad.mit.edu	37	chr4	123542049	123542049	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aacaatatctataagttgacGcattctaatcatgtggcgat	7	7	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:123542049G>T	uc003ies.2	-	1	163	c.118C>A	c.(118-120)CGT>AGT	p.R40S	uc003iet.2_RNA|IL21_uc010int.2_Missense_Mutation_p.R33S	NM_021803	NP_068575	Q9HBE4	IL21_HUMAN	interleukin 21	33					cell maturation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-17 production|positive regulation of T cell proliferation|signal transduction	extracellular space	cytokine activity|interleukin-2 receptor binding				0						ATAAGTTGACGCATTCTAATC	0.368													11	54	---	---	---	---	PASS	T	123542049	T	T	123542049	3	4	167	1	0	0	0	0	1	0	0	0	7670	1087	38	1	390	1	IL21	4	123542049	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	9346299	123542049	67612227	108	59851										
NPY2R	4887	broad.mit.edu	37	chr4	156135368	156135368	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	actttttcattgccaatctgGctgtggcagatcttttggtg	10	8	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:156135368G>T	uc003ioq.2	+	2	772	c.277G>T	c.(277-279)GCT>TCT	p.A93S	NPY2R_uc003ior.2_Missense_Mutation_p.A93S	NM_000910	NP_000901	P49146	NPY2R_HUMAN	neuropeptide Y receptor Y2	93	Helical; Name=2; (Potential).				cardiac left ventricle morphogenesis|inhibition of adenylate cyclase activity by G-protein signaling pathway|locomotory behavior|outflow tract morphogenesis	integral to plasma membrane	calcium channel regulator activity			lung(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0854)				TGCCAATCTGGCTGTGGCAGA	0.473													4	24	---	---	---	---	PASS	T	156135368	T	T	156135368	3	4	167	1	0	0	0	0	1	0	0	0	10609	1203	42	3	279	3	NPY2R	4	156135368	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	32593319	156135368	35018908	109	59852										
GRIA2	2891	broad.mit.edu	37	chr4	158224786	158224786	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aataccatcacatcattttgCggaacactccacgtctcctt	4	14	3	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:158224786C>T	uc003ipm.3	+	3	771	c.312C>T	c.(310-312)TGC>TGT	p.C104C	GRIA2_uc011cit.1_Silent_p.C57C|GRIA2_uc003ipl.3_Silent_p.C104C|GRIA2_uc003ipk.3_Silent_p.C57C|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	104	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	CATCATTTTGCGGAACACTCC	0.433													25	95	---	---	---	---	PASS	T	158224786	T	T	158224786	2	4	167	1	0	0	0	0	0	0	0	1	6768	776	27	1		1	GRIA2	4	158224786	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	2089418	158224786	32929490	110	59853										
C4orf46	201725	broad.mit.edu	37	chr4	159590809	159590809	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atagccttctttcaagaggtCccgccacgttttaaggaaac	8	11	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:159590809C>G	uc003iqa.2	-	2	547	c.298G>C	c.(298-300)GAC>CAC	p.D100H	C4orf46_uc010iqp.1_RNA|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	100										skin(1)	1						TTCAAGAGGTCCCGCCACGTT	0.378													13	38	---	---	---	---	PASS	G	159590809	G	G	159590809	3	3	167	1	0	0	0	0	1	0	0	0	2274	855	30	2	47	2	C4orf46	4	159590809	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1366023	159590809	31563467	111	59854										
RAPGEF2	9693	broad.mit.edu	37	chr4	160251607	160251607	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tagcccaatggaagtgggcaAaaagttattggagtggttta	13	4	0	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:160251607A>G	uc003iqg.3	+	7	1251	c.941A>G	c.(940-942)AAA>AGA	p.K314R		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	314	N-terminal Ras-GEF.				cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GAAGTGGGCAAAAAGTTATTG	0.363													14	59	---	---	---	---	PASS	G	160251607	G	G	160251607	3	3	167	1	0	0	0	0	1	0	0	0	13044	14	1	5	967	5	RAPGEF2	4	160251607	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	660798	160251607	30902669	112	59855										
FSTL5	56884	broad.mit.edu	37	chr4	162697178	162697178	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atttttgattttgtaaatctAatagcatatttttcatcttg	4	4	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:162697178A>G	uc003iqh.2	-	5	894	c.458T>C	c.(457-459)TTA>TCA	p.L153S	FSTL5_uc003iqi.2_Missense_Mutation_p.L152S|FSTL5_uc010iqv.2_Missense_Mutation_p.L152S	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	153						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TTGTAAATCTAATAGCATATT	0.284													9	21	---	---	---	---	PASS	G	162697178	G	G	162697178	3	3	167	1	0	0	0	0	1	0	0	0	6080	372	13	5	2133	5	FSTL5	4	162697178	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	2445571	162697178	28457098	113	59856										
FSTL5	56884	broad.mit.edu	37	chr4	162697198	162697198	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aatagcatatttttcatcttGctgtattcagtagtcttgca	6	7	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:162697198G>T	uc003iqh.2	-	5	874	c.438C>A	c.(436-438)AGC>AGA	p.S146R	FSTL5_uc003iqi.2_Missense_Mutation_p.S145R|FSTL5_uc010iqv.2_Missense_Mutation_p.S145R	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	146						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TTTTCATCTTGCTGTATTCAG	0.279													6	19	---	---	---	---	PASS	T	162697198	T	T	162697198	3	4	167	1	0	0	0	0	1	0	0	0	6080	1310	46	3	2153	3	FSTL5	4	162697198	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	20	162697198	28457078	114	59857										
ADAM29	11086	broad.mit.edu	37	chr4	175897228	175897228	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaagaaattgataattccacTcagaagcaaagttcttatgt	7	6	2	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr4:175897228T>A	uc003iuc.2	+	5	1222	c.552T>A	c.(550-552)ACT>ACA	p.T184T	ADAM29_uc003iud.2_Silent_p.T184T|ADAM29_uc010irr.2_Silent_p.T184T|ADAM29_uc011cki.1_Silent_p.T184T	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	184					proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		ATAATTCCACTCAGAAGCAAA	0.358													14	28	---	---	---	---	PASS	A	175897228	A	A	175897228	2	1	167	1	0	0	0	0	0	0	0	1	247	1538	54	5		5	ADAM29	4	175897228	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	13200030	175897228	15257048	115	59858										
SDHA	6389	broad.mit.edu	37	chr5	225549	225549	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tccagggaggaatcaatgctGctctggggaacatggaggag	16	7	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:225549G>T	uc003jao.3	+	4	443	c.328G>T	c.(328-330)GCT>TCT	p.A110S	SDHA_uc003jan.2_Missense_Mutation_p.A110S|SDHA_uc011clv.1_Missense_Mutation_p.A110S|SDHA_uc011clw.1_Intron|SDHA_uc003jap.3_Missense_Mutation_p.A110S|SDHA_uc003jaq.3_5'Flank	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	110					nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	AATCAATGCTGCTCTGGGGAA	0.567									Familial_Paragangliomas				21	77	---	---	---	---	PASS	T	225549	T	T	225549	3	4	167	1	0	0	0	0	1	0	0	0	13963	1319	46	3	342	3	SDHA	5	225549	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08		225549	180689711	116	59859										
SLC9A3	6550	broad.mit.edu	37	chr5	482830	482830	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gggctccagctgcaccatgcGgtagcggttcagaagccagg	15	12	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:482830G>T	uc003jbe.2	-	7	1301	c.1189C>A	c.(1189-1191)CGC>AGC	p.R397S	SLC9A3_uc011clx.1_Missense_Mutation_p.R397S	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	397	Extracellular (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			TGCACCATGCGGTAGCGGTTC	0.692													9	12	---	---	---	---	PASS	T	482830	T	T	482830	3	4	167	1	0	0	0	0	1	0	0	0	14713	1116	39	1	1359	1	SLC9A3	5	482830	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	257281	482830	180432430	117	59860										
NSUN2	54888	broad.mit.edu	37	chr5	6620312	6620312	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgggtatgctggaggcatcaTggttgaccaccatgatgcag	14	8	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:6620312T>C	uc003jdu.2	-	7	787	c.722A>G	c.(721-723)CAT>CGT	p.H241R	NSUN2_uc003jdt.2_Missense_Mutation_p.H5R|NSUN2_uc011cmk.1_Missense_Mutation_p.H206R|NSUN2_uc003jdv.2_Missense_Mutation_p.H5R	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	241						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						GGAGGCATCATGGTTGACCAC	0.498													12	79	---	---	---	---	PASS	C	6620312	C	C	6620312	3	2	167	1	0	0	0	0	1	0	0	0	10678	1464	51	5	1633	5	NSUN2	5	6620312	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	6137482	6620312	174294948	118	59861										
PAPD7	11044	broad.mit.edu	37	chr5	6755026	6755026	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggaaaaaacacacacacacaCgggacagtctgcccgtgagc	10	13	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:6755026C>G	uc003jdx.1	+	13	1726	c.1597C>G	c.(1597-1599)CGG>GGG	p.R533G	PAPD7_uc011cmn.1_Missense_Mutation_p.R523G|PAPD7_uc010itl.1_Missense_Mutation_p.R353G	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	533					cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						CACACACACACGGGACAGTCT	0.662													10	19	---	---	---	---	PASS	G	6755026	G	G	6755026	3	3	167	1	0	0	0	0	1	0	0	0	11426	527	19	4	1643	4	PAPD7	5	6755026	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	134714	6755026	174160234	119	59862										
CDH12	1010	broad.mit.edu	37	chr5	21760770	21760770	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agatctcggtctgcagcactGactatctgaattatctgcaa	8	10	4	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:21760770G>T	uc010iuc.2	-	10	1988	c.1530C>A	c.(1528-1530)GTC>GTA	p.V510V	CDH12_uc011cno.1_Silent_p.V470V|CDH12_uc003jgk.2_Silent_p.V510V|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	510	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CTGCAGCACTGACTATCTGAA	0.403										HNSCC(59;0.17)			28	111	---	---	---	---	PASS	T	21760770	T	T	21760770	2	4	167	1	0	0	0	0	0	0	0	1	3098	1277	45	2		2	CDH12	5	21760770	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	15005744	21760770	159154490	120	59863										
CDH12	1010	broad.mit.edu	37	chr5	21975451	21975451	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cagcgccatctcctgagaggGtgtatttcacagtgccctct	10	13	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:21975451G>T	uc010iuc.2	-	3	733	c.275C>A	c.(274-276)ACC>AAC	p.T92N	CDH12_uc011cno.1_Missense_Mutation_p.T92N|CDH12_uc003jgk.2_Missense_Mutation_p.T92N	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	92	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TCCTGAGAGGGTGTATTTCAC	0.368										HNSCC(59;0.17)			19	80	---	---	---	---	PASS	T	21975451	T	T	21975451	3	4	167	1	0	0	0	0	1	0	0	0	3098	1261	44	3	2149	3	CDH12	5	21975451	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	214681	21975451	158939809	121	59864										
CDH12	1010	broad.mit.edu	37	chr5	22078648	22078648	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttaacacgttggaaatgtgaCcgttgtcctggcagatggat	12	7	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:22078648C>A	uc010iuc.2	-	2	596	c.138G>T	c.(136-138)CGG>CGT	p.R46R	CDH12_uc011cno.1_Silent_p.R46R|CDH12_uc003jgk.2_Silent_p.R46R	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	46					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						GGAAATGTGACCGTTGTCCTG	0.473										HNSCC(59;0.17)			38	154	---	---	---	---	PASS	A	22078648	A	A	22078648	2	1	167	1	0	0	0	0	0	0	0	1	3098	494	18	3		3	CDH12	5	22078648	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	103197	22078648	158836612	122	59865										
RXFP3	51289	broad.mit.edu	37	chr5	33936910	33936910	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agcaggcggggacaagctagCagaactcttcagtctggtcc	13	11	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:33936910C>G	uc003jic.1	+	1	422	c.65C>G	c.(64-66)GCA>GGA	p.A22G		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	22	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						GACAAGCTAGCAGAACTCTTC	0.607													11	56	---	---	---	---	PASS	G	33936910	G	G	33936910	3	3	167	1	0	0	0	0	1	0	0	0	13761	710	25	4	67	4	RXFP3	5	33936910	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	11858262	33936910	146978350	123	59866										
UGT3A1	133688	broad.mit.edu	37	chr5	35965865	35965865	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aaatggtttcacaagcttctCagcaatcaggaaagaacaga	8	8	3	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:35965865C>T	uc003jjv.1	-	4	623	c.466G>A	c.(466-468)GAG>AAG	p.E156K	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.E156K|UGT3A1_uc011cor.1_Missense_Mutation_p.E122K|UGT3A1_uc003jjy.1_Missense_Mutation_p.E102K	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	156	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ACAAGCTTCTCAGCAATCAGG	0.398													20	62	---	---	---	---	PASS	T	35965865	T	T	35965865	3	4	167	1	0	0	0	0	1	0	0	0	16960	835	29	2	1203	2	UGT3A1	5	35965865	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2028955	35965865	144949395	124	59867										
UGT3A2	167127	broad.mit.edu	37	chr5	36035849	36035849	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gcagccaccagacagccatgCccagcagcttcccacaaagc	8	18	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:36035849C>T	uc003jjz.1	-	7	1616	c.1523G>A	c.(1522-1524)GGC>GAC	p.G508D	UGT3A2_uc011cos.1_Missense_Mutation_p.G474D|UGT3A2_uc011cot.1_Missense_Mutation_p.G206D	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	508	Cytoplasmic (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GACAGCCATGCCCAGCAGCTT	0.582													5	34	---	---	---	---	PASS	T	36035849	T	T	36035849	3	4	167	1	0	0	0	0	1	0	0	0	16961	739	26	3	52	3	UGT3A2	5	36035849	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	69984	36035849	144879411	125	59868										
CARD6	84674	broad.mit.edu	37	chr5	40852718	40852718	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggggccatgaaagacattgtGaagaagcagtcaacacagtt	12	7	1	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:40852718G>T	uc003jmg.2	+	3	1359	c.1284G>T	c.(1282-1284)GTG>GTT	p.V428V		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	428					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						AAGACATTGTGAAGAAGCAGT	0.453													19	66	---	---	---	---	PASS	T	40852718	T	T	40852718	2	4	167	1	0	0	0	0	0	0	0	1	2650	1277	45	2		2	CARD6	5	40852718	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	4816869	40852718	140062542	126	59869										
C7	730	broad.mit.edu	37	chr5	40972654	40972654	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttctctgtggctccagccttAagtggagtcctgagatgaag	12	9	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:40972654A>G	uc003jmh.2	+	15	2146	c.2032A>G	c.(2032-2034)AAG>GAG	p.K678E	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	678	Sushi 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				CTCCAGCCTTAAGTGGAGTCC	0.488													25	174	---	---	---	---	PASS	G	40972654	G	G	40972654	3	3	167	1	0	0	0	0	1	0	0	0	2375	363	13	5	2090	5	C7	5	40972654	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	119936	40972654	139942606	127	59870										
TAF9	6880	broad.mit.edu	37	chr5	68661332	68661332	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aggtaaaagactgatcagcgCggcactggattgccaatcgc	12	10	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:68661332C>A	uc003jwc.1	-	2	565	c.233G>T	c.(232-234)CGC>CTC	p.R78L	TAF9_uc003jwa.2_Intron|TAF9_uc003jwb.2_Intron|TAF9_uc003jwd.1_Missense_Mutation_p.R78L|TAF9_uc003jwe.1_Missense_Mutation_p.R78L|TAF9_uc003jwf.1_Missense_Mutation_p.R78L	NM_003187	NP_003178	Q16594	TAF9_HUMAN	TAF9 RNA polymerase II, TATA box binding	78					histone H3 acetylation|negative regulation of apoptosis|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of cell growth|positive regulation of response to cytokine stimulus|positive regulation of transcription from RNA polymerase II promoter|response to interleukin-1|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	MLL1 complex|PCAF complex|pre-snoRNP complex|STAGA complex|transcription factor TFIID complex|transcription factor TFTC complex	activating transcription factor binding|C2H2 zinc finger domain binding|p53 binding|transcription coactivator activity|transcription regulatory region DNA binding				0		Lung NSC(167;7.26e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.1e-56)|Epithelial(20;9.54e-53)|all cancers(19;2.2e-48)|Lung(70;0.0176)		CTGATCAGCGCGGCACTGGAT	0.408													20	51	---	---	---	---	PASS	A	68661332	A	A	68661332	3	1	167	1	0	0	0	0	1	0	0	0	15532	768	27	1	975	1	TAF9	5	68661332	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	27688678	68661332	112253928	128	59871										
BDP1	55814	broad.mit.edu	37	chr5	70806636	70806636	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaaatttcccaaagggaaaaGgtgctagcagagttcagtgc	12	7	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:70806636G>T	uc003kbp.1	+	17	3980	c.3717G>T	c.(3715-3717)AAG>AAT	p.K1239N	BDP1_uc003kbn.1_Missense_Mutation_p.K1239N|BDP1_uc003kbo.2_Missense_Mutation_p.K1239N	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1239	Potential.|9 X 55 AA repeats of G-R-R-X-I-S-P-X-E-N- G-X-E-E-V-K-P-X-X-E-M-E-T-D-L-K-X-T-G-R- E-X-X-X-R-E-K-T-X-E-X-X-D-A-X-E-E-I-D-X- D-L-E-E-T.|8; approximate.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AAAGGGAAAAGGTGCTAGCAG	0.403													7	137	---	---	---	---	PASS	T	70806636	T	T	70806636	3	4	167	1	0	0	0	0	1	0	0	0	1395	991	35	3	3783	3	BDP1	5	70806636	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	2145304	70806636	110108624	129	59872										
AQPEP	206338	broad.mit.edu	37	chr5	115336143	115336143	+	Missense_Mutation	SNP	C	A	A													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtcctagggagcgtctatggCccggatgctttcttgtttct							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:115336143C>A	uc003kro.2	+	8	1693	c.1529C>A	c.(1528-1530)GCC>GAC	p.A510D	AQPEP_uc003krp.2_RNA|AQPEP_uc003krq.2_RNA|AQPEP_uc003krr.2_RNA|AQPEP_uc003krs.2_RNA	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	510	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						GCGTCTATGGCCCGGATGCTT	0.378													18	43	---	---	---	---	PASS	A	115336143	A	A	115336143	3	1	167	1	0	0	0	0	1	0	0	0	834	739	26	3	1559	3	AQPEP	5	115336143	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	44529507	115336143	65579117	130	59873	1052	2								
AQPEP	206338	broad.mit.edu	37	chr5	115336144	115336144	+	Silent	SNP	C	A	A													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tcctagggagcgtctatggcCcggatgctttcttgtttctt							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:115336144C>A	uc003kro.2	+	8	1694	c.1530C>A	c.(1528-1530)GCC>GCA	p.A510A	AQPEP_uc003krp.2_RNA|AQPEP_uc003krq.2_RNA|AQPEP_uc003krr.2_RNA|AQPEP_uc003krs.2_RNA	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	510	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						CGTCTATGGCCCGGATGCTTT	0.378													18	42	---	---	---	---	PASS	A	115336144	A	A	115336144	2	1	167	1	0	0	0	0	0	0	0	1	834	610	22	3		3	AQPEP	5	115336144	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	1	115336144	65579116	131	59874	1052	2								
CDKL3	51265	broad.mit.edu	37	chr5	133638306	133638306	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtttttcttgattttgatccAcgttaagtaaagttggtatc	8	5	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:133638306A>G	uc003kzf.3	-	12	1813	c.1694T>C	c.(1693-1695)GTG>GCG	p.V565A	CDKL3_uc011cxm.1_Missense_Mutation_p.V372A|CDKL3_uc011cxn.1_RNA|CDKL3_uc010jdw.2_Missense_Mutation_p.V172A|CDKL3_uc011cxo.1_Missense_Mutation_p.V270A|CDKL3_uc011cxp.1_Missense_Mutation_p.V270A|CDKL3_uc011cxq.1_Missense_Mutation_p.V372A	NM_001113575	NP_001107047	Q8IVW4	CDKL3_HUMAN	cyclin-dependent kinase-like 3 isoform 1	565						cytoplasm	ATP binding|cyclin-dependent protein kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ATTTTGATCCACGTTAAGTAA	0.299													3	4	---	---	---	---	PASS	G	133638306	G	G	133638306	3	3	167	1	0	0	0	0	1	0	0	0	3155	159	6	5	92	5	CDKL3	5	133638306	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	18302162	133638306	47276954	132	59875										
CDC25C	995	broad.mit.edu	37	chr5	137621721	137621721	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	caccctttaccatatattctGgaaagaagtctctgtagccg	7	11	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:137621721G>A	uc003lcp.1	-	13	1533	c.1262C>T	c.(1261-1263)CCA>CTA	p.P421L	CDC25C_uc003lcq.1_Missense_Mutation_p.P348L|CDC25C_uc003lcr.1_Missense_Mutation_p.P421L|CDC25C_uc011cyp.1_Missense_Mutation_p.P438L|CDC25C_uc003lcs.1_Missense_Mutation_p.P499L	NM_001790	NP_001781	P30307	MPIP3_HUMAN	cell division cycle 25C isoform a	421	Rhodanese.				cell cycle checkpoint|cell division|cell proliferation|DNA replication|G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm	protein tyrosine phosphatase activity|WW domain binding			lung(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CATATATTCTGGAAAGAAGTC	0.502													18	41	---	---	---	---	PASS	A	137621721	A	A	137621721	3	1	167	1	0	0	0	0	1	0	0	0	3064	1348	47	3	167	3	CDC25C	5	137621721	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	3983415	137621721	43293539	133	59876										
ETF1	2107	broad.mit.edu	37	chr5	137878583	137878583	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccagatctccacgttcctgtCggcagcactggggtcgtccg	12	15	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:137878583C>T	uc003ldc.3	-	2	190	c.25G>A	c.(25-27)GAC>AAC	p.D9N	ETF1_uc011cyv.1_5'Flank|ETF1_uc010jex.2_RNA|ETF1_uc003ldd.3_5'UTR	NM_004730	NP_004721	P62495	ERF1_HUMAN	eukaryotic translation termination factor 1	9					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation|regulation of translational termination	cytoplasm	protein binding|ribosome binding|translation release factor activity, codon specific			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ACGTTCCTGTCGGCAGCACTG	0.667													11	10	---	---	---	---	PASS	T	137878583	T	T	137878583	3	4	167	1	0	0	0	0	1	0	0	0	5268	884	31	2	1328	2	ETF1	5	137878583	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	256862	137878583	43036677	134	59877										
PCDHA2	56146	broad.mit.edu	37	chr5	140176677	140176677	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccatctgcgcggtatccagcCtgttggtgctcacggtgctg	13	13	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:140176677C>T	uc003lhd.2	+	1	2234	c.2128C>T	c.(2128-2130)CTG>TTG	p.L710L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.L710L|PCDHA2_uc011czy.1_Silent_p.L710L	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	710	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTATCCAGCCTGTTGGTGCT	0.682													23	48	---	---	---	---	PASS	T	140176677	T	T	140176677	2	4	167	1	0	0	0	0	0	0	0	1	11524	680	24	3		3	PCDHA2	5	140176677	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	2298094	140176677	40738583	135	59878										
PCDHA3	56145	broad.mit.edu	37	chr5	140182453	140182453	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgcaggtgttcgtgctggaCgagaacgacaacgcgccggc	15	12	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:140182453C>T	uc003lhf.2	+	1	1671	c.1671C>T	c.(1669-1671)GAC>GAT	p.D557D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.D557D	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	557	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGTGCTGGACGAGAACGACA	0.687													18	41	---	---	---	---	PASS	T	140182453	T	T	140182453	2	4	167	1	0	0	0	0	0	0	0	1	11525	535	19	1		1	PCDHA3	5	140182453	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	5776	140182453	40732807	136	59879										
DIAPH1	1729	broad.mit.edu	37	chr5	140966626	140966626	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	taccagcatctgttcaaagaGaaccagcacttgttcatctg	7	11	4	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:140966626G>C	uc003llb.3	-	3	424	c.283C>G	c.(283-285)CTC>GTC	p.L95V	DIAPH1_uc003llc.3_Missense_Mutation_p.L86V	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	95	GBD/FH3.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTTCAAAGAGAACCAGCACT	0.428													25	45	---	---	---	---	PASS	C	140966626	C	C	140966626	3	2	167	1	0	0	0	0	1	0	0	0	4518	942	33	2	3639	2	DIAPH1	5	140966626	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	784173	140966626	39948634	137	59880										
ABLIM3	22885	broad.mit.edu	37	chr5	148577924	148577924	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaagtcatctcggccctgggCcgcacttaccaccccaagtg	10	16	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:148577924C>A	uc003lpy.2	+	4	545	c.294C>A	c.(292-294)GGC>GGA	p.G98G	ABLIM3_uc003lpz.1_Silent_p.G98G|ABLIM3_uc003lqa.1_Missense_Mutation_p.A80D|ABLIM3_uc003lqb.2_Silent_p.G98G|ABLIM3_uc003lqc.1_Silent_p.G98G|ABLIM3_uc003lqd.1_Silent_p.G98G|ABLIM3_uc003lqf.2_Silent_p.G98G|ABLIM3_uc003lqe.1_Silent_p.G98G	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3	98	LIM zinc-binding 2.				axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGCCCTGGGCCGCACTTACC	0.632													9	14	---	---	---	---	PASS	A	148577924	A	A	148577924	2	1	167	1	0	0	0	0	0	0	0	1	96	726	26	3		3	ABLIM3	5	148577924	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	7611298	148577924	32337336	138	59881										
GABRA6	2559	broad.mit.edu	37	chr5	161128573	161128573	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgccaatagtttcatcttccGaggccaataaagtgctcacg	8	11	3	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr5:161128573G>T	uc003lyu.2	+	9	1494	c.1156G>T	c.(1156-1158)GAG>TAG	p.E386*	GABRA6_uc003lyv.2_Nonsense_Mutation_p.E157*	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	386	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TTCATCTTCCGAGGCCAATAA	0.453										TCGA Ovarian(5;0.080)			27	30	---	---	---	---	PASS	T	161128573	T	T	161128573	4	4	167	1	0	0	0	0	0	1	0	0	6165	1059	37	2	1190	2	GABRA6	5	161128573	Nonsense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	12550649	161128573	19786687	139	59882										
BMP5	653	broad.mit.edu	37	chr6	55620414	55620414	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtcatcaaagtacagaacagAgatggcatttaatttggttg	10	5	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr6:55620414A>G	uc003pcq.2	-	7	1994	c.1282T>C	c.(1282-1284)TCT>CCT	p.S428P	BMP5_uc011dxf.1_Missense_Mutation_p.S391P	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	428					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			TACAGAACAGAGATGGCATTT	0.348													27	30	---	---	---	---	PASS	G	55620414	G	G	55620414	3	3	167	1	0	0	0	0	1	0	0	0	1463	304	11	5	86	5	BMP5	6	55620414	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08		55620414	115494653	140	59883										
DST	667	broad.mit.edu	37	chr6	56335002	56335002	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaagggctgctacaaattcaTagtagtcaatatatccatcg	8	8	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr6:56335002T>A	uc003pdf.2	-	90	16071	c.16043A>T	c.(16042-16044)TAT>TTT	p.Y5348F	DST_uc003pcz.3_Missense_Mutation_p.Y5170F|DST_uc011dxj.1_Missense_Mutation_p.Y5199F|DST_uc011dxk.1_Missense_Mutation_p.Y5210F|DST_uc003pcy.3_Missense_Mutation_p.Y4844F|DST_uc003pcw.3_5'Flank|DST_uc003pcx.3_5'Flank	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	7256	EF-hand 2.|2 (Potential).				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)			TACAAATTCATAGTAGTCAAT	0.403													17	14	---	---	---	---	PASS	A	56335002	A	A	56335002	3	1	167	1	0	0	0	0	1	0	0	0	4783	1406	49	5	1016	5	DST	6	56335002	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	714588	56335002	114780065	141	59884										
RWDD2A	112611	broad.mit.edu	37	chr6	83905545	83905545	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaaagcttgtatatgaaccaTctacacaagcaaagccagtc	7	10	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr6:83905545T>C	uc003pjx.3	+	3	704	c.433T>C	c.(433-435)TCT>CCT	p.S145P	PGM3_uc003pjv.2_5'Flank|PGM3_uc003pjw.2_5'Flank|PGM3_uc011dyz.1_5'Flank|RWDD2A_uc011dza.1_Missense_Mutation_p.S70P	NM_033411	NP_219479	Q9UIY3	RWD2A_HUMAN	RWD domain containing 2A	145											0		all_cancers(76;2.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00217)		BRCA - Breast invasive adenocarcinoma(397;0.045)		ATATGAACCATCTACACAAGC	0.428													41	66	---	---	---	---	PASS	C	83905545	C	C	83905545	3	2	167	1	0	0	0	0	1	0	0	0	13755	1435	50	5	439	5	RWDD2A	6	83905545	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	27570543	83905545	87209522	142	59885										
C6orf165	154313	broad.mit.edu	37	chr6	88173891	88173891	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccaggcctcagatttacttgGctggtcttcgtggaggaaag	13	9	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr6:88173891G>T	uc003plv.2	+	13	1884	c.1792G>T	c.(1792-1794)GCT>TCT	p.A598S	SLC35A1_uc003plx.2_RNA|C6orf165_uc003plw.2_Missense_Mutation_p.A410S|C6orf165_uc010kbv.1_RNA	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	598										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		GATTTACTTGGCTGGTCTTCG	0.468													16	40	---	---	---	---	PASS	T	88173891	T	T	88173891	3	4	167	1	0	0	0	0	1	0	0	0	2341	1203	42	3	1838	3	C6orf165	6	88173891	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	4268346	88173891	82941176	143	59886										
FUT9	10690	broad.mit.edu	37	chr6	96651800	96651800	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aggattacatcacggaaaagCtatacaatgcttttctggct	8	8	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr6:96651800C>T	uc003pop.3	+	3	1110	c.769C>T	c.(769-771)CTA>TTA	p.L257L		NM_006581	NP_006572	Q9Y231	FUT9_HUMAN	fucosyltransferase 9 (alpha (1,3)	257	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			skin(4)|ovary(1)	5		all_cancers(76;4.77e-07)|Acute lymphoblastic leukemia(125;4.01e-09)|all_hematologic(75;1.25e-06)|all_epithelial(107;0.00279)|Colorectal(196;0.0356)		BRCA - Breast invasive adenocarcinoma(108;0.08)		CACGGAAAAGCTATACAATGC	0.343													8	26	---	---	---	---	PASS	T	96651800	T	T	96651800	2	4	167	1	0	0	0	0	0	0	0	1	6111	796	28	3		3	FUT9	6	96651800	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	8477909	96651800	74463267	144	59887										
PREP	5550	broad.mit.edu	37	chr6	105825364	105825364	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acactgctcaagaaatggcaCagtaatcttattctgggcct	8	10	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr6:105825364C>G	uc003prc.2	-	3	354	c.151G>C	c.(151-153)GTG>CTG	p.V51L		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	51					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)	AGAAATGGCACAGTAATCTTA	0.353													17	38	---	---	---	---	PASS	G	105825364	G	G	105825364	3	3	167	1	0	0	0	0	1	0	0	0	12474	478	17	4	2033	4	PREP	6	105825364	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	9173564	105825364	65289703	145	59888										
AIM1	202	broad.mit.edu	37	chr6	106973217	106973217	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gacattcaggattgcagttcTtggagcctctctccagtgat	10	10	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr6:106973217T>A	uc003prh.2	+	4	3631	c.3144T>A	c.(3142-3144)TCT>TCA	p.S1048S		NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	1048	Beta/gamma crystallin 'Greek key' 1.						sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		ATTGCAGTTCTTGGAGCCTCT	0.398													34	67	---	---	---	---	PASS	A	106973217	A	A	106973217	2	1	167	1	0	0	0	0	0	0	0	1	430	1596	56	5		5	AIM1	6	106973217	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	1147853	106973217	64141850	146	59889										
TAAR6	319100	broad.mit.edu	37	chr6	132891957	132891957	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gcccctcatgtacagcggtgCtgtgttctacacaggtgtct	11	12	3	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr6:132891957C>A	uc011eck.1	+	1	497	c.497C>A	c.(496-498)GCT>GAT	p.A166D		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	166	Helical; Name=4; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		TACAGCGGTGCTGTGTTCTAC	0.502													67	117	---	---	---	---	PASS	A	132891957	A	A	132891957	3	1	167	1	0	0	0	0	1	0	0	0	15489	797	28	3	499	3	TAAR6	6	132891957	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	25918740	132891957	38223110	147	59890										
HBS1L	10767	broad.mit.edu	37	chr6	135300358	135300358	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	caaccaaagtaagactaacaTgatcgcctgctgccgcccag	8	14	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr6:135300358T>C	uc003qez.2	-	14	1853	c.1646A>G	c.(1645-1647)CAT>CGT	p.H549R	HBS1L_uc003qey.2_Missense_Mutation_p.H385R|HBS1L_uc011ecy.1_Missense_Mutation_p.H273R|HBS1L_uc011ecz.1_Missense_Mutation_p.H385R|HBS1L_uc011eda.1_Missense_Mutation_p.H507R	NM_006620	NP_006611	Q9Y450	HBS1L_HUMAN	Hsp70 subfamily B suppressor 1-like protein	549					signal transduction		GTP binding|GTPase activity|translation elongation factor activity			skin(2)	2	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0046)|GBM - Glioblastoma multiforme(68;0.00702)		AAGACTAACATGATCGCCTGC	0.428													7	37	---	---	---	---	PASS	C	135300358	C	C	135300358	3	2	167	1	0	0	0	0	1	0	0	0	6987	1464	51	5	428	5	HBS1L	6	135300358	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	2408401	135300358	35814709	148	59891										
SASH1	23328	broad.mit.edu	37	chr6	148865626	148865626	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccaccctgttcccatgggccCcagtggggccctccccagtc	10	20	0	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr6:148865626C>T	uc003qme.1	+	18	3495	c.3020C>T	c.(3019-3021)CCC>CTC	p.P1007L	SASH1_uc011eeb.1_Missense_Mutation_p.P768L|SASH1_uc003qmf.1_Missense_Mutation_p.P417L	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	1007	Pro-rich.						protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CCCATGGGCCCCAGTGGGGCC	0.632													16	20	---	---	---	---	PASS	T	148865626	T	T	148865626	3	4	167	1	0	0	0	0	1	0	0	0	13848	623	22	3	3090	3	SASH1	6	148865626	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	13565268	148865626	22249441	149	59892										
SYNE1	23345	broad.mit.edu	37	chr6	152527420	152527420	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gcctcagcgccactgtccgcCgagagaaggagttgcttgcc	13	14	1	1	rs140577642		TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr6:152527420C>T	uc010kiw.2	-	126	23504	c.22902G>A	c.(22900-22902)TCG>TCA	p.S7634S	SYNE1_uc010kiv.2_Silent_p.S2158S|SYNE1_uc003qos.3_Silent_p.S2158S|SYNE1_uc003qot.3_Silent_p.S7563S|SYNE1_uc003qou.3_Silent_p.S7634S|SYNE1_uc003qor.3_Silent_p.S534S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7634	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)		CACTGTCCGCCGAGAGAAGGA	0.507										HNSCC(10;0.0054)			10	25	---	---	---	---	PASS	T	152527420	T	T	152527420	2	4	167	1	0	0	0	0	0	0	0	1	15442	639	23	1		1	SYNE1	6	152527420	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	3661794	152527420	18587647	150	59893										
GLCCI1	113263	broad.mit.edu	37	chr7	8124623	8124623	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gcccccagagggatgtgagcGagtgaaggtctttgaggaaa	16	7	1	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:8124623G>C	uc003srk.2	+	7	1833	c.1274G>C	c.(1273-1275)CGA>CCA	p.R425P		NM_138426	NP_612435	Q86VQ1	GLCI1_HUMAN	glucocorticoid induced transcript 1	425											0		Ovarian(82;0.0608)		UCEC - Uterine corpus endometrioid carcinoma (126;0.206)		GGATGTGAGCGAGTGAAGGTC	0.458													8	29	---	---	---	---	PASS	C	8124623	C	C	8124623	3	2	167	1	0	0	0	0	1	0	0	0	6431	1058	37	2	1300	2	GLCCI1	7	8124623	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08		8124623	151014040	151	59894										
DNAH11	8701	broad.mit.edu	37	chr7	21757518	21757518	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aagctttaaaaccatcacttCaattcctgagagtagcctgg	7	10	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:21757518C>G	uc003svc.2	+	44	7161	c.7130C>G	c.(7129-7131)TCA>TGA	p.S2377*		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2377					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						ACCATCACTTCAATTCCTGAG	0.408									Kartagener_syndrome				29	63	---	---	---	---	PASS	G	21757518	G	G	21757518	4	3	167	1	0	0	0	0	0	1	0	0	4599	838	29	2	7301	2	DNAH11	7	21757518	Nonsense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	13632895	21757518	137381145	152	59895										
STK31	56164	broad.mit.edu	37	chr7	23775399	23775399	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctcaaaagccccattcctttGtgggggcatagatcaaacca	8	12	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:23775399G>T	uc003sws.3	+	7	793	c.726G>T	c.(724-726)TTG>TTT	p.L242F	STK31_uc003swt.3_Missense_Mutation_p.L219F|STK31_uc011jze.1_Missense_Mutation_p.L242F|STK31_uc010kuq.2_Missense_Mutation_p.L219F	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	242							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						CCATTCCTTTGTGGGGGCATA	0.453													12	41	---	---	---	---	PASS	T	23775399	T	T	23775399	3	4	167	1	0	0	0	0	1	0	0	0	15295	1368	48	3	752	3	STK31	7	23775399	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	2017881	23775399	135363264	153	59896										
AQP1	358	broad.mit.edu	37	chr7	30951557	30951557	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttcaagaagaagctcttctgGagggcagtggtggccgagtt	15	7	3	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:30951557G>T	uc003tbv.1	+	1	90	c.33G>T	c.(31-33)TGG>TGT	p.W11C	AQP1_uc011kac.1_Intron	NM_198098	NP_932766	P29972	AQP1_HUMAN	aquaporin 1	11	Helical; Name=Helix 1.				ammonium transport|cell volume homeostasis|cellular hyperosmotic response|cellular response to cAMP|cellular response to copper ion|cellular response to dexamethasone stimulus|cellular response to hydrogen peroxide|cellular response to hypoxia|cellular response to mechanical stimulus|cellular response to mercury ion|cellular response to nitric oxide|cellular response to retinoic acid|cellular response to salt stress|cellular response to UV|cerebrospinal fluid secretion|cGMP biosynthetic process|establishment or maintenance of actin cytoskeleton polarity|lateral ventricle development|maintenance of symbiont-containing vacuole via substance secreted by host|negative regulation of apoptosis|odontogenesis|pancreatic juice secretion|positive regulation of angiogenesis|positive regulation of fibroblast proliferation|positive regulation of saliva secretion|renal water transport|response to drug|transepithelial water transport	apical plasma membrane|basal plasma membrane|brush border membrane|cytoplasm|integral to plasma membrane|nuclear membrane|sarcolemma|symbiont-containing vacuole	ammonia transmembrane transporter activity|carbon dioxide transmembrane transporter activity|glycerol transmembrane transporter activity|intracellular cGMP activated cation channel activity|nitric oxide transmembrane transporter activity|potassium channel activity|potassium ion transmembrane transporter activity|protein binding|water channel activity				0		Melanoma(862;0.16)			Acetazolamide(DB00819)	AGCTCTTCTGGAGGGCAGTGG	0.612													4	16	---	---	---	---	PASS	T	30951557	T	T	30951557	3	4	167	1	0	0	0	0	1	0	0	0	821	1183	41	2	35	2	AQP1	7	30951557	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	7176158	30951557	128187106	154	59897										
MRPS24	64951	broad.mit.edu	37	chr7	43906368	43906368	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gcacaggacatttgtaaaagTaggacagcaaagtttcactg	10	7	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:43906368T>C	uc003tit.1	-	4	485	c.434A>G	c.(433-435)TAC>TGC	p.Y145C		NM_032014	NP_114403	Q96EL2	RT24_HUMAN	mitochondrial ribosomal protein S24 precursor	145					translation	mitochondrial large ribosomal subunit|mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0						TTTGTAAAAGTAGGACAGCAA	0.493													15	41	---	---	---	---	PASS	C	43906368	C	C	43906368	3	2	167	1	0	0	0	0	1	0	0	0	9835	1638	57	5	73	5	MRPS24	7	43906368	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	12954811	43906368	115232295	155	59898										
DBNL	28988	broad.mit.edu	37	chr7	44099661	44099661	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gggcaggtgcagcagcaaggTgctggctctgagcacattga	16	9	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:44099661T>C	uc003tjp.3	+	12	1160	c.1062T>C	c.(1060-1062)GGT>GGC	p.G354G	DBNL_uc003tjo.3_Silent_p.G355G|DBNL_uc003tjr.3_Silent_p.G227G|DBNL_uc003tjq.3_Silent_p.G363G|DBNL_uc011kbm.1_Silent_p.G330G|DBNL_uc011kbn.1_Silent_p.G251G|DBNL_uc011kbo.1_Silent_p.G255G|DBNL_uc011kbp.1_Silent_p.G306G|DBNL_uc011kbq.1_Silent_p.G279G|DBNL_uc011kbr.1_Silent_p.G303G|DBNL_uc011kbs.1_Silent_p.G259G	NM_001014436	NP_001014436	Q9UJU6	DBNL_HUMAN	drebrin-like isoform b	354					activation of JUN kinase activity|cellular component disassembly involved in apoptosis|endocytosis|Rac protein signal transduction	cell cortex|cytoskeleton|cytosol|lamellipodium	actin binding|enzyme activator activity|identical protein binding			skin(1)	1						AGCAGCAAGGTGCTGGCTCTG	0.607													4	15	---	---	---	---	PASS	C	44099661	C	C	44099661	2	2	167	1	0	0	0	0	0	0	0	1	4255	1683	59	5		5	DBNL	7	44099661	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	193293	44099661	115039002	156	59899										
ABCA13	154664	broad.mit.edu	37	chr7	48556400	48556400	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctttcatttcctatgtctcaCtaaacttcatctttggcctt	3	12	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:48556400C>A	uc003toq.2	+	52	13745	c.13720C>A	c.(13720-13722)CTA>ATA	p.L4574I	ABCA13_uc010kys.1_Missense_Mutation_p.L1649I|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Missense_Mutation_p.L304I	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4574	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CTATGTCTCACTAAACTTCAT	0.428													30	106	---	---	---	---	PASS	A	48556400	A	A	48556400	3	1	167	1	0	0	0	0	1	0	0	0	31	564	20	3	13755	3	ABCA13	7	48556400	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	4456739	48556400	110582263	157	59900										
CLIP2	7461	broad.mit.edu	37	chr7	73803459	73803459	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agagcaagtgtaagtcaggcGagaagaaggtggacgccctc	15	8	1	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:73803459G>T	uc003uam.2	+	13	2917	c.2590G>T	c.(2590-2592)GAG>TAG	p.E864*	CLIP2_uc003uan.2_Nonsense_Mutation_p.E829*	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	864	Potential.					microtubule associated complex				skin(3)	3						TAAGTCAGGCGAGAAGAAGGT	0.627													7	36	---	---	---	---	PASS	T	73803459	T	T	73803459	4	4	167	1	0	0	0	0	0	1	0	0	3533	1059	37	2	2636	2	CLIP2	7	73803459	Nonsense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	25247059	73803459	85335204	158	59901										
CACNA2D1	781	broad.mit.edu	37	chr7	81624184	81624184	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aagctagaatcaattcttacCtcatcttgagatttaaccag	5	9	4	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:81624184C>T	uc003uhr.1	-	20	1990	c.1734G>A	c.(1732-1734)GAG>GAA	p.E578E		NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	597	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	CAATTCTTACCTCATCTTGAG	0.264													8	31	---	---	---	---	PASS	T	81624184	T	T	81624184	2	4	167	1	0	0	0	0	0	0	0	1	2548	695	24	3		3	CACNA2D1	7	81624184	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	7820725	81624184	77514479	159	59902										
COL1A2	1278	broad.mit.edu	37	chr7	94035032	94035032	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggacttcctggcttcaaaggCattagggtgagcacattctt	11	9	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:94035032C>A	uc003ung.1	+	11	1005	c.534C>A	c.(532-534)GGC>GGA	p.G178G	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfh.1_RNA	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	178					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GCTTCAAAGGCATTAGGGTGA	0.363										HNSCC(75;0.22)			25	92	---	---	---	---	PASS	A	94035032	A	A	94035032	2	1	167	1	0	0	0	0	0	0	0	1	3678	697	25	3		3	COL1A2	7	94035032	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	12410848	94035032	65103631	160	59903										
DOCK4	9732	broad.mit.edu	37	chr7	111462506	111462506	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cacagtaaatatctgcagcaGgaaatccttggataaggaga	10	7	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:111462506G>A	uc003vfx.2	-	27	3111	c.2842C>T	c.(2842-2844)CTG>TTG	p.L948L	DOCK4_uc003vfw.2_Silent_p.L389L|DOCK4_uc003vfy.2_Silent_p.L984L	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	948					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				ATCTGCAGCAGGAAATCCTTG	0.388													9	31	---	---	---	---	PASS	A	111462506	A	A	111462506	2	1	167	1	0	0	0	0	0	0	0	1	4689	991	35	3		3	DOCK4	7	111462506	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	17427474	111462506	47676157	161	59904										
CADPS2	93664	broad.mit.edu	37	chr7	122114483	122114483	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgatccaaagtctgcctctgGagtattctaaaaaggaaggc	10	8	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:122114483G>A	uc010lkp.2	-	12	2113	c.1950C>T	c.(1948-1950)CTC>CTT	p.L650L	CADPS2_uc011knx.1_Silent_p.L21L|CADPS2_uc003vkg.3_Silent_p.L347L|CADPS2_uc010lkq.2_Silent_p.L647L	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	650					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						TCTGCCTCTGGAGTATTCTAA	0.383													15	61	---	---	---	---	PASS	A	122114483	A	A	122114483	2	1	167	1	0	0	0	0	0	0	0	1	2571	1161	41	2		2	CADPS2	7	122114483	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	10651977	122114483	37024180	162	59905										
KLHDC10	23008	broad.mit.edu	37	chr7	129764369	129764369	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tcctggacagcatattccttAaacaaggtatatttttttaa	5	7	0	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:129764369A>T	uc003vpj.1	+	6	993	c.858A>T	c.(856-858)TTA>TTT	p.L286F	KLHDC10_uc003vpk.1_Missense_Mutation_p.L257F|KLHDC10_uc010lmb.1_Missense_Mutation_p.L183F	NM_014997	NP_055812	Q6PID8	KLD10_HUMAN	kelch domain containing 10	286	Kelch 4.										0						CATATTCCTTAAACAAGGTAT	0.368													13	37	---	---	---	---	PASS	T	129764369	T	T	129764369	3	4	167	1	0	0	0	0	1	0	0	0	8355	359	13	5	880	5	KLHDC10	7	129764369	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	7649886	129764369	29374294	163	59906										
SSPO	23145	broad.mit.edu	37	chr7	149482226	149482226	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gccctctgcccaggacgagcGctgtgtgcctcctgacctct	11	17	2	1	rs149954255	by1000genomes	TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:149482226G>C	uc010lpk.2	+	21	2900	c.2900G>C	c.(2899-2901)CGC>CCC	p.R967P	SSPO_uc010lpl.1_Missense_Mutation_p.A303P	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	967					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CAGGACGAGCGCTGTGTGCCT	0.637													11	29	---	---	---	---	PASS	C	149482226	C	C	149482226	3	2	167	1	0	0	0	0	1	0	0	0	15188	1087	38	4	2978	4	SSPO	7	149482226	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	19717857	149482226	9656437	164	59907										
SLC4A2	6522	broad.mit.edu	37	chr7	150773153	150773153	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgcagctgctctgcctggcCctgctctgggccgtcatgtc	12	16	3	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:150773153C>T	uc003wit.3	+	22	3781	c.3525C>T	c.(3523-3525)GCC>GCT	p.A1175A	SLC4A2_uc011kve.1_Silent_p.A1166A|SLC4A2_uc003wiu.3_Silent_p.A1161A|SLC4A2_uc003wiv.3_Silent_p.A369A|uc011kvf.1_Missense_Mutation_p.G98S	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	1175	Membrane (anion exchange).|Helical; (Potential).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TCTGCCTGGCCCTGCTCTGGG	0.657													20	39	---	---	---	---	PASS	T	150773153	T	T	150773153	2	4	167	1	0	0	0	0	0	0	0	1	14654	610	22	3		3	SLC4A2	7	150773153	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	1290927	150773153	8365510	165	59908										
MLL3	58508	broad.mit.edu	37	chr7	151962221	151962221	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	attccatgatagtgctgaccAcaagtagtacaaaagaactg	8	8	0	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr7:151962221A>T	uc003wla.2	-	8	1305	c.1086T>A	c.(1084-1086)TGT>TGA	p.C362*		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	362	PHD-type 1.|RING-type.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		AGTGCTGACCACAAGTAGTAC	0.448			N		medulloblastoma								18	294	---	---	---	---	PASS	T	151962221	T	T	151962221	4	4	167	1	0	0	0	0	0	1	0	0	9622	157	6	5	13857	5	MLL3	7	151962221	Nonsense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	1189068	151962221	7176442	166	59909										
INTS10	55174	broad.mit.edu	37	chr8	19687965	19687965	+	Missense_Mutation	SNP	G	T	T													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aaggaagaaatcgtcacattGtagtcaataaagccgaactt							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:19687965G>T	uc003wzj.2	+	10	1320	c.1189G>T	c.(1189-1191)GTA>TTA	p.V397L		NM_018142	NP_060612	Q9NVR2	INT10_HUMAN	integrator complex subunit 10	397					snRNA processing	integrator complex	protein binding			ovary(1)	1				Colorectal(111;0.057)|COAD - Colon adenocarcinoma(73;0.215)		TCGTCACATTGTAGTCAATAA	0.398													20	26	---	---	---	---	PASS	T	19687965	T	T	19687965	3	4	167	1	0	0	0	0	1	0	0	0	7776	1377	48	3	1227	3	INTS10	8	19687965	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08		19687965	126676057	167	59910	1053	2								
INTS10	55174	broad.mit.edu	37	chr8	19687967	19687967	+	Silent	SNP	A	T	T													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggaagaaatcgtcacattgtAgtcaataaagccgaacttgc							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:19687967A>T	uc003wzj.2	+	10	1322	c.1191A>T	c.(1189-1191)GTA>GTT	p.V397V		NM_018142	NP_060612	Q9NVR2	INT10_HUMAN	integrator complex subunit 10	397					snRNA processing	integrator complex	protein binding			ovary(1)	1				Colorectal(111;0.057)|COAD - Colon adenocarcinoma(73;0.215)		GTCACATTGTAGTCAATAAAG	0.403													19	27	---	---	---	---	PASS	T	19687967	T	T	19687967	2	4	167	1	0	0	0	0	0	0	0	1	7776	407	15	5		5	INTS10	8	19687967	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	2	19687967	126676055	168	59911	1053	2								
STAR	6770	broad.mit.edu	37	chr8	38008297	38008297	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	catgttgcgcatgtgtctgtAggagctcccagcgcacagct	12	12	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:38008297A>C	uc003xkv.1	-	1	304	c.40T>G	c.(40-42)TAC>GAC	p.Y14D	STAR_uc010lwc.1_Missense_Mutation_p.Y14D	NM_001007243	NP_001007244	P49675	STAR_HUMAN	steroidogenic acute regulatory protein isoform	14					C21-steroid hormone biosynthetic process	mitochondrial intermembrane space	cholesterol transporter activity			ovary(1)	1	Colorectal(12;0.000442)	all_lung(54;0.0151)|Lung NSC(58;0.0295)		READ - Rectum adenocarcinoma(644;0.188)		ATGTGTCTGTAGGAGCTCCCA	0.418													17	395	---	---	---	---	PASS	C	38008297	C	C	38008297	3	2	167	1	0	0	0	0	1	0	0	0	15253	420	15	5	845	5	STAR	8	38008297	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	18320330	38008297	108355725	169	59912										
DDHD2	23259	broad.mit.edu	37	chr8	38105316	38105316	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tcagctctctgaattctttgAtatctttgagaaggagaaag	9	6	4	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:38105316A>G	uc003xlb.2	+	10	1588	c.1211A>G	c.(1210-1212)GAT>GGT	p.D404G	DDHD2_uc003xlc.2_Missense_Mutation_p.D404G|DDHD2_uc011lbl.1_Missense_Mutation_p.D216G|DDHD2_uc003xld.2_Missense_Mutation_p.D23G	NM_015214	NP_056029	O94830	DDHD2_HUMAN	DDHD domain containing 2 isoform 1	404	SAM.				lipid catabolic process	centrosome	hydrolase activity|metal ion binding			large_intestine(1)|ovary(1)	2	Colorectal(12;0.000442)	all_lung(54;0.0657)|Lung NSC(58;0.175)	BRCA - Breast invasive adenocarcinoma(5;3.76e-25)|COAD - Colon adenocarcinoma(9;0.0977)			GAATTCTTTGATATCTTTGAG	0.303													43	272	---	---	---	---	PASS	G	38105316	G	G	38105316	3	3	167	1	0	0	0	0	1	0	0	0	4327	333	12	5	1307	5	DDHD2	8	38105316	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	97019	38105316	108258706	170	59913										
WHSC1L1	54904	broad.mit.edu	37	chr8	38205604	38205604	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tatcaaaggcatcctcctgaCggatgttggcggagtcaatg	12	9	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:38205604C>T	uc003xli.2	-	2	604	c.86G>A	c.(85-87)CGT>CAT	p.R29H	WHSC1L1_uc011lbm.1_Missense_Mutation_p.R29H|WHSC1L1_uc010lwe.2_Missense_Mutation_p.R29H|WHSC1L1_uc003xlj.2_Missense_Mutation_p.R29H	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	29					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			ATCCTCCTGACGGATGTTGGC	0.468			T	NUP98	AML								56	340	---	---	---	---	PASS	T	38205604	T	T	38205604	3	4	167	1	0	0	0	0	1	0	0	0	17360	536	19	1	4406	1	WHSC1L1	8	38205604	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	100288	38205604	108158418	171	59914										
ADAM2	2515	broad.mit.edu	37	chr8	39694659	39694659	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gttagtgattcattacctgcGattcaattccttcctttatt	5	9	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:39694659G>A	uc003xnj.2	-	2	203	c.128C>T	c.(127-129)TCG>TTG	p.S43L	ADAM2_uc003xnk.2_Missense_Mutation_p.S43L|ADAM2_uc011lck.1_Missense_Mutation_p.S43L|ADAM2_uc003xnl.2_Missense_Mutation_p.S43L	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	43					cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		CATTACCTGCGATTCAATTCC	0.303													11	195	---	---	---	---	PASS	A	39694659	A	A	39694659	3	1	167	1	0	0	0	0	1	0	0	0	241	1059	37	2	2155	2	ADAM2	8	39694659	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1489055	39694659	106669363	172	59915										
PRKDC	5591	broad.mit.edu	37	chr8	48743256	48743256	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cggtagcttctgtacagaacGacctgggcatcctgcttcat	10	12	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:48743256G>C	uc003xqi.2	-	62	8364	c.8307C>G	c.(8305-8307)GTC>GTG	p.V2769V	PRKDC_uc003xqj.2_Silent_p.V2769V|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2769	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TGTACAGAACGACCTGGGCAT	0.483								NHEJ					13	76	---	---	---	---	PASS	C	48743256	C	C	48743256	2	2	167	1	0	0	0	0	0	0	0	1	12521	1045	37	2		2	PRKDC	8	48743256	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	9048597	48743256	97620766	173	59916										
LYN	4067	broad.mit.edu	37	chr8	56866519	56866519	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tggtgaaaaggcttggcgctGggcagtttggggaagtctgg	19	5	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:56866519G>C	uc003xsk.3	+	8	1048	c.766G>C	c.(766-768)GGG>CGG	p.G256R	LYN_uc003xsl.3_Missense_Mutation_p.G235R	NM_002350	NP_002341	P07948	LYN_HUMAN	Yamaguchi sarcoma viral (v-yes-1) oncogene	256	Protein kinase.|ATP (By similarity).				erythrocyte differentiation|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of cellular component movement|positive regulation of stress-activated protein kinase signaling cascade|positive regulation of tyrosine phosphorylation of STAT protein|response to DNA damage stimulus|T cell costimulation	cytosol|Golgi apparatus|membrane raft|nucleus|perinuclear region of cytoplasm	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|receptor signaling protein tyrosine kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_lung(136;0.0555)|Lung NSC(129;0.0726)|all_epithelial(80;0.0772)	Epithelial(17;0.000834)|all cancers(17;0.00598)			GCTTGGCGCTGGGCAGTTTGG	0.527													17	67	---	---	---	---	PASS	C	56866519	C	C	56866519	3	2	167	1	0	0	0	0	1	0	0	0	9107	1348	47	4	792	4	LYN	8	56866519	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	8123263	56866519	89497503	174	59917										
CLVS1	157807	broad.mit.edu	37	chr8	62212665	62212665	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	caagcggatgcctttagactCctggctcagtatttccagta	9	11	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:62212665C>A	uc003xuh.2	+	2	603	c.279C>A	c.(277-279)CTC>CTA	p.L93L	CLVS1_uc003xug.2_Silent_p.L93L|CLVS1_uc003xui.2_Intron|CLVS1_uc010lyp.2_Silent_p.L93L	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1	93					lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						CCTTTAGACTCCTGGCTCAGT	0.488													25	32	---	---	---	---	PASS	A	62212665	A	A	62212665	2	1	167	1	0	0	0	0	0	0	0	1	3571	842	30	2		2	CLVS1	8	62212665	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	5346146	62212665	84151357	175	59918										
ZFHX4	79776	broad.mit.edu	37	chr8	77616888	77616888	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgcacctatgtcgttctacCcacagatcatcaacactttt	4	14	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:77616888C>A	uc003yav.2	+	2	952	c.565C>A	c.(565-567)CCA>ACA	p.P189T	ZFHX4_uc003yat.1_Missense_Mutation_p.P189T|ZFHX4_uc003yau.1_Missense_Mutation_p.P189T|ZFHX4_uc003yaw.1_Missense_Mutation_p.P189T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	189						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GTCGTTCTACCCACAGATCAT	0.483										HNSCC(33;0.089)			7	40	---	---	---	---	PASS	A	77616888	A	A	77616888	3	1	167	1	0	0	0	0	1	0	0	0	17632	623	22	3	567	3	ZFHX4	8	77616888	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	15404223	77616888	68747134	176	59919										
MMP16	4325	broad.mit.edu	37	chr8	89130996	89130996	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttgtctgtttccatgtactgGtaaaatggagccatgatggc	11	7	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:89130996G>T	uc003yeb.3	-	5	1086	c.804C>A	c.(802-804)TAC>TAA	p.Y268*	MMP16_uc003yec.2_Nonsense_Mutation_p.Y268*	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	268	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						CCATGTACTGGTAAAATGGAG	0.418													38	49	---	---	---	---	PASS	T	89130996	T	T	89130996	4	4	167	1	0	0	0	0	0	1	0	0	9655	1256	44	3	1199	3	MMP16	8	89130996	Nonsense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	11514108	89130996	57233026	177	59920										
PKHD1L1	93035	broad.mit.edu	37	chr8	110489571	110489571	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tattctccaggattgctttcCtgtacatccgccatcaagaa	6	12	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:110489571C>A	uc003yne.2	+	53	9139	c.9035C>A	c.(9034-9036)CCT>CAT	p.P3012H		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3012	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GATTGCTTTCCTGTACATCCG	0.408										HNSCC(38;0.096)			20	60	---	---	---	---	PASS	A	110489571	A	A	110489571	3	1	167	1	0	0	0	0	1	0	0	0	11972	681	24	3	9245	3	PKHD1L1	8	110489571	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	21358575	110489571	35874451	178	59921										
CSMD3	114788	broad.mit.edu	37	chr8	113304900	113304900	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgaacccatttccacttgttCttccataaattggactacca	4	12	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:113304900C>G	uc003ynu.2	-	55	8813	c.8654G>C	c.(8653-8655)AGA>ACA	p.R2885T	CSMD3_uc003yns.2_Missense_Mutation_p.R2087T|CSMD3_uc003ynt.2_Missense_Mutation_p.R2845T|CSMD3_uc011lhx.1_Missense_Mutation_p.R2716T	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2885	Extracellular (Potential).|Sushi 19.					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						TCCACTTGTTCTTCCATAAAT	0.418										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			19	58	---	---	---	---	PASS	G	113304900	G	G	113304900	3	3	167	1	0	0	0	0	1	0	0	0	3946	913	32	2	2537	2	CSMD3	8	113304900	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2815329	113304900	33059122	179	59922										
COL14A1	7373	broad.mit.edu	37	chr8	121259859	121259859	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cttttctactcagtaccatcCtcggggccccagaacttgcg	8	15	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:121259859C>A	uc003yox.2	+	21	2752	c.2487C>A	c.(2485-2487)TCC>TCA	p.S829S	COL14A1_uc003yoy.2_Silent_p.S507S	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	829	Fibronectin type-III 7.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			CAGTACCATCCTCGGGGCCCC	0.468													17	29	---	---	---	---	PASS	A	121259859	A	A	121259859	2	1	167	1	0	0	0	0	0	0	0	1	3671	668	24	3		3	COL14A1	8	121259859	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	7954959	121259859	25104163	180	59923										
COL22A1	169044	broad.mit.edu	37	chr8	139790639	139790639	+	Missense_Mutation	SNP	C	G	G													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtccggggagtccaggtggtCcttggggcccctgcagaaga							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:139790639C>G	uc003yvd.2	-	15	2162	c.1715G>C	c.(1714-1716)GGA>GCA	p.G572A		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	572	Pro-rich.|Gly-rich.|Collagen-like 3.				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)			TCCAGGTGGTCCTTGGGGCCC	0.552										HNSCC(7;0.00092)			13	21	---	---	---	---	PASS	G	139790639	G	G	139790639	3	3	167	1	0	0	0	0	1	0	0	0	3681	855	30	2	3369	2	COL22A1	8	139790639	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	18530780	139790639	6573383	181	59924	1054	2								
COL22A1	169044	broad.mit.edu	37	chr8	139790640	139790640	+	Nonsense_Mutation	SNP	C	A	A													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tccggggagtccaggtggtcCttggggcccctgcagaagag							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:139790640C>A	uc003yvd.2	-	15	2161	c.1714G>T	c.(1714-1716)GGA>TGA	p.G572*		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	572	Pro-rich.|Gly-rich.|Collagen-like 3.				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)			CCAGGTGGTCCTTGGGGCCCC	0.552										HNSCC(7;0.00092)			13	21	---	---	---	---	PASS	A	139790640	A	A	139790640	4	1	167	1	0	0	0	0	0	1	0	0	3681	690	24	3	3370	3	COL22A1	8	139790640	Nonsense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1	139790640	6573382	182	59925	1054	2								
GPR20	2843	broad.mit.edu	37	chr8	142367017	142367017	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cactgaggatgtgatgacggCctgagcccttggagctcctg	14	11	0	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:142367017C>T	uc003ywf.2	-	2	1096	c.1007G>A	c.(1006-1008)GGC>GAC	p.G336D		NM_005293	NP_005284	Q99678	GPR20_HUMAN	G protein-coupled receptor 20	336	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(97;4.32e-16)|all_epithelial(106;6.61e-14)|Lung NSC(106;9.4e-06)|all_lung(105;1.35e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0415)			GTGATGACGGCCTGAGCCCTT	0.682													7	29	---	---	---	---	PASS	T	142367017	T	T	142367017	3	4	167	1	0	0	0	0	1	0	0	0	6680	739	26	3	73	3	GPR20	8	142367017	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2576377	142367017	3997005	183	59926										
CYP11B1	1584	broad.mit.edu	37	chr8	143961141	143961141	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gcagcactgtcctggggaccCgggcggctctcgtgcccagt	15	15	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:143961141C>T	uc003yxi.2	-	1	96	c.89G>A	c.(88-90)CGG>CAG	p.R30Q	CYP11B1_uc003yxj.2_Missense_Mutation_p.R30Q|CYP11B1_uc010mey.2_Missense_Mutation_p.R30Q	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	30					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Mitotane(DB00648)	CCTGGGGACCCGGGCGGCTCT	0.647									Familial_Hyperaldosteronism_type_I				37	47	---	---	---	---	PASS	T	143961141	T	T	143961141	3	4	167	1	0	0	0	0	1	0	0	0	4145	652	23	1	1458	1	CYP11B1	8	143961141	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1594124	143961141	2402881	184	59927										
KIFC2	90990	broad.mit.edu	37	chr8	145692606	145692606	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tctggcgaggtcccctcactGttgacagtgaccagtcagct	11	13	3	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr8:145692606G>T	uc003zcz.2	+	4	416	c.351G>T	c.(349-351)CTG>CTT	p.L117L	CYHR1_uc003zcv.2_5'Flank|CYHR1_uc003zcw.2_5'Flank|CYHR1_uc003zcx.2_5'Flank|CYHR1_uc003zcy.2_5'Flank	NM_145754	NP_665697	Q96AC6	KIFC2_HUMAN	kinesin family member C2	117					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			TCCCCTCACTGTTGACAGTGA	0.662											OREG0019057	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	43	---	---	---	---	PASS	T	145692606	T	T	145692606	2	4	167	1	0	0	0	0	0	0	0	1	8313	1364	48	3		3	KIFC2	8	145692606	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	1731465	145692606	671416	185	59928										
DOCK8	81704	broad.mit.edu	37	chr9	464218	464218	+	Nonstop_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccagttgtcacagggcagctAagaaaagccatcttcattcg	9	11	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr9:464218A>T	uc003zgf.2	+	48	6411	c.6299A>T	c.(6298-6300)TAA>TTA	p.*2100L	DOCK8_uc010mgu.2_Nonstop_Mutation_p.*1402L|DOCK8_uc010mgv.2_Nonstop_Mutation_p.*2000L|DOCK8_uc003zgk.2_Nonstop_Mutation_p.*1558L	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	2100					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		CAGGGCAGCTAAGAAAAGCCA	0.488													21	39	---	---	---	---	PASS	T	464218	T	T	464218	4	4	167	1	0	0	0	0	0	0	0	0	4693	369	13	5	6489	5	DOCK8	9	464218	Nonstop_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08		464218	140749213	186	59929										
C9orf46	55848	broad.mit.edu	37	chr9	5431953	5431953	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atttttcatgctttcattcaTagattttgaaaatataaacc	3	6	3	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr9:5431953T>C	uc003zjc.2	-	3	229	c.25A>G	c.(25-27)ATG>GTG	p.M9V	C9orf46_uc003zjd.2_Missense_Mutation_p.M9V	NM_018465	NP_060935	Q9HBL7	CI046_HUMAN	hypothetical protein LOC55848	9						integral to membrane				ovary(1)	1	all_hematologic(13;0.158)	Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.00106)|Lung(218;0.125)		CTTTCATTCATAGATTTTGAA	0.294													4	7	---	---	---	---	PASS	C	5431953	C	C	5431953	3	2	167	1	0	0	0	0	1	0	0	0	2484	1406	49	5	434	5	C9orf46	9	5431953	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	4967735	5431953	135781478	187	59930										
CNTLN	54875	broad.mit.edu	37	chr9	17409420	17409420	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acagaagacagccaaacacaAggaaaagaaatagtacagac	8	8	0	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr9:17409420A>G	uc003zmz.2	+	16	2768	c.2742A>G	c.(2740-2742)CAA>CAG	p.Q914Q	CNTLN_uc003zmy.2_Silent_p.Q915Q|CNTLN_uc010mio.2_Silent_p.Q594Q	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	915						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		GCCAAACACAAGGAAAAGAAA	0.333													42	87	---	---	---	---	PASS	G	17409420	G	G	17409420	2	3	167	1	0	0	0	0	0	0	0	1	3639	69	3	5		5	CNTLN	9	17409420	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	11977467	17409420	123804011	188	59931										
UNC13B	10497	broad.mit.edu	37	chr9	35377549	35377549	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaaggaccgcatgaagatccGagagcgaaataagccagaga	13	8	0	4	rs142442316	by1000genomes	TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr9:35377549G>T	uc003zwq.2	+	15	1965	c.1673G>T	c.(1672-1674)CGA>CTA	p.R558L	UNC13B_uc003zwr.2_Missense_Mutation_p.R558L	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	558					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			ATGAAGATCCGAGAGCGAAAT	0.502													30	34	---	---	---	---	PASS	T	35377549	T	T	35377549	3	4	167	1	0	0	0	0	1	0	0	0	16982	1058	37	2	1731	2	UNC13B	9	35377549	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	17968129	35377549	105835882	189	59932										
SEMA4D	10507	broad.mit.edu	37	chr9	92011737	92011737	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gctgcagcacccggatgtagTtgaggcactctgtctgcagg	14	11	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr9:92011737T>C	uc004aqo.1	-	8	901	c.329A>G	c.(328-330)AAC>AGC	p.N110S	SEMA4D_uc011ltm.1_Missense_Mutation_p.N110S|SEMA4D_uc011ltn.1_RNA|SEMA4D_uc011lto.1_RNA|SEMA4D_uc004aqp.1_Missense_Mutation_p.N108S	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	110	Sema.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						CCGGATGTAGTTGAGGCACTC	0.582													4	7	---	---	---	---	PASS	C	92011737	C	C	92011737	3	2	167	1	0	0	0	0	1	0	0	0	14034	1725	60	5	2873	5	SEMA4D	9	92011737	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	56634188	92011737	49201694	190	59933										
ZNF169	169841	broad.mit.edu	37	chr9	97062614	97062614	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	caccagaggacacacaccggGgagaagccatacctgtgtcc	11	14	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr9:97062614G>T	uc004aum.1	+	5	879	c.774G>T	c.(772-774)GGG>GGT	p.G258G		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	258						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				CACACACCGGGGAGAAGCCAT	0.567													8	23	---	---	---	---	PASS	T	97062614	T	T	97062614	2	4	167	1	0	0	0	0	0	0	0	1	17739	1219	43	3		3	ZNF169	9	97062614	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	5050877	97062614	44150817	191	59934										
FKTN	2218	broad.mit.edu	37	chr9	108366570	108366570	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agtaaagatccccggctagaCgggatagactcactctctgg	11	11	2	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr9:108366570C>T	uc004bcr.2	+	6	660	c.444C>T	c.(442-444)GAC>GAT	p.D148D	FKTN_uc011lvx.1_Silent_p.D148D|FKTN_uc004bcs.2_Silent_p.D148D|FKTN_uc011lvy.1_Silent_p.D148D|FKTN_uc010mtm.2_Silent_p.D16D	NM_001079802	NP_001073270	O75072	FKTN_HUMAN	fukutin	148	Lumenal (Potential).				muscle organ development|negative regulation of cell proliferation|negative regulation of JNK cascade|nervous system development|regulation of protein glycosylation	cis-Golgi network|endoplasmic reticulum|extracellular space|Golgi membrane|integral to membrane|nucleus	transferase activity			breast(2)|ovary(1)	3						CCCGGCTAGACGGGATAGACT	0.473													23	28	---	---	---	---	PASS	T	108366570	T	T	108366570	2	4	167	1	0	0	0	0	0	0	0	1	5919	535	19	1		1	FKTN	9	108366570	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	11303956	108366570	32846861	192	59935										
MED27	9442	broad.mit.edu	37	chr9	134955031	134955031	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccttcagccggtacctacttGaggtcccggttgaccgaatg	11	13	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr9:134955031G>C	uc004cbe.1	-	1	223	c.201C>G	c.(199-201)CTC>CTG	p.L67L	MED27_uc004cbf.1_Silent_p.L67L|MED27_uc011mco.1_Silent_p.L67L|MED27_uc004cbg.3_Silent_p.L67L	NM_004269	NP_004260	Q6P2C8	MED27_HUMAN	mediator complex subunit 27	67					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleolus|transcription factor complex	protein binding|transcription coactivator activity			skin(1)	1		Myeloproliferative disorder(178;0.206)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000193)		GTACCTACTTGAGGTCCCGGT	0.642													11	31	---	---	---	---	PASS	C	134955031	C	C	134955031	2	2	167	1	0	0	0	0	0	0	0	1	9445	1277	45	2		2	MED27	9	134955031	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	26588461	134955031	6258400	193	59936										
NOTCH1	4851	broad.mit.edu	37	chr9	139412360	139412360	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggagcccagcgtgttgatgcActtgcccgcatgctcgcagg	14	13	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr9:139412360A>T	uc004chz.2	-	8	1285	c.1285T>A	c.(1285-1287)TGC>AGC	p.C429S		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	429	Extracellular (Potential).|EGF-like 11; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GTGTTGATGCACTTGCCCGCA	0.662			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			23	9	---	---	---	---	PASS	T	139412360	T	T	139412360	3	4	167	1	0	0	0	0	1	0	0	0	10547	159	6	5	6490	5	NOTCH1	9	139412360	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	4457329	139412360	1801071	194	59937										
NOTCH1	4851	broad.mit.edu	37	chr9	139413085	139413085	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gcagtagaaggaggccacacGgtcatggcaggtggcgccgt	17	10	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr9:139413085G>A	uc004chz.2	-	6	1057	c.1057C>T	c.(1057-1059)CGT>TGT	p.R353C		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	353	Extracellular (Potential).|EGF-like 9; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.R353H(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GAGGCCACACGGTCATGGCAG	0.652			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			6	9	---	---	---	---	PASS	A	139413085	A	A	139413085	3	1	167	1	0	0	0	0	1	0	0	0	10547	1116	39	1	6726	1	NOTCH1	9	139413085	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	725	139413085	1800346	195	59938										
LARP4B	23185	broad.mit.edu	37	chr10	863800	863800	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aagcttggcgacggaggcttTggtggcgttggagactgtgt	18	6	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:863800T>C	uc001ifs.1	-	14	1601	c.1560A>G	c.(1558-1560)CCA>CCG	p.P520P		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	520							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						ACGGAGGCTTTGGTGGCGTTG	0.562													20	31	---	---	---	---	PASS	C	863800	C	C	863800	2	2	167	1	0	0	0	0	0	0	0	1	8631	1799	63	5		5	LARP4B	10	863800	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08		863800	134670947	196	59939										
TAF3	83860	broad.mit.edu	37	chr10	8051097	8051097	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gccggcgccctcgcagaacaGgccgaagaccccaccgccgg	13	19	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:8051097G>A	uc010qbd.1	+	5	2372	c.2372G>A	c.(2371-2373)AGG>AAG	p.R791K		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	791	Pro-rich.				maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						TCGCAGAACAGGCCGAAGAcc	0.299													4	7	---	---	---	---	PASS	A	8051097	A	A	8051097	3	1	167	1	0	0	0	0	1	0	0	0	15522	1000	35	3	2390	3	TAF3	10	8051097	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	7187297	8051097	127483650	197	59940										
MCM10	55388	broad.mit.edu	37	chr10	13214719	13214719	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gagcttgatgtccctgcgctAccaagaaccaagagggtggc	13	11	0	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:13214719A>G	uc001ima.2	+	5	650	c.549A>G	c.(547-549)CTA>CTG	p.L183L	MCM10_uc001imb.2_Silent_p.L182L|MCM10_uc001imc.2_Silent_p.L182L	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	183					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						TCCCTGCGCTACCAAGAACCA	0.458													12	29	---	---	---	---	PASS	G	13214719	G	G	13214719	2	3	167	1	0	0	0	0	0	0	0	1	9385	378	14	5		5	MCM10	10	13214719	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	5163622	13214719	122320028	198	59941										
NEBL	10529	broad.mit.edu	37	chr10	21250653	21250653	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tctgtagctcaggagtgtccGtgacgatgctgaagcccctc	12	12	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:21250653G>C	uc001iqk.2	-	4	659	c.305C>G	c.(304-306)ACG>AGG	p.T102R		NM_213569	NP_998734	O76041	NEBL_HUMAN	nebulette non-muscle isoform	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						AGGAGTGTCCGTGACGATGCT	0.443													35	78	---	---	---	---	PASS	C	21250653	C	C	21250653	3	2	167	1	0	0	0	0	1	0	0	0	10303	1145	40	4	3212	4	NEBL	10	21250653	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	8035934	21250653	114284094	199	59942										
NRP1	8829	broad.mit.edu	37	chr10	33543123	33543123	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agcttccatacatttgaaatCtgaagggaaaaacagggccc	9	9	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:33543123C>A	uc001iwx.3	-	6	1338	c.815_splice	c.e6-1	p.D272_splice	NRP1_uc001iwv.3_Splice_Site_p.D272_splice|NRP1_uc009xlz.2_Splice_Site_p.D272_splice|NRP1_uc001iww.3_Splice_Site_p.D91_splice|NRP1_uc001iwy.3_Splice_Site_p.D272_splice|NRP1_uc001iwz.2_Splice_Site_p.D272_splice|NRP1_uc001ixa.2_Splice_Site_p.D272_splice|NRP1_uc001ixb.1_Splice_Site_p.D272_splice|NRP1_uc001ixc.1_Splice_Site_p.D272_splice	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a						axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	CATTTGAAATCTGAAGGGAAA	0.398													13	24	---	---	---	---	PASS	A	33543123	A	A	33543123	5	1	167	1	0	0	0	0	0	0	1	0	10660	927	32	2	2016	2	NRP1	10	33543123	Splice_Site	SNP	C	TCGA-66-2789-01A-01D-0983-08	12292470	33543123	101991624	200	59943										
ANKRD30A	91074	broad.mit.edu	37	chr10	37505199	37505199	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tcactgtgaacaacgtacagGaaaaatggaacaaatgaaaa	8	6	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:37505199G>C	uc001iza.1	+	32	2891	c.2792G>C	c.(2791-2793)GGA>GCA	p.G931A		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	987						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						CAACGTACAGGAAAAATGGAA	0.333													13	54	---	---	---	---	PASS	C	37505199	C	C	37505199	3	2	167	1	0	0	0	0	1	0	0	0	658	1174	41	2	2918	2	ANKRD30A	10	37505199	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	3962076	37505199	98029548	201	59944										
ALOX5	240	broad.mit.edu	37	chr10	45878095	45878095	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccctgctaccgctggatcacCggcgatgtcgaggttgtcct	12	14	1	0	rs140946470		TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:45878095C>A	uc001jce.2	+	2	414	c.315C>A	c.(313-315)ACC>ACA	p.T105T	ALOX5_uc009xmt.2_Silent_p.T105T|ALOX5_uc010qfg.1_Silent_p.T105T	NM_000698	NP_000689	P09917	LOX5_HUMAN	arachidonate 5-lipoxygenase	105	PLAT.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	cytosol|nuclear envelope lumen|nuclear matrix|nuclear membrane	arachidonate 5-lipoxygenase activity|iron ion binding|lipoxygenase activity|protein binding			ovary(1)|pancreas(1)	2		Lung SC(717;0.0257)			Diethylcarbamazine(DB00711)|Hydrocortisone(DB00741)|Leflunomide(DB01097)|Masoprocol(DB00179)|Meclofenamic acid(DB00939)|Minocycline(DB01017)|Montelukast(DB00471)|Quinacrine(DB01103)|Vitamin E(DB00163)|Zileuton(DB00744)	GCTGGATCACCGGCGATGTCG	0.592													8	17	---	---	---	---	PASS	A	45878095	A	A	45878095	2	1	167	1	0	0	0	0	0	0	0	1	540	639	23	1		1	ALOX5	10	45878095	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	8372896	45878095	89656652	202	59945										
LRRC18	474354	broad.mit.edu	37	chr10	50121473	50121473	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agtccttggccatggaattgGgtgagatcagattgggaaag	15	5	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:50121473G>C	uc001jhd.2	-	1	808	c.728C>G	c.(727-729)CCC>CGC	p.P243R	WDFY4_uc001jha.3_Intron|LRRC18_uc001jhe.1_Missense_Mutation_p.P243R	NM_001006939	NP_001006940	Q8N456	LRC18_HUMAN	leucine rich repeat containing 18	243						cytoplasm				ovary(1)|pancreas(1)	2						CATGGAATTGGGTGAGATCAG	0.537													45	108	---	---	---	---	PASS	C	50121473	C	C	50121473	3	2	167	1	0	0	0	0	1	0	0	0	8974	1232	43	4	65	4	LRRC18	10	50121473	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	4243378	50121473	85413274	203	59946										
SLC18A3	6572	broad.mit.edu	37	chr10	50820151	50820151	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gagcagctcagccttggcatGggactggccaacctgctcta	12	13	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:50820151G>C	uc001jhw.2	+	1	1805	c.1365G>C	c.(1363-1365)ATG>ATC	p.M455I	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	455	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						GCCTTGGCATGGGACTGGCCA	0.637													6	23	---	---	---	---	PASS	C	50820151	C	C	50820151	3	2	167	1	0	0	0	0	1	0	0	0	14427	1348	47	4	1367	4	SLC18A3	10	50820151	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	698678	50820151	84714596	204	59947										
A1CF	29974	broad.mit.edu	37	chr10	52573785	52573785	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccacggccgcccagtcctctCactcccgcagcccctacagg	8	22	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:52573785C>A	uc001jjj.2	-	10	1367	c.1179G>T	c.(1177-1179)GTG>GTT	p.V393V	A1CF_uc010qhn.1_Silent_p.V393V|A1CF_uc001jji.2_Silent_p.V385V|A1CF_uc001jjh.2_Silent_p.V393V|A1CF_uc010qho.1_Silent_p.V401V|A1CF_uc009xov.2_Silent_p.V385V	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	393	Required for nuclear localization.				cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						CCAGTCCTCTCACTCCCGCAG	0.463													8	30	---	---	---	---	PASS	A	52573785	A	A	52573785	2	1	167	1	0	0	0	0	0	0	0	1	2	813	29	2		2	A1CF	10	52573785	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	1753634	52573785	82960962	205	59948										
CTNNA3	29119	broad.mit.edu	37	chr10	67680202	67680202	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tctggcttctctcttttaatCaagggtttttttgcaggagc	9	8	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:67680202C>A	uc009xpn.1	-	18	2697	c.2574G>T	c.(2572-2574)TTG>TTT	p.L858F	CTNNA3_uc001jmw.2_Missense_Mutation_p.L858F	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	858					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						CTCTTTTAATCAAGGGTTTTT	0.473													14	53	---	---	---	---	PASS	A	67680202	A	A	67680202	3	1	167	1	0	0	0	0	1	0	0	0	4014	825	29	2	117	2	CTNNA3	10	67680202	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	15106417	67680202	67854545	206	59949										
RGR	5995	broad.mit.edu	37	chr10	86007505	86007505	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccacatccagccttctccggTaccagccccctccccagtcc	5	23	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:86007505T>C	uc001kdc.1	+	2	274	c.236_splice	c.e2+2	p.R79_splice	RGR_uc001kdb.1_Splice_Site_p.P62_splice|RGR_uc001kdd.1_Splice_Site_p.R79_splice|RGR_uc001kde.1_Splice_Site_p.R79_splice	NM_001012720	NP_001012738	P47804	RGR_HUMAN	retinal G-protein coupled receptor isoform 2						phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity|protein binding			ovary(1)	1						CCTTCTCCGGTACCAGCCCCC	0.637													9	31	---	---	---	---	PASS	C	86007505	C	C	86007505	5	2	167	1	0	0	0	0	0	0	1	0	13291	1652	57	5	244	5	RGR	10	86007505	Splice_Site	SNP	T	TCGA-66-2789-01A-01D-0983-08	18327303	86007505	49527242	207	59950										
ZNF518A	9849	broad.mit.edu	37	chr10	97918053	97918053	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cgtaggttttcaggaacagcAgtgtatgaaaaccctcaaag	10	8	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:97918053A>G	uc001klp.2	+	6	2831	c.1974A>G	c.(1972-1974)GCA>GCG	p.A658A	ZNF518A_uc001klo.1_Silent_p.A128A|ZNF518A_uc001klq.2_Silent_p.A658A|ZNF518A_uc001klr.2_Silent_p.A658A	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	658					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		CAGGAACAGCAGTGTATGAAA	0.373													22	45	---	---	---	---	PASS	G	97918053	G	G	97918053	2	3	167	1	0	0	0	0	0	0	0	1	17959	175	7	5		5	ZNF518A	10	97918053	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	11910548	97918053	37616694	208	59951										
LOXL4	84171	broad.mit.edu	37	chr10	100010855	100010855	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtgcagccagacccggtgccCatcatacttgcagcggcact	11	15	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:100010855C>T	uc001kpa.1	-	14	2318	c.2167G>A	c.(2167-2169)GGG>AGG	p.G723R		NM_032211	NP_115587	Q96JB6	LOXL4_HUMAN	lysyl oxidase-like 4 precursor	723	Lysyl-oxidase like.					extracellular space|membrane	copper ion binding|protein binding|scavenger receptor activity			ovary(3)|breast(1)|skin(1)	5		Colorectal(252;0.234)		Epithelial(162;2.14e-11)|all cancers(201;2.49e-09)		ACCCGGTGCCCATCATACTTG	0.522													6	14	---	---	---	---	PASS	T	100010855	T	T	100010855	3	4	167	1	0	0	0	0	1	0	0	0	8902	594	21	3	111	3	LOXL4	10	100010855	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2092802	100010855	35523892	209	59952										
PDZD7	79955	broad.mit.edu	37	chr10	102783315	102783315	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cccatggtggtgctctccagGctcagcccattcacctccgt	9	17	3	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:102783315G>T	uc001kso.1	-	4	635	c.420C>A	c.(418-420)AGC>AGA	p.S140R	PDZD7_uc001ksn.2_Missense_Mutation_p.S140R	NM_024895	NP_079171	Q9H5P4	PDZD7_HUMAN	PDZ domain containing 7	140	PDZ 1.					cilium|nucleus	protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3				Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		TGCTCTCCAGGCTCAGCCCAT	0.657													8	21	---	---	---	---	PASS	T	102783315	T	T	102783315	3	4	167	1	0	0	0	0	1	0	0	0	11704	1194	42	3	1161	3	PDZD7	10	102783315	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	2772460	102783315	32751432	210	59953										
SORCS1	114815	broad.mit.edu	37	chr10	108337279	108337279	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agatgagtcaccaggttgagTagaaggggagggaggggagg	21	3	1	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:108337279T>C	uc001kym.2	-	26	3414	c.3406A>G	c.(3406-3408)ACT>GCT	p.T1136A	SORCS1_uc001kyl.2_Intron|SORCS1_uc009xxs.2_Intron|SORCS1_uc001kyn.1_3'UTR	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	1136	Cytoplasmic (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CCAGGTTGAGTAGAAGGGGAG	0.493													23	42	---	---	---	---	PASS	C	108337279	C	C	108337279	3	2	167	1	0	0	0	0	1	0	0	0	14930	1638	57	5	173	5	SORCS1	10	108337279	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	5553964	108337279	27197468	211	59954										
PNLIPRP1	5407	broad.mit.edu	37	chr10	118354329	118354329	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acacacaggctgccaacaacGtgcgagtggtgggcgcccag	14	13	0	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:118354329G>A	uc001lco.1	+	5	436	c.418G>A	c.(418-420)GTG>ATG	p.V140M	PNLIPRP1_uc001lcp.2_Missense_Mutation_p.V140M|PNLIPRP1_uc009xys.1_RNA	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	140					lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		TGCCAACAACGTGCGAGTGGT	0.602													9	17	---	---	---	---	PASS	A	118354329	A	A	118354329	3	1	167	1	0	0	0	0	1	0	0	0	12150	1145	40	1	432	1	PNLIPRP1	10	118354329	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	10017050	118354329	17180418	212	59955										
RAB11FIP2	22841	broad.mit.edu	37	chr10	119805520	119805520	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctggctcaagggttttctcaGctacagaggtggagtacttt	12	8	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:119805520G>C	uc001ldj.1	-	1	595	c.155C>G	c.(154-156)GCT>GGT	p.A52G	RAB11FIP2_uc009xyz.1_Missense_Mutation_p.A52G|CASC2_uc001ldm.3_5'Flank|CASC2_uc009xzc.2_5'Flank|CASC2_uc001ldk.2_5'Flank|CASC2_uc009xza.2_5'Flank|CASC2_uc009xzb.2_5'Flank	NM_014904	NP_055719	Q7L804	RFIP2_HUMAN	RAB11 family interacting protein 2	52	C2.|Necessary for its cellular translocation to the plasma membrane.				protein transport	plasma membrane|recycling endosome membrane	protein homodimerization activity				0		Colorectal(252;0.235)		all cancers(201;0.0238)		GGTTTTCTCAGCTACAGAGGT	0.448													16	35	---	---	---	---	PASS	C	119805520	C	C	119805520	3	2	167	1	0	0	0	0	1	0	0	0	12894	971	34	4	1403	4	RAB11FIP2	10	119805520	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1451191	119805520	15729227	213	59956										
C10orf120	399814	broad.mit.edu	37	chr10	124457592	124457592	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctttcttatcttggttggcaTcatcacaattatgggtgtca	8	8	5	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:124457592T>A	uc001lgn.2	-	3	697	c.665A>T	c.(664-666)GAT>GTT	p.D222V		NM_001010912	NP_001010912	Q5SQS8	CJ120_HUMAN	hypothetical protein LOC399814	222										kidney(1)	1		all_neural(114;0.169)|Glioma(114;0.222)				TTGGTTGGCATCATCACAATT	0.398													12	23	---	---	---	---	PASS	A	124457592	A	A	124457592	3	1	167	1	0	0	0	0	1	0	0	0	1590	1435	50	5	346	5	C10orf120	10	124457592	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	4652072	124457592	11077155	214	59957										
DOCK1	1793	broad.mit.edu	37	chr10	129172398	129172398	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	taaaactcgttgtgcgcttaAtggaaaggcttttggattat	10	5	0	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr10:129172398A>T	uc001ljt.2	+	35	3596	c.3532A>T	c.(3532-3534)ATG>TTG	p.M1178L	DOCK1_uc010qun.1_Missense_Mutation_p.M1199L|DOCK1_uc009yaq.2_Missense_Mutation_p.M173L	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	1178	DHR-2.				apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		TGTGCGCTTAATGGAAAGGCT	0.423													10	17	---	---	---	---	PASS	T	129172398	T	T	129172398	3	4	167	1	0	0	0	0	1	0	0	0	4684	101	4	5	3670	5	DOCK1	10	129172398	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	4714806	129172398	6362349	215	59958										
OR51A4	401666	broad.mit.edu	37	chr11	4967961	4967961	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gttgtggatggctaggaatcTatcaaatgacatgatcagga	12	5	3	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:4967961T>C	uc010qys.1	-	1	370	c.370A>G	c.(370-372)AGA>GGA	p.R124G		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCTAGGAATCTATCAAATGAC	0.448													49	77	---	---	---	---	PASS	C	4967961	C	C	4967961	3	2	167	1	0	0	0	0	1	0	0	0	11087	1530	53	5	573	5	OR51A4	11	4967961	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08		4967961	130038555	216	59959										
TRIM22	10346	broad.mit.edu	37	chr11	5719761	5719761	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggaggttgaggggatcgtcaGtagagatgctgcaggtaaga	18	4	1	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:5719761G>C	uc001mbr.2	+	4	1013	c.736G>C	c.(736-738)GTA>CTA	p.V246L	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Missense_Mutation_p.V214L|TRIM22_uc009yes.2_Missense_Mutation_p.V242L|TRIM22_uc010qzm.1_Missense_Mutation_p.V74L|TRIM22_uc009yeu.2_Missense_Mutation_p.V57L	NM_006074	NP_006065	Q8IYM9	TRI22_HUMAN	tripartite motif-containing 22	246	Potential.				immune response|interspecies interaction between organisms|protein trimerization|response to virus	Cajal body|Golgi apparatus|nuclear speck	ligase activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)		GGGATCGTCAGTAGAGATGCT	0.547													6	12	---	---	---	---	PASS	C	5719761	C	C	5719761	3	2	167	1	0	0	0	0	1	0	0	0	16493	1029	36	4	746	4	TRIM22	11	5719761	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	751800	5719761	129286755	217	59960										
OR52L1	338751	broad.mit.edu	37	chr11	6007601	6007601	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggcctatgatggtggcttggCagaagataagttttcccaac	12	8	0	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:6007601C>A	uc001mcd.2	-	1	615	c.560G>T	c.(559-561)TGC>TTC	p.C187F		NM_001005173	NP_001005173	Q8NGH7	O52L1_HUMAN	olfactory receptor, family 52, subfamily L,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.98e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGTGGCTTGGCAGAAGATAAG	0.493													31	48	---	---	---	---	PASS	A	6007601	A	A	6007601	3	1	167	1	0	0	0	0	1	0	0	0	11125	710	25	3	433	3	OR52L1	11	6007601	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	287840	6007601	128998915	218	59961										
C11orf16	56673	broad.mit.edu	37	chr11	8947056	8947056	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccgtttctcttccaatacctCcactcaggctggcagaggcc	8	16	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:8947056C>G	uc001mhb.3	-	5	1282	c.1158G>C	c.(1156-1158)TGG>TGC	p.W386C	C11orf16_uc001mhc.3_Missense_Mutation_p.W386C	NM_020643	NP_065694	Q9NQ32	CK016_HUMAN	hypothetical protein LOC56673	386										upper_aerodigestive_tract(1)|pancreas(1)	2				Epithelial(150;4.11e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0234)		TCCAATACCTCCACTCAGGCT	0.592													13	40	---	---	---	---	PASS	G	8947056	G	G	8947056	3	3	167	1	0	0	0	0	1	0	0	0	1631	856	30	2	253	2	C11orf16	11	8947056	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2939455	8947056	126059460	219	59962										
ABCC8	6833	broad.mit.edu	37	chr11	17464298	17464298	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtatagatggcaaaggccctGaggctggtcatctccttcct	11	11	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:17464298G>C	uc001mnc.2	-	10	1725	c.1599C>G	c.(1597-1599)CTC>CTG	p.L533L	ABCC8_uc010rcy.1_Silent_p.L532L	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	533	Cytoplasmic (By similarity).|ABC transmembrane type-1 1.				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)	CAAAGGCCCTGAGGCTGGTCA	0.607													10	29	---	---	---	---	PASS	C	17464298	C	C	17464298	2	2	167	1	0	0	0	0	0	0	0	1	58	1277	45	2		2	ABCC8	11	17464298	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	8517242	17464298	117542218	220	59963										
ANO5	203859	broad.mit.edu	37	chr11	22249067	22249067	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgcacaattcagcagacatCggcaggagctcttcctcatc	8	14	3	1	rs149040903		TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:22249067C>A	uc001mqi.2	+	7	900	c.583C>A	c.(583-585)CGG>AGG	p.R195R	ANO5_uc001mqj.2_Silent_p.R194R	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	195	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						CAGCAGACATCGGCAGGAGCT	0.453													21	47	---	---	---	---	PASS	A	22249067	A	A	22249067	2	1	167	1	0	0	0	0	0	0	0	1	700	875	31	2		2	ANO5	11	22249067	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	4784769	22249067	112757449	221	59964										
BBOX1	8424	broad.mit.edu	37	chr11	27148880	27148880	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aactggcgcttacttcatggCcgacgtagctatgaagcagg	12	10	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:27148880C>T	uc001mre.1	+	9	1412	c.1044C>T	c.(1042-1044)GGC>GGT	p.G348G	BBOX1_uc009yih.1_Silent_p.G348G|BBOX1_uc001mrg.1_Silent_p.G348G	NM_003986	NP_003977	O75936	BODG_HUMAN	gamma-butyrobetaine dioxygenase	348					carnitine biosynthetic process	actin cytoskeleton|cytosol|intracellular membrane-bounded organelle	gamma-butyrobetaine dioxygenase activity|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1					Succinic acid(DB00139)|Vitamin C(DB00126)	TACTTCATGGCCGACGTAGCT	0.408													14	28	---	---	---	---	PASS	T	27148880	T	T	27148880	2	4	167	1	0	0	0	0	0	0	0	1	1334	726	26	3		3	BBOX1	11	27148880	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	4899813	27148880	107857636	222	59965										
OR5D18	219438	broad.mit.edu	37	chr11	55587801	55587801	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atcctcaagatgcgttcagtCagtgggcgccgcaaagcctt	11	12	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:55587801C>G	uc010rin.1	+	1	696	c.696C>G	c.(694-696)GTC>GTG	p.V232V		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				TGCGTTCAGTCAGTGGGCGCC	0.493													27	67	---	---	---	---	PASS	G	55587801	G	G	55587801	2	3	167	1	0	0	0	0	0	0	0	1	11157	813	29	2		2	OR5D18	11	55587801	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	28438921	55587801	79418715	223	59966										
OR5J2	282775	broad.mit.edu	37	chr11	55944513	55944513	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtagccatgtctgatagaaaGtgtgtggagcttgtcacagg	14	6	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:55944513G>T	uc010rjb.1	+	1	420	c.420G>T	c.(418-420)AAG>AAT	p.K140N		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					CTGATAGAAAGTGTGTGGAGC	0.453													17	52	---	---	---	---	PASS	T	55944513	T	T	55944513	3	4	167	1	0	0	0	0	1	0	0	0	11165	1020	36	3	422	3	OR5J2	11	55944513	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	356712	55944513	79062003	224	59967										
OR5T2	219464	broad.mit.edu	37	chr11	56000524	56000524	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agtacaaataaggtaacttcAgtgacattcttcatgttgaa	7	6	3	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:56000524A>G	uc010rjc.1	-	1	138	c.138T>C	c.(136-138)ACT>ACC	p.T46T		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	46	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AGGTAACTTCAGTGACATTCT	0.363													16	45	---	---	---	---	PASS	G	56000524	G	G	56000524	2	3	167	1	0	0	0	0	0	0	0	1	11182	175	7	5		5	OR5T2	11	56000524	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	56011	56000524	79005992	225	59968										
OR5M9	390162	broad.mit.edu	37	chr11	56230145	56230145	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cccataaaacatagaaacagCcgtcaagtgggacccacagg	9	12	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:56230145C>A	uc010rjj.1	-	1	733	c.733G>T	c.(733-735)GCT>TCT	p.A245S		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					ATAGAAACAGCCGTCAAGTGG	0.532													7	20	---	---	---	---	PASS	A	56230145	A	A	56230145	3	1	167	1	0	0	0	0	1	0	0	0	11177	739	26	3	201	3	OR5M9	11	56230145	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	229621	56230145	78776371	226	59969										
OR9Q2	219957	broad.mit.edu	37	chr11	57958617	57958617	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tggtgatcttggtatcctacCtgtttatcattgtggccatc	9	9	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:57958617C>G	uc010rka.1	+	1	655	c.655C>G	c.(655-657)CTG>GTG	p.L219V		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	219	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				GGTATCCTACCTGTTTATCAT	0.522													11	47	---	---	---	---	PASS	G	57958617	G	G	57958617	3	3	167	1	0	0	0	0	1	0	0	0	11256	680	24	4	657	4	OR9Q2	11	57958617	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1728472	57958617	77047899	227	59970										
OR1S1	219959	broad.mit.edu	37	chr11	57982498	57982498	+	Missense_Mutation	SNP	G	C	C													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tccaactcagtccccaaaatGctggtgaatattcaaaccaa							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:57982498G>C	uc010rkc.1	+	1	282	c.282G>C	c.(280-282)ATG>ATC	p.M94I		NM_001004458	NP_001004458	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Breast(21;0.0589)				TCCCCAAAATGCTGGTGAATA	0.408													22	117	---	---	---	---	PASS	C	57982498	C	C	57982498	3	2	167	1	0	0	0	0	1	0	0	0	10972	1319	46	4	284	4	OR1S1	11	57982498	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	23881	57982498	77024018	228	59971	1055	2								
OR1S1	219959	broad.mit.edu	37	chr11	57982499	57982499	+	Silent	SNP	C	T	T													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccaactcagtccccaaaatgCtggtgaatattcaaaccaag							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:57982499C>T	uc010rkc.1	+	1	283	c.283C>T	c.(283-285)CTG>TTG	p.L95L		NM_001004458	NP_001004458	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S,	95	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Breast(21;0.0589)				CCCCAAAATGCTGGTGAATAT	0.403													20	117	---	---	---	---	PASS	T	57982499	T	T	57982499	2	4	167	1	0	0	0	0	0	0	0	1	10972	796	28	3		3	OR1S1	11	57982499	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	1	57982499	77024017	229	59972	1055	2								
OR5B21	219968	broad.mit.edu	37	chr11	58274962	58274962	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	taaggatgaccaggagggtgAaaaagacgttgaagcctgcc	14	7	0	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:58274962A>T	uc010rki.1	-	1	617	c.617T>A	c.(616-618)TTC>TAC	p.F206Y		NM_001005218	NP_001005218	A6NL26	OR5BL_HUMAN	olfactory receptor, family 5, subfamily B,	206	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CAGGAGGGTGAAAAAGACGTT	0.473													12	31	---	---	---	---	PASS	T	58274962	T	T	58274962	3	4	167	1	0	0	0	0	1	0	0	0	11151	246	9	5	314	5	OR5B21	11	58274962	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	292463	58274962	76731554	230	59973										
DAGLA	747	broad.mit.edu	37	chr11	61490431	61490431	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	actgccaagaatgtcaccctCggtacgtctgggtgaggcct	12	12	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:61490431C>G	uc001nsa.2	+	4	519	c.408C>G	c.(406-408)CTC>CTG	p.L136L		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	136	Extracellular (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		ATGTCACCCTCGGTACGTCTG	0.592													14	47	---	---	---	---	PASS	G	61490431	G	G	61490431	2	3	167	1	0	0	0	0	0	0	0	1	4226	898	31	2		2	DAGLA	11	61490431	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	3215469	61490431	73516085	231	59974										
FADS3	3995	broad.mit.edu	37	chr11	61645000	61645000	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	caccgcccactgcatgcacaCcagcatgtacgccagatttt	7	16	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:61645000C>A	uc001nsm.2	-	7	1021	c.868G>T	c.(868-870)GTG>TTG	p.V290L	FADS3_uc001nsn.2_Missense_Mutation_p.V166L	NM_021727	NP_068373	Q9Y5Q0	FADS3_HUMAN	fatty acid desaturase 3	290	Lumenal (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|membrane fraction	heme binding|oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water			ovary(1)|pancreas(1)	2						TGCATGCACACCAGCATGTAC	0.637													9	24	---	---	---	---	PASS	A	61645000	A	A	61645000	3	1	167	1	0	0	0	0	1	0	0	0	5367	507	18	3	493	3	FADS3	11	61645000	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	154569	61645000	73361516	232	59975										
PPP2R5B	5526	broad.mit.edu	37	chr11	64695280	64695280	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	actctgccactcagatctcaGtgaatatcttccggactctg	7	13	5	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:64695280G>A	uc001oby.2	+	4	988	c.403G>A	c.(403-405)GTG>ATG	p.V135M	PPP2R5B_uc001obz.2_Missense_Mutation_p.V135M	NM_006244	NP_006235	Q15173	2A5B_HUMAN	beta isoform of regulatory subunit B56, protein	135					signal transduction	cytoplasm|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(2)	2						TCAGATCTCAGTGAATATCTT	0.468													19	40	---	---	---	---	PASS	A	64695280	A	A	64695280	3	1	167	1	0	0	0	0	1	0	0	0	12393	1029	36	3	413	3	PPP2R5B	11	64695280	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	3050280	64695280	70311236	233	59976										
C11orf2	738	broad.mit.edu	37	chr11	64878989	64878989	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggacgaagtggtggcctctgCtgccctgcgctgcccagacc	14	15	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:64878989C>T	uc001ocr.1	+	10	2319	c.2279C>T	c.(2278-2280)GCT>GTT	p.A760V	TM7SF2_uc001oct.2_5'Flank|TM7SF2_uc010rny.1_5'Flank|TM7SF2_uc001ocu.2_5'Flank|TM7SF2_uc001ocv.2_5'Flank|C11orf2_uc001ocs.1_Missense_Mutation_p.A636V	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	760					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						GTGGCCTCTGCTGCCCTGCGC	0.637													13	20	---	---	---	---	PASS	T	64878989	T	T	64878989	3	4	167	1	0	0	0	0	1	0	0	0	1633	797	28	3	2317	3	C11orf2	11	64878989	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	183709	64878989	70127527	234	59977										
TMEM134	80194	broad.mit.edu	37	chr11	67234994	67234994	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gcagcaggtgttgtaggagcGctgggtgctgctgctgatgg	19	7	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:67234994G>C	uc001olq.1	-	3	375	c.307C>G	c.(307-309)CGC>GGC	p.R103G	TMEM134_uc001olp.1_Missense_Mutation_p.R94G|TMEM134_uc001olr.1_Missense_Mutation_p.R103G|TMEM134_uc001ols.1_RNA|TMEM134_uc001olt.1_RNA|TMEM134_uc010rpt.1_Missense_Mutation_p.R94G|TMEM134_uc009yrx.2_Missense_Mutation_p.R103G|TMEM134_uc010rpu.1_Missense_Mutation_p.S97R|TMEM134_uc001olu.3_Missense_Mutation_p.S106R	NM_025124	NP_079400	Q9H6X4	TM134_HUMAN	transmembrane protein 134 isoform a	103	Cytoplasmic (Potential).					integral to membrane					0						TTGTAGGAGCGCTGGGTGCTG	0.682													4	35	---	---	---	---	PASS	C	67234994	C	C	67234994	3	2	167	1	0	0	0	0	1	0	0	0	16047	1087	38	4	300	4	TMEM134	11	67234994	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	2356005	67234994	67771522	235	59978										
C2CD3	26005	broad.mit.edu	37	chr11	73785376	73785376	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	caaatcagcagggccctcctGcgtcaggcggacttcagctg	12	14	3	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:73785376G>A	uc001ouu.2	-	24	5100	c.4873C>T	c.(4873-4875)CAG>TAG	p.Q1625*	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1625	C2 2.			Q -> R (in Ref. 1; BAC86334).		centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					GGGCCCTCCTGCGTCAGGCGG	0.567													5	44	---	---	---	---	PASS	A	73785376	A	A	73785376	4	1	167	1	0	0	0	0	0	1	0	0	2154	1328	46	3	1050	3	C2CD3	11	73785376	Nonsense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	6550382	73785376	61221140	236	59979										
CCDC89	220388	broad.mit.edu	37	chr11	85397009	85397009	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tcgctcctctcctcctctgaCagtccccggaggtttgccaa	8	17	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:85397009C>A	uc001pau.1	-	1	312	c.165G>T	c.(163-165)CTG>CTT	p.L55L		NM_152723	NP_689936	Q8N998	CCD89_HUMAN	coiled-coil domain containing 89	55	Potential.					cytoplasm|nucleus					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				CCTCCTCTGACAGTCCCCGGA	0.547													13	40	---	---	---	---	PASS	A	85397009	A	A	85397009	2	1	167	1	0	0	0	0	0	0	0	1	2866	465	17	3		3	CCDC89	11	85397009	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	11611633	85397009	49609507	237	59980										
HEPHL1	341208	broad.mit.edu	37	chr11	93826744	93826744	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggtggtttacagggaatataCggatggagaatttgtggaga	16	2	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:93826744C>A	uc001pep.2	+	13	2529	c.2372C>A	c.(2371-2373)ACG>AAG	p.T791K	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	791	Plastocyanin-like 5.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				AGGGAATATACGGATGGAGAA	0.463													60	99	---	---	---	---	PASS	A	93826744	A	A	93826744	3	1	167	1	0	0	0	0	1	0	0	0	7055	536	19	1	2422	1	HEPHL1	11	93826744	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	8429735	93826744	41179772	238	59981										
HEPHL1	341208	broad.mit.edu	37	chr11	93836182	93836182	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctattcaacagtaaactttgTgaaggtaaggtggagaaagc	11	5	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:93836182T>A	uc001pep.2	+	15	2835	c.2678T>A	c.(2677-2679)GTG>GAG	p.V893E	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	893	Plastocyanin-like 5.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				GTAAACTTTGTGAAGGTAAGG	0.378													8	59	---	---	---	---	PASS	A	93836182	A	A	93836182	3	1	167	1	0	0	0	0	1	0	0	0	7055	1696	59	5	2736	5	HEPHL1	11	93836182	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	9438	93836182	41170334	239	59982										
CNTN5	53942	broad.mit.edu	37	chr11	99827644	99827644	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctttatatttctaaagtccaAacatcagatgttggcagcta	6	8	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:99827644A>T	uc001pga.2	+	8	1119	c.780A>T	c.(778-780)CAA>CAT	p.Q260H	CNTN5_uc009ywv.1_Missense_Mutation_p.Q260H|CNTN5_uc001pfz.2_Missense_Mutation_p.Q260H|CNTN5_uc001pgb.2_Missense_Mutation_p.Q186H	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	260	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CTAAAGTCCAAACATCAGATG	0.458													20	31	---	---	---	---	PASS	T	99827644	T	T	99827644	3	4	167	1	0	0	0	0	1	0	0	0	3644	11	1	5	802	5	CNTN5	11	99827644	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	5991462	99827644	35178872	240	59983										
ANGPTL5	253935	broad.mit.edu	37	chr11	101771162	101771162	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaaatacaaaaaaattaaccTagaagatctccaaatccatc	3	9	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:101771162T>C	uc001pgl.2	-	7	1256	c.660A>G	c.(658-660)CTA>CTG	p.L220L		NM_178127	NP_835228	Q86XS5	ANGL5_HUMAN	angiopoietin-like 5 precursor	220	Fibrinogen C-terminal.				signal transduction	extracellular space	receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.043)		BRCA - Breast invasive adenocarcinoma(274;0.0328)		AAAATTAACCTAGAAGATCTC	0.348													19	28	---	---	---	---	PASS	C	101771162	C	C	101771162	2	2	167	1	0	0	0	0	0	0	0	1	617	1536	53	5		5	ANGPTL5	11	101771162	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	1943518	101771162	33235354	241	59984										
ZC3H12C	85463	broad.mit.edu	37	chr11	110034020	110034020	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tcatgccccctgatgaccctCttggcagacatggccccagt	9	16	2	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:110034020C>A	uc009yxw.2	+	5	1222	c.1171C>A	c.(1171-1173)CTT>ATT	p.L391I	ZC3H12C_uc010rwc.1_Missense_Mutation_p.L392I|ZC3H12C_uc010rwd.1_Missense_Mutation_p.L392I|ZC3H12C_uc001pkr.3_Missense_Mutation_p.L360I	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	391							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)		TGATGACCCTCTTGGCAGACA	0.393													4	35	---	---	---	---	PASS	A	110034020	A	A	110034020	3	1	167	1	0	0	0	0	1	0	0	0	17560	913	32	2	1189	2	ZC3H12C	11	110034020	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	8262858	110034020	24972496	242	59985										
TMPRSS5	80975	broad.mit.edu	37	chr11	113570795	113570795	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cagtctggcctactgggatgCtgctggtctccaggctctgc	13	13	3	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:113570795C>A	uc001poc.3	-	2	221	c.99G>T	c.(97-99)CAG>CAT	p.Q33H	TMPRSS5_uc009yys.2_5'UTR|TMPRSS5_uc009yyt.2_Intron|TMPRSS5_uc001pod.3_Intron|TMPRSS5_uc010rww.1_Missense_Mutation_p.Q23H|TMPRSS5_uc009yyu.2_Intron|TMPRSS5_uc010rwx.1_Intron	NM_030770	NP_110397	Q9H3S3	TMPS5_HUMAN	transmembrane protease, serine 5	33	Cytoplasmic (Potential).				proteolysis	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(1)	1		all_cancers(61;2.71e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.75e-06)|Epithelial(105;6.34e-05)|all cancers(92;0.000502)		TACTGGGATGCTGCTGGTCTC	0.617													3	9	---	---	---	---	PASS	A	113570795	A	A	113570795	3	1	167	1	0	0	0	0	1	0	0	0	16247	796	28	3	1322	3	TMPRSS5	11	113570795	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	3536775	113570795	21435721	243	59986										
CLDN25	644672	broad.mit.edu	37	chr11	113650742	113650742	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tccttcttgtctctgccccaGgagctccaggtagcccgcat	9	16	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:113650742G>C	uc009yyw.1	+	1	225	c.225G>C	c.(223-225)CAG>CAC	p.Q75H		NM_001101389	NP_001094859	C9JDP6	CLD25_HUMAN	claudin 25	75	Extracellular (Potential).					integral to membrane|tight junction	structural molecule activity				0						CTCTGCCCCAGGAGCTCCAGG	0.562													47	112	---	---	---	---	PASS	C	113650742	C	C	113650742	3	2	167	1	0	0	0	0	1	0	0	0	3485	991	35	4	227	4	CLDN25	11	113650742	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	79947	113650742	21355774	244	59987										
APOA4	337	broad.mit.edu	37	chr11	116692455	116692455	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cagccgggccctcagctcctCcagctccttcccaatctcct	6	21	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:116692455C>T	uc001pps.1	-	3	423	c.319G>A	c.(319-321)GAG>AAG	p.E107K		NM_000482	NP_000473			apolipoprotein A-IV precursor												0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		ctcagctcctccagctccttc	0.025													4	10	---	---	---	---	PASS	T	116692455	T	T	116692455	3	4	167	1	0	0	0	0	1	0	0	0	783	864	30	2	875	2	APOA4	11	116692455	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	3041713	116692455	18314061	245	59988										
DSCAML1	57453	broad.mit.edu	37	chr11	117308664	117308664	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgatgcgcccagagcccacgCtgttcttggctgccagcttc	11	15	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:117308664C>T	uc001prh.1	-	25	4561	c.4559G>A	c.(4558-4560)AGC>AAC	p.S1520N		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1460	Fibronectin type-III 5.|Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		AGAGCCCACGCTGTTCTTGGC	0.637													9	25	---	---	---	---	PASS	T	117308664	T	T	117308664	3	4	167	1	0	0	0	0	1	0	0	0	4769	797	28	3	1818	3	DSCAML1	11	117308664	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	616209	117308664	17697852	246	59989										
OR6X1	390260	broad.mit.edu	37	chr11	123624810	123624810	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gagctcagggccagctgcagGcagagtttgctggtcatgat	15	9	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr11:123624810G>T	uc010rzy.1	-	1	417	c.417C>A	c.(415-417)TGC>TGA	p.C139*		NM_001005188	NP_001005188	Q8NH79	OR6X1_HUMAN	olfactory receptor, family 6, subfamily X,	139	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		CCAGCTGCAGGCAGAGTTTGC	0.522													21	78	---	---	---	---	PASS	T	123624810	T	T	123624810	4	4	167	1	0	0	0	0	0	1	0	0	11212	1195	42	3	523	3	OR6X1	11	123624810	Nonsense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	6316146	123624810	11381706	247	59990										
SLC6A13	6540	broad.mit.edu	37	chr12	330173	330173	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggtcctgggggtggcgggagCcgagggtcctgctgggttcc	21	10	0	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:330173C>A	uc001qic.1	-	15	1803	c.1750G>T	c.(1750-1752)GCT>TCT	p.A584S	SLC6A13_uc009zdj.1_Missense_Mutation_p.A574S|SLC6A13_uc010sdl.1_Missense_Mutation_p.A492S	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	584	Cytoplasmic (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			GTGGCGGGAGCCGAGGGTCCT	0.657													8	11	---	---	---	---	PASS	A	330173	A	A	330173	3	1	167	1	0	0	0	0	1	0	0	0	14676	739	26	3	62	3	SLC6A13	12	330173	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08		330173	133521722	248	59991										
VWF	7450	broad.mit.edu	37	chr12	6061009	6061009	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agatattagtaacgcactcaCatgtgtcacagcaggtgcct	9	10	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:6061009C>A	uc001qnn.1	-	50	8405	c.8155_splice	c.e50+1	p.C2719_splice	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein						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)	AACGCACTCACATGTGTCACA	0.448													12	28	---	---	---	---	PASS	A	6061009	A	A	6061009	5	1	167	1	0	0	0	0	0	0	1	0	17243	492	17	3	297	3	VWF	12	6061009	Splice_Site	SNP	C	TCGA-66-2789-01A-01D-0983-08	5730836	6061009	127790886	249	59992										
USP5	8078	broad.mit.edu	37	chr12	6964980	6964980	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaagaagcccacgcggctggCtattggtgagcaccgctgca	14	12	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:6964980C>T	uc001qri.3	+	3	358	c.299C>T	c.(298-300)GCT>GTT	p.A100V	USP5_uc001qrh.3_Missense_Mutation_p.A100V	NM_001098536	NP_001092006	P45974	UBP5_HUMAN	ubiquitin specific peptidase 5 isoform 1	100					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process	lysosome	cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			lung(2)|breast(1)|skin(1)	4						ACGCGGCTGGCTATTGGTGAG	0.577													12	29	---	---	---	---	PASS	T	6964980	T	T	6964980	3	4	167	1	0	0	0	0	1	0	0	0	17078	797	28	3	309	3	USP5	12	6964980	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	903971	6964980	126886915	250	59993										
C1R	715	broad.mit.edu	37	chr12	7187955	7187955	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gatgcccgtggccacccagcGatcagtgttcgggtccctta	12	14	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:7187955G>A	uc010sfy.1	-	10	2058	c.1999C>T	c.(1999-2001)CGC>TGC	p.R667C		NM_001733	NP_001724	P00736	C1R_HUMAN	complement component 1, r subcomponent	667	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity				0					Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GCCACCCAGCGATCAGTGTTC	0.567													10	41	---	---	---	---	PASS	A	7187955	A	A	7187955	3	1	167	1	0	0	0	0	1	0	0	0	1972	1058	37	2	122	2	C1R	12	7187955	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	222975	7187955	126663940	251	59994										
CLEC4C	170482	broad.mit.edu	37	chr12	7882298	7882298	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggaaatttattatcgcacaaCgctcatcaaggttattgggt	9	7	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:7882298C>A	uc001qtg.1	-	6	710	c.536G>T	c.(535-537)CGT>CTT	p.R179L	CLEC4C_uc001qth.1_Missense_Mutation_p.R179L|CLEC4C_uc001qti.1_Missense_Mutation_p.R148L	NM_130441	NP_569708	Q8WTT0	CLC4C_HUMAN	C-type lectin domain family 4, member C isoform	179	Extracellular (Potential).|C-type lectin.				innate immune response	integral to membrane	sugar binding			ovary(2)|skin(1)	3				Kidney(36;0.0915)		TATCGCACAACGCTCATCAAG	0.418													17	39	---	---	---	---	PASS	A	7882298	A	A	7882298	3	1	167	1	0	0	0	0	1	0	0	0	3513	536	19	1	109	1	CLEC4C	12	7882298	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	694343	7882298	125969597	252	59995										
GRIN2B	2904	broad.mit.edu	37	chr12	14019093	14019093	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgcctgacacggccaggacgGccaacaccaaccagaacttg	10	15	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:14019093G>T	uc001rbt.2	-	2	229	c.50C>A	c.(49-51)GCC>GAC	p.A17D		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	17					response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GGCCAGGACGGCCAACACCAA	0.557													9	31	---	---	---	---	PASS	T	14019093	T	T	14019093	3	4	167	1	0	0	0	0	1	0	0	0	6780	1203	42	3	4452	3	GRIN2B	12	14019093	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	6136795	14019093	119832802	253	59996										
PLEKHA5	54477	broad.mit.edu	37	chr12	19473549	19473549	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aaatacagacctgaagaagtAgatattgatgtaagtattag	9	3	0	5	rs146976787		TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:19473549A>G	uc001reb.2	+	13	1985	c.1899A>G	c.(1897-1899)GTA>GTG	p.V633V	PLEKHA5_uc010sie.1_Silent_p.V736V|PLEKHA5_uc001rea.2_Silent_p.V691V|PLEKHA5_uc009zin.2_Silent_p.V391V|PLEKHA5_uc010sif.1_Silent_p.V564V|PLEKHA5_uc010sig.1_Silent_p.V552V|PLEKHA5_uc010sih.1_Silent_p.V525V|PLEKHA5_uc001rec.1_Silent_p.V379V|PLEKHA5_uc009zio.2_5'Flank	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	633							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					CTGAAGAAGTAGATATTGATG	0.308													22	67	---	---	---	---	PASS	G	19473549	G	G	19473549	2	3	167	1	0	0	0	0	0	0	0	1	12059	407	15	5		5	PLEKHA5	12	19473549	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	5454456	19473549	114378346	254	59997										
SLCO1C1	53919	broad.mit.edu	37	chr12	20858991	20858991	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agttggaacactgctcattgCaatgcctcagttcttcatgg	9	10	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:20858991C>G	uc001rej.3	+	5	735	c.380C>G	c.(379-381)GCA>GGA	p.A127G	SLCO1C1_uc010sii.1_Missense_Mutation_p.A127G|SLCO1C1_uc010sij.1_Missense_Mutation_p.A127G|SLCO1C1_uc009zip.2_Intron|SLCO1C1_uc001rei.2_Missense_Mutation_p.A127G|SLCO1C1_uc010sik.1_Missense_Mutation_p.A9G	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	127	Helical; Name=3; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					CTGCTCATTGCAATGCCTCAG	0.378													59	161	---	---	---	---	PASS	G	20858991	G	G	20858991	3	3	167	1	0	0	0	0	1	0	0	0	14725	710	25	4	390	4	SLCO1C1	12	20858991	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1385442	20858991	112992904	255	59998										
LDHB	3945	broad.mit.edu	37	chr12	21790085	21790085	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atcagccacacttaatccaaTagcccagttggtatatcctt	5	12	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:21790085T>C	uc001rfc.2	-	6	775	c.757A>G	c.(757-759)ATT>GTT	p.I253V	LDHB_uc001rfd.2_Missense_Mutation_p.I253V|LDHB_uc001rfe.2_Missense_Mutation_p.I253V	NM_002300	NP_002291	P07195	LDHB_HUMAN	L-lactate dehydrogenase B	253					glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity			breast(2)|ovary(1)	3					NADH(DB00157)	CTTAATCCAATAGCCCAGTTG	0.323													21	46	---	---	---	---	PASS	C	21790085	C	C	21790085	3	2	167	1	0	0	0	0	1	0	0	0	8701	1406	49	5	255	5	LDHB	12	21790085	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	931094	21790085	112061810	256	59999										
ABCC9	10060	broad.mit.edu	37	chr12	21998678	21998678	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aagaatcctccagatgtcagGtagcgccagcaggttttcca	10	11	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:21998678G>T	uc001rfi.1	-	24	2975	c.2955C>A	c.(2953-2955)TAC>TAA	p.Y985*	ABCC9_uc001rfh.2_Nonsense_Mutation_p.Y985*|ABCC9_uc001rfj.1_Nonsense_Mutation_p.Y949*	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	985	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CAGATGTCAGGTAGCGCCAGC	0.443													14	41	---	---	---	---	PASS	T	21998678	T	T	21998678	4	4	167	1	0	0	0	0	0	1	0	0	59	1256	44	3	1896	3	ABCC9	12	21998678	Nonsense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	208593	21998678	111853217	257	60000										
SLC38A1	81539	broad.mit.edu	37	chr12	46591839	46591839	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccagttcaaataaagatgaaCgaacctgcaagaaaagaaaa	7	7	1	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:46591839C>T	uc001rpa.2	-	15	1385	c.1127G>A	c.(1126-1128)CGT>CAT	p.R376H	SLC38A1_uc001rpb.2_Missense_Mutation_p.R376H|SLC38A1_uc001rpc.2_Missense_Mutation_p.R376H|SLC38A1_uc001rpd.2_Missense_Mutation_p.R376H|SLC38A1_uc001rpe.2_Missense_Mutation_p.R376H|SLC38A1_uc009zkj.1_Missense_Mutation_p.R376H	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	376	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)			TAAAGATGAACGAACCTGCAA	0.373													16	33	---	---	---	---	PASS	T	46591839	T	T	46591839	3	4	167	1	0	0	0	0	1	0	0	0	14601	536	19	1	348	1	SLC38A1	12	46591839	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	24593161	46591839	87260056	258	60001										
AQP6	363	broad.mit.edu	37	chr12	50367133	50367133	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccctccgtgctacagattgcCatcaccttcaacctggtcac	6	17	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:50367133C>T	uc001rvr.1	+	1	514	c.177C>T	c.(175-177)GCC>GCT	p.A59A	AQP6_uc001rvp.1_Intron|AQP6_uc001rvq.1_RNA	NM_001652	NP_001643	Q13520	AQP6_HUMAN	aquaporin 6	59	Helical; (Potential).				excretion|odontogenesis	integral to plasma membrane|transport vesicle membrane	anion channel activity|water channel activity				0						TACAGATTGCCATCACCTTCA	0.637													17	70	---	---	---	---	PASS	T	50367133	T	T	50367133	2	4	167	1	0	0	0	0	0	0	0	1	830	581	21	3		3	AQP6	12	50367133	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	3775294	50367133	83484762	259	60002										
POU6F1	5463	broad.mit.edu	37	chr12	51584140	51584140	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gttgagctccttagcaatttCagtgatctcctggcctgtgg	11	10	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:51584140C>T	uc001rxy.2	-	5	988	c.796G>A	c.(796-798)GAA>AAA	p.E266K	POU6F1_uc001rxz.2_Missense_Mutation_p.E266K|POU6F1_uc001rya.2_Missense_Mutation_p.E266K	NM_002702	NP_002693	Q14863	PO6F1_HUMAN	POU class 6 homeobox 1	266	Homeobox.				brain development|heart development|muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						TTAGCAATTTCAGTGATCTCC	0.547													28	54	---	---	---	---	PASS	T	51584140	T	T	51584140	3	4	167	1	0	0	0	0	1	0	0	0	12284	835	29	2	113	2	POU6F1	12	51584140	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1217007	51584140	82267755	260	60003										
KRT5	3852	broad.mit.edu	37	chr12	52914004	52914004	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgaagctggtgcgggagacaGacggggtgatggcagaggcg	21	6	0	5			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:52914004G>A	uc001san.2	-	1	240	c.77C>T	c.(76-78)TCT>TTT	p.S26F	KRT5_uc009zmh.2_Missense_Mutation_p.S26F	NM_000424	NP_000415	P13647	K2C5_HUMAN	keratin 5	26	Head.				epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		GCGGGAGACAGACGGGGTGAT	0.662													12	21	---	---	---	---	PASS	A	52914004	A	A	52914004	3	1	167	1	0	0	0	0	1	0	0	0	8479	942	33	2	1731	2	KRT5	12	52914004	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1329864	52914004	80937891	261	60004										
OR10A7	121364	broad.mit.edu	37	chr12	55614955	55614955	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tttcttattgtcacagttacCagtgtggatctcgcacttca	7	10	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:55614955C>A	uc010spf.1	+	1	147	c.147C>A	c.(145-147)ACC>ACA	p.T49T		NM_001005280	NP_001005280	Q8NGE5	O10A7_HUMAN	olfactory receptor, family 10, subfamily A,	49	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)	4						TCACAGTTACCAGTGTGGATC	0.393													58	158	---	---	---	---	PASS	A	55614955	A	A	55614955	2	1	167	1	0	0	0	0	0	0	0	1	10895	581	21	3		3	OR10A7	12	55614955	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	2700951	55614955	78236940	262	60005										
ITGA7	3679	broad.mit.edu	37	chr12	56091005	56091005	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggggaccgcactcacccacaGtagggctatagctgctgggg	15	12	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:56091005G>T	uc001shh.2	-	11	1794	c.1574C>A	c.(1573-1575)ACT>AAT	p.T525N	ITGA7_uc001shg.2_Missense_Mutation_p.T521N|ITGA7_uc010sps.1_Missense_Mutation_p.T428N|ITGA7_uc009znw.2_5'Flank|ITGA7_uc009znx.2_Missense_Mutation_p.T408N	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	565	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						CTCACCCACAGTAGGGCTATA	0.607													7	11	---	---	---	---	PASS	T	56091005	T	T	56091005	3	4	167	1	0	0	0	0	1	0	0	0	7881	1029	36	3	1911	3	ITGA7	12	56091005	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	476050	56091005	77760890	263	60006										
DDIT3	1649	broad.mit.edu	37	chr12	57910715	57910715	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tcagctagctgtgccactttCctttcattctcctgttcttt	5	13	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:57910715C>T	uc001soi.2	-	4	567	c.387G>A	c.(385-387)AGG>AGA	p.R129R	MARS_uc001sof.1_Intron|DDIT3_uc009zps.2_Silent_p.R152R|DDIT3_uc009zpt.2_Silent_p.R152R	NM_004083	NP_004074	P35638	DDIT3_HUMAN	DNA-damage-inducible transcript 3	129					cell cycle arrest|cell redox homeostasis|mRNA transcription from RNA polymerase II promoter|negative regulation of determination of dorsal identity|regulation of DNA-dependent transcription in response to stress|response to DNA damage stimulus	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription factor binding		FUS/DDIT3(623)|EWSR1/DDIT3(43)	soft_tissue(666)|large_intestine(1)|central_nervous_system(1)|lung(1)|skin(1)|ovary(1)	671						GTGCCACTTTCCTTTCATTCT	0.542			T	FUS	liposarcoma								26	92	---	---	---	---	PASS	T	57910715	T	T	57910715	2	4	167	1	0	0	0	0	0	0	0	1	4330	854	30	2		2	DDIT3	12	57910715	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	1819710	57910715	75941180	264	60007										
KIF5A	3798	broad.mit.edu	37	chr12	57966467	57966467	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aacgggctgatgaaggatctGagcgagttcagtgtcattgt	14	6	3	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:57966467G>T	uc001sor.1	+	15	1882	c.1674G>T	c.(1672-1674)CTG>CTT	p.L558L	KIF5A_uc010srr.1_Silent_p.L469L	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	558					blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						TGAAGGATCTGAGCGAGTTCA	0.552													29	80	---	---	---	---	PASS	T	57966467	T	T	57966467	2	4	167	1	0	0	0	0	0	0	0	1	8305	1277	45	2		2	KIF5A	12	57966467	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	55752	57966467	75885428	265	60008										
OS9	10956	broad.mit.edu	37	chr12	58111934	58111934	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tccctacccacccaggggaaGccaaatataggccaagagca	9	14	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:58111934G>T	uc001spj.2	+	11	1199	c.1140G>T	c.(1138-1140)AAG>AAT	p.K380N	OS9_uc010srx.1_Missense_Mutation_p.K174N|OS9_uc001spk.2_Missense_Mutation_p.K380N|OS9_uc001spl.2_Missense_Mutation_p.K380N|OS9_uc001spm.2_Missense_Mutation_p.K380N|OS9_uc001spn.2_Missense_Mutation_p.K381N|OS9_uc010sry.1_Missense_Mutation_p.K348N|OS9_uc010srz.1_Missense_Mutation_p.K321N	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	380					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)			CCCAGGGGAAGCCAAATATAG	0.527													5	20	---	---	---	---	PASS	T	58111934	T	T	58111934	3	4	167	1	0	0	0	0	1	0	0	0	11272	962	34	3	1182	3	OS9	12	58111934	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	145467	58111934	75739961	266	60009										
PPFIA2	8499	broad.mit.edu	37	chr12	81688782	81688782	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttcacgttggctcggcaggcTgccacgtaccacgcaggcat	12	14	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:81688782T>A	uc001szo.1	-	24	2918	c.2757A>T	c.(2755-2757)GCA>GCT	p.A919A	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	845										ovary(3)|lung(2)|pancreas(1)	6						CTCGGCAGGCTGCCACGTACC	0.378													4	17	---	---	---	---	PASS	A	81688782	A	A	81688782	2	1	167	1	0	0	0	0	0	0	0	1	12310	1567	55	5		5	PPFIA2	12	81688782	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	23576848	81688782	52163113	267	60010										
STAB2	55576	broad.mit.edu	37	chr12	104089339	104089339	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttttttcaggtgctggtcccAcaaagacgtctaactggctc	9	11	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:104089339A>T	uc001tjw.2	+	32	3573	c.3387A>T	c.(3385-3387)CCA>CCT	p.P1129P		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1129	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						TGCTGGTCCCACAAAGACGTC	0.468													18	43	---	---	---	---	PASS	T	104089339	T	T	104089339	2	4	167	1	0	0	0	0	0	0	0	1	15237	146	6	5		5	STAB2	12	104089339	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	22400557	104089339	29762556	268	60011										
HCFC2	29915	broad.mit.edu	37	chr12	104489180	104489180	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aggtgttctaagtagttgccTggatgtaagaacagtaattc	11	5	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:104489180T>G	uc001tkj.3	+	11	1608	c.1505T>G	c.(1504-1506)CTG>CGG	p.L502R	HCFC2_uc009zul.2_RNA	NM_013320	NP_037452	Q9Y5Z7	HCFC2_HUMAN	host cell factor C2	502					regulation of transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus	transcription coactivator activity			ovary(2)|central_nervous_system(1)	3						AGTAGTTGCCTGGATGTAAGA	0.368													11	25	---	---	---	---	PASS	G	104489180	G	G	104489180	3	3	167	1	0	0	0	0	1	0	0	0	6993	1580	55	5	1547	5	HCFC2	12	104489180	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	399841	104489180	29362715	269	60012										
SART3	9733	broad.mit.edu	37	chr12	108920092	108920092	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agtggcctgagcttcgtgtcCggctcctgcatgctgtaggg	15	11	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:108920092C>T	uc001tmz.1	-	16	2389	c.2154G>A	c.(2152-2154)CCG>CCA	p.P718P	SART3_uc001tmy.1_Silent_p.P244P|SART3_uc009zux.1_Silent_p.P330P|SART3_uc010swx.1_Silent_p.P682P|SART3_uc010swy.1_Silent_p.P604P|SART3_uc010swz.1_Missense_Mutation_p.G717R	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	718	RRM 1.				RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						GCTTCGTGTCCGGCTCCTGCA	0.602									Porokeratosis				10	26	---	---	---	---	PASS	T	108920092	T	T	108920092	2	4	167	1	0	0	0	0	0	0	0	1	13847	639	23	1		1	SART3	12	108920092	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	4430912	108920092	24931803	270	60013										
ACACB	32	broad.mit.edu	37	chr12	109665238	109665238	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgcagcaccggcagctcccGgacggcacctgcgtggtaga	14	15	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:109665238G>T	uc001tob.2	+	28	4064	c.3945G>T	c.(3943-3945)CCG>CCT	p.P1315P	ACACB_uc001toc.2_Silent_p.P1315P|ACACB_uc010sxl.1_5'Flank|ACACB_uc001tod.2_5'Flank|ACACB_uc010sxm.1_5'Flank	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1315					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GGCAGCTCCCGGACGGCACCT	0.587													3	3	---	---	---	---	PASS	T	109665238	T	T	109665238	2	4	167	1	0	0	0	0	0	0	0	1	107	1103	39	1		1	ACACB	12	109665238	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	745146	109665238	24186657	271	60014										
MED13L	23389	broad.mit.edu	37	chr12	116446238	116446238	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtgctctctgagtttacctcCattttggcatcacatctctc	6	13	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:116446238C>A	uc001tvw.2	-	10	2035	c.1980G>T	c.(1978-1980)ATG>ATT	p.M660I		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	660					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		AGTTTACCTCCATTTTGGCAT	0.542													5	33	---	---	---	---	PASS	A	116446238	A	A	116446238	3	1	167	1	0	0	0	0	1	0	0	0	9431	594	21	3	4740	3	MED13L	12	116446238	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	6781000	116446238	17405657	272	60015										
GLT1D1	144423	broad.mit.edu	37	chr12	129467608	129467608	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acctaccaacagctcatcagGaagctggaaggaagcactga	10	11	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:129467608G>T	uc010tbh.1	+	13	1038	c.1029G>T	c.(1027-1029)AGG>AGT	p.R343S	GLT1D1_uc001uhx.1_Missense_Mutation_p.R258S|GLT1D1_uc001uhy.1_RNA	NM_144669	NP_653270	Q96MS3	GL1D1_HUMAN	glycosyltransferase 1 domain containing 1	338					biosynthetic process	extracellular region	transferase activity, transferring glycosyl groups				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.97e-06)|Epithelial(86;3.97e-05)|all cancers(50;0.00019)		AGCTCATCAGGAAGCTGGAAG	0.498													39	101	---	---	---	---	PASS	T	129467608	T	T	129467608	3	4	167	1	0	0	0	0	1	0	0	0	6465	1165	41	2	804	2	GLT1D1	12	129467608	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	13021370	129467608	4384287	273	60016										
MMP17	4326	broad.mit.edu	37	chr12	132329857	132329857	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cccaggcaagtacttctggcGgctgacgcgggaccggcacc	14	15	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:132329857G>T	uc001ujc.1	+	8	1166	c.1067G>T	c.(1066-1068)CGG>CTG	p.R356L	MMP17_uc001ujd.1_Missense_Mutation_p.R272L	NM_016155	NP_057239	Q9ULZ9	MMP17_HUMAN	matrix metalloproteinase 17 preproprotein	356	Hemopexin-like 1.				proteolysis	anchored to membrane|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.82e-07)|Epithelial(86;1.51e-06)|all cancers(50;2.35e-05)		TACTTCTGGCGGCTGACGCGG	0.706													7	9	---	---	---	---	PASS	T	132329857	T	T	132329857	3	4	167	1	0	0	0	0	1	0	0	0	9656	1116	39	1	1097	1	MMP17	12	132329857	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	2862249	132329857	1522038	274	60017										
ZNF268	10795	broad.mit.edu	37	chr12	133779072	133779072	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaaatcgcaacttatgtgccAacaaatgtatatgggcgaaa	9	7	0	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr12:133779072A>G	uc010tcf.1	+	6	1130	c.800A>G	c.(799-801)CAA>CGA	p.Q267R	ZNF268_uc010tbv.1_Missense_Mutation_p.Q106R|ZNF268_uc010tbw.1_Missense_Mutation_p.Q106R|ZNF268_uc010tbx.1_Missense_Mutation_p.Q127R|ZNF268_uc010tby.1_Missense_Mutation_p.Q106R|ZNF268_uc010tbz.1_Missense_Mutation_p.Q106R|ZNF268_uc010tca.1_Missense_Mutation_p.Q106R|ZNF268_uc010tcb.1_Missense_Mutation_p.Q127R|ZNF268_uc010tcc.1_Missense_Mutation_p.Q106R|ZNF268_uc010tcd.1_Missense_Mutation_p.Q106R|ZNF268_uc010tce.1_Missense_Mutation_p.Q106R|ZNF268_uc010tcg.1_Missense_Mutation_p.Q106R|ZNF268_uc010tch.1_Missense_Mutation_p.Q267R	NM_003415	NP_003406	Q14587	ZN268_HUMAN	zinc finger protein 268 isoform a	267						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.000215)|all_epithelial(31;0.096)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		CTTATGTGCCAACAAATGTAT	0.388													7	14	---	---	---	---	PASS	G	133779072	G	G	133779072	3	3	167	1	0	0	0	0	1	0	0	0	17804	130	5	5		5	ZNF268	12	133779072	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	1449215	133779072	72823	275	60018										
TPTE2	93492	broad.mit.edu	37	chr13	20039417	20039417	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtaacgtaagtgaggtctagGtcaaatccatcccttgtgta	10	8	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr13:20039417G>A	uc001umd.2	-	10	865	c.654C>T	c.(652-654)GAC>GAT	p.D218D	TPTE2_uc009zzk.2_RNA|TPTE2_uc009zzl.2_Silent_p.D107D|TPTE2_uc001ume.2_Silent_p.D141D|TPTE2_uc009zzm.2_5'UTR|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	218	Phosphatase tensin-type.					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		TGAGGTCTAGGTCAAATCCAT	0.313													29	114	---	---	---	---	PASS	A	20039417	A	A	20039417	2	1	167	1	0	0	0	0	0	0	0	1	16428	1252	44	3		3	TPTE2	13	20039417	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08		20039417	95130461	276	60019										
PSPC1	55269	broad.mit.edu	37	chr13	20346607	20346607	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgctccatgtgtagcgaagCgaatccgtagaggtctgctc	12	11	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr13:20346607C>A	uc001uml.2	-	2	635	c.449G>T	c.(448-450)CGC>CTC	p.R150L	PSPC1_uc001umj.1_RNA|PSPC1_uc001umk.1_RNA	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	150	RRM 1.|Sufficient for paraspeckles localization.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		TGTAGCGAAGCGAATCCGTAG	0.458													21	60	---	---	---	---	PASS	A	20346607	A	A	20346607	3	1	167	1	0	0	0	0	1	0	0	0	12716	768	27	1	1154	1	PSPC1	13	20346607	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	307190	20346607	94823271	277	60020										
FRY	10129	broad.mit.edu	37	chr13	32868646	32868646	+	Frame_Shift_Del	DEL	A	-	-													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgaagcagccatccagtccAtgctggagtgcctgaagaac							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr13:32868646delA	uc001utx.2	+	60	9218	c.8722delA	c.(8722-8724)ATGfs	p.M2908fs	FRY_uc010tdw.1_RNA|FRY_uc001utz.2_Frame_Shift_Del_p.M439fs|FRY_uc010tdx.1_Frame_Shift_Del_p.M278fs	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2908					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CATCCAGTCCATGCTGGAGTG	0.547													39	20	---	---	---	---		-	32868646	-	-	32868646	7	5	167	1	0	1	0	1	0	0	0	0	6063	217	8	0	8960	0	FRY	13	32868646	Frame_Shift_Del	DEL	A	TCGA-66-2789-01A-01D-0983-08	12522039	32868646	82301232	278	60021										
SPG20	23111	broad.mit.edu	37	chr13	36909559	36909559	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tccatttacttcagcatgctGaggagctgaactaaaagact	8	9	1	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr13:36909559G>A	uc001uvn.2	-	3	679	c.409C>T	c.(409-411)CAG>TAG	p.Q137*	SPG20_uc010ten.1_Nonsense_Mutation_p.Q137*|SPG20_uc001uvm.2_Nonsense_Mutation_p.Q137*|SPG20_uc001uvo.2_Nonsense_Mutation_p.Q137*|SPG20_uc001uvq.2_Nonsense_Mutation_p.Q137*|SPG20_uc001uvp.2_Nonsense_Mutation_p.Q137*	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	137					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		TCAGCATGCTGAGGAGCTGAA	0.458													10	22	---	---	---	---	PASS	A	36909559	A	A	36909559	4	1	167	1	0	0	0	0	0	1	0	0	15041	1299	45	2	1623	2	SPG20	13	36909559	Nonsense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	4040913	36909559	78260319	279	60022										
POSTN	10631	broad.mit.edu	37	chr13	38145587	38145587	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttcaattttgacttttgttaGtgtgggtcctgggacattat	10	5	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr13:38145587G>T	uc001uwo.3	-	18	2216	c.2098C>A	c.(2098-2100)CTA>ATA	p.L700I	POSTN_uc010tet.1_Missense_Mutation_p.L201I|POSTN_uc001uwp.3_Intron|POSTN_uc001uwr.2_Missense_Mutation_p.L673I|POSTN_uc001uwq.2_Intron|POSTN_uc010teu.1_Missense_Mutation_p.L673I|POSTN_uc010tev.1_Intron|POSTN_uc010tew.1_Intron	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	700					cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		ACTTTTGTTAGTGTGGGTCCT	0.363													15	48	---	---	---	---	PASS	T	38145587	T	T	38145587	3	4	167	1	0	0	0	0	1	0	0	0	12259	1020	36	3	436	3	POSTN	13	38145587	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1236028	38145587	77024291	280	60023										
PCDH17	27253	broad.mit.edu	37	chr13	58208897	58208897	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gagaacaaggagatccgcacTtacaactgccgcatcgccga	10	13	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr13:58208897T>A	uc001vhq.1	+	1	3109	c.2217T>A	c.(2215-2217)ACT>ACA	p.T739T	PCDH17_uc010aec.1_Silent_p.T739T	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	739	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		AGATCCGCACTTACAACTGCC	0.557													7	34	---	---	---	---	PASS	A	58208897	A	A	58208897	2	1	167	1	0	0	0	0	0	0	0	1	11512	1596	56	5		5	PCDH17	13	58208897	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	20063310	58208897	56960981	281	60024										
PCDH9	5101	broad.mit.edu	37	chr13	67799735	67799735	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tctggtttgagatgaaaagcAggctgtggagaagcagattt	14	4	1	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr13:67799735A>T	uc001vik.2	-	2	3530	c.2838T>A	c.(2836-2838)CCT>CCA	p.P946P	PCDH9_uc001vil.2_Silent_p.P946P|PCDH9_uc010thl.1_Silent_p.P946P|PCDH9_uc001vin.3_Silent_p.P946P	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	946	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GATGAAAAGCAGGCTGTGGAG	0.498													22	63	---	---	---	---	PASS	T	67799735	T	T	67799735	2	4	167	1	0	0	0	0	0	0	0	1	11518	175	7	5		5	PCDH9	13	67799735	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	9590838	67799735	47370143	282	60025										
MYCBP2	23077	broad.mit.edu	37	chr13	77670488	77670488	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tttttcgcggaggtatttttCtctacagcgatcacatacca	7	10	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr13:77670488C>G	uc001vkf.2	-	58	9890	c.9799G>C	c.(9799-9801)GAA>CAA	p.E3267Q	MYCBP2_uc010aev.2_Missense_Mutation_p.E2671Q	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3267					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AGGTATTTTTCTCTACAGCGA	0.413													22	63	---	---	---	---	PASS	G	77670488	G	G	77670488	3	3	167	1	0	0	0	0	1	0	0	0	10018	922	32	2	4231	2	MYCBP2	13	77670488	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	9870753	77670488	37499390	283	60026										
POU4F1	5457	broad.mit.edu	37	chr13	79175661	79175661	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tcggcgatggcggcgatcttCtcggacgagggccggggctg	19	11	2	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr13:79175661C>A	uc001vkv.2	-	2	1383	c.1149G>T	c.(1147-1149)GAG>GAT	p.E383D	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	383	Homeobox.				axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		CGGCGATCTTCTCGGACGAGG	0.612													13	35	---	---	---	---	PASS	A	79175661	A	A	79175661	3	1	167	1	0	0	0	0	1	0	0	0	12278	912	32	2	114	2	POU4F1	13	79175661	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1505173	79175661	35994217	284	60027										
GPR18	2841	broad.mit.edu	37	chr13	99907653	99907653	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttatctgggtctttatagagCagtagcagaggggtggtcgt	15	5	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr13:99907653C>G	uc001voe.3	-	3	975	c.474G>C	c.(472-474)CTG>CTC	p.L158L	UBAC2_uc001voa.3_Intron|UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron|GPR18_uc010afv.2_Silent_p.L158L	NM_005292	NP_005283	Q14330	GPR18_HUMAN	G protein-coupled receptor 18	158	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Glycine(DB00145)	CTTTATAGAGCAGTAGCAGAG	0.507													14	40	---	---	---	---	PASS	G	99907653	G	G	99907653	2	3	167	1	0	0	0	0	0	0	0	1	6675	697	25	4		4	GPR18	13	99907653	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	20731992	99907653	15262225	285	60028										
FAM155A	728215	broad.mit.edu	37	chr13	108518418	108518418	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgaagcactggcccgaggacGcgccctgggggtaacaagtc	15	12	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr13:108518418G>A	uc001vql.2	-	1	1043	c.527C>T	c.(526-528)GCG>GTG	p.A176V		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	176						integral to membrane	binding			skin(1)	1						GCCCGAGGACGCGCCCTGGGG	0.677													16	26	---	---	---	---	PASS	A	108518418	A	A	108518418	3	1	167	1	0	0	0	0	1	0	0	0	5465	1087	38	1	861	1	FAM155A	13	108518418	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	8610765	108518418	6651460	286	60029										
COL4A2	1284	broad.mit.edu	37	chr13	111077187	111077187	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	caagggtgaaaggggagcccCcggagtaacgggacccaagg	17	10	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr13:111077187C>T	uc001vqx.2	+	5	576	c.287C>T	c.(286-288)CCC>CTC	p.P96L		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	96					angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			AGGGGAGCCCCCGGAGTAACG	0.612													11	40	---	---	---	---	PASS	T	111077187	T	T	111077187	3	4	167	1	0	0	0	0	1	0	0	0	3690	623	22	3	301	3	COL4A2	13	111077187	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2558769	111077187	4092691	287	60030										
OR4N2	390429	broad.mit.edu	37	chr14	20296217	20296217	+	Missense_Mutation	SNP	G	T	T													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttctgatggtcttcaacagtGgcctgatgacactcctgtgc							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:20296217G>T	uc010tkv.1	+	1	610	c.610G>T	c.(610-612)GGC>TGC	p.G204C		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CTTCAACAGTGGCCTGATGAC	0.517													19	60	---	---	---	---	PASS	T	20296217	T	T	20296217	3	4	167	1	0	0	0	0	1	0	0	0	11077	1348	47	3	612	3	OR4N2	14	20296217	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08		20296217	87053323	288	60031	1056	2								
OR4N2	390429	broad.mit.edu	37	chr14	20296218	20296218	+	Missense_Mutation	SNP	G	T	T													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tctgatggtcttcaacagtgGcctgatgacactcctgtgct							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:20296218G>T	uc010tkv.1	+	1	611	c.611G>T	c.(610-612)GGC>GTC	p.G204V		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TTCAACAGTGGCCTGATGACA	0.517													19	59	---	---	---	---	PASS	T	20296218	T	T	20296218	3	4	167	1	0	0	0	0	1	0	0	0	11077	1203	42	3	613	3	OR4N2	14	20296218	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1	20296218	87053322	289	60032	1056	2								
OR4K14	122740	broad.mit.edu	37	chr14	20483161	20483161	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tccaggaaagctaggttcccCagcaggaagtacatagggga	13	9	0	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:20483161C>A	uc010tky.1	-	1	192	c.192G>T	c.(190-192)CTG>CTT	p.L64L		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		CTAGGTTCCCCAGCAGGAAGT	0.483													11	20	---	---	---	---	PASS	A	20483161	A	A	20483161	2	1	167	1	0	0	0	0	0	0	0	1	11069	581	21	3		3	OR4K14	14	20483161	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	186943	20483161	86866379	290	60033										
FLJ10357	55701	broad.mit.edu	37	chr14	21547127	21547127	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cgcctctccaacctgcacgtGcagcagcaagagcagcggca	11	16	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:21547127G>T	uc001vzp.2	+	11	2360	c.2331G>T	c.(2329-2331)GTG>GTT	p.V777V	FLJ10357_uc001vzo.1_5'UTR|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_Silent_p.V63V	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	777					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		ACCTGCACGTGCAGCAGCAAG	0.632													13	10	---	---	---	---	PASS	T	21547127	T	T	21547127	2	4	167	1	0	0	0	0	0	0	0	1	5926	1306	46	3		3	FLJ10357	14	21547127	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	1063966	21547127	85802413	291	60034										
MYH6	4624	broad.mit.edu	37	chr14	23873577	23873577	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agagcggggttggcctggatGatctggtcctccagggtgcc	17	10	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:23873577G>A	uc001wjv.2	-	8	730	c.663C>T	c.(661-663)ATC>ATT	p.I221I	MYH6_uc010akp.1_Silent_p.I221I	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	221	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TGGCCTGGATGATCTGGTCCT	0.612													30	51	---	---	---	---	PASS	A	23873577	A	A	23873577	2	1	167	1	0	0	0	0	0	0	0	1	10038	1280	45	2		2	MYH6	14	23873577	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	2326450	23873577	83475963	292	60035										
FSCB	84075	broad.mit.edu	37	chr14	44974630	44974630	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aagctgaatttcagcagaggCctcttctgcagtggtctctt	10	10	4	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:44974630C>A	uc001wvn.2	-	1	1870	c.1561G>T	c.(1561-1563)GCC>TCC	p.A521S		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	521	Ala-rich.					cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		TCAGCAGAGGCCTCTTCTGCA	0.502													5	17	---	---	---	---	PASS	A	44974630	A	A	44974630	3	1	167	1	0	0	0	0	1	0	0	0	6066	739	26	3	920	3	FSCB	14	44974630	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	21101053	44974630	62374910	293	60036										
FAM179B	23116	broad.mit.edu	37	chr14	45468664	45468664	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gcagtgtgggttctgacttaCaattcctagggacaactagc	11	9	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:45468664C>G	uc001wvv.2	+	3	2511	c.2302C>G	c.(2302-2304)CAA>GAA	p.Q768E	FAM179B_uc001wvw.2_Missense_Mutation_p.Q768E|FAM179B_uc010anc.2_RNA|FAM179B_uc001wvu.2_Missense_Mutation_p.Q768E	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	768							binding			skin(2)|upper_aerodigestive_tract(1)	3						TTCTGACTTACAATTCCTAGG	0.368													16	26	---	---	---	---	PASS	G	45468664	G	G	45468664	3	3	167	1	0	0	0	0	1	0	0	0	5506	479	17	4	2312	4	FAM179B	14	45468664	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	494034	45468664	61880876	294	60037										
C14orf105	55195	broad.mit.edu	37	chr14	57949802	57949803	+	Frame_Shift_Ins	INS	-	T	T													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctttgctttgtgcattgtccINStggcttctcgctggctcagg							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:57949802_57949803insT	uc001xcy.2	-	3	516_517	c.373_374insA	c.(373-375)AGGfs	p.R125fs	C14orf105_uc010trl.1_Frame_Shift_Ins_p.R125fs|C14orf105_uc010trm.1_Frame_Shift_Ins_p.R37fs|C14orf105_uc010trn.1_Frame_Shift_Ins_p.R37fs|C14orf105_uc001xcz.2_Frame_Shift_Ins_p.R125fs|C14orf105_uc010aox.1_RNA|C14orf105_uc010aoy.1_Frame_Shift_Ins_p.R47fs	NM_018168	NP_060638	Q9NVL8	CN105_HUMAN	hypothetical protein LOC55195	125											0						GTGCATTGTCCTGGCTTCTCGC	0.53													22	12	---	---	---	---		T	57949803	T	T	57949802	7	5	167	1	0	1	1	0	0	0	0	0	1737	681	24	0	532	0	C14orf105	14	57949802	Frame_Shift_Ins	INS	-	TCGA-66-2789-01A-01D-0983-08	12481138	57949802	49399738	295	60038										
RTN1	6252	broad.mit.edu	37	chr14	60072126	60072126	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cctggacaaggaagagcctcCtcagttccttaagtgtgctg	11	11	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:60072126C>A	uc001xen.1	-	5	2281	c.2072G>T	c.(2071-2073)AGG>ATG	p.R691M	RTN1_uc001xem.1_Missense_Mutation_p.R271M|RTN1_uc001xek.1_Missense_Mutation_p.R123M|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Missense_Mutation_p.R108M	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	691	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		GAAGAGCCTCCTCAGTTCCTT	0.463													15	25	---	---	---	---	PASS	A	60072126	A	A	60072126	3	1	167	1	0	0	0	0	1	0	0	0	13725	681	24	3	278	3	RTN1	14	60072126	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2122324	60072126	47277414	296	60039										
C14orf135	64430	broad.mit.edu	37	chr14	60591742	60591742	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttggaatgttatcattcagaAgagaaggcctcaaatgtact	9	6	3	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:60591742A>G	uc001xer.3	+	8	2673	c.2151A>G	c.(2149-2151)GAA>GAG	p.E717E	C14orf135_uc001xeq.2_Silent_p.E717E|C14orf135_uc010apm.2_RNA	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	951						integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		ATCATTCAGAAGAGAAGGCCT	0.358													22	38	---	---	---	---	PASS	G	60591742	G	G	60591742	2	3	167	1	0	0	0	0	0	0	0	1	1745	69	3	5		5	C14orf135	14	60591742	Silent	SNP	A	TCGA-66-2789-01A-01D-0983-08	519616	60591742	46757798	297	60040										
C14orf178	283579	broad.mit.edu	37	chr14	78234794	78234794	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tttattttttattttttacaGgcatgatcaaccaggtacag	6	6	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:78234794G>T	uc001xug.1	+	3	533	c.75_splice	c.e3-1	p.W25_splice	C14orf178_uc001xuh.1_Intron	NM_174943	NP_777603	Q8N769	CN178_HUMAN	hypothetical protein LOC283579											ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0273)		attttttaCAGGCATGATCAA	0.303													5	55	---	---	---	---	PASS	T	78234794	T	T	78234794	5	4	167	1	0	0	0	0	0	0	1	0	1761	1014	35	3	80	3	C14orf178	14	78234794	Splice_Site	SNP	G	TCGA-66-2789-01A-01D-0983-08	17643052	78234794	29114746	298	60041										
KIAA1409	57578	broad.mit.edu	37	chr14	94079210	94079210	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaagacgctgggatcgaccaCcagacagttcaccagctgat	11	12	1	3	rs149617798	by1000genomes	TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:94079210C>T	uc001ybv.1	+	25	3440	c.3357C>T	c.(3355-3357)CAC>CAT	p.H1119H	KIAA1409_uc001ybs.1_Silent_p.H1097H	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1274						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GGATCGACCACCAGACAGTTC	0.522													25	73	---	---	---	---	PASS	T	94079210	T	T	94079210	2	4	167	1	0	0	0	0	0	0	0	1	8230	506	18	3		3	KIAA1409	14	94079210	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	15844416	94079210	13270330	299	60042										
ATG2B	55102	broad.mit.edu	37	chr14	96773242	96773242	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctcctgaatttgagatttttCatccaaaacacctagataaa	4	9	1	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:96773242C>T	uc001yfi.2	-	30	4680	c.4315G>A	c.(4315-4317)GAA>AAA	p.E1439K		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1439										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)		TGAGATTTTTCATCCAAAACA	0.343													16	16	---	---	---	---	PASS	T	96773242	T	T	96773242	3	4	167	1	0	0	0	0	1	0	0	0	1094	835	29	2	1973	2	ATG2B	14	96773242	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2694032	96773242	10576298	300	60043										
AHNAK2	113146	broad.mit.edu	37	chr14	105408092	105408092	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cttggggcccttgacgtccaCctgggggcccttgaggtcca	14	14	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:105408092C>T	uc010axc.1	-	7	13816	c.13696G>A	c.(13696-13698)GTG>ATG	p.V4566M	AHNAK2_uc001ypx.2_Missense_Mutation_p.V4466M	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4566						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)			TTGACGTCCACCTGGGGGCCC	0.627													45	145	---	---	---	---	PASS	T	105408092	T	T	105408092	3	4	167	1	0	0	0	0	1	0	0	0	415	507	18	3	3695	3	AHNAK2	14	105408092	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	8634850	105408092	1941448	301	60044										
AHNAK2	113146	broad.mit.edu	37	chr14	105408109	105408109	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccacctgggggcccttgaggTccactttgggcatcttgaaa	12	12	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:105408109T>G	uc010axc.1	-	7	13799	c.13679A>C	c.(13678-13680)GAC>GCC	p.D4560A	AHNAK2_uc001ypx.2_Missense_Mutation_p.D4460A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4560						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)			GCCCTTGAGGTCCACTTTGGG	0.617													23	157	---	---	---	---	PASS	G	105408109	G	G	105408109	3	3	167	1	0	0	0	0	1	0	0	0	415	1667	58	5	3712	5	AHNAK2	14	105408109	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	17	105408109	1941431	302	60045										
AHNAK2	113146	broad.mit.edu	37	chr14	105415986	105415986	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tccgccttggggcctttcagGtccagcttggcgcccttaac	11	15	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:105415986G>A	uc010axc.1	-	7	5922	c.5802C>T	c.(5800-5802)GAC>GAT	p.D1934D	AHNAK2_uc001ypx.2_Silent_p.D1834D	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1934						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)			GGCCTTTCAGGTCCAGCTTGG	0.597													136	147	---	---	---	---	PASS	A	105415986	A	A	105415986	2	1	167	1	0	0	0	0	0	0	0	1	415	1252	44	3		3	AHNAK2	14	105415986	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	7877	105415986	1933554	303	60046										
AHNAK2	113146	broad.mit.edu	37	chr14	105416541	105416541	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agggccactttgggcatcttCaaactgggcatctgcacctt	10	12	3	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr14:105416541C>G	uc010axc.1	-	7	5367	c.5247G>C	c.(5245-5247)TTG>TTC	p.L1749F	AHNAK2_uc001ypx.2_Missense_Mutation_p.L1649F	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1749						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)			TGGGCATCTTCAAACTGGGCA	0.652													10	233	---	---	---	---	PASS	G	105416541	G	G	105416541	3	3	167	1	0	0	0	0	1	0	0	0	415	825	29	2	12144	2	AHNAK2	14	105416541	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	555	105416541	1932999	304	60047										
HERC2	8924	broad.mit.edu	37	chr15	28478864	28478864	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	caagcgaccgacctcttccaCgggatgctcggggggaaaca	13	13	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:28478864C>A	uc001zbj.2	-	28	4403	c.4297G>T	c.(4297-4299)GTG>TTG	p.V1433L		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1433					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ACCTCTTCCACGGGATGCTCG	0.458													15	61	---	---	---	---	PASS	A	28478864	A	A	28478864	3	1	167	1	0	0	0	0	1	0	0	0	7058	536	19	1	10471	1	HERC2	15	28478864	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08		28478864	74052528	305	60048										
GPR176	11245	broad.mit.edu	37	chr15	40094083	40094083	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atcaccatggagagcagggtGgcgtgcagctcggcctcccg	15	13	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:40094083G>A	uc001zkj.1	-	3	1664	c.798C>T	c.(796-798)GCC>GCT	p.A266A	GPR176_uc010uck.1_Silent_p.A206A	NM_007223	NP_009154	Q14439	GP176_HUMAN	G protein-coupled receptor 176	266	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		all_cancers(109;4.05e-15)|all_epithelial(112;2.96e-13)|Lung NSC(122;8.53e-11)|all_lung(180;2.71e-09)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;4.4e-06)|BRCA - Breast invasive adenocarcinoma(123;0.123)		AGAGCAGGGTGGCGTGCAGCT	0.582											OREG0023053	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	43	---	---	---	---	PASS	A	40094083	A	A	40094083	2	1	167	1	0	0	0	0	0	0	0	1	6673	1335	47	3		3	GPR176	15	40094083	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	11615219	40094083	62437309	306	60049										
MAPKBP1	23005	broad.mit.edu	37	chr15	42106796	42106796	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aggtatccagacaccattgcCttgacctttgatcctactaa	6	12	0	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:42106796C>T	uc001zok.3	+	11	1333	c.1047C>T	c.(1045-1047)GCC>GCT	p.A349A	MAPKBP1_uc001zoj.3_Silent_p.A343A|MAPKBP1_uc010bcj.2_Intron|MAPKBP1_uc010bci.2_Silent_p.A343A|MAPKBP1_uc010udb.1_Silent_p.A231A|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_Intron	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	349	WD 5.									central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		ACACCATTGCCTTGACCTTTG	0.498													31	56	---	---	---	---	PASS	T	42106796	T	T	42106796	2	4	167	1	0	0	0	0	0	0	0	1	9292	668	24	3		3	MAPKBP1	15	42106796	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	2012713	42106796	60424596	307	60050										
ZFP106	64397	broad.mit.edu	37	chr15	42742430	42742430	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gggtgtggactggctgcagaTgtcatttgtaattcagattc	13	6	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:42742430T>C	uc001zpw.2	-	2	2306	c.1971A>G	c.(1969-1971)ACA>ACG	p.T657T	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Silent_p.T440T|ZFP106_uc001zpy.1_Silent_p.T680T	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	657						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		TGGCTGCAGATGTCATTTGTA	0.423													32	74	---	---	---	---	PASS	C	42742430	C	C	42742430	2	2	167	1	0	0	0	0	0	0	0	1	17634	1451	51	5		5	ZFP106	15	42742430	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	635634	42742430	59788962	308	60051										
SNAP23	8773	broad.mit.edu	37	chr15	42805639	42805639	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccatcactatgctggatgaaCaaaagggtaagttaaattat	8	6	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:42805639C>A	uc001zpz.1	+	4	233	c.142C>A	c.(142-144)CAA>AAA	p.Q48K	SNAP23_uc001zqa.1_Missense_Mutation_p.Q48K	NM_003825	NP_003816	O00161	SNP23_HUMAN	synaptosomal-associated protein 23 isoform	48	t-SNARE coiled-coil homology 1.				cellular membrane fusion|post-Golgi vesicle-mediated transport|protein transport|vesicle targeting	azurophil granule|cell junction|Golgi apparatus|nucleus|plasma membrane enriched fraction|specific granule|synapse|synaptosome	protein binding				0		all_cancers(109;7.14e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;1.18e-08)|all_lung(180;4.2e-08)|Melanoma(134;0.0179)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;2.62e-06)		GCTGGATGAACAAAAGGGTAA	0.378													15	36	---	---	---	---	PASS	A	42805639	A	A	42805639	3	1	167	1	0	0	0	0	1	0	0	0	14829	479	17	3	152	3	SNAP23	15	42805639	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	63209	42805639	59725753	309	60052										
SLC24A5	283652	broad.mit.edu	37	chr15	48429046	48429046	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cactgatgggctgggaagatGaaggtcaaccattcattcgt	12	8	2	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:48429046G>A	uc001zwe.2	+	6	830	c.757G>A	c.(757-759)GAA>AAA	p.E253K	SLC24A5_uc010bel.2_Missense_Mutation_p.E193K|uc001zwf.1_5'Flank	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	253	Cytoplasmic (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)		CTGGGAAGATGAAGGTCAACC	0.413													12	26	---	---	---	---	PASS	A	48429046	A	A	48429046	3	1	167	1	0	0	0	0	1	0	0	0	14469	1291	45	2	779	2	SLC24A5	15	48429046	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	5623407	48429046	54102346	310	60053										
C15orf33	196951	broad.mit.edu	37	chr15	49833966	49833966	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctggaaatgcttcatggaacGttgcatatatggcttgtgcc	11	8	1	0	rs148925050		TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:49833966G>A	uc001zxl.2	-	10	1079	c.785C>T	c.(784-786)ACG>ATG	p.T262M	C15orf33_uc001zxm.2_Missense_Mutation_p.T228M	NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	262										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)		TTCATGGAACGTTGCATATAT	0.274													21	60	---	---	---	---	PASS	A	49833966	A	A	49833966	3	1	167	1	0	0	0	0	1	0	0	0	1791	1145	40	1	769	1	C15orf33	15	49833966	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1404920	49833966	52697426	311	60054										
THSD4	79875	broad.mit.edu	37	chr15	72039276	72039276	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtgtacgccaaccgcagcctGacggtgcagccctaccgctg	12	16	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:72039276G>A	uc002atb.1	+	12	2215	c.2136G>A	c.(2134-2136)CTG>CTA	p.L712L	THSD4_uc002ate.2_Silent_p.L352L	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	712	TSP type-1 2.					proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						ACCGCAGCCTGACGGTGCAGC	0.642													7	12	---	---	---	---	PASS	A	72039276	A	A	72039276	2	1	167	1	0	0	0	0	0	0	0	1	15875	1277	45	2		2	THSD4	15	72039276	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	22205310	72039276	30492116	312	60055										
CCDC33	80125	broad.mit.edu	37	chr15	74554868	74554868	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	accagagcccctatctggggGgacacggtgaatgtggagat	15	9	1	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:74554868G>A	uc002axo.2	+	3	667	c.273G>A	c.(271-273)GGG>GGA	p.G91G		NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	294	C2.						protein binding			ovary(3)|skin(2)	5						CTATCTGGGGGGACACGGTGA	0.582													11	13	---	---	---	---	PASS	A	74554868	A	A	74554868	2	1	167	1	0	0	0	0	0	0	0	1	2806	1219	43	3		3	CCDC33	15	74554868	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	2515592	74554868	27976524	313	60056										
ARNT2	9915	broad.mit.edu	37	chr15	80806740	80806740	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gatacatcaaggcctggccaCcagcaggtaaggagacctgc	12	12	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:80806740C>A	uc002bfr.2	+	8	1037	c.871C>A	c.(871-873)CCA>ACA	p.P291T	ARNT2_uc010unm.1_Missense_Mutation_p.P280T|ARNT2_uc002bfs.2_Missense_Mutation_p.P280T	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	291					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			GGCCTGGCCACCAGCAGGTAA	0.478													86	96	---	---	---	---	PASS	A	80806740	A	A	80806740	3	1	167	1	0	0	0	0	1	0	0	0	966	507	18	3	901	3	ARNT2	15	80806740	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	6251872	80806740	21724652	314	60057										
AP3B2	8120	broad.mit.edu	37	chr15	83333598	83333598	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tctgctcaccactgtctgcgGactccgtggggcctgactcc	11	16	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:83333598G>A	uc010uoh.1	-	17	2246	c.2069C>T	c.(2068-2070)TCC>TTC	p.S690F	AP3B2_uc010uoi.1_Missense_Mutation_p.S709F|AP3B2_uc010uoj.1_Missense_Mutation_p.S658F|AP3B2_uc010bmp.2_5'Flank|AP3B2_uc010uog.1_Missense_Mutation_p.S326F|AP3B2_uc002biy.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	690	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)			ACTGTCTGCGGACTCCGTGGG	0.532													7	6	---	---	---	---	PASS	A	83333598	A	A	83333598	3	1	167	1	0	0	0	0	1	0	0	0	745	1174	41	2	1219	2	AP3B2	15	83333598	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	2526858	83333598	19197794	315	60058										
BNC1	646	broad.mit.edu	37	chr15	83926867	83926867	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctttttggtggaggtttaggTttgagctgtgtctacaagag	14	4	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:83926867T>C	uc002bjt.1	-	5	2400	c.2312A>G	c.(2311-2313)AAC>AGC	p.N771S	BNC1_uc010uos.1_Missense_Mutation_p.N759S	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	771	C2H2-type 4.				epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						GAGGTTTAGGTTTGAGCTGTG	0.443													12	62	---	---	---	---	PASS	C	83926867	C	C	83926867	3	2	167	1	0	0	0	0	1	0	0	0	1474	1725	60	5	676	5	BNC1	15	83926867	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	593269	83926867	18604525	316	60059										
WDR93	56964	broad.mit.edu	37	chr15	90255313	90255313	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gagatctctcaaggaggggaCtttgcagccttcctcctaca	10	12	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:90255313C>A	uc002boj.2	+	5	719	c.618C>A	c.(616-618)GAC>GAA	p.D206E	WDR93_uc010bnr.2_Missense_Mutation_p.D206E	NM_020212	NP_064597	Q6P2C0	WDR93_HUMAN	WD repeat domain 93	206					electron transport chain	mitochondrial inner membrane	oxidoreductase activity, acting on NADH or NADPH			ovary(2)	2	Lung NSC(78;0.0237)|all_lung(78;0.0478)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)			AAGGAGGGGACTTTGCAGCCT	0.418													13	36	---	---	---	---	PASS	A	90255313	A	A	90255313	3	1	167	1	0	0	0	0	1	0	0	0	17337	564	20	3	632	3	WDR93	15	90255313	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	6328446	90255313	12276079	317	60060										
SNRPA1	6627	broad.mit.edu	37	chr15	101832213	101832213	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaatgagttctgtcagacagGgcagagcctgatcaagtccc	12	10	3	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:101832213G>A	uc002bww.2	-	3	340	c.263C>T	c.(262-264)CCC>CTC	p.P88L	SNRPA1_uc002bwx.2_Intron|SNRPA1_uc010bpc.2_Intron	NM_003090	NP_003081	P09661	RU2A_HUMAN	small nuclear ribonucleoprotein polypeptide A'	88						catalytic step 2 spliceosome|nucleoplasm|U2 snRNP	protein binding|RNA binding			kidney(1)	1	Lung NSC(78;0.00156)|all_lung(78;0.00195)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00113)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGTCAGACAGGGCAGAGCCTG	0.383													54	190	---	---	---	---	PASS	A	101832213	A	A	101832213	3	1	167	1	0	0	0	0	1	0	0	0	14860	1232	43	3	532	3	SNRPA1	15	101832213	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	11576900	101832213	699179	318	60061										
TARSL2	123283	broad.mit.edu	37	chr15	102261405	102261405	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttgcccatcagccactcttaCtgtgatgatgttgcttgtat	8	10	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:102261405C>A	uc002bxm.2	-	3	545	c.490G>T	c.(490-492)GTA>TTA	p.V164L	TARSL2_uc010usi.1_RNA	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2	164					threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GCCACTCTTACTGTGATGATG	0.413													71	85	---	---	---	---	PASS	A	102261405	A	A	102261405	3	1	167	1	0	0	0	0	1	0	0	0	15558	565	20	3	1986	3	TARSL2	15	102261405	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	429192	102261405	269987	319	60062										
OR4F6	390648	broad.mit.edu	37	chr15	102346577	102346577	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	taattctcataatctcttacAtctttattttggtgactgtt	4	7	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr15:102346577A>G	uc010utr.1	+	1	655	c.655A>G	c.(655-657)ATC>GTC	p.I219V		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	219	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			AATCTCTTACATCTTTATTTT	0.378													35	61	---	---	---	---	PASS	G	102346577	G	G	102346577	3	3	167	1	0	0	0	0	1	0	0	0	11066	217	8	5	657	5	OR4F6	15	102346577	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	85172	102346577	184815	320	60063										
NARFL	64428	broad.mit.edu	37	chr16	789680	789680	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agctcccgtcatcttcaatgCgaatcttggccacgccactt	7	15	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr16:789680C>T	uc002cjr.2	-	2	137	c.125G>A	c.(124-126)CGC>CAC	p.R42H	NARFL_uc002cjp.2_5'Flank|NARFL_uc002cjq.2_5'UTR|NARFL_uc002cjs.2_5'UTR|NARFL_uc010brc.1_Missense_Mutation_p.R42H|NARFL_uc010uur.1_Missense_Mutation_p.R42H	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	42					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				ATCTTCAATGCGAATCTTGGC	0.537													23	55	---	---	---	---	PASS	T	789680	T	T	789680	3	4	167	1	0	0	0	0	1	0	0	0	10168	768	27	1	1345	1	NARFL	16	789680	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08		789680	89565073	321	60064										
SOX8	30812	broad.mit.edu	37	chr16	1034811	1034811	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gccggccggtggacagcgggCgccagaacatcgacttcagc	15	14	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr16:1034811C>A	uc002ckn.2	+	3	881	c.766C>A	c.(766-768)CGC>AGC	p.R256S		NM_014587	NP_055402	P57073	SOX8_HUMAN	SRY (sex determining region Y)-box 8	256					adipose tissue development|enteric nervous system development|fat cell differentiation|in utero embryonic development|metanephric nephron tubule formation|morphogenesis of a branching epithelium|negative regulation of apoptosis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|neural crest cell migration|oligodendrocyte differentiation|osteoblast differentiation|peripheral nervous system development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of gliogenesis|positive regulation of osteoblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone levels|renal vesicle induction|retinal rod cell differentiation|Sertoli cell development|signal transduction|spermatogenesis|ureter morphogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2		Hepatocellular(780;0.00308)				GGACAGCGGGCGCCAGAACAT	0.682													6	15	---	---	---	---	PASS	A	1034811	A	A	1034811	3	1	167	1	0	0	0	0	1	0	0	0	14957	768	27	1	776	1	SOX8	16	1034811	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	245131	1034811	89319942	322	60065										
GP2	2813	broad.mit.edu	37	chr16	20331786	20331786	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agtctagctgaggctgcaaaCtgtggacatctgcaaagcag	12	9	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr16:20331786C>T	uc002dgv.2	-	6	748	c.665G>A	c.(664-666)AGT>AAT	p.S222N	GP2_uc002dgw.2_Missense_Mutation_p.S219N|GP2_uc002dgx.2_Missense_Mutation_p.S75N|GP2_uc002dgy.2_Missense_Mutation_p.S72N	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	222	EGF-like.					anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						AGGCTGCAAACTGTGGACATC	0.522													6	22	---	---	---	---	PASS	T	20331786	T	T	20331786	3	4	167	1	0	0	0	0	1	0	0	0	6582	565	20	3	976	3	GP2	16	20331786	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	19296975	20331786	70022967	323	60066										
IGSF6	10261	broad.mit.edu	37	chr16	21655691	21655691	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aagagctgtcaggaagctccGcagttccttgctgagcagct	12	11	1	2	rs75597368	byFrequency	TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr16:21655691G>C	uc002djg.1	-	3	507	c.454C>G	c.(454-456)CGG>GGG	p.R152G	uc002diq.3_Intron|METTL9_uc002dje.2_Intron|METTL9_uc002djf.2_Intron	NM_005849	NP_005840	O95976	IGSF6_HUMAN	immunoglobulin superfamily, member 6 precursor	152	Extracellular (Potential).				cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0				GBM - Glioblastoma multiforme(48;0.066)		AGGAAGCTCCGCAGTTCCTTG	0.418													12	44	---	---	---	---	PASS	C	21655691	C	C	21655691	3	2	167	1	0	0	0	0	1	0	0	0	7603	1086	38	4	287	4	IGSF6	16	21655691	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1323905	21655691	68699062	324	60067										
RNF40	9810	broad.mit.edu	37	chr16	30773976	30773976	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gactcttatcgagcccattcGtcttggaggcatctcttcca	8	13	3	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr16:30773976G>A	uc002dzq.2	+	2	233	c.110G>A	c.(109-111)CGT>CAT	p.R37H	C16orf93_uc002dzm.2_5'Flank|C16orf93_uc002dzn.2_5'Flank|C16orf93_uc002dzo.2_5'Flank|C16orf93_uc002dzp.2_5'Flank|RNF40_uc010caa.2_Missense_Mutation_p.R37H|RNF40_uc010cab.2_Missense_Mutation_p.R37H|RNF40_uc010vfa.1_Intron|RNF40_uc002dzr.2_Missense_Mutation_p.R37H|RNF40_uc010vfb.1_Missense_Mutation_p.R37H	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	37					histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			GAGCCCATTCGTCTTGGAGGC	0.597													8	38	---	---	---	---	PASS	A	30773976	A	A	30773976	3	1	167	1	0	0	0	0	1	0	0	0	13493	1145	40	1	112	1	RNF40	16	30773976	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	9118285	30773976	59580777	325	60068										
ITGAM	3684	broad.mit.edu	37	chr16	31309153	31309153	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cagccctaacagtgctggggGacgtaaatggggacaagctg	15	9	0	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr16:31309153G>T	uc002ebq.2	+	14	1683	c.1585G>T	c.(1585-1587)GAC>TAC	p.D529Y	ITGAM_uc002ebr.2_Missense_Mutation_p.D530Y|ITGAM_uc010cam.1_Intron|ITGAM_uc010can.2_Intron	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	529	FG-GAP 6.|Extracellular (Potential).|Potential.				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						AGTGCTGGGGGACGTAAATGG	0.612													26	57	---	---	---	---	PASS	T	31309153	T	T	31309153	3	4	167	1	0	0	0	0	1	0	0	0	7887	1174	41	2	1642	2	ITGAM	16	31309153	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	535177	31309153	59045600	326	60069										
ABCC12	94160	broad.mit.edu	37	chr16	48158195	48158195	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acatattcccaagatcttccCctgccagagaaacagagatg	7	12	1	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr16:48158195C>G	uc002efc.1	-	10	1862	c.1516G>C	c.(1516-1518)GGG>CGG	p.G506R	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.G506R	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	506	ABC transporter 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				AAGATCTTCCCCTGCCAGAGA	0.537													20	46	---	---	---	---	PASS	G	48158195	G	G	48158195	3	3	167	1	0	0	0	0	1	0	0	0	52	637	22	4	2643	4	ABCC12	16	48158195	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	16849042	48158195	42196558	327	60070										
ATP2C2	9914	broad.mit.edu	37	chr16	84473128	84473128	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cgtcagatgggcttcgtgccGaggtgagtgccaaaggaatt	15	8	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr16:84473128G>A	uc002fhx.2	+	13	1296	c.1207G>A	c.(1207-1209)GAG>AAG	p.E403K	ATP2C2_uc010chj.2_Missense_Mutation_p.E403K|ATP2C2_uc002fhy.2_Missense_Mutation_p.E420K|ATP2C2_uc002fhz.2_Missense_Mutation_p.E252K	NM_014861	NP_055676	O75185	AT2C2_HUMAN	ATPase, Ca++ transporting, type 2C, member 2	403	Extracellular (Potential).				ATP biosynthetic process	Golgi membrane|integral to membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			breast(1)|central_nervous_system(1)	2						GCTTCGTGCCGAGGTGAGTGC	0.493													36	72	---	---	---	---	PASS	A	84473128	A	A	84473128	3	1	167	1	0	0	0	0	1	0	0	0	1144	1059	37	2	1257	2	ATP2C2	16	84473128	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	36314933	84473128	5881625	328	60071										
DNAH9	1770	broad.mit.edu	37	chr17	11520814	11520814	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agaatgcagaatttccggagGtgaagccccagctgcggccc	13	12	0	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:11520814G>T	uc002gne.2	+	5	1059	c.991G>T	c.(991-993)GTG>TTG	p.V331L		NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	331	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		ATTTCCGGAGGTGAAGCCCCA	0.602													14	19	---	---	---	---	PASS	T	11520814	T	T	11520814	3	4	167	1	0	0	0	0	1	0	0	0	4608	1261	44	3	1009	3	DNAH9	17	11520814	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08		11520814	69674396	329	60072										
TAOK1	57551	broad.mit.edu	37	chr17	27818857	27818857	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tccagaaaatccctcaagatCgacctacatcagaggaactt	6	12	2	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:27818857C>G	uc002hdz.1	+	10	999	c.805C>G	c.(805-807)CGA>GGA	p.R269G	TAOK1_uc010wbe.1_Missense_Mutation_p.R269G|TAOK1_uc010wbf.1_Missense_Mutation_p.R269G|TAOK1_uc002heb.1_Missense_Mutation_p.R95G	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	269	Protein kinase.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			CCCTCAAGATCGACCTACATC	0.254													24	39	---	---	---	---	PASS	G	27818857	G	G	27818857	3	3	167	1	0	0	0	0	1	0	0	0	15544	876	31	2	839	2	TAOK1	17	27818857	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	16298043	27818857	53376353	330	60073										
COPZ2	51226	broad.mit.edu	37	chr17	46109586	46109586	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gttctccagcaaccagcgctTctccacgttcttcctgaagg	8	15	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:46109586T>C	uc002imy.2	-	10	443	c.430A>G	c.(430-432)AAG>GAG	p.K144E		NM_016429	NP_057513	Q9P299	COPZ2_HUMAN	coatomer protein complex, subunit zeta 2	144					intracellular protein transport|vesicle-mediated transport	cis-Golgi network|COPI vesicle coat					0						AACCAGCGCTTCTCCACGTTC	0.597													7	25	---	---	---	---	PASS	C	46109586	C	C	46109586	3	2	167	1	0	0	0	0	1	0	0	0	3742	1792	62	5	218	5	COPZ2	17	46109586	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	18290729	46109586	35085624	331	60074										
EPX	8288	broad.mit.edu	37	chr17	56277147	56277147	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctttgccagctggcggatcgTgtatgaaggtgaccaggttt	14	8	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:56277147T>C	uc002ivq.2	+	9	1615	c.1529T>C	c.(1528-1530)GTG>GCG	p.V510A		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	510					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						TGGCGGATCGTGTATGAAGGT	0.612													33	15	---	---	---	---	PASS	C	56277147	C	C	56277147	3	2	167	1	0	0	0	0	1	0	0	0	5200	1696	59	5	1563	5	EPX	17	56277147	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	10167561	56277147	24918063	332	60075										
BZRAP1	9256	broad.mit.edu	37	chr17	56389036	56389036	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	actgatgatcaagatcccagGggagggcccaggctcgatct	13	11	2	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:56389036G>A	uc002ivx.3	-	18	3848	c.2977C>T	c.(2977-2979)CCT>TCT	p.P993S	BZRAP1_uc010dcs.2_Missense_Mutation_p.P933S|BZRAP1_uc010wnt.1_Missense_Mutation_p.P993S	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	993	Fibronectin type-III 3.					mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AAGATCCCAGGGGAGGGCCCA	0.622													13	32	---	---	---	---	PASS	A	56389036	A	A	56389036	3	1	167	1	0	0	0	0	1	0	0	0	1577	1232	43	3	2652	3	BZRAP1	17	56389036	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	111889	56389036	24806174	333	60076										
CLTC	1213	broad.mit.edu	37	chr17	57754494	57754494	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtattgtgagaagagagatcCacatctggcctgtgttgctt	12	7	1	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:57754494C>T	uc002ixq.1	+	17	3184	c.2741C>T	c.(2740-2742)CCA>CTA	p.P914L	CLTC_uc002ixp.2_Missense_Mutation_p.P914L|CLTC_uc002ixr.1_Missense_Mutation_p.P918L	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	914	Heavy chain arm.|Proximal segment.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					AAGAGAGATCCACATCTGGCC	0.393			T	ALK|TFE3	ALCL|renal 								31	15	---	---	---	---	PASS	T	57754494	T	T	57754494	3	4	167	1	0	0	0	0	1	0	0	0	3566	594	21	3	2807	3	CLTC	17	57754494	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1365458	57754494	23440716	334	60077										
TBX2	6909	broad.mit.edu	37	chr17	59480532	59480532	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acctacgtgttcccggagacCgacttcatcgccgtcactgc	9	16	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:59480532C>A	uc010wox.1	+	3	1055	c.774C>A	c.(772-774)ACC>ACA	p.T258T	TBX2_uc002ize.2_Silent_p.T248T|TBX2_uc002izg.2_Silent_p.T104T	NM_005994	NP_005985	Q13207	TBX2_HUMAN	T-box 2	258	T-box.				cell aging|positive regulation of cell proliferation		sequence-specific DNA binding				0						TCCCGGAGACCGACTTCATCG	0.622													40	21	---	---	---	---	PASS	A	59480532	A	A	59480532	2	1	167	1	0	0	0	0	0	0	0	1	15652	639	23	1		1	TBX2	17	59480532	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	1726038	59480532	21714678	335	60078										
FTSJ3	117246	broad.mit.edu	37	chr17	61897535	61897535	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gctccagcctcttcagcatcTgcaaaggaacctgtcaggtg	10	13	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:61897535T>C	uc002jbz.2	-	19	2335	c.2257_splice	c.e19-1	p.M753_splice	FTSJ3_uc002jca.2_Splice_Site_p.M753_splice	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3						RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						CTTCAGCATCTGCAAAGGAAC	0.557													29	32	---	---	---	---	PASS	C	61897535	C	C	61897535	5	2	167	1	0	0	0	0	0	0	1	0	6089	1594	55	5	296	5	FTSJ3	17	61897535	Splice_Site	SNP	T	TCGA-66-2789-01A-01D-0983-08	2417003	61897535	19297675	336	60079										
TEX2	55852	broad.mit.edu	37	chr17	62290610	62290610	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tggagagttctgaagcacttGaagataaggctttgggccta	13	6	1	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:62290610G>C	uc002jec.2	-	2	1141	c.968C>G	c.(967-969)TCA>TGA	p.S323*	TEX2_uc002jed.2_Nonsense_Mutation_p.S323*|TEX2_uc002jee.2_Nonsense_Mutation_p.S323*	NM_018469	NP_060939	Q8IWB9	TEX2_HUMAN	testis expressed sequence 2	323					signal transduction|sphingolipid metabolic process	integral to membrane				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		TGAAGCACTTGAAGATAAGGC	0.453													11	46	---	---	---	---	PASS	C	62290610	C	C	62290610	4	2	167	1	0	0	0	0	0	1	0	0	15778	1294	45	2	2480	2	TEX2	17	62290610	Nonsense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	393075	62290610	18904600	337	60080										
KIF19	124602	broad.mit.edu	37	chr17	72349680	72349680	+	Missense_Mutation	SNP	C	A	A													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tggatcaactcttcccctgaCagcagtgagaacctgtcgga							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:72349680C>A	uc002jkm.3	+	17	2406	c.2268C>A	c.(2266-2268)GAC>GAA	p.D756E		NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	756					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						CTTCCCCTGACAGCAGTGAGA	0.597													20	13	---	---	---	---	PASS	A	72349680	A	A	72349680	3	1	167	1	0	0	0	0	1	0	0	0	8282	477	17	3	2334	3	KIF19	17	72349680	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	10059070	72349680	8845530	338	60081	1057	2								
KIF19	124602	broad.mit.edu	37	chr17	72349681	72349681	+	Missense_Mutation	SNP	A	G	G													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggatcaactcttcccctgacAgcagtgagaacctgtcggag							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:72349681A>G	uc002jkm.3	+	17	2407	c.2269A>G	c.(2269-2271)AGC>GGC	p.S757G		NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	757					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						TTCCCCTGACAGCAGTGAGAA	0.597													21	12	---	---	---	---	PASS	G	72349681	G	G	72349681	3	3	167	1	0	0	0	0	1	0	0	0	8282	188	7	5	2335	5	KIF19	17	72349681	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	1	72349681	8845529	339	60082	1057	2								
CCDC40	55036	broad.mit.edu	37	chr17	78058646	78058646	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cagaagaccctggtggagctGgaccaggacgtgaagaaagt	15	8	0	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:78058646G>A	uc010dht.2	+	13	2121	c.2094G>A	c.(2092-2094)CTG>CTA	p.L698L	CCDC40_uc002jxm.3_Silent_p.L481L|CCDC40_uc002jxn.3_Silent_p.L94L	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	698	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			TGGTGGAGCTGGACCAGGACG	0.562													10	35	---	---	---	---	PASS	A	78058646	A	A	78058646	2	1	167	1	0	0	0	0	0	0	0	1	2812	1335	47	3		3	CCDC40	17	78058646	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	5708965	78058646	3136564	340	60083										
SIRT7	51547	broad.mit.edu	37	chr17	79872183	79872183	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cacgtaccttcaggctggacCctagacacaggatggtgtct	11	12	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr17:79872183C>A	uc002kcj.1	-	7	836	c.803G>T	c.(802-804)GGG>GTG	p.G268V	PCYT2_uc002kcf.1_5'Flank|PCYT2_uc002kcg.1_5'Flank|PCYT2_uc002kch.1_5'Flank|PCYT2_uc002kci.1_5'Flank|PCYT2_uc010dii.1_5'Flank|PCYT2_uc010wvc.1_5'Flank|SIRT7_uc002kck.1_Missense_Mutation_p.G119V|SIRT7_uc002kcl.1_Missense_Mutation_p.G186V	NM_016538	NP_057622	Q9NRC8	SIRT7_HUMAN	sirtuin 7	268	Deacetylase sirtuin-type.				chromatin silencing|positive regulation of transcription on exit from mitosis|protein deacetylation|rRNA transcription	cytoplasm|nucleolus organizer region	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ binding|protein binding|zinc ion binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0165)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CAGGCTGGACCCTAGACACAG	0.617													23	25	---	---	---	---	PASS	A	79872183	A	A	79872183	3	1	167	1	0	0	0	0	1	0	0	0	14343	623	22	3	415	3	SIRT7	17	79872183	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1813537	79872183	1323027	341	60084										
CTAGE1	64693	broad.mit.edu	37	chr18	19996144	19996144	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acctatcacagcttgattctCctctttctttggtaatctga	5	11	5	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr18:19996144C>A	uc002ktv.1	-	1	1735	c.1631G>T	c.(1630-1632)GGA>GTA	p.G544V		NM_172241	NP_758441	Q96RT6	CTGE2_HUMAN	cutaneous T-cell lymphoma-associated antigen 1	544						integral to membrane				ovary(1)	1	all_cancers(21;0.000361)|all_epithelial(16;9.61e-06)|Colorectal(14;0.0533)|Lung NSC(20;0.0605)|Ovarian(2;0.116)|all_lung(20;0.135)					GCTTGATTCTCCTCTTTCTTT	0.547													16	59	---	---	---	---	PASS	A	19996144	A	A	19996144	3	1	167	1	0	0	0	0	1	0	0	0	3992	855	30	2	610	2	CTAGE1	18	19996144	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08		19996144	58081104	342	60085										
DSC1	1823	broad.mit.edu	37	chr18	28719713	28719713	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtagaaaatggcactcacctGcatccactgcaacaactgaa	7	12	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr18:28719713G>T	uc002kwn.2	-	11	1923	c.1661C>A	c.(1660-1662)GCA>GAA	p.A554E	DSC1_uc002kwm.2_Missense_Mutation_p.A554E	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	554	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			GCACTCACCTGCATCCACTGC	0.313													5	14	---	---	---	---	PASS	T	28719713	T	T	28719713	3	4	167	1	0	0	0	0	1	0	0	0	4765	1319	46	3	1087	3	DSC1	18	28719713	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	8723569	28719713	49357535	343	60086										
MEP1B	4225	broad.mit.edu	37	chr18	29793520	29793520	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tacagacccatttatgaccaCcggttcgtaactcattttct	5	12	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr18:29793520C>A	uc002kxj.3	+	11	1624	c.1577C>A	c.(1576-1578)ACC>AAC	p.T526N		NM_005925	NP_005916	Q16820	MEP1B_HUMAN	meprin A beta precursor	526	Extracellular (Potential).|MATH.				digestion|proteolysis	extracellular space|integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)	2						TTTATGACCACCGGTTCGTAA	0.418													15	60	---	---	---	---	PASS	A	29793520	A	A	29793520	3	1	167	1	0	0	0	0	1	0	0	0	9476	507	18	3	1619	3	MEP1B	18	29793520	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1073807	29793520	48283728	344	60087										
FAM59A	64762	broad.mit.edu	37	chr18	29867260	29867260	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttcactagcttctgggaaaaGgtagtcgctcccactatctc	8	12	3	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr18:29867260G>T	uc002kxl.2	-	4	1356	c.1300C>A	c.(1300-1302)CTT>ATT	p.L434I	FAM59A_uc002kxk.1_Missense_Mutation_p.L434I	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	434										ovary(1)|skin(1)	2						TCTGGGAAAAGGTAGTCGCTC	0.562													31	75	---	---	---	---	PASS	T	29867260	T	T	29867260	3	4	167	1	0	0	0	0	1	0	0	0	5592	1000	35	3	1339	3	FAM59A	18	29867260	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	73740	29867260	48209988	345	60088										
C18orf34	374864	broad.mit.edu	37	chr18	30873191	30873191	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tattgcttcagtcacttcctCttccttctcctcaatattag	3	13	5	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr18:30873191C>A	uc002kxn.2	-	11	1250	c.1108G>T	c.(1108-1110)GAG>TAG	p.E370*	C18orf34_uc010xbr.1_Nonsense_Mutation_p.E370*|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Nonsense_Mutation_p.E370*|C18orf34_uc002kxp.2_Nonsense_Mutation_p.E370*	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	370	Potential.									ovary(1)	1						GTCACTTCCTCTTCCTTCTCC	0.289													5	28	---	---	---	---	PASS	A	30873191	A	A	30873191	4	1	167	1	0	0	0	0	0	1	0	0	1902	922	32	2	1543	2	C18orf34	18	30873191	Nonsense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1005931	30873191	47204057	346	60089										
ELP2	55250	broad.mit.edu	37	chr18	33710009	33710009	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tctggcctttggcacgtcctGctccgtggtgctctatgacc	11	14	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr18:33710009G>T	uc002kzk.1	+	1	123	c.113G>T	c.(112-114)TGC>TTC	p.C38F	SLC39A6_uc010dmy.2_5'Flank|SLC39A6_uc002kzj.2_5'Flank|ELP2_uc010xcg.1_Missense_Mutation_p.C38F|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Missense_Mutation_p.C38F|ELP2_uc010xch.1_Missense_Mutation_p.C38F|ELP2_uc002kzn.1_Missense_Mutation_p.C38F|ELP2_uc002kzo.1_Missense_Mutation_p.C38F	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	38	WD 1.				regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						GGCACGTCCTGCTCCGTGGTG	0.622													11	29	---	---	---	---	PASS	T	33710009	T	T	33710009	3	4	167	1	0	0	0	0	1	0	0	0	5080	1319	46	3	115	3	ELP2	18	33710009	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	2836818	33710009	44367239	347	60090										
DCC	1630	broad.mit.edu	37	chr18	50592439	50592439	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggaagcaacttacggatactTggggtggtgaagtcagatga	15	5	1	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr18:50592439T>A	uc002lfe.1	+	7	1751	c.1164T>A	c.(1162-1164)CTT>CTA	p.L388L	DCC_uc010xdr.1_Silent_p.L236L|DCC_uc010dpf.1_Silent_p.L43L	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	388	Extracellular (Potential).|Ig-like C2-type 4.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TACGGATACTTGGGGTGGTGA	0.433													26	97	---	---	---	---	PASS	A	50592439	A	A	50592439	2	1	167	1	0	0	0	0	0	0	0	1	4282	1799	63	5		5	DCC	18	50592439	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	16882430	50592439	27484809	348	60091										
DSEL	92126	broad.mit.edu	37	chr18	65181699	65181699	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agcttttggttgggtctgaaAtcttgcactttctgtgtttt	10	6	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr18:65181699A>T	uc002lke.1	-	2	1401	c.177T>A	c.(175-177)GAT>GAA	p.D59E		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	49						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				TGGGTCTGAAATCTTGCACTT	0.378													14	47	---	---	---	---	PASS	T	65181699	T	T	65181699	3	4	167	1	0	0	0	0	1	0	0	0	4775	98	4	5	3495	5	DSEL	18	65181699	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	14589260	65181699	12895549	349	60092										
LPHN1	22859	broad.mit.edu	37	chr19	14273977	14273977	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aagacggcaccatcgtagacCacaaagcctgtgccatccac	8	15	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:14273977C>A	uc010xnn.1	-	6	947	c.651G>T	c.(649-651)GTG>GTT	p.V217V	LPHN1_uc010xno.1_Silent_p.V212V|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	217	Olfactomedin-like.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						CATCGTAGACCACAAAGCCTG	0.602													4	21	---	---	---	---	PASS	A	14273977	A	A	14273977	2	1	167	1	0	0	0	0	0	0	0	1	8915	581	21	3		3	LPHN1	19	14273977	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08		14273977	44855006	350	60093										
ZNF43	7594	broad.mit.edu	37	chr19	21991722	21991722	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aaaagcttcaccacattctgTacatttatagaatttctctg	4	9	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:21991722T>C	uc002nqj.2	-	4	1247	c.1117A>G	c.(1117-1119)ACA>GCA	p.T373A	ZNF43_uc010ecv.2_Missense_Mutation_p.T367A|ZNF43_uc002nql.2_Missense_Mutation_p.T367A|ZNF43_uc002nqm.2_Missense_Mutation_p.T367A|ZNF43_uc002nqk.2_Missense_Mutation_p.T303A	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	373	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		CCACATTCTGTACATTTATAG	0.373													17	32	---	---	---	---	PASS	C	21991722	C	C	21991722	3	2	167	1	0	0	0	0	1	0	0	0	17900	1638	57	5	1316	5	ZNF43	19	21991722	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	7717745	21991722	37137261	351	60094										
CCNE1	898	broad.mit.edu	37	chr19	30313189	30313189	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atgttgactgccttgaatttCcttatggtatacttgctgct	8	8	0	2	rs139792204	byFrequency	TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:30313189C>A	uc002nsn.2	+	10	1066	c.883C>A	c.(883-885)CCT>ACT	p.P295T	CCNE1_uc002nso.2_Missense_Mutation_p.P280T|CCNE1_uc002nsp.2_Missense_Mutation_p.P42T	NM_001238	NP_001229	P24864	CCNE1_HUMAN	cyclin E1 isoform 1	295					androgen receptor signaling pathway|cell division|positive regulation of transcription, DNA-dependent|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm	androgen receptor binding|protein kinase binding|transcription coactivator activity			lung(2)	2	all_cancers(1;2.19e-31)|all_epithelial(1;1.49e-30)|all_lung(1;1.37e-11)|Lung NSC(1;2.35e-11)|Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|Epithelial(1;6.85e-98)|all cancers(1;1.38e-94)|OV - Ovarian serous cystadenocarcinoma(1;1.38e-90)|STAD - Stomach adenocarcinoma(5;5.8e-07)|GBM - Glioblastoma multiforme(4;0.0394)|Lung(7;0.092)|LUAD - Lung adenocarcinoma(5;0.115)|BRCA - Breast invasive adenocarcinoma(6;0.183)|COAD - Colon adenocarcinoma(1;0.188)|Colorectal(1;0.202)			CCTTGAATTTCCTTATGGTAT	0.453													28	66	---	---	---	---	PASS	A	30313189	A	A	30313189	3	1	167	1	0	0	0	0	1	0	0	0	2920	855	30	2	917	2	CCNE1	19	30313189	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	8321467	30313189	28815794	352	60095										
GAPDHS	26330	broad.mit.edu	37	chr19	36034322	36034322	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tggcgagatgggcggggtgcCcaccagaacatcatcccagc	14	13	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:36034322C>A	uc002oaf.1	+	8	938	c.822C>A	c.(820-822)GCC>GCA	p.A274A	uc010eec.1_RNA|uc002oag.2_Intron|TMEM147_uc002oai.1_5'Flank|TMEM147_uc002oaj.1_5'Flank|TMEM147_uc002oak.1_5'Flank	NM_014364	NP_055179	O14556	G3PT_HUMAN	glyceraldehyde-3-phosphate dehydrogenase,	274					gluconeogenesis|glycolysis|positive regulation of glycolysis|sperm motility	cytosol	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity|NAD binding|protein binding				0	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		NADH(DB00157)	GGCGGGGTGCCCACCAGAACA	0.587													15	40	---	---	---	---	PASS	A	36034322	A	A	36034322	2	1	167	1	0	0	0	0	0	0	0	1	6237	610	22	3		3	GAPDHS	19	36034322	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	5721133	36034322	23094661	353	60096										
ZNF527	84503	broad.mit.edu	37	chr19	37880462	37880462	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atttgaatgcagtaaatgtgGgaaagccttcagtgatgctt	11	5	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:37880462G>A	uc010efk.1	+	5	1622	c.1511G>A	c.(1510-1512)GGG>GAG	p.G504E	ZNF527_uc002ogf.3_Missense_Mutation_p.G472E|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	504	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGTAAATGTGGGAAAGCCTTC	0.393													21	65	---	---	---	---	PASS	A	37880462	A	A	37880462	3	1	167	1	0	0	0	0	1	0	0	0	17965	1232	43	3	1525	3	ZNF527	19	37880462	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1846140	37880462	21248521	354	60097										
ZNF781	163115	broad.mit.edu	37	chr19	38160382	38160382	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tcatatggtttctcaccagtAtgaattctttgatgttgagt	8	6	3	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:38160382A>G	uc002ogy.2	-	4	1410	c.668T>C	c.(667-669)ATA>ACA	p.I223T	ZNF781_uc002ogz.2_Missense_Mutation_p.I218T	NM_152605	NP_689818	Q8N8C0	ZN781_HUMAN	zinc finger protein 781	223					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTCACCAGTATGAATTCTTT	0.358													4	44	---	---	---	---	PASS	G	38160382	G	G	38160382	3	3	167	1	0	0	0	0	1	0	0	0	18151	449	16	5	319	5	ZNF781	19	38160382	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	279920	38160382	20968601	355	60098										
SIPA1L3	23094	broad.mit.edu	37	chr19	38572647	38572647	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tctccaggagaaggtccaaaGacgtggagttccaggacggg	15	9	1	2	rs138476311	byFrequency	TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:38572647G>C	uc002ohk.2	+	3	951	c.442G>C	c.(442-444)GAC>CAC	p.D148H		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	148					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			AAGGTCCAAAGACGTGGAGTT	0.657													18	59	---	---	---	---	PASS	C	38572647	C	C	38572647	3	2	167	1	0	0	0	0	1	0	0	0	14331	942	33	2	444	2	SIPA1L3	19	38572647	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	412265	38572647	20556336	356	60099										
IL28A	282616	broad.mit.edu	37	chr19	39760578	39760578	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tcccctggctgcctcgaggcCtctgtcaccttcaacctctt	7	18	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:39760578C>T	uc002oku.1	+	6	580	c.528C>T	c.(526-528)GCC>GCT	p.A176A		NM_172138	NP_742150	Q8IZJ0	IL28A_HUMAN	interleukin 28A precursor	176					response to virus	extracellular space	cytokine activity			ovary(1)|skin(1)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;5.39e-26)|all cancers(26;4.1e-23)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			GCCTCGAGGCCTCTGTCACCT	0.627													7	10	---	---	---	---	PASS	T	39760578	T	T	39760578	2	4	167	1	0	0	0	0	0	0	0	1	7682	668	24	3		3	IL28A	19	39760578	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	1187931	39760578	19368405	357	60100										
IRGQ	126298	broad.mit.edu	37	chr19	44096971	44096971	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgagtgcattctccaatcccCctccacctgcgttctttaag	6	15	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:44096971C>T	uc002oww.2	-	2	1197	c.1079G>A	c.(1078-1080)GGG>GAG	p.G360E	IRGQ_uc010eiv.2_Missense_Mutation_p.G360E	NM_001007561	NP_001007562	Q8WZA9	IRGQ_HUMAN	immunity-related GTPase family, Q	360	Poly-Gly.						protein binding			ovary(1)|pancreas(1)	2		Prostate(69;0.0199)				CTCCAATCCCCCTCCACCTGC	0.597													36	110	---	---	---	---	PASS	T	44096971	T	T	44096971	3	4	167	1	0	0	0	0	1	0	0	0	7839	623	22	3	796	3	IRGQ	19	44096971	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	4336393	44096971	15032012	358	60101										
TOMM40	10452	broad.mit.edu	37	chr19	45397079	45397079	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acatggacaacagtggcagtCtcaacgctcaggtcattcac	9	12	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:45397079C>G	uc002ozx.3	+	5	579	c.478C>G	c.(478-480)CTC>GTC	p.L160V	TOMM40_uc002ozy.3_Missense_Mutation_p.L160V|TOMM40_uc002paa.3_Missense_Mutation_p.L160V|TOMM40_uc002ozz.2_Missense_Mutation_p.L160V	NM_006114	NP_006105	O96008	TOM40_HUMAN	translocase of outer mitochondrial membrane 40	160					protein targeting to mitochondrion	integral to membrane of membrane fraction|integral to mitochondrial outer membrane|mitochondrial outer membrane translocase complex|pore complex	porin activity|protein transmembrane transporter activity|voltage-gated anion channel activity				0	Lung NSC(12;0.0018)|all_lung(12;0.00481)			OV - Ovarian serous cystadenocarcinoma(262;0.0033)|Epithelial(262;0.176)		CAGTGGCAGTCTCAACGCTCA	0.612													7	25	---	---	---	---	PASS	G	45397079	G	G	45397079	3	3	167	1	0	0	0	0	1	0	0	0	16355	913	32	2	492	2	TOMM40	19	45397079	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	1300108	45397079	13731904	359	60102										
PPP1R13L	10848	broad.mit.edu	37	chr19	45888902	45888902	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtggcgccgtcgctgagcgtGgtggcgaagattgcagcgcc	18	11	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:45888902G>A	uc002pbn.2	-	11	2243	c.2166C>T	c.(2164-2166)ACC>ACT	p.T722T	PPP1R13L_uc002pbm.2_Silent_p.T301T|PPP1R13L_uc002pbo.2_Silent_p.T722T	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	722	ANK 2.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		CGCTGAGCGTGGTGGCGAAGA	0.667													4	16	---	---	---	---	PASS	A	45888902	A	A	45888902	2	1	167	1	0	0	0	0	0	0	0	1	12358	1335	47	3		3	PPP1R13L	19	45888902	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	491823	45888902	13240081	360	60103										
CARD8	22900	broad.mit.edu	37	chr19	48734082	48734082	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gatttcggcgacagcctcctCtggctctgcagtgacatcaa	10	13	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:48734082C>G	uc002pie.3	-	5	722	c.409G>C	c.(409-411)GAG>CAG	p.E137Q	CARD8_uc002pii.3_Missense_Mutation_p.E242Q|CARD8_uc010xzi.1_Missense_Mutation_p.E137Q|CARD8_uc010els.2_Missense_Mutation_p.E175Q|CARD8_uc010xzj.1_Missense_Mutation_p.E242Q|CARD8_uc010xzk.1_Missense_Mutation_p.E161Q|CARD8_uc002pif.3_Missense_Mutation_p.E137Q|CARD8_uc002pig.3_5'UTR|CARD8_uc002pih.3_Missense_Mutation_p.E192Q|CARD8_uc010xzl.1_Missense_Mutation_p.E192Q|CARD8_uc010xzm.1_Missense_Mutation_p.E242Q	NM_014959	NP_055774	Q9Y2G2	CARD8_HUMAN	caspase recruitment domain family, member 8	137					negative regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion	cytoplasm|nucleus	caspase activator activity|NACHT domain binding|protein homodimerization activity				0		all_lung(116;0.000112)|Lung NSC(112;0.000192)|all_epithelial(76;0.000349)|all_neural(266;0.0228)|Ovarian(192;0.113)|Prostate(7;0.184)		OV - Ovarian serous cystadenocarcinoma(262;0.000112)|all cancers(93;0.000293)|Epithelial(262;0.0129)|GBM - Glioblastoma multiforme(486;0.0336)		ACAGCCTCCTCTGGCTCTGCA	0.632													14	44	---	---	---	---	PASS	G	48734082	G	G	48734082	3	3	167	1	0	0	0	0	1	0	0	0	2651	922	32	2	913	2	CARD8	19	48734082	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2845180	48734082	10394901	361	60104										
SIGLEC11	114132	broad.mit.edu	37	chr19	50462101	50462101	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtgggtgacacagaccaggcGcaggctttggccctccagga	15	12	0	2	rs145434757	byFrequency	TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:50462101G>T	uc010ybh.1	-	7	1253	c.1162C>A	c.(1162-1164)CGC>AGC	p.R388S	SIGLEC11_uc010ybi.1_Missense_Mutation_p.R388S	NM_052884	NP_443116	Q96RL6	SIG11_HUMAN	sialic acid binding Ig-like lectin 11 isoform 1	388	Ig-like C2-type 3.|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)		CAGACCAGGCGCAGGCTTTGG	0.677													12	18	---	---	---	---	PASS	T	50462101	T	T	50462101	3	4	167	1	0	0	0	0	1	0	0	0	14307	1087	38	1	954	1	SIGLEC11	19	50462101	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1728019	50462101	8666882	362	60105										
ZNF473	25888	broad.mit.edu	37	chr19	50549003	50549003	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agaagccttacaaatgcagtGagtgtgggaaggccttccac	12	9	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:50549003G>C	uc002prn.2	+	5	1540	c.1303G>C	c.(1303-1305)GAG>CAG	p.E435Q	ZNF473_uc002prm.2_Missense_Mutation_p.E435Q|ZNF473_uc010ybo.1_Missense_Mutation_p.E423Q	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	435	C2H2-type 7.|Interaction with SLBP/pre-mRNA complex.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		CAAATGCAGTGAGTGTGGGAA	0.483													37	50	---	---	---	---	PASS	C	50549003	C	C	50549003	3	2	167	1	0	0	0	0	1	0	0	0	17928	1291	45	2	1317	2	ZNF473	19	50549003	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	86902	50549003	8579980	363	60106										
ZNF473	25888	broad.mit.edu	37	chr19	50549375	50549375	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atcagaacccagaacagaaaGagaagtgctttaagtgtaac	9	7	1	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:50549375G>C	uc002prn.2	+	5	1912	c.1675G>C	c.(1675-1677)GAG>CAG	p.E559Q	ZNF473_uc002prm.2_Missense_Mutation_p.E559Q|ZNF473_uc010ybo.1_Missense_Mutation_p.E547Q	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	559					histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		AGAACAGAAAGAGAAGTGCTT	0.458													27	26	---	---	---	---	PASS	C	50549375	C	C	50549375	3	2	167	1	0	0	0	0	1	0	0	0	17928	943	33	2	1689	2	ZNF473	19	50549375	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	372	50549375	8579608	364	60107										
SHANK1	50944	broad.mit.edu	37	chr19	51200905	51200905	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgccggaagagtctctttgcCttgtcactgcggctttctgc	11	12	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:51200905C>T	uc002psx.1	-	13	1897	c.1878G>A	c.(1876-1878)AAG>AAA	p.K626K		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	626					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GTCTCTTTGCCTTGTCACTGC	0.547													22	96	---	---	---	---	PASS	T	51200905	T	T	51200905	2	4	167	1	0	0	0	0	0	0	0	1	14264	680	24	3		3	SHANK1	19	51200905	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	651530	51200905	7928078	365	60108										
CD33	945	broad.mit.edu	37	chr19	51729094	51729094	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ccaaaatcctcatccctggcActctagaacccggccactcc	5	19	2	1	rs149059669		TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:51729094A>T	uc002pwa.2	+	3	494	c.454A>T	c.(454-456)ACT>TCT	p.T152S	CD33_uc010eos.1_Missense_Mutation_p.T152S|CD33_uc010eot.1_Missense_Mutation_p.T25S|CD33_uc010eou.1_RNA	NM_001772	NP_001763	P20138	CD33_HUMAN	CD33 antigen isoform 1 precursor	152	Extracellular (Potential).|Ig-like C2-type.				cell adhesion|cell-cell signaling|negative regulation of cell proliferation	external side of plasma membrane|integral to plasma membrane	receptor activity|sugar binding				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	CATCCCTGGCACTCTAGAACC	0.587													61	69	---	---	---	---	PASS	T	51729094	T	T	51729094	3	4	167	1	0	0	0	0	1	0	0	0	3005	159	6	5	464	5	CD33	19	51729094	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	528189	51729094	7399889	366	60109										
C19orf75	284369	broad.mit.edu	37	chr19	51769043	51769043	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gcttccaggaaagagttcttTggctgcccaggccttcgtga	12	11	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:51769043T>C	uc002pwb.1	+	4	698	c.317T>C	c.(316-318)TTG>TCG	p.L106S	C19orf75_uc010eov.1_RNA|C19orf75_uc010ycw.1_Missense_Mutation_p.L12S	NM_173635	NP_775906	Q8N7X8	CS075_HUMAN	hypothetical protein LOC284369	106						integral to membrane				ovary(1)|pancreas(1)	2						AAGAGTTCTTTGGCTGCCCAG	0.537													46	215	---	---	---	---	PASS	C	51769043	C	C	51769043	3	2	167	1	0	0	0	0	1	0	0	0	1949	1821	63	5	327	5	C19orf75	19	51769043	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	39949	51769043	7359940	367	60110										
VN1R4	317703	broad.mit.edu	37	chr19	53770038	53770038	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttttccaggcaaaacaaaacCtgtatacactggggtcacag	8	10	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:53770038C>A	uc010ydu.1	-	1	881	c.881G>T	c.(880-882)AGG>ATG	p.R294M		NM_173857	NP_776256	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	294	Cytoplasmic (Potential).				response to pheromone	actin cytoskeleton|cytoplasm|integral to membrane|plasma membrane	pheromone receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.00294)		AAAACAAAACCTGTATACACT	0.393										HNSCC(26;0.072)			9	86	---	---	---	---	PASS	A	53770038	A	A	53770038	3	1	167	1	0	0	0	0	1	0	0	0	17177	681	24	3	27	3	VN1R4	19	53770038	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2000995	53770038	5358945	368	60111										
KIR2DS4	3809	broad.mit.edu	37	chr19	55349311	55349311	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttgtcagctcccagtgacccTctggacatggtgatcatagg	11	11	3	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:55349311T>C	uc002qhm.1	+	3	397	c.351T>C	c.(349-351)CCT>CCC	p.P117P	KIR2DS4_uc010yfj.1_Silent_p.P110P|KIR2DS4_uc010yfk.1_RNA|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_Silent_p.P117P|KIR2DS4_uc002qhn.1_Silent_p.P64P	NM_012314	NP_036446	P43632	KI2S4_HUMAN	killer cell immunoglobulin-like receptor, two	117	Extracellular (Potential).					integral to plasma membrane	receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		CCAGTGACCCTCTGGACATGG	0.507													11	379	---	---	---	---	PASS	C	55349311	C	C	55349311	2	2	167	1	0	0	0	0	0	0	0	1	8319	1538	54	5		5	KIR2DS4	19	55349311	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	1579273	55349311	3779672	369	60112										
TMEM150B	284417	broad.mit.edu	37	chr19	55832413	55832413	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtagccccacatgccgggctCtgcaggtgaaggatcggggc	16	12	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:55832413C>G	uc010esw.1	-	3	166	c.-7_splice	c.e3-1		TMEM150B_uc010yfu.1_5'UTR|TMEM150B_uc010yfv.1_RNA|TMEM150B_uc010yfw.1_Splice_Site|TMEM150B_uc002qki.2_5'UTR	NM_001085488	NP_001078957	A6NC51	T150B_HUMAN	transmembrane protein 150B precursor							integral to membrane					0						ATGCCGGGCTCTGCAGGTGAA	0.597													14	16	---	---	---	---	PASS	G	55832413	G	G	55832413	5	3	167	1	0	0	0	0	0	0	1	0	16065	927	32	2		2	TMEM150B	19	55832413	Splice_Site	SNP	C	TCGA-66-2789-01A-01D-0983-08	483102	55832413	3296570	370	60113										
NLRP4	147945	broad.mit.edu	37	chr19	56369842	56369842	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atgcagaaaggaaaagacctGgccctgacctgccagagcac	11	12	0	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:56369842G>T	uc002qmd.3	+	3	1505	c.1083G>T	c.(1081-1083)CTG>CTT	p.L361L	NLRP4_uc002qmf.2_Silent_p.L286L|NLRP4_uc010etf.2_Silent_p.L192L	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	361	NACHT.						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)		GAAAAGACCTGGCCCTGACCT	0.532													27	30	---	---	---	---	PASS	T	56369842	T	T	56369842	2	4	167	1	0	0	0	0	0	0	0	1	10479	1335	47	3		3	NLRP4	19	56369842	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	537429	56369842	2759141	371	60114										
ZNF211	10520	broad.mit.edu	37	chr19	58152141	58152141	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttctggagaaagagtgccacAgttcaggacttccaaagaag	11	8	2	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:58152141A>C	uc002qpq.2	+	3	467	c.287A>C	c.(286-288)CAG>CCG	p.Q96P	ZNF211_uc010yhb.1_Missense_Mutation_p.Q100P|ZNF211_uc002qpp.2_Missense_Mutation_p.Q109P|ZNF211_uc002qpr.2_Missense_Mutation_p.Q160P|ZNF211_uc002qps.2_Missense_Mutation_p.Q161P|ZNF211_uc002qpt.2_Missense_Mutation_p.Q108P|ZNF211_uc010yhc.1_Missense_Mutation_p.Q108P|ZNF211_uc010yhd.1_Missense_Mutation_p.Q35P|ZNF211_uc010yhe.1_Missense_Mutation_p.Q87P	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	96	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AGAGTGCCACAGTTCAGGACT	0.433													9	38	---	---	---	---	PASS	C	58152141	C	C	58152141	3	2	167	1	0	0	0	0	1	0	0	0	17764	188	7	5	340	5	ZNF211	19	58152141	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	1782299	58152141	976842	372	60115										
ZNF211	10520	broad.mit.edu	37	chr19	58153536	58153536	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acaccagagagttcacattgGagaaaagccttagctgtact	9	9	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:58153536G>T	uc002qpq.2	+	3	1862	c.1682G>T	c.(1681-1683)GGA>GTA	p.G561V	ZNF211_uc010yhb.1_Missense_Mutation_p.G565V|ZNF211_uc002qpp.2_Missense_Mutation_p.G574V|ZNF211_uc002qpr.2_Missense_Mutation_p.G625V|ZNF211_uc002qps.2_Missense_Mutation_p.G626V|ZNF211_uc002qpt.2_Missense_Mutation_p.G573V|ZNF211_uc010yhc.1_Missense_Mutation_p.G573V|ZNF211_uc010yhd.1_Missense_Mutation_p.G500V|ZNF211_uc010yhe.1_Missense_Mutation_p.G552V	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	561						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GTTCACATTGGAGAAAAGCCT	0.433													33	120	---	---	---	---	PASS	T	58153536	T	T	58153536	3	4	167	1	0	0	0	0	1	0	0	0	17764	1174	41	2	1735	2	ZNF211	19	58153536	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	1395	58153536	975447	373	60116										
ZNF135	7694	broad.mit.edu	37	chr19	58579130	58579130	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agtcagagcacactcctgacCgagcatcggaggattcacac	10	13	2	2	rs141591921		TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr19:58579130C>T	uc010yhq.1	+	5	1410	c.1314C>T	c.(1312-1314)ACC>ACT	p.T438T	ZNF135_uc002qre.2_Silent_p.T426T|ZNF135_uc002qrd.1_Intron|ZNF135_uc002qrf.2_Silent_p.T384T|ZNF135_uc002qrg.2_Silent_p.T396T|ZNF135_uc010yhr.1_Silent_p.T247T	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	438					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		CACTCCTGACCGAGCATCGGA	0.547													24	59	---	---	---	---	PASS	T	58579130	T	T	58579130	2	4	167	1	0	0	0	0	0	0	0	1	17722	639	23	1		1	ZNF135	19	58579130	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	425594	58579130	549853	374	60117										
ANGPT4	51378	broad.mit.edu	37	chr20	896599	896599	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgcctgctccagctgtttcaCctgctgggtgggcaacttcc	11	14	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:896599C>G	uc002wei.2	-	1	362	c.259G>C	c.(259-261)GTG>CTG	p.V87L	ANGPT4_uc010zpn.1_Missense_Mutation_p.V81L	NM_015985	NP_057069	Q9Y264	ANGP4_HUMAN	angiopoietin 4 precursor	87	Potential.				anti-apoptosis|blood coagulation|cellular response to hypoxia|leukocyte migration|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of peptidyl-tyrosine phosphorylation|signal transduction	extracellular space	receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			ovary(2)	2						AGCTGTTTCACCTGCTGGGTG	0.637													15	59	---	---	---	---	PASS	G	896599	G	G	896599	3	3	167	1	0	0	0	0	1	0	0	0	612	507	18	4	1288	4	ANGPT4	20	896599	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08		896599	62128921	375	60118										
SIRPB1	10326	broad.mit.edu	37	chr20	1552435	1552435	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	caaggtgatgtgggctatctCgcagatgacttgagagtgaa	14	6	1	5			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:1552435C>A	uc010gai.2	-	3	781	c.682G>T	c.(682-684)GAG>TAG	p.E228*	SIRPB1_uc002wfk.3_Intron	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	228	Ig-like C1-type 1.|Extracellular (Potential).				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						TGGGCTATCTCGCAGATGACT	0.607													20	59	---	---	---	---	PASS	A	1552435	A	A	1552435	4	1	167	1	0	0	0	0	0	1	0	0	14333	893	31	2	526	2	SIRPB1	20	1552435	Nonsense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	655836	1552435	61473085	376	60119										
ADAM33	80332	broad.mit.edu	37	chr20	3652789	3652789	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtgtcctctcaccaggccccCagagctgctggcactgctgc	11	17	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:3652789C>G	uc002wit.2	-	14	1676	c.1589G>C	c.(1588-1590)TGG>TCG	p.W530S	ADAM33_uc002wiq.1_5'Flank|ADAM33_uc002wir.1_Missense_Mutation_p.W530S|ADAM33_uc002wis.2_Missense_Mutation_p.W52S|ADAM33_uc002wiu.2_Missense_Mutation_p.W530S|uc002wiv.1_5'Flank|ADAM33_uc002wiw.1_Intron|ADAM33_uc010gba.1_Intron|ADAM33_uc010gbb.1_Intron	NM_025220	NP_079496	Q9BZ11	ADA33_HUMAN	ADAM metallopeptidase domain 33 isoform alpha	530	Extracellular (Potential).|Cys-rich.				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|ovary(1)|skin(1)	4						ACCAGGCCCCCAGAGCTGCTG	0.642													9	20	---	---	---	---	PASS	G	3652789	G	G	3652789	3	3	167	1	0	0	0	0	1	0	0	0	250	595	21	4	888	4	ADAM33	20	3652789	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2100354	3652789	59372731	377	60120										
CHGB	1114	broad.mit.edu	37	chr20	5904410	5904410	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agccattttgaaagaagagaCaacatgaatgacaattttct	7	6	1	5			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:5904410C>A	uc002wmg.2	+	4	1926	c.1620C>A	c.(1618-1620)GAC>GAA	p.D540E	CHGB_uc010zqz.1_Missense_Mutation_p.D223E	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	540						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						AAAGAAGAGACAACATGAATG	0.448													18	58	---	---	---	---	PASS	A	5904410	A	A	5904410	3	1	167	1	0	0	0	0	1	0	0	0	3339	477	17	3	1634	3	CHGB	20	5904410	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	2251621	5904410	57121110	378	60121										
PLCB1	23236	broad.mit.edu	37	chr20	8862385	8862385	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	agtgaagacagcaatcacggTtctgcccctctctccctgtc	8	15	3	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:8862385T>C	uc002wnb.2	+	32	3543	c.3540T>C	c.(3538-3540)GGT>GGC	p.G1180G	PLCB1_uc002wna.2_3'UTR	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	1180					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						GCAATCACGGTTCTGCCCCTC	0.483													53	186	---	---	---	---	PASS	C	8862385	C	C	8862385	2	2	167	1	0	0	0	0	0	0	0	1	12027	1712	60	5		5	PLCB1	20	8862385	Silent	SNP	T	TCGA-66-2789-01A-01D-0983-08	2957975	8862385	54163135	379	60122										
PLCB4	5332	broad.mit.edu	37	chr20	9368183	9368183	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	taactcatggaaaagcaatgTgtacagatatcctttttaag	7	6	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:9368183T>A	uc002wnf.2	+	14	1274	c.1138T>A	c.(1138-1140)TGT>AGT	p.C380S	PLCB4_uc010gbw.1_Missense_Mutation_p.C380S|PLCB4_uc010gbx.2_Missense_Mutation_p.C380S|PLCB4_uc002wne.2_Missense_Mutation_p.C380S|PLCB4_uc002wnh.2_Missense_Mutation_p.C227S	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	380	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						AAAAGCAATGTGTACAGATAT	0.343													16	32	---	---	---	---	PASS	A	9368183	A	A	9368183	3	1	167	1	0	0	0	0	1	0	0	0	12030	1696	59	5	1184	5	PLCB4	20	9368183	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	505798	9368183	53657337	380	60123										
RALGAPA2	57186	broad.mit.edu	37	chr20	20486105	20486105	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atatgcttggcttcctctttCattagagaggattgaacact	8	8	2	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:20486105C>A	uc002wrz.2	-	34	5145	c.5002G>T	c.(5002-5004)GAA>TAA	p.E1668*	RALGAPA2_uc010gcx.2_Nonsense_Mutation_p.E1372*|RALGAPA2_uc010zsg.1_Nonsense_Mutation_p.E1116*|RALGAPA2_uc002wsa.1_Nonsense_Mutation_p.E440*	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1668	Rap-GAP.				activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CTTCCTCTTTCATTAGAGAGG	0.373													5	12	---	---	---	---	PASS	A	20486105	A	A	20486105	4	1	167	1	0	0	0	0	0	1	0	0	13014	835	29	2	643	2	RALGAPA2	20	20486105	Nonsense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	11117922	20486105	42539415	381	60124										
DNMT3B	1789	broad.mit.edu	37	chr20	31380550	31380550	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	caagcccactgggatcgaggGcctcaaacccaacaacacgc	9	16	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:31380550G>A	uc002wyc.2	+	9	1361	c.1040G>A	c.(1039-1041)GGC>GAC	p.G347D	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_Intron|DNMT3B_uc002wyd.2_Missense_Mutation_p.G347D|DNMT3B_uc002wye.2_Missense_Mutation_p.G347D|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.G305D|DNMT3B_uc010zua.1_Missense_Mutation_p.G271D|DNMT3B_uc002wyf.2_Missense_Mutation_p.G359D|DNMT3B_uc002wyg.2_Missense_Mutation_p.G46D	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	347					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						GGGATCGAGGGCCTCAAACCC	0.632													20	32	---	---	---	---	PASS	A	31380550	A	A	31380550	3	1	167	1	0	0	0	0	1	0	0	0	4677	1203	42	3	1110	3	DNMT3B	20	31380550	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	10894445	31380550	31644970	382	60125										
SLC32A1	140679	broad.mit.edu	37	chr20	37356487	37356487	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gccttccttaagaacctcaaGgccgtgtccaagttcagtct	8	13	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:37356487G>T	uc002xjc.2	+	2	1046	c.783G>T	c.(781-783)AAG>AAT	p.K261N		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	261	Helical; (Potential).			K -> R (in Ref. 4; AAH36458).	neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	AGAACCTCAAGGCCGTGTCCA	0.597													9	19	---	---	---	---	PASS	T	37356487	T	T	37356487	3	4	167	1	0	0	0	0	1	0	0	0	14565	991	35	3	789	3	SLC32A1	20	37356487	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	5975937	37356487	25669033	383	60126										
DHX35	60625	broad.mit.edu	37	chr20	37657096	37657096	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttctgaggtgcattgtctccGgcttcttcgccaatgcagcg	11	12	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:37657096G>A	uc002xjh.2	+	19	1848	c.1837G>A	c.(1837-1839)GGC>AGC	p.G613S	DHX35_uc010zwa.1_Missense_Mutation_p.G458S|DHX35_uc010zwb.1_Missense_Mutation_p.G458S|DHX35_uc010zwc.1_Missense_Mutation_p.G582S	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	613						catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CATTGTCTCCGGCTTCTTCGC	0.493													32	62	---	---	---	---	PASS	A	37657096	A	A	37657096	3	1	167	1	0	0	0	0	1	0	0	0	4508	1116	39	1	1911	1	DHX35	20	37657096	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	300609	37657096	25368424	384	60127										
SEMG1	6406	broad.mit.edu	37	chr20	43836175	43836175	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gccaatgatcatgaccagtcCcgaaaaagtcagcaatatga	8	10	2	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:43836175C>T	uc002xni.2	+	2	294	c.237C>T	c.(235-237)TCC>TCT	p.S79S	SEMG1_uc002xnj.2_Silent_p.S79S|SEMG2_uc010ggz.2_Intron|SEMG1_uc002xnh.2_Silent_p.S79S	NM_003007	NP_002998	P04279	SEMG1_HUMAN	semenogelin I preproprotein	79					insemination|sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(2)	2		Myeloproliferative disorder(115;0.0122)				ATGACCAGTCCCGAAAAAGTC	0.383													18	79	---	---	---	---	PASS	T	43836175	T	T	43836175	2	4	167	1	0	0	0	0	0	0	0	1	14044	610	22	3		3	SEMG1	20	43836175	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	6179079	43836175	19189345	385	60128										
ZNF217	7764	broad.mit.edu	37	chr20	52193465	52193465	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gggtagggtttttattcactTtatcagcactgtcatcagct	9	8	4	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:52193465T>A	uc002xwq.3	-	3	2109	c.1838A>T	c.(1837-1839)AAA>ATA	p.K613I	ZNF217_uc010gij.1_Missense_Mutation_p.K605I	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	613					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			TTTATTCACTTTATCAGCACT	0.438													23	36	---	---	---	---	PASS	A	52193465	A	A	52193465	3	1	167	1	0	0	0	0	1	0	0	0	17769	1841	64	5	1316	5	ZNF217	20	52193465	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	8357290	52193465	10832055	386	60129										
PHACTR3	116154	broad.mit.edu	37	chr20	58318296	58318296	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggaaatggaggaaaaagaaaAacgaaaaactgaagcagaca	11	4	0	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr20:58318296A>G	uc002yau.2	+	2	720	c.253A>G	c.(253-255)AAC>GAC	p.N85D	PHACTR3_uc002yat.2_Missense_Mutation_p.N82D|PHACTR3_uc010zzw.1_Missense_Mutation_p.N44D|PHACTR3_uc002yav.2_Missense_Mutation_p.N44D|PHACTR3_uc002yaw.2_Missense_Mutation_p.N44D|PHACTR3_uc002yax.2_Missense_Mutation_p.N44D	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	85						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			GAAAAAGAAAAACGAAAAACT	0.567													17	39	---	---	---	---	PASS	G	58318296	G	G	58318296	3	3	167	1	0	0	0	0	1	0	0	0	11811	14	1	5	259	5	PHACTR3	20	58318296	Missense_Mutation	SNP	A	TCGA-66-2789-01A-01D-0983-08	6124831	58318296	4707224	387	60130										
KRTAP13-2	337959	broad.mit.edu	37	chr21	31744283	31744283	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctgcagagcaaggaggttctGgggcggtagcaggaggtctg	19	7	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr21:31744283G>A	uc002ynz.3	-	1	275	c.249C>T	c.(247-249)CCC>CCT	p.P83P		NM_181621	NP_853652	Q52LG2	KR132_HUMAN	keratin associated protein 13-2	83	4.|5 X 10 AA approximate repeats.					intermediate filament					0						AGGAGGTTCTGGGGCGGTAGC	0.607													16	33	---	---	---	---	PASS	A	31744283	A	A	31744283	2	1	167	1	0	0	0	0	0	0	0	1	8523	1335	47	3		3	KRTAP13-2	21	31744283	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08		31744283	16385612	388	60131										
KRTAP13-3	337960	broad.mit.edu	37	chr21	31797811	31797811	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cagaatctggatctataactCtgggaaggggaggtatggat	14	5	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr21:31797811C>G	uc002yob.1	-	1	420	c.420G>C	c.(418-420)CAG>CAC	p.Q140H		NM_181622	NP_853653	Q3SY46	KR133_HUMAN	keratin associated protein 13-3	140						intermediate filament				ovary(1)|lung(1)	2						ATCTATAACTCTGGGAAGGGG	0.468													8	22	---	---	---	---	PASS	G	31797811	G	G	31797811	3	3	167	1	0	0	0	0	1	0	0	0	8524	912	32	2	102	2	KRTAP13-3	21	31797811	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	53528	31797811	16332084	389	60132										
PWP2	5822	broad.mit.edu	37	chr21	45548185	45548185	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ggagaaagtgctggagttttTagcttcctcctttgaagtgt	12	6	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr21:45548185T>C	uc002zeb.2	+	19	2507	c.2417T>C	c.(2416-2418)TTA>TCA	p.L806S		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	806						cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		CTGGAGTTTTTAGCTTCCTCC	0.478													18	44	---	---	---	---	PASS	C	45548185	C	C	45548185	3	2	167	1	0	0	0	0	1	0	0	0	12844	1764	61	5	2491	5	PWP2	21	45548185	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	13750374	45548185	2581710	390	60133										
TRPM2	7226	broad.mit.edu	37	chr21	45815337	45815337	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gtccctctacaagcgttcctCaggccatgtgaccttcacca	7	16	3	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr21:45815337C>G	uc002zet.1	+	13	2048	c.1835C>G	c.(1834-1836)TCA>TGA	p.S612*	TRPM2_uc002zeu.1_Nonsense_Mutation_p.S612*|TRPM2_uc002zew.1_Nonsense_Mutation_p.S612*|TRPM2_uc010gpt.1_Nonsense_Mutation_p.S612*|TRPM2_uc002zex.1_Nonsense_Mutation_p.S398*|TRPM2_uc002zey.1_Nonsense_Mutation_p.S125*	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	612	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AAGCGTTCCTCAGGCCATGTG	0.502													26	90	---	---	---	---	PASS	G	45815337	G	G	45815337	4	3	167	1	0	0	0	0	0	1	0	0	16583	838	29	2	1881	2	TRPM2	21	45815337	Nonsense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	267152	45815337	2314558	391	60134										
ITGB2	3689	broad.mit.edu	37	chr21	46310005	46310005	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ctggtgtggcacaggcactgCccgcagacacagtcccccag	12	16	0	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr21:46310005C>A	uc002zgd.2	-	11	1589	c.1545G>T	c.(1543-1545)GGG>GGT	p.G515G	ITGB2_uc002zge.2_Silent_p.G515G|ITGB2_uc002zgf.3_Silent_p.G515G|ITGB2_uc011afl.1_Silent_p.G437G|ITGB2_uc010gpw.2_Silent_p.G458G|ITGB2_uc002zgg.2_Silent_p.G515G	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	515	II.|Extracellular (Potential).|Cysteine-rich tandem repeats.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	ACAGGCACTGCCCGCAGACAC	0.617													7	25	---	---	---	---	PASS	A	46310005	A	A	46310005	2	1	167	1	0	0	0	0	0	0	0	1	7894	726	26	3		3	ITGB2	21	46310005	Silent	SNP	C	TCGA-66-2789-01A-01D-0983-08	494668	46310005	1819890	392	60135										
CSF2RB	1439	broad.mit.edu	37	chr22	37322057	37322057	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tggagccagtgtcctgtgacCtcagtgatgacatgccctgg	13	11	1	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr22:37322057C>T	uc003aqa.3	+	4	446	c.229C>T	c.(229-231)CTC>TTC	p.L77F	CSF2RB_uc003aqc.3_Missense_Mutation_p.L77F	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	77	Extracellular (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	GTCCTGTGACCTCAGTGATGA	0.502													8	10	---	---	---	---	PASS	T	37322057	T	T	37322057	3	4	167	1	0	0	0	0	1	0	0	0	3935	681	24	3	239	3	CSF2RB	22	37322057	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08		37322057	13982509	393	60136										
POLR3H	171568	broad.mit.edu	37	chr22	41926859	41926859	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	tgtgctccttcctccgtctcGtactcccacacccacacctg	5	20	1	0	rs140901049	byFrequency	TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chr22:41926859G>A	uc003baf.2	-	6	453	c.393C>T	c.(391-393)TAC>TAT	p.Y131Y	POLR3H_uc003bae.2_RNA|POLR3H_uc003bag.2_Silent_p.Y131Y|POLR3H_uc003bai.2_Silent_p.Y102Y	NM_138338	NP_612211	Q9Y535	RPC8_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	131					innate immune response|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity			skin(1)	1						CCTCCGTCTCGTACTCCCACA	0.642													15	24	---	---	---	---	PASS	A	41926859	A	A	41926859	2	1	167	1	0	0	0	0	0	0	0	1	12236	1140	40	1		1	POLR3H	22	41926859	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	4604802	41926859	9377707	394	60137										
FRMPD4	9758	broad.mit.edu	37	chrX	12735105	12735105	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aaggcagcagcctgcaaaatGatgagatccccgtgtccctc	10	13	0	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chrX:12735105G>T	uc004cuz.1	+	15	3033	c.2527G>T	c.(2527-2529)GAT>TAT	p.D843Y	FRMPD4_uc011mij.1_Missense_Mutation_p.D835Y	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	843					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						CCTGCAAAATGATGAGATCCC	0.577													30	25	---	---	---	---	PASS	T	12735105	T	T	12735105	3	4	167	1	0	0	0	0	1	0	0	0	6059	1290	45	2	2585	2	FRMPD4	23	12735105	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08		12735105	142535455	395	60138										
MED14	9282	broad.mit.edu	37	chrX	40539210	40539210	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttgccacaacacctcgactcCggcagtatatatcaatgcaa	6	13	1	0			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chrX:40539210C>T	uc004dex.3	-	21	2926	c.2786G>A	c.(2785-2787)CGG>CAG	p.R929Q		NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	929					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						ACCTCGACTCCGGCAGTATAT	0.463													6	24	---	---	---	---	PASS	T	40539210	T	T	40539210	3	4	167	1	0	0	0	0	1	0	0	0	9432	652	23	1	1622	1	MED14	23	40539210	Missense_Mutation	SNP	C	TCGA-66-2789-01A-01D-0983-08	27804105	40539210	114731350	396	60139										
DGKK	139189	broad.mit.edu	37	chrX	50136227	50136227	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	ttgaattttcggaggaagacGatcccctgatgatcgccact	10	10	0	4			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chrX:50136227G>T	uc010njr.1	-	9	1578	c.1518C>A	c.(1516-1518)ATC>ATA	p.I506I		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	506	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					GGAGGAAGACGATCCCCTGAT	0.448													18	16	---	---	---	---	PASS	T	50136227	T	T	50136227	2	4	167	1	0	0	0	0	0	0	0	1	4472	1048	37	2		2	DGKK	23	50136227	Silent	SNP	G	TCGA-66-2789-01A-01D-0983-08	9597017	50136227	105134333	397	60140										
STARD8	9754	broad.mit.edu	37	chrX	67937289	67937289	+	Frame_Shift_Del	DEL	C	-	-													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cttgcccttgccaggccgtgCccccagctcgagtgaccggc							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chrX:67937289delC	uc004dxa.2	+	5	665	c.293delC	c.(292-294)GCCfs	p.A98fs	STARD8_uc004dxb.2_Frame_Shift_Del_p.A178fs|STARD8_uc004dxc.3_Frame_Shift_Del_p.A98fs	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	98					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						CCAGGCCGTGCCCCCAGCTCG	0.647													4	5	---	---	---	---		-	67937289	-	-	67937289	7	5	167	1	0	1	0	1	0	0	0	0	15262	739	26	0	555	0	STARD8	23	67937289	Frame_Shift_Del	DEL	C	TCGA-66-2789-01A-01D-0983-08	17801062	67937289	87333271	398	60141										
PCDH11X	27328	broad.mit.edu	37	chrX	91132500	91132500	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	atcagttcctcctggagactGcagcatatcttgactatgag	9	10	2	3			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chrX:91132500G>T	uc004efk.1	+	2	2106	c.1261G>T	c.(1261-1263)GCA>TCA	p.A421S	PCDH11X_uc004efl.1_Missense_Mutation_p.A421S|PCDH11X_uc004efo.1_Missense_Mutation_p.A421S|PCDH11X_uc010nmv.1_Missense_Mutation_p.A421S|PCDH11X_uc004efm.1_Missense_Mutation_p.A421S|PCDH11X_uc004efn.1_Missense_Mutation_p.A421S|PCDH11X_uc004efh.1_Missense_Mutation_p.A421S|PCDH11X_uc004efj.1_Missense_Mutation_p.A421S	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	421	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CCTGGAGACTGCAGCATATCT	0.433													22	25	---	---	---	---	PASS	T	91132500	T	T	91132500	3	4	167	1	0	0	0	0	1	0	0	0	11508	1319	46	3	1267	3	PCDH11X	23	91132500	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	23195211	91132500	64138060	399	60142										
DRP2	1821	broad.mit.edu	37	chrX	100503557	100503557	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	aagactggcattgcatgcttGtgtggcacggaagtgaagga	15	6	0	2	rs149294275	by1000genomes	TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chrX:100503557G>C	uc004egz.2	+	14	1878	c.1509G>C	c.(1507-1509)TTG>TTC	p.L503F	DRP2_uc011mrh.1_Missense_Mutation_p.L425F	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	503					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						TTGCATGCTTGTGTGGCACGG	0.468													58	58	---	---	---	---	PASS	C	100503557	C	C	100503557	3	2	167	1	0	0	0	0	1	0	0	0	4764	1368	48	4	1555	4	DRP2	23	100503557	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	9371057	100503557	54767003	400	60143										
VGLL1	51442	broad.mit.edu	37	chrX	135631089	135631089	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	cccgtcctcaggaatctgccGccagggagaatggcaaccct	11	15	2	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chrX:135631089G>A	uc004ezy.2	+	3	726	c.556G>A	c.(556-558)GCC>ACC	p.A186T	MIR934_hsa-mir-934|MI0005756_5'Flank	NM_016267	NP_057351	Q99990	VGLL1_HUMAN	vestigial like 1	186					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	transcription coactivator activity				0	Acute lymphoblastic leukemia(192;0.000127)					GGAATCTGCCGCCAGGGAGAA	0.577													38	23	---	---	---	---	PASS	A	135631089	A	A	135631089	3	1	167	1	0	0	0	0	1	0	0	0	17155	1087	38	1	562	1	VGLL1	23	135631089	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	35127532	135631089	19639471	401	60144										
GPR101	83550	broad.mit.edu	37	chrX	136113576	136113576	+	Frame_Shift_Del	DEL	G	-	-													0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	acagaggtggccaccacccaGggggccacgagcgaaatctg							TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chrX:136113576delG	uc011mwh.1	-	1	258	c.258delC	c.(256-258)CCCfs	p.P86fs		NM_054021	NP_473362	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	86	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					CCACCACCCAGGGGGCCACGA	0.617													17	17	---	---	---	---		-	136113576	-	-	136113576	7	5	167	1	0	1	0	1	0	0	0	0	6622	987	35	0	1271	0	GPR101	23	136113576	Frame_Shift_Del	DEL	G	TCGA-66-2789-01A-01D-0983-08	482487	136113576	19156984	402	60145										
FMR1	2332	broad.mit.edu	37	chrX	147030327	147030327	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gaaagagaagccagacagcgTggatggtcagcaaccactcg	13	10	1	2			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chrX:147030327T>A	uc010nst.2	+	17	2051	c.1862T>A	c.(1861-1863)GTG>GAG	p.V621E	FMR1_uc004fcj.2_Missense_Mutation_p.V581E|FMR1_uc004fck.3_Missense_Mutation_p.V575E|FMR1_uc004fcl.3_Missense_Mutation_p.V461E|FMR1_uc011mxa.1_Missense_Mutation_p.V251E	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	621	Interaction with RANBP9.				mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCAGACAGCGTGGATGGTCAG	0.423									Fragile_X_syndrome				27	23	---	---	---	---	PASS	A	147030327	A	A	147030327	3	1	167	1	0	0	0	0	1	0	0	0	5960	1696	59	5	1928	5	FMR1	23	147030327	Missense_Mutation	SNP	T	TCGA-66-2789-01A-01D-0983-08	10916751	147030327	8240233	403	60146										
CNGA2	1260	broad.mit.edu	37	chrX	150912443	150912443	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0909090909090909	36	0.0119327833396273	1.53052061773603	2.40809525054238	0.930546123878623	0.0654561846789502	0.321693358314871	12	gcaaaggggacatcggcaagGagatgtacatcattaaggag	14	6	1	1			TCGA-66-2789-01A-01D-0983-08	TCGA-66-2789-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	fab8faeb-35b3-42f0-b0af-4dfb1325a21a	67957e04-4311-47a6-b98a-2531bc6aeed5	g.chrX:150912443G>C	uc004fey.1	+	7	1692	c.1468G>C	c.(1468-1470)GAG>CAG	p.E490Q		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	490	cAMP (By similarity).|Cytoplasmic (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					catcggcaaGGAGATGTACAT	0.423													35	35	---	---	---	---	PASS	C	150912443	C	C	150912443	3	2	167	1	0	0	0	0	1	0	0	0	3597	1175	41	2	1490	2	CNGA2	23	150912443	Missense_Mutation	SNP	G	TCGA-66-2789-01A-01D-0983-08	3882116	150912443	4358117	404	60147										
SPEN	23013	broad.mit.edu	37	chr1	16256690	16256690	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atgattctagcaggagagaaCagatggcagatatggccaaa	12	6	1	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:16256690C>T	uc001axk.1	+	11	4159	c.3955C>T	c.(3955-3957)CAG>TAG	p.Q1319*	SPEN_uc010obp.1_Nonsense_Mutation_p.Q1278*	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1319					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CAGGAGAGAACAGATGGCAGA	0.383													11	40	---	---	---	---	PASS	T	16256690	T	T	16256690	4	4	168	1	0	0	0	0	0	1	0	0	15037	479	17	3	3997	3	SPEN	1	16256690	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08		16256690	232993931	1	60148										
HSPG2	3339	broad.mit.edu	37	chr1	22166424	22166424	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atggcgcccgtgtccacgatCacctccacctgcttctgtgc	9	17	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:22166424C>T	uc001bfj.2	-	72	9640	c.9600G>A	c.(9598-9600)GTG>GTA	p.V3200V	HSPG2_uc009vqd.2_Silent_p.V3201V	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3200	Ig-like C2-type 17.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TGTCCACGATCACCTCCACCT	0.582													34	64	---	---	---	---	PASS	T	22166424	T	T	22166424	2	4	168	1	0	0	0	0	0	0	0	1	7430	813	29	2		2	HSPG2	1	22166424	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	5909734	22166424	227084197	2	60149										
TCEB3	6924	broad.mit.edu	37	chr1	24083468	24083468	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agccagccccgtaccccatgGgaagcagccatgcttccgcc	10	18	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:24083468G>T	uc001bho.2	+	10	2248	c.2188G>T	c.(2188-2190)GGA>TGA	p.G730*		NM_003198	NP_003189	Q14241	ELOA1_HUMAN	elongin A	730					positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|viral reproduction	integral to membrane	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.42e-24)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;4.74e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|KIRC - Kidney renal clear cell carcinoma(1967;0.00334)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		GTACCCCATGGGAAGCAGCCA	0.587													5	107	---	---	---	---	PASS	T	24083468	T	T	24083468	4	4	168	1	0	0	0	0	0	1	0	0	15678	1233	43	3	2226	3	TCEB3	1	24083468	Nonsense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	1917044	24083468	225167153	3	60150										
TMEM54	113452	broad.mit.edu	37	chr1	33363913	33363913	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttccggaagtcgcccacactCaggcctcctgtgggggacag	13	14	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:33363913C>G	uc001bwi.1	-	2	138	c.24G>C	c.(22-24)CTG>CTC	p.L8L	TMEM54_uc001bwj.1_Silent_p.L8L|TMEM54_uc001bwk.1_Silent_p.L8L	NM_033504	NP_277039	Q969K7	TMM54_HUMAN	transmembrane protein 54	8						integral to membrane					0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CGCCCACACTCAGGCCTCCTG	0.617													6	27	---	---	---	---	PASS	G	33363913	G	G	33363913	2	3	168	1	0	0	0	0	0	0	0	1	16177	813	29	2		2	TMEM54	1	33363913	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	9280445	33363913	215886708	4	60151										
EPHA10	284656	broad.mit.edu	37	chr1	38197177	38197177	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cggatctgaaagacgtagcgGgtagccggcttcaggttggt	16	8	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:38197177G>A	uc009vvi.2	-	7	1655	c.1569C>T	c.(1567-1569)ACC>ACT	p.T523T	EPHA10_uc009vvh.1_RNA|EPHA10_uc001cbu.2_RNA|EPHA10_uc001cbv.1_RNA	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	523	Fibronectin type-III 2.|Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				AGACGTAGCGGGTAGCCGGCT	0.587													26	46	---	---	---	---	PASS	A	38197177	A	A	38197177	2	1	168	1	0	0	0	0	0	0	0	1	5166	1219	43	3		3	EPHA10	1	38197177	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	4833264	38197177	211053444	5	60152										
PPT1	5538	broad.mit.edu	37	chr1	40555127	40555127	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccccagcattcagtgtttttCggatgaagtcacagatgtga	10	9	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:40555127C>T	uc001cfb.2	-	5	723	c.491G>A	c.(490-492)CGA>CAA	p.R164Q	PPT1_uc010ojf.1_Missense_Mutation_p.R114Q|PPT1_uc010ojg.1_Missense_Mutation_p.R61Q|PPT1_uc009vwa.2_RNA	NM_000310	NP_000301	P50897	PPT1_HUMAN	palmitoyl-protein thioesterase 1 isoform 1	164					brain development|cofactor metabolic process|cofactor transport|DNA fragmentation involved in apoptotic nuclear change|lysosomal lumen acidification|membrane raft organization|negative regulation of cell growth|negative regulation of neuron apoptosis|neuron development|pinocytosis|positive regulation of pinocytosis|positive regulation of receptor-mediated endocytosis|protein depalmitoylation|protein transport|receptor-mediated endocytosis|regulation of synapse structure and activity|sphingolipid catabolic process|visual perception	axon|cytosol|Golgi apparatus|lysosome|membrane fraction|membrane raft|nucleus|synaptic vesicle	palmitoyl-(protein) hydrolase activity|palmitoyl-CoA hydrolase activity			ovary(1)	1	Lung NSC(20;3.43e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1e-18)|Epithelial(16;3.6e-17)|all cancers(16;1.1e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CAGTGTTTTTCGGATGAAGTC	0.403													5	65	---	---	---	---	PASS	T	40555127	T	T	40555127	3	4	168	1	0	0	0	0	1	0	0	0	12411	884	31	2	449	2	PPT1	1	40555127	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2357950	40555127	208695494	6	60153										
BEND5	79656	broad.mit.edu	37	chr1	49224681	49224681	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttgagcttcttggcctgttgTaccagctgcctccgagtccg	11	13	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:49224681T>C	uc001crx.3	-	3	680	c.636A>G	c.(634-636)GTA>GTG	p.V212V	AGBL4_uc001cru.2_Intron|AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crw.3_Silent_p.V43V	NM_024603	NP_078879	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	212	Potential.									skin(1)	1						TGGCCTGTTGTACCAGCTGCC	0.612													19	31	---	---	---	---	PASS	C	49224681	C	C	49224681	2	2	168	1	0	0	0	0	0	0	0	1	1401	1625	57	5		5	BEND5	1	49224681	Silent	SNP	T	TCGA-66-2791-01A-01D-0983-08	8669554	49224681	200025940	7	60154										
OMA1	115209	broad.mit.edu	37	chr1	58999665	58999665	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtgctatttcatggcccagaAggaaagaaagttgatgaata	11	5	1	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:58999665A>C	uc001cyy.2	-	5	1059	c.971T>G	c.(970-972)CTT>CGT	p.L324R	DAB1_uc001cyt.1_Intron|OMA1_uc001cyx.1_Missense_Mutation_p.L324R|OMA1_uc009vzz.2_Missense_Mutation_p.L324R	NM_145243	NP_660286	Q96E52	OMA1_HUMAN	OMA1 homolog, zinc metallopeptidase precursor	324					proteolysis	integral to membrane|mitochondrial membrane	metal ion binding|metalloendopeptidase activity			large_intestine(1)	1	all_cancers(7;6.54e-05)					ATGGCCCAGAAGGAAAGAAAG	0.343													5	97	---	---	---	---	PASS	C	58999665	C	C	58999665	3	2	168	1	0	0	0	0	1	0	0	0	10864	72	3	5	623	5	OMA1	1	58999665	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	9774984	58999665	190250956	8	60155										
LRRIQ3	127255	broad.mit.edu	37	chr1	74648474	74648474	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttctttaactttgcaaacccAttgtcatgaagatagagtag	7	7	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:74648474A>G	uc001dfy.3	-	3	513	c.321T>C	c.(319-321)AAT>AAC	p.N107N	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	107	LRR 3.									ovary(2)	2						TTGCAAACCCATTGTCATGAA	0.308													5	28	---	---	---	---	PASS	G	74648474	G	G	74648474	2	3	168	1	0	0	0	0	0	0	0	1	9030	214	8	5		5	LRRIQ3	1	74648474	Silent	SNP	A	TCGA-66-2791-01A-01D-0983-08	15648809	74648474	174602147	9	60156										
ABCA4	24	broad.mit.edu	37	chr1	94577027	94577027	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agtttgacacaattccaggaGattctcctggggtggggctt	13	8	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:94577027G>C	uc001dqh.2	-	3	373	c.269C>G	c.(268-270)TCT>TGT	p.S90C	ABCA4_uc010otn.1_Missense_Mutation_p.S90C	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	90	Extracellular.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		AATTCCAGGAGATTCTCCTGG	0.517													3	16	---	---	---	---	PASS	C	94577027	C	C	94577027	3	2	168	1	0	0	0	0	1	0	0	0	34	942	33	2	6744	2	ABCA4	1	94577027	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	19928553	94577027	154673594	10	60157										
UBQLN4	56893	broad.mit.edu	37	chr1	156020106	156020106	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctcatgagttcagggttattGagcatgtggctgatctcagg	13	7	3	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:156020106G>C	uc001fna.2	-	4	741	c.717C>G	c.(715-717)CTC>CTG	p.L239L	UBQLN4_uc010pgx.1_Silent_p.L219L	NM_020131	NP_064516	Q9NRR5	UBQL4_HUMAN	ataxin-1 ubiquitin-like interacting protein	239						cytosol|endoplasmic reticulum membrane|nucleus	identical protein binding			pancreas(1)|skin(1)	2	Hepatocellular(266;0.133)|all_neural(408;0.195)					CAGGGTTATTGAGCATGTGGC	0.547													13	58	---	---	---	---	PASS	C	156020106	C	C	156020106	2	2	168	1	0	0	0	0	0	0	0	1	16896	1277	45	2		2	UBQLN4	1	156020106	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	61443079	156020106	93230515	11	60158										
MNDA	4332	broad.mit.edu	37	chr1	158813151	158813151	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggtcttgcggcacctgcaccCaccgcaagaaacaaactgac	9	15	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:158813151C>A	uc001fsz.1	+	3	548	c.348C>A	c.(346-348)CCC>CCA	p.P116P		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	116					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					CACCTGCACCCACCGCAAGAA	0.438													9	22	---	---	---	---	PASS	A	158813151	A	A	158813151	2	1	168	1	0	0	0	0	0	0	0	1	9676	581	21	3		3	MNDA	1	158813151	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	2793045	158813151	90437470	12	60159										
SLAMF8	56833	broad.mit.edu	37	chr1	159799840	159799840	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gagactctgtaccattcccgCttcctgggccgagcccagct	10	16	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:159799840C>T	uc001fue.3	+	2	435	c.225C>T	c.(223-225)CGC>CGT	p.R75R		NM_020125	NP_064510	Q9P0V8	SLAF8_HUMAN	SLAM family member 8 precursor	75	Extracellular (Potential).					integral to membrane					0	all_hematologic(112;0.0597)					ACCATTCCCGCTTCCTGGGCC	0.602													31	83	---	---	---	---	PASS	T	159799840	T	T	159799840	2	4	168	1	0	0	0	0	0	0	0	1	14370	784	28	3		3	SLAMF8	1	159799840	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	986689	159799840	89450781	13	60160										
NCSTN	23385	broad.mit.edu	37	chr1	160325486	160325486	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cactgctgagaacattaatgTgagctatcccgaatggctga	10	9	0	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:160325486T>G	uc001fvx.2	+	12	1518	c.1394T>G	c.(1393-1395)GTG>GGG	p.V465G	NCSTN_uc001fvy.2_Missense_Mutation_p.V445G|NCSTN_uc010pjf.1_Missense_Mutation_p.V327G|NCSTN_uc001fvz.2_Missense_Mutation_p.V245G|NCSTN_uc010pjg.1_Missense_Mutation_p.V207G	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	465	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AACATTAATGTGAGCTATCCC	0.537													16	76	---	---	---	---	PASS	G	160325486	G	G	160325486	3	3	168	1	0	0	0	0	1	0	0	0	10241	1696	59	5	1440	5	NCSTN	1	160325486	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	525646	160325486	88925135	14	60161										
SERPINC1	462	broad.mit.edu	37	chr1	173880967	173880967	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aggggctggagcttggctccAtataccaactcactgatgtc	11	11	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:173880967A>G	uc001gjt.2	-	3	713	c.594T>C	c.(592-594)TAT>TAC	p.Y198Y		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	198			Y -> C (in AT3D; type-I and -II; Whitechapel).|Y -> H (in AT3D; type-I).		blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	GCTTGGCTCCATATACCAACT	0.488													11	84	---	---	---	---	PASS	G	173880967	G	G	173880967	2	3	168	1	0	0	0	0	0	0	0	1	14109	224	8	5		5	SERPINC1	1	173880967	Silent	SNP	A	TCGA-66-2791-01A-01D-0983-08	13555481	173880967	75369654	15	60162										
TNR	7143	broad.mit.edu	37	chr1	175360549	175360549	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acgtaacatcgctggggaccTgagcaatcactcccccttca	8	15	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:175360549T>G	uc001gkp.1	-	5	1463	c.1382A>C	c.(1381-1383)CAG>CCG	p.Q461P	TNR_uc009wwu.1_Missense_Mutation_p.Q461P	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	461	Fibronectin type-III 2.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GCTGGGGACCTGAGCAATCAC	0.502													3	27	---	---	---	---	PASS	G	175360549	G	G	175360549	3	3	168	1	0	0	0	0	1	0	0	0	16335	1580	55	5	2762	5	TNR	1	175360549	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	1479582	175360549	73890072	16	60163										
PAPPA2	60676	broad.mit.edu	37	chr1	176738877	176738877	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tcagagggaaccaaatttctGaaacgctgctcaatctcttg	8	10	4	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:176738877G>A	uc001gkz.2	+	16	5622	c.4458G>A	c.(4456-4458)CTG>CTA	p.L1486L	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1486	Sushi 2.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CCAAATTTCTGAAACGCTGCT	0.527													31	83	---	---	---	---	PASS	A	176738877	A	A	176738877	2	1	168	1	0	0	0	0	0	0	0	1	11433	1277	45	2		2	PAPPA2	1	176738877	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	1378328	176738877	72511744	17	60164										
FAM5B	57795	broad.mit.edu	37	chr1	177250597	177250597	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggtgggcaggatccagtcctCcctgagggctttcaattcta	12	11	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:177250597C>A	uc001glf.2	+	8	2597	c.2285C>A	c.(2284-2286)TCC>TAC	p.S762Y	FAM5B_uc001glg.2_Missense_Mutation_p.S657Y	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	762						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						ATCCAGTCCTCCCTGAGGGCT	0.557													18	63	---	---	---	---	PASS	A	177250597	A	A	177250597	3	1	168	1	0	0	0	0	1	0	0	0	5593	855	30	2	2311	2	FAM5B	1	177250597	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	511720	177250597	72000024	18	60165										
NPHS2	7827	broad.mit.edu	37	chr1	179526328	179526328	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccattcggtagtagcaaatgGcatctatctccattataaac	6	10	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:179526328G>T	uc001gmq.3	-	5	657	c.572C>A	c.(571-573)GCC>GAC	p.A191D	NPHS2_uc009wxi.2_Intron	NM_014625	NP_055440	Q9NP85	PODO_HUMAN	podocin	191	Cytoplasmic (Potential).				excretion	integral to plasma membrane	protein binding				0						GTAGCAAATGGCATCTATCTC	0.428													8	32	---	---	---	---	PASS	T	179526328	T	T	179526328	3	4	168	1	0	0	0	0	1	0	0	0	10583	1203	42	3	595	3	NPHS2	1	179526328	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	2275731	179526328	69724293	19	60166										
TDRD5	163589	broad.mit.edu	37	chr1	179604999	179604999	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agggattcgtcagagttactCgaagacatgatgattgaaat	11	5	1	5	rs147568109	byFrequency	TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:179604999C>A	uc001gnf.1	+	9	1747	c.1497C>A	c.(1495-1497)CTC>CTA	p.L499L	TDRD5_uc010pnp.1_Silent_p.L499L|TDRD5_uc001gnh.1_Silent_p.L54L	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	499					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						CAGAGTTACTCGAAGACATGA	0.343													4	55	---	---	---	---	PASS	A	179604999	A	A	179604999	2	1	168	1	0	0	0	0	0	0	0	1	15730	871	31	2		2	TDRD5	1	179604999	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	78671	179604999	69645622	20	60167										
QSOX1	5768	broad.mit.edu	37	chr1	180163472	180163472	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	caccgggtggggagtcccaaCgccgctgtcctctggctctg	14	15	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:180163472C>T	uc001gnz.2	+	11	1488	c.1413C>T	c.(1411-1413)AAC>AAT	p.N471N	QSOX1_uc001gny.2_Silent_p.N471N|QSOX1_uc001goa.2_Silent_p.N471N|QSOX1_uc001goc.2_Silent_p.N13N	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	471	ERV/ALR sulfhydryl oxidase.				cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						GGAGTCCCAACGCCGCTGTCC	0.622													6	30	---	---	---	---	PASS	T	180163472	T	T	180163472	2	4	168	1	0	0	0	0	0	0	0	1	12883	535	19	1		1	QSOX1	1	180163472	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	558473	180163472	69087149	21	60168										
RNASEL	6041	broad.mit.edu	37	chr1	182544528	182544528	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	actccagcaaatcagtccatCagcacccagggctggccaac	8	16	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:182544528C>T	uc001gpj.1	-	6	2392	c.2225G>A	c.(2224-2226)TGA>TAA	p.*742*	RNASEL_uc009wxz.1_Silent_p.*742*	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	742					mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						ATCAGTCCATCAGCACCCAGG	0.393									Hereditary_Prostate_Cancer				14	65	---	---	---	---	PASS	T	182544528	T	T	182544528	2	4	168	1	0	0	0	0	0	0	0	1	13416	837	29	2		2	RNASEL	1	182544528	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	2381056	182544528	66706093	22	60169										
RGS16	6004	broad.mit.edu	37	chr1	182572472	182572472	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gacgtgtcttgaactctttgGctctgaaaaacaaatcagga	9	8	4	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:182572472G>A	uc001gpl.3	-	2	201	c.47C>T	c.(46-48)GCC>GTC	p.A16V	RGS16_uc010pnv.1_Missense_Mutation_p.A16V	NM_002928	NP_002919	O15492	RGS16_HUMAN	regulator of G-protein signalling 16	16					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity			ovary(1)	1						GAACTCTTTGGCTCTGAAAAA	0.502													12	60	---	---	---	---	PASS	A	182572472	A	A	182572472	3	1	168	1	0	0	0	0	1	0	0	0	13298	1203	42	3	577	3	RGS16	1	182572472	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	27944	182572472	66678149	23	60170										
RGL1	23179	broad.mit.edu	37	chr1	183857654	183857654	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctccttgagggccatcgtttCggcactgcagtctaattcca	9	13	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:183857654C>T	uc001gqo.2	+	8	1155	c.998C>T	c.(997-999)TCG>TTG	p.S333L	RGL1_uc010pof.1_Missense_Mutation_p.S138L|RGL1_uc001gqm.2_Missense_Mutation_p.S368L|RGL1_uc010pog.1_Missense_Mutation_p.S331L|RGL1_uc010poh.1_Missense_Mutation_p.S331L|RGL1_uc010poi.1_Missense_Mutation_p.S333L	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	333	Ras-GEF.				cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						GCCATCGTTTCGGCACTGCAG	0.428													20	106	---	---	---	---	PASS	T	183857654	T	T	183857654	3	4	168	1	0	0	0	0	1	0	0	0	13276	893	31	2	1133	2	RGL1	1	183857654	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	1285182	183857654	65392967	24	60171										
RGS21	431704	broad.mit.edu	37	chr1	192335237	192335237	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aggttccaaatcataaaaaaTggctcccttttttgtgagga	8	7	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:192335237T>C	uc001gsh.2	+	5	616	c.442T>C	c.(442-444)TGG>CGG	p.W148R		NM_001039152	NP_001034241	Q2M5E4	RGS21_HUMAN	regulator of G-protein signaling 21	148					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|skin(1)	2						TCATAAAAAATGGCTCCCTTT	0.333													16	24	---	---	---	---	PASS	C	192335237	C	C	192335237	3	2	168	1	0	0	0	0	1	0	0	0	13304	1464	51	5	456	5	RGS21	1	192335237	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	8477583	192335237	56915384	25	60172										
CRB1	23418	broad.mit.edu	37	chr1	197404369	197404369	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aacctcaggaagagcaatttCtcaaaatctctaccaattca	4	11	4	1	rs149390998		TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:197404369C>A	uc001gtz.2	+	9	3511	c.3376C>A	c.(3376-3378)CTC>ATC	p.L1126I	CRB1_uc010poz.1_Missense_Mutation_p.L1102I|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.L1014I|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.L607I|CRB1_uc001gub.1_Missense_Mutation_p.L775I	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1126	Extracellular (Potential).|Laminin G-like 3.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding	p.L1126F(1)		ovary(5)|skin(3)|large_intestine(1)	9						AGAGCAATTTCTCAAAATCTC	0.398													26	46	---	---	---	---	PASS	A	197404369	A	A	197404369	3	1	168	1	0	0	0	0	1	0	0	0	3848	913	32	2	3410	2	CRB1	1	197404369	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	5069132	197404369	51846252	26	60173										
CDK18	5129	broad.mit.edu	37	chr1	205495521	205495521	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgctgaagaacctgaagcacGccaatattgtgaccctgcat	9	11	0	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:205495521G>T	uc001hcr.2	+	7	907	c.688G>T	c.(688-690)GCC>TCC	p.A230S	CDK18_uc010pri.1_Missense_Mutation_p.R220L|CDK18_uc001hcp.2_Missense_Mutation_p.A200S|CDK18_uc001hcq.2_Missense_Mutation_p.A200S|CDK18_uc010prj.1_Missense_Mutation_p.A111S|CDK18_uc001hcs.2_Missense_Mutation_p.A111S|CDK18_uc009xbm.1_Missense_Mutation_p.A111S|CDK18_uc001hct.2_5'Flank	NM_212503	NP_997668	Q07002	CDK18_HUMAN	PCTAIRE protein kinase 3 isoform a	198	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding|signal transducer activity			stomach(2)	2						CCTGAAGCACGCCAATATTGT	0.587													7	55	---	---	---	---	PASS	T	205495521	T	T	205495521	3	4	168	1	0	0	0	0	1	0	0	0	3134	1087	38	1	710	1	CDK18	1	205495521	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	8091152	205495521	43755100	27	60174										
IL10	3586	broad.mit.edu	37	chr1	206944254	206944254	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aactgatctgctacttacacAgcgccgtagcctcagcctga	8	14	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:206944254A>G	uc001hen.1	-	3	435	c.376T>C	c.(376-378)TGT>CGT	p.C126R		NM_000572	NP_000563	P22301	IL10_HUMAN	interleukin 10 precursor	126					anti-apoptosis|B cell differentiation|B cell proliferation|cytoplasmic sequestering of NF-kappaB|inflammatory response|leukocyte chemotaxis|negative regulation of B cell proliferation|negative regulation of cytokine secretion involved in immune response|negative regulation of interferon-alpha biosynthetic process|negative regulation of interleukin-6 production|negative regulation of membrane protein ectodomain proteolysis|negative regulation of MHC class II biosynthetic process|negative regulation of T cell proliferation|positive regulation of B cell apoptosis|positive regulation of cytokine secretion|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|receptor biosynthetic process|regulation of isotype switching|response to glucocorticoid stimulus|type 2 immune response	extracellular space	cytokine activity|growth factor activity|interleukin-10 receptor binding				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.211)			CTACTTACACAGCGCCGTAGC	0.547													8	66	---	---	---	---	PASS	G	206944254	G	G	206944254	3	3	168	1	0	0	0	0	1	0	0	0	7619	188	7	5	172	5	IL10	1	206944254	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	1448733	206944254	42306367	28	60175										
CR2	1380	broad.mit.edu	37	chr1	207649608	207649608	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggtgtccacctccgcctaagAcccctaacgggaaccatact	8	16	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:207649608A>G	uc001hfw.2	+	14	2663	c.2569A>G	c.(2569-2571)ACC>GCC	p.T857A	CR2_uc001hfv.2_Missense_Mutation_p.T916A|CR2_uc009xch.2_Intron	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	857	Sushi 14.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TCCGCCTAAGACCCCTAACGG	0.507													23	45	---	---	---	---	PASS	G	207649608	G	G	207649608	3	3	168	1	0	0	0	0	1	0	0	0	3842	275	10	5	2804	5	CR2	1	207649608	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	705354	207649608	41601013	29	60176										
FAM71A	149647	broad.mit.edu	37	chr1	212799258	212799258	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cgaaggtggctgtggcagggGctgcaggcaagtcctcagag	18	9	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:212799258G>C	uc001hjk.2	+	1	1443	c.1039G>C	c.(1039-1041)GCT>CCT	p.A347P	uc010pth.1_RNA	NM_153606	NP_705834	Q8IYT1	FA71A_HUMAN	hypothetical protein LOC149647	347	Ala-rich.									skin(3)|ovary(1)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00631)|all cancers(67;0.00981)|GBM - Glioblastoma multiforme(131;0.0715)|Epithelial(68;0.094)		TGTGGCAGGGGCTGCAGGCAA	0.607													7	15	---	---	---	---	PASS	C	212799258	C	C	212799258	3	2	168	1	0	0	0	0	1	0	0	0	5607	1203	42	4	1041	4	FAM71A	1	212799258	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	5149650	212799258	36451363	30	60177										
MIA3	375056	broad.mit.edu	37	chr1	222833078	222833078	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gatatttttcttcaatagctCaaagctcgtgctgcagaaag	8	8	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:222833078C>A	uc001hnl.2	+	22	4818	c.4809C>A	c.(4807-4809)CTC>CTA	p.L1603L	MIA3_uc001hnm.2_Silent_p.L481L	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	1603	Cytoplasmic (Potential).|Potential.				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		TTCAATAGCTCAAAGCTCGTG	0.383													22	36	---	---	---	---	PASS	A	222833078	A	A	222833078	2	1	168	1	0	0	0	0	0	0	0	1	9565	813	29	2		2	MIA3	1	222833078	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	10033820	222833078	26417543	31	60178										
PARP1	142	broad.mit.edu	37	chr1	226550831	226550831	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgcttgcccttgggtaacttGctgatatgtgaagcgtgctt	12	8	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:226550831G>A	uc001hqd.3	-	21	2988	c.2817C>T	c.(2815-2817)AGC>AGT	p.S939S		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	939	PARP catalytic.				cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		TGGGTAACTTGCTGATATGTG	0.502								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					12	65	---	---	---	---	PASS	A	226550831	A	A	226550831	2	1	168	1	0	0	0	0	0	0	0	1	11454	1310	46	3		3	PARP1	1	226550831	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	3717753	226550831	22699790	32	60179										
NUP133	55746	broad.mit.edu	37	chr1	229577773	229577773	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tttcacctccggtaagtactCactgagctgaatgcctataa	7	11	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:229577773C>T	uc001htn.2	-	26	3441	c.3349G>A	c.(3349-3351)GAG>AAG	p.E1117K		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	1117					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				GGTAAGTACTCACTGAGCTGA	0.363													12	104	---	---	---	---	PASS	T	229577773	T	T	229577773	3	4	168	1	0	0	0	0	1	0	0	0	10754	835	29	2	125	2	NUP133	1	229577773	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	3026942	229577773	19672848	33	60180										
NUP133	55746	broad.mit.edu	37	chr1	229599292	229599292	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acacccaacactcatcacctGatcagcaaactgggtcatgt	6	14	4	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:229599292G>A	uc001htn.2	-	19	2775	c.2683C>T	c.(2683-2685)CAG>TAG	p.Q895*		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	895					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				CTCATCACCTGATCAGCAAAC	0.443													5	57	---	---	---	---	PASS	A	229599292	A	A	229599292	4	1	168	1	0	0	0	0	0	1	0	0	10754	1299	45	2	819	2	NUP133	1	229599292	Nonsense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	21519	229599292	19651329	34	60181										
PCNXL2	80003	broad.mit.edu	37	chr1	233161104	233161104	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gcctctgtcctcctcgtcgcCctccatgatggcttctacct	7	18	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:233161104C>A	uc001hvl.2	-	26	4628	c.4393G>T	c.(4393-4395)GGC>TGC	p.G1465C	PCNXL2_uc001hvk.1_Missense_Mutation_p.G117C|PCNXL2_uc001hvm.1_Intron	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1465						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				TCCTCGTCGCCCTCCATGATG	0.572											OREG0014326	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	33	---	---	---	---	PASS	A	233161104	A	A	233161104	3	1	168	1	0	0	0	0	1	0	0	0	11592	623	22	3	2056	3	PCNXL2	1	233161104	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	3561812	233161104	16089517	35	60182										
VN1R5	317705	broad.mit.edu	37	chr1	247419658	247419658	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctcatccacatactgctgctCttcacccaggcaatattggt	6	14	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:247419658C>G	uc010pyu.1	+	2	285	c.285C>G	c.(283-285)CTC>CTG	p.L95L		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	95	Helical; Name=3; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			TACTGCTGCTCTTCACCCAGG	0.398													6	115	---	---	---	---	PASS	G	247419658	G	G	247419658	2	3	168	1	0	0	0	0	0	0	0	1	17178	900	32	2		2	VN1R5	1	247419658	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	14258554	247419658	1830963	36	60183										
VN1R5	317705	broad.mit.edu	37	chr1	247420096	247420096	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aagaggctacatggtgattaTtttatacagacaataagagg	10	4	0	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:247420096T>A	uc010pyu.1	+	2	723	c.723T>A	c.(721-723)TAT>TAA	p.Y241*		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	241	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			ATGGTGATTATTTTATACAGA	0.473													33	69	---	---	---	---	PASS	A	247420096	A	A	247420096	4	1	168	1	0	0	0	0	0	1	0	0	17178	1500	52	5	725	5	VN1R5	1	247420096	Nonsense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	438	247420096	1830525	37	60184										
OR2G3	81469	broad.mit.edu	37	chr1	247769158	247769158	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acttgcaaagaccaaagaagAcgatcacttacggtggttgt	10	8	1	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:247769158A>G	uc010pyz.1	+	1	271	c.271A>G	c.(271-273)ACG>GCG	p.T91A		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			ACCAAAGAAGACGATCACTTA	0.468													55	120	---	---	---	---	PASS	G	247769158	G	G	247769158	3	3	168	1	0	0	0	0	1	0	0	0	10999	275	10	5	273	5	OR2G3	1	247769158	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	349062	247769158	1481463	38	60185										
OR2L8	391190	broad.mit.edu	37	chr1	248113057	248113057	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acaaggaggtgatgggggccCtgacacgagtgagtcagaga	17	7	1	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:248113057C>A	uc001idt.1	+	1	898	c.898C>A	c.(898-900)CTG>ATG	p.L300M	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			GATGGGGGCCCTGACACGAGT	0.488													16	27	---	---	---	---	PASS	A	248113057	A	A	248113057	3	1	168	1	0	0	0	0	1	0	0	0	11009	680	24	3	900	3	OR2L8	1	248113057	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	343899	248113057	1137564	39	60186										
OR2M2	391194	broad.mit.edu	37	chr1	248344097	248344097	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tctgatcactccccaacgcaGgacaagatggtgtctgtatt	9	11	3	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:248344097G>A	uc010pzf.1	+	1	810	c.810G>A	c.(808-810)CAG>CAA	p.Q270Q		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	270	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CCCCAACGCAGGACAAGATGG	0.502													33	140	---	---	---	---	PASS	A	248344097	A	A	248344097	2	1	168	1	0	0	0	0	0	0	0	1	11010	991	35	3		3	OR2M2	1	248344097	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	231040	248344097	906524	40	60187										
OR2T4	127074	broad.mit.edu	37	chr1	248525076	248525076	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	actttgtgtggtcatttttgTggttttcctgatggcgttgt	12	5	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr1:248525076T>G	uc001ieh.1	+	1	194	c.194T>G	c.(193-195)GTG>GGG	p.V65G		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	65	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GTCATTTTTGTGGTTTTCCTG	0.478													7	150	---	---	---	---	PASS	G	248525076	G	G	248525076	3	3	168	1	0	0	0	0	1	0	0	0	11027	1696	59	5	196	5	OR2T4	1	248525076	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	180979	248525076	725545	41	60188										
GREB1	9687	broad.mit.edu	37	chr2	11767139	11767139	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttatgtgcggcgtcagacggCacggatgagactgtccaagt	14	9	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:11767139C>T	uc002rbk.1	+	25	4658	c.4358C>T	c.(4357-4359)GCA>GTA	p.A1453V	GREB1_uc002rbp.1_Missense_Mutation_p.A451V	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1453						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)		CGTCAGACGGCACGGATGAGA	0.572													5	24	---	---	---	---	PASS	T	11767139	T	T	11767139	3	4	168	1	0	0	0	0	1	0	0	0	6760	710	25	3	4560	3	GREB1	2	11767139	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08		11767139	231432234	42	60189										
SOS1	6654	broad.mit.edu	37	chr2	39294858	39294858	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aacatactgaagagcatcatCattagactcgagagtaggat	9	7	2	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:39294858C>G	uc002rrk.3	-	2	165	c.124G>C	c.(124-126)GAT>CAT	p.D42H	SOS1_uc010ynr.1_RNA	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	42					apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				AGAGCATCATCATTAGACTCG	0.343									Noonan_syndrome				32	158	---	---	---	---	PASS	G	39294858	G	G	39294858	3	3	168	1	0	0	0	0	1	0	0	0	14936	826	29	2	3965	2	SOS1	2	39294858	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	27527719	39294858	203904515	43	60190										
PEX13	5194	broad.mit.edu	37	chr2	61258651	61258651	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	caaggccatcacagcagacaGgaagtagcagtgtgaacact	11	10	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:61258651G>T	uc002sau.3	+	2	273	c.190G>T	c.(190-192)GGA>TGA	p.G64*		NM_002618	NP_002609	Q92968	PEX13_HUMAN	peroxisomal biogenesis factor 13	64	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)			ACAGCAGACAGGAAGTAGCAG	0.438													5	79	---	---	---	---	PASS	T	61258651	T	T	61258651	4	4	168	1	0	0	0	0	0	1	0	0	11741	1001	35	3	196	3	PEX13	2	61258651	Nonsense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	21963793	61258651	181940722	44	60191										
USP34	9736	broad.mit.edu	37	chr2	61415429	61415429	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gcttggccatcacagcttctCaagtcagctaagtcagacag	9	12	4	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:61415429C>G	uc002sbe.2	-	80	10471	c.10449G>C	c.(10447-10449)TTG>TTC	p.L3483F	USP34_uc002sbd.2_Missense_Mutation_p.L285F	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	3483					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			CACAGCTTCTCAAGTCAGCTA	0.478													30	61	---	---	---	---	PASS	G	61415429	G	G	61415429	3	3	168	1	0	0	0	0	1	0	0	0	17062	825	29	2	195	2	USP34	2	61415429	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	156778	61415429	181783944	45	60192										
TSGA10	80705	broad.mit.edu	37	chr2	99634803	99634803	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tggcggcgaagttcttgtacGgccctctccctaaagcaaaa	10	12	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:99634803G>A	uc002szg.3	-	18	2560	c.1932C>T	c.(1930-1932)GCC>GCT	p.A644A	TSGA10_uc002szh.3_Silent_p.A644A|TSGA10_uc002szi.3_Silent_p.A644A|TSGA10_uc010fin.1_Silent_p.A644A	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	644	Interaction with HIF1A (By similarity).				spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						GTTCTTGTACGGCCCTCTCCC	0.333													12	49	---	---	---	---	PASS	A	99634803	A	A	99634803	2	1	168	1	0	0	0	0	0	0	0	1	16614	1103	39	1		1	TSGA10	2	99634803	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	38219374	99634803	143564570	46	60193										
GCC2	9648	broad.mit.edu	37	chr2	109086257	109086257	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acttacaaaagcagctggaaGaagcaatgaatacgcaatta	8	7	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:109086257G>A	uc002tec.2	+	6	626	c.472G>A	c.(472-474)GAA>AAA	p.E158K	GCC2_uc002ted.2_Missense_Mutation_p.E57K	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	158	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						GCAGCTGGAAGAAGCAATGAA	0.303													48	87	---	---	---	---	PASS	A	109086257	A	A	109086257	3	1	168	1	0	0	0	0	1	0	0	0	6286	943	33	2	494	2	GCC2	2	109086257	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	9451454	109086257	134113116	47	60194										
TUBA3E	112714	broad.mit.edu	37	chr2	130951676	130951676	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cgtcaagtccacattcagggCcccatcaaatcgcagggagg	11	13	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:130951676C>T	uc002tqv.2	-	4	840	c.739G>A	c.(739-741)GCC>ACC	p.A247T		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	247					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					ACATTCAGGGCCCCATCAAAT	0.592													36	126	---	---	---	---	PASS	T	130951676	T	T	130951676	3	4	168	1	0	0	0	0	1	0	0	0	16745	739	26	3	621	3	TUBA3E	2	130951676	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	21865419	130951676	112247697	48	60195										
PKP4	8502	broad.mit.edu	37	chr2	159535159	159535159	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agcaagagaacaaaatagacGgctacaggtgaatttgcaat	10	6	0	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:159535159G>A	uc002tzv.2	+	21	3583	c.3323G>A	c.(3322-3324)CGG>CAG	p.R1108Q	PKP4_uc002tzw.2_Missense_Mutation_p.R1065Q|PKP4_uc002tzx.2_Missense_Mutation_p.R765Q|PKP4_uc002uaa.2_Missense_Mutation_p.R917Q|uc002uab.1_Intron|PKP4_uc002uac.2_Missense_Mutation_p.R289Q|PKP4_uc002uad.2_RNA	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	1108					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						CAAAATAGACGGCTACAGGTG	0.398										HNSCC(62;0.18)			8	20	---	---	---	---	PASS	A	159535159	A	A	159535159	3	1	168	1	0	0	0	0	1	0	0	0	11987	1116	39	1	3401	1	PKP4	2	159535159	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	28583483	159535159	83664214	49	60196										
SCN1A	6323	broad.mit.edu	37	chr2	166901684	166901684	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctcatctttctcttccccacCagactgctctttctgttttc	3	16	5	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:166901684C>T	uc010zcz.1	-	10	1549	c.1531G>A	c.(1531-1533)GGT>AGT	p.G511S	SCN1A_uc002udo.3_Missense_Mutation_p.G380S|SCN1A_uc010fpk.2_Missense_Mutation_p.G380S	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	511						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TCTTCCCCACCAGACTGCTCT	0.448													32	71	---	---	---	---	PASS	T	166901684	T	T	166901684	3	4	168	1	0	0	0	0	1	0	0	0	13914	594	21	3	4566	3	SCN1A	2	166901684	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	7366525	166901684	76297689	50	60197										
DLX1	1745	broad.mit.edu	37	chr2	172951530	172951530	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cagcaaactcagtacctagcTctgccggagagggcggagct	13	12	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:172951530T>G	uc002uhl.2	+	2	660	c.462T>G	c.(460-462)GCT>GCG	p.A154A	DLX1_uc010fqj.1_Silent_p.A154A|DLX1_uc002uhm.2_Intron	NM_178120	NP_835221	P56177	DLX1_HUMAN	distal-less homeobox 1 isoform 1	154	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)			AGTACCTAGCTCTGCCGGAGA	0.582													35	95	---	---	---	---	PASS	G	172951530	G	G	172951530	2	3	168	1	0	0	0	0	0	0	0	1	4570	1538	54	5		5	DLX1	2	172951530	Silent	SNP	T	TCGA-66-2791-01A-01D-0983-08	6049846	172951530	70247843	51	60198										
ATP5G3	518	broad.mit.edu	37	chr2	176043809	176043809	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cataaccaatgataaggctgCcaaagactgttccaatacca	6	11	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:176043809C>A	uc002ujz.3	-	3	560	c.290G>T	c.(289-291)GGC>GTC	p.G97V	ATP5G3_uc002uka.3_Missense_Mutation_p.G97V|ATP5G3_uc002ukb.1_Missense_Mutation_p.G97V	NM_001002258	NP_001002258	P48201	AT5G3_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	97	Helical; (Potential).				ATP hydrolysis coupled proton transport|ATP synthesis coupled proton transport	integral to membrane|mitochondrial proton-transporting ATP synthase complex|proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity|lipid binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.147)			GATAAGGCTGCCAAAGACTGT	0.413													10	47	---	---	---	---	PASS	A	176043809	A	A	176043809	3	1	168	1	0	0	0	0	1	0	0	0	1155	739	26	3	150	3	ATP5G3	2	176043809	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	3092279	176043809	67155564	52	60199										
TTN	7273	broad.mit.edu	37	chr2	179596503	179596503	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	attcgccagcatctgcagctAcaaacttgaggatctgcagg	10	11	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:179596503A>G	uc010zfg.1	-	55	13591	c.13367T>C	c.(13366-13368)GTA>GCA	p.V4456A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.V1117A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5383							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)			ATCTGCAGCTACAAACTTGAG	0.478													17	115	---	---	---	---	PASS	G	179596503	G	G	179596503	3	3	168	1	0	0	0	0	1	0	0	0	16732	391	14	5	87650	5	TTN	2	179596503	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	3552694	179596503	63602870	53	60200										
ZNF385B	151126	broad.mit.edu	37	chr2	180634369	180634369	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gagttcagctggatgttgcaCacctcacagaaggagaaaag	12	8	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:180634369C>T	uc002unn.3	-	3	718	c.114G>A	c.(112-114)GTG>GTA	p.V38V		NM_152520	NP_689733	Q569K4	Z385B_HUMAN	zinc finger protein 385B isoform 1	38	Matrin-type 1.					nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			GGATGTTGCACACCTCACAGA	0.507													15	36	---	---	---	---	PASS	T	180634369	T	T	180634369	2	4	168	1	0	0	0	0	0	0	0	1	17874	465	17	3		3	ZNF385B	2	180634369	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	1037866	180634369	62565004	54	60201										
CERKL	375298	broad.mit.edu	37	chr2	182438605	182438605	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttaatgacttcggtctgtttGgaaagcctaagaagaaattt	9	5	1	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:182438605G>A	uc002unx.2	-	3	589	c.488C>T	c.(487-489)CCA>CTA	p.P163L	CERKL_uc002uny.2_Missense_Mutation_p.P163L|CERKL_uc010zfm.1_Intron|CERKL_uc002unz.2_5'UTR|CERKL_uc002uoa.2_Missense_Mutation_p.P163L|CERKL_uc002uob.2_Intron|CERKL_uc002uoc.2_Intron|CERKL_uc010frk.2_Intron|CERKL_uc002uod.1_5'UTR|CERKL_uc002uoe.2_Missense_Mutation_p.P163L	NM_001030311	NP_001025482	Q49MI3	CERKL_HUMAN	ceramide kinase-like isoform b	163					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis	endoplasmic reticulum|endoplasmic reticulum|Golgi apparatus|Golgi apparatus|nucleolus|nucleolus	diacylglycerol kinase activity			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.088)			CGGTCTGTTTGGAAAGCCTAA	0.338													14	60	---	---	---	---	PASS	A	182438605	A	A	182438605	3	1	168	1	0	0	0	0	1	0	0	0	3268	1348	47	3	1236	3	CERKL	2	182438605	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	1804236	182438605	60760768	55	60202										
FAM171B	165215	broad.mit.edu	37	chr2	187615909	187615909	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgctgcaatatgtgtgaaaaTatattctggaggaaaagaac	10	4	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:187615909T>A	uc002ups.2	+	5	885	c.773T>A	c.(772-774)ATA>AAA	p.I258K	FAM171B_uc002upr.1_Missense_Mutation_p.I258K	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	258	Extracellular (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						TGTGTGAAAATATATTCTGGA	0.353													33	88	---	---	---	---	PASS	A	187615909	A	A	187615909	3	1	168	1	0	0	0	0	1	0	0	0	5491	1406	49	5	791	5	FAM171B	2	187615909	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	5177304	187615909	55583464	56	60203										
IKZF2	22807	broad.mit.edu	37	chr2	213921675	213921675	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccctcgccttgaagctcctgGactttcctgttgtcagccac	8	16	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:213921675G>C	uc002vem.2	-	4	457	c.288C>G	c.(286-288)GTC>GTG	p.V96V	IKZF2_uc010fuu.2_Intron|IKZF2_uc002vej.2_Silent_p.V43V|IKZF2_uc002vek.2_RNA|IKZF2_uc010fuv.2_Silent_p.V96V|IKZF2_uc002vel.2_Silent_p.V43V|IKZF2_uc010fuw.2_5'UTR|IKZF2_uc010fux.2_Intron|IKZF2_uc010fuy.2_Silent_p.V96V|IKZF2_uc002ven.2_Silent_p.V96V	NM_016260	NP_057344	Q9UKS7	IKZF2_HUMAN	helios isoform 1	96					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		GAAGCTCCTGGACTTTCCTGT	0.532													21	38	---	---	---	---	PASS	C	213921675	C	C	213921675	2	2	168	1	0	0	0	0	0	0	0	1	7615	1161	41	2		2	IKZF2	2	213921675	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	26305766	213921675	29277698	57	60204										
PNKD	25953	broad.mit.edu	37	chr2	219204777	219204777	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aaggtgcttcccatccctgtCctctcggacaactacagcta	7	15	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:219204777C>A	uc002vhn.2	+	4	522	c.378C>A	c.(376-378)GTC>GTA	p.V126V	PNKD_uc002vhq.2_Silent_p.V102V	NM_015488	NP_056303	Q8N490	PNKD_HUMAN	myofibrillogenesis regulator 1 isoform 1	126						membrane|mitochondrion|nucleus	hydroxyacylglutathione hydrolase activity|zinc ion binding				0		Renal(207;0.0474)		Epithelial(149;7.33e-07)|all cancers(144;0.000133)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCATCCCTGTCCTCTCGGACA	0.647													4	37	---	---	---	---	PASS	A	219204777	A	A	219204777	2	1	168	1	0	0	0	0	0	0	0	1	12146	842	30	2		2	PNKD	2	219204777	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	5283102	219204777	23994596	58	60205										
C2orf24	27013	broad.mit.edu	37	chr2	220039778	220039778	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgggtttcggtgccggagccGttcaatgtacaccagagcca	13	11	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:220039778G>A	uc002vju.3	-	4	465	c.313C>T	c.(313-315)CGG>TGG	p.R105W	C2orf24_uc002vjv.2_Missense_Mutation_p.R105W	NM_015680	NP_056495	Q9BV87	CNPD1_HUMAN	hypothetical protein LOC27013	105					regulation of cyclin-dependent protein kinase activity	integral to membrane	protein kinase binding				0		Renal(207;0.0915)		Epithelial(149;8.92e-07)|all cancers(144;0.000151)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGCCGGAGCCGTTCAATGTAC	0.527													29	52	---	---	---	---	PASS	A	220039778	A	A	220039778	3	1	168	1	0	0	0	0	1	0	0	0	2159	1144	40	1	939	1	C2orf24	2	220039778	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	835001	220039778	23159595	59	60206										
KIAA1486	57624	broad.mit.edu	37	chr2	226516205	226516205	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gacgtcaggtgtgcctcctcCatcagtcactcccctcaggc	9	17	4	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:226516205C>T	uc002voe.2	+	6	2061	c.1886C>T	c.(1885-1887)CCA>CTA	p.P629L	KIAA1486_uc010fxa.1_3'UTR|KIAA1486_uc002vof.1_Missense_Mutation_p.P399L	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	629										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		GTGCCTCCTCCATCAGTCACT	0.493													76	122	---	---	---	---	PASS	T	226516205	T	T	226516205	3	4	168	1	0	0	0	0	1	0	0	0	8237	594	21	3	1904	3	KIAA1486	2	226516205	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	6476427	226516205	16683168	60	60207										
SPHKAP	80309	broad.mit.edu	37	chr2	228881839	228881839	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctgtcagcctggagcatgggGatctgctgtctggcatggac	15	10	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:228881839G>T	uc002vpq.2	-	7	3778	c.3731C>A	c.(3730-3732)TCC>TAC	p.S1244Y	SPHKAP_uc002vpp.2_Missense_Mutation_p.S1244Y|SPHKAP_uc010zlx.1_Missense_Mutation_p.S1244Y	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1244						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GGAGCATGGGGATCTGCTGTC	0.572													27	40	---	---	---	---	PASS	T	228881839	T	T	228881839	3	4	168	1	0	0	0	0	1	0	0	0	15047	1174	41	2	1395	2	SPHKAP	2	228881839	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	2365634	228881839	14317534	61	60208										
GIGYF2	26058	broad.mit.edu	37	chr2	233704607	233704607	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agtccaatacaacagcatgtCagtcccaggccacgctgtcg	9	14	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr2:233704607C>G	uc002vti.3	+	25	3152	c.2815C>G	c.(2815-2817)CAG>GAG	p.Q939E	GIGYF2_uc002vtj.3_Missense_Mutation_p.Q960E|GIGYF2_uc002vtk.3_Missense_Mutation_p.Q939E|GIGYF2_uc002vth.3_Missense_Mutation_p.Q933E|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Missense_Mutation_p.Q770E|GIGYF2_uc002vtq.3_Missense_Mutation_p.Q272E	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	939	Gln-rich.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		AACAGCATGTCAGTCCCAGGC	0.458													21	27	---	---	---	---	PASS	G	233704607	G	G	233704607	3	3	168	1	0	0	0	0	1	0	0	0	6378	827	29	2	2967	2	GIGYF2	2	233704607	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	4822768	233704607	9494766	62	60209										
RPL32	6161	broad.mit.edu	37	chr3	12880933	12880933	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gggcagcatgtgctttgtttTtttgttgcttccataaccaa	9	8	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:12880933T>C	uc003bxl.2	-	2	406	c.193A>G	c.(193-195)AAA>GAA	p.K65E	RPL32_uc003bxm.2_Missense_Mutation_p.K65E|RPL32_uc003bxn.2_Missense_Mutation_p.K65E	NM_001007074	NP_001007075	P62910	RL32_HUMAN	ribosomal protein L32	65					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	protein binding|structural constituent of ribosome			ovary(1)	1						TGCTTTGTTTTTTTGTTGCTT	0.507													7	214	---	---	---	---	PASS	C	12880933	C	C	12880933	3	2	168	1	0	0	0	0	1	0	0	0	13582	1850	64	5	222	5	RPL32	3	12880933	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08		12880933	185141497	63	60210										
EFHB	151651	broad.mit.edu	37	chr3	19956850	19956850	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tcatgtccttcatttccttcTttaaatacttcttcatagga	3	10	5	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:19956850T>C	uc003cbl.3	-	5	1429	c.1233A>G	c.(1231-1233)AAA>AAG	p.K411K	EFHB_uc003cbm.2_Silent_p.K281K	NM_144715	NP_653316	Q8N7U6	EFHB_HUMAN	EF hand domain family, member B	411					signal transduction	proteinaceous extracellular matrix	calcium ion binding				0						CATTTCCTTCTTTAAATACTT	0.363													4	14	---	---	---	---	PASS	C	19956850	C	C	19956850	2	2	168	1	0	0	0	0	0	0	0	1	4945	1606	56	5		5	EFHB	3	19956850	Silent	SNP	T	TCGA-66-2791-01A-01D-0983-08	7075917	19956850	178065580	64	60211										
TGFBR2	7048	broad.mit.edu	37	chr3	30713559	30713559	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gacagagaaggacatcttctCagacatcaatctgaagcatg	9	9	4	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:30713559C>G	uc003ceo.2	+	4	1266	c.884C>G	c.(883-885)TCA>TGA	p.S295*	TGFBR2_uc003cen.2_Nonsense_Mutation_p.S320*	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	295	Protein kinase.|Cytoplasmic (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						GACATCTTCTCAGACATCAAT	0.493													25	39	---	---	---	---	PASS	G	30713559	G	G	30713559	4	3	168	1	0	0	0	0	0	1	0	0	15819	838	29	2	977	2	TGFBR2	3	30713559	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	10756709	30713559	167308871	65	60212										
XYLB	9942	broad.mit.edu	37	chr3	38406756	38406756	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	caagcttatcaccagacctcCggctacaccagcagctgcag	8	16	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:38406756C>T	uc003cic.2	+	5	467	c.358C>T	c.(358-360)CGG>TGG	p.R120W	XYLB_uc011ayp.1_5'UTR|XYLB_uc003cid.1_Missense_Mutation_p.R42W	NM_005108	NP_005099	O75191	XYLB_HUMAN	xylulokinase	120					D-xylose metabolic process|generation of precursor metabolites and energy|xylulose catabolic process		ATP binding|xylulokinase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.00372)|Kidney(284;0.00405)		ACCAGACCTCCGGCTACACCA	0.542													12	36	---	---	---	---	PASS	T	38406756	T	T	38406756	3	4	168	1	0	0	0	0	1	0	0	0	17459	643	23	1	376	1	XYLB	3	38406756	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	7693197	38406756	159615674	66	60213										
MST1R	4486	broad.mit.edu	37	chr3	49928037	49928037	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctccctgtccaggatgtcgcGggccaaaccaaagtcagcca	10	15	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:49928037G>A	uc003cxy.3	-	18	3955	c.3691C>T	c.(3691-3693)CGC>TGC	p.R1231C	MST1R_uc011bdc.1_Missense_Mutation_p.R110C	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	1231	Cytoplasmic (Potential).|Protein kinase.				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)		AGGATGTCGCGGGCCAAACCA	0.557													13	16	---	---	---	---	PASS	A	49928037	A	A	49928037	3	1	168	1	0	0	0	0	1	0	0	0	9891	1116	39	1	523	1	MST1R	3	49928037	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	11521281	49928037	148094393	67	60214										
RBM6	10180	broad.mit.edu	37	chr3	50114516	50114516	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gacagtccaacgagacttacCgagatgctgttcgaagagtc	11	10	0	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:50114516C>T	uc003cyc.2	+	21	3455	c.3322C>T	c.(3322-3324)CGA>TGA	p.R1108*	RBM6_uc003cyd.2_Nonsense_Mutation_p.R586*|RBM6_uc003cye.2_Nonsense_Mutation_p.R586*|RBM6_uc011bdi.1_Nonsense_Mutation_p.R450*|RBM6_uc010hld.1_Intron|RBM6_uc010hle.1_Intron|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	1108					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		CGAGACTTACCGAGATGCTGT	0.458													8	21	---	---	---	---	PASS	T	50114516	T	T	50114516	4	4	168	1	0	0	0	0	0	1	0	0	13144	644	23	1	3400	1	RBM6	3	50114516	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	186479	50114516	147907914	68	60215										
PRKCD	5580	broad.mit.edu	37	chr3	53212538	53212538	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tctgtgccgtgaagatgaagGaggcgctcagcacaggtagg	16	8	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:53212538G>C	uc003dgl.2	+	3	453	c.100G>C	c.(100-102)GAG>CAG	p.E34Q	PRKCD_uc003dgm.2_Missense_Mutation_p.E34Q|PRKCD_uc003dgn.2_Missense_Mutation_p.E34Q	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta	34	C2.				activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)		GAAGATGAAGGAGGCGCTCAG	0.657													11	8	---	---	---	---	PASS	C	53212538	C	C	53212538	3	2	168	1	0	0	0	0	1	0	0	0	12509	1175	41	2	102	2	PRKCD	3	53212538	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	3098022	53212538	144809892	69	60216										
PDZRN3	23024	broad.mit.edu	37	chr3	73433611	73433611	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgcatcttgtgggcgcgcacGatgctcaggcactccagctc	12	14	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:73433611G>A	uc003dpl.1	-	10	2202	c.2106C>T	c.(2104-2106)ATC>ATT	p.I702I	PDZRN3_uc011bgh.1_Silent_p.I359I|PDZRN3_uc010hoe.1_Silent_p.I400I|PDZRN3_uc011bgf.1_Silent_p.I419I|PDZRN3_uc011bgg.1_Silent_p.I422I	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	702	Potential.						ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GGGCGCGCACGATGCTCAGGC	0.627													7	15	---	---	---	---	PASS	A	73433611	A	A	73433611	2	1	168	1	0	0	0	0	0	0	0	1	11709	1048	37	2		2	PDZRN3	3	73433611	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	20221073	73433611	124588819	70	60217										
GPR128	84873	broad.mit.edu	37	chr3	100362185	100362185	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gaacctaacatagcaatacaGtcagcaaatttctcttcaga	5	10	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:100362185G>A	uc003duc.2	+	7	1042	c.774G>A	c.(772-774)CAG>CAA	p.Q258Q	GPR128_uc011bhc.1_Intron	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	258	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						TAGCAATACAGTCAGCAAATT	0.388													22	91	---	---	---	---	PASS	A	100362185	A	A	100362185	2	1	168	1	0	0	0	0	0	0	0	1	6641	1020	36	3		3	GPR128	3	100362185	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	26928574	100362185	97660245	71	60218										
CD200	4345	broad.mit.edu	37	chr3	112066467	112066467	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acctaaatatcacttgctctGccactgcccgcccagccccc	5	20	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:112066467G>T	uc003dyw.2	+	5	703	c.559G>T	c.(559-561)GCC>TCC	p.A187S	CD200_uc010hqd.1_Missense_Mutation_p.A46S|CD200_uc003dyx.2_Missense_Mutation_p.A162S|CD200_uc003dyy.2_Missense_Mutation_p.A46S|CD200_uc003dyz.2_Missense_Mutation_p.A88S	NM_001004196	NP_001004196	P41217	OX2G_HUMAN	CD200 antigen isoform b	162	Ig-like C2-type.|Extracellular (Potential).				regulation of immune response	integral to plasma membrane					0		Acute lymphoblastic leukemia(4;1.7e-08)|all_hematologic(4;8.82e-05)				CACTTGCTCTGCCACTGCCCG	0.468													31	83	---	---	---	---	PASS	T	112066467	T	T	112066467	3	4	168	1	0	0	0	0	1	0	0	0	2980	1319	46	3	577	3	CD200	3	112066467	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	11704282	112066467	85955963	72	60219										
C3orf17	25871	broad.mit.edu	37	chr3	112724646	112724646	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccacttagcactggtatctgTagcactcttccgagtccctt	7	14	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:112724646T>C	uc003dzr.2	-	9	1502	c.1441A>G	c.(1441-1443)ACA>GCA	p.T481A	GTPBP8_uc011bhy.1_Intron|C3orf17_uc003dzq.2_Missense_Mutation_p.T106A|C3orf17_uc011bhz.1_Missense_Mutation_p.T106A|C3orf17_uc010hqh.2_Missense_Mutation_p.T106A|C3orf17_uc003dzt.2_Missense_Mutation_p.T384A|C3orf17_uc003dzs.2_Missense_Mutation_p.T345A|C3orf17_uc010hqg.2_Missense_Mutation_p.T306A|C3orf17_uc011bia.1_Missense_Mutation_p.T278A|C3orf17_uc003dzu.2_Missense_Mutation_p.T410A|C3orf17_uc011bib.1_Missense_Mutation_p.T370A|C3orf17_uc011bic.1_Missense_Mutation_p.T314A|C3orf17_uc011bid.1_RNA	NM_015412	NP_056227	Q6NW34	CC017_HUMAN	hypothetical protein LOC25871	481						integral to membrane					0						CTGGTATCTGTAGCACTCTTC	0.433													17	33	---	---	---	---	PASS	C	112724646	C	C	112724646	3	2	168	1	0	0	0	0	1	0	0	0	2210	1638	57	5	266	5	C3orf17	3	112724646	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	658179	112724646	85297784	73	60220										
ZNF80	7634	broad.mit.edu	37	chr3	113955426	113955426	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtagtaaaaggtttttccacAttctttgcacccaaagagtt	7	8	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:113955426A>G	uc010hqo.2	-	1	1000	c.496T>C	c.(496-498)TGT>CGT	p.C166R	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	166	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)				GTTTTTCCACATTCTTTGCAC	0.483													14	63	---	---	---	---	PASS	G	113955426	G	G	113955426	3	3	168	1	0	0	0	0	1	0	0	0	18165	217	8	5	329	5	ZNF80	3	113955426	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	1230780	113955426	84067004	74	60221										
TOPBP1	11073	broad.mit.edu	37	chr3	133337159	133337159	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtattgtgtgggacaactagGccactgcaaattgctggcaa	12	8	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:133337159G>C	uc003eps.2	-	21	3622	c.3490C>G	c.(3490-3492)CCT>GCT	p.P1164A	TOPBP1_uc003ept.1_Missense_Mutation_p.P168A	NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	1164					DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						GGACAACTAGGCCACTGCAAA	0.443								Other_conserved_DNA_damage_response_genes					29	76	---	---	---	---	PASS	C	133337159	C	C	133337159	3	2	168	1	0	0	0	0	1	0	0	0	16366	1203	42	4	1110	4	TOPBP1	3	133337159	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	19381733	133337159	64685271	75	60222										
AADACL2	344752	broad.mit.edu	37	chr3	151451952	151451952	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gatgccatcgctaaaacttgTacatttacggtaaggttaac	8	8	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:151451952T>C	uc003ezc.2	+	1	249	c.129T>C	c.(127-129)TGT>TGC	p.C43C	AADACL2_uc010hvn.2_5'UTR	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2 precursor	43						extracellular region|integral to membrane	carboxylesterase activity				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			CTAAAACTTGTACATTTACGG	0.333													7	29	---	---	---	---	PASS	C	151451952	C	C	151451952	2	2	168	1	0	0	0	0	0	0	0	1	11	1644	57	5		5	AADACL2	3	151451952	Silent	SNP	T	TCGA-66-2791-01A-01D-0983-08	18114793	151451952	46570478	76	60223										
PEX5L	51555	broad.mit.edu	37	chr3	179529630	179529630	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gcttgttcattttcattctcCgcctgggttatcccgaggaa	9	11	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr3:179529630C>T	uc003fki.1	-	11	1243	c.1113G>A	c.(1111-1113)GCG>GCA	p.A371A	PEX5L_uc011bqd.1_Silent_p.A328A|PEX5L_uc011bqe.1_Silent_p.A179A|PEX5L_uc011bqf.1_Silent_p.A263A|PEX5L_uc003fkj.1_Silent_p.A336A|PEX5L_uc010hxd.1_Silent_p.A369A|PEX5L_uc011bqg.1_Silent_p.A347A|PEX5L_uc011bqh.1_Silent_p.A312A	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	371	TPR 1.				protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			TTTCATTCTCCGCCTGGGTTA	0.448													60	74	---	---	---	---	PASS	T	179529630	T	T	179529630	2	4	168	1	0	0	0	0	0	0	0	1	11749	639	23	1		1	PEX5L	3	179529630	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	28077678	179529630	18492800	77	60224										
EVC2	132884	broad.mit.edu	37	chr4	5642280	5642280	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agcaactcttctgcttcctcCattgccatcatctctctctg	4	16	5	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:5642280C>A	uc003gij.2	-	10	1485	c.1431G>T	c.(1429-1431)ATG>ATT	p.M477I	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Missense_Mutation_p.M397I	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	477	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						CTGCTTCCTCCATTGCCATCA	0.468													6	162	---	---	---	---	PASS	A	5642280	A	A	5642280	3	1	168	1	0	0	0	0	1	0	0	0	5286	594	21	3	2547	3	EVC2	4	5642280	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08		5642280	185511996	78	60225										
ACOX3	8310	broad.mit.edu	37	chr4	8383231	8383231	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atacttacctggcatttgttCcttgcttcaaagtcactgct	6	11	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:8383231C>G	uc010idk.2	-	14	1786	c.1641G>C	c.(1639-1641)AGG>AGC	p.R547S	ACOX3_uc003glc.3_Missense_Mutation_p.R547S|ACOX3_uc003gld.3_Missense_Mutation_p.R547S|ACOX3_uc003gle.1_Missense_Mutation_p.R452S	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	547					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						GGCATTTGTTCCTTGCTTCAA	0.368													24	56	---	---	---	---	PASS	G	8383231	G	G	8383231	3	3	168	1	0	0	0	0	1	0	0	0	160	854	30	2	481	2	ACOX3	4	8383231	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2740951	8383231	182771045	79	60226										
CLRN2	645104	broad.mit.edu	37	chr4	17528651	17528651	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agtcaaattcccctccctgaGattaagaccaaaatcgaaga	6	11	1	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:17528651G>C	uc003gpg.1	+	3	747	c.645G>C	c.(643-645)GAG>GAC	p.E215D		NM_001079827	NP_001073296	A0PK11	CLRN2_HUMAN	clarin 2	215						integral to membrane					0						CCCTCCCTGAGATTAAGACCA	0.502													30	63	---	---	---	---	PASS	C	17528651	C	C	17528651	3	2	168	1	0	0	0	0	1	0	0	0	3558	933	33	2	655	2	CLRN2	4	17528651	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	9145420	17528651	173625625	80	60227										
MED28	80306	broad.mit.edu	37	chr4	17616413	17616413	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cttccagcagtactttggtgGacgagttggagtcatctttc	11	9	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:17616413G>C	uc003gpi.1	+	1	148	c.136G>C	c.(136-138)GAC>CAC	p.D46H	MED28_uc003gpj.2_RNA	NM_025205	NP_079481	Q9H204	MED28_HUMAN	mediator complex subunit 28	46					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|membrane|nucleus	actin binding				0						TACTTTGGTGGACGAGTTGGA	0.582													27	60	---	---	---	---	PASS	C	17616413	C	C	17616413	3	2	168	1	0	0	0	0	1	0	0	0	9446	1174	41	2	138	2	MED28	4	17616413	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	87762	17616413	173537863	81	60228										
STIM2	57620	broad.mit.edu	37	chr4	26921165	26921165	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tccaccatgctttacagaagAagacagatttagtctggaag	9	8	1	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:26921165A>G	uc003gsh.3	+	2	668	c.452A>G	c.(451-453)GAA>GGA	p.E151G	STIM2_uc003gsg.3_Missense_Mutation_p.E151G|STIM2_uc010iex.2_Missense_Mutation_p.E151G	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2	64	Extracellular (Potential).				activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)				TTTACAGAAGAAGACAGATTT	0.393													24	53	---	---	---	---	PASS	G	26921165	G	G	26921165	3	3	168	1	0	0	0	0	1	0	0	0	15283	246	9	5	197	5	STIM2	4	26921165	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	9304752	26921165	164233111	82	60229										
ATP8A1	10396	broad.mit.edu	37	chr4	42618096	42618096	+	Splice_Site	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttatcagctttatgtcgtttCtaaagtttaaaagcaaaaag	6	5	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:42618096C>T	uc003gwr.2	-	5	596	c.364_splice	c.e5-1	p.K122_splice	ATP8A1_uc003gws.2_Splice_Site_p.K122_splice|ATP8A1_uc011byz.1_Splice_Site_p.K122_splice	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),						ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	TATGTCGTTTCTAAAGTTTAA	0.303													6	27	---	---	---	---	PASS	T	42618096	T	T	42618096	5	4	168	1	0	0	0	0	0	0	1	0	1192	927	32	2	3341	2	ATP8A1	4	42618096	Splice_Site	SNP	C	TCGA-66-2791-01A-01D-0983-08	15696931	42618096	148536180	83	60230										
KDR	3791	broad.mit.edu	37	chr4	55981484	55981484	+	Silent	SNP	G	T	T													0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttgagatttgaaatggacccGagacatggaatcaccacagt							TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:55981484G>T	uc003has.2	-	4	755	c.453C>A	c.(451-453)CTC>CTA	p.L151L	KDR_uc003hat.1_Silent_p.L151L|KDR_uc011bzx.1_Silent_p.L151L	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	151	Ig-like C2-type 2.|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)	AAATGGACCCGAGACATGGAA	0.368			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			11	20	---	---	---	---	PASS	T	55981484	T	T	55981484	2	4	168	1	0	0	0	0	0	0	0	1	8139	1045	37	2		2	KDR	4	55981484	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	13363388	55981484	135172792	84	60231	1058	2								
KDR	3791	broad.mit.edu	37	chr4	55981485	55981485	+	Missense_Mutation	SNP	A	C	C													0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgagatttgaaatggacccgAgacatggaatcaccacagtt							TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:55981485A>C	uc003has.2	-	4	754	c.452T>G	c.(451-453)CTC>CGC	p.L151R	KDR_uc003hat.1_Missense_Mutation_p.L151R|KDR_uc011bzx.1_Missense_Mutation_p.L151R	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	151	Ig-like C2-type 2.|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)	AATGGACCCGAGACATGGAAT	0.368			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			11	20	---	---	---	---	PASS	C	55981485	C	C	55981485	3	2	168	1	0	0	0	0	1	0	0	0	8139	304	11	5	3726	5	KDR	4	55981485	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	1	55981485	135172791	85	60232	1058	2								
ADAMTS3	9508	broad.mit.edu	37	chr4	73154571	73154571	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctcacctccgttccttcaccGcaggtcactgaacactgcag	7	17	3	1	rs112565530		TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:73154571G>A	uc003hgk.1	-	21	2983	c.2946C>T	c.(2944-2946)TGC>TGT	p.C982C		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	982	TSP type-1 4.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TTCCTTCACCGCAGGTCACTG	0.448													13	17	---	---	---	---	PASS	A	73154571	A	A	73154571	2	1	168	1	0	0	0	0	0	0	0	1	267	1079	38	1		1	ADAMTS3	4	73154571	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	17173086	73154571	117999705	86	60233										
LARP7	51574	broad.mit.edu	37	chr4	113568634	113568634	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgcagaatccctagctccccGatcaaaagtaaagaaaatta	6	10	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:113568634G>T	uc003iay.2	+	7	1204	c.926G>T	c.(925-927)CGA>CTA	p.R309L	LARP7_uc003iaz.2_Missense_Mutation_p.R316L|LARP7_uc003iba.2_Missense_Mutation_p.R230L|LARP7_uc003ibb.2_Missense_Mutation_p.R309L	NM_016648	NP_057732	Q4G0J3	LARP7_HUMAN	La ribonucleoprotein domain family, member 7	309	Lys-rich.				RNA processing	nucleoplasm|ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(3)	3		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		CTAGCTCCCCGATCAAAAGTA	0.378													36	112	---	---	---	---	PASS	T	113568634	T	T	113568634	3	4	168	1	0	0	0	0	1	0	0	0	8633	1058	37	2	948	2	LARP7	4	113568634	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	40414063	113568634	77585642	87	60234										
ACCN5	51802	broad.mit.edu	37	chr4	156757901	156757901	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atttcaaagctttttgacttGgaaaagaggaataagaaata	8	3	1	3	rs139903903		TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:156757901G>T	uc003ipe.1	-	8	1222	c.1175C>A	c.(1174-1176)CCA>CAA	p.P392Q		NM_017419	NP_059115	Q9NY37	ACCN5_HUMAN	amiloride-sensitive cation channel 5,	392	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0464)|Kidney(143;0.058)|COAD - Colon adenocarcinoma(41;0.141)		TTTTTGACTTGGAAAAGAGGA	0.338													4	43	---	---	---	---	PASS	T	156757901	T	T	156757901	3	4	168	1	0	0	0	0	1	0	0	0	132	1348	47	3	354	3	ACCN5	4	156757901	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	43189267	156757901	34396375	88	60235										
ETFDH	2110	broad.mit.edu	37	chr4	159620142	159620142	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aagtgtaaatttttaaggttGgtctagactatcagaatcca	8	5	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:159620142G>A	uc003iqb.2	+	9	1308	c.976G>A	c.(976-978)GGT>AGT	p.G326S	ETFDH_uc011cjg.1_Missense_Mutation_p.G279S|ETFDH_uc010iqr.2_Intron|ETFDH_uc011cjh.1_Missense_Mutation_p.G265S|ETFDH_uc010iqs.2_Missense_Mutation_p.G248S	NM_004453	NP_004444	Q16134	ETFD_HUMAN	electron-transferring-flavoprotein dehydrogenase	326					fatty acid beta-oxidation using acyl-CoA dehydrogenase|respiratory electron transport chain|response to oxidative stress|transport	integral to mitochondrial inner membrane|mitochondrial matrix	4 iron, 4 sulfur cluster binding|electron carrier activity|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity, oxidizing metal ions with flavin as acceptor|ubiquinone binding			large_intestine(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0172)		TTTTAAGGTTGGTCTAGACTA	0.328													13	31	---	---	---	---	PASS	A	159620142	A	A	159620142	3	1	168	1	0	0	0	0	1	0	0	0	5271	1348	47	3	1010	3	ETFDH	4	159620142	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	2862241	159620142	31534134	89	60236										
ADAM29	11086	broad.mit.edu	37	chr4	175897673	175897673	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tttcaattgcagtggctcatCatctaggtcataatttgggc	9	8	5	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:175897673C>A	uc003iuc.2	+	5	1667	c.997C>A	c.(997-999)CAT>AAT	p.H333N	ADAM29_uc003iud.2_Missense_Mutation_p.H333N|ADAM29_uc010irr.2_Missense_Mutation_p.H333N|ADAM29_uc011cki.1_Missense_Mutation_p.H333N	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	333	Peptidase M12B.|Extracellular (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		AGTGGCTCATCATCTAGGTCA	0.398													30	70	---	---	---	---	PASS	A	175897673	A	A	175897673	3	1	168	1	0	0	0	0	1	0	0	0	247	826	29	2	999	2	ADAM29	4	175897673	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	16277531	175897673	15256603	90	60237										
ADAM29	11086	broad.mit.edu	37	chr4	175898265	175898265	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	attgaacaccttaggtgaccGtgttggtcactgtggtatca	11	8	2	2	rs148692882		TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:175898265G>C	uc003iuc.2	+	5	2259	c.1589G>C	c.(1588-1590)CGT>CCT	p.R530P	ADAM29_uc003iud.2_Missense_Mutation_p.R530P|ADAM29_uc010irr.2_Missense_Mutation_p.R530P|ADAM29_uc011cki.1_Missense_Mutation_p.R530P	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	530	Cys-rich.|Extracellular (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		TTAGGTGACCGTGTTGGTCAC	0.418													25	28	---	---	---	---	PASS	C	175898265	C	C	175898265	3	2	168	1	0	0	0	0	1	0	0	0	247	1145	40	4	1591	4	ADAM29	4	175898265	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	592	175898265	15256011	91	60238										
FAT1	2195	broad.mit.edu	37	chr4	187540391	187540391	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gggcgtgccggtgcaggtttGagagggtgataatccctgtt	17	7	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:187540391G>C	uc003izf.2	-	10	7537	c.7349C>G	c.(7348-7350)TCA>TGA	p.S2450*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2450	Extracellular (Potential).|Cadherin 22.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GTGCAGGTTTGAGAGGGTGAT	0.433										HNSCC(5;0.00058)			34	112	---	---	---	---	PASS	C	187540391	C	C	187540391	4	2	168	1	0	0	0	0	0	1	0	0	5689	1294	45	2	6489	2	FAT1	4	187540391	Nonsense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	11642126	187540391	3613885	92	60239										
FAT1	2195	broad.mit.edu	37	chr4	187540705	187540705	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgctcgtaatccagggttctGagtagtgagatgaggccagt	14	7	1	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr4:187540705G>A	uc003izf.2	-	10	7223	c.7035C>T	c.(7033-7035)CTC>CTT	p.L2345L		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2345	Extracellular (Potential).|Cadherin 21.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CCAGGGTTCTGAGTAGTGAGA	0.493										HNSCC(5;0.00058)			31	81	---	---	---	---	PASS	A	187540705	A	A	187540705	2	1	168	1	0	0	0	0	0	0	0	1	5689	1277	45	2		2	FAT1	4	187540705	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	314	187540705	3613571	93	60240										
SLC12A7	10723	broad.mit.edu	37	chr5	1085507	1085507	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gagcgtgcacgtgccgtacaCacgcatgttgtgcagcatgg	14	11	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:1085507C>A	uc003jbu.2	-	7	823	c.757G>T	c.(757-759)GTG>TTG	p.V253L		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	253	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	GTGCCGTACACACGCATGTTG	0.647													3	5	---	---	---	---	PASS	A	1085507	A	A	1085507	3	1	168	1	0	0	0	0	1	0	0	0	14388	478	17	3	2566	3	SLC12A7	5	1085507	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08		1085507	179829753	94	60241										
TRIO	7204	broad.mit.edu	37	chr5	14297283	14297283	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggcagatcgcgagtcagctgGagcaggagtggaaggcgttt	18	7	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:14297283G>C	uc003jff.2	+	7	1285	c.1279G>C	c.(1279-1281)GAG>CAG	p.E427Q	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.E378Q|TRIO_uc003jfh.1_Missense_Mutation_p.E76Q	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	427					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GAGTCAGCTGGAGCAGGAGTG	0.562													11	22	---	---	---	---	PASS	C	14297283	C	C	14297283	3	2	168	1	0	0	0	0	1	0	0	0	16549	1175	41	2	1305	2	TRIO	5	14297283	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	13211776	14297283	166617977	95	60242										
TRIO	7204	broad.mit.edu	37	chr5	14378141	14378141	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atatcttgaatgaactcttcCaacgggagaacagggtattg	10	7	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:14378141C>A	uc003jff.2	+	20	3358	c.3352C>A	c.(3352-3354)CAA>AAA	p.Q1118K	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.Q1069K|TRIO_uc003jfh.1_Missense_Mutation_p.Q767K	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1118	Spectrin 4.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					TGAACTCTTCCAACGGGAGAA	0.423													4	27	---	---	---	---	PASS	A	14378141	A	A	14378141	3	1	168	1	0	0	0	0	1	0	0	0	16549	595	21	3	3430	3	TRIO	5	14378141	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	80858	14378141	166537119	96	60243										
CDH10	1008	broad.mit.edu	37	chr5	24488226	24488226	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agatcagaggctctttttttCgctgtcttttcagagctgca	9	9	4	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:24488226C>A	uc003jgr.1	-	12	2245	c.1913G>T	c.(1912-1914)CGA>CTA	p.R638L	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	638	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.R638Q(1)		ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CTCTTTTTTTCGCTGTCTTTT	0.398										HNSCC(23;0.051)			23	39	---	---	---	---	PASS	A	24488226	A	A	24488226	3	1	168	1	0	0	0	0	1	0	0	0	3096	884	31	2	457	2	CDH10	5	24488226	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	10110085	24488226	156427034	97	60244										
RNASEN	29102	broad.mit.edu	37	chr5	31429647	31429647	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	caggcttccctccaagtaaaCagctcctagatgaaaaacag	7	12	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:31429647C>T	uc003jhg.2	-	26	3510	c.3151G>A	c.(3151-3153)GTT>ATT	p.V1051I	RNASEN_uc003jhh.2_Missense_Mutation_p.V1014I|RNASEN_uc003jhi.2_Missense_Mutation_p.V1014I	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	1051	Necessary for interaction with DGCR8 and pri-miRNA processing activity.|RNase III 1.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						TCCAAGTAAACAGCTCCTAGA	0.368													18	44	---	---	---	---	PASS	T	31429647	T	T	31429647	3	4	168	1	0	0	0	0	1	0	0	0	13417	478	17	3	1013	3	RNASEN	5	31429647	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	6941421	31429647	149485613	98	60245										
RANBP3L	202151	broad.mit.edu	37	chr5	36257555	36257555	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tacaaatgaaagaattcttaCttgaacttaaaaagttgaca	5	5	1	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:36257555C>T	uc003jkh.2	-	9	1265	c.772_splice	c.e9+1	p.R258_splice	RANBP3L_uc011cow.1_Splice_Site_p.R283_splice	NM_145000	NP_659437	Q86VV4	RNB3L_HUMAN	RAN binding protein 3-like isoform 2						intracellular transport					ovary(1)	1	all_lung(31;4.52e-05)		Epithelial(62;0.0543)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.149)|Colorectal(62;0.202)			AGAATTCTTACTTGAACTTAA	0.254													6	23	---	---	---	---	PASS	T	36257555	T	T	36257555	5	4	168	1	0	0	0	0	0	0	1	0	13030	579	20	3	648	3	RANBP3L	5	36257555	Splice_Site	SNP	C	TCGA-66-2791-01A-01D-0983-08	4827908	36257555	144657705	99	60246										
C6	729	broad.mit.edu	37	chr5	41181632	41181632	+	Silent	SNP	T	A	A													0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gttaaatccttgtagaaatcTgttttcaagtcatcttctgc							TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:41181632T>A	uc003jmk.2	-	7	966	c.756A>T	c.(754-756)ACA>ACT	p.T252T	C6_uc003jml.1_Silent_p.T252T	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	252	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TGTAGAAATCTGTTTTCAAGT	0.348													15	37	---	---	---	---	PASS	A	41181632	A	A	41181632	2	1	168	1	0	0	0	0	0	0	0	1	2315	1567	55	5		5	C6	5	41181632	Silent	SNP	T	TCGA-66-2791-01A-01D-0983-08	4924077	41181632	139733628	100	60247	1059	2								
C6	729	broad.mit.edu	37	chr5	41181633	41181633	+	Missense_Mutation	SNP	G	C	C													0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttaaatccttgtagaaatctGttttcaagtcatcttctgca							TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:41181633G>C	uc003jmk.2	-	7	965	c.755C>G	c.(754-756)ACA>AGA	p.T252R	C6_uc003jml.1_Missense_Mutation_p.T252R	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	252	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				GTAGAAATCTGTTTTCAAGTC	0.348													15	38	---	---	---	---	PASS	C	41181633	C	C	41181633	3	2	168	1	0	0	0	0	1	0	0	0	2315	1377	48	4	2097	4	C6	5	41181633	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	1	41181633	139733627	101	60248	1059	2								
HCN1	348980	broad.mit.edu	37	chr5	45262388	45262388	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gttgtgaagcgcctgcgtgcTcttgtgcacttcatttttcg	11	10	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:45262388T>C	uc003jok.2	-	8	2333	c.2308A>G	c.(2308-2310)AGC>GGC	p.S770G		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	770	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GCCTGCGTGCTCTTGTGCACT	0.488													9	33	---	---	---	---	PASS	C	45262388	C	C	45262388	3	2	168	1	0	0	0	0	1	0	0	0	6996	1551	54	5	368	5	HCN1	5	45262388	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	4080755	45262388	135652872	102	60249										
ALDH7A1	501	broad.mit.edu	37	chr5	125896775	125896775	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aaacaaagaggcagccttacCaataatggcattgtttcctc	7	10	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:125896775C>A	uc003ktx.2	-	10	1105	c.913G>T	c.(913-915)GCC>TCC	p.A305S	ALDH7A1_uc003ktv.2_5'UTR|ALDH7A1_uc003kty.2_RNA|ALDH7A1_uc011cxa.1_Missense_Mutation_p.A332S	NM_001182	NP_001173	P49419	AL7A1_HUMAN	aldehyde dehydrogenase 7 family, member A1	305					cellular aldehyde metabolic process|lysine catabolic process|sensory perception of sound	cytosol|mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity|betaine-aldehyde dehydrogenase activity|L-aminoadipate-semialdehyde dehydrogenase activity			kidney(2)|ovary(1)	3		all_cancers(142;0.24)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0417)|OV - Ovarian serous cystadenocarcinoma(64;0.068)|all cancers(49;0.109)	NADH(DB00157)|Pyridoxine(DB00165)	GCAGCCTTACCAATAATGGCA	0.358													5	140	---	---	---	---	PASS	A	125896775	A	A	125896775	3	1	168	1	0	0	0	0	1	0	0	0	504	608	21	3	742	3	ALDH7A1	5	125896775	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	80634387	125896775	55018485	103	60250										
ADAMTS19	171019	broad.mit.edu	37	chr5	129001218	129001218	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tagaagtgctggtgatacctGctggagcaagaagaatcaaa	12	6	1	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:129001218G>T	uc003kvb.1	+	16	2434	c.2434G>T	c.(2434-2436)GCT>TCT	p.A812S	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	812	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		GGTGATACCTGCTGGAGCAAG	0.398													5	24	---	---	---	---	PASS	T	129001218	T	T	129001218	3	4	168	1	0	0	0	0	1	0	0	0	264	1319	46	3	2496	3	ADAMTS19	5	129001218	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	3104443	129001218	51914042	104	60251										
FNIP1	96459	broad.mit.edu	37	chr5	131008511	131008511	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgaagttcagagcatcttatAaaataagtaagaaaataaag	7	3	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:131008511A>G	uc003kvs.1	-	14	1768	c.1626T>C	c.(1624-1626)TTT>TTC	p.F542F	RAPGEF6_uc003kvp.1_Intron|FNIP1_uc003kvt.1_Silent_p.F514F|FNIP1_uc010jdm.1_Silent_p.F497F	NM_133372	NP_588613	Q8TF40	FNIP1_HUMAN	folliculin interacting protein 1 isoform 1	542					regulation of protein phosphorylation	cytoplasm	protein binding			pancreas(1)|skin(1)	2		all_cancers(142;0.00347)|Lung NSC(810;0.106)|all_lung(232;0.123)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0665)		AGCATCTTATAAAATAAGTAA	0.413													15	25	---	---	---	---	PASS	G	131008511	G	G	131008511	2	3	168	1	0	0	0	0	0	0	0	1	5975	359	13	5		5	FNIP1	5	131008511	Silent	SNP	A	TCGA-66-2791-01A-01D-0983-08	2007293	131008511	49906749	105	60252										
WNT8A	7478	broad.mit.edu	37	chr5	137420286	137420286	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aacgctggaactgccctgaaAatgctcttcagctctccacc	7	15	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:137420286A>T	uc003lcd.1	+	3	207	c.202A>T	c.(202-204)AAT>TAT	p.N68Y	BRD8_uc003lcc.1_Intron|WNT8A_uc011cyj.1_Missense_Mutation_p.N86Y|WNT8A_uc011cyk.1_Missense_Mutation_p.N86Y	NM_058244	NP_490645	Q9H1J5	WNT8A_HUMAN	wingless-type MMTV integration site family,	68					brain segmentation|canonical Wnt receptor signaling pathway involved in neural crest cell differentiation|cell migration involved in gastrulation|dorsal/ventral pattern formation|ectoderm development|endoderm development|eye development|hindbrain development|mesodermal cell fate commitment|negative regulation of Wnt receptor signaling pathway|neural crest cell fate commitment|neural plate pattern specification|notochord development|palate development|polarity specification of anterior/posterior axis|polarity specification of proximal/distal axis|positive regulation of fibroblast growth factor receptor signaling pathway|regulation of transcription involved in anterior/posterior axis specification|response to retinoic acid|somitogenesis|spinal cord anterior/posterior patterning|tail morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			ovary(1)|lung(1)|breast(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CTGCCCTGAAAATGCTCTTCA	0.532													14	31	---	---	---	---	PASS	T	137420286	T	T	137420286	3	4	168	1	0	0	0	0	1	0	0	0	17393	14	1	5	212	5	WNT8A	5	137420286	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	6411775	137420286	43494974	106	60253										
PCDHA2	56146	broad.mit.edu	37	chr5	140175262	140175262	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggtattagatgtaaatgacaAtgaaccaacttttgcccaat	7	7	0	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:140175262A>G	uc003lhd.2	+	1	819	c.713A>G	c.(712-714)AAT>AGT	p.N238S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.N238S|PCDHA2_uc011czy.1_Missense_Mutation_p.N238S	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	238	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTAAATGACAATGAACCAACT	0.398													10	51	---	---	---	---	PASS	G	140175262	G	G	140175262	3	3	168	1	0	0	0	0	1	0	0	0	11524	101	4	5	715	5	PCDHA2	5	140175262	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	2754976	140175262	40739998	107	60254										
PCDHB4	56131	broad.mit.edu	37	chr5	140502911	140502911	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cgtgcaggtctccgacgtcaAtgacaacgcccccgccttca	9	17	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:140502911A>G	uc003lip.1	+	1	1331	c.1331A>G	c.(1330-1332)AAT>AGT	p.N444S		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	444	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCGACGTCAATGACAACGCC	0.597													25	69	---	---	---	---	PASS	G	140502911	G	G	140502911	3	3	168	1	0	0	0	0	1	0	0	0	11544	101	4	5	1333	5	PCDHB4	5	140502911	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	327649	140502911	40412349	108	60255										
PCDHB8	56128	broad.mit.edu	37	chr5	140558610	140558610	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tggaggcttttctggaaaatGcaccgttctgattcaagtga	11	7	3	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:140558610G>A	uc011dai.1	+	1	1181	c.995G>A	c.(994-996)TGC>TAC	p.C332Y	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	332	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCTGGAAAATGCACCGTTCTG	0.433													36	219	---	---	---	---	PASS	A	140558610	A	A	140558610	3	1	168	1	0	0	0	0	1	0	0	0	11548	1319	46	3	997	3	PCDHB8	5	140558610	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	55699	140558610	40356650	109	60256										
PCDHGB2	56103	broad.mit.edu	37	chr5	140741324	140741324	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccgcgaccagggctcgcccgCgctcagcgccaacgtgagcc	13	19	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:140741324C>T	uc003ljs.1	+	1	1622	c.1622C>T	c.(1621-1623)GCG>GTG	p.A541V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Missense_Mutation_p.A541V|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	541	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCTCGCCCGCGCTCAGCGCC	0.701													9	17	---	---	---	---	PASS	T	140741324	T	T	140741324	3	4	168	1	0	0	0	0	1	0	0	0	11563	768	27	1	1624	1	PCDHGB2	5	140741324	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	182714	140741324	40173936	110	60257										
KCTD16	57528	broad.mit.edu	37	chr5	143587013	143587013	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgttgtcagagtgtggattcCacatggtggcctgtaactca	12	8	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:143587013C>A	uc003lnm.1	+	3	1365	c.736C>A	c.(736-738)CAC>AAC	p.H246N	KCTD16_uc003lnn.1_Missense_Mutation_p.H246N	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	246						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			GTGTGGATTCCACATGGTGGC	0.438													28	45	---	---	---	---	PASS	A	143587013	A	A	143587013	3	1	168	1	0	0	0	0	1	0	0	0	8103	594	21	3	738	3	KCTD16	5	143587013	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2845689	143587013	37328247	111	60258										
ODZ2	57451	broad.mit.edu	37	chr5	167673804	167673804	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gccaacgtcagtatatatttGagtatgactcctctgaccgc	8	11	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:167673804G>C	uc010jjd.2	+	27	5833	c.5833G>C	c.(5833-5835)GAG>CAG	p.E1945Q	ODZ2_uc003lzr.3_Missense_Mutation_p.E1715Q|ODZ2_uc003lzt.3_Missense_Mutation_p.E1318Q|ODZ2_uc010jje.2_Missense_Mutation_p.E1209Q	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		GTATATATTTGAGTATGACTC	0.512													8	259	---	---	---	---	PASS	C	167673804	C	C	167673804	3	2	168	1	0	0	0	0	1	0	0	0	10835	1291	45	2	5939	2	ODZ2	5	167673804	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	24086791	167673804	13241456	112	60259										
ODZ2	57451	broad.mit.edu	37	chr5	167674284	167674284	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	taagtgagactcccctccccGttgacctctaccgctatgat	7	15	1	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:167674284G>T	uc010jjd.2	+	27	6313	c.6313G>T	c.(6313-6315)GTT>TTT	p.V2105F	ODZ2_uc003lzr.3_Missense_Mutation_p.V1875F|ODZ2_uc003lzt.3_Missense_Mutation_p.V1478F|ODZ2_uc010jje.2_Missense_Mutation_p.V1369F	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		TCCCCTCCCCGTTGACCTCTA	0.493													36	114	---	---	---	---	PASS	T	167674284	T	T	167674284	3	4	168	1	0	0	0	0	1	0	0	0	10835	1145	40	1	6419	1	ODZ2	5	167674284	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	480	167674284	13240976	113	60260										
RANBP17	64901	broad.mit.edu	37	chr5	170610401	170610401	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggtgtcgaacaaccttctacAcagcgctcactcgccttctg	8	15	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:170610401A>G	uc003mba.2	+	18	2021	c.2005A>G	c.(2005-2007)ACA>GCA	p.T669A	RANBP17_uc003mbb.2_5'UTR|RANBP17_uc003mbd.2_Missense_Mutation_p.T32A|RANBP17_uc010jjs.2_RNA|RANBP17_uc003mbc.2_Missense_Mutation_p.T32A	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	669					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)			AACCTTCTACACAGCGCTCAC	0.408			T	TRD@	ALL								12	58	---	---	---	---	PASS	G	170610401	G	G	170610401	3	3	168	1	0	0	0	0	1	0	0	0	13027	159	6	5	2075	5	RANBP17	5	170610401	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	2936117	170610401	10304859	114	60261										
BTNL9	153579	broad.mit.edu	37	chr5	180486679	180486679	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tcccacatcttcaccttccaCgacaccttctcgggcgcgct	6	19	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr5:180486679C>T	uc003mmt.2	+	11	1656	c.1425C>T	c.(1423-1425)CAC>CAT	p.H475H		NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	475	Cytoplasmic (Potential).|B30.2/SPRY.					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCACCTTCCACGACACCTTCT	0.672													6	9	---	---	---	---	PASS	T	180486679	T	T	180486679	2	4	168	1	0	0	0	0	0	0	0	1	1568	535	19	1		1	BTNL9	5	180486679	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	9876278	180486679	428581	115	60262										
EXOC2	55770	broad.mit.edu	37	chr6	633008	633008	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctgccacctgacttagtggtGacaataatgtctcctttgtc	8	11	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:633008G>T	uc003mtd.2	-	3	362	c.228C>A	c.(226-228)GTC>GTA	p.V76V	EXOC2_uc003mte.2_Silent_p.V76V|EXOC2_uc011dho.1_Intron	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	76	IPT/TIG.				exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		ACTTAGTGGTGACAATAATGT	0.408													9	34	---	---	---	---	PASS	T	633008	T	T	633008	2	4	168	1	0	0	0	0	0	0	0	1	5302	1277	45	2		2	EXOC2	6	633008	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08		633008	170482059	116	60263										
ALDH5A1	7915	broad.mit.edu	37	chr6	24523060	24523060	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gatgcctttgtaaaagcattCgccgaggccatgaagaagaa	11	8	0	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:24523060C>T	uc003neg.2	+	7	1108	c.1080C>T	c.(1078-1080)TTC>TTT	p.F360F	ALDH5A1_uc003nef.2_Silent_p.F373F	NM_001080	NP_001071	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5A1 isoform 2 precursor	360					acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)	TAAAAGCATTCGCCGAGGCCA	0.448													9	95	---	---	---	---	PASS	T	24523060	T	T	24523060	2	4	168	1	0	0	0	0	0	0	0	1	502	883	31	2		2	ALDH5A1	6	24523060	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	23890052	24523060	146592007	117	60264										
HIST1H2BD	3017	broad.mit.edu	37	chr6	26158772	26158772	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtcaccaagtacaccagttcCaagtaactttgccaagtaag	7	11	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:26158772C>A	uc003ngr.2	+	1	424	c.375C>A	c.(373-375)TCC>TCA	p.S125S	HIST1H2BD_uc003ngs.2_Silent_p.S125S	NM_021063	NP_066407	P58876	H2B1D_HUMAN	histone cluster 1, H2bd	125					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|pancreas(1)	2						ACACCAGTTCCAAGTAACTTT	0.512													5	70	---	---	---	---	PASS	A	26158772	A	A	26158772	2	1	168	1	0	0	0	0	0	0	0	1	7143	581	21	3		3	HIST1H2BD	6	26158772	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	1635712	26158772	144956295	118	60265										
ZNF391	346157	broad.mit.edu	37	chr6	27368656	27368656	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aaaccttatgaatgcaatgaAtgtggaaaagcttttagccg	9	6	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:27368656A>G	uc003njf.1	+	3	1025	c.507A>G	c.(505-507)GAA>GAG	p.E169E		NM_001076781	NP_001070249	Q9UJN7	ZN391_HUMAN	zinc finger protein 391	169	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(2)|skin(1)	3						AATGCAATGAATGTGGAAAAG	0.383													18	81	---	---	---	---	PASS	G	27368656	G	G	27368656	2	3	168	1	0	0	0	0	0	0	0	1	17876	98	4	5		5	ZNF391	6	27368656	Silent	SNP	A	TCGA-66-2791-01A-01D-0983-08	1209884	27368656	143746411	119	60266										
OR2B2	81697	broad.mit.edu	37	chr6	27879341	27879341	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtacatggagatagctgtacCataaaaaagtgacaccacaa	8	8	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:27879341C>A	uc011dkw.1	-	1	757	c.757G>T	c.(757-759)GGT>TGT	p.G253C		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATAGCTGTACCATAAAAAAGT	0.463													5	73	---	---	---	---	PASS	A	27879341	A	A	27879341	3	1	168	1	0	0	0	0	1	0	0	0	10989	594	21	3	320	3	OR2B2	6	27879341	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	510685	27879341	143235726	120	60267										
GPX6	257202	broad.mit.edu	37	chr6	28472214	28472214	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agcggatatcatggaccttcAtgggctcccagaagagttgg	13	9	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:28472214A>G	uc011dlj.1	-	6	571	c.521T>C	c.(520-522)ATG>ACG	p.M174T	GPX6_uc010jrg.1_RNA	NM_182701	NP_874360	P59796	GPX6_HUMAN	glutathione peroxidase 6 precursor	174					response to oxidative stress	extracellular region	glutathione peroxidase activity			ovary(3)|pancreas(1)|skin(1)	5					Glutathione(DB00143)	ATGGACCTTCATGGGCTCCCA	0.498													6	34	---	---	---	---	PASS	G	28472214	G	G	28472214	3	3	168	1	0	0	0	0	1	0	0	0	6744	217	8	5	148	5	GPX6	6	28472214	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	592873	28472214	142642853	121	60268										
OR5V1	81696	broad.mit.edu	37	chr6	29323727	29323727	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttctttgagaggaggtgcacCatcatctgggggacattgct	13	8	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:29323727C>T	uc011dlo.1	-	1	328	c.246G>A	c.(244-246)ATG>ATA	p.M82I		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	82	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4						GGAGGTGCACCATCATCTGGG	0.433													16	97	---	---	---	---	PASS	T	29323727	T	T	29323727	3	4	168	1	0	0	0	0	1	0	0	0	11184	594	21	3	722	3	OR5V1	6	29323727	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	851513	29323727	141791340	122	60269										
TRIM39	56658	broad.mit.edu	37	chr6	30309968	30309968	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aactttggcccctcttctacCcaggcatccgggctggacgg	11	15	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:30309968C>T	uc010jrz.2	+	9	1801	c.1489C>T	c.(1489-1491)CCA>TCA	p.P497S	TRIM39_uc003npz.2_Missense_Mutation_p.P467S|TRIM39_uc003nqb.2_Missense_Mutation_p.P467S|TRIM39_uc003nqc.2_Missense_Mutation_p.P467S|TRIM39_uc010jsa.1_Intron|RPP21_uc003nqd.1_5'Flank|RPP21_uc003nqe.1_5'Flank|RPP21_uc003nqf.1_5'Flank	NM_021253	NP_067076	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 1	497	B30.2/SPRY.				apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						CCTCTTCTACCCAGGCATCCG	0.527													14	40	---	---	---	---	PASS	T	30309968	T	T	30309968	3	4	168	1	0	0	0	0	1	0	0	0	16510	623	22	3	1515	3	TRIM39	6	30309968	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	986241	30309968	140805099	123	60270										
C6orf136	221545	broad.mit.edu	37	chr6	30619146	30619146	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tacagctgacccgccaccctGagaactggaccctgcaagcc	9	17	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:30619146G>A	uc003nqw.3	+	4	860	c.667G>A	c.(667-669)GAG>AAG	p.E223K	C6orf136_uc003nqx.3_Missense_Mutation_p.E404K|C6orf136_uc011dmn.1_Missense_Mutation_p.E89K	NM_001109938	NP_001103408	Q5SQH8	CF136_HUMAN	hypothetical protein LOC221545 isoform 1	223											0						CCGCCACCCTGAGAACTGGAC	0.552													60	170	---	---	---	---	PASS	A	30619146	A	A	30619146	3	1	168	1	0	0	0	0	1	0	0	0	2331	1291	45	2	1224	2	C6orf136	6	30619146	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	309178	30619146	140495921	124	60271										
CCHCR1	54535	broad.mit.edu	37	chr6	31112669	31112669	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tccctctcgacaccttgcccGtagagttcctgctgctgggt	10	15	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:31112669G>T	uc003nsr.3	-	14	1914	c.1791C>A	c.(1789-1791)TAC>TAA	p.Y597*	CCHCR1_uc011dne.1_Nonsense_Mutation_p.Y597*|CCHCR1_uc003nsq.3_Nonsense_Mutation_p.Y650*|CCHCR1_uc003nsp.3_Nonsense_Mutation_p.Y686*|CCHCR1_uc010jsk.1_Nonsense_Mutation_p.Y597*	NM_019052	NP_061925	Q8TD31	CCHCR_HUMAN	coiled-coil alpha-helical rod protein 1 isoform	597	Potential.				cell differentiation|multicellular organismal development	cytoplasm|nucleus	protein binding			skin(1)	1						CACCTTGCCCGTAGAGTTCCT	0.627													4	98	---	---	---	---	PASS	T	31112669	T	T	31112669	4	4	168	1	0	0	0	0	0	1	0	0	2877	1140	40	1	577	1	CCHCR1	6	31112669	Nonsense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	493523	31112669	140002398	125	60272										
SKIV2L	6499	broad.mit.edu	37	chr6	31936487	31936487	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgaagctgcgggagcgaatgCagatacagaaggagatggag	17	5	0	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:31936487C>T	uc003nyn.1	+	25	3483	c.3094C>T	c.(3094-3096)CAG>TAG	p.Q1032*	SKIV2L_uc011dou.1_Nonsense_Mutation_p.Q874*|SKIV2L_uc011dov.1_Nonsense_Mutation_p.Q839*|STK19_uc003nyt.2_5'Flank	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	1032						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						GGAGCGAATGCAGATACAGAA	0.597													7	57	---	---	---	---	PASS	T	31936487	T	T	31936487	4	4	168	1	0	0	0	0	0	1	0	0	14359	711	25	3	3192	3	SKIV2L	6	31936487	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	823818	31936487	139178580	126	60273										
TNXB	7148	broad.mit.edu	37	chr6	32032739	32032739	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cacccgcaccgccttgggctGcccgtccccattcttaaact	7	19	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:32032739G>T	uc003nzl.2	-	19	6902	c.6700C>A	c.(6700-6702)CAG>AAG	p.Q2234K		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2306	Fibronectin type-III 15.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GCCTTGGGCTGCCCGTCCCCA	0.607													6	27	---	---	---	---	PASS	T	32032739	T	T	32032739	3	4	168	1	0	0	0	0	1	0	0	0	16343	1328	46	3	8117	3	TNXB	6	32032739	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	96252	32032739	139082328	127	60274										
TNXB	7148	broad.mit.edu	37	chr6	32037522	32037522	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggagtcaaactggccctcagGgactgtccaggagaggccca	14	12	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:32037522G>A	uc003nzl.2	-	15	5597	c.5395C>T	c.(5395-5397)CCT>TCT	p.P1799S		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1881	Fibronectin type-III 11.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TGGCCCTCAGGGACTGTCCAG	0.637													10	21	---	---	---	---	PASS	A	32037522	A	A	32037522	3	1	168	1	0	0	0	0	1	0	0	0	16343	1232	43	3	9438	3	TNXB	6	32037522	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	4783	32037522	139077545	128	60275										
C6orf10	10665	broad.mit.edu	37	chr6	32260883	32260883	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tttgtcctttcctttgtcacCttttgtgtttttgtcacctt	5	10	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:32260883C>A	uc011dpy.1	-	12	1740	c.1567G>T	c.(1567-1569)GGT>TGT	p.G523C	C6orf10_uc011dpx.1_Intron	NM_006781	NP_006772	Q5SRN2	CF010_HUMAN	chromosome 6 open reading frame 10	523	Lys-rich.					integral to membrane				skin(1)	1						cctttgtcaccttttgtgttt	0.154													4	33	---	---	---	---	PASS	A	32260883	A	A	32260883	3	1	168	1	0	0	0	0	1	0	0	0	2317	681	24	3	128	3	C6orf10	6	32260883	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	223361	32260883	138854184	129	60276										
PACSIN1	29993	broad.mit.edu	37	chr6	34500248	34500248	+	Frame_Shift_Del	DEL	G	-	-													0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atgagcagggctggtgccgtGggcggctggacagcgggcag							TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:34500248delG	uc003ojo.2	+	10	1482	c.1276delG	c.(1276-1278)GGGfs	p.G426fs	PACSIN1_uc003ojp.2_Frame_Shift_Del_p.G426fs	NM_020804	NP_065855	Q9BY11	PACN1_HUMAN	protein kinase C and casein kinase substrate in	426	SH3.				endocytosis		protein kinase activity				0						CTGGTGCCGTGGGCGGCTGGA	0.652													10	5	---	---	---	---		-	34500248	-	-	34500248	7	5	168	1	0	1	0	1	0	0	0	0	11374	1348	47	0	1310	0	PACSIN1	6	34500248	Frame_Shift_Del	DEL	G	TCGA-66-2791-01A-01D-0983-08	2239365	34500248	136614819	130	60277										
KIAA0240	23506	broad.mit.edu	37	chr6	42797822	42797822	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tccagtaccagtcagtgtgtCtcatcgtcttccagtttctt	7	12	4	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:42797822C>A	uc003osn.1	+	6	1902	c.1751C>A	c.(1750-1752)TCT>TAT	p.S584Y	KIAA0240_uc003osm.1_Missense_Mutation_p.S584Y|KIAA0240_uc011duw.1_Missense_Mutation_p.S584Y|KIAA0240_uc003oso.1_Missense_Mutation_p.S584Y|KIAA0240_uc003osp.1_Missense_Mutation_p.S584Y	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	584										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			GTCAGTGTGTCTCATCGTCTT	0.488													16	49	---	---	---	---	PASS	A	42797822	A	A	42797822	3	1	168	1	0	0	0	0	1	0	0	0	8164	913	32	2	1765	2	KIAA0240	6	42797822	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	8297574	42797822	128317245	131	60278										
ABCC10	89845	broad.mit.edu	37	chr6	43400305	43400305	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggcagctcctgggggaccacGagaaccctgggctcaggagc	16	13	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:43400305G>T	uc003ouy.1	+	3	802	c.587G>T	c.(586-588)CGA>CTA	p.R196L	ABCC10_uc003ouz.1_Missense_Mutation_p.R153L	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	196						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			GGGGGACCACGAGAACCCTGG	0.627													5	62	---	---	---	---	PASS	T	43400305	T	T	43400305	3	4	168	1	0	0	0	0	1	0	0	0	50	1058	37	2	460	2	ABCC10	6	43400305	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	602483	43400305	127714762	132	60279										
GPR115	221393	broad.mit.edu	37	chr6	47682138	47682138	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctacaccagtgtggtgatgtCtttttccattctcatgtcct	7	11	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:47682138C>A	uc003oza.1	+	6	1415	c.1157C>A	c.(1156-1158)TCT>TAT	p.S386Y	GPR115_uc003oyz.1_Missense_Mutation_p.S443Y|GPR115_uc003ozb.1_Missense_Mutation_p.S384Y	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	386	GPS.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						GTGGTGATGTCTTTTTCCATT	0.463													13	45	---	---	---	---	PASS	A	47682138	A	A	47682138	3	1	168	1	0	0	0	0	1	0	0	0	6632	913	32	2	1175	2	GPR115	6	47682138	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	4281833	47682138	123432929	133	60280										
CRISP1	167	broad.mit.edu	37	chr6	49803029	49803029	+	Nonstop_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cagttgaaaataacaaagacCtattttatctcagtgtcaca	5	8	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:49803029C>A	uc003ozw.2	-	8	829	c.750G>T	c.(748-750)TAG>TAT	p.*250Y	CRISP1_uc003ozx.2_3'UTR	NM_001131	NP_001122	P54107	CRIS1_HUMAN	acidic epididymal glycoprotein-like 1 isoform 1	250					fusion of sperm to egg plasma membrane	extracellular space					0	Lung NSC(77;0.0358)					TAACAAAGACCTATTTTATCT	0.393													6	124	---	---	---	---	PASS	A	49803029	A	A	49803029	4	1	168	1	0	0	0	0	0	0	0	0	3879	692	24	3	3	3	CRISP1	6	49803029	Nonstop_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2120891	49803029	121312038	134	60281										
C6orf142	90523	broad.mit.edu	37	chr6	54095515	54095515	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttcttcttccccaccaggatGtaacagtccctcccaagcct	5	17	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:54095515G>T	uc003pcg.3	+	11	1230	c.1117G>T	c.(1117-1119)GTA>TTA	p.V373L	C6orf142_uc003pch.3_Intron|C6orf142_uc011dxa.1_Missense_Mutation_p.V908L	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523	373						nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					CCACCAGGATGTAACAGTCCC	0.458													53	181	---	---	---	---	PASS	T	54095515	T	T	54095515	3	4	168	1	0	0	0	0	1	0	0	0	2333	1377	48	3	1159	3	C6orf142	6	54095515	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	4292486	54095515	117019552	135	60282										
BMP5	653	broad.mit.edu	37	chr6	55739374	55739374	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atgcccttactgagtactccGactcttcaggattttcttca	6	12	4	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:55739374G>T	uc003pcq.2	-	1	1002	c.290C>A	c.(289-291)TCG>TAG	p.S97*	BMP5_uc011dxf.1_Nonsense_Mutation_p.S97*	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	97					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			TGAGTACTCCGACTCTTCAGG	0.493													30	73	---	---	---	---	PASS	T	55739374	T	T	55739374	4	4	168	1	0	0	0	0	0	1	0	0	1463	1059	37	2	1102	2	BMP5	6	55739374	Nonsense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	1643859	55739374	115375693	136	60283										
ZNF451	26036	broad.mit.edu	37	chr6	57012894	57012894	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agattaaatacttctgtgggCtttgtgatcttatctttaat	7	5	3	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:57012894C>A	uc003pdm.1	+	10	2235	c.2011C>A	c.(2011-2013)CTT>ATT	p.L671I	ZNF451_uc003pdl.2_Missense_Mutation_p.L671I|ZNF451_uc003pdn.1_Missense_Mutation_p.L671I|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Missense_Mutation_p.L671I	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	671	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			CTTCTGTGGGCTTTGTGATCT	0.368													10	53	---	---	---	---	PASS	A	57012894	A	A	57012894	3	1	168	1	0	0	0	0	1	0	0	0	17919	797	28	3	2049	3	ZNF451	6	57012894	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	1273520	57012894	114102173	137	60284										
ZNF451	26036	broad.mit.edu	37	chr6	57012976	57012976	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	catagattatgtatttgtgtCagaaaaaactgaaacttcaa	6	5	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:57012976C>G	uc003pdm.1	+	10	2317	c.2093C>G	c.(2092-2094)TCA>TGA	p.S698*	ZNF451_uc003pdl.2_Nonsense_Mutation_p.S698*|ZNF451_uc003pdn.1_Nonsense_Mutation_p.S698*|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Nonsense_Mutation_p.S698*	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	698					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			GTATTTGTGTCAGAAAAAACT	0.353													5	31	---	---	---	---	PASS	G	57012976	G	G	57012976	4	3	168	1	0	0	0	0	0	1	0	0	17919	838	29	2	2131	2	ZNF451	6	57012976	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	82	57012976	114102091	138	60285										
COL19A1	1310	broad.mit.edu	37	chr6	70847580	70847580	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctgctttgtcttgaaagggtGaaactggactaccaggattt	11	7	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:70847580G>A	uc003pfc.1	+	19	1504	c.1387G>A	c.(1387-1389)GAA>AAA	p.E463K	COL19A1_uc010kam.1_Missense_Mutation_p.E359K	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	463	Triple-helical region 3 (COL3).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TTGAAAGGGTGAAACTGGACT	0.408													46	119	---	---	---	---	PASS	A	70847580	A	A	70847580	3	1	168	1	0	0	0	0	1	0	0	0	3676	1291	45	2	1457	2	COL19A1	6	70847580	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	13834604	70847580	100267487	139	60286										
IMPG1	3617	broad.mit.edu	37	chr6	76728524	76728524	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cttctggtttaccagagagaCgctgagctccaccctctgct	9	14	2	3	rs139136879	byFrequency	TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:76728524C>A	uc003pik.1	-	7	848	c.718G>T	c.(718-720)GTC>TTC	p.V240F		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	240	SEA 1.				visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				ACCAGAGAGACGCTGAGCTCC	0.463													17	49	---	---	---	---	PASS	A	76728524	A	A	76728524	3	1	168	1	0	0	0	0	1	0	0	0	7728	536	19	1	1719	1	IMPG1	6	76728524	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	5880944	76728524	94386543	140	60287										
DOPEY1	23033	broad.mit.edu	37	chr6	83839921	83839921	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gcaagtgatttcagtgttcaGagtgttgctatttcactagt	10	6	3	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:83839921G>C	uc003pjs.1	+	17	2681	c.2421G>C	c.(2419-2421)CAG>CAC	p.Q807H	DOPEY1_uc011dyy.1_Missense_Mutation_p.Q798H|DOPEY1_uc010kbl.1_Missense_Mutation_p.Q798H	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	807					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)		TCAGTGTTCAGAGTGTTGCTA	0.493													14	37	---	---	---	---	PASS	C	83839921	C	C	83839921	3	2	168	1	0	0	0	0	1	0	0	0	4707	933	33	2	2479	2	DOPEY1	6	83839921	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	7111397	83839921	87275146	141	60288										
SNAP91	9892	broad.mit.edu	37	chr6	84417613	84417613	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgtaacgctgtactgagcggCggcgatccgatccgtgagcg	15	11	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:84417613C>A	uc011dze.1	-	2	351	c.34G>T	c.(34-36)GCC>TCC	p.A12S	SNAP91_uc003pkb.2_5'UTR|SNAP91_uc003pkc.2_Missense_Mutation_p.A12S|SNAP91_uc003pkd.2_Missense_Mutation_p.A12S|SNAP91_uc003pka.2_Missense_Mutation_p.A12S|SNAP91_uc011dzf.1_5'UTR	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	12					clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		TACTGAGCGGCGGCGATCCGA	0.562													9	26	---	---	---	---	PASS	A	84417613	A	A	84417613	3	1	168	1	0	0	0	0	1	0	0	0	14833	768	27	1	2797	1	SNAP91	6	84417613	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	577692	84417613	86697454	142	60289										
TBX18	9096	broad.mit.edu	37	chr6	85472385	85472385	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gggtcccgggccgggccaggGagcgcgccggagaccccttg	19	15	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:85472385G>A	uc003pkl.1	-	2	374	c.374C>T	c.(373-375)TCC>TTC	p.S125F	TBX18_uc010kbq.1_5'UTR	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	125					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		CCGGGCCAGGGAGCGCGCCGG	0.701													7	26	---	---	---	---	PASS	A	85472385	A	A	85472385	3	1	168	1	0	0	0	0	1	0	0	0	15650	1174	41	2	1477	2	TBX18	6	85472385	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	1054772	85472385	85642682	143	60290										
RRAGD	58528	broad.mit.edu	37	chr6	90097269	90097269	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aggcccatgagcaggattctCggcttcacttcagtgctgaa	11	11	3	2	rs142842793	by1000genomes	TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:90097269C>A	uc003pnd.3	-	2	472	c.189G>T	c.(187-189)CCG>CCT	p.P63P	RRAGD_uc010kcc.2_Intron	NM_021244	NP_067067	Q9NQL2	RRAGD_HUMAN	Ras-related GTP binding D	63					cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade	lysosome|nucleus	GTP binding|protein heterodimerization activity			ovary(2)|central_nervous_system(1)	3		all_cancers(76;7.01e-07)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00139)		BRCA - Breast invasive adenocarcinoma(108;0.0144)		GCAGGATTCTCGGCTTCACTT	0.463													73	224	---	---	---	---	PASS	A	90097269	A	A	90097269	2	1	168	1	0	0	0	0	0	0	0	1	13675	871	31	2		2	RRAGD	6	90097269	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	4624884	90097269	81017798	144	60291										
FUT9	10690	broad.mit.edu	37	chr6	96651208	96651208	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttcttttccaccaaaactgaTtattttaatgaaactactat	2	8	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:96651208T>G	uc003pop.3	+	3	518	c.177T>G	c.(175-177)GAT>GAG	p.D59E		NM_006581	NP_006572	Q9Y231	FUT9_HUMAN	fucosyltransferase 9 (alpha (1,3)	59	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			skin(4)|ovary(1)	5		all_cancers(76;4.77e-07)|Acute lymphoblastic leukemia(125;4.01e-09)|all_hematologic(75;1.25e-06)|all_epithelial(107;0.00279)|Colorectal(196;0.0356)		BRCA - Breast invasive adenocarcinoma(108;0.08)		CCAAAACTGATTATTTTAATG	0.418													15	35	---	---	---	---	PASS	G	96651208	G	G	96651208	3	3	168	1	0	0	0	0	1	0	0	0	6111	1490	52	5	179	5	FUT9	6	96651208	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	6553939	96651208	74463859	145	60292										
MCHR2	84539	broad.mit.edu	37	chr6	100403844	100403844	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aaaggagccattccttacctTattatagtgaatacaatgag	7	7	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:100403844T>C	uc003pqh.1	-	2	495	c.180A>G	c.(178-180)ATA>ATG	p.I60M	MCHR2_uc003pqi.1_Missense_Mutation_p.I60M	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	60	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		TTCCTTACCTTATTATAGTGA	0.403													4	24	---	---	---	---	PASS	C	100403844	C	C	100403844	3	2	168	1	0	0	0	0	1	0	0	0	9383	1744	61	5	862	5	MCHR2	6	100403844	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	3752636	100403844	70711223	146	60293										
QRSL1	55278	broad.mit.edu	37	chr6	107103556	107103556	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aaccagacgagaagggtttaAtgatgtggtgagaggaagaa	15	3	0	5			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:107103556A>G	uc003prm.2	+	9	1225	c.1109A>G	c.(1108-1110)AAT>AGT	p.N370S		NM_018292	NP_060762	Q9H0R6	QRSL1_HUMAN	glutaminyl-tRNA synthase	370					translation		ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;0.00768)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.248)	Epithelial(6;0.000334)|all cancers(7;0.00157)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0152)	BRCA - Breast invasive adenocarcinoma(108;0.118)|all cancers(137;0.167)|Epithelial(106;0.176)		GAAGGGTTTAATGATGTGGTG	0.363													12	50	---	---	---	---	PASS	G	107103556	G	G	107103556	3	3	168	1	0	0	0	0	1	0	0	0	12881	101	4	5	1143	5	QRSL1	6	107103556	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	6699712	107103556	64011511	147	60294										
PDSS2	57107	broad.mit.edu	37	chr6	107475972	107475972	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acctttgccagctttgattcTttctcgcaactgttaagaaa	6	10	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:107475972T>A	uc003prt.2	-	8	1341	c.1051A>T	c.(1051-1053)AGA>TGA	p.R351*	PDSS2_uc011eak.1_Nonsense_Mutation_p.R215*|PDSS2_uc011eal.1_Nonsense_Mutation_p.R249*	NM_020381	NP_065114	Q86YH6	DLP1_HUMAN	prenyl diphosphate synthase, subunit 2	351					isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	protein heterodimerization activity			ovary(2)	2	Breast(9;0.0127)	all_cancers(87;3.63e-05)|Acute lymphoblastic leukemia(125;2.86e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.0108)|Colorectal(196;0.156)|Lung NSC(302;0.211)	BRCA - Breast invasive adenocarcinoma(8;0.0101)|all cancers(7;0.243)	BRCA - Breast invasive adenocarcinoma(108;0.112)|OV - Ovarian serous cystadenocarcinoma(136;0.173)|all cancers(137;0.191)		GCTTTGATTCTTTCTCGCAAC	0.453													6	36	---	---	---	---	PASS	A	107475972	A	A	107475972	4	1	168	1	0	0	0	0	0	1	0	0	11694	1617	56	5	152	5	PDSS2	6	107475972	Nonsense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	372416	107475972	63639095	148	60295										
C6orf182	285753	broad.mit.edu	37	chr6	109484003	109484003	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	caaagatgagtgaagcttcaGgtattcagcaagaagacagc	11	7	2	5			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:109484003G>T	uc010kdk.2	+	13	1790	c.1213G>T	c.(1213-1215)GGT>TGT	p.G405C	C6orf182_uc003psx.3_3'UTR|C6orf182_uc010kdl.2_Missense_Mutation_p.G405C|C6orf182_uc003psy.3_Missense_Mutation_p.G405C	NM_001083535	NP_001077004	Q8IYX8	CE57L_HUMAN	hypothetical protein LOC285753	405						microtubule|microtubule organizing center					0		all_cancers(87;4.45e-07)|Acute lymphoblastic leukemia(125;2.15e-10)|all_hematologic(75;3.25e-08)|all_epithelial(87;0.000254)|Colorectal(196;0.0293)|all_lung(197;0.11)		BRCA - Breast invasive adenocarcinoma(108;0.00123)|Epithelial(106;0.0022)|all cancers(137;0.00405)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)		TGAAGCTTCAGGTATTCAGCA	0.333													5	71	---	---	---	---	PASS	T	109484003	T	T	109484003	3	4	168	1	0	0	0	0	1	0	0	0	2346	1000	35	3	1251	3	C6orf182	6	109484003	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	2008031	109484003	61631064	149	60296										
CDK19	23097	broad.mit.edu	37	chr6	110953347	110953347	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tagaggagaattgaataatcTggcaaaacccatgtcagcta	9	7	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:110953347T>A	uc003puh.1	-	6	605	c.532A>T	c.(532-534)AGA>TGA	p.R178*	CDK19_uc003pui.1_Nonsense_Mutation_p.R118*|CDK19_uc011eax.1_Nonsense_Mutation_p.R54*	NM_015076	NP_055891	Q9BWU1	CDK19_HUMAN	cell division cycle 2-like 6 (CDK8-like)	178	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						TTGAATAATCTGGCAAAACCC	0.284													11	27	---	---	---	---	PASS	A	110953347	A	A	110953347	4	1	168	1	0	0	0	0	0	1	0	0	3135	1588	55	5	1008	5	CDK19	6	110953347	Nonsense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	1469344	110953347	60161720	150	60297										
LAMA4	3910	broad.mit.edu	37	chr6	112496574	112496574	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gttgggtgaaaaatggttgaCggcttctaatctcttcaagc	11	7	3	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:112496574C>A	uc003pvu.2	-	11	1607	c.1298G>T	c.(1297-1299)CGT>CTT	p.R433L	LAMA4_uc003pvv.2_Missense_Mutation_p.R426L|LAMA4_uc003pvt.2_Missense_Mutation_p.R426L	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	433	Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		AAATGGTTGACGGCTTCTAAT	0.488													14	82	---	---	---	---	PASS	A	112496574	A	A	112496574	3	1	168	1	0	0	0	0	1	0	0	0	8608	536	19	1	4289	1	LAMA4	6	112496574	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	1543227	112496574	58618493	151	60298										
RSPO3	84870	broad.mit.edu	37	chr6	127517050	127517050	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cctgacagcaaaagtctggaAtccagcaaagaaatcccaga	8	11	1	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:127517050A>C	uc003qar.2	+	5	1007	c.717A>C	c.(715-717)GAA>GAC	p.E239D	RSPO3_uc003qas.1_Missense_Mutation_p.E239D	NM_032784	NP_116173	Q9BXY4	RSPO3_HUMAN	R-spondin 3 precursor	239						extracellular region	heparin binding				0				GBM - Glioblastoma multiforme(226;0.0555)		AAAGTCTGGAATCCAGCAAAG	0.299													9	58	---	---	---	---	PASS	C	127517050	C	C	127517050	3	2	168	1	0	0	0	0	1	0	0	0	13711	98	4	5	735	5	RSPO3	6	127517050	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	15020476	127517050	43598017	152	60299										
LAMA2	3908	broad.mit.edu	37	chr6	129785527	129785527	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tcgctggtaccccaacatctCcactgtcatgttcaagttca	6	14	4	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:129785527C>G	uc003qbn.2	+	49	7190	c.7085C>G	c.(7084-7086)TCC>TGC	p.S2362C	LAMA2_uc003qbo.2_Missense_Mutation_p.S2362C	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2362	Laminin G-like 2.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		CCCAACATCTCCACTGTCATG	0.463													22	94	---	---	---	---	PASS	G	129785527	G	G	129785527	3	3	168	1	0	0	0	0	1	0	0	0	8606	855	30	2	7283	2	LAMA2	6	129785527	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2268477	129785527	41329540	153	60300										
TCF21	6943	broad.mit.edu	37	chr6	134210701	134210701	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cccagaagggccgcggcggcCtgggcaagaggaggaaggcg	20	11	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:134210701C>A	uc003qei.3	+	1	442	c.166C>A	c.(166-168)CTG>ATG	p.L56M	uc003qeg.1_5'Flank|TCF21_uc003qej.2_Missense_Mutation_p.L56M	NM_003206	NP_003197	O43680	TCF21_HUMAN	transcription factor 21	56					branching involved in ureteric bud morphogenesis|mesoderm development|negative regulation of androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus	androgen receptor binding|E-box binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity				0	Colorectal(23;0.221)|Breast(56;0.247)			GBM - Glioblastoma multiforme(68;0.00518)|OV - Ovarian serous cystadenocarcinoma(155;0.00783)		CCGCGGCGGCCTGGGCAAGAG	0.632													4	25	---	---	---	---	PASS	A	134210701	A	A	134210701	3	1	168	1	0	0	0	0	1	0	0	0	15688	680	24	3	168	3	TCF21	6	134210701	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	4425174	134210701	36904366	154	60301										
UTRN	7402	broad.mit.edu	37	chr6	144769802	144769802	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aggaccttttggagactgttCgtgtaagagaacaagcaatt	11	6	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:144769802C>T	uc003qkt.2	+	16	2061	c.1969C>T	c.(1969-1971)CGT>TGT	p.R657C	UTRN_uc010khq.1_Missense_Mutation_p.R657C	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	657	Interaction with SYNM.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GGAGACTGTTCGTGTAAGAGA	0.423													30	49	---	---	---	---	PASS	T	144769802	T	T	144769802	3	4	168	1	0	0	0	0	1	0	0	0	17100	884	31	2	2031	2	UTRN	6	144769802	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	10559101	144769802	26345265	155	60302										
CCR6	1235	broad.mit.edu	37	chr6	167549917	167549917	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gcctcctggggaatattctgGtggtgatcacctttgctttt	11	9	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr6:167549917G>T	uc003qvl.2	+	13	2675	c.199G>T	c.(199-201)GTG>TTG	p.V67L	CCR6_uc010kkm.2_Missense_Mutation_p.V67L|CCR6_uc003qvn.3_Missense_Mutation_p.V67L|CCR6_uc003qvm.3_Missense_Mutation_p.V67L	NM_031409	NP_113597	P51684	CCR6_HUMAN	chemokine (C-C motif) receptor 6	67	Helical; Name=1; (Potential).				cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|humoral immune response	integral to plasma membrane	C-C chemokine receptor activity			ovary(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;8.21e-20)|BRCA - Breast invasive adenocarcinoma(81;4.55e-06)|GBM - Glioblastoma multiforme(31;0.00507)		GAATATTCTGGTGGTGATCAC	0.478													26	52	---	---	---	---	PASS	T	167549917	T	T	167549917	3	4	168	1	0	0	0	0	1	0	0	0	2945	1261	44	3	205	3	CCR6	6	167549917	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	22780115	167549917	3565150	156	60303										
HDAC9	9734	broad.mit.edu	37	chr7	18631171	18631171	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtacagaagtaaagcagaagCttcaagagttcctactgagt	10	7	1	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:18631171C>A	uc003suh.2	+	4	480	c.439C>A	c.(439-441)CTT>ATT	p.L147I	HDAC9_uc003sue.2_Missense_Mutation_p.L147I|HDAC9_uc011jyd.1_Missense_Mutation_p.L147I|HDAC9_uc003sui.2_Missense_Mutation_p.L150I|HDAC9_uc003suj.2_Missense_Mutation_p.L150I|HDAC9_uc011jya.1_Missense_Mutation_p.L188I|HDAC9_uc003sua.1_Missense_Mutation_p.L169I|HDAC9_uc011jyb.1_Missense_Mutation_p.L147I|HDAC9_uc003sud.1_Missense_Mutation_p.L147I|HDAC9_uc011jyc.1_Missense_Mutation_p.L150I|HDAC9_uc003suf.1_Missense_Mutation_p.L178I|HDAC9_uc010kud.1_Missense_Mutation_p.L150I|HDAC9_uc011jye.1_Missense_Mutation_p.L119I|HDAC9_uc011jyf.1_Missense_Mutation_p.L116I|HDAC9_uc010kue.1_5'UTR	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	147	Interaction with MEF2 (By similarity).				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	AAAGCAGAAGCTTCAAGAGTT	0.348													10	20	---	---	---	---	PASS	A	18631171	A	A	18631171	3	1	168	1	0	0	0	0	1	0	0	0	7014	797	28	3	462	3	HDAC9	7	18631171	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08		18631171	140507492	157	60304										
AMPH	273	broad.mit.edu	37	chr7	38471795	38471795	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tattagtggcttaccgtccaTaggtcccagggcaatgtctg	11	10	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:38471795T>C	uc003tgu.2	-	13	1221	c.1152A>G	c.(1150-1152)CTA>CTG	p.L384L	AMPH_uc003tgv.2_Silent_p.L384L|AMPH_uc003tgt.2_Silent_p.L137L|AMPH_uc003tgw.1_5'Flank|AMPH_uc010kxl.1_5'Flank	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	384					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						TTACCGTCCATAGGTCCCAGG	0.318													12	70	---	---	---	---	PASS	C	38471795	C	C	38471795	2	2	168	1	0	0	0	0	0	0	0	1	588	1393	49	5		5	AMPH	7	38471795	Silent	SNP	T	TCGA-66-2791-01A-01D-0983-08	19840624	38471795	120666868	158	60305										
URGCP	55665	broad.mit.edu	37	chr7	43916608	43916608	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acatcatgaaggttctggtaTacaaactggtagttgggcat	11	6	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:43916608T>C	uc003tiw.2	-	6	2511	c.2454A>G	c.(2452-2454)GTA>GTG	p.V818V	URGCP_uc003tiu.2_Silent_p.V775V|URGCP_uc003tiv.2_Silent_p.V743V|URGCP_uc003tix.2_Silent_p.V809V|URGCP_uc003tiy.2_Silent_p.V775V|URGCP_uc003tiz.2_Silent_p.V775V|URGCP_uc011kbj.1_Silent_p.V775V	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	818					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						GGTTCTGGTATACAAACTGGT	0.522													11	44	---	---	---	---	PASS	C	43916608	C	C	43916608	2	2	168	1	0	0	0	0	0	0	0	1	17023	1393	49	5		5	URGCP	7	43916608	Silent	SNP	T	TCGA-66-2791-01A-01D-0983-08	5444813	43916608	115222055	159	60306										
ZNF680	340252	broad.mit.edu	37	chr7	64004166	64004166	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acaggttatcaggtgaggctTagagacagcaatacctgttt	11	7	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:64004166T>C	uc003tta.2	-	3	345	c.172A>G	c.(172-174)AAG>GAG	p.K58E	ZNF680_uc010kzr.2_Intron|ZNF680_uc003ttb.2_Missense_Mutation_p.K58E	NM_178558	NP_848653	Q8NEM1	ZN680_HUMAN	zinc finger protein 680 isoform 1	58	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.118)|all_lung(88;0.243)				AGGTGAGGCTTAGAGACAGCA	0.403													28	60	---	---	---	---	PASS	C	64004166	C	C	64004166	3	2	168	1	0	0	0	0	1	0	0	0	18084	1763	61	5	1551	5	ZNF680	7	64004166	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	20087558	64004166	95134497	160	60307										
C7orf42	55069	broad.mit.edu	37	chr7	66410077	66410077	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cggaaagtacaatgaccagcGggcaggcccgagcttccacc	12	14	0	1	rs56128303		TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:66410077G>A	uc003tvk.2	+	3	538	c.274G>A	c.(274-276)GGG>AGG	p.G92R	C7orf42_uc010lah.2_RNA|C7orf42_uc003tvl.2_Missense_Mutation_p.G92R	NM_017994	NP_060464	Q9NWD8	CG042_HUMAN	hypothetical protein LOC55069	92						integral to membrane				ovary(1)	1						AATGACCAGCGGGCAGGCCCG	0.547													8	26	---	---	---	---	PASS	A	66410077	A	A	66410077	3	1	168	1	0	0	0	0	1	0	0	0	2392	1116	39	1	280	1	C7orf42	7	66410077	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	2405911	66410077	92728586	161	60308										
ELN	2006	broad.mit.edu	37	chr7	73474756	73474756	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctggacttggagttggtgtcGgcgtccctggacttggagtt	16	8	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:73474756G>A	uc003tzw.2	+	25	1781	c.1690G>A	c.(1690-1692)GGC>AGC	p.G564S	RFC2_uc011kfa.1_Intron|ELN_uc003tzn.2_Missense_Mutation_p.G558S|ELN_uc003tzz.2_Missense_Mutation_p.G477S|ELN_uc003tzo.2_Missense_Mutation_p.G510S|ELN_uc003tzp.2_Missense_Mutation_p.G469S|ELN_uc003tzq.2_Missense_Mutation_p.G422S|ELN_uc003tzr.2_Intron|ELN_uc003tzs.2_Missense_Mutation_p.G539S|ELN_uc003tzt.2_Missense_Mutation_p.G563S|ELN_uc003tzu.2_Missense_Mutation_p.G544S|ELN_uc003tzv.2_Missense_Mutation_p.G529S|ELN_uc003tzx.2_Missense_Mutation_p.G548S|ELN_uc011kff.1_Missense_Mutation_p.G558S|ELN_uc003tzy.2_Missense_Mutation_p.G534S	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	587	Ala-rich.				blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	AGTTGGTGTCGGCGTCCCTGG	0.627			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						13	63	---	---	---	---	PASS	A	73474756	A	A	73474756	3	1	168	1	0	0	0	0	1	0	0	0	5071	1116	39	1	1785	1	ELN	7	73474756	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	7064679	73474756	85663907	162	60309										
PTPN12	5782	broad.mit.edu	37	chr7	77256840	77256840	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agatgaaagaaactctgatgGtgctgtgacccagaataaaa	10	6	1	6			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:77256840G>T	uc003ugh.2	+	13	1935	c.1844G>T	c.(1843-1845)GGT>GTT	p.G615V	PTPN12_uc011kgp.1_Missense_Mutation_p.G496V|PTPN12_uc011kgq.1_Missense_Mutation_p.G485V|PTPN12_uc010lds.2_Missense_Mutation_p.G347V	NM_002835	NP_002826	Q05209	PTN12_HUMAN	protein tyrosine phosphatase, non-receptor type	615						soluble fraction	non-membrane spanning protein tyrosine phosphatase activity|SH3 domain binding			ovary(1)|breast(1)|pancreas(1)	3						AACTCTGATGGTGCTGTGACC	0.413													18	80	---	---	---	---	PASS	T	77256840	T	T	77256840	3	4	168	1	0	0	0	0	1	0	0	0	12781	1261	44	3	1894	3	PTPN12	7	77256840	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	3782084	77256840	81881823	163	60310										
ANKIB1	54467	broad.mit.edu	37	chr7	92027804	92027804	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccattttcaactgacaccctGagctcacaccctctcagtga	5	16	3	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:92027804G>A	uc003ulw.2	+	20	3187	c.2811G>A	c.(2809-2811)CTG>CTA	p.L937L	ANKIB1_uc010lew.1_Silent_p.L206L	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	937							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CTGACACCCTGAGCTCACACC	0.512													19	52	---	---	---	---	PASS	A	92027804	A	A	92027804	2	1	168	1	0	0	0	0	0	0	0	1	630	1277	45	2		2	ANKIB1	7	92027804	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	14770964	92027804	67110859	164	60311										
CALCR	799	broad.mit.edu	37	chr7	93055874	93055874	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccactgaattttgaattgggCccattggcgcttcacggtgg	12	10	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:93055874C>A	uc003umv.1	-	15	1582	c.1321G>T	c.(1321-1323)GCC>TCC	p.A441S	CALCR_uc011kia.1_Missense_Mutation_p.A221S|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.A407S|CALCR_uc003umw.2_Missense_Mutation_p.A407S	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	423	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	TTGAATTGGGCCCATTGGCGC	0.537													5	31	---	---	---	---	PASS	A	93055874	A	A	93055874	3	1	168	1	0	0	0	0	1	0	0	0	2579	739	26	3	209	3	CALCR	7	93055874	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	1028070	93055874	66082789	165	60312										
SLC25A13	10165	broad.mit.edu	37	chr7	95822420	95822420	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gaccatgatgtctcggaagtCgatggctgtgactctcccag	12	11	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:95822420C>A	uc003uof.3	-	6	735	c.544G>T	c.(544-546)GAC>TAC	p.D182Y	SLC25A13_uc003uog.3_Missense_Mutation_p.D182Y|SLC25A13_uc011kik.1_Missense_Mutation_p.D74Y	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	182	3.|EF-hand 4.				ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	TCTCGGAAGTCGATGGCTGTG	0.453													12	45	---	---	---	---	PASS	A	95822420	A	A	95822420	3	1	168	1	0	0	0	0	1	0	0	0	14475	884	31	2	1538	2	SLC25A13	7	95822420	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2766546	95822420	63316243	166	60313										
PTCD1	26024	broad.mit.edu	37	chr7	99022669	99022669	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aggactcccggactccaccaCctcggccagtagcgtgaggg	13	15	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:99022669C>G	uc003uqh.2	-	6	1617	c.1486G>C	c.(1486-1488)GTG>CTG	p.V496L	PTCD1_uc011kiw.1_Missense_Mutation_p.V545L	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	496										ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			GACTCCACCACCTCGGCCAGT	0.617													7	29	---	---	---	---	PASS	G	99022669	G	G	99022669	3	3	168	1	0	0	0	0	1	0	0	0	12727	507	18	4	628	4	PTCD1	7	99022669	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	3200249	99022669	60115994	167	60314										
ZAN	7455	broad.mit.edu	37	chr7	100372950	100372950	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctgtctctctgtcctcccagGtgtgggagtgtgtcagctcc	12	13	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:100372950G>T	uc003uwj.2	+	33	5945	c.5780G>T	c.(5779-5781)GGT>GTT	p.G1927V	ZAN_uc003uwk.2_Missense_Mutation_p.G1927V|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.G14V	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1927	Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GTCCTCCCAGGTGTGGGAGTG	0.567													4	17	---	---	---	---	PASS	T	100372950	T	T	100372950	3	4	168	1	0	0	0	0	1	0	0	0	17510	1275	44	3	5901	3	ZAN	7	100372950	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	1350281	100372950	58765713	168	60315										
MYL10	93408	broad.mit.edu	37	chr7	101267539	101267539	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gctcttttccgagctcttctCggtgcctgcgaggtagcaga	12	12	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:101267539C>A	uc003uyr.2	-	2	262	c.84G>T	c.(82-84)CCG>CCT	p.P28P		NM_138403	NP_612412	Q9BUA6	MYL10_HUMAN	myosin, light chain 10, regulatory	28						mitochondrion	calcium ion binding			ovary(1)|breast(1)	2						GAGCTCTTCTCGGTGCCTGCG	0.602													4	41	---	---	---	---	PASS	A	101267539	A	A	101267539	2	1	168	1	0	0	0	0	0	0	0	1	10044	871	31	2		2	MYL10	7	101267539	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	894589	101267539	57871124	169	60316										
CPA4	51200	broad.mit.edu	37	chr7	129950677	129950677	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aagtgtaccatggaccccacGccaattcggaagtggaggtg	13	10	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:129950677G>C	uc003vpr.2	+	9	891	c.844G>C	c.(844-846)GCC>CCC	p.A282P	CPA4_uc011kpd.1_Missense_Mutation_p.A249P|CPA4_uc011kpe.1_Missense_Mutation_p.A178P	NM_016352	NP_057436	Q9UI42	CBPA4_HUMAN	carboxypeptidase A4 preproprotein	282					histone acetylation|proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					TGGACCCCACGCCAATTCGGA	0.493													16	71	---	---	---	---	PASS	C	129950677	C	C	129950677	3	2	168	1	0	0	0	0	1	0	0	0	3792	1087	38	4	878	4	CPA4	7	129950677	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	28683138	129950677	29187986	170	60317										
CHRM2	1129	broad.mit.edu	37	chr7	136700338	136700338	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtacaaggaaggatagtgaaGccaaacaataacaacatgcc	9	8	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:136700338G>T	uc003vtf.1	+	4	1349	c.726G>T	c.(724-726)AAG>AAT	p.K242N	CHRM2_uc003vtg.1_Missense_Mutation_p.K242N|CHRM2_uc003vtj.1_Missense_Mutation_p.K242N|CHRM2_uc003vtk.1_Missense_Mutation_p.K242N|CHRM2_uc003vtl.1_Missense_Mutation_p.K242N|CHRM2_uc003vtm.1_Missense_Mutation_p.K242N|CHRM2_uc003vti.1_Missense_Mutation_p.K242N|CHRM2_uc003vto.1_Missense_Mutation_p.K242N|CHRM2_uc003vtn.1_Missense_Mutation_p.K242N|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	242	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	GGATAGTGAAGCCAAACAATA	0.502													7	23	---	---	---	---	PASS	T	136700338	T	T	136700338	3	4	168	1	0	0	0	0	1	0	0	0	3377	962	34	3	728	3	CHRM2	7	136700338	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	6749661	136700338	22438325	171	60318										
UBN2	254048	broad.mit.edu	37	chr7	138978162	138978162	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggacacagctggagtgacaaCcacctcgggatctacctcag	11	13	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:138978162C>T	uc011kqr.1	+	16	3854	c.3854C>T	c.(3853-3855)ACC>ATC	p.T1285I		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	1285										ovary(1)|skin(1)	2						GGAGTGACAACCACCTCGGGA	0.517													14	52	---	---	---	---	PASS	T	138978162	T	T	138978162	3	4	168	1	0	0	0	0	1	0	0	0	16890	507	18	3	3916	3	UBN2	7	138978162	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2277824	138978162	20160501	172	60319										
WEE2	494551	broad.mit.edu	37	chr7	141408804	141408804	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agtccagatcagattttgagGactccagtgtcacaccctct	8	12	3	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:141408804G>A	uc003vwn.2	+	1	652	c.246G>A	c.(244-246)AGG>AGA	p.R82R	FLJ40852_uc011krh.1_Intron|FLJ40852_uc010lnm.2_Intron|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028	P0C1S8	WEE2_HUMAN	WEE1 homolog 2	82					egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)					AGATTTTGAGGACTCCAGTGT	0.522													43	150	---	---	---	---	PASS	A	141408804	A	A	141408804	2	1	168	1	0	0	0	0	0	0	0	1	17342	1165	41	2		2	WEE2	7	141408804	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	2430642	141408804	17729859	173	60320										
PDIA4	9601	broad.mit.edu	37	chr7	148716232	148716232	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggaatgggaggatctttatcCtttaatatgttggcaatttt	10	4	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:148716232C>A	uc003wff.2	-	3	609	c.327G>T	c.(325-327)AAG>AAT	p.K109N		NM_004911	NP_004902	P13667	PDIA4_HUMAN	protein disulfide isomerase A4 precursor	109	Thioredoxin 1.				cell redox homeostasis|glycerol ether metabolic process|protein secretion	endoplasmic reticulum lumen|melanosome	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			lung(5)|ovary(1)	6	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00385)			GATCTTTATCCTTTAATATGT	0.448													5	66	---	---	---	---	PASS	A	148716232	A	A	148716232	3	1	168	1	0	0	0	0	1	0	0	0	11670	680	24	3	1642	3	PDIA4	7	148716232	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	7307428	148716232	10422431	174	60321										
ABCF2	10061	broad.mit.edu	37	chr7	150921066	150921066	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tttctccagcatggcccgctCtgtgtcgacttccatcacac	7	16	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:150921066C>G	uc003wjp.2	-	4	613	c.502G>C	c.(502-504)GAG>CAG	p.E168Q	ABCF2_uc003wjo.1_Missense_Mutation_p.E168Q	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	168	ABC transporter 1.					ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ATGGCCCGCTCTGTGTCGACT	0.592													8	56	---	---	---	---	PASS	G	150921066	G	G	150921066	3	3	168	1	0	0	0	0	1	0	0	0	66	922	32	2	1458	2	ABCF2	7	150921066	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2204834	150921066	8217597	175	60322										
ABCF2	10061	broad.mit.edu	37	chr7	150921083	150921083	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gctctgtgtcgacttccatcAcacaatgcaagggtgtcttg	10	11	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:150921083A>T	uc003wjp.2	-	4	596	c.485T>A	c.(484-486)GTG>GAG	p.V162E	ABCF2_uc003wjo.1_Missense_Mutation_p.V162E	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	162	ABC transporter 1.					ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GACTTCCATCACACAATGCAA	0.577													8	58	---	---	---	---	PASS	T	150921083	T	T	150921083	3	4	168	1	0	0	0	0	1	0	0	0	66	159	6	5	1475	5	ABCF2	7	150921083	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	17	150921083	8217580	176	60323										
HTR5A	3361	broad.mit.edu	37	chr7	154876035	154876035	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tggatccccttctttctcacCgagctcatcagtcccctctg	6	17	5	0	rs140450324		TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr7:154876035C>G	uc003wlu.1	+	2	976	c.912C>G	c.(910-912)ACC>ACG	p.T304T		NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	304	Extracellular (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		TCTTTCTCACCGAGCTCATCA	0.587													20	73	---	---	---	---	PASS	G	154876035	G	G	154876035	2	3	168	1	0	0	0	0	0	0	0	1	7450	639	23	4		4	HTR5A	7	154876035	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	3954952	154876035	4262628	177	60324										
SGK223	157285	broad.mit.edu	37	chr8	8233763	8233763	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aggcagacaatggtactcacCgcgactttggaggcggagga	15	9	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr8:8233763C>T	uc003wsh.3	-	2	2156	c.2156G>A	c.(2155-2157)CGG>CAG	p.R719Q		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	719							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						TGGTACTCACCGCGACTTTGG	0.552													9	28	---	---	---	---	PASS	T	8233763	T	T	8233763	3	4	168	1	0	0	0	0	1	0	0	0	14210	666	23	1	2068	1	SGK223	8	8233763	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08		8233763	138130259	178	60325										
KIF13B	23303	broad.mit.edu	37	chr8	28989937	28989937	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttcaattgccaatgctccttCggaaagatgctcgataaagt	8	9	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr8:28989937C>T	uc003xhh.3	-	23	2889	c.2830G>A	c.(2830-2832)GAA>AAA	p.E944K	uc003xhi.1_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	944					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		AATGCTCCTTCGGAAAGATGC	0.413													13	22	---	---	---	---	PASS	T	28989937	T	T	28989937	3	4	168	1	0	0	0	0	1	0	0	0	8275	893	31	2	2722	2	KIF13B	8	28989937	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	20756174	28989937	117374085	179	60326										
TEX15	56154	broad.mit.edu	37	chr8	30702390	30702390	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctgttctgtctttagaagctCtttttctctacagctctgct	6	11	5	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr8:30702390C>G	uc003xil.2	-	1	4144	c.4144G>C	c.(4144-4146)GAG>CAG	p.E1382Q		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1382										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TTTAGAAGCTCTTTTTCTCTA	0.398													17	37	---	---	---	---	PASS	G	30702390	G	G	30702390	3	3	168	1	0	0	0	0	1	0	0	0	15776	922	32	2	4241	2	TEX15	8	30702390	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	1712453	30702390	115661632	180	60327										
SOX17	64321	broad.mit.edu	37	chr8	55372456	55372456	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggcctcccctaccaggggcaTgactccggtgtgaatctccc	11	16	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr8:55372456T>C	uc003xsb.3	+	2	1350	c.1146T>C	c.(1144-1146)CAT>CAC	p.H382H		NM_022454	NP_071899	Q9H6I2	SOX17_HUMAN	SRY-box 17	382	Sox C-terminal.				angiogenesis|cardiac cell fate determination|endocardial cell differentiation|endocardium formation|endoderm formation|heart formation|heart looping|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|outflow tract morphogenesis|positive regulation of transcription, DNA-dependent|protein destabilization|protein stabilization|regulation of embryonic development|renal system development|vasculogenesis|Wnt receptor signaling pathway	transcription factor complex	beta-catenin binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			lung(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.176)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;1.9e-07)|Epithelial(17;1.7e-05)|all cancers(17;0.000159)			ACCAGGGGCATGACTCCGGTG	0.612													5	20	---	---	---	---	PASS	C	55372456	C	C	55372456	2	2	168	1	0	0	0	0	0	0	0	1	14947	1461	51	5		5	SOX17	8	55372456	Silent	SNP	T	TCGA-66-2791-01A-01D-0983-08	24670066	55372456	90991566	181	60328										
RP1	6101	broad.mit.edu	37	chr8	55541069	55541069	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	catctttagatttttgctatGattctaagcaaaatagtgaa	6	5	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr8:55541069G>C	uc003xsd.1	+	4	4775	c.4627G>C	c.(4627-4629)GAT>CAT	p.D1543H	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1543					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TTTTTGCTATGATTCTAAGCA	0.333													11	31	---	---	---	---	PASS	C	55541069	C	C	55541069	3	2	168	1	0	0	0	0	1	0	0	0	13532	1290	45	2	4637	2	RP1	8	55541069	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	168613	55541069	90822953	182	60329										
YTHDF3	253943	broad.mit.edu	37	chr8	64099372	64099372	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gggttctgctgtaccaccacCtcctataaaacacaacatga	6	13	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr8:64099372C>T	uc003xuy.2	+	5	1119	c.803C>T	c.(802-804)CCT>CTT	p.P268L	YTHDF3_uc010lys.2_Missense_Mutation_p.P212L|YTHDF3_uc003xuz.2_Missense_Mutation_p.P212L|YTHDF3_uc003xva.2_Missense_Mutation_p.P212L|YTHDF3_uc011len.1_Missense_Mutation_p.P212L	NM_152758	NP_689971	Q7Z739	YTHD3_HUMAN	YTH domain family, member 3	268											0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)			GTACCACCACCTCCTATAAAA	0.488													20	84	---	---	---	---	PASS	T	64099372	T	T	64099372	3	4	168	1	0	0	0	0	1	0	0	0	17497	681	24	3	816	3	YTHDF3	8	64099372	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	8558303	64099372	82264650	183	60330										
ZFHX4	79776	broad.mit.edu	37	chr8	77776502	77776502	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctaataacacctatcctcatCtttcttgcttctccatgaag	3	13	4	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr8:77776502C>T	uc003yav.2	+	11	10804	c.10417C>T	c.(10417-10419)CTT>TTT	p.L3473F		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3469	Ser-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTATCCTCATCTTTCTTGCTT	0.483										HNSCC(33;0.089)			23	51	---	---	---	---	PASS	T	77776502	T	T	77776502	3	4	168	1	0	0	0	0	1	0	0	0	17632	913	32	2	10590	2	ZFHX4	8	77776502	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	13677130	77776502	68587520	184	60331										
CNBD1	168975	broad.mit.edu	37	chr8	88365862	88365862	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	caataatatatttttttaacAgaaaagatctcaaaaacttg	3	5	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr8:88365862A>T	uc003ydy.2	+	10	1201	c.1153_splice	c.e10-2	p.K385_splice		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1											ovary(3)	3						TTTTTTTAACAGAAAAGATCT	0.318													8	24	---	---	---	---	PASS	T	88365862	T	T	88365862	5	4	168	1	0	0	0	0	0	0	1	0	3591	202	7	5	1189	5	CNBD1	8	88365862	Splice_Site	SNP	A	TCGA-66-2791-01A-01D-0983-08	10589360	88365862	57998160	185	60332										
COL22A1	169044	broad.mit.edu	37	chr8	139603731	139603731	+	Frame_Shift_Del	DEL	G	-	-													0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggtgcacctgggtcacctttGgctcctcgctcacctgggaa							TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr8:139603731delG	uc003yvd.2	-	64	5076	c.4629delC	c.(4627-4629)GCCfs	p.A1543fs	COL22A1_uc011ljo.1_Frame_Shift_Del_p.A823fs	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1543	Pro-rich.|Gly-rich.|Collagen-like 15.				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)			GGTCACCTTTGGCTCCTCGCT	0.612										HNSCC(7;0.00092)			7	11	---	---	---	---		-	139603731	-	-	139603731	7	5	168	1	0	1	0	1	0	0	0	0	3681	1335	47	0	259	0	COL22A1	8	139603731	Frame_Shift_Del	DEL	G	TCGA-66-2791-01A-01D-0983-08	51237869	139603731	6760291	186	60333										
SMARCA2	6595	broad.mit.edu	37	chr9	2116022	2116022	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cggagggcattcctgcaggcCatcttggagcatgaggagga	16	9	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr9:2116022C>T	uc003zhc.2	+	25	3756	c.3657C>T	c.(3655-3657)GCC>GCT	p.A1219A	SMARCA2_uc003zhd.2_Silent_p.A1219A|SMARCA2_uc010mha.2_Silent_p.A1152A	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1219					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		TCCTGCAGGCCATCTTGGAGC	0.478											OREG0019074	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	30	---	---	---	---	PASS	T	2116022	T	T	2116022	2	4	168	1	0	0	0	0	0	0	0	1	14769	581	21	3		3	SMARCA2	9	2116022	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08		2116022	139097409	187	60334										
KIAA1432	57589	broad.mit.edu	37	chr9	5753220	5753220	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atttccagcacctatctagaGagcaattggcctatacgggt	9	10	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr9:5753220G>T	uc003zji.2	+	12	1329	c.1236G>T	c.(1234-1236)GAG>GAT	p.E412D	KIAA1432_uc003zjh.2_Missense_Mutation_p.E412D|KIAA1432_uc003zjl.3_Missense_Mutation_p.E412D|KIAA1432_uc003zjj.1_Intron	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	491						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		CCTATCTAGAGAGCAATTGGC	0.363													28	32	---	---	---	---	PASS	T	5753220	T	T	5753220	3	4	168	1	0	0	0	0	1	0	0	0	8233	933	33	2	1282	2	KIAA1432	9	5753220	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	3637198	5753220	135460211	188	60335										
C9orf85	138241	broad.mit.edu	37	chr9	74526683	74526683	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aaaggcaacgtggctcgttcCagacctcagaagcaccagaa	10	12	1	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr9:74526683C>A	uc004ain.2	+	1	261	c.33C>A	c.(31-33)TCC>TCA	p.S11S	C9orf85_uc004aio.2_RNA|C9orf85_uc010mou.2_RNA|C9orf85_uc010mov.2_RNA|FAM108B1_uc004ail.2_5'Flank|FAM108B1_uc004aim.1_5'Flank	NM_182505	NP_872311	Q96MD7	CI085_HUMAN	hypothetical protein LOC138241	11											0						TGGCTCGTTCCAGACCTCAGA	0.507													6	202	---	---	---	---	PASS	A	74526683	A	A	74526683	2	1	168	1	0	0	0	0	0	0	0	1	2501	581	21	3		3	C9orf85	9	74526683	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	68773463	74526683	66686748	189	60336										
SHC3	53358	broad.mit.edu	37	chr9	91661806	91661806	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gggtttcagtctagtatcaaGaaagccccctggaggaggca	13	9	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr9:91661806G>A	uc004aqg.2	-	8	1373	c.1066C>T	c.(1066-1068)CTT>TTT	p.L356F		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	356	CH1.				central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						CTAGTATCAAGAAAGCCCCCT	0.488													17	60	---	---	---	---	PASS	A	91661806	A	A	91661806	3	1	168	1	0	0	0	0	1	0	0	0	14272	942	33	2	738	2	SHC3	9	91661806	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	17135123	91661806	49551625	190	60337										
SPTLC1	10558	broad.mit.edu	37	chr9	94812283	94812283	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gactcctcggccatgctctcCtaggactccaaatgaaaggc	9	14	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr9:94812283C>A	uc004arl.1	-	9	885	c.847G>T	c.(847-849)GGA>TGA	p.G283*	SPTLC1_uc011ltv.1_Nonsense_Mutation_p.G283*	NM_006415	NP_006406	O15269	SPTC1_HUMAN	serine palmitoyltransferase subunit 1 isoform a	283	Cytoplasmic (Potential).					integral to membrane|SPOTS complex	protein binding|pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups			ovary(1)|breast(1)	2					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	CCATGCTCTCCTAGGACTCCA	0.368													5	113	---	---	---	---	PASS	A	94812283	A	A	94812283	4	1	168	1	0	0	0	0	0	1	0	0	15122	690	24	3	602	3	SPTLC1	9	94812283	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	3150477	94812283	46401148	191	60338										
ZNF367	195828	broad.mit.edu	37	chr9	99160542	99160542	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gctggatgaatgctctccttCatttattaaatcgcggacag	9	9	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr9:99160542C>T	uc004awf.2	-	2	830	c.475G>A	c.(475-477)GAA>AAA	p.E159K	ZNF367_uc004awg.2_Missense_Mutation_p.E159K	NM_153695	NP_710162	Q7RTV3	ZN367_HUMAN	zinc finger protein 367	159					regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0167)				TGCTCTCCTTCATTTATTAAA	0.398													25	92	---	---	---	---	PASS	T	99160542	T	T	99160542	3	4	168	1	0	0	0	0	1	0	0	0	17868	835	29	2	593	2	ZNF367	9	99160542	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	4348259	99160542	42052889	192	60339										
PAPPA	5069	broad.mit.edu	37	chr9	119109373	119109373	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	caggtggcctgtgagccagtCgactgcagcatcccagatca	12	13	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr9:119109373C>G	uc004bjn.2	+	15	4230	c.3849C>G	c.(3847-3849)GTC>GTG	p.V1283V	PAPPA_uc011lxq.1_Silent_p.V658V	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1283	Sushi 2.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GTGAGCCAGTCGACTGCAGCA	0.572													15	33	---	---	---	---	PASS	G	119109373	G	G	119109373	2	3	168	1	0	0	0	0	0	0	0	1	11432	871	31	2		2	PAPPA	9	119109373	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	19948831	119109373	22104058	193	60340										
DBC1	1620	broad.mit.edu	37	chr9	122075433	122075433	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tacctgtatattttatatctGgttgtaaatccttgacggtg	8	6	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr9:122075433G>T	uc004bkc.2	-	2	657	c.201C>A	c.(199-201)ACC>ACA	p.T67T	DBC1_uc004bkd.2_Silent_p.T67T	NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	67					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						TTTTATATCTGGTTGTAAATC	0.448													9	30	---	---	---	---	PASS	T	122075433	T	T	122075433	2	4	168	1	0	0	0	0	0	0	0	1	4247	1335	47	3		3	DBC1	9	122075433	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	2966060	122075433	19137998	194	60341										
SPTAN1	6709	broad.mit.edu	37	chr9	131345357	131345357	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccccttcttttattcacaggAtccatccaacctacaaggaa	4	14	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr9:131345357A>G	uc004bvl.3	+	15	1921	c.1808A>G	c.(1807-1809)GAT>GGT	p.D603G	SPTAN1_uc011mbg.1_Missense_Mutation_p.D603G|SPTAN1_uc011mbh.1_Missense_Mutation_p.D615G|SPTAN1_uc004bvm.3_Missense_Mutation_p.D603G|SPTAN1_uc004bvn.3_Missense_Mutation_p.D603G	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	603	Spectrin 7.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						TATTCACAGGATCCATCCAAC	0.433													12	33	---	---	---	---	PASS	G	131345357	G	G	131345357	3	3	168	1	0	0	0	0	1	0	0	0	15116	347	12	5	1862	5	SPTAN1	9	131345357	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	9269924	131345357	9868074	195	60342										
TTF1	7270	broad.mit.edu	37	chr9	135273587	135273587	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgatcacagatttttcctcaGgatatctgtccgtgtacagc	8	10	3	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr9:135273587G>T	uc004cbl.2	-	4	1770	c.1718C>A	c.(1717-1719)CCT>CAT	p.P573H	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Missense_Mutation_p.P58H	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	573					negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		TTTTTCCTCAGGATATCTGTC	0.403													4	45	---	---	---	---	PASS	T	135273587	T	T	135273587	3	4	168	1	0	0	0	0	1	0	0	0	16715	1000	35	3	1031	3	TTF1	9	135273587	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	3928230	135273587	5939844	196	60343										
ADAMTS13	11093	broad.mit.edu	37	chr9	136319552	136319552	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgcaggtggaaagtcatgtcCcttggcccatgttcggccag	13	11	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr9:136319552C>A	uc004cdv.3	+	24	3504	c.3060C>A	c.(3058-3060)TCC>TCA	p.S1020S	ADAMTS13_uc004cdp.3_Silent_p.S247S|ADAMTS13_uc004cdt.1_Silent_p.S1020S|ADAMTS13_uc004cdu.1_Silent_p.S989S|ADAMTS13_uc004cdw.3_Silent_p.S1020S|ADAMTS13_uc004cdx.3_Silent_p.S989S|ADAMTS13_uc004cdz.3_Silent_p.S690S|ADAMTS13_uc004cea.1_5'Flank|ADAMTS13_uc004ceb.3_5'Flank	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1020	TSP type-1 7.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		AAGTCATGTCCCTTGGCCCAT	0.637													11	48	---	---	---	---	PASS	A	136319552	A	A	136319552	2	1	168	1	0	0	0	0	0	0	0	1	258	610	22	3		3	ADAMTS13	9	136319552	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	1045965	136319552	4893879	197	60344										
MLLT10	8028	broad.mit.edu	37	chr10	21959505	21959505	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctctagtggaaaagatgtttCagagactagagggtcagagg	14	5	3	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr10:21959505C>G	uc001iqs.2	+	10	1271	c.923C>G	c.(922-924)TCA>TGA	p.S308*	MLLT10_uc001iqt.2_Nonsense_Mutation_p.S308*|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Nonsense_Mutation_p.S308*|MLLT10_uc001ira.2_5'UTR|MLLT10_uc001iqz.2_Nonsense_Mutation_p.S63*	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	308					positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						AAAGATGTTTCAGAGACTAGA	0.453			T	MLL|PICALM|CDK6	AL								14	32	---	---	---	---	PASS	G	21959505	G	G	21959505	4	3	168	1	0	0	0	0	0	1	0	0	9626	838	29	2	957	2	MLLT10	10	21959505	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08		21959505	113575242	198	60345										
C10orf67	256815	broad.mit.edu	37	chr10	23622020	23622020	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cttttgcgtagatgaactcaAttcttttactgacagtattt	6	7	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr10:23622020A>T	uc010qcx.1	-	2	367	c.301T>A	c.(301-303)TTG>ATG	p.L101M		NM_153714	NP_714925	Q8IYJ2	CJ067_HUMAN	hypothetical protein LOC256815	101											0						GATGAACTCAATTCTTTTACT	0.343													5	17	---	---	---	---	PASS	T	23622020	T	T	23622020	3	4	168	1	0	0	0	0	1	0	0	0	1612	98	4	5	272	5	C10orf67	10	23622020	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	1662515	23622020	111912727	199	60346										
ARID5B	84159	broad.mit.edu	37	chr10	63852295	63852295	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atttggaccttgtgattgcaGggaaaaaggcccgggcagtg	15	7	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr10:63852295G>A	uc001jlt.1	+	10	3099	c.3073G>A	c.(3073-3075)GGG>AGG	p.G1025R		NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	1025					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					TGTGATTGCAGGGAAAAAGGC	0.597													22	40	---	---	---	---	PASS	A	63852295	A	A	63852295	3	1	168	1	0	0	0	0	1	0	0	0	922	1000	35	3	3111	3	ARID5B	10	63852295	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	40230275	63852295	71682452	200	60347										
CDHR1	92211	broad.mit.edu	37	chr10	85972907	85972907	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	actattccatcacccatgcaGagcccgccaacgtgttcgac	7	16	1	1	rs144856473		TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr10:85972907G>A	uc001kcv.2	+	16	1843	c.1843G>A	c.(1843-1845)GAG>AAG	p.E615K	CDHR1_uc001kcw.2_Missense_Mutation_p.E615K|CDHR1_uc009xst.2_Missense_Mutation_p.E319K|CDHR1_uc001kcx.2_5'UTR	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	615	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						CACCCATGCAGAGCCCGCCAA	0.572													11	47	---	---	---	---	PASS	A	85972907	A	A	85972907	3	1	168	1	0	0	0	0	1	0	0	0	3118	943	33	2	1905	2	CDHR1	10	85972907	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	22120612	85972907	49561840	201	60348										
DNMBP	23268	broad.mit.edu	37	chr10	101636941	101636941	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gttttgcggatataattggaGggaacgtagcccttcttccc	11	9	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr10:101636941G>A	uc001kqj.2	-	17	4793	c.4701C>T	c.(4699-4701)CCC>CCT	p.P1567P	DNMBP_uc010qpl.1_Silent_p.P503P|DNMBP_uc001kqg.2_Silent_p.P855P|DNMBP_uc001kqh.2_Silent_p.P1199P	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	1567	SH3 6.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		TATAATTGGAGGGAACGTAGC	0.522													19	25	---	---	---	---	PASS	A	101636941	A	A	101636941	2	1	168	1	0	0	0	0	0	0	0	1	4674	987	35	3		3	DNMBP	10	101636941	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	15664034	101636941	33897806	202	60349										
PPRC1	23082	broad.mit.edu	37	chr10	103901552	103901552	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgtgactgttgaggagcctgCatcagagaggctaaagcctg	14	8	1	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr10:103901552C>T	uc001kum.2	+	5	3326	c.3287C>T	c.(3286-3288)GCA>GTA	p.A1096V	PPRC1_uc001kun.2_Missense_Mutation_p.A976V|PPRC1_uc010qqj.1_Missense_Mutation_p.A1096V|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	1096	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		GAGGAGCCTGCATCAGAGAGG	0.577													8	11	---	---	---	---	PASS	T	103901552	T	T	103901552	3	4	168	1	0	0	0	0	1	0	0	0	12410	710	25	3	3305	3	PPRC1	10	103901552	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2264611	103901552	31633195	203	60350										
SORCS1	114815	broad.mit.edu	37	chr10	108447979	108447979	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtgcacggggtccccccttaGatccgtgtccggcgcctgca	13	16	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr10:108447979G>T	uc001kym.2	-	10	1539	c.1531C>A	c.(1531-1533)CTA>ATA	p.L511I	SORCS1_uc001kyl.2_Missense_Mutation_p.L511I|SORCS1_uc009xxs.2_Missense_Mutation_p.L511I|SORCS1_uc001kyn.1_Missense_Mutation_p.L511I|SORCS1_uc001kyo.2_Missense_Mutation_p.L511I	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	511	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TCCCCCCTTAGATCCGTGTCC	0.483													17	35	---	---	---	---	PASS	T	108447979	T	T	108447979	3	4	168	1	0	0	0	0	1	0	0	0	14930	933	33	2	2277	2	SORCS1	10	108447979	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	4546427	108447979	27086768	204	60351										
C10orf81	79949	broad.mit.edu	37	chr10	115534730	115534730	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cccctgccgatgtggaagcaCagaccacaaatgaccaaaag	9	13	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr10:115534730C>A	uc001lat.1	+	9	1469	c.907C>A	c.(907-909)CAG>AAG	p.Q303K	C10orf81_uc001lar.1_Missense_Mutation_p.Q309K|C10orf81_uc009xyc.1_Missense_Mutation_p.Q221K|C10orf81_uc001las.1_Missense_Mutation_p.Q221K|C10orf81_uc001lau.1_Missense_Mutation_p.Q123K	NM_024889	NP_079165	Q5SXH7	CJ081_HUMAN	hypothetical protein LOC79949	303										central_nervous_system(1)	1		Colorectal(252;0.175)		Epithelial(162;0.0181)|all cancers(201;0.0204)		TGTGGAAGCACAGACCACAAA	0.483													19	34	---	---	---	---	PASS	A	115534730	A	A	115534730	3	1	168	1	0	0	0	0	1	0	0	0	1619	479	17	3	959	3	C10orf81	10	115534730	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	7086751	115534730	20000017	205	60352										
OAT	4942	broad.mit.edu	37	chr10	126094046	126094046	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atagggaatgatgtcgaatcCcggcataaatggtccaaaac	10	8	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr10:126094046C>A	uc001lhp.2	-	5	714	c.607G>T	c.(607-609)GGA>TGA	p.G203*	OAT_uc001lhq.2_RNA|OAT_uc001lhr.2_Nonsense_Mutation_p.G65*	NM_000274	NP_000265	P04181	OAT_HUMAN	ornithine aminotransferase precursor	203					cellular amino acid biosynthetic process|visual perception	mitochondrial matrix	ornithine-oxo-acid transaminase activity|protein binding|pyridoxal phosphate binding				0		all_lung(145;0.0271)|Lung NSC(174;0.0436)|Colorectal(57;0.102)|all_neural(114;0.116)			L-Ornithine(DB00129)|Pyridoxal Phosphate(DB00114)	ATGTCGAATCCCGGCATAAAT	0.458													13	34	---	---	---	---	PASS	A	126094046	A	A	126094046	4	1	168	1	0	0	0	0	0	1	0	0	10803	632	22	3	736	3	OAT	10	126094046	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	10559316	126094046	9440701	206	60353										
STIM1	6786	broad.mit.edu	37	chr11	4104625	4104625	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtggctgccctcaacatagaCcccagctggatgggcagtac	12	13	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:4104625C>G	uc001lyv.2	+	10	1939	c.1371C>G	c.(1369-1371)GAC>GAG	p.D457E	STIM1_uc009yef.2_Missense_Mutation_p.D457E|STIM1_uc009yeg.2_Missense_Mutation_p.D284E	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	457	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		TCAACATAGACCCCAGCTGGA	0.572													10	38	---	---	---	---	PASS	G	4104625	G	G	4104625	3	3	168	1	0	0	0	0	1	0	0	0	15282	506	18	4	1409	4	STIM1	11	4104625	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08		4104625	130901891	207	60354										
TRIM68	55128	broad.mit.edu	37	chr11	4621770	4621770	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cggtactcatttcccttcctCagccttatcacccagaatcc	4	17	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:4621770C>T	uc001lzf.1	-	7	1432	c.1194G>A	c.(1192-1194)CTG>CTA	p.L398L	TRIM68_uc001lzg.1_Silent_p.L175L|TRIM68_uc010qyj.1_RNA	NM_018073	NP_060543	Q6AZZ1	TRI68_HUMAN	ring finger protein 137	398	B30.2/SPRY.				protein autoubiquitination|regulation of androgen receptor signaling pathway	Golgi apparatus|nucleolus|perinuclear region of cytoplasm	androgen receptor binding|histone acetyltransferase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;9.49e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		TTCCCTTCCTCAGCCTTATCA	0.557													13	52	---	---	---	---	PASS	T	4621770	T	T	4621770	2	4	168	1	0	0	0	0	0	0	0	1	16538	813	29	2		2	TRIM68	11	4621770	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	517145	4621770	130384746	208	60355										
OR51L1	119682	broad.mit.edu	37	chr11	5021116	5021116	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtgtcagaacaaagcagattCgtctaggaattctccacaag	9	9	3	2	rs139272622	byFrequency	TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:5021116C>T	uc010qyu.1	+	1	904	c.904C>T	c.(904-906)CGT>TGT	p.R302C		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	302	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		AAAGCAGATTCGTCTAGGAAT	0.433													6	47	---	---	---	---	PASS	T	5021116	T	T	5021116	3	4	168	1	0	0	0	0	1	0	0	0	11102	884	31	2	906	2	OR51L1	11	5021116	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	399346	5021116	129985400	209	60356										
HPX	3263	broad.mit.edu	37	chr11	6453010	6453010	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agggtatagcctccctttgtCaggaagacatatacctgggt	11	9	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:6453010C>A	uc001mdg.2	-	9	1051	c.990G>T	c.(988-990)CTG>CTT	p.L330L	HPX_uc001mdf.2_Silent_p.L76L|HPX_uc009yfc.2_RNA	NM_000613	NP_000604	P02790	HEMO_HUMAN	hemopexin precursor	330	Hemopexin-like 5.				cellular iron ion homeostasis|interspecies interaction between organisms	extracellular space	heme transporter activity|metal ion binding|protein binding				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;5.46e-08)|BRCA - Breast invasive adenocarcinoma(625;0.19)		CTCCCTTTGTCAGGAAGACAT	0.522													7	119	---	---	---	---	PASS	A	6453010	A	A	6453010	2	1	168	1	0	0	0	0	0	0	0	1	7346	813	29	2		2	HPX	11	6453010	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	1431894	6453010	128553506	210	60357										
SCUBE2	57758	broad.mit.edu	37	chr11	9111341	9111341	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctgacacagggcgtcggcatGgcagtcatctagcccttggg	14	12	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:9111341G>T	uc001mhh.1	-	2	249	c.169C>A	c.(169-171)CAT>AAT	p.H57N	SCUBE2_uc001mhi.1_Missense_Mutation_p.H57N|SCUBE2_uc001mhj.1_Missense_Mutation_p.H57N	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	57	EGF-like 1; calcium-binding (Potential).					extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		GCGTCGGCATGGCAGTCATCT	0.532													6	91	---	---	---	---	PASS	T	9111341	T	T	9111341	3	4	168	1	0	0	0	0	1	0	0	0	13945	1348	47	3	3005	3	SCUBE2	11	9111341	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	2658331	9111341	125895175	211	60358										
NUCB2	4925	broad.mit.edu	37	chr11	17332502	17332502	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aaagagaaaagaagaagagtCtaaatttgaagaaatgaaga	10	1	1	8			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:17332502C>T	uc001mmw.2	+	7	859	c.614C>T	c.(613-615)TCT>TTT	p.S205F	NUCB2_uc001mms.1_Missense_Mutation_p.S206F|NUCB2_uc001mmt.1_Missense_Mutation_p.S205F|NUCB2_uc001mmv.1_Missense_Mutation_p.S205F|NUCB2_uc009ygz.2_Missense_Mutation_p.S205F	NM_005013	NP_005004	P80303	NUCB2_HUMAN	nucleobindin 2 precursor	205	By similarity.					cytosol|ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|plasma membrane	calcium ion binding|DNA binding				0						GAAGAAGAGTCTAAATTTGAA	0.279													6	65	---	---	---	---	PASS	T	17332502	T	T	17332502	3	4	168	1	0	0	0	0	1	0	0	0	10719	913	32	2	632	2	NUCB2	11	17332502	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	8221161	17332502	117674014	212	60359										
NUCB2	4925	broad.mit.edu	37	chr11	17332538	17332538	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gaagaaaaagcatgaaaatcAccctaaagttaatcacccag	6	9	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:17332538A>C	uc001mmw.2	+	7	895	c.650A>C	c.(649-651)CAC>CCC	p.H217P	NUCB2_uc001mms.1_Missense_Mutation_p.H218P|NUCB2_uc001mmt.1_Missense_Mutation_p.H217P|NUCB2_uc001mmv.1_Missense_Mutation_p.H217P|NUCB2_uc009ygz.2_Missense_Mutation_p.H217P	NM_005013	NP_005004	P80303	NUCB2_HUMAN	nucleobindin 2 precursor	217	By similarity.|Binds to necdin (By similarity).					cytosol|ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|plasma membrane	calcium ion binding|DNA binding				0						CATGAAAATCACCCTAAAGTT	0.294													9	67	---	---	---	---	PASS	C	17332538	C	C	17332538	3	2	168	1	0	0	0	0	1	0	0	0	10719	159	6	5	668	5	NUCB2	11	17332538	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	36	17332538	117673978	213	60360										
QSER1	79832	broad.mit.edu	37	chr11	32975556	32975556	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tataagctcttcagaatcctCaaagcccattgaacttgatg	6	10	3	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:32975556C>G	uc001mty.2	+	5	4211	c.3944C>G	c.(3943-3945)TCA>TGA	p.S1315*	QSER1_uc001mtz.1_Nonsense_Mutation_p.S1076*|QSER1_uc001mua.2_Nonsense_Mutation_p.S820*	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	1315										ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					TCAGAATCCTCAAAGCCCATT	0.318													14	35	---	---	---	---	PASS	G	32975556	G	G	32975556	4	3	168	1	0	0	0	0	0	1	0	0	12882	838	29	2	3954	2	QSER1	11	32975556	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	15643018	32975556	102030960	214	60361										
EHF	26298	broad.mit.edu	37	chr11	34680084	34680084	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttctgcttttcatcagacccGagagggactcacttatggga	10	10	4	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:34680084G>C	uc001mvr.1	+	8	723	c.612G>C	c.(610-612)CCG>CCC	p.P204P	EHF_uc009yke.1_Silent_p.P181P|EHF_uc009ykf.1_Silent_p.P207P	NM_012153	NP_036285	Q9NZC4	EHF_HUMAN	ets homologous factor	204					cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)			CATCAGACCCGAGAGGGACTC	0.468													14	59	---	---	---	---	PASS	C	34680084	C	C	34680084	2	2	168	1	0	0	0	0	0	0	0	1	4981	1045	37	2		2	EHF	11	34680084	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	1704528	34680084	100326432	215	60362										
OR4A15	81328	broad.mit.edu	37	chr11	55135797	55135797	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtcattcttctggtggtaatGgcctatgatcgatacatggc	11	8	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:55135797G>T	uc010rif.1	+	1	438	c.438G>T	c.(436-438)ATG>ATT	p.M146I		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	146	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGGTGGTAATGGCCTATGATC	0.438													22	118	---	---	---	---	PASS	T	55135797	T	T	55135797	3	4	168	1	0	0	0	0	1	0	0	0	11040	1348	47	3	440	3	OR4A15	11	55135797	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	20455713	55135797	79870719	216	60363										
OR4S2	219431	broad.mit.edu	37	chr11	55418439	55418439	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggtctttctcagagcccagaGattgagaaagtttgttttgt	11	6	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:55418439G>T	uc001nhs.1	+	1	60	c.60G>T	c.(58-60)GAG>GAT	p.E20D		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				AGAGCCCAGAGATTGAGAAAG	0.373													17	68	---	---	---	---	PASS	T	55418439	T	T	55418439	3	4	168	1	0	0	0	0	1	0	0	0	11083	933	33	2	62	2	OR4S2	11	55418439	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	282642	55418439	79588077	217	60364										
OR5D13	390142	broad.mit.edu	37	chr11	55541234	55541234	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atgcaattttgttttgcttgCatttttggagtgacagaaac	9	5	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:55541234C>A	uc010ril.1	+	1	321	c.321C>A	c.(319-321)TGC>TGA	p.C107*		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	107	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				GTTTTGCTTGCATTTTTGGAG	0.398													25	93	---	---	---	---	PASS	A	55541234	A	A	55541234	4	1	168	1	0	0	0	0	0	1	0	0	11154	718	25	3	323	3	OR5D13	11	55541234	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	122795	55541234	79465282	218	60365										
OR5L1	219437	broad.mit.edu	37	chr11	55579243	55579243	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tcctagggtgcatggtgcaaTtctacttgttttgcacttgt	10	8	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:55579243T>C	uc001nhw.1	+	1	301	c.301T>C	c.(301-303)TTC>CTC	p.F101L		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	101	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(2)	5		all_epithelial(135;0.208)				CATGGTGCAATTCTACTTGTT	0.453													29	93	---	---	---	---	PASS	C	55579243	C	C	55579243	3	2	168	1	0	0	0	0	1	0	0	0	11170	1493	52	5	303	5	OR5L1	11	55579243	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	38009	55579243	79427273	219	60366										
SERPING1	710	broad.mit.edu	37	chr11	57367679	57367679	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggtccttctgcccaggacctGttactctctgctctgacttg	9	14	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:57367679G>A	uc001nkp.1	+	3	570	c.379G>A	c.(379-381)GTT>ATT	p.V127I	SERPING1_uc001nkq.1_Missense_Mutation_p.V127I|SERPING1_uc010rju.1_Missense_Mutation_p.V75I|SERPING1_uc010rjv.1_Missense_Mutation_p.V132I|SERPING1_uc001nkr.1_Missense_Mutation_p.V127I|SERPING1_uc009ymi.1_Missense_Mutation_p.V127I|SERPING1_uc009ymj.1_Missense_Mutation_p.V127I|SERPING1_uc001nks.1_Intron	NM_000062	NP_000053	P05155	IC1_HUMAN	serpin peptidase inhibitor, clade G, member 1	127			Missing (in HAE; type 2).		blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1						CCCAGGACCTGTTACTCTCTG	0.328									Hereditary_Angioedema				37	126	---	---	---	---	PASS	A	57367679	A	A	57367679	3	1	168	1	0	0	0	0	1	0	0	0	14116	1377	48	3	385	3	SERPING1	11	57367679	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	1788436	57367679	77638837	220	60367										
OR10W1	81341	broad.mit.edu	37	chr11	58034512	58034512	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ataagtgggttgagcagtggGgttcccaatgtgtacaccag	14	7	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:58034512G>T	uc001nmq.1	-	1	1221	c.819C>A	c.(817-819)ACC>ACA	p.T273T		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	273	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				TGAGCAGTGGGGTTCCCAATG	0.537													15	49	---	---	---	---	PASS	T	58034512	T	T	58034512	2	4	168	1	0	0	0	0	0	0	0	1	10921	1219	43	3		3	OR10W1	11	58034512	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	666833	58034512	76972004	221	60368										
OR10W1	81341	broad.mit.edu	37	chr11	58034871	58034871	+	Missense_Mutation	SNP	T	A	A													0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gcagaatggcagagagaagaTgaaggccaccagttgtaagg							TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:58034871T>A	uc001nmq.1	-	1	862	c.460A>T	c.(460-462)ATC>TTC	p.I154F		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	154	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				AGAGAGAAGATGAAGGCCACC	0.488													6	29	---	---	---	---	PASS	A	58034871	A	A	58034871	3	1	168	1	0	0	0	0	1	0	0	0	10921	1464	51	5	461	5	OR10W1	11	58034871	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	359	58034871	76971645	222	60369	1060	2								
OR10W1	81341	broad.mit.edu	37	chr11	58034879	58034879	+	Missense_Mutation	SNP	A	C	C													0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gcagagagaagatgaaggccAccagttgtaaggacaggaac							TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:58034879A>C	uc001nmq.1	-	1	854	c.452T>G	c.(451-453)GTG>GGG	p.V151G		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	151	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				GATGAAGGCCACCAGTTGTAA	0.507													11	24	---	---	---	---	PASS	C	58034879	C	C	58034879	3	2	168	1	0	0	0	0	1	0	0	0	10921	159	6	5	469	5	OR10W1	11	58034879	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	8	58034879	76971637	223	60370	1060	2								
OR4D9	390199	broad.mit.edu	37	chr11	59282787	59282787	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aagcccctgcactatatgacCatcatgagtagggggcgatg	12	10	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:59282787C>G	uc010rkv.1	+	1	402	c.402C>G	c.(400-402)ACC>ACG	p.T134T		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	134	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACTATATGACCATCATGAGTA	0.537													10	42	---	---	---	---	PASS	G	59282787	G	G	59282787	2	3	168	1	0	0	0	0	0	0	0	1	11059	581	21	4		4	OR4D9	11	59282787	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	1247908	59282787	75723729	224	60371										
TCN1	6947	broad.mit.edu	37	chr11	59623397	59623397	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tccaagaaggtctttcccatCagggcaggtaagacctgggc	12	11	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:59623397C>A	uc001noj.2	-	6	980	c.882G>T	c.(880-882)CTG>CTT	p.L294L		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	294					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TCTTTCCCATCAGGGCAGGTA	0.448													11	67	---	---	---	---	PASS	A	59623397	A	A	59623397	2	1	168	1	0	0	0	0	0	0	0	1	15703	813	29	2		2	TCN1	11	59623397	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	340610	59623397	75383119	225	60372										
FERMT3	83706	broad.mit.edu	37	chr11	63978760	63978760	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	actccaggcgtggcacctgcActgttccgggggatgccagc	14	14	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:63978760A>G	uc001nyl.2	+	5	677	c.528A>G	c.(526-528)GCA>GCG	p.A176A	FERMT3_uc001nym.2_Silent_p.A176A	NM_178443	NP_848537	Q86UX7	URP2_HUMAN	fermitin family homolog 3 long form	176					integrin activation|leukocyte cell-cell adhesion|platelet aggregation|regulation of cell-cell adhesion mediated by integrin	cell junction|cell projection|podosome	integrin binding			ovary(1)	1						TGGCACCTGCACTGTTCCGGG	0.716													3	11	---	---	---	---	PASS	G	63978760	G	G	63978760	2	3	168	1	0	0	0	0	0	0	0	1	5819	146	6	5		5	FERMT3	11	63978760	Silent	SNP	A	TCGA-66-2791-01A-01D-0983-08	4355363	63978760	71027756	226	60373										
MRGPRD	116512	broad.mit.edu	37	chr11	68748108	68748108	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cgctgggtgctgatggccgtCagcaggctcaggcccactgt	15	13	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:68748108C>T	uc010rqf.1	-	1	348	c.348G>A	c.(346-348)CTG>CTA	p.L116L		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	116	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TGATGGCCGTCAGCAGGCTCA	0.587													7	20	---	---	---	---	PASS	T	68748108	T	T	68748108	2	4	168	1	0	0	0	0	0	0	0	1	9763	813	29	2		2	MRGPRD	11	68748108	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	4769348	68748108	66258408	227	60374										
MRGPRD	116512	broad.mit.edu	37	chr11	68748447	68748447	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtcccactgctattcaaagtCtggttcatccctacgagagg	9	12	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:68748447C>G	uc010rqf.1	-	1	9	c.9G>C	c.(7-9)CAG>CAC	p.Q3H		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	3	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TATTCAAAGTCTGGTTCATCC	0.557													9	61	---	---	---	---	PASS	G	68748447	G	G	68748447	3	3	168	1	0	0	0	0	1	0	0	0	9763	912	32	2	959	2	MRGPRD	11	68748447	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	339	68748447	66258069	228	60375										
P2RY2	5029	broad.mit.edu	37	chr11	72945520	72945520	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggcccttcagcacggtgctcTgcaagctggtgcgcttcctc	12	15	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:72945520T>A	uc001otj.2	+	3	649	c.316T>A	c.(316-318)TGC>AGC	p.C106S	P2RY2_uc001otk.2_Missense_Mutation_p.C106S|P2RY2_uc001otl.2_Missense_Mutation_p.C106S	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	106	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(1)|skin(1)	4					Suramin(DB04786)	CACGGTGCTCTGCAAGCTGGT	0.602													14	50	---	---	---	---	PASS	A	72945520	A	A	72945520	3	1	168	1	0	0	0	0	1	0	0	0	11352	1580	55	5	318	5	P2RY2	11	72945520	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	4197073	72945520	62060996	229	60376										
MED17	9440	broad.mit.edu	37	chr11	93545108	93545108	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	caaaaagtgatgttttacaaGataacaaatggagtcatctt	7	5	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:93545108G>T	uc001pem.3	+	12	2109	c.1834G>T	c.(1834-1836)GAT>TAT	p.D612Y		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	612					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TGTTTTACAAGATAACAAATG	0.383													17	73	---	---	---	---	PASS	T	93545108	T	T	93545108	3	4	168	1	0	0	0	0	1	0	0	0	9435	942	33	2	1880	2	MED17	11	93545108	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	20599588	93545108	41461408	230	60377										
DLAT	1737	broad.mit.edu	37	chr11	111908010	111908010	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atttaaggttttgaagtacaGgaagaaggttatctggcaaa	11	3	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:111908010G>T	uc001pmo.2	+	6	1460	c.801G>T	c.(799-801)CAG>CAT	p.Q267H	DLAT_uc009yyk.1_Intron|DLAT_uc010rwr.1_Missense_Mutation_p.Q140H	NM_001931	NP_001922	P10515	ODP2_HUMAN	dihydrolipoamide S-acetyltransferase precursor	267	Lipoyl-binding 2.				glycolysis|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial pyruvate dehydrogenase complex	dihydrolipoyllysine-residue acetyltransferase activity|protein binding				0		all_cancers(61;4.53e-11)|all_epithelial(67;2.76e-06)|Melanoma(852;9.42e-06)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0512)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)		Epithelial(105;4.87e-07)|BRCA - Breast invasive adenocarcinoma(274;6.83e-07)|all cancers(92;9.63e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0557)	NADH(DB00157)	TTGAAGTACAGGAAGAAGGTT	0.383													5	62	---	---	---	---	PASS	T	111908010	T	T	111908010	3	4	168	1	0	0	0	0	1	0	0	0	4549	991	35	3	823	3	DLAT	11	111908010	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	18362902	111908010	23098506	231	60378										
TTC12	54970	broad.mit.edu	37	chr11	113222836	113222836	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tcctcggctctgtgccagtgCattgccatcatgggaaacct	10	13	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:113222836C>T	uc001pnu.2	+	16	1458	c.1353C>T	c.(1351-1353)TGC>TGT	p.C451C	TTC12_uc001pnv.2_Silent_p.C457C|TTC12_uc001pnw.2_RNA|TTC12_uc001pnx.2_Silent_p.C301C	NM_017868	NP_060338	Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12	451							binding			pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4		all_cancers(61;2.73e-16)|all_epithelial(67;8.64e-10)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.183)|Renal(330;0.187)		BRCA - Breast invasive adenocarcinoma(274;5.3e-06)|Epithelial(105;8.37e-05)|all cancers(92;0.000694)		TGTGCCAGTGCATTGCCATCA	0.542													15	38	---	---	---	---	PASS	T	113222836	T	T	113222836	2	4	168	1	0	0	0	0	0	0	0	1	16676	718	25	3		3	TTC12	11	113222836	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	1314826	113222836	21783680	232	60379										
FOXRED1	55572	broad.mit.edu	37	chr11	126146370	126146370	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	accagtggagcctattttcgCcgggaaggattaggtagcaa	13	8	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:126146370C>A	uc001qdi.2	+	9	1100	c.1053C>A	c.(1051-1053)CGC>CGA	p.R351R	FOXRED1_uc010sbn.1_Silent_p.R181R|FOXRED1_uc010sbo.1_RNA|FOXRED1_uc010sbp.1_Silent_p.R164R|FOXRED1_uc010sbq.1_Silent_p.R218R|FOXRED1_uc001qdj.2_Silent_p.R140R|FOXRED1_uc010sbr.1_Silent_p.R337R|FOXRED1_uc001qdk.2_Silent_p.R140R	NM_017547	NP_060017	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing	351						integral to membrane|mitochondrion	oxidoreductase activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)		CCTATTTTCGCCGGGAAGGAT	0.552													18	114	---	---	---	---	PASS	A	126146370	A	A	126146370	2	1	168	1	0	0	0	0	0	0	0	1	6033	726	26	3		3	FOXRED1	11	126146370	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	12923534	126146370	8860146	233	60380										
NFRKB	4798	broad.mit.edu	37	chr11	129762615	129762615	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cgtgttactactcacatcctCcagaaggtcctcgggcagac	9	14	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr11:129762615C>A	uc001qfi.2	-	3	331	c.130G>T	c.(130-132)GAG>TAG	p.E44*	NFRKB_uc001qfg.2_Nonsense_Mutation_p.E57*|NFRKB_uc001qfh.2_Nonsense_Mutation_p.E67*|NFRKB_uc010sbw.1_Nonsense_Mutation_p.E44*	NM_001143835	NP_001137307	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein	44					DNA recombination|DNA repair|inflammatory response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Ino80 complex	DNA binding|protease binding			ovary(3)	3	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0167)|Lung(977;0.171)|LUSC - Lung squamous cell carcinoma(976;0.184)		CTCACATCCTCCAGAAGGTCC	0.522													12	71	---	---	---	---	PASS	A	129762615	A	A	129762615	4	1	168	1	0	0	0	0	0	1	0	0	10384	864	30	2	3905	2	NFRKB	11	129762615	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	3616245	129762615	5243901	234	60381										
KCNA1	3736	broad.mit.edu	37	chr12	5021036	5021036	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gagtaccccgagagctcgggGcccgccagggtcatcgccat	14	15	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:5021036G>T	uc001qnh.2	+	2	1597	c.492G>T	c.(490-492)GGG>GGT	p.G164G		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	164					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AGAGCTCGGGGCCCGCCAGGG	0.622													9	16	---	---	---	---	PASS	T	5021036	T	T	5021036	2	4	168	1	0	0	0	0	0	0	0	1	8001	1190	42	3		3	KCNA1	12	5021036	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08		5021036	128830859	235	60382										
KCNA5	3741	broad.mit.edu	37	chr12	5153731	5153731	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cgcagctgggcaccctggcgCagttccccaacacactcctg	10	18	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:5153731C>G	uc001qni.2	+	1	647	c.418C>G	c.(418-420)CAG>GAG	p.Q140E		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	140						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						CACCCTGGCGCAGTTCCCCAA	0.667													7	35	---	---	---	---	PASS	G	5153731	G	G	5153731	3	3	168	1	0	0	0	0	1	0	0	0	8006	711	25	4	420	4	KCNA5	12	5153731	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	132695	5153731	128698164	236	60383										
TAS2R8	50836	broad.mit.edu	37	chr12	10958656	10958656	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atacagctaagatttcatatCatgcaggcaatttttctaca	5	8	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:10958656C>T	uc010shh.1	-	1	924	c.924G>A	c.(922-924)ATG>ATA	p.M308I		NM_023918	NP_076407	Q9NYW2	TA2R8_HUMAN	taste receptor, type 2, member 8	308	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			ovary(2)	2						GATTTCATATCATGCAGGCAA	0.303													8	22	---	---	---	---	PASS	T	10958656	T	T	10958656	3	4	168	1	0	0	0	0	1	0	0	0	15584	826	29	2	8	2	TAS2R8	12	10958656	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	5804925	10958656	122893239	237	60384										
TAS2R20	259295	broad.mit.edu	37	chr12	11150207	11150207	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gatgctgaaatgattggttaCtgcccaggcattagaaataa	10	6	0	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:11150207C>T	uc001qzm.2	-	1	268	c.268G>A	c.(268-270)GTA>ATA	p.V90I	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176889	NP_795370	P59543	T2R20_HUMAN	taste receptor, type 2, member 20	90	Helical; Name=3; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity				0						TGATTGGTTACTGCCCAGGCA	0.328													18	64	---	---	---	---	PASS	T	11150207	T	T	11150207	3	4	168	1	0	0	0	0	1	0	0	0	15568	565	20	3	665	3	TAS2R20	12	11150207	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	191551	11150207	122701688	238	60385										
SLCO1C1	53919	broad.mit.edu	37	chr12	20893149	20893149	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctgcacttgtgtgggaattgCagcttctaaatccggaaatt	10	8	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:20893149C>A	uc001rej.3	+	13	1935	c.1580C>A	c.(1579-1581)GCA>GAA	p.A527E	SLCO1C1_uc010sii.1_Missense_Mutation_p.A527E|SLCO1C1_uc010sij.1_Missense_Mutation_p.A478E|SLCO1C1_uc009zip.2_Missense_Mutation_p.A361E|SLCO1C1_uc001rei.2_Missense_Mutation_p.A527E|SLCO1C1_uc010sik.1_Missense_Mutation_p.A409E	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	527	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					GTGGGAATTGCAGCTTCTAAA	0.353													6	54	---	---	---	---	PASS	A	20893149	A	A	20893149	3	1	168	1	0	0	0	0	1	0	0	0	14725	710	25	3	1622	3	SLCO1C1	12	20893149	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	9742942	20893149	112958746	239	60386										
ST8SIA1	6489	broad.mit.edu	37	chr12	22354570	22354570	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttatgaagataccagagttgGagaaattcctcgggcatggc	12	7	0	4	rs113763889		TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:22354570G>T	uc001rfo.3	-	5	1469	c.987C>A	c.(985-987)CTC>CTA	p.L329L	ST8SIA1_uc009zix.2_Silent_p.L186L	NM_003034	NP_003025	Q92185	SIA8A_HUMAN	alpha-2,8-sialyltransferase 1	329	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(3)	3						ACCAGAGTTGGAGAAATTCCT	0.493													5	110	---	---	---	---	PASS	T	22354570	T	T	22354570	2	4	168	1	0	0	0	0	0	0	0	1	15230	1161	41	2		2	ST8SIA1	12	22354570	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	1461421	22354570	111497325	240	60387										
C12orf35	55196	broad.mit.edu	37	chr12	32145370	32145370	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gcagatggatttgagatgctAcaaaacccagtaaaagattc	9	7	0	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:32145370A>G	uc001rks.2	+	6	5559	c.5145A>G	c.(5143-5145)CTA>CTG	p.L1715L	C12orf35_uc001rkt.2_RNA	NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	1715										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			TTGAGATGCTACAAAACCCAG	0.343													55	157	---	---	---	---	PASS	G	32145370	G	G	32145370	2	3	168	1	0	0	0	0	0	0	0	1	1682	378	14	5		5	C12orf35	12	32145370	Silent	SNP	A	TCGA-66-2791-01A-01D-0983-08	9790800	32145370	101706525	241	60388										
NCKAP5L	57701	broad.mit.edu	37	chr12	50195633	50195633	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aggagcgcagatgcctacctGagggagcgagcctgtcgtga	16	10	0	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:50195633G>T	uc009zlk.2	-	6	551	c.349C>A	c.(349-351)CAG>AAG	p.Q117K		NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	113	Pro-rich.									central_nervous_system(1)	1						ATGCCTACCTGAGGGAGCGAG	0.582													4	47	---	---	---	---	PASS	T	50195633	T	T	50195633	3	4	168	1	0	0	0	0	1	0	0	0	10224	1299	45	2	3687	2	NCKAP5L	12	50195633	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	18050263	50195633	83656262	242	60389										
PAN2	9924	broad.mit.edu	37	chr12	56713650	56713650	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccctttggtcttggttacctCattaagggtgacaaactcag	9	10	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:56713650C>T	uc001skx.2	-	21	3329	c.2956G>A	c.(2956-2958)GAG>AAG	p.E986K	PAN2_uc001skw.2_Missense_Mutation_p.E134K|PAN2_uc001skz.2_Missense_Mutation_p.E985K|PAN2_uc001sky.2_Missense_Mutation_p.E982K	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	986	Exonuclease.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						TTGGTTACCTCATTAAGGGTG	0.448													10	40	---	---	---	---	PASS	T	56713650	T	T	56713650	3	4	168	1	0	0	0	0	1	0	0	0	11414	835	29	2	676	2	PAN2	12	56713650	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	6518017	56713650	77138245	243	60390										
LRRC10	376132	broad.mit.edu	37	chr12	70004494	70004494	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acacgtgcagggggaagcggCgtaactggctcccactcaga	14	12	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:70004494C>A	uc001svc.2	-	1	449	c.125G>T	c.(124-126)CGC>CTC	p.R42L		NM_201550	NP_963844	Q5BKY1	LRC10_HUMAN	leucine rich repeat containing 10	42						nucleus					0	all_cancers(2;2.83e-105)|Breast(13;9.83e-07)|Esophageal squamous(21;0.187)		Epithelial(6;1.98e-18)|GBM - Glioblastoma multiforme(2;7.43e-12)|Lung(24;0.000185)|OV - Ovarian serous cystadenocarcinoma(12;0.00126)|STAD - Stomach adenocarcinoma(21;0.00501)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			GGGGAAGCGGCGTAACTGGCT	0.607													3	27	---	---	---	---	PASS	A	70004494	A	A	70004494	3	1	168	1	0	0	0	0	1	0	0	0	8967	768	27	1	712	1	LRRC10	12	70004494	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	13290844	70004494	63847401	244	60391										
NAV3	89795	broad.mit.edu	37	chr12	78522538	78522538	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aagagggcaaagagtggttgCgttctcattctactggaggg	15	6	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:78522538C>T	uc001syp.2	+	18	4506	c.4333C>T	c.(4333-4335)CGT>TGT	p.R1445C	NAV3_uc001syo.2_Missense_Mutation_p.R1445C|NAV3_uc010sub.1_Missense_Mutation_p.R931C|NAV3_uc009zsf.2_Missense_Mutation_p.R276C	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1445	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AGAGTGGTTGCGTTCTCATTC	0.498										HNSCC(70;0.22)			20	55	---	---	---	---	PASS	T	78522538	T	T	78522538	3	4	168	1	0	0	0	0	1	0	0	0	10185	768	27	1	4403	1	NAV3	12	78522538	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	8518044	78522538	55329357	245	60392										
HAL	3034	broad.mit.edu	37	chr12	96387243	96387243	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acttacctgaagaatgtgagCgtactaagttgacctgaagc	10	8	0	5			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:96387243C>A	uc001tem.1	-	8	872	c.575G>T	c.(574-576)CGC>CTC	p.R192L	HAL_uc009zti.1_RNA|HAL_uc010suw.1_5'UTR|HAL_uc010sux.1_Missense_Mutation_p.R192L	NM_002108	NP_002099	P42357	HUTH_HUMAN	histidine ammonia-lyase	192					biosynthetic process|histidine catabolic process	cytosol	histidine ammonia-lyase activity			ovary(2)|skin(1)	3					L-Histidine(DB00117)	AGAATGTGAGCGTACTAAGTT	0.428													14	55	---	---	---	---	PASS	A	96387243	A	A	96387243	3	1	168	1	0	0	0	0	1	0	0	0	6947	768	27	1	1454	1	HAL	12	96387243	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	17864705	96387243	37464652	246	60393										
ASCL4	121549	broad.mit.edu	37	chr12	108169032	108169032	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cggcggaacggctggccttgCcatactcgctgcgcaccgcg	14	16	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:108169032C>A	uc001tmr.2	+	1	871	c.40C>A	c.(40-42)CCA>ACA	p.P14T		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	13					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						GCTGGCCTTGCCATACTCGCT	0.637													14	40	---	---	---	---	PASS	A	108169032	A	A	108169032	3	1	168	1	0	0	0	0	1	0	0	0	1036	739	26	3	42	3	ASCL4	12	108169032	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	11781789	108169032	25682863	247	60394										
CORO1C	23603	broad.mit.edu	37	chr12	109052593	109052593	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgcagatcagactgccattcCggttccagctcacattgtaa	8	12	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:109052593C>T	uc001tnj.2	-	5	647	c.551G>A	c.(550-552)CGG>CAG	p.R184Q	CORO1C_uc009zva.2_Missense_Mutation_p.R237Q|CORO1C_uc010sxf.1_Missense_Mutation_p.R147Q	NM_014325	NP_055140	Q9ULV4	COR1C_HUMAN	coronin, actin binding protein, 1C isoform 1	184	WD 3.				actin cytoskeleton organization|phagocytosis|signal transduction	actin cytoskeleton	actin filament binding			skin(3)	3						ACTGCCATTCCGGTTCCAGCT	0.428													16	51	---	---	---	---	PASS	T	109052593	T	T	109052593	3	4	168	1	0	0	0	0	1	0	0	0	3755	652	23	1	901	1	CORO1C	12	109052593	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	883561	109052593	24799302	248	60395										
ACACB	32	broad.mit.edu	37	chr12	109698427	109698427	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atagatgccaccatcaacccGctgtgcatagaaatgtatgc	8	11	1	2	rs61753862		TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:109698427G>T	uc001tob.2	+	48	6758	c.6639G>T	c.(6637-6639)CCG>CCT	p.P2213P	ACACB_uc001toc.2_Silent_p.P2213P|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Silent_p.P879P	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	2213	Carboxyltransferase.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CCATCAACCCGCTGTGCATAG	0.542													21	90	---	---	---	---	PASS	T	109698427	T	T	109698427	2	4	168	1	0	0	0	0	0	0	0	1	107	1074	38	1		1	ACACB	12	109698427	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	645834	109698427	24153468	249	60396										
C12orf51	283450	broad.mit.edu	37	chr12	112694272	112694272	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttccagcagcccatggggcaGgaatctttaaaccagtgaga	11	10	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:112694272G>T	uc009zwc.2	-	14	1901	c.1883C>A	c.(1882-1884)CCT>CAT	p.P628H	C12orf51_uc010syk.1_Missense_Mutation_p.P451H|C12orf51_uc001tts.2_Missense_Mutation_p.P451H|C12orf51_uc001ttt.3_Missense_Mutation_p.P449H	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CCATGGGGCAGGAATCTTTAA	0.448													4	30	---	---	---	---	PASS	T	112694272	T	T	112694272	3	4	168	1	0	0	0	0	1	0	0	0	1696	1000	35	3	10331	3	C12orf51	12	112694272	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	2995845	112694272	21157623	250	60397										
MSI1	4440	broad.mit.edu	37	chr12	120789151	120789151	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aatccgagcgactgacctgtAagctcggggaggactggggc	16	10	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:120789151A>G	uc001tye.1	-	11	850	c.786T>C	c.(784-786)CTT>CTC	p.L262L		NM_002442	NP_002433	O43347	MSI1H_HUMAN	musashi 1	262					nervous system development	cytoplasm|nucleus	nucleotide binding			central_nervous_system(2)|breast(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ACTGACCTGTAAGCTCGGGGA	0.557													11	10	---	---	---	---	PASS	G	120789151	G	G	120789151	2	3	168	1	0	0	0	0	0	0	0	1	9875	349	13	5		5	MSI1	12	120789151	Silent	SNP	A	TCGA-66-2791-01A-01D-0983-08	8094879	120789151	13062744	251	60398										
TCTN2	79867	broad.mit.edu	37	chr12	124163813	124163813	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atttaacagctggagcctgtGatgttcgctgctgctgtgac	12	9	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:124163813G>A	uc001ufp.2	+	5	669	c.541G>A	c.(541-543)GAT>AAT	p.D181N	TCTN2_uc009zya.2_Missense_Mutation_p.D180N	NM_024809	NP_079085	Q96GX1	TECT2_HUMAN	tectonic family member 2 isoform 1	181	Extracellular (Potential).|Cys-rich.				cilium assembly|smoothened signaling pathway	integral to membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000163)|Epithelial(86;0.000502)|all cancers(50;0.00451)		TGGAGCCTGTGATGTTCGCTG	0.453													24	56	---	---	---	---	PASS	A	124163813	A	A	124163813	3	1	168	1	0	0	0	0	1	0	0	0	15720	1290	45	2	559	2	TCTN2	12	124163813	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	3374662	124163813	9688082	252	60399										
DNAH10	196385	broad.mit.edu	37	chr12	124257441	124257441	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgctctgtacccctcttcccGaggagttcctggaccaaaac	8	15	2	0	rs142898915	by1000genomes	TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr12:124257441G>T	uc001uft.3	+	4	299	c.274G>T	c.(274-276)GAG>TAG	p.E92*		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	92	Stem (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)		CCCTCTTCCCGAGGAGTTCCT	0.468													5	162	---	---	---	---	PASS	T	124257441	T	T	124257441	4	4	168	1	0	0	0	0	0	1	0	0	4598	1059	37	2	288	2	DNAH10	12	124257441	Nonsense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	93628	124257441	9594454	253	60400										
ZDHHC20	253832	broad.mit.edu	37	chr13	21976986	21976986	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tcaggtttaatcagctgacaTttttcacaatatctgatagc	6	8	4	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:21976986T>C	uc001uob.2	-	5	503	c.390A>G	c.(388-390)AAA>AAG	p.K130K	ZDHHC20_uc001uod.2_RNA|ZDHHC20_uc001uoc.2_RNA|ZDHHC20_uc001uoe.2_RNA|ZDHHC20_uc010tcs.1_Silent_p.K67K	NM_153251	NP_694983	Q5W0Z9	ZDH20_HUMAN	zinc finger, DHHC-type containing 20	130	DHHC-type.					integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1		all_cancers(29;8.1e-16)|all_epithelial(30;3.63e-14)|all_lung(29;2.04e-13)|Lung SC(185;0.0367)		all cancers(112;0.000268)|Epithelial(112;0.000735)|OV - Ovarian serous cystadenocarcinoma(117;0.00517)|Lung(94;0.171)		TCAGCTGACATTTTTCACAAT	0.358													6	19	---	---	---	---	PASS	C	21976986	C	C	21976986	2	2	168	1	0	0	0	0	0	0	0	1	17608	1490	52	5		5	ZDHHC20	13	21976986	Silent	SNP	T	TCGA-66-2791-01A-01D-0983-08		21976986	93192892	254	60401										
SACS	26278	broad.mit.edu	37	chr13	23906130	23906130	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtttttgaggaaagagcattAtcaacttagtgtgaaatcca	9	5	1	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:23906130A>G	uc001uon.2	-	10	12474	c.11885T>C	c.(11884-11886)ATA>ACA	p.I3962T	SACS_uc001uoo.2_Missense_Mutation_p.I3815T|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3962					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AAAGAGCATTATCAACTTAGT	0.383													31	69	---	---	---	---	PASS	G	23906130	G	G	23906130	3	3	168	1	0	0	0	0	1	0	0	0	13804	449	16	5	1858	5	SACS	13	23906130	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	1929144	23906130	91263748	255	60402										
N4BP2L2	10443	broad.mit.edu	37	chr13	33110164	33110164	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tacagtcagtatattcattgTtctgatcaaaagtcatgcaa	6	7	5	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:33110164T>C	uc001uuk.3	-	2	1179	c.1001A>G	c.(1000-1002)AAC>AGC	p.N334S	N4BP2L2_uc010abe.1_Intron|N4BP2L2_uc010tdz.1_Intron|N4BP2L2_uc001uul.1_Missense_Mutation_p.N334S|N4BP2L2_uc001uum.2_5'Flank	NM_014887	NP_055702	Q92802	N42L2_HUMAN	phosphonoformate immuno-associated protein 5	334											0		Lung SC(185;0.0262)		all cancers(112;9.5e-07)|Epithelial(112;5.07e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00196)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.243)		ATATTCATTGTTCTGATCAAA	0.358													10	30	---	---	---	---	PASS	C	33110164	C	C	33110164	3	2	168	1	0	0	0	0	1	0	0	0	10112	1725	60	5	2631	5	N4BP2L2	13	33110164	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	9204034	33110164	82059714	256	60403										
CSNK1A1L	122011	broad.mit.edu	37	chr13	37679333	37679333	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggagccagacccgatcttccGcaccagtttgtatttccctc	8	15	1	1	rs56158728	by1000genomes	TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:37679333G>C	uc001uwm.1	-	1	469	c.61C>G	c.(61-63)CGG>GGG	p.R21G		NM_145203	NP_660204	Q8N752	KC1AL_HUMAN	casein kinase 1, alpha 1-like	21	Protein kinase.		R -> W.		Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity	p.R21Q(1)		large_intestine(1)	1		Lung NSC(96;7.97e-05)|Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.109)		all cancers(112;3.58e-07)|Epithelial(112;1.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00695)|BRCA - Breast invasive adenocarcinoma(63;0.0117)|GBM - Glioblastoma multiforme(144;0.0407)		CCGATCTTCCGCACCAGTTTG	0.557													17	31	---	---	---	---	PASS	C	37679333	C	C	37679333	3	2	168	1	0	0	0	0	1	0	0	0	3951	1086	38	4	956	4	CSNK1A1L	13	37679333	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	4569169	37679333	77490545	257	60404										
UFM1	51569	broad.mit.edu	37	chr13	38934882	38934882	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aaacatggttcagaactgcgGattattcctagagatcgtgt	10	7	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:38934882G>A	uc001uwu.2	+	6	340	c.225G>A	c.(223-225)CGG>CGA	p.R75R	UFM1_uc010aca.2_3'UTR	NM_016617	NP_057701	P61960	UFM1_HUMAN	ubiquitin-fold modifier 1 precursor	75					protein ufmylation	cytoplasm|nucleus	protein binding				0		Lung NSC(96;3.18e-06)|Prostate(109;0.00314)|Breast(139;0.0199)|Lung SC(185;0.0743)		all cancers(112;1.05e-08)|Epithelial(112;1.44e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000855)|BRCA - Breast invasive adenocarcinoma(63;0.00342)|GBM - Glioblastoma multiforme(144;0.0132)		CAGAACTGCGGATTATTCCTA	0.284													7	28	---	---	---	---	PASS	A	38934882	A	A	38934882	2	1	168	1	0	0	0	0	0	0	0	1	16933	1161	41	2		2	UFM1	13	38934882	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	1255549	38934882	76234996	258	60405										
PCDH20	64881	broad.mit.edu	37	chr13	61986832	61986832	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gcccttcaccatccaggtagCagttaaccttgtatttacct	6	13	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:61986832C>A	uc001vid.3	-	2	1764	c.1400G>T	c.(1399-1401)TGC>TTC	p.C467F	PCDH20_uc010thj.1_Missense_Mutation_p.C467F	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	440	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		ATCCAGGTAGCAGTTAACCTT	0.403													6	45	---	---	---	---	PASS	A	61986832	A	A	61986832	3	1	168	1	0	0	0	0	1	0	0	0	11515	710	25	3	1459	3	PCDH20	13	61986832	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	23051950	61986832	53183046	259	60406										
DACH1	1602	broad.mit.edu	37	chr13	72014822	72014822	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agttttcaaatacagtcttcCatctagaaatgaacagtgaa	6	7	3	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:72014822C>A	uc010thn.1	-	12	2509	c.2086G>T	c.(2086-2088)GGA>TGA	p.G696*	DACH1_uc010tho.1_Nonsense_Mutation_p.G548*|DACH1_uc010thp.1_Nonsense_Mutation_p.G494*	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	748					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)		TACAGTCTTCCATCTAGAAAT	0.313													4	55	---	---	---	---	PASS	A	72014822	A	A	72014822	4	1	168	1	0	0	0	0	0	1	0	0	4220	603	21	3	38	3	DACH1	13	72014822	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	10027990	72014822	43155056	260	60407										
EDNRB	1910	broad.mit.edu	37	chr13	78492262	78492262	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gggatgtcaatgacgatgtgCagcaggtctcccagagccaa	13	10	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:78492262C>A	uc001vko.2	-	1	705	c.447G>T	c.(445-447)CTG>CTT	p.L149L	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Silent_p.L149L|EDNRB_uc010aez.1_Silent_p.L149L|EDNRB_uc001vkp.1_Silent_p.L232L|EDNRB_uc010afa.1_Silent_p.L149L	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	149	Helical; Name=2; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	TGACGATGTGCAGCAGGTCTC	0.517													32	89	---	---	---	---	PASS	A	78492262	A	A	78492262	2	1	168	1	0	0	0	0	0	0	0	1	4920	697	25	3		3	EDNRB	13	78492262	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	6477440	78492262	36677616	261	60408										
CLDN10	9071	broad.mit.edu	37	chr13	96086145	96086145	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tcggagggtttggagctctcGttgctgctaccacgtccaat	12	11	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:96086145G>A	uc001vmg.2	+	1	293	c.58G>A	c.(58-60)GTT>ATT	p.V20I	CLDN10_uc010tii.1_Missense_Mutation_p.V20I	NM_182848	NP_878268	P78369	CLD10_HUMAN	claudin 10 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.18)			TGGAGCTCTCGTTGCTGCTAC	0.592													14	23	---	---	---	---	PASS	A	96086145	A	A	96086145	3	1	168	1	0	0	0	0	1	0	0	0	3472	1145	40	1	60	1	CLDN10	13	96086145	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	17593883	96086145	19083733	262	60409										
DOCK9	23348	broad.mit.edu	37	chr13	99452707	99452707	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tacatgacagggatgcgcttCttcacataagggaagcagtg	12	8	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:99452707C>G	uc001vnt.2	-	52	5851	c.5796G>C	c.(5794-5796)AAG>AAC	p.K1932N	DOCK9_uc001vnw.2_Missense_Mutation_p.K1931N|DOCK9_uc001vnq.2_Missense_Mutation_p.K479N|DOCK9_uc001vnr.2_Missense_Mutation_p.K561N|DOCK9_uc010tin.1_Missense_Mutation_p.K550N|DOCK9_uc001vns.2_Missense_Mutation_p.K467N|DOCK9_uc010tio.1_Missense_Mutation_p.K587N|DOCK9_uc010tip.1_Missense_Mutation_p.K628N	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1932	DHR-2.				blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					GGATGCGCTTCTTCACATAAG	0.507													8	33	---	---	---	---	PASS	G	99452707	G	G	99452707	3	3	168	1	0	0	0	0	1	0	0	0	4694	912	32	2	433	2	DOCK9	13	99452707	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	3366562	99452707	15717171	263	60410										
NALCN	259232	broad.mit.edu	37	chr13	101753194	101753194	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tccagcaaaaagctgaactcCaaagcttgcaaaaacgagca	7	11	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:101753194C>T	uc001vox.1	-	27	3292	c.3103G>A	c.(3103-3105)GGA>AGA	p.G1035R		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1035	Helical; Name=S5 of repeat III; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGCTGAACTCCAAAGCTTGCA	0.318													13	37	---	---	---	---	PASS	T	101753194	T	T	101753194	3	4	168	1	0	0	0	0	1	0	0	0	10148	603	21	3	2185	3	NALCN	13	101753194	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2300487	101753194	13416684	264	60411										
ERCC5	2073	broad.mit.edu	37	chr13	103528079	103528079	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aaaaccagtgcttcagattcGcagaactcagtgaaggaagc	10	9	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:103528079G>T	uc001vpw.2	+	15	3830	c.3387G>T	c.(3385-3387)TCG>TCT	p.S1129S		NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	1129					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					CTTCAGATTCGCAGAACTCAG	0.468			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				22	33	---	---	---	---	PASS	T	103528079	T	T	103528079	2	4	168	1	0	0	0	0	0	0	0	1	5216	1074	38	1		1	ERCC5	13	103528079	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	1774885	103528079	11641799	265	60412										
FAM155A	728215	broad.mit.edu	37	chr13	108518186	108518186	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtggtcatctcgccgccttcCttgagcaccacatccagact	8	16	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:108518186C>A	uc001vql.2	-	1	1275	c.759G>T	c.(757-759)AAG>AAT	p.K253N		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	253						integral to membrane	binding			skin(1)	1						CGCCGCCTTCCTTGAGCACCA	0.498													7	154	---	---	---	---	PASS	A	108518186	A	A	108518186	3	1	168	1	0	0	0	0	1	0	0	0	5465	680	24	3	629	3	FAM155A	13	108518186	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	4990107	108518186	6651692	266	60413										
LIG4	3981	broad.mit.edu	37	chr13	108861558	108861558	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tggattttgtactatataacCaccaaattctgcaattctgt	5	8	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr13:108861558C>A	uc001vqn.2	-	2	2332	c.2059G>T	c.(2059-2061)GGT>TGT	p.G687C	LIG4_uc001vqo.2_Missense_Mutation_p.G687C|LIG4_uc010agg.1_Missense_Mutation_p.G620C|LIG4_uc010agf.2_Missense_Mutation_p.G687C|LIG4_uc001vqp.2_Missense_Mutation_p.G687C	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	687	BRCT 1.				cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					ACTATATAACCACCAAATTCT	0.368								NHEJ					25	34	---	---	---	---	PASS	A	108861558	A	A	108861558	3	1	168	1	0	0	0	0	1	0	0	0	8783	594	21	3	680	3	LIG4	13	108861558	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	343372	108861558	6308320	267	60414										
OR4Q3	441669	broad.mit.edu	37	chr14	20216032	20216032	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cctttggttggttcttgcctGctggtgtgggggttttatcc	14	8	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:20216032G>C	uc010tkt.1	+	1	446	c.446G>C	c.(445-447)TGC>TCC	p.C149S		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	149	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GTTCTTGCCTGCTGGTGTGGG	0.498													15	108	---	---	---	---	PASS	C	20216032	C	C	20216032	3	2	168	1	0	0	0	0	1	0	0	0	11081	1319	46	4	448	4	OR4Q3	14	20216032	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08		20216032	87133508	268	60415										
OR4M1	441670	broad.mit.edu	37	chr14	20248958	20248958	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttcattcattctataatacaGgtggctctcattgttcgact	6	9	4	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:20248958G>C	uc010tku.1	+	1	477	c.477G>C	c.(475-477)CAG>CAC	p.Q159H		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	159	Extracellular (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)		CTATAATACAGGTGGCTCTCA	0.507													26	329	---	---	---	---	PASS	C	20248958	C	C	20248958	3	2	168	1	0	0	0	0	1	0	0	0	11075	991	35	4	479	4	OR4M1	14	20248958	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	32926	20248958	87100582	269	60416										
OR4K15	81127	broad.mit.edu	37	chr14	20444613	20444613	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttaaaccctgtaatctacacGctaagaaacaaagaagtgaa	6	8	1	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:20444613G>C	uc010tkx.1	+	1	936	c.936G>C	c.(934-936)ACG>ACC	p.T312T		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	312	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TAATCTACACGCTAAGAAACA	0.398													25	62	---	---	---	---	PASS	C	20444613	C	C	20444613	2	2	168	1	0	0	0	0	0	0	0	1	11070	1074	38	4		4	OR4K15	14	20444613	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	195655	20444613	86904927	270	60417										
NGDN	25983	broad.mit.edu	37	chr14	23945346	23945346	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aatatgttcctccacgcttgGttccagtacattatggtata	7	9	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:23945346G>T	uc001wjy.2	+	7	556	c.529G>T	c.(529-531)GTT>TTT	p.V177F	NGDN_uc001wjz.2_Missense_Mutation_p.V177F|NGDN_uc001wka.2_5'Flank	NM_001042635	NP_001036100	Q8NEJ9	NGDN_HUMAN	neuroguidin isoform 1	177					regulation of translation	axon|cytoplasm|dendrite|filopodium|nucleus					0	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		TCCACGCTTGGTTCCAGTACA	0.433													15	60	---	---	---	---	PASS	T	23945346	T	T	23945346	3	4	168	1	0	0	0	0	1	0	0	0	10393	1261	44	3	555	3	NGDN	14	23945346	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	3500733	23945346	83404194	271	60418										
AKAP6	9472	broad.mit.edu	37	chr14	33291286	33291286	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agggggaaagcattaagcttCcaaatagctctcagtcgtcc	10	10	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:33291286C>T	uc001wrq.2	+	13	4437	c.4267C>T	c.(4267-4269)CCA>TCA	p.P1423S		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1423					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CATTAAGCTTCCAAATAGCTC	0.413													15	51	---	---	---	---	PASS	T	33291286	T	T	33291286	3	4	168	1	0	0	0	0	1	0	0	0	455	855	30	2	4313	2	AKAP6	14	33291286	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	9345940	33291286	74058254	272	60419										
RALGAPA1	253959	broad.mit.edu	37	chr14	36219896	36219896	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttggtctcatctgcgggatgTctgtgcaaaataaaaggaag	12	6	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:36219896T>A	uc001wti.2	-	9	1194	c.803A>T	c.(802-804)GAC>GTC	p.D268V	RALGAPA1_uc001wtj.2_Missense_Mutation_p.D268V|RALGAPA1_uc010tpv.1_Missense_Mutation_p.D268V|RALGAPA1_uc010tpw.1_Missense_Mutation_p.D268V|RALGAPA1_uc001wtk.1_Missense_Mutation_p.D119V	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	268					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						CTGCGGGATGTCTGTGCAAAA	0.323													11	45	---	---	---	---	PASS	A	36219896	A	A	36219896	3	1	168	1	0	0	0	0	1	0	0	0	13013	1681	58	5	5588	5	RALGAPA1	14	36219896	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	2928610	36219896	71129644	273	60420										
LRFN5	145581	broad.mit.edu	37	chr14	42356584	42356584	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgtgaattgttgtggttgagGcgtctgtccagagaagatga	15	4	1	5			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:42356584G>C	uc001wvm.2	+	3	1954	c.756G>C	c.(754-756)AGG>AGC	p.R252S	LRFN5_uc010ana.2_Missense_Mutation_p.R252S	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	252	Extracellular (Potential).|LRRCT.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TGTGGTTGAGGCGTCTGTCCA	0.443										HNSCC(30;0.082)			26	101	---	---	---	---	PASS	C	42356584	C	C	42356584	3	2	168	1	0	0	0	0	1	0	0	0	8941	1194	42	4	758	4	LRFN5	14	42356584	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	6136688	42356584	64992956	274	60421										
FSCB	84075	broad.mit.edu	37	chr14	44973864	44973864	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttgcttcaccttccaaaacaAccgatcctaattttactgct	3	13	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:44973864A>T	uc001wvn.2	-	1	2636	c.2327T>A	c.(2326-2328)GTT>GAT	p.V776D		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	776						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		TTCCAAAACAACCGATCCTAA	0.413													25	82	---	---	---	---	PASS	T	44973864	T	T	44973864	3	4	168	1	0	0	0	0	1	0	0	0	6066	43	2	5	154	5	FSCB	14	44973864	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	2617280	44973864	62375676	275	60422										
ERO1L	30001	broad.mit.edu	37	chr14	53120022	53120022	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gttgtgtccccatttcttttCtaaccaggtctctaagaagg	8	10	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:53120022C>G	uc001wzv.2	-	12	1046	c.820G>C	c.(820-822)GAA>CAA	p.E274Q	ERO1L_uc001wzw.2_RNA|ERO1L_uc010aof.2_RNA	NM_014584	NP_055399	Q96HE7	ERO1A_HUMAN	ERO1-like precursor	274					chaperone mediated protein folding requiring cofactor|electron transport chain|protein thiol-disulfide exchange|response to temperature stimulus|transport	endoplasmic reticulum lumen|endoplasmic reticulum membrane|microsome	disulfide oxidoreductase activity|flavin adenine dinucleotide binding|oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor				0	Breast(41;0.226)					CATTTCTTTTCTAACCAGGTC	0.303													31	81	---	---	---	---	PASS	G	53120022	G	G	53120022	3	3	168	1	0	0	0	0	1	0	0	0	5239	922	32	2	606	2	ERO1L	14	53120022	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	8146158	53120022	54229518	276	60423										
SYNE2	23224	broad.mit.edu	37	chr14	64692225	64692225	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccccatgctgaggtacaccaAtgggccaccccccacataga	8	17	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:64692225A>G	uc001xgm.2	+	115	20869	c.20639A>G	c.(20638-20640)AAT>AGT	p.N6880S	SYNE2_uc001xgl.2_Missense_Mutation_p.N6902S|SYNE2_uc010apy.2_Missense_Mutation_p.N3265S|SYNE2_uc001xgn.2_Missense_Mutation_p.N1841S|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.N850S|SYNE2_uc001xgq.2_Missense_Mutation_p.N1259S|SYNE2_uc001xgr.2_Missense_Mutation_p.N663S|SYNE2_uc010tsi.1_Missense_Mutation_p.N537S|SYNE2_uc001xgs.2_Missense_Mutation_p.N551S|SYNE2_uc001xgt.2_Missense_Mutation_p.N424S	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6880	Perinuclear space (Potential).|KASH.				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)		AGGTACACCAATGGGCCACCC	0.527													7	31	---	---	---	---	PASS	G	64692225	G	G	64692225	3	3	168	1	0	0	0	0	1	0	0	0	15443	101	4	5	21208	5	SYNE2	14	64692225	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	11572203	64692225	42657315	277	60424										
KIAA0247	9766	broad.mit.edu	37	chr14	70171368	70171368	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tccccacgctgtctatagtgGcttctactgccagctccgtg	9	15	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:70171368G>A	uc001xlk.2	+	4	683	c.367G>A	c.(367-369)GCT>ACT	p.A123T	KIAA0247_uc010aqz.2_Missense_Mutation_p.A98T	NM_014734	NP_055549	Q92537	K0247_HUMAN	hypothetical protein LOC9766 precursor	123	Helical; (Potential).					integral to membrane				ovary(3)	3				all cancers(60;0.00155)|BRCA - Breast invasive adenocarcinoma(234;0.0164)|OV - Ovarian serous cystadenocarcinoma(108;0.0196)		GTCTATAGTGGCTTCTACTGC	0.493													8	20	---	---	---	---	PASS	A	70171368	A	A	70171368	3	1	168	1	0	0	0	0	1	0	0	0	8165	1203	42	3	377	3	KIAA0247	14	70171368	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	5479143	70171368	37178172	278	60425										
DPF3	8110	broad.mit.edu	37	chr14	73238469	73238469	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cggtgcctcttctccatccaGatgtagcagttgttctgggc	11	12	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:73238469G>C	uc001xnc.2	-	2	178	c.165C>G	c.(163-165)ATC>ATG	p.I55M	DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Missense_Mutation_p.I55M|DPF3_uc010ttq.1_Missense_Mutation_p.I65M	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	55					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		TCTCCATCCAGATGTAGCAGT	0.627													13	51	---	---	---	---	PASS	C	73238469	C	C	73238469	3	2	168	1	0	0	0	0	1	0	0	0	4718	932	33	2	940	2	DPF3	14	73238469	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	3067101	73238469	34111071	279	60426										
NEK9	91754	broad.mit.edu	37	chr14	75590749	75590749	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cccactgaactctatcttacCattacaatattccagctcaa	2	14	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:75590749C>A	uc001xrl.2	-	2	551	c.397G>T	c.(397-399)GGA>TGA	p.G133*		NM_033116	NP_149107	Q8TD19	NEK9_HUMAN	NIMA-related kinase 9	133	Protein kinase.				cell division|mitosis	mitochondrion|nucleus	ATP binding|metal ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(2)|stomach(2)|ovary(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00718)		TCTATCTTACCATTACAATAT	0.383													5	80	---	---	---	---	PASS	A	75590749	A	A	75590749	4	1	168	1	0	0	0	0	0	1	0	0	10331	608	21	3	2626	3	NEK9	14	75590749	Nonsense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2352280	75590749	31758791	280	60427										
SPTLC2	9517	broad.mit.edu	37	chr14	77987879	77987879	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccatctctttcaggcgtctcCtgaaatacctggtgttttca	7	12	4	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:77987879C>T	uc001xub.2	-	10	1537	c.1349G>A	c.(1348-1350)AGG>AAG	p.R450K		NM_004863	NP_004854	O15270	SPTC2_HUMAN	serine palmitoyltransferase, long chain base	450				KECVQQLAENTRYFRRRLKEMGFIIYGNEDSPVV -> NGI TIHEVVQTRNTYHRFSPLSPVFSHQCLWIML (in Ref. 5).		integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups	p.R450R(1)		upper_aerodigestive_tract(1)|ovary(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0346)	L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	CAGGCGTCTCCTGAAATACCT	0.413													8	48	---	---	---	---	PASS	T	77987879	T	T	77987879	3	4	168	1	0	0	0	0	1	0	0	0	15123	681	24	3	351	3	SPTLC2	14	77987879	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2397130	77987879	29361661	281	60428										
SPATA7	55812	broad.mit.edu	37	chr14	88857754	88857754	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cctctgtccttcccagatatGgtccaccgtgcctatttaaa	6	14	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:88857754G>T	uc001xwq.2	+	2	200	c.49G>T	c.(49-51)GGT>TGT	p.G17C	SPATA7_uc001xwr.2_Missense_Mutation_p.G17C	NM_018418	NP_060888	Q9P0W8	SPAT7_HUMAN	spermatogenesis-associated protein 7 isoform a	17					response to stimulus|visual perception					ovary(1)	1						TCCCAGATATGGTCCACCGTG	0.358													4	14	---	---	---	---	PASS	T	88857754	T	T	88857754	3	4	168	1	0	0	0	0	1	0	0	0	15013	1348	47	3	55	3	SPATA7	14	88857754	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	10869875	88857754	18491786	282	60429										
ASB2	51676	broad.mit.edu	37	chr14	94420769	94420769	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agattcttcccttccttgatCatggtcttcaaggcctcttc	6	13	5	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr14:94420769C>A	uc001ycc.1	-	2	717	c.228G>T	c.(226-228)ATG>ATT	p.M76I	ASB2_uc001ycd.2_Missense_Mutation_p.M124I|ASB2_uc001yce.1_Missense_Mutation_p.M22I	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	76	ANK 1.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		CTTCCTTGATCATGGTCTTCA	0.592													6	28	---	---	---	---	PASS	A	94420769	A	A	94420769	3	1	168	1	0	0	0	0	1	0	0	0	1023	826	29	2	1563	2	ASB2	14	94420769	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	5563015	94420769	12928771	283	60430										
OR4M2	390538	broad.mit.edu	37	chr15	22369360	22369360	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atccatctacatttatgctcGcccatttgactcgttttccc	4	14	1	1	rs138137222	byFrequency	TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr15:22369360G>T	uc010tzu.1	+	1	785	c.785G>T	c.(784-786)CGC>CTC	p.R262L	LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		ATTTATGCTCGCCCATTTGAC	0.418													22	89	---	---	---	---	PASS	T	22369360	T	T	22369360	3	4	168	1	0	0	0	0	1	0	0	0	11076	1087	38	1	787	1	OR4M2	15	22369360	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08		22369360	80162032	284	60431										
OR4N4	283694	broad.mit.edu	37	chr15	22382912	22382912	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctgctatgcaatgatgttggCtctgtggcttgggggttttg	15	6	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr15:22382912C>A	uc001yuc.1	+	7	1421	c.440C>A	c.(439-441)GCT>GAT	p.A147D	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.A147D	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	147	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		ATGATGTTGGCTCTGTGGCTT	0.527													16	75	---	---	---	---	PASS	A	22382912	A	A	22382912	3	1	168	1	0	0	0	0	1	0	0	0	11078	797	28	3	442	3	OR4N4	15	22382912	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	13552	22382912	80148480	285	60432										
C15orf2	23742	broad.mit.edu	37	chr15	24924184	24924184	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgttttcccatttggtcaggCagcctgggacccaactggcc	11	13	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr15:24924184C>G	uc001ywo.2	+	1	3644	c.3170C>G	c.(3169-3171)GCA>GGA	p.A1057G		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	1057					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		TTTGGTCAGGCAGCCTGGGAC	0.547													9	25	---	---	---	---	PASS	G	24924184	G	G	24924184	3	3	168	1	0	0	0	0	1	0	0	0	1784	710	25	4	3172	4	C15orf2	15	24924184	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2541272	24924184	77607208	286	60433										
PPIP5K1	9677	broad.mit.edu	37	chr15	43827208	43827208	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agacatagctggcaaacttcCtcagagactttctggcacag	9	11	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr15:43827208C>A	uc001zrw.2	-	31	4149	c.3966G>T	c.(3964-3966)GAG>GAT	p.E1322D	PPIP5K1_uc001zrx.1_Missense_Mutation_p.E1295D|PPIP5K1_uc001zru.2_Missense_Mutation_p.E1297D|PPIP5K1_uc001zry.3_Missense_Mutation_p.E1297D|PPIP5K1_uc001zrv.2_Missense_Mutation_p.E1083D	NM_001130858	NP_001124330	Q6PFW1	VIP1_HUMAN	histidine acid phosphatase domain containing 2A	1322					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity				0						GGCAAACTTCCTCAGAGACTT	0.557													23	44	---	---	---	---	PASS	A	43827208	A	A	43827208	3	1	168	1	0	0	0	0	1	0	0	0	12332	680	24	3	339	3	PPIP5K1	15	43827208	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	18903024	43827208	58704184	287	60434										
STRC	161497	broad.mit.edu	37	chr15	43903132	43903132	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cttacctgaccagggatacaCacagctggaccagcacctgt	9	14	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr15:43903132C>T	uc001zsf.2	-	14	3435	c.3357G>A	c.(3355-3357)GTG>GTA	p.V1119V	STRC_uc010bdl.2_Intron|STRC_uc001zse.2_Translation_Start_Site	NM_153700	NP_714544	Q7RTU9	STRC_HUMAN	stereocilin precursor	1119					sensory perception of sound	cell surface					0		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		CAGGGATACACACAGCTGGAC	0.418													16	69	---	---	---	---	PASS	T	43903132	T	T	43903132	2	4	168	1	0	0	0	0	0	0	0	1	15327	465	17	3		3	STRC	15	43903132	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	75924	43903132	58628260	288	60435										
DUOX1	53905	broad.mit.edu	37	chr15	45443357	45443357	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agtgcccgctgttcccgcagCgacattgagactgagttgac	12	12	0	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr15:45443357C>A	uc001zus.1	+	24	3271	c.2925C>A	c.(2923-2925)AGC>AGA	p.S975R	DUOX1_uc001zut.1_Missense_Mutation_p.S975R|DUOX1_uc010bee.1_Missense_Mutation_p.S355R|DUOX1_uc001zuu.2_Missense_Mutation_p.S117R	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	975	Cytoplasmic (Potential).|Interaction with TXNDC11 (By similarity).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		GTTCCCGCAGCGACATTGAGA	0.547													4	57	---	---	---	---	PASS	A	45443357	A	A	45443357	3	1	168	1	0	0	0	0	1	0	0	0	4800	767	27	1	3011	1	DUOX1	15	45443357	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	1540225	45443357	57088035	289	60436										
VPS13C	54832	broad.mit.edu	37	chr15	62219377	62219377	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gaagcttccatcatctgttcGagtttggatgttgacagaga	11	7	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr15:62219377G>T	uc002agz.2	-	52	6503	c.6429C>A	c.(6427-6429)CTC>CTA	p.L2143L	VPS13C_uc002aha.2_Silent_p.L2100L|VPS13C_uc002ahb.1_Silent_p.L2143L|VPS13C_uc002ahc.1_Silent_p.L2100L	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2143					protein localization					ovary(2)	2						TCATCTGTTCGAGTTTGGATG	0.458													5	224	---	---	---	---	PASS	T	62219377	T	T	62219377	2	4	168	1	0	0	0	0	0	0	0	1	17188	1045	37	2		2	VPS13C	15	62219377	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	16776020	62219377	40312015	290	60437										
MPI	4351	broad.mit.edu	37	chr15	75189482	75189482	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agcaaggacaggctctttctCccaacacggagtcaggaaga	11	11	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr15:75189482C>A	uc002azc.1	+	7	980	c.975C>A	c.(973-975)CTC>CTA	p.L325L	MPI_uc002azd.1_Intron|MPI_uc010ulx.1_Silent_p.L275L|MPI_uc002aze.1_Silent_p.L264L	NM_002435	NP_002426	P34949	MPI_HUMAN	mannose-6- phosphate isomerase	325					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	mannose-6-phosphate isomerase activity|zinc ion binding			ovary(2)	2						GGCTCTTTCTCCCAACACGGA	0.532													24	77	---	---	---	---	PASS	A	75189482	A	A	75189482	2	1	168	1	0	0	0	0	0	0	0	1	9729	842	30	2		2	MPI	15	75189482	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	12970105	75189482	27341910	291	60438										
ZNF598	90850	broad.mit.edu	37	chr16	2049972	2049972	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctggtgggctggccgctgccGgtagcctgcgccgagagtgg	19	12	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:2049972G>T	uc002cof.1	-	11	1593	c.1578C>A	c.(1576-1578)ACC>ACA	p.T526T	ZNF598_uc002coe.1_5'UTR	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	526						intracellular	zinc ion binding			lung(1)|breast(1)	2						GGCCGCTGCCGGTAGCCTGCG	0.706													2	0	---	---	---	---	PASS	T	2049972	T	T	2049972	2	4	168	1	0	0	0	0	0	0	0	1	18025	1103	39	1		1	ZNF598	16	2049972	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08		2049972	88304781	292	60439										
C16orf90	646174	broad.mit.edu	37	chr16	3544563	3544563	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cctgggcaatcgggcttccaGaagggctgaacagaggctgt	15	10	0	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:3544563G>A	uc002cvi.2	-	2	361	c.361C>T	c.(361-363)CTG>TTG	p.L121L		NM_001080524	NP_001073993	A8MZG2	CP090_HUMAN	hypothetical protein LOC646174	111											0						CGGGCTTCCAGAAGGGCTGAA	0.662													7	36	---	---	---	---	PASS	A	3544563	A	A	3544563	2	1	168	1	0	0	0	0	0	0	0	1	1843	933	33	2		2	C16orf90	16	3544563	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	1494591	3544563	86810190	293	60440										
XYLT1	64131	broad.mit.edu	37	chr16	17211579	17211579	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tctgcaactggcacccagtgGtggagaattttcactgtcca	10	11	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:17211579G>T	uc002dfa.2	-	11	2566	c.2481C>A	c.(2479-2481)CAC>CAA	p.H827Q		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	827	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						GCACCCAGTGGTGGAGAATTT	0.537													8	50	---	---	---	---	PASS	T	17211579	T	T	17211579	3	4	168	1	0	0	0	0	1	0	0	0	17460	1252	44	3	406	3	XYLT1	16	17211579	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	13667016	17211579	73143174	294	60441										
ACSM1	116285	broad.mit.edu	37	chr16	20651905	20651905	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctccagggcagggaacctgaTgcttagaggaagacaaggtg	15	8	0	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:20651905T>C	uc002dhm.1	-	7	1062	c.994A>G	c.(994-996)ATC>GTC	p.I332V	ACSM1_uc002dhn.1_Intron|ACSM1_uc010bwg.1_Missense_Mutation_p.I332V	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	332					benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						GGGAACCTGATGCTTAGAGGA	0.552													11	31	---	---	---	---	PASS	C	20651905	C	C	20651905	3	2	168	1	0	0	0	0	1	0	0	0	182	1478	51	5	767	5	ACSM1	16	20651905	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	3440326	20651905	69702848	295	60442										
PRKCB	5579	broad.mit.edu	37	chr16	24135245	24135245	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aacaatggcaacagagaccgGatgaaactgaccgattttaa	9	8	0	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:24135245G>A	uc002dmd.2	+	9	1205	c.1008G>A	c.(1006-1008)CGG>CGA	p.R336R	PRKCB_uc002dme.2_Silent_p.R336R	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	336					apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	ACAGAGACCGGATGAAACTGA	0.483													23	92	---	---	---	---	PASS	A	24135245	A	A	24135245	2	1	168	1	0	0	0	0	0	0	0	1	12508	1161	41	2		2	PRKCB	16	24135245	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	3483340	24135245	66219508	296	60443										
ATXN2L	11273	broad.mit.edu	37	chr16	28842045	28842045	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gccttagctctttgccacctCgtggccctcaccatctggac	8	17	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:28842045C>T	uc002drc.2	+	9	1312	c.1144C>T	c.(1144-1146)CGT>TGT	p.R382C	uc010vct.1_Intron|ATXN2L_uc010byl.1_Missense_Mutation_p.R382C|ATXN2L_uc002drb.2_Missense_Mutation_p.R382C|ATXN2L_uc002dqy.2_Missense_Mutation_p.R382C|ATXN2L_uc002dra.2_Missense_Mutation_p.R382C|ATXN2L_uc002dqz.2_Missense_Mutation_p.R382C|ATXN2L_uc010vdb.1_Missense_Mutation_p.R382C|ATXN2L_uc002dre.2_Missense_Mutation_p.R382C|ATXN2L_uc002drf.2_5'UTR	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	382						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						TTTGCCACCTCGTGGCCCTCA	0.612													11	24	---	---	---	---	PASS	T	28842045	T	T	28842045	3	4	168	1	0	0	0	0	1	0	0	0	1212	884	31	2	1178	2	ATXN2L	16	28842045	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	4706800	28842045	61512708	297	60444										
CD19	930	broad.mit.edu	37	chr16	28944602	28944602	+	Frame_Shift_Del	DEL	C	-	-													0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tctggctgtcctgtggggtaCcccctgactctgtgtccagg							TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:28944602delC	uc002drs.2	+	4	669	c.607delC	c.(607-609)CCCfs	p.P203fs	uc010vct.1_Intron|CD19_uc010byo.1_Frame_Shift_Del_p.P203fs	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	203	Extracellular (Potential).|Ig-like C2-type 2.				cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						CTGTGGGGTACCCCCTGACTC	0.617													23	14	---	---	---	---		-	28944602	-	-	28944602	7	5	168	1	0	1	0	1	0	0	0	0	2973	507	18	0	621	0	CD19	16	28944602	Frame_Shift_Del	DEL	C	TCGA-66-2791-01A-01D-0983-08	102557	28944602	61410151	298	60445										
SPNS1	83985	broad.mit.edu	37	chr16	28994515	28994515	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccaccaactcctccacagtaCgtggtgatccctacccgacg	7	18	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:28994515C>T	uc010vdi.1	+	11	1364	c.1224C>T	c.(1222-1224)TAC>TAT	p.Y408Y	uc010vct.1_Intron|SPNS1_uc002drx.2_Silent_p.Y335Y|SPNS1_uc002dsa.2_Silent_p.Y408Y|SPNS1_uc002drz.2_Silent_p.Y356Y|SPNS1_uc010byp.2_Silent_p.Y334Y|SPNS1_uc010byq.1_Silent_p.Y340Y|LAT_uc010vdj.1_5'Flank|LAT_uc002dsb.2_5'Flank|LAT_uc002dsd.2_5'Flank|LAT_uc002dsc.2_5'Flank|LAT_uc010vdk.1_5'Flank|LAT_uc010vdl.1_5'Flank	NM_001142448	NP_001135920	Q9H2V7	SPNS1_HUMAN	spinster homolog 1 isoform 1	408					lipid transport|transmembrane transport	integral to membrane|mitochondrial inner membrane	protein binding				0						CTCCACAGTACGTGGTGATCC	0.662													6	15	---	---	---	---	PASS	T	28994515	T	T	28994515	2	4	168	1	0	0	0	0	0	0	0	1	15073	547	19	1		1	SPNS1	16	28994515	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	49913	28994515	61360238	299	60446										
ITFG1	81533	broad.mit.edu	37	chr16	47196508	47196508	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tggtcaagaaaatttgcgctCcgacctaaaccaagcacgtt	8	11	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:47196508C>T	uc002eet.2	-	15	1583	c.1521G>A	c.(1519-1521)CGG>CGA	p.R507R	ITFG1_uc010vgg.1_Silent_p.R252R|ITFG1_uc010vgh.1_Silent_p.R394R	NM_030790	NP_110417	Q8TB96	TIP_HUMAN	integrin alpha FG-GAP repeat containing 1	507						extracellular region|integral to membrane				ovary(1)|central_nervous_system(1)	2		all_cancers(37;0.0613)|all_lung(18;0.0543)|Lung NSC(13;0.227)				AATTTGCGCTCCGACCTAAAC	0.363													20	80	---	---	---	---	PASS	T	47196508	T	T	47196508	2	4	168	1	0	0	0	0	0	0	0	1	7869	842	30	2		2	ITFG1	16	47196508	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	18201993	47196508	43158245	300	60447										
GPR97	222487	broad.mit.edu	37	chr16	57712152	57712152	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acttcccaagagcctttttcGatccctgccaggcaacaggt	8	14	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:57712152G>A	uc002emh.2	+	4	519	c.416G>A	c.(415-417)CGA>CAA	p.R139Q	GPR97_uc010cdc.2_Missense_Mutation_p.R139Q|GPR97_uc010vhv.1_Missense_Mutation_p.R19Q|GPR97_uc010cdd.2_RNA|GPR97_uc010cde.2_5'Flank	NM_170776	NP_740746	Q86Y34	GPR97_HUMAN	G protein-coupled receptor 97 precursor	139	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1						AGCCTTTTTCGATCCCTGCCA	0.572													12	55	---	---	---	---	PASS	A	57712152	A	A	57712152	3	1	168	1	0	0	0	0	1	0	0	0	6720	1058	37	2	430	2	GPR97	16	57712152	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	10515644	57712152	32642601	301	60448										
CDH8	1006	broad.mit.edu	37	chr16	61851395	61851395	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aaaaataccttataggactgGaagtgatatcagggtcacga	10	6	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:61851395G>T	uc002eog.1	-	7	1517	c.1265C>A	c.(1264-1266)TCC>TAC	p.S422Y	CDH8_uc002eoh.2_Missense_Mutation_p.S191Y	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	422	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TATAGGACTGGAAGTGATATC	0.433													8	52	---	---	---	---	PASS	T	61851395	T	T	61851395	3	4	168	1	0	0	0	0	1	0	0	0	3116	1174	41	2	1158	2	CDH8	16	61851395	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	4139243	61851395	28503358	302	60449										
C16orf86	388284	broad.mit.edu	37	chr16	67701881	67701881	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agccagaggacagccagagtGagccctcaccatctgccaaa	10	14	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:67701881G>A	uc002ety.2	+	3	590	c.433G>A	c.(433-435)GAG>AAG	p.E145K	C16orf48_uc002etw.1_5'Flank|C16orf48_uc010cem.1_5'Flank|C16orf86_uc002etx.1_Missense_Mutation_p.E160K|C16orf86_uc002etz.2_RNA	NM_001012984	NP_001013002	Q6ZW13	CP086_HUMAN	hypothetical protein LOC388284	145											0		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		CAGCCAGAGTGAGCCCTCACC	0.622											OREG0023886	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	24	---	---	---	---	PASS	A	67701881	A	A	67701881	3	1	168	1	0	0	0	0	1	0	0	0	1839	1291	45	2	443	2	C16orf86	16	67701881	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	5850486	67701881	22652872	303	60450										
ZFP90	146198	broad.mit.edu	37	chr16	68598587	68598587	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aacaccagagaattcatactCgaaataaactctaggaaccg	6	10	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:68598587C>A	uc010cff.2	+	5	2189	c.1897C>A	c.(1897-1899)CGA>AGA	p.R633R	ZFP90_uc002ewb.2_3'UTR|ZFP90_uc002ewc.2_3'UTR|ZFP90_uc002ewd.2_Silent_p.R633R|ZFP90_uc002ewe.2_Silent_p.R633R	NM_133458	NP_597715	Q8TF47	ZFP90_HUMAN	zinc finger protein 90	633					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00233)|Epithelial(162;0.0184)|all cancers(182;0.0946)		AATTCATACTCGAAATAAACT	0.378													4	61	---	---	---	---	PASS	A	68598587	A	A	68598587	2	1	168	1	0	0	0	0	0	0	0	1	17651	876	31	2		2	ZFP90	16	68598587	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	896706	68598587	21756166	304	60451										
ZNF19	7567	broad.mit.edu	37	chr16	71510125	71510125	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	catcatcccatctctttcttCagaaattccctggattaatg	4	12	4	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:71510125C>G	uc010cgc.1	-	6	831	c.325G>C	c.(325-327)GAA>CAA	p.E109Q	ZNF23_uc002fai.2_Intron|ZNF19_uc002fak.1_Missense_Mutation_p.E97Q|ZNF19_uc002fal.1_Missense_Mutation_p.E97Q|ZNF19_uc002fam.1_Missense_Mutation_p.E109Q	NM_006961	NP_008892	P17023	ZNF19_HUMAN	zinc finger protein 19	109						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(137;0.00965)		BRCA - Breast invasive adenocarcinoma(221;0.0161)|Kidney(780;0.0598)		TCTCTTTCTTCAGAAATTCCC	0.428													7	40	---	---	---	---	PASS	G	71510125	G	G	71510125	3	3	168	1	0	0	0	0	1	0	0	0	17752	835	29	2	1055	2	ZNF19	16	71510125	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2911538	71510125	18844628	305	60452										
PMFBP1	83449	broad.mit.edu	37	chr16	72166752	72166752	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cttggacttgtcctgcttagCctccttgactgtcatttcaa	7	12	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:72166752C>G	uc002fcc.3	-	10	1514	c.1342G>C	c.(1342-1344)GCT>CCT	p.A448P	PMFBP1_uc002fcd.2_Missense_Mutation_p.A448P|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.A303P	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	448	Potential.									ovary(2)	2		Ovarian(137;0.179)				TCCTGCTTAGCCTCCTTGACT	0.542													12	61	---	---	---	---	PASS	G	72166752	G	G	72166752	3	3	168	1	0	0	0	0	1	0	0	0	12134	739	26	4	1789	4	PMFBP1	16	72166752	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	656627	72166752	18188001	306	60453										
CHST5	23563	broad.mit.edu	37	chr16	75563809	75563809	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atggtgcctcggggaaaggcGctgcaggcgggcggcgagca	20	10	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:75563809G>T	uc002fei.2	-	3	1869	c.474C>A	c.(472-474)AGC>AGA	p.S158R	CHST5_uc002fej.1_Missense_Mutation_p.S164R	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	158	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						GGGGAAAGGCGCTGCAGGCGG	0.642													15	74	---	---	---	---	PASS	T	75563809	T	T	75563809	3	4	168	1	0	0	0	0	1	0	0	0	3407	1078	38	1	765	1	CHST5	16	75563809	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	3397057	75563809	14790944	307	60454										
C16orf7	9605	broad.mit.edu	37	chr16	89777102	89777102	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agacgtccccaggaactgctCcaggtcctcgaacgagctgt	11	14	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr16:89777102C>G	uc002fom.1	-	10	1275	c.1150G>C	c.(1150-1152)GAG>CAG	p.E384Q	C16orf7_uc002fol.1_Missense_Mutation_p.E314Q|uc002fon.1_5'Flank	NM_004913	NP_004904	Q9Y2B5	CP007_HUMAN	chromosome 16 open reading frame 7	384					ATP synthesis coupled proton transport		GTPase activator activity|transporter activity				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		AGGAACTGCTCCAGGTCCTCG	0.692													3	3	---	---	---	---	PASS	G	89777102	G	G	89777102	3	3	168	1	0	0	0	0	1	0	0	0	1828	864	30	2	769	2	C16orf7	16	89777102	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	14213293	89777102	577651	308	60455										
OR1D2	4991	broad.mit.edu	37	chr17	2996205	2996205	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggtacatggacaggaacatcCaaaacaggatccgctgctgc	11	11	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:2996205C>A	uc010vrb.1	-	1	86	c.86G>T	c.(85-87)TGG>TTG	p.W29L		NM_002548	NP_002539	P34982	OR1D2_HUMAN	olfactory receptor, family 1, subfamily D,	29	Helical; Name=1; (Potential).				cellular component movement|chemotaxis|protein import into nucleus, translocation|sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						CAGGAACATCCAAAACAGGAT	0.542													5	91	---	---	---	---	PASS	A	2996205	A	A	2996205	3	1	168	1	0	0	0	0	1	0	0	0	10953	595	21	3	855	3	OR1D2	17	2996205	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08		2996205	78199005	309	60456										
TP53	7157	broad.mit.edu	37	chr17	7577547	7577547	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggatgggcctccggttcatgCcgcccatgcaggaactgtta	13	12	1	0	rs121912656		TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:7577547C>A	uc002gim.2	-	7	928	c.734G>T	c.(733-735)GGC>GTC	p.G245V	TP53_uc002gig.1_Missense_Mutation_p.G245V|TP53_uc002gih.2_Missense_Mutation_p.G245V|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G113V|TP53_uc010cng.1_Missense_Mutation_p.G113V|TP53_uc002gii.1_Missense_Mutation_p.G113V|TP53_uc010cnh.1_Missense_Mutation_p.G245V|TP53_uc010cni.1_Missense_Mutation_p.G245V|TP53_uc002gij.2_Missense_Mutation_p.G245V|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.G152V|TP53_uc002gio.2_Missense_Mutation_p.G113V	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	245	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		G -> N (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> A (in sporadic cancers; somatic mutation).|G -> V (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> R (in sporadic cancers; somatic mutation).|G -> E (in a sporadic cancer; somatic mutation).|G -> D (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> H (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|G -> L (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G245S(274)|p.G245D(93)|p.G245V(50)|p.G245C(47)|p.G245R(10)|p.G245A(8)|p.0?(7)|p.G245G(3)|p.G245fs*2(3)|p.G245N(2)|p.G245H(1)|p.G245L(1)|p.G244fs*17(1)|p.G245F(1)|p.G245E(1)|p.C242_M246>L(1)|p.C238_M246delCNSSCMGGM(1)|p.G245del(1)|p.C242fs*98(1)|p.G245fs*22(1)|p.M243fs*18(1)|p.S241_G245delSCMGG(1)|p.G245fs*14(1)|p.G245fs*17(1)|p.G245fs*16(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)		CCGGTTCATGCCGCCCATGCA	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)			9	26	---	---	---	---	PASS	A	7577547	A	A	7577547	3	1	168	1	0	0	0	0	1	0	0	0	16378	739	26	3	556	3	TP53	17	7577547	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	4581342	7577547	73617663	310	60457										
PER1	5187	broad.mit.edu	37	chr17	8051027	8051027	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cggcccaacacgaaggctacCttgcggctccaggggtgcac	13	15	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:8051027C>T	uc002gkd.2	-	11	1591	c.1353G>A	c.(1351-1353)AAG>AAA	p.K451K	PER1_uc010vuq.1_RNA|PER1_uc010vur.1_Silent_p.K435K	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	451	PAC.				circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						CGAAGGCTACCTTGCGGCTCC	0.647			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					3	11	---	---	---	---	PASS	T	8051027	T	T	8051027	2	4	168	1	0	0	0	0	0	0	0	1	11729	680	24	3		3	PER1	17	8051027	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	473480	8051027	73144183	311	60458										
KRBA2	124751	broad.mit.edu	37	chr17	8272809	8272809	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gagtggttactctgcatccaGgtacttatcatgttctttac	8	9	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:8272809G>T	uc002glf.1	-	2	1128	c.1122C>A	c.(1120-1122)ACC>ACA	p.T374T	KRBA2_uc002glg.1_Silent_p.T291T	NM_213597	NP_998762	Q6ZNG9	KRBA2_HUMAN	KRAB-A domain containing 2	374	Integrase catalytic.				DNA integration|regulation of transcription, DNA-dependent	intracellular	DNA binding				0						TCTGCATCCAGGTACTTATCA	0.507													5	52	---	---	---	---	PASS	T	8272809	T	T	8272809	2	4	168	1	0	0	0	0	0	0	0	1	8440	987	35	3		3	KRBA2	17	8272809	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	221782	8272809	72922401	312	60459										
MYH2	4620	broad.mit.edu	37	chr17	10427107	10427107	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccttcttggccttttcttctGcattgcgggcttcctggaga	10	12	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:10427107G>A	uc010coi.2	-	36	5398	c.5270C>T	c.(5269-5271)GCA>GTA	p.A1757V	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.A1757V|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1757	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTTTTCTTCTGCATTGCGGGC	0.458													18	44	---	---	---	---	PASS	A	10427107	A	A	10427107	3	1	168	1	0	0	0	0	1	0	0	0	10035	1319	46	3	575	3	MYH2	17	10427107	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	2154298	10427107	70768103	313	60460										
MYO15A	51168	broad.mit.edu	37	chr17	18022930	18022930	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccctacagcccggcctggccAccctacggcgaccactacta	8	20	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:18022930A>G	uc010vxh.1	+	2	1154	c.816A>G	c.(814-816)CCA>CCG	p.P272P		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	272	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CGGCCTGGCCACCCTACGGCG	0.662													5	15	---	---	---	---	PASS	G	18022930	G	G	18022930	2	3	168	1	0	0	0	0	0	0	0	1	10063	146	6	5		5	MYO15A	17	18022930	Silent	SNP	A	TCGA-66-2791-01A-01D-0983-08	7595823	18022930	63172280	314	60461										
AP2B1	163	broad.mit.edu	37	chr17	33953725	33953725	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aagtcctaatgaagtttctaGaattgttacctaaggattct	7	6	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:33953725G>C	uc002hjr.2	+	7	991	c.802G>C	c.(802-804)GAA>CAA	p.E268Q	AP2B1_uc002hjq.2_Missense_Mutation_p.E268Q|AP2B1_uc010wci.1_Missense_Mutation_p.E230Q|AP2B1_uc002hjs.2_Missense_Mutation_p.E211Q|AP2B1_uc002hjt.2_Missense_Mutation_p.E268Q|AP2B1_uc010ctv.2_Missense_Mutation_p.E268Q|AP2B1_uc010wcj.1_Missense_Mutation_p.E5Q	NM_001282	NP_001273	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1	268					axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|coated pit|cytosol|endocytic vesicle membrane|plasma membrane	clathrin binding|protein transporter activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		GAAGTTTCTAGAATTGTTACC	0.483													46	141	---	---	---	---	PASS	C	33953725	C	C	33953725	3	2	168	1	0	0	0	0	1	0	0	0	741	943	33	2	824	2	AP2B1	17	33953725	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	15930795	33953725	47241485	315	60462										
MED24	9862	broad.mit.edu	37	chr17	38183201	38183201	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	caggggtggtcagggttcagGatcttgccctcctcaggcat	14	11	4	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:38183201G>A	uc002htt.2	-	17	1930	c.1617C>T	c.(1615-1617)ATC>ATT	p.I539I	MED24_uc010wes.1_Silent_p.I399I|MED24_uc010wet.1_Intron|MED24_uc002hts.2_Silent_p.I564I|MED24_uc002htu.2_Silent_p.I526I|MED24_uc010cwn.2_Silent_p.I526I|MED24_uc010weu.1_Silent_p.I449I|MED24_uc010wev.1_Silent_p.I489I|MED24_uc010wew.1_Silent_p.I480I|MED24_uc010wex.1_Silent_p.I244I|SNORD124_uc010wey.1_5'Flank	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	539					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)					CAGGGTTCAGGATCTTGCCCT	0.602											OREG0024386	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	24	---	---	---	---	PASS	A	38183201	A	A	38183201	2	1	168	1	0	0	0	0	0	0	0	1	9442	1164	41	2		2	MED24	17	38183201	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	4229476	38183201	43012009	316	60463										
UBTF	7343	broad.mit.edu	37	chr17	42289033	42289033	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggacagcagcttccactgctGgctgcacagcaccatgcgct	11	15	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:42289033G>A	uc002igb.2	-	9	1055	c.988C>T	c.(988-990)CAG>TAG	p.Q330*	UBTF_uc002igc.2_Nonsense_Mutation_p.Q293*|UBTF_uc010czs.2_Nonsense_Mutation_p.Q330*|UBTF_uc002igd.2_Nonsense_Mutation_p.Q293*|UBTF_uc010czt.2_Nonsense_Mutation_p.Q330*|UBTF_uc002ige.2_Nonsense_Mutation_p.Q293*	NM_014233	NP_055048	P17480	UBF1_HUMAN	upstream binding transcription factor, RNA	330	HMG box 3.				positive regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm	DNA binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		TTCCACTGCTGGCTGCACAGC	0.592													24	58	---	---	---	---	PASS	A	42289033	A	A	42289033	4	1	168	1	0	0	0	0	0	1	0	0	16906	1357	47	3	1354	3	UBTF	17	42289033	Nonsense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	4105832	42289033	38906177	317	60464										
UBTF	7343	broad.mit.edu	37	chr17	42293285	42293285	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtaactcaccttgagtttttTgcctttgtaaggatttttaa	7	6	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:42293285T>G	uc002igb.2	-	3	374	c.307A>C	c.(307-309)AAA>CAA	p.K103Q	UBTF_uc002igc.2_Missense_Mutation_p.K103Q|UBTF_uc010czs.2_Missense_Mutation_p.K103Q|UBTF_uc002igd.2_Missense_Mutation_p.K103Q|UBTF_uc010czt.2_Missense_Mutation_p.K103Q|UBTF_uc002ige.2_Missense_Mutation_p.K103Q	NM_014233	NP_055048	P17480	UBF1_HUMAN	upstream binding transcription factor, RNA	103					positive regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm	DNA binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		TTGAGTTTTTTGCCTTTGTAA	0.478													15	62	---	---	---	---	PASS	G	42293285	G	G	42293285	3	3	168	1	0	0	0	0	1	0	0	0	16906	1821	63	5	2059	5	UBTF	17	42293285	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	4252	42293285	38901925	318	60465										
SGCA	6442	broad.mit.edu	37	chr17	48244818	48244818	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttgtgcacaccttggaccatGagacgtttctgagccttcct	9	12	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:48244818G>A	uc002iqi.2	+	2	163	c.127G>A	c.(127-129)GAG>AAG	p.E43K	SGCA_uc010wmh.1_5'UTR|SGCA_uc002iqj.2_Missense_Mutation_p.E43K|SGCA_uc010wmi.1_RNA	NM_000023	NP_000014	Q16586	SGCA_HUMAN	sarcoglycan, alpha isoform 1 precursor	43	Extracellular (Potential).				muscle contraction|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(2)	2						CTTGGACCATGAGACGTTTCT	0.657													16	38	---	---	---	---	PASS	A	48244818	A	A	48244818	3	1	168	1	0	0	0	0	1	0	0	0	14199	1291	45	2	133	2	SGCA	17	48244818	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	5951533	48244818	32950392	319	60466										
USP32	84669	broad.mit.edu	37	chr17	58260692	58260692	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtgagtggtttatgctggcaGagagccgggtctcttggtac	16	7	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:58260692G>C	uc002iyo.1	-	31	4243	c.3957C>G	c.(3955-3957)CTC>CTG	p.L1319L	USP32_uc002iyn.1_Silent_p.L989L	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	1319					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			TATGCTGGCAGAGAGCCGGGT	0.493													34	76	---	---	---	---	PASS	C	58260692	C	C	58260692	2	2	168	1	0	0	0	0	0	0	0	1	17060	929	33	2		2	USP32	17	58260692	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	10015874	58260692	22934518	320	60467										
FTSJ3	117246	broad.mit.edu	37	chr17	61902623	61902623	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttggcagactacaaagatctCtgcagattcatggcgagagg	12	8	2	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:61902623C>G	uc002jbz.2	-	6	652	c.574G>C	c.(574-576)GAG>CAG	p.E192Q	FTSJ3_uc002jca.2_Missense_Mutation_p.E192Q|PSMC5_uc002jcb.2_5'Flank|PSMC5_uc010ddy.2_5'Flank|PSMC5_uc010ddz.2_5'Flank|PSMC5_uc002jcc.2_5'Flank|PSMC5_uc002jcd.2_5'Flank	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	192					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						ACAAAGATCTCTGCAGATTCA	0.493													20	34	---	---	---	---	PASS	G	61902623	G	G	61902623	3	3	168	1	0	0	0	0	1	0	0	0	6089	922	32	2	2029	2	FTSJ3	17	61902623	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	3641931	61902623	19292587	321	60468										
PSMC5	5705	broad.mit.edu	37	chr17	61908527	61908527	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gaggggacagtgaagtgcagCgcacgatgctggagttgctc	17	8	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:61908527C>G	uc002jcb.2	+	8	852	c.811C>G	c.(811-813)CGC>GGC	p.R271G	PSMC5_uc010ddy.2_Missense_Mutation_p.R248G|PSMC5_uc010ddz.2_Missense_Mutation_p.R192G|PSMC5_uc002jcc.2_Missense_Mutation_p.R263G|PSMC5_uc002jcd.2_Missense_Mutation_p.R263G	NM_002805	NP_002796	P62195	PRS8_HUMAN	proteasome 26S ATPase subunit 5	271					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of programmed cell death|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of transcription, DNA-dependent|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|transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|thyrotropin-releasing hormone receptor binding|transcription cofactor activity|transcription factor binding			large_intestine(1)	1						TGAAGTGCAGCGCACGATGCT	0.587													19	72	---	---	---	---	PASS	G	61908527	G	G	61908527	3	3	168	1	0	0	0	0	1	0	0	0	12690	768	27	4	841	4	PSMC5	17	61908527	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	5904	61908527	19286683	322	60469										
BPTF	2186	broad.mit.edu	37	chr17	65822267	65822267	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aagaggaggacatggtctccGaggaggaggaggaggaggac	20	5	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:65822267G>T	uc002jgf.2	+	1	488	c.427G>T	c.(427-429)GAG>TAG	p.E143*	BPTF_uc002jge.2_Nonsense_Mutation_p.E143*|BPTF_uc010wqm.1_Nonsense_Mutation_p.E143*	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	143	Glu-rich.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			catggtctccgaggaggagga	0.468													3	35	---	---	---	---	PASS	T	65822267	T	T	65822267	4	4	168	1	0	0	0	0	0	1	0	0	1495	1059	37	2	429	2	BPTF	17	65822267	Nonsense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	3913740	65822267	15372943	323	60470										
WIPI1	55062	broad.mit.edu	37	chr17	66425064	66425064	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgacgcaactagcagccgtgGcaacttctggatcctaaggg	12	11	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:66425064G>A	uc010dey.2	-	10	1070	c.979C>T	c.(979-981)CCA>TCA	p.P327S	WIPI1_uc002jhd.3_RNA|WIPI1_uc010wqo.1_Missense_Mutation_p.P245S|WIPI1_uc002jhe.3_RNA	NM_017983	NP_060453	Q5MNZ9	WIPI1_HUMAN	WD repeat domain, phosphoinositide interacting	327	WD 3.				macroautophagy|vesicle targeting, trans-Golgi to endosome	autophagic vacuole membrane|clathrin-coated vesicle|cytosol|endosome membrane|PAS complex|pre-autophagosomal structure membrane|trans-Golgi network	androgen receptor binding|estrogen receptor binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding				0						AGCAGCCGTGGCAACTTCTGG	0.493													7	23	---	---	---	---	PASS	A	66425064	A	A	66425064	3	1	168	1	0	0	0	0	1	0	0	0	17367	1203	42	3	377	3	WIPI1	17	66425064	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	602797	66425064	14770146	324	60471										
ABCA8	10351	broad.mit.edu	37	chr17	66881394	66881394	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggtggtattaaaaaagtgaaGataaatggaatatcactttc	9	3	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:66881394G>T	uc002jhp.2	-	25	3551	c.3372C>A	c.(3370-3372)ATC>ATA	p.I1124I	ABCA8_uc002jhq.2_Silent_p.I1164I|ABCA8_uc010wqq.1_Silent_p.I1164I	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	1124	Helical; (Potential).					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					AAAAAGTGAAGATAAATGGAA	0.373													13	50	---	---	---	---	PASS	T	66881394	T	T	66881394	2	4	168	1	0	0	0	0	0	0	0	1	38	932	33	2		2	ABCA8	17	66881394	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	456330	66881394	14313816	325	60472										
SLC16A5	9121	broad.mit.edu	37	chr17	73096607	73096607	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	atctccatcatcggcttcagCaacatcttcctgaggcccct	6	16	4	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:73096607C>T	uc002jmr.2	+	5	1221	c.849C>T	c.(847-849)AGC>AGT	p.S283S	SLC16A5_uc002jms.1_Silent_p.S283S|SLC16A5_uc002jmt.2_Silent_p.S283S|SLC16A5_uc002jmu.2_Silent_p.S283S|SLC16A5_uc010wrt.1_Silent_p.S323S	NM_004695	NP_004686	O15375	MOT6_HUMAN	solute carrier family 16, member 5	283	Helical; (Potential).				organic anion transport	integral to plasma membrane|membrane fraction	secondary active monocarboxylate transmembrane transporter activity|symporter activity			central_nervous_system(1)	1	all_lung(278;0.226)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)		Pyruvic acid(DB00119)	TCGGCTTCAGCAACATCTTCC	0.617													84	220	---	---	---	---	PASS	T	73096607	T	T	73096607	2	4	168	1	0	0	0	0	0	0	0	1	14411	709	25	3		3	SLC16A5	17	73096607	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	6215213	73096607	8098603	326	60473										
RPTOR	57521	broad.mit.edu	37	chr17	78921039	78921039	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cccttaagcttttgggactgGgagaaaggggagaagctgga	16	6	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr17:78921039G>A	uc002jyt.1	+	27	3958	c.3153G>A	c.(3151-3153)TGG>TGA	p.W1051*	RPTOR_uc010wug.1_Nonsense_Mutation_p.W893*|RPTOR_uc002jyu.1_5'Flank	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	1051	WD 1.				cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						TTTGGGACTGGGAGAAAGGGG	0.353													8	24	---	---	---	---	PASS	A	78921039	A	A	78921039	4	1	168	1	0	0	0	0	0	1	0	0	13665	1241	43	3	3259	3	RPTOR	17	78921039	Nonsense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	5824432	78921039	2274171	327	60474										
FAM38B	63895	broad.mit.edu	37	chr18	10696076	10696076	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cttctgaagaccttacctctCagtcacaccaggtaagatga	7	12	3	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr18:10696076C>T	uc002kor.3	-	5	858	c.718G>A	c.(718-720)GAG>AAG	p.E240K	FAM38B_uc002koq.2_Missense_Mutation_p.E138K	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2283						integral to membrane	ion channel activity			ovary(1)	1						CCTTACCTCTCAGTCACACCA	0.502													25	62	---	---	---	---	PASS	T	10696076	T	T	10696076	3	4	168	1	0	0	0	0	1	0	0	0	5555	835	29	2	1451	2	FAM38B	18	10696076	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08		10696076	67381172	328	60475										
KHSRP	8570	broad.mit.edu	37	chr19	6422370	6422370	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cctccatcttccaactgtctCttttggcccccaaaaccaaa	3	17	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:6422370C>A	uc002mer.3	-	2	437	c.327G>T	c.(325-327)AAG>AAT	p.K109N		NM_003685	NP_003676	Q92945	FUBP2_HUMAN	KH-type splicing regulatory protein	109	Gly-rich.				mRNA processing|mRNA transport|regulation of transcription, DNA-dependent|RNA splicing, via transesterification reactions|transcription, DNA-dependent	cytosol|nucleus	DNA binding|protein binding|RNA binding			skin(1)	1						CCAACTGTCTCTTTTGGCCCC	0.488													19	75	---	---	---	---	PASS	A	6422370	A	A	6422370	3	1	168	1	0	0	0	0	1	0	0	0	8151	912	32	2	1884	2	KHSRP	19	6422370	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08		6422370	52706613	329	60476										
MUC16	94025	broad.mit.edu	37	chr19	9068085	9068085	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	taagggtaccctgtgatgtcGccctatgaggacctgtttgg	13	9	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:9068085G>T	uc002mkp.2	-	3	19565	c.19361C>A	c.(19360-19362)GCG>GAG	p.A6454E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6456	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGTGATGTCGCCCTATGAGG	0.498													25	128	---	---	---	---	PASS	T	9068085	T	T	9068085	3	4	168	1	0	0	0	0	1	0	0	0	9973	1087	38	1	24490	1	MUC16	19	9068085	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	2645715	9068085	50060898	330	60477										
ZNF560	147741	broad.mit.edu	37	chr19	9578918	9578918	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gacgtgttgcctctattttgAgtactcatgttggtcttaag	10	7	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:9578918A>T	uc002mlp.1	-	10	915	c.705T>A	c.(703-705)ACT>ACA	p.T235T	ZNF560_uc010dwr.1_Silent_p.T129T	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	235					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						CTCTATTTTGAGTACTCATGT	0.378													13	53	---	---	---	---	PASS	T	9578918	T	T	9578918	2	4	168	1	0	0	0	0	0	0	0	1	17988	291	11	5		5	ZNF560	19	9578918	Silent	SNP	A	TCGA-66-2791-01A-01D-0983-08	510833	9578918	49550065	331	60478										
CCDC151	115948	broad.mit.edu	37	chr19	11545644	11545644	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccacctgagagtgcacagagGgcttccctgcacctctgtgg	12	14	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:11545644G>T	uc002mrs.2	-	1	337	c.194C>A	c.(193-195)CCC>CAC	p.P65H	CCDC151_uc010dxz.2_Missense_Mutation_p.P65H|PRKCSH_uc002mrt.2_5'Flank|PRKCSH_uc002mru.2_5'Flank|PRKCSH_uc010xlz.1_5'Flank|PRKCSH_uc010dya.2_5'Flank|PRKCSH_uc002mrv.1_5'Flank|PRKCSH_uc010dyb.2_5'Flank	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	65										ovary(1)	1						GTGCACAGAGGGCTTCCCTGC	0.587											OREG0025257	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	79	---	---	---	---	PASS	T	11545644	T	T	11545644	3	4	168	1	0	0	0	0	1	0	0	0	2786	1232	43	3	1645	3	CCDC151	19	11545644	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	1966726	11545644	47583339	332	60479										
HOOK2	29911	broad.mit.edu	37	chr19	12876760	12876760	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	catcttcagtcttgccccccTgctcctgcagggctttctgc	8	17	4	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:12876760T>A	uc002muy.2	-	16	1751	c.1580A>T	c.(1579-1581)CAG>CTG	p.Q527L	HOOK2_uc010xmq.1_5'UTR|HOOK2_uc002muz.2_Missense_Mutation_p.Q527L	NM_013312	NP_037444	Q96ED9	HOOK2_HUMAN	hook homolog 2 isoform 1	527	Sufficient for interaction with microtubules.|Potential.				early endosome to late endosome transport|endocytosis|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|protein transport	centrosome|FHF complex|microtubule	identical protein binding|microtubule binding			ovary(1)|breast(1)|skin(1)	3						CTTGCCCCCCTGCTCCTGCAG	0.652											OREG0025273	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	34	---	---	---	---	PASS	A	12876760	A	A	12876760	3	1	168	1	0	0	0	0	1	0	0	0	7283	1580	55	5	611	5	HOOK2	19	12876760	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	1331116	12876760	46252223	333	60480										
CACNA1A	773	broad.mit.edu	37	chr19	13476130	13476130	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	catcatgctccgtggacctaCctgtcccctcttcaaagcag	7	16	3	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:13476130C>T	uc010dze.2	-	5	1020	c.784_splice	c.e5+1	p.D262_splice	CACNA1A_uc002mwy.3_Splice_Site_p.D262_splice	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3						cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	CGTGGACCTACCTGTCCCCTC	0.463													22	86	---	---	---	---	PASS	T	13476130	T	T	13476130	5	4	168	1	0	0	0	0	0	0	1	0	2538	521	18	3	7021	3	CACNA1A	19	13476130	Splice_Site	SNP	C	TCGA-66-2791-01A-01D-0983-08	599370	13476130	45652853	334	60481										
RASAL3	64926	broad.mit.edu	37	chr19	15564239	15564239	+	Frame_Shift_Del	DEL	G	-	-													0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctgcgcagagactggctcttGgagatgagaggggtgtgctt							TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:15564239delG	uc002nbe.2	-	15	2435	c.2349delC	c.(2347-2349)TCCfs	p.S783fs	RASAL3_uc002nbd.2_Frame_Shift_Del_p.S123fs|RASAL3_uc010eaa.1_Frame_Shift_Del_p.S271fs	NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	783					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0						ACTGGCTCTTGGAGATGAGAG	0.711													4	2	---	---	---	---		-	15564239	-	-	15564239	7	5	168	1	0	1	0	1	0	0	0	0	13065	1335	47	0	702	0	RASAL3	19	15564239	Frame_Shift_Del	DEL	G	TCGA-66-2791-01A-01D-0983-08	2088109	15564239	43564744	335	60482										
ZNF14	7561	broad.mit.edu	37	chr19	19823724	19823724	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttctgtccagtgtgagatctCatgtgcctattaagggacga	11	8	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:19823724C>G	uc002nnk.1	-	4	520	c.366G>C	c.(364-366)ATG>ATC	p.M122I		NM_021030	NP_066358	P17017	ZNF14_HUMAN	zinc finger protein 14	122	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Renal(1328;0.0474)				TGTGAGATCTCATGTGCCTAT	0.383													13	82	---	---	---	---	PASS	G	19823724	G	G	19823724	3	3	168	1	0	0	0	0	1	0	0	0	17725	826	29	2	1566	2	ZNF14	19	19823724	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	4259485	19823724	39305259	336	60483										
ZNF208	7757	broad.mit.edu	37	chr19	22157371	22157371	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctgtttgaatttgaacatttAtgaaagacatttgcatattt	6	4	0	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:22157371A>T	uc002nqp.2	-	4	614	c.465T>A	c.(463-465)CAT>CAA	p.H155Q	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTGAACATTTATGAAAGACAT	0.333													11	62	---	---	---	---	PASS	T	22157371	T	T	22157371	3	4	168	1	0	0	0	0	1	0	0	0	17763	446	16	5	3381	5	ZNF208	19	22157371	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	2333647	22157371	36971612	337	60484										
ZNF681	148213	broad.mit.edu	37	chr19	23927115	23927115	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttctccagtatgaatgctctTatgtctagtaaggtgtgagg	11	6	3	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:23927115T>C	uc002nrk.3	-	4	1379	c.1237A>G	c.(1237-1239)AAG>GAG	p.K413E	ZNF681_uc002nrl.3_Missense_Mutation_p.K344E|ZNF681_uc002nrj.3_Missense_Mutation_p.K344E	NM_138286	NP_612143	Q96N22	ZN681_HUMAN	zinc finger protein 681	413	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				TGAATGCTCTTATGTCTAGTA	0.368													20	50	---	---	---	---	PASS	C	23927115	C	C	23927115	3	2	168	1	0	0	0	0	1	0	0	0	18085	1763	61	5	704	5	ZNF681	19	23927115	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	1769744	23927115	35201868	338	60485										
ZNF536	9745	broad.mit.edu	37	chr19	31039116	31039116	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agcagtggacatcaggggttCtctcctctggagatcactcg	12	11	4	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:31039116C>A	uc002nsu.1	+	4	2728	c.2590C>A	c.(2590-2592)CTC>ATC	p.L864I	ZNF536_uc010edd.1_Missense_Mutation_p.L864I	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	864					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					ATCAGGGGTTCTCTCCTCTGG	0.582													5	83	---	---	---	---	PASS	A	31039116	A	A	31039116	3	1	168	1	0	0	0	0	1	0	0	0	17971	913	32	2	2600	2	ZNF536	19	31039116	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	7112001	31039116	28089867	339	60486										
ZNF790	388536	broad.mit.edu	37	chr19	37310031	37310031	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgtcgagcaaggtgtgagctCcaaatataggctttcccaca	10	10	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:37310031C>G	uc002oew.2	-	5	1334	c.1215G>C	c.(1213-1215)TGG>TGC	p.W405C	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	405	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GGTGTGAGCTCCAAATATAGG	0.413													11	69	---	---	---	---	PASS	G	37310031	G	G	37310031	3	3	168	1	0	0	0	0	1	0	0	0	18159	856	30	2	699	2	ZNF790	19	37310031	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	6270915	37310031	21818952	340	60487										
TMEM145	284339	broad.mit.edu	37	chr19	42818838	42818838	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cctcaccacccagtatgcctGgtccggctgtcaggtgcagg	12	15	2	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:42818838G>T	uc002otk.1	+	4	399	c.347G>T	c.(346-348)TGG>TTG	p.W116L		NM_173633	NP_775904	Q8NBT3	TM145_HUMAN	transmembrane protein 145	116						integral to membrane					0		Prostate(69;0.00682)				CAGTATGCCTGGTCCGGCTGT	0.617													9	76	---	---	---	---	PASS	T	42818838	T	T	42818838	3	4	168	1	0	0	0	0	1	0	0	0	16056	1357	47	3	361	3	TMEM145	19	42818838	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	5508807	42818838	16310145	341	60488										
PSG1	5669	broad.mit.edu	37	chr19	43382240	43382240	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccatatataattatttcaccGtctactacatatgatgtaat	3	8	2	1	rs1058959		TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:43382240G>T	uc002ovb.2	-	2	393	c.255C>A	c.(253-255)GAC>GAA	p.D85E	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Missense_Mutation_p.D85E|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_RNA|PSG1_uc002our.1_Missense_Mutation_p.D85E|PSG1_uc010eio.1_Missense_Mutation_p.D85E|PSG1_uc002oux.1_Missense_Mutation_p.D14E|PSG1_uc002ouy.1_Missense_Mutation_p.D85E|PSG1_uc002ouz.1_Missense_Mutation_p.D85E|PSG1_uc002ova.1_Missense_Mutation_p.D85E|PSG1_uc002ovc.2_Missense_Mutation_p.D85E|PSG1_uc002ovd.1_Missense_Mutation_p.D85E	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	85	Ig-like V-type.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				TTATTTCACCGTCTACTACAT	0.448													53	186	---	---	---	---	PASS	T	43382240	T	T	43382240	3	4	168	1	0	0	0	0	1	0	0	0	12653	1136	40	1	1077	1	PSG1	19	43382240	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	563402	43382240	15746743	342	60489										
PSG6	5675	broad.mit.edu	37	chr19	43414888	43414888	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gtgagtcatagggaggttctGaccattcagcaaccacaggt	12	9	3	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:43414888G>C	uc002ovj.1	-	3	602	c.550C>G	c.(550-552)CAG>GAG	p.Q184E	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Missense_Mutation_p.Q191E|PSG6_uc002ovi.2_Missense_Mutation_p.Q185E|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG6_uc002ove.1_5'UTR|PSG6_uc002ovf.1_Missense_Mutation_p.Q184E|PSG6_uc002ovg.1_Missense_Mutation_p.Q184E	NM_002782	NP_002773	Q00889	PSG6_HUMAN	pregnancy specific beta-1-glycoprotein 6 isoform	184	Ig-like C2-type 1.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				GGGAGGTTCTGACCATTCAGC	0.498													49	156	---	---	---	---	PASS	C	43414888	C	C	43414888	3	2	168	1	0	0	0	0	1	0	0	0	12659	1299	45	2	812	2	PSG6	19	43414888	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	32648	43414888	15714095	343	60490										
PSG4	5672	broad.mit.edu	37	chr19	43699169	43699169	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aggacattcagggtgactggGtcactgcggatgccaccata	13	10	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:43699169G>A	uc002ovy.2	-	4	1068	c.966C>T	c.(964-966)GAC>GAT	p.D322D	PSG6_uc010xwk.1_Intron|PSG4_uc002owa.2_RNA|PSG4_uc002owb.2_Silent_p.D229D|PSG4_uc002ovz.2_Intron	NM_002780	NP_002771	Q00888	PSG4_HUMAN	pregnancy specific beta-1-glycoprotein 4 isoform	322	Ig-like C2-type 2.				defense response|female pregnancy	extracellular region				ovary(1)	1		Prostate(69;0.00682)				GGGTGACTGGGTCACTGCGGA	0.488													36	123	---	---	---	---	PASS	A	43699169	A	A	43699169	2	1	168	1	0	0	0	0	0	0	0	1	12657	1252	44	3		3	PSG4	19	43699169	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	284281	43699169	15429814	344	60491										
TEX101	83639	broad.mit.edu	37	chr19	43922108	43922108	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cagtgctccttctcttccctGtcccaatggtacaactcgat	6	15	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:43922108G>T	uc010xwo.1	+	5	665	c.470G>T	c.(469-471)TGT>TTT	p.C157F	TEX101_uc002owk.2_Missense_Mutation_p.C175F	NM_001130011	NP_001123483	Q9BY14	TX101_HUMAN	testis expressed 101 isoform 2	157				C -> Y (in Ref. 1; AAK28327).		anchored to membrane|plasma membrane				ovary(1)	1		Prostate(69;0.0199)				TCTCTTCCCTGTCCCAATGGT	0.463													20	85	---	---	---	---	PASS	T	43922108	T	T	43922108	3	4	168	1	0	0	0	0	1	0	0	0	15770	1377	48	3	542	3	TEX101	19	43922108	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	222939	43922108	15206875	345	60492										
MARK4	57787	broad.mit.edu	37	chr19	45781203	45781203	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gctgcgggagcgagtactcaGagggaagtaccgggtccctt	16	10	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:45781203G>C	uc002pbb.1	+	9	814	c.809G>C	c.(808-810)AGA>ACA	p.R270T	MARK4_uc002paz.1_Intron|MARK4_uc002pba.1_Missense_Mutation_p.R270T|MARK4_uc002pbc.1_Missense_Mutation_p.R136T			Q96L34	MARK4_HUMAN	RecName: Full=MAP/microtubule affinity-regulating kinase 4;          EC=2.7.11.1; AltName: Full=MAP/microtubule affinity-regulating kinase-like 1;	270	Protein kinase.				microtubule bundle formation|nervous system development|positive regulation of programmed cell death	centrosome|neuron projection	ATP binding|gamma-tubulin binding|microtubule binding|protein serine/threonine kinase activity|tau-protein kinase activity|ubiquitin binding			central_nervous_system(2)|large_intestine(1)	3		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CGAGTACTCAGAGGGAAGTAC	0.507													4	35	---	---	---	---	PASS	C	45781203	C	C	45781203	3	2	168	1	0	0	0	0	1	0	0	0	9315	942	33	2	843	2	MARK4	19	45781203	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	1859095	45781203	13347780	346	60493										
IGFL3	388555	broad.mit.edu	37	chr19	46627176	46627176	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gggagatgggagataagtgaCactgagacttcatacccaga	13	7	1	5			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:46627176C>T	uc002pea.1	-	3	342	c.317G>A	c.(316-318)TGT>TAT	p.C106Y		NM_207393	NP_997276	Q6UXB1	IGFL3_HUMAN	IGF-like family member 3 precursor	106						extracellular region	protein binding				0		Ovarian(192;0.0175)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00473)|GBM - Glioblastoma multiforme(486;0.0149)|Epithelial(262;0.239)		AGATAAGTGACACTGAGACTT	0.517													73	196	---	---	---	---	PASS	T	46627176	T	T	46627176	3	4	168	1	0	0	0	0	1	0	0	0	7588	478	17	3	68	3	IGFL3	19	46627176	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	845973	46627176	12501807	347	60494										
HIF3A	64344	broad.mit.edu	37	chr19	46811522	46811522	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tttgatttcatccacccctgTgaccaagaggagcttcagga	9	11	2	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:46811522T>A	uc002peh.2	+	4	437	c.408T>A	c.(406-408)TGT>TGA	p.C136*	HIF3A_uc002pef.1_Nonsense_Mutation_p.C136*|HIF3A_uc002peg.3_Nonsense_Mutation_p.C136*|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_Nonsense_Mutation_p.C80*|HIF3A_uc002pej.1_Nonsense_Mutation_p.C67*|HIF3A_uc002pek.2_Nonsense_Mutation_p.C80*|HIF3A_uc010xxy.1_Nonsense_Mutation_p.C67*|HIF3A_uc002pel.2_Nonsense_Mutation_p.C134*|HIF3A_uc010xxz.1_Nonsense_Mutation_p.C85*	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	136	PAS 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		TCCACCCCTGTGACCAAGAGG	0.502													26	76	---	---	---	---	PASS	A	46811522	A	A	46811522	4	1	168	1	0	0	0	0	0	1	0	0	7105	1702	59	5	446	5	HIF3A	19	46811522	Nonsense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	184346	46811522	12317461	348	60495										
TEAD2	8463	broad.mit.edu	37	chr19	49846557	49846557	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	caggtgagggtcatgtgttcCaggctctcatactggctgct	13	10	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:49846557C>G	uc002pnj.2	-	10	1099	c.1008G>C	c.(1006-1008)CTG>CTC	p.L336L	uc002pnb.1_5'Flank|TEAD2_uc002png.2_Silent_p.L339L|TEAD2_uc002pnh.2_Silent_p.L340L|TEAD2_uc002pni.2_Silent_p.L339L|TEAD2_uc010yao.1_Silent_p.L208L|TEAD2_uc010emw.2_Silent_p.L339L	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	336	Transcriptional activation (Potential).				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		TCATGTGTTCCAGGCTCTCAT	0.617													10	46	---	---	---	---	PASS	G	49846557	G	G	49846557	2	3	168	1	0	0	0	0	0	0	0	1	15736	581	21	4		4	TEAD2	19	49846557	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	3035035	49846557	9282426	349	60496										
SIGLEC9	27180	broad.mit.edu	37	chr19	51628650	51628650	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccggctctctgtgaatgtgaCaggtaaggcacaggctccag	13	11	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:51628650C>A	uc002pvu.2	+	1	486	c.419C>A	c.(418-420)ACA>AAA	p.T140K	SIGLEC9_uc010yct.1_Missense_Mutation_p.T140K	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	140	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		GTGAATGTGACAGGTAAGGCA	0.532													7	24	---	---	---	---	PASS	A	51628650	A	A	51628650	3	1	168	1	0	0	0	0	1	0	0	0	14315	478	17	3	421	3	SIGLEC9	19	51628650	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	1782093	51628650	7500333	350	60497										
ZNF28	7576	broad.mit.edu	37	chr19	53303738	53303738	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aagtctatgatggcgtgcaaGagttgattgttgattaaaaa	11	3	1	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:53303738G>A	uc002qad.2	-	4	1480	c.1360C>T	c.(1360-1362)CTT>TTT	p.L454F	ZNF28_uc002qac.2_Missense_Mutation_p.L401F|ZNF28_uc010eqe.2_Missense_Mutation_p.L400F	NM_006969	NP_008900	P17035	ZNF28_HUMAN	zinc finger protein 28	454	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)		TGGCGTGCAAGAGTTGATTGT	0.373													25	83	---	---	---	---	PASS	A	53303738	A	A	53303738	3	1	168	1	0	0	0	0	1	0	0	0	17810	942	33	2	800	2	ZNF28	19	53303738	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	1675088	53303738	5825245	351	60498										
CNOT3	4849	broad.mit.edu	37	chr19	54649754	54649754	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cacctccagctctcccatccCgcccagcccagccaactgta	5	22	1	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:54649754C>T	uc002qdj.1	+	9	1123	c.812C>T	c.(811-813)CCG>CTG	p.P271L	CNOT3_uc010yel.1_Missense_Mutation_p.P271L|CNOT3_uc002qdi.2_Missense_Mutation_p.P184L|CNOT3_uc002qdk.1_Missense_Mutation_p.P271L|CNOT3_uc010ere.1_RNA	NM_014516	NP_055331	O75175	CNOT3_HUMAN	CCR4-NOT transcription complex, subunit 3	271					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					TCTCCCATCCCGCCCAGCCCA	0.622													12	32	---	---	---	---	PASS	T	54649754	T	T	54649754	3	4	168	1	0	0	0	0	1	0	0	0	3620	652	23	1	842	1	CNOT3	19	54649754	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	1346016	54649754	4479229	352	60499										
TTYH1	57348	broad.mit.edu	37	chr19	54930341	54930341	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccttggcgggcctgggcttgGgcctgagcctcattttcatc	13	13	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:54930341G>T	uc002qfq.2	+	2	258	c.166G>T	c.(166-168)GGC>TGC	p.G56C	TTYH1_uc010yey.1_Missense_Mutation_p.G105C|TTYH1_uc002qfr.2_Missense_Mutation_p.G56C|TTYH1_uc002qft.2_Missense_Mutation_p.G56C|TTYH1_uc002qfu.1_5'Flank	NM_020659	NP_065710	Q9H313	TTYH1_HUMAN	tweety 1 isoform 1	56	Helical; Name=1; (Potential).				cell adhesion	chloride channel complex|plasma membrane	chloride channel activity|iron ion transmembrane transporter activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0767)		CCTGGGCTTGGGCCTGAGCCT	0.682													16	36	---	---	---	---	PASS	T	54930341	T	T	54930341	3	4	168	1	0	0	0	0	1	0	0	0	16736	1232	43	3	172	3	TTYH1	19	54930341	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	280587	54930341	4198642	353	60500										
SYT5	6861	broad.mit.edu	37	chr19	55687076	55687076	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggcctgaaggcaggagctcaCcttgaaggcgaaggtctccc	14	12	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:55687076C>T	uc002qjm.1	-	4	1600	c.540_splice	c.e4+1	p.K180_splice	SYT5_uc002qjp.2_Splice_Site_p.K177_splice|SYT5_uc002qjn.1_Splice_Site_p.K180_splice|SYT5_uc002qjo.1_Splice_Site_p.K180_splice	NM_003180	NP_003171	O00445	SYT5_HUMAN	synaptotagmin V						energy reserve metabolic process|regulation of insulin secretion|synaptic transmission	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane	metal ion binding|transporter activity				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		CAGGAGCTCACCTTGAAGGCG	0.627													17	49	---	---	---	---	PASS	T	55687076	T	T	55687076	5	4	168	1	0	0	0	0	0	0	1	0	15474	521	18	3	639	3	SYT5	19	55687076	Splice_Site	SNP	C	TCGA-66-2791-01A-01D-0983-08	756735	55687076	3441907	354	60501										
NLRP4	147945	broad.mit.edu	37	chr19	56388478	56388478	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgaaatcggagatgtgggtgTgcagctgttgtgtcgggctc	17	6	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:56388478T>C	uc002qmd.3	+	8	3064	c.2642T>C	c.(2641-2643)GTG>GCG	p.V881A	NLRP4_uc002qmf.2_Missense_Mutation_p.V806A|NLRP4_uc010etf.2_Missense_Mutation_p.V656A	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	881	LRR 6.						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)		GATGTGGGTGTGCAGCTGTTG	0.502													22	56	---	---	---	---	PASS	C	56388478	C	C	56388478	3	2	168	1	0	0	0	0	1	0	0	0	10479	1696	59	5	2668	5	NLRP4	19	56388478	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	701402	56388478	2740505	355	60502										
NLRP5	126206	broad.mit.edu	37	chr19	56539152	56539152	+	Frame_Shift_Del	DEL	G	-	-													0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ccctcgaggcgtggtccggcGctgtctcaatctggaggaaa							TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:56539152delG	uc002qmj.2	+	7	1553	c.1553delG	c.(1552-1554)CGCfs	p.R518fs	NLRP5_uc002qmi.2_Frame_Shift_Del_p.R499fs	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	518	NACHT.					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)		GTGGTCCGGCGCTGTCTCAAT	0.592													30	13	---	---	---	---		-	56539152	-	-	56539152	7	5	168	1	0	1	0	1	0	0	0	0	10480	1087	38	0	1579	0	NLRP5	19	56539152	Frame_Shift_Del	DEL	G	TCGA-66-2791-01A-01D-0983-08	150674	56539152	2589831	356	60503										
USP29	57663	broad.mit.edu	37	chr19	57642755	57642755	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tctcggctacctagcacacaGgcaggggtgatccctcaggg	13	13	2	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:57642755G>T	uc002qny.2	+	4	3068	c.2712G>T	c.(2710-2712)CAG>CAT	p.Q904H		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	904					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CTAGCACACAGGCAGGGGTGA	0.493													17	59	---	---	---	---	PASS	T	57642755	T	T	57642755	3	4	168	1	0	0	0	0	1	0	0	0	17056	991	35	3	2714	3	USP29	19	57642755	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	1103603	57642755	1486228	357	60504										
ZIM3	114026	broad.mit.edu	37	chr19	57646494	57646494	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tctgatggctatgaaggtttGacttctgaaagaaggctttt	11	5	2	5			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:57646494G>C	uc002qnz.1	-	5	1597	c.1211C>G	c.(1210-1212)TCA>TGA	p.S404*		NM_052882	NP_443114	Q96PE6	ZIM3_HUMAN	zinc finger, imprinted 3	404	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.243)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ATGAAGGTTTGACTTCTGAAA	0.378													13	128	---	---	---	---	PASS	C	57646494	C	C	57646494	4	2	168	1	0	0	0	0	0	1	0	0	17682	1294	45	2	211	2	ZIM3	19	57646494	Nonsense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	3739	57646494	1482489	358	60505										
ZNF548	147694	broad.mit.edu	37	chr19	57911091	57911091	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tggagaaagaccttatgagtGcagcgaatgccagaaggcct	13	8	0	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:57911091G>A	uc002qom.2	+	3	1686	c.1436G>A	c.(1435-1437)TGC>TAC	p.C479Y	ZNF547_uc002qpm.3_Intron|ZNF548_uc002qon.2_Missense_Mutation_p.C482Y	NM_152909	NP_690873	Q8NEK5	ZN548_HUMAN	zinc finger protein 548	479	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CCTTATGAGTGCAGCGAATGC	0.468													24	87	---	---	---	---	PASS	A	57911091	A	A	57911091	3	1	168	1	0	0	0	0	1	0	0	0	17977	1319	46	3	1486	3	ZNF548	19	57911091	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	264597	57911091	1217892	359	60506										
ZSCAN4	201516	broad.mit.edu	37	chr19	58190146	58190146	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tcatgagagaatccacacagGagaaaagccttatacatgtc	8	9	1	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:58190146G>T	uc002qpu.2	+	5	1872	c.1175G>T	c.(1174-1176)GGA>GTA	p.G392V		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	392					telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ATCCACACAGGAGAAAAGCCT	0.453													40	108	---	---	---	---	PASS	T	58190146	T	T	58190146	3	4	168	1	0	0	0	0	1	0	0	0	18234	1174	41	2	1185	2	ZSCAN4	19	58190146	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	279055	58190146	938837	360	60507										
ZNF135	7694	broad.mit.edu	37	chr19	58578819	58578819	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acgagcgaactcacacaggcGagaagccctacgagtgcagt	12	12	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr19:58578819G>A	uc010yhq.1	+	5	1099	c.1003G>A	c.(1003-1005)GAG>AAG	p.E335K	ZNF135_uc002qre.2_Missense_Mutation_p.E323K|ZNF135_uc002qrd.1_Missense_Mutation_p.E281K|ZNF135_uc002qrf.2_Missense_Mutation_p.E281K|ZNF135_uc002qrg.2_Missense_Mutation_p.E293K|ZNF135_uc010yhr.1_Missense_Mutation_p.E144K	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	335					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		TCACACAGGCGAGAAGCCCTA	0.542													13	69	---	---	---	---	PASS	A	58578819	A	A	58578819	3	1	168	1	0	0	0	0	1	0	0	0	17722	1059	37	2	1170	2	ZNF135	19	58578819	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	388673	58578819	550164	361	60508										
GNAS	2778	broad.mit.edu	37	chr20	57484238	57484238	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttcctggacaagatcgacgtGatcaagcaggctgactatgt	11	9	1	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr20:57484238G>A	uc002xzw.2	+	7	2766	c.2481G>A	c.(2479-2481)GTG>GTA	p.V827V	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Silent_p.V125V|GNAS_uc002xzx.2_Silent_p.V125V|GNAS_uc010gjr.2_Silent_p.V75V|GNAS_uc002xzy.2_Silent_p.V110V|GNAS_uc002yaa.2_Silent_p.V170V|GNAS_uc010zzt.1_Silent_p.V185V|GNAS_uc002yab.2_Intron|GNAS_uc002yad.2_Silent_p.V75V|GNAS_uc002yae.2_Silent_p.V109V	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	184					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			AGATCGACGTGATCAAGCAGG	0.507			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			73	147	---	---	---	---	PASS	A	57484238	A	A	57484238	2	1	168	1	0	0	0	0	0	0	0	1	6510	1277	45	2		2	GNAS	20	57484238	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08		57484238	5541282	362	60509										
TMPRSS15	5651	broad.mit.edu	37	chr21	19666726	19666726	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	acttcctccaacaatctttgGggtgatgtcttgagctgcca	9	11	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr21:19666726G>A	uc002ykw.2	-	21	2378	c.2347C>T	c.(2347-2349)CCA>TCA	p.P783S		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	783	Extracellular (Potential).				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						ACAATCTTTGGGGTGATGTCT	0.458													18	64	---	---	---	---	PASS	A	19666726	A	A	19666726	3	1	168	1	0	0	0	0	1	0	0	0	16243	1232	43	3	732	3	TMPRSS15	21	19666726	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08		19666726	28463169	363	60510										
DOPEY2	9980	broad.mit.edu	37	chr21	37610953	37610953	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tgatctggcatctgacaagaGagatccaaggcagtcgagta	12	8	2	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr21:37610953G>C	uc002yvg.2	+	17	2909	c.2830G>C	c.(2830-2832)GAG>CAG	p.E944Q	DOPEY2_uc011aeb.1_Missense_Mutation_p.E893Q	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	944					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						TCTGACAAGAGAGATCCAAGG	0.473													8	30	---	---	---	---	PASS	C	37610953	C	C	37610953	3	2	168	1	0	0	0	0	1	0	0	0	4708	943	33	2	2892	2	DOPEY2	21	37610953	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	17944227	37610953	10518942	364	60511										
GGT1	2678	broad.mit.edu	37	chr22	25007072	25007072	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aagaagaagttagtggtgctGggcctgctggccgtggtcct	16	8	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr22:25007072G>A	uc003aan.1	+	5	511	c.24G>A	c.(22-24)CTG>CTA	p.L8L	GGT1_uc003aas.1_Silent_p.L8L|GGT1_uc003aat.1_Silent_p.L8L|GGT1_uc003aau.1_Silent_p.L8L|GGT1_uc003aav.1_Silent_p.L8L|GGT1_uc003aaw.1_Silent_p.L8L|GGT1_uc003aax.1_Silent_p.L8L	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor	8	Helical; Signal-anchor for type II membrane protein; (Probable).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	TAGTGGTGCTGGGCCTGCTGG	0.617													5	9	---	---	---	---	PASS	A	25007072	A	A	25007072	2	1	168	1	0	0	0	0	0	0	0	1	6361	1335	47	3		3	GGT1	22	25007072	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08		25007072	26297494	365	60512										
MN1	4330	broad.mit.edu	37	chr22	28195045	28195045	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gcacaggcggtgtgaactcgCcgggtaggcctgggtaggcg	19	10	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr22:28195045C>T	uc003adj.2	-	1	2442	c.1487G>A	c.(1486-1488)GGC>GAC	p.G496D		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	496							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						TGTGAACTCGCCGGGTAGGCC	0.617			T	ETV6	AML|meningioma								4	12	---	---	---	---	PASS	T	28195045	T	T	28195045	3	4	168	1	0	0	0	0	1	0	0	0	9673	739	26	3	2483	3	MN1	22	28195045	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	3187973	28195045	23109521	366	60513										
TOM1	10043	broad.mit.edu	37	chr22	35713920	35713920	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	aggactgggccctcaacatgGagatctgcgacatcatcaac	10	12	4	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr22:35713920G>C	uc003ann.2	+	2	228	c.103G>C	c.(103-105)GAG>CAG	p.E35Q	TOM1_uc011ami.1_Missense_Mutation_p.E2Q|TOM1_uc011amj.1_5'UTR|TOM1_uc003ans.2_5'UTR|TOM1_uc011amk.1_Missense_Mutation_p.W13C|TOM1_uc003anp.2_Missense_Mutation_p.E35Q|TOM1_uc011aml.1_Missense_Mutation_p.E35Q|TOM1_uc003ano.2_RNA|TOM1_uc003anq.2_Missense_Mutation_p.E35Q|TOM1_uc003anr.2_5'UTR	NM_005488	NP_005479	O60784	TOM1_HUMAN	target of myb1 isoform 1	35	VHS.				endocytosis|endosome transport|intracellular protein transport	cytosol|early endosome|membrane	protein binding			ovary(1)	1						CCTCAACATGGAGATCTGCGA	0.582													10	35	---	---	---	---	PASS	C	35713920	C	C	35713920	3	2	168	1	0	0	0	0	1	0	0	0	16348	1175	41	2	109	2	TOM1	22	35713920	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	7518875	35713920	15590646	367	60514										
ELFN2	114794	broad.mit.edu	37	chr22	37770023	37770023	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gaggtccgggaggtcatcctCgggccgagccagaccgtccc	15	15	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr22:37770023C>T	uc003asq.3	-	3	2338	c.1552G>A	c.(1552-1554)GAG>AAG	p.E518K		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	518	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					AGGTCATCCTCGGGCCGAGCC	0.627													10	16	---	---	---	---	PASS	T	37770023	T	T	37770023	3	4	168	1	0	0	0	0	1	0	0	0	5058	893	31	2	914	2	ELFN2	22	37770023	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	2056103	37770023	13534543	368	60515										
EFCAB6	64800	broad.mit.edu	37	chr22	43972302	43972302	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tagtttgtaacagaaatcctTaagaacttgtccgaattctg	7	7	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr22:43972302T>G	uc003bdy.1	-	26	3510	c.3295A>C	c.(3295-3297)AAG>CAG	p.K1099Q	EFCAB6_uc003bdz.1_Missense_Mutation_p.K947Q|EFCAB6_uc010gzi.1_Missense_Mutation_p.K947Q|EFCAB6_uc010gzj.1_Missense_Mutation_p.K325Q	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1099	EF-hand 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CAGAAATCCTTAAGAACTTGT	0.313													16	30	---	---	---	---	PASS	G	43972302	G	G	43972302	3	3	168	1	0	0	0	0	1	0	0	0	4939	1763	61	5	1238	5	EFCAB6	22	43972302	Missense_Mutation	SNP	T	TCGA-66-2791-01A-01D-0983-08	6202279	43972302	7332264	369	60516										
C22orf9	23313	broad.mit.edu	37	chr22	45607906	45607906	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cgcacatagaaaagcatgtcGtcctgccggggagcccattt	11	12	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chr22:45607906G>T	uc003bfx.1	-	2	213	c.147C>A	c.(145-147)GAC>GAA	p.D49E	C22orf9_uc003bfv.1_Missense_Mutation_p.D58E|C22orf9_uc003bfw.1_Missense_Mutation_p.D54E|C22orf9_uc010gzx.2_Missense_Mutation_p.D31E	NM_001009880	NP_001009880	Q6ICG6	K0930_HUMAN	hypothetical protein LOC23313 isoform b	49							protein binding				0		Ovarian(80;0.00965)|all_neural(38;0.0244)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|READ - Rectum adenocarcinoma(1;0.000617)|Colorectal(1;0.0024)		AAAGCATGTCGTCCTGCCGGG	0.617													10	9	---	---	---	---	PASS	T	45607906	T	T	45607906	3	4	168	1	0	0	0	0	1	0	0	0	2151	1136	40	1	1103	1	C22orf9	22	45607906	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	1635604	45607906	5696660	370	60517										
CD99	4267	broad.mit.edu	37	chrX	2640679	2640679	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ctttcctaggtagcttttcaGatgctgaccttgcggatggc	11	10	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:2640679G>C	uc004cqm.2	+	6	448	c.274G>C	c.(274-276)GAT>CAT	p.D92H	CD99_uc010nda.2_Missense_Mutation_p.D76H|CD99_uc004cqn.2_RNA|CD99_uc004cqo.2_Missense_Mutation_p.D92H	NM_002414	NP_002405	P14209	CD99_HUMAN	CD99 antigen isoform a precursor	92	Extracellular (Potential).				cell adhesion	cytoplasm|integral to plasma membrane				skin(1)	1						TAGCTTTTCAGATGCTGACCT	0.438													30	92	---	---	---	---	PASS	C	2640679	C	C	2640679	3	2	168	1	0	0	0	0	1	0	0	0	3050	942	33	2	296	2	CD99	23	2640679	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08		2640679	152629881	371	60518										
PNPLA4	8228	broad.mit.edu	37	chrX	7894053	7894053	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gacgccccagcgaaggctttGacatccttcacaagtttttt	8	12	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:7894053G>A	uc011mhq.1	-	2	270	c.108C>T	c.(106-108)GTC>GTT	p.V36V	PNPLA4_uc011mhr.1_Silent_p.V36V|PNPLA4_uc011mhs.1_Intron	NM_004650	NP_004641	P41247	PLPL4_HUMAN	patatin-like phospholipase domain containing 4	36	Patatin.				lipid catabolic process		triglyceride lipase activity				0		Colorectal(8;0.0329)|Medulloblastoma(8;0.232)				CGAAGGCTTTGACATCCTTCA	0.463											OREG0019651	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	13	---	---	---	---	PASS	A	7894053	A	A	7894053	2	1	168	1	0	0	0	0	0	0	0	1	12167	1277	45	2		2	PNPLA4	23	7894053	Silent	SNP	G	TCGA-66-2791-01A-01D-0983-08	5253374	7894053	147376507	372	60519										
TAB3	257397	broad.mit.edu	37	chrX	30872850	30872850	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggcccaactgggaaggttgcActtgatgctgtggagagctg	16	8	0	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:30872850A>G	uc004dcj.2	-	6	1595	c.932T>C	c.(931-933)GTG>GCG	p.V311A	TAB3_uc004dck.2_Missense_Mutation_p.V311A|TAB3_uc010ngl.2_Missense_Mutation_p.V311A	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	311	Pro-rich.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|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|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						GGAAGGTTGCACTTGATGCTG	0.498													8	20	---	---	---	---	PASS	G	30872850	G	G	30872850	3	3	168	1	0	0	0	0	1	0	0	0	15494	159	6	5	1230	5	TAB3	23	30872850	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	22978797	30872850	124397710	373	60520										
KDM6A	7403	broad.mit.edu	37	chrX	44936072	44936072	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cacctacacctagtatttacGtgagtctgaattgactgact	7	10	1	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:44936072G>A	uc004dge.3	+	18	3207	c.2832_splice	c.e18+1	p.Y944_splice	KDM6A_uc010nhk.2_Splice_Site_p.Y910_splice|KDM6A_uc011mkz.1_Splice_Site_p.Y996_splice|KDM6A_uc011mla.1_Splice_Site_p.Y899_splice|KDM6A_uc011mlb.1_Splice_Site_p.Y951_splice|KDM6A_uc011mlc.1_Splice_Site_p.Y648_splice|KDM6A_uc011mld.1_Splice_Site_p.Y583_splice	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide						histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						TAGTATTTACGTGAGTCTGAA	0.383			D|N|F|S		renal|oesophageal SCC|MM								26	28	---	---	---	---	PASS	A	44936072	A	A	44936072	5	1	168	1	0	0	0	0	0	0	1	0	8137	1159	40	1	2903	1	KDM6A	23	44936072	Splice_Site	SNP	G	TCGA-66-2791-01A-01D-0983-08	14063222	44936072	110334488	374	60521										
RBM10	8241	broad.mit.edu	37	chrX	47044725	47044725	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	cactagccgagagacagcacAccagcatggatctcccgaaa	9	14	1	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:47044725A>G	uc004dhf.2	+	19	2504	c.2125A>G	c.(2125-2127)ACC>GCC	p.T709A	RBM10_uc004dhg.2_Missense_Mutation_p.T631A|RBM10_uc004dhh.2_Missense_Mutation_p.T708A|RBM10_uc010nhq.2_Missense_Mutation_p.T632A|RBM10_uc004dhi.2_Missense_Mutation_p.T774A	NM_005676	NP_005667	P98175	RBM10_HUMAN	RNA binding motif protein 10 isoform 1	709					mRNA processing|RNA splicing	chromatin remodeling complex	nucleotide binding|RNA binding|zinc ion binding			ovary(1)|large_intestine(1)|prostate(1)|breast(1)|pancreas(1)	5						GAGACAGCACACCAGCATGGA	0.632													7	4	---	---	---	---	PASS	G	47044725	G	G	47044725	3	3	168	1	0	0	0	0	1	0	0	0	13111	159	6	5	2195	5	RBM10	23	47044725	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	2108653	47044725	108225835	375	60522										
KDM5C	8242	broad.mit.edu	37	chrX	53231062	53231062	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agcagtgcaaaagttgacagCctcggcaaagttgtagcctt	11	9	0	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:53231062C>A	uc004drz.2	-	13	2373	c.1840G>T	c.(1840-1842)GCT>TCT	p.A614S	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.A547S|KDM5C_uc004dsa.2_Missense_Mutation_p.A613S	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	614	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						AAGTTGACAGCCTCGGCAAAG	0.547			N|F|S		clear cell renal carcinoma								15	18	---	---	---	---	PASS	A	53231062	A	A	53231062	3	1	168	1	0	0	0	0	1	0	0	0	8135	739	26	3	2996	3	KDM5C	23	53231062	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	6186337	53231062	102039498	376	60523										
CYSLTR1	10800	broad.mit.edu	37	chrX	77528293	77528293	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ttctttctgggtacataagtCacgctggacaaagaatgctt	9	8	3	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:77528293C>A	uc004edb.2	-	3	1351	c.951G>T	c.(949-951)GTG>GTT	p.V317V	CYSLTR1_uc010nma.2_Silent_p.V317V|CYSLTR1_uc010nmb.2_Silent_p.V317V	NM_006639	NP_006630	Q9Y271	CLTR1_HUMAN	cysteinyl leukotriene receptor 1	317	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|respiratory gaseous exchange	integral to plasma membrane|membrane fraction	leukotriene receptor activity			ovary(1)	1					Amlexanox(DB01025)|Cinalukast(DB00587)|Montelukast(DB00471)|Nedocromil(DB00716)|Pranlukast(DB01411)|Zafirlukast(DB00549)	GTACATAAGTCACGCTGGACA	0.388													5	15	---	---	---	---	PASS	A	77528293	A	A	77528293	2	1	168	1	0	0	0	0	0	0	0	1	4201	813	29	2		2	CYSLTR1	23	77528293	Silent	SNP	C	TCGA-66-2791-01A-01D-0983-08	24297231	77528293	77742267	377	60524										
TEX13A	56157	broad.mit.edu	37	chrX	104464811	104464811	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	ggcgaagccgtgcagccaccGcaccctgtgcctttgtagct	12	15	0	0			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:104464811G>C	uc004ema.2	-	2	383	c.271C>G	c.(271-273)CGG>GGG	p.R91G	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Missense_Mutation_p.R91G	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	91						intracellular	zinc ion binding			ovary(2)	2						TGCAGCCACCGCACCCTGTGC	0.627													4	10	---	---	---	---	PASS	C	104464811	C	C	104464811	3	2	168	1	0	0	0	0	1	0	0	0	15773	1086	38	4	968	4	TEX13A	23	104464811	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	26936518	104464811	50805749	378	60525										
PRPS1	5631	broad.mit.edu	37	chrX	106885651	106885651	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agagccggctgtcctaaagtGgataagggagaatatctctg	13	7	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:106885651G>T	uc004ene.3	+	4	666	c.461G>T	c.(460-462)TGG>TTG	p.W154L	PRPS1_uc010npg.2_Missense_Mutation_p.W121L|PRPS1_uc011msj.1_Intron	NM_002764	NP_002755	P60891	PRPS1_HUMAN	phosphoribosyl pyrophosphate synthetase 1	154					5-phosphoribose 1-diphosphate biosynthetic process|hypoxanthine biosynthetic process|nervous system development|nucleoside metabolic process|purine nucleotide biosynthetic process|pyrimidine nucleotide biosynthetic process|ribonucleoside monophosphate biosynthetic process|urate biosynthetic process	cytosol	ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			breast(3)|large_intestine(1)	4						GTCCTAAAGTGGATAAGGGAG	0.428													4	56	---	---	---	---	PASS	T	106885651	T	T	106885651	3	4	168	1	0	0	0	0	1	0	0	0	12578	1357	47	3	475	3	PRPS1	23	106885651	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	2420840	106885651	48384909	379	60526										
IL13RA1	3597	broad.mit.edu	37	chrX	117895230	117895230	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	agaagtcaataacagccaaaCtgagacacataatgttttct	6	8	2	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:117895230C>G	uc004eqs.2	+	6	849	c.806C>G	c.(805-807)ACT>AGT	p.T269S	IL13RA1_uc004eqr.1_Missense_Mutation_p.T269S|IL13RA1_uc004eqt.1_Missense_Mutation_p.T269S	NM_001560	NP_001551	P78552	I13R1_HUMAN	interleukin 13 receptor, alpha 1 precursor	269	Extracellular (Potential).					interleukin-13 receptor complex	cytokine receptor activity				0						AACAGCCAAACTGAGACACAT	0.303													29	52	---	---	---	---	PASS	G	117895230	G	G	117895230	3	3	168	1	0	0	0	0	1	0	0	0	7629	565	20	4	828	4	IL13RA1	23	117895230	Missense_Mutation	SNP	C	TCGA-66-2791-01A-01D-0983-08	11009579	117895230	37375330	380	60527										
KIAA1210	57481	broad.mit.edu	37	chrX	118222757	118222757	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tttgattctgagaagacttcTtgttcatcttcaaacttccc	5	10	5	3			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:118222757T>C	uc004era.3	-	11	2436	c.2436A>G	c.(2434-2436)CAA>CAG	p.Q812Q		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	812										ovary(4)|skin(1)	5						AGAAGACTTCTTGTTCATCTT	0.488													15	12	---	---	---	---	PASS	C	118222757	C	C	118222757	2	2	168	1	0	0	0	0	0	0	0	1	8214	1606	56	5		5	KIAA1210	23	118222757	Silent	SNP	T	TCGA-66-2791-01A-01D-0983-08	327527	118222757	37047803	381	60528										
ARHGAP36	158763	broad.mit.edu	37	chrX	130215797	130215797	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	gacgaagatggtatcgatacAcagcctctctgagctggagc	12	10	1	2			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:130215797A>G	uc004evz.2	+	2	503	c.158A>G	c.(157-159)CAC>CGC	p.H53R	ARHGAP36_uc004ewa.2_Missense_Mutation_p.H41R|ARHGAP36_uc004ewb.2_Missense_Mutation_p.H22R|ARHGAP36_uc004ewc.2_5'Flank	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	53					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						GTATCGATACACAGCCTCTCT	0.532													12	34	---	---	---	---	PASS	G	130215797	G	G	130215797	3	3	168	1	0	0	0	0	1	0	0	0	883	159	6	5	160	5	ARHGAP36	23	130215797	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	11993040	130215797	25054763	382	60529										
MMGT1	93380	broad.mit.edu	37	chrX	135053241	135053241	+	Frame_Shift_Del	DEL	T	-	-													0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	attggcagtgattcatcttcTttttctgttaatcgcatata							TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:135053241delT	uc004ezi.1	-	2	408	c.108delA	c.(106-108)AAAfs	p.K36fs	MMGT1_uc011mvw.1_Frame_Shift_Del_p.K101fs	NM_173470	NP_775741	Q8N4V1	MMGT1_HUMAN	membrane magnesium transporter 1 precursor	36	Lumenal (Potential).					early endosome membrane|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	magnesium ion transmembrane transporter activity				0						ATTCATCTTCTTTTTCTGTTA	0.284													32	38	---	---	---	---		-	135053241	-	-	135053241	7	5	168	1	0	1	0	1	0	0	0	0	9647	1606	56	0	299	0	MMGT1	23	135053241	Frame_Shift_Del	DEL	T	TCGA-66-2791-01A-01D-0983-08	4837444	135053241	20217319	383	60530										
MAGEC3	139081	broad.mit.edu	37	chrX	140985615	140985615	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	tccaccaacttctgtcctgaGtgatgtctgaagcagattcc	8	12	2	4			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:140985615G>T	uc011mwp.1	+	8	1929	c.1929G>T	c.(1927-1929)GAG>GAT	p.E643D	MAGEC3_uc004fbs.2_3'UTR|MAGEC3_uc010nsj.2_3'UTR	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	643	MAGE 2.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TCTGTCCTGAGTGATGTCTGA	0.532													17	23	---	---	---	---	PASS	T	140985615	T	T	140985615	3	4	168	1	0	0	0	0	1	0	0	0	9182	1020	36	3	2326	3	MAGEC3	23	140985615	Missense_Mutation	SNP	G	TCGA-66-2791-01A-01D-0983-08	5932374	140985615	14284945	384	60531										
MAGEC1	9947	broad.mit.edu	37	chrX	140996228	140996228	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.157068062827225	60	5.70994200691543e-09	2.21166833689164	3.31399192067573	1.60248951427412	0.621694325475763	0.91699913007675	33	catcttcataaagggcacctAtgcctctgaggaggtcatct	9	11	5	1			TCGA-66-2791-01A-01D-0983-08	TCGA-66-2791-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	dd468431-2fa4-45ab-be1f-90671891c5c4	339dce49-88af-447d-926f-e386a031edfd	g.chrX:140996228A>G	uc004fbt.2	+	4	3324	c.3038A>G	c.(3037-3039)TAT>TGT	p.Y1013C	MAGEC1_uc010nsl.1_Missense_Mutation_p.Y80C	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	1013	MAGE.						protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AAGGGCACCTATGCCTCTGAG	0.542										HNSCC(15;0.026)			35	39	---	---	---	---	PASS	G	140996228	G	G	140996228	3	3	168	1	0	0	0	0	1	0	0	0	9180	449	16	5	3044	5	MAGEC1	23	140996228	Missense_Mutation	SNP	A	TCGA-66-2791-01A-01D-0983-08	10613	140996228	14274332	385	60532										
PTCHD2	57540	broad.mit.edu	37	chr1	11561290	11561290	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctgggctggtgctcttcctgGgctgcagcatccccatggcc	13	15	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:11561290G>A	uc001ash.3	+	2	379	c.241G>A	c.(241-243)GGC>AGC	p.G81S	PTCHD2_uc001asi.1_Missense_Mutation_p.G81S	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	81	Helical; (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GCTCTTCCTGGGCTGCAGCAT	0.612													13	32	---	---	---	---	PASS	A	11561290	A	A	11561290	3	1	169	1	0	0	0	0	1	0	0	0	12733	1232	43	3	243	3	PTCHD2	1	11561290	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08		11561290	237689331	1	60533										
CLCNKA	1187	broad.mit.edu	37	chr1	16355720	16355720	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ggcccgaggagctcgaccccCagcacctttggtgggaatgg	15	13	0	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:16355720C>A	uc001axu.2	+	12	1233	c.1153C>A	c.(1153-1155)CAG>AAG	p.Q385K	CLCNKA_uc001axt.2_RNA|CLCNKA_uc001axv.2_Missense_Mutation_p.Q385K|CLCNKA_uc010obw.1_Missense_Mutation_p.Q342K|CLCNKB_uc001axw.3_Intron|CLCNKA_uc010obx.1_Missense_Mutation_p.Q32K|CLCNKA_uc010oby.1_Missense_Mutation_p.P114Q	NM_004070	NP_004061	P51800	CLCKA_HUMAN	chloride channel Ka isoform 1	385					excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)	Niflumic Acid(DB04552)	GCTCGACCCCCAGCACCTTTG	0.622													24	16	---	---	---	---	PASS	A	16355720	A	A	16355720	3	1	169	1	0	0	0	0	1	0	0	0	3469	595	21	3	1195	3	CLCNKA	1	16355720	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	4794430	16355720	232894901	2	60534										
PAX7	5081	broad.mit.edu	37	chr1	19018313	19018313	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tcccactgaagcgcaagcagCgacgcagtcggaccacattc	10	15	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:19018313C>A	uc001bay.2	+	5	1250	c.652C>A	c.(652-654)CGA>AGA	p.R218R	PAX7_uc001baz.2_Silent_p.R216R|PAX7_uc010oct.1_Silent_p.R218R	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	218	Homeobox.				anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		GCGCAAGCAGCGACGCAGTCG	0.642			T	FOXO1A	alveolar rhabdomyosarcoma								6	1	---	---	---	---	PASS	A	19018313	A	A	19018313	2	1	169	1	0	0	0	0	0	0	0	1	11484	760	27	1		1	PAX7	1	19018313	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	2662593	19018313	230232308	3	60535										
KIAA0754	643314	broad.mit.edu	37	chr1	39876375	39876375	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aacttcccagaatttgcagaGaggatagaagcttctctcag	9	9	2	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:39876375G>T	uc009vvt.1	+	1	1200	c.438G>T	c.(436-438)GAG>GAT	p.E146D	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc010oiu.1_Intron	NM_015038	NP_055853	O94854	K0754_HUMAN	hypothetical protein LOC643314	10											0	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	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)			AATTTGCAGAGAGGATAGAAG	0.478													5	103	---	---	---	---	PASS	T	39876375	T	T	39876375	3	4	169	1	0	0	0	0	1	0	0	0	8192	933	33	2	440	2	KIAA0754	1	39876375	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	20858062	39876375	209374246	4	60536										
PTPRF	5792	broad.mit.edu	37	chr1	44084851	44084851	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cctgcaaccccctagacgcaGggcccatggtggtgcactgc	12	16	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:44084851G>T	uc001cjr.2	+	27	4964	c.4624G>T	c.(4624-4626)GGG>TGG	p.G1542W	PTPRF_uc001cjs.2_Missense_Mutation_p.G1533W|PTPRF_uc001cju.2_Missense_Mutation_p.G931W|PTPRF_uc009vwt.2_Missense_Mutation_p.G1102W|PTPRF_uc001cjv.2_Missense_Mutation_p.G1013W|PTPRF_uc001cjw.2_Missense_Mutation_p.G768W	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1542	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CCTAGACGCAGGGCCCATGGT	0.642													12	3	---	---	---	---	PASS	T	44084851	T	T	44084851	3	4	169	1	0	0	0	0	1	0	0	0	12801	1000	35	3	4722	3	PTPRF	1	44084851	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	4208476	44084851	205165770	5	60537										
USP1	7398	broad.mit.edu	37	chr1	62916148	62916148	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aattttgtggttgaccaaatGtgtgaaataggtaagccaga	11	4	0	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:62916148G>T	uc001daj.1	+	9	2182	c.1854G>T	c.(1852-1854)ATG>ATT	p.M618I	USP1_uc001dak.1_Missense_Mutation_p.M618I|USP1_uc001dal.1_Missense_Mutation_p.M618I	NM_001017415	NP_001017415	O94782	UBP1_HUMAN	ubiquitin specific protease 1	618					DNA repair|monoubiquitinated protein deubiquitination|regulation of DNA repair|response to UV|ubiquitin-dependent protein catabolic process	nucleoplasm	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1		all_neural(321;0.0281)		BRCA - Breast invasive adenocarcinoma(111;8.01e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00245)|OV - Ovarian serous cystadenocarcinoma(397;0.0535)		TTGACCAAATGTGTGAAATAG	0.378													11	20	---	---	---	---	PASS	T	62916148	T	T	62916148	3	4	169	1	0	0	0	0	1	0	0	0	17037	1377	48	3	1884	3	USP1	1	62916148	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	18831297	62916148	186334473	6	60538										
ANKRD13C	81573	broad.mit.edu	37	chr1	70819844	70819844	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gggagttggcagtcacggagGaattgtgcagcggcagagcc	18	8	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:70819844G>A	uc001dex.3	-	1	574	c.248C>T	c.(247-249)TCC>TTC	p.S83F	ANKRD13C_uc009wbk.2_Missense_Mutation_p.S83F|ANKRD13C_uc001dey.3_Missense_Mutation_p.S83F|HHLA3_uc010oqp.1_5'Flank|HHLA3_uc001dfa.2_5'Flank|HHLA3_uc001dfb.2_5'Flank|HHLA3_uc001dfc.2_5'Flank	NM_030816	NP_110443	Q8N6S4	AN13C_HUMAN	ankyrin repeat domain 13C	83					protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0						AGTCACGGAGGAATTGTGCAG	0.652													9	19	---	---	---	---	PASS	A	70819844	A	A	70819844	3	1	169	1	0	0	0	0	1	0	0	0	643	1174	41	2	1429	2	ANKRD13C	1	70819844	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	7903696	70819844	178430777	7	60539										
FLG2	388698	broad.mit.edu	37	chr1	152323767	152323767	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gtcctggaacctgtctgtgtGgactgtccatgaccagactg	12	11	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:152323767G>A	uc001ezw.3	-	3	6568	c.6495C>T	c.(6493-6495)TCC>TCT	p.S2165S	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	2165	Filaggrin 10.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGTCTGTGTGGACTGTCCAT	0.507													36	175	---	---	---	---	PASS	A	152323767	A	A	152323767	2	1	169	1	0	0	0	0	0	0	0	1	5923	1335	47	3		3	FLG2	1	152323767	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	81503923	152323767	96926854	8	60540										
MEF2D	4209	broad.mit.edu	37	chr1	156450735	156450735	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cgtcgggctcggggctgtcgCagccgttgaagcccttcttc	14	14	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:156450735C>T	uc001fpc.2	-	4	677	c.287G>A	c.(286-288)TGC>TAC	p.C96Y	MEF2D_uc001fpb.2_Missense_Mutation_p.C96Y|MEF2D_uc001fpd.2_Missense_Mutation_p.C96Y|MEF2D_uc001fpe.1_Missense_Mutation_p.C96Y|MEF2D_uc009wsa.2_RNA	NM_005920	NP_005911	Q14814	MEF2D_HUMAN	myocyte enhancer factor 2D	96					apoptosis|muscle organ development|nervous system development|positive regulation of transcription from RNA polymerase II promoter	nucleus	activating transcription factor binding|histone deacetylase binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GGGGCTGTCGCAGCCGTTGAA	0.672											OREG0013874	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	31	---	---	---	---	PASS	T	156450735	T	T	156450735	3	4	169	1	0	0	0	0	1	0	0	0	9458	710	25	3	1314	3	MEF2D	1	156450735	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	4126968	156450735	92799886	9	60541										
PYHIN1	149628	broad.mit.edu	37	chr1	158908982	158908982	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cacgtccacagccatgggccGttccccacctccccagacct	7	21	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:158908982G>A	uc001ftb.2	+	4	769	c.524G>A	c.(523-525)CGT>CAT	p.R175H	PYHIN1_uc001fta.3_Missense_Mutation_p.R175H|PYHIN1_uc001ftc.2_Missense_Mutation_p.R166H|PYHIN1_uc001ftd.2_Missense_Mutation_p.R175H|PYHIN1_uc001fte.2_Missense_Mutation_p.R166H	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	175					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					GCCATGGGCCGTTCCCCACCT	0.532													12	75	---	---	---	---	PASS	A	158908982	A	A	158908982	3	1	169	1	0	0	0	0	1	0	0	0	12865	1145	40	1	534	1	PYHIN1	1	158908982	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	2458247	158908982	90341639	10	60542										
FCGR3A	2214	broad.mit.edu	37	chr1	161518242	161518242	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tctagctgcaccgggtcactGagggtggagaggtttgtctg	16	8	3	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:161518242G>T	uc001gat.3	-	4	425	c.288C>A	c.(286-288)CTC>CTA	p.L96L	FCGR3A_uc001gar.2_Silent_p.L132L|FCGR3A_uc001gas.2_Silent_p.L131L|FCGR3A_uc009wuh.2_Silent_p.L95L|FCGR3A_uc009wui.2_Silent_p.L96L	NM_001127595	NP_001121067	P08637	FCG3A_HUMAN	Fc fragment of IgG, low affinity IIIa, receptor	96	Ig-like C2-type 1.|Extracellular (Potential).				immune response|regulation of immune response	extracellular region|integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCGGGTCACTGAGGGTGGAGA	0.512													13	105	---	---	---	---	PASS	T	161518242	T	T	161518242	2	4	169	1	0	0	0	0	0	0	0	1	5784	1277	45	2		2	FCGR3A	1	161518242	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	2609260	161518242	87732379	11	60543										
FCGR3B	2215	broad.mit.edu	37	chr1	161599599	161599599	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tctagctgcaccgggtcactGagggtggagaggtttgtctg	16	8	3	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:161599599G>T	uc009wul.2	-	3	562	c.288C>A	c.(286-288)CTC>CTA	p.L96L		NM_000570	NP_000561	O75015	FCG3B_HUMAN	low affinity immunoglobulin gamma Fc region	96	Ig-like C2-type 1.				immune response	anchored to membrane|extracellular region|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCGGGTCACTGAGGGTGGAGA	0.502													6	57	---	---	---	---	PASS	T	161599599	T	T	161599599	2	4	169	1	0	0	0	0	0	0	0	1	5785	1277	45	2		2	FCGR3B	1	161599599	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	81357	161599599	87651022	12	60544										
RASAL2	9462	broad.mit.edu	37	chr1	178425887	178425887	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aaaattggggcctctccctcGtgttcttgctgatattacca	8	11	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:178425887G>A	uc001glr.2	+	11	1945	c.1820G>A	c.(1819-1821)CGT>CAT	p.R607H	RASAL2_uc001glq.2_Missense_Mutation_p.R748H|RASAL2_uc009wxc.2_Missense_Mutation_p.R121H	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	607					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						CCTCTCCCTCGTGTTCTTGCT	0.453													53	214	---	---	---	---	PASS	A	178425887	A	A	178425887	3	1	169	1	0	0	0	0	1	0	0	0	13064	1145	40	1	2331	1	RASAL2	1	178425887	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	16826288	178425887	70824734	13	60545										
PRG4	10216	broad.mit.edu	37	chr1	186276983	186276983	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tgctccaactacccctaaagGgactgctccaactaccctca	5	17	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:186276983G>T	uc001gru.3	+	7	2183	c.2132G>T	c.(2131-2133)GGG>GTG	p.G711V	PRG4_uc001grt.3_Missense_Mutation_p.G670V|PRG4_uc009wyl.2_Missense_Mutation_p.G618V|PRG4_uc009wym.2_Missense_Mutation_p.G577V|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	711	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|43; approximate.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						ACCCCTAAAGGGACTGCTCCA	0.587													7	192	---	---	---	---	PASS	T	186276983	T	T	186276983	3	4	169	1	0	0	0	0	1	0	0	0	12481	1232	43	3	2154	3	PRG4	1	186276983	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	7851096	186276983	62973638	14	60546										
FAM58B	339521	broad.mit.edu	37	chr1	200183203	200183203	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctggcagcggacccccgttgCcgtcactgcctgggccctgc	13	18	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:200183203C>A	uc009wzi.1	+	1	548	c.512C>A	c.(511-513)GCC>GAC	p.A171D		NM_001105517	NP_001098987	P0C7Q3	FA58B_HUMAN	family with sequence similarity 58 member B	171					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	Prostate(682;0.19)					ACCCCCGTTGCCGTCACTGCC	0.632													8	31	---	---	---	---	PASS	A	200183203	A	A	200183203	3	1	169	1	0	0	0	0	1	0	0	0	5591	739	26	3	514	3	FAM58B	1	200183203	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	13906220	200183203	49067418	15	60547										
PPFIA4	8497	broad.mit.edu	37	chr1	203025576	203025576	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gacttctcctccttcctcacCcaggacgctgcggctagaga	9	16	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:203025576C>A	uc001gyz.2	+	5	1255	c.662C>A	c.(661-663)CCC>CAC	p.P221H	PPFIA4_uc009xaj.2_Missense_Mutation_p.P852H|PPFIA4_uc010pqf.1_Missense_Mutation_p.P434H|PPFIA4_uc001gza.2_Missense_Mutation_p.P221H|PPFIA4_uc001gzb.1_5'Flank	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	221					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						CCTTCCTCACCCAGGACGCTG	0.572													4	30	---	---	---	---	PASS	A	203025576	A	A	203025576	3	1	169	1	0	0	0	0	1	0	0	0	12312	623	22	3	680	3	PPFIA4	1	203025576	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	2842373	203025576	46225045	16	60548										
DUSP10	11221	broad.mit.edu	37	chr1	221913078	221913078	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	accctgtcgtctaaaggagaCggaggcatgaggaggctgaa	15	8	1	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:221913078C>T	uc001hmy.1	-	2	191	c.9G>A	c.(7-9)CCG>CCA	p.P3P	DUSP10_uc001hmx.1_5'Flank|DUSP10_uc001hmz.1_Intron	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	3					inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		CTAAAGGAGACGGAGGCATGA	0.483													37	27	---	---	---	---	PASS	T	221913078	T	T	221913078	2	4	169	1	0	0	0	0	0	0	0	1	4810	523	19	1		1	DUSP10	1	221913078	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	18887502	221913078	27337543	17	60549										
TTC13	79573	broad.mit.edu	37	chr1	231047278	231047278	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	actaaggataagattaagttGcagacagcatcagcctccta	8	9	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:231047278G>A	uc001huf.3	-	20	2278	c.2247C>T	c.(2245-2247)TGC>TGT	p.C749C	TTC13_uc009xfi.2_Silent_p.C696C|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Silent_p.C695C|TTC13_uc009xfk.1_Silent_p.C638C	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	749							binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		AGATTAAGTTGCAGACAGCAT	0.289													7	13	---	---	---	---	PASS	A	231047278	A	A	231047278	2	1	169	1	0	0	0	0	0	0	0	1	16677	1311	46	3		3	TTC13	1	231047278	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	9134200	231047278	18203343	18	60550										
RYR2	6262	broad.mit.edu	37	chr1	237664052	237664052	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gctcaccaaaccaacatctgTtaagaactgatgatgtcatc	6	11	3	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:237664052T>A	uc001hyl.1	+	21	2365	c.2245T>A	c.(2245-2247)TTA>ATA	p.L749I		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	749	Cytoplasmic (By similarity).|B30.2/SPRY 1.				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)			CCAACATCTGTTAAGAACTGA	0.393													99	105	---	---	---	---	PASS	A	237664052	A	A	237664052	3	1	169	1	0	0	0	0	1	0	0	0	13769	1722	60	5	2327	5	RYR2	1	237664052	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08	6616774	237664052	11586569	19	60551										
FMN2	56776	broad.mit.edu	37	chr1	240370373	240370373	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ccccacggaagagggcggggTgctgacactgcctcctgtgg	16	13	0	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:240370373T>G	uc010pyd.1	+	5	2486	c.2261T>G	c.(2260-2262)GTG>GGG	p.V754G	FMN2_uc010pye.1_Missense_Mutation_p.V758G	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	754					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GAGGGCGGGGTGCTGACACTG	0.542													6	16	---	---	---	---	PASS	G	240370373	G	G	240370373	3	3	169	1	0	0	0	0	1	0	0	0	5950	1696	59	5	2279	5	FMN2	1	240370373	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08	2706321	240370373	8880248	20	60552										
OR11L1	391189	broad.mit.edu	37	chr1	248004842	248004842	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	atggccaggtaacggtcataGgccatgaaggccaggagaaa	14	8	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr1:248004842G>T	uc001idn.1	-	1	357	c.357C>A	c.(355-357)GCC>GCA	p.A119A		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			AACGGTCATAGGCCATGAAGG	0.607													7	20	---	---	---	---	PASS	T	248004842	T	T	248004842	2	4	169	1	0	0	0	0	0	0	0	1	10930	987	35	3		3	OR11L1	1	248004842	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	7634469	248004842	1245779	21	60553										
GREB1	9687	broad.mit.edu	37	chr2	11733151	11733151	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ggccgagggcctctccgagaTgttccggctgttggtcgagg	17	11	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:11733151T>C	uc002rbk.1	+	11	1895	c.1595T>C	c.(1594-1596)ATG>ACG	p.M532T	GREB1_uc002rbo.1_Missense_Mutation_p.M166T	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	532						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)		CTCTCCGAGATGTTCCGGCTG	0.662													10	12	---	---	---	---	PASS	C	11733151	C	C	11733151	3	2	169	1	0	0	0	0	1	0	0	0	6760	1464	51	5	1741	5	GREB1	2	11733151	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08		11733151	231466222	22	60554										
FAM49A	81553	broad.mit.edu	37	chr2	16736368	16736368	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tagcagcccctccacactgtCtggggcctgctccttcaaaa	8	16	2	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:16736368C>G	uc010exm.1	-	10	1025	c.877G>C	c.(877-879)GAC>CAC	p.D293H	FAM49A_uc002rck.1_Missense_Mutation_p.D293H	NM_030797	NP_110424	Q9H0Q0	FA49A_HUMAN	family with sequence similarity 49, member A	293						intracellular					0	Acute lymphoblastic leukemia(172;0.0734)|all_hematologic(175;0.088)		GBM - Glioblastoma multiforme(3;0.00969)			TCCACACTGTCTGGGGCCTGC	0.448													5	36	---	---	---	---	PASS	G	16736368	G	G	16736368	3	3	169	1	0	0	0	0	1	0	0	0	5575	913	32	2	102	2	FAM49A	2	16736368	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	5003217	16736368	226463005	23	60555										
GALNT14	79623	broad.mit.edu	37	chr2	31165143	31165143	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aaccaagctttgtcgatcacGaagagccctccagctatgat	8	12	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:31165143G>A	uc002rnr.2	-	9	1474	c.855C>T	c.(853-855)TTC>TTT	p.F285F	GALNT14_uc002rnq.2_Silent_p.F265F|GALNT14_uc002rns.2_Silent_p.F290F|GALNT14_uc010ymr.1_Silent_p.F250F|GALNT14_uc010ezo.1_Silent_p.F252F|GALNT14_uc010ezp.1_Intron	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	285	Lumenal (Potential).|Catalytic subdomain B.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					TGTCGATCACGAAGAGCCCTC	0.498													17	43	---	---	---	---	PASS	A	31165143	A	A	31165143	2	1	169	1	0	0	0	0	0	0	0	1	6212	1049	37	2		2	GALNT14	2	31165143	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	14428775	31165143	212034230	24	60556										
PROKR1	10887	broad.mit.edu	37	chr2	68882479	68882479	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	caccgtgtttgtgaaggagaAgcactacctcactgccttct	9	12	2	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:68882479A>T	uc010yqj.1	+	2	953	c.953A>T	c.(952-954)AAG>ATG	p.K318M	PROKR1_uc002ses.2_RNA	NM_138964	NP_620414	Q8TCW9	PKR1_HUMAN	G protein-coupled receptor 73	318	Extracellular (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1						GTGAAGGAGAAGCACTACCTC	0.557													25	40	---	---	---	---	PASS	T	68882479	T	T	68882479	3	4	169	1	0	0	0	0	1	0	0	0	12552	72	3	5	959	5	PROKR1	2	68882479	Missense_Mutation	SNP	A	TCGA-66-2792-01A-01D-0983-08	37717336	68882479	174316894	25	60557										
REG3G	130120	broad.mit.edu	37	chr2	79253251	79253251	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	catggccctgcccagtgtgtCctggatgctgctttcctgcc	11	15	0	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:79253251C>A	uc002snw.2	+	2	117	c.32C>A	c.(31-33)TCC>TAC	p.S11Y	REG3G_uc002snx.2_Missense_Mutation_p.S11Y|REG3G_uc010ffu.2_Missense_Mutation_p.S11Y	NM_198448	NP_940850	Q6UW15	REG3G_HUMAN	regenerating islet-derived 3 gamma precursor	11					acute-phase response	extracellular region	sugar binding				0						CCCAGTGTGTCCTGGATGCTG	0.537													18	39	---	---	---	---	PASS	A	79253251	A	A	79253251	3	1	169	1	0	0	0	0	1	0	0	0	13213	855	30	2	34	2	REG3G	2	79253251	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	10370772	79253251	163946122	26	60558										
C2orf51	200523	broad.mit.edu	37	chr2	88828671	88828671	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	taccctgctttcaaaagaccCcacatgactgccaaagacct	5	15	1	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:88828671C>A	uc002stb.1	+	4	364	c.222C>A	c.(220-222)CCC>CCA	p.P74P		NM_152670	NP_689883	Q96LM6	TSC21_HUMAN	chromosome 2 open reading frame 51	74						nucleus				skin(1)	1						TCAAAAGACCCCACATGACTG	0.557													36	54	---	---	---	---	PASS	A	88828671	A	A	88828671	2	1	169	1	0	0	0	0	0	0	0	1	2173	610	22	3		3	C2orf51	2	88828671	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	9575420	88828671	154370702	27	60559										
EDAR	10913	broad.mit.edu	37	chr2	109539886	109539886	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ccatgccatagatgttcctcGgtctgttctccagcatgtag	9	12	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:109539886G>A	uc002teq.3	-	5	811	c.380C>T	c.(379-381)CCG>CTG	p.P127L	EDAR_uc010fjn.2_Missense_Mutation_p.P127L|EDAR_uc010yws.1_Missense_Mutation_p.P127L	NM_022336	NP_071731	Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor precursor	127	TNFR-Cys 3.|Extracellular (Potential).				apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1						GATGTTCCTCGGTCTGTTCTC	0.547													25	30	---	---	---	---	PASS	A	109539886	A	A	109539886	3	1	169	1	0	0	0	0	1	0	0	0	4905	1116	39	1	998	1	EDAR	2	109539886	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	20711215	109539886	133659487	28	60560										
ACTR3	10096	broad.mit.edu	37	chr2	114688952	114688952	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tttgagtccttcaatgttccAggcttgtacattgctgtgca	9	9	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:114688952A>T	uc002tkx.1	+	5	731	c.411A>T	c.(409-411)CCA>CCT	p.P137P	ACTR3_uc010yyc.1_Silent_p.P75P|ACTR3_uc010yyd.1_Silent_p.P86P	NM_005721	NP_005712	P61158	ARP3_HUMAN	ARP3 actin-related protein 3 homolog	137					cellular component movement|cilium morphogenesis	Arp2/3 protein complex	actin binding|ATP binding			skin(1)	1						TCAATGTTCCAGGCTTGTACA	0.318													18	24	---	---	---	---	PASS	T	114688952	T	T	114688952	2	4	169	1	0	0	0	0	0	0	0	1	212	175	7	5		5	ACTR3	2	114688952	Silent	SNP	A	TCGA-66-2792-01A-01D-0983-08	5149066	114688952	128510421	29	60561										
MARCO	8685	broad.mit.edu	37	chr2	119750717	119750717	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	caggtgaaaactcagtgtccGtcaggattgtcggcagtagt	13	8	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:119750717G>T	uc002tln.1	+	16	1402	c.1270G>T	c.(1270-1272)GTC>TTC	p.V424F	MARCO_uc010yyf.1_Missense_Mutation_p.V346F	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	424	SRCR.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						CTCAGTGTCCGTCAGGATTGT	0.517													12	138	---	---	---	---	PASS	T	119750717	T	T	119750717	3	4	169	1	0	0	0	0	1	0	0	0	9311	1145	40	1	1332	1	MARCO	2	119750717	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	5061765	119750717	123448656	30	60562										
CLASP1	23332	broad.mit.edu	37	chr2	122227508	122227508	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gaggaaggtctgttaccatcCacagaatcttcatcgtcgaa	9	10	3	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:122227508C>T	uc002tnc.2	-	9	1131	c.741G>A	c.(739-741)GTG>GTA	p.V247V	CLASP1_uc010yyw.1_RNA|CLASP1_uc002tnb.2_RNA|CLASP1_uc010yyx.1_RNA|CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Silent_p.V247V|CLASP1_uc010yza.1_Silent_p.V247V|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_RNA|CLASP1_uc002tng.1_Silent_p.V247V	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	247					axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					TGTTACCATCCACAGAATCTT	0.388													26	64	---	---	---	---	PASS	T	122227508	T	T	122227508	2	4	169	1	0	0	0	0	0	0	0	1	3454	581	21	3		3	CLASP1	2	122227508	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	2476791	122227508	120971865	31	60563										
CNTNAP5	129684	broad.mit.edu	37	chr2	125262047	125262047	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cacagagctgtctgagggctCgggaaccctgctgctgagcc	14	13	1	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:125262047C>A	uc002tno.2	+	8	1602	c.1238C>A	c.(1237-1239)TCG>TAG	p.S413*	CNTNAP5_uc010flu.2_Nonsense_Mutation_p.S414*	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	413	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TCTGAGGGCTCGGGAACCCTG	0.542													4	100	---	---	---	---	PASS	A	125262047	A	A	125262047	4	1	169	1	0	0	0	0	0	1	0	0	3650	893	31	2	1268	2	CNTNAP5	2	125262047	Nonsense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	3034539	125262047	117937326	32	60564										
LRP1B	53353	broad.mit.edu	37	chr2	141122335	141122335	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	attgcaaaggaactcatcagCtctacatatatttcctcctt	4	11	3	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:141122335C>A	uc002tvj.1	-	72	11998	c.11026G>T	c.(11026-11028)GCT>TCT	p.A3676S		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3676	Extracellular (Potential).|LDL-receptor class A 30.				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)		AACTCATCAGCTCTACATATA	0.393										TSP Lung(27;0.18)			24	30	---	---	---	---	PASS	A	141122335	A	A	141122335	3	1	169	1	0	0	0	0	1	0	0	0	8955	797	28	3	2853	3	LRP1B	2	141122335	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	15860288	141122335	102077038	33	60565										
KIF5C	3800	broad.mit.edu	37	chr2	149838057	149838057	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gccaatgagcagctgacagaCgagctggcccagaaaacggt	13	11	0	4			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:149838057C>T	uc010zbu.1	+	14	1919	c.1551C>T	c.(1549-1551)GAC>GAT	p.D517D	KIF5C_uc002tws.1_RNA|KIF5C_uc002twt.2_Silent_p.D69D	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	517					microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		AGCTGACAGACGAGCTGGCCC	0.512													7	11	---	---	---	---	PASS	T	149838057	T	T	149838057	2	4	169	1	0	0	0	0	0	0	0	1	8307	535	19	1		1	KIF5C	2	149838057	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	8715722	149838057	93361316	34	60566										
ANKAR	150709	broad.mit.edu	37	chr2	190571740	190571740	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aatacctgttttctatcggtGctaactggagaaaaacagat	8	7	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:190571740G>T	uc002uqw.1	+	8	1774	c.1774G>T	c.(1774-1776)GCT>TCT	p.A592S	ANKAR_uc002uqu.2_RNA	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	663	ANK 4.					integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			TTCTATCGGTGCTAACTGGAG	0.313													8	33	---	---	---	---	PASS	T	190571740	T	T	190571740	3	4	169	1	0	0	0	0	1	0	0	0	623	1319	46	3	2017	3	ANKAR	2	190571740	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	40733683	190571740	52627633	35	60567										
MSTN	2660	broad.mit.edu	37	chr2	190925015	190925015	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cataggtttgatgagtctcaGgatttgcacaaacactgttg	10	7	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr2:190925015G>T	uc002urp.2	-	2	653	c.520C>A	c.(520-522)CTG>ATG	p.L174M		NM_005259	NP_005250	O14793	GDF8_HUMAN	myostatin precursor	174					muscle organ development|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000742)|Epithelial(96;0.0121)|all cancers(119;0.0395)			ATGAGTCTCAGGATTTGCACA	0.398													6	78	---	---	---	---	PASS	T	190925015	T	T	190925015	3	4	169	1	0	0	0	0	1	0	0	0	9893	991	35	3	615	3	MSTN	2	190925015	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	353275	190925015	52274358	36	60568										
RBM6	10180	broad.mit.edu	37	chr3	50012788	50012788	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tttcggactcctgatggcatGcctgtaaagaacttgcagtt	10	9	0	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr3:50012788G>A	uc003cyc.2	+	5	1579	c.1446G>A	c.(1444-1446)ATG>ATA	p.M482I	RBM6_uc011bdh.1_RNA|RBM6_uc010hlc.1_Missense_Mutation_p.M1I|RBM6_uc003cyd.2_5'UTR|RBM6_uc003cye.2_Intron|RBM6_uc011bdi.1_Intron|RBM6_uc010hld.1_RNA|RBM6_uc010hle.1_RNA|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	482	RRM.				RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		CTGATGGCATGCCTGTAAAGA	0.383													32	33	---	---	---	---	PASS	A	50012788	A	A	50012788	3	1	169	1	0	0	0	0	1	0	0	0	13144	1319	46	3	1460	3	RBM6	3	50012788	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08		50012788	148009642	37	60569										
EPHA3	2042	broad.mit.edu	37	chr3	89456489	89456489	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gcggcagtagcaattattctCctcactgttgtcatctatgt	8	10	4	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr3:89456489C>A	uc003dqy.2	+	8	1890	c.1665C>A	c.(1663-1665)CTC>CTA	p.L555L	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	555	Helical; (Potential).					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		CAATTATTCTCCTCACTGTTG	0.413										TSP Lung(6;0.00050)			14	16	---	---	---	---	PASS	A	89456489	A	A	89456489	2	1	169	1	0	0	0	0	0	0	0	1	5168	842	30	2		2	EPHA3	3	89456489	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	39443701	89456489	108565941	38	60570										
OR5H6	79295	broad.mit.edu	37	chr3	97983832	97983832	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aactattcttatatcttataCaattatcctctttacaatct	0	9	4	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr3:97983832C>A	uc003dsi.1	+	1	704	c.704C>A	c.(703-705)ACA>AAA	p.T235K		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						ATATCTTATACAATTATCCTC	0.328													5	35	---	---	---	---	PASS	A	97983832	A	A	97983832	3	1	169	1	0	0	0	0	1	0	0	0	11163	478	17	3	706	3	OR5H6	3	97983832	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	8527343	97983832	100038598	39	60571										
HSPBAP1	79663	broad.mit.edu	37	chr3	122512524	122512524	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ggtcgcctcggagcctgctgCcatggctaccgcaaggcggg	16	14	0	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr3:122512524C>G	uc003efu.1	-	1	127	c.4G>C	c.(4-6)GCA>CCA	p.A2P	DIRC2_uc003efw.3_5'Flank|DIRC2_uc010hrl.2_5'Flank|DIRC2_uc010hrm.2_5'Flank|HSPBAP1_uc003efv.1_Missense_Mutation_p.A2P	NM_024610	NP_078886	Q96EW2	HBAP1_HUMAN	Hspb associated protein 1	2						cytoplasm				ovary(1)|lung(1)	2				GBM - Glioblastoma multiforme(114;0.0531)		GAGCCTGCTGCCATGGCTACC	0.662													29	28	---	---	---	---	PASS	G	122512524	G	G	122512524	3	3	169	1	0	0	0	0	1	0	0	0	7425	739	26	4	1494	4	HSPBAP1	3	122512524	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	24528692	122512524	75509906	40	60572										
RUVBL1	8607	broad.mit.edu	37	chr3	127820473	127820473	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tcgctctttctgcaaactttCaaaaatgctggggtccagct	8	11	3	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr3:127820473C>A	uc003ekh.2	-	5	636	c.532G>T	c.(532-534)GAA>TAA	p.E178*	RUVBL1_uc003eke.2_5'UTR|RUVBL1_uc003ekf.2_Nonsense_Mutation_p.E118*|RUVBL1_uc010hss.2_Nonsense_Mutation_p.E178*	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1	178					cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		TGCAAACTTTCAAAAATGCTG	0.418													7	292	---	---	---	---	PASS	A	127820473	A	A	127820473	4	1	169	1	0	0	0	0	0	1	0	0	13752	835	29	2	866	2	RUVBL1	3	127820473	Nonsense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	5307949	127820473	70201957	41	60573										
NPHP3	27031	broad.mit.edu	37	chr3	132400856	132400856	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gaaggagcttttccacccaaGagtgatgtttctgcttcttt	9	9	2	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr3:132400856G>C	uc003epe.1	-	27	3968	c.3891C>G	c.(3889-3891)CTC>CTG	p.L1297L	NPHP3_uc003eoz.1_Silent_p.L176L|NPHP3_uc003epd.1_Silent_p.L539L	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	1297					maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						TTCCACCCAAGAGTGATGTTT	0.388													58	30	---	---	---	---	PASS	C	132400856	C	C	132400856	2	2	169	1	0	0	0	0	0	0	0	1	10580	929	33	2		2	NPHP3	3	132400856	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	4580383	132400856	65621574	42	60574										
NMD3	51068	broad.mit.edu	37	chr3	160952514	160952514	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ggagtgtaattgttttatcaGgtgatgaatggtgctatcct	12	4	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr3:160952514G>T	uc003feb.1	+	6	477	c.358_splice	c.e6-1	p.V120_splice	NMD3_uc003fec.2_Splice_Site_p.V120_splice|NMD3_uc003fed.1_Splice_Site_p.V120_splice|NMD3_uc010hwh.2_5'Flank	NM_015938	NP_057022	Q96D46	NMD3_HUMAN	NMD3 homolog						protein transport	cytoplasm|nucleolus|nucleoplasm				ovary(1)	1			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			TGTTTTATCAGGTGATGAATG	0.308													4	47	---	---	---	---	PASS	T	160952514	T	T	160952514	5	4	169	1	0	0	0	0	0	0	1	0	10488	1014	35	3	375	3	NMD3	3	160952514	Splice_Site	SNP	G	TCGA-66-2792-01A-01D-0983-08	28551658	160952514	37069916	43	60575										
EPHB3	2049	broad.mit.edu	37	chr3	184297281	184297281	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ccagttgctcctggaatgaaGgtttatattgacccttttac	8	9	0	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr3:184297281G>T	uc003foz.2	+	10	2255	c.1818G>T	c.(1816-1818)AAG>AAT	p.K606N		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	606	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			CTGGAATGAAGGTTTATATTG	0.567													7	313	---	---	---	---	PASS	T	184297281	T	T	184297281	3	4	169	1	0	0	0	0	1	0	0	0	5176	991	35	3	1856	3	EPHB3	3	184297281	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	23344767	184297281	13725149	44	60576										
GAK	2580	broad.mit.edu	37	chr4	898493	898495	+	In_Frame_Del	DEL	AGA	-	-													0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cacggcgcggcacgtctggtAgaagatcttcagaaccgtgt							TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr4:898493_898495delAGA	uc003gbm.3	-	5	654_656	c.455_457delTCT	c.(454-459)TTCTAC>TAC	p.F152del	GAK_uc003gbn.3_In_Frame_Del_p.F73del|GAK_uc010ibk.1_Intron|GAK_uc003gbo.2_RNA|GAK_uc003gbl.3_In_Frame_Del_p.F16del	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	152	Protein kinase.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		CACGTCTGGTAGAAGATCTTCAG	0.552													11	16	---	---	---	---		-	898495	-	-	898493	7	5	169	1	0	1	0	1	0	0	0	0	6195	420	15	0	3574	0	GAK	4	898493	In_Frame_Del	DEL	AGA	TCGA-66-2792-01A-01D-0983-08		898493	190255783	45	60577										
WHSC2	7469	broad.mit.edu	37	chr4	1993339	1993339	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cctccagctccaggttaagcGagcctgtgtccggaaaggac	12	13	0	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr4:1993339G>T	uc003gem.2	-	2	587	c.347C>A	c.(346-348)TCG>TAG	p.S116*	WHSC2_uc003gel.2_Nonsense_Mutation_p.S30*|WHSC2_uc003gen.2_Intron	NM_005663	NP_005654	Q9H3P2	NELFA_HUMAN	Wolf-Hirschhorn syndrome candidate 2 protein	105					multicellular organismal development|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm				skin(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0155)			CAGGTTAAGCGAGCCTGTGTC	0.532													4	45	---	---	---	---	PASS	T	1993339	T	T	1993339	4	4	169	1	0	0	0	0	0	1	0	0	17361	1059	37	2	1312	2	WHSC2	4	1993339	Nonsense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	1094846	1993339	189160937	46	60578										
RGS12	6002	broad.mit.edu	37	chr4	3424106	3424106	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gtctcgctgctccccagtcgGaggcctgcaggactttggca	13	14	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr4:3424106G>A	uc003ggw.2	+	11	3746	c.2842G>A	c.(2842-2844)GAG>AAG	p.E948K	RGS12_uc003ggv.2_Missense_Mutation_p.E948K|RGS12_uc003ggy.1_Missense_Mutation_p.E346K|RGS12_uc003ggz.2_Missense_Mutation_p.E300K|RGS12_uc010icu.1_Missense_Mutation_p.E147K|RGS12_uc011bvs.1_Missense_Mutation_p.E290K|RGS12_uc003gha.2_Missense_Mutation_p.E290K|RGS12_uc010icv.2_Missense_Mutation_p.E147K|RGS12_uc003ghb.2_Missense_Mutation_p.E147K	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	948						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TCCCCAGTCGGAGGCCTGCAG	0.667													6	4	---	---	---	---	PASS	A	3424106	A	A	3424106	3	1	169	1	0	0	0	0	1	0	0	0	13295	1175	41	2	2938	2	RGS12	4	3424106	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	1430767	3424106	187730170	47	60579										
LGI2	55203	broad.mit.edu	37	chr4	25028544	25028544	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	catcccggatgatcgtgaatGagttagaattcagcaatctg	10	8	2	4			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr4:25028544G>A	uc003grf.2	-	3	386	c.287C>T	c.(286-288)TCA>TTA	p.S96L		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	96	LRR 1.					extracellular region					0		Breast(46;0.173)				GATCGTGAATGAGTTAGAATT	0.383													34	18	---	---	---	---	PASS	A	25028544	A	A	25028544	3	1	169	1	0	0	0	0	1	0	0	0	8752	1294	45	2	1374	2	LGI2	4	25028544	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	21604438	25028544	166125732	48	60580										
NPFFR2	10886	broad.mit.edu	37	chr4	73012827	73012827	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	atgttacatgtgcaagaagaAaaatattaccgagtgagact	9	5	0	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr4:73012827A>C	uc003hgg.2	+	4	965	c.867A>C	c.(865-867)GAA>GAC	p.E289D	NPFFR2_uc010iig.1_Missense_Mutation_p.E71D|NPFFR2_uc003hgi.2_Missense_Mutation_p.E190D|NPFFR2_uc003hgh.2_Missense_Mutation_p.E187D|NPFFR2_uc003hgj.2_RNA	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	289	Extracellular (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			TGCAAGAAGAAAAATATTACC	0.433													25	68	---	---	---	---	PASS	C	73012827	C	C	73012827	3	2	169	1	0	0	0	0	1	0	0	0	10578	11	1	5	887	5	NPFFR2	4	73012827	Missense_Mutation	SNP	A	TCGA-66-2792-01A-01D-0983-08	47984283	73012827	118141449	49	60581										
THAP6	152815	broad.mit.edu	37	chr4	76447060	76447060	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gtattgaagaattccaatccCagttcatttttgtaagtaaa	6	6	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr4:76447060C>T	uc003him.2	+	4	500	c.403C>T	c.(403-405)CAG>TAG	p.Q135*	THAP6_uc010iis.1_Nonsense_Mutation_p.Q94*|THAP6_uc003hin.2_Intron|THAP6_uc011cbm.1_Nonsense_Mutation_p.Q135*|THAP6_uc010iiu.1_RNA|THAP6_uc003hio.1_Intron|THAP6_uc010iiv.2_Nonsense_Mutation_p.Q135*	NM_144721	NP_653322	Q8TBB0	THAP6_HUMAN	THAP domain containing 6	135						microtubule cytoskeleton	DNA binding|metal ion binding				0			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			ATTCCAATCCCAGTTCATTTT	0.348													32	15	---	---	---	---	PASS	T	76447060	T	T	76447060	4	4	169	1	0	0	0	0	0	1	0	0	15845	595	21	3	413	3	THAP6	4	76447060	Nonsense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	3434233	76447060	114707216	50	60582										
DMP1	1758	broad.mit.edu	37	chr4	88583873	88583873	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aacccaggagagacagcaagGgtgactctcaagaagacagc	12	10	1	4	rs149603030		TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr4:88583873G>A	uc003hqv.2	+	6	1047	c.943G>A	c.(943-945)GGT>AGT	p.G315S	DMP1_uc003hqw.2_Missense_Mutation_p.G299S	NM_004407	NP_004398	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1 isoform 1	315					biomineral tissue development|ossification	cytoplasm|nucleus|proteinaceous extracellular matrix	calcium ion binding|integrin binding			pancreas(1)|skin(1)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)		AGACAGCAAGGGTGACTCTCA	0.512													13	36	---	---	---	---	PASS	A	88583873	A	A	88583873	3	1	169	1	0	0	0	0	1	0	0	0	4583	1232	43	3	961	3	DMP1	4	88583873	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	12136813	88583873	102570403	51	60583										
NFKB1	4790	broad.mit.edu	37	chr4	103498032	103498032	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctgttactgttttttctccaGcttcgcaaacctgggtatac	7	11	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr4:103498032G>T	uc011ceq.1	+	7	872	c.405_splice	c.e7-1	p.G135_splice	NFKB1_uc011cep.1_Splice_Site_p.G136_splice|NFKB1_uc011cer.1_5'Flank	NM_003998	NP_003989	P19838	NFKB1_HUMAN	nuclear factor kappa-B, subunit 1 isoform 1						anti-apoptosis|apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of calcidiol 1-monooxygenase activity|nerve growth factor receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter	cytosol|I-kappaB/NF-kappaB complex|mitochondrion|nucleoplasm	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|breast(2)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.59e-08)	Dexamethasone(DB01234)|Pranlukast(DB01411)|Thalidomide(DB01041)	TTTTTCTCCAGCTTCGCAAAC	0.383													39	18	---	---	---	---	PASS	T	103498032	T	T	103498032	5	4	169	1	0	0	0	0	0	0	1	0	10375	985	34	3	429	3	NFKB1	4	103498032	Splice_Site	SNP	G	TCGA-66-2792-01A-01D-0983-08	14914159	103498032	87656244	52	60584										
NEIL3	55247	broad.mit.edu	37	chr4	178243682	178243682	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	atggatatgtttacagtggcGtggaaactttggggaaggag	16	3	0	0	rs34112288	byFrequency	TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr4:178243682G>T	uc003iut.2	+	2	343	c.226G>T	c.(226-228)GTG>TTG	p.V76L	NEIL3_uc010irs.2_Intron	NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	76					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		TTACAGTGGCGTGGAAACTTT	0.393								BER_DNA_glycosylases					12	62	---	---	---	---	PASS	T	178243682	T	T	178243682	3	4	169	1	0	0	0	0	1	0	0	0	10320	1145	40	1	232	1	NEIL3	4	178243682	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	74745650	178243682	12910594	53	60585										
DNAH5	1767	broad.mit.edu	37	chr5	13737392	13737392	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tcctcccgggctgagttaatTtgaacttctgtctcagcaga	9	11	2	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr5:13737392T>C	uc003jfd.2	-	66	11466	c.11424A>G	c.(11422-11424)CAA>CAG	p.Q3808Q	DNAH5_uc003jfc.2_Intron	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3808	Potential.				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CTGAGTTAATTTGAACTTCTG	0.413									Kartagener_syndrome				17	70	---	---	---	---	PASS	C	13737392	C	C	13737392	2	2	169	1	0	0	0	0	0	0	0	1	4604	1838	64	5		5	DNAH5	5	13737392	Silent	SNP	T	TCGA-66-2792-01A-01D-0983-08		13737392	167177868	54	60586										
ADAMTS12	81792	broad.mit.edu	37	chr5	33662055	33662055	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	agccacgtcgtgatgaacagGattgaggtcactcttgggat	13	8	2	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr5:33662055G>C	uc003jia.1	-	6	1169	c.1006C>G	c.(1006-1008)CCT>GCT	p.P336A	ADAMTS12_uc010iuq.1_Missense_Mutation_p.P336A	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	336	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TGATGAACAGGATTGAGGTCA	0.493										HNSCC(64;0.19)			14	72	---	---	---	---	PASS	C	33662055	C	C	33662055	3	2	169	1	0	0	0	0	1	0	0	0	257	1174	41	2	3854	2	ADAMTS12	5	33662055	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	19924663	33662055	147253205	55	60587										
UGT3A2	167127	broad.mit.edu	37	chr5	36049132	36049132	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	agaagatgagacaaaactggCctagagccttctgtgaaatg	11	7	1	5			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr5:36049132C>A	uc003jjz.1	-	4	795	c.702G>T	c.(700-702)AGG>AGT	p.R234S	UGT3A2_uc011cos.1_Missense_Mutation_p.R200S|UGT3A2_uc011cot.1_Intron	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	234	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ACAAAACTGGCCTAGAGCCTT	0.418													101	34	---	---	---	---	PASS	A	36049132	A	A	36049132	3	1	169	1	0	0	0	0	1	0	0	0	16961	738	26	3	885	3	UGT3A2	5	36049132	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	2387077	36049132	144866128	56	60588										
C5orf42	65250	broad.mit.edu	37	chr5	37169396	37169396	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gggaacttgtggaatacttcCtgtatgtaagaaaaggggct	13	5	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr5:37169396C>A	uc011cpa.1	-	34	6961	c.6730G>T	c.(6730-6732)GGA>TGA	p.G2244*	C5orf42_uc011coy.1_Nonsense_Mutation_p.G744*|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Nonsense_Mutation_p.G1319*|C5orf42_uc003jkr.1_Nonsense_Mutation_p.G277*	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2244										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			GGAATACTTCCTGTATGTAAG	0.448													6	139	---	---	---	---	PASS	A	37169396	A	A	37169396	4	1	169	1	0	0	0	0	0	1	0	0	2301	690	24	3	2939	3	C5orf42	5	37169396	Nonsense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	1120264	37169396	143745864	57	60589										
MAN2A1	4124	broad.mit.edu	37	chr5	109181611	109181611	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aattgcctcttcaagcaaatGtctatcccatgaccacaatg	5	12	3	1	rs142363192		TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr5:109181611G>T	uc003kou.1	+	18	3709	c.2746G>T	c.(2746-2748)GTC>TTC	p.V916F		NM_002372	NP_002363	Q16706	MA2A1_HUMAN	mannosidase, alpha, class 2A, member 1	916	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(142;8.66e-07)|all_epithelial(76;7.73e-09)|Prostate(80;0.000303)|Lung NSC(167;0.0186)|all_lung(232;0.0241)|Ovarian(225;0.0444)|Colorectal(57;0.0959)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;2.17e-10)|Epithelial(69;1.37e-09)|COAD - Colon adenocarcinoma(37;0.141)		TCAAGCAAATGTCTATCCCAT	0.378													37	21	---	---	---	---	PASS	T	109181611	T	T	109181611	3	4	169	1	0	0	0	0	1	0	0	0	9214	1377	48	3	2816	3	MAN2A1	5	109181611	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	72012215	109181611	71733649	58	60590										
FTMT	94033	broad.mit.edu	37	chr5	121188071	121188071	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gctgcagaaccagcgaggagGccggatccgcctgcaggaca	15	13	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr5:121188071G>C	uc003kss.2	+	1	422	c.413G>C	c.(412-414)GGC>GCC	p.G138A		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	138	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		CAGCGAGGAGGCCGGATCCGC	0.582													25	5	---	---	---	---	PASS	C	121188071	C	C	121188071	3	2	169	1	0	0	0	0	1	0	0	0	6085	1203	42	4	415	4	FTMT	5	121188071	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	12006460	121188071	59727189	59	60591										
SEPT8	23176	broad.mit.edu	37	chr5	132099577	132099577	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	atcgatgtagtcaactatggGcctgtaactacagacagctc	9	10	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr5:132099577G>A	uc003kxr.2	-	4	593	c.355C>T	c.(355-357)CCC>TCC	p.P119S	SEPT8_uc003kxs.1_Missense_Mutation_p.P119S|SEPT8_uc003kxu.2_Missense_Mutation_p.P119S|SEPT8_uc011cxi.1_Missense_Mutation_p.P117S|SEPT8_uc003kxv.2_Missense_Mutation_p.P117S|SEPT8_uc003kxt.2_Missense_Mutation_p.P59S	NM_001098811	NP_001092281	Q92599	SEPT8_HUMAN	septin 8 isoform a	119					cell cycle	septin complex	GTP binding|protein binding			ovary(2)	2		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCAACTATGGGCCTGTAACTA	0.587											OREG0003468	type=REGULATORY REGION|Gene=LOC540614|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	10	70	---	---	---	---	PASS	A	132099577	A	A	132099577	3	1	169	1	0	0	0	0	1	0	0	0	14070	1203	42	3	1179	3	SEPT8	5	132099577	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	10911506	132099577	48815683	60	60592										
HAVCR1	26762	broad.mit.edu	37	chr5	156482444	156482444	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gtgaatagagaacatgagccTctattccagcacatggatgt	10	8	1	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr5:156482444T>G	uc010jij.1	-	3	332	c.147A>C	c.(145-147)AGA>AGC	p.R49S	HAVCR1_uc011ddl.1_5'Flank|HAVCR1_uc003lwi.2_Missense_Mutation_p.R49S|HAVCR1_uc011ddm.1_Missense_Mutation_p.R49S	NM_001099414	NP_001092884	Q96D42	HAVR1_HUMAN	hepatitis A virus cellular receptor 1	49	Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms	integral to membrane	receptor activity			ovary(1)|skin(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AACATGAGCCTCTATTCCAGC	0.502													11	9	---	---	---	---	PASS	G	156482444	G	G	156482444	3	3	169	1	0	0	0	0	1	0	0	0	6973	1548	54	5	975	5	HAVCR1	5	156482444	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08	24382867	156482444	24432816	61	60593										
KCNMB1	3779	broad.mit.edu	37	chr5	169810700	169810700	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tacctgctggttctggtcccGagtgtcctccgtgtggtaca	12	12	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr5:169810700G>T	uc003maq.1	-	3	689	c.289C>A	c.(289-291)CGG>AGG	p.R97R	KCNIP1_uc003map.2_Intron|KCNMB1_uc003mar.2_Silent_p.R97R	NM_004137	NP_004128	Q16558	KCMB1_HUMAN	potassium large conductance calcium-activated	97	Extracellular (Potential).				platelet activation|synaptic transmission		calcium-activated potassium channel activity|potassium channel regulator activity			ovary(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0165)|all_lung(126;0.026)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.175)		TTCTGGTCCCGAGTGTCCTCC	0.582													3	30	---	---	---	---	PASS	T	169810700	T	T	169810700	2	4	169	1	0	0	0	0	0	0	0	1	8074	1057	37	2		2	KCNMB1	5	169810700	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	13328256	169810700	11104560	62	60594										
OR12D3	81797	broad.mit.edu	37	chr6	29342547	29342547	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tgacatcgtagaagaagtgaTtgagtttctgagagccacaa	11	6	1	6			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr6:29342547T>C	uc003nme.2	-	1	522	c.518A>G	c.(517-519)AAT>AGT	p.N173S		NM_030959	NP_112221	Q9UGF7	O12D3_HUMAN	olfactory receptor, family 12, subfamily D,	173	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3						GAAGAAGTGATTGAGTTTCTG	0.463													19	36	---	---	---	---	PASS	C	29342547	C	C	29342547	3	2	169	1	0	0	0	0	1	0	0	0	10932	1493	52	5	436	5	OR12D3	6	29342547	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08		29342547	141772520	63	60595										
BRD2	6046	broad.mit.edu	37	chr6	32947734	32947734	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	agcctggacatcaacaaattAcctggggagaagctgggccg	13	10	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr6:32947734A>G	uc003ocn.3	+	11	3672	c.1971A>G	c.(1969-1971)TTA>TTG	p.L657L	BRD2_uc003ocq.3_Silent_p.L657L|BRD2_uc003ocp.3_Silent_p.L537L|BRD2_uc010juh.2_Silent_p.L692L	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	657	ET.				spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						TCAACAAATTACCTGGGGAGA	0.502													13	19	---	---	---	---	PASS	G	32947734	G	G	32947734	2	3	169	1	0	0	0	0	0	0	0	1	1502	388	14	5		5	BRD2	6	32947734	Silent	SNP	A	TCGA-66-2792-01A-01D-0983-08	3605187	32947734	138167333	64	60596										
UNC5CL	222643	broad.mit.edu	37	chr6	41002666	41002666	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aggctgggacactggttcctCttgaccattcagtgtccagc	11	12	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr6:41002666C>A	uc003opi.2	-	2	237	c.148G>T	c.(148-150)GAG>TAG	p.E50*	UNC5CL_uc010jxe.1_Nonsense_Mutation_p.E50*	NM_173561	NP_775832	Q8IV45	UN5CL_HUMAN	unc-5 homolog C-like	50	Cytoplasmic (Potential).				signal transduction	cytoplasm|integral to membrane				ovary(2)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					ACTGGTTCCTCTTGACCATTC	0.597													4	42	---	---	---	---	PASS	A	41002666	A	A	41002666	4	1	169	1	0	0	0	0	0	1	0	0	16991	922	32	2	1440	2	UNC5CL	6	41002666	Nonsense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	8054932	41002666	130112401	65	60597										
RMND1	55005	broad.mit.edu	37	chr6	151766462	151766462	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cctcgttcacagacagaactGgaaggttggtcctggatggc	13	10	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr6:151766462G>T	uc003qoi.2	-	2	665	c.485C>A	c.(484-486)CCA>CAA	p.P162Q	RMND1_uc011eeq.1_5'Flank|RMND1_uc003qoj.2_Missense_Mutation_p.P162Q|RMND1_uc011eer.1_Missense_Mutation_p.P162Q	NM_017909	NP_060379	Q9NWS8	RMND1_HUMAN	required for meiotic nuclear division 1 homolog	162											0		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.146)	OV - Ovarian serous cystadenocarcinoma(155;6.8e-11)		AGACAGAACTGGAAGGTTGGT	0.502													4	35	---	---	---	---	PASS	T	151766462	T	T	151766462	3	4	169	1	0	0	0	0	1	0	0	0	13396	1348	47	3	908	3	RMND1	6	151766462	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	110763796	151766462	19348605	66	60598										
TIAM2	26230	broad.mit.edu	37	chr6	155578117	155578117	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctcaaggcgcagatccgtcaCcagtcccttgacagtcagtc	9	15	3	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr6:155578117C>A	uc003qqb.2	+	29	6241	c.4968C>A	c.(4966-4968)CAC>CAA	p.H1656Q	TIAM2_uc003qqe.2_Missense_Mutation_p.H1656Q|TIAM2_uc010kjj.2_Missense_Mutation_p.H1218Q|TIAM2_uc003qqf.2_Missense_Mutation_p.H1032Q|TIAM2_uc011efl.1_Missense_Mutation_p.H1000Q|TIAM2_uc003qqg.2_Missense_Mutation_p.H968Q|TIAM2_uc003qqh.2_Missense_Mutation_p.H581Q|uc003qqi.1_5'Flank	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1656					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		AGATCCGTCACCAGTCCCTTG	0.507													15	19	---	---	---	---	PASS	A	155578117	A	A	155578117	3	1	169	1	0	0	0	0	1	0	0	0	15888	506	18	3	5062	3	TIAM2	6	155578117	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	3811655	155578117	15536950	67	60599										
NOX3	50508	broad.mit.edu	37	chr6	155750148	155750148	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aaagccacgctttttcatgtGaagttccaggactccagagg	10	10	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr6:155750148G>A	uc003qqm.2	-	9	1028	c.925C>T	c.(925-927)CAC>TAC	p.H309Y		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	309	Extracellular (Potential).|FAD-binding FR-type.						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		TTTTTCATGTGAAGTTCCAGG	0.493													5	115	---	---	---	---	PASS	A	155750148	A	A	155750148	3	1	169	1	0	0	0	0	1	0	0	0	10557	1290	45	2	801	2	NOX3	6	155750148	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	172031	155750148	15364919	68	60600										
TULP4	56995	broad.mit.edu	37	chr6	158900915	158900915	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tgtgccagcaggccatcgccAgcaccttgcgtgaggacaag	13	13	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr6:158900915A>T	uc003qrf.2	+	7	2516	c.1159A>T	c.(1159-1161)AGC>TGC	p.S387C	TULP4_uc011efo.1_Missense_Mutation_p.S387C|TULP4_uc003qrg.2_Missense_Mutation_p.S387C	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	387	SOCS box.				intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		GGCCATCGCCAGCACCTTGCG	0.627													19	18	---	---	---	---	PASS	T	158900915	T	T	158900915	3	4	169	1	0	0	0	0	1	0	0	0	16773	188	7	5	1185	5	TULP4	6	158900915	Missense_Mutation	SNP	A	TCGA-66-2792-01A-01D-0983-08	3150767	158900915	12214152	69	60601										
INTS1	26173	broad.mit.edu	37	chr7	1538685	1538687	+	In_Frame_Del	DEL	TGA	-	-													0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cttatagccgcaggtggaggTgaggagccgcaggaggttcc							TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr7:1538685_1538687delTGA	uc003skn.2	-	8	1162_1164	c.1061_1063delTCA	c.(1060-1065)CTCACC>CCC	p.354_355LT>P	INTS1_uc003skq.2_In_Frame_Del_p.354_355LT>P	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	354_355					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CAGGTGGAGGTGAGGAGCCGCAG	0.567													3	3	---	---	---	---		-	1538687	-	-	1538685	7	5	169	1	0	1	0	1	0	0	0	0	7775	1696	59	0	5673	0	INTS1	7	1538685	In_Frame_Del	DEL	TGA	TCGA-66-2792-01A-01D-0983-08		1538685	157599978	70	60602										
POM121L12	285877	broad.mit.edu	37	chr7	53104165	53104165	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ccatccgccatctgggacttCtgggaggcgacaacgccttc	11	15	2	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr7:53104165C>T	uc003tpz.2	+	1	817	c.801C>T	c.(799-801)TTC>TTT	p.F267F		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	267											0						TCTGGGACTTCTGGGAGGCGA	0.642													18	219	---	---	---	---	PASS	T	53104165	T	T	53104165	2	4	169	1	0	0	0	0	0	0	0	1	12241	912	32	2		2	POM121L12	7	53104165	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	51565480	53104165	106034498	71	60603										
MRPS17	51373	broad.mit.edu	37	chr7	56020981	56020981	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	actgctaaagtgagagtgacCaggcttgttctggatcccta	11	9	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr7:56020981C>A	uc003trd.2	+	2	123	c.93C>A	c.(91-93)ACC>ACA	p.T31T	MRPS17_uc003trb.2_Silent_p.T126T	NM_015969	NP_057053	Q9Y2R5	RT17_HUMAN	mitochondrial ribosomal protein S17 precursor	31					translation	mitochondrial small ribosomal subunit	rRNA binding|structural constituent of ribosome				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TGAGAGTGACCAGGCTTGTTC	0.458													7	447	---	---	---	---	PASS	A	56020981	A	A	56020981	2	1	169	1	0	0	0	0	0	0	0	1	9827	581	21	3		3	MRPS17	7	56020981	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	2916816	56020981	103117682	72	60604										
SEMA3C	10512	broad.mit.edu	37	chr7	80439994	80439994	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ccttttccagattcacacttGgagtcaatcatgaaaacttg	6	10	3	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr7:80439994G>C	uc003uhj.2	-	6	1033	c.471C>G	c.(469-471)TCC>TCG	p.S157S	SEMA3C_uc011kgw.1_Silent_p.S175S|SEMA3C_uc011kgx.1_Silent_p.S9S	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	157	Sema.				immune response|response to drug	membrane	receptor activity			ovary(1)	1						ATTCACACTTGGAGTCAATCA	0.358													26	41	---	---	---	---	PASS	C	80439994	C	C	80439994	2	2	169	1	0	0	0	0	0	0	0	1	14026	1335	47	4		4	SEMA3C	7	80439994	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	24419013	80439994	78698669	73	60605										
UFSP1	402682	broad.mit.edu	37	chr7	100486765	100486765	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gcctctccagctccccgtgcAgccccactccccggggtacg	10	21	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr7:100486765A>T	uc003uxc.3	-	1	575	c.128T>A	c.(127-129)CTG>CAG	p.L43Q	uc010lhm.1_5'Flank	NM_001015072	NP_001015072	Q6NVU6	UFSP1_HUMAN	inactive Ufm1-specific protease 1	43											0	Lung NSC(181;0.041)|all_lung(186;0.0581)					CTCCCCGTGCAGCCCCACTCC	0.701													12	26	---	---	---	---	PASS	T	100486765	T	T	100486765	3	4	169	1	0	0	0	0	1	0	0	0	16934	188	7	5	304	5	UFSP1	7	100486765	Missense_Mutation	SNP	A	TCGA-66-2792-01A-01D-0983-08	20046771	100486765	58651898	74	60606										
PPP1R3A	5506	broad.mit.edu	37	chr7	113558921	113558921	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cttcagaagaatcagaacctCgtctacttggttgaggggag	12	8	3	4			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr7:113558921C>A	uc010ljy.1	-	1	162	c.131G>T	c.(130-132)CGA>CTA	p.R44L		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	44					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						ATCAGAACCTCGTCTACTTGG	0.378													4	96	---	---	---	---	PASS	A	113558921	A	A	113558921	3	1	169	1	0	0	0	0	1	0	0	0	12371	884	31	2	3253	2	PPP1R3A	7	113558921	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	13072156	113558921	45579742	75	60607										
GCC1	79571	broad.mit.edu	37	chr7	127222187	127222187	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gagagtctgctggcggcccaGggagtcaggtaaggtcagga	18	8	3	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr7:127222187G>A	uc003vma.2	-	2	2627	c.2209C>T	c.(2209-2211)CTG>TTG	p.L737L		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	737	Potential.|GRIP.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						TGGCGGCCCAGGGAGTCAGGT	0.532													18	68	---	---	---	---	PASS	A	127222187	A	A	127222187	2	1	169	1	0	0	0	0	0	0	0	1	6285	991	35	3		3	GCC1	7	127222187	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	13663266	127222187	31916476	76	60608										
MKRN1	23608	broad.mit.edu	37	chr7	140156495	140156495	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cttagcactcctccacttgcGaatgcacttgagacagtagg	9	12	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr7:140156495G>A	uc003vvt.2	-	5	1168	c.943C>T	c.(943-945)CGC>TGC	p.R315C	MKRN1_uc003vvs.2_Missense_Mutation_p.R251C|MKRN1_uc011krd.1_Missense_Mutation_p.R49C|MKRN1_uc003vvv.3_Missense_Mutation_p.R315C|MKRN1_uc003vvu.3_Missense_Mutation_p.R251C	NM_013446	NP_038474	Q9UHC7	MKRN1_HUMAN	makorin ring finger protein 1 isoform 1	315	RING-type.						ligase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.00956)					CTCCACTTGCGAATGCACTTG	0.488													13	40	---	---	---	---	PASS	A	140156495	A	A	140156495	3	1	169	1	0	0	0	0	1	0	0	0	9606	1058	37	2	525	2	MKRN1	7	140156495	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	12934308	140156495	18982168	77	60609										
USP17L2	377630	broad.mit.edu	37	chr8	11995031	11995031	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aactcgggtgcctggaggcaGgggtggtctctcttgagctc	16	10	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:11995031G>C	uc003wvc.1	-	1	1239	c.1239C>G	c.(1237-1239)CCC>CCG	p.P413P	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	413					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3						CCTGGAGGCAGGGGTGGTCTC	0.567													39	68	---	---	---	---	PASS	C	11995031	C	C	11995031	2	2	169	1	0	0	0	0	0	0	0	1	17045	987	35	4		4	USP17L2	8	11995031	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08		11995031	134368991	78	60610										
RP1	6101	broad.mit.edu	37	chr8	55539267	55539267	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tccagtatgtagaaatgaaaCgagtgtggtaaattgtagca	11	4	0	2	rs112323560		TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:55539267C>T	uc003xsd.1	+	4	2973	c.2825C>T	c.(2824-2826)ACG>ATG	p.T942M	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	942					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			AGAAATGAAACGAGTGTGGTA	0.303													12	34	---	---	---	---	PASS	T	55539267	T	T	55539267	3	4	169	1	0	0	0	0	1	0	0	0	13532	536	19	1	2835	1	RP1	8	55539267	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	43544236	55539267	90824755	79	60611										
HNF4G	3174	broad.mit.edu	37	chr8	76470903	76470903	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ggcaattgtattttttgatcCaggttggttttcaaaattcc	8	6	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:76470903C>A	uc003yaq.2	+	8	1013	c.743C>A	c.(742-744)CCA>CAA	p.P248Q	HNF4G_uc003yar.2_Missense_Mutation_p.P285Q	NM_004133	NP_004124	Q14541	HNF4G_HUMAN	hepatocyte nuclear factor 4, gamma	248					endocrine pancreas development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1	Breast(64;0.0448)		BRCA - Breast invasive adenocarcinoma(89;0.161)			TTTTTTGATCCAGGTTGGTTT	0.303													5	145	---	---	---	---	PASS	A	76470903	A	A	76470903	3	1	169	1	0	0	0	0	1	0	0	0	7254	594	21	3	880	3	HNF4G	8	76470903	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	20931636	76470903	69893119	80	60612										
PSKH2	85481	broad.mit.edu	37	chr8	87060971	87060971	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gtttgtctataaagtccttcGccaagtgggaaatgcttggc	11	8	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:87060971G>T	uc011lfy.1	-	3	878	c.878C>A	c.(877-879)GCG>GAG	p.A293E		NM_033126	NP_149117	Q96QS6	KPSH2_HUMAN	protein serine kinase H2	293	Protein kinase.						ATP binding|protein serine/threonine kinase activity			stomach(2)|lung(2)|ovary(1)	5			STAD - Stomach adenocarcinoma(118;0.129)			AAAGTCCTTCGCCAAGTGGGA	0.413													9	30	---	---	---	---	PASS	T	87060971	T	T	87060971	3	4	169	1	0	0	0	0	1	0	0	0	12665	1087	38	1	281	1	PSKH2	8	87060971	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	10590068	87060971	59303051	81	60613										
MATN2	4147	broad.mit.edu	37	chr8	98943719	98943719	+	Silent	SNP	G	A	A													0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aatttcagccagattgagacGctgacctccgtgttccagaa							TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:98943719G>A	uc003yic.2	+	3	912	c.681G>A	c.(679-681)ACG>ACA	p.T227T	MATN2_uc003yib.1_Silent_p.T227T|MATN2_uc010mbh.1_Silent_p.T227T|MATN2_uc003yid.2_Silent_p.T227T|MATN2_uc003yie.1_Silent_p.T227T|MATN2_uc010mbi.1_Silent_p.T101T	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	227	VWFA 1.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			AGATTGAGACGCTGACCTCCG	0.443													17	45	---	---	---	---	PASS	A	98943719	A	A	98943719	2	1	169	1	0	0	0	0	0	0	0	1	9334	1074	38	1		1	MATN2	8	98943719	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	11882748	98943719	47420303	82	60614	1061	2								
MATN2	4147	broad.mit.edu	37	chr8	98943720	98943720	+	Missense_Mutation	SNP	C	A	A													0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	atttcagccagattgagacgCtgacctccgtgttccagaag							TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:98943720C>A	uc003yic.2	+	3	913	c.682C>A	c.(682-684)CTG>ATG	p.L228M	MATN2_uc003yib.1_Missense_Mutation_p.L228M|MATN2_uc010mbh.1_Missense_Mutation_p.L228M|MATN2_uc003yid.2_Missense_Mutation_p.L228M|MATN2_uc003yie.1_Missense_Mutation_p.L228M|MATN2_uc010mbi.1_Missense_Mutation_p.L102M	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	228	VWFA 1.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			GATTGAGACGCTGACCTCCGT	0.443													17	45	---	---	---	---	PASS	A	98943720	A	A	98943720	3	1	169	1	0	0	0	0	1	0	0	0	9334	796	28	3	688	3	MATN2	8	98943720	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	1	98943720	47420302	83	60615	1061	2								
KCNS2	3788	broad.mit.edu	37	chr8	99441494	99441494	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cttgagagtgccatgcgcagCtgtgactttggagatggaat	14	7	0	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:99441494C>A	uc003yin.2	+	2	1637	c.1287C>A	c.(1285-1287)AGC>AGA	p.S429R		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	429	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			CCATGCGCAGCTGTGACTTTG	0.488													15	124	---	---	---	---	PASS	A	99441494	A	A	99441494	3	1	169	1	0	0	0	0	1	0	0	0	8089	796	28	3	1289	3	KCNS2	8	99441494	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	497774	99441494	46922528	84	60616										
VPS13B	157680	broad.mit.edu	37	chr8	100789166	100789166	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aattccatctttgtcatcacCttgaccaactaggcacaggt	6	12	3	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:100789166C>A	uc003yiv.2	+	41	7597	c.7486C>A	c.(7486-7488)CTT>ATT	p.L2496I	VPS13B_uc003yiw.2_Missense_Mutation_p.L2471I	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2496					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TTGTCATCACCTTGACCAACT	0.408													5	97	---	---	---	---	PASS	A	100789166	A	A	100789166	3	1	169	1	0	0	0	0	1	0	0	0	17187	681	24	3	7838	3	VPS13B	8	100789166	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	1347672	100789166	45574856	85	60617										
UBR5	51366	broad.mit.edu	37	chr8	103309124	103309124	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	actagaattgtactcacttgCaatcatgacctttatgacaa	5	9	2	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:103309124C>A	uc003ykr.1	-	28	3695	c.3662G>T	c.(3661-3663)TGC>TTC	p.C1221F	UBR5_uc003yks.1_Missense_Mutation_p.C1221F	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1221	UBR-type.				cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TACTCACTTGCAATCATGACC	0.328													10	15	---	---	---	---	PASS	A	103309124	A	A	103309124	3	1	169	1	0	0	0	0	1	0	0	0	16902	710	25	3	4865	3	UBR5	8	103309124	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	2519958	103309124	43054898	86	60618										
PKHD1L1	93035	broad.mit.edu	37	chr8	110478882	110478882	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tactcaggaagctgagtggaGcattgggttccctggatcag	14	8	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:110478882G>A	uc003yne.2	+	50	8593	c.8489G>A	c.(8488-8490)AGC>AAC	p.S2830N		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2830	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GCTGAGTGGAGCATTGGGTTC	0.468										HNSCC(38;0.096)			4	12	---	---	---	---	PASS	A	110478882	A	A	110478882	3	1	169	1	0	0	0	0	1	0	0	0	11972	971	34	3	8687	3	PKHD1L1	8	110478882	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	7169758	110478882	35885140	87	60619										
KLHL38	340359	broad.mit.edu	37	chr8	124663821	124663821	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	agaaccggccatttacctggAtaaggcgcacagggttctgc	12	11	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:124663821A>T	uc003yqs.1	-	1	1370	c.1346T>A	c.(1345-1347)ATC>AAC	p.I449N		NM_001081675	NP_001075144	Q2WGJ6	KLH38_HUMAN	kelch-like 38	449	Kelch 4.										0						ATTTACCTGGATAAGGCGCAC	0.507													21	102	---	---	---	---	PASS	T	124663821	T	T	124663821	3	4	169	1	0	0	0	0	1	0	0	0	8390	333	12	5	411	5	KLHL38	8	124663821	Missense_Mutation	SNP	A	TCGA-66-2792-01A-01D-0983-08	14184939	124663821	21700201	88	60620										
SLURP1	57152	broad.mit.edu	37	chr8	143823221	143823221	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gccgtggggcctggcctcacCtgcctccaccgtcaccagcg	12	19	2	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:143823221C>A	uc003ywy.2	-	2	204	c.178G>T	c.(178-180)GAG>TAG	p.E60*		NM_020427	NP_065160	P55000	SLUR1_HUMAN	ARS component B precursor	60	UPAR/Ly6.				cell activation|cell adhesion	extracellular space	cytokine activity				0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					CTGGCCTCACCTGCCTCCACC	0.662													6	22	---	---	---	---	PASS	A	143823221	A	A	143823221	4	1	169	1	0	0	0	0	0	1	0	0	14756	695	24	3	141	3	SLURP1	8	143823221	Nonsense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	19159400	143823221	2540801	89	60621										
SCRIB	23513	broad.mit.edu	37	chr8	144886281	144886281	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ggaatggtcggagcctccgaCaatactaagccccagagggc	13	12	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr8:144886281C>T	uc003yzp.1	-	22	3062	c.3055G>A	c.(3055-3057)GTC>ATC	p.V1019I	SCRIB_uc003yzn.1_5'UTR|SCRIB_uc003yzo.1_Missense_Mutation_p.V1019I	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	1019	Interaction with ARHGEF7.|PDZ 3.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			GAGCCTCCGACAATACTAAGC	0.617													9	7	---	---	---	---	PASS	T	144886281	T	T	144886281	3	4	169	1	0	0	0	0	1	0	0	0	13937	478	17	3	1976	3	SCRIB	8	144886281	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	1063060	144886281	1477741	90	60622										
KIAA2026	158358	broad.mit.edu	37	chr9	5988539	5988539	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gctatcgttgtcttttctctCaagtgccttggagaagaata	9	8	3	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr9:5988539C>A	uc003zjq.3	-	2	816	c.600G>T	c.(598-600)TTG>TTT	p.L200F		NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	200										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		TCTTTTCTCTCAAGTGCCTTG	0.428													4	37	---	---	---	---	PASS	A	5988539	A	A	5988539	3	1	169	1	0	0	0	0	1	0	0	0	8270	825	29	2	5739	2	KIAA2026	9	5988539	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08		5988539	135224892	91	60623										
CDKN2A	1029	broad.mit.edu	37	chr9	21971120	21971120	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ggcagcgtcgtgcacgggtcGggtgagagtggcggggtcgg	23	8	0	1	rs121913388		TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr9:21971120G>A	uc003zpk.2	-	2	450	c.238C>T	c.(238-240)CGA>TGA	p.R80*	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.P135L	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	80	ANK 3.		R -> P (in CMM2; loss of CDK4 binding).|R -> L (in a head and neck tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.R80*(88)|p.?(13)|p.R80Q(2)|p.P135L(2)|p.T79fs*37(1)|p.L65fs*38(1)|p.R80fs*66(1)|p.A76fs*64(1)|p.T79fs*65(1)|p.E61_L94del(1)|p.A68fs*3(1)|p.R80fs*34(1)|p.R80?(1)|p.R80L(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		TGCACGGGTCGGGTGAGAGTG	0.726	R80*(MEWO_SKIN)|R80*(HSC4_UPPER_AERODIGESTIVE_TRACT)	17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			11	1	---	---	---	---	PASS	A	21971120	A	A	21971120	4	1	169	1	0	0	0	0	0	1	0	0	3161	1125	39	1	240	1	CDKN2A	9	21971120	Nonsense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	15982581	21971120	119242311	92	60624										
DNAI1	27019	broad.mit.edu	37	chr9	34493264	34493264	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aagagaaggagaaggcaaagAccccagtggctaaaaaatca	11	7	1	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr9:34493264A>G	uc003zum.2	+	9	947	c.754A>G	c.(754-756)ACC>GCC	p.T252A		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	252					cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)		GAAGGCAAAGACCCCAGTGGC	0.463									Kartagener_syndrome				5	79	---	---	---	---	PASS	G	34493264	G	G	34493264	3	3	169	1	0	0	0	0	1	0	0	0	4609	275	10	5	788	5	DNAI1	9	34493264	Missense_Mutation	SNP	A	TCGA-66-2792-01A-01D-0983-08	12522144	34493264	106720167	93	60625										
OR13C4	138804	broad.mit.edu	37	chr9	107289409	107289409	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cataactagaatcagagcaaAgaaaatgatctcaagtttgg	8	6	2	4			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr9:107289409A>C	uc011lvn.1	-	1	82	c.82T>G	c.(82-84)TTT>GTT	p.F28V		NM_001001919	NP_001001919	Q8NGS5	O13C4_HUMAN	olfactory receptor, family 13, subfamily C,	28	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ATCAGAGCAAAGAAAATGATC	0.413													33	57	---	---	---	---	PASS	C	107289409	C	C	107289409	3	2	169	1	0	0	0	0	1	0	0	0	10936	72	3	5	876	5	OR13C4	9	107289409	Missense_Mutation	SNP	A	TCGA-66-2792-01A-01D-0983-08	72796145	107289409	33924022	94	60626										
C5	727	broad.mit.edu	37	chr9	123780009	123780009	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gttctcctgtgacgatgtaaTagaccagaagtcgggatgaa	12	7	1	4			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr9:123780009T>C	uc004bkv.2	-	13	1658	c.1628A>G	c.(1627-1629)TAT>TGT	p.Y543C	C5_uc010mvm.1_Missense_Mutation_p.Y543C|C5_uc010mvn.1_Missense_Mutation_p.Y543C	NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	543					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	GACGATGTAATAGACCAGAAG	0.408													25	59	---	---	---	---	PASS	C	123780009	C	C	123780009	3	2	169	1	0	0	0	0	1	0	0	0	2280	1406	49	5	3518	5	C5	9	123780009	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08	16490600	123780009	17433422	95	60627										
LAMC3	10319	broad.mit.edu	37	chr9	133961063	133961065	+	In_Frame_Del	DEL	AAG	-	-													0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cccctctttcctccagtgccAagaagaagggcagagaagca							TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr9:133961063_133961065delAAG	uc004caa.1	+	25	4281_4283	c.4183_4185delAAG	c.(4183-4185)AAGdel	p.K1397del	LAMC3_uc010mze.1_In_Frame_Del_p.K85del	NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	1397	Domain II and I.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		CTCCAGTGCCAAGAAGAAGGGCA	0.616													25	15	---	---	---	---		-	133961065	-	-	133961063	7	5	169	1	0	1	0	1	0	0	0	0	8616	131	5	0	4281	0	LAMC3	9	133961063	In_Frame_Del	DEL	AAG	TCGA-66-2792-01A-01D-0983-08	10181054	133961063	7252368	96	60628										
FUT7	2529	broad.mit.edu	37	chr9	139925444	139925444	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cccagcaccactggcacagtGccagccaccagtgcgttgcg	11	17	0	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr9:139925444G>T	uc004ckq.2	-	2	1596	c.747C>A	c.(745-747)GGC>GGA	p.G249G	ABCA2_uc011mel.1_5'Flank|ABCA2_uc011mem.1_5'Flank|ABCA2_uc004ckl.1_5'Flank|ABCA2_uc004ckm.1_5'Flank|C9orf139_uc004ckp.1_Intron	NM_004479	NP_004470	Q11130	FUT7_HUMAN	fucosyltransferase 7	249	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity				0	all_cancers(76;0.0893)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.96e-05)|Epithelial(140;0.000486)		CTGGCACAGTGCCAGCCACCA	0.622													41	63	---	---	---	---	PASS	T	139925444	T	T	139925444	2	4	169	1	0	0	0	0	0	0	0	1	6109	1306	46	3		3	FUT7	9	139925444	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	5964381	139925444	1287987	97	60629										
AKR1E2	83592	broad.mit.edu	37	chr10	4884670	4884670	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tgatccccggatctatcaccCcaagtcacattaaagagaat	6	12	3	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr10:4884670C>A	uc001ihi.2	+	8	926	c.811C>A	c.(811-813)CCA>ACA	p.P271T	AKR1E2_uc001ihl.1_RNA|AKR1E2_uc010qam.1_Missense_Mutation_p.P175T|AKR1E2_uc001ihh.1_Missense_Mutation_p.P214T|AKR1E2_uc009xhw.2_Missense_Mutation_p.P173T|AKR1E2_uc001ihj.2_RNA|AKR1E2_uc001ihk.2_Missense_Mutation_p.P214T	NM_001040177	NP_001035267	Q96JD6	AKCL2_HUMAN	aldo-keto reductase family 1, member E2	271	NADP (By similarity).					cytoplasm	1,5-anhydro-D-fructose reductase activity				0						ATCTATCACCCCAAGTCACAT	0.333													33	71	---	---	---	---	PASS	A	4884670	A	A	4884670	3	1	169	1	0	0	0	0	1	0	0	0	474	623	22	3	841	3	AKR1E2	10	4884670	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08		4884670	130650077	98	60630										
MRC1	4360	broad.mit.edu	37	chr10	17949583	17949583	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gataaataacagtccggtctCctttgtcaactggaacacag	8	10	2	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr10:17949583C>A	uc001ipk.2	+	28	4050	c.3947C>A	c.(3946-3948)TCC>TAC	p.S1316Y		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	1316	Extracellular (Potential).|C-type lectin 8.				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						AGTCCGGTCTCCTTTGTCAAC	0.403													9	48	---	---	---	---	PASS	A	17949583	A	A	17949583	3	1	169	1	0	0	0	0	1	0	0	0	9756	855	30	2	4057	2	MRC1	10	17949583	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	13064913	17949583	117585164	99	60631										
ERCC6	2074	broad.mit.edu	37	chr10	50691393	50691393	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ttgttaaaagaggtcataccTgtttgcaagcaagggtgaca	11	6	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr10:50691393T>A	uc001jhs.3	-	9	2145	c.1991A>T	c.(1990-1992)CAG>CTG	p.Q664L	ERCC6_uc010qgr.1_Missense_Mutation_p.Q34L|ERCC6_uc001jhr.3_Missense_Mutation_p.Q64L	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	664	Helicase ATP-binding.				base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						AGGTCATACCTGTTTGCAAGC	0.378								Direct_reversal_of_damage|NER					26	11	---	---	---	---	PASS	A	50691393	A	A	50691393	3	1	169	1	0	0	0	0	1	0	0	0	5217	1594	55	5	2542	5	ERCC6	10	50691393	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08	32741810	50691393	84843354	100	60632										
SORCS1	114815	broad.mit.edu	37	chr10	108536394	108536394	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tacttttgataagttgccccTtcatctgagctgatcaataa	6	9	3	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr10:108536394T>C	uc001kym.2	-	4	791	c.783A>G	c.(781-783)GAA>GAG	p.E261E	SORCS1_uc001kyl.2_Silent_p.E261E|SORCS1_uc009xxs.2_Silent_p.E261E|SORCS1_uc001kyn.1_Silent_p.E261E|SORCS1_uc001kyo.2_Silent_p.E261E	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	261	Lumenal (Potential).|BNR 2.					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		AAGTTGCCCCTTCATCTGAGC	0.403													26	18	---	---	---	---	PASS	C	108536394	C	C	108536394	2	2	169	1	0	0	0	0	0	0	0	1	14930	1606	56	5		5	SORCS1	10	108536394	Silent	SNP	T	TCGA-66-2792-01A-01D-0983-08	57845001	108536394	26998353	101	60633										
C10orf84	63877	broad.mit.edu	37	chr10	120095118	120095118	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aatcttgaggttgtgcttttCtgttcagaatgttttttatg	9	4	3	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr10:120095118C>T	uc001ldo.2	-	4	537	c.270G>A	c.(268-270)CAG>CAA	p.Q90Q	C10orf84_uc010qss.1_Silent_p.Q90Q	NM_022063	NP_071346	Q9H8W3	F204A_HUMAN	hypothetical protein LOC63877	90											0		Colorectal(252;0.101)		all cancers(201;0.0244)		TTGTGCTTTTCTGTTCAGAAT	0.313													13	6	---	---	---	---	PASS	T	120095118	T	T	120095118	2	4	169	1	0	0	0	0	0	0	0	1	1621	912	32	2		2	C10orf84	10	120095118	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	11558724	120095118	15439629	102	60634										
C10orf137	26098	broad.mit.edu	37	chr10	127429673	127429673	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	caactaatgctggcccagaaTgcaaataatagagcagcaca	8	10	0	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr10:127429673T>C	uc001liq.1	+	17	2567	c.2274T>C	c.(2272-2274)AAT>AAC	p.N758N	C10orf137_uc001lin.2_Silent_p.N724N|C10orf137_uc001lio.1_Silent_p.N724N|C10orf137_uc001lip.1_Silent_p.N462N|C10orf137_uc001lir.2_Silent_p.N252N|C10orf137_uc001lis.1_Silent_p.N84N	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	758					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TGGCCCAGAATGCAAATAATA	0.438													42	24	---	---	---	---	PASS	C	127429673	C	C	127429673	2	2	169	1	0	0	0	0	0	0	0	1	1594	1461	51	5		5	C10orf137	10	127429673	Silent	SNP	T	TCGA-66-2792-01A-01D-0983-08	7334555	127429673	8105074	103	60635										
GPR123	84435	broad.mit.edu	37	chr10	134898363	134898363	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tgcagcggggagctgagcctCcctgaggaggaaggaatcgc	17	10	0	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr10:134898363C>A	uc001llw.2	+	8	1425	c.1425C>A	c.(1423-1425)CTC>CTA	p.L475L				Q86SQ6	GP123_HUMAN	RecName: Full=Probable G-protein coupled receptor 123;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		AGCTGAGCCTCCCTGAGGAGG	0.647													4	27	---	---	---	---	PASS	A	134898363	A	A	134898363	2	1	169	1	0	0	0	0	0	0	0	1	6637	870	30	2		2	GPR123	10	134898363	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	7468690	134898363	636384	104	60636										
LRRC56	115399	broad.mit.edu	37	chr11	551689	551689	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ccatccggagacttgaccccGagctgtccctgcctgagacg	11	16	0	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:551689G>T	uc010qvz.1	+	10	1340	c.835G>T	c.(835-837)GAG>TAG	p.E279*		NM_198075	NP_932341	Q8IYG6	LRC56_HUMAN	leucine rich repeat containing 56	279										skin(1)	1		all_cancers(49;2.16e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;7.63e-28)|Epithelial(43;7.29e-27)|OV - Ovarian serous cystadenocarcinoma(40;7.15e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		ACTTGACCCCGAGCTGTCCCT	0.687													3	16	---	---	---	---	PASS	T	551689	T	T	551689	4	4	169	1	0	0	0	0	0	1	0	0	9012	1059	37	2	861	2	LRRC56	11	551689	Nonsense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08		551689	134454827	105	60637										
DEAF1	10522	broad.mit.edu	37	chr11	686886	686886	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ggcactgcaagggtcggcccGcgtagcgaatgcttcttttc	13	12	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:686886G>A	uc001lqq.1	-	5	1469	c.776C>T	c.(775-777)GCG>GTG	p.A259V	DEAF1_uc009ycf.1_RNA	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	259	SAND.				embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		GGGTCGGCCCGCGTAGCGAAT	0.607													9	13	---	---	---	---	PASS	A	686886	A	A	686886	3	1	169	1	0	0	0	0	1	0	0	0	4380	1087	38	1	953	1	DEAF1	11	686886	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	135197	686886	134319630	106	60638										
CCKBR	887	broad.mit.edu	37	chr11	6291936	6291936	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gtggttatggccgtggcctaCgggcttatctctcgcgagct	14	11	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:6291936C>T	uc001mcp.2	+	4	907	c.714C>T	c.(712-714)TAC>TAT	p.Y238Y	CCKBR_uc001mcq.2_Silent_p.Y166Y|CCKBR_uc001mcr.2_Silent_p.Y238Y|CCKBR_uc001mcs.2_Silent_p.Y238Y|CCKBR_uc001mct.1_5'Flank	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	238	Helical; Name=5; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	CCGTGGCCTACGGGCTTATCT	0.582													9	31	---	---	---	---	PASS	T	6291936	T	T	6291936	2	4	169	1	0	0	0	0	0	0	0	1	2881	547	19	1		1	CCKBR	11	6291936	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	5605050	6291936	128714580	107	60639										
OR2AG1	144125	broad.mit.edu	37	chr11	6806970	6806970	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	atgccatcaaatgaggggagGaagaaagcccttgtcacctg	12	9	2	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:6806970G>A	uc001mer.1	+	1	702	c.702G>A	c.(700-702)AGG>AGA	p.R234R		NM_001004489	NP_001004489	Q9H205	O2AG1_HUMAN	olfactory receptor, family 2, subfamily AG,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.19e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		ATGAGGGGAGGAAGAAAGCCC	0.498													27	19	---	---	---	---	PASS	A	6806970	A	A	6806970	2	1	169	1	0	0	0	0	0	0	0	1	10984	1165	41	2		2	OR2AG1	11	6806970	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	515034	6806970	128199546	108	60640										
NRIP3	56675	broad.mit.edu	37	chr11	9005648	9005648	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tcggagagtctgtagaccaaGggacaagtttttctcattgt	11	7	2	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:9005648G>C	uc001mhg.2	-	5	700	c.586C>G	c.(586-588)CTT>GTT	p.L196V	NRIP3_uc010rbu.1_3'UTR	NM_020645	NP_065696	Q9NQ35	NRIP3_HUMAN	nuclear receptor interacting protein 3	196					proteolysis		aspartic-type endopeptidase activity				0				Epithelial(150;4.77e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0241)		TGTAGACCAAGGGACAAGTTT	0.388													58	43	---	---	---	---	PASS	C	9005648	C	C	9005648	3	2	169	1	0	0	0	0	1	0	0	0	10654	1000	35	4	151	4	NRIP3	11	9005648	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	2198678	9005648	126000868	109	60641										
ABCC8	6833	broad.mit.edu	37	chr11	17428178	17428178	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gagacgggtacctcatggggGctaggatgatccggtttagc	16	8	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:17428178G>T	uc001mnc.2	-	26	3446	c.3320C>A	c.(3319-3321)GCC>GAC	p.A1107D		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1107	Cytoplasmic (By similarity).|ABC transmembrane type-1 2.				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)	CCTCATGGGGGCTAGGATGAT	0.413													9	4	---	---	---	---	PASS	T	17428178	T	T	17428178	3	4	169	1	0	0	0	0	1	0	0	0	58	1203	42	3	1481	3	ABCC8	11	17428178	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	8422530	17428178	117578338	110	60642										
NAV2	89797	broad.mit.edu	37	chr11	20005751	20005751	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gatggctgtggtacgggagaCcctgcaacgaaatacctccc	12	12	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:20005751C>T	uc010rdm.1	+	12	3156	c.2795C>T	c.(2794-2796)ACC>ATC	p.T932I	NAV2_uc001mpp.2_Missense_Mutation_p.T845I|NAV2_uc001mpr.3_Missense_Mutation_p.T909I	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	932						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						GTACGGGAGACCCTGCAACGA	0.572													27	14	---	---	---	---	PASS	T	20005751	T	T	20005751	3	4	169	1	0	0	0	0	1	0	0	0	10184	507	18	3	2847	3	NAV2	11	20005751	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	2577573	20005751	115000765	111	60643										
SLC5A12	159963	broad.mit.edu	37	chr11	26725099	26725099	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gcttagcatgcttttctgttTtgcaagagatgcatcgctga	10	8	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:26725099T>A	uc001mra.2	-	6	1113	c.800A>T	c.(799-801)AAA>ATA	p.K267I	SLC5A12_uc001mrb.2_RNA|SLC5A12_uc001mrc.3_Missense_Mutation_p.K267I	NM_178498	NP_848593	Q1EHB4	SC5AC_HUMAN	solute carrier family 5 (sodium/glucose	267	Cytoplasmic (Potential).				sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(1)|skin(1)	2						CTTTTCTGTTTTGCAAGAGAT	0.358													38	22	---	---	---	---	PASS	A	26725099	A	A	26725099	3	1	169	1	0	0	0	0	1	0	0	0	14664	1841	64	5	1096	5	SLC5A12	11	26725099	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08	6719348	26725099	108281417	112	60644										
OR5M8	219484	broad.mit.edu	37	chr11	56258265	56258265	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	acaataaacattgacaactcCttgttgtaggtgtcagaaca	7	8	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:56258265C>A	uc001nix.1	-	1	582	c.582G>T	c.(580-582)AAG>AAT	p.K194N		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	194	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					TTGACAACTCCTTGTTGTAGG	0.418													20	82	---	---	---	---	PASS	A	56258265	A	A	56258265	3	1	169	1	0	0	0	0	1	0	0	0	11176	680	24	3	357	3	OR5M8	11	56258265	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	29533166	56258265	78748251	113	60645										
OR9G9	504191	broad.mit.edu	37	chr11	56468292	56468292	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ataaagctgtgtgcattgctGgtagcagtctcatattgtgg	12	6	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:56468292G>T	uc010rjn.1	+	1	429	c.429G>T	c.(427-429)CTG>CTT	p.L143L		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTGCATTGCTGGTAGCAGTCT	0.468													6	162	---	---	---	---	PASS	T	56468292	T	T	56468292	2	4	169	1	0	0	0	0	0	0	0	1	11252	1335	47	3		3	OR9G9	11	56468292	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	210027	56468292	78538224	114	60646										
OR9G9	504191	broad.mit.edu	37	chr11	56468738	56468738	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tctcatgatctacagcctaaGgaataaggatgtgaaagagg	11	6	2	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:56468738G>A	uc010rjn.1	+	1	875	c.875G>A	c.(874-876)AGG>AAG	p.R292K		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	292	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TACAGCCTAAGGAATAAGGAT	0.393													9	89	---	---	---	---	PASS	A	56468738	A	A	56468738	3	1	169	1	0	0	0	0	1	0	0	0	11252	1000	35	3	877	3	OR9G9	11	56468738	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	446	56468738	78537778	115	60647										
TCN1	6947	broad.mit.edu	37	chr11	59622223	59622223	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gtgaaatatgtttcattgatTctcacagagtaattgacgga	9	5	2	4			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:59622223T>A	uc001noj.2	-	7	1121	c.1023A>T	c.(1021-1023)AGA>AGT	p.R341S		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	341					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTTCATTGATTCTCACAGAGT	0.408													13	54	---	---	---	---	PASS	A	59622223	A	A	59622223	3	1	169	1	0	0	0	0	1	0	0	0	15703	1780	62	5	290	5	TCN1	11	59622223	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08	3153485	59622223	75384293	116	60648										
GANAB	23193	broad.mit.edu	37	chr11	62397403	62397403	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gatggttcgttcatgtcattCcagacaaagaggttgggagc	13	7	2	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:62397403C>T	uc001nub.2	-	14	1653	c.1620G>A	c.(1618-1620)TGG>TGA	p.W540*	GANAB_uc001ntz.2_5'Flank|GANAB_uc001nua.2_Nonsense_Mutation_p.W562*|GANAB_uc001nuc.2_Nonsense_Mutation_p.W443*|GANAB_uc010rma.1_Nonsense_Mutation_p.W448*|GANAB_uc010rmb.1_Nonsense_Mutation_p.W426*	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2	540					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5						TCATGTCATTCCAGACAAAGA	0.532													20	64	---	---	---	---	PASS	T	62397403	T	T	62397403	4	4	169	1	0	0	0	0	0	1	0	0	6233	856	30	2	1258	2	GANAB	11	62397403	Nonsense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	2775180	62397403	72609113	117	60649										
RAB30	27314	broad.mit.edu	37	chr11	82708291	82708291	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tgaatcttcggacgaggcacGtcttccccacaccagcgttg	10	14	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:82708291G>A	uc001ozu.2	-	3	329	c.68C>T	c.(67-69)ACG>ATG	p.T23M	RAB30_uc009yve.2_Missense_Mutation_p.T21M|RAB30_uc010rst.1_Missense_Mutation_p.T21M|RAB30_uc001ozv.2_Missense_Mutation_p.T21M|RAB30_uc009yvg.1_Missense_Mutation_p.T21M	NM_014488	NP_055303	Q15771	RAB30_HUMAN	RAB30, member RAS oncogene family	23	GTP (By similarity).				protein transport|small GTPase mediated signal transduction	Golgi stack|plasma membrane	GTP binding|GTPase activity				0						GACGAGGCACGTCTTCCCCAC	0.408													8	44	---	---	---	---	PASS	A	82708291	A	A	82708291	3	1	169	1	0	0	0	0	1	0	0	0	12919	1145	40	1	559	1	RAB30	11	82708291	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	20310888	82708291	52298225	118	60650										
SYTL2	54843	broad.mit.edu	37	chr11	85447586	85447586	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	accagttcttccattttttgActgttcatttttagtttgtt	5	7	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:85447586A>T	uc010rth.1	-	5	817	c.541T>A	c.(541-543)TCA>ACA	p.S181T	SYTL2_uc010rtg.1_Missense_Mutation_p.S182T|SYTL2_uc010rti.1_Missense_Mutation_p.S181T|SYTL2_uc010rtj.1_Missense_Mutation_p.S133T|SYTL2_uc001pbf.3_Missense_Mutation_p.S181T|SYTL2_uc010rtf.1_Missense_Mutation_p.S39T	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	181					intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		CCATTTTTTGACTGTTCATTT	0.323													6	22	---	---	---	---	PASS	T	85447586	T	T	85447586	3	4	169	1	0	0	0	0	1	0	0	0	15480	275	10	5	4800	5	SYTL2	11	85447586	Missense_Mutation	SNP	A	TCGA-66-2792-01A-01D-0983-08	2739295	85447586	49558930	119	60651										
SIK3	23387	broad.mit.edu	37	chr11	116729359	116729359	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gggactggtccgaaaacagaTgggggtgtaaatgcgcctgg	17	7	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:116729359T>C	uc001ppy.2	-	20	2540	c.2504A>G	c.(2503-2505)CAT>CGT	p.H835R	SIK3_uc001ppz.2_Intron|SIK3_uc001pqa.2_Intron|SIK3_uc001ppw.2_Intron|SIK3_uc001ppx.2_Intron|SIK3_uc001pqb.2_Missense_Mutation_p.H138R	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	835	Gln-rich.					cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						CGAAAACAGATGGGGGTGTAA	0.547													52	59	---	---	---	---	PASS	C	116729359	C	C	116729359	3	2	169	1	0	0	0	0	1	0	0	0	14319	1464	51	5	1303	5	SIK3	11	116729359	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08	31281773	116729359	18277157	120	60652										
ADAMTS15	170689	broad.mit.edu	37	chr11	130331416	130331416	+	Frame_Shift_Del	DEL	G	-	-													0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gccaccacctgtgacaccctGggcatggctgatgtgggtac							TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr11:130331416delG	uc010scd.1	+	2	990	c.990delG	c.(988-990)CTGfs	p.L330fs		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	330	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		GTGACACCCTGGGCATGGCTG	0.597													28	44	---	---	---	---		-	130331416	-	-	130331416	7	5	169	1	0	1	0	1	0	0	0	0	260	1335	47	0	996	0	ADAMTS15	11	130331416	Frame_Shift_Del	DEL	G	TCGA-66-2792-01A-01D-0983-08	13602057	130331416	4675100	121	60653										
TNFRSF1A	7132	broad.mit.edu	37	chr12	6440025	6440025	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tcacttctcctcacctgagtCctcagtgcccttaacattct	4	16	5	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr12:6440025C>T	uc001qnu.2	-	6	900	c.619G>A	c.(619-621)GAC>AAC	p.D207N	TNFRSF1A_uc001qnt.2_Missense_Mutation_p.D99N|TNFRSF1A_uc010sey.1_5'UTR|TNFRSF1A_uc010sez.1_Missense_Mutation_p.D99N|TNFRSF1A_uc009zek.2_Missense_Mutation_p.D164N	NM_001065	NP_001056	P19438	TNR1A_HUMAN	tumor necrosis factor receptor 1 precursor	207	Extracellular (Potential).				apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|inflammatory response|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of inflammatory response|positive regulation of transcription from RNA polymerase II promoter|prostaglandin metabolic process	extracellular region|integral to plasma membrane|membrane raft	tumor necrosis factor receptor activity			lung(2)|skin(1)	3						TCACCTGAGTCCTCAGTGCCC	0.453													12	57	---	---	---	---	PASS	T	6440025	T	T	6440025	3	4	169	1	0	0	0	0	1	0	0	0	16290	855	30	2	768	2	TNFRSF1A	12	6440025	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08		6440025	127411870	122	60654										
TNFRSF1A	7132	broad.mit.edu	37	chr12	6440077	6440077	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aggcacaacttcgtgcactcCaggcttttcttacagctaaa	7	12	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr12:6440077C>A	uc001qnu.2	-	6	848	c.567G>T	c.(565-567)CTG>CTT	p.L189L	TNFRSF1A_uc001qnt.2_Silent_p.L81L|TNFRSF1A_uc010sey.1_5'UTR|TNFRSF1A_uc010sez.1_Silent_p.L81L|TNFRSF1A_uc009zek.2_Silent_p.L146L	NM_001065	NP_001056	P19438	TNR1A_HUMAN	tumor necrosis factor receptor 1 precursor	189	TNFR-Cys 4.|Extracellular (Potential).				apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|inflammatory response|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of inflammatory response|positive regulation of transcription from RNA polymerase II promoter|prostaglandin metabolic process	extracellular region|integral to plasma membrane|membrane raft	tumor necrosis factor receptor activity			lung(2)|skin(1)	3						TCGTGCACTCCAGGCTTTTCT	0.512													4	45	---	---	---	---	PASS	A	6440077	A	A	6440077	2	1	169	1	0	0	0	0	0	0	0	1	16290	581	21	3		3	TNFRSF1A	12	6440077	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	52	6440077	127411818	123	60655										
KIAA1467	57613	broad.mit.edu	37	chr12	13208823	13208823	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tcctgtgtgctttcctgatcCcctgtcctcccagagatctg	8	15	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr12:13208823C>G	uc001rbi.2	+	2	399	c.376C>G	c.(376-378)CCC>GCC	p.P126A	KIAA1467_uc009zhx.1_RNA	NM_020853	NP_065904	A2RU67	K1467_HUMAN	hypothetical protein LOC57613	126						integral to membrane				central_nervous_system(2)|skin(1)	3		Prostate(47;0.184)		BRCA - Breast invasive adenocarcinoma(232;0.157)		TTTCCTGATCCCCTGTCCTCC	0.577													13	33	---	---	---	---	PASS	G	13208823	G	G	13208823	3	3	169	1	0	0	0	0	1	0	0	0	8235	623	22	4	382	4	KIAA1467	12	13208823	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	6768746	13208823	120643072	124	60656										
RASSF8	11228	broad.mit.edu	37	chr12	26220541	26220541	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	agcagttgactaaggagttgCggcaagtcaatctccagcag	12	9	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr12:26220541C>T	uc001rgx.2	+	4	1254	c.1033C>T	c.(1033-1035)CGG>TGG	p.R345W	RASSF8_uc001rgy.2_Missense_Mutation_p.R345W|RASSF8_uc001rgz.2_Missense_Mutation_p.R345W|RASSF8_uc009zjd.1_Missense_Mutation_p.R345W|RASSF8_uc009zje.1_Missense_Mutation_p.R345W	NM_007211	NP_009142	Q8NHQ8	RASF8_HUMAN	Ras association (RalGDS/AF-6) domain family	345					signal transduction						0	Colorectal(261;0.0847)					TAAGGAGTTGCGGCAAGTCAA	0.438													16	24	---	---	---	---	PASS	T	26220541	T	T	26220541	3	4	169	1	0	0	0	0	1	0	0	0	13092	759	27	1	1043	1	RASSF8	12	26220541	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	13011718	26220541	107631354	125	60657										
KRT18	3875	broad.mit.edu	37	chr12	53345369	53345369	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	atcatggcagacatccgggcCcaatatgacgagctggctcg	12	12	1	2	rs145578755		TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr12:53345369C>T	uc001sbe.2	+	5	831	c.762C>T	c.(760-762)GCC>GCT	p.A254A	KRT18_uc009zmn.1_Silent_p.A254A|KRT18_uc001sbf.1_Silent_p.A81A|KRT18_uc001sbg.2_Silent_p.A254A|KRT18_uc009zmo.2_Silent_p.A254A|KRT8_uc009zml.1_5'Flank|KRT8_uc009zmm.1_5'Flank	NM_199187	NP_954657	P05783	K1C18_HUMAN	keratin 18	254	Interaction with DNAJB6.|Coil 2.|Rod.|Necessary for interaction with PNN.				anatomical structure morphogenesis|cell cycle|Golgi to plasma membrane CFTR protein transport|interspecies interaction between organisms|negative regulation of apoptosis	centriolar satellite|keratin filament|perinuclear region of cytoplasm	protein binding|structural molecule activity			skin(1)	1						ACATCCGGGCCCAATATGACG	0.587													10	22	---	---	---	---	PASS	T	53345369	T	T	53345369	2	4	169	1	0	0	0	0	0	0	0	1	8455	610	22	3		3	KRT18	12	53345369	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	27124828	53345369	80506526	126	60658										
CALCOCO1	57658	broad.mit.edu	37	chr12	54115366	54115366	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ccggctcaggatgtccctctCttctgtgatctccccatggg	10	15	4	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr12:54115366C>T	uc001sef.2	-	6	787	c.643G>A	c.(643-645)GAG>AAG	p.E215K	CALCOCO1_uc010som.1_Missense_Mutation_p.E182K|CALCOCO1_uc010son.1_Missense_Mutation_p.E92K|CALCOCO1_uc001seh.2_Missense_Mutation_p.E215K|CALCOCO1_uc009znd.2_Missense_Mutation_p.E215K|CALCOCO1_uc001seg.2_Missense_Mutation_p.E92K|CALCOCO1_uc010soo.1_Missense_Mutation_p.E208K	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	215					steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						ATGTCCCTCTCTTCTGTGATC	0.532													6	292	---	---	---	---	PASS	T	54115366	T	T	54115366	3	4	169	1	0	0	0	0	1	0	0	0	2577	922	32	2	1472	2	CALCOCO1	12	54115366	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	769997	54115366	79736529	127	60659										
PAN2	9924	broad.mit.edu	37	chr12	56717636	56717636	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tcacaccaggcctgtgtattCtggtccaggcagatgcttcg	11	12	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr12:56717636C>T	uc001skx.2	-	14	2512	c.2139G>A	c.(2137-2139)CAG>CAA	p.Q713Q	PAN2_uc001skw.2_5'UTR|PAN2_uc001skz.2_Silent_p.Q712Q|PAN2_uc001sky.2_Silent_p.Q709Q	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	713					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						CCTGTGTATTCTGGTCCAGGC	0.512													6	37	---	---	---	---	PASS	T	56717636	T	T	56717636	2	4	169	1	0	0	0	0	0	0	0	1	11414	912	32	2		2	PAN2	12	56717636	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	2602270	56717636	77134259	128	60660										
GAS2L3	283431	broad.mit.edu	37	chr12	101005798	101005798	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aattttccaatgagaaaagtGccctgtaagaaagatgctgc	9	7	0	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr12:101005798G>A	uc001thu.2	+	6	550	c.324G>A	c.(322-324)GTG>GTA	p.V108V	GAS2L3_uc009zty.2_Silent_p.V108V|GAS2L3_uc001thv.2_Silent_p.V4V	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	108	CH.				cell cycle arrest					skin(1)	1						TGAGAAAAGTGCCCTGTAAGA	0.353													31	20	---	---	---	---	PASS	A	101005798	A	A	101005798	2	1	169	1	0	0	0	0	0	0	0	1	6248	1306	46	3		3	GAS2L3	12	101005798	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	44288162	101005798	32846097	129	60661										
PEBP1	5037	broad.mit.edu	37	chr12	118575878	118575878	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	caccagcatttcgtgggatgGtcttgattcagggaagctct	12	9	3	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr12:118575878G>T	uc001twu.1	+	2	315	c.170G>T	c.(169-171)GGT>GTT	p.G57V	PEBP1_uc010szc.1_Missense_Mutation_p.G57V	NM_002567	NP_002558	P30086	PEBP1_HUMAN	prostatic binding protein	57							ATP binding|phosphatidylethanolamine binding|serine-type endopeptidase inhibitor activity			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCGTGGGATGGTCTTGATTCA	0.438								Direct_reversal_of_damage					3	21	---	---	---	---	PASS	T	118575878	T	T	118575878	3	4	169	1	0	0	0	0	1	0	0	0	11713	1261	44	3	176	3	PEBP1	12	118575878	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	17570080	118575878	15276017	130	60662										
TAOK3	51347	broad.mit.edu	37	chr12	118693369	118693369	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gtccttcagcacccctttacGcatgatggccagtagagcag	10	13	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr12:118693369G>C	uc001twx.2	-	3	299	c.4C>G	c.(4-6)CGT>GGT	p.R2G	TAOK3_uc001twy.3_Missense_Mutation_p.R2G	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	2					MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ACCCCTTTACGCATGATGGCC	0.398													39	102	---	---	---	---	PASS	C	118693369	C	C	118693369	3	2	169	1	0	0	0	0	1	0	0	0	15546	1087	38	4	2768	4	TAOK3	12	118693369	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	117491	118693369	15158526	131	60663										
SLC7A1	6541	broad.mit.edu	37	chr13	30104821	30104821	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aatattttgttgaccatggcCgactctttcacaccaagagt	7	10	2	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr13:30104821C>A	uc001uso.2	-	5	945	c.558G>T	c.(556-558)TCG>TCT	p.S186S		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	186	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	TGACCATGGCCGACTCTTTCA	0.433													47	18	---	---	---	---	PASS	A	30104821	A	A	30104821	2	1	169	1	0	0	0	0	0	0	0	1	14692	639	23	1		1	SLC7A1	13	30104821	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08		30104821	85065057	132	60664										
TBC1D4	9882	broad.mit.edu	37	chr13	76055559	76055559	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ttgtgctcgaagatgaatacCgccgggttgggctgcgtggc	16	9	0	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr13:76055559C>T	uc001vjl.1	-	1	692	c.345G>A	c.(343-345)GCG>GCA	p.A115A	TBC1D4_uc010aer.2_Silent_p.A115A|TBC1D4_uc010aes.2_Silent_p.A115A	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	115	PID 1.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		AGATGAATACCGCCGGGTTGG	0.662													31	7	---	---	---	---	PASS	T	76055559	T	T	76055559	2	4	169	1	0	0	0	0	0	0	0	1	15619	639	23	1		1	TBC1D4	13	76055559	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	45950738	76055559	39114319	133	60665										
RBM26	64062	broad.mit.edu	37	chr13	79946001	79946001	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tttccctgtatcgggagcttGactggggaggactgtgattt	14	7	0	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr13:79946001G>C	uc001vkz.2	-	4	406	c.392C>G	c.(391-393)TCA>TGA	p.S131*	RBM26_uc001vky.2_Nonsense_Mutation_p.S131*|RBM26_uc001vla.2_Nonsense_Mutation_p.S131*|RBM26_uc001vkx.2_5'Flank|RBM26_uc001vlb.1_5'Flank	NM_022118	NP_071401	Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26	131					mRNA processing		nucleotide binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)		GBM - Glioblastoma multiforme(99;0.0188)		TCGGGAGCTTGACTGGGGAGG	0.368													9	28	---	---	---	---	PASS	C	79946001	C	C	79946001	4	2	169	1	0	0	0	0	0	1	0	0	13126	1294	45	2	2622	2	RBM26	13	79946001	Nonsense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	3890442	79946001	35223877	134	60666										
NOVA1	4857	broad.mit.edu	37	chr14	26917694	26917694	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cttgactgagacctaaacctAaagtgttgagattatatcca	7	8	0	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr14:26917694A>T	uc001wpy.2	-	5	1313	c.995T>A	c.(994-996)TTA>TAA	p.L332*	NOVA1_uc001wpz.2_Nonsense_Mutation_p.L308*|NOVA1_uc001wqa.2_Nonsense_Mutation_p.L210*	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	335	Ala-rich.				locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		ACCTAAACCTAAAGTGTTGAG	0.299													17	16	---	---	---	---	PASS	T	26917694	T	T	26917694	4	4	169	1	0	0	0	0	0	1	0	0	10554	372	13	5	532	5	NOVA1	14	26917694	Nonsense_Mutation	SNP	A	TCGA-66-2792-01A-01D-0983-08		26917694	80431846	135	60667										
FSCB	84075	broad.mit.edu	37	chr14	44974483	44974483	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aagctcaagaggggcctcttCtatagaaactcccttagctg	9	11	3	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr14:44974483C>A	uc001wvn.2	-	1	2017	c.1708G>T	c.(1708-1710)GAA>TAA	p.E570*		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	570	Ala-rich.					cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		GGGGCCTCTTCTATAGAAACT	0.517													17	37	---	---	---	---	PASS	A	44974483	A	A	44974483	4	1	169	1	0	0	0	0	0	1	0	0	6066	922	32	2	773	2	FSCB	14	44974483	Nonsense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	18056789	44974483	62375057	136	60668										
FSCB	84075	broad.mit.edu	37	chr14	44975345	44975345	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gtctcttcagcaggtctgggCtccgctttagcagtggcctc	12	13	3	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr14:44975345C>G	uc001wvn.2	-	1	1155	c.846G>C	c.(844-846)GAG>GAC	p.E282D		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	282						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		CAGGTCTGGGCTCCGCTTTAG	0.473													19	29	---	---	---	---	PASS	G	44975345	G	G	44975345	3	3	169	1	0	0	0	0	1	0	0	0	6066	796	28	4	1635	4	FSCB	14	44975345	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	862	44975345	62374195	137	60669										
EXOC5	10640	broad.mit.edu	37	chr14	57700535	57700535	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	attactgaagatatctccaaCttgtttgttcactctttgac	5	9	3	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr14:57700535C>T	uc001xct.2	-	9	1032	c.781G>A	c.(781-783)GTT>ATT	p.V261I	EXOC5_uc001xcs.2_5'Flank|EXOC5_uc010trg.1_Missense_Mutation_p.V206I|EXOC5_uc010trh.1_Missense_Mutation_p.V196I	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	261					exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						ATATCTCCAACTTGTTTGTTC	0.308													12	37	---	---	---	---	PASS	T	57700535	T	T	57700535	3	4	169	1	0	0	0	0	1	0	0	0	5307	565	20	3	1385	3	EXOC5	14	57700535	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	12725190	57700535	49649005	138	60670										
ARID4A	5926	broad.mit.edu	37	chr14	58813807	58813807	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctattttgaattcagctgctTcctacaatgtaaaaactgct	5	9	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr14:58813807T>G	uc001xdp.2	+	14	1398	c.1144T>G	c.(1144-1146)TCC>GCC	p.S382A	ARID4A_uc001xdo.2_Missense_Mutation_p.S382A|ARID4A_uc001xdq.2_Missense_Mutation_p.S382A|ARID4A_uc010apg.1_Missense_Mutation_p.S60A	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	382	ARID.				negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						TTCAGCTGCTTCCTACAATGT	0.279													9	17	---	---	---	---	PASS	G	58813807	G	G	58813807	3	3	169	1	0	0	0	0	1	0	0	0	919	1783	62	5	1194	5	ARID4A	14	58813807	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08	1113272	58813807	48535733	139	60671										
JDP2	122953	broad.mit.edu	37	chr14	75904629	75904629	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gccactcctcctgctatgatGcctgggcagatcccggaccc	10	17	0	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr14:75904629G>A	uc010asj.2	+	2	73	c.6G>A	c.(4-6)ATG>ATA	p.M2I	JDP2_uc010tvb.1_Missense_Mutation_p.M2I|JDP2_uc010tvc.1_Missense_Mutation_p.M2I|JDP2_uc001xrq.2_Missense_Mutation_p.M13I	NM_001135047	NP_001128519	Q8WYK2	JDP2_HUMAN	Jun dimerization protein 2 isoform a	2						nucleus	sequence-specific DNA binding				0				BRCA - Breast invasive adenocarcinoma(234;0.0296)		CTGCTATGATGCCTGGGCAGA	0.667													8	6	---	---	---	---	PASS	A	75904629	A	A	75904629	3	1	169	1	0	0	0	0	1	0	0	0	7947	1319	46	3	45	3	JDP2	14	75904629	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	17090822	75904629	31444911	140	60672										
TMED8	283578	broad.mit.edu	37	chr14	77810117	77810117	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tagctcctgtatgttcagacTggatcataacgatgtcccca	8	11	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr14:77810117T>A	uc001xto.1	-	4	377	c.377A>T	c.(376-378)CAG>CTG	p.Q126L	TMED8_uc010ast.1_RNA|TMED8_uc001xtn.1_5'Flank	NM_213601	NP_998766	Q6PL24	TMED8_HUMAN	transmembrane emp24 protein transport domain	126					transport	integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		ATGTTCAGACTGGATCATAAC	0.448													41	79	---	---	---	---	PASS	A	77810117	A	A	77810117	3	1	169	1	0	0	0	0	1	0	0	0	16008	1580	55	5	611	5	TMED8	14	77810117	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08	1905488	77810117	29539423	141	60673										
KIAA1409	57578	broad.mit.edu	37	chr14	94088266	94088266	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctgacaatagtgaaatccccGagaacccagctatggaaggg	11	10	0	3	rs78490074	byFrequency	TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr14:94088266G>T	uc001ybv.1	+	28	4305	c.4222G>T	c.(4222-4224)GAG>TAG	p.E1408*	KIAA1409_uc001ybs.1_Nonsense_Mutation_p.E1386*	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1563						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TGAAATCCCCGAGAACCCAGC	0.512													4	98	---	---	---	---	PASS	T	94088266	T	T	94088266	4	4	169	1	0	0	0	0	0	1	0	0	8230	1059	37	2	4262	2	KIAA1409	14	94088266	Nonsense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	16278149	94088266	13261274	142	60674										
TRPM1	4308	broad.mit.edu	37	chr15	31354881	31354881	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tgaatggtaactagaagctgCtccctgagggactcatttat	10	8	1	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr15:31354881C>G	uc001zfm.2	-	8	1052	c.924G>C	c.(922-924)GAG>GAC	p.E308D	TRPM1_uc010azy.2_Missense_Mutation_p.E215D|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	308	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		CTAGAAGCTGCTCCCTGAGGG	0.343													8	23	---	---	---	---	PASS	G	31354881	G	G	31354881	3	3	169	1	0	0	0	0	1	0	0	0	16582	796	28	4	3967	4	TRPM1	15	31354881	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08		31354881	71176511	143	60675										
DUOXA2	405753	broad.mit.edu	37	chr15	45408422	45408422	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	acagcccgtgtccgtctgctCgtgggcctggagggcattaa	14	12	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr15:45408422C>A	uc001zuo.2	+	3	586	c.306C>A	c.(304-306)CTC>CTA	p.L102L	DUOX2_uc010bea.2_5'Flank|DUOX2_uc001zun.2_5'Flank|DUOXA2_uc010beb.2_RNA	NM_207581	NP_997464	Q1HG44	DOXA2_HUMAN	dual oxidase activator 2	102	Extracellular (Potential).				protein transport	endoplasmic reticulum membrane|integral to membrane					0		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;2.88e-18)|GBM - Glioblastoma multiforme(94;3.95e-07)|COAD - Colon adenocarcinoma(120;0.0652)|Colorectal(133;0.0659)		TCCGTCTGCTCGTGGGCCTGG	0.567													5	155	---	---	---	---	PASS	A	45408422	A	A	45408422	2	1	169	1	0	0	0	0	0	0	0	1	4803	871	31	2		2	DUOXA2	15	45408422	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	14053541	45408422	57122970	144	60676										
MYO5C	55930	broad.mit.edu	37	chr15	52561963	52561963	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cccttacccagaagcgtgaaGgtcttttgagtctctaccat	8	12	2	3	rs142061334	by1000genomes	TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr15:52561963G>T	uc010bff.2	-	8	1064	c.927C>A	c.(925-927)ACC>ACA	p.T309T	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA|MYO5C_uc010ugc.1_Intron	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	309	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		GAAGCGTGAAGGTCTTTTGAG	0.323													5	98	---	---	---	---	PASS	T	52561963	T	T	52561963	2	4	169	1	0	0	0	0	0	0	0	1	10080	987	35	3		3	MYO5C	15	52561963	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	7153541	52561963	49969429	145	60677										
CSNK1G1	53944	broad.mit.edu	37	chr15	64495336	64495336	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ccctatgtgtgtggctttctCgagttattgcagatgcacca	10	10	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr15:64495336C>G	uc002anf.2	-	10	1532	c.1052G>C	c.(1051-1053)CGA>CCA	p.R351P	CSNK1G1_uc002ane.2_RNA|CSNK1G1_uc002ang.1_Missense_Mutation_p.R351P|CSNK1G1_uc002anh.1_Missense_Mutation_p.R351P|CSNK1G1_uc002anj.2_Missense_Mutation_p.R333P	NM_022048	NP_071331	Q9HCP0	KC1G1_HUMAN	casein kinase 1, gamma 1	351					Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0						GTGGCTTTCTCGAGTTATTGC	0.453													9	19	---	---	---	---	PASS	G	64495336	G	G	64495336	3	3	169	1	0	0	0	0	1	0	0	0	3954	884	31	2	228	2	CSNK1G1	15	64495336	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	11933373	64495336	38036056	146	60678										
PARP6	56965	broad.mit.edu	37	chr15	72542428	72542428	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aatgccagttctcaatgtggGacccactgtaaggcagggta	12	9	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr15:72542428G>A	uc002auc.2	-	18	1883	c.1424C>T	c.(1423-1425)TCC>TTC	p.S475F	PARP6_uc002aua.2_Missense_Mutation_p.S321F|PARP6_uc002aub.2_RNA|PARP6_uc002aud.3_RNA|PARP6_uc002auf.1_Missense_Mutation_p.S476F	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	475	PARP catalytic.						NAD+ ADP-ribosyltransferase activity				0						CTCAATGTGGGACCCACTGTA	0.507													7	41	---	---	---	---	PASS	A	72542428	A	A	72542428	3	1	169	1	0	0	0	0	1	0	0	0	11464	1174	41	2	492	2	PARP6	15	72542428	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	8047092	72542428	29988964	147	60679										
KIAA1024	23251	broad.mit.edu	37	chr15	79749056	79749056	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	aaagaggtgaaaaaccgcgcCgcttccctggacaggttgca	12	11	0	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr15:79749056C>G	uc002bew.1	+	2	642	c.567C>G	c.(565-567)GCC>GCG	p.A189A	KIAA1024_uc010unk.1_Silent_p.A189A	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	189						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						AAAACCGCGCCGCTTCCCTGG	0.572													14	32	---	---	---	---	PASS	G	79749056	G	G	79749056	2	3	169	1	0	0	0	0	0	0	0	1	8205	639	23	4		4	KIAA1024	15	79749056	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	7206628	79749056	22782336	148	60680										
TMC7	79905	broad.mit.edu	37	chr16	19041589	19041589	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cttttacggacattacaccaTtgatggggtgaaatttcaga	9	7	1	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr16:19041589T>C	uc002dfq.2	+	6	885	c.755T>C	c.(754-756)ATT>ACT	p.I252T	TMC7_uc010vao.1_Missense_Mutation_p.I252T|TMC7_uc002dfp.2_Missense_Mutation_p.I252T|TMC7_uc010vap.1_Missense_Mutation_p.I142T	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	252	Extracellular (Potential).					integral to membrane				skin(2)|ovary(1)	3						CATTACACCATTGATGGGGTG	0.483													44	27	---	---	---	---	PASS	C	19041589	C	C	19041589	3	2	169	1	0	0	0	0	1	0	0	0	15987	1493	52	5	777	5	TMC7	16	19041589	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08		19041589	71313164	149	60681										
TMEM159	57146	broad.mit.edu	37	chr16	21181808	21181808	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cagtacttggacagccatccGtttctggccttcaccttgct	8	14	2	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr16:21181808G>A	uc002dif.3	+	3	508	c.147G>A	c.(145-147)CCG>CCA	p.P49P	TMEM159_uc002dig.3_RNA|TMEM159_uc010vbf.1_Silent_p.P73P|TMEM159_uc002dih.3_Silent_p.P49P	NM_020422	NP_065155	Q96B96	TM159_HUMAN	transmembrane protein 159	49						integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(48;0.0972)		ACAGCCATCCGTTTCTGGCCT	0.537													55	19	---	---	---	---	PASS	A	21181808	A	A	21181808	2	1	169	1	0	0	0	0	0	0	0	1	16071	1132	40	1		1	TMEM159	16	21181808	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	2140219	21181808	69172945	150	60682										
USP6	9098	broad.mit.edu	37	chr17	5039221	5039221	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cagtgagaggcactccctgcCaggtaggtgaacagctgccc	13	13	0	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:5039221C>T	uc002gau.1	+	17	2892	c.662C>T	c.(661-663)CCA>CTA	p.P221L	USP6_uc002gav.1_Missense_Mutation_p.P221L|USP6_uc010ckz.1_5'UTR|uc002gba.2_5'Flank|uc002gbb.2_5'Flank	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	221	Rab-GAP TBC.				protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						CACTCCCTGCCAGGTAGGTGA	0.622			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								17	25	---	---	---	---	PASS	T	5039221	T	T	5039221	3	4	169	1	0	0	0	0	1	0	0	0	17083	594	21	3	692	3	USP6	17	5039221	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08		5039221	76155989	151	60683										
ATP1B2	482	broad.mit.edu	37	chr17	7557573	7557573	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gtgtcttcatcaagatgaacCgggtatctatgaccttggtc	10	9	4	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:7557573C>T	uc002gif.1	+	4	1133	c.550C>T	c.(550-552)CGG>TGG	p.R184W		NM_001678	NP_001669	P14415	AT1B2_HUMAN	Na+/K+ -ATPase beta 2 subunit	184	Extracellular (Potential).				ATP biosynthetic process|blood coagulation|leukocyte migration	integral to membrane|plasma membrane	protein binding|sodium:potassium-exchanging ATPase activity	p.0?(2)|p.?(1)		central_nervous_system(1)|pancreas(1)	2		all_cancers(10;0.000178)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;2.55e-06)|READ - Rectum adenocarcinoma(115;0.168)		CAAGATGAACCGGGTATCTAT	0.557													37	123	---	---	---	---	PASS	T	7557573	T	T	7557573	3	4	169	1	0	0	0	0	1	0	0	0	1133	643	23	1	564	1	ATP1B2	17	7557573	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	2518352	7557573	73637637	152	60684										
TP53	7157	broad.mit.edu	37	chr17	7577022	7577022	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ttgtcctgcttgcttacctcGcttagtgctccctgggggca	11	13	0	0	rs121913344		TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:7577022G>A	uc002gim.2	-	8	1110	c.916C>T	c.(916-918)CGA>TGA	p.R306*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.R306*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R174*|TP53_uc010cng.1_Nonsense_Mutation_p.R174*|TP53_uc002gii.1_Nonsense_Mutation_p.R174*|TP53_uc010cnh.1_Nonsense_Mutation_p.R306*|TP53_uc010cni.1_Nonsense_Mutation_p.R306*|TP53_uc002gij.2_Nonsense_Mutation_p.R306*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	306	Bipartite nuclear localization signal.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.		R -> Q (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R306*(99)|p.0?(7)|p.?(3)|p.R306R(2)|p.R306fs*39(2)|p.K305fs*1(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)		TGCTTACCTCGCTTAGTGCTC	0.562	R306*(MFE296_ENDOMETRIUM)|R306*(HCC1937_BREAST)|R306*(MOLT4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R306*(RCM1_LARGE_INTESTINE)|R306*(JURLMK1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	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)			39	60	---	---	---	---	PASS	A	7577022	A	A	7577022	4	1	169	1	0	0	0	0	0	1	0	0	16378	1095	38	1	370	1	TP53	17	7577022	Nonsense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	19449	7577022	73618188	153	60685			1	62		3	3	1156	N	G_C	2.604704e-05
TP53	7157	broad.mit.edu	37	chr17	7577138	7577138	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cacgcacctcaaagctgttcCgtcccagtagattaccacta	6	15	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:7577138C>G	uc002gim.2	-	8	994	c.800G>C	c.(799-801)CGG>CCG	p.R267P	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R267P|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R135P|TP53_uc010cng.1_Missense_Mutation_p.R135P|TP53_uc002gii.1_Missense_Mutation_p.R135P|TP53_uc010cnh.1_Missense_Mutation_p.R267P|TP53_uc010cni.1_Missense_Mutation_p.R267P|TP53_uc002gij.2_Missense_Mutation_p.R267P	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	267	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> H (in a sporadic cancer; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R267W(20)|p.R267P(13)|p.0?(7)|p.R267Q(7)|p.R267R(5)|p.?(3)|p.G262_F270delGNLLGRNSF(2)|p.G266_E271delGRNSFE(2)|p.G262_S269delGNLLGRNS(2)|p.G266fs*4(1)|p.R267fs*78(1)|p.N268fs*77(1)|p.L265_K305del41(1)|p.R267G(1)|p.E258fs*71(1)|p.L265_R267delLGR(1)|p.R267L(1)|p.G266_N268delGRN(1)|p.G262fs*2(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)		AAAGCTGTTCCGTCCCAGTAG	0.527		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			5	18	---	---	---	---	PASS	G	7577138	G	G	7577138	3	3	169	1	0	0	0	0	1	0	0	0	16378	652	23	4	486	4	TP53	17	7577138	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	116	7577138	73618072	154	60686			1	62		3	3	1156	N	G_C	2.604704e-05
TP53	7157	broad.mit.edu	37	chr17	7578177	7578177	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	accccagttgcaaaccagacCtcaggcggctcatagggcac	10	15	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:7578177C>T	uc002gim.2	-	6	866	c.672G>A	c.(670-672)GAG>GAA	p.E224E	TP53_uc002gig.1_Silent_p.E224E|TP53_uc002gih.2_Silent_p.E224E|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Silent_p.E92E|TP53_uc010cng.1_Silent_p.E92E|TP53_uc002gii.1_Silent_p.E92E|TP53_uc010cnh.1_Silent_p.E224E|TP53_uc010cni.1_Silent_p.E224E|TP53_uc002gij.2_Silent_p.E224E|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Silent_p.E131E|TP53_uc002gio.2_Silent_p.E92E|TP53_uc010vug.1_Silent_p.E185E	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	224	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> D (in sporadic cancers; somatic mutation).|E -> G (in sporadic cancers; somatic mutation).|E -> V (in a sporadic cancer; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.E224D(11)|p.0?(7)|p.E224E(6)|p.E224K(5)|p.E224*(4)|p.?(3)|p.E224G(2)|p.E224fs*4(1)|p.E224fs*5(1)|p.V218_E224delVPYEPPE(1)|p.E224fs*23(1)|p.V225fs*24(1)|p.E224fs*24(1)|p.E224_V225insXX(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)		CAAACCAGACCTCAGGCGGCT	0.522		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)			11	20	---	---	---	---	PASS	T	7578177	T	T	7578177	2	4	169	1	0	0	0	0	0	0	0	1	16378	695	24	3		3	TP53	17	7578177	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	1039	7578177	73617033	155	60687			1	62		3	3	1156	N	G_C	2.604704e-05
GLP2R	9340	broad.mit.edu	37	chr17	9792887	9792887	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctacatctagccatgcgaggTcttggggagctgggcgccca	14	12	2	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:9792887T>G	uc002gmd.1	+	13	1527	c.1527T>G	c.(1525-1527)GGT>GGG	p.G509G		NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	509	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	CCATGCGAGGTCTTGGGGAGC	0.627													18	31	---	---	---	---	PASS	G	9792887	G	G	9792887	2	3	169	1	0	0	0	0	0	0	0	1	6453	1654	58	5		5	GLP2R	17	9792887	Silent	SNP	T	TCGA-66-2792-01A-01D-0983-08	2214710	9792887	71402323	156	60688										
MYH4	4622	broad.mit.edu	37	chr17	10359023	10359023	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ccgttacacctcagctgatgCaggacaagctcatgctccat	8	14	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:10359023C>A	uc002gmn.2	-	19	2193	c.2082G>T	c.(2080-2082)CTG>CTT	p.L694L	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	694	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TCAGCTGATGCAGGACAAGCT	0.488													17	44	---	---	---	---	PASS	A	10359023	A	A	10359023	2	1	169	1	0	0	0	0	0	0	0	1	10037	697	25	3		3	MYH4	17	10359023	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	566136	10359023	70836187	157	60689										
MYH1	4619	broad.mit.edu	37	chr17	10400644	10400644	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cgtttcaaggtttcaagttgGtctaaagattcctcataagc	8	8	4	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:10400644G>T	uc002gmo.2	-	32	4585	c.4491C>A	c.(4489-4491)GAC>GAA	p.D1497E	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1497	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TTTCAAGTTGGTCTAAAGATT	0.338													11	37	---	---	---	---	PASS	T	10400644	T	T	10400644	3	4	169	1	0	0	0	0	1	0	0	0	10029	1252	44	3	1364	3	MYH1	17	10400644	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	41621	10400644	70794566	158	60690										
DNAH9	1770	broad.mit.edu	37	chr17	11532901	11532901	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tgcctgtacctccaaagcacGgtagggttgggaagggctga	15	9	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:11532901G>C	uc002gne.2	+	7	1586	c.1518G>C	c.(1516-1518)ACG>ACC	p.T506T		NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	506	Potential.|Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TCCAAAGCACGGTAGGGTTGG	0.512													13	49	---	---	---	---	PASS	C	11532901	C	C	11532901	2	2	169	1	0	0	0	0	0	0	0	1	4608	1130	39	4		4	DNAH9	17	11532901	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	1132257	11532901	69662309	159	60691										
SUPT6H	6830	broad.mit.edu	37	chr17	27011913	27011913	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ggtgaaggagaagtgacagaCttccttcgactgccccattt	11	10	0	4			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:27011913C>A	uc002hby.2	+	19	2511	c.2421C>A	c.(2419-2421)GAC>GAA	p.D807E	SUPT6H_uc010crt.2_Missense_Mutation_p.D807E	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	807					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					AAGTGACAGACTTCCTTCGAC	0.478													4	62	---	---	---	---	PASS	A	27011913	A	A	27011913	3	1	169	1	0	0	0	0	1	0	0	0	15397	564	20	3	2491	3	SUPT6H	17	27011913	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	15479012	27011913	54183297	160	60692										
DDX52	11056	broad.mit.edu	37	chr17	35993348	35993348	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctgagattctccaactttccGgaagttagtttactttctct	6	10	2	1	rs145856014	byFrequency	TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:35993348G>A	uc002hoi.1	-	3	425	c.387C>T	c.(385-387)TCC>TCT	p.S129S	DDX52_uc002hoh.1_Silent_p.S21S|DDX52_uc002hoj.1_Silent_p.S37S	NM_007010	NP_008941	Q9Y2R4	DDX52_HUMAN	ATP-dependent RNA helicase ROK1 isoform a	129						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|skin(1)	2		Breast(25;0.00637)|Ovarian(249;0.15)				CCAACTTTCCGGAAGTTAGTT	0.358													31	67	---	---	---	---	PASS	A	35993348	A	A	35993348	2	1	169	1	0	0	0	0	0	0	0	1	4370	1103	39	1		1	DDX52	17	35993348	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	8981435	35993348	45201862	161	60693										
GSDMB	55876	broad.mit.edu	37	chr17	38073399	38073399	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gtgtccagaatgtccatcagGgtgaggcctgttgtgtagtg	15	7	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:38073399G>T	uc010cwj.2	-	1	176	c.171C>A	c.(169-171)ACC>ACA	p.T57T	GSDMB_uc010cwk.2_RNA|GSDMB_uc010cwl.2_RNA|GSDMB_uc010cwm.2_RNA|GSDMB_uc002htg.2_Silent_p.T57T|GSDMB_uc002hth.2_Silent_p.T57T|GSDMB_uc010wem.1_Silent_p.T57T	NM_001042471	NP_001035936	Q8TAX9	GSDMB_HUMAN	gasdermin B isoform 1	57						cytoplasm				breast(1)|pancreas(1)	2						TGTCCATCAGGGTGAGGCCTG	0.517													8	174	---	---	---	---	PASS	T	38073399	T	T	38073399	2	4	169	1	0	0	0	0	0	0	0	1	6817	1219	43	3		3	GSDMB	17	38073399	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	2080051	38073399	43121811	162	60694										
TEX14	56155	broad.mit.edu	37	chr17	56670914	56670914	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gaacaacaaaatgttgacccAcctactggtattttggatcc	7	10	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:56670914A>G	uc010dcz.1	-	15	2712	c.2594_splice	c.e15+1	p.S865_splice	TEX14_uc002iwr.1_Splice_Site_p.S859_splice|TEX14_uc002iws.1_Splice_Site_p.S859_splice|TEX14_uc010dda.1_Splice_Site_p.S639_splice	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a							cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					ATGTTGACCCACCTACTGGTA	0.423													14	31	---	---	---	---	PASS	G	56670914	G	G	56670914	5	3	169	1	0	0	0	0	0	0	1	0	15775	173	6	5	1973	5	TEX14	17	56670914	Splice_Site	SNP	A	TCGA-66-2792-01A-01D-0983-08	18597515	56670914	24524296	163	60695										
KCNJ16	3773	broad.mit.edu	37	chr17	68128628	68128628	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	agacccaaaccaccataggaTatggttatcgctgtgttact	8	10	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:68128628T>C	uc002jin.2	+	5	886	c.400T>C	c.(400-402)TAT>CAT	p.Y134H	KCNJ16_uc002jio.2_Missense_Mutation_p.Y134H|KCNJ16_uc002jip.2_Missense_Mutation_p.Y134H|KCNJ16_uc002jiq.2_Missense_Mutation_p.Y166H	NM_018658	NP_061128	Q9NPI9	IRK16_HUMAN	potassium inwardly-rectifying channel J16	134	Selectivity filter (By similarity).				synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Breast(10;2.96e-09)					CACCATAGGATATGGTTATCG	0.438													7	62	---	---	---	---	PASS	C	68128628	C	C	68128628	3	2	169	1	0	0	0	0	1	0	0	0	8050	1406	49	5	402	5	KCNJ16	17	68128628	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08	11457714	68128628	13066582	164	60696										
MGAT5B	146664	broad.mit.edu	37	chr17	74899417	74899417	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ggcgggaccagtgtgaggcaCccagtgaccccaagttccct	13	14	0	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:74899417C>T	uc002jti.2	+	4	614	c.511C>T	c.(511-513)CCC>TCC	p.P171S	MGAT5B_uc002jth.2_Missense_Mutation_p.P160S	NM_198955	NP_945193	Q3V5L5	MGT5B_HUMAN	N-acetylglucosaminyltranferase VB isoform 2	160	Lumenal (Potential).					Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						GTGTGAGGCACCCAGTGACCC	0.647													12	45	---	---	---	---	PASS	T	74899417	T	T	74899417	3	4	169	1	0	0	0	0	1	0	0	0	9549	507	18	3	597	3	MGAT5B	17	74899417	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	6770789	74899417	6295793	165	60697										
SGSH	6448	broad.mit.edu	37	chr17	78184602	78184602	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ttgaagttgaggttgtgcacGaggcggaagtgccggtgctg	18	6	0	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:78184602G>T	uc002jxz.3	-	8	1245	c.1158C>A	c.(1156-1158)CTC>CTA	p.L386L	SGSH_uc002jya.3_Silent_p.L183L|SGSH_uc002jxy.2_3'UTR	NM_000199	NP_000190	P51688	SPHM_HUMAN	N-sulfoglucosamine sulfohydrolase precursor	386			L -> R (in MPS3A).		proteoglycan metabolic process	lysosome	metal ion binding|N-sulfoglucosamine sulfohydrolase activity|sulfuric ester hydrolase activity			ovary(1)|central_nervous_system(1)	2	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			GGTTGTGCACGAGGCGGAAGT	0.627													4	90	---	---	---	---	PASS	T	78184602	T	T	78184602	2	4	169	1	0	0	0	0	0	0	0	1	14221	1045	37	2		2	SGSH	17	78184602	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	3285185	78184602	3010608	166	60698										
C17orf70	80233	broad.mit.edu	37	chr17	79514423	79514423	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cggggatggtgtaggtgatgGcggagcaggccgagtccagg	21	7	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:79514423G>C	uc002kaq.2	-	5	1740	c.1685C>G	c.(1684-1686)GCC>GGC	p.A562G	C17orf70_uc002kao.1_Missense_Mutation_p.A211G|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Missense_Mutation_p.A411G	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	562					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			GTAGGTGATGGCGGAGCAGGC	0.682													35	33	---	---	---	---	PASS	C	79514423	C	C	79514423	3	2	169	1	0	0	0	0	1	0	0	0	1877	1203	42	4	980	4	C17orf70	17	79514423	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	1329821	79514423	1680787	167	60699										
WDR45L	56270	broad.mit.edu	37	chr17	80575270	80575270	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gacgcatcctgattgaagttGatgctgcagagaaaaccagc	11	9	0	4			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr17:80575270G>A	uc002kfq.2	-	8	903	c.708C>T	c.(706-708)ATC>ATT	p.I236I	WDR45L_uc002kfr.2_RNA	NM_019613	NP_062559	Q5MNZ6	WIPI3_HUMAN	WDR45-like	236	WD 2.				autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1	Breast(20;0.00106)|all_neural(118;0.0952)	all_cancers(8;0.101)|all_epithelial(8;0.198)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.0835)			GATTGAAGTTGATGCTGCAGA	0.502													12	30	---	---	---	---	PASS	A	80575270	A	A	80575270	2	1	169	1	0	0	0	0	0	0	0	1	17295	1280	45	2		2	WDR45L	17	80575270	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	1060847	80575270	619940	168	60700										
LAMA3	3909	broad.mit.edu	37	chr18	21427528	21427528	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gaggtgtgtgagacacactcAttcagcttccaccccatggc	10	13	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr18:21427528A>G	uc002kuq.2	+	32	4118	c.4032A>G	c.(4030-4032)TCA>TCG	p.S1344S	LAMA3_uc002kur.2_Silent_p.S1344S	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1344	Laminin EGF-like 10.|Domain III B.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGACACACTCATTCAGCTTCC	0.657													24	4	---	---	---	---	PASS	G	21427528	G	G	21427528	2	3	169	1	0	0	0	0	0	0	0	1	8607	204	8	5		5	LAMA3	18	21427528	Silent	SNP	A	TCGA-66-2792-01A-01D-0983-08		21427528	56649720	169	60701										
MC4R	4160	broad.mit.edu	37	chr18	58038736	58038736	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tatgagatacaagttaaagtGagacatgaagcacacacaat	8	6	0	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr18:58038736G>T	uc002lie.1	-	1	1266	c.847C>A	c.(847-849)CAC>AAC	p.H283N		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	283	Helical; Name=7; (Potential).				feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)				AAGTTAAAGTGAGACATGAAG	0.413													5	73	---	---	---	---	PASS	T	58038736	T	T	58038736	3	4	169	1	0	0	0	0	1	0	0	0	9366	1290	45	2	155	2	MC4R	18	58038736	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	36611208	58038736	20038512	170	60702										
AP3D1	8943	broad.mit.edu	37	chr19	2137779	2137779	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tatgatgttgaaggcggcccAgctgatgtcgtatcccaaca	11	10	0	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr19:2137779A>T	uc002luz.2	-	3	443	c.220T>A	c.(220-222)TGG>AGG	p.W74R	AP3D1_uc002luy.2_Missense_Mutation_p.W74R|AP3D1_uc002lva.2_Missense_Mutation_p.W74R	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	74					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGGCGGCCCAGCTGATGTCG	0.522													109	26	---	---	---	---	PASS	T	2137779	T	T	2137779	3	4	169	1	0	0	0	0	1	0	0	0	746	188	7	5	3511	5	AP3D1	19	2137779	Missense_Mutation	SNP	A	TCGA-66-2792-01A-01D-0983-08		2137779	56991204	171	60703										
XAB2	56949	broad.mit.edu	37	chr19	7685168	7685168	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tgggacggctcaccggtgccCgtggcactgcccgagacctt	14	15	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr19:7685168C>T	uc002mgx.2	-	16	2285	c.2259G>A	c.(2257-2259)ACG>ACA	p.T753T		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	753				SAT -> IP (in Ref. 2; AAF86951).	transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						CACCGGTGCCCGTGGCACTGC	0.637								Direct_reversal_of_damage|NER					4	18	---	---	---	---	PASS	T	7685168	T	T	7685168	2	4	169	1	0	0	0	0	0	0	0	1	17415	639	23	1		1	XAB2	19	7685168	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	5547389	7685168	51443815	172	60704										
MUC16	94025	broad.mit.edu	37	chr19	9077425	9077425	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ccacatagagaattccattcCagttgtctttgaaaccagtt	6	10	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr19:9077425C>A	uc002mkp.2	-	3	10225	c.10021G>T	c.(10021-10023)GGA>TGA	p.G3341*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3342	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AATTCCATTCCAGTTGTCTTT	0.498													5	167	---	---	---	---	PASS	A	9077425	A	A	9077425	4	1	169	1	0	0	0	0	0	1	0	0	9973	603	21	3	33830	3	MUC16	19	9077425	Nonsense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	1392257	9077425	50051558	173	60705										
ASNA1	439	broad.mit.edu	37	chr19	12856427	12856427	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ccctgtctcccctcaggctgGtgaagggcatgaacttctcg	11	14	3	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr19:12856427G>T	uc002muv.2	+	4	477	c.463G>T	c.(463-465)GTG>TTG	p.V155L	ASNA1_uc002muw.2_Missense_Mutation_p.V154L	NM_004317	NP_004308	O43681	ASNA_HUMAN	arsA arsenite transporter, ATP-binding, homolog	155					response to arsenic-containing substance	endoplasmic reticulum|nucleolus|soluble fraction	arsenite-transporting ATPase activity|ATP binding|metal ion binding			ovary(2)	2					Adenosine triphosphate(DB00171)	CCTCAGGCTGGTGAAGGGCAT	0.667													38	14	---	---	---	---	PASS	T	12856427	T	T	12856427	3	4	169	1	0	0	0	0	1	0	0	0	1047	1261	44	3	477	3	ASNA1	19	12856427	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	3779002	12856427	46272556	174	60706										
C19orf46	163183	broad.mit.edu	37	chr19	36494565	36494565	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	agatgaggagatgcttgcctCttcttgtcctaaggagggag	14	7	2	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr19:36494565C>G	uc002ocq.1	-	7	1070	c.981G>C	c.(979-981)AAG>AAC	p.K327N	C19orf46_uc002ocr.1_Missense_Mutation_p.E268Q|C19orf46_uc002ocs.1_Missense_Mutation_p.K214N|C19orf46_uc010een.1_Missense_Mutation_p.K242N	NM_001039876	NP_001034965	Q8N205	SYNE4_HUMAN	hypothetical protein LOC163183	327	Cytoplasmic (Potential).				establishment of epithelial cell apical/basal polarity	integral to nuclear outer membrane	actin binding			ovary(1)	1	all_lung(56;1.35e-06)|Lung NSC(56;2.15e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			ATGCTTGCCTCTTCTTGTCCT	0.433													4	22	---	---	---	---	PASS	G	36494565	G	G	36494565	3	3	169	1	0	0	0	0	1	0	0	0	1929	912	32	2	241	2	C19orf46	19	36494565	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	23638138	36494565	22634418	175	60707										
ZNF568	374900	broad.mit.edu	37	chr19	37440987	37440987	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	accttatgcatgtaaggattGttggaaagccttcagtcaga	10	7	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr19:37440987G>C	uc002ofc.2	+	7	1447	c.932G>C	c.(931-933)TGT>TCT	p.C311S	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Missense_Mutation_p.C235S|ZNF568_uc010efe.2_Missense_Mutation_p.C235S|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	311	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TGTAAGGATTGTTGGAAAGCC	0.383													11	31	---	---	---	---	PASS	C	37440987	C	C	37440987	3	2	169	1	0	0	0	0	1	0	0	0	17996	1377	48	4	950	4	ZNF568	19	37440987	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	946422	37440987	21687996	176	60708										
MAP4K1	11184	broad.mit.edu	37	chr19	39108208	39108208	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gctccatgttccctcctcacCaggctccatcttcaccatct	4	19	4	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr19:39108208C>T	uc002oix.1	-	2	265	c.157G>A	c.(157-159)GAT>AAT	p.D53N	MAP4K1_uc002oiy.1_Missense_Mutation_p.D53N|EIF3K_uc010xuh.1_5'Flank|EIF3K_uc002oiz.1_5'Flank|EIF3K_uc010xui.1_5'Flank	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	53	Protein kinase.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCCTCCTCACCAGGCTCCATC	0.602													10	26	---	---	---	---	PASS	T	39108208	T	T	39108208	3	4	169	1	0	0	0	0	1	0	0	0	9259	608	21	3	2530	3	MAP4K1	19	39108208	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	1667221	39108208	20020775	177	60709										
CEACAM6	4680	broad.mit.edu	37	chr19	42265295	42265295	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tggtcagagcctcccggtcaGtcccaggctgcagctgtcca	12	15	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr19:42265295G>C	uc002orm.2	+	3	712	c.563G>C	c.(562-564)AGT>ACT	p.S188T		NM_002483	NP_002474	P40199	CEAM6_HUMAN	carcinoembryonic antigen-related cell adhesion	188	Ig-like C2-type 1.				cell-cell signaling|signal transduction	anchored to membrane|integral to plasma membrane				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(3;0.00575)|all cancers(3;0.0352)|Epithelial(262;0.0797)		CTCCCGGTCAGTCCCAGGCTG	0.537													87	204	---	---	---	---	PASS	C	42265295	C	C	42265295	3	2	169	1	0	0	0	0	1	0	0	0	3196	1029	36	4	573	4	CEACAM6	19	42265295	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	3157087	42265295	16863688	178	60710										
ZNF230	7773	broad.mit.edu	37	chr19	44515453	44515453	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctgccggaaaaaacccttcaAatgtgaggattgtggaaaga	11	7	1	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr19:44515453A>G	uc002oyb.1	+	5	1513	c.1262A>G	c.(1261-1263)AAA>AGA	p.K421R		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	421	C2H2-type 10; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				AAACCCTTCAAATGTGAGGAT	0.438													47	21	---	---	---	---	PASS	G	44515453	G	G	44515453	3	3	169	1	0	0	0	0	1	0	0	0	17781	14	1	5	1276	5	ZNF230	19	44515453	Missense_Mutation	SNP	A	TCGA-66-2792-01A-01D-0983-08	2250158	44515453	14613530	179	60711										
TGM6	343641	broad.mit.edu	37	chr20	2384287	2384287	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	cgagggtgatgtgcacctggCtcacgatggccccttcgtgt	14	12	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr20:2384287C>A	uc002wfy.1	+	9	1215	c.1154C>A	c.(1153-1155)GCT>GAT	p.A385D	TGM6_uc010gal.1_Missense_Mutation_p.A385D	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	385					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	GTGCACCTGGCTCACGATGGC	0.622													31	45	---	---	---	---	PASS	A	2384287	A	A	2384287	3	1	169	1	0	0	0	0	1	0	0	0	15831	797	28	3	1188	3	TGM6	20	2384287	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08		2384287	60641233	180	60712										
OGFR	11054	broad.mit.edu	37	chr20	61444873	61444873	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctgcaggggacgagccagccGagagcccatcggagacccca	14	15	0	2	rs141833389		TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr20:61444873G>T	uc002ydj.2	+	7	1941	c.1906G>T	c.(1906-1908)GAG>TAG	p.E636*	OGFR_uc002ydk.2_Nonsense_Mutation_p.E619*|OGFR_uc002ydl.2_Nonsense_Mutation_p.E584*|uc011aam.1_Silent_p.R4R	NM_007346	NP_031372	Q9NZT2	OGFR_HUMAN	opioid growth factor receptor	636	6.|7 X 20 AA approximate tandem repeats of [ST]-P-S-E-T-P-G-P-[SR]-P-A-G-P-[AT]- [GR]-D-E-P-A-[EK].				regulation of cell growth	cytoplasm|membrane|nucleus	opioid receptor activity				0	Breast(26;3.65e-08)					CGAGCCAGCCGAGAGCCCATC	0.731													6	6	---	---	---	---	PASS	T	61444873	T	T	61444873	4	4	169	1	0	0	0	0	0	1	0	0	10843	1059	37	2	1932	2	OGFR	20	61444873	Nonsense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	59060586	61444873	1580647	181	60713										
KRTAP6-2	337967	broad.mit.edu	37	chr21	31971186	31971186	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	agtagtttccgtagtagctgCcgcacatcgtgatggttgtg	13	8	0	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr21:31971186C>A	uc011adc.1	-	1	8	c.8G>T	c.(7-9)GGC>GTC	p.G3V	KRTAP22-1_uc011add.1_5'Flank	NM_181604	NP_853635	Q3LI66	KRA62_HUMAN	keratin associated protein 6-2	3						intermediate filament					0						GTAGTAGCTGCCGCACATCGT	0.493													21	31	---	---	---	---	PASS	A	31971186	A	A	31971186	3	1	169	1	0	0	0	0	1	0	0	0	8570	739	26	3	183	3	KRTAP6-2	21	31971186	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08		31971186	16158709	182	60714										
GAL3ST1	9514	broad.mit.edu	37	chr22	30951444	30951444	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ttcagcagcaccagcgactcGtcgaagtactcttgaaggag	11	11	2	1	rs35962480		TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr22:30951444G>A	uc003aig.1	-	4	908	c.768C>T	c.(766-768)GAC>GAT	p.D256D	GAL3ST1_uc003aih.1_Silent_p.D256D|GAL3ST1_uc003aii.1_Silent_p.D256D|GAL3ST1_uc010gvz.1_Silent_p.D256D	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	256	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						CCAGCGACTCGTCGAAGTACT	0.642													6	135	---	---	---	---	PASS	A	30951444	A	A	30951444	2	1	169	1	0	0	0	0	0	0	0	1	6197	1136	40	1		1	GAL3ST1	22	30951444	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08		30951444	20353122	183	60715										
GAL3ST1	9514	broad.mit.edu	37	chr22	30951744	30951744	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	agcaccgtgatgaagatggcGttggtcggcaccaggccgcg	16	11	0	3			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr22:30951744G>A	uc003aig.1	-	4	608	c.468C>T	c.(466-468)AAC>AAT	p.N156N	GAL3ST1_uc003aih.1_Silent_p.N156N|GAL3ST1_uc003aii.1_Silent_p.N156N|GAL3ST1_uc010gvz.1_Silent_p.N156N	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	156	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						TGAAGATGGCGTTGGTCGGCA	0.657													31	51	---	---	---	---	PASS	A	30951744	A	A	30951744	2	1	169	1	0	0	0	0	0	0	0	1	6197	1136	40	1		1	GAL3ST1	22	30951744	Silent	SNP	G	TCGA-66-2792-01A-01D-0983-08	300	30951744	20352822	184	60716										
LIMK2	3985	broad.mit.edu	37	chr22	31674411	31674411	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	catgcagtacggcctgacccGggactcacctccctagccct	9	18	1	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr22:31674411G>T	uc003akh.2	+	16	2046	c.1901G>T	c.(1900-1902)CGG>CTG	p.R634L	LIMK2_uc003aki.2_Missense_Mutation_p.R388L|LIMK2_uc003akk.2_Missense_Mutation_p.R613L|LIMK2_uc011aln.1_Missense_Mutation_p.R551L	NM_005569	NP_005560	P53671	LIMK2_HUMAN	LIM domain kinase 2 isoform 2a	634						mitochondrion|nucleus	ATP binding|protein serine/threonine kinase activity|zinc ion binding			ovary(2)	2						GGCCTGACCCGGGACTCACCT	0.662													59	83	---	---	---	---	PASS	T	31674411	T	T	31674411	3	4	169	1	0	0	0	0	1	0	0	0	8802	1116	39	1	2376	1	LIMK2	22	31674411	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	722667	31674411	19630155	185	60717										
CDC42EP1	11135	broad.mit.edu	37	chr22	37964144	37964144	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctgggttctgcaccatctccCgcctgccccgctcggaaaag	10	17	2	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr22:37964144C>T	uc003asz.3	+	3	896	c.493C>T	c.(493-495)CGC>TGC	p.R165C		NM_152243	NP_689449	Q00587	BORG5_HUMAN	CDC42 effector protein 1	165					positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|endomembrane system|Golgi apparatus|plasma membrane	protein binding				0	Melanoma(58;0.0574)					CACCATCTCCCGCCTGCCCCG	0.632													53	80	---	---	---	---	PASS	T	37964144	T	T	37964144	3	4	169	1	0	0	0	0	1	0	0	0	3075	652	23	1	499	1	CDC42EP1	22	37964144	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	6289733	37964144	13340422	186	60718										
APOBEC3A	200315	broad.mit.edu	37	chr22	39357613	39357613	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	gctgcccgcatctatgattaCgaccccctatataaggaggc	9	13	1	1	rs141631289		TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr22:39357613C>T	uc003awn.2	+	3	566	c.396C>T	c.(394-396)TAC>TAT	p.Y132Y	APOBEC3A_uc011aob.1_Silent_p.Y114Y|APOBEC3A_uc011aoc.1_Silent_p.Y132Y	NM_145699	NP_663745	P31941	ABC3A_HUMAN	phorbolin 1	132					cellular response to xenobiotic stimulus|defense response to virus|DNA cytosine deamination|DNA demethylation|innate immune response|negative regulation of transposition|negative regulation of viral genome replication	cytoplasm|nucleus	cytidine deaminase activity|zinc ion binding			ovary(1)	1	Melanoma(58;0.04)					TCTATGATTACGACCCCCTAT	0.572													8	107	---	---	---	---	PASS	T	39357613	T	T	39357613	2	4	169	1	0	0	0	0	0	0	0	1	789	547	19	1		1	APOBEC3A	22	39357613	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	1393469	39357613	11946953	187	60719										
RBX1	9978	broad.mit.edu	37	chr22	41349630	41349630	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	atctgcaggaaccacattatGgatctttgtaagtaattgga	9	6	2	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr22:41349630G>A	uc003azk.2	+	2	168	c.150G>A	c.(148-150)ATG>ATA	p.M50I	XPNPEP3_uc011aoy.1_RNA	NM_014248	NP_055063	P62877	RBX1_HUMAN	ring-box 1	50					DNA repair|interspecies interaction between organisms|protein neddylation|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|viral reproduction	Cul3-RING ubiquitin ligase complex|Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytosol|nucleus|SCF ubiquitin ligase complex	NEDD8 ligase activity|protein binding|zinc ion binding			skin(1)	1						ACCACATTATGGATCTTTGTA	0.458													18	71	---	---	---	---	PASS	A	41349630	A	A	41349630	3	1	169	1	0	0	0	0	1	0	0	0	13165	1348	47	3	156	3	RBX1	22	41349630	Missense_Mutation	SNP	G	TCGA-66-2792-01A-01D-0983-08	1992017	41349630	9954936	188	60720										
TCF20	6942	broad.mit.edu	37	chr22	42608247	42608247	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctccccctgggcctctgctcCgcccaggagacattttcaat	8	17	2	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chr22:42608247C>T	uc003bcj.1	-	1	3199	c.3065G>A	c.(3064-3066)CGG>CAG	p.R1022Q	TCF20_uc003bck.1_Missense_Mutation_p.R1022Q|TCF20_uc003bnt.2_Missense_Mutation_p.R1022Q	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	1022					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						GCCTCTGCTCCGCCCAGGAGA	0.547													14	37	---	---	---	---	PASS	T	42608247	T	T	42608247	3	4	169	1	0	0	0	0	1	0	0	0	15687	652	23	1	2855	1	TCF20	22	42608247	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	1258617	42608247	8696319	189	60721										
CXorf22	170063	broad.mit.edu	37	chrX	35974179	35974179	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ttaattttaaaccttgtttcAtgggtgaacgttcagaaatt	7	5	2	2			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chrX:35974179A>C	uc004ddj.2	+	8	1335	c.1276A>C	c.(1276-1278)ATG>CTG	p.M426L	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	426										large_intestine(1)|lung(1)|ovary(1)	3						ACCTTGTTTCATGGGTGAACG	0.363													18	19	---	---	---	---	PASS	C	35974179	C	C	35974179	3	2	169	1	0	0	0	0	1	0	0	0	4102	217	8	5	1306	5	CXorf22	23	35974179	Missense_Mutation	SNP	A	TCGA-66-2792-01A-01D-0983-08		35974179	119296381	190	60722										
ARAF	369	broad.mit.edu	37	chrX	47424714	47424714	+	Frame_Shift_Del	DEL	C	-	-													0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	catgaggctccctcgaaccgCcccctgaatgagttgctaac							TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chrX:47424714delC	uc011mlq.1	+	6	655	c.522delC	c.(520-522)CGCfs	p.R174fs	ARAF_uc011mln.1_RNA|ARAF_uc011mlo.1_Frame_Shift_Del_p.R40fs|ARAF_uc011mlp.1_Frame_Shift_Del_p.R174fs|ARAF_uc004dic.1_5'UTR	NM_001654	NP_001645	P10398	ARAF_HUMAN	v-raf murine sarcoma 3611 viral oncogene	174					intracellular signal transduction|negative regulation of apoptosis|positive regulation of peptidyl-serine phosphorylation		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity			large_intestine(3)|lung(2)|ovary(1)|skin(1)	7					Adenosine triphosphate(DB00171)	CCTCGAACCGCCCCCTGAATG	0.572													4	8	---	---	---	---		-	47424714	-	-	47424714	7	5	169	1	0	1	0	1	0	0	0	0	837	726	26	0	540	0	ARAF	23	47424714	Frame_Shift_Del	DEL	C	TCGA-66-2792-01A-01D-0983-08	11450535	47424714	107845846	191	60723										
LAS1L	81887	broad.mit.edu	37	chrX	64749609	64749609	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ctctggtttctgttctgtgaTgtcatcaacaacaatgttct	7	9	6	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chrX:64749609T>C	uc004dwa.1	-	5	736	c.664A>G	c.(664-666)ATC>GTC	p.I222V	LAS1L_uc004dwc.1_Missense_Mutation_p.I222V|LAS1L_uc004dwd.1_Missense_Mutation_p.I180V	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	222						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						TGTTCTGTGATGTCATCAACA	0.488													46	11	---	---	---	---	PASS	C	64749609	C	C	64749609	3	2	169	1	0	0	0	0	1	0	0	0	8636	1464	51	5	1580	5	LAS1L	23	64749609	Missense_Mutation	SNP	T	TCGA-66-2792-01A-01D-0983-08	17324895	64749609	90520951	192	60724										
NOX1	27035	broad.mit.edu	37	chrX	100117753	100117753	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	ggcaagggagccatctgtggCctgtcggcttctgctatagc	14	11	2	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chrX:100117753C>T	uc004egj.2	-	5	600	c.394G>A	c.(394-396)GCC>ACC	p.A132T	uc010nnf.2_Intron|NOX1_uc004egl.3_Missense_Mutation_p.A132T|NOX1_uc010nne.2_Missense_Mutation_p.A95T	NM_007052	NP_008983	Q9Y5S8	NOX1_HUMAN	NADPH oxidase 1 isoform long	132	Extracellular (Potential).|Ferric oxidoreductase.				angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1						CCATCTGTGGCCTGTCGGCTT	0.463													56	70	---	---	---	---	PASS	T	100117753	T	T	100117753	3	4	169	1	0	0	0	0	1	0	0	0	10556	739	26	3	1336	3	NOX1	23	100117753	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	35368144	100117753	55152807	193	60725										
COL4A5	1287	broad.mit.edu	37	chrX	107834432	107834432	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tcctgggcttccagggcctcCtggccctgctggccctcaca	11	18	1	0			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chrX:107834432C>T	uc004enz.1	+	20	1512	c.1310C>T	c.(1309-1311)CCT>CTT	p.P437L	COL4A5_uc011mso.1_Missense_Mutation_p.P437L|COL4A5_uc004eob.1_Missense_Mutation_p.P45L	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	437	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						CCAGGGCCTCCTGGCCCTGCT	0.468									Alport_syndrome_with_Diffuse_Leiomyomatosis				33	10	---	---	---	---	PASS	T	107834432	T	T	107834432	3	4	169	1	0	0	0	0	1	0	0	0	3694	681	24	3	1388	3	COL4A5	23	107834432	Missense_Mutation	SNP	C	TCGA-66-2792-01A-01D-0983-08	7716679	107834432	47436128	194	60726										
AKAP14	158798	broad.mit.edu	37	chrX	119048814	119048814	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0567010309278351	11	0.665937854907983	0.964162661575263	1.38572295949345	0.821376109054586	0.475633586868292	0.81842946137857	0	tctgctggtacctacttcacCatgaaggtctccaaaaccaa	6	13	3	1			TCGA-66-2792-01A-01D-0983-08	TCGA-66-2792-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	b704a17a-9ee9-4555-b2bb-250ac1ec5bed	55e476a9-f8cb-4765-965d-c98e43c6742d	g.chrX:119048814C>A	uc004ese.2	+	5	552	c.414C>A	c.(412-414)ACC>ACA	p.T138T	AKAP14_uc004esf.2_Intron	NM_178813	NP_848928	Q86UN6	AKA28_HUMAN	A kinase (PRKA) anchor protein 14 isoform a	138						cytoplasm					0						CCTACTTCACCATGAAGGTCT	0.388													6	123	---	---	---	---	PASS	A	119048814	A	A	119048814	2	1	169	1	0	0	0	0	0	0	0	1	450	581	21	3		3	AKAP14	23	119048814	Silent	SNP	C	TCGA-66-2792-01A-01D-0983-08	11214382	119048814	36221746	195	60727										
ARID1A	8289	broad.mit.edu	37	chr1	27094376	27094376	+	Frame_Shift_Del	DEL	G	-	-													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	atgtgggtggaccgttatctGgccttcactgaggagaaggc					rs147183988		TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:27094376delG	uc001bmv.1	+	11	3457	c.3084delG	c.(3082-3084)CTGfs	p.L1028fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.L1028fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.L1028fs|ARID1A_uc001bmw.1_Frame_Shift_Del_p.L645fs	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1028	ARID.				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)		ACCGTTATCTGGCCTTCACTG	0.502			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								20	99	---	---	---	---		-	27094376	-	-	27094376	7	5	170	1	0	1	0	1	0	0	0	0	913	1335	47	0	3126	0	ARID1A	1	27094376	Frame_Shift_Del	DEL	G	TCGA-66-2793-01A-01D-1267-08		27094376	222156245	1	60728										
ORC1L	4998	broad.mit.edu	37	chr1	52859253	52859253	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttcgggttctcaggattatgCgatgttcaggtgaagccttc	12	8	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:52859253C>T	uc001ctt.2	-	6	1163	c.944G>A	c.(943-945)CGC>CAC	p.R315H	ORC1L_uc010oni.1_Missense_Mutation_p.R315H|ORC1L_uc001ctu.2_Missense_Mutation_p.R315H|ORC1L_uc009vzd.2_Missense_Mutation_p.R69H	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	315					cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						CAGGATTATGCGATGTTCAGG	0.468													4	237	---	---	---	---	PASS	T	52859253	T	T	52859253	3	4	170	1	0	0	0	0	1	0	0	0	11261	768	27	1	1689	1	ORC1L	1	52859253	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	25764877	52859253	196391368	2	60729										
FAM159A	348378	broad.mit.edu	37	chr1	53099337	53099337	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cctacgagcacagctacatgTggtggctcaggtaccgtccc	11	14	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:53099337T>A	uc001cuf.2	+	1	272	c.172T>A	c.(172-174)TGG>AGG	p.W58R	FAM159A_uc001cug.1_RNA|FAM159A_uc001cuh.2_RNA	NM_001042693	NP_001036158	Q6UWV7	F159A_HUMAN	hypothetical protein LOC348378	58	Helical; (Potential).					integral to membrane					0						CAGCTACATGTGGTGGCTCAG	0.577													41	110	---	---	---	---	PASS	A	53099337	A	A	53099337	3	1	170	1	0	0	0	0	1	0	0	0	5468	1696	59	5	174	5	FAM159A	1	53099337	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	240084	53099337	196151284	3	60730										
ROR1	4919	broad.mit.edu	37	chr1	64643305	64643305	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	caacaagaagcctccctaatGgcagaactgcaccaccccaa	6	16	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:64643305G>A	uc001dbj.2	+	9	1980	c.1581G>A	c.(1579-1581)ATG>ATA	p.M527I	uc001dbm.2_5'Flank	NM_005012	NP_005003	Q01973	ROR1_HUMAN	receptor tyrosine kinase-like orphan receptor 1	527	Cytoplasmic (Potential).|Protein kinase.				transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19						CCTCCCTAATGGCAGAACTGC	0.488													360	196	---	---	---	---	PASS	A	64643305	A	A	64643305	3	1	170	1	0	0	0	0	1	0	0	0	13526	1348	47	3	1623	3	ROR1	1	64643305	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	11543968	64643305	184607316	4	60731										
SLC44A5	204962	broad.mit.edu	37	chr1	75679476	75679476	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaagaataggaaggccagaaCacctacattgaaaaggtaga	11	6	0	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:75679476C>A	uc001dgu.2	-	22	2020	c.1876G>T	c.(1876-1878)GTT>TTT	p.V626F	SLC44A5_uc001dgt.2_Missense_Mutation_p.V626F|SLC44A5_uc001dgs.2_Missense_Mutation_p.V584F|SLC44A5_uc001dgr.2_Missense_Mutation_p.V584F|SLC44A5_uc010oqz.1_Missense_Mutation_p.V665F|SLC44A5_uc010ora.1_Missense_Mutation_p.V620F|SLC44A5_uc010orb.1_Missense_Mutation_p.V496F	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	626	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						AAGGCCAGAACACCTACATTG	0.348													45	36	---	---	---	---	PASS	A	75679476	A	A	75679476	3	1	170	1	0	0	0	0	1	0	0	0	14639	478	17	3	406	3	SLC44A5	1	75679476	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	11036171	75679476	173571145	5	60732										
MSH4	4438	broad.mit.edu	37	chr1	76363642	76363642	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaactatgccatattgatgcCctgtatcctaatgtagaaaa	7	8	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:76363642C>T	uc001dhd.1	+	18	2447	c.2406C>T	c.(2404-2406)GCC>GCT	p.A802A		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	802					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						ATATTGATGCCCTGTATCCTA	0.308								MMR					33	16	---	---	---	---	PASS	T	76363642	T	T	76363642	2	4	170	1	0	0	0	0	0	0	0	1	9872	610	22	3		3	MSH4	1	76363642	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	684166	76363642	172886979	6	60733										
CLCA2	9635	broad.mit.edu	37	chr1	86921073	86921073	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctgatcctgtacctgccagaGattatcttatattgaaagga	8	8	1	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:86921073G>A	uc001dlr.3	+	14	2857	c.2695G>A	c.(2695-2697)GAT>AAT	p.D899N		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor	899	Extracellular (Potential).				cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		ACCTGCCAGAGATTATCTTAT	0.398													47	335	---	---	---	---	PASS	A	86921073	A	A	86921073	3	1	170	1	0	0	0	0	1	0	0	0	3458	942	33	2	2749	2	CLCA2	1	86921073	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	10557431	86921073	162329548	7	60734										
CLCA4	22802	broad.mit.edu	37	chr1	87025691	87025691	+	Nonsense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tttcaaaaatgtatctatatTaattcctgagaattggaagg	7	4	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:87025691T>G	uc009wcs.2	+	2	280	c.236T>G	c.(235-237)TTA>TGA	p.L79*	CLCA4_uc009wct.2_Translation_Start_Site|CLCA4_uc009wcu.2_Translation_Start_Site	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	79						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		GTATCTATATTAATTCCTGAG	0.294													14	70	---	---	---	---	PASS	G	87025691	G	G	87025691	4	3	170	1	0	0	0	0	0	1	0	0	3459	1764	61	5	242	5	CLCA4	1	87025691	Nonsense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	104618	87025691	162224930	8	60735										
RPL5	6125	broad.mit.edu	37	chr1	93301883	93301883	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgcaggccttgccagaactaCcactggcaataaagtttttg	9	10	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:93301883C>T	uc001doz.2	+	5	539	c.461C>T	c.(460-462)ACC>ATC	p.T154I	FAM69A_uc001dpc.2_Intron|RPL5_uc001dpa.2_RNA|RPL5_uc001dpb.2_Missense_Mutation_p.T104I|RPL5_uc001dpd.2_5'UTR|SNORD21_uc001dpe.2_5'Flank	NM_000969	NP_000960	P46777	RL5_HUMAN	ribosomal protein L5	154					endocrine pancreas development|ribosomal large subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	5S rRNA binding|protein binding|structural constituent of ribosome				0		all_lung(203;0.00265)|Lung NSC(277;0.0056)|all_neural(321;0.185)|Melanoma(281;0.192)|Glioma(108;0.203)		GBM - Glioblastoma multiforme(16;0.000305)|all cancers(265;0.000343)|Epithelial(280;0.0927)		GCCAGAACTACCACTGGCAAT	0.498													58	110	---	---	---	---	PASS	T	93301883	T	T	93301883	3	4	170	1	0	0	0	0	1	0	0	0	13597	507	18	3	479	3	RPL5	1	93301883	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	6276192	93301883	155948738	9	60736										
ABCA4	24	broad.mit.edu	37	chr1	94461693	94461693	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gtcgactggctccagcagctCgagggtgcagagggaggtca	17	10	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:94461693C>G	uc001dqh.2	-	49	6892	c.6788G>C	c.(6787-6789)CGA>CCA	p.R2263P		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	2263	Cytoplasmic.		R -> L (in STGD1).		phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		TCCAGCAGCTCGAGGGTGCAG	0.527													12	34	---	---	---	---	PASS	G	94461693	G	G	94461693	3	3	170	1	0	0	0	0	1	0	0	0	34	884	31	2	41	2	ABCA4	1	94461693	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	1159810	94461693	154788928	10	60737										
HBXIP	10542	broad.mit.edu	37	chr1	110950301	110950301	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cggcacgtccttctccaccaCaggcctcagtcacttgacgc	8	18	3	1	rs140594819		TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:110950301C>A	uc001dzr.2	-	1	246	c.188G>T	c.(187-189)TGT>TTT	p.C63F		NM_006402	NP_006393	O43504	HBXIP_HUMAN	hepatitis B virus x-interacting protein	Error:Variant_position_missing_in_O43504_after_alignment					anti-apoptosis|negative regulation of caspase activity|response to virus|viral genome replication	cytosol	protein binding			large_intestine(1)|ovary(1)|pancreas(1)	3		all_cancers(81;4.08e-06)|all_epithelial(167;4.38e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0237)|all cancers(265;0.0675)|Epithelial(280;0.0732)|Colorectal(144;0.102)|LUSC - Lung squamous cell carcinoma(189;0.134)		TTCTCCACCACAGGCCTCAGT	0.602													75	12	---	---	---	---	PASS	A	110950301	A	A	110950301	3	1	170	1	0	0	0	0	1	0	0	0	6988	478	17	3	349	3	HBXIP	1	110950301	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	16488608	110950301	138300320	11	60738										
S100A10	6281	broad.mit.edu	37	chr1	151955756	151955756	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttgccatctctacactggtcCaggtccttcattattttgtc	6	12	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:151955756C>T	uc001ezl.2	-	3	685	c.177G>A	c.(175-177)CTG>CTA	p.L59L		NM_002966	NP_002957	P60903	S10AA_HUMAN	S100 calcium binding protein A10	59					signal transduction		calcium ion binding|receptor binding				0	Melanoma(130;0.0648)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			TACACTGGTCCAGGTCCTTCA	0.428													45	73	---	---	---	---	PASS	T	151955756	T	T	151955756	2	4	170	1	0	0	0	0	0	0	0	1	13772	581	21	3		3	S100A10	1	151955756	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	41005455	151955756	97294865	12	60739										
FCRL3	115352	broad.mit.edu	37	chr1	157666083	157666083	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	atcagctgccctccggtgggCcggatctctagattcacatt	10	13	3	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:157666083C>A	uc001frb.2	-	7	1171	c.879G>T	c.(877-879)CGG>CGT	p.R293R	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Silent_p.R293R|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Silent_p.R19R|FCRL3_uc001frc.1_Silent_p.R293R	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	293	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					CTCCGGTGGGCCGGATCTCTA	0.522													72	76	---	---	---	---	PASS	A	157666083	A	A	157666083	2	1	170	1	0	0	0	0	0	0	0	1	5796	726	26	3		3	FCRL3	1	157666083	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	5710327	157666083	91584538	13	60740										
SLAMF6	114836	broad.mit.edu	37	chr1	160465888	160465888	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	taactggacagctttgcagaGgtctttgtggatatctgggc	13	7	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:160465888G>T	uc001fwe.1	-	2	405	c.345C>A	c.(343-345)ACC>ACA	p.T115T	SLAMF6_uc001fwd.1_Silent_p.T115T|SLAMF6_uc010pjh.1_Silent_p.T66T|SLAMF6_uc010pji.1_Intron|SLAMF6_uc010pjj.1_Intron|SLAMF6_uc009wtm.1_Silent_p.T66T	NM_052931	NP_443163	Q96DU3	SLAF6_HUMAN	activating NK receptor precursor	115	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	all_cancers(52;1.05e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0923)			GCTTTGCAGAGGTCTTTGTGG	0.428													42	77	---	---	---	---	PASS	T	160465888	T	T	160465888	2	4	170	1	0	0	0	0	0	0	0	1	14368	987	35	3		3	SLAMF6	1	160465888	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	2799805	160465888	88784733	14	60741										
C1orf112	55732	broad.mit.edu	37	chr1	169775194	169775194	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gttatttccagtatggaccaTgcatttcatgccaatacttg	7	9	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:169775194T>C	uc001ggp.2	+	8	838	c.528T>C	c.(526-528)CAT>CAC	p.H176H	C1orf112_uc001ggj.2_RNA|C1orf112_uc001ggq.2_Silent_p.H176H|C1orf112_uc009wvt.2_5'UTR|C1orf112_uc010plu.1_Silent_p.H147H|C1orf112_uc009wvu.1_Silent_p.H147H|C1orf112_uc001ggr.2_Silent_p.H41H|C1orf112_uc010plv.1_Silent_p.H118H	NM_018186	NP_060656	Q9NSG2	CA112_HUMAN	hypothetical protein LOC55732	176											0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GTATGGACCATGCATTTCATG	0.299													4	9	---	---	---	---	PASS	C	169775194	C	C	169775194	2	2	170	1	0	0	0	0	0	0	0	1	1985	1461	51	5		5	C1orf112	1	169775194	Silent	SNP	T	TCGA-66-2793-01A-01D-1267-08	9309306	169775194	79475427	15	60742										
KIFAP3	22920	broad.mit.edu	37	chr1	170024518	170024518	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaatggtagcttccacttcaTagtgaacaatgagtgctttt	9	7	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:170024518T>C	uc001ggv.2	-	2	363	c.92A>G	c.(91-93)TAT>TGT	p.Y31C	KIFAP3_uc010ply.1_5'UTR|KIFAP3_uc001ggw.1_Intron	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	31					blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TTCCACTTCATAGTGAACAAT	0.338													14	18	---	---	---	---	PASS	C	170024518	C	C	170024518	3	2	170	1	0	0	0	0	1	0	0	0	8311	1406	49	5	2362	5	KIFAP3	1	170024518	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	249324	170024518	79226103	16	60743										
FMO2	2327	broad.mit.edu	37	chr1	171154984	171154984	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggaggagtgtggaggttcaaAgtaagtgagattttcttggg	17	2	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:171154984A>T	uc001ghk.1	+	2	249	c.132A>T	c.(130-132)AAA>AAT	p.K44N	FMO2_uc010pmd.1_Intron	NM_001460	NP_001451	Q99518	FMO2_HUMAN	flavin containing monooxygenase 2	44					drug metabolic process|NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|host cell microsome|integral to membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GGAGGTTCAAAGTAAGTGAGA	0.418													9	228	---	---	---	---	PASS	T	171154984	T	T	171154984	3	4	170	1	0	0	0	0	1	0	0	0	5955	86	3	5	134	5	FMO2	1	171154984	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	1130466	171154984	78095637	17	60744										
FMO1	2326	broad.mit.edu	37	chr1	171251339	171251339	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aaagttgaagatggccaggcCtcactgtacaagtatatctt	9	8	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:171251339C>A	uc009wvz.2	+	7	1186	c.1050C>A	c.(1048-1050)GCC>GCA	p.A350A	FMO1_uc010pme.1_Silent_p.A287A|FMO1_uc001ghl.2_Silent_p.A350A|FMO1_uc001ghm.2_Silent_p.A350A|FMO1_uc001ghn.2_Silent_p.A350A	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	350					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					ATGGCCAGGCCTCACTGTACA	0.463													62	59	---	---	---	---	PASS	A	171251339	A	A	171251339	2	1	170	1	0	0	0	0	0	0	0	1	5954	668	24	3		3	FMO1	1	171251339	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	96355	171251339	77999282	18	60745										
ASTN1	460	broad.mit.edu	37	chr1	176838084	176838084	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aaggtgggggaacccagatcCaggagggtgttgtaggcggt	19	6	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:176838084C>A	uc001glc.2	-	22	3755	c.3543G>T	c.(3541-3543)CTG>CTT	p.L1181L	ASTN1_uc001glb.1_Silent_p.L1181L|ASTN1_uc001gld.1_Silent_p.L1181L	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	1189					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						AACCCAGATCCAGGAGGGTGT	0.502													32	38	---	---	---	---	PASS	A	176838084	A	A	176838084	2	1	170	1	0	0	0	0	0	0	0	1	1064	581	21	3		3	ASTN1	1	176838084	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	5586745	176838084	72412537	19	60746										
PRG4	10216	broad.mit.edu	37	chr1	186276446	186276446	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	caccaccaagtctgcacccaCcactaccaaggagcctgcac	6	19	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:186276446C>G	uc001gru.3	+	7	1646	c.1595C>G	c.(1594-1596)ACC>AGC	p.T532S	PRG4_uc001grt.3_Missense_Mutation_p.T491S|PRG4_uc009wyl.2_Missense_Mutation_p.T439S|PRG4_uc009wym.2_Missense_Mutation_p.T398S|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	532	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|24; approximate.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						TCTGCACCCACCACTACCAAG	0.642													73	91	---	---	---	---	PASS	G	186276446	G	G	186276446	3	3	170	1	0	0	0	0	1	0	0	0	12481	507	18	4	1617	4	PRG4	1	186276446	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	9438362	186276446	62974175	20	60747										
CFHR2	3080	broad.mit.edu	37	chr1	196918750	196918750	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcgcataacgtgcgcagaagAaggatggtcaccaacaccaa	10	11	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:196918750A>G	uc001gtq.1	+	2	301	c.224A>G	c.(223-225)GAA>GGA	p.E75G	CFHR2_uc001gtr.1_Intron	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	75	Sushi 1.					extracellular region				skin(2)|ovary(1)	3						TGCGCAGAAGAAGGATGGTCA	0.403													11	14	---	---	---	---	PASS	G	196918750	G	G	196918750	3	3	170	1	0	0	0	0	1	0	0	0	3285	246	9	5	230	5	CFHR2	1	196918750	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	10642304	196918750	52331871	21	60748										
CACNA1S	779	broad.mit.edu	37	chr1	201009495	201009495	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	caggcatggaggactccaccCtggggcactgttccaaaggt	13	12	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:201009495C>A	uc001gvv.2	-	43	5461	c.5234G>T	c.(5233-5235)AGG>ATG	p.R1745M		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1745	Cytoplasmic (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GGACTCCACCCTGGGGCACTG	0.552													15	13	---	---	---	---	PASS	A	201009495	A	A	201009495	3	1	170	1	0	0	0	0	1	0	0	0	2547	681	24	3	395	3	CACNA1S	1	201009495	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	4090745	201009495	48241126	22	60749										
USH2A	7399	broad.mit.edu	37	chr1	215956148	215956148	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gattgtctattttggtccacGtagggggactcactccttga	11	9	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:215956148G>T	uc001hku.1	-	53	10904	c.10517C>A	c.(10516-10518)ACG>AAG	p.T3506K		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3506	Extracellular (Potential).|Fibronectin type-III 20.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTTGGTCCACGTAGGGGGACT	0.408										HNSCC(13;0.011)			16	33	---	---	---	---	PASS	T	215956148	T	T	215956148	3	4	170	1	0	0	0	0	1	0	0	0	17033	1145	40	1	5171	1	USH2A	1	215956148	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	14946653	215956148	33294473	23	60750										
HHIPL2	79802	broad.mit.edu	37	chr1	222713639	222713639	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	accgcttgccatgtgagcctGccctgttcacatcgatcctt	8	15	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:222713639G>C	uc001hnh.1	-	4	1221	c.1163C>G	c.(1162-1164)GCA>GGA	p.A388G		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	388					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		ATGTGAGCCTGCCCTGTTCAC	0.522													14	73	---	---	---	---	PASS	C	222713639	C	C	222713639	3	2	170	1	0	0	0	0	1	0	0	0	7094	1319	46	4	1035	4	HHIPL2	1	222713639	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	6757491	222713639	26536982	24	60751										
MTR	4548	broad.mit.edu	37	chr1	237044071	237044071	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttagaacccacacagcagttAaaatagctccgagatacagt	7	10	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:237044071A>C	uc001hyi.3	+	25	3034	c.2611A>C	c.(2611-2613)AAA>CAA	p.K871Q	MTR_uc010pxw.1_Missense_Mutation_p.K464Q|MTR_uc010pxx.1_Missense_Mutation_p.K820Q|MTR_uc010pxy.1_Missense_Mutation_p.K725Q	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	871	B12-binding.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	CACAGCAGTTAAAATAGCTCC	0.433													14	70	---	---	---	---	PASS	C	237044071	C	C	237044071	3	2	170	1	0	0	0	0	1	0	0	0	9958	363	13	5	2709	5	MTR	1	237044071	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	14330432	237044071	12206550	25	60752										
TRIM58	25893	broad.mit.edu	37	chr1	248028195	248028195	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctgaaggagctggcggatgaGctgcaggagaggtgccagcg	19	8	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr1:248028195G>T	uc001ido.2	+	3	753	c.705G>T	c.(703-705)GAG>GAT	p.E235D		NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	235	Potential.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			TGGCGGATGAGCTGCAGGAGA	0.662													7	1	---	---	---	---	PASS	T	248028195	T	T	248028195	3	4	170	1	0	0	0	0	1	0	0	0	16528	962	34	3	715	3	TRIM58	1	248028195	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	10984124	248028195	1222426	26	60753										
OTOF	9381	broad.mit.edu	37	chr2	26695482	26695482	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggagtgagaggaggagccccCattgcacagcacacggcagc	15	12	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:26695482C>A	uc002rhk.2	-	30	3896	c.3769G>T	c.(3769-3771)GGG>TGG	p.G1257W	OTOF_uc010yla.1_5'UTR|OTOF_uc002rhh.2_Intron|OTOF_uc002rhi.2_Missense_Mutation_p.G567W|OTOF_uc002rhj.2_Intron	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1257	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAGGAGCCCCCATTGCACAGC	0.577													43	32	---	---	---	---	PASS	A	26695482	A	A	26695482	3	1	170	1	0	0	0	0	1	0	0	0	11303	594	21	3	2477	3	OTOF	2	26695482	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08		26695482	216503891	27	60754										
KHK	3795	broad.mit.edu	37	chr2	27322328	27322328	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gggctgaggagggcgccgacGccctgggccctgatggcaaa	18	12	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:27322328G>T	uc002ril.2	+	7	1211	c.694G>T	c.(694-696)GCC>TCC	p.A232S	KHK_uc002rim.2_Missense_Mutation_p.A232S|KHK_uc002rin.2_Missense_Mutation_p.A233S|KHK_uc002rio.2_Missense_Mutation_p.A148S|CGREF1_uc010ylf.1_3'UTR|CGREF1_uc002rip.1_3'UTR	NM_000221	NP_000212	P50053	KHK_HUMAN	ketohexokinase isoform a	232					fructose catabolic process	cytosol	ATP binding|ketohexokinase activity|protein binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGGCGCCGACGCCCTGGGCCC	0.652													31	124	---	---	---	---	PASS	T	27322328	T	T	27322328	3	4	170	1	0	0	0	0	1	0	0	0	8149	1087	38	1	859	1	KHK	2	27322328	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	626846	27322328	215877045	28	60755										
C2orf16	84226	broad.mit.edu	37	chr2	27802639	27802639	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttctgagtcccaacactcccTcaagccaaattatctttccc	3	16	3	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:27802639T>A	uc002rkz.3	+	1	3251	c.3200T>A	c.(3199-3201)CTC>CAC	p.L1067H		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1067										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					CAACACTCCCTCAAGCCAAAT	0.428													79	75	---	---	---	---	PASS	A	27802639	A	A	27802639	3	1	170	1	0	0	0	0	1	0	0	0	2157	1551	54	5	3202	5	C2orf16	2	27802639	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	480311	27802639	215396734	29	60756										
CCDC121	79635	broad.mit.edu	37	chr2	27850557	27850557	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcaggtattccagaaagaatCtgttttcagcctggacaagt	9	8	3	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:27850557C>G	uc002rle.2	-	2	291	c.110G>C	c.(109-111)AGA>ACA	p.R37T	ZNF512_uc010yly.1_Intron|CCDC121_uc010eze.2_Missense_Mutation_p.R201T|CCDC121_uc002rld.2_Missense_Mutation_p.R199T|GPN1_uc010ezf.2_5'Flank|GPN1_uc010yma.1_5'Flank|GPN1_uc010ymb.1_5'Flank|GPN1_uc010ymc.1_5'Flank|GPN1_uc010ymd.1_5'Flank|GPN1_uc010yme.1_5'Flank|GPN1_uc010ezg.1_5'Flank	NM_024584	NP_078860	Q6ZUS5	CC121_HUMAN	coiled-coil domain containing 121 isoform 3	37											0	Acute lymphoblastic leukemia(172;0.155)					CAGAAAGAATCTGTTTTCAGC	0.423													139	139	---	---	---	---	PASS	G	27850557	G	G	27850557	3	3	170	1	0	0	0	0	1	0	0	0	2757	913	32	2	730	2	CCDC121	2	27850557	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	47918	27850557	215348816	30	60757										
CDC42EP3	10602	broad.mit.edu	37	chr2	37873049	37873049	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagggagaggagggaacctgTaaggtcagagagggactcct	17	7	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:37873049T>A	uc002rqi.1	-	2	1675	c.682A>T	c.(682-684)ACA>TCA	p.T228S		NM_006449	NP_006440	Q9UKI2	BORG2_HUMAN	Cdc42 effector protein 3	228					regulation of cell shape|signal transduction	actin cytoskeleton|cytoplasm|endomembrane system|membrane	cytoskeletal regulatory protein binding				0		all_hematologic(82;0.172)				AGGGAACCTGTAAGGTCAGAG	0.498													47	75	---	---	---	---	PASS	A	37873049	A	A	37873049	3	1	170	1	0	0	0	0	1	0	0	0	3077	1638	57	5	86	5	CDC42EP3	2	37873049	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	10022492	37873049	205326324	31	60758										
NRXN1	9378	broad.mit.edu	37	chr2	50464025	50464025	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aaaacctatggccagtctgtCtgctcgtgtactgggtcggt	12	10	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:50464025C>A	uc010fbp.2	-	2	1150	c.343G>T	c.(343-345)GAC>TAC	p.D115Y	NRXN1_uc002rxb.3_Missense_Mutation_p.D822Y|NRXN1_uc010fbq.2_Missense_Mutation_p.D1190Y|NRXN1_uc002rxe.3_Missense_Mutation_p.D1150Y|NRXN1_uc002rxc.1_RNA	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	115	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GCCAGTCTGTCTGCTCGTGTA	0.468													26	58	---	---	---	---	PASS	A	50464025	A	A	50464025	3	1	170	1	0	0	0	0	1	0	0	0	10665	913	32	2	1099	2	NRXN1	2	50464025	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	12590976	50464025	192735348	32	60759										
SPTBN1	6711	broad.mit.edu	37	chr2	54856704	54856704	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaacaagccagcgccctcccCcaggagcatgccgagtctcc	10	18	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:54856704C>G	uc002rxu.2	+	14	2682	c.2433C>G	c.(2431-2433)CCC>CCG	p.P811P	SPTBN1_uc002rxv.1_Silent_p.P811P|SPTBN1_uc002rxx.2_Silent_p.P798P	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	811	Spectrin 5.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			GCGCCCTCCCCCAGGAGCATG	0.627													24	179	---	---	---	---	PASS	G	54856704	G	G	54856704	2	3	170	1	0	0	0	0	0	0	0	1	15118	610	22	4		4	SPTBN1	2	54856704	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	4392679	54856704	188342669	33	60760										
COMMD1	150684	broad.mit.edu	37	chr2	62228006	62228006	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aaccagagccgctggaatagCgggcttcggggcctgagctg	16	11	0	2	rs150966526		TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:62228006C>T	uc002sbp.2	+	2	362	c.351C>T	c.(349-351)AGC>AGT	p.S117S	COMMD1_uc002sbq.1_RNA	NM_152516	NP_689729	Q8N668	COMD1_HUMAN	MURR1	117					copper ion homeostasis|negative regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|regulation of proteasomal ubiquitin-dependent protein catabolic process	cell junction|Cul2-RING ubiquitin ligase complex|cytoplasm|nucleolus	copper ion binding|protein homodimerization activity			ovary(1)	1	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;4.73e-07)|Epithelial(17;0.0216)|all cancers(80;0.0934)			GCTGGAATAGCGGGCTTCGGG	0.507													4	128	---	---	---	---	PASS	T	62228006	T	T	62228006	2	4	170	1	0	0	0	0	0	0	0	1	3714	767	27	1		1	COMMD1	2	62228006	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	7371302	62228006	180971367	34	60761										
TET3	200424	broad.mit.edu	37	chr2	74328283	74328283	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aacggtgtgggtggcagctgGggtgtgttctcgtctgggga	20	6	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:74328283G>C	uc002skb.3	+	9	3963	c.3963G>C	c.(3961-3963)TGG>TGC	p.W1321C		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	1321							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GTGGCAGCTGGGGTGTGTTCT	0.607													14	76	---	---	---	---	PASS	C	74328283	C	C	74328283	3	2	170	1	0	0	0	0	1	0	0	0	15768	1241	43	4	3997	4	TET3	2	74328283	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	12100277	74328283	168871090	35	60762										
RTKN	6242	broad.mit.edu	37	chr2	74659630	74659630	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccagcacctgcgcctccttgCgccgctgcagctcgcccatg	10	20	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:74659630C>A	uc002sle.2	-	2	392	c.275G>T	c.(274-276)CGC>CTC	p.R92L	RTKN_uc002slc.2_Missense_Mutation_p.R79L|RTKN_uc002sld.2_Missense_Mutation_p.R42L|RTKN_uc010ffe.1_Missense_Mutation_p.R92L|RTKN_uc010fff.1_Missense_Mutation_p.R79L|RTKN_uc010ffg.1_Missense_Mutation_p.R92L	NM_001015055	NP_001015055	Q9BST9	RTKN_HUMAN	rhotekin isoform a	92	REM.				apoptosis|regulation of anti-apoptosis|Rho protein signal transduction	intracellular	GTP binding|GTP-Rho binding|GTPase inhibitor activity			skin(1)	1						CGCCTCCTTGCGCCGCTGCAG	0.672													234	163	---	---	---	---	PASS	A	74659630	A	A	74659630	3	1	170	1	0	0	0	0	1	0	0	0	13722	768	27	1	1460	1	RTKN	2	74659630	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	331347	74659630	168539743	36	60763										
ACOXL	55289	broad.mit.edu	37	chr2	111551742	111551742	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	accgaagccacctttgacctCtctgcccaggtgaggaatcc	9	15	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:111551742C>G	uc002tgr.3	+	5	560	c.336C>G	c.(334-336)CTC>CTG	p.L112L	ACOXL_uc010fkc.2_Silent_p.L112L|ACOXL_uc010yxk.1_Silent_p.L112L	NM_001105516	NP_001098986	Q9NUZ1	ACOXL_HUMAN	acyl-Coenzyme A oxidase-like 2	112					fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0						CCTTTGACCTCTCTGCCCAGG	0.552													23	48	---	---	---	---	PASS	G	111551742	G	G	111551742	2	3	170	1	0	0	0	0	0	0	0	1	161	900	32	2		2	ACOXL	2	111551742	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	36892112	111551742	131647631	37	60764										
EN1	2019	broad.mit.edu	37	chr2	119604502	119604502	+	Frame_Shift_Del	DEL	G	-	-													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccgcgagatgctgaggcggcGggggcggggggtgtgggggg							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:119604502delG	uc002tlm.2	-	1	1258	c.242delC	c.(241-243)CCGfs	p.P81fs		NM_001426	NP_001417	Q05925	HME1_HUMAN	engrailed homeobox 1	81					skeletal system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|lung(1)	2						CTGAggcggcgggggcggggg	0.363													12	23	---	---	---	---		-	119604502	-	-	119604502	7	5	170	1	0	1	0	1	0	0	0	0	5109	1116	39	0	944	0	EN1	2	119604502	Frame_Shift_Del	DEL	G	TCGA-66-2793-01A-01D-1267-08	8052760	119604502	123594871	38	60765										
EPB41L5	57669	broad.mit.edu	37	chr2	120889260	120889260	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagtcctttgctgtcccctcGatccaacatcgatgttaaca	6	14	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:120889260G>T	uc002tmg.2	+	18	1694	c.1568G>T	c.(1567-1569)CGA>CTA	p.R523L	EPB41L5_uc010fll.2_Missense_Mutation_p.R523L|EPB41L5_uc010flm.2_Missense_Mutation_p.R327L	NM_020909	NP_065960	Q9HCM4	E41L5_HUMAN	erythrocyte membrane protein band 4.1 like 5	523						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1						CTGTCCCCTCGATCCAACATC	0.408													20	19	---	---	---	---	PASS	T	120889260	T	T	120889260	3	4	170	1	0	0	0	0	1	0	0	0	5157	1058	37	2	1819	2	EPB41L5	2	120889260	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	1284758	120889260	122310113	39	60766										
CNTNAP5	129684	broad.mit.edu	37	chr2	125261961	125261961	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttgctgctgcccggcaccccCcaaattgatgggctctcagt	10	15	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:125261961C>A	uc002tno.2	+	8	1516	c.1152C>A	c.(1150-1152)CCC>CCA	p.P384P	CNTNAP5_uc010flu.2_Silent_p.P385P	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	384	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		CCGGCACCCCCCAAATTGATG	0.537													35	26	---	---	---	---	PASS	A	125261961	A	A	125261961	2	1	170	1	0	0	0	0	0	0	0	1	3650	610	22	3		3	CNTNAP5	2	125261961	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	4372701	125261961	117937412	40	60767										
GYPC	2995	broad.mit.edu	37	chr2	127451481	127451481	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gatggccggatggcagaatgGagacctccacccccaccata	11	14	0	2	rs114199197	by1000genomes	TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:127451481G>C	uc002tnq.2	+	3	304	c.148G>C	c.(148-150)GAG>CAG	p.E50Q	GYPC_uc002tnr.2_Missense_Mutation_p.E31Q|GYPC_uc010flv.2_RNA	NM_002101	NP_002092	P04921	GLPC_HUMAN	glycophorin C isoform 1	50	Extracellular.					cortical cytoskeleton|integral to plasma membrane	protein binding			central_nervous_system(1)	1	Colorectal(110;0.0533)			BRCA - Breast invasive adenocarcinoma(221;0.075)		TGGCAGAATGGAGACCTCCAC	0.547													17	62	---	---	---	---	PASS	C	127451481	C	C	127451481	3	2	170	1	0	0	0	0	1	0	0	0	6910	1175	41	2	158	2	GYPC	2	127451481	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	2189520	127451481	115747892	41	60768										
IWS1	55677	broad.mit.edu	37	chr2	128281368	128281368	+	Splice_Site	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tggggtagcaccaccatcatCtgattaaaaacaaaacaaaa	6	9	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:128281368C>G	uc002ton.2	-	2	338	c.35_splice	c.e2-1	p.D12_splice	IWS1_uc010yzl.1_Splice_Site|IWS1_uc010fma.2_Intron	NM_017969	NP_060439	Q96ST2	IWS1_HUMAN	IWS1 homolog						transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0735)		CCACCATCATCTGATTAAAAA	0.408													7	149	---	---	---	---	PASS	G	128281368	G	G	128281368	5	3	170	1	0	0	0	0	0	0	1	0	7931	927	32	2	2477	2	IWS1	2	128281368	Splice_Site	SNP	C	TCGA-66-2793-01A-01D-1267-08	829887	128281368	114918005	42	60769										
CXCR4	7852	broad.mit.edu	37	chr2	136873055	136873055	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccttttcagccaacagcttcCttggcctctgactgttggtg	9	13	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:136873055C>T	uc002tuz.2	-	2	538	c.443G>A	c.(442-444)AGG>AAG	p.R148K	CXCR4_uc002tuy.2_Missense_Mutation_p.R152K|CXCR4_uc010fnk.2_Missense_Mutation_p.R133K	NM_003467	NP_003458	P61073	CXCR4_HUMAN	chemokine (C-X-C motif) receptor 4 isoform b	148	Cytoplasmic.				activation of MAPK activity|apoptosis|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|inflammatory response|initiation of viral infection|regulation of chemotaxis|response to hypoxia|response to virus	cell leading edge|cell surface|cytoplasmic membrane-bounded vesicle|integral to membrane|plasma membrane	actin binding|C-X-C chemokine receptor activity|coreceptor activity|myosin light chain binding|ubiquitin binding|ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.155)	Framycetin(DB00452)	CAACAGCTTCCTTGGCCTCTG	0.547													41	141	---	---	---	---	PASS	T	136873055	T	T	136873055	3	4	170	1	0	0	0	0	1	0	0	0	4093	681	24	3	619	3	CXCR4	2	136873055	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	8591687	136873055	106326318	43	60770										
SPOPL	339745	broad.mit.edu	37	chr2	139316613	139316613	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgagtgtggtccaagattcaGtaaacatatcaggacatact	9	7	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:139316613G>A	uc002tvh.2	+	6	902	c.502G>A	c.(502-504)GTA>ATA	p.V168I		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	168						nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		CCAAGATTCAGTAAACATATC	0.338													12	31	---	---	---	---	PASS	A	139316613	A	A	139316613	3	1	170	1	0	0	0	0	1	0	0	0	15084	1029	36	3	520	3	SPOPL	2	139316613	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	2443558	139316613	103882760	44	60771										
LRP1B	53353	broad.mit.edu	37	chr2	140990873	140990873	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccatatataattttgcatatAccggattggagtaatttgtt	7	5	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:140990873A>T	uc002tvj.1	-	91	14654	c.13682T>A	c.(13681-13683)GTA>GAA	p.V4561E		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4561	Endocytosis signal (Potential).|Cytoplasmic (Potential).				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)		TTTTGCATATACCGGATTGGA	0.323										TSP Lung(27;0.18)			9	11	---	---	---	---	PASS	T	140990873	T	T	140990873	3	4	170	1	0	0	0	0	1	0	0	0	8955	391	14	5	121	5	LRP1B	2	140990873	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	1674260	140990873	102208500	45	60772										
NEB	4703	broad.mit.edu	37	chr2	152373009	152373009	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgagactctttggcagtgatGtacgttggtgtttcaaagtc	12	6	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:152373009G>A	uc010fnx.2	-	129	17957	c.17766C>T	c.(17764-17766)TAC>TAT	p.Y5922Y	NEB_uc002txr.2_Silent_p.Y2345Y|NEB_uc002txt.3_Silent_p.Y427Y	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	5922	Nebulin 162.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGGCAGTGATGTACGTTGGTG	0.433													12	23	---	---	---	---	PASS	A	152373009	A	A	152373009	2	1	170	1	0	0	0	0	0	0	0	1	10302	1372	48	3		3	NEB	2	152373009	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	11382136	152373009	90826364	46	60773										
BAZ2B	29994	broad.mit.edu	37	chr2	160289371	160289371	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcttcagaatctttactactGggaatgtctgaatctgttcc	7	9	5	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:160289371G>C	uc002uao.2	-	9	2149	c.1797C>G	c.(1795-1797)CCC>CCG	p.P599P	BAZ2B_uc002uap.2_Silent_p.P597P|BAZ2B_uc002uas.1_Silent_p.P536P|BAZ2B_uc002uaq.1_Silent_p.P527P|BAZ2B_uc002uar.1_Silent_p.P172P	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	599	Asp/Glu-rich (acidic).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CTTTACTACTGGGAATGTCTG	0.269													19	29	---	---	---	---	PASS	C	160289371	C	C	160289371	2	2	170	1	0	0	0	0	0	0	0	1	1332	1335	47	4		4	BAZ2B	2	160289371	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	7916362	160289371	82910002	47	60774										
GRB14	2888	broad.mit.edu	37	chr2	165378553	165378553	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agaaaaaagtaaatttttttCcaagacttctttccctgttc	4	8	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:165378553C>T	uc002ucl.2	-	6	1294	c.753G>A	c.(751-753)TGG>TGA	p.W251*	GRB14_uc010zcv.1_Nonsense_Mutation_p.W164*|GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	251	PH.				blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						AAATTTTTTTCCAAGACTTCT	0.294													7	4	---	---	---	---	PASS	T	165378553	T	T	165378553	4	4	170	1	0	0	0	0	0	1	0	0	6757	856	30	2	905	2	GRB14	2	165378553	Nonsense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	5089182	165378553	77820820	48	60775										
SCN9A	6335	broad.mit.edu	37	chr2	167133841	167133841	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	caggattttgccaacttgaaGactcggagctaaaagcaaat	9	8	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:167133841G>T	uc010fpl.2	-	16	2834	c.2493C>A	c.(2491-2493)GTC>GTA	p.V831V	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	842	II.|Helical; Voltage-sensor; Name=S4 of repeat II; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	CCAACTTGAAGACTCGGAGCT	0.368													12	32	---	---	---	---	PASS	T	167133841	T	T	167133841	2	4	170	1	0	0	0	0	0	0	0	1	13925	929	33	2		2	SCN9A	2	167133841	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	1755288	167133841	76065532	49	60776										
HOXD12	3238	broad.mit.edu	37	chr2	176964762	176964762	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cttctcgcagccctacctggCtggctccgggcctctcggcc	11	19	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:176964762C>T	uc010zev.1	+	1	233	c.233C>T	c.(232-234)GCT>GTT	p.A78V	HOXD12_uc010zew.1_Missense_Mutation_p.A78V	NM_021193	NP_067016	P35452	HXD12_HUMAN	homeobox D12	78						nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0521)|READ - Rectum adenocarcinoma(9;0.0678)		CCCTACCTGGCTGGCTCCGGG	0.751													4	1	---	---	---	---	PASS	T	176964762	T	T	176964762	3	4	170	1	0	0	0	0	1	0	0	0	7321	797	28	3	235	3	HOXD12	2	176964762	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	9830921	176964762	66234611	50	60777										
PDE11A	50940	broad.mit.edu	37	chr2	178879150	178879150	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ataatgattttgtcttgtatCcagttagcttgtcgatttca	7	6	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:178879150C>G	uc002ulq.2	-	2	1268	c.950G>C	c.(949-951)GGA>GCA	p.G317A	PDE11A_uc002ulr.2_Missense_Mutation_p.G67A|PDE11A_uc002ult.1_Missense_Mutation_p.G67A	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	317	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TGTCTTGTATCCAGTTAGCTT	0.408									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				20	9	---	---	---	---	PASS	G	178879150	G	G	178879150	3	3	170	1	0	0	0	0	1	0	0	0	11631	855	30	2	1927	2	PDE11A	2	178879150	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	1914388	178879150	64320223	51	60778										
PLEKHA3	65977	broad.mit.edu	37	chr2	179365792	179365792	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tttacttaatttgcaggagtAgccactctataaaagaacca	6	8	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:179365792A>T	uc002umn.2	+	7	1062	c.664A>T	c.(664-666)AGC>TGC	p.S222C		NM_019091	NP_061964	Q9HB20	PKHA3_HUMAN	pleckstrin homology domain containing, family A	222						cytoplasm|membrane				ovary(1)|kidney(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.0266)|all cancers(119;0.0865)			TTGCAGGAGTAGCCACTCTAT	0.363													14	27	---	---	---	---	PASS	T	179365792	T	T	179365792	3	4	170	1	0	0	0	0	1	0	0	0	12057	420	15	5	690	5	PLEKHA3	2	179365792	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	486642	179365792	63833581	52	60779										
TTN	7273	broad.mit.edu	37	chr2	179594842	179594842	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tttacaaagagagtggctttGctggttgctgtgccaacatc	11	8	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:179594842G>T	uc010zfg.1	-	59	14777	c.14553C>A	c.(14551-14553)AGC>AGA	p.S4851R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S1512R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5778							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)			GAGTGGCTTTGCTGGTTGCTG	0.502													6	20	---	---	---	---	PASS	T	179594842	T	T	179594842	3	4	170	1	0	0	0	0	1	0	0	0	16732	1310	46	3	86448	3	TTN	2	179594842	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	229050	179594842	63604531	53	60780										
AOX1	316	broad.mit.edu	37	chr2	201531423	201531423	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	atactagaacatcagaacagAcattgtcatggatgttggct	9	7	2	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:201531423A>G	uc002uvx.2	+	32	3658	c.3557A>G	c.(3556-3558)GAC>GGC	p.D1186G	AOX1_uc010zhf.1_Missense_Mutation_p.D742G|AOX1_uc010fsu.2_Missense_Mutation_p.D552G	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	1186					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	ATCAGAACAGACATTGTCATG	0.373													9	29	---	---	---	---	PASS	G	201531423	G	G	201531423	3	3	170	1	0	0	0	0	1	0	0	0	729	275	10	5	3683	5	AOX1	2	201531423	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	21936581	201531423	41667950	54	60781										
TTLL4	9654	broad.mit.edu	37	chr2	219603360	219603360	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagagccactttcctgtgctCtggatgacagctctgattcc	9	13	2	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:219603360C>G	uc002viy.2	+	3	1331	c.961C>G	c.(961-963)CTG>GTG	p.L321V	TTLL4_uc010zkl.1_Missense_Mutation_p.L156V|TTLL4_uc010fvx.2_Missense_Mutation_p.L321V	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	321					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)		TTCCTGTGCTCTGGATGACAG	0.532													3	175	---	---	---	---	PASS	G	219603360	G	G	219603360	3	3	170	1	0	0	0	0	1	0	0	0	16726	912	32	2	963	2	TTLL4	2	219603360	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	18071937	219603360	23596013	55	60782										
INHA	3623	broad.mit.edu	37	chr2	220439984	220439984	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gagctgggctgggaacggtgGatcgtgtaccctcccagttt	15	10	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:220439984G>T	uc002vmk.1	+	2	981	c.837G>T	c.(835-837)TGG>TGT	p.W279C		NM_002191	NP_002182	P05111	INHA_HUMAN	inhibin alpha subunit precursor	279					cell cycle arrest|cell surface receptor linked signaling pathway|cell-cell signaling|erythrocyte differentiation|hemoglobin biosynthetic process|induction of apoptosis|negative regulation of B cell differentiation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|regulation of cell proliferation|response to external stimulus|skeletal system development	inhibin A complex|inhibin-betaglycan-ActRII complex	cytokine activity|growth factor activity|hormone activity|signal transducer activity			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;4.58e-07)|all cancers(144;4.31e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		GGGAACGGTGGATCGTGTACC	0.607													72	59	---	---	---	---	PASS	T	220439984	T	T	220439984	3	4	170	1	0	0	0	0	1	0	0	0	7740	1183	41	2	843	2	INHA	2	220439984	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	836624	220439984	22759389	56	60783										
GPC1	2817	broad.mit.edu	37	chr2	241398478	241398478	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cggatctgtccccagggctaCacctgctgcaccagcgagat	11	15	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr2:241398478C>A	uc002vyw.3	+	2	419	c.198C>A	c.(196-198)TAC>TAA	p.Y66*	PP14571_uc002vyy.1_5'Flank	NM_002081	NP_002072	P35052	GPC1_HUMAN	glypican 1 precursor	66					axon guidance	anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			breast(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;4.51e-33)|all cancers(36;1.74e-30)|OV - Ovarian serous cystadenocarcinoma(60;4.73e-15)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;9.1e-06)|Colorectal(34;0.000487)|Lung(119;0.0013)|LUSC - Lung squamous cell carcinoma(224;0.0154)|COAD - Colon adenocarcinoma(134;0.0194)|READ - Rectum adenocarcinoma(96;0.0949)		CCCAGGGCTACACCTGCTGCA	0.682													3	40	---	---	---	---	PASS	A	241398478	A	A	241398478	4	1	170	1	0	0	0	0	0	1	0	0	6597	489	17	3	204	3	GPC1	2	241398478	Nonsense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	20958494	241398478	1800895	57	60784										
BRPF1	7862	broad.mit.edu	37	chr3	9781412	9781412	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agtgtccgcaagacagcctaCtgcgacatccacacgcctcc	8	17	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:9781412C>T	uc003bse.2	+	3	1728	c.1329C>T	c.(1327-1329)TAC>TAT	p.Y443Y	BRPF1_uc003bsf.2_Silent_p.Y443Y|BRPF1_uc003bsg.2_Silent_p.Y443Y|BRPF1_uc011ati.1_Silent_p.Y443Y	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	443					histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					AGACAGCCTACTGCGACATCC	0.502													12	7	---	---	---	---	PASS	T	9781412	T	T	9781412	2	4	170	1	0	0	0	0	0	0	0	1	1520	576	20	3		3	BRPF1	3	9781412	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08		9781412	188241018	58	60785										
ATP2B2	491	broad.mit.edu	37	chr3	10417275	10417275	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cttgttgaccacgaaggtgtCcacagtgaagtagagcacca	11	10	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:10417275C>T	uc003bvt.2	-	11	1694	c.1255G>A	c.(1255-1257)GAC>AAC	p.D419N	ATP2B2_uc003bvv.2_Missense_Mutation_p.D374N|ATP2B2_uc003bvw.2_Missense_Mutation_p.D374N|ATP2B2_uc010hdo.2_Missense_Mutation_p.D124N	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	419	Extracellular (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						ACGAAGGTGTCCACAGTGAAG	0.557													46	8	---	---	---	---	PASS	T	10417275	T	T	10417275	3	4	170	1	0	0	0	0	1	0	0	0	1140	855	30	2	2528	2	ATP2B2	3	10417275	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	635863	10417275	187605155	59	60786										
XPC	7508	broad.mit.edu	37	chr3	14200326	14200326	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tttggtgtggttttctagaaCttggctggaagtttctgagg	14	4	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:14200326C>A	uc011ave.1	-	9	1161	c.1057G>T	c.(1057-1059)GTT>TTT	p.V353F	XPC_uc011avf.1_Missense_Mutation_p.V160F|XPC_uc011avg.1_Missense_Mutation_p.V316F	NM_004628	NP_004619	Q01831	XPC_HUMAN	xeroderma pigmentosum, complementation group C	353					nucleotide-excision repair, DNA damage recognition|nucleotide-excision repair, DNA damage removal	cytoplasm|nucleoplasm|XPC complex	bubble DNA binding|damaged DNA binding|loop DNA binding|protein binding|single-stranded DNA binding			ovary(2)|breast(1)	3						TTTTCTAGAACTTGGCTGGAA	0.443			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		NER	Xeroderma_Pigmentosum				49	12	---	---	---	---	PASS	A	14200326	A	A	14200326	3	1	170	1	0	0	0	0	1	0	0	0	17438	565	20	3		3	XPC	3	14200326	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	3783051	14200326	183822104	60	60787										
DLEC1	9940	broad.mit.edu	37	chr3	38081085	38081085	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttgatcaaggcccgcggcagCgagaatgagcgccacgagga	15	11	1	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:38081085C>T	uc003cho.1	+	1	390	c.369C>T	c.(367-369)AGC>AGT	p.S123S	DLEC1_uc003chp.1_Silent_p.S123S|DLEC1_uc010hgv.1_Silent_p.S123S	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	123					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		CCCGCGGCAGCGAGAATGAGC	0.642													8	115	---	---	---	---	PASS	T	38081085	T	T	38081085	2	4	170	1	0	0	0	0	0	0	0	1	4552	767	27	1		1	DLEC1	3	38081085	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	23880759	38081085	159941345	61	60788										
SLC22A13	9390	broad.mit.edu	37	chr3	38307523	38307523	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagtggcttgggtgaagaacCacactttcaacctgagtgct	11	10	1	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:38307523C>T	uc003chz.3	+	1	226	c.172C>T	c.(172-174)CAC>TAC	p.H58Y	SLC22A13_uc011aym.1_RNA|SLC22A13_uc011ayn.1_Missense_Mutation_p.H58Y	NM_004256	NP_004247	Q9Y226	S22AD_HUMAN	solute carrier family 22 (organic anion	58	Extracellular (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0533)|Kidney(284;0.067)		GGTGAAGAACCACACTTTCAA	0.572													40	14	---	---	---	---	PASS	T	38307523	T	T	38307523	3	4	170	1	0	0	0	0	1	0	0	0	14444	594	21	3	174	3	SLC22A13	3	38307523	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	226438	38307523	159714907	62	60789										
TTC21A	199223	broad.mit.edu	37	chr3	39159565	39159565	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctcttcttccttcagaatccTagaaaaagatgagagcaata	6	9	3	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:39159565T>C	uc003cjc.2	+	7	899	c.722T>C	c.(721-723)CTA>CCA	p.L241P	TTC21A_uc003cja.2_Missense_Mutation_p.L241P|TTC21A_uc010hho.1_Missense_Mutation_p.L163P|TTC21A_uc003cjb.2_Silent_p.P107P|TTC21A_uc003cje.2_Missense_Mutation_p.L241P|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Missense_Mutation_p.L200P	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	241	TPR 5.						binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		TTCAGAATCCTAGAAAAAGAT	0.348													3	79	---	---	---	---	PASS	C	39159565	C	C	39159565	3	2	170	1	0	0	0	0	1	0	0	0	16684	1522	53	5	748	5	TTC21A	3	39159565	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	852042	39159565	158862865	63	60790										
CCK	885	broad.mit.edu	37	chr3	42299721	42299721	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gatggacattcgtccagaagGagctacaaggagcagggagg	16	7	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:42299721G>T	uc003clc.1	-	3	426	c.217C>A	c.(217-219)CCT>ACT	p.P73T	CCK_uc003cld.1_Missense_Mutation_p.P73T	NM_000729	NP_000720	P06307	CCKN_HUMAN	cholecystokinin preproprotein	73					axonogenesis|eating behavior|neuron migration		neuropeptide hormone activity			central_nervous_system(1)	1		Ovarian(412;0.0728)		KIRC - Kidney renal clear cell carcinoma(284;0.219)		CGTCCAGAAGGAGCTACAAGG	0.438													37	8	---	---	---	---	PASS	T	42299721	T	T	42299721	3	4	170	1	0	0	0	0	1	0	0	0	2879	1174	41	2	134	2	CCK	3	42299721	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	3140156	42299721	155722709	64	60791										
KIF15	56992	broad.mit.edu	37	chr3	44816805	44816805	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcctcctgcagaaagatctgGgtcagctgatggagagcaga	13	9	2	5			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:44816805G>C	uc003cnx.3	+	3	271	c.122G>C	c.(121-123)GGG>GCG	p.G41A	KIF15_uc010hiq.2_5'UTR	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	41	Kinesin-motor.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		GAAAGATCTGGGTCAGCTGAT	0.443													7	119	---	---	---	---	PASS	C	44816805	C	C	44816805	3	2	170	1	0	0	0	0	1	0	0	0	8277	1232	43	4	132	4	KIF15	3	44816805	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	2517084	44816805	153205625	65	60792										
WDR6	11180	broad.mit.edu	37	chr3	49051126	49051126	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	taccctggggcctgaatatgGagtgcccagcttcatgcagc	12	12	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:49051126G>C	uc003cvj.2	+	2	2387	c.2249G>C	c.(2248-2250)GGA>GCA	p.G750A	WDR6_uc011bbx.1_3'UTR|WDR6_uc011bby.1_Missense_Mutation_p.G198A|WDR6_uc010hkn.2_Missense_Mutation_p.G694A|WDR6_uc011bbz.1_Missense_Mutation_p.G669A	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	720					cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		CCTGAATATGGAGTGCCCAGC	0.577											OREG0015565	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	6	---	---	---	---	PASS	C	49051126	C	C	49051126	3	2	170	1	0	0	0	0	1	0	0	0	17307	1174	41	2	2255	2	WDR6	3	49051126	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	4234321	49051126	148971304	66	60793										
GPR128	84873	broad.mit.edu	37	chr3	100364825	100364825	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cggctttgtagtttatcaaaAtgacaagcttttccaatcaa	6	8	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:100364825A>T	uc003duc.2	+	9	1251	c.983A>T	c.(982-984)AAT>ATT	p.N328I	GPR128_uc011bhc.1_Missense_Mutation_p.N29I	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	328	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						GTTTATCAAAATGACAAGCTT	0.313													11	53	---	---	---	---	PASS	T	100364825	T	T	100364825	3	4	170	1	0	0	0	0	1	0	0	0	6641	101	4	5	1017	5	GPR128	3	100364825	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	51313699	100364825	97657605	67	60794										
CASR	846	broad.mit.edu	37	chr3	122003505	122003505	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cccgcaagcggtccagcagcCttggaggctccacgggatcc	13	16	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:122003505C>G	uc003eev.3	+	7	3076	c.2704C>G	c.(2704-2706)CTT>GTT	p.L902V	CASR_uc003eew.3_Missense_Mutation_p.L912V	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	902	Cytoplasmic (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	GTCCAGCAGCCTTGGAGGCTC	0.662													18	71	---	---	---	---	PASS	G	122003505	G	G	122003505	3	3	170	1	0	0	0	0	1	0	0	0	2682	681	24	4	2756	4	CASR	3	122003505	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	21638680	122003505	76018925	68	60795										
NUDT16	131870	broad.mit.edu	37	chr3	131101028	131101028	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccgctttccgcgtggagcgcActgactaccgcagctcccac	10	18	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:131101028A>C	uc003eof.2	+	2	219	c.178A>C	c.(178-180)ACT>CCT	p.T60P	uc003eoc.1_5'Flank|NUDT16_uc011bln.1_Missense_Mutation_p.T47P|NUDT16_uc003eog.1_Missense_Mutation_p.T60P	NM_152395	NP_689608	Q96DE0	NUD16_HUMAN	nudix-type motif 16	93	Nudix hydrolase.					nucleolus|nucleoplasm	hydrolase activity|metal ion binding|RNA binding				0						CGTGGAGCGCACTGACTACCG	0.672													13	63	---	---	---	---	PASS	C	131101028	C	C	131101028	3	2	170	1	0	0	0	0	1	0	0	0	10732	159	6	5	283	5	NUDT16	3	131101028	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	9097523	131101028	66921402	69	60796										
NMNAT3	349565	broad.mit.edu	37	chr3	139279867	139279867	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cctccctagcttgtcttgccCtcagtgctctgggtgctttt	9	14	3	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:139279867C>G	uc003etj.2	-	4	784	c.744G>C	c.(742-744)GAG>GAC	p.E248D	NMNAT3_uc003etk.2_Missense_Mutation_p.E211D|NMNAT3_uc003etl.2_RNA|NMNAT3_uc010hul.2_Missense_Mutation_p.E159D	NM_178177	NP_835471	Q96T66	NMNA3_HUMAN	nicotinamide mononucleotide adenylyltransferase	248					water-soluble vitamin metabolic process	cytosol|mitochondrion	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity				0						TTGTCTTGCCCTCAGTGCTCT	0.527													90	115	---	---	---	---	PASS	G	139279867	G	G	139279867	3	3	170	1	0	0	0	0	1	0	0	0	10500	680	24	4	18	4	NMNAT3	3	139279867	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	8178839	139279867	58742563	70	60797										
PLSCR4	57088	broad.mit.edu	37	chr3	145913054	145913054	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	actgccgatgttggatatgcCatcaagggatttgacctgga	12	8	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:145913054C>T	uc010huy.2	-	8	1131	c.802G>A	c.(802-804)GGC>AGC	p.G268S	PLSCR4_uc010huz.2_Missense_Mutation_p.G268S|PLSCR4_uc003evt.3_Missense_Mutation_p.G268S|PLSCR4_uc010hva.2_Missense_Mutation_p.G178S|PLSCR4_uc003evu.3_Missense_Mutation_p.G163S	NM_001128305	NP_001121777	Q9NRQ2	PLS4_HUMAN	phospholipid scramblase 4 isoform a	268	Cytoplasmic (By similarity).				blood coagulation|phospholipid scrambling	integral to membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding				0						TTGGATATGCCATCAAGGGAT	0.398													38	67	---	---	---	---	PASS	T	145913054	T	T	145913054	3	4	170	1	0	0	0	0	1	0	0	0	12112	594	21	3	195	3	PLSCR4	3	145913054	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	6633187	145913054	52109376	71	60798										
SI	6476	broad.mit.edu	37	chr3	164786518	164786518	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	taaaaaccgaaccttgaaccGgaaacgattgggtgtctgat	10	8	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:164786518G>C	uc003fei.2	-	5	537	c.475C>G	c.(475-477)CGG>GGG	p.R159G		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	159	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)	ACCTTGAACCGGAAACGATTG	0.284										HNSCC(35;0.089)			43	102	---	---	---	---	PASS	C	164786518	C	C	164786518	3	2	170	1	0	0	0	0	1	0	0	0	14297	1115	39	4	5184	4	SI	3	164786518	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	18873464	164786518	33235912	72	60799										
ATP11B	23200	broad.mit.edu	37	chr3	182616502	182616502	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgttacatgtctatttcttgAtatcataaagaaggtctttg	7	5	4	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:182616502A>G	uc003flb.2	+	28	3517	c.3260A>G	c.(3259-3261)GAT>GGT	p.D1087G	ATP11B_uc003flc.2_Missense_Mutation_p.D671G|ATP11B_uc010hxg.2_RNA|ATP11B_uc010hxh.1_Missense_Mutation_p.D29G	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	1087	Helical; (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			CTATTTCTTGATATCATAAAG	0.373													24	80	---	---	---	---	PASS	G	182616502	G	G	182616502	3	3	170	1	0	0	0	0	1	0	0	0	1120	333	12	5	3370	5	ATP11B	3	182616502	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	17829984	182616502	15405928	73	60800										
HTR3E	285242	broad.mit.edu	37	chr3	183818284	183818284	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccactacaggaaggggcgttActttcaccatcaattgctca	8	12	3	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:183818284A>C	uc010hxq.2	+	2	545	c.79A>C	c.(79-81)ACT>CCT	p.T27P	HTR3E_uc003fml.3_Missense_Mutation_p.T27P|HTR3E_uc003fmm.2_Missense_Mutation_p.T42P|HTR3E_uc010hxr.2_Missense_Mutation_p.T42P|HTR3E_uc003fmn.2_Missense_Mutation_p.T42P	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	27	Extracellular (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			AAGGGGCGTTACTTTCACCAT	0.557													5	724	---	---	---	---	PASS	C	183818284	C	C	183818284	3	2	170	1	0	0	0	0	1	0	0	0	7448	391	14	5	126	5	HTR3E	3	183818284	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	1201782	183818284	14204146	74	60801										
BCL6	604	broad.mit.edu	37	chr3	187451445	187451445	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aagaacatcactggcatggcGggtgaactggatacagctgt	13	8	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:187451445G>C	uc003frp.3	-	3	494	c.37C>G	c.(37-39)CGC>GGC	p.R13G	BCL6_uc011bsf.1_Missense_Mutation_p.R13G|BCL6_uc010hza.2_5'UTR|BCL6_uc003frq.1_Missense_Mutation_p.R13G	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	13					negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		CTGGCATGGCGGGTGAACTGG	0.493			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								44	71	---	---	---	---	PASS	C	187451445	C	C	187451445	3	2	170	1	0	0	0	0	1	0	0	0	1376	1116	39	4	2115	4	BCL6	3	187451445	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	3633161	187451445	10570985	75	60802										
FBXO45	200933	broad.mit.edu	37	chr3	196304528	196304528	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tggcagtgattggaattgccAcaaaacgggcccccatgcag	12	11	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr3:196304528A>T	uc010iai.2	+	2	654	c.523A>T	c.(523-525)ACA>TCA	p.T175S		NM_001105573	NP_001099043	P0C2W1	FBSP1_HUMAN	F-box protein 45	175	B30.2/SPRY.				nervous system development|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	cell junction|postsynaptic membrane|presynaptic membrane	protein binding			skin(1)	1	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;2.75e-23)|all cancers(36;2.47e-21)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		TGGAATTGCCACAAAACGGGC	0.547													7	46	---	---	---	---	PASS	T	196304528	T	T	196304528	3	4	170	1	0	0	0	0	1	0	0	0	5754	159	6	5	529	5	FBXO45	3	196304528	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	8853083	196304528	1717902	76	60803										
NOP14	8602	broad.mit.edu	37	chr4	2951818	2951818	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aggtccaagtggctatctggGctgtcgctctcctctgtgtc	12	12	3	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:2951818G>C	uc003ggj.1	-	8	1197	c.1125C>G	c.(1123-1125)AGC>AGG	p.S375R	C4orf10_uc003ggh.2_Intron|C4orf10_uc003ggi.1_Intron|NOP14_uc010icp.2_Missense_Mutation_p.S121R|NOP14_uc003ggk.3_Missense_Mutation_p.S375R|NOP14_uc003ggl.2_Missense_Mutation_p.S375R	NM_003703	NP_003694	P78316	NOP14_HUMAN	probable nucleolar complex protein 14	375					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	mitochondrion|Noc4p-Nop14p complex|small-subunit processome	snoRNA binding			pancreas(1)	1						GGCTATCTGGGCTGTCGCTCT	0.537													12	483	---	---	---	---	PASS	C	2951818	C	C	2951818	3	2	170	1	0	0	0	0	1	0	0	0	10536	1194	42	4	1492	4	NOP14	4	2951818	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08		2951818	188202458	77	60804										
SLIT2	9353	broad.mit.edu	37	chr4	20611673	20611673	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	atggaaacttccacattgtgGaactacttgccttggatcag	9	9	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:20611673G>T	uc003gpr.1	+	34	3934	c.3730G>T	c.(3730-3732)GAA>TAA	p.E1244*	SLIT2_uc003gps.1_Nonsense_Mutation_p.E1236*	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1244	Laminin G-like.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CCACATTGTGGAACTACTTGC	0.398													30	51	---	---	---	---	PASS	T	20611673	T	T	20611673	4	4	170	1	0	0	0	0	0	1	0	0	14740	1175	41	2	3864	2	SLIT2	4	20611673	Nonsense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	17659855	20611673	170542603	78	60805										
RHOH	399	broad.mit.edu	37	chr4	40245254	40245254	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agacgtggtgctgatgtgctActctgtggccaaccataact	11	10	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:40245254A>G	uc003guz.2	+	3	972	c.248A>G	c.(247-249)TAC>TGC	p.Y83C		NM_004310	NP_004301	Q15669	RHOH_HUMAN	ras homolog gene family, member H precursor	83	Interaction with ZAP70 (By similarity).				negative regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|T cell differentiation	cytosol|mitochondrion|plasma membrane	GTP binding|GTPase inhibitor activity|kinase inhibitor activity|Rho GTPase binding			ovary(1)|lung(1)	2						CTGATGTGCTACTCTGTGGCC	0.562													67	43	---	---	---	---	PASS	G	40245254	G	G	40245254	3	3	170	1	0	0	0	0	1	0	0	0	13340	391	14	5	250	5	RHOH	4	40245254	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	19633581	40245254	150909022	79	60806										
DCAF4L1	285429	broad.mit.edu	37	chr4	41984446	41984446	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agcaggtcctgttgaccagcGtggcgacgggacaccagcag	15	12	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:41984446G>A	uc003gwk.2	+	1	734	c.637G>A	c.(637-639)GTG>ATG	p.V213M		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	213										skin(1)	1						GTTGACCAGCGTGGCGACGGG	0.567													248	203	---	---	---	---	PASS	A	41984446	A	A	41984446	3	1	170	1	0	0	0	0	1	0	0	0	4271	1145	40	1	639	1	DCAF4L1	4	41984446	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	1739192	41984446	149169830	80	60807										
CORIN	10699	broad.mit.edu	37	chr4	47667163	47667163	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaacaagtgcagggaaaagaGaagactcccagctgatggat	13	7	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:47667163G>C	uc003gxm.2	-	11	1568	c.1475C>G	c.(1474-1476)TCT>TGT	p.S492C	CORIN_uc011bzf.1_Missense_Mutation_p.S353C|CORIN_uc011bzg.1_Missense_Mutation_p.S425C|CORIN_uc011bzh.1_Missense_Mutation_p.S455C|CORIN_uc011bzi.1_Missense_Mutation_p.S455C	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	492	Extracellular (Potential).|FZ 2.				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						AGGGAAAAGAGAAGACTCCCA	0.403													3	83	---	---	---	---	PASS	C	47667163	C	C	47667163	3	2	170	1	0	0	0	0	1	0	0	0	3752	942	33	2	1701	2	CORIN	4	47667163	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	5682717	47667163	143487113	81	60808										
HOPX	84525	broad.mit.edu	37	chr4	57522135	57522135	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccaggatttccacctggtccTctgtggggccgctcgcggtc	13	15	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:57522135T>A	uc011cad.1	-	2	267	c.32A>T	c.(31-33)GAG>GTG	p.E11V	HOPX_uc003hcc.2_Missense_Mutation_p.E29V|HOPX_uc003hca.2_Missense_Mutation_p.E29V|HOPX_uc003hcb.2_Missense_Mutation_p.E11V|HOPX_uc003hcd.2_RNA|HOPX_uc003hce.2_RNA|HOPX_uc003hbz.2_Missense_Mutation_p.E11V	NM_001145459	NP_001138931	Q9BPY8	HOP_HUMAN	HOP homeobox isoform b	11	Homeobox; atypical.				negative regulation of cell differentiation|trophectodermal cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Glioma(25;0.08)|all_neural(26;0.101)					CACCTGGTCCTCTGTGGGGCC	0.687													15	11	---	---	---	---	PASS	A	57522135	A	A	57522135	3	1	170	1	0	0	0	0	1	0	0	0	7285	1551	54	5	331	5	HOPX	4	57522135	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	9854972	57522135	133632141	82	60809										
STATH	6779	broad.mit.edu	37	chr4	70866662	70866662	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	acaataccaacaatatacctTttaatatcatcagtaactgc	2	10	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:70866662T>A	uc003heu.1	+	5	295	c.185T>A	c.(184-186)TTT>TAT	p.F62Y	STATH_uc003hev.1_Missense_Mutation_p.F52Y	NM_003154	NP_003145	P02808	STAT_HUMAN	statherin isoform a	62	Hydrophobic; inhibits precipitation of calcium phosphate salts.		Missing (in statherin variants SV1 and SV3).		biomineral tissue development|negative regulation of bone mineralization|ossification|saliva secretion	extracellular region	extracellular matrix constituent, lubricant activity|hydroxyapatite binding|protein binding|structural constituent of tooth enamel			skin(1)	1						CAATATACCTTTTAATATCAT	0.378													14	28	---	---	---	---	PASS	A	70866662	A	A	70866662	3	1	170	1	0	0	0	0	1	0	0	0	15270	1841	64	5	199	5	STATH	4	70866662	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	13344527	70866662	120287614	83	60810										
ADAMTS3	9508	broad.mit.edu	37	chr4	73164143	73164143	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcaggctagagcgggtatcaTtttcttgaggtataatctaa	10	6	4	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:73164143T>A	uc003hgk.1	-	18	2478	c.2441A>T	c.(2440-2442)AAT>ATT	p.N814I	ADAMTS3_uc003hgl.2_Missense_Mutation_p.N155I	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	814	Spacer.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GCGGGTATCATTTTCTTGAGG	0.323													18	4	---	---	---	---	PASS	A	73164143	A	A	73164143	3	1	170	1	0	0	0	0	1	0	0	0	267	1493	52	5	1196	5	ADAMTS3	4	73164143	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	2297481	73164143	117990133	84	60811										
EGF	1950	broad.mit.edu	37	chr4	110864592	110864592	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gcagttgatccagtagaaagGtaaattctgctgtattcaga	10	6	2	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:110864592G>A	uc003hzy.3	+	3	961	c.509_splice	c.e3+1	p.R170_splice	EGF_uc011cfu.1_Splice_Site_p.R170_splice|EGF_uc011cfv.1_Splice_Site_p.R170_splice	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor						angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	CAGTAGAAAGGTAAATTCTGC	0.308													11	3	---	---	---	---	PASS	A	110864592	A	A	110864592	5	1	170	1	0	0	0	0	0	0	1	0	4962	1275	44	3	520	3	EGF	4	110864592	Splice_Site	SNP	G	TCGA-66-2793-01A-01D-1267-08	37700449	110864592	80289684	85	60812										
NDST4	64579	broad.mit.edu	37	chr4	115767116	115767116	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cttttcaaacagaaagtcacTtgtagtattggatggtgtag	10	5	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:115767116T>C	uc003ibu.2	-	10	2657	c.1978A>G	c.(1978-1980)AGT>GGT	p.S660G	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	660	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		AGAAAGTCACTTGTAGTATTG	0.388													24	5	---	---	---	---	PASS	C	115767116	C	C	115767116	3	2	170	1	0	0	0	0	1	0	0	0	10258	1609	56	5	660	5	NDST4	4	115767116	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	4902524	115767116	75387160	86	60813										
ADAD1	132612	broad.mit.edu	37	chr4	123350799	123350799	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agtgtatgtctgcctcctatCaagaagctaaatgtaagttg	9	7	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:123350799C>A	uc003ieo.2	+	13	1868	c.1636C>A	c.(1636-1638)CAA>AAA	p.Q546K	ADAD1_uc003iep.2_Missense_Mutation_p.Q535K|ADAD1_uc003ieq.2_Missense_Mutation_p.Q528K	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	546	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						TGCCTCCTATCAAGAAGCTAA	0.358													27	1	---	---	---	---	PASS	A	123350799	A	A	123350799	3	1	170	1	0	0	0	0	1	0	0	0	231	827	29	2	1678	2	ADAD1	4	123350799	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	7583683	123350799	67803477	87	60814										
NUDT6	11162	broad.mit.edu	37	chr4	123814314	123814314	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttgtgtgctgttgccgaataCtcaggacggacctgaattct	11	9	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:123814314C>A	uc003iew.2	-	5	652	c.620G>T	c.(619-621)AGT>ATT	p.S207I	FGF2_uc003iev.1_3'UTR|NUDT6_uc003iex.2_Missense_Mutation_p.S38I	NM_007083	NP_009014	P53370	NUDT6_HUMAN	nudix-type motif 6 isoform a	207	Nudix hydrolase.					mitochondrion|nucleus	growth factor activity|hydrolase activity				0						TTGCCGAATACTCAGGACGGA	0.393													50	15	---	---	---	---	PASS	A	123814314	A	A	123814314	3	1	170	1	0	0	0	0	1	0	0	0	10743	565	20	3	334	3	NUDT6	4	123814314	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	463515	123814314	67339962	88	60815										
ACCN5	51802	broad.mit.edu	37	chr4	156784654	156784657	+	Frame_Shift_Del	DEL	ACCT	-	-													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccatcttttccacatattgaAcctcaatggacgttgtggtt							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr4:156784654_156784657delACCT	uc003ipe.1	-	2	337_340	c.290_293delAGGT	c.(289-294)GAGGTTfs	p.E97fs		NM_017419	NP_059115	Q9NY37	ACCN5_HUMAN	amiloride-sensitive cation channel 5,	97_98	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0464)|Kidney(143;0.058)|COAD - Colon adenocarcinoma(41;0.141)		CACATATTGAACCTCAATGGACGT	0.392													17	13	---	---	---	---		-	156784657	-	-	156784654	7	5	170	1	0	1	0	1	0	0	0	0	132	43	2	0	1260	0	ACCN5	4	156784654	Frame_Shift_Del	DEL	ACCT	TCGA-66-2793-01A-01D-1267-08	32970340	156784654	34369622	89	60816										
IRX1	79192	broad.mit.edu	37	chr5	3599381	3599381	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	acaaccctggggtgcaccccGccaccttcgcagcccacacg	9	20	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr5:3599381G>A	uc003jde.2	+	2	371	c.319G>A	c.(319-321)GCC>ACC	p.A107T		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	107						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GGTGCACCCCGCCACCTTCGC	0.557													44	7	---	---	---	---	PASS	A	3599381	A	A	3599381	3	1	170	1	0	0	0	0	1	0	0	0	7843	1087	38	1	325	1	IRX1	5	3599381	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08		3599381	177315879	90	60817										
DNAH5	1767	broad.mit.edu	37	chr5	13700970	13700970	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gagcccagcctttgttggccCgagttatttcctattcaggg	11	11	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr5:13700970C>A	uc003jfd.2	-	78	13544	c.13502G>T	c.(13501-13503)CGG>CTG	p.R4501L	DNAH5_uc003jfc.2_Missense_Mutation_p.R669L	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4501					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTTGTTGGCCCGAGTTATTTC	0.453									Kartagener_syndrome				41	7	---	---	---	---	PASS	A	13700970	A	A	13700970	3	1	170	1	0	0	0	0	1	0	0	0	4604	652	23	1	380	1	DNAH5	5	13700970	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	10101589	13700970	167214290	91	60818										
MTMR12	54545	broad.mit.edu	37	chr5	32312944	32312944	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gactactcctttccccagcaTaccgccgccctgggaagcag	9	17	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr5:32312944T>A	uc003jhq.2	-	1	171	c.1A>T	c.(1-3)ATG>TTG	p.M1L	MTMR12_uc010iuk.2_Missense_Mutation_p.M1L|MTMR12_uc010iul.2_Missense_Mutation_p.M1L	NM_001040446	NP_001035536	Q9C0I1	MTMRC_HUMAN	myotubularin related protein 12	1						cytoplasm	phosphatase activity			ovary(1)	1						TTCCCCAGCATACCGCCGCCC	0.667													23	9	---	---	---	---	PASS	A	32312944	A	A	32312944	3	1	170	1	0	0	0	0	1	0	0	0	9941	1406	49	5	2306	5	MTMR12	5	32312944	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	18611974	32312944	148602316	92	60819										
RAD17	5884	broad.mit.edu	37	chr5	68669760	68669760	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaataactcaagtcatagaaGaaaaaatgggccttctacat	7	7	3	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr5:68669760G>A	uc003jwo.2	+	2	208	c.146G>A	c.(145-147)AGA>AAA	p.R49K	RAD17_uc003jwg.2_Missense_Mutation_p.R38K|RAD17_uc003jwh.2_Missense_Mutation_p.R38K|RAD17_uc003jwi.2_Missense_Mutation_p.R38K|RAD17_uc003jwj.2_Missense_Mutation_p.R38K|RAD17_uc003jwk.2_Missense_Mutation_p.R38K|RAD17_uc003jwl.2_Missense_Mutation_p.R38K|RAD17_uc003jwm.2_5'UTR|RAD17_uc003jwn.2_Intron	NM_133339	NP_579917	O75943	RAD17_HUMAN	RAD17 homolog isoform 2	49					cell cycle|DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint|mitotic cell cycle checkpoint|negative regulation of DNA replication|regulation of phosphorylation	nucleoplasm	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Lung NSC(167;5.19e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;9.36e-57)|Epithelial(20;1.21e-52)|all cancers(19;3.34e-48)|Lung(70;0.0183)		AGTCATAGAAGAAAAAATGGG	0.368								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					19	5	---	---	---	---	PASS	A	68669760	A	A	68669760	3	1	170	1	0	0	0	0	1	0	0	0	12979	942	33	2	165	2	RAD17	5	68669760	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	36356816	68669760	112245500	93	60820										
TMEM171	134285	broad.mit.edu	37	chr5	72419209	72419209	+	Silent	SNP	T	G	G													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cctctcctggacatgtctccTgcagctgctgctgagccaga							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr5:72419209T>G	uc003kcm.2	+	2	213	c.9T>G	c.(7-9)CCT>CCG	p.P3P	TMEM171_uc003kcn.3_Silent_p.P3P	NM_173490	NP_775761	Q8WVE6	TM171_HUMAN	transmembrane protein 171 isoform 1	3						integral to membrane					0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.87e-54)|Lung(70;0.115)		ACATGTCTCCTGCAGCTGCTG	0.552													64	22	---	---	---	---	PASS	G	72419209	G	G	72419209	2	3	170	1	0	0	0	0	0	0	0	1	16085	1567	55	5		5	TMEM171	5	72419209	Silent	SNP	T	TCGA-66-2793-01A-01D-1267-08	3749449	72419209	108496051	94	60821	1062	2								
TMEM171	134285	broad.mit.edu	37	chr5	72419210	72419210	+	Missense_Mutation	SNP	G	C	C													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctctcctggacatgtctcctGcagctgctgctgagccagat							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr5:72419210G>C	uc003kcm.2	+	2	214	c.10G>C	c.(10-12)GCA>CCA	p.A4P	TMEM171_uc003kcn.3_Missense_Mutation_p.A4P	NM_173490	NP_775761	Q8WVE6	TM171_HUMAN	transmembrane protein 171 isoform 1	4						integral to membrane					0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.87e-54)|Lung(70;0.115)		CATGTCTCCTGCAGCTGCTGC	0.552													67	22	---	---	---	---	PASS	C	72419210	C	C	72419210	3	2	170	1	0	0	0	0	1	0	0	0	16085	1319	46	4	12	4	TMEM171	5	72419210	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	1	72419210	108496050	95	60822	1062	2								
CMYA5	202333	broad.mit.edu	37	chr5	79033024	79033024	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaaacaccgccatatttgctGtcacctgtaaaaccacaaac	5	13	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr5:79033024G>C	uc003kgc.2	+	2	8508	c.8436G>C	c.(8434-8436)CTG>CTC	p.L2812L		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2812						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CATATTTGCTGTCACCTGTAA	0.403													7	3	---	---	---	---	PASS	C	79033024	C	C	79033024	2	2	170	1	0	0	0	0	0	0	0	1	3590	1364	48	4		4	CMYA5	5	79033024	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	6613814	79033024	101882236	96	60823										
ANKRD34B	340120	broad.mit.edu	37	chr5	79854635	79854635	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tttggactctgacaattgggAaggagatggtgagaggatct	15	4	2	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr5:79854635A>G	uc010jam.2	-	4	1554	c.1204T>C	c.(1204-1206)TCC>CCC	p.S402P	ANKRD34B_uc003kgw.2_Missense_Mutation_p.S402P|ANKRD34B_uc010jan.2_Missense_Mutation_p.S402P	NM_001004441	NP_001004441	A5PLL1	AN34B_HUMAN	ankyrin repeat domain 34B	402						cytoplasm|nucleus				pancreas(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-46)|Epithelial(54;5.64e-41)|all cancers(79;3.24e-36)		GACAATTGGGAAGGAGATGGT	0.483													17	23	---	---	---	---	PASS	G	79854635	G	G	79854635	3	3	170	1	0	0	0	0	1	0	0	0	663	246	9	5	344	5	ANKRD34B	5	79854635	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	821611	79854635	101060625	97	60824										
MEF2C	4208	broad.mit.edu	37	chr5	88100564	88100564	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aatctcacagtcacacagcaCgctcagctcataagccttct	5	15	5	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr5:88100564C>A	uc003kjj.2	-	3	782	c.109G>T	c.(109-111)GTG>TTG	p.V37L	MEF2C_uc003kji.2_Missense_Mutation_p.V37L|MEF2C_uc003kjk.2_Missense_Mutation_p.V37L|MEF2C_uc003kjm.2_Missense_Mutation_p.V37L|MEF2C_uc003kjl.2_Missense_Mutation_p.V37L	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	37	MADS-box.				apoptosis|B cell proliferation|innate immune response|learning or memory|muscle cell differentiation|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|neuron development|positive regulation of muscle cell differentiation|positive regulation of survival gene product expression|positive regulation of transcription from RNA polymerase II promoter|regulation of germinal center formation|regulation of megakaryocyte differentiation|regulation of synaptic activity|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	nuclear speck	activating transcription factor binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(3)|breast(2)|ovary(1)|large_intestine(1)	7		all_cancers(142;6.67e-05)|all_epithelial(76;7.77e-07)|Lung NSC(167;0.00566)|all_lung(232;0.00732)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;1.04e-33)|Epithelial(54;1.6e-28)|all cancers(79;2.9e-25)		TCACACAGCACGCTCAGCTCA	0.418										HNSCC(66;0.2)			25	6	---	---	---	---	PASS	A	88100564	A	A	88100564	3	1	170	1	0	0	0	0	1	0	0	0	9457	536	19	1	1490	1	MEF2C	5	88100564	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	8245929	88100564	92814696	98	60825										
PCDHB2	56133	broad.mit.edu	37	chr5	140475550	140475550	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tccatccaagatgatcttccTtttttcttgaaaccttctgt	4	11	3	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr5:140475550T>C	uc003lil.2	+	1	1314	c.1176T>C	c.(1174-1176)CCT>CCC	p.P392P	PCDHB2_uc003lim.1_Silent_p.P53P	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	392	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATGATCTTCCTTTTTTCTTGA	0.483													18	31	---	---	---	---	PASS	C	140475550	C	C	140475550	2	2	170	1	0	0	0	0	0	0	0	1	11542	1596	56	5		5	PCDHB2	5	140475550	Silent	SNP	T	TCGA-66-2793-01A-01D-1267-08	52374986	140475550	40439710	99	60826										
RNF145	153830	broad.mit.edu	37	chr5	158585996	158585996	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agccatttcttaagacagccTgcatggaaaaaatgactgca	8	9	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr5:158585996T>G	uc003lxp.2	-	11	1987	c.1674A>C	c.(1672-1674)GCA>GCC	p.A558A	RNF145_uc011ddy.1_Silent_p.A572A|RNF145_uc003lxo.1_Silent_p.A586A|RNF145_uc011ddz.1_Silent_p.A575A|RNF145_uc010jiq.1_Silent_p.A588A	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	558	RING-type; atypical.					integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TAAGACAGCCTGCATGGAAAA	0.448													40	4	---	---	---	---	PASS	G	158585996	G	G	158585996	2	3	170	1	0	0	0	0	0	0	0	1	13447	1567	55	5		5	RNF145	5	158585996	Silent	SNP	T	TCGA-66-2793-01A-01D-1267-08	18110446	158585996	22329264	100	60827										
UNC5A	90249	broad.mit.edu	37	chr5	176306396	176306396	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagtgccttcaagatcccctTcctcattcggcagaagataa	7	13	2	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr5:176306396T>C	uc003mey.2	+	14	2462	c.2270T>C	c.(2269-2271)TTC>TCC	p.F757S		NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	757	Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAGATCCCCTTCCTCATTCGG	0.637													138	27	---	---	---	---	PASS	C	176306396	C	C	176306396	3	2	170	1	0	0	0	0	1	0	0	0	16988	1783	62	5	2324	5	UNC5A	5	176306396	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	17720400	176306396	4608864	101	60828										
LRRC16A	55604	broad.mit.edu	37	chr6	25619690	25619690	+	Missense_Mutation	SNP	G	T	T													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttcagtttcaaggagaagctGgggccagcaggcccaggagt							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:25619690G>T	uc011djw.1	+	37	4371	c.3995G>T	c.(3994-3996)TGG>TTG	p.W1332L	LRRC16A_uc010jpx.2_Missense_Mutation_p.W1287L|LRRC16A_uc010jpy.2_Missense_Mutation_p.W1326L	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	1332					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						AGGAGAAGCTGGGGCCAGCAG	0.478													38	4	---	---	---	---	PASS	T	25619690	T	T	25619690	3	4	170	1	0	0	0	0	1	0	0	0	8971	1357	47	3	4141	3	LRRC16A	6	25619690	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08		25619690	145495377	102	60829	1063	2								
LRRC16A	55604	broad.mit.edu	37	chr6	25619691	25619691	+	Missense_Mutation	SNP	G	T	T													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcagtttcaaggagaagctgGggccagcaggcccaggagta							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:25619691G>T	uc011djw.1	+	37	4372	c.3996G>T	c.(3994-3996)TGG>TGT	p.W1332C	LRRC16A_uc010jpx.2_Missense_Mutation_p.W1287C|LRRC16A_uc010jpy.2_Missense_Mutation_p.W1326C	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	1332					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						GGAGAAGCTGGGGCCAGCAGG	0.478													38	5	---	---	---	---	PASS	T	25619691	T	T	25619691	3	4	170	1	0	0	0	0	1	0	0	0	8971	1241	43	3	4142	3	LRRC16A	6	25619691	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	1	25619691	145495376	103	60830	1063	2								
HIST1H2BG	8339	broad.mit.edu	37	chr6	26216792	26216795	+	Frame_Shift_Del	DEL	CCAT	-	-													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gactgcgcttgcgcttcttgCcatccttcttctgcgccttg							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:26216792_26216795delCCAT	uc003ngz.2	-	1	78_81	c.77_80delATGG	c.(76-81)GATGGCfs	p.D26fs	HIST1H2AE_uc003nha.1_5'Flank	NM_003518	NP_003509	P62807	H2B1C_HUMAN	histone cluster 1, H2bg	26_27					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			ovary(1)	1		all_hematologic(11;0.196)				GCGCTTCTTGCCATCCTTCTTCTG	0.52													194	94	---	---	---	---		-	26216795	-	-	26216792	7	5	170	1	0	1	0	1	0	0	0	0	7146	739	26	0	304	0	HIST1H2BG	6	26216792	Frame_Shift_Del	DEL	CCAT	TCGA-66-2793-01A-01D-1267-08	597101	26216792	144898275	104	60831										
C6orf47	57827	broad.mit.edu	37	chr6	31627280	31627280	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	caacagcttctcacgcctacCaggtttctccaatggggctc	8	15	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:31627280C>T	uc003nvm.1	-	1	1270	c.445G>A	c.(445-447)GGT>AGT	p.G149S		NM_021184	NP_067007	O95873	CF047_HUMAN	G4 protein	149										ovary(1)	1						TCACGCCTACCAGGTTTCTCC	0.632													70	137	---	---	---	---	PASS	T	31627280	T	T	31627280	3	4	170	1	0	0	0	0	1	0	0	0	2364	594	21	3	443	3	C6orf47	6	31627280	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	5410488	31627280	139487787	105	60832										
ANKS1A	23294	broad.mit.edu	37	chr6	34985263	34985263	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctccaagaccacaggcggagCagcagcagccggagccagga	14	14	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:34985263C>A	uc003ojx.3	+	11	1579	c.1437C>A	c.(1435-1437)AGC>AGA	p.S479R	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Missense_Mutation_p.S19R|ANKS1A_uc010jvp.1_Intron	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	479						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						ACAGGCGGAGCAGCAGCAGCC	0.577													112	68	---	---	---	---	PASS	A	34985263	A	A	34985263	3	1	170	1	0	0	0	0	1	0	0	0	688	709	25	3	1479	3	ANKS1A	6	34985263	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	3357983	34985263	136129804	106	60833										
SRPK1	6732	broad.mit.edu	37	chr6	35837488	35837488	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgggagcttaggaaactagaTtcctgattcaaattttggac	10	6	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:35837488T>A	uc003olj.2	-	11	1305	c.1182A>T	c.(1180-1182)GAA>GAT	p.E394D	SRPK1_uc011dtg.1_Missense_Mutation_p.E378D|SRPK1_uc003olh.2_Missense_Mutation_p.E287D|SRPK1_uc003oli.2_Missense_Mutation_p.E287D	NM_003137	NP_003128	Q96SB4	SRPK1_HUMAN	SFRS protein kinase 1	394	Protein kinase.				cell differentiation|chromosome segregation|interspecies interaction between organisms|intracellular protein kinase cascade|mRNA processing|negative regulation of viral genome replication|positive regulation of viral genome replication|regulation of mRNA processing|RNA splicing	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						GGAAACTAGATTCCTGATTCA	0.378													25	20	---	---	---	---	PASS	A	35837488	A	A	35837488	3	1	170	1	0	0	0	0	1	0	0	0	15158	1490	52	5	809	5	SRPK1	6	35837488	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	852225	35837488	135277579	107	60834										
TDRD6	221400	broad.mit.edu	37	chr6	46656442	46656442	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	atgtgttccaacagatgcggGagctgggcctggctcggcgg	17	10	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:46656442G>T	uc003oyj.2	+	1	577	c.577G>T	c.(577-579)GAG>TAG	p.E193*	TDRD6_uc010jze.2_Nonsense_Mutation_p.E187*	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	193					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			ACAGATGCGGGAGCTGGGCCT	0.672													6	268	---	---	---	---	PASS	T	46656442	T	T	46656442	4	4	170	1	0	0	0	0	0	1	0	0	15731	1175	41	2	579	2	TDRD6	6	46656442	Nonsense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	10818954	46656442	124458625	108	60835										
C6orf138	442213	broad.mit.edu	37	chr6	47976433	47976433	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tccatcggtgatgaagaagaTccctgctgctgtgatgatgg	13	8	0	6			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:47976433T>C	uc011dwm.1	-	2	878	c.793A>G	c.(793-795)ATC>GTC	p.I265V	C6orf138_uc011dwn.1_Missense_Mutation_p.I29V|C6orf138_uc003ozf.2_Missense_Mutation_p.I282V	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	282	Helical; (Potential).|SSD.					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						ATGAAGAAGATCCCTGCTGCT	0.542													10	26	---	---	---	---	PASS	C	47976433	C	C	47976433	3	2	170	1	0	0	0	0	1	0	0	0	2332	1435	50	5	1704	5	C6orf138	6	47976433	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	1319991	47976433	123138634	109	60836										
TFAP2B	7021	broad.mit.edu	37	chr6	50803938	50803938	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctgtgggagaagttcagagaCggctgtcgccccctgaatgc	14	11	1	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:50803938C>G	uc003pag.2	+	4	932	c.766C>G	c.(766-768)CGG>GGG	p.R256G		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	256					nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					AGTTCAGAGACGGCTGTCGCC	0.473													8	56	---	---	---	---	PASS	G	50803938	G	G	50803938	3	3	170	1	0	0	0	0	1	0	0	0	15785	527	19	4	780	4	TFAP2B	6	50803938	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	2827505	50803938	120311129	110	60837										
BACH2	60468	broad.mit.edu	37	chr6	90660874	90660874	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gctggggccgtgggggtaggGgcagggctgggctgtttccg	23	8	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:90660874G>A	uc011eab.1	-	7	1760	c.951C>T	c.(949-951)GCC>GCT	p.A317A	BACH2_uc003pnw.2_Silent_p.A317A|BACH2_uc010kch.2_Silent_p.A317A	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	317						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		TGGGGGTAGGGGCAGGGCTGG	0.627													38	60	---	---	---	---	PASS	A	90660874	A	A	90660874	2	1	170	1	0	0	0	0	0	0	0	1	1284	1219	43	3		3	BACH2	6	90660874	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	39856936	90660874	80454193	111	60838										
BEND3	57673	broad.mit.edu	37	chr6	107390285	107390285	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cgaggggaccaccagctcgtCcaaggggatcttgcaaaagt	13	11	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:107390285C>A	uc003prs.2	-	5	2760	c.2110G>T	c.(2110-2112)GAC>TAC	p.D704Y		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	704										ovary(3)	3						ACCAGCTCGTCCAAGGGGATC	0.627													127	108	---	---	---	---	PASS	A	107390285	A	A	107390285	3	1	170	1	0	0	0	0	1	0	0	0	1399	855	30	2	380	2	BEND3	6	107390285	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	16729411	107390285	63724782	112	60839										
NR2E1	7101	broad.mit.edu	37	chr6	108497813	108497813	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gccgccgcgcactttccctcGgcggcgctccctgcgccggc	13	21	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:108497813G>A	uc003psg.2	+	4	1121	c.366G>A	c.(364-366)TCG>TCA	p.S122S		NM_003269	NP_003260	Q9Y466	NR2E1_HUMAN	nuclear receptor subfamily 2, group E, member 1	122					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(87;8.13e-05)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00866)|Colorectal(196;0.0637)		BRCA - Breast invasive adenocarcinoma(108;0.013)|Epithelial(106;0.0521)|all cancers(137;0.068)|OV - Ovarian serous cystadenocarcinoma(136;0.0689)		ACTTTCCCTCGGCGGCGCTCC	0.711													32	52	---	---	---	---	PASS	A	108497813	A	A	108497813	2	1	170	1	0	0	0	0	0	0	0	1	10625	1103	39	1		1	NR2E1	6	108497813	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	1107528	108497813	62617254	113	60840										
PTPRK	5796	broad.mit.edu	37	chr6	128388874	128388874	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	acaggaacctggtagcattcCatggctccggcttctctctt	9	13	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:128388874C>T	uc003qbk.2	-	12	2314	c.1947G>A	c.(1945-1947)ATG>ATA	p.M649I	PTPRK_uc003qbj.2_Missense_Mutation_p.M649I|PTPRK_uc010kfc.2_Missense_Mutation_p.M649I|PTPRK_uc011ebu.1_Missense_Mutation_p.M649I|PTPRK_uc003qbl.1_Missense_Mutation_p.M519I|PTPRK_uc011ebv.1_Missense_Mutation_p.M649I	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	649	Extracellular (Potential).|Fibronectin type-III 4.				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		GGTAGCATTCCATGGCTCCGG	0.483													7	152	---	---	---	---	PASS	T	128388874	T	T	128388874	3	4	170	1	0	0	0	0	1	0	0	0	12805	594	21	3	2473	3	PTPRK	6	128388874	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	19891061	128388874	42726193	114	60841										
TAAR2	9287	broad.mit.edu	37	chr6	132938669	132938669	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aattttgccataaatccccaCcatcatagacccaggagtga	6	12	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:132938669C>A	uc003qdl.1	-	2	676	c.676G>T	c.(676-678)GTG>TTG	p.V226L	TAAR2_uc010kfr.1_Missense_Mutation_p.V181L	NM_001033080	NP_001028252	Q9P1P5	TAAR2_HUMAN	trace amine associated receptor 2 isoform 1	226	Helical; Name=5; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00608)|GBM - Glioblastoma multiforme(226;0.0151)		TAAATCCCCACCATCATAGAC	0.413													26	25	---	---	---	---	PASS	A	132938669	A	A	132938669	3	1	170	1	0	0	0	0	1	0	0	0	15487	507	18	3	383	3	TAAR2	6	132938669	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	4549795	132938669	38176398	115	60842										
MAP7	9053	broad.mit.edu	37	chr6	136683634	136683634	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctccctttcttccttttctcTctgctctcgggccagccgcc	6	19	4	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:136683634T>C	uc003qgz.2	-	11	1726	c.1480A>G	c.(1480-1482)AGA>GGA	p.R494G	MAP7_uc011edf.1_Missense_Mutation_p.R479G|MAP7_uc011edg.1_Missense_Mutation_p.R524G|MAP7_uc010kgu.2_Missense_Mutation_p.R516G|MAP7_uc011edh.1_Missense_Mutation_p.R479G|MAP7_uc010kgv.2_Missense_Mutation_p.R516G|MAP7_uc010kgs.2_Missense_Mutation_p.R348G|MAP7_uc011edi.1_Missense_Mutation_p.R348G|MAP7_uc010kgq.1_Missense_Mutation_p.R400G|MAP7_uc003qha.1_Missense_Mutation_p.R457G	NM_003980	NP_003971	Q14244	MAP7_HUMAN	microtubule-associated protein 7	494	Potential.				establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)		TCCTTTTCTCTCTGCTCTCGG	0.522													6	240	---	---	---	---	PASS	C	136683634	C	C	136683634	3	2	170	1	0	0	0	0	1	0	0	0	9266	1559	54	5	801	5	MAP7	6	136683634	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	3744965	136683634	34431433	116	60843										
SYNE1	23345	broad.mit.edu	37	chr6	152557956	152557956	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggcttgtaacaccaacctggTagagtgttatgcggtcaata	11	8	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr6:152557956T>C	uc010kiw.2	-	109	20797	c.20195A>G	c.(20194-20196)TAC>TGC	p.Y6732C	SYNE1_uc010kiv.2_Missense_Mutation_p.Y1256C|SYNE1_uc003qos.3_Missense_Mutation_p.Y1256C|SYNE1_uc003qot.3_Missense_Mutation_p.Y6661C|SYNE1_uc003qou.3_Missense_Mutation_p.Y6732C	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6732	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)		ACCAACCTGGTAGAGTGTTAT	0.448										HNSCC(10;0.0054)			35	23	---	---	---	---	PASS	C	152557956	C	C	152557956	3	2	170	1	0	0	0	0	1	0	0	0	15442	1638	57	5	6423	5	SYNE1	6	152557956	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	15874322	152557956	18557111	117	60844										
TARP	445347	broad.mit.edu	37	chr7	38304988	38304988	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agataatttcttgatcaactCcgtttttattattctcatgt	4	7	3	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:38304988C>A	uc003tge.1	-	5	1096	c.719G>T	c.(718-720)GGA>GTA	p.G240V	uc003tfz.1_Intron|TARP_uc003tgb.2_Missense_Mutation_p.G36V|TARP_uc003tgc.1_Missense_Mutation_p.G36V|TARP_uc003tgd.1_Missense_Mutation_p.G36V|TARP_uc010kxi.1_RNA|TARP_uc003tgf.1_RNA|TARP_uc003tgj.1_RNA|TARP_uc003tgh.1_RNA|TARP_uc003tgi.1_RNA|TARP_uc003tgg.1_RNA			A2JGV3	A2JGV3_HUMAN	Homo sapiens TCRgamma alternate reading frame protein (TCRg) mRNA, complete cds.	Error:Variant_position_missing_in_A2JGV3_after_alignment											0						TTGATCAACTCCGTTTTTATT	0.363													4	28	---	---	---	---	PASS	A	38304988	A	A	38304988	3	1	170	1	0	0	0	0	1	0	0	0	15555	855	30	2	240	2	TARP	7	38304988	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08		38304988	120833675	118	60845										
NPC1L1	29881	broad.mit.edu	37	chr7	44556465	44556465	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagcgaaggtgggcacaaggCagaggctgagcatgaagagc	17	8	0	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:44556465C>T	uc003tlb.2	-	17	3493	c.3437G>A	c.(3436-3438)TGC>TAC	p.C1146Y	NPC1L1_uc003tlc.2_Missense_Mutation_p.C1119Y|NPC1L1_uc011kbw.1_Missense_Mutation_p.C1073Y|NPC1L1_uc003tla.2_Intron	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	1146	Helical; Name=10; (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	GGGCACAAGGCAGAGGCTGAG	0.587													25	28	---	---	---	---	PASS	T	44556465	T	T	44556465	3	4	170	1	0	0	0	0	1	0	0	0	10571	710	25	3	658	3	NPC1L1	7	44556465	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	6251477	44556465	114582198	119	60846										
ABCA13	154664	broad.mit.edu	37	chr7	48284217	48284217	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aagcttgctgcaaaacctgcCccagtggccggcactgaaga	11	13	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:48284217C>A	uc003toq.2	+	11	1332	c.1307C>A	c.(1306-1308)CCC>CAC	p.P436H	ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	436					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CAAAACCTGCCCCAGTGGCCG	0.408													22	12	---	---	---	---	PASS	A	48284217	A	A	48284217	3	1	170	1	0	0	0	0	1	0	0	0	31	623	22	3	1178	3	ABCA13	7	48284217	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	3727752	48284217	110854446	120	60847										
POM121L12	285877	broad.mit.edu	37	chr7	53103566	53103566	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gccatattcagtacttccagTgggggcgcccggtgcccagc	13	14	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:53103566T>A	uc003tpz.2	+	1	218	c.202T>A	c.(202-204)TGG>AGG	p.W68R		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	68											0						GTACTTCCAGTGGGGGCGCCC	0.706													14	29	---	---	---	---	PASS	A	53103566	A	A	53103566	3	1	170	1	0	0	0	0	1	0	0	0	12241	1696	59	5	204	5	POM121L12	7	53103566	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	4819349	53103566	106035097	121	60848										
LANCL2	55915	broad.mit.edu	37	chr7	55468869	55468869	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gtcttgttatctctgtaggtAgtcaatgctattattgaatc	8	6	3	1	rs148596591		TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:55468869A>G	uc003tqp.2	+	5	1259	c.681A>G	c.(679-681)GTA>GTG	p.V227V		NM_018697	NP_061167	Q9NS86	LANC2_HUMAN	LanC lantibiotic synthetase component C-like 2	227					negative regulation of transcription, DNA-dependent|positive regulation of abscisic acid mediated signaling pathway	cortical actin cytoskeleton|cytosol|nucleus|plasma membrane	ATP binding|catalytic activity|GTP binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding			ovary(1)|skin(1)	2	Breast(14;0.0379)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00128)|Epithelial(13;0.0706)			CTCTGTAGGTAGTCAATGCTA	0.393													37	40	---	---	---	---	PASS	G	55468869	G	G	55468869	2	3	170	1	0	0	0	0	0	0	0	1	8621	407	15	5		5	LANCL2	7	55468869	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	2365303	55468869	103669794	122	60849										
PHKG1	5260	broad.mit.edu	37	chr7	56151350	56151350	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aagggaccctcacctggtttCcttctcactcaaggtgacct	8	14	3	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:56151350C>G	uc003trz.1	-	5	571	c.376G>C	c.(376-378)GAA>CAA	p.E126Q	PSPH_uc003trj.2_Intron|PHKG1_uc003try.1_Missense_Mutation_p.E20Q|PHKG1_uc011kdb.1_Missense_Mutation_p.E158Q|PHKG1_uc011kdc.1_Missense_Mutation_p.E117Q|PHKG1_uc011kdd.1_Missense_Mutation_p.E72Q	NM_006213	NP_006204	Q16816	PHKG1_HUMAN	phosphorylase kinase gamma subunit 1	126	Protein kinase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			large_intestine(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CACCTGGTTTCCTTCTCACTC	0.587													3	9	---	---	---	---	PASS	G	56151350	G	G	56151350	3	3	170	1	0	0	0	0	1	0	0	0	11846	864	30	2	811	2	PHKG1	7	56151350	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	682481	56151350	102987313	123	60850										
WBSCR17	64409	broad.mit.edu	37	chr7	71036319	71036319	+	Missense_Mutation	SNP	G	T	T													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tggtcaacaggaagttcttcGgtgaaattggtcttctggat							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:71036319G>T	uc003tvy.2	+	6	1012	c.1012G>T	c.(1012-1014)GGT>TGT	p.G338C	WBSCR17_uc003tvz.2_Missense_Mutation_p.G37C	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	338	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				GAAGTTCTTCGGTGAAATTGG	0.502													78	110	---	---	---	---	PASS	T	71036319	T	T	71036319	3	4	170	1	0	0	0	0	1	0	0	0	17261	1116	39	1	1034	1	WBSCR17	7	71036319	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	14884969	71036319	88102344	124	60851	1064	2								
WBSCR17	64409	broad.mit.edu	37	chr7	71036320	71036320	+	Missense_Mutation	SNP	G	C	C													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggtcaacaggaagttcttcgGtgaaattggtcttctggatc							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:71036320G>C	uc003tvy.2	+	6	1013	c.1013G>C	c.(1012-1014)GGT>GCT	p.G338A	WBSCR17_uc003tvz.2_Missense_Mutation_p.G37A	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	338	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				AAGTTCTTCGGTGAAATTGGT	0.502													80	110	---	---	---	---	PASS	C	71036320	C	C	71036320	3	2	170	1	0	0	0	0	1	0	0	0	17261	1261	44	4	1035	4	WBSCR17	7	71036320	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	1	71036320	88102343	125	60852	1064	2								
HIP1	3092	broad.mit.edu	37	chr7	75168751	75168751	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttctagctctagcaccctaaCctgtaagggaaagtaagtgg	10	9	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:75168751C>G	uc003uds.1	-	30	2994	c.2953G>C	c.(2953-2955)GTT>CTT	p.V985L	HIP1_uc011kfz.1_Missense_Mutation_p.V811L	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	985	I/LWEQ.				activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						AGCACCCTAACCTGTAAGGGA	0.343			T	PDGFRB	CMML								182	205	---	---	---	---	PASS	G	75168751	G	G	75168751	3	3	170	1	0	0	0	0	1	0	0	0	7114	521	18	4	168	4	HIP1	7	75168751	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	4132431	75168751	83969912	126	60853										
TMEM130	222865	broad.mit.edu	37	chr7	98449145	98449145	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagggtccctgaaggtgtggGtcaggttgtacgctgtgctg	17	8	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:98449145G>A	uc003upo.2	-	6	1094	c.905C>T	c.(904-906)ACC>ATC	p.T302I	TMEM130_uc011kiq.1_Missense_Mutation_p.T283I|TMEM130_uc011kir.1_Missense_Mutation_p.T302I|TMEM130_uc003upn.2_Missense_Mutation_p.T200I	NM_001134450	NP_001127922	Q8N3G9	TM130_HUMAN	transmembrane protein 130 isoform a	302	Extracellular (Potential).					Golgi membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(62;4.05e-09)|all_epithelial(64;2.62e-09)|Lung NSC(181;0.01)|all_lung(186;0.0115)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GAAGGTGTGGGTCAGGTTGTA	0.607													42	59	---	---	---	---	PASS	A	98449145	A	A	98449145	3	1	170	1	0	0	0	0	1	0	0	0	16040	1261	44	3	414	3	TMEM130	7	98449145	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	23280394	98449145	60689518	127	60854										
PUS7	54517	broad.mit.edu	37	chr7	105148856	105148856	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tggttagactgcattccgacAgcttctgtttttttgtctct	8	9	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:105148856A>G	uc003vcx.2	-	2	323	c.104T>C	c.(103-105)CTG>CCG	p.L35P	PUS7_uc010lji.2_Missense_Mutation_p.L35P|PUS7_uc003vcy.2_Missense_Mutation_p.L35P|PUS7_uc003vcz.1_Missense_Mutation_p.L35P	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog	35					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						GCATTCCGACAGCTTCTGTTT	0.493													50	133	---	---	---	---	PASS	G	105148856	G	G	105148856	3	3	170	1	0	0	0	0	1	0	0	0	12833	188	7	5	1941	5	PUS7	7	105148856	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	6699711	105148856	53989807	128	60855										
PIK3CG	5294	broad.mit.edu	37	chr7	106515250	106515250	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaaagcaggagcgctggcagTaggtatcacttggatgtctc	14	8	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:106515250T>G	uc003vdv.3	+	5	2476	c.2391_splice	c.e5+2	p.A797_splice	PIK3CG_uc003vdu.2_Splice_Site_p.A797_splice|PIK3CG_uc003vdw.2_Splice_Site_p.A797_splice	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma						G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						GCGCTGGCAGTAGGTATCACT	0.438													15	26	---	---	---	---	PASS	G	106515250	G	G	106515250	5	3	170	1	0	0	0	0	0	0	1	0	11916	1652	57	5	2407	5	PIK3CG	7	106515250	Splice_Site	SNP	T	TCGA-66-2793-01A-01D-1267-08	1366394	106515250	52623413	129	60856										
CBLL1	79872	broad.mit.edu	37	chr7	107398922	107398922	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	actataatcagccacatgagGatattcgtgctcctccagca	7	12	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:107398922G>A	uc003veq.2	+	6	1105	c.775G>A	c.(775-777)GAT>AAT	p.D259N	CBLL1_uc011kme.1_Missense_Mutation_p.D138N|CBLL1_uc011kmf.1_Missense_Mutation_p.D258N	NM_024814	NP_079090	Q75N03	HAKAI_HUMAN	Cas-Br-M (murine) ecotropic retroviral	259	Pro-rich.				cell-cell adhesion|negative regulation of cell adhesion|positive regulation of cell migration|positive regulation of endocytosis		protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|skin(2)|lung(1)	5						GCCACATGAGGATATTCGTGC	0.478													34	64	---	---	---	---	PASS	A	107398922	A	A	107398922	3	1	170	1	0	0	0	0	1	0	0	0	2703	1174	41	2	797	2	CBLL1	7	107398922	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	883672	107398922	51739741	130	60857										
FOXP2	93986	broad.mit.edu	37	chr7	114299712	114299712	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	atttgcttacttcaggcgtaAtgcagcaacttggaaggtaa	10	7	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:114299712A>T	uc003vhb.2	+	13	2005	c.1631A>T	c.(1630-1632)AAT>ATT	p.N544I	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Missense_Mutation_p.N569I|FOXP2_uc003vha.2_Missense_Mutation_p.N452I|FOXP2_uc011kmu.1_Missense_Mutation_p.N561I|FOXP2_uc011kmv.1_Missense_Mutation_p.N543I|FOXP2_uc010ljz.1_Missense_Mutation_p.N359I|FOXP2_uc003vhe.1_Missense_Mutation_p.N114I	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	544	Fork-head.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	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(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						TTCAGGCGTAATGCAGCAACT	0.313													50	65	---	---	---	---	PASS	T	114299712	T	T	114299712	3	4	170	1	0	0	0	0	1	0	0	0	6027	101	4	5	1844	5	FOXP2	7	114299712	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	6900790	114299712	44838951	131	60858										
WNT2	7472	broad.mit.edu	37	chr7	116937856	116937856	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctgaagtcggccatggccagCcagcatgtcctgagagtaca	12	12	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:116937856C>G	uc003viz.2	-	4	963	c.663G>C	c.(661-663)TGG>TGC	p.W221C	WNT2_uc003vja.2_Missense_Mutation_p.W125C	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	221					atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		CCATGGCCAGCCAGCATGTCC	0.547													93	159	---	---	---	---	PASS	G	116937856	G	G	116937856	3	3	170	1	0	0	0	0	1	0	0	0	17383	740	26	4	427	4	WNT2	7	116937856	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	2638144	116937856	42200807	132	60859										
C7orf58	79974	broad.mit.edu	37	chr7	120884320	120884320	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgtgactggagagaaataacCtggcagccccacaactgcca	10	12	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:120884320C>A	uc003vjq.3	+	18	2685	c.2238C>A	c.(2236-2238)ACC>ACA	p.T746T	C7orf58_uc003vjs.3_Silent_p.T746T|C7orf58_uc003vjt.3_Silent_p.T526T	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	746						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					GAGAAATAACCTGGCAGCCCC	0.507													25	40	---	---	---	---	PASS	A	120884320	A	A	120884320	2	1	170	1	0	0	0	0	0	0	0	1	2405	668	24	3		3	C7orf58	7	120884320	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	3946464	120884320	38254343	133	60860										
CALD1	800	broad.mit.edu	37	chr7	134617933	134617933	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gctcccaagcagaagaatgcAaaatgacacagcagaaaatg	9	9	0	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:134617933A>G	uc003vrz.2	+	5	872	c.413A>G	c.(412-414)CAA>CGA	p.Q138R	CALD1_uc003vry.2_Missense_Mutation_p.Q138R|CALD1_uc003vsa.2_Missense_Mutation_p.Q138R|CALD1_uc003vsb.2_Missense_Mutation_p.Q138R|CALD1_uc010lmm.2_Missense_Mutation_p.Q138R|CALD1_uc011kpt.1_Intron|CALD1_uc003vsc.2_Missense_Mutation_p.Q132R|CALD1_uc003vsd.2_Missense_Mutation_p.Q132R|CALD1_uc011kpu.1_Missense_Mutation_p.Q143R|CALD1_uc011kpv.1_Missense_Mutation_p.Q2R|CALD1_uc003vse.2_Missense_Mutation_p.Q2R	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	138	Myosin and calmodulin-binding (By similarity).				cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						AGAAGAATGCAAAATGACACA	0.463													17	19	---	---	---	---	PASS	G	134617933	G	G	134617933	3	3	170	1	0	0	0	0	1	0	0	0	2581	130	5	5	480	5	CALD1	7	134617933	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	13733613	134617933	24520730	134	60861										
TRPV5	56302	broad.mit.edu	37	chr7	142612555	142612555	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccctgaagatgtctggaatcTggggagaggacggcaaagca	15	8	2	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:142612555T>A	uc003wby.1	-	10	1474	c.1210_splice	c.e10-1	p.I404_splice		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,						protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					GTCTGGAATCTGGGGAGAGGA	0.537													72	110	---	---	---	---	PASS	A	142612555	A	A	142612555	5	1	170	1	0	0	0	0	0	0	1	0	16596	1594	55	5	1005	5	TRPV5	7	142612555	Splice_Site	SNP	T	TCGA-66-2793-01A-01D-1267-08	7994622	142612555	16526108	135	60862										
OR6B1	135946	broad.mit.edu	37	chr7	143701233	143701233	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aacgtgatcatcatcctattGgtgctgcaaaatcggccact	8	11	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:143701233G>C	uc003wdt.1	+	1	144	c.144G>C	c.(142-144)TTG>TTC	p.L48F		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	48	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					TCATCCTATTGGTGCTGCAAA	0.498													13	43	---	---	---	---	PASS	C	143701233	C	C	143701233	3	2	170	1	0	0	0	0	1	0	0	0	11187	1339	47	4	146	4	OR6B1	7	143701233	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	1088678	143701233	15437430	136	60863										
SHH	6469	broad.mit.edu	37	chr7	155599110	155599110	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gtcgcggtcagacgtggtgaTgtccactgcgcggccctcgt	15	13	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr7:155599110T>G	uc003wmk.1	-	2	593	c.442A>C	c.(442-444)ATC>CTC	p.I148L	SHH_uc003wmh.1_RNA|SHH_uc003wmi.1_Missense_Mutation_p.I61L|SHH_uc003wmj.1_Missense_Mutation_p.I61L	NM_000193	NP_000184	Q15465	SHH_HUMAN	sonic hedgehog preproprotein	148					androgen metabolic process|axon guidance|branching involved in ureteric bud morphogenesis|CD4-positive or CD8-positive, alpha-beta T cell lineage commitment|embryonic digit morphogenesis|hindbrain development|intein-mediated protein splicing|lymphoid progenitor cell differentiation|metanephric mesenchymal cell proliferation involved in metanephros development|midbrain development|negative regulation of cell migration|negative regulation of kidney smooth muscle cell differentiation|negative regulation of ureter smooth muscle cell differentiation|negative thymic T cell selection|neural crest cell migration|neuroblast proliferation|patterning of blood vessels|positive regulation of alpha-beta T cell differentiation|positive regulation of immature T cell proliferation in thymus|positive regulation of kidney smooth muscle cell differentiation|positive regulation of mesenchymal cell proliferation involved in ureter development|positive regulation of T cell differentiation in thymus|positive regulation of ureter smooth muscle cell differentiation|positive thymic T cell selection|proteolysis|sclerotome development|stem cell development|thymus development|vasculogenesis|ventral midline development	cell surface|extracellular space|membrane raft|plasma membrane	calcium ion binding|laminin-1 binding|peptidase activity|signal transducer activity|zinc ion binding			central_nervous_system(3)|lung(1)	4	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00882)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GACGTGGTGATGTCCACTGCG	0.637													42	48	---	---	---	---	PASS	G	155599110	G	G	155599110	3	3	170	1	0	0	0	0	1	0	0	0	14279	1464	51	5	954	5	SHH	7	155599110	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	11897877	155599110	3539553	137	60864										
MYOM2	9172	broad.mit.edu	37	chr8	2092844	2092844	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggagaagatcccggacatggCcccgccccagcaagccaagc	12	16	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:2092844C>T	uc003wpx.3	+	37	4475	c.4337C>T	c.(4336-4338)GCC>GTC	p.A1446V	MYOM2_uc011kwi.1_Missense_Mutation_p.A871V	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1446					muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CCGGACATGGCCCCGCCCCAG	0.572													53	7	---	---	---	---	PASS	T	2092844	T	T	2092844	3	4	170	1	0	0	0	0	1	0	0	0	10092	739	26	3	4479	3	MYOM2	8	2092844	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08		2092844	144271178	138	60865										
STMN4	81551	broad.mit.edu	37	chr8	27098712	27098712	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	acttcaaaggattggcccgaGgtgcatttgttcagctcgat	11	9	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:27098712G>C	uc003xfk.2	-	4	291	c.177C>G	c.(175-177)ACC>ACG	p.T59T	STMN4_uc003xfj.2_Silent_p.T86T|STMN4_uc011lai.1_Silent_p.T86T|STMN4_uc011laj.1_Silent_p.T50T|STMN4_uc011lak.1_Silent_p.T86T|STMN4_uc010luo.2_Silent_p.T59T			Q9H169	STMN4_HUMAN	RecName: Full=Stathmin-4; AltName: Full=Stathmin-like protein B3;          Short=RB3;	59					intracellular signal transduction					large_intestine(1)|pancreas(1)	2		Ovarian(32;0.00167)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0214)|Epithelial(17;9.82e-10)|Colorectal(74;0.142)		ATTGGCCCGAGGTGCATTTGT	0.577													43	151	---	---	---	---	PASS	C	27098712	C	C	27098712	2	2	170	1	0	0	0	0	0	0	0	1	15310	987	35	4		4	STMN4	8	27098712	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	25005868	27098712	119265310	139	60866										
GTF2E2	2961	broad.mit.edu	37	chr8	30469975	30469975	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tacttcccatctattacttcAattttgggattgttgactaa	5	8	2	1	rs139448873		TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:30469975A>G	uc003xig.2	-	5	643	c.390T>C	c.(388-390)ATT>ATC	p.I130I		NM_002095	NP_002086	P29084	T2EB_HUMAN	general transcription factor IIE, polypeptide 2,	130	TFIIE beta.				regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	transcription factor TFIIE complex	DNA binding|protein binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.113)|Kidney(114;0.135)		CTATTACTTCAATTTTGGGAT	0.323													18	18	---	---	---	---	PASS	G	30469975	G	G	30469975	2	3	170	1	0	0	0	0	0	0	0	1	6857	126	5	5		5	GTF2E2	8	30469975	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	3371263	30469975	115894047	140	60867										
KCNU1	157855	broad.mit.edu	37	chr8	36663865	36663865	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tctttaccatcccaccaaccTttatttcttattatttgaag	2	11	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:36663865T>C	uc010lvw.2	+	5	634	c.547T>C	c.(547-549)TTT>CTT	p.F183L	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	183	Helical; Name=Segment S3; (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		CCCACCAACCTTTATTTCTTA	0.348													4	10	---	---	---	---	PASS	C	36663865	C	C	36663865	3	2	170	1	0	0	0	0	1	0	0	0	8093	1609	56	5	565	5	KCNU1	8	36663865	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	6193890	36663865	109700157	141	60868										
NCOA2	10499	broad.mit.edu	37	chr8	71069263	71069263	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgcctgacacatggttcattCccccagaaccaccaaacctg	6	16	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:71069263C>T	uc003xyn.1	-	11	1499	c.1337G>A	c.(1336-1338)GGA>GAA	p.G446E		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	446					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			ATGGTTCATTCCCCCAGAACC	0.498			T	RUNXBP2	AML								60	56	---	---	---	---	PASS	T	71069263	T	T	71069263	3	4	170	1	0	0	0	0	1	0	0	0	10229	855	30	2	3109	2	NCOA2	8	71069263	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	34405398	71069263	75294759	142	60869										
ZFHX4	79776	broad.mit.edu	37	chr8	77618098	77618098	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agccactcctcaccagcatgGctttaccccgagtactcctg	7	17	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:77618098G>A	uc003yav.2	+	2	2162	c.1775G>A	c.(1774-1776)GGC>GAC	p.G592D	ZFHX4_uc003yat.1_Missense_Mutation_p.G592D|ZFHX4_uc003yau.1_Missense_Mutation_p.G592D|ZFHX4_uc003yaw.1_Missense_Mutation_p.G592D	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	592						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CACCAGCATGGCTTTACCCCG	0.582										HNSCC(33;0.089)			58	53	---	---	---	---	PASS	A	77618098	A	A	77618098	3	1	170	1	0	0	0	0	1	0	0	0	17632	1203	42	3	1777	3	ZFHX4	8	77618098	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	6548835	77618098	68745924	143	60870										
ZFHX4	79776	broad.mit.edu	37	chr8	77766431	77766431	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctctcccccttctcaaggcaCcaaaccagccctgccattag	5	19	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:77766431C>A	uc003yav.2	+	10	7526	c.7139C>A	c.(7138-7140)ACC>AAC	p.T2380N	ZFHX4_uc003yau.1_Missense_Mutation_p.T2425N|ZFHX4_uc003yaw.1_Missense_Mutation_p.T2380N	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2380	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCTCAAGGCACCAAACCAGCC	0.433										HNSCC(33;0.089)			4	4	---	---	---	---	PASS	A	77766431	A	A	77766431	3	1	170	1	0	0	0	0	1	0	0	0	17632	507	18	3	7308	3	ZFHX4	8	77766431	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	148333	77766431	68597591	144	60871										
CNGB3	54714	broad.mit.edu	37	chr8	87683244	87683244	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cttgtagagggctgttctttGacgcattcttttcaccaggt	10	9	3	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:87683244G>T	uc003ydx.2	-	4	467	c.421C>A	c.(421-423)CAA>AAA	p.Q141K	CNGB3_uc010maj.2_Missense_Mutation_p.Q3K	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	141	Cytoplasmic (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						GCTGTTCTTTGACGCATTCTT	0.473													182	254	---	---	---	---	PASS	T	87683244	T	T	87683244	3	4	170	1	0	0	0	0	1	0	0	0	3601	1299	45	2	2068	2	CNGB3	8	87683244	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	9916813	87683244	58680778	145	60872										
VPS13B	157680	broad.mit.edu	37	chr8	100146904	100146904	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agttattacagtccacagaaAgtaaaatctaaagaagtatt	6	5	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:100146904A>T	uc003yiv.2	+	9	1362	c.1251A>T	c.(1249-1251)AAA>AAT	p.K417N	VPS13B_uc003yiw.2_Missense_Mutation_p.K417N|VPS13B_uc003yit.2_Missense_Mutation_p.K417N|VPS13B_uc003yiu.1_Missense_Mutation_p.K417N|VPS13B_uc003yix.1_5'Flank	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	417					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			GTCCACAGAAAGTAAAATCTA	0.254													15	18	---	---	---	---	PASS	T	100146904	T	T	100146904	3	4	170	1	0	0	0	0	1	0	0	0	17187	69	3	5	1323	5	VPS13B	8	100146904	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	12463660	100146904	46217118	146	60873										
PABPC1	26986	broad.mit.edu	37	chr8	101717188	101717188	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	actctggagactcgagcataTgaagaagttctgaattatca	9	7	3	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:101717188T>G	uc003yjs.1	-	13	2288	c.1784A>C	c.(1783-1785)CAT>CCT	p.H595P	PABPC1_uc011lhc.1_Missense_Mutation_p.H563P|PABPC1_uc011lhd.1_Missense_Mutation_p.H550P|PABPC1_uc003yjt.1_Missense_Mutation_p.H592P|PABPC1_uc003yju.2_RNA	NM_002568	NP_002559	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	595	PABC.				mRNA polyadenylation|mRNA stabilization|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|translation	catalytic step 2 spliceosome|cytosol	nucleotide binding|poly(A) RNA binding|protein C-terminus binding|translation activator activity				0	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			CTCGAGCATATGAAGAAGTTC	0.408													4	102	---	---	---	---	PASS	G	101717188	G	G	101717188	3	3	170	1	0	0	0	0	1	0	0	0	11363	1464	51	5	134	5	PABPC1	8	101717188	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	1570284	101717188	44646834	147	60874										
ABRA	137735	broad.mit.edu	37	chr8	107773438	107773438	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aacctggatcttgccatctcGtctgtggcgagccattgtgc	11	12	3	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:107773438G>C	uc003ymm.3	-	2	1027	c.973C>G	c.(973-975)CGA>GGA	p.R325G		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	325					positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			TTGCCATCTCGTCTGTGGCGA	0.473													36	51	---	---	---	---	PASS	C	107773438	C	C	107773438	3	2	170	1	0	0	0	0	1	0	0	0	100	1153	40	4	176	4	ABRA	8	107773438	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	6056250	107773438	38590584	148	60875										
PKHD1L1	93035	broad.mit.edu	37	chr8	110530513	110530513	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgttgaaattcacactgccaCagtgatatttgtttctttcc	6	9	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:110530513C>T	uc003yne.2	+	73	11911	c.11807C>T	c.(11806-11808)ACA>ATA	p.T3936I		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3936	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CACACTGCCACAGTGATATTT	0.368										HNSCC(38;0.096)			26	32	---	---	---	---	PASS	T	110530513	T	T	110530513	3	4	170	1	0	0	0	0	1	0	0	0	11972	478	17	3	12097	3	PKHD1L1	8	110530513	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	2757075	110530513	35833509	149	60876										
ATAD2	29028	broad.mit.edu	37	chr8	124384043	124384043	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	actttgaacgatgtttctagCcctcaatgaccgagtaactg	8	10	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:124384043C>T	uc003yqh.3	-	4	511	c.403G>A	c.(403-405)GCT>ACT	p.A135T	ATAD2_uc011lii.1_5'UTR|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.A135T	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			ATGTTTCTAGCCCTCAATGAC	0.318													11	15	---	---	---	---	PASS	T	124384043	T	T	124384043	3	4	170	1	0	0	0	0	1	0	0	0	1071	739	26	3	3869	3	ATAD2	8	124384043	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	13853530	124384043	21979979	150	60877										
FAM135B	51059	broad.mit.edu	37	chr8	139164259	139164259	+	Frame_Shift_Del	DEL	C	-	-													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggtctgctccagcatctgttCcagagtcaccacaaagttga							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:139164259delC	uc003yuy.2	-	13	2630	c.2459delG	c.(2458-2460)GGAfs	p.G820fs	FAM135B_uc003yux.2_Frame_Shift_Del_p.G721fs|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Frame_Shift_Del_p.G382fs|FAM135B_uc003yvb.2_Frame_Shift_Del_p.G382fs	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	820										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)			AGCATCTGTTCCAGAGTCACC	0.517										HNSCC(54;0.14)			79	43	---	---	---	---		-	139164259	-	-	139164259	7	5	170	1	0	1	0	1	0	0	0	0	5449	855	30	0	1793	0	FAM135B	8	139164259	Frame_Shift_Del	DEL	C	TCGA-66-2793-01A-01D-1267-08	14780216	139164259	7199763	151	60878										
KCNK9	51305	broad.mit.edu	37	chr8	140630833	140630833	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	catgctgttgcggtttccggCgagggatgccctctcttcag	13	12	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:140630833C>T	uc003yvf.1	-	2	857	c.793G>A	c.(793-795)GCC>ACC	p.A265T	KCNK9_uc003yvg.1_Missense_Mutation_p.A265T|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	265	Cytoplasmic (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			CGGTTTCCGGCGAGGGATGCC	0.632													31	86	---	---	---	---	PASS	T	140630833	T	T	140630833	3	4	170	1	0	0	0	0	1	0	0	0	8072	768	27	1	335	1	KCNK9	8	140630833	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	1466574	140630833	5733189	152	60879										
CYP11B2	1585	broad.mit.edu	37	chr8	143996633	143996633	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cacatctgggttcagccgcaAtcggttgaagcgccattcag	11	12	3	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:143996633A>G	uc003yxk.1	-	3	427	c.424T>C	c.(424-426)TTG>CTG	p.L142L		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	142					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	TTCAGCCGCAATCGGTTGAAG	0.622									Familial_Hyperaldosteronism_type_I				14	23	---	---	---	---	PASS	G	143996633	G	G	143996633	2	3	170	1	0	0	0	0	0	0	0	1	4146	98	4	5		5	CYP11B2	8	143996633	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	3365800	143996633	2367389	153	60880										
GLI4	2738	broad.mit.edu	37	chr8	144358475	144358475	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccacacgggcgagaagccctAcgcctgccacgagtgcggca	13	16	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:144358475A>G	uc003yxx.2	+	4	717	c.632A>G	c.(631-633)TAC>TGC	p.Y211C	ZFP41_uc003yxv.2_RNA	NM_138465	NP_612474	P10075	GLI4_HUMAN	GLI-Kruppel family member GLI4	211	C2H2-type 2.					nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			GAGAAGCCCTACGCCTGCCAC	0.667													18	22	---	---	---	---	PASS	G	144358475	G	G	144358475	3	3	170	1	0	0	0	0	1	0	0	0	6440	391	14	5	642	5	GLI4	8	144358475	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	361842	144358475	2005547	154	60881										
PLEC	5339	broad.mit.edu	37	chr8	144993528	144993528	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aagtagccgcgctggtaggcCacgtccacaggcacgcggtg	15	13	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:144993528C>A	uc003zaf.1	-	32	11042	c.10872G>T	c.(10870-10872)GTG>GTT	p.V3624V	PLEC_uc003zab.1_Silent_p.V3487V|PLEC_uc003zac.1_Silent_p.V3491V|PLEC_uc003zad.2_Silent_p.V3487V|PLEC_uc003zae.1_Silent_p.V3455V|PLEC_uc003zag.1_Silent_p.V3465V|PLEC_uc003zah.2_Silent_p.V3473V|PLEC_uc003zaj.2_Silent_p.V3514V	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3624	Globular 2.|Plectin 15.				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						GCTGGTAGGCCACGTCCACAG	0.667													85	191	---	---	---	---	PASS	A	144993528	A	A	144993528	2	1	170	1	0	0	0	0	0	0	0	1	12052	581	21	3		3	PLEC	8	144993528	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	635053	144993528	1370494	155	60882										
OPLAH	26873	broad.mit.edu	37	chr8	145109557	145109557	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggagtgggggggcatggagcCtggtgtgatgcccccgatgt	20	8	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr8:145109557C>A	uc003zar.3	-	19	2675	c.2593G>T	c.(2593-2595)GGC>TGC	p.G865C	OPLAH_uc003zas.1_Missense_Mutation_p.R139M	NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	865							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		L-Glutamic Acid(DB00142)	GGCATGGAGCCTGGTGTGATG	0.637													40	67	---	---	---	---	PASS	A	145109557	A	A	145109557	3	1	170	1	0	0	0	0	1	0	0	0	10876	681	24	3	1311	3	OPLAH	8	145109557	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	116029	145109557	1254465	156	60883										
INSL4	3641	broad.mit.edu	37	chr9	5231522	5231522	+	Translation_Start_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aacaggagagttcaggtccaGgatggccagcctgttccggt	14	10	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr9:5231522G>T	uc003ziy.2	+	1	104	c.-1G>T	c.(-3-1)CAGGA>CATGA			NM_002195	NP_002186	Q14641	INSL4_HUMAN	insulin-like 4 precursor						cell proliferation|cell-cell signaling|female pregnancy|multicellular organismal development|signal transduction	extracellular space|soluble fraction	hormone activity|insulin-like growth factor receptor binding				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0201)|Lung(218;0.14)		TTCAGGTCCAGGATGGCCAGC	0.567													15	4	---	---	---	---	PASS	T	5231522	T	T	5231522	1	4	170	1	0	0	0	0	0	0	0	0	7768	1015	35	3		3	INSL4	9	5231522	Translation_Start_Site	SNP	G	TCGA-66-2793-01A-01D-1267-08		5231522	135981909	157	60884										
TOPORS	10210	broad.mit.edu	37	chr9	32543732	32543732	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttctaactcgagcaccagcaCgataaagagttcgtctaaaa	7	10	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr9:32543732C>A	uc003zrb.2	-	3	958	c.791G>T	c.(790-792)CGT>CTT	p.R264L	TOPORS_uc003zrc.2_Missense_Mutation_p.R197L	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	264	Required for DNA-binding.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		AGCACCAGCACGATAAAGAGT	0.403													40	15	---	---	---	---	PASS	A	32543732	A	A	32543732	3	1	170	1	0	0	0	0	1	0	0	0	16367	536	19	1	2350	1	TOPORS	9	32543732	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	27312210	32543732	108669699	158	60885										
ZCCHC6	79670	broad.mit.edu	37	chr9	88924922	88924922	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aagcagataaaagccttgtgTtatgaagggcctgttaaaag	11	5	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr9:88924922T>C	uc004aoq.2	-	19	3604	c.3389A>G	c.(3388-3390)AAC>AGC	p.N1130S	ZCCHC6_uc010mqe.2_Missense_Mutation_p.N68S|ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.N894S|ZCCHC6_uc004aou.2_Missense_Mutation_p.N1130S	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	1130					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						AAGCCTTGTGTTATGAAGGGC	0.303													13	0	---	---	---	---	PASS	C	88924922	C	C	88924922	3	2	170	1	0	0	0	0	1	0	0	0	17589	1725	60	5	1134	5	ZCCHC6	9	88924922	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	56381190	88924922	52288509	159	60886										
ZCCHC6	79670	broad.mit.edu	37	chr9	88961294	88961294	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagctccttcgttgaaagtaCagactcatcgatcacagggc	9	12	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr9:88961294C>G	uc004aoq.2	-	3	837	c.622G>C	c.(622-624)GTA>CTA	p.V208L	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.V208L|ZCCHC6_uc004aou.2_Missense_Mutation_p.V208L|ZCCHC6_uc004aov.2_Missense_Mutation_p.V208L|ZCCHC6_uc004aow.2_Missense_Mutation_p.V208L	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	208					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						GTTGAAAGTACAGACTCATCG	0.463													3	81	---	---	---	---	PASS	G	88961294	G	G	88961294	3	3	170	1	0	0	0	0	1	0	0	0	17589	478	17	4	3965	4	ZCCHC6	9	88961294	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	36372	88961294	52252137	160	60887										
NFIL3	4783	broad.mit.edu	37	chr9	94172709	94172709	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctcccagtgcaattagtttgTtctctaaaaccaggtcattc	6	11	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr9:94172709T>C	uc004arh.2	-	2	703	c.308A>G	c.(307-309)AAC>AGC	p.N103S		NM_005384	NP_005375	Q16649	NFIL3_HUMAN	nuclear factor, interleukin 3 regulated	103	Leucine-zipper.				circadian rhythm|immune response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						AATTAGTTTGTTCTCTAAAAC	0.383													14	174	---	---	---	---	PASS	C	94172709	C	C	94172709	3	2	170	1	0	0	0	0	1	0	0	0	10373	1725	60	5	1084	5	NFIL3	9	94172709	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	5211415	94172709	47040722	161	60888										
FAM22F	54754	broad.mit.edu	37	chr9	97088171	97088171	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gagccgtgaacacagacaggGaggtgccagggttcacggtc	16	10	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr9:97088171G>T	uc004aup.1	-	2	83	c.62C>A	c.(61-63)TCC>TAC	p.S21Y		NM_017561	NP_060031	A1L443	FA22F_HUMAN	hypothetical protein LOC54754	21											0		Acute lymphoblastic leukemia(62;0.136)				CACAGACAGGGAGGTGCCAGG	0.642													23	2	---	---	---	---	PASS	T	97088171	T	T	97088171	3	4	170	1	0	0	0	0	1	0	0	0	5545	1174	41	2	2232	2	FAM22F	9	97088171	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	2915462	97088171	44125260	162	60889										
INVS	27130	broad.mit.edu	37	chr9	103035213	103035213	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tccagttcatgttggagcacGgtgccctgtccatcgcagcc	11	14	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr9:103035213G>T	uc004bap.1	+	12	1851	c.1639G>T	c.(1639-1641)GGT>TGT	p.G547C	INVS_uc010mta.1_Missense_Mutation_p.G451C|INVS_uc011lve.1_Missense_Mutation_p.G451C|INVS_uc004bao.1_Missense_Mutation_p.G547C|INVS_uc004baq.1_Missense_Mutation_p.G451C|INVS_uc004bar.1_Missense_Mutation_p.G451C|INVS_uc010mtb.1_Missense_Mutation_p.G221C	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	547	ANK 16.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				GTTGGAGCACGGTGCCCTGTC	0.463													182	43	---	---	---	---	PASS	T	103035213	T	T	103035213	3	4	170	1	0	0	0	0	1	0	0	0	7787	1116	39	1	1681	1	INVS	9	103035213	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	5947042	103035213	38178218	163	60890										
COL27A1	85301	broad.mit.edu	37	chr9	117027703	117027703	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctttaccttgtctctgcaggGcatcccgggtccctcaggcc	10	16	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr9:117027703G>A	uc011lxl.1	+	32	3341	c.3341G>A	c.(3340-3342)GGC>GAC	p.G1114D	COL27A1_uc004bii.2_RNA	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1114	Pro-rich.|Collagen-like 8.|Triple-helical region.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						TCTCTGCAGGGCATCCCGGGT	0.592													3	50	---	---	---	---	PASS	A	117027703	A	A	117027703	3	1	170	1	0	0	0	0	1	0	0	0	3685	1217	42	3	3467	3	COL27A1	9	117027703	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	13992490	117027703	24185728	164	60891										
DAB2IP	153090	broad.mit.edu	37	chr9	124535710	124535710	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gggccccagtacccgcctgaGgcagcagtcctcttcctcca	10	18	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr9:124535710G>C	uc004bln.2	+	12	2888	c.2819G>C	c.(2818-2820)AGG>ACG	p.R940T	DAB2IP_uc004blo.2_Missense_Mutation_p.R844T|DAB2IP_uc004blp.2_Missense_Mutation_p.R373T	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	968					activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						ACCCGCCTGAGGCAGCAGTCC	0.652													9	1	---	---	---	---	PASS	C	124535710	C	C	124535710	3	2	170	1	0	0	0	0	1	0	0	0	4219	1000	35	4	2865	4	DAB2IP	9	124535710	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	7508007	124535710	16677721	165	60892										
GPR107	57720	broad.mit.edu	37	chr9	132887199	132887199	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctttcttctctctagctgctAttaacttagcaaagctgaaa	5	10	3	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr9:132887199A>G	uc004bze.2	+	17	1683	c.1456A>G	c.(1456-1458)ATT>GTT	p.I486V	GPR107_uc004bzb.2_Missense_Mutation_p.I249V|GPR107_uc004bzc.3_RNA|GPR107_uc011mbx.1_Missense_Mutation_p.I457V|GPR107_uc004bzd.2_Missense_Mutation_p.I438V	NM_001136557	NP_001130029	Q5VW38	GP107_HUMAN	G protein-coupled receptor 107 isoform 1	486						integral to membrane				upper_aerodigestive_tract(1)	1		Ovarian(14;0.000531)				TCTAGCTGCTATTAACTTAGC	0.328													6	0	---	---	---	---	PASS	G	132887199	G	G	132887199	3	3	170	1	0	0	0	0	1	0	0	0	6623	449	16	5	1522	5	GPR107	9	132887199	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	8351489	132887199	8326232	166	60893										
NOTCH1	4851	broad.mit.edu	37	chr9	139402411	139402424	+	Frame_Shift_Del	DEL	CAGGAGTAGCCGCC	-	-													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	taggagggacccccaccttgCaggagtagccgcccaggtag							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr9:139402411_139402424delCAGGAGTAGCCGCC	uc004chz.2	-	21	3493_3506	c.3493_3506delGGCGGCTACTCCTG	c.(3493-3507)GGCGGCTACTCCTGCfs	p.G1165fs	NOTCH1_uc004cia.1_Frame_Shift_Del_p.G395fs	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1165_1169	Extracellular (Potential).|EGF-like 30.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CCCCACCTTGCAGGAGTAGCCGCCCAGGTAGTCC	0.664			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			31	20	---	---	---	---		-	139402424	-	-	139402411	7	5	170	1	0	1	0	1	0	0	0	0	10547	710	25	0	4217	0	NOTCH1	9	139402411	Frame_Shift_Del	DEL	CAGGAGTAGCCGCC	TCGA-66-2793-01A-01D-1267-08	6515212	139402411	1811020	167	60894										
GATA3	2625	broad.mit.edu	37	chr10	8100348	8100348	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aagccctgggcagccaccacAccgcctccccctggaatctc	8	20	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:8100348A>T	uc001ika.2	+	3	879	c.322A>T	c.(322-324)ACC>TCC	p.T108S	GATA3_uc001ijz.2_Missense_Mutation_p.T108S	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	108					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						CAGCCACCACACCGCCTCCCC	0.692			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						41	22	---	---	---	---	PASS	T	8100348	T	T	8100348	3	4	170	1	0	0	0	0	1	0	0	0	6255	159	6	5	328	5	GATA3	10	8100348	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08		8100348	127434399	168	60895										
CUBN	8029	broad.mit.edu	37	chr10	16981129	16981129	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tttcccatgagttcccacaaTattatcattgccaaatacta	3	11	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:16981129T>C	uc001ioo.2	-	38	5618	c.5566A>G	c.(5566-5568)ATT>GTT	p.I1856V		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1856	CUB 13.				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)	GTTCCCACAATATTATCATTG	0.398													13	5	---	---	---	---	PASS	C	16981129	C	C	16981129	3	2	170	1	0	0	0	0	1	0	0	0	4051	1406	49	5	5425	5	CUBN	10	16981129	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	8880781	16981129	118553618	169	60896										
ARMC3	219681	broad.mit.edu	37	chr10	23244786	23244786	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttggagctgtggaacctttaActaagctactcacccatgaa	8	10	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:23244786A>T	uc001irm.3	+	4	300	c.217A>T	c.(217-219)ACT>TCT	p.T73S	ARMC3_uc010qcv.1_Missense_Mutation_p.T73S|ARMC3_uc010qcw.1_5'UTR|ARMC3_uc001irn.1_5'UTR	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	73	ARM 2.						binding				0						GGAACCTTTAACTAAGCTACT	0.348													5	2	---	---	---	---	PASS	T	23244786	T	T	23244786	3	4	170	1	0	0	0	0	1	0	0	0	952	43	2	5	227	5	ARMC3	10	23244786	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	6263657	23244786	112289961	170	60897										
GPR158	57512	broad.mit.edu	37	chr10	25887945	25887945	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gctgtagcatcaaaaacagaGaatgaaaatctcaaccaaat	6	8	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:25887945G>A	uc001isj.2	+	11	3450	c.3390G>A	c.(3388-3390)GAG>GAA	p.E1130E	GPR158_uc001isk.2_Silent_p.E505E	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1130	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						CAAAAACAGAGAATGAAAATC	0.473													42	9	---	---	---	---	PASS	A	25887945	A	A	25887945	2	1	170	1	0	0	0	0	0	0	0	1	6663	933	33	2		2	GPR158	10	25887945	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	2643159	25887945	109646802	171	60898										
ZEB1	6935	broad.mit.edu	37	chr10	31749974	31749974	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tttgtattacagttacaaatTataatactgtggtagaaaca	6	4	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:31749974T>A	uc001ivs.3	+	2	130	c.67T>A	c.(67-69)TAT>AAT	p.Y23N	ZEB1_uc001ivr.3_5'UTR|ZEB1_uc010qee.1_5'UTR|ZEB1_uc010qef.1_5'UTR|ZEB1_uc009xlh.1_RNA|ZEB1_uc009xli.1_RNA|ZEB1_uc009xlj.1_Missense_Mutation_p.Y23N|ZEB1_uc010qeg.1_Intron|ZEB1_uc009xlk.1_5'UTR|ZEB1_uc001ivt.3_5'UTR|ZEB1_uc001ivu.3_Missense_Mutation_p.Y23N|ZEB1_uc001ivv.3_Missense_Mutation_p.Y23N|ZEB1_uc010qeh.1_Intron|ZEB1_uc009xll.2_RNA|ZEB1_uc009xlm.1_RNA|ZEB1_uc009xln.1_RNA|ZEB1_uc009xlo.1_Missense_Mutation_p.Y6N|ZEB1_uc009xlp.2_Missense_Mutation_p.Y6N	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	23					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				AGTTACAAATTATAATACTGT	0.303													8	2	---	---	---	---	PASS	A	31749974	A	A	31749974	3	1	170	1	0	0	0	0	1	0	0	0	17620	1754	61	5	84	5	ZEB1	10	31749974	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	5862029	31749974	103784773	172	60899										
ZNF22	7570	broad.mit.edu	37	chr10	45499441	45499441	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcagggtgaagactcacttaCcctcttggaaagctggtaca	10	10	3	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:45499441C>G	uc001jbw.2	+	2	868	c.625C>G	c.(625-627)CCC>GCC	p.P209A	uc001jbx.1_RNA	NM_006963	NP_008894	P17026	ZNF22_HUMAN	zinc finger protein 22 (KOX 15)	209					odontogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|plasma membrane	DNA binding|zinc ion binding			breast(1)|kidney(1)	2		Prostate(175;0.0352)|all_neural(218;0.202)				GACTCACTTACCCTCTTGGAA	0.438													38	1	---	---	---	---	PASS	G	45499441	G	G	45499441	3	3	170	1	0	0	0	0	1	0	0	0	17771	507	18	4	627	4	ZNF22	10	45499441	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	13749467	45499441	90035306	173	60900										
IPMK	253430	broad.mit.edu	37	chr10	59955890	59955890	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	taaatgctttagcccataaaCatatccctcatctattgtgt	4	10	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:59955890C>T	uc001jkb.2	-	6	1521	c.1198G>A	c.(1198-1200)GTT>ATT	p.V400I		NM_152230	NP_689416	Q8NFU5	IPMK_HUMAN	inositol polyphosphate multikinase	400						nucleus	ATP binding|inositol trisphosphate 6-kinase activity			ovary(1)	1						AGCCCATAAACATATCCCTCA	0.393													43	47	---	---	---	---	PASS	T	59955890	T	T	59955890	3	4	170	1	0	0	0	0	1	0	0	0	7792	478	17	3	56	3	IPMK	10	59955890	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	14456449	59955890	75578857	174	60901										
CCAR1	55749	broad.mit.edu	37	chr10	70513633	70513633	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agttgtgacatgatggaactAaggcgccgttatcaaaattt	10	6	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:70513633A>G	uc001joo.2	+	11	1262	c.1143A>G	c.(1141-1143)CTA>CTG	p.L381L	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Silent_p.L186L|CCAR1_uc009xpx.1_Silent_p.L355L|CCAR1_uc001jon.1_Silent_p.L327L|CCAR1_uc010qiz.1_Silent_p.L366L|CCAR1_uc010qja.1_Silent_p.L366L|CCAR1_uc010qjb.1_RNA|SNORD98_uc001jop.1_5'Flank	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	381					apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						TGATGGAACTAAGGCGCCGTT	0.353													75	94	---	---	---	---	PASS	G	70513633	G	G	70513633	2	3	170	1	0	0	0	0	0	0	0	1	2730	349	13	5		5	CCAR1	10	70513633	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	10557743	70513633	65021114	175	60902										
BMPR1A	657	broad.mit.edu	37	chr10	88676951	88676951	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aagttggtaaaggccgatatGgagaagtatggatgggcaaa	15	3	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:88676951G>C	uc001kdy.2	+	9	1284	c.736G>C	c.(736-738)GGA>CGA	p.G246R		NM_004329	NP_004320	P36894	BMR1A_HUMAN	bone morphogenetic protein receptor, type IA	246	Cytoplasmic (Potential).|Protein kinase.|ATP (By similarity).				BMP signaling pathway|immune response|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	integral to membrane|plasma membrane	ATP binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta receptor activity			lung(3)|large_intestine(1)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	8						AGGCCGATATGGAGAAGTATG	0.428			Mis|N|F			gastrointestinal polyps			Hereditary_Mixed_Polyposis_syndrome_type_2|Juvenile_Polyposis				11	14	---	---	---	---	PASS	C	88676951	C	C	88676951	3	2	170	1	0	0	0	0	1	0	0	0	1469	1349	47	4	762	4	BMPR1A	10	88676951	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	18163318	88676951	46857796	176	60903										
SLIT1	6585	broad.mit.edu	37	chr10	98808756	98808756	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgatctgcccgatgcgcttgTtggcgaggcgccggggactg	17	11	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:98808756T>A	uc001kmw.2	-	14	1673	c.1421A>T	c.(1420-1422)AAC>ATC	p.N474I	SLIT1_uc009xvh.1_Missense_Mutation_p.N484I	NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	474	LRRCT 2.				axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		GATGCGCTTGTTGGCGAGGCG	0.438													120	24	---	---	---	---	PASS	A	98808756	A	A	98808756	3	1	170	1	0	0	0	0	1	0	0	0	14739	1725	60	5	3279	5	SLIT1	10	98808756	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	10131805	98808756	36725991	177	60904										
RRP12	23223	broad.mit.edu	37	chr10	99130284	99130284	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgcaaaagcgttcttccgtgCgcccaccgacacctccttgg	9	16	1	0	rs145302632		TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:99130284C>T	uc001knf.2	-	23	2756	c.2617G>A	c.(2617-2619)GCA>ACA	p.A873T	RRP12_uc009xvl.2_5'UTR|RRP12_uc009xvm.2_Missense_Mutation_p.A591T|RRP12_uc010qou.1_Missense_Mutation_p.A812T|RRP12_uc009xvn.2_Missense_Mutation_p.A773T	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	873						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		TTCTTCCGTGCGCCCACCGAC	0.607													32	11	---	---	---	---	PASS	T	99130284	T	T	99130284	3	4	170	1	0	0	0	0	1	0	0	0	13686	768	27	1	1324	1	RRP12	10	99130284	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	321528	99130284	36404463	178	60905										
GBF1	8729	broad.mit.edu	37	chr10	104140082	104140082	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gctcaccatcttggacttcaTggacaagtacatgcacgcag	9	12	3	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:104140082T>C	uc001kux.1	+	37	5192	c.4952T>C	c.(4951-4953)ATG>ACG	p.M1651T	GBF1_uc001kuy.1_Missense_Mutation_p.M1647T|GBF1_uc001kuz.1_Missense_Mutation_p.M1648T	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1651					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		TTGGACTTCATGGACAAGTAC	0.572													108	17	---	---	---	---	PASS	C	104140082	C	C	104140082	3	2	170	1	0	0	0	0	1	0	0	0	6271	1464	51	5	5094	5	GBF1	10	104140082	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	5009798	104140082	31394665	179	60906										
NEURL	9148	broad.mit.edu	37	chr10	105344807	105344807	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaattctgggccgtgtgccgCgtgcccgggcccctgcacag	15	15	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr10:105344807C>T	uc001kxh.2	+	4	1574	c.1164C>T	c.(1162-1164)CGC>CGT	p.R388R		NM_004210	NP_004201	O76050	NEU1A_HUMAN	neuralized-like	388	NHR 2.				nervous system development	perinuclear region of cytoplasm	zinc ion binding				0				Epithelial(162;2.12e-09)|all cancers(201;6.99e-08)|BRCA - Breast invasive adenocarcinoma(275;0.125)		CCGTGTGCCGCGTGCCCGGGC	0.731													8	4	---	---	---	---	PASS	T	105344807	T	T	105344807	2	4	170	1	0	0	0	0	0	0	0	1	10345	755	27	1		1	NEURL	10	105344807	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	1204725	105344807	30189940	180	60907										
PHRF1	57661	broad.mit.edu	37	chr11	608235	608235	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aggagcccacagagagccagGgcctggctgcccggctgcgg	17	14	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:608235G>T	uc001lqe.2	+	14	2910	c.2779G>T	c.(2779-2781)GGC>TGC	p.G927C	PHRF1_uc010qwc.1_Missense_Mutation_p.G926C|PHRF1_uc010qwd.1_Missense_Mutation_p.G925C|PHRF1_uc010qwe.1_Missense_Mutation_p.G923C|PHRF1_uc009ybz.1_Missense_Mutation_p.G717C|PHRF1_uc009yca.1_RNA	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	927							RNA polymerase binding|zinc ion binding				0						AGAGAGCCAGGGCCTGGCTGC	0.697													19	20	---	---	---	---	PASS	T	608235	T	T	608235	3	4	170	1	0	0	0	0	1	0	0	0	11861	1232	43	3	2826	3	PHRF1	11	608235	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08		608235	134398281	181	60908										
MUC6	4588	broad.mit.edu	37	chr11	1016682	1016682	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaacggtgcctgttggcgttGagtggatggaggcagaagtg	19	5	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:1016682G>A	uc001lsw.2	-	31	6170	c.6119C>T	c.(6118-6120)TCA>TTA	p.S2040L		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2040	Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGTTGGCGTTGAGTGGATGGA	0.567													69	614	---	---	---	---	PASS	A	1016682	A	A	1016682	3	1	170	1	0	0	0	0	1	0	0	0	9980	1294	45	2	1212	2	MUC6	11	1016682	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	408447	1016682	133989834	182	60909										
MUC2	4583	broad.mit.edu	37	chr11	1097313	1097313	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcctacaatggcctgtccttCtccgtcaggctgccctacca	7	17	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:1097313C>T	uc001lsx.1	+	38	13842	c.13815C>T	c.(13813-13815)TTC>TTT	p.F4605F		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4605	VWFD 4.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	GCCTGTCCTTCTCCGTCAGGC	0.627													20	39	---	---	---	---	PASS	T	1097313	T	T	1097313	2	4	170	1	0	0	0	0	0	0	0	1	9975	912	32	2		2	MUC2	11	1097313	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	80631	1097313	133909203	183	60910										
OR52W1	120787	broad.mit.edu	37	chr11	6220626	6220626	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggcagtggtgtggatagactCcacactgcaccagcccatgt	12	12	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:6220626C>A	uc010qzz.1	+	1	173	c.173C>A	c.(172-174)TCC>TAC	p.S58Y		NM_001005178	NP_001005178	Q6IF63	O52W1_HUMAN	olfactory receptor, family 52, subfamily W,	58	Cytoplasmic (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)		TGGATAGACTCCACACTGCAC	0.587													25	14	---	---	---	---	PASS	A	6220626	A	A	6220626	3	1	170	1	0	0	0	0	1	0	0	0	11132	855	30	2	175	2	OR52W1	11	6220626	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	5123313	6220626	128785890	184	60911										
OR10A4	283297	broad.mit.edu	37	chr11	6898684	6898684	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	accccaatccagtgcctcttCtgagagcaagaagctgctgt	9	13	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:6898684C>A	uc010rat.1	+	1	806	c.806C>A	c.(805-807)TCT>TAT	p.S269Y		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	269	Extracellular (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)		AGTGCCTCTTCTGAGAGCAAG	0.512													62	49	---	---	---	---	PASS	A	6898684	A	A	6898684	3	1	170	1	0	0	0	0	1	0	0	0	10892	913	32	2	808	2	OR10A4	11	6898684	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	678058	6898684	128107832	185	60912										
NLRP14	338323	broad.mit.edu	37	chr11	7083670	7083670	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttgggaacaacgatttgcagGatgatggagtgaaaattctg	13	4	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:7083670G>A	uc001mfb.1	+	10	3234	c.2911G>A	c.(2911-2913)GAT>AAT	p.D971N		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	971	LRR 9.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		CGATTTGCAGGATGATGGAGT	0.433													13	52	---	---	---	---	PASS	A	7083670	A	A	7083670	3	1	170	1	0	0	0	0	1	0	0	0	10476	1174	41	2	2945	2	NLRP14	11	7083670	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	184986	7083670	127922846	186	60913										
RAG1	5896	broad.mit.edu	37	chr11	36595199	36595199	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	catctctgccgcatctgtggGaattcttttagagctgatga	10	9	3	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:36595199G>T	uc001mwu.3	+	2	469	c.345G>T	c.(343-345)GGG>GGT	p.G115G	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	115	Interaction with importin alpha-1.				histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				GCATCTGTGGGAATTCTTTTA	0.458									Familial_Hemophagocytic_Lymphohistiocytosis				28	76	---	---	---	---	PASS	T	36595199	T	T	36595199	2	4	170	1	0	0	0	0	0	0	0	1	13003	1161	41	2		2	RAG1	11	36595199	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	29511529	36595199	98411317	187	60914										
SLC35C1	55343	broad.mit.edu	37	chr11	45827872	45827872	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccttctatgccctgctcaccTgcggtatcatcatcggtgag	9	14	4	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:45827872T>G	uc001nbp.2	+	1	1232	c.520T>G	c.(520-522)TGC>GGC	p.C174G	SLC35C1_uc001nbo.2_Missense_Mutation_p.C161G|SLC35C1_uc010rgm.1_Missense_Mutation_p.C161G	NM_018389	NP_060859	Q96A29	FUCT1_HUMAN	GDP-fucose transporter 1 isoform a	174	Helical; (Potential).					Golgi membrane|integral to membrane	GDP-fucose transmembrane transporter activity				0				GBM - Glioblastoma multiforme(35;0.227)		CCTGCTCACCTGCGGTATCAT	0.532													14	37	---	---	---	---	PASS	G	45827872	G	G	45827872	3	3	170	1	0	0	0	0	1	0	0	0	14579	1580	55	5	522	5	SLC35C1	11	45827872	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	9232673	45827872	89178644	188	60915										
SPI1	6688	broad.mit.edu	37	chr11	47380482	47380482	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tggggggctctgccgctcgcCctcctcctcatctgagctgg	13	16	3	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:47380482C>T	uc001nfc.1	-	4	629	c.406G>A	c.(406-408)GGC>AGC	p.G136S	SPI1_uc001nfb.1_Missense_Mutation_p.G137S|SLC39A13_uc001nfd.2_Intron|SPI1_uc009ylp.1_Missense_Mutation_p.G130S	NM_003120	NP_003111	P17947	SPI1_HUMAN	hematopoietic transcription factor PU.1 isoform	136					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of erythrocyte differentiation	nucleus	protein binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)	2				Lung(87;0.0967)		TGCCGCTCGCCCTCCTCCTCA	0.701													8	11	---	---	---	---	PASS	T	47380482	T	T	47380482	3	4	170	1	0	0	0	0	1	0	0	0	15048	623	22	3	414	3	SPI1	11	47380482	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	1552610	47380482	87626034	189	60916										
OR4A15	81328	broad.mit.edu	37	chr11	55136330	55136330	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaagaatgcagaaatgaaaaGtgccatgaggaaactttgga	12	4	0	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:55136330G>T	uc010rif.1	+	1	971	c.971G>T	c.(970-972)AGT>ATT	p.S324I		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	324	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GAAATGAAAAGTGCCATGAGG	0.378													42	45	---	---	---	---	PASS	T	55136330	T	T	55136330	3	4	170	1	0	0	0	0	1	0	0	0	11040	1029	36	3	973	3	OR4A15	11	55136330	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	7755848	55136330	79870186	190	60917										
OR8H2	390151	broad.mit.edu	37	chr11	55872754	55872754	+	Missense_Mutation	SNP	C	A	A													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagttactcaactgtcgtcaCacctaaaaccttagcgaact							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:55872754C>A	uc010riy.1	+	1	236	c.236C>A	c.(235-237)ACA>AAA	p.T79K		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	79	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					ACTGTCGTCACACCTAAAACC	0.423										HNSCC(53;0.14)			87	286	---	---	---	---	PASS	A	55872754	A	A	55872754	3	1	170	1	0	0	0	0	1	0	0	0	11238	478	17	3	238	3	OR8H2	11	55872754	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	736424	55872754	79133762	191	60918	1065	2								
OR8H2	390151	broad.mit.edu	37	chr11	55872756	55872756	+	Missense_Mutation	SNP	C	A	A													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gttactcaactgtcgtcacaCctaaaaccttagcgaactta							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:55872756C>A	uc010riy.1	+	1	238	c.238C>A	c.(238-240)CCT>ACT	p.P80T		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	80	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					TGTCGTCACACCTAAAACCTT	0.423										HNSCC(53;0.14)			84	290	---	---	---	---	PASS	A	55872756	A	A	55872756	3	1	170	1	0	0	0	0	1	0	0	0	11238	507	18	3	240	3	OR8H2	11	55872756	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	2	55872756	79133760	192	60919	1065	2								
OR8K3	219473	broad.mit.edu	37	chr11	56086588	56086588	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gtccagtcattcctttgacaCtgataaagtggcttccatat	7	10	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:56086588C>A	uc010rjf.1	+	1	806	c.806C>A	c.(805-807)ACT>AAT	p.T269N		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					TCCTTTGACACTGATAAAGTG	0.433													19	15	---	---	---	---	PASS	A	56086588	A	A	56086588	3	1	170	1	0	0	0	0	1	0	0	0	11244	565	20	3	808	3	OR8K3	11	56086588	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	213832	56086588	78919928	193	60920										
OR5B12	390191	broad.mit.edu	37	chr11	58206693	58206693	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tttataattaaaatatgaatCctatagaggcctttgccttc	5	7	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:58206693C>G	uc010rkh.1	-	1	932	c.932G>C	c.(931-933)GGA>GCA	p.G311A		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AAATATGAATCCTATAGAGGC	0.274													2	8	---	---	---	---	PASS	G	58206693	G	G	58206693	3	3	170	1	0	0	0	0	1	0	0	0	11148	855	30	2	16	2	OR5B12	11	58206693	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	2120105	58206693	76799823	194	60921										
EML3	256364	broad.mit.edu	37	chr11	62371615	62371615	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccggaccactgagagctgctCattgccatcaatgacatcag	9	13	3	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:62371615C>G	uc001ntu.1	-	17	2349	c.2041G>C	c.(2041-2043)GAG>CAG	p.E681Q	MTA2_uc010rlx.1_5'Flank|MTA2_uc001ntq.1_5'Flank|EML3_uc001ntr.1_Missense_Mutation_p.E653Q|EML3_uc001nts.1_Missense_Mutation_p.E653Q|EML3_uc001ntt.1_Missense_Mutation_p.E565Q|EML3_uc010rly.1_Missense_Mutation_p.E681Q	NM_153265	NP_694997	Q32P44	EMAL3_HUMAN	echinoderm microtubule associated protein like	681	WD 7.					cytoplasm|microtubule	protein binding			ovary(1)	1						GAGAGCTGCTCATTGCCATCA	0.557													19	51	---	---	---	---	PASS	G	62371615	G	G	62371615	3	3	170	1	0	0	0	0	1	0	0	0	5098	835	29	2	673	2	EML3	11	62371615	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	4164922	62371615	72634901	195	60922										
GANAB	23193	broad.mit.edu	37	chr11	62393327	62393327	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aatcagatgccacattgatgCcaggcttgcgcaggaccaac	10	12	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:62393327C>A	uc001nub.2	-	24	2828	c.2795G>T	c.(2794-2796)GGC>GTC	p.G932V	GANAB_uc001ntz.2_Missense_Mutation_p.G119V|GANAB_uc001nua.2_Missense_Mutation_p.G954V|GANAB_uc001nuc.2_Missense_Mutation_p.G835V|GANAB_uc010rma.1_Missense_Mutation_p.G840V|GANAB_uc010rmb.1_Missense_Mutation_p.G818V	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2	932					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5						CACATTGATGCCAGGCTTGCG	0.522													33	26	---	---	---	---	PASS	A	62393327	A	A	62393327	3	1	170	1	0	0	0	0	1	0	0	0	6233	739	26	3	43	3	GANAB	11	62393327	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	21712	62393327	72613189	196	60923										
INTS5	80789	broad.mit.edu	37	chr11	62417264	62417264	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aggtgaggtggaccagccacAggggtttcatccagggcagc	16	10	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:62417264A>T	uc001nud.2	-	2	341	c.288T>A	c.(286-288)CCT>CCA	p.P96P		NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	96					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						GACCAGCCACAGGGGTTTCAT	0.602													91	56	---	---	---	---	PASS	T	62417264	T	T	62417264	2	4	170	1	0	0	0	0	0	0	0	1	7781	175	7	5		5	INTS5	11	62417264	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	23937	62417264	72589252	197	60924										
PYGM	5837	broad.mit.edu	37	chr11	64522800	64522800	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccgccaggtttcggtccaacAcagcctggatgtagccaccg	11	15	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:64522800A>G	uc001oax.3	-	7	1617	c.800T>C	c.(799-801)GTG>GCG	p.V267A	PYGM_uc001oay.3_Missense_Mutation_p.V179A	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	267					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	TCGGTCCAACACAGCCTGGAT	0.622													58	51	---	---	---	---	PASS	G	64522800	G	G	64522800	3	3	170	1	0	0	0	0	1	0	0	0	12862	159	6	5	1784	5	PYGM	11	64522800	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	2105536	64522800	70483716	198	60925										
NAALADL1	10004	broad.mit.edu	37	chr11	64825606	64825606	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aggacagcagcacttcgtacGtggaggcctcggccgagtcc	14	13	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:64825606G>C	uc001ocn.2	-	2	318	c.302C>G	c.(301-303)ACG>AGG	p.T101R	NAALADL1_uc010rnw.1_5'UTR	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	101	Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						CACTTCGTACGTGGAGGCCTC	0.667													30	59	---	---	---	---	PASS	C	64825606	C	C	64825606	3	2	170	1	0	0	0	0	1	0	0	0	10129	1145	40	4	1988	4	NAALADL1	11	64825606	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	302806	64825606	70180910	199	60926										
CPT1A	1374	broad.mit.edu	37	chr11	68582853	68582853	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgaagtccagagagatagatTtgtctaagagcttcatggct	11	6	2	5			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:68582853T>G	uc001oog.3	-	2	260	c.90A>C	c.(88-90)CAA>CAC	p.Q30H	CPT1A_uc001oof.3_Missense_Mutation_p.Q30H|CPT1A_uc009ysj.2_Missense_Mutation_p.Q30H	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	30	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	AGAGATAGATTTGTCTAAGAG	0.438													29	31	---	---	---	---	PASS	G	68582853	G	G	68582853	3	3	170	1	0	0	0	0	1	0	0	0	3831	1838	64	5	2343	5	CPT1A	11	68582853	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	3757247	68582853	66423663	200	60927										
ARHGEF17	9828	broad.mit.edu	37	chr11	73021849	73021849	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggttctggtgggagcgaattGagcaatggggaggcagggga	21	4	1	1	rs139702671	byFrequency	TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:73021849G>C	uc001otu.2	+	1	2187	c.2166G>C	c.(2164-2166)TTG>TTC	p.L722F		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	722				L -> F (in Ref. 5; BAA20795).	actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						GGAGCGAATTGAGCAATGGGG	0.652													30	93	---	---	---	---	PASS	C	73021849	C	C	73021849	3	2	170	1	0	0	0	0	1	0	0	0	900	1281	45	2	2168	2	ARHGEF17	11	73021849	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	4438996	73021849	61984667	201	60928										
PAAF1	80227	broad.mit.edu	37	chr11	73638345	73638345	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tttaggtagccacatgggagAagcagatctacacatgctgt	11	8	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:73638345A>C	uc001ouk.1	+	12	1151	c.1117A>C	c.(1117-1119)AAG>CAG	p.K373Q	PAAF1_uc001oul.1_Missense_Mutation_p.K356Q|PAAF1_uc009ytx.1_RNA|PAAF1_uc001oum.1_Missense_Mutation_p.K356Q|PAAF1_uc001oun.1_RNA	NM_025155	NP_079431	Q9BRP4	PAAF1_HUMAN	proteasomal ATPase-associated factor 1	373	WD 5.				interspecies interaction between organisms	proteasome complex	protein binding			ovary(1)|skin(1)	2	Breast(11;7.42e-05)					CACATGGGAGAAGCAGATCTA	0.453													13	45	---	---	---	---	PASS	C	73638345	C	C	73638345	3	2	170	1	0	0	0	0	1	0	0	0	11362	247	9	5	1163	5	PAAF1	11	73638345	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	616496	73638345	61368171	202	60929										
WNT11	7481	broad.mit.edu	37	chr11	75902837	75902837	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagccccttccagcaggtgcGgatggagcaggagccagaca	14	13	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:75902837G>A	uc001oxe.2	-	4	784	c.661C>T	c.(661-663)CGC>TGC	p.R221C	WNT11_uc001oxf.1_Missense_Mutation_p.R221C	NM_004626	NP_004617	O96014	WNT11_HUMAN	wingless-type MMTV integration site family,	221					adrenal gland development|anterior/posterior pattern formation|artery morphogenesis|axis specification|bone mineralization|cellular response to retinoic acid|cloacal septation|embryonic skeletal system development|endoderm development|lung-associated mesenchyme development|mesonephric duct development|negative regulation of apoptosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell migration|negative regulation of transcription, DNA-dependent|neuroendocrine cell differentiation|neuron differentiation|osteoblast differentiation|outflow tract morphogenesis|palate development|positive regulation of cell migration|positive regulation of protein kinase C signaling cascade|positive regulation of stress fiber assembly|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor-beta2 production|protein localization at cell surface|protein phosphorylation|tight junction assembly|ureteric bud morphogenesis|ventricular septum morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|protein kinase activator activity|Ras GTPase activator activity|transcription regulatory region DNA binding			lung(1)|skin(1)	2						CAGCAGGTGCGGATGGAGCAG	0.637													73	38	---	---	---	---	PASS	A	75902837	A	A	75902837	3	1	170	1	0	0	0	0	1	0	0	0	17381	1116	39	1	411	1	WNT11	11	75902837	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	2264492	75902837	59103679	203	60930										
ODZ4	26011	broad.mit.edu	37	chr11	78380188	78380188	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	catagaggccaccatggtagCctatgatgatctgaaagttg	11	8	1	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:78380188C>T	uc001ozl.3	-	32	7665	c.7202G>A	c.(7201-7203)GGC>GAC	p.G2401D	ODZ4_uc001ozk.3_Missense_Mutation_p.G626D|ODZ4_uc009yvb.1_Missense_Mutation_p.G985D	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2401	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						ACCATGGTAGCCTATGATGAT	0.517													11	33	---	---	---	---	PASS	T	78380188	T	T	78380188	3	4	170	1	0	0	0	0	1	0	0	0	10837	739	26	3	1119	3	ODZ4	11	78380188	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	2477351	78380188	56626328	204	60931										
KIAA1377	57562	broad.mit.edu	37	chr11	101832922	101832922	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tagataaaaaatgtgaaaagAcctctgaaactagcactatg	7	6	1	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:101832922A>T	uc001pgm.2	+	6	1426	c.1156A>T	c.(1156-1158)ACC>TCC	p.T386S	KIAA1377_uc001pgn.2_Missense_Mutation_p.T342S|KIAA1377_uc010run.1_Missense_Mutation_p.T187S|KIAA1377_uc009yxa.1_Missense_Mutation_p.T187S	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	386							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		ATGTGAAAAGACCTCTGAAAC	0.383													12	55	---	---	---	---	PASS	T	101832922	T	T	101832922	3	4	170	1	0	0	0	0	1	0	0	0	8227	275	10	5	1178	5	KIAA1377	11	101832922	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	23452734	101832922	33173594	205	60932										
GUCY1A2	2977	broad.mit.edu	37	chr11	106810216	106810216	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttttcagagccagaagcctcAggcttggttctaatcacaaa	8	10	4	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:106810216A>T	uc001pjg.1	-	4	1566	c.1176T>A	c.(1174-1176)CCT>CCA	p.P392P	GUCY1A2_uc010rvo.1_Silent_p.P392P|GUCY1A2_uc009yxn.1_Silent_p.P392P	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	392					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CAGAAGCCTCAGGCTTGGTTC	0.433													24	108	---	---	---	---	PASS	T	106810216	T	T	106810216	2	4	170	1	0	0	0	0	0	0	0	1	6893	175	7	5		5	GUCY1A2	11	106810216	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	4977294	106810216	28196300	206	60933										
ATM	472	broad.mit.edu	37	chr11	108155174	108155174	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccaaggtctatgatatgcttAaaagtgaaaacttattggga	9	5	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:108155174A>G	uc001pkb.1	+	26	4352	c.3967A>G	c.(3967-3969)AAA>GAA	p.K1323E	ATM_uc009yxr.1_Missense_Mutation_p.K1323E|ATM_uc001pkd.3_5'Flank|ATM_uc001pke.1_5'Flank	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1323					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding	p.V1292_Q1331del(1)		haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TGATATGCTTAAAAGTGAAAA	0.353			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			7	43	---	---	---	---	PASS	G	108155174	G	G	108155174	3	3	170	1	0	0	0	0	1	0	0	0	1109	363	13	5	4065	5	ATM	11	108155174	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	1344958	108155174	26851342	207	60934										
HSPB2	3316	broad.mit.edu	37	chr11	111784533	111784533	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggggtggccgacatttggacAcagaggtcaatgaggtctac	15	8	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:111784533A>G	uc001pmg.2	+	2	557	c.463A>G	c.(463-465)ACA>GCA	p.T155A	CRYAB_uc001pmf.1_5'Flank|CRYAB_uc010rwp.1_5'Flank|HSPB2_uc009yyj.2_RNA|C11orf52_uc001pmh.2_Intron	NM_001541	NP_001532	Q16082	HSPB2_HUMAN	heat shock 27kDa protein 2	155					response to heat|response to unfolded protein	cytosol|nucleus	enzyme activator activity|protein binding			ovary(2)|skin(1)	3		all_cancers(61;3.75e-11)|all_epithelial(67;2.33e-06)|Melanoma(852;9.42e-06)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0512)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)		Epithelial(105;3.57e-07)|BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|all cancers(92;6.57e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.051)		ACATTTGGACACAGAGGTCAA	0.587													51	29	---	---	---	---	PASS	G	111784533	G	G	111784533	3	3	170	1	0	0	0	0	1	0	0	0	7420	159	6	5	469	5	HSPB2	11	111784533	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	3629359	111784533	23221983	208	60935										
PCSK7	9159	broad.mit.edu	37	chr11	117097994	117097994	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tccacatccgggtggggcatGgggtcagggtcattagagtt	16	8	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:117097994G>T	uc001pqr.2	-	5	849	c.648C>A	c.(646-648)CCC>CCA	p.P216P		NM_004716	NP_004707	Q16549	PCSK7_HUMAN	proprotein convertase subtilisin/kexin type 7	216	Catalytic.|Extracellular (Potential).				peptide hormone processing	integral to Golgi membrane	serine-type endopeptidase activity				0	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;1.72e-06)|Epithelial(105;6.71e-05)|all cancers(92;0.000537)		GGTGGGGCATGGGGTCAGGGT	0.567			T	IGH@	MLCLS								104	64	---	---	---	---	PASS	T	117097994	T	T	117097994	2	4	170	1	0	0	0	0	0	0	0	1	11605	1335	47	3		3	PCSK7	11	117097994	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	5313461	117097994	17908522	209	60936										
DSCAML1	57453	broad.mit.edu	37	chr11	117303860	117303860	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cacctgtcactcacccagttGcttgatgccttctttgtcct	6	15	3	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:117303860G>T	uc001prh.1	-	29	5202	c.5200C>A	c.(5200-5202)CAA>AAA	p.Q1734K		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1674	Cytoplasmic (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TCACCCAGTTGCTTGATGCCT	0.577													14	29	---	---	---	---	PASS	T	117303860	T	T	117303860	3	4	170	1	0	0	0	0	1	0	0	0	4769	1328	46	3	1161	3	DSCAML1	11	117303860	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	205866	117303860	17702656	210	60937										
PHLDB1	23187	broad.mit.edu	37	chr11	118498322	118498322	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttctctccactctcttcaccAgccagcagtggaagctgtgc	8	15	3	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:118498322A>C	uc001ptr.1	+	7	1136	c.783A>C	c.(781-783)CCA>CCC	p.P261P	PHLDB1_uc010ryh.1_Silent_p.P260P|PHLDB1_uc001pts.2_Silent_p.P261P|PHLDB1_uc001ptt.2_Silent_p.P261P|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Silent_p.P61P|PHLDB1_uc001ptw.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	261											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		TCTCTTCACCAGCCAGCAGTG	0.632													9	285	---	---	---	---	PASS	C	118498322	C	C	118498322	2	2	170	1	0	0	0	0	0	0	0	1	11851	175	7	5		5	PHLDB1	11	118498322	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	1194462	118498322	16508194	211	60938										
GRIK4	2900	broad.mit.edu	37	chr11	120833331	120833331	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctatcggcagcgaaactgcaAcctcactcagattgggggcc	11	13	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:120833331A>C	uc001pxn.2	+	18	2494	c.2207A>C	c.(2206-2208)AAC>ACC	p.N736T	GRIK4_uc009zav.1_Missense_Mutation_p.N736T|GRIK4_uc009zaw.1_Missense_Mutation_p.N736T|GRIK4_uc009zax.1_Missense_Mutation_p.N736T	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	736	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	CGAAACTGCAACCTCACTCAG	0.552													9	108	---	---	---	---	PASS	C	120833331	C	C	120833331	3	2	170	1	0	0	0	0	1	0	0	0	6776	43	2	5	2269	5	GRIK4	11	120833331	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	2335009	120833331	14173185	212	60939										
UBASH3B	84959	broad.mit.edu	37	chr11	122653834	122653834	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttccaagccagccacctaccCaccctagagaaactggccca	6	18	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:122653834C>A	uc001pyi.3	+	5	1035	c.675C>A	c.(673-675)CCC>CCA	p.P225P		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	225						cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		GCCACCTACCCACCCTAGAGA	0.483													130	154	---	---	---	---	PASS	A	122653834	A	A	122653834	2	1	170	1	0	0	0	0	0	0	0	1	16837	581	21	3		3	UBASH3B	11	122653834	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	1820503	122653834	12352682	213	60940										
KCNJ1	3758	broad.mit.edu	37	chr11	128709123	128709123	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	catctttctcattataaaggCacatggcacagtgaggggtc	10	9	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:128709123C>A	uc001qeo.1	-	2	1124	c.1073G>T	c.(1072-1074)TGC>TTC	p.C358F	KCNJ1_uc001qep.1_Missense_Mutation_p.C339F|KCNJ1_uc001qeq.1_Missense_Mutation_p.C339F|KCNJ1_uc001qer.1_Missense_Mutation_p.C339F|KCNJ1_uc001qes.1_Missense_Mutation_p.C339F	NM_000220	NP_000211	P48048	IRK1_HUMAN	potassium inwardly-rectifying channel J1 isoform	358	Cytoplasmic (By similarity).				excretion	voltage-gated potassium channel complex	ATP binding|inward rectifier potassium channel activity			ovary(3)|breast(1)	4	all_hematologic(175;0.0641)	all_lung(97;4.89e-06)|Lung NSC(97;9.34e-06)|Breast(109;0.00123)|all_hematologic(192;0.00793)|Renal(330;0.0112)|all_neural(223;0.0189)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;4.05e-06)|LUSC - Lung squamous cell carcinoma(976;0.008)|Lung(977;0.00942)	Acetohexamide(DB00414)|Chlorpropamide(DB00672)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Glimepiride(DB00222)|Glipizide(DB01067)|Glycodiazine(DB01382)|Minoxidil(DB00350)|Nateglinide(DB00731)|Repaglinide(DB00912)|Tolazamide(DB00839)|Tolbutamide(DB01124)	ATTATAAAGGCACATGGCACA	0.433													39	20	---	---	---	---	PASS	A	128709123	A	A	128709123	3	1	170	1	0	0	0	0	1	0	0	0	8043	710	25	3	106	3	KCNJ1	11	128709123	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	6055289	128709123	6297393	214	60941										
IGSF9B	22997	broad.mit.edu	37	chr11	133791061	133791061	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	atcacgaagcggccgtcaggGcctctgctgatgagctcgat	13	12	3	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr11:133791061G>C	uc001qgx.3	-	18	2790	c.2559C>G	c.(2557-2559)GGC>GGG	p.G853G		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	853	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		GGCCGTCAGGGCCTCTGCTGA	0.642													6	136	---	---	---	---	PASS	C	133791061	C	C	133791061	2	2	170	1	0	0	0	0	0	0	0	1	7606	1190	42	4		4	IGSF9B	11	133791061	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	5081938	133791061	1215455	215	60942										
SLC6A13	6540	broad.mit.edu	37	chr12	335599	335599	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggcaccccctgctcctgagaCatgaagcccaggatggagaa	12	13	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:335599C>A	uc001qic.1	-	9	1070	c.1017G>T	c.(1015-1017)ATG>ATT	p.M339I	SLC6A13_uc009zdj.1_Missense_Mutation_p.M329I|SLC6A13_uc010sdl.1_Missense_Mutation_p.M247I	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	339	Helical; Name=7; (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			GCTCCTGAGACATGAAGCCCA	0.617													11	70	---	---	---	---	PASS	A	335599	A	A	335599	3	1	170	1	0	0	0	0	1	0	0	0	14676	478	17	3	819	3	SLC6A13	12	335599	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08		335599	133516296	216	60943										
ACSM4	341392	broad.mit.edu	37	chr12	7470652	7470652	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gacttgaagtcctcagatatCatatggaatatgtctgacac	8	8	3	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:7470652C>G	uc001qsx.1	+	5	795	c.795C>G	c.(793-795)ATC>ATG	p.I265M		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	265					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						CCTCAGATATCATATGGAATA	0.418													21	33	---	---	---	---	PASS	G	7470652	G	G	7470652	3	3	170	1	0	0	0	0	1	0	0	0	186	816	29	2	813	2	ACSM4	12	7470652	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	7135053	7470652	126381243	217	60944										
SLC2A3	6515	broad.mit.edu	37	chr12	8075526	8075526	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggctgaagagttcggccacaAtaaaccagggaatggggcct	14	9	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:8075526A>G	uc001qtr.2	-	9	1425	c.1163T>C	c.(1162-1164)ATT>ACT	p.I388T		NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	388	Helical; Name=10; (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		TTCGGCCACAATAAACCAGGG	0.537													44	95	---	---	---	---	PASS	G	8075526	G	G	8075526	3	3	170	1	0	0	0	0	1	0	0	0	14545	101	4	5	335	5	SLC2A3	12	8075526	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	604874	8075526	125776369	218	60945										
GUCY2C	2984	broad.mit.edu	37	chr12	14798171	14798171	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgtttctcttaccttagcaaTgtcatacaagacagagatct	6	9	3	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:14798171T>C	uc001rcd.2	-	16	1926	c.1789A>G	c.(1789-1791)ATT>GTT	p.I597V		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	597	Cytoplasmic (Potential).|Protein kinase.				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						ACCTTAGCAATGTCATACAAG	0.269													39	44	---	---	---	---	PASS	C	14798171	C	C	14798171	3	2	170	1	0	0	0	0	1	0	0	0	6896	1464	51	5	1480	5	GUCY2C	12	14798171	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	6722645	14798171	119053724	219	60946										
SLCO1B3	28234	broad.mit.edu	37	chr12	21242884	21242884	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gtagccctaatatttccagtActtgttttacttactgtatt	5	8	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:21242884A>G	uc010sil.1	+	16	2156	c.2091A>G	c.(2089-2091)GTA>GTG	p.V697V	LST-3TM12_uc010sim.1_Silent_p.V636V|LST-3TM12_uc010sin.1_Silent_p.V589V			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TATTTCCAGTACTTGTTTTAC	0.289													10	10	---	---	---	---	PASS	G	21242884	G	G	21242884	2	3	170	1	0	0	0	0	0	0	0	1	14724	378	14	5		5	SLCO1B3	12	21242884	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	6444713	21242884	112609011	220	60947										
C12orf72	254013	broad.mit.edu	37	chr12	31814953	31814953	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctcctcttgcaggctctgcgAagcagtggtcttctcttgtt	10	12	4	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:31814953A>G	uc009zjr.2	+	2	275	c.66A>G	c.(64-66)CGA>CGG	p.R22R	C12orf72_uc001rkl.2_Silent_p.R22R|C12orf72_uc001rkm.2_Silent_p.R22R	NM_001135864	NP_001129336	Q8IXQ9	MET20_HUMAN	hypothetical protein LOC254013	22						cytoplasm	protein methyltransferase activity				0						AGGCTCTGCGAAGCAGTGGTC	0.517													4	231	---	---	---	---	PASS	G	31814953	G	G	31814953	2	3	170	1	0	0	0	0	0	0	0	1	1713	233	9	5		5	C12orf72	12	31814953	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	10572069	31814953	102036942	221	60948										
H3F3C	440093	broad.mit.edu	37	chr12	31944836	31944836	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agcctcctgcagcgcaccgaCggctgcgctctgaaacctca	10	17	2	1	rs148314204		TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:31944836C>T	uc001rkr.2	-	1	340	c.265G>A	c.(265-267)GTC>ATC	p.V89I		NM_001013699	NP_001013721	Q6NXT2	H3C_HUMAN	histone H3-like	89					nucleosome assembly	nucleosome|nucleus	DNA binding				0						AGCGCACCGACGGCTGCGCTC	0.577										HNSCC(67;0.2)			15	213	---	---	---	---	PASS	T	31944836	T	T	31944836	3	4	170	1	0	0	0	0	1	0	0	0	6935	536	19	1	146	1	H3F3C	12	31944836	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	129883	31944836	101907059	222	60949			1	63		4	4	236	N	T_C_A	3.053836e-09
H3F3C	440093	broad.mit.edu	37	chr12	31944861	31944861	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gcgctctgaaacctcaggtcAgtgttgaaatcctgcgcgat	11	11	3	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:31944861A>G	uc001rkr.2	-	1	315	c.240T>C	c.(238-240)ACT>ACC	p.T80T		NM_001013699	NP_001013721	Q6NXT2	H3C_HUMAN	histone H3-like	80					nucleosome assembly	nucleosome|nucleus	DNA binding				0						ACCTCAGGTCAGTGTTGAAAT	0.577										HNSCC(67;0.2)			10	205	---	---	---	---	PASS	G	31944861	G	G	31944861	2	3	170	1	0	0	0	0	0	0	0	1	6935	175	7	5		5	H3F3C	12	31944861	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	25	31944861	101907034	223	60950			1	63		4	4	236	N	T_C_A	3.053836e-09
H3F3C	440093	broad.mit.edu	37	chr12	31944972	31944972	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tctcgaagcgccacggtcccAggcctgtagcgatgaggctt	13	13	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:31944972A>G	uc001rkr.2	-	1	204	c.129T>C	c.(127-129)CCT>CCC	p.P43P		NM_001013699	NP_001013721	Q6NXT2	H3C_HUMAN	histone H3-like	43					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CCACGGTCCCAGGCCTGTAGC	0.617										HNSCC(67;0.2)			11	143	---	---	---	---	PASS	G	31944972	G	G	31944972	2	3	170	1	0	0	0	0	0	0	0	1	6935	175	7	5		5	H3F3C	12	31944972	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	111	31944972	101906923	224	60951			1	63		4	4	236	N	T_C_A	3.053836e-09
H3F3C	440093	broad.mit.edu	37	chr12	31945071	31945071	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggggctttcccaccggtggaTttacgagcagtctgcttggt	14	10	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:31945071T>C	uc001rkr.2	-	1	105	c.30A>G	c.(28-30)AAA>AAG	p.K10K		NM_001013699	NP_001013721	Q6NXT2	H3C_HUMAN	histone H3-like	10					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CACCGGTGGATTTACGAGCAG	0.607										HNSCC(67;0.2)			16	144	---	---	---	---	PASS	C	31945071	C	C	31945071	2	2	170	1	0	0	0	0	0	0	0	1	6935	1490	52	5		5	H3F3C	12	31945071	Silent	SNP	T	TCGA-66-2793-01A-01D-1267-08	99	31945071	101906824	225	60952			1	63		4	4	236	N	T_C_A	3.053836e-09
ADAMTS20	80070	broad.mit.edu	37	chr12	43860461	43860461	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ataaatttacttactctaggAattcagtaacatatttccga	4	7	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:43860461A>C	uc010skx.1	-	9	1361	c.1361T>G	c.(1360-1362)TTC>TGC	p.F454C		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	454	Peptidase M12B.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TTACTCTAGGAATTCAGTAAC	0.303													3	23	---	---	---	---	PASS	C	43860461	C	C	43860461	3	2	170	1	0	0	0	0	1	0	0	0	266	246	9	5	4494	5	ADAMTS20	12	43860461	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	11915390	43860461	89991434	226	60953										
COL2A1	1280	broad.mit.edu	37	chr12	48383572	48383572	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctgcggggcctggctgaccaTcgttgcctcgggcaccctgt	14	15	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:48383572T>G	uc001rqu.2	-	17	1221	c.1040A>C	c.(1039-1041)GAT>GCT	p.D347A	COL2A1_uc009zkw.2_5'Flank|COL2A1_uc001rqv.2_Missense_Mutation_p.D278A	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	347	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	TGGCTGACCATCGTTGCCTCG	0.582													40	133	---	---	---	---	PASS	G	48383572	G	G	48383572	3	3	170	1	0	0	0	0	1	0	0	0	3687	1435	50	5	3575	5	COL2A1	12	48383572	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	4523111	48383572	85468323	227	60954										
TUBA1B	10376	broad.mit.edu	37	chr12	49523150	49523150	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctcagggtggaagagctggcGgtaggtgccagtgcgaactt	17	8	1	1	rs11546610		TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:49523150G>C	uc001rtm.2	-	3	471	c.250C>G	c.(250-252)CGC>GGC	p.R84G	TUBA1B_uc001rto.2_Intron|TUBA1B_uc001rtk.2_Missense_Mutation_p.R49G|TUBA1B_uc001rtl.2_Missense_Mutation_p.R49G|TUBA1B_uc001rtn.2_Intron	NM_006082	NP_006073	P68363	TBA1B_HUMAN	tubulin, alpha, ubiquitous	84					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding				0						AAGAGCTGGCGGTAGGTGCCA	0.562													30	161	---	---	---	---	PASS	C	49523150	C	C	49523150	3	2	170	1	0	0	0	0	1	0	0	0	16741	1116	39	4	1113	4	TUBA1B	12	49523150	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	1139578	49523150	84328745	228	60955										
PRPH	5630	broad.mit.edu	37	chr12	49689166	49689166	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gtgcgcctgggcagcttccgTagcccccgagcgggagcggg	18	14	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:49689166T>C	uc001rtu.2	+	1	258	c.183T>C	c.(181-183)CGT>CGC	p.R61R		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	61	Head.						structural molecule activity				0						GCAGCTTCCGTAGCCCCCGAG	0.736													16	20	---	---	---	---	PASS	C	49689166	C	C	49689166	2	2	170	1	0	0	0	0	0	0	0	1	12576	1625	57	5		5	PRPH	12	49689166	Silent	SNP	T	TCGA-66-2793-01A-01D-1267-08	166016	49689166	84162729	229	60956										
DIP2B	57609	broad.mit.edu	37	chr12	51069161	51069161	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aaaatccagcagcttctgaaCactctgaaacgacccaaaag	6	12	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:51069161C>A	uc001rwv.2	+	7	1002	c.846C>A	c.(844-846)AAC>AAA	p.N282K	DIP2B_uc001rwu.2_Missense_Mutation_p.N282K|DIP2B_uc009zls.1_Missense_Mutation_p.N164K	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	282						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						AGCTTCTGAACACTCTGAAAC	0.348													14	54	---	---	---	---	PASS	A	51069161	A	A	51069161	3	1	170	1	0	0	0	0	1	0	0	0	4528	477	17	3	872	3	DIP2B	12	51069161	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	1379995	51069161	82782734	230	60957										
KRT77	374454	broad.mit.edu	37	chr12	53085745	53085745	+	Missense_Mutation	SNP	T	C	C													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgctcacatggctctgcagcTctcctgacatcctgtaaaac							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:53085745T>C	uc001saw.2	-	8	1468	c.1439A>G	c.(1438-1440)GAG>GGG	p.E480G	KRT77_uc009zmi.2_Missense_Mutation_p.E238G	NM_175078	NP_778253	Q7Z794	K2C1B_HUMAN	keratin 77	480	Tail.					keratin filament	structural molecule activity			ovary(1)	1						GCTCTGCAGCTCTCCTGACAT	0.607													12	79	---	---	---	---	PASS	C	53085745	C	C	53085745	3	2	170	1	0	0	0	0	1	0	0	0	8490	1551	54	5	305	5	KRT77	12	53085745	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	2016584	53085745	80766150	231	60958	1066	2								
KRT77	374454	broad.mit.edu	37	chr12	53085746	53085746	+	Nonsense_Mutation	SNP	C	A	A													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gctcacatggctctgcagctCtcctgacatcctgtaaaacc							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:53085746C>A	uc001saw.2	-	8	1467	c.1438G>T	c.(1438-1440)GAG>TAG	p.E480*	KRT77_uc009zmi.2_Nonsense_Mutation_p.E238*	NM_175078	NP_778253	Q7Z794	K2C1B_HUMAN	keratin 77	480	Tail.					keratin filament	structural molecule activity			ovary(1)	1						CTCTGCAGCTCTCCTGACATC	0.612													12	78	---	---	---	---	PASS	A	53085746	A	A	53085746	4	1	170	1	0	0	0	0	0	1	0	0	8490	922	32	2	306	2	KRT77	12	53085746	Nonsense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	1	53085746	80766149	232	60959	1066	2								
AMHR2	269	broad.mit.edu	37	chr12	53825169	53825169	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccctaccatcctcccctgtaGgcctcagcggagtgcctgcc	9	19	1	0	rs142064656		TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:53825169G>A	uc001scx.1	+	11	1712	c.1634G>A	c.(1633-1635)AGG>AAG	p.R545K	AMHR2_uc009zmy.1_3'UTR	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	545	Cytoplasmic (Potential).				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	CTCCCCTGTAGGCCTCAGCGG	0.562									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				42	124	---	---	---	---	PASS	A	53825169	A	A	53825169	3	1	170	1	0	0	0	0	1	0	0	0	573	1000	35	3	1676	3	AMHR2	12	53825169	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	739423	53825169	80026726	233	60960										
NFE2	4778	broad.mit.edu	37	chr12	54686872	54686872	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tctgggtcttcttggggcttAggtggccctgctggcagccc	15	12	3	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:54686872A>T	uc009znk.2	-	2	918	c.408T>A	c.(406-408)CCT>CCA	p.P136P	NFE2_uc001sfq.2_Silent_p.P136P|NFE2_uc001sfr.3_Silent_p.P136P|NFE2_uc009znl.2_Silent_p.P136P	NM_006163	NP_006154	Q16621	NFE2_HUMAN	nuclear factor, erythroid derived 2 isoform 1	136	Transactivation domain.				blood circulation|blood coagulation|multicellular organismal development|nucleosome disassembly|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	actin cytoskeleton|cytoplasm|PML body	protein dimerization activity|protein N-terminus binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|WW domain binding				0						CTTGGGGCTTAGGTGGCCCTG	0.597													54	246	---	---	---	---	PASS	T	54686872	T	T	54686872	2	4	170	1	0	0	0	0	0	0	0	1	10366	407	15	5		5	NFE2	12	54686872	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	861703	54686872	79165023	234	60961										
PRIM1	5557	broad.mit.edu	37	chr12	57146041	57146041	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aagagcctccggtaataaagTttaagcagctcgggcagctc	11	10	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:57146041T>A	uc001smd.2	-	1	106	c.42A>T	c.(40-42)AAA>AAT	p.K14N	PRIM1_uc001sme.1_RNA|PRIM1_uc009zoz.1_RNA|PRIM1_uc001smf.2_Missense_Mutation_p.K14N	NM_000946	NP_000937	P49642	PRI1_HUMAN	DNA primase polypeptide 1	14					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	DNA primase activity|metal ion binding				0						GGTAATAAAGTTTAAGCAGCT	0.572													6	8	---	---	---	---	PASS	A	57146041	A	A	57146041	3	1	170	1	0	0	0	0	1	0	0	0	12490	1722	60	5	1272	5	PRIM1	12	57146041	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	2459169	57146041	76705854	235	60962										
LRRIQ1	84125	broad.mit.edu	37	chr12	85449549	85449549	+	Frame_Shift_Del	DEL	A	-	-													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gagtggaaggaaaaggaagcAaaaatacgacaaaaggagga							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:85449549delA	uc001tac.2	+	8	1089	c.978delA	c.(976-978)GCAfs	p.A326fs	LRRIQ1_uc001tab.1_Frame_Shift_Del_p.A326fs|LRRIQ1_uc001taa.1_Frame_Shift_Del_p.A301fs	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	326	Glu-rich.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		aaaaggaagcaaaaatacgac	0.085													4	2	---	---	---	---		-	85449549	-	-	85449549	7	5	170	1	0	1	0	1	0	0	0	0	9029	117	5	0	1004	0	LRRIQ1	12	85449549	Frame_Shift_Del	DEL	A	TCGA-66-2793-01A-01D-1267-08	28303508	85449549	48402346	236	60963										
C12orf63	374467	broad.mit.edu	37	chr12	97137237	97137237	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agtgtgtatggaggcaaaaaGcgcaggggacacggaactgc	16	7	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:97137237G>T	uc001tet.1	+	20	2630	c.2552G>T	c.(2551-2553)AGC>ATC	p.S851I		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	851										skin(6)|ovary(1)	7						GAGGCAAAAAGCGCAGGGGAC	0.413													16	49	---	---	---	---	PASS	T	97137237	T	T	97137237	3	4	170	1	0	0	0	0	1	0	0	0	1706	971	34	3	2626	3	C12orf63	12	97137237	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	11687688	97137237	36714658	237	60964										
C12orf63	374467	broad.mit.edu	37	chr12	97151344	97151344	+	Nonsense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaagccaaagataaaaatttCaggatcaccattaacactta	5	8	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:97151344C>G	uc001tet.1	+	25	3371	c.3293C>G	c.(3292-3294)TCA>TGA	p.S1098*		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	1098										skin(6)|ovary(1)	7						ATAAAAATTTCAGGATCACCA	0.303													2	4	---	---	---	---	PASS	G	97151344	G	G	97151344	4	3	170	1	0	0	0	0	0	1	0	0	1706	838	29	2	3387	2	C12orf63	12	97151344	Nonsense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	14107	97151344	36700551	238	60965										
NUP37	79023	broad.mit.edu	37	chr12	102468178	102468178	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gcttgtggtctcctccaattAcacacagagggagagttcga	11	10	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:102468178A>G	uc001tjc.2	-	9	1000	c.935T>C	c.(934-936)GTA>GCA	p.V312A		NM_024057	NP_076962	Q8NFH4	NUP37_HUMAN	nucleoporin 37kDa	312	WD 4.				carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			ovary(1)	1						TCCTCCAATTACACACAGAGG	0.398													15	10	---	---	---	---	PASS	G	102468178	G	G	102468178	3	3	170	1	0	0	0	0	1	0	0	0	10764	391	14	5	49	5	NUP37	12	102468178	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	5316834	102468178	31383717	239	60966										
USP30	84749	broad.mit.edu	37	chr12	109520498	109520498	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agggaacgttgaacggggaaAaggtggaacaccagaggacc	16	7	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:109520498A>G	uc010sxi.1	+	10	1002	c.898A>G	c.(898-900)AAG>GAG	p.K300E	USP30_uc001tnu.3_Missense_Mutation_p.K269E|USP30_uc001tnw.3_Missense_Mutation_p.K17E	NM_032663	NP_116052	Q70CQ3	UBP30_HUMAN	ubiquitin specific peptidase 30	300	Cytoplasmic (Potential).				ubiquitin-dependent protein catabolic process	integral to membrane|mitochondrial outer membrane	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(1)	1						GAACGGGGAAAAGGTGGAACA	0.458													6	57	---	---	---	---	PASS	G	109520498	G	G	109520498	3	3	170	1	0	0	0	0	1	0	0	0	17058	15	1	5	936	5	USP30	12	109520498	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	7052320	109520498	24331397	240	60967										
MMAB	326625	broad.mit.edu	37	chr12	109998843	109998843	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tccctctctccagccctcttAccgtctctcggcccggcggc	8	21	3	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:109998843A>T	uc001tou.2	-	7	657	c.584_splice	c.e7+1	p.R195_splice	MMAB_uc001tov.2_Splice_Site|MMAB_uc001tow.2_Splice_Site|MMAB_uc010sxq.1_Splice_Site_p.R104_splice|MMAB_uc001tox.2_Splice_Site_p.R143_splice	NM_052845	NP_443077	Q96EY8	MMAB_HUMAN	cob(I)alamin adenosyltransferase precursor						cobalamin biosynthetic process	mitochondrion	ATP binding|cob(I)yrinic acid a,c-diamide adenosyltransferase activity				0					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CAGCCCTCTTACCGTCTCTCG	0.358													15	58	---	---	---	---	PASS	T	109998843	T	T	109998843	5	4	170	1	0	0	0	0	0	0	1	0	9640	405	14	5	178	5	MMAB	12	109998843	Splice_Site	SNP	A	TCGA-66-2793-01A-01D-1267-08	478345	109998843	23853052	241	60968										
C12orf51	283450	broad.mit.edu	37	chr12	112669453	112669453	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gctgacgatgaggcctgactGtgcccacttggtggctttcc	13	12	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:112669453G>A	uc009zwc.2	-	32	4816	c.4798C>T	c.(4798-4800)CAG>TAG	p.Q1600*		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						AGGCCTGACTGTGCCCACTTG	0.542													25	58	---	---	---	---	PASS	A	112669453	A	A	112669453	4	1	170	1	0	0	0	0	0	1	0	0	1696	1386	48	3	7344	3	C12orf51	12	112669453	Nonsense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	2670610	112669453	21182442	242	60969										
PLBD2	196463	broad.mit.edu	37	chr12	113823073	113823073	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctaccagaagacctactgggCcagctacaacataccgtgcg	9	14	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:113823073C>G	uc001tve.2	+	9	1306	c.1271C>G	c.(1270-1272)GCC>GGC	p.A424G	PLBD2_uc001tvf.2_Missense_Mutation_p.A392G	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	424					lipid catabolic process	lysosomal lumen	hydrolase activity				0						ACCTACTGGGCCAGCTACAAC	0.582													34	55	---	---	---	---	PASS	G	113823073	G	G	113823073	3	3	170	1	0	0	0	0	1	0	0	0	12026	739	26	4	1305	4	PLBD2	12	113823073	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	1153620	113823073	20028822	243	60970										
NOS1	4842	broad.mit.edu	37	chr12	117696860	117696860	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctcagggggatctccattgcCaaaggtgctggtgaccacaa	12	11	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:117696860C>T	uc001twm.1	-	15	3129	c.2443G>A	c.(2443-2445)GGC>AGC	p.G815S	NOS1_uc001twn.1_5'Flank	NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	815	Flavodoxin-like.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	TCTCCATTGCCAAAGGTGCTG	0.502													24	55	---	---	---	---	PASS	T	117696860	T	T	117696860	3	4	170	1	0	0	0	0	1	0	0	0	10541	594	21	3	1921	3	NOS1	12	117696860	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	3873787	117696860	16155035	244	60971										
DNAH10	196385	broad.mit.edu	37	chr12	124272399	124272399	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	accttggaagccaggaacacCctcaggctgtggaaaaaggc	12	11	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:124272399C>A	uc001uft.3	+	10	1312	c.1287C>A	c.(1285-1287)ACC>ACA	p.T429T	DNAH10_uc010tav.1_5'Flank|DNAH10_uc010taw.1_5'Flank	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	429	Stem (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)		CCAGGAACACCCTCAGGCTGT	0.582													7	10	---	---	---	---	PASS	A	124272399	A	A	124272399	2	1	170	1	0	0	0	0	0	0	0	1	4598	610	22	3		3	DNAH10	12	124272399	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	6575539	124272399	9579496	245	60972										
NCOR2	9612	broad.mit.edu	37	chr12	124841232	124841232	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aggggtccggggcatgcgggGaggccttgatcacctcacgg	18	11	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr12:124841232G>A	uc010tba.1	-	23	3338	c.3221C>T	c.(3220-3222)TCC>TTC	p.S1074F	NCOR2_uc010tay.1_Missense_Mutation_p.S1073F|NCOR2_uc010taz.1_Missense_Mutation_p.S1057F|NCOR2_uc010tbb.1_Missense_Mutation_p.S1066F|NCOR2_uc010tbc.1_Missense_Mutation_p.S1056F|NCOR2_uc001ugj.1_Missense_Mutation_p.S1074F	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1074					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GGCATGCGGGGAGGCCTTGAT	0.672													20	28	---	---	---	---	PASS	A	124841232	A	A	124841232	3	1	170	1	0	0	0	0	1	0	0	0	10236	1174	41	2	4447	2	NCOR2	12	124841232	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	568833	124841232	9010663	246	60973										
SKA3	221150	broad.mit.edu	37	chr13	21742475	21742475	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	acagatcatctttcacatcaGtcttctgaaaattttcacaa	3	10	7	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr13:21742475G>C	uc001unt.2	-	4	489	c.395C>G	c.(394-396)ACT>AGT	p.T132S	SKA3_uc001unv.2_Missense_Mutation_p.T50S|SKA3_uc001unu.2_Missense_Mutation_p.T132S	NM_145061	NP_659498	Q8IX90	SKA3_HUMAN	SKA3	132					cell division|chromosome segregation|mitosis|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytoplasm|spindle microtubule	protein binding				0						TTTCACATCAGTCTTCTGAAA	0.408													20	46	---	---	---	---	PASS	C	21742475	C	C	21742475	3	2	170	1	0	0	0	0	1	0	0	0	14354	1029	36	4	914	4	SKA3	13	21742475	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08		21742475	93427403	247	60974										
PABPC3	5042	broad.mit.edu	37	chr13	25672058	25672058	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	atgcaccctactcttgctggGaaaatcactggcatgttgtt	9	10	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr13:25672058G>T	uc001upy.2	+	1	1783	c.1722G>T	c.(1720-1722)GGG>GGT	p.G574G		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	574	PABC.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		CTCTTGCTGGGAAAATCACTG	0.463													6	150	---	---	---	---	PASS	T	25672058	T	T	25672058	2	4	170	1	0	0	0	0	0	0	0	1	11365	1161	41	2		2	PABPC3	13	25672058	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	3929583	25672058	89497820	248	60975			2	64		3	3	131	N	G_A	1.064694e-06
PABPC3	5042	broad.mit.edu	37	chr13	25672105	25672105	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgataattcagaacttctttAtatgctcgagtctccagagt	7	8	3	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr13:25672105A>C	uc001upy.2	+	1	1830	c.1769A>C	c.(1768-1770)TAT>TCT	p.Y590S		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	590	PABC.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		GAACTTCTTTATATGCTCGAG	0.448													14	131	---	---	---	---	PASS	C	25672105	C	C	25672105	3	2	170	1	0	0	0	0	1	0	0	0	11365	449	16	5	1771	5	PABPC3	13	25672105	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	47	25672105	89497773	249	60976			2	64		3	3	131	N	G_A	1.064694e-06
PABPC3	5042	broad.mit.edu	37	chr13	25672188	25672188	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cccaccaagctaaagaggctAcccagaaagcagttaacagt	8	12	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr13:25672188A>G	uc001upy.2	+	1	1913	c.1852A>G	c.(1852-1854)ACC>GCC	p.T618A		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	618					mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		TAAAGAGGCTACCCAGAAAGC	0.408													12	165	---	---	---	---	PASS	G	25672188	G	G	25672188	3	3	170	1	0	0	0	0	1	0	0	0	11365	391	14	5	1854	5	PABPC3	13	25672188	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	83	25672188	89497690	250	60977			2	64		3	3	131	N	G_A	1.064694e-06
MTMR6	9107	broad.mit.edu	37	chr13	25840394	25840394	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	aatcattttgtttgggattaTaagaaaatgcatagagatct	8	3	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr13:25840394T>C	uc001uqf.3	-	4	654	c.335A>G	c.(334-336)TAT>TGT	p.Y112C	MTMR6_uc001uqe.1_Missense_Mutation_p.Y112C	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	112						cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		TTTGGGATTATAAGAAAATGC	0.338													9	18	---	---	---	---	PASS	C	25840394	C	C	25840394	3	2	170	1	0	0	0	0	1	0	0	0	9947	1406	49	5	1574	5	MTMR6	13	25840394	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	168206	25840394	89329484	251	60978										
PCCA	5095	broad.mit.edu	37	chr13	100741426	100741439	+	Frame_Shift_Del	DEL	GGGCGGTGGCCGCC	-	-													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tggtcgctgccggacggcgtGggcggtggccgccgcagcag							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr13:100741426_100741439delGGGCGGTGGCCGCC	uc001voo.2	+	1	90_103	c.52_65delGGGCGGTGGCCGCC	c.(52-66)GGGCGGTGGCCGCCGfs	p.G18fs	PCCA_uc010aga.2_Frame_Shift_Del_p.G18fs|PCCA_uc010tiz.1_Frame_Shift_Del_p.G18fs	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	18_22					fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	CGGACGGCGTGGGCGGTGGCCGCCGCAGCAGCTG	0.72													6	3	---	---	---	---		-	100741439	-	-	100741426	7	5	170	1	0	1	0	1	0	0	0	0	11504	1348	47	0	54	0	PCCA	13	100741426	Frame_Shift_Del	DEL	GGGCGGTGGCCGCC	TCGA-66-2793-01A-01D-1267-08	74901032	100741426	14428452	252	60979										
MYO16	23026	broad.mit.edu	37	chr13	109459128	109459128	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gatcagtactggactcccctCcacttggcagccaaatatgg	9	13	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr13:109459128C>G	uc001vqt.1	+	7	903	c.777C>G	c.(775-777)CTC>CTG	p.L259L	MYO16_uc010agk.1_Silent_p.L281L|MYO16_uc001vqu.1_Silent_p.L59L	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	259	ANK 7.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			GGACTCCCCTCCACTTGGCAG	0.363													17	17	---	---	---	---	PASS	G	109459128	G	G	109459128	2	3	170	1	0	0	0	0	0	0	0	1	10064	842	30	2		2	MYO16	13	109459128	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	8717702	109459128	5710750	253	60980										
AKAP6	9472	broad.mit.edu	37	chr14	33165250	33165250	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgggattggctgattgacatGgagtcccttgtgatggacag	15	6	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr14:33165250G>C	uc001wrq.2	+	9	3104	c.2934G>C	c.(2932-2934)ATG>ATC	p.M978I	AKAP6_uc010aml.2_Missense_Mutation_p.M975I	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	978					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TGATTGACATGGAGTCCCTTG	0.463													6	30	---	---	---	---	PASS	C	33165250	C	C	33165250	3	2	170	1	0	0	0	0	1	0	0	0	455	1348	47	4	2964	4	AKAP6	14	33165250	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08		33165250	74184290	254	60981										
PAX9	5083	broad.mit.edu	37	chr14	37145492	37145492	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gcccaagtgtcgccttacatGacctacagtgctgctccttc	8	15	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr14:37145492G>C	uc001wty.3	+	5	1578	c.861G>C	c.(859-861)ATG>ATC	p.M287I	PAX9_uc010amq.2_RNA	NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	287					multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		CGCCTTACATGACCTACAGTG	0.562													202	161	---	---	---	---	PASS	C	37145492	C	C	37145492	3	2	170	1	0	0	0	0	1	0	0	0	11486	1290	45	2	875	2	PAX9	14	37145492	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	3980242	37145492	70204048	255	60982										
MIPOL1	145282	broad.mit.edu	37	chr14	38016160	38016160	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaaggttggaaccgggaccaTgaggacagtgatctgattga	15	6	1	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr14:38016160T>G	uc001wuc.2	+	14	1816	c.1313T>G	c.(1312-1314)ATG>AGG	p.M438R	MIPOL1_uc001wud.2_Missense_Mutation_p.M438R|MIPOL1_uc010ams.2_Missense_Mutation_p.M438R|MIPOL1_uc001wue.2_Missense_Mutation_p.M407R|MIPOL1_uc010amt.2_Missense_Mutation_p.M257R	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	438										ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		ACCGGGACCATGAGGACAGTG	0.483													8	32	---	---	---	---	PASS	G	38016160	G	G	38016160	3	3	170	1	0	0	0	0	1	0	0	0	9593	1464	51	5	1355	5	MIPOL1	14	38016160	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	870668	38016160	69333380	256	60983										
TMEM63C	57156	broad.mit.edu	37	chr14	77709389	77709389	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	caacgtcacccgccccatcgAgaagctgcaggtgcctcctc	9	18	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr14:77709389A>G	uc001xtf.2	+	15	1543	c.1331A>G	c.(1330-1332)GAG>GGG	p.E444G	TMEM63C_uc010asq.1_Missense_Mutation_p.E444G	NM_020431	NP_065164	Q9P1W3	TM63C_HUMAN	transmembrane protein 63C	444						integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0342)		CGCCCCATCGAGAAGCTGCAG	0.572													42	5	---	---	---	---	PASS	G	77709389	G	G	77709389	3	3	170	1	0	0	0	0	1	0	0	0	16189	304	11	5	1381	5	TMEM63C	14	77709389	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	39693229	77709389	29640151	257	60984										
CYP46A1	10858	broad.mit.edu	37	chr14	100173937	100173937	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	atggagaccagtatgctgctGggtgcccagaagcctctgtc	13	11	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr14:100173937G>T	uc001ygo.2	+	7	615	c.615G>T	c.(613-615)CTG>CTT	p.L205L	CYP46A1_uc001ygn.1_Silent_p.L167L|CYP46A1_uc001ygp.2_Silent_p.L52L	NM_006668	NP_006659	Q9Y6A2	CP46A_HUMAN	cytochrome P450, family 46	205					bile acid biosynthetic process|cholesterol catabolic process|nervous system development|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol 24-hydroxylase activity|electron carrier activity|heme binding|steroid hydroxylase activity				0		Melanoma(154;0.0866)|all_epithelial(191;0.179)				GTATGCTGCTGGGTGCCCAGA	0.592													82	163	---	---	---	---	PASS	T	100173937	T	T	100173937	2	4	170	1	0	0	0	0	0	0	0	1	4182	1335	47	3		3	CYP46A1	14	100173937	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	22464548	100173937	7175603	258	60985										
PLD4	122618	broad.mit.edu	37	chr14	105398383	105398383	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tggacaacgcgctgcgggcgGcagccttcggcaagggcgtg	18	12	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr14:105398383G>T	uc001ypu.1	+	9	1234	c.1093G>T	c.(1093-1095)GCA>TCA	p.A365S	PLD4_uc010tyl.1_Missense_Mutation_p.A372S	NM_138790	NP_620145	Q96BZ4	PLD4_HUMAN	phospholipase D4	365					lipid catabolic process	integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity			central_nervous_system(1)|skin(1)	2		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.00067)|OV - Ovarian serous cystadenocarcinoma(23;0.00976)|Epithelial(46;0.0201)|GBM - Glioblastoma multiforme(11;0.116)		Choline(DB00122)	GCTGCGGGCGGCAGCCTTCGG	0.711													5	49	---	---	---	---	PASS	T	105398383	T	T	105398383	3	4	170	1	0	0	0	0	1	0	0	0	12048	1203	42	3	1123	3	PLD4	14	105398383	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	5224446	105398383	1951157	259	60986										
AHNAK2	113146	broad.mit.edu	37	chr14	105423996	105423996	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cctggctccccgggctgcagCtgacggccggacactgcaga	14	16	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr14:105423996C>T	uc010axc.1	-	2	189	c.69G>A	c.(67-69)CAG>CAA	p.Q23Q	AHNAK2_uc001ypx.2_5'UTR	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	23						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)			CGGGCTGCAGCTGACGGCCGG	0.622													10	15	---	---	---	---	PASS	T	105423996	T	T	105423996	2	4	170	1	0	0	0	0	0	0	0	1	415	796	28	3		3	AHNAK2	14	105423996	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	25613	105423996	1925544	260	60987										
MKRN3	7681	broad.mit.edu	37	chr15	23812425	23812425	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggacttgcttcattatgagcTggaagaatatttcaatttga	9	5	2	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:23812425T>A	uc001ywh.3	+	1	1972	c.1496T>A	c.(1495-1497)CTG>CAG	p.L499Q	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Intron	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	499						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		CATTATGAGCTGGAAGAATAT	0.473													41	83	---	---	---	---	PASS	A	23812425	A	A	23812425	3	1	170	1	0	0	0	0	1	0	0	0	9608	1580	55	5	1498	5	MKRN3	15	23812425	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08		23812425	78718967	261	60988										
APBA2	321	broad.mit.edu	37	chr15	29368283	29368283	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaaggtggcatcatttccaaGttttgtggctggtaagtgac	13	6	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:29368283G>A	uc001zck.2	+	5	1265	c.1058G>A	c.(1057-1059)AGT>AAT	p.S353N	APBA2_uc010azj.2_Missense_Mutation_p.S353N|APBA2_uc010uat.1_Missense_Mutation_p.S353N|APBA2_uc001zcl.2_Missense_Mutation_p.S353N|APBA2_uc001zcm.1_Missense_Mutation_p.S57N	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	353					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)		TCATTTCCAAGTTTTGTGGCT	0.373													60	42	---	---	---	---	PASS	A	29368283	A	A	29368283	3	1	170	1	0	0	0	0	1	0	0	0	757	1029	36	3	1068	3	APBA2	15	29368283	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	5555858	29368283	73163109	262	60989										
RYR3	6263	broad.mit.edu	37	chr15	34080535	34080535	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cggtgcaggaggaggagcagTtgaaagccgatggcaaaggg	19	6	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:34080535T>C	uc001zhi.2	+	67	9776	c.9706T>C	c.(9706-9708)TTG>CTG	p.L3236L	RYR3_uc010bar.2_Silent_p.L3236L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3236					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGAGGAGCAGTTGAAAGCCGA	0.562													106	84	---	---	---	---	PASS	C	34080535	C	C	34080535	2	2	170	1	0	0	0	0	0	0	0	1	13770	1722	60	5		5	RYR3	15	34080535	Silent	SNP	T	TCGA-66-2793-01A-01D-1267-08	4712252	34080535	68450857	263	60990										
GJD2	57369	broad.mit.edu	37	chr15	35045257	35045257	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	accactgcccccacccccagTtcctccaggacctcctatgg	6	21	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:35045257T>G	uc001zis.1	-	2	388	c.388A>C	c.(388-390)ACT>CCT	p.T130P	uc001zit.1_5'Flank	NM_020660	NP_065711	Q9UKL4	CXD2_HUMAN	gap junction protein, delta 2, 36kDa	130	Cytoplasmic (Potential).|Poly-Gly.				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_lung(180;9.67e-07)		all cancers(64;2.75e-18)|GBM - Glioblastoma multiforme(113;1.9e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		CCACCCCCAGTTCCTCCAGGA	0.562													7	263	---	---	---	---	PASS	G	35045257	G	G	35045257	3	3	170	1	0	0	0	0	1	0	0	0	6417	1725	60	5	581	5	GJD2	15	35045257	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	964722	35045257	67486135	264	60991										
DISP2	85455	broad.mit.edu	37	chr15	40661237	40661237	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gggcctggctttggcgctggCctttgccacactgctcctgg	14	14	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:40661237C>A	uc001zlk.1	+	8	3013	c.2924C>A	c.(2923-2925)GCC>GAC	p.A975D		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	975	Helical; (Potential).				smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		TTGGCGCTGGCCTTTGCCACA	0.617													41	80	---	---	---	---	PASS	A	40661237	A	A	40661237	3	1	170	1	0	0	0	0	1	0	0	0	4540	739	26	3	2954	3	DISP2	15	40661237	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	5615980	40661237	61870155	265	60992										
VPS18	57617	broad.mit.edu	37	chr15	41192573	41192573	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctgactctctaccgagaaacCaaggaatgctttcgaacctt	7	12	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:41192573C>G	uc001zne.2	+	4	1896	c.1557C>G	c.(1555-1557)ACC>ACG	p.T519T		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	519					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		ACCGAGAAACCAAGGAATGCT	0.622													22	205	---	---	---	---	PASS	G	41192573	G	G	41192573	2	3	170	1	0	0	0	0	0	0	0	1	17191	581	21	4		4	VPS18	15	41192573	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	531336	41192573	61338819	266	60993										
EPB42	2038	broad.mit.edu	37	chr15	43502602	43502602	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	acctgcttgtccttgctcagCaagcgcaggctgaggtcaat	11	12	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:43502602C>A	uc001zra.3	-	5	885	c.585G>T	c.(583-585)TTG>TTT	p.L195F	EPB42_uc001zqz.3_5'Flank|EPB42_uc010bde.2_Missense_Mutation_p.L40F|EPB42_uc001zrb.3_Missense_Mutation_p.L225F|EPB42_uc010udm.1_Missense_Mutation_p.L117F	NM_001114134	NP_001107606	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2 isoform 2	195					erythrocyte maturation|peptide cross-linking|regulation of cell shape	cytoplasm|cytoskeleton|plasma membrane	ATP binding|protein binding|protein-glutamine gamma-glutamyltransferase activity|structural constituent of cytoskeleton			ovary(2)	2		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		CCTTGCTCAGCAAGCGCAGGC	0.602													132	102	---	---	---	---	PASS	A	43502602	A	A	43502602	3	1	170	1	0	0	0	0	1	0	0	0	5158	709	25	3	1526	3	EPB42	15	43502602	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	2310029	43502602	59028790	267	60994										
SPG11	80208	broad.mit.edu	37	chr15	44907619	44907619	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	actgtgctccaaacaatagaGaatgaattgagaatggaaat	9	5	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:44907619G>T	uc001ztx.2	-	16	3011	c.2980C>A	c.(2980-2982)CTC>ATC	p.L994I	SPG11_uc010ueh.1_Missense_Mutation_p.L994I|SPG11_uc010uei.1_Missense_Mutation_p.L994I|SPG11_uc001ztz.1_Missense_Mutation_p.L153I	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	994	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		AAACAATAGAGAATGAATTGA	0.428													6	32	---	---	---	---	PASS	T	44907619	T	T	44907619	3	4	170	1	0	0	0	0	1	0	0	0	15040	942	33	2	4451	2	SPG11	15	44907619	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	1405017	44907619	57623773	268	60995										
MAN2C1	4123	broad.mit.edu	37	chr15	75649169	75649169	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	atgctgcctcgcactgacgcGccatacttgcagtcgttgag	11	13	0	2	rs142107948		TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:75649169G>A	uc002baf.2	-	22	2639	c.2622C>T	c.(2620-2622)GGC>GGT	p.G874G	MAN2C1_uc002bag.2_Silent_p.G874G|MAN2C1_uc002bah.2_Silent_p.G891G|MAN2C1_uc010bkk.2_Silent_p.G775G	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	874					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						GCACTGACGCGCCATACTTGC	0.607													7	99	---	---	---	---	PASS	A	75649169	A	A	75649169	2	1	170	1	0	0	0	0	0	0	0	1	9218	1074	38	1		1	MAN2C1	15	75649169	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	30741550	75649169	26882223	269	60996										
KIAA1024	23251	broad.mit.edu	37	chr15	79755626	79755626	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgaggagtatgcacggaatgCgggcgacaagggcaagctga	17	7	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:79755626C>T	uc002bew.1	+	3	2591	c.2516C>T	c.(2515-2517)GCG>GTG	p.A839V	KIAA1024_uc010unk.1_Missense_Mutation_p.A839V	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	839						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						GCACGGAATGCGGGCGACAAG	0.612													4	118	---	---	---	---	PASS	T	79755626	T	T	79755626	3	4	170	1	0	0	0	0	1	0	0	0	8205	768	27	1	2522	1	KIAA1024	15	79755626	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	4106457	79755626	22775766	270	60997										
PLIN1	5346	broad.mit.edu	37	chr15	90213363	90213363	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccccccaggcaagctcgcacCcggccaaagcggcccccagg	11	21	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:90213363C>A	uc010upx.1	-	5	556	c.446G>T	c.(445-447)GGG>GTG	p.G149V	PLIN1_uc002boh.2_Missense_Mutation_p.G149V	NM_001145311	NP_001138783	O60240	PLIN1_HUMAN	perilipin 1	149					triglyceride catabolic process	lipid particle	lipid binding			central_nervous_system(1)|skin(1)	2						AAGCTCGCACCCGGCCAAAGC	0.647													28	19	---	---	---	---	PASS	A	90213363	A	A	90213363	3	1	170	1	0	0	0	0	1	0	0	0	12089	623	22	3	1142	3	PLIN1	15	90213363	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	10457737	90213363	12318029	271	60998										
FES	2242	broad.mit.edu	37	chr15	91428341	91428341	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctgcagcaaatgcaggaggcCgagcttcgtctactggaggg	15	10	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:91428341C>A	uc002bpv.2	+	2	162	c.66C>A	c.(64-66)GCC>GCA	p.A22A	FES_uc010uqj.1_Silent_p.A22A|FES_uc010uqk.1_Silent_p.A22A|FES_uc002bpw.2_RNA|FES_uc010bny.2_Silent_p.A22A|FES_uc002bpx.2_Silent_p.A22A|FES_uc002bpy.2_Silent_p.A22A	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	22	FCH.|Important for interaction with membranes containing phosphoinositides.				axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			TGCAGGAGGCCGAGCTTCGTC	0.602													157	149	---	---	---	---	PASS	A	91428341	A	A	91428341	2	1	170	1	0	0	0	0	0	0	0	1	5820	639	23	1		1	FES	15	91428341	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	1214978	91428341	11103051	272	60999										
SPATA8	145946	broad.mit.edu	37	chr15	97326900	97326900	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgaggaatggccccggctggGatgtcaggggcccaggacaa	17	10	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr15:97326900G>A	uc002bue.2	+	1	225	c.15G>A	c.(13-15)GGG>GGA	p.G5G	uc010uro.1_5'Flank|uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8	5										ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			CCCCGGCTGGGATGTCAGGGG	0.567													40	47	---	---	---	---	PASS	A	97326900	A	A	97326900	2	1	170	1	0	0	0	0	0	0	0	1	15014	1161	41	2		2	SPATA8	15	97326900	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	5898559	97326900	5204492	273	61000										
CLCN7	1186	broad.mit.edu	37	chr16	1510933	1510933	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agatgacccagcgcttgatcTccaccgtccggaaggcctgc	11	15	1	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr16:1510933T>C	uc002clv.2	-	5	478	c.368A>G	c.(367-369)GAG>GGG	p.E123G	CLCN7_uc002clw.2_Missense_Mutation_p.E99G	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	123	Cytoplasmic (By similarity).					integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				GCGCTTGATCTCCACCGTCCG	0.662													10	110	---	---	---	---	PASS	C	1510933	C	C	1510933	3	2	170	1	0	0	0	0	1	0	0	0	3468	1551	54	5	2133	5	CLCN7	16	1510933	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08		1510933	88843820	274	61001										
GFER	2671	broad.mit.edu	37	chr16	2035935	2035935	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gtggctgtgccacctgcacaAtgaagtgaaccgcaagctgg	13	11	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr16:2035935A>G	uc002cob.2	+	3	594	c.524A>G	c.(523-525)AAT>AGT	p.N175S	GFER_uc002coc.2_Missense_Mutation_p.N100S	NM_005262	NP_005253	P55789	ALR_HUMAN	erv1-like growth factor	175	ERV/ALR sulfhydryl oxidase.				cell proliferation|spermatogenesis	extracellular region|mitochondrial intermembrane space	growth factor activity|thiol oxidase activity				0						CACCTGCACAATGAAGTGAAC	0.592													186	148	---	---	---	---	PASS	G	2035935	G	G	2035935	3	3	170	1	0	0	0	0	1	0	0	0	6338	101	4	5	534	5	GFER	16	2035935	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	525002	2035935	88318818	275	61002										
FLYWCH1	84256	broad.mit.edu	37	chr16	2979987	2979987	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagccctagagatgcctgaaCagaagtgcagcaagctggat	12	10	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr16:2979987C>G	uc002csd.2	+	3	664	c.301C>G	c.(301-303)CAG>GAG	p.Q101E	FLYWCH1_uc002csb.2_Missense_Mutation_p.Q101E|FLYWCH1_uc002csc.2_Missense_Mutation_p.Q101E	NM_032296	NP_115672	Q4VC44	FWCH1_HUMAN	FLYWCH-type zinc finger 1 isoform a	101						nucleus	DNA binding|metal ion binding				0						GATGCCTGAACAGAAGTGCAG	0.667													16	44	---	---	---	---	PASS	G	2979987	G	G	2979987	3	3	170	1	0	0	0	0	1	0	0	0	5947	479	17	4	303	4	FLYWCH1	16	2979987	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	944052	2979987	87374766	276	61003										
CREBBP	1387	broad.mit.edu	37	chr16	3788651	3788651	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccggaagaaatgaatactatCcagataagaaatgtacacac	7	8	0	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr16:3788651C>A	uc002cvv.2	-	26	4507	c.4303G>T	c.(4303-4305)GAT>TAT	p.D1435Y	CREBBP_uc002cvw.2_Missense_Mutation_p.D1397Y	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1435	Cys/His-rich.				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	p.D1435G(1)|p.D1435E(1)		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)		TGAATACTATCCAGATAAGAA	0.433			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				10	38	---	---	---	---	PASS	A	3788651	A	A	3788651	3	1	170	1	0	0	0	0	1	0	0	0	3861	855	30	2	3049	2	CREBBP	16	3788651	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	808664	3788651	86566102	277	61004										
C16orf89	146556	broad.mit.edu	37	chr16	5108554	5108554	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagtagcctgagcagccgggCttggtcatgaggctcctgca	14	12	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr16:5108554C>T	uc010bud.2	-	4	769	c.681G>A	c.(679-681)AAG>AAA	p.K227K	ALG1_uc002cyj.2_Intron|C16orf89_uc002cyk.3_Silent_p.K227K	NM_152459	NP_689672	Q6UX73	CP089_HUMAN	hypothetical protein LOC146556 isoform 1	189						extracellular region				ovary(1)|skin(1)	2						AGCAGCCGGGCTTGGTCATGA	0.647													20	144	---	---	---	---	PASS	T	5108554	T	T	5108554	2	4	170	1	0	0	0	0	0	0	0	1	1842	796	28	3		3	C16orf89	16	5108554	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	1319903	5108554	85246199	278	61005										
RSL1D1	26156	broad.mit.edu	37	chr16	11933741	11933741	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccactttcaggtgccacatcAtctttactaagaactgatgc	6	12	3	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr16:11933741A>G	uc002dbp.1	-	8	1030	c.957T>C	c.(955-957)GAT>GAC	p.D319D	RSL1D1_uc010buv.1_Silent_p.D318D|RSL1D1_uc010uyw.1_Silent_p.D99D|RSL1D1_uc010buw.2_RNA	NM_015659	NP_056474	O76021	RL1D1_HUMAN	ribosomal L1 domain containing 1	319					regulation of protein localization|translation	large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						GTGCCACATCATCTTTACTAA	0.284													44	373	---	---	---	---	PASS	G	11933741	G	G	11933741	2	3	170	1	0	0	0	0	0	0	0	1	13700	214	8	5		5	RSL1D1	16	11933741	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	6825187	11933741	78421012	279	61006										
RBBP6	5930	broad.mit.edu	37	chr16	24581518	24581518	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcttcaatgaaaatctcgaaActagaagtgactgaaatagt	7	6	3	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr16:24581518A>T	uc002dmh.2	+	17	4547	c.3507A>T	c.(3505-3507)AAA>AAT	p.K1169N	RBBP6_uc010vcb.1_Missense_Mutation_p.K1036N|RBBP6_uc002dmi.2_Missense_Mutation_p.K1135N|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Missense_Mutation_p.K1002N	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1169					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		AAATCTCGAAACTAGAAGTGA	0.328													26	35	---	---	---	---	PASS	T	24581518	T	T	24581518	3	4	170	1	0	0	0	0	1	0	0	0	13103	40	2	5	3627	5	RBBP6	16	24581518	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	12647777	24581518	65773235	280	61007										
SRCAP	10847	broad.mit.edu	37	chr16	30715393	30715393	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cctcttttctagatggtgtcGgacggcatgacaggcagcaa	12	10	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr16:30715393G>A	uc002dze.1	+	4	448	c.63G>A	c.(61-63)TCG>TCA	p.S21S	SRCAP_uc002dzf.2_RNA	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	21					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			AGATGGTGTCGGACGGCATGA	0.373													71	98	---	---	---	---	PASS	A	30715393	A	A	30715393	2	1	170	1	0	0	0	0	0	0	0	1	15134	1103	39	1		1	SRCAP	16	30715393	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	6133875	30715393	59639360	281	61008										
ITGAX	3687	broad.mit.edu	37	chr16	31391846	31391846	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cccccaacccctttgcagatAttgcagaagaaggtgtcggt	10	12	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr16:31391846A>C	uc002ebu.1	+	28	3244	c.3177A>C	c.(3175-3177)ATA>ATC	p.I1059I	ITGAX_uc002ebt.2_Silent_p.I1059I	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	1059	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CTTTGCAGATATTGCAGAAGA	0.562													5	83	---	---	---	---	PASS	C	31391846	C	C	31391846	2	2	170	1	0	0	0	0	0	0	0	1	7889	439	16	5		5	ITGAX	16	31391846	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	676453	31391846	58962907	282	61009										
MYLK3	91807	broad.mit.edu	37	chr16	46781653	46781653	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcagggctgtcacctgggctGcctctcctccagggcacacg	12	16	3	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr16:46781653G>A	uc002eei.3	-	1	569	c.453C>T	c.(451-453)GGC>GGT	p.G151G	MYLK3_uc010vge.1_Intron	NM_182493	NP_872299	Q32MK0	MYLK3_HUMAN	myosin light chain kinase 3	151					cardiac myofibril assembly|cellular response to interleukin-1|positive regulation of sarcomere organization|regulation of vascular permeability involved in acute inflammatory response|sarcomere organization|sarcomerogenesis	cytosol	ATP binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			stomach(2)|skin(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	7		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				CACCTGGGCTGCCTCTCCTCC	0.657													100	21	---	---	---	---	PASS	A	46781653	A	A	46781653	2	1	170	1	0	0	0	0	0	0	0	1	10058	1306	46	3		3	MYLK3	16	46781653	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	15389807	46781653	43573100	283	61010										
SLC38A7	55238	broad.mit.edu	37	chr16	58706125	58706125	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcaggatccacagcagctccAaaggtcaggaagccacagat	10	12	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr16:58706125A>G	uc002eod.1	-	9	1299	c.906T>C	c.(904-906)TTT>TTC	p.F302F	SLC38A7_uc002eob.1_RNA|SLC38A7_uc002eoc.1_Intron|SLC38A7_uc010vil.1_Silent_p.F213F|SLC38A7_uc002eoe.1_Silent_p.F302F	NM_018231	NP_060701	Q9NVC3	S38A7_HUMAN	solute carrier family 38, member 7	302	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane				ovary(1)	1						CAGCAGCTCCAAAGGTCAGGA	0.617													6	0	---	---	---	---	PASS	G	58706125	G	G	58706125	2	3	170	1	0	0	0	0	0	0	0	1	14609	127	5	5		5	SLC38A7	16	58706125	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	11924472	58706125	31648628	284	61011										
ZFHX3	463	broad.mit.edu	37	chr16	72829353	72829353	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagttcctcagcctccgctgTaagctgcaagaaagcggagg	12	12	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr16:72829353T>A	uc002fck.2	-	9	7901	c.7228A>T	c.(7228-7230)ACA>TCA	p.T2410S	ZFHX3_uc002fcl.2_Missense_Mutation_p.T1496S	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2410					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GCCTCCGCTGTAAGCTGCAAG	0.557													4	103	---	---	---	---	PASS	A	72829353	A	A	72829353	3	1	170	1	0	0	0	0	1	0	0	0	17631	1638	57	5	3891	5	ZFHX3	16	72829353	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	14123228	72829353	17525400	285	61012										
TP53	7157	broad.mit.edu	37	chr17	7578394	7578394	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cgctatctgagcagcgctcaTggtgggggcagcgcctcaca	14	13	3	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:7578394T>A	uc002gim.2	-	5	730	c.536A>T	c.(535-537)CAT>CTT	p.H179L	TP53_uc002gig.1_Missense_Mutation_p.H179L|TP53_uc002gih.2_Missense_Mutation_p.H179L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H47L|TP53_uc010cng.1_Missense_Mutation_p.H47L|TP53_uc002gii.1_Missense_Mutation_p.H47L|TP53_uc010cnh.1_Missense_Mutation_p.H179L|TP53_uc010cni.1_Missense_Mutation_p.H179L|TP53_uc002gij.2_Missense_Mutation_p.H179L|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.H86L|TP53_uc002gio.2_Missense_Mutation_p.H47L|TP53_uc010vug.1_Missense_Mutation_p.H140L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	179	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	H -> Q (in sporadic cancers; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|HH -> QS (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> D (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> Y (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H179R(99)|p.H179Y(74)|p.H179L(31)|p.H179Q(17)|p.H179N(13)|p.H179D(10)|p.P177_C182delPHHERC(8)|p.0?(7)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.H179P(3)|p.R175_E180delRCPHHE(3)|p.H179fs*68(2)|p.H179H(2)|p.P177fs*3(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.K164_P219del(1)|p.C176fs*65(1)|p.P177_H179delPHH(1)|p.V173fs*23(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.H179del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.H178fs*6(1)|p.P177_E180delPHHE(1)|p.R42fs*24(1)|p.E171fs*1(1)|p.R174fs*3(1)|p.H178_H179>QY(1)|p.E171fs*61(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCAGCGCTCATGGTGGGGGCA	0.642		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			77	13	---	---	---	---	PASS	A	7578394	A	A	7578394	3	1	170	1	0	0	0	0	1	0	0	0	16378	1464	51	5	762	5	TP53	17	7578394	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08		7578394	73616816	286	61013										
DNAH9	1770	broad.mit.edu	37	chr17	11806058	11806058	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	actttcatcaatggaagaatTctctaatctggatcgggaca	8	8	4	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:11806058T>C	uc002gne.2	+	60	11497	c.11429T>C	c.(11428-11430)TTC>TCC	p.F3810S	DNAH9_uc010coo.2_Missense_Mutation_p.F3104S|DNAH9_uc002gnf.2_Missense_Mutation_p.F122S|DNAH9_uc010vvh.1_Missense_Mutation_p.F163S	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3810					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		ATGGAAGAATTCTCTAATCTG	0.458													145	11	---	---	---	---	PASS	C	11806058	C	C	11806058	3	2	170	1	0	0	0	0	1	0	0	0	4608	1783	62	5	11667	5	DNAH9	17	11806058	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	4227664	11806058	69389152	287	61014										
LRRC48	83450	broad.mit.edu	37	chr17	17910403	17910403	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cctggagatctctatcagcaCcctggagaagattgtcgagg	12	10	2	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:17910403C>T	uc010vxd.1	+	13	1647	c.1268C>T	c.(1267-1269)ACC>ATC	p.T423I	LRRC48_uc002gsa.2_Missense_Mutation_p.T423I|LRRC48_uc010vxc.1_Missense_Mutation_p.T423I|LRRC48_uc002gsb.2_Missense_Mutation_p.T423I	NM_001130090	NP_001123562	Q9H069	LRC48_HUMAN	leucine rich repeat containing 48 isoform a	423						cytoplasm				pancreas(1)	1	all_neural(463;0.228)					TCTATCAGCACCCTGGAGAAG	0.532													31	3	---	---	---	---	PASS	T	17910403	T	T	17910403	3	4	170	1	0	0	0	0	1	0	0	0	9005	507	18	3	1306	3	LRRC48	17	17910403	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	6104345	17910403	63284807	288	61015										
SPAG5	10615	broad.mit.edu	37	chr17	26911459	26911459	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tctgtagctcttttagctggCtgtccatgttggccagaatc	10	10	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:26911459C>T	uc002hbq.2	-	12	2293	c.2201G>A	c.(2200-2202)AGC>AAC	p.S734N	SGK494_uc010waq.1_Intron	NM_006461	NP_006452	Q96R06	SPAG5_HUMAN	sperm associated antigen 5	734	Gln-rich.				cell division|mitosis|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytoplasm|spindle pole	protein binding			central_nervous_system(1)	1	Lung NSC(42;0.00431)					TTTTAGCTGGCTGTCCATGTT	0.507													142	30	---	---	---	---	PASS	T	26911459	T	T	26911459	3	4	170	1	0	0	0	0	1	0	0	0	14981	797	28	3	1432	3	SPAG5	17	26911459	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	9001056	26911459	54283751	289	61016										
SRCIN1	80725	broad.mit.edu	37	chr17	36704853	36704853	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttgatggccgaggccatgatGggtggtgtggaggctgggcg	21	6	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:36704853G>A	uc002hqd.2	-	17	3435	c.3210C>T	c.(3208-3210)CCC>CCT	p.P1070P	SRCIN1_uc002hqf.1_Silent_p.P942P|SRCIN1_uc002hqe.2_Silent_p.P924P	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	942					exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						AGGCCATGATGGGTGGTGTGG	0.647													57	10	---	---	---	---	PASS	A	36704853	A	A	36704853	2	1	170	1	0	0	0	0	0	0	0	1	15135	1335	47	3		3	SRCIN1	17	36704853	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	9793394	36704853	44490357	290	61017										
IMP5	162540	broad.mit.edu	37	chr17	43922324	43922324	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gcttcctcctcctcatcagcAccgtggccgggggaaagtac	11	15	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:43922324A>T	uc010wka.1	+	1	52	c.52A>T	c.(52-54)ACC>TCC	p.T18S	LOC100128977_uc010wjz.1_Intron	NM_175882	NP_787078	Q8IUH8	IMP5_HUMAN	intramembrane protease 5 precursor	18						integral to membrane	aspartic-type endopeptidase activity			pancreas(2)	2	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.148)		CCTCATCAGCACCGTGGCCGG	0.617													37	45	---	---	---	---	PASS	T	43922324	T	T	43922324	3	4	170	1	0	0	0	0	1	0	0	0	7721	159	6	5	54	5	IMP5	17	43922324	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	7217471	43922324	37272886	291	61018										
HOXB1	3211	broad.mit.edu	37	chr17	46607946	46607946	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gagggatgaaaatagcctccGtctccttctgattgacccag	10	11	2	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:46607946G>C	uc002ink.1	-	1	327	c.321C>G	c.(319-321)GAC>GAG	p.D107E		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	107						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AATAGCCTCCGTCTCCTTCTG	0.657													76	172	---	---	---	---	PASS	C	46607946	C	C	46607946	3	2	170	1	0	0	0	0	1	0	0	0	7299	1136	40	4	592	4	HOXB1	17	46607946	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	2685622	46607946	34587264	292	61019										
OR4D2	124538	broad.mit.edu	37	chr17	56247896	56247896	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ataccctgaggaaccaggacAtgcaggcagcagtgagaaga	13	9	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:56247896A>T	uc010wnp.1	+	1	880	c.880A>T	c.(880-882)ATG>TTG	p.M294L		NM_001004707	NP_001004707	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D,	294	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						GAACCAGGACATGCAGGCAGC	0.512													77	161	---	---	---	---	PASS	T	56247896	T	T	56247896	3	4	170	1	0	0	0	0	1	0	0	0	11056	217	8	5	882	5	OR4D2	17	56247896	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	9639950	56247896	24947314	293	61020										
LPO	4025	broad.mit.edu	37	chr17	56344882	56344882	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gagccgctggtggaaaggggTcgggtggggcctctcctggc	20	10	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:56344882T>C	uc002ivt.2	+	12	2182	c.1866T>C	c.(1864-1866)GGT>GGC	p.G622G	LPO_uc010wns.1_Silent_p.G563G|LPO_uc010dcp.2_Silent_p.G539G|LPO_uc010dcq.2_Silent_p.G293G|LPO_uc010dcr.2_Silent_p.G185G	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	622					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						TGGAAAGGGGTCGGGTGGGGC	0.612													25	70	---	---	---	---	PASS	C	56344882	C	C	56344882	2	2	170	1	0	0	0	0	0	0	0	1	8922	1654	58	5		5	LPO	17	56344882	Silent	SNP	T	TCGA-66-2793-01A-01D-1267-08	96986	56344882	24850328	294	61021										
SCN4A	6329	broad.mit.edu	37	chr17	62025314	62025314	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	acaccttaaagccgtaggccAcccatttgagcagcatctcc	7	15	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:62025314A>G	uc002jds.1	-	17	3331	c.3254T>C	c.(3253-3255)GTG>GCG	p.V1085A		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1085	III.|Helical; Name=S2 of repeat III; (Potential).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GCCGTAGGCCACCCATTTGAG	0.542													35	60	---	---	---	---	PASS	G	62025314	G	G	62025314	3	3	170	1	0	0	0	0	1	0	0	0	13920	159	6	5	2288	5	SCN4A	17	62025314	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	5680432	62025314	19169896	295	61022										
H3F3B	3021	broad.mit.edu	37	chr17	73774729	73774729	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctggatgtctttgggcatgaTggtgactctcttagcgtgga	14	7	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:73774729T>C	uc002jpl.2	-	4	491	c.358A>G	c.(358-360)ATC>GTC	p.I120V		NM_005324	NP_005315	P84243	H33_HUMAN	H3 histone, family 3B	120					blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding			ovary(1)	1	all_cancers(13;1.5e-07)		all cancers(21;2.61e-06)|Epithelial(20;7.39e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|LUSC - Lung squamous cell carcinoma(166;0.154)			TTGGGCATGATGGTGACTCTC	0.498													93	180	---	---	---	---	PASS	C	73774729	C	C	73774729	3	2	170	1	0	0	0	0	1	0	0	0	6934	1464	51	5	56	5	H3F3B	17	73774729	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	11749415	73774729	7420481	296	61023										
EXOC7	23265	broad.mit.edu	37	chr17	74094068	74094068	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggctgcgaaattcggactccAgggcctccttcccgcgctca	11	16	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:74094068A>T	uc002jqs.2	-	5	544	c.449T>A	c.(448-450)CTG>CAG	p.L150Q	EXOC7_uc010dgv.1_Missense_Mutation_p.L97Q|EXOC7_uc002jqq.2_Missense_Mutation_p.L150Q|EXOC7_uc010wsw.1_Missense_Mutation_p.L150Q|EXOC7_uc010wsx.1_Missense_Mutation_p.L150Q|EXOC7_uc002jqr.2_Missense_Mutation_p.L150Q|EXOC7_uc010wsv.1_Missense_Mutation_p.L109Q|EXOC7_uc002jqu.2_Missense_Mutation_p.L150Q	NM_001145297	NP_001138769	Q9UPT5	EXOC7_HUMAN	exocyst complex component 7 isoform 4	150					exocytosis|protein transport	centriolar satellite|cytosol|exocyst|plasma membrane	protein binding				0			LUSC - Lung squamous cell carcinoma(166;0.187)			TTCGGACTCCAGGGCCTCCTT	0.587													65	74	---	---	---	---	PASS	T	74094068	T	T	74094068	3	4	170	1	0	0	0	0	1	0	0	0	5310	188	7	5	1822	5	EXOC7	17	74094068	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	319339	74094068	7101142	297	61024										
QRICH2	84074	broad.mit.edu	37	chr17	74276381	74276381	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gcctcaccttgttgtccatcTctgtgagcagcctgtccagc	9	15	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:74276381T>G	uc002jrd.1	-	11	4295	c.4115A>C	c.(4114-4116)GAG>GCG	p.E1372A	QRICH2_uc010wsz.1_Missense_Mutation_p.E1298A|QRICH2_uc010dgw.1_Missense_Mutation_p.E216A	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	1372							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						GTTGTCCATCTCTGTGAGCAG	0.637													53	246	---	---	---	---	PASS	G	74276381	G	G	74276381	3	3	170	1	0	0	0	0	1	0	0	0	12880	1551	54	5	912	5	QRICH2	17	74276381	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	182313	74276381	6918829	298	61025										
CCDC40	55036	broad.mit.edu	37	chr17	78023868	78023868	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctctctttggtccaggttgtGgctaccaagcagagccgagc	12	12	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:78023868G>T	uc010dht.2	+	7	972	c.945G>T	c.(943-945)GTG>GTT	p.V315V	CCDC40_uc010wub.1_Silent_p.V315V|CCDC40_uc002jxm.3_Silent_p.V98V	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	315	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			TCCAGGTTGTGGCTACCAAGC	0.597													18	67	---	---	---	---	PASS	T	78023868	T	T	78023868	2	4	170	1	0	0	0	0	0	0	0	1	2812	1335	47	3		3	CCDC40	17	78023868	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	3747487	78023868	3171342	299	61026										
ASPSCR1	79058	broad.mit.edu	37	chr17	79974979	79974979	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggcaaggtgcccaagtggctGaagctgccgggtactgcggc	17	11	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr17:79974979G>A	uc002kcx.2	+	15	1735	c.1638G>A	c.(1636-1638)CTG>CTA	p.L546L	ASPSCR1_uc002kcw.1_Silent_p.L546L|ASPSCR1_uc002kcy.2_Silent_p.L640L|ASPSCR1_uc002kcz.2_Silent_p.L440L|ASPSCR1_uc002kda.2_Silent_p.L494L	NM_024083	NP_076988	Q9BZE9	ASPC1_HUMAN	alveolar soft part sarcoma chromosome region,	546							protein binding		ASPSCR1/TFE3(161)	soft_tissue(118)|kidney(43)|breast(1)	162	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			CCAAGTGGCTGAAGCTGCCGG	0.721			T	TFE3	alveolar soft part sarcoma								20	12	---	---	---	---	PASS	A	79974979	A	A	79974979	2	1	170	1	0	0	0	0	0	0	0	1	1059	1277	45	2		2	ASPSCR1	17	79974979	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	1951111	79974979	1220231	300	61027										
GRP	2922	broad.mit.edu	37	chr18	56892922	56892922	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcagcagccttcgtgggattCagaggatagcagcaacttca	11	10	3	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr18:56892922C>A	uc002lhv.2	+	2	436	c.338C>A	c.(337-339)TCA>TAA	p.S113*	GRP_uc002lhu.2_Nonsense_Mutation_p.S113*|GRP_uc002lhw.2_Nonsense_Mutation_p.S113*	NM_002091	NP_002082	P07492	GRP_HUMAN	gastrin-releasing peptide isoform 1	113					neuropeptide signaling pathway	extracellular space	neuropeptide hormone activity				0		Colorectal(73;0.0946)				TCGTGGGATTCAGAGGATAGC	0.498													75	50	---	---	---	---	PASS	A	56892922	A	A	56892922	4	1	170	1	0	0	0	0	0	1	0	0	6805	838	29	2	344	2	GRP	18	56892922	Nonsense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08		56892922	21184326	301	61028										
SERPINB4	6318	broad.mit.edu	37	chr18	61306559	61306559	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gtattgcctcatcatctgtaCagatttgtatgtattctgca	7	8	4	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr18:61306559C>A	uc002ljf.2	-	7	714	c.628G>T	c.(628-630)GTA>TTA	p.V210L	SERPINB4_uc002lje.2_Intron|SERPINB4_uc002ljg.2_Intron	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	210					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						ATCATCTGTACAGATTTGTAT	0.358													14	12	---	---	---	---	PASS	A	61306559	A	A	61306559	3	1	170	1	0	0	0	0	1	0	0	0	14103	478	17	3	552	3	SERPINB4	18	61306559	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	4413637	61306559	16770689	302	61029										
RTTN	25914	broad.mit.edu	37	chr18	67741202	67741202	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgacttgtcctagatggagcCctccaaaacttgaatgagtc	9	10	0	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr18:67741202C>A	uc002lkp.2	-	34	4661	c.4593G>T	c.(4591-4593)AGG>AGT	p.R1531S	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.R619S	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1531							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TAGATGGAGCCCTCCAAAACT	0.408													19	14	---	---	---	---	PASS	A	67741202	A	A	67741202	3	1	170	1	0	0	0	0	1	0	0	0	13737	622	22	3	2151	3	RTTN	18	67741202	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	6434643	67741202	10336046	303	61030										
MUC16	94025	broad.mit.edu	37	chr19	9083436	9083436	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cctccagagctagccataccCtggcttcctgtggttagtgg	11	13	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:9083436C>A	uc002mkp.2	-	1	8583	c.8379G>T	c.(8377-8379)CAG>CAT	p.Q2793H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2793	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TAGCCATACCCTGGCTTCCTG	0.493													17	5	---	---	---	---	PASS	A	9083436	A	A	9083436	3	1	170	1	0	0	0	0	1	0	0	0	9973	680	24	3	35480	3	MUC16	19	9083436	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08		9083436	50045547	304	61031										
BRD4	23476	broad.mit.edu	37	chr19	15350263	15350263	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttgtccttgtcaggggccccTggtggcggtgcgttctgctc	15	12	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:15350263T>G	uc002nar.2	-	17	3738	c.3516A>C	c.(3514-3516)CCA>CCC	p.P1172P		NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	1172					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			CAGGGGCCCCTGGTGGCGGTG	0.627			T	NUT|C15orf55	lethal midline carcinoma of young people								7	75	---	---	---	---	PASS	G	15350263	G	G	15350263	2	3	170	1	0	0	0	0	0	0	0	1	1504	1567	55	5		5	BRD4	19	15350263	Silent	SNP	T	TCGA-66-2793-01A-01D-1267-08	6266827	15350263	43778720	305	61032										
UNC13A	23025	broad.mit.edu	37	chr19	17743602	17743602	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gggacttacgcagggtactcAggcacgcggtccttgaaggc	15	11	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:17743602A>T	uc002nhd.2	-	28	3681	c.3681T>A	c.(3679-3681)CCT>CCA	p.P1227P		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1139	MHD1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						CAGGGTACTCAGGCACGCGGT	0.463													53	19	---	---	---	---	PASS	T	17743602	T	T	17743602	2	4	170	1	0	0	0	0	0	0	0	1	16981	175	7	5		5	UNC13A	19	17743602	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	2393339	17743602	41385381	306	61033										
NCAN	1463	broad.mit.edu	37	chr19	19330015	19330015	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctacccccggcgccgagccaAcgccacgctacttctggggc	11	19	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:19330015A>T	uc002nlz.2	+	3	464	c.365A>T	c.(364-366)AAC>ATC	p.N122I		NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	122	Ig-like V-type.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			CGCCGAGCCAACGCCACGCTA	0.647													15	7	---	---	---	---	PASS	T	19330015	T	T	19330015	3	4	170	1	0	0	0	0	1	0	0	0	10204	43	2	5	371	5	NCAN	19	19330015	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	1586413	19330015	39798968	307	61034										
ANKRD27	84079	broad.mit.edu	37	chr19	33098591	33098591	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gagcgggacggcttggtctgCgttcctggcacctgcgttgg	17	11	1	0	rs148333561	by1000genomes	TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:33098591C>A	uc002ntn.1	-	23	2479	c.2323G>T	c.(2323-2325)GCA>TCA	p.A775S		NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	775					early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					GCTTGGTCTGCGTTCCTGGCA	0.692													23	27	---	---	---	---	PASS	A	33098591	A	A	33098591	3	1	170	1	0	0	0	0	1	0	0	0	655	768	27	1	857	1	ANKRD27	19	33098591	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	13768576	33098591	26030392	308	61035										
ATP4A	495	broad.mit.edu	37	chr19	36050805	36050806	+	Frame_Shift_Ins	INS	-	A	A													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tagccaatgcacatggccacINSaataaaaaatgtggcaccga							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:36050805_36050806insA	uc002oal.1	-	7	986_987	c.957_958insT	c.(955-960)ATTGTGfs	p.I319fs	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	319_320	Lumenal (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	CACATGGCCACAATAAAAAATG	0.559													61	45	---	---	---	---		A	36050806	A	A	36050805	7	5	170	1	0	1	1	0	0	0	0	0	1145	478	17	0	2213	0	ATP4A	19	36050805	Frame_Shift_Ins	INS	-	TCGA-66-2793-01A-01D-1267-08	2952214	36050805	23078178	309	61036										
WDR62	284403	broad.mit.edu	37	chr19	36546012	36546012	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tctgcctacggcggcggacgCgactctcgacggcctccgag	14	16	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:36546012C>T	uc002odc.2	+	1	230	c.139C>T	c.(139-141)CGA>TGA	p.R47*	WDR62_uc002odd.2_Nonsense_Mutation_p.R47*|THAP8_uc010xtb.1_5'Flank|THAP8_uc002oda.1_5'Flank|THAP8_uc010xtc.1_5'Flank|WDR62_uc010eer.2_Nonsense_Mutation_p.R47*|WDR62_uc002odb.2_Nonsense_Mutation_p.R47*	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	47					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GCGGCGGACGCGACTCTCGAC	0.682													9	9	---	---	---	---	PASS	T	36546012	T	T	36546012	4	4	170	1	0	0	0	0	0	1	0	0	17310	760	27	1	141	1	WDR62	19	36546012	Nonsense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	495207	36546012	22582971	310	61037										
RYR1	6261	broad.mit.edu	37	chr19	39002961	39002961	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agagtgcctcggaggacatcGagaagatggtggagaacctg	16	7	0	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:39002961G>A	uc002oit.2	+	63	9440	c.9310G>A	c.(9310-9312)GAG>AAG	p.E3104K	RYR1_uc002oiu.2_Missense_Mutation_p.E3104K|RYR1_uc002oiv.1_Missense_Mutation_p.E24K|RYR1_uc010xuf.1_Missense_Mutation_p.E24K	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3104	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GGAGGACATCGAGAAGATGGT	0.617													42	47	---	---	---	---	PASS	A	39002961	A	A	39002961	3	1	170	1	0	0	0	0	1	0	0	0	13768	1059	37	2	9560	2	RYR1	19	39002961	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	2456949	39002961	20126022	311	61038										
ACTN4	81	broad.mit.edu	37	chr19	39215195	39215195	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgtggggccctggatccagaCcaagatggaggtgaggcacg	17	9	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:39215195C>A	uc002oja.1	+	16	2059	c.2000C>A	c.(1999-2001)ACC>AAC	p.T667N	ACTN4_uc002ojb.1_5'Flank	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	667	Spectrin 4.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TGGATCCAGACCAAGATGGAG	0.657													37	89	---	---	---	---	PASS	A	39215195	A	A	39215195	3	1	170	1	0	0	0	0	1	0	0	0	207	507	18	3	2062	3	ACTN4	19	39215195	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	212234	39215195	19913788	312	61039										
IRGC	56269	broad.mit.edu	37	chr19	44223367	44223367	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ttcctggtgtccaacctctcGccggcccgctacgactttcc	8	18	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:44223367G>T	uc002oxh.2	+	2	804	c.657G>T	c.(655-657)TCG>TCT	p.S219S		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	219						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				CCAACCTCTCGCCGGCCCGCT	0.701													43	55	---	---	---	---	PASS	T	44223367	T	T	44223367	2	4	170	1	0	0	0	0	0	0	0	1	7838	1074	38	1		1	IRGC	19	44223367	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	5008172	44223367	14905616	313	61040										
PPP1R13L	10848	broad.mit.edu	37	chr19	45899647	45899647	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctcgtacgccacgtccaggtCagactcgttccaggctttcg	10	15	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:45899647C>T	uc002pbn.2	-	5	837	c.760G>A	c.(760-762)GAC>AAC	p.D254N	PPP1R13L_uc002pbo.2_Missense_Mutation_p.D254N|PPP1R13L_uc002pbp.2_Missense_Mutation_p.D254N	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	254	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		ACGTCCAGGTCAGACTCGTTC	0.657													26	113	---	---	---	---	PASS	T	45899647	T	T	45899647	3	4	170	1	0	0	0	0	1	0	0	0	12358	826	29	2	1762	2	PPP1R13L	19	45899647	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	1676280	45899647	13229336	314	61041										
PTGIR	5739	broad.mit.edu	37	chr19	47126730	47126730	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctcaccgtgagaggcagggaGcacacggccatgaccactgt	13	13	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:47126730G>A	uc002pex.2	-	2	866	c.753C>T	c.(751-753)TGC>TGT	p.C251C		NM_000960	NP_000951	P43119	PI2R_HUMAN	prostaglandin I2 (prostacyclin) receptor (IP)	251	Helical; Name=6; (Potential).				cell-cell signaling|G-protein signaling, coupled to cyclic nucleotide second messenger|platelet activation	integral to plasma membrane	G-protein coupled receptor activity|guanyl-nucleotide exchange factor activity				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000327)|all cancers(93;0.000641)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0331)	Dinoprost Tromethamine(DB01160)|Dinoprostone(DB00917)|Epoprostenol(DB01240)|Iloprost(DB01088)|Misoprostol(DB00929)	GAGGCAGGGAGCACACGGCCA	0.507													5	7	---	---	---	---	PASS	A	47126730	A	A	47126730	2	1	170	1	0	0	0	0	0	0	0	1	12751	963	34	3		3	PTGIR	19	47126730	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	1227083	47126730	12002253	315	61042										
CCDC9	26093	broad.mit.edu	37	chr19	47773852	47773852	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cccgaagccccctacttttgGggagttcctgtcccagcaca	9	16	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:47773852G>C	uc010xym.1	+	10	1199	c.992G>C	c.(991-993)GGG>GCG	p.G331A		NM_015603	NP_056418	Q9Y3X0	CCDC9_HUMAN	coiled-coil domain containing 9	331											0		all_cancers(25;0.0432)|all_epithelial(76;0.00812)|Medulloblastoma(540;0.0208)|all_neural(266;0.0416)|Hepatocellular(1079;0.114)		OV - Ovarian serous cystadenocarcinoma(262;8.51e-95)|Epithelial(262;1.15e-92)|all cancers(93;7.67e-84)|GBM - Glioblastoma multiforme(486;0.024)|STAD - Stomach adenocarcinoma(1328;0.183)		CCTACTTTTGGGGAGTTCCTG	0.652													77	88	---	---	---	---	PASS	C	47773852	C	C	47773852	3	2	170	1	0	0	0	0	1	0	0	0	2867	1232	43	4	1026	4	CCDC9	19	47773852	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	647122	47773852	11355131	316	61043										
MEIS3	56917	broad.mit.edu	37	chr19	47912484	47912484	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	accagaactgggagaggccaCgctggtgtccagcccgtctc	13	14	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:47912484C>G	uc002pgu.2	-	8	1177	c.730G>C	c.(730-732)GTG>CTG	p.V244L	MEIS3_uc010xyp.1_5'Flank|MEIS3_uc002pgo.2_Missense_Mutation_p.V43L|MEIS3_uc002pgp.2_Missense_Mutation_p.V76L|MEIS3_uc002pgq.2_Missense_Mutation_p.V325L|MEIS3_uc002pgr.2_Missense_Mutation_p.V112L|MEIS3_uc002pgt.2_Missense_Mutation_p.V227L|MEIS3_uc002pgv.2_Missense_Mutation_p.V227L|MEIS3_uc002pgs.2_Missense_Mutation_p.V244L|MEIS3_uc010eld.2_Missense_Mutation_p.V244L	NM_001009813	NP_001009813	Q99687	MEIS3_HUMAN	Meis1, myeloid ecotropic viral integration site	244	Ser/Thr-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000198)|OV - Ovarian serous cystadenocarcinoma(262;0.000439)|Epithelial(262;0.0113)|GBM - Glioblastoma multiforme(486;0.0223)		GGAGAGGCCACGCTGGTGTCC	0.597													27	30	---	---	---	---	PASS	G	47912484	G	G	47912484	3	3	170	1	0	0	0	0	1	0	0	0	9469	536	19	4	555	4	MEIS3	19	47912484	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	138632	47912484	11216499	317	61044										
TPRX1	284355	broad.mit.edu	37	chr19	48306229	48306229	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agtttggcgcggcgattcttGaaccacacctggggggcaga	15	10	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:48306229G>T	uc002php.1	-	2	110	c.39C>A	c.(37-39)TTC>TTA	p.F13L		NM_198479	NP_940881	Q8N7U7	TPRX1_HUMAN	tetra-peptide repeat homeobox	13	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(25;3.02e-09)|all_epithelial(76;7e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000241)|all cancers(93;0.00036)|Epithelial(262;0.0127)|GBM - Glioblastoma multiforme(486;0.048)		GGCGATTCTTGAACCACACCT	0.706													3	5	---	---	---	---	PASS	T	48306229	T	T	48306229	3	4	170	1	0	0	0	0	1	0	0	0	16419	1281	45	2	1200	2	TPRX1	19	48306229	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	393745	48306229	10822754	318	61045										
LHB	3972	broad.mit.edu	37	chr19	49519409	49519409	+	Silent	SNP	G	A	A													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccacagtcagaggtgctgcgGcggcagggtccacagcgaca							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:49519409G>A	uc002plt.2	-	3	351	c.342C>T	c.(340-342)CGC>CGT	p.R114R		NM_000894	NP_000885	P01229	LSHB_HUMAN	luteinizing hormone beta subunit precursor	114					cell-cell signaling|cellular nitrogen compound metabolic process|male gonad development|peptide hormone processing|progesterone biosynthetic process|signal transduction	extracellular region|soluble fraction	hormone activity				0		all_epithelial(76;9.62e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)	Lutropin alfa(DB00044)|Menotropins(DB00032)	AGGTGCTGCGGCGGCAGGGTC	0.657													38	126	---	---	---	---	PASS	A	49519409	A	A	49519409	2	1	170	1	0	0	0	0	0	0	0	1	8761	1190	42	3		3	LHB	19	49519409	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	1213180	49519409	9609574	319	61046	1067	2								
LHB	3972	broad.mit.edu	37	chr19	49519410	49519410	+	Missense_Mutation	SNP	C	T	T													0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cacagtcagaggtgctgcggCggcagggtccacagcgacag							TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:49519410C>T	uc002plt.2	-	3	350	c.341G>A	c.(340-342)CGC>CAC	p.R114H		NM_000894	NP_000885	P01229	LSHB_HUMAN	luteinizing hormone beta subunit precursor	114					cell-cell signaling|cellular nitrogen compound metabolic process|male gonad development|peptide hormone processing|progesterone biosynthetic process|signal transduction	extracellular region|soluble fraction	hormone activity				0		all_epithelial(76;9.62e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)	Lutropin alfa(DB00044)|Menotropins(DB00032)	GGTGCTGCGGCGGCAGGGTCC	0.657													39	124	---	---	---	---	PASS	T	49519410	T	T	49519410	3	4	170	1	0	0	0	0	1	0	0	0	8761	768	27	1	88	1	LHB	19	49519410	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	1	49519410	9609573	320	61047	1067	2								
CCDC155	147872	broad.mit.edu	37	chr19	49916242	49916242	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cagagaaacttccagggagaGccagcgcaccctgaagaagg	13	11	0	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:49916242G>A	uc002pnm.1	+	16	1461	c.1287G>A	c.(1285-1287)GAG>GAA	p.E429E	CCDC155_uc010emx.1_Silent_p.E400E	NM_144688	NP_653289	Q8N6L0	CC155_HUMAN	coiled-coil domain containing 155	429						integral to membrane	calcium ion binding			ovary(1)|central_nervous_system(1)	2						TCCAGGGAGAGCCAGCGCACC	0.522													6	70	---	---	---	---	PASS	A	49916242	A	A	49916242	2	1	170	1	0	0	0	0	0	0	0	1	2788	962	34	3		3	CCDC155	19	49916242	Silent	SNP	G	TCGA-66-2793-01A-01D-1267-08	396832	49916242	9212741	321	61048										
PRKCG	5582	broad.mit.edu	37	chr19	54385852	54385852	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggtggtccacgaagtcaagaGccacaagttcaccgctcgct	11	13	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:54385852G>A	uc002qcq.1	+	1	386	c.104G>A	c.(103-105)AGC>AAC	p.S35N	PRKCG_uc010eqz.1_Missense_Mutation_p.S35N|PRKCG_uc010yef.1_Missense_Mutation_p.S35N|PRKCG_uc010yeg.1_Missense_Mutation_p.S35N|PRKCG_uc010yeh.1_5'Flank	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	35	Phorbol-ester/DAG-type 1.				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)		GAAGTCAAGAGCCACAAGTTC	0.647													37	132	---	---	---	---	PASS	A	54385852	A	A	54385852	3	1	170	1	0	0	0	0	1	0	0	0	12512	971	34	3	106	3	PRKCG	19	54385852	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	4469610	54385852	4743131	322	61049										
LENG8	114823	broad.mit.edu	37	chr19	54967990	54967990	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gcagcctggagagcagtgggGctgaccctgactggcaggag	18	10	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:54967990G>A	uc002qfv.1	+	10	1654	c.1510G>A	c.(1510-1512)GCT>ACT	p.A504T	LENG8_uc002qfw.2_Missense_Mutation_p.A541T			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	504							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		GAGCAGTGGGGCTGACCCTGA	0.682													15	19	---	---	---	---	PASS	A	54967990	A	A	54967990	3	1	170	1	0	0	0	0	1	0	0	0	8724	1203	42	3	1659	3	LENG8	19	54967990	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	582138	54967990	4160993	323	61050										
TNNT1	7138	broad.mit.edu	37	chr19	55645563	55645563	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgtgatggaggcagccaggcAgaccgggccctaggcccagg	17	12	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:55645563A>G	uc002qjb.3	-	12	710	c.621T>C	c.(619-621)TCT>TCC	p.S207S	TNNT1_uc002qiz.3_Intron|TNNT1_uc002qja.3_Intron|TNNT1_uc002qjc.3_Intron|TNNT1_uc002qje.3_Intron|TNNT1_uc002qjd.3_Intron	NM_003283	NP_003274	P13805	TNNT1_HUMAN	troponin T1, skeletal, slow isoform a	207					muscle filament sliding|negative regulation of muscle contraction	cytosol|troponin complex	tropomyosin binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.047)		GCAGCCAGGCAGACCGGGCCC	0.453													9	1	---	---	---	---	PASS	G	55645563	G	G	55645563	2	3	170	1	0	0	0	0	0	0	0	1	16327	175	7	5		5	TNNT1	19	55645563	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	677573	55645563	3483420	324	61051										
U2AF2	11338	broad.mit.edu	37	chr19	56180949	56180949	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gctgctggacgacgaggagtAtgaggagatcgtggaggacg	19	6	0	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:56180949A>T	uc002qlu.2	+	11	2239	c.1184A>T	c.(1183-1185)TAT>TTT	p.Y395F	U2AF2_uc002qlt.2_Missense_Mutation_p.Y391F	NM_007279	NP_009210	P26368	U2AF2_HUMAN	U2 (RNU2) small nuclear RNA auxiliary factor 2	395	RRM 3.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	nucleoplasm|spliceosomal complex	enzyme binding|nucleotide binding|RNA binding			ovary(1)	1		Colorectal(82;0.00244)|Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		GACGAGGAGTATGAGGAGATC	0.642													31	44	---	---	---	---	PASS	T	56180949	T	T	56180949	3	4	170	1	0	0	0	0	1	0	0	0	16820	449	16	5	1226	5	U2AF2	19	56180949	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	535386	56180949	2948034	325	61052										
NLRP8	126205	broad.mit.edu	37	chr19	56485171	56485171	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gccctgccacacctgagatgTcctctgcagaggctggtgta	12	13	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:56485171T>A	uc002qmh.2	+	7	2759	c.2688T>A	c.(2686-2688)TGT>TGA	p.C896*	NLRP8_uc010etg.2_Nonsense_Mutation_p.C877*	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	896						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)		ACCTGAGATGTCCTCTGCAGA	0.463													21	109	---	---	---	---	PASS	A	56485171	A	A	56485171	4	1	170	1	0	0	0	0	0	1	0	0	10483	1673	58	5	2714	5	NLRP8	19	56485171	Nonsense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	304222	56485171	2643812	326	61053										
PEG3	5178	broad.mit.edu	37	chr19	57328279	57328279	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	actcttattgaaggtctctcCacagtccttacattcaaaac	4	12	3	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:57328279C>A	uc002qnu.2	-	7	1882	c.1531G>T	c.(1531-1533)GGA>TGA	p.G511*	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Nonsense_Mutation_p.G482*|PEG3_uc002qnv.2_Nonsense_Mutation_p.G511*|PEG3_uc002qnw.2_Nonsense_Mutation_p.G387*|PEG3_uc002qnx.2_Nonsense_Mutation_p.G385*|PEG3_uc010etr.2_Nonsense_Mutation_p.G511*	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	511	C2H2-type 2.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		AAGGTCTCTCCACAGTCCTTA	0.448													79	133	---	---	---	---	PASS	A	57328279	A	A	57328279	4	1	170	1	0	0	0	0	0	1	0	0	11720	603	21	3	3239	3	PEG3	19	57328279	Nonsense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	843108	57328279	1800704	327	61054										
ZNF8	7554	broad.mit.edu	37	chr19	58806422	58806422	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tcatccctggcccagcaccaGcggaagcacgcgggggagaa	14	14	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr19:58806422G>C	uc002qry.1	+	4	1378	c.1248G>C	c.(1246-1248)CAG>CAC	p.Q416H	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	416	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		CCCAGCACCAGCGGAAGCACG	0.607													10	184	---	---	---	---	PASS	C	58806422	C	C	58806422	3	2	170	1	0	0	0	0	1	0	0	0	18164	962	34	4	1262	4	ZNF8	19	58806422	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	1478143	58806422	322561	328	61055										
PDYN	5173	broad.mit.edu	37	chr20	1961097	1961097	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cttgagcttgggacgaatgcGccgcaagaagcccccatagc	12	13	0	2	rs150455107		TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr20:1961097G>A	uc010gaj.2	-	3	879	c.637C>T	c.(637-639)CGC>TGC	p.R213C	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.R213C|PDYN_uc010zpt.1_Missense_Mutation_p.R58C	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	213					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						GGACGAATGCGCCGCAAGAAG	0.597													24	176	---	---	---	---	PASS	A	1961097	A	A	1961097	3	1	170	1	0	0	0	0	1	0	0	0	11699	1087	38	1	131	1	PDYN	20	1961097	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08		1961097	61064423	329	61056										
PLCB1	23236	broad.mit.edu	37	chr20	8698470	8698470	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tacagtgactcctccagcatGttcgagccctcatccccagg	8	16	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr20:8698470G>T	uc002wnb.2	+	14	1491	c.1488G>T	c.(1486-1488)ATG>ATT	p.M496I	PLCB1_uc010zrb.1_Missense_Mutation_p.M395I|PLCB1_uc002wna.2_Missense_Mutation_p.M496I|PLCB1_uc002wnc.1_Missense_Mutation_p.M395I|PLCB1_uc002wnd.1_Missense_Mutation_p.M73I	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	496					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						CCTCCAGCATGTTCGAGCCCT	0.468													34	31	---	---	---	---	PASS	T	8698470	T	T	8698470	3	4	170	1	0	0	0	0	1	0	0	0	12027	1377	48	3	1542	3	PLCB1	20	8698470	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	6737373	8698470	54327050	330	61057										
PAX1	5075	broad.mit.edu	37	chr20	21695303	21695303	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggcacgggcaggatcggaggActcgcggaggaggaagccag	20	9	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr20:21695303A>C	uc002wsj.2	+	5	1521	c.1467A>C	c.(1465-1467)GGA>GGC	p.G489G	PAX1_uc010zsl.1_3'UTR|PAX1_uc010zsm.1_3'UTR	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	489					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						GGATCGGAGGACTCGCGGAGG	0.746													16	20	---	---	---	---	PASS	C	21695303	C	C	21695303	2	2	170	1	0	0	0	0	0	0	0	1	11478	262	10	5		5	PAX1	20	21695303	Silent	SNP	A	TCGA-66-2793-01A-01D-1267-08	12996833	21695303	41330217	331	61058										
EPB41L1	2036	broad.mit.edu	37	chr20	34797717	34797717	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgagggcctgctgttctcccGggatctcaacaagggggccc	14	13	2	1	rs140677677	by1000genomes	TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr20:34797717G>T	uc002xfb.2	+	15	2147	c.1976G>T	c.(1975-1977)CGG>CTG	p.R659L	EPB41L1_uc002xeu.2_Missense_Mutation_p.R585L|EPB41L1_uc010zvo.1_Missense_Mutation_p.R659L|EPB41L1_uc002xev.2_Missense_Mutation_p.R659L|EPB41L1_uc002xew.2_Missense_Mutation_p.R550L|EPB41L1_uc002xex.2_Intron|EPB41L1_uc002xey.2_Intron|EPB41L1_uc002xez.2_Missense_Mutation_p.R585L|EPB41L1_uc010gfq.2_Missense_Mutation_p.R758L	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	659					cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					CTGTTCTCCCGGGATCTCAAC	0.637													40	60	---	---	---	---	PASS	T	34797717	T	T	34797717	3	4	170	1	0	0	0	0	1	0	0	0	5152	1116	39	1	2030	1	EPB41L1	20	34797717	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	13102414	34797717	28227803	332	61059										
KCNG1	3755	broad.mit.edu	37	chr20	49620725	49620725	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cttgagctccaggtaggagcGggagaaggtgtggaagatgg	19	5	0	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr20:49620725G>A	uc002xwa.3	-	3	1688	c.1393C>T	c.(1393-1395)CGC>TGC	p.R465C		NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	465	Cytoplasmic (Potential).			R -> P (in Ref. 1; AAC05635).		voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						AGGTAGGAGCGGGAGAAGGTG	0.622													58	99	---	---	---	---	PASS	A	49620725	A	A	49620725	3	1	170	1	0	0	0	0	1	0	0	0	8027	1116	39	1	152	1	KCNG1	20	49620725	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	14823008	49620725	13404795	333	61060										
BCAS1	8537	broad.mit.edu	37	chr20	52569971	52569971	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ggcaaaaaaaatccacctacCaggcctttaaagaagccccc	6	14	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr20:52569971C>A	uc002xws.2	-	11	2018	c.1680G>T	c.(1678-1680)CTG>CTT	p.L560L	BCAS1_uc010zza.1_Silent_p.L226L|BCAS1_uc010zzb.1_Silent_p.L486L|BCAS1_uc010gim.2_Silent_p.L416L|BCAS1_uc002xwt.2_Silent_p.L546L|BCAS1_uc010gil.1_Silent_p.L482L	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	560						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			ATCCACCTACCAGGCCTTTAA	0.517													51	44	---	---	---	---	PASS	A	52569971	A	A	52569971	2	1	170	1	0	0	0	0	0	0	0	1	1350	608	21	3		3	BCAS1	20	52569971	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	2949246	52569971	10455549	334	61061										
LAMA5	3911	broad.mit.edu	37	chr20	60889444	60889444	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ccgcctcacccagctgatacAcccagtgcaccttcttgtca	6	18	3	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr20:60889444A>T	uc002ycq.2	-	62	8487	c.8420T>A	c.(8419-8421)GTG>GAG	p.V2807E		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2807	Laminin G-like 1.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAGCTGATACACCCAGTGCAC	0.632													125	61	---	---	---	---	PASS	T	60889444	T	T	60889444	3	4	170	1	0	0	0	0	1	0	0	0	8609	159	6	5	2743	5	LAMA5	20	60889444	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	8319473	60889444	2136076	335	61062										
C20orf151	140893	broad.mit.edu	37	chr20	60988599	60988599	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cctggaagtgggcgtgagggGtcctggggggaggcaagtag	22	6	0	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr20:60988599G>C	uc002ycw.1	-	11	1690	c.1533C>G	c.(1531-1533)GAC>GAG	p.D511E		NM_080833	NP_543023	Q8NC74	CT151_HUMAN	hypothetical protein LOC140893	511	Pro-rich.										0	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;6.43e-06)			GGCGTGAGGGGTCCTGGGGGG	0.627													23	82	---	---	---	---	PASS	C	60988599	C	C	60988599	3	2	170	1	0	0	0	0	1	0	0	0	2091	1252	44	4	477	4	C20orf151	20	60988599	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	99155	60988599	2036921	336	61063										
COL9A3	1299	broad.mit.edu	37	chr20	61467648	61467648	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tctgggcctgcagggcgtccCgggtgttcctggcatcacgg	16	13	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr20:61467648C>A	uc002ydm.2	+	28	1514	c.1511C>A	c.(1510-1512)CCG>CAG	p.P504Q	COL9A3_uc002ydn.2_5'Flank	NM_001853	NP_001844	Q14050	CO9A3_HUMAN	alpha 3 type IX collagen precursor	504	Triple-helical region 3 (COL3).				axon guidance	collagen type IX					0	Breast(26;5.68e-08)					CAGGGCGTCCCGGGTGTTCCT	0.657													88	74	---	---	---	---	PASS	A	61467648	A	A	61467648	3	1	170	1	0	0	0	0	1	0	0	0	3709	652	23	1	1621	1	COL9A3	20	61467648	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	479049	61467648	1557872	337	61064										
PRIC285	85441	broad.mit.edu	37	chr20	62198285	62198285	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgtaggcctcctgcaccttcTcgacgacctgcgcaatctca	8	16	2	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr20:62198285T>A	uc002yfm.2	-	7	3318	c.2426A>T	c.(2425-2427)GAG>GTG	p.E809V	PRIC285_uc002yfl.1_Missense_Mutation_p.E240V	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	809					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CTGCACCTTCTCGACGACCTG	0.667													57	75	---	---	---	---	PASS	A	62198285	A	A	62198285	3	1	170	1	0	0	0	0	1	0	0	0	12485	1551	54	5	5579	5	PRIC285	20	62198285	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	730637	62198285	827235	338	61065										
TRAPPC10	7109	broad.mit.edu	37	chr21	45472274	45472274	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	atagttgaaaatgatgccaaGaaaaaaaacaaaaccaacat	5	6	0	3	rs149217788	byFrequency	TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr21:45472274G>T	uc002zea.2	+	4	568	c.399G>T	c.(397-399)AAG>AAT	p.K133N	TRAPPC10_uc010gpo.2_5'UTR|TRAPPC10_uc002zdz.2_Missense_Mutation_p.K133N	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	133					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						ATGATGCCAAGAAAAAAAACA	0.358													72	15	---	---	---	---	PASS	T	45472274	T	T	45472274	3	4	170	1	0	0	0	0	1	0	0	0	16454	933	33	2	413	2	TRAPPC10	21	45472274	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08		45472274	2657621	339	61066										
PI4KA	5297	broad.mit.edu	37	chr22	21062353	21062353	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	cctcagtaggggatgtcattCtgatagtactggatcatgtc	11	8	4	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr22:21062353C>T	uc002zsz.3	-	55	6348	c.6117G>A	c.(6115-6117)CAG>CAA	p.Q2039Q	PI4KA_uc010gsp.2_Silent_p.Q430Q|PI4KA_uc002zsy.3_Silent_p.Q849Q	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	2039					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			GGATGTCATTCTGATAGTACT	0.602													19	933	---	---	---	---	PASS	T	21062353	T	T	21062353	2	4	170	1	0	0	0	0	0	0	0	1	11873	912	32	2		2	PI4KA	22	21062353	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08		21062353	30242213	340	61067										
SLC7A4	6545	broad.mit.edu	37	chr22	21384302	21384302	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agtgcccaccagctgtaggtGgtctgagaaggagctctgct	14	10	2	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr22:21384302G>T	uc002zud.2	-	3	1389	c.1321C>A	c.(1321-1323)CAC>AAC	p.H441N	SLC7A4_uc002zue.2_Missense_Mutation_p.H441N	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	441					cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AGCTGTAGGTGGTCTGAGAAG	0.647													17	184	---	---	---	---	PASS	T	21384302	T	T	21384302	3	4	170	1	0	0	0	0	1	0	0	0	14699	1348	47	3	598	3	SLC7A4	22	21384302	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	321949	21384302	29920264	341	61068										
MTMR3	8897	broad.mit.edu	37	chr22	30416323	30416323	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	agagacaagcctggtcgagaGgccccaagtggggtctgtgg	17	9	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr22:30416323G>A	uc003agv.3	+	17	3003	c.2675G>A	c.(2674-2676)AGG>AAG	p.R892K	MTMR3_uc003agu.3_Missense_Mutation_p.R892K|MTMR3_uc003agw.3_Missense_Mutation_p.R892K	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	892					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			CTGGTCGAGAGGCCCCAAGTG	0.562													52	18	---	---	---	---	PASS	A	30416323	A	A	30416323	3	1	170	1	0	0	0	0	1	0	0	0	9945	1000	35	3	2733	3	MTMR3	22	30416323	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	9032021	30416323	20888243	342	61069										
RFPL3	10738	broad.mit.edu	37	chr22	32756521	32756521	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gcttggattctggactgtgaGtttgagggatggaagccgcc	16	7	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr22:32756521G>A	uc003amj.2	+	2	861	c.656G>A	c.(655-657)AGT>AAT	p.S219N	RFPL3_uc010gwn.2_Missense_Mutation_p.S190N|RFPL3S_uc003amk.2_RNA|RFPL3S_uc003aml.2_RNA	NM_001098535	NP_001092005	O75679	RFPL3_HUMAN	ret finger protein-like 3 isoform 1	219	B30.2/SPRY.						zinc ion binding			ovary(1)	1						TGGACTGTGAGTTTGAGGGAT	0.537													70	7	---	---	---	---	PASS	A	32756521	A	A	32756521	3	1	170	1	0	0	0	0	1	0	0	0	13255	1029	36	3	662	3	RFPL3	22	32756521	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	2340198	32756521	18548045	343	61070										
MPST	4357	broad.mit.edu	37	chr22	37425399	37425399	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctgtctaagccactggtggcCacgtgtggctctggcgtcac	13	13	3	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr22:37425399C>A	uc003aqj.2	+	4	1150	c.738C>A	c.(736-738)GCC>GCA	p.A246A	MPST_uc003aqi.1_3'UTR|MPST_uc003aqm.2_Silent_p.A246A|MPST_uc011amu.1_Silent_p.A266A|MPST_uc003aql.2_Silent_p.A246A|MPST_uc003aqn.2_3'UTR|MPST_uc003aqo.2_3'UTR	NM_001130517	NP_001123989	P25325	THTM_HUMAN	mercaptopyruvate sulfurtransferase isoform 2	246	Rhodanese 2.				cyanate catabolic process|response to toxin		3-mercaptopyruvate sulfurtransferase activity|thiosulfate sulfurtransferase activity				0						CACTGGTGGCCACGTGTGGCT	0.617													31	4	---	---	---	---	PASS	A	37425399	A	A	37425399	2	1	170	1	0	0	0	0	0	0	0	1	9744	581	21	3		3	MPST	22	37425399	Silent	SNP	C	TCGA-66-2793-01A-01D-1267-08	4668878	37425399	13879167	344	61071										
SCUBE1	80274	broad.mit.edu	37	chr22	43604080	43604080	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gaagacagtggatcttaccaTcgtaggtgacatagggcact	12	8	1	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chr22:43604080T>C	uc003bdt.1	-	20	2820	c.2732A>G	c.(2731-2733)GAT>GGT	p.D911G		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	911					adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity	p.D911N(1)		central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				GATCTTACCATCGTAGGTGAC	0.338													25	145	---	---	---	---	PASS	C	43604080	C	C	43604080	3	2	170	1	0	0	0	0	1	0	0	0	13944	1435	50	5	246	5	SCUBE1	22	43604080	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	6178681	43604080	7700486	345	61072										
CSF2RA	1438	broad.mit.edu	37	chrX	1409238	1409238	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	ctaatctttcaggagaaggaGggagatccggtgtccttatt	12	7	2	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chrX:1409238G>A	uc010nct.2	+	8	804	c.482G>A	c.(481-483)AGG>AAG	p.R161K	CSF2RA_uc011mhb.1_Missense_Mutation_p.R161K|CSF2RA_uc004cpq.2_Missense_Mutation_p.R161K|CSF2RA_uc004cpn.2_Missense_Mutation_p.R161K|CSF2RA_uc004cpo.2_Missense_Mutation_p.R161K|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Missense_Mutation_p.R28K|CSF2RA_uc004cpp.2_Missense_Mutation_p.R161K|CSF2RA_uc010ncv.2_Missense_Mutation_p.R161K|CSF2RA_uc004cpr.2_Missense_Mutation_p.R161K	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	161	Extracellular (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	AGGAGAAGGAGGGAGATCCGG	0.259													29	61	---	---	---	---	PASS	A	1409238	A	A	1409238	3	1	170	1	0	0	0	0	1	0	0	0	3934	1000	35	3	500	3	CSF2RA	23	1409238	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08		1409238	153861322	346	61073										
P2RY8	286530	broad.mit.edu	37	chrX	1585160	1585160	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gtaaaaggccacggtcaccaCgttgcaaagcagcaccccga	10	14	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chrX:1585160C>A	uc004cpz.2	-	2	540	c.292G>T	c.(292-294)GTG>TTG	p.V98L		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	98	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ACGGTCACCACGTTGCAAAGC	0.572			T	CRLF2	B-ALL|Downs associated ALL								20	10	---	---	---	---	PASS	A	1585160	A	A	1585160	3	1	170	1	0	0	0	0	1	0	0	0	11355	536	19	1	791	1	P2RY8	23	1585160	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	175922	1585160	153685400	347	61074										
STS	412	broad.mit.edu	37	chrX	7177575	7177575	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tccccctgcagatcgtcgggGtcaccctccttacccttgct	8	18	1	1			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chrX:7177575G>A	uc004cry.3	+	5	828	c.583G>A	c.(583-585)GTC>ATC	p.V195I		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	195	Helical.				female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)	GATCGTCGGGGTCACCCTCCT	0.562									Ichthyosis				4	67	---	---	---	---	PASS	A	7177575	A	A	7177575	3	1	170	1	0	0	0	0	1	0	0	0	15331	1261	44	3	601	3	STS	23	7177575	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	5592415	7177575	148092985	348	61075										
ARHGAP6	395	broad.mit.edu	37	chrX	11682385	11682385	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gatttccacacgacgtagggGtgcccgcgactgtcgggtgg	16	11	0	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chrX:11682385G>T	uc004cup.1	-	1	1437	c.564C>A	c.(562-564)CAC>CAA	p.H188Q	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cur.1_Missense_Mutation_p.H188Q	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	188					actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						CGACGTAGGGGTGCCCGCGAC	0.637													30	5	---	---	---	---	PASS	T	11682385	T	T	11682385	3	4	170	1	0	0	0	0	1	0	0	0	887	1252	44	3	2534	3	ARHGAP6	23	11682385	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	4504810	11682385	143588175	349	61076										
TXLNG	55787	broad.mit.edu	37	chrX	16836853	16836853	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tggaagaggatgaaggcagtGactttataacagagaacagg	14	4	0	4			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chrX:16836853G>C	uc004cxq.1	+	2	310	c.259G>C	c.(259-261)GAC>CAC	p.D87H	TXLNG_uc010ney.1_Intron	NM_018360	NP_060830	Q9NUQ3	TXLNG_HUMAN	gamma-taxilin	87					cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1						TGAAGGCAGTGACTTTATAAC	0.438													67	2	---	---	---	---	PASS	C	16836853	C	C	16836853	3	2	170	1	0	0	0	0	1	0	0	0	16786	1290	45	2	265	2	TXLNG	23	16836853	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	5154468	16836853	138433707	350	61077										
PCDH11X	27328	broad.mit.edu	37	chrX	91132465	91132465	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	tgaaatccctttcagattaaGgccagtattcagtaatcagt	7	8	3	2			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chrX:91132465G>T	uc004efk.1	+	2	2071	c.1226G>T	c.(1225-1227)AGG>ATG	p.R409M	PCDH11X_uc004efl.1_Missense_Mutation_p.R409M|PCDH11X_uc004efo.1_Missense_Mutation_p.R409M|PCDH11X_uc010nmv.1_Missense_Mutation_p.R409M|PCDH11X_uc004efm.1_Missense_Mutation_p.R409M|PCDH11X_uc004efn.1_Missense_Mutation_p.R409M|PCDH11X_uc004efh.1_Missense_Mutation_p.R409M|PCDH11X_uc004efj.1_Missense_Mutation_p.R409M	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	409	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TTCAGATTAAGGCCAGTATTC	0.438													27	11	---	---	---	---	PASS	T	91132465	T	T	91132465	3	4	170	1	0	0	0	0	1	0	0	0	11508	1000	35	3	1232	3	PCDH11X	23	91132465	Missense_Mutation	SNP	G	TCGA-66-2793-01A-01D-1267-08	74295612	91132465	64138095	351	61078										
GPR112	139378	broad.mit.edu	37	chrX	135429119	135429119	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gcctacccatggagacttgaTtcgtaccacttcagaggcca	9	13	1	3	rs142623843		TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chrX:135429119T>G	uc004ezu.1	+	6	3545	c.3254T>G	c.(3253-3255)ATT>AGT	p.I1085S	GPR112_uc010nsb.1_Missense_Mutation_p.I880S|GPR112_uc010nsc.1_Missense_Mutation_p.I852S	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1085	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					GGAGACTTGATTCGTACCACT	0.458													4	207	---	---	---	---	PASS	G	135429119	G	G	135429119	3	3	170	1	0	0	0	0	1	0	0	0	6629	1493	52	5	3264	5	GPR112	23	135429119	Missense_Mutation	SNP	T	TCGA-66-2793-01A-01D-1267-08	44296654	135429119	19841441	352	61079										
ARHGEF6	9459	broad.mit.edu	37	chrX	135825761	135825761	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	taccactggatttaatttcaCggacataattactggggaac	8	8	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chrX:135825761C>T	uc004fab.2	-	5	1106	c.644G>A	c.(643-645)CGT>CAT	p.R215H	ARHGEF6_uc011mwd.1_Missense_Mutation_p.R61H|ARHGEF6_uc011mwe.1_Missense_Mutation_p.R61H	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	215	SH3.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					TTTAATTTCACGGACATAATT	0.388													64	11	---	---	---	---	PASS	T	135825761	T	T	135825761	3	4	170	1	0	0	0	0	1	0	0	0	910	536	19	1	1758	1	ARHGEF6	23	135825761	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	396642	135825761	19444799	353	61080										
ZNF185	7739	broad.mit.edu	37	chrX	152087616	152087616	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	gccattctcctcagatgaacAgaaacggaggtaatggaatg	11	8	2	3			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chrX:152087616A>G	uc010ntv.1	+	7	558	c.521A>G	c.(520-522)CAG>CGG	p.Q174R	ZNF185_uc011myg.1_Missense_Mutation_p.Q174R|ZNF185_uc011myh.1_Missense_Mutation_p.Q174R|ZNF185_uc011myi.1_Missense_Mutation_p.Q174R|ZNF185_uc011myj.1_Missense_Mutation_p.Q174R|ZNF185_uc011myk.1_Missense_Mutation_p.Q174R|ZNF185_uc004fgw.3_Missense_Mutation_p.Q39R|ZNF185_uc004fgu.2_5'UTR|ZNF185_uc004fgv.2_5'Flank	NM_007150	NP_009081	O15231	ZN185_HUMAN	zinc finger protein 185	174						cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TCAGATGAACAGAAACGGAGG	0.493													29	1	---	---	---	---	PASS	G	152087616	G	G	152087616	3	3	170	1	0	0	0	0	1	0	0	0	17749	188	7	5	562	5	ZNF185	23	152087616	Missense_Mutation	SNP	A	TCGA-66-2793-01A-01D-1267-08	16261855	152087616	3182944	354	61081										
FLNA	2316	broad.mit.edu	37	chrX	153578190	153578190	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0544412607449857	19	0.323541972902761	1.17885861304758	1.68692677398367	0.83363281138587	0.573113236010386	0.867017459605456	0	caatggtcaccgacagggcaCcagctcccgcattgctcgtg	11	15	1	0			TCGA-66-2793-01A-01D-1267-08	TCGA-66-2793-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	7dc5f8ba-0080-43d3-8426-bd527a970761	04580e16-1552-442c-ace6-7557146f72b2	g.chrX:153578190C>T	uc004fkk.2	-	46	7628	c.7379G>A	c.(7378-7380)GGT>GAT	p.G2460D	FLNA_uc004fki.2_Missense_Mutation_p.G500D|FLNA_uc011mzn.1_Missense_Mutation_p.G593D|FLNA_uc010nuu.1_Missense_Mutation_p.G2452D	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2460	Filamin 23.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CGACAGGGCACCAGCTCCCGC	0.642											OREG0003592	type=REGULATORY REGION|Gene=FLNA|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	3	39	---	---	---	---	PASS	T	153578190	T	T	153578190	3	4	170	1	0	0	0	0	1	0	0	0	5933	507	18	3	576	3	FLNA	23	153578190	Missense_Mutation	SNP	C	TCGA-66-2793-01A-01D-1267-08	1490574	153578190	1692370	355	61082										
SCNN1D	6339	broad.mit.edu	37	chr1	1222541	1222541	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	aggctacacgtcaggcgtggCggctgtccaggactggtacc	15	12	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr1:1222541C>T	uc001adu.1	+	8	1304	c.680C>T	c.(679-681)GCG>GTG	p.A227V	SCNN1D_uc001adt.1_Missense_Mutation_p.A391V|SCNN1D_uc001adw.2_Missense_Mutation_p.A293V|SCNN1D_uc001adx.2_5'UTR|SCNN1D_uc001adv.2_Missense_Mutation_p.A227V	NM_002978	NP_002969			sodium channel, nonvoltage-gated 1, delta												0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;2.46e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.199)		TCAGGCGTGGCGGCTGTCCAG	0.662													3	41	---	---	---	---	PASS	T	1222541	T	T	1222541	3	4	171	1	0	0	0	0	1	0	0	0	13929	768	27	1	900	1	SCNN1D	1	1222541	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08		1222541	248028080	1	61083										
PTCHD2	57540	broad.mit.edu	37	chr1	11595162	11595162	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cacatcctgctcctgctgccCgtgctcctcagcatcttggg	9	17	2	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr1:11595162C>G	uc001ash.3	+	19	3768	c.3630C>G	c.(3628-3630)CCC>CCG	p.P1210P		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1210	Helical; (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		TCCTGCTGCCCGTGCTCCTCA	0.682													4	11	---	---	---	---	PASS	G	11595162	G	G	11595162	2	3	171	1	0	0	0	0	0	0	0	1	12733	639	23	4		4	PTCHD2	1	11595162	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08	10372621	11595162	237655459	2	61084										
C1orf173	127254	broad.mit.edu	37	chr1	75039113	75039113	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	atacgttttttgcaccaattGctgggattccttgtttgagt	9	7	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr1:75039113G>T	uc001dgg.2	-	14	2500	c.2281C>A	c.(2281-2283)CAA>AAA	p.Q761K		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	761	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TGCACCAATTGCTGGGATTCC	0.403													50	92	---	---	---	---	PASS	T	75039113	T	T	75039113	3	4	171	1	0	0	0	0	1	0	0	0	2014	1328	46	3	2315	3	C1orf173	1	75039113	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	63443951	75039113	174211508	3	61085										
PAPPA2	60676	broad.mit.edu	37	chr1	176564599	176564599	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cctgcagggccgctgctactCctggaaccgcagggatgggc	15	14	0	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr1:176564599C>T	uc001gkz.2	+	3	3023	c.1859C>T	c.(1858-1860)TCC>TTC	p.S620F	PAPPA2_uc001gky.1_Missense_Mutation_p.S620F|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	620	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CGCTGCTACTCCTGGAACCGC	0.607													34	94	---	---	---	---	PASS	T	176564599	T	T	176564599	3	4	171	1	0	0	0	0	1	0	0	0	11433	855	30	2	1865	2	PAPPA2	1	176564599	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	101525486	176564599	72686022	4	61086										
CHIT1	1118	broad.mit.edu	37	chr1	203188832	203188832	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ctccttccttggtgaaggggCctggagtgccagaccctgtg	14	12	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr1:203188832C>A	uc001gzn.2	-	8	971	c.875G>T	c.(874-876)GGC>GTC	p.G292V	FMOD_uc010pqi.1_Intron|CHIT1_uc001gzm.1_RNA|CHIT1_uc009xal.1_Missense_Mutation_p.G83V|CHIT1_uc009xam.1_RNA|CHIT1_uc009xan.1_RNA|CHIT1_uc001gzo.2_Missense_Mutation_p.G283V	NM_003465	NP_003456	Q13231	CHIT1_HUMAN	chitotriosidase precursor	292					chitin catabolic process|immune response|response to bacterium	extracellular space|lysosome	cation binding|chitin binding|endochitinase activity				0						GGTGAAGGGGCCTGGAGTGCC	0.587													46	149	---	---	---	---	PASS	A	203188832	A	A	203188832	3	1	171	1	0	0	0	0	1	0	0	0	3346	739	26	3	541	3	CHIT1	1	203188832	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	26624233	203188832	46061789	5	61087										
ANGEL2	90806	broad.mit.edu	37	chr1	213181649	213181649	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gtctataaaggtgagagttaTcttccagtaaatcttgtgaa	9	5	3	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr1:213181649T>C	uc001hjz.2	-	3	700	c.545A>G	c.(544-546)GAT>GGT	p.D182G	ANGEL2_uc010pto.1_Missense_Mutation_p.D56G|ANGEL2_uc010ptp.1_Missense_Mutation_p.D56G|ANGEL2_uc001hka.2_Missense_Mutation_p.D13G|ANGEL2_uc010ptq.1_RNA|ANGEL2_uc001hkb.2_Missense_Mutation_p.D160G	NM_144567	NP_653168	Q5VTE6	ANGE2_HUMAN	LOC90806 protein	182											0				OV - Ovarian serous cystadenocarcinoma(81;0.00446)|all cancers(67;0.0169)|Epithelial(68;0.0921)|GBM - Glioblastoma multiforme(131;0.185)		GTGAGAGTTATCTTCCAGTAA	0.363													39	89	---	---	---	---	PASS	C	213181649	C	C	213181649	3	2	171	1	0	0	0	0	1	0	0	0	609	1435	50	5	1117	5	ANGEL2	1	213181649	Missense_Mutation	SNP	T	TCGA-66-2794-01A-01D-1267-08	9992817	213181649	36068972	6	61088										
AIDA	64853	broad.mit.edu	37	chr1	222867551	222867551	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cagaagagaaaaactccttaCctgtaaagctgcacttcgca	7	11	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr1:222867551C>A	uc001hnn.2	-	3	439	c.234_splice	c.e3+1	p.Q78_splice	AIDA_uc001hno.2_Splice_Site|AIDA_uc010pus.1_Splice_Site_p.Q54_splice	NM_022831	NP_073742	Q96BJ3	AIDA_HUMAN	axin interactor, dorsalization associated						dorsal/ventral pattern formation|negative regulation of JNK cascade|negative regulation of JUN kinase activity|regulation of protein homodimerization activity						0						AAACTCCTTACCTGTAAAGCT	0.318													145	99	---	---	---	---	PASS	A	222867551	A	A	222867551	5	1	171	1	0	0	0	0	0	0	1	0	423	521	18	3	717	3	AIDA	1	222867551	Splice_Site	SNP	C	TCGA-66-2794-01A-01D-1267-08	9685902	222867551	26383070	7	61089										
C1orf65	164127	broad.mit.edu	37	chr1	223566951	223566951	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cgactccaccgcgtgctcccGggccgggactccgggtgcgg	16	17	0	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr1:223566951G>T	uc001hoa.2	+	1	237	c.134G>T	c.(133-135)CGG>CTG	p.R45L		NM_152610	NP_689823	Q8N715	CA065_HUMAN	hypothetical protein LOC164127	45										central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0704)		GCGTGCTCCCGGGCCGGGACT	0.731													6	25	---	---	---	---	PASS	T	223566951	T	T	223566951	3	4	171	1	0	0	0	0	1	0	0	0	2055	1116	39	1	136	1	C1orf65	1	223566951	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	699400	223566951	25683670	8	61090										
CAPN9	10753	broad.mit.edu	37	chr1	230903311	230903311	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	aatgggagctatgaagctctGaagggaggcagcgccatcga	15	8	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr1:230903311G>A	uc001htz.1	+	5	674	c.561G>A	c.(559-561)CTG>CTA	p.L187L	CAPN9_uc009xfg.1_Silent_p.L124L|CAPN9_uc001hua.1_Silent_p.L187L	NM_006615	NP_006606	O14815	CAN9_HUMAN	calpain 9 isoform 1	187	Calpain catalytic.				digestion|proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)				ATGAAGCTCTGAAGGGAGGCA	0.562													50	134	---	---	---	---	PASS	A	230903311	A	A	230903311	2	1	171	1	0	0	0	0	0	0	0	1	2632	1277	45	2		2	CAPN9	1	230903311	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	7336360	230903311	18347310	9	61091										
IRF2BP2	359948	broad.mit.edu	37	chr1	234742956	234742956	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tttccccttgcataaaggccCaggggacattggagcccaca	10	13	0	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr1:234742956C>A	uc001hwg.2	-	2	1722	c.1691G>T	c.(1690-1692)TGG>TTG	p.W564L	IRF2BP2_uc009xfw.2_Missense_Mutation_p.W174L|IRF2BP2_uc001hwf.2_Missense_Mutation_p.W548L	NM_182972	NP_892017	Q7Z5L9	I2BP2_HUMAN	interferon regulatory factor 2 binding protein 2	564					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Ovarian(103;0.0303)	all_cancers(173;0.0236)|Prostate(94;0.0115)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)|Epithelial(3;6.2e-05)			CATAAAGGCCCAGGGGACATT	0.488													192	132	---	---	---	---	PASS	A	234742956	A	A	234742956	3	1	171	1	0	0	0	0	1	0	0	0	7830	595	21	3	76	3	IRF2BP2	1	234742956	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	3839645	234742956	14507665	10	61092										
RYR2	6262	broad.mit.edu	37	chr1	237806748	237806748	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gatgccaacaatagccaaagGtaaggccaacttcaatttgt	8	9	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr1:237806748G>C	uc001hyl.1	+	48	7462	c.7342_splice	c.e48+1	p.D2448_splice		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor						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)			ATAGCCAAAGGTAAGGCCAAC	0.438													5	168	---	---	---	---	PASS	C	237806748	C	C	237806748	5	2	171	1	0	0	0	0	0	0	1	0	13769	1275	44	4	7533	4	RYR2	1	237806748	Splice_Site	SNP	G	TCGA-66-2794-01A-01D-1267-08	3063792	237806748	11443873	11	61093										
APOB	338	broad.mit.edu	37	chr2	21237993	21237993	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	aaagtcatgtctgtttgaggGactctgtgatccaggagtct	12	7	4	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:21237993G>A	uc002red.2	-	23	3776	c.3648C>T	c.(3646-3648)GTC>GTT	p.V1216V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1216					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CTGTTTGAGGGACTCTGTGAT	0.388													79	238	---	---	---	---	PASS	A	21237993	A	A	21237993	2	1	171	1	0	0	0	0	0	0	0	1	785	1161	41	2		2	APOB	2	21237993	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08		21237993	221961380	12	61094										
PLB1	151056	broad.mit.edu	37	chr2	28771759	28771759	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ggagagaaagatgagccattGagtgtaaaacacgggaggcc	15	6	0	4			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:28771759G>C	uc002rmb.1	+	15	969	c.969G>C	c.(967-969)TTG>TTC	p.L323F	PLB1_uc010ezj.1_Missense_Mutation_p.L334F|PLB1_uc002rmc.2_Missense_Mutation_p.L11F	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	323	4 X 308-326 AA approximate repeats.|Extracellular (Potential).|1.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					ATGAGCCATTGAGTGTAAAAC	0.547													4	57	---	---	---	---	PASS	C	28771759	C	C	28771759	3	2	171	1	0	0	0	0	1	0	0	0	12024	1281	45	2	1060	2	PLB1	2	28771759	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	7533766	28771759	214427614	13	61095										
NRXN1	9378	broad.mit.edu	37	chr2	50724591	50724591	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tagaagtgtaggcttgcaagGtagctaaggcaacatagctc	12	7	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:50724591G>T	uc010fbq.2	-	14	4356	c.2879C>A	c.(2878-2880)ACC>AAC	p.T960N	NRXN1_uc002rxb.3_Missense_Mutation_p.T592N|NRXN1_uc002rxe.3_Missense_Mutation_p.T920N|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GGCTTGCAAGGTAGCTAAGGC	0.398													16	76	---	---	---	---	PASS	T	50724591	T	T	50724591	3	4	171	1	0	0	0	0	1	0	0	0	10665	1261	44	3	2067	3	NRXN1	2	50724591	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	21952832	50724591	192474782	14	61096										
USP34	9736	broad.mit.edu	37	chr2	61510333	61510333	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	atcttgtaaatgatcgctatCagcaaggctagatttcacta	7	8	3	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:61510333C>G	uc002sbe.2	-	37	4967	c.4945G>C	c.(4945-4947)GAT>CAT	p.D1649H	USP34_uc002sbf.2_5'Flank	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	1649					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TGATCGCTATCAGCAAGGCTA	0.338													26	202	---	---	---	---	PASS	G	61510333	G	G	61510333	3	3	171	1	0	0	0	0	1	0	0	0	17062	826	29	2	5871	2	USP34	2	61510333	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	10785742	61510333	181689040	15	61097										
RGPD1	400966	broad.mit.edu	37	chr2	87214094	87214094	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gtcacagggcagaactctacAgatatgataaagatgttggt	11	6	2	4			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:87214094A>T	uc010fgv.2	+	20	4139	c.4072A>T	c.(4072-4074)AGA>TGA	p.R1358*	RMND5A_uc002srs.3_Intron|RGPD1_uc002ssb.2_Nonsense_Mutation_p.R1347*|RGPD1_uc002ssc.2_Nonsense_Mutation_p.R615*	NM_001024457	NP_001019628	Q68DN6	RGPD1_HUMAN	RANBP2-like and GRIP domain containing 1	1350	RanBD1 2.				intracellular transport		binding				0						AGAACTCTACAGATATGATAA	0.358													111	242	---	---	---	---	PASS	T	87214094	T	T	87214094	4	4	171	1	0	0	0	0	0	1	0	0	13285	180	7	5	4126	5	RGPD1	2	87214094	Nonsense_Mutation	SNP	A	TCGA-66-2794-01A-01D-1267-08	25703761	87214094	155985279	16	61098										
SLC5A7	60482	broad.mit.edu	37	chr2	108608587	108608587	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tgggtcggaggagggtatatCaatggcacagctgaagcagt	16	6	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:108608587C>T	uc002tdv.2	+	3	480	c.204C>T	c.(202-204)ATC>ATT	p.I68I	SLC5A7_uc010ywm.1_5'UTR|SLC5A7_uc010fjj.2_Silent_p.I68I|SLC5A7_uc010ywn.1_5'UTR	NM_021815	NP_068587	Q9GZV3	SC5A7_HUMAN	solute carrier family 5 (choline transporter),	68	Helical; (Potential).				acetylcholine biosynthetic process|neurotransmitter secretion	integral to membrane|plasma membrane	choline:sodium symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4					Choline(DB00122)	GAGGGTATATCAATGGCACAG	0.393													25	89	---	---	---	---	PASS	T	108608587	T	T	108608587	2	4	171	1	0	0	0	0	0	0	0	1	14670	816	29	2		2	SLC5A7	2	108608587	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08	21394493	108608587	134590786	17	61099										
THSD7B	80731	broad.mit.edu	37	chr2	137814256	137814256	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cagagtgtgtgacggctcagCatggactgcagcaccggatg	15	10	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:137814256C>T	uc002tva.1	+	2	313	c.313C>T	c.(313-315)CAT>TAT	p.H105Y	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_5'UTR	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GACGGCTCAGCATGGACTGCA	0.542													29	89	---	---	---	---	PASS	T	137814256	T	T	137814256	3	4	171	1	0	0	0	0	1	0	0	0	15877	710	25	3	319	3	THSD7B	2	137814256	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	29205669	137814256	105385117	18	61100										
THSD7B	80731	broad.mit.edu	37	chr2	138000107	138000107	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ctgtattgtgactgctttcaGtgagtggacaccctgcccaa	10	11	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:138000107G>T	uc002tva.1	+	9	2138	c.2138G>T	c.(2137-2139)AGT>ATT	p.S713I	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.S603I	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		ACTGCTTTCAGTGAGTGGACA	0.463													35	66	---	---	---	---	PASS	T	138000107	T	T	138000107	3	4	171	1	0	0	0	0	1	0	0	0	15877	1029	36	3	2172	3	THSD7B	2	138000107	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	185851	138000107	105199266	19	61101										
OSBPL6	114880	broad.mit.edu	37	chr2	179201135	179201135	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gcagcctggttacaggactcGgaagagatggacaggtgtgc	16	8	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:179201135G>T	uc002ulx.2	+	9	1143	c.765G>T	c.(763-765)TCG>TCT	p.S255S	OSBPL6_uc002ulw.2_Silent_p.S255S|OSBPL6_uc002uly.2_Silent_p.S255S|OSBPL6_uc010zfe.1_Silent_p.S255S|OSBPL6_uc002ulz.2_Silent_p.S255S|OSBPL6_uc002uma.2_Silent_p.S234S	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	255					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			TACAGGACTCGGAAGAGATGG	0.507													93	213	---	---	---	---	PASS	T	179201135	T	T	179201135	2	4	171	1	0	0	0	0	0	0	0	1	11281	1103	39	1		1	OSBPL6	2	179201135	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	41201028	179201135	63998238	20	61102										
CCDC141	285025	broad.mit.edu	37	chr2	179736975	179736975	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cttcccgttctgctttctggTtttccatggtgttcttcatg	8	11	4	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:179736975T>C	uc002unf.1	-	3	296	c.239A>G	c.(238-240)AAC>AGC	p.N80S		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	80	Potential.						protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			TGCTTTCTGGTTTTCCATGGT	0.413													31	101	---	---	---	---	PASS	C	179736975	C	C	179736975	3	2	171	1	0	0	0	0	1	0	0	0	2775	1725	60	5	2432	5	CCDC141	2	179736975	Missense_Mutation	SNP	T	TCGA-66-2794-01A-01D-1267-08	535840	179736975	63462398	21	61103										
PTH2R	5746	broad.mit.edu	37	chr2	209358341	209358341	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	caggcctatggaatctaaccCagacactgaaggatgccaag	10	11	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:209358341C>A	uc002vdb.2	+	13	1823	c.1610C>A	c.(1609-1611)CCA>CAA	p.P537Q	PTH2R_uc010zjb.1_Missense_Mutation_p.P548Q|PTH2R_uc010fuo.1_Intron	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	537	Cytoplasmic (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		GAATCTAACCCAGACACTGAA	0.507													40	132	---	---	---	---	PASS	A	209358341	A	A	209358341	3	1	171	1	0	0	0	0	1	0	0	0	12760	594	21	3	1660	3	PTH2R	2	209358341	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	29621366	209358341	33841032	22	61104										
FN1	2335	broad.mit.edu	37	chr2	216296577	216296577	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tatgggcttgcaggtccattCtccttttccattaccaagac	7	12	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:216296577C>G	uc002vfa.2	-	4	792	c.526G>C	c.(526-528)GAA>CAA	p.E176Q	FN1_uc002vfb.2_Missense_Mutation_p.E176Q|FN1_uc002vfc.2_Missense_Mutation_p.E176Q|FN1_uc002vfd.2_Missense_Mutation_p.E176Q|FN1_uc002vfe.2_Missense_Mutation_p.E176Q|FN1_uc002vff.2_Missense_Mutation_p.E176Q|FN1_uc002vfg.2_Missense_Mutation_p.E176Q|FN1_uc002vfh.2_Missense_Mutation_p.E176Q|FN1_uc002vfi.2_Missense_Mutation_p.E176Q|FN1_uc002vfj.2_Missense_Mutation_p.E176Q|FN1_uc002vfl.2_Missense_Mutation_p.E176Q	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	176	Fibrin- and heparin-binding 1.|Fibronectin type-I 3.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAGGTCCATTCTCCTTTTCCA	0.488													10	312	---	---	---	---	PASS	G	216296577	G	G	216296577	3	3	171	1	0	0	0	0	1	0	0	0	5962	922	32	2	7112	2	FN1	2	216296577	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	6938236	216296577	26902796	23	61105										
SPP2	6694	broad.mit.edu	37	chr2	234975204	234975204	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ttggggacatgttgggatctCataaatggagaaacaattat	11	4	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:234975204C>G	uc002vvk.1	+	5	557	c.472C>G	c.(472-474)CAT>GAT	p.H158D	SPP2_uc010fyl.1_Missense_Mutation_p.H78D	NM_006944	NP_008875	Q13103	SPP24_HUMAN	secreted phosphoprotein 2, 24kDa precursor	158					bone remodeling|skeletal system development	extracellular region	endopeptidase inhibitor activity				0		Breast(86;0.0109)|Renal(207;0.019)|all_lung(227;0.13)|all_hematologic(139;0.182)		Epithelial(121;5.73e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000166)|Lung(119;0.00539)|LUSC - Lung squamous cell carcinoma(224;0.00846)		GTTGGGATCTCATAAATGGAG	0.313													30	138	---	---	---	---	PASS	G	234975204	G	G	234975204	3	3	171	1	0	0	0	0	1	0	0	0	15086	826	29	2	490	2	SPP2	2	234975204	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	18678627	234975204	8224169	24	61106										
HDAC4	9759	broad.mit.edu	37	chr2	240055998	240055998	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	taagaccatgtgctgcagaaGagggctgtgcgctgcccctc	13	12	0	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr2:240055998G>C	uc002vyk.3	-	11	2029	c.1237C>G	c.(1237-1239)CTT>GTT	p.L413V	HDAC4_uc010fyz.1_Missense_Mutation_p.L408V|HDAC4_uc010zoa.1_Missense_Mutation_p.L408V|HDAC4_uc010fza.2_Missense_Mutation_p.L413V|HDAC4_uc010fyy.2_Missense_Mutation_p.L365V|HDAC4_uc010znz.1_Missense_Mutation_p.L296V|HDAC4_uc010fzb.1_RNA	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	413					B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		TGCTGCAGAAGAGGGCTGTGC	0.667													17	44	---	---	---	---	PASS	C	240055998	C	C	240055998	3	2	171	1	0	0	0	0	1	0	0	0	7009	942	33	2	2085	2	HDAC4	2	240055998	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	5080794	240055998	3143375	25	61107										
CTNNB1	1499	broad.mit.edu	37	chr3	41266698	41266698	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ctgctaaatgacgaggaccaGgtaagcaatgacatagctag	11	8	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:41266698G>T	uc010hia.1	+	5	651	c.495G>T	c.(493-495)CAG>CAT	p.Q165H	CTNNB1_uc003ckp.2_Missense_Mutation_p.Q165H|CTNNB1_uc003ckq.2_Missense_Mutation_p.Q165H|CTNNB1_uc003ckr.2_Missense_Mutation_p.Q165H|CTNNB1_uc011azf.1_Missense_Mutation_p.Q158H|CTNNB1_uc011azg.1_Missense_Mutation_p.Q93H|uc010hib.1_5'Flank	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	165	ARM 1.				adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.M1_V173del(1)|p.I35_K170del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	ACGAGGACCAGGTAAGCAATG	0.398		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				38	78	---	---	---	---	PASS	T	41266698	T	T	41266698	3	4	171	1	0	0	0	0	1	0	0	0	4016	1014	35	3	505	3	CTNNB1	3	41266698	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08		41266698	156755732	26	61108										
BSN	8927	broad.mit.edu	37	chr3	49690377	49690377	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gctctgagtactcaccctcaCcctcccttgactctgaggct	7	17	4	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:49690377C>A	uc003cxe.3	+	5	3502	c.3388C>A	c.(3388-3390)CCC>ACC	p.P1130T		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1130					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CTCACCCTCACCCTCCCTTGA	0.612													52	121	---	---	---	---	PASS	A	49690377	A	A	49690377	3	1	171	1	0	0	0	0	1	0	0	0	1530	507	18	3	3406	3	BSN	3	49690377	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	8423679	49690377	148332053	27	61109										
CACNA2D2	9254	broad.mit.edu	37	chr3	50402576	50402576	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ggcttctcggccaccacaaaGagaagattggtgttggtcag	13	9	2	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:50402576G>C	uc003daq.2	-	37	3197	c.3159C>G	c.(3157-3159)CTC>CTG	p.L1053L	CACNA2D2_uc003dap.2_Silent_p.L1046L|CACNA2D2_uc003dao.2_Missense_Mutation_p.L92V	NM_006030	NP_006021	Q9NY47	CA2D2_HUMAN	calcium channel, voltage-dependent, alpha	1053	Extracellular (Potential).				energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000365)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)	Gabapentin(DB00996)	CCACCACAAAGAGAAGATTGG	0.562													20	42	---	---	---	---	PASS	C	50402576	C	C	50402576	2	2	171	1	0	0	0	0	0	0	0	1	2549	929	33	2		2	CACNA2D2	3	50402576	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	712199	50402576	147619854	28	61110										
CADPS	8618	broad.mit.edu	37	chr3	62518672	62518672	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	agagatgtcggtgacaccccCggactccatttcgggcgcaa	12	13	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:62518672C>A	uc003dll.2	-	13	2525	c.2165G>T	c.(2164-2166)CGG>CTG	p.R722L	CADPS_uc003dlk.1_Missense_Mutation_p.R226L|CADPS_uc003dlm.2_Missense_Mutation_p.R722L|CADPS_uc003dln.2_Missense_Mutation_p.R705L	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	722					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		GTGACACCCCCGGACTCCATT	0.493													47	151	---	---	---	---	PASS	A	62518672	A	A	62518672	3	1	171	1	0	0	0	0	1	0	0	0	2570	652	23	1	2041	1	CADPS	3	62518672	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	12116096	62518672	135503758	29	61111										
SHQ1	55164	broad.mit.edu	37	chr3	72891517	72891517	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tcagcccctcaaaatgctggCcaggggtttctttgggcagg	13	11	3	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:72891517C>T	uc003dpf.2	-	3	352	c.245G>A	c.(244-246)GGC>GAC	p.G82D	SHQ1_uc010hod.2_5'UTR	NM_018130	NP_060600	Q6PI26	SHQ1_HUMAN	SHQ1 homolog	82	CS.				ribonucleoprotein complex assembly	cytosol|nucleoplasm	protein binding			ovary(2)|large_intestine(1)	3		Prostate(10;0.00482)|Lung NSC(201;0.0339)|Myeloproliferative disorder(1037;0.204)		BRCA - Breast invasive adenocarcinoma(55;9.68e-05)|Epithelial(33;0.000563)|LUSC - Lung squamous cell carcinoma(21;0.00229)|Lung(16;0.00688)|KIRC - Kidney renal clear cell carcinoma(39;0.018)|Kidney(39;0.0213)		AAAATGCTGGCCAGGGGTTTC	0.328													40	90	---	---	---	---	PASS	T	72891517	T	T	72891517	3	4	171	1	0	0	0	0	1	0	0	0	14292	739	26	3	1524	3	SHQ1	3	72891517	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	10372845	72891517	125130913	30	61112										
PDZRN3	23024	broad.mit.edu	37	chr3	73433433	73433433	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cggggtgctgcggcagctctCgcctgtgttgtaggcgctcg	17	12	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:73433433C>A	uc003dpl.1	-	10	2380	c.2284G>T	c.(2284-2286)GAG>TAG	p.E762*	PDZRN3_uc011bgh.1_Nonsense_Mutation_p.E419*|PDZRN3_uc010hoe.1_Nonsense_Mutation_p.E460*|PDZRN3_uc011bgf.1_Nonsense_Mutation_p.E479*|PDZRN3_uc011bgg.1_Nonsense_Mutation_p.E482*	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	762							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		CGGCAGCTCTCGCCTGTGTTG	0.632													13	39	---	---	---	---	PASS	A	73433433	A	A	73433433	4	1	171	1	0	0	0	0	0	1	0	0	11709	893	31	2	920	2	PDZRN3	3	73433433	Nonsense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	541916	73433433	124588997	31	61113										
VGLL3	389136	broad.mit.edu	37	chr3	87027889	87027889	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ctcctcctcatcctcctcctCttgtttgctgggaagggtga	9	14	2	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:87027889C>G	uc003dqn.2	-	2	554	c.190G>C	c.(190-192)GAG>CAG	p.E64Q		NM_016206	NP_057290	A8MV65	VGLL3_HUMAN	colon carcinoma related protein	64					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)		tcctcctcctcTTGTTTGCTG	0.378													29	67	---	---	---	---	PASS	G	87027889	G	G	87027889	3	3	171	1	0	0	0	0	1	0	0	0	17157	922	32	2	802	2	VGLL3	3	87027889	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	13594456	87027889	110994541	32	61114										
KIAA1407	57577	broad.mit.edu	37	chr3	113737550	113737550	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ttcttccctaagatcattttCcaaggcttgagtctcccgct	6	13	3	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:113737550C>G	uc003eax.2	-	8	1285	c.1138G>C	c.(1138-1140)GAA>CAA	p.E380Q	KIAA1407_uc011bin.1_RNA|KIAA1407_uc011bio.1_Missense_Mutation_p.E358Q|KIAA1407_uc011bip.1_Missense_Mutation_p.E367Q	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	380	Potential.									ovary(2)	2						AGATCATTTTCCAAGGCTTGA	0.433													130	320	---	---	---	---	PASS	G	113737550	G	G	113737550	3	3	171	1	0	0	0	0	1	0	0	0	8229	864	30	2	1712	2	KIAA1407	3	113737550	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	26709661	113737550	84284880	33	61115										
HCLS1	3059	broad.mit.edu	37	chr3	121356041	121356041	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tcccttgtagtcatatcccaGagctgctttgtcccatttat	6	12	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:121356041G>C	uc003eeh.3	-	7	642	c.517C>G	c.(517-519)CTG>GTG	p.L173V	HCLS1_uc011bjj.1_Intron|HCLS1_uc011bjk.1_RNA	NM_005335	NP_005326	P14317	HCLS1_HUMAN	hematopoietic cell-specific Lyn substrate 1	173	Cortactin 3.				erythrocyte differentiation|intracellular signal transduction|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of STAT protein|response to hormone stimulus	mitochondrion|nucleus|plasma membrane	DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(114;0.0912)		TCATATCCCAGAGCTGCTTTG	0.547													60	161	---	---	---	---	PASS	C	121356041	C	C	121356041	3	2	171	1	0	0	0	0	1	0	0	0	6995	933	33	2	975	2	HCLS1	3	121356041	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	7618491	121356041	76666389	34	61116										
P2RY1	5028	broad.mit.edu	37	chr3	152553885	152553885	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cttgtacgtgctgactctgcCagccctgatcttctactact	7	14	3	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:152553885C>T	uc003ezq.2	+	1	1150	c.314C>T	c.(313-315)CCA>CTA	p.P105L		NM_002563	NP_002554	P47900	P2RY1_HUMAN	purinergic receptor P2Y1	105	Helical; Name=2; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			CTGACTCTGCCAGCCCTGATC	0.498													60	120	---	---	---	---	PASS	T	152553885	T	T	152553885	3	4	171	1	0	0	0	0	1	0	0	0	11346	594	21	3	316	3	P2RY1	3	152553885	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	31197844	152553885	45468545	35	61117										
PLCH1	23007	broad.mit.edu	37	chr3	155200013	155200013	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gatgggagtgcaggtagtttCataaactgtgttcgttgcat	13	5	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:155200013C>T	uc011bok.1	-	23	4103	c.3826G>A	c.(3826-3828)GAA>AAA	p.E1276K	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.E1238K	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1276					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CAGGTAGTTTCATAAACTGTG	0.478													100	238	---	---	---	---	PASS	T	155200013	T	T	155200013	3	4	171	1	0	0	0	0	1	0	0	0	12037	835	29	2	1259	2	PLCH1	3	155200013	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	2646128	155200013	42822417	36	61118										
KLHL6	89857	broad.mit.edu	37	chr3	183226065	183226065	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ctcaaacacctgagcctcctCggtcacgtaaaggtcatcac	7	15	4	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:183226065C>T	uc003flr.2	-	3	749	c.691G>A	c.(691-693)GAG>AAG	p.E231K	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_Missense_Mutation_p.E229K	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	231	BACK.									haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			TGagcctcctcggtcacgtaa	0.274													30	937	---	---	---	---	PASS	T	183226065	T	T	183226065	3	4	171	1	0	0	0	0	1	0	0	0	8393	893	31	2	1194	2	KLHL6	3	183226065	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	28026052	183226065	14796365	37	61119										
MASP1	5648	broad.mit.edu	37	chr3	186943271	186943271	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gccgagatgctgttcattttCatctgaccggagcctccaat	9	12	3	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:186943271C>T	uc003frh.1	-	13	1914	c.1582G>A	c.(1582-1584)GAA>AAA	p.E528K		NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	528	Peptidase S1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		TGTTCATTTTCATCTGACCGG	0.542													62	700	---	---	---	---	PASS	T	186943271	T	T	186943271	3	4	171	1	0	0	0	0	1	0	0	0	9322	835	29	2	533	2	MASP1	3	186943271	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	3717206	186943271	11079159	38	61120										
LRRC33	375387	broad.mit.edu	37	chr3	196386691	196386691	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	agcagcctcccgccccacgcCcggatgctcaccctggatgc	10	20	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:196386691C>A	uc003fwv.2	+	3	281	c.177C>A	c.(175-177)GCC>GCA	p.A59A		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	59	Extracellular (Potential).|LRR 1.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		CGCCCCACGCCCGGATGCTCA	0.672													26	175	---	---	---	---	PASS	A	196386691	A	A	196386691	2	1	171	1	0	0	0	0	0	0	0	1	8988	610	22	3		3	LRRC33	3	196386691	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08	9443420	196386691	1635739	39	61121										
IQCG	84223	broad.mit.edu	37	chr3	197640812	197640812	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tttttctgggtctgggcaatCtgcagctcggtattggtttt	12	7	3	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr3:197640812C>G	uc003fyo.2	-	7	974	c.828G>C	c.(826-828)CAG>CAC	p.Q276H	IQCG_uc003fyn.2_Missense_Mutation_p.Q178H|IQCG_uc003fyp.2_Missense_Mutation_p.Q276H|IQCG_uc003fyq.3_Missense_Mutation_p.Q276H|IQCG_uc003fym.2_5'Flank	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	276											0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;7.19e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.149)		TCTGGGCAATCTGCAGCTCGG	0.458													81	652	---	---	---	---	PASS	G	197640812	G	G	197640812	3	3	171	1	0	0	0	0	1	0	0	0	7810	912	32	2	523	2	IQCG	3	197640812	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	1254121	197640812	381618	40	61122										
CEP135	9662	broad.mit.edu	37	chr4	56830468	56830468	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	aagagaacgagagatagaacGactgtcagttgctttggatg	13	5	1	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr4:56830468G>T	uc003hbi.2	+	7	962	c.728G>T	c.(727-729)CGA>CTA	p.R243L	CEP135_uc003hbj.2_5'Flank|CEP135_uc010igz.1_Missense_Mutation_p.R73L	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	243	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					GAGATAGAACGACTGTCAGTT	0.363													28	78	---	---	---	---	PASS	T	56830468	T	T	56830468	3	4	171	1	0	0	0	0	1	0	0	0	3247	1058	37	2	750	2	CEP135	4	56830468	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08		56830468	134323808	41	61123										
UTP3	57050	broad.mit.edu	37	chr4	71554761	71554761	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	aaagtgaagctgaggcctctGtggatcccagtttgtcgtgg	14	8	1	2	rs139549167		TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr4:71554761G>A	uc003hfo.2	+	1	566	c.367G>A	c.(367-369)GTG>ATG	p.V123M		NM_020368	NP_065101	Q9NQZ2	SAS10_HUMAN	UTP3, small subunit processome component	123	Glu-rich.				brain development|chromatin modification|gene silencing	nucleolus					0			Lung(101;0.235)			TGAGGCCTCTGTGGATCCCAG	0.368													32	77	---	---	---	---	PASS	A	71554761	A	A	71554761	3	1	171	1	0	0	0	0	1	0	0	0	17098	1377	48	3	369	3	UTP3	4	71554761	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	14724293	71554761	119599515	42	61124										
NAA11	84779	broad.mit.edu	37	chr4	80247029	80247029	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ggctgagcgttgcggatgttCataatggcagagggtaggga	18	5	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr4:80247029C>G	uc003hlt.3	-	1	143	c.3G>C	c.(1-3)ATG>ATC	p.M1I		NM_032693	NP_116082	Q9BSU3	NAA11_HUMAN	alpha-N-acetyltransferase 1B	1	Interaction with NAA15 (By similarity).|N-acetyltransferase.					cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2						TGCGGATGTTCATAATGGCAG	0.507													12	39	---	---	---	---	PASS	G	80247029	G	G	80247029	3	3	171	1	0	0	0	0	1	0	0	0	10117	826	29	2	690	2	NAA11	4	80247029	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	8692268	80247029	110907247	43	61125										
GK2	2712	broad.mit.edu	37	chr4	80328678	80328678	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	catttggaagaaggtccattGgaatttcaaaaaagtcacag	9	6	2	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr4:80328678G>A	uc003hlu.2	-	1	695	c.677C>T	c.(676-678)CCA>CTA	p.P226L		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	226					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						AAGGTCCATTGGAATTTCAAA	0.413													64	142	---	---	---	---	PASS	A	80328678	A	A	80328678	3	1	171	1	0	0	0	0	1	0	0	0	6421	1348	47	3	988	3	GK2	4	80328678	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	81649	80328678	110825598	44	61126										
ADAD1	132612	broad.mit.edu	37	chr4	123350789	123350789	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tttcttctctagtgtatgtcTgcctcctatcaagaagctaa	6	10	4	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr4:123350789T>A	uc003ieo.2	+	13	1858	c.1626T>A	c.(1624-1626)TCT>TCA	p.S542S	ADAD1_uc003iep.2_Silent_p.S531S|ADAD1_uc003ieq.2_Silent_p.S524S	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	542	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						AGTGTATGTCTGCCTCCTATC	0.348													45	96	---	---	---	---	PASS	A	123350789	A	A	123350789	2	1	171	1	0	0	0	0	0	0	0	1	231	1567	55	5		5	ADAD1	4	123350789	Silent	SNP	T	TCGA-66-2794-01A-01D-1267-08	43022111	123350789	67803487	45	61127										
SLC25A31	83447	broad.mit.edu	37	chr4	128689967	128689967	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cctttttcattgctcaagttGtgactacatgctctggaata	7	9	3	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr4:128689967G>C	uc003ifl.2	+	5	840	c.694G>C	c.(694-696)GTG>CTG	p.V232L		NM_031291	NP_112581	Q9H0C2	ADT4_HUMAN	solute carrier family 25 (mitochondrial carrier;	232	Helical; Name=5; (Potential).|Solcar 3.				transmembrane transport	cilium|flagellum|integral to membrane|mitochondrial inner membrane	binding|transporter activity				0						TGCTCAAGTTGTGACTACATG	0.343													23	41	---	---	---	---	PASS	C	128689967	C	C	128689967	3	2	171	1	0	0	0	0	1	0	0	0	14495	1377	48	4	712	4	SLC25A31	4	128689967	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	5339178	128689967	62464309	46	61128										
TLR3	7098	broad.mit.edu	37	chr4	187004154	187004154	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cacctagaagtacttgacctGggccttaatgaaattgggca	10	9	0	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr4:187004154G>T	uc003iyq.2	+	4	1415	c.1314G>T	c.(1312-1314)CTG>CTT	p.L438L	TLR3_uc011ckz.1_Silent_p.L161L|TLR3_uc003iyr.2_Silent_p.L161L	NM_003265	NP_003256	O15455	TLR3_HUMAN	toll-like receptor 3 precursor	438	LRR 16.|Lumenal (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to mechanical stimulus|defense response to bacterium|defense response to virus|detection of virus|hyperosmotic response|I-kappaB phosphorylation|inflammatory response|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of osteoclast differentiation|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|toll-like receptor 3 signaling pathway	endoplasmic reticulum membrane|endosome membrane|integral to plasma membrane	double-stranded RNA binding|transmembrane receptor activity			ovary(2)|prostate(1)|lung(1)|breast(1)	5		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		TACTTGACCTGGGCCTTAATG	0.413													33	64	---	---	---	---	PASS	T	187004154	T	T	187004154	2	4	171	1	0	0	0	0	0	0	0	1	15949	1335	47	3		3	TLR3	4	187004154	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	58314187	187004154	4150122	47	61129										
EXOC3	11336	broad.mit.edu	37	chr5	454073	454073	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cctgaacatgtaccaccaagCcctgagcacgcggatgcagg	11	14	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr5:454073C>A	uc003jba.2	+	4	1081	c.953C>A	c.(952-954)GCC>GAC	p.A318D		NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein	329					exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			TACCACCAAGCCCTGAGCACG	0.512													5	78	---	---	---	---	PASS	A	454073	A	A	454073	3	1	171	1	0	0	0	0	1	0	0	0	5303	739	26	3	963	3	EXOC3	5	454073	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08		454073	180461187	48	61130										
CTNND2	1501	broad.mit.edu	37	chr5	11732354	11732354	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	aactcgtcttctctgaggctGatgaaggctggtctggaaca	12	9	3	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr5:11732354G>A	uc003jfa.1	-	2	213	c.68C>T	c.(67-69)TCA>TTA	p.S23L	CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	23					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						CTCTGAGGCTGATGAAGGCTG	0.507													32	174	---	---	---	---	PASS	A	11732354	A	A	11732354	3	1	171	1	0	0	0	0	1	0	0	0	4020	1294	45	2	3693	2	CTNND2	5	11732354	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	11278281	11732354	169182906	49	61131										
NUP155	9631	broad.mit.edu	37	chr5	37299569	37299569	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cctttctctatgatatcttgCcaaagtgtctgcaccaatat	5	11	3	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr5:37299569C>T	uc003jku.1	-	31	3781	c.3663G>A	c.(3661-3663)TGG>TGA	p.W1221*	NUP155_uc003jkt.1_Nonsense_Mutation_p.W1162*|NUP155_uc010iuz.1_Nonsense_Mutation_p.W1157*	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	1221					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGATATCTTGCCAAAGTGTCT	0.383													88	137	---	---	---	---	PASS	T	37299569	T	T	37299569	4	4	171	1	0	0	0	0	0	1	0	0	10756	740	26	3	532	3	NUP155	5	37299569	Nonsense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	25567215	37299569	143615691	50	61132										
TTC33	23548	broad.mit.edu	37	chr5	40716430	40716430	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tcactttcaaagtcatagtcTggaattgactttggtgaaaa	8	6	4	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr5:40716430T>C	uc003jma.2	-	5	754	c.606A>G	c.(604-606)CCA>CCG	p.P202P	TTC33_uc011cpm.1_Silent_p.P94P|TTC33_uc010ivg.2_3'UTR	NM_012382	NP_036514	Q6PID6	TTC33_HUMAN	tetratricopeptide repeat domain 33	202							binding			ovary(1)	1						AGTCATAGTCTGGAATTGACT	0.413													54	154	---	---	---	---	PASS	C	40716430	C	C	40716430	2	2	171	1	0	0	0	0	0	0	0	1	16699	1567	55	5		5	TTC33	5	40716430	Silent	SNP	T	TCGA-66-2794-01A-01D-1267-08	3416861	40716430	140198830	51	61133										
MRPS30	10884	broad.mit.edu	37	chr5	44815150	44815150	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	agctgatcaaaataaccctcGtaaaaatatatgttggggta	8	6	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr5:44815150G>A	uc003joh.2	+	5	1204	c.1166G>A	c.(1165-1167)CGT>CAT	p.R389H		NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	389					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)					AATAACCCTCGTAAAAATATA	0.363													26	100	---	---	---	---	PASS	A	44815150	A	A	44815150	3	1	171	1	0	0	0	0	1	0	0	0	9840	1145	40	1	1184	1	MRPS30	5	44815150	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	4098720	44815150	136100110	52	61134										
DIAPH1	1729	broad.mit.edu	37	chr5	140953560	140953560	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	caaacacccccaggcaaaggAggtggaggaggaggaggagg	18	8	0	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr5:140953560A>G	uc003llb.3	-	16	1998	c.1857T>C	c.(1855-1857)CCT>CCC	p.P619P	DIAPH1_uc003llc.3_Silent_p.P610P|DIAPH1_uc010jgc.1_Silent_p.P58P	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	619	FH1.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGCAAaggaggtggaggag	0.438													2	2	---	---	---	---	PASS	G	140953560	G	G	140953560	2	3	171	1	0	0	0	0	0	0	0	1	4518	291	11	5		5	DIAPH1	5	140953560	Silent	SNP	A	TCGA-66-2794-01A-01D-1267-08	96138410	140953560	39961700	53	61135										
PBX2	5089	broad.mit.edu	37	chr6	32154671	32154671	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cctgagagattgaaagagccGccagagccttgtgggggcag	16	9	0	5			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr6:32154671G>A	uc003oav.1	-	7	1303	c.1032C>T	c.(1030-1032)GGC>GGT	p.G344G	AGER_uc003oar.2_5'Flank|AGER_uc011dpm.1_5'Flank|AGER_uc011dpn.1_5'Flank|AGER_uc003oal.1_5'Flank|AGER_uc010jtv.1_5'Flank|AGER_uc011dpo.1_5'Flank|AGER_uc003oam.1_5'Flank|AGER_uc003oan.1_5'Flank|AGER_uc003oap.1_5'Flank|AGER_uc003oat.1_5'Flank|AGER_uc003oao.1_5'Flank|AGER_uc003oaq.1_5'Flank|AGER_uc010jtw.1_5'Flank|AGER_uc003oas.1_5'Flank|AGER_uc003oau.1_5'Flank|AGER_uc011dpp.1_5'Flank|AGER_uc011dpq.1_5'Flank|AGER_uc011dpr.1_5'Flank|AGER_uc011dps.1_5'Flank	NM_002586	NP_002577	P40425	PBX2_HUMAN	pre-B-cell leukemia homeobox 2	344							transcription factor binding			ovary(1)	1						TGAAAGAGCCGCCAGAGCCTT	0.527													37	35	---	---	---	---	PASS	A	32154671	A	A	32154671	2	1	171	1	0	0	0	0	0	0	0	1	11493	1074	38	1		1	PBX2	6	32154671	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08		32154671	138960396	54	61136										
ENPP5	59084	broad.mit.edu	37	chr6	46133223	46133223	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gtatttgtaatgccacctttCtggaacgtcttcttttttgt	7	8	3	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr6:46133223C>T	uc003oxz.1	-	3	1115	c.907G>A	c.(907-909)GAA>AAA	p.E303K	ENPP5_uc003oya.1_Missense_Mutation_p.E303K|ENPP5_uc011dvz.1_Missense_Mutation_p.E209K|ENPP5_uc010jzc.1_Missense_Mutation_p.E303K	NM_021572	NP_067547	Q9UJA9	ENPP5_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	303						extracellular region|integral to membrane	hydrolase activity				0						TGCCACCTTTCTGGAACGTCT	0.398													68	107	---	---	---	---	PASS	T	46133223	T	T	46133223	3	4	171	1	0	0	0	0	1	0	0	0	5133	922	32	2	534	2	ENPP5	6	46133223	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	13978552	46133223	124981844	55	61137										
IL17A	3605	broad.mit.edu	37	chr6	52052553	52052553	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cggaataccaataccaatccCaaaaggtcctcagattacta	5	12	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr6:52052553C>G	uc003pak.1	+	2	225	c.180C>G	c.(178-180)CCC>CCG	p.P60P		NM_002190	NP_002181	Q16552	IL17_HUMAN	interleukin 17A precursor	60					apoptosis|cell-cell signaling|fibroblast activation|immune response|inflammatory response|positive regulation of interleukin-23 production|positive regulation of osteoclast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein glycosylation	extracellular space	cytokine activity				0	Lung NSC(77;0.116)					ATACCAATCCCAAAAGGTCCT	0.453													76	164	---	---	---	---	PASS	G	52052553	G	G	52052553	2	3	171	1	0	0	0	0	0	0	0	1	7634	581	21	4		4	IL17A	6	52052553	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08	5919330	52052553	119062514	56	61138										
POU3F2	5454	broad.mit.edu	37	chr6	99282855	99282855	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	agggcgcggggggctaccgcGaagcgcagagcctggtgcag	20	11	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr6:99282855G>C	uc003ppe.2	+	1	276	c.106G>C	c.(106-108)GAA>CAA	p.E36Q		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	36					positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)		GGGCTACCGCGAAGCGCAGAG	0.682													11	36	---	---	---	---	PASS	C	99282855	C	C	99282855	3	2	171	1	0	0	0	0	1	0	0	0	12275	1059	37	2	108	2	POU3F2	6	99282855	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	47230302	99282855	71832212	57	61139										
RFPL4B	442247	broad.mit.edu	37	chr6	112671180	112671180	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ctgcacgtgagggaggagctCcggcattttcgggaggatgt	17	8	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr6:112671180C>G	uc003pvx.1	+	3	582	c.270C>G	c.(268-270)CTC>CTG	p.L90L		NM_001013734	NP_001013756	Q6ZWI9	RFPLB_HUMAN	ret finger protein-like 4B	90	B30.2/SPRY.						zinc ion binding				0		all_cancers(87;9.44e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00265)|Colorectal(196;0.0209)		all cancers(137;0.0202)|OV - Ovarian serous cystadenocarcinoma(136;0.0477)|Epithelial(106;0.0646)|GBM - Glioblastoma multiforme(226;0.0866)|BRCA - Breast invasive adenocarcinoma(108;0.244)		GGGAGGAGCTCCGGCATTTTC	0.527													27	66	---	---	---	---	PASS	G	112671180	G	G	112671180	2	3	171	1	0	0	0	0	0	0	0	1	13256	842	30	2		2	RFPL4B	6	112671180	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08	13388325	112671180	58443887	58	61140										
LAMA2	3908	broad.mit.edu	37	chr6	129419420	129419420	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	atgttgaatacaagccctggCagtatcatgctgtgacagac	10	9	1	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr6:129419420C>T	uc003qbn.2	+	4	604	c.499C>T	c.(499-501)CAG>TAG	p.Q167*	LAMA2_uc003qbo.2_Nonsense_Mutation_p.Q167*	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	167	Laminin N-terminal.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		CAAGCCCTGGCAGTATCATGC	0.502													40	119	---	---	---	---	PASS	T	129419420	T	T	129419420	4	4	171	1	0	0	0	0	0	1	0	0	8606	711	25	3	513	3	LAMA2	6	129419420	Nonsense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	16748240	129419420	41695647	59	61141										
SGK1	6446	broad.mit.edu	37	chr6	134495894	134495894	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gagaattgccaccatgccccTcatcctggagtaagtgaggg	12	11	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr6:134495894T>A	uc003qen.3	-	1	141	c.52A>T	c.(52-54)AGG>TGG	p.R18W	SGK1_uc003qeo.3_Intron|SGK1_uc011ect.1_5'UTR|SGK1_uc011ecu.1_Missense_Mutation_p.R18W|SGK1_uc011ecv.1_Intron|SGK1_uc011ecw.1_Intron	NM_005627	NP_005618	O00141	SGK1_HUMAN	serum/glucocorticoid regulated kinase 1 isoform	18	Necessary for localization to the cytoplasm.				apoptosis|response to stress|sodium ion transport	endoplasmic reticulum|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(3)|stomach(1)|lung(1)|central_nervous_system(1)	6	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00317)|GBM - Glioblastoma multiforme(68;0.00847)		ACCATGCCCCTCATCCTGGAG	0.542													76	232	---	---	---	---	PASS	A	134495894	A	A	134495894	3	1	171	1	0	0	0	0	1	0	0	0	14207	1550	54	5	1291	5	SGK1	6	134495894	Missense_Mutation	SNP	T	TCGA-66-2794-01A-01D-1267-08	5076474	134495894	36619173	60	61142										
HBS1L	10767	broad.mit.edu	37	chr6	135287503	135287503	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gcagctattgtagaaccaccGtaacgtagcatgaacctccc	8	13	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr6:135287503G>A	uc003qez.2	-	17	2214	c.2007C>T	c.(2005-2007)TAC>TAT	p.Y669Y	HBS1L_uc003qey.2_Silent_p.Y505Y|HBS1L_uc011ecy.1_Silent_p.Y393Y|HBS1L_uc011ecz.1_Silent_p.Y505Y|HBS1L_uc011eda.1_Silent_p.Y627Y	NM_006620	NP_006611	Q9Y450	HBS1L_HUMAN	Hsp70 subfamily B suppressor 1-like protein	669					signal transduction		GTP binding|GTPase activity|translation elongation factor activity			skin(2)	2	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0046)|GBM - Glioblastoma multiforme(68;0.00702)		TAGAACCACCGTAACGTAGCA	0.378													45	100	---	---	---	---	PASS	A	135287503	A	A	135287503	2	1	171	1	0	0	0	0	0	0	0	1	6987	1140	40	1		1	HBS1L	6	135287503	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	791609	135287503	35827564	61	61143										
BCLAF1	9774	broad.mit.edu	37	chr6	136597388	136597388	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tcagtattccggtgagatgcAgtagcaaaacttttaccctg	9	9	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr6:136597388A>T	uc003qgx.1	-	5	1528	c.1275T>A	c.(1273-1275)ACT>ACA	p.T425T	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Silent_p.T423T|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.T423T	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	425					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		GGTGAGATGCAGTAGCAAAAC	0.403													70	379	---	---	---	---	PASS	T	136597388	T	T	136597388	2	4	171	1	0	0	0	0	0	0	0	1	1383	175	7	5		5	BCLAF1	6	136597388	Silent	SNP	A	TCGA-66-2794-01A-01D-1267-08	1309885	136597388	34517679	62	61144										
SYNE1	23345	broad.mit.edu	37	chr6	152472735	152472735	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	atcacactcagaaaaatgttCaatattagtgagctgcagat	7	7	3	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr6:152472735C>T	uc010kiw.2	-	135	25005	c.24403G>A	c.(24403-24405)GAA>AAA	p.E8135K	SYNE1_uc010kiv.2_Missense_Mutation_p.E2659K|SYNE1_uc003qos.3_Missense_Mutation_p.E2659K|SYNE1_uc003qot.3_Missense_Mutation_p.E8064K|SYNE1_uc003qou.3_Missense_Mutation_p.E8135K|SYNE1_uc003qop.3_Missense_Mutation_p.E297K|SYNE1_uc011eez.1_Missense_Mutation_p.E337K|SYNE1_uc003qoq.3_Missense_Mutation_p.E337K|SYNE1_uc003qor.3_Missense_Mutation_p.E1035K	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	8135	Spectrin 30.|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)		GAAAAATGTTCAATATTAGTG	0.413										HNSCC(10;0.0054)			10	45	---	---	---	---	PASS	T	152472735	T	T	152472735	3	4	171	1	0	0	0	0	1	0	0	0	15442	835	29	2	2111	2	SYNE1	6	152472735	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	15875347	152472735	18642332	63	61145										
TFB1M	51106	broad.mit.edu	37	chr6	155635542	155635542	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ggagggagacggcaagtgctGagttttccggaggcagccat	17	8	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr6:155635542G>C	uc003qqj.3	-	1	85	c.21C>G	c.(19-21)CTC>CTG	p.L7L	TFB1M_uc003qqk.2_RNA	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	7					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		GGCAAGTGCTGAGTTTTCCGG	0.552													27	85	---	---	---	---	PASS	C	155635542	C	C	155635542	2	2	171	1	0	0	0	0	0	0	0	1	15790	1277	45	2		2	TFB1M	6	155635542	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	3162807	155635542	15479525	64	61146										
MICALL2	79778	broad.mit.edu	37	chr7	1487280	1487280	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gggtttgtctgggctggagaTagtggaggcttccgggctgg	20	6	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:1487280T>C	uc003skj.3	-	4	603	c.456A>G	c.(454-456)CTA>CTG	p.L152L		NM_182924	NP_891554	Q8IY33	MILK2_HUMAN	MICAL-like 2 isoform 1	152						cytoplasm|cytoskeleton	zinc ion binding			central_nervous_system(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;6.01e-15)		GGGCTGGAGATAGTGGAGGCT	0.677													9	9	---	---	---	---	PASS	C	1487280	C	C	1487280	2	2	171	1	0	0	0	0	0	0	0	1	9574	1393	49	5		5	MICALL2	7	1487280	Silent	SNP	T	TCGA-66-2794-01A-01D-1267-08		1487280	157651383	65	61147										
USP42	84132	broad.mit.edu	37	chr7	6189578	6189578	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	agtaacaaaaccgatcccccGcagtgaatcctgctcccagc	7	16	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:6189578G>A	uc011jwo.1	+	13	1874	c.1751G>A	c.(1750-1752)CGC>CAC	p.R584H	USP42_uc010kth.1_Missense_Mutation_p.R517H|USP42_uc011jwp.1_Missense_Mutation_p.R584H|USP42_uc011jwq.1_Missense_Mutation_p.R391H|USP42_uc011jwr.1_Missense_Mutation_p.R429H	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	584					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		CCGATCCCCCGCAGTGAATCC	0.527													24	53	---	---	---	---	PASS	A	6189578	A	A	6189578	3	1	171	1	0	0	0	0	1	0	0	0	17070	1087	38	1	1797	1	USP42	7	6189578	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	4702298	6189578	152949085	66	61148										
PDE1C	5137	broad.mit.edu	37	chr7	32109912	32109912	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	taggtatacttacagcccgcGgagccgaagccagattttct	10	11	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:32109912G>A	uc003tcm.1	-	1	563	c.94C>T	c.(94-96)CGC>TGC	p.R32C	PDE1C_uc003tcn.1_Missense_Mutation_p.R32C|PDE1C_uc003tco.1_Intron|PDE1C_uc003tcr.2_Missense_Mutation_p.R32C|PDE1C_uc003tcs.2_Missense_Mutation_p.R32C	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	32					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			TACAGCCCGCGGAGCCGAAGC	0.507													6	196	---	---	---	---	PASS	A	32109912	A	A	32109912	3	1	171	1	0	0	0	0	1	0	0	0	11635	1116	39	1	1878	1	PDE1C	7	32109912	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	25920334	32109912	127028751	67	61149										
BBS9	27241	broad.mit.edu	37	chr7	33195308	33195308	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gaaaactttgtgtctactctGtctcaggtaagaaatatttt	7	6	3	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:33195308G>T	uc003tdn.1	+	4	835	c.322G>T	c.(322-324)GTC>TTC	p.V108F	BBS9_uc003tdo.1_Missense_Mutation_p.V108F|BBS9_uc003tdp.1_Missense_Mutation_p.V108F|BBS9_uc003tdq.1_Missense_Mutation_p.V108F|BBS9_uc010kwn.1_RNA|BBS9_uc011kan.1_Missense_Mutation_p.V108F|BBS9_uc011kao.1_5'Flank	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	108					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			TGTCTACTCTGTCTCAGGTAA	0.318									Bardet-Biedl_syndrome				8	28	---	---	---	---	PASS	T	33195308	T	T	33195308	3	4	171	1	0	0	0	0	1	0	0	0	1342	1377	48	3	332	3	BBS9	7	33195308	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	1085396	33195308	125943355	68	61150										
SEPT7	989	broad.mit.edu	37	chr7	35942747	35942747	+	Frame_Shift_Del	DEL	A	-	-													0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	acagcacaaagaattggaggAaaaacgtcgtcagttcgagg							TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:35942747delA	uc010kxc.2	+	12	1389	c.1196delA	c.(1195-1197)GAAfs	p.E399fs	SEPT7_uc011kat.1_Frame_Shift_Del_p.E398fs|SEPT7_uc011kau.1_Frame_Shift_Del_p.E363fs|SEPT7_uc011kav.1_Frame_Shift_Del_p.E346fs|SEPT7_uc003tey.2_Frame_Shift_Del_p.E247fs	NM_001788	NP_001779	Q16181	SEPT7_HUMAN	cell division cycle 10 isoform 1	399	Potential.				cilium morphogenesis|cytokinesis|mitosis|protein heterooligomerization|regulation of embryonic cell shape	cilium axoneme|cleavage furrow|condensed chromosome kinetochore|midbody|nucleus|septin complex|spindle|stress fiber	GTP binding|protein binding|structural molecule activity				0						GAATTGGAGGAAAAACGTCGT	0.373													4	2	---	---	---	---		-	35942747	-	-	35942747	7	5	171	1	0	1	0	1	0	0	0	0	14069	246	9	0	1240	0	SEPT7	7	35942747	Frame_Shift_Del	DEL	A	TCGA-66-2794-01A-01D-1267-08	2747439	35942747	123195916	69	61151										
ASL	435	broad.mit.edu	37	chr7	65557572	65557572	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ccgccaggcccacgaggcctCcgggaaagctgtgttcatgg	14	14	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:65557572C>A	uc003tuo.2	+	16	1283	c.1172C>A	c.(1171-1173)TCC>TAC	p.S391Y	ASL_uc003tup.2_Missense_Mutation_p.S391Y|ASL_uc003tur.2_Missense_Mutation_p.S365Y|ASL_uc003tuq.2_Missense_Mutation_p.S371Y	NM_000048	NP_000039	P04424	ARLY_HUMAN	argininosuccinate lyase isoform 1	391					arginine biosynthetic process via ornithine|arginine catabolic process|urea cycle	cytosol	argininosuccinate lyase activity			breast(2)	2					L-Arginine(DB00125)	CACGAGGCCTCCGGGAAAGCT	0.637													81	192	---	---	---	---	PASS	A	65557572	A	A	65557572	3	1	171	1	0	0	0	0	1	0	0	0	1044	855	30	2	1230	2	ASL	7	65557572	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	29614825	65557572	93581091	70	61152										
MAGI2	9863	broad.mit.edu	37	chr7	77885613	77885613	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tggagtgcagagaatgaggcGgccgatctgttatatctgga	15	6	2	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:77885613G>A	uc003ugx.2	-	10	1948	c.1694C>T	c.(1693-1695)CCG>CTG	p.P565L	MAGI2_uc003ugy.2_Missense_Mutation_p.P565L|MAGI2_uc010ldx.1_Missense_Mutation_p.P174L|MAGI2_uc010ldy.1_Missense_Mutation_p.P174L|MAGI2_uc011kgr.1_Missense_Mutation_p.P397L|MAGI2_uc011kgs.1_Missense_Mutation_p.P402L	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	565						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				AGAATGAGGCGGCCGATCTGT	0.507													36	70	---	---	---	---	PASS	A	77885613	A	A	77885613	3	1	171	1	0	0	0	0	1	0	0	0	9191	1116	39	1	2725	1	MAGI2	7	77885613	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	12328041	77885613	81253050	71	61153										
CD36	948	broad.mit.edu	37	chr7	80290394	80290394	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tttagagttcgttttctagcCaaggaaaatgtaacccagga	9	7	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:80290394C>A	uc003uhc.2	+	8	981	c.297C>A	c.(295-297)GCC>GCA	p.A99A	CD36_uc003uhd.3_Silent_p.A99A|CD36_uc011kgv.1_Silent_p.A23A|CD36_uc003uhe.3_Silent_p.A99A|CD36_uc003uhf.3_Silent_p.A99A|CD36_uc003uhg.3_Silent_p.A99A|CD36_uc003uhh.3_Silent_p.A99A	NM_001127444	NP_001120916	P16671	CD36_HUMAN	CD36 antigen	99	Required for interaction with thrombospondins, THBS1 and THBS2.|Extracellular (Potential).				cell adhesion|cGMP-mediated signaling|cholesterol transport|lipid metabolic process|lipid storage|lipoprotein transport|low-density lipoprotein particle clearance|nitric oxide mediated signal transduction|plasma membrane long-chain fatty acid transport|platelet activation|platelet degranulation|positive regulation of cell-matrix adhesion|positive regulation of macrophage derived foam cell differentiation	integral to plasma membrane|membrane fraction|platelet alpha granule membrane	lipid binding|low-density lipoprotein receptor activity|thrombospondin receptor activity|transforming growth factor beta binding			ovary(1)	1						GTTTTCTAGCCAAGGAAAATG	0.368													63	97	---	---	---	---	PASS	A	80290394	A	A	80290394	2	1	171	1	0	0	0	0	0	0	0	1	3007	581	21	3		3	CD36	7	80290394	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08	2404781	80290394	78848269	72	61154										
PLXNA4	91584	broad.mit.edu	37	chr7	131853302	131853302	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gcgaagagcttcaggcctttCtccacacgctcctgccggta	10	15	2	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:131853302C>A	uc003vra.3	-	22	4276	c.4047G>T	c.(4045-4047)GAG>GAT	p.E1349D		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1349	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TCAGGCCTTTCTCCACACGCT	0.612													37	45	---	---	---	---	PASS	A	131853302	A	A	131853302	3	1	171	1	0	0	0	0	1	0	0	0	12122	912	32	2	1681	2	PLXNA4	7	131853302	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	51562908	131853302	27285361	73	61155										
CNOT4	4850	broad.mit.edu	37	chr7	135080421	135080421	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tctgtggttctggtgctgtaGgccagtcactggatgtctgt	14	8	4	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:135080421G>A	uc003vsv.1	-	9	1401	c.1094C>T	c.(1093-1095)CCT>CTT	p.P365L	CNOT4_uc003vss.2_Missense_Mutation_p.P362L|CNOT4_uc011kpz.1_Missense_Mutation_p.P362L|CNOT4_uc003vst.2_Missense_Mutation_p.P365L|CNOT4_uc003vsu.1_Missense_Mutation_p.P362L|CNOT4_uc011kpy.1_Missense_Mutation_p.P365L	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	365					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						TGGTGCTGTAGGCCAGTCACT	0.458													136	155	---	---	---	---	PASS	A	135080421	A	A	135080421	3	1	171	1	0	0	0	0	1	0	0	0	3621	1000	35	3	951	3	CNOT4	7	135080421	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	3227119	135080421	24058242	74	61156										
KIAA1549	57670	broad.mit.edu	37	chr7	138593849	138593849	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	agaagccagtatccacactcGgaggcacaaactgaagtact	9	11	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:138593849G>A	uc011kql.1	-	5	3213	c.3164C>T	c.(3163-3165)CCG>CTG	p.P1055L	KIAA1549_uc003vuk.3_Missense_Mutation_p.P1005L|KIAA1549_uc011kqj.1_Missense_Mutation_p.P1055L	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1055						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						ATCCACACTCGGAGGCACAAA	0.433			O	BRAF	pilocytic astrocytoma								20	11	---	---	---	---	PASS	A	138593849	A	A	138593849	3	1	171	1	0	0	0	0	1	0	0	0	8244	1116	39	1	2752	1	KIAA1549	7	138593849	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	3513428	138593849	20544814	75	61157										
CNTNAP2	26047	broad.mit.edu	37	chr7	146829535	146829535	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	atgtggagattgacctcactGaaagcaaagtgggtgttcac	12	7	2	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:146829535G>A	uc003weu.1	+	8	1798	c.1282G>A	c.(1282-1284)GAA>AAA	p.E428K		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	428	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TGACCTCACTGAAAGCAAAGT	0.438										HNSCC(39;0.1)			33	141	---	---	---	---	PASS	A	146829535	A	A	146829535	3	1	171	1	0	0	0	0	1	0	0	0	3647	1291	45	2	1312	2	CNTNAP2	7	146829535	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	8235686	146829535	12309128	76	61158										
CUL1	8454	broad.mit.edu	37	chr7	148463729	148463729	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cacacaagatgaattagcaaGgaaatgtgaacaagtcctca	8	8	1	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:148463729G>A	uc010lpg.2	+	8	1392	c.866G>A	c.(865-867)AGG>AAG	p.R289K	CUL1_uc003wey.2_Missense_Mutation_p.R289K|CUL1_uc003wez.2_Missense_Mutation_p.R179K	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	289					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GAATTAGCAAGGAAATGTGAA	0.388													69	72	---	---	---	---	PASS	A	148463729	A	A	148463729	3	1	171	1	0	0	0	0	1	0	0	0	4054	1000	35	3	892	3	CUL1	7	148463729	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	1634194	148463729	10674934	77	61159										
AGAP3	116988	broad.mit.edu	37	chr7	150813909	150813909	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tgaacagccaggagtggacgCtgagccgctccgtaccggag	15	12	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:150813909C>T	uc003wjg.1	+	2	364	c.361C>T	c.(361-363)CTG>TTG	p.L121L	AGAP3_uc003wje.1_5'UTR|AGAP3_uc003wjf.1_Silent_p.L121L|AGAP3_uc010lpy.1_Silent_p.L121L|AGAP3_uc003wjh.1_Silent_p.L301L	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	85	Small GTPase-like.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3						GGAGTGGACGCTGAGCCGCTC	0.687													99	137	---	---	---	---	PASS	T	150813909	T	T	150813909	2	4	171	1	0	0	0	0	0	0	0	1	369	796	28	3		3	AGAP3	7	150813909	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08	2350180	150813909	8324754	78	61160										
UBE3C	9690	broad.mit.edu	37	chr7	157013451	157013451	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cggatggggaggataggcccGctgcagtccaccctggacgg	17	12	0	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr7:157013451G>T	uc010lqs.2	+	15	2295	c.1983G>T	c.(1981-1983)CCG>CCT	p.P661P	UBE3C_uc003wni.3_5'UTR	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	661					protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		GGATAGGCCCGCTGCAGTCCA	0.433													63	75	---	---	---	---	PASS	T	157013451	T	T	157013451	2	4	171	1	0	0	0	0	0	0	0	1	16878	1074	38	1		1	UBE3C	7	157013451	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	6199542	157013451	2125212	79	61161										
DLGAP2	9228	broad.mit.edu	37	chr8	1497519	1497519	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	agcagctggtggagctcggaCgacaacctggacagcgacag	15	11	0	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:1497519C>A	uc003wpl.2	+	2	757	c.660C>A	c.(658-660)GAC>GAA	p.D220E	DLGAP2_uc003wpm.2_Missense_Mutation_p.D220E	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	299					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		GGAGCTCGGACGACAACCTGG	0.692													73	54	---	---	---	---	PASS	A	1497519	A	A	1497519	3	1	171	1	0	0	0	0	1	0	0	0	4560	535	19	1	662	1	DLGAP2	8	1497519	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08		1497519	144866503	80	61162										
CSMD1	64478	broad.mit.edu	37	chr8	2910062	2910062	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tgttgcttgctggctggattCaagcttgaagccctcatgac	11	10	2	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:2910062C>G	uc011kwk.1	-	50	7975	c.7585G>C	c.(7585-7587)GAA>CAA	p.E2529Q	CSMD1_uc011kwj.1_Missense_Mutation_p.E1858Q|CSMD1_uc010lrg.2_Missense_Mutation_p.E597Q	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2529	Extracellular (Potential).|Sushi 15.					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)		TGGCTGGATTCAAGCTTGAAG	0.512													6	14	---	---	---	---	PASS	G	2910062	G	G	2910062	3	3	171	1	0	0	0	0	1	0	0	0	3944	835	29	2	3196	2	CSMD1	8	2910062	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	1412543	2910062	143453960	81	61163										
POTEA	340441	broad.mit.edu	37	chr8	43147713	43147713	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	caagatgggcaagtggtgctGctgctgcttcccctgctgca	13	12	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:43147713G>A	uc003xpz.1	+	1	129	c.86G>A	c.(85-87)TGC>TAC	p.C29Y	POTEA_uc003xqa.1_Missense_Mutation_p.C29Y	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	29	Cys-rich.									ovary(1)	1						AAGTGGTGCTGCTGCTGCTTC	0.587													61	48	---	---	---	---	PASS	A	43147713	A	A	43147713	3	1	171	1	0	0	0	0	1	0	0	0	12261	1319	46	3	88	3	POTEA	8	43147713	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	40237651	43147713	103216309	82	61164										
TRPA1	8989	broad.mit.edu	37	chr8	72936124	72936124	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cttgtcttatttccccagtgCaaaataaaaaacagaatata	4	8	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:72936124C>G	uc003xza.2	-	26	3249	c.3074G>C	c.(3073-3075)TGC>TCC	p.C1025S	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	1025	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	TTCCCCAGTGCAAAATAAAAA	0.294													8	31	---	---	---	---	PASS	G	72936124	G	G	72936124	3	3	171	1	0	0	0	0	1	0	0	0	16574	710	25	4	293	4	TRPA1	8	72936124	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	29788411	72936124	73427898	83	61165										
TRPA1	8989	broad.mit.edu	37	chr8	72987580	72987580	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tgtcgtccggcacatcctcaTagacaacgccctggggctcc	10	16	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:72987580T>C	uc003xza.2	-	1	240	c.65A>G	c.(64-66)TAT>TGT	p.Y22C		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	22	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	CACATCCTCATAGACAACGCC	0.642													59	251	---	---	---	---	PASS	C	72987580	C	C	72987580	3	2	171	1	0	0	0	0	1	0	0	0	16574	1406	49	5	3402	5	TRPA1	8	72987580	Missense_Mutation	SNP	T	TCGA-66-2794-01A-01D-1267-08	51456	72987580	73376442	84	61166										
STAU2	27067	broad.mit.edu	37	chr8	74585361	74585361	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cctctgattgtacatgccccGaaagttgtaattagctctat	7	10	2	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:74585361G>A	uc003xzm.2	-	6	627	c.391C>T	c.(391-393)CGG>TGG	p.R131W	STAU2_uc011lfg.1_Intron|STAU2_uc003xzn.2_Missense_Mutation_p.R99W|STAU2_uc011lfh.1_Missense_Mutation_p.R27W|STAU2_uc003xzo.2_Missense_Mutation_p.R131W|STAU2_uc003xzp.2_Missense_Mutation_p.R99W|STAU2_uc011lfi.1_Missense_Mutation_p.R93W|STAU2_uc003xzq.2_Intron|STAU2_uc010lzk.2_Missense_Mutation_p.R99W|STAU2_uc010lzl.1_Intron|STAU2_uc003xzs.2_Missense_Mutation_p.R99W|STAU2_uc003xzr.2_Missense_Mutation_p.R93W	NM_014393	NP_055208	Q9NUL3	STAU2_HUMAN	staufen homolog 2 isoform e	131	DRBM 2.				transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)			TACATGCCCCGAAAGTTGTAA	0.363													18	103	---	---	---	---	PASS	A	74585361	A	A	74585361	3	1	171	1	0	0	0	0	1	0	0	0	15272	1057	37	2	1485	2	STAU2	8	74585361	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	1597781	74585361	71778661	85	61167										
OSGIN2	734	broad.mit.edu	37	chr8	90936800	90936800	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	aaacattatgtaaaagtcatGggtcttcagaagaatttcag	8	5	4	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:90936800G>A	uc003yeg.2	+	6	904	c.558G>A	c.(556-558)ATG>ATA	p.M186I	OSGIN2_uc003yeh.2_Missense_Mutation_p.M230I	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	186					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			TAAAAGTCATGGGTCTTCAGA	0.343													93	140	---	---	---	---	PASS	A	90936800	A	A	90936800	3	1	171	1	0	0	0	0	1	0	0	0	11290	1348	47	3	712	3	OSGIN2	8	90936800	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	16351439	90936800	55427222	86	61168										
PTDSS1	9791	broad.mit.edu	37	chr8	97321829	97321829	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cacacagtgcaagcgcgtagGaacacaatgctgggtgtttg	13	9	0	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:97321829G>C	uc003yht.1	+	9	1154	c.1052G>C	c.(1051-1053)GGA>GCA	p.G351A	PTDSS1_uc003yhu.1_Missense_Mutation_p.G205A	NM_014754	NP_055569	P48651	PTSS1_HUMAN	phosphatidylserine synthase 1	351					phosphatidylserine biosynthetic process	integral to membrane	transferase activity			ovary(1)	1	Breast(36;6.18e-05)				Phosphatidylserine(DB00144)	AAGCGCGTAGGAACACAATGC	0.428													18	95	---	---	---	---	PASS	C	97321829	C	C	97321829	3	2	171	1	0	0	0	0	1	0	0	0	12736	1174	41	2	1086	2	PTDSS1	8	97321829	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	6385029	97321829	49042193	87	61169										
RIMS2	9699	broad.mit.edu	37	chr8	105257246	105257246	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tcgacaggcaagccgagagtCtacagatggtagcatgaaca	12	9	1	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:105257246C>G	uc003yls.2	+	24	3732	c.3491C>G	c.(3490-3492)TCT>TGT	p.S1164C	RIMS2_uc003ylp.2_Missense_Mutation_p.S1146C|RIMS2_uc003ylw.2_Missense_Mutation_p.S1153C|RIMS2_uc003ylq.2_Missense_Mutation_p.S960C|RIMS2_uc003ylr.2_Missense_Mutation_p.S985C	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1208					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGCCGAGAGTCTACAGATGGT	0.507										HNSCC(12;0.0054)			196	150	---	---	---	---	PASS	G	105257246	G	G	105257246	3	3	171	1	0	0	0	0	1	0	0	0	13368	913	32	2	3711	2	RIMS2	8	105257246	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	7935417	105257246	41106776	88	61170										
PKHD1L1	93035	broad.mit.edu	37	chr8	110476933	110476933	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tctcaaggttggtttggaatGtggatctttgaggaatattt	12	3	2	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:110476933G>T	uc003yne.2	+	49	7976	c.7872G>T	c.(7870-7872)ATG>ATT	p.M2624I		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2624	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GGTTTGGAATGTGGATCTTTG	0.403										HNSCC(38;0.096)			251	302	---	---	---	---	PASS	T	110476933	T	T	110476933	3	4	171	1	0	0	0	0	1	0	0	0	11972	1377	48	3	8066	3	PKHD1L1	8	110476933	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	5219687	110476933	35887089	89	61171										
EPPK1	83481	broad.mit.edu	37	chr8	144943414	144943414	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tccatggcctgccacagagaGagggaggccctagagtaggg	16	10	0	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:144943414G>C	uc003zaa.1	-	1	4021	c.4008C>G	c.(4006-4008)CTC>CTG	p.L1336L		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1336	Plectin 23.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCCACAGAGAGAGGGAGGCCC	0.687													38	167	---	---	---	---	PASS	C	144943414	C	C	144943414	2	2	171	1	0	0	0	0	0	0	0	1	5190	929	33	2		2	EPPK1	8	144943414	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	34466481	144943414	1420608	90	61172										
EPPK1	83481	broad.mit.edu	37	chr8	144944503	144944503	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tctgggctgtgagggtccatGatggttccggtggccgcctg	17	10	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:144944503G>C	uc003zaa.1	-	1	2932	c.2919C>G	c.(2917-2919)ATC>ATG	p.I973M		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	973	Plectin 18.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GAGGGTCCATGATGGTTCCGG	0.701													7	19	---	---	---	---	PASS	C	144944503	C	C	144944503	3	2	171	1	0	0	0	0	1	0	0	0	5190	1280	45	2	4347	2	EPPK1	8	144944503	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	1089	144944503	1419519	91	61173										
NFKBIL2	4796	broad.mit.edu	37	chr8	145663860	145663860	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	agagcggggcccacctgcctCacaaggtcctggacgcggcg	15	15	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr8:145663860C>T	uc011llg.1	-	13	1662	c.1647G>A	c.(1645-1647)GTG>GTA	p.V549V	uc011llh.1_Intron	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	549	ANK 1.				cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|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;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CCACCTGCCTCACAAGGTCCT	0.517													38	149	---	---	---	---	PASS	T	145663860	T	T	145663860	2	4	171	1	0	0	0	0	0	0	0	1	10382	813	29	2		2	NFKBIL2	8	145663860	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08	719357	145663860	700162	92	61174										
KANK1	23189	broad.mit.edu	37	chr9	712577	712577	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cagcgtctgcgaaacaggcaGcaacacagaggagtctgtga	13	10	2	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr9:712577G>A	uc003zgl.1	+	7	2460	c.1811G>A	c.(1810-1812)AGC>AAC	p.S604N	KANK1_uc003zgm.2_Missense_Mutation_p.S604N|KANK1_uc003zgn.1_Missense_Mutation_p.S604N|KANK1_uc003zgo.1_Missense_Mutation_p.S604N|KANK1_uc003zgp.1_Missense_Mutation_p.S604N|KANK1_uc003zgq.2_Missense_Mutation_p.S446N|KANK1_uc003zgr.1_Missense_Mutation_p.S446N|KANK1_uc003zgs.1_Missense_Mutation_p.S446N	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	604					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		GAAACAGGCAGCAACACAGAG	0.498													48	222	---	---	---	---	PASS	A	712577	A	A	712577	3	1	171	1	0	0	0	0	1	0	0	0	7976	971	34	3	1817	3	KANK1	9	712577	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08		712577	140500854	93	61175										
AKNA	80709	broad.mit.edu	37	chr9	117113193	117113193	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tggtctctgttggtccacagGgtagaggcgcagcggcaggg	18	9	1	1	rs139913868	byFrequency	TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr9:117113193G>A	uc004biq.3	-	14	3302	c.3167C>T	c.(3166-3168)CCC>CTC	p.P1056L	AKNA_uc004bin.3_Missense_Mutation_p.P303L|AKNA_uc004bio.3_Missense_Mutation_p.P516L|AKNA_uc004bip.3_Missense_Mutation_p.P975L|AKNA_uc004bir.3_Missense_Mutation_p.P1056L|AKNA_uc004bis.3_Missense_Mutation_p.P1056L|AKNA_uc010mve.2_Missense_Mutation_p.P937L|AKNA_uc004bit.1_RNA	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	1056					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(2)	6						TGGTCCACAGGGTAGAGGCGC	0.587													125	81	---	---	---	---	PASS	A	117113193	A	A	117113193	3	1	171	1	0	0	0	0	1	0	0	0	463	1232	43	3	1184	3	AKNA	9	117113193	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	116400616	117113193	24100238	94	61176										
CIZ1	25792	broad.mit.edu	37	chr9	130931780	130931780	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gcaaacggtgcagaagggtcGcaaggattgtttggcaatct	14	7	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr9:130931780G>A	uc004btt.2	-	13	2213	c.2050C>T	c.(2050-2052)CGA>TGA	p.R684*	CIZ1_uc004btr.2_Nonsense_Mutation_p.R656*|CIZ1_uc004bts.2_Nonsense_Mutation_p.R655*|CIZ1_uc011maq.1_Nonsense_Mutation_p.R623*|CIZ1_uc004btu.2_Nonsense_Mutation_p.R604*|CIZ1_uc011mar.1_Nonsense_Mutation_p.R583*|CIZ1_uc011mas.1_Nonsense_Mutation_p.R740*|CIZ1_uc004btw.2_Nonsense_Mutation_p.R628*|CIZ1_uc004btv.2_Nonsense_Mutation_p.R684*	NM_001131016	NP_001124488	Q9ULV3	CIZ1_HUMAN	CDKN1A interacting zinc finger protein 1 isoform	684						nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4						CAGAAGGGTCGCAAGGATTGT	0.567													60	31	---	---	---	---	PASS	A	130931780	A	A	130931780	4	1	171	1	0	0	0	0	0	1	0	0	3441	1095	38	1	666	1	CIZ1	9	130931780	Nonsense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	13818587	130931780	10281651	95	61177										
MED22	6837	broad.mit.edu	37	chr9	136208458	136208458	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gggacgccagcagaggggccGagaggccatcagcagagtct	17	11	2	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr9:136208458G>A	uc004cdc.2	-	5	734	c.500C>T	c.(499-501)TCG>TTG	p.S167L	MED22_uc004cdd.2_3'UTR	NM_133640	NP_598395	Q15528	MED22_HUMAN	mediator complex subunit 22 isoform b	167					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|mediator complex|soluble fraction	protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.14e-06)|Epithelial(140;8.2e-06)|all cancers(34;6.94e-05)		CAGAGGGGCCGAGAGGCCATC	0.657													16	45	---	---	---	---	PASS	A	136208458	A	A	136208458	3	1	171	1	0	0	0	0	1	0	0	0	9440	1059	37	2	106	2	MED22	9	136208458	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	5276678	136208458	5004973	96	61178										
ANAPC2	29882	broad.mit.edu	37	chr9	140076197	140076197	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cctgagtcatcctcactgtcCtggcctgtctccaggctcgc	9	17	3	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr9:140076197C>T	uc004clr.1	-	7	1477	c.1404G>A	c.(1402-1404)CAG>CAA	p.Q468Q	ANAPC2_uc004clq.1_Silent_p.Q324Q	NM_013366	NP_037498	Q9UJX6	ANC2_HUMAN	anaphase-promoting complex subunit 2	468					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cyclin catabolic process|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of synapse maturation|positive regulation of synaptic plasticity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of cyclin-dependent protein kinase activity	anaphase-promoting complex|cytosol|nucleoplasm	ubiquitin protein ligase binding|ubiquitin-protein ligase activity			ovary(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.000858)		CCTCACTGTCCTGGCCTGTCT	0.647													30	16	---	---	---	---	PASS	T	140076197	T	T	140076197	2	4	171	1	0	0	0	0	0	0	0	1	603	680	24	3		3	ANAPC2	9	140076197	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08	3867739	140076197	1137234	97	61179										
PNPLA7	375775	broad.mit.edu	37	chr9	140396107	140396107	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cagacccccgctcacctggtCtccctgccttgacaccaccg	7	21	2	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr9:140396107C>T	uc004cnf.2	-	14	1808	c.1471G>A	c.(1471-1473)GAC>AAC	p.D491N	C9orf167_uc011mew.1_Intron|PNPLA7_uc011mfa.1_Intron|PNPLA7_uc010ncj.1_Missense_Mutation_p.D516N	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	491	cNMP 2.				lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		CTCACCTGGTCTCCCTGCCTT	0.622													11	35	---	---	---	---	PASS	T	140396107	T	T	140396107	3	4	171	1	0	0	0	0	1	0	0	0	12170	913	32	2	2566	2	PNPLA7	9	140396107	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	319910	140396107	817324	98	61180										
ADARB2	105	broad.mit.edu	37	chr10	1313259	1313259	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	agctgggatatggagtctgcGaattcctgaaagacacaagc	12	8	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr10:1313259G>A	uc009xhq.2	-	4	1457	c.1083C>T	c.(1081-1083)TTC>TTT	p.F361F		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	361					mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		TGGAGTCTGCGAATTCCTGAA	0.612													14	38	---	---	---	---	PASS	A	1313259	A	A	1313259	2	1	171	1	0	0	0	0	0	0	0	1	283	1049	37	2		2	ADARB2	10	1313259	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08		1313259	134221488	99	61181										
PHYH	5264	broad.mit.edu	37	chr10	13330438	13330438	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	accagacagccgttgttccgGctgatgtgctccatcgccgt	11	14	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr10:13330438G>T	uc001imf.2	-	6	688	c.600C>A	c.(598-600)AGC>AGA	p.S200R	PHYH_uc001ime.2_Missense_Mutation_p.S100R|PHYH_uc001img.2_Missense_Mutation_p.S183R	NM_006214	NP_006205	O14832	PAHX_HUMAN	phytanoyl-CoA 2-hydroxylase isoform a precursor	200					fatty acid alpha-oxidation|nervous system development	peroxisomal matrix	electron carrier activity|L-ascorbic acid binding|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|phytanoyl-CoA dioxygenase activity|protein binding				0		Ovarian(717;0.0448)			Antihemophilic Factor(DB00025)|Vitamin C(DB00126)	CGTTGTTCCGGCTGATGTGCT	0.627													41	99	---	---	---	---	PASS	T	13330438	T	T	13330438	3	4	171	1	0	0	0	0	1	0	0	0	11864	1194	42	3	432	3	PHYH	10	13330438	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	12017179	13330438	122204309	100	61182										
ITGB1	3688	broad.mit.edu	37	chr10	33199223	33199223	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cgtaaaatagaaccaacagtCgtcaacatccttctccttac	4	13	2	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr10:33199223C>T	uc001iws.3	-	14	2228	c.2092G>A	c.(2092-2094)GAC>AAC	p.D698N	ITGB1_uc001iwp.3_Missense_Mutation_p.D698N|ITGB1_uc001iwq.3_Missense_Mutation_p.D698N|ITGB1_uc001iwr.3_Missense_Mutation_p.D698N|ITGB1_uc001iwt.3_Missense_Mutation_p.D698N|ITGB1_uc001iwu.1_Missense_Mutation_p.D698N	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	698	Extracellular (Potential).				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				AACCAACAGTCGTCAACATCC	0.433													15	31	---	---	---	---	PASS	T	33199223	T	T	33199223	3	4	171	1	0	0	0	0	1	0	0	0	7890	884	31	2	554	2	ITGB1	10	33199223	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	19868785	33199223	102335524	101	61183										
CTNNA3	29119	broad.mit.edu	37	chr10	67680201	67680201	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ctctggcttctctcttttaaTcaagggtttttttgcaggag	9	8	4	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr10:67680201T>A	uc009xpn.1	-	18	2698	c.2575A>T	c.(2575-2577)ATT>TTT	p.I859F	CTNNA3_uc001jmw.2_Missense_Mutation_p.I859F	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	859					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						TCTCTTTTAATCAAGGGTTTT	0.473													56	163	---	---	---	---	PASS	A	67680201	A	A	67680201	3	1	171	1	0	0	0	0	1	0	0	0	4014	1435	50	5	116	5	CTNNA3	10	67680201	Missense_Mutation	SNP	T	TCGA-66-2794-01A-01D-1267-08	34480978	67680201	67854546	102	61184										
CTNNA3	29119	broad.mit.edu	37	chr10	68040305	68040305	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gatgtccacaaattgattatCatccaacacattcaatgagc	5	10	2	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr10:68040305C>T	uc009xpn.1	-	13	1930	c.1807G>A	c.(1807-1809)GAT>AAT	p.D603N	CTNNA3_uc001jmw.2_Missense_Mutation_p.D603N	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	603					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						AATTGATTATCATCCAACACA	0.338													20	70	---	---	---	---	PASS	T	68040305	T	T	68040305	3	4	171	1	0	0	0	0	1	0	0	0	4014	826	29	2	904	2	CTNNA3	10	68040305	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	360104	68040305	67494442	103	61185										
DLG5	9231	broad.mit.edu	37	chr10	79588710	79588710	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ttccaggcagcacagcggcaGcatacactccattctccaga	8	15	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr10:79588710G>T	uc001jzk.2	-	13	2289	c.2219C>A	c.(2218-2220)GCT>GAT	p.A740D	DLG5_uc001jzj.2_Missense_Mutation_p.A495D|DLG5_uc009xru.1_RNA|DLG5_uc001jzl.3_Missense_Mutation_p.A344D	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	740	PDZ 2.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			CACAGCGGCAGCATACACTCC	0.617													13	39	---	---	---	---	PASS	T	79588710	T	T	79588710	3	4	171	1	0	0	0	0	1	0	0	0	4558	971	34	3	3620	3	DLG5	10	79588710	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	11548405	79588710	55946037	104	61186										
C10orf58	84293	broad.mit.edu	37	chr10	82185670	82185670	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gcatgttggaccagctgggcGtccccctctatgcagtggta	13	12	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr10:82185670G>A	uc001kcc.3	+	4	479	c.319G>A	c.(319-321)GTC>ATC	p.V107I	C10orf58_uc001kcd.3_Missense_Mutation_p.V96I|C10orf58_uc001kce.3_Missense_Mutation_p.V107I|C10orf58_uc001kcf.3_Missense_Mutation_p.V107I	NM_032333	NP_115709	Q9BRX8	CJ058_HUMAN	hypothetical protein LOC84293 precursor	107						extracellular region					0			Colorectal(32;0.229)			CCAGCTGGGCGTCCCCCTCTA	0.517													12	153	---	---	---	---	PASS	A	82185670	A	A	82185670	3	1	171	1	0	0	0	0	1	0	0	0	1610	1145	40	1	329	1	C10orf58	10	82185670	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	2596960	82185670	53349077	105	61187										
ATRNL1	26033	broad.mit.edu	37	chr10	116887419	116887419	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tgaagttgttactacatctgGctatgcactgttacattttt	7	7	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr10:116887419G>A	uc001lcg.2	+	4	940	c.554G>A	c.(553-555)GGC>GAC	p.G185D	ATRNL1_uc001lce.2_RNA|ATRNL1_uc001lcf.2_Missense_Mutation_p.G185D|ATRNL1_uc009xyq.2_Missense_Mutation_p.G185D	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	185	CUB.|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)		ACTACATCTGGCTATGCACTG	0.313													5	16	---	---	---	---	PASS	A	116887419	A	A	116887419	3	1	171	1	0	0	0	0	1	0	0	0	1207	1203	42	3	568	3	ATRNL1	10	116887419	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	34701749	116887419	18647328	106	61188										
ADAM12	8038	broad.mit.edu	37	chr10	127760061	127760061	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cttacctctggctccccacaGtcacactcctctccttcttc	3	20	4	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr10:127760061G>A	uc001ljk.2	-	12	1730	c.1317C>T	c.(1315-1317)GAC>GAT	p.D439D	ADAM12_uc010qul.1_Silent_p.D390D|ADAM12_uc001ljm.2_Silent_p.D439D|ADAM12_uc001ljn.2_Silent_p.D436D|ADAM12_uc001ljl.3_Silent_p.D436D	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	439	Extracellular (Potential).|Disintegrin.				cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		GCTCCCCACAGTCACACTCCT	0.512													89	249	---	---	---	---	PASS	A	127760061	A	A	127760061	2	1	171	1	0	0	0	0	0	0	0	1	236	1020	36	3		3	ADAM12	10	127760061	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	10872642	127760061	7774686	107	61189										
RBMXL2	27288	broad.mit.edu	37	chr11	7111037	7111037	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ccgagactaccgcgaaccccGgggttttgccccctcgcccg	11	19	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr11:7111037G>A	uc001mfc.2	+	1	873	c.686G>A	c.(685-687)CGG>CAG	p.R229Q		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	229	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CGCGAACCCCGGGGTTTTGCC	0.701													11	33	---	---	---	---	PASS	A	7111037	A	A	7111037	3	1	171	1	0	0	0	0	1	0	0	0	13154	1116	39	1	688	1	RBMXL2	11	7111037	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08		7111037	127895479	108	61190										
OR5L2	26338	broad.mit.edu	37	chr11	55595392	55595392	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gaagatacactctgcagagaGcaggcacaaagctttctcca	9	11	2	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr11:55595392G>C	uc001nhy.1	+	1	698	c.698G>C	c.(697-699)AGC>ACC	p.S233T		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	233	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				TCTGCAGAGAGCAGGCACAAA	0.493										HNSCC(27;0.073)			7	226	---	---	---	---	PASS	C	55595392	C	C	55595392	3	2	171	1	0	0	0	0	1	0	0	0	11171	971	34	4	700	4	OR5L2	11	55595392	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	48484355	55595392	79411124	109	61191										
OR5J2	282775	broad.mit.edu	37	chr11	55944170	55944170	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tcatgctgaactaaaagctgTgctttttgtggtgttcctgg	11	7	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr11:55944170T>G	uc010rjb.1	+	1	77	c.77T>G	c.(76-78)GTG>GGG	p.V26G		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	26	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					CTAAAAGCTGTGCTTTTTGTG	0.388													91	245	---	---	---	---	PASS	G	55944170	G	G	55944170	3	3	171	1	0	0	0	0	1	0	0	0	11165	1696	59	5	79	5	OR5J2	11	55944170	Missense_Mutation	SNP	T	TCGA-66-2794-01A-01D-1267-08	348778	55944170	79062346	110	61192										
OR9G9	504191	broad.mit.edu	37	chr11	56468176	56468176	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gtcagttcttcttctctgcaGggctggcctatagtgagtgc	12	10	4	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr11:56468176G>A	uc010rjn.1	+	1	313	c.313G>A	c.(313-315)GGG>AGG	p.G105R		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTCTCTGCAGGGCTGGCCTA	0.527													19	214	---	---	---	---	PASS	A	56468176	A	A	56468176	3	1	171	1	0	0	0	0	1	0	0	0	11252	1000	35	3	315	3	OR9G9	11	56468176	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	524006	56468176	78538340	111	61193										
OR5B12	390191	broad.mit.edu	37	chr11	58207516	58207516	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	catccccaggttcccaaccaGagtgatgaggtagatgaaaa	10	10	0	5			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr11:58207516G>C	uc010rkh.1	-	1	109	c.109C>G	c.(109-111)CTG>GTG	p.L37V		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	37	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TTCCCAACCAGAGTGATGAGG	0.483													49	108	---	---	---	---	PASS	C	58207516	C	C	58207516	3	2	171	1	0	0	0	0	1	0	0	0	11148	933	33	2	839	2	OR5B12	11	58207516	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	1739340	58207516	76799000	112	61194										
EEF1G	1937	broad.mit.edu	37	chr11	62339045	62339045	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tgcatgatgcccaaggtgggGaacacccaggtactggctgg	15	10	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr11:62339045G>A	uc001ntm.1	-	4	491	c.345C>T	c.(343-345)TTC>TTT	p.F115F	EEF1G_uc010rlw.1_Silent_p.F165F|EEF1G_uc001ntn.1_5'UTR	NM_001404	NP_001395	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1	115	GST C-terminal.				response to virus	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						CCAAGGTGGGGAACACCCAGG	0.587													4	9	---	---	---	---	PASS	A	62339045	A	A	62339045	2	1	171	1	0	0	0	0	0	0	0	1	4928	1165	41	2		2	EEF1G	11	62339045	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	4131529	62339045	72667471	113	61195										
EEF1G	1937	broad.mit.edu	37	chr11	62340129	62340129	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	aatggaagtggggtggtgcgGagagcacgcggacctgagcc	19	8	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr11:62340129G>C	uc001ntm.1	-	2	244	c.98C>G	c.(97-99)TCC>TGC	p.S33C	EEF1G_uc010rlw.1_Missense_Mutation_p.S83C|EEF1G_uc001ntn.1_5'UTR	NM_001404	NP_001395	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1	33	GST N-terminal.				response to virus	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						GGGTGGTGCGGAGAGCACGCG	0.567													65	153	---	---	---	---	PASS	C	62340129	C	C	62340129	3	2	171	1	0	0	0	0	1	0	0	0	4928	1174	41	2	1251	2	EEF1G	11	62340129	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	1084	62340129	72666387	114	61196										
CABP2	51475	broad.mit.edu	37	chr11	67287587	67287587	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cgtctctgccagcagcttggGgcccatcagctccacgaagt	11	15	2	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr11:67287587G>T	uc001omc.1	-	5	526	c.424C>A	c.(424-426)CCC>ACC	p.P142T	CABP2_uc001omd.1_Missense_Mutation_p.P85T|CABP2_uc001ome.1_Missense_Mutation_p.P148T	NM_016366	NP_057450	Q9NPB3	CABP2_HUMAN	calcium binding protein 2 isoform 1	142	EF-hand 2.				signal transduction	Golgi apparatus|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1						AGCAGCTTGGGGCCCATCAGC	0.672													16	48	---	---	---	---	PASS	T	67287587	T	T	67287587	3	4	171	1	0	0	0	0	1	0	0	0	2532	1232	43	3	250	3	CABP2	11	67287587	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	4947458	67287587	67718929	115	61197										
GDPD4	220032	broad.mit.edu	37	chr11	76956540	76956540	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gaggtttcatattgtaaaatGgcctgagctagaaacaaata	9	5	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr11:76956540G>T	uc001oyf.2	-	11	1123	c.872C>A	c.(871-873)CCA>CAA	p.P291Q		NM_182833	NP_878253	Q6W3E5	GDPD4_HUMAN	glycerophosphodiester phosphodiesterase domain	291	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding			skin(1)	1						ATTGTAAAATGGCCTGAGCTA	0.378													25	69	---	---	---	---	PASS	T	76956540	T	T	76956540	3	4	171	1	0	0	0	0	1	0	0	0	6326	1348	47	3	714	3	GDPD4	11	76956540	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	9668953	76956540	58049976	116	61198										
ACSM4	341392	broad.mit.edu	37	chr12	7477188	7477188	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	agtagtccagatcaaatccgCggagaggtagatgaatgtca	12	7	2	4			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr12:7477188C>T	uc001qsx.1	+	11	1530	c.1530C>T	c.(1528-1530)CGC>CGT	p.R510R		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	510					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						ATCAAATCCGCGGAGAGGTAG	0.428													15	107	---	---	---	---	PASS	T	7477188	T	T	7477188	2	4	171	1	0	0	0	0	0	0	0	1	186	755	27	1		1	ACSM4	12	7477188	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08		7477188	126374707	117	61199										
AICDA	57379	broad.mit.edu	37	chr12	8758043	8758043	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gggtctaggtcccagtccgaGatgtagcggaggaagagcaa	16	8	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr12:8758043G>A	uc001qur.2	-	3	274	c.195C>T	c.(193-195)ATC>ATT	p.I65I	AICDA_uc001qup.1_Silent_p.I60I|AICDA_uc001quq.1_Silent_p.I60I|AICDA_uc009zgd.1_Intron	NM_020661	NP_065712	Q9GZX7	AICDA_HUMAN	activation-induced cytidine deaminase	65					B cell differentiation|DNA demethylation|mRNA processing|negative regulation of methylation-dependent chromatin silencing	cytoplasm	cytidine deaminase activity|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung SC(5;0.184)					CCCAGTCCGAGATGTAGCGGA	0.582									Immune_Deficiency_with_Hyper-IgM				23	159	---	---	---	---	PASS	A	8758043	A	A	8758043	2	1	171	1	0	0	0	0	0	0	0	1	422	932	33	2		2	AICDA	12	8758043	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	1280855	8758043	125093852	118	61200										
A2ML1	144568	broad.mit.edu	37	chr12	9000285	9000285	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	aggccagacagagagctgagCaaccgctctgtgagtaactg	13	10	1	4			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr12:9000285C>A	uc001quz.3	+	15	1922	c.1824C>A	c.(1822-1824)AGC>AGA	p.S608R	A2ML1_uc001qva.1_Missense_Mutation_p.S188R|A2ML1_uc010sgm.1_Missense_Mutation_p.S108R	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	452						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						GAGAGCTGAGCAACCGCTCTG	0.557													136	271	---	---	---	---	PASS	A	9000285	A	A	9000285	3	1	171	1	0	0	0	0	1	0	0	0	5	709	25	3	1882	3	A2ML1	12	9000285	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	242242	9000285	124851610	119	61201										
CSDA	8531	broad.mit.edu	37	chr12	10875467	10875467	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	accgagaacttttttctccgCgtcttcgctgccggcggcgg	12	14	2	1	rs148187553	by1000genomes	TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr12:10875467C>G	uc001qyt.2	-	1	487	c.244G>C	c.(244-246)GCG>CCG	p.A82P	CSDA_uc001qyu.2_Missense_Mutation_p.A82P	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	82					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					TTTTTCTCCGCGTCTTCGCTG	0.393													9	18	---	---	---	---	PASS	G	10875467	G	G	10875467	3	3	171	1	0	0	0	0	1	0	0	0	3927	768	27	4	910	4	CSDA	12	10875467	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	1875182	10875467	122976428	120	61202										
SLCO1B1	10599	broad.mit.edu	37	chr12	21349929	21349929	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cgatgggttggagcttggtgGcttaatttccttgtgtctgg	15	6	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr12:21349929G>A	uc001req.3	+	8	881	c.777G>A	c.(775-777)TGG>TGA	p.W259*		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	259	Helical; Name=6; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	GAGCTTGGTGGCTTAATTTCC	0.348													74	140	---	---	---	---	PASS	A	21349929	A	A	21349929	4	1	171	1	0	0	0	0	0	1	0	0	14723	1212	42	3	803	3	SLCO1B1	12	21349929	Nonsense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	10474462	21349929	112501966	121	61203										
FMNL3	91010	broad.mit.edu	37	chr12	50048058	50048058	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gtcctccaccgagtgcaccaCgatgttgatgaactgcatgc	10	13	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr12:50048058C>A	uc001ruv.1	-	11	1222	c.988G>T	c.(988-990)GTG>TTG	p.V330L	FMNL3_uc001ruw.1_Missense_Mutation_p.V279L|FMNL3_uc001rut.1_5'Flank|FMNL3_uc001ruu.1_Missense_Mutation_p.V180L	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1	330	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						GAGTGCACCACGATGTTGATG	0.577													37	59	---	---	---	---	PASS	A	50048058	A	A	50048058	3	1	171	1	0	0	0	0	1	0	0	0	5953	536	19	1	2159	1	FMNL3	12	50048058	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	28698129	50048058	83803837	122	61204										
FRS2	10818	broad.mit.edu	37	chr12	69968110	69968110	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	acgaagagatgcaccctctgTtaacaaactggtgtatgaaa	9	8	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr12:69968110T>C	uc001suy.2	+	10	1412	c.902T>C	c.(901-903)GTT>GCT	p.V301A	FRS2_uc001suz.2_Missense_Mutation_p.V301A|FRS2_uc009zrj.2_Missense_Mutation_p.V301A|FRS2_uc009zrk.2_Missense_Mutation_p.V301A	NM_006654	NP_006645	Q8WU20	FRS2_HUMAN	fibroblast growth factor receptor substrate 2	301					activation of MAPKK activity|activation of phospholipase C activity|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|transmembrane receptor protein tyrosine phosphatase signaling pathway	endomembrane system|endosome|integral to plasma membrane|membrane fraction	fibroblast growth factor receptor binding|insulin receptor binding|phosphatase activator activity|transmembrane receptor protein tyrosine kinase adaptor activity			prostate(1)|kidney(1)	2	Breast(13;2.15e-06)|Esophageal squamous(21;0.187)		Epithelial(6;2.94e-18)|Lung(24;9.68e-05)|OV - Ovarian serous cystadenocarcinoma(12;0.000984)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			GCACCCTCTGTTAACAAACTG	0.468													47	185	---	---	---	---	PASS	C	69968110	C	C	69968110	3	2	171	1	0	0	0	0	1	0	0	0	6061	1725	60	5	920	5	FRS2	12	69968110	Missense_Mutation	SNP	T	TCGA-66-2794-01A-01D-1267-08	19920052	69968110	63883785	123	61205										
KCNC2	3747	broad.mit.edu	37	chr12	75437012	75437012	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tgttgtttaagcttcgggatTtttcatatccttttatgaaa	7	5	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr12:75437012T>G	uc001sxg.1	-	5	2334	c.1790A>C	c.(1789-1791)AAA>ACA	p.K597T	KCNC2_uc009zry.2_Intron|KCNC2_uc001sxe.2_Intron|KCNC2_uc001sxf.2_Intron|KCNC2_uc010stw.1_Missense_Mutation_p.K542T	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	597	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						GCTTCGGGATTTTTCATATCC	0.428													26	70	---	---	---	---	PASS	G	75437012	G	G	75437012	3	3	171	1	0	0	0	0	1	0	0	0	8015	1841	64	5	196	5	KCNC2	12	75437012	Missense_Mutation	SNP	T	TCGA-66-2794-01A-01D-1267-08	5468902	75437012	58414883	124	61206										
RAD9B	144715	broad.mit.edu	37	chr12	110950672	110950672	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gtttgtactaatacgctaatGattcaaccaaggtaatgagt	8	6	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr12:110950672G>C	uc001trf.3	+	5	615	c.477G>C	c.(475-477)ATG>ATC	p.M159I	RAD9B_uc001trg.3_Missense_Mutation_p.M159I|RAD9B_uc010sya.1_Intron|RAD9B_uc001tre.3_Missense_Mutation_p.M87I|RAD9B_uc001trd.3_Missense_Mutation_p.M1I	NM_152442	NP_689655	Q6WBX8	RAD9B_HUMAN	RAD9 homolog B	156					cell cycle checkpoint|DNA repair|DNA replication	nucleoplasm	protein binding			pancreas(1)|skin(1)	2						ATACGCTAATGATTCAACCAA	0.333											OREG0022115	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	9	---	---	---	---	PASS	C	110950672	C	C	110950672	3	2	171	1	0	0	0	0	1	0	0	0	12996	1290	45	2	495	2	RAD9B	12	110950672	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	35513660	110950672	22901223	125	61207										
SRRM4	84530	broad.mit.edu	37	chr12	119419763	119419763	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ccttcaaagcggtggccaccCcccgtcccgagagcatcatt	9	17	2	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr12:119419763C>A	uc001txa.1	+	1	368	c.76C>A	c.(76-78)CCC>ACC	p.P26T		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	26					cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						GGTGGCCACCCCCCGTCCCGA	0.597													7	26	---	---	---	---	PASS	A	119419763	A	A	119419763	3	1	171	1	0	0	0	0	1	0	0	0	15170	623	22	3	78	3	SRRM4	12	119419763	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	8469091	119419763	14432132	126	61208										
TCTN2	79867	broad.mit.edu	37	chr12	124163771	124163771	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ttcctaaccaggtgtatcagCcccttggcccttgtccttgt	8	14	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr12:124163771C>T	uc001ufp.2	+	5	627	c.499C>T	c.(499-501)CCC>TCC	p.P167S	TCTN2_uc009zya.2_Missense_Mutation_p.P166S	NM_024809	NP_079085	Q96GX1	TECT2_HUMAN	tectonic family member 2 isoform 1	167	Extracellular (Potential).				cilium assembly|smoothened signaling pathway	integral to membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000163)|Epithelial(86;0.000502)|all cancers(50;0.00451)		GGTGTATCAGCCCCTTGGCCC	0.438													103	339	---	---	---	---	PASS	T	124163771	T	T	124163771	3	4	171	1	0	0	0	0	1	0	0	0	15720	739	26	3	517	3	TCTN2	12	124163771	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	4744008	124163771	9688124	127	61209										
DNAH10	196385	broad.mit.edu	37	chr12	124352116	124352116	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gaagacaagcagaaaagctgAagacaatagttcctcagaca	9	8	1	5			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr12:124352116A>T	uc001uft.3	+	41	6941	c.6916A>T	c.(6916-6918)AAG>TAG	p.K2306*		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2306					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)		AGAAAAGCTGAAGACAATAGT	0.398													31	31	---	---	---	---	PASS	T	124352116	T	T	124352116	4	4	171	1	0	0	0	0	0	1	0	0	4598	247	9	5	7078	5	DNAH10	12	124352116	Nonsense_Mutation	SNP	A	TCGA-66-2794-01A-01D-1267-08	188345	124352116	9499779	128	61210										
C13orf26	122046	broad.mit.edu	37	chr13	31543082	31543082	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cacaaagaaacagaccacatAccaaagtgactacgacaaaa	5	11	0	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr13:31543082A>G	uc001uti.2	+	6	726	c.707A>G	c.(706-708)TAC>TGC	p.Y236C		NM_152325	NP_689538	Q8N6G2	CM026_HUMAN	hypothetical protein LOC122046	236										ovary(2)|skin(1)	3		Lung SC(185;0.0281)		all cancers(112;0.0176)|Epithelial(112;0.0768)|OV - Ovarian serous cystadenocarcinoma(117;0.0852)		CAGACCACATACCAAAGTGAC	0.443													121	93	---	---	---	---	PASS	G	31543082	G	G	31543082	3	3	171	1	0	0	0	0	1	0	0	0	1722	391	14	5	729	5	C13orf26	13	31543082	Missense_Mutation	SNP	A	TCGA-66-2794-01A-01D-1267-08		31543082	83626796	129	61211										
ELF1	1997	broad.mit.edu	37	chr13	41507906	41507906	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	acattgctagtaaggacctgCtgaacctgggcagggcccaa	12	11	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr13:41507906C>A	uc001uxs.2	-	9	1888	c.1515G>T	c.(1513-1515)CAG>CAT	p.Q505H	ELF1_uc010tfc.1_Missense_Mutation_p.Q481H|ELF1_uc010acd.2_Missense_Mutation_p.Q398H	NM_172373	NP_758961	P32519	ELF1_HUMAN	E74-like factor 1 (ets domain transcription	505					positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung NSC(96;8.3e-05)|Prostate(109;0.0233)|Breast(139;0.0296)|Lung SC(185;0.0367)		all cancers(112;1.87e-08)|Epithelial(112;8.45e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000202)|GBM - Glioblastoma multiforme(144;0.00266)|BRCA - Breast invasive adenocarcinoma(63;0.072)		TAAGGACCTGCTGAACCTGGG	0.507													146	108	---	---	---	---	PASS	A	41507906	A	A	41507906	3	1	171	1	0	0	0	0	1	0	0	0	5053	796	28	3	348	3	ELF1	13	41507906	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	9964824	41507906	73661972	130	61212										
PCDH20	64881	broad.mit.edu	37	chr13	61988090	61988090	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tcccacgaagaggaaaaacaGaaacagatgctggagttggg	13	7	0	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr13:61988090G>C	uc001vid.3	-	2	506	c.142C>G	c.(142-144)CTG>GTG	p.L48V	PCDH20_uc010thj.1_Missense_Mutation_p.L48V	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	21					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		AGGAAAAACAGAAACAGATGC	0.577													12	44	---	---	---	---	PASS	C	61988090	C	C	61988090	3	2	171	1	0	0	0	0	1	0	0	0	11515	933	33	2	2717	2	PCDH20	13	61988090	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	20480184	61988090	53181788	131	61213										
DOCK9	23348	broad.mit.edu	37	chr13	99508182	99508182	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gaattgctcttctcactattCctttctggaaggctgttacc	7	11	3	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr13:99508182C>G	uc001vnt.2	-	34	3859	c.3804G>C	c.(3802-3804)AGG>AGC	p.R1268S	DOCK9_uc001vnw.2_Missense_Mutation_p.R1267S|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.R1268S|DOCK9_uc010tip.1_5'Flank|DOCK9_uc010tiq.1_Missense_Mutation_p.R246S|DOCK9_uc010afu.1_3'UTR	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1268					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TCTCACTATTCCTTTCTGGAA	0.398													6	274	---	---	---	---	PASS	G	99508182	G	G	99508182	3	3	171	1	0	0	0	0	1	0	0	0	4694	854	30	2	2493	2	DOCK9	13	99508182	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	37520092	99508182	15661696	132	61214										
SNRPN	6638	broad.mit.edu	37	chr15	25222054	25222054	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ctcgggtaccacttgctggaGctgctggaggccctggggtt	16	11	0	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr15:25222054G>A	uc001ywp.1	+	10	1188	c.298G>A	c.(298-300)GCT>ACT	p.A100T	SNRPN_uc001ywq.1_Missense_Mutation_p.A100T|SNRPN_uc001ywr.1_Missense_Mutation_p.A100T|SNRPN_uc001yws.1_Missense_Mutation_p.A100T|SNRPN_uc001ywt.1_Missense_Mutation_p.A100T|SNRPN_uc001ywv.1_Missense_Mutation_p.A103T|SNRPN_uc001yww.1_Missense_Mutation_p.A100T|SNRPN_uc001ywx.1_Missense_Mutation_p.A100T|SNRPN_uc001ywz.1_Intron|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	100					RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		ACTTGCTGGAGCTGCTGGAGG	0.517									Prader-Willi_syndrome				56	119	---	---	---	---	PASS	A	25222054	A	A	25222054	3	1	171	1	0	0	0	0	1	0	0	0	14870	971	34	3	312	3	SNRPN	15	25222054	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08		25222054	77309338	133	61215										
RPAP1	26015	broad.mit.edu	37	chr15	41817271	41817271	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gctcagcatctcagcttcctCtgggggcaaggccagttctt	11	13	4	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr15:41817271C>T	uc001zod.2	-	15	2117	c.1993G>A	c.(1993-1995)GAG>AAG	p.E665K	RPAP1_uc001zoc.2_5'Flank	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	665						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		TCAGCTTCCTCTGGGGGCAAG	0.617													42	51	---	---	---	---	PASS	T	41817271	T	T	41817271	3	4	171	1	0	0	0	0	1	0	0	0	13541	922	32	2	2232	2	RPAP1	15	41817271	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	16595217	41817271	60714121	134	61216										
GOLGA6A	342096	broad.mit.edu	37	chr15	74365125	74365125	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gcttagctgggtctctagctGttggttctggtggctggcag	16	8	2	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr15:74365125G>A	uc002axa.1	-	13	1500	c.1459C>T	c.(1459-1461)CAG>TAG	p.Q487*		NM_001038640	NP_001033729	Q9NYA3	GOG6A_HUMAN	golgi autoantigen, golgin subfamily a, 6	487	Potential.										0						GTCTCTAGCTGTTGGTTCTGG	0.612													42	230	---	---	---	---	PASS	A	74365125	A	A	74365125	4	1	171	1	0	0	0	0	0	1	0	0	6557	1386	48	3	646	3	GOLGA6A	15	74365125	Nonsense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	32547854	74365125	28166267	135	61217										
PDE8A	5151	broad.mit.edu	37	chr15	85619972	85619972	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gttattttgaagggtggataGagaagagttgtccgtaatgc	14	3	0	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr15:85619972G>C	uc002blh.2	+	5	689	c.500G>C	c.(499-501)AGA>ACA	p.R167T	PDE8A_uc002bli.2_Missense_Mutation_p.R167T|PDE8A_uc010bnc.2_5'UTR|PDE8A_uc010bnd.2_5'UTR|PDE8A_uc002blj.2_5'UTR|PDE8A_uc002blk.2_5'UTR	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	167					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			AGGGTGGATAGAGAAGAGTTG	0.289													15	156	---	---	---	---	PASS	C	85619972	C	C	85619972	3	2	171	1	0	0	0	0	1	0	0	0	11653	942	33	2	518	2	PDE8A	15	85619972	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	11254847	85619972	16911420	136	61218										
OR4F6	390648	broad.mit.edu	37	chr15	102346255	102346255	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	catgcagttgggggaactgaGatggtgctgctcatagccat	14	8	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr15:102346255G>C	uc010utr.1	+	1	333	c.333G>C	c.(331-333)GAG>GAC	p.E111D		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	111	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			GGGGAACTGAGATGGTGCTGC	0.458													20	507	---	---	---	---	PASS	C	102346255	C	C	102346255	3	2	171	1	0	0	0	0	1	0	0	0	11066	933	33	2	335	2	OR4F6	15	102346255	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	16726283	102346255	185137	137	61219										
CLCN7	1186	broad.mit.edu	37	chr16	1510444	1510444	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tgaaagccacaatcacagagCccacgagcacgaaggcggcg	12	13	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr16:1510444C>T	uc002clv.2	-	6	679	c.569G>A	c.(568-570)GGC>GAC	p.G190D	CLCN7_uc002clw.2_Missense_Mutation_p.G166D	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	190	Helical; (By similarity).					integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				AATCACAGAGCCCACGAGCAC	0.597													54	93	---	---	---	---	PASS	T	1510444	T	T	1510444	3	4	171	1	0	0	0	0	1	0	0	0	3468	739	26	3	1928	3	CLCN7	16	1510444	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08		1510444	88844309	138	61220										
PKD1	5310	broad.mit.edu	37	chr16	2153650	2153650	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cggggatggagaagtggcagCcaggccctggggcgccgcca	19	12	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr16:2153650C>A	uc002cos.1	-	23	8617	c.8408G>T	c.(8407-8409)GGC>GTC	p.G2803V	PKD1_uc002cot.1_Missense_Mutation_p.G2803V|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2803	Extracellular (Potential).|REJ.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GAAGTGGCAGCCAGGCCCTGG	0.667													36	75	---	---	---	---	PASS	A	2153650	A	A	2153650	3	1	171	1	0	0	0	0	1	0	0	0	11963	739	26	3	4599	3	PKD1	16	2153650	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	643206	2153650	88201103	139	61221										
GRIN2A	2903	broad.mit.edu	37	chr16	9892311	9892311	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tgcggcatcgtagatgaaagCgtccagcttcctgaaatgac	11	10	0	4			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr16:9892311C>T	uc002czo.3	-	11	2727	c.2179G>A	c.(2179-2181)GCT>ACT	p.A727T	GRIN2A_uc010uym.1_Missense_Mutation_p.A727T|GRIN2A_uc010uyn.1_Missense_Mutation_p.A570T|GRIN2A_uc002czr.3_Missense_Mutation_p.A727T	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	727	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TAGATGAAAGCGTCCAGCTTC	0.572													19	52	---	---	---	---	PASS	T	9892311	T	T	9892311	3	4	171	1	0	0	0	0	1	0	0	0	6779	768	27	1	2227	1	GRIN2A	16	9892311	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	7738661	9892311	80462442	140	61222										
SLC5A11	115584	broad.mit.edu	37	chr16	24895442	24895442	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cttataggagcgctcaccttGatgggctacagtaagtgggg	14	8	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr16:24895442G>C	uc002dmu.2	+	8	886	c.654G>C	c.(652-654)TTG>TTC	p.L218F	SLC5A11_uc002dms.2_Missense_Mutation_p.L154F|SLC5A11_uc010vcd.1_Missense_Mutation_p.L183F|SLC5A11_uc002dmt.2_Missense_Mutation_p.L154F|SLC5A11_uc010vce.1_Missense_Mutation_p.L148F|SLC5A11_uc010bxt.2_Missense_Mutation_p.L154F	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	218	Helical; (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		CGCTCACCTTGATGGGCTACA	0.592													117	301	---	---	---	---	PASS	C	24895442	C	C	24895442	3	2	171	1	0	0	0	0	1	0	0	0	14663	1281	45	2	680	2	SLC5A11	16	24895442	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	15003131	24895442	65459311	141	61223										
CLN3	1201	broad.mit.edu	37	chr16	28493970	28493970	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gaacactgtccacctttcccGaagggagaggctggagctgg	14	11	0	1	rs113041302		TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr16:28493970G>A	uc002dpo.2	-	10	1137	c.814C>T	c.(814-816)CGG>TGG	p.R272W	uc010vct.1_Intron|CLN3_uc002dpl.2_Missense_Mutation_p.R194W|CLN3_uc010vcu.1_Missense_Mutation_p.R172W|CLN3_uc002dpn.2_Missense_Mutation_p.R173W|CLN3_uc002dpm.2_Missense_Mutation_p.R218W|CLN3_uc010vcv.1_Missense_Mutation_p.R248W|CLN3_uc010byd.2_Missense_Mutation_p.R272W|CLN3_uc002dpp.2_Missense_Mutation_p.R272W|CLN3_uc002dpt.1_Missense_Mutation_p.R172W|CLN3_uc002dpq.1_Missense_Mutation_p.R224W|CLN3_uc010bye.1_Missense_Mutation_p.R272W|CLN3_uc002dpr.1_RNA|CLN3_uc010byf.1_RNA|CLN3_uc002dps.1_Missense_Mutation_p.R145W|CLN3_uc002dpu.1_Missense_Mutation_p.R170W|CLN3_uc002dpw.1_Missense_Mutation_p.R119W|CLN3_uc010vcw.1_Missense_Mutation_p.R218W|CLN3_uc002dqa.2_Missense_Mutation_p.R323W|CLN3_uc010vcx.1_Missense_Mutation_p.R172W|CLN3_uc002dpx.1_Missense_Mutation_p.R149W|CLN3_uc002dpy.1_Missense_Mutation_p.R116W	NM_000086	NP_000077	Q13286	CLN3_HUMAN	ceroid-lipofuscinosis, neuronal 3	272					amyloid precursor protein catabolic process|arginine transport|associative learning|autophagic vacuole fusion|cell death|cellular amino acid metabolic process|cytosolic calcium ion homeostasis|galactosylceramide metabolic process|globoside metabolic process|glucosylceramide metabolic process|ionotropic glutamate receptor signaling pathway|lysosomal lumen acidification|lysosomal lumen pH elevation|negative regulation of catalytic activity|negative regulation of macroautophagy|negative regulation of neuron apoptosis|negative regulation of proteolysis|neuromuscular process controlling balance|neurotransmitter metabolic process|protein catabolic process|protein folding|protein processing|receptor-mediated endocytosis|regulation of action potential|sphingomyelin metabolic process|vacuolar transport	autophagic vacuole|caveola|cytosol|early endosome|Golgi membrane|Golgi stack|integral to endoplasmic reticulum membrane|late endosome|lysosomal membrane|membrane fraction|mitochondrion|neuron projection|nucleus|synaptic vesicle|trans-Golgi network	unfolded protein binding				0						CACCTTTCCCGAAGGGAGAGG	0.562													55	96	---	---	---	---	PASS	A	28493970	A	A	28493970	3	1	171	1	0	0	0	0	1	0	0	0	3543	1057	37	2	526	2	CLN3	16	28493970	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	3598528	28493970	61860783	142	61224										
SRCAP	10847	broad.mit.edu	37	chr16	30748643	30748643	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gcagcaccaccacaccacccCgctgcagtcctgccagggag	10	19	0	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr16:30748643C>T	uc002dze.1	+	34	7667	c.7282C>T	c.(7282-7284)CGC>TGC	p.R2428C	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.R2223C	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2428	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CACACCACCCCGCTGCAGTCC	0.413													21	67	---	---	---	---	PASS	T	30748643	T	T	30748643	3	4	171	1	0	0	0	0	1	0	0	0	15134	652	23	1	7408	1	SRCAP	16	30748643	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	2254673	30748643	59606110	143	61225										
ZNF646	9726	broad.mit.edu	37	chr16	31089490	31089490	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	accacaatgtcacctcctagGgcctttgcctgccgagactg	9	15	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr16:31089490G>A	uc002eap.2	+	2	2134	c.1845G>A	c.(1843-1845)AGG>AGA	p.R615R		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	615					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						CACCTCCTAGGGCCTTTGCCT	0.547													28	53	---	---	---	---	PASS	A	31089490	A	A	31089490	2	1	171	1	0	0	0	0	0	0	0	1	18059	1223	43	3		3	ZNF646	16	31089490	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	340847	31089490	59265263	144	61226										
MMP2	4313	broad.mit.edu	37	chr16	55516925	55516925	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ttctttggactgccccagacAggtgatcttgaccagaatac	9	11	2	4			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr16:55516925A>C	uc002ehz.3	+	2	569	c.258A>C	c.(256-258)ACA>ACC	p.T86T	MMP2_uc010vhd.1_Silent_p.T10T|MMP2_uc010ccc.2_Silent_p.T36T	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	86					angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	TGCCCCAGACAGGTGATCTTG	0.537													64	171	---	---	---	---	PASS	C	55516925	C	C	55516925	2	2	171	1	0	0	0	0	0	0	0	1	9658	175	7	5		5	MMP2	16	55516925	Silent	SNP	A	TCGA-66-2794-01A-01D-1267-08	24427435	55516925	34837828	145	61227										
KATNB1	10300	broad.mit.edu	37	chr16	57787893	57787893	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gagaagtgagcccttccctgCacccccagaggacggtgagt	13	13	0	4			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr16:57787893C>A	uc002eml.1	+	13	1588	c.1214C>A	c.(1213-1215)GCA>GAA	p.A405E		NM_005886	NP_005877	Q9BVA0	KTNB1_HUMAN	katanin p80 subunit B 1	405	Interaction with PAFAH1B1 (By similarity).				cell division|mitosis|negative regulation of microtubule depolymerization|positive regulation of microtubule depolymerization|protein targeting	katanin complex|microtubule|spindle pole	microtubule binding|protein heterodimerization activity				0		all_neural(199;0.223)				CCCTTCCCTGCACCCCCAGAG	0.662													37	65	---	---	---	---	PASS	A	57787893	A	A	57787893	3	1	171	1	0	0	0	0	1	0	0	0	7987	710	25	3	1260	3	KATNB1	16	57787893	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	2270968	57787893	32566860	146	61228										
CHST6	4166	broad.mit.edu	37	chr16	75512862	75512862	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gagactgagcccagtgaaggCgtagagcgcacggatttctg	15	9	1	4			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr16:75512862C>T	uc002fef.2	-	3	1045	c.865G>A	c.(865-867)GCC>ACC	p.A289T	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Missense_Mutation_p.A289T	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	289	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						CCAGTGAAGGCGTAGAGCGCA	0.657													45	104	---	---	---	---	PASS	T	75512862	T	T	75512862	3	4	171	1	0	0	0	0	1	0	0	0	3408	768	27	1	326	1	CHST6	16	75512862	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	17724969	75512862	14841891	147	61229										
ZBTB4	57659	broad.mit.edu	37	chr17	7365286	7365286	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	acatcgcccttctgggttctCtcaacccctgccctttcccc	5	20	3	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:7365286C>T	uc002ghc.3	-	4	3265	c.3015G>A	c.(3013-3015)GAG>GAA	p.E1005E	ZBTB4_uc002ghd.3_Silent_p.E1005E	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	1005					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		TCTGGGTTCTCTCAACCCCTG	0.622													7	155	---	---	---	---	PASS	T	7365286	T	T	7365286	2	4	171	1	0	0	0	0	0	0	0	1	17538	912	32	2		2	ZBTB4	17	7365286	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08		7365286	73829924	148	61230										
TP53	7157	broad.mit.edu	37	chr17	7577105	7577105	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ctgtgcgccggtctctcccaGgacaggcacaaacacgcacc	10	17	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:7577105G>C	uc002gim.2	-	8	1027	c.833C>G	c.(832-834)CCT>CGT	p.P278R	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.P278R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.P146R|TP53_uc010cng.1_Missense_Mutation_p.P146R|TP53_uc002gii.1_Missense_Mutation_p.P146R|TP53_uc010cnh.1_Missense_Mutation_p.P278R|TP53_uc010cni.1_Missense_Mutation_p.P278R|TP53_uc002gij.2_Missense_Mutation_p.P278R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	278	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|P -> S (in LFS; germline mutation and in sporadic cancers; somatic mutation).|P -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|P -> H (in sporadic cancers; somatic mutation).|P -> R (in sporadic cancers; somatic mutation).|P -> T (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P278L(52)|p.P278S(48)|p.P278R(26)|p.P278T(21)|p.P278A(17)|p.P278H(11)|p.0?(7)|p.P278fs*67(5)|p.P278F(3)|p.P278fs*28(2)|p.?(2)|p.A276_R283delACPGRDRR(1)|p.A276fs*64(1)|p.V274_P278del(1)|p.P278P(1)|p.C277_P278insXXXXXXX(1)|p.F270_D281del12(1)|p.P278_G279insXXXXX(1)|p.C275_R283delCACPGRDRR(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.V272_K292del21(1)|p.C275fs*20(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)		GTCTCTCCCAGGACAGGCACA	0.552		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)			61	35	---	---	---	---	PASS	C	7577105	C	C	7577105	3	2	171	1	0	0	0	0	1	0	0	0	16378	1000	35	4	453	4	TP53	17	7577105	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	211819	7577105	73618105	149	61231										
NTN1	9423	broad.mit.edu	37	chr17	8926324	8926324	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	actcgcacaccgacatgcgcCcgctctcgggcggcctcatc	10	19	2	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:8926324C>T	uc002glw.3	+	2	741	c.634C>T	c.(634-636)CCG>TCG	p.P212S		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	212	Laminin N-terminal.				apoptosis|axon guidance		protein binding				0						CGACATGCGCCCGCTCTCGGG	0.697													6	23	---	---	---	---	PASS	T	8926324	T	T	8926324	3	4	171	1	0	0	0	0	1	0	0	0	10700	623	22	3	636	3	NTN1	17	8926324	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	1349219	8926324	72268886	150	61232										
TTC19	54902	broad.mit.edu	37	chr17	15928468	15928468	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	agatttctgaagaaatacaaGgagaaagacacccacaggta	9	7	1	5			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:15928468G>A	uc002gph.1	+	8	1195	c.1177G>A	c.(1177-1179)GGA>AGA	p.G393R	TTC19_uc010cox.1_RNA|TTC19_uc002gpk.3_Missense_Mutation_p.G35R|TTC19_uc002gpj.2_Missense_Mutation_p.G35R	NM_017775	NP_060245	Q6DKK2	TTC19_HUMAN	tetratricopeptide repeat domain 19	272					cell cycle|cytokinesis|mitochondrial respiratory chain complex III assembly	centrosome|midbody|mitochondrial inner membrane	protein binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		AGAAATACAAGGAGAAAGACA	0.448													3	65	---	---	---	---	PASS	A	15928468	A	A	15928468	3	1	171	1	0	0	0	0	1	0	0	0	16683	1001	35	3	1207	3	TTC19	17	15928468	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	7002144	15928468	65266742	151	61233										
ATAD5	79915	broad.mit.edu	37	chr17	29192760	29192760	+	Nonsense_Mutation	SNP	C	T	T													0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tgctttggacagaaaagtatCaacctcagactgccagtgaa							TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:29192760C>T	uc002hfs.1	+	11	3521	c.3175C>T	c.(3175-3177)CAA>TAA	p.Q1059*	ATAD5_uc002hft.1_Nonsense_Mutation_p.Q956*	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	1059					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				AGAAAAGTATCAACCTCAGAC	0.294													8	56	---	---	---	---	PASS	T	29192760	T	T	29192760	4	4	171	1	0	0	0	0	0	1	0	0	1076	827	29	2	3217	2	ATAD5	17	29192760	Nonsense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	13264292	29192760	52002450	152	61234	1068	3								
ATAD5	79915	broad.mit.edu	37	chr17	29192766	29192766	+	Nonsense_Mutation	SNP	C	T	T													0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ggacagaaaagtatcaacctCagactgccagtgaacttata							TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:29192766C>T	uc002hfs.1	+	11	3527	c.3181C>T	c.(3181-3183)CAG>TAG	p.Q1061*	ATAD5_uc002hft.1_Nonsense_Mutation_p.Q958*	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	1061					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				GTATCAACCTCAGACTGCCAG	0.299													7	57	---	---	---	---	PASS	T	29192766	T	T	29192766	4	4	171	1	0	0	0	0	0	1	0	0	1076	827	29	2	3223	2	ATAD5	17	29192766	Nonsense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	6	29192766	52002444	153	61235	1068	3								
ATAD5	79915	broad.mit.edu	37	chr17	29192774	29192774	+	Silent	SNP	C	T	T													0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	aagtatcaacctcagactgcCagtgaacttataggaaatga							TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:29192774C>T	uc002hfs.1	+	11	3535	c.3189C>T	c.(3187-3189)GCC>GCT	p.A1063A	ATAD5_uc002hft.1_Silent_p.A960A	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	1063					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				CTCAGACTGCCAGTGAACTTA	0.303													6	57	---	---	---	---	PASS	T	29192774	T	T	29192774	2	4	171	1	0	0	0	0	0	0	0	1	1076	581	21	3		3	ATAD5	17	29192774	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08	8	29192774	52002436	154	61236	1068	3								
LRRC46	90506	broad.mit.edu	37	chr17	45913745	45913745	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ttctcctggacctggacgggCagcctgtggtggagcgctgg	17	11	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:45913745C>A	uc002ima.2	+	7	755	c.499C>A	c.(499-501)CAG>AAG	p.Q167K	LRRC46_uc002imb.2_Missense_Mutation_p.Q120K	NM_033413	NP_219481	Q96FV0	LRC46_HUMAN	leucine rich repeat containing 46	167	LRRCT.									ovary(1)	1						CCTGGACGGGCAGCCTGTGGT	0.607													46	80	---	---	---	---	PASS	A	45913745	A	A	45913745	3	1	171	1	0	0	0	0	1	0	0	0	9003	711	25	3	525	3	LRRC46	17	45913745	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	16720971	45913745	35281465	155	61237										
MSI2	124540	broad.mit.edu	37	chr17	55693391	55693391	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cacctgggacaagaggccggGcccggggactgccttacacc	14	15	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:55693391G>A	uc002iuz.1	+	9	771	c.598G>A	c.(598-600)GCC>ACC	p.A200T	MSI2_uc010wnm.1_Missense_Mutation_p.A178T|MSI2_uc002iva.2_Missense_Mutation_p.A196T	NM_138962	NP_620412	Q96DH6	MSI2H_HUMAN	musashi 2 isoform a	200						cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)|pancreas(1)	2	Breast(9;1.78e-08)			GBM - Glioblastoma multiforme(1;0.0025)		AAGAGGCCGGGCCCGGGGACT	0.488			T	HOXA9	CML								83	253	---	---	---	---	PASS	A	55693391	A	A	55693391	3	1	171	1	0	0	0	0	1	0	0	0	9876	1203	42	3	682	3	MSI2	17	55693391	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	9779646	55693391	25501819	156	61238										
TMEM49	81671	broad.mit.edu	37	chr17	57816265	57816265	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	aggcttaggaattttgtcttCtgttgggcttggaacagggc	14	6	2	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:57816265C>G	uc002ixu.3	+	5	644	c.371C>G	c.(370-372)TCT>TGT	p.S124C	TMEM49_uc010wog.1_5'UTR|TMEM49_uc010woh.1_Missense_Mutation_p.S124C|TMEM49_uc010woi.1_Missense_Mutation_p.S27C|TMEM49_uc010woj.1_Intron	NM_030938	NP_112200	Q96GC9	VMP1_HUMAN	transmembrane protein 49	124	Helical; (Potential).				autophagy|cell adhesion	endoplasmic reticulum|ER-Golgi intermediate compartment membrane|integral to membrane|plasma membrane|vacuolar membrane					0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;1.15e-09)|all cancers(12;1.15e-08)			ATTTTGTCTTCTGTTGGGCTT	0.353													72	167	---	---	---	---	PASS	G	57816265	G	G	57816265	3	3	171	1	0	0	0	0	1	0	0	0	16170	913	32	2	385	2	TMEM49	17	57816265	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	2122874	57816265	23378945	157	61239										
CA4	762	broad.mit.edu	37	chr17	58233923	58233923	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ccttctctccctgctcagtgCcagtcaagtggggtggaaac	11	13	3	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:58233923C>G	uc002iym.3	+	3	209	c.115C>G	c.(115-117)CCA>GCA	p.P39A	CA4_uc010wou.1_RNA	NM_000717	NP_000708	P22748	CAH4_HUMAN	carbonic anhydrase IV precursor	39					bicarbonate transport|one-carbon metabolic process	anchored to external side of plasma membrane|apical plasma membrane|brush border membrane|ER-Golgi intermediate compartment|membrane fraction|perinuclear region of cytoplasm|rough endoplasmic reticulum|secretory granule membrane|trans-Golgi network|transport vesicle membrane	carbonate dehydratase activity|protein binding|zinc ion binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.83e-12)|all cancers(12;6.83e-11)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Topiramate(DB00273)|Trichlormethiazide(DB01021)	CTGCTCAGTGCCAGTCAAGTG	0.592													50	135	---	---	---	---	PASS	G	58233923	G	G	58233923	3	3	171	1	0	0	0	0	1	0	0	0	2518	739	26	4	125	4	CA4	17	58233923	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	417658	58233923	22961287	158	61240										
MARCH10	162333	broad.mit.edu	37	chr17	60865910	60865910	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tcttgcccccaaaactgatcGcgtttcttctcatttgggtc	7	13	3	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:60865910G>C	uc010ddr.2	-	3	379	c.141C>G	c.(139-141)CGC>CGG	p.R47R	MARCH10_uc002jag.3_Silent_p.R47R|MARCH10_uc010dds.2_Silent_p.R47R|MARCH10_uc002jah.2_Silent_p.R47R	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	47							ligase activity|zinc ion binding				0						AAAACTGATCGCGTTTCTTCT	0.443													58	121	---	---	---	---	PASS	C	60865910	C	C	60865910	2	2	171	1	0	0	0	0	0	0	0	1	9299	1074	38	4		4	MARCH10	17	60865910	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	2631987	60865910	20329300	159	61241										
TBCD	6904	broad.mit.edu	37	chr17	80887328	80887328	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ctgcccacctaccgctaccaCgtcctgctggggctagtcgt	10	17	0	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr17:80887328C>T	uc002kfz.2	+	32	3073	c.2943C>T	c.(2941-2943)CAC>CAT	p.H981H	TBCD_uc002kfy.1_Silent_p.H981H|TBCD_uc002kgb.1_Silent_p.H306H|TBCD_uc002kgc.2_Silent_p.H126H|TBCD_uc002kgd.2_Translation_Start_Site	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	981					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			ACCGCTACCACGTCCTGCTGG	0.672													16	50	---	---	---	---	PASS	T	80887328	T	T	80887328	2	4	171	1	0	0	0	0	0	0	0	1	15630	535	19	1		1	TBCD	17	80887328	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08	20021418	80887328	307882	160	61242										
SLC14A2	8170	broad.mit.edu	37	chr18	43219741	43219741	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ccatccctgttggggtcggcCaggtgtatggctgtgacaat	14	10	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr18:43219741C>G	uc010dnj.2	+	8	1195	c.874C>G	c.(874-876)CAG>GAG	p.Q292E	SLC14A2_uc002lbb.2_Missense_Mutation_p.Q292E|SLC14A2_uc002lbe.2_Missense_Mutation_p.Q292E	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	292						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						TGGGGTCGGCCAGGTGTATGG	0.527													157	209	---	---	---	---	PASS	G	43219741	G	G	43219741	3	3	171	1	0	0	0	0	1	0	0	0	14397	595	21	4	896	4	SLC14A2	18	43219741	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08		43219741	34857507	161	61243										
SMAD2	4087	broad.mit.edu	37	chr18	45371772	45371772	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ggtgcacattctagttagctGatagacggcttcaaaaccct	9	10	2	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr18:45371772G>C	uc002lcy.2	-	10	1467	c.1219C>G	c.(1219-1221)CAG>GAG	p.Q407E	SMAD2_uc002lcz.2_Missense_Mutation_p.Q407E|SMAD2_uc010xdc.1_Missense_Mutation_p.Q377E|SMAD2_uc010xdd.1_Missense_Mutation_p.Q377E	NM_005901	NP_005892	Q15796	SMAD2_HUMAN	Sma- and Mad-related protein 2 isoform 1	407	MH2.				anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			large_intestine(3)|lung(1)|central_nervous_system(1)	5						CTAGTTAGCTGATAGACGGCT	0.393													58	164	---	---	---	---	PASS	C	45371772	C	C	45371772	3	2	171	1	0	0	0	0	1	0	0	0	14758	1299	45	2	192	2	SMAD2	18	45371772	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	2152031	45371772	32705476	162	61244										
MEX3C	51320	broad.mit.edu	37	chr18	48703446	48703446	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ccacgcagagccaagagtgcCaccttcaaagcttacatcgg	9	14	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr18:48703446C>T	uc002lfc.3	-	2	1255	c.1255G>A	c.(1255-1257)GGC>AGC	p.G419S		NM_016626	NP_057710	Q5U5Q3	MEX3C_HUMAN	ring finger and KH domain containing 2	419						cytoplasm|nucleus	RNA binding|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		Colorectal(6;0.003)|all_epithelial(6;0.0473)		Colorectal(16;0.0175)|READ - Rectum adenocarcinoma(32;0.15)		CCAAGAGTGCCACCTTCAAAG	0.428													36	136	---	---	---	---	PASS	T	48703446	T	T	48703446	3	4	171	1	0	0	0	0	1	0	0	0	9511	594	21	3	728	3	MEX3C	18	48703446	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	3331674	48703446	29373802	163	61245										
GDF15	9518	broad.mit.edu	37	chr19	18497103	18497103	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cgccctgtctctggccgaggCgagccgcgcaagtttcccgg	14	16	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr19:18497103C>T	uc002niv.2	+	1	136	c.104C>T	c.(103-105)GCG>GTG	p.A35V	hsa-mir-3189|MI0014233_5'Flank	NM_004864	NP_004855	Q99988	GDF15_HUMAN	growth differentiation factor 15	35					cell-cell signaling|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			central_nervous_system(1)	1						CTGGCCGAGGCGAGCCGCGCA	0.637													17	46	---	---	---	---	PASS	T	18497103	T	T	18497103	3	4	171	1	0	0	0	0	1	0	0	0	6313	768	27	1	106	1	GDF15	19	18497103	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08		18497103	40631880	164	61246										
CEACAM20	125931	broad.mit.edu	37	chr19	45017314	45017314	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	atcccgatgacaataccagcGatggcccctgaggacaggga	12	12	0	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr19:45017314G>A	uc010ejn.1	-	7	1360	c.1344C>T	c.(1342-1344)ATC>ATT	p.I448I	CEACAM20_uc010ejo.1_Silent_p.I448I|CEACAM20_uc010ejp.1_Silent_p.I355I|CEACAM20_uc010ejq.1_Silent_p.I355I	NM_001102597	NP_001096067	Q6UY09	CEA20_HUMAN	carcinoembryonic antigen-related cell adhesion	448	Extracellular (Potential).					integral to membrane				large_intestine(2)	2		Prostate(69;0.0352)				CAATACCAGCGATGGCCCCTG	0.567											OREG0025538	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	32	---	---	---	---	PASS	A	45017314	A	A	45017314	2	1	171	1	0	0	0	0	0	0	0	1	3191	1048	37	2		2	CEACAM20	19	45017314	Silent	SNP	G	TCGA-66-2794-01A-01D-1267-08	26520211	45017314	14111669	165	61247										
RUVBL2	10856	broad.mit.edu	37	chr19	49507558	49507558	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cgcaaggcatggtgggtcagCtggcggcacggcgggcggct	20	11	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr19:49507558C>T	uc002plr.1	+	4	161	c.148C>T	c.(148-150)CTG>TTG	p.L50L	RUVBL2_uc002plq.1_Silent_p.L5L|RUVBL2_uc010yab.1_Silent_p.L50L|RUVBL2_uc002pls.1_RNA|RUVBL2_uc010emn.1_Silent_p.L5L|RUVBL2_uc010yac.1_Silent_p.L5L	NM_006666	NP_006657	Q9Y230	RUVB2_HUMAN	RuvB-like 2	50					cellular response to UV|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|protein folding|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|membrane|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|ATP-dependent DNA helicase activity|damaged DNA binding|identical protein binding|unfolded protein binding				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000449)|OV - Ovarian serous cystadenocarcinoma(262;0.000555)|GBM - Glioblastoma multiforme(486;0.00585)|Epithelial(262;0.047)		GGTGGGTCAGCTGGCGGCACG	0.632													5	71	---	---	---	---	PASS	T	49507558	T	T	49507558	2	4	171	1	0	0	0	0	0	0	0	1	13753	796	28	3		3	RUVBL2	19	49507558	Silent	SNP	C	TCGA-66-2794-01A-01D-1267-08	4490244	49507558	9621425	166	61248										
ZNF836	162962	broad.mit.edu	37	chr19	52659421	52659421	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	aatgagccctgtttaaaggcTttaccacatttatcacattt	5	9	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr19:52659421T>A	uc010ydi.1	-	5	1889	c.1515A>T	c.(1513-1515)AAA>AAT	p.K505N	ZNF836_uc010ydj.1_Missense_Mutation_p.K505N	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	505	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTTAAAGGCTTTACCACATT	0.403													6	60	---	---	---	---	PASS	A	52659421	A	A	52659421	3	1	171	1	0	0	0	0	1	0	0	0	18184	1606	56	5	1297	5	ZNF836	19	52659421	Missense_Mutation	SNP	T	TCGA-66-2794-01A-01D-1267-08	3151863	52659421	6469562	167	61249										
ZNF468	90333	broad.mit.edu	37	chr19	53345176	53345176	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	catgcctttgatcatgttggCctgtactaccagccaactct	7	13	2	1	rs61732713	byFrequency	TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr19:53345176C>A	uc002qaf.2	-	4	522	c.371G>T	c.(370-372)GGC>GTC	p.G124V	ZNF468_uc002qae.2_Missense_Mutation_p.G71V	NM_001008801	NP_001008801	Q5VIY5	ZN468_HUMAN	zinc finger protein ZNF468 isoform 2	124					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0358)		ATCATGTTGGCCTGTACTACC	0.433													149	194	---	---	---	---	PASS	A	53345176	A	A	53345176	3	1	171	1	0	0	0	0	1	0	0	0	17925	739	26	3	1201	3	ZNF468	19	53345176	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	685755	53345176	5783807	168	61250										
SIGLEC1	6614	broad.mit.edu	37	chr20	3677923	3677923	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cagcagcttcccggctcacgTtgcaagtcaagttggcttct	10	13	3	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr20:3677923T>A	uc002wja.2	-	9	2189	c.2189A>T	c.(2188-2190)AAC>ATC	p.N730I	SIGLEC1_uc002wiz.3_Missense_Mutation_p.N730I	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	730	Ig-like C2-type 7.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						CCGGCTCACGTTGCAAGTCAA	0.617													45	91	---	---	---	---	PASS	A	3677923	A	A	3677923	3	1	171	1	0	0	0	0	1	0	0	0	14305	1725	60	5	2992	5	SIGLEC1	20	3677923	Missense_Mutation	SNP	T	TCGA-66-2794-01A-01D-1267-08		3677923	59347597	169	61251										
C20orf29	55317	broad.mit.edu	37	chr20	3804819	3804819	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tggcgcccagcaccagccttCtgctgcgggctgaccgcatt	12	16	1	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr20:3804819C>G	uc002wjs.1	+	3	656	c.478C>G	c.(478-480)CTG>GTG	p.L160V	C20orf29_uc002wjt.2_Missense_Mutation_p.L84V|C20orf29_uc002wju.1_Missense_Mutation_p.L160V	NM_018347	NP_060817	Q9NUS5	CT029_HUMAN	hypothetical protein LOC55317	160					double-strand break repair via homologous recombination		protein binding			skin(1)	1						CACCAGCCTTCTGCTGCGGGC	0.632													39	53	---	---	---	---	PASS	G	3804819	G	G	3804819	3	3	171	1	0	0	0	0	1	0	0	0	2108	912	32	2	484	2	C20orf29	20	3804819	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	126896	3804819	59220701	170	61252										
EDEM2	55741	broad.mit.edu	37	chr20	33703374	33703374	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tggttttctggtgagaagagTgttcctggccttgctggagg	16	6	1	2			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr20:33703374T>A	uc002xbo.2	-	11	1699	c.1599A>T	c.(1597-1599)ACA>ACT	p.T533T	EDEM2_uc010zus.1_Silent_p.T312T|EDEM2_uc002xbq.2_Silent_p.T496T|EDEM2_uc010zut.1_Silent_p.T492T|EDEM2_uc002xbp.2_Silent_p.T381T|EDEM2_uc002xbn.2_Silent_p.T381T|EDEM2_uc002xbr.2_RNA|EDEM2_uc010zuu.1_Silent_p.T257T	NM_018217	NP_060687	Q9BV94	EDEM2_HUMAN	ER degradation enhancer, mannosidase alpha-like	533					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00936)			GTGAGAAGAGTGTTCCTGGCC	0.522													252	521	---	---	---	---	PASS	A	33703374	A	A	33703374	2	1	171	1	0	0	0	0	0	0	0	1	4912	1683	59	5		5	EDEM2	20	33703374	Silent	SNP	T	TCGA-66-2794-01A-01D-1267-08	29898555	33703374	29322146	171	61253										
C20orf117	140710	broad.mit.edu	37	chr20	35443741	35443741	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	cttggtgtccctggggccctCgctgttgtcgggggcctcat	15	13	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr20:35443741C>T	uc002xgd.1	-	5	1717	c.1390G>A	c.(1390-1392)GAG>AAG	p.E464K	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	464											0		Myeloproliferative disorder(115;0.00874)				CTGGGGCCCTCGCTGTTGTCG	0.632													20	46	---	---	---	---	PASS	T	35443741	T	T	35443741	3	4	171	1	0	0	0	0	1	0	0	0	2083	893	31	2	2987	2	C20orf117	20	35443741	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	1740367	35443741	27581779	172	61254										
C20orf117	140710	broad.mit.edu	37	chr20	35444170	35444170	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gagcacagaacaactgtcctCcgacagcgccacgtccagct	9	16	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr20:35444170C>T	uc002xgd.1	-	5	1288	c.961G>A	c.(961-963)GAG>AAG	p.E321K	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	321											0		Myeloproliferative disorder(115;0.00874)				CAACTGTCCTCCGACAGCGCC	0.637													7	7	---	---	---	---	PASS	T	35444170	T	T	35444170	3	4	171	1	0	0	0	0	1	0	0	0	2083	864	30	2	3416	2	C20orf117	20	35444170	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	429	35444170	27581350	173	61255										
KIAA1755	85449	broad.mit.edu	37	chr20	36845707	36845707	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tctcgaggtccgtgcgttgcCgctcggccgccatgtaaaag	13	13	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr20:36845707C>T	uc002xhy.1	-	13	3121	c.2849G>A	c.(2848-2850)CGG>CAG	p.R950Q	KIAA1755_uc002xhv.1_5'UTR|KIAA1755_uc002xhw.1_Missense_Mutation_p.R5Q|KIAA1755_uc002xhx.1_Missense_Mutation_p.R228Q	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	950										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				CGTGCGTTGCCGCTCGGCCGC	0.667													10	10	---	---	---	---	PASS	T	36845707	T	T	36845707	3	4	171	1	0	0	0	0	1	0	0	0	8257	652	23	1	761	1	KIAA1755	20	36845707	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	1401537	36845707	26179813	174	61256										
PPP1R16B	26051	broad.mit.edu	37	chr20	37535686	37535686	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tgcaaggacatccatggatgAgatgccaataggtaagtcca	11	8	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chr20:37535686A>G	uc002xje.2	+	8	1076	c.887A>G	c.(886-888)GAG>GGG	p.E296G	PPP1R16B_uc010ggc.2_Missense_Mutation_p.E254G	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	296					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				TCCATGGATGAGATGCCAATA	0.458													46	134	---	---	---	---	PASS	G	37535686	G	G	37535686	3	3	171	1	0	0	0	0	1	0	0	0	12366	304	11	5	913	5	PPP1R16B	20	37535686	Missense_Mutation	SNP	A	TCGA-66-2794-01A-01D-1267-08	689979	37535686	25489834	175	61257										
TLR7	51284	broad.mit.edu	37	chrX	12904872	12904872	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	ataaaaattgctaacctcagCatgtttaaacaatttaaaag	4	6	1	0			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chrX:12904872C>A	uc004cvc.2	+	3	1384	c.1245C>A	c.(1243-1245)AGC>AGA	p.S415R		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	415	Extracellular (Potential).|LRR 14.				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	CTAACCTCAGCATGTTTAAAC	0.328													31	34	---	---	---	---	PASS	A	12904872	A	A	12904872	3	1	171	1	0	0	0	0	1	0	0	0	15953	709	25	3	1251	3	TLR7	23	12904872	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08		12904872	142365688	176	61258										
MAGEB1	4112	broad.mit.edu	37	chrX	30268617	30268617	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	tgaccacagccatcatgcctCggggtcagaagagtaagctc	11	12	2	3			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chrX:30268617C>T	uc004dcc.2	+	4	327	c.7C>T	c.(7-9)CGG>TGG	p.R3W	MAGEB1_uc004dcd.2_Missense_Mutation_p.R3W|MAGEB1_uc004dce.2_Missense_Mutation_p.R3W	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	3											0						CATCATGCCTCGGGGTCAGAA	0.557													16	4	---	---	---	---	PASS	T	30268617	T	T	30268617	3	4	171	1	0	0	0	0	1	0	0	0	9172	875	31	2	9	2	MAGEB1	23	30268617	Missense_Mutation	SNP	C	TCGA-66-2794-01A-01D-1267-08	17363745	30268617	125001943	177	61259										
ZCCHC12	170261	broad.mit.edu	37	chrX	117960244	117960244	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.215909090909091	38	5.60274206906256e-08	2.65675153966357	4.70644046821018	1.52111307925261	0.0407960537129673	0.253371441419597	24	gaagcgaaaacacacaatccGctgttcgtattgtggtgagg	12	8	0	1			TCGA-66-2794-01A-01D-1267-08	TCGA-66-2794-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c58fa70-8fef-4a49-8cde-bfdc92e77919	2ffffd37-a4a8-43cc-8c62-86bcdcd3e3f0	g.chrX:117960244G>T	uc004equ.2	+	4	1510	c.1037G>T	c.(1036-1038)CGC>CTC	p.R346L		NM_173798	NP_776159	Q6PEW1	ZCH12_HUMAN	zinc finger, CCHC domain containing 12	346	CCHC-type.				regulation of transcription, DNA-dependent|transcription, DNA-dependent		nucleic acid binding|zinc ion binding			ovary(1)	1						CACACAATCCGCTGTTCGTAT	0.493													93	51	---	---	---	---	PASS	T	117960244	T	T	117960244	3	4	171	1	0	0	0	0	1	0	0	0	17578	1087	38	1	1039	1	ZCCHC12	23	117960244	Missense_Mutation	SNP	G	TCGA-66-2794-01A-01D-1267-08	87691627	117960244	37310316	178	61260										
SPEN	23013	broad.mit.edu	37	chr1	16257904	16257904	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gcgggtgttgaggaaggttcAtcaggtgaccagccgcctta	15	9	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:16257904A>T	uc001axk.1	+	11	5373	c.5169A>T	c.(5167-5169)TCA>TCT	p.S1723S	SPEN_uc010obp.1_Silent_p.S1682S	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1723					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AGGAAGGTTCATCAGGTGACC	0.592													62	59	---	---	---	---	PASS	T	16257904	T	T	16257904	2	4	172	1	0	0	0	0	0	0	0	1	15037	204	8	5		5	SPEN	1	16257904	Silent	SNP	A	TCGA-66-2795-01A-02D-0983-08		16257904	232992717	1	61261										
KLHDC7A	127707	broad.mit.edu	37	chr1	18808281	18808281	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctcatccatagcccgcgtccGaatggaggagcatttcatac	9	13	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:18808281G>A	uc001bax.2	+	1	858	c.806G>A	c.(805-807)CGA>CAA	p.R269Q	KLHDC7A_uc009vpg.2_Missense_Mutation_p.R51Q	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	269						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GCCCGCGTCCGAATGGAGGAG	0.592													17	32	---	---	---	---	PASS	A	18808281	A	A	18808281	3	1	172	1	0	0	0	0	1	0	0	0	8360	1058	37	2	808	2	KLHDC7A	1	18808281	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2550377	18808281	230442340	2	61262										
GRIK3	2899	broad.mit.edu	37	chr1	37337887	37337887	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gagcaaggggcgcgagtcgtCagagtcgatggggagctgac	19	8	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:37337887C>G	uc001caz.2	-	4	769	c.634G>C	c.(634-636)GAC>CAC	p.D212H	GRIK3_uc001cba.1_Missense_Mutation_p.D212H	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	212	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	CGCGAGTCGTCAGAGTCGATG	0.592													5	16	---	---	---	---	PASS	G	37337887	G	G	37337887	3	3	172	1	0	0	0	0	1	0	0	0	6775	826	29	2	2177	2	GRIK3	1	37337887	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	18529606	37337887	211912734	3	61263										
LRRIQ3	127255	broad.mit.edu	37	chr1	74507460	74507460	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggctttggatgagtagtataGattggctgaggatatgcagg	16	3	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:74507460G>T	uc001dfy.3	-	7	1347	c.1155C>A	c.(1153-1155)ATC>ATA	p.I385I	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	385										ovary(2)	2						GAGTAGTATAGATTGGCTGAG	0.363													17	16	---	---	---	---	PASS	T	74507460	T	T	74507460	2	4	172	1	0	0	0	0	0	0	0	1	9030	932	33	2		2	LRRIQ3	1	74507460	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	37169573	74507460	174743161	4	61264										
USP33	23032	broad.mit.edu	37	chr1	78207351	78207351	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttatttcaccaactgaatccAaatgtggacaatgatttcga	6	8	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:78207351A>C	uc001dht.2	-	3	472	c.125T>G	c.(124-126)TTG>TGG	p.L42W	USP33_uc001dhu.2_Missense_Mutation_p.L11W|USP33_uc001dhv.2_5'Flank|USP33_uc001dhw.2_Missense_Mutation_p.L42W	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	42					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						AACTGAATCCAAATGTGGACA	0.313													10	10	---	---	---	---	PASS	C	78207351	C	C	78207351	3	2	172	1	0	0	0	0	1	0	0	0	17061	131	5	5	2807	5	USP33	1	78207351	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	3699891	78207351	171043270	5	61265										
WDR63	126820	broad.mit.edu	37	chr1	85592285	85592285	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cggagttttctacatcggccGagaagatggatacattgata	11	7	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:85592285G>T	uc001dkt.2	+	20	2395	c.2204G>T	c.(2203-2205)CGA>CTA	p.R735L	WDR63_uc009wcl.2_Missense_Mutation_p.R696L	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	735	WD 4.									upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		TACATCGGCCGAGAAGATGGA	0.488													4	29	---	---	---	---	PASS	T	85592285	T	T	85592285	3	4	172	1	0	0	0	0	1	0	0	0	17311	1058	37	2	2278	2	WDR63	1	85592285	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	7384934	85592285	163658336	6	61266										
HFM1	164045	broad.mit.edu	37	chr1	91740343	91740343	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccaaactctttaaggtccacActttgagatttattcatctg	5	10	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:91740343A>G	uc001doa.3	-	33	3712	c.3612T>C	c.(3610-3612)AGT>AGC	p.S1204S	HFM1_uc009wdb.2_RNA|HFM1_uc010osu.1_Silent_p.S883S|HFM1_uc001dob.3_Silent_p.S392S|HFM1_uc010osv.1_Silent_p.S888S	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	1204							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		TAAGGTCCACACTTTGAGATT	0.284													17	9	---	---	---	---	PASS	G	91740343	G	G	91740343	2	3	172	1	0	0	0	0	0	0	0	1	7083	156	6	5		5	HFM1	1	91740343	Silent	SNP	A	TCGA-66-2795-01A-02D-0983-08	6148058	91740343	157510278	7	61267										
AMY2B	280	broad.mit.edu	37	chr1	104116374	104116374	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cttcttgatcttgcactggaGaaagattatgtgcgttccaa	9	8	2	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:104116374G>T	uc001duq.2	+	6	1174	c.558G>T	c.(556-558)GAG>GAT	p.E186D	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.E186D|AMY2B_uc001dus.1_5'Flank	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	186					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		TTGCACTGGAGAAAGATTATG	0.403													83	103	---	---	---	---	PASS	T	104116374	T	T	104116374	3	4	172	1	0	0	0	0	1	0	0	0	595	933	33	2	572	2	AMY2B	1	104116374	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	12376031	104116374	145134247	8	61268										
KCND3	3752	broad.mit.edu	37	chr1	112525141	112525141	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gttgaagaagaactccttctCcgtgctgcccagcagggtgt	12	11	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:112525141C>A	uc001ebu.1	-	2	688	c.208G>T	c.(208-210)GAG>TAG	p.E70*	KCND3_uc001ebv.1_Nonsense_Mutation_p.E70*	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	70	Cytoplasmic (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		AACTCCTTCTCCGTGCTGCCC	0.617													10	17	---	---	---	---	PASS	A	112525141	A	A	112525141	4	1	172	1	0	0	0	0	0	1	0	0	8020	864	30	2	1787	2	KCND3	1	112525141	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	8408767	112525141	136725480	9	61269										
PDE4DIP	9659	broad.mit.edu	37	chr1	144882681	144882681	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgaggaggttgatgatattgTgggcattcttcagttttccc	12	6	2	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:144882681T>A	uc001elw.3	-	24	3629	c.3338A>T	c.(3337-3339)CAC>CTC	p.H1113L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Intron|PDE4DIP_uc001elv.3_Missense_Mutation_p.H120L	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1113	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GATGATATTGTGGGCATTCTT	0.478			T	PDGFRB	MPD								51	187	---	---	---	---	PASS	A	144882681	A	A	144882681	3	1	172	1	0	0	0	0	1	0	0	0	11643	1696	59	5	3786	5	PDE4DIP	1	144882681	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	32357540	144882681	104367940	10	61270										
RPTN	126638	broad.mit.edu	37	chr1	152128280	152128280	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agtgggaactctggccttgtCtgtctgtctgaccgtagtga	13	9	4	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:152128280C>T	uc001ezs.1	-	3	1360	c.1295G>A	c.(1294-1296)AGA>AAA	p.R432K		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	432	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						CTGGCCTTGTCTGTCTGTCTG	0.527													163	714	---	---	---	---	PASS	T	152128280	T	T	152128280	3	4	172	1	0	0	0	0	1	0	0	0	13664	913	32	2	1063	2	RPTN	1	152128280	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	7245599	152128280	97122341	11	61271										
NUP210L	91181	broad.mit.edu	37	chr1	154112355	154112355	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agacactaaaatcacatctcCttgtttctcctctttttcca	2	13	4	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:154112355C>A	uc001fdw.2	-	5	712	c.640G>T	c.(640-642)GGA>TGA	p.G214*	NUP210L_uc010peh.1_Nonsense_Mutation_p.G214*	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	214						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			ATCACATCTCCTTGTTTCTCC	0.343													9	556	---	---	---	---	PASS	A	154112355	A	A	154112355	4	1	172	1	0	0	0	0	0	1	0	0	10761	690	24	3	5170	3	NUP210L	1	154112355	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1984075	154112355	95138266	12	61272										
ATP8B2	57198	broad.mit.edu	37	chr1	154321553	154321553	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggaagaagagtgacagtgccAgtagccccagtggcggtgcc	16	10	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:154321553A>T	uc001fex.2	+	28	3631	c.3631A>T	c.(3631-3633)AGT>TGT	p.S1211C		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	1197	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TGACAGTGCCAGTAGCCCCAG	0.637													17	20	---	---	---	---	PASS	T	154321553	T	T	154321553	3	4	172	1	0	0	0	0	1	0	0	0	1195	188	7	5	3871	5	ATP8B2	1	154321553	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	209198	154321553	94929068	13	61273										
OR10R2	343406	broad.mit.edu	37	chr1	158450386	158450386	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tatctgtgtttcttatctctGcattctgaggactatcctga	7	9	4	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:158450386G>C	uc010pik.1	+	1	719	c.719G>C	c.(718-720)TGC>TCC	p.C240S	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	240	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					TCTTATCTCTGCATTCTGAGG	0.438													49	109	---	---	---	---	PASS	C	158450386	C	C	158450386	3	2	172	1	0	0	0	0	1	0	0	0	10917	1319	46	4	721	4	OR10R2	1	158450386	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	4128833	158450386	90800235	14	61274										
SPTA1	6708	broad.mit.edu	37	chr1	158622411	158622411	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gttgcaatagacgacgtctgCgttcttctgcccgatccaag	10	12	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:158622411C>T	uc001fst.1	-	23	3420	c.3221G>A	c.(3220-3222)CGC>CAC	p.R1074H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1074					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)					ACGACGTCTGCGTTCTTCTGC	0.438													47	61	---	---	---	---	PASS	T	158622411	T	T	158622411	3	4	172	1	0	0	0	0	1	0	0	0	15115	768	27	1	4158	1	SPTA1	1	158622411	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	172025	158622411	90628210	15	61275										
PPOX	5498	broad.mit.edu	37	chr1	161140943	161140943	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gccaggcagcagtcagtgtcCtgggcacagaacctaacagc	12	13	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:161140943C>A	uc001fyj.2	+	13	1701	c.1411C>A	c.(1411-1413)CTG>ATG	p.L471M	PPOX_uc001fyn.2_Missense_Mutation_p.L179M|PPOX_uc001fyg.2_Missense_Mutation_p.L471M|PPOX_uc001fyl.2_Missense_Mutation_p.L437M|PPOX_uc001fym.2_RNA|PPOX_uc001fyk.2_Missense_Mutation_p.L309M|PPOX_uc001fyh.2_Missense_Mutation_p.L309M|PPOX_uc010pkg.1_Missense_Mutation_p.L309M|PPOX_uc009wuc.1_Missense_Mutation_p.L272M|PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_Intron	NM_001122764	NP_001116236	P50336	PPOX_HUMAN	protoporphyrinogen oxidase	471					heme biosynthetic process	intrinsic to mitochondrial inner membrane|mitochondrial intermembrane space	flavin adenine dinucleotide binding|oxygen-dependent protoporphyrinogen oxidase activity			ovary(1)	1	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			AGTCAGTGTCCTGGGCACAGA	0.507									Porphyria_Variegata				7	261	---	---	---	---	PASS	A	161140943	A	A	161140943	3	1	172	1	0	0	0	0	1	0	0	0	12348	680	24	3	1457	3	PPOX	1	161140943	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	2518532	161140943	88109678	16	61276										
FCGR2C	9103	broad.mit.edu	37	chr1	161559371	161559371	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gcagctcccccaaaggctgtGctgaaactcgagccctagtg	11	14	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:161559371G>T	uc001gav.2	+	3	252	c.153G>T	c.(151-153)GTG>GTT	p.V51V	FCGR2C_uc009wuj.2_RNA|FCGR2C_uc009wuk.2_RNA	NM_201563	NP_963857			Fc fragment of IgG, low affinity IIc, receptor												0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			CAAAGGCTGTGCTGAAACTCG	0.572													38	57	---	---	---	---	PASS	T	161559371	T	T	161559371	2	4	172	1	0	0	0	0	0	0	0	1	5783	1306	46	3		3	FCGR2C	1	161559371	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	418428	161559371	87691250	17	61277										
ALDH9A1	223	broad.mit.edu	37	chr1	165636578	165636578	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccagctgctagtccaaaagtGgtatcattggctctttctag	9	10	3	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:165636578G>T	uc001gdh.1	-	9	1422	c.1317C>A	c.(1315-1317)ACC>ACA	p.T439T	ALDH9A1_uc010pky.1_Silent_p.T345T|ALDH9A1_uc010pkz.1_Silent_p.T429T	NM_000696	NP_000687	P49189	AL9A1_HUMAN	aldehyde dehydrogenase 9A1	415					carnitine biosynthetic process|cellular aldehyde metabolic process|hormone metabolic process|neurotransmitter biosynthetic process	cytosol|plasma membrane	3-chloroallyl aldehyde dehydrogenase activity|4-trimethylammoniobutyraldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aminobutyraldehyde dehydrogenase activity				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				NADH(DB00157)	GTCCAAAAGTGGTATCATTGG	0.458													5	89	---	---	---	---	PASS	T	165636578	T	T	165636578	2	4	172	1	0	0	0	0	0	0	0	1	506	1335	47	3		3	ALDH9A1	1	165636578	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	4077207	165636578	83614043	18	61278										
SELP	6403	broad.mit.edu	37	chr1	169563946	169563946	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtaccttggcaggttggcacGgtagttgaccagtggccatt	14	9	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:169563946G>A	uc001ggi.3	-	13	2336	c.2271C>T	c.(2269-2271)ACC>ACT	p.T757T	SELP_uc001ggh.2_Silent_p.T592T|SELP_uc009wvr.2_Silent_p.T757T	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	757	Extracellular (Potential).|Sushi 9.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	AGGTTGGCACGGTAGTTGACC	0.428													23	33	---	---	---	---	PASS	A	169563946	A	A	169563946	2	1	172	1	0	0	0	0	0	0	0	1	14019	1103	39	1		1	SELP	1	169563946	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	3927368	169563946	79686675	19	61279										
SELE	6401	broad.mit.edu	37	chr1	169698355	169698355	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	actgggatttgctgtgtccaCtgcccttgagtggtgcattc	12	10	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:169698355C>T	uc001ggm.3	-	7	1219	c.1062G>A	c.(1060-1062)CAG>CAA	p.Q354Q	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	354	Extracellular (Potential).|Sushi 3.				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					GCTGTGTCCACTGCCCTTGAG	0.448													22	35	---	---	---	---	PASS	T	169698355	T	T	169698355	2	4	172	1	0	0	0	0	0	0	0	1	14013	564	20	3		3	SELE	1	169698355	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	134409	169698355	79552266	20	61280										
C1orf156	92342	broad.mit.edu	37	chr1	169762072	169762072	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttatatagttgtgttactttTggtttcctgcatcttttcac	6	7	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:169762072T>C	uc001ggn.2	-	2	1043	c.765A>G	c.(763-765)CCA>CCG	p.P255P	C1orf112_uc001ggj.2_Intron|C1orf112_uc001ggo.2_5'Flank|uc010plt.1_5'Flank|C1orf112_uc001ggp.2_5'Flank|C1orf112_uc001ggq.2_5'Flank|C1orf112_uc009wvt.2_5'Flank	NM_033418	NP_219486	O95568	MET18_HUMAN	hypothetical protein MGC9084	255						cytoplasm	protein methyltransferase activity				0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GTGTTACTTTTGGTTTCCTGC	0.333													39	69	---	---	---	---	PASS	C	169762072	C	C	169762072	2	2	172	1	0	0	0	0	0	0	0	1	2006	1799	63	5		5	C1orf156	1	169762072	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08	63717	169762072	79488549	21	61281										
DARS2	55157	broad.mit.edu	37	chr1	173806114	173806114	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tagtaccatccagggaacctGgaaagttttattctctccct	7	11	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:173806114G>T	uc001gjh.1	+	8	1110	c.700G>T	c.(700-702)GGA>TGA	p.G234*		NM_018122	NP_060592	Q6PI48	SYDM_HUMAN	aspartyl-tRNA synthetase 2, mitochondrial	234					tRNA aminoacylation for protein translation	mitochondrial matrix|nucleus	aspartate-tRNA ligase activity|ATP binding|nucleic acid binding			central_nervous_system(2)	2					L-Aspartic Acid(DB00128)	CAGGGAACCTGGAAAGTTTTA	0.393													18	280	---	---	---	---	PASS	T	173806114	T	T	173806114	4	4	172	1	0	0	0	0	0	1	0	0	4242	1349	47	3	730	3	DARS2	1	173806114	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	4044042	173806114	75444507	22	61282										
ASTN1	460	broad.mit.edu	37	chr1	176992585	176992585	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	acaggggtccaggagccgccGggcacagaggtccatggccc	16	14	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:176992585G>T	uc001glc.2	-	7	1605	c.1393C>A	c.(1393-1395)CGG>AGG	p.R465R	ASTN1_uc001glb.1_Silent_p.R465R|ASTN1_uc001gld.1_Silent_p.R465R|ASTN1_uc009wwx.1_Silent_p.R465R|ASTN1_uc001gle.3_RNA	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	465	EGF-like 1.				cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						AGGAGCCGCCGGGCACAGAGG	0.622													10	7	---	---	---	---	PASS	T	176992585	T	T	176992585	2	4	172	1	0	0	0	0	0	0	0	1	1064	1115	39	1		1	ASTN1	1	176992585	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	3186471	176992585	72258036	23	61283										
TDRD5	163589	broad.mit.edu	37	chr1	179631354	179631354	+	Frame_Shift_Del	DEL	C	-	-													0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aaaaggaggtgatgctgcctCccatctatttactgcaagcc							TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:179631354delC	uc001gnf.1	+	14	2526	c.2276delC	c.(2275-2277)TCCfs	p.S759fs	TDRD5_uc010pnp.1_Frame_Shift_Del_p.S813fs|TDRD5_uc001gnh.1_Frame_Shift_Del_p.S314fs	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	759					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						GATGCTGCCTCCCATCTATTT	0.428													33	27	---	---	---	---		-	179631354	-	-	179631354	7	5	172	1	0	1	0	1	0	0	0	0	15730	855	30	0	2326	0	TDRD5	1	179631354	Frame_Shift_Del	DEL	C	TCGA-66-2795-01A-02D-0983-08	2638769	179631354	69619267	24	61284										
RGS18	64407	broad.mit.edu	37	chr1	192153562	192153562	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atacacgttttctgaaatctGacatctatttagacttgatg	6	7	3	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:192153562G>T	uc001gsg.2	+	5	762	c.586G>T	c.(586-588)GAC>TAC	p.D196Y		NM_130782	NP_570138	Q9NS28	RGS18_HUMAN	regulator of G-protein signalling 18	196	RGS.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)	3						TCTGAAATCTGACATCTATTT	0.413													42	24	---	---	---	---	PASS	T	192153562	T	T	192153562	3	4	172	1	0	0	0	0	1	0	0	0	13300	1290	45	2	604	2	RGS18	1	192153562	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	12522208	192153562	57097059	25	61285										
IL20	50604	broad.mit.edu	37	chr1	207039697	207039697	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttaaggaggactgagtctttGcaagacacaaaggtatgtgc	12	6	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:207039697G>A	uc001her.2	+	2	257	c.213G>A	c.(211-213)TTG>TTA	p.L71L	IL20_uc010pry.1_Silent_p.L142L|IL20_uc009xby.2_Silent_p.L71L	NM_018724	NP_061194	Q9NYY1	IL20_HUMAN	interleukin 20 precursor	71					positive regulation of keratinocyte differentiation|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of inflammatory response	extracellular space	cytokine activity|interleukin-20 receptor binding				0	Breast(84;0.201)			OV - Ovarian serous cystadenocarcinoma(81;0.00459)		CTGAGTCTTTGCAAGACACAA	0.488													86	44	---	---	---	---	PASS	A	207039697	A	A	207039697	2	1	172	1	0	0	0	0	0	0	0	1	7667	1310	46	3		3	IL20	1	207039697	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	14886135	207039697	42210924	26	61286										
USH2A	7399	broad.mit.edu	37	chr1	216166399	216166399	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcagtccaggagacattaaaGgagtcaggtgaatatgagtg	13	5	2	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:216166399G>T	uc001hku.1	-	35	7155	c.6768C>A	c.(6766-6768)TCC>TCA	p.S2256S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2256	Fibronectin type-III 9.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AGACATTAAAGGAGTCAGGTG	0.468										HNSCC(13;0.011)	OREG0014251	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	191	---	---	---	---	PASS	T	216166399	T	T	216166399	2	4	172	1	0	0	0	0	0	0	0	1	17033	987	35	3		3	USH2A	1	216166399	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	9126702	216166399	33084222	27	61287										
RAB3GAP2	25782	broad.mit.edu	37	chr1	220359061	220359061	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aagaaaatggtaaacgttcaCttgccaaaatgctttccaaa	6	8	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:220359061C>T	uc010puk.1	-	18	1966	c.1802G>A	c.(1801-1803)AGT>AAT	p.S601N	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Missense_Mutation_p.S181N	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	601					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		TAAACGTTCACTTGCCAAAAT	0.328													16	24	---	---	---	---	PASS	T	220359061	T	T	220359061	3	4	172	1	0	0	0	0	1	0	0	0	12936	565	20	3	2451	3	RAB3GAP2	1	220359061	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	4192662	220359061	28891560	28	61288										
KCNK1	3775	broad.mit.edu	37	chr1	233802474	233802474	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	accgtgcacgtcacccgcagGccggtcctctacttccacat	8	18	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:233802474G>T	uc010pxo.1	+	2	657	c.489G>T	c.(487-489)AGG>AGT	p.R163S	KCNK1_uc001hvw.2_RNA|KCNK1_uc001hvx.2_RNA	NM_002245	NP_002236	O00180	KCNK1_HUMAN	potassium channel, subfamily K, member 1	163	Cytoplasmic (Potential).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			central_nervous_system(1)	1		all_cancers(173;0.00217)|all_epithelial(177;0.121)|Prostate(94;0.122)|Acute lymphoblastic leukemia(190;0.175)			Ibutilide(DB00308)|Quinidine(DB00908)	TCACCCGCAGGCCGGTCCTCT	0.592													23	25	---	---	---	---	PASS	T	233802474	T	T	233802474	3	4	172	1	0	0	0	0	1	0	0	0	8058	1194	42	3	495	3	KCNK1	1	233802474	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	13443413	233802474	15448147	29	61289										
LYST	1130	broad.mit.edu	37	chr1	235969140	235969140	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aaagtcgtatactttgaagtGaggtctcactttcttgactt	8	7	2	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:235969140G>T	uc001hxj.2	-	6	3471	c.3296C>A	c.(3295-3297)TCA>TAA	p.S1099*	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Nonsense_Mutation_p.S1099*	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	1099					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			ACTTTGAAGTGAGGTCTCACT	0.423									Chediak-Higashi_syndrome				6	44	---	---	---	---	PASS	T	235969140	T	T	235969140	4	4	172	1	0	0	0	0	0	1	0	0	9128	1294	45	2	8301	2	LYST	1	235969140	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2166666	235969140	13281481	30	61290										
RGS7	6000	broad.mit.edu	37	chr1	240977014	240977014	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cgtattctaaatactgttccGtgtaacttagtagactaagg	8	7	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:240977014G>A	uc001hyv.2	-	13	1190	c.860C>T	c.(859-861)ACG>ATG	p.T287M	RGS7_uc010pyh.1_Missense_Mutation_p.T261M|RGS7_uc010pyj.1_Missense_Mutation_p.T203M|RGS7_uc001hyu.2_Missense_Mutation_p.T287M|RGS7_uc009xgn.1_Missense_Mutation_p.T234M|RGS7_uc001hyw.2_Missense_Mutation_p.T287M|RGS7_uc001hyt.2_Missense_Mutation_p.T119M	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	287	G protein gamma.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			ATACTGTTCCGTGTAACTTAG	0.428													8	23	---	---	---	---	PASS	A	240977014	A	A	240977014	3	1	172	1	0	0	0	0	1	0	0	0	13310	1145	40	1	627	1	RGS7	1	240977014	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	5007874	240977014	8273607	31	61291										
KMO	8564	broad.mit.edu	37	chr1	241753535	241753535	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tccagaataagataccatgaGgctgtgcagcgttggcattg	12	8	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:241753535G>T	uc009xgp.2	+	14	1295	c.1230G>T	c.(1228-1230)GAG>GAT	p.E410D	KMO_uc001hyy.2_Missense_Mutation_p.E397D|KMO_uc009xgo.1_Missense_Mutation_p.E410D	NM_003679	NP_003670	O15229	KMO_HUMAN	kynurenine 3-monooxygenase	410					pyridine nucleotide biosynthetic process|response to salt stress	cytosol|integral to membrane|mitochondrial outer membrane	electron carrier activity|flavin adenine dinucleotide binding|kynurenine 3-monooxygenase activity|NAD(P)H oxidase activity			ovary(2)	2	Ovarian(103;0.103)|all_lung(81;0.23)		OV - Ovarian serous cystadenocarcinoma(106;0.0176)			GATACCATGAGGCTGTGCAGC	0.318													17	83	---	---	---	---	PASS	T	241753535	T	T	241753535	3	4	172	1	0	0	0	0	1	0	0	0	8424	991	35	3	1284	3	KMO	1	241753535	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	776521	241753535	7497086	32	61292										
WDR64	128025	broad.mit.edu	37	chr1	241886728	241886728	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcaacatgtcgtcagcctttCctctgcaaaggtaacaaaaa	6	11	3	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:241886728C>A	uc001hze.1	+	9	1361	c.1154C>A	c.(1153-1155)TCC>TAC	p.S385Y	WDR64_uc001hzf.1_Missense_Mutation_p.S105Y			B1ANS9	WDR64_HUMAN	RecName: Full=WD repeat-containing protein 64;	385	WD 4.									skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			GTCAGCCTTTCCTCTGCAAAG	0.383													11	31	---	---	---	---	PASS	A	241886728	A	A	241886728	3	1	172	1	0	0	0	0	1	0	0	0	17312	855	30	2	1188	2	WDR64	1	241886728	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	133193	241886728	7363893	33	61293										
SCCPDH	51097	broad.mit.edu	37	chr1	246890254	246890254	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgatattgctaatccagcctCgcttgatgaaatggctaaac	8	9	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:246890254C>T	uc001ibr.2	+	2	598	c.251C>T	c.(250-252)TCG>TTG	p.S84L		NM_016002	NP_057086	Q8NBX0	SCPDH_HUMAN	saccharopine dehydrogenase (putative)	84						midbody	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity			ovary(1)	1	all_cancers(71;6.8e-05)|all_epithelial(71;7.93e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0545)|Lung NSC(105;0.0618)	all_cancers(173;0.0343)	OV - Ovarian serous cystadenocarcinoma(106;0.00323)	GBM - Glioblastoma multiforme(49;0.0896)		AATCCAGCCTCGCTTGATGAA	0.383													18	48	---	---	---	---	PASS	T	246890254	T	T	246890254	3	4	172	1	0	0	0	0	1	0	0	0	13885	893	31	2	257	2	SCCPDH	1	246890254	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	5003526	246890254	2360367	34	61294										
VN1R5	317705	broad.mit.edu	37	chr1	247419455	247419455	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgcttttctccacagatatcCtttgctttaattttccttct	3	11	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:247419455C>A	uc010pyu.1	+	1	82	c.82C>A	c.(82-84)CTT>ATT	p.L28I		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	28	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			CACAGATATCCTTTGCTTTAA	0.328													23	74	---	---	---	---	PASS	A	247419455	A	A	247419455	3	1	172	1	0	0	0	0	1	0	0	0	17178	681	24	3	84	3	VN1R5	1	247419455	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	529201	247419455	1831166	35	61295										
OR2M5	127059	broad.mit.edu	37	chr1	248309295	248309295	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtattctacaccatcctcacTcccatgctgaatcccctcat	3	17	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:248309295T>C	uc010pze.1	+	1	846	c.846T>C	c.(844-846)ACT>ACC	p.T282T		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	282	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			CCATCCTCACTCCCATGCTGA	0.502													39	39	---	---	---	---	PASS	C	248309295	C	C	248309295	2	2	172	1	0	0	0	0	0	0	0	1	11013	1538	54	5		5	OR2M5	1	248309295	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08	889840	248309295	941326	36	61296										
OR2M3	127062	broad.mit.edu	37	chr1	248366447	248366447	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cacagccccacccacaccttCctcttctttctggtcctggc	5	20	3	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr1:248366447C>A	uc010pzg.1	+	1	78	c.78C>A	c.(76-78)TTC>TTA	p.F26L		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	26	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CCCACACCTTCCTCTTCTTTC	0.507													65	104	---	---	---	---	PASS	A	248366447	A	A	248366447	3	1	172	1	0	0	0	0	1	0	0	0	11011	854	30	2	80	2	OR2M3	1	248366447	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	57152	248366447	884174	37	61297										
FKBP1B	2281	broad.mit.edu	37	chr2	24276774	24276774	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cctcatgtctccctgcaggaAggacattccccaagaagggc	10	14	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:24276774A>G	uc002rer.2	+	2	176	c.40A>G	c.(40-42)AGG>GGG	p.R14G	FKBP1B_uc002res.2_Missense_Mutation_p.R14G|FKBP1B_uc002ret.2_RNA|FKBP1B_uc002reu.2_RNA	NM_004116	NP_004107	P68106	FKB1B_HUMAN	FK506 binding protein 1B, 12.6 kDa isoform a	14					'de novo' protein folding|negative regulation of heart rate|negative regulation of protein phosphatase type 2B activity|protein maturation by protein folding|protein refolding|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|regulation of ryanodine-sensitive calcium-release channel activity|response to redox state	calcium channel complex|sarcoplasmic reticulum membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|receptor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCTGCAGGAAGGACATTCCC	0.557													19	89	---	---	---	---	PASS	G	24276774	G	G	24276774	3	3	172	1	0	0	0	0	1	0	0	0	5907	63	3	5	46	5	FKBP1B	2	24276774	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08		24276774	218922599	38	61298										
OTOF	9381	broad.mit.edu	37	chr2	26717816	26717816	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	acagggccactgacctcgttGtaataggggcagttagtgga	14	8	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:26717816G>C	uc002rhk.2	-	9	1018	c.891C>G	c.(889-891)TAC>TAG	p.Y297*		NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	297	Cytoplasmic (Potential).|C2 1.				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGACCTCGTTGTAATAGGGGC	0.572													21	51	---	---	---	---	PASS	C	26717816	C	C	26717816	4	2	172	1	0	0	0	0	0	1	0	0	11303	1372	48	4	5583	4	OTOF	2	26717816	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2441042	26717816	216481557	39	61299										
C2orf16	84226	broad.mit.edu	37	chr2	27800102	27800102	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gatcaaggctcaaaattcttAggattaactccagagaaaag	8	7	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:27800102A>G	uc002rkz.3	+	1	714	c.663A>G	c.(661-663)TTA>TTG	p.L221L		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	221										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					CAAAATTCTTAGGATTAACTC	0.443													11	47	---	---	---	---	PASS	G	27800102	G	G	27800102	2	3	172	1	0	0	0	0	0	0	0	1	2157	417	15	5		5	C2orf16	2	27800102	Silent	SNP	A	TCGA-66-2795-01A-02D-0983-08	1082286	27800102	215399271	40	61300										
GALNT14	79623	broad.mit.edu	37	chr2	31133823	31133823	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgaggactcacatgggttgaCgacgatttccttgccgttct	11	10	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:31133823C>T	uc002rnr.2	-	15	2222	c.1603G>A	c.(1603-1605)GTC>ATC	p.V535I	GALNT14_uc002rnq.2_Missense_Mutation_p.V515I|GALNT14_uc002rns.2_Missense_Mutation_p.V540I|GALNT14_uc010ymr.1_Missense_Mutation_p.V500I	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	535	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					CATGGGTTGACGACGATTTCC	0.562													17	84	---	---	---	---	PASS	T	31133823	T	T	31133823	3	4	172	1	0	0	0	0	1	0	0	0	6212	536	19	1	59	1	GALNT14	2	31133823	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	3333721	31133823	212065550	41	61301										
BIRC6	57448	broad.mit.edu	37	chr2	32774511	32774511	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cttctcagtcagtcctgcctCatcccagccatgtcatctta	5	16	5	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:32774511C>G	uc010ezu.2	+	65	13241	c.13107C>G	c.(13105-13107)CTC>CTG	p.L4369L		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4369					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)					AGTCCTGCCTCATCCCAGCCA	0.418													21	69	---	---	---	---	PASS	G	32774511	G	G	32774511	2	3	172	1	0	0	0	0	0	0	0	1	1438	813	29	2		2	BIRC6	2	32774511	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	1640688	32774511	210424862	42	61302										
THADA	63892	broad.mit.edu	37	chr2	43520275	43520275	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	caggcctggcaccttgaaggCccaagggaatcccgttatca	11	13	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:43520275C>A	uc002rsw.3	-	32	4868	c.4516G>T	c.(4516-4518)GCC>TCC	p.A1506S	THADA_uc010far.2_Missense_Mutation_p.A701S|THADA_uc002rsx.3_Missense_Mutation_p.A1506S|THADA_uc002rsy.3_RNA	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1506							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				ACCTTGAAGGCCCAAGGGAAT	0.557													20	60	---	---	---	---	PASS	A	43520275	A	A	43520275	3	1	172	1	0	0	0	0	1	0	0	0	15837	739	26	3	1373	3	THADA	2	43520275	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	10745764	43520275	199679098	43	61303										
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48873715	48873715	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gccttcagtaatacaaactaGtgttccacaattgaatccat	5	10	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:48873715G>C	uc010yol.1	+	5	2530	c.2483G>C	c.(2482-2484)AGT>ACT	p.S828T	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.S875T|GTF2A1L_uc002rws.1_Missense_Mutation_p.S171T|GTF2A1L_uc010yom.1_Missense_Mutation_p.S137T|GTF2A1L_uc002rwt.2_Missense_Mutation_p.S171T	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	828					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ATACAAACTAGTGTTCCACAA	0.433													53	34	---	---	---	---	PASS	C	48873715	C	C	48873715	3	2	172	1	0	0	0	0	1	0	0	0	15316	1029	36	4	2650	4	STON1-GTF2A1L	2	48873715	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	5353440	48873715	194325658	44	61304										
GPR75	10936	broad.mit.edu	37	chr2	54081850	54081850	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtgagtgaggcacatggagcGaggtggcattgggggcatcc	19	7	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:54081850G>T	uc002rxo.3	-	2	315	c.44C>A	c.(43-45)TCG>TAG	p.S15*	ASB3_uc002rxi.3_Intron	NM_006794	NP_006785	O95800	GPR75_HUMAN	G protein-coupled receptor 75	15	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|skin(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			CACATGGAGCGAGGTGGCATT	0.522													5	149	---	---	---	---	PASS	T	54081850	T	T	54081850	4	4	172	1	0	0	0	0	0	1	0	0	6708	1059	37	2	1582	2	GPR75	2	54081850	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	5208135	54081850	189117523	45	61305										
BCL11A	53335	broad.mit.edu	37	chr2	60687618	60687618	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tctccagggtactgtacacgCtaaaaggcatcttacaaatt	7	10	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:60687618C>A	uc002sae.1	-	4	2657	c.2429G>T	c.(2428-2430)AGC>ATC	p.S810I	BCL11A_uc002sab.2_Intron|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Intron|BCL11A_uc010ypj.1_Intron|BCL11A_uc002sad.1_Missense_Mutation_p.S658I|BCL11A_uc002saf.1_Missense_Mutation_p.S776I	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	810	C2H2-type 6.				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			ACTGTACACGCTAAAAGGCAT	0.428			T	IGH@	B-CLL								221	58	---	---	---	---	PASS	A	60687618	A	A	60687618	3	1	172	1	0	0	0	0	1	0	0	0	1363	797	28	3	188	3	BCL11A	2	60687618	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	6605768	60687618	182511755	46	61306										
KIAA1841	84542	broad.mit.edu	37	chr2	61298890	61298890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gacatacatggagaatttcaGgagactccagttggacatga	11	7	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:61298890G>T	uc002saw.3	+	4	603	c.300G>T	c.(298-300)CAG>CAT	p.Q100H	KIAA1841_uc002sax.3_Translation_Start_Site|KIAA1841_uc002say.2_Missense_Mutation_p.Q100H|KIAA1841_uc002sav.3_Missense_Mutation_p.Q100H	NM_001129993	NP_001123465	Q6NSI8	K1841_HUMAN	KIAA1841 protein isoform a	100											0			Epithelial(17;0.193)			GAGAATTTCAGGAGACTCCAG	0.363													7	200	---	---	---	---	PASS	T	61298890	T	T	61298890	3	4	172	1	0	0	0	0	1	0	0	0	8261	991	35	3	306	3	KIAA1841	2	61298890	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	611272	61298890	181900483	47	61307										
USP34	9736	broad.mit.edu	37	chr2	61597467	61597467	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	taatattacctgtgctgcagCccaaatacagtcaatatgtt	6	9	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:61597467C>A	uc002sbe.2	-	10	1262	c.1240G>T	c.(1240-1242)GCT>TCT	p.A414S		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	414					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TGTGCTGCAGCCCAAATACAG	0.224													51	514	---	---	---	---	PASS	A	61597467	A	A	61597467	3	1	172	1	0	0	0	0	1	0	0	0	17062	739	26	3	9684	3	USP34	2	61597467	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	298577	61597467	181601906	48	61308										
NAGK	55577	broad.mit.edu	37	chr2	71300618	71300618	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tctgctccctgcagcctactGgatcgcacaccaagcagtga	9	15	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:71300618G>T	uc002shp.3	+	6	879	c.473G>T	c.(472-474)TGG>TTG	p.W158L	NAGK_uc010fea.2_RNA|NAGK_uc002shq.3_Missense_Mutation_p.W9L|NAGK_uc002shr.2_Missense_Mutation_p.W107L	NM_017567	NP_060037	Q9UJ70	NAGK_HUMAN	N-Acetylglucosamine kinase	158					N-acetylglucosamine metabolic process|N-acetylmannosamine metabolic process		ATP binding|N-acetylglucosamine kinase activity|protein binding				0					N-Acetyl-D-glucosamine(DB00141)	GCAGCCTACTGGATCGCACAC	0.512													10	374	---	---	---	---	PASS	T	71300618	T	T	71300618	3	4	172	1	0	0	0	0	1	0	0	0	10142	1357	47	3	633	3	NAGK	2	71300618	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	9703151	71300618	171898755	49	61309										
SLC4A5	57835	broad.mit.edu	37	chr2	74482935	74482935	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gcacctcggtcactcctcccAgcatggccgactggatgagg	12	15	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:74482935A>T	uc002sko.1	-	8	994	c.992T>A	c.(991-993)CTG>CAG	p.L331Q	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Missense_Mutation_p.L331Q|SLC4A5_uc010ffc.1_Missense_Mutation_p.L331Q|SLC4A5_uc002skp.1_Missense_Mutation_p.L267Q|SLC4A5_uc002sks.1_Missense_Mutation_p.L331Q	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	331	Cytoplasmic (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						CACTCCTCCCAGCATGGCCGA	0.612													10	19	---	---	---	---	PASS	T	74482935	T	T	74482935	3	4	172	1	0	0	0	0	1	0	0	0	14657	188	7	5	2497	5	SLC4A5	2	74482935	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	3182317	74482935	168716438	50	61310										
ARID5A	10865	broad.mit.edu	37	chr2	97217381	97217381	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cttaaagatggggtgctattGgggcctcctggcaaagaggg	16	7	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:97217381G>A	uc002swe.2	+	7	1216	c.1116G>A	c.(1114-1116)TTG>TTA	p.L372L	ARID5A_uc010yuq.1_Silent_p.L320L|ARID5A_uc002swf.2_Silent_p.L208L|ARID5A_uc002swg.2_Silent_p.L320L	NM_212481	NP_997646	Q03989	ARI5A_HUMAN	AT rich interactive domain 5A	372					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding				0						GGGTGCTATTGGGGCCTCCTG	0.587													8	9	---	---	---	---	PASS	A	97217381	A	A	97217381	2	1	172	1	0	0	0	0	0	0	0	1	921	1339	47	3		3	ARID5A	2	97217381	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	22734446	97217381	145981992	51	61311										
REV1	51455	broad.mit.edu	37	chr2	100079080	100079080	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggaccttggcagccatatacCcaccctagaattaaagaaaa	7	11	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:100079080C>T	uc002tad.2	-	3	271	c.59G>A	c.(58-60)GGG>GAG	p.G20E	REV1_uc002tac.2_Missense_Mutation_p.G20E|REV1_uc002tae.1_5'UTR	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	20					DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						AGCCATATACCCACCCTAGAA	0.353								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					31	80	---	---	---	---	PASS	T	100079080	T	T	100079080	3	4	172	1	0	0	0	0	1	0	0	0	13239	623	22	3	3780	3	REV1	2	100079080	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	2861699	100079080	143120293	52	61312										
MYO7B	4648	broad.mit.edu	37	chr2	128387373	128387373	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctgcctctacaccatccccaCggtcactaagccctcggcac	6	20	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:128387373C>A	uc002top.2	+	34	4753	c.4700C>A	c.(4699-4701)ACG>AAG	p.T1567K	MYO7B_uc002tor.1_Missense_Mutation_p.T420K	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	1567	SH3 1.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		ACCATCCCCACGGTCACTAAG	0.647													11	34	---	---	---	---	PASS	A	128387373	A	A	128387373	3	1	172	1	0	0	0	0	1	0	0	0	10083	536	19	1	4830	1	MYO7B	2	128387373	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	28308293	128387373	114812000	53	61313										
UBXN4	23190	broad.mit.edu	37	chr2	136530083	136530083	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tagcaaaacaggcagaaatgGaagtcaagagggaatcttat	11	5	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:136530083G>C	uc002tur.2	+	9	1227	c.916G>C	c.(916-918)GAA>CAA	p.E306Q	UBXN4_uc002tus.2_Missense_Mutation_p.E72Q	NM_014607	NP_055422	Q92575	UBXN4_HUMAN	UBX domain containing 2	306	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|nuclear envelope	protein binding			skin(2)	2						GGCAGAAATGGAAGTCAAGAG	0.443													14	50	---	---	---	---	PASS	C	136530083	C	C	136530083	3	2	172	1	0	0	0	0	1	0	0	0	16913	1175	41	2	950	2	UBXN4	2	136530083	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	8142710	136530083	106669290	54	61314										
THSD7B	80731	broad.mit.edu	37	chr2	138208577	138208577	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aggacgaccatgtcccaaacTggatctcaagaatcaggtaa	9	10	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:138208577T>A	uc002tva.1	+	14	3029	c.3029T>A	c.(3028-3030)CTG>CAG	p.L1010Q	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TGTCCCAAACTGGATCTCAAG	0.373													9	11	---	---	---	---	PASS	A	138208577	A	A	138208577	3	1	172	1	0	0	0	0	1	0	0	0	15877	1580	55	5	3083	5	THSD7B	2	138208577	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	1678494	138208577	104990796	55	61315										
NXPH2	11249	broad.mit.edu	37	chr2	139429176	139429176	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	accaacgtccctggagcatcTttgtcttcccaatccagccc	6	17	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:139429176T>A	uc002tvi.2	-	2	111	c.111A>T	c.(109-111)AAA>AAT	p.K37N		NM_007226	NP_009157	O95156	NXPH2_HUMAN	neurexophilin 2 precursor	37	II.				neuropeptide signaling pathway	extracellular region				ovary(3)|skin(1)	4				BRCA - Breast invasive adenocarcinoma(221;0.101)		CTGGAGCATCTTTGTCTTCCC	0.512													22	57	---	---	---	---	PASS	A	139429176	A	A	139429176	3	1	172	1	0	0	0	0	1	0	0	0	10791	1606	56	5	687	5	NXPH2	2	139429176	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	1220599	139429176	103770197	56	61316										
ZEB2	9839	broad.mit.edu	37	chr2	145161578	145161578	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agggcaggaaaagttctcttCattcttctcgtggcggtact	11	9	4	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:145161578C>A	uc002tvu.2	-	6	1192	c.712G>T	c.(712-714)GAA>TAA	p.E238*	ZEB2_uc002tvv.2_Nonsense_Mutation_p.E232*|ZEB2_uc010zbm.1_Nonsense_Mutation_p.E209*|ZEB2_uc010fnp.2_Nonsense_Mutation_p.E146*|ZEB2_uc010fnq.1_Nonsense_Mutation_p.E267*	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	238						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		AAGTTCTCTTCATTCTTCTCG	0.557													9	43	---	---	---	---	PASS	A	145161578	A	A	145161578	4	1	172	1	0	0	0	0	0	1	0	0	17621	835	29	2	2952	2	ZEB2	2	145161578	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	5732402	145161578	98037795	57	61317										
ACVR2A	92	broad.mit.edu	37	chr2	148602722	148602722	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttccccggcgcctcgggaaaAtgggagctgctgcaaagttg	14	11	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:148602722A>G	uc002twg.2	+	2	270	c.1A>G	c.(1-3)ATG>GTG	p.M1V	ACVR2A_uc010zbn.1_Intron|ACVR2A_uc002twh.2_Missense_Mutation_p.M1V	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	1					activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		CCTCGGGAAAATGGGAGCTGC	0.592													16	46	---	---	---	---	PASS	G	148602722	G	G	148602722	3	3	172	1	0	0	0	0	1	0	0	0	223	101	4	5	3	5	ACVR2A	2	148602722	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	3441144	148602722	94596651	58	61318										
NEB	4703	broad.mit.edu	37	chr2	152580773	152580773	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggcaatggagcagacccttaCcttgctgaacatggcggtgt	13	10	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:152580773C>A	uc010fnx.2	-	8	803	c.612_splice	c.e8+1	p.K204_splice		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3						muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CAGACCCTTACCTTGCTGAAC	0.458													8	24	---	---	---	---	PASS	A	152580773	A	A	152580773	5	1	172	1	0	0	0	0	0	0	1	0	10302	521	18	3	25773	3	NEB	2	152580773	Splice_Site	SNP	C	TCGA-66-2795-01A-02D-0983-08	3978051	152580773	90618600	59	61319										
DPP4	1803	broad.mit.edu	37	chr2	162865781	162865781	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	attgcaattcgtttgttgtcCacaaatcccatttttgaaaa	5	8	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:162865781C>A	uc002ubz.2	-	21	2418	c.1857G>T	c.(1855-1857)GTG>GTT	p.V619V	DPP4_uc010fpb.2_Silent_p.V295V	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	619	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	GTTTGTTGTCCACAAATCCCA	0.368													5	63	---	---	---	---	PASS	A	162865781	A	A	162865781	2	1	172	1	0	0	0	0	0	0	0	1	4729	581	21	3		3	DPP4	2	162865781	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	10285008	162865781	80333592	60	61320										
GCA	25801	broad.mit.edu	37	chr2	163212958	163212958	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgttttacagccttcagtttGgaaacctgcagaattatgat	8	7	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:163212958G>T	uc002ucg.2	+	4	449	c.273G>T	c.(271-273)TTG>TTT	p.L91F	GCA_uc010zcu.1_Missense_Mutation_p.L72F	NM_012198	NP_036330	P28676	GRAN_HUMAN	grancalcin, EF-hand calcium binding protein	91	EF-hand 2.				cellular membrane fusion	cytoplasm|plasma membrane	calcium ion binding|protein homodimerization activity				0						CCTTCAGTTTGGAAACCTGCA	0.299													5	57	---	---	---	---	PASS	T	163212958	T	T	163212958	3	4	172	1	0	0	0	0	1	0	0	0	6283	1339	47	3	287	3	GCA	2	163212958	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	347177	163212958	79986415	61	61321										
KCNH7	90134	broad.mit.edu	37	chr2	163693137	163693137	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aatatcatgcctcttggtctCgggtccatggagaaagtcgc	11	10	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:163693137C>A	uc002uch.1	-	2	429	c.217G>T	c.(217-219)GAG>TAG	p.E73*	KCNH7_uc002uci.2_Nonsense_Mutation_p.E73*	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	73	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	CTCTTGGTCTCGGGTCCATGG	0.483													13	22	---	---	---	---	PASS	A	163693137	A	A	163693137	4	1	172	1	0	0	0	0	0	1	0	0	8037	893	31	2	3499	2	KCNH7	2	163693137	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	480179	163693137	79506236	62	61322										
SCN7A	6332	broad.mit.edu	37	chr2	167297992	167297992	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	catacagtcccacaaggtctCtacccactctccacagagaa	5	16	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:167297992C>G	uc002udu.1	-	14	2198	c.2071G>C	c.(2071-2073)GAG>CAG	p.E691Q	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	691					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						CACAAGGTCTCTACCCACTCT	0.448													17	52	---	---	---	---	PASS	G	167297992	G	G	167297992	3	3	172	1	0	0	0	0	1	0	0	0	13923	922	32	2	3025	2	SCN7A	2	167297992	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	3604855	167297992	75901381	63	61323										
FASTKD1	79675	broad.mit.edu	37	chr2	170411709	170411710	+	Frame_Shift_Del	DEL	TT	-	-													0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aagttaattcttgagttatcTtcaacaactctaatggttta							TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:170411709_170411710delTT	uc002uev.3	-	7	1526_1527	c.1138_1139delAA	c.(1138-1140)AAGfs	p.K380fs	FASTKD1_uc002uew.3_RNA|FASTKD1_uc002uex.3_Frame_Shift_Del_p.K366fs	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	380					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4						TTGAGTTATCTTCAACAACTCT	0.282													22	12	---	---	---	---		-	170411710	-	-	170411709	7	5	172	1	0	1	0	1	0	0	0	0	5685	1609	56	0	1440	0	FASTKD1	2	170411709	Frame_Shift_Del	DEL	TT	TCGA-66-2795-01A-02D-0983-08	3113717	170411709	72787664	64	61324										
SCRN3	79634	broad.mit.edu	37	chr2	175265857	175265857	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	acagtttcctgatagctgatAggaatgaagcctggattctg	11	7	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:175265857A>G	uc002uiq.2	+	4	569	c.481A>G	c.(481-483)AGG>GGG	p.R161G	SCRN3_uc010zen.1_Missense_Mutation_p.R154G|SCRN3_uc010zeo.1_Intron	NM_024583	NP_078859	Q0VDG4	SCRN3_HUMAN	secernin 3	161					proteolysis		dipeptidase activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.229)			GATAGCTGATAGGAATGAAGC	0.398													16	35	---	---	---	---	PASS	G	175265857	G	G	175265857	3	3	172	1	0	0	0	0	1	0	0	0	13940	411	15	5	491	5	SCRN3	2	175265857	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	4854148	175265857	67933516	65	61325										
NFE2L2	4780	broad.mit.edu	37	chr2	178098944	178098944	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gactgaagtcaaatacttctCgacttactccaagatctata	5	10	3	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:178098944C>T	uc002ulh.3	-	2	656	c.101G>A	c.(100-102)CGA>CAA	p.R34Q	NFE2L2_uc002ulg.3_Missense_Mutation_p.R18Q|NFE2L2_uc010zfa.1_Missense_Mutation_p.R18Q|NFE2L2_uc002uli.3_Missense_Mutation_p.R18Q|NFE2L2_uc010fra.2_Missense_Mutation_p.R18Q|NFE2L2_uc010frb.2_Missense_Mutation_p.R18Q	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	34					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			AAATACTTCTCGACTTACTCC	0.373			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			12	34	---	---	---	---	PASS	T	178098944	T	T	178098944	3	4	172	1	0	0	0	0	1	0	0	0	10368	884	31	2	1732	2	NFE2L2	2	178098944	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	2833087	178098944	65100429	66	61326										
TTN	7273	broad.mit.edu	37	chr2	179582536	179582536	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aagaaaggtggaagtttgcgCgctgtaaagaagttacagat	13	4	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:179582536C>T	uc010zfg.1	-	84	21557	c.21333G>A	c.(21331-21333)GCG>GCA	p.A7111A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.A3772A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			GAAGTTTGCGCGCTGTAAAGA	0.378													8	27	---	---	---	---	PASS	T	179582536	T	T	179582536	2	4	172	1	0	0	0	0	0	0	0	1	16732	782	27	1		1	TTN	2	179582536	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	1483592	179582536	63616837	67	61327										
TTN	7273	broad.mit.edu	37	chr2	179591833	179591833	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctaccttttactataaccttGgtactgcagcttgtgctgcc	7	12	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:179591833G>T	uc010zfg.1	-	66	16751	c.16527C>A	c.(16525-16527)ACC>ACA	p.T5509T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.T2170T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6436							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)			CTATAACCTTGGTACTGCAGC	0.418													5	86	---	---	---	---	PASS	T	179591833	T	T	179591833	2	4	172	1	0	0	0	0	0	0	0	1	16732	1335	47	3		3	TTN	2	179591833	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	9297	179591833	63607540	68	61328										
TTN	7273	broad.mit.edu	37	chr2	179604759	179604759	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cacggctgcttgcaaagcccGgcagatttgaattttcaggt	11	10	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:179604759G>T	uc010zfh.1	-	46	12912	c.12688C>A	c.(12688-12690)CGG>AGG	p.R4230R	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Silent_p.R4163R|TTN_uc010zfj.1_Silent_p.R4038R|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TGCAAAGCCCGGCAGATTTGA	0.483													21	39	---	---	---	---	PASS	T	179604759	T	T	179604759	2	4	172	1	0	0	0	0	0	0	0	1	16732	1115	39	1		1	TTN	2	179604759	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	12926	179604759	63594614	69	61329										
CCDC141	285025	broad.mit.edu	37	chr2	179718255	179718255	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aataaacttattaaactgctGgtggagaattttcacagctt	7	6	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:179718255G>T	uc002unf.1	-	10	1489	c.1432C>A	c.(1432-1434)CAG>AAG	p.Q478K		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	478							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			TTAAACTGCTGGTGGAGAATT	0.428													36	58	---	---	---	---	PASS	T	179718255	T	T	179718255	3	4	172	1	0	0	0	0	1	0	0	0	2775	1357	47	3	1211	3	CCDC141	2	179718255	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	113496	179718255	63481118	70	61330										
ZNF804A	91752	broad.mit.edu	37	chr2	185798417	185798417	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaaaacaggaaaaggcactcCaacgcctgcacaagctggct	10	12	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:185798417C>G	uc002uph.2	+	3	937	c.343C>G	c.(343-345)CAA>GAA	p.Q115E		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	115						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						AAAGGCACTCCAACGCCTGCA	0.383													13	30	---	---	---	---	PASS	G	185798417	G	G	185798417	3	3	172	1	0	0	0	0	1	0	0	0	18167	595	21	4	353	4	ZNF804A	2	185798417	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	6080162	185798417	57400956	71	61331										
ZNF804A	91752	broad.mit.edu	37	chr2	185800721	185800721	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atacagcaaaaaataaccaaGttggggatcaagcccagggg	11	8	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:185800721G>T	uc002uph.2	+	4	1192	c.598G>T	c.(598-600)GTT>TTT	p.V200F		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	200						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						AAATAACCAAGTTGGGGATCA	0.403													17	39	---	---	---	---	PASS	T	185800721	T	T	185800721	3	4	172	1	0	0	0	0	1	0	0	0	18167	1029	36	3	612	3	ZNF804A	2	185800721	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2304	185800721	57398652	72	61332										
PMS1	5378	broad.mit.edu	37	chr2	190719768	190719768	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gatcatcgtcctcagtttctCatagaaaatcctaagactag	6	10	3	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:190719768C>A	uc002urh.3	+	9	2299	c.1770C>A	c.(1768-1770)CTC>CTA	p.L590L	PMS1_uc010zga.1_Silent_p.L551L|PMS1_uc010zgb.1_Silent_p.L529L|PMS1_uc002urk.3_Silent_p.L551L|PMS1_uc002uri.3_Silent_p.L590L|PMS1_uc010zgc.1_Silent_p.L414L|PMS1_uc010zgd.1_Silent_p.L414L|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Silent_p.L551L|PMS1_uc010frz.2_Intron|PMS1_uc002url.2_Silent_p.L375L|PMS1_uc002urm.2_RNA|PMS1_uc002urn.1_Silent_p.L258L	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	590	HMG box.				mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			CTCAGTTTCTCATAGAAAATC	0.373			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					6	70	---	---	---	---	PASS	A	190719768	A	A	190719768	2	1	172	1	0	0	0	0	0	0	0	1	12142	813	29	2		2	PMS1	2	190719768	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	4919047	190719768	52479605	73	61333										
MFSD6	54842	broad.mit.edu	37	chr2	191301381	191301381	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggaaacaaggctcaatgtctCagacaccgttactttgccaa	8	11	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:191301381C>A	uc002urz.2	+	3	950	c.626C>A	c.(625-627)TCA>TAA	p.S209*		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	209					transmembrane transport	integral to membrane				ovary(2)	2						CTCAATGTCTCAGACACCGTT	0.428													5	67	---	---	---	---	PASS	A	191301381	A	A	191301381	4	1	172	1	0	0	0	0	0	1	0	0	9535	838	29	2	628	2	MFSD6	2	191301381	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	581613	191301381	51897992	74	61334										
PLCL1	5334	broad.mit.edu	37	chr2	198950685	198950685	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tatagggcaatatacgatacCatttgaatgtttgcagcctg	9	7	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:198950685C>T	uc010fsp.2	+	2	2735	c.2444C>T	c.(2443-2445)CCA>CTA	p.P815L	PLCL1_uc002uuv.3_Missense_Mutation_p.P736L	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	815					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TATACGATACCATTTGAATGT	0.438													14	50	---	---	---	---	PASS	T	198950685	T	T	198950685	3	4	172	1	0	0	0	0	1	0	0	0	12039	594	21	3	2450	3	PLCL1	2	198950685	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	7649304	198950685	44248688	75	61335										
FAM134A	79137	broad.mit.edu	37	chr2	220045906	220045906	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aggcagaagccaatgccctgCatcacaaacacgacaagagg	10	12	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:220045906C>T	uc002vjw.3	+	6	899	c.763C>T	c.(763-765)CAT>TAT	p.H255Y	FAM134A_uc010fwc.2_Missense_Mutation_p.H48Y|FAM134A_uc002vjx.2_Missense_Mutation_p.H48Y	NM_024293	NP_077269	Q8NC44	F134A_HUMAN	hypothetical protein LOC79137	255						endoplasmic reticulum|integral to membrane				ovary(1)|central_nervous_system(1)	2		Renal(207;0.0915)		Epithelial(149;8.92e-07)|all cancers(144;0.000151)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAATGCCCTGCATCACAAACA	0.562													29	69	---	---	---	---	PASS	T	220045906	T	T	220045906	3	4	172	1	0	0	0	0	1	0	0	0	5445	710	25	3	785	3	FAM134A	2	220045906	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	21095221	220045906	23153467	76	61336										
IRS1	3667	broad.mit.edu	37	chr2	227662338	227662338	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agccggcatggggatggagcGgctgtggttgagcggggggt	23	6	0	1	rs147944503		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:227662338G>A	uc002voh.3	-	1	1169	c.1117C>T	c.(1117-1119)CGC>TGC	p.R373C		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	373	Ser-rich.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GGGATGGAGCGGCTGTGGTTG	0.697											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	18	---	---	---	---	PASS	A	227662338	A	A	227662338	3	1	172	1	0	0	0	0	1	0	0	0	7840	1116	39	1	2615	1	IRS1	2	227662338	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	7616432	227662338	15537035	77	61337										
TRPM8	79054	broad.mit.edu	37	chr2	234863887	234863887	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gattttcaccaatgaccgccGatgggaggtaagcacgaagc	12	10	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:234863887G>T	uc002vvh.2	+	11	1395	c.1355G>T	c.(1354-1356)CGA>CTA	p.R452L	TRPM8_uc010fyj.2_Missense_Mutation_p.R140L	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	452	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	AATGACCGCCGATGGGAGGTA	0.502													21	35	---	---	---	---	PASS	T	234863887	T	T	234863887	3	4	172	1	0	0	0	0	1	0	0	0	16589	1058	37	2	1393	2	TRPM8	2	234863887	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	7201549	234863887	8335486	78	61338										
COL6A3	1293	broad.mit.edu	37	chr2	238250716	238250716	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaaacagcttacccaagcaaAcatgacacgtgaggacattc	8	11	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr2:238250716A>G	uc002vwl.2	-	37	8042	c.7757T>C	c.(7756-7758)GTT>GCT	p.V2586A	COL6A3_uc002vwo.2_Missense_Mutation_p.V2380A|COL6A3_uc010znj.1_Missense_Mutation_p.V1979A|COL6A3_uc002vwj.2_5'UTR	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2586	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		ACCCAAGCAAACATGACACGT	0.453													9	18	---	---	---	---	PASS	G	238250716	G	G	238250716	3	3	172	1	0	0	0	0	1	0	0	0	3701	43	2	5	1808	5	COL6A3	2	238250716	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	3386829	238250716	4948657	79	61339										
CNTN4	152330	broad.mit.edu	37	chr3	3030128	3030128	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	actaaccattttggaactgcTagcagtactggaaacttggt	9	8	0	0	rs78171908	by1000genomes	TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:3030128T>C	uc003bpc.2	+	13	1679	c.1458T>C	c.(1456-1458)GCT>GCC	p.A486A	CNTN4_uc003bpb.1_Silent_p.A158A|CNTN4_uc003bpd.1_Silent_p.A486A|CNTN4_uc003bpe.2_Silent_p.A158A|CNTN4_uc003bpf.2_Silent_p.A158A	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	486	Ig-like C2-type 5.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		TTGGAACTGCTAGCAGTACTG	0.378													11	22	---	---	---	---	PASS	C	3030128	C	C	3030128	2	2	172	1	0	0	0	0	0	0	0	1	3643	1509	53	5		5	CNTN4	3	3030128	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08		3030128	194992302	80	61340										
LRRN1	57633	broad.mit.edu	37	chr3	3886844	3886844	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aaaaatctattaaggctccaCctgaactccaacaaattgaa	4	10	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:3886844C>G	uc003bpt.3	+	2	1280	c.519C>G	c.(517-519)CAC>CAG	p.H173Q	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	173	LRR 5.|Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		TAAGGCTCCACCTGAACTCCA	0.398													27	33	---	---	---	---	PASS	G	3886844	G	G	3886844	3	3	172	1	0	0	0	0	1	0	0	0	9034	506	18	4	521	4	LRRN1	3	3886844	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	856716	3886844	194135586	81	61341										
ZNF621	285268	broad.mit.edu	37	chr3	40574078	40574078	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aggaatgttggaaagctttcGgttgtaggtcactttttatt	11	4	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:40574078G>T	uc003ckm.2	+	5	1033	c.817G>T	c.(817-819)GGT>TGT	p.G273C	ZNF621_uc003ckn.2_Missense_Mutation_p.G273C|ZNF621_uc003cko.2_Missense_Mutation_p.G238C|ZNF621_uc011aze.1_Missense_Mutation_p.G265C	NM_001098414	NP_001091884	Q6ZSS3	ZN621_HUMAN	zinc finger protein 621	273	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0515)|Kidney(284;0.0648)		GAAAGCTTTCGGTTGTAGGTC	0.443													14	16	---	---	---	---	PASS	T	40574078	T	T	40574078	3	4	172	1	0	0	0	0	1	0	0	0	18042	1116	39	1	831	1	ZNF621	3	40574078	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	36687234	40574078	157448352	82	61342										
CCR5	1234	broad.mit.edu	37	chr3	46415167	46415167	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aacattgtccttctcctgaaCaccttccaggaattctttgg	6	12	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:46415167C>A	uc003cpo.3	+	3	896	c.774C>A	c.(772-774)AAC>AAA	p.N258K	CCR5_uc010hjd.2_Missense_Mutation_p.N258K	NM_001100168	NP_001093638	P51681	CCR5_HUMAN	chemokine (C-C motif) receptor 5	258	Helical; Name=6; (Potential).				cell-cell signaling|cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|immune response|inflammatory response|initiation of viral infection	endosome|external side of plasma membrane|integral to plasma membrane	actin binding|C-C chemokine receptor activity|coreceptor activity|phosphatidylinositol phospholipase C activity			lung(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.00112)|KIRC - Kidney renal clear cell carcinoma(197;0.017)|Kidney(197;0.02)	Maraviroc(DB04835)	TTCTCCTGAACACCTTCCAGG	0.468													65	105	---	---	---	---	PASS	A	46415167	A	A	46415167	3	1	172	1	0	0	0	0	1	0	0	0	2944	477	17	3	776	3	CCR5	3	46415167	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	5841089	46415167	151607263	83	61343										
LAMB2	3913	broad.mit.edu	37	chr3	49166717	49166717	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccacgtcgcagtcacaggggCggcagccgagcaggtcgtgg	17	13	1	0	rs148333147		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:49166717C>A	uc003cwe.2	-	12	1858	c.1559G>T	c.(1558-1560)CGC>CTC	p.R520L	LAMB2_uc003cwf.1_Missense_Mutation_p.R520L	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	520	Laminin EGF-like 4.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GTCACAGGGGCGGCAGCCGAG	0.622													12	10	---	---	---	---	PASS	A	49166717	A	A	49166717	3	1	172	1	0	0	0	0	1	0	0	0	8611	768	27	1	3921	1	LAMB2	3	49166717	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	2751550	49166717	148855713	84	61344										
BSN	8927	broad.mit.edu	37	chr3	49693933	49693933	+	Frame_Shift_Del	DEL	C	-	-													0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agagcctcttcccacaaccaCccctgctgccatcaaggagg							TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:49693933delC	uc003cxe.3	+	5	7058	c.6944delC	c.(6943-6945)ACCfs	p.T2315fs		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2315					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CCCACAACCACCCCTGCTGCC	0.677													8	4	---	---	---	---		-	49693933	-	-	49693933	7	5	172	1	0	1	0	1	0	0	0	0	1530	507	18	0	6962	0	BSN	3	49693933	Frame_Shift_Del	DEL	C	TCGA-66-2795-01A-02D-0983-08	527216	49693933	148328497	85	61345										
DOCK3	1795	broad.mit.edu	37	chr3	51265418	51265418	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tggctctgattacagcaaagGacaaaggggaaaagaaactc	11	7	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:51265418G>T	uc011bds.1	+	17	1569	c.1546G>T	c.(1546-1548)GAC>TAC	p.D516Y		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	516	DHR-1.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		TACAGCAAAGGACAAAGGGGA	0.428													16	15	---	---	---	---	PASS	T	51265418	T	T	51265418	3	4	172	1	0	0	0	0	1	0	0	0	4688	1174	41	2	1612	2	DOCK3	3	51265418	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1571485	51265418	146757012	86	61346										
SPCS1	28972	broad.mit.edu	37	chr3	52740666	52740666	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctgcttcaccccaggattacAagggccagaagctagctgaa	10	12	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:52740666A>T	uc011bei.1	+	2	449	c.244A>T	c.(244-246)AAG>TAG	p.K82*	GLT8D1_uc003dfj.2_5'Flank|GLT8D1_uc003dfk.2_5'Flank|GLT8D1_uc003dfl.2_5'Flank|GLT8D1_uc003dfm.2_5'Flank|GLT8D1_uc003dfn.2_5'Flank|GLT8D1_uc003dfo.1_5'Flank|GLT8D1_uc010hmm.1_5'Flank	NM_014041	NP_054760	Q9Y6A9	SPCS1_HUMAN	signal peptidase complex subunit 1 homolog	82	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion|signal peptide processing	integral to endoplasmic reticulum membrane|microsome|signal peptidase complex	peptidase activity				0				BRCA - Breast invasive adenocarcinoma(193;6.51e-05)|Kidney(197;0.000583)|KIRC - Kidney renal clear cell carcinoma(197;0.000751)|OV - Ovarian serous cystadenocarcinoma(275;0.0469)		CCAGGATTACAAGGGCCAGAA	0.478													15	19	---	---	---	---	PASS	T	52740666	T	T	52740666	4	4	172	1	0	0	0	0	0	1	0	0	15022	131	5	5	250	5	SPCS1	3	52740666	Nonsense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	1475248	52740666	145281764	87	61347										
ADAMTS9	56999	broad.mit.edu	37	chr3	64636807	64636807	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcttaactccttcttctttaCatttgttgttgtcatcatga	4	9	5	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:64636807C>A	uc003dmg.2	-	9	1381	c.1349G>T	c.(1348-1350)TGT>TTT	p.C450F	ADAMTS9_uc011bfo.1_Missense_Mutation_p.C422F|ADAMTS9_uc003dmh.1_Missense_Mutation_p.C279F|ADAMTS9_uc003dmk.1_Missense_Mutation_p.C450F	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	450	Peptidase M12B.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		TTCTTCTTTACATTTGTTGTT	0.408													6	33	---	---	---	---	PASS	A	64636807	A	A	64636807	3	1	172	1	0	0	0	0	1	0	0	0	273	478	17	3	4582	3	ADAMTS9	3	64636807	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	11896141	64636807	133385623	88	61348										
CRYBG3	131544	broad.mit.edu	37	chr3	97596805	97596805	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agaaaaaggagccagatttgGtggaatttttcaggaaccag	12	5	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:97596805G>T	uc003drx.2	+	1	987	c.923G>T	c.(922-924)GGT>GTT	p.G308V		NM_153605	NP_705833			beta-gamma crystallin domain containing 3												0						GCCAGATTTGGTGGAATTTTT	0.373													15	55	---	---	---	---	PASS	T	97596805	T	T	97596805	3	4	172	1	0	0	0	0	1	0	0	0	3913	1261	44	3	925	3	CRYBG3	3	97596805	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	32959998	97596805	100425625	89	61349										
OR5K1	26339	broad.mit.edu	37	chr3	98189081	98189081	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcttaatatcttatctctatAttcttcttactattttcaaa	0	8	6	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:98189081A>G	uc003dsm.2	+	1	661	c.661A>G	c.(661-663)ATT>GTT	p.I221V		NM_001004736	NP_001004736	Q8NHB7	OR5K1_HUMAN	olfactory receptor, family 5, subfamily K,	221	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)	1						TTATCTCTATATTCTTCTTAC	0.348													19	65	---	---	---	---	PASS	G	98189081	G	G	98189081	3	3	172	1	0	0	0	0	1	0	0	0	11166	449	16	5	663	5	OR5K1	3	98189081	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	592276	98189081	99833349	90	61350										
ABI3BP	25890	broad.mit.edu	37	chr3	100523636	100523636	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	acatgaaataaagcatttacCaggtgtggtgtatgacactt	9	6	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:100523636C>A	uc003dun.2	-	20	1832	c.1747G>T	c.(1747-1749)GCT>TCT	p.A583S	ABI3BP_uc003duj.2_Missense_Mutation_p.A138S|ABI3BP_uc003duk.2_Missense_Mutation_p.A267S|ABI3BP_uc003dul.2_Missense_Mutation_p.A388S|ABI3BP_uc011bhd.1_Missense_Mutation_p.A537S|ABI3BP_uc003dum.2_5'UTR	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	583	Pro-rich.					extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						AAGCATTTACCAGGTGTGGTG	0.418													28	34	---	---	---	---	PASS	A	100523636	A	A	100523636	3	1	172	1	0	0	0	0	1	0	0	0	91	608	21	3	1544	3	ABI3BP	3	100523636	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	2334555	100523636	97498794	91	61351										
FBXO40	51725	broad.mit.edu	37	chr3	121345583	121345583	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttctccaaaatcaagagctgGgagtttaatgaagtcacctc	8	9	3	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:121345583G>T	uc003eeg.2	+	4	2166	c.1956G>T	c.(1954-1956)TGG>TGT	p.W652C		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	652					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		TCAAGAGCTGGGAGTTTAATG	0.453													9	207	---	---	---	---	PASS	T	121345583	T	T	121345583	3	4	172	1	0	0	0	0	1	0	0	0	5749	1241	43	3	1966	3	FBXO40	3	121345583	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	20821947	121345583	76676847	92	61352										
KALRN	8997	broad.mit.edu	37	chr3	124281726	124281726	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agctgacagtggtcctccagGacttcagtgcgggccacagc	13	13	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:124281726G>T	uc003ehg.2	+	34	5093	c.4966G>T	c.(4966-4968)GAC>TAC	p.D1656Y	KALRN_uc003ehi.2_Missense_Mutation_p.D29Y	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1656	SH3 1.				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						GGTCCTCCAGGACTTCAGTGC	0.493													4	13	---	---	---	---	PASS	T	124281726	T	T	124281726	3	4	172	1	0	0	0	0	1	0	0	0	7975	1174	41	2	5167	2	KALRN	3	124281726	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2936143	124281726	73740704	93	61353										
HEG1	57493	broad.mit.edu	37	chr3	124738123	124738123	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cactcgaacgttctccacgtGgtgctgatgaattcaagctt	9	11	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:124738123G>T	uc003ehs.3	-	5	1639	c.1571C>A	c.(1570-1572)CCA>CAA	p.P524Q	HEG1_uc011bke.1_Missense_Mutation_p.P524Q	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	524	Extracellular (Potential).|Ser-rich.					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						TTCTCCACGTGGTGCTGATGA	0.443													5	99	---	---	---	---	PASS	T	124738123	T	T	124738123	3	4	172	1	0	0	0	0	1	0	0	0	7044	1348	47	3	2626	3	HEG1	3	124738123	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	456397	124738123	73284307	94	61354										
DBR1	51163	broad.mit.edu	37	chr3	137880959	137880959	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atcatagagcctggcaagatCctgacatcagagaaacttgc	9	10	2	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:137880959C>A	uc003erv.2	-	8	1543	c.1407G>T	c.(1405-1407)AGG>AGT	p.R469S	DBR1_uc003eru.2_Missense_Mutation_p.R418S|DBR1_uc003ert.2_Missense_Mutation_p.R237S	NM_016216	NP_057300	Q9UK59	DBR1_HUMAN	debranching enzyme homolog 1	469						nucleus	metal ion binding|RNA lariat debranching enzyme activity				0						CTGGCAAGATCCTGACATCAG	0.443													47	96	---	---	---	---	PASS	A	137880959	A	A	137880959	3	1	172	1	0	0	0	0	1	0	0	0	4257	854	30	2	231	2	DBR1	3	137880959	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	13142836	137880959	60141471	95	61355										
CLSTN2	64084	broad.mit.edu	37	chr3	140122641	140122641	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	actgtggtgctgggccccacGagacagcctggaaaaagtca	13	11	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:140122641G>T	uc003etn.2	+	3	593	c.403G>T	c.(403-405)GAG>TAG	p.E135*	CLSTN2_uc003etm.2_Nonsense_Mutation_p.E135*	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	135	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						TGGGCCCCACGAGACAGCCTG	0.592										HNSCC(16;0.037)			22	77	---	---	---	---	PASS	T	140122641	T	T	140122641	4	4	172	1	0	0	0	0	0	1	0	0	3562	1059	37	2	413	2	CLSTN2	3	140122641	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2241682	140122641	57899789	96	61356										
CPA3	1359	broad.mit.edu	37	chr3	148586807	148586807	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccatccagtctgccttggatCaaaataaaatgcactatgag	7	10	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:148586807C>A	uc003ewm.2	+	3	302	c.250C>A	c.(250-252)CAA>AAA	p.Q84K		NM_001870	NP_001861	P15088	CBPA3_HUMAN	carboxypeptidase A3 precursor	84					proteolysis	stored secretory granule|transport vesicle	metallocarboxypeptidase activity|zinc ion binding			breast(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			TGCCTTGGATCAAAATAAAAT	0.418													57	56	---	---	---	---	PASS	A	148586807	A	A	148586807	3	1	172	1	0	0	0	0	1	0	0	0	3791	827	29	2	260	2	CPA3	3	148586807	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	8464166	148586807	49435623	97	61357										
IGSF10	285313	broad.mit.edu	37	chr3	151161171	151161171	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gttttaaactttcaccccaaGtgcctacaatgacttgcctc	5	13	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:151161171G>T	uc011bod.1	-	5	5564	c.5564C>A	c.(5563-5565)ACT>AAT	p.T1855N	IGSF10_uc011bob.1_5'Flank|IGSF10_uc011boc.1_5'Flank	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1855	Ig-like C2-type 5.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TTCACCCCAAGTGCCTACAAT	0.488													20	71	---	---	---	---	PASS	T	151161171	T	T	151161171	3	4	172	1	0	0	0	0	1	0	0	0	7597	1029	36	3	2363	3	IGSF10	3	151161171	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2574364	151161171	46861259	98	61358										
VEPH1	79674	broad.mit.edu	37	chr3	157099055	157099055	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctctgagggcccaagattgaGgagaaggtgtcggtgatgct	16	7	1	5			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:157099055G>T	uc003fbj.1	-	7	1334	c.1017C>A	c.(1015-1017)TCC>TCA	p.S339S	VEPH1_uc003fbk.1_Silent_p.S339S|VEPH1_uc010hvu.1_Silent_p.S339S	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	339						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			CCAAGATTGAGGAGAAGGTGT	0.512													7	136	---	---	---	---	PASS	T	157099055	T	T	157099055	2	4	172	1	0	0	0	0	0	0	0	1	17151	987	35	3		3	VEPH1	3	157099055	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	5937884	157099055	40923375	99	61359										
RSRC1	51319	broad.mit.edu	37	chr3	157841731	157841731	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaagtcgttcaaggggtcgaGggaaatcctatagagttcag	14	6	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:157841731G>C	uc003fbt.2	+	3	382	c.271G>C	c.(271-273)GGG>CGG	p.G91R	RSRC1_uc011bou.1_Missense_Mutation_p.G91R|RSRC1_uc003fbu.1_Missense_Mutation_p.G91R|RSRC1_uc003fbv.2_Missense_Mutation_p.G91R	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	91	Arg/Ser-rich.				nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			AAGGGGTCGAGGGAAATCCTA	0.343													92	74	---	---	---	---	PASS	C	157841731	C	C	157841731	3	2	172	1	0	0	0	0	1	0	0	0	13714	1000	35	4	277	4	RSRC1	3	157841731	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	742676	157841731	40180699	100	61360										
IQCJ	654502	broad.mit.edu	37	chr3	158983023	158983023	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtttgccagggcccctgttgGgaagattcatccttacatct	10	11	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:158983023G>T	uc003fcp.1	+	5	416	c.311G>T	c.(310-312)GGG>GTG	p.G104V	SCHIP1_uc003fcq.1_Intron|SCHIP1_uc003fcr.1_Intron|IQCJ_uc010hvy.1_Missense_Mutation_p.G77V	NM_001042705	NP_001036170	Q1A5X6	IQCJ_HUMAN	IQ motif containing J isoform CaMBPv1	104											0			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			GCCCCTGTTGGGAAGATTCAT	0.448													8	267	---	---	---	---	PASS	T	158983023	T	T	158983023	3	4	172	1	0	0	0	0	1	0	0	0	7812	1232	43	3	377	3	IQCJ	3	158983023	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1141292	158983023	39039407	101	61361										
SI	6476	broad.mit.edu	37	chr3	164709970	164709970	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tccttaaatacttactgtatGgtagtcaaaccaccgagcat	6	10	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:164709970G>T	uc003fei.2	-	43	5040	c.4978C>A	c.(4978-4980)CAT>AAT	p.H1660N		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1660	Sucrase.|Lumenal.				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)	CTTACTGTATGGTAGTCAAAC	0.353										HNSCC(35;0.089)			7	217	---	---	---	---	PASS	T	164709970	T	T	164709970	3	4	172	1	0	0	0	0	1	0	0	0	14297	1348	47	3	529	3	SI	3	164709970	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	5726947	164709970	33312460	102	61362										
MYNN	55892	broad.mit.edu	37	chr3	169501285	169501285	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtgaaaaaccatacatatgtGgtatttgtgggaaaagtttt	10	3	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:169501285G>T	uc003fft.2	+	6	1849	c.1420G>T	c.(1420-1422)GGT>TGT	p.G474C	MYNN_uc011bpm.1_Missense_Mutation_p.G360C|MYNN_uc003ffu.2_Missense_Mutation_p.G474C|MYNN_uc003ffv.2_Missense_Mutation_p.G201C|MYNN_uc010hwo.2_Missense_Mutation_p.G474C|MYNN_uc003ffw.1_RNA	NM_018657	NP_061127	Q9NPC7	MYNN_HUMAN	myoneurin	474	C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;2.19e-58)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			ATACATATGTGGTATTTGTGG	0.333													6	151	---	---	---	---	PASS	T	169501285	T	T	169501285	3	4	172	1	0	0	0	0	1	0	0	0	10061	1348	47	3	1438	3	MYNN	3	169501285	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	4791315	169501285	28521145	103	61363										
PLD1	5337	broad.mit.edu	37	chr3	171406667	171406667	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgatccgggtgtctcatcacCttgagagggaataatcccca	10	11	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:171406667C>G	uc003fhs.2	-	14	1455	c.1339_splice	c.e14-1	p.V447_splice	PLD1_uc003fht.2_Splice_Site_p.V447_splice	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a						cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	GTCTCATCACCTTGAGAGGGA	0.438													4	60	---	---	---	---	PASS	G	171406667	G	G	171406667	5	3	172	1	0	0	0	0	0	0	1	0	12045	695	24	4	1942	4	PLD1	3	171406667	Splice_Site	SNP	C	TCGA-66-2795-01A-02D-0983-08	1905382	171406667	26615763	104	61364										
PLD1	5337	broad.mit.edu	37	chr3	171427430	171427430	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aagttggtgccatgtttctgGatgaattcttctatagcccc	9	9	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:171427430G>A	uc003fhs.2	-	10	1097	c.981C>T	c.(979-981)ATC>ATT	p.I327I	PLD1_uc003fht.2_Silent_p.I327I	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	327	PH.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	CATGTTTCTGGATGAATTCTT	0.368													23	123	---	---	---	---	PASS	A	171427430	A	A	171427430	2	1	172	1	0	0	0	0	0	0	0	1	12045	1164	41	2		2	PLD1	3	171427430	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	20763	171427430	26595000	105	61365										
TTC14	151613	broad.mit.edu	37	chr3	180327705	180327705	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	actactggggaagcaggataGgttacagtatgaaaagacac	12	6	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:180327705G>T	uc003fkk.2	+	12	1820	c.1688G>T	c.(1687-1689)AGG>ATG	p.R563M	TTC14_uc003fkl.2_3'UTR|TTC14_uc003fkm.2_Missense_Mutation_p.R563M	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	563							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AAGCAGGATAGGTTACAGTAT	0.398													9	374	---	---	---	---	PASS	T	180327705	T	T	180327705	3	4	172	1	0	0	0	0	1	0	0	0	16678	1000	35	3	1764	3	TTC14	3	180327705	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	8900275	180327705	17694725	106	61366										
ATP11B	23200	broad.mit.edu	37	chr3	182553841	182553841	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agggatatgaagattggttaCggcataactcagataatgaa	11	4	1	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:182553841C>T	uc003flb.2	+	5	591	c.334C>T	c.(334-336)CGG>TGG	p.R112W	ATP11B_uc003fla.2_Missense_Mutation_p.R112W	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	112	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			AGATTGGTTACGGCATAACTC	0.308													30	72	---	---	---	---	PASS	T	182553841	T	T	182553841	3	4	172	1	0	0	0	0	1	0	0	0	1120	527	19	1	352	1	ATP11B	3	182553841	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	2226136	182553841	15468589	107	61367										
EPHB3	2049	broad.mit.edu	37	chr3	184294818	184294818	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	acaacgtggagtttgtgcctCggcagctgggcctgacggag	16	10	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr3:184294818C>A	uc003foz.2	+	5	1638	c.1201C>A	c.(1201-1203)CGG>AGG	p.R401R		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	401	Fibronectin type-III 1.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			GTTTGTGCCTCGGCAGCTGGG	0.627													5	161	---	---	---	---	PASS	A	184294818	A	A	184294818	2	1	172	1	0	0	0	0	0	0	0	1	5176	875	31	2		2	EPHB3	3	184294818	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	1740977	184294818	13727612	108	61368										
MSX1	4487	broad.mit.edu	37	chr4	4864840	4864840	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtgggactctacacggcccaTgtgggctacagcatgtacca	12	12	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:4864840T>C	uc003gif.2	+	2	1117	c.882T>C	c.(880-882)CAT>CAC	p.H294H		NM_002448	NP_002439	P28360	MSX1_HUMAN	msh homeobox 1	288					apoptotic nuclear change|face morphogenesis|negative regulation of cell growth|odontogenesis of dentine-containing tooth|positive regulation of apoptosis|protein localization to nucleus|protein stabilization	nucleus	p53 binding|sequence-specific DNA binding transcription factor activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		ACACGGCCCATGTGGGCTACA	0.697													3	7	---	---	---	---	PASS	C	4864840	C	C	4864840	2	2	172	1	0	0	0	0	0	0	0	1	9895	1461	51	5		5	MSX1	4	4864840	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08		4864840	186289436	109	61369										
CPZ	8532	broad.mit.edu	37	chr4	8607752	8607752	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gctcatcggcaacattcatgGcaacgaggtggcgggccggg	16	11	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:8607752G>A	uc003glm.2	+	5	872	c.746G>A	c.(745-747)GGC>GAC	p.G249D	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Missense_Mutation_p.G112D|CPZ_uc003glo.2_Missense_Mutation_p.G238D|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	249					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						AACATTCATGGCAACGAGGTG	0.602													9	16	---	---	---	---	PASS	A	8607752	A	A	8607752	3	1	172	1	0	0	0	0	1	0	0	0	3839	1203	42	3	764	3	CPZ	4	8607752	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	3742912	8607752	182546524	110	61370										
ATP8A1	10396	broad.mit.edu	37	chr4	42487624	42487624	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	caattataagagcaaaatcaTtctctttccggagagcatca	6	9	3	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:42487624T>A	uc003gwr.2	-	25	2445	c.2213A>T	c.(2212-2214)AAT>ATT	p.N738I	ATP8A1_uc003gwq.2_Intron|ATP8A1_uc003gws.2_Missense_Mutation_p.N723I	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	738	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	AGCAAAATCATTCTCTTTCCG	0.408													14	15	---	---	---	---	PASS	A	42487624	A	A	42487624	3	1	172	1	0	0	0	0	1	0	0	0	1192	1493	52	5	1333	5	ATP8A1	4	42487624	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	33879872	42487624	148666652	111	61371										
FRAS1	80144	broad.mit.edu	37	chr4	79403008	79403008	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtactgacctctctactttcGcatctgtctggtgtgcaacg	9	12	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:79403008G>C	uc003hlb.2	+	57	8934	c.8494G>C	c.(8494-8496)GCA>CCA	p.A2832P		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	2827	Calx-beta 3.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						CTCTACTTTCGCATCTGTCTG	0.488													50	88	---	---	---	---	PASS	C	79403008	C	C	79403008	3	2	172	1	0	0	0	0	1	0	0	0	6042	1087	38	4	8795	4	FRAS1	4	79403008	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	36915384	79403008	111751268	112	61372										
SMARCAD1	56916	broad.mit.edu	37	chr4	95162117	95162117	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gccatatgaggaagatgaatTtaatgatgatcaatctataa	8	4	2	5			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:95162117T>A	uc003htc.3	+	6	920	c.665T>A	c.(664-666)TTT>TAT	p.F222Y	SMARCAD1_uc003htb.3_Missense_Mutation_p.F222Y|SMARCAD1_uc003htd.3_Missense_Mutation_p.F222Y|SMARCAD1_uc010ila.2_Missense_Mutation_p.F85Y	NM_020159	NP_064544	Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated	222					chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		GAAGATGAATTTAATGATGAT	0.358													8	11	---	---	---	---	PASS	A	95162117	A	A	95162117	3	1	172	1	0	0	0	0	1	0	0	0	14772	1841	64	5	683	5	SMARCAD1	4	95162117	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	15759109	95162117	95992159	113	61373										
MANBA	4126	broad.mit.edu	37	chr4	103644062	103644062	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgacatggcattcacccttcTgcacaagtggagggcagtct	11	11	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:103644062T>C	uc003hwg.2	-	4	615	c.515A>G	c.(514-516)CAG>CGG	p.Q172R	MANBA_uc011ces.1_Intron	NM_005908	NP_005899	O00462	MANBA_HUMAN	mannosidase, beta A, lysosomal precursor	172					carbohydrate metabolic process|protein modification process	lysosome	beta-mannosidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;4.44e-08)		TTCACCCTTCTGCACAAGTGG	0.512													19	19	---	---	---	---	PASS	C	103644062	C	C	103644062	3	2	172	1	0	0	0	0	1	0	0	0	9219	1580	55	5	2180	5	MANBA	4	103644062	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	8481945	103644062	87510214	114	61374										
NHEDC1	150159	broad.mit.edu	37	chr4	103822328	103822328	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	attttgcttggatcataatgGcgtgtaagcattttaggccc	10	7	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:103822328G>C	uc003hww.2	-	12	1616	c.1494C>G	c.(1492-1494)CGC>CGG	p.R498R	NHEDC1_uc003hwu.2_Intron|NHEDC1_uc010ilm.2_Intron|NHEDC1_uc003hwv.2_Intron|NHEDC1_uc011cev.1_Silent_p.R271R	NM_139173	NP_631912	Q4ZJI4	NHDC1_HUMAN	Na+/H+ exchanger domain containing 1 isoform 1	498						integral to membrane	solute:hydrogen antiporter activity			ovary(1)|skin(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;1.5e-08)		GATCATAATGGCGTGTAAGCA	0.378													5	127	---	---	---	---	PASS	C	103822328	C	C	103822328	2	2	172	1	0	0	0	0	0	0	0	1	10400	1190	42	4		4	NHEDC1	4	103822328	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	178266	103822328	87331948	115	61375										
ENPEP	2028	broad.mit.edu	37	chr4	111482595	111482595	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttgcaaaatatccacaagctGgagcaggagaaaaacctagg	10	8	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:111482595G>T	uc003iab.3	+	20	3097	c.2755G>T	c.(2755-2757)GGA>TGA	p.G919*		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	919	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	TCCACAAGCTGGAGCAGGAGA	0.358													4	28	---	---	---	---	PASS	T	111482595	T	T	111482595	4	4	172	1	0	0	0	0	0	1	0	0	5128	1349	47	3	2833	3	ENPEP	4	111482595	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	7660267	111482595	79671681	116	61376										
UGT8	7368	broad.mit.edu	37	chr4	115585164	115585164	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tttacaggatctccaaagatGggtaaatggtgctaatgaac	10	6	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:115585164G>T	uc003ibs.2	+	3	1358	c.836G>T	c.(835-837)TGG>TTG	p.W279L	UGT8_uc003ibt.2_Missense_Mutation_p.W279L|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	279					central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		CTCCAAAGATGGGTAAATGGT	0.388													34	47	---	---	---	---	PASS	T	115585164	T	T	115585164	3	4	172	1	0	0	0	0	1	0	0	0	16962	1357	47	3	842	3	UGT8	4	115585164	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	4102569	115585164	75569112	117	61377										
ADAD1	132612	broad.mit.edu	37	chr4	123317446	123317446	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgcaaagatttcacagatcgTtaaagaaagatttaatcaac	6	6	2	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:123317446T>C	uc003ieo.2	+	7	870	c.638T>C	c.(637-639)GTT>GCT	p.V213A	ADAD1_uc003iep.2_Missense_Mutation_p.V213A|ADAD1_uc003ieq.2_Missense_Mutation_p.V195A	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	213					multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						TCACAGATCGTTAAAGAAAGA	0.308													13	20	---	---	---	---	PASS	C	123317446	C	C	123317446	3	2	172	1	0	0	0	0	1	0	0	0	231	1725	60	5	656	5	ADAD1	4	123317446	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	7732282	123317446	67836830	118	61378										
DCHS2	54798	broad.mit.edu	37	chr4	155411481	155411481	+	Frame_Shift_Del	DEL	C	-	-													0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgccccgccgccgctacccgCcccaggcacttgccgggcgc							TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:155411481delC	uc003inx.2	-	1	1397	c.1027delG	c.(1027-1029)GCGfs	p.A343fs	DCHS2_uc011cik.1_Frame_Shift_Del_p.A343fs	NM_001142552	NP_001136024	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 2	1312	Cadherin 11.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CCGCTACCCGCCCCAGGCACT	0.746													4	2	---	---	---	---		-	155411481	-	-	155411481	7	5	172	1	0	1	0	1	0	0	0	0	4288	739	26	0	10057	0	DCHS2	4	155411481	Frame_Shift_Del	DEL	C	TCGA-66-2795-01A-02D-0983-08	32094035	155411481	35742795	119	61379										
TKTL2	84076	broad.mit.edu	37	chr4	164393684	164393684	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gctcccattcggagctgatcGaatgctctagtaaaaaaggc	10	10	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:164393684G>A	uc003iqp.3	-	1	1364	c.1203C>T	c.(1201-1203)TTC>TTT	p.F401F		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	401						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				GGAGCTGATCGAATGCTCTAG	0.488													11	14	---	---	---	---	PASS	A	164393684	A	A	164393684	2	1	172	1	0	0	0	0	0	0	0	1	15933	1049	37	2		2	TKTL2	4	164393684	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	8982203	164393684	26760592	120	61380										
MORF4	10934	broad.mit.edu	37	chr4	174537470	174537470	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agatttcttgtaatttgcatAgtcctcaagaatggaatcca	7	7	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:174537470A>T	uc011cke.1	-	1	325	c.325T>A	c.(325-327)TAT>AAT	p.Y109N		NM_006792	NP_006783			mortality factor 4												0		Prostate(90;0.00201)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0765)|all_hematologic(60;0.107)		all cancers(43;1.88e-18)|Epithelial(43;1.19e-16)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		TAATTTGCATAGTCCTCAAGA	0.393													57	75	---	---	---	---	PASS	T	174537470	T	T	174537470	3	4	172	1	0	0	0	0	1	0	0	0	9705	420	15	5	385	5	MORF4	4	174537470	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	10143786	174537470	16616806	121	61381										
GPM6A	2823	broad.mit.edu	37	chr4	176622806	176622806	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atgttgacagttccagaaagCgcttcatgaccgcagccaca	9	12	1	3	rs144181937		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr4:176622806C>T	uc003iuf.2	-	2	954	c.150G>A	c.(148-150)GCG>GCA	p.A50A	GPM6A_uc011ckj.1_Silent_p.A43A|GPM6A_uc003iug.2_Silent_p.A50A|GPM6A_uc003iuh.2_Silent_p.A39A	NM_201591	NP_963885	P51674	GPM6A_HUMAN	glycoprotein M6A isoform 2	50	Extracellular (Potential).					cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)		TTCCAGAAAGCGCTTCATGAC	0.493													26	44	---	---	---	---	PASS	T	176622806	T	T	176622806	2	4	172	1	0	0	0	0	0	0	0	1	6615	755	27	1		1	GPM6A	4	176622806	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	2085336	176622806	14531470	122	61382										
NSUN2	54888	broad.mit.edu	37	chr5	6620317	6620317	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atgctggaggcatcatggttGaccaccatgatgcaggggct	14	9	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:6620317G>C	uc003jdu.2	-	7	782	c.717C>G	c.(715-717)GTC>GTG	p.V239V	NSUN2_uc003jdt.2_Silent_p.V3V|NSUN2_uc011cmk.1_Silent_p.V204V|NSUN2_uc003jdv.2_Silent_p.V3V	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	239						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						CATCATGGTTGACCACCATGA	0.507													11	83	---	---	---	---	PASS	C	6620317	C	C	6620317	2	2	172	1	0	0	0	0	0	0	0	1	10678	1277	45	2		2	NSUN2	5	6620317	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08		6620317	174294943	123	61383										
MARCH6	10299	broad.mit.edu	37	chr5	10382034	10382034	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttgtggcctttgcatggttgGgagttgttcctcttacagca	12	8	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:10382034G>T	uc003jet.1	+	4	496	c.313G>T	c.(313-315)GGA>TGA	p.G105*	MARCH6_uc011cmu.1_Intron|MARCH6_uc003jeu.1_5'UTR|MARCH6_uc011cmv.1_Intron	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	105	Helical; (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						TGCATGGTTGGGAGTTGTTCC	0.363													7	170	---	---	---	---	PASS	T	10382034	T	T	10382034	4	4	172	1	0	0	0	0	0	1	0	0	9305	1233	43	3	327	3	MARCH6	5	10382034	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	3761717	10382034	170533226	124	61384										
CTNND2	1501	broad.mit.edu	37	chr5	11159741	11159741	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gatgaatgcagctgtattttCcgatcatcctgaagaggcga	11	8	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:11159741C>T	uc003jfa.1	-	12	2251	c.2106G>A	c.(2104-2106)CGG>CGA	p.R702R	CTNND2_uc010itt.2_Silent_p.R611R|CTNND2_uc011cmy.1_Silent_p.R365R|CTNND2_uc011cmz.1_Silent_p.R269R|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Silent_p.R269R	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	702	ARM 5.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GCTGTATTTTCCGATCATCCT	0.552													44	58	---	---	---	---	PASS	T	11159741	T	T	11159741	2	4	172	1	0	0	0	0	0	0	0	1	4020	842	30	2		2	CTNND2	5	11159741	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	777707	11159741	169755519	125	61385										
CDH9	1007	broad.mit.edu	37	chr5	26902777	26902777	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggtgtaagaatcgtggatcaGggtgagtgttacttgcatcc	14	6	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:26902777G>T	uc003jgs.1	-	7	1230	c.1061C>A	c.(1060-1062)CCT>CAT	p.P354H		NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	354	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TCGTGGATCAGGGTGAGTGTT	0.358													18	29	---	---	---	---	PASS	T	26902777	T	T	26902777	3	4	172	1	0	0	0	0	1	0	0	0	3117	1000	35	3	1332	3	CDH9	5	26902777	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	15743036	26902777	154012483	126	61386										
RNASEN	29102	broad.mit.edu	37	chr5	31521266	31521266	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	actcttttttgtaggaccttTccagagatggtgatcttcgg	10	8	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:31521266T>G	uc003jhg.2	-	5	1270	c.911A>C	c.(910-912)GAA>GCA	p.E304A	RNASEN_uc003jhh.2_Missense_Mutation_p.E304A|RNASEN_uc003jhi.2_Missense_Mutation_p.E304A|RNASEN_uc010iui.1_Intron	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	304	Arg-rich.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						GTAGGACCTTTCCAGAGATGG	0.413													58	164	---	---	---	---	PASS	G	31521266	G	G	31521266	3	3	172	1	0	0	0	0	1	0	0	0	13417	1783	62	5	3337	5	RNASEN	5	31521266	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	4618489	31521266	149393994	127	61387										
HEATR7B2	133558	broad.mit.edu	37	chr5	41018458	41018458	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cttacctcaatatcatttgtCagcactttcgcagtgatctg	6	11	4	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:41018458C>G	uc003jmj.3	-	27	3238	c.2748G>C	c.(2746-2748)CTG>CTC	p.L916L	HEATR7B2_uc003jmi.3_Silent_p.L471L	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	916							binding			ovary(6)|central_nervous_system(2)	8						TATCATTTGTCAGCACTTTCG	0.403													11	18	---	---	---	---	PASS	G	41018458	G	G	41018458	2	3	172	1	0	0	0	0	0	0	0	1	7035	813	29	2		2	HEATR7B2	5	41018458	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	9497192	41018458	139896802	128	61388										
HCN1	348980	broad.mit.edu	37	chr5	45267343	45267343	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cagtacgacgtcctttggtcAgcaggcaaatctctataaaa	8	10	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:45267343A>T	uc003jok.2	-	7	1656	c.1631T>A	c.(1630-1632)CTG>CAG	p.L544Q		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	544	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TCCTTTGGTCAGCAGGCAAAT	0.393													18	48	---	---	---	---	PASS	T	45267343	T	T	45267343	3	4	172	1	0	0	0	0	1	0	0	0	6996	188	7	5	1049	5	HCN1	5	45267343	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	4248885	45267343	135647917	129	61389										
GPBP1	65056	broad.mit.edu	37	chr5	56557016	56557016	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctccttttcagattgttaaaGgaaatgggctggcaggaaga	12	6	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:56557016G>T	uc003jrh.3	+	11	2444	c.1170G>T	c.(1168-1170)AAG>AAT	p.K390N	GPBP1_uc010iwg.2_Missense_Mutation_p.K410N|GPBP1_uc003jri.3_Missense_Mutation_p.K219N|GPBP1_uc003jrj.3_Missense_Mutation_p.K382N|GPBP1_uc003jrk.3_Missense_Mutation_p.K397N|GPBP1_uc003jrl.3_RNA	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	390					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		GATTGTTAAAGGAAATGGGCT	0.358													5	69	---	---	---	---	PASS	T	56557016	T	T	56557016	3	4	172	1	0	0	0	0	1	0	0	0	6595	991	35	3	1229	3	GPBP1	5	56557016	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	11289673	56557016	124358244	130	61390										
IPO11	51194	broad.mit.edu	37	chr5	61923053	61923053	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agaagctcaaggcacagcagGagatgctaggagaacaaggt	14	7	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:61923053G>A	uc003jtc.2	+	30	3026	c.2836G>A	c.(2836-2838)GAG>AAG	p.E946K	IPO11_uc011cqr.1_Missense_Mutation_p.E986K|IPO11_uc010iwr.2_3'UTR|IPO11_uc003jte.2_Missense_Mutation_p.E65K	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	946						cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		GGCACAGCAGGAGATGCTAGG	0.502													14	45	---	---	---	---	PASS	A	61923053	A	A	61923053	3	1	172	1	0	0	0	0	1	0	0	0	7793	1175	41	2	3074	2	IPO11	5	61923053	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	5366037	61923053	118992207	131	61391										
SFRS12	140890	broad.mit.edu	37	chr5	65470820	65470820	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gttcttccagatcgccaagaAcatcaaaaaccataaaaagg	6	10	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:65470820A>G	uc003juo.2	+	11	1843	c.1183A>G	c.(1183-1185)ACA>GCA	p.T395A	SFRS12_uc003jun.2_Missense_Mutation_p.T511A|SFRS12_uc010iwy.2_Missense_Mutation_p.T395A	NM_139168	NP_631907	Q8WXA9	SREK1_HUMAN	splicing factor, arginine/serine-rich 12 isoform	395	Arg/Glu/Lys/Ser-rich.				mRNA processing|RNA splicing	spliceosomal complex	nucleic acid binding|nucleotide binding|protein binding				0		Lung NSC(167;9.34e-06)|Prostate(74;0.00187)|Ovarian(174;0.0545)|Breast(144;0.0928)|Colorectal(97;0.234)		Lung(70;0.00449)		ATCGCCAAGAACATCAAAAAC	0.393													6	20	---	---	---	---	PASS	G	65470820	G	G	65470820	3	3	172	1	0	0	0	0	1	0	0	0	14167	43	2	5	1569	5	SFRS12	5	65470820	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	3547767	65470820	115444440	132	61392										
VCAN	1462	broad.mit.edu	37	chr5	82841392	82841392	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aatgaacccgtgccttaacgGaggcacctgttatcctactg	9	12	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:82841392G>T	uc003kii.3	+	9	9658	c.9302G>T	c.(9301-9303)GGA>GTA	p.G3101V	VCAN_uc003kij.3_Missense_Mutation_p.G2114V|VCAN_uc010jau.2_Missense_Mutation_p.G1347V|VCAN_uc003kik.3_Missense_Mutation_p.G360V|VCAN_uc003kil.3_Missense_Mutation_p.G1765V	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3101	EGF-like 1.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TGCCTTAACGGAGGCACCTGT	0.458													82	152	---	---	---	---	PASS	T	82841392	T	T	82841392	3	4	172	1	0	0	0	0	1	0	0	0	17135	1174	41	2	9332	2	VCAN	5	82841392	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	17370572	82841392	98073868	133	61393										
VCAN	1462	broad.mit.edu	37	chr5	82875859	82875859	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctttggaaagatgaaacctcGttatgaaatcaactccctga	7	9	1	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:82875859G>T	uc003kii.3	+	14	10297	c.9941G>T	c.(9940-9942)CGT>CTT	p.R3314L	VCAN_uc003kij.3_Missense_Mutation_p.R2327L|VCAN_uc010jau.2_Missense_Mutation_p.R1560L|VCAN_uc003kik.3_Missense_Mutation_p.R573L|VCAN_uc003kil.3_Missense_Mutation_p.R1978L	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3314	Sushi.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ATGAAACCTCGTTATGAAATC	0.423													19	64	---	---	---	---	PASS	T	82875859	T	T	82875859	3	4	172	1	0	0	0	0	1	0	0	0	17135	1145	40	1	9991	1	VCAN	5	82875859	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	34467	82875859	98039401	134	61394										
GPR98	84059	broad.mit.edu	37	chr5	90074906	90074906	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	acaattacaaaggtggaactCcagggaaggtaaaggagaaa	12	5	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:90074906C>A	uc003kju.2	+	64	13170	c.13074C>A	c.(13072-13074)CTC>CTA	p.L4358L	GPR98_uc003kjt.2_Silent_p.L2064L|GPR98_uc003kjw.2_5'Flank	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	4358	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AGGTGGAACTCCAGGGAAGGT	0.398													16	27	---	---	---	---	PASS	A	90074906	A	A	90074906	2	1	172	1	0	0	0	0	0	0	0	1	6721	842	30	2		2	GPR98	5	90074906	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	7199047	90074906	90840354	135	61395										
FBN2	2201	broad.mit.edu	37	chr5	127614475	127614475	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtgacgagattgcgactactGgatgccatttgacatattgt	11	7	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:127614475G>C	uc003kuu.2	-	57	7636	c.7197C>G	c.(7195-7197)TCC>TCG	p.S2399S		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	2399	TB 9.				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)		TGCGACTACTGGATGCCATTT	0.517													4	18	---	---	---	---	PASS	C	127614475	C	C	127614475	2	2	172	1	0	0	0	0	0	0	0	1	5703	1335	47	4		4	FBN2	5	127614475	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	37539569	127614475	53300785	136	61396										
AFF4	27125	broad.mit.edu	37	chr5	132240074	132240074	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	actcactttgttctccagtgCcaaaattggactgctgagac	8	11	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:132240074C>G	uc003kyd.2	-	6	1481	c.1073G>C	c.(1072-1074)GGC>GCC	p.G358A	AFF4_uc011cxk.1_Missense_Mutation_p.G36A|AFF4_uc003kye.1_Missense_Mutation_p.G358A	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	358	Ser-rich.				transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTCTCCAGTGCCAAAATTGGA	0.289													5	17	---	---	---	---	PASS	G	132240074	G	G	132240074	3	3	172	1	0	0	0	0	1	0	0	0	359	739	26	4	2482	4	AFF4	5	132240074	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	4625599	132240074	48675186	137	61397										
PCDHA4	56144	broad.mit.edu	37	chr5	140188634	140188634	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gactggtggcgcgcgcatccCgttccgcgtggggctgtaca	16	13	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:140188634C>T	uc003lhi.2	+	1	1963	c.1862C>T	c.(1861-1863)CCG>CTG	p.P621L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.P621L|PCDHA4_uc011daa.1_Missense_Mutation_p.P621L	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	621	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGCGCATCCCGTTCCGCGTG	0.672													10	58	---	---	---	---	PASS	T	140188634	T	T	140188634	3	4	172	1	0	0	0	0	1	0	0	0	11526	652	23	1	1864	1	PCDHA4	5	140188634	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	7948560	140188634	40726626	138	61398										
PCDHA6	56142	broad.mit.edu	37	chr5	140209210	140209210	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cgagctacatttcggtgcacGcggagagcggcaaggtgtac	15	10	0	1	rs138462086	byFrequency	TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:140209210G>A	uc003lho.2	+	1	1561	c.1534G>A	c.(1534-1536)GCG>ACG	p.A512T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.A512T|PCDHA6_uc011dab.1_Missense_Mutation_p.A512T	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	512	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCGGTGCACGCGGAGAGCGG	0.697													8	36	---	---	---	---	PASS	A	140209210	A	A	140209210	3	1	172	1	0	0	0	0	1	0	0	0	11528	1087	38	1	1536	1	PCDHA6	5	140209210	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	20576	140209210	40706050	139	61399										
PCDHA8	56140	broad.mit.edu	37	chr5	140222505	140222505	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gagctagagctgctgcagttCcaggtgagcgcgcgcgacgc	16	12	0	2	rs147542523		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:140222505C>T	uc003lhs.2	+	1	1599	c.1599C>T	c.(1597-1599)TTC>TTT	p.F533F	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.F533F	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	533	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTGCAGTTCCAGGTGAGCG	0.672													6	73	---	---	---	---	PASS	T	140222505	T	T	140222505	2	4	172	1	0	0	0	0	0	0	0	1	11530	854	30	2		2	PCDHA8	5	140222505	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	13295	140222505	40692755	140	61400										
PCDHB13	56123	broad.mit.edu	37	chr5	140596009	140596009	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agttcctgaagccgattatcCccaacttccctccccagtgc	6	17	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:140596009C>A	uc003lja.1	+	1	2501	c.2314C>A	c.(2314-2316)CCC>ACC	p.P772T		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	772	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCGATTATCCCCAACTTCCC	0.493													29	63	---	---	---	---	PASS	A	140596009	A	A	140596009	3	1	172	1	0	0	0	0	1	0	0	0	11538	623	22	3	2316	3	PCDHB13	5	140596009	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	373504	140596009	40319251	141	61401										
PCDHGB1	56104	broad.mit.edu	37	chr5	140732021	140732021	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccggtctctgctccaagtctGggcccggggttcctcccaac	11	17	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:140732021G>A	uc003ljo.1	+	1	2194	c.2194G>A	c.(2194-2196)GGG>AGG	p.G732R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGA4_uc003ljq.1_5'Flank|PCDHGB1_uc011daq.1_Missense_Mutation_p.G732R|PCDHGA4_uc003ljp.1_5'Flank	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	732	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCCAAGTCTGGGCCCGGGGT	0.547													34	67	---	---	---	---	PASS	A	140732021	A	A	140732021	3	1	172	1	0	0	0	0	1	0	0	0	11562	1348	47	3	2196	3	PCDHGB1	5	140732021	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	136012	140732021	40183239	142	61402										
PCDHGA5	56110	broad.mit.edu	37	chr5	140744378	140744378	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttcccttcgcgcgggatgcgGatgtgggtgtgaactctctc	14	11	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:140744378G>T	uc003lju.1	+	1	481	c.481G>T	c.(481-483)GAT>TAT	p.D161Y	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.D161Y	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	161	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGGGATGCGGATGTGGGTGT	0.507													10	23	---	---	---	---	PASS	T	140744378	T	T	140744378	3	4	172	1	0	0	0	0	1	0	0	0	11557	1174	41	2	483	2	PCDHGA5	5	140744378	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	12357	140744378	40170882	143	61403										
FAM114A2	10827	broad.mit.edu	37	chr5	153406071	153406071	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tctccactcagagaattaagGatagatttcacctgaatgga	8	8	3	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:153406071G>C	uc003lvb.2	-	8	1389	c.801C>G	c.(799-801)ATC>ATG	p.I267M	FAM114A2_uc003lvc.2_Missense_Mutation_p.I267M|FAM114A2_uc003lvd.2_Missense_Mutation_p.I267M|FAM114A2_uc003lve.2_Missense_Mutation_p.I83M|FAM114A2_uc011dda.1_Missense_Mutation_p.I197M	NM_018691	NP_061161	Q9NRY5	F1142_HUMAN	hypothetical protein LOC10827	267							purine nucleotide binding				0						GAGAATTAAGGATAGATTTCA	0.318													10	12	---	---	---	---	PASS	C	153406071	C	C	153406071	3	2	172	1	0	0	0	0	1	0	0	0	5404	1164	41	2	744	2	FAM114A2	5	153406071	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	12661693	153406071	27509189	144	61404										
GEMIN5	25929	broad.mit.edu	37	chr5	154308114	154308114	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agctagataccagctgtgttGgttgattgctgggccaatgg	14	7	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:154308114G>T	uc003lvx.3	-	6	970	c.887C>A	c.(886-888)CCA>CAA	p.P296Q	GEMIN5_uc011ddk.1_Missense_Mutation_p.P295Q	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	296	WD 5.				ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CAGCTGTGTTGGTTGATTGCT	0.428													7	139	---	---	---	---	PASS	T	154308114	T	T	154308114	3	4	172	1	0	0	0	0	1	0	0	0	6331	1348	47	3	3731	3	GEMIN5	5	154308114	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	902043	154308114	26607146	145	61405										
ITK	3702	broad.mit.edu	37	chr5	156608051	156608051	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcccaacaaaagagaagaacTtctccctcgaactttaaagt	5	11	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:156608051T>A	uc003lwo.1	+	1	145	c.63T>A	c.(61-63)ACT>ACA	p.T21T		NM_005546	NP_005537	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase	21	PH.				cellular defense response|intracellular signal transduction|T cell receptor signaling pathway	cytosol|plasma membrane	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(12)|ovary(8)|skin(4)|stomach(1)|central_nervous_system(1)	26	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AGAGAAGAACTTCTCCCTCGA	0.438			T	SYK	peripheral T-cell lymphoma								19	56	---	---	---	---	PASS	A	156608051	A	A	156608051	2	1	172	1	0	0	0	0	0	0	0	1	7909	1596	56	5		5	ITK	5	156608051	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08	2299937	156608051	24307209	146	61406										
FBXW11	23291	broad.mit.edu	37	chr5	171297857	171297857	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aggcaccacattcaatatccCagagccttgaatgaaaaaca	6	11	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:171297857C>G	uc003mbm.1	-	10	1654	c.1283G>C	c.(1282-1284)TGG>TCG	p.W428S	FBXW11_uc011dey.1_Missense_Mutation_p.W396S|FBXW11_uc003mbl.1_Missense_Mutation_p.W415S|FBXW11_uc003mbn.1_Missense_Mutation_p.W394S	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	428	WD 5.				cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TTCAATATCCCAGAGCCTTGA	0.408													15	53	---	---	---	---	PASS	G	171297857	G	G	171297857	3	3	172	1	0	0	0	0	1	0	0	0	5764	595	21	4	357	4	FBXW11	5	171297857	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	14689806	171297857	9617403	147	61407										
SH3PXD2B	285590	broad.mit.edu	37	chr5	171833301	171833301	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctggcagaaaggggatgatcCgctgcttggggtccttctgt	15	9	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr5:171833301C>A	uc003mbr.2	-	3	383	c.212G>T	c.(211-213)CGG>CTG	p.R71L	SH3PXD2B_uc003mbs.1_Missense_Mutation_p.R71L	NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	71	PX.				adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GGGGATGATCCGCTGCTTGGG	0.512													60	134	---	---	---	---	PASS	A	171833301	A	A	171833301	3	1	172	1	0	0	0	0	1	0	0	0	14257	652	23	1	2567	1	SH3PXD2B	5	171833301	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	535444	171833301	9081959	148	61408										
CD83	9308	broad.mit.edu	37	chr6	14118260	14118260	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttgccctgcaccgccccctgGgatccgcaggttccctacac	9	19	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:14118260G>T	uc003nbi.2	+	2	295	c.117G>T	c.(115-117)TGG>TGT	p.W39C	CD83_uc003nbh.2_Missense_Mutation_p.W39C	NM_004233	NP_004224	Q01151	CD83_HUMAN	CD83 antigen isoform a	39	Extracellular (Potential).|Ig-like V-type.				defense response|humoral immune response|signal transduction	integral to plasma membrane					0	Breast(50;0.00245)|Ovarian(93;0.137)	all_hematologic(90;0.117)				CCGCCCCCTGGGATCCGCAGG	0.622													4	12	---	---	---	---	PASS	T	14118260	T	T	14118260	3	4	172	1	0	0	0	0	1	0	0	0	3041	1241	43	3	123	3	CD83	6	14118260	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08		14118260	156996807	149	61409										
ZNF165	7718	broad.mit.edu	37	chr6	28053949	28053949	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aatgtactttatttttctcaGgttcaagcccatgaacatgg	7	8	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:28053949G>A	uc003nkg.2	+	4	1496	c.412_splice	c.e4-1	p.V138_splice	ZNF165_uc003nkh.2_Splice_Site_p.V138_splice|ZNF165_uc003nki.3_Splice_Site_p.V138_splice	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165						viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ATTTTTCTCAGGTTCAAGCCC	0.413													16	51	---	---	---	---	PASS	A	28053949	A	A	28053949	5	1	172	1	0	0	0	0	0	0	1	0	17737	1014	35	3	417	3	ZNF165	6	28053949	Splice_Site	SNP	G	TCGA-66-2795-01A-02D-0983-08	13935689	28053949	143061118	150	61410										
SCAND3	114821	broad.mit.edu	37	chr6	28543760	28543760	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttgctttagaaaatatcttaGtattattacttttgttttcc	4	5	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:28543760G>T	uc003nlo.2	-	3	1340	c.722C>A	c.(721-723)ACT>AAT	p.T241N		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	241					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AAATATCTTAGTATTATTACT	0.353													14	40	---	---	---	---	PASS	T	28543760	T	T	28543760	3	4	172	1	0	0	0	0	1	0	0	0	13876	1029	36	3	3263	3	SCAND3	6	28543760	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	489811	28543760	142571307	151	61411										
GNL1	2794	broad.mit.edu	37	chr6	30515028	30515028	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tagggctcctggatctgggcGatagggtagatccctgccag	15	10	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:30515028G>A	uc003nqh.2	-	10	2330	c.1302C>T	c.(1300-1302)ATC>ATT	p.I434I	GNL1_uc011dmi.1_Silent_p.I231I|GNL1_uc011dmj.1_Silent_p.I432I|GNL1_uc011dmk.1_Silent_p.I89I	NM_005275	NP_005266	P36915	GNL1_HUMAN	guanine nucleotide binding protein-like 1	434					response to DNA damage stimulus|signal transduction|T cell mediated immunity	extracellular space|intracellular	GTP binding|structural molecule activity			ovary(3)	3						GGATCTGGGCGATAGGGTAGA	0.602													37	83	---	---	---	---	PASS	A	30515028	A	A	30515028	2	1	172	1	0	0	0	0	0	0	0	1	6535	1048	37	2		2	GNL1	6	30515028	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	1971268	30515028	140600039	152	61412										
SLC44A4	80736	broad.mit.edu	37	chr6	31842560	31842560	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgtatagaagacttccccaaCagtctgtgagaactcgtttt	8	9	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:31842560C>T	uc010jti.2	-	6	472	c.406G>A	c.(406-408)GTT>ATT	p.V136I	SLC44A4_uc011dol.1_Missense_Mutation_p.V60I|SLC44A4_uc011dom.1_Intron	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	136	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	ACTTCCCCAACAGTCTGTGAG	0.512													7	45	---	---	---	---	PASS	T	31842560	T	T	31842560	3	4	172	1	0	0	0	0	1	0	0	0	14638	478	17	3	1790	3	SLC44A4	6	31842560	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1327532	31842560	139272507	153	61413										
HLA-DMB	3109	broad.mit.edu	37	chr6	32905190	32905190	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gccagcatcacaggctccctCgtgttaaaaggagtggtttt	11	10	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:32905190C>A	uc003ocl.1	-	3	614	c.381G>T	c.(379-381)ACG>ACT	p.T127T	HLA-DMB_uc003ocj.1_3'UTR|HLA-DMB_uc003ock.1_5'Flank|HLA-DMB_uc010jud.1_5'UTR|HLA-DMB_uc010jue.1_5'UTR|HLA-DMB_uc010juf.1_5'UTR|HLA-DMB_uc011dql.1_Silent_p.T127T	NM_002118	NP_002109	P28068	DMB_HUMAN	major histocompatibility complex, class II, DM	127	Lumenal (Potential).|Ig-like C1-type.|Beta-2.				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	integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0						CAGGCTCCCTCGTGTTAAAAG	0.512													5	121	---	---	---	---	PASS	A	32905190	A	A	32905190	2	1	172	1	0	0	0	0	0	0	0	1	7199	871	31	2		2	HLA-DMB	6	32905190	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	1062630	32905190	138209877	154	61414										
TCP11	6954	broad.mit.edu	37	chr6	35090020	35090020	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agaggactttcagggccccaTgttctgcctcctgcttgagc	11	13	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:35090020T>A	uc003okd.2	-	5	672	c.491A>T	c.(490-492)CAT>CTT	p.H164L	TCP11_uc003ojz.1_Missense_Mutation_p.H89L|TCP11_uc003oka.2_Missense_Mutation_p.H89L|TCP11_uc003okb.2_Missense_Mutation_p.H88L|TCP11_uc003okc.2_Missense_Mutation_p.H88L|TCP11_uc011dsu.1_Missense_Mutation_p.H146L|TCP11_uc011dsv.1_Missense_Mutation_p.H113L|TCP11_uc011dsw.1_Missense_Mutation_p.H118L	NM_001093728	NP_001087197	Q8WWU5	TCP11_HUMAN	t-complex 11 isoform 1	151					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(3)|skin(2)	5						CAGGGCCCCATGTTCTGCCTC	0.488													29	49	---	---	---	---	PASS	A	35090020	A	A	35090020	3	1	172	1	0	0	0	0	1	0	0	0	15710	1464	51	5	1083	5	TCP11	6	35090020	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	2184830	35090020	136025047	155	61415										
C6orf130	221443	broad.mit.edu	37	chr6	41037854	41037854	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccatctctcttcagaacagcCacttctccagatttcttttc	3	15	5	2	rs144524444	byFrequency	TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:41037854C>A	uc003opm.2	-	4	376	c.204G>T	c.(202-204)GTG>GTT	p.V68V	UNC5CL_uc010jxe.1_5'UTR|C6orf130_uc010jxg.2_Silent_p.V68V|C6orf130_uc003opn.2_Silent_p.V68V|C6orf130_uc010jxh.1_Silent_p.V68V|NFYA_uc003opo.2_5'Flank|NFYA_uc003opp.2_5'Flank	NM_145063	NP_659500	Q9Y530	CF130_HUMAN	hypothetical protein LOC221443	68	Macro.										0	Ovarian(28;0.0418)|Colorectal(47;0.196)					TCAGAACAGCCACTTCTCCAG	0.313													15	38	---	---	---	---	PASS	A	41037854	A	A	41037854	2	1	172	1	0	0	0	0	0	0	0	1	2329	581	21	3		3	C6orf130	6	41037854	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	5947834	41037854	130077213	156	61416										
CUL9	23113	broad.mit.edu	37	chr6	43155591	43155591	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atctacaccaagtatgggctGctgtctaatgaaccaagcag	9	10	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:43155591G>A	uc003ouk.2	+	7	1797	c.1722G>A	c.(1720-1722)CTG>CTA	p.L574L	CUL9_uc003ouj.1_Silent_p.L464L|CUL9_uc003oul.2_Silent_p.L574L|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_Silent_p.L32L	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	574					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						AGTATGGGCTGCTGTCTAATG	0.522													18	50	---	---	---	---	PASS	A	43155591	A	A	43155591	2	1	172	1	0	0	0	0	0	0	0	1	4061	1306	46	3		3	CUL9	6	43155591	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	2117737	43155591	127959476	157	61417										
ZNF318	24149	broad.mit.edu	37	chr6	43306887	43306887	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggatgcactgctgttcaaagGagaagtagaagaggtgtctg	15	5	2	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:43306887G>C	uc003oux.2	-	10	4927	c.4849C>G	c.(4849-4851)CCT>GCT	p.P1617A	ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	1617					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			CTGTTCAAAGGAGAAGTAGAA	0.473													34	68	---	---	---	---	PASS	C	43306887	C	C	43306887	3	2	172	1	0	0	0	0	1	0	0	0	17833	1174	41	2	1994	2	ZNF318	6	43306887	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	151296	43306887	127808180	158	61418										
SUPT3H	8464	broad.mit.edu	37	chr6	44921148	44921148	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cctcacaagaagagccagatCcactaactagaagaccagaa	7	12	1	6			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:44921148C>G	uc003oxo.2	-	11	1051	c.733G>C	c.(733-735)GAT>CAT	p.D245H	SUPT3H_uc003oxn.1_Missense_Mutation_p.D234H|SUPT3H_uc011dvv.1_Missense_Mutation_p.D82H|SUPT3H_uc003oxp.2_Missense_Mutation_p.D234H|SUPT3H_uc011dvw.1_Missense_Mutation_p.D148H	NM_181356	NP_852001	O75486	SUPT3_HUMAN	suppressor of Ty 3 homolog isoform 2	316					histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3						AGAGCCAGATCCACTAACTAG	0.433													12	32	---	---	---	---	PASS	G	44921148	G	G	44921148	3	3	172	1	0	0	0	0	1	0	0	0	15394	855	30	2	265	2	SUPT3H	6	44921148	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1614261	44921148	126193919	159	61419										
RHAG	6005	broad.mit.edu	37	chr6	49604511	49604511	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aggactatagccatgagaggGaatgtgaacctcatgtttgt	12	6	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:49604511G>A	uc003ozk.3	-	1	77	c.15C>T	c.(13-15)TTC>TTT	p.F5F	RHAG_uc010jzl.2_Silent_p.F5F|RHAG_uc010jzm.2_Silent_p.F5F	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein	5	Helical; (Potential).				carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					CCATGAGAGGGAATGTGAACC	0.438													43	44	---	---	---	---	PASS	A	49604511	A	A	49604511	2	1	172	1	0	0	0	0	0	0	0	1	13315	1165	41	2		2	RHAG	6	49604511	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	4683363	49604511	121510556	160	61420										
PKHD1	5314	broad.mit.edu	37	chr6	51882299	51882299	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	actttcctcgcaaatgtagaGgtaaggccacgattcaagca	9	10	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:51882299G>T	uc003pah.1	-	34	5785	c.5509C>A	c.(5509-5511)CTC>ATC	p.L1837I	PKHD1_uc003pai.2_Missense_Mutation_p.L1837I	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1837	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CAAATGTAGAGGTAAGGCCAC	0.498													8	271	---	---	---	---	PASS	T	51882299	T	T	51882299	3	4	172	1	0	0	0	0	1	0	0	0	11971	1000	35	3	6890	3	PKHD1	6	51882299	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2277788	51882299	119232768	161	61421										
FAM83B	222584	broad.mit.edu	37	chr6	54805608	54805608	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaggcaccaaaaatgcacacCttgcaggttcctgaaaacca	8	12	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:54805608C>A	uc003pck.2	+	5	1955	c.1839C>A	c.(1837-1839)ACC>ACA	p.T613T		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	613										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					AAATGCACACCTTGCAGGTTC	0.428													6	94	---	---	---	---	PASS	A	54805608	A	A	54805608	2	1	172	1	0	0	0	0	0	0	0	1	5634	668	24	3		3	FAM83B	6	54805608	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	2923309	54805608	116309459	162	61422										
PRIM2	5558	broad.mit.edu	37	chr6	57398208	57398208	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aaatcaccatctttgtcatgGaggccgaatgcagtatgtcc	9	10	3	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:57398208G>A	uc003pdx.2	+	10	998	c.911G>A	c.(910-912)GGA>GAA	p.G304E		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	304					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		CTTTGTCATGGAGGCCGAATG	0.393													26	258	---	---	---	---	PASS	A	57398208	A	A	57398208	3	1	172	1	0	0	0	0	1	0	0	0	12491	1174	41	2	945	2	PRIM2	6	57398208	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2592600	57398208	113716859	163	61423										
COL19A1	1310	broad.mit.edu	37	chr6	70873266	70873266	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aagaactggacatcctggtcCcacaggagcaaaaggtgaaa	11	9	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:70873266C>A	uc003pfc.1	+	36	2495	c.2378C>A	c.(2377-2379)CCC>CAC	p.P793H	COL19A1_uc010kam.1_Missense_Mutation_p.P689H	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	793	Triple-helical region 4 (COL4).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CATCCTGGTCCCACAGGAGCA	0.448													5	31	---	---	---	---	PASS	A	70873266	A	A	70873266	3	1	172	1	0	0	0	0	1	0	0	0	3676	623	22	3	2516	3	COL19A1	6	70873266	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	13475058	70873266	100241801	164	61424										
PHIP	55023	broad.mit.edu	37	chr6	79672925	79672925	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gattagtgatctgcactcacCatcagttaaaggaacactgg	9	9	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:79672925C>A	uc003pir.2	-	30	3650	c.3424G>T	c.(3424-3426)GGT>TGT	p.G1142C	PHIP_uc003piq.2_Missense_Mutation_p.G166C|PHIP_uc011dyp.1_Missense_Mutation_p.G1141C|PHIP_uc003pio.3_Missense_Mutation_p.G28C	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1142					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)		CTGCACTCACCATCAGTTAAA	0.383													6	203	---	---	---	---	PASS	A	79672925	A	A	79672925	3	1	172	1	0	0	0	0	1	0	0	0	11842	594	21	3	2085	3	PHIP	6	79672925	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	8799659	79672925	91442142	165	61425										
MDN1	23195	broad.mit.edu	37	chr6	90440607	90440607	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tttcagacattcttttcgtgCcaaaagggctgtaccaaacc	7	11	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:90440607C>T	uc003pnn.1	-	35	5094	c.4978G>A	c.(4978-4980)GCA>ACA	p.A1660T		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1660					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)		TCTTTTCGTGCCAAAAGGGCT	0.403													37	33	---	---	---	---	PASS	T	90440607	T	T	90440607	3	4	172	1	0	0	0	0	1	0	0	0	9415	739	26	3	12084	3	MDN1	6	90440607	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	10767682	90440607	80674460	166	61426										
KLHL32	114792	broad.mit.edu	37	chr6	97562194	97562194	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agcacccatgaaaaactgccGggagcattttgtgctgggtg	13	9	0	1	rs143481422		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:97562194G>T	uc010kcm.1	+	7	1635	c.1163G>T	c.(1162-1164)CGG>CTG	p.R388L	KLHL32_uc003poy.2_Missense_Mutation_p.R388L|KLHL32_uc011ead.1_Missense_Mutation_p.R352L|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Missense_Mutation_p.R319L|KLHL32_uc003ppa.2_Intron	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	388	Kelch 2.									ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		AAAAACTGCCGGGAGCATTTT	0.562													12	7	---	---	---	---	PASS	T	97562194	T	T	97562194	3	4	172	1	0	0	0	0	1	0	0	0	8386	1116	39	1	1185	1	KLHL32	6	97562194	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	7121587	97562194	73552873	167	61427										
ENPP1	5167	broad.mit.edu	37	chr6	132206132	132206132	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gctgaagaaagaaatggtgtCaatgtcgtcagtggtcctgt	13	6	2	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:132206132C>A	uc011ecf.1	+	23	2393	c.2373C>A	c.(2371-2373)GTC>GTA	p.V791V		NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	791	Nuclease.|Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	GAAATGGTGTCAATGTCGTCA	0.378													13	17	---	---	---	---	PASS	A	132206132	A	A	132206132	2	1	172	1	0	0	0	0	0	0	0	1	5129	813	29	2		2	ENPP1	6	132206132	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	34643938	132206132	38908935	168	61428										
ECT2L	345930	broad.mit.edu	37	chr6	139175174	139175174	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tttcctcaggctataaaattGgtgttaaaaatttactgagg	8	5	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:139175174G>T	uc003qif.1	+	8	1184	c.1081G>T	c.(1081-1083)GGT>TGT	p.G361C	ECT2L_uc011edq.1_Missense_Mutation_p.G292C	NM_001077706	NP_001071174	Q008S8	ECT2L_HUMAN	epithelial cell transforming sequence 2	361					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0						CTATAAAATTGGTGTTAAAAA	0.363													5	83	---	---	---	---	PASS	T	139175174	T	T	139175174	3	4	172	1	0	0	0	0	1	0	0	0	4902	1348	47	3	1111	3	ECT2L	6	139175174	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	6969042	139175174	31939893	169	61429										
ARID1B	57492	broad.mit.edu	37	chr6	157522468	157522468	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tttctgccgtctatgaagatGcagaaggtcatgcccacggt	11	10	3	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:157522468G>T	uc003qqn.2	+	18	4838	c.4686G>T	c.(4684-4686)ATG>ATT	p.M1562I	ARID1B_uc003qqo.2_Missense_Mutation_p.M1522I|ARID1B_uc003qqp.2_Missense_Mutation_p.M1509I	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1567	Pro-rich.				chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		CTATGAAGATGCAGAAGGTCA	0.597													34	44	---	---	---	---	PASS	T	157522468	T	T	157522468	3	4	172	1	0	0	0	0	1	0	0	0	914	1319	46	3	4810	3	ARID1B	6	157522468	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	18347294	157522468	13592599	170	61430										
PLG	5340	broad.mit.edu	37	chr6	161139439	161139439	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	acacctgtcagcactggagtGcacagacccctcacacacat	7	16	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:161139439G>T	uc003qtm.3	+	8	964	c.901G>T	c.(901-903)GCA>TCA	p.A301S		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	301	Kringle 3.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	GCACTGGAGTGCACAGACCCC	0.527													27	24	---	---	---	---	PASS	T	161139439	T	T	161139439	3	4	172	1	0	0	0	0	1	0	0	0	12086	1319	46	3	935	3	PLG	6	161139439	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	3616971	161139439	9975628	171	61431										
AGPAT4	56895	broad.mit.edu	37	chr6	161587445	161587445	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	caccactccagcagcatcacCagctctggaacaaaccacaa	5	17	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr6:161587445C>A	uc003qtr.1	-	3	410	c.183G>T	c.(181-183)CTG>CTT	p.L61L	AGPAT4_uc003qts.1_Intron|AGPAT4_uc011egb.1_Intron|AGPAT4_uc003qtt.1_RNA|AGPAT4_uc011egc.1_Silent_p.L61L|AGPAT4_uc011egd.1_5'UTR|AGPAT4_uc011ege.1_Intron	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	61					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		GCAGCATCACCAGCTCTGGAA	0.572													12	17	---	---	---	---	PASS	A	161587445	A	A	161587445	2	1	172	1	0	0	0	0	0	0	0	1	389	581	21	3		3	AGPAT4	6	161587445	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	448006	161587445	9527622	172	61432										
USP42	84132	broad.mit.edu	37	chr7	6189676	6189676	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agtcctctgaggactctgacGaggagtcaaaggggctgggc	16	9	3	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:6189676G>A	uc011jwo.1	+	13	1972	c.1849G>A	c.(1849-1851)GAG>AAG	p.E617K	USP42_uc010kth.1_Missense_Mutation_p.E550K|USP42_uc011jwp.1_Missense_Mutation_p.E617K|USP42_uc011jwq.1_Missense_Mutation_p.E424K|USP42_uc011jwr.1_Missense_Mutation_p.E462K	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	617					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		GGACTCTGACGAGGAGTCAAA	0.597													9	13	---	---	---	---	PASS	A	6189676	A	A	6189676	3	1	172	1	0	0	0	0	1	0	0	0	17070	1059	37	2	1895	2	USP42	7	6189676	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08		6189676	152948987	173	61433										
MEOX2	4223	broad.mit.edu	37	chr7	15725863	15725863	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctggcaaacatgccctcttcGttggggtatcccgcgattat	10	12	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:15725863G>T	uc003stc.2	-	1	446	c.165C>A	c.(163-165)AAC>AAA	p.N55K	MEOX2_uc011jxw.1_Missense_Mutation_p.N55K	NM_005924	NP_005915	P50222	MEOX2_HUMAN	mesenchyme homeobox 2	55					blood circulation|multicellular organismal development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.0822)		TGCCCTCTTCGTTGGGGTATC	0.398													10	8	---	---	---	---	PASS	T	15725863	T	T	15725863	3	4	172	1	0	0	0	0	1	0	0	0	9474	1136	40	1	761	1	MEOX2	7	15725863	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	9536187	15725863	143412800	174	61434										
BMPER	168667	broad.mit.edu	37	chr7	34094843	34094843	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaccaaggccaggagggctgTtgtgaagagtgcctcctacg	15	10	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:34094843T>C	uc011kap.1	+	9	969	c.855T>C	c.(853-855)TGT>TGC	p.C285C		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	285	VWFC 4.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						AGGAGGGCTGTTGTGAAGAGT	0.498													31	74	---	---	---	---	PASS	C	34094843	C	C	34094843	2	2	172	1	0	0	0	0	0	0	0	1	1468	1731	60	5		5	BMPER	7	34094843	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08	18368980	34094843	125043820	175	61435										
SEPT7	989	broad.mit.edu	37	chr7	35919506	35919506	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcatcccacttattgccaaaGcagacacactcacaccagag	5	15	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:35919506G>T	uc010kxc.2	+	6	779	c.586G>T	c.(586-588)GCA>TCA	p.A196S	SEPT7_uc011kat.1_Missense_Mutation_p.A195S|SEPT7_uc011kau.1_Missense_Mutation_p.A160S|SEPT7_uc011kav.1_Missense_Mutation_p.A143S|SEPT7_uc003tey.2_Missense_Mutation_p.A44S	NM_001788	NP_001779	Q16181	SEPT7_HUMAN	cell division cycle 10 isoform 1	196	GTP (By similarity).				cilium morphogenesis|cytokinesis|mitosis|protein heterooligomerization|regulation of embryonic cell shape	cilium axoneme|cleavage furrow|condensed chromosome kinetochore|midbody|nucleus|septin complex|spindle|stress fiber	GTP binding|protein binding|structural molecule activity				0						TATTGCCAAAGCAGACACACT	0.363													18	25	---	---	---	---	PASS	T	35919506	T	T	35919506	3	4	172	1	0	0	0	0	1	0	0	0	14069	971	34	3	606	3	SEPT7	7	35919506	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1824663	35919506	123219157	176	61436										
AOAH	313	broad.mit.edu	37	chr7	36634000	36634000	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gagttggggccagtcaagctCgttggtaagggctgttggta	17	6	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:36634000C>A	uc003tfh.3	-	12	1284	c.883G>T	c.(883-885)GAG>TAG	p.E295*	AOAH_uc010kxf.2_Nonsense_Mutation_p.E295*|AOAH_uc011kba.1_Nonsense_Mutation_p.E263*	NM_001637	NP_001628	P28039	AOAH_HUMAN	acyloxyacyl hydrolase precursor	295					inflammatory response|lipid metabolic process	extracellular region	acyloxyacyl hydrolase activity|lipoprotein lipase activity			skin(1)	1						CAGTCAAGCTCGTTGGTAAGG	0.403													4	107	---	---	---	---	PASS	A	36634000	A	A	36634000	4	1	172	1	0	0	0	0	0	1	0	0	726	893	31	2	1225	2	AOAH	7	36634000	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	714494	36634000	122504663	177	61437										
GPR141	353345	broad.mit.edu	37	chr7	37780665	37780665	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cccaccaggagttctgggctCagctgaaaaacctatttttt	8	11	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:37780665C>A	uc003tfm.1	+	1	670	c.670C>A	c.(670-672)CAG>AAG	p.Q224K	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	224	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						GTTCTGGGCTCAGCTGAAAAA	0.438													28	74	---	---	---	---	PASS	A	37780665	A	A	37780665	3	1	172	1	0	0	0	0	1	0	0	0	6649	827	29	2	672	2	GPR141	7	37780665	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1146665	37780665	121357998	178	61438										
ZNF479	90827	broad.mit.edu	37	chr7	57187643	57187643	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgctcacattcttcacatttGtagggtttctctccagtatg	7	10	4	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:57187643G>T	uc010kzo.2	-	5	1750	c.1479C>A	c.(1477-1479)TAC>TAA	p.Y493*		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	493	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			CTTCACATTTGTAGGGTTTCT	0.388													11	24	---	---	---	---	PASS	T	57187643	T	T	57187643	4	4	172	1	0	0	0	0	0	1	0	0	17930	1372	48	3	99	3	ZNF479	7	57187643	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	19406978	57187643	101951020	179	61439										
GUSB	2990	broad.mit.edu	37	chr7	65444483	65444483	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cgctgcagtccagcgtagttGaaaaagtcaaaatatgtgtt	10	7	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:65444483G>A	uc003tun.2	-	4	703	c.627C>T	c.(625-627)TTC>TTT	p.F209F	GUSB_uc011kdt.1_Intron|GUSB_uc010kzw.1_Missense_Mutation_p.S38L	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	209					glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0						CAGCGTAGTTGAAAAAGTCAA	0.532													26	38	---	---	---	---	PASS	A	65444483	A	A	65444483	2	1	172	1	0	0	0	0	0	0	0	1	6902	1281	45	2		2	GUSB	7	65444483	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	8256840	65444483	93694180	180	61440										
WBSCR17	64409	broad.mit.edu	37	chr7	71177096	71177096	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcatcctccgcagctgcacaGgtcagaggtggaccattaag	11	12	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:71177096G>T	uc003tvy.2	+	11	1762	c.1762G>T	c.(1762-1764)GGT>TGT	p.G588C	WBSCR17_uc003tvz.2_Missense_Mutation_p.G287C	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	588	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				CAGCTGCACAGGTCAGAGGTG	0.627													12	39	---	---	---	---	PASS	T	71177096	T	T	71177096	3	4	172	1	0	0	0	0	1	0	0	0	17261	1000	35	3	1804	3	WBSCR17	7	71177096	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	5732613	71177096	87961567	181	61441										
HIP1	3092	broad.mit.edu	37	chr7	75168666	75168666	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cttcccagccctcagcaacaCcagcaagctcgtagtgcttt	7	16	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:75168666C>A	uc003uds.1	-	30	3079	c.3038G>T	c.(3037-3039)GGT>GTT	p.G1013V	HIP1_uc011kfz.1_Missense_Mutation_p.G839V	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	1013					activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						CTCAGCAACACCAGCAAGCTC	0.532			T	PDGFRB	CMML								99	234	---	---	---	---	PASS	A	75168666	A	A	75168666	3	1	172	1	0	0	0	0	1	0	0	0	7114	507	18	3	83	3	HIP1	7	75168666	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	3991570	75168666	83969997	182	61442										
CACNA2D1	781	broad.mit.edu	37	chr7	81978903	81978903	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	catcaacaagctgattgactCcacttgctgtttttgccagt	7	11	1	2	rs79543314		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:81978903C>T	uc003uhr.1	-	2	414	c.158G>A	c.(157-159)GGA>GAA	p.G53E		NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	53	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	CTGATTGACTCCACTTGCTGT	0.368													22	54	---	---	---	---	PASS	T	81978903	T	T	81978903	3	4	172	1	0	0	0	0	1	0	0	0	2548	855	30	2	3269	2	CACNA2D1	7	81978903	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	6810237	81978903	77159760	183	61443										
PCLO	27445	broad.mit.edu	37	chr7	82764209	82764209	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaggtgtggggacagtttggCcagcggtaggtcgtgggcca	20	7	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:82764209C>A	uc003uhx.2	-	3	2946	c.2657G>T	c.(2656-2658)GGC>GTC	p.G886V	PCLO_uc003uhv.2_Missense_Mutation_p.G886V	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	832	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GACAGTTTGGCCAGCGGTAGG	0.527													54	114	---	---	---	---	PASS	A	82764209	A	A	82764209	3	1	172	1	0	0	0	0	1	0	0	0	11583	739	26	3	12880	3	PCLO	7	82764209	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	785306	82764209	76374454	184	61444										
ZNF804B	219578	broad.mit.edu	37	chr7	88965101	88965101	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttagaaagagtacaagccaaGaaatgtcaagaacaatcaag	8	6	2	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:88965101G>C	uc011khi.1	+	4	3343	c.2805G>C	c.(2803-2805)AAG>AAC	p.K935N		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	935						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TACAAGCCAAGAAATGTCAAG	0.418										HNSCC(36;0.09)			57	144	---	---	---	---	PASS	C	88965101	C	C	88965101	3	2	172	1	0	0	0	0	1	0	0	0	18168	933	33	2	2819	2	ZNF804B	7	88965101	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	6200892	88965101	70173562	185	61445										
COL1A2	1278	broad.mit.edu	37	chr7	94057744	94057744	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tggtataggagctccaaggaCaagaaacacgtctggctagg	13	8	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:94057744C>G	uc003ung.1	+	50	4137	c.3666C>G	c.(3664-3666)GAC>GAG	p.D1222E	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1222	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GCTCCAAGGACAAGAAACACG	0.463										HNSCC(75;0.22)			18	34	---	---	---	---	PASS	G	94057744	G	G	94057744	3	3	172	1	0	0	0	0	1	0	0	0	3678	477	17	4	3864	4	COL1A2	7	94057744	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	5092643	94057744	65080919	186	61446										
SMURF1	57154	broad.mit.edu	37	chr7	98645444	98645444	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggcaggaagctcctcgtcctCcagagagccctcactgggca	12	15	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:98645444C>A	uc003upu.1	-	11	1413	c.1093G>T	c.(1093-1095)GAG>TAG	p.E365*	SMURF1_uc003upv.1_Nonsense_Mutation_p.E339*|SMURF1_uc003upt.2_Nonsense_Mutation_p.E339*	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	365					BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			TCCTCGTCCTCCAGAGAGCCC	0.572													7	136	---	---	---	---	PASS	A	98645444	A	A	98645444	4	1	172	1	0	0	0	0	0	1	0	0	14819	864	30	2	1216	2	SMURF1	7	98645444	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	4587700	98645444	60493219	187	61447										
MUC17	140453	broad.mit.edu	37	chr7	100683152	100683152	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	taactagtatgcctgtcaacCacacgccagtggccagttct	8	13	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:100683152C>A	uc003uxp.1	+	3	8508	c.8455C>A	c.(8455-8457)CAC>AAC	p.H2819N	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2819	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|45.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GCCTGTCAACCACACGCCAGT	0.493													8	319	---	---	---	---	PASS	A	100683152	A	A	100683152	3	1	172	1	0	0	0	0	1	0	0	0	9974	594	21	3	8465	3	MUC17	7	100683152	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	2037708	100683152	58455511	188	61448										
CUX1	1523	broad.mit.edu	37	chr7	101840336	101840336	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctgggagcgtctccgagggcGaggagatggacactgcagaa	17	9	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:101840336G>T	uc003uyx.3	+	15	1683	c.1645G>T	c.(1645-1647)GAG>TAG	p.E549*	CUX1_uc003uys.3_Nonsense_Mutation_p.E560*|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	549	CUT 1.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						CTCCGAGGGCGAGGAGATGGA	0.522													5	139	---	---	---	---	PASS	T	101840336	T	T	101840336	4	4	172	1	0	0	0	0	0	1	0	0	4064	1059	37	2	1770	2	CUX1	7	101840336	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1157184	101840336	57298327	189	61449										
RELN	5649	broad.mit.edu	37	chr7	103237091	103237091	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtatccaggtcccaactcacCagctgtcttttcccagcctt	6	16	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:103237091C>A	uc003vca.2	-	25	3511	c.3351G>T	c.(3349-3351)CTG>CTT	p.L1117L	RELN_uc010liz.2_Silent_p.L1117L	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1117					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCCAACTCACCAGCTGTCTTT	0.448													20	35	---	---	---	---	PASS	A	103237091	A	A	103237091	2	1	172	1	0	0	0	0	0	0	0	1	13220	581	21	3		3	RELN	7	103237091	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	1396755	103237091	55901572	190	61450										
MET	4233	broad.mit.edu	37	chr7	116340287	116340287	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atcgtcaacaaaaacaatgtGagatgtctccagcattttta	6	8	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:116340287G>T	uc003vij.2	+	2	1336	c.1149G>T	c.(1147-1149)GTG>GTT	p.V383V	MET_uc010lkh.2_Silent_p.V383V|MET_uc011knc.1_Silent_p.V383V|MET_uc011knd.1_Silent_p.V383V|MET_uc011kne.1_Silent_p.V383V|MET_uc011knf.1_Silent_p.V383V|MET_uc011kng.1_Silent_p.V383V|MET_uc011knh.1_Silent_p.V383V|MET_uc011kni.1_Silent_p.V383V|MET_uc003vii.1_Silent_p.V402V|MET_uc010lkg.2_Silent_p.V383V|MET_uc011kmz.1_Silent_p.V383V|MET_uc011kna.1_Silent_p.V383V|MET_uc011knb.1_Silent_p.V383V	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	383	Extracellular (Potential).|Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			AAAACAATGTGAGATGTCTCC	0.408			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				17	50	---	---	---	---	PASS	T	116340287	T	T	116340287	2	4	172	1	0	0	0	0	0	0	0	1	9485	1277	45	2		2	MET	7	116340287	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	13103196	116340287	42798376	191	61451										
KCND2	3751	broad.mit.edu	37	chr7	119914843	119914843	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atgtgagtggcacccgcttcCagacgtggcaggacaccctg	13	13	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:119914843C>G	uc003vjj.1	+	1	1122	c.157C>G	c.(157-159)CAG>GAG	p.Q53E		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	53	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					CACCCGCTTCCAGACGTGGCA	0.562													38	93	---	---	---	---	PASS	G	119914843	G	G	119914843	3	3	172	1	0	0	0	0	1	0	0	0	8019	595	21	4	159	4	KCND2	7	119914843	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	3574556	119914843	39223820	192	61452										
FLNC	2318	broad.mit.edu	37	chr7	128485260	128485260	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cgtgtccatgtgcagcctgcGgtcgataccagtggcgtcaa	13	12	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:128485260G>A	uc003vnz.3	+	21	3950	c.3741G>A	c.(3739-3741)GCG>GCA	p.A1247A	FLNC_uc003voa.3_Silent_p.A1247A	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1247	Filamin 11.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						TGCAGCCTGCGGTCGATACCA	0.602													17	29	---	---	---	---	PASS	A	128485260	A	A	128485260	2	1	172	1	0	0	0	0	0	0	0	1	5935	1103	39	1		1	FLNC	7	128485260	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	8570417	128485260	30653403	193	61453										
DGKI	9162	broad.mit.edu	37	chr7	137172389	137172389	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tctatgtacatacggcaagtCtccaaatcacagtctccacg	6	13	4	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:137172389C>G	uc003vtt.2	-	23	2350	c.2349G>C	c.(2347-2349)GAG>GAC	p.E783D	DGKI_uc003vtu.2_Missense_Mutation_p.E483D	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	783					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						TACGGCAAGTCTCCAAATCAC	0.363													55	145	---	---	---	---	PASS	G	137172389	G	G	137172389	3	3	172	1	0	0	0	0	1	0	0	0	4471	912	32	2	896	2	DGKI	7	137172389	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	8687129	137172389	21966274	194	61454										
KIAA1549	57670	broad.mit.edu	37	chr7	138603107	138603107	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtgaaggcacagtgcaggccGcacaccaagtgtatggtctg	14	10	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr7:138603107G>T	uc011kql.1	-	2	1314	c.1265C>A	c.(1264-1266)GCG>GAG	p.A422E	KIAA1549_uc003vuk.3_Missense_Mutation_p.A372E|KIAA1549_uc011kqj.1_Missense_Mutation_p.A422E	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	422						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						AGTGCAGGCCGCACACCAAGT	0.557			O	BRAF	pilocytic astrocytoma								4	100	---	---	---	---	PASS	T	138603107	T	T	138603107	3	4	172	1	0	0	0	0	1	0	0	0	8244	1087	38	1	4663	1	KIAA1549	7	138603107	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1430718	138603107	20535556	195	61455										
RP1L1	94137	broad.mit.edu	37	chr8	10464585	10464585	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaactttctgggtacatcctGgtggccttcctctctgcatg	10	12	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:10464585G>T	uc003wtc.2	-	4	7252	c.7023C>A	c.(7021-7023)ACC>ACA	p.T2341T		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	2341					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GGTACATCCTGGTGGCCTTCC	0.542													5	102	---	---	---	---	PASS	T	10464585	T	T	10464585	2	4	172	1	0	0	0	0	0	0	0	1	13533	1335	47	3		3	RP1L1	8	10464585	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08		10464585	135899437	196	61456										
CNOT7	29883	broad.mit.edu	37	chr8	17090016	17090016	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tggtcctatccgttccagctCtaactgttctgccacctcct	6	16	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:17090016C>G	uc003wxf.1	-	6	817	c.649G>C	c.(649-651)GAG>CAG	p.E217Q	CNOT7_uc003wxg.1_Missense_Mutation_p.E217Q|CNOT7_uc003wxh.1_Missense_Mutation_p.E217Q	NM_013354	NP_037486	Q9UIV1	CNOT7_HUMAN	CCR4-NOT transcription complex, subunit 7	217					carbohydrate metabolic process|nuclear-transcribed mRNA poly(A) tail shortening	CCR4-NOT complex|cytoplasmic mRNA processing body|cytosol	nucleic acid binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(1)	1				Colorectal(111;0.0523)|COAD - Colon adenocarcinoma(73;0.209)		CGTTCCAGCTCTAACTGTTCT	0.388													34	45	---	---	---	---	PASS	G	17090016	G	G	17090016	3	3	172	1	0	0	0	0	1	0	0	0	3624	922	32	2	222	2	CNOT7	8	17090016	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	6625431	17090016	129274006	197	61457										
VPS37A	137492	broad.mit.edu	37	chr8	17137762	17137762	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttacaggaaaaaatctccttTtggagcccagcttggaagcc	9	10	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:17137762T>C	uc003wxj.2	+	8	1209	c.856T>C	c.(856-858)TTG>CTG	p.L286L	VPS37A_uc003wxk.2_Silent_p.L261L|VPS37A_uc003wxl.2_Silent_p.L63L	NM_152415	NP_689628	Q8NEZ2	VP37A_HUMAN	hepatocellular carcinoma related protein 1	286					cellular membrane organization|endosome transport|protein transport	centrosome|late endosome membrane|nucleus					0				Colorectal(111;0.0553)|COAD - Colon adenocarcinoma(73;0.212)		AAATCTCCTTTTGGAGCCCAG	0.318													16	17	---	---	---	---	PASS	C	17137762	C	C	17137762	2	2	172	1	0	0	0	0	0	0	0	1	17202	1838	64	5		5	VPS37A	8	17137762	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08	47746	17137762	129226260	198	61458										
LGI3	203190	broad.mit.edu	37	chr8	22012074	22012074	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccctttccctcccacacacaGatactgcaggtgcgacagtc	7	17	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:22012074G>A	uc003xav.2	-	3	638	c.349C>T	c.(349-351)CTC>TTC	p.L117F	LGI3_uc010ltu.2_Missense_Mutation_p.L117F	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	117	LRR 2.				exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		CCCACACACAGATACTGCAGG	0.557													24	27	---	---	---	---	PASS	A	22012074	A	A	22012074	3	1	172	1	0	0	0	0	1	0	0	0	8753	956	33	2	1321	2	LGI3	8	22012074	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	4874312	22012074	124351948	199	61459										
LYPLA1	10434	broad.mit.edu	37	chr8	54963627	54963627	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttttaaaggtcacattggctGgattcaccaatgtttttagt	8	6	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:54963627G>A	uc003xry.2	-	8	778	c.584C>T	c.(583-585)CCA>CTA	p.P195L	LYPLA1_uc011ldx.1_Missense_Mutation_p.P156L|LYPLA1_uc003xrz.2_Missense_Mutation_p.P174L	NM_006330	NP_006321	O75608	LYPA1_HUMAN	lysophospholipase 1	195					fatty acid metabolic process|nitric oxide metabolic process|regulation of nitric-oxide synthase activity	cytosol	lysophospholipase activity|palmitoyl-(protein) hydrolase activity			central_nervous_system(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.11)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;8.48e-07)|Epithelial(17;9.29e-05)|all cancers(17;0.000689)			CACATTGGCTGGATTCACCAA	0.423													31	69	---	---	---	---	PASS	A	54963627	A	A	54963627	3	1	172	1	0	0	0	0	1	0	0	0	9116	1348	47	3	116	3	LYPLA1	8	54963627	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	32951553	54963627	91400395	200	61460										
XKR4	114786	broad.mit.edu	37	chr8	56270408	56270408	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cctgcagctctgcattatcgTacagactcatagcttacagg	8	12	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:56270408T>G	uc003xsf.2	+	2	1009	c.977T>G	c.(976-978)GTA>GGA	p.V326G		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	326	Helical; (Potential).					integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			TGCATTATCGTACAGACTCAT	0.463													10	21	---	---	---	---	PASS	G	56270408	G	G	56270408	3	3	172	1	0	0	0	0	1	0	0	0	17430	1638	57	5	983	5	XKR4	8	56270408	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	1306781	56270408	90093614	201	61461										
CNBD1	168975	broad.mit.edu	37	chr8	88249239	88249239	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgattgaaggaagtgattcaCcagactcgttcatatctcag	9	8	3	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:88249239C>A	uc003ydy.2	+	6	718	c.670C>A	c.(670-672)CCA>ACA	p.P224T		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	224										ovary(3)	3						AAGTGATTCACCAGACTCGTT	0.373													22	67	---	---	---	---	PASS	A	88249239	A	A	88249239	3	1	172	1	0	0	0	0	1	0	0	0	3591	507	18	3	692	3	CNBD1	8	88249239	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	31978831	88249239	58114783	202	61462										
CSMD3	114788	broad.mit.edu	37	chr8	113484877	113484877	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atgtcccacactgtaattttTtggatagtttggtgatagaa	9	5	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:113484877T>A	uc003ynu.2	-	32	5497	c.5338A>T	c.(5338-5340)AAA>TAA	p.K1780*	CSMD3_uc003yns.2_Nonsense_Mutation_p.K1052*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.K1740*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.K1676*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1780	Extracellular (Potential).|CUB 10.					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						CTGTAATTTTTTGGATAGTTT	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			18	40	---	---	---	---	PASS	A	113484877	A	A	113484877	4	1	172	1	0	0	0	0	0	1	0	0	3946	1850	64	5	5945	5	CSMD3	8	113484877	Nonsense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	25235638	113484877	32879145	203	61463										
CSMD3	114788	broad.mit.edu	37	chr8	113694737	113694737	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aagaatacatgtaattgtttCtgttccctgggttttaataa	7	5	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:113694737C>T	uc003ynu.2	-	16	2770	c.2611G>A	c.(2611-2613)GAA>AAA	p.E871K	CSMD3_uc003yns.2_Missense_Mutation_p.E143K|CSMD3_uc003ynt.2_Missense_Mutation_p.E831K|CSMD3_uc011lhx.1_Missense_Mutation_p.E767K	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	871	Sushi 4.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GTAATTGTTTCTGTTCCCTGG	0.373										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			14	43	---	---	---	---	PASS	T	113694737	T	T	113694737	3	4	172	1	0	0	0	0	1	0	0	0	3946	922	32	2	8736	2	CSMD3	8	113694737	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	209860	113694737	32669285	204	61464										
ENPP2	5168	broad.mit.edu	37	chr8	120594825	120594825	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggtcccattattaggagctgGcttcaatcccaggagatcta	10	10	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:120594825G>A	uc003yot.1	-	18	1647	c.1561C>T	c.(1561-1563)CCA>TCA	p.P521S	ENPP2_uc011lic.1_Missense_Mutation_p.P38S|ENPP2_uc003yor.1_Missense_Mutation_p.P160S|ENPP2_uc003yos.1_Missense_Mutation_p.P573S|ENPP2_uc010mdd.1_Missense_Mutation_p.P521S	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	521					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TTAGGAGCTGGCTTCAATCCC	0.413													35	93	---	---	---	---	PASS	A	120594825	A	A	120594825	3	1	172	1	0	0	0	0	1	0	0	0	5130	1203	42	3	1141	3	ENPP2	8	120594825	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	6900088	120594825	25769197	205	61465										
COL14A1	7373	broad.mit.edu	37	chr8	121292969	121292969	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gcctgtccagtggtacacaaGgatggcattgatcttgcagg	13	9	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:121292969G>T	uc003yox.2	+	30	3931	c.3666G>T	c.(3664-3666)AAG>AAT	p.K1222N	COL14A1_uc003yoz.2_Missense_Mutation_p.K187N	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	1222	Nonhelical region (NC4).				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			TGGTACACAAGGATGGCATTG	0.373													15	22	---	---	---	---	PASS	T	121292969	T	T	121292969	3	4	172	1	0	0	0	0	1	0	0	0	3671	991	35	3	3780	3	COL14A1	8	121292969	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	698144	121292969	25071053	206	61466										
SNTB1	6641	broad.mit.edu	37	chr8	121706117	121706117	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gatactggggatcctttcttCacatagggcgtggcttctcg	12	10	3	0	rs140148929	byFrequency	TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:121706117C>T	uc010mdg.2	-	2	829	c.603G>A	c.(601-603)GTG>GTA	p.V201V	SNTB1_uc003ype.2_Silent_p.V201V	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	201	PH 1.				muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			ATCCTTTCTTCACATAGGGCG	0.517													13	59	---	---	---	---	PASS	T	121706117	T	T	121706117	2	4	172	1	0	0	0	0	0	0	0	1	14872	813	29	2		2	SNTB1	8	121706117	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	413148	121706117	24657905	207	61467										
OC90	729330	broad.mit.edu	37	chr8	133036764	133036764	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggcccgatccccaagggaccCagtgacttccgcagaaacct	10	16	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:133036764C>G	uc003ytg.2	-	13	1398	c.1398G>C	c.(1396-1398)CTG>CTC	p.L466L	OC90_uc011lix.1_Silent_p.L466L	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	482					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			CCAAGGGACCCAGTGACTTCC	0.597													5	13	---	---	---	---	PASS	G	133036764	G	G	133036764	2	3	172	1	0	0	0	0	0	0	0	1	10814	581	21	4		4	OC90	8	133036764	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	11330647	133036764	13327258	208	61468										
OC90	729330	broad.mit.edu	37	chr8	133053809	133053809	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aggcaacccttccatctcaaAcctgcaggtgcaaccatagt	7	14	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr8:133053809A>C	uc003ytg.2	-	3	259	c.259T>G	c.(259-261)TTT>GTT	p.F87V	OC90_uc011lix.1_Missense_Mutation_p.F103V	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	103	Phospholipase A2-like 1.				lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			TCCATCTCAAACCTGCAGGTG	0.498													21	39	---	---	---	---	PASS	C	133053809	C	C	133053809	3	2	172	1	0	0	0	0	1	0	0	0	10814	43	2	5	1166	5	OC90	8	133053809	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	17045	133053809	13310213	209	61469										
TOPORS	10210	broad.mit.edu	37	chr9	32541567	32541567	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aactgaagctgccagaggtgGaatattatctacagttttgt	10	6	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:32541567G>A	uc003zrb.2	-	3	3123	c.2956C>T	c.(2956-2958)CCA>TCA	p.P986S	TOPORS_uc003zrc.2_Missense_Mutation_p.P919S	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	986					DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		GCCAGAGGTGGAATATTATCT	0.398													113	43	---	---	---	---	PASS	A	32541567	A	A	32541567	3	1	172	1	0	0	0	0	1	0	0	0	16367	1174	41	2	185	2	TOPORS	9	32541567	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08		32541567	108671864	210	61470										
RASEF	158158	broad.mit.edu	37	chr9	85607851	85607851	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttctctccaaagtgccctggGacacatttttgtccctctgt	7	13	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:85607851G>A	uc004amo.1	-	15	2271	c.2010C>T	c.(2008-2010)GTC>GTT	p.V670V		NM_152573	NP_689786	Q8IZ41	RASEF_HUMAN	RAS and EF-hand domain containing	670					protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3						AGTGCCCTGGGACACATTTTT	0.493													25	46	---	---	---	---	PASS	A	85607851	A	A	85607851	2	1	172	1	0	0	0	0	0	0	0	1	13068	1161	41	2		2	RASEF	9	85607851	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	53066284	85607851	55605580	211	61471										
FBP2	8789	broad.mit.edu	37	chr9	97333785	97333785	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cacgccttgccctgtggagaGagccaccagggttgcactac	12	14	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:97333785G>A	uc004auv.2	-	4	593	c.526C>T	c.(526-528)CTC>TTC	p.L176F	uc004auu.2_Intron	NM_003837	NP_003828	O00757	F16P2_HUMAN	fructose-1,6-bisphosphatase 2	176					fructose metabolic process|gluconeogenesis	cytosol	fructose 1,6-bisphosphate 1-phosphatase activity|fructose-2,6-bisphosphate 2-phosphatase activity|metal ion binding				0		Acute lymphoblastic leukemia(62;0.136)				CCTGTGGAGAGAGCCACCAGG	0.567													7	26	---	---	---	---	PASS	A	97333785	A	A	97333785	3	1	172	1	0	0	0	0	1	0	0	0	5706	942	33	2	509	2	FBP2	9	97333785	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	11725934	97333785	43879646	212	61472										
C9orf102	375748	broad.mit.edu	37	chr9	98669439	98669439	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctggggatatttcagagtcaCtgttttacatggaaacagaa	10	6	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:98669439C>G	uc004avt.3	+	4	1095	c.707C>G	c.(706-708)ACT>AGT	p.T236S	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Intron|C9orf102_uc010mry.1_Intron|C9orf102_uc010mrz.2_Missense_Mutation_p.T47S	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	236	Helicase ATP-binding.				DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				TTCAGAGTCACTGTTTTACAT	0.348													14	26	---	---	---	---	PASS	G	98669439	G	G	98669439	3	3	172	1	0	0	0	0	1	0	0	0	2445	565	20	4	721	4	C9orf102	9	98669439	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1335654	98669439	42543992	213	61473										
CTSL2	1515	broad.mit.edu	37	chr9	99797040	99797040	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agccaatacttgctgttattCgaatttgctccttcaaagcc	6	11	1	0	rs145877427		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:99797040C>T	uc004awt.2	-	7	1070	c.873G>A	c.(871-873)TCG>TCA	p.S291S	CTSL2_uc010msi.2_Silent_p.S291S|CTSL2_uc004awu.2_Silent_p.S236S|CTSL2_uc010msj.1_Silent_p.S236S	NM_001333	NP_001324	O60911	CATL2_HUMAN	cathepsin L2 preproprotein	291						lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(62;0.0559)				TGCTGTTATTCGAATTTGCTC	0.383													14	39	---	---	---	---	PASS	T	99797040	T	T	99797040	2	4	172	1	0	0	0	0	0	0	0	1	4039	871	31	2		2	CTSL2	9	99797040	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	1127601	99797040	41416391	214	61474										
ALG2	85365	broad.mit.edu	37	chr9	101980956	101980956	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gctgttgactaagatgcagtCtgccatgcctgtggtgtatt	12	8	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:101980956C>T	uc004azf.2	-	2	581	c.511G>A	c.(511-513)GAC>AAC	p.D171N	ALG2_uc004azg.2_Missense_Mutation_p.D78N	NM_033087	NP_149078	Q9H553	ALG2_HUMAN	alpha-1,3-mannosyltransferase ALG2	171					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in endoplasmic reticulum|protein N-linked glycosylation via asparagine|response to calcium ion	endoplasmic reticulum membrane|integral to membrane|membrane fraction|nucleus|perinuclear region of cytoplasm	alpha-1,3-mannosyltransferase activity|calcium-dependent protein binding|glycolipid 3-alpha-mannosyltransferase activity|protein anchor|protein heterodimerization activity|protein N-terminus binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.0559)				AAGATGCAGTCTGCCATGCCT	0.448													13	36	---	---	---	---	PASS	T	101980956	T	T	101980956	3	4	172	1	0	0	0	0	1	0	0	0	519	913	32	2	743	2	ALG2	9	101980956	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	2183916	101980956	39232475	215	61475										
CYLC2	1539	broad.mit.edu	37	chr9	105767646	105767646	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aagcagatgaaaagaaggatGaggatggaaaaaaagatgca	13	2	0	5			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:105767646G>T	uc004bbs.2	+	5	803	c.733G>T	c.(733-735)GAG>TAG	p.E245*		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	245	31 X 3 AA repeats of K-K-X.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				AAAGAAGGATGAGGATGGAAA	0.368													6	103	---	---	---	---	PASS	T	105767646	T	T	105767646	4	4	172	1	0	0	0	0	0	1	0	0	4142	1291	45	2	751	2	CYLC2	9	105767646	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	3786690	105767646	35445785	216	61476										
ZNF883	169834	broad.mit.edu	37	chr9	115760266	115760266	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctcataaggtttctccccagTatggactctttgatgctgaa	8	10	3	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:115760266T>C	uc011lwy.1	-	5	1513	c.274A>G	c.(274-276)ACT>GCT	p.T92A		NM_001101338	NP_001094808	P0CG24	ZN883_HUMAN	hypothetical protein LOC169834	92					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTCTCCCCAGTATGGACTCTT	0.363													15	27	---	---	---	---	PASS	C	115760266	C	C	115760266	3	2	172	1	0	0	0	0	1	0	0	0	18195	1638	57	5	867	5	ZNF883	9	115760266	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	9992620	115760266	25453165	217	61477										
CDK5RAP2	55755	broad.mit.edu	37	chr9	123220895	123220895	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cctcctttggaaaggtctttCataatctgcaaataaaagta	6	8	3	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:123220895C>G	uc004bkf.2	-	20	2389	c.2208G>C	c.(2206-2208)ATG>ATC	p.M736I	CDK5RAP2_uc004bke.2_Missense_Mutation_p.M21I|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.M736I|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.M1I|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.M1I|CDK5RAP2_uc011lya.1_Missense_Mutation_p.M1I|CDK5RAP2_uc004bkh.1_Intron|CDK5RAP2_uc004bki.2_Missense_Mutation_p.M503I	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	736					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						AAAGGTCTTTCATAATCTGCA	0.453													8	68	---	---	---	---	PASS	G	123220895	G	G	123220895	3	3	172	1	0	0	0	0	1	0	0	0	3146	826	29	2	3549	2	CDK5RAP2	9	123220895	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	7460629	123220895	17992536	218	61478										
PHF19	26147	broad.mit.edu	37	chr9	123636960	123636960	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gccagggcccccttgttgggGaggtggctggtggcaccata	17	11	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:123636960G>T	uc004bks.1	-	2	313	c.60C>A	c.(58-60)CTC>CTA	p.L20L	PHF19_uc004bkt.2_Silent_p.L20L|PHF19_uc010mvk.2_Silent_p.L20L	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a	20					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						CCTTGTTGGGGAGGTGGCTGG	0.567													6	85	---	---	---	---	PASS	T	123636960	T	T	123636960	2	4	172	1	0	0	0	0	0	0	0	1	11829	1161	41	2		2	PHF19	9	123636960	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	416065	123636960	17576471	219	61479										
SLC25A25	114789	broad.mit.edu	37	chr9	130869708	130869708	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aacctgaagatcaccctgggCgtgcagtcgcggtgacgggg	16	11	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:130869708C>A	uc004bte.2	+	10	1424	c.1395C>A	c.(1393-1395)GGC>GGA	p.G465G	SLC25A25_uc004btb.2_Silent_p.G499G|SLC25A25_uc004btc.2_Silent_p.G485G|SLC25A25_uc004btd.2_Silent_p.G497G|SLC25A25_uc004btf.2_Silent_p.G362G	NM_052901	NP_443133	Q6KCM7	SCMC2_HUMAN	solute carrier family 25, member 25 isoform a	465	Mitochondrial intermembrane (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding				0						TCACCCTGGGCGTGCAGTCGC	0.637													22	83	---	---	---	---	PASS	A	130869708	A	A	130869708	2	1	172	1	0	0	0	0	0	0	0	1	14488	755	27	1		1	SLC25A25	9	130869708	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	7232748	130869708	10343723	220	61480										
GOLGA2	2801	broad.mit.edu	37	chr9	131021485	131021485	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tggcgggccatctcggccacCgctttgccctgagcttcctg	12	16	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:131021485C>T	uc011maw.1	-	19	1990	c.1977G>A	c.(1975-1977)GCG>GCA	p.A659A	GOLGA2_uc010mxw.2_Intron|GOLGA2_uc004buh.2_Silent_p.A132A	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	659	Potential.					Golgi cisterna membrane	protein binding			ovary(1)	1						TCTCGGCCACCGCTTTGCCCT	0.617													7	20	---	---	---	---	PASS	T	131021485	T	T	131021485	2	4	172	1	0	0	0	0	0	0	0	1	6552	639	23	1		1	GOLGA2	9	131021485	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	151777	131021485	10191946	221	61481										
PRRX2	51450	broad.mit.edu	37	chr9	132484622	132484622	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	caccacagccaggtgcctacGgtgaactgaagtccagtccc	10	15	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:132484622G>T	uc004byh.2	+	4	980	c.753G>T	c.(751-753)ACG>ACT	p.T251T		NM_016307	NP_057391	Q99811	PRRX2_HUMAN	paired related homeobox 2	251						nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1		Ovarian(14;0.00556)				AGGTGCCTACGGTGAACTGAA	0.622													14	21	---	---	---	---	PASS	T	132484622	T	T	132484622	2	4	172	1	0	0	0	0	0	0	0	1	12613	1103	39	1		1	PRRX2	9	132484622	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	1463137	132484622	8728809	222	61482										
OBP2A	29991	broad.mit.edu	37	chr9	138439740	138439740	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggggcaggaagctcatatacCtgcaggagctgcccgggacg	16	11	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:138439740C>A	uc004cgb.2	+	4	343	c.301C>A	c.(301-303)CTG>ATG	p.L101M	OBP2A_uc004cgc.2_Missense_Mutation_p.L101M|OBP2A_uc010nau.2_RNA|OBP2A_uc010nav.2_Missense_Mutation_p.P56H	NM_014582	NP_055397	Q9NY56	OBP2A_HUMAN	odorant binding protein 2A precursor	101					response to stimulus|sensory perception of smell	extracellular region	odorant binding|transporter activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.39e-07)|Epithelial(140;1.11e-06)|all cancers(34;2.04e-05)		GCTCATATACCTGCAGGAGCT	0.587													10	24	---	---	---	---	PASS	A	138439740	A	A	138439740	3	1	172	1	0	0	0	0	1	0	0	0	10810	680	24	3	315	3	OBP2A	9	138439740	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	5955118	138439740	2773691	223	61483										
NOTCH1	4851	broad.mit.edu	37	chr9	139402784	139402784	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cggtactgggtgtgggtctgCcagcatttgccgccgttctt	14	11	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr9:139402784C>T	uc004chz.2	-	20	3225	c.3225G>A	c.(3223-3225)TGG>TGA	p.W1075*	NOTCH1_uc004cia.1_Nonsense_Mutation_p.W305*	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1075	Extracellular (Potential).|EGF-like 28.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		TGTGGGTCTGCCAGCATTTGC	0.662			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			13	68	---	---	---	---	PASS	T	139402784	T	T	139402784	4	4	172	1	0	0	0	0	0	1	0	0	10547	740	26	3	4502	3	NOTCH1	9	139402784	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	963044	139402784	1810647	224	61484										
GPR158	57512	broad.mit.edu	37	chr10	25885705	25885705	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gagtgagcacagcttggatcCagaggacattcgggtaatgc	14	8	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:25885705C>A	uc001isj.2	+	10	2192	c.2132C>A	c.(2131-2133)CCA>CAA	p.P711Q	GPR158_uc001isk.2_Missense_Mutation_p.P86Q	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	711	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						AGCTTGGATCCAGAGGACATT	0.483													19	27	---	---	---	---	PASS	A	25885705	A	A	25885705	3	1	172	1	0	0	0	0	1	0	0	0	6663	594	21	3	2170	3	GPR158	10	25885705	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08		25885705	109649042	225	61485										
ARMC4	55130	broad.mit.edu	37	chr10	28228919	28228919	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atgatcctttctgctttgatTgcagcccggtagttttccta	8	10	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:28228919T>A	uc009xky.2	-	14	2102	c.2004A>T	c.(2002-2004)GCA>GCT	p.A668A	ARMC4_uc010qds.1_Silent_p.A193A|ARMC4_uc010qdt.1_Silent_p.A360A|ARMC4_uc001itz.2_Silent_p.A668A	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	668	ARM 4.|HEAT.						binding			ovary(4)|skin(2)	6						CTGCTTTGATTGCAGCCCGGT	0.388													11	19	---	---	---	---	PASS	A	28228919	A	A	28228919	2	1	172	1	0	0	0	0	0	0	0	1	953	1799	63	5		5	ARMC4	10	28228919	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08	2343214	28228919	107305828	226	61486										
MPP7	143098	broad.mit.edu	37	chr10	28345494	28345494	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctctcaaacgctctattgatGgaggctttataaatatcaca	6	9	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:28345494G>T	uc001iua.1	-	18	1870	c.1466C>A	c.(1465-1467)CCA>CAA	p.P489Q	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Missense_Mutation_p.P489Q|MPP7_uc009xla.2_Missense_Mutation_p.P489Q|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	489	Guanylate kinase-like.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						CTCTATTGATGGAGGCTTTAT	0.358													7	87	---	---	---	---	PASS	T	28345494	T	T	28345494	3	4	172	1	0	0	0	0	1	0	0	0	9739	1348	47	3	272	3	MPP7	10	28345494	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	116575	28345494	107189253	227	61487										
ZNF33A	7581	broad.mit.edu	37	chr10	38344482	38344482	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atgtcttgagtgtgggaaatCctttagtgaaaagtcaaatc	10	5	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:38344482C>A	uc001izh.2	+	5	1605	c.1427C>A	c.(1426-1428)TCC>TAC	p.S476Y	ZNF33A_uc001izg.2_Missense_Mutation_p.S477Y|ZNF33A_uc010qev.1_Missense_Mutation_p.S483Y|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	476	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						TGTGGGAAATCCTTTAGTGAA	0.383													17	23	---	---	---	---	PASS	A	38344482	A	A	38344482	3	1	172	1	0	0	0	0	1	0	0	0	17851	855	30	2	1444	2	ZNF33A	10	38344482	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	9998988	38344482	97190265	228	61488										
ZNF33A	7581	broad.mit.edu	37	chr10	38344544	38344544	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	acataggagataaatcttatGaatgtaatgcatgtgggaaa	10	3	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:38344544G>A	uc001izh.2	+	5	1667	c.1489G>A	c.(1489-1491)GAA>AAA	p.E497K	ZNF33A_uc001izg.2_Missense_Mutation_p.E498K|ZNF33A_uc010qev.1_Missense_Mutation_p.E504K|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	497	C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						TAAATCTTATGAATGTAATGC	0.368													8	39	---	---	---	---	PASS	A	38344544	A	A	38344544	3	1	172	1	0	0	0	0	1	0	0	0	17851	1291	45	2	1506	2	ZNF33A	10	38344544	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	62	38344544	97190203	229	61489										
ZNF37A	7587	broad.mit.edu	37	chr10	38406785	38406785	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atctcactccaattcagagaAcccactcaattaacaatatt	2	12	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:38406785A>T	uc001izk.2	+	8	1525	c.706A>T	c.(706-708)ACC>TCC	p.T236S	ZNF37A_uc001izl.2_Missense_Mutation_p.T236S|ZNF37A_uc001izm.2_Missense_Mutation_p.T236S	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	236						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						AATTCAGAGAACCCACTCAAT	0.333													15	25	---	---	---	---	PASS	T	38406785	T	T	38406785	3	4	172	1	0	0	0	0	1	0	0	0	17869	43	2	5	720	5	ZNF37A	10	38406785	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	62241	38406785	97127962	230	61490										
ZNF485	220992	broad.mit.edu	37	chr10	44111890	44111890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gagaagaactataagtgcaaGgaatgtgggaaagtcttcaa	12	4	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:44111890G>T	uc010qfc.1	+	5	593	c.399G>T	c.(397-399)AAG>AAT	p.K133N	ZNF485_uc010qfd.1_Missense_Mutation_p.K42N	NM_145312	NP_660355	Q8NCK3	ZN485_HUMAN	zinc finger protein 485	133	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATAAGTGCAAGGAATGTGGGA	0.448													5	65	---	---	---	---	PASS	T	44111890	T	T	44111890	3	4	172	1	0	0	0	0	1	0	0	0	17935	991	35	3	413	3	ZNF485	10	44111890	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	5705105	44111890	91422857	231	61491										
RASSF4	83937	broad.mit.edu	37	chr10	45480357	45480357	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gcccaagtgccgcgcccccgGtgaggcccagcgcatccggc	14	19	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:45480357G>A	uc001jbo.2	+	6	604	c.470G>A	c.(469-471)GGT>GAT	p.G157D	RASSF4_uc001jbp.2_Missense_Mutation_p.G188D|RASSF4_uc009xmn.2_Missense_Mutation_p.G87D|RASSF4_uc001jbq.2_Missense_Mutation_p.G54D|RASSF4_uc001jbt.2_Missense_Mutation_p.G114D	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	157					cell cycle|signal transduction		protein binding			large_intestine(1)	1						CGCGCCCCCGGTGAGGCCCAG	0.677													17	48	---	---	---	---	PASS	A	45480357	A	A	45480357	3	1	172	1	0	0	0	0	1	0	0	0	13088	1261	44	3	488	3	RASSF4	10	45480357	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1368467	45480357	90054390	232	61492										
IPMK	253430	broad.mit.edu	37	chr10	59986886	59986886	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agaagaacaccatcaaaacaGtcagcagcataaacctgaaa	6	10	2	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:59986886G>A	uc001jkb.2	-	3	614	c.291C>T	c.(289-291)GAC>GAT	p.D97D		NM_152230	NP_689416	Q8NFU5	IPMK_HUMAN	inositol polyphosphate multikinase	97						nucleus	ATP binding|inositol trisphosphate 6-kinase activity			ovary(1)	1						CATCAAAACAGTCAGCAGCAT	0.353													18	47	---	---	---	---	PASS	A	59986886	A	A	59986886	2	1	172	1	0	0	0	0	0	0	0	1	7792	1020	36	3		3	IPMK	10	59986886	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	14506529	59986886	75547861	233	61493										
USP54	159195	broad.mit.edu	37	chr10	75276843	75276843	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctggcctataggtctcctcaCtgcctctgtccacttttaaa	6	14	3	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:75276843C>A	uc001juo.2	-	18	3358	c.3341G>T	c.(3340-3342)AGT>ATT	p.S1114I	USP54_uc010qkk.1_Missense_Mutation_p.S296I|USP54_uc001juk.2_Missense_Mutation_p.S202I|USP54_uc001jul.2_Missense_Mutation_p.S202I|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	1114					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					GGTCTCCTCACTGCCTCTGTC	0.498													23	35	---	---	---	---	PASS	A	75276843	A	A	75276843	3	1	172	1	0	0	0	0	1	0	0	0	17082	565	20	3	1733	3	USP54	10	75276843	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	15289957	75276843	60257904	234	61494										
MYST4	23522	broad.mit.edu	37	chr10	76790376	76790376	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgagaaccaagtcagcgtctCtgtcaccagccgctgccacc	9	16	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:76790376C>A	uc001jwn.1	+	18	6287	c.5794C>A	c.(5794-5796)CTG>ATG	p.L1932M	MYST4_uc001jwo.1_Missense_Mutation_p.L1640M|MYST4_uc001jwp.1_Missense_Mutation_p.L1749M	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1932	Interaction with RUNX1 and RUNX2.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					GTCAGCGTCTCTGTCACCAGC	0.532			T	CREBBP	AML								5	60	---	---	---	---	PASS	A	76790376	A	A	76790376	3	1	172	1	0	0	0	0	1	0	0	0	10105	912	32	2	5856	2	MYST4	10	76790376	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1513533	76790376	58744371	235	61495										
SFTPD	6441	broad.mit.edu	37	chr10	81701710	81701710	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cagctctttccactgctcacCtgctgcccctgtgtttccag	7	17	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:81701710C>A	uc001kbh.2	-	5	593	c.550G>T	c.(550-552)GGG>TGG	p.G184W	MBL1P_uc001kbf.2_Intron	NM_003019	NP_003010	P35247	SFTPD_HUMAN	pulmonary surfactant-associated protein D	184	Collagen-like.				cell junction assembly|innate immune response|lung alveolus development|macrophage chemotaxis|negative regulation of interleukin-2 biosynthetic process|negative regulation of T cell proliferation|positive regulation of phagocytosis|reactive oxygen species metabolic process|receptor-mediated endocytosis|respiratory gaseous exchange|surfactant homeostasis	collagen|endocytic vesicle|extracellular space|lysosome	bacterial cell surface binding|protein binding|sugar binding			skin(1)	1	Breast(12;0.000615)|Prostate(51;0.0095)|all_epithelial(25;0.027)		Epithelial(14;0.0244)|all cancers(16;0.0558)|Colorectal(32;0.109)			CACTGCTCACCTGCTGCCCCT	0.642													5	50	---	---	---	---	PASS	A	81701710	A	A	81701710	3	1	172	1	0	0	0	0	1	0	0	0	14193	695	24	3	593	3	SFTPD	10	81701710	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	4911334	81701710	53833037	236	61496										
MARCH5	54708	broad.mit.edu	37	chr10	94109448	94109448	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggataggttgtcctgttcctCgaattccagctgaggccaat	11	10	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:94109448C>A	uc001khx.1	+	5	906	c.574C>A	c.(574-576)CGA>AGA	p.R192R	MARCH5_uc010qno.1_Silent_p.R88R	NM_017824	NP_060294	Q9NX47	MARH5_HUMAN	membrane-associated ring finger (C3HC4) 5	192					cell aging|protein autoubiquitination|protein localization in mitochondrion|protein polyubiquitination|regulation of mitochondrial fission	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane	GTPase binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1						TCCTGTTCCTCGAATTCCAGC	0.418													8	289	---	---	---	---	PASS	A	94109448	A	A	94109448	2	1	172	1	0	0	0	0	0	0	0	1	9304	876	31	2		2	MARCH5	10	94109448	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	12407738	94109448	41425299	237	61497										
ABCC2	1244	broad.mit.edu	37	chr10	101604082	101604082	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcttgtctccttgccaggcaCcctgggtgactgataagagg	12	11	2	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:101604082C>A	uc001kqf.2	+	28	3986	c.3847C>A	c.(3847-3849)CCC>ACC	p.P1283T		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	1283	Cytoplasmic (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TTGCCAGGCACCCTGGGTGAC	0.527													15	30	---	---	---	---	PASS	A	101604082	A	A	101604082	3	1	172	1	0	0	0	0	1	0	0	0	53	507	18	3	3957	3	ABCC2	10	101604082	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	7494634	101604082	33930665	238	61498										
PKD2L1	9033	broad.mit.edu	37	chr10	102054794	102054794	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aaaacaatgaagaacatgacGgcgaagcccaggatgtcctt	10	9	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:102054794G>T	uc001kqx.1	-	8	1826	c.1443C>A	c.(1441-1443)GCC>GCA	p.A481A	PKD2L1_uc009xwm.1_Silent_p.A434A	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	481	Helical; (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		AGAACATGACGGCGAAGCCCA	0.507													20	50	---	---	---	---	PASS	T	102054794	T	T	102054794	2	4	172	1	0	0	0	0	0	0	0	1	11967	1103	39	1		1	PKD2L1	10	102054794	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	450712	102054794	33479953	239	61499										
AS3MT	57412	broad.mit.edu	37	chr10	104638234	104638234	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tggtcactgccaatctcattAcaattcaaaacaaggaactg	6	10	3	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:104638234A>T	uc001kwk.2	+	8	849	c.709A>T	c.(709-711)ACA>TCA	p.T237S	AS3MT_uc001kwj.2_Missense_Mutation_p.T239S|AS3MT_uc009xxh.2_Missense_Mutation_p.T237S	NM_020682	NP_065733	Q9HBK9	AS3MT_HUMAN	arsenic (+3 oxidation state) methyltransferase	237					arsonoacetate metabolic process|toxin metabolic process	cytosol	arsenite methyltransferase activity|methylarsonite methyltransferase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;5.87e-09)|all cancers(201;1.58e-07)|BRCA - Breast invasive adenocarcinoma(275;0.223)		CAATCTCATTACAATTCAAAA	0.418													24	73	---	---	---	---	PASS	T	104638234	T	T	104638234	3	4	172	1	0	0	0	0	1	0	0	0	1005	391	14	5	739	5	AS3MT	10	104638234	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	2583440	104638234	30896513	240	61500										
ADRB1	153	broad.mit.edu	37	chr10	115804389	115804389	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atcacctcgcccttccgctaCcagagcctgctgacgcgcgc	9	19	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:115804389C>A	uc001lba.2	+	1	584	c.498C>A	c.(496-498)TAC>TAA	p.Y166*		NM_000684	NP_000675	P08588	ADRB1_HUMAN	beta-1-adrenergic receptor	166	Cytoplasmic (By similarity).				positive regulation of cAMP biosynthetic process	integral to plasma membrane	alpha-2A adrenergic receptor binding|beta1-adrenergic receptor activity|protein heterodimerization activity				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0124)|all cancers(201;0.0298)	Acebutolol(DB01193)|Alprenolol(DB00866)|Amiodarone(DB01118)|Arbutamine(DB01102)|Atenolol(DB00335)|Betaxolol(DB00195)|Bevantolol(DB01295)|Bisoprolol(DB00612)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Desipramine(DB01151)|Dobutamine(DB00841)|Dopamine(DB00988)|Epinephrine(DB00668)|Esmolol(DB00187)|Isoetharine(DB00221)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Metoprolol(DB00264)|Nadolol(DB01203)|Norepinephrine(DB00368)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Practolol(DB01297)|Propranolol(DB00571)|Risperidone(DB00734)|Timolol(DB00373)|Ziprasidone(DB00246)	CCTTCCGCTACCAGAGCCTGC	0.572													16	32	---	---	---	---	PASS	A	115804389	A	A	115804389	4	1	172	1	0	0	0	0	0	1	0	0	340	518	18	3	500	3	ADRB1	10	115804389	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	11166155	115804389	19730358	241	61501										
PNLIPRP1	5407	broad.mit.edu	37	chr10	118363606	118363606	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	actggtcagatcaaagttgcTttgtttggaaataagggaaa	11	4	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:118363606T>A	uc001lco.1	+	11	1146	c.1128T>A	c.(1126-1128)GCT>GCA	p.A376A	PNLIPRP1_uc001lcp.2_Silent_p.A376A	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	376	PLAT.				lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		TCAAAGTTGCTTTGTTTGGAA	0.413													5	16	---	---	---	---	PASS	A	118363606	A	A	118363606	2	1	172	1	0	0	0	0	0	0	0	1	12150	1596	56	5		5	PNLIPRP1	10	118363606	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08	2559217	118363606	17171141	242	61502										
KCNK18	338567	broad.mit.edu	37	chr10	118957018	118957018	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cgatggaggtctcggggcacCcccaggccaggagatgctgc	16	13	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:118957018C>G	uc010qsr.1	+	1	19	c.19C>G	c.(19-21)CCC>GCC	p.P7A		NM_181840	NP_862823	Q7Z418	KCNKI_HUMAN	potassium channel, subfamily K, member 18	7	Cytoplasmic (Potential).					integral to membrane|plasma membrane				upper_aerodigestive_tract(1)	1		Colorectal(252;0.19)		all cancers(201;0.0211)		CTCGGGGCACCCCCAGGCCAG	0.632													11	22	---	---	---	---	PASS	G	118957018	G	G	118957018	3	3	172	1	0	0	0	0	1	0	0	0	8065	623	22	4	21	4	KCNK18	10	118957018	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	593412	118957018	16577729	243	61503										
EIF3A	8661	broad.mit.edu	37	chr10	120797901	120797901	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttctgatggccttgattctcGaggtggaccccagctctcct	10	13	3	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:120797901G>T	uc001ldu.2	-	20	3723	c.3577C>A	c.(3577-3579)CGA>AGA	p.R1193R	EIF3A_uc010qsu.1_Silent_p.R1159R|EIF3A_uc009xzg.1_Silent_p.R232R	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	1193	Asp-rich.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		CTTGATTCTCGAGGTGGACCC	0.244													6	152	---	---	---	---	PASS	T	120797901	T	T	120797901	2	4	172	1	0	0	0	0	0	0	0	1	5012	1066	37	2		2	EIF3A	10	120797901	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	1840883	120797901	14736846	244	61504										
CUZD1	50624	broad.mit.edu	37	chr10	124594350	124594350	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgaacaaaaagagtttggttCaaatccacataatatggtga	8	5	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:124594350C>T	uc001lgq.2	-	7	1586	c.1254G>A	c.(1252-1254)TTG>TTA	p.L418L	CUZD1_uc001lgp.2_Silent_p.L137L|CUZD1_uc009yad.2_Silent_p.L137L|CUZD1_uc009yaf.2_Silent_p.L52L|CUZD1_uc001lgr.2_Silent_p.L137L|CUZD1_uc010qty.1_Silent_p.L137L|CUZD1_uc009yae.2_Silent_p.L137L|CUZD1_uc001lgs.2_Silent_p.L418L|CUZD1_uc010qtz.1_Silent_p.L418L	NM_022034	NP_071317	Q86UP6	CUZD1_HUMAN	CUB and zona pellucida-like domains 1 precursor	418	Extracellular (Potential).|ZP.				cell cycle|cell division|cell proliferation|substrate-dependent cell migration, cell attachment to substrate|trypsinogen activation	integral to membrane|transport vesicle membrane|zymogen granule membrane				ovary(1)|skin(1)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.126)|COAD - Colon adenocarcinoma(40;0.141)		GAGTTTGGTTCAAATCCACAT	0.383													10	25	---	---	---	---	PASS	T	124594350	T	T	124594350	2	4	172	1	0	0	0	0	0	0	0	1	4066	825	29	2		2	CUZD1	10	124594350	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	3796449	124594350	10940397	245	61505										
MKI67	4288	broad.mit.edu	37	chr10	129902137	129902137	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgctgggttcctcttctactGggtttggtttcttctttgca	10	9	4	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr10:129902137G>T	uc001lke.2	-	13	8162	c.7967C>A	c.(7966-7968)CCA>CAA	p.P2656Q	MKI67_uc001lkf.2_Missense_Mutation_p.P2296Q|MKI67_uc009yav.1_Missense_Mutation_p.P2231Q|MKI67_uc009yaw.1_Missense_Mutation_p.P1806Q	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2656	14.|16 X 122 AA approximate repeats.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				CTCTTCTACTGGGTTTGGTTT	0.512													21	53	---	---	---	---	PASS	T	129902137	T	T	129902137	3	4	172	1	0	0	0	0	1	0	0	0	9598	1348	47	3	1815	3	MKI67	10	129902137	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	5307787	129902137	5632610	246	61506										
SIRT3	23410	broad.mit.edu	37	chr11	218844	218844	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtctgtaccttcccagtttcCcgctgcacaaggtcccgcat	8	16	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:218844C>A	uc001lok.3	-	6	1201	c.1167G>T	c.(1165-1167)CGG>CGT	p.R389R	SIRT3_uc001loj.3_Silent_p.R247R|SIRT3_uc010qvm.1_Silent_p.R325R|SIRT3_uc010qvn.1_Silent_p.R308R|SIRT3_uc010qvo.1_Silent_p.R389R|SIRT3_uc010qvp.1_Silent_p.R335R|SIRT3_uc010qvq.1_Silent_p.R247R	NM_012239	NP_036371	Q9NTG7	SIRT3_HUMAN	sirtuin 3 isoform a	389					chromatin silencing|protein ADP-ribosylation|protein deacetylation	mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|protein binding|zinc ion binding			urinary_tract(1)	1		all_cancers(49;1.58e-09)|all_epithelial(84;2.71e-06)|Breast(177;0.000162)|Ovarian(85;0.000626)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;3.66e-27)|Epithelial(43;2.02e-26)|OV - Ovarian serous cystadenocarcinoma(40;2.9e-21)|BRCA - Breast invasive adenocarcinoma(625;3.88e-05)|Lung(200;0.111)|LUSC - Lung squamous cell carcinoma(625;0.129)		TCCCAGTTTCCCGCTGCACAA	0.607													13	35	---	---	---	---	PASS	A	218844	A	A	218844	2	1	172	1	0	0	0	0	0	0	0	1	14339	610	22	3		3	SIRT3	11	218844	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08		218844	134787672	247	61507										
ATHL1	80162	broad.mit.edu	37	chr11	292014	292014	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agtatcctgatgttccacccAgaagccgccagggccatcct	9	15	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:292014A>G	uc010qvu.1	+	5	1060	c.945A>G	c.(943-945)CCA>CCG	p.P315P	ATHL1_uc001lor.3_Silent_p.P138P|ATHL1_uc001los.1_Silent_p.P315P|ATHL1_uc001lou.3_5'Flank|ATHL1_uc001lov.3_5'Flank	NM_025092	NP_079368	Q32M88	ATHL1_HUMAN	ATH1, acid trehalase-like 1	315					carbohydrate metabolic process		hydrolase activity, acting on glycosyl bonds			liver(1)|central_nervous_system(1)|skin(1)	3		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.38e-28)|Epithelial(43;3.25e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0327)|LUSC - Lung squamous cell carcinoma(625;0.122)		TGTTCCACCCAGAAGCCGCCA	0.672													5	10	---	---	---	---	PASS	G	292014	G	G	292014	2	3	172	1	0	0	0	0	0	0	0	1	1104	175	7	5		5	ATHL1	11	292014	Silent	SNP	A	TCGA-66-2795-01A-02D-0983-08	73170	292014	134714502	248	61508										
OR51F1	256892	broad.mit.edu	37	chr11	4790944	4790944	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aagcccagatcagtggctgaTagcctgaagaggaaataata	11	7	1	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:4790944T>C	uc010qyl.1	-	1	204	c.204A>G	c.(202-204)CTA>CTG	p.L68L		NM_001004752	NP_001004752	A6NLW9	A6NLW9_HUMAN	olfactory receptor, family 51, subfamily F,	68						integral to membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.87e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0045)|LUSC - Lung squamous cell carcinoma(625;0.192)		CAGTGGCTGATAGCCTGAAGA	0.448													11	25	---	---	---	---	PASS	C	4790944	C	C	4790944	2	2	172	1	0	0	0	0	0	0	0	1	11096	1393	49	5		5	OR51F1	11	4790944	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08	4498930	4790944	130215572	249	61509										
OR51S1	119692	broad.mit.edu	37	chr11	4870257	4870257	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gcattgggcggtgcagggcgGgctgcagggcaatgatccag	19	9	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:4870257G>A	uc010qyo.1	-	1	182	c.182C>T	c.(181-183)CCC>CTC	p.P61L		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	61	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		GTGCAGGGCGGGCTGCAGGGC	0.562													22	38	---	---	---	---	PASS	A	4870257	A	A	4870257	3	1	172	1	0	0	0	0	1	0	0	0	11105	1232	43	3	792	3	OR51S1	11	4870257	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	79313	4870257	130136259	250	61510										
DCHS1	8642	broad.mit.edu	37	chr11	6644526	6644526	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccgacacagtgacagaggctGagagattcccagcatcagca	11	12	1	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:6644526G>A	uc001mem.1	-	21	8791	c.8381C>T	c.(8380-8382)TCA>TTA	p.S2794L		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	2794	Cadherin 26.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GACAGAGGCTGAGAGATTCCC	0.567													4	8	---	---	---	---	PASS	A	6644526	A	A	6644526	3	1	172	1	0	0	0	0	1	0	0	0	4287	1294	45	2	1519	2	DCHS1	11	6644526	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1774269	6644526	128361990	251	61511										
OR5P2	120065	broad.mit.edu	37	chr11	7818157	7818157	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cggtcataggccatggcagcCagaaggacgcattcgactgt	13	11	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:7818157C>A	uc001mfp.1	-	1	333	c.333G>T	c.(331-333)CTG>CTT	p.L111L		NM_153444	NP_703145	Q8WZ92	OR5P2_HUMAN	olfactory receptor, family 5, subfamily P,	111	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CCATGGCAGCCAGAAGGACGC	0.473													40	86	---	---	---	---	PASS	A	7818157	A	A	7818157	2	1	172	1	0	0	0	0	0	0	0	1	11178	581	21	3		3	OR5P2	11	7818157	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	1173631	7818157	127188359	252	61512										
MICALCL	84953	broad.mit.edu	37	chr11	12316029	12316029	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gcacccacagtttgcccaatCggccatccaaggtctttcct	7	16	1	0	rs113400332		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:12316029C>T	uc001mkg.1	+	3	1342	c.1051C>T	c.(1051-1053)CGG>TGG	p.R351W		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	351					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		TTTGCCCAATCGGCCATCCAA	0.552													35	80	---	---	---	---	PASS	T	12316029	T	T	12316029	3	4	172	1	0	0	0	0	1	0	0	0	9572	875	31	2	1057	2	MICALCL	11	12316029	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	4497872	12316029	122690487	253	61513										
ANO3	63982	broad.mit.edu	37	chr11	26574888	26574888	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	caacgacagctgtatctatgCcaaggtgagtgtggaccctc	11	11	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:26574888C>A	uc001mqt.3	+	13	1527	c.1382C>A	c.(1381-1383)GCC>GAC	p.A461D	ANO3_uc010rdr.1_Missense_Mutation_p.A445D|ANO3_uc010rds.1_Missense_Mutation_p.A300D|ANO3_uc010rdt.1_Missense_Mutation_p.A315D	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	461	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGTATCTATGCCAAGGTGAGT	0.458													58	107	---	---	---	---	PASS	A	26574888	A	A	26574888	3	1	172	1	0	0	0	0	1	0	0	0	698	739	26	3	1432	3	ANO3	11	26574888	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	14258859	26574888	108431628	254	61514										
NAT10	55226	broad.mit.edu	37	chr11	34158541	34158541	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gcaggttctggaaacgagctGgatttgttcctgtttatctg	12	7	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:34158541G>T	uc001mvk.2	+	21	2423	c.2179G>T	c.(2179-2181)GGA>TGA	p.G727*	NAT10_uc010ren.1_Nonsense_Mutation_p.G655*	NM_024662	NP_078938	Q9H0A0	NAT10_HUMAN	N-acetyltransferase 10 isoform a	727	N-acetyltransferase.|Required for localization to the nucleolus and midbody.					nucleolus	ATP binding|N-acetyltransferase activity|protein binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0119)|all_hematologic(20;0.0231)				GAAACGAGCTGGATTTGTTCC	0.512													4	18	---	---	---	---	PASS	T	34158541	T	T	34158541	4	4	172	1	0	0	0	0	0	1	0	0	10174	1349	47	3	2257	3	NAT10	11	34158541	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	7583653	34158541	100847975	255	61515										
CRY2	1408	broad.mit.edu	37	chr11	45889225	45889225	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tccctcctggccagccccacAggcctcagcccctacctgcg	8	22	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:45889225A>T	uc010rgn.1	+	6	889	c.867A>T	c.(865-867)ACA>ACT	p.T289T	CRY2_uc009ykw.2_Silent_p.T207T|CRY2_uc010rgo.1_Silent_p.T11T	NM_021117	NP_066940	Q49AN0	CRY2_HUMAN	cryptochrome 2 (photolyase-like) isoform 1	268	FAD-binding.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	blue light photoreceptor activity|damaged DNA binding|DNA photolyase activity|nucleotide binding|protein binding|single-stranded DNA binding			central_nervous_system(1)	1						CCAGCCCCACAGGCCTCAGCC	0.572													21	53	---	---	---	---	PASS	T	45889225	T	T	45889225	2	4	172	1	0	0	0	0	0	0	0	1	3904	175	7	5		5	CRY2	11	45889225	Silent	SNP	A	TCGA-66-2795-01A-02D-0983-08	11730684	45889225	89117291	256	61516										
KBTBD4	55709	broad.mit.edu	37	chr11	47595308	47595308	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gggtacgagatgactctttcCcaatcaggtaaatgtgcaca	10	9	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:47595308C>A	uc001nfx.2	-	4	902	c.731G>T	c.(730-732)GGG>GTG	p.G244V	NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_Missense_Mutation_p.G269V|KBTBD4_uc001nfz.2_Missense_Mutation_p.G260V|KBTBD4_uc001nfy.2_Missense_Mutation_p.G244V	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4	244	Kelch 1.									ovary(1)|central_nervous_system(1)	2						TGACTCTTTCCCAATCAGGTA	0.433													5	75	---	---	---	---	PASS	A	47595308	A	A	47595308	3	1	172	1	0	0	0	0	1	0	0	0	7995	623	22	3	829	3	KBTBD4	11	47595308	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1706083	47595308	87411208	257	61517										
AGBL2	79841	broad.mit.edu	37	chr11	47712000	47712000	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgcataaagtttggagcttgCagaactgagactggataggg	14	5	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:47712000C>A	uc001ngg.2	-	9	1359	c.1259G>T	c.(1258-1260)TGC>TTC	p.C420F	AGBL2_uc001ngf.2_RNA|AGBL2_uc010rhq.1_Missense_Mutation_p.C382F|AGBL2_uc001ngh.1_Missense_Mutation_p.C364F	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	420					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						TTGGAGCTTGCAGAACTGAGA	0.478													22	40	---	---	---	---	PASS	A	47712000	A	A	47712000	3	1	172	1	0	0	0	0	1	0	0	0	376	710	25	3	1489	3	AGBL2	11	47712000	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	116692	47712000	87294516	258	61518										
OR4C12	283093	broad.mit.edu	37	chr11	50003265	50003265	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgggcagagtggtcactgagCgcagatacacaaatatacag	12	8	1	3	rs141386333		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:50003265C>G	uc010ria.1	-	1	773	c.773G>C	c.(772-774)CGC>CCC	p.R258P		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	258	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GGTCACTGAGCGCAGATACAC	0.433													5	30	---	---	---	---	PASS	G	50003265	G	G	50003265	3	3	172	1	0	0	0	0	1	0	0	0	11046	768	27	4	160	4	OR4C12	11	50003265	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	2291265	50003265	85003251	259	61519										
OR8K1	390157	broad.mit.edu	37	chr11	56113634	56113634	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tttggactcttcctcatcatAtatctggtcacagtgatagg	8	9	5	1	rs149499466		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:56113634A>T	uc010rjg.1	+	1	120	c.120A>T	c.(118-120)ATA>ATT	p.I40I		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					TCCTCATCATATATCTGGTCA	0.463										HNSCC(65;0.19)			14	33	---	---	---	---	PASS	T	56113634	T	T	56113634	2	4	172	1	0	0	0	0	0	0	0	1	11243	439	16	5		5	OR8K1	11	56113634	Silent	SNP	A	TCGA-66-2795-01A-02D-0983-08	6110369	56113634	78892882	260	61520										
FADS2	9415	broad.mit.edu	37	chr11	61624947	61624947	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgggccgccgctgctcatccCcatgtatttccagtaccaga	9	15	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:61624947C>G	uc001nsl.1	+	7	977	c.827C>G	c.(826-828)CCC>CGC	p.P276R	FADS2_uc001nsj.2_Missense_Mutation_p.P254R|FADS2_uc010rlo.1_Missense_Mutation_p.P245R|FADS2_uc001nsk.2_Missense_Mutation_p.P276R	NM_004265	NP_004256	O95864	FADS2_HUMAN	fatty acid desaturase 2	276	Helical; (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	heme binding			ovary(1)|pancreas(1)	2					Alpha-Linolenic Acid(DB00132)	CTGCTCATCCCCATGTATTTC	0.592													11	48	---	---	---	---	PASS	G	61624947	G	G	61624947	3	3	172	1	0	0	0	0	1	0	0	0	5366	623	22	4	853	4	FADS2	11	61624947	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	5511313	61624947	73381569	261	61521										
SPTBN2	6712	broad.mit.edu	37	chr11	66463960	66463960	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtgcaggtctctcagcttctCcgacaccagggctttcagct	10	14	4	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:66463960C>A	uc001ojd.2	-	20	4138	c.4066G>T	c.(4066-4068)GAG>TAG	p.E1356*		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1356	Spectrin 10.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CTCAGCTTCTCCGACACCAGG	0.577													6	131	---	---	---	---	PASS	A	66463960	A	A	66463960	4	1	172	1	0	0	0	0	0	1	0	0	15119	864	30	2	3178	2	SPTBN2	11	66463960	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	4839013	66463960	68542556	262	61522										
PPP1CA	5499	broad.mit.edu	37	chr11	67168617	67168617	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccgggatttcaggcacagacCgcggatctcgttctctgtca	11	13	4	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:67168617C>A	uc001okw.1	-	2	232	c.109G>T	c.(109-111)GGT>TGT	p.G37C	PPP1CA_uc009yro.1_5'UTR|PPP1CA_uc001okt.1_Missense_Mutation_p.G42C|PPP1CA_uc001oku.1_Missense_Mutation_p.G48C|PPP1CA_uc001okv.1_Intron|PPP1CA_uc001okx.1_Missense_Mutation_p.G125C|PPP1CA_uc001oky.2_Missense_Mutation_p.G37C|TBC1D10C_uc001okz.2_5'Flank|TBC1D10C_uc001ola.2_5'Flank|TBC1D10C_uc001olb.2_5'Flank	NM_002708	NP_002699	P62136	PP1A_HUMAN	protein phosphatase 1, catalytic subunit, alpha	37					cell cycle|cell division|glycogen metabolic process|protein dephosphorylation|triglyceride catabolic process	cytosol|MLL5-L complex|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|protein binding|protein phosphatase type 1 regulator activity|protein serine/threonine phosphatase activity			breast(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(15;8.53e-07)			AGGCACAGACCGCGGATCTCG	0.632													15	17	---	---	---	---	PASS	A	67168617	A	A	67168617	3	1	172	1	0	0	0	0	1	0	0	0	12349	652	23	1	907	1	PPP1CA	11	67168617	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	704657	67168617	67837899	263	61523										
CPT1A	1374	broad.mit.edu	37	chr11	68552317	68552317	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gagggctgccagcctggcctCcccgggctgaggctccgagg	17	15	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:68552317C>A	uc001oog.3	-	10	1299	c.1129G>T	c.(1129-1131)GAG>TAG	p.E377*	CPT1A_uc001oof.3_Nonsense_Mutation_p.E377*|CPT1A_uc009ysj.2_Intron	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	377	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	AGCCTGGCCTCCCCGGGCTGA	0.657													5	16	---	---	---	---	PASS	A	68552317	A	A	68552317	4	1	172	1	0	0	0	0	0	1	0	0	3831	864	30	2	1272	2	CPT1A	11	68552317	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1383700	68552317	66454199	264	61524										
MAP6	4135	broad.mit.edu	37	chr11	75299068	75299068	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcatgggacctagatcctttGgaggccctgggaccacagaa	12	11	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:75299068G>T	uc001owu.2	-	4	1543	c.1478C>A	c.(1477-1479)CCA>CAA	p.P493Q		NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	493	Pro-rich.					Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					TAGATCCTTTGGAGGCCCTGG	0.512													6	109	---	---	---	---	PASS	T	75299068	T	T	75299068	3	4	172	1	0	0	0	0	1	0	0	0	9264	1348	47	3	967	3	MAP6	11	75299068	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	6746751	75299068	59707448	265	61525										
DLG2	1740	broad.mit.edu	37	chr11	83182671	83182671	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aagaaaaatgacacttacgaGgcacacaggagccaaattta	8	8	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:83182671G>C	uc001paj.2	-	19	2432	c.2129C>G	c.(2128-2130)CCT>CGT	p.P710R	DLG2_uc001pai.2_Missense_Mutation_p.P589R|DLG2_uc010rsy.1_Missense_Mutation_p.P659R|DLG2_uc010rsz.1_Missense_Mutation_p.P706R|DLG2_uc010rta.1_Missense_Mutation_p.P692R|DLG2_uc001pak.2_Missense_Mutation_p.P815R|DLG2_uc010rtb.1_Missense_Mutation_p.P677R|DLG2_uc010rsw.1_Missense_Mutation_p.P174R|DLG2_uc010rsx.1_Missense_Mutation_p.P187R	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	710	Guanylate kinase-like.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				ACACTTACGAGGCACACAGGA	0.428													11	27	---	---	---	---	PASS	C	83182671	C	C	83182671	3	2	172	1	0	0	0	0	1	0	0	0	4555	1000	35	4	503	4	DLG2	11	83182671	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	7883603	83182671	51823845	266	61526										
DLG2	1740	broad.mit.edu	37	chr11	83673930	83673930	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctaacaggcatatctgacctGgtgtagtcgtcgtcaacaag	10	10	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:83673930G>A	uc001paj.2	-	9	1326	c.1023C>T	c.(1021-1023)ACC>ACT	p.T341T	DLG2_uc001pai.2_Silent_p.T290T|DLG2_uc010rsy.1_Silent_p.T308T|DLG2_uc010rsz.1_Silent_p.T341T|DLG2_uc010rta.1_Silent_p.T341T|DLG2_uc001pak.2_Silent_p.T446T|DLG2_uc010rtb.1_Silent_p.T308T|DLG2_uc001pal.1_Silent_p.T341T|DLG2_uc001pam.1_Silent_p.T380T	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	341						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				TATCTGACCTGGTGTAGTCGT	0.418													22	54	---	---	---	---	PASS	A	83673930	A	A	83673930	2	1	172	1	0	0	0	0	0	0	0	1	4555	1335	47	3		3	DLG2	11	83673930	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	491259	83673930	51332586	267	61527										
HEPHL1	341208	broad.mit.edu	37	chr11	93800724	93800724	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgtgtgttggagaatctgtgTcctggcacctatttggaatg	13	6	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:93800724T>A	uc001pep.2	+	5	1028	c.871T>A	c.(871-873)TCC>ACC	p.S291T	uc001pen.1_RNA	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	291	Plastocyanin-like 2.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				AGAATCTGTGTCCTGGCACCT	0.473													53	98	---	---	---	---	PASS	A	93800724	A	A	93800724	3	1	172	1	0	0	0	0	1	0	0	0	7055	1667	58	5	889	5	HEPHL1	11	93800724	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	10126794	93800724	41205792	268	61528										
KIAA1377	57562	broad.mit.edu	37	chr11	101829038	101829038	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctactagcaaaaatgtgttcCagcttaaactggaggaaact	8	8	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:101829038C>A	uc001pgm.2	+	5	916	c.646C>A	c.(646-648)CAG>AAG	p.Q216K	KIAA1377_uc001pgn.2_Missense_Mutation_p.Q172K|KIAA1377_uc010run.1_Missense_Mutation_p.Q17K|KIAA1377_uc009yxa.1_Missense_Mutation_p.Q17K	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	216							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		AAATGTGTTCCAGCTTAAACT	0.338													6	180	---	---	---	---	PASS	A	101829038	A	A	101829038	3	1	172	1	0	0	0	0	1	0	0	0	8227	595	21	3	664	3	KIAA1377	11	101829038	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	8028314	101829038	33177478	269	61529										
OR4D5	219875	broad.mit.edu	37	chr11	123810587	123810587	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctggttgacttgctctcaggCaaccctaccatttcctttgg	8	13	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:123810587C>T	uc001pzk.1	+	1	264	c.264C>T	c.(262-264)GGC>GGT	p.G88G		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		TGCTCTCAGGCAACCCTACCA	0.473													23	42	---	---	---	---	PASS	T	123810587	T	T	123810587	2	4	172	1	0	0	0	0	0	0	0	1	11057	697	25	3		3	OR4D5	11	123810587	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	21981549	123810587	11195929	270	61530										
OR10G9	219870	broad.mit.edu	37	chr11	123894342	123894342	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cattgggctagtggcctcggGctgctttctcctgatagtgc	13	11	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:123894342G>T	uc010sad.1	+	1	623	c.623G>T	c.(622-624)GGC>GTC	p.G208V		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	208	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GTGGCCTCGGGCTGCTTTCTC	0.552													25	57	---	---	---	---	PASS	T	123894342	T	T	123894342	3	4	172	1	0	0	0	0	1	0	0	0	10904	1203	42	3	625	3	OR10G9	11	123894342	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	83755	123894342	11112174	271	61531										
OR10G8	219869	broad.mit.edu	37	chr11	123900599	123900599	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtgttcccaagtggcagggcTatctccttccacagctgcat	10	13	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:123900599T>C	uc001pzp.1	+	1	270	c.270T>C	c.(268-270)GCT>GCC	p.A90A		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		GTGGCAGGGCTATCTCCTTCC	0.517													21	59	---	---	---	---	PASS	C	123900599	C	C	123900599	2	2	172	1	0	0	0	0	0	0	0	1	10903	1509	53	5		5	OR10G8	11	123900599	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08	6257	123900599	11105917	272	61532										
ROBO4	54538	broad.mit.edu	37	chr11	124766101	124766101	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cccctgcccttaccctggatGgaaacccgggctgcgcggct	12	17	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr11:124766101G>A	uc001qbg.2	-	4	812	c.672C>T	c.(670-672)TCC>TCT	p.S224S	ROBO4_uc010sas.1_Silent_p.S79S|ROBO4_uc001qbh.2_Silent_p.S114S|ROBO4_uc001qbi.2_5'Flank|ROBO4_uc010sat.1_5'Flank	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	224	Ig-like C2-type 2.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		TACCCTGGATGGAAACCCGGG	0.602													12	33	---	---	---	---	PASS	A	124766101	A	A	124766101	2	1	172	1	0	0	0	0	0	0	0	1	13516	1335	47	3		3	ROBO4	11	124766101	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	865502	124766101	10240415	273	61533										
DYRK4	8798	broad.mit.edu	37	chr12	4705872	4705872	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttctactttcgcaatcacttCtgcatcacctttgagctcct	4	14	4	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr12:4705872C>A	uc001qmx.2	+	6	697	c.537C>A	c.(535-537)TTC>TTA	p.F179L	DYRK4_uc009zeh.1_Missense_Mutation_p.F294L|DYRK4_uc001qmy.1_Missense_Mutation_p.F179L	NM_003845	NP_003836	Q9NR20	DYRK4_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	179	Protein kinase.					Golgi apparatus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)|skin(1)	3			Colorectal(7;0.103)			GCAATCACTTCTGCATCACCT	0.423													14	39	---	---	---	---	PASS	A	4705872	A	A	4705872	3	1	172	1	0	0	0	0	1	0	0	0	4858	912	32	2	551	2	DYRK4	12	4705872	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08		4705872	129146023	274	61534										
AKAP3	10566	broad.mit.edu	37	chr12	4735746	4735746	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gctacccattgaaggacggcTtggagttgcttgttctgaac	12	9	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr12:4735746T>A	uc001qnb.3	-	4	2551	c.2322A>T	c.(2320-2322)CAA>CAT	p.Q774H		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	774					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						GAAGGACGGCTTGGAGTTGCT	0.502													17	45	---	---	---	---	PASS	A	4735746	A	A	4735746	3	1	172	1	0	0	0	0	1	0	0	0	452	1606	56	5	247	5	AKAP3	12	4735746	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	29874	4735746	129116149	275	61535										
PRICKLE1	144165	broad.mit.edu	37	chr12	42863376	42863376	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tctcctcttcactcaaagacTggcaataccgtaccttcaca	4	15	5	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr12:42863376T>A	uc010skv.1	-	4	547	c.260A>T	c.(259-261)CAG>CTG	p.Q87L	PRICKLE1_uc001rnl.2_Missense_Mutation_p.Q87L|PRICKLE1_uc010skw.1_Missense_Mutation_p.Q87L|PRICKLE1_uc001rnm.2_Missense_Mutation_p.Q87L|PRICKLE1_uc009zka.2_Missense_Mutation_p.Q83L	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	87	PET.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		ACTCAAAGACTGGCAATACCG	0.458													19	37	---	---	---	---	PASS	A	42863376	A	A	42863376	3	1	172	1	0	0	0	0	1	0	0	0	12486	1580	55	5	2255	5	PRICKLE1	12	42863376	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	38127630	42863376	90988519	276	61536										
OR8S1	341568	broad.mit.edu	37	chr12	48921715	48921715	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggggaaagaagcctccgggaCagcagtcatttgcctcagct	13	11	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr12:48921715C>G	uc010slu.1	+	2	909	c.909C>G	c.(907-909)GAC>GAG	p.D303E		NM_001005203	NP_001005203	Q8NH09	OR8S1_HUMAN	olfactory receptor, family 8, subfamily S,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GCCTCCGGGACAGCAGTCATT	0.502													7	23	---	---	---	---	PASS	G	48921715	G	G	48921715	3	3	172	1	0	0	0	0	1	0	0	0	11246	477	17	4	915	4	OR8S1	12	48921715	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	6058339	48921715	84930180	277	61537										
OR6C70	390327	broad.mit.edu	37	chr12	55863538	55863538	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	actcatgatggacatataacGcaaaggtttgcagatggcaa	10	7	1	2	rs141132100		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr12:55863538G>T	uc010spn.1	-	1	385	c.385C>A	c.(385-387)CGT>AGT	p.R129S		NM_001005499	NP_001005499	A6NIJ9	O6C70_HUMAN	olfactory receptor, family 6, subfamily C,	129	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GACATATAACGCAAAGGTTTG	0.388													26	48	---	---	---	---	PASS	T	55863538	T	T	55863538	3	4	172	1	0	0	0	0	1	0	0	0	11197	1087	38	1	555	1	OR6C70	12	55863538	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	6941823	55863538	77988357	278	61538										
SMARCC2	6601	broad.mit.edu	37	chr12	56568479	56568479	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gctaggtttcggcggcaggcGgtagaggtaagatactcttg	16	7	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr12:56568479G>A	uc001skb.2	-	16	1558	c.1452C>T	c.(1450-1452)ACC>ACT	p.T484T	SMARCC2_uc001skd.2_Silent_p.T484T|SMARCC2_uc001ska.2_Silent_p.T484T|SMARCC2_uc001skc.2_Silent_p.T484T|SMARCC2_uc010sqf.1_Silent_p.T373T	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	484	SWIRM.				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)			GGCGGCAGGCGGTAGAGGTAA	0.512													24	47	---	---	---	---	PASS	A	56568479	A	A	56568479	2	1	172	1	0	0	0	0	0	0	0	1	14776	1103	39	1		1	SMARCC2	12	56568479	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	704941	56568479	77283416	279	61539										
LRIG3	121227	broad.mit.edu	37	chr12	59271448	59271448	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcccagcatcactgacatctGagtccacaataatcagaagc	6	13	3	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr12:59271448G>T	uc001sqr.2	-	15	2516	c.2270C>A	c.(2269-2271)TCA>TAA	p.S757*	LRIG3_uc009zqh.2_Nonsense_Mutation_p.S697*|LRIG3_uc010ssh.1_RNA	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like	757	Ig-like C2-type 3.					integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			ACTGACATCTGAGTCCACAAT	0.502													6	101	---	---	---	---	PASS	T	59271448	T	T	59271448	4	4	172	1	0	0	0	0	0	1	0	0	8946	1294	45	2	1109	2	LRIG3	12	59271448	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2702969	59271448	74580447	280	61540										
KCNC2	3747	broad.mit.edu	37	chr12	75444506	75444506	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cactacagcccaccagaaccCaatgggaatgtttttgaact	7	12	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr12:75444506C>A	uc001sxg.1	-	3	1823	c.1279G>T	c.(1279-1281)GGG>TGG	p.G427W	KCNC2_uc009zry.2_Missense_Mutation_p.G427W|KCNC2_uc001sxe.2_Missense_Mutation_p.G427W|KCNC2_uc001sxf.2_Missense_Mutation_p.G427W|KCNC2_uc010stw.1_Missense_Mutation_p.G427W	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	427					energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						CACCAGAACCCAATGGGAATG	0.512													12	23	---	---	---	---	PASS	A	75444506	A	A	75444506	3	1	172	1	0	0	0	0	1	0	0	0	8015	594	21	3	715	3	KCNC2	12	75444506	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	16173058	75444506	58407389	281	61541										
LRRIQ1	84125	broad.mit.edu	37	chr12	85459090	85459090	+	Frame_Shift_Del	DEL	G	-	-													0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggctgtgttctctccacactGgcagagtgtacaaatcttca							TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr12:85459090delG	uc001tac.2	+	9	2553	c.2442delG	c.(2440-2442)CTGfs	p.L814fs	LRRIQ1_uc001tab.1_Frame_Shift_Del_p.L814fs	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	814										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		TCTCCACACTGGCAGAGTGTA	0.388													39	21	---	---	---	---		-	85459090	-	-	85459090	7	5	172	1	0	1	0	1	0	0	0	0	9029	1335	47	0	2472	0	LRRIQ1	12	85459090	Frame_Shift_Del	DEL	G	TCGA-66-2795-01A-02D-0983-08	10014584	85459090	48392805	282	61542										
MYBPC1	4604	broad.mit.edu	37	chr12	102067366	102067366	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	caagtcaaagtggacaaattCgtggagaccgcatcaattga	10	8	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr12:102067366C>A	uc001tii.2	+	24	2856	c.2754C>A	c.(2752-2754)TTC>TTA	p.F918L	MYBPC1_uc001tig.2_Missense_Mutation_p.F925L|MYBPC1_uc010svq.1_Missense_Mutation_p.F887L|MYBPC1_uc001tih.2_Missense_Mutation_p.F925L|MYBPC1_uc001tij.2_Missense_Mutation_p.F900L|MYBPC1_uc010svr.1_Missense_Mutation_p.F900L|MYBPC1_uc010svs.1_Missense_Mutation_p.F918L|MYBPC1_uc010svt.1_Missense_Mutation_p.F888L|MYBPC1_uc010svu.1_Missense_Mutation_p.F881L|MYBPC1_uc001tik.2_Missense_Mutation_p.F874L|MYBPC1_uc001til.2_5'UTR|MYBPC1_uc001tim.2_5'UTR	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	918	Ig-like C2-type 6.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						TGGACAAATTCGTGGAGACCG	0.418													5	169	---	---	---	---	PASS	A	102067366	A	A	102067366	3	1	172	1	0	0	0	0	1	0	0	0	10011	883	31	2	2931	2	MYBPC1	12	102067366	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	16608276	102067366	31784529	283	61543										
DNAH10	196385	broad.mit.edu	37	chr12	124305213	124305213	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctaacgctgagaaacttttcGatcttcctattacaatgtac	5	10	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr12:124305213G>T	uc001uft.3	+	23	3758	c.3733G>T	c.(3733-3735)GAT>TAT	p.D1245Y		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1245	TPR 1.|Stem (By similarity).|Potential.				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)		GAAACTTTTCGATCTTCCTAT	0.423													5	123	---	---	---	---	PASS	T	124305213	T	T	124305213	3	4	172	1	0	0	0	0	1	0	0	0	4598	1058	37	2	3823	2	DNAH10	12	124305213	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	22237847	124305213	9546682	284	61544										
DHX37	57647	broad.mit.edu	37	chr12	125435086	125435086	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gggatccactggacctccacGctagagacgcctgggggccg	15	14	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr12:125435086G>A	uc001ugy.2	-	23	3093	c.2994C>T	c.(2992-2994)AGC>AGT	p.S998S	DHX37_uc001ugz.1_Silent_p.S85S	NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	998							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		GGACCTCCACGCTAGAGACGC	0.701													5	9	---	---	---	---	PASS	A	125435086	A	A	125435086	2	1	172	1	0	0	0	0	0	0	0	1	4510	1078	38	1		1	DHX37	12	125435086	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	1129873	125435086	8416809	285	61545										
C13orf23	80209	broad.mit.edu	37	chr13	39600451	39600451	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgcggctaggtcttcctttgGgatatggatttcctgggatt	13	7	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr13:39600451G>T	uc001uwy.2	-	6	1316	c.443C>A	c.(442-444)CCC>CAC	p.P148H	C13orf23_uc001uwz.2_Missense_Mutation_p.P126H	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	148								p.P148P(1)		ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		TCTTCCTTTGGGATATGGATT	0.408													5	57	---	---	---	---	PASS	T	39600451	T	T	39600451	3	4	172	1	0	0	0	0	1	0	0	0	1721	1232	43	3	2423	3	C13orf23	13	39600451	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08		39600451	75569427	286	61546										
KLHL1	57626	broad.mit.edu	37	chr13	70681669	70681669	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctcttggcttttgagcaggcGactctggctgggtccccagt	13	12	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr13:70681669G>C	uc001vip.2	-	1	957	c.163C>G	c.(163-165)CGC>GGC	p.R55G	KLHL1_uc010thm.1_Missense_Mutation_p.R55G|ATXN8OS_uc010aej.1_RNA	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	55	Ser-rich.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		TTGAGCAGGCGACTCTGGCTG	0.488													9	28	---	---	---	---	PASS	C	70681669	C	C	70681669	3	2	172	1	0	0	0	0	1	0	0	0	8365	1058	37	2	2127	2	KLHL1	13	70681669	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	31081218	70681669	44488209	287	61547										
PIBF1	10464	broad.mit.edu	37	chr13	73372080	73372080	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctagtgaatccattaagaaaGgaaatctgtgaactacaagt	8	6	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr13:73372080G>T	uc001vjc.2	+	5	893	c.588G>T	c.(586-588)AAG>AAT	p.K196N	PIBF1_uc001vja.1_Missense_Mutation_p.K196N|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Missense_Mutation_p.K196N|PIBF1_uc010aep.2_Intron	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	196						centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		CATTAAGAAAGGAAATCTGTG	0.299													6	155	---	---	---	---	PASS	T	73372080	T	T	73372080	3	4	172	1	0	0	0	0	1	0	0	0	11879	991	35	3	602	3	PIBF1	13	73372080	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2690411	73372080	41797798	288	61548										
SLITRK5	26050	broad.mit.edu	37	chr13	88330288	88330288	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggaatatcccaaattcccgtGcagccccgctgcttacactt	7	15	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr13:88330288G>T	uc001vln.2	+	2	2864	c.2645G>T	c.(2644-2646)TGC>TTC	p.C882F	SLITRK5_uc010tic.1_Missense_Mutation_p.C641F	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	882	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					AAATTCCCGTGCAGCCCCGCT	0.602													11	42	---	---	---	---	PASS	T	88330288	T	T	88330288	3	4	172	1	0	0	0	0	1	0	0	0	14746	1319	46	3	2647	3	SLITRK5	13	88330288	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	14958208	88330288	26839590	289	61549										
MYO16	23026	broad.mit.edu	37	chr13	109459146	109459146	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctccacttggcagccaaataTggccaggtagagtgatttgc	11	10	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr13:109459146T>C	uc001vqt.1	+	7	921	c.795T>C	c.(793-795)TAT>TAC	p.Y265Y	MYO16_uc010agk.1_Silent_p.Y287Y|MYO16_uc001vqu.1_Silent_p.Y65Y	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	265	ANK 7.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity	p.Y265H(1)		ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			CAGCCAAATATGGCCAGGTAG	0.328													10	27	---	---	---	---	PASS	C	109459146	C	C	109459146	2	2	172	1	0	0	0	0	0	0	0	1	10064	1471	51	5		5	MYO16	13	109459146	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08	21128858	109459146	5710732	290	61550										
COL4A1	1282	broad.mit.edu	37	chr13	110819570	110819570	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctgtgattcctggagagccaCcaataccctagacacgcaaa	8	13	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr13:110819570C>T	uc001vqw.3	-	44	4006	c.3884G>A	c.(3883-3885)GGT>GAT	p.G1295D	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1295	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			TGGAGAGCCACCAATACCCTA	0.507													37	94	---	---	---	---	PASS	T	110819570	T	T	110819570	3	4	172	1	0	0	0	0	1	0	0	0	3689	507	18	3	1161	3	COL4A1	13	110819570	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1360424	110819570	4350308	291	61551										
COL4A2	1284	broad.mit.edu	37	chr13	111077142	111077142	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	accaggattacaaggattccCgggactgcagggacgtaaag	13	9	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr13:111077142C>A	uc001vqx.2	+	5	531	c.242C>A	c.(241-243)CCG>CAG	p.P81Q		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	81					angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			CAAGGATTCCCGGGACTGCAG	0.592													21	31	---	---	---	---	PASS	A	111077142	A	A	111077142	3	1	172	1	0	0	0	0	1	0	0	0	3690	652	23	1	256	1	COL4A2	13	111077142	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	257572	111077142	4092736	292	61552										
TFDP1	7027	broad.mit.edu	37	chr13	114290914	114290914	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgacatagaagtgctgaagcGgatgggcatggcttgcgggc	17	7	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr13:114290914G>A	uc001vtw.2	+	10	1117	c.905G>A	c.(904-906)CGG>CAG	p.R302Q	TFDP1_uc010tkd.1_Missense_Mutation_p.R207Q|TFDP1_uc010tke.1_Missense_Mutation_p.R207Q|TFDP1_uc001vty.3_Missense_Mutation_p.R302Q|TFDP1_uc001vtx.2_Missense_Mutation_p.R182Q	NM_007111	NP_009042	Q14186	TFDP1_HUMAN	transcription factor Dp-1	302	DCB2.|Enhances binding of RB protein to E2F.				cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|regulation of transcription from RNA polymerase II promoter	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			lung(4)|ovary(2)|skin(1)	7	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.132)|all_epithelial(44;0.0731)|all_lung(25;0.149)|Breast(118;0.153)	all cancers(43;0.0576)			GTGCTGAAGCGGATGGGCATG	0.507										TSP Lung(29;0.18)			16	64	---	---	---	---	PASS	A	114290914	A	A	114290914	3	1	172	1	0	0	0	0	1	0	0	0	15794	1116	39	1	939	1	TFDP1	13	114290914	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	3213772	114290914	878964	293	61553										
OR4N2	390429	broad.mit.edu	37	chr14	20295919	20295919	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atcactcagctctttttcttGcacttccttggaggagggga	10	10	4	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr14:20295919G>C	uc010tkv.1	+	1	312	c.312G>C	c.(310-312)TTG>TTC	p.L104F		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	104	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCTTTTTCTTGCACTTCCTTG	0.522													18	89	---	---	---	---	PASS	C	20295919	C	C	20295919	3	2	172	1	0	0	0	0	1	0	0	0	11077	1310	46	4	314	4	OR4N2	14	20295919	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08		20295919	87053621	294	61554										
OR4K5	79317	broad.mit.edu	37	chr14	20389170	20389170	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cccttatactatgtggtcatCatgagccgaaggacatgcac	9	11	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr14:20389170C>A	uc010tkw.1	+	1	405	c.405C>A	c.(403-405)ATC>ATA	p.I135I		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATGTGGTCATCATGAGCCGAA	0.443													31	148	---	---	---	---	PASS	A	20389170	A	A	20389170	2	1	172	1	0	0	0	0	0	0	0	1	11073	816	29	2		2	OR4K5	14	20389170	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	93251	20389170	86960370	295	61555										
FSCB	84075	broad.mit.edu	37	chr14	44975852	44975852	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tttggtggaatttctacatcCtgaacactctctggcaattc	7	10	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr14:44975852C>A	uc001wvn.2	-	1	648	c.339G>T	c.(337-339)CAG>CAT	p.Q113H		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	113						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		TTTCTACATCCTGAACACTCT	0.428													46	79	---	---	---	---	PASS	A	44975852	A	A	44975852	3	1	172	1	0	0	0	0	1	0	0	0	6066	680	24	3	2142	3	FSCB	14	44975852	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	24586682	44975852	62373688	296	61556										
GPR65	8477	broad.mit.edu	37	chr14	88477826	88477826	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agtctaccaagctgtgcggcAcaataaagccacggaaaaca	9	11	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr14:88477826A>T	uc001xvv.2	+	2	1165	c.635A>T	c.(634-636)CAC>CTC	p.H212L		NM_003608	NP_003599	Q8IYL9	PSYR_HUMAN	G protein-coupled receptor 65	212	Cytoplasmic (Potential).				actin cytoskeleton reorganization|activation of Rho GTPase activity|apoptosis|immune response|multicellular organismal development|positive regulation of cAMP biosynthetic process|positive regulation of stress fiber assembly|response to acidity	integral to plasma membrane	G-protein coupled receptor activity				0						GCTGTGCGGCACAATAAAGCC	0.428													22	29	---	---	---	---	PASS	T	88477826	T	T	88477826	3	4	172	1	0	0	0	0	1	0	0	0	6706	159	6	5	637	5	GPR65	14	88477826	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	43501974	88477826	18871714	297	61557										
SERPINA3	12	broad.mit.edu	37	chr14	95085702	95085702	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agctgaagtacacaggcaatGccagcgcactcttcatcctc	8	14	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr14:95085702G>A	uc001ydp.2	+	3	893	c.814G>A	c.(814-816)GCC>ACC	p.A272T	SERPINA3_uc001ydo.3_Missense_Mutation_p.A297T|SERPINA3_uc001ydr.2_Intron|SERPINA3_uc001ydq.2_Missense_Mutation_p.A272T|SERPINA3_uc001yds.2_Missense_Mutation_p.A272T|SERPINA3_uc010avg.2_Missense_Mutation_p.A272T	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3	272					acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		CACAGGCAATGCCAGCGCACT	0.547													11	15	---	---	---	---	PASS	A	95085702	A	A	95085702	3	1	172	1	0	0	0	0	1	0	0	0	14090	1319	46	3	820	3	SERPINA3	14	95085702	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	6607876	95085702	12263838	298	61558										
DYNC1H1	1778	broad.mit.edu	37	chr14	102506598	102506598	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccacctacgatgcagaattcCagcacttcttgagaggaaat	8	11	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr14:102506598C>A	uc001yks.2	+	63	11880	c.11716C>A	c.(11716-11718)CAG>AAG	p.Q3906K		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3906					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						TGCAGAATTCCAGCACTTCTT	0.562													5	70	---	---	---	---	PASS	A	102506598	A	A	102506598	3	1	172	1	0	0	0	0	1	0	0	0	4841	595	21	3	11966	3	DYNC1H1	14	102506598	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	7420896	102506598	4842942	299	61559										
CDC42BPB	9578	broad.mit.edu	37	chr14	103416919	103416919	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggcaccgtctttgcaggacaCgtggcaagcaaaggaacaca	12	11	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr14:103416919C>A	uc001ymi.1	-	25	3425	c.3193G>T	c.(3193-3195)GTG>TTG	p.V1065L	CDC42BPB_uc001ymj.1_Missense_Mutation_p.V167L	NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	1065	Phorbol-ester/DAG-type.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TTGCAGGACACGTGGCAAGCA	0.582													4	4	---	---	---	---	PASS	A	103416919	A	A	103416919	3	1	172	1	0	0	0	0	1	0	0	0	3073	536	19	1	1994	1	CDC42BPB	14	103416919	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	910321	103416919	3932621	300	61560										
GREM1	26585	broad.mit.edu	37	chr15	33023383	33023383	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgccctgaactacagccaccTaccaagaagaagagagtcac	8	13	1	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:33023383T>A	uc001zhe.1	+	2	651	c.492T>A	c.(490-492)CCT>CCA	p.P164P	GREM1_uc001zhd.1_Silent_p.P94P|GREM1_uc010uby.1_Silent_p.P123P	NM_013372	NP_037504	O60565	GREM1_HUMAN	gremlin-1 precursor	164	CTCK.				negative regulation of BMP signaling pathway|nervous system development|regulation of epithelial to mesenchymal transition	extracellular space	cytokine activity				0		all_lung(180;1.49e-09)		all cancers(64;2.97e-18)|Epithelial(43;3.15e-12)|GBM - Glioblastoma multiforme(186;2.32e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0107)		TACAGCCACCTACCAAGAAGA	0.498													30	48	---	---	---	---	PASS	A	33023383	A	A	33023383	2	1	172	1	0	0	0	0	0	0	0	1	6761	1509	53	5		5	GREM1	15	33023383	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08		33023383	69508009	301	61561										
RYR3	6263	broad.mit.edu	37	chr15	34109158	34109158	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaaactagtacaggatttggCtgtaagtactgactcccctg	10	9	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:34109158C>T	uc001zhi.2	+	75	10668	c.10598C>T	c.(10597-10599)GCT>GTT	p.A3533V	RYR3_uc010bar.2_Missense_Mutation_p.A3528V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3533					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CAGGATTTGGCTGTAAGTACT	0.418													5	15	---	---	---	---	PASS	T	34109158	T	T	34109158	3	4	172	1	0	0	0	0	1	0	0	0	13770	811	28	3	10896	3	RYR3	15	34109158	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1085775	34109158	68422234	302	61562										
DISP2	85455	broad.mit.edu	37	chr15	40656136	40656136	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggaagccacccgctgtgcagCaccatgtggtcagcgtcagg	14	13	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:40656136C>T	uc001zlk.1	+	2	519	c.430C>T	c.(430-432)CAC>TAC	p.H144Y		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	144					smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		CGCTGTGCAGCACCATGTGGT	0.657													7	22	---	---	---	---	PASS	T	40656136	T	T	40656136	3	4	172	1	0	0	0	0	1	0	0	0	4540	710	25	3	436	3	DISP2	15	40656136	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	6546978	40656136	61875256	303	61563										
CDAN1	146059	broad.mit.edu	37	chr15	43024584	43024584	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtggctgtggctgcaggctgCggagagctgacccatcatgg	17	10	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:43024584C>T	uc001zql.2	-	10	1597	c.1480G>A	c.(1480-1482)GCA>ACA	p.A494T	CDAN1_uc001zqj.2_5'Flank|CDAN1_uc001zqk.2_5'UTR|CDAN1_uc010bcx.1_RNA	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	494						integral to membrane	protein binding			ovary(2)	2		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		CTGCAGGCTGCGGAGAGCTGA	0.517													5	38	---	---	---	---	PASS	T	43024584	T	T	43024584	3	4	172	1	0	0	0	0	1	0	0	0	3054	768	27	1	2279	1	CDAN1	15	43024584	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	2368448	43024584	59506808	304	61564										
VPS13C	54832	broad.mit.edu	37	chr15	62265707	62265707	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aagtagaccttttgtaccacCtgaaataataggaattgagg	9	6	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:62265707C>A	uc002agz.2	-	26	2637	c.2563G>T	c.(2563-2565)GGT>TGT	p.G855C	VPS13C_uc002aha.2_Missense_Mutation_p.G812C|VPS13C_uc002ahb.1_Missense_Mutation_p.G855C|VPS13C_uc002ahc.1_Missense_Mutation_p.G812C	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	855					protein localization					ovary(2)	2						TTTGTACCACCTGAAATAATA	0.328													5	63	---	---	---	---	PASS	A	62265707	A	A	62265707	3	1	172	1	0	0	0	0	1	0	0	0	17188	681	24	3	8966	3	VPS13C	15	62265707	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	19241123	62265707	40265685	305	61565										
ZNF609	23060	broad.mit.edu	37	chr15	64791652	64791652	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtggagcctccggagggaaaGgagtggatgcaaacccggtt	17	8	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:64791652G>A	uc002ann.2	+	1	34	c.34G>A	c.(34-36)GGA>AGA	p.G12R	ZNF609_uc010bgy.2_Missense_Mutation_p.G12R	NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	12						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CGGAGGGAAAGGAGTGGATGC	0.517													9	104	---	---	---	---	PASS	A	64791652	A	A	64791652	3	1	172	1	0	0	0	0	1	0	0	0	18032	1001	35	3	36	3	ZNF609	15	64791652	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2525945	64791652	37739740	306	61566										
SMAD3	4088	broad.mit.edu	37	chr15	67457287	67457287	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aaggggctccctcatgtcatCtactgccgcctgtggcgatg	12	13	3	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:67457287C>A	uc002aqj.2	+	2	559	c.261C>A	c.(259-261)ATC>ATA	p.I87I	SMAD3_uc010ujr.1_5'UTR|SMAD3_uc010ujs.1_Silent_p.I43I|SMAD3_uc010ujt.1_5'Flank	NM_005902	NP_005893	P84022	SMAD3_HUMAN	mothers against decapentaplegic homolog 3	87	MH1.				activation of caspase activity|cell cycle arrest|cell-cell junction organization|evasion of host defenses by virus|immune response|induction of apoptosis|negative regulation of cell growth|negative regulation of mitotic cell cycle|negative regulation of protein catabolic process|negative regulation of protein phosphorylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|protein stabilization|regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|transport|wound healing	cytosol|nuclear inner membrane|receptor complex	beta-catenin binding|co-SMAD binding|metal ion binding|protein homodimerization activity|protein kinase binding|R-SMAD binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor binding|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|ubiquitin protein ligase binding			large_intestine(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5				Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(7;0.125)		CTCATGTCATCTACTGCCGCC	0.602													24	46	---	---	---	---	PASS	A	67457287	A	A	67457287	2	1	172	1	0	0	0	0	0	0	0	1	14759	903	32	2		2	SMAD3	15	67457287	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	2665635	67457287	35074105	307	61567										
PARP6	56965	broad.mit.edu	37	chr15	72554003	72554003	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgctgggtcttcaagaaatcAttgctcagatgtttccattg	9	8	4	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:72554003A>T	uc002auc.2	-	8	900	c.441T>A	c.(439-441)AAT>AAA	p.N147K	PARP6_uc002aua.2_Missense_Mutation_p.N12K|PARP6_uc002aub.2_RNA|PARP6_uc002aud.3_RNA|PARP6_uc002auf.1_Missense_Mutation_p.N147K	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	147							NAD+ ADP-ribosyltransferase activity				0						TCAAGAAATCATTGCTCAGAT	0.468													115	214	---	---	---	---	PASS	T	72554003	T	T	72554003	3	4	172	1	0	0	0	0	1	0	0	0	11464	214	8	5	1515	5	PARP6	15	72554003	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	5096716	72554003	29977389	308	61568										
MAN2C1	4123	broad.mit.edu	37	chr15	75651097	75651097	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgcatcccagtacaaggggaCatcatcaaatagcacaaact	7	11	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:75651097C>T	uc002baf.2	-	19	2211	c.2194G>A	c.(2194-2196)GTC>ATC	p.V732I	MAN2C1_uc002bag.2_Missense_Mutation_p.V732I|MAN2C1_uc002bah.2_Missense_Mutation_p.V749I|MAN2C1_uc010bkk.2_Missense_Mutation_p.V633I	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	732					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						TACAAGGGGACATCATCAAAT	0.572													6	17	---	---	---	---	PASS	T	75651097	T	T	75651097	3	4	172	1	0	0	0	0	1	0	0	0	9218	478	17	3	960	3	MAN2C1	15	75651097	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	3097094	75651097	26880295	309	61569										
CSPG4	1464	broad.mit.edu	37	chr15	75981901	75981901	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cgtggatgaagcgggccttgCggttcaccacgtccaggagg	16	11	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:75981901C>T	uc002baw.2	-	3	1598	c.1505G>A	c.(1504-1506)CGC>CAC	p.R502H		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	502	Extracellular (Potential).|CSPG 1.|Globular or compact configuration stabilized by disulfide bonds.|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						GCGGGCCTTGCGGTTCACCAC	0.652													14	41	---	---	---	---	PASS	T	75981901	T	T	75981901	3	4	172	1	0	0	0	0	1	0	0	0	3960	768	27	1	5495	1	CSPG4	15	75981901	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	330804	75981901	26549491	310	61570										
SCAPER	49855	broad.mit.edu	37	chr15	76673733	76673733	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tggtacctgaaaagcaggcaGatgaagagctgcaaagctgt	13	7	0	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:76673733G>A	uc002bby.2	-	27	3750	c.3691C>T	c.(3691-3693)CTG>TTG	p.L1231L	SCAPER_uc010bkr.2_Silent_p.L539L|SCAPER_uc002bbx.2_Silent_p.L985L|SCAPER_uc002bbz.1_Silent_p.L1102L	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	1230						endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						AAAGCAGGCAGATGAAGAGCT	0.413													13	33	---	---	---	---	PASS	A	76673733	A	A	76673733	2	1	172	1	0	0	0	0	0	0	0	1	13878	933	33	2		2	SCAPER	15	76673733	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	691832	76673733	25857659	311	61571										
PSMA4	5685	broad.mit.edu	37	chr15	78837990	78837990	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttaaaggaaaacgtccctttGgtgtttcattgctgtacatt	8	7	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:78837990G>T	uc002bdu.3	+	7	549	c.391G>T	c.(391-393)GGT>TGT	p.G131C	PSMA4_uc010blf.2_Missense_Mutation_p.G131C|PSMA4_uc002bdv.3_Missense_Mutation_p.G60C|PSMA4_uc002bdw.3_Missense_Mutation_p.G107C|PSMA4_uc002bdx.3_Missense_Mutation_p.G60C	NM_002789	NP_002780	P25789	PSA4_HUMAN	proteasome alpha 4 subunit isoform 1	131					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|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0						ACGTCCCTTTGGTGTTTCATT	0.403													6	128	---	---	---	---	PASS	T	78837990	T	T	78837990	3	4	172	1	0	0	0	0	1	0	0	0	12669	1348	47	3	413	3	PSMA4	15	78837990	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2164257	78837990	23693402	312	61572										
CHRNA3	1136	broad.mit.edu	37	chr15	78894195	78894195	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccgcagtcggagggcaggtaGaagacgagcacagtgaggaa	17	8	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:78894195G>T	uc002bec.2	-	5	975	c.789C>A	c.(787-789)TTC>TTA	p.F263L	CHRNA3_uc002bea.2_RNA|CHRNA3_uc002beb.2_Missense_Mutation_p.F263L	NM_000743	NP_000734	P32297	ACHA3_HUMAN	cholinergic receptor, nicotinic, alpha 3	263	Helical; (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|behavioral response to nicotine|locomotory behavior|regulation of acetylcholine secretion|regulation of dendrite morphogenesis|regulation of excitatory postsynaptic membrane potential|regulation of smooth muscle contraction|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|dendrite|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic density|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(3)|ovary(1)	4						AGGGCAGGTAGAAGACGAGCA	0.557													17	27	---	---	---	---	PASS	T	78894195	T	T	78894195	3	4	172	1	0	0	0	0	1	0	0	0	3384	933	33	2	821	2	CHRNA3	15	78894195	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	56205	78894195	23637197	313	61573										
TMC3	342125	broad.mit.edu	37	chr15	81636343	81636343	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agtctatgagcagaatgctcGccacggtgaagagcatgtca	12	9	2	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:81636343G>A	uc002bgo.1	-	14	1562	c.1562C>T	c.(1561-1563)GCG>GTG	p.A521V	TMC3_uc010blr.1_RNA|TMC3_uc002bgp.2_Missense_Mutation_p.A521V	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	521	Helical; (Potential).					integral to membrane				ovary(1)|liver(1)	2						CAGAATGCTCGCCACGGTGAA	0.517													20	31	---	---	---	---	PASS	A	81636343	A	A	81636343	3	1	172	1	0	0	0	0	1	0	0	0	15983	1087	38	1	1776	1	TMC3	15	81636343	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2742148	81636343	20895049	314	61574										
TMC3	342125	broad.mit.edu	37	chr15	81638754	81638754	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aggagagcaatgatcaggctGtagagatttcccaaatacag	11	7	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:81638754G>T	uc002bgo.1	-	12	1224	c.1224C>A	c.(1222-1224)TAC>TAA	p.Y408*	TMC3_uc010blr.1_RNA|TMC3_uc002bgp.2_Nonsense_Mutation_p.Y408*	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	408	Helical; (Potential).					integral to membrane				ovary(1)|liver(1)	2						TGATCAGGCTGTAGAGATTTC	0.522													15	33	---	---	---	---	PASS	T	81638754	T	T	81638754	4	4	172	1	0	0	0	0	0	1	0	0	15983	1372	48	3	2122	3	TMC3	15	81638754	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2411	81638754	20892638	315	61575										
BNC1	646	broad.mit.edu	37	chr15	83926460	83926460	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctccatcaggacacagatggGgtactcatcttccccaggga	10	13	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr15:83926460G>T	uc002bjt.1	-	5	2807	c.2719C>A	c.(2719-2721)CCC>ACC	p.P907T	BNC1_uc010uos.1_Missense_Mutation_p.P895T	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	907					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						ACACAGATGGGGTACTCATCT	0.542													7	167	---	---	---	---	PASS	T	83926460	T	T	83926460	3	4	172	1	0	0	0	0	1	0	0	0	1474	1232	43	3	269	3	BNC1	15	83926460	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2287706	83926460	18604932	316	61576										
FBXL16	146330	broad.mit.edu	37	chr16	746775	746775	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cccgagcctggtgcacacctCgaggcctgcgtccgtgatgg	14	15	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:746775C>A	uc002cjc.2	-	3	834	c.631G>T	c.(631-633)GAG>TAG	p.E211*	FBXL16_uc002cja.2_5'Flank|FBXL16_uc002cjb.2_5'Flank	NM_153350	NP_699181	Q8N461	FXL16_HUMAN	F-box and leucine-rich repeat protein 16	211											0		Hepatocellular(780;0.0218)				GTGCACACCTCGAGGCCTGCG	0.637													4	19	---	---	---	---	PASS	A	746775	A	A	746775	4	1	172	1	0	0	0	0	0	1	0	0	5712	893	31	2	828	2	FBXL16	16	746775	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08		746775	89607978	317	61577										
CREBBP	1387	broad.mit.edu	37	chr16	3828795	3828795	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cctttagagctgcgggatcaGgtgttgggaagatggcttgg	17	6	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:3828795G>C	uc002cvv.2	-	9	2051	c.1847C>G	c.(1846-1848)CCT>CGT	p.P616R	CREBBP_uc002cvw.2_Missense_Mutation_p.P578R	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	616	KIX.				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)		TGCGGGATCAGGTGTTGGGAA	0.433			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				26	62	---	---	---	---	PASS	C	3828795	C	C	3828795	3	2	172	1	0	0	0	0	1	0	0	0	3861	1000	35	4	5573	4	CREBBP	16	3828795	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	3082020	3828795	86525958	318	61578										
GRIN2A	2903	broad.mit.edu	37	chr16	9892214	9892214	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaagggcaattccataaccgGtggtggcaaagatgtaccca	12	9	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:9892214G>T	uc002czo.3	-	11	2824	c.2276C>A	c.(2275-2277)ACC>AAC	p.T759N	GRIN2A_uc010uym.1_Missense_Mutation_p.T759N|GRIN2A_uc010uyn.1_Missense_Mutation_p.T602N|GRIN2A_uc002czr.3_Missense_Mutation_p.T759N	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	759	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TCCATAACCGGTGGTGGCAAA	0.552													11	28	---	---	---	---	PASS	T	9892214	T	T	9892214	3	4	172	1	0	0	0	0	1	0	0	0	6779	1261	44	3	2130	3	GRIN2A	16	9892214	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	6063419	9892214	80462539	319	61579										
KIAA0556	23247	broad.mit.edu	37	chr16	27629747	27629747	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctctgtttcttcatttcaggGttacgctaaggacatggtga	10	8	4	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:27629747G>T	uc002dow.2	+	3	89	c.65G>T	c.(64-66)GGT>GTT	p.G22V		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	22										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						TCATTTCAGGGTTACGCTAAG	0.512													15	34	---	---	---	---	PASS	T	27629747	T	T	27629747	3	4	172	1	0	0	0	0	1	0	0	0	8183	1275	44	3	75	3	KIAA0556	16	27629747	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	17737533	27629747	62725006	320	61580										
MMP2	4313	broad.mit.edu	37	chr16	55539304	55539304	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgaagctggagaaccaaagtCtgaagagcgtgaagtttgga	14	5	1	5			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:55539304C>G	uc002ehz.3	+	13	2244	c.1933C>G	c.(1933-1935)CTG>GTG	p.L645V	MMP2_uc010vhd.1_Missense_Mutation_p.L569V|MMP2_uc010ccc.2_Missense_Mutation_p.L595V|MMP2_uc002eia.3_Missense_Mutation_p.L142V	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	645	Required for inhibitor TIMP2 binding.|Hemopexin-like 4.				angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	GAACCAAAGTCTGAAGAGCGT	0.532													46	99	---	---	---	---	PASS	G	55539304	G	G	55539304	3	3	172	1	0	0	0	0	1	0	0	0	9658	912	32	2	1990	2	MMP2	16	55539304	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	27909557	55539304	34815449	321	61581										
CES1	1066	broad.mit.edu	37	chr16	55844887	55844887	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gacatggctgtcttctggtcCagttgcccttcggagagtgg	14	10	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:55844887C>A	uc002eim.2	-	10	1227	c.1119G>T	c.(1117-1119)CTG>CTT	p.L373L	CES1_uc010ccf.2_Silent_p.L48L|CES1_uc002eil.2_Silent_p.L374L|CES1_uc002ein.2_Silent_p.L372L	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	373					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	TCTTCTGGTCCAGTTGCCCTT	0.358													7	26	---	---	---	---	PASS	A	55844887	A	A	55844887	2	1	172	1	0	0	0	0	0	0	0	1	3269	581	21	3		3	CES1	16	55844887	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	305583	55844887	34509866	322	61582										
CIAPIN1	57019	broad.mit.edu	37	chr16	57465090	57465090	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tacaggccttcctctttttcCcttccccacaagaagcagcc	5	17	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:57465090C>T	uc002ell.1	-	7	890	c.719G>A	c.(718-720)GGG>GAG	p.G240E	CIAPIN1_uc002elk.1_RNA|CIAPIN1_uc002elm.1_Missense_Mutation_p.G227E|CIAPIN1_uc002eln.1_Intron|CIAPIN1_uc010cda.1_Missense_Mutation_p.G240E|CIAPIN1_uc002elo.1_Intron	NM_020313	NP_064709	Q6FI81	CPIN1_HUMAN	cytokine induced apoptosis inhibitor 1	240					anti-apoptosis|apoptosis	cytoplasm|nucleolus					0						CCTCTTTTTCCCTTCCCCACA	0.542													37	72	---	---	---	---	PASS	T	57465090	T	T	57465090	3	4	172	1	0	0	0	0	1	0	0	0	3419	623	22	3	231	3	CIAPIN1	16	57465090	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1620203	57465090	32889663	323	61583										
PRSS54	221191	broad.mit.edu	37	chr16	58327644	58327644	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cagcacactcactggtggaaGaatagagaaggccgagcagc	13	10	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:58327644G>A	uc002enf.2	-	3	472	c.77C>T	c.(76-78)TCT>TTT	p.S26F	PRSS54_uc002eng.2_Missense_Mutation_p.S26F|PRSS54_uc010vie.1_5'UTR	NM_001080492	NP_001073961	Q6PEW0	PRS54_HUMAN	plasma kallikrein-like protein 4 precursor	26					proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						ACTGGTGGAAGAATAGAGAAG	0.572													3	9	---	---	---	---	PASS	A	58327644	A	A	58327644	3	1	172	1	0	0	0	0	1	0	0	0	12633	942	33	2	1130	2	PRSS54	16	58327644	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	862554	58327644	32027109	324	61584										
KCTD19	146212	broad.mit.edu	37	chr16	67327991	67327991	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcagcctcatccatctggttGgacctgaccaggtttccctt	8	14	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:67327991G>T	uc002esu.2	-	12	1725	c.1674C>A	c.(1672-1674)TCC>TCA	p.S558S	KCTD19_uc002est.2_Silent_p.S330S|KCTD19_uc010vjj.1_Silent_p.S301S	NM_001100915	NP_001094385	Q17RG1	KCD19_HUMAN	potassium channel tetramerisation domain	558						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0311)|Epithelial(162;0.0906)		CCATCTGGTTGGACCTGACCA	0.572													6	159	---	---	---	---	PASS	T	67327991	T	T	67327991	2	4	172	1	0	0	0	0	0	0	0	1	8106	1335	47	3		3	KCTD19	16	67327991	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	9000347	67327991	23026762	325	61585										
SF3B3	23450	broad.mit.edu	37	chr16	70597869	70597869	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aaatttgtcatccaccctgaGagtaacaaccttattatcat	4	10	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:70597869G>T	uc002ezf.2	+	18	2590	c.2379G>T	c.(2377-2379)GAG>GAT	p.E793D		NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3	793					protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				TCCACCCTGAGAGTAACAACC	0.458													6	103	---	---	---	---	PASS	T	70597869	T	T	70597869	3	4	172	1	0	0	0	0	1	0	0	0	14152	933	33	2	2445	2	SF3B3	16	70597869	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	3269878	70597869	19756884	326	61586										
DHX38	9785	broad.mit.edu	37	chr16	72142152	72142152	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaggaggagagtgatcaaatCcgggagaagttcgctgttcc	15	7	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:72142152C>A	uc002fcb.2	+	22	3346	c.2991C>A	c.(2989-2991)ATC>ATA	p.I997I	DHX38_uc010vmp.1_Silent_p.I309I	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	997					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				GTGATCAAATCCGGGAGAAGT	0.493													4	30	---	---	---	---	PASS	A	72142152	A	A	72142152	2	1	172	1	0	0	0	0	0	0	0	1	4511	845	30	2		2	DHX38	16	72142152	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	1544283	72142152	18212601	327	61587										
MBTPS1	8720	broad.mit.edu	37	chr16	84104333	84104333	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaccgaggagtaggagaaggCaacttcaatgttgtctccgt	13	8	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:84104333C>T	uc002fhi.2	-	13	2144	c.1642G>A	c.(1642-1644)GCC>ACC	p.A548T	MBTPS1_uc002fhh.2_Missense_Mutation_p.A52T	NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	548	Lumenal (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						TAGGAGAAGGCAACTTCAATG	0.512													18	54	---	---	---	---	PASS	T	84104333	T	T	84104333	3	4	172	1	0	0	0	0	1	0	0	0	9361	710	25	3	1560	3	MBTPS1	16	84104333	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	11962181	84104333	6250420	328	61588										
KCNG4	93107	broad.mit.edu	37	chr16	84270969	84270969	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cccaccttccgcaccctccgGtagtaaaggcccttgatgga	9	16	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr16:84270969G>T	uc010voc.1	-	2	244	c.123C>A	c.(121-123)TAC>TAA	p.Y41*	KCNG4_uc002fhu.1_Nonsense_Mutation_p.Y41*	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	41	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						GCACCCTCCGGTAGTAAAGGC	0.632													10	19	---	---	---	---	PASS	T	84270969	T	T	84270969	4	4	172	1	0	0	0	0	0	1	0	0	8030	1256	44	3	1442	3	KCNG4	16	84270969	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	166636	84270969	6083784	329	61589										
TP53	7157	broad.mit.edu	37	chr17	7578457	7578457	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gcttgtagatggccatggcgCggacgcgggtgccgggcggg	21	10	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:7578457C>A	uc002gim.2	-	5	667	c.473G>T	c.(472-474)CGC>CTC	p.R158L	TP53_uc002gig.1_Missense_Mutation_p.R158L|TP53_uc002gih.2_Missense_Mutation_p.R158L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R26L|TP53_uc010cng.1_Missense_Mutation_p.R26L|TP53_uc002gii.1_Missense_Mutation_p.R26L|TP53_uc010cnh.1_Missense_Mutation_p.R158L|TP53_uc010cni.1_Missense_Mutation_p.R158L|TP53_uc002gij.2_Missense_Mutation_p.R158L|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R65L|TP53_uc002gio.2_Missense_Mutation_p.R26L|TP53_uc010vug.1_Missense_Mutation_p.R119L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	158	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> F (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> Y (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.R158H(58)|p.R158L(55)|p.R158C(17)|p.R158G(10)|p.R158P(9)|p.0?(7)|p.R158R(6)|p.R158fs*12(5)|p.R158_A159insX(4)|p.R158_A159delRA(2)|p.R156_I162delRVRAMAI(2)|p.V157fs*9(2)|p.P153fs*22(2)|p.R158fs*11(2)|p.V157fs*22(2)|p.V157_C176del20(1)|p.R156_A161delRVRAMA(1)|p.R158F(1)|p.P151_V173del23(1)|p.R158fs*24(1)|p.R65L(1)|p.R156_R158delRVR(1)|p.R156fs*18(1)|p.R156_A161del(1)|p.R158_A159insXX(1)|p.V157_M160delVRAM(1)|p.V157_R158delVR(1)|p.S149fs*72(1)|p.A159fs*21(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.R156fs*20(1)|p.V157_I162delVRAMAI(1)|p.R26L(1)|p.V157fs*21(1)|p.R158fs*8(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)		GGCCATGGCGCGGACGCGGGT	0.627		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)			10	17	---	---	---	---	PASS	A	7578457	A	A	7578457	3	1	172	1	0	0	0	0	1	0	0	0	16378	768	27	1	825	1	TP53	17	7578457	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08		7578457	73616753	330	61590										
KRBA2	124751	broad.mit.edu	37	chr17	8272906	8272906	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atacaatctttaggtctggcCacaactcattgagctcatga	7	10	4	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:8272906C>A	uc002glf.1	-	2	1031	c.1025G>T	c.(1024-1026)TGG>TTG	p.W342L	KRBA2_uc002glg.1_Missense_Mutation_p.W259L	NM_213597	NP_998762	Q6ZNG9	KRBA2_HUMAN	KRAB-A domain containing 2	342	Integrase catalytic.				DNA integration|regulation of transcription, DNA-dependent	intracellular	DNA binding				0						TAGGTCTGGCCACAACTCATT	0.463													4	22	---	---	---	---	PASS	A	8272906	A	A	8272906	3	1	172	1	0	0	0	0	1	0	0	0	8440	595	21	3	457	3	KRBA2	17	8272906	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	694449	8272906	72922304	331	61591										
GAS7	8522	broad.mit.edu	37	chr17	9828857	9828857	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtcttgttgctcagcttgatCtccagctgctgggtcttcat	10	11	5	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:9828857C>T	uc002gmg.1	-	11	1235	c.1074G>A	c.(1072-1074)GAG>GAA	p.E358E	GAS7_uc010vvc.1_Silent_p.E172E|GAS7_uc002gmh.1_Silent_p.E218E|GAS7_uc010vvd.1_Silent_p.E310E|GAS7_uc002gmi.2_Silent_p.E294E|GAS7_uc002gmj.1_Silent_p.E298E|GAS7_uc010coh.1_Silent_p.E298E	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	358	Potential.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						TCAGCTTGATCTCCAGCTGCT	0.602			T	MLL	AML*						OREG0024170	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	20	---	---	---	---	PASS	T	9828857	T	T	9828857	2	4	172	1	0	0	0	0	0	0	0	1	6250	912	32	2		2	GAS7	17	9828857	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	1555951	9828857	71366353	332	61592										
MYH2	4620	broad.mit.edu	37	chr17	10439902	10439902	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccttcttcttaccacctttcTtggcccctccaccagctccc	3	21	3	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:10439902T>C	uc010coi.2	-	17	2047	c.1919A>G	c.(1918-1920)AAG>AGG	p.K640R	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.K640R|MYH2_uc010coj.2_Missense_Mutation_p.K640R	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	640	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						ACCACCTTTCTTGGCCCCTCC	0.418													7	13	---	---	---	---	PASS	C	10439902	C	C	10439902	3	2	172	1	0	0	0	0	1	0	0	0	10035	1609	56	5	4002	5	MYH2	17	10439902	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	611045	10439902	70755308	333	61593										
C17orf103	256302	broad.mit.edu	37	chr17	21147437	21147437	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	accttggcaaggtgcttggcGatgccacgcccacggtaggc	14	13	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:21147437G>A	uc010vzx.1	-	3	209	c.207C>T	c.(205-207)ATC>ATT	p.I69I		NM_152914	NP_690878	Q8N6N6	GTL3B_HUMAN	transcript expressed during hematopoiesis 2	69											0						GGTGCTTGGCGATGCCACGCC	0.672													6	13	---	---	---	---	PASS	A	21147437	A	A	21147437	2	1	172	1	0	0	0	0	0	0	0	1	1850	1048	37	2		2	C17orf103	17	21147437	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	10707535	21147437	60047773	334	61594										
KCNJ12	3768	broad.mit.edu	37	chr17	21319497	21319497	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gacgaggccagcccgctcttCggcatcagccggcaggacct	13	16	2	0	rs139358757	byFrequency	TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:21319497C>T	uc002gyv.1	+	3	1548	c.843C>T	c.(841-843)TTC>TTT	p.F281F		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	281	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GCCCGCTCTTCGGCATCAGCC	0.607										Prostate(3;0.18)			10	31	---	---	---	---	PASS	T	21319497	T	T	21319497	2	4	172	1	0	0	0	0	0	0	0	1	8046	883	31	2		2	KCNJ12	17	21319497	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	172060	21319497	59875713	335	61595										
SLC13A2	9058	broad.mit.edu	37	chr17	26817737	26817737	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aggctaatcctgggcttcatGctggtcacggccttcctgtc	11	13	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:26817737G>A	uc002hbh.2	+	4	454	c.387G>A	c.(385-387)ATG>ATA	p.M129I	SLC13A2_uc010wal.1_Missense_Mutation_p.M86I|SLC13A2_uc010wam.1_Missense_Mutation_p.M85I|SLC13A2_uc010wan.1_Missense_Mutation_p.M178I|SLC13A2_uc010wao.1_Missense_Mutation_p.M86I|SLC13A2_uc002hbi.2_Missense_Mutation_p.M58I	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	129	Helical; (Potential).					integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	TGGGCTTCATGCTGGTCACGG	0.592													15	61	---	---	---	---	PASS	A	26817737	A	A	26817737	3	1	172	1	0	0	0	0	1	0	0	0	14392	1319	46	3	548	3	SLC13A2	17	26817737	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	5498240	26817737	54377473	336	61596										
SUPT6H	6830	broad.mit.edu	37	chr17	27009836	27009836	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cacgagacagagcagtttccCgcggagcccttggagctggc	14	13	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:27009836C>T	uc002hby.2	+	14	1779	c.1689C>T	c.(1687-1689)CCC>CCT	p.P563P	SUPT6H_uc010crt.2_Silent_p.P563P	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	563					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					AGCAGTTTCCCGCGGAGCCCT	0.592													12	54	---	---	---	---	PASS	T	27009836	T	T	27009836	2	4	172	1	0	0	0	0	0	0	0	1	15397	639	23	1		1	SUPT6H	17	27009836	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	192099	27009836	54185374	337	61597										
UTP6	55813	broad.mit.edu	37	chr17	30213082	30213082	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cagaataatcaggattctccTaaagagtgttatatcaaacg	7	7	3	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:30213082T>G	uc002hgr.2	-	9	705	c.622_splice	c.e9-1	p.E208_splice	UTP6_uc002hgq.2_Splice_Site_p.E24_splice|UTP6_uc010cst.2_Splice_Site_p.E57_splice|UTP6_uc010wbw.1_Splice_Site_p.E208_splice	NM_018428	NP_060898	Q9NYH9	UTP6_HUMAN	hepatocellular carcinoma-associated antigen 66						rRNA processing	nucleolus	binding			ovary(1)	1		all_hematologic(16;0.0149)|Ovarian(249;0.021)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|Breast(31;0.231)				AGGATTCTCCTAAAGAGTGTT	0.313													38	45	---	---	---	---	PASS	G	30213082	G	G	30213082	5	3	172	1	0	0	0	0	0	0	1	0	17099	1536	53	5	1217	5	UTP6	17	30213082	Splice_Site	SNP	T	TCGA-66-2795-01A-02D-0983-08	3203246	30213082	50982128	338	61598										
CCL7	6354	broad.mit.edu	37	chr17	32598747	32598747	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aactggacaaggagatctgtGctgaccccacacagaagtgg	12	10	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:32598747G>A	uc002hhz.2	+	3	296	c.226G>A	c.(226-228)GCT>ACT	p.A76T	CCL7_uc010ctf.2_RNA	NM_006273	NP_006264	P80098	CCL7_HUMAN	chemokine (C-C motif) ligand 7 precursor	76					cell-cell signaling|cellular calcium ion homeostasis|chemotaxis|immune response|inflammatory response|signal transduction	extracellular space	chemokine activity|heparin binding			ovary(1)	1	Breast(3;0.00224)	Breast(31;0.151)|Ovarian(249;0.17)		BRCA - Breast invasive adenocarcinoma(366;0.155)		GGAGATCTGTGCTGACCCCAC	0.483													19	77	---	---	---	---	PASS	A	32598747	A	A	32598747	3	1	172	1	0	0	0	0	1	0	0	0	2906	1319	46	3	236	3	CCL7	17	32598747	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2385665	32598747	48596463	339	61599										
PEX12	5193	broad.mit.edu	37	chr17	33902880	33902880	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgggacaagcttggtgactcCtcacataatgaaacacacag	9	10	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:33902880C>A	uc002hjp.2	-	3	1617	c.1001G>T	c.(1000-1002)AGG>ATG	p.R334M		NM_000286	NP_000277	O00623	PEX12_HUMAN	peroxisomal biogenesis factor 12	334	Cytoplasmic (Potential).|RING-type; degenerate.				protein import into peroxisome matrix	integral to peroxisomal membrane	protein C-terminus binding|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TTGGTGACTCCTCACATAATG	0.448													6	92	---	---	---	---	PASS	A	33902880	A	A	33902880	3	1	172	1	0	0	0	0	1	0	0	0	11740	681	24	3	82	3	PEX12	17	33902880	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1304133	33902880	47292330	340	61600										
FBXL20	84961	broad.mit.edu	37	chr17	37425100	37425100	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctgaacacactcttccaggtCcatcttttcaagttcatggc	6	13	4	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:37425100C>A	uc010wed.1	-	12	1134	c.913G>T	c.(913-915)GAC>TAC	p.D305Y	FBXL20_uc002hrt.2_Missense_Mutation_p.D305Y|FBXL20_uc010cvu.2_Missense_Mutation_p.D273Y	NM_032875	NP_116264	Q96IG2	FXL20_HUMAN	F-box and leucine-rich repeat protein 20	305	LRR 9.					cytoplasm				ovary(1)	1			LUAD - Lung adenocarcinoma(14;0.146)			TCTTCCAGGTCCATCTTTTCA	0.318													39	46	---	---	---	---	PASS	A	37425100	A	A	37425100	3	1	172	1	0	0	0	0	1	0	0	0	5717	855	30	2	413	2	FBXL20	17	37425100	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	3522220	37425100	43770110	341	61601										
MED24	9862	broad.mit.edu	37	chr17	38209752	38209752	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gagaatatcccaggtggctcCtttaggaaagaatttcttca	9	8	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:38209752C>A	uc002htt.2	-	2	413	c.100G>T	c.(100-102)GGA>TGA	p.G34*	MED24_uc010wet.1_RNA|MED24_uc002hts.2_Nonsense_Mutation_p.G59*|MED24_uc002htu.2_Nonsense_Mutation_p.G34*|MED24_uc010cwn.2_Nonsense_Mutation_p.G34*|MED24_uc010weu.1_Translation_Start_Site|MED24_uc010wev.1_Intron|MED24_uc010wew.1_Intron|MED24_uc010wex.1_5'Flank|MED24_uc010wfa.1_5'Flank|MED24_uc010wfb.1_Nonsense_Mutation_p.G59*|MED24_uc010wfc.1_5'Flank	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	34					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)					CAGGTGGCTCCTTTAGGAAAG	0.463													8	337	---	---	---	---	PASS	A	38209752	A	A	38209752	4	1	172	1	0	0	0	0	0	1	0	0	9442	690	24	3	2969	3	MED24	17	38209752	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	784652	38209752	42985458	342	61602										
KRT20	54474	broad.mit.edu	37	chr17	39034579	39034579	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gctaactggctgctgtaacgGgccttggtctcctctagagt	12	11	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:39034579G>T	uc002hvl.2	-	6	999	c.957C>A	c.(955-957)GCC>GCA	p.A319A		NM_019010	NP_061883	P35900	K1C20_HUMAN	keratin 20	319	Rod.|Coil 2.				apoptosis|intermediate filament organization	Golgi apparatus|intermediate filament	protein binding|structural constituent of cytoskeleton			large_intestine(1)|kidney(1)|skin(1)	3		Breast(137;0.000301)|Ovarian(249;0.15)				TGCTGTAACGGGCCTTGGTCT	0.483													47	56	---	---	---	---	PASS	T	39034579	T	T	39034579	2	4	172	1	0	0	0	0	0	0	0	1	8458	1219	43	3		3	KRT20	17	39034579	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	824827	39034579	42160631	343	61603										
ATXN7L3	56970	broad.mit.edu	37	chr17	42272026	42272026	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtcattatccagggagctctCgacctctggaaggacactgg	12	11	3	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:42272026C>A	uc002iga.2	-	11	845	c.754G>T	c.(754-756)GAG>TAG	p.E252*	ATXN7L3_uc010wiv.1_Nonsense_Mutation_p.E34*|ATXN7L3_uc002ifz.2_Nonsense_Mutation_p.E259*	NM_001098833	NP_001092303	Q14CW9	AT7L3_HUMAN	ataxin 7-like 3 isoform b	252	SCA7.				histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|metal ion binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.113)		AGGGAGCTCTCGACCTCTGGA	0.557													4	64	---	---	---	---	PASS	A	42272026	A	A	42272026	4	1	172	1	0	0	0	0	0	1	0	0	1218	893	31	2	297	2	ATXN7L3	17	42272026	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	3237447	42272026	38923184	344	61604										
C17orf104	284071	broad.mit.edu	37	chr17	42744414	42744414	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttcaggttaagccagcgaatCagaaaaaaatggaggagaca	11	6	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:42744414C>T	uc010czv.2	+	5	1135	c.1135C>T	c.(1135-1137)CAG>TAG	p.Q379*	C17orf104_uc002igy.1_Nonsense_Mutation_p.Q213*|C17orf104_uc002igz.3_Nonsense_Mutation_p.Q213*|C17orf104_uc010wja.1_RNA|C17orf104_uc002iha.2_Nonsense_Mutation_p.Q213*	NM_001145080	NP_001138552	A2RUB1	CQ104_HUMAN	hypothetical protein LOC284071	379										central_nervous_system(1)	1						GCCAGCGAATCAGAAAAAAAT	0.403													38	39	---	---	---	---	PASS	T	42744414	T	T	42744414	4	4	172	1	0	0	0	0	0	1	0	0	1851	827	29	2	1153	2	C17orf104	17	42744414	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	472388	42744414	38450796	345	61605										
CRHR1	1394	broad.mit.edu	37	chr17	43912064	43912064	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cgtgcccgagtggcccgtgcCatgtccatccccacctcccc	9	21	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:43912064C>T	uc010dap.2	+	14	1534	c.1269C>T	c.(1267-1269)GCC>GCT	p.A423A	CRHR1_uc010wjx.1_Silent_p.A219A|CRHR1_uc002ijp.2_Missense_Mutation_p.P248L|CRHR1_uc002ijm.2_Silent_p.A394A|CRHR1_uc002ijn.2_Silent_p.A354A|CRHR1_uc010dar.2_Silent_p.A380A|CRHR1_uc010dao.2_Silent_p.A293A|CRHR1_uc010daq.2_Silent_p.A219A	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	423	Cytoplasmic (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		TGGCCCGTGCCATGTCCATCC	0.632													28	22	---	---	---	---	PASS	T	43912064	T	T	43912064	2	4	172	1	0	0	0	0	0	0	0	1	3871	581	21	3		3	CRHR1	17	43912064	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	1167650	43912064	37283146	346	61606										
MAPT	4137	broad.mit.edu	37	chr17	44101454	44101454	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcagcaatgtctcctccaccGgcagcatcgacatggtagac	9	14	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:44101454G>A	uc002ijr.3	+	14	2514	c.2194G>A	c.(2194-2196)GGC>AGC	p.G732S	MAPT_uc010dau.2_Missense_Mutation_p.G750S|MAPT_uc002ijs.3_Missense_Mutation_p.G415S|MAPT_uc002ijx.3_Missense_Mutation_p.G386S|MAPT_uc002ijt.3_Missense_Mutation_p.G357S|MAPT_uc002iju.3_Missense_Mutation_p.G326S|MAPT_uc002ijv.3_Missense_Mutation_p.G333S	NM_016835	NP_058519	P10636	TAU_HUMAN	microtubule-associated protein tau isoform 1	732					cellular component disassembly involved in apoptosis|microtubule cytoskeleton organization|negative regulation of microtubule depolymerization|positive regulation of axon extension|positive regulation of microtubule polymerization|regulation of autophagy	axon|cytosol|growth cone|microtubule|microtubule associated complex|nuclear periphery|plasma membrane|tubulin complex	apolipoprotein E binding|enzyme binding|identical protein binding|lipoprotein particle binding|microtubule binding|protein binding|SH3 domain binding|structural constituent of cytoskeleton			pancreas(1)	1		Melanoma(429;0.216)				CTCCTCCACCGGCAGCATCGA	0.637													45	44	---	---	---	---	PASS	A	44101454	A	A	44101454	3	1	172	1	0	0	0	0	1	0	0	0	9297	1116	39	1	2302	1	MAPT	17	44101454	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	189390	44101454	37093756	347	61607										
HOXB9	3219	broad.mit.edu	37	chr17	46703155	46703155	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcctcgcttccttcgcaaatTttattgtccccgtagccggg	8	14	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:46703155T>G	uc002inx.2	-	1	681	c.477A>C	c.(475-477)AAA>AAC	p.K159N		NM_024017	NP_076922	P17482	HXB9_HUMAN	homeobox B9	159					canonical Wnt receptor signaling pathway|cell chemotaxis	mitochondrion|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CTTCGCAAATTTTATTGTCCC	0.567													18	58	---	---	---	---	PASS	G	46703155	G	G	46703155	3	3	172	1	0	0	0	0	1	0	0	0	7308	1838	64	5	283	5	HOXB9	17	46703155	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	2601701	46703155	34492055	348	61608										
KIF2B	84643	broad.mit.edu	37	chr17	51900675	51900675	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	acaccccatgccgcccccgcCcttatcccccttggctctgg	7	22	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:51900675C>A	uc002iua.2	+	1	437	c.281C>A	c.(280-282)CCC>CAC	p.P94H	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	94					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CCGCCCCCGCCCTTATCCCCC	0.572													44	90	---	---	---	---	PASS	A	51900675	A	A	51900675	3	1	172	1	0	0	0	0	1	0	0	0	8298	623	22	3	283	3	KIF2B	17	51900675	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	5197520	51900675	29294535	349	61609										
KIF2B	84643	broad.mit.edu	37	chr17	51901022	51901022	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tctcagtcctggagcccccgCaagaacatcgcatctgcgtc	9	16	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:51901022C>G	uc002iua.2	+	1	784	c.628C>G	c.(628-630)CAA>GAA	p.Q210E	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	210	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						GGAGCCCCCGCAAGAACATCG	0.537													20	39	---	---	---	---	PASS	G	51901022	G	G	51901022	3	3	172	1	0	0	0	0	1	0	0	0	8298	711	25	4	630	4	KIF2B	17	51901022	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	347	51901022	29294188	350	61610										
AKAP1	8165	broad.mit.edu	37	chr17	55184062	55184062	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccacagcagaggcagctgttGccccgccggatgctggcctc	13	16	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:55184062G>T	uc002iux.2	+	2	1468	c.1237G>T	c.(1237-1239)GCC>TCC	p.A413S	AKAP1_uc010wnl.1_Missense_Mutation_p.A413S|AKAP1_uc002iuy.2_RNA|AKAP1_uc010dcm.2_Missense_Mutation_p.A413S	NM_003488	NP_003479	Q92667	AKAP1_HUMAN	A-kinase anchor protein 1 precursor	413					blood coagulation	cytosol|integral to membrane|mitochondrial outer membrane	protein binding|RNA binding			ovary(1)	1	Breast(9;5.46e-08)					GGCAGCTGTTGCCCCGCCGGA	0.622													12	12	---	---	---	---	PASS	T	55184062	T	T	55184062	3	4	172	1	0	0	0	0	1	0	0	0	445	1319	46	3	1239	3	AKAP1	17	55184062	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	3283040	55184062	26011148	351	61611										
SFRS1	6426	broad.mit.edu	37	chr17	56084313	56084313	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atgccgcctcaccgcgggtcCtcgaactcaacgaaggcgaa	11	15	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:56084313C>A	uc002ivi.2	-	1	395	c.186G>T	c.(184-186)GAG>GAT	p.E62D	SFRS1_uc002ivj.2_Missense_Mutation_p.E62D	NM_006924	NP_008855	Q07955	SRSF1_HUMAN	splicing factor, arginine/serine-rich 1 isoform	62	RRM 1.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA 5'-splice site recognition|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytoplasm|nuclear speck	nucleotide binding|RNA binding				0		Colorectal(1115;0.0691)		LUAD - Lung adenocarcinoma(1115;0.247)		ACCGCGGGTCCTCGAACTCAA	0.597													46	45	---	---	---	---	PASS	A	56084313	A	A	56084313	3	1	172	1	0	0	0	0	1	0	0	0	14165	680	24	3	630	3	SFRS1	17	56084313	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	900251	56084313	25110897	352	61612										
TEX14	56155	broad.mit.edu	37	chr17	56634390	56634390	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aatcagtctgacaagtcactCtgatccagcacgattatcct	6	12	4	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:56634390C>A	uc010dcz.1	-	33	4594	c.4476G>T	c.(4474-4476)CAG>CAT	p.Q1492H	TEX14_uc002iwr.1_Missense_Mutation_p.Q1486H|TEX14_uc002iws.1_Missense_Mutation_p.Q1446H|TEX14_uc010dda.1_Missense_Mutation_p.Q1226H	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	1492						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					ACAAGTCACTCTGATCCAGCA	0.408													43	46	---	---	---	---	PASS	A	56634390	A	A	56634390	3	1	172	1	0	0	0	0	1	0	0	0	15775	912	32	2	21	2	TEX14	17	56634390	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	550077	56634390	24560820	353	61613										
MRC2	9902	broad.mit.edu	37	chr17	60742095	60742095	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cacaggctggccaggcaccaAcaccacggcctccctgggca	11	18	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:60742095A>G	uc002jad.2	+	2	707	c.305A>G	c.(304-306)AAC>AGC	p.N102S	MRC2_uc002jac.2_Missense_Mutation_p.N102S	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	102	Extracellular (Potential).|Ricin B-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CCAGGCACCAACACCACGGCC	0.612													23	31	---	---	---	---	PASS	G	60742095	G	G	60742095	3	3	172	1	0	0	0	0	1	0	0	0	9758	43	2	5	311	5	MRC2	17	60742095	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	4107705	60742095	20453115	354	61614										
MARCH10	162333	broad.mit.edu	37	chr17	60821758	60821758	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgctcccctgggaaccggcaCctttgcaggccactgctgtt	11	15	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:60821758C>A	uc010ddr.2	-	5	752	c.514G>T	c.(514-516)GTG>TTG	p.V172L	MARCH10_uc002jag.3_Missense_Mutation_p.V172L|MARCH10_uc010dds.2_Missense_Mutation_p.V210L|MARCH10_uc002jah.2_Missense_Mutation_p.V171L	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	172							ligase activity|zinc ion binding				0						GGAACCGGCACCTTTGCAGGC	0.557													21	81	---	---	---	---	PASS	A	60821758	A	A	60821758	3	1	172	1	0	0	0	0	1	0	0	0	9299	507	18	3	1940	3	MARCH10	17	60821758	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	79663	60821758	20373452	355	61615										
BPTF	2186	broad.mit.edu	37	chr17	65900897	65900897	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tagtaaaactcatgtttataGgtttgttcctaaattgccag	7	6	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:65900897G>T	uc002jgf.2	+	9	2814	c.2753G>T	c.(2752-2754)AGG>ATG	p.R918M	BPTF_uc002jge.2_Missense_Mutation_p.R1044M|BPTF_uc010wqm.1_Missense_Mutation_p.R981M	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1044					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			CATGTTTATAGGTTTGTTCCT	0.353													5	60	---	---	---	---	PASS	T	65900897	T	T	65900897	3	4	172	1	0	0	0	0	1	0	0	0	1495	1000	35	3	3173	3	BPTF	17	65900897	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	5079139	65900897	15294313	356	61616										
KCNJ2	3759	broad.mit.edu	37	chr17	68171704	68171704	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctgcatcatcgatgctttcaTcattggcgcagtcatggcca	9	12	4	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:68171704T>C	uc010dfg.2	+	2	925	c.524T>C	c.(523-525)ATC>ACC	p.I175T	KCNJ2_uc002jir.2_Missense_Mutation_p.I175T	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	175	Helical; Name=M2; (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					GATGCTTTCATCATTGGCGCA	0.488													48	52	---	---	---	---	PASS	C	68171704	C	C	68171704	3	2	172	1	0	0	0	0	1	0	0	0	8051	1435	50	5	526	5	KCNJ2	17	68171704	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	2270807	68171704	13023506	357	61617										
SDK2	54549	broad.mit.edu	37	chr17	71348719	71348719	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcaggatgtccatgctgaacGtgtaggagctcacctccttg	11	11	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:71348719G>A	uc010dfm.2	-	41	5651	c.5651C>T	c.(5650-5652)ACG>ATG	p.T1884M	SDK2_uc002jjt.3_Missense_Mutation_p.T1024M|SDK2_uc002jjv.1_RNA	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1884	Fibronectin type-III 13.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						CATGCTGAACGTGTAGGAGCT	0.597													8	49	---	---	---	---	PASS	A	71348719	A	A	71348719	3	1	172	1	0	0	0	0	1	0	0	0	13969	1145	40	1	887	1	SDK2	17	71348719	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	3177015	71348719	9846491	358	61618										
KIAA0195	9772	broad.mit.edu	37	chr17	73488676	73488676	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctgcatccagtttgatgactCcaactggcagctgcacctca	8	14	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr17:73488676C>A	uc002jnz.3	+	15	1993	c.1718C>A	c.(1717-1719)TCC>TAC	p.S573Y	KIAA0195_uc010wsa.1_Missense_Mutation_p.S583Y|KIAA0195_uc010wsb.1_Missense_Mutation_p.S213Y|KIAA0195_uc002job.3_5'Flank	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	573					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			TTTGATGACTCCAACTGGCAG	0.592													6	73	---	---	---	---	PASS	A	73488676	A	A	73488676	3	1	172	1	0	0	0	0	1	0	0	0	8160	855	30	2	1772	2	KIAA0195	17	73488676	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	2139957	73488676	7706534	359	61619										
SMCHD1	23347	broad.mit.edu	37	chr18	2707859	2707859	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggaagcaatgcaaaagcttcCaggaacaagccatggagggt	13	8	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr18:2707859C>T	uc002klm.3	+	17	2390	c.2201C>T	c.(2200-2202)CCA>CTA	p.P734L	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	734					chromosome organization		ATP binding				0						CAAAAGCTTCCAGGAACAAGC	0.303													11	21	---	---	---	---	PASS	T	2707859	T	T	2707859	3	4	172	1	0	0	0	0	1	0	0	0	14788	594	21	3	2267	3	SMCHD1	18	2707859	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08		2707859	75369389	360	61620										
TCEB3B	51224	broad.mit.edu	37	chr18	44560934	44560934	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccctgggcacacaaggggcgTttttcctggcgagacgattt	13	11	0	1	rs148199634		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr18:44560934T>A	uc002lcr.1	-	1	1055	c.702A>T	c.(700-702)AAA>AAT	p.K234N	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	234					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						ACAAGGGGCGTTTTTCCTGGC	0.607													13	13	---	---	---	---	PASS	A	44560934	A	A	44560934	3	1	172	1	0	0	0	0	1	0	0	0	15679	1722	60	5	1563	5	TCEB3B	18	44560934	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	41853075	44560934	33516314	361	61621										
CCDC68	80323	broad.mit.edu	37	chr18	52586518	52586518	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgacctcctggatgacactgCgcaggttctgatgttgggag	14	9	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr18:52586518C>T	uc002lfs.2	-	9	945	c.773G>A	c.(772-774)CGC>CAC	p.R258H	CCDC68_uc002lft.2_Missense_Mutation_p.R258H	NM_001143829	NP_001137301	Q9H2F9	CCD68_HUMAN	coiled-coil domain containing 68	258	Potential.									skin(1)	1				Colorectal(16;0.0256)|READ - Rectum adenocarcinoma(59;0.21)		GATGACACTGCGCAGGTTCTG	0.468													23	51	---	---	---	---	PASS	T	52586518	T	T	52586518	3	4	172	1	0	0	0	0	1	0	0	0	2840	768	27	1	250	1	CCDC68	18	52586518	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	8025584	52586518	25490730	362	61622										
CLEC4M	10332	broad.mit.edu	37	chr19	7830871	7830871	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tctaccaggagctgacccggCtgaaggctgcagtgggtgag	16	10	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:7830871C>A	uc002mih.2	+	5	611	c.493C>A	c.(493-495)CTG>ATG	p.L165M	CLEC4M_uc010xjv.1_Missense_Mutation_p.L160M|CLEC4M_uc002mhy.2_Missense_Mutation_p.L132M|CLEC4M_uc010xjw.1_Missense_Mutation_p.L167M|CLEC4M_uc010dvt.2_Intron|CLEC4M_uc010dvs.2_Missense_Mutation_p.L164M|CLEC4M_uc010xjx.1_Missense_Mutation_p.L137M|CLEC4M_uc002mhz.2_Intron|CLEC4M_uc002mic.2_Missense_Mutation_p.L160M|CLEC4M_uc002mia.2_Intron	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	165	Extracellular (Probable).|7 X approximate tandem repeats.|3.				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						GCTGACCCGGCTGAAGGCTGC	0.582													4	40	---	---	---	---	PASS	A	7830871	A	A	7830871	3	1	172	1	0	0	0	0	1	0	0	0	3518	796	28	3	597	3	CLEC4M	19	7830871	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08		7830871	51298112	363	61623										
MUC16	94025	broad.mit.edu	37	chr19	9063042	9063042	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggacagtgctcatctctgtgGctaagctggtcccctcagag	12	12	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:9063042G>T	uc002mkp.2	-	3	24608	c.24404C>A	c.(24403-24405)GCC>GAC	p.A8135D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8137	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CATCTCTGTGGCTAAGCTGGT	0.532													34	47	---	---	---	---	PASS	T	9063042	T	T	9063042	3	4	172	1	0	0	0	0	1	0	0	0	9973	1203	42	3	19447	3	MUC16	19	9063042	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1232171	9063042	50065941	364	61624										
MUC16	94025	broad.mit.edu	37	chr19	9063975	9063975	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gggtcagggaggaagctagcTctgtctgaatcctcctagtc	13	10	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:9063975T>C	uc002mkp.2	-	3	23675	c.23471A>G	c.(23470-23472)GAG>GGG	p.E7824G		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7826	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGAAGCTAGCTCTGTCTGAAT	0.542													28	36	---	---	---	---	PASS	C	9063975	C	C	9063975	3	2	172	1	0	0	0	0	1	0	0	0	9973	1551	54	5	20380	5	MUC16	19	9063975	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	933	9063975	50065008	365	61625										
ZNF560	147741	broad.mit.edu	37	chr19	9578544	9578544	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgtgattattaaggtgggtaGggtatctaaaatcttttcca	10	4	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:9578544G>T	uc002mlp.1	-	10	1289	c.1079C>A	c.(1078-1080)CCT>CAT	p.P360H	ZNF560_uc010dwr.1_Missense_Mutation_p.P254H	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	360	C2H2-type 2.				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						AAGGTGGGTAGGGTATCTAAA	0.383													21	32	---	---	---	---	PASS	T	9578544	T	T	9578544	3	4	172	1	0	0	0	0	1	0	0	0	17988	1000	35	3	1297	3	ZNF560	19	9578544	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	514569	9578544	49550439	366	61626										
ZNF562	54811	broad.mit.edu	37	chr19	9764539	9764539	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	attctcacagagtttccatcCactgtagcttcttgtctgct	6	12	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:9764539C>A	uc010xks.1	-	6	530	c.367G>T	c.(367-369)GGA>TGA	p.G123*	ZNF562_uc002mly.2_Nonsense_Mutation_p.G123*|ZNF562_uc002mlx.2_Nonsense_Mutation_p.G51*|ZNF562_uc010xkt.1_Nonsense_Mutation_p.G86*|ZNF562_uc010xku.1_Nonsense_Mutation_p.G54*|ZNF562_uc010xkv.1_Nonsense_Mutation_p.G122*|ZNF562_uc010xkw.1_Nonsense_Mutation_p.G7*	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	123					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGTTTCCATCCACTGTAGCTT	0.393													4	44	---	---	---	---	PASS	A	9764539	A	A	9764539	4	1	172	1	0	0	0	0	0	1	0	0	17990	603	21	3	917	3	ZNF562	19	9764539	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	185995	9764539	49364444	367	61627										
C19orf44	84167	broad.mit.edu	37	chr19	16612105	16612105	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccgaaaataatgcacagaacGcgaaggtcagtaggtttcta	10	8	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:16612105G>A	uc002neh.1	+	2	575	c.502G>A	c.(502-504)GCG>ACG	p.A168T	MED26_uc002nee.2_Intron|C19orf44_uc002nef.1_Missense_Mutation_p.A168T|C19orf44_uc002neg.2_Missense_Mutation_p.A168T|C19orf44_uc010eai.1_RNA	NM_032207	NP_115583	Q9H6X5	CS044_HUMAN	hypothetical protein LOC84167	168											0						TGCACAGAACGCGAAGGTCAG	0.493													19	80	---	---	---	---	PASS	A	16612105	A	A	16612105	3	1	172	1	0	0	0	0	1	0	0	0	1927	1087	38	1	504	1	C19orf44	19	16612105	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	6847566	16612105	42516878	368	61628										
KIAA1683	80726	broad.mit.edu	37	chr19	18368721	18368721	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gcgacgcgccaggtagccacGgacgcccgcctggatagtga	15	14	0	1	rs146173511		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:18368721G>A	uc002nin.2	-	4	3028	c.2812C>T	c.(2812-2814)CGT>TGT	p.R938C	PDE4C_uc002nil.3_5'Flank|KIAA1683_uc010ebn.2_Missense_Mutation_p.R1125C|KIAA1683_uc010xqe.1_Missense_Mutation_p.R892C|KIAA1683_uc010xqf.1_RNA	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	938	IQ 2.					mitochondrion				ovary(2)	2						AGGTAGCCACGGACGCCCGCC	0.682													13	24	---	---	---	---	PASS	A	18368721	A	A	18368721	3	1	172	1	0	0	0	0	1	0	0	0	8251	1116	39	1	734	1	KIAA1683	19	18368721	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1756616	18368721	40760262	369	61629										
ZNF99	7652	broad.mit.edu	37	chr19	22940719	22940719	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgaattactttatgtctagtAaggtgtgaggaccacttaaa	9	5	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:22940719A>T	uc010xrh.1	-	5	1719	c.1719T>A	c.(1717-1719)CTT>CTA	p.L573L		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)				TATGTCTAGTAAGGTGTGAGG	0.378													16	51	---	---	---	---	PASS	T	22940719	T	T	22940719	2	4	172	1	0	0	0	0	0	0	0	1	18201	349	13	5		5	ZNF99	19	22940719	Silent	SNP	A	TCGA-66-2795-01A-02D-0983-08	4571998	22940719	36188264	370	61630										
ZNF91	7644	broad.mit.edu	37	chr19	23543751	23543751	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tctcttcagtatgagttatcTtatgattagcaagggttgag	10	5	3	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:23543751T>A	uc002nre.2	-	4	2143	c.2030A>T	c.(2029-2031)AAG>ATG	p.K677M	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.K645M	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	677	C2H2-type 19.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				ATGAGTTATCTTATGATTAGC	0.353													12	77	---	---	---	---	PASS	A	23543751	A	A	23543751	3	1	172	1	0	0	0	0	1	0	0	0	18197	1609	56	5	1549	5	ZNF91	19	23543751	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	603032	23543751	35585232	371	61631										
ZNF91	7644	broad.mit.edu	37	chr19	23544675	23544675	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tctcttcagtatgagttatcTtatgattagcaagggttgag	10	5	3	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:23544675T>A	uc002nre.2	-	4	1219	c.1106A>T	c.(1105-1107)AAG>ATG	p.K369M	ZNF91_uc010xrj.1_Missense_Mutation_p.K337M	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	369	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				ATGAGTTATCTTATGATTAGC	0.353													12	33	---	---	---	---	PASS	A	23544675	A	A	23544675	3	1	172	1	0	0	0	0	1	0	0	0	18197	1609	56	5	2473	5	ZNF91	19	23544675	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	924	23544675	35584308	372	61632										
SLC7A9	11136	broad.mit.edu	37	chr19	33333196	33333196	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	taacgagtttatgtcaccagGgatgatataaatcgttgcta	9	6	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:33333196G>T	uc002ntv.3	-	11	1219	c.1102C>A	c.(1102-1104)CCT>ACT	p.P368T	SLC7A9_uc002ntt.3_RNA|SLC7A9_uc002ntu.3_Missense_Mutation_p.P368T|SLC7A9_uc002ntw.3_Missense_Mutation_p.P159T	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	368	Helical; (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	ATGTCACCAGGGATGATATAA	0.388													6	127	---	---	---	---	PASS	T	33333196	T	T	33333196	3	4	172	1	0	0	0	0	1	0	0	0	14705	1232	43	3	373	3	SLC7A9	19	33333196	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	9788521	33333196	25795787	373	61633										
GPATCH1	55094	broad.mit.edu	37	chr19	33585143	33585143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aggacaaggagttggtcctcGagtaaagagacggccacgcc	14	10	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:33585143G>T	uc002nug.1	+	5	835	c.521G>T	c.(520-522)CGA>CTA	p.R174L		NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	174	G-patch.					catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					GTTGGTCCTCGAGTAAAGAGA	0.368													5	103	---	---	---	---	PASS	T	33585143	T	T	33585143	3	4	172	1	0	0	0	0	1	0	0	0	6590	1058	37	2	539	2	GPATCH1	19	33585143	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	251947	33585143	25543840	374	61634										
EIF3K	27335	broad.mit.edu	37	chr19	39116734	39116734	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tggagacctgccatttccagGccttctgggtaacttccctg	10	13	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:39116734G>T	uc002oiz.1	+	4	533	c.346G>T	c.(346-348)GCC>TCC	p.A116S	EIF3K_uc010xuh.1_Missense_Mutation_p.A116S|EIF3K_uc010xui.1_Missense_Mutation_p.A29S	NM_013234	NP_037366	Q9UBQ5	EIF3K_HUMAN	eukaryotic translation initiation factor 3,	116					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex|nucleus	protein binding|ribosome binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCATTTCCAGGCCTTCTGGGT	0.567													77	21	---	---	---	---	PASS	T	39116734	T	T	39116734	3	4	172	1	0	0	0	0	1	0	0	0	5021	1203	42	3	360	3	EIF3K	19	39116734	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	5531591	39116734	20012249	375	61635										
FBL	2091	broad.mit.edu	37	chr19	40330880	40330880	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gcccagttctcaccgaaatcGagactctcttctctccataa	5	15	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:40330880G>T	uc002omn.2	-	4	485	c.371C>A	c.(370-372)TCG>TAG	p.S124*	FBL_uc002omm.1_Nonsense_Mutation_p.S38*|FBL_uc002omo.2_Nonsense_Mutation_p.S123*|FBL_uc010egr.2_Nonsense_Mutation_p.S124*	NM_001436	NP_001427	P22087	FBRL_HUMAN	fibrillarin	124					rRNA processing|tRNA processing	box C/D snoRNP complex|Cajal body	methyltransferase activity|protein binding|RNA binding			ovary(1)	1	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)	Renal(1328;0.000518)|Hepatocellular(1079;0.0893)	Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)	GBM - Glioblastoma multiforme(1328;0.000826)|STAD - Stomach adenocarcinoma(1328;0.138)		CACCGAAATCGAGACTCTCTT	0.478													4	55	---	---	---	---	PASS	T	40330880	T	T	40330880	4	4	172	1	0	0	0	0	0	1	0	0	5696	1059	37	2	618	2	FBL	19	40330880	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1214146	40330880	18798103	376	61636										
CYP2A7	1549	broad.mit.edu	37	chr19	41383104	41383104	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaggatagcaccttagggagGaaaaaatcccgaaacttggt	12	7	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:41383104G>T	uc002opm.2	-	7	1694	c.1152C>A	c.(1150-1152)TTC>TTA	p.F384L	CYP2A7_uc002opo.2_Missense_Mutation_p.F384L|CYP2A7_uc002opn.2_Missense_Mutation_p.F333L	NM_000764	NP_000755	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A,	384						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			CCTTAGGGAGGAAAAAATCCC	0.527													20	77	---	---	---	---	PASS	T	41383104	T	T	41383104	3	4	172	1	0	0	0	0	1	0	0	0	4163	1165	41	2	344	2	CYP2A7	19	41383104	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1052224	41383104	17745879	377	61637										
PSG9	5678	broad.mit.edu	37	chr19	43772283	43772283	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cggcagtggtgggcgggttcCagaagtttaaaagtgatgct	16	6	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:43772283C>A	uc002owd.3	-	2	182	c.83G>T	c.(82-84)TGG>TTG	p.W28L	PSG9_uc002owe.3_Missense_Mutation_p.W28L|PSG9_uc010xwm.1_Missense_Mutation_p.W28L|PSG9_uc002owf.3_Missense_Mutation_p.W28L|PSG9_uc002owg.2_Missense_Mutation_p.W28L|PSG9_uc002owh.2_Missense_Mutation_p.W28L	NM_002784	NP_002775	Q00887	PSG9_HUMAN	pregnancy specific beta-1-glycoprotein 9	28					female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				GGGCGGGTTCCAGAAGTTTAA	0.498													6	201	---	---	---	---	PASS	A	43772283	A	A	43772283	3	1	172	1	0	0	0	0	1	0	0	0	12662	595	21	3	1217	3	PSG9	19	43772283	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	2389179	43772283	15356700	378	61638										
TRPM4	54795	broad.mit.edu	37	chr19	49692232	49692232	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gcgagtgctatcgcagcagtGaggtgagggctgcccgcctc	16	12	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:49692232G>T	uc002pmw.2	+	14	1975	c.1903G>T	c.(1903-1905)GAG>TAG	p.E635*	TRPM4_uc010emu.2_Nonsense_Mutation_p.E635*|TRPM4_uc010yak.1_Nonsense_Mutation_p.E99*|TRPM4_uc002pmx.2_Nonsense_Mutation_p.E461*|TRPM4_uc010emv.2_Nonsense_Mutation_p.E520*|TRPM4_uc010yal.1_Nonsense_Mutation_p.E281*|TRPM4_uc002pmy.2_5'UTR	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	635	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		TCGCAGCAGTGAGGTGAGGGC	0.622													6	96	---	---	---	---	PASS	T	49692232	T	T	49692232	4	4	172	1	0	0	0	0	0	1	0	0	16585	1291	45	2	1957	2	TRPM4	19	49692232	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	5919949	49692232	9436751	379	61639										
SIGLEC8	27181	broad.mit.edu	37	chr19	51958690	51958690	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	acctgtgccctcattctgcaGggagaggctcagggaaatgt	13	10	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:51958690G>T	uc002pwt.2	-	4	1100	c.1033C>A	c.(1033-1035)CTG>ATG	p.L345M	SIGLEC8_uc010yda.1_Missense_Mutation_p.L236M|SIGLEC8_uc002pwu.2_RNA|SIGLEC8_uc010eox.2_Missense_Mutation_p.L252M	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	345	Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		TCATTCTGCAGGGAGAGGCTC	0.632													12	12	---	---	---	---	PASS	T	51958690	T	T	51958690	3	4	172	1	0	0	0	0	1	0	0	0	14314	991	35	3	482	3	SIGLEC8	19	51958690	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	2266458	51958690	7170293	380	61640										
ZNF432	9668	broad.mit.edu	37	chr19	52537242	52537242	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tatacaagatttctcttctgTatgaatttgctgatgtacaa	6	6	2	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:52537242T>A	uc002pyk.2	-	5	2008	c.1690A>T	c.(1690-1692)ACA>TCA	p.T564S		NM_014650	NP_055465	O94892	ZN432_HUMAN	zinc finger protein 432	564					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|pancreas(1)	3		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.0054)|OV - Ovarian serous cystadenocarcinoma(262;0.0182)		TTCTCTTCTGTATGAATTTGC	0.398													60	35	---	---	---	---	PASS	A	52537242	A	A	52537242	3	1	172	1	0	0	0	0	1	0	0	0	17903	1638	57	5	272	5	ZNF432	19	52537242	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	578552	52537242	6591741	381	61641										
ZNF468	90333	broad.mit.edu	37	chr19	53344201	53344201	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gtgccaggtgtgaatccctcTggaaagccttgtcacaaacc	10	12	2	1	rs140223089		TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:53344201T>C	uc002qaf.2	-	4	1497	c.1346A>G	c.(1345-1347)CAG>CGG	p.Q449R	ZNF468_uc002qae.2_Missense_Mutation_p.Q396R	NM_001008801	NP_001008801	Q5VIY5	ZN468_HUMAN	zinc finger protein ZNF468 isoform 2	449	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0358)		TGAATCCCTCTGGAAAGCCTT	0.438													39	50	---	---	---	---	PASS	C	53344201	C	C	53344201	3	2	172	1	0	0	0	0	1	0	0	0	17925	1580	55	5	226	5	ZNF468	19	53344201	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	806959	53344201	5784782	382	61642										
LILRB1	10859	broad.mit.edu	37	chr19	55143986	55143986	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctgaggagaccctgactctgCagtgtggctctgatgctggc	14	11	2	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr19:55143986C>A	uc002qgj.2	+	7	1073	c.733C>A	c.(733-735)CAG>AAG	p.Q245K	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Missense_Mutation_p.Q245K|LILRB1_uc002qgk.2_Missense_Mutation_p.Q245K|LILRB1_uc002qgm.2_Missense_Mutation_p.Q245K|LILRB1_uc010erq.2_Missense_Mutation_p.Q245K|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	245	Ig-like C2-type 3.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		CCTGACTCTGCAGTGTGGCTC	0.562										HNSCC(37;0.09)			27	45	---	---	---	---	PASS	A	55143986	A	A	55143986	3	1	172	1	0	0	0	0	1	0	0	0	8790	711	25	3	751	3	LILRB1	19	55143986	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	1799785	55143986	3984997	383	61643										
CENPB	1059	broad.mit.edu	37	chr20	3766901	3766901	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aggcgatgagcaagccctcgAgcttgtcgtagggagacagc	15	10	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr20:3766901A>T	uc002wjk.2	-	1	437	c.230T>A	c.(229-231)CTC>CAC	p.L77H	CDC25B_uc010zqk.1_5'Flank|CDC25B_uc010zql.1_5'Flank|CDC25B_uc010zqm.1_5'Flank	NM_001810	NP_001801	P07199	CENPB_HUMAN	centromere protein B	77	HTH CENPB-type.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|satellite DNA binding				0						CAAGCCCTCGAGCTTGTCGTA	0.642													17	18	---	---	---	---	PASS	T	3766901	T	T	3766901	3	4	172	1	0	0	0	0	1	0	0	0	3227	304	11	5	1573	5	CENPB	20	3766901	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08		3766901	59258619	384	61644										
MCM8	84515	broad.mit.edu	37	chr20	5965433	5965433	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttcatccttcatagaatgggGagtgcactactatccagatt	8	9	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr20:5965433G>T	uc002wmi.2	+	15	2117	c.1740G>T	c.(1738-1740)GGG>GGT	p.G580G	MCM8_uc002wmj.2_Silent_p.G564G|MCM8_uc002wmk.2_Silent_p.G620G|MCM8_uc002wml.2_Silent_p.G580G|MCM8_uc010gbp.2_Silent_p.G533G|MCM8_uc002wmm.2_Silent_p.G118G	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	580	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						ATAGAATGGGGAGTGCACTAC	0.358													14	44	---	---	---	---	PASS	T	5965433	T	T	5965433	2	4	172	1	0	0	0	0	0	0	0	1	9393	1161	41	2		2	MCM8	20	5965433	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	2198532	5965433	57060087	385	61645										
ANKRD5	63926	broad.mit.edu	37	chr20	10030131	10030131	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agcaagcaaagaaatacgccGagcagagagaatcgctaata	10	8	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr20:10030131G>T	uc002wno.2	+	7	1307	c.914G>T	c.(913-915)CGA>CTA	p.R305L	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Missense_Mutation_p.R305L|ANKRD5_uc010gbz.2_Missense_Mutation_p.R116L	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	305							calcium ion binding			ovary(1)|breast(1)	2						GAAATACGCCGAGCAGAGAGA	0.488													5	104	---	---	---	---	PASS	T	10030131	T	T	10030131	3	4	172	1	0	0	0	0	1	0	0	0	676	1058	37	2	932	2	ANKRD5	20	10030131	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	4064698	10030131	52995389	386	61646										
TASP1	55617	broad.mit.edu	37	chr20	13539738	13539738	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctctagtttcctcttgtttcTtttaaatgcagctaaactga	5	9	3	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr20:13539738T>C	uc002woi.2	-	8	709	c.592A>G	c.(592-594)AGA>GGA	p.R198G	TASP1_uc010zri.1_Intron|TASP1_uc002woh.2_Missense_Mutation_p.R175G|TASP1_uc010zrj.1_RNA	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	198					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						CTCTTGTTTCTTTTAAATGCA	0.249													16	42	---	---	---	---	PASS	C	13539738	C	C	13539738	3	2	172	1	0	0	0	0	1	0	0	0	15586	1617	56	5	698	5	TASP1	20	13539738	Missense_Mutation	SNP	T	TCGA-66-2795-01A-02D-0983-08	3509607	13539738	49485782	387	61647										
RALGAPA2	57186	broad.mit.edu	37	chr20	20505508	20505508	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccactgaggagtactctgcaCttggtaaaagaaaagcaact	9	9	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr20:20505508C>T	uc002wrz.2	-	29	3871	c.3728G>A	c.(3727-3729)AGT>AAT	p.S1243N	RALGAPA2_uc010gcx.2_Missense_Mutation_p.S947N|RALGAPA2_uc010zsg.1_Missense_Mutation_p.S691N|RALGAPA2_uc002wsa.1_Missense_Mutation_p.S15N	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1243					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						GTACTCTGCACTTGGTAAAAG	0.358													11	18	---	---	---	---	PASS	T	20505508	T	T	20505508	3	4	172	1	0	0	0	0	1	0	0	0	13014	565	20	3	1937	3	RALGAPA2	20	20505508	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	6965770	20505508	42520012	388	61648										
REM1	28954	broad.mit.edu	37	chr20	30070289	30070289	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctgccgagaagtctctgtggAaggtgagccctccatcccac	11	14	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr20:30070289A>T	uc002wwa.2	+	4	907	c.623A>T	c.(622-624)GAA>GTA	p.E208V		NM_014012	NP_054731	O75628	REM1_HUMAN	RAS-like GTP-binding protein REM	208					small GTPase mediated signal transduction	membrane	calmodulin binding|GTP binding|GTPase activity			lung(2)|pancreas(2)	4	all_cancers(5;0.000119)|Lung NSC(7;1.32e-05)|all_lung(7;2.14e-05)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			GTCTCTGTGGAAGGTGAGCCC	0.622													16	27	---	---	---	---	PASS	T	30070289	T	T	30070289	3	4	172	1	0	0	0	0	1	0	0	0	13222	246	9	5	633	5	REM1	20	30070289	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	9564781	30070289	32955231	389	61649										
DDX27	55661	broad.mit.edu	37	chr20	47849862	47849862	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggatgctggatgagtactttGaggagcagatgaaggagatc	16	4	0	5			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr20:47849862G>T	uc002xuh.2	+	10	1205	c.1144G>T	c.(1144-1146)GAG>TAG	p.E382*		NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	382	Helicase ATP-binding.					nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TGAGTACTTTGAGGAGCAGAT	0.557													4	35	---	---	---	---	PASS	T	47849862	T	T	47849862	4	4	172	1	0	0	0	0	0	1	0	0	4354	1291	45	2	1182	2	DDX27	20	47849862	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	17779573	47849862	15175658	390	61650										
ZNF831	128611	broad.mit.edu	37	chr20	57829217	57829217	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aaggaacttttccccaccatGacattgctacctctgtggct	7	13	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr20:57829217G>T	uc002yan.2	+	5	4453	c.4453G>T	c.(4453-4455)GAC>TAC	p.D1485Y		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1485						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					TCCCCACCATGACATTGCTAC	0.493													16	35	---	---	---	---	PASS	T	57829217	T	T	57829217	3	4	172	1	0	0	0	0	1	0	0	0	18182	1290	45	2	4471	2	ZNF831	20	57829217	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	9979355	57829217	5196303	391	61651										
ZBTB46	140685	broad.mit.edu	37	chr20	62407098	62407098	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccgtcatcccccagcacgtcGgccttcagcgacagcaggct	10	18	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr20:62407098G>A	uc002ygv.1	-	3	1356	c.1155C>T	c.(1153-1155)GCC>GCT	p.A385A	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	385					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					CCAGCACGTCGGCCTTCAGCG	0.677											OREG0026130	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	35	---	---	---	---	PASS	A	62407098	A	A	62407098	2	1	172	1	0	0	0	0	0	0	0	1	17544	1103	39	1		1	ZBTB46	20	62407098	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	4577881	62407098	618422	392	61652										
TPTE	7179	broad.mit.edu	37	chr21	10921987	10921987	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gaaggcacaaaccatagttcCtgttctatctagaaaagaaa	7	8	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr21:10921987C>G	uc002yip.1	-	18	1404	c.1036G>C	c.(1036-1038)GGA>CGA	p.G346R	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.G328R|TPTE_uc002yir.1_Missense_Mutation_p.G308R|TPTE_uc010gkv.1_Missense_Mutation_p.G208R	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	346	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ACCATAGTTCCTGTTCTATCT	0.323													5	40	---	---	---	---	PASS	G	10921987	G	G	10921987	3	3	172	1	0	0	0	0	1	0	0	0	16427	690	24	4	647	4	TPTE	21	10921987	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08		10921987	37207908	393	61653										
RSPH1	89765	broad.mit.edu	37	chr21	43913095	43913095	+	Frame_Shift_Del	DEL	A	-	-													0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cctggccatgtcttttaccgAattcgtagctcccttcgtag							TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr21:43913095delA	uc002zbg.2	-	2	254	c.149delT	c.(148-150)TTCfs	p.F50fs		NM_080860	NP_543136	Q8WYR4	RSPH1_HUMAN	testis-specific gene A2	50	MORN 2.				meiosis	cytosol|nucleus				ovary(1)	1						TCTTTTACCGAATTCGTAGCT	0.502													83	49	---	---	---	---		-	43913095	-	-	43913095	7	5	172	1	0	1	0	1	0	0	0	0	13702	246	9	0	812	0	RSPH1	21	43913095	Frame_Shift_Del	DEL	A	TCGA-66-2795-01A-02D-0983-08	32991108	43913095	4216800	394	61654										
TRPM2	7226	broad.mit.edu	37	chr21	45815303	45815303	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcactgctcaccaggtgcagGgagtgagcctccggtccctc	12	15	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr21:45815303G>C	uc002zet.1	+	13	2014	c.1801G>C	c.(1801-1803)GGA>CGA	p.G601R	TRPM2_uc002zeu.1_Missense_Mutation_p.G601R|TRPM2_uc002zew.1_Missense_Mutation_p.G601R|TRPM2_uc010gpt.1_Missense_Mutation_p.G601R|TRPM2_uc002zex.1_Missense_Mutation_p.G387R|TRPM2_uc002zey.1_Missense_Mutation_p.G114R	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	601	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCAGGTGCAGGGAGTGAGCCT	0.403													24	41	---	---	---	---	PASS	C	45815303	C	C	45815303	3	2	172	1	0	0	0	0	1	0	0	0	16583	1233	43	4	1847	4	TRPM2	21	45815303	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1902208	45815303	2314592	395	61655										
CECR2	27443	broad.mit.edu	37	chr22	18020401	18020401	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cagctccacacagcccccgcGggaggtgggcacttccaatg	12	16	0	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr22:18020401G>A	uc010gqw.1	+	13	1856	c.1730G>A	c.(1729-1731)CGG>CAG	p.R577Q	CECR2_uc010gqv.1_Missense_Mutation_p.R436Q|CECR2_uc002zml.2_Missense_Mutation_p.R436Q	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	619					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		CAGCCCCCGCGGGAGGTGGGC	0.587													17	19	---	---	---	---	PASS	A	18020401	A	A	18020401	3	1	172	1	0	0	0	0	1	0	0	0	3206	1116	39	1	1782	1	CECR2	22	18020401	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08		18020401	33284165	396	61656										
CECR2	27443	broad.mit.edu	37	chr22	18022205	18022205	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cccttgggcccagatgagaaGccccacctggggccaggacc	13	16	0	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr22:18022205G>A	uc010gqw.1	+	15	2433	c.2307G>A	c.(2305-2307)AAG>AAA	p.K769K	CECR2_uc010gqv.1_Silent_p.K628K|CECR2_uc002zml.2_Silent_p.K628K	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	811					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		CAGATGAGAAGCCCCACCTGG	0.577													11	15	---	---	---	---	PASS	A	18022205	A	A	18022205	2	1	172	1	0	0	0	0	0	0	0	1	3206	962	34	3		3	CECR2	22	18022205	Silent	SNP	G	TCGA-66-2795-01A-02D-0983-08	1804	18022205	33282361	397	61657										
TUBA8	51807	broad.mit.edu	37	chr22	18609431	18609431	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tacctataccaacctcaaccGcctcatcagtcagattgtgt	5	14	4	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr22:18609431G>T	uc002znv.1	+	4	759	c.686G>T	c.(685-687)CGC>CTC	p.R229L	TUBA8_uc002znr.2_Missense_Mutation_p.R163L|TUBA8_uc002znw.1_Missense_Mutation_p.R253L|TUBA8_uc002znx.1_Missense_Mutation_p.R76L	NM_018943	NP_061816	Q9NY65	TBA8_HUMAN	tubulin, alpha 8	229					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0						AACCTCAACCGCCTCATCAGT	0.522													4	45	---	---	---	---	PASS	T	18609431	T	T	18609431	3	4	172	1	0	0	0	0	1	0	0	0	16747	1087	38	1	700	1	TUBA8	22	18609431	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	587226	18609431	32695135	398	61658										
CSF2RB	1439	broad.mit.edu	37	chr22	37334270	37334270	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggcagatgtgtccccaacatCcccacagcccgagggcctcc	10	18	0	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr22:37334270C>T	uc003aqa.3	+	14	2637	c.2420C>T	c.(2419-2421)TCC>TTC	p.S807F	CSF2RB_uc003aqc.3_Missense_Mutation_p.S813F	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	807	Cytoplasmic (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	TCCCCAACATCCCCACAGCCC	0.657													14	31	---	---	---	---	PASS	T	37334270	T	T	37334270	3	4	172	1	0	0	0	0	1	0	0	0	3935	855	30	2	2470	2	CSF2RB	22	37334270	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	18724839	37334270	13970296	399	61659										
TCF20	6942	broad.mit.edu	37	chr22	42609195	42609195	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	aactatctttgtaactatagCgcagacttccaggagatttg	8	8	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr22:42609195C>T	uc003bcj.1	-	1	2251	c.2117G>A	c.(2116-2118)CGC>CAC	p.R706H	TCF20_uc003bck.1_Missense_Mutation_p.R706H|TCF20_uc003bnt.2_Missense_Mutation_p.R706H	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	706					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						GTAACTATAGCGCAGACTTCC	0.507													36	67	---	---	---	---	PASS	T	42609195	T	T	42609195	3	4	172	1	0	0	0	0	1	0	0	0	15687	768	27	1	3803	1	TCF20	22	42609195	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	5274925	42609195	8695371	400	61660										
PARVB	29780	broad.mit.edu	37	chr22	44514978	44514978	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggatcattgtgaagcagctgGaggaagacctgtatgacggc	15	7	1	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chr22:44514978G>T	uc003ben.2	+	4	386	c.334G>T	c.(334-336)GAG>TAG	p.E112*	PARVB_uc003bem.2_Nonsense_Mutation_p.E145*|PARVB_uc010gzn.2_Nonsense_Mutation_p.E60*|PARVB_uc003beo.2_Nonsense_Mutation_p.E75*	NM_013327	NP_037459	Q9HBI1	PARVB_HUMAN	parvin, beta isoform b	112	CH 1.				cell adhesion|cell junction assembly	cytoskeleton|cytosol|focal adhesion	actin binding				0		Ovarian(80;0.0246)|all_neural(38;0.0423)				GAAGCAGCTGGAGGAAGACCT	0.602													18	39	---	---	---	---	PASS	T	44514978	T	T	44514978	4	4	172	1	0	0	0	0	0	1	0	0	11469	1175	41	2	567	2	PARVB	22	44514978	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1905783	44514978	6789588	401	61661										
GLRA2	2742	broad.mit.edu	37	chrX	14708972	14708972	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctccgaagaagacagaagagGcagaataaggtatgattgcc	12	7	0	6			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:14708972G>T	uc010nep.2	+	9	1403	c.1071G>T	c.(1069-1071)AGG>AGT	p.R357S	GLRA2_uc010neq.2_Missense_Mutation_p.R357S|GLRA2_uc004cwe.3_Missense_Mutation_p.R357S|GLRA2_uc011mio.1_Missense_Mutation_p.R268S|GLRA2_uc011mip.1_Missense_Mutation_p.R335S	NM_001118885	NP_001112357	P23416	GLRA2_HUMAN	glycine receptor, alpha 2 isoform A	357	Cytoplasmic (Probable).				neuropeptide signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(1)|lung(1)	2	Hepatocellular(33;0.128)				Ethanol(DB00898)|Glycine(DB00145)	GACAGAAGAGGCAGAATAAGG	0.468													29	19	---	---	---	---	PASS	T	14708972	T	T	14708972	3	4	172	1	0	0	0	0	1	0	0	0	6455	1194	42	3	1173	3	GLRA2	23	14708972	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08		14708972	140561588	402	61662										
CNKSR2	22866	broad.mit.edu	37	chrX	21545097	21545097	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tctctacattccccctcctcCtgcagaaccatatattccca	2	18	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:21545097C>A	uc004czx.1	+	10	1106	c.1070C>A	c.(1069-1071)CCT>CAT	p.P357H	CNKSR2_uc004czw.2_Missense_Mutation_p.P357H|CNKSR2_uc011mjn.1_Missense_Mutation_p.P308H|CNKSR2_uc011mjo.1_Missense_Mutation_p.P357H|CNKSR2_uc004czy.2_Translation_Start_Site	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	357	Poly-Pro.|DUF1170.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						CCCCCTCCTCCTGCAGAACCA	0.473													6	154	---	---	---	---	PASS	A	21545097	A	A	21545097	3	1	172	1	0	0	0	0	1	0	0	0	3607	681	24	3	1108	3	CNKSR2	23	21545097	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	6836125	21545097	133725463	403	61663										
CNKSR2	22866	broad.mit.edu	37	chrX	21609254	21609254	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gagttacttttcacagaaatGgaaaaaatattggtttgtcc	8	5	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:21609254G>T	uc004czx.1	+	15	1808	c.1772G>T	c.(1771-1773)TGG>TTG	p.W591L	CNKSR2_uc004czw.2_Missense_Mutation_p.W591L|CNKSR2_uc011mjn.1_Missense_Mutation_p.W542L|CNKSR2_uc011mjo.1_Missense_Mutation_p.W561L|CNKSR2_uc004czy.2_Missense_Mutation_p.W183L	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	591	PH.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						TCACAGAAATGGAAAAAATAT	0.378													5	47	---	---	---	---	PASS	T	21609254	T	T	21609254	3	4	172	1	0	0	0	0	1	0	0	0	3607	1357	47	3	1830	3	CNKSR2	23	21609254	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	64157	21609254	133661306	404	61664										
MAGEB4	4115	broad.mit.edu	37	chrX	30260360	30260360	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	cctactgcagcagagaaagaAgagtctccttcctcttcctc	7	14	2	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:30260360A>G	uc004dcb.2	+	1	192	c.108A>G	c.(106-108)GAA>GAG	p.E36E	MAGEB1_uc004dcc.2_5'Flank|MAGEB1_uc004dcd.2_5'Flank	NM_002367	NP_002358	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	36										ovary(1)	1						CAGAGAAAGAAGAGTCTCCTT	0.572													8	6	---	---	---	---	PASS	G	30260360	G	G	30260360	2	3	172	1	0	0	0	0	0	0	0	1	9178	69	3	5		5	MAGEB4	23	30260360	Silent	SNP	A	TCGA-66-2795-01A-02D-0983-08	8651106	30260360	125010200	405	61665										
FAM47C	442444	broad.mit.edu	37	chrX	37027451	37027451	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tcatctccgcccagagccttCtgagactggagtgtcccatc	9	15	3	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:37027451C>T	uc004ddl.1	+	1	982	c.968C>T	c.(967-969)TCT>TTT	p.S323F		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	323										ovary(3)	3						CCAGAGCCTTCTGAGACTGGA	0.612													29	14	---	---	---	---	PASS	T	37027451	T	T	37027451	3	4	172	1	0	0	0	0	1	0	0	0	5571	913	32	2	970	2	FAM47C	23	37027451	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	6767091	37027451	118243109	406	61666										
FAM47C	442444	broad.mit.edu	37	chrX	37028697	37028697	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	gagactggagtgtcccatctCcgcccagagcctcccaagcc	10	17	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:37028697C>T	uc004ddl.1	+	1	2228	c.2214C>T	c.(2212-2214)CTC>CTT	p.L738L		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	738										ovary(3)	3						TGTCCCATCTCCGCCCAGAGC	0.632													25	10	---	---	---	---	PASS	T	37028697	T	T	37028697	2	4	172	1	0	0	0	0	0	0	0	1	5571	842	30	2		2	FAM47C	23	37028697	Silent	SNP	C	TCGA-66-2795-01A-02D-0983-08	1246	37028697	118241863	407	61667										
KDM6A	7403	broad.mit.edu	37	chrX	44929602	44929602	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	agaagttctgaaggcatgcaGgttagtgtgggaaagttcat	14	4	2	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:44929602G>A	uc004dge.3	+	17	3077	c.2702G>A	c.(2701-2703)AGG>AAG	p.R901K	KDM6A_uc010nhk.2_Missense_Mutation_p.R867K|KDM6A_uc011mkz.1_Missense_Mutation_p.R953K|KDM6A_uc011mla.1_Missense_Mutation_p.R856K|KDM6A_uc011mlb.1_Missense_Mutation_p.R908K|KDM6A_uc011mlc.1_Missense_Mutation_p.R605K|KDM6A_uc011mld.1_Missense_Mutation_p.R540K	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	901					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						AAGGCATGCAGGTTAGTGTGG	0.418			D|N|F|S		renal|oesophageal SCC|MM								8	6	---	---	---	---	PASS	A	44929602	A	A	44929602	3	1	172	1	0	0	0	0	1	0	0	0	8137	1014	35	3	2768	3	KDM6A	23	44929602	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	7900905	44929602	110340958	408	61668										
ZNF81	347344	broad.mit.edu	37	chrX	47774986	47774986	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tgtaaatgtttttacacagaAgccactactcagtatatatc	5	8	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:47774986A>G	uc010nhy.1	+	6	1309	c.941A>G	c.(940-942)AAG>AGG	p.K314R		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	314						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				TTTACACAGAAGCCACTACTC	0.353													11	4	---	---	---	---	PASS	G	47774986	G	G	47774986	3	3	172	1	0	0	0	0	1	0	0	0	18171	72	3	5	955	5	ZNF81	23	47774986	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	2845384	47774986	107495574	409	61669										
TAF1	6872	broad.mit.edu	37	chrX	70612518	70612518	+	Missense_Mutation	SNP	G	T	T													0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tggcagatcccacggggtgtGgtgaaggattctcctatgtg							TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:70612518G>T	uc004dzu.3	+	19	2929	c.2878G>T	c.(2878-2880)GGT>TGT	p.G960C	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.G981C|TAF1_uc004dzv.3_Missense_Mutation_p.G134C	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	960					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				CACGGGGTGTGGTGAAGGATT	0.488													14	10	---	---	---	---	PASS	T	70612518	T	T	70612518	3	4	172	1	0	0	0	0	1	0	0	0	15510	1348	47	3	3015	3	TAF1	23	70612518	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	22837532	70612518	84658042	410	61670	1069	2								
TAF1	6872	broad.mit.edu	37	chrX	70612519	70612519	+	Missense_Mutation	SNP	G	T	T													0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ggcagatcccacggggtgtgGtgaaggattctcctatgtga							TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:70612519G>T	uc004dzu.3	+	19	2930	c.2879G>T	c.(2878-2880)GGT>GTT	p.G960V	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.G981V|TAF1_uc004dzv.3_Missense_Mutation_p.G134V	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	960					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				ACGGGGTGTGGTGAAGGATTC	0.488													13	10	---	---	---	---	PASS	T	70612519	T	T	70612519	3	4	172	1	0	0	0	0	1	0	0	0	15510	1261	44	3	3016	3	TAF1	23	70612519	Missense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	1	70612519	84658041	411	61671	1069	2								
PCDH11X	27328	broad.mit.edu	37	chrX	91090613	91090613	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ccgagaagaaatgccagaaaAcgtcctgataggcgacttgt	11	9	0	4			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:91090613A>T	uc004efk.1	+	1	955	c.110A>T	c.(109-111)AAC>ATC	p.N37I	PCDH11X_uc004efl.1_Missense_Mutation_p.N37I|PCDH11X_uc004efo.1_Missense_Mutation_p.N37I|PCDH11X_uc010nmv.1_Missense_Mutation_p.N37I|PCDH11X_uc004efm.1_Missense_Mutation_p.N37I|PCDH11X_uc004efn.1_Missense_Mutation_p.N37I|PCDH11X_uc004efh.1_Missense_Mutation_p.N37I|PCDH11X_uc004efj.1_Missense_Mutation_p.N37I	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	37	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ATGCCAGAAAACGTCCTGATA	0.493													18	14	---	---	---	---	PASS	T	91090613	T	T	91090613	3	4	172	1	0	0	0	0	1	0	0	0	11508	43	2	5	112	5	PCDH11X	23	91090613	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	20478094	91090613	64179947	412	61672										
ARMCX1	51309	broad.mit.edu	37	chrX	100808631	100808631	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	atgcagcatattcatttaacCagaatgccatacgtgaattg	7	8	1	2			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:100808631C>A	uc004ehv.2	+	4	1089	c.718C>A	c.(718-720)CAG>AAG	p.Q240K	ARMCX1_uc004ehw.2_Missense_Mutation_p.Q240K	NM_016608	NP_057692	Q9P291	ARMX1_HUMAN	armadillo repeat containing, X-linked 1	240	ARM 2.					integral to membrane	binding			ovary(3)|pancreas(1)	4						TTCATTTAACCAGAATGCCAT	0.393													5	110	---	---	---	---	PASS	A	100808631	A	A	100808631	3	1	172	1	0	0	0	0	1	0	0	0	959	595	21	3	720	3	ARMCX1	23	100808631	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	9718018	100808631	54461929	413	61673										
TEX13A	56157	broad.mit.edu	37	chrX	104464313	104464313	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ttcttctgctccttttcctcCagcagcaccagcagcagcca	6	17	2	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:104464313C>A	uc004ema.2	-	3	677	c.565G>T	c.(565-567)GGA>TGA	p.G189*	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Nonsense_Mutation_p.G189*	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	189						intracellular	zinc ion binding			ovary(2)	2						CCTTTTCCTCCAGCAGCACCA	0.667													7	9	---	---	---	---	PASS	A	104464313	A	A	104464313	4	1	172	1	0	0	0	0	0	1	0	0	15773	603	21	3	670	3	TEX13A	23	104464313	Nonsense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	3655682	104464313	50806247	414	61674										
GLUD2	2747	broad.mit.edu	37	chrX	120182460	120182460	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ataaaacatttgttgttcagGgatttggtaatgtgggccta	11	4	1	0			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:120182460G>T	uc004eto.2	+	1	999	c.922G>T	c.(922-924)GGA>TGA	p.G308*		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	308					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	TGTTGTTCAGGGATTTGGTAA	0.388													5	77	---	---	---	---	PASS	T	120182460	T	T	120182460	4	4	172	1	0	0	0	0	0	1	0	0	6477	1233	43	3	924	3	GLUD2	23	120182460	Nonsense_Mutation	SNP	G	TCGA-66-2795-01A-02D-0983-08	15718147	120182460	35088100	415	61675										
ODZ1	10178	broad.mit.edu	37	chrX	124097479	124097479	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	ctcgtgcagggtctccctggAgttgtatgactgtcttggtt	13	9	2	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:124097479A>T	uc004euj.2	-	1	188	c.124T>A	c.(124-126)TCC>ACC	p.S42T	ODZ1_uc011muj.1_Missense_Mutation_p.S42T|ODZ1_uc010nqy.2_Missense_Mutation_p.S42T	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	42	Teneurin N-terminal.|Cytoplasmic (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GTCTCCCTGGAGTTGTATGAC	0.423													8	75	---	---	---	---	PASS	T	124097479	T	T	124097479	3	4	172	1	0	0	0	0	1	0	0	0	10834	304	11	5	8202	5	ODZ1	23	124097479	Missense_Mutation	SNP	A	TCGA-66-2795-01A-02D-0983-08	3915019	124097479	31173081	416	61676										
USP26	83844	broad.mit.edu	37	chrX	132162097	132162097	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tttgaatattatcacttagcCgaaaagtgctatattttcca	5	7	1	1			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:132162097C>A	uc010nrm.1	-	6	622	c.152G>T	c.(151-153)CGG>CTG	p.R51L	USP26_uc011mvf.1_Missense_Mutation_p.R51L	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	51					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					ATCACTTAGCCGAAAAGTGCT	0.318													15	14	---	---	---	---	PASS	A	132162097	A	A	132162097	3	1	172	1	0	0	0	0	1	0	0	0	17054	652	23	1	2592	1	USP26	23	132162097	Missense_Mutation	SNP	C	TCGA-66-2795-01A-02D-0983-08	8064618	132162097	23108463	417	61677										
PASD1	139135	broad.mit.edu	37	chrX	150790039	150790039	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0599520383693046	25	0.166402759539312	1.27154285575969	1.74914675767918	1.0757252559727	0.352448989171022	0.753662828188879	0	tacgaaaacgtgaaatttatTgtgaatgtaagagatatttg	9	2	0	3			TCGA-66-2795-01A-02D-0983-08	TCGA-66-2795-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	73825564-8731-4137-972a-330490aceadc	91a156a5-f36e-4b67-b3b0-5996bf67e0ed	g.chrX:150790039T>A	uc004fev.3	+	6	725	c.393T>A	c.(391-393)ATT>ATA	p.I131I		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	131						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TGAAATTTATTGTGAATGTAA	0.303													3	4	---	---	---	---	PASS	A	150790039	A	A	150790039	2	1	172	1	0	0	0	0	0	0	0	1	11471	1800	63	5		5	PASD1	23	150790039	Silent	SNP	T	TCGA-66-2795-01A-02D-0983-08	18627942	150790039	4480521	418	61678										
KAZ	23254	broad.mit.edu	37	chr1	14925537	14925537	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cgcgctccgcatcgatggggCggtccagtcggccagccagg	16	15	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:14925537C>T	uc001avm.3	+	1	325	c.44C>T	c.(43-45)GCG>GTG	p.A15V	KAZ_uc009vog.1_Missense_Mutation_p.A15V|KAZ_uc010obj.1_Missense_Mutation_p.A15V	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	15					keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						ATCGATGGGGCGGTCCAGTCG	0.517													22	19	---	---	---	---	PASS	T	14925537	T	T	14925537	3	4	173	1	0	0	0	0	1	0	0	0	7988	768	27	1	46	1	KAZ	1	14925537	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08		14925537	234325084	1	61679										
PIGV	55650	broad.mit.edu	37	chr1	27121695	27121695	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtccacgctgcagtgctgctGctgtttggaggtctgtgcat	14	10	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:27121695G>T	uc001bmz.2	+	3	1501	c.1170G>T	c.(1168-1170)CTG>CTT	p.L390L	PIGV_uc001bmy.2_Silent_p.L155L|PIGV_uc009vso.2_Silent_p.L390L|PIGV_uc010ofg.1_Silent_p.L155L|PIGV_uc001bna.2_Silent_p.L390L	NM_017837	NP_060307	Q9NUD9	PIGV_HUMAN	phosphatidylinositol glycan class V	390	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	glycolipid mannosyltransferase activity			ovary(1)	1		all_cancers(24;3.93e-26)|all_epithelial(13;3.96e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.26e-54)|Epithelial(14;2.85e-53)|OV - Ovarian serous cystadenocarcinoma(117;1.91e-30)|Colorectal(126;1.31e-09)|COAD - Colon adenocarcinoma(152;3.45e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000504)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.0222)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.153)|LUSC - Lung squamous cell carcinoma(448;0.227)		CAGTGCTGCTGCTGTTTGGAG	0.527													20	286	---	---	---	---	PASS	T	27121695	T	T	27121695	2	4	173	1	0	0	0	0	0	0	0	1	11901	1306	46	3		3	PIGV	1	27121695	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	12196158	27121695	222128926	2	61680										
C8B	732	broad.mit.edu	37	chr1	57395227	57395227	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttccacttcccatcaatgggGgtatctataagaaagaaggt	9	8	2	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:57395227G>A	uc001cyp.2	-	12	1693	c.1626C>T	c.(1624-1626)ACC>ACT	p.T542T	C8B_uc010oon.1_Silent_p.T480T|C8B_uc010ooo.1_Silent_p.T490T	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	542					complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						CATCAATGGGGGTATCTATAA	0.438													34	51	---	---	---	---	PASS	A	57395227	A	A	57395227	2	1	173	1	0	0	0	0	0	0	0	1	2417	1219	43	3		3	C8B	1	57395227	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	30273532	57395227	191855394	3	61681										
ZNF326	284695	broad.mit.edu	37	chr1	90470764	90470764	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttcctacctaaaccagtcatAtggcatggacaatcacagtg	7	11	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:90470764A>G	uc001dnq.2	+	4	309	c.170A>G	c.(169-171)TAT>TGT	p.Y57C	ZNF326_uc001dnp.3_Missense_Mutation_p.Y57C|ZNF326_uc009wda.1_Missense_Mutation_p.Y57C|ZNF326_uc001dnr.2_Intron	NM_182976	NP_892021	Q5BKZ1	ZN326_HUMAN	zinc finger protein 326 isoform 1	57	Mediates transcriptional activation (By similarity).|Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	DNA binding			ovary(1)	1		all_lung(203;0.0116)|Lung NSC(277;0.0417)		all cancers(265;0.00728)|Epithelial(280;0.0265)		AACCAGTCATATGGCATGGAC	0.388													79	51	---	---	---	---	PASS	G	90470764	G	G	90470764	3	3	173	1	0	0	0	0	1	0	0	0	17843	449	16	5	184	5	ZNF326	1	90470764	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	33075537	90470764	158779857	4	61682										
MOV10	4343	broad.mit.edu	37	chr1	113231671	113231671	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	agactcgaccgctgggccgaCgtgcggttcccagaaaagag	14	12	0	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:113231671C>A	uc001eck.2	+	3	522	c.252C>A	c.(250-252)GAC>GAA	p.D84E	MOV10_uc001ecl.2_Missense_Mutation_p.D84E|MOV10_uc001ecn.2_Missense_Mutation_p.D84E|MOV10_uc001ecm.2_Missense_Mutation_p.D24E|MOV10_uc009wgj.1_Missense_Mutation_p.D24E	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	84					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		GCTGGGCCGACGTGCGGTTCC	0.522													3	83	---	---	---	---	PASS	A	113231671	A	A	113231671	3	1	173	1	0	0	0	0	1	0	0	0	9718	535	19	1	258	1	MOV10	1	113231671	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	22760907	113231671	136018950	5	61683										
PDE4DIP	9659	broad.mit.edu	37	chr1	144886121	144886121	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgtgggacactgaggagaatCctgcttcctcaatttgagcc	11	10	1	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:144886121C>G	uc001elw.3	-	23	3404	c.3113G>C	c.(3112-3114)GGA>GCA	p.G1038A	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.G1104A|PDE4DIP_uc001elv.3_Missense_Mutation_p.G45A	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1038	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TGAGGAGAATCCTGCTTCCTC	0.542			T	PDGFRB	MPD								23	184	---	---	---	---	PASS	G	144886121	G	G	144886121	3	3	173	1	0	0	0	0	1	0	0	0	11643	855	30	2	4015	2	PDE4DIP	1	144886121	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	31654450	144886121	104364500	6	61684										
GABPB2	126626	broad.mit.edu	37	chr1	151060740	151060740	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gatgatgaagtgagaacgttGatggcaaatggcgccccatt	13	7	0	4			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:151060740G>T	uc001ewr.2	+	2	406	c.75G>T	c.(73-75)TTG>TTT	p.L25F	GABPB2_uc010pcp.1_Missense_Mutation_p.L25F|GABPB2_uc001ews.2_Missense_Mutation_p.L25F	NM_144618	NP_653219	Q8TAK5	GABP2_HUMAN	GA repeat binding protein, beta 2	25	ANK 1.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	protein heterodimerization activity|transcription regulatory region DNA binding				0				all cancers(107;7.17e-05)|GBM - Glioblastoma multiforme(94;0.000662)		TGAGAACGTTGATGGCAAATG	0.413													28	28	---	---	---	---	PASS	T	151060740	T	T	151060740	3	4	173	1	0	0	0	0	1	0	0	0	6159	1281	45	2	77	2	GABPB2	1	151060740	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	6174619	151060740	98189881	7	61685										
IVL	3713	broad.mit.edu	37	chr1	152883951	152883951	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aagacattcaaccagccctgCccacaaagggagaagtattg	9	11	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:152883951C>A	uc001fau.2	+	2	1724	c.1678C>A	c.(1678-1680)CCC>ACC	p.P560T		NM_005547	NP_005538	P07476	INVO_HUMAN	involucrin	560					isopeptide cross-linking via N6-(L-isoglutamyl)-L-lysine|keratinization|response to UV-B	cornified envelope|cytoplasm	protein binding, bridging|structural molecule activity			ovary(3)	3	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			ACCAGCCCTGCCCACAAAGGG	0.423													116	138	---	---	---	---	PASS	A	152883951	A	A	152883951	3	1	173	1	0	0	0	0	1	0	0	0	7929	739	26	3	1680	3	IVL	1	152883951	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	1823211	152883951	96366670	8	61686										
ILF2	3608	broad.mit.edu	37	chr1	153637754	153637754	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	actgttgtaatgagaatcttCactgtagcatcagaagaact	8	7	3	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:153637754C>T	uc001fcr.2	-	8	600	c.519G>A	c.(517-519)GTG>GTA	p.V173V	ILF2_uc010pdy.1_Silent_p.V135V|ILF2_uc009wok.2_Silent_p.V151V|ILF2_uc009wol.1_3'UTR	NM_004515	NP_004506	Q12905	ILF2_HUMAN	interleukin enhancer binding factor 2	173	DZF.				immune response|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|ribonucleoprotein complex	ATP binding|DNA binding|double-stranded RNA binding|protein binding|transferase activity				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGAGAATCTTCACTGTAGCAT	0.358													6	198	---	---	---	---	PASS	T	153637754	T	T	153637754	2	4	173	1	0	0	0	0	0	0	0	1	7711	813	29	2		2	ILF2	1	153637754	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	753803	153637754	95612867	9	61687										
ATP8B2	57198	broad.mit.edu	37	chr1	154317830	154317830	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtgtggggatcagtgggcagGaagggatccaggctgtcttg	19	6	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:154317830G>T	uc001fex.2	+	23	2602	c.2602G>T	c.(2602-2604)GAA>TAA	p.E868*		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	854	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CAGTGGGCAGGAAGGGATCCA	0.577											OREG0013835	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	559	287	---	---	---	---	PASS	T	154317830	T	T	154317830	4	4	173	1	0	0	0	0	0	1	0	0	1195	1175	41	2	2822	2	ATP8B2	1	154317830	Nonsense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	680076	154317830	94932791	10	61688										
TNN	63923	broad.mit.edu	37	chr1	175092654	175092654	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtgcgctacacctctgctgaCggagagaccagggaggttcc	14	12	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:175092654C>T	uc001gkl.1	+	12	2882	c.2769C>T	c.(2767-2769)GAC>GAT	p.D923D		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	923	Fibronectin type-III 8.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		CCTCTGCTGACGGAGAGACCA	0.602													34	142	---	---	---	---	PASS	T	175092654	T	T	175092654	2	4	173	1	0	0	0	0	0	0	0	1	16320	535	19	1		1	TNN	1	175092654	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	20774824	175092654	74157967	11	61689										
QSOX1	5768	broad.mit.edu	37	chr1	180135629	180135629	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gttttttgtcctttcagcctGgaggccggccctgtatctcg	11	12	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:180135629G>T	uc001gnz.2	+	2	344	c.269G>T	c.(268-270)TGG>TTG	p.W90L	QSOX1_uc001gny.2_Missense_Mutation_p.W90L|QSOX1_uc001goa.2_Missense_Mutation_p.W90L	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	90	Thioredoxin.				cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						CTTTCAGCCTGGAGGCCGGCC	0.597													24	200	---	---	---	---	PASS	T	180135629	T	T	180135629	3	4	173	1	0	0	0	0	1	0	0	0	12883	1357	47	3	275	3	QSOX1	1	180135629	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	5042975	180135629	69114992	12	61690										
CRB1	23418	broad.mit.edu	37	chr1	197390726	197390726	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tcgacgactcctgtaaggagAaatgcatcgcgaaagctcct	10	11	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:197390726A>G	uc001gtz.2	+	6	1903	c.1768A>G	c.(1768-1770)AAA>GAA	p.K590E	CRB1_uc010poz.1_Missense_Mutation_p.K521E|CRB1_uc010ppa.1_Intron|CRB1_uc009wza.2_Missense_Mutation_p.K478E|CRB1_uc010ppb.1_Missense_Mutation_p.K590E|CRB1_uc010ppc.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.K71E|CRB1_uc001gub.1_Missense_Mutation_p.K239E	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	590	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						CTGTAAGGAGAAATGCATCGC	0.458													4	415	---	---	---	---	PASS	G	197390726	G	G	197390726	3	3	173	1	0	0	0	0	1	0	0	0	3848	247	9	5	1790	5	CRB1	1	197390726	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	17255097	197390726	51859895	13	61691										
KIF14	9928	broad.mit.edu	37	chr1	200567388	200567388	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgatcatcagcaatcagcacCccagataactgaatatcatg	6	11	4	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:200567388C>A	uc010ppk.1	-	14	2965	c.2526G>T	c.(2524-2526)GGG>GGT	p.G842G	KIF14_uc010ppj.1_Silent_p.G351G	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	842	FHA.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						CAATCAGCACCCCAGATAACT	0.353													18	39	---	---	---	---	PASS	A	200567388	A	A	200567388	2	1	173	1	0	0	0	0	0	0	0	1	8276	610	22	3		3	KIF14	1	200567388	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	3176662	200567388	48683233	14	61692										
PIK3C2B	5287	broad.mit.edu	37	chr1	204429749	204429749	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aatgtcaatgtcaaacttgcGgcagtattggatgtactcat	9	7	3	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:204429749G>A	uc001haw.2	-	7	1830	c.1351C>T	c.(1351-1353)CGC>TGC	p.R451C	PIK3C2B_uc010pqv.1_Missense_Mutation_p.R451C|PIK3C2B_uc001hax.1_Missense_Mutation_p.R451C|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	451					cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			TCAAACTTGCGGCAGTATTGG	0.562													19	107	---	---	---	---	PASS	A	204429749	A	A	204429749	3	1	173	1	0	0	0	0	1	0	0	0	11910	1116	39	1	3665	1	PIK3C2B	1	204429749	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	3862361	204429749	44820872	15	61693										
USH2A	7399	broad.mit.edu	37	chr1	216219911	216219911	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	actgggaagggatttggctaCtggtggctgaacctcttgtg	15	7	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:216219911C>A	uc001hku.1	-	32	6574	c.6187G>T	c.(6187-6189)GTA>TTA	p.V2063L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2063	Extracellular (Potential).|Fibronectin type-III 7.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GATTTGGCTACTGGTGGCTGA	0.403										HNSCC(13;0.011)			15	104	---	---	---	---	PASS	A	216219911	A	A	216219911	3	1	173	1	0	0	0	0	1	0	0	0	17033	565	20	3	9585	3	USH2A	1	216219911	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	11790162	216219911	33030710	16	61694										
C1orf58	148362	broad.mit.edu	37	chr1	222904850	222904850	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atctcaccaaaagacccaagGatgacagtgtatgagattgt	9	8	1	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:222904850G>A	uc001hnq.1	+	12	1536	c.1141G>A	c.(1141-1143)GAT>AAT	p.D381N	C1orf58_uc010put.1_Missense_Mutation_p.D349N|C1orf58_uc010puu.1_Intron|C1orf58_uc010puv.1_Missense_Mutation_p.D349N|uc001hnr.1_Intron|uc001hns.1_5'Flank	NM_144695	NP_653296	Q5VW32	BROX_HUMAN	Bro1-domain-containing protein	381	BRO1.					membrane					0				GBM - Glioblastoma multiforme(131;0.0667)		AAGACCCAAGGATGACAGTGT	0.353													37	147	---	---	---	---	PASS	A	222904850	A	A	222904850	3	1	173	1	0	0	0	0	1	0	0	0	2050	1174	41	2	1183	2	C1orf58	1	222904850	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	6684939	222904850	26345771	17	61695										
RYR2	6262	broad.mit.edu	37	chr1	237947189	237947189	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gagagccataagcactacacGcagtcagaaacggaatttct	9	10	2	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:237947189G>A	uc001hyl.1	+	90	12297	c.12177G>A	c.(12175-12177)ACG>ACA	p.T4059T	RYR2_uc010pya.1_Silent_p.T474T	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4059					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)			AGCACTACACGCAGTCAGAAA	0.483													9	43	---	---	---	---	PASS	A	237947189	A	A	237947189	2	1	173	1	0	0	0	0	0	0	0	1	13769	1074	38	1		1	RYR2	1	237947189	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	15042339	237947189	11303432	18	61696										
OR2M2	391194	broad.mit.edu	37	chr1	248343413	248343413	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttagtggccttcatgggaaaCtctgtcatggttctcctcat	9	10	5	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr1:248343413C>A	uc010pzf.1	+	1	126	c.126C>A	c.(124-126)AAC>AAA	p.N42K		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	42	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TCATGGGAAACTCTGTCATGG	0.522													12	829	---	---	---	---	PASS	A	248343413	A	A	248343413	3	1	173	1	0	0	0	0	1	0	0	0	11010	564	20	3	128	3	OR2M2	1	248343413	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	10396224	248343413	907208	19	61697										
PXDN	7837	broad.mit.edu	37	chr2	1653368	1653368	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atgtccgagcagttgttcacGcgccggtgggcggtacagcc	15	12	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:1653368G>A	uc002qxa.2	-	17	2248	c.2184C>T	c.(2182-2184)CGC>CGT	p.R728R		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	728					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		AGTTGTTCACGCGCCGGTGGG	0.602													10	236	---	---	---	---	PASS	A	1653368	A	A	1653368	2	1	173	1	0	0	0	0	0	0	0	1	12847	1074	38	1		1	PXDN	2	1653368	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08		1653368	241546005	20	61698										
MFSD2B	388931	broad.mit.edu	37	chr2	24245357	24245357	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atgcctcccagctacacgacCacgtccagggcctggtacta	9	16	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:24245357C>T	uc002reo.1	+	9	963	c.949C>T	c.(949-951)CAC>TAC	p.H317Y		NM_001080473	NP_001073942	A6NFX1	MFS2B_HUMAN	major facilitator superfamily domain containing	317					transport	integral to membrane				ovary(2)	2						GCTACACGACCACGTCCAGGG	0.607													23	39	---	---	---	---	PASS	T	24245357	T	T	24245357	3	4	173	1	0	0	0	0	1	0	0	0	9531	594	21	3	983	3	MFSD2B	2	24245357	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	22591989	24245357	218954016	21	61699										
OTOF	9381	broad.mit.edu	37	chr2	26739434	26739434	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggagcccactgtgccgtcagTggcctgataccggacctcca	12	15	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:26739434T>G	uc002rhk.2	-	5	488	c.361A>C	c.(361-363)ACT>CCT	p.T121P	OTOF_uc010ylb.1_RNA	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	121	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGCCGTCAGTGGCCTGATAC	0.607													113	169	---	---	---	---	PASS	G	26739434	G	G	26739434	3	3	173	1	0	0	0	0	1	0	0	0	11303	1696	59	5	6129	5	OTOF	2	26739434	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	2494077	26739434	216459939	22	61700										
XDH	7498	broad.mit.edu	37	chr2	31588405	31588405	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcatgcatcgcacagggcggCcggtcctgggggttaccgac	16	13	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:31588405C>A	uc002rnv.1	-	23	2541	c.2462G>T	c.(2461-2463)GGC>GTC	p.G821V		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	821					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	CACAGGGCGGCCGGTCCTGGG	0.547													92	154	---	---	---	---	PASS	A	31588405	A	A	31588405	3	1	173	1	0	0	0	0	1	0	0	0	17423	739	26	3	1595	3	XDH	2	31588405	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	4848971	31588405	211610968	23	61701										
FSHR	2492	broad.mit.edu	37	chr2	49190321	49190321	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtagatgtggatatagcagcCacagatgaccacaaaggcca	11	9	0	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:49190321C>A	uc002rww.2	-	10	1713	c.1639G>T	c.(1639-1641)GGC>TGC	p.G547C	FSHR_uc002rwx.2_Missense_Mutation_p.G485C|FSHR_uc010fbn.2_Missense_Mutation_p.G521C	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	547	Helical; Name=5; (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	ATATAGCAGCCACAGATGACC	0.537									Gonadal_Dysgenesis_46_XX				32	57	---	---	---	---	PASS	A	49190321	A	A	49190321	3	1	173	1	0	0	0	0	1	0	0	0	6073	594	21	3	452	3	FSHR	2	49190321	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	17601916	49190321	194009052	24	61702										
GKN2	200504	broad.mit.edu	37	chr2	69173523	69173523	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aagcaggaaccaatccacgtCtttgatcagagactccagag	9	11	2	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:69173523C>A	uc002sfa.2	-	5	494	c.385G>T	c.(385-387)GAC>TAC	p.D129Y	GKN2_uc002sfb.3_Missense_Mutation_p.D129Y	NM_182536	NP_872342	Q86XP6	GKN2_HUMAN	trefoil factor interactions(z) 1 precursor	129	BRICHOS.					extracellular region					0						CAATCCACGTCTTTGATCAGA	0.443													8	376	---	---	---	---	PASS	A	69173523	A	A	69173523	3	1	173	1	0	0	0	0	1	0	0	0	6425	913	32	2	177	2	GKN2	2	69173523	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	19983202	69173523	174025850	25	61703										
VWA3B	200403	broad.mit.edu	37	chr2	98797501	98797501	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tcagaaacaacctctgttgaGattgcatcgaatccagaaga	8	9	2	4			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:98797501G>T	uc002syo.2	+	9	1401	c.1137G>T	c.(1135-1137)GAG>GAT	p.E379D	VWA3B_uc010yvh.1_Missense_Mutation_p.E229D|VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_5'UTR|VWA3B_uc002sym.2_Missense_Mutation_p.E379D|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.E36D	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	379										ovary(3)|large_intestine(2)|skin(1)	6						CCTCTGTTGAGATTGCATCGA	0.448													39	96	---	---	---	---	PASS	T	98797501	T	T	98797501	3	4	173	1	0	0	0	0	1	0	0	0	17238	933	33	2	1167	2	VWA3B	2	98797501	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	29623978	98797501	144401872	26	61704										
TBC1D8	11138	broad.mit.edu	37	chr2	101656738	101656738	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ccgccccgtggtgtgacagcGactgaacggcgtccagagcg	15	14	0	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:101656738G>A	uc010fiv.2	-	6	1068	c.937C>T	c.(937-939)CGC>TGC	p.R313C	TBC1D8_uc010yvw.1_Missense_Mutation_p.R328C|TBC1D8_uc002tau.3_Missense_Mutation_p.R70C	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8	313	GRAM 2.				blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						GTGTGACAGCGACTGAACGGC	0.567													35	169	---	---	---	---	PASS	A	101656738	A	A	101656738	3	1	173	1	0	0	0	0	1	0	0	0	15622	1058	37	2	2545	2	TBC1D8	2	101656738	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	2859237	101656738	141542635	27	61705										
SLC9A4	389015	broad.mit.edu	37	chr2	103148906	103148906	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aatgaagagcctacacagagGaaggaaggcattcagctttg	12	7	1	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:103148906G>A	uc002tbz.3	+	12	2613	c.2156G>A	c.(2155-2157)GGA>GAA	p.G719E		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	719	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						CTACACAGAGGAAGGAAGGCA	0.478													6	165	---	---	---	---	PASS	A	103148906	A	A	103148906	3	1	173	1	0	0	0	0	1	0	0	0	14716	1174	41	2	2202	2	SLC9A4	2	103148906	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	1492168	103148906	140050467	28	61706										
IL1A	3552	broad.mit.edu	37	chr2	113532838	113532838	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gatggttttgggtatctcagGcatctcctatgaagaaaaga	11	6	2	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:113532838G>A	uc002tig.2	-	7	1582	c.622C>T	c.(622-624)CCT>TCT	p.P208S		NM_000575	NP_000566	P01583	IL1A_HUMAN	interleukin 1, alpha proprotein	208					anti-apoptosis|apoptosis|cell proliferation|cellular response to heat|cytokine-mediated signaling pathway|fever generation|immune response|negative regulation of cell proliferation|positive regulation of angiogenesis|positive regulation of cell division|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of mitosis|positive regulation vascular endothelial growth factor production|response to copper ion	cytosol|extracellular space	copper ion binding|cytokine activity|interleukin-1 receptor binding			lung(1)	1						GGTATCTCAGGCATCTCCTAT	0.428													6	148	---	---	---	---	PASS	A	113532838	A	A	113532838	3	1	173	1	0	0	0	0	1	0	0	0	7650	1203	42	3	197	3	IL1A	2	113532838	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	10383932	113532838	129666535	29	61707										
RALB	5899	broad.mit.edu	37	chr2	121036296	121036296	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggccctccacaaggtgatcaTggttggcagcggaggcgttg	16	10	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:121036296T>C	uc002tmk.2	+	2	246	c.56T>C	c.(55-57)ATG>ACG	p.M19T	RALB_uc010yys.1_Missense_Mutation_p.M41T|RALB_uc002tml.2_Missense_Mutation_p.M19T|RALB_uc002tmm.2_Intron|RALB_uc010yyt.1_RNA	NM_002881	NP_002872	P11234	RALB_HUMAN	v-ral simian leukemia viral oncogene homolog B	19					apoptosis|cell cycle|cytokinesis|nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of exocyst assembly|regulation of exocyst localization	cytosol|midbody|plasma membrane	GTP binding|GTPase activity|protein binding			lung(3)	3		Prostate(154;0.122)				AAGGTGATCATGGTTGGCAGC	0.567													35	76	---	---	---	---	PASS	C	121036296	C	C	121036296	3	2	173	1	0	0	0	0	1	0	0	0	13011	1464	51	5	58	5	RALB	2	121036296	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	7503458	121036296	122163077	30	61708										
LCT	3938	broad.mit.edu	37	chr2	136562337	136562337	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cttgccaggacccaccatacCtggggctggatgctggcggc	14	14	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:136562337C>T	uc002tuu.1	-	10	4475	c.4464G>A	c.(4462-4464)CAG>CAA	p.Q1488Q		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1488	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CCCACCATACCTGGGGCTGGA	0.542													43	60	---	---	---	---	PASS	T	136562337	T	T	136562337	2	4	173	1	0	0	0	0	0	0	0	1	8693	695	24	3		3	LCT	2	136562337	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	15526041	136562337	106637036	31	61709										
SLC4A10	57282	broad.mit.edu	37	chr2	162751189	162751189	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tatttctatttcttctaaagGtatttcatgatgttgcctat	5	6	4	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:162751189G>T	uc002ubx.3	+	11	1379	c.1195G>T	c.(1195-1197)GTA>TTA	p.V399L	SLC4A10_uc010fpa.1_Missense_Mutation_p.V411L|SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Missense_Mutation_p.V369L|SLC4A10_uc010zcs.1_Missense_Mutation_p.V380L	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	399	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						TCTTCTAAAGGTATTTCATGA	0.294													5	7	---	---	---	---	PASS	T	162751189	T	T	162751189	3	4	173	1	0	0	0	0	1	0	0	0	14651	1275	44	3	1322	3	SLC4A10	2	162751189	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	26188852	162751189	80448184	32	61710										
SP3	6670	broad.mit.edu	37	chr2	174820742	174820742	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atcacttgatattgaacactGgacactgtaccatttgatga	7	8	1	4			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:174820742G>A	uc002uig.2	-	4	662	c.498C>T	c.(496-498)TCC>TCT	p.S166S	SP3_uc002uie.2_Silent_p.S98S|SP3_uc002uif.2_Silent_p.S113S|SP3_uc010zel.1_Silent_p.S163S	NM_003111	NP_003102	Q02447	SP3_HUMAN	Sp3 transcription factor isoform 1	166	Transactivation domain (Gln-rich).				negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	protein binding|zinc ion binding		EWSR1/SP3(3)	soft_tissue(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.185)			ATTGAACACTGGACACTGTAC	0.418													314	261	---	---	---	---	PASS	A	174820742	A	A	174820742	2	1	173	1	0	0	0	0	0	0	0	1	14965	1335	47	3		3	SP3	2	174820742	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	12069553	174820742	68378631	33	61711										
CWC22	57703	broad.mit.edu	37	chr2	180815589	180815589	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tatagaagtaaagaagttgaTggcaaaccgagtgtttcttg	11	4	1	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:180815589T>C	uc010frh.1	-	18	2182	c.1882A>G	c.(1882-1884)ATC>GTC	p.I628V	CWC22_uc002uno.2_Missense_Mutation_p.I150V|CWC22_uc002unp.2_Missense_Mutation_p.I628V	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	628						catalytic step 2 spliceosome	protein binding|RNA binding				0						AAGAAGTTGATGGCAAACCGA	0.313													5	4	---	---	---	---	PASS	C	180815589	C	C	180815589	3	2	173	1	0	0	0	0	1	0	0	0	4068	1464	51	5	856	5	CWC22	2	180815589	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	5994847	180815589	62383784	34	61712										
ZSWIM2	151112	broad.mit.edu	37	chr2	187694599	187694599	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttacaatgtgttttggtgtgTaaacttggctgaatgagaat	11	3	0	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:187694599T>C	uc002upu.1	-	8	990	c.950A>G	c.(949-951)TAC>TGC	p.Y317C		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	317					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			TTTTGGTGTGTAAACTTGGCT	0.373													84	76	---	---	---	---	PASS	C	187694599	C	C	187694599	3	2	173	1	0	0	0	0	1	0	0	0	18238	1638	57	5	959	5	ZSWIM2	2	187694599	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	6879010	187694599	55504774	35	61713										
CRYGA	1418	broad.mit.edu	37	chr2	209028060	209028060	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tcatagagcatccagcagccGctgtctactcggatggagtt	11	11	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:209028060G>T	uc002vcq.3	-	2	137	c.120C>A	c.(118-120)AGC>AGA	p.S40R		NM_014617	NP_055432	P11844	CRGA_HUMAN	crystallin, gamma A	40	Beta/gamma crystallin 'Greek key' 1.				visual perception		structural constituent of eye lens				0				Epithelial(149;0.067)|LUSC - Lung squamous cell carcinoma(261;0.0708)|Lung(261;0.135)		TCCAGCAGCCGCTGTCTACTC	0.592													9	81	---	---	---	---	PASS	T	209028060	T	T	209028060	3	4	173	1	0	0	0	0	1	0	0	0	3914	1078	38	1	412	1	CRYGA	2	209028060	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	21333461	209028060	34171313	36	61714										
IDH1	3417	broad.mit.edu	37	chr2	209103872	209103872	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtctcaatagagacttcttcCaaagcatttgcaaagaaggc	8	9	2	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:209103872C>A	uc002vcs.2	-	9	1323	c.1077G>T	c.(1075-1077)TTG>TTT	p.L359F	IDH1_uc002vct.2_Missense_Mutation_p.L359F|IDH1_uc002vcu.2_Missense_Mutation_p.L359F	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	359					2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity			central_nervous_system(2156)|haematopoietic_and_lymphoid_tissue(606)|bone(74)|thyroid(22)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2868				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		AGACTTCTTCCAAAGCATTTG	0.428			Mis		gliobastoma 								4	113	---	---	---	---	PASS	A	209103872	A	A	209103872	3	1	173	1	0	0	0	0	1	0	0	0	7494	593	21	3	175	3	IDH1	2	209103872	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	75812	209103872	34095501	37	61715										
FN1	2335	broad.mit.edu	37	chr2	216288136	216288136	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctgtgtggtcccacaccactTcatgttgtctcttctgccct	7	15	3	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:216288136T>A	uc002vfa.2	-	9	1596	c.1330A>T	c.(1330-1332)AAG>TAG	p.K444*	FN1_uc002vfb.2_Nonsense_Mutation_p.K444*|FN1_uc002vfc.2_Nonsense_Mutation_p.K444*|FN1_uc002vfd.2_Nonsense_Mutation_p.K444*|FN1_uc002vfe.2_Nonsense_Mutation_p.K444*|FN1_uc002vff.2_Nonsense_Mutation_p.K444*|FN1_uc002vfg.2_Nonsense_Mutation_p.K444*|FN1_uc002vfh.2_Nonsense_Mutation_p.K444*|FN1_uc002vfi.2_Nonsense_Mutation_p.K444*|FN1_uc002vfj.2_Nonsense_Mutation_p.K444*|FN1_uc002vfl.2_Nonsense_Mutation_p.K444*	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	444	Fibronectin type-II 2.|Collagen-binding.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCACACCACTTCATGTTGTCT	0.488													80	79	---	---	---	---	PASS	A	216288136	A	A	216288136	4	1	173	1	0	0	0	0	0	1	0	0	5962	1792	62	5	6288	5	FN1	2	216288136	Nonsense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	7184264	216288136	26911237	38	61716										
STK16	8576	broad.mit.edu	37	chr2	220111955	220111955	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttgaggccattcatgccaagGgttatgcccacaggtcagtg	12	10	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:220111955G>T	uc002vko.2	+	4	584	c.427G>T	c.(427-429)GGT>TGT	p.G143C	GLB1L_uc002vkm.2_5'Flank|GLB1L_uc002vkn.2_5'Flank|STK16_uc002vks.2_Intron|STK16_uc010zky.1_Missense_Mutation_p.G143C|STK16_uc010fwf.2_Missense_Mutation_p.G143C|STK16_uc002vkp.2_Missense_Mutation_p.G143C|STK16_uc002vkr.2_Missense_Mutation_p.G76C|STK16_uc002vkq.2_Missense_Mutation_p.G188C	NM_001008910	NP_001008910	O75716	STK16_HUMAN	serine/threonine kinase 16	143	Protein kinase.				protein complex assembly	membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(1)	1		Renal(207;0.0474)		Epithelial(149;1.2e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCATGCCAAGGGTTATGCCCA	0.562													21	141	---	---	---	---	PASS	T	220111955	T	T	220111955	3	4	173	1	0	0	0	0	1	0	0	0	15288	1232	43	3	437	3	STK16	2	220111955	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	3823819	220111955	23087418	39	61717										
CUL3	8452	broad.mit.edu	37	chr2	225378357	225378357	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	agcatttcttattgcgcctcTgtcgaaaaaagttattatca	6	8	3	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:225378357T>C	uc002vny.2	-	5	924	c.540_splice	c.e5-1	p.R180_splice	CUL3_uc010zls.1_Splice_Site_p.R114_splice|CUL3_uc010fwy.1_Splice_Site_p.R186_splice	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3						cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		ATTGCGCCTCTGTCGAAAAAA	0.303													7	43	---	---	---	---	PASS	C	225378357	C	C	225378357	5	2	173	1	0	0	0	0	0	0	1	0	4056	1594	55	5	1816	5	CUL3	2	225378357	Splice_Site	SNP	T	TCGA-66-2800-01A-01D-1267-08	5266402	225378357	17821016	40	61718										
ASB1	51665	broad.mit.edu	37	chr2	239344490	239344490	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtggatctggtggacgtaaaAggacagacggccctgtatgt	15	7	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:239344490A>C	uc002vyg.2	+	3	416	c.330A>C	c.(328-330)AAA>AAC	p.K110N		NM_001040445	NP_001035535	Q9Y576	ASB1_HUMAN	ankyrin repeat and SOCS box-containing protein	110	ANK 3.				intracellular signal transduction|negative regulation of cytokine biosynthetic process						0		all_epithelial(40;2.65e-14)|Breast(86;7.61e-05)|Renal(207;0.00183)|all_lung(227;0.0283)|Ovarian(221;0.0365)|Lung NSC(271;0.0941)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;2.04e-26)|OV - Ovarian serous cystadenocarcinoma(60;4.5e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;2.88e-05)|Lung(119;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00644)		TGGACGTAAAAGGACAGACGG	0.627													8	98	---	---	---	---	PASS	C	239344490	C	C	239344490	3	2	173	1	0	0	0	0	1	0	0	0	1013	69	3	5	340	5	ASB1	2	239344490	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	13966133	239344490	3854883	41	61719										
PASK	23178	broad.mit.edu	37	chr2	242066525	242066525	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcatcaggaggctgccccccGccagctgacccttggcctgg	13	17	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr2:242066525G>A	uc002wao.1	-	10	1897	c.1805C>T	c.(1804-1806)GCG>GTG	p.A602V	PASK_uc010zol.1_Missense_Mutation_p.A416V|PASK_uc010zom.1_Missense_Mutation_p.A567V|PASK_uc010fzl.1_Missense_Mutation_p.A602V|PASK_uc010zon.1_Missense_Mutation_p.A383V|PASK_uc002wap.2_Missense_Mutation_p.A145V|PASK_uc002waq.2_Missense_Mutation_p.A602V	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	602					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		GCTGCCCCCCGCCAGCTGACC	0.672													12	160	---	---	---	---	PASS	A	242066525	A	A	242066525	3	1	173	1	0	0	0	0	1	0	0	0	11472	1087	38	1	2202	1	PASK	2	242066525	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	2722035	242066525	1132848	42	61720										
CNTN6	27255	broad.mit.edu	37	chr3	1262456	1262456	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttatcaaaatctgaggtcatCctgaattgtgctgctaatgg	9	7	3	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:1262456C>A	uc003boz.2	+	3	408	c.141C>A	c.(139-141)ATC>ATA	p.I47I	CNTN6_uc010hbo.2_Silent_p.I42I|CNTN6_uc011asj.1_5'UTR|CNTN6_uc003bpa.2_Silent_p.I47I	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	47	Ig-like C2-type 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		CTGAGGTCATCCTGAATTGTG	0.383													98	71	---	---	---	---	PASS	A	1262456	A	A	1262456	2	1	173	1	0	0	0	0	0	0	0	1	3645	845	30	2		2	CNTN6	3	1262456	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08		1262456	196759974	43	61721										
TBC1D5	9779	broad.mit.edu	37	chr3	17279903	17279903	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tattcaggggagcacctttgGcattggtcctgttaaaaaaa	10	7	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:17279903G>C	uc003cbf.2	-	17	3005	c.1340C>G	c.(1339-1341)GCC>GGC	p.A447G	TBC1D5_uc010heu.2_Missense_Mutation_p.A34G|TBC1D5_uc010hev.2_Missense_Mutation_p.A447G|TBC1D5_uc003cbe.2_Missense_Mutation_p.A447G|TBC1D5_uc010hew.1_Missense_Mutation_p.A399G	NM_014744	NP_055559	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5 isoform b	447						intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						AGCACCTTTGGCATTGGTCCT	0.383													40	27	---	---	---	---	PASS	C	17279903	C	C	17279903	3	2	173	1	0	0	0	0	1	0	0	0	15620	1203	42	4	1141	4	TBC1D5	3	17279903	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	16017447	17279903	180742527	44	61722										
KCNH8	131096	broad.mit.edu	37	chr3	19190249	19190249	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	attactggcgccgcaaaacaCcttcctggacaccatcgcca	7	16	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:19190249C>T	uc003cbk.1	+	1	233	c.38C>T	c.(37-39)ACC>ATC	p.T13I	KCNH8_uc011awe.1_Missense_Mutation_p.T13I|KCNH8_uc010hex.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	13	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						CCGCAAAACACCTTCCTGGAC	0.458													102	56	---	---	---	---	PASS	T	19190249	T	T	19190249	3	4	173	1	0	0	0	0	1	0	0	0	8038	507	18	3	40	3	KCNH8	3	19190249	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	1910346	19190249	178832181	45	61723										
SGOL1	151648	broad.mit.edu	37	chr3	20225133	20225133	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	actgtttgttgtgatgtaagTtttcctttcaatgcatatag	8	5	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:20225133T>C	uc003cbs.2	-	3	493	c.306A>G	c.(304-306)AAA>AAG	p.K102K	SGOL1_uc003cbr.2_Silent_p.K102K|SGOL1_uc010hfa.2_Silent_p.K102K|SGOL1_uc003cbt.2_Silent_p.K102K|SGOL1_uc003cbu.2_Silent_p.K102K|SGOL1_uc003cbv.2_Silent_p.K102K|SGOL1_uc003cbw.2_Silent_p.K102K|SGOL1_uc003cbx.2_Silent_p.K102K|SGOL1_uc003cby.2_Silent_p.K102K|SGOL1_uc003cbz.2_Silent_p.K102K|SGOL1_uc003cca.2_Silent_p.K102K|SGOL1_uc003ccb.2_Silent_p.K102K|SGOL1_uc003ccc.2_Silent_p.K102K	NM_001012410	NP_001012410	Q5FBB7	SGOL1_HUMAN	shugoshin-like 1 isoform A2	102	Necessary for interaction with PPP2CA and PPP2R1A.				attachment of spindle microtubules to kinetochore|cell division|centriole-centriole cohesion|meiotic chromosome segregation|mitotic prometaphase	centrosome|condensed chromosome kinetochore|cytosol|mitotic cohesin complex|spindle pole	protein binding				0						GTGATGTAAGTTTTCCTTTCA	0.333													7	122	---	---	---	---	PASS	C	20225133	C	C	20225133	2	2	173	1	0	0	0	0	0	0	0	1	14216	1722	60	5		5	SGOL1	3	20225133	Silent	SNP	T	TCGA-66-2800-01A-01D-1267-08	1034884	20225133	177797297	46	61724										
RARB	5915	broad.mit.edu	37	chr3	25542676	25542676	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttcttgcttgcttgcagggcTttttccgcagaagtattcag	10	9	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:25542676T>C	uc011awl.1	+	3	397	c.331T>C	c.(331-333)TTT>CTT	p.F111L	RARB_uc003cdi.1_5'UTR|RARB_uc003cdh.2_Missense_Mutation_p.F104L	NM_016152	NP_057236	P10826	RARB_HUMAN	retinoic acid receptor, beta isoform 2	111	Nuclear receptor.				embryonic digestive tract development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	protein binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|large_intestine(1)|pancreas(1)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tamibarotene(DB04942)|Tazarotene(DB00799)	CTTGCAGGGCTTTTTCCGCAG	0.368													3	154	---	---	---	---	PASS	C	25542676	C	C	25542676	3	2	173	1	0	0	0	0	1	0	0	0	13053	1609	56	5	320	5	RARB	3	25542676	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	5317543	25542676	172479754	47	61725										
LRRC3B	116135	broad.mit.edu	37	chr3	26751352	26751352	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gaaatacctagagatcttccTcctgaaacagtcttactgta	6	10	2	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:26751352T>A	uc003cdp.2	+	2	778	c.189T>A	c.(187-189)CCT>CCA	p.P63P	LRRC3B_uc003cdq.2_Silent_p.P63P	NM_052953	NP_443185	Q96PB8	LRC3B_HUMAN	leucine rich repeat containing 3B precursor	63	LRRNT.					integral to membrane				pancreas(2)|ovary(1)|skin(1)	4						GAGATCTTCCTCCTGAAACAG	0.433													65	47	---	---	---	---	PASS	A	26751352	A	A	26751352	2	1	173	1	0	0	0	0	0	0	0	1	8996	1538	54	5		5	LRRC3B	3	26751352	Silent	SNP	T	TCGA-66-2800-01A-01D-1267-08	1208676	26751352	171271078	48	61726										
DLEC1	9940	broad.mit.edu	37	chr3	38159350	38159350	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aagctgaccaacactacagaGatcccacactacttccggct	6	15	0	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:38159350G>A	uc003cho.1	+	33	4560	c.4539G>A	c.(4537-4539)GAG>GAA	p.E1513E	DLEC1_uc003chp.1_Silent_p.E1513E|DLEC1_uc010hgv.1_Silent_p.E1516E|DLEC1_uc003chr.1_Silent_p.E584E|DLEC1_uc003chs.1_Silent_p.E70E	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	1513					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		ACACTACAGAGATCCCACACT	0.592											OREG0015476	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	343	---	---	---	---	PASS	A	38159350	A	A	38159350	2	1	173	1	0	0	0	0	0	0	0	1	4552	933	33	2		2	DLEC1	3	38159350	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	11407998	38159350	159863080	49	61727										
ERC2	26059	broad.mit.edu	37	chr3	55922517	55922517	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctgttgtgtggaggcgaggcGtgctttggtggcatccagtt	17	7	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:55922517G>A	uc003dhr.1	-	14	2720	c.2464C>T	c.(2464-2466)CGC>TGC	p.R822C	ERC2_uc003dhq.1_RNA|ERC2_uc003dht.1_Missense_Mutation_p.R301C	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	822	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		GAGGCGAGGCGTGCTTTGGTG	0.522													32	382	---	---	---	---	PASS	A	55922517	A	A	55922517	3	1	173	1	0	0	0	0	1	0	0	0	5211	1145	40	1	425	1	ERC2	3	55922517	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	17763167	55922517	142099913	50	61728										
PDE12	201626	broad.mit.edu	37	chr3	57542759	57542759	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgtcccctcgtcattgtctcCctcctcaccttcttcttctt	3	18	6	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:57542759C>T	uc003diw.3	+	1	779	c.653C>T	c.(652-654)CCC>CTC	p.P218L	PDE12_uc003div.2_Missense_Mutation_p.P218L	NM_177966	NP_808881	Q6L8Q7	PDE12_HUMAN	phosphodiesterase 12	218							hydrolase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.011)|Kidney(284;0.0127)		TCATTGTCTCCCTCCTCACCT	0.597													88	236	---	---	---	---	PASS	T	57542759	T	T	57542759	3	4	173	1	0	0	0	0	1	0	0	0	11632	623	22	3	655	3	PDE12	3	57542759	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	1620242	57542759	140479671	51	61729										
SLMAP	7871	broad.mit.edu	37	chr3	57835536	57835536	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	actattccagctttctcagtAtctacaggtaaaagtacatc	5	10	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:57835536A>G	uc003dje.1	+	5	717	c.512A>G	c.(511-513)TAT>TGT	p.Y171C	SLMAP_uc003djc.1_Missense_Mutation_p.Y171C|SLMAP_uc003djd.1_Missense_Mutation_p.Y171C|SLMAP_uc003djf.1_Missense_Mutation_p.Y171C	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	171	Cytoplasmic (Potential).|Potential.				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)		CTTTCTCAGTATCTACAGGTA	0.299													51	48	---	---	---	---	PASS	G	57835536	G	G	57835536	3	3	173	1	0	0	0	0	1	0	0	0	14749	449	16	5	530	5	SLMAP	3	57835536	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	292777	57835536	140186894	52	61730										
SENP7	57337	broad.mit.edu	37	chr3	101086710	101086710	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttatccaaagaagtacaataTtgagaatcaggtaaattatt	6	4	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:101086710T>C	uc003dut.2	-	8	1053	c.942A>G	c.(940-942)CAA>CAG	p.Q314Q	SENP7_uc003duu.2_Silent_p.Q249Q|SENP7_uc003duv.2_Silent_p.Q281Q|SENP7_uc003duw.2_Silent_p.Q248Q|SENP7_uc003dux.2_Silent_p.Q150Q	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	314					proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						AAGTACAATATTGAGAATCAG	0.323													22	23	---	---	---	---	PASS	C	101086710	C	C	101086710	2	2	173	1	0	0	0	0	0	0	0	1	14051	1490	52	5		5	SENP7	3	101086710	Silent	SNP	T	TCGA-66-2800-01A-01D-1267-08	43251174	101086710	96935720	53	61731										
BBX	56987	broad.mit.edu	37	chr3	107491664	107491664	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cggctaaggaaaatttaagaGattctaaggaattgagaaat	10	3	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:107491664G>A	uc010hpr.2	+	11	1423	c.1096G>A	c.(1096-1098)GAT>AAT	p.D366N	BBX_uc003dwk.3_Missense_Mutation_p.D366N|BBX_uc003dwl.3_Intron|BBX_uc010hps.1_Missense_Mutation_p.D387N|BBX_uc003dwm.3_Missense_Mutation_p.D366N|BBX_uc003dwo.3_5'Flank	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	366	Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			AAATTTAAGAGATTCTAAGGA	0.318													5	91	---	---	---	---	PASS	A	107491664	A	A	107491664	3	1	173	1	0	0	0	0	1	0	0	0	1343	942	33	2	1126	2	BBX	3	107491664	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	6404954	107491664	90530766	54	61732										
CCDC52	152185	broad.mit.edu	37	chr3	113172482	113172482	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tttgtattaatgactcatttGttctcagctgctgcccatct	6	10	3	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:113172482G>C	uc003eag.3	-	14	2264	c.1973C>G	c.(1972-1974)ACA>AGA	p.T658R	CCDC52_uc003eaf.3_RNA|CCDC52_uc003eah.1_Missense_Mutation_p.T554R	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52	658					cell division|mitosis	centriole|spindle	protein binding				0						TGACTCATTTGTTCTCAGCTG	0.423													84	175	---	---	---	---	PASS	C	113172482	C	C	113172482	3	2	173	1	0	0	0	0	1	0	0	0	2822	1377	48	4	614	4	CCDC52	3	113172482	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	5680818	113172482	84849948	55	61733										
ATP6V1A	523	broad.mit.edu	37	chr3	113514756	113514756	+	Silent	SNP	A	C	C													0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggtggtgatttttctgatccAgttacatctgccactcttgg							TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:113514756A>C	uc003eao.2	+	11	1326	c.1260A>C	c.(1258-1260)CCA>CCC	p.P420P	ATP6V1A_uc011bik.1_Silent_p.P387P	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	420					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						TTTCTGATCCAGTTACATCTG	0.378													62	37	---	---	---	---	PASS	C	113514756	C	C	113514756	2	2	173	1	0	0	0	0	0	0	0	1	1177	175	7	5		5	ATP6V1A	3	113514756	Silent	SNP	A	TCGA-66-2800-01A-01D-1267-08	342274	113514756	84507674	56	61734	1070	2								
ATP6V1A	523	broad.mit.edu	37	chr3	113514757	113514757	+	Missense_Mutation	SNP	G	A	A													0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtggtgatttttctgatccaGttacatctgccactcttggt							TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:113514757G>A	uc003eao.2	+	11	1327	c.1261G>A	c.(1261-1263)GTT>ATT	p.V421I	ATP6V1A_uc011bik.1_Missense_Mutation_p.V388I	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	421					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						TTCTGATCCAGTTACATCTGC	0.383													59	36	---	---	---	---	PASS	A	113514757	A	A	113514757	3	1	173	1	0	0	0	0	1	0	0	0	1177	1029	36	3	1299	3	ATP6V1A	3	113514757	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	1	113514757	84507673	57	61735	1070	2								
EAF2	55840	broad.mit.edu	37	chr3	121591526	121591526	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aaatcctctacttctgatacAgggaattgtgtctcaggaca	8	9	3	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:121591526A>G	uc003een.2	+	5	726	c.627A>G	c.(625-627)ACA>ACG	p.T209T	EAF2_uc003eeo.2_Silent_p.T79T	NM_018456	NP_060926	Q96CJ1	EAF2_HUMAN	ELL associated factor 2	209	Necessary for transactivation activity.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	protein binding				0				GBM - Glioblastoma multiforme(114;0.0972)		CTTCTGATACAGGGAATTGTG	0.403													4	60	---	---	---	---	PASS	G	121591526	G	G	121591526	2	3	173	1	0	0	0	0	0	0	0	1	4876	175	7	5		5	EAF2	3	121591526	Silent	SNP	A	TCGA-66-2800-01A-01D-1267-08	8076769	121591526	76430904	58	61736										
TF	7018	broad.mit.edu	37	chr3	133485154	133485154	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tagcagtggtgaagaaatcaGcttctgacctcacctgggac	11	10	3	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:133485154G>T	uc003epu.1	+	17	3091	c.1363G>T	c.(1363-1365)GCT>TCT	p.A455S	TF_uc011blt.1_Missense_Mutation_p.A328S|TF_uc003epw.1_Intron|TF_uc003epv.1_Missense_Mutation_p.A455S	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	455	Transferrin-like 2.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	GAAGAAATCAGCTTCTGACCT	0.498													182	387	---	---	---	---	PASS	T	133485154	T	T	133485154	3	4	173	1	0	0	0	0	1	0	0	0	15782	971	34	3	1409	3	TF	3	133485154	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	11893628	133485154	64537276	59	61737										
MME	4311	broad.mit.edu	37	chr3	154832874	154832874	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggctggttgaaacgtaatgtCattcccgagaccagctcccg	11	12	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:154832874C>G	uc010hvr.1	+	4	499	c.288C>G	c.(286-288)GTC>GTG	p.V96V	MME_uc003fab.1_Silent_p.V96V|MME_uc003fac.1_Silent_p.V96V|MME_uc003fad.1_Silent_p.V96V|MME_uc003fae.1_Silent_p.V96V	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	96	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	AACGTAATGTCATTCCCGAGA	0.448													12	302	---	---	---	---	PASS	G	154832874	G	G	154832874	2	3	173	1	0	0	0	0	0	0	0	1	9645	813	29	2		2	MME	3	154832874	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	21347720	154832874	43189556	60	61738										
PDCD10	11235	broad.mit.edu	37	chr3	167422680	167422680	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgcagacagatttactcgttCtagctgcaataaaaatttta	6	7	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:167422680C>A	uc003fex.2	-	4	498	c.100G>T	c.(100-102)GAA>TAA	p.E34*	PDCD10_uc003fez.2_Nonsense_Mutation_p.E34*|PDCD10_uc003fey.2_Nonsense_Mutation_p.E34*	NM_007217	NP_009148	Q9BUL8	PDC10_HUMAN	programmed cell death 10	34					angiogenesis|apoptosis|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of MAP kinase activity	cytosol|Golgi membrane|plasma membrane	protein homodimerization activity|protein N-terminus binding			lung(1)|central_nervous_system(1)	2						TTTACTCGTTCTAGCTGCaat	0.328									Familial_Cerebral_Cavernous_Angioma				11	86	---	---	---	---	PASS	A	167422680	A	A	167422680	4	1	173	1	0	0	0	0	0	1	0	0	11616	922	32	2	562	2	PDCD10	3	167422680	Nonsense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	12589806	167422680	30599750	61	61739										
NLGN1	22871	broad.mit.edu	37	chr3	173997009	173997009	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtagatagcgatgatggtatAtcagctagtgattttgactt	11	4	1	4			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:173997009A>T	uc003fio.1	+	6	1641	c.1218A>T	c.(1216-1218)ATA>ATT	p.I406I	NLGN1_uc010hww.1_Silent_p.I446I|NLGN1_uc003fip.1_Silent_p.I406I	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	423	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			ATGATGGTATATCAGCTAGTG	0.333													7	409	---	---	---	---	PASS	T	173997009	T	T	173997009	2	4	173	1	0	0	0	0	0	0	0	1	10461	439	16	5		5	NLGN1	3	173997009	Silent	SNP	A	TCGA-66-2800-01A-01D-1267-08	6574329	173997009	24025421	62	61740										
ZNF639	51193	broad.mit.edu	37	chr3	179051102	179051102	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgatgaagagtgtgactcacCtgaatcagtcaaccagcaaa	9	9	3	5			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:179051102C>T	uc003fjq.1	+	6	693	c.350C>T	c.(349-351)CCT>CTT	p.P117L	ZNF639_uc003fjr.1_Missense_Mutation_p.P117L	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	117					initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			TGTGACTCACCTGAATCAGTC	0.358													41	109	---	---	---	---	PASS	T	179051102	T	T	179051102	3	4	173	1	0	0	0	0	1	0	0	0	18053	681	24	3	364	3	ZNF639	3	179051102	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	5054093	179051102	18971328	63	61741										
YEATS2	55689	broad.mit.edu	37	chr3	183491565	183491565	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ccctcaaggagccatcctgcGagctacgaacaatgctagtt	9	13	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:183491565G>A	uc003fly.2	+	17	2546	c.2351G>A	c.(2350-2352)CGA>CAA	p.R784Q	YEATS2_uc003flz.2_5'Flank	NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	784					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)			GCCATCCTGCGAGCTACGAAC	0.453													7	379	---	---	---	---	PASS	A	183491565	A	A	183491565	3	1	173	1	0	0	0	0	1	0	0	0	17469	1058	37	2	2413	2	YEATS2	3	183491565	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	4440463	183491565	14530865	64	61742										
IGF2BP2	10644	broad.mit.edu	37	chr3	185407394	185407394	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gagtagttctcaaactgatgCccgcttagcttctccatggc	9	12	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:185407394C>T	uc003fpo.2	-	6	505	c.426G>A	c.(424-426)GGG>GGA	p.G142G	IGF2BP2_uc010hyi.2_Silent_p.G85G|IGF2BP2_uc010hyj.2_Silent_p.G79G|IGF2BP2_uc010hyk.2_Silent_p.G6G|IGF2BP2_uc010hyl.2_Silent_p.G79G|IGF2BP2_uc003fpp.2_Silent_p.G142G|IGF2BP2_uc003fpq.2_Silent_p.G147G	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	142	RRM 2.				anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			CAAACTGATGCCCGCTTAGCT	0.498													6	684	---	---	---	---	PASS	T	185407394	T	T	185407394	2	4	173	1	0	0	0	0	0	0	0	1	7574	726	26	3		3	IGF2BP2	3	185407394	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	1915829	185407394	12615036	65	61743										
LPP	4026	broad.mit.edu	37	chr3	188124045	188124045	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	acagccacccaaaaagtttgCcccggtagttgctccaaaac	7	14	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:188124045C>T	uc003frs.1	+	3	383	c.137C>T	c.(136-138)GCC>GTC	p.A46V	LPP_uc011bsg.1_Missense_Mutation_p.A46V|LPP_uc011bsi.1_Missense_Mutation_p.A46V|LPP_uc003frt.2_Missense_Mutation_p.A46V	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	46	Pro-rich.				cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		AAAAAGTTTGCCCCGGTAGTT	0.512			T	HMGA2|MLL|C12orf9	lipoma|leukemia								8	765	---	---	---	---	PASS	T	188124045	T	T	188124045	3	4	173	1	0	0	0	0	1	0	0	0	8923	739	26	3	139	3	LPP	3	188124045	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	2716651	188124045	9898385	66	61744										
LRRC15	131578	broad.mit.edu	37	chr3	194080189	194080189	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcctgggtcatgccccaaacGctgcggtcatcagtgacctg	12	14	3	1	rs115511298	byFrequency	TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:194080189G>C	uc003ftu.2	-	2	1670	c.1584C>G	c.(1582-1584)AGC>AGG	p.S528R	LRRC15_uc003ftt.2_Missense_Mutation_p.S534R	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	528	Extracellular (Potential).					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		TGCCCCAAACGCTGCGGTCAT	0.587													80	230	---	---	---	---	PASS	C	194080189	C	C	194080189	3	2	173	1	0	0	0	0	1	0	0	0	8970	1078	38	4	165	4	LRRC15	3	194080189	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	5956144	194080189	3942241	67	61745										
UBXN7	26043	broad.mit.edu	37	chr3	196094906	196094906	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	taattatacttactgaacggGcacattttttggggggactg	11	6	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr3:196094906G>A	uc003fwm.3	-	8	902	c.827C>T	c.(826-828)GCC>GTC	p.A276V	UBXN7_uc003fwn.3_Missense_Mutation_p.A128V|UBXN7_uc010iae.2_Missense_Mutation_p.A114V	NM_015562	NP_056377	O94888	UBXN7_HUMAN	UBX domain containing 7	276							protein binding			ovary(2)|pancreas(1)	3						TACTGAACGGGCACATTTTTT	0.388													6	544	---	---	---	---	PASS	A	196094906	A	A	196094906	3	1	173	1	0	0	0	0	1	0	0	0	16915	1203	42	3	658	3	UBXN7	3	196094906	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	2014717	196094906	1927524	68	61746										
SH3TC1	54436	broad.mit.edu	37	chr4	8229064	8229064	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcgcctggcacaggcccgggGggcggccaagaaagctggcc	18	14	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr4:8229064G>T	uc003gkv.3	+	12	1744	c.1643G>T	c.(1642-1644)GGG>GTG	p.G548V	SH3TC1_uc003gkw.3_Missense_Mutation_p.G472V|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	548							binding			large_intestine(2)|pancreas(1)	3						CAGGCCCGGGGGGCGGCCAAG	0.697													17	30	---	---	---	---	PASS	T	8229064	T	T	8229064	3	4	173	1	0	0	0	0	1	0	0	0	14261	1232	43	3	1685	3	SH3TC1	4	8229064	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08		8229064	182925212	69	61747										
PROM1	8842	broad.mit.edu	37	chr4	16037384	16037384	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	acctaagattacagtttctgGctgtagaagtcaacgcaggt	10	8	2	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr4:16037384G>T	uc003goo.2	-	3	489	c.277C>A	c.(277-279)CCA>ACA	p.P93T	PROM1_uc003gor.2_Missense_Mutation_p.P93T|PROM1_uc003gos.2_Intron|PROM1_uc003got.2_Missense_Mutation_p.P93T|PROM1_uc003gou.2_Intron|PROM1_uc003gop.2_Intron|PROM1_uc003goq.3_Intron|PROM1_uc010iec.1_Intron	NM_006017	NP_006008	O43490	PROM1_HUMAN	prominin 1 isoform 1	93	Extracellular (Potential).				camera-type eye photoreceptor cell differentiation|photoreceptor cell maintenance|retina layer formation	apical plasma membrane|cell surface|integral to plasma membrane|microvillus membrane|photoreceptor outer segment membrane|plasma membrane	beta-actinin binding|cadherin binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	7						ACAGTTTCTGGCTGTAGAAGT	0.408													41	144	---	---	---	---	PASS	T	16037384	T	T	16037384	3	4	173	1	0	0	0	0	1	0	0	0	12555	1217	42	3	2416	3	PROM1	4	16037384	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	7808320	16037384	175116892	70	61748										
GPR125	166647	broad.mit.edu	37	chr4	22390725	22390725	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	actcactagggtgcgtttggCcgactgccgtaattcttaat	10	10	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr4:22390725C>T	uc003gqm.1	-	18	2974	c.2709G>A	c.(2707-2709)CGG>CGA	p.R903R	GPR125_uc010ieo.1_Silent_p.R759R|GPR125_uc003gql.1_Silent_p.R30R	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	903	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				GTGCGTTTGGCCGACTGCCGT	0.418													5	432	---	---	---	---	PASS	T	22390725	T	T	22390725	2	4	173	1	0	0	0	0	0	0	0	1	6639	726	26	3		3	GPR125	4	22390725	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	6353341	22390725	168763551	71	61749										
C4orf19	55286	broad.mit.edu	37	chr4	37592256	37592256	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gattaccttcagcattggggCccagctggagacaacgttga	12	10	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr4:37592256C>A	uc003gsw.3	+	4	762	c.579C>A	c.(577-579)GGC>GGA	p.G193G	C4orf19_uc003gsy.3_Silent_p.G193G	NM_001104629	NP_001098099	Q8IY42	CD019_HUMAN	hypothetical protein LOC55286	193											0						AGCATTGGGGCCCAGCTGGAG	0.498													47	64	---	---	---	---	PASS	A	37592256	A	A	37592256	2	1	173	1	0	0	0	0	0	0	0	1	2253	726	26	3		3	C4orf19	4	37592256	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	15201531	37592256	153562020	72	61750										
DCAF4L1	285429	broad.mit.edu	37	chr4	41984871	41984871	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctgctcagaaccatcccttcCccgtactctgcctccgagga	7	18	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr4:41984871C>A	uc003gwk.2	+	1	1159	c.1062C>A	c.(1060-1062)TCC>TCA	p.S354S		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	354										skin(1)	1						CCATCCCTTCCCCGTACTCTG	0.637													44	101	---	---	---	---	PASS	A	41984871	A	A	41984871	2	1	173	1	0	0	0	0	0	0	0	1	4271	610	22	3		3	DCAF4L1	4	41984871	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	4392615	41984871	149169405	73	61751										
SHISA3	152573	broad.mit.edu	37	chr4	42403075	42403075	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtcggctccatcttcattgcGttcatcatcctgggctctgt	9	13	5	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr4:42403075G>T	uc003gwp.2	+	2	542	c.324G>T	c.(322-324)GCG>GCT	p.A108A		NM_001080505	NP_001073974	A0PJX4	SHSA3_HUMAN	shisa homolog 3 precursor	108	Helical; (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|skin(1)	2						TCTTCATTGCGTTCATCATCC	0.502													134	290	---	---	---	---	PASS	T	42403075	T	T	42403075	2	4	173	1	0	0	0	0	0	0	0	1	14281	1132	40	1		1	SHISA3	4	42403075	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	418204	42403075	148751201	74	61752										
GRXCR1	389207	broad.mit.edu	37	chr4	43022436	43022436	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gacatcctaaccaaaattgaGgtaaatgtgctttcagcaac	7	9	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr4:43022436G>C	uc003gwt.2	+	3	693	c.693G>C	c.(691-693)GAG>GAC	p.E231D		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	231	Glutaredoxin.				cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						CCAAAATTGAGGTAAATGTGC	0.333													11	48	---	---	---	---	PASS	C	43022436	C	C	43022436	3	2	173	1	0	0	0	0	1	0	0	0	6812	1014	35	4	703	4	GRXCR1	4	43022436	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	619361	43022436	148131840	75	61753										
ODAM	54959	broad.mit.edu	37	chr4	71063746	71063746	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctttatcagctctagaccagTttgctggactgctcccaaat	7	12	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr4:71063746T>G	uc003hfc.2	+	4	264	c.247T>G	c.(247-249)TTT>GTT	p.F83V		NM_017855	NP_060325	A1E959	ODAM_HUMAN	odontogenic ameloblast-associated protein	83	Gln-rich.				biomineral tissue development|odontogenesis of dentine-containing tooth	fibril				ovary(3)|large_intestine(1)	4						TCTAGACCAGTTTGCTGGACT	0.483													126	769	---	---	---	---	PASS	G	71063746	G	G	71063746	3	3	173	1	0	0	0	0	1	0	0	0	10824	1725	60	5	261	5	ODAM	4	71063746	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	28041310	71063746	120090530	76	61754										
FGF5	2250	broad.mit.edu	37	chr4	81207593	81207593	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggcgggagtggtatgtggccCtgaataaaagaggaaaagcc	16	6	0	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr4:81207593C>A	uc003hmd.2	+	3	811	c.574C>A	c.(574-576)CTG>ATG	p.L192M	FGF5_uc003hme.2_3'UTR	NM_004464	NP_004455	P12034	FGF5_HUMAN	fibroblast growth factor 5 isoform 1 precursor	192					cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	fibroblast growth factor receptor binding|growth factor activity			ovary(1)|breast(1)	2						GTATGTGGCCCTGAATAAAAG	0.478													260	91	---	---	---	---	PASS	A	81207593	A	A	81207593	3	1	173	1	0	0	0	0	1	0	0	0	5855	680	24	3	584	3	FGF5	4	81207593	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	10143847	81207593	109946683	77	61755										
HERC3	8916	broad.mit.edu	37	chr4	89591400	89591400	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tggttcttgcatcaagcaggGatggtaagaattcataaagc	11	6	3	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr4:89591400G>T	uc003hrw.1	+	16	2074	c.1908G>T	c.(1906-1908)GGG>GGT	p.G636G	HERC3_uc011cdn.1_Silent_p.G518G|HERC3_uc011cdo.1_Silent_p.G80G	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	636					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		ATCAAGCAGGGATGGTAAGAA	0.353													26	55	---	---	---	---	PASS	T	89591400	T	T	89591400	2	4	173	1	0	0	0	0	0	0	0	1	7059	1161	41	2		2	HERC3	4	89591400	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	8383807	89591400	101562876	78	61756										
SPATA4	132851	broad.mit.edu	37	chr4	177113858	177113858	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctttaagttcattggtcagcAtgttgggattgcttagtaat	10	5	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr4:177113858A>G	uc003iuo.1	-	4	717	c.608T>C	c.(607-609)ATG>ACG	p.M203T		NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4	203					apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)		ATTGGTCAGCATGTTGGGATT	0.368													14	50	---	---	---	---	PASS	G	177113858	G	G	177113858	3	3	173	1	0	0	0	0	1	0	0	0	15009	217	8	5	321	5	SPATA4	4	177113858	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	87522458	177113858	14040418	79	61757										
ADCY2	108	broad.mit.edu	37	chr5	7826899	7826899	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cacctgtcgaggaataatcaAcgtgaaaggaaagggggacc	13	8	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr5:7826899A>G	uc003jdz.1	+	25	3258	c.3191A>G	c.(3190-3192)AAC>AGC	p.N1064S	ADCY2_uc011cmo.1_Missense_Mutation_p.N884S|ADCY2_uc010itm.1_Missense_Mutation_p.N260S	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	1064	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						GGAATAATCAACGTGAAAGGA	0.517													127	140	---	---	---	---	PASS	G	7826899	G	G	7826899	3	3	173	1	0	0	0	0	1	0	0	0	294	43	2	5	3289	5	ADCY2	5	7826899	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08		7826899	173088361	80	61758										
FAM105B	90268	broad.mit.edu	37	chr5	14678872	14678872	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggaaatacacagaaagcaacGtgtatgaaaatggtatgaca	10	5	0	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr5:14678872G>T	uc003jfk.2	+	3	464	c.312G>T	c.(310-312)ACG>ACT	p.T104T		NM_138348	NP_612357	Q96BN8	F105B_HUMAN	hypothetical protein LOC90268	104										ovary(2)	2	Lung NSC(4;0.00696)					AGAAAGCAACGTGTATGAAAA	0.328													27	62	---	---	---	---	PASS	T	14678872	T	T	14678872	2	4	173	1	0	0	0	0	0	0	0	1	5388	1132	40	1		1	FAM105B	5	14678872	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	6851973	14678872	166236388	81	61759										
GPBP1	65056	broad.mit.edu	37	chr5	56558513	56558513	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tggaagaacagcactttcaaAcccacaactgagaatgatga	8	9	1	4			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr5:56558513A>T	uc003jrh.3	+	12	2630	c.1356A>T	c.(1354-1356)AAA>AAT	p.K452N	GPBP1_uc010iwg.2_Missense_Mutation_p.K472N|GPBP1_uc003jri.3_Missense_Mutation_p.K281N|GPBP1_uc003jrj.3_Missense_Mutation_p.K444N|GPBP1_uc003jrk.3_Missense_Mutation_p.K459N|GPBP1_uc003jrl.3_RNA	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	452					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		GCACTTTCAAACCCACAACTG	0.388													84	61	---	---	---	---	PASS	T	56558513	T	T	56558513	3	4	173	1	0	0	0	0	1	0	0	0	6595	40	2	5	1419	5	GPBP1	5	56558513	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	41879641	56558513	124356747	82	61760										
APC	324	broad.mit.edu	37	chr5	112164609	112164609	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcagatgtaaatagtaaaaaGacgttgcgagaagttggaag	13	3	0	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr5:112164609G>C	uc010jby.2	+	14	2063	c.1683G>C	c.(1681-1683)AAG>AAC	p.K561N	APC_uc011cvt.1_Missense_Mutation_p.K543N|APC_uc003kpz.3_Missense_Mutation_p.K561N|APC_uc003kpy.3_Missense_Mutation_p.K561N|APC_uc010jbz.2_Missense_Mutation_p.K278N|APC_uc010jca.2_Intron	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	561	ARM 3.|Leu-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.T562fs*19(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		ATAGTAAAAAGACGTTGCGAG	0.299		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			11	102	---	---	---	---	PASS	C	112164609	C	C	112164609	3	2	173	1	0	0	0	0	1	0	0	0	763	933	33	2	1733	2	APC	5	112164609	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	55606096	112164609	68750651	83	61761										
MCC	4163	broad.mit.edu	37	chr5	112720749	112720749	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gttgtctgactttgcagaaaGatctacttcctccttcctaa	6	11	2	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr5:112720749G>A	uc003kql.3	-	2	747	c.331C>T	c.(331-333)CTT>TTT	p.L111F	MCC_uc003kqk.3_RNA	NM_001085377	NP_001078846	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 1	Error:Variant_position_missing_in_P23508_after_alignment					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		TTTGCAGAAAGATCTACTTCC	0.458													12	149	---	---	---	---	PASS	A	112720749	A	A	112720749	3	1	173	1	0	0	0	0	1	0	0	0	9373	942	33	2	2861	2	MCC	5	112720749	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	556140	112720749	68194511	84	61762										
PCDHA2	56146	broad.mit.edu	37	chr5	140175108	140175108	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tagatatacaggcaaatgatGaactaagcgaatctttgtct	8	6	2	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr5:140175108G>A	uc003lhd.2	+	1	665	c.559G>A	c.(559-561)GAA>AAA	p.E187K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.E187K|PCDHA2_uc011czy.1_Missense_Mutation_p.E187K	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	187	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCAAATGATGAACTAAGCGA	0.458													15	178	---	---	---	---	PASS	A	140175108	A	A	140175108	3	1	173	1	0	0	0	0	1	0	0	0	11524	1291	45	2	561	2	PCDHA2	5	140175108	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	27454359	140175108	40740152	85	61763										
PCDHA6	56142	broad.mit.edu	37	chr5	140209869	140209869	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcgccacccaccgagggcgcGtgcacggcggacaagcccac	14	18	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr5:140209869G>T	uc003lho.2	+	1	2220	c.2193G>T	c.(2191-2193)GCG>GCT	p.A731A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Silent_p.A731A	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	731	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding	p.A731A(1)		haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGAGGGCGCGTGCACGGCGG	0.687													15	81	---	---	---	---	PASS	T	140209869	T	T	140209869	2	4	173	1	0	0	0	0	0	0	0	1	11528	1132	40	1		1	PCDHA6	5	140209869	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	34761	140209869	40705391	86	61764										
PCDH12	51294	broad.mit.edu	37	chr5	141335730	141335730	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cacaggctggaccacctctgGggcattatcattggcatcca	10	13	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr5:141335730G>T	uc003llx.2	-	1	2898	c.1687C>A	c.(1687-1689)CCA>ACA	p.P563T		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	563	Extracellular (Potential).|Cadherin 5.				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCACCTCTGGGGCATTATCA	0.587													38	44	---	---	---	---	PASS	T	141335730	T	T	141335730	3	4	173	1	0	0	0	0	1	0	0	0	11510	1232	43	3	1883	3	PCDH12	5	141335730	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	1125861	141335730	39579530	87	61765										
DUSP22	56940	broad.mit.edu	37	chr6	335143	335143	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tacctgtgcatcccagcagcGgattcaccatctcaaaacct	6	15	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:335143G>T	uc003msx.2	+	4	607	c.168G>T	c.(166-168)GCG>GCT	p.A56A	DUSP22_uc011dhn.1_Silent_p.A56A|DUSP22_uc003msy.1_Silent_p.A13A	NM_020185	NP_064570	Q9NRW4	DUS22_HUMAN	dual specificity phosphatase 22	56					apoptosis|cell proliferation|inactivation of MAPK activity|multicellular organismal development|positive regulation of JNK cascade|regulation of cell proliferation|transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(77;0.228)	Breast(5;0.0249)|all_hematologic(90;0.0489)		OV - Ovarian serous cystadenocarcinoma(45;0.0277)|BRCA - Breast invasive adenocarcinoma(62;0.0669)		TCCCAGCAGCGGATTCACCAT	0.318													5	130	---	---	---	---	PASS	T	335143	T	T	335143	2	4	173	1	0	0	0	0	0	0	0	1	4821	1103	39	1		1	DUSP22	6	335143	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08		335143	170779924	88	61766										
ZNF323	64288	broad.mit.edu	37	chr6	28294622	28294622	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	actcctggttctcaggtataCtttcaccatctggaataata	6	10	3	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:28294622C>T	uc003nla.2	-	4	942	c.542G>A	c.(541-543)AGT>AAT	p.S181N	ZNF323_uc003nld.2_Missense_Mutation_p.S181N|ZNF323_uc010jra.2_Missense_Mutation_p.S181N|ZNF323_uc003nlb.2_Missense_Mutation_p.S22N|ZNF323_uc010jrb.2_Missense_Mutation_p.S22N|ZNF323_uc003nlc.2_Missense_Mutation_p.S181N	NM_001135216	NP_001128688	Q96LW9	ZN323_HUMAN	zinc finger protein 323	181					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CTCAGGTATACTTTCACCATC	0.343													34	105	---	---	---	---	PASS	T	28294622	T	T	28294622	3	4	173	1	0	0	0	0	1	0	0	0	17840	565	20	3	682	3	ZNF323	6	28294622	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	27959479	28294622	142820445	89	61767										
NCR3	259197	broad.mit.edu	37	chr6	31556856	31556856	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aatcaggctcagcctcctggGactgggggaagcagatgtgc	15	10	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:31556856G>A	uc003nuv.2	-	4	858	c.594C>T	c.(592-594)GTC>GTT	p.V198V	NCR3_uc003nuw.2_3'UTR	NM_147130	NP_667341	O14931	NCTR3_HUMAN	natural cytotoxicity triggering receptor 3	198	Cytoplasmic (Potential).				cell recognition|immune response|inflammatory response|positive regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2						AGCCTCCTGGGACTGGGGGAA	0.597													16	85	---	---	---	---	PASS	A	31556856	A	A	31556856	2	1	173	1	0	0	0	0	0	0	0	1	10239	1161	41	2		2	NCR3	6	31556856	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	3262234	31556856	139558211	90	61768										
TRERF1	55809	broad.mit.edu	37	chr6	42214277	42214277	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttctagggaggtccacttgtCcgaacctacaacaaaacaca	7	12	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:42214277C>A	uc003osd.2	-	14	3225	c.2662G>T	c.(2662-2664)GAC>TAC	p.D888Y	TRERF1_uc011duq.1_Missense_Mutation_p.D805Y|TRERF1_uc003osb.2_Missense_Mutation_p.D644Y|TRERF1_uc003osc.2_Missense_Mutation_p.D644Y|TRERF1_uc003ose.2_Missense_Mutation_p.D908Y	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	888	SANT.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GTCCACTTGTCCGAACCTACA	0.373													43	124	---	---	---	---	PASS	A	42214277	A	A	42214277	3	1	173	1	0	0	0	0	1	0	0	0	16472	855	30	2	960	2	TRERF1	6	42214277	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	10657421	42214277	128900790	91	61769										
MEP1A	4224	broad.mit.edu	37	chr6	46761185	46761185	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cttttttaccttgctttttgCccacatagcagctgtaccgg	7	12	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:46761185C>T	uc010jzh.1	+	1	92	c.50C>T	c.(49-51)GCC>GTC	p.A17V	MEP1A_uc011dwg.1_5'UTR|MEP1A_uc011dwh.1_Missense_Mutation_p.A17V|MEP1A_uc011dwi.1_5'UTR	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	17					digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			TTGCTTTTTGCCCACATAGCA	0.348													7	816	---	---	---	---	PASS	T	46761185	T	T	46761185	3	4	173	1	0	0	0	0	1	0	0	0	9475	739	26	3	52	3	MEP1A	6	46761185	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	4546908	46761185	124353882	92	61770										
MEP1A	4224	broad.mit.edu	37	chr6	46803248	46803248	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ccaaacccttgccaaaatgaCggcatctgtgtgaacgtgaa	9	11	1	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:46803248C>T	uc010jzh.1	+	13	2088	c.2046C>T	c.(2044-2046)GAC>GAT	p.D682D	MEP1A_uc011dwg.1_Silent_p.D404D|MEP1A_uc011dwh.1_Silent_p.D710D|MEP1A_uc011dwi.1_Silent_p.D582D	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	682	EGF-like.|Extracellular (Potential).				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			GCCAAAATGACGGCATCTGTG	0.607													236	31	---	---	---	---	PASS	T	46803248	T	T	46803248	2	4	173	1	0	0	0	0	0	0	0	1	9475	535	19	1		1	MEP1A	6	46803248	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	42063	46803248	124311819	93	61771										
PKHD1	5314	broad.mit.edu	37	chr6	51774096	51774096	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cttacctctcatagctcccaCcagagtgagtgagctcagat	8	13	2	4			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:51774096C>A	uc003pah.1	-	40	6943	c.6667G>T	c.(6667-6669)GTG>TTG	p.V2223L	PKHD1_uc010jzn.1_Missense_Mutation_p.V248L|PKHD1_uc003pai.2_Missense_Mutation_p.V2223L	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2223	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					ATAGCTCCCACCAGAGTGAGT	0.502													49	189	---	---	---	---	PASS	A	51774096	A	A	51774096	3	1	173	1	0	0	0	0	1	0	0	0	11971	507	18	3	5708	3	PKHD1	6	51774096	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	4970848	51774096	119340971	94	61772										
PKHD1	5314	broad.mit.edu	37	chr6	51924782	51924782	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggaagcttggctatctgcctGaatccagaaagtgtaattat	10	7	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:51924782G>A	uc003pah.1	-	15	1453	c.1177C>T	c.(1177-1179)CAG>TAG	p.Q393*	PKHD1_uc003pai.2_Nonsense_Mutation_p.Q393*	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	393	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CTATCTGCCTGAATCCAGAAA	0.453													29	72	---	---	---	---	PASS	A	51924782	A	A	51924782	4	1	173	1	0	0	0	0	0	1	0	0	11971	1299	45	2	11298	2	PKHD1	6	51924782	Nonsense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	150686	51924782	119190285	95	61773										
BMP5	653	broad.mit.edu	37	chr6	55639028	55639028	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	acaagaccagcagattttacGttgatactgcgtcctagaac	8	10	0	4	rs41271330	byFrequency	TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:55639028G>T	uc003pcq.2	-	4	1558	c.846C>A	c.(844-846)AAC>AAA	p.N282K	BMP5_uc011dxf.1_Missense_Mutation_p.N282K	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	282					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			CAGATTTTACGTTGATACTGC	0.423													42	146	---	---	---	---	PASS	T	55639028	T	T	55639028	3	4	173	1	0	0	0	0	1	0	0	0	1463	1136	40	1	534	1	BMP5	6	55639028	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	3714246	55639028	115476039	96	61774										
SIM1	6492	broad.mit.edu	37	chr6	100838774	100838774	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atggaagccagttggtctgaGggggctttccttagctgtaa	14	7	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:100838774G>T	uc003pqj.3	-	11	1971	c.1764C>A	c.(1762-1764)CCC>CCA	p.P588P	SIM1_uc010kcu.2_Silent_p.P588P	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	588	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		GTTGGTCTGAGGGGGCTTTCC	0.458													45	155	---	---	---	---	PASS	T	100838774	T	T	100838774	2	4	173	1	0	0	0	0	0	0	0	1	14323	987	35	3		3	SIM1	6	100838774	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	45199746	100838774	70276293	97	61775										
MAN1A1	4121	broad.mit.edu	37	chr6	119525941	119525941	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	caccttttcagcaaagatggGgtttcctgataagtggctca	10	9	2	2	rs140726044		TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:119525941G>C	uc003pym.1	-	7	1541	c.1099C>G	c.(1099-1101)CCC>GCC	p.P367A		NM_005907	NP_005898	P33908	MA1A1_HUMAN	mannosidase, alpha, class 1A, member 1	367	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_epithelial(87;0.173)		OV - Ovarian serous cystadenocarcinoma(136;0.0612)|GBM - Glioblastoma multiforme(226;0.0702)|all cancers(137;0.115)		GCAAAGATGGGGTTTCCTGAT	0.458													96	136	---	---	---	---	PASS	C	119525941	C	C	119525941	3	2	173	1	0	0	0	0	1	0	0	0	9210	1232	43	4	890	4	MAN1A1	6	119525941	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	18687167	119525941	51589126	98	61776										
TCF21	6943	broad.mit.edu	37	chr6	134210895	134210895	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aagctctccaagctggacacGctcaggctggcgtccagcta	11	14	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:134210895G>T	uc003qei.3	+	1	636	c.360G>T	c.(358-360)ACG>ACT	p.T120T	uc003qeg.1_5'Flank|TCF21_uc003qej.2_Silent_p.T120T	NM_003206	NP_003197	O43680	TCF21_HUMAN	transcription factor 21	120	Helix-loop-helix motif.				branching involved in ureteric bud morphogenesis|mesoderm development|negative regulation of androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus	androgen receptor binding|E-box binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity				0	Colorectal(23;0.221)|Breast(56;0.247)			GBM - Glioblastoma multiforme(68;0.00518)|OV - Ovarian serous cystadenocarcinoma(155;0.00783)		AGCTGGACACGCTCAGGCTGG	0.617													130	182	---	---	---	---	PASS	T	134210895	T	T	134210895	2	4	173	1	0	0	0	0	0	0	0	1	15688	1074	38	1		1	TCF21	6	134210895	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	14684954	134210895	36904172	99	61777										
MAP3K5	4217	broad.mit.edu	37	chr6	136926462	136926462	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctgcttttccgtagcctcttGgtcctttatctattatttct	5	11	3	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:136926462G>C	uc003qhc.2	-	19	2925	c.2564C>G	c.(2563-2565)CCA>CGA	p.P855R	MAP3K5_uc011edj.1_Missense_Mutation_p.P102R|MAP3K5_uc011edk.1_Missense_Mutation_p.P700R	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	855	Protein kinase.				activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		GTAGCCTCTTGGTCCTTTATC	0.403													65	69	---	---	---	---	PASS	C	136926462	C	C	136926462	3	2	173	1	0	0	0	0	1	0	0	0	9253	1348	47	4	1608	4	MAP3K5	6	136926462	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	2715567	136926462	34188605	100	61778										
HIVEP2	3097	broad.mit.edu	37	chr6	143094104	143094104	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gctcaaatgccgcttgtcttCttagcatgcgctgagggggt	13	10	3	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:143094104C>T	uc003qjd.2	-	5	2515	c.1772G>A	c.(1771-1773)AGA>AAA	p.R591K		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	591					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CGCTTGTCTTCTTAGCATGCG	0.527													4	265	---	---	---	---	PASS	T	143094104	T	T	143094104	3	4	173	1	0	0	0	0	1	0	0	0	7187	913	32	2	5592	2	HIVEP2	6	143094104	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	6167642	143094104	28020963	101	61779										
SYNJ2	8871	broad.mit.edu	37	chr6	158502168	158502168	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctggcgatcgtggaggtggaAgttcaggaagtcgatgtggg	19	5	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr6:158502168A>C	uc003qqx.1	+	19	2670	c.2595A>C	c.(2593-2595)GAA>GAC	p.E865D	SYNJ2_uc003qqw.1_Missense_Mutation_p.E865D|SYNJ2_uc003qqy.1_Missense_Mutation_p.E578D|SYNJ2_uc003qqz.1_Missense_Mutation_p.E482D|SYNJ2_uc003qra.1_Missense_Mutation_p.E208D	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	865	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		TGGAGGTGGAAGTTCAGGAAG	0.572													4	172	---	---	---	---	PASS	C	158502168	C	C	158502168	3	2	173	1	0	0	0	0	1	0	0	0	15450	69	3	5	2669	5	SYNJ2	6	158502168	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	15408064	158502168	12612899	102	61780										
TMEM195	392636	broad.mit.edu	37	chr7	15427122	15427122	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aaaacttattgaagaatccaGgtgtggcccagaatgtagtc	10	7	0	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:15427122G>C	uc003stb.1	-	9	1036	c.866C>G	c.(865-867)CCT>CGT	p.P289R		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	289					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						GAAGAATCCAGGTGTGGCCCA	0.358													6	213	---	---	---	---	PASS	C	15427122	C	C	15427122	3	2	173	1	0	0	0	0	1	0	0	0	16114	1000	35	4	491	4	TMEM195	7	15427122	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08		15427122	143711541	103	61781										
ABCB5	340273	broad.mit.edu	37	chr7	20698286	20698286	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aagcaagtcagctgttcaagCtgcactggagaaggtaagtg	13	7	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:20698286C>G	uc003suw.3	+	5	905	c.359C>G	c.(358-360)GCT>GGT	p.A120G	ABCB5_uc010kuh.2_Missense_Mutation_p.A565G|ABCB5_uc003suv.3_Missense_Mutation_p.A120G|ABCB5_uc011jyi.1_Missense_Mutation_p.A120G	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	120	ABC transporter 1.|Extracellular (Potential).				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						GCTGTTCAAGCTGCACTGGAG	0.408													36	77	---	---	---	---	PASS	G	20698286	G	G	20698286	3	3	173	1	0	0	0	0	1	0	0	0	44	797	28	4	1744	4	ABCB5	7	20698286	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	5271164	20698286	138440377	104	61782										
WIPF3	644150	broad.mit.edu	37	chr7	29928944	29928944	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gacttcgagtctaaattcacGttccattctgtggaagactt	8	9	3	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:29928944G>A	uc003taj.1	+	6	1272	c.1272G>A	c.(1270-1272)ACG>ACA	p.T424T		NM_001080529	NP_001073998	A6NGB9	WIPF3_HUMAN	WAS/WASL interacting protein family, member 3	424										ovary(1)	1						CTAAATTCACGTTCCATTCTG	0.438													30	79	---	---	---	---	PASS	A	29928944	A	A	29928944	2	1	173	1	0	0	0	0	0	0	0	1	17366	1132	40	1		1	WIPF3	7	29928944	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	9230658	29928944	129209719	105	61783										
TBX20	57057	broad.mit.edu	37	chr7	35289660	35289660	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggcaattttggccatttcctCactggggatgatgggggtgg	16	7	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:35289660C>A	uc011kas.1	-	2	294	c.283G>T	c.(283-285)GAG>TAG	p.E95*		NM_001077653	NP_001071121	Q9UMR3	TBX20_HUMAN	T-box transcription factor TBX20	95						nucleus	DNA binding			central_nervous_system(1)	1						GCCATTTCCTCACTGGGGATG	0.582													31	74	---	---	---	---	PASS	A	35289660	A	A	35289660	4	1	173	1	0	0	0	0	0	1	0	0	15653	835	29	2	1089	2	TBX20	7	35289660	Nonsense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	5360716	35289660	123849003	106	61784										
GLI3	2737	broad.mit.edu	37	chr7	42005053	42005053	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tagcccccagcaggcccgctCctcaaggggttctgcgggtg	14	15	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:42005053C>A	uc011kbh.1	-	15	3709	c.3618G>T	c.(3616-3618)AGG>AGT	p.R1206S	GLI3_uc011kbg.1_Missense_Mutation_p.R1147S	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1206					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CAGGCCCGCTCCTCAAGGGGT	0.662									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				98	156	---	---	---	---	PASS	A	42005053	A	A	42005053	3	1	173	1	0	0	0	0	1	0	0	0	6439	854	30	2	1128	2	GLI3	7	42005053	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	6715393	42005053	117133610	107	61785										
SAMD9L	219285	broad.mit.edu	37	chr7	92761600	92761600	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctttcctgataaaaattgcaCcatatgttttttggataatt	5	6	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:92761600C>G	uc003umh.1	-	5	4901	c.3685G>C	c.(3685-3687)GTG>CTG	p.V1229L	SAMD9L_uc003umj.1_Missense_Mutation_p.V1229L|SAMD9L_uc003umi.1_Missense_Mutation_p.V1229L|SAMD9L_uc010lfb.1_Missense_Mutation_p.V1229L|SAMD9L_uc003umk.1_Missense_Mutation_p.V1229L|SAMD9L_uc010lfc.1_Missense_Mutation_p.V1229L|SAMD9L_uc010lfd.1_Missense_Mutation_p.V1229L|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1229										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			AAAAATTGCACCATATGTTTT	0.358													67	141	---	---	---	---	PASS	G	92761600	G	G	92761600	3	3	173	1	0	0	0	0	1	0	0	0	13827	507	18	4	1073	4	SAMD9L	7	92761600	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	50756547	92761600	66377063	108	61786										
ZNF655	79027	broad.mit.edu	37	chr7	99170395	99170395	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atgtatgtgggaaaattttcCatcagagctcagcccttact	8	9	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:99170395C>T	uc003urh.2	+	3	1057	c.664C>T	c.(664-666)CAT>TAT	p.H222Y	ZNF655_uc010lga.2_Missense_Mutation_p.H257Y|ZNF655_uc010lgc.2_Missense_Mutation_p.H257Y|ZNF655_uc003urj.2_Missense_Mutation_p.H222Y|ZNF655_uc003urk.2_Missense_Mutation_p.H59Y|ZNF655_uc010lgd.2_Missense_Mutation_p.H59Y	NM_138494	NP_612503	Q8N720	ZN655_HUMAN	zinc finger protein 655 isoform a	222	C2H2-type 1.				G1 phase|regulation of mitotic cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_epithelial(64;3.19e-09)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					GAAAATTTTCCATCAGAGCTC	0.393													9	36	---	---	---	---	PASS	T	99170395	T	T	99170395	3	4	173	1	0	0	0	0	1	0	0	0	18065	594	21	3	1201	3	ZNF655	7	99170395	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	6408795	99170395	59968268	109	61787										
ZNF498	221785	broad.mit.edu	37	chr7	99221744	99221744	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggagtggaggcatgtgacccCagcccagatagactgctttg	14	10	0	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:99221744C>T	uc003url.1	+	7	1073	c.746C>T	c.(745-747)CCA>CTA	p.P249L	ZNF498_uc003urm.1_Missense_Mutation_p.P85L|ZNF498_uc010lge.1_Missense_Mutation_p.P85L|ZNF498_uc003urn.2_RNA|ZNF498_uc010lgf.1_Intron|ZNF498_uc003uro.1_Missense_Mutation_p.P33L	NM_145115	NP_660090	Q6NSZ9	ZN498_HUMAN	zinc finger and SCAN domain containing 25	249					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_epithelial(64;1.95e-08)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					CATGTGACCCCAGCCCAGATA	0.537													158	276	---	---	---	---	PASS	T	99221744	T	T	99221744	3	4	173	1	0	0	0	0	1	0	0	0	17944	594	21	3	760	3	ZNF498	7	99221744	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	51349	99221744	59916919	110	61788										
ACTL6B	51412	broad.mit.edu	37	chr7	100244174	100244174	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggtcaggggtgggctcctacCggtggggtcttctgggaaag	19	8	3	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:100244174C>A	uc003uvy.2	-	12	1220	c.1113G>T	c.(1111-1113)CCG>CCT	p.P371P	ACTL6B_uc003uvx.1_Silent_p.P162P|ACTL6B_uc003uvz.2_RNA	NM_016188	NP_057272	O94805	ACL6B_HUMAN	actin-like 6B	371					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex|SWI/SNF complex	ATP binding|protein binding|structural constituent of cytoskeleton			ovary(1)	1	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					GGGCTCCTACCGGTGGGGTCT	0.607													4	186	---	---	---	---	PASS	A	100244174	A	A	100244174	2	1	173	1	0	0	0	0	0	0	0	1	199	666	23	1		1	ACTL6B	7	100244174	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	1022430	100244174	58894489	111	61789										
ZAN	7455	broad.mit.edu	37	chr7	100361796	100361796	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cgcaggccacgctgtgaagcCctggagggaaccccacttct	12	15	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:100361796C>A	uc003uwj.2	+	22	4409	c.4244C>A	c.(4243-4245)CCC>CAC	p.P1415H	ZAN_uc003uwk.2_Missense_Mutation_p.P1415H|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kkd.1_Intron	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1415	Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GCTGTGAAGCCCTGGAGGGAA	0.443													18	26	---	---	---	---	PASS	A	100361796	A	A	100361796	3	1	173	1	0	0	0	0	1	0	0	0	17510	623	22	3	4326	3	ZAN	7	100361796	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	117622	100361796	58776867	112	61790										
LRWD1	222229	broad.mit.edu	37	chr7	102108810	102108810	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtgggcctgtgccttcgagcCggcctgggaggagggtacat	18	10	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:102108810C>T	uc003uzn.2	+	7	1043	c.905C>T	c.(904-906)CCG>CTG	p.P302L	LRWD1_uc003uzo.2_Missense_Mutation_p.P150L	NM_152892	NP_690852	Q9UFC0	LRWD1_HUMAN	leucine-rich repeats and WD repeat domain	302					chromatin modification|DNA-dependent DNA replication initiation|establishment of protein localization to chromatin|G1 phase of mitotic cell cycle	centromeric heterochromatin|nuclear origin of replication recognition complex|telomeric heterochromatin	chromatin binding|methyl-CpG binding|methylated histone residue binding			skin(1)	1						GCCTTCGAGCCGGCCTGGGAG	0.652													4	23	---	---	---	---	PASS	T	102108810	T	T	102108810	3	4	173	1	0	0	0	0	1	0	0	0	9047	652	23	1	931	1	LRWD1	7	102108810	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	1747014	102108810	57029853	113	61791										
PIK3CG	5294	broad.mit.edu	37	chr7	106513331	106513331	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atcgagatgttacaaaaagtCacccttgatattaaatcgct	6	8	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:106513331C>A	uc003vdv.3	+	4	2320	c.2235C>A	c.(2233-2235)GTC>GTA	p.V745V	PIK3CG_uc003vdu.2_Silent_p.V745V|PIK3CG_uc003vdw.2_Silent_p.V745V	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	745					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						TACAAAAAGTCACCCTTGATA	0.458													67	102	---	---	---	---	PASS	A	106513331	A	A	106513331	2	1	173	1	0	0	0	0	0	0	0	1	11916	813	29	2		2	PIK3CG	7	106513331	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	4404521	106513331	52625332	114	61792										
TAS2R38	5726	broad.mit.edu	37	chr7	141672606	141672606	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cattgcctgagatcaggatgGctgcatgcccagagggacaa	13	10	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:141672606G>T	uc003vwx.1	-	1	968	c.884C>A	c.(883-885)GCC>GAC	p.A295D		NM_176817	NP_789787	P59533	T2R38_HUMAN	taste receptor, type 2, member 38	295	Helical; Name=7; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			kidney(1)|skin(1)	2	Melanoma(164;0.0171)					GATCAGGATGGCTGCATGCCC	0.542													67	123	---	---	---	---	PASS	T	141672606	T	T	141672606	3	4	173	1	0	0	0	0	1	0	0	0	15572	1203	42	3	121	3	TAS2R38	7	141672606	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	35159275	141672606	17466057	115	61793										
KRBA1	84626	broad.mit.edu	37	chr7	149431068	149431068	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cgagcagcctgctgggaggaGtgcagagggccctccaggaa	17	11	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr7:149431068G>C	uc003wfz.2	+	18	3424	c.3025G>C	c.(3025-3027)GTG>CTG	p.V1009L	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_Missense_Mutation_p.V616L	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	1009										ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GCTGGGAGGAGTGCAGAGGGC	0.642													19	20	---	---	---	---	PASS	C	149431068	C	C	149431068	3	2	173	1	0	0	0	0	1	0	0	0	8439	1029	36	4	3086	4	KRBA1	7	149431068	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	7758462	149431068	9707595	116	61794										
ARHGEF10	9639	broad.mit.edu	37	chr8	1882037	1882037	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cagttagaagtctactcatgAtggaagacacgttgtgggcg	13	7	2	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:1882037A>T	uc003wpr.2	+	26	3329	c.3151A>T	c.(3151-3153)ATG>TTG	p.M1051L	ARHGEF10_uc003wps.2_Missense_Mutation_p.M1013L|ARHGEF10_uc010lre.2_Missense_Mutation_p.M702L	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	1076					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TCTACTCATGATGGAAGACAC	0.443													121	68	---	---	---	---	PASS	T	1882037	T	T	1882037	3	4	173	1	0	0	0	0	1	0	0	0	894	333	12	5	3249	5	ARHGEF10	8	1882037	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08		1882037	144481985	117	61795										
DOCK5	80005	broad.mit.edu	37	chr8	25232132	25232132	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	actgtgagaactacacagaaGctgcctacacgcttctcttg	8	12	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:25232132G>T	uc003xeg.2	+	37	3915	c.3778G>T	c.(3778-3780)GCT>TCT	p.A1260S	DOCK5_uc003xeh.1_Missense_Mutation_p.A974S|PPP2R2A_uc003xek.2_Missense_Mutation_p.A49S|DOCK5_uc003xei.2_Missense_Mutation_p.A830S|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1260	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		CTACACAGAAGCTGCCTACAC	0.468													5	307	---	---	---	---	PASS	T	25232132	T	T	25232132	3	4	173	1	0	0	0	0	1	0	0	0	4690	971	34	3	3924	3	DOCK5	8	25232132	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	23350095	25232132	121131890	118	61796										
ESCO2	157570	broad.mit.edu	37	chr8	27646495	27646495	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctggaaggaatcaaatatgtGgtgagccaaaacatagtctt	10	6	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:27646495G>A	uc003xgg.2	+	7	1346	c.1263G>A	c.(1261-1263)GTG>GTA	p.V421V	ESCO2_uc010luy.1_RNA	NM_001017420	NP_001017420	Q56NI9	ESCO2_HUMAN	establishment of cohesion 1 homolog 2	421					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding			central_nervous_system(1)	1		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|KIRC - Kidney renal clear cell carcinoma(542;0.0955)|Kidney(114;0.115)|Colorectal(74;0.132)		TCAAATATGTGGTGAGCCAAA	0.398									SC_Phocomelia_syndrome				45	51	---	---	---	---	PASS	A	27646495	A	A	27646495	2	1	173	1	0	0	0	0	0	0	0	1	5249	1362	47	3		3	ESCO2	8	27646495	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	2414363	27646495	118717527	119	61797										
FUT10	84750	broad.mit.edu	37	chr8	33230216	33230216	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	agctggaaatccacatctctCgcaaagagctcaaaggtgga	10	10	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:33230216C>A	uc003xje.2	-	5	1675	c.1319G>T	c.(1318-1320)CGA>CTA	p.R440L	FUT10_uc003xjc.2_Missense_Mutation_p.R447L|FUT10_uc003xjd.2_Missense_Mutation_p.R412L|FUT10_uc011lbi.1_Missense_Mutation_p.R490L	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	440	Lumenal (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		CCACATCTCTCGCAAAGAGCT	0.488													45	44	---	---	---	---	PASS	A	33230216	A	A	33230216	3	1	173	1	0	0	0	0	1	0	0	0	6102	884	31	2	124	2	FUT10	8	33230216	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	5583721	33230216	113133806	120	61798										
SNAI2	6591	broad.mit.edu	37	chr8	49832654	49832654	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	agctgcttatgtttggccagCccagaaaaagttgaataggt	11	7	0	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:49832654C>T	uc003xqp.2	-	2	590	c.426G>A	c.(424-426)GGG>GGA	p.G142G		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	142	C2H2-type 1.				canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				GTTTGGCCAGCCCAGAAAAAG	0.448													180	295	---	---	---	---	PASS	T	49832654	T	T	49832654	2	4	173	1	0	0	0	0	0	0	0	1	14827	726	26	3		3	SNAI2	8	49832654	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	16602438	49832654	96531368	121	61799										
ASPH	444	broad.mit.edu	37	chr8	62430122	62430122	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	catcgaatcttgcagccttcCttgggaatcaccaagcccag	8	14	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:62430122C>T	uc003xuj.2	-	24	2360	c.2091G>A	c.(2089-2091)AAG>AAA	p.K697K	ASPH_uc011leg.1_Silent_p.K668K	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	697	Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	TGCAGCCTTCCTTGGGAATCA	0.527													88	139	---	---	---	---	PASS	T	62430122	T	T	62430122	2	4	173	1	0	0	0	0	0	0	0	1	1053	680	24	3		3	ASPH	8	62430122	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	12597468	62430122	83933900	122	61800										
SGK3	23678	broad.mit.edu	37	chr8	67753278	67753278	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gggacatgttgtcttaacagAttttgggctttgtaaagaag	12	4	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:67753278A>G	uc003xwr.2	+	13	1210	c.911A>G	c.(910-912)GAT>GGT	p.D304G	SGK3_uc003xwp.2_Missense_Mutation_p.D298G|SGK3_uc003xwt.2_Missense_Mutation_p.D304G|SGK3_uc003xwu.2_Missense_Mutation_p.D304G	NM_001033578	NP_001028750	Q96BR1	SGK3_HUMAN	serum/glucocorticoid regulated kinase 3 isoform	304	Protein kinase.				cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GTCTTAACAGATTTTGGGCTT	0.303													13	80	---	---	---	---	PASS	G	67753278	G	G	67753278	3	3	173	1	0	0	0	0	1	0	0	0	14212	333	12	5	957	5	SGK3	8	67753278	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	5323156	67753278	78610744	123	61801										
SLC7A13	157724	broad.mit.edu	37	chr8	87229738	87229738	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttgggttcctggtatctccgCcttagtattcctatcattaa	7	10	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:87229738C>A	uc003ydq.1	-	3	1238	c.1140G>T	c.(1138-1140)AGG>AGT	p.R380S	SLC7A13_uc003ydr.1_Missense_Mutation_p.R371S	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	380	Cytoplasmic (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						GGTATCTCCGCCTTAGTATTC	0.294													6	13	---	---	---	---	PASS	A	87229738	A	A	87229738	3	1	173	1	0	0	0	0	1	0	0	0	14695	738	26	3	280	3	SLC7A13	8	87229738	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	19476460	87229738	59134284	124	61802										
PTDSS1	9791	broad.mit.edu	37	chr8	97318741	97318741	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ccagtcatccattaagttggGgtagaattctctttattggt	9	7	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:97318741G>T	uc003yht.1	+	8	1066	c.964G>T	c.(964-966)GGT>TGT	p.G322C	PTDSS1_uc003yhu.1_Missense_Mutation_p.G176C	NM_014754	NP_055569	P48651	PTSS1_HUMAN	phosphatidylserine synthase 1	322	Helical; (Potential).				phosphatidylserine biosynthetic process	integral to membrane	transferase activity			ovary(1)	1	Breast(36;6.18e-05)				Phosphatidylserine(DB00144)	ATTAAGTTGGGGTAGAATTCT	0.418													13	412	---	---	---	---	PASS	T	97318741	T	T	97318741	3	4	173	1	0	0	0	0	1	0	0	0	12736	1232	43	3	994	3	PTDSS1	8	97318741	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	10089003	97318741	49045281	125	61803										
CSMD3	114788	broad.mit.edu	37	chr8	113301698	113301698	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgcaggaatagtgaacagtaGacccaaaagtatacttctcg	9	8	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:113301698G>A	uc003ynu.2	-	57	9203	c.9044C>T	c.(9043-9045)TCT>TTT	p.S3015F	CSMD3_uc003yns.2_Missense_Mutation_p.S2217F|CSMD3_uc003ynt.2_Missense_Mutation_p.S2975F|CSMD3_uc011lhx.1_Missense_Mutation_p.S2846F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3015	Sushi 21.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GTGAACAGTAGACCCAAAAGT	0.423										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			52	68	---	---	---	---	PASS	A	113301698	A	A	113301698	3	1	173	1	0	0	0	0	1	0	0	0	3946	942	33	2	2139	2	CSMD3	8	113301698	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	15982957	113301698	33062324	126	61804										
ZHX2	22882	broad.mit.edu	37	chr8	123964048	123964048	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tcacggagcatgtcgacatgCagcatcccaacgtgattctc	9	13	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:123964048C>A	uc003ypk.1	+	3	865	c.298C>A	c.(298-300)CAG>AAG	p.Q100K		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	100	C2H2-type 1.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			TGTCGACATGCAGCATCCCAA	0.498													5	223	---	---	---	---	PASS	A	123964048	A	A	123964048	3	1	173	1	0	0	0	0	1	0	0	0	17673	711	25	3	300	3	ZHX2	8	123964048	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	10662350	123964048	22399974	127	61805										
ZHX2	22882	broad.mit.edu	37	chr8	123964939	123964939	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gctcccccatcacacttgccGtggcaggagtcaccaaccat	8	17	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:123964939G>A	uc003ypk.1	+	3	1756	c.1189G>A	c.(1189-1191)GTG>ATG	p.V397M		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	397	Required for interaction with NFYA.|Required for repressor activity.|Required for nuclear localization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			CACACTTGCCGTGGCAGGAGT	0.632													30	151	---	---	---	---	PASS	A	123964939	A	A	123964939	3	1	173	1	0	0	0	0	1	0	0	0	17673	1145	40	1	1191	1	ZHX2	8	123964939	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	891	123964939	22399083	128	61806										
ADCY8	114	broad.mit.edu	37	chr8	132051973	132051973	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtccatgggggccgaggccaGgctcaagtgtaggaccaaga	16	10	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:132051973G>A	uc003ytd.3	-	1	863	c.607C>T	c.(607-609)CTG>TTG	p.L203L	ADCY8_uc010mds.2_Silent_p.L203L	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	203	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GCCGAGGCCAGGCTCAAGTGT	0.587										HNSCC(32;0.087)			69	126	---	---	---	---	PASS	A	132051973	A	A	132051973	2	1	173	1	0	0	0	0	0	0	0	1	300	991	35	3		3	ADCY8	8	132051973	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	8087034	132051973	14312049	129	61807										
ZFAT	57623	broad.mit.edu	37	chr8	135613997	135613997	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	acagccatgttctgcccttcCcctagggggctctgggcgcc	12	16	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:135613997C>A	uc003yup.2	-	6	2140	c.1965G>T	c.(1963-1965)GGG>GGT	p.G655G	ZFAT_uc003yun.2_Silent_p.G643G|ZFAT_uc003yuo.2_Silent_p.G643G|ZFAT_uc010meh.2_Silent_p.G643G|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Silent_p.G643G|ZFAT_uc010mej.2_Silent_p.G593G|ZFAT_uc003yur.2_Silent_p.G643G	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	655					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			TCTGCCCTTCCCCTAGGGGGC	0.597													74	137	---	---	---	---	PASS	A	135613997	A	A	135613997	2	1	173	1	0	0	0	0	0	0	0	1	17629	610	22	3		3	ZFAT	8	135613997	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	3562024	135613997	10750025	130	61808										
FAM135B	51059	broad.mit.edu	37	chr8	139151265	139151265	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttggtagaggaaacatttgcGcaaatcagcattatccctga	9	8	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr8:139151265G>C	uc003yuy.2	-	18	4036	c.3865C>G	c.(3865-3867)CGC>GGC	p.R1289G	FAM135B_uc003yux.2_Missense_Mutation_p.R1190G|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1289										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)			AAACATTTGCGCAAATCAGCA	0.423										HNSCC(54;0.14)			54	147	---	---	---	---	PASS	C	139151265	C	C	139151265	3	2	173	1	0	0	0	0	1	0	0	0	5449	1087	38	4	367	4	FAM135B	8	139151265	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	3537268	139151265	7212757	131	61809										
IFNA16	3449	broad.mit.edu	37	chr9	21217288	21217288	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ccagcacggccatcagtaaaGaaaaggacagggccattggg	13	10	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr9:21217288G>C	uc003zor.1	-	1	23	c.17C>G	c.(16-18)TCT>TGT	p.S6C	IFNA14_uc003zoo.1_Intron	NM_002173	NP_002164	P05015	IFN16_HUMAN	interferon, alpha 16 precursor	6					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			skin(1)	1				Lung(24;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		CATCAGTAAAGAAAAGGACAG	0.488													32	78	---	---	---	---	PASS	C	21217288	C	C	21217288	3	2	173	1	0	0	0	0	1	0	0	0	7535	942	33	2	556	2	IFNA16	9	21217288	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08		21217288	119996143	132	61810										
KIAA1539	80256	broad.mit.edu	37	chr9	35107389	35107389	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttggcttaccaaaacaggctCtttgggcccaggcagcaggt	12	11	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr9:35107389C>A	uc003zwl.2	-	3	1208	c.883G>T	c.(883-885)GAG>TAG	p.E295*	KIAA1539_uc003zwm.2_Nonsense_Mutation_p.E295*|KIAA1539_uc003zwn.2_5'UTR|KIAA1539_uc003zwo.2_Nonsense_Mutation_p.E295*|KIAA1539_uc003zwp.1_Nonsense_Mutation_p.E295*|KIAA1539_uc010mkk.1_RNA	NM_025182	NP_079458	Q7L5A3	K1539_HUMAN	hypothetical protein LOC80256	295						nucleus				ovary(2)	2	all_epithelial(49;0.217)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			AAAACAGGCTCTTTGGGCCCA	0.413													8	613	---	---	---	---	PASS	A	35107389	A	A	35107389	4	1	173	1	0	0	0	0	0	1	0	0	8242	922	32	2	761	2	KIAA1539	9	35107389	Nonsense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	13890101	35107389	106106042	133	61811										
ALDH1B1	219	broad.mit.edu	37	chr9	38396346	38396346	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggaaacttgccccggcactcGccacaggcaacactgtggtt	11	14	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr9:38396346G>A	uc004aay.2	+	2	713	c.601G>A	c.(601-603)GCC>ACC	p.A201T		NM_000692	NP_000683	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1B1 precursor	201					carbohydrate metabolic process	mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity			skin(1)	1				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)	NADH(DB00157)	CCCGGCACTCGCCACAGGCAA	0.597													13	443	---	---	---	---	PASS	A	38396346	A	A	38396346	3	1	173	1	0	0	0	0	1	0	0	0	493	1087	38	1	603	1	ALDH1B1	9	38396346	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	3288957	38396346	102817085	134	61812										
C9orf79	286234	broad.mit.edu	37	chr9	90501261	90501261	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	catccttcccggggttgtcaCcagccctgagctcccagagc	10	17	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr9:90501261C>G	uc004app.3	+	4	1894	c.1859C>G	c.(1858-1860)ACC>AGC	p.T620S	C9orf79_uc004apo.1_Missense_Mutation_p.T432S	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	620						integral to membrane				ovary(3)	3						GGGGTTGTCACCAGCCCTGAG	0.642													5	193	---	---	---	---	PASS	G	90501261	G	G	90501261	3	3	173	1	0	0	0	0	1	0	0	0	2497	507	18	4	1873	4	C9orf79	9	90501261	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	52104915	90501261	50712170	135	61813										
ALG2	85365	broad.mit.edu	37	chr9	101984110	101984110	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	agcgccgcccacgcccaggtCtgggtggaggaacagcaccg	15	15	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr9:101984110C>A	uc004azf.2	-	1	137	c.67G>T	c.(67-69)GAC>TAC	p.D23Y	ALG2_uc004azg.2_5'UTR|SEC61B_uc004azh.2_5'Flank	NM_033087	NP_149078	Q9H553	ALG2_HUMAN	alpha-1,3-mannosyltransferase ALG2	23					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in endoplasmic reticulum|protein N-linked glycosylation via asparagine|response to calcium ion	endoplasmic reticulum membrane|integral to membrane|membrane fraction|nucleus|perinuclear region of cytoplasm	alpha-1,3-mannosyltransferase activity|calcium-dependent protein binding|glycolipid 3-alpha-mannosyltransferase activity|protein anchor|protein heterodimerization activity|protein N-terminus binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.0559)				ACGCCCAGGTCTGGGTGGAGG	0.711													6	31	---	---	---	---	PASS	A	101984110	A	A	101984110	3	1	173	1	0	0	0	0	1	0	0	0	519	913	32	2	1191	2	ALG2	9	101984110	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	11482849	101984110	39229321	136	61814										
KIAA0368	23392	broad.mit.edu	37	chr9	114246723	114246723	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cccgccctgcgcctcccgccGaacttctcggccccggcgct	10	23	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr9:114246723G>A	uc004bfe.1	-	2	190	c.190C>T	c.(190-192)CGG>TGG	p.R64W	KIAA0368_uc010muc.1_5'Flank	NM_001080398	NP_001073867			KIAA0368 protein												0						GCCTCCCGCCGAACTTCTCGG	0.692													10	13	---	---	---	---	PASS	A	114246723	A	A	114246723	3	1	173	1	0	0	0	0	1	0	0	0	8171	1057	37	2	6063	2	KIAA0368	9	114246723	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	12262613	114246723	26966708	137	61815										
CAMSAP1	157922	broad.mit.edu	37	chr9	138715863	138715863	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atcaactcgggtcaaagaatTcgatcgatgtcgctgatctg	10	9	3	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr9:138715863T>A	uc004cgr.3	-	10	1333	c.1333A>T	c.(1333-1335)AAT>TAT	p.N445Y	CAMSAP1_uc004cgq.3_Missense_Mutation_p.N335Y|CAMSAP1_uc010nbg.2_Missense_Mutation_p.N167Y	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	445						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		GTCAAAGAATTCGATCGATGT	0.418													3	3	---	---	---	---	PASS	A	138715863	A	A	138715863	3	1	173	1	0	0	0	0	1	0	0	0	2611	1783	62	5	3507	5	CAMSAP1	9	138715863	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	24469140	138715863	2497568	138	61816										
CUBN	8029	broad.mit.edu	37	chr10	17157571	17157571	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tttggatgcacactggggtcCgtacgtctcaggtgggcagt	15	9	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr10:17157571C>G	uc001ioo.2	-	7	671	c.619G>C	c.(619-621)GGA>CGA	p.G207R		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	207	EGF-like 2; calcium-binding (Potential).				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)	CACTGGGGTCCGTACGTCTCA	0.522													80	71	---	---	---	---	PASS	G	17157571	G	G	17157571	3	3	173	1	0	0	0	0	1	0	0	0	4051	661	23	4	10496	4	CUBN	10	17157571	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08		17157571	118377176	139	61817										
LYZL1	84569	broad.mit.edu	37	chr10	29578106	29578106	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tggagcagtgtttcttccgcAgactcaactgagaagtcagc	11	10	3	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr10:29578106A>T	uc001iul.2	+	1	117	c.60A>T	c.(58-60)GCA>GCT	p.A20A		NM_032517	NP_115906	Q6UWQ5	LYZL1_HUMAN	lysozyme-like 1	Error:Variant_position_missing_in_Q6UWQ5_after_alignment					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Breast(68;0.203)				TTTCTTCCGCAGACTCAACTG	0.522													21	16	---	---	---	---	PASS	T	29578106	T	T	29578106	2	4	173	1	0	0	0	0	0	0	0	1	9131	175	7	5		5	LYZL1	10	29578106	Silent	SNP	A	TCGA-66-2800-01A-01D-1267-08	12420535	29578106	105956641	140	61818										
SGPL1	8879	broad.mit.edu	37	chr10	72619134	72619134	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcatttttttgcaggcttatGgagattttgcatggagtaac	11	5	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr10:72619134G>C	uc001jrm.2	+	7	715	c.493G>C	c.(493-495)GGA>CGA	p.G165R		NM_003901	NP_003892	O95470	SGPL1_HUMAN	sphingosine-1-phosphate lyase 1	165	Cytoplasmic (Potential).				apoptosis|carboxylic acid metabolic process|ceramide metabolic process|sphingolipid catabolic process	integral to endoplasmic reticulum membrane	carboxy-lyase activity|pyridoxal phosphate binding|sphinganine-1-phosphate aldolase activity				0					Pyridoxal Phosphate(DB00114)	GCAGGCTTATGGAGATTTTGC	0.408													30	17	---	---	---	---	PASS	C	72619134	C	C	72619134	3	2	173	1	0	0	0	0	1	0	0	0	14218	1349	47	4	515	4	SGPL1	10	72619134	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	43041028	72619134	62915613	141	61819										
ARL3	403	broad.mit.edu	37	chr10	104445666	104445666	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	agtccttctgcaatttcagaGgcaggggctgctgtgagcaa	13	9	2	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr10:104445666G>A	uc001kwa.2	-	5	566	c.408C>T	c.(406-408)GCC>GCT	p.A136A		NM_004311	NP_004302	P36405	ARL3_HUMAN	ADP-ribosylation factor-like 3	136					cell cycle|cytokinesis|small GTPase mediated signal transduction	centrosome|cytoplasmic microtubule|Golgi membrane|midbody|nucleus|photoreceptor connecting cilium|spindle microtubule	GDP binding|GTP binding|metal ion binding|microtubule binding				0		Colorectal(252;0.122)		Epithelial(162;4.88e-09)|all cancers(201;1.29e-07)|BRCA - Breast invasive adenocarcinoma(275;0.22)		CAATTTCAGAGGCAGGGGCTG	0.502													6	163	---	---	---	---	PASS	A	104445666	A	A	104445666	2	1	173	1	0	0	0	0	0	0	0	1	935	987	35	3		3	ARL3	10	104445666	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	31826532	104445666	31089081	142	61820										
OR51F2	119694	broad.mit.edu	37	chr11	4842815	4842815	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtttgtggtcctctgtgaacGgagcctccataagcctatgt	11	10	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:4842815G>C	uc010qyn.1	+	1	200	c.200G>C	c.(199-201)CGG>CCG	p.R67P		NM_001004753	NP_001004753	Q8NH61	O51F2_HUMAN	olfactory receptor, family 51, subfamily F,	67	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTCTGTGAACGGAGCCTCCAT	0.478													10	402	---	---	---	---	PASS	C	4842815	C	C	4842815	3	2	173	1	0	0	0	0	1	0	0	0	11097	1116	39	4	202	4	OR51F2	11	4842815	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08		4842815	130163701	143	61821										
OR51I2	390064	broad.mit.edu	37	chr11	5475618	5475618	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gccaagacaaaggaaatccgCcgagccattttccgcatgtt	9	12	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:5475618C>A	uc010qzf.1	+	1	900	c.900C>A	c.(898-900)CGC>CGA	p.R300R	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004754	NP_001004754	Q9H344	O51I2_HUMAN	olfactory receptor, family 51, subfamily I,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.09e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGGAAATCCGCCGAGCCATTT	0.438													84	81	---	---	---	---	PASS	A	5475618	A	A	5475618	2	1	173	1	0	0	0	0	0	0	0	1	11101	726	26	3		3	OR51I2	11	5475618	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	632803	5475618	129530898	144	61822										
ST5	6764	broad.mit.edu	37	chr11	8751700	8751700	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gggttcacagcgggatcgagGgaactcttcgatggcagccg	16	10	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:8751700G>A	uc001mgt.2	-	3	1323	c.1137C>T	c.(1135-1137)TCC>TCT	p.S379S	ST5_uc009yfr.2_Intron|ST5_uc001mgu.2_Intron|ST5_uc001mgv.2_Silent_p.S379S|ST5_uc010rbq.1_Intron|ST5_uc001mgw.1_Silent_p.S379S	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	379	Pro-rich.				positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		CGGGATCGAGGGAACTCTTCG	0.602													12	203	---	---	---	---	PASS	A	8751700	A	A	8751700	2	1	173	1	0	0	0	0	0	0	0	1	15219	1219	43	3		3	ST5	11	8751700	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	3276082	8751700	126254816	145	61823										
OR4C12	283093	broad.mit.edu	37	chr11	50003668	50003668	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtagttcagaggtttgcagaTggccacatagcagtcacagg	13	8	2	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:50003668T>C	uc010ria.1	-	1	370	c.370A>G	c.(370-372)ATC>GTC	p.I124V		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GGTTTGCAGATGGCCACATAG	0.493													76	299	---	---	---	---	PASS	C	50003668	C	C	50003668	3	2	173	1	0	0	0	0	1	0	0	0	11046	1464	51	5	563	5	OR4C12	11	50003668	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	41251968	50003668	85002848	146	61824										
OR5L2	26338	broad.mit.edu	37	chr11	55594695	55594695	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atcctgcataaattggagacAtgggcaaggaaaactgcacc	10	9	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:55594695A>T	uc001nhy.1	+	1	1	c.1A>T	c.(1-3)ATG>TTG	p.M1L		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				AATTGGAGACATGGGCAAGGA	0.393										HNSCC(27;0.073)			11	371	---	---	---	---	PASS	T	55594695	T	T	55594695	3	4	173	1	0	0	0	0	1	0	0	0	11171	231	8	5	3	5	OR5L2	11	55594695	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	5591027	55594695	79411821	147	61825										
OR8J3	81168	broad.mit.edu	37	chr11	55904489	55904489	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	agcgcaggtggaaaaggcttTtttccttccttctggtgaac	11	9	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:55904489T>C	uc010riz.1	-	1	706	c.706A>G	c.(706-708)AAA>GAA	p.K236E		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					GAAAAGGCTTTTTTCCTTCCT	0.393													11	70	---	---	---	---	PASS	C	55904489	C	C	55904489	3	2	173	1	0	0	0	0	1	0	0	0	11242	1850	64	5	243	5	OR8J3	11	55904489	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	309794	55904489	79102027	148	61826										
OR5M10	390167	broad.mit.edu	37	chr11	56344385	56344385	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	taaaagactgcaattattttGgactcctctacagacttctc	5	10	2	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:56344385G>A	uc001niz.1	-	1	813	c.813C>T	c.(811-813)TCC>TCT	p.S271S		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	271	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CAATTATTTTGGACTCCTCTA	0.413													7	423	---	---	---	---	PASS	A	56344385	A	A	56344385	2	1	173	1	0	0	0	0	0	0	0	1	11173	1335	47	3		3	OR5M10	11	56344385	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	439896	56344385	78662131	149	61827										
OR5M1	390168	broad.mit.edu	37	chr11	56380583	56380583	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttcttggacatcctggaactGtaatgcaaagggctgcaaat	10	8	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:56380583G>A	uc001nja.1	-	1	396	c.396C>T	c.(394-396)TAC>TAT	p.Y132Y		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	132	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TCCTGGAACTGTAATGCAAAG	0.458													25	127	---	---	---	---	PASS	A	56380583	A	A	56380583	2	1	173	1	0	0	0	0	0	0	0	1	11172	1372	48	3		3	OR5M1	11	56380583	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	36198	56380583	78625933	150	61828										
NRXN2	9379	broad.mit.edu	37	chr11	64434732	64434732	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcctcctgaccttttcgcccAtccctctggaagtccacgtg	8	17	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:64434732A>G	uc001oar.2	-	10	2227	c.1788T>C	c.(1786-1788)GAT>GAC	p.D596D	NRXN2_uc001oas.2_Silent_p.D565D|NRXN2_uc001oaq.2_Silent_p.D263D	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CTTTTCGCCCATCCCTCTGGA	0.592													30	129	---	---	---	---	PASS	G	64434732	G	G	64434732	2	3	173	1	0	0	0	0	0	0	0	1	10666	214	8	5		5	NRXN2	11	64434732	Silent	SNP	A	TCGA-66-2800-01A-01D-1267-08	8054149	64434732	70571784	151	61829										
MRGPRD	116512	broad.mit.edu	37	chr11	68748336	68748336	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atgctgttgcctgccatcccGcacaggcaggtgaacatggc	12	13	0	1	rs148272462		TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:68748336G>A	uc010rqf.1	-	1	120	c.120C>T	c.(118-120)TGC>TGT	p.C40C		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	40	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CTGCCATCCCGCACAGGCAGG	0.602													4	138	---	---	---	---	PASS	A	68748336	A	A	68748336	2	1	173	1	0	0	0	0	0	0	0	1	9763	1079	38	1		1	MRGPRD	11	68748336	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	4313604	68748336	66258180	152	61830										
NUMA1	4926	broad.mit.edu	37	chr11	71726893	71726893	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctactgcttagctgctccacCtggtggcggaggccctggga	14	13	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:71726893C>A	uc001orl.1	-	15	1828	c.1656G>T	c.(1654-1656)CAG>CAT	p.Q552H	NUMA1_uc009ysw.1_Missense_Mutation_p.Q115H|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.Q552H|NUMA1_uc001orn.2_Missense_Mutation_p.Q115H|NUMA1_uc009ysx.1_Missense_Mutation_p.Q552H|NUMA1_uc001oro.1_Missense_Mutation_p.Q552H	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	552	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						GCTGCTCCACCTGGTGGCGGA	0.602			T	RARA	APL						OREG0021187	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	132	585	---	---	---	---	PASS	A	71726893	A	A	71726893	3	1	173	1	0	0	0	0	1	0	0	0	10750	680	24	3	4743	3	NUMA1	11	71726893	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	2978557	71726893	63279623	153	61831										
C2CD3	26005	broad.mit.edu	37	chr11	73849786	73849786	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgaaagaagatccttggtagGgaggttgtttgaagaaagaa	14	2	0	6			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:73849786G>C	uc001ouu.2	-	5	1161	c.934C>G	c.(934-936)CCT>GCT	p.P312A	C2CD3_uc001ouv.2_Missense_Mutation_p.P312A	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	312						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					TCCTTGGTAGGGAGGTTGTTT	0.423													82	79	---	---	---	---	PASS	C	73849786	C	C	73849786	3	2	173	1	0	0	0	0	1	0	0	0	2154	1232	43	4	5065	4	C2CD3	11	73849786	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	2122893	73849786	61156730	154	61832										
GDPD4	220032	broad.mit.edu	37	chr11	76980007	76980007	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tccaaagatggttggcttggGccccaaattctccttctcct	8	13	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:76980007G>T	uc001oyf.2	-	8	837	c.586C>A	c.(586-588)CCC>ACC	p.P196T		NM_182833	NP_878253	Q6W3E5	GDPD4_HUMAN	glycerophosphodiester phosphodiesterase domain	196	Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding			skin(1)	1						GTTGGCTTGGGCCCCAAATTC	0.458													225	185	---	---	---	---	PASS	T	76980007	T	T	76980007	3	4	173	1	0	0	0	0	1	0	0	0	6326	1203	42	3	1012	3	GDPD4	11	76980007	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	3130221	76980007	58026509	155	61833										
SLC36A4	120103	broad.mit.edu	37	chr11	92881946	92881946	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aggattagggccaatgtgctGctgctcacagctccaacgaa	11	11	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:92881946G>C	uc001pdn.2	-	11	1369	c.1272C>G	c.(1270-1272)AGC>AGG	p.S424R	uc001pdl.1_5'Flank|SLC36A4_uc001pdm.2_Missense_Mutation_p.S289R	NM_152313	NP_689526	Q6YBV0	S36A4_HUMAN	solute carrier family 36 (proton/amino acid	424	Helical; (Potential).				L-alanine transport|proline transport|tryptophan transport	integral to membrane	symporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CCAATGTGCTGCTGCTCACAG	0.353													46	41	---	---	---	---	PASS	C	92881946	C	C	92881946	3	2	173	1	0	0	0	0	1	0	0	0	14596	1310	46	4	246	4	SLC36A4	11	92881946	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	15901939	92881946	42124570	156	61834										
AMOTL1	154810	broad.mit.edu	37	chr11	94602404	94602404	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	accatgagcatgcctctgccCcactgctgccacccccaccc	6	22	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:94602404C>T	uc001pfb.2	+	12	2700	c.2530C>T	c.(2530-2532)CCA>TCA	p.P844S	AMOTL1_uc001pfc.2_Missense_Mutation_p.P794S	NM_130847	NP_570899	Q8IY63	AMOL1_HUMAN	angiomotin like 1	844						cytoplasm|tight junction	identical protein binding			ovary(1)|breast(1)	2		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				TGCCTCTGCCCCACTGCTGCC	0.532													21	18	---	---	---	---	PASS	T	94602404	T	T	94602404	3	4	173	1	0	0	0	0	1	0	0	0	583	623	22	3	2576	3	AMOTL1	11	94602404	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	1720458	94602404	40404112	157	61835										
ATM	472	broad.mit.edu	37	chr11	108119810	108119810	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	accttcagaagtcacagaatGattttgatcttgtgccttgg	9	8	3	4			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:108119810G>A	uc001pkb.1	+	9	1601	c.1216G>A	c.(1216-1218)GAT>AAT	p.D406N	ATM_uc009yxr.1_Missense_Mutation_p.D406N	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	406					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		GTCACAGAATGATTTTGATCT	0.343			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			18	88	---	---	---	---	PASS	A	108119810	A	A	108119810	3	1	173	1	0	0	0	0	1	0	0	0	1109	1290	45	2	1246	2	ATM	11	108119810	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	13517406	108119810	26886706	158	61836										
CLDN25	644672	broad.mit.edu	37	chr11	113650575	113650575	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggctacttctctccctccttGgctgggtctgctcctgtgtt	10	14	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:113650575G>T	uc009yyw.1	+	1	58	c.58G>T	c.(58-60)GGC>TGC	p.G20C		NM_001101389	NP_001094859	C9JDP6	CLD25_HUMAN	claudin 25	20	Helical; (Potential).					integral to membrane|tight junction	structural molecule activity				0						CTCCCTCCTTGGCTGGGTCTG	0.547													61	247	---	---	---	---	PASS	T	113650575	T	T	113650575	3	4	173	1	0	0	0	0	1	0	0	0	3485	1348	47	3	60	3	CLDN25	11	113650575	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	5530765	113650575	21355941	159	61837										
NLRX1	79671	broad.mit.edu	37	chr11	119054075	119054075	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgccacccttaatccttggcGcaaggcccagctgctgcgag	11	15	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:119054075G>A	uc001pvu.2	+	10	3070	c.2855G>A	c.(2854-2856)CGC>CAC	p.R952H	NLRX1_uc001pvv.2_Intron|NLRX1_uc001pvw.2_Missense_Mutation_p.R952H|NLRX1_uc001pvx.2_Missense_Mutation_p.R952H|PDZD3_uc001pvy.2_5'Flank|PDZD3_uc001pvz.2_5'Flank|PDZD3_uc010rzd.1_5'Flank|PDZD3_uc001pwa.2_5'Flank|PDZD3_uc001pwb.2_5'Flank	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	952	Required for the repression of MAVS- induced interferon signaling.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		AATCCTTGGCGCAAGGCCCAG	0.637													6	145	---	---	---	---	PASS	A	119054075	A	A	119054075	3	1	173	1	0	0	0	0	1	0	0	0	10485	1087	38	1	2889	1	NLRX1	11	119054075	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	5403500	119054075	15952441	160	61838										
CHEK1	1111	broad.mit.edu	37	chr11	125513737	125513737	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtgtgtcagagtctcccagtGgattttctaagcacattcaa	9	9	4	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr11:125513737G>T	uc009zbo.2	+	9	1757	c.865G>T	c.(865-867)GGA>TGA	p.G289*	CHEK1_uc010sbh.1_Nonsense_Mutation_p.G305*|CHEK1_uc010sbi.1_Nonsense_Mutation_p.G289*|CHEK1_uc001qcf.3_Nonsense_Mutation_p.G289*|CHEK1_uc009zbp.2_Nonsense_Mutation_p.G289*|CHEK1_uc001qcg.3_Nonsense_Mutation_p.G289*|CHEK1_uc009zbq.2_Nonsense_Mutation_p.G289*|CHEK1_uc001qci.1_RNA|CHEK1_uc001qcj.2_5'Flank	NM_001114122	NP_001107594	O14757	CHK1_HUMAN	checkpoint kinase 1	289					cellular response to mechanical stimulus|DNA repair|DNA replication|gamete generation|negative regulation of cell proliferation|reciprocal meiotic recombination|regulation of cyclin-dependent protein kinase activity|replicative senescence	condensed nuclear chromosome|microtubule organizing center|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|skin(1)	6	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0748)		GTCTCCCAGTGGATTTTCTAA	0.388								Other_conserved_DNA_damage_response_genes					22	39	---	---	---	---	PASS	T	125513737	T	T	125513737	4	4	173	1	0	0	0	0	0	1	0	0	3334	1349	47	3	895	3	CHEK1	11	125513737	Nonsense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	6459662	125513737	9492779	161	61839										
IQSEC3	440073	broad.mit.edu	37	chr12	280292	280292	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tcaaagccaaaagggaagccGcgctcagggagaggccggcg	16	11	2	1	rs113137859		TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:280292G>A	uc001qhw.1	+	10	2176	c.2170G>A	c.(2170-2172)GCG>ACG	p.A724T	IQSEC3_uc001qhu.1_Missense_Mutation_p.A724T	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	1027					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		AAGGGAAGCCGCGCTCAGGGA	0.622													9	183	---	---	---	---	PASS	A	280292	A	A	280292	3	1	173	1	0	0	0	0	1	0	0	0	7819	1087	38	1	3129	1	IQSEC3	12	280292	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08		280292	133571603	162	61840										
CACNA1C	775	broad.mit.edu	37	chr12	2224643	2224643	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	accacggccacacgcccgccCcgagccctgctctgcctgac	9	22	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:2224643C>A	uc009zdu.1	+	2	616	c.303C>A	c.(301-303)CCC>CCA	p.P101P	CACNA1C_uc009zdv.1_Silent_p.P101P|CACNA1C_uc001qkb.2_Silent_p.P101P|CACNA1C_uc001qkc.2_Silent_p.P101P|CACNA1C_uc001qke.2_Silent_p.P101P|CACNA1C_uc001qkf.2_Silent_p.P101P|CACNA1C_uc001qjz.2_Silent_p.P101P|CACNA1C_uc001qkd.2_Silent_p.P101P|CACNA1C_uc001qkg.2_Silent_p.P101P|CACNA1C_uc009zdw.1_Silent_p.P101P|CACNA1C_uc001qkh.2_Silent_p.P101P|CACNA1C_uc001qkl.2_Silent_p.P101P|CACNA1C_uc001qkn.2_Silent_p.P101P|CACNA1C_uc001qko.2_Silent_p.P101P|CACNA1C_uc001qkp.2_Silent_p.P101P|CACNA1C_uc001qkr.2_Silent_p.P101P|CACNA1C_uc001qku.2_Silent_p.P101P|CACNA1C_uc001qkq.2_Silent_p.P101P|CACNA1C_uc001qks.2_Silent_p.P101P|CACNA1C_uc001qkt.2_Silent_p.P101P	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	101	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity	p.A101E(1)		ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CACGCCCGCCCCGAGCCCTGC	0.617													55	17	---	---	---	---	PASS	A	2224643	A	A	2224643	2	1	173	1	0	0	0	0	0	0	0	1	2540	610	22	3		3	CACNA1C	12	2224643	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	1944351	2224643	131627252	163	61841										
EFCAB4B	84766	broad.mit.edu	37	chr12	3763445	3763445	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	caactgctgctgagcatcctGgagctcccaggaagtccgct	11	14	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:3763445G>A	uc001qmj.2	-	10	1551	c.979C>T	c.(979-981)CAG>TAG	p.Q327*	EFCAB4B_uc010sen.1_Nonsense_Mutation_p.Q327*|EFCAB4B_uc010seo.1_Nonsense_Mutation_p.Q327*|EFCAB4B_uc001qmi.1_RNA	NM_032680	NP_116069	Q9BSW2	EFC4B_HUMAN	EF-hand calcium binding domain 4B isoform c	327	Potential.				activation of store-operated calcium channel activity|store-operated calcium entry	cytoplasm	calcium ion binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.00287)|COAD - Colon adenocarcinoma(12;0.0264)			TGAGCATCCTGGAGCTCCCAG	0.562													9	158	---	---	---	---	PASS	A	3763445	A	A	3763445	4	1	173	1	0	0	0	0	0	1	0	0	4937	1357	47	3	1452	3	EFCAB4B	12	3763445	Nonsense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	1538802	3763445	130088450	164	61842										
GPRC5A	9052	broad.mit.edu	37	chr12	13061273	13061273	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gctgaagcttggggcatcgtCctagaaacggtggccacagc	14	11	0	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:13061273C>T	uc001rba.2	+	2	740	c.90C>T	c.(88-90)GTC>GTT	p.V30V	GPRC5A_uc001raz.2_Silent_p.V30V	NM_003979	NP_003970	Q8NFJ5	RAI3_HUMAN	G protein-coupled receptor, family C, group 5,	30	Extracellular (Potential).					cytoplasmic vesicle membrane|Golgi apparatus|integral to plasma membrane	G-protein coupled receptor activity				0		Prostate(47;0.141)		BRCA - Breast invasive adenocarcinoma(232;0.0708)	Tretinoin(DB00755)	GGGGCATCGTCCTAGAAACGG	0.552													144	62	---	---	---	---	PASS	T	13061273	T	T	13061273	2	4	173	1	0	0	0	0	0	0	0	1	6724	842	30	2		2	GPRC5A	12	13061273	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	9297828	13061273	120790622	165	61843										
KIAA0528	9847	broad.mit.edu	37	chr12	22676469	22676469	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tcgcaccactaacccagactCgccctccagatcgaaacact	5	18	0	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:22676469C>A	uc001rfq.2	-	7	919	c.691G>T	c.(691-693)GAG>TAG	p.E231*	KIAA0528_uc010sir.1_Nonsense_Mutation_p.E33*|KIAA0528_uc010sis.1_Nonsense_Mutation_p.E231*|KIAA0528_uc010sit.1_Nonsense_Mutation_p.E231*|KIAA0528_uc010siu.1_Nonsense_Mutation_p.E231*|KIAA0528_uc001rfr.2_Nonsense_Mutation_p.E231*|KIAA0528_uc009ziy.1_Nonsense_Mutation_p.E231*	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	231							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						AACCCAGACTCGCCCTCCAGA	0.473													86	55	---	---	---	---	PASS	A	22676469	A	A	22676469	4	1	173	1	0	0	0	0	0	1	0	0	8182	893	31	2	2387	2	KIAA0528	12	22676469	Nonsense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	9615196	22676469	111175426	166	61844										
COL2A1	1280	broad.mit.edu	37	chr12	48390401	48390401	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atcctccagccatctgggcaGcaaagttctgcaaagaaacc	8	13	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:48390401G>A	uc001rqu.2	-	8	720	c.539C>T	c.(538-540)GCT>GTT	p.A180V	COL2A1_uc001rqv.2_Missense_Mutation_p.A111V	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	180					axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CATCTGGGCAGCAAAGTTCTG	0.468													6	806	---	---	---	---	PASS	A	48390401	A	A	48390401	3	1	173	1	0	0	0	0	1	0	0	0	3687	971	34	3	4112	3	COL2A1	12	48390401	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	25713932	48390401	85461494	167	61845										
NUP107	57122	broad.mit.edu	37	chr12	69126449	69126449	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aaaattgatgtaattgactgGttggtatttgacccagcgca	10	6	0	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:69126449G>T	uc001suf.2	+	23	2146	c.2031G>T	c.(2029-2031)TGG>TGT	p.W677C	NUP107_uc001sug.2_Missense_Mutation_p.W436C|NUP107_uc010stj.1_Missense_Mutation_p.W648C	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	677					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			TAATTGACTGGTTGGTATTTG	0.289													43	58	---	---	---	---	PASS	T	69126449	T	T	69126449	3	4	173	1	0	0	0	0	1	0	0	0	10753	1270	44	3	2121	3	NUP107	12	69126449	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	20736048	69126449	64725446	168	61846										
CNOT2	4848	broad.mit.edu	37	chr12	70731262	70731262	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	accaggctccagctataaagAtccaacatcaagtaatgatg	7	10	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:70731262A>C	uc001svv.2	+	9	1448	c.869A>C	c.(868-870)GAT>GCT	p.D290A	CNOT2_uc009zro.2_Missense_Mutation_p.D290A|CNOT2_uc009zrp.2_Missense_Mutation_p.D270A|CNOT2_uc009zrq.2_Missense_Mutation_p.D290A|CNOT2_uc001svw.1_Missense_Mutation_p.D30A	NM_014515	NP_055330	Q9NZN8	CNOT2_HUMAN	CCR4-NOT transcription complex, subunit 2	290					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	protein binding|RNA polymerase II transcription cofactor activity				0	Renal(347;0.236)		GBM - Glioblastoma multiforme(1;4.77e-09)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			AGCTATAAAGATCCAACATCA	0.353													12	57	---	---	---	---	PASS	C	70731262	C	C	70731262	3	2	173	1	0	0	0	0	1	0	0	0	3619	333	12	5	899	5	CNOT2	12	70731262	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	1604813	70731262	63120633	169	61847										
ACSS3	79611	broad.mit.edu	37	chr12	81545793	81545793	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tttttaggtgtggtgggcagCttctgacttaggctgggttg	16	5	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:81545793C>T	uc001szl.1	+	7	1107	c.1016C>T	c.(1015-1017)GCT>GTT	p.A339V	ACSS3_uc001szm.1_Missense_Mutation_p.A338V|ACSS3_uc001szn.1_Missense_Mutation_p.A21V	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	339						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TGGTGGGCAGCTTCTGACTTA	0.333													28	33	---	---	---	---	PASS	T	81545793	T	T	81545793	3	4	173	1	0	0	0	0	1	0	0	0	190	797	28	3	1042	3	ACSS3	12	81545793	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	10814531	81545793	52306102	170	61848										
PMCH	5367	broad.mit.edu	37	chr12	102591380	102591381	+	Frame_Shift_Ins	INS	-	T	T													0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	agggaaggagcaataactgaINStttttctgcagtgtcttcct							TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:102591380_102591381insT	uc001tjl.2	-	1	234_235	c.168_169insA	c.(166-171)AAATCAfs	p.K56fs		NM_002674	NP_002665	P20382	MCH_HUMAN	pro-melanin-concentrating hormone	56_57					cell differentiation|neuropeptide signaling pathway|spermatogenesis|synaptic transmission		melanin-concentrating hormone activity				0						GCAATAACTGATTTTTCTGCAG	0.366													39	27	---	---	---	---		T	102591381	T	T	102591380	7	5	173	1	0	1	1	0	0	0	0	0	12131	333	12	0	340	0	PMCH	12	102591380	Frame_Shift_Ins	INS	-	TCGA-66-2800-01A-01D-1267-08	21045587	102591380	31260515	171	61849										
HSPB8	26353	broad.mit.edu	37	chr12	119617322	119617322	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcaccctaaggtcgggcatgGtgccccggggccccactgcc	14	17	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:119617322G>T	uc001txb.2	+	1	728	c.205G>T	c.(205-207)GTG>TTG	p.V69L	HSPB8_uc001txc.2_Missense_Mutation_p.V69L	NM_014365	NP_055180	Q9UJY1	HSPB8_HUMAN	heat shock 22kDa protein 8	69					cell death|response to heat	cytoplasm|nucleus	identical protein binding|protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GTCGGGCATGGTGCCCCGGGG	0.682													78	75	---	---	---	---	PASS	T	119617322	T	T	119617322	3	4	173	1	0	0	0	0	1	0	0	0	7423	1261	44	3	207	3	HSPB8	12	119617322	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	17025942	119617322	14234573	172	61850										
ANAPC5	51433	broad.mit.edu	37	chr12	121773465	121773465	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gacgatcaaaataatggaggAgactgtgtgttgaactgaaa	12	4	1	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:121773465A>G	uc001uag.2	-	7	943	c.821T>C	c.(820-822)CTC>CCC	p.L274P	ANAPC5_uc001uae.2_5'UTR|ANAPC5_uc010szv.1_5'UTR|ANAPC5_uc001uaf.2_RNA|ANAPC5_uc001uah.2_Missense_Mutation_p.L175P|ANAPC5_uc001uai.1_5'UTR	NM_016237	NP_057321	Q9UJX4	APC5_HUMAN	anaphase-promoting complex subunit 5 isoform a	274					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding|ubiquitin-protein ligase activity			skin(3)|breast(2)|kidney(1)	6	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ATAATGGAGGAGACTGTGTGT	0.413													5	211	---	---	---	---	PASS	G	121773465	G	G	121773465	3	3	173	1	0	0	0	0	1	0	0	0	605	304	11	5	1490	5	ANAPC5	12	121773465	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	2156143	121773465	12078430	173	61851										
LRRC43	254050	broad.mit.edu	37	chr12	122685401	122685401	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgatcctggagcccctgctcGccggggagcccctggtgtcc	14	16	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr12:122685401G>A	uc009zxm.2	+	10	1754	c.1729G>A	c.(1729-1731)GCC>ACC	p.A577T	LRRC43_uc001ubw.3_Missense_Mutation_p.A392T|LRRC43_uc009zxn.2_Missense_Mutation_p.A338T|B3GNT4_uc001ubx.2_5'Flank|B3GNT4_uc001uby.2_5'Flank	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	577											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		GCCCCTGCTCGCCGGGGAGCC	0.672													7	125	---	---	---	---	PASS	A	122685401	A	A	122685401	3	1	173	1	0	0	0	0	1	0	0	0	9001	1087	38	1	1767	1	LRRC43	12	122685401	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	911936	122685401	11166494	174	61852										
FAM123A	219287	broad.mit.edu	37	chr13	25745389	25745389	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ccgctgtcgcccccgccgcgCggctcctccttcctgccgct	10	23	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr13:25745389C>A	uc001uqb.2	-	1	469	c.369G>T	c.(367-369)CCG>CCT	p.P123P	FAM123A_uc001uqa.2_Silent_p.P123P|FAM123A_uc001uqc.2_Silent_p.P123P	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	123	Gly-rich.									ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		ccccgccgcGCGGCTCCTCCT	0.602													9	3	---	---	---	---	PASS	A	25745389	A	A	25745389	2	1	173	1	0	0	0	0	0	0	0	1	5422	755	27	1		1	FAM123A	13	25745389	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08		25745389	89424489	175	61853										
KL	9365	broad.mit.edu	37	chr13	33635674	33635674	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttgtagactcagaaaaagaaGatccaataaaatacaatgat	6	5	1	5			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr13:33635674G>C	uc001uus.2	+	4	2466	c.2458G>C	c.(2458-2460)GAT>CAT	p.D820H	KL_uc001uur.1_3'UTR	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	820	Glycosyl hydrolase-1 2.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		AGAAAAAGAAGATCCAATAAA	0.438													52	54	---	---	---	---	PASS	C	33635674	C	C	33635674	3	2	173	1	0	0	0	0	1	0	0	0	8331	942	33	2	2472	2	KL	13	33635674	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	7890285	33635674	81534204	176	61854										
HTR2A	3356	broad.mit.edu	37	chr13	47409423	47409423	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	agacgatgcccagcaccttgCatgccttttgctcattgctg	9	13	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr13:47409423C>T	uc001vbq.2	-	3	1099	c.965G>A	c.(964-966)TGC>TAC	p.C322Y	HTR2A_uc001vbr.2_Missense_Mutation_p.C222Y|HTR2A_uc010acr.2_Missense_Mutation_p.C322Y	NM_000621	NP_000612	P28223	5HT2A_HUMAN	5-hydroxytryptamine receptor 2A isoform 1	322	Cytoplasmic (By similarity).				ERK1 and ERK2 cascade|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	integral to plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|serotonin binding|serotonin receptor activity			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		all_lung(13;7.2e-10)|Lung NSC(96;3.77e-07)|Breast(56;2.06e-05)|Prostate(109;0.00116)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Myeloproliferative disorder(33;0.0333)		GBM - Glioblastoma multiforme(144;4.67e-05)|COAD - Colon adenocarcinoma(199;0.224)	Aripiprazole(DB01238)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cisapride(DB00604)|Clomipramine(DB01242)|Clozapine(DB00363)|Cyclobenzaprine(DB00924)|Cyproheptadine(DB00434)|Dihydroergotamine(DB00320)|Donepezil(DB00843)|Epinastine(DB00751)|Ergotamine(DB00696)|Fluvoxamine(DB00176)|Mesoridazine(DB00933)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Olanzapine(DB00334)|Paliperidone(DB01267)|Paroxetine(DB00715)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	CAGCACCTTGCATGCCTTTTG	0.512													69	46	---	---	---	---	PASS	T	47409423	T	T	47409423	3	4	173	1	0	0	0	0	1	0	0	0	7441	710	25	3	454	3	HTR2A	13	47409423	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	13773749	47409423	67760455	177	61855										
CDADC1	81602	broad.mit.edu	37	chr13	49852631	49852631	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	attcagatacatcatacatgCggaacagaatgccttgacat	7	9	2	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr13:49852631C>A	uc001vcu.2	+	7	1272	c.1196C>A	c.(1195-1197)GCG>GAG	p.A399E	CDADC1_uc010tgk.1_Missense_Mutation_p.A201E|CDADC1_uc001vcv.2_RNA	NM_030911	NP_112173	Q9BWV3	CDAC1_HUMAN	cytidine and dCMP deaminase domain containing 1	399							hydrolase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		Lung NSC(96;0.000705)|Breast(56;0.0011)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;1.06e-08)|COAD - Colon adenocarcinoma(199;0.216)		ATCATACATGCGGAACAGAAT	0.353													137	119	---	---	---	---	PASS	A	49852631	A	A	49852631	3	1	173	1	0	0	0	0	1	0	0	0	3053	768	27	1	1222	1	CDADC1	13	49852631	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	2443208	49852631	65317247	178	61856										
NALCN	259232	broad.mit.edu	37	chr13	101756667	101756667	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	agatatataaatatgtccatTactccaccgaagtccctgat	5	10	0	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr13:101756667T>A	uc001vox.1	-	25	3057	c.2868A>T	c.(2866-2868)GTA>GTT	p.V956V		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	956	Helical; Name=S3 of repeat III; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					ATATGTCCATTACTCCACCGA	0.353													43	48	---	---	---	---	PASS	A	101756667	A	A	101756667	2	1	173	1	0	0	0	0	0	0	0	1	10148	1741	61	5		5	NALCN	13	101756667	Silent	SNP	T	TCGA-66-2800-01A-01D-1267-08	51904036	101756667	13413211	179	61857										
OR11H6	122748	broad.mit.edu	37	chr14	20692373	20692373	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tggtctgtgtatgctgggtaGgcggatttctctgctatcca	13	8	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr14:20692373G>A	uc010tlc.1	+	1	505	c.505G>A	c.(505-507)GGC>AGC	p.G169S		NM_001004480	NP_001004480	Q8NGC7	O11H6_HUMAN	olfactory receptor, family 11, subfamily H,	169	Helical; Name=4; (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)		ATGCTGGGTAGGCGGATTTCT	0.493													166	324	---	---	---	---	PASS	A	20692373	A	A	20692373	3	1	173	1	0	0	0	0	1	0	0	0	10929	1000	35	3	507	3	OR11H6	14	20692373	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08		20692373	86657167	180	61858										
BAZ1A	11177	broad.mit.edu	37	chr14	35280155	35280155	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttttacctgatttgtgttgcTttaacaatagcagactcatg	7	7	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr14:35280155T>C	uc001wsk.2	-	5	1192	c.624A>G	c.(622-624)AAA>AAG	p.K208K	BAZ1A_uc001wsl.2_Silent_p.K208K|BAZ1A_uc001wsm.1_Silent_p.K208K	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	208					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		TTTGTGTTGCTTTAACAATAG	0.308													43	18	---	---	---	---	PASS	C	35280155	C	C	35280155	2	2	173	1	0	0	0	0	0	0	0	1	1329	1606	56	5		5	BAZ1A	14	35280155	Silent	SNP	T	TCGA-66-2800-01A-01D-1267-08	14587782	35280155	72069385	181	61859										
SEC23A	10484	broad.mit.edu	37	chr14	39560828	39560828	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggtaaaagacttaatgacatCtgcatggattctttcagggc	10	7	3	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr14:39560828C>G	uc001wup.1	-	5	679	c.456G>C	c.(454-456)CAG>CAC	p.Q152H	SEC23A_uc010tqa.1_Missense_Mutation_p.Q14H|SEC23A_uc010tqb.1_Missense_Mutation_p.Q123H|SEC23A_uc010tqc.1_Missense_Mutation_p.Q14H	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	152					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		TTAATGACATCTGCATGGATT	0.383													4	170	---	---	---	---	PASS	G	39560828	G	G	39560828	3	3	173	1	0	0	0	0	1	0	0	0	13991	912	32	2	1905	2	SEC23A	14	39560828	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	4280673	39560828	67788712	182	61860										
SYNE2	23224	broad.mit.edu	37	chr14	64687205	64687205	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcattagtggtctctgtcaaCgtgagcagcaaggaatttct	11	8	3	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr14:64687205C>A	uc001xgm.2	+	110	20072	c.19842C>A	c.(19840-19842)AAC>AAA	p.N6614K	SYNE2_uc001xgl.2_Missense_Mutation_p.N6637K|SYNE2_uc010apy.2_Missense_Mutation_p.N2999K|SYNE2_uc001xgn.2_Missense_Mutation_p.N1576K|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.N584K|SYNE2_uc001xgq.2_Missense_Mutation_p.N979K|SYNE2_uc001xgr.2_Missense_Mutation_p.N397K|SYNE2_uc010tsi.1_Missense_Mutation_p.N271K|SYNE2_uc001xgs.2_Missense_Mutation_p.N271K|SYNE2_uc001xgt.2_Missense_Mutation_p.N145K	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6614	Cytoplasmic (Potential).|Spectrin 9.				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)		TCTCTGTCAACGTGAGCAGCA	0.522													42	39	---	---	---	---	PASS	A	64687205	A	A	64687205	3	1	173	1	0	0	0	0	1	0	0	0	15443	535	19	1	20349	1	SYNE2	14	64687205	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	25126377	64687205	42662335	183	61861										
ITPK1	3705	broad.mit.edu	37	chr14	93424701	93424701	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tcaggccctcctggttgaacAcgatagccatctgggaagac	11	12	2	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr14:93424701A>C	uc001ybg.2	-	8	804	c.515T>G	c.(514-516)GTG>GGG	p.V172G	ITPK1_uc001ybe.2_Missense_Mutation_p.V172G|ITPK1_uc001ybf.2_Missense_Mutation_p.V53G|ITPK1_uc001ybh.2_Missense_Mutation_p.V172G	NM_014216	NP_055031	Q13572	ITPK1_HUMAN	inositol 1,3,4-triphosphate 5/6 kinase isoform	172	ATP-grasp.				blood coagulation|inositol trisphosphate metabolic process|signal transduction	cytosol	ATP binding|hydrolase activity|inositol tetrakisphosphate 1-kinase activity|inositol-1,3,4-trisphosphate 5/6-kinase activity|isomerase activity|ligase activity|magnesium ion binding				0		all_cancers(154;0.077)|all_epithelial(191;0.247)		Epithelial(152;0.124)|all cancers(159;0.169)		CTGGTTGAACACGATAGCCAT	0.562													78	41	---	---	---	---	PASS	C	93424701	C	C	93424701	3	2	173	1	0	0	0	0	1	0	0	0	7916	159	6	5	793	5	ITPK1	14	93424701	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	28737496	93424701	13924839	184	61862										
SERPINA5	5104	broad.mit.edu	37	chr14	95054287	95054287	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aacctcgatagcaatgcggtCgtgatcatggtgaattacat	10	8	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr14:95054287C>A	uc001ydm.2	+	3	798	c.588C>A	c.(586-588)GTC>GTA	p.V196V	SERPINA5_uc010ave.2_Silent_p.V196V|SERPINA5_uc001ydn.1_Silent_p.V196V	NM_000624	NP_000615	P05154	IPSP_HUMAN	serine (or cysteine) proteinase inhibitor, clade	196					fusion of sperm to egg plasma membrane|regulation of proteolysis|spermatogenesis	extracellular region|membrane|protein complex	acrosin binding|heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(2)	2				COAD - Colon adenocarcinoma(157;0.21)	Drotrecogin alfa(DB00055)|Urokinase(DB00013)	GCAATGCGGTCGTGATCATGG	0.453													5	399	---	---	---	---	PASS	A	95054287	A	A	95054287	2	1	173	1	0	0	0	0	0	0	0	1	14092	871	31	2		2	SERPINA5	14	95054287	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	1629586	95054287	12295253	185	61863										
RYR3	6263	broad.mit.edu	37	chr15	34151810	34151810	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	catgtacgtgggagtgagagCaggaggtggcattggtgatg	19	4	0	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr15:34151810C>A	uc001zhi.2	+	100	14247	c.14177C>A	c.(14176-14178)GCA>GAA	p.A4726E	RYR3_uc010bar.2_Missense_Mutation_p.A4721E	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4726	Helical; Name=M9; (Potential).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GGAGTGAGAGCAGGAGGTGGC	0.413													7	92	---	---	---	---	PASS	A	34151810	A	A	34151810	3	1	173	1	0	0	0	0	1	0	0	0	13770	710	25	3	14575	3	RYR3	15	34151810	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08		34151810	68379582	186	61864										
LTK	4058	broad.mit.edu	37	chr15	41800368	41800368	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggcagtctctcaaagggcagTgactgcagttgaggtgcctt	14	9	2	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr15:41800368T>C	uc001zoa.3	-	9	1326	c.1148A>G	c.(1147-1149)CAC>CGC	p.H383R	LTK_uc001zob.3_Missense_Mutation_p.H322R|LTK_uc010ucx.1_Missense_Mutation_p.H322R|LTK_uc010bcg.2_Missense_Mutation_p.H65R	NM_002344	NP_002335	P29376	LTK_HUMAN	leukocyte receptor tyrosine kinase isoform 1	383	Extracellular (Potential).				apoptosis|cell proliferation|phosphatidylinositol 3-kinase cascade|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|central_nervous_system(1)	7		all_cancers(109;1.89e-19)|all_epithelial(112;2.28e-16)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.172)		OV - Ovarian serous cystadenocarcinoma(18;2.1e-17)|GBM - Glioblastoma multiforme(113;1.34e-06)|Colorectal(105;0.0148)|BRCA - Breast invasive adenocarcinoma(123;0.113)		CAAAGGGCAGTGACTGCAGTT	0.532										TSP Lung(18;0.14)			76	89	---	---	---	---	PASS	C	41800368	C	C	41800368	3	2	173	1	0	0	0	0	1	0	0	0	9080	1696	59	5	1494	5	LTK	15	41800368	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	7648558	41800368	60731024	187	61865										
LIPC	3990	broad.mit.edu	37	chr15	58853108	58853108	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gttcatcaaccaaactgagaCaccaatacaaacaactttta	3	11	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr15:58853108C>A	uc010bga.1	+	9	1705	c.1097C>A	c.(1096-1098)ACA>AAA	p.T366K	LIPC_uc010bfz.1_Missense_Mutation_p.T366K|LIPC_uc002afa.1_Missense_Mutation_p.T366K|LIPC_uc010bgb.1_Missense_Mutation_p.T264K|LIPC_uc010ugy.1_Missense_Mutation_p.T305K	NM_000236	NP_000227	P11150	LIPC_HUMAN	lipase C precursor	366	PLAT.				cholesterol homeostasis|chylomicron remnant clearance|fatty acid biosynthetic process|high-density lipoprotein particle remodeling|intermediate-density lipoprotein particle remodeling|low-density lipoprotein particle remodeling|phosphatidylcholine catabolic process|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein binding|heparin binding|low-density lipoprotein particle binding|phospholipase activity|triglyceride lipase activity			ovary(1)	1		Colorectal(260;0.215)		GBM - Glioblastoma multiforme(80;0.00213)|all cancers(107;0.00548)		CAAACTGAGACACCAATACAA	0.323													12	29	---	---	---	---	PASS	A	58853108	A	A	58853108	3	1	173	1	0	0	0	0	1	0	0	0	8820	478	17	3	1123	3	LIPC	15	58853108	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	17052740	58853108	43678284	188	61866										
IGDCC3	9543	broad.mit.edu	37	chr15	65625636	65625636	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtgccgttctcctcacccggGtgccaggtctgttggctgca	13	14	3	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr15:65625636G>A	uc002aos.2	-	6	1193	c.941C>T	c.(940-942)ACC>ATC	p.T314I		NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	314	Extracellular (Potential).|Ig-like C2-type 3.									ovary(3)	3						CCTCACCCGGGTGCCAGGTCT	0.632													52	50	---	---	---	---	PASS	A	65625636	A	A	65625636	3	1	173	1	0	0	0	0	1	0	0	0	7568	1261	44	3	1539	3	IGDCC3	15	65625636	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	6772528	65625636	36905756	189	61867										
ZNF592	9640	broad.mit.edu	37	chr15	85327839	85327839	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	accacaagagcaaggggctcGtcatgcagtgttcccagctg	12	12	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr15:85327839G>A	uc002bld.2	+	4	2269	c.1933G>A	c.(1933-1935)GTC>ATC	p.V645I	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	645					cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CAAGGGGCTCGTCATGCAGTG	0.602													5	92	---	---	---	---	PASS	A	85327839	A	A	85327839	3	1	173	1	0	0	0	0	1	0	0	0	18019	1145	40	1	1935	1	ZNF592	15	85327839	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	19702203	85327839	17203553	190	61868										
TELO2	9894	broad.mit.edu	37	chr16	1545579	1545579	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	actacttccgcctgctcggcGaggaggtcgtccgggtgctg	15	13	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr16:1545579G>A	uc002cly.2	+	3	859	c.568G>A	c.(568-570)GAG>AAG	p.E190K	TELO2_uc010uvg.1_Missense_Mutation_p.E190K	NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	190						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				CCTGCTCGGCGAGGAGGTCGT	0.667													4	176	---	---	---	---	PASS	A	1545579	A	A	1545579	3	1	173	1	0	0	0	0	1	0	0	0	15754	1059	37	2	574	2	TELO2	16	1545579	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08		1545579	88809174	191	61869										
GRIN2A	2903	broad.mit.edu	37	chr16	10031933	10031933	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atgcagcggtggttaggatgCcaatgccgtccctcactctc	11	13	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr16:10031933C>A	uc002czo.3	-	3	1438	c.890G>T	c.(889-891)GGC>GTC	p.G297V	GRIN2A_uc010uym.1_Missense_Mutation_p.G297V|GRIN2A_uc010uyn.1_Missense_Mutation_p.G140V|GRIN2A_uc002czr.3_Missense_Mutation_p.G297V	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	297	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GGTTAGGATGCCAATGCCGTC	0.572													78	53	---	---	---	---	PASS	A	10031933	A	A	10031933	3	1	173	1	0	0	0	0	1	0	0	0	6779	739	26	3	3548	3	GRIN2A	16	10031933	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	8486354	10031933	80322820	192	61870										
GP2	2813	broad.mit.edu	37	chr16	20329723	20329723	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ccatcctgacaatgaactctCcattcccgtccacactgacg	5	17	1	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr16:20329723C>T	uc002dgv.2	-	8	1129	c.1046G>A	c.(1045-1047)GGA>GAA	p.G349E	GP2_uc002dgw.2_Missense_Mutation_p.G346E|GP2_uc002dgx.2_Missense_Mutation_p.G202E|GP2_uc002dgy.2_Missense_Mutation_p.G199E	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	349	ZP.					anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						AATGAACTCTCCATTCCCGTC	0.473													175	162	---	---	---	---	PASS	T	20329723	T	T	20329723	3	4	173	1	0	0	0	0	1	0	0	0	6582	855	30	2	587	2	GP2	16	20329723	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	10297790	20329723	70025030	193	61871										
ACSM2B	348158	broad.mit.edu	37	chr16	20570631	20570631	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	catcactgccacacgatcccCacgctgcaggccacaggctc	8	19	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr16:20570631C>T	uc002dhj.3	-	4	526	c.316G>A	c.(316-318)GGG>AGG	p.G106R	ACSM2B_uc002dhk.3_Missense_Mutation_p.G106R|ACSM2B_uc010bwf.1_Missense_Mutation_p.G106R	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	106					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						ACACGATCCCCACGCTGCAGG	0.562													4	86	---	---	---	---	PASS	T	20570631	T	T	20570631	3	4	173	1	0	0	0	0	1	0	0	0	184	594	21	3	1465	3	ACSM2B	16	20570631	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	240908	20570631	69784122	194	61872										
SLC5A11	115584	broad.mit.edu	37	chr16	24918057	24918057	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgttcggacatcgcgtatccCaaactcgtgctggaactcct	9	13	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr16:24918057C>A	uc002dmu.2	+	11	1318	c.1086C>A	c.(1084-1086)CCC>CCA	p.P362P	SLC5A11_uc002dms.2_Silent_p.P298P|SLC5A11_uc010vcd.1_Silent_p.P327P|SLC5A11_uc002dmt.2_Missense_Mutation_p.Q230K|SLC5A11_uc010vce.1_Silent_p.P292P|SLC5A11_uc010bxt.2_Silent_p.P298P|SLC5A11_uc002dmv.2_5'Flank	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	362	Extracellular (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		TCGCGTATCCCAAACTCGTGC	0.557											OREG0023688	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	113	---	---	---	---	PASS	A	24918057	A	A	24918057	2	1	173	1	0	0	0	0	0	0	0	1	14663	581	21	3		3	SLC5A11	16	24918057	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	4347426	24918057	65436696	195	61873										
FUK	197258	broad.mit.edu	37	chr16	70504960	70504960	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggtcctgggagcgtcctgcaGcactgccacctgcaggtgag	15	13	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr16:70504960G>A	uc002eyy.2	+	12	1213	c.1155G>A	c.(1153-1155)CAG>CAA	p.Q385Q	FUK_uc010cft.2_Silent_p.Q417Q|FUK_uc002eyz.2_5'UTR	NM_145059	NP_659496	Q8N0W3	FUK_HUMAN	fucokinase	385						cytoplasm	ATP binding|fucokinase activity			ovary(1)	1		Ovarian(137;0.0694)				GCGTCCTGCAGCACTGCCACC	0.687													3	17	---	---	---	---	PASS	A	70504960	A	A	70504960	2	1	173	1	0	0	0	0	0	0	0	1	6096	962	34	3		3	FUK	16	70504960	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	45586903	70504960	19849793	196	61874										
GLG1	2734	broad.mit.edu	37	chr16	74487200	74487200	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggagacgtcattacttgcatGgcaagatcagagaagccatc	11	9	2	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr16:74487200G>A	uc002fcy.3	-	26	3455	c.3405C>T	c.(3403-3405)GCC>GCT	p.A1135A	GLG1_uc002fcx.2_Silent_p.A1135A|GLG1_uc002fcw.3_Silent_p.A1124A|GLG1_uc002fcz.3_Silent_p.A552A	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	1135	Extracellular (Potential).					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						TTACTTGCATGGCAAGATCAG	0.488													6	137	---	---	---	---	PASS	A	74487200	A	A	74487200	2	1	173	1	0	0	0	0	0	0	0	1	6436	1335	47	3		3	GLG1	16	74487200	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	3982240	74487200	15867553	197	61875										
MLKL	197259	broad.mit.edu	37	chr16	74725174	74725174	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gaaccacacaaaacaacttaCgcaatgctgccagcctggag	8	13	0	0	rs144019045	byFrequency	TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr16:74725174C>T	uc002fdb.2	-	4	1163	c.722_splice	c.e4+1	p.A241_splice	MLKL_uc002fdc.2_Intron	NM_152649	NP_689862	Q8NB16	MLKL_HUMAN	mixed lineage kinase domain-like isoform 1								ATP binding|protein binding|protein kinase activity			stomach(2)	2						aaacaacttacgcaatgcTGC	0.194													16	617	---	---	---	---	PASS	T	74725174	T	T	74725174	5	4	173	1	0	0	0	0	0	0	1	0	9619	550	19	1	755	1	MLKL	16	74725174	Splice_Site	SNP	C	TCGA-66-2800-01A-01D-1267-08	237974	74725174	15629579	198	61876										
FAM57A	79850	broad.mit.edu	37	chr17	641210	641210	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtgcgccctccctcactcttCgaaacttcctaagtcgaaac	6	16	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:641210C>T	uc002frp.2	+	3	372	c.331C>T	c.(331-333)CGA>TGA	p.R111*	FAM57A_uc002frq.2_Nonsense_Mutation_p.R111*|FAM57A_uc002frr.2_Nonsense_Mutation_p.R21*	NM_024792	NP_079068	Q8TBR7	FA57A_HUMAN	family with sequence similarity 57, member A	111	TLC.					integral to membrane|plasma membrane					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0217)		CCTCACTCTTCGAAACTTCCT	0.517													9	390	---	---	---	---	PASS	T	641210	T	T	641210	4	4	173	1	0	0	0	0	0	1	0	0	5588	876	31	2	341	2	FAM57A	17	641210	Nonsense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08		641210	80554000	199	61877										
RPA1	6117	broad.mit.edu	37	chr17	1792101	1792101	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gattgtaccgctgtgagaagTgcgacaccgaatttcccaat	10	10	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:1792101T>C	uc002fto.2	+	14	1622	c.1507T>C	c.(1507-1509)TGC>CGC	p.C503R		NM_002945	NP_002936	P27694	RFA1_HUMAN	replication protein A1	503	C4-type (Potential).				cell cycle checkpoint|DNA recombinase assembly|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	actin cytoskeleton|cytoplasm|DNA replication factor A complex|PML body	metal ion binding|protein binding|single-stranded DNA binding				0						CTGTGAGAAGTGCGACACCGA	0.493								NER					64	102	---	---	---	---	PASS	C	1792101	C	C	1792101	3	2	173	1	0	0	0	0	1	0	0	0	13536	1696	59	5	1561	5	RPA1	17	1792101	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	1150891	1792101	79403109	200	61878										
METT10D	79066	broad.mit.edu	37	chr17	2323574	2323574	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tttcatcctccgtgggttccGggttttcctcctgggacagg	12	12	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:2323574G>C	uc002fut.2	-	10	1527	c.1379C>G	c.(1378-1380)CCG>CGG	p.P460R	METT10D_uc002fuu.3_RNA|METT10D_uc010cka.2_RNA|METT10D_uc002fuv.2_Intron|METT10D_uc010vqx.1_RNA|METT10D_uc010vqy.1_Missense_Mutation_p.P242R	NM_024086	NP_076991	Q86W50	MET16_HUMAN	methyltransferase 10 domain containing	460							methyltransferase activity				0						CGTGGGTTCCGGGTTTTCCTC	0.632													193	308	---	---	---	---	PASS	C	2323574	C	C	2323574	3	2	173	1	0	0	0	0	1	0	0	0	9490	1116	39	4	313	4	METT10D	17	2323574	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	531473	2323574	78871636	201	61879										
TRPV3	162514	broad.mit.edu	37	chr17	3419752	3419752	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcccttctccctttgttaccGcaaacacagtcggaaatcat	6	14	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:3419752G>A	uc002fvt.1	-	16	2519	c.2197C>T	c.(2197-2199)CGG>TGG	p.R733W	SPATA22_uc010vrg.1_5'Flank|TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Missense_Mutation_p.R717W|TRPV3_uc010vri.1_Missense_Mutation_p.R688W|TRPV3_uc010vrj.1_Missense_Mutation_p.R717W|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Missense_Mutation_p.R717W|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Missense_Mutation_p.R733W|TRPV3_uc002fvu.2_Missense_Mutation_p.R733W	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	733	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	CTTTGTTACCGCAAACACAGT	0.537													4	174	---	---	---	---	PASS	A	3419752	A	A	3419752	3	1	173	1	0	0	0	0	1	0	0	0	16594	1101	38	1	187	1	TRPV3	17	3419752	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	1096178	3419752	77775458	202	61880										
TP53	7157	broad.mit.edu	37	chr17	7577547	7577547	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggatgggcctccggttcatgCcgcccatgcaggaactgtta	13	12	1	0	rs121912656		TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:7577547C>A	uc002gim.2	-	7	928	c.734G>T	c.(733-735)GGC>GTC	p.G245V	TP53_uc002gig.1_Missense_Mutation_p.G245V|TP53_uc002gih.2_Missense_Mutation_p.G245V|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G113V|TP53_uc010cng.1_Missense_Mutation_p.G113V|TP53_uc002gii.1_Missense_Mutation_p.G113V|TP53_uc010cnh.1_Missense_Mutation_p.G245V|TP53_uc010cni.1_Missense_Mutation_p.G245V|TP53_uc002gij.2_Missense_Mutation_p.G245V|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.G152V|TP53_uc002gio.2_Missense_Mutation_p.G113V	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	245	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		G -> N (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> A (in sporadic cancers; somatic mutation).|G -> V (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> R (in sporadic cancers; somatic mutation).|G -> E (in a sporadic cancer; somatic mutation).|G -> D (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> H (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|G -> L (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G245S(274)|p.G245D(93)|p.G245V(50)|p.G245C(47)|p.G245R(10)|p.G245A(8)|p.0?(7)|p.G245G(3)|p.G245fs*2(3)|p.G245N(2)|p.G245H(1)|p.G245L(1)|p.G244fs*17(1)|p.G245F(1)|p.G245E(1)|p.C242_M246>L(1)|p.C238_M246delCNSSCMGGM(1)|p.G245del(1)|p.C242fs*98(1)|p.G245fs*22(1)|p.M243fs*18(1)|p.S241_G245delSCMGG(1)|p.G245fs*14(1)|p.G245fs*17(1)|p.G245fs*16(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)		CCGGTTCATGCCGCCCATGCA	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)			82	56	---	---	---	---	PASS	A	7577547	A	A	7577547	3	1	173	1	0	0	0	0	1	0	0	0	16378	739	26	3	556	3	TP53	17	7577547	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	4157795	7577547	73617663	203	61881										
CNTROB	116840	broad.mit.edu	37	chr17	7837842	7837842	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aagaggactcctttgacagtGatagcacagccaccttgctc	9	12	0	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:7837842G>A	uc002gjq.2	+	4	1334	c.415G>A	c.(415-417)GAT>AAT	p.D139N	TRAPPC1_uc002gjo.1_5'Flank|CNTROB_uc002gjp.2_Missense_Mutation_p.D139N|CNTROB_uc002gjr.2_Missense_Mutation_p.D41N|CNTROB_uc010vum.1_5'Flank	NM_053051	NP_444279	Q8N137	CNTRB_HUMAN	centrobin, centrosomal BRCA2 interacting protein	139					centriole replication|centrosome separation|cytokinesis	centriole	protein domain specific binding			breast(1)|central_nervous_system(1)	2		Prostate(122;0.173)				CTTTGACAGTGATAGCACAGC	0.512													17	163	---	---	---	---	PASS	A	7837842	A	A	7837842	3	1	173	1	0	0	0	0	1	0	0	0	3651	1290	45	2	425	2	CNTROB	17	7837842	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	260295	7837842	73357368	204	61882										
CNTROB	116840	broad.mit.edu	37	chr17	7840481	7840481	+	Splice_Site	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtattcctctcttcctgaaaGacagtaacccgcctggaaca	7	13	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:7840481G>A	uc002gjq.2	+	8	1748	c.829_splice	c.e8-1	p.T277_splice	CNTROB_uc002gjp.2_Splice_Site_p.T277_splice|CNTROB_uc002gjr.2_Splice_Site_p.T179_splice|CNTROB_uc010vum.1_5'Flank	NM_053051	NP_444279	Q8N137	CNTRB_HUMAN	centrobin, centrosomal BRCA2 interacting protein						centriole replication|centrosome separation|cytokinesis	centriole	protein domain specific binding			breast(1)|central_nervous_system(1)	2		Prostate(122;0.173)				CTTCCTGAAAGACAGTAACCC	0.468													40	654	---	---	---	---	PASS	A	7840481	A	A	7840481	5	1	173	1	0	0	0	0	0	0	1	0	3651	956	33	2	854	2	CNTROB	17	7840481	Splice_Site	SNP	G	TCGA-66-2800-01A-01D-1267-08	2639	7840481	73354729	205	61883										
GAS7	8522	broad.mit.edu	37	chr17	9837542	9837542	+	Frame_Shift_Del	DEL	C	-	-													0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	caggctcttcttcacctgggCccacgcctctcccaaggagc							TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:9837542delC	uc002gmg.1	-	9	987	c.826delG	c.(826-828)GCCfs	p.A276fs	GAS7_uc010vvc.1_Frame_Shift_Del_p.A90fs|GAS7_uc002gmh.1_Frame_Shift_Del_p.A136fs|GAS7_uc010vvd.1_Frame_Shift_Del_p.A228fs|GAS7_uc002gmi.2_Frame_Shift_Del_p.A212fs|GAS7_uc002gmj.1_Frame_Shift_Del_p.A216fs|GAS7_uc010coh.1_Frame_Shift_Del_p.A216fs	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	276	FCH.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						TTCACCTGGGCCCACGCCTCT	0.577			T	MLL	AML*								57	29	---	---	---	---		-	9837542	-	-	9837542	7	5	173	1	0	1	0	1	0	0	0	0	6250	739	26	0	628	0	GAS7	17	9837542	Frame_Shift_Del	DEL	C	TCGA-66-2800-01A-01D-1267-08	1997061	9837542	71357668	206	61884										
NCOR1	9611	broad.mit.edu	37	chr17	16004652	16004652	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctggggctcgggcctttgggCatttatttgctgagctacca	13	10	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:16004652C>A	uc002gpo.2	-	20	2842	c.2602G>T	c.(2602-2604)GCC>TCC	p.A868S	NCOR1_uc002gpn.2_Missense_Mutation_p.A884S|NCOR1_uc002gpp.1_Missense_Mutation_p.A775S|NCOR1_uc002gpr.2_Missense_Mutation_p.A775S	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	868					cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GGCCTTTGGGCATTTATTTGC	0.498													51	247	---	---	---	---	PASS	A	16004652	A	A	16004652	3	1	173	1	0	0	0	0	1	0	0	0	10235	710	25	3	4828	3	NCOR1	17	16004652	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	6167110	16004652	65190558	207	61885										
PSMD3	5709	broad.mit.edu	37	chr17	38152592	38152592	+	Splice_Site	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tccacaacatgtctgtcaagGtgagaagcccgtggctgcag	12	11	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:38152592G>A	uc002htn.1	+	10	1640	c.1476_splice	c.e10+1	p.K492_splice	PSMD3_uc010wen.1_Splice_Site|PSMD3_uc010weo.1_Splice_Site_p.K393_splice	NM_002809	NP_002800	O43242	PSMD3_HUMAN	proteasome 26S non-ATPase subunit 3						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	enzyme regulator activity|protein binding			ovary(1)|pancreas(1)	2	Colorectal(19;0.000442)					GTCTGTCAAGGTGAGAAGCCC	0.552													12	394	---	---	---	---	PASS	A	38152592	A	A	38152592	5	1	173	1	0	0	0	0	0	0	1	0	12699	1275	44	3	1515	3	PSMD3	17	38152592	Splice_Site	SNP	G	TCGA-66-2800-01A-01D-1267-08	22147940	38152592	43042618	208	61886										
KRT9	3857	broad.mit.edu	37	chr17	39727856	39727856	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	agcccccaaaccccccaaacCcactcccatagccaccacca	2	24	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:39727856C>A	uc002hxe.3	-	1	455	c.389G>T	c.(388-390)GGG>GTG	p.G130V	JUP_uc010wfs.1_Intron	NM_000226	NP_000217	P35527	K1C9_HUMAN	keratin 9	130	Head.				intermediate filament organization|skin development		protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Breast(137;0.000307)				ccccccaaacccactcccata	0.109													18	43	---	---	---	---	PASS	A	39727856	A	A	39727856	3	1	173	1	0	0	0	0	1	0	0	0	8501	623	22	3	1510	3	KRT9	17	39727856	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	1575264	39727856	41467354	209	61887										
KLHL11	55175	broad.mit.edu	37	chr17	40021156	40021156	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtgtacatgtactcgattacGgcttccactgtgtcgggttc	11	10	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:40021156G>T	uc002hyf.1	-	1	474	c.468C>A	c.(466-468)GCC>GCA	p.A156A		NM_018143	NP_060613	Q9NVR0	KLH11_HUMAN	kelch-like 11 precursor	156	BTB.					extracellular region					0		Breast(137;0.00156)				ACTCGATTACGGCTTCCACTG	0.687													38	37	---	---	---	---	PASS	T	40021156	T	T	40021156	2	4	173	1	0	0	0	0	0	0	0	1	8367	1103	39	1		1	KLHL11	17	40021156	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	293300	40021156	41174054	210	61888										
HSD17B1	3292	broad.mit.edu	37	chr17	40705530	40705530	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gccgtggcctctgtgctggaCgtgaatgtagtagggactgt	16	8	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:40705530C>T	uc002hzw.2	+	3	1307	c.339C>T	c.(337-339)GAC>GAT	p.D113D	HSD17B1_uc002hzx.2_Silent_p.D113D|HSD17B1_uc010wgm.1_RNA|uc002hzy.2_Silent_p.T17T|HSD17B1_uc010cyi.2_Silent_p.D144D	NM_000413	NP_000404	P14061	DHB1_HUMAN	hydroxysteroid (17-beta) dehydrogenase 1	113					estrogen biosynthetic process	cytosol	binding|estradiol 17-beta-dehydrogenase activity				0		all_cancers(22;5.59e-08)|all_epithelial(22;7e-07)|Ovarian(249;0.0261)		BRCA - Breast invasive adenocarcinoma(366;0.129)	NADH(DB00157)	CTGTGCTGGACGTGAATGTAG	0.672													6	137	---	---	---	---	PASS	T	40705530	T	T	40705530	2	4	173	1	0	0	0	0	0	0	0	1	7378	535	19	1		1	HSD17B1	17	40705530	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	684374	40705530	40489680	211	61889										
VEZF1	7716	broad.mit.edu	37	chr17	56051849	56051849	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	actgtttaccaaggcggtgaTgtaggcaaagcttggggcaa	14	7	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:56051849T>C	uc002ivf.1	-	6	1694	c.1551A>G	c.(1549-1551)ACA>ACG	p.T517T		NM_007146	NP_009077	Q14119	VEZF1_HUMAN	zinc finger protein 161	517					cellular defense response|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						AAGGCGGTGATGTAGGCAAAG	0.383													70	127	---	---	---	---	PASS	C	56051849	C	C	56051849	2	2	173	1	0	0	0	0	0	0	0	1	17152	1451	51	5		5	VEZF1	17	56051849	Silent	SNP	T	TCGA-66-2800-01A-01D-1267-08	15346319	56051849	25143361	212	61890										
GH1	2688	broad.mit.edu	37	chr17	61995723	61995723	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tacaaactcctggtaggtgtCaaaggccagctggtgcagac	12	10	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:61995723C>A	uc002jdj.2	-	2	216	c.154G>T	c.(154-156)GAC>TAC	p.D52Y	GH1_uc002jdi.2_Missense_Mutation_p.D52Y|GH1_uc002jdk.2_Missense_Mutation_p.D52Y|GH1_uc002jdl.2_Missense_Mutation_p.D52Y|GH1_uc002jdm.2_Intron|GH1_uc002jdn.2_Missense_Mutation_p.D52Y	NM_000515	NP_000506	P01241	SOMA_HUMAN	growth hormone 1 isoform 1	52					glucose transport|growth hormone receptor signaling pathway|JAK-STAT cascade|positive regulation of activation of JAK2 kinase activity|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of MAP kinase activity|positive regulation of multicellular organism growth|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|response to estradiol stimulus	extracellular space	growth factor activity|growth hormone receptor binding|hormone activity|metal ion binding|prolactin receptor binding				0						TGGTAGGTGTCAAAGGCCAGC	0.572													75	618	---	---	---	---	PASS	A	61995723	A	A	61995723	3	1	173	1	0	0	0	0	1	0	0	0	6367	826	29	2	515	2	GH1	17	61995723	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	5943874	61995723	19199487	213	61891										
SCN4A	6329	broad.mit.edu	37	chr17	62045698	62045698	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	caccgactggatcagggcccCcacgatcgtcttcagccctg	10	17	3	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr17:62045698C>A	uc002jds.1	-	6	798	c.721G>T	c.(721-723)GGG>TGG	p.G241W		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	241	I.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	ATCAGGGCCCCCACGATCGTC	0.607													48	78	---	---	---	---	PASS	A	62045698	A	A	62045698	3	1	173	1	0	0	0	0	1	0	0	0	13920	623	22	3	4865	3	SCN4A	17	62045698	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	49975	62045698	19149512	214	61892										
EPB41L3	23136	broad.mit.edu	37	chr18	5428395	5428395	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ccaggcaaatctgtttattcGcagccggtcgcgatatatca	9	11	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr18:5428395G>A	uc002kmt.1	-	9	1068	c.982C>T	c.(982-984)CGA>TGA	p.R328*	EPB41L3_uc010wzh.1_Nonsense_Mutation_p.R328*|EPB41L3_uc002kmu.1_Nonsense_Mutation_p.R328*|EPB41L3_uc010dkq.1_Nonsense_Mutation_p.R219*|EPB41L3_uc010dks.1_Nonsense_Mutation_p.R350*	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	328	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						CTGTTTATTCGCAGCCGGTCG	0.418													156	260	---	---	---	---	PASS	A	5428395	A	A	5428395	4	1	173	1	0	0	0	0	0	1	0	0	5154	1095	38	1	2337	1	EPB41L3	18	5428395	Nonsense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08		5428395	72648853	215	61893										
MIB1	57534	broad.mit.edu	37	chr18	19345762	19345762	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atgatggaaccatgtgtgatAcctgccgccagcaaccaatc	9	12	0	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr18:19345762A>T	uc002ktq.2	+	2	259	c.259A>T	c.(259-261)ACC>TCC	p.T87S	MIB1_uc002ktp.2_5'UTR	NM_020774	NP_065825	Q86YT6	MIB1_HUMAN	mindbomb homolog 1	87	ZZ-type.				Notch signaling pathway	centrosome|nuclear membrane|plasma membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(4)	4			STAD - Stomach adenocarcinoma(5;0.212)			CATGTGTGATACCTGCCGCCA	0.373													50	107	---	---	---	---	PASS	T	19345762	T	T	19345762	3	4	173	1	0	0	0	0	1	0	0	0	9566	391	14	5	265	5	MIB1	18	19345762	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	13917367	19345762	58731486	216	61894										
LAMA3	3909	broad.mit.edu	37	chr18	21523757	21523757	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cgatgttcccaacaggtcacAgtttgctgtggacatgcaga	11	10	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr18:21523757A>T	uc002kuq.2	+	69	9118	c.9032A>T	c.(9031-9033)CAG>CTG	p.Q3011L	LAMA3_uc002kur.2_Missense_Mutation_p.Q2955L|LAMA3_uc002kus.3_Missense_Mutation_p.Q1402L|LAMA3_uc002kut.3_Missense_Mutation_p.Q1346L	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	3011	Laminin G-like 4.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AACAGGTCACAGTTTGCTGTG	0.502													104	159	---	---	---	---	PASS	T	21523757	T	T	21523757	3	4	173	1	0	0	0	0	1	0	0	0	8607	188	7	5	9481	5	LAMA3	18	21523757	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	2177995	21523757	56553491	217	61895										
C18orf34	374864	broad.mit.edu	37	chr18	30825250	30825250	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgctattttatcttccatttCatctgtcttgtgtttggtta	6	7	4	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr18:30825250C>A	uc002kxn.2	-	14	1694	c.1552G>T	c.(1552-1554)GAA>TAA	p.E518*	C18orf34_uc010dme.1_Nonsense_Mutation_p.E32*|C18orf34_uc010xbr.1_Nonsense_Mutation_p.E518*|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Nonsense_Mutation_p.E518*|C18orf34_uc002kxp.2_Nonsense_Mutation_p.E518*	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	518										ovary(1)	1						TCTTCCATTTCATCTGTCTTG	0.333													15	30	---	---	---	---	PASS	A	30825250	A	A	30825250	4	1	173	1	0	0	0	0	0	1	0	0	1902	835	29	2	1087	2	C18orf34	18	30825250	Nonsense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	9301493	30825250	47251998	218	61896										
ONECUT2	9480	broad.mit.edu	37	chr18	55143669	55143669	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttcttctctttcccttcaagCgtgcaaacgcaaagagcaag	7	12	3	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr18:55143669C>T	uc002lgo.2	+	2	1261	c.1229C>T	c.(1228-1230)GCG>GTG	p.A410V		NM_004852	NP_004843	O95948	ONEC2_HUMAN	one cut domain, family member 2	410	CUT.				organ morphogenesis	nucleus	sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3		Colorectal(73;0.234)		READ - Rectum adenocarcinoma(59;0.227)|Colorectal(16;0.245)		TCCCTTCAAGCGTGCAAACGC	0.483													28	56	---	---	---	---	PASS	T	55143669	T	T	55143669	3	4	173	1	0	0	0	0	1	0	0	0	10869	782	27	1	1235	1	ONECUT2	18	55143669	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	24318419	55143669	22933579	219	61897										
ALPK2	115701	broad.mit.edu	37	chr18	56274624	56274624	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggaaataatgccactcccatCgatggcctgaccattcttat	7	12	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr18:56274624C>T	uc002lhj.3	-	3	371	c.157G>A	c.(157-159)GAT>AAT	p.D53N		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	53	Ig-like 1.						ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						CCACTCCCATCGATGGCCTGA	0.373													30	65	---	---	---	---	PASS	T	56274624	T	T	56274624	3	4	173	1	0	0	0	0	1	0	0	0	545	884	31	2	6399	2	ALPK2	18	56274624	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	1130955	56274624	21802624	220	61898										
POLR2E	5434	broad.mit.edu	37	chr19	1094003	1094003	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ccctcactcggcttgtccccAgattgggctttgaactcctc	8	16	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:1094003A>C	uc002lre.3	-	2	209	c.132T>G	c.(130-132)TTT>TTG	p.F44L	POLR2E_uc010xgf.1_Intron	NM_002695	NP_002686	P19388	RPAB1_HUMAN	DNA directed RNA polymerase II polypeptide E	44					interspecies interaction between organisms|mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase II promoter|transcription elongation from RNA polymerase III promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTTGTCCCCAGATTGGGCTT	0.617													8	77	---	---	---	---	PASS	C	1094003	C	C	1094003	3	2	173	1	0	0	0	0	1	0	0	0	12218	175	7	5	524	5	POLR2E	19	1094003	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08		1094003	58034980	221	61899										
PIAS4	51588	broad.mit.edu	37	chr19	4012993	4012993	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgggccggagtaagagtggaCtgaagcacgagctcgtcacc	15	10	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:4012993C>G	uc002lzg.2	+	2	110	c.100C>G	c.(100-102)CTG>GTG	p.L34V		NM_015897	NP_056981	Q8N2W9	PIAS4_HUMAN	protein inhibitor of activated STAT, 4	34	SAP.				positive regulation of protein sumoylation|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|PML body	DNA binding|SUMO ligase activity|ubiquitin protein ligase binding|zinc ion binding			pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		TAAGAGTGGACTGAAGCACGA	0.562													118	192	---	---	---	---	PASS	G	4012993	G	G	4012993	3	3	173	1	0	0	0	0	1	0	0	0	11878	564	20	4	106	4	PIAS4	19	4012993	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	2918990	4012993	55115990	222	61900										
MUC16	94025	broad.mit.edu	37	chr19	9063009	9063009	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cttcagcagtggcaccagtgGgcactccagaaaggacagtg	13	11	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:9063009G>T	uc002mkp.2	-	3	24641	c.24437C>A	c.(24436-24438)CCC>CAC	p.P8146H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8148	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGCACCAGTGGGCACTCCAGA	0.547													12	269	---	---	---	---	PASS	T	9063009	T	T	9063009	3	4	173	1	0	0	0	0	1	0	0	0	9973	1232	43	3	19414	3	MUC16	19	9063009	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	5050016	9063009	50065974	223	61901										
COL5A3	50509	broad.mit.edu	37	chr19	10071107	10071107	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tcagctgctgaagcagacggGgcccagttcaaacccaaact	10	13	2	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:10071107G>A	uc002mmq.1	-	67	5304	c.5218C>T	c.(5218-5220)CCC>TCC	p.P1740S		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1740	Fibrillar collagen NC1.				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)			AAGCAGACGGGGCCCAGTTCA	0.572													38	101	---	---	---	---	PASS	A	10071107	A	A	10071107	3	1	173	1	0	0	0	0	1	0	0	0	3698	1232	43	3	23	3	COL5A3	19	10071107	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	1008098	10071107	49057876	224	61902										
RDH8	50700	broad.mit.edu	37	chr19	10131387	10131387	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tccctctgaccctcacaggtGtcatcttcaacgatgtctat	6	14	6	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:10131387G>T	uc002mmr.2	+	4	694	c.445G>T	c.(445-447)GTC>TTC	p.V149F		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	149	Helical; (Potential).				estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	CCTCACAGGTGTCATCTTCAA	0.552													10	14	---	---	---	---	PASS	T	10131387	T	T	10131387	3	4	173	1	0	0	0	0	1	0	0	0	13196	1377	48	3	459	3	RDH8	19	10131387	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	60280	10131387	48997596	225	61903										
OR10H3	26532	broad.mit.edu	37	chr19	15852965	15852965	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctgtggtggtcatgcactatAgttttgcctcccttatctac	8	11	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:15852965A>T	uc010xoq.1	+	1	763	c.763A>T	c.(763-765)AGT>TGT	p.S255C		NM_013938	NP_039226	O60404	O10H3_HUMAN	olfactory receptor, family 10, subfamily H,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CATGCACTATAGTTTTGCCTC	0.512													7	401	---	---	---	---	PASS	T	15852965	T	T	15852965	3	4	173	1	0	0	0	0	1	0	0	0	10907	420	15	5	765	5	OR10H3	19	15852965	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	5721578	15852965	43276018	226	61904										
OR10H1	26539	broad.mit.edu	37	chr19	15918197	15918197	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gccacgatgaaggcataggaGaggaggatgaggagaaaaca	16	5	0	4			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:15918197G>T	uc002nbq.2	-	1	740	c.651C>A	c.(649-651)CTC>CTA	p.L217L		NM_013940	NP_039228	Q9Y4A9	O10H1_HUMAN	olfactory receptor, family 10, subfamily H,	217	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGGCATAGGAGAGGAGGATGA	0.577													88	135	---	---	---	---	PASS	T	15918197	T	T	15918197	2	4	173	1	0	0	0	0	0	0	0	1	10905	929	33	2		2	OR10H1	19	15918197	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	65232	15918197	43210786	227	61905										
HAUS8	93323	broad.mit.edu	37	chr19	17169361	17169361	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtgtcacttacaactgacctGggcatccaggacatctgcca	9	13	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:17169361G>A	uc002nfe.2	-	8	754	c.643C>T	c.(643-645)CAG>TAG	p.Q215*	HAUS8_uc002nff.2_Nonsense_Mutation_p.Q214*|HAUS8_uc002nfg.1_Nonsense_Mutation_p.Q154*|HAUS8_uc002nfh.1_Nonsense_Mutation_p.Q215*	NM_033417	NP_219485	Q9BT25	HAUS8_HUMAN	sarcoma antigen NY-SAR-48 isoform a	215					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle pole					0						CAACTGACCTGGGCATCCAGG	0.532													41	94	---	---	---	---	PASS	A	17169361	A	A	17169361	4	1	173	1	0	0	0	0	0	1	0	0	6972	1357	47	3	605	3	HAUS8	19	17169361	Nonsense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	1251164	17169361	41959622	228	61906										
FAM129C	199786	broad.mit.edu	37	chr19	17648193	17648193	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtttgttttcaggagaccatActcaggaagagcctgactcc	10	10	2	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:17648193A>T	uc010xpr.1	+	6	667	c.529A>T	c.(529-531)ACT>TCT	p.T177S	FAM129C_uc010xpq.1_Missense_Mutation_p.T177S|FAM129C_uc010xps.1_Missense_Mutation_p.T146S|FAM129C_uc010xpt.1_RNA|FAM129C_uc002ngy.3_5'Flank|FAM129C_uc010xpu.1_5'Flank|FAM129C_uc002ngz.3_5'Flank|FAM129C_uc010eaw.2_5'Flank|FAM129C_uc002nhb.2_5'Flank	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	177											0						AGGAGACCATACTCAGGAAGA	0.433													151	287	---	---	---	---	PASS	T	17648193	T	T	17648193	3	4	173	1	0	0	0	0	1	0	0	0	5438	391	14	5	551	5	FAM129C	19	17648193	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	478832	17648193	41480790	229	61907										
CRTC1	23373	broad.mit.edu	37	chr19	18888149	18888149	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cgaccccgacatggttctggCcgacccagccaccgaggaca	11	17	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:18888149C>T	uc002nkb.3	+	14	1950	c.1862C>T	c.(1861-1863)GCC>GTC	p.A621V	CRTC1_uc010ebv.2_Missense_Mutation_p.A637V|CRTC1_uc010ebw.2_Missense_Mutation_p.A457V|CRTC1_uc002nkc.3_Missense_Mutation_p.A319V	NM_015321	NP_056136	Q6UUV9	CRTC1_HUMAN	mucoepidermoid carcinoma translocated 1 isoform	621					interspecies interaction between organisms|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	cAMP response element binding protein binding|protein binding		CRTC1/MAML2(516)	salivary_gland(474)|lung(35)|thyroid(4)|breast(3)|skin(2)|ovary(1)	519						ATGGTTCTGGCCGACCCAGCC	0.687													6	706	---	---	---	---	PASS	T	18888149	T	T	18888149	3	4	173	1	0	0	0	0	1	0	0	0	3899	739	26	3	1968	3	CRTC1	19	18888149	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	1239956	18888149	40240834	230	61908										
PRODH2	58510	broad.mit.edu	37	chr19	36303539	36303539	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aggatcactgctcaccaacaGcccgtgagtgacgagtgggg	14	11	2	2	rs150476704		TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:36303539G>T	uc002obx.1	-	2	415	c.397C>A	c.(397-399)CTG>ATG	p.L133M		NM_021232	NP_067055	Q9UF12	PROD2_HUMAN	kidney and liver proline oxidase 1	133					glutamate biosynthetic process|proline catabolic process		proline dehydrogenase activity			ovary(2)	2	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTCACCAACAGCCCGTGAGTG	0.657													18	119	---	---	---	---	PASS	T	36303539	T	T	36303539	3	4	173	1	0	0	0	0	1	0	0	0	12549	962	34	3	1253	3	PRODH2	19	36303539	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	17415390	36303539	22825444	231	61909										
ZNF382	84911	broad.mit.edu	37	chr19	37118098	37118098	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cagagaactcacacaggagaGaaaccctatatttgcaatga	8	9	1	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:37118098G>T	uc002oek.2	+	5	1412	c.1299G>T	c.(1297-1299)GAG>GAT	p.E433D	ZNF382_uc010efa.2_Missense_Mutation_p.E384D|ZNF382_uc010efb.2_Missense_Mutation_p.E432D|ZNF382_uc002oel.2_Missense_Mutation_p.E432D	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	433	Required for transcriptional repression activity; probably mediates sequence- specific DNA-binding (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			ACACAGGAGAGAAACCCTATA	0.448													42	255	---	---	---	---	PASS	T	37118098	T	T	37118098	3	4	173	1	0	0	0	0	1	0	0	0	17870	933	33	2	1309	2	ZNF382	19	37118098	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	814559	37118098	22010885	232	61910										
HNRNPL	3191	broad.mit.edu	37	chr19	39330739	39330739	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcccggcagcagctcaccttCtccacattgccatataagca	7	16	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:39330739C>T	uc010xul.1	-	8	1241	c.1230G>A	c.(1228-1230)GAG>GAA	p.E410E	HNRNPL_uc010ege.1_Silent_p.E66E|HNRNPL_uc002ojj.1_Silent_p.E66E|HNRNPL_uc002ojo.1_5'Flank|HNRNPL_uc002ojk.2_Silent_p.E66E|HNRNPL_uc002ojl.2_Silent_p.E66E|HNRNPL_uc010xum.1_Silent_p.E277E|HNRNPL_uc002ojp.1_Silent_p.E66E|HNRNPL_uc010xun.1_3'UTR	NM_001533	NP_001524	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	410	RRM 3.				nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			AGCTCACCTTCTCCACATTGC	0.577													11	318	---	---	---	---	PASS	T	39330739	T	T	39330739	2	4	173	1	0	0	0	0	0	0	0	1	7270	912	32	2		2	HNRNPL	19	39330739	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	2212641	39330739	19798244	233	61911										
CYP2S1	29785	broad.mit.edu	37	chr19	41703718	41703718	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aacggggagcggtggaggcaGctgaggaagtttaccatgct	17	7	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:41703718G>A	uc002opw.2	+	3	433	c.378G>A	c.(376-378)CAG>CAA	p.Q126Q	CYP2F1_uc010xvw.1_Intron|CYP2S1_uc010xvx.1_Intron	NM_030622	NP_085125	Q96SQ9	CP2S1_HUMAN	cytochrome P450, family 2, subfamily S,	126					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity			skin(1)	1						GGTGGAGGCAGCTGAGGAAGT	0.587													11	337	---	---	---	---	PASS	A	41703718	A	A	41703718	2	1	173	1	0	0	0	0	0	0	0	1	4174	962	34	3		3	CYP2S1	19	41703718	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	2372979	41703718	17425265	234	61912										
CD177	57126	broad.mit.edu	37	chr19	43864424	43864424	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttcctctccccagattttctGacctgtcatcgggggaccac	8	15	3	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:43864424G>T	uc002owi.2	+	6	669	c.627G>T	c.(625-627)CTG>CTT	p.L209L	CD177_uc010eis.2_RNA|CD177_uc002owj.2_RNA	NM_020406	NP_065139	Q8N6Q3	CD177_HUMAN	CD177 molecule precursor	209	UPAR/Ly6 1.				blood coagulation|leukocyte migration	anchored to membrane|plasma membrane				central_nervous_system(1)	1		Prostate(69;0.00682)				CAGATTTTCTGACCTGTCATC	0.552													18	70	---	---	---	---	PASS	T	43864424	T	T	43864424	2	4	173	1	0	0	0	0	0	0	0	1	2971	1277	45	2		2	CD177	19	43864424	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	2160706	43864424	15264559	235	61913										
SYMPK	8189	broad.mit.edu	37	chr19	46320221	46320221	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aagccctcccacaccttgggGtacttccacacctgaaccag	7	17	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:46320221G>A	uc002pdn.2	-	24	3338	c.3093C>T	c.(3091-3093)TAC>TAT	p.Y1031Y	RSPH6A_uc002pdm.2_5'Flank	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	1031					cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		ACACCTTGGGGTACTTCCACA	0.632											OREG0025562	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	12	---	---	---	---	PASS	A	46320221	A	A	46320221	2	1	173	1	0	0	0	0	0	0	0	1	15436	1256	44	3		3	SYMPK	19	46320221	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	2455797	46320221	12808762	236	61914										
SIGLEC11	114132	broad.mit.edu	37	chr19	50461997	50461997	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tccatttgaatgggtggcagCtccaggaccccggggtctga	14	11	1	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:50461997C>G	uc010ybh.1	-	7	1357	c.1266G>C	c.(1264-1266)GAG>GAC	p.E422D	SIGLEC11_uc010ybi.1_Missense_Mutation_p.E422D	NM_052884	NP_443116	Q96RL6	SIG11_HUMAN	sialic acid binding Ig-like lectin 11 isoform 1	422	Ig-like C2-type 3.|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)		TGGGTGGCAGCTCCAGGACCC	0.667													118	70	---	---	---	---	PASS	G	50461997	G	G	50461997	3	3	173	1	0	0	0	0	1	0	0	0	14307	796	28	4	850	4	SIGLEC11	19	50461997	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	4141776	50461997	8666986	237	61915										
ZIM2	23619	broad.mit.edu	37	chr19	57293332	57293332	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	catacttacccagggagaccAggttccggtaattctccagc	9	13	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:57293332A>T	uc002qnr.2	-	9	1017	c.635T>A	c.(634-636)CTG>CAG	p.L212Q	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Missense_Mutation_p.L8Q|ZIM2_uc010ygr.1_Missense_Mutation_p.L8Q|ZIM2_uc002qnq.2_Missense_Mutation_p.L212Q|ZIM2_uc010etp.2_Missense_Mutation_p.L212Q|ZIM2_uc010ygs.1_Missense_Mutation_p.L212Q	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	212	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		CAGGGAGACCAGGTTCCGGTA	0.517													95	81	---	---	---	---	PASS	T	57293332	T	T	57293332	3	4	173	1	0	0	0	0	1	0	0	0	17681	188	7	5	960	5	ZIM2	19	57293332	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	6831335	57293332	1835651	238	61916										
CHMP2A	27243	broad.mit.edu	37	chr19	59063771	59063771	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgcgcacatagcgccgggtgCgcaccaagtcttttgccatg	12	13	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr19:59063771C>T	uc002qti.2	-	2	629	c.203G>A	c.(202-204)CGC>CAC	p.R68H	CHMP2A_uc002qtj.2_Missense_Mutation_p.R68H|CHMP2A_uc002qtk.2_Missense_Mutation_p.R68H	NM_198426	NP_940818	O43633	CHM2A_HUMAN	chromatin modifying protein 2A	68	Interaction with VPS4B.				cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein domain specific binding				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0434)|all cancers(4;1.39e-13)|Epithelial(4;1.01e-10)|OV - Ovarian serous cystadenocarcinoma(4;2.34e-09)|GBM - Glioblastoma multiforme(193;0.0102)|Lung(386;0.179)		GCGCCGGGTGCGCACCAAGTC	0.507													7	203	---	---	---	---	PASS	T	59063771	T	T	59063771	3	4	173	1	0	0	0	0	1	0	0	0	3354	768	27	1	481	1	CHMP2A	19	59063771	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	1770439	59063771	65212	239	61917										
ANGPT4	51378	broad.mit.edu	37	chr20	865720	865720	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gggcgcacaccgctcactcaCccggggccgaggcgttagcc	14	17	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr20:865720C>A	uc002wei.2	-	4	938	c.835_splice	c.e4+1	p.A279_splice	ANGPT4_uc010zpn.1_Splice_Site_p.A273_splice	NM_015985	NP_057069	Q9Y264	ANGP4_HUMAN	angiopoietin 4 precursor						anti-apoptosis|blood coagulation|cellular response to hypoxia|leukocyte migration|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of peptidyl-tyrosine phosphorylation|signal transduction	extracellular space	receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			ovary(2)	2						CGCTCACTCACCCGGGGCCGA	0.667													41	59	---	---	---	---	PASS	A	865720	A	A	865720	5	1	173	1	0	0	0	0	0	0	1	0	612	521	18	3	699	3	ANGPT4	20	865720	Splice_Site	SNP	C	TCGA-66-2800-01A-01D-1267-08		865720	62159800	240	61918										
HSPA12B	116835	broad.mit.edu	37	chr20	3730636	3730636	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggggcccttatggcgcggtgGgcgtggacctggccttcgag	19	11	0	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr20:3730636G>C	uc002wjd.2	+	11	1166	c.1063G>C	c.(1063-1065)GGC>CGC	p.G355R	HSPA12B_uc010zqi.1_Missense_Mutation_p.G354R|HSPA12B_uc002wje.2_Missense_Mutation_p.G268R|HSPA12B_uc010zqj.1_Missense_Mutation_p.G189R	NM_052970	NP_443202	Q96MM6	HS12B_HUMAN	heat shock 70kD protein 12B	355							ATP binding				0						TGGCGCGGTGGGCGTGGACCT	0.716													8	18	---	---	---	---	PASS	C	3730636	C	C	3730636	3	2	173	1	0	0	0	0	1	0	0	0	7405	1232	43	4	1101	4	HSPA12B	20	3730636	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	2864916	3730636	59294884	241	61919										
PLUNC	51297	broad.mit.edu	37	chr20	31827670	31827670	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tgcagagccctgatggccacCgtctctatgtcaccatccct	8	16	2	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr20:31827670C>A	uc002wyv.2	+	4	452	c.382C>A	c.(382-384)CGT>AGT	p.R128S	PLUNC_uc002wyt.3_Missense_Mutation_p.R128S|PLUNC_uc002wyu.3_Missense_Mutation_p.R128S	NM_130852	NP_570913	Q9NP55	PLUNC_HUMAN	palate, lung and nasal epithelium associated	128					innate immune response	extracellular region	lipid binding				0						TGATGGCCACCGTCTCTATGT	0.512													6	717	---	---	---	---	PASS	A	31827670	A	A	31827670	3	1	173	1	0	0	0	0	1	0	0	0	12115	652	23	1	392	1	PLUNC	20	31827670	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	28097034	31827670	31197850	242	61920										
MYH7B	57644	broad.mit.edu	37	chr20	33586326	33586326	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcctgcaggggagctgagtcGcctgctagaggagaaggagt	18	8	0	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr20:33586326G>A	uc002xbi.1	+	32	4105	c.4013G>A	c.(4012-4014)CGC>CAC	p.R1338H		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	1296	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			GAGCTGAGTCGCCTGCTAGAG	0.642													7	174	---	---	---	---	PASS	A	33586326	A	A	33586326	3	1	173	1	0	0	0	0	1	0	0	0	10040	1087	38	1	4139	1	MYH7B	20	33586326	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	1758656	33586326	29439194	243	61921										
IFT52	51098	broad.mit.edu	37	chr20	42252561	42252561	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	acatgatgctgccctacacaGccaccctatcaaagcggaat	7	14	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr20:42252561G>A	uc002xkw.2	+	10	921	c.799G>A	c.(799-801)GCC>ACC	p.A267T	IFT52_uc002xky.2_Missense_Mutation_p.A267T|IFT52_uc002xkx.2_RNA|IFT52_uc010ggn.2_Missense_Mutation_p.A243T|IFT52_uc002xkz.2_Missense_Mutation_p.A267T	NM_016004	NP_057088	Q9Y366	IFT52_HUMAN	intraflagellar transport 52 homolog	267						intraflagellar transport particle B|microtubule-based flagellum	protein C-terminus binding			ovary(2)	2		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			GCCCTACACAGCCACCCTATC	0.493													125	180	---	---	---	---	PASS	A	42252561	A	A	42252561	3	1	173	1	0	0	0	0	1	0	0	0	7561	971	34	3	833	3	IFT52	20	42252561	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	8666235	42252561	20772959	244	61922										
PREX1	57580	broad.mit.edu	37	chr20	47297836	47297836	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gactccttcttccgtcttgcTgatttcaccaatttctagga	6	12	4	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr20:47297836T>G	uc002xtw.1	-	11	1395	c.1372A>C	c.(1372-1374)AGC>CGC	p.S458R		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	458	DEP 1.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			TCCGTCTTGCTGATTTCACCA	0.542													225	485	---	---	---	---	PASS	G	47297836	G	G	47297836	3	3	173	1	0	0	0	0	1	0	0	0	12476	1580	55	5	3727	5	PREX1	20	47297836	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	5045275	47297836	15727684	245	61923										
LSM14B	149986	broad.mit.edu	37	chr20	60699680	60699680	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctccactcataagtgaggtcCtttggcactgaagaccgtcc	9	13	1	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr20:60699680C>T	uc010gjy.1	+	2	341	c.135C>T	c.(133-135)TCC>TCT	p.S45S	LSM14B_uc002ybt.2_Silent_p.S45S|LSM14B_uc010gjx.1_Silent_p.S45S|LSM14B_uc002ybv.2_Silent_p.S45S|LSM14B_uc010gjz.1_5'UTR|LSM14B_uc010zzz.1_5'UTR	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	45					multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			AAGTGAGGTCCTTTGGCACTG	0.502											OREG0026104	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	155	---	---	---	---	PASS	T	60699680	T	T	60699680	2	4	173	1	0	0	0	0	0	0	0	1	9055	668	24	3		3	LSM14B	20	60699680	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	13401844	60699680	2325840	246	61924										
OGFR	11054	broad.mit.edu	37	chr20	61444505	61444505	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tcgaacggggcccaaagaagGtacccctgggagcccatcgg	14	13	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr20:61444505G>A	uc002ydj.2	+	7	1573	c.1538G>A	c.(1537-1539)GGT>GAT	p.G513D	OGFR_uc002ydk.2_Missense_Mutation_p.G496D|OGFR_uc002ydl.2_Missense_Mutation_p.G461D|uc011aam.1_Silent_p.Y46Y	NM_007346	NP_031372	Q9NZT2	OGFR_HUMAN	opioid growth factor receptor	513					regulation of cell growth	cytoplasm|membrane|nucleus	opioid receptor activity				0	Breast(26;3.65e-08)					CCCAAAGAAGGTACCCCTGGG	0.701													4	18	---	---	---	---	PASS	A	61444505	A	A	61444505	3	1	173	1	0	0	0	0	1	0	0	0	10843	1261	44	3	1564	3	OGFR	20	61444505	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	744825	61444505	1581015	247	61925										
TIAM1	7074	broad.mit.edu	37	chr21	32624423	32624423	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tggagttggtggcattagatCgcctggacaggaggtccgtg	17	7	0	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr21:32624423C>A	uc002yow.1	-	6	1518	c.1046G>T	c.(1045-1047)CGA>CTA	p.R349L	TIAM1_uc011adk.1_Missense_Mutation_p.R349L|TIAM1_uc011adl.1_Missense_Mutation_p.R349L|TIAM1_uc002yox.1_5'UTR	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	349					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						GGCATTAGATCGCCTGGACAG	0.617													28	455	---	---	---	---	PASS	A	32624423	A	A	32624423	3	1	173	1	0	0	0	0	1	0	0	0	15887	884	31	2	3825	2	TIAM1	21	32624423	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08		32624423	15505472	248	61926										
PRDM15	63977	broad.mit.edu	37	chr21	43236175	43236175	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cttcatgtggtggcgcagcgCgtgcttggtcttcatgcctt	13	11	3	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr21:43236175C>T	uc002yzq.1	-	26	3487	c.3376G>A	c.(3376-3378)GCG>ACG	p.A1126T	PRDM15_uc002yzo.2_Missense_Mutation_p.A797T|PRDM15_uc002yzp.2_Missense_Mutation_p.A817T|PRDM15_uc002yzr.1_Missense_Mutation_p.A817T	NM_022115	NP_071398	P57071	PRD15_HUMAN	PR domain containing 15 isoform 1	1126	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGGCGCAGCGCGTGCTTGGTC	0.637													4	104	---	---	---	---	PASS	T	43236175	T	T	43236175	3	4	173	1	0	0	0	0	1	0	0	0	12456	768	27	1	1171	1	PRDM15	21	43236175	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	10611752	43236175	4893720	249	61927										
RTDR1	27156	broad.mit.edu	37	chr22	23476328	23476328	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atgtcgtgctctagaaaggcGtatctagggaagggagggtg	17	5	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr22:23476328G>A	uc002zwt.2	-	4	464	c.306C>T	c.(304-306)TAC>TAT	p.Y102Y	RTDR1_uc010gtv.1_Silent_p.Y102Y	NM_014433	NP_055248	Q9UHP6	RTDR1_HUMAN	rhabdoid tumor deletion region protein 1	102							binding			ovary(1)	1	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.175)		CTAGAAAGGCGTATCTAGGGA	0.557													73	105	---	---	---	---	PASS	A	23476328	A	A	23476328	2	1	173	1	0	0	0	0	0	0	0	1	13719	1140	40	1		1	RTDR1	22	23476328	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08		23476328	27828238	250	61928										
CRYBB3	1417	broad.mit.edu	37	chr22	25601324	25601324	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gcgagtgtccgtgccatcaaCgggacgtaagggacccaacc	13	13	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr22:25601324C>T	uc003abo.1	+	5	537	c.465C>T	c.(463-465)AAC>AAT	p.N155N		NM_004076	NP_004067	P26998	CRBB3_HUMAN	crystallin, beta B3	155	Beta/gamma crystallin 'Greek key' 3.				visual perception		protein binding|structural constituent of eye lens				0						GTGCCATCAACGGGACGTAAG	0.542													5	82	---	---	---	---	PASS	T	25601324	T	T	25601324	2	4	173	1	0	0	0	0	0	0	0	1	3912	535	19	1		1	CRYBB3	22	25601324	Silent	SNP	C	TCGA-66-2800-01A-01D-1267-08	2124996	25601324	25703242	251	61929										
SEZ6L	23544	broad.mit.edu	37	chr22	26747016	26747016	+	Splice_Site	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggtctggtttcatcccgtgtAgttatgtactgcaccgaccc	10	12	2	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr22:26747016A>C	uc003acb.2	+	12	2564	c.2408_splice	c.e12-2	p.I803_splice	SEZ6L_uc003acc.2_Splice_Site_p.I803_splice|SEZ6L_uc011akc.1_Splice_Site_p.I803_splice|SEZ6L_uc003acd.2_Intron|SEZ6L_uc011akd.1_Splice_Site_p.I803_splice|SEZ6L_uc003ace.2_Splice_Site_p.I803_splice|SEZ6L_uc003acf.1_Splice_Site_p.I576_splice|SEZ6L_uc010gvc.1_Splice_Site_p.I576_splice|SEZ6L_uc011ake.1_Splice_Site	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like							endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CATCCCGTGTAGTTATGTACT	0.493													71	144	---	---	---	---	PASS	C	26747016	C	C	26747016	5	2	173	1	0	0	0	0	0	0	1	0	14143	434	15	5	2452	5	SEZ6L	22	26747016	Splice_Site	SNP	A	TCGA-66-2800-01A-01D-1267-08	1145692	26747016	24557550	252	61930										
SLC5A1	6523	broad.mit.edu	37	chr22	32445945	32445945	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ctcaggctatgttttccaccAatcgtgggactgttggaggc	12	10	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr22:32445945A>C	uc003amc.2	+	2	383	c.151A>C	c.(151-153)AAT>CAT	p.N51H		NM_000343	NP_000334	P13866	SC5A1_HUMAN	solute carrier family 5 (sodium/glucose	51	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to plasma membrane	glucose:sodium symporter activity|protein binding			skin(1)	1						GTTTTCCACCAATCGTGGGAC	0.473													366	484	---	---	---	---	PASS	C	32445945	C	C	32445945	3	2	173	1	0	0	0	0	1	0	0	0	14661	130	5	5	157	5	SLC5A1	22	32445945	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08	5698929	32445945	18858621	253	61931										
CACNA1I	8911	broad.mit.edu	37	chr22	40074003	40074003	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cgcttccagtctgcaacgacGagaacccgtgcgagggcatg	13	13	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr22:40074003G>A	uc003ayc.2	+	31	4945	c.4945G>A	c.(4945-4947)GAG>AAG	p.E1649K	CACNA1I_uc003ayd.2_Missense_Mutation_p.E1614K|CACNA1I_uc003aye.2_Missense_Mutation_p.E1564K|CACNA1I_uc003ayf.2_Missense_Mutation_p.E1529K	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1649	Extracellular (Potential).|IV.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CTGCAACGACGAGAACCCGTG	0.657													4	6	---	---	---	---	PASS	A	40074003	A	A	40074003	3	1	173	1	0	0	0	0	1	0	0	0	2546	1059	37	2	5067	2	CACNA1I	22	40074003	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	7628058	40074003	11230563	254	61932										
PNPLA5	150379	broad.mit.edu	37	chr22	44285214	44285214	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cagggccagacctacctcgaGgctggggggtatgagacata	15	10	0	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chr22:44285214G>T	uc003beg.2	-	4	794	c.697C>A	c.(697-699)CTC>ATC	p.L233I	PNPLA5_uc011aqc.1_Missense_Mutation_p.L93I|PNPLA5_uc003beh.2_Missense_Mutation_p.L119I	NM_138814	NP_620169	Q7Z6Z6	PLPL5_HUMAN	patatin-like phospholipase domain containing 5	233					lipid catabolic process		hydrolase activity				0		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				CCTACCTCGAGGCTGGGGGGT	0.577													102	154	---	---	---	---	PASS	T	44285214	T	T	44285214	3	4	173	1	0	0	0	0	1	0	0	0	12168	1000	35	3	616	3	PNPLA5	22	44285214	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	4211211	44285214	7019352	255	61933										
GLRA2	2742	broad.mit.edu	37	chrX	14550411	14550411	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gtctggaaaacaaccttcacAgaccctatctccttcagatt	5	13	4	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:14550411A>T	uc010nep.2	+	3	451	c.119A>T	c.(118-120)CAG>CTG	p.Q40L	GLRA2_uc010neq.2_Missense_Mutation_p.Q40L|GLRA2_uc004cwe.3_Missense_Mutation_p.Q40L|GLRA2_uc011mio.1_5'UTR|GLRA2_uc011mip.1_Missense_Mutation_p.Q18L	NM_001118885	NP_001112357	P23416	GLRA2_HUMAN	glycine receptor, alpha 2 isoform A	40	Extracellular (Probable).				neuropeptide signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(1)|lung(1)	2	Hepatocellular(33;0.128)				Ethanol(DB00898)|Glycine(DB00145)	CAACCTTCACAGACCCTATCT	0.403													69	33	---	---	---	---	PASS	T	14550411	T	T	14550411	3	4	173	1	0	0	0	0	1	0	0	0	6455	188	7	5	125	5	GLRA2	23	14550411	Missense_Mutation	SNP	A	TCGA-66-2800-01A-01D-1267-08		14550411	140720149	256	61934										
RAI2	10742	broad.mit.edu	37	chrX	17820021	17820021	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cagtggagttgatgttccagGcctcggtggtgatcagctga	15	8	1	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:17820021G>T	uc004cyf.2	-	3	680	c.110C>A	c.(109-111)GCC>GAC	p.A37D	RAI2_uc004cyg.2_Missense_Mutation_p.A37D|RAI2_uc010nfa.2_Missense_Mutation_p.A37D|RAI2_uc004cyh.3_Missense_Mutation_p.A37D|RAI2_uc011miy.1_Missense_Mutation_p.A37D	NM_021785	NP_068557	Q9Y5P3	RAI2_HUMAN	retinoic acid induced 2	37					embryo development					ovary(1)|breast(1)	2	Hepatocellular(33;0.183)					GATGTTCCAGGCCTCGGTGGT	0.577													236	111	---	---	---	---	PASS	T	17820021	T	T	17820021	3	4	173	1	0	0	0	0	1	0	0	0	13009	1203	42	3	1486	3	RAI2	23	17820021	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	3269610	17820021	137450539	257	61935										
MAP7D2	256714	broad.mit.edu	37	chrX	20030581	20030581	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	taagcccattagagaaaatgTcttggggataagtttctggg	12	5	2	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:20030581T>C	uc004czr.1	-	14	1854	c.1835A>G	c.(1834-1836)GAC>GGC	p.D612G	MAP7D2_uc004czq.1_Missense_Mutation_p.D497G|MAP7D2_uc011mji.1_Missense_Mutation_p.D560G|MAP7D2_uc010nfo.1_Missense_Mutation_p.D653G|MAP7D2_uc011mjj.1_Missense_Mutation_p.D567G	NM_152780	NP_689993	Q96T17	MA7D2_HUMAN	MAP7 domain containing 2	612										ovary(2)|breast(1)	3						AGAGAAAATGTCTTGGGGATA	0.458													107	51	---	---	---	---	PASS	C	20030581	C	C	20030581	3	2	173	1	0	0	0	0	1	0	0	0	9268	1667	58	5	371	5	MAP7D2	23	20030581	Missense_Mutation	SNP	T	TCGA-66-2800-01A-01D-1267-08	2210560	20030581	135239979	258	61936										
MAP7D2	256714	broad.mit.edu	37	chrX	20034289	20034289	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	cagctcctcctcagccttccGcttggcctcctcgcctgcct	7	21	1	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:20034289G>A	uc004czr.1	-	10	1463	c.1444C>T	c.(1444-1446)CGG>TGG	p.R482W	MAP7D2_uc004czq.1_Missense_Mutation_p.R367W|MAP7D2_uc011mji.1_Missense_Mutation_p.R430W|MAP7D2_uc010nfo.1_Missense_Mutation_p.R523W|MAP7D2_uc011mjj.1_Missense_Mutation_p.R437W	NM_152780	NP_689993	Q96T17	MA7D2_HUMAN	MAP7 domain containing 2	482										ovary(2)|breast(1)	3						tcagccttccgcttggcctcc	0.09													11	8	---	---	---	---	PASS	A	20034289	A	A	20034289	3	1	173	1	0	0	0	0	1	0	0	0	9268	1086	38	1	778	1	MAP7D2	23	20034289	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	3708	20034289	135236271	259	61937										
HUWE1	10075	broad.mit.edu	37	chrX	53659447	53659447	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aatcagactcacccttttctCaattttgacctcggccccag	5	15	3	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:53659447C>T	uc004dsp.2	-	9	1039	c.637G>A	c.(637-639)GAG>AAG	p.E213K		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	213					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						ACCCTTTTCTCAATTTTGACC	0.388													41	18	---	---	---	---	PASS	T	53659447	T	T	53659447	3	4	173	1	0	0	0	0	1	0	0	0	7461	835	29	2	12791	2	HUWE1	23	53659447	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	33625158	53659447	101611113	260	61938										
RPS6KA6	27330	broad.mit.edu	37	chrX	83319290	83319290	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ggaacaccacaaatcttacaGgccagttgatgttcgctttt	8	10	1	1			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:83319290G>A	uc004eej.1	-	22	2310	c.2233C>T	c.(2233-2235)CTG>TTG	p.L745L	RPS6KA6_uc011mqt.1_Silent_p.L745L|RPS6KA6_uc011mqu.1_Silent_p.L642L	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	745					axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						AAATCTTACAGGCCAGTTGAT	0.448													5	17	---	---	---	---	PASS	A	83319290	A	A	83319290	2	1	173	1	0	0	0	0	0	0	0	1	13655	991	35	3		3	RPS6KA6	23	83319290	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	29659843	83319290	71951270	261	61939										
NGFRAP1	27018	broad.mit.edu	37	chrX	102632595	102632595	+	Missense_Mutation	SNP	G	C	C													0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	caataggcagatcaatgatgGgatgggtggagatggagatg							TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:102632595G>C	uc004eki.2	+	3	558	c.176G>C	c.(175-177)GGG>GCG	p.G59A	NGFRAP1_uc004ekh.2_Missense_Mutation_p.G49A|NGFRAP1_uc004ekj.1_Missense_Mutation_p.G59A	NM_206915	NP_996798	Q00994	BEX3_HUMAN	nerve growth factor receptor (TNFRSF16)	59					apoptosis|multicellular organismal development|nerve growth factor receptor signaling pathway	cytosol|nucleus	caspase regulator activity|metal ion binding				0						ATCAATGATGGGATGGGTGGA	0.502													213	119	---	---	---	---	PASS	C	102632595	C	C	102632595	3	2	173	1	0	0	0	0	1	0	0	0	10397	1232	43	4	178	4	NGFRAP1	23	102632595	Missense_Mutation	SNP	G	TCGA-66-2800-01A-01D-1267-08	19313305	102632595	52637965	262	61940	1071	2								
NGFRAP1	27018	broad.mit.edu	37	chrX	102632596	102632596	+	Silent	SNP	G	C	C													0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aataggcagatcaatgatggGatgggtggagatggagatga							TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:102632596G>C	uc004eki.2	+	3	559	c.177G>C	c.(175-177)GGG>GGC	p.G59G	NGFRAP1_uc004ekh.2_Silent_p.G49G|NGFRAP1_uc004ekj.1_Silent_p.G59G	NM_206915	NP_996798	Q00994	BEX3_HUMAN	nerve growth factor receptor (TNFRSF16)	59					apoptosis|multicellular organismal development|nerve growth factor receptor signaling pathway	cytosol|nucleus	caspase regulator activity|metal ion binding				0						TCAATGATGGGATGGGTGGAG	0.502													216	120	---	---	---	---	PASS	C	102632596	C	C	102632596	2	2	173	1	0	0	0	0	0	0	0	1	10397	1161	41	2		2	NGFRAP1	23	102632596	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	1	102632596	52637964	263	61941	1071	2								
UTP14A	10813	broad.mit.edu	37	chrX	129042041	129042041	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	ttttctgtgtcttagggggaCaatgatggagagagaaagca	14	4	2	3			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:129042041C>A	uc004euz.2	+	3	136	c.108C>A	c.(106-108)GAC>GAA	p.D36E	UTP14A_uc011mup.1_Missense_Mutation_p.D36E|UTP14A_uc011muq.1_Missense_Mutation_p.T4K	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	36					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						CTTAGGGGGACAATGATGGAG	0.398													3	119	---	---	---	---	PASS	A	129042041	A	A	129042041	3	1	173	1	0	0	0	0	1	0	0	0	17092	477	17	3	118	3	UTP14A	23	129042041	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	26409445	129042041	26228519	264	61942										
MST4	51765	broad.mit.edu	37	chrX	131206391	131206391	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	gaaagtacagaatggggcagTatgtatatggagacaattac	12	4	0	2			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:131206391T>C	uc004ewk.1	+	9	1327	c.1026_splice	c.e9+2	p.A342_splice	MST4_uc004ewl.1_Splice_Site_p.A265_splice|MST4_uc011mux.1_Splice_Site_p.A364_splice|MST4_uc010nrj.1_Splice_Site_p.A342_splice|MST4_uc004ewm.1_Splice_Site_p.A280_splice	NM_016542	NP_057626	Q9P289	MST4_HUMAN	serine/threonine protein kinase MST4 isoform 1						cellular component disassembly involved in apoptosis|regulation of apoptosis	cytosol|Golgi membrane	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(3)|stomach(2)|upper_aerodigestive_tract(1)	9	Acute lymphoblastic leukemia(192;0.000127)					AATGGGGCAGTATGTATATGG	0.388													34	13	---	---	---	---	PASS	C	131206391	C	C	131206391	5	2	173	1	0	0	0	0	0	0	1	0	9892	1652	57	5	1058	5	MST4	23	131206391	Splice_Site	SNP	T	TCGA-66-2800-01A-01D-1267-08	2164350	131206391	24064169	265	61943										
FGF13	2258	broad.mit.edu	37	chrX	137791014	137791014	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	tcatctttggtgccatcaatGgttccatccgcctgcagctg	9	13	3	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:137791014G>C	uc004fam.2	-	2	926	c.264C>G	c.(262-264)ACC>ACG	p.T88T	FGF13_uc004fan.2_Silent_p.T35T|FGF13_uc011mwi.1_Silent_p.T69T|FGF13_uc004faq.2_Silent_p.T98T|FGF13_uc004far.2_Silent_p.T69T|FGF13_uc011mwj.1_Silent_p.T98T|FGF13_uc011mwk.1_Silent_p.T42T	NM_004114	NP_004105	Q92913	FGF13_HUMAN	fibroblast growth factor 13 isoform 1	88					cell-cell signaling|MAPKKK cascade|nervous system development	cytoplasm|nucleus	growth factor activity|protein kinase activator activity			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					TGCCATCAATGGTTCCATCCG	0.408													130	54	---	---	---	---	PASS	C	137791014	C	C	137791014	2	2	173	1	0	0	0	0	0	0	0	1	5842	1335	47	4		4	FGF13	23	137791014	Silent	SNP	G	TCGA-66-2800-01A-01D-1267-08	6584623	137791014	17479546	266	61944										
CDR1	1038	broad.mit.edu	37	chrX	139865876	139865876	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	atctacgtcttccaccaaatCcaggtcttccagtcaatcca	4	15	4	0			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:139865876C>G	uc004fbg.1	-	1	848	c.656G>C	c.(655-657)GGA>GCA	p.G219A	uc004fbf.1_RNA	NM_004065	NP_004056	P51861	CDR1_HUMAN	cerebellar degeneration-related protein 1,	219											0	Acute lymphoblastic leukemia(192;7.65e-05)	Lung SC(4;0.051)				TCCACCAAATCCAGGTCTTCC	0.438													7	229	---	---	---	---	PASS	G	139865876	G	G	139865876	3	3	173	1	0	0	0	0	1	0	0	0	3171	855	30	2	136	2	CDR1	23	139865876	Missense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	2074862	139865876	15404684	267	61945										
MAGEC1	9947	broad.mit.edu	37	chrX	140996561	140996561	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0676691729323308	18	0.403343410965912	1.13149350649351	1.36559561128527	1.06150421743205	0.0485513975824021	0.268549917877662	0	aattgacaccacagatgattCgactgccacagaaagtgcaa	8	10	0	4			TCGA-66-2800-01A-01D-1267-08	TCGA-66-2800-11A-01D-1267-08									Somatic	Phase_I	Capture				Illumina GAIIx	803ec3a5-4347-41c3-a7b6-7eb00427a48c	ec60a2b3-76d2-4c72-b3dd-6bf632664b6a	g.chrX:140996561C>A	uc004fbt.2	+	4	3657	c.3371C>A	c.(3370-3372)TCG>TAG	p.S1124*	MAGEC1_uc010nsl.1_Nonsense_Mutation_p.S191*	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	1124							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					ACAGATGATTCGACTGCCACA	0.483										HNSCC(15;0.026)			131	45	---	---	---	---	PASS	A	140996561	A	A	140996561	4	1	173	1	0	0	0	0	0	1	0	0	9180	893	31	2	3377	2	MAGEC1	23	140996561	Nonsense_Mutation	SNP	C	TCGA-66-2800-01A-01D-1267-08	1130685	140996561	14273999	268	61946										
RNF207	388591	broad.mit.edu	37	chr1	6272365	6272365	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gacctcaccaagcaccactcGctcatcaaggcggagatcat	8	15	4	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:6272365G>T	uc001amg.2	+	14	1545	c.1371G>T	c.(1369-1371)TCG>TCT	p.S457S	RNF207_uc010nzp.1_RNA	NM_207396	NP_997279	Q6ZRF8	RN207_HUMAN	ring finger protein 207	457	Potential.					intracellular	zinc ion binding				0	Ovarian(185;0.0634)	all_cancers(23;1.22e-38)|all_epithelial(116;4.25e-22)|all_lung(118;7.95e-08)|Lung NSC(185;1.6e-06)|all_neural(13;3.18e-06)|all_hematologic(16;8.99e-06)|Acute lymphoblastic leukemia(12;0.000365)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00104)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)|Medulloblastoma(700;0.211)		Epithelial(90;4.84e-38)|GBM - Glioblastoma multiforme(13;5.77e-32)|OV - Ovarian serous cystadenocarcinoma(86;2.88e-19)|Colorectal(212;6.9e-08)|COAD - Colon adenocarcinoma(227;8.13e-06)|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;0.00311)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.182)		AGCACCACTCGCTCATCAAGG	0.607													11	59	---	---	---	---	PASS	T	6272365	T	T	6272365	2	4	174	1	0	0	0	0	0	0	0	1	13474	1074	38	1		1	RNF207	1	6272365	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08		6272365	242978256	1	61947										
CLCNKB	1188	broad.mit.edu	37	chr1	16375649	16375649	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atcgaggtcatgtcttcccaCttctctgtctgggattactg	9	11	4	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:16375649C>G	uc001axw.3	+	8	770	c.690C>G	c.(688-690)CAC>CAG	p.H230Q	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Missense_Mutation_p.H230Q|CLCNKB_uc001axy.3_Missense_Mutation_p.H61Q	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1	230					excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		TGTCTTCCCACTTCTCTGTCT	0.637													14	133	---	---	---	---	PASS	G	16375649	G	G	16375649	3	3	174	1	0	0	0	0	1	0	0	0	3470	564	20	4	864	4	CLCNKB	1	16375649	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	10103284	16375649	232874972	2	61948										
HSPG2	3339	broad.mit.edu	37	chr1	22175404	22175404	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	acagtgggagccactaaggcGctgctggatggtgacaagga	16	8	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:22175404G>A	uc001bfj.2	-	58	7607	c.7567C>T	c.(7567-7569)CGC>TGC	p.R2523C	HSPG2_uc009vqd.2_Missense_Mutation_p.R2524C	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2523	Ig-like C2-type 10.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CCACTAAGGCGCTGCTGGATG	0.632													16	112	---	---	---	---	PASS	A	22175404	A	A	22175404	3	1	174	1	0	0	0	0	1	0	0	0	7430	1087	38	1	5768	1	HSPG2	1	22175404	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	5799755	22175404	227075217	3	61949										
HSPG2	3339	broad.mit.edu	37	chr1	22181477	22181477	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tctgtgcgctctgaccgggcCtgccgtgggtgagatgggtc	17	11	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:22181477C>A	uc001bfj.2	-	48	6038	c.5998_splice	c.e48-1	p.A2000_splice	HSPG2_uc009vqd.2_Splice_Site_p.A2001_splice	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor						angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CTGACCGGGCCTGCCGTGGGT	0.652													5	49	---	---	---	---	PASS	A	22181477	A	A	22181477	5	1	174	1	0	0	0	0	0	0	1	0	7430	695	24	3	7378	3	HSPG2	1	22181477	Splice_Site	SNP	C	TCGA-70-6722-01A-11D-1817-08	6073	22181477	227069144	4	61950										
C1QB	713	broad.mit.edu	37	chr1	22987582	22987582	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atgaacaacaattatgagccCcgcagtggcaagttcacctg	9	11	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:22987582C>T	uc001bgd.2	+	3	597	c.465C>T	c.(463-465)CCC>CCT	p.P155P		NM_000491	NP_000482	P02746	C1QB_HUMAN	complement component 1, q subcomponent, B chain	155	C1q.				complement activation, classical pathway|innate immune response	collagen|complement component C1 complex				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.06e-27)|Colorectal(126;1.58e-07)|GBM - Glioblastoma multiforme(114;6.72e-06)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000551)|KIRC - Kidney renal clear cell carcinoma(1967;0.0027)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	ATTATGAGCCCCGCAGTGGCA	0.592													10	89	---	---	---	---	PASS	T	22987582	T	T	22987582	2	4	174	1	0	0	0	0	0	0	0	1	1955	610	22	3		3	C1QB	1	22987582	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	806105	22987582	226263039	5	61951										
HDAC1	3065	broad.mit.edu	37	chr1	32796447	32796447	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aggcggtggttacaccattcGtaacgttgcccggtgctgga	14	10	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:32796447G>T	uc001bvb.1	+	9	980	c.917G>T	c.(916-918)CGT>CTT	p.R306L	HDAC1_uc010ohf.1_Missense_Mutation_p.R277L|HDAC1_uc001bvc.1_Missense_Mutation_p.R62L	NM_004964	NP_004955	Q13547	HDAC1_HUMAN	histone deacetylase 1	306	Histone deacetylase.				anti-apoptosis|blood coagulation|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|histone H3 deacetylation|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of androgen receptor signaling pathway|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytosol|NuRD complex|Sin3 complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|identical protein binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|RNA polymerase II transcription corepressor activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|breast(1)	3		Breast(348;0.000523)|Lung NSC(340;0.000992)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Lung SC(1967;0.113)		KIRC - Kidney renal clear cell carcinoma(1967;0.138)	Vorinostat(DB02546)	TACACCATTCGTAACGTTGCC	0.562													14	72	---	---	---	---	PASS	T	32796447	T	T	32796447	3	4	174	1	0	0	0	0	1	0	0	0	7004	1145	40	1	951	1	HDAC1	1	32796447	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	9808865	32796447	216454174	6	61952										
CSMD2	114784	broad.mit.edu	37	chr1	34180320	34180320	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cccacgccaaactgcaagccCttccggatgctgtaggctgg	11	15	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:34180320C>A	uc001bxn.1	-	21	3182	c.3153G>T	c.(3151-3153)AAG>AAT	p.K1051N	CSMD2_uc001bxm.1_Missense_Mutation_p.K1091N	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1051	Sushi 6.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				ACTGCAAGCCCTTCCGGATGC	0.652													24	62	---	---	---	---	PASS	A	34180320	A	A	34180320	3	1	174	1	0	0	0	0	1	0	0	0	3945	680	24	3	7506	3	CSMD2	1	34180320	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1383873	34180320	215070301	7	61953										
PABPC4	8761	broad.mit.edu	37	chr1	40031023	40031023	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gaagcagacgaagccaaaccCtttgcttcttccatcctcca	6	15	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:40031023C>T	uc010oiv.1	-	8	1898	c.1000G>A	c.(1000-1002)GGG>AGG	p.G334R	PABPC4_uc001cdl.2_Missense_Mutation_p.G334R|PABPC4_uc001cdm.2_Missense_Mutation_p.G334R	NM_003819	NP_003810	Q13310	PABP4_HUMAN	poly A binding protein, cytoplasmic 4 isoform 2	334	RRM 4.				blood coagulation|RNA catabolic process|RNA processing|translation	cytoplasm|ribonucleoprotein complex	nucleotide binding|poly(A) RNA binding|poly(U) RNA binding|protein binding				0	Lung NSC(20;1.55e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.89e-18)|Epithelial(16;6.17e-17)|all cancers(16;1.18e-15)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			AAGCCAAACCCTTTGCTTCTT	0.393													14	84	---	---	---	---	PASS	T	40031023	T	T	40031023	3	4	174	1	0	0	0	0	1	0	0	0	11366	681	24	3	1014	3	PABPC4	1	40031023	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	5850703	40031023	209219598	8	61954										
KDM4A	9682	broad.mit.edu	37	chr1	44121382	44121382	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcctctttactcagtacaacAtacagaagaaagccatgact	6	11	2	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:44121382A>G	uc001cjx.2	+	3	425	c.259A>G	c.(259-261)ATA>GTA	p.I87V	KDM4A_uc010oki.1_Missense_Mutation_p.I87V	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	87					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1						TCAGTACAACATACAGAAGAA	0.488													10	75	---	---	---	---	PASS	G	44121382	G	G	44121382	3	3	174	1	0	0	0	0	1	0	0	0	8128	217	8	5	265	5	KDM4A	1	44121382	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	4090359	44121382	205129239	9	61955										
ZSWIM5	57643	broad.mit.edu	37	chr1	45484728	45484728	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agcagcagcatcaatggcaaTctggtaggctgcctcaaagg	12	10	3	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:45484728T>C	uc001cnd.2	-	14	3184	c.2956A>G	c.(2956-2958)ATT>GTT	p.I986V		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	986							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TCAATGGCAATCTGGTAGGCT	0.547											OREG0013450	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	129	---	---	---	---	PASS	C	45484728	C	C	45484728	3	2	174	1	0	0	0	0	1	0	0	0	18241	1435	50	5	605	5	ZSWIM5	1	45484728	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	1363346	45484728	203765893	10	61956										
FAAH	2166	broad.mit.edu	37	chr1	46871137	46871137	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgctgaagctgcagggtgccGtgcccttcgtgcacaccaat	12	13	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:46871137G>T	uc001cpu.2	+	4	620	c.538G>T	c.(538-540)GTG>TTG	p.V180L	FAAH_uc001cpv.2_5'Flank	NM_001441	NP_001432	O00519	FAAH1_HUMAN	fatty acid amide hydrolase	180	Cytoplasmic (By similarity).				fatty acid catabolic process	cytoplasm|cytoskeleton|endomembrane system|integral to membrane|organelle membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|fatty acid amide hydrolase activity			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(166;0.155)				Propofol(DB00818)|Thiopental(DB00599)	GCAGGGTGCCGTGCCCTTCGT	0.667													28	128	---	---	---	---	PASS	T	46871137	T	T	46871137	3	4	174	1	0	0	0	0	1	0	0	0	5353	1145	40	1	552	1	FAAH	1	46871137	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1386409	46871137	202379484	11	61957										
KIAA0494	9813	broad.mit.edu	37	chr1	47154048	47154048	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gctgaaggacaggtttgcttTcttttctaccttgctcatag	9	9	3	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:47154048T>A	uc001cqk.3	-	7	1941	c.964A>T	c.(964-966)AAA>TAA	p.K322*	KIAA0494_uc010omh.1_Intron|KIAA0494_uc010omj.1_Intron|KIAA0494_uc001cql.1_Nonsense_Mutation_p.K322*	NM_014774	NP_055589	O75071	K0494_HUMAN	hypothetical protein LOC9813	322							calcium ion binding				0	Acute lymphoblastic leukemia(166;0.155)					AGGTTTGCTTTCTTTTCTACC	0.418													27	107	---	---	---	---	PASS	A	47154048	A	A	47154048	4	1	174	1	0	0	0	0	0	1	0	0	8179	1792	62	5	543	5	KIAA0494	1	47154048	Nonsense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	282911	47154048	202096573	12	61958										
PCSK9	255738	broad.mit.edu	37	chr1	55509579	55509579	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aggagacccacctctcgcagTcagagcgcactgcccgccgc	11	18	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:55509579T>A	uc001cyf.1	+	2	562	c.271T>A	c.(271-273)TCA>ACA	p.S91T	PCSK9_uc010ool.1_RNA|PCSK9_uc010oom.1_Intron	NM_174936	NP_777596	Q8NBP7	PCSK9_HUMAN	proprotein convertase subtilisin/kexin type 9	91					cellular response to insulin stimulus|cellular response to starvation|cholesterol homeostasis|cholesterol metabolic process|kidney development|liver development|low-density lipoprotein particle receptor catabolic process|lysosomal transport|negative regulation of catalytic activity|negative regulation of low-density lipoprotein particle clearance|negative regulation of receptor recycling|neuron differentiation|positive regulation of neuron apoptosis|positive regulation of receptor internalization|protein autoprocessing|regulation of receptor activity	extracellular space|late endosome|lysosome|perinuclear region of cytoplasm	apolipoprotein receptor binding|identical protein binding|low-density lipoprotein particle receptor binding|serine-type endopeptidase activity|very-low-density lipoprotein particle receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4						CCTCTCGCAGTCAGAGCGCAC	0.627													9	66	---	---	---	---	PASS	A	55509579	A	A	55509579	3	1	174	1	0	0	0	0	1	0	0	0	11606	1667	58	5	277	5	PCSK9	1	55509579	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	8355531	55509579	193741042	13	61959										
LRRC7	57554	broad.mit.edu	37	chr1	70144063	70144063	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tcttctgattctctcttataGgatggagaacctaataaggg	9	7	4	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:70144063G>T	uc001deo.1	+	2	1458	c.3_splice	c.e2-1	p.M1_splice				Q96NW7	LRRC7_HUMAN	SubName: Full=Leucine rich repeat containing 7; SubName: Full=cDNA FLJ54846, highly similar to Leucine-rich repeat-containing protein 7;							centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CTCTCTTATAGGATGGAGAAC	0.398													3	17	---	---	---	---	PASS	T	70144063	T	T	70144063	5	4	174	1	0	0	0	0	0	0	1	0	9020	1015	35	3		3	LRRC7	1	70144063	Splice_Site	SNP	G	TCGA-70-6722-01A-11D-1817-08	14634484	70144063	179106558	14	61960										
C1orf173	127254	broad.mit.edu	37	chr1	75086533	75086533	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gaagataggtgcacatttttCcccaaatagatcattgtaat	7	7	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:75086533C>A	uc001dgg.2	-	8	1104	c.885G>T	c.(883-885)GGG>GGT	p.G295G	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Silent_p.G89G	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	295										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						GCACATTTTTCCCCAAATAGA	0.363													21	64	---	---	---	---	PASS	A	75086533	A	A	75086533	2	1	174	1	0	0	0	0	0	0	0	1	2014	842	30	2		2	C1orf173	1	75086533	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	4942470	75086533	174164088	15	61961										
ELTD1	64123	broad.mit.edu	37	chr1	79386071	79386071	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aatattataatctttaatacCctaagggaaaataataataa	3	4	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:79386071C>T	uc001diq.3	-	10	1414	c.1258G>A	c.(1258-1260)GGT>AGT	p.G420S		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	420	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)		TCTTTAATACCCTAAGGGAAA	0.289													5	49	---	---	---	---	PASS	T	79386071	T	T	79386071	3	4	174	1	0	0	0	0	1	0	0	0	5084	637	22	3	838	3	ELTD1	1	79386071	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	4299538	79386071	169864550	16	61962										
GTF2B	2959	broad.mit.edu	37	chr1	89322940	89322940	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgaggccatgtaaatagctgCcgctgccacagagatggggc	14	10	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:89322940C>A	uc001dmo.3	-	6	885	c.766G>T	c.(766-768)GCA>TCA	p.A256S		NM_001514	NP_001505	Q00403	TF2B_HUMAN	general transcription factor IIB	256	2.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	thyroid hormone receptor binding|translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0131)|Epithelial(280;0.0255)		TAAATAGCTGCCGCTGCCACA	0.493													18	103	---	---	---	---	PASS	A	89322940	A	A	89322940	3	1	174	1	0	0	0	0	1	0	0	0	6855	739	26	3	192	3	GTF2B	1	89322940	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	9936869	89322940	159927681	17	61963										
RBMXL1	494115	broad.mit.edu	37	chr1	89448597	89448597	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atcatagcgactgcttccacCataagatggcgggggccctc	11	13	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:89448597C>A	uc009wcx.2	-	3	1629	c.913G>T	c.(913-915)GGT>TGT	p.G305C	CCBL2_uc001dmp.2_Intron|CCBL2_uc001dmq.2_Intron|CCBL2_uc001dmr.2_Intron|RBMXL1_uc001dms.2_Missense_Mutation_p.G305C	NM_001162536	NP_001156008	Q96E39	RBMXL_HUMAN	RNA binding motif protein, X-linked-like 1	305	Ser-rich.						nucleotide binding|RNA binding				0						CTGCTTCCACCATAAGATGGC	0.473													58	205	---	---	---	---	PASS	A	89448597	A	A	89448597	3	1	174	1	0	0	0	0	1	0	0	0	13153	594	21	3	263	3	RBMXL1	1	89448597	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	125657	89448597	159802024	18	61964										
GBP2	2634	broad.mit.edu	37	chr1	89583373	89583373	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	acacaaatgctggaaaaaagCtcacaaagtcagctgagtcg	9	9	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:89583373C>G	uc001dmz.1	-	5	783	c.512G>C	c.(511-513)AGC>ACC	p.S171T	GBP2_uc001dmy.1_RNA	NM_004120	NP_004111	P32456	GBP2_HUMAN	guanylate binding protein 2,	171					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)	1		Lung NSC(277;0.0908)		all cancers(265;0.0151)|Epithelial(280;0.0284)		TGGAAAAAAGCTCACAAAGTC	0.448													26	72	---	---	---	---	PASS	G	89583373	G	G	89583373	3	3	174	1	0	0	0	0	1	0	0	0	6274	797	28	4	1291	4	GBP2	1	89583373	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	134776	89583373	159667248	19	61965										
ALX3	257	broad.mit.edu	37	chr1	110604103	110604103	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcacagagatgtcataggcaGccgtgaaggggttccgcccc	14	12	1	2	rs140822231		TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:110604103G>T	uc001dzb.2	-	3	765	c.677C>A	c.(676-678)GCT>GAT	p.A226D		NM_006492	NP_006483	O95076	ALX3_HUMAN	aristaless-like homeobox 3	226						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(81;2.35e-05)|all_epithelial(167;7.69e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.015)|all cancers(265;0.0706)|Epithelial(280;0.0758)|Colorectal(144;0.113)|LUSC - Lung squamous cell carcinoma(189;0.135)		GTCATAGGCAGCCGTGAAGGG	0.607													21	64	---	---	---	---	PASS	T	110604103	T	T	110604103	3	4	174	1	0	0	0	0	1	0	0	0	557	971	34	3	362	3	ALX3	1	110604103	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	21020730	110604103	138646518	20	61966										
OLFML3	56944	broad.mit.edu	37	chr1	114524239	114524239	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atgccagcggcaccctgaccCctgaacgggcagcactccct	10	18	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:114524239C>T	uc001eer.1	+	3	1178	c.1069C>T	c.(1069-1071)CCT>TCT	p.P357S	OLFML3_uc001ees.1_Missense_Mutation_p.P337S|OLFML3_uc001eet.1_Missense_Mutation_p.P213S	NM_020190	NP_064575	Q9NRN5	OLFL3_HUMAN	olfactomedin-like 3 precursor	357	Olfactomedin-like.				multicellular organismal development	extracellular region					0	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CACCCTGACCCCTGAACGGGC	0.597													17	47	---	---	---	---	PASS	T	114524239	T	T	114524239	3	4	174	1	0	0	0	0	1	0	0	0	10859	623	22	3	1079	3	OLFML3	1	114524239	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	3920136	114524239	134726382	21	61967										
FCRL2	79368	broad.mit.edu	37	chr1	157745576	157745576	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aggactcacctgcctgttcaGtgactgcatctgtgaggaga	12	10	3	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:157745576G>C	uc001fre.2	-	2	100	c.41C>G	c.(40-42)ACT>AGT	p.T14S	FCRL2_uc010phz.1_Missense_Mutation_p.T14S|FCRL2_uc009wsp.2_Missense_Mutation_p.T14S|FCRL2_uc010pia.1_Missense_Mutation_p.T14S	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	14					cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TGCCTGTTCAGTGACTGCATC	0.433													4	33	---	---	---	---	PASS	C	157745576	C	C	157745576	3	2	174	1	0	0	0	0	1	0	0	0	5795	1029	36	4	1529	4	FCRL2	1	157745576	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	43221337	157745576	91505045	22	61968										
FCRLA	84824	broad.mit.edu	37	chr1	161681143	161681143	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggtccccccgggcctaacagGgaattctccatcaccgtggt	11	15	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:161681143G>T	uc001gbe.2	+	4	689	c.447G>T	c.(445-447)AGG>AGT	p.R149S	FCRLA_uc001gbd.2_Missense_Mutation_p.R143S|FCRLA_uc001gbf.2_Intron|FCRLA_uc001gbg.2_Intron|FCRLA_uc009wuo.2_Intron|FCRLA_uc009wup.2_Intron|FCRLA_uc009wuq.2_Intron	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	126	Ig-like C2-type 1.				cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			GGCCTAACAGGGAATTCTCCA	0.602													8	55	---	---	---	---	PASS	T	161681143	T	T	161681143	3	4	174	1	0	0	0	0	1	0	0	0	5800	1223	43	3	461	3	FCRLA	1	161681143	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	3935567	161681143	87569478	23	61969										
LRRC52	440699	broad.mit.edu	37	chr1	165514029	165514029	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ataccggcttgcagaccctgGacagtgctgccttataccac	9	14	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:165514029G>T	uc001gde.2	+	1	552	c.496G>T	c.(496-498)GAC>TAC	p.D166Y	LOC400794_uc001gdc.2_Intron|LOC400794_uc001gdd.2_Intron|LOC400794_uc009wvd.2_Intron	NM_001005214	NP_001005214	Q8N7C0	LRC52_HUMAN	leucine rich repeat containing 52 precursor	166	Extracellular (Potential).|LRR 5.					integral to membrane				ovary(1)	1	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)					GCAGACCCTGGACAGTGCTGC	0.517													41	166	---	---	---	---	PASS	T	165514029	T	T	165514029	3	4	174	1	0	0	0	0	1	0	0	0	9010	1174	41	2	498	2	LRRC52	1	165514029	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	3832886	165514029	83736592	24	61970										
DUSP27	92235	broad.mit.edu	37	chr1	167096615	167096615	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctgctgttgtcccgctcaccGtctgttgcaagcatgaaggc	11	13	2	1	rs140729613	byFrequency	TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:167096615G>C	uc001geb.1	+	5	2247	c.2247G>C	c.(2245-2247)CCG>CCC	p.P749P		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	749					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						CCCGCTCACCGTCTGTTGCAA	0.537													14	59	---	---	---	---	PASS	C	167096615	C	C	167096615	2	2	174	1	0	0	0	0	0	0	0	1	4824	1132	40	4		4	DUSP27	1	167096615	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	1582586	167096615	82154006	25	61971										
SELP	6403	broad.mit.edu	37	chr1	169578860	169578860	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cagttggtgtcatactgaaaCgctctcaaggatggagagca	12	8	2	2	rs138017338	byFrequency	TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:169578860C>A	uc001ggi.3	-	8	1280	c.1215G>T	c.(1213-1215)GCG>GCT	p.A405A	SELP_uc001ggh.2_Silent_p.A240A|SELP_uc009wvr.2_Silent_p.A405A	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	405	Sushi 4.|Extracellular (Potential).				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	CATACTGAAACGCTCTCAAGG	0.498													15	65	---	---	---	---	PASS	A	169578860	A	A	169578860	2	1	174	1	0	0	0	0	0	0	0	1	14019	523	19	1		1	SELP	1	169578860	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	2482245	169578860	79671761	26	61972										
TNN	63923	broad.mit.edu	37	chr1	175046707	175046707	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	acctacaagatcgatgtgccCaagtctgccttggttcaggt	10	11	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:175046707C>A	uc001gkl.1	+	2	266	c.153C>A	c.(151-153)CCC>CCA	p.P51P	TNN_uc010pmx.1_Silent_p.P51P	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	51					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		TCGATGTGCCCAAGTCTGCCT	0.617													15	39	---	---	---	---	PASS	A	175046707	A	A	175046707	2	1	174	1	0	0	0	0	0	0	0	1	16320	581	21	3		3	TNN	1	175046707	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	5467847	175046707	74203914	27	61973										
RGL1	23179	broad.mit.edu	37	chr1	183816796	183816796	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcaccttggagaagcttgtgGagaacctgctgacagctttt	12	9	0	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:183816796G>A	uc001gqo.2	+	3	392	c.235G>A	c.(235-237)GAG>AAG	p.E79K	RGL1_uc010pof.1_Intron|RGL1_uc001gqm.2_Missense_Mutation_p.E114K|RGL1_uc010pog.1_Missense_Mutation_p.E77K|RGL1_uc010poh.1_Missense_Mutation_p.E77K|RGL1_uc010poi.1_Missense_Mutation_p.E79K	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	79	N-terminal Ras-GEF.				cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						GAAGCTTGTGGAGAACCTGCT	0.473													23	138	---	---	---	---	PASS	A	183816796	A	A	183816796	3	1	174	1	0	0	0	0	1	0	0	0	13276	1175	41	2	350	2	RGL1	1	183816796	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	8770089	183816796	65433825	28	61974										
C1orf25	81627	broad.mit.edu	37	chr1	185109335	185109335	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcatttccaagatgttttgcCcactgtaatcccattatccc	5	13	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:185109335C>A	uc001grf.3	-	8	1151	c.879G>T	c.(877-879)TGG>TGT	p.W293C	C1orf25_uc010pon.1_Missense_Mutation_p.W137C	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	293						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						GATGTTTTGCCCACTGTAATC	0.294													4	53	---	---	---	---	PASS	A	185109335	A	A	185109335	3	1	174	1	0	0	0	0	1	0	0	0	2034	624	22	3	1354	3	C1orf25	1	185109335	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1292539	185109335	64141286	29	61975										
FAM5C	339479	broad.mit.edu	37	chr1	190234052	190234052	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctccgaagggtgctgtccctGtcaatgaaataagaagcggc	12	10	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:190234052G>T	uc001gse.1	-	4	793	c.561C>A	c.(559-561)GAC>GAA	p.D187E	FAM5C_uc010pot.1_Missense_Mutation_p.D85E	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	187						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TGCTGTCCCTGTCAATGAAAT	0.453													12	85	---	---	---	---	PASS	T	190234052	T	T	190234052	3	4	174	1	0	0	0	0	1	0	0	0	5594	1368	48	3	1759	3	FAM5C	1	190234052	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	5124717	190234052	59016569	30	61976										
OBSCN	84033	broad.mit.edu	37	chr1	228444413	228444413	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gaggtgcaggcccaggcgggGgccagcaccacactcagctg	16	14	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:228444413G>A	uc009xez.1	+	15	4415	c.4371G>A	c.(4369-4371)GGG>GGA	p.G1457G	OBSCN_uc001hsn.2_Silent_p.G1457G	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1457	Ig-like 15.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCCAGGCGGGGGCCAGCACCA	0.622													5	50	---	---	---	---	PASS	A	228444413	A	A	228444413	2	1	174	1	0	0	0	0	0	0	0	1	10812	1219	43	3		3	OBSCN	1	228444413	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	38210361	228444413	20806208	31	61977										
RYR2	6262	broad.mit.edu	37	chr1	237754118	237754118	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccctggggctggcctttttgGgcccaagaatgacttggaag	14	10	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:237754118G>T	uc001hyl.1	+	31	4106	c.3986G>T	c.(3985-3987)GGG>GTG	p.G1329V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1329	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GGCCTTTTTGGGCCCAAGAAT	0.517													25	89	---	---	---	---	PASS	T	237754118	T	T	237754118	3	4	174	1	0	0	0	0	1	0	0	0	13769	1232	43	3	4108	3	RYR2	1	237754118	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	9309705	237754118	11496503	32	61978										
TFB2M	64216	broad.mit.edu	37	chr1	246719931	246719931	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tattcgtccaaatttatataTagaagtacaggaatacaagt	6	5	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:246719931T>C	uc001ibn.2	-	4	774	c.649A>G	c.(649-651)ATA>GTA	p.I217V	TFB2M_uc010pys.1_RNA	NM_022366	NP_071761	Q9H5Q4	TFB2M_HUMAN	transcription factor B2, mitochondrial	217					positive regulation of transcription, DNA-dependent|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity|transcription cofactor activity			ovary(1)	1	all_cancers(71;4.25e-05)|all_epithelial(71;4.92e-06)|Ovarian(71;0.0254)|all_lung(81;0.0272)|Breast(184;0.0318)|Lung NSC(105;0.0376)		OV - Ovarian serous cystadenocarcinoma(106;0.00358)			AATTTATATATAGAAGTACAG	0.328													10	68	---	---	---	---	PASS	C	246719931	C	C	246719931	3	2	174	1	0	0	0	0	1	0	0	0	15791	1406	49	5	561	5	TFB2M	1	246719931	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	8965813	246719931	2530690	33	61979										
OR2L8	391190	broad.mit.edu	37	chr1	248112719	248112719	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cccagcaatggtgactctggCctgcatggacacctgggtct	12	13	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:248112719C>A	uc001idt.1	+	1	560	c.560C>A	c.(559-561)GCC>GAC	p.A187D	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			GTGACTCTGGCCTGCATGGAC	0.468													5	67	---	---	---	---	PASS	A	248112719	A	A	248112719	3	1	174	1	0	0	0	0	1	0	0	0	11009	739	26	3	562	3	OR2L8	1	248112719	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1392788	248112719	1137902	34	61980										
OR2L3	391192	broad.mit.edu	37	chr1	248224543	248224543	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cccagcaatggtgactctggCctgcatggacacctgggtct	12	13	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:248224543C>A	uc001idx.1	+	1	560	c.560C>A	c.(559-561)GCC>GAC	p.A187D	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			GTGACTCTGGCCTGCATGGAC	0.468													4	97	---	---	---	---	PASS	A	248224543	A	A	248224543	3	1	174	1	0	0	0	0	1	0	0	0	11008	739	26	3	562	3	OR2L3	1	248224543	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	111824	248224543	1026078	35	61981										
OR2T1	26696	broad.mit.edu	37	chr1	248569946	248569946	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cccatcaccatgagctttccCttctgcaattcccgggagat	7	15	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr1:248569946C>T	uc010pzm.1	+	1	651	c.651C>T	c.(649-651)CCC>CCT	p.P217P		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	217	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGAGCTTTCCCTTCTGCAATT	0.532													6	70	---	---	---	---	PASS	T	248569946	T	T	248569946	2	4	174	1	0	0	0	0	0	0	0	1	11016	668	24	3		3	OR2T1	1	248569946	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	345403	248569946	680675	36	61982										
XDH	7498	broad.mit.edu	37	chr2	31598392	31598392	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctctgccagtcctgcacacaCgtcctgcagcagctcctcct	7	19	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:31598392C>A	uc002rnv.1	-	15	1535	c.1456G>T	c.(1456-1458)GTG>TTG	p.V486L		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	486					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	CCTGCACACACGTCCTGCAGC	0.637													14	42	---	---	---	---	PASS	A	31598392	A	A	31598392	3	1	174	1	0	0	0	0	1	0	0	0	17423	536	19	1	2633	1	XDH	2	31598392	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08		31598392	211600981	37	61983										
LTBP1	4052	broad.mit.edu	37	chr2	33568004	33568004	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctgttatcagggctttcaagCcccacaggatgggcaagggt	13	10	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:33568004C>T	uc002ros.2	+	25	3833	c.3833C>T	c.(3832-3834)GCC>GTC	p.A1278V	LTBP1_uc002rot.2_Missense_Mutation_p.A952V|LTBP1_uc002rou.2_Missense_Mutation_p.A951V|LTBP1_uc002rov.2_Missense_Mutation_p.A898V|LTBP1_uc010ymz.1_Intron|LTBP1_uc010yna.1_Intron|LTBP1_uc010ynb.1_Intron	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1277	EGF-like 13; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				GGCTTTCAAGCCCCACAGGAT	0.463													7	66	---	---	---	---	PASS	T	33568004	T	T	33568004	3	4	174	1	0	0	0	0	1	0	0	0	9073	739	26	3	3983	3	LTBP1	2	33568004	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1969612	33568004	209631369	38	61984										
ETAA1	54465	broad.mit.edu	37	chr2	67632417	67632417	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	attactggaggaagctgttgGacagcaatctttggtgaaac	12	6	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:67632417G>A	uc002sdz.1	+	5	2742	c.2603G>A	c.(2602-2604)GGA>GAA	p.G868E		NM_019002	NP_061875	Q9NY74	ETAA1_HUMAN	ETAA16 protein	868						cytoplasm|nucleus				ovary(3)|large_intestine(1)	4						GAAGCTGTTGGACAGCAATCT	0.323													3	48	---	---	---	---	PASS	A	67632417	A	A	67632417	3	1	174	1	0	0	0	0	1	0	0	0	5267	1174	41	2	2621	2	ETAA1	2	67632417	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	34064413	67632417	175566956	39	61985										
HTRA2	27429	broad.mit.edu	37	chr2	74757145	74757145	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcggagctgatggctgcgccGagggcggggcggggtgcagg	24	9	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:74757145G>A	uc002smi.1	+	1	614	c.12G>A	c.(10-12)CCG>CCA	p.P4P	AUP1_uc002sme.2_5'Flank|AUP1_uc002smf.2_5'Flank|AUP1_uc002smg.2_5'Flank|AUP1_uc002smh.2_5'Flank|AUP1_uc010yrx.1_5'Flank|AUP1_uc010yry.1_5'Flank|HTRA2_uc002smj.1_Silent_p.P4P|HTRA2_uc002smk.1_Silent_p.P4P|HTRA2_uc002sml.1_Silent_p.P4P|HTRA2_uc002smm.1_Intron|HTRA2_uc002smn.1_Intron|HTRA2_uc010ffl.2_5'Flank	NM_013247	NP_037379	O43464	HTRA2_HUMAN	HtrA serine peptidase 2 isoform 1 preproprotein	4					apoptosis|proteolysis|response to stress	CD40 receptor complex|endoplasmic reticulum membrane|internal side of plasma membrane|mitochondrial intermembrane space|mitochondrial membrane|nucleus	serine-type endopeptidase activity|unfolded protein binding			ovary(1)	1						TGGCTGCGCCGAGGGCGGGGC	0.741													12	71	---	---	---	---	PASS	A	74757145	A	A	74757145	2	1	174	1	0	0	0	0	0	0	0	1	7454	1045	37	2		2	HTRA2	2	74757145	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	7124728	74757145	168442228	40	61986										
REG1A	5967	broad.mit.edu	37	chr2	79348720	79348720	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agacagagttgccccaggccCggatcagctgcccagaaggc	13	14	1	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:79348720C>G	uc002snz.2	+	3	200	c.97C>G	c.(97-99)CGG>GGG	p.R33G	REG1A_uc010ffx.1_Missense_Mutation_p.R33G|REG1A_uc010ysd.1_Missense_Mutation_p.R33G	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	33					positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						GCCCCAGGCCCGGATCAGCTG	0.522													36	294	---	---	---	---	PASS	G	79348720	G	G	79348720	3	3	174	1	0	0	0	0	1	0	0	0	13210	643	23	4	103	4	REG1A	2	79348720	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	4591575	79348720	163850653	41	61987										
SMYD1	150572	broad.mit.edu	37	chr2	88367421	88367421	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggagaacgtggaggtcttcaCcgctgagggcaaaggaaggg	18	7	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:88367421C>A	uc002ssr.2	+	1	40	c.38C>A	c.(37-39)ACC>AAC	p.T13N	SMYD1_uc002ssq.1_Missense_Mutation_p.T8N	NM_198274	NP_938015	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	13					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						GAGGTCTTCACCGCTGAGGGC	0.522													37	221	---	---	---	---	PASS	A	88367421	A	A	88367421	3	1	174	1	0	0	0	0	1	0	0	0	14821	507	18	3	40	3	SMYD1	2	88367421	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	9018701	88367421	154831952	42	61988										
SMYD1	150572	broad.mit.edu	37	chr2	88396283	88396283	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgaaggatgacctcttcctgGgggtgaaagacaaccccaag	12	10	1	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:88396283G>C	uc002ssr.2	+	6	870	c.868G>C	c.(868-870)GGG>CGG	p.G290R	SMYD1_uc002ssq.1_Intron|SMYD1_uc002sss.2_5'UTR	NM_198274	NP_938015	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	290					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						CCTCTTCCTGGGGGTGAAAGA	0.507													15	68	---	---	---	---	PASS	C	88396283	C	C	88396283	3	2	174	1	0	0	0	0	1	0	0	0	14821	1232	43	4	890	4	SMYD1	2	88396283	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	28862	88396283	154803090	43	61989										
SMYD1	150572	broad.mit.edu	37	chr2	88402583	88402583	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tctctctttcccagccctctCaggaagtggtgaaggagatg	11	11	3	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:88402583C>G	uc002ssr.2	+	7	897	c.895C>G	c.(895-897)CAG>GAG	p.Q299E	SMYD1_uc002ssq.1_Intron|SMYD1_uc002sss.2_5'UTR	NM_198274	NP_938015	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	299					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						CCAGCCCTCTCAGGAAGTGGT	0.413													11	67	---	---	---	---	PASS	G	88402583	G	G	88402583	3	3	174	1	0	0	0	0	1	0	0	0	14821	827	29	2	921	2	SMYD1	2	88402583	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	6300	88402583	154796790	44	61990										
ST6GAL2	84620	broad.mit.edu	37	chr2	107423361	107423361	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccgcacggatgggatatattCatacacgtgcacctctctgc	9	13	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:107423361C>T	uc002tdq.2	-	6	1482	c.1363G>A	c.(1363-1365)GAA>AAA	p.E455K	ST6GAL2_uc002tdr.2_Missense_Mutation_p.E455K	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	455	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						GGGATATATTCATACACGTGC	0.502													4	27	---	---	---	---	PASS	T	107423361	T	T	107423361	3	4	174	1	0	0	0	0	1	0	0	0	15221	835	29	2	230	2	ST6GAL2	2	107423361	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	19020778	107423361	135776012	45	61991										
GLI2	2736	broad.mit.edu	37	chr2	121685040	121685040	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cattctgtccacggtgtgcaCgggtaagtcctgccctctgc	11	14	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:121685040C>A	uc010flp.2	+	2	282	c.252C>A	c.(250-252)CAC>CAA	p.H84Q	GLI2_uc010yyu.1_Missense_Mutation_p.H84Q|GLI2_uc002tmp.1_Missense_Mutation_p.H84Q|GLI2_uc010fln.1_RNA|GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Intron|GLI2_uc002tmu.3_Intron|GLI2_uc002tmv.1_Missense_Mutation_p.H84Q|GLI2_uc010flo.1_Intron|GLI2_uc002tmw.1_Missense_Mutation_p.H84Q	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	84					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				ACGGTGTGCACGGGTAAGTCC	0.612													64	98	---	---	---	---	PASS	A	121685040	A	A	121685040	3	1	174	1	0	0	0	0	1	0	0	0	6438	535	19	1	258	1	GLI2	2	121685040	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	14261679	121685040	121514333	46	61992										
CNTNAP5	129684	broad.mit.edu	37	chr2	124783296	124783296	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggcttgtggcatttaggattAacagcgacaaactgtgagta	12	6	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:124783296A>T	uc002tno.2	+	1	433	c.69A>T	c.(67-69)TTA>TTT	p.L23F	CNTNAP5_uc010flu.2_Missense_Mutation_p.L23F	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	23					cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		ATTTAGGATTAACAGCGACAA	0.502													20	74	---	---	---	---	PASS	T	124783296	T	T	124783296	3	4	174	1	0	0	0	0	1	0	0	0	3650	359	13	5	71	5	CNTNAP5	2	124783296	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	3098256	124783296	118416077	47	61993										
NCKAP5	344148	broad.mit.edu	37	chr2	133539769	133539769	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tctgtttccaaaccccaagaCttttgcatctttcttttcta	3	12	4	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:133539769C>A	uc002ttp.2	-	14	4989	c.4615G>T	c.(4615-4617)GTC>TTC	p.V1539F	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1539							protein binding				0						AACCCCAAGACTTTTGCATCT	0.393													52	142	---	---	---	---	PASS	A	133539769	A	A	133539769	3	1	174	1	0	0	0	0	1	0	0	0	10223	565	20	3	1142	3	NCKAP5	2	133539769	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	8756473	133539769	109659604	48	61994										
NCKAP5	344148	broad.mit.edu	37	chr2	133636486	133636486	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	caaagccaacgctgaattctCtgcctgcagtaagatacaaa	7	11	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:133636486C>A	uc002ttp.2	-	9	957	c.583G>T	c.(583-585)GAG>TAG	p.E195*	NCKAP5_uc002ttq.2_Nonsense_Mutation_p.E195*	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	195	Potential.						protein binding				0						GCTGAATTCTCTGCCTGCAGT	0.388													16	68	---	---	---	---	PASS	A	133636486	A	A	133636486	4	1	174	1	0	0	0	0	0	1	0	0	10223	922	32	2	5194	2	NCKAP5	2	133636486	Nonsense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	96717	133636486	109562887	49	61995										
LRP1B	53353	broad.mit.edu	37	chr2	141359163	141359163	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tagagcttgtccagtacagtGtatcccaggctctgtgatag	11	9	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:141359163G>C	uc002tvj.1	-	42	7817	c.6845C>G	c.(6844-6846)ACA>AGA	p.T2282R		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2282	Extracellular (Potential).|LDL-receptor class B 24.				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)		CCAGTACAGTGTATCCCAGGC	0.448										TSP Lung(27;0.18)			12	44	---	---	---	---	PASS	C	141359163	C	C	141359163	3	2	174	1	0	0	0	0	1	0	0	0	8955	1377	48	4	7154	4	LRP1B	2	141359163	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	7722677	141359163	101840210	50	61996										
SLC4A10	57282	broad.mit.edu	37	chr2	162760661	162760661	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gtcatcacgtttggaggactGctgggagaagcaactgaagg	15	7	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:162760661G>T	uc002ubx.3	+	13	1774	c.1590G>T	c.(1588-1590)CTG>CTT	p.L530L	SLC4A10_uc010zcr.1_RNA|SLC4A10_uc002uby.3_Silent_p.L500L|SLC4A10_uc010zcs.1_Silent_p.L511L	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	530	Helical; (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						TTGGAGGACTGCTGGGAGAAG	0.408													7	18	---	---	---	---	PASS	T	162760661	T	T	162760661	2	4	174	1	0	0	0	0	0	0	0	1	14651	1306	46	3		3	SLC4A10	2	162760661	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	21401498	162760661	80438712	51	61997										
COL3A1	1281	broad.mit.edu	37	chr2	189868786	189868786	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctgcgggtaacactggtgctCctggcagccctggagtgtct	14	12	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:189868786C>A	uc002uqj.1	+	39	2857	c.2740C>A	c.(2740-2742)CCT>ACT	p.P914T		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	914	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	CACTGGTGCTCCTGGCAGCCC	0.567													4	40	---	---	---	---	PASS	A	189868786	A	A	189868786	3	1	174	1	0	0	0	0	1	0	0	0	3688	855	30	2	2894	2	COL3A1	2	189868786	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	27108125	189868786	53330587	52	61998										
SATB2	23314	broad.mit.edu	37	chr2	200298194	200298194	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctgttgtcatattcaagagaGccgtccaactgctccacgac	8	13	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:200298194G>C	uc002uuy.1	-	3	1030	c.213C>G	c.(211-213)GGC>GGG	p.G71G	SATB2_uc010fsq.1_Silent_p.G71G|SATB2_uc002uuz.1_Silent_p.G71G|SATB2_uc002uva.1_Silent_p.G71G	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	71						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						ATTCAAGAGAGCCGTCCAACT	0.473													23	118	---	---	---	---	PASS	C	200298194	C	C	200298194	2	2	174	1	0	0	0	0	0	0	0	1	13854	958	34	4		4	SATB2	2	200298194	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	10429408	200298194	42901179	53	61999										
ABCA12	26154	broad.mit.edu	37	chr2	215854167	215854167	+	Frame_Shift_Del	DEL	A	-	-													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atcctgaaccggggaggtgtAcatattttcccactgaagac							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:215854167delA	uc002vew.2	-	26	3935	c.3715delT	c.(3715-3717)TACfs	p.Y1239fs	ABCA12_uc002vev.2_Frame_Shift_Del_p.Y921fs|ABCA12_uc010zjn.1_Frame_Shift_Del_p.Y166fs	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1239					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GGGGAGGTGTACATATTTTCC	0.408													114	52	---	---	---	---		-	215854167	-	-	215854167	7	5	174	1	0	1	0	1	0	0	0	0	30	391	14	0	4184	0	ABCA12	2	215854167	Frame_Shift_Del	DEL	A	TCGA-70-6722-01A-11D-1817-08	15555973	215854167	27345206	54	62000										
HDAC4	9759	broad.mit.edu	37	chr2	240029801	240029801	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gggaccagatgctctggatcCtcccggcgtgctcggggtgg	17	12	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr2:240029801C>T	uc002vyk.3	-	15	2834	c.2042G>A	c.(2041-2043)AGG>AAG	p.R681K	HDAC4_uc010fyz.1_Missense_Mutation_p.R676K|HDAC4_uc010zoa.1_Missense_Mutation_p.R681K|HDAC4_uc010fza.2_Missense_Mutation_p.R686K|HDAC4_uc010fyy.2_Missense_Mutation_p.R638K|HDAC4_uc010znz.1_Missense_Mutation_p.R564K	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	681	Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		GCTCTGGATCCTCCCGGCGTG	0.692													6	27	---	---	---	---	PASS	T	240029801	T	T	240029801	3	4	174	1	0	0	0	0	1	0	0	0	7009	681	24	3	1264	3	HDAC4	2	240029801	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	24175634	240029801	3169572	55	62001										
CNTN6	27255	broad.mit.edu	37	chr3	1414067	1414067	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	accatgccaggtgtcccatgAcccctccattgaagtggtat	9	13	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:1414067A>T	uc003boz.2	+	13	1844	c.1577A>T	c.(1576-1578)GAC>GTC	p.D526V	CNTN6_uc011asj.1_Missense_Mutation_p.D454V|CNTN6_uc003bpa.2_Missense_Mutation_p.D526V	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	526	Ig-like C2-type 6.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		GTGTCCCATGACCCCTCCATT	0.413													10	55	---	---	---	---	PASS	T	1414067	T	T	1414067	3	4	174	1	0	0	0	0	1	0	0	0	3645	275	10	5	1623	5	CNTN6	3	1414067	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08		1414067	196608363	56	62002										
ATP2B2	491	broad.mit.edu	37	chr3	10370598	10370598	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgatcccactgtcgatggcgCtgttgttcttgttgagggat	13	8	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:10370598C>A	uc003bvt.2	-	23	4071	c.3632G>T	c.(3631-3633)AGC>ATC	p.S1211I	ATP2B2_uc003bvv.2_Missense_Mutation_p.S1166I|ATP2B2_uc003bvw.2_Missense_Mutation_p.S1166I|ATP2B2_uc003bvs.2_RNA|ATP2B2_uc010hdo.2_Missense_Mutation_p.S916I|hsa-mir-378b|MI0014154_5'Flank	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	1211	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						GTCGATGGCGCTGTTGTTCTT	0.577													15	48	---	---	---	---	PASS	A	10370598	A	A	10370598	3	1	174	1	0	0	0	0	1	0	0	0	1140	797	28	3	103	3	ATP2B2	3	10370598	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	8956531	10370598	187651832	57	62003										
HRH1	3269	broad.mit.edu	37	chr3	11300949	11300949	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tctcggtggcggacttgatcGtgggtgccgtcgtcatgcct	15	11	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:11300949G>T	uc010hdr.2	+	2	568	c.226G>T	c.(226-228)GTG>TTG	p.V76L	HRH1_uc010hds.2_Missense_Mutation_p.V76L|HRH1_uc010hdt.2_Missense_Mutation_p.V76L|HRH1_uc003bwb.3_Missense_Mutation_p.V76L	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1	76	Helical; Name=2; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	GGACTTGATCGTGGGTGCCGT	0.572													26	68	---	---	---	---	PASS	T	11300949	T	T	11300949	3	4	174	1	0	0	0	0	1	0	0	0	7355	1145	40	1	228	1	HRH1	3	11300949	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	930351	11300949	186721481	58	62004										
OXSM	54995	broad.mit.edu	37	chr3	25832949	25832949	+	Silent	SNP	T	A	A													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gaagctgatcaagtggctacTggtgttgcaattggcatggg							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:25832949T>A	uc003cdn.2	+	2	545	c.438T>A	c.(436-438)ACT>ACA	p.T146T	NGLY1_uc011awo.1_5'Flank|OXSM_uc011awp.1_Intron|OXSM_uc010hfh.2_Silent_p.T146T	NM_017897	NP_060367	Q9NWU1	OXSM_HUMAN	3-oxoacyl-ACP synthase, mitochondrial isoform 1	146					acyl-CoA metabolic process|medium-chain fatty acid biosynthetic process|short-chain fatty acid biosynthetic process	mitochondrion	3-oxoacyl-[acyl-carrier-protein] synthase activity			ovary(1)|breast(1)	2						AAGTGGCTACTGGTGTTGCAA	0.438													34	87	---	---	---	---	PASS	A	25832949	A	A	25832949	2	1	174	1	0	0	0	0	0	0	0	1	11335	1567	55	5		5	OXSM	3	25832949	Silent	SNP	T	TCGA-70-6722-01A-11D-1817-08	14532000	25832949	172189481	59	62005	1072	2								
OXSM	54995	broad.mit.edu	37	chr3	25832953	25832953	+	Missense_Mutation	SNP	G	T	T													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctgatcaagtggctactggtGttgcaattggcatgggaatg							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:25832953G>T	uc003cdn.2	+	2	549	c.442G>T	c.(442-444)GTT>TTT	p.V148F	NGLY1_uc011awo.1_5'Flank|OXSM_uc011awp.1_Intron|OXSM_uc010hfh.2_Missense_Mutation_p.V148F	NM_017897	NP_060367	Q9NWU1	OXSM_HUMAN	3-oxoacyl-ACP synthase, mitochondrial isoform 1	148					acyl-CoA metabolic process|medium-chain fatty acid biosynthetic process|short-chain fatty acid biosynthetic process	mitochondrion	3-oxoacyl-[acyl-carrier-protein] synthase activity			ovary(1)|breast(1)	2						GGCTACTGGTGTTGCAATTGG	0.443													36	85	---	---	---	---	PASS	T	25832953	T	T	25832953	3	4	174	1	0	0	0	0	1	0	0	0	11335	1377	48	3	444	3	OXSM	3	25832953	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	4	25832953	172189477	60	62006	1072	2								
ERC2	26059	broad.mit.edu	37	chr3	55922476	55922476	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atccggaggttggccaagtgCgcttctttttcggccaggga	14	10	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:55922476C>A	uc003dhr.1	-	14	2761	c.2505G>T	c.(2503-2505)GCG>GCT	p.A835A	ERC2_uc003dhq.1_RNA|ERC2_uc003dht.1_Silent_p.A314A	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	835	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		TGGCCAAGTGCGCTTCTTTTT	0.537													42	140	---	---	---	---	PASS	A	55922476	A	A	55922476	2	1	174	1	0	0	0	0	0	0	0	1	5211	755	27	1		1	ERC2	3	55922476	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	30089523	55922476	142099954	61	62007										
GPR15	2838	broad.mit.edu	37	chr3	98251656	98251656	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctggctgcccttcaatacttTcaagttcctggccattgtct	7	13	3	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:98251656T>G	uc011bgy.1	+	1	779	c.779T>G	c.(778-780)TTC>TGC	p.F260C		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	260	Helical; Name=6; (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		TTCAATACTTTCAAGTTCCTG	0.458													35	64	---	---	---	---	PASS	G	98251656	G	G	98251656	3	3	174	1	0	0	0	0	1	0	0	0	6655	1783	62	5	781	5	GPR15	3	98251656	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	42329180	98251656	99770774	62	62008										
ZBTB20	26137	broad.mit.edu	37	chr3	114070443	114070443	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	actgcgagacccgtagcacgCcgctgtacatgaagtcaatg	11	12	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:114070443C>A	uc003ebi.2	-	4	662	c.482G>T	c.(481-483)GGC>GTC	p.G161V	ZBTB20_uc003ebj.2_Missense_Mutation_p.G88V|ZBTB20_uc010hqp.2_Missense_Mutation_p.G88V|ZBTB20_uc003ebk.2_Missense_Mutation_p.G88V|ZBTB20_uc003ebl.2_Missense_Mutation_p.G88V|ZBTB20_uc003ebm.2_Missense_Mutation_p.G88V|ZBTB20_uc003ebn.2_Missense_Mutation_p.G88V|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	161	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		CCGTAGCACGCCGCTGTACAT	0.562													42	35	---	---	---	---	PASS	A	114070443	A	A	114070443	3	1	174	1	0	0	0	0	1	0	0	0	17526	739	26	3	1751	3	ZBTB20	3	114070443	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	15818787	114070443	83951987	63	62009										
IGSF11	152404	broad.mit.edu	37	chr3	118647366	118647366	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgtcactcacctaacactgtGagaccggtgaccccaatgtt	8	13	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:118647366G>A	uc003ebw.2	-	3	661	c.414C>T	c.(412-414)CTC>CTT	p.L138L	IGSF11_uc011biv.1_Silent_p.L138L|IGSF11_uc003ebx.2_Silent_p.L138L|IGSF11_uc003eby.2_Silent_p.L137L|IGSF11_uc003ebz.2_Silent_p.L137L|IGSF11_uc010hqs.2_Silent_p.L137L	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	138	Extracellular (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						CTAACACTGTGAGACCGGTGA	0.493													9	72	---	---	---	---	PASS	A	118647366	A	A	118647366	2	1	174	1	0	0	0	0	0	0	0	1	7598	1277	45	2		2	IGSF11	3	118647366	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	4576923	118647366	79375064	64	62010										
EPHB1	2047	broad.mit.edu	37	chr3	134670256	134670256	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgaaaacctgaacaccatccGcacctaccaggtgtgcaatg	8	13	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:134670256G>T	uc003eqt.2	+	3	387	c.167G>T	c.(166-168)CGC>CTC	p.R56L	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_Missense_Mutation_p.R56L	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	56	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding	p.R56P(1)		lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						AACACCATCCGCACCTACCAG	0.517													14	16	---	---	---	---	PASS	T	134670256	T	T	134670256	3	4	174	1	0	0	0	0	1	0	0	0	5174	1087	38	1	177	1	EPHB1	3	134670256	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	16022890	134670256	63352174	65	62011										
GK5	256356	broad.mit.edu	37	chr3	141917686	141917686	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cagaccaatctcaaagaagtCtgctgggttgtgaaagtgaa	11	7	2	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:141917686C>A	uc003euq.1	-	5	632	c.501G>T	c.(499-501)CAG>CAT	p.Q167H	GK5_uc010hus.1_RNA|GK5_uc010hut.1_RNA	NM_001039547	NP_001034636	Q6ZS86	GLPK5_HUMAN	glycerol kinase 5 (putative)	167					glycerol metabolic process		ATP binding|glycerol kinase activity				0						TCAAAGAAGTCTGCTGGGTTG	0.353													6	74	---	---	---	---	PASS	A	141917686	A	A	141917686	3	1	174	1	0	0	0	0	1	0	0	0	6422	912	32	2	1136	2	GK5	3	141917686	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	7247430	141917686	56104744	66	62012										
FAM194A	131831	broad.mit.edu	37	chr3	150377748	150377748	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tttataccagaactgtgacaAagggcaattagttttagaga	9	5	0	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:150377748A>C	uc003eyg.2	-	14	1980	c.1923T>G	c.(1921-1923)CTT>CTG	p.L641L	FAM194A_uc003eyh.2_Silent_p.L495L	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	641										skin(2)|ovary(1)	3						AACTGTGACAAAGGGCAATTA	0.313													56	82	---	---	---	---	PASS	C	150377748	C	C	150377748	2	2	174	1	0	0	0	0	0	0	0	1	5526	1	1	5		5	FAM194A	3	150377748	Silent	SNP	A	TCGA-70-6722-01A-11D-1817-08	8460062	150377748	47644682	67	62013										
AADAC	13	broad.mit.edu	37	chr3	151535239	151535239	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgatgaagtcccaccaacctCagatgaaaatgtcactgtga	8	10	2	5	rs150521396		TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:151535239C>T	uc003eze.2	+	2	314	c.224C>T	c.(223-225)TCA>TTA	p.S75L		NM_001086	NP_001077	P22760	AAAD_HUMAN	arylacetamide deacetylase	75	Lumenal (Potential).				positive regulation of triglyceride catabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	carboxylesterase activity|deacetylase activity|serine hydrolase activity|triglyceride lipase activity			skin(2)	2		Myeloproliferative disorder(1037;0.0255)|all_neural(597;0.112)	LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			CCACCAACCTCAGATGAAAAT	0.413													18	78	---	---	---	---	PASS	T	151535239	T	T	151535239	3	4	174	1	0	0	0	0	1	0	0	0	10	838	29	2	230	2	AADAC	3	151535239	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1157491	151535239	46487191	68	62014										
ECT2	1894	broad.mit.edu	37	chr3	172537961	172537961	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atcccttctccctcccttgtCagccttccttccttctttga	3	18	3	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:172537961C>T	uc003fii.2	+	24	2724	c.2586C>T	c.(2584-2586)GTC>GTT	p.V862V	ECT2_uc003fih.2_Silent_p.V861V|ECT2_uc003fij.1_Silent_p.V862V|ECT2_uc003fik.1_Silent_p.V862V|ECT2_uc003fil.1_Silent_p.V893V|ECT2_uc003fim.1_3'UTR	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	862					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			CCTCCCTTGTCAGCCTTCCTT	0.318													17	155	---	---	---	---	PASS	T	172537961	T	T	172537961	2	4	174	1	0	0	0	0	0	0	0	1	4901	813	29	2		2	ECT2	3	172537961	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	21002722	172537961	25484469	69	62015										
PIK3CA	5290	broad.mit.edu	37	chr3	178928298	178928298	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tatgtcagtgattgaagagcAtgccaattggtctgtatccc	10	8	2	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr3:178928298A>T	uc003fjk.2	+	9	1641	c.1484A>T	c.(1483-1485)CAT>CTT	p.H495L		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	495					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			ATTGAAGAGCATGCCAATTGG	0.418		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			39	63	---	---	---	---	PASS	T	178928298	T	T	178928298	3	4	174	1	0	0	0	0	1	0	0	0	11913	217	8	5	1514	5	PIK3CA	3	178928298	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	6390337	178928298	19094132	70	62016										
RGS12	6002	broad.mit.edu	37	chr4	3422404	3422404	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atggaggcctgtgtcgccgaGagtcgcagggctctgtgtcc	16	11	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:3422404G>A	uc003ggw.2	+	10	3701	c.2797G>A	c.(2797-2799)GAG>AAG	p.E933K	RGS12_uc003ggv.2_Missense_Mutation_p.E933K|RGS12_uc003ggy.1_Missense_Mutation_p.E331K|RGS12_uc003ggz.2_Missense_Mutation_p.E285K|RGS12_uc010icu.1_Missense_Mutation_p.E132K|RGS12_uc011bvs.1_Missense_Mutation_p.E275K|RGS12_uc003gha.2_Missense_Mutation_p.E275K|RGS12_uc010icv.2_Missense_Mutation_p.E132K|RGS12_uc003ghb.2_Missense_Mutation_p.E132K	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	933						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GTGTCGCCGAGAGTCGCAGGG	0.602													9	59	---	---	---	---	PASS	A	3422404	A	A	3422404	3	1	174	1	0	0	0	0	1	0	0	0	13295	943	33	2	2889	2	RGS12	4	3422404	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08		3422404	187731872	71	62017										
DRD5	1816	broad.mit.edu	37	chr4	9783772	9783772	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	accgccactggggccctcacAggtggtcaccgcctgcctgc	12	18	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:9783772A>G	uc003gmb.3	+	1	515	c.119A>G	c.(118-120)CAG>CGG	p.Q40R		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	40	Helical; Name=1; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	GGGCCCTCACAGGTGGTCACC	0.711													5	14	---	---	---	---	PASS	G	9783772	G	G	9783772	3	3	174	1	0	0	0	0	1	0	0	0	4760	188	7	5	121	5	DRD5	4	9783772	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	6361368	9783772	181370504	72	62018										
SLC2A9	56606	broad.mit.edu	37	chr4	9828172	9828172	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	caaaatacaggtagatagcaCctgtgatacaaattgtagca	8	7	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:9828172C>A	uc003gmc.2	-	12	1533	c.1472G>T	c.(1471-1473)GGT>GTT	p.G491V	SLC2A9_uc003gmd.2_Missense_Mutation_p.G462V	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein	491	Helical; Name=12; (Potential).				glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						GTAGATAGCACCTGTGATACA	0.408													39	90	---	---	---	---	PASS	A	9828172	A	A	9828172	3	1	174	1	0	0	0	0	1	0	0	0	14552	507	18	3	154	3	SLC2A9	4	9828172	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	44400	9828172	181326104	73	62019										
NKX3-2	579	broad.mit.edu	37	chr4	13544134	13544134	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggccaacaccgtcgtcctcgGtccttgggctgcggtcgcct	13	16	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:13544134G>T	uc003gmx.2	-	2	561	c.485C>A	c.(484-486)ACC>AAC	p.T162N		NM_001189	NP_001180	P78367	NKX32_HUMAN	NK3 homeobox 2	162					negative regulation of chondrocyte differentiation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GTCGTCCTCGGTCCTTGGGCT	0.493													8	40	---	---	---	---	PASS	T	13544134	T	T	13544134	3	4	174	1	0	0	0	0	1	0	0	0	10456	1261	44	3	520	3	NKX3-2	4	13544134	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	3715962	13544134	177610142	74	62020										
BOD1L	259282	broad.mit.edu	37	chr4	13616019	13616019	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cctttctcattgctgtctggCttcttttcacctttgtctgt	6	12	5	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:13616019C>A	uc003gmz.1	-	4	1092	c.975G>T	c.(973-975)AAG>AAT	p.K325N	BOD1L_uc010idr.1_5'UTR|BOD1L_uc010ids.1_RNA	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	325	Lys-rich.						DNA binding			ovary(5)|breast(1)	6						TGCTGTCTGGCTTCTTTTCAC	0.244													9	9	---	---	---	---	PASS	A	13616019	A	A	13616019	3	1	174	1	0	0	0	0	1	0	0	0	1483	796	28	3	8272	3	BOD1L	4	13616019	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	71885	13616019	177538257	75	62021										
PCDH7	5099	broad.mit.edu	37	chr4	30921915	30921915	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tcagggccaagactgggtgcGcttccactcccagaggacaa	12	13	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:30921915G>C	uc011bxx.1	+	2	4323	c.3315G>C	c.(3313-3315)GCG>GCC	p.A1105A	PCDH7_uc011bxw.1_Silent_p.A1058A	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	Error:Variant_position_missing_in_O60245_after_alignment					homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GACTGGGTGCGCTTCCACTCC	0.542													16	61	---	---	---	---	PASS	C	30921915	C	C	30921915	2	2	174	1	0	0	0	0	0	0	0	1	11516	1074	38	4		4	PCDH7	4	30921915	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	17305896	30921915	160232361	76	62022										
C4orf7	260436	broad.mit.edu	37	chr4	71099810	71099810	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tccatttcgcccacttccacCaattccatttccaagatttc	2	16	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:71099810C>A	uc003hfd.2	+	4	249	c.164C>A	c.(163-165)CCA>CAA	p.P55Q		NM_152997	NP_694542	Q8NFU4	FDSCP_HUMAN	chromosome 4 open reading frame 7 precursor	55	Pro-rich.					extracellular region				central_nervous_system(1)	1						CCACTTCCACCAATTCCATTT	0.408													64	164	---	---	---	---	PASS	A	71099810	A	A	71099810	3	1	174	1	0	0	0	0	1	0	0	0	2279	594	21	3	174	3	C4orf7	4	71099810	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	40177895	71099810	120054466	77	62023										
SHROOM3	57619	broad.mit.edu	37	chr4	77662456	77662456	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cggcacccctgggcccgcagAgaaatgggatgcgtttcccg	14	14	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:77662456A>T	uc011cbx.1	+	5	4083	c.3130A>T	c.(3130-3132)AGA>TGA	p.R1044*	SHROOM3_uc011cbz.1_Nonsense_Mutation_p.R868*|SHROOM3_uc003hkf.1_Nonsense_Mutation_p.R919*|SHROOM3_uc003hkg.2_Nonsense_Mutation_p.R822*	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	1044					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			GGGCCCGCAGAGAAATGGGAT	0.677													15	26	---	---	---	---	PASS	T	77662456	T	T	77662456	4	4	174	1	0	0	0	0	0	1	0	0	14295	296	11	5	3148	5	SHROOM3	4	77662456	Nonsense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	6562646	77662456	113491820	78	62024										
SPARCL1	8404	broad.mit.edu	37	chr4	88414957	88414957	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	catcaactccatgatttctgGgcgtggtattaccatcatca	7	11	4	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:88414957G>C	uc010ikm.2	-	5	1567	c.995C>G	c.(994-996)CCC>CGC	p.P332R	SPARCL1_uc011cdc.1_Missense_Mutation_p.P207R|SPARCL1_uc003hqs.3_Missense_Mutation_p.P332R|SPARCL1_uc011cdd.1_Missense_Mutation_p.P207R|SPARCL1_uc003hqt.2_Missense_Mutation_p.P332R	NM_001128310	NP_001121782	Q14515	SPRL1_HUMAN	SPARC-like 1 precursor	332					signal transduction	extracellular space|proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00118)		ATGATTTCTGGGCGTGGTATT	0.413													38	114	---	---	---	---	PASS	C	88414957	C	C	88414957	3	2	174	1	0	0	0	0	1	0	0	0	14995	1232	43	4	1031	4	SPARCL1	4	88414957	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	10752501	88414957	102739319	79	62025										
OSTC	58505	broad.mit.edu	37	chr4	109571833	109571833	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tggagactttgtaccgtgtcCcgttcttagtgctcgaatgt	11	9	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:109571833C>T	uc003hzb.1	+	1	93	c.22C>T	c.(22-24)CCG>TCG	p.P8S		NM_021227	NP_067050	Q9NRP0	OSTC_HUMAN	DC2 protein	8	Cytoplasmic (Potential).					integral to membrane|oligosaccharyltransferase complex				breast(1)	1						GTACCGTGTCCCGTTCTTAGT	0.597													34	66	---	---	---	---	PASS	T	109571833	T	T	109571833	3	4	174	1	0	0	0	0	1	0	0	0	11296	623	22	3	24	3	OSTC	4	109571833	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	21156876	109571833	81582443	80	62026										
ANK2	287	broad.mit.edu	37	chr4	114278280	114278280	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tttctagagcagaatctccaCaagcagattgccccagtgaa	8	11	2	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:114278280C>A	uc003ibe.3	+	38	8606	c.8506C>A	c.(8506-8508)CAA>AAA	p.Q2836K	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.Q138K|ANK2_uc011cgb.1_Missense_Mutation_p.Q2851K	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2803					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AGAATCTCCACAAGCAGATTG	0.413													29	71	---	---	---	---	PASS	A	114278280	A	A	114278280	3	1	174	1	0	0	0	0	1	0	0	0	621	479	17	3	8721	3	ANK2	4	114278280	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	4706447	114278280	76875996	81	62027										
NDST4	64579	broad.mit.edu	37	chr4	115997762	115997762	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctaaaagctctcgattccatGagtccatgctgacatacttc	6	12	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:115997762G>T	uc003ibu.2	-	2	1110	c.431C>A	c.(430-432)TCA>TAA	p.S144*	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	144	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TCGATTCCATGAGTCCATGCT	0.358													22	54	---	---	---	---	PASS	T	115997762	T	T	115997762	4	4	174	1	0	0	0	0	0	1	0	0	10258	1294	45	2	2239	2	NDST4	4	115997762	Nonsense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1719482	115997762	75156514	82	62028										
ARHGAP10	79658	broad.mit.edu	37	chr4	148743893	148743893	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tctaggtctgtcagtggcccAgcggaagtttgctcattcac	11	11	5	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:148743893A>T	uc003ilf.2	+	2	170	c.170A>T	c.(169-171)CAG>CTG	p.Q57L	ARHGAP10_uc003ile.1_Missense_Mutation_p.Q57L	NM_024605	NP_078881	A1A4S6	RHG10_HUMAN	Rho GTPase activating protein 10	57	BAR.				apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			skin(2)|pancreas(1)|lung(1)	4	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)		TCAGTGGCCCAGCGGAAGTTT	0.348													17	65	---	---	---	---	PASS	T	148743893	T	T	148743893	3	4	174	1	0	0	0	0	1	0	0	0	862	188	7	5	176	5	ARHGAP10	4	148743893	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	32746131	148743893	42410383	83	62029										
SPOCK3	50859	broad.mit.edu	37	chr4	167833819	167833819	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccacaaacagggctgggataGaccactgggcactgcttgca	12	12	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:167833819G>T	uc003iri.1	-	6	576	c.435C>A	c.(433-435)GTC>GTA	p.V145V	SPOCK3_uc011cjp.1_Silent_p.V142V|SPOCK3_uc011cjq.1_Silent_p.V154V|SPOCK3_uc011cjr.1_Silent_p.V25V|SPOCK3_uc003irj.1_Silent_p.V142V|SPOCK3_uc011cjs.1_Silent_p.V94V|SPOCK3_uc011cjt.1_Silent_p.V53V|SPOCK3_uc011cju.1_Silent_p.V38V|SPOCK3_uc011cjv.1_Intron|SPOCK3_uc003irk.3_Silent_p.V142V|SPOCK3_uc011cjw.1_Intron	NM_016950	NP_058646	Q9BQ16	TICN3_HUMAN	testican 3 isoform 2	145	Kazal-like.				signal transduction	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase inhibitor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)		GGCTGGGATAGACCACTGGGC	0.428													11	48	---	---	---	---	PASS	T	167833819	T	T	167833819	2	4	174	1	0	0	0	0	0	0	0	1	15080	929	33	2		2	SPOCK3	4	167833819	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	19089926	167833819	23320457	84	62030										
ENPP6	133121	broad.mit.edu	37	chr4	185138911	185138911	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccagcagcttccggcgggcaGaggctggctgggccaggccc	17	15	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr4:185138911G>T	uc003iwc.2	-	1	204	c.62C>A	c.(61-63)TCT>TAT	p.S21Y		NM_153343	NP_699174	Q6UWR7	ENPP6_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	21					lipid catabolic process	extracellular region|integral to membrane|plasma membrane				central_nervous_system(1)	1		all_lung(41;7.99e-12)|Lung NSC(41;1.46e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;4.98e-27)|Epithelial(43;3.15e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.09e-12)|Colorectal(24;3.78e-05)|STAD - Stomach adenocarcinoma(60;4.5e-05)|COAD - Colon adenocarcinoma(29;0.000154)|GBM - Glioblastoma multiforme(59;0.000167)|BRCA - Breast invasive adenocarcinoma(30;0.000378)|LUSC - Lung squamous cell carcinoma(40;0.0151)		CCGGCGGGCAGAGGCTGGCTG	0.617													11	30	---	---	---	---	PASS	T	185138911	T	T	185138911	3	4	174	1	0	0	0	0	1	0	0	0	5134	942	33	2	1292	2	ENPP6	4	185138911	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	17305092	185138911	6015365	85	62031										
DNAH5	1767	broad.mit.edu	37	chr5	13911575	13911575	+	Nonsense_Mutation	SNP	C	A	A													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctggtctaggaaattgtattCctttttctttatggttgcca							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:13911575C>A	uc003jfd.2	-	12	1606	c.1564G>T	c.(1564-1566)GAA>TAA	p.E522*	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	522	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AAATTGTATTCCTTTTTCTTT	0.299									Kartagener_syndrome				33	87	---	---	---	---	PASS	A	13911575	A	A	13911575	4	1	174	1	0	0	0	0	0	1	0	0	4604	864	30	2	12582	2	DNAH5	5	13911575	Nonsense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08		13911575	167003685	86	62032	1073	2								
DNAH5	1767	broad.mit.edu	37	chr5	13911576	13911576	+	Missense_Mutation	SNP	C	A	A													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tggtctaggaaattgtattcCtttttctttatggttgccac							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:13911576C>A	uc003jfd.2	-	12	1605	c.1563G>T	c.(1561-1563)AAG>AAT	p.K521N	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	521	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AATTGTATTCCTTTTTCTTTA	0.303									Kartagener_syndrome				33	88	---	---	---	---	PASS	A	13911576	A	A	13911576	3	1	174	1	0	0	0	0	1	0	0	0	4604	680	24	3	12583	3	DNAH5	5	13911576	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1	13911576	167003684	87	62033	1073	2								
TRIO	7204	broad.mit.edu	37	chr5	14336720	14336720	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctggggaatgtgaccccgaaGagatttatcaggctgcccat	12	10	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:14336720G>C	uc003jff.2	+	11	1936	c.1930G>C	c.(1930-1932)GAG>CAG	p.E644Q	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.E595Q|TRIO_uc003jfh.1_Missense_Mutation_p.E293Q	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	644	Spectrin 2.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					TGACCCCGAAGAGATTTATCA	0.493													10	93	---	---	---	---	PASS	C	14336720	C	C	14336720	3	2	174	1	0	0	0	0	1	0	0	0	16549	943	33	2	1972	2	TRIO	5	14336720	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	425144	14336720	166578540	88	62034										
CDH10	1008	broad.mit.edu	37	chr5	24509761	24509761	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atatcttcatgaacttcaaaCagataggaggacctactaaa	6	8	3	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:24509761C>A	uc003jgr.1	-	7	1502	c.1170G>T	c.(1168-1170)CTG>CTT	p.L390L	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	390	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		GAACTTCAAACAGATAGGAGG	0.398										HNSCC(23;0.051)			13	56	---	---	---	---	PASS	A	24509761	A	A	24509761	2	1	174	1	0	0	0	0	0	0	0	1	3096	465	17	3		3	CDH10	5	24509761	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	10173041	24509761	156405499	89	62035										
PRLR	5618	broad.mit.edu	37	chr5	35065578	35065578	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aagggggttttctcctggggCagcagccagggcgtatcctg	16	10	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:35065578C>A	uc003jjm.2	-	10	2012	c.1482G>T	c.(1480-1482)CTG>CTT	p.L494L	PRLR_uc003jjg.1_Intron|PRLR_uc003jjh.1_Intron|PRLR_uc003jji.1_Intron|PRLR_uc003jjj.1_Intron|PRLR_uc003jjk.1_Intron|PRLR_uc003jjl.3_Silent_p.L393L	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	494	Cytoplasmic (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	TCTCCTGGGGCAGCAGCCAGG	0.493													23	141	---	---	---	---	PASS	A	35065578	A	A	35065578	2	1	174	1	0	0	0	0	0	0	0	1	12531	697	25	3		3	PRLR	5	35065578	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	10555817	35065578	145849682	90	62036										
FYB	2533	broad.mit.edu	37	chr5	39134313	39134313	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tacgtacttgcacatacctgCtaatatcatcctgctctgca	5	13	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:39134313C>A	uc003jls.2	-	8	1881	c.1814G>T	c.(1813-1815)AGC>ATC	p.S605I	FYB_uc003jlt.2_Missense_Mutation_p.S605I|FYB_uc003jlu.2_Missense_Mutation_p.S605I|FYB_uc011cpl.1_Missense_Mutation_p.S615I	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	605					cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			CACATACCTGCTAATATCATC	0.373													13	175	---	---	---	---	PASS	A	39134313	A	A	39134313	3	1	174	1	0	0	0	0	1	0	0	0	6124	797	28	3	719	3	FYB	5	39134313	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	4068735	39134313	141780947	91	62037										
HTR1A	3350	broad.mit.edu	37	chr5	63256965	63256965	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aaggtggaatagatagtgtaGccatgatccttgctaatggt	12	5	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:63256965G>T	uc011cqt.1	-	1	582	c.582C>A	c.(580-582)GGC>GGA	p.G194G		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	194	Helical; Name=5; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	AGATAGTGTAGCCATGATCCT	0.582													52	165	---	---	---	---	PASS	T	63256965	T	T	63256965	2	4	174	1	0	0	0	0	0	0	0	1	7436	958	34	3		3	HTR1A	5	63256965	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	24122652	63256965	117658295	92	62038										
CMYA5	202333	broad.mit.edu	37	chr5	79028312	79028312	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agtctgagatgaaatattcaGttttgcctgacatggtagat	10	5	2	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:79028312G>C	uc003kgc.2	+	2	3796	c.3724G>C	c.(3724-3726)GTT>CTT	p.V1242L		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1242						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GAAATATTCAGTTTTGCCTGA	0.408													3	20	---	---	---	---	PASS	C	79028312	C	C	79028312	3	2	174	1	0	0	0	0	1	0	0	0	3590	1029	36	4	3730	4	CMYA5	5	79028312	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	15771347	79028312	101886948	93	62039										
CMYA5	202333	broad.mit.edu	37	chr5	79029057	79029057	+	Missense_Mutation	SNP	G	C	C													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agataaatctgaggaagcaaGggtagaagacaaacaagatc							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:79029057G>C	uc003kgc.2	+	2	4541	c.4469G>C	c.(4468-4470)AGG>ACG	p.R1490T		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1490						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GAGGAAGCAAGGGTAGAAGAC	0.388													27	138	---	---	---	---	PASS	C	79029057	C	C	79029057	3	2	174	1	0	0	0	0	1	0	0	0	3590	1000	35	4	4475	4	CMYA5	5	79029057	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	745	79029057	101886203	94	62040	1074	2								
CMYA5	202333	broad.mit.edu	37	chr5	79029058	79029058	+	Missense_Mutation	SNP	G	T	T													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gataaatctgaggaagcaagGgtagaagacaaacaagatct							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:79029058G>T	uc003kgc.2	+	2	4542	c.4470G>T	c.(4468-4470)AGG>AGT	p.R1490S		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1490						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AGGAAGCAAGGGTAGAAGACA	0.388													28	138	---	---	---	---	PASS	T	79029058	T	T	79029058	3	4	174	1	0	0	0	0	1	0	0	0	3590	1223	43	3	4476	3	CMYA5	5	79029058	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1	79029058	101886202	95	62041	1074	2								
GPR98	84059	broad.mit.edu	37	chr5	89925282	89925282	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	acctcatttttccagagcaaAaaactcaagtcactacaaaa	3	11	3	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:89925282A>G	uc003kju.2	+	9	1861	c.1765A>G	c.(1765-1767)AAA>GAA	p.K589E	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	589	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TCCAGAGCAAAAAACTCAAGT	0.254													27	73	---	---	---	---	PASS	G	89925282	G	G	89925282	3	3	174	1	0	0	0	0	1	0	0	0	6721	15	1	5	1799	5	GPR98	5	89925282	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	10896224	89925282	90989978	96	62042										
GPR98	84059	broad.mit.edu	37	chr5	89953949	89953949	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	caagagatgacaatgacgagGaaggagaagaattattcatt	11	4	1	5			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:89953949G>T	uc003kju.2	+	21	4702	c.4606G>T	c.(4606-4608)GAA>TAA	p.E1536*	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1536	Calx-beta 10.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CAATGACGAGGAAGGAGAAGA	0.348													36	106	---	---	---	---	PASS	T	89953949	T	T	89953949	4	4	174	1	0	0	0	0	0	1	0	0	6721	1175	41	2	4688	2	GPR98	5	89953949	Nonsense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	28667	89953949	90961311	97	62043										
POU5F2	134187	broad.mit.edu	37	chr5	93077094	93077094	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccaggggaatcctccacacgTcagggcctgggcagatccct	12	15	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:93077094T>G	uc003kkl.1	-	1	216	c.176A>C	c.(175-177)GAC>GCC	p.D59A	FAM172A_uc010jbd.2_Intron|FAM172A_uc011cuf.1_Intron|FAM172A_uc011cug.1_Intron|FAM172A_uc011cuh.1_Intron|FAM172A_uc011cui.1_Intron|FAM172A_uc011cuj.1_Intron	NM_153216	NP_694948	Q8N7G0	PO5F2_HUMAN	POU domain class 5, transcription factor 2	59						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(142;3.87e-05)|all_epithelial(76;4.59e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0415)|all cancers(79;2.03e-19)		CCTCCACACGTCAGGGCCTGG	0.672													9	23	---	---	---	---	PASS	G	93077094	G	G	93077094	3	3	174	1	0	0	0	0	1	0	0	0	12283	1667	58	5	814	5	POU5F2	5	93077094	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	3123145	93077094	87838166	98	62044										
PCDHA1	56147	broad.mit.edu	37	chr5	140167301	140167301	+	Missense_Mutation	SNP	A	T	T													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cgccgggctgccacatcttcAcggtgtctgcgcgggacgcg							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:140167301A>T	uc003lhb.2	+	1	1426	c.1426A>T	c.(1426-1428)ACG>TCG	p.T476S	PCDHA1_uc003lha.2_Missense_Mutation_p.T476S|PCDHA1_uc003lgz.2_Missense_Mutation_p.T476S	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	476	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCACATCTTCACGGTGTCTGC	0.657													31	68	---	---	---	---	PASS	T	140167301	T	T	140167301	3	4	174	1	0	0	0	0	1	0	0	0	11519	159	6	5	1428	5	PCDHA1	5	140167301	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	47090207	140167301	40747959	99	62045	1075	2								
PCDHA1	56147	broad.mit.edu	37	chr5	140167302	140167302	+	Missense_Mutation	SNP	C	T	T													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gccgggctgccacatcttcaCggtgtctgcgcgggacgcgg							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:140167302C>T	uc003lhb.2	+	1	1427	c.1427C>T	c.(1426-1428)ACG>ATG	p.T476M	PCDHA1_uc003lha.2_Missense_Mutation_p.T476M|PCDHA1_uc003lgz.2_Missense_Mutation_p.T476M	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	476	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACATCTTCACGGTGTCTGCG	0.652													32	67	---	---	---	---	PASS	T	140167302	T	T	140167302	3	4	174	1	0	0	0	0	1	0	0	0	11519	536	19	1	1429	1	PCDHA1	5	140167302	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1	140167302	40747958	100	62046	1075	2								
PCDHB15	56121	broad.mit.edu	37	chr5	140625185	140625185	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cgctttcccgaacaaaggcaAgtcctgattctccttctttt	6	13	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:140625185A>T	uc003lje.2	+	1	39	c.39A>T	c.(37-39)CAA>CAT	p.Q13H		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	13					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AACAAAGGCAAGTCCTGATTC	0.527													30	71	---	---	---	---	PASS	T	140625185	T	T	140625185	3	4	174	1	0	0	0	0	1	0	0	0	11540	69	3	5	41	5	PCDHB15	5	140625185	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	457883	140625185	40290075	101	62047										
PCDHGA7	56108	broad.mit.edu	37	chr5	140762771	140762771	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctgcgctcagagtgcgcggtGtctggtaaactttaacatcc	11	11	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:140762771G>T	uc003lka.1	+	1	305	c.305G>T	c.(304-306)TGT>TTT	p.C102F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.C102F	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	102	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTGCGCGGTGTCTGGTAAAC	0.483													36	62	---	---	---	---	PASS	T	140762771	T	T	140762771	3	4	174	1	0	0	0	0	1	0	0	0	11559	1377	48	3	307	3	PCDHGA7	5	140762771	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	137586	140762771	40152489	102	62048										
PCDHGB7	56099	broad.mit.edu	37	chr5	140798237	140798237	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgaaggccactgaccaggacGagggcatcaactcagagatc	12	11	2	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:140798237G>T	uc003lkn.1	+	1	956	c.811G>T	c.(811-813)GAG>TAG	p.E271*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Nonsense_Mutation_p.E271*|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	271	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGACCAGGACGAGGGCATCAA	0.527													13	35	---	---	---	---	PASS	T	140798237	T	T	140798237	4	4	174	1	0	0	0	0	0	1	0	0	11568	1059	37	2	813	2	PCDHGB7	5	140798237	Nonsense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	35466	140798237	40117023	103	62049										
CANX	821	broad.mit.edu	37	chr5	179151779	179151779	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggaggaggaaggagaagagaAacttggtaagaaacagagtc	16	3	0	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr5:179151779A>T	uc003mkk.2	+	13	1817	c.1640A>T	c.(1639-1641)AAA>ATA	p.K547I	CANX_uc011dgp.1_Missense_Mutation_p.K582I|CANX_uc003mkl.2_Missense_Mutation_p.K547I|CANX_uc011dgq.1_Missense_Mutation_p.K439I	NM_001746	NP_001737	P27824	CALX_HUMAN	calnexin precursor	547	Cytoplasmic (Potential).				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein secretion	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane|melanosome	calcium ion binding|sugar binding|unfolded protein binding				0	all_cancers(89;0.000129)|all_epithelial(37;5.59e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0413)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)	ggagaagagAAACTTGGTAAG	0.234													3	6	---	---	---	---	PASS	T	179151779	T	T	179151779	3	4	174	1	0	0	0	0	1	0	0	0	2618	14	1	5	1686	5	CANX	5	179151779	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	38353542	179151779	1763481	104	62050										
NUP153	9972	broad.mit.edu	37	chr6	17661915	17661915	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gaggtttagaagcaacaaagCgtgttctttctcgtctcatc	9	9	3	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:17661915C>A	uc003ncd.1	-	11	1564	c.1364G>T	c.(1363-1365)CGC>CTC	p.R455L	NUP153_uc011dje.1_Missense_Mutation_p.R455L|NUP153_uc010jpl.1_Missense_Mutation_p.R455L	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	455				TR -> HA (in Ref. 1; CAA80982).	carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			AGCAACAAAGCGTGTTCTTTC	0.453													33	126	---	---	---	---	PASS	A	17661915	A	A	17661915	3	1	174	1	0	0	0	0	1	0	0	0	10755	768	27	1	3111	1	NUP153	6	17661915	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08		17661915	153453152	105	62051										
TRIM38	10475	broad.mit.edu	37	chr6	25973469	25973469	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tcatactatgtgcaatgtttCcaagctttacttcgatgtga	7	8	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:25973469C>T	uc003nfm.2	+	7	1265	c.830C>T	c.(829-831)TCC>TTC	p.S277F	TRIM38_uc003nfn.2_Missense_Mutation_p.S259F|TRIM38_uc010jqd.2_5'UTR	NM_006355	NP_006346	O00635	TRI38_HUMAN	tripartite motif-containing 38	277	B30.2/SPRY.				positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular	signal transducer activity|zinc ion binding				0						TGCAATGTTTCCAAGCTTTAC	0.418													11	31	---	---	---	---	PASS	T	25973469	T	T	25973469	3	4	174	1	0	0	0	0	1	0	0	0	16509	855	30	2	848	2	TRIM38	6	25973469	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	8311554	25973469	145141598	106	62052										
TNXB	7148	broad.mit.edu	37	chr6	32047066	32047066	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	actgtcagctcccccaggagCggctcctcgggggactccgg	14	16	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:32047066C>A	uc003nzl.2	-	11	4321	c.4119G>T	c.(4117-4119)CCG>CCT	p.P1373P		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1460	Fibronectin type-III 7.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CCCCCAGGAGCGGCTCCTCGG	0.627													23	64	---	---	---	---	PASS	A	32047066	A	A	32047066	2	1	174	1	0	0	0	0	0	0	0	1	16343	755	27	1		1	TNXB	6	32047066	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	6073597	32047066	139068001	107	62053										
PPT2	9374	broad.mit.edu	37	chr6	32122917	32122917	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gaggctgtggtccccatcatGgcaaaggcccctcaaggggt	14	12	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:32122917G>A	uc003nzx.2	+	3	862	c.294G>A	c.(292-294)ATG>ATA	p.M98I	PRRT1_uc003nzu.2_5'Flank|uc003nzv.3_5'Flank|PPT2_uc003nzw.2_Missense_Mutation_p.M104I|PPT2_uc011dpi.1_Intron|PPT2_uc003nzy.1_RNA|PPT2_uc003nzz.2_Missense_Mutation_p.M98I|PPT2_uc003oaa.2_Missense_Mutation_p.M98I|PPT2_uc010jtu.1_Missense_Mutation_p.M98I	NM_005155	NP_005146	Q9UMR5	PPT2_HUMAN	palmitoyl-protein thioesterase 2 isoform a	98					protein modification process	lysosome	palmitoyl-(protein) hydrolase activity				0						TCCCCATCATGGCAAAGGCCC	0.582													7	64	---	---	---	---	PASS	A	32122917	A	A	32122917	3	1	174	1	0	0	0	0	1	0	0	0	12412	1348	47	3	322	3	PPT2	6	32122917	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	75851	32122917	138992150	108	62054										
LRFN2	57497	broad.mit.edu	37	chr6	40399870	40399870	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ttgaggagttccctaccaggCggtcatcgggggctacccag	14	12	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:40399870C>T	uc003oph.1	-	2	1448	c.983G>A	c.(982-984)CGC>CAC	p.R328H		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	328	Extracellular (Potential).|Ig-like.					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					CCCTACCAGGCGGTCATCGGG	0.582													10	62	---	---	---	---	PASS	T	40399870	T	T	40399870	3	4	174	1	0	0	0	0	1	0	0	0	8938	768	27	1	1394	1	LRFN2	6	40399870	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	8276953	40399870	130715197	109	62055										
CRISP2	7180	broad.mit.edu	37	chr6	49676896	49676896	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cagtaaccagaaacaacaccGgtagtaaagccattgctgga	9	10	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:49676896G>A	uc003ozq.2	-	4	270	c.14C>T	c.(13-15)CCG>CTG	p.P5L	CRISP2_uc003ozl.2_Missense_Mutation_p.P5L|CRISP2_uc003ozn.2_Missense_Mutation_p.P5L|CRISP2_uc003ozr.2_Missense_Mutation_p.P5L|CRISP2_uc003ozo.2_Missense_Mutation_p.P5L|CRISP2_uc003ozm.2_Missense_Mutation_p.P5L|CRISP2_uc003ozp.2_Missense_Mutation_p.P5L	NM_001142408	NP_001135880	P16562	CRIS2_HUMAN	cysteine-rich secretory protein 2 precursor	5						extracellular space				skin(1)	1	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			AAACAACACCGGTAGTAAAGC	0.373													6	77	---	---	---	---	PASS	A	49676896	A	A	49676896	3	1	174	1	0	0	0	0	1	0	0	0	3880	1116	39	1	745	1	CRISP2	6	49676896	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	9277026	49676896	121438171	110	62056										
COL9A1	1297	broad.mit.edu	37	chr6	70964204	70964204	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	acccctgcaatcctgcatcaCcaggaggcccaggttttcct	8	16	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:70964204C>G	uc003pfg.3	-	25	1853	c.1694G>C	c.(1693-1695)GGT>GCT	p.G565A	COL9A1_uc003pfe.3_Missense_Mutation_p.G138A|COL9A1_uc003pff.3_Missense_Mutation_p.G322A	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	565	Triple-helical region (COL2).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						TCCTGCATCACCAGGAGGCCC	0.388													9	84	---	---	---	---	PASS	G	70964204	G	G	70964204	3	3	174	1	0	0	0	0	1	0	0	0	3707	507	18	4	1127	4	COL9A1	6	70964204	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	21287308	70964204	100150863	111	62057										
FILIP1	27145	broad.mit.edu	37	chr6	76022257	76022257	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gaaacctccttttcggctgtCacgtttactggtcggacagt	10	11	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:76022257C>T	uc003pia.2	-	5	3664	c.3291G>A	c.(3289-3291)GTG>GTA	p.V1097V	FILIP1_uc003phy.1_Silent_p.V1097V|FILIP1_uc003phz.2_Silent_p.V998V|FILIP1_uc010kbe.2_Silent_p.V1100V|FILIP1_uc003pib.1_Silent_p.V849V	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	1097										skin(3)|ovary(1)	4						TTTCGGCTGTCACGTTTACTG	0.507													22	131	---	---	---	---	PASS	T	76022257	T	T	76022257	2	4	174	1	0	0	0	0	0	0	0	1	5894	813	29	2		2	FILIP1	6	76022257	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	5058053	76022257	95092810	112	62058										
HTR1E	3354	broad.mit.edu	37	chr6	87726078	87726078	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aattctctgatcaaccctctGctctatacgagttttaatga	5	10	4	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:87726078G>T	uc003pli.2	+	2	1729	c.1026G>T	c.(1024-1026)CTG>CTT	p.L342L		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	342	Helical; Name=7; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	TCAACCCTCTGCTCTATACGA	0.433													15	160	---	---	---	---	PASS	T	87726078	T	T	87726078	2	4	174	1	0	0	0	0	0	0	0	1	7439	1306	46	3		3	HTR1E	6	87726078	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	11703821	87726078	83388989	113	62059										
CDK19	23097	broad.mit.edu	37	chr6	110935789	110935789	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tactgtgagctctgctgagaCgaggaagagtagccaagtgt	14	7	1	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:110935789C>A	uc003puh.1	-	13	1531	c.1458G>T	c.(1456-1458)TCG>TCT	p.S486S	CDK19_uc003pui.1_Silent_p.S426S|CDK19_uc011eax.1_Silent_p.S362S	NM_015076	NP_055891	Q9BWU1	CDK19_HUMAN	cell division cycle 2-like 6 (CDK8-like)	486	Ser-rich.						ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						TCTGCTGAGACGAGGAAGAGT	0.592													25	62	---	---	---	---	PASS	A	110935789	A	A	110935789	2	1	174	1	0	0	0	0	0	0	0	1	3135	523	19	1		1	CDK19	6	110935789	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	23209711	110935789	60179278	114	62060										
DCBLD1	285761	broad.mit.edu	37	chr6	117859846	117859846	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agcttcttcctcatggcagtCggtcaatgagagtggagacc	12	10	3	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:117859846C>T	uc003pxs.2	+	8	949	c.824C>T	c.(823-825)TCG>TTG	p.S275L	GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxr.1_Missense_Mutation_p.S275L|DCBLD1_uc003pxt.1_5'Flank	NM_173674	NP_775945	Q8N8Z6	DCBD1_HUMAN	discoidin, CUB and LCCL domain containing 1	275	F5/8 type C.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(1)	1		all_cancers(87;0.171)		GBM - Glioblastoma multiforme(226;0.0447)|OV - Ovarian serous cystadenocarcinoma(136;0.0921)|all cancers(137;0.125)		TCATGGCAGTCGGTCAATGAG	0.502													21	135	---	---	---	---	PASS	T	117859846	T	T	117859846	3	4	174	1	0	0	0	0	1	0	0	0	4280	893	31	2	854	2	DCBLD1	6	117859846	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	6924057	117859846	53255221	115	62061										
L3MBTL3	84456	broad.mit.edu	37	chr6	130378581	130378581	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	taaaggaaagaaagcgtggtGctgggcatcctacctggaag	14	7	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:130378581G>C	uc003qbt.2	+	9	868	c.698G>C	c.(697-699)TGC>TCC	p.C233S	L3MBTL3_uc003qbu.2_Missense_Mutation_p.C208S	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	233	MBT 1.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		AAAGCGTGGTGCTGGGCATCC	0.527													7	26	---	---	---	---	PASS	C	130378581	C	C	130378581	3	2	174	1	0	0	0	0	1	0	0	0	8593	1319	46	4	724	4	L3MBTL3	6	130378581	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	12518735	130378581	40736486	116	62062										
SNX9	51429	broad.mit.edu	37	chr6	158318005	158318005	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aactgggacactgccttcggCcacccccaggcctaccaagg	10	17	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:158318005C>A	uc003qqv.1	+	5	620	c.447C>A	c.(445-447)GGC>GGA	p.G149G		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	149					cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)		CTGCCTTCGGCCACCCCCAGG	0.582													18	44	---	---	---	---	PASS	A	158318005	A	A	158318005	2	1	174	1	0	0	0	0	0	0	0	1	14909	726	26	3		3	SNX9	6	158318005	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	27939424	158318005	12797062	117	62063										
LPA	4018	broad.mit.edu	37	chr6	160998175	160998175	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atcaaatacatacgcatttgGgtagttttctggggtcctct	9	8	3	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr6:160998175G>T	uc003qtl.2	-	29	4744	c.4624C>A	c.(4624-4626)CCA>ACA	p.P1542T		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4050	Kringle 36.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	TACGCATTTGGGTAGTTTTCT	0.438													50	168	---	---	---	---	PASS	T	160998175	T	T	160998175	3	4	174	1	0	0	0	0	1	0	0	0	8903	1232	43	3	1546	3	LPA	6	160998175	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	2680170	160998175	10116892	118	62064										
IQCE	23288	broad.mit.edu	37	chr7	2606780	2606780	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gtctgtctgcagtcacctttGactctgatgtggagacggtg	13	9	4	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:2606780G>A	uc003smo.3	+	2	251	c.67G>A	c.(67-69)GAC>AAC	p.D23N	IQCE_uc010ksm.1_Missense_Mutation_p.D23N|IQCE_uc003sml.1_Missense_Mutation_p.D23N|IQCE_uc011jvy.1_Intron|IQCE_uc011jvz.1_Intron|IQCE_uc003smk.3_Intron|IQCE_uc003smn.3_Intron	NM_152558	NP_689771	Q6IPM2	IQCE_HUMAN	IQ motif containing E isoform 1	23											0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.23e-13)		AGTCACCTTTGACTCTGATGT	0.572													3	46	---	---	---	---	PASS	A	2606780	A	A	2606780	3	1	174	1	0	0	0	0	1	0	0	0	7806	1290	45	2	73	2	IQCE	7	2606780	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08		2606780	156531883	119	62065										
OCM	654231	broad.mit.edu	37	chr7	5920533	5920533	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggtagaaaatgagcatcacgGacgtgctcagtgctgacgac	13	9	2	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:5920533G>A	uc003spe.3	+	1	105	c.13G>A	c.(13-15)GAC>AAC	p.D5N		NM_001097622	NP_001091091	P0CE72	ONCO_HUMAN	oncomodulin	5							calcium ion binding				0		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0978)|OV - Ovarian serous cystadenocarcinoma(56;2.11e-14)		GAGCATCACGGACGTGCTCAG	0.547													15	86	---	---	---	---	PASS	A	5920533	A	A	5920533	3	1	174	1	0	0	0	0	1	0	0	0	10821	1174	41	2	15	2	OCM	7	5920533	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	3313753	5920533	153218130	120	62066										
GPNMB	10457	broad.mit.edu	37	chr7	23299746	23299746	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cgcacaagtgaaagatgtgtAcgtggtaacaggtgagtggt	15	5	0	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:23299746A>T	uc003swc.2	+	5	850	c.689A>T	c.(688-690)TAC>TTC	p.Y230F	GPNMB_uc003swb.2_Missense_Mutation_p.Y230F|GPNMB_uc011jyy.1_Missense_Mutation_p.Y172F|GPNMB_uc011jyz.1_Missense_Mutation_p.Y131F	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	230	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			AAAGATGTGTACGTGGTAACA	0.478													25	128	---	---	---	---	PASS	T	23299746	T	T	23299746	3	4	174	1	0	0	0	0	1	0	0	0	6620	391	14	5	707	5	GPNMB	7	23299746	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	17379213	23299746	135838917	121	62067										
HOXA10	3206	broad.mit.edu	37	chr7	27213793	27213793	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gccccccgcgccaccaccacCgccgcctgcctcgcctctgc	8	26	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:27213793C>G	uc011jzm.1	-	1	163	c.133G>C	c.(133-135)GGT>CGT	p.G45R	HOXA10_uc003syw.3_Intron	NM_018951	NP_061824	P31260	HXA10_HUMAN	homeobox A10 isoform a	45	Poly-Gly.				spermatogenesis		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						ccaccaccaccgccgccTGCC	0.507													17	61	---	---	---	---	PASS	G	27213793	G	G	27213793	3	3	174	1	0	0	0	0	1	0	0	0	7289	652	23	4	1107	4	HOXA10	7	27213793	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	3914047	27213793	131924870	122	62068										
ADCYAP1R1	117	broad.mit.edu	37	chr7	31126607	31126607	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctacgctgagactctactttGatgacacagggttagtacat	9	9	1	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:31126607G>T	uc003tca.1	+	11	1097	c.874G>T	c.(874-876)GAT>TAT	p.D292Y	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.D271Y|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.D292Y|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.D292Y|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.D292Y|ADCYAP1R1_uc003tcf.1_5'UTR	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	292	Extracellular (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						ACTCTACTTTGATGACACAGG	0.507													25	167	---	---	---	---	PASS	T	31126607	T	T	31126607	3	4	174	1	0	0	0	0	1	0	0	0	303	1290	45	2	912	2	ADCYAP1R1	7	31126607	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	3912814	31126607	128012056	123	62069										
GLI3	2737	broad.mit.edu	37	chr7	42007481	42007481	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgctgatgggggactgttggCtgctgcatgaagactgacca	15	8	0	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:42007481C>A	uc011kbh.1	-	14	2235	c.2144G>T	c.(2143-2145)AGC>ATC	p.S715I	GLI3_uc011kbg.1_Missense_Mutation_p.S656I	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	715					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GGACTGTTGGCTGCTGCATGA	0.542									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				23	209	---	---	---	---	PASS	A	42007481	A	A	42007481	3	1	174	1	0	0	0	0	1	0	0	0	6439	797	28	3	2606	3	GLI3	7	42007481	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	10880874	42007481	117131182	124	62070										
IGFBP3	3486	broad.mit.edu	37	chr7	45956972	45956972	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgggatcagacacccggtgcGtgctggagacggacgggctc	17	11	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:45956972G>T	uc003tns.2	-	2	602	c.470C>A	c.(469-471)ACG>AAG	p.T157K	IGFBP3_uc003tnq.2_RNA|IGFBP3_uc003tnr.2_Missense_Mutation_p.T163K|IGFBP3_uc003tnt.2_Missense_Mutation_p.T60K	NM_000598	NP_000589	P17936	IBP3_HUMAN	insulin-like growth factor binding protein 3	157	Ser/Thr-rich.				negative regulation of protein phosphorylation|negative regulation of signal transduction|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|positive regulation of apoptosis|positive regulation of myoblast differentiation|protein phosphorylation|regulation of cell growth	nucleus	insulin-like growth factor I binding|metal ion binding|protein tyrosine phosphatase activator activity			large_intestine(2)|lung(1)	3					Mecasermin(DB01277)	CACCCGGTGCGTGCTGGAGAC	0.532											OREG0018049	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	137	---	---	---	---	PASS	T	45956972	T	T	45956972	3	4	174	1	0	0	0	0	1	0	0	0	7580	1145	40	1	417	1	IGFBP3	7	45956972	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	3949491	45956972	113181691	125	62071										
IKZF1	10320	broad.mit.edu	37	chr7	50468275	50468275	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	accacagccaggaccggtacGagttctcgtcgcacataacg	10	14	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:50468275G>C	uc003tow.3	+	9	1678	c.1510G>C	c.(1510-1512)GAG>CAG	p.E504Q	IKZF1_uc003tox.3_Missense_Mutation_p.E462Q|IKZF1_uc003toy.3_Missense_Mutation_p.E462Q|IKZF1_uc011kck.1_Missense_Mutation_p.E417Q|IKZF1_uc003toz.3_Missense_Mutation_p.E474Q|IKZF1_uc010kyx.2_Missense_Mutation_p.E244Q|IKZF1_uc003tpa.3_Missense_Mutation_p.E246Q	NM_006060	NP_006051	Q13422	IKZF1_HUMAN	zinc finger protein, subfamily 1A, 1 (Ikaros)	504	C2H2-type 6.				cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding	p.E504fs*?(1)		haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				GGACCGGTACGAGTTCTCGTC	0.612			D		ALL								11	137	---	---	---	---	PASS	C	50468275	C	C	50468275	3	2	174	1	0	0	0	0	1	0	0	0	7614	1059	37	2	1536	2	IKZF1	7	50468275	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	4511303	50468275	108670388	126	62072										
EGFR	1956	broad.mit.edu	37	chr7	55259469	55259469	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcgacctggcagccaggaacGtactggtgaaaacaccgcag	13	12	0	1	rs146795390		TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:55259469G>T	uc003tqk.2	+	21	2773	c.2527G>T	c.(2527-2529)GTA>TTA	p.V843L	EGFR_uc010kzg.1_Missense_Mutation_p.V798L|EGFR_uc011kco.1_Missense_Mutation_p.V790L|uc003tqo.2_5'Flank	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	843	Cytoplasmic (Potential).|Protein kinase.				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V843I(6)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	AGCCAGGAACGTACTGGTGAA	0.537		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			198	88	---	---	---	---	PASS	T	55259469	T	T	55259469	3	4	174	1	0	0	0	0	1	0	0	0	4967	1145	40	1	2873	1	EGFR	7	55259469	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	4791194	55259469	103879194	127	62073										
EGFR	1956	broad.mit.edu	37	chr7	55259524	55259524	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agattttgggctggccaaacTgctgggtgcggaagagaaag	16	6	0	2	rs121913444		TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:55259524T>A	uc003tqk.2	+	21	2828	c.2582T>A	c.(2581-2583)CTG>CAG	p.L861Q	EGFR_uc010kzg.1_Missense_Mutation_p.L816Q|EGFR_uc011kco.1_Missense_Mutation_p.L808Q|uc003tqo.2_5'Flank	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	861	Cytoplasmic (Potential).|Protein kinase.		L -> Q (found in a lung cancer sample).		activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.L861Q(96)|p.L861R(10)|p.A859_L883>V(2)|p.L861F(1)|p.L861V(1)|p.L861P(1)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	CTGGCCAAACTGCTGGGTGCG	0.557		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			174	98	---	---	---	---	PASS	A	55259524	A	A	55259524	3	1	174	1	0	0	0	0	1	0	0	0	4967	1580	55	5	2928	5	EGFR	7	55259524	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	55	55259524	103879139	128	62074										
ABCB4	5244	broad.mit.edu	37	chr7	87082427	87082427	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcaacaagaactccagcaccCaatcctgagtagtaatatgc	7	12	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:87082427C>A	uc003uiv.1	-	6	445	c.369G>T	c.(367-369)TTG>TTT	p.L123F	ABCB4_uc003uiw.1_Missense_Mutation_p.L123F|ABCB4_uc003uix.1_Missense_Mutation_p.L123F|ABCB4_uc003uiy.2_Missense_Mutation_p.L123F	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	123	Helical; (By similarity).|ABC transmembrane type-1 1.				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CTCCAGCACCCAATCCTGAGT	0.308													25	71	---	---	---	---	PASS	A	87082427	A	A	87082427	3	1	174	1	0	0	0	0	1	0	0	0	43	593	21	3	3583	3	ABCB4	7	87082427	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	31822903	87082427	72056236	129	62075										
ANKIB1	54467	broad.mit.edu	37	chr7	92019373	92019373	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	attctcaagtgttcttatccAtatggatttttcttggaacc	6	8	3	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:92019373A>T	uc003ulw.2	+	15	2371	c.1995A>T	c.(1993-1995)CCA>CCT	p.P665P	ANKIB1_uc010lew.1_5'UTR	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	665							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GTTCTTATCCATATGGATTTT	0.333													42	114	---	---	---	---	PASS	T	92019373	T	T	92019373	2	4	174	1	0	0	0	0	0	0	0	1	630	204	8	5		5	ANKIB1	7	92019373	Silent	SNP	A	TCGA-70-6722-01A-11D-1817-08	4936946	92019373	67119290	130	62076										
BRI3	25798	broad.mit.edu	37	chr7	97920546	97920546	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgccccaactgtggagccacCttcgcttaaagggaacacca	9	14	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:97920546C>G	uc003upi.2	+	3	498	c.369C>G	c.(367-369)ACC>ACG	p.T123T	BRI3_uc011kip.1_Intron	NM_015379	NP_056194	O95415	BRI3_HUMAN	brain protein I3 isoform a	123						integral to membrane					0	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)					GTGGAGCCACCTTCGCTTAAA	0.473													28	70	---	---	---	---	PASS	G	97920546	G	G	97920546	2	3	174	1	0	0	0	0	0	0	0	1	1512	668	24	4		4	BRI3	7	97920546	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	5901173	97920546	61218117	131	62077										
MOSPD3	64598	broad.mit.edu	37	chr7	100210480	100210480	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccccctgggcgggggtcccgGggcgcccctcctcccttggg	16	19	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:100210480G>T	uc003uvq.2	+	2	268	c.66G>T	c.(64-66)CGG>CGT	p.R22R	MOSPD3_uc003uvr.2_Silent_p.R22R|MOSPD3_uc003uvs.2_Silent_p.R22R|MOSPD3_uc003uvt.2_Silent_p.R22R	NM_001040097	NP_001035186	O75425	MSPD3_HUMAN	motile sperm domain containing 3 isoform a	22						integral to membrane	structural molecule activity			ovary(2)	2	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					gggggtcccggggcgccccTC	0.567													13	34	---	---	---	---	PASS	T	100210480	T	T	100210480	2	4	174	1	0	0	0	0	0	0	0	1	9717	1219	43	3		3	MOSPD3	7	100210480	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	2289934	100210480	58928183	132	62078										
ZAN	7455	broad.mit.edu	37	chr7	100371097	100371097	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccagtgtggctgcactgaccCagcgggctcctaccacccgg	12	17	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:100371097C>A	uc003uwj.2	+	30	5780	c.5615C>A	c.(5614-5616)CCA>CAA	p.P1872Q	ZAN_uc003uwk.2_Missense_Mutation_p.P1872Q|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kkd.1_Missense_Mutation_p.P449Q|ZAN_uc011kke.1_5'Flank	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1872	VWFC 3.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			TGCACTGACCCAGCGGGCTCC	0.637													14	29	---	---	---	---	PASS	A	100371097	A	A	100371097	3	1	174	1	0	0	0	0	1	0	0	0	17510	594	21	3	5729	3	ZAN	7	100371097	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	160617	100371097	58767566	133	62079										
MUC17	140453	broad.mit.edu	37	chr7	100677549	100677549	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ttcagcaactcctgttgacaCcagcacacctgtgaccactt	6	15	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:100677549C>A	uc003uxp.1	+	3	2905	c.2852C>A	c.(2851-2853)ACC>AAC	p.T951N	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	951	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|13.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CCTGTTGACACCAGCACACCT	0.512													60	497	---	---	---	---	PASS	A	100677549	A	A	100677549	3	1	174	1	0	0	0	0	1	0	0	0	9974	507	18	3	2862	3	MUC17	7	100677549	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	306452	100677549	58461114	134	62080										
PIK3CG	5294	broad.mit.edu	37	chr7	106508804	106508804	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gatattcccgaaagccaaagCgaacaggattttgtgctgcg	11	9	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:106508804C>T	uc003vdv.3	+	2	883	c.798C>T	c.(796-798)AGC>AGT	p.S266S	PIK3CG_uc003vdu.2_Silent_p.S266S|PIK3CG_uc003vdw.2_Silent_p.S266S	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	266					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						AAAGCCAAAGCGAACAGGATT	0.552													13	67	---	---	---	---	PASS	T	106508804	T	T	106508804	2	4	174	1	0	0	0	0	0	0	0	1	11916	767	27	1		1	PIK3CG	7	106508804	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	5831255	106508804	52629859	135	62081										
FEZF1	389549	broad.mit.edu	37	chr7	121944015	121944015	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cctcggttcaggtagcacaaGgcgcccatggcgtggaatga	14	11	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:121944015G>A	uc003vkd.2	-	1	551	c.477C>T	c.(475-477)GCC>GCT	p.A159A	FEZF1_uc003vkc.2_Intron|uc010lko.1_RNA|uc003vkf.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	159					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						GGTAGCACAAGGCGCCCATGG	0.657													4	9	---	---	---	---	PASS	A	121944015	A	A	121944015	2	1	174	1	0	0	0	0	0	0	0	1	5825	987	35	3		3	FEZF1	7	121944015	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	15435211	121944015	37194648	136	62082										
RNF148	378925	broad.mit.edu	37	chr7	122342126	122342126	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cttcacatctgtctttatttGacttcgcctcctggtgaaag	7	11	3	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:122342126G>C	uc003vkk.1	-	1	896	c.679C>G	c.(679-681)CAA>GAA	p.Q227E	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron|RNF133_uc003vkj.1_5'Flank|RNF148_uc010lkr.1_Nonsense_Mutation_p.S92*	NM_198085	NP_932351	Q8N7C7	RN148_HUMAN	ring finger protein 148 precursor	227						integral to membrane	zinc ion binding				0						GTCTTTATTTGACTTCGCCTC	0.428													9	51	---	---	---	---	PASS	C	122342126	C	C	122342126	3	2	174	1	0	0	0	0	1	0	0	0	13449	1299	45	2	242	2	RNF148	7	122342126	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	398111	122342126	36796537	137	62083										
FLNC	2318	broad.mit.edu	37	chr7	128480702	128480702	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aagtatgtggtgaccatcacGtggggcggctacgccatccc	13	12	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:128480702G>T	uc003vnz.3	+	10	1859	c.1650G>T	c.(1648-1650)ACG>ACT	p.T550T	FLNC_uc003voa.3_Silent_p.T550T	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	550	Filamin 3.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						TGACCATCACGTGGGGCGGCT	0.647													59	91	---	---	---	---	PASS	T	128480702	T	T	128480702	2	4	174	1	0	0	0	0	0	0	0	1	5935	1132	40	1		1	FLNC	7	128480702	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	6138576	128480702	30657961	138	62084										
CNOT4	4850	broad.mit.edu	37	chr7	135078671	135078671	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aggttttaaatgaacctaccTgctacagggatccctcccag	8	12	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:135078671T>A	uc003vsv.1	-	10	1933	c.1626A>T	c.(1624-1626)GCA>GCT	p.A542A	CNOT4_uc003vss.2_Silent_p.A539A|CNOT4_uc011kpz.1_Silent_p.A539A|CNOT4_uc003vst.2_Silent_p.A542A|CNOT4_uc003vsu.1_Silent_p.A539A|CNOT4_uc011kpy.1_Silent_p.A542A	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	542					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						TGAACCTACCTGCTACAGGGA	0.413													8	54	---	---	---	---	PASS	A	135078671	A	A	135078671	2	1	174	1	0	0	0	0	0	0	0	1	3621	1594	55	5		5	CNOT4	7	135078671	Silent	SNP	T	TCGA-70-6722-01A-11D-1817-08	6597969	135078671	24059992	139	62085										
DGKI	9162	broad.mit.edu	37	chr7	137374731	137374731	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gagccagatgctggaggcctGcccgggagattgctttcctg	15	11	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:137374731G>T	uc003vtt.2	-	2	420	c.419C>A	c.(418-420)GCA>GAA	p.A140E	DGKI_uc003vtu.2_Intron	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	140					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						CTGGAGGCCTGCCCGGGAGAT	0.468													8	80	---	---	---	---	PASS	T	137374731	T	T	137374731	3	4	174	1	0	0	0	0	1	0	0	0	4471	1319	46	3	2910	3	DGKI	7	137374731	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	2296060	137374731	21763932	140	62086										
JHDM1D	80853	broad.mit.edu	37	chr7	139793879	139793879	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aggatgaaatctggaagtatCaaactgtttaatccaggagg	11	5	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:139793879C>G	uc003vvm.2	-	18	2438	c.2434G>C	c.(2434-2436)GAT>CAT	p.D812H	JHDM1D_uc010lng.2_RNA	NM_030647	NP_085150	Q6ZMT4	KDM7_HUMAN	jumonji C domain containing histone demethylase	812					midbrain development|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1	Melanoma(164;0.0142)					CTGGAAGTATCAAACTGTTTA	0.318													31	265	---	---	---	---	PASS	G	139793879	G	G	139793879	3	3	174	1	0	0	0	0	1	0	0	0	7948	826	29	2	403	2	JHDM1D	7	139793879	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	2419148	139793879	19344784	141	62087										
TAS2R60	338398	broad.mit.edu	37	chr7	143141210	143141210	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gctcatcacatctctgggaaGacacaggaagaaggctctcc	10	12	4	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:143141210G>T	uc011ktg.1	+	1	665	c.665G>T	c.(664-666)AGA>ATA	p.R222I	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	222	Cytoplasmic (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					TCTCTGGGAAGACACAGGAAG	0.463													49	114	---	---	---	---	PASS	T	143141210	T	T	143141210	3	4	174	1	0	0	0	0	1	0	0	0	15582	942	33	2	667	2	TAS2R60	7	143141210	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	3347331	143141210	15997453	142	62088										
ARHGEF35	445328	broad.mit.edu	37	chr7	143884332	143884332	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cccccagcctgcccccatccCaactctctggctctttcgcc	5	23	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:143884332C>A	uc003wdz.1	-	2	1263	c.1145G>T	c.(1144-1146)TGG>TTG	p.W382L		NM_001003702	NP_001003702	A5YM69	ARG35_HUMAN	Rho guanine nucleotide exchange factor (GEF)	382	Glu-rich.										0						GCCCCCATCCCAACTCTCTGG	0.562													8	20	---	---	---	---	PASS	A	143884332	A	A	143884332	3	1	174	1	0	0	0	0	1	0	0	0	905	595	21	3	313	3	ARHGEF35	7	143884332	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	743122	143884332	15254331	143	62089										
ZNF425	155054	broad.mit.edu	37	chr7	148802283	148802283	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgagttcggacttccctctgGacgagtttttgtactttggg	12	8	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:148802283G>A	uc003wfj.2	-	4	753	c.680C>T	c.(679-681)TCC>TTC	p.S227F		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	227					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			CTTCCCTCTGGACGAGTTTTT	0.527													4	85	---	---	---	---	PASS	A	148802283	A	A	148802283	3	1	174	1	0	0	0	0	1	0	0	0	17896	1174	41	2	1582	2	ZNF425	7	148802283	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	4917951	148802283	10336380	144	62090										
NOS3	4846	broad.mit.edu	37	chr7	150698429	150698429	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cctgcagactgggcctggatCgtgccccccatctcgggcag	13	16	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:150698429C>A	uc003wif.2	+	11	1640	c.1344C>A	c.(1342-1344)ATC>ATA	p.I448I	NOS3_uc011kuy.1_Silent_p.I242I|NOS3_uc011kuz.1_Silent_p.I448I|NOS3_uc011kva.1_Silent_p.I448I|NOS3_uc011kvb.1_Silent_p.I448I	NM_000603	NP_000594	P29474	NOS3_HUMAN	nitric oxide synthase 3 isoform 1	448	Interaction with NOSIP.				anti-apoptosis|arginine catabolic process|blood vessel remodeling|endothelial cell migration|mitochondrion organization|negative regulation of muscle hyperplasia|negative regulation of platelet activation|nitric oxide biosynthetic process|platelet activation|positive regulation of angiogenesis|positive regulation of guanylate cyclase activity|positive regulation of vasodilation|regulation of blood vessel size|regulation of nitric-oxide synthase activity|regulation of systemic arterial blood pressure by endothelin|response to fluid shear stress|response to heat|smooth muscle hyperplasia	caveola|cytoskeleton|cytosol|Golgi membrane	actin monomer binding|arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			central_nervous_system(5)|large_intestine(2)|skin(1)	8	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	L-Arginine(DB00125)|L-Citrulline(DB00155)|Rosuvastatin(DB01098)|Tetrahydrobiopterin(DB00360)	GGGCCTGGATCGTGCCCCCCA	0.622													28	79	---	---	---	---	PASS	A	150698429	A	A	150698429	2	1	174	1	0	0	0	0	0	0	0	1	10544	874	31	2		2	NOS3	7	150698429	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	1896146	150698429	8440234	145	62091										
MLL3	58508	broad.mit.edu	37	chr7	151842380	151842380	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	acatgcctcaaccccaggaaGctgaaaagaagcaaagcaga	9	11	1	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr7:151842380G>T	uc003wla.2	-	54	14251	c.14032C>A	c.(14032-14034)CTT>ATT	p.L4678I	MLL3_uc003wkz.2_Missense_Mutation_p.L3796I|MLL3_uc003wkx.2_Missense_Mutation_p.L836I|MLL3_uc003wky.2_Missense_Mutation_p.L2242I	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4678	FYR C-terminal.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACCCCAGGAAGCTGAAAAGAA	0.488			N		medulloblastoma								3	69	---	---	---	---	PASS	T	151842380	T	T	151842380	3	4	174	1	0	0	0	0	1	0	0	0	9622	985	34	3	727	3	MLL3	7	151842380	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1143951	151842380	7296283	146	62092										
DLC1	10395	broad.mit.edu	37	chr8	13259053	13259053	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gagggcattttctatgtcctGatcaagctggtccagtttca	10	9	3	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:13259053G>T	uc003wwm.2	-	3	1543	c.1099C>A	c.(1099-1101)CAG>AAG	p.Q367K	DLC1_uc003wwn.2_Missense_Mutation_p.Q367K|DLC1_uc011kxy.1_Missense_Mutation_p.Q367K	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	367					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TCTATGTCCTGATCAAGCTGG	0.493													17	65	---	---	---	---	PASS	T	13259053	T	T	13259053	3	4	174	1	0	0	0	0	1	0	0	0	4550	1299	45	2	3636	2	DLC1	8	13259053	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08		13259053	133104969	147	62093										
ADAM2	2515	broad.mit.edu	37	chr8	39613369	39613369	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggcataaataatagtggctcTtggaatttgtaataaaaatt	8	3	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:39613369T>A	uc003xnj.2	-	16	1750	c.1675A>T	c.(1675-1677)AGA>TGA	p.R559*	ADAM2_uc003xnk.2_Nonsense_Mutation_p.R540*|ADAM2_uc011lck.1_Intron|ADAM2_uc003xnl.2_Intron	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	559	Extracellular (Potential).|Cys-rich.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		ATAGTGGCTCTTGGAATTTGT	0.308													12	64	---	---	---	---	PASS	A	39613369	A	A	39613369	4	1	174	1	0	0	0	0	0	1	0	0	241	1617	56	5	552	5	ADAM2	8	39613369	Nonsense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	26354316	39613369	106750653	148	62094										
MRPL15	29088	broad.mit.edu	37	chr8	55060196	55060196	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggcagattttctttggtcttGctccaggatgggtggtgaat	14	6	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:55060196G>C	uc003xsa.2	+	5	871	c.808G>C	c.(808-810)GCT>CCT	p.A270P		NM_014175	NP_054894	Q9P015	RM15_HUMAN	mitochondrial ribosomal protein L15 precursor	270					translation	large ribosomal subunit|mitochondrion	structural constituent of ribosome				0		Lung NSC(129;0.109)|all_epithelial(80;0.134)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;4.3e-07)|Epithelial(17;5.79e-05)|all cancers(17;0.000458)			CTTTGGTCTTGCTCCAGGATG	0.403													15	67	---	---	---	---	PASS	C	55060196	C	C	55060196	3	2	174	1	0	0	0	0	1	0	0	0	9780	1319	46	4	826	4	MRPL15	8	55060196	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	15446827	55060196	91303826	149	62095										
RP1	6101	broad.mit.edu	37	chr8	55537694	55537694	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aaatgacagatcaagtggctGaaacttgcagttctgctagt	10	7	2	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:55537694G>A	uc003xsd.1	+	4	1400	c.1252G>A	c.(1252-1254)GAA>AAA	p.E418K	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	418					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TCAAGTGGCTGAAACTTGCAG	0.453													14	87	---	---	---	---	PASS	A	55537694	A	A	55537694	3	1	174	1	0	0	0	0	1	0	0	0	13532	1291	45	2	1262	2	RP1	8	55537694	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	477498	55537694	90826328	150	62096										
CHD7	55636	broad.mit.edu	37	chr8	61777948	61777948	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tggcttgggcgggctgttgaAtaaccctctgtcagctgcta	13	10	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:61777948A>T	uc003xue.2	+	38	8927	c.8450A>T	c.(8449-8451)AAT>ATT	p.N2817I		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2817					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)			GGGCTGTTGAATAACCCTCTG	0.557													4	15	---	---	---	---	PASS	T	61777948	T	T	61777948	3	4	174	1	0	0	0	0	1	0	0	0	3330	101	4	5	8596	5	CHD7	8	61777948	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	6240254	61777948	84586074	151	62097										
ZFHX4	79776	broad.mit.edu	37	chr8	77690498	77690498	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aatcctgctattactactgtGccgtgtgtgattacaccacc	7	12	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:77690498G>T	uc003yav.2	+	4	3457	c.3070G>T	c.(3070-3072)GCC>TCC	p.A1024S	ZFHX4_uc003yau.1_Missense_Mutation_p.A1050S|ZFHX4_uc003yaw.1_Missense_Mutation_p.A1024S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1024	C2H2-type 7.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTACTACTGTGCCGTGTGTGA	0.507										HNSCC(33;0.089)			49	136	---	---	---	---	PASS	T	77690498	T	T	77690498	3	4	174	1	0	0	0	0	1	0	0	0	17632	1319	46	3	3158	3	ZFHX4	8	77690498	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	15912550	77690498	68673524	152	62098										
ZFHX4	79776	broad.mit.edu	37	chr8	77764219	77764219	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctcaacctgcacatcacccaCcacagtcaccagcacaaatt	3	18	3	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:77764219C>A	uc003yav.2	+	10	5314	c.4927C>A	c.(4927-4929)CCA>ACA	p.P1643T	ZFHX4_uc003yau.1_Missense_Mutation_p.P1688T|ZFHX4_uc003yaw.1_Missense_Mutation_p.P1643T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1643						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACATCACCCACCACAGTCACC	0.418										HNSCC(33;0.089)			18	70	---	---	---	---	PASS	A	77764219	A	A	77764219	3	1	174	1	0	0	0	0	1	0	0	0	17632	507	18	3	5096	3	ZFHX4	8	77764219	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	73721	77764219	68599803	153	62099										
NBN	4683	broad.mit.edu	37	chr8	90965859	90965859	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gtttgttctaaaagagaacaAgacgtttctattcttgctga	8	6	3	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:90965859A>G	uc003yej.1	-	11	1568	c.1458T>C	c.(1456-1458)TCT>TCC	p.S486S	NBN_uc003yei.1_Silent_p.S404S|NBN_uc011lgb.1_Silent_p.S486S	NM_002485	NP_002476	O60934	NBN_HUMAN	nibrin	486					cell cycle arrest|DNA damage response, signal transduction by p53 class mediator|DNA duplex unwinding|double-strand break repair via homologous recombination|meiosis|mitotic cell cycle G1/S transition checkpoint|mitotic cell cycle G2/M transition DNA damage checkpoint|positive regulation of kinase activity|positive regulation of protein autophosphorylation|regulation of DNA-dependent DNA replication initiation|telomere maintenance	Mre11 complex|nuclear chromosome, telomeric region|nuclear inclusion body|nucleolus|nucleoplasm	protein N-terminus binding|transcription factor binding			central_nervous_system(3)|kidney(3)|lung(1)	7			BRCA - Breast invasive adenocarcinoma(11;0.0344)			AAAGAGAACAAGACGTTTCTA	0.353								Direct_reversal_of_damage|Homologous_recombination	Nijmegen_Breakage_syndrome				8	56	---	---	---	---	PASS	G	90965859	G	G	90965859	2	3	174	1	0	0	0	0	0	0	0	1	10191	59	3	5		5	NBN	8	90965859	Silent	SNP	A	TCGA-70-6722-01A-11D-1817-08	13201640	90965859	55398163	154	62100										
ESRP1	54845	broad.mit.edu	37	chr8	95677390	95677390	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gtcttttctcaggtttacaaAgcaacaggtgaagatttcct	8	8	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:95677390A>T	uc003ygq.3	+	9	1080	c.897A>T	c.(895-897)AAA>AAT	p.K299N	ESRP1_uc003ygr.3_Missense_Mutation_p.K299N|ESRP1_uc003ygs.3_Missense_Mutation_p.K299N|ESRP1_uc003ygt.3_Missense_Mutation_p.K299N|ESRP1_uc003ygu.3_Missense_Mutation_p.K299N|ESRP1_uc003ygv.2_Missense_Mutation_p.K139N|ESRP1_uc003ygw.2_Missense_Mutation_p.K139N	NM_017697	NP_060167	Q6NXG1	ESRP1_HUMAN	RNA binding motif protein 35A isoform 1	299	RRM 1.				mRNA processing|regulation of RNA splicing|RNA splicing	nucleus|plasma membrane	mRNA binding|nucleotide binding		ESRP1/RAF1(4)	prostate(4)	4						AGGTTTACAAAGCAACAGGTG	0.358													5	45	---	---	---	---	PASS	T	95677390	T	T	95677390	3	4	174	1	0	0	0	0	1	0	0	0	5258	69	3	5	931	5	ESRP1	8	95677390	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	4711531	95677390	50686632	155	62101										
RIMS2	9699	broad.mit.edu	37	chr8	105010469	105010469	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gaccattgaccatcatcacaGggatggcaggtatatttttc	9	9	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:105010469G>C	uc003yls.2	+	16	2676	c.2435G>C	c.(2434-2436)AGG>ACG	p.R812T	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Missense_Mutation_p.R826T|RIMS2_uc003ylq.2_Missense_Mutation_p.R826T|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1096					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CATCATCACAGGGATGGCAGG	0.358										HNSCC(12;0.0054)			36	84	---	---	---	---	PASS	C	105010469	C	C	105010469	3	2	174	1	0	0	0	0	1	0	0	0	13368	1000	35	4	3297	4	RIMS2	8	105010469	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	9333079	105010469	41353553	156	62102										
CSMD3	114788	broad.mit.edu	37	chr8	113237021	113237021	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tataccattgtgcaaaccgtGttcaagttgggatcaaatcg	9	8	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:113237021G>T	uc003ynu.2	-	71	11262	c.11103C>A	c.(11101-11103)AAC>AAA	p.N3701K	CSMD3_uc003yns.2_Missense_Mutation_p.N2903K|CSMD3_uc003ynt.2_Missense_Mutation_p.N3661K|CSMD3_uc011lhx.1_Missense_Mutation_p.N3532K	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3701	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						TGCAAACCGTGTTCAAGTTGG	0.423										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			45	136	---	---	---	---	PASS	T	113237021	T	T	113237021	3	4	174	1	0	0	0	0	1	0	0	0	3946	1368	48	3	24	3	CSMD3	8	113237021	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	8226552	113237021	33127001	157	62103										
CSMD3	114788	broad.mit.edu	37	chr8	113293558	113293558	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctttcccattggctgtggttCctgggttaccacactgcaca	9	13	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:113293558C>A	uc003ynu.2	-	59	9512	c.9353G>T	c.(9352-9354)GGA>GTA	p.G3118V	CSMD3_uc003yns.2_Missense_Mutation_p.G2320V|CSMD3_uc003ynt.2_Missense_Mutation_p.G3078V|CSMD3_uc011lhx.1_Missense_Mutation_p.G2949V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3118	Extracellular (Potential).|Sushi 23.					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						GGCTGTGGTTCCTGGGTTACC	0.373										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			20	47	---	---	---	---	PASS	A	113293558	A	A	113293558	3	1	174	1	0	0	0	0	1	0	0	0	3946	855	30	2	1822	2	CSMD3	8	113293558	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	56537	113293558	33070464	158	62104										
TRPS1	7227	broad.mit.edu	37	chr8	116617174	116617174	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agcggaaatacttggtgttcCcttggcaatctggtgttttc	11	8	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:116617174C>T	uc003ynz.2	-	3	1442	c.983G>A	c.(982-984)GGG>GAG	p.G328E	TRPS1_uc011lhy.1_Missense_Mutation_p.G332E|TRPS1_uc003yny.2_Missense_Mutation_p.G341E|TRPS1_uc010mcy.2_Missense_Mutation_p.G328E	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	328					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			CTTGGTGTTCCCTTGGCAATC	0.408									Langer-Giedion_syndrome				26	80	---	---	---	---	PASS	T	116617174	T	T	116617174	3	4	174	1	0	0	0	0	1	0	0	0	16590	623	22	3	2878	3	TRPS1	8	116617174	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	3323616	116617174	29746848	159	62105										
TNFRSF11B	4982	broad.mit.edu	37	chr8	119941028	119941028	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tccggaacatatgttgtcgtGtgttgcatttcctttctgag	10	8	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:119941028G>T	uc003yon.3	-	3	864	c.541C>A	c.(541-543)CAC>AAC	p.H181N	TNFRSF11B_uc010mdc.1_RNA	NM_002546	NP_002537	O00300	TR11B_HUMAN	osteoprotegerin precursor	181	TNFR-Cys 4.				apoptosis|skeletal system development		cytokine activity|receptor activity			central_nervous_system(2)	2	all_cancers(13;3.71e-26)|Lung NSC(37;1.69e-07)|Ovarian(258;0.018)|all_neural(195;0.0592)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00193)			ATGTTGTCGTGTGTTGCATTT	0.383													27	151	---	---	---	---	PASS	T	119941028	T	T	119941028	3	4	174	1	0	0	0	0	1	0	0	0	16282	1377	48	3	676	3	TNFRSF11B	8	119941028	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	3323854	119941028	26422994	160	62106										
ASAP1	50807	broad.mit.edu	37	chr8	131130758	131130758	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cccaggttccagcagtggttCcattagctctaccccttctg	8	15	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:131130758C>A	uc003yta.1	-	18	1799	c.1771G>T	c.(1771-1773)GAA>TAA	p.E591*	ASAP1_uc003ysz.1_Nonsense_Mutation_p.E402*|ASAP1_uc011liw.1_Nonsense_Mutation_p.E584*	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	591					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						AGCAGTGGTTCCATTAGCTCT	0.373													17	107	---	---	---	---	PASS	A	131130758	A	A	131130758	4	1	174	1	0	0	0	0	0	1	0	0	1010	864	30	2	1666	2	ASAP1	8	131130758	Nonsense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	11189730	131130758	15233264	161	62107										
FAM135B	51059	broad.mit.edu	37	chr8	139163751	139163751	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgggaatgaacggaatgggtCacagtggggcacacagtgcc	16	8	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr8:139163751C>A	uc003yuy.2	-	13	3138	c.2967G>T	c.(2965-2967)GTG>GTT	p.V989V	FAM135B_uc003yux.2_Silent_p.V890V|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Silent_p.V551V|FAM135B_uc003yvb.2_Silent_p.V551V	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	989										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)			CGGAATGGGTCACAGTGGGGC	0.493										HNSCC(54;0.14)			7	103	---	---	---	---	PASS	A	139163751	A	A	139163751	2	1	174	1	0	0	0	0	0	0	0	1	5449	813	29	2		2	FAM135B	8	139163751	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	8032993	139163751	7200271	162	62108										
SLC1A1	6505	broad.mit.edu	37	chr9	4567684	4567684	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgcagtacaaaactaagcgtGaagaagtgaagcctcccagc	10	10	0	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr9:4567684G>A	uc003zij.1	+	6	735	c.499G>A	c.(499-501)GAA>AAA	p.E167K	C9orf68_uc003zik.2_Intron	NM_004170	NP_004161	P43005	EAA3_HUMAN	solute carrier family 1, member 1	167	Extracellular (Potential).				D-aspartate import|L-glutamate import|synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0		Acute lymphoblastic leukemia(2;0.0359)|Breast(48;0.0457)		GBM - Glioblastoma multiforme(50;0.0124)|Lung(218;0.183)	L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)	AACTAAGCGTGAAGAAGTGAA	0.383													13	39	---	---	---	---	PASS	A	4567684	A	A	4567684	3	1	174	1	0	0	0	0	1	0	0	0	14431	1291	45	2	521	2	SLC1A1	9	4567684	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08		4567684	136645747	163	62109										
KIAA2026	158358	broad.mit.edu	37	chr9	5922375	5922375	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcattcttggcttttcctgcCtcactctggctagtcttaac	7	13	4	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr9:5922375C>A	uc003zjq.3	-	8	3837	c.3621G>T	c.(3619-3621)GAG>GAT	p.E1207D	KIAA2026_uc010mht.2_Missense_Mutation_p.E382D	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	1207										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		CTTTTCCTGCCTCACTCTGGC	0.458													16	79	---	---	---	---	PASS	A	5922375	A	A	5922375	3	1	174	1	0	0	0	0	1	0	0	0	8270	680	24	3	2694	3	KIAA2026	9	5922375	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1354691	5922375	135291056	164	62110										
CTSL1	1514	broad.mit.edu	37	chr9	90343291	90343291	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	attggagagagaaaggctacGtgactcctgtgaagaatcag	13	6	1	5			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr9:90343291G>T	uc004aph.2	+	4	726	c.376G>T	c.(376-378)GTG>TTG	p.V126L	CTSL1_uc004api.2_Missense_Mutation_p.V126L|CTSL1_uc004apj.2_Missense_Mutation_p.V71L|CTSL1_uc010mqh.2_Intron|CTSL1_uc004apk.2_Missense_Mutation_p.V126L|CTSL1_uc004apl.2_Missense_Mutation_p.V126L	NM_001912	NP_001903	P07711	CATL1_HUMAN	cathepsin L1 preproprotein	126					macrophage apoptosis|proteolysis	extracellular region|lysosome|nucleus	cysteine-type endopeptidase activity|histone binding			ovary(3)	3					Glucagon recombinant(DB00040)	GAAAGGCTACGTGACTCCTGT	0.478													13	34	---	---	---	---	PASS	T	90343291	T	T	90343291	3	4	174	1	0	0	0	0	1	0	0	0	4038	1145	40	1	386	1	CTSL1	9	90343291	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	84420916	90343291	50870140	165	62111										
ACTL7A	10881	broad.mit.edu	37	chr9	111625376	111625376	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tacctgctgggcctgctgaaCagtgcggggaacgaattcac	13	11	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr9:111625376C>G	uc004bdj.1	+	1	774	c.774C>G	c.(772-774)AAC>AAG	p.N258K		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	258						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						GCCTGCTGAACAGTGCGGGGA	0.572													7	38	---	---	---	---	PASS	G	111625376	G	G	111625376	3	3	174	1	0	0	0	0	1	0	0	0	200	477	17	4	776	4	ACTL7A	9	111625376	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	21282085	111625376	29588055	166	62112										
FKBP15	23307	broad.mit.edu	37	chr9	115952794	115952794	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccagctgtggtggaaggatgGgcagcatgggctggcccatt	17	9	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr9:115952794G>A	uc004bgs.2	-	12	1248	c.1130C>T	c.(1129-1131)CCC>CTC	p.P377L	FKBP15_uc010muu.1_Missense_Mutation_p.P441L|FKBP15_uc011lxc.1_5'Flank|FKBP15_uc011lxd.1_Missense_Mutation_p.P309L|FKBP15_uc010mut.1_Missense_Mutation_p.P245L|FKBP15_uc004bgt.2_Missense_Mutation_p.P377L	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	377					endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						TGGAAGGATGGGCAGCATGGG	0.453													6	18	---	---	---	---	PASS	A	115952794	A	A	115952794	3	1	174	1	0	0	0	0	1	0	0	0	5905	1232	43	3	2597	3	FKBP15	9	115952794	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	4327418	115952794	25260637	167	62113										
CERCAM	51148	broad.mit.edu	37	chr9	131186890	131186890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tcgcctatgcctgccaggctGctggtgaggaccagccctcc	12	16	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr9:131186890G>T	uc004buz.3	+	5	1161	c.763G>T	c.(763-765)GCT>TCT	p.A255S	CERCAM_uc004buy.1_Missense_Mutation_p.A177S|CERCAM_uc010mxz.2_Missense_Mutation_p.A177S|CERCAM_uc010mya.1_Missense_Mutation_p.A96S	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	255					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						CTGCCAGGCTGCTGGTGAGGA	0.403													23	57	---	---	---	---	PASS	T	131186890	T	T	131186890	3	4	174	1	0	0	0	0	1	0	0	0	3266	1319	46	3	781	3	CERCAM	9	131186890	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	15234096	131186890	10026541	168	62114										
USP20	10868	broad.mit.edu	37	chr9	132642449	132642449	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctacctgaacagcctgtatgGaggtggccccgagattgcca	12	12	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr9:132642449G>C	uc004bys.2	+	25	2853	c.2642G>C	c.(2641-2643)GGA>GCA	p.G881A	USP20_uc004byr.2_Missense_Mutation_p.G881A|USP20_uc004byt.1_Missense_Mutation_p.G881A|USP20_uc004byu.1_Missense_Mutation_p.G67A	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	881	DUSP 2.				endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				AGCCTGTATGGAGGTGGCCCC	0.647													5	67	---	---	---	---	PASS	C	132642449	C	C	132642449	3	2	174	1	0	0	0	0	1	0	0	0	17049	1174	41	2	2732	2	USP20	9	132642449	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1455559	132642449	8570982	169	62115										
FUBP3	8939	broad.mit.edu	37	chr9	133488374	133488374	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggaggtgagcagatttcacgGattcaagcagaatctggttg	14	6	3	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr9:133488374G>T	uc004bzr.1	+	5	414	c.306G>T	c.(304-306)CGG>CGT	p.R102R	FUBP3_uc010mzd.1_Silent_p.R42R|FUBP3_uc004bzs.1_Silent_p.R15R	NM_003934	NP_003925	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	102	KH 1.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		AGATTTCACGGATTCAAGCAG	0.388													7	58	---	---	---	---	PASS	T	133488374	T	T	133488374	2	4	174	1	0	0	0	0	0	0	0	1	6093	1161	41	2		2	FUBP3	9	133488374	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	845925	133488374	7725057	170	62116										
FUBP3	8939	broad.mit.edu	37	chr9	133501800	133501800	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agccagaggaagaggtcgtgGccgtggcgactggagcgtgg	20	8	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr9:133501800G>T	uc004bzr.1	+	12	1133	c.1025G>T	c.(1024-1026)GGC>GTC	p.G342V	FUBP3_uc004bzs.1_Missense_Mutation_p.G255V	NM_003934	NP_003925	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	342					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		AGAGGTCGTGGCCGTGGCGAC	0.607											OREG0019546	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	24	---	---	---	---	PASS	T	133501800	T	T	133501800	3	4	174	1	0	0	0	0	1	0	0	0	6093	1203	42	3	1071	3	FUBP3	9	133501800	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	13426	133501800	7711631	171	62117										
LAMC3	10319	broad.mit.edu	37	chr9	133901760	133901760	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tacaagcgcagccgcgccgaCggcccatgggagccctacca	12	17	0	0	rs147423784		TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr9:133901760C>A	uc004caa.1	+	2	560	c.462C>A	c.(460-462)GAC>GAA	p.D154E		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	154	Laminin N-terminal.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		GCCGCGCCGACGGCCCATGGG	0.652													8	69	---	---	---	---	PASS	A	133901760	A	A	133901760	3	1	174	1	0	0	0	0	1	0	0	0	8616	535	19	1	468	1	LAMC3	9	133901760	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	399960	133901760	7311671	172	62118										
ITIH5	80760	broad.mit.edu	37	chr10	7683937	7683937	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gctggaatctgcatctggaaCtcaatgtcctggtcttcaga	10	10	5	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr10:7683937C>T	uc001ijq.2	-	3	331	c.252G>A	c.(250-252)GAG>GAA	p.E84E	ITIH5_uc001ijr.1_Silent_p.E84E	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	84	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						GCATCTGGAACTCAATGTCCT	0.478													15	77	---	---	---	---	PASS	T	7683937	T	T	7683937	2	4	174	1	0	0	0	0	0	0	0	1	7907	564	20	3		3	ITIH5	10	7683937	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08		7683937	127850810	173	62119										
GPR158	57512	broad.mit.edu	37	chr10	25684912	25684912	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcaaagcaggattctatcatCctggagtcttaccagtgaac	9	10	3	1	rs145500194		TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr10:25684912C>A	uc001isj.2	+	3	1141	c.1081C>A	c.(1081-1083)CCT>ACT	p.P361T		NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	361	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						ATTCTATCATCCTGGAGTCTT	0.358													7	30	---	---	---	---	PASS	A	25684912	A	A	25684912	3	1	174	1	0	0	0	0	1	0	0	0	6663	855	30	2	1091	2	GPR158	10	25684912	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	18000975	25684912	109849835	174	62120										
GAD2	2572	broad.mit.edu	37	chr10	26559583	26559583	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcacaggggtttgttcctttCctcgtgagtgccacagctgg	13	11	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr10:26559583C>A	uc001isp.2	+	10	1493	c.990C>A	c.(988-990)TTC>TTA	p.F330L	GAD2_uc001isq.2_Missense_Mutation_p.F330L	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	330					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	TTGTTCCTTTCCTCGTGAGTG	0.463													29	179	---	---	---	---	PASS	A	26559583	A	A	26559583	3	1	174	1	0	0	0	0	1	0	0	0	6180	854	30	2	1028	2	GAD2	10	26559583	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	874671	26559583	108975164	175	62121										
ZNF33A	7581	broad.mit.edu	37	chr10	38344909	38344909	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gaatgtggaaaagccttctaCcagaagtcacaactcactca	7	11	4	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr10:38344909C>A	uc001izh.2	+	5	2032	c.1854C>A	c.(1852-1854)TAC>TAA	p.Y618*	ZNF33A_uc001izg.2_Nonsense_Mutation_p.Y619*|ZNF33A_uc010qev.1_Nonsense_Mutation_p.Y625*|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	618	C2H2-type 11.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						AAGCCTTCTACCAGAAGTCAC	0.368													10	86	---	---	---	---	PASS	A	38344909	A	A	38344909	4	1	174	1	0	0	0	0	0	1	0	0	17851	518	18	3	1871	3	ZNF33A	10	38344909	Nonsense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	11785326	38344909	97189838	176	62122										
PRKG1	5592	broad.mit.edu	37	chr10	54031115	54031115	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctctctttctttaaggtccaGttgaaaagtgaagaatccaa	7	8	2	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr10:54031115G>T	uc001jjm.2	+	11	1328	c.1134G>T	c.(1132-1134)CAG>CAT	p.Q378H	PRKG1_uc001jjo.2_Missense_Mutation_p.Q393H|PRKG1_uc009xow.1_Missense_Mutation_p.Q96H|uc001jjq.1_Intron	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	378	Protein kinase.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		TTAAGGTCCAGTTGAAAAGTG	0.408													13	38	---	---	---	---	PASS	T	54031115	T	T	54031115	3	4	174	1	0	0	0	0	1	0	0	0	12522	1020	36	3	1491	3	PRKG1	10	54031115	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	15686206	54031115	81503632	177	62123										
CTNNA3	29119	broad.mit.edu	37	chr10	68139060	68139060	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gtctaaattatcagcatcctGgtctcttaaggctatgatac	7	9	3	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr10:68139060G>T	uc009xpn.1	-	12	1705	c.1582C>A	c.(1582-1584)CAG>AAG	p.Q528K	CTNNA3_uc001jmw.2_Missense_Mutation_p.Q528K	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	528					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						TCAGCATCCTGGTCTCTTAAG	0.443													16	115	---	---	---	---	PASS	T	68139060	T	T	68139060	3	4	174	1	0	0	0	0	1	0	0	0	4014	1357	47	3	1133	3	CTNNA3	10	68139060	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	14107945	68139060	67395687	178	62124										
PDZD7	79955	broad.mit.edu	37	chr10	102782143	102782143	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gccgattcaccacatccaccCtggacaacagcagggggccc	10	17	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr10:102782143C>A	uc001kso.1	-	5	758	c.543_splice	c.e5-1	p.W181_splice	PDZD7_uc001ksn.2_Splice_Site_p.W181_splice	NM_024895	NP_079171	Q9H5P4	PDZD7_HUMAN	PDZ domain containing 7							cilium|nucleus	protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3				Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		CACATCCACCCTGGACAACAG	0.612													11	23	---	---	---	---	PASS	A	102782143	A	A	102782143	5	1	174	1	0	0	0	0	0	0	1	0	11704	695	24	3	1035	3	PDZD7	10	102782143	Splice_Site	SNP	C	TCGA-70-6722-01A-11D-1817-08	34643083	102782143	32752604	179	62125										
ABLIM1	3983	broad.mit.edu	37	chr10	116335269	116335269	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctccccacagccatggcagcGtgtcccgtacatccgctggt	10	17	0	0	rs147888427		TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr10:116335269G>A	uc010qsg.1	-	3	568	c.469C>T	c.(469-471)CGC>TGC	p.R157C	ABLIM1_uc010qsh.1_Missense_Mutation_p.R97C|ABLIM1_uc010qsi.1_Missense_Mutation_p.R97C|ABLIM1_uc010qsk.1_Missense_Mutation_p.R81C|ABLIM1_uc009xyp.2_Missense_Mutation_p.R91C|ABLIM1_uc009xyo.2_Missense_Mutation_p.R5C	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	157	LIM zinc-binding 2.				axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		CCATGGCAGCGTGTCCCGTAC	0.542													16	90	---	---	---	---	PASS	A	116335269	A	A	116335269	3	1	174	1	0	0	0	0	1	0	0	0	94	1145	40	1	2035	1	ABLIM1	10	116335269	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	13553126	116335269	19199478	180	62126										
VENTX	27287	broad.mit.edu	37	chr10	135053746	135053746	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cccaggccggccttcgctggGaccagccctgtccacggggc	14	18	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr10:135053746G>T	uc010quy.1	+	3	724	c.713G>T	c.(712-714)GGA>GTA	p.G238V		NM_014468	NP_055283	O95231	VENTX_HUMAN	VENT homeobox	238					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(35;4.15e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.8e-06)|Epithelial(32;9.31e-06)|all cancers(32;1.19e-05)		CCTTCGCTGGGACCAGCCCTG	0.682													7	20	---	---	---	---	PASS	T	135053746	T	T	135053746	3	4	174	1	0	0	0	0	1	0	0	0	17150	1174	41	2	723	2	VENTX	10	135053746	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	18718477	135053746	481001	181	62127										
TUBGCP2	10844	broad.mit.edu	37	chr10	135095829	135095829	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cccagctcgccatctaatttCatgctctgtgtaaatttcta	5	12	4	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr10:135095829C>G	uc001lmg.1	-	16	2664	c.2307G>C	c.(2305-2307)ATG>ATC	p.M769I	TUBGCP2_uc001lmf.1_Missense_Mutation_p.M362I|TUBGCP2_uc010qvc.1_Missense_Mutation_p.M797I|TUBGCP2_uc009ybk.1_Missense_Mutation_p.M792I|TUBGCP2_uc010qvd.1_Missense_Mutation_p.M639I|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	769					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		CATCTAATTTCATGCTCTGTG	0.582													8	25	---	---	---	---	PASS	G	135095829	G	G	135095829	3	3	174	1	0	0	0	0	1	0	0	0	16763	826	29	2	413	2	TUBGCP2	10	135095829	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	42083	135095829	438918	182	62128										
TNNT3	7140	broad.mit.edu	37	chr11	1950353	1950353	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cttttgccacctggaagacaCcgcagaggaggacgcggaag	14	11	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:1950353C>A	uc001luu.3	+	7	298	c.86C>A	c.(85-87)ACC>AAC	p.T29N	TNNT3_uc001lun.2_Intron|TNNT3_uc001luw.3_Intron|TNNT3_uc001luo.3_Intron|TNNT3_uc001lup.3_Intron|TNNT3_uc001luq.3_Intron|TNNT3_uc001lur.2_Intron|TNNT3_uc010qxf.1_Intron|TNNT3_uc010qxg.1_Intron|TNNT3_uc001lut.1_RNA|TNNT3_uc001lus.1_Intron	NM_006757	NP_006748	P45378	TNNT3_HUMAN	troponin T3, skeletal, fast isoform 1	40					muscle filament sliding|regulation of ATPase activity|regulation of striated muscle contraction|skeletal muscle contraction	cytosol|troponin complex	calcium-dependent protein binding|tropomyosin binding|troponin C binding|troponin I binding			ovary(1)	1		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00253)|Lung(200;0.0333)|LUSC - Lung squamous cell carcinoma(625;0.0826)		CTGGAAGACACCGCAGAGGAG	0.672													36	120	---	---	---	---	PASS	A	1950353	A	A	1950353	3	1	174	1	0	0	0	0	1	0	0	0	16329	507	18	3	149	3	TNNT3	11	1950353	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08		1950353	133056163	183	62129										
ARNTL	406	broad.mit.edu	37	chr11	13397284	13397284	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggaccaaggaagtagaatatAttgtctcaactaacactgtt	8	7	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:13397284A>G	uc001mkr.2	+	15	1708	c.1300A>G	c.(1300-1302)ATT>GTT	p.I434V	ARNTL_uc001mko.2_Missense_Mutation_p.I390V|ARNTL_uc001mkp.2_Missense_Mutation_p.I433V|ARNTL_uc001mkq.2_Missense_Mutation_p.I433V|ARNTL_uc001mks.2_Missense_Mutation_p.I391V|ARNTL_uc001mkt.2_Missense_Mutation_p.I434V|ARNTL_uc001mku.2_RNA|ARNTL_uc009ygm.1_Missense_Mutation_p.I273V|ARNTL_uc001mkw.2_Missense_Mutation_p.I391V|ARNTL_uc001mkx.2_Missense_Mutation_p.I432V|ARNTL_uc001mky.2_Translation_Start_Site	NM_001178	NP_001169	O00327	BMAL1_HUMAN	aryl hydrocarbon receptor nuclear	434	PAC.				circadian rhythm|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	aryl hydrocarbon receptor binding|DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0				Epithelial(150;0.0243)		AGTAGAATATATTGTCTCAAC	0.383													8	31	---	---	---	---	PASS	G	13397284	G	G	13397284	3	3	174	1	0	0	0	0	1	0	0	0	967	449	16	5	1354	5	ARNTL	11	13397284	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	11446931	13397284	121609232	184	62130										
OR8I2	120586	broad.mit.edu	37	chr11	55861580	55861580	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcaacctgataacacatcatCgctgacccaggcgcaggtgg	11	13	1	2	rs116327084	byFrequency	TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:55861580C>A	uc010rix.1	+	1	797	c.797C>A	c.(796-798)TCG>TAG	p.S266*		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	266	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					AACACATCATCGCTGACCCAG	0.463													27	80	---	---	---	---	PASS	A	55861580	A	A	55861580	4	1	174	1	0	0	0	0	0	1	0	0	11240	893	31	2	799	2	OR8I2	11	55861580	Nonsense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	42464296	55861580	79144936	185	62131										
YPEL4	219539	broad.mit.edu	37	chr11	57413813	57413813	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgcagctctcacagaaaatgTcagctaccgagtggagcccc	10	13	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:57413813T>A	uc001nkv.3	-	4	695	c.251A>T	c.(250-252)GAC>GTC	p.D84V	uc001nkt.1_Intron|YPEL4_uc009ymk.2_RNA	NM_145008	NP_659445	Q96NS1	YPEL4_HUMAN	yippee-like 4	84						nucleolus					0						ACAGAAAATGTCAGCTACCGA	0.562													7	88	---	---	---	---	PASS	A	57413813	A	A	57413813	3	1	174	1	0	0	0	0	1	0	0	0	17489	1667	58	5	140	5	YPEL4	11	57413813	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	1552233	57413813	77592703	186	62132										
OR6Q1	219952	broad.mit.edu	37	chr11	57799282	57799282	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gtcttctactctgttgtcacGcccatgctcaatcctctcat	5	15	6	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:57799282G>C	uc010rjz.1	+	1	858	c.858G>C	c.(856-858)ACG>ACC	p.T286T	OR9Q1_uc001nmj.2_Intron	NM_001005186	NP_001005186	Q8NGQ2	OR6Q1_HUMAN	olfactory receptor, family 6, subfamily Q,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(1)	1		Breast(21;0.0707)|all_epithelial(135;0.142)				CTGTTGTCACGCCCATGCTCA	0.473													25	193	---	---	---	---	PASS	C	57799282	C	C	57799282	2	2	174	1	0	0	0	0	0	0	0	1	11208	1074	38	4		4	OR6Q1	11	57799282	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	385469	57799282	77207234	187	62133										
EML3	256364	broad.mit.edu	37	chr11	62376917	62376917	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gatgtacatggtaatggggcGccctcgaaggaacatcttca	12	9	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:62376917G>A	uc001ntu.1	-	6	975	c.667C>T	c.(667-669)CGC>TGC	p.R223C	EML3_uc001ntr.1_Missense_Mutation_p.R195C|EML3_uc001nts.1_Missense_Mutation_p.R195C|EML3_uc001ntt.1_Missense_Mutation_p.R107C|EML3_uc010rly.1_Missense_Mutation_p.R223C|EML3_uc009yny.1_Missense_Mutation_p.R6C	NM_153265	NP_694997	Q32P44	EMAL3_HUMAN	echinoderm microtubule associated protein like	223						cytoplasm|microtubule	protein binding			ovary(1)	1						GTAATGGGGCGCCCTCGAAGG	0.582													21	104	---	---	---	---	PASS	A	62376917	A	A	62376917	3	1	174	1	0	0	0	0	1	0	0	0	5098	1087	38	1	2091	1	EML3	11	62376917	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	4577635	62376917	72629599	188	62134										
HNRNPUL2	221092	broad.mit.edu	37	chr11	62487535	62487535	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gattcaggcacatcatctccCtctacttccttcctcaactc	3	17	5	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:62487535C>T	uc001nuw.2	-	10	1933	c.1740G>A	c.(1738-1740)GAG>GAA	p.E580E	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	580					cell killing	nucleus	ATP binding|nucleic acid binding				0						CATCATCTCCCTCTACTTCCT	0.348													6	224	---	---	---	---	PASS	T	62487535	T	T	62487535	2	4	174	1	0	0	0	0	0	0	0	1	7275	680	24	3		3	HNRNPUL2	11	62487535	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	110618	62487535	72518981	189	62135										
PACS1	55690	broad.mit.edu	37	chr11	65838059	65838061	+	In_Frame_Del	DEL	GCA	-	-													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tcccctcagcagccgccgccGcagcagcagcagcagcagcc					rs75352646		TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:65838059_65838061delGCA	uc001oha.1	+	1	236_238	c.102_104delGCA	c.(100-105)CCGCAG>CCG	p.Q40del	PACS1_uc001ogz.1_In_Frame_Del_p.Q40del	NM_018026	NP_060496	Q6VY07	PACS1_HUMAN	phosphofurin acidic cluster sorting protein 1	40	Gly-rich.|Poly-Gln.				interspecies interaction between organisms|regulation of defense response to virus by virus|viral reproduction	cytosol	protein binding			ovary(6)	6						agccgccgccgcagcagcagcag	0.606													6	3	---	---	---	---		-	65838061	-	-	65838059	7	5	174	1	0	1	0	1	0	0	0	0	11372	1074	38	0	104	0	PACS1	11	65838059	In_Frame_Del	DEL	GCA	TCGA-70-6722-01A-11D-1817-08	3350524	65838059	69168457	190	62136										
IGHMBP2	3508	broad.mit.edu	37	chr11	68675734	68675734	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gagtcccacgatttccagttGagcttggaccgagagaattc	11	10	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:68675734G>C	uc001ook.1	+	3	480	c.378G>C	c.(376-378)TTG>TTC	p.L126F	IGHMBP2_uc001ooj.1_RNA	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	126					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			ATTTCCAGTTGAGCTTGGACC	0.502													21	117	---	---	---	---	PASS	C	68675734	C	C	68675734	3	2	174	1	0	0	0	0	1	0	0	0	7591	1281	45	2	388	2	IGHMBP2	11	68675734	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	2837675	68675734	66330782	191	62137										
IGHMBP2	3508	broad.mit.edu	37	chr11	68705714	68705714	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctggtttctgccgccgttaaGgctgataacacctgcggctt	11	12	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:68705714G>T	uc001ook.1	+	14	2778	c.2676G>T	c.(2674-2676)AAG>AAT	p.K892N	IGHMBP2_uc001ool.1_Missense_Mutation_p.K516N	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	892					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CCGCCGTTAAGGCTGATAACA	0.627													26	72	---	---	---	---	PASS	T	68705714	T	T	68705714	3	4	174	1	0	0	0	0	1	0	0	0	7591	991	35	3	2730	3	IGHMBP2	11	68705714	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	29980	68705714	66300802	192	62138										
P2RY2	5029	broad.mit.edu	37	chr11	72946147	72946147	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tggctgggcagaggctcgtaCgctttgcccgagatgccaag	15	11	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:72946147C>T	uc001otj.2	+	3	1276	c.943C>T	c.(943-945)CGC>TGC	p.R315C	P2RY2_uc001otk.2_Missense_Mutation_p.R315C|P2RY2_uc001otl.2_Missense_Mutation_p.R315C	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	315	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(1)|skin(1)	4					Suramin(DB04786)	GAGGCTCGTACGCTTTGCCCG	0.647													9	48	---	---	---	---	PASS	T	72946147	T	T	72946147	3	4	174	1	0	0	0	0	1	0	0	0	11352	536	19	1	945	1	P2RY2	11	72946147	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	4240433	72946147	62060369	193	62139										
P2RY6	5031	broad.mit.edu	37	chr11	73007682	73007682	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ttcggcggtgctggcggctgGcctgccgctgaacatctgtg	16	12	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:73007682G>T	uc001otm.2	+	4	524	c.119G>T	c.(118-120)GGC>GTC	p.G40V	P2RY6_uc001otn.2_Missense_Mutation_p.G40V|P2RY6_uc001oto.2_Missense_Mutation_p.G40V|P2RY6_uc001otp.2_Missense_Mutation_p.G40V|P2RY6_uc001otq.2_Missense_Mutation_p.G40V|P2RY6_uc001otr.2_Missense_Mutation_p.G40V|P2RY6_uc001ots.2_Missense_Mutation_p.G40V	NM_176796	NP_789766	Q15077	P2RY6_HUMAN	pyrimidinergic receptor P2Y6	40	Helical; Name=1; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1						CTGGCGGCTGGCCTGCCGCTG	0.632													70	180	---	---	---	---	PASS	T	73007682	T	T	73007682	3	4	174	1	0	0	0	0	1	0	0	0	11354	1203	42	3	121	3	P2RY6	11	73007682	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	61535	73007682	61998834	194	62140										
DNAJB13	374407	broad.mit.edu	37	chr11	73681140	73681140	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccagaagaagcagatgctgcGccaggcattgctgacatgac	12	11	0	5			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:73681140G>T	uc001ouo.2	+	8	1683	c.932G>T	c.(931-933)CGC>CTC	p.R311L		NM_153614	NP_705842	P59910	DJB13_HUMAN	testis spermatogenesis apoptosis-related protein	311					apoptosis|protein folding|spermatogenesis		heat shock protein binding|unfolded protein binding				0	Breast(11;7.42e-05)					CAGATGCTGCGCCAGGCATTG	0.617													23	108	---	---	---	---	PASS	T	73681140	T	T	73681140	3	4	174	1	0	0	0	0	1	0	0	0	4618	1087	38	1	962	1	DNAJB13	11	73681140	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	673458	73681140	61325376	195	62141										
CNTN5	53942	broad.mit.edu	37	chr11	99715950	99715950	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tcagtgtttagcaaccaacaCtgtggggagtattcttagta	10	7	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:99715950C>A	uc001pga.2	+	6	872	c.533C>A	c.(532-534)ACT>AAT	p.T178N	CNTN5_uc009ywv.1_Missense_Mutation_p.T178N|CNTN5_uc001pfz.2_Missense_Mutation_p.T178N|CNTN5_uc001pgb.2_Missense_Mutation_p.T104N	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	178	Ig-like C2-type 1.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		GCAACCAACACTGTGGGGAGT	0.348													24	189	---	---	---	---	PASS	A	99715950	A	A	99715950	3	1	174	1	0	0	0	0	1	0	0	0	3644	565	20	3	547	3	CNTN5	11	99715950	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	26034810	99715950	35290566	196	62142										
MMP1	4312	broad.mit.edu	37	chr11	102665947	102665947	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctccccgaatcgtagttataGcatcaaaggttagcttactg	8	10	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:102665947G>T	uc001phi.2	-	6	1000	c.857C>A	c.(856-858)GCT>GAT	p.A286D	uc001phh.1_RNA|MMP1_uc010ruv.1_Missense_Mutation_p.A220D	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	286	Hemopexin-like 1.				blood coagulation|collagen catabolic process|interspecies interaction between organisms|leukocyte migration|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)|lung(1)	4	all_epithelial(12;0.0127)	all_neural(303;0.000318)|all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.072)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.233)	OV - Ovarian serous cystadenocarcinoma(223;1.82e-07)|Epithelial(105;1.51e-06)|BRCA - Breast invasive adenocarcinoma(274;0.014)		CGTAGTTATAGCATCAAAGGT	0.408													14	102	---	---	---	---	PASS	T	102665947	T	T	102665947	3	4	174	1	0	0	0	0	1	0	0	0	9648	971	34	3	572	3	MMP1	11	102665947	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	2949997	102665947	32340569	197	62143										
OR6M1	390261	broad.mit.edu	37	chr11	123676798	123676798	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cagcaaaagatatggttttcTcttctcctaggaggcaggcc	10	10	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr11:123676798T>G	uc010rzz.1	-	1	260	c.260A>C	c.(259-261)GAG>GCG	p.E87A		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		TATGGTTTTCTCTTCTCCTAG	0.438													9	59	---	---	---	---	PASS	G	123676798	G	G	123676798	3	3	174	1	0	0	0	0	1	0	0	0	11205	1551	54	5	684	5	OR6M1	11	123676798	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	21010851	123676798	11329718	198	62144										
CACNA1C	775	broad.mit.edu	37	chr12	2693738	2693738	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgctgagagcctcacatctgCccaaaaggaggaggaagagg	14	9	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:2693738C>A	uc009zdu.1	+	16	2607	c.2294C>A	c.(2293-2295)GCC>GAC	p.A765D	CACNA1C_uc009zdv.1_Missense_Mutation_p.A762D|CACNA1C_uc001qkb.2_Missense_Mutation_p.A765D|CACNA1C_uc001qkc.2_Missense_Mutation_p.A765D|CACNA1C_uc001qke.2_Missense_Mutation_p.A765D|CACNA1C_uc001qkf.2_Missense_Mutation_p.A765D|CACNA1C_uc001qjz.2_Missense_Mutation_p.A765D|CACNA1C_uc001qkd.2_Missense_Mutation_p.A765D|CACNA1C_uc001qkg.2_Missense_Mutation_p.A765D|CACNA1C_uc009zdw.1_Missense_Mutation_p.A765D|CACNA1C_uc001qkh.2_Missense_Mutation_p.A765D|CACNA1C_uc001qkl.2_Missense_Mutation_p.A765D|CACNA1C_uc001qkn.2_Missense_Mutation_p.A765D|CACNA1C_uc001qko.2_Missense_Mutation_p.A765D|CACNA1C_uc001qkp.2_Missense_Mutation_p.A765D|CACNA1C_uc001qkr.2_Missense_Mutation_p.A765D|CACNA1C_uc001qku.2_Missense_Mutation_p.A765D|CACNA1C_uc001qkq.2_Missense_Mutation_p.A765D|CACNA1C_uc001qks.2_Missense_Mutation_p.A765D|CACNA1C_uc001qkt.2_Missense_Mutation_p.A765D|CACNA1C_uc001qka.1_Missense_Mutation_p.A300D|CACNA1C_uc001qki.1_Missense_Mutation_p.A501D|CACNA1C_uc001qkj.1_Missense_Mutation_p.A501D|CACNA1C_uc001qkk.1_Missense_Mutation_p.A501D|CACNA1C_uc001qkm.1_Missense_Mutation_p.A501D|CACNA1C_uc001qkw.2_Missense_Mutation_p.A54D	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	765	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CTCACATCTGCCCaaaaggag	0.433													24	33	---	---	---	---	PASS	A	2693738	A	A	2693738	3	1	174	1	0	0	0	0	1	0	0	0	2540	739	26	3	2464	3	CACNA1C	12	2693738	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08		2693738	131158157	199	62145										
APOBEC1	339	broad.mit.edu	37	chr12	7805379	7805379	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gagcagacaggcctctttacGaagttctctggggtcataga	12	9	3	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:7805379G>A	uc001qtb.2	-	3	131	c.97C>T	c.(97-99)CGT>TGT	p.R33C	APOBEC1_uc001qtc.2_5'UTR|APOBEC1_uc010sgf.1_Missense_Mutation_p.R33C	NM_001644	NP_001635	P41238	ABEC1_HUMAN	apolipoprotein B mRNA editing enzyme	33					cytidine to uridine editing|DNA demethylation|lipid metabolic process|mRNA modification|mRNA processing|negative regulation of methylation-dependent chromatin silencing	nucleoplasm	cytidine deaminase activity|RNA binding|zinc ion binding				0						GCCTCTTTACGAAGTTCTCTG	0.473													16	93	---	---	---	---	PASS	A	7805379	A	A	7805379	3	1	174	1	0	0	0	0	1	0	0	0	787	1058	37	2	625	2	APOBEC1	12	7805379	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	5111641	7805379	126046516	200	62146										
KLRC3	3823	broad.mit.edu	37	chr12	10568344	10568344	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctggtctgatataagtccacGtacatgtagcattgcacagt	9	9	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:10568344G>T	uc001qyf.2	-	6	682	c.637C>A	c.(637-639)CGT>AGT	p.R213S	KLRC3_uc001qyh.2_Missense_Mutation_p.R213S|KLRC3_uc001qyi.1_Missense_Mutation_p.R213S	NM_002261	NP_002252	Q07444	NKG2E_HUMAN	killer cell lectin-like receptor subfamily C,	213	C-type lectin.|Extracellular (Potential).				cellular defense response	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|skin(1)	3						ATAAGTCCACGTACATGTAGC	0.363													36	42	---	---	---	---	PASS	T	10568344	T	T	10568344	3	4	174	1	0	0	0	0	1	0	0	0	8417	1145	40	1	189	1	KLRC3	12	10568344	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	2762965	10568344	123283551	201	62147										
PDZRN4	29951	broad.mit.edu	37	chr12	41967075	41967075	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aacacatcccttacctctctCcttaccacagctcctcatat	1	18	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:41967075C>T	uc010skn.1	+	10	1965	c.1897C>T	c.(1897-1899)CCT>TCT	p.P633S	PDZRN4_uc001rmq.3_Missense_Mutation_p.P574S|PDZRN4_uc009zjz.2_Missense_Mutation_p.P572S|PDZRN4_uc001rmr.2_Missense_Mutation_p.P459S	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	832							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				TTACCTCTCTCCTTACCACAG	0.468													45	122	---	---	---	---	PASS	T	41967075	T	T	41967075	3	4	174	1	0	0	0	0	1	0	0	0	11710	855	30	2	2605	2	PDZRN4	12	41967075	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	31398731	41967075	91884820	202	62148										
TMEM117	84216	broad.mit.edu	37	chr12	44770376	44770376	+	Splice_Site	SNP	A	G	G													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tttatttgattttctctgacAggactgggaattcccacatt							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:44770376A>G	uc001rod.2	+	7	835	c.769_splice	c.e7-2	p.D257_splice	TMEM117_uc001roe.2_Splice_Site_p.D153_splice|TMEM117_uc009zkc.2_Intron	NM_032256	NP_115632	Q9H0C3	TM117_HUMAN	transmembrane protein 117							endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		TTTCTCTGACAGGACTGGGAA	0.353													20	100	---	---	---	---	PASS	G	44770376	G	G	44770376	5	3	174	1	0	0	0	0	0	0	1	0	16028	202	7	5	789	5	TMEM117	12	44770376	Splice_Site	SNP	A	TCGA-70-6722-01A-11D-1817-08	2803301	44770376	89081519	203	62149	1076	2								
TMEM117	84216	broad.mit.edu	37	chr12	44770378	44770378	+	Missense_Mutation	SNP	G	T	T													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tatttgattttctctgacagGactgggaattcccacatttc							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:44770378G>T	uc001rod.2	+	7	835	c.769G>T	c.(769-771)GAC>TAC	p.D257Y	TMEM117_uc001roe.2_Missense_Mutation_p.D153Y|TMEM117_uc009zkc.2_Intron	NM_032256	NP_115632	Q9H0C3	TM117_HUMAN	transmembrane protein 117	257	Helical; (Potential).					endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		TCTCTGACAGGACTGGGAATT	0.353													21	100	---	---	---	---	PASS	T	44770378	T	T	44770378	3	4	174	1	0	0	0	0	1	0	0	0	16028	1188	41	2	791	2	TMEM117	12	44770378	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	2	44770378	89081517	204	62150	1076	2								
ARID2	196528	broad.mit.edu	37	chr12	46243515	46243515	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agtttctacttctgttgttcGtgttgattctgttcctgatg	9	7	3	2	rs150280339		TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:46243515G>T	uc001ros.1	+	14	1868	c.1868G>T	c.(1867-1869)CGT>CTT	p.R623L	ARID2_uc001ror.2_Missense_Mutation_p.R623L|ARID2_uc009zkg.1_Missense_Mutation_p.R79L|ARID2_uc009zkh.1_Missense_Mutation_p.R250L|ARID2_uc001rou.1_5'Flank	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	623					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TCTGTTGTTCGTGTTGATTCT	0.383													43	134	---	---	---	---	PASS	T	46243515	T	T	46243515	3	4	174	1	0	0	0	0	1	0	0	0	915	1145	40	1	1922	1	ARID2	12	46243515	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1473137	46243515	87608380	205	62151										
MLL2	8085	broad.mit.edu	37	chr12	49441822	49441822	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gaggtggccctctgccccccGgccaaagctgccacatacca	10	18	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:49441822G>A	uc001rta.3	-	14	4162	c.4162C>T	c.(4162-4164)CGG>TGG	p.R1388W		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1388	PHD-type 3.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TCTGCCCCCCGGCCAAAGCTG	0.547			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			14	81	---	---	---	---	PASS	A	49441822	A	A	49441822	3	1	174	1	0	0	0	0	1	0	0	0	9621	1115	39	1	12615	1	MLL2	12	49441822	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	3198307	49441822	84410073	206	62152										
TIMELESS	8914	broad.mit.edu	37	chr12	56815268	56815268	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgatattcttcatgatatgaCccaggacatctataaaaagc	6	8	3	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:56815268C>A	uc001slf.2	-	23	2903	c.2735G>T	c.(2734-2736)GGT>GTT	p.G912V		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	912					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						CATGATATGACCCAGGACATC	0.478													14	128	---	---	---	---	PASS	A	56815268	A	A	56815268	3	1	174	1	0	0	0	0	1	0	0	0	15901	507	18	3	919	3	TIMELESS	12	56815268	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	7373446	56815268	77036627	207	62153										
KIF5A	3798	broad.mit.edu	37	chr12	57969023	57969023	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agatggaagtgaccgggcggGagctctcatcctgccagctc	14	12	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:57969023G>T	uc001sor.1	+	16	2081	c.1873G>T	c.(1873-1875)GAG>TAG	p.E625*	KIF5A_uc010srr.1_Nonsense_Mutation_p.E536*	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	625					blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						GACCGGGCGGGAGCTCTCATC	0.542													10	25	---	---	---	---	PASS	T	57969023	T	T	57969023	4	4	174	1	0	0	0	0	0	1	0	0	8305	1175	41	2	1935	2	KIF5A	12	57969023	Nonsense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1153755	57969023	75882872	208	62154										
KCNC2	3747	broad.mit.edu	37	chr12	75444822	75444822	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aagtagaaaggtaggatggcCacaaagtcaatgatattcaa	10	5	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:75444822C>A	uc001sxg.1	-	3	1507	c.963G>T	c.(961-963)GTG>GTT	p.V321V	KCNC2_uc009zry.2_Silent_p.V321V|KCNC2_uc001sxe.2_Silent_p.V321V|KCNC2_uc001sxf.2_Silent_p.V321V|KCNC2_uc010stw.1_Silent_p.V321V	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	321	Helical; Name=Segment S3; (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						GTAGGATGGCCACAAAGTCAA	0.408													15	60	---	---	---	---	PASS	A	75444822	A	A	75444822	2	1	174	1	0	0	0	0	0	0	0	1	8015	581	21	3		3	KCNC2	12	75444822	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	17475799	75444822	58407073	209	62155										
NAV3	89795	broad.mit.edu	37	chr12	78511901	78511901	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agaagattttgacagccatgGggatgctggtggcaagtgga	16	5	0	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:78511901G>T	uc001syp.2	+	14	3037	c.2864G>T	c.(2863-2865)GGG>GTG	p.G955V	NAV3_uc001syo.2_Missense_Mutation_p.G955V|NAV3_uc010sub.1_Missense_Mutation_p.G455V|NAV3_uc009zsf.2_5'UTR	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	955						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GACAGCCATGGGGATGCTGGT	0.512										HNSCC(70;0.22)			44	118	---	---	---	---	PASS	T	78511901	T	T	78511901	3	4	174	1	0	0	0	0	1	0	0	0	10185	1232	43	3	2918	3	NAV3	12	78511901	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	3067079	78511901	55339994	210	62156										
FGD6	55785	broad.mit.edu	37	chr12	95535176	95535176	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atttttaccagtgcaacattCtttcctccagttccttcaag	4	12	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:95535176C>G	uc001tdp.3	-	6	3049	c.2825G>C	c.(2824-2826)AGA>ACA	p.R942T	FGD6_uc009zsx.2_Missense_Mutation_p.R75T	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	942	DH.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						GTGCAACATTCTTTCCTCCAG	0.428													5	57	---	---	---	---	PASS	G	95535176	G	G	95535176	3	3	174	1	0	0	0	0	1	0	0	0	5837	913	32	2	1531	2	FGD6	12	95535176	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	17023275	95535176	38316719	211	62157										
TAOK3	51347	broad.mit.edu	37	chr12	118599636	118599636	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gaagttccatgacatgctttCtgtgcagttctctttctcgc	8	11	3	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:118599636C>T	uc001twx.2	-	18	2391	c.2096G>A	c.(2095-2097)AGA>AAA	p.R699K	TAOK3_uc001twv.2_Missense_Mutation_p.R239K|TAOK3_uc001tww.2_Missense_Mutation_p.R529K|TAOK3_uc001twy.3_Missense_Mutation_p.R699K	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	699					MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GACATGCTTTCTGTGCAGTTC	0.418													42	206	---	---	---	---	PASS	T	118599636	T	T	118599636	3	4	174	1	0	0	0	0	1	0	0	0	15546	913	32	2	616	2	TAOK3	12	118599636	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	23064460	118599636	15252259	212	62158										
CCDC60	160777	broad.mit.edu	37	chr12	119978478	119978478	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tacatcagctggctgcagagCcggatcaacatacccattgg	10	12	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:119978478C>A	uc001txe.2	+	14	2076	c.1611C>A	c.(1609-1611)AGC>AGA	p.S537R	uc001txf.2_Intron	NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60	537										ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		GGCTGCAGAGCCGGATCAACA	0.522													30	91	---	---	---	---	PASS	A	119978478	A	A	119978478	3	1	174	1	0	0	0	0	1	0	0	0	2831	738	26	3	1665	3	CCDC60	12	119978478	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1378842	119978478	13873417	213	62159										
TMEM132B	114795	broad.mit.edu	37	chr12	126068503	126068503	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgtggtcgatgtgtctgagtCtgtggaatgcaagtctgccg	15	7	3	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr12:126068503C>A	uc001uhe.1	+	5	1393	c.1385C>A	c.(1384-1386)TCT>TAT	p.S462Y		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	462	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		GTGTCTGAGTCTGTGGAATGC	0.478													81	212	---	---	---	---	PASS	A	126068503	A	A	126068503	3	1	174	1	0	0	0	0	1	0	0	0	16043	913	32	2	1403	2	TMEM132B	12	126068503	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	6090025	126068503	7783392	214	62160										
ZMYM5	9205	broad.mit.edu	37	chr13	20413041	20413041	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	taggctggaaattctgcttaCgaagtaaggccactggtgat	12	7	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr13:20413041C>T	uc010tcn.1	-	5	936	c.671G>A	c.(670-672)CGT>CAT	p.R224H	ZMYM5_uc001umm.1_Missense_Mutation_p.R48H|ZMYM5_uc001umn.2_Missense_Mutation_p.R224H|ZMYM5_uc001umo.2_Intron	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	224						nucleus	zinc ion binding				0		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		ATTCTGCTTACGAAGTAAGGC	0.418													6	215	---	---	---	---	PASS	T	20413041	T	T	20413041	3	4	174	1	0	0	0	0	1	0	0	0	17700	536	19	1	1465	1	ZMYM5	13	20413041	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08		20413041	94756837	215	62161										
BRCA2	675	broad.mit.edu	37	chr13	32915254	32915254	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	catgccacacattctcttttTacatgtcccgaaaatgagga	6	11	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr13:32915254T>C	uc001uub.1	+	11	6989	c.6762T>C	c.(6760-6762)TTT>TTC	p.F2254F		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2254					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		ATTCTCTTTTTACATGTCCCG	0.363			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			49	120	---	---	---	---	PASS	C	32915254	C	C	32915254	2	2	174	1	0	0	0	0	0	0	0	1	1499	1751	61	5		5	BRCA2	13	32915254	Silent	SNP	T	TCGA-70-6722-01A-11D-1817-08	12502213	32915254	82254624	216	62162										
OR4N5	390437	broad.mit.edu	37	chr14	20612691	20612691	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ttgccccttccaggctttccCagctgacaaggtagtttctc	8	14	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr14:20612691C>G	uc010tla.1	+	1	797	c.797C>G	c.(796-798)CCA>CGA	p.P266R		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	266	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)		CAGGCTTTCCCAGCTGACAAG	0.428													51	179	---	---	---	---	PASS	G	20612691	G	G	20612691	3	3	174	1	0	0	0	0	1	0	0	0	11079	594	21	4	799	4	OR4N5	14	20612691	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08		20612691	86736849	217	62163										
CHD8	57680	broad.mit.edu	37	chr14	21894357	21894357	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccacatctgaattatcagatGaggtattacgttttctcttc	6	9	3	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr14:21894357G>A	uc001was.1	-	5	903	c.809C>T	c.(808-810)TCA>TTA	p.S270L	CHD8_uc001war.1_Missense_Mutation_p.S166L	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	549					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		ATTATCAGATGAGGTATTACG	0.373													8	23	---	---	---	---	PASS	A	21894357	A	A	21894357	3	1	174	1	0	0	0	0	1	0	0	0	3331	1294	45	2	6235	2	CHD8	14	21894357	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1281666	21894357	85455183	218	62164										
KHNYN	23351	broad.mit.edu	37	chr14	24901069	24901069	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcaggaggcgtctagtgggcAggggccaggagcactggctt	19	9	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr14:24901069A>C	uc001wph.3	+	3	804	c.602A>C	c.(601-603)CAG>CCG	p.Q201P	KHNYN_uc010tpc.1_Missense_Mutation_p.Q242P|KHNYN_uc010alw.2_Missense_Mutation_p.Q201P|CBLN3_uc001wpg.3_5'Flank	NM_015299	NP_056114	O15037	KHNYN_HUMAN	hypothetical protein LOC23351	201										ovary(2)|liver(1)	3						TCTAGTGGGCAGGGGCCAGGA	0.657											OREG0022627	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	86	---	---	---	---	PASS	C	24901069	C	C	24901069	3	2	174	1	0	0	0	0	1	0	0	0	8150	188	7	5	608	5	KHNYN	14	24901069	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	3006712	24901069	82448471	219	62165										
C14orf101	54916	broad.mit.edu	37	chr14	57114058	57114058	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gatgctgcgtcttcaggcaaGagatgcagatcctgaagtgc	13	9	2	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr14:57114058G>A	uc001xcm.2	+	16	2089	c.1967G>A	c.(1966-1968)AGA>AAA	p.R656K	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_Missense_Mutation_p.R189K|C14orf101_uc001xco.2_Missense_Mutation_p.R189K	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	656						integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		CTTCAGGCAAGAGATGCAGAT	0.458													8	48	---	---	---	---	PASS	A	57114058	A	A	57114058	3	1	174	1	0	0	0	0	1	0	0	0	1734	942	33	2	2029	2	C14orf101	14	57114058	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	32212989	57114058	50235482	220	62166										
HIF1A	3091	broad.mit.edu	37	chr14	62187261	62187261	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gatgaggcttaccatcagctAtttgcgtgtgaggaaacttc	11	8	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr14:62187261A>G	uc001xfq.2	+	2	601	c.197A>G	c.(196-198)TAT>TGT	p.Y66C	HIF1A_uc010tsc.1_Intron|HIF1A_uc001xfr.2_Missense_Mutation_p.Y66C|HIF1A_uc001xfs.2_Missense_Mutation_p.Y67C	NM_001530	NP_001521	Q16665	HIF1A_HUMAN	hypoxia-inducible factor 1, alpha subunit	66	Interaction with TSGA10 (By similarity).|Helix-loop-helix motif.				cellular response to hypoxia|collagen metabolic process|connective tissue replacement involved in inflammatory response wound healing|elastin metabolic process|epithelial to mesenchymal transition|oxygen homeostasis|positive regulation of chemokine production|positive regulation of epithelial cell migration|positive regulation of hormone biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|regulation of transforming growth factor-beta2 production	cytoplasm|nucleolus|transcription factor complex	histone acetyltransferase binding|Hsp90 protein binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			kidney(3)|lung(1)	4				OV - Ovarian serous cystadenocarcinoma(108;1.62e-09)|BRCA - Breast invasive adenocarcinoma(234;0.189)		ACCATCAGCTATTTGCGTGTG	0.373													18	70	---	---	---	---	PASS	G	62187261	G	G	62187261	3	3	174	1	0	0	0	0	1	0	0	0	7103	449	16	5	203	5	HIF1A	14	62187261	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	5073203	62187261	45162279	221	62167										
TMEM229B	161145	broad.mit.edu	37	chr14	67940583	67940583	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	catcacctcgcagaagtagcCgtggatggcatacaggtacc	11	12	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr14:67940583C>T	uc001xjk.2	-	3	468	c.58G>A	c.(58-60)GGC>AGC	p.G20S	TMEM229B_uc001xjj.1_RNA	NM_182526	NP_872332	Q8NBD8	T229B_HUMAN	transmembrane protein 229B	20	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						CAGAAGTAGCCGTGGATGGCA	0.642													14	25	---	---	---	---	PASS	T	67940583	T	T	67940583	3	4	174	1	0	0	0	0	1	0	0	0	16145	652	23	1	449	1	TMEM229B	14	67940583	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	5753322	67940583	39408957	222	62168										
FLRT2	23768	broad.mit.edu	37	chr14	86089392	86089392	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aagacaccatttgttcagagGccaccacccatgcctcctat	6	15	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr14:86089392G>T	uc001xvr.2	+	2	2301	c.1534G>T	c.(1534-1536)GCC>TCC	p.A512S	FLRT2_uc010atd.2_Missense_Mutation_p.A512S	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	512	Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		TTGTTCAGAGGCCACCACCCA	0.562													41	100	---	---	---	---	PASS	T	86089392	T	T	86089392	3	4	174	1	0	0	0	0	1	0	0	0	5939	1203	42	3	1536	3	FLRT2	14	86089392	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	18148809	86089392	21260148	223	62169										
TTC7B	145567	broad.mit.edu	37	chr14	91059951	91059951	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tccactcttgaggctgctacCgatgtggcatggacggagcc	13	12	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr14:91059951C>A	uc001xyp.2	-	18	2108	c.1986G>T	c.(1984-1986)TCG>TCT	p.S662S	TTC7B_uc001xyo.2_Silent_p.S106S|TTC7B_uc010ats.2_RNA	NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	662							binding			ovary(2)	2		Melanoma(154;0.222)				AGGCTGCTACCGATGTGGCAT	0.582													25	50	---	---	---	---	PASS	A	91059951	A	A	91059951	2	1	174	1	0	0	0	0	0	0	0	1	16710	639	23	1		1	TTC7B	14	91059951	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	4970559	91059951	16289589	224	62170										
DYNC1H1	1778	broad.mit.edu	37	chr14	102471151	102471151	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	acatcccaaaatcaatgagtGgctcacattggtagaaaagg	9	8	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr14:102471151G>A	uc001yks.2	+	25	5266	c.5102G>A	c.(5101-5103)TGG>TAG	p.W1701*		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1701	Stem (By similarity).				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						ATCAATGAGTGGCTCACATTG	0.373													4	42	---	---	---	---	PASS	A	102471151	A	A	102471151	4	1	174	1	0	0	0	0	0	1	0	0	4841	1357	47	3	5200	3	DYNC1H1	14	102471151	Nonsense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	11411200	102471151	4878389	225	62171										
KIF26A	26153	broad.mit.edu	37	chr14	104638965	104638965	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctccagtcggtggtcagtggGgctgatggctgcattttttc	14	9	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr14:104638965G>T	uc001yos.3	+	7	1380	c.1380G>T	c.(1378-1380)GGG>GGT	p.G460G		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	460	Kinesin-motor.				blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		TGGTCAGTGGGGCTGATGGCT	0.632													8	29	---	---	---	---	PASS	T	104638965	T	T	104638965	2	4	174	1	0	0	0	0	0	0	0	1	8294	1219	43	3		3	KIF26A	14	104638965	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	2167814	104638965	2710575	226	62172										
STRC	161497	broad.mit.edu	37	chr15	43896213	43896213	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cctggaagatcctcagcagcTggtcgcaccacccctgctac	9	17	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr15:43896213T>A	uc001zsf.2	-	22	4434	c.4356A>T	c.(4354-4356)CCA>CCT	p.P1452P	STRC_uc010bdl.2_Silent_p.P679P|STRC_uc001zse.2_5'UTR	NM_153700	NP_714544	Q7RTU9	STRC_HUMAN	stereocilin precursor	1452					sensory perception of sound	cell surface					0		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		CCTCAGCAGCTGGTCGCACCA	0.517													16	48	---	---	---	---	PASS	A	43896213	A	A	43896213	2	1	174	1	0	0	0	0	0	0	0	1	15327	1567	55	5		5	STRC	15	43896213	Silent	SNP	T	TCGA-70-6722-01A-11D-1817-08		43896213	58635179	227	62173										
MAPK6	5597	broad.mit.edu	37	chr15	52353666	52353666	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atgatattttgcttatggatGaaactcacagtcacatttat	6	6	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr15:52353666G>T	uc002abp.2	+	5	1830	c.1036G>T	c.(1036-1038)GAA>TAA	p.E346*		NM_002748	NP_002739	Q16659	MK06_HUMAN	mitogen-activated protein kinase 6	346					cell cycle		ATP binding|MAP kinase activity			lung(3)|ovary(1)	4				all cancers(107;0.0028)		GCTTATGGATGAAACTCACAG	0.318													16	27	---	---	---	---	PASS	T	52353666	T	T	52353666	4	4	174	1	0	0	0	0	0	1	0	0	9281	1291	45	2	1050	2	MAPK6	15	52353666	Nonsense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	8457453	52353666	50177726	228	62174										
PSTPIP1	9051	broad.mit.edu	37	chr15	77310525	77310525	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cccacacgggctacgaggtgCtgctgcagcggcttctggat	14	13	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr15:77310525C>A	uc002bcf.2	+	2	523	c.73C>A	c.(73-75)CTG>ATG	p.L25M	PSTPIP1_uc010bkt.1_RNA|PSTPIP1_uc010umo.1_Translation_Start_Site|PSTPIP1_uc010bku.1_Missense_Mutation_p.L16M|PSTPIP1_uc002bcg.2_Missense_Mutation_p.L25M|PSTPIP1_uc010bkv.1_RNA|PSTPIP1_uc010bkw.1_Missense_Mutation_p.L25M	NM_003978	NP_003969	O43586	PPIP1_HUMAN	proline-serine-threonine phosphatase interacting	25	FCH.				cell adhesion|signal transduction	cleavage furrow|lamellipodium|perinuclear region of cytoplasm	catalytic activity			ovary(1)	1						CTACGAGGTGCTGCTGCAGCG	0.622													4	3	---	---	---	---	PASS	A	77310525	A	A	77310525	3	1	174	1	0	0	0	0	1	0	0	0	12721	796	28	3	79	3	PSTPIP1	15	77310525	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	24956859	77310525	25220867	229	62175										
CACNA1H	8912	broad.mit.edu	37	chr16	1254227	1254227	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gtccggcacggtgaccgctgGgaccccacgcgaccaccccg	13	19	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:1254227G>C	uc002cks.2	+	10	2468	c.2220G>C	c.(2218-2220)TGG>TGC	p.W740C	CACNA1H_uc002ckt.2_Missense_Mutation_p.W740C	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	740	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	GTGACCGCTGGGACCCCACGC	0.711													5	19	---	---	---	---	PASS	C	1254227	C	C	1254227	3	2	174	1	0	0	0	0	1	0	0	0	2545	1241	43	4	2254	4	CACNA1H	16	1254227	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08		1254227	89100526	230	62176										
ABCA3	21	broad.mit.edu	37	chr16	2353971	2353971	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcagggcatcagaactcaccAtgatgaagaagtaccagggc	12	10	2	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:2353971A>G	uc002cpy.1	-	12	2178	c.1466T>C	c.(1465-1467)ATG>ACG	p.M489T	ABCA3_uc010bsk.1_Missense_Mutation_p.M431T|ABCA3_uc010bsl.1_Missense_Mutation_p.M489T	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	489					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				AGAACTCACCATGATGAAGAA	0.612													11	40	---	---	---	---	PASS	G	2353971	G	G	2353971	3	3	174	1	0	0	0	0	1	0	0	0	33	231	8	5	3736	5	ABCA3	16	2353971	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	1099744	2353971	88000782	231	62177										
A2BP1	54715	broad.mit.edu	37	chr16	7568315	7568315	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tcccgagcacacattaaaccTgtaccctcccgcccagacgc	6	19	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:7568315T>C	uc002cys.2	+	5	1182	c.194T>C	c.(193-195)CTG>CCG	p.L65P	A2BP1_uc010buf.1_Missense_Mutation_p.L65P|A2BP1_uc002cyr.1_Missense_Mutation_p.L65P|A2BP1_uc002cyt.2_Missense_Mutation_p.L65P|A2BP1_uc010uxz.1_Missense_Mutation_p.L108P|A2BP1_uc010uya.1_Missense_Mutation_p.L101P|A2BP1_uc002cyv.1_Missense_Mutation_p.L65P|A2BP1_uc010uyb.1_Missense_Mutation_p.L65P|A2BP1_uc002cyw.2_Missense_Mutation_p.L85P|A2BP1_uc002cyy.2_Missense_Mutation_p.L85P|A2BP1_uc002cyx.2_Missense_Mutation_p.L85P|A2BP1_uc010uyc.1_Missense_Mutation_p.L85P	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	65					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		ACATTAAACCTGTACCCTCCC	0.657													31	152	---	---	---	---	PASS	C	7568315	C	C	7568315	3	2	174	1	0	0	0	0	1	0	0	0	3	1580	55	5	291	5	A2BP1	16	7568315	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	5214344	7568315	82786438	232	62178										
IQCK	124152	broad.mit.edu	37	chr16	19741816	19741816	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aaacaggagcctgtgattacGgtgagtattacctaggcctc	11	9	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:19741816G>T	uc002dgr.2	+	3	945	c.246G>T	c.(244-246)ACG>ACT	p.T82T	IQCK_uc002dgs.2_RNA|IQCK_uc010vat.1_Silent_p.T82T|IQCK_uc010bwc.2_RNA|IQCK_uc010vau.1_Intron	NM_153208	NP_694940	Q8N0W5	IQCK_HUMAN	IQ motif containing K	82										skin(1)	1						CTGTGATTACGGTGAGTATTA	0.443													24	52	---	---	---	---	PASS	T	19741816	T	T	19741816	2	4	174	1	0	0	0	0	0	0	0	1	7813	1130	39	1		1	IQCK	16	19741816	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	12173501	19741816	70612937	233	62179										
ACSM2A	123876	broad.mit.edu	37	chr16	20492174	20492174	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggaccctcggaggtagagaaTgcactgatggagcaccctgc	14	11	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:20492174T>G	uc010bwe.2	+	13	1679	c.1440T>G	c.(1438-1440)AAT>AAG	p.N480K	ACSM2A_uc010vax.1_Missense_Mutation_p.N401K|ACSM2A_uc002dhf.3_Missense_Mutation_p.N480K|ACSM2A_uc002dhg.3_Missense_Mutation_p.N480K|ACSM2A_uc010vay.1_Missense_Mutation_p.N401K|ACSM2A_uc002dhh.3_Missense_Mutation_p.N110K	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	480					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						AGGTAGAGAATGCACTGATGG	0.582													22	89	---	---	---	---	PASS	G	20492174	G	G	20492174	3	3	174	1	0	0	0	0	1	0	0	0	183	1461	51	5	1482	5	ACSM2A	16	20492174	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	750358	20492174	69862579	234	62180										
VWA3A	146177	broad.mit.edu	37	chr16	22134943	22134943	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cacttctgcagcaacagctcAgcagagctatgcggatgtat	10	11	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:22134943A>T	uc010vbq.1	+	16	1543	c.1447A>T	c.(1447-1449)AGC>TGC	p.S483C	VWA3A_uc010bxd.2_RNA|VWA3A_uc010bxc.2_Missense_Mutation_p.S491C	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	483						extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		GCAACAGCTCAGCAGAGCTAT	0.562													27	118	---	---	---	---	PASS	T	22134943	T	T	22134943	3	4	174	1	0	0	0	0	1	0	0	0	17237	188	7	5	1509	5	VWA3A	16	22134943	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	1642769	22134943	68219810	235	62181										
ERN2	10595	broad.mit.edu	37	chr16	23703384	23703384	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcagtgggctcaacatggctCcaaccaggtcccgggcaacc	12	15	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:23703384C>G	uc002dma.3	-	19	2589	c.2420G>C	c.(2419-2421)GGA>GCA	p.G807A	ERN2_uc010bxp.2_Missense_Mutation_p.G755A	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	759	Protein kinase.|Cytoplasmic (Potential).			G -> A (in Ref. 1; BAB21297).	apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		CAACATGGCTCCAACCAGGTC	0.632													73	186	---	---	---	---	PASS	G	23703384	G	G	23703384	3	3	174	1	0	0	0	0	1	0	0	0	5238	855	30	2	520	2	ERN2	16	23703384	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1568441	23703384	66651369	236	62182										
ABCC11	85320	broad.mit.edu	37	chr16	48249217	48249217	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tggtcgctgacctcagatgtGtgatgctgagccttcacagc	12	11	2	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:48249217G>A	uc002eff.1	-	7	1340	c.990C>T	c.(988-990)CAC>CAT	p.H330H	ABCC11_uc002efg.1_Silent_p.H330H|ABCC11_uc002efh.1_Silent_p.H330H|ABCC11_uc010vgk.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	330	ABC transmembrane type-1 1.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				CCTCAGATGTGTGATGCTGAG	0.468									Cerumen_Type				21	58	---	---	---	---	PASS	A	48249217	A	A	48249217	2	1	174	1	0	0	0	0	0	0	0	1	51	1368	48	3		3	ABCC11	16	48249217	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	24545833	48249217	42105536	237	62183										
LONP2	83752	broad.mit.edu	37	chr16	48304001	48304001	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tggaaaaattgaagaaaagaGtactggaatacttggctgtc	11	4	0	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:48304001G>T	uc002efi.1	+	7	1146	c.1057G>T	c.(1057-1059)GTA>TTA	p.V353L	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Missense_Mutation_p.V309L	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	353					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						GAAGAAAAGAGTACTGGAATA	0.448													22	63	---	---	---	---	PASS	T	48304001	T	T	48304001	3	4	174	1	0	0	0	0	1	0	0	0	8893	1029	36	3	1083	3	LONP2	16	48304001	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	54784	48304001	42050752	238	62184										
ZNF423	23090	broad.mit.edu	37	chr16	49764751	49764751	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gaagtcctgctgacagtgatCgcaggtgtaaattgattcat	11	7	1	3	rs149531360		TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:49764751C>A	uc002efs.2	-	4	506	c.208G>T	c.(208-210)GAT>TAT	p.D70Y		NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	70	C2H2-type 1; degenerate.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				TGACAGTGATCGCAGGTGTAA	0.542													61	168	---	---	---	---	PASS	A	49764751	A	A	49764751	3	1	174	1	0	0	0	0	1	0	0	0	17895	884	31	2	3670	2	ZNF423	16	49764751	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1460750	49764751	40590002	239	62185										
NOD2	64127	broad.mit.edu	37	chr16	50745745	50745745	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccaggcaactcaccaatggcCaggctcctgcccacgatgtg	10	16	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:50745745C>A	uc002egm.1	+	4	2028	c.1923C>A	c.(1921-1923)GCC>GCA	p.A641A	NOD2_uc010cbk.1_Silent_p.A614A|NOD2_uc002egl.1_Silent_p.A419A|NOD2_uc010cbl.1_Silent_p.A419A|NOD2_uc010cbm.1_Silent_p.A419A|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	641					activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				CACCAATGGCCAGGCTCCTGC	0.592													19	57	---	---	---	---	PASS	A	50745745	A	A	50745745	2	1	174	1	0	0	0	0	0	0	0	1	10517	581	21	3		3	NOD2	16	50745745	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	980994	50745745	39609008	240	62186										
LPCAT2	54947	broad.mit.edu	37	chr16	55579725	55579725	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ataaagtccggaatttaatgGcagagtaagtgtctatattt	9	4	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:55579725G>A	uc002eie.3	+	9	1112	c.931G>A	c.(931-933)GCA>ACA	p.A311T	LPCAT2_uc002eic.2_Missense_Mutation_p.A41T	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	311	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						GAATTTAATGGCAGAGTAAGT	0.299													23	73	---	---	---	---	PASS	A	55579725	A	A	55579725	3	1	174	1	0	0	0	0	1	0	0	0	8911	1203	42	3	965	3	LPCAT2	16	55579725	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	4833980	55579725	34775028	241	62187										
SLC9A5	6553	broad.mit.edu	37	chr16	67289690	67289690	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gtcagtctgggcggggcagcCgtgggcttagtctttgcctt	16	10	3	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:67289690C>T	uc002esm.2	+	5	831	c.768C>T	c.(766-768)GCC>GCT	p.A256A	SLC9A5_uc010cee.2_5'UTR|SLC9A5_uc010vji.1_Intron	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	256	Helical; (Potential).				regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		GCGGGGCAGCCGTGGGCTTAG	0.652													6	12	---	---	---	---	PASS	T	67289690	T	T	67289690	2	4	174	1	0	0	0	0	0	0	0	1	14717	639	23	1		1	SLC9A5	16	67289690	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	11709965	67289690	23065063	242	62188										
ZFP90	146198	broad.mit.edu	37	chr16	68597569	68597569	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgtggaaaggccttcaggcaTagctcatctcttggtcagca	11	10	4	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:68597569T>C	uc010cff.2	+	5	1171	c.879T>C	c.(877-879)CAT>CAC	p.H293H	ZFP90_uc002ewb.2_Missense_Mutation_p.I99T|ZFP90_uc002ewc.2_Missense_Mutation_p.I99T|ZFP90_uc002ewd.2_Silent_p.H293H|ZFP90_uc002ewe.2_Silent_p.H293H	NM_133458	NP_597715	Q8TF47	ZFP90_HUMAN	zinc finger protein 90	293	C2H2-type 3.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00233)|Epithelial(162;0.0184)|all cancers(182;0.0946)		CCTTCAGGCATAGCTCATCTC	0.488													16	93	---	---	---	---	PASS	C	68597569	C	C	68597569	2	2	174	1	0	0	0	0	0	0	0	1	17651	1403	49	5		5	ZFP90	16	68597569	Silent	SNP	T	TCGA-70-6722-01A-11D-1817-08	1307879	68597569	21757184	243	62189										
ZFP90	146198	broad.mit.edu	37	chr16	68598059	68598059	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	accattgtaatgactgtgggGaagactttagtcacattaca	9	7	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:68598059G>T	uc010cff.2	+	5	1661	c.1369G>T	c.(1369-1371)GAA>TAA	p.E457*	ZFP90_uc002ewb.2_3'UTR|ZFP90_uc002ewc.2_3'UTR|ZFP90_uc002ewd.2_Nonsense_Mutation_p.E457*|ZFP90_uc002ewe.2_Nonsense_Mutation_p.E457*	NM_133458	NP_597715	Q8TF47	ZFP90_HUMAN	zinc finger protein 90	457	C2H2-type 8.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00233)|Epithelial(162;0.0184)|all cancers(182;0.0946)		TGACTGTGGGGAAGACTTTAG	0.423													31	100	---	---	---	---	PASS	T	68598059	T	T	68598059	4	4	174	1	0	0	0	0	0	1	0	0	17651	1175	41	2	1383	2	ZFP90	16	68598059	Nonsense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	490	68598059	21756694	244	62190										
CNTNAP4	85445	broad.mit.edu	37	chr16	76501369	76501369	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gatttcagttcagcaggggtCccttgggaacttcagtgacc	12	10	3	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr16:76501369C>A	uc002feu.1	+	12	1989	c.1604C>A	c.(1603-1605)TCC>TAC	p.S535Y	CNTNAP4_uc002fev.1_Missense_Mutation_p.S399Y|CNTNAP4_uc010chb.1_Missense_Mutation_p.S462Y|CNTNAP4_uc002fex.1_Missense_Mutation_p.S538Y|CNTNAP4_uc002few.2_Missense_Mutation_p.S510Y	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	535	Extracellular (Potential).|Laminin G-like 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						CAGCAGGGGTCCCTTGGGAAC	0.453													11	50	---	---	---	---	PASS	A	76501369	A	A	76501369	3	1	174	1	0	0	0	0	1	0	0	0	3649	855	30	2	1655	2	CNTNAP4	16	76501369	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	7903310	76501369	13853384	245	62191										
ENO3	2027	broad.mit.edu	37	chr17	4860153	4860153	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctggcgccccctgccgctcgGagcgtctggccaaatacaac	11	17	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:4860153G>A	uc002gab.3	+	11	1298	c.1204G>A	c.(1204-1206)GAG>AAG	p.E402K	ENO3_uc002gac.3_Missense_Mutation_p.E402K|ENO3_uc010vss.1_Missense_Mutation_p.E359K|ENO3_uc010vst.1_Missense_Mutation_p.E229K	NM_053013	NP_443739	P13929	ENOB_HUMAN	enolase 3	402					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex	magnesium ion binding|phosphopyruvate hydratase activity			ovary(1)	1						CTGCCGCTCGGAGCGTCTGGC	0.592											OREG0024110	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	48	134	---	---	---	---	PASS	A	4860153	A	A	4860153	3	1	174	1	0	0	0	0	1	0	0	0	5123	1175	41	2	1242	2	ENO3	17	4860153	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08		4860153	76335057	246	62192										
ALOXE3	59344	broad.mit.edu	37	chr17	8018962	8018962	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggcccggagctcccgtgtccTgtgatccaggaggaggggaa	17	11	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:8018962T>C	uc010cnr.2	-	4	767	c.397A>G	c.(397-399)AGG>GGG	p.R133G	ALOXE3_uc002gka.2_Missense_Mutation_p.R289G|ALOXE3_uc010vuo.1_Missense_Mutation_p.R265G|ALOXE3_uc010vup.1_RNA	NM_021628	NP_067641	Q9BYJ1	LOXE3_HUMAN	arachidonate lipoxygenase 3 isoform 2	133	Lipoxygenase.				leukotriene biosynthetic process		iron ion binding|lipoxygenase activity			skin(3)|lung(1)|central_nervous_system(1)	5						TCCCGTGTCCTGTGATCCAGG	0.473													3	84	---	---	---	---	PASS	C	8018962	C	C	8018962	3	2	174	1	0	0	0	0	1	0	0	0	542	1579	55	5	1790	5	ALOXE3	17	8018962	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	3158809	8018962	73176248	247	62193										
MYH8	4626	broad.mit.edu	37	chr17	10297598	10297598	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gagctggacacgctcactggCatccaggagctcctgttcgg	13	13	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:10297598C>A	uc002gmm.2	-	35	5229	c.5134G>T	c.(5134-5136)GCC>TCC	p.A1712S	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1712	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						CGCTCACTGGCATCCAGGAGC	0.542									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				29	61	---	---	---	---	PASS	A	10297598	A	A	10297598	3	1	174	1	0	0	0	0	1	0	0	0	10041	710	25	3	703	3	MYH8	17	10297598	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	2278636	10297598	70897612	248	62194										
MYH2	4620	broad.mit.edu	37	chr17	10443973	10443973	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	actgatctccccttgactgaCaaatgggtaatcatatgggt	9	9	2	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:10443973C>A	uc010coi.2	-	11	1074	c.946G>T	c.(946-948)GTC>TTC	p.V316F	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.V316F|MYH2_uc010coj.2_Missense_Mutation_p.V316F	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	316	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CCTTGACTGACAAATGGGTAA	0.378													23	55	---	---	---	---	PASS	A	10443973	A	A	10443973	3	1	174	1	0	0	0	0	1	0	0	0	10035	478	17	3	4999	3	MYH2	17	10443973	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	146375	10443973	70751237	249	62195										
DNAH9	1770	broad.mit.edu	37	chr17	11837356	11837356	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tggccccagggttcccactcCcaggcaacatggactacaat	9	15	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:11837356C>A	uc002gne.2	+	65	12525	c.12457C>A	c.(12457-12459)CCA>ACA	p.P4153T	DNAH9_uc010coo.2_Missense_Mutation_p.P3371T|DNAH9_uc002gnf.2_Missense_Mutation_p.P465T	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	4153					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GTTCCCACTCCCAGGCAACAT	0.532													40	99	---	---	---	---	PASS	A	11837356	A	A	11837356	3	1	174	1	0	0	0	0	1	0	0	0	4608	623	22	3	12715	3	DNAH9	17	11837356	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1393383	11837356	69357854	250	62196										
SARM1	23098	broad.mit.edu	37	chr17	26708234	26708234	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctgggcagagaccgcgtggcGcgcattgggctgggcgtgat	19	10	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:26708234G>T	uc010crl.1	+	5	550	c.483G>T	c.(481-483)GCG>GCT	p.A161A	SARM1_uc010wah.1_Missense_Mutation_p.A182S|SARM1_uc010waj.1_RNA	NM_015077	NP_055892	Q6SZW1	SARM1_HUMAN	sterile alpha and TIR motif containing 1	161					innate immune response	cytoplasm|intrinsic to membrane	binding|transmembrane receptor activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		ACCGCGTGGCGCGCATTGGGC	0.612													3	15	---	---	---	---	PASS	T	26708234	T	T	26708234	2	4	174	1	0	0	0	0	0	0	0	1	13842	1074	38	1		1	SARM1	17	26708234	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	14870878	26708234	54486976	251	62197										
PNMT	5409	broad.mit.edu	37	chr17	37825907	37825907	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gtgtccggacgcaccctcatCgacattggttcaggccccac	10	16	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:37825907C>T	uc002hsi.1	+	2	450	c.228C>T	c.(226-228)ATC>ATT	p.I76I		NM_002686	NP_002677	P11086	PNMT_HUMAN	phenylethanolamine N-methyltransferase	76					catecholamine biosynthetic process|hormone biosynthetic process	cytosol	phenylethanolamine N-methyltransferase activity			ovary(1)	1	all_cancers(6;6.59e-85)|all_epithelial(6;2.89e-103)|Breast(7;1.05e-86)|Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;3.87e-45)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GCACCCTCATCGACATTGGTT	0.632													7	52	---	---	---	---	PASS	T	37825907	T	T	37825907	2	4	174	1	0	0	0	0	0	0	0	1	12159	874	31	2		2	PNMT	17	37825907	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	11117673	37825907	43369303	252	62198										
GPATCH8	23131	broad.mit.edu	37	chr17	42476454	42476454	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cctgatctctgggaagggctCctggtgctgcggctgcggtc	16	12	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:42476454C>G	uc002igw.1	-	8	3055	c.2991G>C	c.(2989-2991)AGG>AGC	p.R997S	GPATCH8_uc002igv.1_Missense_Mutation_p.R919S|GPATCH8_uc010wiz.1_Missense_Mutation_p.R919S	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	997	Ser-rich.					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)		GGGAAGGGCTCCTGGTGCTGC	0.602													3	36	---	---	---	---	PASS	G	42476454	G	G	42476454	3	3	174	1	0	0	0	0	1	0	0	0	6594	854	30	2	1521	2	GPATCH8	17	42476454	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	4650547	42476454	38718756	253	62199										
ADAM11	4185	broad.mit.edu	37	chr17	42849019	42849019	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcactccttcgccgccctctCcacctgccaggggctgcagt	10	19	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:42849019C>T	uc002ihh.2	+	5	449	c.449C>T	c.(448-450)TCC>TTC	p.S150F	ADAM11_uc010wjd.1_5'UTR	NM_002390	NP_002381	O75078	ADA11_HUMAN	ADAM metallopeptidase domain 11 preproprotein	150					integrin-mediated signaling pathway|proteolysis	integral to membrane|plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			pancreas(1)	1		Prostate(33;0.0959)				GCCGCCCTCTCCACCTGCCAG	0.687													9	81	---	---	---	---	PASS	T	42849019	T	T	42849019	3	4	174	1	0	0	0	0	1	0	0	0	235	855	30	2	467	2	ADAM11	17	42849019	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	372565	42849019	38346191	254	62200										
FAM117A	81558	broad.mit.edu	37	chr17	47794918	47794918	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agctcctcggcggcaccccgAtgttcctcatgactggccag	11	16	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:47794918A>G	uc002ipk.2	-	6	936	c.867T>C	c.(865-867)CAT>CAC	p.H289H	FAM117A_uc010wlz.1_Silent_p.H17H	NM_030802	NP_110429	Q9C073	F117A_HUMAN	family with sequence similarity 117, member A	289										ovary(1)	1						CGGCACCCCGATGTTCCTCAT	0.632													4	62	---	---	---	---	PASS	G	47794918	G	G	47794918	2	3	174	1	0	0	0	0	0	0	0	1	5409	330	12	5		5	FAM117A	17	47794918	Silent	SNP	A	TCGA-70-6722-01A-11D-1817-08	4945899	47794918	33400292	255	62201										
TRIM25	7706	broad.mit.edu	37	chr17	54969297	54969297	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	agagatcttggtgttgaaccActccacgcaccaggaggcgc	12	12	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:54969297A>T	uc002iut.2	-	9	1717	c.1657T>A	c.(1657-1659)TGG>AGG	p.W553R	TRIM25_uc010dcj.2_Missense_Mutation_p.W345R	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25	553	B30.2/SPRY.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)					GTGTTGAACCACTCCACGCAC	0.602													15	63	---	---	---	---	PASS	T	54969297	T	T	54969297	3	4	174	1	0	0	0	0	1	0	0	0	16496	159	6	5	239	5	TRIM25	17	54969297	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08	7174379	54969297	26225913	256	62202										
RGS9	8787	broad.mit.edu	37	chr17	63198196	63198196	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gagaaagcagaggagatttaCaagtgagcatcagccagggt	14	6	1	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:63198196C>A	uc002jfe.2	+	14	1172	c.1062C>A	c.(1060-1062)TAC>TAA	p.Y354*	RGS9_uc010dem.2_Nonsense_Mutation_p.Y351*|RGS9_uc002jfd.2_Nonsense_Mutation_p.Y351*|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Nonsense_Mutation_p.Y125*	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	354	RGS.				intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						AGGAGATTTACAAGTGAGCAT	0.522													11	62	---	---	---	---	PASS	A	63198196	A	A	63198196	4	1	174	1	0	0	0	0	0	1	0	0	13313	489	17	3	1116	3	RGS9	17	63198196	Nonsense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	8228899	63198196	17997014	257	62203										
DNAI2	64446	broad.mit.edu	37	chr17	72285877	72285877	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tcatacatctgggacctgggTgagaagcagcggggtcctgg	16	9	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:72285877T>A	uc002jkf.2	+	5	709	c.610_splice	c.e5+2	p.E204_splice	DNAI2_uc002jkg.2_Splice_Site|DNAI2_uc010dfp.2_Splice_Site	NM_023036	NP_075462	Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate polypeptide 2						cilium assembly	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	microtubule motor activity			ovary(2)|central_nervous_system(1)	3						GGGACCTGGGTGAGAAGCAGC	0.627									Kartagener_syndrome				14	50	---	---	---	---	PASS	A	72285877	A	A	72285877	5	1	174	1	0	0	0	0	0	0	1	0	4610	1710	59	5	626	5	DNAI2	17	72285877	Splice_Site	SNP	T	TCGA-70-6722-01A-11D-1817-08	9087681	72285877	8909333	258	62204										
TBC1D16	125058	broad.mit.edu	37	chr17	77923628	77923628	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	caggaagggccagacctcccCgcggattgacacatcaatac	10	14	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr17:77923628C>T	uc002jxj.2	-	7	1410	c.1294G>A	c.(1294-1296)GGG>AGG	p.G432R	TBC1D16_uc002jxh.2_Missense_Mutation_p.G70R|TBC1D16_uc002jxi.2_Intron|TBC1D16_uc002jxk.1_Missense_Mutation_p.G70R	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	432	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			CAGACCTCCCCGCGGATTGAC	0.577													7	69	---	---	---	---	PASS	T	77923628	T	T	77923628	3	4	174	1	0	0	0	0	1	0	0	0	15602	652	23	1	1033	1	TBC1D16	17	77923628	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	5637751	77923628	3271582	259	62205										
FAM38B	63895	broad.mit.edu	37	chr18	10696398	10696398	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gccccaacctaccccaaaggCccaaaagccgaagacaatga	7	16	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr18:10696398C>A	uc002kor.3	-	4	639	c.499G>T	c.(499-501)GCC>TCC	p.A167S	FAM38B_uc002koq.2_Missense_Mutation_p.A65S	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2210	Helical; (Potential).					integral to membrane	ion channel activity			ovary(1)	1						ACCCCAAAGGCCCAAAAGCCG	0.547													19	66	---	---	---	---	PASS	A	10696398	A	A	10696398	3	1	174	1	0	0	0	0	1	0	0	0	5555	739	26	3	1674	3	FAM38B	18	10696398	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08		10696398	67380850	260	62206										
FAM38B	63895	broad.mit.edu	37	chr18	10696517	10696517	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgtaaaagaactgtttgatgGgcacatagatctccagcgtc	10	8	1	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr18:10696517G>T	uc002kor.3	-	4	520	c.380C>A	c.(379-381)CCC>CAC	p.P127H	FAM38B_uc002koq.2_Missense_Mutation_p.P25H	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2170						integral to membrane	ion channel activity			ovary(1)	1						CTGTTTGATGGGCACATAGAT	0.517													18	89	---	---	---	---	PASS	T	10696517	T	T	10696517	3	4	174	1	0	0	0	0	1	0	0	0	5555	1232	43	3	1793	3	FAM38B	18	10696517	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	119	10696517	67380731	261	62207										
DSC3	1825	broad.mit.edu	37	chr18	28598197	28598197	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gtaagatttccacattgaatGcattttcctctacaaatgct	5	9	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr18:28598197G>T	uc002kwj.3	-	9	1258	c.1103C>A	c.(1102-1104)GCA>GAA	p.A368E	DSC3_uc002kwi.3_Missense_Mutation_p.A368E	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	368	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			CACATTGAATGCATTTTCCTC	0.279													16	32	---	---	---	---	PASS	T	28598197	T	T	28598197	3	4	174	1	0	0	0	0	1	0	0	0	4767	1319	46	3	1650	3	DSC3	18	28598197	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	17901680	28598197	49479051	262	62208										
ASXL3	80816	broad.mit.edu	37	chr18	31325404	31325404	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccttgtgtcatcagttccggCatcagtcagctaggacacag	10	12	4	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr18:31325404C>A	uc010dmg.1	+	12	5647	c.5592C>A	c.(5590-5592)GGC>GGA	p.G1864G	ASXL3_uc002kxq.2_Silent_p.G1571G	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1864					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TCAGTTCCGGCATCAGTCAGC	0.463													78	222	---	---	---	---	PASS	A	31325404	A	A	31325404	2	1	174	1	0	0	0	0	0	0	0	1	1068	697	25	3		3	ASXL3	18	31325404	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	2727207	31325404	46751844	263	62209										
RIT2	6014	broad.mit.edu	37	chr18	40695401	40695401	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccgcttttaccaactcccccTgctcccagcattaccacctt	3	20	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr18:40695401T>C	uc002lav.2	-	1	257	c.84A>G	c.(82-84)GCA>GCG	p.A28A	RIT2_uc010dnf.2_Silent_p.A28A	NM_002930	NP_002921	Q99578	RIT2_HUMAN	Ras-like without CAAX 2	28	GTP (By similarity).				nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1						CAACTCCCCCTGCTCCCAGCA	0.517													44	110	---	---	---	---	PASS	C	40695401	C	C	40695401	2	2	174	1	0	0	0	0	0	0	0	1	13387	1567	55	5		5	RIT2	18	40695401	Silent	SNP	T	TCGA-70-6722-01A-11D-1817-08	9369997	40695401	37381847	264	62210										
FGF22	27006	broad.mit.edu	37	chr19	643539	643539	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tggacaggaggggggggcccCggccaggcggccggacgcgg	23	12	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:643539C>T	uc010xfq.1	+	3	448	c.448C>T	c.(448-450)CGG>TGG	p.R150W	FGF22_uc010xfr.1_Missense_Mutation_p.P142L	NM_020637	NP_065688	Q9HCT0	FGF22_HUMAN	fibroblast growth factor 22 precursor	150					cell differentiation|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	extracellular space	growth factor activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		gggggggccccggccaggcgg	0.572													4	16	---	---	---	---	PASS	T	643539	T	T	643539	3	4	174	1	0	0	0	0	1	0	0	0	5851	643	23	1	458	1	FGF22	19	643539	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08		643539	58485444	265	62211										
C19orf21	126353	broad.mit.edu	37	chr19	758684	758684	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tcttctccccaacgccagatGagaactctgaccagaactcc	6	16	3	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:758684G>T	uc002lpo.2	+	2	1821	c.1738G>T	c.(1738-1740)GAG>TAG	p.E580*		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	580										upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AACGCCAGATGAGAACTCTGA	0.617													11	59	---	---	---	---	PASS	T	758684	T	T	758684	4	4	174	1	0	0	0	0	0	1	0	0	1913	1291	45	2	1740	2	C19orf21	19	758684	Nonsense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	115145	758684	58370299	266	62212										
EEF2	1938	broad.mit.edu	37	chr19	3977846	3977846	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggcccactggaagccggccaCcacactgtccttgatctcgt	10	16	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:3977846C>A	uc002lze.2	-	12	2121	c.2038G>T	c.(2038-2040)GTG>TTG	p.V680L		NM_001961	NP_001952	P13639	EF2_HUMAN	eukaryotic translation elongation factor 2	680						cytosol|ribonucleoprotein complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|GBM - Glioblastoma multiforme(1328;0.0223)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGCCGGCCACCACACTGTCC	0.622													26	95	---	---	---	---	PASS	A	3977846	A	A	3977846	3	1	174	1	0	0	0	0	1	0	0	0	4929	507	18	3	554	3	EEF2	19	3977846	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	3219162	3977846	55151137	267	62213										
SH2D3A	10045	broad.mit.edu	37	chr19	6763757	6763757	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tctccatcctgtggcacctgCatggagctcttgggaacaga	11	12	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:6763757C>G	uc002mft.2	-	2	197	c.3G>C	c.(1-3)ATG>ATC	p.M1I	SH2D3A_uc010xjg.1_5'UTR	NM_005490	NP_005481	Q9BRG2	SH23A_HUMAN	SH2 domain containing 3A	1					JNK cascade|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			breast(2)	2						GTGGCACCTGCATGGAGCTCT	0.473													6	69	---	---	---	---	PASS	G	6763757	G	G	6763757	3	3	174	1	0	0	0	0	1	0	0	0	14233	710	25	4	1763	4	SH2D3A	19	6763757	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	2785911	6763757	52365226	268	62214										
CLEC4G	339390	broad.mit.edu	37	chr19	7795279	7795279	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cagcgcccggaacagctcagTgcggacgtcctcacggcccc	12	18	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:7795279T>C	uc002mhp.3	-	6	505	c.436A>G	c.(436-438)ACT>GCT	p.T146A		NM_198492	NP_940894	Q6UXB4	CLC4G_HUMAN	C-type lectin domain family 4, member G	146	Extracellular (Potential).					integral to membrane	protein binding|sugar binding				0						AACAGCTCAGTGCGGACGTCC	0.701													6	60	---	---	---	---	PASS	C	7795279	C	C	7795279	3	2	174	1	0	0	0	0	1	0	0	0	3517	1696	59	5	461	5	CLEC4G	19	7795279	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	1031522	7795279	51333704	269	62215										
MUC16	94025	broad.mit.edu	37	chr19	9008248	9008248	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	attggtcatctggctcagctGccagtacagctgctccctgt	10	13	3	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:9008248G>T	uc002mkp.2	-	41	39508	c.39304C>A	c.(39304-39306)CAG>AAG	p.Q13102K	MUC16_uc010dwi.2_5'Flank|MUC16_uc010dwj.2_5'Flank|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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						TGGCTCAGCTGCCAGTACAGC	0.577													40	175	---	---	---	---	PASS	T	9008248	T	T	9008248	3	4	174	1	0	0	0	0	1	0	0	0	9973	1328	46	3	4395	3	MUC16	19	9008248	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1212969	9008248	50120735	270	62216										
MUC16	94025	broad.mit.edu	37	chr19	9075049	9075049	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gctaaagagagtggtcttctCtgagtatgtaaatctctgag	11	6	3	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:9075049C>G	uc002mkp.2	-	3	12601	c.12397G>C	c.(12397-12399)GAG>CAG	p.E4133Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4135	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGGTCTTCTCTGAGTATGTA	0.512													21	88	---	---	---	---	PASS	G	9075049	G	G	9075049	3	3	174	1	0	0	0	0	1	0	0	0	9973	922	32	2	31454	2	MUC16	19	9075049	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	66801	9075049	50053934	271	62217										
ZNF560	147741	broad.mit.edu	37	chr19	9577701	9577701	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ttaaatgatcaactagactgGaggagacaacaaaggctttc	9	7	1	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:9577701G>T	uc002mlp.1	-	10	2132	c.1922C>A	c.(1921-1923)TCC>TAC	p.S641Y	ZNF560_uc010dwr.1_Missense_Mutation_p.S535Y	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	641	C2H2-type 11; degenerate.				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						AACTAGACTGGAGGAGACAAC	0.393													26	100	---	---	---	---	PASS	T	9577701	T	T	9577701	3	4	174	1	0	0	0	0	1	0	0	0	17988	1174	41	2	454	2	ZNF560	19	9577701	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	502652	9577701	49551282	272	62218										
S1PR5	53637	broad.mit.edu	37	chr19	10625146	10625146	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gcggcaagacagtggagcaaGcgtccaggcgacccaggcaa	15	12	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:10625146G>A	uc002mot.1	-	2	599	c.542C>T	c.(541-543)GCT>GTT	p.A181V	S1PR5_uc002mou.1_Missense_Mutation_p.A181V	NM_030760	NP_110387	Q9H228	S1PR5_HUMAN	endothelial differentiation, sphingolipid	181	Extracellular (By similarity).					integral to membrane|plasma membrane	lysosphingolipid and lysophosphatidic acid receptor activity			central_nervous_system(1)|pancreas(1)	2						AGTGGAGCAAGCGTCCAGGCG	0.697													3	19	---	---	---	---	PASS	A	10625146	A	A	10625146	3	1	174	1	0	0	0	0	1	0	0	0	13797	971	34	3	658	3	S1PR5	19	10625146	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1047445	10625146	48503837	273	62219										
RASAL3	64926	broad.mit.edu	37	chr19	15567015	15567015	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tggacatttgctggggtccaCttcacagtcctcagtagaag	11	10	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:15567015C>A	uc002nbe.2	-	11	1707	c.1621G>T	c.(1621-1623)GTG>TTG	p.V541L	RASAL3_uc002nbd.2_5'Flank|RASAL3_uc010eaa.1_Missense_Mutation_p.V29L	NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	541	Ras-GAP.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0						CTGGGGTCCACTTCACAGTCC	0.587													9	49	---	---	---	---	PASS	A	15567015	A	A	15567015	3	1	174	1	0	0	0	0	1	0	0	0	13065	565	20	3	1446	3	RASAL3	19	15567015	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	4941869	15567015	43561968	274	62220										
CYP4F3	4051	broad.mit.edu	37	chr19	15760759	15760759	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	attgccgccatcttggagctCagtgcccttgtgacaaaaag	10	11	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:15760759C>A	uc002nbj.2	+	7	734	c.684C>A	c.(682-684)CTC>CTA	p.L228L	CYP4F3_uc010xok.1_Silent_p.L228L|CYP4F3_uc010xol.1_Silent_p.L228L|CYP4F3_uc010xom.1_Silent_p.L79L|CYP4F3_uc002nbk.2_Silent_p.L228L|CYP4F3_uc010xon.1_5'Flank	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	228					leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						TCTTGGAGCTCAGTGCCCTTG	0.532													29	252	---	---	---	---	PASS	A	15760759	A	A	15760759	2	1	174	1	0	0	0	0	0	0	0	1	4190	813	29	2		2	CYP4F3	19	15760759	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	193744	15760759	43368224	275	62221										
NWD1	284434	broad.mit.edu	37	chr19	16884028	16884028	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggacagctatgccaacaggcCcagagctggttccagttgtg	13	11	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:16884028C>A	uc002neu.3	+	11	2924	c.2502C>A	c.(2500-2502)GCC>GCA	p.A834A	NWD1_uc002net.3_Silent_p.A699A|NWD1_uc002nev.3_Silent_p.A628A			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	834							ATP binding			skin(3)|ovary(2)|pancreas(2)	7						GCCAACAGGCCCAGAGCTGGT	0.622													10	70	---	---	---	---	PASS	A	16884028	A	A	16884028	2	1	174	1	0	0	0	0	0	0	0	1	10781	610	22	3		3	NWD1	19	16884028	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	1123269	16884028	42244955	276	62222										
UNC13A	23025	broad.mit.edu	37	chr19	17738671	17738671	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cctgcctcggccctgcctcaCctcctttcctcccatggctt	6	21	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:17738671C>A	uc002nhd.2	-	32	4095	c.4095_splice	c.e32+1	p.E1365_splice		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A						exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						CCCTGCCTCACCTCCTTTCCT	0.597													111	770	---	---	---	---	PASS	A	17738671	A	A	17738671	5	1	174	1	0	0	0	0	0	0	1	0	16981	521	18	3	1327	3	UNC13A	19	17738671	Splice_Site	SNP	C	TCGA-70-6722-01A-11D-1817-08	854643	17738671	41390312	277	62223										
FCHO1	23149	broad.mit.edu	37	chr19	17881694	17881694	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	actttgagcagaagatgctgGactcagccctggtaagaacc	11	10	1	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:17881694G>T	uc010ebb.2	+	8	772	c.583G>T	c.(583-585)GAC>TAC	p.D195Y	FCHO1_uc002nhg.3_Missense_Mutation_p.D195Y|FCHO1_uc002nhh.2_Missense_Mutation_p.D195Y|FCHO1_uc010xpw.1_Missense_Mutation_p.D145Y|FCHO1_uc010ebc.1_Missense_Mutation_p.D202Y	NM_001161358	NP_001154830	O14526	FCHO1_HUMAN	FCH domain only 1 isoform b	195	Potential.									breast(1)	1						GAAGATGCTGGACTCAGCCCT	0.488													11	45	---	---	---	---	PASS	T	17881694	T	T	17881694	3	4	174	1	0	0	0	0	1	0	0	0	5787	1174	41	2	605	2	FCHO1	19	17881694	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	143023	17881694	41247289	278	62224										
PDE4C	5143	broad.mit.edu	37	chr19	18322679	18322679	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctcggccatgatgcggtccgTccactggcggtacaggggca	15	13	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:18322679T>A	uc010xqc.1	-	14	2161	c.1681A>T	c.(1681-1683)ACG>TCG	p.T561S	PDE4C_uc002nik.3_Missense_Mutation_p.T561S|PDE4C_uc002nil.3_Missense_Mutation_p.T561S|PDE4C_uc002nif.3_Missense_Mutation_p.T330S|PDE4C_uc002nig.3_Missense_Mutation_p.T276S|PDE4C_uc002nih.3_Missense_Mutation_p.T331S|PDE4C_uc010ebk.2_Missense_Mutation_p.T455S|PDE4C_uc002nii.3_Missense_Mutation_p.T529S|PDE4C_uc010ebl.2_Missense_Mutation_p.T275S	NM_001098819	NP_001092289	Q08493	PDE4C_HUMAN	phosphodiesterase 4C isoform PDE4C-2	561					signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|skin(2)|central_nervous_system(1)	5					Dyphylline(DB00651)	ATGCGGTCCGTCCACTGGCGG	0.617													11	71	---	---	---	---	PASS	A	18322679	A	A	18322679	3	1	174	1	0	0	0	0	1	0	0	0	11641	1667	58	5	465	5	PDE4C	19	18322679	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	440985	18322679	40806304	279	62225										
NCAN	1463	broad.mit.edu	37	chr19	19338799	19338799	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tcagtgtacagcaaagggctGgatgcaagttccccatctgc	11	11	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:19338799G>A	uc002nlz.2	+	8	2469	c.2370G>A	c.(2368-2370)CTG>CTA	p.L790L	NCAN_uc010ecc.1_Silent_p.L354L	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	790					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GCAAAGGGCTGGATGCAAGTT	0.577													10	76	---	---	---	---	PASS	A	19338799	A	A	19338799	2	1	174	1	0	0	0	0	0	0	0	1	10204	1335	47	3		3	NCAN	19	19338799	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	1016120	19338799	39790184	280	62226										
ZNF253	56242	broad.mit.edu	37	chr19	20002979	20002979	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	acataagaaaattcatactaGagggaaaccctacaactgtg	7	8	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:20002979G>C	uc002noj.2	+	4	1015	c.923G>C	c.(922-924)AGA>ACA	p.R308T	ZNF253_uc002nok.2_Missense_Mutation_p.R232T|ZNF253_uc002nol.2_RNA	NM_021047	NP_066385	O75346	ZN253_HUMAN	zinc finger protein 253	308				Missing (in Ref. 1; AAC26844).|Missing (in Ref. 2; BAC11185).	negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATTCATACTAGAGGGAAACCC	0.393													5	29	---	---	---	---	PASS	C	20002979	C	C	20002979	3	2	174	1	0	0	0	0	1	0	0	0	17794	942	33	2	937	2	ZNF253	19	20002979	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	664180	20002979	39126004	281	62227										
ZNF708	7562	broad.mit.edu	37	chr19	21476251	21476251	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aagctttgccacattctttaCatttgtagggtttctctcca	6	10	2	0	rs149714173		TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:21476251C>A	uc002npq.1	-	4	1715	c.1517G>T	c.(1516-1518)TGT>TTT	p.C506F	ZNF708_uc002npr.1_Missense_Mutation_p.C442F|ZNF708_uc010ecs.1_Missense_Mutation_p.C442F	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	506	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						ACATTCTTTACATTTGTAGGG	0.363													10	56	---	---	---	---	PASS	A	21476251	A	A	21476251	3	1	174	1	0	0	0	0	1	0	0	0	18109	478	17	3	178	3	ZNF708	19	21476251	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1473272	21476251	37652732	282	62228										
PSENEN	55851	broad.mit.edu	37	chr19	36237348	36237348	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gctttcctgccttttctctgGttggtcaacatcttctggtt	8	11	4	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:36237348G>T	uc002obi.1	+	3	294	c.90G>T	c.(88-90)TGG>TGT	p.W30C	TMEM149_uc010eej.2_5'Flank|U2AF1L4_uc002obh.1_5'Flank|U2AF1L4_uc002obe.2_5'Flank|U2AF1L4_uc002obf.2_5'Flank|U2AF1L4_uc002obg.2_5'Flank|PSENEN_uc002obj.1_Missense_Mutation_p.W30C|PSENEN_uc002obk.1_RNA|LIN37_uc002obm.2_5'Flank	NM_172341	NP_758844	Q9NZ42	PEN2_HUMAN	presenilin enhancer 2	30	Helical; (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to plasma membrane	aspartic-type endopeptidase activity|protein binding			ovary(2)	2	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTTTTCTCTGGTTGGTCAACA	0.483													37	110	---	---	---	---	PASS	T	36237348	T	T	36237348	3	4	174	1	0	0	0	0	1	0	0	0	12652	1270	44	3	96	3	PSENEN	19	36237348	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	14761097	36237348	22891635	283	62229										
NOVA2	4858	broad.mit.edu	37	chr19	46476593	46476593	+	Missense_Mutation	SNP	G	C	C													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggggcctcttgcgggaatccGgggcctcgggctccatgggg							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:46476593G>C	uc002pdv.2	-	1	65	c.17C>G	c.(16-18)CCG>CGG	p.P6R		NM_002516	NP_002507	Q9UNW9	NOVA2_HUMAN	neuro-oncological ventral antigen 2	6						nucleus	RNA binding				0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00245)|GBM - Glioblastoma multiforme(486;0.0782)|Epithelial(262;0.179)		GCGGGAATCCGGGGCCTCGGG	0.473													6	8	---	---	---	---	PASS	C	46476593	C	C	46476593	3	2	174	1	0	0	0	0	1	0	0	0	10555	1116	39	4	1477	4	NOVA2	19	46476593	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	10239245	46476593	12652390	284	62230	1077	2								
NOVA2	4858	broad.mit.edu	37	chr19	46476594	46476594	+	Missense_Mutation	SNP	G	T	T													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gggcctcttgcgggaatccgGggcctcgggctccatggggg							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:46476594G>T	uc002pdv.2	-	1	64	c.16C>A	c.(16-18)CCG>ACG	p.P6T		NM_002516	NP_002507	Q9UNW9	NOVA2_HUMAN	neuro-oncological ventral antigen 2	6						nucleus	RNA binding				0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00245)|GBM - Glioblastoma multiforme(486;0.0782)|Epithelial(262;0.179)		CGGGAATCCGGGGCCTCGGGC	0.468													5	8	---	---	---	---	PASS	T	46476594	T	T	46476594	3	4	174	1	0	0	0	0	1	0	0	0	10555	1232	43	3	1478	3	NOVA2	19	46476594	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1	46476594	12652389	285	62231	1077	2								
C5AR1	728	broad.mit.edu	37	chr19	47823172	47823172	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gccttggtcatctttgcagtCgtcttcctggtgggagtgct	13	10	3	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:47823172C>T	uc002pgj.1	+	2	187	c.138C>T	c.(136-138)GTC>GTT	p.V46V		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	46	Helical; Name=1; (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		TCTTTGCAGTCGTCTTCCTGG	0.552													9	106	---	---	---	---	PASS	T	47823172	T	T	47823172	2	4	174	1	0	0	0	0	0	0	0	1	2281	871	31	2		2	C5AR1	19	47823172	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	1346578	47823172	11305811	286	62232										
TPRX1	284355	broad.mit.edu	37	chr19	48305217	48305217	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gagcagctctgtgaagtgagGgaataactgggtgtctggca	16	6	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:48305217G>T	uc002php.1	-	2	1122	c.1051C>A	c.(1051-1053)CCT>ACT	p.P351T		NM_198479	NP_940881	Q8N7U7	TPRX1_HUMAN	tetra-peptide repeat homeobox	351						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(25;3.02e-09)|all_epithelial(76;7e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000241)|all cancers(93;0.00036)|Epithelial(262;0.0127)|GBM - Glioblastoma multiforme(486;0.048)		GTGAAGTGAGGGAATAACTGG	0.433													48	86	---	---	---	---	PASS	T	48305217	T	T	48305217	3	4	174	1	0	0	0	0	1	0	0	0	16419	1232	43	3	188	3	TPRX1	19	48305217	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	482045	48305217	10823766	287	62233										
KLK1	3816	broad.mit.edu	37	chr19	51326992	51326992	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggacagggcgaggcacagaaCcaggaaccacatggtgacag	15	10	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:51326992C>A	uc002ptk.1	-	1	52	c.13G>T	c.(13-15)GTT>TTT	p.V5F	KLK1_uc010ycg.1_RNA	NM_002257	NP_002248	P06870	KLK1_HUMAN	kallikrein 1 preproprotein	5					proteolysis	nucleus	serine-type endopeptidase activity				0		all_neural(266;0.0199)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00399)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGGCACAGAACCAGGAACCAC	0.637													4	68	---	---	---	---	PASS	A	51326992	A	A	51326992	3	1	174	1	0	0	0	0	1	0	0	0	8397	507	18	3	795	3	KLK1	19	51326992	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	3021775	51326992	7801991	288	62234										
SIGLEC5	8778	broad.mit.edu	37	chr19	52130831	52130831	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gggagctgttggcccagggcCcagctgagctggagttgacc	17	11	0	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:52130831C>A	uc002pxe.2	-	6	1305	c.1166G>T	c.(1165-1167)GGG>GTG	p.G389V		NM_003830	NP_003821	O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5 precursor	389	Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			skin(2)|breast(1)|central_nervous_system(1)	4		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		GGCCCAGGGCCCAGCTGAGCT	0.662													11	42	---	---	---	---	PASS	A	52130831	A	A	52130831	3	1	174	1	0	0	0	0	1	0	0	0	14311	623	22	3	505	3	SIGLEC5	19	52130831	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	803839	52130831	6998152	289	62235										
PTPRH	5794	broad.mit.edu	37	chr19	55699514	55699514	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gacgtggtcagcgaagtcttCagctgggatgtcccctgggg	16	10	3	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:55699514C>T	uc002qjq.2	-	13	2480	c.2407G>A	c.(2407-2409)GAA>AAA	p.E803K	PTPRH_uc010esv.2_Missense_Mutation_p.E625K|uc002qjr.2_5'Flank	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	803	Cytoplasmic (Potential).				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)		GCGAAGTCTTCAGCTGGGATG	0.493													20	180	---	---	---	---	PASS	T	55699514	T	T	55699514	3	4	174	1	0	0	0	0	1	0	0	0	12803	835	29	2	972	2	PTPRH	19	55699514	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	3568683	55699514	3429469	290	62236										
ZNF835	90485	broad.mit.edu	37	chr19	57175239	57175239	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cggggcaggtgtagggccgcTcgcccgtgtgcgtgcgctgg	20	12	0	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:57175239T>A	uc010ygo.1	-	2	1394	c.1394A>T	c.(1393-1395)GAG>GTG	p.E465V	ZNF835_uc010ygn.1_Missense_Mutation_p.E443V	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						GTAGGGCCGCTCGCCCGTGTG	0.667													6	78	---	---	---	---	PASS	A	57175239	A	A	57175239	3	1	174	1	0	0	0	0	1	0	0	0	18183	1551	54	5	287	5	ZNF835	19	57175239	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	1475725	57175239	1953744	291	62237										
ZSCAN1	284312	broad.mit.edu	37	chr19	58549470	58549470	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gctggagcagttcctgggcgCgctgcccagcaagatgcgga	16	12	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:58549470C>T	uc002qrc.1	+	3	513	c.266C>T	c.(265-267)GCG>GTG	p.A89V	ZSCAN1_uc002qra.1_Missense_Mutation_p.A89V|ZSCAN1_uc002qrb.1_Missense_Mutation_p.A89V	NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	89	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TTCCTGGGCGCGCTGCCCAGC	0.692													6	17	---	---	---	---	PASS	T	58549470	T	T	58549470	3	4	174	1	0	0	0	0	1	0	0	0	18223	768	27	1	268	1	ZSCAN1	19	58549470	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	1374231	58549470	579513	292	62238										
ZSCAN1	284312	broad.mit.edu	37	chr19	58564993	58564993	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	caccagccatccctcaagcaCaccaaaggtggtacccaaga	7	16	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr19:58564993C>G	uc002qrc.1	+	6	1048	c.801C>G	c.(799-801)CAC>CAG	p.H267Q		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	267					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		CCCTCAAGCACACCAAAGGTG	0.622													24	43	---	---	---	---	PASS	G	58564993	G	G	58564993	3	3	174	1	0	0	0	0	1	0	0	0	18223	477	17	4	815	4	ZSCAN1	19	58564993	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	15523	58564993	563990	293	62239										
NINL	22981	broad.mit.edu	37	chr20	25443158	25443158	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tgacattgagctgggataatTgatccttgtagttctgattc	10	6	1	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr20:25443158T>A	uc002wux.1	-	20	3517	c.3443A>T	c.(3442-3444)CAA>CTA	p.Q1148L	NINL_uc010gdn.1_Missense_Mutation_p.Q799L	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1148	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CTGGGATAATTGATCCTTGTA	0.388													16	141	---	---	---	---	PASS	A	25443158	A	A	25443158	3	1	174	1	0	0	0	0	1	0	0	0	10420	1812	63	5	725	5	NINL	20	25443158	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08		25443158	37582362	294	62240										
KIF3B	9371	broad.mit.edu	37	chr20	30898587	30898587	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cactctgcgatatgccaaccGtgccaaaaacattaagaaca	6	12	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr20:30898587G>A	uc002wxq.2	+	2	1174	c.1007G>A	c.(1006-1008)CGT>CAT	p.R336H	KIF3B_uc010ztv.1_Missense_Mutation_p.R336H|KIF3B_uc010ztw.1_Missense_Mutation_p.R336H	NM_004798	NP_004789	O15066	KIF3B_HUMAN	kinesin family member 3B	336	Kinesin-motor.				anterograde axon cargo transport|blood coagulation|determination of left/right symmetry|mitotic centrosome separation|plus-end-directed vesicle transport along microtubule|spindle assembly involved in mitosis	centrosome|cytosol|kinesin II complex|plus-end kinesin complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|Rho GTPase binding			central_nervous_system(3)|ovary(2)	5			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			TATGCCAACCGTGCCAAAAAC	0.532													10	77	---	---	---	---	PASS	A	30898587	A	A	30898587	3	1	174	1	0	0	0	0	1	0	0	0	8301	1145	40	1	1009	1	KIF3B	20	30898587	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	5455429	30898587	32126933	295	62241										
PTPRT	11122	broad.mit.edu	37	chr20	40944572	40944572	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cacgggcaccgaaaagcactCaataatgtcagctgccctcc	8	15	2	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr20:40944572C>G	uc002xkg.2	-	12	2114	c.1930G>C	c.(1930-1932)GAG>CAG	p.E644Q	PTPRT_uc010ggj.2_Missense_Mutation_p.E644Q	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	644	Extracellular (Potential).|Fibronectin type-III 4.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GAAAAGCACTCAATAATGTCA	0.522													31	64	---	---	---	---	PASS	G	40944572	G	G	40944572	3	3	174	1	0	0	0	0	1	0	0	0	12812	835	29	2	2536	2	PTPRT	20	40944572	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	10045985	40944572	22080948	296	62242										
SPO11	23626	broad.mit.edu	37	chr20	55908750	55908750	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ttttattttccagctctaatCcttaaaatattgtccatgat	3	8	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr20:55908750C>A	uc002xye.2	+	4	435	c.342C>A	c.(340-342)ATC>ATA	p.I114I	SPO11_uc002xyf.2_Silent_p.I76I	NM_012444	NP_036576	Q9Y5K1	SPO11_HUMAN	meiotic recombination protein SPO11 isoform a	114					female gamete generation|reciprocal meiotic recombination	chromosome|nucleus	ATP binding|DNA binding|hydrolase activity			breast(2)|skin(1)	3	Lung NSC(12;0.0066)|all_lung(29;0.0188)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;1.73e-14)|Epithelial(14;9.02e-10)|all cancers(14;9.31e-09)			CAGCTCTAATCCTTAAAATAT	0.259								Editing_and_processing_nucleases					6	44	---	---	---	---	PASS	A	55908750	A	A	55908750	2	1	174	1	0	0	0	0	0	0	0	1	15076	845	30	2		2	SPO11	20	55908750	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	14964178	55908750	7116770	297	62243										
PCK1	5105	broad.mit.edu	37	chr20	56140805	56140805	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tcaagtcaatgccgacctccCctgtgaaatcgagagagaga	10	11	2	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr20:56140805C>A	uc002xyn.3	+	10	1977	c.1814C>A	c.(1813-1815)CCC>CAC	p.P605H	PCK1_uc010zzm.1_Missense_Mutation_p.P288H	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	605					gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			GCCGACCTCCCCTGTGAAATC	0.458													19	52	---	---	---	---	PASS	A	56140805	A	A	56140805	3	1	174	1	0	0	0	0	1	0	0	0	11581	623	22	3	1848	3	PCK1	20	56140805	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	232055	56140805	6884715	298	62244										
ZNF831	128611	broad.mit.edu	37	chr20	57829620	57829620	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	taggaaacgtcaggtatctgGattaatcactcggaaagatt	10	6	3	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr20:57829620G>T	uc002yan.2	+	5	4856	c.4856G>T	c.(4855-4857)GGA>GTA	p.G1619V		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1619						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CAGGTATCTGGATTAATCACT	0.488													7	101	---	---	---	---	PASS	T	57829620	T	T	57829620	3	4	174	1	0	0	0	0	1	0	0	0	18182	1174	41	2	4874	2	ZNF831	20	57829620	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1688815	57829620	5195900	299	62245										
SYCP2	10388	broad.mit.edu	37	chr20	58441392	58441392	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	taaagactgtgaatctttttCaaaattctccagctcctcta	4	10	4	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr20:58441392C>T	uc002yaz.2	-	40	4415	c.4276G>A	c.(4276-4278)GAA>AAA	p.E1426K		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	1426					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			GAATCTTTTTCAAAATTCTCC	0.229													15	89	---	---	---	---	PASS	T	58441392	T	T	58441392	3	4	174	1	0	0	0	0	1	0	0	0	15429	835	29	2	336	2	SYCP2	20	58441392	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	611772	58441392	4584128	300	62246										
DIDO1	11083	broad.mit.edu	37	chr20	61513663	61513663	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tcttccggttgaagtcgggtCcgcttttcgtccatcttgtc	10	12	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr20:61513663C>T	uc002ydr.1	-	16	3909	c.3645G>A	c.(3643-3645)CGG>CGA	p.R1215R	DIDO1_uc002yds.1_Silent_p.R1215R	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1215					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GAAGTCGGGTCCGCTTTTCGT	0.498													38	209	---	---	---	---	PASS	T	61513663	T	T	61513663	2	4	174	1	0	0	0	0	0	0	0	1	4522	842	30	2		2	DIDO1	20	61513663	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	3072271	61513663	1511857	301	62247										
DIDO1	11083	broad.mit.edu	37	chr20	61528077	61528077	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ttcttggaggcagccgttgcCgctgcaggtgccggtccggc	16	13	1	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr20:61528077C>A	uc002ydr.1	-	7	2124	c.1860G>T	c.(1858-1860)GCG>GCT	p.A620A	DIDO1_uc002yds.1_Silent_p.A620A|DIDO1_uc002ydt.1_Silent_p.A620A|DIDO1_uc002ydu.1_Silent_p.A620A	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	620					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CAGCCGTTGCCGCTGCAGGTG	0.642													95	73	---	---	---	---	PASS	A	61528077	A	A	61528077	2	1	174	1	0	0	0	0	0	0	0	1	4522	639	23	1		1	DIDO1	20	61528077	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	14414	61528077	1497443	302	62248										
GMEB2	26205	broad.mit.edu	37	chr20	62221642	62221642	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	caccttgaacaccgtgctacCgtcctgcacggcggccgtgc	11	17	0	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr20:62221642C>T	uc002yfp.1	-	9	1872	c.1393G>A	c.(1393-1395)GGT>AGT	p.G465S	GMEB2_uc002yfo.1_Missense_Mutation_p.G387S|GMEB2_uc002yfq.1_Missense_Mutation_p.G465S	NM_012384	NP_036516	Q9UKD1	GMEB2_HUMAN	glucocorticoid modulatory element binding	465					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|metal ion binding				0	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;4.79e-09)|all cancers(9;2.76e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.0114)			ACCGTGCTACCGTCCTGCACG	0.682													9	81	---	---	---	---	PASS	T	62221642	T	T	62221642	3	4	174	1	0	0	0	0	1	0	0	0	6488	652	23	1	203	1	GMEB2	20	62221642	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	693565	62221642	803878	303	62249										
RBM11	54033	broad.mit.edu	37	chr21	15599595	15599595	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ccaaaagttccgaaagtctaAgaagaagaaaagatactagt	8	6	1	4			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr21:15599595A>G	uc002yjo.3	+	5	869	c.827A>G	c.(826-828)AAG>AGG	p.K276R	RBM11_uc002yjn.3_Missense_Mutation_p.K162R|RBM11_uc002yjp.3_Missense_Mutation_p.K162R	NM_144770	NP_658983	P57052	RBM11_HUMAN	RNA binding motif protein 11	276							nucleotide binding|RNA binding				0				Epithelial(23;0.000314)|COAD - Colon adenocarcinoma(22;0.00242)|Colorectal(24;0.0129)|Lung(58;0.141)		CGAAAGTCTAAGAAGAAGAAA	0.333													35	83	---	---	---	---	PASS	G	15599595	G	G	15599595	3	3	174	1	0	0	0	0	1	0	0	0	13112	72	3	5	845	5	RBM11	21	15599595	Missense_Mutation	SNP	A	TCGA-70-6722-01A-11D-1817-08		15599595	32530300	304	62250										
USP25	29761	broad.mit.edu	37	chr21	17198684	17198684	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	accatcacagacattaccaaGgtaaaaagtaatcctgatgc	6	10	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr21:17198684G>T	uc002yjy.1	+	13	1683	c.1466G>T	c.(1465-1467)AGC>ATC	p.S489I	USP25_uc011aby.1_Missense_Mutation_p.S489I|USP25_uc002yjz.1_Missense_Mutation_p.S489I|USP25_uc010gla.1_Intron	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	489					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		ACATTACCAAGGTAAAAAGTA	0.378													23	121	---	---	---	---	PASS	T	17198684	T	T	17198684	3	4	174	1	0	0	0	0	1	0	0	0	17053	1014	35	3	1516	3	USP25	21	17198684	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	1599089	17198684	30931211	305	62251										
TIAM1	7074	broad.mit.edu	37	chr21	32638720	32638720	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cgttgcttgttaaatgttctTggctcagatcagagagtgag	12	6	3	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr21:32638720T>A	uc002yow.1	-	5	1041	c.569A>T	c.(568-570)CAA>CTA	p.Q190L	TIAM1_uc011adk.1_Missense_Mutation_p.Q190L|TIAM1_uc011adl.1_Missense_Mutation_p.Q190L|TIAM1_uc002yox.1_Intron	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	190					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TAAATGTTCTTGGCTCAGATC	0.552													23	113	---	---	---	---	PASS	A	32638720	A	A	32638720	3	1	174	1	0	0	0	0	1	0	0	0	15887	1812	63	5	4306	5	TIAM1	21	32638720	Missense_Mutation	SNP	T	TCGA-70-6722-01A-11D-1817-08	15440036	32638720	15491175	306	62252										
KLHL22	84861	broad.mit.edu	37	chr22	20819555	20819555	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	aggagctttgggggctcgtgCagcgagatctggtcagcctg	17	9	2	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr22:20819555C>A	uc002zsl.1	-	4	811	c.702G>T	c.(700-702)CTG>CTT	p.L234L	KLHL22_uc011ahr.1_Silent_p.L91L|KLHL22_uc002zsm.1_Silent_p.L234L	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	234					cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GGGGCTCGTGCAGCGAGATCT	0.607													12	33	---	---	---	---	PASS	A	20819555	A	A	20819555	2	1	174	1	0	0	0	0	0	0	0	1	8377	697	25	3		3	KLHL22	22	20819555	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08		20819555	30485011	307	62253										
MYO18B	84700	broad.mit.edu	37	chr22	26317325	26317325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ctccttctgggcaccatggaGgatggcaagacatcagtcag	12	11	3	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr22:26317325G>T	uc003abz.1	+	34	5716	c.5466G>T	c.(5464-5466)GAG>GAT	p.E1822D	MYO18B_uc003aca.1_Missense_Mutation_p.E1703D|MYO18B_uc010guy.1_Missense_Mutation_p.E1704D|MYO18B_uc010guz.1_Missense_Mutation_p.E1702D|MYO18B_uc011aka.1_Missense_Mutation_p.E976D|MYO18B_uc011akb.1_Missense_Mutation_p.E1335D	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1822	Tail.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GCACCATGGAGGATGGCAAGA	0.572													3	12	---	---	---	---	PASS	T	26317325	T	T	26317325	3	4	174	1	0	0	0	0	1	0	0	0	10066	991	35	3	5596	3	MYO18B	22	26317325	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	5497770	26317325	24987241	308	62254										
C22orf33	339669	broad.mit.edu	37	chr22	37387317	37387317	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	catttttctggtgccaccgcCctacagcgagcaggagaaga	11	12	1	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr22:37387317C>A	uc003aqf.2	-	6	892	c.746G>T	c.(745-747)GGG>GTG	p.G249V	C22orf33_uc003aqe.2_Missense_Mutation_p.G164V	NM_001163857	NP_001157329	O43247	EAN57_HUMAN	hypothetical protein LOC339669 isoform 1	249											0						GTGCCACCGCCCTACAGCGAG	0.498													24	74	---	---	---	---	PASS	A	37387317	A	A	37387317	3	1	174	1	0	0	0	0	1	0	0	0	2145	637	22	3	100	3	C22orf33	22	37387317	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	11069992	37387317	13917249	309	62255										
MEI1	150365	broad.mit.edu	37	chr22	42172159	42172159	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	cacaaggtactgattagcctGaggaccttcctgaggaggaa	12	9	0	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chr22:42172159G>A	uc003baz.1	+	21	2623	c.2598G>A	c.(2596-2598)CTG>CTA	p.L866L	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc011apd.1_RNA|MEI1_uc003bbb.1_Silent_p.L252L|MEI1_uc003bbc.1_Silent_p.L234L|MEI1_uc010gym.1_Silent_p.L234L|MEI1_uc003bbd.1_Silent_p.L109L|MEI1_uc010gyn.1_RNA|MEI1_uc003bbe.1_RNA	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	866							binding			central_nervous_system(1)|skin(1)	2						TGATTAGCCTGAGGACCTTCC	0.547													9	52	---	---	---	---	PASS	A	42172159	A	A	42172159	2	1	174	1	0	0	0	0	0	0	0	1	9465	1277	45	2		2	MEI1	22	42172159	Silent	SNP	G	TCGA-70-6722-01A-11D-1817-08	4784842	42172159	9132407	310	62256										
FAM9A	171482	broad.mit.edu	37	chrX	8768140	8768140	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	accttctttcgtggccccctGggcggccgtaacttgagctt	11	14	1	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chrX:8768140G>T	uc004csg.2	-	2	184	c.73C>A	c.(73-75)CAG>AAG	p.Q25K		NM_174951	NP_777611	Q8IZU1	FAM9A_HUMAN	family with sequence similarity 9, member A	25						nucleolus					0		Hepatocellular(5;0.219)				GTGGCCCCCTGGGCGGCCGTA	0.642													11	13	---	---	---	---	PASS	T	8768140	T	T	8768140	3	4	174	1	0	0	0	0	1	0	0	0	5659	1357	47	3	957	3	FAM9A	23	8768140	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08		8768140	146502420	311	62257										
DMD	1756	broad.mit.edu	37	chrX	32662322	32662322	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gagattcatctgctcttgtaCttcagtttcttcatcttctg	6	10	8	1			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chrX:32662322C>T	uc004dda.1	-	11	1502	c.1258G>A	c.(1258-1260)GTA>ATA	p.V420I	DMD_uc004dcz.2_Missense_Mutation_p.V297I|DMD_uc004dcy.1_Missense_Mutation_p.V416I|DMD_uc004ddb.1_Missense_Mutation_p.V412I|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.V412I|DMD_uc010ngp.1_Intron|DMD_uc010ngq.1_Intron|MIR548F5_hsa-mir-548f-5|MI0006378_5'Flank	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	420	Spectrin 1.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGCTCTTGTACTTCAGTTTCT	0.388													10	45	---	---	---	---	PASS	T	32662322	T	T	32662322	3	4	174	1	0	0	0	0	1	0	0	0	4580	565	20	3	10318	3	DMD	23	32662322	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	23894182	32662322	122608238	312	62258										
CCNB3	85417	broad.mit.edu	37	chrX	50055568	50055568	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ggaagatattgatgaggacaGcagtgatccaagtttcaacc	11	7	1	4	rs149508623	byFrequency	TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chrX:50055568G>T	uc004dox.3	+	7	3657	c.3359G>T	c.(3358-3360)AGC>ATC	p.S1120I	CCNB3_uc004doy.2_Missense_Mutation_p.S1120I|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Missense_Mutation_p.S12I	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1120					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					GATGAGGACAGCAGTGATCCA	0.388													22	72	---	---	---	---	PASS	T	50055568	T	T	50055568	3	4	174	1	0	0	0	0	1	0	0	0	2914	971	34	3	3377	3	CCNB3	23	50055568	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	17393246	50055568	105214992	313	62259										
BRWD3	254065	broad.mit.edu	37	chrX	79932487	79932487	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tactccatctaccccatcttCcccatctgcctcttcctcct	1	21	4	0			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chrX:79932487C>T	uc004edt.2	-	41	5293	c.5030G>A	c.(5029-5031)GGA>GAA	p.G1677E	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.G1273E|BRWD3_uc004edp.2_Missense_Mutation_p.G1506E|BRWD3_uc004edq.2_Missense_Mutation_p.G1273E|BRWD3_uc010nmj.1_Missense_Mutation_p.G1273E|BRWD3_uc004edr.2_Missense_Mutation_p.G1347E|BRWD3_uc004eds.2_Missense_Mutation_p.G1273E|BRWD3_uc004edu.2_Missense_Mutation_p.G1347E|BRWD3_uc004edv.2_Missense_Mutation_p.G1273E|BRWD3_uc004edw.2_Missense_Mutation_p.G1273E|BRWD3_uc004edx.2_Missense_Mutation_p.G1273E|BRWD3_uc004edy.2_Missense_Mutation_p.G1273E|BRWD3_uc004edz.2_Missense_Mutation_p.G1347E|BRWD3_uc004eea.2_Missense_Mutation_p.G1347E|BRWD3_uc004eeb.2_Missense_Mutation_p.G1273E|uc004edn.1_5'Flank	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	1677	Gly-rich.									ovary(4)	4						ACCCCATCTTCCCCATCTGCC	0.259													9	86	---	---	---	---	PASS	T	79932487	T	T	79932487	3	4	174	1	0	0	0	0	1	0	0	0	1526	855	30	2	382	2	BRWD3	23	79932487	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	29876919	79932487	75338073	314	62260										
CPXCR1	53336	broad.mit.edu	37	chrX	88009035	88009035	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	gagggtgcactactaccgtcCcctcactgagagaatgacat	10	12	1	3			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chrX:88009035C>A	uc004efd.3	+	3	879	c.620C>A	c.(619-621)CCC>CAC	p.P207H	CPXCR1_uc004efc.3_Missense_Mutation_p.P207H	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	207						intracellular	zinc ion binding			ovary(3)	3						TACTACCGTCCCCTCACTGAG	0.423													8	27	---	---	---	---	PASS	A	88009035	A	A	88009035	3	1	174	1	0	0	0	0	1	0	0	0	3836	623	22	3	622	3	CPXCR1	23	88009035	Missense_Mutation	SNP	C	TCGA-70-6722-01A-11D-1817-08	8076548	88009035	67261525	315	62261										
PCDH19	57526	broad.mit.edu	37	chrX	99657567	99657567	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atcaggtcaggctgctggggCccctggctgttgaaagagtg	16	9	2	2			TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chrX:99657567C>A	uc010nmz.2	-	3	4247	c.2571G>T	c.(2569-2571)GGG>GGT	p.G857G	PCDH19_uc004efw.3_Silent_p.G810G|PCDH19_uc004efx.3_Silent_p.G810G	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	857	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						GCTGCTGGGGCCCCTGGCTGT	0.557													8	13	---	---	---	---	PASS	A	99657567	A	A	99657567	2	1	174	1	0	0	0	0	0	0	0	1	11514	726	26	3		3	PCDH19	23	99657567	Silent	SNP	C	TCGA-70-6722-01A-11D-1817-08	11648532	99657567	55612993	316	62262										
BTK	695	broad.mit.edu	37	chrX	100630267	100630267	+	Frame_Shift_Del	DEL	G	-	-													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	atgctctccagaatcactgcGgccatagcttcttctttctg							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chrX:100630267delG	uc004ehg.2	-	2	199	c.6delC	c.(4-6)GCCfs	p.A2fs	BTK_uc010nnn.2_Frame_Shift_Del_p.A2fs|BTK_uc010nno.2_Frame_Shift_Del_p.A36fs|BTK_uc004ehi.2_Frame_Shift_Del_p.A2fs	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	2					calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						GAATCACTGCGGCCATAGCTT	0.468									Agammaglobulinemia_X-linked				75	36	---	---	---	---		-	100630267	-	-	100630267	7	5	174	1	0	1	0	1	0	0	0	0	1557	1103	39	0	2045	0	BTK	23	100630267	Frame_Shift_Del	DEL	G	TCGA-70-6722-01A-11D-1817-08	972700	100630267	54640293	317	62263										
TCEAL5	340543	broad.mit.edu	37	chrX	102529354	102529354	+	Frame_Shift_Del	DEL	C	-	-													0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	tttccctcgcattctgtcttCccctccatgtccggcttttc							TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chrX:102529354delC	uc004ejz.1	-	3	433	c.138delG	c.(136-138)GGGfs	p.G46fs		NM_001012979	NP_001012997	Q5H9L2	TCAL5_HUMAN	transcription elongation factor A (SII)-like 5	46	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(1)|breast(1)	2						attctgtcttcccctccatgt	0.114													17	12	---	---	---	---		-	102529354	-	-	102529354	7	5	174	1	0	1	0	1	0	0	0	0	15671	842	30	0	486	0	TCEAL5	23	102529354	Frame_Shift_Del	DEL	C	TCGA-70-6722-01A-11D-1817-08	1899087	102529354	52741206	318	62264										
SPRY3	10251	broad.mit.edu	37	chrX	155003874	155003874	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0798722044728434	25	0.00365228809311591	1.84937014205307	2.0792918353894	1.72239846065838	0.328892249805994	0.746332413021294	11	ttcaggccaatccatcatccGaacccaacctggagcagggg	10	14	2	0	rs150318681		TCGA-70-6722-01A-11D-1817-08	TCGA-70-6722-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	e81f1bb5-2d06-44b3-998a-e7a0b818467c	01aa61e4-b97b-41c8-b57f-10234623dc94	g.chrX:155003874G>T	uc004fnq.1	+	2	795	c.341G>T	c.(340-342)CGA>CTA	p.R114L	SPRY3_uc010nvl.1_Intron	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	114					multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TCCATCATCCGAACCCAACCT	0.547													12	64	---	---	---	---	PASS	T	155003874	T	T	155003874	3	4	174	1	0	0	0	0	1	0	0	0	15106	1058	37	2	343	2	SPRY3	23	155003874	Missense_Mutation	SNP	G	TCGA-70-6722-01A-11D-1817-08	52474520	155003874	266686	319	62265										
PRDM2	7799	broad.mit.edu	37	chr1	14105511	14105511	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	acacagattaaccggcggcgAcatgagcggcgccatgaagc	13	12	0	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr1:14105511A>C	uc001avi.2	+	8	2077	c.1221A>C	c.(1219-1221)CGA>CGC	p.R407R	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Silent_p.R407R|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Silent_p.R164R|PRDM2_uc001avk.2_Silent_p.R206R|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	407	C2H2-type 2.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		ACCGGCGGCGACATGAGCGGC	0.512													23	31	---	---	---	---	PASS	C	14105511	C	C	14105511	2	2	175	1	0	0	0	0	0	0	0	1	12458	262	10	5		5	PRDM2	1	14105511	Silent	SNP	A	TCGA-70-6723-01A-11D-1817-08		14105511	235145110	1	62266										
RPRD2	23248	broad.mit.edu	37	chr1	150429919	150429919	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tctccttttcagggaatgggAggtgaggaatcccagtcacc	12	10	3	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr1:150429919A>T	uc009wlr.2	+	8	1227	c.1026A>T	c.(1024-1026)GGA>GGT	p.G342G	RPRD2_uc010pcc.1_Silent_p.G316G|RPRD2_uc001eup.3_Silent_p.G316G	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	342							protein binding			ovary(1)	1						AGGGAATGGGAGGTGAGGAAT	0.512													108	244	---	---	---	---	PASS	T	150429919	T	T	150429919	2	4	175	1	0	0	0	0	0	0	0	1	13617	291	11	5		5	RPRD2	1	150429919	Silent	SNP	A	TCGA-70-6723-01A-11D-1817-08	136324408	150429919	98820702	2	62267										
ILF2	3608	broad.mit.edu	37	chr1	153635213	153635213	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	cctcctggccaaggatcttcCtaaagccaccatgtgagagg	10	13	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr1:153635213C>G	uc001fcr.2	-	13	1061	c.980G>C	c.(979-981)AGG>ACG	p.R327T	ILF2_uc010pdy.1_Missense_Mutation_p.R289T|ILF2_uc009wok.2_Missense_Mutation_p.R305T	NM_004515	NP_004506	Q12905	ILF2_HUMAN	interleukin enhancer binding factor 2	327	DZF.				immune response|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|ribonucleoprotein complex	ATP binding|DNA binding|double-stranded RNA binding|protein binding|transferase activity				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			AAGGATCTTCCTAAAGCCACC	0.478													4	220	---	---	---	---	PASS	G	153635213	G	G	153635213	3	3	175	1	0	0	0	0	1	0	0	0	7711	681	24	4	200	4	ILF2	1	153635213	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	3205294	153635213	95615408	3	62268										
C1orf92	149499	broad.mit.edu	37	chr1	156897713	156897713	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	cccgcctccttcaggtcctgCgcgccttcgagctgacacac	9	19	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr1:156897713C>G	uc001fqm.2	+	9	1085	c.913C>G	c.(913-915)CGC>GGC	p.R305G	C1orf92_uc001fql.2_Missense_Mutation_p.R90G	NM_144702	NP_653303	Q8N4P6	LRC71_HUMAN	hypothetical protein LOC149499	305											0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TCAGGTCCTGCGCGCCTTCGA	0.697											OREG0013892	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	24	---	---	---	---	PASS	G	156897713	G	G	156897713	3	3	175	1	0	0	0	0	1	0	0	0	2069	768	27	4	947	4	C1orf92	1	156897713	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	3262500	156897713	92352908	4	62269										
PEX19	5824	broad.mit.edu	37	chr1	160252819	160252819	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	aactccttcattgccttctcGaactccgcagtggcttggga	9	13	2	0	rs146644725	byFrequency	TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr1:160252819G>A	uc001fvs.2	-	3	288	c.261C>T	c.(259-261)TTC>TTT	p.F87F	DCAF8_uc010pjc.1_5'UTR|PEX19_uc010pje.1_RNA|PEX19_uc001fvt.2_5'UTR	NM_002857	NP_002848	P40855	PEX19_HUMAN	peroxisomal biogenesis factor 19 isoform a	87	Necessary for PEX19 function on peroxisome biogenesis.				peroxisome membrane biogenesis|peroxisome organization|protein targeting to peroxisome|transmembrane transport	brush border membrane|cytosol|integral to membrane|nucleus|peroxisomal membrane	protein binding|protein N-terminus binding				0	all_cancers(52;1.27e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TTGCCTTCTCGAACTCCGCAG	0.567													4	144	---	---	---	---	PASS	A	160252819	A	A	160252819	2	1	175	1	0	0	0	0	0	0	0	1	11744	1049	37	2		2	PEX19	1	160252819	Silent	SNP	G	TCGA-70-6723-01A-11D-1817-08	3355106	160252819	88997802	5	62270										
PRDX6	9588	broad.mit.edu	37	chr1	173454500	173454500	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	cccttttacttgtgtttcagGatatcaatgcttacaattgt	6	8	2	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr1:173454500G>T	uc001giy.1	+	3	304	c.253G>T	c.(253-255)GAT>TAT	p.D85Y		NM_004905	NP_004896	P30041	PRDX6_HUMAN	peroxiredoxin 6	85	Thioredoxin.				cell redox homeostasis|phospholipid catabolic process	cytoplasmic membrane-bounded vesicle|cytosol|lysosome	peroxiredoxin activity|phospholipase A2 activity|protein binding			central_nervous_system(1)	1						TGTGTTTCAGGATATCAATGC	0.443													11	110	---	---	---	---	PASS	T	173454500	T	T	173454500	3	4	175	1	0	0	0	0	1	0	0	0	12469	1188	41	2	263	2	PRDX6	1	173454500	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	13201681	173454500	75796121	6	62271										
TNR	7143	broad.mit.edu	37	chr1	175325553	175325553	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	taggaagcaggtcaacaagcCgaaattcctcactgactccg	9	12	2	1	rs112059746	byFrequency	TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr1:175325553C>A	uc001gkp.1	-	14	3101	c.3020G>T	c.(3019-3021)CGG>CTG	p.R1007L	TNR_uc009wwu.1_Missense_Mutation_p.R1007L	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1007	Fibronectin type-III 8.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GTCAACAAGCCGAAATTCCTC	0.473													107	60	---	---	---	---	PASS	A	175325553	A	A	175325553	3	1	175	1	0	0	0	0	1	0	0	0	16335	652	23	1	1088	1	TNR	1	175325553	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	1871053	175325553	73925068	7	62272										
NMNAT2	23057	broad.mit.edu	37	chr1	183253165	183253165	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gcatcaccgtgcccagattgGcattctcatctaaggaggaa	10	11	3	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr1:183253165G>A	uc001gqc.1	-	7	874	c.539C>T	c.(538-540)GCC>GTC	p.A180V	NMNAT2_uc001gqb.1_Missense_Mutation_p.A175V|NMNAT2_uc001gqd.2_Missense_Mutation_p.A75V	NM_015039	NP_055854	Q9BZQ4	NMNA2_HUMAN	nicotinamide mononucleotide adenylyltransferase	180					water-soluble vitamin metabolic process	Golgi membrane|nucleus	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity			skin(1)	1						GCCCAGATTGGCATTCTCATC	0.527													37	156	---	---	---	---	PASS	A	183253165	A	A	183253165	3	1	175	1	0	0	0	0	1	0	0	0	10499	1203	42	3	404	3	NMNAT2	1	183253165	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	7927612	183253165	65997456	8	62273										
FAM129A	116496	broad.mit.edu	37	chr1	184764867	184764867	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	agctctgatgagcatgtgccCgggagtcctgctgtgtcctc	13	12	1	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr1:184764867C>T	uc001gra.2	-	14	2225	c.2031G>A	c.(2029-2031)CCG>CCA	p.P677P	FAM129A_uc001grb.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	677					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						AGCATGTGCCCGGGAGTCCTG	0.577													31	71	---	---	---	---	PASS	T	184764867	T	T	184764867	2	4	175	1	0	0	0	0	0	0	0	1	5436	639	23	1		1	FAM129A	1	184764867	Silent	SNP	C	TCGA-70-6723-01A-11D-1817-08	1511702	184764867	64485754	9	62274										
ASPM	259266	broad.mit.edu	37	chr1	197073677	197073677	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tcttgtctcattctccagtaTgactgaataacacaagcagc	6	11	3	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr1:197073677T>A	uc001gtu.2	-	18	4961	c.4704A>T	c.(4702-4704)TCA>TCT	p.S1568S	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1568					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TTCTCCAGTATGACTGAATAA	0.358													17	56	---	---	---	---	PASS	A	197073677	A	A	197073677	2	1	175	1	0	0	0	0	0	0	0	1	1056	1451	51	5		5	ASPM	1	197073677	Silent	SNP	T	TCGA-70-6723-01A-11D-1817-08	12308810	197073677	52176944	10	62275										
HHIPL2	79802	broad.mit.edu	37	chr1	222721202	222721202	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	agccgaaggactcatagtcaGagcaaaactcaaggtgcaga	11	9	3	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr1:222721202G>C	uc001hnh.1	-	1	243	c.185C>G	c.(184-186)TCT>TGT	p.S62C		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	62					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		CTCATAGTCAGAGCAAAACTC	0.562													5	61	---	---	---	---	PASS	C	222721202	C	C	222721202	3	2	175	1	0	0	0	0	1	0	0	0	7094	942	33	2	2025	2	HHIPL2	1	222721202	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	25647525	222721202	26529419	11	62276										
OR2B11	127623	broad.mit.edu	37	chr1	247614957	247614957	+	Frame_Shift_Del	DEL	A	-	-													0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gcactccgtgcatcccagccAgtggaagactgcatattgca							TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr1:247614957delA	uc010pyx.1	-	1	328	c.328delT	c.(328-330)TGGfs	p.W110fs		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CATCCCAGCCAGTGGAAGACT	0.597													45	62	---	---	---	---		-	247614957	-	-	247614957	7	5	175	1	0	1	0	1	0	0	0	0	10988	188	7	0	628	0	OR2B11	1	247614957	Frame_Shift_Del	DEL	A	TCGA-70-6723-01A-11D-1817-08	24893755	247614957	1635664	12	62277										
PXDN	7837	broad.mit.edu	37	chr2	1653341	1653341	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tgcgtccggtacttctggtgGaagcacatgtccgagcagtt	13	10	1	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:1653341G>T	uc002qxa.2	-	17	2275	c.2211C>A	c.(2209-2211)TTC>TTA	p.F737L		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	737					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		ACTTCTGGTGGAAGCACATGT	0.612													19	180	---	---	---	---	PASS	T	1653341	T	T	1653341	3	4	175	1	0	0	0	0	1	0	0	0	12847	1165	41	2	2256	2	PXDN	2	1653341	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08		1653341	241546032	13	62278										
RRM2	6241	broad.mit.edu	37	chr2	10267220	10267220	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	taactcctaaataggtgaacGtgttgtagcctttgctgcag	10	8	0	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:10267220G>A	uc002rah.2	+	7	862	c.671G>A	c.(670-672)CGT>CAT	p.R224H		NM_001034	NP_001025	P31350	RIR2_HUMAN	ribonucleotide reductase M2 polypeptide isoform	224					deoxyribonucleoside diphosphate metabolic process|deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol	ribonucleoside-diphosphate reductase activity|transition metal ion binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.188)|OV - Ovarian serous cystadenocarcinoma(76;0.221)		ATAGGTGAACGTGTTGTAGCC	0.423													93	153	---	---	---	---	PASS	A	10267220	A	A	10267220	3	1	175	1	0	0	0	0	1	0	0	0	13682	1145	40	1	877	1	RRM2	2	10267220	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	8613879	10267220	232932153	14	62279										
ZNF513	130557	broad.mit.edu	37	chr2	27601720	27601720	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gcagcaggggccccccacccGgccctcctgccccacaacac	9	23	0	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:27601720G>A	uc002rkk.2	-	3	613	c.413C>T	c.(412-414)CCG>CTG	p.P138L	ZNF513_uc002rkj.2_Missense_Mutation_p.P76L	NM_144631	NP_653232	Q8N8E2	ZN513_HUMAN	zinc finger protein 513	138	Gly-rich.				regulation of transcription, DNA-dependent|response to stimulus|retina development in camera-type eye|transcription, DNA-dependent|visual perception	nucleus	transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCCCCACCCGGCCCTCCTGC	0.706													4	14	---	---	---	---	PASS	A	27601720	A	A	27601720	3	1	175	1	0	0	0	0	1	0	0	0	17955	1116	39	1	1220	1	ZNF513	2	27601720	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	17334500	27601720	215597653	15	62280										
MEMO1	51072	broad.mit.edu	37	chr2	32168371	32168371	+	Frame_Shift_Del	DEL	G	-	-													0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	caaaaacaaaaaagacttacGgggcaataatggctctagca							TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:32168371delG	uc002rnx.2	-	2	525	c.143delC	c.(142-144)CCCfs	p.P48fs	MEMO1_uc010ymu.1_Frame_Shift_Del_p.P48fs|MEMO1_uc010ezq.2_Frame_Shift_Del_p.P48fs|MEMO1_uc002rny.2_RNA|MEMO1_uc002rnz.2_RNA|MEMO1_uc010ymv.1_RNA	NM_015955	NP_057039	Q9Y316	MEMO1_HUMAN	mediator of cell motility 1 isoform 1	48					regulation of microtubule-based process	cytosol|nucleus				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)					aaaGACTTACGGGGCAATAAT	0.239													143	88	---	---	---	---		-	32168371	-	-	32168371	7	5	175	1	0	1	0	1	0	0	0	0	9471	1130	39	0	782	0	MEMO1	2	32168371	Frame_Shift_Del	DEL	G	TCGA-70-6723-01A-11D-1817-08	4566651	32168371	211031002	16	62281										
LTBP1	4052	broad.mit.edu	37	chr2	33246095	33246095	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ctgcccaggacacctcgtcaCcagtctttggagggcagagt	12	13	2	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:33246095C>T	uc002ros.2	+	3	685	c.685C>T	c.(685-687)CCA>TCA	p.P229S		NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	229					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CACCTCGTCACCAGTCTTTGG	0.552													108	156	---	---	---	---	PASS	T	33246095	T	T	33246095	3	4	175	1	0	0	0	0	1	0	0	0	9073	507	18	3	695	3	LTBP1	2	33246095	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	1077724	33246095	209953278	17	62282										
CRIM1	51232	broad.mit.edu	37	chr2	36726430	36726435	+	In_Frame_Del	DEL	GACTGC	-	-													0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	actgcactctgacagggaagGactgcattaatggtttcaaa							TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:36726430_36726435delGACTGC	uc002rpd.2	+	8	1480_1485	c.1441_1446delGACTGC	c.(1441-1446)GACTGCdel	p.DC481del		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	481_482	Antistasin-like 1.|Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				GACAGGGAAGGACTGCATTAATGGTT	0.403													93	45	---	---	---	---		-	36726435	-	-	36726430	7	5	175	1	0	1	0	1	0	0	0	0	3873	1174	41	0	1471	0	CRIM1	2	36726430	In_Frame_Del	DEL	GACTGC	TCGA-70-6723-01A-11D-1817-08	3480335	36726430	206472943	18	62283										
PIGF	5281	broad.mit.edu	37	chr2	46842099	46842099	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gtgtgataatgaacttctttTagaggatgtatttggtttca	10	3	2	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:46842099T>C	uc002rvd.2	-	2	369	c.205A>G	c.(205-207)AAA>GAA	p.K69E	PIGF_uc002rvc.2_Missense_Mutation_p.K69E|CRIPT_uc002rve.2_5'Flank	NM_002643	NP_002634	Q07326	PIGF_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	69					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	ethanolaminephosphotransferase activity				0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			GAACTTCTTTTAGAGGATGTA	0.328													32	27	---	---	---	---	PASS	C	46842099	C	C	46842099	3	2	175	1	0	0	0	0	1	0	0	0	11887	1763	61	5	553	5	PIGF	2	46842099	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	10115669	46842099	196357274	19	62284										
FOXN2	3344	broad.mit.edu	37	chr2	48602579	48602579	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	aatcaaaagcaacggaaaaaAtagaaatacttaaagtgtgg	8	4	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:48602579A>G	uc002rwh.1	+	7	1608	c.1293A>G	c.(1291-1293)AAA>AAG	p.K431K		NM_002158	NP_002149	P32314	FOXN2_HUMAN	T-cell leukemia virus enhancer factor	431					embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0272)|LUSC - Lung squamous cell carcinoma(58;0.036)			AACGGAAAAAATAGAAATACT	0.378													14	8	---	---	---	---	PASS	G	48602579	G	G	48602579	2	3	175	1	0	0	0	0	0	0	0	1	6020	98	4	5		5	FOXN2	2	48602579	Silent	SNP	A	TCGA-70-6723-01A-11D-1817-08	1760480	48602579	194596794	20	62285										
FSHR	2492	broad.mit.edu	37	chr2	49295406	49295406	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	atgcacctttttggatgactCgaagcttggtgaggacaaac	11	8	0	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:49295406C>T	uc002rww.2	-	2	250	c.176G>A	c.(175-177)CGA>CAA	p.R59Q	FSHR_uc002rwx.2_Missense_Mutation_p.R59Q|FSHR_uc010fbn.2_Missense_Mutation_p.R59Q|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	59	Extracellular (Potential).|LRR 1.				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	TTGGATGACTCGAAGCTTGGT	0.418									Gonadal_Dysgenesis_46_XX				92	109	---	---	---	---	PASS	T	49295406	T	T	49295406	3	4	175	1	0	0	0	0	1	0	0	0	6073	884	31	2	1947	2	FSHR	2	49295406	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	692827	49295406	193903967	21	62286										
KIAA1841	84542	broad.mit.edu	37	chr2	61333753	61333753	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tagaatgtgatgttttactgGagccaaatacaccatggggt	11	6	0	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:61333753G>A	uc002saw.3	+	14	1870	c.1567G>A	c.(1567-1569)GAG>AAG	p.E523K	KIAA1841_uc002sax.3_Missense_Mutation_p.E377K|KIAA1841_uc002say.2_Missense_Mutation_p.E523K	NM_001129993	NP_001123465	Q6NSI8	K1841_HUMAN	KIAA1841 protein isoform a	523											0			Epithelial(17;0.193)			TGTTTTACTGGAGCCAAATAC	0.348													148	173	---	---	---	---	PASS	A	61333753	A	A	61333753	3	1	175	1	0	0	0	0	1	0	0	0	8261	1175	41	2	1613	2	KIAA1841	2	61333753	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	12038347	61333753	181865620	22	62287										
DCTN1	1639	broad.mit.edu	37	chr2	74605229	74605229	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tttgcttcatccagaatcacGcctacccatttgccagtggc	7	14	2	1	rs72466484		TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:74605229G>A	uc002skx.2	-	2	488	c.177C>T	c.(175-177)GGC>GGT	p.G59G	DCTN1_uc002skw.1_Silent_p.G42G|DCTN1_uc010ffd.2_Silent_p.G59G|DCTN1_uc002sky.2_Silent_p.G42G	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	59	CAP-Gly.		G -> S (in HMN7B; shows a modestly reduced affinity for microtubules which has been suggested to impair axonal transport; the effect is identical to that of complete loss of the CAP-Gly domain).		cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						CCAGAATCACGCCTACCCATT	0.537													73	76	---	---	---	---	PASS	A	74605229	A	A	74605229	2	1	175	1	0	0	0	0	0	0	0	1	4306	1074	38	1		1	DCTN1	2	74605229	Silent	SNP	G	TCGA-70-6723-01A-11D-1817-08	13271476	74605229	168594144	23	62288										
C2orf55	343990	broad.mit.edu	37	chr2	99438711	99438711	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	aaggggtttctgtcctcactCggggccggctcctgggcggc	16	13	2	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:99438711C>A	uc002szf.1	-	7	2319	c.2025G>T	c.(2023-2025)CCG>CCT	p.P675P		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	675											0						TGTCCTCACTCGGGGCCGGCT	0.711													17	26	---	---	---	---	PASS	A	99438711	A	A	99438711	2	1	175	1	0	0	0	0	0	0	0	1	2176	871	31	2		2	C2orf55	2	99438711	Silent	SNP	C	TCGA-70-6723-01A-11D-1817-08	24833482	99438711	143760662	24	62289										
BUB1	699	broad.mit.edu	37	chr2	111399373	111399373	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	attcccaggggttggcaggcTtttggacctgcaaatcaggt	13	9	1	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:111399373T>G	uc002tgc.2	-	21	2583	c.2471A>C	c.(2470-2472)AAG>ACG	p.K824T	BUB1_uc010yxh.1_Missense_Mutation_p.K804T|BUB1_uc010fkb.2_Missense_Mutation_p.K824T	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	824	Protein kinase.				apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		GTTGGCAGGCTTTTGGACCTG	0.403													66	245	---	---	---	---	PASS	G	111399373	G	G	111399373	3	3	175	1	0	0	0	0	1	0	0	0	1570	1609	56	5	806	5	BUB1	2	111399373	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	11960662	111399373	131800000	25	62290										
XIRP2	129446	broad.mit.edu	37	chr2	168102627	168102627	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ggaatcatcattgaagctgaTgaaataggggatgttcgaat	12	4	2	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:168102627T>A	uc002udx.2	+	8	4743	c.4725T>A	c.(4723-4725)GAT>GAA	p.D1575E	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.D1400E|XIRP2_uc010fpq.2_Missense_Mutation_p.D1353E|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1400					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TTGAAGCTGATGAAATAGGGG	0.358													18	57	---	---	---	---	PASS	A	168102627	A	A	168102627	3	1	175	1	0	0	0	0	1	0	0	0	17427	1461	51	5	4755	5	XIRP2	2	168102627	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	56703254	168102627	75096746	26	62291										
TTN	7273	broad.mit.edu	37	chr2	179528601	179528601	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gccaagggcactttctcttcGcggataacctctttggaagc	10	12	2	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:179528601G>A	uc010zfk.1	-	15	1379	c.831C>T	c.(829-831)CGC>CGT	p.R277R	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CTTTCTCTTCGCGGATAACCT	0.423													79	319	---	---	---	---	PASS	A	179528601	A	A	179528601	2	1	175	1	0	0	0	0	0	0	0	1	16732	1102	38	1		1	TTN	2	179528601	Silent	SNP	G	TCGA-70-6723-01A-11D-1817-08	11425974	179528601	63670772	27	62292										
ZNF804A	91752	broad.mit.edu	37	chr2	185801424	185801424	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tgtccttaacaaacacagatCtacagttcttcagtggccat	6	11	3	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:185801424C>A	uc002uph.2	+	4	1895	c.1301C>A	c.(1300-1302)TCT>TAT	p.S434Y		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	434						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						AAACACAGATCTACAGTTCTT	0.353													103	137	---	---	---	---	PASS	A	185801424	A	A	185801424	3	1	175	1	0	0	0	0	1	0	0	0	18167	913	32	2	1315	2	ZNF804A	2	185801424	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	6272823	185801424	57397949	28	62293										
PPIL3	53938	broad.mit.edu	37	chr2	201746158	201746158	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	atttaccttaagatattcacTgtattcatcctcaaacttct	2	10	4	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:201746158T>A	uc002uwh.2	-	5	467	c.226A>T	c.(226-228)AGT>TGT	p.S76C	PPIL3_uc002uwi.2_Missense_Mutation_p.S80C|PPIL3_uc002uwj.2_Silent_p.T44T|PPIL3_uc002uwk.2_Missense_Mutation_p.S76C	NM_130906	NP_570981	Q9H2H8	PPIL3_HUMAN	peptidylprolyl isomerase-like 3 isoform PPIL3b	76	PPIase cyclophilin-type.				protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity|protein binding				0						AGATATTCACTGTATTCATCC	0.333													144	38	---	---	---	---	PASS	A	201746158	A	A	201746158	3	1	175	1	0	0	0	0	1	0	0	0	12328	1580	55	5	271	5	PPIL3	2	201746158	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	15944734	201746158	41453215	29	62294										
PTH2R	5746	broad.mit.edu	37	chr2	209292980	209292980	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	agattgtccttgtgctgaaaGcgaaagtacaatgtgaactc	10	7	0	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr2:209292980G>T	uc002vdb.2	+	2	343	c.130G>T	c.(130-132)GCG>TCG	p.A44S	PTH2R_uc010zjb.1_Missense_Mutation_p.A55S	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	44	Extracellular (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		TGTGCTGAAAGCGAAAGTACA	0.403													3	47	---	---	---	---	PASS	T	209292980	T	T	209292980	3	4	175	1	0	0	0	0	1	0	0	0	12760	971	34	3	136	3	PTH2R	2	209292980	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	7546822	209292980	33906393	30	62295										
ALCAM	214	broad.mit.edu	37	chr3	105250904	105250904	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tttctcgaaacagagcagctAaaaaaggtaagaattgtttt	8	5	1	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr3:105250904A>G	uc003dvx.2	+	4	993	c.453A>G	c.(451-453)CTA>CTG	p.L151L	ALCAM_uc003dvw.1_Silent_p.L151L|ALCAM_uc003dvy.2_Silent_p.L151L|ALCAM_uc011bhh.1_Silent_p.L100L|ALCAM_uc010hpp.2_5'Flank	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	151	Extracellular (Potential).|Ig-like V-type 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						CAGAGCAGCTAAAAAAGGTAA	0.343													109	26	---	---	---	---	PASS	G	105250904	G	G	105250904	2	3	175	1	0	0	0	0	0	0	0	1	487	349	13	5		5	ALCAM	3	105250904	Silent	SNP	A	TCGA-70-6723-01A-11D-1817-08		105250904	92771526	31	62296										
LRRC58	116064	broad.mit.edu	37	chr3	120053955	120053955	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	cagatatgtcagcaagttatTgtgaagacttagggaacgaa	11	5	1	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr3:120053955T>A	uc003edr.2	-	3	757	c.661A>T	c.(661-663)AAT>TAT	p.N221Y		NM_001099678	NP_001093148	Q96CX6	LRC58_HUMAN	leucine rich repeat containing 58	221	LRR 8.										0				GBM - Glioblastoma multiforme(114;0.147)		AGCAAGTTATTGTGAAGACTT	0.343													60	13	---	---	---	---	PASS	A	120053955	A	A	120053955	3	1	175	1	0	0	0	0	1	0	0	0	9014	1812	63	5	462	5	LRRC58	3	120053955	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	14803051	120053955	77968475	32	62297										
SI	6476	broad.mit.edu	37	chr3	164735558	164735558	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tgcaatcatacttcatggtaTtgctttgttgcaacttctgg	8	8	3	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr3:164735558T>A	uc003fei.2	-	30	3686	c.3624A>T	c.(3622-3624)CAA>CAT	p.Q1208H		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1208	Sucrase.|Lumenal.				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)	CTTCATGGTATTGCTTTGTTG	0.313										HNSCC(35;0.089)			15	72	---	---	---	---	PASS	A	164735558	A	A	164735558	3	1	175	1	0	0	0	0	1	0	0	0	14297	1490	52	5	1935	5	SI	3	164735558	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	44681603	164735558	33286872	33	62298										
PDCD10	11235	broad.mit.edu	37	chr3	167402119	167402119	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ggccacagttttgaaggtctGaagtattaagttggtttgat	12	4	1	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr3:167402119G>C	uc003fex.2	-	9	1014	c.616C>G	c.(616-618)CAG>GAG	p.Q206E	PDCD10_uc003fez.2_Missense_Mutation_p.Q206E|PDCD10_uc003fey.2_Missense_Mutation_p.Q206E	NM_007217	NP_009148	Q9BUL8	PDC10_HUMAN	programmed cell death 10	206					angiogenesis|apoptosis|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of MAP kinase activity	cytosol|Golgi membrane|plasma membrane	protein homodimerization activity|protein N-terminus binding			lung(1)|central_nervous_system(1)	2						TTGAAGGTCTGAAGTATTAAG	0.328									Familial_Cerebral_Cavernous_Angioma				9	266	---	---	---	---	PASS	C	167402119	C	C	167402119	3	2	175	1	0	0	0	0	1	0	0	0	11616	1299	45	2	26	2	PDCD10	3	167402119	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	2666561	167402119	30620311	34	62299										
MECOM	2122	broad.mit.edu	37	chr3	168834261	168834261	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	attggcgccaaaatagtcagCaaggcccgggttggcatgac	13	10	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr3:168834261C>A	uc003ffi.3	-	7	1104	c.835G>T	c.(835-837)GCT>TCT	p.A279S	MECOM_uc010hwk.1_Missense_Mutation_p.A302S|MECOM_uc003ffj.3_Missense_Mutation_p.A344S|MECOM_uc011bpi.1_Missense_Mutation_p.A280S|MECOM_uc003ffn.3_Missense_Mutation_p.A279S|MECOM_uc003ffk.2_Missense_Mutation_p.A279S|MECOM_uc003ffl.2_Missense_Mutation_p.A439S|MECOM_uc011bpj.1_Missense_Mutation_p.A467S|MECOM_uc011bpk.1_Missense_Mutation_p.A269S|MECOM_uc010hwn.2_Missense_Mutation_p.A467S	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	279					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						AAATAGTCAGCAAGGCCCGGG	0.493													36	135	---	---	---	---	PASS	A	168834261	A	A	168834261	3	1	175	1	0	0	0	0	1	0	0	0	9422	710	25	3	2360	3	MECOM	3	168834261	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	1432142	168834261	29188169	35	62300										
TNIK	23043	broad.mit.edu	37	chr3	170843789	170843789	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gaggaggattttccgaggtgGgatctgagttctggcgtggc	18	6	2	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr3:170843789G>A	uc003fhh.2	-	17	2270	c.1925C>T	c.(1924-1926)CCC>CTC	p.P642L	TNIK_uc003fhi.2_Missense_Mutation_p.P587L|TNIK_uc003fhj.2_Missense_Mutation_p.P613L|TNIK_uc003fhk.2_Missense_Mutation_p.P642L|TNIK_uc003fhl.2_Missense_Mutation_p.P558L|TNIK_uc003fhm.2_Missense_Mutation_p.P587L|TNIK_uc003fhn.2_Missense_Mutation_p.P613L|TNIK_uc003fho.2_Missense_Mutation_p.P558L	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	642	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			TTCCGAGGTGGGATCTGAGTT	0.532													12	214	---	---	---	---	PASS	A	170843789	A	A	170843789	3	1	175	1	0	0	0	0	1	0	0	0	16310	1232	43	3	2225	3	TNIK	3	170843789	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	2009528	170843789	27178641	36	62301										
UNC5C	8633	broad.mit.edu	37	chr4	96104068	96104068	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ctctgacacggtgcagttgaGctggaagatctgcccttctc	11	12	3	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr4:96104068G>A	uc003htp.1	-	14	2585	c.2431C>T	c.(2431-2433)CTC>TTC	p.L811F		NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	811	Cytoplasmic (Potential).				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		GTGCAGTTGAGCTGGAAGATC	0.527													39	53	---	---	---	---	PASS	A	96104068	A	A	96104068	3	1	175	1	0	0	0	0	1	0	0	0	16990	971	34	3	376	3	UNC5C	4	96104068	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08		96104068	95050208	37	62302										
C4orf21	55345	broad.mit.edu	37	chr4	113539801	113539801	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	catactccttttccagtgttCcacatgtatttacctcctga	4	13	0	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr4:113539801C>A	uc003iau.2	-	6	1608	c.1397G>T	c.(1396-1398)GGA>GTA	p.G466V	C4orf21_uc003iaw.2_Missense_Mutation_p.G466V	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		TTCCAGTGTTCCACATGTATT	0.338													75	18	---	---	---	---	PASS	A	113539801	A	A	113539801	3	1	175	1	0	0	0	0	1	0	0	0	2254	855	30	2	5009	2	C4orf21	4	113539801	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	17435733	113539801	77614475	38	62303										
GUCY1A3	2982	broad.mit.edu	37	chr4	156651263	156651263	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	aacttccctagtgaaatcccCggaatctgccattttctgga	7	12	2	1	rs150400396		TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr4:156651263C>T	uc003iov.2	+	11	2489	c.1953C>T	c.(1951-1953)CCC>CCT	p.P651P	GUCY1A3_uc003iow.2_Silent_p.P651P|GUCY1A3_uc010iqd.2_Silent_p.P650P|GUCY1A3_uc003iox.2_Silent_p.P651P|GUCY1A3_uc003ioz.2_Silent_p.P416P|GUCY1A3_uc003ioy.2_Silent_p.P651P|GUCY1A3_uc010iqe.2_Silent_p.P416P|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Silent_p.P651P	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	651					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		GTGAAATCCCCGGAATCTGCC	0.403													74	11	---	---	---	---	PASS	T	156651263	T	T	156651263	2	4	175	1	0	0	0	0	0	0	0	1	6894	639	23	1		1	GUCY1A3	4	156651263	Silent	SNP	C	TCGA-70-6723-01A-11D-1817-08	43111462	156651263	34503013	39	62304										
HEATR7B2	133558	broad.mit.edu	37	chr5	41017993	41017993	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tagttgagctagcagccgccTgacggatggtgggcagggta	17	8	0	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr5:41017993T>C	uc003jmj.3	-	28	3333	c.2843A>G	c.(2842-2844)CAG>CGG	p.Q948R	HEATR7B2_uc003jmi.3_Missense_Mutation_p.Q503R	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	948							binding			ovary(6)|central_nervous_system(2)	8						AGCAGCCGCCTGACGGATGGT	0.468													12	3	---	---	---	---	PASS	C	41017993	C	C	41017993	3	2	175	1	0	0	0	0	1	0	0	0	7035	1580	55	5	1974	5	HEATR7B2	5	41017993	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08		41017993	139897267	40	62305										
TRIM23	373	broad.mit.edu	37	chr5	64905275	64905275	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	atgaccgggcattctctgcaGtccctggtacctaagaaaat	9	11	1	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr5:64905275G>A	uc003jty.2	-	6	925	c.839C>T	c.(838-840)ACT>ATT	p.T280I	TRIM23_uc003jtw.2_Missense_Mutation_p.T280I|TRIM23_uc003jtx.2_Missense_Mutation_p.T280I	NM_001656	NP_001647	P36406	TRI23_HUMAN	ADP-ribosylation factor domain protein 1 isoform	280					interspecies interaction between organisms|small GTPase mediated signal transduction	Golgi membrane|lysosomal membrane	enzyme activator activity|GDP binding|GTP binding|GTPase activity|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Breast(144;0.0433)|Ovarian(174;0.0545)|Colorectal(97;0.234)		Lung(70;0.00473)		ATTCTCTGCAGTCCCTGGTAC	0.299													15	17	---	---	---	---	PASS	A	64905275	A	A	64905275	3	1	175	1	0	0	0	0	1	0	0	0	16494	1029	36	3	976	3	TRIM23	5	64905275	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	23887282	64905275	116009985	41	62306										
RASGRF2	5924	broad.mit.edu	37	chr5	80515598	80515598	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gaatagatcatcagccaaagGtaatattatgtggctgtgaa	10	5	2	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr5:80515598G>C	uc003kha.1	+	26	3621	c.3621_splice	c.e26+1	p.K1207_splice	RNU5E_uc011cto.1_Intron|RASGRF2_uc011ctn.1_Splice_Site	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		TCAGCCAAAGGTAATATTATG	0.219													11	17	---	---	---	---	PASS	C	80515598	C	C	80515598	5	2	175	1	0	0	0	0	0	0	1	0	13073	1275	44	4	3724	4	RASGRF2	5	80515598	Splice_Site	SNP	G	TCGA-70-6723-01A-11D-1817-08	15610323	80515598	100399662	42	62307										
PCSK1	5122	broad.mit.edu	37	chr5	95748167	95748167	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	aactggcctcaatagcatccGtcacaatgccatccagcatt	6	14	2	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr5:95748167G>C	uc003kls.1	-	7	943	c.737C>G	c.(736-738)ACG>AGG	p.T246R	PCSK1_uc010jbi.1_Missense_Mutation_p.T7R	NM_000439	NP_000430	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	246	Catalytic.				cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity			ovary(2)	2		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AATAGCATCCGTCACAATGCC	0.438													19	15	---	---	---	---	PASS	C	95748167	C	C	95748167	3	2	175	1	0	0	0	0	1	0	0	0	11600	1145	40	4	1556	4	PCSK1	5	95748167	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	15232569	95748167	85167093	43	62308										
PCDHA8	56140	broad.mit.edu	37	chr5	140221314	140221314	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ccgccagtgttccgggtaaaAgaccaaaagctgtttgtttc	10	10	0	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr5:140221314A>G	uc003lhs.2	+	1	408	c.408A>G	c.(406-408)AAA>AAG	p.K136K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.K136K	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	136	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCGGGTAAAAGACCAAAAGC	0.532													42	61	---	---	---	---	PASS	G	140221314	G	G	140221314	2	3	175	1	0	0	0	0	0	0	0	1	11530	69	3	5		5	PCDHA8	5	140221314	Silent	SNP	A	TCGA-70-6723-01A-11D-1817-08	44473147	140221314	40693946	44	62309										
PCDHGB6	56100	broad.mit.edu	37	chr5	140788883	140788883	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ttgttgccctcttcaaaacaCgggatctggatttcggagga	11	9	3	0	rs114361948	by1000genomes	TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr5:140788883C>A	uc003lkj.1	+	1	1114	c.1114C>A	c.(1114-1116)CGG>AGG	p.R372R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Silent_p.R372R	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	372	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTCAAAACACGGGATCTGGA	0.393													14	20	---	---	---	---	PASS	A	140788883	A	A	140788883	2	1	175	1	0	0	0	0	0	0	0	1	11567	527	19	1		1	PCDHGB6	5	140788883	Silent	SNP	C	TCGA-70-6723-01A-11D-1817-08	567569	140788883	40126377	45	62310										
SLC6A7	6534	broad.mit.edu	37	chr5	149584177	149584177	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ggttatcaccacgtgccttgCcgtgacacgggtgtatggtg	14	10	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr5:149584177C>T	uc003lrr.2	+	11	1786	c.1415C>T	c.(1414-1416)GCC>GTC	p.A472V		NM_014228	NP_055043	Q99884	SC6A7_HUMAN	solute carrier family 6, member 7	472	Helical; Name=10; (Potential).					integral to plasma membrane|membrane fraction	neurotransmitter:sodium symporter activity|proline:sodium symporter activity				0		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Proline(DB00172)	ACGTGCCTTGCCGTGACACGG	0.592													3	51	---	---	---	---	PASS	T	149584177	T	T	149584177	3	4	175	1	0	0	0	0	1	0	0	0	14689	739	26	3	1457	3	SLC6A7	5	149584177	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	8795294	149584177	31331083	46	62311										
TCOF1	6949	broad.mit.edu	37	chr5	149740740	149740740	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	agtgtttcctggctcagcccGtaacccttctggacatctat	8	13	3	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr5:149740740G>T	uc003lry.2	+	2	238	c.130G>T	c.(130-132)GTA>TTA	p.V44L	TCOF1_uc003lrw.2_Missense_Mutation_p.V44L|TCOF1_uc011dch.1_Missense_Mutation_p.V44L|TCOF1_uc003lrz.2_Missense_Mutation_p.V44L|TCOF1_uc003lrx.2_Missense_Mutation_p.V44L|TCOF1_uc003lsa.2_Missense_Mutation_p.V44L	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	44					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGCTCAGCCCGTAACCCTTCT	0.517													31	41	---	---	---	---	PASS	T	149740740	T	T	149740740	3	4	175	1	0	0	0	0	1	0	0	0	15705	1145	40	1	136	1	TCOF1	5	149740740	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	156563	149740740	31174520	47	62312										
FAM71B	153745	broad.mit.edu	37	chr5	156592796	156592796	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tgatcgtggatggagatcttCacaaatttcaagggaagcag	12	6	3	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr5:156592796C>A	uc003lwn.2	-	1	484	c.384G>T	c.(382-384)GTG>GTT	p.V128V		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	128						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TGGAGATCTTCACAAATTTCA	0.537													22	36	---	---	---	---	PASS	A	156592796	A	A	156592796	2	1	175	1	0	0	0	0	0	0	0	1	5608	813	29	2		2	FAM71B	5	156592796	Silent	SNP	C	TCGA-70-6723-01A-11D-1817-08	6852056	156592796	24322464	48	62313										
CYFIP2	26999	broad.mit.edu	37	chr5	156747731	156747731	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	agagccccctaatgacccatGcttgagaggggagaaggacc	13	11	0	4			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr5:156747731G>C	uc003lwq.2	+	17	1730	c.1592G>C	c.(1591-1593)TGC>TCC	p.C531S	CYFIP2_uc011ddn.1_Missense_Mutation_p.C505S|CYFIP2_uc011ddo.1_Missense_Mutation_p.C335S|CYFIP2_uc003lwr.2_Missense_Mutation_p.C531S|CYFIP2_uc003lws.2_Missense_Mutation_p.C531S|CYFIP2_uc003lwt.2_Missense_Mutation_p.C409S|CYFIP2_uc011ddp.1_Missense_Mutation_p.C265S	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	531					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)			AATGACCCATGCTTGAGAGGG	0.582													18	24	---	---	---	---	PASS	C	156747731	C	C	156747731	3	2	175	1	0	0	0	0	1	0	0	0	4138	1319	46	4	1646	4	CYFIP2	5	156747731	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	154935	156747731	24167529	49	62314										
SLIT3	6586	broad.mit.edu	37	chr5	168096991	168096991	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ttgccacacattttccatggTggcatctaggggcagagagg	13	9	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr5:168096991T>A	uc003mab.2	-	35	4553	c.4133A>T	c.(4132-4134)CAC>CTC	p.H1378L	SLIT3_uc010jjg.2_Missense_Mutation_p.H1385L	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	1378	EGF-like 8.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TTTTCCATGGTGGCATCTAGG	0.577													19	17	---	---	---	---	PASS	A	168096991	A	A	168096991	3	1	175	1	0	0	0	0	1	0	0	0	14741	1696	59	5	446	5	SLIT3	5	168096991	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	11349260	168096991	12818269	50	62315										
TRIM7	81786	broad.mit.edu	37	chr5	180625213	180625213	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tttctccagctctccccgaaGgtcctctgaggaggagaaac	10	13	3	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr5:180625213G>T	uc003mmz.1	-	6	1061	c.994C>A	c.(994-996)CTT>ATT	p.L332I	TRIM7_uc003mmv.1_Missense_Mutation_p.L150I|TRIM7_uc003mmw.1_Missense_Mutation_p.L124I|TRIM7_uc003mmx.1_Missense_Mutation_p.L124I|TRIM7_uc003mmy.1_Missense_Mutation_p.L124I	NM_203293	NP_976038	Q9C029	TRIM7_HUMAN	tripartite motif-containing 7 isoform 1	332	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;6.03e-06)|all_epithelial(37;7.1e-07)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000172)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;2e-06)|Epithelial(171;1.35e-05)|OV - Ovarian serous cystadenocarcinoma(192;0.000128)|Kidney(146;0.0674)|GBM - Glioblastoma multiforme(465;0.0802)		TCTCCCCGAAGGTCCTCTGAG	0.522													11	16	---	---	---	---	PASS	T	180625213	T	T	180625213	3	4	175	1	0	0	0	0	1	0	0	0	16540	1000	35	3	549	3	TRIM7	5	180625213	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	12528222	180625213	290047	51	62316										
UHRF1BP1	54887	broad.mit.edu	37	chr6	34838857	34838857	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	atcccggtggtagtccccatGcagattgagcttctgaactc	10	12	1	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr6:34838857G>C	uc003oju.3	+	18	4179	c.3945G>C	c.(3943-3945)ATG>ATC	p.M1315I	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	1315										ovary(3)	3						TAGTCCCCATGCAGATTGAGC	0.512													160	8	---	---	---	---	PASS	C	34838857	C	C	34838857	3	2	175	1	0	0	0	0	1	0	0	0	16965	1319	46	4	4015	4	UHRF1BP1	6	34838857	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08		34838857	136276210	52	62317										
CRISP3	10321	broad.mit.edu	37	chr6	49696477	49696477	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ttgaacaattgcaggaggccTtgcaactgtccctgaccaac	9	12	0	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr6:49696477T>A	uc003ozs.2	-	8	719	c.704A>T	c.(703-705)AAG>ATG	p.K235M		NM_006061	NP_006052	P54108	CRIS3_HUMAN	cysteine-rich secretory protein 3 precursor	235					innate immune response	proteinaceous extracellular matrix|specific granule				skin(2)	2	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			GCAGGAGGCCTTGCAACTGTC	0.403													195	8	---	---	---	---	PASS	A	49696477	A	A	49696477	3	1	175	1	0	0	0	0	1	0	0	0	3881	1609	56	5	37	5	CRISP3	6	49696477	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	14857620	49696477	121418590	53	62318										
KIAA1009	22832	broad.mit.edu	37	chr6	84865079	84865079	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ctttgcatcttcatctttgcCctccagatcagcttctagct	5	14	5	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr6:84865079C>T	uc010kbp.2	-	22	3029	c.2932G>A	c.(2932-2934)GGC>AGC	p.G978S	KIAA1009_uc003pkj.3_Missense_Mutation_p.G902S|KIAA1009_uc003pki.3_Missense_Mutation_p.G364S	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	978	Potential.				cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		TCATCTTTGCCCTCCAGATCA	0.393													28	206	---	---	---	---	PASS	T	84865079	T	T	84865079	3	4	175	1	0	0	0	0	1	0	0	0	8203	623	22	3	1303	3	KIAA1009	6	84865079	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	35168602	84865079	86249988	54	62319										
FYN	2534	broad.mit.edu	37	chr6	111995783	111995783	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gtcagacttgattgtgaaccTcccgtacagggctgcctcgg	12	12	1	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr6:111995783T>C	uc003pvj.2	-	12	1664	c.1324A>G	c.(1324-1326)AGG>GGG	p.R442G	FYN_uc003pvi.2_Missense_Mutation_p.R387G|FYN_uc003pvk.2_Missense_Mutation_p.R442G|FYN_uc003pvh.2_Missense_Mutation_p.R439G	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	442	Protein kinase.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	ATTGTGAACCTCCCGTACAGG	0.537													102	16	---	---	---	---	PASS	C	111995783	C	C	111995783	3	2	175	1	0	0	0	0	1	0	0	0	6126	1550	54	5	297	5	FYN	6	111995783	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	27130704	111995783	59119284	55	62320										
PDE7B	27115	broad.mit.edu	37	chr6	136468511	136468511	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	acaacatactcaggggagatTggcaccaagaaaaaggtgaa	11	7	1	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr6:136468511T>C	uc003qgp.2	+	4	492	c.189T>C	c.(187-189)ATT>ATC	p.I63I	uc003qgq.1_Intron|PDE7B_uc003qgr.2_Silent_p.I115I	NM_018945	NP_061818	Q9NP56	PDE7B_HUMAN	phosphodiesterase 7B	63					signal transduction|synaptic transmission	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(1)	1	Colorectal(23;0.24)			OV - Ovarian serous cystadenocarcinoma(155;0.0136)|GBM - Glioblastoma multiforme(68;0.0147)	Dyphylline(DB00651)|Ketotifen(DB00920)	CAGGGGAGATTGGCACCAAGA	0.388													80	12	---	---	---	---	PASS	C	136468511	C	C	136468511	2	2	175	1	0	0	0	0	0	0	0	1	11652	1800	63	5		5	PDE7B	6	136468511	Silent	SNP	T	TCGA-70-6723-01A-11D-1817-08	24472728	136468511	34646556	56	62321										
FOXK1	221937	broad.mit.edu	37	chr7	4798980	4798980	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	agccagtgatcatggccgtgCctccccgaccgtccagcctc	10	18	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr7:4798980C>G	uc003snc.1	+	7	1460	c.1450C>G	c.(1450-1452)CCT>GCT	p.P484A	FOXK1_uc003sna.1_Missense_Mutation_p.P321A	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	forkhead box K1	484					cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|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			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		CATGGCCGTGCCTCCCCGACC	0.677													5	7	---	---	---	---	PASS	G	4798980	G	G	4798980	3	3	175	1	0	0	0	0	1	0	0	0	6014	739	26	4	1476	4	FOXK1	7	4798980	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08		4798980	154339683	57	62322										
PDE1C	5137	broad.mit.edu	37	chr7	31855724	31855724	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ttccttttgctgctcctctgCggccaggcgagccttttcct	9	15	1	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr7:31855724C>A	uc003tcm.1	-	15	2096	c.1627G>T	c.(1627-1629)GCA>TCA	p.A543S	PDE1C_uc003tcn.1_Missense_Mutation_p.A543S|PDE1C_uc003tco.1_Missense_Mutation_p.A603S|PDE1C_uc003tcr.2_Missense_Mutation_p.A543S|PDE1C_uc003tcs.2_Missense_Mutation_p.A543S	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	543					activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			TGCTCCTCTGCGGCCAGGCGA	0.502													40	79	---	---	---	---	PASS	A	31855724	A	A	31855724	3	1	175	1	0	0	0	0	1	0	0	0	11635	768	27	1	289	1	PDE1C	7	31855724	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	27056744	31855724	127282939	58	62323										
CDHR3	222256	broad.mit.edu	37	chr7	105671280	105671280	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tctttgatggagaagccataGatccaggtaattaagtggca	11	6	1	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr7:105671280G>T	uc003vdl.3	+	18	2455	c.2347G>T	c.(2347-2349)GAT>TAT	p.D783Y	CDHR3_uc003vdk.2_3'UTR|CDHR3_uc003vdm.3_Missense_Mutation_p.D770Y|CDHR3_uc011klt.1_Missense_Mutation_p.D695Y|CDHR3_uc003vdn.2_3'UTR	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	783	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						AGAAGCCATAGATCCAGGTAA	0.408													6	40	---	---	---	---	PASS	T	105671280	T	T	105671280	3	4	175	1	0	0	0	0	1	0	0	0	3120	942	33	2	2417	2	CDHR3	7	105671280	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	73815556	105671280	53467383	59	62324										
IQUB	154865	broad.mit.edu	37	chr7	123142697	123142697	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ctgctgctgaaaaatactttCctggtgttaccagtttatca	7	9	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr7:123142697C>T	uc003vkn.2	-	6	1554	c.977G>A	c.(976-978)GGA>GAA	p.G326E	IQUB_uc003vko.2_Missense_Mutation_p.G326E|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Missense_Mutation_p.G326E|IQUB_uc003vkq.2_3'UTR	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	326										ovary(3)|large_intestine(1)	4						AAAATACTTTCCTGGTGTTAC	0.328													23	57	---	---	---	---	PASS	T	123142697	T	T	123142697	3	4	175	1	0	0	0	0	1	0	0	0	7820	855	30	2	1430	2	IQUB	7	123142697	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	17471417	123142697	35995966	60	62325										
PRSS1	5644	broad.mit.edu	37	chr7	142458536	142458536	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tccctcatcaacgaacagtgGgtggtatcagcaggccactg	11	12	3	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr7:142458536G>T	uc003wak.2	+	2	188	c.171G>T	c.(169-171)TGG>TGT	p.W57C	uc011krr.1_Intron|uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|TRY6_uc011ksn.1_Intron|PRSS1_uc011ksm.1_Missense_Mutation_p.G33C|PRSS1_uc003wam.2_5'Flank	NM_002769	NP_002760	P07477	TRY1_HUMAN	protease, serine, 1 preproprotein	57	Peptidase S1.				digestion|proteolysis	extracellular space	metal ion binding|protein binding|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)			ACGAACAGTGGGTGGTATCAG	0.587									Hereditary_Pancreatitis				63	76	---	---	---	---	PASS	T	142458536	T	T	142458536	3	4	175	1	0	0	0	0	1	0	0	0	12614	1241	43	3	177	3	PRSS1	7	142458536	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	19315839	142458536	16680127	61	62326										
RPS20	6224	broad.mit.edu	37	chr8	56985729	56985729	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ctgcttaacaatctcagaagGactgtgcaagtcaatgagtc	9	9	2	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr8:56985729G>C	uc003xsn.2	-	4	478	c.280C>G	c.(280-282)CCT>GCT	p.P94A	RPS20_uc003xsm.2_Missense_Mutation_p.P94A	NM_001023	NP_001014	P60866	RS20_HUMAN	ribosomal protein S20 isoform 2	94					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.155)	Epithelial(17;0.00117)|all cancers(17;0.00879)			ATCTCAGAAGGACTGTGCAAG	0.398													17	93	---	---	---	---	PASS	C	56985729	C	C	56985729	3	2	175	1	0	0	0	0	1	0	0	0	13632	1174	41	2	183	2	RPS20	8	56985729	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08		56985729	89378293	62	62327										
OXR1	55074	broad.mit.edu	37	chr8	107719314	107719314	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	acagcaaagggaaaatattcAacaagtgtcacaaaaagaag	8	6	2	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr8:107719314A>G	uc011lht.1	+	8	1667	c.1568A>G	c.(1567-1569)CAA>CGA	p.Q523R	OXR1_uc003ymf.2_Missense_Mutation_p.Q522R|OXR1_uc011lhu.1_Missense_Mutation_p.Q515R|OXR1_uc010mcg.2_Intron|OXR1_uc010mch.2_Missense_Mutation_p.Q220R|OXR1_uc003ymg.1_Missense_Mutation_p.Q455R|OXR1_uc003ymi.1_Missense_Mutation_p.Q434R	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	523					cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			GAAAATATTCAACAAGTGTCA	0.363													24	30	---	---	---	---	PASS	G	107719314	G	G	107719314	3	3	175	1	0	0	0	0	1	0	0	0	11334	130	5	5	1798	5	OXR1	8	107719314	Missense_Mutation	SNP	A	TCGA-70-6723-01A-11D-1817-08	50733585	107719314	38644708	63	62328										
CSMD3	114788	broad.mit.edu	37	chr8	113256656	113256656	+	Missense_Mutation	SNP	T	A	A													0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	aacttttccagtccaggtgtTatcggatctacacactctat							TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr8:113256656T>A	uc003ynu.2	-	65	10528	c.10369A>T	c.(10369-10371)AAC>TAC	p.N3457Y	CSMD3_uc003yns.2_Missense_Mutation_p.N2659Y|CSMD3_uc003ynt.2_Missense_Mutation_p.N3417Y|CSMD3_uc011lhx.1_Missense_Mutation_p.N3288Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3457	Extracellular (Potential).|Sushi 28.					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						GTCCAGGTGTTATCGGATCTA	0.408										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			40	31	---	---	---	---	PASS	A	113256656	A	A	113256656	3	1	175	1	0	0	0	0	1	0	0	0	3946	1754	61	5	782	5	CSMD3	8	113256656	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	5537342	113256656	33107366	64	62329	1078	2								
CSMD3	114788	broad.mit.edu	37	chr8	113256659	113256659	+	Missense_Mutation	SNP	C	G	G													0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ttttccagtccaggtgttatCggatctacacactctatgtt							TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr8:113256659C>G	uc003ynu.2	-	65	10525	c.10366G>C	c.(10366-10368)GAT>CAT	p.D3456H	CSMD3_uc003yns.2_Missense_Mutation_p.D2658H|CSMD3_uc003ynt.2_Missense_Mutation_p.D3416H|CSMD3_uc011lhx.1_Missense_Mutation_p.D3287H	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3456	Extracellular (Potential).|Sushi 28.					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						CAGGTGTTATCGGATCTACAC	0.418										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			39	31	---	---	---	---	PASS	G	113256659	G	G	113256659	3	3	175	1	0	0	0	0	1	0	0	0	3946	884	31	2	785	2	CSMD3	8	113256659	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	3	113256659	33107363	65	62330	1078	2								
WDR67	93594	broad.mit.edu	37	chr8	124132320	124132320	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tatctgcattagctcactggTctgtcatttttagtgacaca	7	9	4	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr8:124132320T>A	uc003ypp.1	+	11	1552	c.1462T>A	c.(1462-1464)TCT>ACT	p.S488T	WDR67_uc011lig.1_Missense_Mutation_p.S488T|WDR67_uc011lih.1_Missense_Mutation_p.S378T|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Missense_Mutation_p.S201T	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	488	Rab-GAP TBC.					centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			AGCTCACTGGTCTGTCATTTT	0.294													37	26	---	---	---	---	PASS	A	124132320	A	A	124132320	3	1	175	1	0	0	0	0	1	0	0	0	17315	1667	58	5	1504	5	WDR67	8	124132320	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	10875661	124132320	22231702	66	62331										
PHF20L1	51105	broad.mit.edu	37	chr8	133844622	133844622	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	cagtacccaagggcaattctAtccgttgatcttagtggtga	10	9	2	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr8:133844622A>G	uc003ytt.2	+	15	2212	c.1887A>G	c.(1885-1887)CTA>CTG	p.L629L	PHF20L1_uc011lja.1_Silent_p.L603L	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	629							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			GGGCAATTCTATCCGTTGATC	0.403													13	83	---	---	---	---	PASS	G	133844622	G	G	133844622	2	3	175	1	0	0	0	0	0	0	0	1	11832	436	16	5		5	PHF20L1	8	133844622	Silent	SNP	A	TCGA-70-6723-01A-11D-1817-08	9712302	133844622	12519400	67	62332										
FAM154A	158297	broad.mit.edu	37	chr9	18950777	18950777	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ttgatgtagtcaggccttccAttggtataggccctttctgg	11	9	2	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr9:18950777A>G	uc003zni.1	-	2	475	c.197T>C	c.(196-198)ATG>ACG	p.M66T	FAM154A_uc010mip.1_5'UTR	NM_153707	NP_714918	Q8IYX7	F154A_HUMAN	hypothetical protein LOC158297	66										pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.53e-16)		CAGGCCTTCCATTGGTATAGG	0.443													116	17	---	---	---	---	PASS	G	18950777	G	G	18950777	3	3	175	1	0	0	0	0	1	0	0	0	5463	217	8	5	1239	5	FAM154A	9	18950777	Missense_Mutation	SNP	A	TCGA-70-6723-01A-11D-1817-08		18950777	122262654	68	62333										
FRMPD1	22844	broad.mit.edu	37	chr9	37729734	37729734	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gtgcctgctaggacatcatcCtcaccgtgaaggagaagctg	12	11	2	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr9:37729734C>A	uc004aag.1	+	8	666	c.622C>A	c.(622-624)CTC>ATC	p.L208I	FRMPD1_uc004aah.1_Missense_Mutation_p.L208I|FRMPD1_uc011lqm.1_Missense_Mutation_p.L30I|FRMPD1_uc011lqn.1_Missense_Mutation_p.L77I	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	208	FERM.					cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		GGACATCATCCTCACCGTGAA	0.557													73	14	---	---	---	---	PASS	A	37729734	A	A	37729734	3	1	175	1	0	0	0	0	1	0	0	0	6057	681	24	3	648	3	FRMPD1	9	37729734	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	18778957	37729734	103483697	69	62334										
PAPPA	5069	broad.mit.edu	37	chr9	118997489	118997489	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	caaattcagctgtcaacccaCacacggttcctccagcctgc	6	17	2	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr9:118997489C>T	uc004bjn.2	+	7	2686	c.2305C>T	c.(2305-2307)CAC>TAC	p.H769Y	PAPPA_uc011lxp.1_Missense_Mutation_p.H464Y|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	769					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						TGTCAACCCACACACGGTTCC	0.552													94	43	---	---	---	---	PASS	T	118997489	T	T	118997489	3	4	175	1	0	0	0	0	1	0	0	0	11432	478	17	3	2331	3	PAPPA	9	118997489	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	81267755	118997489	22215942	70	62335										
LCN2	3934	broad.mit.edu	37	chr9	130911868	130911868	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ctctgcatgcccaggcccagGactccacctcagacctgatc	8	18	2	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr9:130911868G>T	uc004bto.1	+	1	137	c.64G>T	c.(64-66)GAC>TAC	p.D22Y	LCN2_uc010mxq.1_Missense_Mutation_p.D22Y|LCN2_uc011map.1_Missense_Mutation_p.D22Y	NM_005564	NP_005555	P80188	NGAL_HUMAN	lipocalin 2 precursor	22					apoptosis|innate immune response|regulation of apoptosis|siderophore transport		iron ion binding|transporter activity				0						CCAGGCCCAGGACTCCACCTC	0.637													27	70	---	---	---	---	PASS	T	130911868	T	T	130911868	3	4	175	1	0	0	0	0	1	0	0	0	8684	1174	41	2	66	2	LCN2	9	130911868	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	11914379	130911868	10301563	71	62336										
ITIH5	80760	broad.mit.edu	37	chr10	7682733	7682733	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ttacccattttcttctgtggTtttattccttttctctttta	3	9	3	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr10:7682733T>G	uc001ijq.2	-	4	464	c.385A>C	c.(385-387)ACC>CCC	p.T129P	ITIH5_uc001ijr.1_Missense_Mutation_p.T129P	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	129	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						TCTTCTGTGGTTTTATTCCTT	0.373													46	50	---	---	---	---	PASS	G	7682733	G	G	7682733	3	3	175	1	0	0	0	0	1	0	0	0	7907	1725	60	5	2624	5	ITIH5	10	7682733	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08		7682733	127852014	72	62337										
GAD2	2572	broad.mit.edu	37	chr10	26589812	26589812	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gtcaatttcttccgcatggtCatctcaaacccagcggcaac	7	14	4	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr10:26589812C>A	uc001isp.2	+	16	2183	c.1680C>A	c.(1678-1680)GTC>GTA	p.V560V	GAD2_uc001isq.2_Silent_p.V560V	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	560					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	TCCGCATGGTCATCTCAAACC	0.458													50	68	---	---	---	---	PASS	A	26589812	A	A	26589812	2	1	175	1	0	0	0	0	0	0	0	1	6180	813	29	2		2	GAD2	10	26589812	Silent	SNP	C	TCGA-70-6723-01A-11D-1817-08	18907079	26589812	108944935	73	62338										
CDHR1	92211	broad.mit.edu	37	chr10	85973973	85973973	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tctccaccgccaccttctggCgcaacaagaagtctaacaag	7	15	3	1	rs141706561		TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr10:85973973C>T	uc001kcv.2	+	17	2176	c.2176C>T	c.(2176-2178)CGC>TGC	p.R726C	CDHR1_uc001kcw.2_Intron|CDHR1_uc009xst.2_Missense_Mutation_p.R430C|CDHR1_uc001kcx.2_Missense_Mutation_p.R40C	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	726	Cytoplasmic (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						CACCTTCTGGCGCAACAAGAA	0.637													20	47	---	---	---	---	PASS	T	85973973	T	T	85973973	3	4	175	1	0	0	0	0	1	0	0	0	3118	768	27	1	2242	1	CDHR1	10	85973973	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	59384161	85973973	49560774	74	62339										
NOLC1	9221	broad.mit.edu	37	chr10	103917285	103917285	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tccagtgatgatgatgatgaGgaggaccaaaagaaacagcc	12	7	0	6			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr10:103917285G>C	uc001kuo.2	+	4	649	c.414G>C	c.(412-414)GAG>GAC	p.E138D	NOLC1_uc001kup.2_Missense_Mutation_p.E138D|NOLC1_uc001kuq.2_Missense_Mutation_p.E139D|NOLC1_uc009xxb.1_5'UTR|NOLC1_uc001kur.2_Intron	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	138	11 X 12 AA approximate repeats of an acidic serine cluster.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		ATGATGATGAGGAGGACCAAA	0.493													12	18	---	---	---	---	PASS	C	103917285	C	C	103917285	3	2	175	1	0	0	0	0	1	0	0	0	10529	991	35	4	428	4	NOLC1	10	103917285	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	17943312	103917285	31617462	75	62340										
MUC5B	727897	broad.mit.edu	37	chr11	1262892	1262892	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tgctacaactacaggatccgGgtcctctgctgcagtgacga	11	12	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr11:1262892G>A	uc009ycr.1	+	47	6987	c.6861G>A	c.(6859-6861)CGG>CGA	p.R2287R	MUC5B_uc001ltb.2_Silent_p.R1597R	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1594	7 X Cys-rich subdomain repeats.|Cys-rich subdomain 2.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACAGGATCCGGGTCCTCTGCT	0.637													10	1	---	---	---	---	PASS	A	1262892	A	A	1262892	2	1	175	1	0	0	0	0	0	0	0	1	9979	1219	43	3		3	MUC5B	11	1262892	Silent	SNP	G	TCGA-70-6723-01A-11D-1817-08		1262892	133743624	76	62341										
HBB	3043	broad.mit.edu	37	chr11	5247920	5247920	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	atcactaaaggcaccgagcaCtttcttgccatgagccttca	7	13	3	1	rs36008922		TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr11:5247920C>A	uc001mae.1	-	2	252	c.202G>T	c.(202-204)GTG>TTG	p.V68L		NM_000518	NP_000509	P68871	HBB_HUMAN	beta globin	68			V -> D (in Bristol).|V -> A (in Sydney; unstable).|V -> M (in Alesha; unstable).		blood coagulation|hydrogen peroxide catabolic process|nitric oxide transport|positive regulation of cell death|positive regulation of nitric oxide biosynthetic process|protein heterooligomerization|regulation of blood pressure|regulation of blood vessel size	haptoglobin-hemoglobin complex|hemoglobin complex	heme binding|hemoglobin binding|oxygen binding|oxygen transporter activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)	Iron Dextran(DB00893)	GCACCGAGCACTTTCTTGCCA	0.552									Sickle_Cell_Trait				87	13	---	---	---	---	PASS	A	5247920	A	A	5247920	3	1	175	1	0	0	0	0	1	0	0	0	6978	565	20	3	249	3	HBB	11	5247920	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	3985028	5247920	129758596	77	62342										
C11orf16	56673	broad.mit.edu	37	chr11	8950936	8950936	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ggacttgcctcgggagtggcCtttatttgggcccggtagta	15	9	0	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr11:8950936C>A	uc001mhb.3	-	3	436	c.312G>T	c.(310-312)AAG>AAT	p.K104N	C11orf16_uc001mhc.3_Missense_Mutation_p.K104N	NM_020643	NP_065694	Q9NQ32	CK016_HUMAN	hypothetical protein LOC56673	104										upper_aerodigestive_tract(1)|pancreas(1)	2				Epithelial(150;4.11e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0234)		CGGGAGTGGCCTTTATTTGGG	0.577													3	45	---	---	---	---	PASS	A	8950936	A	A	8950936	3	1	175	1	0	0	0	0	1	0	0	0	1631	680	24	3	1107	3	C11orf16	11	8950936	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	3703016	8950936	126055580	78	62343										
OR1S1	219959	broad.mit.edu	37	chr11	57982553	57982553	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	cttatgagagctgcatcacaCagatgtacttttctattgtg	8	8	2	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr11:57982553C>A	uc010rkc.1	+	1	337	c.337C>A	c.(337-339)CAG>AAG	p.Q113K		NM_001004458	NP_001004458	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S,	113	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Breast(21;0.0589)				CTGCATCACACAGATGTACTT	0.428													66	49	---	---	---	---	PASS	A	57982553	A	A	57982553	3	1	175	1	0	0	0	0	1	0	0	0	10972	479	17	3	339	3	OR1S1	11	57982553	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	49031617	57982553	77023963	79	62344										
OR10Q1	219960	broad.mit.edu	37	chr11	57995570	57995570	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	acgcaggtacacgaggctgcAgcagccatactgcagcagga	13	12	0	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr11:57995570A>T	uc010rkd.1	-	1	778	c.778T>A	c.(778-780)TGC>AGC	p.C260S		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	260	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				ACGAGGCTGCAGCAGCCATAC	0.617													22	44	---	---	---	---	PASS	T	57995570	T	T	57995570	3	4	175	1	0	0	0	0	1	0	0	0	10916	188	7	5	185	5	OR10Q1	11	57995570	Missense_Mutation	SNP	A	TCGA-70-6723-01A-11D-1817-08	13017	57995570	77010946	80	62345										
UBXN1	51035	broad.mit.edu	37	chr11	62445480	62445480	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	cttcctgtagccgctgtcgtGctgctgacaactcttgccct	9	15	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr11:62445480G>A	uc001nul.1	-	5	533	c.401C>T	c.(400-402)GCA>GTA	p.A134V	UBXN1_uc001nuj.2_Missense_Mutation_p.A134V|UBXN1_uc001num.1_Missense_Mutation_p.A134V|UBXN1_uc001nuk.2_Missense_Mutation_p.A99V|UBXN1_uc010rme.1_Missense_Mutation_p.A134V|UBXN1_uc010rmf.1_3'UTR	NM_015853	NP_056937	Q04323	UBXN1_HUMAN	UBX domain protein 1	134	Potential.|Interaction with BRCA1.				negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process	cytoplasm	ATPase binding|K6-linked polyubiquitin binding				0						CCGCTGTCGTGCTGCTGACAA	0.617													15	58	---	---	---	---	PASS	A	62445480	A	A	62445480	3	1	175	1	0	0	0	0	1	0	0	0	16908	1319	46	3	553	3	UBXN1	11	62445480	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	4449910	62445480	72561036	81	62346										
CCDC88B	283234	broad.mit.edu	37	chr11	64111617	64111617	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ggccttggacttggctccccCggcattagactcagtgctcg	12	14	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr11:64111617C>T	uc001nzy.2	+	14	1648	c.1604C>T	c.(1603-1605)CCG>CTG	p.P535L	CCDC88B_uc009ypo.1_Missense_Mutation_p.P532L|CCDC88B_uc001nzz.1_Missense_Mutation_p.P184L	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	535					microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						TTGGCTCCCCCGGCATTAGAC	0.632													14	109	---	---	---	---	PASS	T	64111617	T	T	64111617	3	4	175	1	0	0	0	0	1	0	0	0	2864	652	23	1	1658	1	CCDC88B	11	64111617	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	1666137	64111617	70894899	82	62347										
KDM2A	22992	broad.mit.edu	37	chr11	66995566	66995566	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gtgttggtatgtgttggagcGctatgtgtactgcataacca	13	6	0	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr11:66995566G>A	uc001ojw.2	+	11	1880	c.1016G>A	c.(1015-1017)CGC>CAC	p.R339H	KDM2A_uc001ojx.2_RNA|KDM2A_uc001ojy.2_Missense_Mutation_p.R33H	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	339					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	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|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						GTGTTGGAGCGCTATGTGTAC	0.408													6	311	---	---	---	---	PASS	A	66995566	A	A	66995566	3	1	175	1	0	0	0	0	1	0	0	0	8124	1087	38	1	1054	1	KDM2A	11	66995566	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	2883949	66995566	68010950	83	62348										
PGM2L1	283209	broad.mit.edu	37	chr11	74049611	74049611	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	cagccattttgaaaagtaaaTgtaatcatttggctgttttt	7	5	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr11:74049611T>C	uc001ovb.1	-	13	1964	c.1668A>G	c.(1666-1668)ACA>ACG	p.T556T		NM_173582	NP_775853	Q6PCE3	PGM2L_HUMAN	phosphoglucomutase 2-like 1	556					glucose 1-phosphate metabolic process	cytosol	glucose-1,6-bisphosphate synthase activity|phosphoglucomutase activity			ovary(1)	1	Breast(11;3.32e-06)					GAAAAGTAAATGTAATCATTT	0.383													33	87	---	---	---	---	PASS	C	74049611	C	C	74049611	2	2	175	1	0	0	0	0	0	0	0	1	11799	1451	51	5		5	PGM2L1	11	74049611	Silent	SNP	T	TCGA-70-6723-01A-11D-1817-08	7054045	74049611	60956905	84	62349										
MYO7A	4647	broad.mit.edu	37	chr11	76867112	76867112	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	acttcaacatgaaacgcaacAgccgagaccagtgctgcatc	8	13	1	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr11:76867112A>G	uc001oyb.2	+	5	717	c.445A>G	c.(445-447)AGC>GGC	p.S149G	MYO7A_uc010rsl.1_Missense_Mutation_p.S149G|MYO7A_uc010rsm.1_Missense_Mutation_p.S138G|MYO7A_uc001oyc.2_Missense_Mutation_p.S149G	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	149	Myosin head-like.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						GAAACGCAACAGCCGAGACCA	0.562													30	1	---	---	---	---	PASS	G	76867112	G	G	76867112	3	3	175	1	0	0	0	0	1	0	0	0	10082	188	7	5	459	5	MYO7A	11	76867112	Missense_Mutation	SNP	A	TCGA-70-6723-01A-11D-1817-08	2817501	76867112	58139404	85	62350										
ZC3H12C	85463	broad.mit.edu	37	chr11	110036409	110036409	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ggaatcctcacatgacagacGcccagcagctcgccgcagcc	10	17	1	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr11:110036409G>A	uc009yxw.2	+	6	2650	c.2599G>A	c.(2599-2601)GCC>ACC	p.A867T	ZC3H12C_uc010rwc.1_Missense_Mutation_p.A868T|ZC3H12C_uc010rwd.1_Missense_Mutation_p.A868T|ZC3H12C_uc001pkr.3_Missense_Mutation_p.A836T	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	867							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)		CATGACAGACGCCCAGCAGCT	0.428													3	8	---	---	---	---	PASS	A	110036409	A	A	110036409	3	1	175	1	0	0	0	0	1	0	0	0	17560	1087	38	1	2621	1	ZC3H12C	11	110036409	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	33169297	110036409	24970107	86	62351										
DSCAML1	57453	broad.mit.edu	37	chr11	117389387	117389387	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	cccaggtgaccgtggggggcGgggcgcccttggccgcacac	18	15	0	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr11:117389387G>T	uc001prh.1	-	7	1486	c.1484C>A	c.(1483-1485)CCG>CAG	p.P495Q	DSCAML1_uc001pri.1_Missense_Mutation_p.P299Q	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	435	Extracellular (Potential).|Ig-like C2-type 5.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CGTGGGGGGCGGGGCGCCCTT	0.672													3	43	---	---	---	---	PASS	T	117389387	T	T	117389387	3	4	175	1	0	0	0	0	1	0	0	0	4769	1116	39	1	4965	1	DSCAML1	11	117389387	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	7352978	117389387	17617129	87	62352										
AKAP3	10566	broad.mit.edu	37	chr12	4737325	4737325	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tggcataatctccattacgaGattcaaacacttccttatag	5	10	2	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr12:4737325G>A	uc001qnb.3	-	4	972	c.743C>T	c.(742-744)TCT>TTT	p.S248F		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	248					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						TCCATTACGAGATTCAAACAC	0.458													73	47	---	---	---	---	PASS	A	4737325	A	A	4737325	3	1	175	1	0	0	0	0	1	0	0	0	452	942	33	2	1826	2	AKAP3	12	4737325	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08		4737325	129114570	88	62353										
CSDA	8531	broad.mit.edu	37	chr12	10868337	10868337	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ctctacagtttctccatctcCtacactgcgcagatatttcc	4	15	3	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr12:10868337C>T	uc001qyt.2	-	4	649	c.406G>A	c.(406-408)GGA>AGA	p.G136R	CSDA_uc001qyu.2_Missense_Mutation_p.G136R	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	136	CSD.				negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					TCTCCATCTCCTACACTGCGC	0.408													81	61	---	---	---	---	PASS	T	10868337	T	T	10868337	3	4	175	1	0	0	0	0	1	0	0	0	3927	690	24	3	736	3	CSDA	12	10868337	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	6131012	10868337	122983558	89	62354										
MLL2	8085	broad.mit.edu	37	chr12	49444814	49444814	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	aaggatggttccccagggggAgggaacaagggcagctcctc	16	10	0	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr12:49444814A>G	uc001rta.3	-	10	2652	c.2652T>C	c.(2650-2652)CCT>CCC	p.P884P		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	884	Pro-rich.			Missing (in Ref. 1; AAC51734).	chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CCCCAGGGGGAGGGAACAAGG	0.642			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			3	119	---	---	---	---	PASS	G	49444814	G	G	49444814	2	3	175	1	0	0	0	0	0	0	0	1	9621	291	11	5		5	MLL2	12	49444814	Silent	SNP	A	TCGA-70-6723-01A-11D-1817-08	38576477	49444814	84407081	90	62355										
C12orf51	283450	broad.mit.edu	37	chr12	112685957	112685957	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	aacttcactttgccatttttGttccagttctgcaacactct	4	12	3	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr12:112685957G>A	uc009zwc.2	-	20	2914	c.2896C>T	c.(2896-2898)CAA>TAA	p.Q966*		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TGCCATTTTTGTTCCAGTTCT	0.299													24	10	---	---	---	---	PASS	A	112685957	A	A	112685957	4	1	175	1	0	0	0	0	0	1	0	0	1696	1386	48	3	9294	3	C12orf51	12	112685957	Nonsense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	63241143	112685957	21165938	91	62356										
MCF2L	23263	broad.mit.edu	37	chr13	113740555	113740555	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tgcacctcatcgctatcaccGgctatgacgtaaggcgccca	9	15	2	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr13:113740555G>T	uc001vsu.2	+	21	2558	c.2536G>T	c.(2536-2538)GGC>TGC	p.G846C	MCF2L_uc001vsq.2_Missense_Mutation_p.G846C|MCF2L_uc010tjr.1_Missense_Mutation_p.G789C|MCF2L_uc001vsr.2_Missense_Mutation_p.G793C|MCF2L_uc001vss.3_Missense_Mutation_p.G787C|MCF2L_uc010tjs.1_Missense_Mutation_p.G787C|MCF2L_uc001vst.1_Missense_Mutation_p.G751C	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	819					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				CGCTATCACCGGCTATGACGT	0.652													21	42	---	---	---	---	PASS	T	113740555	T	T	113740555	3	4	175	1	0	0	0	0	1	0	0	0	9379	1116	39	1	2713	1	MCF2L	13	113740555	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08		113740555	1429323	92	62357										
OR4K14	122740	broad.mit.edu	37	chr14	20483135	20483135	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gagtggcaaatgaggccagcCacatgtccaggaaagctagg	14	9	0	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr14:20483135C>A	uc010tky.1	-	1	218	c.218G>T	c.(217-219)TGG>TTG	p.W73L		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	73	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		TGAGGCCAGCCACATGTCCAG	0.478													48	34	---	---	---	---	PASS	A	20483135	A	A	20483135	3	1	175	1	0	0	0	0	1	0	0	0	11069	595	21	3	717	3	OR4K14	14	20483135	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08		20483135	86866405	93	62358										
KIAA1409	57578	broad.mit.edu	37	chr14	94053012	94053012	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	acattgagactaatatatacCattttccaggtatattttct	4	7	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr14:94053012C>T	uc001ybv.1	+	18	2426	c.2343C>T	c.(2341-2343)ACC>ACT	p.T781T	KIAA1409_uc001ybs.1_Silent_p.T781T	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	958						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TAATATATACCATTTTCCAGG	0.328													52	8	---	---	---	---	PASS	T	94053012	T	T	94053012	2	4	175	1	0	0	0	0	0	0	0	1	8230	581	21	3		3	KIAA1409	14	94053012	Silent	SNP	C	TCGA-70-6723-01A-11D-1817-08	73569877	94053012	13296528	94	62359										
OR4M2	390538	broad.mit.edu	37	chr15	22369023	22369023	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tcctggtggctctctcctggAgggggggcttcattcattct	13	11	4	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr15:22369023A>T	uc010tzu.1	+	1	448	c.448A>T	c.(448-450)AGG>TGG	p.R150W	LOC727924_uc001yua.2_RNA|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TCTCTCCTGGAGGGGGGGCTT	0.498													47	472	---	---	---	---	PASS	T	22369023	T	T	22369023	3	4	175	1	0	0	0	0	1	0	0	0	11076	295	11	5	450	5	OR4M2	15	22369023	Missense_Mutation	SNP	A	TCGA-70-6723-01A-11D-1817-08		22369023	80162369	95	62360										
OR4N4	283694	broad.mit.edu	37	chr15	22382725	22382725	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ctcccaggatgttggtggacTtcctctctgagaaaaaggta	11	9	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr15:22382725T>A	uc001yuc.1	+	7	1234	c.253T>A	c.(253-255)TTC>ATC	p.F85I	LOC727924_uc001yub.1_RNA|OR4N4_uc010tzv.1_Missense_Mutation_p.F85I	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GTTGGTGGACTTCCTCTCTGA	0.507													36	339	---	---	---	---	PASS	A	22382725	A	A	22382725	3	1	175	1	0	0	0	0	1	0	0	0	11078	1609	56	5	255	5	OR4N4	15	22382725	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	13702	22382725	80148667	96	62361										
HERC2	8924	broad.mit.edu	37	chr15	28380782	28380782	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	agcaatgttggggtggacacCgactctgtccctccaatgcc	11	13	1	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr15:28380782C>T	uc001zbj.2	-	79	12178	c.12072G>A	c.(12070-12072)TCG>TCA	p.S4024S		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4024	RCC1 14.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GGGTGGACACCGACTCTGTCC	0.448													35	54	---	---	---	---	PASS	T	28380782	T	T	28380782	2	4	175	1	0	0	0	0	0	0	0	1	7058	639	23	1		1	HERC2	15	28380782	Silent	SNP	C	TCGA-70-6723-01A-11D-1817-08	5998057	28380782	74150610	97	62362										
C15orf55	256646	broad.mit.edu	37	chr15	34646003	34646003	+	Frame_Shift_Del	DEL	C	-	-													0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ctgatgaatgggtctcagggCctgtctcctgcaaccccttt							TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr15:34646003delC	uc001zif.2	+	4	1076	c.921delC	c.(919-921)GGCfs	p.G307fs	C15orf55_uc010ucc.1_Frame_Shift_Del_p.G335fs|C15orf55_uc010ucd.1_Frame_Shift_Del_p.G325fs	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	307						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		GGTCTCAGGGCCTGTCTCCTG	0.542			T	BRD3|BRD4	lethal midline carcinoma								66	69	---	---	---	---		-	34646003	-	-	34646003	7	5	175	1	0	1	0	1	0	0	0	0	1803	726	26	0	935	0	C15orf55	15	34646003	Frame_Shift_Del	DEL	C	TCGA-70-6723-01A-11D-1817-08	6265221	34646003	67885389	98	62363										
CASC5	57082	broad.mit.edu	37	chr15	40917450	40917450	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	attgcccaacaagagaaattGtagtgtcactggtattgatg	10	6	1	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr15:40917450G>A	uc010bbs.1	+	11	5227	c.5066G>A	c.(5065-5067)TGT>TAT	p.C1689Y	CASC5_uc010ucq.1_Missense_Mutation_p.C1513Y|CASC5_uc001zme.2_Missense_Mutation_p.C1663Y|CASC5_uc010bbt.1_Missense_Mutation_p.C1663Y	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	1689					acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		AAGAGAAATTGTAGTGTCACT	0.408													74	75	---	---	---	---	PASS	A	40917450	A	A	40917450	3	1	175	1	0	0	0	0	1	0	0	0	2663	1377	48	3	5104	3	CASC5	15	40917450	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	6271447	40917450	61613942	99	62364										
MAP1A	4130	broad.mit.edu	37	chr15	43818760	43818760	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ccttggaacaggacacatacTggagggagctaagctgtgag	14	8	0	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr15:43818760T>A	uc001zrt.2	+	4	5556	c.5089T>A	c.(5089-5091)TGG>AGG	p.W1697R		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1697						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	GGACACATACTGGAGGGAGCT	0.582													30	34	---	---	---	---	PASS	A	43818760	A	A	43818760	3	1	175	1	0	0	0	0	1	0	0	0	9227	1580	55	5	5091	5	MAP1A	15	43818760	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	2901310	43818760	58712632	100	62365										
NOX5	79400	broad.mit.edu	37	chr15	69327710	69327710	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ccaggtgctgatgctcagacGctgcctcacctggctgcggg	14	14	2	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr15:69327710G>T	uc002ars.1	+	6	892	c.872G>T	c.(871-873)CGC>CTC	p.R291L	NOX5_uc002arp.1_Missense_Mutation_p.R273L|NOX5_uc002arq.1_Missense_Mutation_p.R245L|NOX5_uc010bid.1_Missense_Mutation_p.R256L|NOX5_uc002arr.1_Missense_Mutation_p.R263L|NOX5_uc010bie.1_Missense_Mutation_p.R91L|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	291	Cytoplasmic (Potential).				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						ATGCTCAGACGCTGCCTCACC	0.617													10	17	---	---	---	---	PASS	T	69327710	T	T	69327710	3	4	175	1	0	0	0	0	1	0	0	0	10559	1087	38	1	927	1	NOX5	15	69327710	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	25508950	69327710	33203682	101	62366										
AP3S2	10239	broad.mit.edu	37	chr15	90447114	90447114	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ccagaacgccactgtgtggtCgggggtgaggctctctgtca	15	11	2	2	rs61731919		TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr15:90447114C>A	uc002bos.3	-	4	558	c.403G>T	c.(403-405)GAC>TAC	p.D135Y	C15orf38_uc002bot.1_RNA|C15orf38_uc002bou.2_Missense_Mutation_p.D135Y	NM_182616	NP_872422	P59780	AP3S2_HUMAN	hypothetical protein LOC348110	Error:Variant_position_missing_in_P59780_after_alignment					intracellular protein transport|vesicle-mediated transport	cytoplasmic vesicle membrane|Golgi apparatus|membrane coat	protein transporter activity				0	Lung NSC(78;0.0181)|all_lung(78;0.0384)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.223)			ACTGTGTGGTCGGGGGTGAGG	0.652													3	68	---	---	---	---	PASS	A	90447114	A	A	90447114	3	1	175	1	0	0	0	0	1	0	0	0	750	884	31	2		2	AP3S2	15	90447114	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	21119404	90447114	12084278	102	62367										
HS3ST2	9956	broad.mit.edu	37	chr16	22926572	22926572	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	agagctggctgcagtacttcCcgctagctcagattcacttc	9	13	2	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr16:22926572C>T	uc002dli.2	+	2	865	c.793C>T	c.(793-795)CCG>TCG	p.P265S	HS3ST2_uc002dlj.2_RNA	NM_006043	NP_006034	Q9Y278	HS3S2_HUMAN	heparan sulfate D-glucosaminyl	265	Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 2 activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(48;0.0299)		GCAGTACTTCCCGCTAGCTCA	0.607													45	66	---	---	---	---	PASS	T	22926572	T	T	22926572	3	4	175	1	0	0	0	0	1	0	0	0	7364	623	22	3	799	3	HS3ST2	16	22926572	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08		22926572	67428181	103	62368										
SULT1A2	6799	broad.mit.edu	37	chr16	28604868	28604868	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ggaaaccgccacatcctttgCgttgcgggcaacatagacca	10	13	0	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr16:28604868C>T	uc002dqg.1	-	5	745	c.394G>A	c.(394-396)GCA>ACA	p.A132T	uc010vct.1_Intron|SULT1A2_uc002dqh.1_Missense_Mutation_p.A132T	NM_177528	NP_803564	P50226	ST1A2_HUMAN	sulfotransferase family, cytosolic, 1A,	132	PAPS (By similarity).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine biosynthetic process|catecholamine metabolic process|steroid metabolic process|sulfation|xenobiotic metabolic process	cytosol	aryl sulfotransferase activity|flavonol 3-sulfotransferase activity				0						ACATCCTTTGCGTTGCGGGCA	0.552													4	72	---	---	---	---	PASS	T	28604868	T	T	28604868	3	4	175	1	0	0	0	0	1	0	0	0	15372	768	27	1	509	1	SULT1A2	16	28604868	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	5678296	28604868	61749885	104	62369										
SPNS1	83985	broad.mit.edu	37	chr16	28990770	28990770	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	caaagtgaaggatatggctgGagactggcactgggctctga	15	7	1	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr16:28990770G>A	uc010vdi.1	+	6	781	c.641G>A	c.(640-642)GGA>GAA	p.G214E	uc010vct.1_Intron|SPNS1_uc002dry.2_Missense_Mutation_p.G214E|SPNS1_uc002drx.2_Missense_Mutation_p.G141E|SPNS1_uc002dsa.2_Missense_Mutation_p.G214E|SPNS1_uc002drz.2_Missense_Mutation_p.G214E|SPNS1_uc010byp.2_Missense_Mutation_p.G192E|SPNS1_uc010byq.1_Missense_Mutation_p.G141E	NM_001142448	NP_001135920	Q9H2V7	SPNS1_HUMAN	spinster homolog 1 isoform 1	214					lipid transport|transmembrane transport	integral to membrane|mitochondrial inner membrane	protein binding				0						GATATGGCTGGAGACTGGCAC	0.592													21	28	---	---	---	---	PASS	A	28990770	A	A	28990770	3	1	175	1	0	0	0	0	1	0	0	0	15073	1174	41	2	659	2	SPNS1	16	28990770	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	385902	28990770	61363983	105	62370										
GPT2	84706	broad.mit.edu	37	chr16	46952534	46952534	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ccctgccgtgcccccgcaggTgtaccaggacaacgtgtact	11	16	0	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr16:46952534T>A	uc002eel.2	+	8	996	c.902T>A	c.(901-903)GTG>GAG	p.V301E	GPT2_uc002eem.2_Missense_Mutation_p.V201E	NM_133443	NP_597700	Q8TD30	ALAT2_HUMAN	glutamic pyruvate transaminase 2 isoform 1	301					2-oxoglutarate metabolic process|cellular amino acid biosynthetic process|L-alanine metabolic process	mitochondrial matrix	L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2		all_cancers(37;0.0276)|all_epithelial(9;0.0498)|all_lung(18;0.0522)			L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CCCCCGCAGGTGTACCAGGAC	0.612													75	62	---	---	---	---	PASS	A	46952534	A	A	46952534	3	1	175	1	0	0	0	0	1	0	0	0	6738	1710	59	5	928	5	GPT2	16	46952534	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	17961764	46952534	43402219	106	62371										
PITPNM3	83394	broad.mit.edu	37	chr17	6428755	6428755	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	cactggctcatcccaatgagGatggcattcttcccttcagc	8	14	3	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr17:6428755G>A	uc002gdd.3	-	3	298	c.147C>T	c.(145-147)ATC>ATT	p.I49I	PITPNM3_uc010cln.2_Intron	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	49					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		TCCCAATGAGGATGGCATTCT	0.537													203	16	---	---	---	---	PASS	A	6428755	A	A	6428755	2	1	175	1	0	0	0	0	0	0	0	1	11952	1164	41	2		2	PITPNM3	17	6428755	Silent	SNP	G	TCGA-70-6723-01A-11D-1817-08		6428755	74766455	107	62372										
TP53	7157	broad.mit.edu	37	chr17	7578370	7578370	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tctccagccccagctgctcaCcatcgctatctgagcagcgc	8	18	3	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr17:7578370C>A	uc002gim.2	-	5	753	c.559_splice	c.e5+1	p.G187_splice	TP53_uc002gig.1_Splice_Site_p.G187_splice|TP53_uc002gih.2_Splice_Site_p.G187_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Intron|TP53_uc010cng.1_Intron|TP53_uc002gii.1_Intron|TP53_uc010cnh.1_Splice_Site_p.G187_splice|TP53_uc010cni.1_Splice_Site_p.G187_splice|TP53_uc002gij.2_Splice_Site_p.G187_splice|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Splice_Site_p.G94_splice|TP53_uc002gio.2_Splice_Site_p.G55_splice|TP53_uc010vug.1_Splice_Site_p.G148_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						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.?(24)|p.0?(7)|p.G187fs*16(2)|p.D186_P191delDGLAPP(1)|p.L188fs*19(1)|p.G187_L188delGL(1)|p.G187fs*22(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)		CAGCTGCTCACCATCGCTATC	0.632		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)			85	9	---	---	---	---	PASS	A	7578370	A	A	7578370	5	1	175	1	0	0	0	0	0	0	1	0	16378	521	18	3	738	3	TP53	17	7578370	Splice_Site	SNP	C	TCGA-70-6723-01A-11D-1817-08	1149615	7578370	73616840	108	62373										
MFSD6L	162387	broad.mit.edu	37	chr17	8701182	8701182	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ctaagcaatgtagctttgaaCggatgaagcagaatttcccc	9	9	0	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr17:8701182C>A	uc002glp.1	-	1	1405	c.1257G>T	c.(1255-1257)CCG>CCT	p.P419P		NM_152599	NP_689812	Q8IWD5	MFS6L_HUMAN	major facilitator superfamily domain containing	419	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						TAGCTTTGAACGGATGAAGCA	0.572													137	156	---	---	---	---	PASS	A	8701182	A	A	8701182	2	1	175	1	0	0	0	0	0	0	0	1	9536	523	19	1		1	MFSD6L	17	8701182	Silent	SNP	C	TCGA-70-6723-01A-11D-1817-08	1122812	8701182	72494028	109	62374										
DNAH9	1770	broad.mit.edu	37	chr17	11701032	11701032	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ggaacttttgacccagactcTggtggaggccttggagaacc	13	10	1	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr17:11701032T>C	uc002gne.2	+	43	8410	c.8342T>C	c.(8341-8343)CTG>CCG	p.L2781P	DNAH9_uc010coo.2_Missense_Mutation_p.L2075P	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2781					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		ACCCAGACTCTGGTGGAGGCC	0.498													28	98	---	---	---	---	PASS	C	11701032	C	C	11701032	3	2	175	1	0	0	0	0	1	0	0	0	4608	1580	55	5	8512	5	DNAH9	17	11701032	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	2999850	11701032	69494178	110	62375										
KCNJ12	3768	broad.mit.edu	37	chr17	21319683	21319683	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	cagtacaagattgactactcGcacttccacaagacctatga	6	12	0	4	rs111482429	byFrequency	TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr17:21319683G>A	uc002gyv.1	+	3	1734	c.1029G>A	c.(1027-1029)TCG>TCA	p.S343S		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	343	Cytoplasmic (By similarity).			S -> L (in Ref. 2; AAC50615).	blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity	p.S343L(2)		ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	TTGACTACTCGCACTTCCACA	0.582										Prostate(3;0.18)			53	249	---	---	---	---	PASS	A	21319683	A	A	21319683	2	1	175	1	0	0	0	0	0	0	0	1	8046	1074	38	1		1	KCNJ12	17	21319683	Silent	SNP	G	TCGA-70-6723-01A-11D-1817-08	9618651	21319683	59875527	111	62376										
HSD17B1	3292	broad.mit.edu	37	chr17	40706825	40706825	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ccatgcaccgggaagtgttcGgcgacgttccggcaaaggcc	14	13	0	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr17:40706825G>C	uc002hzw.2	+	6	1824	c.856G>C	c.(856-858)GGC>CGC	p.G286R	HSD17B1_uc002hzx.2_Missense_Mutation_p.G287R|HSD17B1_uc010wgm.1_RNA|uc002hzy.2_5'Flank|HSD17B1_uc010cyi.2_Missense_Mutation_p.G317R	NM_000413	NP_000404	P14061	DHB1_HUMAN	hydroxysteroid (17-beta) dehydrogenase 1	286					estrogen biosynthetic process	cytosol	binding|estradiol 17-beta-dehydrogenase activity				0		all_cancers(22;5.59e-08)|all_epithelial(22;7e-07)|Ovarian(249;0.0261)		BRCA - Breast invasive adenocarcinoma(366;0.129)	NADH(DB00157)	GGAAGTGTTCGGCGACGTTCC	0.537													6	46	---	---	---	---	PASS	C	40706825	C	C	40706825	3	2	175	1	0	0	0	0	1	0	0	0	7378	1116	39	4	878	4	HSD17B1	17	40706825	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	19387142	40706825	40488385	112	62377										
ATXN7L3	56970	broad.mit.edu	37	chr17	42271707	42271707	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tcttcttgttggaacctaggCcggaggcagtccctaccagg	12	12	2	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr17:42271707C>A	uc002iga.2	-	12	1059	c.968G>T	c.(967-969)GGC>GTC	p.G323V	ATXN7L3_uc010wiv.1_Missense_Mutation_p.G105V|ATXN7L3_uc002ifz.2_Missense_Mutation_p.G330V	NM_001098833	NP_001092303	Q14CW9	AT7L3_HUMAN	ataxin 7-like 3 isoform b	323					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|metal ion binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.113)		GGAACCTAGGCCGGAGGCAGT	0.522													70	62	---	---	---	---	PASS	A	42271707	A	A	42271707	3	1	175	1	0	0	0	0	1	0	0	0	1218	739	26	3	79	3	ATXN7L3	17	42271707	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	1564882	42271707	38923503	113	62378										
HLF	3131	broad.mit.edu	37	chr17	53398125	53398125	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ccagatcgccatccgggcctCgttcctggagaaggagaact	12	13	0	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr17:53398125C>G	uc002iug.1	+	4	1298	c.773C>G	c.(772-774)TCG>TGG	p.S258W	HLF_uc010dce.1_Missense_Mutation_p.S173W|HLF_uc002iuh.2_Missense_Mutation_p.S173W|HLF_uc010wni.1_Missense_Mutation_p.S205W	NM_002126	NP_002117	Q16534	HLF_HUMAN	hepatic leukemia factor	258	Leucine-zipper.				multicellular organismal development|rhythmic process|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						ATCCGGGCCTCGTTCCTGGAG	0.592			T	TCF3	ALL								6	38	---	---	---	---	PASS	G	53398125	G	G	53398125	3	3	175	1	0	0	0	0	1	0	0	0	7214	893	31	2	787	2	HLF	17	53398125	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	11126418	53398125	27797085	114	62379										
ITGB4	3691	broad.mit.edu	37	chr17	73736517	73736517	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tgacactcgggagtgcgcccAgctgcgccaggaggtggagg	18	11	0	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr17:73736517A>T	uc002jpg.2	+	21	2712	c.2525A>T	c.(2524-2526)CAG>CTG	p.Q842L	ITGB4_uc002jph.2_Missense_Mutation_p.Q842L|ITGB4_uc010dgo.2_Missense_Mutation_p.Q842L|ITGB4_uc002jpi.3_Missense_Mutation_p.Q842L|ITGB4_uc010dgp.1_Missense_Mutation_p.Q842L|ITGB4_uc002jpj.2_Missense_Mutation_p.Q842L	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	842	Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GAGTGCGCCCAGCTGCGCCAG	0.657													56	30	---	---	---	---	PASS	T	73736517	T	T	73736517	3	4	175	1	0	0	0	0	1	0	0	0	7897	188	7	5	2603	5	ITGB4	17	73736517	Missense_Mutation	SNP	A	TCGA-70-6723-01A-11D-1817-08	20338392	73736517	7458693	115	62380										
AATK	9625	broad.mit.edu	37	chr17	79095665	79095665	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gtcccaggactctggacagcGgctgccgctgttgttgttgg	15	11	1	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr17:79095665G>T	uc010dia.2	-	11	2151	c.2071C>A	c.(2071-2073)CGC>AGC	p.R691S	AATK_uc010dhz.2_RNA	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	691						integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			TCTGGACAGCGGCTGCCGCTG	0.716													4	20	---	---	---	---	PASS	T	79095665	T	T	79095665	3	4	175	1	0	0	0	0	1	0	0	0	26	1116	39	1	2069	1	AATK	17	79095665	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	5359148	79095665	2099545	116	62381										
EMILIN2	84034	broad.mit.edu	37	chr18	2892173	2892173	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gttgcagagccaggtcatctCggagctggatgcttgtaagg	15	8	2	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr18:2892173C>A	uc002kln.2	+	4	2207	c.2048C>A	c.(2047-2049)TCG>TAG	p.S683*		NM_032048	NP_114437	Q9BXX0	EMIL2_HUMAN	elastin microfibril interfacer 2 precursor	683					cell adhesion	collagen	extracellular matrix constituent conferring elasticity|protein binding			skin(2)|ovary(1)	3				READ - Rectum adenocarcinoma(2;0.1)		CAGGTCATCTCGGAGCTGGAT	0.602													41	157	---	---	---	---	PASS	A	2892173	A	A	2892173	4	1	175	1	0	0	0	0	0	1	0	0	5094	893	31	2	2062	2	EMILIN2	18	2892173	Nonsense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08		2892173	75185075	117	62382										
EPB41L3	23136	broad.mit.edu	37	chr18	5395708	5395708	+	Splice_Site	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gatctgtgcctggatcgaccTaaagcagcagaggcatagac	12	10	1	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr18:5395708T>G	uc002kmt.1	-	20	3060	c.2974_splice	c.e20-1	p.V992_splice	EPB41L3_uc010wzh.1_Splice_Site_p.V823_splice|EPB41L3_uc002kmu.1_Splice_Site_p.V770_splice|EPB41L3_uc010dkq.1_Splice_Site_p.V661_splice|EPB41L3_uc002kms.1_Splice_Site_p.V227_splice|EPB41L3_uc010wze.1_Splice_Site_p.V297_splice|EPB41L3_uc010wzf.1_Splice_Site_p.V289_splice|EPB41L3_uc010wzg.1_Splice_Site_p.V264_splice|EPB41L3_uc010dkr.2_Splice_Site_p.V384_splice	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3						cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TGGATCGACCTAAAGCAGCAG	0.498													54	203	---	---	---	---	PASS	G	5395708	G	G	5395708	5	3	175	1	0	0	0	0	0	0	1	0	5154	1536	53	5	303	5	EPB41L3	18	5395708	Splice_Site	SNP	T	TCGA-70-6723-01A-11D-1817-08	2503535	5395708	72681540	118	62383										
CD226	10666	broad.mit.edu	37	chr18	67531632	67531632	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tatcatccatggattgattgGtaggttgactggtagagatg	13	4	1	3			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr18:67531632G>C	uc010dqo.2	-	6	1376	c.929C>G	c.(928-930)ACC>AGC	p.T310S	CD226_uc002lkm.3_Missense_Mutation_p.T310S	NM_006566	NP_006557	Q15762	CD226_HUMAN	CD226 molecule precursor	310	Cytoplasmic (Potential).				cell adhesion|cell recognition|positive regulation of Fc receptor mediated stimulatory signaling pathway|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	cell surface|integral to plasma membrane|membrane raft	cell adhesion molecule binding|integrin binding|protein kinase binding|receptor activity				0		Esophageal squamous(42;0.129)				GGATTGATTGGTAGGTTGACT	0.388													28	11	---	---	---	---	PASS	C	67531632	C	C	67531632	3	2	175	1	0	0	0	0	1	0	0	0	2986	1261	44	4	85	4	CD226	18	67531632	Missense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	62135924	67531632	10545616	119	62384										
FSD1	79187	broad.mit.edu	37	chr19	4310281	4310281	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tctctctaggctgccaagcaAatcaaagatgggtaagacac	9	10	3	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr19:4310281A>T	uc002lzy.2	+	5	510	c.357A>T	c.(355-357)CAA>CAT	p.Q119H	FSD1_uc010xie.1_Missense_Mutation_p.Q106H|FSD1_uc010xif.1_Missense_Mutation_p.N103Y|FSD1_uc002lzz.2_Missense_Mutation_p.Q119H|FSD1_uc002maa.2_5'Flank	NM_024333	NP_077309	Q9BTV5	FSD1_HUMAN	fibronectin type III and SPRY domain containing	119	COS.				cell division|mitosis	cleavage furrow|microtubule|microtubule organizing center|nucleus				skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.034)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGCCAAGCAAATCAAAGATG	0.398													139	31	---	---	---	---	PASS	T	4310281	T	T	4310281	3	4	175	1	0	0	0	0	1	0	0	0	6070	11	1	5	375	5	FSD1	19	4310281	Missense_Mutation	SNP	A	TCGA-70-6723-01A-11D-1817-08		4310281	54818702	120	62385										
APLP1	333	broad.mit.edu	37	chr19	36369793	36369793	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	acacctcctgctcccccaggTgaatgcgtctgttccaaggg	10	15	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr19:36369793T>A	uc002oce.2	+	15	1787	c.1649T>A	c.(1648-1650)GTG>GAG	p.V550E	APLP1_uc010xsz.1_Missense_Mutation_p.V511E|APLP1_uc002ocf.2_Missense_Mutation_p.V551E|APLP1_uc002ocg.2_Missense_Mutation_p.V454E|APLP1_uc010xta.1_Missense_Mutation_p.V544E	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	550	Extracellular (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTCCCCCAGGTGAATGCGTCT	0.512													55	53	---	---	---	---	PASS	A	36369793	A	A	36369793	3	1	175	1	0	0	0	0	1	0	0	0	778	1710	59	5	1710	5	APLP1	19	36369793	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	32059512	36369793	22759190	121	62386										
C20orf27	54976	broad.mit.edu	37	chr20	3734752	3734752	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	ctctgagtcgtattccagctCggcgcccacacacttgacac	8	16	1	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr20:3734752C>A	uc002wji.1	-	6	707	c.478G>T	c.(478-480)GAG>TAG	p.E160*	C20orf27_uc002wjf.1_3'UTR|C20orf27_uc002wjh.1_Nonsense_Mutation_p.E185*	NM_001039140	NP_001034229	Q9GZN8	CT027_HUMAN	hypothetical protein LOC54976	160											0						TATTCCAGCTCGGCGCCCACA	0.682													11	7	---	---	---	---	PASS	A	3734752	A	A	3734752	4	1	175	1	0	0	0	0	0	1	0	0	2107	893	31	2	50	2	C20orf27	20	3734752	Nonsense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08		3734752	59290768	122	62387										
NPTXR	23467	broad.mit.edu	37	chr22	39224455	39224455	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tccatcttggagtgtaggccGgtgggcacagcagagactgg	16	9	1	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chr22:39224455G>A	uc003awk.2	-	2	841	c.687C>T	c.(685-687)ACC>ACT	p.T229T		NM_014293	NP_055108	O95502	NPTXR_HUMAN	neuronal pentraxin receptor	229	Extracellular (Potential).					integral to membrane	metal ion binding			central_nervous_system(2)|skin(1)	3	Melanoma(58;0.04)					AGTGTAGGCCGGTGGGCACAG	0.647													6	8	---	---	---	---	PASS	A	39224455	A	A	39224455	2	1	175	1	0	0	0	0	0	0	0	1	10604	1103	39	1		1	NPTXR	22	39224455	Silent	SNP	G	TCGA-70-6723-01A-11D-1817-08		39224455	12080111	123	62388										
MAGEB18	286514	broad.mit.edu	37	chrX	26157145	26157145	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	agctccgtgcccgtgagaaaCgccaccaggctcgttgtgag	13	13	0	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chrX:26157145C>A	uc004dbq.1	+	2	230	c.43C>A	c.(43-45)CGC>AGC	p.R15S		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	15							protein binding			central_nervous_system(1)	1						CCGTGAGAAACGCCACCAGGC	0.532													8	6	---	---	---	---	PASS	A	26157145	A	A	26157145	3	1	175	1	0	0	0	0	1	0	0	0	9175	536	19	1	45	1	MAGEB18	23	26157145	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08		26157145	129113415	124	62389										
MAGEB18	286514	broad.mit.edu	37	chrX	26157185	26157185	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gaatcaggatctgggagctaCgcaggccactgtggcagaag	15	9	2	1			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chrX:26157185C>A	uc004dbq.1	+	2	270	c.83C>A	c.(82-84)ACG>AAG	p.T28K		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	28							protein binding			central_nervous_system(1)	1						CTGGGAGCTACGCAGGCCACT	0.552													12	4	---	---	---	---	PASS	A	26157185	A	A	26157185	3	1	175	1	0	0	0	0	1	0	0	0	9175	536	19	1	85	1	MAGEB18	23	26157185	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	40	26157185	129113375	125	62390										
DMD	1756	broad.mit.edu	37	chrX	32662275	32662275	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	tgtttttccatgctagctacCctgaggcattcccatcttga	7	12	1	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chrX:32662275C>G	uc004dda.1	-	11	1549	c.1305G>C	c.(1303-1305)AGG>AGC	p.R435S	DMD_uc004dcz.2_Missense_Mutation_p.R312S|DMD_uc004dcy.1_Missense_Mutation_p.R431S|DMD_uc004ddb.1_Missense_Mutation_p.R427S|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.R427S|DMD_uc010ngp.1_Intron|DMD_uc010ngq.1_Intron|MIR548F5_hsa-mir-548f-5|MI0006378_5'Flank	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	435	Spectrin 1.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGCTAGCTACCCTGAGGCATT	0.353													40	6	---	---	---	---	PASS	G	32662275	G	G	32662275	3	3	175	1	0	0	0	0	1	0	0	0	4580	622	22	4	10271	4	DMD	23	32662275	Missense_Mutation	SNP	C	TCGA-70-6723-01A-11D-1817-08	6505090	32662275	122608285	126	62391										
MED14	9282	broad.mit.edu	37	chrX	40562733	40562733	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	aattgaaacattccagaatgTaaatctacaaaaatgtgcag	6	6	1	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chrX:40562733T>C	uc004dex.3	-	11	1514	c.1374A>G	c.(1372-1374)TTA>TTG	p.L458L		NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	458	Interaction with STAT2.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						TTCCAGAATGTAAATCTACAA	0.333													30	5	---	---	---	---	PASS	C	40562733	C	C	40562733	2	2	175	1	0	0	0	0	0	0	0	1	9432	1635	57	5		5	MED14	23	40562733	Silent	SNP	T	TCGA-70-6723-01A-11D-1817-08	7900458	40562733	114707827	127	62392										
APEX2	27301	broad.mit.edu	37	chrX	55033379	55033379	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	cctgtgttggagcagtcgacGctgcagcacaacaatcaaac	10	12	1	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chrX:55033379G>C	uc004dtz.2	+	6	1144	c.1068G>C	c.(1066-1068)ACG>ACC	p.T356T	APEX2_uc011mom.1_Silent_p.T185T	NM_014481	NP_055296	Q9UBZ4	APEX2_HUMAN	apurinic/apyrimidinic endonuclease 2	356					cell cycle|DNA recombination|DNA repair	nucleus	DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|endonuclease activity|exonuclease activity|zinc ion binding			breast(1)	1						AGCAGTCGACGCTGCAGCACA	0.567								Other_BER_factors					21	4	---	---	---	---	PASS	C	55033379	C	C	55033379	2	2	175	1	0	0	0	0	0	0	0	1	770	1074	38	4		4	APEX2	23	55033379	Silent	SNP	G	TCGA-70-6723-01A-11D-1817-08	14470646	55033379	100237181	128	62393										
NAP1L3	4675	broad.mit.edu	37	chrX	92927282	92927282	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	agaacttcaggctaacatccGacaagaacttcagaatgggc	9	10	2	3	rs139021145	byFrequency	TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chrX:92927282G>T	uc004efq.2	-	1	1327	c.1022C>A	c.(1021-1023)TCG>TAG	p.S341*	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	341					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						GCTAACATCCGACAAGAACTT	0.428													38	5	---	---	---	---	PASS	T	92927282	T	T	92927282	4	4	175	1	0	0	0	0	0	1	0	0	10158	1059	37	2	502	2	NAP1L3	23	92927282	Nonsense_Mutation	SNP	G	TCGA-70-6723-01A-11D-1817-08	37893903	92927282	62343278	129	62394										
NOX1	27035	broad.mit.edu	37	chrX	100117172	100117172	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gctcttacctcagggggatgCccttcaaacttagggcgcct	11	13	3	0			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chrX:100117172C>T	uc004egj.2	-	7	998	c.792G>A	c.(790-792)GGG>GGA	p.G264G	uc010nnf.2_Intron|NOX1_uc004egl.3_Silent_p.G264G|NOX1_uc010nne.2_Silent_p.G227G	NM_007052	NP_008983	Q9Y5S8	NOX1_HUMAN	NADPH oxidase 1 isoform long	264	Ferric oxidoreductase.|Extracellular (Potential).				angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1						CAGGGGGATGCCCTTCAAACT	0.413													100	6	---	---	---	---	PASS	T	100117172	T	T	100117172	2	4	175	1	0	0	0	0	0	0	0	1	10556	726	26	3		3	NOX1	23	100117172	Silent	SNP	C	TCGA-70-6723-01A-11D-1817-08	7189890	100117172	55153388	130	62395										
BTK	695	broad.mit.edu	37	chrX	100604918	100604918	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	agaatattgctcagaagaatTttgaaagtgggacgctcatc	10	6	2	4			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chrX:100604918T>G	uc004ehg.2	-	19	2128	c.1935A>C	c.(1933-1935)AAA>AAC	p.K645N	TIMM8A_uc004ehd.2_5'Flank|TIMM8A_uc011mri.1_5'Flank|BTK_uc004ehf.2_Missense_Mutation_p.K145N|BTK_uc010nnh.2_RNA|BTK_uc010nni.2_RNA|BTK_uc004ehe.2_RNA|BTK_uc010nnj.2_RNA|BTK_uc010nnk.2_RNA|BTK_uc010nnl.2_Missense_Mutation_p.K121N|BTK_uc010nnm.2_Missense_Mutation_p.K204N|BTK_uc010nnn.2_Missense_Mutation_p.K469N|BTK_uc010nno.2_Missense_Mutation_p.K679N	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	645	Protein kinase.				calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						TCAGAAGAATTTTGAAAGTGG	0.403									Agammaglobulinemia_X-linked				130	13	---	---	---	---	PASS	G	100604918	G	G	100604918	3	3	175	1	0	0	0	0	1	0	0	0	1557	1838	64	5	48	5	BTK	23	100604918	Missense_Mutation	SNP	T	TCGA-70-6723-01A-11D-1817-08	487746	100604918	54665642	131	62396										
TRPC5	7224	broad.mit.edu	37	chrX	111195615	111195615	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0229007633587786	3	0.992789478290034	0.413067207235303	0.912190082644628	0.197230288139379	1	1	0	gatgcggtctctgtacggtgAgtagttgacctttttgtagt	13	6	1	2			TCGA-70-6723-01A-11D-1817-08	TCGA-70-6723-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	7483ea9f-8587-41e7-9ae5-d9223b76f33e	a5e025df-7d3e-4143-8f12-763b4bacba25	g.chrX:111195615A>T	uc004epl.1	-	2	953	c.34T>A	c.(34-36)TCA>ACA	p.S12T	TRPC5_uc004epm.1_Missense_Mutation_p.S12T	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	12	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						CTGTACGGTGAGTAGTTGACC	0.488													39	3	---	---	---	---	PASS	T	111195615	T	T	111195615	3	4	175	1	0	0	0	0	1	0	0	0	16579	304	11	5	2927	5	TRPC5	23	111195615	Missense_Mutation	SNP	A	TCGA-70-6723-01A-11D-1817-08	10590697	111195615	44074945	132	62397										
GRIK3	2899	broad.mit.edu	37	chr1	37271849	37271849	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	cagggccctctggatgccctCctcgttgttcttcaccagcg	10	16	3	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr1:37271849C>A	uc001caz.2	-	14	2305	c.2170G>T	c.(2170-2172)GAG>TAG	p.E724*	GRIK3_uc001cba.1_Nonsense_Mutation_p.E724*	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	724	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	TGGATGCCCTCCTCGTTGTTC	0.602													10	54	---	---	---	---	PASS	A	37271849	A	A	37271849	4	1	176	1	0	0	0	0	0	1	0	0	6775	864	30	2	601	2	GRIK3	1	37271849	Nonsense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08		37271849	211978772	1	62398										
HIVEP3	59269	broad.mit.edu	37	chr1	42049199	42049199	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ggcggtccgctgtcctattcGcccacacttgccaaagatga	10	14	0	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr1:42049199G>A	uc001cgz.3	-	4	2483	c.1270C>T	c.(1270-1272)CGA>TGA	p.R424*	HIVEP3_uc001cha.3_Nonsense_Mutation_p.R424*|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	424	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				TGTCCTATTCGCCCACACTTG	0.607													6	67	---	---	---	---	PASS	A	42049199	A	A	42049199	4	1	176	1	0	0	0	0	0	1	0	0	7188	1095	38	1	5974	1	HIVEP3	1	42049199	Nonsense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	4777350	42049199	207201422	2	62399										
CYP4A22	284541	broad.mit.edu	37	chr1	47614361	47614361	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	tttgagctgctgcctgatccCaccaggatccccatccccat	7	17	0	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr1:47614361C>T	uc001cqv.1	+	12	1503	c.1452C>T	c.(1450-1452)CCC>CCT	p.P484P		NM_001010969	NP_001010969	Q5TCH4	CP4AM_HUMAN	cytochrome P450, family 4, subfamily A,	484						endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding			skin(2)|ovary(1)|breast(1)	4						TGCCTGATCCCACCAGGATCC	0.577													12	104	---	---	---	---	PASS	T	47614361	T	T	47614361	2	4	176	1	0	0	0	0	0	0	0	1	4184	581	21	3		3	CYP4A22	1	47614361	Silent	SNP	C	TCGA-85-6175-01A-11D-1817-08	5565162	47614361	201636260	3	62400										
SLC5A9	200010	broad.mit.edu	37	chr1	48705040	48705040	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	cctgggagtggggcttctgcGtatgatcctggagttctcat	14	9	2	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr1:48705040G>A	uc001cro.2	+	12	1560	c.1508G>A	c.(1507-1509)CGT>CAT	p.R503H	SLC5A9_uc001crn.2_Missense_Mutation_p.R528H|SLC5A9_uc010omt.1_Missense_Mutation_p.R517H|SLC5A9_uc001crp.2_Missense_Mutation_p.R170H|SLC5A9_uc010omu.1_Missense_Mutation_p.R170H|SLC5A9_uc009vyt.1_RNA	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	503	Helical; (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						GGGCTTCTGCGTATGATCCTG	0.597													21	83	---	---	---	---	PASS	A	48705040	A	A	48705040	3	1	176	1	0	0	0	0	1	0	0	0	14672	1145	40	1	1633	1	SLC5A9	1	48705040	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	1090679	48705040	200545581	4	62401										
C8A	731	broad.mit.edu	37	chr1	57372362	57372362	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	attaccagcagagatatcacGacatgttttggaggctcctt	9	9	1	1	rs147666641	byFrequency	TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr1:57372362G>A	uc001cyo.2	+	8	1251	c.1119G>A	c.(1117-1119)ACG>ACA	p.T373T		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	373	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						GAGATATCACGACATGTTTTG	0.393													20	90	---	---	---	---	PASS	A	57372362	A	A	57372362	2	1	176	1	0	0	0	0	0	0	0	1	2416	1045	37	2		2	C8A	1	57372362	Silent	SNP	G	TCGA-85-6175-01A-11D-1817-08	8667322	57372362	191878259	5	62402										
C1orf173	127254	broad.mit.edu	37	chr1	75037915	75037915	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	gcgacttttcaaatccaggcGttgcttcaaatatgggaacc	9	10	2	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr1:75037915G>A	uc001dgg.2	-	14	3698	c.3479C>T	c.(3478-3480)ACG>ATG	p.T1160M		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1160	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						AAATCCAGGCGTTGCTTCAAA	0.473													6	95	---	---	---	---	PASS	A	75037915	A	A	75037915	3	1	176	1	0	0	0	0	1	0	0	0	2014	1145	40	1	1117	1	C1orf173	1	75037915	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	17665553	75037915	174212706	6	62403										
DNAJB4	11080	broad.mit.edu	37	chr1	78479055	78479055	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	tatatagtggttgtaccaaaCggatgaagatttctcgaaaa	9	5	1	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr1:78479055C>T	uc001dij.2	+	2	691	c.532C>T	c.(532-534)CGG>TGG	p.R178W	DNAJB4_uc010orn.1_Missense_Mutation_p.R63W	NM_007034	NP_008965	Q9UDY4	DNJB4_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 4	178					protein folding|response to heat|response to unfolded protein	cytoplasm|plasma membrane	heat shock protein binding|unfolded protein binding				0						TTGTACCAAACGGATGAAGAT	0.408													4	90	---	---	---	---	PASS	T	78479055	T	T	78479055	3	4	176	1	0	0	0	0	1	0	0	0	4622	527	19	1	538	1	DNAJB4	1	78479055	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	3441140	78479055	170771566	7	62404										
NCOA1	8648	broad.mit.edu	37	chr2	24928059	24928059	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	aactttgctaccctcaaagtCcagacatgcaacctttcatc	4	14	2	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr2:24928059C>T	uc002rfk.2	+	10	1312	c.1054C>T	c.(1054-1056)CCA>TCA	p.P352S	NCOA1_uc010eye.2_Missense_Mutation_p.P352S|NCOA1_uc002rfi.2_Missense_Mutation_p.P201S|NCOA1_uc002rfj.2_Missense_Mutation_p.P352S|NCOA1_uc002rfl.2_Missense_Mutation_p.P352S	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	352									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCTCAAAGTCCAGACATGCA	0.428			T	PAX3	alveolar rhadomyosarcoma								5	122	---	---	---	---	PASS	T	24928059	T	T	24928059	3	4	176	1	0	0	0	0	1	0	0	0	10228	855	30	2	1084	2	NCOA1	2	24928059	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08		24928059	218271314	8	62405										
SLC8A1	6546	broad.mit.edu	37	chr2	40656545	40656545	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	tgagaattgaccactttcccGtccatttcaatttcagtctt	5	11	3	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr2:40656545G>A	uc002rrx.2	-	1	900	c.876C>T	c.(874-876)GAC>GAT	p.D292D	SLC8A1_uc002rry.2_Silent_p.D292D|SLC8A1_uc002rrz.2_Silent_p.D292D|SLC8A1_uc002rsa.2_Silent_p.D292D|SLC8A1_uc002rsd.3_Silent_p.D292D|SLC8A1_uc002rsb.1_Silent_p.D292D|SLC8A1_uc010fan.1_Silent_p.D292D|SLC8A1_uc002rsc.1_Silent_p.D292D	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	292	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CCACTTTCCCGTCCATTTCAA	0.443													37	221	---	---	---	---	PASS	A	40656545	A	A	40656545	2	1	176	1	0	0	0	0	0	0	0	1	14706	1136	40	1		1	SLC8A1	2	40656545	Silent	SNP	G	TCGA-85-6175-01A-11D-1817-08	15728486	40656545	202542828	9	62406										
TUBA3E	112714	broad.mit.edu	37	chr2	130951985	130951985	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	tgcgaacccagagccagtgcCgcccccaaagctgtggaaga	12	14	0	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr2:130951985C>T	uc002tqv.2	-	4	531	c.430G>A	c.(430-432)GGC>AGC	p.G144S		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	144	GTP (Potential).				microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					GAGCCAGTGCCGCCCCCAAAG	0.577													15	45	---	---	---	---	PASS	T	130951985	T	T	130951985	3	4	176	1	0	0	0	0	1	0	0	0	16745	652	23	1	930	1	TUBA3E	2	130951985	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	90295440	130951985	112247388	10	62407										
SLC40A1	30061	broad.mit.edu	37	chr2	190437668	190437668	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	atgactgaaacattctgtacCaccagcgaggtctgggccac	10	12	2	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr2:190437668C>A	uc002uqp.3	-	4	642	c.291G>T	c.(289-291)GTG>GTT	p.V97V	SLC40A1_uc002uqq.2_Silent_p.V97V	NM_014585	NP_055400	Q9NP59	S40A1_HUMAN	solute carrier family 40 (iron-regulated	97	Helical; (Potential).				anatomical structure morphogenesis|cellular iron ion homeostasis	cytoplasm|integral to plasma membrane	iron ion transmembrane transporter activity|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000917)|Epithelial(96;0.014)|all cancers(119;0.0491)			CATTCTGTACCACCAGCGAGG	0.428													4	92	---	---	---	---	PASS	A	190437668	A	A	190437668	2	1	176	1	0	0	0	0	0	0	0	1	14628	581	21	3		3	SLC40A1	2	190437668	Silent	SNP	C	TCGA-85-6175-01A-11D-1817-08	59485683	190437668	52761705	11	62408										
COL6A3	1293	broad.mit.edu	37	chr2	238274445	238274445	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	gcgcatgttccggaacttctCgagcatctctggctggtact	11	12	2	0	rs113251155		TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr2:238274445C>T	uc002vwl.2	-	12	6019	c.5734G>A	c.(5734-5736)GAG>AAG	p.E1912K	COL6A3_uc002vwo.2_Missense_Mutation_p.E1706K|COL6A3_uc010znj.1_Missense_Mutation_p.E1305K	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1912	VWFA 10.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CGGAACTTCTCGAGCATCTCT	0.632													7	69	---	---	---	---	PASS	T	238274445	T	T	238274445	3	4	176	1	0	0	0	0	1	0	0	0	3701	893	31	2	3931	2	COL6A3	2	238274445	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	47836777	238274445	4924928	12	62409										
BOK	666	broad.mit.edu	37	chr2	242511723	242511723	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ccctcccagactgatgtcctCaagtgtgtggtcagcacaga	10	13	2	3			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr2:242511723C>T	uc002wbq.2	+	5	771	c.525C>T	c.(523-525)CTC>CTT	p.L175L	BOK_uc002wbr.2_5'Flank	NM_032515	NP_115904	Q9UMX3	BOK_HUMAN	BCL2-related ovarian killer	175	BH2.				activation of caspase activity|cell proliferation|signal transduction by p53 class mediator resulting in induction of apoptosis	mitochondrial membrane|nucleus				ovary(1)	1		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;2.04e-33)|all cancers(36;7.87e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.52e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.64e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0835)		CTGATGTCCTCAAGTGTGTGG	0.652													4	20	---	---	---	---	PASS	T	242511723	T	T	242511723	2	4	176	1	0	0	0	0	0	0	0	1	1484	813	29	2		2	BOK	2	242511723	Silent	SNP	C	TCGA-85-6175-01A-11D-1817-08	4237278	242511723	687650	13	62410										
ZBTB11	27107	broad.mit.edu	37	chr3	101390091	101390091	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	agctttgtactcttctccttCaattaacaaagtaacatcac	3	11	4	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr3:101390091C>T	uc003dve.3	-	3	891	c.661G>A	c.(661-663)GAA>AAA	p.E221K	ZBTB11_uc003dvf.2_3'UTR	NM_014415	NP_055230	O95625	ZBT11_HUMAN	zinc finger protein ZNF-U69274	221	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TCTTCTCCTTCAATTAACAAA	0.383													15	103	---	---	---	---	PASS	T	101390091	T	T	101390091	3	4	176	1	0	0	0	0	1	0	0	0	17521	835	29	2	2536	2	ZBTB11	3	101390091	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08		101390091	96632339	14	62411										
PRDM9	56979	broad.mit.edu	37	chr5	23526956	23526956	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	atgtctgcagggagtgtgggCggggctttagctggcagtca	18	7	2	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr5:23526956C>A	uc003jgo.2	+	11	1941	c.1759C>A	c.(1759-1761)CGG>AGG	p.R587R		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	587	C2H2-type 4.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						GGAGTGTGGGCGGGGCTTTAG	0.607										HNSCC(3;0.000094)			7	105	---	---	---	---	PASS	A	23526956	A	A	23526956	2	1	176	1	0	0	0	0	0	0	0	1	12463	759	27	1		1	PRDM9	5	23526956	Silent	SNP	C	TCGA-85-6175-01A-11D-1817-08		23526956	157388304	15	62412										
MSH3	4437	broad.mit.edu	37	chr5	79950593	79950593	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	cggcctcgctgcctccagctCagcccctgcgaggcaagcgg	13	18	1	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr5:79950593C>A	uc003kgz.2	+	1	300	c.47C>A	c.(46-48)TCA>TAA	p.S16*	DHFR_uc011ctl.1_5'UTR|DHFR_uc011ctm.1_5'UTR|DHFR_uc010jap.1_RNA|DHFR_uc003kgx.1_Nonsense_Mutation_p.E55*|DHFR_uc003kgy.1_5'UTR	NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	16					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		GCCTCCAGCTCAGCCCCTGCG	0.687								MMR					3	26	---	---	---	---	PASS	A	79950593	A	A	79950593	4	1	176	1	0	0	0	0	0	1	0	0	9871	838	29	2	49	2	MSH3	5	79950593	Nonsense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	56423637	79950593	100964667	16	62413										
PCDHA8	56140	broad.mit.edu	37	chr5	140222774	140222774	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	cagccctcgcatcccgttccGcgtggggctgtacacgggcg	14	16	0	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr5:140222774G>A	uc003lhs.2	+	1	1868	c.1868G>A	c.(1867-1869)CGC>CAC	p.R623H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.R623H	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	623	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCCCGTTCCGCGTGGGGCTG	0.642													9	110	---	---	---	---	PASS	A	140222774	A	A	140222774	3	1	176	1	0	0	0	0	1	0	0	0	11530	1087	38	1	1870	1	PCDHA8	5	140222774	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	60272181	140222774	40692486	17	62414										
UNC5A	90249	broad.mit.edu	37	chr5	176305332	176305332	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	aggacagttaccacaacctgCgcctatccatccacgatgtg	8	14	0	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr5:176305332C>T	uc003mey.2	+	12	2149	c.1957C>T	c.(1957-1959)CGC>TGC	p.R653C		NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	653	Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCACAACCTGCGCCTATCCAT	0.627													10	55	---	---	---	---	PASS	T	176305332	T	T	176305332	3	4	176	1	0	0	0	0	1	0	0	0	16988	768	27	1	2003	1	UNC5A	5	176305332	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	36082558	176305332	4609928	18	62415										
TIAM2	26230	broad.mit.edu	37	chr6	155577880	155577880	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	gaagatgatgaccaccgtcaGactgtgaagcagggcagccc	13	11	1	5			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr6:155577880G>T	uc003qqb.2	+	29	6004	c.4731G>T	c.(4729-4731)CAG>CAT	p.Q1577H	TIAM2_uc003qqe.2_Missense_Mutation_p.Q1577H|TIAM2_uc010kjj.2_Missense_Mutation_p.Q1139H|TIAM2_uc003qqf.2_Missense_Mutation_p.Q953H|TIAM2_uc011efl.1_Missense_Mutation_p.Q921H|TIAM2_uc003qqg.2_Missense_Mutation_p.Q889H|TIAM2_uc003qqh.2_Missense_Mutation_p.Q502H|uc003qqi.1_5'Flank	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1577					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		ACCACCGTCAGACTGTGAAGC	0.537													16	49	---	---	---	---	PASS	T	155577880	T	T	155577880	3	4	176	1	0	0	0	0	1	0	0	0	15888	933	33	2	4825	2	TIAM2	6	155577880	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08		155577880	15537187	19	62416										
KIAA1549	57670	broad.mit.edu	37	chr7	138601663	138601663	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ggggggctctgacttgcggcGtcacccatcagggtggagtc	17	11	3	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr7:138601663G>A	uc011kql.1	-	2	2758	c.2709C>T	c.(2707-2709)GAC>GAT	p.D903D	KIAA1549_uc003vuk.3_Silent_p.D853D|KIAA1549_uc011kqj.1_Silent_p.D903D	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	903						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GACTTGCGGCGTCACCCATCA	0.622			O	BRAF	pilocytic astrocytoma								5	25	---	---	---	---	PASS	A	138601663	A	A	138601663	2	1	176	1	0	0	0	0	0	0	0	1	8244	1136	40	1		1	KIAA1549	7	138601663	Silent	SNP	G	TCGA-85-6175-01A-11D-1817-08		138601663	20537000	20	62417										
ATP6V1H	51606	broad.mit.edu	37	chr8	54682288	54682288	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ccagatttaagttctgaactGtattcatcaaatgaactata	5	7	3	3	rs113474015		TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr8:54682288G>C	uc003xrl.2	-	11	1217	c.1065C>G	c.(1063-1065)TAC>TAG	p.Y355*	ATP6V1H_uc003xrk.2_Nonsense_Mutation_p.Y315*|ATP6V1H_uc003xrm.2_Nonsense_Mutation_p.Y355*|ATP6V1H_uc003xrn.2_Nonsense_Mutation_p.Y337*|ATP6V1H_uc011ldv.1_Nonsense_Mutation_p.Y275*|ATP6V1H_uc010lyd.2_Nonsense_Mutation_p.Y291*	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	355					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)			GTTCTGAACTGTATTCATCAA	0.313													11	46	---	---	---	---	PASS	C	54682288	C	C	54682288	4	2	176	1	0	0	0	0	0	1	0	0	1189	1372	48	4	402	4	ATP6V1H	8	54682288	Nonsense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08		54682288	91681734	21	62418										
HAS2	3037	broad.mit.edu	37	chr8	122641065	122641065	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ttgttggacaagaccaattgCgttacgtgttgcgagctttc	11	8	0	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr8:122641065C>T	uc003yph.2	-	2	1054	c.516G>A	c.(514-516)ACG>ACA	p.T172T		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	172	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			AGACCAATTGCGTTACGTGTT	0.458													38	327	---	---	---	---	PASS	T	122641065	T	T	122641065	2	4	176	1	0	0	0	0	0	0	0	1	6962	755	27	1		1	HAS2	8	122641065	Silent	SNP	C	TCGA-85-6175-01A-11D-1817-08	67958777	122641065	23722957	22	62419										
CYP11B2	1585	broad.mit.edu	37	chr8	143999120	143999120	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	gcagcctcagccacctgttgCctggatgctggggcatggct	14	13	1	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr8:143999120C>T	uc003yxk.1	-	1	140	c.137G>A	c.(136-138)GGC>GAC	p.G46D		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	46					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)	CCACCTGTTGCCTGGATGCTG	0.647									Familial_Hyperaldosteronism_type_I				11	93	---	---	---	---	PASS	T	143999120	T	T	143999120	3	4	176	1	0	0	0	0	1	0	0	0	4146	739	26	3	1410	3	CYP11B2	8	143999120	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	21358055	143999120	2364902	23	62420										
KIAA2026	158358	broad.mit.edu	37	chr9	5988344	5988344	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	aatttttttcttaacatttaCcttttttcttcttttgctct	1	8	4	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr9:5988344C>G	uc003zjq.3	-	2	1010	c.794_splice	c.e2+1	p.R265_splice		NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358											ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		TTAACATTTACCTTTTTTCTT	0.353													3	52	---	---	---	---	PASS	G	5988344	G	G	5988344	5	3	176	1	0	0	0	0	0	0	1	0	8270	521	18	4	5544	4	KIAA2026	9	5988344	Splice_Site	SNP	C	TCGA-85-6175-01A-11D-1817-08		5988344	135225087	24	62421										
BNC2	54796	broad.mit.edu	37	chr9	16419078	16419078	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	cagaggaaaacatcatattgCaacctgggactttgcacttg	9	9	1	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr9:16419078C>A	uc003zml.2	-	7	3349	c.3209G>T	c.(3208-3210)TGC>TTC	p.C1070F	BNC2_uc011lmw.1_Missense_Mutation_p.C975F|BNC2_uc003zmm.2_3'UTR|BNC2_uc011lmv.1_3'UTR|BNC2_uc003zmj.2_3'UTR|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.C857F	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	1070	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		CATCATATTGCAACCTGGGAC	0.433													103	45	---	---	---	---	PASS	A	16419078	A	A	16419078	3	1	176	1	0	0	0	0	1	0	0	0	1475	710	25	3	94	3	BNC2	9	16419078	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	10430734	16419078	124794353	25	62422										
SYK	6850	broad.mit.edu	37	chr9	93639979	93639979	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ccgtacatcgtgcggatgatCgggatatgcgaggccgagtc	15	10	0	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr9:93639979C>T	uc004aqz.2	+	10	1513	c.1308C>T	c.(1306-1308)ATC>ATT	p.I436I	SYK_uc004ara.2_Silent_p.I413I|SYK_uc004arb.2_Silent_p.I413I|SYK_uc004arc.2_Silent_p.I436I|SYK_uc011ltr.1_RNA|SYK_uc011lts.1_RNA|SYK_uc011ltt.1_RNA	NM_003177	NP_003168	P43405	KSYK_HUMAN	spleen tyrosine kinase isoform 1	436	Protein kinase.				cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						TGCGGATGATCGGGATATGCG	0.502			T	ETV6|ITK	MDS|peripheral T-cell lymphoma								14	77	---	---	---	---	PASS	T	93639979	T	T	93639979	2	4	176	1	0	0	0	0	0	0	0	1	15435	874	31	2		2	SYK	9	93639979	Silent	SNP	C	TCGA-85-6175-01A-11D-1817-08	77220901	93639979	47573452	26	62423										
HSPA5	3309	broad.mit.edu	37	chr9	128001281	128001281	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	aaaagtcttctccttcatagAaggactcaatttcaattctt	4	9	6	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr9:128001281A>G	uc004bpn.2	-	5	1191	c.935T>C	c.(934-936)TTC>TCC	p.F312S		NM_005347	NP_005338	P11021	GRP78_HUMAN	heat shock 70kDa protein 5	312					anti-apoptosis|cellular response to glucose starvation|ER-associated protein catabolic process|platelet activation|platelet degranulation|regulation of protein folding in endoplasmic reticulum	cell surface|endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|integral to endoplasmic reticulum membrane|melanosome|midbody|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|calcium ion binding|caspase inhibitor activity|chaperone binding|misfolded protein binding|protein binding, bridging|protein domain specific binding|ubiquitin protein ligase binding|unfolded protein binding			ovary(3)|skin(1)	4					Antihemophilic Factor(DB00025)	TCCTTCATAGAAGGACTCAAT	0.458										Prostate(1;0.17)			21	59	---	---	---	---	PASS	G	128001281	G	G	128001281	3	3	176	1	0	0	0	0	1	0	0	0	7414	246	9	5	1045	5	HSPA5	9	128001281	Missense_Mutation	SNP	A	TCGA-85-6175-01A-11D-1817-08	34361302	128001281	13212150	27	62424										
OBP2A	29991	broad.mit.edu	37	chr9	138439807	138439807	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ccagcgccgtgggggcctgcGctacatgggaaagcttgtgg	17	11	0	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr9:138439807G>A	uc004cgb.2	+	4	410	c.368G>A	c.(367-369)CGC>CAC	p.R123H	OBP2A_uc004cgc.2_Missense_Mutation_p.R123H|OBP2A_uc010nau.2_RNA|OBP2A_uc010nav.2_Silent_p.A78A	NM_014582	NP_055397	Q9NY56	OBP2A_HUMAN	odorant binding protein 2A precursor	123					response to stimulus|sensory perception of smell	extracellular region	odorant binding|transporter activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.39e-07)|Epithelial(140;1.11e-06)|all cancers(34;2.04e-05)		GGGGGCCTGCGCTACATGGGA	0.617													9	45	---	---	---	---	PASS	A	138439807	A	A	138439807	3	1	176	1	0	0	0	0	1	0	0	0	10810	1087	38	1	382	1	OBP2A	9	138439807	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	10438526	138439807	2773624	28	62425										
USP54	159195	broad.mit.edu	37	chr10	75276561	75276561	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	gcagcccagagtttaaggcaAgagaagaatgttcagtggac	13	7	1	3			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr10:75276561A>G	uc001juo.2	-	18	3640	c.3623T>C	c.(3622-3624)CTT>CCT	p.L1208P	USP54_uc010qkk.1_Missense_Mutation_p.L390P|USP54_uc001juk.2_Missense_Mutation_p.L296P|USP54_uc001jul.2_Missense_Mutation_p.L296P|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	1208					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					GTTTAAGGCAAGAGAAGAATG	0.522													25	181	---	---	---	---	PASS	G	75276561	G	G	75276561	3	3	176	1	0	0	0	0	1	0	0	0	17082	72	3	5	1451	5	USP54	10	75276561	Missense_Mutation	SNP	A	TCGA-85-6175-01A-11D-1817-08		75276561	60258186	29	62426										
USP54	159195	broad.mit.edu	37	chr10	75286428	75286428	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	agaaaggctgactctttgtcCagccacccatggatgctgtg	11	11	1	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr10:75286428C>A	uc001juo.2	-	14	2188	c.2171G>T	c.(2170-2172)TGG>TTG	p.W724L	USP54_uc010qkk.1_5'Flank|USP54_uc001juk.2_5'UTR|USP54_uc001jul.2_5'UTR|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA|USP54_uc001jup.2_Missense_Mutation_p.W724L	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	724					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					ACTCTTTGTCCAGCCACCCAT	0.517													4	116	---	---	---	---	PASS	A	75286428	A	A	75286428	3	1	176	1	0	0	0	0	1	0	0	0	17082	595	21	3	2919	3	USP54	10	75286428	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	9867	75286428	60248319	30	62427										
SORCS3	22986	broad.mit.edu	37	chr10	106927088	106927088	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	tggccatgaaacacacacctCtgccagtcaggcatttgtgg	10	12	2	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr10:106927088C>A	uc001kyi.1	+	13	2109	c.1882C>A	c.(1882-1884)CTG>ATG	p.L628M		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	628	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		ACACACACCTCTGCCAGTCAG	0.423													4	89	---	---	---	---	PASS	A	106927088	A	A	106927088	3	1	176	1	0	0	0	0	1	0	0	0	14932	912	32	2	1932	2	SORCS3	10	106927088	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	31640660	106927088	28607659	31	62428										
MUC5B	727897	broad.mit.edu	37	chr11	1264911	1264911	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	accaccgagtcacccccttcTccagggacgaccaccccggg	9	20	2	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr11:1264911T>C	uc009ycr.1	+	48	8841	c.8715T>C	c.(8713-8715)TCT>TCC	p.S2905S	MUC5B_uc001ltb.2_Silent_p.S2270S	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2267	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CACCCCCTTCTCCAGGGACGA	0.677													3	80	---	---	---	---	PASS	C	1264911	C	C	1264911	2	2	176	1	0	0	0	0	0	0	0	1	9979	1538	54	5		5	MUC5B	11	1264911	Silent	SNP	T	TCGA-85-6175-01A-11D-1817-08		1264911	133741605	32	62429										
SPRYD5	84767	broad.mit.edu	37	chr11	55653687	55653687	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ggaaaccacaagaaccagatGctggaaggttagtaccgtat	11	8	0	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr11:55653687G>T	uc010rip.1	+	3	592	c.500G>T	c.(499-501)TGC>TTC	p.C167F	SPRYD5_uc010riq.1_Missense_Mutation_p.C24F	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	167						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				AGAACCAGATGCTGGAAGGTT	0.398													5	59	---	---	---	---	PASS	T	55653687	T	T	55653687	3	4	176	1	0	0	0	0	1	0	0	0	15110	1319	46	3	506	3	SPRYD5	11	55653687	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	54388776	55653687	79352829	33	62430										
PAK1	5058	broad.mit.edu	37	chr11	77047173	77047173	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	tatggaggctccccttcaatCatttcgatggccatgatgcc	9	12	2	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr11:77047173C>T	uc001oyh.3	-	13	1904	c.1371G>A	c.(1369-1371)ATG>ATA	p.M457I	PAK1_uc010rso.1_Missense_Mutation_p.M359I|PAK1_uc001oyg.3_Missense_Mutation_p.M457I|PAK1_uc001oyi.1_Missense_Mutation_p.M457I|PAK1_uc010rsn.1_Missense_Mutation_p.M170I	NM_002576	NP_002567	Q13153	PAK1_HUMAN	p21-activated kinase 1 isoform 2	457	Protein kinase.				apoptosis|axon guidance|cytoskeleton organization|ER-nucleus signaling pathway|positive regulation of JUN kinase activity|positive regulation of peptidyl-serine phosphorylation|protein autophosphorylation|T cell costimulation|T cell receptor signaling pathway	cytosol|focal adhesion|Golgi apparatus	ATP binding|collagen binding|protein binding|protein serine/threonine kinase activity			skin(2)|stomach(1)|lung(1)	4	all_cancers(14;1.75e-18)					CCCCTTCAATCATTTCGATGG	0.498													9	100	---	---	---	---	PASS	T	77047173	T	T	77047173	3	4	176	1	0	0	0	0	1	0	0	0	11399	826	29	2	331	2	PAK1	11	77047173	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	21393486	77047173	57959343	34	62431										
CASP5	838	broad.mit.edu	37	chr11	104871149	104871149	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ctaggatgccatgagacatgAgtaccaagaacgtgctgtca	11	9	1	3			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr11:104871149A>G	uc010rva.1	-	6	823	c.791T>C	c.(790-792)CTC>CCC	p.L264P	CASP5_uc010ruz.1_Missense_Mutation_p.L277P|CASP5_uc010rvb.1_Missense_Mutation_p.L206P|CASP5_uc010rvc.1_Missense_Mutation_p.L122P|CASP5_uc009yxh.2_Missense_Mutation_p.L46P|CASP5_uc010rvd.1_Missense_Mutation_p.L46P	NM_004347	NP_004338	P51878	CASP5_HUMAN	caspase 5 isoform a precursor	264					apoptosis|cellular response to mechanical stimulus|proteolysis|regulation of apoptosis	intracellular	cysteine-type endopeptidase activity|protein binding			ovary(2)|lung(1)	3		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000943)|Epithelial(105;0.0104)|all cancers(92;0.042)		ATGAGACATGAGTACCAAGAA	0.458													3	106	---	---	---	---	PASS	G	104871149	G	G	104871149	3	3	176	1	0	0	0	0	1	0	0	0	2674	304	11	5	529	5	CASP5	11	104871149	Missense_Mutation	SNP	A	TCGA-85-6175-01A-11D-1817-08	27823976	104871149	30135367	35	62432										
NRIP2	83714	broad.mit.edu	37	chr12	2939920	2939920	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	tctctgtcctgctggtcttcCtcctgctctcctggccatga	8	16	3	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr12:2939920C>T	uc001qlc.2	-	2	521	c.449G>A	c.(448-450)AGG>AAG	p.R150K	NRIP2_uc010sed.1_Missense_Mutation_p.R150K	NM_031474	NP_113662	Q9BQI9	NRIP2_HUMAN	nuclear receptor interacting protein 2	150					proteolysis|transcription, DNA-dependent	cytoplasm|nucleus	aspartic-type endopeptidase activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GCTGGTCTTCCTCCTGCTCTC	0.572													11	40	---	---	---	---	PASS	T	2939920	T	T	2939920	3	4	176	1	0	0	0	0	1	0	0	0	10653	681	24	3	416	3	NRIP2	12	2939920	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08		2939920	130911975	36	62433										
ETNK1	55500	broad.mit.edu	37	chr12	22812066	22812066	+	Missense_Mutation	SNP	G	A	A													0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ctctcattcccacaggatttGcagatgaagacattaataaa							TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr12:22812066G>A	uc001rft.2	+	3	824	c.802G>A	c.(802-804)GCA>ACA	p.A268T	ETNK1_uc009ziz.2_Missense_Mutation_p.A268T	NM_018638	NP_061108	Q9HBU6	EKI1_HUMAN	ethanolamine kinase 1 isoform A	268					phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|ethanolamine kinase activity				0						CACAGGATTTGCAGATGAAGA	0.328													9	66	---	---	---	---	PASS	A	22812066	A	A	22812066	3	1	176	1	0	0	0	0	1	0	0	0	5273	1319	46	3	910	3	ETNK1	12	22812066	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	19872146	22812066	111039829	37	62434	1079	2								
ETNK1	55500	broad.mit.edu	37	chr12	22812075	22812075	+	Missense_Mutation	SNP	G	C	C													0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ccacaggatttgcagatgaaGacattaataaaaggtaaaat							TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr12:22812075G>C	uc001rft.2	+	3	833	c.811G>C	c.(811-813)GAC>CAC	p.D271H	ETNK1_uc009ziz.2_Missense_Mutation_p.D271H	NM_018638	NP_061108	Q9HBU6	EKI1_HUMAN	ethanolamine kinase 1 isoform A	271					phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|ethanolamine kinase activity				0						TGCAGATGAAGACATTAATAA	0.328													10	62	---	---	---	---	PASS	C	22812075	C	C	22812075	3	2	176	1	0	0	0	0	1	0	0	0	5273	942	33	2	919	2	ETNK1	12	22812075	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	9	22812075	111039820	38	62435	1079	2								
SLITRK1	114798	broad.mit.edu	37	chr13	84455475	84455475	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	aaatggtaaaactgggaagtCggggcagtgaaacgctgcag	15	6	0	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr13:84455475C>T	uc001vlk.2	-	1	1054	c.168G>A	c.(166-168)CCG>CCA	p.P56P		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	56	LRRNT.|Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		ACTGGGAAGTCGGGGCAGTGA	0.438													14	89	---	---	---	---	PASS	T	84455475	T	T	84455475	2	4	176	1	0	0	0	0	0	0	0	1	14742	871	31	2		2	SLITRK1	13	84455475	Silent	SNP	C	TCGA-85-6175-01A-11D-1817-08		84455475	30714403	39	62436										
MYH7	4625	broad.mit.edu	37	chr14	23890182	23890182	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ctcacctgaagctccttgagCttcttctgcagctggctgcc	9	15	3	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr14:23890182C>G	uc001wjx.2	-	26	3427	c.3321G>C	c.(3319-3321)AAG>AAC	p.K1107N	MIR208B_hsa-mir-208b|MI0005570_5'Flank	NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1107	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		GCTCCTTGAGCTTCTTCTGCA	0.582													15	83	---	---	---	---	PASS	G	23890182	G	G	23890182	3	3	176	1	0	0	0	0	1	0	0	0	10039	796	28	4	2546	4	MYH7	14	23890182	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08		23890182	83459358	40	62437										
PLEKHH1	57475	broad.mit.edu	37	chr14	68050582	68050582	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	caggcgctatagacatggggCccccgctgaacagctgaggt	14	12	0	3			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr14:68050582C>A	uc001xjl.1	+	25	3693	c.3551C>A	c.(3550-3552)GCC>GAC	p.A1184D	PLEKHH1_uc010tsw.1_Missense_Mutation_p.A752D|PLEKHH1_uc001xjn.1_Missense_Mutation_p.A699D|PLEKHH1_uc010tsx.1_Missense_Mutation_p.A49D|PLEKHH1_uc001xjo.1_Missense_Mutation_p.A49D|PLEKHH1_uc001xjp.1_Missense_Mutation_p.A49D	NM_020715	NP_065766	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H	1184	FERM.					cytoskeleton	binding				0				all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)		AGACATGGGGCCCCCGCTGAA	0.607											OREG0022749	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	31	---	---	---	---	PASS	A	68050582	A	A	68050582	3	1	176	1	0	0	0	0	1	0	0	0	12076	739	26	3	3645	3	PLEKHH1	14	68050582	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	44160400	68050582	39298958	41	62438										
UBR7	55148	broad.mit.edu	37	chr14	93677049	93677049	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	aaaatttggaatgcaaattaCttcctgtaagtaagcactgt	7	6	0	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr14:93677049C>T	uc001ybm.3	+	3	576	c.340C>T	c.(340-342)CTT>TTT	p.L114F	UBR7_uc001ybn.3_Missense_Mutation_p.L38F|UBR7_uc010auq.2_5'UTR	NM_175748	NP_786924	Q8N806	UBR7_HUMAN	ubiquitin protein ligase E3 component n-recognin	114	UBR-type.						ubiquitin-protein ligase activity|zinc ion binding				0						ATGCAAATTACTTCCTGTAAG	0.289													4	22	---	---	---	---	PASS	T	93677049	T	T	93677049	3	4	176	1	0	0	0	0	1	0	0	0	16903	565	20	3	350	3	UBR7	14	93677049	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	25626467	93677049	13672491	42	62439										
KIF26A	26153	broad.mit.edu	37	chr14	104638211	104638211	+	Frame_Shift_Del	DEL	C	-	-													0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	cgcaggcccccggcgagccgCcactgctgcagttcccaaga							TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr14:104638211delC	uc001yos.3	+	6	1265	c.1265delC	c.(1264-1266)GCCfs	p.A422fs		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	422	Kinesin-motor.				blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		CGGCGAGCCGCCACTGCTGCA	0.682													4	2	---	---	---	---		-	104638211	-	-	104638211	7	5	176	1	0	1	0	1	0	0	0	0	8294	739	26	0	1287	0	KIF26A	14	104638211	Frame_Shift_Del	DEL	C	TCGA-85-6175-01A-11D-1817-08	10961162	104638211	2711329	43	62440										
MYLPF	29895	broad.mit.edu	37	chr16	30387745	30387745	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ttcccccaaccccctccaggCcgcctcaatgtgaagaatga	7	17	1	3			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr16:30387745C>A	uc002dxv.1	+	4	230	c.174C>A	c.(172-174)GGC>GGA	p.G58G		NM_013292	NP_037424	Q96A32	MLRS_HUMAN	myosin light chain, phosphorylatable, fast	58	EF-hand 1.				skeletal muscle tissue development	muscle myosin complex	calcium ion binding|structural constituent of muscle				0			Colorectal(24;0.193)			CCCCTCCAGGCCGCCTCAATG	0.507													7	70	---	---	---	---	PASS	A	30387745	A	A	30387745	2	1	176	1	0	0	0	0	0	0	0	1	10060	753	26	3		3	MYLPF	16	30387745	Silent	SNP	C	TCGA-85-6175-01A-11D-1817-08		30387745	59967008	44	62441										
PDP2	57546	broad.mit.edu	37	chr16	66918200	66918200	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	gtttcagaatgtcaagtactGtgtcctactggatcttaaat	8	7	3	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr16:66918200G>T	uc002eqk.1	+	2	175	c.13G>T	c.(13-15)GTG>TTG	p.V5L		NM_020786	NP_065837	Q9P2J9	PDP2_HUMAN	pyruvate dehydrogenase phosphatase isoenzyme 2	5					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity|metal ion binding			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		GTCAAGTACTGTGTCCTACTG	0.328													9	148	---	---	---	---	PASS	T	66918200	T	T	66918200	3	4	176	1	0	0	0	0	1	0	0	0	11686	1377	48	3	15	3	PDP2	16	66918200	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	36530455	66918200	23436553	45	62442										
CES8	283848	broad.mit.edu	37	chr16	67039259	67039259	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	atagttcaagatgccactttCgtgtatgccacactgcagac	8	11	1	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr16:67039259C>A	uc002eqv.2	+	10	1240	c.1197C>A	c.(1195-1197)TTC>TTA	p.F399L	CES8_uc010vix.1_Missense_Mutation_p.F426L|CES8_uc002eqw.2_Missense_Mutation_p.F399L|CES8_uc002eqy.2_Missense_Mutation_p.F328L|CES8_uc002eqx.2_Missense_Mutation_p.F232L|CES8_uc010viy.1_Missense_Mutation_p.F332L|CES8_uc010viz.1_Missense_Mutation_p.F328L|CES8_uc002eqz.2_5'Flank	NM_173815	NP_776176	Q5XG92	EST4A_HUMAN	carboxylesterase 8 (putative)	426						extracellular region	carboxylesterase activity				0						ATGCCACTTTCGTGTATGCCA	0.532													4	69	---	---	---	---	PASS	A	67039259	A	A	67039259	3	1	176	1	0	0	0	0	1	0	0	0	3273	883	31	2	1401	2	CES8	16	67039259	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	121059	67039259	23315494	46	62443										
LDHD	197257	broad.mit.edu	37	chr16	75146331	75146331	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ccgcatggtctccacgcccaCggcgcccacctcctcctgca	8	22	1	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr16:75146331C>T	uc002fdm.2	-	11	1494	c.1447G>A	c.(1447-1449)GTG>ATG	p.V483M	LDHD_uc002fdn.2_Missense_Mutation_p.V460M	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	483							D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						TCCACGCCCACGGCGCCCACC	0.662													4	36	---	---	---	---	PASS	T	75146331	T	T	75146331	3	4	176	1	0	0	0	0	1	0	0	0	8703	536	19	1	80	1	LDHD	16	75146331	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	8107072	75146331	15208422	47	62444										
MNT	4335	broad.mit.edu	37	chr17	2298341	2298341	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ctgcaaaggcttggggctgcCattgggtggaatggtggcct	17	8	0	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr17:2298341C>A	uc002fur.2	-	2	733	c.481G>T	c.(481-483)GGC>TGC	p.G161C		NM_020310	NP_064706	Q99583	MNT_HUMAN	MAX binding protein	161					multicellular organismal development|negative regulation of cell proliferation|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			skin(1)	1				Colorectal(2;1.37e-05)|READ - Rectum adenocarcinoma(2;8.68e-05)		TTGGGGCTGCCATTGGGTGGA	0.697													3	16	---	---	---	---	PASS	A	2298341	A	A	2298341	3	1	176	1	0	0	0	0	1	0	0	0	9678	594	21	3	1287	3	MNT	17	2298341	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08		2298341	78896869	48	62445										
TOP3A	7156	broad.mit.edu	37	chr17	18210214	18210214	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	aaagaccctaccttgatgtcTacaaaattctctgggcagta	7	10	2	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr17:18210214T>A	uc002gsx.1	-	4	610	c.381A>T	c.(379-381)GTA>GTT	p.V127V	TOP3A_uc002gsw.1_5'UTR|TOP3A_uc010vxs.1_Silent_p.V25V|TOP3A_uc010cqa.1_RNA	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	127	Toprim.				DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						CCTTGATGTCTACAAAATTCT	0.408													6	44	---	---	---	---	PASS	A	18210214	A	A	18210214	2	1	176	1	0	0	0	0	0	0	0	1	16364	1509	53	5		5	TOP3A	17	18210214	Silent	SNP	T	TCGA-85-6175-01A-11D-1817-08	15911873	18210214	62984996	49	62446										
KIAA0100	9703	broad.mit.edu	37	chr17	26964040	26964040	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	agcatggaaaggctgagcacTggggtagggatgtcaggggc	19	6	1	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr17:26964040T>C	uc002hbu.2	-	15	2019	c.1920A>G	c.(1918-1920)CCA>CCG	p.P640P		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	640						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					GGCTGAGCACTGGGGTAGGGA	0.547													9	98	---	---	---	---	PASS	C	26964040	C	C	26964040	2	2	176	1	0	0	0	0	0	0	0	1	8154	1567	55	5		5	KIAA0100	17	26964040	Silent	SNP	T	TCGA-85-6175-01A-11D-1817-08	8753826	26964040	54231170	50	62447										
NF1	4763	broad.mit.edu	37	chr17	29665757	29665757	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ttaaaaggacctgacacttaCaacagtcaagttctgataga	7	8	2	3			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr17:29665757C>A	uc002hgg.2	+	46	7188	c.6855C>A	c.(6853-6855)TAC>TAA	p.Y2285*	NF1_uc002hgh.2_Nonsense_Mutation_p.Y2264*|NF1_uc010cso.2_Nonsense_Mutation_p.Y473*|NF1_uc010wbt.1_Intron|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2285					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.Y2285fs*5(4)|p.Y2285*(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		CTGACACTTACAACAGTCAAG	0.308			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			20	117	---	---	---	---	PASS	A	29665757	A	A	29665757	4	1	176	1	0	0	0	0	0	1	0	0	10356	489	17	3	7098	3	NF1	17	29665757	Nonsense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	2701717	29665757	51529453	51	62448										
TMEM106A	113277	broad.mit.edu	37	chr17	41368482	41368482	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	ccccagaatatcttaaacatCtccaatggcaactactaccc	3	15	2	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr17:41368482C>T	uc002idn.1	+	6	681	c.444C>T	c.(442-444)ATC>ATT	p.I148I	TMEM106A_uc010why.1_Silent_p.I100I|TMEM106A_uc010cze.1_Silent_p.I148I|TMEM106A_uc010whz.1_Intron	NM_145041	NP_659478	Q96A25	T106A_HUMAN	transmembrane protein 106A	148						integral to membrane					0		Breast(137;0.0164)		BRCA - Breast invasive adenocarcinoma(366;0.0917)		TCTTAAACATCTCCAATGGCA	0.517													50	347	---	---	---	---	PASS	T	41368482	T	T	41368482	2	4	176	1	0	0	0	0	0	0	0	1	16017	903	32	2		2	TMEM106A	17	41368482	Silent	SNP	C	TCGA-85-6175-01A-11D-1817-08	11702725	41368482	39826728	52	62449										
CASKIN2	57513	broad.mit.edu	37	chr17	73497987	73497987	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	actggaggctgcatggcgggGctgggagcaaggggggttgg	23	6	0	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr17:73497987G>T	uc002joc.2	-	18	3718	c.3168C>A	c.(3166-3168)AGC>AGA	p.S1056R	CASKIN2_uc010wsc.1_Missense_Mutation_p.S974R	NM_020753	NP_065804	Q8WXE0	CSKI2_HUMAN	cask-interacting protein 2 isoform a	1056	Pro-rich.					cytoplasm				pancreas(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCATGGCGGGGCTGGGAGCAA	0.677													38	121	---	---	---	---	PASS	T	73497987	T	T	73497987	3	4	176	1	0	0	0	0	1	0	0	0	2667	1194	42	3	452	3	CASKIN2	17	73497987	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	32129505	73497987	7697223	53	62450										
C19orf26	255057	broad.mit.edu	37	chr19	1231080	1231080	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	cacaggtccacccctagcacCtccatctactgaaaaatacc	4	17	1	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr19:1231080C>T	uc002lrm.2	-	9	1431	c.1156G>A	c.(1156-1158)GGT>AGT	p.G386S		NM_152769	NP_689982	Q8N350	DOS_HUMAN	downstream of Stk11	414						integral to membrane					0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCCTAGCACCTCCATCTACT	0.721										HNSCC(14;0.022)			8	23	---	---	---	---	PASS	T	1231080	T	T	1231080	3	4	176	1	0	0	0	0	1	0	0	0	1916	681	24	3	191	3	C19orf26	19	1231080	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08		1231080	57897903	54	62451										
TSSK6	83983	broad.mit.edu	37	chr19	19625717	19625717	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	gggtgacgcgtaggcggctgAgccgcagtaggtggtgctca	19	9	1	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr19:19625717A>C	uc002nmr.2	-	1	753	c.520T>G	c.(520-522)TCA>GCA	p.S174A	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	174	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						TAGGCGGCTGAGCCGCAGTAG	0.662													5	22	---	---	---	---	PASS	C	19625717	C	C	19625717	3	2	176	1	0	0	0	0	1	0	0	0	16669	304	11	5	305	5	TSSK6	19	19625717	Missense_Mutation	SNP	A	TCGA-85-6175-01A-11D-1817-08	18394637	19625717	39503266	55	62452										
ZNF473	25888	broad.mit.edu	37	chr19	50549917	50549917	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	gattactgcgggaaggccttCggcctgagtgctgagcttgt	15	9	0	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr19:50549917C>T	uc002prn.2	+	5	2454	c.2217C>T	c.(2215-2217)TTC>TTT	p.F739F	ZNF473_uc002prm.2_Silent_p.F739F|ZNF473_uc010ybo.1_Silent_p.F727F	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	739	C2H2-type 16.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		GGAAGGCCTTCGGCCTGAGTG	0.512											OREG0025632	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	113	---	---	---	---	PASS	T	50549917	T	T	50549917	2	4	176	1	0	0	0	0	0	0	0	1	17928	883	31	2		2	ZNF473	19	50549917	Silent	SNP	C	TCGA-85-6175-01A-11D-1817-08	30924200	50549917	8579066	56	62453										
ACTR5	79913	broad.mit.edu	37	chr20	37400216	37400216	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	tttcaggttcaacttgcctcGaaccctgtgctggatgcctg	10	12	2	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr20:37400216G>A	uc002xjd.2	+	9	1606	c.1581G>A	c.(1579-1581)TCG>TCA	p.S527S		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	527					DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)				AACTTGCCTCGAACCCTGTGC	0.507													30	98	---	---	---	---	PASS	A	37400216	A	A	37400216	2	1	176	1	0	0	0	0	0	0	0	1	215	1045	37	2		2	ACTR5	20	37400216	Silent	SNP	G	TCGA-85-6175-01A-11D-1817-08		37400216	25625304	57	62454										
GNB1L	54584	broad.mit.edu	37	chr22	19799876	19799876	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	cccggccaggatgctgctccGgcagaagcccacactctcca	10	18	1	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr22:19799876G>A	uc002zqe.1	-	4	743	c.349C>T	c.(349-351)CGG>TGG	p.R117W	GNB1L_uc002zqd.1_5'UTR|GNB1L_uc002zqf.1_Missense_Mutation_p.R117W	NM_053004	NP_443730	Q9BYB4	GNB1L_HUMAN	guanine nucleotide binding protein	117					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	internal side of plasma membrane|intracellular				breast(1)	1	Colorectal(54;0.0993)					ATGCTGCTCCGGCAGAAGCCC	0.697													10	42	---	---	---	---	PASS	A	19799876	A	A	19799876	3	1	176	1	0	0	0	0	1	0	0	0	6516	1115	39	1	650	1	GNB1L	22	19799876	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08		19799876	31504690	58	62455										
KLHL22	84861	broad.mit.edu	37	chr22	20819559	20819559	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	gctttgggggctcgtgcagcGagatctggtcagcctgcacc	15	12	2	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr22:20819559G>T	uc002zsl.1	-	4	807	c.698C>A	c.(697-699)TCG>TAG	p.S233*	KLHL22_uc011ahr.1_Nonsense_Mutation_p.S90*|KLHL22_uc002zsm.1_Nonsense_Mutation_p.S233*	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	233					cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CTCGTGCAGCGAGATCTGGTC	0.602													3	34	---	---	---	---	PASS	T	20819559	T	T	20819559	4	4	176	1	0	0	0	0	0	1	0	0	8377	1059	37	2	1222	2	KLHL22	22	20819559	Nonsense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	1019683	20819559	30485007	59	62456										
GNAZ	2781	broad.mit.edu	37	chr22	23437925	23437925	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	aggaaaaagaagcagcccggCggtcccggagaattgaccgc	14	11	0	3			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr22:23437925C>T	uc002zwu.1	+	2	580	c.43C>T	c.(43-45)CGG>TGG	p.R15W	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	15						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		AGCAGCCCGGCGGTCCCGGAG	0.637													8	43	---	---	---	---	PASS	T	23437925	T	T	23437925	3	4	176	1	0	0	0	0	1	0	0	0	6514	759	27	1	45	1	GNAZ	22	23437925	Missense_Mutation	SNP	C	TCGA-85-6175-01A-11D-1817-08	2618366	23437925	27866641	60	62457										
SLC5A4	6527	broad.mit.edu	37	chr22	32614643	32614643	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	cctcctccttggttagcttgGgtcccttctgcaaaccgcag	9	15	1	0			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chr22:32614643G>T	uc003ami.2	-	15	1840	c.1838C>A	c.(1837-1839)CCC>CAC	p.P613H		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	613	Cytoplasmic (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						GGTTAGCTTGGGTCCCTTCTG	0.483													5	150	---	---	---	---	PASS	T	32614643	T	T	32614643	3	4	176	1	0	0	0	0	1	0	0	0	14667	1232	43	3	145	3	SLC5A4	22	32614643	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	9176718	32614643	18689923	61	62458										
MCF2	4168	broad.mit.edu	37	chrX	138687052	138687052	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	tatggaattcatatatttctGccatgtttccaaagagaatg	7	6	2	1			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chrX:138687052G>A	uc004fau.2	-	14	1943	c.1649C>T	c.(1648-1650)GCA>GTA	p.A550V	MCF2_uc004fav.2_Missense_Mutation_p.A566V|MCF2_uc011mwl.1_Missense_Mutation_p.A527V|MCF2_uc010nsh.1_Missense_Mutation_p.A550V|MCF2_uc011mwm.1_Missense_Mutation_p.A511V|MCF2_uc011mwn.1_Missense_Mutation_p.A695V|MCF2_uc004faw.2_Missense_Mutation_p.A610V|MCF2_uc011mwo.1_Missense_Mutation_p.A626V	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	550	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					ATATATTTCTGCCATGTTTCC	0.308													14	152	---	---	---	---	PASS	A	138687052	A	A	138687052	3	1	176	1	0	0	0	0	1	0	0	0	9378	1319	46	3	1204	3	MCF2	23	138687052	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08		138687052	16583508	62	62459										
F8	2157	broad.mit.edu	37	chrX	154189424	154189424	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0645161290322581	4	0.677373665743607	0.946259985475672	0	1.03783353245719	0.06993006993007	0.321693358314871	0	agatgttatatggtctgcttGcttgattcttaaatataatc	7	5	2	2			TCGA-85-6175-01A-11D-1817-08	TCGA-85-6175-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ba53bf0-a4e1-4b46-b258-610522aac7ee	4ced20e8-5370-451e-be81-d6a1f6b97a33	g.chrX:154189424G>T	uc004fmt.2	-	10	1634	c.1463C>A	c.(1462-1464)GCA>GAA	p.A488E		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	488	F5/8 type A 2.|Plastocyanin-like 3.		A -> G (in HEMA; moderate).		acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TGGTCTGCTTGCTTGATTCTT	0.363													10	58	---	---	---	---	PASS	T	154189424	T	T	154189424	3	4	176	1	0	0	0	0	1	0	0	0	5350	1319	46	3	5688	3	F8	23	154189424	Missense_Mutation	SNP	G	TCGA-85-6175-01A-11D-1817-08	15502372	154189424	1081136	63	62460										
C1orf93	127281	broad.mit.edu	37	chr1	2520063	2520063	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gggctgctggtggtcagcaaAggtgggtcgagggaggggcc	22	7	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:2520063A>C	uc001aju.1	+	5	535	c.459A>C	c.(457-459)AAA>AAC	p.K153N	C1orf93_uc001ajw.1_Missense_Mutation_p.K153N|C1orf93_uc001ajv.1_Missense_Mutation_p.K171N|C1orf93_uc010nzd.1_Missense_Mutation_p.K160T|C1orf93_uc010nze.1_Intron|C1orf93_uc010nzf.1_Intron|C1orf93_uc001ajx.1_Silent_p.R37R	NM_152371	NP_689584	Q8TBF2	PGFS_HUMAN	hypothetical protein LOC127281	153					prostaglandin biosynthetic process	cytosol	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor			central_nervous_system(1)	1	all_cancers(77;0.000167)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.97e-16)|all_lung(118;3.05e-07)|Lung NSC(185;2.8e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Lung SC(97;0.109)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)		Epithelial(90;4.76e-38)|OV - Ovarian serous cystadenocarcinoma(86;6.19e-23)|GBM - Glioblastoma multiforme(42;1.13e-08)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.00205)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.199)		TGGTCAGCAAAGGTGGGTCGA	0.637													41	170	---	---	---	---	PASS	C	2520063	C	C	2520063	3	2	177	1	0	0	0	0	1	0	0	0	2070	86	3	5	477	5	C1orf93	1	2520063	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08		2520063	246730558	1	62461										
PTCHD2	57540	broad.mit.edu	37	chr1	11589694	11589694	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cctggctgcctgcttagctcCagccccgatgggcctaccaa	10	17	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:11589694C>A	uc001ash.3	+	14	3018	c.2880C>A	c.(2878-2880)TCC>TCA	p.S960S		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	960	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		TGCTTAGCTCCAGCCCCGATG	0.627													8	58	---	---	---	---	PASS	A	11589694	A	A	11589694	2	1	177	1	0	0	0	0	0	0	0	1	12733	581	21	3		3	PTCHD2	1	11589694	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	9069631	11589694	237660927	2	62462										
AGMAT	79814	broad.mit.edu	37	chr1	15905419	15905419	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccggatgccaatctgcaccaCacgcttacagtccaggagac	9	15	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:15905419C>T	uc001awv.1	-	4	798	c.655G>A	c.(655-657)GTG>ATG	p.V219M	DNAJC16_uc001awu.2_Intron	NM_024758	NP_079034	Q9BSE5	SPEB_HUMAN	agmatine ureohydrolase (agmatinase) precursor	219					putrescine biosynthetic process|spermidine biosynthetic process	mitochondrion	agmatinase activity|metal ion binding			skin(1)	1		Breast(348;0.000207)|Colorectal(325;0.000258)|Lung NSC(340;0.000359)|all_lung(284;0.000486)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.93e-07)|COAD - Colon adenocarcinoma(227;3.91e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000121)|KIRC - Kidney renal clear cell carcinoma(229;0.00257)|STAD - Stomach adenocarcinoma(313;0.00734)|READ - Rectum adenocarcinoma(331;0.0649)		ATCTGCACCACACGCTTACAG	0.627													5	36	---	---	---	---	PASS	T	15905419	T	T	15905419	3	4	177	1	0	0	0	0	1	0	0	0	385	478	17	3	419	3	AGMAT	1	15905419	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	4315725	15905419	233345202	3	62463										
ZBTB17	7709	broad.mit.edu	37	chr1	16269916	16269916	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cttgccgcagcgctcgcagaCgtagggcttctccccggtgt	13	15	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:16269916C>T	uc001axl.3	-	12	1914	c.1675G>A	c.(1675-1677)GTC>ATC	p.V559I	ZBTB17_uc010obq.1_Missense_Mutation_p.V476I|ZBTB17_uc010obr.1_Missense_Mutation_p.V559I|ZBTB17_uc010obs.1_Missense_Mutation_p.V483I	NM_003443	NP_003434	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17	559	C2H2-type 10.				negative regulation of cell cycle	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		CGCTCGCAGACGTAGGGCTTC	0.657													11	90	---	---	---	---	PASS	T	16269916	T	T	16269916	3	4	177	1	0	0	0	0	1	0	0	0	17524	536	19	1	756	1	ZBTB17	1	16269916	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	364497	16269916	232980705	4	62464										
KIF17	57576	broad.mit.edu	37	chr1	21014254	21014254	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gttccaccttgggcagctccGcaaacctggaggaaacctga	11	13	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:21014254G>T	uc001bdr.3	-	8	1683	c.1565C>A	c.(1564-1566)GCG>GAG	p.A522E	KIF17_uc001bdp.3_5'Flank|KIF17_uc001bdq.3_5'Flank|KIF17_uc009vpx.2_Intron|KIF17_uc001bds.3_Missense_Mutation_p.A522E	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	522					microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		GGGCAGCTCCGCAAACCTGGA	0.542													27	86	---	---	---	---	PASS	T	21014254	T	T	21014254	3	4	177	1	0	0	0	0	1	0	0	0	8279	1087	38	1	1556	1	KIF17	1	21014254	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4744338	21014254	228236367	5	62465										
ALPL	249	broad.mit.edu	37	chr1	21904050	21904050	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctgcatcggggccaacctcgGccactgtgctcctgccagct	11	17	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:21904050G>A	uc001bet.2	+	12	1741	c.1484G>A	c.(1483-1485)GGC>GAC	p.G495D	ALPL_uc010odn.1_Missense_Mutation_p.G443D|ALPL_uc010odo.1_Missense_Mutation_p.G440D|ALPL_uc010odp.1_Missense_Mutation_p.G418D|ALPL_uc001beu.3_Missense_Mutation_p.G495D	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase	495					response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	GCCAACCTCGGCCACTGTGCT	0.687													11	15	---	---	---	---	PASS	A	21904050	A	A	21904050	3	1	177	1	0	0	0	0	1	0	0	0	547	1203	42	3	1526	3	ALPL	1	21904050	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	889796	21904050	227346571	6	62466										
EPHB2	2048	broad.mit.edu	37	chr1	23191524	23191524	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggccggggtgcctgcacccgCtgcggggacaatgtacagta	16	12	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:23191524C>T	uc009vqj.1	+	5	1267	c.1122C>T	c.(1120-1122)CGC>CGT	p.R374R	EPHB2_uc001bge.2_Silent_p.R374R|EPHB2_uc001bgf.2_Silent_p.R374R|EPHB2_uc010odu.1_Silent_p.R374R|hsa-mir-4253|MI0015860_5'Flank	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	374	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		CCTGCACCCGCTGCGGGGACA	0.637									Hereditary_Prostate_Cancer				4	81	---	---	---	---	PASS	T	23191524	T	T	23191524	2	4	177	1	0	0	0	0	0	0	0	1	5175	784	28	3		3	EPHB2	1	23191524	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	1287474	23191524	226059097	7	62467										
SERINC2	347735	broad.mit.edu	37	chr1	31906004	31906004	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggtgctggcctcactgcacGtcatgatgacgctcaccaac	10	14	3	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:31906004G>T	uc010ogh.1	+	9	1417	c.1216G>T	c.(1216-1218)GTC>TTC	p.V406F	SERINC2_uc010ogg.1_Missense_Mutation_p.V403F|SERINC2_uc001bst.2_Missense_Mutation_p.V402F|SERINC2_uc001bsu.2_Missense_Mutation_p.V347F|SERINC2_uc001bsv.2_Missense_Mutation_p.V347F	NM_178865	NP_849196	Q96SA4	SERC2_HUMAN	tumor differentially expressed 2-like	403	Helical; (Potential).					integral to membrane					0		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0629)|Breast(348;0.0707)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0541)|READ - Rectum adenocarcinoma(331;0.151)		CTCACTGCACGTCATGATGAC	0.627													17	57	---	---	---	---	PASS	T	31906004	T	T	31906004	3	4	177	1	0	0	0	0	1	0	0	0	14080	1145	40	1	1238	1	SERINC2	1	31906004	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	8714480	31906004	217344617	8	62468										
HMGB4	127540	broad.mit.edu	37	chr1	34330145	34330145	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gaagagggagaacccgaactGgtcggtggtgcaggtggcca	18	8	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:34330145G>C	uc001bxp.2	+	2	2096	c.353G>C	c.(352-354)TGG>TCG	p.W118S	CSMD2_uc001bxm.1_Intron|CSMD2_uc001bxn.1_Intron|HMGB4_uc001bxq.2_Missense_Mutation_p.W44S	NM_145205	NP_660206	Q8WW32	HMGB4_HUMAN	HMG2 like isoform 1	118						nucleus	DNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AACCCGAACTGGTCGGTGGTG	0.577													15	73	---	---	---	---	PASS	C	34330145	C	C	34330145	3	2	177	1	0	0	0	0	1	0	0	0	7228	1357	47	4	355	4	HMGB4	1	34330145	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2424141	34330145	214920476	9	62469										
GRIK3	2899	broad.mit.edu	37	chr1	37270665	37270665	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cacagagaggaccagcccggCggccaggacaatgaagatgc	14	12	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:37270665C>A	uc001caz.2	-	15	2623	c.2488G>T	c.(2488-2490)GCC>TCC	p.A830S	GRIK3_uc001cba.1_Missense_Mutation_p.A830S	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	830	Helical; (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	ACCAGCCCGGCGGCCAGGACA	0.607													39	58	---	---	---	---	PASS	A	37270665	A	A	37270665	3	1	177	1	0	0	0	0	1	0	0	0	6775	768	27	1	279	1	GRIK3	1	37270665	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2940520	37270665	211979956	10	62470										
IPO13	9670	broad.mit.edu	37	chr1	44415611	44415611	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggaatgtggggctgtcttcCcgctgctggagcagctgcta	15	10	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:44415611C>A	uc001ckx.2	+	2	1402	c.607C>A	c.(607-609)CCG>ACG	p.P203T		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	203	HEAT 2.				protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				GGCTGTCTTCCCGCTGCTGGA	0.637													5	16	---	---	---	---	PASS	A	44415611	A	A	44415611	3	1	177	1	0	0	0	0	1	0	0	0	7794	623	22	3	613	3	IPO13	1	44415611	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	7144946	44415611	204835010	11	62471										
ERI3	79033	broad.mit.edu	37	chr1	44687311	44687311	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttggcaatgttcttgcagtcGtctaaaaaggagagaagaca	11	6	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:44687311G>A	uc001clt.2	-	9	1174	c.933C>T	c.(931-933)GAC>GAT	p.D311D	ERI3_uc010okv.1_Silent_p.D134D|ERI3_uc009vxg.2_Silent_p.D339D|ERI3_uc010okw.1_Silent_p.D233D|ERI3_uc001clu.2_Missense_Mutation_p.T200M	NM_024066	NP_076971	O43414	ERI3_HUMAN	prion protein interacting protein	311	Exonuclease.					intracellular	exonuclease activity|metal ion binding|nucleic acid binding			ovary(2)|large_intestine(1)	3						TCTTGCAGTCGTCTAAAAAGG	0.522													14	50	---	---	---	---	PASS	A	44687311	A	A	44687311	2	1	177	1	0	0	0	0	0	0	0	1	5229	1159	40	1		1	ERI3	1	44687311	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	271700	44687311	204563310	12	62472										
PTCH2	8643	broad.mit.edu	37	chr1	45292393	45292393	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgcagtcttctggaggccacGcagcaggaaggggaactggg	17	9	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:45292393G>A	uc010olf.1	-	18	2755	c.2743C>T	c.(2743-2745)CGT>TGT	p.R915C	PTCH2_uc010olg.1_Missense_Mutation_p.R613C	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	915	Extracellular (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					TGGAGGCCACGCAGCAGGAAG	0.532									Basal_Cell_Nevus_syndrome				4	29	---	---	---	---	PASS	A	45292393	A	A	45292393	3	1	177	1	0	0	0	0	1	0	0	0	12731	1087	38	1	908	1	PTCH2	1	45292393	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	605082	45292393	203958228	13	62473										
ECHDC2	55268	broad.mit.edu	37	chr1	53370344	53370344	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	caggatctcctgggccagtgCtcgtgcccgctggtaggcgg	16	13	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:53370344C>A	uc001cup.3	-	7	922	c.676G>T	c.(676-678)GCA>TCA	p.A226S	ECHDC2_uc001cun.2_Missense_Mutation_p.A149S|ECHDC2_uc001cuo.3_Missense_Mutation_p.A195S|ECHDC2_uc010onk.1_Missense_Mutation_p.A180S	NM_018281	NP_060751	Q86YB7	ECHD2_HUMAN	enoyl Coenzyme A hydratase domain containing 2	226					fatty acid metabolic process	mitochondrion	lyase activity			central_nervous_system(1)	1						TGGGCCAGTGCTCGTGCCCGC	0.672													8	22	---	---	---	---	PASS	A	53370344	A	A	53370344	3	1	177	1	0	0	0	0	1	0	0	0	4894	797	28	3	218	3	ECHDC2	1	53370344	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	8077951	53370344	195880277	14	62474										
C1orf87	127795	broad.mit.edu	37	chr1	60538308	60538308	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cacggggagtcttccaggctGaagacatgattcctttcaaa	10	10	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:60538308G>C	uc001czs.1	-	2	100	c.8C>G	c.(7-9)TCA>TGA	p.S3*		NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	3							calcium ion binding			ovary(1)|breast(1)	2						CTTCCAGGCTGAAGACATGAT	0.428													30	70	---	---	---	---	PASS	C	60538308	C	C	60538308	4	2	177	1	0	0	0	0	0	1	0	0	2064	1294	45	2	1676	2	C1orf87	1	60538308	Nonsense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	7167964	60538308	188712313	15	62475										
INADL	10207	broad.mit.edu	37	chr1	62503707	62503707	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttccagtgccatcaagttctCcatcttctattgaggtaagg	8	10	4	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:62503707C>G	uc001dab.2	+	30	4132	c.4018C>G	c.(4018-4020)CCA>GCA	p.P1340A	INADL_uc009waf.1_Missense_Mutation_p.P1340A|INADL_uc001daa.2_Missense_Mutation_p.P1340A|INADL_uc001dad.3_Missense_Mutation_p.P1037A|INADL_uc001dac.2_RNA|INADL_uc010oot.1_Missense_Mutation_p.P124A|INADL_uc009wag.2_Missense_Mutation_p.P124A|INADL_uc010oou.1_Missense_Mutation_p.P13A	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1340					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						ATCAAGTTCTCCATCTTCTAT	0.383													8	61	---	---	---	---	PASS	G	62503707	G	G	62503707	3	3	177	1	0	0	0	0	1	0	0	0	7731	855	30	2	4132	2	INADL	1	62503707	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	1965399	62503707	186746914	16	62476										
L1TD1	54596	broad.mit.edu	37	chr1	62675738	62675738	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggaggaggatgaggcctcagGgctagaggaggaagaggaac	20	5	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:62675738G>T	uc001dae.3	+	4	1594	c.1292G>T	c.(1291-1293)GGG>GTG	p.G431V		NM_019079	NP_061952	Q5T7N2	LITD1_HUMAN	LINE-1 type transposase domain containing 1	431	Glu-rich.									ovary(1)|skin(1)	2						gaggcctcagggctagaggag	0.224													13	39	---	---	---	---	PASS	T	62675738	T	T	62675738	3	4	177	1	0	0	0	0	1	0	0	0	8589	1232	43	3	1298	3	L1TD1	1	62675738	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	172031	62675738	186574883	17	62477										
DNAJC6	9829	broad.mit.edu	37	chr1	65855271	65855271	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctccagacaaccccaggcatTacggacaaagtggtttcttt	8	12	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:65855271T>C	uc001dcd.1	+	11	1422	c.1258T>C	c.(1258-1260)TAC>CAC	p.Y420H	DNAJC6_uc001dcc.1_Missense_Mutation_p.Y451H|DNAJC6_uc010opc.1_Missense_Mutation_p.Y407H|DNAJC6_uc001dce.1_Missense_Mutation_p.Y477H	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	420					cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						CCCCAGGCATTACGGACAAAG	0.403													16	119	---	---	---	---	PASS	C	65855271	C	C	65855271	3	2	177	1	0	0	0	0	1	0	0	0	4653	1754	61	5	1300	5	DNAJC6	1	65855271	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	3179533	65855271	183395350	18	62478										
IL23R	149233	broad.mit.edu	37	chr1	67724192	67724192	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	acttatgaataataattccaGtgagcaggtcctatatgttg	8	6	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:67724192G>A	uc001ddo.2	+	11	1356	c.1271G>A	c.(1270-1272)AGT>AAT	p.S424N	IL23R_uc009waz.2_Missense_Mutation_p.S221N|IL23R_uc001ddp.2_Intron|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_Missense_Mutation_p.S22N|IL23R_uc010opk.1_3'UTR|IL23R_uc010opl.1_Missense_Mutation_p.S6N|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_Missense_Mutation_p.S170N|IL23R_uc010opn.1_Missense_Mutation_p.S269N|IL23R_uc001ddr.2_RNA|IL23R_uc010opo.1_Intron|IL23R_uc010opp.1_Intron|IL23R_uc010opq.1_Intron|IL23R_uc010opr.1_Intron|IL23R_uc010ops.1_Missense_Mutation_p.S221N|IL23R_uc010opt.1_Missense_Mutation_p.S65N|IL23R_uc010opu.1_Missense_Mutation_p.S120N|IL23R_uc010opv.1_Missense_Mutation_p.S182N|IL23R_uc010opw.1_Missense_Mutation_p.S59N|IL23R_uc010opx.1_Missense_Mutation_p.S65N|IL23R_uc010opy.1_Missense_Mutation_p.S191N|IL23R_uc010opz.1_Missense_Mutation_p.S65N|IL23R_uc010oqa.1_Missense_Mutation_p.S65N|IL23R_uc010oqb.1_Missense_Mutation_p.S253N|IL23R_uc010oqc.1_Missense_Mutation_p.S140N|IL23R_uc010oqd.1_Missense_Mutation_p.S59N|IL23R_uc010oqe.1_Missense_Mutation_p.S22N|IL23R_uc010oqf.1_Missense_Mutation_p.S22N|IL23R_uc010oqg.1_Missense_Mutation_p.S22N|IL23R_uc010oqh.1_Missense_Mutation_p.S65N|IL23R_uc001dds.2_Missense_Mutation_p.S169N|IL23R_uc001ddt.2_Missense_Mutation_p.S22N	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	424	Cytoplasmic (Potential).				inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						AATAATTCCAGTGAGCAGGTC	0.343													11	246	---	---	---	---	PASS	A	67724192	A	A	67724192	3	1	177	1	0	0	0	0	1	0	0	0	7676	1029	36	3	1309	3	IL23R	1	67724192	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1868921	67724192	181526429	19	62479										
RPE65	6121	broad.mit.edu	37	chr1	68910529	68910529	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgttatgacgatccttttctCagtcattgcccgtacgtaag	8	10	2	1	rs61752874		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:68910529C>G	uc001dei.1	-	4	337	c.283G>C	c.(283-285)GAG>CAG	p.E95Q		NM_000329	NP_000320	Q16518	RPE65_HUMAN	retinal pigment epithelium-specific protein	95			E -> Q (in RP20).		visual perception	cytoplasm|plasma membrane	all-trans-retinyl-palmitate hydrolase activity|metal ion binding|retinol isomerase activity			ovary(1)	1						ATCCTTTTCTCAGTCATTGCC	0.448													17	93	---	---	---	---	PASS	G	68910529	G	G	68910529	3	3	177	1	0	0	0	0	1	0	0	0	13545	835	29	2	1362	2	RPE65	1	68910529	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	1186337	68910529	180340092	20	62480										
LRRC7	57554	broad.mit.edu	37	chr1	70477548	70477548	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	actaccttctactattggctAccttcatagtcttcggacat	5	12	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:70477548A>T	uc001dep.2	+	10	989	c.959A>T	c.(958-960)TAC>TTC	p.Y320F	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	320	LRR 13.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						ACTATTGGCTACCTTCATAGT	0.308													13	50	---	---	---	---	PASS	T	70477548	T	T	70477548	3	4	177	1	0	0	0	0	1	0	0	0	9020	391	14	5	997	5	LRRC7	1	70477548	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	1567019	70477548	178773073	21	62481										
LRRIQ3	127255	broad.mit.edu	37	chr1	74507411	74507411	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aaaaaactctttcatactccGctccaatcgtatgtcttttt	3	11	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:74507411G>A	uc001dfy.3	-	7	1396	c.1204C>T	c.(1204-1206)CGG>TGG	p.R402W	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	402										ovary(2)	2						TTCATACTCCGCTCCAATCGT	0.348													42	64	---	---	---	---	PASS	A	74507411	A	A	74507411	3	1	177	1	0	0	0	0	1	0	0	0	9030	1086	38	1	678	1	LRRIQ3	1	74507411	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4029863	74507411	174743210	22	62482										
ASB17	127247	broad.mit.edu	37	chr1	76384686	76384686	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gacgagcaggaattagaagtGaaaatattccatctgggagc	12	6	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:76384686G>A	uc001dhe.1	-	3	979	c.839C>T	c.(838-840)TCA>TTA	p.S280L	ASB17_uc001dhf.1_RNA	NM_080868	NP_543144	Q8WXJ9	ASB17_HUMAN	ankyrin repeat and SOCS box-containing 17	280	SOCS box.				intracellular signal transduction					ovary(1)	1						AATTAGAAGTGAAAATATTCC	0.348													23	81	---	---	---	---	PASS	A	76384686	A	A	76384686	3	1	177	1	0	0	0	0	1	0	0	0	1021	1294	45	2	52	2	ASB17	1	76384686	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1877275	76384686	172865935	23	62483										
PTGFR	5737	broad.mit.edu	37	chr1	78959186	78959186	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aatggtaatccagctcctggCgataatgtgtgtctcctgta	10	9	1	0	rs145816454		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:78959186C>A	uc001din.2	+	2	1024	c.758C>A	c.(757-759)GCG>GAG	p.A253E	PTGFR_uc001dim.2_Missense_Mutation_p.A253E	NM_000959	NP_000950	P43088	PF2R_HUMAN	prostaglandin F receptor isoform a precursor	253	Helical; Name=6; (Potential).				parturition	extracellular region|integral to plasma membrane	prostaglandin F receptor activity	p.A253V(2)		ovary(3)|breast(2)|skin(1)	6				Colorectal(170;0.248)	Bimatoprost(DB00905)|Latanoprost(DB00654)|Travoprost(DB00287)	CAGCTCCTGGCGATAATGTGT	0.393													10	73	---	---	---	---	PASS	A	78959186	A	A	78959186	3	1	177	1	0	0	0	0	1	0	0	0	12749	768	27	1	760	1	PTGFR	1	78959186	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2574500	78959186	170291435	24	62484										
CLCA1	1179	broad.mit.edu	37	chr1	86965439	86965439	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgctctcatcccaaaggaagCcaactctgaggaagtctttt	8	11	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:86965439C>T	uc001dlt.2	+	14	2585	c.2456C>T	c.(2455-2457)GCC>GTC	p.A819V		NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	819					calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		CCAAAGGAAGCCAACTCTGAG	0.363													35	117	---	---	---	---	PASS	T	86965439	T	T	86965439	3	4	177	1	0	0	0	0	1	0	0	0	3457	739	26	3	2510	3	CLCA1	1	86965439	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	8006253	86965439	162285182	25	62485										
GLMN	11146	broad.mit.edu	37	chr1	92763522	92763522	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aaaaattaatacttacacatCtctttattatagactgaagt	3	6	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:92763522C>T	uc001dor.2	-	2	150	c.35G>A	c.(34-36)AGA>AAA	p.R12K	RPAP2_uc001dot.2_5'Flank|RPAP2_uc009wdh.2_5'Flank|GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Missense_Mutation_p.R12K	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	12					muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		ACTTACACATCTCTTTATTAT	0.294									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				10	53	---	---	---	---	PASS	T	92763522	T	T	92763522	3	4	177	1	0	0	0	0	1	0	0	0	6448	913	32	2	1821	2	GLMN	1	92763522	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	5798083	92763522	156487099	26	62486										
BCAR3	8412	broad.mit.edu	37	chr1	94037322	94037322	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cacctggatgatcttactcaGagtggccgctcggtcctcca	10	14	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:94037322G>C	uc001dpz.2	-	9	2154	c.1879C>G	c.(1879-1881)CTG>GTG	p.L627V	BCAR3_uc001dqa.2_Missense_Mutation_p.L627V|BCAR3_uc001dqb.2_Missense_Mutation_p.L627V|BCAR3_uc001dpx.3_Missense_Mutation_p.L303V|BCAR3_uc001dpy.2_Missense_Mutation_p.L536V|BCAR3_uc009wdm.1_Missense_Mutation_p.L303V	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	627	Ras-GEF.				response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		ATCTTACTCAGAGTGGCCGCT	0.542													31	133	---	---	---	---	PASS	C	94037322	C	C	94037322	3	2	177	1	0	0	0	0	1	0	0	0	1349	933	33	2	614	2	BCAR3	1	94037322	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1273800	94037322	155213299	27	62487										
F3	2152	broad.mit.edu	37	chr1	94998715	94998715	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttgccaaaaacatcccggagGcttaggaaagtgttgttcct	10	9	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:94998715G>C	uc001dqr.2	-	4	701	c.522C>G	c.(520-522)AGC>AGG	p.S174R	F3_uc001dqp.2_RNA|F3_uc001dqq.2_RNA|F3_uc001dqs.2_Missense_Mutation_p.S174R	NM_001993	NP_001984	P13726	TF_HUMAN	coagulation factor III precursor	174	Extracellular (Potential).				activation of caspase activity|activation of plasma proteins involved in acute inflammatory response|anti-apoptosis|blood coagulation, extrinsic pathway|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of protein kinase B signaling cascade	extracellular matrix|extracellular space|integral to membrane	cell surface binding|phospholipid binding|protease binding			central_nervous_system(1)	1		all_lung(203;0.00106)|Lung NSC(277;0.00475)		all cancers(265;0.0232)|Epithelial(280;0.121)	Coagulation factor VIIa(DB00036)	CATCCCGGAGGCTTAGGAAAG	0.373													10	57	---	---	---	---	PASS	C	94998715	C	C	94998715	3	2	177	1	0	0	0	0	1	0	0	0	5347	1194	42	4	377	4	F3	1	94998715	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	961393	94998715	154251906	28	62488										
COL11A1	1301	broad.mit.edu	37	chr1	103540304	103540304	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	caacaatcattgtcacagttTtcttctccacgctgattgct	5	12	4	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:103540304T>A	uc001dul.2	-	4	839	c.521A>T	c.(520-522)AAA>ATA	p.K174I	COL11A1_uc001dum.2_Missense_Mutation_p.K174I|COL11A1_uc001dun.2_Missense_Mutation_p.K174I|COL11A1_uc009weh.2_Missense_Mutation_p.K174I	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	174	TSP N-terminal.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TGTCACAGTTTTCTTCTCCAC	0.383													19	46	---	---	---	---	PASS	A	103540304	A	A	103540304	3	1	177	1	0	0	0	0	1	0	0	0	3667	1841	64	5	5312	5	COL11A1	1	103540304	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	8541589	103540304	145710317	29	62489										
GPSM2	29899	broad.mit.edu	37	chr1	109441604	109441604	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggtgaatttgaaactgcctCggaatactacaagttagtct	9	7	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:109441604C>A	uc010ovc.1	+	7	1281	c.785C>A	c.(784-786)TCG>TAG	p.S262*	AKNAD1_uc010ovb.1_Intron|GPSM2_uc010ovd.1_Nonsense_Mutation_p.S262*|GPSM2_uc010ove.1_Nonsense_Mutation_p.S262*	NM_013296	NP_037428	P81274	GPSM2_HUMAN	LGN protein	262	TPR 6.				G-protein coupled receptor protein signaling pathway	cell cortex|nucleus	GTPase activator activity|identical protein binding			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0353)|Lung(183;0.0984)|COAD - Colon adenocarcinoma(174;0.129)|Epithelial(280;0.175)|all cancers(265;0.209)		GAAACTGCCTCGGAATACTAC	0.323													3	36	---	---	---	---	PASS	A	109441604	A	A	109441604	4	1	177	1	0	0	0	0	0	1	0	0	6735	893	31	2	807	2	GPSM2	1	109441604	Nonsense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	5901300	109441604	139809017	30	62490										
CELSR2	1952	broad.mit.edu	37	chr1	109794997	109794997	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gcatcgatgcagacacggggGctgtcaccacccaggctgag	14	13	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:109794997G>A	uc001dxa.3	+	1	2357	c.2296G>A	c.(2296-2298)GCT>ACT	p.A766T		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	766	Cadherin 6.|Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		AGACACGGGGGCTGTCACCAC	0.582													15	35	---	---	---	---	PASS	A	109794997	A	A	109794997	3	1	177	1	0	0	0	0	1	0	0	0	3222	1203	42	3	2298	3	CELSR2	1	109794997	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	353393	109794997	139455624	31	62491										
PROK1	84432	broad.mit.edu	37	chr1	110996617	110996617	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgtccagtgtggggcaggcaCctgctgtgccatcagcctgt	14	12	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:110996617C>A	uc001dzs.2	+	2	158	c.107C>A	c.(106-108)ACC>AAC	p.T36N		NM_032414	NP_115790	P58294	PROK1_HUMAN	prokineticin 1 precursor	36					angiogenesis|positive regulation of cell division	extracellular region	growth factor activity				0		all_cancers(81;6.23e-06)|all_epithelial(167;2.12e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0239)|all cancers(265;0.0699)|Epithelial(280;0.0753)|Colorectal(144;0.105)|LUSC - Lung squamous cell carcinoma(189;0.135)		GGGGCAGGCACCTGCTGTGCC	0.627													23	45	---	---	---	---	PASS	A	110996617	A	A	110996617	3	1	177	1	0	0	0	0	1	0	0	0	12550	507	18	3	113	3	PROK1	1	110996617	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	1201620	110996617	138254004	32	62492										
RSBN1	54665	broad.mit.edu	37	chr1	114308980	114308980	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgaatgacatttctagggatGaagtagatatcattgtcgca	10	5	2	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:114308980G>A	uc001edq.2	-	7	2067	c.2031C>T	c.(2029-2031)TTC>TTT	p.F677F	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	677						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTCTAGGGATGAAGTAGATAT	0.443													56	86	---	---	---	---	PASS	A	114308980	A	A	114308980	2	1	177	1	0	0	0	0	0	0	0	1	13696	1281	45	2		2	RSBN1	1	114308980	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	3312363	114308980	134941641	33	62493										
PIP5K1A	8394	broad.mit.edu	37	chr1	151214676	151214676	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gctccagtggcaactcctgcAttacttaccagccatcggtc	8	15	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:151214676A>G	uc001exj.2	+	13	1893	c.1441A>G	c.(1441-1443)ATT>GTT	p.I481V	PIP5K1A_uc001exi.2_Missense_Mutation_p.I468V|PIP5K1A_uc010pcu.1_Missense_Mutation_p.I441V|PIP5K1A_uc001exk.2_Intron|PIP5K1A_uc010pcv.1_Intron	NM_001135638	NP_001129110	Q99755	PI51A_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	481					phospholipid biosynthetic process|signal transduction	endomembrane system|Golgi stack|lamellipodium|nuclear speck	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|kinase binding			ovary(1)|central_nervous_system(1)|skin(1)	3	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.181)			CAACTCCTGCATTACTTACCA	0.542													47	187	---	---	---	---	PASS	G	151214676	G	G	151214676	3	3	177	1	0	0	0	0	1	0	0	0	11939	217	8	5	1491	5	PIP5K1A	1	151214676	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	36905696	151214676	98035945	34	62494										
PSMD4	5710	broad.mit.edu	37	chr1	151237918	151237918	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttgtaaacacgttgaatggcAaagatggaaccggttctcat	10	7	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:151237918A>G	uc001exl.2	+	6	549	c.487A>G	c.(487-489)AAA>GAA	p.K163E	PSMD4_uc001exn.2_Missense_Mutation_p.K163E	NM_002810	NP_002801	P55036	PSMD4_HUMAN	proteasome 26S non-ATPase subunit 4	163	VWFA.				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|DNA repair|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding|zinc ion binding				0	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GTTGAATGGCAAAGATGGAAC	0.517													22	72	---	---	---	---	PASS	G	151237918	G	G	151237918	3	3	177	1	0	0	0	0	1	0	0	0	12700	131	5	5	509	5	PSMD4	1	151237918	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	23242	151237918	98012703	35	62495										
PSMB4	5692	broad.mit.edu	37	chr1	151372480	151372480	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccccatggtgaccgggacctCagtcctcggcgttaagttcg	12	14	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:151372480C>T	uc001eyc.1	+	2	187	c.164C>T	c.(163-165)TCA>TTA	p.S55L	PSMB4_uc010pda.1_Missense_Mutation_p.S55L|PSMB4_uc001eyb.1_Missense_Mutation_p.S55L	NM_002796	NP_002787	P28070	PSB4_HUMAN	proteasome beta 4 subunit	55					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|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity			ovary(2)	2	Lung SC(34;0.00471)|Ovarian(49;0.00871)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			ACCGGGACCTCAGTCCTCGGC	0.597													17	94	---	---	---	---	PASS	T	151372480	T	T	151372480	3	4	177	1	0	0	0	0	1	0	0	0	12679	838	29	2	170	2	PSMB4	1	151372480	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	134562	151372480	97878141	36	62496										
HRNR	388697	broad.mit.edu	37	chr1	152192197	152192197	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gagccagagccatgctgaccGtggctggaagactgacctga	14	11	0	5			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:152192197G>C	uc001ezt.1	-	3	1984	c.1908C>G	c.(1906-1908)CAC>CAG	p.H636Q		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	636	6.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CATGCTGACCGTGGCTGGAAG	0.572													57	298	---	---	---	---	PASS	C	152192197	C	C	152192197	3	2	177	1	0	0	0	0	1	0	0	0	7359	1136	40	4	6648	4	HRNR	1	152192197	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	819717	152192197	97058424	37	62497										
LCE2D	353141	broad.mit.edu	37	chr1	152636715	152636715	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tccatgttcccctgcagtctCttcctgctgtggtcccagct	8	16	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:152636715C>G	uc001fag.2	+	2	189	c.134C>G	c.(133-135)TCT>TGT	p.S45C		NM_178430	NP_848517	Q5TA82	LCE2D_HUMAN	late cornified envelope 2D	45	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGCAGTCTCTTCCTGCTGT	0.637													30	142	---	---	---	---	PASS	G	152636715	G	G	152636715	3	3	177	1	0	0	0	0	1	0	0	0	8668	913	32	2	136	2	LCE2D	1	152636715	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	444518	152636715	96613906	38	62498										
NUP210L	91181	broad.mit.edu	37	chr1	154029319	154029319	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gccgaggagttgatgtgtatTttcttcccatcttgtccttg	10	9	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:154029319T>G	uc001fdw.2	-	23	3284	c.3212A>C	c.(3211-3213)AAA>ACA	p.K1071T	NUP210L_uc009woq.2_Intron|NUP210L_uc010peh.1_Missense_Mutation_p.K1071T	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	1071						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TGATGTGTATTTTCTTCCCAT	0.368													34	64	---	---	---	---	PASS	G	154029319	G	G	154029319	3	3	177	1	0	0	0	0	1	0	0	0	10761	1841	64	5	2526	5	NUP210L	1	154029319	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	1392604	154029319	95221302	39	62499										
HAX1	10456	broad.mit.edu	37	chr1	154245903	154245903	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gctcatggggccgtgggaacCcaaggttccatagtcctcag	13	12	2	0	rs11556344		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:154245903C>A	uc001fes.2	+	2	306	c.145C>A	c.(145-147)CCA>ACA	p.P49T	HAX1_uc001fet.2_Intron|HAX1_uc010peo.1_Missense_Mutation_p.P49T|HAX1_uc009wou.2_5'UTR|HAX1_uc009wov.2_Missense_Mutation_p.P23T	NM_006118	NP_006109	O00165	HAX1_HUMAN	HCLS1 associated protein X-1 isoform a	49						actin cytoskeleton|cytoplasmic membrane-bounded vesicle|lamellipodium|mitochondrion|nuclear membrane|sarcoplasmic reticulum|soluble fraction	interleukin-1 binding|protein N-terminus binding				0	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CCGTGGGAACCCAAGGTTCCA	0.532									Kostmann_syndrome				4	59	---	---	---	---	PASS	A	154245903	A	A	154245903	3	1	177	1	0	0	0	0	1	0	0	0	6975	623	22	3	151	3	HAX1	1	154245903	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	216584	154245903	95004718	40	62500										
CHRNB2	1141	broad.mit.edu	37	chr1	154544245	154544245	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccttctccatcgtcaccagcGtgtgcgtgctcaacgtgcac	9	16	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:154544245G>A	uc001ffg.2	+	5	1210	c.946G>A	c.(946-948)GTG>ATG	p.V316M		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	316	Helical; (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	CGTCACCAGCGTGTGCGTGCT	0.622													10	54	---	---	---	---	PASS	A	154544245	A	A	154544245	3	1	177	1	0	0	0	0	1	0	0	0	3391	1145	40	1	964	1	CHRNB2	1	154544245	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	298342	154544245	94706376	41	62501										
CD1A	909	broad.mit.edu	37	chr1	158226630	158226630	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcctggccctggccatctgcAgcttgtgtgccatgtctcag	11	14	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:158226630A>G	uc001frt.2	+	4	1192	c.659A>G	c.(658-660)CAG>CGG	p.Q220R		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	220	Extracellular (Potential).|Ig-like.				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	GGCCATCTGCAGCTTGTGTGC	0.567													18	79	---	---	---	---	PASS	G	158226630	G	G	158226630	3	3	177	1	0	0	0	0	1	0	0	0	2974	188	7	5	673	5	CD1A	1	158226630	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	3682385	158226630	91023991	42	62502										
OR6Y1	391112	broad.mit.edu	37	chr1	158517747	158517747	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cactgtggatagctaagatgAtaagaagattctccagcagt	10	7	1	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:158517747A>T	uc010pil.1	-	1	149	c.149T>A	c.(148-150)ATC>AAC	p.I50N		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	50	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AGCTAAGATGATAAGAAGATT	0.478													13	54	---	---	---	---	PASS	T	158517747	T	T	158517747	3	4	177	1	0	0	0	0	1	0	0	0	11213	333	12	5	830	5	OR6Y1	1	158517747	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	291117	158517747	90732874	43	62503										
SPTA1	6708	broad.mit.edu	37	chr1	158655087	158655087	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aacacttcctgacgcctctcCtggatctcttctgctgtttc	6	15	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:158655087C>T	uc001fst.1	-	2	274	c.75G>A	c.(73-75)CAG>CAA	p.Q25Q		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	25	Spectrin 1.				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)					GACGCCTCTCCTGGATCTCTT	0.353													37	154	---	---	---	---	PASS	T	158655087	T	T	158655087	2	4	177	1	0	0	0	0	0	0	0	1	15115	680	24	3		3	SPTA1	1	158655087	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	137340	158655087	90595534	44	62504										
FCRL6	343413	broad.mit.edu	37	chr1	159779427	159779427	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tactcctgcgaggctgagaaCagtgtctccagagagaggag	14	9	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:159779427C>T	uc001fud.3	+	5	882	c.840C>T	c.(838-840)AAC>AAT	p.N280N	FCRL6_uc001fuc.2_Silent_p.N287N|FCRL6_uc009wsz.1_Silent_p.N185N|FCRL6_uc009wta.2_Silent_p.N280N	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	280	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					AGGCTGAGAACAGTGTCTCCA	0.562													21	42	---	---	---	---	PASS	T	159779427	T	T	159779427	2	4	177	1	0	0	0	0	0	0	0	1	5799	477	17	3		3	FCRL6	1	159779427	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	1124340	159779427	89471194	45	62505										
IGSF9	57549	broad.mit.edu	37	chr1	159900553	159900553	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tctgagctagcacgctgaacTggtactgggtgtggggctgc	16	9	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:159900553T>C	uc001fur.2	-	14	1940	c.1742A>G	c.(1741-1743)CAG>CGG	p.Q581R	IGSF9_uc001fuq.2_Missense_Mutation_p.Q565R|IGSF9_uc001fup.2_5'UTR	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	581	Fibronectin type-III 1.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			CACGCTGAACTGGTACTGGGT	0.597													15	63	---	---	---	---	PASS	C	159900553	C	C	159900553	3	2	177	1	0	0	0	0	1	0	0	0	7605	1580	55	5	1829	5	IGSF9	1	159900553	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	121126	159900553	89350068	46	62506										
LY9	4063	broad.mit.edu	37	chr1	160784267	160784267	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgtggtaggggtcctgggagAgccagtcaccctgccacttg	15	11	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:160784267A>G	uc001fwu.2	+	4	838	c.788A>G	c.(787-789)GAG>GGG	p.E263G	LY9_uc010pjs.1_Missense_Mutation_p.E263G|LY9_uc001fwv.2_Missense_Mutation_p.E263G|LY9_uc001fww.2_Missense_Mutation_p.E263G|LY9_uc001fwx.2_Missense_Mutation_p.E263G|LY9_uc001fwy.1_Missense_Mutation_p.E165G|LY9_uc001fwz.2_5'UTR	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	263	Extracellular (Potential).|Ig-like V-type 2.				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			GTCCTGGGAGAGCCAGTCACC	0.557													16	73	---	---	---	---	PASS	G	160784267	G	G	160784267	3	3	177	1	0	0	0	0	1	0	0	0	9101	304	11	5	934	5	LY9	1	160784267	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	883714	160784267	88466354	47	62507										
FCGR3A	2214	broad.mit.edu	37	chr1	161518451	161518451	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttgaggctccaggaacaccaCagcctttgggagatcttctg	11	11	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:161518451C>T	uc001gat.3	-	4	216	c.79G>A	c.(79-81)GTG>ATG	p.V27M	FCGR3A_uc001gar.2_Missense_Mutation_p.V63M|FCGR3A_uc001gas.2_Missense_Mutation_p.V62M|FCGR3A_uc009wuh.2_Missense_Mutation_p.V26M|FCGR3A_uc009wui.2_Missense_Mutation_p.V27M	NM_001127595	NP_001121067	P08637	FCG3A_HUMAN	Fc fragment of IgG, low affinity IIIa, receptor	27	Ig-like C2-type 1.|Extracellular (Potential).				immune response|regulation of immune response	extracellular region|integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	AGGAACACCACAGCCTTTGGG	0.562													5	80	---	---	---	---	PASS	T	161518451	T	T	161518451	3	4	177	1	0	0	0	0	1	0	0	0	5784	478	17	3	697	3	FCGR3A	1	161518451	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	734184	161518451	87732170	48	62508										
FCGR3B	2215	broad.mit.edu	37	chr1	161599808	161599808	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttgaggctccaggaacaccaCagcctttgggagatcttctg	11	11	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:161599808C>T	uc009wul.2	-	3	353	c.79G>A	c.(79-81)GTG>ATG	p.V27M		NM_000570	NP_000561	O75015	FCG3B_HUMAN	low affinity immunoglobulin gamma Fc region	27					immune response	anchored to membrane|extracellular region|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	AGGAACACCACAGCCTTTGGG	0.557													33	35	---	---	---	---	PASS	T	161599808	T	T	161599808	3	4	177	1	0	0	0	0	1	0	0	0	5785	478	17	3	634	3	FCGR3B	1	161599808	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	81357	161599808	87650813	49	62509										
TBX19	9095	broad.mit.edu	37	chr1	168260434	168260434	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctaaagattagtgtcacaggGttggaccccaatgccatgta	10	9	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:168260434G>T	uc001gfl.2	+	2	291	c.240G>T	c.(238-240)GGG>GGT	p.G80G	TBX19_uc001gfj.3_Silent_p.G11G	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	80	T-box.				anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					GTGTCACAGGGTTGGACCCCA	0.542													52	166	---	---	---	---	PASS	T	168260434	T	T	168260434	2	4	177	1	0	0	0	0	0	0	0	1	15651	1248	44	3		3	TBX19	1	168260434	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	6660626	168260434	80990187	50	62510										
SELE	6401	broad.mit.edu	37	chr1	169696587	169696587	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccttcaggacaggcgaacttGcacacagtgccaaacacggg	11	13	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:169696587G>T	uc001ggm.3	-	10	1705	c.1548C>A	c.(1546-1548)TGC>TGA	p.C516*	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	516	Extracellular (Potential).|Sushi 6.				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					AGGCGAACTTGCACACAGTGC	0.547													35	51	---	---	---	---	PASS	T	169696587	T	T	169696587	4	4	177	1	0	0	0	0	0	1	0	0	14013	1311	46	3	300	3	SELE	1	169696587	Nonsense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1436153	169696587	79554034	51	62511										
KIFAP3	22920	broad.mit.edu	37	chr1	169930205	169930205	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	acctgagttgtagaaaaggtCaggtctttcgagaatatctc	10	7	3	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:169930205C>G	uc001ggv.2	-	18	2426	c.2155G>C	c.(2155-2157)GAC>CAC	p.D719H	KIFAP3_uc010plx.1_Missense_Mutation_p.D421H	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	719					blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TAGAAAAGGTCAGGTCTTTCG	0.413													7	57	---	---	---	---	PASS	G	169930205	G	G	169930205	3	3	177	1	0	0	0	0	1	0	0	0	8311	826	29	2	235	2	KIFAP3	1	169930205	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	233618	169930205	79320416	52	62512										
FMO2	2327	broad.mit.edu	37	chr1	171173031	171173031	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcagcaccaggcatggcaccTgggtcatgagccgtatctct	11	13	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:171173031T>A	uc001ghk.1	+	6	772	c.655T>A	c.(655-657)TGG>AGG	p.W219R	FMO2_uc010pmd.1_5'UTR	NM_001460	NP_001451	Q99518	FMO2_HUMAN	flavin containing monooxygenase 2	219					drug metabolic process|NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|host cell microsome|integral to membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GCATGGCACCTGGGTCATGAG	0.478													13	60	---	---	---	---	PASS	A	171173031	A	A	171173031	3	1	177	1	0	0	0	0	1	0	0	0	5955	1580	55	5	673	5	FMO2	1	171173031	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	1242826	171173031	78077590	53	62513										
C1orf9	51430	broad.mit.edu	37	chr1	172555011	172555011	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aaaataggaaataaaagtatAtctgagaatgccactgccac	7	7	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:172555011A>G	uc001giq.3	+	17	1897	c.1581A>G	c.(1579-1581)ATA>ATG	p.I527M	C1orf9_uc010pmm.1_Missense_Mutation_p.I527M|C1orf9_uc009wwd.2_Missense_Mutation_p.I483M|C1orf9_uc010pmn.1_Missense_Mutation_p.I490M|C1orf9_uc010pmo.1_Intron	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	527					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		ATAAAAGTATATCTGAGAATG	0.254													93	137	---	---	---	---	PASS	G	172555011	G	G	172555011	3	3	177	1	0	0	0	0	1	0	0	0	2067	439	16	5	1647	5	C1orf9	1	172555011	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	1381980	172555011	76695610	54	62514										
C1orf9	51430	broad.mit.edu	37	chr1	172558043	172558043	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccttctgggcagcggtgaacAggaagatgaatcatcaccct	11	11	3	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:172558043A>T	uc001giq.3	+	18	2118	c.1802A>T	c.(1801-1803)CAG>CTG	p.Q601L	C1orf9_uc010pmm.1_Missense_Mutation_p.Q601L|C1orf9_uc009wwd.2_Missense_Mutation_p.Q557L|C1orf9_uc010pmn.1_Missense_Mutation_p.Q564L|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	601					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		AGCGGTGAACAGGAAGATGAA	0.418													19	69	---	---	---	---	PASS	T	172558043	T	T	172558043	3	4	177	1	0	0	0	0	1	0	0	0	2067	188	7	5	1872	5	C1orf9	1	172558043	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	3032	172558043	76692578	55	62515										
TNN	63923	broad.mit.edu	37	chr1	175048476	175048476	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctctccctcccagatctaagCcgccactgcagcggccacgg	9	19	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:175048476C>A	uc001gkl.1	+	3	530	c.417C>A	c.(415-417)AGC>AGA	p.S139R	TNN_uc010pmx.1_Missense_Mutation_p.S139R	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	139					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		CAGATCTAAGCCGCCACTGCA	0.637													10	28	---	---	---	---	PASS	A	175048476	A	A	175048476	3	1	177	1	0	0	0	0	1	0	0	0	16320	738	26	3	423	3	TNN	1	175048476	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2490433	175048476	74202145	56	62516										
TNN	63923	broad.mit.edu	37	chr1	175067548	175067548	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cctgggacccggtgcaggccGccattgacaagtacgtggtg	15	12	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:175067548G>A	uc001gkl.1	+	9	2049	c.1936G>A	c.(1936-1938)GCC>ACC	p.A646T	TNN_uc010pmx.1_Missense_Mutation_p.A557T	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	646	Fibronectin type-III 5.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GGTGCAGGCCGCCATTGACAA	0.582													30	84	---	---	---	---	PASS	A	175067548	A	A	175067548	3	1	177	1	0	0	0	0	1	0	0	0	16320	1087	38	1	1966	1	TNN	1	175067548	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	19072	175067548	74183073	57	62517										
FAM5B	57795	broad.mit.edu	37	chr1	177250324	177250324	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gcccctggagatgactgatcCctctaagaatttgggttaca	10	10	1	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:177250324C>A	uc001glf.2	+	8	2324	c.2012C>A	c.(2011-2013)CCC>CAC	p.P671H	FAM5B_uc001glg.2_Missense_Mutation_p.P566H	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	671						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						ATGACTGATCCCTCTAAGAAT	0.463													44	73	---	---	---	---	PASS	A	177250324	A	A	177250324	3	1	177	1	0	0	0	0	1	0	0	0	5593	623	22	3	2038	3	FAM5B	1	177250324	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2182776	177250324	72000297	58	62518										
FAM163A	148753	broad.mit.edu	37	chr1	179782944	179782944	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gcaagaagagcggaaccgagGttgcagacgaggaggaggag	19	6	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:179782944G>T	uc009wxj.2	+	6	583	c.124G>T	c.(124-126)GTT>TTT	p.V42F	FAM163A_uc001gnj.2_Missense_Mutation_p.V42F|FAM163A_uc009wxk.2_Missense_Mutation_p.V42F	NM_173509	NP_775780	Q96GL9	F163A_HUMAN	hypothetical protein LOC148753	42						integral to membrane				ovary(1)	1						CGGAACCGAGGTTGCAGACGA	0.632													31	45	---	---	---	---	PASS	T	179782944	T	T	179782944	3	4	177	1	0	0	0	0	1	0	0	0	5476	1261	44	3	130	3	FAM163A	1	179782944	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2532620	179782944	69467677	59	62519										
ZNF648	127665	broad.mit.edu	37	chr1	182026108	182026108	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgtttgcgcaggtccgaagaGcgcacgaaggccttcccgca	13	13	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:182026108G>A	uc001goz.2	-	2	1246	c.1038C>T	c.(1036-1038)CGC>CGT	p.R346R		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	346	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGTCCGAAGAGCGCACGAAGG	0.622													13	25	---	---	---	---	PASS	A	182026108	A	A	182026108	2	1	177	1	0	0	0	0	0	0	0	1	18060	958	34	3		3	ZNF648	1	182026108	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	2243164	182026108	67224513	60	62520										
C1orf26	54823	broad.mit.edu	37	chr1	185159726	185159726	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgatcgagtactaaaatgctGtctccagcaccaggaattat	8	9	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:185159726G>C	uc001grg.3	+	10	1589	c.1475G>C	c.(1474-1476)TGT>TCT	p.C492S	C1orf26_uc001grh.3_Missense_Mutation_p.C492S	NM_001105518	NP_001098988	Q5T5J6	SWT1_HUMAN	hypothetical protein LOC54823	492	PINc.										0						CTAAAATGCTGTCTCCAGCAC	0.333													11	70	---	---	---	---	PASS	C	185159726	C	C	185159726	3	2	177	1	0	0	0	0	1	0	0	0	2035	1377	48	4	1509	4	C1orf26	1	185159726	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	3133618	185159726	64090895	61	62521										
HMCN1	83872	broad.mit.edu	37	chr1	186114606	186114606	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtaacggagggcagatgcggCggtaccgcacatgtgataac	15	9	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:186114606C>T	uc001grq.1	+	92	14567	c.14338C>T	c.(14338-14340)CGG>TGG	p.R4780W	HMCN1_uc001grs.1_Missense_Mutation_p.R349W	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4780	TSP type-1 5.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GCAGATGCGGCGGTACCGCAC	0.557													33	41	---	---	---	---	PASS	T	186114606	T	T	186114606	3	4	177	1	0	0	0	0	1	0	0	0	7220	759	27	1	14704	1	HMCN1	1	186114606	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	954880	186114606	63136015	62	62522										
ASPM	259266	broad.mit.edu	37	chr1	197112556	197112556	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	attaaaggaagtttcagttaCagctttctcattaaaagaaa	6	5	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:197112556C>A	uc001gtu.2	-	3	1083	c.826G>T	c.(826-828)GTA>TTA	p.V276L	ASPM_uc001gtv.2_Missense_Mutation_p.V276L|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	276					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GTTTCAGTTACAGCTTTCTCA	0.353													22	92	---	---	---	---	PASS	A	197112556	A	A	197112556	3	1	177	1	0	0	0	0	1	0	0	0	1056	478	17	3	9711	3	ASPM	1	197112556	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	10997950	197112556	52138065	63	62523										
TNNT2	7139	broad.mit.edu	37	chr1	201333496	201333496	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gctcggcccgctctgcccgaCgtctctcctaaggagaagag	12	15	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:201333496C>A	uc001gwf.2	-	11	488	c.419G>T	c.(418-420)CGT>CTT	p.R140L	TNNT2_uc009wzn.2_5'Flank|TNNT2_uc009wzo.2_5'Flank|TNNT2_uc009wzp.2_5'Flank|TNNT2_uc001gwg.2_Missense_Mutation_p.R130L|TNNT2_uc001gwh.2_Missense_Mutation_p.R125L|TNNT2_uc001gwi.2_Missense_Mutation_p.R100L|TNNT2_uc009wzr.2_Missense_Mutation_p.R71L|TNNT2_uc001gwj.1_5'Flank|TNNT2_uc009wzs.1_Missense_Mutation_p.R105L|TNNT2_uc001gwk.1_Missense_Mutation_p.R71L|TNNT2_uc009wzt.1_Missense_Mutation_p.R130L	NM_000364	NP_000355	P45379	TNNT2_HUMAN	troponin T type 2, cardiac isoform 1	140			R -> C (in CMH2).		ATP catabolic process|muscle filament sliding|negative regulation of ATPase activity|positive regulation of ATPase activity|regulation of heart contraction|response to calcium ion|response to calcium ion|ventricular cardiac muscle tissue morphogenesis	cytosol|troponin complex	actin binding|tropomyosin binding|troponin C binding|troponin I binding				0						CTCTGCCCGACGTCTCTCCTA	0.622													14	20	---	---	---	---	PASS	A	201333496	A	A	201333496	3	1	177	1	0	0	0	0	1	0	0	0	16328	536	19	1	508	1	TNNT2	1	201333496	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	4220940	201333496	47917125	64	62524										
PRELP	5549	broad.mit.edu	37	chr1	203455862	203455862	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggaacccagatttgccccaaCgacctagtggcgttccatga	10	13	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:203455862C>T	uc001gzs.2	+	3	1202	c.1002C>T	c.(1000-1002)AAC>AAT	p.N334N	PRELP_uc001gzt.2_Silent_p.N334N	NM_002725	NP_002716	P51888	PRELP_HUMAN	proline arginine-rich end leucine-rich repeat	334	LRR 11.				skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent			ovary(1)|central_nervous_system(1)|pancreas(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.109)			TTTGCCCCAACGACCTAGTGG	0.572													14	89	---	---	---	---	PASS	T	203455862	T	T	203455862	2	4	177	1	0	0	0	0	0	0	0	1	12473	535	19	1		1	PRELP	1	203455862	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	2122366	203455862	45794759	65	62525										
PIK3C2B	5287	broad.mit.edu	37	chr1	204438248	204438248	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttgcatcattgataccatcaTagtccacagaccccagtagg	7	12	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:204438248T>A	uc001haw.2	-	3	1162	c.683A>T	c.(682-684)TAT>TTT	p.Y228F	PIK3C2B_uc010pqv.1_Missense_Mutation_p.Y228F|PIK3C2B_uc001hax.1_Missense_Mutation_p.Y228F|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	228	Interaction with GRB2.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			GATACCATCATAGTCCACAGA	0.562													198	301	---	---	---	---	PASS	A	204438248	A	A	204438248	3	1	177	1	0	0	0	0	1	0	0	0	11910	1406	49	5	4349	5	PIK3C2B	1	204438248	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	982386	204438248	44812373	66	62526										
LAMB3	3914	broad.mit.edu	37	chr1	209795922	209795922	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gctggattaggagccgtgtgCgtctgacatcttcctccatc	11	12	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:209795922C>T	uc001hhg.2	-	17	3050	c.2660G>A	c.(2659-2661)CGC>CAC	p.R887H	LAMB3_uc009xco.2_Missense_Mutation_p.R887H|LAMB3_uc001hhh.2_Missense_Mutation_p.R887H	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	887	Domain I.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		GAGCCGTGTGCGTCTGACATC	0.617													6	173	---	---	---	---	PASS	T	209795922	T	T	209795922	3	4	177	1	0	0	0	0	1	0	0	0	8612	768	27	1	882	1	LAMB3	1	209795922	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	5357674	209795922	39454699	67	62527										
LAMB3	3914	broad.mit.edu	37	chr1	209796418	209796418	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aggccccaccggccctgggaAggacacccctgcagcgggag	15	16	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:209796418A>T	uc001hhg.2	-	16	2855	c.2465T>A	c.(2464-2466)CTT>CAT	p.L822H	LAMB3_uc009xco.2_Missense_Mutation_p.L822H|LAMB3_uc001hhh.2_Missense_Mutation_p.L822H|LAMB3_uc010psl.1_RNA	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	822	Domain I.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		GGCCCTGGGAAGGACACCCCT	0.637													13	64	---	---	---	---	PASS	T	209796418	T	T	209796418	3	4	177	1	0	0	0	0	1	0	0	0	8612	72	3	5	1081	5	LAMB3	1	209796418	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	496	209796418	39454203	68	62528										
HSD11B1	3290	broad.mit.edu	37	chr1	209907787	209907787	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctcactctggaccactcttcTgatcagaaatccatgcagga	7	13	5	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:209907787T>C	uc001hhj.2	+	7	907	c.800T>C	c.(799-801)CTG>CCG	p.L267P	HSD11B1_uc001hhk.2_Missense_Mutation_p.L267P	NM_181755	NP_861420	P28845	DHI1_HUMAN	11-beta-hydroxysteroid dehydrogenase 1	267	Lumenal (Potential).				glucocorticoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	11-beta-hydroxysteroid dehydrogenase (NADP+) activity|11-beta-hydroxysteroid dehydrogenase|binding			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;1.04e-55)|Epithelial(68;1.57e-52)|all cancers(67;1.83e-46)|Colorectal(1306;0.115)	NADH(DB00157)	ACCACTCTTCTGATCAGAAAT	0.478													43	61	---	---	---	---	PASS	C	209907787	C	C	209907787	3	2	177	1	0	0	0	0	1	0	0	0	7375	1580	55	5	822	5	HSD11B1	1	209907787	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	111369	209907787	39342834	69	62529										
LEFTY2	7044	broad.mit.edu	37	chr1	226128595	226128595	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggagggagggtctcacctcgGaagctctggctgaacctctt	14	11	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:226128595G>T	uc001hpt.1	-	1	326	c.246C>A	c.(244-246)TTC>TTA	p.F82L	LEFTY2_uc010pvk.1_Missense_Mutation_p.F82L|LEFTY2_uc009xek.1_Missense_Mutation_p.F82L	NM_003240	NP_003231	O00292	LFTY2_HUMAN	endometrial bleeding associated factor	82					cell growth|multicellular organismal development|platelet activation|platelet degranulation|transforming growth factor beta receptor signaling pathway	extracellular space|platelet alpha granule lumen	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)					TCTCACCTCGGAAGCTCTGGC	0.687													35	43	---	---	---	---	PASS	T	226128595	T	T	226128595	3	4	177	1	0	0	0	0	1	0	0	0	8716	1165	41	2	870	2	LEFTY2	1	226128595	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	16220808	226128595	23122026	70	62530										
ZNF678	339500	broad.mit.edu	37	chr1	227842954	227842954	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aaacttttaatcggtgttcaCacctaagtagccataagaga	7	8	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:227842954C>T	uc001hqw.1	+	4	1348	c.1003C>T	c.(1003-1005)CAC>TAC	p.H335Y	ZNF678_uc009xet.1_Intron|ZNF678_uc009xeu.1_Intron	NM_178549	NP_848644	F5GXA7	F5GXA7_HUMAN	zinc finger protein 678	390					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			pancreas(1)	1		Prostate(94;0.0885)				TCGGTGTTCACACCTAAGTAG	0.383													9	47	---	---	---	---	PASS	T	227842954	T	T	227842954	3	4	177	1	0	0	0	0	1	0	0	0	18082	478	17	3	1182	3	ZNF678	1	227842954	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	1714359	227842954	21407667	71	62531										
TAF5L	27097	broad.mit.edu	37	chr1	229730793	229730793	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gctgtacactggtccgcagtGgccccgcagtatcttcatct	10	14	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:229730793G>A	uc001htq.2	-	5	1187	c.1021C>T	c.(1021-1023)CAC>TAC	p.H341Y		NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	341	WD 2.				histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				GGTCCGCAGTGGCCCCGCAGT	0.522													39	48	---	---	---	---	PASS	A	229730793	A	A	229730793	3	1	177	1	0	0	0	0	1	0	0	0	15526	1348	47	3	752	3	TAF5L	1	229730793	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1887839	229730793	19519828	72	62532										
KIAA1383	54627	broad.mit.edu	37	chr1	232941915	232941915	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctgggggagttagaaatcccAgaggcacagaaggatttgaa	14	6	0	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:232941915A>G	uc001hvh.2	+	1	1278	c.1146A>G	c.(1144-1146)CCA>CCG	p.P382P		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	240										ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				TAGAAATCCCAGAGGCACAGA	0.488													96	157	---	---	---	---	PASS	G	232941915	G	G	232941915	2	3	177	1	0	0	0	0	0	0	0	1	8228	175	7	5		5	KIAA1383	1	232941915	Silent	SNP	A	TCGA-85-6560-01A-11D-1817-08	3211122	232941915	16308706	73	62533										
LYST	1130	broad.mit.edu	37	chr1	235892930	235892930	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccagctgtctctctagatggTgcaacactgatgcatcttcg	9	12	3	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:235892930T>C	uc001hxj.2	-	37	9247	c.9072A>G	c.(9070-9072)GCA>GCG	p.A3024A	LYST_uc001hxi.2_Silent_p.A248A	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3024					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			CTCTAGATGGTGCAACACTGA	0.323									Chediak-Higashi_syndrome				5	65	---	---	---	---	PASS	C	235892930	C	C	235892930	2	2	177	1	0	0	0	0	0	0	0	1	9128	1683	59	5		5	LYST	1	235892930	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	2951015	235892930	13357691	74	62534										
RYR2	6262	broad.mit.edu	37	chr1	237919650	237919650	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cgactccacgatcgtggcgcGgctgagatggtgctacagac	14	12	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:237919650G>A	uc001hyl.1	+	81	11328	c.11208G>A	c.(11206-11208)GCG>GCA	p.A3736A	RYR2_uc010pya.1_Silent_p.A151A	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3736					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)			ATCGTGGCGCGGCTGAGATGG	0.478													14	60	---	---	---	---	PASS	A	237919650	A	A	237919650	2	1	177	1	0	0	0	0	0	0	0	1	13769	1103	39	1		1	RYR2	1	237919650	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	2026720	237919650	11330971	75	62535										
RYR2	6262	broad.mit.edu	37	chr1	237948177	237948177	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggatctgaagagagaaggaGgacagtacaaactgattcct	12	6	1	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:237948177G>C	uc001hyl.1	+	90	13285	c.13165G>C	c.(13165-13167)GGA>CGA	p.G4389R	RYR2_uc010pya.1_Missense_Mutation_p.G804R	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4389					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)			GAGAGAAGGAGGACAGTACAA	0.507													5	25	---	---	---	---	PASS	C	237948177	C	C	237948177	3	2	177	1	0	0	0	0	1	0	0	0	13769	1001	35	4	13523	4	RYR2	1	237948177	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	28527	237948177	11302444	76	62536										
WDR64	128025	broad.mit.edu	37	chr1	241904845	241904845	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgttatggacatgtatccttTgactaggatgatacaagata	9	5	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:241904845T>C	uc001hze.1	+	11	1526	c.1319T>C	c.(1318-1320)TTG>TCG	p.L440S	WDR64_uc001hzf.1_Missense_Mutation_p.L160S			B1ANS9	WDR64_HUMAN	RecName: Full=WD repeat-containing protein 64;	440	WD 5.									skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			ATGTATCCTTTGACTAGGATG	0.348													10	55	---	---	---	---	PASS	C	241904845	C	C	241904845	3	2	177	1	0	0	0	0	1	0	0	0	17312	1821	63	5	1361	5	WDR64	1	241904845	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	3956668	241904845	7345776	77	62537										
OR11L1	391189	broad.mit.edu	37	chr1	248004752	248004752	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cctgtgctgacccctgtgcaCcaggagaccaccaccaacct	8	18	0	2	rs148330672		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:248004752C>A	uc001idn.1	-	1	447	c.447G>T	c.(445-447)TGG>TGT	p.W149C		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	149	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CCCCTGTGCACCAGGAGACCA	0.577													18	61	---	---	---	---	PASS	A	248004752	A	A	248004752	3	1	177	1	0	0	0	0	1	0	0	0	10930	508	18	3	525	3	OR11L1	1	248004752	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	6099907	248004752	1245869	78	62538										
OR2AK2	391191	broad.mit.edu	37	chr1	248129099	248129099	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgcttatgagcaagaagatcTgctgcctcatggttgcatgt	11	8	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:248129099T>C	uc010pzd.1	+	1	466	c.466T>C	c.(466-468)TGC>CGC	p.C156R	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			CAAGAAGATCTGCTGCCTCAT	0.433													86	120	---	---	---	---	PASS	C	248129099	C	C	248129099	3	2	177	1	0	0	0	0	1	0	0	0	10986	1580	55	5	468	5	OR2AK2	1	248129099	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	124347	248129099	1121522	79	62539										
OR2T33	391195	broad.mit.edu	37	chr1	248436296	248436296	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gggtgaacatagtatagaagGctgacacaaccttgtcatgg	12	7	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:248436296G>T	uc010pzi.1	-	1	821	c.821C>A	c.(820-822)GCC>GAC	p.A274D		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	274	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AGTATAGAAGGCTGACACAAC	0.483													37	183	---	---	---	---	PASS	T	248436296	T	T	248436296	3	4	177	1	0	0	0	0	1	0	0	0	11024	1203	42	3	144	3	OR2T33	1	248436296	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	307197	248436296	814325	80	62540										
OR2G6	391211	broad.mit.edu	37	chr1	248685153	248685153	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cctcagcaacctctcgtgtgTggacatctgctttaccacca	7	15	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr1:248685153T>C	uc001ien.1	+	1	206	c.206T>C	c.(205-207)GTG>GCG	p.V69A		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTCTCGTGTGTGGACATCTGC	0.502													5	71	---	---	---	---	PASS	C	248685153	C	C	248685153	3	2	177	1	0	0	0	0	1	0	0	0	11000	1696	59	5	208	5	OR2G6	1	248685153	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	248857	248685153	565468	81	62541										
SNTG2	54221	broad.mit.edu	37	chr2	1204851	1204851	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tatgagaagcgctggctggaCaccttgtccgtgcctctgtc	12	12	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:1204851C>A	uc002qwq.2	+	9	782	c.654C>A	c.(652-654)GAC>GAA	p.D218E	SNTG2_uc010ewi.2_Missense_Mutation_p.D91E	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	218					central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		GCTGGCTGGACACCTTGTCCG	0.522													55	106	---	---	---	---	PASS	A	1204851	A	A	1204851	3	1	177	1	0	0	0	0	1	0	0	0	14875	477	17	3	688	3	SNTG2	2	1204851	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08		1204851	241994522	82	62542										
COLEC11	78989	broad.mit.edu	37	chr2	3685129	3685129	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	attgttttctacaggagacaTgggggacaaaggacagaaag	13	5	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:3685129T>C	uc002qya.2	+	4	357	c.209T>C	c.(208-210)ATG>ACG	p.M70T	COLEC11_uc002qxz.2_Missense_Mutation_p.M67T|COLEC11_uc002qyb.2_Missense_Mutation_p.M46T|COLEC11_uc002qyc.2_Intron|COLEC11_uc010ewo.2_Intron|COLEC11_uc010ewp.2_Missense_Mutation_p.M44T|COLEC11_uc010ewq.2_Missense_Mutation_p.M20T|COLEC11_uc010ewr.2_Intron|COLEC11_uc010ews.2_Intron	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	70	Collagen-like.					collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		ACAGGAGACATGGGGGACAAA	0.522													4	110	---	---	---	---	PASS	C	3685129	C	C	3685129	3	2	177	1	0	0	0	0	1	0	0	0	3711	1464	51	5	302	5	COLEC11	2	3685129	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	2480278	3685129	239514244	83	62543										
KIDINS220	57498	broad.mit.edu	37	chr2	8940553	8940553	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcctctaatgtctatatcagCatatttttggagaagcgctc	7	9	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:8940553C>T	uc002qzc.2	-	9	1059	c.877G>A	c.(877-879)GCT>ACT	p.A293T	KIDINS220_uc010yiv.1_Missense_Mutation_p.A59T|KIDINS220_uc002qzd.2_Missense_Mutation_p.A251T|KIDINS220_uc010yiw.1_Missense_Mutation_p.A294T	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	293	Cytoplasmic (Potential).|ANK 9.				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TCTATATCAGCATATTTTTGG	0.373													89	250	---	---	---	---	PASS	T	8940553	T	T	8940553	3	4	177	1	0	0	0	0	1	0	0	0	8271	710	25	3	4526	3	KIDINS220	2	8940553	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	5255424	8940553	234258820	84	62544										
MYCN	4613	broad.mit.edu	37	chr2	16082189	16082189	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cggccgggaggcgagccgatGccgagctgctccacgtccac	15	16	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:16082189G>A	uc002rci.2	+	2	303	c.3G>A	c.(1-3)ATG>ATA	p.M1I	MYCNOS_uc002rch.1_5'Flank|MYCN_uc010yjr.1_5'UTR	NM_005378	NP_005369	P04198	MYCN_HUMAN	v-myc myelocytomatosis viral related oncogene,	1					regulation of transcription from RNA polymerase II promoter	chromatin|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5	all_cancers(1;1.35e-08)|all_neural(1;2.92e-24)|Lung SC(1;3.26e-07)|Medulloblastoma(1;6.9e-06)|all_lung(1;1.26e-05)|Glioma(3;0.135)|Acute lymphoblastic leukemia(172;0.155)|all_epithelial(1;0.169)|all_hematologic(175;0.197)		GBM - Glioblastoma multiforme(3;0.000332)			GCGAGCCGATGCCGAGCTGCT	0.647			A		neuroblastoma								20	37	---	---	---	---	PASS	A	16082189	A	A	16082189	3	1	177	1	0	0	0	0	1	0	0	0	10021	1319	46	3	5	3	MYCN	2	16082189	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	7141636	16082189	227117184	85	62545										
CAD	790	broad.mit.edu	37	chr2	27440793	27440793	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cgaggccctcaccgatccctCctacaaggcacagatcttag	8	16	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:27440793C>T	uc002rji.2	+	2	293	c.131C>T	c.(130-132)TCC>TTC	p.S44F	CAD_uc010eyw.2_Missense_Mutation_p.S44F	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	44	GATase (Glutamine amidotransferase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	ACCGATCCCTCCTACAAGGCA	0.567													15	130	---	---	---	---	PASS	T	27440793	T	T	27440793	3	4	177	1	0	0	0	0	1	0	0	0	2565	855	30	2	137	2	CAD	2	27440793	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	11358604	27440793	215758580	86	62546										
GTF3C2	2976	broad.mit.edu	37	chr2	27560185	27560185	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aacaatggagacttctcctcCtggggcaggtagggagcggc	15	10	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:27560185C>A	uc002rjv.1	-	8	1416	c.1053G>T	c.(1051-1053)CAG>CAT	p.Q351H	GTF3C2_uc010eyy.1_5'Flank|GTF3C2_uc002rju.1_Missense_Mutation_p.Q362H|GTF3C2_uc002rjw.1_Missense_Mutation_p.Q351H|GTF3C2_uc010eyz.1_Missense_Mutation_p.Q351H|uc002rjy.1_RNA	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	351						transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACTTCTCCTCCTGGGGCAGGT	0.502													9	66	---	---	---	---	PASS	A	27560185	A	A	27560185	3	1	177	1	0	0	0	0	1	0	0	0	6873	680	24	3	1734	3	GTF3C2	2	27560185	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	119392	27560185	215639188	87	62547										
BIRC6	57448	broad.mit.edu	37	chr2	32725073	32725073	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agtaccagtgttcaaggatcGcctgcatatgttgctgactt	10	9	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:32725073G>A	uc010ezu.2	+	46	9062	c.8928G>A	c.(8926-8928)TCG>TCA	p.S2976S		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	2976					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)					TTCAAGGATCGCCTGCATATG	0.438													62	124	---	---	---	---	PASS	A	32725073	A	A	32725073	2	1	177	1	0	0	0	0	0	0	0	1	1438	1074	38	1		1	BIRC6	2	32725073	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	5164888	32725073	210474300	88	62548										
LTBP1	4052	broad.mit.edu	37	chr2	33500091	33500091	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agggccgctgtgaaaacaccGagggaagtttcttgtgcatt	13	8	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:33500091G>A	uc002ros.2	+	17	2806	c.2806G>A	c.(2806-2808)GAG>AAG	p.E936K	LTBP1_uc002rot.2_Missense_Mutation_p.E610K|LTBP1_uc002rou.2_Missense_Mutation_p.E609K|LTBP1_uc002rov.2_Missense_Mutation_p.E556K|LTBP1_uc010ymz.1_Missense_Mutation_p.E609K|LTBP1_uc010yna.1_Missense_Mutation_p.E556K	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	935	EGF-like 5; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				TGAAAACACCGAGGGAAGTTT	0.428													53	81	---	---	---	---	PASS	A	33500091	A	A	33500091	3	1	177	1	0	0	0	0	1	0	0	0	9073	1059	37	2	2924	2	LTBP1	2	33500091	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	775018	33500091	209699282	89	62549										
RASGRP3	25780	broad.mit.edu	37	chr2	33784046	33784046	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gatgttgtagaccggggcacGgagtttgaacttgaccagga	15	7	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:33784046G>A	uc002rox.2	+	18	2640	c.2013G>A	c.(2011-2013)ACG>ACA	p.T671T	RASGRP3_uc010ync.1_Silent_p.T671T|RASGRP3_uc002roy.2_Silent_p.T670T	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	671					MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					ACCGGGGCACGGAGTTTGAAC	0.498													4	38	---	---	---	---	PASS	A	33784046	A	A	33784046	2	1	177	1	0	0	0	0	0	0	0	1	13076	1103	39	1		1	RASGRP3	2	33784046	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	283955	33784046	209415327	90	62550										
HEATR5B	54497	broad.mit.edu	37	chr2	37302672	37302672	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cattgacctatcagtcaagaGagacctggcattcttgtaaa	8	9	3	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:37302672G>C	uc002rpp.1	-	5	649	c.553C>G	c.(553-555)CTC>GTC	p.L185V		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	185							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				TCAGTCAAGAGAGACCTGGCA	0.443													63	158	---	---	---	---	PASS	C	37302672	C	C	37302672	3	2	177	1	0	0	0	0	1	0	0	0	7032	942	33	2	5790	2	HEATR5B	2	37302672	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	3518626	37302672	205896701	91	62551										
CEBPZ	10153	broad.mit.edu	37	chr2	37455705	37455705	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gatttcatgctgatacagctTctgagcaagggttttgtact	10	7	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:37455705T>A	uc002rpz.2	-	2	661	c.631A>T	c.(631-633)AAG>TAG	p.K211*		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	211					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				TGATACAGCTTCTGAGCAAGG	0.428													57	96	---	---	---	---	PASS	A	37455705	A	A	37455705	4	1	177	1	0	0	0	0	0	1	0	0	3204	1792	62	5	2593	5	CEBPZ	2	37455705	Nonsense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	153033	37455705	205743668	92	62552										
PKDCC	91461	broad.mit.edu	37	chr2	42284382	42284382	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtaccagtgtatcccagacaGcaccatcccccaggaagact	8	15	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:42284382G>T	uc002rsg.2	+	6	1423	c.1244G>T	c.(1243-1245)AGC>ATC	p.S415I		NM_138370	NP_612379	Q504Y2	PKDCC_HUMAN	protein kinase-like protein SgK493	415	Protein kinase.				cell differentiation|embryonic digestive tract development|lung alveolus development|negative regulation of Golgi to plasma membrane protein transport|ossification|palate development|positive regulation of bone mineralization|positive regulation of chondrocyte differentiation|protein transport	Golgi apparatus	ATP binding|protein kinase activity			breast(1)	1						ATCCCAGACAGCACCATCCCC	0.537													58	114	---	---	---	---	PASS	T	42284382	T	T	42284382	3	4	177	1	0	0	0	0	1	0	0	0	11969	971	34	3	1266	3	PKDCC	2	42284382	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4828677	42284382	200914991	93	62553										
LHCGR	3973	broad.mit.edu	37	chr2	48915920	48915920	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	caggagcacatcggggtgtcTtgggtaagcagaaaccatat	13	8	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:48915920T>A	uc002rwu.3	-	11	1086	c.1016A>T	c.(1015-1017)AAG>ATG	p.K339M	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	339	Extracellular (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	TCGGGGTGTCTTGGGTAAGCA	0.428									Familial_Male-Limited_Precocious_Puberty				37	170	---	---	---	---	PASS	A	48915920	A	A	48915920	3	1	177	1	0	0	0	0	1	0	0	0	8762	1609	56	5	1087	5	LHCGR	2	48915920	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	6631538	48915920	194283453	94	62554										
DOK1	1796	broad.mit.edu	37	chr2	74783971	74783971	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gcatggtggtgccaagctcgGgtgaaggaggagggctatga	19	6	0	2	rs139633219		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:74783971G>T	uc002sms.2	+	5	1198	c.1176G>T	c.(1174-1176)CGG>CGT	p.R392R	LOXL3_uc002smp.1_5'Flank|LOXL3_uc002smq.1_5'Flank|LOXL3_uc010ffn.1_5'Flank|DOK1_uc002smr.2_Silent_p.R253R|DOK1_uc010ffo.2_Silent_p.R253R|DOK1_uc002smt.2_Silent_p.R178R|DOK1_uc002smu.2_Silent_p.R178R|DOK1_uc010yrz.1_Silent_p.R381R|DOK1_uc002smv.2_Silent_p.R253R|DOK1_uc002smw.1_Silent_p.R178R	NM_001381	NP_001372	Q99704	DOK1_HUMAN	docking protein 1	392	Pro-rich.				fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	cytosol|perinuclear region of cytoplasm	insulin receptor binding				0						GCCAAGCTCGGGTGAAGGAGG	0.622													65	112	---	---	---	---	PASS	T	74783971	T	T	74783971	2	4	177	1	0	0	0	0	0	0	0	1	4696	1219	43	3		3	DOK1	2	74783971	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	25868051	74783971	168415402	95	62555										
REG1B	5968	broad.mit.edu	37	chr2	79313498	79313498	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggctgcagactgaccttttTtgggtcatggaggccaatcc	12	10	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:79313498T>C	uc002sny.2	-	4	428	c.316A>G	c.(316-318)AAA>GAA	p.K106E	REG1B_uc010ffv.1_Missense_Mutation_p.K106E|REG1B_uc010ffw.2_3'UTR	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	106	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						CTGACCTTTTTTGGGTCATGG	0.493													31	55	---	---	---	---	PASS	C	79313498	C	C	79313498	3	2	177	1	0	0	0	0	1	0	0	0	13211	1850	64	5	196	5	REG1B	2	79313498	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	4529527	79313498	163885875	96	62556										
CTNNA2	1496	broad.mit.edu	37	chr2	80136890	80136890	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgcaacgccgtgcggcaggcGctccaggacctgctcagcga	14	15	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:80136890G>C	uc010ysh.1	+	6	1028	c.1023G>C	c.(1021-1023)GCG>GCC	p.A341A	CTNNA2_uc010yse.1_Silent_p.A341A|CTNNA2_uc010ysf.1_Silent_p.A341A|CTNNA2_uc010ysg.1_Silent_p.A341A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	341					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TGCGGCAGGCGCTCCAGGACC	0.582													23	46	---	---	---	---	PASS	C	80136890	C	C	80136890	2	2	177	1	0	0	0	0	0	0	0	1	4013	1074	38	4		4	CTNNA2	2	80136890	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	823392	80136890	163062483	97	62557										
CTNNA2	1496	broad.mit.edu	37	chr2	80782831	80782831	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tccatagaaaatcacatcttGgaggatgtgaacaagtgtgt	10	6	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:80782831G>A	uc010ysh.1	+	11	1559	c.1554G>A	c.(1552-1554)TTG>TTA	p.L518L	CTNNA2_uc010yse.1_Silent_p.L518L|CTNNA2_uc010ysf.1_Silent_p.L518L|CTNNA2_uc010ysg.1_Silent_p.L518L|CTNNA2_uc010ysi.1_Silent_p.L150L	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	518					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						ATCACATCTTGGAGGATGTGA	0.473													21	54	---	---	---	---	PASS	A	80782831	A	A	80782831	2	1	177	1	0	0	0	0	0	0	0	1	4013	1339	47	3		3	CTNNA2	2	80782831	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	645941	80782831	162416542	98	62558										
RMND5A	64795	broad.mit.edu	37	chr2	88025476	88025476	+	Frame_Shift_Del	DEL	A	-	-													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggcgtgcccctcctcggaacAcaacagtagaccttaatagt							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:88025476delA	uc002srs.3	+	6	1196	c.301delA	c.(301-303)ACAfs	p.T101fs				Q9H871	RMD5A_HUMAN	SubName: Full=cDNA FLJ10361 fis, clone NT2RM2001256, highly similar to Anaphase-promoting complex subunit 1;	Error:Variant_position_missing_in_Q9H871_after_alignment										ovary(1)|skin(1)	2						TCCTCGGAACACAACAGTAGA	0.453													12	6	---	---	---	---		-	88025476	-	-	88025476	7	5	177	1	0	1	0	1	0	0	0	0	13397	174	6	0		0	RMND5A	2	88025476	Frame_Shift_Del	DEL	A	TCGA-85-6560-01A-11D-1817-08	7242645	88025476	155173897	99	62559										
MRPS5	64969	broad.mit.edu	37	chr2	95770424	95770424	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccccacagccaccaagacacGgatcgatttctttcttccct	5	17	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:95770424G>A	uc002sub.2	-	7	942	c.724C>T	c.(724-726)CGT>TGT	p.R242C	MRPS5_uc002suc.2_Intron|MRPS5_uc010yud.1_Missense_Mutation_p.R242C	NM_031902	NP_114108	P82675	RT05_HUMAN	mitochondrial ribosomal protein S5	242	S5 DRBM.				translation	mitochondrion|ribosome	protein binding|RNA binding|structural constituent of ribosome			ovary(2)|central_nervous_system(1)	3						ACCAAGACACGGATCGATTTC	0.483													31	96	---	---	---	---	PASS	A	95770424	A	A	95770424	3	1	177	1	0	0	0	0	1	0	0	0	9846	1116	39	1	592	1	MRPS5	2	95770424	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	7744948	95770424	147428949	100	62560										
IL18R1	8809	broad.mit.edu	37	chr2	102984394	102984394	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gaaacaaccaccaaaagctgGtacaaaagcagtggatcaca	8	10	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:102984394G>T	uc002tbw.3	+	3	318	c.168G>T	c.(166-168)TGG>TGT	p.W56C	IL18R1_uc010ywb.1_Missense_Mutation_p.W56C|IL18R1_uc010ywc.1_Missense_Mutation_p.W56C|IL18R1_uc010ywd.1_Intron|IL18R1_uc010fiy.2_Missense_Mutation_p.W56C	NM_003855	NP_003846	Q13478	IL18R_HUMAN	interleukin 18 receptor 1 precursor	56	Ig-like C2-type 1.|Extracellular (Potential).				innate immune response	integral to membrane|plasma membrane	interleukin-1 receptor activity			ovary(2)|pancreas(1)	3						CCAAAAGCTGGTACAAAAGCA	0.453													25	42	---	---	---	---	PASS	T	102984394	T	T	102984394	3	4	177	1	0	0	0	0	1	0	0	0	7647	1270	44	3	174	3	IL18R1	2	102984394	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	7213970	102984394	140214979	101	62561										
SLC20A1	6574	broad.mit.edu	37	chr2	113405296	113405296	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aattttattcttcctggttcGtgcattcatcctccataagg	6	10	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:113405296G>A	uc002tib.2	+	4	988	c.542G>A	c.(541-543)CGT>CAT	p.R181H	uc010fkq.1_5'Flank	NM_005415	NP_005406	Q8WUM9	S20A1_HUMAN	solute carrier family 20 (phosphate	181	Cytoplasmic (Potential).				phosphate metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to plasma membrane	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity			ovary(2)	2						TTCCTGGTTCGTGCATTCATC	0.413													65	246	---	---	---	---	PASS	A	113405296	A	A	113405296	3	1	177	1	0	0	0	0	1	0	0	0	14438	1145	40	1	552	1	SLC20A1	2	113405296	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	10420902	113405296	129794077	102	62562										
CNTNAP5	129684	broad.mit.edu	37	chr2	125261973	125261973	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggcaccccccaaattgatggGctctcagtgagtttccagtt	10	12	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:125261973G>A	uc002tno.2	+	8	1528	c.1164G>A	c.(1162-1164)GGG>GGA	p.G388G	CNTNAP5_uc010flu.2_Silent_p.G389G	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	388	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		AAATTGATGGGCTCTCAGTGA	0.547													36	61	---	---	---	---	PASS	A	125261973	A	A	125261973	2	1	177	1	0	0	0	0	0	0	0	1	3650	1190	42	3		3	CNTNAP5	2	125261973	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	11856677	125261973	117937400	103	62563										
LCT	3938	broad.mit.edu	37	chr2	136552233	136552233	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtctgcatcaaaagaagagaTggcagtggcatagttgaggt	14	5	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:136552233T>C	uc002tuu.1	-	14	5100	c.5089A>G	c.(5089-5091)ATC>GTC	p.I1697V		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1697	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		AAAGAAGAGATGGCAGTGGCA	0.517													37	72	---	---	---	---	PASS	C	136552233	C	C	136552233	3	2	177	1	0	0	0	0	1	0	0	0	8693	1464	51	5	710	5	LCT	2	136552233	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	11290260	136552233	106647140	104	62564										
GALNT13	114805	broad.mit.edu	37	chr2	155099274	155099274	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agtgccagtaaaaattattaGgatggaagaacgctctgggt	12	5	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:155099274G>T	uc002tyr.3	+	6	1109	c.542G>T	c.(541-543)AGG>ATG	p.R181M	GALNT13_uc002tyt.3_Missense_Mutation_p.R181M|GALNT13_uc010foc.1_Translation_Start_Site	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	181	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						AAAATTATTAGGATGGAAGAA	0.368													14	26	---	---	---	---	PASS	T	155099274	T	T	155099274	3	4	177	1	0	0	0	0	1	0	0	0	6211	1000	35	3	556	3	GALNT13	2	155099274	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	18547041	155099274	88100099	105	62565										
PDE11A	50940	broad.mit.edu	37	chr2	178565854	178565854	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	acatcaggcctgtacctcacTttgaaggatcatcacggcgt	9	12	4	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:178565854T>C	uc002ulq.2	-	14	2557	c.2239A>G	c.(2239-2241)AGT>GGT	p.S747G	PDE11A_uc002ulp.2_Missense_Mutation_p.S303G|PDE11A_uc002ulr.2_Missense_Mutation_p.S497G|PDE11A_uc002uls.1_Missense_Mutation_p.S389G|PDE11A_uc002ult.1_Missense_Mutation_p.S497G|PDE11A_uc002ulu.1_Missense_Mutation_p.S389G	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	747	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TGTACCTCACTTTGAAGGATC	0.502									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				27	76	---	---	---	---	PASS	C	178565854	C	C	178565854	3	2	177	1	0	0	0	0	1	0	0	0	11631	1609	56	5	590	5	PDE11A	2	178565854	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	23466580	178565854	64633519	106	62566										
PDE11A	50940	broad.mit.edu	37	chr2	178565890	178565890	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggcgtggttgaaatggtgatGctccaaggtagcagaggttc	16	6	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:178565890G>T	uc002ulq.2	-	14	2521	c.2203C>A	c.(2203-2205)CAT>AAT	p.H735N	PDE11A_uc002ulp.2_Missense_Mutation_p.H291N|PDE11A_uc002ulr.2_Missense_Mutation_p.H485N|PDE11A_uc002uls.1_Missense_Mutation_p.H377N|PDE11A_uc002ult.1_Missense_Mutation_p.H485N|PDE11A_uc002ulu.1_Missense_Mutation_p.H377N	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	735	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			AAATGGTGATGCTCCAAGGTA	0.522									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				25	76	---	---	---	---	PASS	T	178565890	T	T	178565890	3	4	177	1	0	0	0	0	1	0	0	0	11631	1319	46	3	626	3	PDE11A	2	178565890	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	36	178565890	64633483	107	62567										
OSBPL6	114880	broad.mit.edu	37	chr2	179196319	179196319	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggaatgttaaagtattcaaAggcaccactcgatgtaagta	9	6	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:179196319A>G	uc002ulx.2	+	6	737	c.359A>G	c.(358-360)AAG>AGG	p.K120R	OSBPL6_uc002ulw.2_Missense_Mutation_p.K120R|OSBPL6_uc002uly.2_Missense_Mutation_p.K120R|OSBPL6_uc010zfe.1_Missense_Mutation_p.K120R|OSBPL6_uc002ulz.2_Missense_Mutation_p.K120R|OSBPL6_uc002uma.2_Missense_Mutation_p.K99R	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	120	PH.				lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			AAGTATTCAAAGGCACCACTC	0.383													26	102	---	---	---	---	PASS	G	179196319	G	G	179196319	3	3	177	1	0	0	0	0	1	0	0	0	11281	72	3	5	416	5	OSBPL6	2	179196319	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	630429	179196319	64003054	108	62568										
TTN	7273	broad.mit.edu	37	chr2	179410595	179410595	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgattcaacaggcacaccagGgccatatttgtttactgccc	8	12	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:179410595G>T	uc010zfg.1	-	292	87888	c.87664C>A	c.(87664-87666)CCT>ACT	p.P29222T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P22917T|TTN_uc010zfi.1_Missense_Mutation_p.P22850T|TTN_uc010zfj.1_Missense_Mutation_p.P22725T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30149							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)			GGCACACCAGGGCCATATTTG	0.398													34	138	---	---	---	---	PASS	T	179410595	T	T	179410595	3	4	177	1	0	0	0	0	1	0	0	0	16732	1232	43	3	12691	3	TTN	2	179410595	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	214276	179410595	63788778	109	62569										
TTN	7273	broad.mit.edu	37	chr2	179453963	179453963	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttcgctttgctttagtaagaGaaaatttagatgaatcagca	8	5	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:179453963G>T	uc010zfg.1	-	253	55009	c.54785C>A	c.(54784-54786)TCT>TAT	p.S18262Y	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S11957Y|TTN_uc010zfi.1_Missense_Mutation_p.S11890Y|TTN_uc010zfj.1_Missense_Mutation_p.S11765Y	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19189							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)			TTTAGTAAGAGAAAATTTAGA	0.433													35	153	---	---	---	---	PASS	T	179453963	T	T	179453963	3	4	177	1	0	0	0	0	1	0	0	0	16732	942	33	2	45726	2	TTN	2	179453963	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	43368	179453963	63745410	110	62570										
TTN	7273	broad.mit.edu	37	chr2	179643974	179643974	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	acctttggtaatggatatccAgacatcttgcaatgaaaagt	8	7	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:179643974A>T	uc010zfg.1	-	23	4169	c.3945T>A	c.(3943-3945)TCT>TCA	p.S1315S	TTN_uc010zfh.1_Silent_p.S1269S|TTN_uc010zfi.1_Silent_p.S1269S|TTN_uc010zfj.1_Silent_p.S1269S|TTN_uc002unb.2_Silent_p.S1315S|uc002unc.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1315							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)			ATGGATATCCAGACATCTTGC	0.308													12	61	---	---	---	---	PASS	T	179643974	T	T	179643974	2	4	177	1	0	0	0	0	0	0	0	1	16732	175	7	5		5	TTN	2	179643974	Silent	SNP	A	TCGA-85-6560-01A-11D-1817-08	190011	179643974	63555399	111	62571										
ALS2	57679	broad.mit.edu	37	chr2	202593831	202593831	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgtgtattctgcttccttccTtttcctgccgagatggagag	10	10	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:202593831T>C	uc002uyo.2	-	14	3012	c.2656A>G	c.(2656-2658)AGG>GGG	p.R886G	ALS2_uc002uyp.3_Missense_Mutation_p.R886G|ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	886					cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						GCTTCCTTCCTTTTCCTGCCG	0.458													4	165	---	---	---	---	PASS	C	202593831	C	C	202593831	3	2	177	1	0	0	0	0	1	0	0	0	550	1608	56	5	2401	5	ALS2	2	202593831	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	22949857	202593831	40605542	112	62572										
ZDBF2	57683	broad.mit.edu	37	chr2	207174722	207174722	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttgaagccttgcctcatgtaCctccttcatttgtggggaaa	9	10	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:207174722C>T	uc002vbp.2	+	5	5720	c.5470C>T	c.(5470-5472)CCT>TCT	p.P1824S		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1824							nucleic acid binding|zinc ion binding			ovary(3)	3						GCCTCATGTACCTCCTTCATT	0.413													7	72	---	---	---	---	PASS	T	207174722	T	T	207174722	3	4	177	1	0	0	0	0	1	0	0	0	17596	507	18	3	5480	3	ZDBF2	2	207174722	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	4580891	207174722	36024651	113	62573										
ADAM23	8745	broad.mit.edu	37	chr2	207412220	207412220	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtattctaagcaaatgaagaAtctcagtaagttttaactaa	6	5	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:207412220A>T	uc002vbq.2	+	7	1011	c.788A>T	c.(787-789)AAT>ATT	p.N263I	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	263					cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		CAAATGAAGAATCTCAGTAAG	0.353													8	46	---	---	---	---	PASS	T	207412220	T	T	207412220	3	4	177	1	0	0	0	0	1	0	0	0	245	101	4	5	814	5	ADAM23	2	207412220	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	237498	207412220	35787153	114	62574										
LOC200726	200726	broad.mit.edu	37	chr2	207509077	207509077	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgccatagccagacagacttGctggctcttagccaagctga	10	12	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:207509077G>T	uc010fuh.1	+	2	292	c.117G>T	c.(115-117)TTG>TTT	p.L39F		NM_001102659	NP_001096129			hypothetical protein LOC200726												0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.115)|Lung(261;0.133)		AGACAGACTTGCTGGCTCTTA	0.532													16	18	---	---	---	---	PASS	T	207509077	T	T	207509077	3	4	177	1	0	0	0	0	1	0	0	0	8872	1310	46	3	119	3	LOC200726	2	207509077	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	96857	207509077	35690296	115	62575										
CPS1	1373	broad.mit.edu	37	chr2	211460258	211460258	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggaggtctgtccattggtcaGgctggagaatttgattactc	13	7	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:211460258G>T	uc002vee.3	+	13	1443	c.1311G>T	c.(1309-1311)CAG>CAT	p.Q437H	CPS1_uc010fur.2_Missense_Mutation_p.Q443H|CPS1_uc010fus.2_Translation_Start_Site	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	437					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)		CCATTGGTCAGGCTGGAGAAT	0.368													35	144	---	---	---	---	PASS	T	211460258	T	T	211460258	3	4	177	1	0	0	0	0	1	0	0	0	3823	991	35	3	1383	3	CPS1	2	211460258	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	3951181	211460258	31739115	116	62576										
SLC4A3	6508	broad.mit.edu	37	chr2	220501521	220501521	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttcctggtccgctacatctcGcctttcacccaggagatctt	7	15	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:220501521G>A	uc002vmp.3	+	16	2729	c.2460G>A	c.(2458-2460)TCG>TCA	p.S820S	SLC4A3_uc002vmo.3_Silent_p.S847S|SLC4A3_uc010fwm.2_Silent_p.S370S|SLC4A3_uc010fwn.1_Silent_p.S329S	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	820	Membrane (anion exchange).				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCTACATCTCGCCTTTCACCC	0.572													67	127	---	---	---	---	PASS	A	220501521	A	A	220501521	2	1	177	1	0	0	0	0	0	0	0	1	14655	1074	38	1		1	SLC4A3	2	220501521	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	9041263	220501521	22697852	117	62577										
FARSB	10056	broad.mit.edu	37	chr2	223436659	223436659	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agctcaaatttggtgataacGtcaggatgaaggaccccaag	11	8	2	2	rs141929079	byFrequency	TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:223436659G>A	uc002vne.1	-	17	1736	c.1701C>T	c.(1699-1701)GAC>GAT	p.D567D	FARSB_uc010zlq.1_Silent_p.D587D|FARSB_uc002vnf.1_Silent_p.D468D	NM_005687	NP_005678	Q9NSD9	SYFB_HUMAN	phenylalanyl-tRNA synthetase, beta subunit	567					phenylalanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|RNA binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(121;3.47e-10)|all cancers(144;1.86e-07)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.011)	L-Phenylalanine(DB00120)	TGGTGATAACGTCAGGATGAA	0.502													4	45	---	---	---	---	PASS	A	223436659	A	A	223436659	2	1	177	1	0	0	0	0	0	0	0	1	5680	1136	40	1		1	FARSB	2	223436659	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	2935138	223436659	19762714	118	62578										
CHRNG	1146	broad.mit.edu	37	chr2	233410280	233410280	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aggagtggttcctggtgggcCgagtgctggaccgcgtctgc	18	10	1	0	rs121912671		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:233410280C>A	uc002vsx.1	+	12	1429	c.1408C>A	c.(1408-1410)CGA>AGA	p.R470R	CHRNG_uc010fye.1_Silent_p.R418R	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	470	Cytoplasmic (Potential).				muscle contraction	cell junction|postsynaptic membrane	acetylcholine receptor activity				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;6.39e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00079)|LUSC - Lung squamous cell carcinoma(224;0.00757)|Lung(119;0.0086)		CCTGGTGGGCCGAGTGCTGGA	0.632													15	18	---	---	---	---	PASS	A	233410280	A	A	233410280	2	1	177	1	0	0	0	0	0	0	0	1	3396	644	23	1		1	CHRNG	2	233410280	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	9973621	233410280	9789093	119	62579										
INPP5D	3635	broad.mit.edu	37	chr2	234091054	234091054	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aaatgccttccctcccctgcAggcagtaccagcgacatcat	7	16	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:234091054A>T	uc010zmo.1	+	18	2225	c.2072_splice	c.e18-2	p.G691_splice	INPP5D_uc010zmp.1_Splice_Site_p.G690_splice	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a						apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		CCTCCCCTGCAGGCAGTACCA	0.517													20	100	---	---	---	---	PASS	T	234091054	T	T	234091054	5	4	177	1	0	0	0	0	0	0	1	0	7756	202	7	5	1652	5	INPP5D	2	234091054	Splice_Site	SNP	A	TCGA-85-6560-01A-11D-1817-08	680774	234091054	9108319	120	62580										
COL6A3	1293	broad.mit.edu	37	chr2	238275720	238275720	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gaccactttgttgatggcgtCaataatctgcctcttggtag	10	9	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:238275720C>T	uc002vwl.2	-	11	5395	c.5110G>A	c.(5110-5112)GAC>AAC	p.D1704N	COL6A3_uc002vwo.2_Missense_Mutation_p.D1498N|COL6A3_uc010znj.1_Missense_Mutation_p.D1097N	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1704	VWFA 9.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TTGATGGCGTCAATAATCTGC	0.527													4	38	---	---	---	---	PASS	T	238275720	T	T	238275720	3	4	177	1	0	0	0	0	1	0	0	0	3701	826	29	2	4559	2	COL6A3	2	238275720	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	4184666	238275720	4923653	121	62581										
COL6A3	1293	broad.mit.edu	37	chr2	238289868	238289868	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aggttgttacgaacaaagtcTagagcagagcccgtgtacag	12	8	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:238289868T>C	uc002vwl.2	-	5	1872	c.1587A>G	c.(1585-1587)CTA>CTG	p.L529L	COL6A3_uc002vwo.2_Silent_p.L323L|COL6A3_uc010znj.1_Silent_p.L122L|COL6A3_uc002vwq.2_Silent_p.L323L|COL6A3_uc002vwr.2_Silent_p.L122L|COL6A3_uc010znk.1_Silent_p.L529L	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	529	VWFA 3.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GAACAAAGTCTAGAGCAGAGC	0.512													25	151	---	---	---	---	PASS	C	238289868	C	C	238289868	2	2	177	1	0	0	0	0	0	0	0	1	3701	1509	53	5		5	COL6A3	2	238289868	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	14148	238289868	4909505	122	62582										
SEPT2	4735	broad.mit.edu	37	chr2	242287601	242287601	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agatcttgctggaaaaagaaGctgaggtaagtaggaaagta	13	3	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr2:242287601G>C	uc002wbc.2	+	12	1400	c.979G>C	c.(979-981)GCT>CCT	p.A327P	SEPT2_uc002wbd.2_Missense_Mutation_p.A327P|SEPT2_uc002wbf.2_Missense_Mutation_p.A327P|SEPT2_uc002wbg.2_Missense_Mutation_p.A327P|SEPT2_uc002wbh.2_Missense_Mutation_p.A337P|SEPT2_uc010zop.1_Missense_Mutation_p.A362P	NM_001008491	NP_001008491	Q15019	SEPT2_HUMAN	septin 2	327					cell division|mitosis	actin cytoskeleton|cleavage furrow|condensed chromosome kinetochore|midbody|nucleolus|septin complex|spindle	GTP binding			central_nervous_system(1)	1		all_cancers(19;7.62e-41)|all_epithelial(40;1.71e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.24e-34)|all cancers(36;7.15e-32)|OV - Ovarian serous cystadenocarcinoma(60;1.21e-15)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;3.16e-06)|Lung(119;7.81e-05)|LUSC - Lung squamous cell carcinoma(224;0.000742)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0889)		GGAAAAAGAAGCTGAGGTAAG	0.219													43	58	---	---	---	---	PASS	C	242287601	C	C	242287601	3	2	177	1	0	0	0	0	1	0	0	0	14064	971	34	4	1017	4	SEPT2	2	242287601	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	3997733	242287601	911772	123	62583										
LOC401052	401052	broad.mit.edu	37	chr3	10049250	10049250	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctgacgtaggagtgcttctgGgtgaggcaggcatcctgggt	17	8	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:10049250G>T	uc003bur.1	-	4	749	c.135C>A	c.(133-135)ACC>ACA	p.T45T	CIDEC_uc003bto.2_Intron	NM_001008737	NP_001008737	B3KMQ7	B3KMQ7_HUMAN	hypothetical protein LOC401052	45											0						AGTGCTTCTGGGTGAGGCAGG	0.572													6	135	---	---	---	---	PASS	T	10049250	T	T	10049250	2	4	177	1	0	0	0	0	0	0	0	1	8877	1219	43	3		3	LOC401052	3	10049250	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08		10049250	187973180	124	62584										
IQSEC1	9922	broad.mit.edu	37	chr3	12954962	12954962	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgaacaggaagatttctcgcTggtgtagtccgagtttctgg	13	7	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:12954962T>C	uc003bxt.2	-	9	2333	c.2324A>G	c.(2323-2325)CAG>CGG	p.Q775R	IQSEC1_uc003bxu.3_Missense_Mutation_p.Q653R|IQSEC1_uc011auw.1_Missense_Mutation_p.Q761R	NM_014869	NP_055684	Q6DN90	IQEC1_HUMAN	IQ motif and Sec7 domain 1 isoform b	775	PH.				regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1						GATTTCTCGCTGGTGTAGTCC	0.582													11	13	---	---	---	---	PASS	C	12954962	C	C	12954962	3	2	177	1	0	0	0	0	1	0	0	0	7817	1580	55	5	1136	5	IQSEC1	3	12954962	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	2905712	12954962	185067468	125	62585										
CLASP2	23122	broad.mit.edu	37	chr3	33602366	33602366	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gcaaatcagcacccatttttTttagtagttgtgtcagcagt	8	8	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:33602366T>C	uc003cfu.2	-	27	3218	c.2864A>G	c.(2863-2865)AAA>AGA	p.K955R	CLASP2_uc003cfs.2_Missense_Mutation_p.K162R|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Missense_Mutation_p.K555R	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	964										ovary(3)|central_nervous_system(1)	4						ACCCATTTTTTTTAGTAGTTG	0.353													104	93	---	---	---	---	PASS	C	33602366	C	C	33602366	3	2	177	1	0	0	0	0	1	0	0	0	3455	1841	64	5	1704	5	CLASP2	3	33602366	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	20647404	33602366	164420064	126	62586										
ARPP21	10777	broad.mit.edu	37	chr3	35758790	35758790	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atcatgtttttcatttccagTaggctcttggaagacagtaa	8	7	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:35758790T>A	uc003cgb.2	+	13	1200	c.936T>A	c.(934-936)AGT>AGA	p.S312R	ARPP21_uc003cga.2_Intron|ARPP21_uc011axy.1_Missense_Mutation_p.S278R|ARPP21_uc003cgf.2_Intron	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	312				Missing (in Ref. 6; CAB61414).		cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						TCATTTCCAGTAGGCTCTTGG	0.343													25	32	---	---	---	---	PASS	A	35758790	A	A	35758790	3	1	177	1	0	0	0	0	1	0	0	0	978	1652	57	5	991	5	ARPP21	3	35758790	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	2156424	35758790	162263640	127	62587										
CCBP2	1238	broad.mit.edu	37	chr3	42906393	42906393	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aacttttacagtggcatcttTttcattagctgcatgagcct	7	9	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:42906393T>A	uc003cme.2	+	3	578	c.399T>A	c.(397-399)TTT>TTA	p.F133L	CCBP2_uc003cmd.1_Intron|CCBP2_uc003cmf.2_Missense_Mutation_p.F133L|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Intron	NM_001296	NP_001287	O00590	CCBP2_HUMAN	chemokine binding protein 2	133	Helical; Name=3; (Potential).				chemotaxis|immune response|multicellular organismal development	integral to plasma membrane	C-X-C chemokine receptor activity			lung(4)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.241)		GTGGCATCTTTTTCATTAGCT	0.522													35	106	---	---	---	---	PASS	A	42906393	A	A	42906393	3	1	177	1	0	0	0	0	1	0	0	0	2734	1838	64	5	401	5	CCBP2	3	42906393	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	7147603	42906393	155116037	128	62588										
ADAMTS9	56999	broad.mit.edu	37	chr3	64587633	64587633	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tactcactgctccccaggggCcagttctccactggtttcca	8	16	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:64587633C>G	uc003dmg.2	-	26	4036	c.4004G>C	c.(4003-4005)GGC>GCC	p.G1335A	ADAMTS9_uc011bfo.1_Missense_Mutation_p.G1307A|ADAMTS9_uc003dmh.1_Missense_Mutation_p.G1164A|ADAMTS9_uc011bfp.1_Missense_Mutation_p.G246A	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1335	TSP type-1 9.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		TCCCCAGGGGCCAGTTCTCCA	0.532													29	35	---	---	---	---	PASS	G	64587633	G	G	64587633	3	3	177	1	0	0	0	0	1	0	0	0	273	739	26	4	1859	4	ADAMTS9	3	64587633	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	21681240	64587633	133434797	129	62589										
HTR1F	3355	broad.mit.edu	37	chr3	88039993	88039993	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggtgtccctcactctgtctGggctggcactgatgacaaca	11	12	3	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:88039993G>T	uc003dqr.2	+	2	252	c.94G>T	c.(94-96)GGG>TGG	p.G32W		NM_000866	NP_000857	P30939	5HT1F_HUMAN	5-hydroxytryptamine (serotonin) receptor 1F	32	Helical; Name=1; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	serotonin binding|serotonin receptor activity			ovary(3)	3	all_cancers(8;0.147)	Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00664)	Eletriptan(DB00216)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Zolmitriptan(DB00315)	CACTCTGTCTGGGCTGGCACT	0.418													74	167	---	---	---	---	PASS	T	88039993	T	T	88039993	3	4	177	1	0	0	0	0	1	0	0	0	7440	1348	47	3	96	3	HTR1F	3	88039993	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	23452360	88039993	109982437	130	62590										
EPHA3	2042	broad.mit.edu	37	chr3	89176407	89176407	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aggggagctgggctggatctCttatccatcacatggggtga	15	8	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:89176407C>G	uc003dqy.2	+	2	362	c.137C>G	c.(136-138)TCT>TGT	p.S46C	EPHA3_uc003dqx.1_Missense_Mutation_p.S46C|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	46	Extracellular (Potential).					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		GGCTGGATCTCTTATCCATCA	0.333										TSP Lung(6;0.00050)			40	89	---	---	---	---	PASS	G	89176407	G	G	89176407	3	3	177	1	0	0	0	0	1	0	0	0	5168	913	32	2	143	2	EPHA3	3	89176407	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	1136414	89176407	108846023	131	62591										
OR5H6	79295	broad.mit.edu	37	chr3	97983199	97983199	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggaagaggaaaatgcaacatTgctgacagagtttgttctca	11	6	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:97983199T>C	uc003dsi.1	+	1	71	c.71T>C	c.(70-72)TTG>TCG	p.L24S		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						AATGCAACATTGCTGACAGAG	0.408													18	197	---	---	---	---	PASS	C	97983199	C	C	97983199	3	2	177	1	0	0	0	0	1	0	0	0	11163	1821	63	5	73	5	OR5H6	3	97983199	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	8806792	97983199	100039231	132	62592										
MORC1	27136	broad.mit.edu	37	chr3	108773610	108773610	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tacagtactggaccaagtacTgtcccatgacttttagtaga	8	9	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:108773610T>G	uc003dxl.2	-	14	1382	c.1295A>C	c.(1294-1296)CAG>CCG	p.Q432P	MORC1_uc011bhn.1_Missense_Mutation_p.Q432P	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	432					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						GACCAAGTACTGTCCCATGAC	0.383													56	107	---	---	---	---	PASS	G	108773610	G	G	108773610	3	3	177	1	0	0	0	0	1	0	0	0	9701	1580	55	5	1719	5	MORC1	3	108773610	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	10790411	108773610	89248820	133	62593										
GRAMD1C	54762	broad.mit.edu	37	chr3	113658813	113658813	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgctgctcagtccttttaccGtctccgcctccaagaagaga	8	14	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:113658813G>A	uc003eaq.3	+	16	1848	c.1772G>A	c.(1771-1773)CGT>CAT	p.R591H	GRAMD1C_uc011bil.1_RNA|GRAMD1C_uc003ear.2_Missense_Mutation_p.R424H|GRAMD1C_uc003eas.2_Missense_Mutation_p.R386H|GRAMD1C_uc003eat.2_Missense_Mutation_p.R250H	NM_017577	NP_060047	Q8IYS0	GRM1C_HUMAN	GRAM domain containing 1C	591						integral to membrane				ovary(2)|skin(1)	3						TCCTTTTACCGTCTCCGCCTC	0.368													6	107	---	---	---	---	PASS	A	113658813	A	A	113658813	3	1	177	1	0	0	0	0	1	0	0	0	6749	1145	40	1	1834	1	GRAMD1C	3	113658813	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4885203	113658813	84363617	134	62594										
ZBTB20	26137	broad.mit.edu	37	chr3	114069951	114069951	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cctgcttgatgtggatgttgCccactagggtctggatgcgc	14	10	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:114069951C>G	uc003ebi.2	-	4	1154	c.974G>C	c.(973-975)GGC>GCC	p.G325A	ZBTB20_uc003ebj.2_Missense_Mutation_p.G252A|ZBTB20_uc010hqp.2_Missense_Mutation_p.G252A|ZBTB20_uc003ebk.2_Missense_Mutation_p.G252A|ZBTB20_uc003ebl.2_Missense_Mutation_p.G252A|ZBTB20_uc003ebm.2_Missense_Mutation_p.G252A|ZBTB20_uc003ebn.2_Missense_Mutation_p.G252A|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	325					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GTGGATGTTGCCCACTAGGGT	0.612													45	149	---	---	---	---	PASS	G	114069951	G	G	114069951	3	3	177	1	0	0	0	0	1	0	0	0	17526	739	26	4	1259	4	ZBTB20	3	114069951	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	411138	114069951	83952479	135	62595										
C3orf15	89876	broad.mit.edu	37	chr3	119459492	119459492	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agctggtgaaaaaagccgagAagcaagtgaccctggcctta	12	9	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:119459492A>C	uc003ede.3	+	13	1707	c.1630A>C	c.(1630-1632)AAG>CAG	p.K544Q	C3orf15_uc010hqy.1_Missense_Mutation_p.K544Q|C3orf15_uc010hqz.2_Missense_Mutation_p.K482Q|C3orf15_uc011bjd.1_Missense_Mutation_p.K418Q|C3orf15_uc011bje.1_Missense_Mutation_p.K524Q|C3orf15_uc010hra.1_Missense_Mutation_p.K305Q	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	380	Potential.					mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		AAAAGCCGAGAAGCAAGTGAC	0.443													17	36	---	---	---	---	PASS	C	119459492	C	C	119459492	3	2	177	1	0	0	0	0	1	0	0	0	2209	247	9	5	1680	5	C3orf15	3	119459492	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	5389541	119459492	78562938	136	62596										
STXBP5L	9515	broad.mit.edu	37	chr3	121126218	121126218	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atgaaaatgaaaaatcttggAgaaggaaagtggtaatgaac	11	2	1	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:121126218A>G	uc003eec.3	+	24	2928	c.2788A>G	c.(2788-2790)AGA>GGA	p.R930G	STXBP5L_uc011bji.1_Missense_Mutation_p.R906G	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	930	WD 12.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		AAAATCTTGGAGAAGGAAAGT	0.393													21	55	---	---	---	---	PASS	G	121126218	G	G	121126218	3	3	177	1	0	0	0	0	1	0	0	0	15356	296	11	5	2878	5	STXBP5L	3	121126218	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	1666726	121126218	76896212	137	62597										
POLQ	10721	broad.mit.edu	37	chr3	121228452	121228452	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctctaaaacaaagcccttcaTtgctctttgcaggtcagcaa	6	12	4	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:121228452T>G	uc003eee.3	-	12	2044	c.1915A>C	c.(1915-1917)ATG>CTG	p.M639L		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	639					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AAGCCCTTCATTGCTCTTTGC	0.348								DNA_polymerases_(catalytic_subunits)					28	90	---	---	---	---	PASS	G	121228452	G	G	121228452	3	3	177	1	0	0	0	0	1	0	0	0	12208	1493	52	5	5933	5	POLQ	3	121228452	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	102234	121228452	76793978	138	62598										
GOLGB1	2804	broad.mit.edu	37	chr3	121448165	121448165	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gttttagttttttaattttgTtatcagcagcttttctctct	5	6	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:121448165T>G	uc003eei.3	-	4	398	c.272A>C	c.(271-273)AAC>ACC	p.N91T	GOLGB1_uc010hrc.2_Missense_Mutation_p.N91T|GOLGB1_uc003eej.3_Missense_Mutation_p.N52T|GOLGB1_uc011bjm.1_Missense_Mutation_p.N52T|GOLGB1_uc010hrd.1_Missense_Mutation_p.N91T	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	91	Potential.|Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TTTAATTTTGTTATCAGCAGC	0.318													30	101	---	---	---	---	PASS	G	121448165	G	G	121448165	3	3	177	1	0	0	0	0	1	0	0	0	6565	1725	60	5	9583	5	GOLGB1	3	121448165	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	219713	121448165	76574265	139	62599										
CASR	846	broad.mit.edu	37	chr3	121980410	121980410	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tccagcagactcctcagcaaCaagaatcaattcaagtcttt	5	12	4	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:121980410C>T	uc003eev.3	+	4	900	c.528C>T	c.(526-528)AAC>AAT	p.N176N	CASR_uc003eew.3_Silent_p.N176N	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	176	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	TCCTCAGCAACAAGAATCAAT	0.463													34	197	---	---	---	---	PASS	T	121980410	T	T	121980410	2	4	177	1	0	0	0	0	0	0	0	1	2682	477	17	3		3	CASR	3	121980410	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	532245	121980410	76042020	140	62600										
ZNF148	7707	broad.mit.edu	37	chr3	124953165	124953165	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	acattcatcacagcgaaatgGtttttcacctagcacataat	5	10	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:124953165G>C	uc003ehx.3	-	8	1162	c.676C>G	c.(676-678)CCA>GCA	p.P226A	SLC12A8_uc003ehw.3_Intron|ZNF148_uc003ehz.3_Missense_Mutation_p.P226A|ZNF148_uc010hsa.2_Missense_Mutation_p.P226A|ZNF148_uc003eia.3_Missense_Mutation_p.P226A|ZNF148_uc003ehy.2_Missense_Mutation_p.P21A	NM_021964	NP_068799	Q9UQR1	ZN148_HUMAN	zinc finger protein 148	226					cellular defense response|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4						CAGCGAAATGGTTTTTCACCT	0.299													52	116	---	---	---	---	PASS	C	124953165	C	C	124953165	3	2	177	1	0	0	0	0	1	0	0	0	17731	1261	44	4	1716	4	ZNF148	3	124953165	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2972755	124953165	73069265	141	62601										
CNBP	7555	broad.mit.edu	37	chr3	128890383	128890383	+	Splice_Site	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gaggaaacaaactggaaaccTgttttgagcaaaaacaaaga	9	6	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:128890383T>C	uc003elq.3	-	3	331	c.125_splice	c.e3-1	p.G42_splice	CNBP_uc003elr.3_Splice_Site_p.G35_splice|CNBP_uc011bku.1_Intron	NM_003418	NP_003409	P62633	CNBP_HUMAN	zinc finger protein 9 isoform 3						cholesterol biosynthetic process	endoplasmic reticulum	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ACTGGAAACCTGTTTTGAGCA	0.393													22	53	---	---	---	---	PASS	C	128890383	C	C	128890383	5	2	177	1	0	0	0	0	0	0	1	0	3592	1594	55	5	428	5	CNBP	3	128890383	Splice_Site	SNP	T	TCGA-85-6560-01A-11D-1817-08	3937218	128890383	69132047	142	62602										
EPHB1	2047	broad.mit.edu	37	chr3	134967229	134967229	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccagctgctctacaccagctCatgctggactgttggcagaa	10	13	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:134967229C>A	uc003eqt.2	+	14	2788	c.2568C>A	c.(2566-2568)CTC>CTA	p.L856L	EPHB1_uc003equ.2_Silent_p.L417L	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	856	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						TACACCAGCTCATGCTGGACT	0.572													37	60	---	---	---	---	PASS	A	134967229	A	A	134967229	2	1	177	1	0	0	0	0	0	0	0	1	5174	813	29	2		2	EPHB1	3	134967229	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	6076846	134967229	63055201	143	62603										
ARMC8	25852	broad.mit.edu	37	chr3	137907372	137907372	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agctgtccgactctgagaatGgtcagtttaccaatggttca	10	9	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:137907372G>A	uc003esa.1	+	2	370	c.3G>A	c.(1-3)ATG>ATA	p.M1I	ARMC8_uc003erw.2_Missense_Mutation_p.M1I|ARMC8_uc003erx.2_Missense_Mutation_p.M1I|ARMC8_uc003ery.2_5'UTR|ARMC8_uc003erz.2_Intron|ARMC8_uc011bmf.1_Intron|ARMC8_uc011bmg.1_Intron|ARMC8_uc011bmh.1_Intron|ARMC8_uc003esb.1_5'UTR	NM_015396	NP_056211	Q8IUR7	ARMC8_HUMAN	armadillo repeat containing 8 isoform 2	Error:Variant_position_missing_in_Q8IUR7_after_alignment							binding				0						ctctgagaatggtcagtttac	0.03													37	99	---	---	---	---	PASS	A	137907372	A	A	137907372	3	1	177	1	0	0	0	0	1	0	0	0	957	1362	47	3	5	3	ARMC8	3	137907372	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2940143	137907372	60115058	144	62604										
CHST2	9435	broad.mit.edu	37	chr3	142840794	142840794	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gggccacaagcttggcgccaAgaaggagggcgtgggcggcc	19	11	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:142840794A>G	uc003evm.2	+	2	2025	c.1136A>G	c.(1135-1137)AAG>AGG	p.K379R		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	379	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						CTTGGCGCCAAGAAGGAGGGC	0.662													19	61	---	---	---	---	PASS	G	142840794	G	G	142840794	3	3	177	1	0	0	0	0	1	0	0	0	3404	72	3	5	1138	5	CHST2	3	142840794	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	4933422	142840794	55181636	145	62605										
SERP1	27230	broad.mit.edu	37	chr3	150263884	150263884	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgggtgatgttcttgctgtgCttctcgttggccatacggat	13	8	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:150263884C>A	uc003exy.2	-	1	545	c.39G>T	c.(37-39)AAG>AAT	p.K13N	SERP1_uc003exz.2_RNA|EIF2A_uc003eya.2_5'Flank|EIF2A_uc003eyb.2_5'Flank|EIF2A_uc003eyc.2_5'Flank|EIF2A_uc011bnv.1_5'Flank|EIF2A_uc011bnw.1_5'Flank	NM_014445	NP_055260	Q9Y6X1	SERP1_HUMAN	stress-associated endoplasmic reticulum protein	13	Cytoplasmic (Potential).				plasma membrane organization|protein glycosylation|protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane|ribosome					0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			TCTTGCTGTGCTTCTCGTTGG	0.662													36	92	---	---	---	---	PASS	A	150263884	A	A	150263884	3	1	177	1	0	0	0	0	1	0	0	0	14084	796	28	3	173	3	SERP1	3	150263884	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	7423090	150263884	47758546	146	62606										
PLCH1	23007	broad.mit.edu	37	chr3	155232542	155232542	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgtgcatttaagccttcatgCgtggccttcagtagtgcccg	11	11	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:155232542C>A	uc011bok.1	-	11	1843	c.1566G>T	c.(1564-1566)ACG>ACT	p.T522T	PLCH1_uc011boj.1_Silent_p.T522T|PLCH1_uc011bol.1_Silent_p.T504T	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	522					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			AGCCTTCATGCGTGGCCTTCA	0.388													49	76	---	---	---	---	PASS	A	155232542	A	A	155232542	2	1	177	1	0	0	0	0	0	0	0	1	12037	755	27	1		1	PLCH1	3	155232542	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	4968658	155232542	42789888	147	62607										
SI	6476	broad.mit.edu	37	chr3	164764764	164764764	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aatgttgagcgggtaagaatGaagcttctcttattaggaaa	11	4	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:164764764G>C	uc003fei.2	-	16	1814	c.1752C>G	c.(1750-1752)TTC>TTG	p.F584L		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	584	Lumenal.|Isomaltase.			F -> L (in Ref. 3; AAI15035).	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)	GGGTAAGAATGAAGCTTCTCT	0.323										HNSCC(35;0.089)			10	62	---	---	---	---	PASS	C	164764764	C	C	164764764	3	2	177	1	0	0	0	0	1	0	0	0	14297	1281	45	2	3863	2	SI	3	164764764	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	9532222	164764764	33257666	148	62608										
BCHE	590	broad.mit.edu	37	chr3	165547903	165547903	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aggagtcccataggggacaaCaaatgcttcattcagaagaa	10	8	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:165547903C>T	uc003fem.3	-	2	1079	c.919G>A	c.(919-921)GTT>ATT	p.V307I	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	307					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	TAGGGGACAACAAATGCTTCA	0.393													19	72	---	---	---	---	PASS	T	165547903	T	T	165547903	3	4	177	1	0	0	0	0	1	0	0	0	1358	478	17	3	901	3	BCHE	3	165547903	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	783139	165547903	32474527	149	62609										
PIK3CA	5290	broad.mit.edu	37	chr3	178936099	178936099	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tctgaaatcactgagcaggaGaaagattttctatggagtca	10	6	4	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:178936099G>C	uc003fjk.2	+	10	1798	c.1641G>C	c.(1639-1641)GAG>GAC	p.E547D		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	547	PI3K helical.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E547K(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			CTGAGCAGGAGAAAGATTTTC	0.363		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			39	63	---	---	---	---	PASS	C	178936099	C	C	178936099	3	2	177	1	0	0	0	0	1	0	0	0	11913	933	33	2	1675	2	PIK3CA	3	178936099	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	13388196	178936099	19086331	150	62610										
CPN2	1370	broad.mit.edu	37	chr3	194062093	194062093	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gcccaagtggtcccgggtgaCgggacacaccagctgcttct	13	14	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr3:194062093C>T	uc003fts.2	-	2	1429	c.1339G>A	c.(1339-1341)GTC>ATC	p.V447I		NM_001080513	NP_001073982	P22792	CPN2_HUMAN	carboxypeptidase N, polypeptide 2	447	LRRCT.				protein stabilization	extracellular region	enzyme regulator activity			ovary(5)	5	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.65e-05)		TCCCGGGTGACGGGACACACC	0.647													16	110	---	---	---	---	PASS	T	194062093	T	T	194062093	3	4	177	1	0	0	0	0	1	0	0	0	3810	536	19	1	302	1	CPN2	3	194062093	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	15125994	194062093	3960337	151	62611										
HTRA3	94031	broad.mit.edu	37	chr4	8294050	8294050	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgtttcctccccttgcagtaCgggaactccgggggaccact	11	14	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:8294050C>A	uc003gla.2	+	5	1110	c.906C>A	c.(904-906)TAC>TAA	p.Y302*	HTRA3_uc003gkz.2_Nonsense_Mutation_p.Y302*	NM_053044	NP_444272	P83110	HTRA3_HUMAN	HtrA serine peptidase 3 precursor	302	Serine protease.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity			ovary(1)	1						CCTTGCAGTACGGGAACTCCG	0.572													5	61	---	---	---	---	PASS	A	8294050	A	A	8294050	4	1	177	1	0	0	0	0	0	1	0	0	7455	547	19	1	924	1	HTRA3	4	8294050	Nonsense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08		8294050	182860226	152	62612										
CPZ	8532	broad.mit.edu	37	chr4	8621111	8621111	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cccggatgaagagggctggcCgtgtggacttcattctgcaa	14	10	2	2	rs147183461		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:8621111C>T	uc003glm.2	+	11	1852	c.1726C>T	c.(1726-1728)CGT>TGT	p.R576C	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Missense_Mutation_p.R439C|CPZ_uc003glo.2_Missense_Mutation_p.R565C|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	576					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						GAGGGCTGGCCGTGTGGACTT	0.592													21	26	---	---	---	---	PASS	T	8621111	T	T	8621111	3	4	177	1	0	0	0	0	1	0	0	0	3839	652	23	1	1768	1	CPZ	4	8621111	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	327061	8621111	182533165	153	62613										
C1QTNF7	114905	broad.mit.edu	37	chr4	15443952	15443952	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agaggagaacaaggggacccGgggctgcctggagtttgcag	18	8	0	2	rs150846082		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:15443952G>C	uc011bxb.1	+	3	626	c.399G>C	c.(397-399)CCG>CCC	p.P133P	C1QTNF7_uc003gno.2_Silent_p.P140P|C1QTNF7_uc003gnp.2_Silent_p.P133P	NM_001135171	NP_001128643	Q9BXJ2	C1QT7_HUMAN	C1q and tumor necrosis factor related protein 7	133	Collagen-like.					collagen					0						AAGGGGACCCGGGGCTGCCTG	0.517													89	126	---	---	---	---	PASS	C	15443952	C	C	15443952	2	2	177	1	0	0	0	0	0	0	0	1	1968	1103	39	4		4	C1QTNF7	4	15443952	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	6822841	15443952	175710324	154	62614										
LDB2	9079	broad.mit.edu	37	chr4	16597389	16597389	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggtcgcagtccaccgtgatGgatgagttgtggtatgactc	14	8	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:16597389G>C	uc003goz.2	-	3	661	c.345C>G	c.(343-345)TCC>TCG	p.S115S	LDB2_uc003gpa.2_Silent_p.S115S|LDB2_uc003gpb.2_Silent_p.S115S|LDB2_uc011bxh.1_Silent_p.S115S|LDB2_uc010iee.2_Silent_p.S115S|LDB2_uc003goy.2_5'UTR|LDB2_uc011bxi.1_5'UTR	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	115							LIM domain binding|transcription cofactor activity				0						CCACCGTGATGGATGAGTTGT	0.527													13	98	---	---	---	---	PASS	C	16597389	C	C	16597389	2	2	177	1	0	0	0	0	0	0	0	1	8696	1335	47	4		4	LDB2	4	16597389	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	1153437	16597389	174556887	155	62615										
PGM2	55276	broad.mit.edu	37	chr4	37831659	37831659	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agaactacgaaaatgttttgGggcccgaatggagtttggga	14	5	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:37831659G>C	uc011byb.1	+	2	228	c.155G>C	c.(154-156)GGG>GCG	p.G52A	PGM2_uc011bya.1_5'UTR|PGM2_uc011byc.1_5'UTR	NM_018290	NP_060760	Q96G03	PGM2_HUMAN	phosphoglucomutase 2	52					glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity|phosphopentomutase activity			ovary(1)	1						AAATGTTTTGGGGCCCGAATG	0.433													23	30	---	---	---	---	PASS	C	37831659	C	C	37831659	3	2	177	1	0	0	0	0	1	0	0	0	11798	1232	43	4	161	4	PGM2	4	37831659	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	21234270	37831659	153322617	156	62616										
PGM2	55276	broad.mit.edu	37	chr4	37851992	37851992	+	Frame_Shift_Del	DEL	G	-	-													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atagccaacctgataaaaaaGctgtaagtaatgtcttctct							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:37851992delG	uc011byb.1	+	12	1673	c.1600delG	c.(1600-1602)GCTfs	p.A534fs	PGM2_uc011byc.1_Frame_Shift_Del_p.A374fs	NM_018290	NP_060760	Q96G03	PGM2_HUMAN	phosphoglucomutase 2	534					glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity|phosphopentomutase activity			ovary(1)	1						TGATAAAAAAGCTGTAAGTAA	0.289													14	8	---	---	---	---		-	37851992	-	-	37851992	7	5	177	1	0	1	0	1	0	0	0	0	11798	971	34	0	1646	0	PGM2	4	37851992	Frame_Shift_Del	DEL	G	TCGA-85-6560-01A-11D-1817-08	20333	37851992	153302284	157	62617										
KLHL5	51088	broad.mit.edu	37	chr4	39082828	39082828	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gaaggtgtagaaccaaattcGttgtggtccttgatccagta	11	7	0	2	rs143433133	byFrequency	TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:39082828G>A	uc003gts.2	+	3	885	c.810G>A	c.(808-810)TCG>TCA	p.S270S	KLHL5_uc003gtp.2_Silent_p.S224S|KLHL5_uc003gtq.2_Silent_p.S83S|KLHL5_uc003gtr.1_Silent_p.S270S|KLHL5_uc003gtt.2_Silent_p.S209S	NM_015990	NP_057074	Q96PQ7	KLHL5_HUMAN	kelch-like 5 isoform 1	270	BTB.					cytoplasm|cytoskeleton	actin binding			ovary(1)	1						AACCAAATTCGTTGTGGTCCT	0.353													26	27	---	---	---	---	PASS	A	39082828	A	A	39082828	2	1	177	1	0	0	0	0	0	0	0	1	8392	1132	40	1		1	KLHL5	4	39082828	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	1230836	39082828	152071448	158	62618										
KLB	152831	broad.mit.edu	37	chr4	39436041	39436041	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctatccagaggggatgagaaAgaagttgttctccgttctac	11	8	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:39436041A>T	uc003gua.2	+	2	1134	c.1037A>T	c.(1036-1038)AAG>ATG	p.K346M	KLB_uc011byj.1_Missense_Mutation_p.K346M	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	346	Extracellular (Potential).|Glycosyl hydrolase-1 1.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						GGGATGAGAAAGAAGTTGTTC	0.448													44	42	---	---	---	---	PASS	T	39436041	T	T	39436041	3	4	177	1	0	0	0	0	1	0	0	0	8332	72	3	5	1043	5	KLB	4	39436041	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	353213	39436041	151718235	159	62619										
ATP10D	57205	broad.mit.edu	37	chr4	47570958	47570958	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gaagatttacttcagcctccTgtcccccgggactcagggtt	10	13	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:47570958T>G	uc003gxk.1	+	16	3122	c.2958T>G	c.(2956-2958)CCT>CCG	p.P986P	ATP10D_uc003gxl.1_Silent_p.P234P	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	986	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						TTCAGCCTCCTGTCCCCCGGG	0.488													57	40	---	---	---	---	PASS	G	47570958	G	G	47570958	2	3	177	1	0	0	0	0	0	0	0	1	1118	1567	55	5		5	ATP10D	4	47570958	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	8134917	47570958	143583318	160	62620										
KDR	3791	broad.mit.edu	37	chr4	55974019	55974019	+	Frame_Shift_Del	DEL	C	-	-													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggtgccgtactggtaggaatCcacaggagagattagagatt							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:55974019delC	uc003has.2	-	10	1599	c.1297delG	c.(1297-1299)GATfs	p.D433fs	KDR_uc003hat.1_Frame_Shift_Del_p.D433fs|KDR_uc011bzx.1_Frame_Shift_Del_p.D433fs	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	433	Ig-like C2-type 5.|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)	TGGTAGGAATCCACAGGAGAG	0.473			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			56	51	---	---	---	---		-	55974019	-	-	55974019	7	5	177	1	0	1	0	1	0	0	0	0	8139	855	30	0	2857	0	KDR	4	55974019	Frame_Shift_Del	DEL	C	TCGA-85-6560-01A-11D-1817-08	8403061	55974019	135180257	161	62621										
ENAM	10117	broad.mit.edu	37	chr4	71509533	71509533	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aacacatttacaaaaagcccCagctaggccaccagaccaga	6	14	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:71509533C>A	uc011caw.1	+	9	2671	c.2390C>A	c.(2389-2391)CCA>CAA	p.P797Q		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	797					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			CAAAAAGCCCCAGCTAGGCCA	0.463													26	34	---	---	---	---	PASS	A	71509533	A	A	71509533	3	1	177	1	0	0	0	0	1	0	0	0	5112	594	21	3	2420	3	ENAM	4	71509533	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	15535514	71509533	119644743	162	62622										
KIAA1109	84162	broad.mit.edu	37	chr4	123175391	123175391	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gatttgaaaaaagatctaccTctgatgcctcctcctccaga	6	12	2	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:123175391T>C	uc003ieh.2	+	36	6009	c.5964T>C	c.(5962-5964)CCT>CCC	p.P1988P	KIAA1109_uc003iel.1_5'Flank|KIAA1109_uc003iek.2_Silent_p.P607P	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1988					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAGATCTACCTCTGATGCCTC	0.378													3	66	---	---	---	---	PASS	C	123175391	C	C	123175391	2	2	177	1	0	0	0	0	0	0	0	1	8208	1538	54	5		5	KIAA1109	4	123175391	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	51665858	123175391	67978885	163	62623										
C4orf29	80167	broad.mit.edu	37	chr4	128938586	128938587	+	Frame_Shift_Del	DEL	CT	-	-													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcttgttttagaatctgcagCtctcttgcactggctagaga							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:128938586_128938587delCT	uc003ifr.2	+	9	857_858	c.539_540delCT	c.(538-540)GCTfs	p.A180fs	C4orf29_uc003ifs.2_Frame_Shift_Del_p.A74fs|C4orf29_uc003ift.2_Frame_Shift_Del_p.A11fs|C4orf29_uc003ifu.2_Frame_Shift_Del_p.A11fs|C4orf29_uc010inz.2_Intron|C4orf29_uc003ifv.2_Frame_Shift_Del_p.A11fs	NM_001039717	NP_001034806	Q0P651	CD029_HUMAN	hypothetical protein LOC80167 precursor	180						extracellular region				ovary(1)	1						GAATCTGCAGCTCTCTTGCACT	0.411													13	27	---	---	---	---		-	128938587	-	-	128938586	7	5	177	1	0	1	0	1	0	0	0	0	2259	797	28	0	565	0	C4orf29	4	128938586	Frame_Shift_Del	DEL	CT	TCGA-85-6560-01A-11D-1817-08	5763195	128938586	62215690	164	62624										
RAB33B	83452	broad.mit.edu	37	chr4	140393857	140393857	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tagatccagctatgggacacAgcaggacaagaacgattcag	11	9	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:140393857A>T	uc003ihv.2	+	2	656	c.267A>T	c.(265-267)ACA>ACT	p.T89T		NM_031296	NP_112586	Q9H082	RB33B_HUMAN	RAB33B, member RAS oncogene family	89	GTP (By similarity).				protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding				0	all_hematologic(180;0.162)					TATGGGACACAGCAGGACAAG	0.378													7	55	---	---	---	---	PASS	T	140393857	T	T	140393857	2	4	177	1	0	0	0	0	0	0	0	1	12923	175	7	5		5	RAB33B	4	140393857	Silent	SNP	A	TCGA-85-6560-01A-11D-1817-08	11455271	140393857	50760419	165	62625										
HHIP	64399	broad.mit.edu	37	chr4	145567964	145567964	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cctgaatgggaaccccccgaAgcgcctgaaaaggagagaca	12	12	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:145567964A>G	uc003ijs.1	+	1	792	c.137A>G	c.(136-138)AAG>AGG	p.K46R	uc003ijq.1_5'Flank|HHIP_uc003ijr.1_Missense_Mutation_p.K46R	NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	46	Arg-rich.					cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		AACCCCCCGAAGCGCCTGAAA	0.592													24	42	---	---	---	---	PASS	G	145567964	G	G	145567964	3	3	177	1	0	0	0	0	1	0	0	0	7092	72	3	5	139	5	HHIP	4	145567964	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	5174107	145567964	45586312	166	62626										
GUCY1B3	2983	broad.mit.edu	37	chr4	156721210	156721210	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	taagagccctggaagatgaaAagaaaaagacagacacgtaa	10	6	0	6			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:156721210A>C	uc003ipc.2	+	9	1326	c.1159A>C	c.(1159-1161)AAG>CAG	p.K387Q	GUCY1B3_uc011cio.1_Missense_Mutation_p.K409Q|GUCY1B3_uc011cip.1_Missense_Mutation_p.K367Q|GUCY1B3_uc003ipd.2_Missense_Mutation_p.K315Q|GUCY1B3_uc010iqf.2_Missense_Mutation_p.K387Q|GUCY1B3_uc010iqg.2_Missense_Mutation_p.K315Q|GUCY1B3_uc011ciq.1_Missense_Mutation_p.K315Q	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	387					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		GGAAGATGAAAAGAAAAAGAC	0.383													7	41	---	---	---	---	PASS	C	156721210	C	C	156721210	3	2	177	1	0	0	0	0	1	0	0	0	6895	15	1	5	1193	5	GUCY1B3	4	156721210	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	11153246	156721210	34433066	167	62627										
WDR17	116966	broad.mit.edu	37	chr4	177072999	177072999	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	taacaacagtcaagatgtctAaatttggtggtggtattggt	11	4	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:177072999A>G	uc003iuj.2	+	18	2569	c.2413A>G	c.(2413-2415)AAA>GAA	p.K805E	WDR17_uc003iuk.2_Missense_Mutation_p.K781E|WDR17_uc003ium.3_Missense_Mutation_p.K781E|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.K24E	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	805										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		CAAGATGTCTAAATTTGGTGG	0.333													16	40	---	---	---	---	PASS	G	177072999	G	G	177072999	3	3	177	1	0	0	0	0	1	0	0	0	17274	363	13	5	2479	5	WDR17	4	177072999	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	20351789	177072999	14081277	168	62628										
ENPP6	133121	broad.mit.edu	37	chr4	185038118	185038118	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcagctcaatcactttgtccAtccagaaaatgtcggtcatt	6	11	4	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:185038118A>G	uc003iwc.2	-	5	888	c.746T>C	c.(745-747)ATG>ACG	p.M249T		NM_153343	NP_699174	Q6UWR7	ENPP6_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	249	Extracellular (Potential).				lipid catabolic process	extracellular region|integral to membrane|plasma membrane				central_nervous_system(1)	1		all_lung(41;7.99e-12)|Lung NSC(41;1.46e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;4.98e-27)|Epithelial(43;3.15e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.09e-12)|Colorectal(24;3.78e-05)|STAD - Stomach adenocarcinoma(60;4.5e-05)|COAD - Colon adenocarcinoma(29;0.000154)|GBM - Glioblastoma multiforme(59;0.000167)|BRCA - Breast invasive adenocarcinoma(30;0.000378)|LUSC - Lung squamous cell carcinoma(40;0.0151)		CACTTTGTCCATCCAGAAAAT	0.542													17	54	---	---	---	---	PASS	G	185038118	G	G	185038118	3	3	177	1	0	0	0	0	1	0	0	0	5134	217	8	5	592	5	ENPP6	4	185038118	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	7965119	185038118	6116158	169	62629										
FAT1	2195	broad.mit.edu	37	chr4	187541653	187541653	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccagtggttgacagaactccTgaagtgcggcttattttaaa	10	8	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr4:187541653T>C	uc003izf.2	-	10	6275	c.6087A>G	c.(6085-6087)TCA>TCG	p.S2029S		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2029	Extracellular (Potential).|Cadherin 18.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						ACAGAACTCCTGAAGTGCGGC	0.463										HNSCC(5;0.00058)			63	192	---	---	---	---	PASS	C	187541653	C	C	187541653	2	2	177	1	0	0	0	0	0	0	0	1	5689	1567	55	5		5	FAT1	4	187541653	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	2503535	187541653	3612623	170	62630										
NKD2	85409	broad.mit.edu	37	chr5	1034432	1034432	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgactttgacaactgcgggaAggtcaccagggaggtaggtg	16	7	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:1034432A>G	uc003jbt.1	+	6	418	c.413A>G	c.(412-414)AAG>AGG	p.K138R	NKD2_uc010itf.1_Missense_Mutation_p.K138R	NM_033120	NP_149111	Q969F2	NKD2_HUMAN	naked cuticle homolog 2	138	Targeting to the basolateral cell membrane.|EF-hand.|Potential.|Interaction with DVL1, DVL2 and DVL3 (By similarity).				exocytosis|Wnt receptor signaling pathway	cytoplasmic membrane-bounded vesicle|plasma membrane	calcium ion binding|ubiquitin protein ligase binding				0	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;3.28e-09)		Epithelial(17;0.00093)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00417)|Lung(60;0.165)			AACTGCGGGAAGGTCACCAGG	0.617													20	61	---	---	---	---	PASS	G	1034432	G	G	1034432	3	3	177	1	0	0	0	0	1	0	0	0	10442	72	3	5	435	5	NKD2	5	1034432	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08		1034432	179880828	171	62631										
DNAH5	1767	broad.mit.edu	37	chr5	13866338	13866338	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aaaaagattacctgaaacatGataagcctgtcactggcttc	7	9	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:13866338G>A	uc003jfd.2	-	26	4149	c.4107C>T	c.(4105-4107)ATC>ATT	p.I1369I		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1369	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CCTGAAACATGATAAGCCTGT	0.353									Kartagener_syndrome				11	100	---	---	---	---	PASS	A	13866338	A	A	13866338	2	1	177	1	0	0	0	0	0	0	0	1	4604	1280	45	2		2	DNAH5	5	13866338	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	12831906	13866338	167048922	172	62632										
RAI14	26064	broad.mit.edu	37	chr5	34813695	34813695	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcagcatgaccaagtctctaAaataagctcagaaagaagtg	8	8	3	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:34813695A>T	uc003jir.2	+	11	978	c.782A>T	c.(781-783)AAA>ATA	p.K261I	RAI14_uc010iur.2_Intron|RAI14_uc011coj.1_Missense_Mutation_p.K261I|RAI14_uc010ius.1_Missense_Mutation_p.K190I|RAI14_uc003jis.2_Missense_Mutation_p.K264I|RAI14_uc003jit.2_Missense_Mutation_p.K261I|RAI14_uc011cok.1_Missense_Mutation_p.K253I	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	261						cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					CAAGTCTCTAAAATAAGCTCA	0.403													20	69	---	---	---	---	PASS	T	34813695	T	T	34813695	3	4	177	1	0	0	0	0	1	0	0	0	13008	14	1	5	885	5	RAI14	5	34813695	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	20947357	34813695	146101565	173	62633										
DAB2	1601	broad.mit.edu	37	chr5	39390671	39390671	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atttactggatgttcatgctCtattaccttaaaaaagaaca	5	7	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:39390671C>T	uc003jlx.2	-	5	868	c.337G>A	c.(337-339)GAG>AAG	p.E113K	DAB2_uc003jlw.2_Missense_Mutation_p.E113K	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	113	PID.				cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			TGTTCATGCTCTATTACCTTA	0.393													45	48	---	---	---	---	PASS	T	39390671	T	T	39390671	3	4	177	1	0	0	0	0	1	0	0	0	4218	922	32	2	2015	2	DAB2	5	39390671	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	4576976	39390671	141524589	174	62634										
HCN1	348980	broad.mit.edu	37	chr5	45262720	45262720	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtggagattgtgtcctcatgCgggaggtcggggtcgtagta	18	6	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:45262720C>A	uc003jok.2	-	8	2001	c.1976G>T	c.(1975-1977)CGC>CTC	p.R659L		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	659	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TGTCCTCATGCGGGAGGTCGG	0.567													74	76	---	---	---	---	PASS	A	45262720	A	A	45262720	3	1	177	1	0	0	0	0	1	0	0	0	6996	768	27	1	700	1	HCN1	5	45262720	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	5872049	45262720	135652540	175	62635										
VCAN	1462	broad.mit.edu	37	chr5	82808109	82808109	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	caccctgtgactgtggccagGgcccagtgtggaggtggtct	16	11	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:82808109G>T	uc003kii.3	+	6	1292	c.936G>T	c.(934-936)AGG>AGT	p.R312S	VCAN_uc003kij.3_Missense_Mutation_p.R312S|VCAN_uc010jau.2_Missense_Mutation_p.R312S|VCAN_uc003kik.3_Missense_Mutation_p.R312S|VCAN_uc003kih.3_Missense_Mutation_p.R312S	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	312	Link 2.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CTGTGGCCAGGGCCCAGTGTG	0.597													20	16	---	---	---	---	PASS	T	82808109	T	T	82808109	3	4	177	1	0	0	0	0	1	0	0	0	17135	1223	43	3	954	3	VCAN	5	82808109	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	37545389	82808109	98107151	176	62636										
EDIL3	10085	broad.mit.edu	37	chr5	83360526	83360526	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atttgagacttacccgacagTtcacagccaagaagttccat	7	11	1	2	rs143816596		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:83360526T>A	uc003kio.1	-	8	1364	c.945A>T	c.(943-945)GAA>GAT	p.E315D	EDIL3_uc003kip.1_Missense_Mutation_p.E305D|EDIL3_uc011ctt.1_Missense_Mutation_p.E92D	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like	315					cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)		TACCCGACAGTTCACAGCCAA	0.368													16	27	---	---	---	---	PASS	A	83360526	A	A	83360526	3	1	177	1	0	0	0	0	1	0	0	0	4915	1722	60	5	513	5	EDIL3	5	83360526	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	552417	83360526	97554734	177	62637										
GPR98	84059	broad.mit.edu	37	chr5	90016835	90016835	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggcattgatttggctgtgaGtgtgcagtgggagacagtat	16	4	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:90016835G>A	uc003kju.2	+	45	9803	c.9707G>A	c.(9706-9708)AGT>AAT	p.S3236N	GPR98_uc003kjt.2_Missense_Mutation_p.S942N|GPR98_uc003kjv.2_Missense_Mutation_p.S836N	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3236	Extracellular (Potential).|EAR 1.				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TTGGCTGTGAGTGTGCAGTGG	0.383													27	84	---	---	---	---	PASS	A	90016835	A	A	90016835	3	1	177	1	0	0	0	0	1	0	0	0	6721	1029	36	3	9885	3	GPR98	5	90016835	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	6656309	90016835	90898425	178	62638										
ELL2	22936	broad.mit.edu	37	chr5	95224661	95224661	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gttatgaagatattcacatcTgtatttttcttcatggtaat	6	5	4	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:95224661T>A	uc003klr.3	-	12	2187	c.1837A>T	c.(1837-1839)AGA>TGA	p.R613*		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	613					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		TATTCACATCTGTATTTTTCT	0.368													24	22	---	---	---	---	PASS	A	95224661	A	A	95224661	4	1	177	1	0	0	0	0	0	1	0	0	5063	1588	55	5	89	5	ELL2	5	95224661	Nonsense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	5207826	95224661	85690599	179	62639										
EPB41L4A	64097	broad.mit.edu	37	chr5	111594984	111594984	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgaagtgaacctttgtaatcCgaggcctaaaaaacaaagca	8	8	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:111594984C>A	uc003kpv.1	-	9	1011	c.737G>T	c.(736-738)CGG>CTG	p.R246L		NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	246	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		CTTTGTAATCCGAGGCCTAAA	0.393													37	44	---	---	---	---	PASS	A	111594984	A	A	111594984	3	1	177	1	0	0	0	0	1	0	0	0	5155	652	23	1	1383	1	EPB41L4A	5	111594984	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	16370323	111594984	69320276	180	62640										
APC	324	broad.mit.edu	37	chr5	112174043	112174043	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aattacattgtgtgacagatGagagaaatgcacttagaaga	10	4	0	6			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:112174043G>T	uc010jby.2	+	16	3132	c.2752G>T	c.(2752-2754)GAG>TAG	p.E918*	APC_uc011cvt.1_Nonsense_Mutation_p.E900*|APC_uc003kpz.3_Nonsense_Mutation_p.E918*|APC_uc003kpy.3_Nonsense_Mutation_p.E918*|APC_uc010jbz.2_Nonsense_Mutation_p.E635*|APC_uc010jca.2_Nonsense_Mutation_p.E218*	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	918	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.E918*(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGTGACAGATGAGAGAAATGC	0.413		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			24	31	---	---	---	---	PASS	T	112174043	T	T	112174043	4	4	177	1	0	0	0	0	0	1	0	0	763	1291	45	2	2810	2	APC	5	112174043	Nonsense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	579059	112174043	68741217	181	62641										
APC	324	broad.mit.edu	37	chr5	112177057	112177057	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cagccaataaatcgaggtcaGcctaaacccatacttcagaa	6	12	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:112177057G>T	uc010jby.2	+	16	6146	c.5766G>T	c.(5764-5766)CAG>CAT	p.Q1922H	APC_uc011cvt.1_Missense_Mutation_p.Q1904H|APC_uc003kpz.3_Missense_Mutation_p.Q1922H|APC_uc003kpy.3_Missense_Mutation_p.Q1922H|APC_uc010jbz.2_Missense_Mutation_p.Q1639H|APC_uc010jca.2_Missense_Mutation_p.Q1222H	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1922	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		ATCGAGGTCAGCCTAAACCCA	0.423		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			19	22	---	---	---	---	PASS	T	112177057	T	T	112177057	3	4	177	1	0	0	0	0	1	0	0	0	763	962	34	3	5824	3	APC	5	112177057	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	3014	112177057	68738203	182	62642										
ADAMTS19	171019	broad.mit.edu	37	chr5	128863463	128863463	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atttaaccttttccaacacaAgagtctgagtgtgcaggtca	8	9	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:128863463A>G	uc003kvb.1	+	5	1091	c.1091A>G	c.(1090-1092)AAG>AGG	p.K364R	ADAMTS19_uc003kvc.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	364	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		TTCCAACACAAGAGTCTGAGT	0.318													16	98	---	---	---	---	PASS	G	128863463	G	G	128863463	3	3	177	1	0	0	0	0	1	0	0	0	264	72	3	5	1109	5	ADAMTS19	5	128863463	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	16686406	128863463	52051797	183	62643										
FSTL4	23105	broad.mit.edu	37	chr5	132556550	132556550	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gacatagaacatgtttcccaCgctgaggcctgggaggagca	13	10	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:132556550C>T	uc003kyn.1	-	12	1566	c.1348G>A	c.(1348-1350)GTG>ATG	p.V450M	FSTL4_uc003kym.1_Missense_Mutation_p.V99M	NM_015082	NP_055897	Q6MZW2	FSTL4_HUMAN	follistatin-like 4 precursor	450						extracellular region	calcium ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(142;0.244)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ATGTTTCCCACGCTGAGGCCT	0.552													10	47	---	---	---	---	PASS	T	132556550	T	T	132556550	3	4	177	1	0	0	0	0	1	0	0	0	6079	536	19	1	1200	1	FSTL4	5	132556550	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	3693087	132556550	48358710	184	62644										
PSD2	84249	broad.mit.edu	37	chr5	139189275	139189275	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcaccaatggcctagccctgGggccagacttgaacattctg	10	13	2	2	rs148759979		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:139189275G>T	uc003leu.1	+	2	455	c.250G>T	c.(250-252)GGG>TGG	p.G84W		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	84					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTAGCCCTGGGGCCAGACTT	0.622													76	48	---	---	---	---	PASS	T	139189275	T	T	139189275	3	4	177	1	0	0	0	0	1	0	0	0	12647	1232	43	3	252	3	PSD2	5	139189275	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	6632725	139189275	41725985	185	62645										
PCDHA2	56146	broad.mit.edu	37	chr5	140176148	140176148	+	Frame_Shift_Del	DEL	C	-	-													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gaagtggagctgctgcagttCcaggtgagcgcgcgggatgc							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:140176148delC	uc003lhd.2	+	1	1705	c.1599delC	c.(1597-1599)TTCfs	p.F533fs	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Frame_Shift_Del_p.F533fs|PCDHA2_uc011czy.1_Frame_Shift_Del_p.F533fs	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	533	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTGCAGTTCCAGGTGAGCG	0.677													54	40	---	---	---	---		-	140176148	-	-	140176148	7	5	177	1	0	1	0	1	0	0	0	0	11524	854	30	0	1601	0	PCDHA2	5	140176148	Frame_Shift_Del	DEL	C	TCGA-85-6560-01A-11D-1817-08	986873	140176148	40739112	186	62646										
ARHGEF37	389337	broad.mit.edu	37	chr5	149001624	149001624	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggcagagggaagcatggcccAggtaaggcctctgagacttg	16	9	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:149001624A>C	uc003lra.1	+	9	1398	c.1334A>C	c.(1333-1335)CAG>CCG	p.Q445P		NM_001001669	NP_001001669	A1IGU5	ARH37_HUMAN	hypothetical protein LOC389337	445	BAR.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0						AGCATGGCCCAGGTAAGGCCT	0.607													6	6	---	---	---	---	PASS	C	149001624	C	C	149001624	3	2	177	1	0	0	0	0	1	0	0	0	906	202	7	5	1364	5	ARHGEF37	5	149001624	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	8825476	149001624	31913636	187	62647										
LARP1	23367	broad.mit.edu	37	chr5	154169899	154169899	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccacagaacactctgctccaGccaaggtggtgagggcagct	12	13	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:154169899G>A	uc003lvp.2	+	2	880	c.451G>A	c.(451-453)GCC>ACC	p.A151T	LARP1_uc003lvo.2_Missense_Mutation_p.A74T|LARP1_uc010jie.1_5'UTR	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	151							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CTCTGCTCCAGCCAAGGTGGT	0.552													7	53	---	---	---	---	PASS	A	154169899	A	A	154169899	3	1	177	1	0	0	0	0	1	0	0	0	8628	971	34	3	226	3	LARP1	5	154169899	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	5168275	154169899	26745361	188	62648										
EBF1	1879	broad.mit.edu	37	chr5	158135176	158135176	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggccatggtggggctggatgGcactactgagaggggcaatg	19	7	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:158135176G>T	uc010jip.2	-	15	1857	c.1555C>A	c.(1555-1557)CCA>ACA	p.P519T	EBF1_uc011ddw.1_Missense_Mutation_p.P387T|EBF1_uc011ddx.1_Missense_Mutation_p.P520T|EBF1_uc003lxl.3_Missense_Mutation_p.P488T	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	519	Pro/Ser/Thr-rich.				multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGGCTGGATGGCACTACTGAG	0.567			T	HMGA2	lipoma								5	5	---	---	---	---	PASS	T	158135176	T	T	158135176	3	4	177	1	0	0	0	0	1	0	0	0	4880	1203	42	3	228	3	EBF1	5	158135176	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	3965277	158135176	22780084	189	62649										
RANBP17	64901	broad.mit.edu	37	chr5	170725835	170725835	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cgcagtgatggcaacactgaAccatgcagtctcgacatgat	10	11	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:170725835A>G	uc003mba.2	+	28	3256	c.3240A>G	c.(3238-3240)GAA>GAG	p.E1080E	RANBP17_uc003mbb.2_Silent_p.E405E|RANBP17_uc010jjs.2_RNA	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	1080					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)			GCAACACTGAACCATGCAGTC	0.507			T	TRD@	ALL								23	33	---	---	---	---	PASS	G	170725835	G	G	170725835	2	3	177	1	0	0	0	0	0	0	0	1	13027	40	2	5		5	RANBP17	5	170725835	Silent	SNP	A	TCGA-85-6560-01A-11D-1817-08	12590659	170725835	10189425	190	62650										
DOK3	79930	broad.mit.edu	37	chr5	176931447	176931447	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtggctcaggtcctggtggcAtctcccgaagctctccgggg	15	13	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr5:176931447A>C	uc003mhk.2	-	6	1033	c.1028T>G	c.(1027-1029)ATG>AGG	p.M343R	DOK3_uc003mhh.3_Intron|DOK3_uc003mhi.3_Intron|DOK3_uc003mhj.3_Intron|DOK3_uc003mhl.2_Missense_Mutation_p.M287R	NM_024872	NP_079148	Q7L591	DOK3_HUMAN	docking protein 3 isoform 1	343	Pro-rich.					cytoplasm|plasma membrane	insulin receptor binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	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)|Epithelial(233;0.191)			TCCTGGTGGCATCTCCCGAAG	0.706													17	16	---	---	---	---	PASS	C	176931447	C	C	176931447	3	2	177	1	0	0	0	0	1	0	0	0	4698	217	8	5	818	5	DOK3	5	176931447	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	6205612	176931447	3983813	191	62651										
IRF4	3662	broad.mit.edu	37	chr6	398903	398903	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cggagtccccacagagccaaGcataaggtctgccgaagcct	11	14	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:398903G>T	uc003msz.3	+	6	826	c.713G>T	c.(712-714)AGC>ATC	p.S238I	IRF4_uc010jne.1_Missense_Mutation_p.S238I|IRF4_uc003mta.3_RNA|IRF4_uc003mtb.3_Missense_Mutation_p.S237I|IRF4_uc003mtc.1_Missense_Mutation_p.S68I	NM_002460	NP_002451	Q15306	IRF4_HUMAN	interferon regulatory factor 4	238					interferon-gamma-mediated signaling pathway|positive regulation of interleukin-10 biosynthetic process|positive regulation of interleukin-13 biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of transcription, DNA-dependent|regulation of T-helper cell differentiation|T cell activation|type I interferon-mediated signaling pathway	cytoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1		Breast(5;0.0155)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.03)|BRCA - Breast invasive adenocarcinoma(62;0.0702)		ACAGAGCCAAGCATAAGGTCT	0.562			T	IGH@	MM 								19	21	---	---	---	---	PASS	T	398903	T	T	398903	3	4	177	1	0	0	0	0	1	0	0	0	7832	971	34	3	731	3	IRF4	6	398903	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08		398903	170716164	192	62652										
MYLK4	340156	broad.mit.edu	37	chr6	2680468	2680468	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gacataccttctggccaatcCaaaatcaataatttttattt	3	9	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:2680468C>A	uc003mty.3	-	8	1042	c.745G>T	c.(745-747)GGA>TGA	p.G249*	MYLK4_uc003mtx.3_5'Flank	NM_001012418	NP_001012418	Q86YV6	MYLK4_HUMAN	myosin light chain kinase family, member 4	249	Protein kinase.						ATP binding|protein serine/threonine kinase activity			breast(3)|ovary(1)	4	Ovarian(93;0.0412)	all_hematologic(90;0.0897)				CTGGCCAATCCAAAATCAATA	0.418													34	327	---	---	---	---	PASS	A	2680468	A	A	2680468	4	1	177	1	0	0	0	0	0	1	0	0	10059	603	21	3	441	3	MYLK4	6	2680468	Nonsense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2281565	2680468	168434599	193	62653										
NRSN1	140767	broad.mit.edu	37	chr6	24134684	24134684	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgtacagcctcaatttgggaGtatgaggatgatttccagat	11	6	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:24134684G>T	uc010jpq.1	+	3	366	c.129G>T	c.(127-129)GAG>GAT	p.E43D		NM_080723	NP_542454	Q8IZ57	NRSN1_HUMAN	neurensin 1	43					nervous system development	growth cone|integral to membrane|neuronal cell body|transport vesicle					0						CAATTTGGGAGTATGAGGATG	0.493													19	43	---	---	---	---	PASS	T	24134684	T	T	24134684	3	4	177	1	0	0	0	0	1	0	0	0	10662	1020	36	3	131	3	NRSN1	6	24134684	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	21454216	24134684	146980383	194	62654										
HIST1H2AC	8334	broad.mit.edu	37	chr6	26124828	26124828	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tctgcctaagaagaccgagaGtcaccacaaggccaagggca	11	12	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:26124828G>C	uc003ngm.2	+	1	456	c.368G>C	c.(367-369)AGT>ACT	p.S123T	HIST1H2BC_uc003ngk.3_5'Flank|HIST1H2BC_uc003ngl.2_5'Flank|HIST1H2AC_uc003ngn.2_RNA|HIST1H2AC_uc003ngo.2_RNA|HIST1H2AC_uc003ngp.2_Missense_Mutation_p.S123T	NM_003512	NP_003503	Q93077	H2A1C_HUMAN	histone cluster 1, H2ac	123					nucleosome assembly	nucleosome|nucleus	DNA binding				0						AAGACCGAGAGTCACCACAAG	0.547													24	103	---	---	---	---	PASS	C	26124828	C	C	26124828	3	2	177	1	0	0	0	0	1	0	0	0	7130	1029	36	4	370	4	HIST1H2AC	6	26124828	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1990144	26124828	144990239	195	62655										
HIST1H3D	8351	broad.mit.edu	37	chr6	26197191	26197191	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cccaccaggtaggcctcgcaGgcctcctgcagcgccatcac	10	19	1	0	rs138527852	byFrequency	TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:26197191G>T	uc003ngv.2	-	2	685	c.288C>A	c.(286-288)GCC>GCA	p.A96A	HIST1H2BF_uc003ngx.2_5'Flank	NM_003530	NP_003521	P68431	H31_HUMAN	histone cluster 1, H3d	96					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.196)				AGGCCTCGCAGGCCTCCTGCA	0.587													11	112	---	---	---	---	PASS	T	26197191	T	T	26197191	2	4	177	1	0	0	0	0	0	0	0	1	7158	987	35	3		3	HIST1H3D	6	26197191	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	72363	26197191	144917876	196	62656										
OR2J2	26707	broad.mit.edu	37	chr6	29141839	29141839	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcatgcaccctcgtttctgcCacttgttggttgcggcttct	9	13	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:29141839C>A	uc011dlm.1	+	1	529	c.427C>A	c.(427-429)CAC>AAC	p.H143N		NM_030905	NP_112167	O76002	OR2J2_HUMAN	olfactory receptor, family 2, subfamily J,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCGTTTCTGCCACTTGTTGGT	0.463													158	343	---	---	---	---	PASS	A	29141839	A	A	29141839	3	1	177	1	0	0	0	0	1	0	0	0	11003	594	21	3	429	3	OR2J2	6	29141839	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2944648	29141839	141973228	197	62657										
TNXB	7148	broad.mit.edu	37	chr6	32036726	32036726	+	Silent	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttccggtcacctcctatgcgGaccatttggagttgcccgtc	10	14	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:32036726G>C	uc003nzl.2	-	16	5977	c.5775C>G	c.(5773-5775)GTC>GTG	p.V1925V		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2007	Fibronectin type-III 12.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CTCCTATGCGGACCATTTGGA	0.527													14	144	---	---	---	---	PASS	C	32036726	C	C	32036726	2	2	177	1	0	0	0	0	0	0	0	1	16343	1161	41	2		2	TNXB	6	32036726	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	2894887	32036726	139078341	198	62658										
TFEB	7942	broad.mit.edu	37	chr6	41653913	41653913	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggacttttgcaggtccttcTgcatcctccggatgtaatcc	9	12	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:41653913T>C	uc003oqs.1	-	9	1168	c.866A>G	c.(865-867)CAG>CGG	p.Q289R	TFEB_uc003oqt.1_Missense_Mutation_p.Q289R|TFEB_uc003oqu.1_Missense_Mutation_p.Q303R|TFEB_uc003oqr.1_Missense_Mutation_p.Q204R	NM_007162	NP_009093	P19484	TFEB_HUMAN	transcription factor EB	289	Helix-loop-helix motif.				embryonic placenta development|humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;7.61e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			CAGGTCCTTCTGCATCCTCCG	0.582			T	ALPHA	renal (childhood epithelioid)								48	63	---	---	---	---	PASS	C	41653913	C	C	41653913	3	2	177	1	0	0	0	0	1	0	0	0	15798	1580	55	5	572	5	TFEB	6	41653913	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	9617187	41653913	129461154	199	62659										
TTBK1	84630	broad.mit.edu	37	chr6	43227316	43227316	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cgaggcatgggggtccccagCtccccagtgcgtgccccccc	13	19	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:43227316C>A	uc003ouq.1	+	12	1575	c.1296C>A	c.(1294-1296)AGC>AGA	p.S432R		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	432						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			GGGTCCCCAGCTCCCCAGTGC	0.682													4	26	---	---	---	---	PASS	A	43227316	A	A	43227316	3	1	177	1	0	0	0	0	1	0	0	0	16673	796	28	3	1338	3	TTBK1	6	43227316	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	1573403	43227316	127887751	200	62660										
CAPN11	11131	broad.mit.edu	37	chr6	44137691	44137691	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggatgggatttctccaacaGacatctgccaggggatcctc	11	11	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:44137691G>C	uc003owt.1	+	4	426	c.388G>C	c.(388-390)GAC>CAC	p.D130H		NM_007058	NP_008989	Q9UMQ6	CAN11_HUMAN	calpain 11	130	Calpain catalytic.				proteolysis	acrosomal vesicle	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)|breast(1)	2	all_cancers(18;3.19e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TTCTCCAACAGACATCTGCCA	0.562													9	17	---	---	---	---	PASS	C	44137691	C	C	44137691	3	2	177	1	0	0	0	0	1	0	0	0	2624	942	33	2	402	2	CAPN11	6	44137691	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	910375	44137691	126977376	201	62661										
GPR115	221393	broad.mit.edu	37	chr6	47682358	47682358	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gccaatgtgtggtttatcatAggctctcactttaacattaa	7	8	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:47682358A>G	uc003oza.1	+	6	1635	c.1377A>G	c.(1375-1377)ATA>ATG	p.I459M	GPR115_uc003oyz.1_Missense_Mutation_p.I516M|GPR115_uc003ozb.1_Missense_Mutation_p.I457M	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	459	Helical; Name=2; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						GGTTTATCATAGGCTCTCACT	0.458													9	234	---	---	---	---	PASS	G	47682358	G	G	47682358	3	3	177	1	0	0	0	0	1	0	0	0	6632	410	15	5	1395	5	GPR115	6	47682358	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	3544667	47682358	123432709	202	62662										
C6orf138	442213	broad.mit.edu	37	chr6	47847436	47847436	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggagccaaagaaggagaaaaTgtagaagtagttcaacagaa	12	4	1	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:47847436T>C	uc011dwm.1	-	3	1178	c.1093A>G	c.(1093-1095)ATT>GTT	p.I365V	C6orf138_uc011dwn.1_Missense_Mutation_p.I129V	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	382	Helical; (Potential).|SSD.					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						AAGGAGAAAATGTAGAAGTAG	0.453													5	38	---	---	---	---	PASS	C	47847436	C	C	47847436	3	2	177	1	0	0	0	0	1	0	0	0	2332	1464	51	5	1400	5	C6orf138	6	47847436	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	165078	47847436	123267631	203	62663										
MUT	4594	broad.mit.edu	37	chr6	49421411	49421411	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agcccagagtcttctaccagCtctcatctttgctatttcca	5	14	4	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:49421411C>T	uc003ozg.3	-	5	1225	c.970G>A	c.(970-972)GCT>ACT	p.A324T		NM_000255	NP_000246	P22033	MUTA_HUMAN	methylmalonyl Coenzyme A mutase precursor	324			A -> T (in MMAM; mut-).		fatty acid beta-oxidation	mitochondrial matrix	cobalamin binding|metal ion binding|methylmalonyl-CoA mutase activity				0	Lung NSC(77;0.0376)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CTTCTACCAGCTCTCATCTTT	0.363													20	78	---	---	---	---	PASS	T	49421411	T	T	49421411	3	4	177	1	0	0	0	0	1	0	0	0	9991	797	28	3	1318	3	MUT	6	49421411	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	1573975	49421411	121693656	204	62664										
GSTA2	2939	broad.mit.edu	37	chr6	52616444	52616444	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tagtagagaagttccaccagGtgaatgtcagcccggctcag	12	10	2	2	rs140075572	byFrequency	TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:52616444G>T	uc003pay.2	-	6	627	c.477C>A	c.(475-477)CAC>CAA	p.H159Q		NM_000846	NP_000837	P09210	GSTA2_HUMAN	glutathione S-transferase alpha 2	159	GST C-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.118)				Aminophenazone(DB01424)|Amsacrine(DB00276)|Busulfan(DB01008)|Chlorambucil(DB00291)|Chloroquine(DB00608)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Ethacrynic acid(DB00903)|Glutathione(DB00143)|Mechlorethamine(DB00888)|Praziquantel(DB01058)|Vitamin E(DB00163)	GTTCCACCAGGTGAATGTCAG	0.512													29	134	---	---	---	---	PASS	T	52616444	T	T	52616444	3	4	177	1	0	0	0	0	1	0	0	0	6831	1252	44	3	199	3	GSTA2	6	52616444	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	3195033	52616444	118498623	205	62665										
PRIM2	5558	broad.mit.edu	37	chr6	57472362	57472362	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttattttttgttgtcagggtGcccattccgtcacagtgatc	9	9	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:57472362G>A	uc003pdx.2	+	13	1238	c.1151G>A	c.(1150-1152)TGC>TAC	p.C384Y		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	384		Iron-sulfur (4Fe-4S).			DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		TTGTCAGGGTGCCCATTCCGT	0.443													6	76	---	---	---	---	PASS	A	57472362	A	A	57472362	3	1	177	1	0	0	0	0	1	0	0	0	12491	1319	46	3	1193	3	PRIM2	6	57472362	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4855918	57472362	113642705	206	62666										
BAI3	577	broad.mit.edu	37	chr6	69653721	69653721	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agcttctttgctttattacaGtacacggagtatgggaggaa	11	6	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:69653721G>C	uc003pev.3	+	6	1479	c.1031_splice	c.e6-1	p.V344_splice	BAI3_uc010kak.2_Splice_Site_p.V344_splice	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3						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)				CTTTATTACAGTACACGGAGT	0.363													19	86	---	---	---	---	PASS	C	69653721	C	C	69653721	5	2	177	1	0	0	0	0	0	0	1	0	1300	1043	36	4	1044	4	BAI3	6	69653721	Splice_Site	SNP	G	TCGA-85-6560-01A-11D-1817-08	12181359	69653721	101461346	207	62667										
COL9A1	1297	broad.mit.edu	37	chr6	71004114	71004114	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgtatgaaaatacaacagatTgtgtttggccattaatcttt	7	5	1	2	rs149389568		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:71004114T>A	uc003pfg.3	-	5	611	c.452A>T	c.(451-453)CAA>CTA	p.Q151L		NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	151	Nonhelical region (NC4).|TSP N-terminal.				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						TACAACAGATTGTGTTTGGCC	0.428													70	90	---	---	---	---	PASS	A	71004114	A	A	71004114	3	1	177	1	0	0	0	0	1	0	0	0	3707	1812	63	5	2525	5	COL9A1	6	71004114	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	1350393	71004114	100110953	208	62668										
RIMS1	22999	broad.mit.edu	37	chr6	73102433	73102433	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggagtgcgactgggagctgaCagtcaattcagtgattttct	13	7	3	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:73102433C>G	uc003pga.2	+	31	4616	c.4539C>G	c.(4537-4539)GAC>GAG	p.D1513E	RIMS1_uc011dyb.1_Missense_Mutation_p.D910E|RIMS1_uc003pgc.2_Missense_Mutation_p.D962E|RIMS1_uc010kaq.2_Missense_Mutation_p.D833E|RIMS1_uc011dyc.1_Missense_Mutation_p.D638E|RIMS1_uc010kar.2_Missense_Mutation_p.D581E|RIMS1_uc011dyd.1_Missense_Mutation_p.D647E|RIMS1_uc003pgf.2_Missense_Mutation_p.D513E|RIMS1_uc003pgg.2_Missense_Mutation_p.D409E|RIMS1_uc003pgi.2_Missense_Mutation_p.D329E|RIMS1_uc003pgh.2_Missense_Mutation_p.D380E|RIMS1_uc003pgd.2_Missense_Mutation_p.D579E|RIMS1_uc003pge.2_Missense_Mutation_p.D553E|RIMS1_uc011dye.1_Missense_Mutation_p.D319E|RIMS1_uc011dyf.1_Missense_Mutation_p.D137E|RIMS1_uc011dyg.1_Missense_Mutation_p.D40E	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1513					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)				TGGGAGCTGACAGTCAATTCA	0.413													40	87	---	---	---	---	PASS	G	73102433	G	G	73102433	3	3	177	1	0	0	0	0	1	0	0	0	13367	477	17	4	4824	4	RIMS1	6	73102433	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2098319	73102433	98012634	209	62669										
KCNQ5	56479	broad.mit.edu	37	chr6	73843173	73843173	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aagttttaaggagcgagtgcGcatggctagccccaggggcc	15	10	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:73843173G>A	uc003pgk.2	+	10	1624	c.1277G>A	c.(1276-1278)CGC>CAC	p.R426H	KCNQ5_uc011dyh.1_Missense_Mutation_p.R445H|KCNQ5_uc011dyi.1_Missense_Mutation_p.R436H|KCNQ5_uc010kat.2_Missense_Mutation_p.R417H|KCNQ5_uc011dyj.1_Intron|KCNQ5_uc011dyk.1_Missense_Mutation_p.R176H	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	426					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		GAGCGAGTGCGCATGGCTAGC	0.512													11	56	---	---	---	---	PASS	A	73843173	A	A	73843173	3	1	177	1	0	0	0	0	1	0	0	0	8086	1087	38	1	1376	1	KCNQ5	6	73843173	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	740740	73843173	97271894	210	62670										
COL12A1	1303	broad.mit.edu	37	chr6	75893688	75893688	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tctgctgagaggtcgcgaacActgagcgtggttgtctgagg	16	8	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:75893688A>T	uc003phs.2	-	9	1336	c.1170T>A	c.(1168-1170)AGT>AGA	p.S390R	COL12A1_uc003pht.2_Intron|COL12A1_uc003phu.1_Missense_Mutation_p.S48R	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	390	Fibronectin type-III 2.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GGTCGCGAACACTGAGCGTGG	0.522													24	112	---	---	---	---	PASS	T	75893688	T	T	75893688	3	4	177	1	0	0	0	0	1	0	0	0	3669	156	6	5	8253	5	COL12A1	6	75893688	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	2050515	75893688	95221379	211	62671										
KIAA1009	22832	broad.mit.edu	37	chr6	84910621	84910621	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtctaatgaatcaagcagcaCaactggaagaatataaaaga	8	6	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:84910621C>A	uc010kbp.2	-	9	818	c.721G>T	c.(721-723)GTG>TTG	p.V241L	KIAA1009_uc003pkj.3_Missense_Mutation_p.V165L|KIAA1009_uc003pkk.2_Missense_Mutation_p.V241L	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	241					cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		TCAAGCAGCACAACTGGAAGA	0.323													55	89	---	---	---	---	PASS	A	84910621	A	A	84910621	3	1	177	1	0	0	0	0	1	0	0	0	8203	478	17	3	3566	3	KIAA1009	6	84910621	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	9016933	84910621	86204446	212	62672										
TBX18	9096	broad.mit.edu	37	chr6	85457787	85457787	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cactcgcggttggtatttgtGcatagaatgaagaataatct	10	6	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:85457787G>T	uc003pkl.1	-	5	790	c.790C>A	c.(790-792)CAC>AAC	p.H264N	TBX18_uc010kbq.1_Missense_Mutation_p.H106N	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	264	T-box.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TGGTATTTGTGCATAGAATGA	0.428													10	47	---	---	---	---	PASS	T	85457787	T	T	85457787	3	4	177	1	0	0	0	0	1	0	0	0	15650	1319	46	3	1049	3	TBX18	6	85457787	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	547166	85457787	85657280	213	62673										
TBX18	9096	broad.mit.edu	37	chr6	85472268	85472268	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agcttgcccattacctgccgGccttggtgatgatcatctca	9	13	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:85472268G>T	uc003pkl.1	-	2	491	c.491C>A	c.(490-492)GCC>GAC	p.A164D	TBX18_uc010kbq.1_Missense_Mutation_p.A6D	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	164	T-box.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TTACCTGCCGGCCTTGGTGAT	0.627													28	155	---	---	---	---	PASS	T	85472268	T	T	85472268	3	4	177	1	0	0	0	0	1	0	0	0	15650	1203	42	3	1360	3	TBX18	6	85472268	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	14481	85472268	85642799	214	62674										
HTR1E	3354	broad.mit.edu	37	chr6	87725570	87725570	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aagccctccccctagtcagtGcaccatccagcacgaccatg	7	18	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:87725570G>T	uc003pli.2	+	2	1221	c.518G>T	c.(517-519)TGC>TTC	p.C173F		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	173	Extracellular (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	CCTAGTCAGTGCACCATCCAG	0.512													43	71	---	---	---	---	PASS	T	87725570	T	T	87725570	3	4	177	1	0	0	0	0	1	0	0	0	7439	1319	46	3	520	3	HTR1E	6	87725570	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2253302	87725570	83389497	215	62675										
SLC35F1	222553	broad.mit.edu	37	chr6	118596642	118596642	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gggaaaataagctggtagggGaccttctggtcttaggagga	16	5	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:118596642G>T	uc003pxx.3	+	5	859	c.658G>T	c.(658-660)GAC>TAC	p.D220Y	SLC35F1_uc003pxy.1_Missense_Mutation_p.D25Y	NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	220					transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		GCTGGTAGGGGACCTTCTGGT	0.448													13	61	---	---	---	---	PASS	T	118596642	T	T	118596642	3	4	177	1	0	0	0	0	1	0	0	0	14588	1174	41	2	676	2	SLC35F1	6	118596642	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	30871072	118596642	52518425	216	62676										
EPB41L2	2037	broad.mit.edu	37	chr6	131215519	131215519	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgctccacgcacactttccaTagtcttttcgctgcccggtg	8	15	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:131215519T>C	uc003qch.2	-	10	1634	c.1452A>G	c.(1450-1452)CTA>CTG	p.L484L	EPB41L2_uc003qcg.1_Silent_p.L484L|EPB41L2_uc011eby.1_Silent_p.L484L|EPB41L2_uc003qci.2_Silent_p.L484L|EPB41L2_uc010kfk.2_Silent_p.L484L|EPB41L2_uc010kfl.1_Silent_p.L484L	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	484	FERM.				cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		ACACTTTCCATAGTCTTTTCG	0.333													55	140	---	---	---	---	PASS	C	131215519	C	C	131215519	2	2	177	1	0	0	0	0	0	0	0	1	5153	1393	49	5		5	EPB41L2	6	131215519	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	12618877	131215519	39899548	217	62677										
ENPP1	5167	broad.mit.edu	37	chr6	132168977	132168977	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atttgggttgaaaccaagctGtgccaaagaaggtaattagg	12	5	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:132168977G>T	uc011ecf.1	+	2	322	c.302G>T	c.(301-303)TGT>TTT	p.C101F		NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	101	Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	AAACCAAGCTGTGCCAAAGAA	0.264													12	20	---	---	---	---	PASS	T	132168977	T	T	132168977	3	4	177	1	0	0	0	0	1	0	0	0	5129	1377	48	3	308	3	ENPP1	6	132168977	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	953458	132168977	38946090	218	62678										
ENPP1	5167	broad.mit.edu	37	chr6	132172345	132172345	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gttgaccagaagcctctgtgCctgttcagatgactgcaagg	12	10	2	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:132172345C>A	uc011ecf.1	+	4	514	c.494C>A	c.(493-495)GCC>GAC	p.A165D		NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	165	Extracellular (Potential).|SMB 2.				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	AGCCTCTGTGCCTGTTCAGAT	0.468													22	92	---	---	---	---	PASS	A	132172345	A	A	132172345	3	1	177	1	0	0	0	0	1	0	0	0	5129	739	26	3	508	3	ENPP1	6	132172345	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	3368	132172345	38942722	219	62679										
TAAR9	134860	broad.mit.edu	37	chr6	132860118	132860118	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gccaagcatcaggctaggaaGatagaaagtacagccagcca	11	10	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:132860118G>C	uc011eci.1	+	2	692	c.690G>C	c.(688-690)AAG>AAC	p.K230N		NM_175057	NP_778227	Q96RI9	TAAR9_HUMAN	trace amine associated receptor 9	230	Cytoplasmic (Potential).					plasma membrane	G-protein coupled receptor activity				0	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.0042)|GBM - Glioblastoma multiforme(226;0.00816)		AGGCTAGGAAGATAGAAAGTA	0.423													51	65	---	---	---	---	PASS	C	132860118	C	C	132860118	3	2	177	1	0	0	0	0	1	0	0	0	15491	933	33	2	692	2	TAAR9	6	132860118	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	687773	132860118	38254949	220	62680										
VNN1	8876	broad.mit.edu	37	chr6	133015200	133015200	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gttgtattggtaacggccatCagggggacactgaggatcac	14	8	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:133015200C>G	uc003qdo.2	-	3	483	c.463G>C	c.(463-465)GAT>CAT	p.D155H		NM_004666	NP_004657	O95497	VNN1_HUMAN	vanin 1 precursor	155	CN hydrolase.				acute inflammatory response|anti-apoptosis|cell-cell adhesion|cellular component movement|chronic inflammatory response|innate immune response|pantothenate metabolic process|positive regulation of T cell differentiation in thymus|response to oxidative stress	anchored to membrane|integral to membrane|plasma membrane	GPI anchor binding|pantetheine hydrolase activity			ovary(3)	3	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.0027)|GBM - Glioblastoma multiforme(226;0.0189)		TAACGGCCATCAGGGGGACAC	0.428													14	90	---	---	---	---	PASS	G	133015200	G	G	133015200	3	3	177	1	0	0	0	0	1	0	0	0	17179	826	29	2	1098	2	VNN1	6	133015200	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	155082	133015200	38099867	221	62681										
PEX7	5191	broad.mit.edu	37	chr6	137219304	137219304	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggaacttttcaaagcctgaCtctcttcttgaaacagtgga	8	9	3	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:137219304C>G	uc003qhd.2	+	9	930	c.828C>G	c.(826-828)GAC>GAG	p.D276E	PEX7_uc010kgx.2_RNA	NM_000288	NP_000279	O00628	PEX7_HUMAN	peroxisomal biogenesis factor 7	276					ether lipid biosynthetic process|protein import into peroxisome matrix	peroxisome	peroxisome matrix targeting signal-2 binding				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000257)|OV - Ovarian serous cystadenocarcinoma(155;0.00492)		CAAAGCCTGACTCTCTTCTTG	0.328													19	61	---	---	---	---	PASS	G	137219304	G	G	137219304	3	3	177	1	0	0	0	0	1	0	0	0	11751	564	20	4	862	4	PEX7	6	137219304	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	4204104	137219304	33895763	222	62682										
ECT2L	345930	broad.mit.edu	37	chr6	139204005	139204005	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtcattctgaaaactattgaGaaggtaaatgagtttcaatt	8	4	3	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:139204005G>T	uc003qif.1	+	14	2128	c.2025G>T	c.(2023-2025)GAG>GAT	p.E675D	ECT2L_uc011edq.1_Missense_Mutation_p.E606D	NM_001077706	NP_001071174	Q008S8	ECT2L_HUMAN	epithelial cell transforming sequence 2	675	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0						AAACTATTGAGAAGGTAAATG	0.393													6	36	---	---	---	---	PASS	T	139204005	T	T	139204005	3	4	177	1	0	0	0	0	1	0	0	0	4902	933	33	2	2079	2	ECT2L	6	139204005	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1984701	139204005	31911062	223	62683										
GRM1	2911	broad.mit.edu	37	chr6	146720571	146720571	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	caccacctgtatcatctggcTagcttttgtgcccatttact	6	13	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:146720571T>A	uc010khw.1	+	8	2866	c.2396T>A	c.(2395-2397)CTA>CAA	p.L799Q	GRM1_uc010khv.1_Missense_Mutation_p.L799Q|GRM1_uc003qll.2_Missense_Mutation_p.L799Q|GRM1_uc011edz.1_Missense_Mutation_p.L799Q|GRM1_uc011eea.1_Missense_Mutation_p.L799Q	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	799	Helical; Name=6; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	ATCATCTGGCTAGCTTTTGTG	0.488													20	109	---	---	---	---	PASS	A	146720571	A	A	146720571	3	1	177	1	0	0	0	0	1	0	0	0	6796	1522	53	5	2422	5	GRM1	6	146720571	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	7516566	146720571	24394496	224	62684										
UST	10090	broad.mit.edu	37	chr6	149342530	149342530	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	acttcctgctcgtggggattCttgaagagttggaagatgtg	14	6	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:149342530C>A	uc003qmg.2	+	7	1146	c.850C>A	c.(850-852)CTT>ATT	p.L284I		NM_005715	NP_005706	Q9Y2C2	UST_HUMAN	uronyl-2-sulfotransferase	284	Lumenal (Potential).				protein sulfation	Golgi membrane|integral to membrane	sulfotransferase activity			ovary(2)	2		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.78e-10)|GBM - Glioblastoma multiforme(68;0.138)		CGTGGGGATTCTTGAAGAGTT	0.413													22	42	---	---	---	---	PASS	A	149342530	A	A	149342530	3	1	177	1	0	0	0	0	1	0	0	0	17090	913	32	2	876	2	UST	6	149342530	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2621959	149342530	21772537	225	62685										
SYNE1	23345	broad.mit.edu	37	chr6	152477094	152477094	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aatgtttctccaccgccggtCcaggtttctcgtagcctgct	9	14	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:152477094C>A	uc010kiw.2	-	132	24531	c.23929G>T	c.(23929-23931)GAC>TAC	p.D7977Y	SYNE1_uc010kiv.2_Missense_Mutation_p.D2501Y|SYNE1_uc003qos.3_Missense_Mutation_p.D2501Y|SYNE1_uc003qot.3_Missense_Mutation_p.D7906Y|SYNE1_uc003qou.3_Missense_Mutation_p.D7977Y|SYNE1_uc003qop.3_Missense_Mutation_p.D139Y|SYNE1_uc011eez.1_Missense_Mutation_p.D179Y|SYNE1_uc003qoq.3_Missense_Mutation_p.D179Y|SYNE1_uc003qor.3_Missense_Mutation_p.D877Y	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7977	Spectrin 28.|Cytoplasmic (Potential).|HAT 12.				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)		CACCGCCGGTCCAGGTTTCTC	0.512										HNSCC(10;0.0054)			31	74	---	---	---	---	PASS	A	152477094	A	A	152477094	3	1	177	1	0	0	0	0	1	0	0	0	15442	855	30	2	2597	2	SYNE1	6	152477094	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	3134564	152477094	18637973	226	62686										
SYTL3	94120	broad.mit.edu	37	chr6	159166690	159166690	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aaagaagaaaaagtgcaatcCgtaagttgttttttttaagt	8	3	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:159166690C>T	uc003qrp.2	+	11	1278	c.1034C>T	c.(1033-1035)CCG>CTG	p.P345L	SYTL3_uc011efp.1_Missense_Mutation_p.P345L|SYTL3_uc003qro.2_Missense_Mutation_p.P277L|SYTL3_uc003qrq.2_Missense_Mutation_p.P277L|SYTL3_uc003qrr.2_Missense_Mutation_p.P345L|SYTL3_uc003qrs.2_Missense_Mutation_p.P277L|SYTL3_uc011efq.1_Missense_Mutation_p.P71L	NM_001009991	NP_001009991	Q4VX76	SYTL3_HUMAN	synaptotagmin-like 3	345	C2 1.				intracellular protein transport	endomembrane system|membrane	Rab GTPase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.54e-17)|BRCA - Breast invasive adenocarcinoma(81;8.24e-06)		AAGTGCAATCCGTAAGTTGTT	0.214													9	33	---	---	---	---	PASS	T	159166690	T	T	159166690	3	4	177	1	0	0	0	0	1	0	0	0	15481	666	23	1	856	1	SYTL3	6	159166690	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	6689596	159166690	11948377	227	62687										
PHF10	55274	broad.mit.edu	37	chr6	170112605	170112605	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcatacagggctgtgtttaaTggcagataccgcagctcatc	10	10	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr6:170112605T>A	uc011egy.1	-	8	913	c.834A>T	c.(832-834)CCA>CCT	p.P278P	PHF10_uc011egz.1_Silent_p.P276P|PHF10_uc011eha.1_Silent_p.P129P	NM_018288	NP_060758	Q8WUB8	PHF10_HUMAN	PHD finger protein 10 isoform a	278	SAY.				nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	npBAF complex	zinc ion binding			urinary_tract(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.4e-21)|BRCA - Breast invasive adenocarcinoma(81;1.4e-07)|GBM - Glioblastoma multiforme(31;0.00176)		CTGTGTTTAATGGCAGATACC	0.443													27	64	---	---	---	---	PASS	A	170112605	A	A	170112605	2	1	177	1	0	0	0	0	0	0	0	1	11821	1451	51	5		5	PHF10	6	170112605	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	10945915	170112605	1002462	228	62688										
COX19	90639	broad.mit.edu	37	chr7	1009036	1009036	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atttttttgcctctgattttCcactagtcaagtctccaaat	4	10	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:1009036C>G	uc003sjp.1	-	3	341	c.251G>C	c.(250-252)GGA>GCA	p.G84A	ADAP1_uc010ksc.2_Intron	NM_001031617	NP_001026788	Q49B96	COX19_HUMAN	COX19 cytochrome c oxidase assembly homolog	84						cytosol					0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;2.15e-15)		CTCTGATTTTCCACTAGTCAA	0.468													73	270	---	---	---	---	PASS	G	1009036	G	G	1009036	3	3	177	1	0	0	0	0	1	0	0	0	3768	855	30	2	25	2	COX19	7	1009036	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08		1009036	158129627	229	62689										
SNX8	29886	broad.mit.edu	37	chr7	2296508	2296508	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gccggagcagggcggactcaCctccttgtgcccttggatct	13	14	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:2296508C>T	uc003slw.2	-	10	1327	c.1284_splice	c.e10+1	p.E428_splice		NM_013321	NP_037453	Q9Y5X2	SNX8_HUMAN	sorting nexin 8						cell communication|early endosome to Golgi transport|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding			large_intestine(1)|ovary(1)	2		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0853)|OV - Ovarian serous cystadenocarcinoma(56;3.79e-14)		GGCGGACTCACCTCCTTGTGC	0.672													4	21	---	---	---	---	PASS	T	2296508	T	T	2296508	5	4	177	1	0	0	0	0	0	0	1	0	14908	521	18	3	120	3	SNX8	7	2296508	Splice_Site	SNP	C	TCGA-85-6560-01A-11D-1817-08	1287472	2296508	156842155	230	62690										
PAPOLB	56903	broad.mit.edu	37	chr7	4901033	4901033	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttcctcctgtagtttcagttTagcatagaatgaggtgaaaa	9	6	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:4901033T>C	uc003snk.2	-	1	593	c.409A>G	c.(409-411)AAA>GAA	p.K137E	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	136					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		AGTTTCAGTTTAGCATAGAAT	0.418													8	23	---	---	---	---	PASS	C	4901033	C	C	4901033	3	2	177	1	0	0	0	0	1	0	0	0	11430	1763	61	5	1508	5	PAPOLB	7	4901033	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	2604525	4901033	154237630	231	62691										
TNRC18	84629	broad.mit.edu	37	chr7	5348574	5348574	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gctgcggctggacttctggtCccagtgctgtgtgggggaga	18	9	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:5348574C>T	uc003soi.3	-	29	8981	c.8632G>A	c.(8632-8634)GAC>AAC	p.D2878N		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2878	BAH.						DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GACTTCTGGTCCCAGTGCTGT	0.627													7	15	---	---	---	---	PASS	T	5348574	T	T	5348574	3	4	177	1	0	0	0	0	1	0	0	0	16336	855	30	2	282	2	TNRC18	7	5348574	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	447541	5348574	153790089	232	62692										
EIF2AK1	27102	broad.mit.edu	37	chr7	6089541	6089541	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aagtatattttttagggcttAcctgacgaactctctcttta	6	8	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:6089541A>T	uc003spp.2	-	3	557	c.411_splice	c.e3+1	p.Q137_splice	EIF2AK1_uc003spq.2_Splice_Site_p.Q137_splice|EIF2AK1_uc011jwm.1_Intron	NM_014413	NP_055228	Q9BQI3	E2AK1_HUMAN	eukaryotic translation initiation factor 2-alpha						negative regulation of hemoglobin biosynthetic process|negative regulation of translational initiation by iron|protein autophosphorylation|response to external stimulus|response to stress	cytoplasm	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|heme binding|protein homodimerization activity			upper_aerodigestive_tract(1)|stomach(1)|lung(1)|central_nervous_system(1)	4		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.106)|OV - Ovarian serous cystadenocarcinoma(56;5.22e-14)		TTTAGGGCTTACCTGACGAAC	0.299													16	63	---	---	---	---	PASS	T	6089541	T	T	6089541	5	4	177	1	0	0	0	0	0	0	1	0	4996	405	14	5	1531	5	EIF2AK1	7	6089541	Splice_Site	SNP	A	TCGA-85-6560-01A-11D-1817-08	740967	6089541	153049122	233	62693										
CPVL	54504	broad.mit.edu	37	chr7	29160628	29160628	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	acagcccatcacaggggccaGgcatcaacaggaccagcgaa	11	14	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:29160628G>T	uc003szv.2	-	2	169	c.50C>A	c.(49-51)CCT>CAT	p.P17H	CPVL_uc003szw.2_Missense_Mutation_p.P17H|CPVL_uc003szx.2_Missense_Mutation_p.P17H	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	17					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						ACAGGGGCCAGGCATCAACAG	0.468													3	29	---	---	---	---	PASS	T	29160628	T	T	29160628	3	4	177	1	0	0	0	0	1	0	0	0	3835	1000	35	3	1428	3	CPVL	7	29160628	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	23071087	29160628	129978035	234	62694										
HECW1	23072	broad.mit.edu	37	chr7	43506060	43506060	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tttcagatctaaggagagaaGggtcactttctccagtgaac	10	8	4	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:43506060G>A	uc003tid.1	+	15	3411	c.2806G>A	c.(2806-2808)GGG>AGG	p.G936R	HECW1_uc011kbi.1_Missense_Mutation_p.G902R	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	936					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						AAGGAGAGAAGGGTCACTTTC	0.473													18	57	---	---	---	---	PASS	A	43506060	A	A	43506060	3	1	177	1	0	0	0	0	1	0	0	0	7042	1000	35	3	2856	3	HECW1	7	43506060	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	14345432	43506060	115632603	235	62695										
HECW1	23072	broad.mit.edu	37	chr7	43547726	43547726	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	acgtcacctttgttggagagGaggggtgaggcaccaggagt	17	7	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:43547726G>T	uc003tid.1	+	23	4467	c.3862G>T	c.(3862-3864)GAG>TAG	p.E1288*	HECW1_uc011kbi.1_Nonsense_Mutation_p.E1254*	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1288	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						TGTTGGAGAGGAGGGGTGAGG	0.537													15	34	---	---	---	---	PASS	T	43547726	T	T	43547726	4	4	177	1	0	0	0	0	0	1	0	0	7042	1175	41	2	3944	2	HECW1	7	43547726	Nonsense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	41666	43547726	115590937	236	62696										
ABCA13	154664	broad.mit.edu	37	chr7	48314310	48314310	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	accttttagtggatcagcttGaacaagttagtgtaaaccta	8	7	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:48314310G>T	uc003toq.2	+	17	5072	c.5047G>T	c.(5047-5049)GAA>TAA	p.E1683*	ABCA13_uc010kyr.2_Nonsense_Mutation_p.E1186*	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1683					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GGATCAGCTTGAACAAGTTAG	0.378													29	111	---	---	---	---	PASS	T	48314310	T	T	48314310	4	4	177	1	0	0	0	0	0	1	0	0	31	1291	45	2	4942	2	ABCA13	7	48314310	Nonsense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4766584	48314310	110824353	237	62697										
PCLO	27445	broad.mit.edu	37	chr7	82583933	82583933	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gaatctgtaagagacgctccTgagagaacacttgatgtcaa	10	8	2	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:82583933T>A	uc003uhx.2	-	5	6625	c.6336A>T	c.(6334-6336)TCA>TCT	p.S2112S	PCLO_uc003uhv.2_Silent_p.S2112S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2043					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GAGACGCTCCTGAGAGAACAC	0.453													14	43	---	---	---	---	PASS	A	82583933	A	A	82583933	2	1	177	1	0	0	0	0	0	0	0	1	11583	1567	55	5		5	PCLO	7	82583933	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	34269623	82583933	76554730	238	62698										
ZNF804B	219578	broad.mit.edu	37	chr7	88964849	88964849	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aattgccagggaactcagcaCgacagattggactcttactc	9	11	2	1	rs10251768		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:88964849C>A	uc011khi.1	+	4	3091	c.2553C>A	c.(2551-2553)CAC>CAA	p.H851Q		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	851						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GAACTCAGCACGACAGATTGG	0.398										HNSCC(36;0.09)			12	42	---	---	---	---	PASS	A	88964849	A	A	88964849	3	1	177	1	0	0	0	0	1	0	0	0	18168	535	19	1	2567	1	ZNF804B	7	88964849	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	6380916	88964849	70173814	239	62699										
ZAN	7455	broad.mit.edu	37	chr7	100349951	100349951	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccagaaaaacccaccaccccCacagaaaaacccaccatccc	2	21	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:100349951C>A	uc003uwj.2	+	14	2388	c.2223C>A	c.(2221-2223)CCC>CCA	p.P741P	ZAN_uc003uwk.2_Silent_p.P741P|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	741	66 X heptapeptide repeats (approximate) (mucin-like domain).|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CCACCACCCCCACAGAAAAAC	0.517													15	13	---	---	---	---	PASS	A	100349951	A	A	100349951	2	1	177	1	0	0	0	0	0	0	0	1	17510	581	21	3		3	ZAN	7	100349951	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	11385102	100349951	58788712	240	62700										
MUC17	140453	broad.mit.edu	37	chr7	100678368	100678368	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aagcactccattaacaagtaTgcctgtcagacacacgccag	7	13	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:100678368T>C	uc003uxp.1	+	3	3724	c.3671T>C	c.(3670-3672)ATG>ACG	p.M1224T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1224	Extracellular (Potential).|Ser-rich.|18.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TTAACAAGTATGCCTGTCAGA	0.522													91	334	---	---	---	---	PASS	C	100678368	C	C	100678368	3	2	177	1	0	0	0	0	1	0	0	0	9974	1464	51	5	3681	5	MUC17	7	100678368	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	328417	100678368	58460295	241	62701										
FBXL13	222235	broad.mit.edu	37	chr7	102669193	102669193	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tacgagctatgtctctccaaGtgctgcaggcagaagacatt	10	10	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:102669193G>C	uc003vaq.2	-	4	498	c.71C>G	c.(70-72)ACT>AGT	p.T24S	FBXL13_uc010lir.1_Missense_Mutation_p.T24S|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Missense_Mutation_p.T24S|FBXL13_uc003vav.2_Intron	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	24											0						GTCTCTCCAAGTGCTGCAGGC	0.313													14	23	---	---	---	---	PASS	C	102669193	C	C	102669193	3	2	177	1	0	0	0	0	1	0	0	0	5709	1029	36	4	2204	4	FBXL13	7	102669193	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1990825	102669193	56469470	242	62702										
RELN	5649	broad.mit.edu	37	chr7	103252103	103252103	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccgtggttggttgagtactcCagcttcacctggttgtccat	11	11	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:103252103C>T	uc003vca.2	-	21	3010	c.2850G>A	c.(2848-2850)CTG>CTA	p.L950L	RELN_uc010liz.2_Silent_p.L950L	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	950					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TTGAGTACTCCAGCTTCACCT	0.468													8	33	---	---	---	---	PASS	T	103252103	T	T	103252103	2	4	177	1	0	0	0	0	0	0	0	1	13220	581	21	3		3	RELN	7	103252103	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	582910	103252103	55886560	243	62703										
SLC26A4	5172	broad.mit.edu	37	chr7	107329636	107329636	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aagtatgattacaccatcgaTgggaaccaggtatgggtgcc	12	8	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:107329636T>C	uc003vep.2	+	9	1364	c.1140T>C	c.(1138-1140)GAT>GAC	p.D380D	SLC26A4_uc011kmb.1_5'Flank|SLC26A4_uc011kmc.1_5'Flank	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	380	Cytoplasmic (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						ACACCATCGATGGGAACCAGG	0.438									Pendred_syndrome				41	99	---	---	---	---	PASS	C	107329636	C	C	107329636	2	2	177	1	0	0	0	0	0	0	0	1	14519	1461	51	5		5	SLC26A4	7	107329636	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	4077533	107329636	51809027	244	62704										
LRRN3	54674	broad.mit.edu	37	chr7	110763776	110763776	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gatttaagaaaaatagaagcTactaacaaccctagattgtc	6	7	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:110763776T>C	uc003vft.3	+	4	1994	c.948T>C	c.(946-948)GCT>GCC	p.A316A	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Silent_p.A316A|LRRN3_uc003vfs.3_Silent_p.A316A	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	316	Extracellular (Potential).|LRR 11.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		AAATAGAAGCTACTAACAACC	0.418													20	70	---	---	---	---	PASS	C	110763776	C	C	110763776	2	2	177	1	0	0	0	0	0	0	0	1	9036	1509	53	5		5	LRRN3	7	110763776	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	3434140	110763776	48374887	245	62705										
OR2A12	346525	broad.mit.edu	37	chr7	143792811	143792811	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cctatttgcgggttctgcgtTcatcttagtggggccgctct	12	11	4	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:143792811T>A	uc011kty.1	+	1	611	c.611T>A	c.(610-612)TTC>TAC	p.F204Y		NM_001004135	NP_001004135	Q8NGT7	O2A12_HUMAN	olfactory receptor, family 2, subfamily A,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	Melanoma(164;0.0783)					GGTTCTGCGTTCATCTTAGTG	0.532													37	128	---	---	---	---	PASS	A	143792811	A	A	143792811	3	1	177	1	0	0	0	0	1	0	0	0	10975	1783	62	5	613	5	OR2A12	7	143792811	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	33029035	143792811	15345852	246	62706										
CNTNAP2	26047	broad.mit.edu	37	chr7	147815244	147815244	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gccgcctctttcccaaacccAtcctcctacctgcacttctc	3	21	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:147815244A>T	uc003weu.1	+	16	2934	c.2418A>T	c.(2416-2418)CCA>CCT	p.P806P		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	806	Laminin G-like 3.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TCCCAAACCCATCCTCCTACC	0.428										HNSCC(39;0.1)			36	131	---	---	---	---	PASS	T	147815244	T	T	147815244	2	4	177	1	0	0	0	0	0	0	0	1	3647	204	8	5		5	CNTNAP2	7	147815244	Silent	SNP	A	TCGA-85-6560-01A-11D-1817-08	4022433	147815244	11323419	247	62707										
GIMAP5	55340	broad.mit.edu	37	chr7	150440023	150440023	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agctgagggagaacgagagtAactgggcatacaaggcgctc	15	8	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:150440023A>T	uc003whr.1	+	3	1148	c.796A>T	c.(796-798)AAC>TAC	p.N266Y	GIMAP5_uc010lpu.2_Missense_Mutation_p.N124Y	NM_018384	NP_060854	Q96F15	GIMA5_HUMAN	GTPase, IMAP family member 5	266	Cytoplasmic (Potential).					integral to membrane|mitochondrial outer membrane	GTP binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GAACGAGAGTAACTGGGCATA	0.463													18	38	---	---	---	---	PASS	T	150440023	T	T	150440023	3	4	177	1	0	0	0	0	1	0	0	0	6382	362	13	5	802	5	GIMAP5	7	150440023	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	2624779	150440023	8698640	248	62708										
DPP6	1804	broad.mit.edu	37	chr7	154561157	154561157	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gaagacacacatcgcacactGgtggtctccggatggcacga	12	12	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr7:154561157G>T	uc003wlk.2	+	9	1043	c.914G>T	c.(913-915)TGG>TTG	p.W305L	DPP6_uc003wli.2_Missense_Mutation_p.W241L|DPP6_uc003wlm.2_Missense_Mutation_p.W243L|DPP6_uc011kvq.1_Missense_Mutation_p.W198L	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	305	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			ATCGCACACTGGTGGTCTCCG	0.522													9	48	---	---	---	---	PASS	T	154561157	T	T	154561157	3	4	177	1	0	0	0	0	1	0	0	0	4730	1357	47	3	1064	3	DPP6	7	154561157	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4121134	154561157	4577506	249	62709										
ERICH1	157697	broad.mit.edu	37	chr8	614632	614632	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gctcttctcaggaaggatatGtgtgatccagtaactaaaga	10	7	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:614632G>T	uc003wph.2	-	6	1368	c.1303C>A	c.(1303-1305)CAT>AAT	p.H435N	ERICH1_uc011kwh.1_Intron|ERICH1_uc003wpe.1_Intron	NM_207332	NP_997215	Q86X53	ERIC1_HUMAN	glutamate-rich 1	435										large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		GGAAGGATATGTGTGATCCAG	0.289													55	51	---	---	---	---	PASS	T	614632	T	T	614632	3	4	177	1	0	0	0	0	1	0	0	0	5230	1377	48	3	32	3	ERICH1	8	614632	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08		614632	145749390	250	62710										
CSMD1	64478	broad.mit.edu	37	chr8	2887023	2887023	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agagctgagcttcaatgctgGggcaagcgaccgctggaagg	16	9	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:2887023G>T	uc011kwk.1	-	51	8066	c.7676C>A	c.(7675-7677)CCC>CAC	p.P2559H	CSMD1_uc011kwj.1_Missense_Mutation_p.P1888H|CSMD1_uc010lrg.2_Missense_Mutation_p.P627H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2559	Extracellular (Potential).|Sushi 16.					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)		TTCAATGCTGGGGCAAGCGAC	0.478													3	6	---	---	---	---	PASS	T	2887023	T	T	2887023	3	4	177	1	0	0	0	0	1	0	0	0	3944	1232	43	3	3101	3	CSMD1	8	2887023	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2272391	2887023	143476999	251	62711										
SLC39A14	23516	broad.mit.edu	37	chr8	22262248	22262248	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agctgctgctgctgcacccgGccttccagagctgcctcctg	11	17	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:22262248G>T	uc003xbq.3	+	2	200	c.25G>T	c.(25-27)GCC>TCC	p.A9S	SLC39A14_uc011kzg.1_Missense_Mutation_p.A9S|SLC39A14_uc003xbp.3_Missense_Mutation_p.A9S|SLC39A14_uc011kzh.1_Missense_Mutation_p.A9S	NM_001128431	NP_001121903	Q15043	S39AE_HUMAN	solute carrier family 39 (zinc transporter),	9						endoplasmic reticulum|Golgi apparatus|integral to membrane|lamellipodium|plasma membrane	zinc ion transmembrane transporter activity				0				Colorectal(74;0.019)|COAD - Colon adenocarcinoma(73;0.0731)		GCTGCACCCGGCCTTCCAGAG	0.602													78	63	---	---	---	---	PASS	T	22262248	T	T	22262248	3	4	177	1	0	0	0	0	1	0	0	0	14617	1203	42	3	27	3	SLC39A14	8	22262248	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	19375225	22262248	124101774	252	62712										
UNC5D	137970	broad.mit.edu	37	chr8	35606178	35606178	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gttctgagcattggaatatcCatttaaagaagaggacacag	10	6	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:35606178C>G	uc003xjr.1	+	12	2228	c.1900C>G	c.(1900-1902)CAT>GAT	p.H634D	UNC5D_uc003xjs.1_Missense_Mutation_p.H629D|UNC5D_uc003xju.1_Missense_Mutation_p.H210D	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	634	ZU5.|Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		TTGGAATATCCATTTAAAGAA	0.463													53	86	---	---	---	---	PASS	G	35606178	G	G	35606178	3	3	177	1	0	0	0	0	1	0	0	0	16992	594	21	4	1946	4	UNC5D	8	35606178	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	13343930	35606178	110757844	253	62713										
WHSC1L1	54904	broad.mit.edu	37	chr8	38157060	38157060	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcagtaggtagtgggacttaTaggcatatgaactgaacatg	12	5	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:38157060T>C	uc003xli.2	-	15	3178	c.2660A>G	c.(2659-2661)TAT>TGT	p.Y887C	WHSC1L1_uc011lbm.1_Missense_Mutation_p.Y887C|WHSC1L1_uc010lwe.2_Intron	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	887	PHD-type 3.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			GTGGGACTTATAGGCATATGA	0.403			T	NUP98	AML								247	51	---	---	---	---	PASS	C	38157060	C	C	38157060	3	2	177	1	0	0	0	0	1	0	0	0	17360	1406	49	5	1693	5	WHSC1L1	8	38157060	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	2550882	38157060	108206962	254	62714										
ANK1	286	broad.mit.edu	37	chr8	41753903	41753903	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cggtcacgggagcggtttctCcgcttcctgttggattcctc	12	13	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:41753903C>G	uc003xom.2	-	1	378	c.96G>C	c.(94-96)CGG>CGC	p.R32R		NM_001142446	NP_001135918	P16157	ANK1_HUMAN	ankyrin 1 isoform 9	Error:Variant_position_missing_in_P16157_after_alignment					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			AGCGGTTTCTCCGCTTCCTGT	0.612													20	74	---	---	---	---	PASS	G	41753903	G	G	41753903	2	3	177	1	0	0	0	0	0	0	0	1	620	842	30	2		2	ANK1	8	41753903	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	3596843	41753903	104610119	255	62715										
MYST3	7994	broad.mit.edu	37	chr8	41792162	41792162	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccagctttaggaatggaaacGatgggctcaatgacgcatgc	12	9	1	1	rs61753682		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:41792162G>A	uc010lxb.2	-	18	4120	c.3576C>T	c.(3574-3576)ATC>ATT	p.I1192I	MYST3_uc010lxc.2_Silent_p.I1192I|MYST3_uc003xon.3_Silent_p.I1192I	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1192					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			GAATGGAAACGATGGGCTCAA	0.428													216	138	---	---	---	---	PASS	A	41792162	A	A	41792162	2	1	177	1	0	0	0	0	0	0	0	1	10104	1048	37	2		2	MYST3	8	41792162	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	38259	41792162	104571860	256	62716										
TGS1	96764	broad.mit.edu	37	chr8	56698931	56698931	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttggcttcagatgatccatcTtcaattgaacagtatgagaa	8	7	3	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:56698931T>C	uc003xsj.3	+	4	861	c.474T>C	c.(472-474)TCT>TCC	p.S158S	TGS1_uc010lyh.2_Silent_p.S62S	NM_024831	NP_079107	Q96RS0	TGS1_HUMAN	trimethylguanosine synthase homolog	158					cellular lipid metabolic process|ncRNA metabolic process|regulation of transcription, DNA-dependent|RNA capping|spliceosomal snRNP assembly|transcription, DNA-dependent	Cajal body|cytosol	RNA trimethylguanosine synthase activity			ovary(1)|lung(1)|breast(1)	3		all_lung(136;0.119)|all_epithelial(80;0.125)|Lung NSC(129;0.147)	Epithelial(17;0.00027)|all cancers(17;0.00251)			ATGATCCATCTTCAATTGAAC	0.328													15	49	---	---	---	---	PASS	C	56698931	C	C	56698931	2	2	177	1	0	0	0	0	0	0	0	1	15834	1596	56	5		5	TGS1	8	56698931	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	14906769	56698931	89665091	257	62717										
TRIM55	84675	broad.mit.edu	37	chr8	67047317	67047317	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctgcgaagtacccacctgctCtctgtgcaaggtgtttggtg	12	11	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:67047317C>A	uc003xvv.2	+	3	660	c.434C>A	c.(433-435)TCT>TAT	p.S145Y	TRIM55_uc003xvu.2_Missense_Mutation_p.S145Y|TRIM55_uc003xvw.2_Missense_Mutation_p.S145Y|TRIM55_uc003xvx.2_Missense_Mutation_p.S145Y	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	145	B box-type.					cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			CCCACCTGCTCTCTGTGCAAG	0.557													31	125	---	---	---	---	PASS	A	67047317	A	A	67047317	3	1	177	1	0	0	0	0	1	0	0	0	16526	913	32	2	444	2	TRIM55	8	67047317	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	10348386	67047317	79316705	258	62718										
C8orf45	157777	broad.mit.edu	37	chr8	67809057	67809057	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	accttgtggaggcatttggtTtattgattaactgcaacgag	11	6	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:67809057T>G	uc003xwz.3	+	12	1660	c.1489T>G	c.(1489-1491)TTA>GTA	p.L497V	C8orf45_uc011lev.1_Missense_Mutation_p.L497V|C8orf45_uc011lew.1_Missense_Mutation_p.L428V|C8orf45_uc011lex.1_Missense_Mutation_p.L255V|C8orf45_uc003xwy.3_Missense_Mutation_p.L497V	NM_173518	NP_775789	Q4G0Z9	CH045_HUMAN	minichromosome maintenance complex	497					DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GGCATTTGGTTTATTGATTAA	0.398													8	288	---	---	---	---	PASS	G	67809057	G	G	67809057	3	3	177	1	0	0	0	0	1	0	0	0	2430	1838	64	5	1531	5	C8orf45	8	67809057	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	761740	67809057	78554965	259	62719										
ZFHX4	79776	broad.mit.edu	37	chr8	77767580	77767580	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgagacttcatcgattaataCggcaatcagtgacgccacca	8	11	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:77767580C>A	uc003yav.2	+	10	8675	c.8288C>A	c.(8287-8289)ACG>AAG	p.T2763K	ZFHX4_uc003yau.1_Missense_Mutation_p.T2808K|ZFHX4_uc003yaw.1_Missense_Mutation_p.T2763K	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2763						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCGATTAATACGGCAATCAGT	0.473										HNSCC(33;0.089)			21	54	---	---	---	---	PASS	A	77767580	A	A	77767580	3	1	177	1	0	0	0	0	1	0	0	0	17632	536	19	1	8457	1	ZFHX4	8	77767580	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	9958523	77767580	68596442	260	62720										
WWP1	11059	broad.mit.edu	37	chr8	87423845	87423845	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agtagtgtctgaagaaaatgCcttgtctccaaattgcacta	8	8	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:87423845C>T	uc003ydt.2	+	9	1083	c.803C>T	c.(802-804)GCC>GTC	p.A268V	WWP1_uc010mai.2_Missense_Mutation_p.A44V	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	268					central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						GAAGAAAATGCCTTGTCTCCA	0.393													11	96	---	---	---	---	PASS	T	87423845	T	T	87423845	3	4	177	1	0	0	0	0	1	0	0	0	17412	739	26	3	829	3	WWP1	8	87423845	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	9656265	87423845	58940177	261	62721										
RAD54B	25788	broad.mit.edu	37	chr8	95416346	95416346	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	taaaggaatatgattccttcTttctgatgtggtcgaagatg	10	5	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:95416346T>C	uc003ygk.2	-	6	1001	c.903A>G	c.(901-903)AAA>AAG	p.K301K	RAD54B_uc010may.1_Silent_p.K108K|RAD54B_uc003ygl.1_RNA	NM_012415	NP_036547	O95073	FSBP_HUMAN	RAD54 homolog B	Error:Variant_position_missing_in_O95073_after_alignment					double-strand break repair via homologous recombination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA translocase activity|protein binding			kidney(2)|lung(1)|skin(1)	4	Breast(36;4.5e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00217)			TGATTCCTTCTTTCTGATGTG	0.333								Direct_reversal_of_damage|Homologous_recombination					23	22	---	---	---	---	PASS	C	95416346	C	C	95416346	2	2	177	1	0	0	0	0	0	0	0	1	12992	1606	56	5		5	RAD54B	8	95416346	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	7992501	95416346	50947676	262	62722										
MATN2	4147	broad.mit.edu	37	chr8	98973703	98973703	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtgaatgtgccgggctccttCgtctgccagtgctacagtgg	14	11	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:98973703C>G	uc003yic.2	+	5	1134	c.903C>G	c.(901-903)TTC>TTG	p.F301L	MATN2_uc003yib.1_Missense_Mutation_p.F301L|MATN2_uc010mbh.1_Missense_Mutation_p.F301L|MATN2_uc003yid.2_Missense_Mutation_p.F301L|MATN2_uc003yie.1_Missense_Mutation_p.F301L|MATN2_uc010mbi.1_Intron	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	301	EGF-like 2.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			CGGGCTCCTTCGTCTGCCAGT	0.557													23	99	---	---	---	---	PASS	G	98973703	G	G	98973703	3	3	177	1	0	0	0	0	1	0	0	0	9334	883	31	2	917	2	MATN2	8	98973703	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	3557357	98973703	47390319	263	62723										
POP1	10940	broad.mit.edu	37	chr8	99168342	99168342	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggcacctttctgctgtcccTgggagcagttaactcaagac	10	12	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:99168342T>A	uc003yij.3	+	15	2222	c.2122T>A	c.(2122-2124)TGG>AGG	p.W708R	POP1_uc011lgv.1_Missense_Mutation_p.W708R|POP1_uc003yik.2_Missense_Mutation_p.W708R	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	708					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			CTGCTGTCCCTGGGAGCAGTT	0.478													33	125	---	---	---	---	PASS	A	99168342	A	A	99168342	3	1	177	1	0	0	0	0	1	0	0	0	12251	1580	55	5	2176	5	POP1	8	99168342	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	194639	99168342	47195680	264	62724										
VPS13B	157680	broad.mit.edu	37	chr8	100654301	100654301	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctcactaatgacctattcctGtatggccttatccaaatcga	5	12	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:100654301G>T	uc003yiv.2	+	34	5669	c.5558G>T	c.(5557-5559)TGT>TTT	p.C1853F	VPS13B_uc003yiw.2_Missense_Mutation_p.C1828F	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1853					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			ACCTATTCCTGTATGGCCTTA	0.353													21	55	---	---	---	---	PASS	T	100654301	T	T	100654301	3	4	177	1	0	0	0	0	1	0	0	0	17187	1377	48	3	5882	3	VPS13B	8	100654301	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1485959	100654301	45709721	265	62725										
ODF1	4956	broad.mit.edu	37	chr8	103564205	103564205	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	attataagctttactgtctgCgaccatctctcagaagtttg	7	9	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:103564205C>T	uc003ykt.2	+	1	358	c.250C>T	c.(250-252)CGA>TGA	p.R84*		NM_024410	NP_077721	Q14990	ODFP1_HUMAN	outer dense fiber of sperm tails 1	84					cell differentiation|multicellular organismal development|spermatogenesis	outer dense fiber	structural molecule activity			ovary(2)	2	all_cancers(14;2.76e-05)|all_epithelial(15;4.54e-08)|Lung NSC(17;4.08e-05)|all_lung(17;9.15e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000125)|STAD - Stomach adenocarcinoma(118;0.0826)			TTACTGTCTGCGACCATCTCT	0.428													17	135	---	---	---	---	PASS	T	103564205	T	T	103564205	4	4	177	1	0	0	0	0	0	1	0	0	10826	760	27	1	252	1	ODF1	8	103564205	Nonsense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2909904	103564205	42799817	266	62726										
TM7SF4	81501	broad.mit.edu	37	chr8	105361137	105361137	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aatatttttcacaactttaaAggtctcctagatggtatgac	6	7	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:105361137A>G	uc003ylx.1	+	2	406	c.357A>G	c.(355-357)AAA>AAG	p.K119K		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	119					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			ACAACTTTAAAGGTCTCCTAG	0.408													29	50	---	---	---	---	PASS	G	105361137	G	G	105361137	2	3	177	1	0	0	0	0	0	0	0	1	15973	69	3	5		5	TM7SF4	8	105361137	Silent	SNP	A	TCGA-85-6560-01A-11D-1817-08	1796932	105361137	41002885	267	62727										
PKHD1L1	93035	broad.mit.edu	37	chr8	110488812	110488812	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atattattgatatgaggaatGgttcctcaaatccattgaat	7	5	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:110488812G>T	uc003yne.2	+	52	8937	c.8833G>T	c.(8833-8835)GGT>TGT	p.G2945C		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2945	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TATGAGGAATGGTTCCTCAAA	0.333										HNSCC(38;0.096)			3	21	---	---	---	---	PASS	T	110488812	T	T	110488812	3	4	177	1	0	0	0	0	1	0	0	0	11972	1348	47	3	9039	3	PKHD1L1	8	110488812	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	5127675	110488812	35875210	268	62728										
SNTB1	6641	broad.mit.edu	37	chr8	121644760	121644760	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tccccagctgctctctgaccTcagcaatcactcgggtcagc	8	17	4	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:121644760T>A	uc010mdg.2	-	3	1146	c.920A>T	c.(919-921)GAG>GTG	p.E307V	SNTB1_uc003ype.2_Missense_Mutation_p.E307V	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	307					muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			CTCTCTGACCTCAGCAATCAC	0.532													25	36	---	---	---	---	PASS	A	121644760	A	A	121644760	3	1	177	1	0	0	0	0	1	0	0	0	14872	1551	54	5	716	5	SNTB1	8	121644760	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	11155948	121644760	24719262	269	62729										
ST3GAL1	6482	broad.mit.edu	37	chr8	134472094	134472094	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tctgcatcgtgcacccccgtCttgcgaaaagcccccgcgga	10	17	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:134472094C>A	uc003yuk.2	-	10	1765	c.936G>T	c.(934-936)AAG>AAT	p.K312N	ST3GAL1_uc003yum.2_Missense_Mutation_p.K312N	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	312	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			GCACCCCCGTCTTGCGAAAAG	0.572													64	137	---	---	---	---	PASS	A	134472094	A	A	134472094	3	1	177	1	0	0	0	0	1	0	0	0	15213	912	32	2	90	2	ST3GAL1	8	134472094	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	12827334	134472094	11891928	270	62730										
FAM135B	51059	broad.mit.edu	37	chr8	139164107	139164107	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	acctttggtttcaacacctgGagtgttctcagtcctgccat	8	12	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:139164107G>A	uc003yuy.2	-	13	2782	c.2611C>T	c.(2611-2613)CCA>TCA	p.P871S	FAM135B_uc003yux.2_Missense_Mutation_p.P772S|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.P433S|FAM135B_uc003yvb.2_Missense_Mutation_p.P433S	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	871										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)			TCAACACCTGGAGTGTTCTCA	0.488										HNSCC(54;0.14)			58	87	---	---	---	---	PASS	A	139164107	A	A	139164107	3	1	177	1	0	0	0	0	1	0	0	0	5449	1174	41	2	1641	2	FAM135B	8	139164107	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4692013	139164107	7199915	271	62731										
RHPN1	114822	broad.mit.edu	37	chr8	144461552	144461552	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gacatgagcgctgcgtccctCtgcgcactggagcagctcat	12	14	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:144461552C>T	uc003yyb.2	+	8	952	c.819C>T	c.(817-819)CTC>CTT	p.L273L		NM_052924	NP_443156	Q8TCX5	RHPN1_HUMAN	rhophilin 1	273	BRO1.				signal transduction	intracellular				large_intestine(1)	1	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.156)			CTGCGTCCCTCTGCGCACTGG	0.667													3	12	---	---	---	---	PASS	T	144461552	T	T	144461552	2	4	177	1	0	0	0	0	0	0	0	1	13350	900	32	2		2	RHPN1	8	144461552	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	5297445	144461552	1902470	272	62732										
GPT	2875	broad.mit.edu	37	chr8	145732168	145732168	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgcgcctcctggaggagaccGgcatctgcgtggtgccaggg	17	12	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr8:145732168G>A	uc011lli.1	+	11	1499	c.1342G>A	c.(1342-1344)GGC>AGC	p.G448S	GPT_uc003zdh.3_Missense_Mutation_p.G448S|MFSD3_uc003zdi.1_5'Flank	NM_005309	NP_005300	P24298	ALAT1_HUMAN	glutamic pyruvate transaminase	448					gluconeogenesis	cytosol	1-aminocyclopropane-1-carboxylate synthase activity|L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|central_nervous_system(1)	2	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-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;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)		L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GGAGGAGACCGGCATCTGCGT	0.701													13	35	---	---	---	---	PASS	A	145732168	A	A	145732168	3	1	177	1	0	0	0	0	1	0	0	0	6737	1116	39	1	1380	1	GPT	8	145732168	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1270616	145732168	631854	273	62733										
ADAMTSL1	92949	broad.mit.edu	37	chr9	18504834	18504834	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttgtttctcacagagttccaGgaccgcacgctccgaggagg	12	12	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:18504834G>T	uc003zne.3	+	2	198	c.71G>T	c.(70-72)AGG>ATG	p.R24M	ADAMTSL1_uc003znb.2_Missense_Mutation_p.R24M|ADAMTSL1_uc003znc.3_Missense_Mutation_p.R24M	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	24						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		CAGAGTTCCAGGACCGCACGC	0.567													50	59	---	---	---	---	PASS	T	18504834	T	T	18504834	3	4	177	1	0	0	0	0	1	0	0	0	274	1000	35	3	77	3	ADAMTSL1	9	18504834	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08		18504834	122708597	274	62734										
HAUS6	54801	broad.mit.edu	37	chr9	19089443	19089443	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gatatttttgggtaacacaaTcttgtctttgcaaaatttgt	7	5	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:19089443T>G	uc003znk.2	-	5	804	c.551A>C	c.(550-552)GAT>GCT	p.D184A	HAUS6_uc003znl.1_Missense_Mutation_p.D48A	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	184					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						GGTAACACAATCTTGTCTTTG	0.333													10	36	---	---	---	---	PASS	G	19089443	G	G	19089443	3	3	177	1	0	0	0	0	1	0	0	0	6970	1435	50	5	2368	5	HAUS6	9	19089443	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	584609	19089443	122123988	275	62735										
MOBKL2B	79817	broad.mit.edu	37	chr9	27455301	27455301	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcacaggacaggtccgctcgGtgcagaactcacagatggtg	13	11	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:27455301G>A	uc003zqn.2	-	2	744	c.248C>T	c.(247-249)ACC>ATC	p.T83I		NM_024761	NP_079037	Q86TA1	MOL2B_HUMAN	MOB1, Mps One Binder kinase activator-like 2B	83							metal ion binding|protein binding			ovary(1)|pleura(1)	2		all_neural(11;9.12e-11)		Lung(218;6.54e-05)|LUSC - Lung squamous cell carcinoma(38;0.000397)		GGTCCGCTCGGTGCAGAACTC	0.547													14	55	---	---	---	---	PASS	A	27455301	A	A	27455301	3	1	177	1	0	0	0	0	1	0	0	0	9685	1261	44	3	414	3	MOBKL2B	9	27455301	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	8365858	27455301	113758130	276	62736										
UNC13B	10497	broad.mit.edu	37	chr9	35398283	35398283	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttgaggccatgggaggcaagGaggtaggtcttagggtttgg	19	4	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:35398283G>A	uc003zwq.2	+	30	3875	c.3583G>A	c.(3583-3585)GAG>AAG	p.E1195K	UNC13B_uc003zwr.2_Missense_Mutation_p.E1195K	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	1195	Potential.				excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			GGGAGGCAAGGAGGTAGGTCT	0.507													16	18	---	---	---	---	PASS	A	35398283	A	A	35398283	3	1	177	1	0	0	0	0	1	0	0	0	16982	1175	41	2	3701	2	UNC13B	9	35398283	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	7942982	35398283	105815148	277	62737										
HRCT1	646962	broad.mit.edu	37	chr9	35906398	35906398	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cttttccacggacggcaggaCtgtgacgtggagaggaaccg	15	10	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:35906398C>A	uc003zyr.1	+	1	210	c.114C>A	c.(112-114)GAC>GAA	p.D38E		NM_001039792	NP_001034881	Q6UXD1	HRCT1_HUMAN	histidine rich carboxyl terminus 1	38						integral to membrane					0						GACGGCAGGACTGTGACGTGG	0.602													4	45	---	---	---	---	PASS	A	35906398	A	A	35906398	3	1	177	1	0	0	0	0	1	0	0	0	7353	564	20	3	116	3	HRCT1	9	35906398	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	508115	35906398	105307033	278	62738										
APBA1	320	broad.mit.edu	37	chr9	72131330	72131330	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tctggtcgatgtcctcctccTgctcgtagctgtccatgcgc	10	15	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:72131330T>A	uc004ahh.2	-	2	1073	c.797A>T	c.(796-798)CAG>CTG	p.Q266L		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	266	Munc-18-1 binding.				axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						GTCCTCCTCCTGCTCGTAGCT	0.662													10	14	---	---	---	---	PASS	A	72131330	A	A	72131330	3	1	177	1	0	0	0	0	1	0	0	0	756	1580	55	5	1764	5	APBA1	9	72131330	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	36224932	72131330	69082101	279	62739										
GDA	9615	broad.mit.edu	37	chr9	74860170	74860170	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cccattgacctgttttatggGgacttttttggtgatatttc	9	7	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:74860170G>T	uc004aiq.2	+	12	1425	c.1242G>T	c.(1240-1242)GGG>GGT	p.G414G	GDA_uc011lse.1_Silent_p.G340G|GDA_uc011lsf.1_Silent_p.G340G|GDA_uc004air.2_Silent_p.G414G|GDA_uc010mow.1_RNA|GDA_uc004ais.2_Silent_p.G336G	NM_004293	NP_004284	Q9Y2T3	GUAD_HUMAN	guanine deaminase	414					nervous system development|purine base metabolic process|purine nucleotide catabolic process	cytosol	guanine deaminase activity|zinc ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		TGTTTTATGGGGACTTTTTTG	0.388													52	63	---	---	---	---	PASS	T	74860170	T	T	74860170	2	4	177	1	0	0	0	0	0	0	0	1	6306	1219	43	3		3	GDA	9	74860170	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	2728840	74860170	66353261	280	62740										
RORB	6096	broad.mit.edu	37	chr9	77282715	77282715	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cttcctttataggttctgatGacctagtgaatgaagcattt	8	7	1	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:77282715G>T	uc004aji.2	+	8	1091	c.1042G>T	c.(1042-1044)GAC>TAC	p.D348Y	RORB_uc004ajh.2_Missense_Mutation_p.D337Y	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	348	Ligand-binding (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						AGGTTCTGATGACCTAGTGAA	0.378													52	46	---	---	---	---	PASS	T	77282715	T	T	77282715	3	4	177	1	0	0	0	0	1	0	0	0	13529	1290	45	2	1039	2	RORB	9	77282715	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2422545	77282715	63930716	281	62741										
TRPM6	140803	broad.mit.edu	37	chr9	77416851	77416851	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctcttctgaggcatcatccaCcatgtgactctccttagctt	6	14	4	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:77416851C>A	uc004ajl.1	-	16	2210	c.1972G>T	c.(1972-1974)GTG>TTG	p.V658L	TRPM6_uc004ajk.1_Missense_Mutation_p.V653L|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_Missense_Mutation_p.V36L	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	658	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						GCATCATCCACCATGTGACTC	0.443													31	48	---	---	---	---	PASS	A	77416851	A	A	77416851	3	1	177	1	0	0	0	0	1	0	0	0	16587	507	18	3	4192	3	TRPM6	9	77416851	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	134136	77416851	63796580	282	62742										
TLE1	7088	broad.mit.edu	37	chr9	84231614	84231614	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gcttttgtcaccatcactgtCctggaaaaaagaaacattaa	6	9	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:84231614C>A	uc004aly.2	-	10	1153	c.712G>T	c.(712-714)GAC>TAC	p.D238Y	TLE1_uc004alz.2_Missense_Mutation_p.D248Y|TLE1_uc011lsr.1_Missense_Mutation_p.D238Y|TLE1_uc004ama.1_Missense_Mutation_p.D238Y|TLE1_uc011lss.1_Missense_Mutation_p.D164Y	NM_005077	NP_005068	Q04724	TLE1_HUMAN	transducin-like enhancer protein 1	238	CCN domain.				negative regulation of Wnt receptor signaling pathway|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway		transcription factor binding			ovary(1)|skin(1)	2						CCATCACTGTCCTGGAAAAAA	0.353													4	82	---	---	---	---	PASS	A	84231614	A	A	84231614	3	1	177	1	0	0	0	0	1	0	0	0	15935	869	30	2	1644	2	TLE1	9	84231614	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	6814763	84231614	56981817	283	62743										
GRIN3A	116443	broad.mit.edu	37	chr9	104432353	104432353	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aagtattaccttggggtcatGtattccagaaagctcttcat	8	8	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:104432353G>A	uc004bbp.1	-	3	2942	c.2341C>T	c.(2341-2343)CAT>TAT	p.H781Y	GRIN3A_uc004bbq.1_Missense_Mutation_p.H781Y	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	781	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	TTGGGGTCATGTATTCCAGAA	0.398													13	43	---	---	---	---	PASS	A	104432353	A	A	104432353	3	1	177	1	0	0	0	0	1	0	0	0	6783	1377	48	3	1034	3	GRIN3A	9	104432353	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	20200739	104432353	36781078	284	62744										
ASTN2	23245	broad.mit.edu	37	chr9	119976772	119976772	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctcctcatcctcctcacagtCatagtcatccaggatgggag	8	14	4	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:119976772C>T	uc004bjs.1	-	3	981	c.880G>A	c.(880-882)GAC>AAC	p.D294N	ASTN2_uc004bjr.1_Missense_Mutation_p.D294N|ASTN2_uc004bjt.1_Missense_Mutation_p.D294N	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	294	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TCCTCACAGTCATAGTCATCC	0.622													28	35	---	---	---	---	PASS	T	119976772	T	T	119976772	3	4	177	1	0	0	0	0	1	0	0	0	1065	826	29	2	3298	2	ASTN2	9	119976772	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	15544419	119976772	21236659	285	62745										
SLC25A25	114789	broad.mit.edu	37	chr9	130860954	130860954	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgaagtccattttcaagctcAgtgtcttcatcccctcccag	6	14	4	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:130860954A>C	uc004bte.2	+	1	138	c.109A>C	c.(109-111)AGT>CGT	p.S37R	SLC25A25_uc004btb.2_Intron|SLC25A25_uc004btc.2_Intron|SLC25A25_uc004btd.2_Intron|SLC25A25_uc004btf.2_5'UTR	NM_052901	NP_443133	Q6KCM7	SCMC2_HUMAN	solute carrier family 25, member 25 isoform a	37	Mitochondrial intermembrane (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding				0						TTTCAAGCTCAGTGTCTTCAT	0.582													73	67	---	---	---	---	PASS	C	130860954	C	C	130860954	3	2	177	1	0	0	0	0	1	0	0	0	14488	188	7	5	599	5	SLC25A25	9	130860954	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	10884182	130860954	10352477	286	62746										
CIZ1	25792	broad.mit.edu	37	chr9	130947849	130947849	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcgattgggggtggtagaggAggaggtccgggcctgtttct	19	6	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:130947849A>G	uc004btt.2	-	5	728	c.565T>C	c.(565-567)TCC>CCC	p.S189P	CIZ1_uc004btr.2_Missense_Mutation_p.S189P|CIZ1_uc004bts.2_Missense_Mutation_p.S165P|CIZ1_uc011maq.1_Missense_Mutation_p.S189P|CIZ1_uc004btu.2_Missense_Mutation_p.S165P|CIZ1_uc011mar.1_Missense_Mutation_p.S88P|CIZ1_uc011mas.1_Missense_Mutation_p.S219P|CIZ1_uc004btw.2_Missense_Mutation_p.S189P|CIZ1_uc004btv.2_Missense_Mutation_p.S189P|CIZ1_uc004btx.2_Missense_Mutation_p.S165P	NM_001131016	NP_001124488	Q9ULV3	CIZ1_HUMAN	CDKN1A interacting zinc finger protein 1 isoform	189						nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4						GTGGTAGAGGAGGAGGTCCGG	0.368													3	62	---	---	---	---	PASS	G	130947849	G	G	130947849	3	3	177	1	0	0	0	0	1	0	0	0	3441	304	11	5	2183	5	CIZ1	9	130947849	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	86895	130947849	10265582	287	62747										
TTF1	7270	broad.mit.edu	37	chr9	135277211	135277211	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggactttttcttttttttcTtagacttgtttttataagca	5	5	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:135277211T>G	uc004cbl.2	-	2	1050	c.998A>C	c.(997-999)AAG>ACG	p.K333T	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Intron	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	333	Poly-Lys.				negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		CTTTTTTTTCTTAGACTTGTT	0.512													21	93	---	---	---	---	PASS	G	135277211	G	G	135277211	3	3	177	1	0	0	0	0	1	0	0	0	16715	1609	56	5	1759	5	TTF1	9	135277211	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	4329362	135277211	5936220	288	62748										
C9orf9	11092	broad.mit.edu	37	chr9	135763718	135763718	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccacctcagctgtgacgaggCccggaaccactacggcggcg	13	16	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:135763718C>G	uc004cbx.1	+	4	500	c.389C>G	c.(388-390)GCC>GGC	p.A130G	C9orf9_uc004cby.1_Missense_Mutation_p.A130G|C9orf9_uc004cbz.1_Missense_Mutation_p.A130G	NM_018956	NP_061829	Q96E40	CI009_HUMAN	Rsb-66 protein	130								p.?(1)			0				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|GBM - Glioblastoma multiforme(294;4.84e-07)|Epithelial(140;1.28e-06)		TGTGACGAGGCCCGGAACCAC	0.612													12	30	---	---	---	---	PASS	G	135763718	G	G	135763718	3	3	177	1	0	0	0	0	1	0	0	0	2504	739	26	4	399	4	C9orf9	9	135763718	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	486507	135763718	5449713	289	62749										
SNAPC4	6621	broad.mit.edu	37	chr9	139276418	139276418	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctccagcgccgctgcccactCtgggtggctctgtgccgtag	13	16	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr9:139276418C>G	uc004chh.2	-	17	2184	c.2175G>C	c.(2173-2175)CAG>CAC	p.Q725H		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	725					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		GCTGCCCACTCTGGGTGGCTC	0.677													8	15	---	---	---	---	PASS	G	139276418	G	G	139276418	3	3	177	1	0	0	0	0	1	0	0	0	14837	912	32	2	2258	2	SNAPC4	9	139276418	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	3512700	139276418	1937013	290	62750										
TAF3	83860	broad.mit.edu	37	chr10	8055795	8055795	+	Nonsense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gacgactgcgatgactggtaCcactggtgagtgcccagggc	15	11	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr10:8055795C>G	uc010qbd.1	+	6	2670	c.2670C>G	c.(2668-2670)TAC>TAG	p.Y890*		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	890	PHD-type.				maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						ATGACTGGTACCACTGGTGAG	0.577													20	153	---	---	---	---	PASS	G	8055795	G	G	8055795	4	3	177	1	0	0	0	0	0	1	0	0	15522	518	18	4	2692	4	TAF3	10	8055795	Nonsense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08		8055795	127478952	291	62751										
FAM188A	80013	broad.mit.edu	37	chr10	15885221	15885221	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gctatcatacctgaacaatcCcgccaagaagacttctccga	6	14	2	3	rs144611478	byFrequency	TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr10:15885221C>A	uc001iod.1	-	3	446	c.225G>T	c.(223-225)CGG>CGT	p.R75R	FAM188A_uc001ioe.1_5'UTR|FAM188A_uc001iof.1_Silent_p.R75R	NM_024948	NP_079224	Q9H8M7	F188A_HUMAN	chromosome 10 open reading frame 97	75					apoptosis	nucleus	calcium ion binding			ovary(1)	1						CTGAACAATCCCGCCAAGAAG	0.348													61	156	---	---	---	---	PASS	A	15885221	A	A	15885221	2	1	177	1	0	0	0	0	0	0	0	1	5514	610	22	3		3	FAM188A	10	15885221	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	7829426	15885221	119649526	292	62752										
SLC39A12	221074	broad.mit.edu	37	chr10	18270262	18270262	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cctgcttctctgctaggcagCtggtggagatatttctacag	11	10	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr10:18270262C>G	uc001ipo.2	+	6	1219	c.946C>G	c.(946-948)CTG>GTG	p.L316V	SLC39A12_uc001ipn.2_Missense_Mutation_p.L316V|SLC39A12_uc001ipp.2_Missense_Mutation_p.L316V|SLC39A12_uc010qck.1_Missense_Mutation_p.L182V	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	316	Cytoplasmic (Potential).			L -> R (in Ref. 3; AAH47635).	zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						TGCTAGGCAGCTGGTGGAGAT	0.453													26	75	---	---	---	---	PASS	G	18270262	G	G	18270262	3	3	177	1	0	0	0	0	1	0	0	0	14615	796	28	4	964	4	SLC39A12	10	18270262	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2385041	18270262	117264485	293	62753										
PARD3	56288	broad.mit.edu	37	chr10	34573094	34573094	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctgcttcattcgtatcctctCctcttctgatgtaaaggatt	6	11	4	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr10:34573094C>T	uc010qej.1	-	21	3154	c.3154G>A	c.(3154-3156)GAG>AAG	p.E1052K	PARD3_uc010qek.1_Missense_Mutation_p.E1049K|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Missense_Mutation_p.E1036K|PARD3_uc010qen.1_Missense_Mutation_p.E1006K|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Missense_Mutation_p.E962K|PARD3_uc010qeq.1_Intron	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	1052	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)				CGTATCCTCTCCTCTTCTGAT	0.343													25	241	---	---	---	---	PASS	T	34573094	T	T	34573094	3	4	177	1	0	0	0	0	1	0	0	0	11443	864	30	2	936	2	PARD3	10	34573094	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	16302832	34573094	100961653	294	62754										
FXYD4	53828	broad.mit.edu	37	chr10	43869928	43869928	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcccacacaggcctgactgcCttggaagccaatgacccatt	8	15	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr10:43869928C>A	uc001jaq.1	+	4	380	c.48C>A	c.(46-48)GCC>GCA	p.A16A		NM_173160	NP_775183	P59646	FXYD4_HUMAN	FXYD domain containing ion transport regulator 4	16						integral to membrane					0						GCCTGACTGCCTTGGAAGCCA	0.577													58	125	---	---	---	---	PASS	A	43869928	A	A	43869928	2	1	177	1	0	0	0	0	0	0	0	1	6120	668	24	3		3	FXYD4	10	43869928	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	9296834	43869928	91664819	295	62755										
CHAT	1103	broad.mit.edu	37	chr10	50827942	50827942	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agcagaaactcctggagcggCaggagaagacagccaactgg	14	10	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr10:50827942C>A	uc001jhz.2	+	3	712	c.559C>A	c.(559-561)CAG>AAG	p.Q187K	CHAT_uc001jhv.1_Missense_Mutation_p.Q69K|CHAT_uc001jhx.1_Missense_Mutation_p.Q69K|CHAT_uc001jhy.1_Missense_Mutation_p.Q69K|CHAT_uc001jia.2_Missense_Mutation_p.Q69K|CHAT_uc010qgs.1_Missense_Mutation_p.Q69K	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	187					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	CCTGGAGCGGCAGGAGAAGAC	0.622													12	24	---	---	---	---	PASS	A	50827942	A	A	50827942	3	1	177	1	0	0	0	0	1	0	0	0	3313	711	25	3	613	3	CHAT	10	50827942	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	6958014	50827942	84706805	296	62756										
DNA2	1763	broad.mit.edu	37	chr10	70176536	70176536	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aatttagtgagggcacacacCccagaagaatcagtttatgt	9	8	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr10:70176536C>G	uc001jof.2	-	20	3302	c.3302G>C	c.(3301-3303)GGG>GCG	p.G1101A	DNA2_uc001jog.1_Missense_Mutation_p.G777A|DNA2_uc001joh.1_RNA	NM_001080449	NP_001073918	P51530	DNA2L_HUMAN	DNA replication helicase 2 homolog	1015					base-excision repair|DNA replication, removal of RNA primer|mitochondrial DNA repair|mitochondrial DNA replication|positive regulation of DNA replication|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	mitochondrial nucleoid|nucleoplasm	5'-flap endonuclease activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|site-specific endodeoxyribonuclease activity, specific for altered base				0						GGGCACACACCCCAGAAGAAT	0.353													4	84	---	---	---	---	PASS	G	70176536	G	G	70176536	3	3	177	1	0	0	0	0	1	0	0	0	4596	623	22	4	146	4	DNA2	10	70176536	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	19348594	70176536	65358211	297	62757										
TET1	80312	broad.mit.edu	37	chr10	70451518	70451518	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cccatgacaatgttgtcaccGtgtccccttatgctctcaca	6	15	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr10:70451518G>A	uc001jok.3	+	12	6863	c.6358G>A	c.(6358-6360)GTG>ATG	p.V2120M		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	2120					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						TGTTGTCACCGTGTCCCCTTA	0.443													5	158	---	---	---	---	PASS	A	70451518	A	A	70451518	3	1	177	1	0	0	0	0	1	0	0	0	15766	1145	40	1	6400	1	TET1	10	70451518	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	274982	70451518	65083229	298	62758										
LIPA	3988	broad.mit.edu	37	chr10	90986679	90986679	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggtgccttgagaatgacccaCataatacacttgttcttggc	9	10	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr10:90986679C>T	uc001kga.3	-	5	679	c.511G>A	c.(511-513)GTG>ATG	p.V171M	LIPA_uc001kgb.3_Missense_Mutation_p.V115M|LIPA_uc001kgc.3_Missense_Mutation_p.V173M|LIPA_uc010qnf.1_5'Flank|LIPA_uc009xtq.2_Missense_Mutation_p.V171M	NM_000235	NP_000226	P38571	LICH_HUMAN	lipase A precursor	171					lipid catabolic process	lysosome	lipase activity|sterol esterase activity				0		Colorectal(252;0.0162)		GBM - Glioblastoma multiforme(2;0.00406)		GAATGACCCACATAATACACT	0.333													32	45	---	---	---	---	PASS	T	90986679	T	T	90986679	3	4	177	1	0	0	0	0	1	0	0	0	8819	478	17	3	712	3	LIPA	10	90986679	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	20535161	90986679	44548068	299	62759										
BTAF1	9044	broad.mit.edu	37	chr10	93768864	93768864	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccttccttagtggtttgtccGccaacattaacaggccattg	8	12	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr10:93768864G>A	uc001khr.2	+	28	4100	c.4002G>A	c.(4000-4002)CCG>CCA	p.P1334P		NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	1334	Helicase ATP-binding.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				TGGTTTGTCCGCCAACATTAA	0.408													16	51	---	---	---	---	PASS	A	93768864	A	A	93768864	2	1	177	1	0	0	0	0	0	0	0	1	1536	1074	38	1		1	BTAF1	10	93768864	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	2782185	93768864	41765883	300	62760										
PNLIP	5406	broad.mit.edu	37	chr10	118314758	118314758	+	Nonsense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gattggaccccagcgatgccAaatttgtggatgtaattcac	10	9	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr10:118314758A>T	uc001lcm.2	+	7	683	c.640A>T	c.(640-642)AAA>TAA	p.K214*		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	214					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	CAGCGATGCCAAATTTGTGGA	0.478													28	23	---	---	---	---	PASS	T	118314758	T	T	118314758	4	4	177	1	0	0	0	0	0	1	0	0	12149	131	5	5	662	5	PNLIP	10	118314758	Nonsense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	24545894	118314758	17219989	301	62761										
MUC2	4583	broad.mit.edu	37	chr11	1080602	1080602	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cttccacggggactgctactAtgtcctggccaaggtaggct	12	12	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:1080602A>G	uc001lsx.1	+	9	1271	c.1244A>G	c.(1243-1245)TAT>TGT	p.Y415C		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	415	VWFD 2.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	GACTGCTACTATGTCCTGGCC	0.667													8	30	---	---	---	---	PASS	G	1080602	G	G	1080602	3	3	177	1	0	0	0	0	1	0	0	0	9975	449	16	5	1278	5	MUC2	11	1080602	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08		1080602	133925914	302	62762										
MUC5B	727897	broad.mit.edu	37	chr11	1263832	1263832	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cggggacgacctggatcctcAcaaagccgaccacaacagcc	10	16	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:1263832A>G	uc009ycr.1	+	47	7927	c.7801A>G	c.(7801-7803)ACA>GCA	p.T2601A	MUC5B_uc001ltb.2_Missense_Mutation_p.T1911A	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1908	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTGGATCCTCACAAAGCCGAC	0.642													48	70	---	---	---	---	PASS	G	1263832	G	G	1263832	3	3	177	1	0	0	0	0	1	0	0	0	9979	159	6	5	5853	5	MUC5B	11	1263832	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	183230	1263832	133742684	303	62763										
KRTAP5-5	439915	broad.mit.edu	37	chr11	1651380	1651380	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gaggctgtgtctcctgtgggGtgtccaagggggcctgtggc	19	9	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:1651380G>T	uc001lty.2	+	1	348	c.310G>T	c.(310-312)GTG>TTG	p.V104L		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	104	8 X 4 AA repeats of C-C-X-P.					keratin filament				lung(1)	1		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		CTCCTGTGGGGTGTCCAAGGG	0.682													65	81	---	---	---	---	PASS	T	1651380	T	T	1651380	3	4	177	1	0	0	0	0	1	0	0	0	8564	1261	44	3	312	3	KRTAP5-5	11	1651380	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	387548	1651380	133355136	304	62764										
CTSD	1509	broad.mit.edu	37	chr11	1780299	1780299	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aggtgctggacttgtcgctgTtgtacttgtggtggatccct	14	8	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:1780299T>C	uc001luc.1	-	4	504	c.371A>G	c.(370-372)AAC>AGC	p.N124S	CTSD_uc009yda.1_RNA	NM_001909	NP_001900	P07339	CATD_HUMAN	cathepsin D preproprotein	124					cell death|proteolysis	extracellular space|lysosome|melanosome	aspartic-type endopeptidase activity				0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CTTGTCGCTGTTGTACTTGTG	0.627													87	113	---	---	---	---	PASS	C	1780299	C	C	1780299	3	2	177	1	0	0	0	0	1	0	0	0	4032	1725	60	5	891	5	CTSD	11	1780299	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	128919	1780299	133226217	305	62765										
TH	7054	broad.mit.edu	37	chr11	2189775	2189775	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cacctggcgcacaccactgaGcagggcggccaggtcccctc	12	18	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:2189775G>A	uc001lvq.2	-	4	545	c.526C>T	c.(526-528)CTC>TTC	p.L176F	TH_uc001lvp.2_Missense_Mutation_p.L172F|TH_uc001lvr.2_Missense_Mutation_p.L145F|TH_uc010qxj.1_Missense_Mutation_p.L149F|TH_uc001lvs.2_Missense_Mutation_p.L145F|TH_uc001lvt.2_Missense_Mutation_p.L149F|TH_uc009ydh.1_5'Flank	NM_199292	NP_954986	P07101	TY3H_HUMAN	tyrosine hydroxylase isoform a	176					dopamine biosynthetic process from tyrosine|embryonic camera-type eye morphogenesis|epinephrine biosynthetic process|eye photoreceptor cell development|heart morphogenesis|hormone biosynthetic process|learning|locomotory behavior|memory|neurotransmitter biosynthetic process|neurotransmitter secretion|norepinephrine biosynthetic process|pigmentation|regulation of heart contraction|response to ethanol|response to hypoxia|synaptic transmission, dopaminergic|visual perception	cytosol|internal side of plasma membrane|melanosome membrane|nucleus|perikaryon|smooth endoplasmic reticulum	protein binding|tyrosine 3-monooxygenase activity				0		all_epithelial(84;1.46e-23)|Lung NSC(207;4.44e-11)|all_lung(207;1.11e-09)|Ovarian(85;1.78e-06)|Breast(177;1.78e-05)|Medulloblastoma(188;0.0208)|all_neural(188;0.0416)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;8.45e-09)|Lung(200;0.000152)|LUSC - Lung squamous cell carcinoma(625;0.00154)	L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Metyrosine(DB00765)|Tetrahydrobiopterin(DB00360)	ACACCACTGAGCAGGGCGGCC	0.697													12	20	---	---	---	---	PASS	A	2189775	A	A	2189775	3	1	177	1	0	0	0	0	1	0	0	0	15835	971	34	3	1104	3	TH	11	2189775	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	409476	2189775	132816741	306	62766										
OR52I1	390037	broad.mit.edu	37	chr11	4615690	4615690	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	acactacaagagaattctcaCgcctcaagtgatgctgggaa	9	10	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:4615690C>G	uc010qyi.1	+	1	422	c.422C>G	c.(421-423)ACG>AGG	p.T141R		NM_001005169	NP_001005169	Q8NGK6	O52I1_HUMAN	olfactory receptor, family 52, subfamily I,	141	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;7.98e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGAATTCTCACGCCTCAAGTG	0.512													36	62	---	---	---	---	PASS	G	4615690	G	G	4615690	3	3	177	1	0	0	0	0	1	0	0	0	11120	536	19	4	424	4	OR52I1	11	4615690	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2425915	4615690	130390826	307	62767										
OR51A4	401666	broad.mit.edu	37	chr11	4967584	4967584	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atgggcaggtagaagatgatCactgcacagatgtgtgaaac	13	6	1	5			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:4967584C>G	uc010qys.1	-	1	747	c.747G>C	c.(745-747)GTG>GTC	p.V249V		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGAAGATGATCACTGCACAGA	0.483													45	126	---	---	---	---	PASS	G	4967584	G	G	4967584	2	3	177	1	0	0	0	0	0	0	0	1	11087	813	29	2		2	OR51A4	11	4967584	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	351894	4967584	130038932	308	62768										
OR51Q1	390061	broad.mit.edu	37	chr11	5444139	5444139	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cagccacctgggctgagcgaCtccgtgccctcaataactgc	10	16	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:5444139C>A	uc010qzd.1	+	1	709	c.709C>A	c.(709-711)CTC>ATC	p.L237I	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	237	Cytoplasmic (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;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGCTGAGCGACTCCGTGCCCT	0.483													53	93	---	---	---	---	PASS	A	5444139	A	A	5444139	3	1	177	1	0	0	0	0	1	0	0	0	11104	565	20	3	711	3	OR51Q1	11	5444139	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	476555	5444139	129562377	309	62769										
ZNF215	7762	broad.mit.edu	37	chr11	6977277	6977277	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agcaacattcagaatatgaaTatgggaatgacttgagtttg	10	4	1	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:6977277T>A	uc001mey.2	+	7	1657	c.1069T>A	c.(1069-1071)TAT>AAT	p.Y357N	ZNF215_uc010raw.1_3'UTR|ZNF215_uc010rax.1_Missense_Mutation_p.Y119N|ZNF215_uc001mez.1_Intron	NM_013250	NP_037382	Q9UL58	ZN215_HUMAN	zinc finger protein 215	357					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;6.33e-08)|BRCA - Breast invasive adenocarcinoma(625;0.134)		AGAATATGAATATGGGAATGA	0.348													20	65	---	---	---	---	PASS	A	6977277	A	A	6977277	3	1	177	1	0	0	0	0	1	0	0	0	17768	1406	49	5	1087	5	ZNF215	11	6977277	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	1533138	6977277	128029239	310	62770										
GTF2H1	2965	broad.mit.edu	37	chr11	18362877	18362877	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	attctggacacgttttttccAgtcccattattttcacaggg	7	10	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:18362877A>G	uc001moi.2	+	7	1371	c.677A>G	c.(676-678)CAG>CGG	p.Q226R	GTF2H1_uc001moh.2_Missense_Mutation_p.Q226R|GTF2H1_uc009yhm.2_Missense_Mutation_p.Q110R	NM_001142307	NP_001135779	P32780	TF2H1_HUMAN	general transcription factor IIH, polypeptide 1,	226	BSD 2.				mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	protein binding				0						CGTTTTTTCCAGTCCCATTAT	0.363								NER					14	72	---	---	---	---	PASS	G	18362877	G	G	18362877	3	3	177	1	0	0	0	0	1	0	0	0	6860	188	7	5	695	5	GTF2H1	11	18362877	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	11385600	18362877	116643639	311	62771										
ANO3	63982	broad.mit.edu	37	chr11	26663489	26663489	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ataaaatcaagcggggaataCatgatgcttccatacctcag	8	9	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:26663489C>A	uc001mqt.3	+	22	2333	c.2188C>A	c.(2188-2190)CAT>AAT	p.H730N	ANO3_uc010rdr.1_Missense_Mutation_p.H714N|ANO3_uc010rds.1_Missense_Mutation_p.H569N|ANO3_uc010rdt.1_Missense_Mutation_p.H584N	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	730	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCGGGGAATACATGATGCTTC	0.433													26	88	---	---	---	---	PASS	A	26663489	A	A	26663489	3	1	177	1	0	0	0	0	1	0	0	0	698	478	17	3	2274	3	ANO3	11	26663489	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	8300612	26663489	108343027	312	62772										
CD44	960	broad.mit.edu	37	chr11	35227757	35227757	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcaacccaatctcacaccccAtgggacgaggtcatcaagca	7	15	4	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:35227757A>G	uc001mvu.2	+	11	1815	c.1381A>G	c.(1381-1383)ATG>GTG	p.M461V	CD44_uc001mvv.2_Missense_Mutation_p.M418V|CD44_uc001mvw.2_Intron|CD44_uc001mvx.2_Intron|CD44_uc001mvy.2_Intron|CD44_uc001mwc.3_Intron|CD44_uc010rer.1_Intron|CD44_uc009ykh.2_Intron|CD44_uc010res.1_Missense_Mutation_p.M25V|CD44_uc010ret.1_Intron|CD44_uc010reu.1_Intron	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	461	Extracellular (Potential).|Stem.				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	all_cancers(35;0.212)|all_lung(20;0.0874)|all_epithelial(35;0.112)	all_hematologic(20;0.107)	STAD - Stomach adenocarcinoma(6;0.00731)		Hyaluronidase(DB00070)	CTCACACCCCATGGGACGAGG	0.453													42	74	---	---	---	---	PASS	G	35227757	G	G	35227757	3	3	177	1	0	0	0	0	1	0	0	0	3017	217	8	5	1423	5	CD44	11	35227757	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	8564268	35227757	99778759	313	62773										
ALX4	60529	broad.mit.edu	37	chr11	44286614	44286614	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aagtcggtgacgctgctggcCccagagccaggggggtgggc	19	11	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:44286614C>G	uc001myb.2	-	4	1130	c.1026G>C	c.(1024-1026)GGG>GGC	p.G342G		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	342					hair follicle development						0						CGCTGCTGGCCCCAGAGCCAG	0.687													26	29	---	---	---	---	PASS	G	44286614	G	G	44286614	2	3	177	1	0	0	0	0	0	0	0	1	558	610	22	4		4	ALX4	11	44286614	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	9058857	44286614	90719902	314	62774										
PHF21A	51317	broad.mit.edu	37	chr11	45970972	45970972	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cctctggctcaaagactgctCcactgtagaccggatttgct	9	13	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:45970972C>T	uc001ncc.3	-	12	1829	c.1205G>A	c.(1204-1206)GGA>GAA	p.G402E	PHF21A_uc001ncb.3_Missense_Mutation_p.G403E|PHF21A_uc009ykx.2_Missense_Mutation_p.G403E|PHF21A_uc001nce.2_Missense_Mutation_p.G403E|PHF21A_uc001nca.1_Missense_Mutation_p.G138E	NM_001101802	NP_001095272	Q96BD5	PF21A_HUMAN	BRAF35/HDAC2 complex isoform a	402					blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						AAAGACTGCTCCACTGTAGAC	0.463													57	123	---	---	---	---	PASS	T	45970972	T	T	45970972	3	4	177	1	0	0	0	0	1	0	0	0	11833	855	30	2	892	2	PHF21A	11	45970972	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	1684358	45970972	89035544	315	62775										
OR5D14	219436	broad.mit.edu	37	chr11	55563689	55563689	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tactgatcatcctcacttccTatgttttcatttttgtgact	4	10	3	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:55563689T>G	uc010rim.1	+	1	658	c.658T>G	c.(658-660)TAT>GAT	p.Y220D		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				CCTCACTTCCTATGTTTTCAT	0.473													29	124	---	---	---	---	PASS	G	55563689	G	G	55563689	3	3	177	1	0	0	0	0	1	0	0	0	11155	1522	53	5	660	5	OR5D14	11	55563689	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	9592717	55563689	79442827	316	62776										
OR5L2	26338	broad.mit.edu	37	chr11	55595037	55595037	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gagtcactgaggtcttcctgCtggccgtgatggcctatgac	13	11	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:55595037C>A	uc001nhy.1	+	1	343	c.343C>A	c.(343-345)CTG>ATG	p.L115M		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				GGTCTTCCTGCTGGCCGTGAT	0.512										HNSCC(27;0.073)			81	129	---	---	---	---	PASS	A	55595037	A	A	55595037	3	1	177	1	0	0	0	0	1	0	0	0	11171	796	28	3	345	3	OR5L2	11	55595037	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	31348	55595037	79411479	317	62777										
OR5L2	26338	broad.mit.edu	37	chr11	55595193	55595193	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cgtccttagctcttaggatcCtcttctatagatctaatgtg	7	10	4	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:55595193C>G	uc001nhy.1	+	1	499	c.499C>G	c.(499-501)CTC>GTC	p.L167V		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				TCTTAGGATCCTCTTCTATAG	0.478										HNSCC(27;0.073)			63	140	---	---	---	---	PASS	G	55595193	G	G	55595193	3	3	177	1	0	0	0	0	1	0	0	0	11171	681	24	4	501	4	OR5L2	11	55595193	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	156	55595193	79411323	318	62778										
OR6Q1	219952	broad.mit.edu	37	chr11	57799212	57799212	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggcactcttttctttatgtAtgtccagaccaaggtgacct	8	10	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:57799212A>T	uc010rjz.1	+	1	788	c.788A>T	c.(787-789)TAT>TTT	p.Y263F	OR9Q1_uc001nmj.2_Intron	NM_001005186	NP_001005186	Q8NGQ2	OR6Q1_HUMAN	olfactory receptor, family 6, subfamily Q,	263	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(1)	1		Breast(21;0.0707)|all_epithelial(135;0.142)				TTCTTTATGTATGTCCAGACC	0.507													48	166	---	---	---	---	PASS	T	57799212	T	T	57799212	3	4	177	1	0	0	0	0	1	0	0	0	11208	449	16	5	790	5	OR6Q1	11	57799212	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	2204019	57799212	77207304	319	62779										
MS4A6A	64231	broad.mit.edu	37	chr11	59945748	59945748	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctcaccaaaagcttggttaaCcttttctctgtggcgattga	8	10	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:59945748C>A	uc001nor.2	-	4	562	c.324G>T	c.(322-324)AGG>AGT	p.R108S	MS4A6A_uc001noq.2_Missense_Mutation_p.R108S|MS4A6A_uc001nos.3_Missense_Mutation_p.R136S|MS4A6A_uc009ymv.2_Missense_Mutation_p.R108S|MS4A6A_uc001not.2_Missense_Mutation_p.R108S|MS4A6A_uc010rla.1_Missense_Mutation_p.R136S|MS4A6A_uc010rlb.1_Missense_Mutation_p.R63S	NM_152852	NP_690591	Q9H2W1	M4A6A_HUMAN	membrane-spanning 4-domains, subfamily A, member	108	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						GCTTGGTTAACCTTTTCTCTG	0.388													31	48	---	---	---	---	PASS	A	59945748	A	A	59945748	3	1	177	1	0	0	0	0	1	0	0	0	9864	506	18	3	465	3	MS4A6A	11	59945748	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2146536	59945748	75060768	320	62780										
AHNAK	79026	broad.mit.edu	37	chr11	62301521	62301521	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgatcttcgtggtgtagatgCgctggtactcctcatcatcc	10	11	3	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:62301521C>T	uc001ntl.2	-	5	668	c.368G>A	c.(367-369)CGC>CAC	p.R123H	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	123					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GGTGTAGATGCGCTGGTACTC	0.602													23	14	---	---	---	---	PASS	T	62301521	T	T	62301521	3	4	177	1	0	0	0	0	1	0	0	0	414	768	27	1	17424	1	AHNAK	11	62301521	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2355773	62301521	72704995	321	62781										
C2CD3	26005	broad.mit.edu	37	chr11	73829418	73829418	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gaggaaatcactgatgctggTatcagatttctatggagagg	13	5	3	3	rs141826355		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:73829418T>C	uc001ouu.2	-	9	1602	c.1375A>G	c.(1375-1377)ACC>GCC	p.T459A	C2CD3_uc001ouv.2_Missense_Mutation_p.T459A	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	459						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					CTGATGCTGGTATCAGATTTC	0.408													41	80	---	---	---	---	PASS	C	73829418	C	C	73829418	3	2	177	1	0	0	0	0	1	0	0	0	2154	1638	57	5	4608	5	C2CD3	11	73829418	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	11527897	73829418	61177098	322	62782										
PGM2L1	283209	broad.mit.edu	37	chr11	74054399	74054399	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcaaatgcaaaaaggacttcTttcccattttccaggaggtc	7	10	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:74054399T>C	uc001ovb.1	-	10	1577	c.1281A>G	c.(1279-1281)AAA>AAG	p.K427K		NM_173582	NP_775853	Q6PCE3	PGM2L_HUMAN	phosphoglucomutase 2-like 1	427					glucose 1-phosphate metabolic process	cytosol	glucose-1,6-bisphosphate synthase activity|phosphoglucomutase activity			ovary(1)	1	Breast(11;3.32e-06)					AAAGGACTTCTTTCCCATTTT	0.333													16	107	---	---	---	---	PASS	C	74054399	C	C	74054399	2	2	177	1	0	0	0	0	0	0	0	1	11799	1606	56	5		5	PGM2L1	11	74054399	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	224981	74054399	60952117	323	62783										
LRRC32	2615	broad.mit.edu	37	chr11	76371843	76371843	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agttcaggtagatgagtctcGggagcgcggccaggtcgggg	19	8	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:76371843G>T	uc001oxq.3	-	3	1037	c.794C>A	c.(793-795)CCG>CAG	p.P265Q	LRRC32_uc001oxr.3_Missense_Mutation_p.P265Q|LRRC32_uc010rsf.1_Missense_Mutation_p.P265Q	NM_005512	NP_005503	Q14392	LRC32_HUMAN	leucine rich repeat containing 32 precursor	265	LRR 9.|Extracellular (Potential).					integral to plasma membrane					0						GATGAGTCTCGGGAGCGCGGC	0.632													33	68	---	---	---	---	PASS	T	76371843	T	T	76371843	3	4	177	1	0	0	0	0	1	0	0	0	8987	1116	39	1	1198	1	LRRC32	11	76371843	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2317444	76371843	58634673	324	62784										
SYTL2	54843	broad.mit.edu	37	chr11	85422208	85422208	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	taagattggttaaagagctcGggctcttcttgtgtctgctg	12	7	3	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:85422208G>A	uc010rth.1	-	11	2054	c.1778C>T	c.(1777-1779)CCG>CTG	p.P593L	SYTL2_uc010rtg.1_Missense_Mutation_p.P594L|SYTL2_uc010rti.1_Intron|SYTL2_uc010rtj.1_Missense_Mutation_p.P561L|SYTL2_uc001pav.2_Missense_Mutation_p.P35L|SYTL2_uc010rte.1_Intron|SYTL2_uc001pax.2_Missense_Mutation_p.P35L|SYTL2_uc001paz.2_Intron|SYTL2_uc001pba.2_Intron|SYTL2_uc001pay.2_Missense_Mutation_p.P24L|SYTL2_uc001paw.2_Intron|SYTL2_uc009yvj.2_RNA|SYTL2_uc001pbd.2_Intron|SYTL2_uc001pbb.2_Missense_Mutation_p.P931L|SYTL2_uc001pbc.2_Missense_Mutation_p.P915L|SYTL2_uc010rtf.1_Intron	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	593	Ser-rich.				intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		TAAAGAGCTCGGGCTCTTCTT	0.423													42	157	---	---	---	---	PASS	A	85422208	A	A	85422208	3	1	177	1	0	0	0	0	1	0	0	0	15480	1116	39	1	1058	1	SYTL2	11	85422208	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	9050365	85422208	49584308	325	62785										
PRSS23	11098	broad.mit.edu	37	chr11	86519439	86519439	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atgattatgccctcctggaaCtcaaaaagccccacaagaga	7	12	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:86519439C>T	uc001pcb.2	+	2	970	c.754C>T	c.(754-756)CTC>TTC	p.L252F	PRSS23_uc001pcc.1_Intron|PRSS23_uc010rts.1_Missense_Mutation_p.L220F	NM_007173	NP_009104	O95084	PRS23_HUMAN	protease, serine, 23 precursor	252					proteolysis	extracellular region|nucleus	serine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CCTCCTGGAACTCAAAAAGCC	0.493													37	64	---	---	---	---	PASS	T	86519439	T	T	86519439	3	4	177	1	0	0	0	0	1	0	0	0	12620	565	20	3	756	3	PRSS23	11	86519439	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	1097231	86519439	48487077	326	62786										
MAML2	84441	broad.mit.edu	37	chr11	95712801	95712801	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttgtgaattaccaacagatcCagctccaaaagtggctacat	7	10	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:95712801C>A	uc001pfw.1	-	5	4067	c.2782G>T	c.(2782-2784)GGA>TGA	p.G928*		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	928					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				CCAACAGATCCAGCTCCAAAA	0.413			T	MECT1|CRTC3	salivary gland mucoepidermoid								46	112	---	---	---	---	PASS	A	95712801	A	A	95712801	4	1	177	1	0	0	0	0	0	1	0	0	9206	603	21	3	692	3	MAML2	11	95712801	Nonsense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	9193362	95712801	39293715	327	62787										
CWF19L2	143884	broad.mit.edu	37	chr11	107300080	107300080	+	Nonsense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gacaattttgtgctttatctGaatatgtgggtttcctccac	8	8	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:107300080G>C	uc010rvp.1	-	8	908	c.878C>G	c.(877-879)TCA>TGA	p.S293*	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	293							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		TGCTTTATCTGAATATGTGGG	0.348													7	23	---	---	---	---	PASS	C	107300080	C	C	107300080	4	2	177	1	0	0	0	0	0	1	0	0	4072	1294	45	2	1850	2	CWF19L2	11	107300080	Nonsense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	11587279	107300080	27706436	328	62788										
DSCAML1	57453	broad.mit.edu	37	chr11	117375666	117375666	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atgcttccacatgaccttggGtggggggtagccgtccaccg	14	12	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:117375666G>T	uc001prh.1	-	10	2337	c.2335C>A	c.(2335-2337)CCC>ACC	p.P779T		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	719	Extracellular (Potential).|Ig-like C2-type 8.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		ATGACCTTGGGTGGGGGGTAG	0.592													27	52	---	---	---	---	PASS	T	117375666	T	T	117375666	3	4	177	1	0	0	0	0	1	0	0	0	4769	1261	44	3	4102	3	DSCAML1	11	117375666	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	10075586	117375666	17630850	329	62789										
OR10S1	219873	broad.mit.edu	37	chr11	123848389	123848389	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	catcttctcacacacagagcGgctagtcatcccctttgcaa	6	15	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:123848389G>A	uc001pzm.1	-	1	10	c.10C>T	c.(10-12)CGC>TGC	p.R4C		NM_001004474	NP_001004474	Q8NGN2	O10S1_HUMAN	olfactory receptor, family 10, subfamily S,	4	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CACACAGAGCGGCTAGTCATC	0.473													55	124	---	---	---	---	PASS	A	123848389	A	A	123848389	3	1	177	1	0	0	0	0	1	0	0	0	10918	1116	39	1	989	1	OR10S1	11	123848389	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	6472723	123848389	11158127	330	62790										
OR8B12	219858	broad.mit.edu	37	chr11	124413240	124413240	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	actcagagacgacaaagaagCagaagaagaagagctgagtc	12	7	1	7			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:124413240C>A	uc010sam.1	-	1	311	c.311G>T	c.(310-312)TGC>TTC	p.C104F		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	104	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		GACAAAGAAGCAGAAGAAGAA	0.473													20	60	---	---	---	---	PASS	A	124413240	A	A	124413240	3	1	177	1	0	0	0	0	1	0	0	0	11226	710	25	3	623	3	OR8B12	11	124413240	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	564851	124413240	10593276	331	62791										
ROBO4	54538	broad.mit.edu	37	chr11	124765505	124765505	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gcagctcctctgcccacggaGctccctggcctcccggggca	12	19	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:124765505G>A	uc001qbg.2	-	6	1024	c.884C>T	c.(883-885)GCT>GTT	p.A295V	ROBO4_uc010sas.1_Missense_Mutation_p.A150V|ROBO4_uc001qbh.2_Missense_Mutation_p.A185V|ROBO4_uc001qbi.2_5'Flank|ROBO4_uc010sat.1_5'Flank	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	295	Fibronectin type-III 1.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		TGCCCACGGAGCTCCCTGGCC	0.647													18	94	---	---	---	---	PASS	A	124765505	A	A	124765505	3	1	177	1	0	0	0	0	1	0	0	0	13516	971	34	3	2191	3	ROBO4	11	124765505	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	352265	124765505	10241011	332	62792										
NCAPD3	23310	broad.mit.edu	37	chr11	134055385	134055385	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtgggtgagaatttttctttCttggaccagatatgaaaagc	11	5	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr11:134055385C>A	uc001qhd.1	-	17	2688	c.2082G>T	c.(2080-2082)AAG>AAT	p.K694N	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	694					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		ATTTTTCTTTCTTGGACCAGA	0.378													32	71	---	---	---	---	PASS	A	134055385	A	A	134055385	3	1	177	1	0	0	0	0	1	0	0	0	10206	912	32	2	2490	2	NCAPD3	11	134055385	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	9289880	134055385	951131	333	62793										
B4GALNT3	283358	broad.mit.edu	37	chr12	657444	657444	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttcaccatcattgactccctCtccctgtccctcttcacaag	3	18	5	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:657444C>A	uc001qii.1	+	9	834	c.834C>A	c.(832-834)CTC>CTA	p.L278L	B4GALNT3_uc001qij.1_Silent_p.L180L	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	278	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			TTGACTCCCTCTCCCTGTCCC	0.562													4	66	---	---	---	---	PASS	A	657444	A	A	657444	2	1	177	1	0	0	0	0	0	0	0	1	1268	900	32	2		2	B4GALNT3	12	657444	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08		657444	133194451	334	62794										
CD163	9332	broad.mit.edu	37	chr12	7647890	7647890	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cacatcagcttctttcagtcCccagcctctgtcacacacct	4	18	5	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:7647890C>A	uc001qsz.3	-	6	1335	c.1207G>T	c.(1207-1209)GGA>TGA	p.G403*	CD163_uc001qta.3_Nonsense_Mutation_p.G403*|CD163_uc009zfw.2_Nonsense_Mutation_p.G403*	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	403	SRCR 4.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						TCTTTCAGTCCCCAGCCTCTG	0.502													50	115	---	---	---	---	PASS	A	7647890	A	A	7647890	4	1	177	1	0	0	0	0	0	1	0	0	2967	632	22	3	2307	3	CD163	12	7647890	Nonsense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	6990446	7647890	126204005	335	62795										
APOBEC1	339	broad.mit.edu	37	chr12	7803669	7803669	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	caacatcatccacagaggtgGgtattgtggccagtgagctt	12	9	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:7803669G>T	uc001qtb.2	-	4	545	c.511C>A	c.(511-513)CCA>ACA	p.P171T	APOBEC1_uc001qtc.2_Missense_Mutation_p.P126T|APOBEC1_uc010sgf.1_Missense_Mutation_p.P171T	NM_001644	NP_001635	P41238	ABEC1_HUMAN	apolipoprotein B mRNA editing enzyme	171					cytidine to uridine editing|DNA demethylation|lipid metabolic process|mRNA modification|mRNA processing|negative regulation of methylation-dependent chromatin silencing	nucleoplasm	cytidine deaminase activity|RNA binding|zinc ion binding				0						CACAGAGGTGGGTATTGTGGC	0.438													7	157	---	---	---	---	PASS	T	7803669	T	T	7803669	3	4	177	1	0	0	0	0	1	0	0	0	787	1232	43	3	207	3	APOBEC1	12	7803669	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	155779	7803669	126048226	336	62796										
TAS2R10	50839	broad.mit.edu	37	chr12	10978480	10978480	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtaagaatactatcatgaagGgaagaaccatatttgttctg	9	5	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:10978480G>A	uc001qyy.1	-	1	389	c.389C>T	c.(388-390)CCC>CTC	p.P130L		NM_023921	NP_076410	Q9NYW0	T2R10_HUMAN	taste receptor, type 2, member 10	130	Helical; Name=4; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity				0						TATCATGAAGGGAAGAACCAT	0.348													16	103	---	---	---	---	PASS	A	10978480	A	A	10978480	3	1	177	1	0	0	0	0	1	0	0	0	15563	1232	43	3	538	3	TAS2R10	12	10978480	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	3174811	10978480	122873415	337	62797										
SLCO1B1	10599	broad.mit.edu	37	chr12	21327635	21327635	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	actgctttgccacatttcttCatgggatagtaagtgttaaa	8	7	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:21327635C>T	uc001req.3	+	4	455	c.351C>T	c.(349-351)TTC>TTT	p.F117F		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	117	Helical; Name=3; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	CACATTTCTTCATGGGATAGT	0.338													22	60	---	---	---	---	PASS	T	21327635	T	T	21327635	2	4	177	1	0	0	0	0	0	0	0	1	14723	825	29	2		2	SLCO1B1	12	21327635	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	10349155	21327635	112524260	338	62798										
ARNTL2	56938	broad.mit.edu	37	chr12	27573381	27573381	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgtgacaatgatgacacagcCatggctgcatttatgaatta	9	7	0	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:27573381C>G	uc001rht.1	+	17	1845	c.1827C>G	c.(1825-1827)GCC>GCG	p.A609A	ARNTL2_uc001rhw.2_Silent_p.A572A|ARNTL2_uc010sjp.1_Missense_Mutation_p.P536R|ARNTL2_uc001rhu.1_Silent_p.A595A|ARNTL2_uc009zji.1_Silent_p.A575A|ARNTL2_uc001rhv.1_Silent_p.A561A|uc001rhx.2_Intron	NM_020183	NP_064568	Q8WYA1	BMAL2_HUMAN	aryl hydrocarbon receptor nuclear	609					circadian rhythm|entrainment of circadian clock|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|skin(1)	2	Colorectal(261;0.0847)|Lung SC(9;0.184)					ATGACACAGCCATGGCTGCAT	0.453													57	99	---	---	---	---	PASS	G	27573381	G	G	27573381	2	3	177	1	0	0	0	0	0	0	0	1	968	581	21	4		4	ARNTL2	12	27573381	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	6245746	27573381	106278514	339	62799										
PDZRN4	29951	broad.mit.edu	37	chr12	41966568	41966568	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aaggggagcaagagggagtgGagcatgagctacagttgctt	17	5	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:41966568G>C	uc010skn.1	+	10	1458	c.1390G>C	c.(1390-1392)GAG>CAG	p.E464Q	PDZRN4_uc001rmq.3_Missense_Mutation_p.E405Q|PDZRN4_uc009zjz.2_Missense_Mutation_p.E403Q|PDZRN4_uc001rmr.2_Missense_Mutation_p.E290Q	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	663	Potential.						ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				AGAGGGAGTGGAGCATGAGCT	0.448													13	35	---	---	---	---	PASS	C	41966568	C	C	41966568	3	2	177	1	0	0	0	0	1	0	0	0	11710	1175	41	2	2098	2	PDZRN4	12	41966568	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	14393187	41966568	91885327	340	62800										
CSAD	51380	broad.mit.edu	37	chr12	53553951	53553951	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cgccgctccagcccttgatcGccctgtgccttccacatgag	9	18	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:53553951G>A	uc001sby.2	-	13	1245	c.1119C>T	c.(1117-1119)GGC>GGT	p.G373G	CSAD_uc001sbw.2_Silent_p.G226G|CSAD_uc009zmt.2_Silent_p.G155G|CSAD_uc010snx.1_Silent_p.G400G|CSAD_uc001sbz.2_Silent_p.G373G|CSAD_uc009zmu.2_Silent_p.G226G|CSAD_uc001sca.3_RNA	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	373					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	GCCCTTGATCGCCCTGTGCCT	0.637									Hereditary_Prostate_Cancer				10	43	---	---	---	---	PASS	A	53553951	A	A	53553951	2	1	177	1	0	0	0	0	0	0	0	1	3925	1074	38	1		1	CSAD	12	53553951	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	11587383	53553951	80297944	341	62801										
IKZF4	64375	broad.mit.edu	37	chr12	56420643	56420643	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agatgagcggctcctggaaaAggacgacagcgtgattgtgg	16	7	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:56420643A>G	uc001sjb.1	+	5	524	c.365A>G	c.(364-366)AAG>AGG	p.K122R	IKZF4_uc010sqa.1_Missense_Mutation_p.K75R|IKZF4_uc001sjc.1_Missense_Mutation_p.K122R|IKZF4_uc001sjd.1_Missense_Mutation_p.K20R|IKZF4_uc009zoi.1_Missense_Mutation_p.K77R|IKZF4_uc001sje.1_Missense_Mutation_p.K81R	NM_022465	NP_071910	Q9H2S9	IKZF4_HUMAN	zinc finger protein, subfamily 1A, 4	122					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (6;0.025)|OV - Ovarian serous cystadenocarcinoma(18;0.123)			CTCCTGGAAAAGGACGACAGC	0.592													24	21	---	---	---	---	PASS	G	56420643	G	G	56420643	3	3	177	1	0	0	0	0	1	0	0	0	7617	72	3	5	379	5	IKZF4	12	56420643	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	2866692	56420643	77431252	342	62802										
CS	1431	broad.mit.edu	37	chr12	56667527	56667527	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agagcaaactctcgctgacaGgtatatcgcggatcagtctt	10	10	3	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:56667527G>T	uc001sks.1	-	10	1264	c.1074C>A	c.(1072-1074)ACC>ACA	p.T358T	CS_uc010sql.1_Silent_p.T345T|CS_uc001skr.1_Silent_p.T292T|CS_uc001skt.1_Silent_p.T313T|CS_uc010sqm.1_3'UTR	NM_004077	NP_004068	O75390	CISY_HUMAN	citrate synthase precursor	358					cellular carbohydrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	citrate (Si)-synthase activity				0		Myeloproliferative disorder(1001;0.000374)		BRCA - Breast invasive adenocarcinoma(357;6.17e-07)		CTCGCTGACAGGTATATCGCG	0.438													23	128	---	---	---	---	PASS	T	56667527	T	T	56667527	2	4	177	1	0	0	0	0	0	0	0	1	3924	987	35	3		3	CS	12	56667527	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	246884	56667527	77184368	343	62803										
KIF5A	3798	broad.mit.edu	37	chr12	57971825	57971825	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agaccctccacaaccttcgcAagctgttcgttcaagacgtc	7	15	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:57971825A>G	uc001sor.1	+	22	2603	c.2395A>G	c.(2395-2397)AAG>GAG	p.K799E	KIF5A_uc010srr.1_Missense_Mutation_p.K710E	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	799					blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						CAACCTTCGCAAGCTGTTCGT	0.498													52	42	---	---	---	---	PASS	G	57971825	G	G	57971825	3	3	177	1	0	0	0	0	1	0	0	0	8305	131	5	5	2481	5	KIF5A	12	57971825	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	1304298	57971825	75880070	344	62804										
C12orf50	160419	broad.mit.edu	37	chr12	88388448	88388448	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	caatgtcagtctttggtttcCcatgcaatgatgtttttatt	7	7	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:88388448C>G	uc001tam.1	-	7	722	c.554G>C	c.(553-555)GGG>GCG	p.G185A	C12orf50_uc001tan.2_Missense_Mutation_p.G239A	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	185										skin(2)|ovary(1)	3						CTTTGGTTTCCCATGCAATGA	0.338													12	62	---	---	---	---	PASS	G	88388448	G	G	88388448	3	3	177	1	0	0	0	0	1	0	0	0	1695	623	22	4	718	4	C12orf50	12	88388448	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	30416623	88388448	45463447	345	62805										
EPYC	1833	broad.mit.edu	37	chr12	91366688	91366688	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tctttggcagcggaggaataGcatcaagttcatggtcatca	11	8	5	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:91366688G>T	uc001tbk.2	-	4	503	c.410C>A	c.(409-411)GCT>GAT	p.A137D		NM_004950	NP_004941	Q99645	EPYC_HUMAN	dermatan sulfate proteoglycan 3 precursor	137	LRRNT.				female pregnancy	proteinaceous extracellular matrix	glycosaminoglycan binding			skin(1)	1						CGGAGGAATAGCATCAAGTTC	0.358													41	62	---	---	---	---	PASS	T	91366688	T	T	91366688	3	4	177	1	0	0	0	0	1	0	0	0	5201	971	34	3	574	3	EPYC	12	91366688	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2978240	91366688	42485207	346	62806										
ACACB	32	broad.mit.edu	37	chr12	109702913	109702913	+	Splice_Site	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttcaagcctggctcgtccacAggacatcctggagtggaaga	12	11	1	1	rs113944047		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:109702913A>G	uc001tob.2	+	51	7062	c.6943_splice	c.e51-2	p.D2315_splice	ACACB_uc001toc.2_Splice_Site_p.D2315_splice|ACACB_uc001tod.2_Splice_Site|ACACB_uc010sxm.1_Splice_Site_p.D981_splice	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta						acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GCTCGTCCACAGGACATCCTG	0.652													32	36	---	---	---	---	PASS	G	109702913	G	G	109702913	5	3	177	1	0	0	0	0	0	0	1	0	107	202	7	5	7139	5	ACACB	12	109702913	Splice_Site	SNP	A	TCGA-85-6560-01A-11D-1817-08	18336225	109702913	24148982	347	62807										
CUX2	23316	broad.mit.edu	37	chr12	111744770	111744770	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cgggccctcggctggaggccGcgctggcctccaaggacagg	17	15	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:111744770G>T	uc001tsa.1	+	11	1057	c.904G>T	c.(904-906)GCG>TCG	p.A302S		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	302	Potential.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						GCTGGAGGCCGCGCTGGCCTC	0.637													24	76	---	---	---	---	PASS	T	111744770	T	T	111744770	3	4	177	1	0	0	0	0	1	0	0	0	4065	1087	38	1	946	1	CUX2	12	111744770	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2041857	111744770	22107125	348	62808										
NOS1	4842	broad.mit.edu	37	chr12	117658044	117658044	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcggtacacagactccgccaGctgctcctgcaggatgtcct	10	15	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:117658044G>A	uc001twm.1	-	27	4692	c.4006C>T	c.(4006-4008)CTG>TTG	p.L1336L		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1336					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GACTCCGCCAGCTGCTCCTGC	0.542													58	57	---	---	---	---	PASS	A	117658044	A	A	117658044	2	1	177	1	0	0	0	0	0	0	0	1	10541	962	34	3		3	NOS1	12	117658044	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	5913274	117658044	16193851	349	62809										
NCOR2	9612	broad.mit.edu	37	chr12	124848272	124848272	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cttcagctgcttcaggtccaGtggcttctggggtgaggcat	14	10	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:124848272G>A	uc010tba.1	-	21	2998	c.2881C>T	c.(2881-2883)CTG>TTG	p.L961L	NCOR2_uc010tay.1_Silent_p.L961L|NCOR2_uc010taz.1_Silent_p.L944L|NCOR2_uc010tbb.1_Silent_p.L961L|NCOR2_uc010tbc.1_Silent_p.L943L|NCOR2_uc001ugj.1_Silent_p.L961L	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	961					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		TTCAGGTCCAGTGGCTTCTGG	0.677													8	120	---	---	---	---	PASS	A	124848272	A	A	124848272	2	1	177	1	0	0	0	0	0	0	0	1	10236	1020	36	3		3	NCOR2	12	124848272	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	7190228	124848272	9003623	350	62810										
RIMBP2	23504	broad.mit.edu	37	chr12	130912803	130912805	+	In_Frame_Del	DEL	TCG	-	-													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tttcagaatacagctcctccTcgtcctcctccatgatgtct							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr12:130912803_130912805delTCG	uc001uil.2	-	12	2444_2446	c.2280_2282delCGA	c.(2278-2283)GACGAG>GAG	p.D760del		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	760						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		CAGCTCCTCCTCGTCCTCCTCCA	0.616													50	22	---	---	---	---		-	130912805	-	-	130912803	7	5	177	1	0	1	0	1	0	0	0	0	13363	1551	54	0	908	0	RIMBP2	12	130912803	In_Frame_Del	DEL	TCG	TCGA-85-6560-01A-11D-1817-08	6064531	130912803	2939092	351	62811										
ATP12A	479	broad.mit.edu	37	chr13	25284996	25284996	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctgatcctctcctatggcctCggaagtgtcacagccttgag	10	13	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:25284996C>A	uc001upp.2	+	21	3151	c.2964C>A	c.(2962-2964)CTC>CTA	p.L988L	ATP12A_uc010aaa.2_Silent_p.L994L	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	988	Lumenal (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	CCTATGGCCTCGGAAGTGTCA	0.498													15	52	---	---	---	---	PASS	A	25284996	A	A	25284996	2	1	177	1	0	0	0	0	0	0	0	1	1122	871	31	2		2	ATP12A	13	25284996	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08		25284996	89884882	352	62812										
CSNK1A1L	122011	broad.mit.edu	37	chr13	37678878	37678878	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttatcttctctgtacggtatGtgttgcctggtcctgttgtc	10	9	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:37678878G>T	uc001uwm.1	-	1	924	c.516C>A	c.(514-516)CAC>CAA	p.H172Q		NM_145203	NP_660204	Q8N752	KC1AL_HUMAN	casein kinase 1, alpha 1-like	172	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)	1		Lung NSC(96;7.97e-05)|Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.109)		all cancers(112;3.58e-07)|Epithelial(112;1.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00695)|BRCA - Breast invasive adenocarcinoma(63;0.0117)|GBM - Glioblastoma multiforme(144;0.0407)		TGTACGGTATGTGTTGCCTGG	0.453													24	96	---	---	---	---	PASS	T	37678878	T	T	37678878	3	4	177	1	0	0	0	0	1	0	0	0	3951	1368	48	3	501	3	CSNK1A1L	13	37678878	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	12393882	37678878	77491000	353	62813										
AKAP11	11215	broad.mit.edu	37	chr13	42877103	42877103	+	Missense_Mutation	SNP	G	T	T													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcacaagtgaaaacaaacaaGgaactgttaatgttttcaaa							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:42877103G>T	uc001uys.1	+	8	4396	c.4221G>T	c.(4219-4221)AAG>AAT	p.K1407N		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	1407					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		AAACAAACAAGGAACTGTTAA	0.368													13	34	---	---	---	---	PASS	T	42877103	T	T	42877103	3	4	177	1	0	0	0	0	1	0	0	0	447	991	35	3	4243	3	AKAP11	13	42877103	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	5198225	42877103	72292775	354	62814	1080	2								
AKAP11	11215	broad.mit.edu	37	chr13	42877104	42877104	+	Nonsense_Mutation	SNP	G	T	T													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cacaagtgaaaacaaacaagGaactgttaatgttttcaaac							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:42877104G>T	uc001uys.1	+	8	4397	c.4222G>T	c.(4222-4224)GAA>TAA	p.E1408*		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	1408					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		AACAAACAAGGAACTGTTAAT	0.363													11	35	---	---	---	---	PASS	T	42877104	T	T	42877104	4	4	177	1	0	0	0	0	0	1	0	0	447	1175	41	2	4244	2	AKAP11	13	42877104	Nonsense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1	42877104	72292774	355	62815	1080	2								
UTP14C	9724	broad.mit.edu	37	chr13	52604567	52604567	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cagagaggaccccaaataatCggcctgatgcccctaaggag	11	12	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:52604567C>T	uc001vgb.2	+	2	2162	c.1627C>T	c.(1627-1629)CGG>TGG	p.R543W	UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	543					cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)		CCCAAATAATCGGCCTGATGC	0.483													8	142	---	---	---	---	PASS	T	52604567	T	T	52604567	3	4	177	1	0	0	0	0	1	0	0	0	17093	875	31	2	1629	2	UTP14C	13	52604567	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	9727463	52604567	62565311	356	62816										
KLHL1	57626	broad.mit.edu	37	chr13	70293558	70293558	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aagcaggagcatcatgacctCctactgcataaagaaaaccg	8	11	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:70293558C>A	uc001vip.2	-	9	2752	c.1958G>T	c.(1957-1959)GGA>GTA	p.G653V	KLHL1_uc010thm.1_Missense_Mutation_p.G592V	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	653	Kelch 5.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		ATCATGACCTCCTACTGCATA	0.473													19	76	---	---	---	---	PASS	A	70293558	A	A	70293558	3	1	177	1	0	0	0	0	1	0	0	0	8365	855	30	2	300	2	KLHL1	13	70293558	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	17688991	70293558	44876320	357	62817										
KLF5	688	broad.mit.edu	37	chr13	73636112	73636112	+	Silent	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtcgtagaccagttcttcacTgacactgaagggttacctta	9	10	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:73636112T>G	uc001vje.2	+	2	699	c.375T>G	c.(373-375)ACT>ACG	p.T125T	KLF5_uc001vjd.2_Silent_p.T34T	NM_001730	NP_001721	Q13887	KLF5_HUMAN	Kruppel-like factor 5	125					transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|pancreas(1)	3		Prostate(6;0.00187)|Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.0011)		AGTTCTTCACTGACACTGAAG	0.468													40	158	---	---	---	---	PASS	G	73636112	G	G	73636112	2	3	177	1	0	0	0	0	0	0	0	1	8349	1567	55	5		5	KLF5	13	73636112	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	3342554	73636112	41533766	358	62818										
GPR183	1880	broad.mit.edu	37	chr13	99948125	99948125	+	Missense_Mutation	SNP	G	T	T													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttctccagtcaaagcccattGcatagtaggctattcgtgta							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:99948125G>T	uc001vog.2	-	2	449	c.275C>A	c.(274-276)GCA>GAA	p.A92E	UBAC2_uc001voa.3_Intron|UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron	NM_004951	NP_004942	P32249	GP183_HUMAN	EBV-induced G protein-coupled receptor 2	92	Helical; Name=2; (Potential).				humoral immune response|mature B cell differentiation involved in immune response	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0						AAAGCCCATTGCATAGTAGGC	0.413													14	59	---	---	---	---	PASS	T	99948125	T	T	99948125	3	4	177	1	0	0	0	0	1	0	0	0	6678	1319	46	3	814	3	GPR183	13	99948125	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	26312013	99948125	15221753	359	62819	1081	2								
GPR183	1880	broad.mit.edu	37	chr13	99948126	99948126	+	Missense_Mutation	SNP	C	T	T													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tctccagtcaaagcccattgCatagtaggctattcgtgtag							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:99948126C>T	uc001vog.2	-	2	448	c.274G>A	c.(274-276)GCA>ACA	p.A92T	UBAC2_uc001voa.3_Intron|UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron	NM_004951	NP_004942	P32249	GP183_HUMAN	EBV-induced G protein-coupled receptor 2	92	Helical; Name=2; (Potential).				humoral immune response|mature B cell differentiation involved in immune response	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0						AAGCCCATTGCATAGTAGGCT	0.408													13	59	---	---	---	---	PASS	T	99948126	T	T	99948126	3	4	177	1	0	0	0	0	1	0	0	0	6678	710	25	3	815	3	GPR183	13	99948126	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	1	99948126	15221752	360	62820	1081	2								
ITGBL1	9358	broad.mit.edu	37	chr13	102250553	102250553	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	actgcaaagcaggctggtatGggaagaagtgtgagcaccca	14	8	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:102250553G>T	uc001vpb.2	+	7	1138	c.919G>T	c.(919-921)GGG>TGG	p.G307W	ITGBL1_uc010agb.2_Missense_Mutation_p.G258W|ITGBL1_uc001vpc.3_Missense_Mutation_p.G166W	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	307	VI.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGGCTGGTATGGGAAGAAGTG	0.493													18	37	---	---	---	---	PASS	T	102250553	T	T	102250553	3	4	177	1	0	0	0	0	1	0	0	0	7902	1348	47	3	945	3	ITGBL1	13	102250553	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2302427	102250553	12919325	361	62821										
LIG4	3981	broad.mit.edu	37	chr13	108863160	108863160	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	attattgctggcaattgagtCtaaaaggtcgtttacttgct	9	6	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:108863160C>A	uc001vqn.2	-	2	730	c.457G>T	c.(457-459)GAC>TAC	p.D153Y	LIG4_uc001vqo.2_Missense_Mutation_p.D153Y|LIG4_uc010agg.1_Missense_Mutation_p.D86Y|LIG4_uc010agf.2_Missense_Mutation_p.D153Y|LIG4_uc001vqp.2_Missense_Mutation_p.D153Y	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	153					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					GCAATTGAGTCTAAAAGGTCG	0.368								NHEJ					17	106	---	---	---	---	PASS	A	108863160	A	A	108863160	3	1	177	1	0	0	0	0	1	0	0	0	8783	913	32	2	2282	2	LIG4	13	108863160	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	6612607	108863160	6306718	362	62822										
TNFSF13B	10673	broad.mit.edu	37	chr13	108955864	108955864	+	Silent	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cagaggaagaaggtccatgtCtttggggatgaattgagtct	14	5	2	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:108955864C>G	uc001vqr.2	+	5	924	c.657C>G	c.(655-657)GTC>GTG	p.V219V	TNFSF13B_uc010agj.2_Silent_p.V200V	NM_006573	NP_006564	Q9Y275	TN13B_HUMAN	tumor necrosis factor superfamily, member 13b	219	Extracellular (Potential).				cell proliferation|immune response|signal transduction	extracellular space|integral to membrane|plasma membrane|soluble fraction	cytokine activity|tumor necrosis factor receptor binding				0	all_lung(23;0.000396)|all_neural(89;0.00256)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00902)|Lung SC(71;0.104)		all cancers(43;0.184)|BRCA - Breast invasive adenocarcinoma(86;0.19)			AGGTCCATGTCTTTGGGGATG	0.368													33	68	---	---	---	---	PASS	G	108955864	G	G	108955864	2	3	177	1	0	0	0	0	0	0	0	1	16303	900	32	2		2	TNFSF13B	13	108955864	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	92704	108955864	6214014	363	62823										
COL4A2	1284	broad.mit.edu	37	chr13	111114723	111114723	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atggattccccggcctcccaGgccctcccgtgagtagccac	10	18	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:111114723G>T	uc001vqx.2	+	24	2057	c.1768G>T	c.(1768-1770)GGC>TGC	p.G590C		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	590	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			CGGCCTCCCAGGCCCTCCCGT	0.622													8	35	---	---	---	---	PASS	T	111114723	T	T	111114723	3	4	177	1	0	0	0	0	1	0	0	0	3690	1000	35	3	1858	3	COL4A2	13	111114723	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2158859	111114723	4055155	364	62824										
F10	2159	broad.mit.edu	37	chr13	113803481	113803481	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gcacccacgagaagggccggCagtccaccaggctcaagatg	13	14	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:113803481C>A	uc001vsx.2	+	8	1174	c.1117C>A	c.(1117-1119)CAG>AAG	p.Q373K	F10_uc001vsy.2_3'UTR|F10_uc001vsz.2_3'UTR	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	373	Peptidase S1.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	GAAGGGCCGGCAGTCCACCAG	0.642													19	39	---	---	---	---	PASS	A	113803481	A	A	113803481	3	1	177	1	0	0	0	0	1	0	0	0	5336	711	25	3	1147	3	F10	13	113803481	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2688758	113803481	1366397	365	62825										
RASA3	22821	broad.mit.edu	37	chr13	114758029	114758029	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tacgctccgtctcacggtccCcatcaatgtccagctggatg	9	15	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr13:114758029C>T	uc001vui.2	-	22	2308	c.2177G>A	c.(2176-2178)GGG>GAG	p.G726E	RASA3_uc010tkk.1_Missense_Mutation_p.G694E|RASA3_uc001vuj.2_Missense_Mutation_p.G343E	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	726					intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			CTCACGGTCCCCATCAATGTC	0.493													7	33	---	---	---	---	PASS	T	114758029	T	T	114758029	3	4	177	1	0	0	0	0	1	0	0	0	13062	623	22	3	339	3	RASA3	13	114758029	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	954548	114758029	411849	366	62826										
METTL3	56339	broad.mit.edu	37	chr14	21979304	21979304	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gcttccgcctccgctgcagcCtctcccgcagagagtccagc	10	19	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:21979304C>A	uc001wbc.2	-	1	154	c.62G>T	c.(61-63)AGG>ATG	p.R21M	METTL3_uc010tlw.1_RNA|METTL3_uc010tlx.1_Missense_Mutation_p.R21M|METTL3_uc001wbd.1_Missense_Mutation_p.R21M	NM_019852	NP_062826	Q86U44	MTA70_HUMAN	methyltransferase like 3	21					gene expression	nuclear speck	mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity|RNA binding			pancreas(1)|skin(1)	2	all_cancers(95;0.000628)		Epithelial(56;6.61e-06)	GBM - Glioblastoma multiforme(265;0.0146)		CCGCTGCAGCCTCTCCCGCAG	0.652													6	11	---	---	---	---	PASS	A	21979304	A	A	21979304	3	1	177	1	0	0	0	0	1	0	0	0	9501	681	24	3	1724	3	METTL3	14	21979304	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08		21979304	85370236	367	62827										
MYH6	4624	broad.mit.edu	37	chr14	23866020	23866020	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atggccactgggttcaggatGcgatacctgaggagggaagt	16	7	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:23866020G>A	uc001wjv.2	-	19	2242	c.2175C>T	c.(2173-2175)CGC>CGT	p.R725R		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	725	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GGTTCAGGATGCGATACCTGA	0.542													21	40	---	---	---	---	PASS	A	23866020	A	A	23866020	2	1	177	1	0	0	0	0	0	0	0	1	10038	1306	46	3		3	MYH6	14	23866020	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	1886716	23866020	83483520	368	62828										
RNF31	55072	broad.mit.edu	37	chr14	24626791	24626791	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gctgcatgcactttcactgtAcccagtgccgccaccagttc	8	16	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:24626791A>T	uc001wmn.1	+	16	2920	c.2671A>T	c.(2671-2673)ACC>TCC	p.T891S	RNF31_uc001wml.1_Missense_Mutation_p.T740S|RNF31_uc010alg.1_Missense_Mutation_p.T650S|RNF31_uc001wmo.1_Missense_Mutation_p.T358S|RNF31_uc001wmp.2_RNA|RNF31_uc010alh.1_Missense_Mutation_p.T75S	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	891	IBR-type 2.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		CTTTCACTGTACCCAGTGCCG	0.602													43	109	---	---	---	---	PASS	T	24626791	T	T	24626791	3	4	177	1	0	0	0	0	1	0	0	0	13487	391	14	5	2733	5	RNF31	14	24626791	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	760771	24626791	82722749	369	62829										
NYNRIN	57523	broad.mit.edu	37	chr14	24877435	24877435	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agctgcccccagcggtccagGagctgctgctgagcctggtg	15	14	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:24877435G>T	uc001wpf.3	+	3	877	c.559G>T	c.(559-561)GAG>TAG	p.E187*		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	187					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						AGCGGTCCAGGAGCTGCTGCT	0.657													3	5	---	---	---	---	PASS	T	24877435	T	T	24877435	4	4	177	1	0	0	0	0	0	1	0	0	10796	1175	41	2	565	2	NYNRIN	14	24877435	Nonsense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	250644	24877435	82472105	370	62830										
MDGA2	161357	broad.mit.edu	37	chr14	47566248	47566248	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtgcaggctctcctcctgttGtaacacatactaatgttatg	8	10	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:47566248G>A	uc001wwj.3	-	6	993	c.797C>T	c.(796-798)ACA>ATA	p.T266I	MDGA2_uc001wwi.3_Missense_Mutation_p.T37I|MDGA2_uc010ani.2_5'UTR	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	266	Ig-like 3.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						TCCTCCTGTTGTAACACATAC	0.443													25	87	---	---	---	---	PASS	A	47566248	A	A	47566248	3	1	177	1	0	0	0	0	1	0	0	0	9407	1377	48	3	2121	3	MDGA2	14	47566248	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	22688813	47566248	59783292	371	62831										
SMOC1	64093	broad.mit.edu	37	chr14	70444656	70444656	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttcagtcaccgacaagccctTgagccagggtaactcaggaa	10	12	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:70444656T>A	uc001xls.1	+	5	753	c.500T>A	c.(499-501)TTG>TAG	p.L167*	SMOC1_uc001xlt.1_Nonsense_Mutation_p.L167*	NM_022137	NP_071420	Q9H4F8	SMOC1_HUMAN	secreted modular calcium-binding protein 1	167					cell differentiation|eye development|limb development|regulation of osteoblast differentiation|signal transduction	basement membrane	calcium ion binding			upper_aerodigestive_tract(1)|pancreas(1)	2				all cancers(60;0.00417)|BRCA - Breast invasive adenocarcinoma(234;0.0119)|OV - Ovarian serous cystadenocarcinoma(108;0.028)		GACAAGCCCTTGAGCCAGGGT	0.433													19	50	---	---	---	---	PASS	A	70444656	A	A	70444656	4	1	177	1	0	0	0	0	0	1	0	0	14801	1821	63	5	518	5	SMOC1	14	70444656	Nonsense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	22878408	70444656	36904884	372	62832										
ADAM20	8748	broad.mit.edu	37	chr14	70990987	70990987	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtggaaactgtgtatcatcaCtgtctatcttatatactagg	8	7	4	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:70990987C>A	uc001xme.2	-	2	883	c.638G>T	c.(637-639)AGT>ATT	p.S213I		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	163					proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		TGTATCATCACTGTCTATCTT	0.378													16	64	---	---	---	---	PASS	A	70990987	A	A	70990987	3	1	177	1	0	0	0	0	1	0	0	0	242	565	20	3	1696	3	ADAM20	14	70990987	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	546331	70990987	36358553	373	62833										
ADAM20	8748	broad.mit.edu	37	chr14	70991078	70991078	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atttatctgtagcattccaaGaaagcccccagaacaggtac	7	11	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:70991078G>C	uc001xme.2	-	2	792	c.547C>G	c.(547-549)CTT>GTT	p.L183V		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	133					proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		AGCATTCCAAGAAAGCCCCCA	0.448													18	61	---	---	---	---	PASS	C	70991078	C	C	70991078	3	2	177	1	0	0	0	0	1	0	0	0	242	942	33	2	1787	2	ADAM20	14	70991078	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	91	70991078	36358462	374	62834										
YLPM1	56252	broad.mit.edu	37	chr14	75276445	75276445	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccagtgcctatgggtatgccAccaatgtccaagccaccacc	8	16	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:75276445A>T	uc001xqj.3	+	7	5008	c.4884A>T	c.(4882-4884)CCA>CCT	p.P1628P	YLPM1_uc001xql.3_RNA|YLPM1_uc001xqm.1_Silent_p.P111P	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1433					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		TGGGTATGCCACCAATGTCCA	0.493													9	39	---	---	---	---	PASS	T	75276445	T	T	75276445	2	4	177	1	0	0	0	0	0	0	0	1	17483	146	6	5		5	YLPM1	14	75276445	Silent	SNP	A	TCGA-85-6560-01A-11D-1817-08	4285367	75276445	32073095	375	62835										
TSHR	7253	broad.mit.edu	37	chr14	81609986	81609986	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gccatcaccttcgccatgcgCctggaccggaagatccgcct	10	17	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:81609986C>A	uc001xvd.1	+	10	1740	c.1584C>A	c.(1582-1584)CGC>CGA	p.R528R		NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	528	Cytoplasmic (Potential).		R -> H.	R -> A (in Ref. 4; AAA70232).	cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	TCGCCATGCGCCTGGACCGGA	0.567			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						14	37	---	---	---	---	PASS	A	81609986	A	A	81609986	2	1	177	1	0	0	0	0	0	0	0	1	16619	726	26	3		3	TSHR	14	81609986	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	6333541	81609986	25739554	376	62836										
SLC24A4	123041	broad.mit.edu	37	chr14	92949175	92949175	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggatcgctgtgttctcctaCatcatggtgtggctggtgag	14	8	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:92949175C>A	uc001yak.2	+	13	1380	c.1356C>A	c.(1354-1356)TAC>TAA	p.Y452*	SLC24A4_uc001yai.2_Nonsense_Mutation_p.Y405*|SLC24A4_uc010twm.1_Nonsense_Mutation_p.Y450*|SLC24A4_uc001yaj.2_Nonsense_Mutation_p.Y433*|SLC24A4_uc010auj.2_Nonsense_Mutation_p.Y341*|SLC24A4_uc010twn.1_Nonsense_Mutation_p.Y225*|SLC24A4_uc001yan.2_Nonsense_Mutation_p.Y163*	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	469	Helical; (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		TGTTCTCCTACATCATGGTGT	0.433													12	33	---	---	---	---	PASS	A	92949175	A	A	92949175	4	1	177	1	0	0	0	0	0	1	0	0	14468	489	17	3	1406	3	SLC24A4	14	92949175	Nonsense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	11339189	92949175	14400365	377	62837										
TECPR2	9895	broad.mit.edu	37	chr14	102900620	102900620	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctccctggaatcgacaccctGctccgaatttcctggggaca	9	15	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:102900620G>C	uc001ylw.1	+	9	1614	c.1466G>C	c.(1465-1467)TGC>TCC	p.C489S	TECPR2_uc010awl.2_Missense_Mutation_p.C489S|TECPR2_uc010txx.1_Intron	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	489							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						TCGACACCCTGCTCCGAATTT	0.488													17	54	---	---	---	---	PASS	C	102900620	C	C	102900620	3	2	177	1	0	0	0	0	1	0	0	0	15741	1319	46	4	1496	4	TECPR2	14	102900620	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	9951445	102900620	4448920	378	62838										
PLD4	122618	broad.mit.edu	37	chr14	105398141	105398141	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cgggacctggaggcgctgctGgcggtgatggggagcgccca	20	11	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:105398141G>A	uc001ypu.1	+	8	1116	c.975G>A	c.(973-975)CTG>CTA	p.L325L	PLD4_uc010tyl.1_Silent_p.L332L	NM_138790	NP_620145	Q96BZ4	PLD4_HUMAN	phospholipase D4	325					lipid catabolic process	integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity			central_nervous_system(1)|skin(1)	2		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.00067)|OV - Ovarian serous cystadenocarcinoma(23;0.00976)|Epithelial(46;0.0201)|GBM - Glioblastoma multiforme(11;0.116)		Choline(DB00122)	AGGCGCTGCTGGCGGTGATGG	0.667													6	9	---	---	---	---	PASS	A	105398141	A	A	105398141	2	1	177	1	0	0	0	0	0	0	0	1	12048	1335	47	3		3	PLD4	14	105398141	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	2497521	105398141	1951399	379	62839										
AHNAK2	113146	broad.mit.edu	37	chr14	105420486	105420486	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgggccctgggcttcctctgGgccactgctgtctcctgtgc	13	15	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr14:105420486G>T	uc010axc.1	-	7	1422	c.1302C>A	c.(1300-1302)GCC>GCA	p.A434A	AHNAK2_uc001ypx.2_Silent_p.A334A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	434						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)			GCTTCCTCTGGGCCACTGCTG	0.637													17	60	---	---	---	---	PASS	T	105420486	T	T	105420486	2	4	177	1	0	0	0	0	0	0	0	1	415	1219	43	3		3	AHNAK2	14	105420486	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	22345	105420486	1929054	380	62840										
TUBGCP5	114791	broad.mit.edu	37	chr15	22868841	22868841	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttttatctttctcttccaagAttctacacagtacagggctg	6	10	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr15:22868841A>G	uc001yur.3	+	20	2843	c.2713A>G	c.(2713-2715)ATT>GTT	p.I905V	TUBGCP5_uc001yuq.2_Missense_Mutation_p.I905V	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	905					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		CTCTTCCAAGATTCTACACAG	0.388													18	40	---	---	---	---	PASS	G	22868841	G	G	22868841	3	3	177	1	0	0	0	0	1	0	0	0	16766	347	12	5	2791	5	TUBGCP5	15	22868841	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08		22868841	79662551	381	62841										
GABRB3	2562	broad.mit.edu	37	chr15	26828552	26828552	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tccatcatgcatgctgctgtCgtggtgattctgaaatacac	9	10	2	2	rs143528720	byFrequency	TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr15:26828552C>G	uc001zaz.2	-	5	613	c.471G>C	c.(469-471)ACG>ACC	p.T157T	GABRB3_uc010uae.1_Silent_p.T72T|GABRB3_uc001zba.2_Silent_p.T157T|GABRB3_uc001zbb.2_Silent_p.T213T	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	157	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	ATGCTGCTGTCGTGGTGATTC	0.473													35	40	---	---	---	---	PASS	G	26828552	G	G	26828552	2	3	177	1	0	0	0	0	0	0	0	1	6168	871	31	2		2	GABRB3	15	26828552	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	3959711	26828552	75702840	382	62842										
USP8	9101	broad.mit.edu	37	chr15	50786304	50786304	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ataaaggtgaagtggcagaaGaatttggtataatcatgaaa	11	2	1	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr15:50786304G>C	uc001zym.3	+	17	2985	c.2485G>C	c.(2485-2487)GAA>CAA	p.E829Q	USP8_uc001zyl.3_Missense_Mutation_p.E829Q|USP8_uc001zyn.3_Missense_Mutation_p.E829Q|USP8_uc010ufh.1_Missense_Mutation_p.E723Q|uc001zyo.1_RNA|USP8_uc001zyp.3_5'UTR	NM_001128611	NP_001122083	P40818	UBP8_HUMAN	ubiquitin specific peptidase 8	829					cell cycle|cell proliferation|endosome organization|protein K48-linked deubiquitination|protein K63-linked deubiquitination|ubiquitin-dependent protein catabolic process	cytosol|early endosome|extrinsic to plasma membrane|nucleus	cysteine-type endopeptidase activity|SH3 domain binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)|central_nervous_system(1)	2				all cancers(107;0.000225)|GBM - Glioblastoma multiforme(94;0.000771)		AGTGGCAGAAGAATTTGGTAT	0.363													27	91	---	---	---	---	PASS	C	50786304	C	C	50786304	3	2	177	1	0	0	0	0	1	0	0	0	17086	943	33	2	2543	2	USP8	15	50786304	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	23957752	50786304	51745088	383	62843										
TMOD2	29767	broad.mit.edu	37	chr15	52098581	52098581	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cacctgcaaccagaggcagcAgttgggaacagctgtagaga	13	10	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr15:52098581A>C	uc002abk.2	+	9	1105	c.884A>C	c.(883-885)CAG>CCG	p.Q295P	TMOD2_uc002abl.3_Missense_Mutation_p.Q259P|TMOD2_uc010bfb.2_Missense_Mutation_p.Q251P	NM_014548	NP_055363	Q9NZR1	TMOD2_HUMAN	neuronal tropomodulin isoform a	295					nervous system development	cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(2)	2				all cancers(107;0.00435)		CAGAGGCAGCAGTTGGGAACA	0.488													19	22	---	---	---	---	PASS	C	52098581	C	C	52098581	3	2	177	1	0	0	0	0	1	0	0	0	16231	188	7	5	914	5	TMOD2	15	52098581	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	1312277	52098581	50432811	384	62844										
AAGAB	79719	broad.mit.edu	37	chr15	67524205	67524205	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cattcagggcttggacaattCgctttactcctgtagattct	8	10	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr15:67524205C>T	uc002aqk.3	-	5	587	c.482G>A	c.(481-483)CGA>CAA	p.R161Q	AAGAB_uc002aql.2_Missense_Mutation_p.R52Q|AAGAB_uc010uju.1_Missense_Mutation_p.R52Q	NM_024666	NP_078942	Q6PD74	AAGAB_HUMAN	alpha- and gamma-adaptin-binding protein p34	161					protein transport	cytoplasm					0						TTGGACAATTCGCTTTACTCC	0.373													66	196	---	---	---	---	PASS	T	67524205	T	T	67524205	3	4	177	1	0	0	0	0	1	0	0	0	15	884	31	2	489	2	AAGAB	15	67524205	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	15425624	67524205	35007187	385	62845										
LRRC49	54839	broad.mit.edu	37	chr15	71272438	71272438	+	Splice_Site	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cttttcggaaaatgtcttttAggaagaagaaaggcgtatgg	12	4	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr15:71272438A>T	uc002asw.2	+	10	1169	c.922_splice	c.e10-2	p.E308_splice	LRRC49_uc002asu.2_Splice_Site_p.E298_splice|LRRC49_uc002asx.2_Splice_Site_p.E264_splice|LRRC49_uc010ukf.1_Splice_Site_p.E313_splice|LRRC49_uc002asy.2_Splice_Site_p.E14_splice|LRRC49_uc002asz.2_Splice_Site_p.E280_splice	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49							cytoplasm|microtubule				ovary(1)	1						AATGTCTTTTAGGAAGAAGAA	0.343													44	41	---	---	---	---	PASS	T	71272438	T	T	71272438	5	4	177	1	0	0	0	0	0	0	1	0	9006	434	15	5	958	5	LRRC49	15	71272438	Splice_Site	SNP	A	TCGA-85-6560-01A-11D-1817-08	3748233	71272438	31258954	386	62846										
TMEM202	338949	broad.mit.edu	37	chr15	72700065	72700065	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tctcaactacttaacttccaGatcgcctgcctgtgatgaaa	6	12	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr15:72700065G>T	uc002auq.2	+	5	653	c.653G>T	c.(652-654)AGA>ATA	p.R218I	TMEM202_uc002aur.2_RNA	NM_001080462	NP_001073931	A6NGA9	TM202_HUMAN	transmembrane protein 202	218						integral to membrane				central_nervous_system(1)|skin(1)	2						TTAACTTCCAGATCGCCTGCC	0.448													42	40	---	---	---	---	PASS	T	72700065	T	T	72700065	3	4	177	1	0	0	0	0	1	0	0	0	16124	942	33	2	671	2	TMEM202	15	72700065	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1427627	72700065	29831327	387	62847										
AGBL1	123624	broad.mit.edu	37	chr15	86807771	86807771	+	Missense_Mutation	SNP	C	A	A													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	attcttctgaaagtgaaatcCctgacattcaggcttccccg							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr15:86807771C>A	uc002blz.1	+	10	1311	c.1231C>A	c.(1231-1233)CCT>ACT	p.P411T	AGBL1_uc002bma.1_Missense_Mutation_p.P142T|AGBL1_uc002bmb.1_Missense_Mutation_p.P105T	NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	411					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						AAGTGAAATCCCTGACATTCA	0.458													50	58	---	---	---	---	PASS	A	86807771	A	A	86807771	3	1	177	1	0	0	0	0	1	0	0	0	375	623	22	3	1265	3	AGBL1	15	86807771	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	14107706	86807771	15723621	388	62848	1082	2								
AGBL1	123624	broad.mit.edu	37	chr15	86807772	86807772	+	Missense_Mutation	SNP	C	A	A													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttcttctgaaagtgaaatccCtgacattcaggcttccccga							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr15:86807772C>A	uc002blz.1	+	10	1312	c.1232C>A	c.(1231-1233)CCT>CAT	p.P411H	AGBL1_uc002bma.1_Missense_Mutation_p.P142H|AGBL1_uc002bmb.1_Missense_Mutation_p.P105H	NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	411					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						AGTGAAATCCCTGACATTCAG	0.453													52	57	---	---	---	---	PASS	A	86807772	A	A	86807772	3	1	177	1	0	0	0	0	1	0	0	0	375	681	24	3	1266	3	AGBL1	15	86807772	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	1	86807772	15723620	389	62849	1082	2								
AGBL1	123624	broad.mit.edu	37	chr15	86807907	86807907	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agataagcttctgcagacacAtctgaagcgtgtccctttcc	8	12	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr15:86807907A>C	uc002blz.1	+	10	1447	c.1367A>C	c.(1366-1368)CAT>CCT	p.H456P	AGBL1_uc002bma.1_Missense_Mutation_p.H187P|AGBL1_uc002bmb.1_Missense_Mutation_p.H150P	NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	456					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						CTGCAGACACATCTGAAGCGT	0.448													44	138	---	---	---	---	PASS	C	86807907	C	C	86807907	3	2	177	1	0	0	0	0	1	0	0	0	375	217	8	5	1401	5	AGBL1	15	86807907	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	135	86807907	15723485	390	62850										
ANPEP	290	broad.mit.edu	37	chr15	90349346	90349346	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	caccaggtactcggtgggctCcaccagctcagtcttgtcaa	10	14	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr15:90349346C>G	uc002bop.3	-	2	761	c.469G>C	c.(469-471)GAG>CAG	p.E157Q		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	157	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	TCGGTGGGCTCCACCAGCTCA	0.617													34	33	---	---	---	---	PASS	G	90349346	G	G	90349346	3	3	177	1	0	0	0	0	1	0	0	0	710	864	30	2	2514	2	ANPEP	15	90349346	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	3541439	90349346	12182046	391	62851										
ASB7	140460	broad.mit.edu	37	chr15	101169888	101169888	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cagtgataaaggtaccacacCgcttcagctcgccattatcc	7	14	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr15:101169888C>T	uc002bwk.2	+	5	1227	c.458C>T	c.(457-459)CCG>CTG	p.P153L	ASB7_uc002bwj.2_Missense_Mutation_p.P153L	NM_198243	NP_937886	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box-containing protein 7	153	ANK 5.				intracellular signal transduction					skin(1)	1	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			GGTACCACACCGCTTCAGCTC	0.537													8	53	---	---	---	---	PASS	T	101169888	T	T	101169888	3	4	177	1	0	0	0	0	1	0	0	0	1028	652	23	1	464	1	ASB7	15	101169888	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	10820542	101169888	1361504	392	62852										
C16orf11	146325	broad.mit.edu	37	chr16	613551	613551	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctccaccacgcctaggccccAcgcacccaccccagaccgcc	6	25	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:613551A>T	uc002chk.2	+	2	536	c.257A>T	c.(256-258)CAC>CTC	p.H86L		NM_145270	NP_660313	P0CG20	CP011_HUMAN	hypothetical protein LOC146325	86	Pro-rich.									central_nervous_system(1)	1						CCTAGGCCCCACGCACCCACC	0.701													9	16	---	---	---	---	PASS	T	613551	T	T	613551	3	4	177	1	0	0	0	0	1	0	0	0	1810	159	6	5	259	5	C16orf11	16	613551	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08		613551	89741202	393	62853										
NLRC3	197358	broad.mit.edu	37	chr16	3614973	3614973	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgagggctttcacctgctcgGctggggagcccgtaccgtgg	16	12	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:3614973G>T	uc010btn.2	-	4	476	c.65C>A	c.(64-66)GCC>GAC	p.A22D		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	22					I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						CACCTGCTCGGCTGGGGAGCC	0.682													26	16	---	---	---	---	PASS	T	3614973	T	T	3614973	3	4	177	1	0	0	0	0	1	0	0	0	10468	1203	42	3	3201	3	NLRC3	16	3614973	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	3001422	3614973	86739780	394	62854										
SMG1	23049	broad.mit.edu	37	chr16	18893616	18893616	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aatgacactgatggaggaggGacatcttcatccactgattc	10	9	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:18893616G>A	uc002dfm.2	-	10	1527	c.1164C>T	c.(1162-1164)GTC>GTT	p.V388V	SMG1_uc010bwb.2_Silent_p.V248V	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	388	Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						ATGGAGGAGGGACATCTTCAT	0.458													12	29	---	---	---	---	PASS	A	18893616	A	A	18893616	2	1	177	1	0	0	0	0	0	0	0	1	14795	1161	41	2		2	SMG1	16	18893616	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	15278643	18893616	71461137	395	62855										
PDILT	204474	broad.mit.edu	37	chr16	20370847	20370847	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cacctccttttcctcagctaGcacttcctcttctatcactt	2	17	4	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:20370847G>A	uc002dhc.1	-	12	1772	c.1549C>T	c.(1549-1551)CTA>TTA	p.L517L		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	517					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						TCCTCAGCTAGCACTTCCTCT	0.368													11	122	---	---	---	---	PASS	A	20370847	A	A	20370847	2	1	177	1	0	0	0	0	0	0	0	1	11674	962	34	3		3	PDILT	16	20370847	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	1477231	20370847	69983906	396	62856										
PDILT	204474	broad.mit.edu	37	chr16	20396046	20396046	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttggtaatcccaaactcctgCtgaagctccttctctatggt	7	12	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:20396046C>T	uc002dhc.1	-	3	553	c.330G>A	c.(328-330)CAG>CAA	p.Q110Q		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	110					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						CAAACTCCTGCTGAAGCTCCT	0.517													9	381	---	---	---	---	PASS	T	20396046	T	T	20396046	2	4	177	1	0	0	0	0	0	0	0	1	11674	796	28	3		3	PDILT	16	20396046	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	25199	20396046	69958707	397	62857										
EARS2	124454	broad.mit.edu	37	chr16	23535723	23535723	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccaccttctggatccgttccCgtacttcctttggtcccaag	7	16	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:23535723C>T	uc002dlt.3	-	9	1573	c.1541G>A	c.(1540-1542)CGG>CAG	p.R514Q	EARS2_uc002dlr.3_RNA|EARS2_uc002dls.3_RNA	NM_001083614	NP_001077083	Q5JPH6	SYEM_HUMAN	glutamyl-tRNA synthetase 2 precursor	514					glutamyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|glutamate-tRNA ligase activity|RNA binding				0				GBM - Glioblastoma multiforme(48;0.0353)	L-Glutamic Acid(DB00142)	GATCCGTTCCCGTACTTCCTT	0.483													30	215	---	---	---	---	PASS	T	23535723	T	T	23535723	3	4	177	1	0	0	0	0	1	0	0	0	4878	652	23	1	34	1	EARS2	16	23535723	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	3139677	23535723	66819030	398	62858										
CCDC101	112869	broad.mit.edu	37	chr16	28601690	28601690	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctggagacaaggtggctgccCgggtgaaggccgtggatggg	20	8	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:28601690C>T	uc002dqf.2	+	7	678	c.493C>T	c.(493-495)CGG>TGG	p.R165W	uc010vct.1_Intron	NM_138414	NP_612423	Q96ES7	SGF29_HUMAN	coiled-coil domain containing 101	165	SGF29 C-terminal.				establishment of protein localization to chromatin|histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ada2/Gcn5/Ada3 transcription activator complex|SAGA-type complex	methylated histone residue binding			central_nervous_system(1)	1						GGTGGCTGCCCGGGTGAAGGC	0.637													5	31	---	---	---	---	PASS	T	28601690	T	T	28601690	3	4	177	1	0	0	0	0	1	0	0	0	2735	643	23	1	515	1	CCDC101	16	28601690	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	5065967	28601690	61753063	399	62859										
VPS35	55737	broad.mit.edu	37	chr16	46697028	46697028	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcaaagcactgatagtctggTgggcaaatgaaaaaatcttc	9	7	3	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:46697028T>C	uc002eef.3	-	14	1793	c.1694A>G	c.(1693-1695)CAC>CGC	p.H565R	VPS35_uc002eed.2_Missense_Mutation_p.H386R|VPS35_uc002eee.2_Missense_Mutation_p.H526R	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	565					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				GATAGTCTGGTGGGCAAATGA	0.358													15	36	---	---	---	---	PASS	C	46697028	C	C	46697028	3	2	177	1	0	0	0	0	1	0	0	0	17200	1696	59	5	712	5	VPS35	16	46697028	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	18095338	46697028	43657725	400	62860										
C16orf57	79650	broad.mit.edu	37	chr16	58054050	58054050	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggctgctgttttaaggcaatCgtggatgggtttgaagatgc	15	5	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:58054050C>G	uc002emz.2	+	7	782	c.699C>G	c.(697-699)ATC>ATG	p.I233M	C16orf57_uc010vib.1_Missense_Mutation_p.I215M	NM_024598	NP_078874	Q9BQ65	CP057_HUMAN	hypothetical protein LOC79650	233											0						TTAAGGCAATCGTGGATGGGT	0.542													12	46	---	---	---	---	PASS	G	58054050	G	G	58054050	3	3	177	1	0	0	0	0	1	0	0	0	1821	874	31	2	725	2	C16orf57	16	58054050	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	11357022	58054050	32300703	401	62861										
CMTM3	123920	broad.mit.edu	37	chr16	66643809	66643809	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tttggcttctttgctaccatCgtgtttgcaactgatttcta	7	9	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:66643809C>A	uc002epu.2	+	5	682	c.423C>A	c.(421-423)ATC>ATA	p.I141I	CMTM3_uc002epv.2_Silent_p.I141I|CMTM3_uc002epw.2_Silent_p.I141I|CMTM3_uc002epx.2_Silent_p.I141I|CMTM3_uc002epy.2_RNA	NM_001048251	NP_001041716	Q96MX0	CKLF3_HUMAN	chemokine-like factor superfamily 3	141	MARVEL.|Helical; (Potential).				chemotaxis	extracellular space|integral to membrane	cytokine activity			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0671)|Epithelial(162;0.164)		TTGCTACCATCGTGTTTGCAA	0.552													33	46	---	---	---	---	PASS	A	66643809	A	A	66643809	2	1	177	1	0	0	0	0	0	0	0	1	3584	874	31	2		2	CMTM3	16	66643809	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	8589759	66643809	23710944	402	62862										
CMTM4	146223	broad.mit.edu	37	chr16	66655990	66655990	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	caggcgctggatctcagggcGactgtccacatccctggact	12	14	1	0	rs138396334		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:66655990G>T	uc002epz.2	-	4	780	c.598C>A	c.(598-600)CGC>AGC	p.R200S	CMTM4_uc002eqa.2_Missense_Mutation_p.R200S	NM_178818	NP_848933	Q8IZR5	CKLF4_HUMAN	chemokine-like factor superfamily 4 isoform 1	200					chemotaxis	extracellular space|integral to membrane	cytokine activity			pancreas(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0811)|Epithelial(162;0.214)		ATCTCAGGGCGACTGTCCACA	0.592													6	12	---	---	---	---	PASS	T	66655990	T	T	66655990	3	4	177	1	0	0	0	0	1	0	0	0	3585	1058	37	2	118	2	CMTM4	16	66655990	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	12181	66655990	23698763	403	62863										
TRADD	8717	broad.mit.edu	37	chr16	67188723	67188723	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcgtacagtccctcgcgctcGtactcgtaggccagcgagtc	11	15	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:67188723G>A	uc002eri.1	-	5	848	c.768C>T	c.(766-768)TAC>TAT	p.Y256Y	TRADD_uc002erh.1_Silent_p.Y196Y	NM_003789	NP_003780	Q15628	TRADD_HUMAN	TNFRSF1A-associated via death domain	256	Interaction with KRT14 and KRT18.|Death.				activation of caspase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|tumor necrosis factor-mediated signaling pathway	cytoskeleton|cytosol|receptor complex	binding, bridging|death domain binding|identical protein binding|kinase binding|signal transducer activity			lung(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		CCTCGCGCTCGTACTCGTAGG	0.726													3	7	---	---	---	---	PASS	A	67188723	A	A	67188723	2	1	177	1	0	0	0	0	0	0	0	1	16433	1140	40	1		1	TRADD	16	67188723	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	532733	67188723	23166030	404	62864										
RLTPR	146206	broad.mit.edu	37	chr16	67685325	67685325	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttctccccattctatatgaaGctggaagctccccaagccat	6	14	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:67685325G>T	uc002etn.2	+	24	2455	c.2335G>T	c.(2335-2337)GCT>TCT	p.A779S	RLTPR_uc010cel.1_Missense_Mutation_p.A772S|RLTPR_uc010vjr.1_Missense_Mutation_p.A743S|RLTPR_uc010vjs.1_5'Flank	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	779										breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		TCTATATGAAGCTGGAAGCTC	0.582													4	25	---	---	---	---	PASS	T	67685325	T	T	67685325	3	4	177	1	0	0	0	0	1	0	0	0	13394	971	34	3	2429	3	RLTPR	16	67685325	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	496602	67685325	22669428	405	62865										
NFATC3	4775	broad.mit.edu	37	chr16	68156136	68156136	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tattcaaattacatctatctCtcctaactgtcatcaagaat	2	10	5	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:68156136C>G	uc002evo.1	+	2	560	c.350C>G	c.(349-351)TCT>TGT	p.S117C	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Missense_Mutation_p.S117C|NFATC3_uc002evm.1_Missense_Mutation_p.S117C|NFATC3_uc002evn.1_Missense_Mutation_p.S117C|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	117					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		ACATCTATCTCTCCTAACTGT	0.383													18	74	---	---	---	---	PASS	G	68156136	G	G	68156136	3	3	177	1	0	0	0	0	1	0	0	0	10364	913	32	2	356	2	NFATC3	16	68156136	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	470811	68156136	22198617	406	62866										
IL34	146433	broad.mit.edu	37	chr16	70688511	70688511	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggcccttgacgcagaatgaGgagtgcactgtcacgggttt	14	9	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:70688511G>A	uc002ezh.1	+	2	482	c.99G>A	c.(97-99)GAG>GAA	p.E33E	IL34_uc002ezi.1_Silent_p.E33E	NM_152456	NP_689669	Q6ZMJ4	IL34_HUMAN	interleukin 34 precursor	33					positive regulation of cell proliferation|positive regulation of protein phosphorylation	extracellular space	cytokine activity|growth factor activity|macrophage colony-stimulating factor receptor binding			central_nervous_system(1)|skin(1)	2						CGCAGAATGAGGAGTGCACTG	0.577											OREG0023916	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	69	---	---	---	---	PASS	A	70688511	A	A	70688511	2	1	177	1	0	0	0	0	0	0	0	1	7694	991	35	3		3	IL34	16	70688511	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	2532375	70688511	19666242	407	62867										
PHLPP2	23035	broad.mit.edu	37	chr16	71715746	71715746	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcttgactatagaagagatgCtcaggaacctcctcgaggct	10	10	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:71715746C>T	uc002fax.2	-	5	804	c.798G>A	c.(796-798)GAG>GAA	p.E266E	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Silent_p.E266E|PHLPP2_uc002fay.1_Silent_p.E266E	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	266	LRR 1.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						AGAAGAGATGCTCAGGAACCT	0.473													58	86	---	---	---	---	PASS	T	71715746	T	T	71715746	2	4	177	1	0	0	0	0	0	0	0	1	11855	796	28	3		3	PHLPP2	16	71715746	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	1027235	71715746	18639007	408	62868										
ZFHX3	463	broad.mit.edu	37	chr16	72829353	72829353	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cagttcctcagcctccgctgTaagctgcaagaaagcggagg	12	12	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr16:72829353T>C	uc002fck.2	-	9	7901	c.7228A>G	c.(7228-7230)ACA>GCA	p.T2410A	ZFHX3_uc002fcl.2_Missense_Mutation_p.T1496A	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2410					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GCCTCCGCTGTAAGCTGCAAG	0.557													22	100	---	---	---	---	PASS	C	72829353	C	C	72829353	3	2	177	1	0	0	0	0	1	0	0	0	17631	1638	57	5	3891	5	ZFHX3	16	72829353	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	1113607	72829353	17525400	409	62869										
TRPV1	7442	broad.mit.edu	37	chr17	3493612	3493612	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atgggccgcagcctggacgtCtgctccgttctccaccagga	12	15	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:3493612C>T	uc010vrr.1	-	4	1206	c.679G>A	c.(679-681)GAC>AAC	p.D227N	TRPV1_uc010vro.1_Missense_Mutation_p.D227N|TRPV1_uc010vrp.1_Missense_Mutation_p.D227N|TRPV1_uc010vrq.1_Missense_Mutation_p.D225N|TRPV1_uc010vrs.1_Missense_Mutation_p.D227N|TRPV1_uc010vrt.1_Missense_Mutation_p.D227N|TRPV1_uc010vru.1_Missense_Mutation_p.D227N	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	227	ANK 3.|Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	GCCTGGACGTCTGCTCCGTTC	0.582													22	27	---	---	---	---	PASS	T	3493612	T	T	3493612	3	4	177	1	0	0	0	0	1	0	0	0	16592	913	32	2	1561	2	TRPV1	17	3493612	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08		3493612	77701598	410	62870										
TP53	7157	broad.mit.edu	37	chr17	7578525	7578525	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gggcaggtcttggccagttgGcaaaacatcttgttgagggc	15	8	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:7578525G>C	uc002gim.2	-	5	599	c.405C>G	c.(403-405)TGC>TGG	p.C135W	TP53_uc002gig.1_Missense_Mutation_p.C135W|TP53_uc002gih.2_Missense_Mutation_p.C135W|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C3W|TP53_uc010cng.1_Missense_Mutation_p.C3W|TP53_uc002gii.1_Missense_Mutation_p.C3W|TP53_uc010cnh.1_Missense_Mutation_p.C135W|TP53_uc010cni.1_Missense_Mutation_p.C135W|TP53_uc002gij.2_Missense_Mutation_p.C135W|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C42W|TP53_uc002gio.2_Missense_Mutation_p.C3W|TP53_uc010vug.1_Missense_Mutation_p.C96W	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	135	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		C -> S (in sporadic cancers; somatic mutation).|C -> Y (in sporadic cancers; somatic mutation; decreased E6-mediated binding to E6-AP).|C -> T (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|C -> R (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> F (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C135Y(49)|p.C135F(34)|p.C135W(19)|p.C135S(10)|p.C135fs*35(9)|p.0?(7)|p.C135*(7)|p.C135G(6)|p.C135R(6)|p.C135C(5)|p.C135fs*14(2)|p.N131fs*27(2)|p.Q136fs*13(2)|p.F134_T140>S(1)|p.K132_A138delKMFCQLA(1)|p.S127_Q136del10(1)|p.C135T(1)|p.V73fs*9(1)|p.C135fs*36(1)|p.C135fs*15(1)|p.Y126fs*11(1)|p.C135_A138delCQLA(1)|p.C135_T140delCQLAKT(1)|p.Q136*(1)|p.C135_Q136insXXXXXX(1)|p.C135_Q136insX(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)		TGGCCAGTTGGCAAAACATCT	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			15	23	---	---	---	---	PASS	C	7578525	C	C	7578525	3	2	177	1	0	0	0	0	1	0	0	0	16378	1195	42	4	893	4	TP53	17	7578525	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4084913	7578525	73616685	411	62871										
KDM6B	23135	broad.mit.edu	37	chr17	7750709	7750709	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cctccccggcaccaccaccaGcagcagcagtagcagcagca	9	19	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:7750709G>C	uc002giw.1	+	10	1572	c.1196G>C	c.(1195-1197)AGC>ACC	p.S399T	KDM6B_uc002gix.2_5'Flank	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	399	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						ACCACCACcagcagcagcagt	0.587													10	63	---	---	---	---	PASS	C	7750709	C	C	7750709	3	2	177	1	0	0	0	0	1	0	0	0	8138	971	34	4	1222	4	KDM6B	17	7750709	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	172184	7750709	73444501	412	62872										
DNAH9	1770	broad.mit.edu	37	chr17	11520921	11520922	+	Frame_Shift_Ins	INS	-	A	A													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgctgctccaggagatttgcINSaaccttctcatccagcaggt							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:11520921_11520922insA	uc002gne.2	+	5	1166_1167	c.1098_1099insA	c.(1096-1101)TGCAACfs	p.C366fs		NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	366_367	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AGGAGATTTGCAACCTTCTCAT	0.609													40	18	---	---	---	---		A	11520922	A	A	11520921	7	5	177	1	0	1	1	0	0	0	0	0	4608	718	25	0	1116	0	DNAH9	17	11520921	Frame_Shift_Ins	INS	-	TCGA-85-6560-01A-11D-1817-08	3770212	11520921	69674289	413	62873										
DNAH9	1770	broad.mit.edu	37	chr17	11725895	11725895	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tctgtcagcctccgcttcttGcagaacacagagggcattga	10	12	3	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:11725895G>C	uc002gne.2	+	47	9059	c.8991G>C	c.(8989-8991)TTG>TTC	p.L2997F	DNAH9_uc010coo.2_Missense_Mutation_p.L2291F	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2997	AAA 4 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TCCGCTTCTTGCAGAACACAG	0.527													47	63	---	---	---	---	PASS	C	11725895	C	C	11725895	3	2	177	1	0	0	0	0	1	0	0	0	4608	1310	46	4	9177	4	DNAH9	17	11725895	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	204974	11725895	69469315	414	62874										
ZNF624	57547	broad.mit.edu	37	chr17	16526311	16526311	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctccagtatgaattttctgaTgctccttgagatttaccatt	6	9	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:16526311T>C	uc010cpi.1	-	6	1972	c.1889A>G	c.(1888-1890)CAT>CGT	p.H630R		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	630	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		AATTTTCTGATGCTCCTTGAG	0.383													6	185	---	---	---	---	PASS	C	16526311	C	C	16526311	3	2	177	1	0	0	0	0	1	0	0	0	18045	1464	51	5	712	5	ZNF624	17	16526311	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	4800416	16526311	64668899	415	62875										
ZNF624	57547	broad.mit.edu	37	chr17	16527678	16527678	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttattttgtaatctcaatatCctatcattccatttccataa	1	9	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:16527678C>T	uc010cpi.1	-	6	605	c.522G>A	c.(520-522)AGG>AGA	p.R174R		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	174					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		ATCTCAATATCCTATCATTCC	0.363													44	48	---	---	---	---	PASS	T	16527678	T	T	16527678	2	4	177	1	0	0	0	0	0	0	0	1	18045	854	30	2		2	ZNF624	17	16527678	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	1367	16527678	64667532	416	62876										
C17orf66	256957	broad.mit.edu	37	chr17	34185239	34185239	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atgcgtcttcctcctgagcaGgttaaatgtgagttcctcta	9	10	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:34185239G>T	uc002hke.1	-	11	1266	c.1117C>A	c.(1117-1119)CTG>ATG	p.L373M	C17orf66_uc010wck.1_RNA|C17orf66_uc010wcl.1_Missense_Mutation_p.L333M|C17orf66_uc010wcm.1_Missense_Mutation_p.L339M	NM_152781	NP_689994	A2RTY3	CQ066_HUMAN	hypothetical protein LOC256957	373							binding			breast(2)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		CTCCTGAGCAGGTTAAATGTG	0.527													68	226	---	---	---	---	PASS	T	34185239	T	T	34185239	3	4	177	1	0	0	0	0	1	0	0	0	1874	991	35	3	615	3	C17orf66	17	34185239	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	17657561	34185239	47009971	417	62877										
PLEKHM1	9842	broad.mit.edu	37	chr17	43552993	43552993	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agcagcagcttcaggtagcaCtccatcaggccatcgttcag	10	13	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:43552993C>A	uc002ija.2	-	4	566	c.396G>T	c.(394-396)GAG>GAT	p.E132D	PLEKHM1_uc010wjm.1_Missense_Mutation_p.E104D|PLEKHM1_uc002ijb.2_5'UTR|PLEKHM1_uc010wjn.1_Missense_Mutation_p.E81D|hsa-mir-4315-1|MI0015844_5'Flank	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	132	RUN.				intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					TCAGGTAGCACTCCATCAGGC	0.622													4	44	---	---	---	---	PASS	A	43552993	A	A	43552993	3	1	177	1	0	0	0	0	1	0	0	0	12080	564	20	3	2810	3	PLEKHM1	17	43552993	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	9367754	43552993	37642217	418	62878										
ITGA3	3675	broad.mit.edu	37	chr17	48165193	48165193	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gctggtggccgtgggtgcagGgctgctgctgctggggctga	21	9	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:48165193G>T	uc010dbl.2	+	24	3469	c.3005G>T	c.(3004-3006)GGG>GTG	p.G1002V	ITGA3_uc010dbm.2_Missense_Mutation_p.G1002V	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	1002	Helical; (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						GTGGGTGCAGGGCTGCTGCTG	0.647													14	14	---	---	---	---	PASS	T	48165193	T	T	48165193	3	4	177	1	0	0	0	0	1	0	0	0	7877	1232	43	3	3099	3	ITGA3	17	48165193	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4612200	48165193	33030017	419	62879										
CACNA1G	8913	broad.mit.edu	37	chr17	48695256	48695256	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gatggctgtgggcatgcgggCgctgctggacacggtgatgc	19	9	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:48695256C>T	uc002irk.1	+	30	5564	c.5192C>T	c.(5191-5193)GCG>GTG	p.A1731V	CACNA1G_uc002irj.1_Missense_Mutation_p.A1697V|CACNA1G_uc002irl.1_Missense_Mutation_p.A1708V|CACNA1G_uc002irm.1_Missense_Mutation_p.A1697V|CACNA1G_uc002irn.1_Missense_Mutation_p.A1690V|CACNA1G_uc002iro.1_Missense_Mutation_p.A1697V|CACNA1G_uc002irp.1_Missense_Mutation_p.A1731V|CACNA1G_uc002irq.1_Missense_Mutation_p.A1708V|CACNA1G_uc002irr.1_Missense_Mutation_p.A1731V|CACNA1G_uc002irs.1_Missense_Mutation_p.A1720V|CACNA1G_uc002irt.1_Missense_Mutation_p.A1713V|CACNA1G_uc002irv.1_Missense_Mutation_p.A1720V|CACNA1G_uc002irw.1_Missense_Mutation_p.A1708V|CACNA1G_uc002iru.1_Missense_Mutation_p.A1697V|CACNA1G_uc002irx.1_Missense_Mutation_p.A1644V|CACNA1G_uc002iry.1_Missense_Mutation_p.A1633V|CACNA1G_uc002irz.1_Missense_Mutation_p.A1644V|CACNA1G_uc002isa.1_Missense_Mutation_p.A1610V|CACNA1G_uc002isb.1_Missense_Mutation_p.A1651V|CACNA1G_uc002isc.1_Missense_Mutation_p.A1633V|CACNA1G_uc002isd.1_Missense_Mutation_p.A1626V|CACNA1G_uc002ise.1_Missense_Mutation_p.A1599V|CACNA1G_uc002isf.1_Missense_Mutation_p.A1626V|CACNA1G_uc002isg.1_Missense_Mutation_p.A1592V|CACNA1G_uc002ish.1_Missense_Mutation_p.A1599V|CACNA1G_uc002isi.1_Missense_Mutation_p.A1587V	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1731	IV.|Helical; Name=S4 of repeat IV; (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GGCATGCGGGCGCTGCTGGAC	0.652													9	101	---	---	---	---	PASS	T	48695256	T	T	48695256	3	4	177	1	0	0	0	0	1	0	0	0	2544	768	27	1	5577	1	CACNA1G	17	48695256	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	530063	48695256	32499954	420	62880										
EPX	8288	broad.mit.edu	37	chr17	56280656	56280656	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgtctgttcgagaaccagttCagaagagcccgagacggaga	13	9	2	5			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:56280656C>G	uc002ivq.2	+	11	2009	c.1923C>G	c.(1921-1923)TTC>TTG	p.F641L		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	641					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						AGAACCAGTTCAGAAGAGCCC	0.512													25	45	---	---	---	---	PASS	G	56280656	G	G	56280656	3	3	177	1	0	0	0	0	1	0	0	0	5200	825	29	2	1965	2	EPX	17	56280656	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	7585400	56280656	24914554	421	62881										
TEX14	56155	broad.mit.edu	37	chr17	56682439	56682439	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggtgcggcccagttgtatagCtgcgtaggaaggggcactcg	17	9	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:56682439C>A	uc010dcz.1	-	11	1372	c.1254G>T	c.(1252-1254)CAG>CAT	p.Q418H	TEX14_uc002iwr.1_Missense_Mutation_p.Q412H|TEX14_uc002iws.1_Missense_Mutation_p.Q412H|TEX14_uc010dda.1_Missense_Mutation_p.Q192H	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	418	Protein kinase.					cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AGTTGTATAGCTGCGTAGGAA	0.493													10	54	---	---	---	---	PASS	A	56682439	A	A	56682439	3	1	177	1	0	0	0	0	1	0	0	0	15775	796	28	3	3331	3	TEX14	17	56682439	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	401783	56682439	24512771	422	62882										
TBC1D16	125058	broad.mit.edu	37	chr17	77923604	77923604	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggactcgtggctgtaatagcGcagcaggaagggccagacct	15	10	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:77923604G>A	uc002jxj.2	-	7	1434	c.1318C>T	c.(1318-1320)CGC>TGC	p.R440C	TBC1D16_uc002jxh.2_Missense_Mutation_p.R78C|TBC1D16_uc002jxi.2_Missense_Mutation_p.R65C|TBC1D16_uc002jxk.1_Missense_Mutation_p.R78C	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	440	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			CTGTAATAGCGCAGCAGGAAG	0.587													28	98	---	---	---	---	PASS	A	77923604	A	A	77923604	3	1	177	1	0	0	0	0	1	0	0	0	15602	1087	38	1	1009	1	TBC1D16	17	77923604	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	21241165	77923604	3271606	423	62883										
C17orf101	79701	broad.mit.edu	37	chr17	80373349	80373349	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccctgccacgacctcgccacGgcgggccaggacctctgcga	12	19	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr17:80373349G>A	uc002keu.1	-	2	330	c.229C>T	c.(229-231)CGT>TGT	p.R77C	C17orf101_uc002ket.1_Missense_Mutation_p.R77C|C17orf101_uc010dip.1_RNA|HEXDC_uc002kev.3_5'Flank|HEXDC_uc010diq.2_5'Flank	NM_024648	NP_078924	Q6PK18	CQ101_HUMAN	hypothetical protein LOC79701 isoform 1	77	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						ACCTCGCCACGGCGGGCCAGG	0.637													22	117	---	---	---	---	PASS	A	80373349	A	A	80373349	3	1	177	1	0	0	0	0	1	0	0	0	1848	1116	39	1	939	1	C17orf101	17	80373349	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2449745	80373349	821861	424	62884										
LPIN2	9663	broad.mit.edu	37	chr18	2921569	2921569	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggcagcatagaagggctgctTagacggggcaaacagattct	14	8	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr18:2921569T>C	uc002klo.2	-	18	2643	c.2404A>G	c.(2404-2406)AAG>GAG	p.K802E		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	802	C-LIP.				fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		AAGGGCTGCTTAGACGGGGCA	0.408													42	31	---	---	---	---	PASS	C	2921569	C	C	2921569	3	2	177	1	0	0	0	0	1	0	0	0	8919	1763	61	5	298	5	LPIN2	18	2921569	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08		2921569	75155679	425	62885										
KIAA1012	22878	broad.mit.edu	37	chr18	29493400	29493400	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tatctgttcatctgatgctcGattagatgttcgagaattaa	8	6	3	3	rs143546887		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr18:29493400G>A	uc002kxc.3	-	5	1067	c.703C>T	c.(703-705)CGA>TGA	p.R235*	KIAA1012_uc002kxb.3_Nonsense_Mutation_p.R181*|KIAA1012_uc002kxd.3_RNA|KIAA1012_uc002kxe.2_Nonsense_Mutation_p.R235*	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	235					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						TCTGATGCTCGATTAGATGTT	0.318													20	53	---	---	---	---	PASS	A	29493400	A	A	29493400	4	1	177	1	0	0	0	0	0	1	0	0	8204	1066	37	2	3704	2	KIAA1012	18	29493400	Nonsense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	26571831	29493400	48583848	426	62886										
KLHL14	57565	broad.mit.edu	37	chr18	30254622	30254622	+	Nonstop_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttccagagtttcctggtgttAtttgttgtatggtacacaag	10	6	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr18:30254622A>C	uc002kxm.1	-	9	2273	c.1885T>G	c.(1885-1887)TAA>GAA	p.*629E	KLHL14_uc010dmd.1_Nonstop_Mutation_p.*178E	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	629						cytosol|endoplasmic reticulum membrane				ovary(1)	1						TCCTGGTGTTATTTGTTGTAT	0.438													98	107	---	---	---	---	PASS	C	30254622	C	C	30254622	4	2	177	1	0	0	0	0	0	0	0	0	8370	462	16	5	5	5	KLHL14	18	30254622	Nonstop_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	761222	30254622	47822626	427	62887										
SYT4	6860	broad.mit.edu	37	chr18	40854120	40854120	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cttttcaagatccagatgcaAtgaattctttggcacagctg	8	9	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr18:40854120A>T	uc002law.2	-	2	643	c.274T>A	c.(274-276)TTG>ATG	p.L92M	SYT4_uc010dng.2_Intron|SYT4_uc010xcm.1_Missense_Mutation_p.L74M|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	92	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						TCCAGATGCAATGAATTCTTT	0.403													37	32	---	---	---	---	PASS	T	40854120	T	T	40854120	3	4	177	1	0	0	0	0	1	0	0	0	15473	98	4	5	1015	5	SYT4	18	40854120	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	10599498	40854120	37223128	428	62888										
SETBP1	26040	broad.mit.edu	37	chr18	42530710	42530710	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cccgtgtccctaagttgagtAaaatgatagagaatgagtcc	10	8	0	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr18:42530710A>G	uc010dni.2	+	4	1701	c.1405A>G	c.(1405-1407)AAA>GAA	p.K469E		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	469						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		TAAGTTGAGTAAAATGATAGA	0.483									Schinzel-Giedion_syndrome				56	70	---	---	---	---	PASS	G	42530710	G	G	42530710	3	3	177	1	0	0	0	0	1	0	0	0	14129	363	13	5	1608	5	SETBP1	18	42530710	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	1676590	42530710	35546538	429	62889										
SETBP1	26040	broad.mit.edu	37	chr18	42531632	42531632	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggcgtcttcaccagcagctaTgcacccactttcaacacagt	7	15	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr18:42531632T>A	uc010dni.2	+	4	2623	c.2327T>A	c.(2326-2328)ATG>AAG	p.M776K		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	776						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		CCAGCAGCTATGCACCCACTT	0.512									Schinzel-Giedion_syndrome				29	28	---	---	---	---	PASS	A	42531632	A	A	42531632	3	1	177	1	0	0	0	0	1	0	0	0	14129	1464	51	5	2530	5	SETBP1	18	42531632	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	922	42531632	35545616	430	62890										
KIAA0427	9811	broad.mit.edu	37	chr18	46284390	46284390	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	accaccagaaatcctaccagGggggctcagcaccccacccc	8	19	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr18:46284390G>T	uc002ldc.2	+	8	970	c.685G>T	c.(685-687)GGG>TGG	p.G229W	KIAA0427_uc002ldd.2_Missense_Mutation_p.G229W|KIAA0427_uc002lde.3_5'Flank	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	229	Interaction with NCBP1/CBP80.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						ATCCTACCAGGGGGGCTCAGC	0.642													46	46	---	---	---	---	PASS	T	46284390	T	T	46284390	3	4	177	1	0	0	0	0	1	0	0	0	8176	1232	43	3	711	3	KIAA0427	18	46284390	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	3752758	46284390	31792858	431	62891										
RAX	30062	broad.mit.edu	37	chr18	56939814	56939814	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccctgggctcggccgtgcctCcccgggctccttggggcagt	15	17	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr18:56939814C>T	uc002lhx.2	-	2	509	c.322G>A	c.(322-324)GAG>AAG	p.E108K	RAX_uc010dpp.2_Intron	NM_013435	NP_038463	Q9Y2V3	RX_HUMAN	retina and anterior neural fold homeobox	108					visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1		Lung NSC(161;0.0804)|Colorectal(73;0.0946)		STAD - Stomach adenocarcinoma(84;0.18)		GGCCGTGCCTCCCCGGGCTCC	0.701													18	16	---	---	---	---	PASS	T	56939814	T	T	56939814	3	4	177	1	0	0	0	0	1	0	0	0	13096	864	30	2	726	2	RAX	18	56939814	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	10655424	56939814	21137434	432	62892										
CTDP1	9150	broad.mit.edu	37	chr18	77475422	77475422	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aacttcccgatagagaagacGcgggagcattaccacgccac	10	13	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr18:77475422G>C	uc002lnh.1	+	8	2109	c.1962G>C	c.(1960-1962)ACG>ACC	p.T654T	CTDP1_uc002lni.1_Silent_p.T654T|CTDP1_uc010drd.1_Silent_p.T654T	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	654	BRCT.				positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		TAGAGAAGACGCGGGAGCATT	0.627													2	5	---	---	---	---	PASS	C	77475422	C	C	77475422	2	2	177	1	0	0	0	0	0	0	0	1	4002	1074	38	4		4	CTDP1	18	77475422	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	20535608	77475422	601826	433	62893										
STAP2	55620	broad.mit.edu	37	chr19	4330043	4330043	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cccaggaagcagggtcaagtCggtcgggacacggagctgag	17	10	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:4330043C>A	uc002mab.2	-	5	467	c.370G>T	c.(370-372)GAC>TAC	p.D124Y	STAP2_uc002mac.2_Missense_Mutation_p.D124Y|STAP2_uc002mad.2_Missense_Mutation_p.D17Y	NM_001013841	NP_001013863	Q9UGK3	STAP2_HUMAN	signal transducing adaptor family member 2	124	PH.					cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGGTCAAGTCGGTCGGGACA	0.617													12	19	---	---	---	---	PASS	A	4330043	A	A	4330043	3	1	177	1	0	0	0	0	1	0	0	0	15252	884	31	2	1015	2	STAP2	19	4330043	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08		4330043	54798940	434	62894										
MPND	84954	broad.mit.edu	37	chr19	4352936	4352936	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aggaggagttgctgatggaaGaggaggaggaggacgttctg	20	3	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:4352936G>C	uc002mae.2	+	4	641	c.574G>C	c.(574-576)GAG>CAG	p.E192Q	MPND_uc010dtx.2_RNA|MPND_uc002mag.2_Missense_Mutation_p.E192Q|MPND_uc002maf.2_Missense_Mutation_p.E192Q|MPND_uc002mah.2_Missense_Mutation_p.E80Q|MPND_uc002mai.2_Missense_Mutation_p.E80Q	NM_032868	NP_116257	Q8N594	MPND_HUMAN	MPN domain containing isoform 1	192	Poly-Glu.						peptidase activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		gctgatggaagaggaggagga	0.532													20	15	---	---	---	---	PASS	C	4352936	C	C	4352936	3	2	177	1	0	0	0	0	1	0	0	0	9731	943	33	2	588	2	MPND	19	4352936	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	22893	4352936	54776047	435	62895										
SMARCA4	6597	broad.mit.edu	37	chr19	11096082	11096082	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	catggaccagcactcccaagGtacagaactgcgttccttcc	8	15	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:11096082G>T	uc002mqf.3	+	3	639	c.355_splice	c.e3+1	p.G119_splice	SMARCA4_uc010dxp.2_Splice_Site_p.G119_splice|SMARCA4_uc010dxo.2_Splice_Site_p.G119_splice|SMARCA4_uc002mqg.1_Splice_Site_p.G119_splice|SMARCA4_uc010dxq.2_Splice_Site_p.G119_splice|SMARCA4_uc010dxr.2_Splice_Site_p.G119_splice|SMARCA4_uc002mqj.3_Splice_Site_p.G119_splice|SMARCA4_uc010dxs.2_Splice_Site_p.G119_splice|SMARCA4_uc002mqe.2_Splice_Site_p.G119_splice	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated						chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				CACTCCCAAGGTACAGAACTG	0.592			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				19	8	---	---	---	---	PASS	T	11096082	T	T	11096082	5	4	177	1	0	0	0	0	0	0	1	0	14770	1275	44	3	362	3	SMARCA4	19	11096082	Splice_Site	SNP	G	TCGA-85-6560-01A-11D-1817-08	6743146	11096082	48032901	436	62896										
EPOR	2057	broad.mit.edu	37	chr19	11489435	11489435	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgggctcgggatgccaggccAgatcttctgcttcagagccc	13	13	3	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:11489435A>T	uc002mrj.1	-	7	983	c.847T>A	c.(847-849)TGG>AGG	p.W283R	EPOR_uc002mrh.2_5'UTR|EPOR_uc002mri.2_Missense_Mutation_p.W110R|EPOR_uc002mrk.1_Missense_Mutation_p.W110R|EPOR_uc002mrl.1_RNA|EPOR_uc010xlx.1_RNA|EPOR_uc010xly.1_Missense_Mutation_p.W110R	NM_000121	NP_000112	P19235	EPOR_HUMAN	erythropoietin receptor precursor	283	Cytoplasmic (Potential).|Box 1 motif.					extracellular region|integral to plasma membrane	erythropoietin receptor activity|identical protein binding			ovary(1)	1					Darbepoetin alfa(DB00012)|Epoetin alfa(DB00016)	ATGCCAGGCCAGATCTTCTGC	0.517													28	35	---	---	---	---	PASS	T	11489435	T	T	11489435	3	4	177	1	0	0	0	0	1	0	0	0	5189	188	7	5	687	5	EPOR	19	11489435	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	393353	11489435	47639548	437	62897										
WIZ	58525	broad.mit.edu	37	chr19	15535478	15535478	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cacggtgcctggcgggctggCtgccagaggccgctcaccac	15	16	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:15535478C>T	uc002nbc.2	-	6	2520	c.2497G>A	c.(2497-2499)GCC>ACC	p.A833T	WIZ_uc002nba.3_Missense_Mutation_p.A700T|WIZ_uc002nbb.3_Missense_Mutation_p.A659T	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	1516						nucleus	zinc ion binding				0						GGCGGGCTGGCTGCCAGAGGC	0.736													4	14	---	---	---	---	PASS	T	15535478	T	T	15535478	3	4	177	1	0	0	0	0	1	0	0	0	17372	797	28	3	421	3	WIZ	19	15535478	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	4046043	15535478	43593505	438	62898										
HOMER3	9454	broad.mit.edu	37	chr19	19042181	19042181	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctcggcagcctccagggcctCgcggggccccccagtctgac	13	19	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:19042181C>A	uc002nku.2	-	8	1500	c.847G>T	c.(847-849)GAG>TAG	p.E283*	HOMER3_uc002nko.1_RNA|HOMER3_uc002nkp.1_RNA|HOMER3_uc010eby.2_Nonsense_Mutation_p.E247*|HOMER3_uc010ebz.2_Nonsense_Mutation_p.E283*|HOMER3_uc002nkw.2_Nonsense_Mutation_p.E283*|HOMER3_uc002nkv.2_Nonsense_Mutation_p.E283*	NM_004838	NP_004829	Q9NSC5	HOME3_HUMAN	Homer, neuronal immediate early gene, 3 isoform	283	Potential.				metabotropic glutamate receptor signaling pathway|protein targeting	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	protein binding				0			Epithelial(12;0.0107)			TCCAGGGCCTCGCGGGGCCCC	0.627													38	39	---	---	---	---	PASS	A	19042181	A	A	19042181	4	1	177	1	0	0	0	0	0	1	0	0	7280	893	31	2	246	2	HOMER3	19	19042181	Nonsense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	3506703	19042181	40086802	439	62899										
HAPLN4	404037	broad.mit.edu	37	chr19	19369455	19369455	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	actcccggtcccccccaggcCgccgcagggctcccggggcc	13	22	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:19369455C>T	uc002nmb.2	-	4	749	c.694G>A	c.(694-696)GGC>AGC	p.G232S	HAPLN4_uc002nmc.2_Missense_Mutation_p.G232S	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	232	Link 1.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			CCCCCCAGGCCGCCGCAGGGC	0.726													7	18	---	---	---	---	PASS	T	19369455	T	T	19369455	3	4	177	1	0	0	0	0	1	0	0	0	6957	652	23	1	522	1	HAPLN4	19	19369455	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	327274	19369455	39759528	440	62900										
SF4	57794	broad.mit.edu	37	chr19	19389575	19389575	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctccgatgaagtgcttgcccCggcccatctttgtcagctgc	10	15	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:19389575C>A	uc002nmh.2	-	11	1561	c.1559G>T	c.(1558-1560)CGG>CTG	p.R520L	SF4_uc002nmf.2_Missense_Mutation_p.R70L|SF4_uc002nmg.2_Missense_Mutation_p.R70L|SF4_uc002nmi.2_Missense_Mutation_p.R310L|SF4_uc002nmj.2_Missense_Mutation_p.R310L|SF4_uc002nme.2_Missense_Mutation_p.R70L	NM_172231	NP_757386	Q8IWZ8	SUGP1_HUMAN	splicing factor 4	520					nuclear mRNA splicing, via spliceosome	nucleoplasm|spliceosomal complex	RNA binding				0						GTGCTTGCCCCGGCCCATCTT	0.592													7	16	---	---	---	---	PASS	A	19389575	A	A	19389575	3	1	177	1	0	0	0	0	1	0	0	0	14155	652	23	1	394	1	SF4	19	19389575	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	20120	19389575	39739408	441	62901										
ZNF492	57615	broad.mit.edu	37	chr19	22836207	22836207	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttatataggaatgtgatgttAgagaactacagaaacctggt	10	4	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:22836207A>C	uc002nqw.3	+	2	250	c.6A>C	c.(4-6)TTA>TTC	p.L2F		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	2	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				ATGTGATGTTAGAGAACTACA	0.393													58	80	---	---	---	---	PASS	C	22836207	C	C	22836207	3	2	177	1	0	0	0	0	1	0	0	0	17940	417	15	5	8	5	ZNF492	19	22836207	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	3446632	22836207	36292776	442	62902										
ATP4A	495	broad.mit.edu	37	chr19	36051408	36051408	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agccctgggccgccaggatgCggatgtcggcgggcactctg	17	13	1	0	rs141192219		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:36051408C>A	uc002oal.1	-	6	673	c.644G>T	c.(643-645)CGC>CTC	p.R215L	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	215	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	CGCCAGGATGCGGATGTCGGC	0.632													25	23	---	---	---	---	PASS	A	36051408	A	A	36051408	3	1	177	1	0	0	0	0	1	0	0	0	1145	768	27	1	2531	1	ATP4A	19	36051408	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	13215201	36051408	23077575	443	62903										
RASGRP4	115727	broad.mit.edu	37	chr19	38916724	38916724	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctcacctcttactgtcttttCtgttcatgcttcccgcgtgg	7	14	5	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:38916724C>A	uc002oir.2	-	1	222	c.8G>T	c.(7-9)AGA>ATA	p.R3I	RASGRP4_uc010xua.1_Missense_Mutation_p.R3I|RASGRP4_uc010xub.1_Missense_Mutation_p.R3I|RASGRP4_uc010xuc.1_Missense_Mutation_p.R3I|RASGRP4_uc010xud.1_Missense_Mutation_p.R3I|RASGRP4_uc010xue.1_Missense_Mutation_p.R3I|RASGRP4_uc010egb.2_Missense_Mutation_p.R3I	NM_170604	NP_733749	Q8TDF6	GRP4_HUMAN	RAS guanyl releasing protein 4 isoform a	3					activation of phospholipase C activity|cell growth|cell proliferation|myeloid cell differentiation|positive regulation of Ras protein signal transduction|regulation of G-protein coupled receptor protein signaling pathway|response to extracellular stimulus|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|membrane fraction|plasma membrane|soluble fraction	diacylglycerol binding|GTP-dependent protein binding|metal ion binding|Ras guanyl-nucleotide exchange factor activity			pancreas(1)|lung(1)|skin(1)	3	all_cancers(60;4.21e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			ACTGTCTTTTCTGTTCATGCT	0.652													14	10	---	---	---	---	PASS	A	38916724	A	A	38916724	3	1	177	1	0	0	0	0	1	0	0	0	13077	913	32	2	2081	2	RASGRP4	19	38916724	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	2865316	38916724	20212259	444	62904										
ERF	2077	broad.mit.edu	37	chr19	42752640	42752640	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggagtctcggtgctccagggAgagctgggccgtggcatgct	18	10	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:42752640A>C	uc002ote.3	-	4	1782	c.1624T>G	c.(1624-1626)TCC>GCC	p.S542A	ERF_uc002otd.3_Missense_Mutation_p.S273A	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	542					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				TGCTCCAGGGAGAGCTGGGCC	0.682													24	14	---	---	---	---	PASS	C	42752640	C	C	42752640	3	2	177	1	0	0	0	0	1	0	0	0	5221	304	11	5	26	5	ERF	19	42752640	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	3835916	42752640	16376343	445	62905										
PSG9	5678	broad.mit.edu	37	chr19	43763205	43763206	+	Frame_Shift_Ins	INS	-	C	C													0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aggtgtagttctcactcttaINSggttcacaggtgaaggctaa							TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:43763205_43763206insC	uc002owd.3	-	4	890_891	c.791_792insG	c.(790-792)CCTfs	p.P264fs	PSG9_uc002owe.3_Intron|PSG9_uc010xwm.1_Frame_Shift_Ins_p.P171fs|PSG9_uc002owf.3_Intron|PSG9_uc002owg.2_Intron|PSG9_uc002owh.2_Intron	NM_002784	NP_002775	Q00887	PSG9_HUMAN	pregnancy specific beta-1-glycoprotein 9	264	Ig-like C2-type 2.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				TCTCACTCTTAGGTTCACAGGT	0.495													170	140	---	---	---	---		C	43763206	C	C	43763205	7	5	177	1	0	1	1	0	0	0	0	0	12662	407	15	0	500	0	PSG9	19	43763205	Frame_Shift_Ins	INS	-	TCGA-85-6560-01A-11D-1817-08	1010565	43763205	15365778	446	62906										
LIG1	3978	broad.mit.edu	37	chr19	48664717	48664717	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcctccctggcctcttcaccGgagagtcactctcggacacc	8	18	4	1	rs4987181	byFrequency	TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:48664717G>A	uc002pia.1	-	4	275	c.155C>T	c.(154-156)CCG>CTG	p.P52L	LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.P52L|LIG1_uc010xzg.1_Missense_Mutation_p.P22L|LIG1_uc010xzh.1_RNA	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	52					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	CCTCTTCACCGGAGAGTCACT	0.627								NER					34	109	---	---	---	---	PASS	A	48664717	A	A	48664717	3	1	177	1	0	0	0	0	1	0	0	0	8781	1116	39	1	2704	1	LIG1	19	48664717	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4901512	48664717	10464266	447	62907										
CCDC114	93233	broad.mit.edu	37	chr19	48807010	48807010	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agcaccagcctctcctgggaGgtcttccagacgccctcggc	11	17	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:48807010G>C	uc002pir.2	-	8	1457	c.774C>G	c.(772-774)ACC>ACG	p.T258T	CCDC114_uc002piq.2_Silent_p.T67T|CCDC114_uc002pio.2_Silent_p.T295T|CCDC114_uc002pis.1_5'Flank|CCDC114_uc002pit.1_Silent_p.T295T|CCDC114_uc002piu.1_Silent_p.T295T	NM_144577	NP_653178	Q96M63	CC114_HUMAN	coiled-coil domain containing 114 isoform 2	258										ovary(1)	1		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000162)|Epithelial(262;0.0134)|GBM - Glioblastoma multiforme(486;0.0143)		TCTCCTGGGAGGTCTTCCAGA	0.622													38	53	---	---	---	---	PASS	C	48807010	C	C	48807010	2	2	177	1	0	0	0	0	0	0	0	1	2751	987	35	4		4	CCDC114	19	48807010	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	142293	48807010	10321973	448	62908										
MED25	81857	broad.mit.edu	37	chr19	50322430	50322430	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttctgtcctcccctcccagtAtggggggacccagtacagcc	10	16	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:50322430A>G	uc002ppw.1	+	3	235	c.182A>G	c.(181-183)TAT>TGT	p.Y61C	MED25_uc010ybe.1_Intron|MED25_uc010enl.1_Missense_Mutation_p.Y61C	NM_030973	NP_112235	Q71SY5	MED25_HUMAN	mediator complex subunit 25	61	Interaction with the Mediator complex.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm				ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00822)|GBM - Glioblastoma multiforme(134;0.0122)		CCCTCCCAGTATGGGGGGACC	0.373													27	27	---	---	---	---	PASS	G	50322430	G	G	50322430	3	3	177	1	0	0	0	0	1	0	0	0	9443	463	16	5	192	5	MED25	19	50322430	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	1515420	50322430	8806553	449	62909										
KLK1	3816	broad.mit.edu	37	chr19	51322498	51322498	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	atccacttcacataagacagCactctgacggcgacagaagg	9	12	2	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:51322498C>T	uc002ptk.1	-	5	780	c.741G>A	c.(739-741)GTG>GTA	p.V247V	KLK1_uc010ycg.1_RNA	NM_002257	NP_002248	P06870	KLK1_HUMAN	kallikrein 1 preproprotein	247	Peptidase S1.				proteolysis	nucleus	serine-type endopeptidase activity				0		all_neural(266;0.0199)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00399)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CATAAGACAGCACTCTGACGG	0.562													28	78	---	---	---	---	PASS	T	51322498	T	T	51322498	2	4	177	1	0	0	0	0	0	0	0	1	8397	697	25	3		3	KLK1	19	51322498	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	1000068	51322498	7806485	450	62910										
SIGLEC12	89858	broad.mit.edu	37	chr19	52004673	52004673	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctggtgtctctgatgctcagGgtacaatccttgttctgtgg	12	9	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:52004673G>A	uc002pwx.1	-	1	371	c.315C>T	c.(313-315)ACC>ACT	p.T105T	SIGLEC12_uc002pww.1_5'Flank|SIGLEC12_uc010eoy.1_5'UTR	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	105	Ig-like V-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		TGATGCTCAGGGTACAATCCT	0.498													63	90	---	---	---	---	PASS	A	52004673	A	A	52004673	2	1	177	1	0	0	0	0	0	0	0	1	14308	1219	43	3		3	SIGLEC12	19	52004673	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	682175	52004673	7124310	451	62911										
ZNF677	342926	broad.mit.edu	37	chr19	53740440	53740440	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	acattcagtacatttgtaagGtttctctccagtatggattt	7	7	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:53740440G>T	uc002qbf.1	-	5	1725	c.1540C>A	c.(1540-1542)CCT>ACT	p.P514T	ZNF677_uc002qbg.1_Missense_Mutation_p.P514T	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	514					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		CATTTGTAAGGTTTCTCTCCA	0.348													19	41	---	---	---	---	PASS	T	53740440	T	T	53740440	3	4	177	1	0	0	0	0	1	0	0	0	18081	1261	44	3	218	3	ZNF677	19	53740440	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	1735767	53740440	5388543	452	62912										
EPS8L1	54869	broad.mit.edu	37	chr19	55590382	55590382	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggcagagcagaggaagcgttActccacagttgttatggctg	14	8	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:55590382A>G	uc002qis.3	+	4	178	c.74A>G	c.(73-75)TAC>TGC	p.Y25C	EPS8L1_uc010ess.1_Intron|EPS8L1_uc010est.1_Missense_Mutation_p.Y25C|EPS8L1_uc010yfr.1_Intron|EPS8L1_uc010esu.1_Intron|EPS8L1_uc002qiu.2_5'Flank|EPS8L1_uc002qiv.2_5'Flank|EPS8L1_uc002qiw.2_5'Flank	NM_133180	NP_573441	Q8TE68	ES8L1_HUMAN	epidermal growth factor receptor pathway	25						cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		AGGAAGCGTTACTCCACAGTT	0.403													41	47	---	---	---	---	PASS	G	55590382	G	G	55590382	3	3	177	1	0	0	0	0	1	0	0	0	5195	391	14	5	84	5	EPS8L1	19	55590382	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	1849942	55590382	3538601	453	62913										
FIZ1	84922	broad.mit.edu	37	chr19	56104586	56104586	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cttgtgccgctccagcagcgCgggcgcgttgaagtcgcgct	15	14	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:56104586C>A	uc002qli.3	-	3	811	c.721G>T	c.(721-723)GCG>TCG	p.A241S	FIZ1_uc002qlj.3_Missense_Mutation_p.A241S	NM_032836	NP_116225	Q96SL8	FIZ1_HUMAN	FLT3-interacting zinc finger 1	241	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein kinase binding|receptor binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		TCCAGCAGCGCGGGCGCGTTG	0.582													3	4	---	---	---	---	PASS	A	56104586	A	A	56104586	3	1	177	1	0	0	0	0	1	0	0	0	5900	768	27	1	773	1	FIZ1	19	56104586	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	514204	56104586	3024397	454	62914										
NLRP13	126204	broad.mit.edu	37	chr19	56423967	56423967	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tagctgctgcaggattttctCaacttcacttgagtcatcaa	7	10	4	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr19:56423967C>G	uc010ygg.1	-	5	1241	c.1216G>C	c.(1216-1218)GAG>CAG	p.E406Q		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	406	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)		AGGATTTTCTCAACTTCACTT	0.458													41	46	---	---	---	---	PASS	G	56423967	G	G	56423967	3	3	177	1	0	0	0	0	1	0	0	0	10475	835	29	2	1941	2	NLRP13	19	56423967	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	319381	56423967	2705016	455	62915										
SRXN1	140809	broad.mit.edu	37	chr20	629441	629441	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aagcttggcggggatggtctCtcgctgcagttgctggtagg	17	8	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:629441C>A	uc002wea.2	-	2	392	c.331G>T	c.(331-333)GAG>TAG	p.E111*	SRXN1_uc002web.2_RNA	NM_080725	NP_542763	Q9BYN0	SRXN1_HUMAN	sulfiredoxin 1 homolog	111					response to oxidative stress	cytosol	antioxidant activity|ATP binding|DNA binding|sulfiredoxin activity			ovary(1)	1						GGGATGGTCTCTCGCTGCAGT	0.602													4	72	---	---	---	---	PASS	A	629441	A	A	629441	4	1	177	1	0	0	0	0	0	1	0	0	15172	922	32	2	86	2	SRXN1	20	629441	Nonsense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08		629441	62396079	456	62916										
VPS16	64601	broad.mit.edu	37	chr20	2845948	2845948	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gcagctggcacgtgacttccGcatccctgacaagaggtagg	13	12	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:2845948G>A	uc002whe.2	+	21	2207	c.2159G>A	c.(2158-2160)CGC>CAC	p.R720H	VPS16_uc002whh.2_RNA|PTPRA_uc002whj.2_5'UTR|VPS16_uc002whf.2_Missense_Mutation_p.R576H|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_Missense_Mutation_p.R406H|VPS16_uc002whi.2_Missense_Mutation_p.R204H	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	720					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						CGTGACTTCCGCATCCCTGAC	0.602													3	27	---	---	---	---	PASS	A	2845948	A	A	2845948	3	1	177	1	0	0	0	0	1	0	0	0	17190	1087	38	1	2241	1	VPS16	20	2845948	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	2216507	2845948	60179572	457	62917										
CHGB	1114	broad.mit.edu	37	chr20	5905692	5905692	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gagaaattcagccaaaggggCtgactgtcattggagcggtg	15	7	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:5905692C>G	uc002wmg.2	+	5	2337	c.2031C>G	c.(2029-2031)GGC>GGG	p.G677G	CHGB_uc010zqz.1_Silent_p.G360G	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	677						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						GCCAAAGGGGCTGACTGTCAT	0.443													30	23	---	---	---	---	PASS	G	5905692	G	G	5905692	2	3	177	1	0	0	0	0	0	0	0	1	3339	784	28	4		4	CHGB	20	5905692	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	3059744	5905692	57119828	458	62918										
C20orf26	26074	broad.mit.edu	37	chr20	20243735	20243735	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	aggaagaggattgctttaagGcactgatttggataaggaat	13	3	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:20243735G>T	uc002wru.2	+	21	2540	c.2464G>T	c.(2464-2466)GCA>TCA	p.A822S	C20orf26_uc010zse.1_Missense_Mutation_p.A802S|C20orf26_uc002wrw.2_RNA|C20orf26_uc002wrv.2_Missense_Mutation_p.A178S	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	822										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TTGCTTTAAGGCACTGATTTG	0.453													46	60	---	---	---	---	PASS	T	20243735	T	T	20243735	3	4	177	1	0	0	0	0	1	0	0	0	2106	1203	42	3	2574	3	C20orf26	20	20243735	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	14338043	20243735	42781785	459	62919										
TGIF2	60436	broad.mit.edu	37	chr20	35219734	35219734	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccagctgctggtggaggtggCgctacagagggctgctgaga	18	9	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:35219734C>T	uc002xfn.2	+	3	787	c.614C>T	c.(613-615)GCG>GTG	p.A205V	C20orf24_uc002xfo.2_Intron	NM_021809	NP_068581	Q9GZN2	TGIF2_HUMAN	TGFB-induced factor homeobox 2	205	Repressive function.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)|skin(1)	2	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				GTGGAGGTGGCGCTACAGAGG	0.577													6	166	---	---	---	---	PASS	T	35219734	T	T	35219734	3	4	177	1	0	0	0	0	1	0	0	0	15823	768	27	1	620	1	TGIF2	20	35219734	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	14975999	35219734	27805786	460	62920										
CDH22	64405	broad.mit.edu	37	chr20	44839103	44839103	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cacgcgcacgatcgcctggtCgcggaacgtgcccaggtcgg	15	15	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:44839103C>A	uc002xrm.2	-	6	1530	c.1129G>T	c.(1129-1131)GAC>TAC	p.D377Y	CDH22_uc010ghk.1_Missense_Mutation_p.D377Y|CDH22_uc002xrn.1_Missense_Mutation_p.D128Y	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	377	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				ATCGCCTGGTCGCGGAACGTG	0.711													19	16	---	---	---	---	PASS	A	44839103	A	A	44839103	3	1	177	1	0	0	0	0	1	0	0	0	3107	884	31	2	1381	2	CDH22	20	44839103	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	9619369	44839103	18186417	461	62921										
KCNG1	3755	broad.mit.edu	37	chr20	49626862	49626862	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cgtagtcagaattgtctcccGgtaagagggtcattttgggc	13	8	3	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:49626862G>A	uc002xwa.3	-	2	309	c.14C>T	c.(13-15)CCG>CTG	p.P5L	KCNG1_uc002xwb.2_Missense_Mutation_p.P5L	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	5	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						ATTGTCTCCCGGTAAGAGGGT	0.622													29	16	---	---	---	---	PASS	A	49626862	A	A	49626862	3	1	177	1	0	0	0	0	1	0	0	0	8027	1116	39	1	1535	1	KCNG1	20	49626862	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4787759	49626862	13398658	462	62922										
ATP9A	10079	broad.mit.edu	37	chr20	50342406	50342406	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccaagtctcatttcgggaacAaactgagagcaggcaagaag	11	9	1	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:50342406A>T	uc002xwg.1	-	3	279	c.279T>A	c.(277-279)TTT>TTA	p.F93L	ATP9A_uc010gih.1_Missense_Mutation_p.F78L	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	93	Extracellular (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						TTTCGGGAACAAACTGAGAGC	0.423													18	111	---	---	---	---	PASS	T	50342406	T	T	50342406	3	4	177	1	0	0	0	0	1	0	0	0	1198	127	5	5	2968	5	ATP9A	20	50342406	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	715544	50342406	12683114	463	62923										
LAMA5	3911	broad.mit.edu	37	chr20	60887294	60887294	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gaagccgaagccggagtagaCgttgccagtgagcggtgcca	16	10	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:60887294C>T	uc002ycq.2	-	69	9506	c.9439G>A	c.(9439-9441)GTC>ATC	p.V3147I		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3147	Laminin G-like 3.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCGGAGTAGACGTTGCCAGTG	0.682													8	31	---	---	---	---	PASS	T	60887294	T	T	60887294	3	4	177	1	0	0	0	0	1	0	0	0	8609	536	19	1	1696	1	LAMA5	20	60887294	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	10544888	60887294	2138226	464	62924										
OGFR	11054	broad.mit.edu	37	chr20	61444298	61444298	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggaggcagtgcagccctgccGccaacccctgggagccaggg	16	15	0	0	rs41310199		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:61444298G>A	uc002ydj.2	+	7	1366	c.1331G>A	c.(1330-1332)CGC>CAC	p.R444H	OGFR_uc002ydk.2_Missense_Mutation_p.R427H|OGFR_uc002ydl.2_Missense_Mutation_p.R392H|uc011aam.1_Silent_p.G115G	NM_007346	NP_031372	Q9NZT2	OGFR_HUMAN	opioid growth factor receptor	444					regulation of cell growth	cytoplasm|membrane|nucleus	opioid receptor activity				0	Breast(26;3.65e-08)					CAGCCCTGCCGCCAACCCCTG	0.687													5	40	---	---	---	---	PASS	A	61444298	A	A	61444298	3	1	177	1	0	0	0	0	1	0	0	0	10843	1087	38	1	1357	1	OGFR	20	61444298	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	557004	61444298	1581222	465	62925										
DIDO1	11083	broad.mit.edu	37	chr20	61527695	61527695	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cttctcaatatggagggcaaTttttcctacttcgttttctg	7	9	2	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:61527695T>C	uc002ydr.1	-	8	2368	c.2104A>G	c.(2104-2106)ATT>GTT	p.I702V	DIDO1_uc002yds.1_Missense_Mutation_p.I702V|DIDO1_uc002ydt.1_Missense_Mutation_p.I702V|DIDO1_uc002ydu.1_Missense_Mutation_p.I702V	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	702	TFIIS central.				apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					TGGAGGGCAATTTTTCCTACT	0.358													9	67	---	---	---	---	PASS	C	61527695	C	C	61527695	3	2	177	1	0	0	0	0	1	0	0	0	4522	1493	52	5	4683	5	DIDO1	20	61527695	Missense_Mutation	SNP	T	TCGA-85-6560-01A-11D-1817-08	83397	61527695	1497825	466	62926										
KCNQ2	3785	broad.mit.edu	37	chr20	62038588	62038588	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tgcctgtcgacatgctcccgGctgtcttccgggctgtggta	13	13	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:62038588G>T	uc002yey.1	-	17	2205	c.2028C>A	c.(2026-2028)AGC>AGA	p.S676R	KCNQ2_uc002yez.1_Missense_Mutation_p.S645R|KCNQ2_uc002yfa.1_Missense_Mutation_p.S658R|KCNQ2_uc002yfb.1_Missense_Mutation_p.S648R	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	676	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	CATGCTCCCGGCTGTCTTCCG	0.572													27	14	---	---	---	---	PASS	T	62038588	T	T	62038588	3	4	177	1	0	0	0	0	1	0	0	0	8083	1194	42	3	594	3	KCNQ2	20	62038588	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	510893	62038588	986932	467	62927										
C20orf195	79025	broad.mit.edu	37	chr20	62187601	62187601	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtgtctgatgtcagtgccacCaagatcccgcacatctggct	10	13	3	2	rs73598377		TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:62187601C>A	uc002yfj.2	+	2	677	c.585C>A	c.(583-585)ACC>ACA	p.T195T	C20orf195_uc002yfk.2_Silent_p.T195T	NM_024059	NP_076964	Q9BVV2	CT195_HUMAN	hypothetical protein LOC79025	195											0	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;9.69e-09)|all cancers(9;5.84e-08)|BRCA - Breast invasive adenocarcinoma(10;3.63e-06)			TCAGTGCCACCAAGATCCCGC	0.642													121	57	---	---	---	---	PASS	A	62187601	A	A	62187601	2	1	177	1	0	0	0	0	0	0	0	1	2100	581	21	3		3	C20orf195	20	62187601	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	149013	62187601	837919	468	62928										
TPD52L2	7165	broad.mit.edu	37	chr20	62505156	62505156	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccaggagctggcatgacgtgCaggtctctagcgcgtaggta	15	10	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:62505156C>T	uc002yhc.2	+	3	430	c.301C>T	c.(301-303)CAG>TAG	p.Q101*	TPD52L2_uc002ygy.2_Nonsense_Mutation_p.Q101*|TPD52L2_uc002ygz.2_Nonsense_Mutation_p.Q101*|TPD52L2_uc002yha.2_Nonsense_Mutation_p.Q101*|TPD52L2_uc002yhb.2_Nonsense_Mutation_p.Q101*|TPD52L2_uc002yhd.2_Nonsense_Mutation_p.Q101*|TPD52L2_uc011abk.1_Nonsense_Mutation_p.Q52*|TPD52L2_uc011abl.1_Nonsense_Mutation_p.Q78*|TPD52L2_uc002yhe.2_Silent_p.C3C	NM_003288	NP_003279	O43399	TPD54_HUMAN	tumor protein D52-like 2 isoform e	101					regulation of cell proliferation	perinuclear region of cytoplasm	protein binding|protein homodimerization activity			ovary(1)|skin(1)	2	all_cancers(38;1.3e-12)|all_epithelial(29;2.23e-14)|Lung NSC(23;5.92e-10)|all_lung(23;2.08e-09)					GCATGACGTGCAGGTCTCTAG	0.667													5	14	---	---	---	---	PASS	T	62505156	T	T	62505156	4	4	177	1	0	0	0	0	0	1	0	0	16396	711	25	3	311	3	TPD52L2	20	62505156	Nonsense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	317555	62505156	520364	469	62929										
SOX18	54345	broad.mit.edu	37	chr20	62680665	62680665	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cccgcggccggccgggctgaGgccatagcgccccggctcgg	17	18	0	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr20:62680665G>A	uc002yhs.2	-	1	315	c.205C>T	c.(205-207)CTC>TTC	p.L69F		NM_018419	NP_060889	P35713	SOX18_HUMAN	SRY-box 18	69					angiogenesis|blood vessel endothelial cell migration|endocardial cell differentiation|endocardium formation|establishment of endothelial barrier|heart looping|lymphangiogenesis|lymphatic endothelial cell differentiation|negative regulation of transcription, DNA-dependent|outflow tract morphogenesis|positive regulation of transcription from RNA polymerase II promoter|vasculogenesis	nucleus	transcription regulatory region DNA binding				0	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					GCCGGGCTGAGGCCATAgcgc	0.378													23	15	---	---	---	---	PASS	A	62680665	A	A	62680665	3	1	177	1	0	0	0	0	1	0	0	0	14948	1000	35	3	957	3	SOX18	20	62680665	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	175509	62680665	344855	470	62930										
PLAC4	191585	broad.mit.edu	37	chr21	42551398	42551398	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtgagggtgtccagggtgcaGagtgaggtgtccagggtgag	21	5	0	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr21:42551398G>C	uc002yyz.2	-	1	5769	c.158C>G	c.(157-159)TCT>TGT	p.S53C	BACE2_uc002yyw.2_Intron|BACE2_uc002yyx.2_Intron|BACE2_uc002yyy.2_Intron	NM_182832	NP_878252	Q8WY50	PLAC4_HUMAN	placenta-specific 4	53											0		Prostate(19;2.29e-06)				CCAGGGTGCAGAGTGAGGTGT	0.423													9	14	---	---	---	---	PASS	C	42551398	C	C	42551398	3	2	177	1	0	0	0	0	1	0	0	0	12014	942	33	2	298	2	PLAC4	21	42551398	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08		42551398	5578497	471	62931										
KRTAP10-1	386677	broad.mit.edu	37	chr21	45959496	45959496	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gggcacgcagcaggcctgctGgcagggggaggaggtgcagc	21	10	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr21:45959496G>T	uc002zfh.1	-	1	583	c.538C>A	c.(538-540)CAG>AAG	p.Q180K	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198691	NP_941964	P60331	KR101_HUMAN	keratin associated protein 10-1	180	24 X 5 AA repeats of C-C-X(3).					keratin filament				skin(1)	1						CAGGCCTGCTGGCAGGGGGAG	0.622													71	102	---	---	---	---	PASS	T	45959496	T	T	45959496	3	4	177	1	0	0	0	0	1	0	0	0	8505	1357	47	3	314	3	KRTAP10-1	21	45959496	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	3408098	45959496	2170399	472	62932										
MED15	51586	broad.mit.edu	37	chr22	20939445	20939445	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gatgatgagcggcagagcatCcccagtgtgctccagggtga	15	10	0	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr22:20939445C>T	uc002zsp.2	+	16	2102	c.2022C>T	c.(2020-2022)ATC>ATT	p.I674I	MED15_uc002zsq.2_Silent_p.I634I|MED15_uc010gso.2_Silent_p.I617I|MED15_uc002zsr.2_Silent_p.I608I|MED15_uc011ahs.1_Silent_p.I608I|MED15_uc002zss.2_Silent_p.I553I|MED15_uc011ahu.1_Silent_p.I384I|MED15_uc002zst.2_Silent_p.I290I|MED15_uc002zsu.2_Silent_p.I279I	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	674					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			GGCAGAGCATCCCCAGTGTGC	0.637													7	46	---	---	---	---	PASS	T	20939445	T	T	20939445	2	4	177	1	0	0	0	0	0	0	0	1	9433	845	30	2		2	MED15	22	20939445	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08		20939445	30365121	473	62933										
ZNF70	7621	broad.mit.edu	37	chr22	24086193	24086193	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gattctctggtgctggatcaGcgcagagctgtggcaaaagg	15	8	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr22:24086193G>C	uc002zxs.2	-	2	1596	c.1135C>G	c.(1135-1137)CTG>GTG	p.L379V	ZNF70_uc002zxr.1_5'Flank	NM_021916	NP_068735	Q9UC06	ZNF70_HUMAN	zinc finger protein 70	379	C2H2-type 9.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						TGCTGGATCAGCGCAGAGCTG	0.587													37	41	---	---	---	---	PASS	C	24086193	C	C	24086193	3	2	177	1	0	0	0	0	1	0	0	0	18100	962	34	4	209	4	ZNF70	22	24086193	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	3146748	24086193	27218373	474	62934										
EIF3D	8664	broad.mit.edu	37	chr22	36907704	36907704	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttcatgcagatgtcaatgacGcagcgtaaaatgccccaggc	10	11	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr22:36907704G>A	uc003apq.2	-	14	1595	c.1479C>T	c.(1477-1479)TGC>TGT	p.C493C	EIF3D_uc011amr.1_Silent_p.C320C|EIF3D_uc003apr.2_Silent_p.C493C|EIF3D_uc011ams.1_Silent_p.C396C|EIF3D_uc011amt.1_Silent_p.C444C	NM_003753	NP_003744	O15371	EIF3D_HUMAN	eukaryotic translation initiation factor 3	493						cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			pancreas(1)	1						TGTCAATGACGCAGCGTAAAA	0.552											OREG0026522	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	55	---	---	---	---	PASS	A	36907704	A	A	36907704	2	1	177	1	0	0	0	0	0	0	0	1	5014	1079	38	1		1	EIF3D	22	36907704	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	12821511	36907704	14396862	475	62935										
PLA2G6	8398	broad.mit.edu	37	chr22	38512212	38512212	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcagacagtgtccctgtcagCatcaccctggagagaaatga	10	11	3	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr22:38512212C>G	uc003auy.1	-	13	1885	c.1749G>C	c.(1747-1749)ATG>ATC	p.M583I	PLA2G6_uc003auz.1_Missense_Mutation_p.M529I|PLA2G6_uc003ava.1_Missense_Mutation_p.M583I|PLA2G6_uc003avb.2_Missense_Mutation_p.M529I|PLA2G6_uc010gxk.1_RNA|PLA2G6_uc003aux.1_5'Flank	NM_003560	NP_003551	O60733	PA2G6_HUMAN	phospholipase A2, group VI isoform a	583					cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)	TCCCTGTCAGCATCACCCTGG	0.597													18	19	---	---	---	---	PASS	G	38512212	G	G	38512212	3	3	177	1	0	0	0	0	1	0	0	0	12008	710	25	4	691	4	PLA2G6	22	38512212	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	1604508	38512212	12792354	476	62936										
CELSR1	9620	broad.mit.edu	37	chr22	46859807	46859807	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggagctgaggaagggcgcgGagctgtcgaatcgcagaacg	18	8	0	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr22:46859807G>A	uc003bhw.1	-	2	3980	c.3980C>T	c.(3979-3981)TCC>TTC	p.S1327F		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1327	Extracellular (Potential).|EGF-like 1; calcium-binding.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GAAGGGCGCGGAGCTGTCGAA	0.662													5	31	---	---	---	---	PASS	A	46859807	A	A	46859807	3	1	177	1	0	0	0	0	1	0	0	0	3221	1174	41	2	5200	2	CELSR1	22	46859807	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	8347595	46859807	4444759	477	62937										
BRD1	23774	broad.mit.edu	37	chr22	50187932	50187932	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gctctgttggcggggtccagCaacctgtccactgaaccaaa	11	13	1	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr22:50187932C>A	uc003biv.2	-	6	2596	c.2109G>T	c.(2107-2109)TTG>TTT	p.L703F	BRD1_uc011arf.1_Missense_Mutation_p.L298F|BRD1_uc011arg.1_Missense_Mutation_p.L752F|BRD1_uc011arh.1_Missense_Mutation_p.L703F|BRD1_uc003biu.3_Missense_Mutation_p.L703F	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	703					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CGGGGTCCAGCAACCTGTCCA	0.602													36	46	---	---	---	---	PASS	A	50187932	A	A	50187932	3	1	177	1	0	0	0	0	1	0	0	0	1501	709	25	3	1095	3	BRD1	22	50187932	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	3328125	50187932	1116634	478	62938										
SHANK3	85358	broad.mit.edu	37	chr22	51117572	51117572	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cttctccacgaccacgctcaGctggggatcaccgacgagaa	10	15	3	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chr22:51117572G>T	uc003bne.1	+	6	726	c.726G>T	c.(724-726)CAG>CAT	p.Q242H		NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	242										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		ACCACGCTCAGCTGGGGATCA	0.667													5	5	---	---	---	---	PASS	T	51117572	T	T	51117572	3	4	177	1	0	0	0	0	1	0	0	0	14266	962	34	3	748	3	SHANK3	22	51117572	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	929640	51117572	186994	479	62939										
ASMTL	8623	broad.mit.edu	37	chrX	1554621	1554621	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtaggcgtcctgcttgtccaCcggcttctccagaatcagcc	10	15	2	1			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:1554621C>T	uc004cpx.1	-	4	415	c.304G>A	c.(304-306)GTG>ATG	p.V102M	ASMTL_uc011mhe.1_Intron|ASMTL_uc004cpy.1_Missense_Mutation_p.V86M|ASMTL_uc011mhf.1_Missense_Mutation_p.V44M	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	102	MAF-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TGCTTGTCCACCGGCTTCTCC	0.617													19	49	---	---	---	---	PASS	T	1554621	T	T	1554621	3	4	177	1	0	0	0	0	1	0	0	0	1046	507	18	3	1601	3	ASMTL	23	1554621	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08		1554621	153715939	480	62940										
CNKSR2	22866	broad.mit.edu	37	chrX	21609200	21609200	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agatcttggccgtggtgactGtgagggctggctttggaaaa	16	6	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:21609200G>C	uc004czx.1	+	15	1754	c.1718G>C	c.(1717-1719)TGT>TCT	p.C573S	CNKSR2_uc004czw.2_Missense_Mutation_p.C573S|CNKSR2_uc011mjn.1_Missense_Mutation_p.C524S|CNKSR2_uc011mjo.1_Missense_Mutation_p.C543S|CNKSR2_uc004czy.2_Missense_Mutation_p.C165S	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	573	PH.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						CGTGGTGACTGTGAGGGCTGG	0.398													70	58	---	---	---	---	PASS	C	21609200	C	C	21609200	3	2	177	1	0	0	0	0	1	0	0	0	3607	1377	48	4	1776	4	CNKSR2	23	21609200	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	20054579	21609200	133661360	481	62941										
DCAF8L1	139425	broad.mit.edu	37	chrX	27999094	27999094	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ggtgccaccgcatcgtggacAcatccgaggctgttcttcct	11	14	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:27999094A>T	uc004dbx.1	-	1	473	c.358T>A	c.(358-360)TGT>AGT	p.C120S		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	120										ovary(3)|skin(1)	4						CATCGTGGACACATCCGAGGC	0.413													20	16	---	---	---	---	PASS	T	27999094	T	T	27999094	3	4	177	1	0	0	0	0	1	0	0	0	4277	159	6	5	1448	5	DCAF8L1	23	27999094	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	6389894	27999094	127271466	482	62942										
IL1RAPL1	11141	broad.mit.edu	37	chrX	29973346	29973346	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	accagacttcgaaatatgctTgtgactggagaaattaaagt	9	6	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:29973346T>A	uc004dby.2	+	11	2008	c.1500T>A	c.(1498-1500)CTT>CTA	p.L500L		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	500	Cytoplasmic (Potential).|TIR.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						GAAATATGCTTGTGACTGGAG	0.443													43	22	---	---	---	---	PASS	A	29973346	A	A	29973346	2	1	177	1	0	0	0	0	0	0	0	1	7661	1799	63	5		5	IL1RAPL1	23	29973346	Silent	SNP	T	TCGA-85-6560-01A-11D-1817-08	1974252	29973346	125297214	483	62943										
SYTL5	94122	broad.mit.edu	37	chrX	37965892	37965892	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ttacagtgaaacgggagactAtggcaacgtgaaagtcagtg	13	6	1	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:37965892A>G	uc004ddu.2	+	12	1736	c.1202A>G	c.(1201-1203)TAT>TGT	p.Y401C	SYTL5_uc004ddv.2_Missense_Mutation_p.Y401C|SYTL5_uc004ddx.2_Missense_Mutation_p.Y423C	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	401					intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						ACGGGAGACTATGGCAACGTG	0.423													3	53	---	---	---	---	PASS	G	37965892	G	G	37965892	3	3	177	1	0	0	0	0	1	0	0	0	15483	449	16	5	1310	5	SYTL5	23	37965892	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	7992546	37965892	117304668	484	62944										
RPGR	6103	broad.mit.edu	37	chrX	38164003	38164003	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	agaaaagtgccaagacccagCtgaccaaattgtcccagccc	8	14	0	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:38164003C>A	uc004ded.1	-	8	987	c.819G>T	c.(817-819)CAG>CAT	p.Q273H	RPGR_uc004deb.2_Missense_Mutation_p.Q273H|RPGR_uc004dea.2_RNA|RPGR_uc004dec.2_RNA|RPGR_uc004dee.1_5'UTR	NM_001034853	NP_001030025	Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator isoform C	273	RCC1 5.				intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						CAAGACCCAGCTGACCAAATT	0.388													14	6	---	---	---	---	PASS	A	38164003	A	A	38164003	3	1	177	1	0	0	0	0	1	0	0	0	13548	796	28	3	3230	3	RPGR	23	38164003	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	198111	38164003	117106557	485	62945										
RIBC1	158787	broad.mit.edu	37	chrX	53455274	53455274	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	gtggtagtccagatgttagaGaaggaagaggcagatcgaac	15	5	0	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:53455274G>A	uc004dsk.2	+	5	396	c.243G>A	c.(241-243)GAG>GAA	p.E81E	RIBC1_uc004dsj.1_Silent_p.E81E|RIBC1_uc011mog.1_Intron	NM_001031745	NP_001026915	Q8N443	RIBC1_HUMAN	RIB43A domain with coiled-coils 1 isoform 1	81											0						AGATGTTAGAGAAGGAAGAGG	0.532													20	43	---	---	---	---	PASS	A	53455274	A	A	53455274	2	1	177	1	0	0	0	0	0	0	0	1	13352	933	33	2		2	RIBC1	23	53455274	Silent	SNP	G	TCGA-85-6560-01A-11D-1817-08	15291271	53455274	101815286	486	62946										
PCDH11X	27328	broad.mit.edu	37	chrX	91090520	91090520	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tggtatggacttgttgtccgGgacgtacattttcgcggtcc	13	9	0	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:91090520G>T	uc004efk.1	+	1	862	c.17G>T	c.(16-18)GGG>GTG	p.G6V	PCDH11X_uc004efl.1_Missense_Mutation_p.G6V|PCDH11X_uc004efo.1_Missense_Mutation_p.G6V|PCDH11X_uc010nmv.1_Missense_Mutation_p.G6V|PCDH11X_uc004efm.1_Missense_Mutation_p.G6V|PCDH11X_uc004efn.1_Missense_Mutation_p.G6V|PCDH11X_uc004efh.1_Missense_Mutation_p.G6V|PCDH11X_uc004efj.1_Missense_Mutation_p.G6V	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	6					homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TTGTTGTCCGGGACGTACATT	0.483													47	31	---	---	---	---	PASS	T	91090520	T	T	91090520	3	4	177	1	0	0	0	0	1	0	0	0	11508	1232	43	3	19	3	PCDH11X	23	91090520	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	37635246	91090520	64180040	487	62947										
MORF4L2	9643	broad.mit.edu	37	chrX	102931868	102931868	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ccctctcattttacttctctGcatgttgcttctagttggtt	6	11	3	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:102931868G>A	uc004ekw.2	-	4	1320	c.88C>T	c.(88-90)CAG>TAG	p.Q30*	MORF4L2_uc004ela.2_Nonsense_Mutation_p.Q30*|MORF4L2_uc004ekx.2_Nonsense_Mutation_p.Q30*|MORF4L2_uc004elb.2_Nonsense_Mutation_p.Q30*|MORF4L2_uc004eky.2_Nonsense_Mutation_p.Q30*|MORF4L2_uc010nos.2_Nonsense_Mutation_p.Q30*|MORF4L2_uc004ekz.2_Nonsense_Mutation_p.Q30*|MORF4L2_uc011mry.1_Nonsense_Mutation_p.Q30*|MORF4L2_uc011mrz.1_Nonsense_Mutation_p.Q30*|MORF4L2_uc004elc.2_Nonsense_Mutation_p.Q30*|MORF4L2_uc004elf.2_Nonsense_Mutation_p.Q30*|MORF4L2_uc004ele.2_Nonsense_Mutation_p.Q30*|MORF4L2_uc011msa.1_Nonsense_Mutation_p.Q30*|MORF4L2_uc011msb.1_Nonsense_Mutation_p.Q30*|MORF4L2_uc011msc.1_Nonsense_Mutation_p.Q30*|MORF4L2_uc011msd.1_Nonsense_Mutation_p.Q30*|MORF4L2_uc004eld.2_Nonsense_Mutation_p.Q30*	NM_012286	NP_036418	Q15014	MO4L2_HUMAN	mortality factor 4 like 2	30					chromatin modification|DNA repair|regulation of cell growth|transcription, DNA-dependent	nucleolus	protein binding				0						TTACTTCTCTGCATGTTGCTT	0.478													5	119	---	---	---	---	PASS	A	102931868	A	A	102931868	4	1	177	1	0	0	0	0	0	1	0	0	9707	1328	46	3	782	3	MORF4L2	23	102931868	Nonsense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	11841348	102931868	52338692	488	62948										
PRPS1	5631	broad.mit.edu	37	chrX	106888416	106888416	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctgttttgcagagtgacctcCattgcagacaggctgaatgt	11	9	0	4			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:106888416C>T	uc004ene.3	+	5	745	c.540C>T	c.(538-540)TCC>TCT	p.S180S	PRPS1_uc010npg.2_Silent_p.S147S|PRPS1_uc011msj.1_5'UTR	NM_002764	NP_002755	P60891	PRPS1_HUMAN	phosphoribosyl pyrophosphate synthetase 1	180					5-phosphoribose 1-diphosphate biosynthetic process|hypoxanthine biosynthetic process|nervous system development|nucleoside metabolic process|purine nucleotide biosynthetic process|pyrimidine nucleotide biosynthetic process|ribonucleoside monophosphate biosynthetic process|urate biosynthetic process	cytosol	ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			breast(3)|large_intestine(1)	4						GAGTGACCTCCATTGCAGACA	0.393													67	116	---	---	---	---	PASS	T	106888416	T	T	106888416	2	4	177	1	0	0	0	0	0	0	0	1	12578	581	21	3		3	PRPS1	23	106888416	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08	3956548	106888416	48382144	489	62949										
DOCK11	139818	broad.mit.edu	37	chrX	117809915	117809915	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tcagaaacttactcaagtttAtagaactcttcatggagctt	6	8	4	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:117809915A>G	uc004eqp.2	+	47	5279	c.5216A>G	c.(5215-5217)TAT>TGT	p.Y1739C	DOCK11_uc004eqq.2_Missense_Mutation_p.Y1518C	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1739	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						ACTCAAGTTTATAGAACTCTT	0.289													22	11	---	---	---	---	PASS	G	117809915	G	G	117809915	3	3	177	1	0	0	0	0	1	0	0	0	4686	449	16	5	5402	5	DOCK11	23	117809915	Missense_Mutation	SNP	A	TCGA-85-6560-01A-11D-1817-08	10921499	117809915	37460645	490	62950										
GRIA3	2892	broad.mit.edu	37	chrX	122537353	122537353	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	cctcagagaatcggaccataGtagtgactaccattctggta	9	10	2	2			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:122537353G>T	uc004etq.3	+	10	1569	c.1276G>T	c.(1276-1278)GTA>TTA	p.V426L	GRIA3_uc004etr.3_Missense_Mutation_p.V426L|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.V410L	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	426	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	TCGGACCATAGTAGTGACTAC	0.438													96	47	---	---	---	---	PASS	T	122537353	T	T	122537353	3	4	177	1	0	0	0	0	1	0	0	0	6769	1029	36	3	1310	3	GRIA3	23	122537353	Missense_Mutation	SNP	G	TCGA-85-6560-01A-11D-1817-08	4727438	122537353	32733207	491	62951										
AFF2	2334	broad.mit.edu	37	chrX	147743938	147743938	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	tctagtggagaagatgctttCaaagaaatctttcaatccaa	7	7	4	3			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrX:147743938C>G	uc004fcp.2	+	3	1169	c.690C>G	c.(688-690)TTC>TTG	p.F230L	AFF2_uc004fco.2_Missense_Mutation_p.F226L|AFF2_uc004fcq.2_Missense_Mutation_p.F226L|AFF2_uc004fcr.2_Missense_Mutation_p.F226L|AFF2_uc011mxb.1_Missense_Mutation_p.F230L|AFF2_uc004fcs.2_Missense_Mutation_p.F226L	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	230					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					AAGATGCTTTCAAAGAAATCT	0.468													115	65	---	---	---	---	PASS	G	147743938	G	G	147743938	3	3	177	1	0	0	0	0	1	0	0	0	357	825	29	2	700	2	AFF2	23	147743938	Missense_Mutation	SNP	C	TCGA-85-6560-01A-11D-1817-08	25206585	147743938	7526622	492	62952										
PCDH11Y	83259	broad.mit.edu	37	chrY	5605740	5605740	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.073469387755102	36	0.0970792219445024	1.28759493670886	2.41801866048612	0.66542373990122	0.0220175508521949	0.157643740096309	0	ctgccacaggttattgccctCcatcgtagtcaggcccaatc	8	15	1	0			TCGA-85-6560-01A-11D-1817-08	TCGA-85-6560-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	a5a156b8-2c8a-4ed0-8bae-b60cdc95698f	c8421b8a-09f9-4107-a899-d3bd3ca78b71	g.chrY:5605740C>T	uc004fqo.2	+	5	4514	c.3780C>T	c.(3778-3780)CTC>CTT	p.L1260L		NM_032973	NP_116755	Q9BZA8	PC11Y_HUMAN	protocadherin 11 Y-linked isoform c	1260	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						TTATTGCCCTCCATCGTAGTC	0.547													70	119	---	---	---	---	PASS	T	5605740	T	T	5605740	2	4	177	1	0	0	0	0	0	0	0	1	11509	842	30	2		2	PCDH11Y	24	5605740	Silent	SNP	C	TCGA-85-6560-01A-11D-1817-08		5605740	53767826	493	62953										
GNB1	2782	broad.mit.edu	37	chr1	1756837	1756837	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agcacacacaactacatactCgaatctggttcttaagttgc	6	11	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:1756837C>A	uc001aif.2	-	3	388	c.56G>T	c.(55-57)CGA>CTA	p.R19L	GNB1_uc009vky.2_5'UTR	NM_002074	NP_002065	P62873	GBB1_HUMAN	guanine nucleotide-binding protein, beta-1	19					cellular response to glucagon stimulus|energy reserve metabolic process|muscarinic acetylcholine receptor signaling pathway|platelet activation|Ras protein signal transduction|synaptic transmission	heterotrimeric G-protein complex	GTPase activity|GTPase binding|signal transducer activity				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.62e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;1.14e-35)|OV - Ovarian serous cystadenocarcinoma(86;7.31e-23)|GBM - Glioblastoma multiforme(42;3.1e-07)|COAD - Colon adenocarcinoma(227;0.000323)|Colorectal(212;0.000374)|Kidney(185;0.00392)|BRCA - Breast invasive adenocarcinoma(365;0.00573)|STAD - Stomach adenocarcinoma(132;0.0072)|KIRC - Kidney renal clear cell carcinoma(229;0.0482)|Lung(427;0.236)		ACTACATACTCGAATCTGGTT	0.403													12	250	---	---	---	---	PASS	A	1756837	A	A	1756837	3	1	178	1	0	0	0	0	1	0	0	0	6515	898	31	2	1002	2	GNB1	1	1756837	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08		1756837	247493784	1	62954										
PER3	8863	broad.mit.edu	37	chr1	7887545	7887545	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctttcccttttccttacttGgatacttttatgaccgtttt	5	10	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:7887545G>T	uc001aoo.2	+	17	2707	c.2532G>T	c.(2530-2532)TTG>TTT	p.L844F	PER3_uc009vmg.1_Missense_Mutation_p.L852F|PER3_uc009vmh.1_Missense_Mutation_p.L845F|PER3_uc001aop.2_Missense_Mutation_p.L852F|PER3_uc010nzw.1_Missense_Mutation_p.L533F	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	844	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		TTCCTTACTTGGATACTTTTA	0.567													7	115	---	---	---	---	PASS	T	7887545	T	T	7887545	3	4	178	1	0	0	0	0	1	0	0	0	11731	1339	47	3	2598	3	PER3	1	7887545	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6130708	7887545	241363076	2	62955										
MTOR	2475	broad.mit.edu	37	chr1	11217271	11217271	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agctctgggtcgtccttgttGgtgtccattttcttgtcata	10	9	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:11217271G>T	uc001asd.2	-	30	4528	c.4407C>A	c.(4405-4407)ACC>ACA	p.T1469T		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	1469	FAT.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						CGTCCTTGTTGGTGTCCATTT	0.542													6	61	---	---	---	---	PASS	T	11217271	T	T	11217271	2	4	178	1	0	0	0	0	0	0	0	1	9954	1335	47	3		3	MTOR	1	11217271	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	3329726	11217271	238033350	3	62956										
PRAMEF1	65121	broad.mit.edu	37	chr1	12854104	12854104	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggatttgcgggatgttgacGagaatttctgggccagatgg	16	5	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:12854104G>T	uc001auj.1	+	3	431	c.328G>T	c.(328-330)GAG>TAG	p.E110*		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	110											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GGATGTTGACGAGAATTTCTG	0.532													7	171	---	---	---	---	PASS	T	12854104	T	T	12854104	4	4	178	1	0	0	0	0	0	1	0	0	12425	1059	37	2	334	2	PRAMEF1	1	12854104	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1636833	12854104	236396517	4	62957										
NBPF1	55672	broad.mit.edu	37	chr1	16893674	16893674	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttcatagaaaggtactcacCatccatgtcaagagcccagc	7	13	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:16893674C>A	uc009vos.1	-	26	3952	c.3064G>T	c.(3064-3066)GGA>TGA	p.G1022*	NBPF1_uc009vot.1_Nonsense_Mutation_p.E405*|NBPF1_uc001ayz.1_Nonsense_Mutation_p.E405*|NBPF1_uc010oce.1_3'UTR	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	1022	NBPF 6.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		AGGTACTCACCATCCATGTCA	0.463													16	743	---	---	---	---	PASS	A	16893674	A	A	16893674	4	1	178	1	0	0	0	0	0	1	0	0	10192	608	21	3	605	3	NBPF1	1	16893674	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4039570	16893674	232356947	5	62958										
UBR4	23352	broad.mit.edu	37	chr1	19408050	19408050	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttggaggttcttctcttctCgggaagttgctcgggttcta	12	9	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:19408050C>A	uc001bbi.2	-	103	15030	c.15026G>T	c.(15025-15027)CGA>CTA	p.R5009L	UBR4_uc001bbf.2_5'UTR|UBR4_uc010ocv.1_Missense_Mutation_p.R532L|UBR4_uc009vph.2_Missense_Mutation_p.R643L|UBR4_uc010ocw.1_Missense_Mutation_p.R673L|UBR4_uc001bbg.2_Missense_Mutation_p.R720L|UBR4_uc001bbh.2_Missense_Mutation_p.R718L	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	5009					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CTTCTCTTCTCGGGAAGTTGC	0.507													5	77	---	---	---	---	PASS	A	19408050	A	A	19408050	3	1	178	1	0	0	0	0	1	0	0	0	16901	884	31	2	541	2	UBR4	1	19408050	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2514376	19408050	229842571	6	62959										
PLA2G2E	30814	broad.mit.edu	37	chr1	20249204	20249204	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggacttgcctgtcatcttctCgatcatcaccccaaactgaa	6	14	5	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:20249204C>A	uc001bct.1	-	2	143	c.85G>T	c.(85-87)GAG>TAG	p.E29*		NM_014589	NP_055404	Q9NZK7	PA2GE_HUMAN	phospholipase A2, group IIE precursor	29					inflammatory response|lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|phospholipase A2 activity				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|GBM - Glioblastoma multiforme(114;0.000146)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GTCATCTTCTCGATCATCACC	0.522													4	30	---	---	---	---	PASS	A	20249204	A	A	20249204	4	1	178	1	0	0	0	0	0	1	0	0	11998	893	31	2	355	2	PLA2G2E	1	20249204	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	841154	20249204	229001417	7	62960										
EIF4G3	8672	broad.mit.edu	37	chr1	21177916	21177916	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctcatgaaagtatttggccGagctgttgcagatggaaggg	14	7	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:21177916G>T	uc001bec.2	-	23	3695	c.3439C>A	c.(3439-3441)CGG>AGG	p.R1147R	EIF4G3_uc010odi.1_Silent_p.R751R|EIF4G3_uc010odj.1_Silent_p.R1146R|EIF4G3_uc009vpz.2_Silent_p.R867R|EIF4G3_uc001bed.2_Silent_p.R1147R|EIF4G3_uc001bef.2_Silent_p.R1183R|EIF4G3_uc001bee.2_Silent_p.R1153R	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	1147					interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		GTATTTGGCCGAGCTGTTGCA	0.488													5	56	---	---	---	---	PASS	T	21177916	T	T	21177916	2	4	178	1	0	0	0	0	0	0	0	1	5038	1057	37	2		2	EIF4G3	1	21177916	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	928712	21177916	228072705	8	62961										
SEPN1	57190	broad.mit.edu	37	chr1	26142090	26142090	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acatcacctccgtgaagcccGaggaaatcgagagcaatctc	9	13	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:26142090G>T	uc010oer.1	+	16	1709	c.1654G>T	c.(1654-1656)GAG>TAG	p.E552*	SEPN1_uc010oes.1_Nonsense_Mutation_p.E518*	NM_020451	NP_065184	Q9NZV5	SELN_HUMAN	selenoprotein N, 1 isoform 1 precursor	552						endoplasmic reticulum membrane|extracellular region	protein binding			ovary(2)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0421)|OV - Ovarian serous cystadenocarcinoma(117;1.26e-25)|Colorectal(126;3.01e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0143)|READ - Rectum adenocarcinoma(331;0.0649)		CGTGAAGCCCGAGGAAATCGA	0.602													5	72	---	---	---	---	PASS	T	26142090	T	T	26142090	4	4	178	1	0	0	0	0	0	1	0	0	14056	1059	37	2	1704	2	SEPN1	1	26142090	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	4964174	26142090	223108531	9	62962										
PTAFR	5724	broad.mit.edu	37	chr1	28476668	28476668	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaaacagtagataacagggtCtaagacacagttggtgctaa	11	6	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:28476668C>G	uc001bpl.2	-	2	992	c.865G>C	c.(865-867)GAC>CAC	p.D289H	PTAFR_uc001bpm.3_Missense_Mutation_p.D289H|PTAFR_uc009vte.2_Missense_Mutation_p.D289H	NM_000952	NP_000943	P25105	PTAFR_HUMAN	platelet-activating factor receptor	289	Helical; Name=7; (Potential).				chemotaxis|inflammatory response|interferon-gamma-mediated signaling pathway|phosphatidylinositol-mediated signaling	integral to plasma membrane|nucleus	phospholipid binding|platelet activating factor receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00715)|all_lung(284;0.00732)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.215)|OV - Ovarian serous cystadenocarcinoma(117;6e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|STAD - Stomach adenocarcinoma(196;0.00678)|READ - Rectum adenocarcinoma(331;0.0649)		ATAACAGGGTCTAAGACACAG	0.537													5	18	---	---	---	---	PASS	G	28476668	G	G	28476668	3	3	178	1	0	0	0	0	1	0	0	0	12723	913	32	2	167	2	PTAFR	1	28476668	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2334578	28476668	220773953	10	62963										
LAPTM5	7805	broad.mit.edu	37	chr1	31208107	31208107	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cgccacacgcacttgaacatGtagacctggaaaaaggccca	9	13	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:31208107G>T	uc001bsc.2	-	7	703	c.612C>A	c.(610-612)TAC>TAA	p.Y204*		NM_006762	NP_006753	Q13571	LAPM5_HUMAN	lysosomal protein transmembrane 5	204	Helical; (Potential).				transport	integral to plasma membrane|lysosomal membrane					0		Colorectal(325;0.0199)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0966)|Medulloblastoma(700;0.151)|Ovarian(437;0.192)		STAD - Stomach adenocarcinoma(196;0.0196)|READ - Rectum adenocarcinoma(331;0.0649)		ACTTGAACATGTAGACCTGGA	0.552													5	67	---	---	---	---	PASS	T	31208107	T	T	31208107	4	4	178	1	0	0	0	0	0	1	0	0	8626	1372	48	3	184	3	LAPTM5	1	31208107	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2731439	31208107	218042514	11	62964										
AK2	204	broad.mit.edu	37	chr1	33480161	33480161	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttttggagggttgaactcctCgtggtaggaacggccactct	13	9	1	1	rs148421308	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:33480161C>A	uc001bwp.1	-	5	502	c.460G>T	c.(460-462)GAG>TAG	p.E154*	uc001bwn.2_Intron|AK2_uc001bwo.1_Nonsense_Mutation_p.E154*|AK2_uc010ohq.1_Nonsense_Mutation_p.E146*|AK2_uc009vud.1_Nonsense_Mutation_p.E112*|AK2_uc010ohr.1_Nonsense_Mutation_p.E106*|AK2_uc001bwq.1_Nonsense_Mutation_p.E106*	NM_001625	NP_001616	P54819	KAD2_HUMAN	adenylate kinase 2 isoform a	154					nucleobase, nucleoside and nucleotide interconversion	mitochondrial intermembrane space	adenylate kinase activity|ATP binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				TTGAACTCCTCGTGGTAGGAA	0.383													7	197	---	---	---	---	PASS	A	33480161	A	A	33480161	4	1	178	1	0	0	0	0	0	1	0	0	440	893	31	2	276	2	AK2	1	33480161	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2272054	33480161	215770460	12	62965										
ZMYM4	9202	broad.mit.edu	37	chr1	35879662	35879662	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	accaaactcttgaaaatatgGgaacctacaatacttcctaa	4	10	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:35879662G>T	uc001byt.2	+	27	4118	c.4038G>T	c.(4036-4038)TGG>TGT	p.W1346C	ZMYM4_uc009vuu.2_Missense_Mutation_p.W1314C|ZMYM4_uc001byu.2_Missense_Mutation_p.W1022C|ZMYM4_uc009vuv.2_Missense_Mutation_p.W1085C	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	1346					multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TGAAAATATGGGAACCTACAA	0.279													7	74	---	---	---	---	PASS	T	35879662	T	T	35879662	3	4	178	1	0	0	0	0	1	0	0	0	17699	1241	43	3	4144	3	ZMYM4	1	35879662	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2399501	35879662	213370959	13	62966										
EIF2C1	26523	broad.mit.edu	37	chr1	36383327	36383327	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgtgctgacaagaatgagcGagtgagtgagggactgaggc	17	6	0	6			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:36383327G>T	uc001bzl.2	+	16	2375	c.2162G>T	c.(2161-2163)CGA>CTA	p.R721L	EIF2C1_uc001bzk.2_Missense_Mutation_p.R646L|EIF2C1_uc009vuy.2_RNA	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	721	Piwi.				negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				AAGAATGAGCGAGTGAGTGAG	0.502													6	96	---	---	---	---	PASS	T	36383327	T	T	36383327	3	4	178	1	0	0	0	0	1	0	0	0	5005	1072	37	2	2224	2	EIF2C1	1	36383327	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	503665	36383327	212867294	14	62967										
SF3A3	10946	broad.mit.edu	37	chr1	38453319	38453319	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttcagcaaactcattgggtcCtgaaatggcattgagctcct	9	10	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:38453319C>A	uc001cci.2	-	4	353	c.229G>T	c.(229-231)GGA>TGA	p.G77*	SF3A3_uc010oik.1_Intron	NM_006802	NP_006793	Q12874	SF3A3_HUMAN	splicing factor 3a, subunit 3	77					nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nuclear speck	nucleic acid binding|protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TCATTGGGTCCTGAAATGGCA	0.403													7	116	---	---	---	---	PASS	A	38453319	A	A	38453319	4	1	178	1	0	0	0	0	0	1	0	0	14148	690	24	3	1332	3	SF3A3	1	38453319	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2069992	38453319	210797302	15	62968										
MACF1	23499	broad.mit.edu	37	chr1	39801335	39801335	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaaatgacctcaagtgaaaaAgggaaagaagctgatacaga	11	5	1	5			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:39801335A>G	uc010oiu.1	+	1	4526	c.4395A>G	c.(4393-4395)AAA>AAG	p.K1465K	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3030					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)			CAAGTGAAAAAGGGAAAGAAG	0.368													3	66	---	---	---	---	PASS	G	39801335	G	G	39801335	2	3	178	1	0	0	0	0	0	0	0	1	9144	69	3	5		5	MACF1	1	39801335	Silent	SNP	A	TCGA-85-6561-01A-11D-1817-08	1348016	39801335	209449286	16	62969										
PABPC4	8761	broad.mit.edu	37	chr1	40035605	40035605	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagtttttgatataaacattGgtgaattccttggctttggc	9	5	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:40035605G>T	uc010oiv.1	-	4	1471	c.573C>A	c.(571-573)ACC>ACA	p.T191T	PABPC4_uc001cdl.2_Silent_p.T191T|PABPC4_uc001cdm.2_Silent_p.T191T|SNORA55_uc001cdo.1_5'Flank	NM_003819	NP_003810	Q13310	PABP4_HUMAN	poly A binding protein, cytoplasmic 4 isoform 2	191	RRM 3.				blood coagulation|RNA catabolic process|RNA processing|translation	cytoplasm|ribonucleoprotein complex	nucleotide binding|poly(A) RNA binding|poly(U) RNA binding|protein binding				0	Lung NSC(20;1.55e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.89e-18)|Epithelial(16;6.17e-17)|all cancers(16;1.18e-15)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TATAAACATTGGTGAATTCCT	0.423													6	57	---	---	---	---	PASS	T	40035605	T	T	40035605	2	4	178	1	0	0	0	0	0	0	0	1	11366	1335	47	3		3	PABPC4	1	40035605	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	234270	40035605	209215016	17	62970										
ZNF642	339559	broad.mit.edu	37	chr1	40961342	40961342	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctttagacagattagacacCttagtgaacatataagaatt	6	7	0	5			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:40961342C>A	uc001cfo.2	+	6	1486	c.1192C>A	c.(1192-1194)CTT>ATT	p.L398I	ZNF642_uc009vwb.2_Missense_Mutation_p.L398I|ZNF642_uc010ojk.1_Missense_Mutation_p.L399I	NM_198494	NP_940896	Q49AA0	ZN642_HUMAN	zinc finger protein 642	398	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.81e-19)			GATTAGACACCTTAGTGAACA	0.408													5	34	---	---	---	---	PASS	A	40961342	A	A	40961342	3	1	178	1	0	0	0	0	1	0	0	0	18055	681	24	3	1210	3	ZNF642	1	40961342	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	925737	40961342	208289279	18	62971										
WDR65	149465	broad.mit.edu	37	chr1	43649507	43649507	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ataatggtcaaggaacctacCaatggctcaaagagcctgga	10	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:43649507C>A	uc001cip.1	+	4	841	c.720C>A	c.(718-720)ACC>ACA	p.T240T	EBNA1BP2_uc001cio.2_Intron|WDR65_uc010ojz.1_Silent_p.T229T|WDR65_uc001ciq.1_Silent_p.T240T	NM_152498	NP_689711	Q96MR6	WDR65_HUMAN	WD repeat domain 65	240										skin(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AGGAACCTACCAATGGCTCAA	0.483													5	74	---	---	---	---	PASS	A	43649507	A	A	43649507	2	1	178	1	0	0	0	0	0	0	0	1	17313	581	21	3		3	WDR65	1	43649507	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	2688165	43649507	205601114	19	62972										
DPH2	1802	broad.mit.edu	37	chr1	44437066	44437066	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccttctcttccagaggctttGgctactctcctgcgcccacg	8	17	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:44437066G>T	uc001ckz.2	+	4	687	c.492G>T	c.(490-492)TTG>TTT	p.L164F	DPH2_uc001cla.2_Intron|DPH2_uc010okk.1_Missense_Mutation_p.L29F|DPH2_uc001clb.2_Missense_Mutation_p.L88F	NM_001384	NP_001375	Q9BQC3	DPH2_HUMAN	diphthamide biosynthesis protein 2 isoform a	164					peptidyl-diphthamide biosynthetic process from peptidyl-histidine	cytoplasm				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				CAGAGGCTTTGGCTACTCTCC	0.587													5	18	---	---	---	---	PASS	T	44437066	T	T	44437066	3	4	178	1	0	0	0	0	1	0	0	0	4720	1339	47	3	506	3	DPH2	1	44437066	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	787559	44437066	204813555	20	62973										
FOXD2	2306	broad.mit.edu	37	chr1	47904255	47904255	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gccccaagaagcggctgacgTtgagcgagatctgcgagttc	14	11	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:47904255T>C	uc001crm.2	+	1	2567	c.448T>C	c.(448-450)TTG>CTG	p.L150L		NM_004474	NP_004465	O60548	FOXD2_HUMAN	forkhead box D2	150	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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				0				READ - Rectum adenocarcinoma(2;0.0908)		GCGGCTGACGTTGAGCGAGAT	0.582													6	21	---	---	---	---	PASS	C	47904255	C	C	47904255	2	2	178	1	0	0	0	0	0	0	0	1	5997	1722	60	5		5	FOXD2	1	47904255	Silent	SNP	T	TCGA-85-6561-01A-11D-1817-08	3467189	47904255	201346366	21	62974										
PRKAA2	5563	broad.mit.edu	37	chr1	57170117	57170117	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cattatggctgaagtttaccGagctatgaagcagctggatt	11	7	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:57170117G>T	uc001cyk.3	+	7	1333	c.1262G>T	c.(1261-1263)CGA>CTA	p.R421L		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	421					carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						GAAGTTTACCGAGCTATGAAG	0.378													5	82	---	---	---	---	PASS	T	57170117	T	T	57170117	3	4	178	1	0	0	0	0	1	0	0	0	12494	1058	37	2	1288	2	PRKAA2	1	57170117	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	9265862	57170117	192080504	22	62975										
MSH4	4438	broad.mit.edu	37	chr1	76363685	76363685	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgcattttgaagttcaacatGtaaagaatacctcaagaaat	6	6	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:76363685G>A	uc001dhd.1	+	18	2490	c.2449G>A	c.(2449-2451)GTA>ATA	p.V817I		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	817					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						AGTTCAACATGTAAAGAATAC	0.333								MMR					21	82	---	---	---	---	PASS	A	76363685	A	A	76363685	3	1	178	1	0	0	0	0	1	0	0	0	9872	1377	48	3	2519	3	MSH4	1	76363685	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	19193568	76363685	172886936	23	62976										
FUBP1	8880	broad.mit.edu	37	chr1	78414917	78414917	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgcttgttgtctataatactCagcccaggctgcactataat	7	10	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:78414917C>A	uc001dii.2	-	19	1938	c.1849G>T	c.(1849-1851)GAG>TAG	p.E617*	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Nonsense_Mutation_p.E638*	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	617					transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						CTATAATACTCAGCCCAGGCT	0.483													6	51	---	---	---	---	PASS	A	78414917	A	A	78414917	4	1	178	1	0	0	0	0	0	1	0	0	6092	835	29	2	93	2	FUBP1	1	78414917	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2051232	78414917	170835704	24	62977										
ELTD1	64123	broad.mit.edu	37	chr1	79383618	79383618	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaaattcttgtgcaaaaatcCcttgttgtagatgacaccca	6	9	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:79383618C>A	uc001diq.3	-	11	1735	c.1579G>T	c.(1579-1581)GGA>TGA	p.G527*		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	527	Cytoplasmic (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)		TGCAAAAATCCCTTGTTGTAG	0.418													7	123	---	---	---	---	PASS	A	79383618	A	A	79383618	4	1	178	1	0	0	0	0	0	1	0	0	5084	632	22	3	513	3	ELTD1	1	79383618	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	968701	79383618	169867003	25	62978										
LPHN2	23266	broad.mit.edu	37	chr1	82409087	82409087	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atggtttatgggtcatttacGccactgaacagaacaatgga	10	7	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:82409087G>A	uc001dit.3	+	6	1013	c.832G>A	c.(832-834)GCC>ACC	p.A278T	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.A278T|LPHN2_uc001div.2_Missense_Mutation_p.A278T|LPHN2_uc009wcd.2_Missense_Mutation_p.A278T	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	278	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding	p.A278P(2)		ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		GGTCATTTACGCCACTGAACA	0.428													11	38	---	---	---	---	PASS	A	82409087	A	A	82409087	3	1	178	1	0	0	0	0	1	0	0	0	8916	1087	38	1	846	1	LPHN2	1	82409087	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3025469	82409087	166841534	26	62979										
SSX2IP	117178	broad.mit.edu	37	chr1	85127909	85127909	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tactatcatctactctttctCtaggtttcttcttttgggga	6	9	6	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:85127909C>A	uc001dkh.2	-	9	1174	c.899G>T	c.(898-900)AGA>ATA	p.R300I	SSX2IP_uc001dkf.2_Missense_Mutation_p.R273I|SSX2IP_uc001dkg.2_RNA|SSX2IP_uc010orz.1_Missense_Mutation_p.R273I|SSX2IP_uc001dki.2_Missense_Mutation_p.R300I|SSX2IP_uc010osa.1_Missense_Mutation_p.R273I|SSX2IP_uc001dkj.2_Missense_Mutation_p.R300I|SSX2IP_uc009wci.2_Intron|SSX2IP_uc001dkk.1_Missense_Mutation_p.R296I	NM_014021	NP_054740	Q9Y2D8	ADIP_HUMAN	synovial sarcoma, X breakpoint 2 interacting	300					cell adhesion	nucleus|protein complex				ovary(2)	2				all cancers(265;0.0053)|Epithelial(280;0.0214)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		TACTCTTTCTCTAGGTTTCTT	0.338													9	172	---	---	---	---	PASS	A	85127909	A	A	85127909	3	1	178	1	0	0	0	0	1	0	0	0	15203	913	32	2	973	2	SSX2IP	1	85127909	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2718822	85127909	164122712	27	62980										
CLCA2	9635	broad.mit.edu	37	chr1	86900260	86900260	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcaccaaacctacagaaccaGatgtgcagcctcagaagtgc	9	13	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:86900260G>C	uc001dlr.3	+	6	966	c.804G>C	c.(802-804)CAG>CAC	p.Q268H		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor	268	Extracellular (Potential).				cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		TACAGAACCAGATGTGCAGCC	0.453													10	49	---	---	---	---	PASS	C	86900260	C	C	86900260	3	2	178	1	0	0	0	0	1	0	0	0	3458	933	33	2	826	2	CLCA2	1	86900260	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1772351	86900260	162350361	28	62981										
CLCA4	22802	broad.mit.edu	37	chr1	87031604	87031604	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tctgaggattttaaaaacacCatacccatggtgacaccacc	6	12	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:87031604C>A	uc009wcs.2	+	6	899	c.855C>A	c.(853-855)ACC>ACA	p.T285T	CLCA4_uc009wct.2_Silent_p.T48T|CLCA4_uc009wcu.2_Silent_p.T105T	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	285						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		TTAAAAACACCATACCCATGG	0.408													8	97	---	---	---	---	PASS	A	87031604	A	A	87031604	2	1	178	1	0	0	0	0	0	0	0	1	3459	581	21	3		3	CLCA4	1	87031604	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	131344	87031604	162219017	29	62982										
LRRC8B	23507	broad.mit.edu	37	chr1	90048540	90048540	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atattgatgccgtctgttacGagaaacagctccattggttt	9	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:90048540G>T	uc001dni.2	+	7	838	c.331G>T	c.(331-333)GAG>TAG	p.E111*	LRRC8B_uc001dnh.2_Nonsense_Mutation_p.E111*|LRRC8B_uc001dnj.2_Nonsense_Mutation_p.E111*	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	111						integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		CGTCTGTTACGAGAAACAGCT	0.512													7	90	---	---	---	---	PASS	T	90048540	T	T	90048540	4	4	178	1	0	0	0	0	0	1	0	0	9022	1059	37	2	333	2	LRRC8B	1	90048540	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3016936	90048540	159202081	30	62983										
ZNF644	84146	broad.mit.edu	37	chr1	91406192	91406192	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgaggaaattcccgttactGtattgacacaatcatctttc	6	10	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:91406192G>T	uc001dnw.2	-	3	861	c.719C>A	c.(718-720)ACA>AAA	p.T240K	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.T240K	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	240					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		TCCCGTTACTGTATTGACACA	0.368													6	79	---	---	---	---	PASS	T	91406192	T	T	91406192	3	4	178	1	0	0	0	0	1	0	0	0	18057	1377	48	3	3280	3	ZNF644	1	91406192	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1357652	91406192	157844429	31	62984										
BTBD8	284697	broad.mit.edu	37	chr1	92546225	92546225	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaaggaaggggccgtgtgagCggcgccggctgaaggcgacg	20	9	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:92546225C>A	uc001doo.2	+	1	364	c.97C>A	c.(97-99)CGG>AGG	p.R33R	BTBD8_uc010otc.1_RNA	NM_183242	NP_899065	Q5XKL5	BTBD8_HUMAN	BTB (POZ) domain containing 8	33						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)		GCCGTGTGAGCGGCGCCGGCT	0.627													4	16	---	---	---	---	PASS	A	92546225	A	A	92546225	2	1	178	1	0	0	0	0	0	0	0	1	1547	759	27	1		1	BTBD8	1	92546225	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1140033	92546225	156704396	32	62985										
RPL5	6125	broad.mit.edu	37	chr1	93303026	93303026	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attttagtaccaaacgattcCctggttatgattctgaaagc	7	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:93303026C>A	uc001doz.2	+	6	619	c.541C>A	c.(541-543)CCT>ACT	p.P181T	FAM69A_uc001dpc.2_Intron|RPL5_uc001dpa.2_RNA|RPL5_uc001dpb.2_Missense_Mutation_p.P131T|RPL5_uc001dpd.2_5'UTR	NM_000969	NP_000960	P46777	RL5_HUMAN	ribosomal protein L5	181					endocrine pancreas development|ribosomal large subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	5S rRNA binding|protein binding|structural constituent of ribosome				0		all_lung(203;0.00265)|Lung NSC(277;0.0056)|all_neural(321;0.185)|Melanoma(281;0.192)|Glioma(108;0.203)		GBM - Glioblastoma multiforme(16;0.000305)|all cancers(265;0.000343)|Epithelial(280;0.0927)		CAAACGATTCCCTGGTTATGA	0.358													5	37	---	---	---	---	PASS	A	93303026	A	A	93303026	3	1	178	1	0	0	0	0	1	0	0	0	13597	623	22	3	563	3	RPL5	1	93303026	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	756801	93303026	155947595	33	62986										
CCDC18	343099	broad.mit.edu	37	chr1	93705398	93705398	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gagatgtactacagaaggctCaattatcattagaggaaaaa	9	5	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:93705398C>A	uc001dpq.2	+	21	3448	c.3280C>A	c.(3280-3282)CAA>AAA	p.Q1094K	CCDC18_uc009wdl.1_Missense_Mutation_p.Q611K	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	975	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		ACAGAAGGCTCAATTATCATT	0.333													6	53	---	---	---	---	PASS	A	93705398	A	A	93705398	3	1	178	1	0	0	0	0	1	0	0	0	2794	827	29	2	3362	2	CCDC18	1	93705398	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	402372	93705398	155545223	34	62987										
GCLM	2730	broad.mit.edu	37	chr1	94367168	94367168	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttcatttcttctctttcatCaggatttatcttttctactg	3	9	7	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:94367168C>A	uc001dqg.1	-	3	543	c.250G>T	c.(250-252)GAT>TAT	p.D84Y		NM_002061	NP_002052	P48507	GSH0_HUMAN	glutamate-cysteine ligase regulatory protein	84					glutamate metabolic process|glutathione biosynthetic process|regulation of blood vessel size|response to drug|response to oxidative stress|xenobiotic metabolic process	cytosol|soluble fraction	glutamate-cysteine ligase catalytic subunit binding			ovary(1)	1		all_lung(203;0.000815)|Lung NSC(277;0.00363)		all cancers(265;0.00566)|GBM - Glioblastoma multiforme(16;0.0203)|Epithelial(280;0.131)	L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)	TCTCTTTCATCAGGATTTATC	0.303													27	95	---	---	---	---	PASS	A	94367168	A	A	94367168	3	1	178	1	0	0	0	0	1	0	0	0	6296	826	29	2	594	2	GCLM	1	94367168	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	661770	94367168	154883453	35	62988										
SLC30A7	148867	broad.mit.edu	37	chr1	101377733	101377733	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtttccattcttgggtttgtGgtaaacctaataggaatatt	9	5	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:101377733G>T	uc001dtn.2	+	5	637	c.450G>T	c.(448-450)GTG>GTT	p.V150V	SLC30A7_uc001dto.2_Silent_p.V150V	NM_001144884	NP_001138356	Q8NEW0	ZNT7_HUMAN	zinc transporter like 2	150	Helical; (Potential).				zinc ion transport	Golgi apparatus|integral to membrane	cation transmembrane transporter activity|protein binding				0		all_epithelial(167;0.000445)|all_lung(203;0.00645)|Lung NSC(277;0.0119)		Epithelial(280;0.0437)|all cancers(265;0.0498)|COAD - Colon adenocarcinoma(174;0.162)|Colorectal(144;0.19)|Lung(183;0.201)		TTGGGTTTGTGGTAAACCTAA	0.383													8	190	---	---	---	---	PASS	T	101377733	T	T	101377733	2	4	178	1	0	0	0	0	0	0	0	1	14560	1335	47	3		3	SLC30A7	1	101377733	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	7010565	101377733	147872888	36	62989										
COL11A1	1301	broad.mit.edu	37	chr1	103483389	103483389	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cacttaccctatcgccagggTcaccagggggtccagtgggg	14	13	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:103483389T>A	uc001dul.2	-	11	1718	c.1400A>T	c.(1399-1401)GAC>GTC	p.D467V	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Missense_Mutation_p.D479V|COL11A1_uc001dun.2_Missense_Mutation_p.D428V|COL11A1_uc009weh.2_Missense_Mutation_p.D351V	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	467	Triple-helical region (interrupted).				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		ATCGCCAGGGTCACCAGGGGG	0.378													18	53	---	---	---	---	PASS	A	103483389	A	A	103483389	3	1	178	1	0	0	0	0	1	0	0	0	3667	1667	58	5	4248	5	COL11A1	1	103483389	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	2105656	103483389	145767232	37	62990										
AMY2B	280	broad.mit.edu	37	chr1	104118116	104118116	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcatccttatggttttacacGagtaatgtcaagctaccgtt	7	9	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:104118116G>T	uc001duq.2	+	9	1671	c.1055G>T	c.(1054-1056)CGA>CTA	p.R352L	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.R352L|AMY2B_uc001dus.1_RNA	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	352		Chloride (By similarity).			carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		GGTTTTACACGAGTAATGTCA	0.333													7	268	---	---	---	---	PASS	T	104118116	T	T	104118116	3	4	178	1	0	0	0	0	1	0	0	0	595	1058	37	2	1081	2	AMY2B	1	104118116	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	634727	104118116	145132505	38	62991										
MOV10	4343	broad.mit.edu	37	chr1	113231656	113231656	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cgggtcaggttcttcagactCgaccgctgggccgacgtgcg	15	13	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:113231656C>A	uc001eck.2	+	3	507	c.237C>A	c.(235-237)CTC>CTA	p.L79L	MOV10_uc001ecl.2_Silent_p.L79L|MOV10_uc001ecn.2_Silent_p.L79L|MOV10_uc001ecm.2_Silent_p.L19L|MOV10_uc009wgj.1_Silent_p.L19L	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	79					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		TCTTCAGACTCGACCGCTGGG	0.537													5	58	---	---	---	---	PASS	A	113231656	A	A	113231656	2	1	178	1	0	0	0	0	0	0	0	1	9718	871	31	2		2	MOV10	1	113231656	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	9113540	113231656	136018965	39	62992										
NRAS	4893	broad.mit.edu	37	chr1	115256591	115256591	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tctataaccacttgttttctGtaagaatcctgggggtgtgg	11	7	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:115256591G>T	uc009wgu.2	-	3	374	c.120C>A	c.(118-120)TAC>TAA	p.Y40*		NM_002524	NP_002515	P01111	RASN_HUMAN	neuroblastoma RAS viral (v-ras) oncogene homolog	40	Effector region.				activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	Golgi membrane|plasma membrane	GTP binding|GTPase activity			haematopoietic_and_lymphoid_tissue(1008)|skin(956)|thyroid(334)|large_intestine(62)|NS(60)|soft_tissue(32)|lung(31)|upper_aerodigestive_tract(25)|urinary_tract(12)|liver(10)|adrenal_gland(9)|autonomic_ganglia(8)|testis(8)|central_nervous_system(8)|prostate(8)|breast(7)|biliary_tract(6)|ovary(6)|stomach(5)|pancreas(5)|endometrium(2)|kidney(2)|cervix(2)|eye(1)	2607	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTTGTTTTCTGTAAGAATCCT	0.443		50	Mis		melanoma|MM|AML|thyroid				Noonan_syndrome	TSP Lung(23;0.16)|Multiple Myeloma(1;<1E-6)			5	85	---	---	---	---	PASS	T	115256591	T	T	115256591	4	4	178	1	0	0	0	0	0	1	0	0	10640	1372	48	3	461	3	NRAS	1	115256591	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2024935	115256591	133994030	40	62993										
TRIM45	80263	broad.mit.edu	37	chr1	117660706	117660706	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caacctctttggtattaatcGtaccataaatttcatagcca	4	10	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:117660706G>T	uc001egz.2	-	2	1760	c.1172C>A	c.(1171-1173)ACG>AAG	p.T391K	TRIM45_uc009whe.2_Intron|TRIM45_uc001eha.2_Missense_Mutation_p.T287K	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	391						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		GGTATTAATCGTACCATAAAT	0.463													6	110	---	---	---	---	PASS	T	117660706	T	T	117660706	3	4	178	1	0	0	0	0	1	0	0	0	16517	1145	40	1	590	1	TRIM45	1	117660706	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2404115	117660706	131589915	41	62994										
HSD3B2	3284	broad.mit.edu	37	chr1	119964870	119964870	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caagaaggccccaagtgtccGaggtcaattctattacatct	8	11	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:119964870G>T	uc001ehs.2	+	3	1519	c.746G>T	c.(745-747)CGA>CTA	p.R249L	HSD3B2_uc001eht.2_Missense_Mutation_p.R249L|HSD3B2_uc001ehu.2_Intron	NM_000198	NP_000189	P26439	3BHS2_HUMAN	3 beta-hydroxysteroid dehydrogenase 2	249					androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)	CCAAGTGTCCGAGGTCAATTC	0.512													4	38	---	---	---	---	PASS	T	119964870	T	T	119964870	3	4	178	1	0	0	0	0	1	0	0	0	7391	1058	37	2	756	2	HSD3B2	1	119964870	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2304164	119964870	129285751	42	62995										
REG4	83998	broad.mit.edu	37	chr1	120342482	120342482	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtttccgtaagactgacactCgagctatgtacaaggagagg	12	8	0	3	rs149733140		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:120342482C>A	uc001eig.2	-	5	609	c.169G>T	c.(169-171)GAG>TAG	p.E57*	REG4_uc001eif.2_Nonsense_Mutation_p.E57*	NM_001159352	NP_001152824	Q9BYZ8	REG4_HUMAN	regenerating islet-derived family, member 4	57	C-type lectin.					extracellular region	sugar binding			ovary(1)	1	all_cancers(5;4.81e-10)|all_epithelial(5;7.98e-11)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;8.1e-07)|Lung NSC(69;5.89e-06)|all_epithelial(167;0.000959)		Lung(183;0.011)|LUSC - Lung squamous cell carcinoma(189;0.0588)		GACTGACACTCGAGCTATGTA	0.507													8	89	---	---	---	---	PASS	A	120342482	A	A	120342482	4	1	178	1	0	0	0	0	0	1	0	0	13214	893	31	2	319	2	REG4	1	120342482	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	377612	120342482	128908139	43	62996										
PDE4DIP	9659	broad.mit.edu	37	chr1	144857696	144857696	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagagctggggaattcatacCaacatcccggactggagggg	14	10	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:144857696C>A	uc001elw.3	-	39	6649	c.6358G>T	c.(6358-6360)GGT>TGT	p.G2120C	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.G2014C|PDE4DIP_uc001elv.3_Missense_Mutation_p.G1127C	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	2120					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GAATTCATACCAACATCCCGG	0.512			T	PDGFRB	MPD								8	142	---	---	---	---	PASS	A	144857696	A	A	144857696	3	1	178	1	0	0	0	0	1	0	0	0	11643	594	21	3	706	3	PDE4DIP	1	144857696	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	24515214	144857696	104392925	44	62997										
PDE4DIP	9659	broad.mit.edu	37	chr1	145015873	145015873	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacttaccttctcaaagtctCgaagagcctgggtctgtacc	9	12	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:145015873C>A	uc001elx.3	-	3	550	c.215G>T	c.(214-216)CGA>CTA	p.R72L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elm.3_5'UTR|PDE4DIP_uc001eln.3_Missense_Mutation_p.R72L|PDE4DIP_uc001elo.2_Missense_Mutation_p.R143L|PDE4DIP_uc001emh.2_Missense_Mutation_p.R143L|uc001emj.2_Intron	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	6					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CTCAAAGTCTCGAAGAGCCTG	0.433			T	PDGFRB	MPD								10	595	---	---	---	---	PASS	A	145015873	A	A	145015873	3	1	178	1	0	0	0	0	1	0	0	0	11643	884	31	2	8376	2	PDE4DIP	1	145015873	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	158177	145015873	104234748	45	62998										
RPRD2	23248	broad.mit.edu	37	chr1	150429786	150429786	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atataaaacctttgctaaccGagtaaacaatttaaagaaga	5	6	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:150429786G>T	uc009wlr.2	+	8	1094	c.893G>T	c.(892-894)CGA>CTA	p.R298L	RPRD2_uc010pcc.1_Missense_Mutation_p.R272L|RPRD2_uc001eup.3_Missense_Mutation_p.R272L	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	298							protein binding			ovary(1)	1						TTTGCTAACCGAGTAAACAAT	0.358													5	73	---	---	---	---	PASS	T	150429786	T	T	150429786	3	4	178	1	0	0	0	0	1	0	0	0	13617	1058	37	2	923	2	RPRD2	1	150429786	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5413913	150429786	98820835	46	62999										
MCL1	4170	broad.mit.edu	37	chr1	150550762	150550762	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagtcccgttttgtccttacGagaacgtctgtgatactttc	8	11	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:150550762G>T	uc001euz.2	-	2	1024	c.894C>A	c.(892-894)CTC>CTA	p.L298L	MCL1_uc010pch.1_Silent_p.L188L|MCL1_uc001eva.2_Intron	NM_021960	NP_068779	Q07820	MCL1_HUMAN	myeloid cell leukemia sequence 1 isoform 1	298					anti-apoptosis|apoptosis|cell fate determination|cellular homeostasis|multicellular organismal development|response to cytokine stimulus	integral to membrane|mitochondrial outer membrane|nucleoplasm	BH3 domain binding|protein binding|protein channel activity|protein heterodimerization activity				0	all_cancers(9;1.69e-53)|all_epithelial(9;1.95e-43)|all_lung(15;1.09e-34)|Lung NSC(24;4.04e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			TTGTCCTTACGAGAACGTCTG	0.428													9	159	---	---	---	---	PASS	T	150550762	T	T	150550762	2	4	178	1	0	0	0	0	0	0	0	1	9384	1045	37	2		2	MCL1	1	150550762	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	120976	150550762	98699859	47	63000										
CTSK	1513	broad.mit.edu	37	chr1	150779234	150779234	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tccagtatctcctcagggtaCagagcaaagctcaccacagg	9	13	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:150779234C>A	uc001evp.1	-	2	172	c.48G>T	c.(46-48)CTG>CTT	p.L16L	CTSK_uc001evq.1_5'UTR|CTSK_uc009wma.1_RNA	NM_000396	NP_000387	P43235	CATK_HUMAN	cathepsin K preproprotein	16					proteolysis	lysosome	cysteine-type endopeptidase activity|protein binding			skin(1)	1	all_cancers(9;2.32e-51)|all_epithelial(9;3.89e-42)|all_lung(15;4.59e-35)|Lung NSC(24;1.7e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Colorectal(459;0.171)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0485)|BRCA - Breast invasive adenocarcinoma(12;0.00606)|LUSC - Lung squamous cell carcinoma(543;0.211)			CCTCAGGGTACAGAGCAAAGC	0.532													7	72	---	---	---	---	PASS	A	150779234	A	A	150779234	2	1	178	1	0	0	0	0	0	0	0	1	4037	465	17	3		3	CTSK	1	150779234	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	228472	150779234	98471387	48	63001										
MLLT11	10962	broad.mit.edu	37	chr1	151039902	151039902	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgaaggtgatggcctccttGagtacagcaccttcaacttc	9	12	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:151039902G>T	uc001ewq.2	+	2	1087	c.202G>T	c.(202-204)GAG>TAG	p.E68*		NM_006818	NP_006809	Q13015	AF1Q_HUMAN	MLLT11 protein	68					positive regulation of apoptosis|positive regulation of mitochondrial depolarization|positive regulation of release of cytochrome c from mitochondria|positive regulation of transcription, DNA-dependent						0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			TGGCCTCCTTGAGTACAGCAC	0.522													7	97	---	---	---	---	PASS	T	151039902	T	T	151039902	4	4	178	1	0	0	0	0	0	1	0	0	9627	1291	45	2	204	2	MLLT11	1	151039902	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	260668	151039902	98210719	49	63002										
PSMD4	5710	broad.mit.edu	37	chr1	151239682	151239682	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acgacgtgatgcaggaccccGagttccttcagagtgtccta	11	12	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:151239682G>T	uc001exl.2	+	10	1059	c.997G>T	c.(997-999)GAG>TAG	p.E333*	PSMD4_uc001exn.2_Nonsense_Mutation_p.E336*	NM_002810	NP_002801	P55036	PSMD4_HUMAN	proteasome 26S non-ATPase subunit 4	333					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|DNA repair|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding|zinc ion binding				0	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GCAGGACCCCGAGTTCCTTCA	0.557													6	94	---	---	---	---	PASS	T	151239682	T	T	151239682	4	4	178	1	0	0	0	0	0	1	0	0	12700	1059	37	2	1035	2	PSMD4	1	151239682	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	199780	151239682	98010939	50	63003										
RPTN	126638	broad.mit.edu	37	chr1	152127904	152127904	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgtctgtctgaccgtagtgGgaactctggccttgtctgtc	12	11	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:152127904G>T	uc001ezs.1	-	3	1736	c.1671C>A	c.(1669-1671)TCC>TCA	p.S557S		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	557	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						GACCGTAGTGGGAACTCTGGC	0.512													11	323	---	---	---	---	PASS	T	152127904	T	T	152127904	2	4	178	1	0	0	0	0	0	0	0	1	13664	1219	43	3		3	RPTN	1	152127904	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	888222	152127904	97122717	51	63004										
RPTN	126638	broad.mit.edu	37	chr1	152128930	152128930	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgccatttagcctggccactGgtagatttgtgactcacttt	9	10	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:152128930G>T	uc001ezs.1	-	3	710	c.645C>A	c.(643-645)ACC>ACA	p.T215T		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	215	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						CCTGGCCACTGGTAGATTTGT	0.418													8	167	---	---	---	---	PASS	T	152128930	T	T	152128930	2	4	178	1	0	0	0	0	0	0	0	1	13664	1335	47	3		3	RPTN	1	152128930	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1026	152128930	97121691	52	63005										
HRNR	388697	broad.mit.edu	37	chr1	152187072	152187072	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggactgccatgagctagactCgtggtgaccaaatccagaag	12	10	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:152187072C>A	uc001ezt.1	-	3	7109	c.7033G>T	c.(7033-7035)GAG>TAG	p.E2345*		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2345	25.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GAGCTAGACTCGTGGTGACCA	0.567													12	484	---	---	---	---	PASS	A	152187072	A	A	152187072	4	1	178	1	0	0	0	0	0	1	0	0	7359	893	31	2	1523	2	HRNR	1	152187072	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	58142	152187072	97063549	53	63006										
FLG	2312	broad.mit.edu	37	chr1	152276039	152276039	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agacctatctaccgattgctCgtggtaggatccctgtcttc	9	12	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:152276039C>A	uc001ezu.1	-	3	11359	c.11323G>T	c.(11323-11325)GAG>TAG	p.E3775*		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3775	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACCGATTGCTCGTGGTAGGAT	0.597									Ichthyosis				7	173	---	---	---	---	PASS	A	152276039	A	A	152276039	4	1	178	1	0	0	0	0	0	1	0	0	5922	893	31	2	866	2	FLG	1	152276039	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	88967	152276039	96974582	54	63007										
FLG	2312	broad.mit.edu	37	chr1	152281424	152281424	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agaggaagactctgtgtgacGagtgcctgattgtctggagc	15	7	2	4	rs146743261		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:152281424G>T	uc001ezu.1	-	3	5974	c.5938C>A	c.(5938-5940)CGT>AGT	p.R1980S		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1980	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTGTGTGACGAGTGCCTGAT	0.572									Ichthyosis				9	353	---	---	---	---	PASS	T	152281424	T	T	152281424	3	4	178	1	0	0	0	0	1	0	0	0	5922	1058	37	2	6251	2	FLG	1	152281424	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5385	152281424	96969197	55	63008										
NUP210L	91181	broad.mit.edu	37	chr1	154110594	154110594	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caccttacctgtcactctccCttgaaccatttttgcaactt	3	15	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:154110594C>T	uc001fdw.2	-	6	910	c.838G>A	c.(838-840)GGG>AGG	p.G280R	NUP210L_uc009woq.2_5'Flank|NUP210L_uc010peh.1_Missense_Mutation_p.G280R	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	280						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			GTCACTCTCCCTTGAACCATT	0.338													19	93	---	---	---	---	PASS	T	154110594	T	T	154110594	3	4	178	1	0	0	0	0	1	0	0	0	10761	681	24	3	4968	3	NUP210L	1	154110594	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1829170	154110594	95140027	56	63009										
ASH1L	55870	broad.mit.edu	37	chr1	155449247	155449247	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atactgccctgtctggagtgTaaatgcaaatatggcactga	10	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:155449247T>C	uc009wqq.2	-	3	3894	c.3414A>G	c.(3412-3414)TTA>TTG	p.L1138L	ASH1L_uc001fkt.2_Silent_p.L1138L|ASH1L_uc009wqr.1_Silent_p.L1138L	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1138					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			GTCTGGAGTGTAAATGCAAAT	0.473													18	39	---	---	---	---	PASS	C	155449247	C	C	155449247	2	2	178	1	0	0	0	0	0	0	0	1	1041	1635	57	5		5	ASH1L	1	155449247	Silent	SNP	T	TCGA-85-6561-01A-11D-1817-08	1338653	155449247	93801374	57	63010										
TMEM79	84283	broad.mit.edu	37	chr1	156261304	156261304	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttcgtggtggagccggagcGcatgctcactgccaccgaga	15	12	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:156261304G>A	uc010phi.1	+	4	1296	c.1100G>A	c.(1099-1101)CGC>CAC	p.R367H	TMEM79_uc001fod.2_Missense_Mutation_p.R208H|TMEM79_uc009wrw.2_Missense_Mutation_p.R367H|C1orf85_uc001fof.3_Intron|C1orf85_uc001fog.1_Intron	NM_032323	NP_115699	Q9BSE2	TMM79_HUMAN	transmembrane protein 79	367						integral to membrane				central_nervous_system(1)	1	Hepatocellular(266;0.158)					GAGCCGGAGCGCATGCTCACT	0.677													8	68	---	---	---	---	PASS	A	156261304	A	A	156261304	3	1	178	1	0	0	0	0	1	0	0	0	16200	1087	38	1	1110	1	TMEM79	1	156261304	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	812057	156261304	92989317	58	63011										
IQGAP3	128239	broad.mit.edu	37	chr1	156532415	156532415	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attgccctggatttcagcctGagttaggtagtggtcataga	12	7	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:156532415G>T	uc001fpf.2	-	9	916	c.841C>A	c.(841-843)CAG>AAG	p.Q281K	IQGAP3_uc009wsb.1_Missense_Mutation_p.Q238K	NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	281					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					ATTTCAGCCTGAGTTAGGTAG	0.507													8	145	---	---	---	---	PASS	T	156532415	T	T	156532415	3	4	178	1	0	0	0	0	1	0	0	0	7816	1299	45	2	4174	2	IQGAP3	1	156532415	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	271111	156532415	92718206	59	63012										
FCRL3	115352	broad.mit.edu	37	chr1	157666025	157666025	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtgacagtccctgaaccctGggctactgagcaaataagga	11	10	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:157666025G>C	uc001frb.2	-	7	1229	c.937C>G	c.(937-939)CAG>GAG	p.Q313E	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.Q313E|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Missense_Mutation_p.Q39E|FCRL3_uc001frc.1_Missense_Mutation_p.Q313E	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	313	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					CCTGAACCCTGGGCTACTGAG	0.522													17	71	---	---	---	---	PASS	C	157666025	C	C	157666025	3	2	178	1	0	0	0	0	1	0	0	0	5796	1357	47	4	1303	4	FCRL3	1	157666025	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1133610	157666025	91584596	60	63013										
CD1B	910	broad.mit.edu	37	chr1	158300625	158300625	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggcaaagtcttgtacttctcGagcgaatccaaagatgtaga	10	8	2	2	rs142860948		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:158300625G>T	uc001frx.2	-	2	397	c.289C>A	c.(289-291)CGA>AGA	p.R97R	CD1B_uc001frw.2_5'UTR|CD1B_uc010pic.1_Silent_p.R97R	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	97	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					TGTACTTCTCGAGCGAATCCA	0.438													9	255	---	---	---	---	PASS	T	158300625	T	T	158300625	2	4	178	1	0	0	0	0	0	0	0	1	2975	1066	37	2		2	CD1B	1	158300625	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	634600	158300625	90949996	61	63014										
SPTA1	6708	broad.mit.edu	37	chr1	158585059	158585059	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atccgcaacccaagctggtaGagctggtcccactgctgagc	11	14	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:158585059G>T	uc001fst.1	-	48	6934	c.6735C>A	c.(6733-6735)CTC>CTA	p.L2245L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2245	Spectrin 21.				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)					CAAGCTGGTAGAGCTGGTCCC	0.532													8	125	---	---	---	---	PASS	T	158585059	T	T	158585059	2	4	178	1	0	0	0	0	0	0	0	1	15115	929	33	2		2	SPTA1	1	158585059	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	284434	158585059	90665562	62	63015										
SPTA1	6708	broad.mit.edu	37	chr1	158624456	158624456	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctttcttcatggtgacttctCgggggctgcgggcctggaag	15	10	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:158624456C>A	uc001fst.1	-	21	3180	c.2981G>T	c.(2980-2982)CGA>CTA	p.R994L		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	994	SH3.				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)					GGTGACTTCTCGGGGGCTGCG	0.468													5	62	---	---	---	---	PASS	A	158624456	A	A	158624456	3	1	178	1	0	0	0	0	1	0	0	0	15115	884	31	2	4406	2	SPTA1	1	158624456	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	39397	158624456	90626165	63	63016										
FCER1A	2205	broad.mit.edu	37	chr1	159275863	159275863	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	catggttggaggaactgggaTgtgtacaaggtgatctatta	14	4	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:159275863T>C	uc001ftq.2	+	5	516	c.417T>C	c.(415-417)GAT>GAC	p.D139D		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	139	Ig-like 2.|Extracellular (Potential).					integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	GGAACTGGGATGTGTACAAGG	0.493													5	39	---	---	---	---	PASS	C	159275863	C	C	159275863	2	2	178	1	0	0	0	0	0	0	0	1	5774	1461	51	5		5	FCER1A	1	159275863	Silent	SNP	T	TCGA-85-6561-01A-11D-1817-08	651407	159275863	89974758	64	63017										
ATP1A4	480	broad.mit.edu	37	chr1	160129229	160129229	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	catccttgactggggagtcaGaaccccagagccgctcccct	10	16	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:160129229G>T	uc001fve.3	+	6	1170	c.691G>T	c.(691-693)GAA>TAA	p.E231*	ATP1A4_uc001fvf.3_RNA	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	231	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TGGGGAGTCAGAACCCCAGAG	0.498													6	59	---	---	---	---	PASS	T	160129229	T	T	160129229	4	4	178	1	0	0	0	0	0	1	0	0	1131	943	33	2	713	2	ATP1A4	1	160129229	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	853366	160129229	89121392	65	63018										
POU2F1	5451	broad.mit.edu	37	chr1	167382310	167382310	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaccctgagcggtgctctcaGcccagctctaatgagcaaca	10	14	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:167382310G>A	uc001gec.2	+	16	2042	c.1880G>A	c.(1879-1881)AGC>AAC	p.S627N	POU2F1_uc001ged.2_Missense_Mutation_p.S625N|POU2F1_uc001gee.2_Missense_Mutation_p.S627N|POU2F1_uc010plh.1_Missense_Mutation_p.S564N|POU2F1_uc001gef.2_Missense_Mutation_p.S639N|POU2F1_uc001geg.2_Missense_Mutation_p.S525N	NM_002697	NP_002688	P14859	PO2F1_HUMAN	POU class 2 homeobox 1	627					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|skin(2)|breast(1)	5						GGTGCTCTCAGCCCAGCTCTA	0.433													24	104	---	---	---	---	PASS	A	167382310	A	A	167382310	3	1	178	1	0	0	0	0	1	0	0	0	12271	971	34	3	1934	3	POU2F1	1	167382310	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	7253081	167382310	81868311	66	63019										
F5	2153	broad.mit.edu	37	chr1	169510709	169510709	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gagagtcgtgtggctgaggtCtggagagaggtttgtctggc	19	5	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:169510709C>A	uc001ggg.1	-	13	3764	c.3619G>T	c.(3619-3621)GAC>TAC	p.D1207Y		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1207	B.|2-3.|35 X 9 AA approximate tandem repeats of [TNP]-L-S-P-D-L-S-Q-T.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TGGCTGAGGTCTGGAGAGAGG	0.547													9	179	---	---	---	---	PASS	A	169510709	A	A	169510709	3	1	178	1	0	0	0	0	1	0	0	0	5348	913	32	2	3107	2	F5	1	169510709	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2128399	169510709	79739912	67	63020										
F5	2153	broad.mit.edu	37	chr1	169529939	169529939	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actccattcataggtgtattCtcggcctggagccacagcgt	10	12	2	0	rs118203912		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:169529939C>T	uc001ggg.1	-	4	584	c.439G>A	c.(439-441)GAA>AAA	p.E147K	F5_uc010plr.1_RNA	NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	147	F5/8 type A 1.|Plastocyanin-like 1.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TAGGTGTATTCTCGGCCTGGA	0.517													17	80	---	---	---	---	PASS	T	169529939	T	T	169529939	3	4	178	1	0	0	0	0	1	0	0	0	5348	922	32	2	6323	2	F5	1	169529939	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	19230	169529939	79720682	68	63021										
DARS2	55157	broad.mit.edu	37	chr1	173800688	173800688	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccaagaaaatgccaacaggtGagattgaaatcaaagttaaa	8	6	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:173800688G>T	uc001gjh.1	+	5	822	c.412G>T	c.(412-414)GAG>TAG	p.E138*		NM_018122	NP_060592	Q6PI48	SYDM_HUMAN	aspartyl-tRNA synthetase 2, mitochondrial	138					tRNA aminoacylation for protein translation	mitochondrial matrix|nucleus	aspartate-tRNA ligase activity|ATP binding|nucleic acid binding			central_nervous_system(2)	2					L-Aspartic Acid(DB00128)	GCCAACAGGTGAGATTGAAAT	0.353													11	311	---	---	---	---	PASS	T	173800688	T	T	173800688	4	4	178	1	0	0	0	0	0	1	0	0	4242	1291	45	2	430	2	DARS2	1	173800688	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	4270749	173800688	75449933	69	63022										
RC3H1	149041	broad.mit.edu	37	chr1	173930278	173930278	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaaggaggtggagagataacCtttctttcctctagctgggc	12	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:173930278C>A	uc001gju.3	-	12	2394	c.2307G>T	c.(2305-2307)AAG>AAT	p.K769N	RC3H1_uc010pms.1_Missense_Mutation_p.K769N|RC3H1_uc001gjv.2_Missense_Mutation_p.K769N|RC3H1_uc010pmt.1_Missense_Mutation_p.K769N	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	769	Pro-rich.				cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GAGAGATAACCTTTCTTTCCT	0.458													7	115	---	---	---	---	PASS	A	173930278	A	A	173930278	3	1	178	1	0	0	0	0	1	0	0	0	13166	680	24	3	1126	3	RC3H1	1	173930278	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	129590	173930278	75320343	70	63023										
GPR52	9293	broad.mit.edu	37	chr1	174417805	174417805	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctgggggaaacctggttacCatggtgacatttttgaatgg	14	6	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:174417805C>A	uc001gka.1	+	1	594	c.556C>A	c.(556-558)CAT>AAT	p.H186N	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron|uc010pmu.1_RNA	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	186	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						ACCTGGTTACCATGGTGACAT	0.438													8	184	---	---	---	---	PASS	A	174417805	A	A	174417805	3	1	178	1	0	0	0	0	1	0	0	0	6698	594	21	3	558	3	GPR52	1	174417805	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	487527	174417805	74832816	71	63024										
TNN	63923	broad.mit.edu	37	chr1	175087722	175087722	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacagcccccaaaacctggtCactgactgggtgacagagaa	11	12	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:175087722C>A	uc001gkl.1	+	11	2525	c.2412C>A	c.(2410-2412)GTC>GTA	p.V804V		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	804	Fibronectin type-III 7.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		AAAACCTGGTCACTGACTGGG	0.512													11	52	---	---	---	---	PASS	A	175087722	A	A	175087722	2	1	178	1	0	0	0	0	0	0	0	1	16320	813	29	2		2	TNN	1	175087722	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	669917	175087722	74162899	72	63025										
LAMC1	3915	broad.mit.edu	37	chr1	183103915	183103915	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggaacttgaagtcaagaacCttctggagaaaggcaagact	11	7	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:183103915C>A	uc001gpy.3	+	23	4227	c.3970C>A	c.(3970-3972)CTT>ATT	p.L1324I		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	1324	Potential.|Domain II and I.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGTCAAGAACCTTCTGGAGAA	0.423													12	251	---	---	---	---	PASS	A	183103915	A	A	183103915	3	1	178	1	0	0	0	0	1	0	0	0	8614	681	24	3	4060	3	LAMC1	1	183103915	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	8016193	183103915	66146706	73	63026										
LAMC2	3918	broad.mit.edu	37	chr1	183177132	183177132	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acactgatggcattcactgcGagaagtgcaagaatggcttt	11	8	1	3	rs146325169	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:183177132G>T	uc001gqa.2	+	2	510	c.196G>T	c.(196-198)GAG>TAG	p.E66*	LAMC2_uc001gpz.3_Nonsense_Mutation_p.E66*|LAMC2_uc010poa.1_5'UTR	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	66	Laminin EGF-like 1.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						CATTCACTGCGAGAAGTGCAA	0.488													7	207	---	---	---	---	PASS	T	183177132	T	T	183177132	4	4	178	1	0	0	0	0	0	1	0	0	8615	1059	37	2	202	2	LAMC2	1	183177132	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	73217	183177132	66073489	74	63027										
TPR	7175	broad.mit.edu	37	chr1	186327695	186327695	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgttgtgaaagatcttttaCttgtatttccattcttcgat	6	7	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:186327695C>A	uc001grv.2	-	13	1774	c.1477G>T	c.(1477-1479)GTA>TTA	p.V493L	TPR_uc010pop.1_Missense_Mutation_p.V569L	NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	493	Potential.				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)		AGATCTTTTACTTGTATTTCC	0.343			T	NTRK1	papillary thyroid								6	107	---	---	---	---	PASS	A	186327695	A	A	186327695	3	1	178	1	0	0	0	0	1	0	0	0	16413	565	20	3	5770	3	TPR	1	186327695	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3150563	186327695	62922926	75	63028										
PLA2G4A	5321	broad.mit.edu	37	chr1	186880486	186880486	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcatgaagaaactcttgggtCcaaagaatagtgaaggattg	12	5	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:186880486C>T	uc001gsc.2	+	7	728	c.523C>T	c.(523-525)CCA>TCA	p.P175S	PLA2G4A_uc010pos.1_Intron	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	175	Phospholipid binding (Probable).|PLA2c.				phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	ACTCTTGGGTCCAAAGAATAG	0.388													17	75	---	---	---	---	PASS	T	186880486	T	T	186880486	3	4	178	1	0	0	0	0	1	0	0	0	12001	855	30	2	545	2	PLA2G4A	1	186880486	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	552791	186880486	62370135	76	63029										
RGS1	5996	broad.mit.edu	37	chr1	192547369	192547369	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tagctggtcaaaatgtctttGgaagtttcctaaagtctgaa	9	6	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:192547369G>T	uc001gsi.1	+	4	364	c.298G>T	c.(298-300)GGA>TGA	p.G100*	RGS1_uc010pou.1_Nonsense_Mutation_p.G100*	NM_002922	NP_002913	Q08116	RGS1_HUMAN	regulator of G-protein signalling 1	100	RGS.				immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|negative regulation of signal transduction	cytoplasm|plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity				0		Breast(1374;0.188)				AAATGTCTTTGGAAGTTTCCT	0.363													8	182	---	---	---	---	PASS	T	192547369	T	T	192547369	4	4	178	1	0	0	0	0	0	1	0	0	13292	1349	47	3	312	3	RGS1	1	192547369	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5666883	192547369	56703252	77	63030										
RGS13	6003	broad.mit.edu	37	chr1	192613497	192613497	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aattgttggatttgtaagatGtgcagagatgaatctaagag	12	2	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:192613497G>T	uc001gsj.2	+	4	314	c.33G>T	c.(31-33)ATG>ATT	p.M11I	RGS13_uc001gsk.2_Missense_Mutation_p.M11I	NM_002927	NP_002918	O14921	RGS13_HUMAN	regulator of G-protein signalling 13	11						plasma membrane	GTPase activator activity|signal transducer activity				0						TTTGTAAGATGTGCAGAGATG	0.284													9	301	---	---	---	---	PASS	T	192613497	T	T	192613497	3	4	178	1	0	0	0	0	1	0	0	0	13296	1377	48	3	35	3	RGS13	1	192613497	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	66128	192613497	56637124	78	63031										
UCHL5	51377	broad.mit.edu	37	chr1	192993077	192993077	+	Splice_Site	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaatttcaccttcactgtacCtagaagaaaattatttaagt	5	7	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:192993077C>A	uc001gsm.2	-	8	761	c.630_splice	c.e8-1	p.K210_splice	UCHL5_uc001gsn.2_Splice_Site|UCHL5_uc001gso.2_Splice_Site_p.K210_splice|UCHL5_uc010pov.1_Splice_Site|UCHL5_uc001gsp.2_Splice_Site_p.K210_splice|UCHL5_uc001gsq.2_Splice_Site_p.K210_splice|UCHL5_uc010pow.1_Splice_Site_p.K86_splice|UCHL5_uc010pox.1_Splice_Site_p.K86_splice	NM_015984	NP_057068	Q9Y5K5	UCHL5_HUMAN	ubiquitin carboxyl-terminal hydrolase L5						DNA recombination|DNA repair|protein deubiquitination|regulation of proteasomal protein catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytosol|Ino80 complex|proteasome complex	endopeptidase inhibitor activity|omega peptidase activity|proteasome binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|ovary(1)	3						TTCACTGTACCTAGAAGAAAA	0.303													6	61	---	---	---	---	PASS	A	192993077	A	A	192993077	5	1	178	1	0	0	0	0	0	0	1	0	16919	695	24	3	376	3	UCHL5	1	192993077	Splice_Site	SNP	C	TCGA-85-6561-01A-11D-1817-08	379580	192993077	56257544	79	63032										
FAM58B	339521	broad.mit.edu	37	chr1	200182884	200182884	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttaccctaagttcttctgcGagaccatcctggacgccttt	7	13	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:200182884G>T	uc009wzi.1	+	1	229	c.193G>T	c.(193-195)GAG>TAG	p.E65*		NM_001105517	NP_001098987	P0C7Q3	FA58B_HUMAN	family with sequence similarity 58 member B	65					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	Prostate(682;0.19)					GTTCTTCTGCGAGACCATCCT	0.537													7	97	---	---	---	---	PASS	T	200182884	T	T	200182884	4	4	178	1	0	0	0	0	0	1	0	0	5591	1059	37	2	195	2	FAM58B	1	200182884	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	7189807	200182884	49067737	80	63033										
ZNF281	23528	broad.mit.edu	37	chr1	200377843	200377843	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctcttgtgtctctccatatGgtacttctgaataaacttca	5	11	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:200377843G>T	uc001gve.2	-	2	1098	c.991C>A	c.(991-993)CAT>AAT	p.H331N	ZNF281_uc001gvf.1_Missense_Mutation_p.H331N|ZNF281_uc001gvg.1_Missense_Mutation_p.H295N	NM_012482	NP_036614	Q9Y2X9	ZN281_HUMAN	zinc finger protein 281	331	C2H2-type 3.				negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)	2						CTCTCCATATGGTACTTCTGA	0.383													8	194	---	---	---	---	PASS	T	200377843	T	T	200377843	3	4	178	1	0	0	0	0	1	0	0	0	17815	1348	47	3	1700	3	ZNF281	1	200377843	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	194959	200377843	48872778	81	63034										
ZNF281	23528	broad.mit.edu	37	chr1	200378069	200378069	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atatgaggtttctgacttggGgagaggatggcaccttctcc	13	8	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:200378069G>T	uc001gve.2	-	2	872	c.765C>A	c.(763-765)TCC>TCA	p.S255S	uc010ppi.1_5'Flank|ZNF281_uc001gvf.1_Silent_p.S255S|ZNF281_uc001gvg.1_Silent_p.S219S	NM_012482	NP_036614	Q9Y2X9	ZN281_HUMAN	zinc finger protein 281	255					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)	2						TCTGACTTGGGGAGAGGATGG	0.483													6	86	---	---	---	---	PASS	T	200378069	T	T	200378069	2	4	178	1	0	0	0	0	0	0	0	1	17815	1219	43	3		3	ZNF281	1	200378069	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	226	200378069	48872552	82	63035										
RABIF	5877	broad.mit.edu	37	chr1	202850122	202850122	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcagttactcatgggaaactCgttccaaggccacatagaaa	8	10	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:202850122C>A	uc001gyl.2	-	2	393	c.356G>T	c.(355-357)CGA>CTA	p.R119L		NM_002871	NP_002862	P47224	MSS4_HUMAN	RAB-interacting factor	119					cellular membrane fusion|protein transport|small GTPase mediated signal transduction		guanyl-nucleotide exchange factor activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)			ATGGGAAACTCGTTCCAAGGC	0.478													6	59	---	---	---	---	PASS	A	202850122	A	A	202850122	3	1	178	1	0	0	0	0	1	0	0	0	12969	884	31	2	19	2	RABIF	1	202850122	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2472053	202850122	46400499	83	63036										
NFASC	23114	broad.mit.edu	37	chr1	204948632	204948632	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cgtgtcattgccatcaacgaGgttgggagcagccaccccag	12	13	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:204948632G>T	uc001hbj.2	+	19	2449	c.2121G>T	c.(2119-2121)GAG>GAT	p.E707D	NFASC_uc010pra.1_Missense_Mutation_p.E703D|NFASC_uc001hbi.2_Missense_Mutation_p.E703D|NFASC_uc010prb.1_Missense_Mutation_p.E718D|NFASC_uc010prc.1_Missense_Mutation_p.E274D|NFASC_uc001hbk.1_Missense_Mutation_p.E513D|NFASC_uc001hbl.1_5'Flank	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	707	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			CCATCAACGAGGTTGGGAGCA	0.622													7	64	---	---	---	---	PASS	T	204948632	T	T	204948632	3	4	178	1	0	0	0	0	1	0	0	0	10359	991	35	3	2271	3	NFASC	1	204948632	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2098510	204948632	44301989	84	63037										
DSTYK	25778	broad.mit.edu	37	chr1	205138464	205138464	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacgtttgggagtgatctgcAggtcccgctgcatgtcaaat	13	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:205138464A>T	uc001hbw.2	-	3	1215	c.1151T>A	c.(1150-1152)CTG>CAG	p.L384Q	DSTYK_uc001hbx.2_Missense_Mutation_p.L384Q|DSTYK_uc001hby.1_Intron	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	384						cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						AGTGATCTGCAGGTCCCGCTG	0.473													6	43	---	---	---	---	PASS	T	205138464	T	T	205138464	3	4	178	1	0	0	0	0	1	0	0	0	4785	188	7	5	1682	5	DSTYK	1	205138464	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	189832	205138464	44112157	85	63038										
CR2	1380	broad.mit.edu	37	chr1	207639906	207639906	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcctccgcctatcctaaatGgccggattagttattattct	6	12	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:207639906G>T	uc001hfw.2	+	2	188	c.94G>T	c.(94-96)GGC>TGC	p.G32C	CR2_uc001hfv.2_Missense_Mutation_p.G32C|CR2_uc009xch.2_Missense_Mutation_p.G32C	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	32	Sushi 1.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TATCCTAAATGGCCGGATTAG	0.418													9	188	---	---	---	---	PASS	T	207639906	T	T	207639906	3	4	178	1	0	0	0	0	1	0	0	0	3842	1348	47	3	100	3	CR2	1	207639906	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2501442	207639906	41610715	86	63039										
TMEM206	55248	broad.mit.edu	37	chr1	212560296	212560296	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacagggtgcttgagtttctCacgaaagtctgtgatggtcc	13	8	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:212560296C>A	uc001hjc.3	-	3	448	c.280G>T	c.(280-282)GAG>TAG	p.E94*	TMEM206_uc010pte.1_Nonsense_Mutation_p.E155*	NM_018252	NP_060722	Q9H813	TM206_HUMAN	transmembrane protein 206	94	Extracellular (Potential).					integral to membrane				breast(1)	1				all cancers(67;0.012)|OV - Ovarian serous cystadenocarcinoma(81;0.0121)|GBM - Glioblastoma multiforme(131;0.0377)|Epithelial(68;0.148)		TTGAGTTTCTCACGAAAGTCT	0.557													7	98	---	---	---	---	PASS	A	212560296	A	A	212560296	4	1	178	1	0	0	0	0	0	1	0	0	16128	835	29	2	796	2	TMEM206	1	212560296	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4920390	212560296	36690325	87	63040										
C1orf227	149643	broad.mit.edu	37	chr1	213009399	213009399	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttcgttccaccaagcagttGgattcacgctttttgtttat	7	10	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:213009399G>T	uc001hjq.2	-	2	201	c.93C>A	c.(91-93)TCC>TCA	p.S31S		NM_001024601	NP_001019772	Q537H7	CA227_HUMAN	hypothetical protein LOC149643	31											0						CCAAGCAGTTGGATTCACGCT	0.408													7	110	---	---	---	---	PASS	T	213009399	T	T	213009399	2	4	178	1	0	0	0	0	0	0	0	1	2033	1335	47	3		3	C1orf227	1	213009399	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	449103	213009399	36241222	88	63041										
USH2A	7399	broad.mit.edu	37	chr1	216052154	216052154	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtggttgccaagaaatcacaAcatatgattcacttagtgga	9	7	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:216052154A>T	uc001hku.1	-	42	8897	c.8510T>A	c.(8509-8511)GTT>GAT	p.V2837D		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2837	Extracellular (Potential).|Fibronectin type-III 15.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AGAAATCACAACATATGATTC	0.438										HNSCC(13;0.011)			6	38	---	---	---	---	PASS	T	216052154	T	T	216052154	3	4	178	1	0	0	0	0	1	0	0	0	17033	43	2	5	7222	5	USH2A	1	216052154	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	3042755	216052154	33198467	89	63042										
USH2A	7399	broad.mit.edu	37	chr1	216500991	216500991	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cattcttccgacaaactgctCtaaacctgcaaatacacaca	3	14	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:216500991C>A	uc001hku.1	-	5	1177	c.790G>T	c.(790-792)GAG>TAG	p.E264*	USH2A_uc001hkv.2_Nonsense_Mutation_p.E264*	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	264	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACAAACTGCTCTAAACCTGCA	0.368										HNSCC(13;0.011)			7	89	---	---	---	---	PASS	A	216500991	A	A	216500991	4	1	178	1	0	0	0	0	0	1	0	0	17033	922	32	2	15104	2	USH2A	1	216500991	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	448837	216500991	32749630	90	63043										
MIA3	375056	broad.mit.edu	37	chr1	222801477	222801477	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttagaagatgattttgatgaGgaattggatactgagtatta	11	1	0	6			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:222801477G>A	uc001hnl.2	+	4	924	c.915G>A	c.(913-915)GAG>GAA	p.E305E	MIA3_uc009xea.1_Silent_p.E141E	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	305	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		ATTTTGATGAGGAATTGGATA	0.388													12	67	---	---	---	---	PASS	A	222801477	A	A	222801477	2	1	178	1	0	0	0	0	0	0	0	1	9565	991	35	3		3	MIA3	1	222801477	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	6300486	222801477	26449144	91	63044										
TLR5	7100	broad.mit.edu	37	chr1	223285199	223285199	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggttgtaagagcattgtctCggagatccaaggtctgtaat	12	6	2	2	rs144418928		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:223285199C>A	uc001hnv.1	-	4	1621	c.1175G>T	c.(1174-1176)CGA>CTA	p.R392L	TLR5_uc001hnw.1_Missense_Mutation_p.R392L	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	392	Extracellular (Potential).|LRR 9.		Missing (in 10% of the population; abolishes flagellin signaling; associated with resistance to SLEB1).		cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		AGCATTGTCTCGGAGATCCAA	0.378													5	76	---	---	---	---	PASS	A	223285199	A	A	223285199	3	1	178	1	0	0	0	0	1	0	0	0	15951	884	31	2	1405	2	TLR5	1	223285199	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	483722	223285199	25965422	92	63045										
EPHX1	2052	broad.mit.edu	37	chr1	226016448	226016448	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gccatgtggctagaaatcctCctcacttcagtgctgggctt	10	12	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:226016448C>G	uc001hpk.2	+	2	98	c.18C>G	c.(16-18)CTC>CTG	p.L6L	EPHX1_uc001hpl.2_Silent_p.L6L	NM_001136018	NP_001129490	P07099	HYEP_HUMAN	epoxide hydrolase 1	6	Helical; Signal-anchor; (Potential).				aromatic compound catabolic process|response to toxin	endoplasmic reticulum membrane|integral to membrane|microsome	cis-stilbene-oxide hydrolase activity|epoxide hydrolase activity			ovary(3)|lung(1)	4	Breast(184;0.197)					TAGAAATCCTCCTCACTTCAG	0.587													7	38	---	---	---	---	PASS	G	226016448	G	G	226016448	2	3	178	1	0	0	0	0	0	0	0	1	5179	842	30	2		2	EPHX1	1	226016448	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	2731249	226016448	23234173	93	63046										
ITPKB	3707	broad.mit.edu	37	chr1	226923323	226923323	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gatgtcctcctctgagtcttCgtaggatgaggagaagcccg	13	10	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:226923323C>A	uc010pvo.1	-	2	2177	c.1837G>T	c.(1837-1839)GAA>TAA	p.E613*	ITPKB_uc001hqh.2_Nonsense_Mutation_p.E613*	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	613							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				TCTGAGTCTTCGTAGGATGAG	0.612													4	47	---	---	---	---	PASS	A	226923323	A	A	226923323	4	1	178	1	0	0	0	0	0	1	0	0	7918	893	31	2	1031	2	ITPKB	1	226923323	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	906875	226923323	22327298	94	63047										
GUK1	2987	broad.mit.edu	37	chr1	228334602	228334602	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tagcagccggcgacttcatcGagcatgccgagttctcgggg	14	12	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:228334602G>T	uc001hsh.2	+	5	517	c.214G>T	c.(214-216)GAG>TAG	p.E72*	GUK1_uc001hsi.2_Nonsense_Mutation_p.E93*|GUK1_uc001hsj.2_Nonsense_Mutation_p.E12*|GUK1_uc010pvv.1_Nonsense_Mutation_p.E72*|GJC2_uc001hsk.2_5'Flank	NM_000858	NP_000849	Q16774	KGUA_HUMAN	guanylate kinase 1 isoform b	72	Guanylate kinase-like.				nucleobase, nucleoside and nucleotide interconversion|purine nucleotide metabolic process	cytosol	ATP binding|guanylate kinase activity				0		Prostate(94;0.0405)				CGACTTCATCGAGCATGCCGA	0.602													5	56	---	---	---	---	PASS	T	228334602	T	T	228334602	4	4	178	1	0	0	0	0	0	1	0	0	6900	1059	37	2	291	2	GUK1	1	228334602	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1411279	228334602	20916019	95	63048										
B3GALNT2	148789	broad.mit.edu	37	chr1	235647796	235647796	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagccccgatgaagtgtcttCggacagactgaacgcttcaa	10	12	2	3	rs146090744	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:235647796C>A	uc001hxc.2	-	4	626	c.397G>T	c.(397-399)GAA>TAA	p.E133*	B3GALNT2_uc001hxd.1_Nonsense_Mutation_p.E174*	NM_152490	NP_689703	Q8NCR0	B3GL2_HUMAN	beta-1,3-N-acetylgalactosaminyltransferase 2	133	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			breast(1)	1	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.0539)|Prostate(94;0.0353)	OV - Ovarian serous cystadenocarcinoma(106;0.000117)			GAAGTGTCTTCGGACAGACTG	0.418													5	115	---	---	---	---	PASS	A	235647796	A	A	235647796	4	1	178	1	0	0	0	0	0	1	0	0	1246	893	31	2	1141	2	B3GALNT2	1	235647796	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	7313194	235647796	13602825	96	63049										
ERO1LB	56605	broad.mit.edu	37	chr1	236388417	236388417	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acctgcaaacatggatttctCatcaaagtgcatgggaaagg	10	8	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:236388417C>A	uc001hxt.2	-	13	1331	c.1075G>T	c.(1075-1077)GAG>TAG	p.E359*		NM_019891	NP_063944	Q86YB8	ERO1B_HUMAN	endoplasmic reticulum oxidoreductin 1-Lbeta	359					electron transport chain|protein thiol-disulfide exchange|transport	endoplasmic reticulum membrane	flavin adenine dinucleotide binding|oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor|unfolded protein binding				0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.123)|Acute lymphoblastic leukemia(190;0.205)|Prostate(94;0.219)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			ATGGATTTCTCATCAAAGTGC	0.398													7	106	---	---	---	---	PASS	A	236388417	A	A	236388417	4	1	178	1	0	0	0	0	0	1	0	0	5240	835	29	2	344	2	ERO1LB	1	236388417	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	740621	236388417	12862204	97	63050										
ACTN2	88	broad.mit.edu	37	chr1	236925848	236925848	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggatgcccgcctactcgggcCcaggcagtgtgcctggtgca	15	14	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:236925848C>A	uc001hyf.2	+	21	2818	c.2614C>A	c.(2614-2616)CCA>ACA	p.P872T	ACTN2_uc001hyg.2_Missense_Mutation_p.P664T|ACTN2_uc009xgi.1_Missense_Mutation_p.P872T|ACTN2_uc010pxu.1_Missense_Mutation_p.P561T|ACTN2_uc001hyh.2_Missense_Mutation_p.P560T	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	872					focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			CTACTCGGGCCCAGGCAGTGT	0.587													5	17	---	---	---	---	PASS	A	236925848	A	A	236925848	3	1	178	1	0	0	0	0	1	0	0	0	205	623	22	3	2696	3	ACTN2	1	236925848	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	537431	236925848	12324773	98	63051										
FMN2	56776	broad.mit.edu	37	chr1	240497236	240497236	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtttcgtattatctccgaaAttttgatgaggtaagacaat	8	5	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:240497236A>G	uc010pyd.1	+	12	4859	c.4634A>G	c.(4633-4635)AAT>AGT	p.N1545S	FMN2_uc010pye.1_Missense_Mutation_p.N1549S|FMN2_uc010pyf.1_Missense_Mutation_p.N191S|FMN2_uc010pyg.1_Missense_Mutation_p.N141S	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1545	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TATCTCCGAAATTTTGATGAG	0.289													7	72	---	---	---	---	PASS	G	240497236	G	G	240497236	3	3	178	1	0	0	0	0	1	0	0	0	5950	101	4	5	4680	5	FMN2	1	240497236	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	3571388	240497236	8753385	99	63052										
AKT3	10000	broad.mit.edu	37	chr1	243708878	243708878	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtctcataatttcttttgcAtcatctggtcctccaccaag	5	12	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:243708878A>C	uc001iab.1	-	11	1266	c.1185T>G	c.(1183-1185)GAT>GAG	p.D395E	AKT3_uc001hzz.1_Missense_Mutation_p.D395E	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	395	Protein kinase.				signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)			TTTCTTTTGCATCATCTGGTC	0.299													23	96	---	---	---	---	PASS	C	243708878	C	C	243708878	3	2	178	1	0	0	0	0	1	0	0	0	481	214	8	5	314	5	AKT3	1	243708878	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	3211642	243708878	5541743	100	63053										
OR6F1	343169	broad.mit.edu	37	chr1	247875492	247875492	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctactgcctgtgtgttggtgCaggccagggcaatccagggt	15	10	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:247875492C>A	uc001idj.1	-	1	566	c.566G>T	c.(565-567)TGC>TTC	p.C189F		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TGTGTTGGTGCAGGCCAGGGC	0.532													6	40	---	---	---	---	PASS	A	247875492	A	A	247875492	3	1	178	1	0	0	0	0	1	0	0	0	11201	710	25	3	364	3	OR6F1	1	247875492	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4166614	247875492	1375129	101	63054										
OR14A16	284532	broad.mit.edu	37	chr1	247978481	247978481	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aattttctgagcaagaaataGctaataactggggaatgtca	9	5	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:247978481G>A	uc001idm.1	-	1	551	c.551C>T	c.(550-552)GCT>GTT	p.A184V		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	184	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GCAAGAAATAGCTAATAACTG	0.393													7	29	---	---	---	---	PASS	A	247978481	A	A	247978481	3	1	178	1	0	0	0	0	1	0	0	0	10945	971	34	3	382	3	OR14A16	1	247978481	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	102989	247978481	1272140	102	63055										
TRIM58	25893	broad.mit.edu	37	chr1	248039501	248039501	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtggctgctgaaagggaatGagtacatggtccttgcctcc	13	9	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr1:248039501G>T	uc001ido.2	+	6	1219	c.1171G>T	c.(1171-1173)GAG>TAG	p.E391*	OR2W3_uc001idp.1_Intron	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	391	B30.2/SPRY.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GAAAGGGAATGAGTACATGGT	0.527													7	84	---	---	---	---	PASS	T	248039501	T	T	248039501	4	4	178	1	0	0	0	0	0	1	0	0	16528	1291	45	2	1193	2	TRIM58	1	248039501	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	61020	248039501	1211120	103	63056										
PXDN	7837	broad.mit.edu	37	chr2	1667512	1667512	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cgatgacaggaccaggtgccGccggtccacggagagctggc	16	13	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:1667512G>T	uc002qxa.2	-	12	1496	c.1432C>A	c.(1432-1434)CGG>AGG	p.R478R	PXDN_uc002qxb.1_Silent_p.R478R	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	478	Ig-like C2-type 3.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		ACCAGGTGCCGCCGGTCCACG	0.602													12	46	---	---	---	---	PASS	T	1667512	T	T	1667512	2	4	178	1	0	0	0	0	0	0	0	1	12847	1086	38	1		1	PXDN	2	1667512	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08		1667512	241531861	104	63057										
RNASEH1	246243	broad.mit.edu	37	chr2	3599829	3599829	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgcgctttcatgtccatctCcatccagtggctcacggagt	9	14	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:3599829C>G	uc002qxt.2	-	3	404	c.314G>C	c.(313-315)GGA>GCA	p.G105A	RNASEH1_uc002qxs.2_5'UTR	NM_002936	NP_002927	O60930	RNH1_HUMAN	ribonuclease H1	105					RNA catabolic process	cytoplasm	magnesium ion binding|ribonuclease H activity|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.0713)|Epithelial(75;0.167)|all cancers(51;0.22)		ATGTCCATCTCCATCCAGTGG	0.542													13	62	---	---	---	---	PASS	G	3599829	G	G	3599829	3	3	178	1	0	0	0	0	1	0	0	0	13411	855	30	2	570	2	RNASEH1	2	3599829	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1932317	3599829	239599544	105	63058										
ASAP2	8853	broad.mit.edu	37	chr2	9514948	9514948	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gatacgcaaggaagaagcacGcggataacgcggcgaagctt	14	9	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:9514948G>C	uc002qzh.2	+	17	1961	c.1621G>C	c.(1621-1623)GCG>CCG	p.A541P	ASAP2_uc002qzi.2_Missense_Mutation_p.A541P	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	541	Arf-GAP.				regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						GAAGAAGCACGCGGATAACGC	0.468													11	46	---	---	---	---	PASS	C	9514948	C	C	9514948	3	2	178	1	0	0	0	0	1	0	0	0	1011	1087	38	4	1687	4	ASAP2	2	9514948	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5915119	9514948	233684425	106	63059										
CPSF3	51692	broad.mit.edu	37	chr2	9576404	9576404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agaagcaagattctgtaacaCtgtccacgatattgtaaaca	7	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:9576404C>A	uc002qzo.1	+	7	709	c.674C>A	c.(673-675)ACT>AAT	p.T225N	CPSF3_uc010ewx.1_Missense_Mutation_p.T225N|CPSF3_uc002qzp.1_Missense_Mutation_p.T188N	NM_016207	NP_057291	Q9UKF6	CPSF3_HUMAN	cleavage and polyadenylation specific factor 3,	225					histone mRNA 3'-end processing|mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex|ribonucleoprotein complex	5'-3' exonuclease activity|endoribonuclease activity|metal ion binding|protein binding|RNA binding			breast(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;2.39e-25)|all_epithelial(98;8.75e-19)|Lung NSC(108;2.38e-06)|Ovarian(717;0.0308)		all cancers(51;2.2e-40)|Epithelial(75;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(76;4.35e-21)|STAD - Stomach adenocarcinoma(1183;0.00644)		TTCTGTAACACTGTCCACGAT	0.438													5	89	---	---	---	---	PASS	A	9576404	A	A	9576404	3	1	178	1	0	0	0	0	1	0	0	0	3826	565	20	3	700	3	CPSF3	2	9576404	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	61456	9576404	233622969	107	63060										
NBAS	51594	broad.mit.edu	37	chr2	15378737	15378737	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cgtcttctgagtttcttttcCttggcttctcaataaaatgt	6	9	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:15378737C>A	uc002rcc.1	-	45	5824	c.5798G>T	c.(5797-5799)AGG>ATG	p.R1933M	NBAS_uc002rcb.1_Translation_Start_Site|NBAS_uc010exl.1_Missense_Mutation_p.R1005M|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1933										ovary(2)|liver(1)|skin(1)	4						GTTTCTTTTCCTTGGCTTCTC	0.383													6	68	---	---	---	---	PASS	A	15378737	A	A	15378737	3	1	178	1	0	0	0	0	1	0	0	0	10186	681	24	3	1349	3	NBAS	2	15378737	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5802333	15378737	227820636	108	63061										
UBXN2A	165324	broad.mit.edu	37	chr2	24194180	24194180	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gatctgataatcaacctcttGgtaataatcaacaatcaaat	4	8	5	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:24194180G>T	uc010exy.2	+	4	544	c.76G>T	c.(76-78)GGT>TGT	p.G26C	UBXN2A_uc002rem.2_RNA|UBXN2A_uc002ren.2_Missense_Mutation_p.G26C|UBXN2A_uc010ykj.1_Missense_Mutation_p.G26C	NM_181713	NP_859064	P68543	UBX2A_HUMAN	UBX domain containing 4	26											0						TCAACCTCTTGGTAATAATCA	0.328													9	173	---	---	---	---	PASS	T	24194180	T	T	24194180	3	4	178	1	0	0	0	0	1	0	0	0	16911	1348	47	3	82	3	UBXN2A	2	24194180	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	8815443	24194180	219005193	109	63062										
DNMT3A	1788	broad.mit.edu	37	chr2	25497891	25497891	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cccgcctggaaggtgagcctCggcatgggccgctgacggag	17	13	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:25497891C>A	uc002rgc.2	-	6	815	c.558G>T	c.(556-558)CCG>CCT	p.P186P	DNMT3A_uc002rgd.2_Silent_p.P186P|DNMT3A_uc010eyi.2_RNA	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	186					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGGTGAGCCTCGGCATGGGCC	0.667			Mis|F|N|S		AML								4	7	---	---	---	---	PASS	A	25497891	A	A	25497891	2	1	178	1	0	0	0	0	0	0	0	1	4676	871	31	2		2	DNMT3A	2	25497891	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1303711	25497891	217701482	110	63063										
DTNB	1838	broad.mit.edu	37	chr2	25875473	25875473	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caagactcacgcatttctatGaacagctgcctcttctctgc	6	14	4	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:25875473G>T	uc002rgh.2	-	2	307	c.57C>A	c.(55-57)TTC>TTA	p.F19L	DTNB_uc010yko.1_5'Flank|DTNB_uc010ykp.1_5'UTR|DTNB_uc002rgo.2_5'UTR|DTNB_uc002rgi.2_Missense_Mutation_p.F19L|DTNB_uc002rgj.2_Missense_Mutation_p.F19L|DTNB_uc002rgk.2_Missense_Mutation_p.F19L|DTNB_uc002rgl.2_Missense_Mutation_p.F19L|DTNB_uc002rgq.2_Missense_Mutation_p.F19L|DTNB_uc002rgm.2_Missense_Mutation_p.F19L|DTNB_uc002rgn.2_5'UTR|DTNB_uc002rgr.1_Missense_Mutation_p.F8L|DTNB_uc010ykq.1_5'UTR	NM_021907	NP_068707	O60941	DTNB_HUMAN	dystrobrevin, beta isoform 1	19						cytoplasm	calcium ion binding|zinc ion binding			large_intestine(2)|ovary(2)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCATTTCTATGAACAGCTGCC	0.383													8	191	---	---	---	---	PASS	T	25875473	T	T	25875473	3	4	178	1	0	0	0	0	1	0	0	0	4789	1281	45	2	1902	2	DTNB	2	25875473	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	377582	25875473	217323900	111	63064										
C2orf70	339778	broad.mit.edu	37	chr2	26802211	26802211	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	accttttaagactagcccccGagaacctgaagacctaccag	7	14	0	4	rs147381361	by1000genomes	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:26802211G>T	uc010eyn.2	+	4	511	c.511G>T	c.(511-513)GAG>TAG	p.E171*		NM_001105519	NP_001098989	A6NJV1	CB070_HUMAN	hypothetical protein LOC339778	171										skin(1)	1						ACTAGCCCCCGAGAACCTGAA	0.532													5	41	---	---	---	---	PASS	T	26802211	T	T	26802211	4	4	178	1	0	0	0	0	0	1	0	0	2190	1059	37	2	525	2	C2orf70	2	26802211	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	926738	26802211	216397162	112	63065										
MAPRE3	22924	broad.mit.edu	37	chr2	27245131	27245131	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tctgtgaccagtgaaaatctGagtcgccatgatatgcttgc	10	9	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:27245131G>T	uc002rhw.2	+	2	198	c.45G>T	c.(43-45)CTG>CTT	p.L15L	MAPRE3_uc002rhx.2_Silent_p.L15L|MAPRE3_uc010yld.1_Silent_p.L15L	NM_012326	NP_036458	Q9UPY8	MARE3_HUMAN	microtubule-associated protein, RP/EB family,	15	CH.				cell division|mitosis|positive regulation of transcription, DNA-dependent	cytoplasm|cytoplasmic microtubule|microtubule|midbody|perinuclear region of cytoplasm	microtubule binding|protein binding|small GTPase regulator activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGAAAATCTGAGTCGCCATG	0.502													7	96	---	---	---	---	PASS	T	27245131	T	T	27245131	2	4	178	1	0	0	0	0	0	0	0	1	9296	1277	45	2		2	MAPRE3	2	27245131	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	442920	27245131	215954242	113	63066										
CCDC121	79635	broad.mit.edu	37	chr2	27849963	27849963	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggattaaggactccagatacCactgttcctgctgcagctgc	10	12	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:27849963C>A	uc002rle.2	-	2	885	c.704G>T	c.(703-705)TGG>TTG	p.W235L	ZNF512_uc010yly.1_Intron|CCDC121_uc010eze.2_Missense_Mutation_p.W399L|CCDC121_uc002rld.2_Missense_Mutation_p.W397L|GPN1_uc010ezf.2_5'Flank|GPN1_uc010yma.1_5'Flank|GPN1_uc010ymb.1_5'Flank|GPN1_uc010ymc.1_5'Flank|GPN1_uc010ymd.1_5'Flank|GPN1_uc010yme.1_5'Flank|GPN1_uc010ezg.1_5'Flank	NM_024584	NP_078860	Q6ZUS5	CC121_HUMAN	coiled-coil domain containing 121 isoform 3	235	Potential.										0	Acute lymphoblastic leukemia(172;0.155)					CTCCAGATACCACTGTTCCTG	0.478													5	50	---	---	---	---	PASS	A	27849963	A	A	27849963	3	1	178	1	0	0	0	0	1	0	0	0	2757	595	21	3	136	3	CCDC121	2	27849963	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	604832	27849963	215349410	114	63067										
HEATR5B	54497	broad.mit.edu	37	chr2	37310555	37310555	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aataaactgtgggctaactcCattacggaagtttgaaattc	8	7	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:37310555C>A	uc002rpp.1	-	2	99	c.3G>T	c.(1-3)ATG>ATT	p.M1I	CCDC75_uc010ezz.2_5'Flank|CCDC75_uc002rpr.3_5'Flank	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				GGGCTAACTCCATTACGGAAG	0.318													6	74	---	---	---	---	PASS	A	37310555	A	A	37310555	3	1	178	1	0	0	0	0	1	0	0	0	7032	594	21	3	6352	3	HEATR5B	2	37310555	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	9460592	37310555	205888818	115	63068										
ATL2	64225	broad.mit.edu	37	chr2	38546127	38546127	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gccatgtaaagcctgtcaatGgttcattgtttccaccaatc	7	11	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:38546127G>T	uc002rqq.2	-	3	428	c.398C>A	c.(397-399)CCA>CAA	p.P133Q	ATL2_uc010ynm.1_Missense_Mutation_p.P115Q|ATL2_uc010ynn.1_Missense_Mutation_p.P115Q|ATL2_uc010yno.1_5'UTR|ATL2_uc002rqs.2_Missense_Mutation_p.P133Q|ATL2_uc002rqr.2_5'UTR	NM_001135673	NP_001129145	Q8NHH9	ATLA2_HUMAN	atlastin GTPase 2 isoform 2	133	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			ovary(1)|kidney(1)|skin(1)	3						GCCTGTCAATGGTTCATTGTT	0.348													10	299	---	---	---	---	PASS	T	38546127	T	T	38546127	3	4	178	1	0	0	0	0	1	0	0	0	1107	1348	47	3	1509	3	ATL2	2	38546127	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1235572	38546127	204653246	116	63069										
USP34	9736	broad.mit.edu	37	chr2	61528293	61528293	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcacccaaagatacaaatacCatctataaaaaacaggaaaa	4	9	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:61528293C>A	uc002sbe.2	-	29	3943	c.3921G>T	c.(3919-3921)ATG>ATT	p.M1307I		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	1307					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ATACAAATACCATCTATAAAA	0.368													7	92	---	---	---	---	PASS	A	61528293	A	A	61528293	3	1	178	1	0	0	0	0	1	0	0	0	17062	594	21	3	6927	3	USP34	2	61528293	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	22982166	61528293	181671080	117	63070										
PCYOX1	51449	broad.mit.edu	37	chr2	70486552	70486552	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttacctgcggcagaaatttgGgaaagatgtgaagatagacc	12	6	0	5			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:70486552G>T	uc002sgn.3	+	2	239	c.173G>T	c.(172-174)GGG>GTG	p.G58V	PCYOX1_uc010fdo.2_5'UTR|PCYOX1_uc010yqu.1_Missense_Mutation_p.G58V	NM_016297	NP_057381	Q9UHG3	PCYOX_HUMAN	prenylcysteine oxidase 1 precursor	58					prenylated protein catabolic process	lysosome|very-low-density lipoprotein particle	prenylcysteine oxidase activity			central_nervous_system(1)	1						CAGAAATTTGGGAAAGATGTG	0.483													10	231	---	---	---	---	PASS	T	70486552	T	T	70486552	3	4	178	1	0	0	0	0	1	0	0	0	11608	1232	43	3	179	3	PCYOX1	2	70486552	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	8958259	70486552	172712821	118	63071										
MPHOSPH10	10199	broad.mit.edu	37	chr2	71361836	71361836	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagagtgacctttgctttacCagatgatgcggaaactgaag	11	7	0	5			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:71361836C>A	uc002sht.1	+	4	1359	c.1007C>A	c.(1006-1008)CCA>CAA	p.P336Q	MPHOSPH10_uc010feb.1_Missense_Mutation_p.P336Q	NM_005791	NP_005782	O00566	MPP10_HUMAN	M-phase phosphoprotein 10	336					RNA splicing, via transesterification reactions|rRNA processing	chromosome|nucleolus|small nucleolar ribonucleoprotein complex	protein binding			skin(2)|ovary(1)	3						TTTGCTTTACCAGATGATGCG	0.323													8	204	---	---	---	---	PASS	A	71361836	A	A	71361836	3	1	178	1	0	0	0	0	1	0	0	0	9725	594	21	3	1021	3	MPHOSPH10	2	71361836	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	875284	71361836	171837537	119	63072										
ALMS1	7840	broad.mit.edu	37	chr2	73680088	73680088	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcctagttccttttcacatcGagagaaaccagatattttct	5	10	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:73680088G>T	uc002sje.1	+	10	6548	c.6437G>T	c.(6436-6438)CGA>CTA	p.R2146L	ALMS1_uc002sjf.1_Missense_Mutation_p.R2102L|ALMS1_uc002sjg.2_Missense_Mutation_p.R1532L|ALMS1_uc002sjh.1_Missense_Mutation_p.R1532L	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2144	34 X 47 AA approximate tandem repeat.|33.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TTTTCACATCGAGAGAAACCA	0.403													5	48	---	---	---	---	PASS	T	73680088	T	T	73680088	3	4	178	1	0	0	0	0	1	0	0	0	535	1058	37	2	6461	2	ALMS1	2	73680088	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2318252	73680088	169519285	120	63073										
TPRKB	51002	broad.mit.edu	37	chr2	73961573	73961573	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taccactgtaggatttatcaGtgatccatcgatggtgcctt	9	9	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:73961573G>T	uc002sjn.2	-	2	235	c.124C>A	c.(124-126)CTG>ATG	p.L42M	TPRKB_uc002sjm.2_Missense_Mutation_p.L42M|TPRKB_uc002sjl.2_Intron|TPRKB_uc002sjo.2_Missense_Mutation_p.L42M|TPRKB_uc010yrm.1_Intron	NM_016058	NP_057142	Q9Y3C4	TPRKB_HUMAN	TP53RK binding protein	42					protein catabolic process	cytosol|nucleus	protein kinase binding			ovary(1)|skin(1)	2						GGATTTATCAGTGATCCATCG	0.289													6	89	---	---	---	---	PASS	T	73961573	T	T	73961573	3	4	178	1	0	0	0	0	1	0	0	0	16417	1020	36	3	419	3	TPRKB	2	73961573	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	281485	73961573	169237800	121	63074										
SEMA4F	10505	broad.mit.edu	37	chr2	74906814	74906814	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcagcatgggcatcctgtgtGtggcaccagcccagtggagt	14	11	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:74906814G>T	uc002sna.1	+	14	1902	c.1791G>T	c.(1789-1791)GTG>GTT	p.V597V	SEMA4F_uc010ffr.1_Silent_p.V209V|SEMA4F_uc002snb.1_Silent_p.V209V|SEMA4F_uc002snc.1_Silent_p.V442V	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	597	Ig-like C2-type.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CATCCTGTGTGTGGCACCAGC	0.592													6	74	---	---	---	---	PASS	T	74906814	T	T	74906814	2	4	178	1	0	0	0	0	0	0	0	1	14035	1364	48	3		3	SEMA4F	2	74906814	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	945241	74906814	168292559	122	63075										
LRRTM4	80059	broad.mit.edu	37	chr2	77746397	77746397	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttcaagaggccagcaaatgCatttcgggacaagcttcgaa	10	10	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:77746397C>A	uc002snr.2	-	3	1013	c.598G>T	c.(598-600)GCA>TCA	p.A200S	LRRTM4_uc002snq.2_Missense_Mutation_p.A200S|LRRTM4_uc002sns.2_Missense_Mutation_p.A200S|LRRTM4_uc002snt.2_Missense_Mutation_p.A201S	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	200	Extracellular (Potential).|LRR 6.					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		CCAGCAAATGCATTTCGGGAC	0.438													5	63	---	---	---	---	PASS	A	77746397	A	A	77746397	3	1	178	1	0	0	0	0	1	0	0	0	9042	710	25	3	1188	3	LRRTM4	2	77746397	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2839583	77746397	165452976	123	63076										
REG3G	130120	broad.mit.edu	37	chr2	79254970	79254970	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agatggatgggagtggagtaGcactgatgtgatgaattact	15	3	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:79254970G>T	uc002snw.2	+	5	456	c.371G>T	c.(370-372)AGC>ATC	p.S124I	REG3G_uc002snx.2_Missense_Mutation_p.S124I|REG3G_uc010ffu.2_Missense_Mutation_p.S78I	NM_198448	NP_940850	Q6UW15	REG3G_HUMAN	regenerating islet-derived 3 gamma precursor	124	C-type lectin.				acute-phase response	extracellular region	sugar binding				0						GAGTGGAGTAGCACTGATGTG	0.507													15	88	---	---	---	---	PASS	T	79254970	T	T	79254970	3	4	178	1	0	0	0	0	1	0	0	0	13213	971	34	3	385	3	REG3G	2	79254970	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1508573	79254970	163944403	124	63077										
CTNNA2	1496	broad.mit.edu	37	chr2	80085138	80085138	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctctccgtgtctgtcttccaGgtgagacgatgcggatcgcc	12	13	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:80085138G>T	uc010ysh.1	+	3	304	c.299_splice	c.e3-1	p.G100_splice	CTNNA2_uc010yse.1_Splice_Site_p.G100_splice|CTNNA2_uc010ysf.1_Splice_Site_p.G100_splice|CTNNA2_uc010ysg.1_Splice_Site_p.G100_splice	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1						axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						CTGTCTTCCAGGTGAGACGAT	0.542													13	62	---	---	---	---	PASS	T	80085138	T	T	80085138	5	4	178	1	0	0	0	0	0	0	1	0	4013	1014	35	3	308	3	CTNNA2	2	80085138	Splice_Site	SNP	G	TCGA-85-6561-01A-11D-1817-08	830168	80085138	163114235	125	63078										
CTNNA2	1496	broad.mit.edu	37	chr2	80096961	80096961	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggtggaagaggccctggaagCtgtcaaaaatgctacaaatg	13	7	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:80096961C>A	uc010ysh.1	+	4	490	c.485C>A	c.(484-486)GCT>GAT	p.A162D	CTNNA2_uc010yse.1_Missense_Mutation_p.A162D|CTNNA2_uc010ysf.1_Missense_Mutation_p.A162D|CTNNA2_uc010ysg.1_Missense_Mutation_p.A162D	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	162					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GCCCTGGAAGCTGTCAAAAAT	0.373													17	75	---	---	---	---	PASS	A	80096961	A	A	80096961	3	1	178	1	0	0	0	0	1	0	0	0	4013	797	28	3	499	3	CTNNA2	2	80096961	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	11823	80096961	163102412	126	63079										
DNAH6	1768	broad.mit.edu	37	chr2	84784929	84784929	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcctaatctcgtgcctgattCgtattttgatgctttcacca	6	11	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:84784929C>A	uc010fgb.2	+	11	1810	c.1673C>A	c.(1672-1674)TCG>TAG	p.S558*	DNAH6_uc002soo.2_Nonsense_Mutation_p.S137*|DNAH6_uc002sop.2_Nonsense_Mutation_p.S137*	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	558	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1						GTGCCTGATTCGTATTTTGAT	0.378													6	141	---	---	---	---	PASS	A	84784929	A	A	84784929	4	1	178	1	0	0	0	0	0	1	0	0	4605	893	31	2	1711	2	DNAH6	2	84784929	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4687968	84784929	158414444	127	63080										
DNAH6	1768	broad.mit.edu	37	chr2	84784986	84784986	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caaacttgaaggaaaaacctGtggaactgggccaagtttag	11	7	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:84784986G>T	uc010fgb.2	+	11	1867	c.1730G>T	c.(1729-1731)TGT>TTT	p.C577F	DNAH6_uc002soo.2_Missense_Mutation_p.C156F|DNAH6_uc002sop.2_Missense_Mutation_p.C156F	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	577	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1						GGAAAAACCTGTGGAACTGGG	0.353													6	91	---	---	---	---	PASS	T	84784986	T	T	84784986	3	4	178	1	0	0	0	0	1	0	0	0	4605	1377	48	3	1768	3	DNAH6	2	84784986	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	57	84784986	158414387	128	63081										
CAPG	822	broad.mit.edu	37	chr2	85628769	85628769	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgaggtgcacagccagcacGgcacaggccccctgctcatc	11	16	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:85628769G>C	uc002spl.1	-	4	484	c.234C>G	c.(232-234)GCC>GCG	p.A78A	CAPG_uc002spm.1_Silent_p.A78A|CAPG_uc010ysq.1_Silent_p.A78A|CAPG_uc010fgi.1_Silent_p.A78A|CAPG_uc010fgj.1_5'UTR	NM_001747	NP_001738	P40121	CAPG_HUMAN	gelsolin-like capping protein	78					barbed-end actin filament capping|protein complex assembly	F-actin capping protein complex|melanosome|nuclear membrane|nucleolus	actin binding				0						CAGCCAGCACGGCACAGGCCC	0.652													4	20	---	---	---	---	PASS	C	85628769	C	C	85628769	2	2	178	1	0	0	0	0	0	0	0	1	2621	1103	39	4		4	CAPG	2	85628769	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	843783	85628769	157570604	129	63082										
VPS24	51652	broad.mit.edu	37	chr2	86756432	86756432	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttccttgacctgatcatctcCttggccagaactatgcagac	7	13	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:86756432C>A	uc002srj.2	-	3	324	c.195G>T	c.(193-195)AAG>AAT	p.K65N	VPS24_uc002srk.2_Translation_Start_Site|VPS24_uc002srl.2_Missense_Mutation_p.K65N|VPS24_uc010ytl.1_Missense_Mutation_p.K94N	NM_016079	NP_057163	Q9Y3E7	CHMP3_HUMAN	vacuolar protein sorting 24 isoform 1	65	Intramolecular interaction with C- terminus.				cell cycle|cell division|cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			central_nervous_system(1)	1						TGATCATCTCCTTGGCCAGAA	0.458													7	118	---	---	---	---	PASS	A	86756432	A	A	86756432	3	1	178	1	0	0	0	0	1	0	0	0	17192	680	24	3	489	3	VPS24	2	86756432	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1127663	86756432	156442941	130	63083										
REV1	51455	broad.mit.edu	37	chr2	100029392	100029392	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttcccaaagatgccaacttaGattccattgaatgtccaact	5	11	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:100029392G>A	uc002tad.2	-	13	2185	c.1973C>T	c.(1972-1974)TCT>TTT	p.S658F	REV1_uc002tac.2_Missense_Mutation_p.S657F	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	658					DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						TGCCAACTTAGATTCCATTGA	0.353								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					14	61	---	---	---	---	PASS	A	100029392	A	A	100029392	3	1	178	1	0	0	0	0	1	0	0	0	13239	942	33	2	1826	2	REV1	2	100029392	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	13272960	100029392	143169981	131	63084										
PTPN4	5775	broad.mit.edu	37	chr2	120703926	120703926	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtctttttaagcctaatggtGgtattccacatgataatctt	7	7	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:120703926G>T	uc002tmf.1	+	17	2296	c.1525G>T	c.(1525-1527)GGT>TGT	p.G509C	PTPN4_uc010flj.1_Missense_Mutation_p.G222C|PTPN4_uc010yyr.1_Missense_Mutation_p.G142C	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	509						cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	GCCTAATGGTGGTATTCCACA	0.279													8	150	---	---	---	---	PASS	T	120703926	T	T	120703926	3	4	178	1	0	0	0	0	1	0	0	0	12790	1348	47	3	1587	3	PTPN4	2	120703926	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	20674534	120703926	122495447	132	63085										
EPB41L5	57669	broad.mit.edu	37	chr2	120918470	120918470	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttcctagtgctgtgttaaatGagaataatgtgcccctcccc	8	11	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:120918470G>T	uc002tmg.2	+	21	1933	c.1807G>T	c.(1807-1809)GAG>TAG	p.E603*	EPB41L5_uc010fll.2_Nonsense_Mutation_p.E603*|EPB41L5_uc010flm.2_Nonsense_Mutation_p.E407*	NM_020909	NP_065960	Q9HCM4	E41L5_HUMAN	erythrocyte membrane protein band 4.1 like 5	603						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1						TGTGTTAAATGAGAATAATGT	0.413													9	148	---	---	---	---	PASS	T	120918470	T	T	120918470	4	4	178	1	0	0	0	0	0	1	0	0	5157	1291	45	2	2070	2	EPB41L5	2	120918470	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	214544	120918470	122280903	133	63086										
UGGT1	56886	broad.mit.edu	37	chr2	128878864	128878864	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttagtcagaattttcctacCaaagccaggtaatgtagaat	7	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:128878864C>A	uc002tps.2	+	10	1243	c.1065C>A	c.(1063-1065)ACC>ACA	p.T355T	UGGT1_uc010fme.1_Silent_p.T230T|UGGT1_uc002tpr.2_Silent_p.T331T	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	355					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						ATTTTCCTACCAAAGCCAGGT	0.403													7	52	---	---	---	---	PASS	A	128878864	A	A	128878864	2	1	178	1	0	0	0	0	0	0	0	1	16938	581	21	3		3	UGGT1	2	128878864	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	7960394	128878864	114320509	134	63087										
HNMT	3176	broad.mit.edu	37	chr2	138722134	138722134	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctttccggaggtttctcaacCattccacggaacaccagtgc	8	14	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:138722134C>A	uc002tvc.2	+	2	221	c.73C>A	c.(73-75)CAT>AAT	p.H25N	HNMT_uc002tvd.2_Missense_Mutation_p.H25N|HNMT_uc002tve.2_Missense_Mutation_p.H25N|HNMT_uc002tvf.2_Missense_Mutation_p.H25N	NM_006895	NP_008826	P50135	HNMT_HUMAN	histamine N-methyltransferase isoform 1	25					respiratory gaseous exchange	cytoplasm	histamine N-methyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.125)	Amodiaquine(DB00613)|Histamine Phosphate(DB00667)|Quinacrine(DB01103)	GTTTCTCAACCATTCCACGGA	0.458													7	133	---	---	---	---	PASS	A	138722134	A	A	138722134	3	1	178	1	0	0	0	0	1	0	0	0	7255	594	21	3	75	3	HNMT	2	138722134	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	9843270	138722134	104477239	135	63088										
HNMT	3176	broad.mit.edu	37	chr2	138762707	138762707	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttcctcctttctagatgctGtattatgtaaaagacatccc	5	10	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:138762707G>T	uc002tvc.2	+	6	583	c.435G>T	c.(433-435)CTG>CTT	p.L145L	HNMT_uc002tvf.2_Silent_p.L145L	NM_006895	NP_008826	P50135	HNMT_HUMAN	histamine N-methyltransferase isoform 1	145					respiratory gaseous exchange	cytoplasm	histamine N-methyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.125)	Amodiaquine(DB00613)|Histamine Phosphate(DB00667)|Quinacrine(DB01103)	TCTAGATGCTGTATTATGTAA	0.363													7	109	---	---	---	---	PASS	T	138762707	T	T	138762707	2	4	178	1	0	0	0	0	0	0	0	1	7255	1364	48	3		3	HNMT	2	138762707	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	40573	138762707	104436666	136	63089										
LRP1B	53353	broad.mit.edu	37	chr2	141665446	141665446	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tacaattaaacatgcaatacCacagagatagccttcatcag	5	10	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:141665446C>A	uc002tvj.1	-	22	4492	c.3520G>T	c.(3520-3522)GAT>TAT	p.D1174Y	LRP1B_uc010fnl.1_Missense_Mutation_p.D356Y	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1174	Extracellular (Potential).|LDL-receptor class A 10.				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)		CATGCAATACCACAGAGATAG	0.403										TSP Lung(27;0.18)			8	144	---	---	---	---	PASS	A	141665446	A	A	141665446	3	1	178	1	0	0	0	0	1	0	0	0	8955	608	21	3	10559	3	LRP1B	2	141665446	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2902739	141665446	101533927	137	63090										
GTDC1	79712	broad.mit.edu	37	chr2	144903215	144903215	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggatatatcaactggttctCgtgaaaatacagaatctttt	7	6	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:144903215C>A	uc002tvp.2	-	5	550	c.271G>T	c.(271-273)GAG>TAG	p.E91*	GTDC1_uc002tvo.2_Nonsense_Mutation_p.E91*|GTDC1_uc002tvq.2_Nonsense_Mutation_p.E91*|GTDC1_uc002tvr.2_Nonsense_Mutation_p.E91*|GTDC1_uc010fnn.2_Nonsense_Mutation_p.E91*|GTDC1_uc002tvs.2_Nonsense_Mutation_p.E59*|GTDC1_uc010fno.2_5'UTR|GTDC1_uc002tvt.1_Nonsense_Mutation_p.E91*	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	91					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		AACTGGTTCTCGTGAAAATAC	0.418													5	61	---	---	---	---	PASS	A	144903215	A	A	144903215	4	1	178	1	0	0	0	0	0	1	0	0	6851	893	31	2	1137	2	GTDC1	2	144903215	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3237769	144903215	98296158	138	63091										
NEB	4703	broad.mit.edu	37	chr2	152543961	152543961	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggtttttggctgtcttcaagGagtgcagcatctttggatcg	13	7	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:152543961G>A	uc010fnx.2	-	27	2800	c.2609C>T	c.(2608-2610)TCC>TTC	p.S870F		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	870	Nebulin 20.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGTCTTCAAGGAGTGCAGCAT	0.438													11	132	---	---	---	---	PASS	A	152543961	A	A	152543961	3	1	178	1	0	0	0	0	1	0	0	0	10302	1174	41	2	23701	2	NEB	2	152543961	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	7640746	152543961	90655412	139	63092										
PRPF40A	55660	broad.mit.edu	37	chr2	153532918	153532918	+	Splice_Site	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagacaagttactaaacttaCtcagctacagtttcttgctt	5	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:153532918C>G	uc002tyi.2	-	10	1125	c.1112_splice	c.e10+1	p.D371_splice	PRPF40A_uc002tyh.3_Splice_Site_p.D344_splice|PRPF40A_uc010zcd.1_Splice_Site_p.D291_splice|PRPF40A_uc002tyj.2_Splice_Site_p.D240_splice	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3						mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						ACTAAACTTACTCAGCTACAG	0.333													3	9	---	---	---	---	PASS	G	153532918	G	G	153532918	5	3	178	1	0	0	0	0	0	0	1	0	12571	579	20	4	1828	4	PRPF40A	2	153532918	Splice_Site	SNP	C	TCGA-85-6561-01A-11D-1817-08	988957	153532918	89666455	140	63093										
GALNT13	114805	broad.mit.edu	37	chr2	154801051	154801051	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caaggtggttctagccacttCgctgatgtgggttcttgttg	13	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:154801051C>A	uc002tyr.3	+	3	608	c.41C>A	c.(40-42)TCG>TAG	p.S14*	GALNT13_uc002tyt.3_Nonsense_Mutation_p.S14*	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	14	Helical; Signal-anchor for type II membrane protein; (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						CTAGCCACTTCGCTGATGTGG	0.418													6	112	---	---	---	---	PASS	A	154801051	A	A	154801051	4	1	178	1	0	0	0	0	0	1	0	0	6211	893	31	2	43	2	GALNT13	2	154801051	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1268133	154801051	88398322	141	63094										
FAP	2191	broad.mit.edu	37	chr2	163070542	163070542	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttagccactgcaaacatactCgttcatcagtaacccacgtg	6	13	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:163070542C>A	uc002ucd.2	-	11	1116	c.908G>T	c.(907-909)CGA>CTA	p.R303L	FAP_uc010zct.1_Missense_Mutation_p.R278L|FAP_uc010fpd.2_Intron|FAP_uc010fpe.1_Missense_Mutation_p.R270L	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	303	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						CAAACATACTCGTTCATCAGT	0.408													5	74	---	---	---	---	PASS	A	163070542	A	A	163070542	3	1	178	1	0	0	0	0	1	0	0	0	5673	884	31	2	1438	2	FAP	2	163070542	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	8269491	163070542	80128831	142	63095										
FIGN	55137	broad.mit.edu	37	chr2	164591413	164591413	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaattccaaaactgacatacCataaacactggtgctactga	5	10	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:164591413C>A	uc002uck.1	-	2	336	c.25G>T	c.(25-27)GGC>TGC	p.G9C		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	9						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						ACTGACATACCATAAACACTG	0.388													6	75	---	---	---	---	PASS	A	164591413	A	A	164591413	3	1	178	1	0	0	0	0	1	0	0	0	5891	608	21	3	2262	3	FIGN	2	164591413	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1520871	164591413	78607960	143	63096										
GRB14	2888	broad.mit.edu	37	chr2	165353980	165353980	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gagaagtccattgctaccagGgaattctctgatatacttct	8	9	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:165353980G>T	uc002ucl.2	-	10	1666	c.1125C>A	c.(1123-1125)TCC>TCA	p.S375S	GRB14_uc010zcv.1_Silent_p.S288S|GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	375					blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						TTGCTACCAGGGAATTCTCTG	0.368													7	94	---	---	---	---	PASS	T	165353980	T	T	165353980	2	4	178	1	0	0	0	0	0	0	0	1	6757	1219	43	3		3	GRB14	2	165353980	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	762567	165353980	77845393	144	63097										
COBLL1	22837	broad.mit.edu	37	chr2	165551734	165551734	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caattttgggtatatactctCgtgtaatttcatttgaaggt	8	5	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:165551734C>A	uc010zcw.1	-	15	2607	c.2483G>T	c.(2482-2484)CGA>CTA	p.R828L	COBLL1_uc002ucp.2_Missense_Mutation_p.R761L|COBLL1_uc002ucq.2_Missense_Mutation_p.R723L|COBLL1_uc010zcx.1_Missense_Mutation_p.R769L|COBLL1_uc002ucn.2_Missense_Mutation_p.R189L|COBLL1_uc002uco.2_Missense_Mutation_p.R492L	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	799										ovary(2)|pancreas(1)	3						TATATACTCTCGTGTAATTTC	0.358													6	147	---	---	---	---	PASS	A	165551734	A	A	165551734	3	1	178	1	0	0	0	0	1	0	0	0	3654	884	31	2	1230	2	COBLL1	2	165551734	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	197754	165551734	77647639	145	63098										
SCN1A	6323	broad.mit.edu	37	chr2	166866246	166866246	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taccctcatcccttcaaatcGagataaggctcttagaggtc	7	12	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:166866246G>T	uc010zcz.1	-	20	3970	c.3952C>A	c.(3952-3954)CGA>AGA	p.R1318R	SCN1A_uc002udo.3_Silent_p.R1198R|SCN1A_uc010fpk.2_Silent_p.R1170R	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1329	Helical; Voltage-sensor; Name=S4 of repeat III; (By similarity).|III.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CCTTCAAATCGAGATAAGGCT	0.358													5	68	---	---	---	---	PASS	T	166866246	T	T	166866246	2	4	178	1	0	0	0	0	0	0	0	1	13914	1066	37	2		2	SCN1A	2	166866246	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1314512	166866246	76333127	146	63099										
G6PC2	57818	broad.mit.edu	37	chr2	169764369	169764369	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gatgttcctcctgagctgccGagggggaaataactacacac	11	11	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:169764369G>T	uc002uem.2	+	5	940	c.848G>T	c.(847-849)CGA>CTA	p.R283L	G6PC2_uc002uen.2_3'UTR|G6PC2_uc010fpv.2_Missense_Mutation_p.R167L	NM_021176	NP_066999	Q9NQR9	G6PC2_HUMAN	islet-specific glucose-6-phosphatase-related	283	Cytoplasmic (Potential).				gluconeogenesis|glucose homeostasis|glucose transport|regulation of insulin secretion|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	glucose-6-phosphatase activity			pancreas(1)	1						CTGAGCTGCCGAGGGGGAAAT	0.517													5	50	---	---	---	---	PASS	T	169764369	T	T	169764369	3	4	178	1	0	0	0	0	1	0	0	0	6144	1058	37	2	866	2	G6PC2	2	169764369	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2898123	169764369	73435004	147	63100										
LRP2	4036	broad.mit.edu	37	chr2	170007453	170007453	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagctggttggtccaggtcaGtggaaatcagccactttctg	12	10	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:170007453G>A	uc002ues.2	-	68	12758	c.12545C>T	c.(12544-12546)ACT>ATT	p.T4182I		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4182	Extracellular (Potential).|LDL-receptor class B 35.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GTCCAGGTCAGTGGAAATCAG	0.433													15	75	---	---	---	---	PASS	A	170007453	A	A	170007453	3	1	178	1	0	0	0	0	1	0	0	0	8956	1029	36	3	1470	3	LRP2	2	170007453	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	243084	170007453	73191920	148	63101										
LRP2	4036	broad.mit.edu	37	chr2	170070377	170070377	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tccatccacgtttcctctttCaatctaaaggattggaattt	5	10	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:170070377C>A	uc002ues.2	-	36	6043	c.5830G>T	c.(5830-5832)GAA>TAA	p.E1944*		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1944	LDL-receptor class B 18.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TTTCCTCTTTCAATCTAAAGG	0.328													5	31	---	---	---	---	PASS	A	170070377	A	A	170070377	4	1	178	1	0	0	0	0	0	1	0	0	8956	835	29	2	8313	2	LRP2	2	170070377	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	62924	170070377	73128996	149	63102										
MYO3B	140469	broad.mit.edu	37	chr2	171509574	171509574	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atccctgaggagaacaactcAgcccacccttcctttttttc	5	15	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:171509574A>T	uc002ufy.2	+	35	4112	c.3969A>T	c.(3967-3969)TCA>TCT	p.S1323S	MYO3B_uc002ufz.2_Silent_p.S1296S|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA|uc002ugc.1_Intron	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	1323					response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						AGAACAACTCAGCCCACCCTT	0.408													12	69	---	---	---	---	PASS	T	171509574	T	T	171509574	2	4	178	1	0	0	0	0	0	0	0	1	10077	175	7	5		5	MYO3B	2	171509574	Silent	SNP	A	TCGA-85-6561-01A-11D-1817-08	1439197	171509574	71689799	150	63103										
HOXD10	3236	broad.mit.edu	37	chr2	176981715	176981715	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctatggaatgcaaacctgtGgactgctcccgtctctggcc	10	14	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:176981715G>T	uc002ukj.2	+	1	224	c.154G>T	c.(154-156)GGA>TGA	p.G52*		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	52						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		GCAAACCTGTGGACTGCTCCC	0.493													6	70	---	---	---	---	PASS	T	176981715	T	T	176981715	4	4	178	1	0	0	0	0	0	1	0	0	7319	1349	47	3	156	3	HOXD10	2	176981715	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5472141	176981715	66217658	151	63104										
OSBPL6	114880	broad.mit.edu	37	chr2	179259110	179259110	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tagaggaactccagagatctCggagacgatatatggaagaa	12	6	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:179259110C>A	uc002ulx.2	+	24	3022	c.2644C>A	c.(2644-2646)CGG>AGG	p.R882R	OSBPL6_uc002uly.2_Silent_p.R907R|OSBPL6_uc010zfe.1_Silent_p.R851R|OSBPL6_uc002ulz.2_Silent_p.R846R|OSBPL6_uc002uma.2_Silent_p.R886R	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	882					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			CCAGAGATCTCGGAGACGATA	0.353													6	139	---	---	---	---	PASS	A	179259110	A	A	179259110	2	1	178	1	0	0	0	0	0	0	0	1	11281	875	31	2		2	OSBPL6	2	179259110	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	2277395	179259110	63940263	152	63105										
PRKRA	8575	broad.mit.edu	37	chr2	179315083	179315083	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttggtcttcatgccgtattCgtgtaatacctgaatcggtg	10	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:179315083C>A	uc002umf.2	-	2	322	c.121G>T	c.(121-123)GAA>TAA	p.E41*	PRKRA_uc002umd.2_Nonsense_Mutation_p.E16*|PRKRA_uc002ume.2_Nonsense_Mutation_p.E30*|PRKRA_uc002umg.2_5'UTR|DFNB59_uc002umi.3_5'Flank	NM_003690	NP_003681	O75569	PRKRA_HUMAN	protein kinase, interferon-inducible double	41	Sufficient for self-association and interaction with TARBP2.|DRBM 1.				immune response|negative regulation of cell proliferation|production of siRNA involved in RNA interference|response to virus	perinuclear region of cytoplasm	double-stranded RNA binding|enzyme activator activity|protein homodimerization activity			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.00634)|all cancers(119;0.0265)			ATGCCGTATTCGTGTAATACC	0.433													8	207	---	---	---	---	PASS	A	179315083	A	A	179315083	4	1	178	1	0	0	0	0	0	1	0	0	12524	893	31	2	848	2	PRKRA	2	179315083	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	55973	179315083	63884290	153	63106										
TTN	7273	broad.mit.edu	37	chr2	179400362	179400362	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tagaaaccagcatcttttctCtctaccccattggggaaaac	6	12	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:179400362C>A	uc010zfg.1	-	307	93500	c.93276G>T	c.(93274-93276)GAG>GAT	p.E31092D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E24787D|TTN_uc010zfi.1_Missense_Mutation_p.E24720D|TTN_uc010zfj.1_Missense_Mutation_p.E24595D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32019							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)			CATCTTTTCTCTCTACCCCAT	0.433													10	141	---	---	---	---	PASS	A	179400362	A	A	179400362	3	1	178	1	0	0	0	0	1	0	0	0	16732	912	32	2	7019	2	TTN	2	179400362	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	85279	179400362	63799011	154	63107										
TTN	7273	broad.mit.edu	37	chr2	179432907	179432907	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggttctttgtagggatattgAgctacaattggatcagactc	11	6	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:179432907A>T	uc010zfg.1	-	275	70472	c.70248T>A	c.(70246-70248)GCT>GCA	p.A23416A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.A17111A|TTN_uc010zfi.1_Silent_p.A17044A|TTN_uc010zfj.1_Silent_p.A16919A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24343							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)			AGGGATATTGAGCTACAATTG	0.423													33	129	---	---	---	---	PASS	T	179432907	T	T	179432907	2	4	178	1	0	0	0	0	0	0	0	1	16732	291	11	5		5	TTN	2	179432907	Silent	SNP	A	TCGA-85-6561-01A-11D-1817-08	32545	179432907	63766466	155	63108										
TTN	7273	broad.mit.edu	37	chr2	179458825	179458825	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtgtagtctttatatgagtgCgatcatcttccagcacatca	8	9	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:179458825C>A	uc010zfg.1	-	246	50815	c.50591G>T	c.(50590-50592)CGC>CTC	p.R16864L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R10559L|TTN_uc010zfi.1_Missense_Mutation_p.R10492L|TTN_uc010zfj.1_Missense_Mutation_p.R10367L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17791							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)			TATATGAGTGCGATCATCTTC	0.463													5	89	---	---	---	---	PASS	A	179458825	A	A	179458825	3	1	178	1	0	0	0	0	1	0	0	0	16732	768	27	1	49948	1	TTN	2	179458825	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	25918	179458825	63740548	156	63109										
TTN	7273	broad.mit.edu	37	chr2	179463947	179463947	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atttattctgggccatgattCggaatacatattcatggcct	8	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:179463947C>A	uc010zfg.1	-	239	49093	c.48869G>T	c.(48868-48870)CGA>CTA	p.R16290L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R9985L|TTN_uc010zfi.1_Missense_Mutation_p.R9918L|TTN_uc010zfj.1_Missense_Mutation_p.R9793L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17217							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)			GGCCATGATTCGGAATACATA	0.433													7	225	---	---	---	---	PASS	A	179463947	A	A	179463947	3	1	178	1	0	0	0	0	1	0	0	0	16732	884	31	2	51412	2	TTN	2	179463947	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5122	179463947	63735426	157	63110										
TTN	7273	broad.mit.edu	37	chr2	179468687	179468687	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tattgccatggctctgaactGgtatttaacgccttcaagca	8	10	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:179468687G>T	uc010zfg.1	-	231	47247	c.47023C>A	c.(47023-47025)CAG>AAG	p.Q15675K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q9370K|TTN_uc010zfi.1_Missense_Mutation_p.Q9303K|TTN_uc010zfj.1_Missense_Mutation_p.Q9178K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16602							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)			GCTCTGAACTGGTATTTAACG	0.458													8	133	---	---	---	---	PASS	T	179468687	T	T	179468687	3	4	178	1	0	0	0	0	1	0	0	0	16732	1357	47	3	53290	3	TTN	2	179468687	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	4740	179468687	63730686	158	63111										
TTN	7273	broad.mit.edu	37	chr2	179484438	179484438	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttaatatcacaaatctgtaGtcgatgtatctttccttcac	4	10	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:179484438G>T	uc010zfg.1	-	199	39126	c.38902C>A	c.(38902-38904)CTA>ATA	p.L12968I	TTN_uc010zfh.1_Missense_Mutation_p.L6663I|TTN_uc010zfi.1_Missense_Mutation_p.L6596I|TTN_uc010zfj.1_Missense_Mutation_p.L6471I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13895							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)			CAAATCTGTAGTCGATGTATC	0.423													7	149	---	---	---	---	PASS	T	179484438	T	T	179484438	3	4	178	1	0	0	0	0	1	0	0	0	16732	1020	36	3	61539	3	TTN	2	179484438	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	15751	179484438	63714935	159	63112										
TTN	7273	broad.mit.edu	37	chr2	179545846	179545846	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acctgctctttttcacgtttGgtaattgaaatacgtatttt	6	7	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:179545846G>T	uc010zfg.1	-	135	29792	c.29568C>A	c.(29566-29568)ACC>ACA	p.T9856T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.T6517T|TTN_uc010fre.1_Intron|TTN_uc002una.1_5'Flank|TTN_uc010frf.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10783							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)			TTTCACGTTTGGTAATTGAAA	0.328													6	69	---	---	---	---	PASS	T	179545846	T	T	179545846	2	4	178	1	0	0	0	0	0	0	0	1	16732	1335	47	3		3	TTN	2	179545846	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	61408	179545846	63653527	160	63113										
ZNF804A	91752	broad.mit.edu	37	chr2	185801162	185801162	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgttattaatgaagacataCctgttagtggtaacagtttt	8	4	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:185801162C>G	uc002uph.2	+	4	1633	c.1039C>G	c.(1039-1041)CCT>GCT	p.P347A		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	347						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TGAAGACATACCTGTTAGTGG	0.353													16	38	---	---	---	---	PASS	G	185801162	G	G	185801162	3	3	178	1	0	0	0	0	1	0	0	0	18167	507	18	4	1053	4	ZNF804A	2	185801162	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	6255316	185801162	57398211	161	63114										
TFPI	7035	broad.mit.edu	37	chr2	188361711	188361711	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cactgtcgagtgaaaatattGaagaaaaatcttttcatgat	7	5	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:188361711G>A	uc002upx.2	-	3	249	c.216C>T	c.(214-216)TTC>TTT	p.F72F	TFPI_uc002upy.2_Silent_p.F72F|TFPI_uc002upz.2_Silent_p.F68F|TFPI_uc002uqa.2_Silent_p.F72F|TFPI_uc002uqb.2_Silent_p.F72F	NM_006287	NP_006278	P10646	TFPI1_HUMAN	tissue factor pathway inhibitor isoform a	72	BPTI/Kunitz inhibitor 1.				blood coagulation, extrinsic pathway	extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0554)		Coagulation factor VIIa(DB00036)	TGAAAATATTGAAGAAAAATC	0.368													6	56	---	---	---	---	PASS	A	188361711	A	A	188361711	2	1	178	1	0	0	0	0	0	0	0	1	15805	1281	45	2		2	TFPI	2	188361711	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2560549	188361711	54837662	162	63115										
STAT1	6772	broad.mit.edu	37	chr2	191849039	191849039	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaccataaaagtcttacctcGaggtcaattaccaaaccagg	7	11	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:191849039G>T	uc002usj.2	-	16	1732	c.1344C>A	c.(1342-1344)CTC>CTA	p.L448L	STAT1_uc010fse.1_Silent_p.L448L|STAT1_uc002usk.2_Silent_p.L448L|STAT1_uc002usl.2_Silent_p.L450L|STAT1_uc010fsf.1_Silent_p.L260L	NM_007315	NP_009330	P42224	STAT1_HUMAN	signal transducer and activator of transcription	448					activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)	GTCTTACCTCGAGGTCAATTA	0.378													5	134	---	---	---	---	PASS	T	191849039	T	T	191849039	2	4	178	1	0	0	0	0	0	0	0	1	15263	1045	37	2		2	STAT1	2	191849039	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	3487328	191849039	51350334	163	63116										
STAT4	6775	broad.mit.edu	37	chr2	191934480	191934480	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgcagatcttctaagtatttGgtatcttgttctgtcatctt	7	7	6	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:191934480G>T	uc002usm.1	-	6	737	c.483C>A	c.(481-483)ACC>ACA	p.T161T	STAT4_uc002usn.1_Silent_p.T161T|STAT4_uc010zgk.1_Silent_p.T6T|STAT4_uc002uso.2_Silent_p.T161T	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	161					JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			CTAAGTATTTGGTATCTTGTT	0.299													7	102	---	---	---	---	PASS	T	191934480	T	T	191934480	2	4	178	1	0	0	0	0	0	0	0	1	15266	1335	47	3		3	STAT4	2	191934480	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	85441	191934480	51264893	164	63117										
MYO1B	4430	broad.mit.edu	37	chr2	192228559	192228559	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgagttcaagcccgaatctCgagtgaatggtctagatgaa	11	7	3	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:192228559C>A	uc010fsg.2	+	10	1126	c.871C>A	c.(871-873)CGA>AGA	p.R291R	MYO1B_uc002usq.2_Silent_p.R291R|MYO1B_uc002usr.2_Silent_p.R291R|MYO1B_uc002uss.1_Silent_p.R291R	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	291	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			GCCCGAATCTCGAGTGAATGG	0.438													5	91	---	---	---	---	PASS	A	192228559	A	A	192228559	2	1	178	1	0	0	0	0	0	0	0	1	10069	876	31	2		2	MYO1B	2	192228559	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	294079	192228559	50970814	165	63118										
DNAH7	56171	broad.mit.edu	37	chr2	196822072	196822072	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggcatttgagacataatgtcTggagagctgaaaatgggctc	13	6	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:196822072T>A	uc002utj.3	-	19	3092	c.2991A>T	c.(2989-2991)CCA>CCT	p.P997P		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	997	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						ACATAATGTCTGGAGAGCTGA	0.468													13	47	---	---	---	---	PASS	A	196822072	A	A	196822072	2	1	178	1	0	0	0	0	0	0	0	1	4606	1567	55	5		5	DNAH7	2	196822072	Silent	SNP	T	TCGA-85-6561-01A-11D-1817-08	4593513	196822072	46377301	166	63119										
HECW2	57520	broad.mit.edu	37	chr2	197085593	197085593	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctccacttcaccatcctctCgatgtactccttcttgttct	3	17	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:197085593C>A	uc002utm.1	-	25	4402	c.4219G>T	c.(4219-4221)GAG>TAG	p.E1407*	HECW2_uc002utl.1_Nonsense_Mutation_p.E1051*	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	1407	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						ACCATCCTCTCGATGTACTCC	0.438													5	125	---	---	---	---	PASS	A	197085593	A	A	197085593	4	1	178	1	0	0	0	0	0	1	0	0	7043	893	31	2	519	2	HECW2	2	197085593	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	263521	197085593	46113780	167	63120										
PLCL1	5334	broad.mit.edu	37	chr2	198950016	198950016	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctctgatttggtgtctatttGtaaatctgttcaatacaggg	9	6	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:198950016G>T	uc010fsp.2	+	2	2066	c.1775G>T	c.(1774-1776)TGT>TTT	p.C592F	PLCL1_uc002uuv.3_Missense_Mutation_p.C513F	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	592	PI-PLC Y-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	GTGTCTATTTGTAAATCTGTT	0.403													13	48	---	---	---	---	PASS	T	198950016	T	T	198950016	3	4	178	1	0	0	0	0	1	0	0	0	12039	1377	48	3	1781	3	PLCL1	2	198950016	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1864423	198950016	44249357	168	63121										
ALS2CR11	151254	broad.mit.edu	37	chr2	202352462	202352462	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actttccactgtagctttctCgttgcttgttaacctccgga	7	12	1	0	rs74717115	by1000genomes	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:202352462C>A	uc002uye.2	-	15	1793	c.1745G>T	c.(1744-1746)CGA>CTA	p.R582L	ALS2CR11_uc002uyf.2_Missense_Mutation_p.R1779L|ALS2CR11_uc010fti.2_3'UTR	NM_152525	NP_689738	Q53TS8	AL2SA_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	582										large_intestine(1)|ovary(1)|skin(1)	3						GTAGCTTTCTCGTTGCTTGTT	0.383													8	260	---	---	---	---	PASS	A	202352462	A	A	202352462	3	1	178	1	0	0	0	0	1	0	0	0	552	884	31	2	130	2	ALS2CR11	2	202352462	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3402446	202352462	40846911	169	63122										
ALS2	57679	broad.mit.edu	37	chr2	202593846	202593846	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttccttttcctgccgagatGgagagcaagacactcataac	8	12	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:202593846G>T	uc002uyo.2	-	14	2997	c.2641C>A	c.(2641-2643)CAT>AAT	p.H881N	ALS2_uc002uyp.3_Missense_Mutation_p.H881N|ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	881	DH.				cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						CTGCCGAGATGGAGAGCAAGA	0.433													6	84	---	---	---	---	PASS	T	202593846	T	T	202593846	3	4	178	1	0	0	0	0	1	0	0	0	550	1348	47	3	2416	3	ALS2	2	202593846	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	241384	202593846	40605527	170	63123										
CREB1	1385	broad.mit.edu	37	chr2	208440037	208440037	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caatacagctggctaacaatGgtaccgatggggtacagggc	13	9	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:208440037G>T	uc002vcc.2	+	7	840	c.589G>T	c.(589-591)GGT>TGT	p.G197C	CREB1_uc010ziz.1_Missense_Mutation_p.G181C|CREB1_uc002vcd.2_Missense_Mutation_p.G183C|CREB1_uc010zja.1_RNA	NM_134442	NP_604391	P16220	CREB1_HUMAN	cAMP responsive element binding protein 1	197					activation of phospholipase C activity|axon guidance|innate immune response|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein dimerization activity|transcription cofactor activity		EWSR1/CREB1(42)	soft_tissue(42)|breast(1)|central_nervous_system(1)	44				LUSC - Lung squamous cell carcinoma(261;0.0768)|Epithelial(149;0.127)|Lung(261;0.145)	Adenosine monophosphate(DB00131)|Bromocriptine(DB01200)|Naloxone(DB01183)	GGCTAACAATGGTACCGATGG	0.438			T	EWSR1	clear cell sarcoma|angiomatoid fibrous histiocytoma								6	88	---	---	---	---	PASS	T	208440037	T	T	208440037	3	4	178	1	0	0	0	0	1	0	0	0	3854	1348	47	3	611	3	CREB1	2	208440037	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5846191	208440037	34759336	171	63124										
PLEKHM3	389072	broad.mit.edu	37	chr2	208725977	208725977	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caagaatggagccagctttcCctctattacctgcagaaaga	8	11	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:208725977C>A	uc002vcl.2	-	7	2450	c.1960G>T	c.(1960-1962)GGA>TGA	p.G654*		NM_001080475	NP_001073944	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M,	654					intracellular signal transduction		metal ion binding			ovary(1)	1						GCCAGCTTTCCCTCTATTACC	0.443													6	69	---	---	---	---	PASS	A	208725977	A	A	208725977	4	1	178	1	0	0	0	0	0	1	0	0	12082	632	22	3	333	3	PLEKHM3	2	208725977	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	285940	208725977	34473396	172	63125										
USP37	57695	broad.mit.edu	37	chr2	219394731	219394731	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttggatccagctctgctacCataaaaggatgatgactgta	9	9	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:219394731C>A	uc002vie.2	-	10	1264	c.811G>T	c.(811-813)GGT>TGT	p.G271C	USP37_uc010fvs.1_Missense_Mutation_p.G271C|USP37_uc010zkf.1_Missense_Mutation_p.G271C|USP37_uc002vif.2_Missense_Mutation_p.G271C|USP37_uc002vig.2_Missense_Mutation_p.G199C|USP37_uc010zkg.1_Missense_Mutation_p.G271C	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	271					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		GCTCTGCTACCATAAAAGGAT	0.328													6	79	---	---	---	---	PASS	A	219394731	A	A	219394731	3	1	178	1	0	0	0	0	1	0	0	0	17065	594	21	3	2196	3	USP37	2	219394731	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	10668754	219394731	23804642	173	63126										
CCDC108	255101	broad.mit.edu	37	chr2	219870856	219870856	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctggcgagggtggctggggGcagggccaggacacctcctc	18	13	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:219870856G>C	uc002vjl.1	-	31	4893	c.4809C>G	c.(4807-4809)TGC>TGG	p.C1603W		NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	1603						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GTGGCTGGGGGCAGGGCCAGG	0.617													5	32	---	---	---	---	PASS	C	219870856	C	C	219870856	3	2	178	1	0	0	0	0	1	0	0	0	2743	1195	42	4	988	4	CCDC108	2	219870856	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	476125	219870856	23328517	174	63127										
STK11IP	114790	broad.mit.edu	37	chr2	220478475	220478475	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgtcccctctctccacagtGagcctccagctagctggctg	9	17	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:220478475G>T	uc002vml.2	+	21	2615	c.2572G>T	c.(2572-2574)GAG>TAG	p.E858*		NM_052902	NP_443134	Q8N1F8	S11IP_HUMAN	LKB1 interacting protein	858					protein localization	cytoplasm	protein kinase binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;2.69e-07)|all cancers(144;5.91e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCTCCACAGTGAGCCTCCAGC	0.622													6	49	---	---	---	---	PASS	T	220478475	T	T	220478475	4	4	178	1	0	0	0	0	0	1	0	0	15287	1304	45	2	2654	2	STK11IP	2	220478475	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	607619	220478475	22720898	175	63128										
CUL3	8452	broad.mit.edu	37	chr2	225422495	225422495	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcaaaactaagaccactgtTattcttacgctggatttctt	5	10	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:225422495T>C	uc002vny.2	-	2	529	c.145A>G	c.(145-147)AAC>GAC	p.N49D	CUL3_uc010zls.1_Intron|CUL3_uc010fwy.1_Missense_Mutation_p.N55D	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	49					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		AGACCACTGTTATTCTTACGC	0.358													6	52	---	---	---	---	PASS	C	225422495	C	C	225422495	3	2	178	1	0	0	0	0	1	0	0	0	4056	1754	61	5	2221	5	CUL3	2	225422495	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	4944020	225422495	17776878	176	63129										
KIAA1486	57624	broad.mit.edu	37	chr2	226273726	226273726	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agaatgcgtcagatattgctCgagagaatgatcgcttgaga	12	6	1	5			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:226273726C>A	uc002voe.2	+	2	305	c.130C>A	c.(130-132)CGA>AGA	p.R44R	KIAA1486_uc010fxa.1_Silent_p.R39R	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	44										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		AGATATTGCTCGAGAGAATGA	0.408													5	50	---	---	---	---	PASS	A	226273726	A	A	226273726	2	1	178	1	0	0	0	0	0	0	0	1	8237	876	31	2		2	KIAA1486	2	226273726	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	851231	226273726	16925647	177	63130										
COL4A3	1285	broad.mit.edu	37	chr2	228118298	228118298	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtgtgaaagggttaacaggaCccccgggaccaccaggaaca	13	11	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:228118298C>A	uc002vom.1	+	13	871	c.709C>A	c.(709-711)CCC>ACC	p.P237T	COL4A3_uc002von.1_Missense_Mutation_p.P237T|COL4A3_uc002voo.1_Missense_Mutation_p.P237T|COL4A3_uc002vop.1_Missense_Mutation_p.P237T|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	237	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)		GTTAACAGGACCCCCGGGACC	0.438													33	111	---	---	---	---	PASS	A	228118298	A	A	228118298	3	1	178	1	0	0	0	0	1	0	0	0	3691	507	18	3	759	3	COL4A3	2	228118298	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1844572	228118298	15081075	178	63131										
PSMD1	5707	broad.mit.edu	37	chr2	231943383	231943383	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttgttgcaggatgcagtacGgaattctgtatgtcatactg	12	6	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:231943383G>C	uc002vrn.1	+	10	1213	c.1082G>C	c.(1081-1083)CGG>CCG	p.R361P	PSMD1_uc002vrm.1_Missense_Mutation_p.R361P|PSMD1_uc010fxu.1_Missense_Mutation_p.R225P	NM_002807	NP_002798	Q99460	PSMD1_HUMAN	proteasome 26S non-ATPase subunit 1	361					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding			ovary(1)|skin(1)	2		Ovarian(221;0.000626)|Medulloblastoma(418;0.0109)|Renal(207;0.0112)|Lung NSC(271;0.0538)|all_lung(227;0.0713)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;4e-26)|LUSC - Lung squamous cell carcinoma(224;0.0138)|Lung(119;0.0168)	Bortezomib(DB00188)	GATGCAGTACGGAATTCTGTA	0.398													3	53	---	---	---	---	PASS	C	231943383	C	C	231943383	3	2	178	1	0	0	0	0	1	0	0	0	12692	1116	39	4	1120	4	PSMD1	2	231943383	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3825085	231943383	11255990	179	63132										
SH3BP4	23677	broad.mit.edu	37	chr2	235950626	235950626	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagccgagataaaaaatgacCtttttagcaaaagcacagtg	8	8	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:235950626C>A	uc002vvp.2	+	4	1606	c.1213C>A	c.(1213-1215)CTT>ATT	p.L405I	SH3BP4_uc010fym.2_Missense_Mutation_p.L405I|SH3BP4_uc002vvq.2_Missense_Mutation_p.L405I	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	405					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		AAAAAATGACCTTTTTAGCAA	0.537													5	29	---	---	---	---	PASS	A	235950626	A	A	235950626	3	1	178	1	0	0	0	0	1	0	0	0	14246	681	24	3	1219	3	SH3BP4	2	235950626	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4007243	235950626	7248747	180	63133										
MLPH	79083	broad.mit.edu	37	chr2	238402140	238402140	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtcttggaagttgttcaacGagattttgacctccgaagga	11	7	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr2:238402140G>T	uc002vwt.2	+	2	298	c.71G>T	c.(70-72)CGA>CTA	p.R24L	MLPH_uc002vws.2_Missense_Mutation_p.R24L|MLPH_uc010fyt.1_Missense_Mutation_p.R24L|MLPH_uc002vwu.2_Missense_Mutation_p.R24L|MLPH_uc002vwv.2_Missense_Mutation_p.R24L	NM_024101	NP_077006	Q9BV36	MELPH_HUMAN	melanophilin isoform 1	24	RabBD.			R->A: Decreases RAB27A binding.			metal ion binding			ovary(1)	1		Breast(86;0.000381)|Renal(207;0.000966)|Ovarian(221;0.0695)|all_hematologic(139;0.095)|all_lung(227;0.17)|Melanoma(123;0.203)		Epithelial(121;1.17e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.02e-10)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.15e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000439)|Lung(119;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0316)		GTTGTTCAACGAGATTTTGAC	0.547													6	95	---	---	---	---	PASS	T	238402140	T	T	238402140	3	4	178	1	0	0	0	0	1	0	0	0	9633	1058	37	2	73	2	MLPH	2	238402140	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2451514	238402140	4797233	181	63134										
CHL1	10752	broad.mit.edu	37	chr3	447294	447294	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gggagaccatggtctcttcaGtgaagatggatcatttattg	12	6	3	3	rs141163165		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:447294G>A	uc003bou.2	+	27	3798	c.3527G>A	c.(3526-3528)AGT>AAT	p.S1176N	CHL1_uc003bot.2_Missense_Mutation_p.S1192N|CHL1_uc011asi.1_Missense_Mutation_p.S1139N	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	1176	Cytoplasmic (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		GGTCTCTTCAGTGAAGATGGA	0.473													16	34	---	---	---	---	PASS	A	447294	A	A	447294	3	1	178	1	0	0	0	0	1	0	0	0	3349	1029	36	3	3677	3	CHL1	3	447294	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08		447294	197575136	182	63135										
GRM7	2917	broad.mit.edu	37	chr3	7188172	7188172	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttatgcatcaacggcacccGagctaagtgatgaccggcgc	12	12	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:7188172G>T	uc003bqm.2	+	2	827	c.553G>T	c.(553-555)GAG>TAG	p.E185*	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Nonsense_Mutation_p.E185*|GRM7_uc003bql.2_Nonsense_Mutation_p.E185*	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	185	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	AACGGCACCCGAGCTAAGTGA	0.512													6	70	---	---	---	---	PASS	T	7188172	T	T	7188172	4	4	178	1	0	0	0	0	0	1	0	0	6802	1059	37	2	559	2	GRM7	3	7188172	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6740878	7188172	190834258	183	63136										
RPUSD3	285367	broad.mit.edu	37	chr3	9882216	9882216	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttcccagacccggactcacGagattgaccccatcaatgtg	8	15	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:9882216G>T	uc011atk.1	-	6	604	c.600C>A	c.(598-600)CTC>CTA	p.L200L	ARPC4_uc003btc.1_Intron|RPUSD3_uc011atl.1_Silent_p.L185L|RPUSD3_uc011atm.1_Silent_p.L192L|RPUSD3_uc003btn.2_3'UTR	NM_173659	NP_775930	Q6P087	RUSD3_HUMAN	RNA pseudouridylate synthase domain containing 3	200					pseudouridine synthesis		pseudouridine synthase activity|RNA binding			central_nervous_system(1)	1	Medulloblastoma(99;0.227)					CCGGACTCACGAGATTGACCC	0.562													5	107	---	---	---	---	PASS	T	9882216	T	T	9882216	2	4	178	1	0	0	0	0	0	0	0	1	13668	1072	37	2		2	RPUSD3	3	9882216	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2694044	9882216	188140214	184	63137										
ATG7	10533	broad.mit.edu	37	chr3	11389435	11389435	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggcagcctctctatgagtttGaagattgcctagggggtggt	15	7	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:11389435G>T	uc003bwc.2	+	12	1327	c.1210G>T	c.(1210-1212)GAA>TAA	p.E404*	ATG7_uc003bwd.2_Nonsense_Mutation_p.E404*|ATG7_uc011aum.1_Nonsense_Mutation_p.E365*	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	404					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						CTATGAGTTTGAAGATTGCCT	0.522													17	56	---	---	---	---	PASS	T	11389435	T	T	11389435	4	4	178	1	0	0	0	0	0	1	0	0	1101	1291	45	2	1252	2	ATG7	3	11389435	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1507219	11389435	186632995	185	63138										
XPC	7508	broad.mit.edu	37	chr3	14211999	14211999	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcattgctgtcttcattcatGgtagcccctctcttcagatg	7	12	6	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:14211999G>T	uc011ave.1	-	3	455	c.351C>A	c.(349-351)ACC>ACA	p.T117T	XPC_uc011avf.1_5'UTR|XPC_uc011avg.1_Silent_p.T117T	NM_004628	NP_004619	Q01831	XPC_HUMAN	xeroderma pigmentosum, complementation group C	117	Glu-rich (acidic).				nucleotide-excision repair, DNA damage recognition|nucleotide-excision repair, DNA damage removal	cytoplasm|nucleoplasm|XPC complex	bubble DNA binding|damaged DNA binding|loop DNA binding|protein binding|single-stranded DNA binding			ovary(2)|breast(1)	3						CTTCATTCATGGTAGCCCCTC	0.428			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		NER	Xeroderma_Pigmentosum				9	183	---	---	---	---	PASS	T	14211999	T	T	14211999	2	4	178	1	0	0	0	0	0	0	0	1	17438	1335	47	3		3	XPC	3	14211999	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2822564	14211999	183810431	186	63139										
FGD5	152273	broad.mit.edu	37	chr3	14974123	14974123	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtatgcctctgctaggcttcAccattgctccagaaaaggaa	9	11	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:14974123A>T	uc003bzc.2	+	19	4347	c.4237A>T	c.(4237-4239)ACC>TCC	p.T1413S	FGD5_uc011avk.1_Missense_Mutation_p.T1370S|FGD5_uc003bzd.2_Missense_Mutation_p.T491S	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	1413	PH 2.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						GCTAGGCTTCACCATTGCTCC	0.428													14	53	---	---	---	---	PASS	T	14974123	T	T	14974123	3	4	178	1	0	0	0	0	1	0	0	0	5836	159	6	5	4311	5	FGD5	3	14974123	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	762124	14974123	183048307	187	63140										
OXNAD1	92106	broad.mit.edu	37	chr3	16327883	16327883	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taaggtgtgtggagctgccaGtgagtcaccgtcagtgaaga	15	7	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:16327883G>T	uc003caw.2	+	5	675	c.218G>T	c.(217-219)AGT>ATT	p.S73I	OXNAD1_uc010her.1_RNA|OXNAD1_uc003cax.2_Missense_Mutation_p.S73I|OXNAD1_uc011awb.1_Missense_Mutation_p.S91I	NM_138381	NP_612390	Q96HP4	OXND1_HUMAN	oxidoreductase NAD-binding domain containing 1	73	FAD-binding FR-type.						oxidoreductase activity			skin(1)	1						GGAGCTGCCAGTGAGTCACCG	0.478													6	74	---	---	---	---	PASS	T	16327883	T	T	16327883	3	4	178	1	0	0	0	0	1	0	0	0	11333	1029	36	3	228	3	OXNAD1	3	16327883	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1353760	16327883	181694547	188	63141										
TBC1D5	9779	broad.mit.edu	37	chr3	17418096	17418096	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gactataggtgctaacagttCgtgcatgccctgaaataaaa	9	8	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:17418096C>A	uc003cbf.2	-	10	2287	c.622G>T	c.(622-624)GAA>TAA	p.E208*	TBC1D5_uc010hev.2_Nonsense_Mutation_p.E208*|TBC1D5_uc003cbe.2_Nonsense_Mutation_p.E208*|TBC1D5_uc010hew.1_Nonsense_Mutation_p.E160*	NM_014744	NP_055559	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5 isoform b	208	Rab-GAP TBC.					intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						GCTAACAGTTCGTGCATGCCC	0.398													4	44	---	---	---	---	PASS	A	17418096	A	A	17418096	4	1	178	1	0	0	0	0	0	1	0	0	15620	893	31	2	1887	2	TBC1D5	3	17418096	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1090213	17418096	180604334	189	63142										
SATB1	6304	broad.mit.edu	37	chr3	18393544	18393544	+	Silent	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgtcgccatggtgatgcacCgcgttgctctcctgttcata	10	13	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:18393544C>G	uc003cbh.2	-	10	3454	c.1719G>C	c.(1717-1719)GCG>GCC	p.A573A	SATB1_uc003cbi.2_Silent_p.A573A|SATB1_uc003cbj.2_Silent_p.A573A	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	573					cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						GGTGATGCACCGCGTTGCTCT	0.493													4	90	---	---	---	---	PASS	G	18393544	G	G	18393544	2	3	178	1	0	0	0	0	0	0	0	1	13853	639	23	4		4	SATB1	3	18393544	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	975448	18393544	179628886	190	63143										
NGLY1	55768	broad.mit.edu	37	chr3	25805745	25805745	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctctatggcaatcaggtcacGaattttttgcagctgctcca	8	11	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:25805745G>T	uc003cdl.2	-	3	412	c.304C>A	c.(304-306)CGT>AGT	p.R102S	NGLY1_uc010hfg.2_Missense_Mutation_p.R102S|NGLY1_uc003cdm.2_Missense_Mutation_p.R102S|NGLY1_uc011awo.1_Missense_Mutation_p.R60S|NGLY1_uc003cdk.2_RNA	NM_018297	NP_060767	Q96IV0	NGLY1_HUMAN	N-glycanase 1 isoform 1	102					glycoprotein catabolic process	cytoplasm	metal ion binding|peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase activity|protein binding			breast(1)	1						ATCAGGTCACGAATTTTTTGC	0.403													6	183	---	---	---	---	PASS	T	25805745	T	T	25805745	3	4	178	1	0	0	0	0	1	0	0	0	10398	1058	37	2	1796	2	NGLY1	3	25805745	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	7412201	25805745	172216685	191	63144										
TRANK1	9881	broad.mit.edu	37	chr3	36872688	36872688	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctggaaaggactgccacctCggaagctgccccctcaaacg	10	16	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:36872688C>A	uc003cgj.2	-	12	6906	c.6604G>T	c.(6604-6606)GAG>TAG	p.E2202*		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2752					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						ACTGCCACCTCGGAAGCTGCC	0.557													4	36	---	---	---	---	PASS	A	36872688	A	A	36872688	4	1	178	1	0	0	0	0	0	1	0	0	16451	893	31	2	535	2	TRANK1	3	36872688	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	11066943	36872688	161149742	192	63145										
SCN10A	6336	broad.mit.edu	37	chr3	38798188	38798188	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgctccttccggagcatctCgagggcctcctggaacttct	10	15	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:38798188C>A	uc003ciq.2	-	9	1267	c.1267G>T	c.(1267-1269)GAG>TAG	p.E423*		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	423					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CGGAGCATCTCGAGGGCCTCC	0.502													5	86	---	---	---	---	PASS	A	38798188	A	A	38798188	4	1	178	1	0	0	0	0	0	1	0	0	13912	893	31	2	4679	2	SCN10A	3	38798188	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1925500	38798188	159224242	193	63146										
GORASP1	64689	broad.mit.edu	37	chr3	39141908	39141908	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caagtggtagagcagaaggtGgtggggtgccaggtggcttc	19	6	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:39141908G>A	uc003ciw.1	-	6	751	c.653C>T	c.(652-654)CCA>CTA	p.P218L	GORASP1_uc003civ.1_RNA|GORASP1_uc003cix.1_RNA|GORASP1_uc003ciy.1_RNA|GORASP1_uc011ayw.1_Missense_Mutation_p.P123L|GORASP1_uc003ciz.1_Missense_Mutation_p.P63L	NM_031899	NP_114105	Q9BQQ3	GORS1_HUMAN	Golgi reassembly stacking protein 1	218	Pro-rich.				mitotic prophase|protein transport	cytosol|Golgi apparatus|membrane				ovary(2)|central_nervous_system(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		AGCAGAAGGTGGTGGGGTGCC	0.612													3	5	---	---	---	---	PASS	A	39141908	A	A	39141908	3	1	178	1	0	0	0	0	1	0	0	0	6575	1348	47	3	685	3	GORASP1	3	39141908	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	343720	39141908	158880522	194	63147										
SACM1L	22908	broad.mit.edu	37	chr3	45779277	45779277	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tctacagcctgggctgacaaCgcaaatgcttgtgccaagca	10	12	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:45779277C>A	uc003cos.2	+	16	1527	c.1323C>A	c.(1321-1323)AAC>AAA	p.N441K	SACM1L_uc011bag.1_Missense_Mutation_p.N338K|SACM1L_uc011bah.1_Missense_Mutation_p.N375K|SACM1L_uc003cot.2_Missense_Mutation_p.N84K	NM_014016	NP_054735	Q9NTJ5	SAC1_HUMAN	suppressor of actin 1	441	SAC.					Golgi apparatus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0102)|KIRC - Kidney renal clear cell carcinoma(197;0.0234)|Kidney(197;0.0277)		GGGCTGACAACGCAAATGCTT	0.348													5	70	---	---	---	---	PASS	A	45779277	A	A	45779277	3	1	178	1	0	0	0	0	1	0	0	0	13803	535	19	1	1385	1	SACM1L	3	45779277	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	6637369	45779277	152243153	195	63148										
COL7A1	1294	broad.mit.edu	37	chr3	48614120	48614120	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacactcacctggccaggagGgcccactggccctgggaggc	15	15	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:48614120G>T	uc003ctz.2	-	67	5690	c.5689C>A	c.(5689-5691)CCT>ACT	p.P1897T		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1897	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TGGCCAGGAGGGCCCACTGGC	0.617													4	10	---	---	---	---	PASS	T	48614120	T	T	48614120	3	4	178	1	0	0	0	0	1	0	0	0	3704	1232	43	3	3353	3	COL7A1	3	48614120	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2834843	48614120	149408310	196	63149										
RNF123	63891	broad.mit.edu	37	chr3	49758714	49758714	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgggagaagggagccaatacGagtactacctcctcagctgc	12	11	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:49758714G>T	uc003cxh.2	+	39	4007	c.3921G>T	c.(3919-3921)ACG>ACT	p.T1307T	RNF123_uc003cxi.2_RNA|AMIGO3_uc003cxj.2_5'Flank	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	1307						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		GAGCCAATACGAGTACTACCT	0.542													6	131	---	---	---	---	PASS	T	49758714	T	T	49758714	2	4	178	1	0	0	0	0	0	0	0	1	13433	1045	37	2		2	RNF123	3	49758714	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1144594	49758714	148263716	197	63150										
PBRM1	55193	broad.mit.edu	37	chr3	52621494	52621494	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtggaatgtttcatttggtcGgtaaaaccaacagccataca	9	8	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:52621494G>C	uc003des.2	-	19	3010	c.2998C>G	c.(2998-3000)CGA>GGA	p.R1000G	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.R1000G|PBRM1_uc003der.2_Missense_Mutation_p.R968G|PBRM1_uc003det.2_Missense_Mutation_p.R1015G|PBRM1_uc003deu.2_Missense_Mutation_p.R1015G|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.R1000G|PBRM1_uc010hmk.1_Intron|PBRM1_uc003dey.2_Intron|PBRM1_uc003dez.1_Missense_Mutation_p.R999G|PBRM1_uc003dfb.1_Missense_Mutation_p.R912G|PBRM1_uc003dfa.1_Missense_Mutation_p.R346G	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	1000	BAH 1.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TCATTTGGTCGGTAAAACCAA	0.363			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								3	42	---	---	---	---	PASS	C	52621494	C	C	52621494	3	2	178	1	0	0	0	0	1	0	0	0	11491	1124	39	4	1950	4	PBRM1	3	52621494	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2862780	52621494	145400936	198	63151										
CHDH	55349	broad.mit.edu	37	chr3	53854550	53854550	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atgcagaccttccgcaggggCttctgtgctgaatggagggt	15	9	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:53854550C>A	uc003dgz.2	-	6	1511	c.1071G>T	c.(1069-1071)AAG>AAT	p.K357N		NM_018397	NP_060867	Q8NE62	CHDH_HUMAN	choline dehydrogenase precursor	357					alcohol metabolic process		choline dehydrogenase activity|flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		Hepatocellular(537;0.152)		BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)	Choline(DB00122)	TCCGCAGGGGCTTCTGTGCTG	0.552													6	104	---	---	---	---	PASS	A	53854550	A	A	53854550	3	1	178	1	0	0	0	0	1	0	0	0	3333	796	28	3	729	3	CHDH	3	53854550	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1233056	53854550	144167880	199	63152										
OR5H6	79295	broad.mit.edu	37	chr3	97983199	97983199	+	Nonsense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggaagaggaaaatgcaacatTgctgacagagtttgttctca	11	6	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:97983199T>A	uc003dsi.1	+	1	71	c.71T>A	c.(70-72)TTG>TAG	p.L24*		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						AATGCAACATTGCTGACAGAG	0.408													22	138	---	---	---	---	PASS	A	97983199	A	A	97983199	4	1	178	1	0	0	0	0	0	1	0	0	11163	1821	63	5	73	5	OR5H6	3	97983199	Nonsense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	44128649	97983199	100039231	200	63153										
DCBLD2	131566	broad.mit.edu	37	chr3	98538223	98538223	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgctgttatttgaggatccgCgatcacaccagactccatcc	8	13	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:98538223C>A	uc003dtd.2	-	8	1273	c.910G>T	c.(910-912)GCG>TCG	p.A304S	DCBLD2_uc003dte.2_Missense_Mutation_p.A304S	NM_080927	NP_563615	Q96PD2	DCBD2_HUMAN	discoidin, CUB and LCCL domain containing 2	304	Extracellular (Potential).|F5/8 type C.				cell adhesion|intracellular receptor mediated signaling pathway|negative regulation of cell growth|wound healing	cell surface|integral to plasma membrane				ovary(2)|central_nervous_system(1)	3						TGAGGATCCGCGATCACACCA	0.443													20	80	---	---	---	---	PASS	A	98538223	A	A	98538223	3	1	178	1	0	0	0	0	1	0	0	0	4281	768	27	1	1453	1	DCBLD2	3	98538223	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	555024	98538223	99484207	201	63154										
COL8A1	1295	broad.mit.edu	37	chr3	99514646	99514646	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	accggtgggggccccagtgaAgtttaacaaactgctgtata	12	9	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:99514646A>C	uc003dtg.1	+	5	2146	c.1901A>C	c.(1900-1902)AAG>ACG	p.K634T	COL8A1_uc003dth.1_Missense_Mutation_p.K634T|COL8A1_uc003dti.1_Missense_Mutation_p.K635T	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	634	C1q.|Nonhelical region (NC1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						GCCCCAGTGAAGTTTAACAAA	0.537													10	30	---	---	---	---	PASS	C	99514646	C	C	99514646	3	2	178	1	0	0	0	0	1	0	0	0	3705	72	3	5	1907	5	COL8A1	3	99514646	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	976423	99514646	98507784	202	63155										
TOMM70A	9868	broad.mit.edu	37	chr3	100093869	100093869	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaaacagacttacctgtcctCggtggtgataaacatctgca	8	10	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:100093869C>A	uc003dtw.2	-	7	1652	c.1220G>T	c.(1219-1221)CGA>CTA	p.R407L		NM_014820	NP_055635	O94826	TOM70_HUMAN	translocase of outer mitochondrial membrane 70	407	Cytoplasmic (Potential).|TPR 6.				protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane translocase complex	protein binding|protein transmembrane transporter activity			ovary(1)	1						TACCTGTCCTCGGTGGTGATA	0.413													5	100	---	---	---	---	PASS	A	100093869	A	A	100093869	3	1	178	1	0	0	0	0	1	0	0	0	16359	884	31	2	630	2	TOMM70A	3	100093869	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	579223	100093869	97928561	203	63156										
TOMM70A	9868	broad.mit.edu	37	chr3	100093992	100093992	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttttgatgagagcatttgctCgaagctatataccccaagtg	9	8	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:100093992C>A	uc003dtw.2	-	7	1529	c.1097G>T	c.(1096-1098)CGA>CTA	p.R366L		NM_014820	NP_055635	O94826	TOM70_HUMAN	translocase of outer mitochondrial membrane 70	366	Cytoplasmic (Potential).				protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane translocase complex	protein binding|protein transmembrane transporter activity			ovary(1)	1						AGCATTTGCTCGAAGCTATAT	0.353													6	230	---	---	---	---	PASS	A	100093992	A	A	100093992	3	1	178	1	0	0	0	0	1	0	0	0	16359	884	31	2	753	2	TOMM70A	3	100093992	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	123	100093992	97928438	204	63157										
TOMM70A	9868	broad.mit.edu	37	chr3	100105095	100105095	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttcttattgtctagcttctCatgggcttttgcacgtctaa	7	10	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:100105095C>T	uc003dtw.2	-	3	1024	c.592G>A	c.(592-594)GAG>AAG	p.E198K		NM_014820	NP_055635	O94826	TOM70_HUMAN	translocase of outer mitochondrial membrane 70	198	Cytoplasmic (Potential).				protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane translocase complex	protein binding|protein transmembrane transporter activity			ovary(1)	1						TCTAGCTTCTCATGGGCTTTT	0.328													33	156	---	---	---	---	PASS	T	100105095	T	T	100105095	3	4	178	1	0	0	0	0	1	0	0	0	16359	835	29	2	1274	2	TOMM70A	3	100105095	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	11103	100105095	97917335	205	63158										
ABI3BP	25890	broad.mit.edu	37	chr3	100471739	100471739	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atattgtttgcccttacactCtgagtaagagtctgaattaa	7	7	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:100471739C>A	uc003dun.2	-	33	2966	c.2881G>T	c.(2881-2883)GAG>TAG	p.E961*	ABI3BP_uc003duj.2_Nonsense_Mutation_p.E541*|ABI3BP_uc003duk.2_Nonsense_Mutation_p.E670*|ABI3BP_uc003dul.2_Nonsense_Mutation_p.E791*|ABI3BP_uc011bhd.1_Nonsense_Mutation_p.E915*|ABI3BP_uc003dum.2_Nonsense_Mutation_p.E372*	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	961						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						CCCTTACACTCTGAGTAAGAG	0.398													7	93	---	---	---	---	PASS	A	100471739	A	A	100471739	4	1	178	1	0	0	0	0	0	1	0	0	91	922	32	2	358	2	ABI3BP	3	100471739	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	366644	100471739	97550691	206	63159										
SENP7	57337	broad.mit.edu	37	chr3	101051624	101051624	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaatacttacgactcatttaCaggtacaaagatgtaatctt	5	7	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:101051624C>A	uc003dut.2	-	18	2674	c.2563G>T	c.(2563-2565)GTA>TTA	p.V855L	SENP7_uc003duu.2_Missense_Mutation_p.V790L|SENP7_uc003duv.2_Missense_Mutation_p.V822L|SENP7_uc003duw.2_Missense_Mutation_p.V789L|SENP7_uc003dux.2_Missense_Mutation_p.V691L|SENP7_uc003dus.2_Missense_Mutation_p.V43L	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	855	Protease.				proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						GACTCATTTACAGGTACAAAG	0.274													6	151	---	---	---	---	PASS	A	101051624	A	A	101051624	3	1	178	1	0	0	0	0	1	0	0	0	14051	478	17	3	617	3	SENP7	3	101051624	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	579885	101051624	96970806	207	63160										
RG9MTD1	54931	broad.mit.edu	37	chr3	101283646	101283646	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atggctgctttcctcaaaatGagtgttagtgtcaatttctt	8	7	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:101283646G>T	uc003duz.2	+	2	169	c.21G>T	c.(19-21)ATG>ATT	p.M7I		NM_017819	NP_060289	Q7L0Y3	MRRP1_HUMAN	RNA (guanine-9-) methyltransferase domain	7					tRNA processing	mitochondrion	methyltransferase activity|protein binding			ovary(1)	1						TCCTCAAAATGAGTGTTAGTG	0.328													10	259	---	---	---	---	PASS	T	101283646	T	T	101283646	3	4	178	1	0	0	0	0	1	0	0	0	13271	1290	45	2	23	2	RG9MTD1	3	101283646	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	232022	101283646	96738784	208	63161										
NFKBIZ	64332	broad.mit.edu	37	chr3	101576002	101576002	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctctttttggagctgcccaGttgcctgtcttttgtgaatg	10	10	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:101576002G>T	uc003dvp.2	+	10	2025	c.1910G>T	c.(1909-1911)AGT>ATT	p.S637I	NFKBIZ_uc003dvo.2_Missense_Mutation_p.S537I|NFKBIZ_uc010hpo.2_Missense_Mutation_p.S537I|NFKBIZ_uc003dvq.2_Missense_Mutation_p.S515I	NM_031419	NP_113607	Q9BYH8	IKBZ_HUMAN	nuclear factor of kappa light polypeptide gene	637	Interaction with NFKB1/p50 (By similarity).|ANK 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(2)	2						GAGCTGCCCAGTTGCCTGTCT	0.483													6	116	---	---	---	---	PASS	T	101576002	T	T	101576002	3	4	178	1	0	0	0	0	1	0	0	0	10383	1029	36	3	1948	3	NFKBIZ	3	101576002	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	292356	101576002	96446428	209	63162										
ALCAM	214	broad.mit.edu	37	chr3	105250889	105250889	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtaagcaaagcactgtttctCgaaacagagcagctaaaaaa	8	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:105250889C>A	uc003dvx.2	+	4	978	c.438C>A	c.(436-438)CTC>CTA	p.L146L	ALCAM_uc003dvw.1_Silent_p.L146L|ALCAM_uc003dvy.2_Silent_p.L146L|ALCAM_uc011bhh.1_Silent_p.L95L|ALCAM_uc010hpp.2_5'Flank	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	146	Extracellular (Potential).|Ig-like V-type 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						CACTGTTTCTCGAAACAGAGC	0.348													6	251	---	---	---	---	PASS	A	105250889	A	A	105250889	2	1	178	1	0	0	0	0	0	0	0	1	487	871	31	2		2	ALCAM	3	105250889	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	3674887	105250889	92771541	210	63163										
CCDC54	84692	broad.mit.edu	37	chr3	107097232	107097232	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acatttttcctcagtgctacCaagttagaagaattcatcca	5	10	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:107097232C>A	uc003dwi.1	+	1	1045	c.798C>A	c.(796-798)ACC>ACA	p.T266T		NM_032600	NP_115989	Q8NEL0	CCD54_HUMAN	coiled-coil domain containing 54	266											0						TCAGTGCTACCAAGTTAGAAG	0.423													7	118	---	---	---	---	PASS	A	107097232	A	A	107097232	2	1	178	1	0	0	0	0	0	0	0	1	2824	581	21	3		3	CCDC54	3	107097232	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1846343	107097232	90925198	211	63164										
DPPA4	55211	broad.mit.edu	37	chr3	109049533	109049533	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagggcaggcggctcccccaCaggaggaagagccacttcag	14	14	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:109049533C>G	uc003dxq.3	-	5	572	c.517G>C	c.(517-519)GTG>CTG	p.V173L	DPPA4_uc011bho.1_Intron|DPPA4_uc011bhp.1_Missense_Mutation_p.V173L	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	173						nucleus	protein binding			upper_aerodigestive_tract(1)	1						GGCTCCCCCACAGGAGGAAGA	0.507													12	93	---	---	---	---	PASS	G	109049533	G	G	109049533	3	3	178	1	0	0	0	0	1	0	0	0	4736	478	17	4	409	4	DPPA4	3	109049533	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1952301	109049533	88972897	212	63165										
TMPRSS7	344805	broad.mit.edu	37	chr3	111768698	111768698	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tatctgctttcagaatttgtGaacccacaagaacattaatg	6	8	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:111768698G>T	uc010hqb.2	+	6	759	c.589G>T	c.(589-591)GAA>TAA	p.E197*	TMPRSS7_uc011bhr.1_Nonsense_Mutation_p.E52*	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	323	Extracellular (Potential).|CUB 1.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						CAGAATTTGTGAACCCACAAG	0.368													7	124	---	---	---	---	PASS	T	111768698	T	T	111768698	4	4	178	1	0	0	0	0	0	1	0	0	16249	1291	45	2	607	2	TMPRSS7	3	111768698	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2719165	111768698	86253732	213	63166										
SLC9A10	285335	broad.mit.edu	37	chr3	111927116	111927116	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttacatttaactgggatatcCaagagattataaagggaaat	8	4	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:111927116C>A	uc003dyu.2	-	16	2117	c.1895G>T	c.(1894-1896)TGG>TTG	p.W632L	SLC9A10_uc011bhu.1_Intron|SLC9A10_uc010hqc.2_Missense_Mutation_p.W584L	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	632	Helical; (Potential).|Ion transport-like.				cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						CTGGGATATCCAAGAGATTAT	0.299													11	252	---	---	---	---	PASS	A	111927116	A	A	111927116	3	1	178	1	0	0	0	0	1	0	0	0	14710	595	21	3	1694	3	SLC9A10	3	111927116	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	158418	111927116	86095314	214	63167										
GRAMD1C	54762	broad.mit.edu	37	chr3	113595041	113595041	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctttaaagaatataaccttCatgaccaaggaaaaaactgc	6	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:113595041C>T	uc003eaq.3	+	5	469	c.393C>T	c.(391-393)TTC>TTT	p.F131F	GRAMD1C_uc011bil.1_RNA|GRAMD1C_uc011bim.1_Intron	NM_017577	NP_060047	Q8IYS0	GRM1C_HUMAN	GRAM domain containing 1C	131	GRAM.					integral to membrane				ovary(2)|skin(1)	3						ATATAACCTTCATGACCAAGG	0.299													26	168	---	---	---	---	PASS	T	113595041	T	T	113595041	2	4	178	1	0	0	0	0	0	0	0	1	6749	825	29	2		2	GRAMD1C	3	113595041	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1667925	113595041	84427389	215	63168										
GRAMD1C	54762	broad.mit.edu	37	chr3	113623041	113623041	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gagagagatgaaaaattatcCaagtcaatcagttttaccag	8	6	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:113623041C>A	uc003eaq.3	+	8	787	c.711C>A	c.(709-711)TCC>TCA	p.S237S	GRAMD1C_uc011bil.1_RNA|GRAMD1C_uc011bim.1_Intron|GRAMD1C_uc003ear.2_Silent_p.S70S|GRAMD1C_uc003eas.2_Silent_p.S32S	NM_017577	NP_060047	Q8IYS0	GRM1C_HUMAN	GRAM domain containing 1C	237						integral to membrane				ovary(2)|skin(1)	3						AAAAATTATCCAAGTCAATCA	0.373													6	70	---	---	---	---	PASS	A	113623041	A	A	113623041	2	1	178	1	0	0	0	0	0	0	0	1	6749	581	21	3		3	GRAMD1C	3	113623041	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	28000	113623041	84399389	216	63169										
KIAA1407	57577	broad.mit.edu	37	chr3	113697729	113697729	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agccagctctggatgactctCttaagcagtatttgggaata	10	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:113697729C>A	uc003eax.2	-	15	2583	c.2436G>T	c.(2434-2436)AAG>AAT	p.K812N	KIAA1407_uc011bin.1_RNA	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	812										ovary(2)	2						GGATGACTCTCTTAAGCAGTA	0.418													10	221	---	---	---	---	PASS	A	113697729	A	A	113697729	3	1	178	1	0	0	0	0	1	0	0	0	8229	912	32	2	386	2	KIAA1407	3	113697729	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	74688	113697729	84324701	217	63170										
POLQ	10721	broad.mit.edu	37	chr3	121207700	121207700	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agagttcattgagttctgttGgactaagctcttctgcatta	9	7	4	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:121207700G>T	uc003eee.3	-	16	4207	c.4078C>A	c.(4078-4080)CAA>AAA	p.Q1360K	POLQ_uc003eed.2_Missense_Mutation_p.Q532K	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1360					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		GAGTTCTGTTGGACTAAGCTC	0.433								DNA_polymerases_(catalytic_subunits)					8	141	---	---	---	---	PASS	T	121207700	T	T	121207700	3	4	178	1	0	0	0	0	1	0	0	0	12208	1357	47	3	3754	3	POLQ	3	121207700	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	7509971	121207700	76814730	218	63171										
POLQ	10721	broad.mit.edu	37	chr3	121208219	121208219	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttaattggatggatgtcatGgtgtttcatataaacattct	9	4	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:121208219G>T	uc003eee.3	-	16	3688	c.3559C>A	c.(3559-3561)CAT>AAT	p.H1187N	POLQ_uc003eed.2_Missense_Mutation_p.H359N	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1187					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TGGATGTCATGGTGTTTCATA	0.373								DNA_polymerases_(catalytic_subunits)					9	263	---	---	---	---	PASS	T	121208219	T	T	121208219	3	4	178	1	0	0	0	0	1	0	0	0	12208	1348	47	3	4273	3	POLQ	3	121208219	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	519	121208219	76814211	219	63172										
GOLGB1	2804	broad.mit.edu	37	chr3	121410244	121410244	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttctgcaattctcttttgaGaggaggaaaacaaagcactt	9	7	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:121410244G>T	uc003eei.3	-	14	8078	c.7952C>A	c.(7951-7953)TCT>TAT	p.S2651Y	GOLGB1_uc010hrc.2_Missense_Mutation_p.S2656Y|GOLGB1_uc003eej.3_Missense_Mutation_p.S2617Y	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	2651	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TCTCTTTTGAGAGGAGGAAAA	0.378													10	241	---	---	---	---	PASS	T	121410244	T	T	121410244	3	4	178	1	0	0	0	0	1	0	0	0	6565	942	33	2	1863	2	GOLGB1	3	121410244	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	202025	121410244	76612186	220	63173										
CCDC14	64770	broad.mit.edu	37	chr3	123665977	123665977	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtctgtttccttatgaattcCttgttgtggcagaattccat	8	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:123665977C>A	uc011bjx.1	-	8	1109	c.1018G>T	c.(1018-1020)GGA>TGA	p.G340*	CCDC14_uc003egv.3_Intron|CCDC14_uc003egx.3_Nonsense_Mutation_p.G140*|CCDC14_uc010hrt.2_Nonsense_Mutation_p.G299*|CCDC14_uc003egy.3_Nonsense_Mutation_p.G140*|CCDC14_uc003egz.2_Nonsense_Mutation_p.G140*	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	340						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		TTATGAATTCCTTGTTGTGGC	0.418													7	115	---	---	---	---	PASS	A	123665977	A	A	123665977	4	1	178	1	0	0	0	0	0	1	0	0	2773	690	24	3	1867	3	CCDC14	3	123665977	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2255733	123665977	74356453	221	63174										
ZNF148	7707	broad.mit.edu	37	chr3	124998070	124998070	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggttttcaaaccaagtgatcCatcctcatttattgtaagga	7	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:124998070C>A	uc003ehx.3	-	6	967	c.481G>T	c.(481-483)GGA>TGA	p.G161*	SLC12A8_uc003ehw.3_5'UTR|ZNF148_uc003ehz.3_Nonsense_Mutation_p.G161*|ZNF148_uc010hsa.2_Nonsense_Mutation_p.G161*|ZNF148_uc003eia.3_Nonsense_Mutation_p.G161*|ZNF148_uc003ehy.2_Intron	NM_021964	NP_068799	Q9UQR1	ZN148_HUMAN	zinc finger protein 148	161					cellular defense response|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4						CCAAGTGATCCATCCTCATTT	0.289													7	125	---	---	---	---	PASS	A	124998070	A	A	124998070	4	1	178	1	0	0	0	0	0	1	0	0	17731	603	21	3	1919	3	ZNF148	3	124998070	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1332093	124998070	73024360	222	63175										
OSBPL11	114885	broad.mit.edu	37	chr3	125286249	125286249	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acaacttacctgaaggcaatGagcccttctgatgtgatgca	9	10	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:125286249G>T	uc003eic.2	-	6	1594	c.857C>A	c.(856-858)TCA>TAA	p.S286*		NM_022776	NP_073613	Q9BXB4	OSB11_HUMAN	oxysterol binding protein-like 11	286					lipid transport		lipid binding			ovary(3)|breast(1)|kidney(1)	5						TGAAGGCAATGAGCCCTTCTG	0.393													8	125	---	---	---	---	PASS	T	125286249	T	T	125286249	4	4	178	1	0	0	0	0	0	1	0	0	11276	1294	45	2	1418	2	OSBPL11	3	125286249	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	288179	125286249	72736181	223	63176										
KBTBD12	166348	broad.mit.edu	37	chr3	127646667	127646667	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acagctgaatttcgagaactCtatgctctgggcagtattca	9	9	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:127646667C>A	uc010hsr.2	+	2	1134	c.1131C>A	c.(1129-1131)CTC>CTA	p.L377L	KBTBD12_uc003ejy.3_5'UTR|KBTBD12_uc010hsq.2_Intron|KBTBD12_uc003eka.3_Missense_Mutation_p.S19Y|KBTBD12_uc003ejz.2_Silent_p.L377L	NM_207335	NP_997218	Q3ZCT8	KBTBC_HUMAN	kelch domain containing 6	377										ovary(1)	1						TTCGAGAACTCTATGCTCTGG	0.368													11	284	---	---	---	---	PASS	A	127646667	A	A	127646667	2	1	178	1	0	0	0	0	0	0	0	1	7991	900	32	2		2	KBTBD12	3	127646667	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	2360418	127646667	70375763	224	63177										
ACAD9	28976	broad.mit.edu	37	chr3	128629610	128629610	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttggccaacaccttctgcgtGgaagcttacttgcagaatct	9	11	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:128629610G>T	uc003ela.3	+	17	1921	c.1719G>T	c.(1717-1719)GTG>GTT	p.V573V	KIAA1257_uc003elg.1_Intron|ACAD9_uc011bks.1_Silent_p.V450V|ACAD9_uc003elb.2_Silent_p.V450V|ACAD9_uc003eld.1_RNA|ACAD9_uc003ele.2_Silent_p.V225V|uc003elf.1_Intron	NM_014049	NP_054768	Q9H845	ACAD9_HUMAN	acyl-Coenzyme A dehydrogenase family, member 9	573						mitochondrion	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding			ovary(2)|central_nervous_system(1)	3						CCTTCTGCGTGGAAGCTTACT	0.522													9	249	---	---	---	---	PASS	T	128629610	T	T	128629610	2	4	178	1	0	0	0	0	0	0	0	1	111	1335	47	3		3	ACAD9	3	128629610	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	982943	128629610	69392820	225	63178										
RAB43	339122	broad.mit.edu	37	chr3	128852994	128852994	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttttctcctcttgccagccGagcctctctctctgctttcc	5	18	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:128852994G>T	uc003elo.1	-	9	797	c.586C>A	c.(586-588)CGG>AGG	p.R196R	ISY1_uc010hsz.1_Intron|ISY1_uc003elp.1_Silent_p.R196R|ISY1_uc010hta.1_Silent_p.R218R	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						CTTGCCAGCCGAGCCTCTCTC	0.423													5	94	---	---	---	---	PASS	T	128852994	T	T	128852994	2	4	178	1	0	0	0	0	0	0	0	1	12945	1057	37	2		2	RAB43	3	128852994	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	223384	128852994	69169436	226	63179										
RHO	6010	broad.mit.edu	37	chr3	129251164	129251164	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcaagccggaggtcaacaacGagtcttttgtcatctacatg	9	10	5	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:129251164G>T	uc003emt.2	+	3	696	c.601G>T	c.(601-603)GAG>TAG	p.E201*		NM_000539	NP_000530	P08100	OPSD_HUMAN	rhodopsin	201	Extracellular.	Zinc (By similarity).			protein-chromophore linkage|rhodopsin mediated signaling pathway	Golgi apparatus|integral to plasma membrane|photoreceptor inner segment membrane|photoreceptor outer segment membrane	G-protein coupled receptor activity|metal ion binding|photoreceptor activity|protein binding				0		all_neural(597;0.0227)|Myeloproliferative disorder(1037;0.0255)|Prostate(884;0.183)		GBM - Glioblastoma multiforme(114;2.58e-05)|Lung(219;0.0234)	Halothane(DB01159)	GGTCAACAACGAGTCTTTTGT	0.542													5	87	---	---	---	---	PASS	T	129251164	T	T	129251164	4	4	178	1	0	0	0	0	0	1	0	0	13330	1059	37	2	611	2	RHO	3	129251164	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	398170	129251164	68771266	227	63180										
DNAJC13	23317	broad.mit.edu	37	chr3	132172954	132172954	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaaaatccacaactttttacCattgaatttataaaagggca	5	7	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:132172954C>A	uc003eor.2	+	9	950	c.885C>A	c.(883-885)ACC>ACA	p.T295T	DNAJC13_uc010htq.1_Silent_p.T295T|DNAJC13_uc003eos.1_5'Flank	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	295							heat shock protein binding			ovary(1)|breast(1)	2						AACTTTTTACCATTGAATTTA	0.289													11	344	---	---	---	---	PASS	A	132172954	A	A	132172954	2	1	178	1	0	0	0	0	0	0	0	1	4632	581	21	3		3	DNAJC13	3	132172954	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	2921790	132172954	65849476	228	63181										
TMEM108	66000	broad.mit.edu	37	chr3	133098645	133098645	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcgctggcatttgccatccaGgaaccatctcccagggaatc	10	14	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:133098645G>T	uc003eph.2	+	4	364	c.90G>T	c.(88-90)CAG>CAT	p.Q30H	TMEM108_uc003epi.2_Missense_Mutation_p.Q30H|TMEM108_uc003epj.1_Missense_Mutation_p.Q30H|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_Translation_Start_Site	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	30	Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						TTGCCATCCAGGAACCATCTC	0.537													10	292	---	---	---	---	PASS	T	133098645	T	T	133098645	3	4	178	1	0	0	0	0	1	0	0	0	16021	991	35	3	96	3	TMEM108	3	133098645	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	925691	133098645	64923785	229	63182										
TF	7018	broad.mit.edu	37	chr3	133496080	133496080	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctgagaaaatgctccacctCatgtgagtaggaggaacagc	11	10	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:133496080C>T	uc003epu.1	+	21	3788	c.2060C>T	c.(2059-2061)TCA>TTA	p.S687L	TF_uc011blt.1_Missense_Mutation_p.S560L|TF_uc003epw.1_Missense_Mutation_p.S126L|TF_uc003epv.1_Missense_Mutation_p.S687L	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	687					cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	TGCTCCACCTCATGTGAGTAG	0.488													5	24	---	---	---	---	PASS	T	133496080	T	T	133496080	3	4	178	1	0	0	0	0	1	0	0	0	15782	838	29	2	2122	2	TF	3	133496080	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	397435	133496080	64526350	230	63183										
CEP63	80254	broad.mit.edu	37	chr3	134270794	134270794	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttggatcagctggagtcactCaaattagaaaatcgtcatct	8	8	5	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:134270794C>A	uc003eqo.1	+	13	1856	c.1407C>A	c.(1405-1407)CTC>CTA	p.L469L	CEP63_uc003eql.1_Silent_p.L423L|CEP63_uc003eqm.2_Silent_p.L423L|CEP63_uc003eqn.1_Silent_p.L469L|CEP63_uc003eqp.1_Silent_p.L98L	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	469	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						TGGAGTCACTCAAATTAGAAA	0.323													13	360	---	---	---	---	PASS	A	134270794	A	A	134270794	2	1	178	1	0	0	0	0	0	0	0	1	3257	813	29	2		2	CEP63	3	134270794	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	774714	134270794	63751636	231	63184										
PCCB	5096	broad.mit.edu	37	chr3	136035888	136035888	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgttggaattgttggcaacCaacctaaggtggcctcaggt	12	9	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:136035888C>A	uc003eqy.1	+	10	1123	c.1072C>A	c.(1072-1074)CAA>AAA	p.Q358K	PCCB_uc003eqz.1_Missense_Mutation_p.Q358K|PCCB_uc011bmc.1_Missense_Mutation_p.Q378K|PCCB_uc011bmd.1_Missense_Mutation_p.Q275K	NM_000532	NP_000523	P05166	PCCB_HUMAN	propionyl Coenzyme A carboxylase, beta	358	Acyl-CoA binding (Potential).|Carboxyltransferase.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|propionyl-CoA carboxylase activity				0					Biotin(DB00121)|L-Valine(DB00161)	TGTTGGCAACCAACCTAAGGT	0.463													8	196	---	---	---	---	PASS	A	136035888	A	A	136035888	3	1	178	1	0	0	0	0	1	0	0	0	11505	595	21	3	1174	3	PCCB	3	136035888	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1765094	136035888	61986542	232	63185										
STAG1	10274	broad.mit.edu	37	chr3	136078014	136078014	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaagtgtggcaactgcttctCgtgtcttaatctggtccaat	10	9	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:136078014C>A	uc003era.1	-	27	3204	c.2912G>T	c.(2911-2913)CGA>CTA	p.R971L	STAG1_uc003erb.1_Missense_Mutation_p.R971L	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	971					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						AACTGCTTCTCGTGTCTTAAT	0.408													6	106	---	---	---	---	PASS	A	136078014	A	A	136078014	3	1	178	1	0	0	0	0	1	0	0	0	15241	884	31	2	896	2	STAG1	3	136078014	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	42126	136078014	61944416	233	63186										
ARMC8	25852	broad.mit.edu	37	chr3	137963964	137963964	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaaacatgctcacgaactccGccaggctgcattcaagctct	7	14	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:137963964G>C	uc003esa.1	+	13	1398	c.1031G>C	c.(1030-1032)CGC>CCC	p.R344P	ARMC8_uc003erw.2_Missense_Mutation_p.R344P|ARMC8_uc003erx.2_Missense_Mutation_p.R344P|ARMC8_uc003ery.2_Missense_Mutation_p.R316P|ARMC8_uc003erz.2_Missense_Mutation_p.R316P|ARMC8_uc011bmf.1_Missense_Mutation_p.R327P|ARMC8_uc011bmg.1_Missense_Mutation_p.R291P|ARMC8_uc011bmh.1_Missense_Mutation_p.R285P|ARMC8_uc003esb.1_Missense_Mutation_p.R316P|ARMC8_uc003esc.1_Missense_Mutation_p.R116P	NM_015396	NP_056211	Q8IUR7	ARMC8_HUMAN	armadillo repeat containing 8 isoform 2	358							binding				0						CACGAACTCCGCCAGGCTGCA	0.458													13	78	---	---	---	---	PASS	C	137963964	C	C	137963964	3	2	178	1	0	0	0	0	1	0	0	0	957	1087	38	4	1077	4	ARMC8	3	137963964	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1885950	137963964	60058466	234	63187										
ARMC8	25852	broad.mit.edu	37	chr3	137988927	137988927	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agctactttgtggattaactCagagtgaaaatcctgcttta	8	7	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:137988927C>A	uc003esa.1	+	17	1757	c.1390C>A	c.(1390-1392)CAG>AAG	p.Q464K	TXNDC6_uc003esd.1_Intron|TXNDC6_uc010huf.1_Intron|TXNDC6_uc003ese.1_Intron|ARMC8_uc011bmf.1_Missense_Mutation_p.Q447K|ARMC8_uc011bmg.1_Missense_Mutation_p.Q411K|ARMC8_uc011bmh.1_Missense_Mutation_p.Q405K|ARMC8_uc003esb.1_Missense_Mutation_p.Q436K|ARMC8_uc003esc.1_Missense_Mutation_p.Q236K|ARMC8_uc003esf.1_Missense_Mutation_p.Q47K	NM_015396	NP_056211	Q8IUR7	ARMC8_HUMAN	armadillo repeat containing 8 isoform 2	478	ARM 10.						binding				0						TGGATTAACTCAGAGTGAAAA	0.363													7	99	---	---	---	---	PASS	A	137988927	A	A	137988927	3	1	178	1	0	0	0	0	1	0	0	0	957	827	29	2	1518	2	ARMC8	3	137988927	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	24963	137988927	60033503	235	63188										
CEP70	80321	broad.mit.edu	37	chr3	138291716	138291716	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttacctgtttttcagtcatGagtctgtctgatggttgact	9	7	4	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:138291716G>T	uc003esl.2	-	3	252	c.54C>A	c.(52-54)CTC>CTA	p.L18L	CEP70_uc011bmk.1_Intron|CEP70_uc011bml.1_5'UTR|CEP70_uc011bmm.1_Intron|CEP70_uc003esm.2_Silent_p.L18L|CEP70_uc003esn.2_Silent_p.L18L	NM_024491	NP_077817	Q8NHQ1	CEP70_HUMAN	centrosomal protein 70 kDa	18					G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding			skin(1)	1						TTTCAGTCATGAGTCTGTCTG	0.338													9	244	---	---	---	---	PASS	T	138291716	T	T	138291716	2	4	178	1	0	0	0	0	0	0	0	1	3259	1277	45	2		2	CEP70	3	138291716	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	302789	138291716	59730714	236	63189										
MRPS22	56945	broad.mit.edu	37	chr3	139069035	139069035	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttttaggagcgttttattgtCgtcagagaaccaagtggcac	11	7	1	1	rs139990376		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:139069035C>A	uc003etb.2	+	4	527	c.519C>A	c.(517-519)GTC>GTA	p.V173V	MRPS22_uc003etc.2_RNA|MRPS22_uc003etd.2_Silent_p.V172V|MRPS22_uc003ete.2_Silent_p.V132V	NM_020191	NP_064576	P82650	RT22_HUMAN	mitochondrial ribosomal protein S22	173						mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(2)|skin(1)	3						GTTTTATTGTCGTCAGAGAAC	0.393													4	57	---	---	---	---	PASS	A	139069035	A	A	139069035	2	1	178	1	0	0	0	0	0	0	0	1	9833	871	31	2		2	MRPS22	3	139069035	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	777319	139069035	58953395	237	63190										
COPB2	9276	broad.mit.edu	37	chr3	139080022	139080022	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tattagcatttccagaggcaGtggccaaaagcagcaggccc	11	11	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:139080022G>T	uc003etf.3	-	17	2241	c.2111C>A	c.(2110-2112)ACT>AAT	p.T704N	COPB2_uc011bmv.1_Missense_Mutation_p.T675N|COPB2_uc010hui.2_Missense_Mutation_p.T675N	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	704					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						TCCAGAGGCAGTGGCCAAAAG	0.478													7	170	---	---	---	---	PASS	T	139080022	T	T	139080022	3	4	178	1	0	0	0	0	1	0	0	0	3729	1029	36	3	633	3	COPB2	3	139080022	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	10987	139080022	58942408	238	63191										
GRK7	131890	broad.mit.edu	37	chr3	141499363	141499363	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcagccctttcattgtctctCtggcctatgcctttgagagc	9	13	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:141499363C>A	uc011bnd.1	+	2	844	c.760C>A	c.(760-762)CTG>ATG	p.L254M		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	254	Protein kinase.				visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						CATTGTCTCTCTGGCCTATGC	0.517													8	122	---	---	---	---	PASS	A	141499363	A	A	141499363	3	1	178	1	0	0	0	0	1	0	0	0	6794	912	32	2	766	2	GRK7	3	141499363	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2419341	141499363	56523067	239	63192										
TFDP2	7029	broad.mit.edu	37	chr3	141671423	141671423	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attgaacgaacagggggtctCgcctcgggactcggagcagt	15	10	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:141671423C>A	uc003eun.3	-	13	1652	c.1273G>T	c.(1273-1275)GAG>TAG	p.E425*	TFDP2_uc003euk.3_Nonsense_Mutation_p.E338*|TFDP2_uc010hur.2_Nonsense_Mutation_p.E365*|TFDP2_uc003eul.3_Nonsense_Mutation_p.E365*|TFDP2_uc011bnf.1_Nonsense_Mutation_p.E328*|TFDP2_uc011bng.1_Nonsense_Mutation_p.E289*|TFDP2_uc003eum.3_Nonsense_Mutation_p.E365*	NM_006286	NP_006277	Q14188	TFDP2_HUMAN	transcription factor Dp-2 (E2F dimerization	425					cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1						CAGGGGGTCTCGCCTCGGGAC	0.527													6	135	---	---	---	---	PASS	A	141671423	A	A	141671423	4	1	178	1	0	0	0	0	0	1	0	0	15795	893	31	2	71	2	TFDP2	3	141671423	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	172060	141671423	56351007	240	63193										
PLSCR2	57047	broad.mit.edu	37	chr3	146167049	146167049	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttaacatcaaggtctctagGgaattggattccaaagttgt	9	6	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:146167049G>T	uc003evv.1	-	7	922	c.589C>A	c.(589-591)CCT>ACT	p.P197T	PLSCR2_uc003evw.1_Missense_Mutation_p.P266T	NM_020359	NP_065092	Q9NRY7	PLS2_HUMAN	phospholipid scramblase 2	197	Cytoplasmic (By similarity).				phospholipid scrambling	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity				0						AGGTCTCTAGGGAATTGGATT	0.413													12	214	---	---	---	---	PASS	T	146167049	T	T	146167049	3	4	178	1	0	0	0	0	1	0	0	0	12110	1232	43	3	93	3	PLSCR2	3	146167049	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	4495626	146167049	51855381	241	63194										
ZIC4	84107	broad.mit.edu	37	chr3	147113643	147113643	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agcgccgaatactgacctgtGtgagttcgtttgtgtatttt	11	7	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:147113643G>A	uc003ewd.1	-	3	957	c.684C>T	c.(682-684)CAC>CAT	p.H228H	ZIC4_uc003ewc.1_Silent_p.H158H|ZIC4_uc011bno.1_Silent_p.H278H	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	228	C2H2-type 3.			H -> Q (in Ref. 2; AAH29507).		nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						ACTGACCTGTGTGAGTTCGTT	0.572													10	76	---	---	---	---	PASS	A	147113643	A	A	147113643	2	1	178	1	0	0	0	0	0	0	0	1	17678	1368	48	3		3	ZIC4	3	147113643	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	946594	147113643	50908787	242	63195										
GYG1	2992	broad.mit.edu	37	chr3	148714590	148714590	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtcagcagcaccagacccagGgtggcctgactgcttcaatt	11	13	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:148714590G>C	uc003ewn.2	+	4	433	c.380G>C	c.(379-381)GGG>GCG	p.G127A	GYG1_uc011bnp.1_Missense_Mutation_p.G127A|GYG1_uc003ewo.2_Missense_Mutation_p.G127A|GYG1_uc003ewp.2_Missense_Mutation_p.G127A	NM_004130	NP_004121	P46976	GLYG_HUMAN	glycogenin 1	127					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	glycogenin glucosyltransferase activity|metal ion binding|protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			CCAGACCCAGGGTGGCCTGAC	0.423													10	66	---	---	---	---	PASS	C	148714590	C	C	148714590	3	2	178	1	0	0	0	0	1	0	0	0	6905	1232	43	4	394	4	GYG1	3	148714590	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1600947	148714590	49307840	243	63196										
CP	1356	broad.mit.edu	37	chr3	148901366	148901366	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgagcctatgtaaaactctCccttatctaaaaatgcattt	4	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:148901366C>T	uc003ewy.3	-	13	2565	c.2312G>A	c.(2311-2313)GGA>GAA	p.G771E	CP_uc011bnr.1_RNA|CP_uc003ewx.3_Missense_Mutation_p.G552E|CP_uc003ewz.2_Missense_Mutation_p.G771E	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	771	Plastocyanin-like 5.|F5/8 type A 3.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	GTAAAACTCTCCCTTATCTAA	0.303													8	43	---	---	---	---	PASS	T	148901366	T	T	148901366	3	4	178	1	0	0	0	0	1	0	0	0	3787	855	30	2	913	2	CP	3	148901366	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	186776	148901366	49121064	244	63197										
COMMD2	51122	broad.mit.edu	37	chr3	149469237	149469237	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atacgttaatccttccacacCatgctggacagtgtcactac	6	13	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:149469237C>A	uc003exk.2	-	3	228	c.181G>T	c.(181-183)GGT>TGT	p.G61C		NM_016094	NP_057178	Q86X83	COMD2_HUMAN	COMM domain containing 2	61							protein binding				0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			CCTTCCACACCATGCTGGACA	0.388													7	119	---	---	---	---	PASS	A	149469237	A	A	149469237	3	1	178	1	0	0	0	0	1	0	0	0	3716	594	21	3	430	3	COMMD2	3	149469237	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	567871	149469237	48553193	245	63198										
MME	4311	broad.mit.edu	37	chr3	154878217	154878217	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtagtcaatgcattttactCttcaggaagaaatcagatag	8	6	4	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:154878217C>A	uc010hvr.1	+	17	1851	c.1640C>A	c.(1639-1641)TCT>TAT	p.S547Y	MME_uc003fab.1_Missense_Mutation_p.S547Y|MME_uc003fac.1_Missense_Mutation_p.S547Y|MME_uc003fad.1_Missense_Mutation_p.S547Y|MME_uc003fae.1_Missense_Mutation_p.S547Y	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	547	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	GCATTTTACTCTTCAGGAAGA	0.338													13	357	---	---	---	---	PASS	A	154878217	A	A	154878217	3	1	178	1	0	0	0	0	1	0	0	0	9645	913	32	2	1702	2	MME	3	154878217	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5408980	154878217	43144213	246	63199										
KCNAB1	7881	broad.mit.edu	37	chr3	156254473	156254473	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccaaagatgacatcacatgtGgtaaatgagattgataacat	8	6	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:156254473G>T	uc003far.2	+	14	1261	c.1197G>T	c.(1195-1197)GTG>GTT	p.V399V	KCNAB1_uc011bon.1_Silent_p.V370V|KCNAB1_uc003fas.2_Silent_p.V388V|KCNAB1_uc003fat.2_Silent_p.V381V|KCNAB1_uc010hvt.1_Silent_p.V352V|KCNAB1_uc011boo.1_Silent_p.V275V	NM_172160	NP_751892	Q14722	KCAB1_HUMAN	potassium voltage-gated channel, shaker-related	399						cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			CATCACATGTGGTAAATGAGA	0.398													8	151	---	---	---	---	PASS	T	156254473	T	T	156254473	2	4	178	1	0	0	0	0	0	0	0	1	8009	1335	47	3		3	KCNAB1	3	156254473	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1376256	156254473	41767957	247	63200										
VEPH1	79674	broad.mit.edu	37	chr3	157146189	157146189	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggctgttccagctgagacatCaaggccaggagttctgtcag	13	10	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:157146189C>A	uc003fbj.1	-	5	935	c.618G>T	c.(616-618)TTG>TTT	p.L206F	VEPH1_uc003fbk.1_Missense_Mutation_p.L206F|VEPH1_uc010hvu.1_Missense_Mutation_p.L206F	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	206						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			GCTGAGACATCAAGGCCAGGA	0.433													13	77	---	---	---	---	PASS	A	157146189	A	A	157146189	3	1	178	1	0	0	0	0	1	0	0	0	17151	825	29	2	1923	2	VEPH1	3	157146189	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	891716	157146189	40876241	248	63201										
RSRC1	51319	broad.mit.edu	37	chr3	158261981	158261981	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcttatttcagttatttatcGagaaagctgatgctgaggaa	9	5	2	3	rs140479858	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:158261981G>T	uc003fbt.2	+	10	1033	c.922G>T	c.(922-924)GAG>TAG	p.E308*	RSRC1_uc003fbv.2_Nonsense_Mutation_p.E250*	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	308					nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			GTTATTTATCGAGAAAGCTGA	0.333													8	216	---	---	---	---	PASS	T	158261981	T	T	158261981	4	4	178	1	0	0	0	0	0	1	0	0	13714	1059	37	2	956	2	RSRC1	3	158261981	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1115792	158261981	39760449	249	63202										
MFSD1	64747	broad.mit.edu	37	chr3	158541980	158541980	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctggtatgatactggattctCgggggtatttgtttttggaa	13	4	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:158541980C>A	uc003fcl.1	+	13	1273	c.1243C>A	c.(1243-1245)CGG>AGG	p.R415R	MFSD1_uc003fcm.1_RNA|MFSD1_uc003fcn.1_Silent_p.R318R|MFSD1_uc011bow.1_Silent_p.R376R|MFSD1_uc011box.1_Silent_p.R342R	NM_022736	NP_073573	Q9H3U5	MFSD1_HUMAN	major facilitator superfamily domain containing	415					transmembrane transport	integral to membrane					0			Lung(72;0.00372)|LUSC - Lung squamous cell carcinoma(72;0.00523)			ACTGGATTCTCGGGGGTATTT	0.368													11	386	---	---	---	---	PASS	A	158541980	A	A	158541980	2	1	178	1	0	0	0	0	0	0	0	1	9527	875	31	2		2	MFSD1	3	158541980	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	279999	158541980	39480450	250	63203										
SMC4	10051	broad.mit.edu	37	chr3	160141331	160141331	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agctttttattttgctttacGagataccttagtagctgaca	7	7	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:160141331G>T	uc003fdh.2	+	14	2251	c.2138G>T	c.(2137-2139)CGA>CTA	p.R713L	IFT80_uc003fda.2_Intron|SMC4_uc010hwc.1_Missense_Mutation_p.R477L|SMC4_uc003fdi.2_Missense_Mutation_p.R688L|SMC4_uc003fdj.2_Missense_Mutation_p.R713L|SMC4_uc010hwd.2_Missense_Mutation_p.R713L|SMC4_uc003fdl.2_Missense_Mutation_p.R416L	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	713	Flexible hinge.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TTTGCTTTACGAGATACCTTA	0.343													8	276	---	---	---	---	PASS	T	160141331	T	T	160141331	3	4	178	1	0	0	0	0	1	0	0	0	14785	1058	37	2	2188	2	SMC4	3	160141331	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1599351	160141331	37881099	251	63204										
SLITRK3	22865	broad.mit.edu	37	chr3	164907978	164907978	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caatgtgatctagcattcctCggtaaaaaagaacctttaac	6	9	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:164907978C>A	uc003fej.3	-	2	1085	c.641G>T	c.(640-642)CGA>CTA	p.R214L	SLITRK3_uc003fek.2_Missense_Mutation_p.R214L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	214	Extracellular (Potential).|LRR 6.					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						TAGCATTCCTCGGTAAAAAAG	0.418										HNSCC(40;0.11)			8	95	---	---	---	---	PASS	A	164907978	A	A	164907978	3	1	178	1	0	0	0	0	1	0	0	0	14744	884	31	2	2296	2	SLITRK3	3	164907978	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4766647	164907978	33114452	252	63205										
WDR49	151790	broad.mit.edu	37	chr3	167272570	167272570	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttagtgtatggtgacaatatCcattgaagtcccatatcttt	7	7	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:167272570C>A	uc003fev.1	-	6	974	c.668G>T	c.(667-669)GGA>GTA	p.G223V	WDR49_uc003feu.1_Missense_Mutation_p.G48V|WDR49_uc011bpd.1_Missense_Mutation_p.G276V|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	223	WD 4.									large_intestine(1)|ovary(1)|skin(1)	3						GTGACAATATCCATTGAAGTC	0.353													23	118	---	---	---	---	PASS	A	167272570	A	A	167272570	3	1	178	1	0	0	0	0	1	0	0	0	17299	855	30	2	1465	2	WDR49	3	167272570	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2364592	167272570	30749860	253	63206										
PDCD10	11235	broad.mit.edu	37	chr3	167413456	167413456	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgagaatttgtttaagtgctCgtgccttttcgtttaggtct	10	6	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:167413456C>A	uc003fex.2	-	6	721	c.323G>T	c.(322-324)CGA>CTA	p.R108L	PDCD10_uc003fez.2_Missense_Mutation_p.R108L|PDCD10_uc003fey.2_Missense_Mutation_p.R108L	NM_007217	NP_009148	Q9BUL8	PDC10_HUMAN	programmed cell death 10	108					angiogenesis|apoptosis|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of MAP kinase activity	cytosol|Golgi membrane|plasma membrane	protein homodimerization activity|protein N-terminus binding			lung(1)|central_nervous_system(1)	2						TTTAAGTGCTCGTGCCTTTTC	0.368									Familial_Cerebral_Cavernous_Angioma				8	201	---	---	---	---	PASS	A	167413456	A	A	167413456	3	1	178	1	0	0	0	0	1	0	0	0	11616	884	31	2	331	2	PDCD10	3	167413456	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	140886	167413456	30608974	254	63207										
GOLIM4	27333	broad.mit.edu	37	chr3	167747050	167747050	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tccctggtcctctgctccctGaacgatatcattatccatag	6	14	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:167747050G>A	uc003ffe.2	-	11	1818	c.1474C>T	c.(1474-1476)CAG>TAG	p.Q492*	GOLIM4_uc011bpe.1_Nonsense_Mutation_p.Q492*|GOLIM4_uc011bpf.1_Nonsense_Mutation_p.Q464*|GOLIM4_uc011bpg.1_Nonsense_Mutation_p.Q464*	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	492	Glu-rich.|Gln-rich.|Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						TCTGCTCCCTGAACGATATCA	0.393													21	114	---	---	---	---	PASS	A	167747050	A	A	167747050	4	1	178	1	0	0	0	0	0	1	0	0	6566	1299	45	2	640	2	GOLIM4	3	167747050	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	333594	167747050	30275380	255	63208										
ARPM1	84517	broad.mit.edu	37	chr3	169485571	169485571	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgacacggagagaagagggcCtctggacaagaaaagagctg	15	7	1	5			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:169485571C>A	uc003ffs.1	-	2	1143	c.768G>T	c.(766-768)GAG>GAT	p.E256D	TERC_uc003ffr.1_5'Flank	NM_032487	NP_115876	Q9BYD9	ARPM1_HUMAN	actin related protein M1	256						cytoplasm|cytoskeleton					0	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;5.01e-59)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			AGAAGAGGGCCTCTGGACAAG	0.468													7	107	---	---	---	---	PASS	A	169485571	A	A	169485571	3	1	178	1	0	0	0	0	1	0	0	0	976	680	24	3	354	3	ARPM1	3	169485571	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1738521	169485571	28536859	256	63209										
SLC7A14	57709	broad.mit.edu	37	chr3	170198327	170198327	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtcagaaccaaagatgatgaAggagcagaagatgaacatga	12	5	1	8			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:170198327A>T	uc003fgz.2	-	7	2060	c.1744T>A	c.(1744-1746)TTC>ATC	p.F582I	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	582	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			AAGATGATGAAGGAGCAGAAG	0.552													7	31	---	---	---	---	PASS	T	170198327	T	T	170198327	3	4	178	1	0	0	0	0	1	0	0	0	14696	72	3	5	579	5	SLC7A14	3	170198327	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	712756	170198327	27824103	257	63210										
TNIK	23043	broad.mit.edu	37	chr3	170819284	170819284	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cactgtcccatcatgggtctCgctctctccatcttcctcct	5	18	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:170819284C>A	uc003fhh.2	-	22	2890	c.2545G>T	c.(2545-2547)GAG>TAG	p.E849*	TNIK_uc003fhi.2_Nonsense_Mutation_p.E794*|TNIK_uc003fhj.2_Nonsense_Mutation_p.E820*|TNIK_uc003fhk.2_Nonsense_Mutation_p.E841*|TNIK_uc003fhl.2_Nonsense_Mutation_p.E765*|TNIK_uc003fhm.2_Nonsense_Mutation_p.E786*|TNIK_uc003fhn.2_Nonsense_Mutation_p.E812*|TNIK_uc003fho.2_Nonsense_Mutation_p.E757*|TNIK_uc003fhg.2_Nonsense_Mutation_p.E27*	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	849	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			TCATGGGTCTCGCTCTCTCCA	0.483													7	268	---	---	---	---	PASS	A	170819284	A	A	170819284	4	1	178	1	0	0	0	0	0	1	0	0	16310	893	31	2	1585	2	TNIK	3	170819284	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	620957	170819284	27203146	258	63211										
FNDC3B	64778	broad.mit.edu	37	chr3	171851309	171851309	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agactttcacaataagagcaGaggatggaacacttcagtgc	10	8	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:171851309G>T	uc003fhy.2	+	3	332	c.160G>T	c.(160-162)GAG>TAG	p.E54*	FNDC3B_uc003fhz.3_Nonsense_Mutation_p.E54*|FNDC3B_uc003fia.2_5'UTR|FNDC3B_uc003fhx.2_RNA	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	54						endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		AATAAGAGCAGAGGATGGAAC	0.338													7	101	---	---	---	---	PASS	T	171851309	T	T	171851309	4	4	178	1	0	0	0	0	0	1	0	0	5970	943	33	2	166	2	FNDC3B	3	171851309	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1032025	171851309	26171121	259	63212										
SPATA16	83893	broad.mit.edu	37	chr3	172835271	172835271	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttcttcaccttctgccttcCgtttaaaggctgctttctct	5	13	4	0	rs143065627		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:172835271C>G	uc003fin.3	-	2	409	c.251G>C	c.(250-252)CGG>CCG	p.R84P		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	84					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			TTCTGCCTTCCGTTTAAAGGC	0.393													35	248	---	---	---	---	PASS	G	172835271	G	G	172835271	3	3	178	1	0	0	0	0	1	0	0	0	15000	652	23	4	1498	4	SPATA16	3	172835271	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	983962	172835271	25187159	260	63213										
ZNF639	51193	broad.mit.edu	37	chr3	179051459	179051459	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tactgattcaaatgtgtgtcGagtatgcaaggaaagtttct	10	5	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:179051459G>T	uc003fjq.1	+	6	1050	c.707G>T	c.(706-708)CGA>CTA	p.R236L	ZNF639_uc003fjr.1_Missense_Mutation_p.R236L	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	236	C2H2-type 2.				initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			AATGTGTGTCGAGTATGCAAG	0.348													6	78	---	---	---	---	PASS	T	179051459	T	T	179051459	3	4	178	1	0	0	0	0	1	0	0	0	18053	1058	37	2	721	2	ZNF639	3	179051459	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6216188	179051459	18970971	261	63214										
USP13	8975	broad.mit.edu	37	chr3	179426590	179426590	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtgtgccagatgcgacctgcGagaaaacctctggttgaatc	12	10	1	3	rs61760204		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:179426590G>T	uc003fkh.2	+	6	731	c.650G>T	c.(649-651)CGA>CTA	p.R217L	USP13_uc003fkf.2_Missense_Mutation_p.R217L	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	217	UBP-type.				ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			TGCGACCTGCGAGAAAACCTC	0.493													7	159	---	---	---	---	PASS	T	179426590	T	T	179426590	3	4	178	1	0	0	0	0	1	0	0	0	17041	1058	37	2	672	2	USP13	3	179426590	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	375131	179426590	18595840	262	63215										
CCDC39	339829	broad.mit.edu	37	chr3	180359867	180359867	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atttcttcagttcgctcttcCattgctgtgtataattgctg	7	9	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:180359867C>A	uc010hxe.2	-	13	1903	c.1788G>T	c.(1786-1788)ATG>ATT	p.M596I	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	596	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TTCGCTCTTCCATTGCTGTGT	0.343													8	176	---	---	---	---	PASS	A	180359867	A	A	180359867	3	1	178	1	0	0	0	0	1	0	0	0	2811	594	21	3	1069	3	CCDC39	3	180359867	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	933277	180359867	17662563	263	63216										
FXR1	8087	broad.mit.edu	37	chr3	180671624	180671624	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attcaggttcctaggaatctCgttggtaggtacttttacta	9	7	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:180671624C>A	uc003fkq.2	+	9	898	c.876C>A	c.(874-876)CTC>CTA	p.L292L	FXR1_uc003fkp.2_Silent_p.L207L|FXR1_uc003fkr.2_Silent_p.L292L|FXR1_uc011bqj.1_Silent_p.L206L|FXR1_uc003fks.2_Silent_p.L206L|FXR1_uc011bqk.1_Silent_p.L243L|FXR1_uc011bql.1_Silent_p.L279L	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	292	KH 2.				apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			CTAGGAATCTCGTTGGTAGGT	0.323													7	155	---	---	---	---	PASS	A	180671624	A	A	180671624	2	1	178	1	0	0	0	0	0	0	0	1	6115	871	31	2		2	FXR1	3	180671624	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	311757	180671624	17350806	264	63217										
ATP11B	23200	broad.mit.edu	37	chr3	182553854	182553854	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttggttacggcataactcagAtaatgaagtaaatggagctc	10	6	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:182553854A>G	uc003flb.2	+	5	604	c.347A>G	c.(346-348)GAT>GGT	p.D116G	ATP11B_uc003fla.2_Missense_Mutation_p.D116G	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	116	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			CATAACTCAGATAATGAAGTA	0.313													14	88	---	---	---	---	PASS	G	182553854	G	G	182553854	3	3	178	1	0	0	0	0	1	0	0	0	1120	333	12	5	365	5	ATP11B	3	182553854	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	1882230	182553854	15468576	265	63218										
DCUN1D1	54165	broad.mit.edu	37	chr3	182679086	182679086	+	Nonsense_Mutation	SNP	C	A	A													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atccttaaatcgtcctggttCtttcaattcttgttccatct							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:182679086C>A	uc003fld.1	-	4	497	c.448G>T	c.(448-450)GAA>TAA	p.E150*	DCUN1D1_uc011bqn.1_Nonsense_Mutation_p.E7*	NM_020640	NP_065691	Q96GG9	DCNL1_HUMAN	RP42 homolog	150	DCUN1.					ubiquitin ligase complex	protein binding			ovary(1)	1	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;2.54e-44)|Epithelial(37;4.71e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			CGTCCTGGTTCTTTCAATTCT	0.308													13	498	---	---	---	---	PASS	A	182679086	A	A	182679086	4	1	178	1	0	0	0	0	0	1	0	0	4313	922	32	2	347	2	DCUN1D1	3	182679086	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	125232	182679086	15343344	266	63219	1083	2								
DCUN1D1	54165	broad.mit.edu	37	chr3	182679095	182679095	+	Nonsense_Mutation	SNP	C	A	A													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcgtcctggttctttcaattCttgttccatcttgggtatct							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:182679095C>A	uc003fld.1	-	4	488	c.439G>T	c.(439-441)GAA>TAA	p.E147*	DCUN1D1_uc011bqn.1_Nonsense_Mutation_p.E4*	NM_020640	NP_065691	Q96GG9	DCNL1_HUMAN	RP42 homolog	147	DCUN1.					ubiquitin ligase complex	protein binding			ovary(1)	1	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;2.54e-44)|Epithelial(37;4.71e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			TCTTTCAATTCTTGTTCCATC	0.299													13	529	---	---	---	---	PASS	A	182679095	A	A	182679095	4	1	178	1	0	0	0	0	0	1	0	0	4313	922	32	2	356	2	DCUN1D1	3	182679095	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	9	182679095	15343335	267	63220	1083	2								
MCCC1	56922	broad.mit.edu	37	chr3	182733349	182733349	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccatcctttggagactttatGgtatgctgcagagacacatg	10	9	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:182733349G>T	uc003fle.2	-	19	2192	c.2055C>A	c.(2053-2055)ACC>ACA	p.T685T	MCCC1_uc010hxi.2_RNA|MCCC1_uc011bqo.1_RNA|MCCC1_uc003flf.2_Silent_p.T568T|MCCC1_uc003flg.2_Silent_p.T576T	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	685	Biotinyl-binding.				biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	GAGACTTTATGGTATGCTGCA	0.428													10	233	---	---	---	---	PASS	T	182733349	T	T	182733349	2	4	178	1	0	0	0	0	0	0	0	1	9374	1335	47	3		3	MCCC1	3	182733349	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	54254	182733349	15289081	268	63221										
MCF2L2	23101	broad.mit.edu	37	chr3	183041131	183041131	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggtcagagacagagtttacCatgatgatctgtaaggtaaa	11	5	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:183041131C>A	uc003fli.1	-	6	585	c.495G>T	c.(493-495)ATG>ATT	p.M165I	MCF2L2_uc003flj.1_Missense_Mutation_p.M165I|MCF2L2_uc003flp.1_Missense_Mutation_p.M200I	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	165	CRAL-TRIO.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			CAGAGTTTACCATGATGATCT	0.358													8	136	---	---	---	---	PASS	A	183041131	A	A	183041131	3	1	178	1	0	0	0	0	1	0	0	0	9380	594	21	3	2949	3	MCF2L2	3	183041131	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	307782	183041131	14981299	269	63222										
CLCN2	1181	broad.mit.edu	37	chr3	184075157	184075157	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgggtgcccccaccttcatcCcggttccagactgccaagac	9	17	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:184075157C>A	uc003foi.2	-	8	1015	c.891G>T	c.(889-891)CGG>CGT	p.R297R	CLCN2_uc003foh.2_5'Flank|CLCN2_uc010hya.1_Silent_p.R297R|CLCN2_uc011brl.1_Silent_p.R297R|CLCN2_uc011brm.1_Silent_p.R253R|CLCN2_uc011brn.1_Silent_p.R297R	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	297						chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	CACCTTCATCCCGGTTCCAGA	0.627													6	43	---	---	---	---	PASS	A	184075157	A	A	184075157	2	1	178	1	0	0	0	0	0	0	0	1	3463	610	22	3		3	CLCN2	3	184075157	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1034026	184075157	13947273	270	63223										
LIPH	200879	broad.mit.edu	37	chr3	185245287	185245287	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttaccatcagtgtcggaatGgatgacatcaacaaactgcg	10	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:185245287G>T	uc003fpm.2	-	4	723	c.613C>A	c.(613-615)CAT>AAT	p.H205N	LIPH_uc010hyh.2_Intron	NM_139248	NP_640341	Q8WWY8	LIPH_HUMAN	lipase, member H precursor	205			Missing (in LAH2).		lipid catabolic process	extracellular space|plasma membrane	heparin binding|phospholipase activity			ovary(1)|pancreas(1)	2	all_cancers(143;8.87e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			GTGTCGGAATGGATGACATCA	0.517													7	118	---	---	---	---	PASS	T	185245287	T	T	185245287	3	4	178	1	0	0	0	0	1	0	0	0	8824	1348	47	3	770	3	LIPH	3	185245287	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1170130	185245287	12777143	271	63224										
EIF4A2	1974	broad.mit.edu	37	chr3	186504960	186504960	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacttgtacgagacactgacCattacacaggctgttatttt	8	9	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:186504960C>A	uc003fqs.2	+	8	855	c.816C>A	c.(814-816)ACC>ACA	p.T272T	EIF4A2_uc003fqt.2_RNA|EIF4A2_uc003fqu.2_Silent_p.T273T|EIF4A2_uc003fqv.2_Silent_p.T177T|EIF4A2_uc003fqw.2_Silent_p.T177T|EIF4A2_uc011bsb.1_Silent_p.T145T|SNORA63_uc010hyw.1_5'Flank|SNORA4_uc010hyx.1_5'Flank	NM_001967	NP_001958	Q14240	IF4A2_HUMAN	eukaryotic translation initiation factor 4A2	272	Helicase C-terminal.				interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|protein binding|translation initiation factor activity			ovary(2)|breast(2)	4	all_cancers(143;2.68e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.07e-20)	GBM - Glioblastoma multiforme(93;0.0704)		AGACACTGACCATTACACAGG	0.413			T	BCL6	NHL								8	169	---	---	---	---	PASS	A	186504960	A	A	186504960	2	1	178	1	0	0	0	0	0	0	0	1	5025	581	21	3		3	EIF4A2	3	186504960	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1259673	186504960	11517470	272	63225										
RTP1	132112	broad.mit.edu	37	chr3	186917839	186917839	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gatcatctacctgcagttctCtttccgtagctccgtataag	7	12	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:186917839C>A	uc003frg.2	+	2	803	c.773C>A	c.(772-774)TCT>TAT	p.S258Y		NM_153708	NP_714919	P59025	RTP1_HUMAN	receptor transporting protein 1	258	Helical; (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding			ovary(2)|breast(1)	3	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		CTGCAGTTCTCTTTCCGTAGC	0.562													12	73	---	---	---	---	PASS	A	186917839	A	A	186917839	3	1	178	1	0	0	0	0	1	0	0	0	13733	913	32	2	779	2	RTP1	3	186917839	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	412879	186917839	11104591	273	63226										
MASP1	5648	broad.mit.edu	37	chr3	186959294	186959294	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggcaggtgggtaggcttctCcccaatactttattcatcca	9	11	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:186959294C>A	uc003frh.1	-	10	1610	c.1278G>T	c.(1276-1278)GGG>GGT	p.G426G	MASP1_uc003fri.2_Silent_p.G426G|MASP1_uc003frj.2_Silent_p.G395G	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	426	Sushi 2.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		GTAGGCTTCTCCCCAATACTT	0.478													7	125	---	---	---	---	PASS	A	186959294	A	A	186959294	2	1	178	1	0	0	0	0	0	0	0	1	9322	842	30	2		2	MASP1	3	186959294	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	41455	186959294	11063136	274	63227										
CLDN16	10686	broad.mit.edu	37	chr3	190127775	190127775	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccatggccaagtcatactcaGcccctcgcacagagacggcc	9	17	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:190127775G>T	uc003fsi.2	+	5	936	c.868G>T	c.(868-870)GCC>TCC	p.A290S	CLDN16_uc010hze.2_3'UTR	NM_006580	NP_006571	Q9Y5I7	CLD16_HUMAN	claudin 16	290	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|cellular metal ion homeostasis|excretion	integral to membrane|tight junction	identical protein binding|magnesium ion transmembrane transporter activity|structural molecule activity			ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.018)		GTCATACTCAGCCCCTCGCAC	0.438													6	83	---	---	---	---	PASS	T	190127775	T	T	190127775	3	4	178	1	0	0	0	0	1	0	0	0	3477	971	34	3	886	3	CLDN16	3	190127775	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3168481	190127775	7894655	275	63228										
FGF12	2257	broad.mit.edu	37	chr3	191888391	191888391	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagtgtggaagaatagatcaCatagtagttttcaaacacag	9	6	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:191888391C>A	uc003fsx.2	-	4	1295	c.469G>T	c.(469-471)GTG>TTG	p.V157L	FGF12_uc003fsy.2_Missense_Mutation_p.V95L	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	157					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		GAATAGATCACATAGTAGTTT	0.368													8	259	---	---	---	---	PASS	A	191888391	A	A	191888391	3	1	178	1	0	0	0	0	1	0	0	0	5841	478	17	3	270	3	FGF12	3	191888391	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1760616	191888391	6134039	276	63229										
OPA1	4976	broad.mit.edu	37	chr3	193349413	193349413	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acatttaggtgtcagacaaaGagaaaattgaccaacttcag	8	7	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:193349413G>T	uc003ftm.2	+	6	871	c.637G>T	c.(637-639)GAG>TAG	p.E213*	OPA1_uc003ftg.2_Nonsense_Mutation_p.E268*|OPA1_uc003fth.2_Nonsense_Mutation_p.E232*|OPA1_uc003fti.2_Nonsense_Mutation_p.E250*|OPA1_uc003ftj.2_Nonsense_Mutation_p.E231*|OPA1_uc003ftk.2_Nonsense_Mutation_p.E214*|OPA1_uc003ftl.2_Nonsense_Mutation_p.E195*|OPA1_uc003ftn.2_Nonsense_Mutation_p.E177*	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1	213	Mitochondrial intermembrane (By similarity).|Potential.				apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		GTCAGACAAAGAGAAAATTGA	0.284													10	290	---	---	---	---	PASS	T	193349413	T	T	193349413	4	4	178	1	0	0	0	0	0	1	0	0	10871	943	33	2	832	2	OPA1	3	193349413	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1461022	193349413	4673017	277	63230										
LSG1	55341	broad.mit.edu	37	chr3	194366966	194366966	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	catgcgctgtcatgaatcctCgcatgtctgtggagagaaaa	11	9	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:194366966C>A	uc003fui.2	-	12	1865	c.1550G>T	c.(1549-1551)CGA>CTA	p.R517L		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	517					nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		CATGAATCCTCGCATGTCTGT	0.448													5	118	---	---	---	---	PASS	A	194366966	A	A	194366966	3	1	178	1	0	0	0	0	1	0	0	0	9049	884	31	2	438	2	LSG1	3	194366966	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1017553	194366966	3655464	278	63231										
TFRC	7037	broad.mit.edu	37	chr3	195780393	195780393	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agcacggaagaagtctccacGagcagaatacagccactgta	10	11	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:195780393G>T	uc003fvz.3	-	18	2219	c.1936C>A	c.(1936-1938)CGT>AGT	p.R646S	TFRC_uc003fwa.3_Missense_Mutation_p.R646S|TFRC_uc010hzy.2_Missense_Mutation_p.R565S|TFRC_uc011btr.1_Missense_Mutation_p.R364S	NM_003234	NP_003225	P02786	TFR1_HUMAN	transferrin receptor	646	Cell attachment site; required for binding to transferrin.|Extracellular (Potential).|Ligand-binding.			R->A,H: No binding to transferrin.|R->K: 5% binding to transferrin.	cellular iron ion homeostasis|endocytosis|interspecies interaction between organisms|proteolysis|transferrin transport|transmembrane transport	coated pit|endosome|integral to plasma membrane|melanosome	peptidase activity|transferrin receptor activity			ovary(3)	3	all_cancers(143;1.94e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.36e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.17e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00233)		AAGTCTCCACGAGCAGAATAC	0.403			T	BCL6	NHL								5	110	---	---	---	---	PASS	T	195780393	T	T	195780393	3	4	178	1	0	0	0	0	1	0	0	0	15809	1058	37	2	354	2	TFRC	3	195780393	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1413427	195780393	2242037	279	63232										
UBXN7	26043	broad.mit.edu	37	chr3	196129834	196129834	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgaacttaccaccaaataatGgttctggttccaccagtatt	6	10	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:196129834G>T	uc003fwm.3	-	3	353	c.278C>A	c.(277-279)CCA>CAA	p.P93Q	UBXN7_uc003fwn.3_5'UTR|UBXN7_uc010iae.2_Intron|UBXN7_uc010iaf.2_Missense_Mutation_p.P93Q	NM_015562	NP_056377	O94888	UBXN7_HUMAN	UBX domain containing 7	93							protein binding			ovary(2)|pancreas(1)	3						ACCAAATAATGGTTCTGGTTC	0.338													12	320	---	---	---	---	PASS	T	196129834	T	T	196129834	3	4	178	1	0	0	0	0	1	0	0	0	16915	1348	47	3	1227	3	UBXN7	3	196129834	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	349441	196129834	1892596	280	63233										
DLG1	1739	broad.mit.edu	37	chr3	196867071	196867071	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttttggtaatgaaaatacttGagtcatctccaatgtgtggg	10	5	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr3:196867071G>T	uc003fxo.3	-	9	942	c.752C>A	c.(751-753)TCA>TAA	p.S251*	DLG1_uc011bub.1_Nonsense_Mutation_p.S135*|DLG1_uc011buc.1_Nonsense_Mutation_p.S135*|DLG1_uc011bud.1_5'UTR|DLG1_uc003fxn.3_Nonsense_Mutation_p.S251*|DLG1_uc011bue.1_Nonsense_Mutation_p.S218*|DLG1_uc010ial.2_Nonsense_Mutation_p.S251*|DLG1_uc011buf.1_RNA|DLG1_uc003fxp.2_RNA|DLG1_uc010iam.1_Nonsense_Mutation_p.S218*|DLG1_uc010ian.2_Nonsense_Mutation_p.S118*	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	251	PDZ 1.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		GAAAATACTTGAGTCATCTCC	0.423													7	108	---	---	---	---	PASS	T	196867071	T	T	196867071	4	4	178	1	0	0	0	0	0	1	0	0	4554	1294	45	2	2138	2	DLG1	3	196867071	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	737237	196867071	1155359	281	63234										
ZNF721	170960	broad.mit.edu	37	chr4	438027	438027	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acattgaaatattttgctctGagtatttgacaagcatttat	6	5	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:438027G>T	uc003gag.2	-	3	920	c.229C>A	c.(229-231)CAG>AAG	p.Q77K	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.Q109K|ZNF721_uc010ibe.2_Missense_Mutation_p.Q65K	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	77						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						ATTTTGCTCTGAGTATTTGAC	0.303													6	77	---	---	---	---	PASS	T	438027	T	T	438027	3	4	178	1	0	0	0	0	1	0	0	0	18119	1299	45	2	2546	2	ZNF721	4	438027	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08		438027	190716249	282	63235										
HTT	3064	broad.mit.edu	37	chr4	3189401	3189401	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tccgtgagcactgttcaactGtggatatcgggaattctggc	12	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:3189401G>T	uc011bvq.1	+	40	5164	c.5019G>T	c.(5017-5019)CTG>CTT	p.L1673L		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1671					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		CTGTTCAACTGTGGATATCGG	0.398													7	150	---	---	---	---	PASS	T	3189401	T	T	3189401	2	4	178	1	0	0	0	0	0	0	0	1	7457	1364	48	3		3	HTT	4	3189401	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2751374	3189401	187964875	283	63236										
CRMP1	1400	broad.mit.edu	37	chr4	5837709	5837709	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agatgaccacgtcggcatccGagcccacggcaatccgccct	10	17	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:5837709G>T	uc003gip.2	-	12	1315	c.1214C>A	c.(1213-1215)TCG>TAG	p.S405*	CRMP1_uc003gin.1_Nonsense_Mutation_p.S317*|CRMP1_uc003giq.2_Nonsense_Mutation_p.S405*|CRMP1_uc003gir.2_Nonsense_Mutation_p.S400*|CRMP1_uc003gis.2_Nonsense_Mutation_p.S519*	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	405					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		GTCGGCATCCGAGCCCACGGC	0.517													6	56	---	---	---	---	PASS	T	5837709	T	T	5837709	4	4	178	1	0	0	0	0	0	1	0	0	3890	1059	37	2	520	2	CRMP1	4	5837709	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2648308	5837709	185316567	284	63237										
GPR125	166647	broad.mit.edu	37	chr4	22422582	22422582	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcttatccaggtttccctctGgatcccgcctcccataatcc	6	17	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:22422582G>T	uc003gqm.1	-	12	2001	c.1736C>A	c.(1735-1737)CCA>CAA	p.P579Q	GPR125_uc010ieo.1_Missense_Mutation_p.P453Q|GPR125_uc003gqn.1_Missense_Mutation_p.P353Q|GPR125_uc003gqo.2_Missense_Mutation_p.P579Q	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	579	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				GTTTCCCTCTGGATCCCGCCT	0.463													9	222	---	---	---	---	PASS	T	22422582	T	T	22422582	3	4	178	1	0	0	0	0	1	0	0	0	6639	1348	47	3	2261	3	GPR125	4	22422582	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	16584873	22422582	168731694	285	63238										
SEL1L3	23231	broad.mit.edu	37	chr4	25783963	25783963	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atttcttctgcttttaaccaGtactttgctgctttggcgta	7	9	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:25783963G>T	uc003gru.3	-	15	2510	c.2358C>A	c.(2356-2358)TAC>TAA	p.Y786*	SEL1L3_uc003grv.2_Nonsense_Mutation_p.Y193*	NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	786	Sel1-like 5.					integral to membrane	binding				0						CTTTTAACCAGTACTTTGCTG	0.438													5	52	---	---	---	---	PASS	T	25783963	T	T	25783963	4	4	178	1	0	0	0	0	0	1	0	0	14012	1024	36	3	1080	3	SEL1L3	4	25783963	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3361381	25783963	165370313	286	63239										
ARAP2	116984	broad.mit.edu	37	chr4	36214902	36214902	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tctggaagagaaaggtctctCcataaggaaagatggaagat	12	5	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:36214902C>A	uc003gsq.1	-	4	1342	c.1004G>T	c.(1003-1005)GGA>GTA	p.G335V	ARAP2_uc003gsr.1_Missense_Mutation_p.G335V	NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	335					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						AAAGGTCTCTCCATAAGGAAA	0.328													6	95	---	---	---	---	PASS	A	36214902	A	A	36214902	3	1	178	1	0	0	0	0	1	0	0	0	839	855	30	2	4230	2	ARAP2	4	36214902	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	10430939	36214902	154939374	287	63240										
TBC1D1	23216	broad.mit.edu	37	chr4	38097700	38097700	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	catggaaaaaatgcactcggCtgttgggcaaggtaagcttc	12	8	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:38097700C>A	uc003gtb.2	+	14	2730	c.2387C>A	c.(2386-2388)GCT>GAT	p.A796D	TBC1D1_uc011byd.1_Missense_Mutation_p.A890D|TBC1D1_uc010ifd.2_Missense_Mutation_p.A583D	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	796						nucleus	Rab GTPase activator activity			ovary(1)	1						ATGCACTCGGCTGTTGGGCAA	0.403													5	86	---	---	---	---	PASS	A	38097700	A	A	38097700	3	1	178	1	0	0	0	0	1	0	0	0	15594	797	28	3	2437	3	TBC1D1	4	38097700	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1882798	38097700	153056576	288	63241										
TLR10	81793	broad.mit.edu	37	chr4	38776168	38776168	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaatttaaatattggaatttCgtaggataattcgggaaaag	9	2	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:38776168C>A	uc003gti.2	-	2	1423	c.1044G>T	c.(1042-1044)ACG>ACT	p.T348T	TLR10_uc003gtj.2_Silent_p.T348T|TLR10_uc003gtk.2_Silent_p.T348T	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	348	LRR 8.|Extracellular (Potential).				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						ATTGGAATTTCGTAGGATAAT	0.328													5	101	---	---	---	---	PASS	A	38776168	A	A	38776168	2	1	178	1	0	0	0	0	0	0	0	1	15947	871	31	2		2	TLR10	4	38776168	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	678468	38776168	152378108	289	63242										
N4BP2	55728	broad.mit.edu	37	chr4	40123254	40123254	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctttagagaattctaattctCctgtgccagagtttagccat	7	9	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:40123254C>A	uc003guy.3	+	9	3861	c.3523C>A	c.(3523-3525)CCT>ACT	p.P1175T	N4BP2_uc010ifq.2_Missense_Mutation_p.P1095T|N4BP2_uc010ifr.2_Missense_Mutation_p.P1095T	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	1175						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						TTCTAATTCTCCTGTGCCAGA	0.418													8	70	---	---	---	---	PASS	A	40123254	A	A	40123254	3	1	178	1	0	0	0	0	1	0	0	0	10110	855	30	2	3549	2	N4BP2	4	40123254	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1347086	40123254	151031022	290	63243										
LIMCH1	22998	broad.mit.edu	37	chr4	41699182	41699182	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgttttaatcacaggtgccGggcagcctacaacattgtga	10	9	1	1	rs142431467		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:41699182G>C	uc003gvu.3	+	27	3286	c.3232G>C	c.(3232-3234)GGG>CGG	p.G1078R	LIMCH1_uc003gvv.3_Missense_Mutation_p.G1052R|LIMCH1_uc003gvw.3_Missense_Mutation_p.G1051R|LIMCH1_uc003gvx.3_Missense_Mutation_p.G1064R|LIMCH1_uc003gwe.3_Missense_Mutation_p.G975R|LIMCH1_uc003gvy.3_Missense_Mutation_p.G880R|LIMCH1_uc003gwa.3_Missense_Mutation_p.G892R|LIMCH1_uc003gvz.3_Missense_Mutation_p.G1462R|LIMCH1_uc011byu.1_Missense_Mutation_p.G911R|LIMCH1_uc003gwc.3_Missense_Mutation_p.G897R|LIMCH1_uc003gwd.3_Missense_Mutation_p.G885R|LIMCH1_uc011byv.1_Missense_Mutation_p.G828R|LIMCH1_uc011byw.1_Missense_Mutation_p.G351R|LIMCH1_uc010ifv.2_RNA	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	1078					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						CACAGGTGCCGGGCAGCCTAC	0.453													4	77	---	---	---	---	PASS	C	41699182	C	C	41699182	3	2	178	1	0	0	0	0	1	0	0	0	8797	1116	39	4	3366	4	LIMCH1	4	41699182	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1575928	41699182	149455094	291	63244										
ATP8A1	10396	broad.mit.edu	37	chr4	42553231	42553231	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttactgaatctataatcaccGagtcgggtgttcttccagtg	9	9	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:42553231G>T	uc003gwr.2	-	18	1818	c.1586C>A	c.(1585-1587)TCG>TAG	p.S529*	ATP8A1_uc003gws.2_Nonsense_Mutation_p.S514*|ATP8A1_uc011byz.1_Nonsense_Mutation_p.S514*	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	529	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	TATAATCACCGAGTCGGGTGT	0.353													5	120	---	---	---	---	PASS	T	42553231	T	T	42553231	4	4	178	1	0	0	0	0	0	1	0	0	1192	1059	37	2	1988	2	ATP8A1	4	42553231	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	854049	42553231	148601045	292	63245										
ATP8A1	10396	broad.mit.edu	37	chr4	42580325	42580325	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttcacaacttctaatgtaacCaataagctgataggaatgag	7	7	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:42580325C>A	uc003gwr.2	-	12	1312	c.1080G>T	c.(1078-1080)TTG>TTT	p.L360F	ATP8A1_uc003gws.2_Missense_Mutation_p.L360F|ATP8A1_uc011byz.1_Missense_Mutation_p.L360F	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	360	Helical; (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	CTAATGTAACCAATAAGCTGA	0.358													6	62	---	---	---	---	PASS	A	42580325	A	A	42580325	3	1	178	1	0	0	0	0	1	0	0	0	1192	593	21	3	2518	3	ATP8A1	4	42580325	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	27094	42580325	148573951	293	63246										
CORIN	10699	broad.mit.edu	37	chr4	47647201	47647201	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggacattcccaaagatctctCtctttacaacctagagacag	6	12	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:47647201C>A	uc003gxm.2	-	14	1947	c.1854G>T	c.(1852-1854)GAG>GAT	p.E618D	CORIN_uc011bzf.1_Missense_Mutation_p.E479D|CORIN_uc011bzg.1_Missense_Mutation_p.E551D|CORIN_uc011bzh.1_Missense_Mutation_p.E581D	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	618	Extracellular (Potential).|LDL-receptor class A 6.				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						AAAGATCTCTCTCTTTACAAC	0.368													6	51	---	---	---	---	PASS	A	47647201	A	A	47647201	3	1	178	1	0	0	0	0	1	0	0	0	3752	912	32	2	1310	2	CORIN	4	47647201	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5066876	47647201	143507075	294	63247										
CORIN	10699	broad.mit.edu	37	chr4	47667239	47667239	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ataacttgtactgttgtaggGcaaattcatgcagagttcca	9	7	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:47667239G>T	uc003gxm.2	-	11	1492	c.1399C>A	c.(1399-1401)CCC>ACC	p.P467T	CORIN_uc011bzf.1_Missense_Mutation_p.P328T|CORIN_uc011bzg.1_Missense_Mutation_p.P400T|CORIN_uc011bzh.1_Missense_Mutation_p.P430T|CORIN_uc011bzi.1_Missense_Mutation_p.P430T	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	467	Extracellular (Potential).|FZ 2.				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	p.P467R(1)		ovary(1)|central_nervous_system(1)	2						CTGTTGTAGGGCAAATTCATG	0.353													13	62	---	---	---	---	PASS	T	47667239	T	T	47667239	3	4	178	1	0	0	0	0	1	0	0	0	3752	1203	42	3	1777	3	CORIN	4	47667239	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	20038	47667239	143487037	295	63248										
LRRC66	339977	broad.mit.edu	37	chr4	52861072	52861072	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agtgaacagagacccctcatCagagtcacagtcactctcca	7	14	5	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:52861072C>G	uc003gzi.2	-	4	2129	c.2116G>C	c.(2116-2118)GAT>CAT	p.D706H		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	706						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						GACCCCTCATCAGAGTCACAG	0.527													6	51	---	---	---	---	PASS	G	52861072	G	G	52861072	3	3	178	1	0	0	0	0	1	0	0	0	9018	826	29	2	530	2	LRRC66	4	52861072	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5193833	52861072	138293204	296	63249										
SPATA18	132671	broad.mit.edu	37	chr4	52948573	52948573	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ataccgccgcagctacgactCggatttcactgctcccttag	8	15	1	0	rs146699723		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:52948573C>A	uc003gzl.2	+	10	1654	c.1376C>A	c.(1375-1377)TCG>TAG	p.S459*	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Nonsense_Mutation_p.S427*|SPATA18_uc003gzk.1_Nonsense_Mutation_p.S459*	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	459					mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			AGCTACGACTCGGATTTCACT	0.448													7	114	---	---	---	---	PASS	A	52948573	A	A	52948573	4	1	178	1	0	0	0	0	0	1	0	0	15002	893	31	2	1414	2	SPATA18	4	52948573	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	87501	52948573	138205703	297	63250										
KIT	3815	broad.mit.edu	37	chr4	55594022	55594022	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgctggagctttcgggaaggTtgttgaggcaactgcttatg	15	6	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:55594022T>A	uc010igr.2	+	12	1895	c.1808T>A	c.(1807-1809)GTT>GAT	p.V603D	KIT_uc010igs.2_Missense_Mutation_p.V599D|KIT_uc010igt.1_Missense_Mutation_p.V52D	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	603	ATP (By similarity).|Protein kinase.|Cytoplasmic (Potential).				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TTCGGGAAGGTTGTTGAGGCA	0.493		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				19	58	---	---	---	---	PASS	A	55594022	A	A	55594022	3	1	178	1	0	0	0	0	1	0	0	0	8329	1725	60	5	1854	5	KIT	4	55594022	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	2645449	55594022	135560254	298	63251										
EXOC1	55763	broad.mit.edu	37	chr4	56736987	56736987	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caaagtgtaaaagaacaaatGgatcagatctctgaaagcaa	8	6	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:56736987G>T	uc003hbe.1	+	6	905	c.747G>T	c.(745-747)ATG>ATT	p.M249I	EXOC1_uc003hbf.1_Missense_Mutation_p.M249I|EXOC1_uc003hbg.1_Missense_Mutation_p.M249I	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	249	Potential.				exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					AAGAACAAATGGATCAGATCT	0.358													6	79	---	---	---	---	PASS	T	56736987	T	T	56736987	3	4	178	1	0	0	0	0	1	0	0	0	5301	1348	47	3	765	3	EXOC1	4	56736987	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1142965	56736987	134417289	299	63252										
CEP135	9662	broad.mit.edu	37	chr4	56878050	56878050	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggtcaaagcccatcaagctGagggagaaagcagctcagtt	12	9	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:56878050G>A	uc003hbi.2	+	21	2935	c.2701G>A	c.(2701-2703)GAG>AAG	p.E901K	CEP135_uc003hbj.2_Missense_Mutation_p.E607K	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	901	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					CCATCAAGCTGAGGGAGAAAG	0.398													11	73	---	---	---	---	PASS	A	56878050	A	A	56878050	3	1	178	1	0	0	0	0	1	0	0	0	3247	1291	45	2	2779	2	CEP135	4	56878050	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	141063	56878050	134276226	300	63253										
PPAT	5471	broad.mit.edu	37	chr4	57267592	57267592	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgatataatatcaagagtttGgacattgtgtctggatattt	9	3	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:57267592G>T	uc003hbr.2	-	7	992	c.790C>A	c.(790-792)CAA>AAA	p.Q264K		NM_002703	NP_002694	Q06203	PUR1_HUMAN	phosphoribosyl pyrophosphate amidotransferase	264					glutamine metabolic process|nucleoside metabolic process|purine base biosynthetic process|purine ribonucleoside monophosphate biosynthetic process	cytosol	4 iron, 4 sulfur cluster binding|amidophosphoribosyltransferase activity|metal ion binding				0	Glioma(25;0.08)|all_neural(26;0.101)				L-Glutamine(DB00130)|Thioguanine(DB00352)	TCAAGAGTTTGGACATTGTGT	0.348													12	423	---	---	---	---	PASS	T	57267592	T	T	57267592	3	4	178	1	0	0	0	0	1	0	0	0	12302	1357	47	3	783	3	PPAT	4	57267592	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	389542	57267592	133886684	301	63254										
POLR2B	5431	broad.mit.edu	37	chr4	57887065	57887065	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgctcttaaattcactgcagGcatcaactcaattgtggcca	7	11	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:57887065G>T	uc003hcl.1	+	17	2367	c.2324G>T	c.(2323-2325)GGC>GTC	p.G775V	POLR2B_uc011cae.1_Missense_Mutation_p.G768V|POLR2B_uc011caf.1_Missense_Mutation_p.G700V|POLR2B_uc003hcm.1_Missense_Mutation_p.G268V	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	775					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					TTCACTGCAGGCATCAACTCA	0.368													17	62	---	---	---	---	PASS	T	57887065	T	T	57887065	3	4	178	1	0	0	0	0	1	0	0	0	12215	1217	42	3	2390	3	POLR2B	4	57887065	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	619473	57887065	133267211	302	63255										
TMPRSS11A	339967	broad.mit.edu	37	chr4	68789880	68789880	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aactcccctgttgatgagctCattgctgaaaaagaagataa	8	8	1	5			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:68789880C>A	uc003hdr.1	-	6	616	c.495G>T	c.(493-495)ATG>ATT	p.M165I	LOC550112_uc003hdl.3_Intron|TMPRSS11A_uc003hds.1_Missense_Mutation_p.M162I	NM_182606	NP_872412	Q6ZMR5	TM11A_HUMAN	transmembrane protease, serine 11A isoform 1	165	SEA.|Extracellular (Potential).				cell cycle|proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			skin(1)	1						TTGATGAGCTCATTGCTGAAA	0.328													9	254	---	---	---	---	PASS	A	68789880	A	A	68789880	3	1	178	1	0	0	0	0	1	0	0	0	16236	826	29	2	790	2	TMPRSS11A	4	68789880	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	10902815	68789880	122364396	303	63256										
UGT2B7	7364	broad.mit.edu	37	chr4	69978240	69978240	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	accagtgaagcccctggatcGagcagtcttctggattgaat	11	10	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:69978240G>T	uc003heg.3	+	6	1422	c.1376G>T	c.(1375-1377)CGA>CTA	p.R459L	UGT2B7_uc010ihq.2_3'UTR	NM_001074	NP_001065	P16662	UD2B7_HUMAN	UDP glucuronosyltransferase 2B7 precursor	459					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|skin(1)	2						CCCCTGGATCGAGCAGTCTTC	0.398													6	123	---	---	---	---	PASS	T	69978240	T	T	69978240	3	4	178	1	0	0	0	0	1	0	0	0	16959	1058	37	2	1398	2	UGT2B7	4	69978240	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1188360	69978240	121176036	304	63257										
UGT2B28	54490	broad.mit.edu	37	chr4	70146440	70146440	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacgcattcactcttaaactCgaagtttatcctacatcttt	4	11	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:70146440C>A	uc003hej.2	+	1	224	c.222C>A	c.(220-222)CTC>CTA	p.L74L	UGT2B28_uc010ihr.2_Silent_p.L74L	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	74					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	CTCTTAAACTCGAAGTTTATC	0.373													7	164	---	---	---	---	PASS	A	70146440	A	A	70146440	2	1	178	1	0	0	0	0	0	0	0	1	16957	871	31	2		2	UGT2B28	4	70146440	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	168200	70146440	121007836	305	63258										
ADAMTS3	9508	broad.mit.edu	37	chr4	73154561	73154561	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaggacctgcctcacctccgTtccttcaccgcaggtcactg	9	17	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:73154561T>C	uc003hgk.1	-	21	2993	c.2956A>G	c.(2956-2958)ACG>GCG	p.T986A		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	986	TSP type-1 4.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CTCACCTCCGTTCCTTCACCG	0.473													5	22	---	---	---	---	PASS	C	73154561	C	C	73154561	3	2	178	1	0	0	0	0	1	0	0	0	267	1725	60	5	669	5	ADAMTS3	4	73154561	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	3008121	73154561	117999715	306	63259										
ADAMTS3	9508	broad.mit.edu	37	chr4	73188783	73188783	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggaccacatttatatgcactCcgagggactcatcatggtaa	9	10	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:73188783C>A	uc003hgk.1	-	6	930	c.893G>T	c.(892-894)GGA>GTA	p.G298V		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	298	Peptidase M12B.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TATATGCACTCCGAGGGACTC	0.368													39	220	---	---	---	---	PASS	A	73188783	A	A	73188783	3	1	178	1	0	0	0	0	1	0	0	0	267	855	30	2	2792	2	ADAMTS3	4	73188783	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	34222	73188783	117965493	307	63260										
ANKRD17	26057	broad.mit.edu	37	chr4	74124090	74124090	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctccgcctccaccgccgcctCcaccgccgccgctgttgtcg	9	23	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:74124090C>T	uc003hgp.2	-	1	413	c.296G>A	c.(295-297)GGA>GAA	p.G99E	ANKRD17_uc003hgq.2_Missense_Mutation_p.G99E|ANKRD17_uc003hgr.2_Missense_Mutation_p.G99E	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	99	Gly-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			accgccgcctccaccgccgcc	0.403													8	21	---	---	---	---	PASS	T	74124090	T	T	74124090	3	4	178	1	0	0	0	0	1	0	0	0	646	855	30	2	7651	2	ANKRD17	4	74124090	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	935307	74124090	117030186	308	63261										
CNOT6L	246175	broad.mit.edu	37	chr4	78647416	78647416	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gattctcccttctgagcttcCattctttccattgcagctga	6	13	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:78647416C>A	uc011ccd.1	-	11	1491	c.1360G>T	c.(1360-1362)GGA>TGA	p.G454*	CNOT6L_uc003hks.2_Nonsense_Mutation_p.G454*|CNOT6L_uc003hkt.1_Nonsense_Mutation_p.G297*	NM_144571	NP_653172	Q96LI5	CNO6L_HUMAN	CCR4-NOT transcription complex, subunit 6-like	454					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	exonuclease activity|protein binding			large_intestine(1)	1						TCTGAGCTTCCATTCTTTCCA	0.403													8	194	---	---	---	---	PASS	A	78647416	A	A	78647416	4	1	178	1	0	0	0	0	0	1	0	0	3623	603	21	3	315	3	CNOT6L	4	78647416	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4523326	78647416	112506860	309	63262										
ABCG2	9429	broad.mit.edu	37	chr4	89052213	89052213	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttcagtttttccacattacCttggagtctgccactttatc	5	11	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:89052213C>T	uc003hrg.2	-	5	1024	c.531G>A	c.(529-531)AAG>AAA	p.K177K	ABCG2_uc003hrh.2_Silent_p.K177K|ABCG2_uc003hrf.2_Silent_p.K47K	NM_004827	NP_004818	Q9UNQ0	ABCG2_HUMAN	ATP-binding cassette, sub-family G, member 2	177	ABC transporter.|Cytoplasmic (Potential).				cellular iron ion homeostasis|urate metabolic process	integral to membrane|plasma membrane	ATP binding|heme transporter activity|protein homodimerization activity|xenobiotic-transporting ATPase activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Imatinib(DB00619)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nitrendipine(DB01054)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Topotecan(DB01030)	TCCACATTACCTTGGAGTCTG	0.408													43	140	---	---	---	---	PASS	T	89052213	T	T	89052213	2	4	178	1	0	0	0	0	0	0	0	1	69	695	24	3		3	ABCG2	4	89052213	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	10404797	89052213	102102063	310	63263										
SMARCAD1	56916	broad.mit.edu	37	chr4	95201832	95201832	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctacatgtactttgtaaacaGtaccgacacattaataactt	4	9	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:95201832G>T	uc003htc.3	+	20	2763	c.2508G>T	c.(2506-2508)CAG>CAT	p.Q836H	SMARCAD1_uc003htb.3_Missense_Mutation_p.Q838H|SMARCAD1_uc003htd.3_Missense_Mutation_p.Q838H|SMARCAD1_uc010ila.2_Missense_Mutation_p.Q701H|SMARCAD1_uc011cdw.1_Missense_Mutation_p.Q406H	NM_020159	NP_064544	Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated	836					chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		TTTGTAAACAGTACCGACACA	0.358													7	132	---	---	---	---	PASS	T	95201832	T	T	95201832	3	4	178	1	0	0	0	0	1	0	0	0	14772	1020	36	3	2588	3	SMARCAD1	4	95201832	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6149619	95201832	95952444	311	63264										
CENPE	1062	broad.mit.edu	37	chr4	104062989	104062989	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcttctcagaaacaattcctCtgagtttgtcaatagtttcc	5	10	4	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:104062989C>G	uc003hxb.1	-	35	5471	c.5381G>C	c.(5380-5382)AGA>ACA	p.R1794T	CENPE_uc003hxc.1_Missense_Mutation_p.R1769T|CENPE_uc003hxd.1_5'Flank	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	1794	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		AACAATTCCTCTGAGTTTGTC	0.313													15	42	---	---	---	---	PASS	G	104062989	G	G	104062989	3	3	178	1	0	0	0	0	1	0	0	0	3230	913	32	2	2784	2	CENPE	4	104062989	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	8861157	104062989	87091287	312	63265										
LEF1	51176	broad.mit.edu	37	chr4	108999527	108999527	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctgctcctttctctgttcaTgctgaggcttcctaaaaggt	8	12	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:108999527T>C	uc003hyt.1	-	8	1512	c.857A>G	c.(856-858)CAT>CGT	p.H286R	LEF1_uc011cfj.1_Missense_Mutation_p.H143R|LEF1_uc011cfk.1_Missense_Mutation_p.H190R|LEF1_uc003hyu.1_Missense_Mutation_p.H258R|LEF1_uc003hyv.1_Missense_Mutation_p.H258R|LEF1_uc010imb.1_RNA|LEF1_uc010ima.1_5'UTR|LEF1_uc003hyw.1_RNA	NM_016269	NP_057353	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1 isoform 1	286					canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		TCTCTGTTCATGCTGAGGCTT	0.478													32	133	---	---	---	---	PASS	C	108999527	C	C	108999527	3	2	178	1	0	0	0	0	1	0	0	0	8714	1464	51	5	442	5	LEF1	4	108999527	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	4936538	108999527	82154749	313	63266										
SEC24B	10427	broad.mit.edu	37	chr4	110447381	110447381	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttatgattttctcctttttaGgtctttcaatgcacactttt	4	8	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:110447381G>T	uc003hzk.2	+	17	2847	c.2792_splice	c.e17-1	p.G931_splice	SEC24B_uc003hzl.2_Splice_Site_p.G896_splice|SEC24B_uc011cfp.1_Splice_Site_p.G961_splice|SEC24B_uc011cfq.1_Splice_Site_p.G930_splice|SEC24B_uc011cfr.1_Splice_Site_p.G895_splice	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a						COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		CTCCTTTTTAGGTCTTTCAAT	0.338													8	121	---	---	---	---	PASS	T	110447381	T	T	110447381	5	4	178	1	0	0	0	0	0	0	1	0	13995	1014	35	3	2857	3	SEC24B	4	110447381	Splice_Site	SNP	G	TCGA-85-6561-01A-11D-1817-08	1447854	110447381	80706895	314	63267										
C4orf21	55345	broad.mit.edu	37	chr4	113524748	113524748	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtcataaagttttcatactCagtgctatctggaaactgac	7	8	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:113524748C>A	uc003iau.2	-	10	3119	c.2908G>T	c.(2908-2910)GAG>TAG	p.E970*	C4orf21_uc003iaw.2_Nonsense_Mutation_p.E970*	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		TTTTCATACTCAGTGCTATCT	0.403													6	57	---	---	---	---	PASS	A	113524748	A	A	113524748	4	1	178	1	0	0	0	0	0	1	0	0	2254	835	29	2	3482	2	C4orf21	4	113524748	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3077367	113524748	77629528	315	63268										
PDE5A	8654	broad.mit.edu	37	chr4	120488293	120488293	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttgatggcctgggctacacCaacaacctggtataaggaga	12	9	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:120488293C>A	uc003idh.2	-	4	993	c.838G>T	c.(838-840)GGT>TGT	p.G280C	PDE5A_uc003idf.2_Missense_Mutation_p.G238C|PDE5A_uc003idg.2_Missense_Mutation_p.G228C	NM_001083	NP_001074	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 1	280	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)	TGGGCTACACCAACAACCTGG	0.358													6	68	---	---	---	---	PASS	A	120488293	A	A	120488293	3	1	178	1	0	0	0	0	1	0	0	0	11644	594	21	3	1861	3	PDE5A	4	120488293	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	6963545	120488293	70665983	316	63269										
FBXW7	55294	broad.mit.edu	37	chr4	153247367	153247367	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaccctaagagtggcatctcGagaaccgctaacaactctgc	8	13	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:153247367G>T	uc003ims.2	-	10	1584	c.1435C>A	c.(1435-1437)CGA>AGA	p.R479R	FBXW7_uc011cii.1_Silent_p.R479R|FBXW7_uc003imt.2_Silent_p.R479R|FBXW7_uc011cih.1_Silent_p.R303R|FBXW7_uc003imq.2_Silent_p.R399R|FBXW7_uc003imr.2_Silent_p.R361R	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	479	WD 3.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R479Q(31)|p.R479L(6)|p.R479G(3)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				GTGGCATCTCGAGAACCGCTA	0.398			Mis|N|D|F		colorectal|endometrial|T-ALL								5	50	---	---	---	---	PASS	T	153247367	T	T	153247367	2	4	178	1	0	0	0	0	0	0	0	1	5769	1066	37	2		2	FBXW7	4	153247367	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	32759074	153247367	37906909	317	63270										
FSTL5	56884	broad.mit.edu	37	chr4	162307405	162307405	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gactgagtcagttacaccgtCcaccatgacctgtggggaaa	11	11	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:162307405C>A	uc003iqh.2	-	16	2474	c.2038G>T	c.(2038-2040)GAC>TAC	p.D680Y	FSTL5_uc003iqi.2_Missense_Mutation_p.D679Y|FSTL5_uc010iqv.2_Missense_Mutation_p.D670Y|uc010iqu.1_RNA	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	680						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		GTTACACCGTCCACCATGACC	0.498													6	29	---	---	---	---	PASS	A	162307405	A	A	162307405	3	1	178	1	0	0	0	0	1	0	0	0	6080	855	30	2	509	2	FSTL5	4	162307405	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	9060038	162307405	28846871	318	63271										
CDKN2AIP	55602	broad.mit.edu	37	chr4	184367326	184367326	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gatcacgcaaaaacctctgcCaagacagaacgtgcatcagc	8	13	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:184367326C>A	uc003ivp.1	+	3	651	c.489C>A	c.(487-489)GCC>GCA	p.A163A	CDKN2AIP_uc003ivq.1_5'UTR	NM_017632	NP_060102	Q9NXV6	CARF_HUMAN	CDKN2A interacting protein	163					negative regulation of cell growth|positive regulation of signal transduction|regulation of protein stability	granular component|nucleoplasm	double-stranded RNA binding|p53 binding				0		all_lung(41;6.9e-12)|Lung NSC(41;1.28e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;1.15e-26)|Epithelial(43;2.98e-22)|OV - Ovarian serous cystadenocarcinoma(60;7.64e-10)|GBM - Glioblastoma multiforme(59;4.22e-06)|Colorectal(24;5.87e-06)|STAD - Stomach adenocarcinoma(60;2.09e-05)|COAD - Colon adenocarcinoma(29;5.15e-05)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		AAACCTCTGCCAAGACAGAAC	0.453													6	57	---	---	---	---	PASS	A	184367326	A	A	184367326	2	1	178	1	0	0	0	0	0	0	0	1	3162	581	21	3		3	CDKN2AIP	4	184367326	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	22059921	184367326	6786950	319	63272										
RWDD4A	201965	broad.mit.edu	37	chr4	184570716	184570716	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attgagatgatattgcttatCgatgtctaaaaaaaaaaaga	7	3	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:184570716C>A	uc003ivt.1	-	5	595	c.369G>T	c.(367-369)TCG>TCT	p.S123S	RWDD4A_uc003ivu.1_RNA|RWDD4A_uc003ivv.1_Silent_p.S60S|RWDD4A_uc011ckl.1_RNA	NM_152682	NP_689895	Q6NW29	RWDD4_HUMAN	RWD domain containing 4A	123											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;7.35e-27)|Epithelial(43;1.49e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.76e-10)|GBM - Glioblastoma multiforme(59;5.54e-06)|Colorectal(24;7.92e-06)|STAD - Stomach adenocarcinoma(60;2.35e-05)|COAD - Colon adenocarcinoma(29;6.26e-05)|LUSC - Lung squamous cell carcinoma(40;0.00935)|READ - Rectum adenocarcinoma(43;0.166)		TATTGCTTATCGATGTCTAAA	0.333													6	99	---	---	---	---	PASS	A	184570716	A	A	184570716	2	1	178	1	0	0	0	0	0	0	0	1	13758	871	31	2		2	RWDD4A	4	184570716	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	203390	184570716	6583560	320	63273										
FAT1	2195	broad.mit.edu	37	chr4	187539950	187539950	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcacttcgtatttggttgctCgaaattgtggtgcattgtca	10	7	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:187539950C>A	uc003izf.2	-	10	7978	c.7790G>T	c.(7789-7791)CGA>CTA	p.R2597L		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2597	Extracellular (Potential).|Cadherin 24.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TTTGGTTGCTCGAAATTGTGG	0.463										HNSCC(5;0.00058)			4	27	---	---	---	---	PASS	A	187539950	A	A	187539950	3	1	178	1	0	0	0	0	1	0	0	0	5689	884	31	2	6048	2	FAT1	4	187539950	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2969234	187539950	3614326	321	63274										
FAT1	2195	broad.mit.edu	37	chr4	187541593	187541593	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcctctgtcacttctacaacCacatcaaacgcctcctgctg	4	17	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr4:187541593C>A	uc003izf.2	-	10	6335	c.6147G>T	c.(6145-6147)GTG>GTT	p.V2049V		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2049	Extracellular (Potential).|Cadherin 18.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTTCTACAACCACATCAAACG	0.498										HNSCC(5;0.00058)			7	108	---	---	---	---	PASS	A	187541593	A	A	187541593	2	1	178	1	0	0	0	0	0	0	0	1	5689	581	21	3		3	FAT1	4	187541593	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1643	187541593	3612683	322	63275										
C5orf49	134121	broad.mit.edu	37	chr5	7832092	7832092	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggctcaatgggctgattgatGcgcttcccatagacagaaga	12	9	1	5			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:7832092G>T	uc003jea.3	-	3	445	c.315C>A	c.(313-315)CGC>CGA	p.R105R		NM_001089584	NP_001083053	A4QMS7	CE049_HUMAN	hypothetical protein LOC134121	105											0						GCTGATTGATGCGCTTCCCAT	0.542													17	52	---	---	---	---	PASS	T	7832092	T	T	7832092	2	4	178	1	0	0	0	0	0	0	0	1	2307	1306	46	3		3	C5orf49	5	7832092	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08		7832092	173083168	323	63276										
CDH10	1008	broad.mit.edu	37	chr5	24505300	24505300	+	Missense_Mutation	SNP	A	C	C													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttgatgtataaagagatccAtttcctgaatgaatgttaaa							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:24505300A>C	uc003jgr.1	-	8	1646	c.1314T>G	c.(1312-1314)AAT>AAG	p.N438K	CDH10_uc011cnu.1_Intron	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	438	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AAAGAGATCCATTTCCTGAAT	0.358										HNSCC(23;0.051)			8	50	---	---	---	---	PASS	C	24505300	C	C	24505300	3	2	178	1	0	0	0	0	1	0	0	0	3096	214	8	5	1072	5	CDH10	5	24505300	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	16673208	24505300	156409960	324	63277	1084	2								
CDH10	1008	broad.mit.edu	37	chr5	24505301	24505301	+	Missense_Mutation	SNP	T	A	A													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgatgtataaagagatccaTttcctgaatgaatgttaaag							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:24505301T>A	uc003jgr.1	-	8	1645	c.1313A>T	c.(1312-1314)AAT>ATT	p.N438I	CDH10_uc011cnu.1_Intron	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	438	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AAGAGATCCATTTCCTGAATG	0.353										HNSCC(23;0.051)			8	49	---	---	---	---	PASS	A	24505301	A	A	24505301	3	1	178	1	0	0	0	0	1	0	0	0	3096	1493	52	5	1073	5	CDH10	5	24505301	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	1	24505301	156409959	325	63278	1084	2								
TTC23L	153657	broad.mit.edu	37	chr5	34850335	34850335	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttcgatgtgtcatcctttctCggattatttttggggaccat	9	8	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:34850335C>A	uc003jiu.2	+	4	404	c.301C>A	c.(301-303)CGG>AGG	p.R101R		NM_144725	NP_653326	Q6PF05	TT23L_HUMAN	tetratricopeptide repeat domain 23-like	101							binding			central_nervous_system(1)	1						CATCCTTTCTCGGATTATTTT	0.453													6	126	---	---	---	---	PASS	A	34850335	A	A	34850335	2	1	178	1	0	0	0	0	0	0	0	1	16688	875	31	2		2	TTC23L	5	34850335	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	10345034	34850335	146064925	326	63279										
C5orf34	375444	broad.mit.edu	37	chr5	43508755	43508755	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agtttcgaaaatctagggctCgctgtagttgctcctatgaa	10	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:43508755C>A	uc003jnz.1	-	4	526	c.209G>T	c.(208-210)CGA>CTA	p.R70L	C5orf34_uc011cpx.1_5'UTR	NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	70										breast(1)	1	Lung NSC(6;2.07e-05)					ATCTAGGGCTCGCTGTAGTTG	0.294													5	129	---	---	---	---	PASS	A	43508755	A	A	43508755	3	1	178	1	0	0	0	0	1	0	0	0	2293	884	31	2	1751	2	C5orf34	5	43508755	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	8658420	43508755	137406505	327	63280										
ERCC8	1161	broad.mit.edu	37	chr5	60194165	60194165	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attatctgtaccaacagtgaGgaggtgaagtccatcacttg	10	8	2	2	rs141137570	by1000genomes	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:60194165G>T	uc003jsm.3	-	9	851	c.781C>A	c.(781-783)CTC>ATC	p.L261I	ERCC8_uc003jsk.2_RNA|ERCC8_uc003jsl.3_Missense_Mutation_p.L203I|ERCC8_uc011cqp.1_Missense_Mutation_p.L108I	NM_000082	NP_000073	Q13216	ERCC8_HUMAN	excision repair cross-complementing rodent	261	WD 4.				positive regulation of DNA repair|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein polyubiquitination|response to oxidative stress|response to UV|response to UV|transcription-coupled nucleotide-excision repair	Cul4A-RING ubiquitin ligase complex|nuclear matrix|nucleoplasm|nucleotide-excision repair complex|soluble fraction	protein binding|protein complex binding				0		Lung NSC(810;1.51e-06)|Prostate(74;0.0322)|Ovarian(174;0.0481)|Breast(144;0.077)				CCAACAGTGAGGAGGTGAAGT	0.343								Direct_reversal_of_damage|NER					6	62	---	---	---	---	PASS	T	60194165	T	T	60194165	3	4	178	1	0	0	0	0	1	0	0	0	5219	1000	35	3	425	3	ERCC8	5	60194165	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	16685410	60194165	120721095	328	63281										
SLC30A5	64924	broad.mit.edu	37	chr5	68400543	68400543	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cactctttgtggaccactaaGgtaaataaaaatgcatattt	6	7	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:68400543G>T	uc003jvh.2	+	4	560	c.359G>T	c.(358-360)AGG>ATG	p.R120M	SLC30A5_uc003jvg.2_3'UTR|SLC30A5_uc011crc.1_RNA|SLC30A5_uc003jvi.2_Intron	NM_022902	NP_075053	Q8TAD4	ZNT5_HUMAN	solute carrier family 30 (zinc transporter),	120	Extracellular (Potential).				cellular zinc ion homeostasis|cobalt ion transport|regulation of proton transport|response to zinc ion	apical plasma membrane|Golgi apparatus|integral to plasma membrane|membrane fraction|secretory granule membrane	zinc ion binding|zinc ion transmembrane transporter activity			central_nervous_system(1)	1		Lung NSC(167;0.000986)|Prostate(74;0.00809)|Colorectal(97;0.0508)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		GGACCACTAAGGTAAATAAAA	0.299													8	136	---	---	---	---	PASS	T	68400543	T	T	68400543	3	4	178	1	0	0	0	0	1	0	0	0	14558	1014	35	3	461	3	SLC30A5	5	68400543	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	8206378	68400543	112514717	329	63282										
BDP1	55814	broad.mit.edu	37	chr5	70757682	70757682	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tatgctataaatgaaagtcaGaggccaccagatcgttcaaa	8	8	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:70757682G>C	uc003kbp.1	+	3	791	c.528G>C	c.(526-528)CAG>CAC	p.Q176H	BDP1_uc003kbn.1_Missense_Mutation_p.Q176H|BDP1_uc003kbo.2_Missense_Mutation_p.Q176H	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	176	Interaction with ZBTB43.|Potential.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		ATGAAAGTCAGAGGCCACCAG	0.279													4	120	---	---	---	---	PASS	C	70757682	C	C	70757682	3	2	178	1	0	0	0	0	1	0	0	0	1395	933	33	2	538	2	BDP1	5	70757682	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2357139	70757682	110157578	330	63283										
POLK	51426	broad.mit.edu	37	chr5	74892392	74892392	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgtcagatacttacctgtcCtgtttgctttagggctcaag	9	10	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:74892392C>A	uc003kdw.2	+	13	1970	c.1874C>A	c.(1873-1875)CCT>CAT	p.P625H	POLK_uc003kdx.2_RNA|POLK_uc003kdy.2_RNA|POLK_uc010izq.2_Missense_Mutation_p.P427H|POLK_uc003kec.2_Missense_Mutation_p.P535H|POLK_uc010izr.2_RNA|POLK_uc010izs.2_RNA|POLK_uc003ked.2_Intron|POLK_uc003kee.2_Intron|POLK_uc003kef.2_Missense_Mutation_p.P535H	NM_016218	NP_057302	Q9UBT6	POLK_HUMAN	DNA-directed DNA polymerase kappa	625	UBZ-type 1.				DNA replication|nucleotide-excision repair, DNA gap filling	nucleus	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|kidney(2)	4		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;2.9e-54)|all cancers(79;1.27e-42)		CTTACCTGTCCTGTTTGCTTT	0.373								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					8	130	---	---	---	---	PASS	A	74892392	A	A	74892392	3	1	178	1	0	0	0	0	1	0	0	0	12204	681	24	3	1920	3	POLK	5	74892392	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4134710	74892392	106022868	331	63284										
PDE8B	8622	broad.mit.edu	37	chr5	76621451	76621451	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttatagatgcaatattgctCggactccagagtcagccctt	9	10	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:76621451C>A	uc003kfa.2	+	3	532	c.487C>A	c.(487-489)CGG>AGG	p.R163R	PDE8B_uc003kfb.2_Silent_p.R143R|PDE8B_uc003kfc.2_Silent_p.R163R|PDE8B_uc003kfd.2_Silent_p.R163R|PDE8B_uc003kfe.2_Silent_p.R163R	NM_003719	NP_003710	O95263	PDE8B_HUMAN	phosphodiesterase 8B isoform 1	163					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity				0		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)		CAATATTGCTCGGACTCCAGA	0.433													5	91	---	---	---	---	PASS	A	76621451	A	A	76621451	2	1	178	1	0	0	0	0	0	0	0	1	11654	875	31	2		2	PDE8B	5	76621451	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1729059	76621451	104293809	332	63285										
THBS4	7060	broad.mit.edu	37	chr5	79335928	79335928	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttctcccatcttccagtcaGaggctaaacccaggcgctct	7	16	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:79335928G>T	uc003kgh.2	+	3	440	c.117G>T	c.(115-117)CAG>CAT	p.Q39H		NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	39	TSP N-terminal.				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		CTTCCAGTCAGAGGCTAAACC	0.483													7	103	---	---	---	---	PASS	T	79335928	T	T	79335928	3	4	178	1	0	0	0	0	1	0	0	0	15853	933	33	2	123	2	THBS4	5	79335928	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2714477	79335928	101579332	333	63286										
SPZ1	84654	broad.mit.edu	37	chr5	79617057	79617057	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtagagattctcaaggaactCcatcatcagaaacagggaac	9	9	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:79617057C>A	uc003kgn.2	+	1	1268	c.1023C>A	c.(1021-1023)CTC>CTA	p.L341L	uc011ctk.1_RNA	NM_032567	NP_115956	Q9BXG8	SPZ1_HUMAN	spermatogenic leucine zipper 1	341	Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(1)	1		Lung NSC(167;0.0393)|all_lung(232;0.0428)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;3.43e-47)|Epithelial(54;2.25e-41)|all cancers(79;4.19e-36)		TCAAGGAACTCCATCATCAGA	0.398													7	78	---	---	---	---	PASS	A	79617057	A	A	79617057	2	1	178	1	0	0	0	0	0	0	0	1	15126	842	30	2		2	SPZ1	5	79617057	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	281129	79617057	101298203	334	63287										
MSH3	4437	broad.mit.edu	37	chr5	80063922	80063922	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gagcattacttaaagatactCaatgaacaagctgccaagta	7	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:80063922C>A	uc003kgz.2	+	14	2320	c.2067C>A	c.(2065-2067)CTC>CTA	p.L689L		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	689					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		TAAAGATACTCAATGAACAAG	0.398								MMR					7	59	---	---	---	---	PASS	A	80063922	A	A	80063922	2	1	178	1	0	0	0	0	0	0	0	1	9871	813	29	2		2	MSH3	5	80063922	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	446865	80063922	100851338	335	63288										
VCAN	1462	broad.mit.edu	37	chr5	82816290	82816290	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aacagaagaagaagtcttctCtgggatgaaactctctacat	8	8	3	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:82816290C>A	uc003kii.3	+	7	2521	c.2165C>A	c.(2164-2166)TCT>TAT	p.S722Y	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.S722Y|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	722	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GAAGTCTTCTCTGGGATGAAA	0.363													6	37	---	---	---	---	PASS	A	82816290	A	A	82816290	3	1	178	1	0	0	0	0	1	0	0	0	17135	913	32	2	2187	2	VCAN	5	82816290	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2752368	82816290	98098970	336	63289										
MEF2C	4208	broad.mit.edu	37	chr5	88027589	88027589	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgcctggtggaataagaactCggagatctggtttacggtta	13	6	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:88027589C>A	uc003kjj.2	-	7	1440	c.767G>T	c.(766-768)CGA>CTA	p.R256L	MEF2C_uc003kji.2_Missense_Mutation_p.R256L|MEF2C_uc003kjk.2_Missense_Mutation_p.R256L|MEF2C_uc003kjm.2_Missense_Mutation_p.R254L|MEF2C_uc003kjl.2_Missense_Mutation_p.R274L	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	256					apoptosis|B cell proliferation|innate immune response|learning or memory|muscle cell differentiation|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|neuron development|positive regulation of muscle cell differentiation|positive regulation of survival gene product expression|positive regulation of transcription from RNA polymerase II promoter|regulation of germinal center formation|regulation of megakaryocyte differentiation|regulation of synaptic activity|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	nuclear speck	activating transcription factor binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(3)|breast(2)|ovary(1)|large_intestine(1)	7		all_cancers(142;6.67e-05)|all_epithelial(76;7.77e-07)|Lung NSC(167;0.00566)|all_lung(232;0.00732)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;1.04e-33)|Epithelial(54;1.6e-28)|all cancers(79;2.9e-25)		AATAAGAACTCGGAGATCTGG	0.378										HNSCC(66;0.2)			5	55	---	---	---	---	PASS	A	88027589	A	A	88027589	3	1	178	1	0	0	0	0	1	0	0	0	9457	884	31	2	674	2	MEF2C	5	88027589	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5211299	88027589	92887671	337	63290										
GPR98	84059	broad.mit.edu	37	chr5	90001286	90001286	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtcctcacagtagaagccaGtgatgaaccacatggagttt	10	9	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:90001286G>T	uc003kju.2	+	37	8552	c.8456G>T	c.(8455-8457)AGT>ATT	p.S2819I	GPR98_uc003kjt.2_Missense_Mutation_p.S525I|GPR98_uc003kjv.2_Missense_Mutation_p.S419I	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2819	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GTAGAAGCCAGTGATGAACCA	0.413													6	129	---	---	---	---	PASS	T	90001286	T	T	90001286	3	4	178	1	0	0	0	0	1	0	0	0	6721	1029	36	3	8602	3	GPR98	5	90001286	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1973697	90001286	90913974	338	63291										
PCSK1	5122	broad.mit.edu	37	chr5	95757591	95757591	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	catatttactcacttgttctCgtttgtgggatcatatcggg	9	8	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:95757591C>A	uc003kls.1	-	5	819	c.613G>T	c.(613-615)GAG>TAG	p.E205*		NM_000439	NP_000430	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	205	Catalytic.				cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity			ovary(2)	2		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CACTTGTTCTCGTTTGTGGGA	0.338													7	161	---	---	---	---	PASS	A	95757591	A	A	95757591	4	1	178	1	0	0	0	0	0	1	0	0	11600	893	31	2	1688	2	PCSK1	5	95757591	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5756305	95757591	85157669	339	63292										
CAST	831	broad.mit.edu	37	chr5	96076486	96076486	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agggcctcctgcagactcttCggtgagtttacatacatgtc	10	11	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:96076486C>A	uc003klz.1	+	11	830	c.668C>A	c.(667-669)TCG>TAG	p.S223*	CAST_uc003klt.2_Intron|CAST_uc003klu.2_Nonsense_Mutation_p.S306*|CAST_uc003klv.2_Nonsense_Mutation_p.S284*|CAST_uc003klw.2_Nonsense_Mutation_p.S287*|CAST_uc003klx.2_Nonsense_Mutation_p.S265*|CAST_uc003kly.2_Intron|CAST_uc011cuo.1_Nonsense_Mutation_p.S269*|CAST_uc011cuq.1_Nonsense_Mutation_p.S71*|CAST_uc011cur.1_Nonsense_Mutation_p.S209*|CAST_uc011cus.1_Intron|CAST_uc003kma.1_Nonsense_Mutation_p.S182*|CAST_uc011cut.1_Nonsense_Mutation_p.S151*|CAST_uc003kmb.2_Intron|CAST_uc003kmc.2_Nonsense_Mutation_p.S223*|CAST_uc003kmd.2_Nonsense_Mutation_p.S201*|CAST_uc003kme.2_Nonsense_Mutation_p.S182*|CAST_uc003kmf.2_Intron|CAST_uc003kmh.2_5'Flank|CAST_uc010jbj.2_5'Flank|CAST_uc010jbk.2_5'Flank|CAST_uc010jbl.1_5'Flank|CAST_uc003kmi.2_5'Flank|CAST_uc003kmj.2_5'Flank	NM_001042443	NP_001035908	P20810	ICAL_HUMAN	calpastatin isoform i	223							calcium-dependent cysteine-type endopeptidase inhibitor activity|protein binding			central_nervous_system(3)|ovary(1)|kidney(1)	5		all_cancers(142;5.27e-07)|all_epithelial(76;8.21e-10)|all_lung(232;0.000396)|Lung NSC(167;0.000539)|Ovarian(225;0.024)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;6.85e-15)		GCAGACTCTTCGGTGAGTTTA	0.348													5	88	---	---	---	---	PASS	A	96076486	A	A	96076486	4	1	178	1	0	0	0	0	0	1	0	0	2684	898	31	2	967	2	CAST	5	96076486	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	318895	96076486	84838774	340	63293										
CHD1	1105	broad.mit.edu	37	chr5	98194017	98194017	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttatgatgatcatggtactGagttaagtgtctatcagagg	11	4	3	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:98194017G>T	uc003knf.2	-	34	4802	c.4654C>A	c.(4654-4656)CAG>AAG	p.Q1552K	CHD1_uc010jbn.2_Missense_Mutation_p.Q278K	NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	1552					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	TCATGGTACTGAGTTAAGTGT	0.353													7	114	---	---	---	---	PASS	T	98194017	T	T	98194017	3	4	178	1	0	0	0	0	1	0	0	0	3323	1299	45	2	486	2	CHD1	5	98194017	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2117531	98194017	82721243	341	63294										
NUDT12	83594	broad.mit.edu	37	chr5	102894709	102894709	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agcaaaccaggcaaccaatcCatcttcctcctctctcggga	6	16	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:102894709C>A	uc003koi.2	-	3	760	c.667G>T	c.(667-669)GGA>TGA	p.G223*	NUDT12_uc011cvb.1_Nonsense_Mutation_p.G205*	NM_031438	NP_113626	Q9BQG2	NUD12_HUMAN	nudix-type motif 12	223						nucleus|peroxisome	metal ion binding|NAD+ diphosphatase activity				0		all_cancers(142;6.38e-08)|all_epithelial(76;1.99e-10)|Prostate(80;0.0138)|Lung NSC(167;0.0212)|Colorectal(57;0.0247)|all_lung(232;0.0283)|Ovarian(225;0.0423)		Epithelial(69;9.3e-13)|COAD - Colon adenocarcinoma(37;0.0221)		GCAACCAATCCATCTTCCTCC	0.408													6	61	---	---	---	---	PASS	A	102894709	A	A	102894709	4	1	178	1	0	0	0	0	0	1	0	0	10728	603	21	3	741	3	NUDT12	5	102894709	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4700692	102894709	78020551	342	63295										
FAM13B	51306	broad.mit.edu	37	chr5	137346823	137346823	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcttgctctttcatgtcttcCacatctgtgtaaatgctaag	6	10	5	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:137346823C>A	uc003lbz.2	-	6	1098	c.564G>T	c.(562-564)GTG>GTT	p.V188V	FAM13B_uc003lcb.2_Silent_p.V70V|FAM13B_uc003lca.2_Silent_p.V188V	NM_016603	NP_057687	Q9NYF5	FA13B_HUMAN	hypothetical protein LOC51306 isoform 1	188	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						TCATGTCTTCCACATCTGTGT	0.333													7	90	---	---	---	---	PASS	A	137346823	A	A	137346823	2	1	178	1	0	0	0	0	0	0	0	1	5453	581	21	3		3	FAM13B	5	137346823	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	34452114	137346823	43568437	343	63296										
KIF20A	10112	broad.mit.edu	37	chr5	137519972	137519972	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccgtgacagcaagttgactcGagtgttccaaggtttcttca	10	10	2	2	rs112052250		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:137519972G>T	uc003lcj.2	+	12	1893	c.1397G>T	c.(1396-1398)CGA>CTA	p.R466L	KIF20A_uc011cyo.1_Missense_Mutation_p.R448L	NM_005733	NP_005724	O95235	KI20A_HUMAN	kinesin family member 20A	466	Kinesin-motor.				cytokinesis|M phase of mitotic cell cycle|microtubule-based movement|protein transport|vesicle-mediated transport	Golgi apparatus|microtubule|nucleoplasm	ATP binding|microtubule motor activity|protein binding|transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			AAGTTGACTCGAGTGTTCCAA	0.493													7	120	---	---	---	---	PASS	T	137519972	T	T	137519972	3	4	178	1	0	0	0	0	1	0	0	0	8286	1058	37	2	1439	2	KIF20A	5	137519972	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	173149	137519972	43395288	344	63297										
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139818072	139818072	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcaaattgtcaactgctgatGgtaaagcttttgcagatcct	9	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:139818072G>T	uc003lfs.1	+	3	611	c.487G>T	c.(487-489)GGT>TGT	p.G163C	ANKHD1_uc003lfq.1_Missense_Mutation_p.G163C|ANKHD1_uc003lfr.2_Missense_Mutation_p.G163C|ANKHD1_uc003lfp.2_Intron|ANKHD1_uc003lfo.2_Missense_Mutation_p.G163C|ANKHD1_uc010jfk.2_Missense_Mutation_p.G163C	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	163						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACTGCTGATGGTAAAGCTTT	0.413													7	135	---	---	---	---	PASS	T	139818072	T	T	139818072	3	4	178	1	0	0	0	0	1	0	0	0	629	1348	47	3	497	3	ANKHD1-EIF4EBP3	5	139818072	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2298100	139818072	41097188	345	63298										
HARS2	23438	broad.mit.edu	37	chr5	140073541	140073541	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtaccagggatcttagtcctCagcatatggttgtgagggag	14	7	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:140073541C>A	uc003lgx.2	+	3	421	c.205C>A	c.(205-207)CAG>AAG	p.Q69K	HARS_uc003lgv.2_5'Flank|HARS_uc011czm.1_5'Flank|HARS_uc003lgw.2_5'Flank|HARS_uc011czn.1_5'Flank|HARS_uc010jfu.2_5'Flank|HARS_uc011czo.1_5'Flank|HARS_uc011czp.1_5'Flank|HARS_uc011czq.1_5'Flank|HARS2_uc010jfv.1_5'UTR|HARS2_uc011czr.1_Missense_Mutation_p.Q44K|HARS2_uc011czs.1_5'UTR|HARS2_uc011czt.1_Intron|HARS2_uc011czu.1_5'Flank	NM_012208	NP_036340	P49590	SYHM_HUMAN	histidyl-tRNA synthetase 2 precursor	69					histidyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|histidine-tRNA ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTTAGTCCTCAGCATATGGT	0.413													10	181	---	---	---	---	PASS	A	140073541	A	A	140073541	3	1	178	1	0	0	0	0	1	0	0	0	6960	827	29	2	215	2	HARS2	5	140073541	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	255469	140073541	40841719	346	63299										
PCDHA3	56145	broad.mit.edu	37	chr5	140180986	140180986	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cgcctgttccgggtggcgtcCaaaagacacggggaccttct	13	13	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:140180986C>A	uc003lhf.2	+	1	204	c.204C>A	c.(202-204)TCC>TCA	p.S68S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.S68S	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	68	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGTGGCGTCCAAAAGACACG	0.622													6	62	---	---	---	---	PASS	A	140180986	A	A	140180986	2	1	178	1	0	0	0	0	0	0	0	1	11525	581	21	3		3	PCDHA3	5	140180986	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	107445	140180986	40734274	347	63300										
PCDHB14	56122	broad.mit.edu	37	chr5	140604377	140604377	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggacacccaggctgaaaaccGagtacaacataaccgtgctg	10	12	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:140604377G>T	uc003ljb.2	+	1	1300	c.1300G>T	c.(1300-1302)GAG>TAG	p.E434*	PCDHB14_uc011dal.1_Nonsense_Mutation_p.E281*	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	434	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTGAAAACCGAGTACAACAT	0.537													6	64	---	---	---	---	PASS	T	140604377	T	T	140604377	4	4	178	1	0	0	0	0	0	1	0	0	11539	1059	37	2	1302	2	PCDHB14	5	140604377	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	423391	140604377	40310883	348	63301										
SLU7	10569	broad.mit.edu	37	chr5	159841435	159841435	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttttgaaggatcaatatacCatggcactgaagaaatatac	7	6	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:159841435C>A	uc003lyg.2	-	3	370	c.215G>T	c.(214-216)TGG>TTG	p.W72L	SLU7_uc003lyh.1_Missense_Mutation_p.W72L|SLU7_uc003lyi.1_Missense_Mutation_p.W72L	NM_006425	NP_006416	O95391	SLU7_HUMAN	step II splicing factor SLU7	72					alternative nuclear mRNA splicing, via spliceosome|nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|cytoplasm|nuclear speck|small nuclear ribonucleoprotein complex	pre-mRNA 3'-splice site binding|second spliceosomal transesterification activity|zinc ion binding			ovary(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATCAATATACCATGGCACTGA	0.333													7	128	---	---	---	---	PASS	A	159841435	A	A	159841435	3	1	178	1	0	0	0	0	1	0	0	0	14755	595	21	3	1601	3	SLU7	5	159841435	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	19237058	159841435	21073825	349	63302										
GABRA1	2554	broad.mit.edu	37	chr5	161281215	161281215	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaagacaataccactgtcttCaccaggattttggacagact	7	10	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:161281215C>T	uc010jiw.2	+	4	594	c.126C>T	c.(124-126)TTC>TTT	p.F42F	GABRA1_uc010jix.2_Silent_p.F42F|GABRA1_uc010jiy.2_Silent_p.F42F|GABRA1_uc003lyx.3_Silent_p.F42F|GABRA1_uc010jiz.2_Silent_p.F42F|GABRA1_uc010jja.2_Silent_p.F42F|GABRA1_uc010jjb.2_Silent_p.F42F	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	42	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|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			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	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;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	CCACTGTCTTCACCAGGATTT	0.358													27	71	---	---	---	---	PASS	T	161281215	T	T	161281215	2	4	178	1	0	0	0	0	0	0	0	1	6160	825	29	2		2	GABRA1	5	161281215	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1439780	161281215	19634045	350	63303										
ODZ2	57451	broad.mit.edu	37	chr5	167630837	167630837	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acatcctcaatgttaaaagtGgtacgtgaacacatcttctt	6	9	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:167630837G>T	uc010jjd.2	+	18	3547	c.3547G>T	c.(3547-3549)GGA>TGA	p.G1183*	ODZ2_uc003lzr.3_Nonsense_Mutation_p.G960*|ODZ2_uc003lzt.3_Nonsense_Mutation_p.G556*|ODZ2_uc010jje.2_Nonsense_Mutation_p.G454*	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		TGTTAAAAGTGGTACGTGAAC	0.517													7	109	---	---	---	---	PASS	T	167630837	T	T	167630837	4	4	178	1	0	0	0	0	0	1	0	0	10835	1362	47	3	3617	3	ODZ2	5	167630837	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6349622	167630837	13284423	351	63304										
DRD1	1812	broad.mit.edu	37	chr5	174869505	174869505	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agggatgtaaaagcttattaCagaggatgagatggcatatg	13	3	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:174869505C>A	uc003mcz.2	-	2	1543	c.598G>T	c.(598-600)GTA>TTA	p.V200L		NM_000794	NP_000785	P21728	DRD1_HUMAN	dopamine receptor D1	200	Helical; Name=5; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|adult walking behavior|cerebral cortex GABAergic interneuron migration|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|mating behavior|positive regulation of cAMP biosynthetic process|positive regulation of cell migration|positive regulation of potassium ion transport|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of synaptic transmission, glutamatergic|prepulse inhibition|response to drug|synapse assembly|visual learning	endoplasmic reticulum membrane|membrane fraction	protein binding			ovary(2)|skin(1)	3	all_cancers(89;0.00895)|Renal(175;0.000159)|Lung NSC(126;0.00625)|all_lung(126;0.0104)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)		Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Carphenazine(DB01038)|Chlorprothixene(DB01239)|Clozapine(DB00363)|Cocaine(DB00907)|Dopamine(DB00988)|Fenoldopam(DB00800)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Methylergonovine(DB00353)|Minaprine(DB00805)|Olanzapine(DB00334)|Pegademase bovine(DB00061)|Pergolide(DB01186)|Perphenazine(DB00850)|Prochlorperazine(DB00433)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Triflupromazine(DB00508)|Zuclopenthixol(DB01624)	AAGCTTATTACAGAGGATGAG	0.498													6	98	---	---	---	---	PASS	A	174869505	A	A	174869505	3	1	178	1	0	0	0	0	1	0	0	0	4756	478	17	3	746	3	DRD1	5	174869505	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	7238668	174869505	6045755	352	63305										
F12	2161	broad.mit.edu	37	chr5	176830259	176830259	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tagcagttgtgcctaccctcGaactggtggccccagccggc	12	15	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:176830259G>T	uc003mgo.3	-	12	1576	c.1527C>A	c.(1525-1527)TTC>TTA	p.F509L	PFN3_uc003mgl.2_5'Flank|F12_uc011dfy.1_Nonsense_Mutation_p.S40*|F12_uc003mgn.3_Nonsense_Mutation_p.S40*|F12_uc010jkl.2_RNA	NM_000505	NP_000496	P00748	FA12_HUMAN	coagulation factor XII precursor	509	Peptidase S1.				Factor XII activation|fibrinolysis|innate immune response|positive regulation of blood coagulation|positive regulation of fibrinolysis|positive regulation of plasminogen activation|protein autoprocessing|response to misfolded protein|zymogen activation	extracellular space|plasma membrane	serine-type endopeptidase activity				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCCTACCCTCGAACTGGTGGC	0.667									Hereditary_Angioedema				4	32	---	---	---	---	PASS	T	176830259	T	T	176830259	3	4	178	1	0	0	0	0	1	0	0	0	5339	1049	37	2	332	2	F12	5	176830259	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1960754	176830259	4085001	353	63306										
COL23A1	91522	broad.mit.edu	37	chr5	177715338	177715338	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaattaccgggtagccatctCgtcctgattgcccctgtggt	10	12	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr5:177715338C>A	uc003mje.2	-	5	786	c.428G>T	c.(427-429)CGA>CTA	p.R143L		NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	143	Extracellular (Potential).|Collagen-like 1.|Gly-rich.					collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	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)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		GTAGCCATCTCGTCCTGATTG	0.418													5	108	---	---	---	---	PASS	A	177715338	A	A	177715338	3	1	178	1	0	0	0	0	1	0	0	0	3682	884	31	2	1294	2	COL23A1	5	177715338	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	885079	177715338	3199922	354	63307										
EXOC2	55770	broad.mit.edu	37	chr6	562806	562806	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gagaagtcagtccttcattgTcaacaatccagtcttctttt	6	10	5	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:562806T>A	uc003mtd.2	-	17	1963	c.1829A>T	c.(1828-1830)GAC>GTC	p.D610V	EXOC2_uc003mte.2_Missense_Mutation_p.D610V|EXOC2_uc011dho.1_Missense_Mutation_p.D205V	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	610					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		TCCTTCATTGTCAACAATCCA	0.259													9	50	---	---	---	---	PASS	A	562806	A	A	562806	3	1	178	1	0	0	0	0	1	0	0	0	5302	1667	58	5	993	5	EXOC2	6	562806	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08		562806	170552261	355	63308										
PRPF4B	8899	broad.mit.edu	37	chr6	4031871	4031871	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaccagtctcaaaataagcaCagtcgtcacaaaaaaaagaa	6	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:4031871C>A	uc003mvv.2	+	2	211	c.120C>A	c.(118-120)CAC>CAA	p.H40Q	PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	40	His-rich.|Arg/Lys-rich (basic).					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				AAAATAAGCACAGTCGTCACa	0.179													6	70	---	---	---	---	PASS	A	4031871	A	A	4031871	3	1	178	1	0	0	0	0	1	0	0	0	12573	477	17	3	126	3	PRPF4B	6	4031871	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3469065	4031871	167083196	356	63309										
PRPF4B	8899	broad.mit.edu	37	chr6	4032230	4032230	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggcaagaaatggaaataggtCtagtactagatcttcaagta	10	5	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:4032230C>A	uc003mvv.2	+	2	570	c.479C>A	c.(478-480)TCT>TAT	p.S160Y	PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	160	Arg/Lys-rich (basic).					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				GGAAATAGGTCTAGTACTAGA	0.403													7	84	---	---	---	---	PASS	A	4032230	A	A	4032230	3	1	178	1	0	0	0	0	1	0	0	0	12573	913	32	2	485	2	PRPF4B	6	4032230	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	359	4032230	167082837	357	63310										
TXNDC5	81567	broad.mit.edu	37	chr6	7888999	7888999	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agggcgtgacggtctccgtcGctccagtctctgtgcgctgc	14	14	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:7888999G>T	uc003mxv.2	-	7	934	c.902C>A	c.(901-903)GCG>GAG	p.A301E	TXNDC5_uc003mxw.2_Missense_Mutation_p.A258E|TXNDC5_uc010jnz.2_Missense_Mutation_p.A193E|TXNDC5_uc010joa.1_Missense_Mutation_p.A193E	NM_030810	NP_110437	Q8NBS9	TXND5_HUMAN	thioredoxin domain containing 5 isoform 1	301					anti-apoptosis|cell redox homeostasis|cellular membrane organization|glycerol ether metabolic process|post-Golgi vesicle-mediated transport	endoplasmic reticulum lumen|lysosomal lumen	electron carrier activity|isomerase activity|protein disulfide oxidoreductase activity				0	Ovarian(93;0.0398)					GGTCTCCGTCGCTCCAGTCTC	0.642													5	54	---	---	---	---	PASS	T	7888999	T	T	7888999	3	4	178	1	0	0	0	0	1	0	0	0	16796	1087	38	1	412	1	TXNDC5	6	7888999	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3856769	7888999	163226068	358	63311										
HIVEP1	3096	broad.mit.edu	37	chr6	12122673	12122673	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgatgatgtctttgtatcggGacctaacgctcctgtgcccc	10	12	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:12122673G>T	uc003nac.2	+	4	2824	c.2645G>T	c.(2644-2646)GGA>GTA	p.G882V	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	882					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				TTTGTATCGGGACCTAACGCT	0.453													6	65	---	---	---	---	PASS	T	12122673	T	T	12122673	3	4	178	1	0	0	0	0	1	0	0	0	7186	1174	41	2	2655	2	HIVEP1	6	12122673	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	4233674	12122673	158992394	359	63312										
MRS2	57380	broad.mit.edu	37	chr6	24423172	24423172	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgttctcttttaggaccataGaattttttggctgattacag	8	6	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:24423172G>A	uc003neb.2	+	10	1237	c.1115G>A	c.(1114-1116)AGA>AAA	p.R372K	MRS2_uc003nea.2_Missense_Mutation_p.R372K|MRS2_uc011djl.1_Missense_Mutation_p.R375K|MRS2_uc011djm.1_RNA|MRS2_uc011djn.1_Missense_Mutation_p.R322K|MRS2_uc003nec.2_Missense_Mutation_p.R249K	NM_020662	NP_065713	Q9HD23	MRS2_HUMAN	MRS2-like, magnesium homeostasis factor	372	Mitochondrial intermembrane (Potential).				ion transport	integral to membrane|mitochondrial inner membrane					0						TAGGACCATAGAATTTTTTGG	0.443													33	82	---	---	---	---	PASS	A	24423172	A	A	24423172	3	1	178	1	0	0	0	0	1	0	0	0	9851	942	33	2	1153	2	MRS2	6	24423172	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	12300499	24423172	146691895	360	63313										
BTN3A1	11119	broad.mit.edu	37	chr6	26410260	26410260	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaagtatccagtatgcatctCgtaagtgcctctgacatttt	8	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:26410260C>A	uc003nhv.2	+	7	1332	c.964C>A	c.(964-966)CGG>AGG	p.R322R	BTN3A1_uc011dkj.1_Silent_p.R322R|BTN3A1_uc011dkk.1_Silent_p.R270R|BTN3A1_uc010jqj.2_Silent_p.R322R	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a	322	Cytoplasmic (Potential).|B30.2/SPRY.				lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						GTATGCATCTCGTAAGTGCCT	0.463													5	103	---	---	---	---	PASS	A	26410260	A	A	26410260	2	1	178	1	0	0	0	0	0	0	0	1	1562	898	31	2		2	BTN3A1	6	26410260	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1987088	26410260	144704807	361	63314										
BTN1A1	696	broad.mit.edu	37	chr6	26506973	26506973	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgtcatcctgatggttctaGgacttctcaccattgggtcc	9	12	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:26506973G>T	uc003nif.3	+	4	792	c.772G>T	c.(772-774)GGA>TGA	p.G258*		NM_001732	NP_001723	Q13410	BT1A1_HUMAN	butyrophilin, subfamily 1, member A1 precursor	258	Helical; (Potential).					extracellular region|integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2						GATGGTTCTAGGACTTCTCAC	0.448													8	182	---	---	---	---	PASS	T	26506973	T	T	26506973	4	4	178	1	0	0	0	0	0	1	0	0	1559	1001	35	3	786	3	BTN1A1	6	26506973	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	96713	26506973	144608094	362	63315										
GPX6	257202	broad.mit.edu	37	chr6	28472238	28472238	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctcccagaagagttggcttGatgagcccaaaagatcagag	12	9	1	6			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:28472238G>T	uc011dlj.1	-	6	547	c.497C>A	c.(496-498)TCA>TAA	p.S166*	GPX6_uc010jrg.1_RNA	NM_182701	NP_874360	P59796	GPX6_HUMAN	glutathione peroxidase 6 precursor	166					response to oxidative stress	extracellular region	glutathione peroxidase activity			ovary(3)|pancreas(1)|skin(1)	5					Glutathione(DB00143)	GAGTTGGCTTGATGAGCCCAA	0.458													9	38	---	---	---	---	PASS	T	28472238	T	T	28472238	4	4	178	1	0	0	0	0	0	1	0	0	6744	1294	45	2	172	2	GPX6	6	28472238	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1965265	28472238	142642829	363	63316										
OR2B3	442184	broad.mit.edu	37	chr6	29054191	29054191	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caacatggatgtgatgattcCatagaagagggaaaccatct	10	7	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:29054191C>A	uc003nlx.2	-	1	900	c.835G>T	c.(835-837)GGA>TGA	p.G279*		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						GTGATGATTCCATAGAAGAGG	0.418													6	54	---	---	---	---	PASS	A	29054191	A	A	29054191	4	1	178	1	0	0	0	0	0	1	0	0	10990	603	21	3	110	3	OR2B3	6	29054191	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	581953	29054191	142060876	364	63317										
OR12D2	26529	broad.mit.edu	37	chr6	29365200	29365200	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagcactgtccacttgtgccTcccacttcatggtagttatt	7	12	1	0	rs61742210		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:29365200T>A	uc003nmf.3	+	1	785	c.724T>A	c.(724-726)TCC>ACC	p.S242T		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CACTTGTGCCTCCCACTTCAT	0.433													13	107	---	---	---	---	PASS	A	29365200	A	A	29365200	3	1	178	1	0	0	0	0	1	0	0	0	10931	1551	54	5	726	5	OR12D2	6	29365200	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	311009	29365200	141749867	365	63318										
ZFP57	346171	broad.mit.edu	37	chr6	29640398	29640398	+	Nonsense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attgatcacctccatgcttcCattcctccccagccatagtg	5	16	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:29640398C>T	uc011dlw.1	-	4	1641	c.1490G>A	c.(1489-1491)TGG>TAG	p.W497*	ZFP57_uc003nnl.3_Nonsense_Mutation_p.W477*	NM_001109809	NP_001103279	Q9NU63	ZFP57_HUMAN	zinc finger protein 57 homolog	413					DNA methylation involved in embryo development|regulation of gene expression by genetic imprinting|transcription, DNA-dependent		DNA binding|zinc ion binding			ovary(3)|skin(2)	5						TCCATGCTTCCATTCCTCCCC	0.567													6	28	---	---	---	---	PASS	T	29640398	T	T	29640398	4	4	178	1	0	0	0	0	0	1	0	0	17648	595	21	3	124	3	ZFP57	6	29640398	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	275198	29640398	141474669	366	63319										
PPP1R10	5514	broad.mit.edu	37	chr6	30572489	30572489	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctgtgcttggttctgtgctCgttttcccttcaaaggggct	12	10	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:30572489C>A	uc003nqn.1	-	12	1530	c.978G>T	c.(976-978)ACG>ACT	p.T326T	PPP1R10_uc010jsc.1_Intron	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	326	Interaction with TOX4 (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						GTTCTGTGCTCGTTTTCCCTT	0.542													7	148	---	---	---	---	PASS	A	30572489	A	A	30572489	2	1	178	1	0	0	0	0	0	0	0	1	12352	871	31	2		2	PPP1R10	6	30572489	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	932091	30572489	140542578	367	63320										
MDC1	9656	broad.mit.edu	37	chr6	30672302	30672302	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcctgcccctagtggcccgaGatgtgggctcaggggtgaca	15	12	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:30672302G>A	uc003nrg.3	-	10	5098	c.4658C>T	c.(4657-4659)TCT>TTT	p.S1553F	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Missense_Mutation_p.S1160F	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1553	Interaction with the PRKDC complex.				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						AGTGGCCCGAGATGTGGGCTC	0.577								Other_conserved_DNA_damage_response_genes					17	82	---	---	---	---	PASS	A	30672302	A	A	30672302	3	1	178	1	0	0	0	0	1	0	0	0	9403	942	33	2	1635	2	MDC1	6	30672302	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	99813	30672302	140442765	368	63321										
LST1	7940	broad.mit.edu	37	chr6	31556510	31556510	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagggtccccctgtggtccaGccagtaaaaaccatggtccc	10	15	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:31556510G>T	uc003num.2	+	5	572	c.350G>T	c.(349-351)AGC>ATC	p.S117I	LST1_uc003nun.2_3'UTR|LST1_uc003nuo.2_Missense_Mutation_p.S62I|LST1_uc003nup.2_3'UTR|LST1_uc003nuq.2_Missense_Mutation_p.S72I|LST1_uc010jsx.2_RNA|LST1_uc003nuu.2_RNA|LST1_uc003nut.2_RNA|LST1_uc010jsw.2_Missense_Mutation_p.S108I	NM_007161	NP_009092	O00453	LST1_HUMAN	leukocyte specific transcript 1 isoform 1	Error:Variant_position_missing_in_O00453_after_alignment					cell morphogenesis|dendrite development|immune response|negative regulation of lymphocyte proliferation|regulation of cell shape	Golgi membrane|integral to membrane	protein binding				0						CTGTGGTCCAGCCAGTAAAAA	0.532													4	7	---	---	---	---	PASS	T	31556510	T	T	31556510	3	4	178	1	0	0	0	0	1	0	0	0	9067	986	34	3		3	LST1	6	31556510	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	884208	31556510	139558557	369	63322										
B3GALT4	8705	broad.mit.edu	37	chr6	33245953	33245953	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tatcagaggagcagtggcctCacacctggggcccctttcca	11	14	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:33245953C>A	uc003odr.2	+	1	1037	c.757C>A	c.(757-759)CAC>AAC	p.H253N		NM_003782	NP_003773	O96024	B3GT4_HUMAN	UDP-Gal:betaGlcNAc beta	253	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	ganglioside galactosyltransferase activity|UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)|breast(1)	2						GCAGTGGCCTCACACCTGGGG	0.657													6	27	---	---	---	---	PASS	A	33245953	A	A	33245953	3	1	178	1	0	0	0	0	1	0	0	0	1249	826	29	2	759	2	B3GALT4	6	33245953	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1689443	33245953	137869114	370	63323										
ANKS1A	23294	broad.mit.edu	37	chr6	34937797	34937797	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgccttctagggatgtggtcGaggttcttctgaggaacgat	14	7	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:34937797G>T	uc003ojx.3	+	3	431	c.289G>T	c.(289-291)GAG>TAG	p.E97*	ANKS1A_uc011dss.1_Nonsense_Mutation_p.E97*|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR|ANKS1A_uc010jvq.1_RNA|ANKS1A_uc010jvr.1_5'Flank	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	97	ANK 1.					cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						GGATGTGGTCGAGGTTCTTCT	0.493													5	68	---	---	---	---	PASS	T	34937797	T	T	34937797	4	4	178	1	0	0	0	0	0	1	0	0	688	1059	37	2	299	2	ANKS1A	6	34937797	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1691844	34937797	136177270	371	63324										
TCP11	6954	broad.mit.edu	37	chr6	35088735	35088735	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttagcccgttcatactgaatGgaatgttcctgcaggtgggg	13	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:35088735G>T	uc003okd.2	-	6	886	c.705C>A	c.(703-705)TCC>TCA	p.S235S	TCP11_uc003ojz.1_Silent_p.S160S|TCP11_uc003oka.2_Silent_p.S160S|TCP11_uc003okb.2_Silent_p.S159S|TCP11_uc003okc.2_Silent_p.S159S|TCP11_uc011dsu.1_Silent_p.S217S|TCP11_uc011dsv.1_Silent_p.S184S|TCP11_uc011dsw.1_Silent_p.S189S	NM_001093728	NP_001087197	Q8WWU5	TCP11_HUMAN	t-complex 11 isoform 1	222					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(3)|skin(2)	5						CATACTGAATGGAATGTTCCT	0.493													8	171	---	---	---	---	PASS	T	35088735	T	T	35088735	2	4	178	1	0	0	0	0	0	0	0	1	15710	1335	47	3		3	TCP11	6	35088735	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	150938	35088735	136026332	372	63325										
DNAH8	1769	broad.mit.edu	37	chr6	38819390	38819390	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgtttccaagattcttcttTgtatctgatccagttctcct	5	11	4	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:38819390T>C	uc003ooe.1	+	37	5355	c.4755T>C	c.(4753-4755)TTT>TTC	p.F1585F		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GATTCTTCTTTGTATCTGATC	0.363													10	47	---	---	---	---	PASS	C	38819390	C	C	38819390	2	2	178	1	0	0	0	0	0	0	0	1	4607	1809	63	5		5	DNAH8	6	38819390	Silent	SNP	T	TCGA-85-6561-01A-11D-1817-08	3730655	38819390	132295677	373	63326										
DNAH8	1769	broad.mit.edu	37	chr6	38851097	38851097	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actattatcctatgattgcaGgctgttttgctcacaggaga	9	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:38851097G>T	uc003ooe.1	+	53	7951	c.7351_splice	c.e53-1	p.A2451_splice		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TATGATTGCAGGCTGTTTTGC	0.333													25	97	---	---	---	---	PASS	T	38851097	T	T	38851097	5	4	178	1	0	0	0	0	0	0	1	0	4607	1014	35	3	7552	3	DNAH8	6	38851097	Splice_Site	SNP	G	TCGA-85-6561-01A-11D-1817-08	31707	38851097	132263970	374	63327										
SPATS1	221409	broad.mit.edu	37	chr6	44328258	44328258	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaaatgtcgttgcctgaagtCcaaaaggataaatatcctga	9	7	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:44328258C>A	uc003oxk.2	+	3	710	c.363C>A	c.(361-363)GTC>GTA	p.V121V	SPATS1_uc003oxg.2_RNA|SPATS1_uc010jzb.2_Silent_p.V6V	NM_145026	NP_659463	Q496A3	SPAS1_HUMAN	spermatogenesis associated, serine-rich 1	121										skin(1)	1	all_lung(25;0.00469)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TGCCTGAAGTCCAAAAGGATA	0.468													21	68	---	---	---	---	PASS	A	44328258	A	A	44328258	2	1	178	1	0	0	0	0	0	0	0	1	15017	842	30	2		2	SPATS1	6	44328258	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	5477161	44328258	126786809	375	63328										
PLA2G7	7941	broad.mit.edu	37	chr6	46672348	46672348	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtaacatgatgtgttgattGgttgtgttaatgttggtccc	12	4	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:46672348G>T	uc010jzf.2	-	12	1544	c.1275C>A	c.(1273-1275)ACC>ACA	p.T425T		NM_005084	NP_005075	Q13093	PAFA_HUMAN	phospholipase A2, group VII	425					inflammatory response|lipid catabolic process	extracellular space	1-alkyl-2-acetylglycerophosphocholine esterase activity|phospholipid binding				0			Lung(136;0.192)			TGTGTTGATTGGTTGTGTTAA	0.308													7	86	---	---	---	---	PASS	T	46672348	T	T	46672348	2	4	178	1	0	0	0	0	0	0	0	1	12009	1335	47	3		3	PLA2G7	6	46672348	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2344090	46672348	124442719	376	63329										
MUT	4594	broad.mit.edu	37	chr6	49407971	49407971	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caagatcagcaaatcctgtaGcaataacttttgctcctctg	6	11	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:49407971G>T	uc003ozg.3	-	11	2159	c.1904C>A	c.(1903-1905)GCT>GAT	p.A635D		NM_000255	NP_000246	P22033	MUTA_HUMAN	methylmalonyl Coenzyme A mutase precursor	635	B12-binding.				fatty acid beta-oxidation	mitochondrial matrix	cobalamin binding|metal ion binding|methylmalonyl-CoA mutase activity				0	Lung NSC(77;0.0376)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AAATCCTGTAGCAATAACTTT	0.418													6	100	---	---	---	---	PASS	T	49407971	T	T	49407971	3	4	178	1	0	0	0	0	1	0	0	0	9991	971	34	3	360	3	MUT	6	49407971	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2735623	49407971	121707096	377	63330										
CRISP3	10321	broad.mit.edu	37	chr6	49700998	49700998	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caacgaggtatgaagagtacCaaacaacctataaaccaata	6	9	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:49700998C>A	uc003ozs.2	-	6	446	c.431G>T	c.(430-432)TGG>TTG	p.W144L		NM_006061	NP_006052	P54108	CRIS3_HUMAN	cysteine-rich secretory protein 3 precursor	144					innate immune response	proteinaceous extracellular matrix|specific granule				skin(2)	2	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			TGAAGAGTACCAAACAACCTA	0.338													8	105	---	---	---	---	PASS	A	49700998	A	A	49700998	3	1	178	1	0	0	0	0	1	0	0	0	3881	595	21	3	318	3	CRISP3	6	49700998	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	293027	49700998	121414069	378	63331										
PKHD1	5314	broad.mit.edu	37	chr6	51503701	51503701	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtttgacccagagatcaagaCtgccaagttgtagaagctaa	10	8	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:51503701C>A	uc003pah.1	-	64	11728	c.11452G>T	c.(11452-11454)GTC>TTC	p.V3818F		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3818	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GAGATCAAGACTGCCAAGTTG	0.343													8	192	---	---	---	---	PASS	A	51503701	A	A	51503701	3	1	178	1	0	0	0	0	1	0	0	0	11971	565	20	3	788	3	PKHD1	6	51503701	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1802703	51503701	119611366	379	63332										
PKHD1	5314	broad.mit.edu	37	chr6	51732720	51732720	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caggcactgccatggacaacCcgaccaaagcttgaattgac	9	13	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:51732720C>A	uc003pah.1	-	48	7950	c.7674G>T	c.(7672-7674)CGG>CGT	p.R2558R	PKHD1_uc010jzn.1_Silent_p.R541R|PKHD1_uc003pai.2_Silent_p.R2558R	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2558	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CATGGACAACCCGACCAAAGC	0.433													7	28	---	---	---	---	PASS	A	51732720	A	A	51732720	2	1	178	1	0	0	0	0	0	0	0	1	11971	610	22	3		3	PKHD1	6	51732720	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	229019	51732720	119382347	380	63333										
EFHC1	114327	broad.mit.edu	37	chr6	52303306	52303306	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atgaccggggtgaccattacCattggaaagacctaaatcga	10	9	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:52303306C>A	uc003pap.3	+	3	705	c.490C>A	c.(490-492)CAT>AAT	p.H164N	EFHC1_uc011dwv.1_Missense_Mutation_p.H73N|EFHC1_uc011dww.1_Missense_Mutation_p.H145N	NM_018100	NP_060570	Q5JVL4	EFHC1_HUMAN	EF-hand domain (C-terminal) containing 1	164	DM10 1.					axoneme|neuronal cell body	calcium ion binding|protein C-terminus binding			ovary(2)|skin(1)	3	Lung NSC(77;0.109)					TGACCATTACCATTGGAAAGA	0.408													7	78	---	---	---	---	PASS	A	52303306	A	A	52303306	3	1	178	1	0	0	0	0	1	0	0	0	4946	594	21	3	510	3	EFHC1	6	52303306	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	570586	52303306	118811761	381	63334										
ZNF451	26036	broad.mit.edu	37	chr6	56997877	56997877	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attaattgtggaacaaaaagTtcattccgaagaggaggcca	10	6	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:56997877T>G	uc003pdm.1	+	6	686	c.462T>G	c.(460-462)AGT>AGG	p.S154R	ZNF451_uc003pdl.2_Missense_Mutation_p.S154R|ZNF451_uc003pdn.1_Missense_Mutation_p.S154R|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Missense_Mutation_p.S154R	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	154					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			GAACAAAAAGTTCATTCCGAA	0.398													15	54	---	---	---	---	PASS	G	56997877	G	G	56997877	3	3	178	1	0	0	0	0	1	0	0	0	17919	1722	60	5	484	5	ZNF451	6	56997877	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	4694571	56997877	114117190	382	63335										
LGSN	51557	broad.mit.edu	37	chr6	63990650	63990650	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgccaaattcaggcaggaaaGagatttccatctgaccaggc	10	10	2	2	rs150005648		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:63990650G>C	uc003peh.2	-	4	840	c.806C>G	c.(805-807)TCT>TGT	p.S269C	LGSN_uc003pei.2_Intron	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	269					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	AGGCAGGAAAGAGATTTCCAT	0.453													7	30	---	---	---	---	PASS	C	63990650	C	C	63990650	3	2	178	1	0	0	0	0	1	0	0	0	8759	942	33	2	727	2	LGSN	6	63990650	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6992773	63990650	107124417	383	63336										
COL19A1	1310	broad.mit.edu	37	chr6	70894801	70894801	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggagacagaggccccaaaggAgaacgtgtatgtatattact	12	7	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:70894801A>G	uc003pfc.1	+	46	2967	c.2850A>G	c.(2848-2850)GGA>GGG	p.G950G		NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	950	Triple-helical region 5 (COL5).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						GCCCCAAAGGAGAACGTGTAT	0.403													3	36	---	---	---	---	PASS	G	70894801	G	G	70894801	2	3	178	1	0	0	0	0	0	0	0	1	3676	291	11	5		5	COL19A1	6	70894801	Silent	SNP	A	TCGA-85-6561-01A-11D-1817-08	6904151	70894801	100220266	384	63337										
FILIP1	27145	broad.mit.edu	37	chr6	76022793	76022793	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caaagtcgcagtgctgttctCgtggtctggtgtcactcgaa	12	10	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:76022793C>A	uc003pia.2	-	5	3128	c.2755G>T	c.(2755-2757)GAG>TAG	p.E919*	FILIP1_uc003phy.1_Nonsense_Mutation_p.E919*|FILIP1_uc003phz.2_Nonsense_Mutation_p.E820*|FILIP1_uc010kbe.2_Nonsense_Mutation_p.E922*|FILIP1_uc003pib.1_Nonsense_Mutation_p.E671*	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	919										skin(3)|ovary(1)	4						GTGCTGTTCTCGTGGTCTGGT	0.498													5	77	---	---	---	---	PASS	A	76022793	A	A	76022793	4	1	178	1	0	0	0	0	0	1	0	0	5894	893	31	2	894	2	FILIP1	6	76022793	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5127992	76022793	95092274	385	63338										
IMPG1	3617	broad.mit.edu	37	chr6	76660389	76660389	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actgaagaacactaccagctCtcggcccttgggggcaatgg	12	12	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:76660389C>G	uc003pik.1	-	13	1844	c.1714G>C	c.(1714-1716)GAG>CAG	p.E572Q		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	572	SEA 2.				visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				ACTACCAGCTCTCGGCCCTTG	0.483													12	36	---	---	---	---	PASS	G	76660389	G	G	76660389	3	3	178	1	0	0	0	0	1	0	0	0	7728	922	32	2	699	2	IMPG1	6	76660389	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	637596	76660389	94454678	386	63339										
PHIP	55023	broad.mit.edu	37	chr6	79650528	79650528	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctgcctttgctcctcttcaGagtcatcctcattatagaaa	6	12	4	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:79650528G>T	uc003pir.2	-	40	5574	c.5348C>A	c.(5347-5349)TCT>TAT	p.S1783Y	PHIP_uc003piq.2_Missense_Mutation_p.S807Y|PHIP_uc011dyp.1_Missense_Mutation_p.S1782Y|IRAK1BP1_uc010kbg.1_Intron|PHIP_uc003pio.3_Missense_Mutation_p.S669Y	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1783					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)		CTCCTCTTCAGAGTCATCCTC	0.423													13	500	---	---	---	---	PASS	T	79650528	T	T	79650528	3	4	178	1	0	0	0	0	1	0	0	0	11842	942	33	2	121	2	PHIP	6	79650528	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2990139	79650528	91464539	387	63340										
UBE2CBP	90025	broad.mit.edu	37	chr6	83754351	83754351	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agagctccccagttctcactCggcagtgggagcaccctgag	12	14	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:83754351C>A	uc003pjp.2	-	4	501	c.393G>T	c.(391-393)CCG>CCT	p.P131P	UBE2CBP_uc011dyx.1_RNA|UBE2CBP_uc003pjr.2_Silent_p.P99P	NM_198920	NP_944602	Q7Z6J8	UB2CB_HUMAN	ubiquitin-conjugating enzyme E2C binding	131						cytoplasm	ligase activity			ovary(1)	1		all_cancers(76;0.000374)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0548)		BRCA - Breast invasive adenocarcinoma(397;0.0944)		AGTTCTCACTCGGCAGTGGGA	0.408													5	99	---	---	---	---	PASS	A	83754351	A	A	83754351	2	1	178	1	0	0	0	0	0	0	0	1	16844	871	31	2		2	UBE2CBP	6	83754351	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	4103823	83754351	87360716	388	63341										
NT5E	4907	broad.mit.edu	37	chr6	86201765	86201765	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaattagatgttctttgcacCaagtgtcgagtgcccagtta	9	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:86201765C>A	uc003pko.3	+	8	1987	c.1431C>A	c.(1429-1431)ACC>ACA	p.T477T	NT5E_uc010kbr.2_Silent_p.T427T	NM_002526	NP_002517	P21589	5NTD_HUMAN	5' nucleotidase, ecto precursor	477					DNA metabolic process|purine base metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	5'-nucleotidase activity|nucleotide binding			ovary(3)|central_nervous_system(1)	4		all_cancers(76;0.000215)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0427)		BRCA - Breast invasive adenocarcinoma(108;0.0417)	Pentoxifylline(DB00806)	TTCTTTGCACCAAGTGTCGAG	0.443													6	122	---	---	---	---	PASS	A	86201765	A	A	86201765	2	1	178	1	0	0	0	0	0	0	0	1	10693	581	21	3		3	NT5E	6	86201765	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	2447414	86201765	84913302	389	63342										
MDN1	23195	broad.mit.edu	37	chr6	90371226	90371226	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttcaagtcatctggaaggtcCaaagcctcgggttctggcac	11	11	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:90371226C>A	uc003pnn.1	-	88	14753	c.14637G>T	c.(14635-14637)TTG>TTT	p.L4879F		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4879					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)		CTGGAAGGTCCAAAGCCTCGG	0.478													7	93	---	---	---	---	PASS	A	90371226	A	A	90371226	3	1	178	1	0	0	0	0	1	0	0	0	9415	593	21	3	2213	3	MDN1	6	90371226	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4169461	90371226	80743841	390	63343										
POPDC3	64208	broad.mit.edu	37	chr6	105609377	105609377	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagtgttccttttccaaagtAaccacttcagagctcaaagc	6	12	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:105609377A>T	uc003prb.2	-	2	810	c.408T>A	c.(406-408)GTT>GTA	p.V136V	uc003pqz.2_Intron|POPDC3_uc003pra.2_Intron	NM_022361	NP_071756	Q9HBV1	POPD3_HUMAN	popeye protein 3	136						integral to membrane				skin(3)|ovary(2)	5		all_cancers(87;4.87e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0157)|Colorectal(196;0.202)|Lung NSC(302;0.238)				TTTCCAAAGTAACCACTTCAG	0.463													13	70	---	---	---	---	PASS	T	105609377	T	T	105609377	2	4	178	1	0	0	0	0	0	0	0	1	12256	349	13	5		5	POPDC3	6	105609377	Silent	SNP	A	TCGA-85-6561-01A-11D-1817-08	15238151	105609377	65505690	391	63344										
SCML4	256380	broad.mit.edu	37	chr6	108067950	108067950	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggagaagaccagcttctgctGgtgggcgcagtcgatgcagg	17	9	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:108067950G>C	uc010kdf.2	-	4	681	c.430C>G	c.(430-432)CAG>GAG	p.Q144E	SCML4_uc003prz.3_Missense_Mutation_p.Q86E|SCML4_uc011eam.1_Missense_Mutation_p.Q144E|SCML4_uc003psa.3_Missense_Mutation_p.Q115E	NM_198081	NP_932347	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4	144					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		all_cancers(87;3.26e-06)|Acute lymphoblastic leukemia(125;3.08e-08)|all_hematologic(75;1.15e-06)|all_epithelial(87;0.00142)|Colorectal(196;0.0316)		BRCA - Breast invasive adenocarcinoma(108;0.01)|Epithelial(106;0.0509)|all cancers(137;0.0586)|OV - Ovarian serous cystadenocarcinoma(136;0.0758)		AGCTTCTGCTGGTGGGCGCAG	0.632													9	41	---	---	---	---	PASS	C	108067950	C	C	108067950	3	2	178	1	0	0	0	0	1	0	0	0	13911	1357	47	4	834	4	SCML4	6	108067950	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2458573	108067950	63047117	392	63345										
REV3L	5980	broad.mit.edu	37	chr6	111632452	111632452	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caaatagcagctttagagaaCgctcaagtatcttaaaacaa	6	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:111632452C>A	uc003puy.3	-	29	8938	c.8615G>T	c.(8614-8616)CGT>CTT	p.R2872L	REV3L_uc003pux.3_Missense_Mutation_p.R2794L|REV3L_uc003puz.3_Missense_Mutation_p.R2794L|REV3L_uc003pva.1_RNA|REV3L_uc003puw.3_5'Flank	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2872					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		CTTTAGAGAACGCTCAAGTAT	0.328								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					7	169	---	---	---	---	PASS	A	111632452	A	A	111632452	3	1	178	1	0	0	0	0	1	0	0	0	13240	536	19	1	793	1	REV3L	6	111632452	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3564502	111632452	59482615	393	63346										
LAMA4	3910	broad.mit.edu	37	chr6	112471822	112471822	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctagtgtcagccactgcttcAtcactgcctgtggaagagca	10	12	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:112471822A>T	uc003pvu.2	-	17	2373	c.2064T>A	c.(2062-2064)GAT>GAA	p.D688E	LAMA4_uc003pvv.2_Missense_Mutation_p.D681E|LAMA4_uc003pvt.2_Missense_Mutation_p.D681E	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	688	Domain II and I.|Potential.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CCACTGCTTCATCACTGCCTG	0.488													9	73	---	---	---	---	PASS	T	112471822	T	T	112471822	3	4	178	1	0	0	0	0	1	0	0	0	8608	214	8	5	3499	5	LAMA4	6	112471822	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	839370	112471822	58643245	394	63347										
NT5DC1	221294	broad.mit.edu	37	chr6	116544293	116544293	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagagacctttccggacactCggtaagttacatttggtttc	9	10	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:116544293C>A	uc003pwj.2	+	8	896	c.801C>A	c.(799-801)CTC>CTA	p.L267L	NT5DC1_uc003pwk.2_Silent_p.L259L|NT5DC1_uc003pwl.2_Silent_p.L217L	NM_152729	NP_689942	Q5TFE4	NT5D1_HUMAN	5'-nucleotidase, cytosolic II-like 1 protein	267							hydrolase activity|metal ion binding				0		all_cancers(87;0.00367)|all_epithelial(87;0.00449)|Colorectal(196;0.0469)		all cancers(137;0.0327)|OV - Ovarian serous cystadenocarcinoma(136;0.0445)|GBM - Glioblastoma multiforme(226;0.0719)|Epithelial(106;0.112)		TCCGGACACTCGGTAAGTTAC	0.408													5	87	---	---	---	---	PASS	A	116544293	A	A	116544293	2	1	178	1	0	0	0	0	0	0	0	1	10690	898	31	2		2	NT5DC1	6	116544293	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	4072471	116544293	54570774	395	63348										
ROS1	6098	broad.mit.edu	37	chr6	117638307	117638307	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atggatcccaactgcctaccGttgccatccgggctttacgc	9	15	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:117638307G>T	uc003pxp.1	-	38	6333	c.6134C>A	c.(6133-6135)ACG>AAG	p.T2045K	ROS1_uc011ebi.1_RNA	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	2045	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		ACTGCCTACCGTTGCCATCCG	0.408			T	GOPC|ROS1	glioblastoma|NSCLC								5	118	---	---	---	---	PASS	T	117638307	T	T	117638307	3	4	178	1	0	0	0	0	1	0	0	0	13531	1159	40	1	933	1	ROS1	6	117638307	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1094014	117638307	53476760	396	63349										
ASF1A	25842	broad.mit.edu	37	chr6	119222018	119222018	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgttttagtgggtcctgttcCcgcaggaaggcatatgtttg	13	7	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:119222018C>A	uc011ebn.1	+	2	534	c.197C>A	c.(196-198)CCC>CAC	p.P66H		NM_014034	NP_054753	Q9Y294	ASF1A_HUMAN	ASF1 anti-silencing function 1 homolog A	66	Interaction with histone H3, CHAF1B, and HIRA.				chromatin modification|DNA repair|loss of chromatin silencing|nucleosome assembly|transcription, DNA-dependent	chromatin remodeling complex	chromatin binding|histone binding				0		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0633)|OV - Ovarian serous cystadenocarcinoma(136;0.188)		GGTCCTGTTCCCGCAGGAAGG	0.343													8	170	---	---	---	---	PASS	A	119222018	A	A	119222018	3	1	178	1	0	0	0	0	1	0	0	0	1037	623	22	3	90	3	ASF1A	6	119222018	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1583711	119222018	51893049	397	63350										
HSF2	3298	broad.mit.edu	37	chr6	122743330	122743330	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actgaaggtttaaagccaagGgagaggatttcagatgacat	12	5	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:122743330G>T	uc003pyu.2	+	8	904	c.717G>T	c.(715-717)AGG>AGT	p.R239S	HSF2_uc003pyv.2_Missense_Mutation_p.R239S	NM_004506	NP_004497	Q03933	HSF2_HUMAN	heat shock transcription factor 2 isoform a	239					response to stress|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0				OV - Ovarian serous cystadenocarcinoma(136;0.00371)|all cancers(137;0.0299)|GBM - Glioblastoma multiforme(226;0.0586)		TAAAGCCAAGGGAGAGGATTT	0.313													8	117	---	---	---	---	PASS	T	122743330	T	T	122743330	3	4	178	1	0	0	0	0	1	0	0	0	7396	1223	43	3	747	3	HSF2	6	122743330	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3521312	122743330	48371737	398	63351										
ARHGAP18	93663	broad.mit.edu	37	chr6	129959562	129959562	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttcttttgattctctctgttGagcaaatatgtctctgacgt	7	8	4	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:129959562G>T	uc003qbr.2	-	3	618	c.529C>A	c.(529-531)CAA>AAA	p.Q177K	ARHGAP18_uc011ebw.1_Missense_Mutation_p.Q177K	NM_033515	NP_277050	Q8N392	RHG18_HUMAN	Rho GTPase activating protein 18	177					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			ovary(2)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(136;0.0621)|GBM - Glioblastoma multiforme(226;0.0638)|all cancers(137;0.074)		TCTCTCTGTTGAGCAAATATG	0.378													8	143	---	---	---	---	PASS	T	129959562	T	T	129959562	3	4	178	1	0	0	0	0	1	0	0	0	868	1299	45	2	1514	2	ARHGAP18	6	129959562	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	7216232	129959562	41155505	399	63352										
ENPP1	5167	broad.mit.edu	37	chr6	132171156	132171156	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttgcaaaggtcgctgtttcGagagaacatttgggaactgt	13	6	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:132171156G>T	uc011ecf.1	+	3	360	c.340G>T	c.(340-342)GAG>TAG	p.E114*		NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	114	SMB 1.|Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	TCGCTGTTTCGAGAGAACATT	0.383													7	91	---	---	---	---	PASS	T	132171156	T	T	132171156	4	4	178	1	0	0	0	0	0	1	0	0	5129	1059	37	2	350	2	ENPP1	6	132171156	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2211594	132171156	38943911	400	63353										
ENPP1	5167	broad.mit.edu	37	chr6	132203589	132203589	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tataaaaataacaccaaagtGagttacgggttcctctcccc	6	11	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:132203589G>T	uc011ecf.1	+	21	2225	c.2205G>T	c.(2203-2205)GTG>GTT	p.V735V		NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	735	Nuclease.|Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	ACACCAAAGTGAGTTACGGGT	0.383													7	115	---	---	---	---	PASS	T	132203589	T	T	132203589	2	4	178	1	0	0	0	0	0	0	0	1	5129	1277	45	2		2	ENPP1	6	132203589	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	32433	132203589	38911478	401	63354										
BCLAF1	9774	broad.mit.edu	37	chr6	136597355	136597355	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaaactttggacttgtacttGagtccttcctcctcagtatt	7	10	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:136597355G>T	uc003qgx.1	-	5	1561	c.1308C>A	c.(1306-1308)CTC>CTA	p.L436L	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Silent_p.L434L|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.L434L	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	436					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		ACTTGTACTTGAGTCCTTCCT	0.393													8	178	---	---	---	---	PASS	T	136597355	T	T	136597355	2	4	178	1	0	0	0	0	0	0	0	1	1383	1277	45	2		2	BCLAF1	6	136597355	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	4393766	136597355	34517712	402	63355										
BCLAF1	9774	broad.mit.edu	37	chr6	136597415	136597415	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaacttttaccctgatctgcGaggactgacttcctgaactg	8	11	1	3	rs144315600		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:136597415G>T	uc003qgx.1	-	5	1501	c.1248C>A	c.(1246-1248)CTC>CTA	p.L416L	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Silent_p.L414L|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.L414L	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	416					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CCTGATCTGCGAGGACTGACT	0.418													8	250	---	---	---	---	PASS	T	136597415	T	T	136597415	2	4	178	1	0	0	0	0	0	0	0	1	1383	1045	37	2		2	BCLAF1	6	136597415	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	60	136597415	34517652	403	63356										
HEBP2	23593	broad.mit.edu	37	chr6	138727204	138727204	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taccatttccctgtatattcCctctgaacagcaatttgatc	4	12	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:138727204C>A	uc003qhw.1	+	3	632	c.335C>A	c.(334-336)CCC>CAC	p.P112H		NM_014320	NP_055135	Q9Y5Z4	HEBP2_HUMAN	heme binding protein 2	112						mitochondrion					0	Breast(32;0.0933)			GBM - Glioblastoma multiforme(68;0.000732)|OV - Ovarian serous cystadenocarcinoma(155;0.00171)		CTGTATATTCCCTCTGAACAG	0.428													8	95	---	---	---	---	PASS	A	138727204	A	A	138727204	3	1	178	1	0	0	0	0	1	0	0	0	7037	623	22	3	345	3	HEBP2	6	138727204	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2129789	138727204	32387863	404	63357										
SASH1	23328	broad.mit.edu	37	chr6	148865881	148865881	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcctgtgcccggggagtggAtctagaaacgctcactgaaa	12	11	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:148865881A>T	uc003qme.1	+	18	3750	c.3275A>T	c.(3274-3276)GAT>GTT	p.D1092V	SASH1_uc011eeb.1_Missense_Mutation_p.D853V|SASH1_uc003qmf.1_Missense_Mutation_p.D502V	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	1092							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CGGGGAGTGGATCTAGAAACG	0.587													4	6	---	---	---	---	PASS	T	148865881	T	T	148865881	3	4	178	1	0	0	0	0	1	0	0	0	13848	333	12	5	3345	5	SASH1	6	148865881	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	10138677	148865881	22249186	405	63358										
KATNA1	11104	broad.mit.edu	37	chr6	149959644	149959644	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcccagcaatgcatattcacGagccaattttacattctcac	4	13	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:149959644G>T	uc003qmr.1	-	1	85	c.40C>A	c.(40-42)CGT>AGT	p.R14S	KATNA1_uc003qms.2_Missense_Mutation_p.R14S|KATNA1_uc003qmt.2_Missense_Mutation_p.R14S|KATNA1_uc011eed.1_Missense_Mutation_p.R14S	NM_007044	NP_008975	O75449	KTNA1_HUMAN	katanin p60 subunit A 1	14	Interaction with microtubule.|Interaction with KATNB1.				cell division|interphase of mitotic cell cycle|mitosis	microtubule|microtubule organizing center|spindle pole	ATP binding|microtubule binding|microtubule-severing ATPase activity|protein heterodimerization activity			skin(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;2.95e-12)|GBM - Glioblastoma multiforme(68;0.173)		GCATATTCACGAGCCAATTTT	0.348													8	167	---	---	---	---	PASS	T	149959644	T	T	149959644	3	4	178	1	0	0	0	0	1	0	0	0	7984	1058	37	2	1475	2	KATNA1	6	149959644	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1093763	149959644	21155423	406	63359										
ULBP3	79465	broad.mit.edu	37	chr6	150385786	150385786	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agaggatgatgaggaagctcCagggactgagggtggtggct	19	5	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:150385786C>A	uc003qns.3	-	4	692	c.692G>T	c.(691-693)TGG>TTG	p.W231L	ULBP3_uc011eej.1_Missense_Mutation_p.W106L	NM_024518	NP_078794	Q9BZM4	N2DL3_HUMAN	UL16 binding protein 3 precursor	231					antigen processing and presentation|immune response|natural killer cell activation	anchored to membrane|MHC class I protein complex	MHC class I receptor activity				0		Ovarian(120;0.12)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.45e-12)		GAGGAAGCTCCAGGGACTGAG	0.532													6	60	---	---	---	---	PASS	A	150385786	A	A	150385786	3	1	178	1	0	0	0	0	1	0	0	0	16971	595	21	3	45	3	ULBP3	6	150385786	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	426142	150385786	20729281	407	63360										
C6orf97	80129	broad.mit.edu	37	chr6	151894542	151894542	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atcgcagccctccttaggggCagattgagcatgactgggtc	13	11	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:151894542C>A	uc003qol.2	+	6	1097	c.1008C>A	c.(1006-1008)GGC>GGA	p.G336G		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	336											0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		TCCTTAGGGGCAGATTGAGCA	0.522													14	47	---	---	---	---	PASS	A	151894542	A	A	151894542	2	1	178	1	0	0	0	0	0	0	0	1	2374	697	25	3		3	C6orf97	6	151894542	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1508756	151894542	19220525	408	63361										
OPRM1	4988	broad.mit.edu	37	chr6	154412160	154412160	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgctgaagatctgtgttttCatcttcgccttcattatgcc	7	11	4	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:154412160C>A	uc003qpr.2	+	3	954	c.717C>A	c.(715-717)TTC>TTA	p.F239L	OPRM1_uc011efc.1_Missense_Mutation_p.F158L|OPRM1_uc011efd.1_Missense_Mutation_p.F139L|OPRM1_uc011efe.1_Missense_Mutation_p.F332L|OPRM1_uc003qpn.2_Missense_Mutation_p.F239L|OPRM1_uc003qpo.1_Missense_Mutation_p.F239L|OPRM1_uc011eff.1_Missense_Mutation_p.F239L|OPRM1_uc011efg.1_Missense_Mutation_p.F239L|OPRM1_uc011efh.1_Missense_Mutation_p.F239L|OPRM1_uc003qpq.1_Missense_Mutation_p.F239L|OPRM1_uc003qpt.1_Missense_Mutation_p.F239L|OPRM1_uc011efi.1_Missense_Mutation_p.F239L|OPRM1_uc003qpp.2_RNA|OPRM1_uc003qps.2_RNA|OPRM1_uc010kjg.2_Missense_Mutation_p.F139L|OPRM1_uc003qpu.2_Missense_Mutation_p.F139L	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	239	Helical; Name=5; (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	TCTGTGTTTTCATCTTCGCCT	0.433													7	96	---	---	---	---	PASS	A	154412160	A	A	154412160	3	1	178	1	0	0	0	0	1	0	0	0	10887	825	29	2	1061	2	OPRM1	6	154412160	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2517618	154412160	16702907	409	63362										
LPA	4018	broad.mit.edu	37	chr6	161012070	161012070	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcccatctgacattgggatcCatggtataacaccaaggact	8	11	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:161012070C>A	uc003qtl.2	-	24	3813	c.3693G>T	c.(3691-3693)ATG>ATT	p.M1231I		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3739	Kringle 33.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	CATTGGGATCCATGGTATAAC	0.468													5	32	---	---	---	---	PASS	A	161012070	A	A	161012070	3	1	178	1	0	0	0	0	1	0	0	0	8903	594	21	3	2497	3	LPA	6	161012070	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	6599910	161012070	10102997	410	63363										
QKI	9444	broad.mit.edu	37	chr6	163836265	163836265	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cgaaggagaagccgaagcccAccccagattacctgatgcag	11	13	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:163836265A>T	uc003qui.2	+	1	591	c.40A>T	c.(40-42)ACC>TCC	p.T14S	QKI_uc003que.2_Missense_Mutation_p.T14S|QKI_uc003quf.2_Missense_Mutation_p.T14S|QKI_uc003qug.2_Missense_Mutation_p.T14S|QKI_uc003quh.2_Missense_Mutation_p.T14S|QKI_uc003quj.2_Missense_Mutation_p.T14S	NM_006775	NP_006766	Q96PU8	QKI_HUMAN	quaking homolog, KH domain RNA binding isoform	14					mRNA processing|mRNA transport|regulation of translation|RNA splicing	cytoplasm|nucleus|plasma membrane	RNA binding|SH3 domain binding			large_intestine(1)|ovary(1)	2		Breast(66;5e-05)|Prostate(117;0.0235)|all_neural(5;0.0416)|Ovarian(120;0.0448)|Glioma(2;0.203)		all cancers(1;4.4e-46)|OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|GBM - Glioblastoma multiforme(1;2.94e-19)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|Kidney(3;0.000199)|KIRC - Kidney renal clear cell carcinoma(3;0.000234)		GCCGAAGCCCACCCCAGATTA	0.512													6	33	---	---	---	---	PASS	T	163836265	T	T	163836265	3	4	178	1	0	0	0	0	1	0	0	0	12873	159	6	5	42	5	QKI	6	163836265	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	2824195	163836265	7278802	411	63364										
FAM120B	84498	broad.mit.edu	37	chr6	170627566	170627566	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tacaggccctgaatccaggcGagaagttcccgtgtatacag	11	11	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr6:170627566G>T	uc003qxp.2	+	2	1196	c.1088G>T	c.(1087-1089)CGA>CTA	p.R363L	FAM120B_uc003qxo.1_Missense_Mutation_p.R363L|FAM120B_uc011ehd.1_Intron	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	363					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		GAATCCAGGCGAGAAGTTCCC	0.522													6	101	---	---	---	---	PASS	T	170627566	T	T	170627566	3	4	178	1	0	0	0	0	1	0	0	0	5417	1058	37	2	1090	2	FAM120B	6	170627566	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6791301	170627566	487501	412	63365										
TNRC18	84629	broad.mit.edu	37	chr7	5391687	5391687	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggggccttgggcgggccactCgtccttcaggaattcttcgt	14	12	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:5391687C>A	uc003soi.3	-	17	5582	c.5233G>T	c.(5233-5235)GAG>TAG	p.E1745*	TNRC18_uc003soj.2_Nonsense_Mutation_p.E127*	NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1745							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GCGGGCCACTCGTCCTTCAGG	0.537													4	20	---	---	---	---	PASS	A	5391687	A	A	5391687	4	1	178	1	0	0	0	0	0	1	0	0	16336	893	31	2	3729	2	TNRC18	7	5391687	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08		5391687	153746976	413	63366										
COL28A1	340267	broad.mit.edu	37	chr7	7572456	7572456	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtccggatactgtttgactCgtaaacgctgacaaaagcag	10	9	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:7572456C>A	uc003src.1	-	2	168	c.51G>T	c.(49-51)ACG>ACT	p.T17T	COL28A1_uc011jxe.1_5'UTR	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	17					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		CTGTTTGACTCGTAAACGCTG	0.338													9	205	---	---	---	---	PASS	A	7572456	A	A	7572456	2	1	178	1	0	0	0	0	0	0	0	1	3686	871	31	2		2	COL28A1	7	7572456	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	2180769	7572456	151566207	414	63367										
MIOS	54468	broad.mit.edu	37	chr7	7628158	7628158	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaagttgcagtacgtgacagAgtggcatttgcttgtaaatt	11	5	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:7628158A>G	uc003srf.2	+	8	2156	c.1848A>G	c.(1846-1848)AGA>AGG	p.R616R	MIOS_uc003srg.2_Silent_p.R151R|MIOS_uc010ktq.2_Missense_Mutation_p.E14G	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	616											0						TACGTGACAGAGTGGCATTTG	0.343													22	108	---	---	---	---	PASS	G	7628158	G	G	7628158	2	3	178	1	0	0	0	0	0	0	0	1	9589	301	11	5		5	MIOS	7	7628158	Silent	SNP	A	TCGA-85-6561-01A-11D-1817-08	55702	7628158	151510505	415	63368										
ETV1	2115	broad.mit.edu	37	chr7	13949310	13949310	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cataaaactgcctggggcccTtttcaaacatacagcctgtg	8	12	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:13949310T>C	uc011jxq.1	-	11	1626	c.887A>G	c.(886-888)AAG>AGG	p.K296R	ETV1_uc011jxn.1_Missense_Mutation_p.K256R|ETV1_uc011jxo.1_Missense_Mutation_p.K193R|ETV1_uc011jxp.1_Missense_Mutation_p.K238R|ETV1_uc003ssw.3_Missense_Mutation_p.K273R|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Missense_Mutation_p.K278R|ETV1_uc011jxs.1_Missense_Mutation_p.K278R|ETV1_uc010ktv.2_Missense_Mutation_p.R165G	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	296					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						CCTGGGGCCCTTTTCAAACAT	0.343			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								4	203	---	---	---	---	PASS	C	13949310	C	C	13949310	3	2	178	1	0	0	0	0	1	0	0	0	5277	1609	56	5	562	5	ETV1	7	13949310	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	6321152	13949310	145189353	416	63369										
TMEM195	392636	broad.mit.edu	37	chr7	15427143	15427143	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtgtggcccagaatgtagtcCatatggaaaataagtgatgg	13	5	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:15427143C>A	uc003stb.1	-	9	1015	c.845G>T	c.(844-846)TGG>TTG	p.W282L		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	282					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						GAATGTAGTCCATATGGAAAA	0.343													7	127	---	---	---	---	PASS	A	15427143	A	A	15427143	3	1	178	1	0	0	0	0	1	0	0	0	16114	595	21	3	512	3	TMEM195	7	15427143	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1477833	15427143	143711520	417	63370										
HDAC9	9734	broad.mit.edu	37	chr7	18688187	18688187	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgccccgtcacagacccctgAaccgaacccagtctgcacct	7	19	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:18688187A>G	uc003suh.2	+	10	1380	c.1339A>G	c.(1339-1341)AAC>GAC	p.N447D	HDAC9_uc003sue.2_Missense_Mutation_p.N447D|HDAC9_uc011jyd.1_Missense_Mutation_p.N447D|HDAC9_uc003sui.2_Missense_Mutation_p.N450D|HDAC9_uc003suj.2_Missense_Mutation_p.N406D|HDAC9_uc011jya.1_Missense_Mutation_p.N444D|HDAC9_uc003sua.1_Missense_Mutation_p.N425D|HDAC9_uc011jyb.1_Missense_Mutation_p.N403D|HDAC9_uc003sud.1_Missense_Mutation_p.N447D|HDAC9_uc011jyc.1_Missense_Mutation_p.N406D|HDAC9_uc003suf.1_Missense_Mutation_p.N478D|HDAC9_uc010kud.1_Missense_Mutation_p.N450D|HDAC9_uc011jye.1_Missense_Mutation_p.N419D|HDAC9_uc011jyf.1_Missense_Mutation_p.N370D|HDAC9_uc010kue.1_Missense_Mutation_p.N190D	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	447					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CAGACCCCTGAACCGAACCCA	0.512													13	44	---	---	---	---	PASS	G	18688187	G	G	18688187	3	3	178	1	0	0	0	0	1	0	0	0	7014	246	9	5	1386	5	HDAC9	7	18688187	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	3261044	18688187	140450476	418	63371										
ABCB5	340273	broad.mit.edu	37	chr7	20683155	20683155	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcaaaacatgtctactttttCgattggcctggcagttggtt	9	8	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:20683155C>A	uc010kuh.2	+	7	815	c.578C>A	c.(577-579)TCG>TAG	p.S193*		NM_001163941	NP_001157413	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						TCTACTTTTTCGATTGGCCTG	0.423													5	125	---	---	---	---	PASS	A	20683155	A	A	20683155	4	1	178	1	0	0	0	0	0	1	0	0	44	893	31	2	600	2	ABCB5	7	20683155	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1994968	20683155	138455508	419	63372										
IL6	3569	broad.mit.edu	37	chr7	22767125	22767125	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgttgcctgctgccttccctGccccagtacccccaggagaa	9	17	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:22767125G>T	uc011jyn.1	+	3	541	c.82G>T	c.(82-84)GCC>TCC	p.A28S	uc010kun.1_Intron|IL6_uc011jyo.1_Missense_Mutation_p.A28S|IL6_uc011jyp.1_Intron|IL6_uc003svj.3_Missense_Mutation_p.A28S|IL6_uc011jyq.1_Missense_Mutation_p.A82S	NM_000600	NP_000591	P05231	IL6_HUMAN	interleukin 6 precursor	28					acute-phase response|cellular response to hydrogen peroxide|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|defense response to virus|endocrine pancreas development|glucagon secretion|hepatic immune response|interleukin-6-mediated signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of chemokine biosynthetic process|negative regulation of collagen biosynthetic process|negative regulation of fat cell differentiation|negative regulation of lipid storage|neuron projection development|neutrophil apoptosis|platelet activation|positive regulation of acute inflammatory response|positive regulation of anti-apoptosis|positive regulation of B cell activation|positive regulation of chemokine production|positive regulation of immunoglobulin secretion|positive regulation of interleukin-6 production|positive regulation of osteoblast differentiation|positive regulation of peptidyl-serine phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of smooth muscle cell proliferation|positive regulation of T cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of translation|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of vascular endothelial growth factor production|response to glucocorticoid stimulus|response to peptidoglycan	extracellular space|interleukin-6 receptor complex	cytokine activity|growth factor activity|interleukin-6 receptor binding				0					Arsenic trioxide(DB01169)|Bicalutamide(DB01128)|Ginseng(DB01404)|Simvastatin(DB00641)	TGCCTTCCCTGCCCCAGTACC	0.597													7	29	---	---	---	---	PASS	T	22767125	T	T	22767125	3	4	178	1	0	0	0	0	1	0	0	0	7701	1319	46	3	88	3	IL6	7	22767125	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2083970	22767125	136371538	420	63373										
KLHL7	55975	broad.mit.edu	37	chr7	23180511	23180511	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcttcaacttgatgtcaagcGagtaacacatcttctcaacc	5	12	5	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:23180511G>T	uc003svs.3	+	5	859	c.566G>T	c.(565-567)CGA>CTA	p.R189L	KLHL7_uc003svr.3_Missense_Mutation_p.R167L|KLHL7_uc011jys.1_Missense_Mutation_p.R113L|KLHL7_uc011jyt.1_5'UTR|KLHL7_uc003svt.2_Missense_Mutation_p.R141L|KLHL7_uc011jyv.1_5'UTR	NM_001031710	NP_001026880	Q8IXQ5	KLHL7_HUMAN	kelch-like 7 isoform 1	189						Golgi apparatus|nucleolus|plasma membrane					0						GATGTCAAGCGAGTAACACAT	0.363													7	101	---	---	---	---	PASS	T	23180511	T	T	23180511	3	4	178	1	0	0	0	0	1	0	0	0	8394	1058	37	2	647	2	KLHL7	7	23180511	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	413386	23180511	135958152	421	63374										
GPNMB	10457	broad.mit.edu	37	chr7	23296619	23296619	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcataacgtcttccctgatgGgaaaccttttcctcaccacc	5	15	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:23296619G>T	uc003swc.2	+	4	637	c.476G>T	c.(475-477)GGG>GTG	p.G159V	GPNMB_uc003swa.2_Missense_Mutation_p.G159V|GPNMB_uc003swb.2_Missense_Mutation_p.G159V|GPNMB_uc011jyy.1_Intron|GPNMB_uc011jyz.1_Missense_Mutation_p.G60V	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	159	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			TTCCCTGATGGGAAACCTTTT	0.478													7	116	---	---	---	---	PASS	T	23296619	T	T	23296619	3	4	178	1	0	0	0	0	1	0	0	0	6620	1232	43	3	490	3	GPNMB	7	23296619	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	116108	23296619	135842044	422	63375										
STK31	56164	broad.mit.edu	37	chr7	23794014	23794014	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgaagggtgctttactactcCagcttctttgaatggattag	10	7	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:23794014C>A	uc003sws.3	+	10	1281	c.1214C>A	c.(1213-1215)CCA>CAA	p.P405Q	STK31_uc003swt.3_Missense_Mutation_p.P382Q|STK31_uc011jze.1_Missense_Mutation_p.P405Q|STK31_uc010kuq.2_Missense_Mutation_p.P382Q	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	405							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						TTTACTACTCCAGCTTCTTTG	0.378													11	188	---	---	---	---	PASS	A	23794014	A	A	23794014	3	1	178	1	0	0	0	0	1	0	0	0	15295	594	21	3	1252	3	STK31	7	23794014	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	497395	23794014	135344649	423	63376										
NPY	4852	broad.mit.edu	37	chr7	24329197	24329197	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagaaaatgttcccagaactCggtatgacaaggcttgtgat	10	8	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:24329197C>A	uc003sww.1	+	3	354	c.268C>A	c.(268-270)CGG>AGG	p.R90R		NM_000905	NP_000896	P01303	NPY_HUMAN	neuropeptide Y precursor	90					adult feeding behavior|calcium ion transport|cell proliferation|cellular component movement|central nervous system neuron development|cerebral cortex development|digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|neuron projection development|neuropeptide signaling pathway|positive regulation of appetite|synaptic transmission	cell|extracellular space	calcium channel regulator activity|G-protein coupled receptor activity|neuropeptide hormone activity				0						TCCCAGAACTCGGTATGACAA	0.493													5	75	---	---	---	---	PASS	A	24329197	A	A	24329197	2	1	178	1	0	0	0	0	0	0	0	1	10607	898	31	2		2	NPY	7	24329197	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	535183	24329197	134809466	424	63377										
HOXA6	3203	broad.mit.edu	37	chr7	27187272	27187272	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cgggaagggcctcagcgcgtCatagccagcctggtagaggg	17	11	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:27187272C>T	uc003syo.1	-	1	97	c.97G>A	c.(97-99)GAC>AAC	p.D33N	uc003syp.1_Intron|HOXA6_uc003syq.1_Intron	NM_024014	NP_076919	P31267	HXA6_HUMAN	homeobox A6	33						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CTCAGCGCGTCATAGCCAGCC	0.607													12	29	---	---	---	---	PASS	T	27187272	T	T	27187272	3	4	178	1	0	0	0	0	1	0	0	0	7296	826	29	2	612	2	HOXA6	7	27187272	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2858075	27187272	131951391	425	63378										
TAX1BP1	8887	broad.mit.edu	37	chr7	27868362	27868362	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggtgtgcccgatgtgcagcGagcagttccctcctgactat	12	12	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:27868362G>T	uc003szl.2	+	17	2442	c.2284G>T	c.(2284-2286)GAG>TAG	p.E762*	TAX1BP1_uc011jzo.1_Nonsense_Mutation_p.E720*|TAX1BP1_uc003szk.2_Nonsense_Mutation_p.E720*|TAX1BP1_uc011jzp.1_Nonsense_Mutation_p.E563*	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	762					anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)			GATGTGCAGCGAGCAGTTCCC	0.418													6	124	---	---	---	---	PASS	T	27868362	T	T	27868362	4	4	178	1	0	0	0	0	0	1	0	0	15591	1059	37	2	2346	2	TAX1BP1	7	27868362	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	681090	27868362	131270301	426	63379										
NEUROD6	63974	broad.mit.edu	37	chr7	31378807	31378807	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttaatttgcttctggtcctCgcattctctagaaaactttc	5	11	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:31378807C>A	uc003tch.2	-	2	429	c.76G>T	c.(76-78)GAG>TAG	p.E26*		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	26					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						TTCTGGTCCTCGCATTCTCTA	0.373													9	262	---	---	---	---	PASS	A	31378807	A	A	31378807	4	1	178	1	0	0	0	0	0	1	0	0	10351	893	31	2	941	2	NEUROD6	7	31378807	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3510445	31378807	127759856	427	63380										
NPSR1	387129	broad.mit.edu	37	chr7	34724182	34724182	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agactgagcaattgataactCtgtgggtcctctttgttttt	9	7	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:34724182C>A	uc003teg.1	+	2	294	c.166C>A	c.(166-168)CTG>ATG	p.L56M	AAA1_uc010kwo.1_Intron|AAA1_uc010kwp.1_Intron|AAA1_uc003tdz.2_Intron|AAA1_uc010kwq.1_Intron|AAA1_uc003teb.1_Intron|AAA1_uc011kaq.1_Intron|NPSR1_uc003teh.1_Missense_Mutation_p.L56M|NPSR1_uc010kwt.1_Translation_Start_Site|NPSR1_uc010kwu.1_Translation_Start_Site|NPSR1_uc010kwv.1_Missense_Mutation_p.L56M|NPSR1_uc003tei.1_Missense_Mutation_p.L56M|NPSR1_uc010kww.1_Missense_Mutation_p.L56M|NPSR1_uc011kar.1_Missense_Mutation_p.L56M	NM_207172	NP_997055	Q6W5P4	NPSR1_HUMAN	G protein-coupled receptor for asthma	56	Helical; Name=1; (Potential).					cytoplasm|integral to membrane|plasma membrane	vasopressin receptor activity			skin(3)|pancreas(1)	4					Halothane(DB01159)	ATTGATAACTCTGTGGGTCCT	0.418													9	158	---	---	---	---	PASS	A	34724182	A	A	34724182	3	1	178	1	0	0	0	0	1	0	0	0	10600	912	32	2	172	2	NPSR1	7	34724182	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3345375	34724182	124414481	428	63381										
ANLN	54443	broad.mit.edu	37	chr7	36455406	36455406	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcccctcaaaaaacaccaaGgtgtttcaaaaactcagtca	4	13	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:36455406G>T	uc003tff.2	+	8	1639	c.1435G>T	c.(1435-1437)GGT>TGT	p.G479C	ANLN_uc011kaz.1_Missense_Mutation_p.G391C|ANLN_uc003tfg.2_Missense_Mutation_p.G479C|ANLN_uc010kxe.2_Missense_Mutation_p.G479C	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	479	Interaction with F-actin.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						AAAACACCAAGGTGTTTCAAA	0.348													9	221	---	---	---	---	PASS	T	36455406	T	T	36455406	3	4	178	1	0	0	0	0	1	0	0	0	694	1000	35	3	1465	3	ANLN	7	36455406	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1731224	36455406	122683257	429	63382										
SFRP4	6424	broad.mit.edu	37	chr7	37951810	37951810	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaatttgtaatgagcgggacTtgagttcgagggatgggtga	17	3	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:37951810T>A	uc003tfo.3	-	4	1088	c.702A>T	c.(700-702)CAA>CAT	p.Q234H		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	234	NTR.				brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1						TGAGCGGGACTTGAGTTCGAG	0.483													56	74	---	---	---	---	PASS	A	37951810	A	A	37951810	3	1	178	1	0	0	0	0	1	0	0	0	14163	1606	56	5	350	5	SFRP4	7	37951810	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	1496404	37951810	121186853	430	63383										
AMPH	273	broad.mit.edu	37	chr7	38502670	38502670	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cgggaggggtgaaggctcctCaggcggtgatggtgtctttg	19	7	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:38502670C>A	uc003tgu.2	-	10	862	c.793G>T	c.(793-795)GAG>TAG	p.E265*	AMPH_uc003tgv.2_Nonsense_Mutation_p.E265*|AMPH_uc003tgt.2_Nonsense_Mutation_p.E18*	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	265					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						GAAGGCTCCTCAGGCGGTGAT	0.562													8	114	---	---	---	---	PASS	A	38502670	A	A	38502670	4	1	178	1	0	0	0	0	0	1	0	0	588	835	29	2	1342	2	AMPH	7	38502670	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	550860	38502670	120635993	431	63384										
VPS41	27072	broad.mit.edu	37	chr7	38869888	38869888	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aacacacacccatgtgctctCcactttcatccaagctaatc	3	16	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:38869888C>A	uc003tgy.2	-	5	313	c.287G>T	c.(286-288)GGA>GTA	p.G96V	VPS41_uc003tgz.2_Intron|VPS41_uc010kxn.2_Missense_Mutation_p.G96V	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	96					Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						CATGTGCTCTCCACTTTCATC	0.428													147	247	---	---	---	---	PASS	A	38869888	A	A	38869888	3	1	178	1	0	0	0	0	1	0	0	0	17207	855	30	2	2377	2	VPS41	7	38869888	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	367218	38869888	120268775	432	63385										
RALA	5898	broad.mit.edu	37	chr7	39745754	39745754	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttaatgagagaaattcgagcGagaaagatggaagacagcaa	12	4	0	5	rs147901344	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:39745754G>T	uc003thd.2	+	5	831	c.531G>T	c.(529-531)GCG>GCT	p.A177A		NM_005402	NP_005393	P11233	RALA_HUMAN	ras related v-ral simian leukemia viral oncogene	177					actin cytoskeleton reorganization|cell cycle|chemotaxis|cytokinesis|exocytosis|interspecies interaction between organisms|membrane raft localization|nerve growth factor receptor signaling pathway|positive regulation of filopodium assembly|Ras protein signal transduction|regulation of exocytosis	cell surface|cleavage furrow|cytosol|midbody|plasma membrane	Edg-2 lysophosphatidic acid receptor binding|GTP binding|GTPase activity			lung(1)|skin(1)	2						AAATTCGAGCGAGAAAGATGG	0.323													6	116	---	---	---	---	PASS	T	39745754	T	T	39745754	2	4	178	1	0	0	0	0	0	0	0	1	13010	1045	37	2		2	RALA	7	39745754	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	875866	39745754	119392909	433	63386										
NPC1L1	29881	broad.mit.edu	37	chr7	44556514	44556514	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaggatggtcaggtactgctCataaaacacattggtgatcc	11	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:44556514C>A	uc003tlb.2	-	17	3444	c.3388G>T	c.(3388-3390)GAG>TAG	p.E1130*	NPC1L1_uc003tlc.2_Nonsense_Mutation_p.E1103*|NPC1L1_uc011kbw.1_Nonsense_Mutation_p.E1057*|NPC1L1_uc003tla.2_Intron	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	1130	Cytoplasmic (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	AGGTACTGCTCATAAAACACA	0.607													4	14	---	---	---	---	PASS	A	44556514	A	A	44556514	4	1	178	1	0	0	0	0	0	1	0	0	10571	835	29	2	707	2	NPC1L1	7	44556514	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4810760	44556514	114582149	434	63387										
DDX56	54606	broad.mit.edu	37	chr7	44608558	44608558	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctccttcaatcttgcctcccGaatggcctgcttagtcactg	7	15	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:44608558G>T	uc003tlg.2	-	11	1970	c.1327C>A	c.(1327-1329)CGG>AGG	p.R443R	DDX56_uc003tle.2_RNA|DDX56_uc003tlf.2_Silent_p.R379R|DDX56_uc003tlh.2_RNA|DDX56_uc010kyg.2_Silent_p.R403R|DDX56_uc010kyh.1_RNA	NM_019082	NP_061955	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	443					rRNA processing	nucleolus	ATP binding|ATP-dependent RNA helicase activity|identical protein binding|RNA binding			upper_aerodigestive_tract(1)	1						CTTGCCTCCCGAATGGCCTGC	0.537													6	163	---	---	---	---	PASS	T	44608558	T	T	44608558	2	4	178	1	0	0	0	0	0	0	0	1	4374	1057	37	2		2	DDX56	7	44608558	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	52044	44608558	114530105	435	63388										
POM121L12	285877	broad.mit.edu	37	chr7	53103589	53103589	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gggcgcccggtgcccagcacCcacctcatcgaggtgcggcc	14	18	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:53103589C>T	uc003tpz.2	+	1	241	c.225C>T	c.(223-225)ACC>ACT	p.T75T		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	75											0						TGCCCAGCACCCACCTCATCG	0.711													11	16	---	---	---	---	PASS	T	53103589	T	T	53103589	2	4	178	1	0	0	0	0	0	0	0	1	12241	610	22	3		3	POM121L12	7	53103589	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	8495031	53103589	106035074	436	63389										
POM121L12	285877	broad.mit.edu	37	chr7	53103999	53103999	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggcaggcggaacctgcagcCccggccctctgccttcaagc	12	17	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:53103999C>A	uc003tpz.2	+	1	651	c.635C>A	c.(634-636)CCC>CAC	p.P212H		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	212											0						AACCTGCAGCCCCGGCCCTCT	0.672													9	55	---	---	---	---	PASS	A	53103999	A	A	53103999	3	1	178	1	0	0	0	0	1	0	0	0	12241	623	22	3	637	3	POM121L12	7	53103999	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	410	53103999	106034664	437	63390										
SUMF2	25870	broad.mit.edu	37	chr7	56141875	56141875	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tctttttcgcagtctgtactCtggtggcttccagtggaaaa	10	9	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:56141875C>A	uc003trv.2	+	4	436	c.405C>A	c.(403-405)CTC>CTA	p.L135L	PSPH_uc003trj.2_Intron|SUMF2_uc011kcv.1_RNA|SUMF2_uc011kcw.1_Silent_p.L135L|SUMF2_uc011kcx.1_Silent_p.L135L|SUMF2_uc003trt.2_Silent_p.L28L|SUMF2_uc011kcy.1_Intron|SUMF2_uc011kcz.1_Intron|SUMF2_uc003tru.2_RNA|SUMF2_uc011kda.1_Intron|SUMF2_uc003trx.2_Intron	NM_001130069	NP_001123541	Q8NBJ7	SUMF2_HUMAN	sulfatase modifying factor 2 isoform e	116						endoplasmic reticulum lumen	metal ion binding			ovary(1)|skin(1)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			AGTCTGTACTCTGGTGGCTTC	0.557											OREG0018081	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	155	---	---	---	---	PASS	A	56141875	A	A	56141875	2	1	178	1	0	0	0	0	0	0	0	1	15383	900	32	2		2	SUMF2	7	56141875	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	3037876	56141875	102996788	438	63391										
FKBP6	8468	broad.mit.edu	37	chr7	72754819	72754819	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caaaagaatgccaaggccctCttcaggtgtggacaggtgag	13	9	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:72754819C>T	uc003tya.2	+	6	900	c.768C>T	c.(766-768)CTC>CTT	p.L256L	FKBP6_uc003twz.2_Silent_p.L226L|FKBP6_uc011kew.1_Silent_p.L251L|FKBP6_uc010lbe.1_RNA	NM_003602	NP_003593	O75344	FKBP6_HUMAN	FK506 binding protein 6 isoform a	256	TPR 3.				protein folding	membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				CCAAGGCCCTCTTCAGGTGTG	0.488													10	33	---	---	---	---	PASS	T	72754819	T	T	72754819	2	4	178	1	0	0	0	0	0	0	0	1	5912	900	32	2		2	FKBP6	7	72754819	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	16612944	72754819	86383844	439	63392										
DTX2	113878	broad.mit.edu	37	chr7	76126661	76126661	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cacacccgtgcaggcatgacGagtgttctgatgtcagccat	11	12	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:76126661G>T	uc003uff.3	+	7	1573	c.1017G>T	c.(1015-1017)ACG>ACT	p.T339T	DTX2_uc011kgk.1_Silent_p.T248T|DTX2_uc003ufg.3_Silent_p.T339T|DTX2_uc003ufh.3_Silent_p.T339T|DTX2_uc003ufj.3_Intron|DTX2_uc003ufk.3_Intron|DTX2_uc003ufl.1_Silent_p.T2T|DTX2_uc003ufm.3_5'Flank	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	339					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						CAGGCATGACGAGTGTTCTGA	0.597													7	147	---	---	---	---	PASS	T	76126661	T	T	76126661	2	4	178	1	0	0	0	0	0	0	0	1	4794	1045	37	2		2	DTX2	7	76126661	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	3371842	76126661	83012002	440	63393										
CCDC146	57639	broad.mit.edu	37	chr7	76891505	76891505	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actaccatgatgaactttctCgtaagcaaagagagaaagaa	8	7	1	5	rs148455218		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:76891505C>A	uc003uga.2	+	9	1181	c.1054C>A	c.(1054-1056)CGT>AGT	p.R352S	CCDC146_uc010ldp.2_Missense_Mutation_p.R98S	NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	352										ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				TGAACTTTCTCGTAAGCAAAG	0.403													6	105	---	---	---	---	PASS	A	76891505	A	A	76891505	3	1	178	1	0	0	0	0	1	0	0	0	2780	884	31	2	1084	2	CCDC146	7	76891505	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	764844	76891505	82247158	441	63394										
PCLO	27445	broad.mit.edu	37	chr7	82545331	82545331	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaatgtgttatccgtagaaaCaggtgctatcataaggggtt	11	5	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:82545331C>A	uc003uhx.2	-	7	12260	c.11971G>T	c.(11971-11973)GTT>TTT	p.V3991F	PCLO_uc003uhv.2_Missense_Mutation_p.V3991F|PCLO_uc010lec.2_Missense_Mutation_p.V956F	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3922					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TCCGTAGAAACAGGTGCTATC	0.413													10	315	---	---	---	---	PASS	A	82545331	A	A	82545331	3	1	178	1	0	0	0	0	1	0	0	0	11583	478	17	3	3550	3	PCLO	7	82545331	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5653826	82545331	76593332	442	63395										
ABCB4	5244	broad.mit.edu	37	chr7	87081012	87081012	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caagggtgagcttccatcctCtgatgaatcccactatgaat	8	11	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:87081012C>G	uc003uiv.1	-	7	711	c.635G>C	c.(634-636)AGA>ACA	p.R212T	ABCB4_uc003uiw.1_Missense_Mutation_p.R212T|ABCB4_uc003uix.1_Missense_Mutation_p.R212T	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	212	ABC transmembrane type-1 1.|Extracellular (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CTTCCATCCTCTGATGAATCC	0.453													16	57	---	---	---	---	PASS	G	87081012	G	G	87081012	3	3	178	1	0	0	0	0	1	0	0	0	43	913	32	2	3313	2	ABCB4	7	87081012	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4535681	87081012	72057651	443	63396										
ZNF804B	219578	broad.mit.edu	37	chr7	88965209	88965209	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attcaacttgcaccatcaggCtgtaacagacaagcattgcc	7	12	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:88965209C>T	uc011khi.1	+	4	3451	c.2913C>T	c.(2911-2913)GGC>GGT	p.G971G		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	971						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CACCATCAGGCTGTAACAGAC	0.403										HNSCC(36;0.09)			58	78	---	---	---	---	PASS	T	88965209	T	T	88965209	2	4	178	1	0	0	0	0	0	0	0	1	18168	784	28	3		3	ZNF804B	7	88965209	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1884197	88965209	70173454	444	63397										
C7orf63	79846	broad.mit.edu	37	chr7	89887459	89887459	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttgtcaagaaactggtacaGtgttatcagaatggacttgt	10	5	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:89887459G>T	uc010lep.2	+	3	479	c.228G>T	c.(226-228)CAG>CAT	p.Q76H	C7orf63_uc003ukf.2_RNA|C7orf63_uc003ukg.2_5'UTR|C7orf63_uc011khj.1_Missense_Mutation_p.Q76H|C7orf63_uc010leo.2_Missense_Mutation_p.Q76H	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	76							binding			ovary(1)	1						AACTGGTACAGTGTTATCAGA	0.259													5	75	---	---	---	---	PASS	T	89887459	T	T	89887459	3	4	178	1	0	0	0	0	1	0	0	0	2409	1020	36	3	238	3	C7orf63	7	89887459	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	922250	89887459	69251204	445	63398										
PEX1	5189	broad.mit.edu	37	chr7	92140260	92140260	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcaataacatgctattacttGtattgtagtcttctgcagca	6	8	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:92140260G>T	uc003uly.2	-	8	1681	c.1585C>A	c.(1585-1587)CAA>AAA	p.Q529K	PEX1_uc011khr.1_Missense_Mutation_p.Q321K|PEX1_uc010ley.2_Missense_Mutation_p.Q529K|PEX1_uc011khs.1_Missense_Mutation_p.Q207K|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	529					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			GCTATTACTTGTATTGTAGTC	0.284													6	87	---	---	---	---	PASS	T	92140260	T	T	92140260	3	4	178	1	0	0	0	0	1	0	0	0	11735	1386	48	3	2334	3	PEX1	7	92140260	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2252801	92140260	66998403	446	63399										
LMTK2	22853	broad.mit.edu	37	chr7	97822171	97822171	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacgatacagatgtcatgctCacaggtgacactttgagcac	10	10	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:97822171C>A	uc003upd.1	+	11	2687	c.2394C>A	c.(2392-2394)CTC>CTA	p.L798L		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	798					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)					ATGTCATGCTCACAGGTGACA	0.498													8	110	---	---	---	---	PASS	A	97822171	A	A	97822171	2	1	178	1	0	0	0	0	0	0	0	1	8859	813	29	2		2	LMTK2	7	97822171	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	5681911	97822171	61316492	447	63400										
TRRAP	8295	broad.mit.edu	37	chr7	98601960	98601960	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccggttcttgagcaatttctCggcacagacagctgaagtgg	12	10	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:98601960C>A	uc003upp.2	+	67	10624	c.10415C>A	c.(10414-10416)TCG>TAG	p.S3472*	TRRAP_uc011kis.1_Nonsense_Mutation_p.S3443*|TRRAP_uc003upr.2_Nonsense_Mutation_p.S3178*	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3472					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			AGCAATTTCTCGGCACAGACA	0.478													6	147	---	---	---	---	PASS	A	98601960	A	A	98601960	4	1	178	1	0	0	0	0	0	1	0	0	16598	893	31	2	10586	2	TRRAP	7	98601960	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	779789	98601960	60536703	448	63401										
ZKSCAN5	23660	broad.mit.edu	37	chr7	99128838	99128838	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaacccaaagaaatgtttctCaagttcaagattttggagaa	7	6	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:99128838C>A	uc003uqv.2	+	7	1610	c.1486C>A	c.(1486-1488)CAA>AAA	p.Q496K	ZKSCAN5_uc010lfx.2_Missense_Mutation_p.Q496K|ZKSCAN5_uc003uqw.2_Missense_Mutation_p.Q496K|ZKSCAN5_uc003uqx.2_Missense_Mutation_p.Q423K|ZKSCAN5_uc003uqy.2_Missense_Mutation_p.Q232K	NM_145102	NP_659570	Q9Y2L8	ZKSC5_HUMAN	zinc finger with KRAB and SCAN domains 5	496					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					AAATGTTTCTCAAGTTCAAGA	0.363													9	252	---	---	---	---	PASS	A	99128838	A	A	99128838	3	1	178	1	0	0	0	0	1	0	0	0	17687	827	29	2	1508	2	ZKSCAN5	7	99128838	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	526878	99128838	60009825	449	63402										
PCOLCE	5118	broad.mit.edu	37	chr7	100201832	100201832	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtacagcgggcgggccacctCgggcactggtgagaactccc	15	14	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:100201832C>A	uc003uvo.2	+	3	653	c.455C>A	c.(454-456)TCG>TAG	p.S152*	uc011kjy.1_5'Flank|PCOLCE_uc011kkb.1_Nonsense_Mutation_p.S152*|PCOLCE_uc010lhb.1_Intron|PCOLCE_uc003uvp.1_5'Flank	NM_002593	NP_002584	Q15113	PCOC1_HUMAN	procollagen C-endopeptidase enhancer	152					multicellular organismal development	extracellular space	collagen binding|heparin binding|peptidase activator activity				0	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					CGGGCCACCTCGGGCACTGGT	0.522													4	31	---	---	---	---	PASS	A	100201832	A	A	100201832	4	1	178	1	0	0	0	0	0	1	0	0	11594	893	31	2	465	2	PCOLCE	7	100201832	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1072994	100201832	58936831	450	63403										
MUC17	140453	broad.mit.edu	37	chr7	100677874	100677874	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atggtggccagttctgaaacGagcacactttcaacaactcc	8	12	2	1	rs147962629	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:100677874G>T	uc003uxp.1	+	3	3230	c.3177G>T	c.(3175-3177)ACG>ACT	p.T1059T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1059	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|15.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GTTCTGAAACGAGCACACTTT	0.502													7	221	---	---	---	---	PASS	T	100677874	T	T	100677874	2	4	178	1	0	0	0	0	0	0	0	1	9974	1045	37	2		2	MUC17	7	100677874	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	476042	100677874	58460789	451	63404										
MUC17	140453	broad.mit.edu	37	chr7	100681823	100681823	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgactacttattctcaagccGgttcatctcctacaactgct	5	13	3	1	rs147490705	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:100681823G>C	uc003uxp.1	+	3	7179	c.7126G>C	c.(7126-7128)GGT>CGT	p.G2376R	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2376	Extracellular (Potential).|59 X approximate tandem repeats.|38.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TTCTCAAGCCGGTTCATCTCC	0.488													4	166	---	---	---	---	PASS	C	100681823	C	C	100681823	3	2	178	1	0	0	0	0	1	0	0	0	9974	1116	39	4	7136	4	MUC17	7	100681823	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3949	100681823	58456840	452	63405										
PLOD3	8985	broad.mit.edu	37	chr7	100855549	100855549	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcacatggccatgtccctgGcctcgcctgggctcagagcc	11	17	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:100855549G>T	uc003uyd.2	-	10	1568	c.1112C>A	c.(1111-1113)GCC>GAC	p.A371D	PLOD3_uc010lhs.2_5'UTR	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	371					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	CATGTCCCTGGCCTCGCCTGG	0.662													5	54	---	---	---	---	PASS	T	100855549	T	T	100855549	3	4	178	1	0	0	0	0	1	0	0	0	12103	1203	42	3	1144	3	PLOD3	7	100855549	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	173726	100855549	58283114	453	63406										
MET	4233	broad.mit.edu	37	chr7	116380911	116380911	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cccttctcttcacagatcacGaagatcccattgaatggctt	6	13	3	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:116380911G>T	uc003vij.2	+	5	1720	c.1533G>T	c.(1531-1533)ACG>ACT	p.T511T	MET_uc010lkh.2_Silent_p.T511T|MET_uc011knc.1_Silent_p.T511T|MET_uc011knd.1_Silent_p.T511T|MET_uc011kne.1_Intron|MET_uc011knf.1_Silent_p.T511T|MET_uc011kng.1_Silent_p.T511T|MET_uc011knh.1_Silent_p.T511T|MET_uc011kni.1_Silent_p.T511T|MET_uc011knj.1_Silent_p.T81T|MET_uc011knb.1_Silent_p.T511T	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	511	Extracellular (Potential).|Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			CACAGATCACGAAGATCCCAT	0.443			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				5	103	---	---	---	---	PASS	T	116380911	T	T	116380911	2	4	178	1	0	0	0	0	0	0	0	1	9485	1045	37	2		2	MET	7	116380911	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	15525362	116380911	42757752	454	63407										
ASB15	142685	broad.mit.edu	37	chr7	123270074	123270074	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acttggtaggcagagttactCgtgtactaatagattacatg	10	6	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:123270074C>A	uc003vku.1	+	11	1787	c.1495C>A	c.(1495-1497)CGT>AGT	p.R499S	ASB15_uc003vkw.1_Missense_Mutation_p.R499S	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	499					intracellular signal transduction					skin(2)|lung(1)	3						CAGAGTTACTCGTGTACTAAT	0.358													7	135	---	---	---	---	PASS	A	123270074	A	A	123270074	3	1	178	1	0	0	0	0	1	0	0	0	1019	884	31	2	1525	2	ASB15	7	123270074	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	6889163	123270074	35868589	455	63408										
SPAM1	6677	broad.mit.edu	37	chr7	123593690	123593690	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaatcaagtggagtatcccaGatagttttcaccttccttct	6	10	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:123593690G>A	uc003vld.2	+	4	468	c.66G>A	c.(64-66)CAG>CAA	p.Q22Q	SPAM1_uc003vle.2_Silent_p.Q22Q|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Silent_p.Q22Q|SPAM1_uc010lku.2_Silent_p.Q22Q	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	22					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	GAGTATCCCAGATAGTTTTCA	0.393													14	36	---	---	---	---	PASS	A	123593690	A	A	123593690	2	1	178	1	0	0	0	0	0	0	0	1	14986	933	33	2		2	SPAM1	7	123593690	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	323616	123593690	35544973	456	63409										
CALU	813	broad.mit.edu	37	chr7	128399070	128399070	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caccctgaggagtatgactaCatgaaagatatagtagtaca	9	7	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:128399070C>A	uc003vns.2	+	4	713	c.561C>A	c.(559-561)TAC>TAA	p.Y187*	CALU_uc003vnq.2_Nonsense_Mutation_p.Y187*|CALU_uc003vnr.2_Nonsense_Mutation_p.Y187*	NM_001130674	NP_001124146	O43852	CALU_HUMAN	calumenin isoform b precursor	187					platelet activation|platelet degranulation	extracellular region|Golgi apparatus|melanosome|sarcoplasmic reticulum lumen	calcium ion binding|protein binding				0						AGTATGACTACATGAAAGATA	0.448													8	140	---	---	---	---	PASS	A	128399070	A	A	128399070	4	1	178	1	0	0	0	0	0	1	0	0	2594	489	17	3	769	3	CALU	7	128399070	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4805380	128399070	30739593	457	63410										
KLHDC10	23008	broad.mit.edu	37	chr7	129769365	129769365	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actttccaatgggtgaagctCccagctaccatgccagagcc	9	14	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:129769365C>A	uc003vpj.1	+	9	1203	c.1068C>A	c.(1066-1068)CTC>CTA	p.L356L	KLHDC10_uc003vpk.1_Silent_p.L327L|KLHDC10_uc010lmb.1_Silent_p.L253L	NM_014997	NP_055812	Q6PID8	KLD10_HUMAN	kelch domain containing 10	356	Kelch 5.										0						GGGTGAAGCTCCCAGCTACCA	0.398													6	75	---	---	---	---	PASS	A	129769365	A	A	129769365	2	1	178	1	0	0	0	0	0	0	0	1	8355	842	30	2		2	KLHDC10	7	129769365	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1370295	129769365	29369298	458	63411										
PLXNA4	91584	broad.mit.edu	37	chr7	131848963	131848963	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctcaaggagtagcgggcctCgcccgtgatggcgtcaatgg	16	11	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:131848963C>T	uc003vra.3	-	24	4667	c.4438G>A	c.(4438-4440)GAG>AAG	p.E1480K		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1480	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TAGCGGGCCTCGCCCGTGATG	0.592													9	21	---	---	---	---	PASS	T	131848963	T	T	131848963	3	4	178	1	0	0	0	0	1	0	0	0	12122	893	31	2	1282	2	PLXNA4	7	131848963	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2079598	131848963	27289700	459	63412										
KIAA1549	57670	broad.mit.edu	37	chr7	138603934	138603934	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgacggccacctctttactCgtcactgacacgtaagttgc	8	13	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:138603934C>A	uc011kql.1	-	2	487	c.438G>T	c.(436-438)ACG>ACT	p.T146T	KIAA1549_uc003vuk.3_Silent_p.T96T|KIAA1549_uc011kqj.1_Silent_p.T146T	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	146						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						CCTCTTTACTCGTCACTGACA	0.453			O	BRAF	pilocytic astrocytoma								8	180	---	---	---	---	PASS	A	138603934	A	A	138603934	2	1	178	1	0	0	0	0	0	0	0	1	8244	871	31	2		2	KIAA1549	7	138603934	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	6754971	138603934	20534729	460	63413										
TTC26	79989	broad.mit.edu	37	chr7	138874078	138874078	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttcctcagagagacccttcGagaagtgctccatttactga	8	11	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:138874078G>T	uc003vus.2	+	18	1679	c.1565G>T	c.(1564-1566)CGA>CTA	p.R522L	TTC26_uc011kqn.1_Silent_p.S477S|TTC26_uc011kqo.1_Missense_Mutation_p.R491L|TTC26_uc011kqp.1_Missense_Mutation_p.R417L|TTC26_uc003vut.2_Missense_Mutation_p.R382L|TTC26_uc011kqq.1_Missense_Mutation_p.R391L	NM_024926	NP_079202	A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26 isoform 1	522							binding			ovary(1)	1						GAGACCCTTCGAGAAGTGCTC	0.363													6	227	---	---	---	---	PASS	T	138874078	T	T	138874078	3	4	178	1	0	0	0	0	1	0	0	0	16691	1058	37	2	1635	2	TTC26	7	138874078	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	270144	138874078	20264585	461	63414										
TBXAS1	6916	broad.mit.edu	37	chr7	139611111	139611111	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gagaacttcagtaactttacCaacagaatggtacgtagttt	8	7	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:139611111C>A	uc011kqv.1	+	4	491	c.327C>A	c.(325-327)ACC>ACA	p.T109T	TBXAS1_uc003vvh.2_Silent_p.T109T|TBXAS1_uc010lne.2_Silent_p.T41T|TBXAS1_uc011kqu.1_Silent_p.T60T|TBXAS1_uc003vvi.2_Silent_p.T109T|TBXAS1_uc003vvj.2_Silent_p.T109T|TBXAS1_uc011kqw.1_Silent_p.T89T|TBXAS1_uc011kqx.1_Silent_p.T109T	NM_001130966	NP_001124438	P24557	THAS_HUMAN	thromboxane A synthase 1, platelet isoform	108	Cytoplasmic (Potential).				hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|thromboxane-A synthase activity			ovary(2)|breast(1)	3	Melanoma(164;0.0142)					GTAACTTTACCAACAGAATGG	0.433													7	90	---	---	---	---	PASS	A	139611111	A	A	139611111	2	1	178	1	0	0	0	0	0	0	0	1	15661	581	21	3		3	TBXAS1	7	139611111	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	737033	139611111	19527552	462	63415										
ADCK2	90956	broad.mit.edu	37	chr7	140373931	140373931	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cggaaacctccagaaaatctCgcagaccagtcgtttctaga	8	12	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:140373931C>A	uc003vvy.1	+	1	979	c.801C>A	c.(799-801)CTC>CTA	p.L267L	ADCK2_uc003vvz.2_Silent_p.L267L	NM_052853	NP_443085	Q7Z695	ADCK2_HUMAN	aarF domain containing kinase 2	267	Protein kinase.					integral to membrane	ATP binding|protein serine/threonine kinase activity				0	Melanoma(164;0.00956)					CAGAAAATCTCGCAGACCAGT	0.577													4	35	---	---	---	---	PASS	A	140373931	A	A	140373931	2	1	178	1	0	0	0	0	0	0	0	1	289	871	31	2		2	ADCK2	7	140373931	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	762820	140373931	18764732	463	63416										
WEE2	494551	broad.mit.edu	37	chr7	141408871	141408871	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagacagcaggagcaagctgCtgcccagtgacagcccctct	11	15	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:141408871C>A	uc003vwn.2	+	1	719	c.313C>A	c.(313-315)CTG>ATG	p.L105M	FLJ40852_uc011krh.1_Intron|FLJ40852_uc010lnm.2_Intron|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028	P0C1S8	WEE2_HUMAN	WEE1 homolog 2	105					egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)					GAGCAAGCTGCTGCCCAGTGA	0.517													30	32	---	---	---	---	PASS	A	141408871	A	A	141408871	3	1	178	1	0	0	0	0	1	0	0	0	17342	796	28	3	315	3	WEE2	7	141408871	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1034940	141408871	17729792	464	63417										
CNTNAP2	26047	broad.mit.edu	37	chr7	146818203	146818203	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctcactctggacaggagcaTgcagcacttccgtaccaatg	9	14	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:146818203T>G	uc003weu.1	+	6	1403	c.887T>G	c.(886-888)ATG>AGG	p.M296R		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	296	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GACAGGAGCATGCAGCACTTC	0.478										HNSCC(39;0.1)			10	33	---	---	---	---	PASS	G	146818203	G	G	146818203	3	3	178	1	0	0	0	0	1	0	0	0	3647	1464	51	5	909	5	CNTNAP2	7	146818203	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	5409332	146818203	12320460	465	63418										
CNTNAP2	26047	broad.mit.edu	37	chr7	147259238	147259238	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtttgttctagctatctacGagccttcctgtgaagcctac	8	11	2	1	rs141064983	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:147259238G>T	uc003weu.1	+	12	2302	c.1786G>T	c.(1786-1788)GAG>TAG	p.E596*		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	596	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			AGCTATCTACGAGCCTTCCTG	0.448										HNSCC(39;0.1)			4	46	---	---	---	---	PASS	T	147259238	T	T	147259238	4	4	178	1	0	0	0	0	0	1	0	0	3647	1059	37	2	1832	2	CNTNAP2	7	147259238	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	441035	147259238	11879425	466	63419										
CNTNAP2	26047	broad.mit.edu	37	chr7	147336352	147336352	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agtgccgagtactgcgagcaGtatgtctcctatttctgcaa	10	10	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:147336352G>T	uc003weu.1	+	13	2568	c.2052G>T	c.(2050-2052)CAG>CAT	p.Q684H		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	684	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ACTGCGAGCAGTATGTCTCCT	0.463										HNSCC(39;0.1)			4	25	---	---	---	---	PASS	T	147336352	T	T	147336352	3	4	178	1	0	0	0	0	1	0	0	0	3647	1020	36	3	2102	3	CNTNAP2	7	147336352	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	77114	147336352	11802311	467	63420										
GIMAP7	168537	broad.mit.edu	37	chr7	150217741	150217741	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgaggaaaatctacactgacCaattaaatgaagaaattaaa	6	5	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:150217741C>A	uc003whk.2	+	2	809	c.679C>A	c.(679-681)CAA>AAA	p.Q227K		NM_153236	NP_694968	Q8NHV1	GIMA7_HUMAN	GTPase, IMAP family member 7	227							GTP binding			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTACACTGACCAATTAAATGA	0.323													7	93	---	---	---	---	PASS	A	150217741	A	A	150217741	3	1	178	1	0	0	0	0	1	0	0	0	6384	595	21	3	681	3	GIMAP7	7	150217741	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2881389	150217741	8920922	468	63421										
MLL3	58508	broad.mit.edu	37	chr7	151880108	151880108	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgattctctttgctttaaaGgatctttaaaaagctccgaa	6	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr7:151880108G>T	uc003wla.2	-	35	5435	c.5216C>A	c.(5215-5217)CCT>CAT	p.P1739H	MLL3_uc003wkz.2_Missense_Mutation_p.P800H	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1739	Gln-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTGCTTTAAAGGATCTTTAAA	0.338			N		medulloblastoma								9	201	---	---	---	---	PASS	T	151880108	T	T	151880108	3	4	178	1	0	0	0	0	1	0	0	0	9622	1000	35	3	9619	3	MLL3	7	151880108	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1662367	151880108	7258555	469	63422										
CSMD1	64478	broad.mit.edu	37	chr8	3165276	3165276	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagtggaggttgttgtcataCggagctggatagccagggga	17	6	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:3165276C>A	uc011kwk.1	-	25	4284	c.3894G>T	c.(3892-3894)CCG>CCT	p.P1298P	CSMD1_uc011kwj.1_Silent_p.P690P|CSMD1_uc003wqe.2_Silent_p.P454P	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1298	Extracellular (Potential).|CUB 8.					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)		TGTTGTCATACGGAGCTGGAT	0.468													5	91	---	---	---	---	PASS	A	3165276	A	A	3165276	2	1	178	1	0	0	0	0	0	0	0	1	3944	523	19	1		1	CSMD1	8	3165276	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08		3165276	143198746	470	63423										
MCPH1	79648	broad.mit.edu	37	chr8	6289033	6289033	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tatacagatgcaggacagctGgagcacacattgatgaatca	10	8	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:6289033G>T	uc003wqi.2	+	4	315	c.247G>T	c.(247-249)GGA>TGA	p.G83*	MCPH1_uc003wqh.2_Nonsense_Mutation_p.G83*|MCPH1_uc011kwl.1_Nonsense_Mutation_p.G83*	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	83	BRCT 1.					microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		CAGGACAGCTGGAGCACACAT	0.318													7	126	---	---	---	---	PASS	T	6289033	T	T	6289033	4	4	178	1	0	0	0	0	0	1	0	0	9398	1349	47	3	261	3	MCPH1	8	6289033	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3123757	6289033	140074989	471	63424										
EFHA2	286097	broad.mit.edu	37	chr8	16921702	16921702	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgaagggcagttattcatgaCtccgtatgattttattttgg	10	5	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:16921702C>A	uc003wxd.2	+	2	533	c.491C>A	c.(490-492)ACT>AAT	p.T164N		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	164						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		TTATTCATGACTCCGTATGAT	0.353													6	100	---	---	---	---	PASS	A	16921702	A	A	16921702	3	1	178	1	0	0	0	0	1	0	0	0	4944	565	20	3	497	3	EFHA2	8	16921702	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	10632669	16921702	129442320	472	63425										
NAT2	10	broad.mit.edu	37	chr8	18258273	18258273	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagacaatacagatctggtcGagtttaaaactctcactgag	8	8	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:18258273G>T	uc003wyw.1	+	2	867	c.760G>T	c.(760-762)GAG>TAG	p.E254*		NM_000015	NP_000006	P11245	ARY2_HUMAN	N-acetyltransferase 2	254					xenobiotic metabolic process	cytosol	arylamine N-acetyltransferase activity			ovary(1)|skin(1)	2				Colorectal(111;0.0531)|COAD - Colon adenocarcinoma(73;0.21)		AGATCTGGTCGAGTTTAAAAC	0.408									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				5	66	---	---	---	---	PASS	T	18258273	T	T	18258273	4	4	178	1	0	0	0	0	0	1	0	0	10177	1059	37	2	762	2	NAT2	8	18258273	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1336571	18258273	128105749	473	63426										
HR	55806	broad.mit.edu	37	chr8	21984736	21984736	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccttttgagggcccggagccGagcaaccggcctctcctcga	12	16	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:21984736G>T	uc003xas.2	-	3	1884	c.1219C>A	c.(1219-1221)CGG>AGG	p.R407R	HR_uc003xat.2_Silent_p.R407R	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	407							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		GCCCGGAGCCGAGCAACCGGC	0.652													4	44	---	---	---	---	PASS	T	21984736	T	T	21984736	2	4	178	1	0	0	0	0	0	0	0	1	7347	1057	37	2		2	HR	8	21984736	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	3726463	21984736	124379286	474	63427										
EGR3	1960	broad.mit.edu	37	chr8	22548495	22548495	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aatagggggcgggttgacccGgatggggtccatgccctgga	18	9	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:22548495G>C	uc003xcm.1	-	2	1013	c.655C>G	c.(655-657)CGG>GGG	p.R219G	EGR3_uc011kzn.1_Missense_Mutation_p.R181G|EGR3_uc011kzo.1_Missense_Mutation_p.R165G	NM_004430	NP_004421	Q06889	EGR3_HUMAN	early growth response 3	219					circadian rhythm|muscle organ development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Prostate(55;0.0421)|Breast(100;0.102)		Colorectal(74;0.0145)|BRCA - Breast invasive adenocarcinoma(99;0.053)|COAD - Colon adenocarcinoma(73;0.0608)		GGGTTGACCCGGATGGGGTCC	0.602													9	36	---	---	---	---	PASS	C	22548495	C	C	22548495	3	2	178	1	0	0	0	0	1	0	0	0	4973	1115	39	4	512	4	EGR3	8	22548495	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	563759	22548495	123815527	475	63428										
NEFM	4741	broad.mit.edu	37	chr8	24771448	24771448	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cccgcggctcgcccagcaccGtgtcctcctcctataagcgc	9	20	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:24771448G>T	uc003xed.3	+	1	175	c.142G>T	c.(142-144)GTG>TTG	p.V48L	NEFM_uc011lac.1_Missense_Mutation_p.V48L|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	48	Head.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		GCCCAGCACCGTGTCCTCCTC	0.692													4	17	---	---	---	---	PASS	T	24771448	T	T	24771448	3	4	178	1	0	0	0	0	1	0	0	0	10316	1145	40	1	144	1	NEFM	8	24771448	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2222953	24771448	121592574	476	63429										
RBPMS	11030	broad.mit.edu	37	chr8	30332342	30332342	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctctggatatcaaacctcgGgagctctatctgcttttcag	8	12	5	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:30332342G>T	uc003xic.1	+	2	779	c.114G>T	c.(112-114)CGG>CGT	p.R38R	RBPMS_uc003xid.1_Silent_p.R38R|RBPMS_uc003xie.1_Silent_p.R38R|RBPMS_uc003xif.1_5'Flank|RBPMS_uc011lba.1_Silent_p.R38R|RBPMS_uc003xib.2_Silent_p.R38R|RBPMS_uc010lvh.1_5'UTR	NM_006867	NP_006858	Q93062	RBPMS_HUMAN	RNA-binding protein with multiple splicing	38	RRM.				positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|nucleus	nucleotide binding|poly(A) RNA binding|protein binding|transcription coactivator activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.144)|Kidney(114;0.172)		TCAAACCTCGGGAGCTCTATC	0.398													7	148	---	---	---	---	PASS	T	30332342	T	T	30332342	2	4	178	1	0	0	0	0	0	0	0	1	13163	1219	43	3		3	RBPMS	8	30332342	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	5560894	30332342	116031680	477	63430										
GPR124	25960	broad.mit.edu	37	chr8	37697062	37697062	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggcacatgctgctgaacttGtgcttccacatagccatgac	9	12	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:37697062G>T	uc003xkj.2	+	16	2796	c.2433G>T	c.(2431-2433)TTG>TTT	p.L811F	GPR124_uc010lvy.2_Missense_Mutation_p.L594F	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	811	Helical; Name=2; (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			TGCTGAACTTGTGCTTCCACA	0.582													4	21	---	---	---	---	PASS	T	37697062	T	T	37697062	3	4	178	1	0	0	0	0	1	0	0	0	6638	1368	48	3	2474	3	GPR124	8	37697062	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	7364720	37697062	108666960	478	63431										
RAB11FIP1	80223	broad.mit.edu	37	chr8	37732086	37732086	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggagaggaaattggaggtctCggttcagacttggactctgg	16	6	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:37732086C>A	uc003xkm.1	-	3	1613	c.1569G>T	c.(1567-1569)CCG>CCT	p.P523P	RAB11FIP1_uc010lvz.1_Silent_p.P371P|RAB11FIP1_uc003xkn.1_Silent_p.P523P|RAB11FIP1_uc003xkl.1_5'Flank|RAB11FIP1_uc003xko.1_5'Flank|RAB11FIP1_uc003xkp.1_Silent_p.P371P	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	523					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			TTGGAGGTCTCGGTTCAGACT	0.552													5	62	---	---	---	---	PASS	A	37732086	A	A	37732086	2	1	178	1	0	0	0	0	0	0	0	1	12893	871	31	2		2	RAB11FIP1	8	37732086	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	35024	37732086	108631936	479	63432										
PLEKHA2	59339	broad.mit.edu	37	chr8	38810819	38810819	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgttctttccaccaggaccGagaaccactgcgcaccatat	7	15	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:38810819G>T	uc003xmi.3	+	9	941	c.707G>T	c.(706-708)CGA>CTA	p.R236L	PLEKHA2_uc011lce.1_Missense_Mutation_p.R186L	NM_021623	NP_067636	Q9HB19	PKHA2_HUMAN	pleckstrin homology domain containing, family A	236	PH 2.				positive regulation of cell-matrix adhesion	cytoplasm|nucleus|plasma membrane|protein complex	fibronectin binding|laminin binding				0		all_lung(54;0.0413)|Lung NSC(58;0.115)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;4.68e-08)|COAD - Colon adenocarcinoma(9;0.235)			CACCAGGACCGAGAACCACTG	0.463													6	117	---	---	---	---	PASS	T	38810819	T	T	38810819	3	4	178	1	0	0	0	0	1	0	0	0	12056	1058	37	2	737	2	PLEKHA2	8	38810819	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1078733	38810819	107553203	480	63433										
ADAM2	2515	broad.mit.edu	37	chr8	39627087	39627087	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actaaagatcttcacaccacTgaaatgactaaagacacatc	4	11	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:39627087T>A	uc003xnj.2	-	12	1111	c.1036A>T	c.(1036-1038)AGT>TGT	p.S346C	ADAM2_uc003xnk.2_Missense_Mutation_p.S327C|ADAM2_uc011lck.1_Missense_Mutation_p.S346C|ADAM2_uc003xnl.2_Missense_Mutation_p.S220C	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	346	Extracellular (Potential).|Peptidase M12B.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		TTCACACCACTGAAATGACTA	0.383													6	19	---	---	---	---	PASS	A	39627087	A	A	39627087	3	1	178	1	0	0	0	0	1	0	0	0	241	1580	55	5	1207	5	ADAM2	8	39627087	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	816268	39627087	106736935	481	63434										
NKAIN3	286183	broad.mit.edu	37	chr8	63492131	63492131	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agaggcagatctttgacttcCttggtttccagtgggcgcct	12	10	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:63492131C>A	uc010lyq.1	+	2	220	c.88C>A	c.(88-90)CTT>ATT	p.L30I		NM_173688	NP_775959	Q8N8D7	NKAI3_HUMAN	Na+/K+ transporting ATPase interacting 3	30						integral to membrane|plasma membrane					0	Breast(64;0.127)	Lung NSC(129;0.187)				CTTTGACTTCCTTGGTTTCCA	0.363													9	172	---	---	---	---	PASS	A	63492131	A	A	63492131	3	1	178	1	0	0	0	0	1	0	0	0	10437	681	24	3	94	3	NKAIN3	8	63492131	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	23865044	63492131	82871891	482	63435										
PDE7A	5150	broad.mit.edu	37	chr8	66639131	66639131	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgctttctaatggcagatgtGagaataagcctgattctctc	9	8	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:66639131G>T	uc003xvq.2	-	9	911	c.899C>A	c.(898-900)TCA>TAA	p.S300*	PDE7A_uc003xvr.2_Nonsense_Mutation_p.S300*|PDE7A_uc003xvp.2_Nonsense_Mutation_p.S274*	NM_002604	NP_002595	Q13946	PDE7A_HUMAN	phosphodiesterase 7A isoform b	300	Catalytic (By similarity).					cell fraction|cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding				0			Epithelial(68;0.0509)|BRCA - Breast invasive adenocarcinoma(89;0.111)|all cancers(69;0.168)|OV - Ovarian serous cystadenocarcinoma(28;0.238)		Dyphylline(DB00651)|Ketotifen(DB00920)	TGGCAGATGTGAGAATAAGCC	0.348													8	194	---	---	---	---	PASS	T	66639131	T	T	66639131	4	4	178	1	0	0	0	0	0	1	0	0	11651	1294	45	2	601	2	PDE7A	8	66639131	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3147000	66639131	79724891	483	63436										
CSPP1	79848	broad.mit.edu	37	chr8	67998343	67998343	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attacagacgttatcttactCaggtaatgagttctattaat	6	6	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:67998343C>A	uc003xxi.2	+	4	440	c.409C>A	c.(409-411)CAG>AAG	p.Q137K	CSPP1_uc003xxg.1_Missense_Mutation_p.Q137K|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Missense_Mutation_p.Q137K|CSPP1_uc003xxk.2_5'UTR	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	137						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			TTATCTTACTCAGGTAATGAG	0.303													7	120	---	---	---	---	PASS	A	67998343	A	A	67998343	3	1	178	1	0	0	0	0	1	0	0	0	3962	827	29	2	423	2	CSPP1	8	67998343	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1359212	67998343	78365679	484	63437										
TRAM1	23471	broad.mit.edu	37	chr8	71495456	71495456	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggtttcttcttcacagctgGtgcctgaaaagcagaatgtt	10	8	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:71495456G>A	uc003xyo.1	-	10	1164	c.994C>T	c.(994-996)CCA>TCA	p.P332S	TRAM1_uc011lfc.1_Missense_Mutation_p.P301S	NM_014294	NP_055109	Q15629	TRAM1_HUMAN	translocation associated membrane protein 1	332	Cytoplasmic (Potential).				cotranslational protein targeting to membrane|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity			ovary(1)	1			Epithelial(68;0.00679)|all cancers(69;0.0324)|OV - Ovarian serous cystadenocarcinoma(28;0.0509)			TTCACAGCTGGTGCCTGAAAA	0.398													15	45	---	---	---	---	PASS	A	71495456	A	A	71495456	3	1	178	1	0	0	0	0	1	0	0	0	16448	1261	44	3	138	3	TRAM1	8	71495456	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3497113	71495456	74868566	485	63438										
TRPA1	8989	broad.mit.edu	37	chr8	72958840	72958840	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagatatttgaaattatactCgatctgtagaagacagaatt	7	4	1	5			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:72958840C>A	uc003xza.2	-	17	2144	c.1969G>T	c.(1969-1971)GAG>TAG	p.E657*	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	657	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AAATTATACTCGATCTGTAGA	0.299													5	102	---	---	---	---	PASS	A	72958840	A	A	72958840	4	1	178	1	0	0	0	0	0	1	0	0	16574	893	31	2	1434	2	TRPA1	8	72958840	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1463384	72958840	73405182	486	63439										
RALYL	138046	broad.mit.edu	37	chr8	85441608	85441608	+	Missense_Mutation	SNP	T	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccaataagaatgaccccaagTccatcaactcccgtgttttc	5	14	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:85441608T>G	uc003ycq.3	+	3	468	c.52T>G	c.(52-54)TCC>GCC	p.S18A	RALYL_uc003ycr.3_Missense_Mutation_p.S18A|RALYL_uc003ycs.3_Missense_Mutation_p.S18A|RALYL_uc010lzy.2_Missense_Mutation_p.S18A|RALYL_uc003yct.3_Missense_Mutation_p.S31A	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2	18							identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						TGACCCCAAGTCCATCAACTC	0.358													4	16	---	---	---	---	PASS	G	85441608	G	G	85441608	3	3	178	1	0	0	0	0	1	0	0	0	13020	1667	58	5	97	5	RALYL	8	85441608	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	12482768	85441608	60922414	487	63440										
POP1	10940	broad.mit.edu	37	chr8	99149137	99149137	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cggctgattgggccactttcCcactccatcctaactgaagc	8	15	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:99149137C>A	uc003yij.3	+	9	1417	c.1317C>A	c.(1315-1317)TCC>TCA	p.S439S	POP1_uc011lgv.1_Silent_p.S439S|POP1_uc003yik.2_Silent_p.S439S	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	439					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			GGCCACTTTCCCACTCCATCC	0.383													7	132	---	---	---	---	PASS	A	99149137	A	A	99149137	2	1	178	1	0	0	0	0	0	0	0	1	12251	610	22	3		3	POP1	8	99149137	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	13707529	99149137	47214885	488	63441										
RNF19A	25897	broad.mit.edu	37	chr8	101271234	101271234	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtgcatccatgtcctctctCgtctcatttatcttcatgtt	5	12	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:101271234C>A	uc003yjj.1	-	11	2384	c.2067G>T	c.(2065-2067)ACG>ACT	p.T689T	RNF19A_uc003yjk.1_Silent_p.T689T	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	689	Interaction with CASR.				microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)			TGTCCTCTCTCGTCTCATTTA	0.423											OREG0018897	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	161	---	---	---	---	PASS	A	101271234	A	A	101271234	2	1	178	1	0	0	0	0	0	0	0	1	13470	871	31	2		2	RNF19A	8	101271234	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	2122097	101271234	45092788	489	63442										
PABPC1	26986	broad.mit.edu	37	chr8	101724590	101724590	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgaaccatatgttttcttacCtttgcactagtgattgtacc	6	9	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:101724590C>A	uc003yjs.1	-	7	1476	c.972G>T	c.(970-972)AAG>AAT	p.K324N	PABPC1_uc011lhc.1_Missense_Mutation_p.K292N|PABPC1_uc011lhd.1_Missense_Mutation_p.K279N|PABPC1_uc003yjt.1_Missense_Mutation_p.K321N|PABPC1_uc003yju.2_RNA	NM_002568	NP_002559	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	324	RRM 4.				mRNA polyadenylation|mRNA stabilization|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|translation	catalytic step 2 spliceosome|cytosol	nucleotide binding|poly(A) RNA binding|protein C-terminus binding|translation activator activity				0	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			GTTTTCTTACCTTTGCACTAG	0.308													10	288	---	---	---	---	PASS	A	101724590	A	A	101724590	3	1	178	1	0	0	0	0	1	0	0	0	11363	695	24	3	970	3	PABPC1	8	101724590	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	453356	101724590	44639432	490	63443										
UBR5	51366	broad.mit.edu	37	chr8	103341406	103341406	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttaaccccaaaaatgttgctCgtggatgatgtaatgaagga	10	6	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:103341406C>A	uc003ykr.1	-	11	1271	c.1238G>T	c.(1237-1239)CGA>CTA	p.R413L	UBR5_uc003yks.1_Missense_Mutation_p.R413L	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	413					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			AAATGTTGCTCGTGGATGATG	0.308													6	202	---	---	---	---	PASS	A	103341406	A	A	103341406	3	1	178	1	0	0	0	0	1	0	0	0	16902	884	31	2	7357	2	UBR5	8	103341406	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1616816	103341406	43022616	491	63444										
UBR5	51366	broad.mit.edu	37	chr8	103359276	103359276	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctccagctgatgacctaccaGaggatcctccaccacttcca	6	17	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:103359276G>T	uc003ykr.1	-	6	464	c.431C>A	c.(430-432)TCT>TAT	p.S144Y	UBR5_uc003yks.1_Missense_Mutation_p.S144Y	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	144					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TGACCTACCAGAGGATCCTCC	0.502													9	126	---	---	---	---	PASS	T	103359276	T	T	103359276	3	4	178	1	0	0	0	0	1	0	0	0	16902	942	33	2	8184	2	UBR5	8	103359276	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	17870	103359276	43004746	492	63445										
FZD6	8323	broad.mit.edu	37	chr8	104330888	104330888	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctctgcaaagcatttgtacCaacctgcatagaacaaattc	5	12	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:104330888C>A	uc003ylh.2	+	3	532	c.248C>A	c.(247-249)CCA>CAA	p.P83Q	FZD6_uc003yli.2_Missense_Mutation_p.P83Q|FZD6_uc003ylj.2_Missense_Mutation_p.P83Q|FZD6_uc011lhn.1_Missense_Mutation_p.P49Q|FZD6_uc011lho.1_Intron|FZD6_uc011lhp.1_Missense_Mutation_p.P28Q	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	83	FZ.|Extracellular (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			GCATTTGTACCAACCTGCATA	0.353													7	116	---	---	---	---	PASS	A	104330888	A	A	104330888	3	1	178	1	0	0	0	0	1	0	0	0	6134	594	21	3	254	3	FZD6	8	104330888	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	971612	104330888	42033134	493	63446										
FZD6	8323	broad.mit.edu	37	chr8	104340586	104340586	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tctctgctgtcttctgggttGgaagcaaaaagacatgcaca	10	9	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:104340586G>T	uc003ylh.2	+	5	1767	c.1483G>T	c.(1483-1485)GGA>TGA	p.G495*	FZD6_uc003yli.2_Nonsense_Mutation_p.G495*|FZD6_uc003ylj.2_Nonsense_Mutation_p.G495*|FZD6_uc011lhn.1_Nonsense_Mutation_p.G461*|FZD6_uc011lho.1_Nonsense_Mutation_p.G190*|FZD6_uc011lhp.1_Nonsense_Mutation_p.G440*	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	495	Cytoplasmic (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			CTTCTGGGTTGGAAGCAAAAA	0.348													7	104	---	---	---	---	PASS	T	104340586	T	T	104340586	4	4	178	1	0	0	0	0	0	1	0	0	6134	1349	47	3	1497	3	FZD6	8	104340586	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	9698	104340586	42023436	494	63447										
RIMS2	9699	broad.mit.edu	37	chr8	104897584	104897584	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gatacgaccaaagggaagaaAgagaggaatattcacagtat	11	5	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:104897584A>G	uc003yls.2	+	2	332	c.91A>G	c.(91-93)AGA>GGA	p.R31G	RIMS2_uc003ylp.2_Missense_Mutation_p.R253G|RIMS2_uc003ylw.2_Missense_Mutation_p.R61G|RIMS2_uc003ylq.2_Missense_Mutation_p.R61G|RIMS2_uc003ylr.2_Missense_Mutation_p.R61G	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	284					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AAGGGAAGAAAGAGAGGAATA	0.403										HNSCC(12;0.0054)			7	30	---	---	---	---	PASS	G	104897584	G	G	104897584	3	3	178	1	0	0	0	0	1	0	0	0	13368	64	3	5	897	5	RIMS2	8	104897584	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	556998	104897584	41466438	495	63448										
ENY2	56943	broad.mit.edu	37	chr8	110355665	110355665	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacagtgtaaagaaggagctCctacaaagaataagaacatt	9	6	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:110355665C>A	uc003ynd.2	+	5	323	c.261C>A	c.(259-261)CTC>CTA	p.L87L	ENY2_uc003ync.2_Silent_p.L82L	NM_020189	NP_064574	Q9NPA8	ENY2_HUMAN	enhancer of yellow 2 homolog	87					histone deubiquitination|mRNA transport|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity				0	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;9.05e-13)			AGAAGGAGCTCCTACAAAGAA	0.338													7	190	---	---	---	---	PASS	A	110355665	A	A	110355665	2	1	178	1	0	0	0	0	0	0	0	1	5146	842	30	2		2	ENY2	8	110355665	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	5458081	110355665	36008357	496	63449										
PKHD1L1	93035	broad.mit.edu	37	chr8	110476645	110476645	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagggaggagcattttttatAgaagatggtattgaacatgg	13	2	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:110476645A>T	uc003yne.2	+	49	7688	c.7584A>T	c.(7582-7584)ATA>ATT	p.I2528I		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2528	PbH1 1.|Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CATTTTTTATAGAAGATGGTA	0.388										HNSCC(38;0.096)			5	37	---	---	---	---	PASS	T	110476645	T	T	110476645	2	4	178	1	0	0	0	0	0	0	0	1	11972	410	15	5		5	PKHD1L1	8	110476645	Silent	SNP	A	TCGA-85-6561-01A-11D-1817-08	120980	110476645	35887377	497	63450										
PKHD1L1	93035	broad.mit.edu	37	chr8	110509432	110509432	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctggttgacaatggaatggcCatttttccaatgatttacat	8	7	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:110509432C>A	uc003yne.2	+	65	10634	c.10530C>A	c.(10528-10530)GCC>GCA	p.A3510A		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3510	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ATGGAATGGCCATTTTTCCAA	0.353										HNSCC(38;0.096)			8	121	---	---	---	---	PASS	A	110509432	A	A	110509432	2	1	178	1	0	0	0	0	0	0	0	1	11972	581	21	3		3	PKHD1L1	8	110509432	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	32787	110509432	35854590	498	63451										
CSMD3	114788	broad.mit.edu	37	chr8	113241017	113241017	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agataaaatccaaatcctgcAaatataagtgcaaaaaaagg	6	6	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:113241017A>C	uc003ynu.2	-	70	11091	c.10932T>G	c.(10930-10932)TTT>TTG	p.F3644L	CSMD3_uc003yns.2_Missense_Mutation_p.F2846L|CSMD3_uc003ynt.2_Missense_Mutation_p.F3604L|CSMD3_uc011lhx.1_Missense_Mutation_p.F3475L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3644	Helical; (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						CAAATCCTGCAAATATAAGTG	0.308										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			12	90	---	---	---	---	PASS	C	113241017	C	C	113241017	3	2	178	1	0	0	0	0	1	0	0	0	3946	127	5	5	199	5	CSMD3	8	113241017	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	2731585	113241017	33123005	499	63452										
CSMD3	114788	broad.mit.edu	37	chr8	113484930	113484930	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aacctgttgaacgacttccaCagggcgctaggaaaaaatgg	11	9	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:113484930C>A	uc003ynu.2	-	32	5444	c.5285G>T	c.(5284-5286)TGT>TTT	p.C1762F	CSMD3_uc003yns.2_Missense_Mutation_p.C1034F|CSMD3_uc003ynt.2_Missense_Mutation_p.C1722F|CSMD3_uc011lhx.1_Missense_Mutation_p.C1658F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1762	Extracellular (Potential).|CUB 10.					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						ACGACTTCCACAGGGCGCTAG	0.318										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			6	74	---	---	---	---	PASS	A	113484930	A	A	113484930	3	1	178	1	0	0	0	0	1	0	0	0	3946	478	17	3	5998	3	CSMD3	8	113484930	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	243913	113484930	32879092	500	63453										
EIF3H	8667	broad.mit.edu	37	chr8	117658799	117658799	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagggagcgggggttctcctCggctctggcgctgcatattc	15	12	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:117658799C>A	uc003yoa.2	-	7	898	c.872G>T	c.(871-873)CGA>CTA	p.R291L	EIF3H_uc003yob.2_Missense_Mutation_p.R305L	NM_003756	NP_003747	O15372	EIF3H_HUMAN	eukaryotic translation initiation factor 3,	291					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(3)	3	all_cancers(13;3.98e-22)|Lung NSC(37;0.000183)|Ovarian(258;0.0172)					GGGTTCTCCTCGGCTCTGGCG	0.517													6	128	---	---	---	---	PASS	A	117658799	A	A	117658799	3	1	178	1	0	0	0	0	1	0	0	0	5018	884	31	2	194	2	EIF3H	8	117658799	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4173869	117658799	28705223	501	63454										
FBXO32	114907	broad.mit.edu	37	chr8	124546943	124546943	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttcaaaacaaatggcttacaCtgagttttggttttgctatt	7	6	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:124546943C>A	uc003yqr.2	-	2	420	c.228G>T	c.(226-228)CAG>CAT	p.Q76H	FBXO32_uc003yqq.2_5'Flank|FBXO32_uc010mdk.2_Missense_Mutation_p.Q76H	NM_058229	NP_478136	Q969P5	FBX32_HUMAN	F-box only protein 32 isoform 1	76										skin(3)|breast(2)|lung(1)	6	Lung NSC(37;1.13e-13)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			ATGGCTTACACTGAGTTTTGG	0.368													6	90	---	---	---	---	PASS	A	124546943	A	A	124546943	3	1	178	1	0	0	0	0	1	0	0	0	5742	579	20	3	871	3	FBXO32	8	124546943	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	6888144	124546943	21817079	502	63455										
TATDN1	83940	broad.mit.edu	37	chr8	125531059	125531059	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taaaagaaatatgaggatacCatttgtttgtgccaaatgca	8	5	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:125531059C>A	uc003yrd.2	-	4	244	c.202G>T	c.(202-204)GGT>TGT	p.G68C	TATDN1_uc003yre.2_RNA|TATDN1_uc010mdm.2_Missense_Mutation_p.G21C|TATDN1_uc003yrf.2_Missense_Mutation_p.G68C	NM_032026	NP_114415	Q6P1N9	TATD1_HUMAN	TatD DNase domain containing 1 isoform a	68						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding				0	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			ATGAGGATACCATTTGTTTGT	0.299													7	128	---	---	---	---	PASS	A	125531059	A	A	125531059	3	1	178	1	0	0	0	0	1	0	0	0	15588	608	21	3	727	3	TATDN1	8	125531059	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	984116	125531059	20832963	503	63456										
ZNF572	137209	broad.mit.edu	37	chr8	125989495	125989495	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atacaggagaaaagccttatCaatgtccagaatgtgggaag	11	6	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:125989495C>G	uc003yrr.2	+	3	1140	c.985C>G	c.(985-987)CAA>GAA	p.Q329E		NM_152412	NP_689625	Q7Z3I7	ZN572_HUMAN	zinc finger protein 572	329	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			AAAGCCTTATCAATGTCCAGA	0.358										HNSCC(60;0.17)			4	58	---	---	---	---	PASS	G	125989495	G	G	125989495	3	3	178	1	0	0	0	0	1	0	0	0	18001	827	29	2	991	2	ZNF572	8	125989495	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	458436	125989495	20374527	504	63457										
KCNQ3	3786	broad.mit.edu	37	chr8	133150167	133150167	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttatcctggaaagcatgtcGagatgcccggcagaatactg	11	9	0	2	rs143511163	by1000genomes	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:133150167G>T	uc003ytj.2	-	12	1890	c.1665C>A	c.(1663-1665)CTC>CTA	p.L555L	KCNQ3_uc010mdt.2_Silent_p.L555L	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	555					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			AAAGCATGTCGAGATGCCCGG	0.458													6	110	---	---	---	---	PASS	T	133150167	T	T	133150167	2	4	178	1	0	0	0	0	0	0	0	1	8084	1045	37	2		2	KCNQ3	8	133150167	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	7160672	133150167	13213855	505	63458										
COL22A1	169044	broad.mit.edu	37	chr8	139668172	139668172	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atttatgtcccctggagacaGtagtgaagagaggccctgtc	12	9	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:139668172G>T	uc003yvd.2	-	45	3748	c.3301C>A	c.(3301-3303)CTG>ATG	p.L1101M	COL22A1_uc011ljo.1_Missense_Mutation_p.L381M	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1101	Pro-rich.|Gly-rich.				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)			CCTGGAGACAGTAGTGAAGAG	0.378										HNSCC(7;0.00092)			7	196	---	---	---	---	PASS	T	139668172	T	T	139668172	3	4	178	1	0	0	0	0	1	0	0	0	3681	1020	36	3	1663	3	COL22A1	8	139668172	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6518005	139668172	6695850	506	63459										
GSDMD	79792	broad.mit.edu	37	chr8	144644930	144644930	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agctggggcgaaggagcaccGgcctgggtcttgctggacga	18	10	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:144644930G>A	uc010mfe.2	+	14	2014	c.1311G>A	c.(1309-1311)CCG>CCA	p.P437P	GSDMD_uc003yyf.2_Silent_p.P485P|GSDMD_uc003yyg.2_Silent_p.P437P|GSDMD_uc003yyh.2_Silent_p.P368P	NM_024736	NP_079012	P57764	GSDMD_HUMAN	gasdermin D	437				SGMLVPELAIPVVYLLGALTMLSETQHKLLAEALESQTLLG PLELVGSLLEQSAPWQERSTMSLPPGLLGNSWGEGAPAWVL LDECGLELGEDTPHVCWEPQAQGRMCALYASLALLSGLSQE P -> PECWCRNSLSLLSTCWG (in Ref. 1; AAG22861).							0						AAGGAGCACCGGCCTGGGTCT	0.697													3	1	---	---	---	---	PASS	A	144644930	A	A	144644930	2	1	178	1	0	0	0	0	0	0	0	1	6819	1103	39	1		1	GSDMD	8	144644930	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	4976758	144644930	1719092	507	63460										
ZNF623	9831	broad.mit.edu	37	chr8	144733436	144733436	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctatgtgtgcagttattgtgGgaaaggctttattcagaggt	13	4	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:144733436G>T	uc003yzd.2	+	1	1483	c.1394G>T	c.(1393-1395)GGG>GTG	p.G465V	ZNF623_uc011lkp.1_Missense_Mutation_p.G425V|ZNF623_uc003yzc.2_Missense_Mutation_p.G425V	NM_014789	NP_055604	O75123	ZN623_HUMAN	zinc finger protein 623 isoform 1	465	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	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;2.46e-41)|Epithelial(56;5.28e-40)|all cancers(56;5.23e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			AGTTATTGTGGGAAAGGCTTT	0.418													6	56	---	---	---	---	PASS	T	144733436	T	T	144733436	3	4	178	1	0	0	0	0	1	0	0	0	18044	1232	43	3	1396	3	ZNF623	8	144733436	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	88506	144733436	1630586	508	63461										
PUF60	22827	broad.mit.edu	37	chr8	144898966	144898966	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atgtccttggggtccaccatGttgcgcagaaccatcactgt	10	12	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:144898966G>T	uc003yzs.2	-	12	1468	c.1404C>A	c.(1402-1404)AAC>AAA	p.N468K	SCRIB_uc003yzo.1_5'Flank|SCRIB_uc003yzp.1_5'Flank|PUF60_uc003yzr.2_Missense_Mutation_p.N408K|PUF60_uc003yzt.2_Missense_Mutation_p.N451K|PUF60_uc003yzq.2_Missense_Mutation_p.N425K	NM_078480	NP_510965	Q9UHX1	PUF60_HUMAN	poly-U binding splicing factor 60KDa isoform a	468	RRM 3; atypical.|Inhibits homodimerization.|Inhibits transcriptional repression, interaction with ERCC3 and apoptosis induction.				apoptosis|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleus|ribonucleoprotein complex	DNA binding|nucleotide binding|protein binding|RNA binding				0	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-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;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			GGTCCACCATGTTGCGCAGAA	0.632													5	32	---	---	---	---	PASS	T	144898966	T	T	144898966	3	4	178	1	0	0	0	0	1	0	0	0	12824	1368	48	3	279	3	PUF60	8	144898966	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	165530	144898966	1465056	509	63462										
RPL8	6132	broad.mit.edu	37	chr8	146017419	146017419	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccgtgccgctcagcgaaatcCacggcgcgcaggcgcgcagc	14	17	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr8:146017419C>A	uc003zeb.2	-	2	207	c.96G>T	c.(94-96)GTG>GTT	p.V32V	RPL8_uc003zdz.2_RNA|RPL8_uc003zea.2_Silent_p.V32V|RPL8_uc003zec.2_Silent_p.V32V|RPL8_uc010mgc.2_Silent_p.V32V|RPL8_uc011lll.1_5'Flank	NM_033301	NP_150644	P62917	RL8_HUMAN	ribosomal protein L8	32					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	rRNA binding|structural constituent of ribosome				0	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;5.47e-39)|OV - Ovarian serous cystadenocarcinoma(54;6.38e-39)|all cancers(56;5.47e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.191)		CAGCGAAATCCACGGCGCGCA	0.701													4	10	---	---	---	---	PASS	A	146017419	A	A	146017419	2	1	178	1	0	0	0	0	0	0	0	1	13602	581	21	3		3	RPL8	8	146017419	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1118453	146017419	346603	510	63463										
SMARCA2	6595	broad.mit.edu	37	chr9	2033005	2033005	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaagacatccattgtggatcCatgaagggcactggtatgcg	13	8	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:2033005C>A	uc003zhc.2	+	3	378	c.279C>A	c.(277-279)TCC>TCA	p.S93S	SMARCA2_uc003zhd.2_Silent_p.S93S|SMARCA2_uc010mha.2_Silent_p.S84S	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	93					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		ATTGTGGATCCATGAAGGGCA	0.483													6	79	---	---	---	---	PASS	A	2033005	A	A	2033005	2	1	178	1	0	0	0	0	0	0	0	1	14769	581	21	3		3	SMARCA2	9	2033005	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08		2033005	139180426	511	63464										
UHRF2	115426	broad.mit.edu	37	chr9	6460735	6460735	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggtttgatgcagaaattacCacattgaagacaatctcaag	8	7	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:6460735C>A	uc003zjy.2	+	4	1147	c.807C>A	c.(805-807)ACC>ACA	p.T269T	UHRF2_uc003zjz.2_RNA|UHRF2_uc003zka.1_Silent_p.T46T	NM_152896	NP_690856	Q96PU4	UHRF2_HUMAN	ubiquitin-like with PHD and ring finger domains	269	Interaction with PCNP.				cell cycle|cell differentiation|cell proliferation|protein autoubiquitination|regulation of cell cycle|ubiquitin-dependent protein catabolic process	nucleus	DNA binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0392)|Lung(218;0.129)		CAGAAATTACCACATTGAAGA	0.348													7	107	---	---	---	---	PASS	A	6460735	A	A	6460735	2	1	178	1	0	0	0	0	0	0	0	1	16967	581	21	3		3	UHRF2	9	6460735	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	4427730	6460735	134752696	512	63465										
GLDC	2731	broad.mit.edu	37	chr9	6595065	6595065	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctcctagcaatatgctccaGcccatgggaaccatggtaga	9	13	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:6595065G>T	uc003zkc.2	-	9	1403	c.1210C>A	c.(1210-1212)CTG>ATG	p.L404M		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	404					glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	ATATGCTCCAGCCCATGGGAA	0.393													7	272	---	---	---	---	PASS	T	6595065	T	T	6595065	3	4	178	1	0	0	0	0	1	0	0	0	6433	962	34	3	1920	3	GLDC	9	6595065	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	134330	6595065	134618366	513	63466										
C9orf82	79886	broad.mit.edu	37	chr9	26884875	26884875	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttccatatcagagtccattcCattgtcaccttataaatgaa	4	10	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:26884875C>A	uc003zqc.2	-	4	610	c.598G>T	c.(598-600)GGA>TGA	p.G200*	C9orf82_uc003zqb.2_Nonsense_Mutation_p.G55*	NM_024828	NP_079104	Q9H8G2	CI082_HUMAN	hypothetical protein LOC79886	200											0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(42;1.39e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)		GAGTCCATTCCATTGTCACCT	0.284													9	292	---	---	---	---	PASS	A	26884875	A	A	26884875	4	1	178	1	0	0	0	0	0	1	0	0	2499	603	21	3	499	3	C9orf82	9	26884875	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	20289810	26884875	114328556	514	63467										
TAF1L	138474	broad.mit.edu	37	chr9	32630222	32630222	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actcagctggatagcagagaAaggattgtctccttcttcgt	10	9	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:32630222A>T	uc003zrg.1	-	1	5446	c.5356T>A	c.(5356-5358)TTC>ATC	p.F1786I		NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1786					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		ATAGCAGAGAAAGGATTGTCT	0.458													39	61	---	---	---	---	PASS	T	32630222	T	T	32630222	3	4	178	1	0	0	0	0	1	0	0	0	15520	14	1	5	128	5	TAF1L	9	32630222	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	5745347	32630222	108583209	515	63468										
UBAP2	55833	broad.mit.edu	37	chr9	33948493	33948493	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtggtaaactggcccaaactCggagctttcaactggtccaa	10	11	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:33948493C>A	uc003ztq.1	-	13	1262	c.1149G>T	c.(1147-1149)CCG>CCT	p.P383P	UBAP2_uc011loc.1_Silent_p.P292P|UBAP2_uc011lod.1_Silent_p.P116P|UBAP2_uc011loe.1_Silent_p.P138P|UBAP2_uc011lof.1_Silent_p.P308P|UBAP2_uc011log.1_Silent_p.P329P|UBAP2_uc003ztr.2_Silent_p.P255P|UBAP2_uc003zts.2_Silent_p.P16P	NM_018449	NP_060919	Q5T6F2	UBAP2_HUMAN	ubiquitin associated protein 2	383										ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)		GGCCCAAACTCGGAGCTTTCA	0.488													6	149	---	---	---	---	PASS	A	33948493	A	A	33948493	2	1	178	1	0	0	0	0	0	0	0	1	16834	871	31	2		2	UBAP2	9	33948493	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1318271	33948493	107264938	516	63469										
C9orf23	138716	broad.mit.edu	37	chr9	34610925	34610925	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcattggggtccagggggtcCcggctgagcagcacccacac	14	14	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:34610925C>A	uc003zuu.2	-	2	650	c.369G>T	c.(367-369)CGG>CGT	p.R123R	C9orf23_uc003zuv.2_Silent_p.R123R	NM_148179	NP_680545	Q8N5L8	CI023_HUMAN	hypothetical protein LOC138716	123							nucleic acid binding				0	all_epithelial(49;0.0863)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.0385)		CCAGGGGGTCCCGGCTGAGCA	0.652													5	23	---	---	---	---	PASS	A	34610925	A	A	34610925	2	1	178	1	0	0	0	0	0	0	0	1	2474	610	22	3		3	C9orf23	9	34610925	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	662432	34610925	106602506	517	63470										
CREB3	10488	broad.mit.edu	37	chr9	35736299	35736299	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caagggggagcctgccagctGagcatggaggtaagaggctt	17	8	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:35736299G>T	uc003zxv.2	+	8	1225	c.772G>T	c.(772-774)GAG>TAG	p.E258*	CREB3_uc010mla.2_Nonsense_Mutation_p.E177*	NM_006368	NP_006359	O43889	CREB3_HUMAN	cAMP responsive element binding protein 3	282	Lumenal (Potential).				chemotaxis|induction of positive chemotaxis|interspecies interaction between organisms|negative regulation of cell cycle|positive regulation of calcium ion transport|positive regulation of cell migration|positive regulation of transcription, DNA-dependent|reactivation of latent virus|regulation of cell proliferation	cytosol|endoplasmic reticulum|endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|integral to membrane|nucleus|nucleus	cAMP response element binding protein binding|CCR1 chemokine receptor binding|DNA binding|protein dimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity				0	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)	GBM - Glioblastoma multiforme(74;0.0285)		CCTGCCAGCTGAGCATGGAGG	0.537											OREG0019176	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	107	---	---	---	---	PASS	T	35736299	T	T	35736299	4	4	178	1	0	0	0	0	0	1	0	0	3855	1291	45	2	802	2	CREB3	9	35736299	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1125374	35736299	105477132	518	63471										
MSMP	692094	broad.mit.edu	37	chr9	35754006	35754006	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccccactttaccttgagcttGgaagtagcacttgctgtaga	9	11	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:35754006G>T	uc003zyb.1	-	1	267	c.121C>A	c.(121-123)CAA>AAA	p.Q41K		NM_001044264	NP_001037729	Q1L6U9	MSMP_HUMAN	PC3-secreted microprotein precursor	41						extracellular region					0						CCTTGAGCTTGGAAGTAGCAC	0.562													8	169	---	---	---	---	PASS	T	35754006	T	T	35754006	3	4	178	1	0	0	0	0	1	0	0	0	9884	1357	47	3	310	3	MSMP	9	35754006	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	17707	35754006	105459425	519	63472										
NPR2	4882	broad.mit.edu	37	chr9	35808587	35808587	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gccatgcaccagaaattgctCgtatggccctagcattacta	8	12	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:35808587C>A	uc003zyd.2	+	19	2794	c.2794C>A	c.(2794-2796)CGT>AGT	p.R932S	NPR2_uc010mlb.2_Missense_Mutation_p.R908S|SPAG8_uc003zye.2_Intron	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	932	Guanylate cyclase.|Cytoplasmic (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	AGAAATTGCTCGTATGGCCCT	0.542													4	37	---	---	---	---	PASS	A	35808587	A	A	35808587	3	1	178	1	0	0	0	0	1	0	0	0	10595	884	31	2	2868	2	NPR2	9	35808587	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	54581	35808587	105404844	520	63473										
CNTNAP3	79937	broad.mit.edu	37	chr9	39086791	39086791	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gccatgtttttaaaatcaaaGgtaaatgcatcaggattttg	8	5	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:39086791G>T	uc004abi.2	-	20	3515	c.3276C>A	c.(3274-3276)ACC>ACA	p.T1092T	CNTNAP3_uc004abj.2_Silent_p.T1011T|CNTNAP3_uc011lqr.1_RNA|CNTNAP3_uc004abk.1_Silent_p.T1092T	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor	1092	Laminin G-like 4.|Extracellular (Potential).				cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		TAAAATCAAAGGTAAATGCAT	0.338													7	90	---	---	---	---	PASS	T	39086791	T	T	39086791	2	4	178	1	0	0	0	0	0	0	0	1	3648	987	35	3		3	CNTNAP3	9	39086791	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	3278204	39086791	102126640	521	63474										
TRPM6	140803	broad.mit.edu	37	chr9	77442742	77442742	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttctccaggttccttctgaGcttcatttcatttccatact	4	13	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:77442742G>A	uc004ajl.1	-	7	1031	c.793C>T	c.(793-795)CTC>TTC	p.L265F	TRPM6_uc004ajk.1_Missense_Mutation_p.L260F|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.L265F|TRPM6_uc010mpd.1_Missense_Mutation_p.L265F|TRPM6_uc010mpe.1_Missense_Mutation_p.L265F|TRPM6_uc004ajn.1_Missense_Mutation_p.L265F	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	265	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						TTCCTTCTGAGCTTCATTTCA	0.522													17	42	---	---	---	---	PASS	A	77442742	A	A	77442742	3	1	178	1	0	0	0	0	1	0	0	0	16587	971	34	3	5407	3	TRPM6	9	77442742	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	38355951	77442742	63770689	522	63475										
GCNT1	2650	broad.mit.edu	37	chr9	79117357	79117357	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cccaccaaatactactttatGgttcttgttttatccctaat	3	11	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:79117357G>T	uc010mpf.2	+	3	401	c.60G>T	c.(58-60)ATG>ATT	p.M20I	GCNT1_uc010mpg.2_Missense_Mutation_p.M20I|GCNT1_uc010mph.2_Missense_Mutation_p.M20I|GCNT1_uc004akf.3_Missense_Mutation_p.M20I|GCNT1_uc010mpi.2_Missense_Mutation_p.M20I|GCNT1_uc004akh.3_Missense_Mutation_p.M20I	NM_001490	NP_001481	Q02742	GCNT1_HUMAN	beta-1,3-galactosyl-O-glycosyl-glycoprotein	20	Helical; Signal-anchor for type II membrane protein; (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity				0						ACTACTTTATGGTTCTTGTTT	0.408													7	105	---	---	---	---	PASS	T	79117357	T	T	79117357	3	4	178	1	0	0	0	0	1	0	0	0	6300	1348	47	3	62	3	GCNT1	9	79117357	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1674615	79117357	62096074	523	63476										
PSAT1	29968	broad.mit.edu	37	chr9	80921340	80921340	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actttatacccgatgtcaagGgagcagtactggtttgtgac	11	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:80921340G>T	uc004ala.2	+	5	576	c.508G>T	c.(508-510)GGA>TGA	p.G170*	PSAT1_uc004alb.2_Nonsense_Mutation_p.G170*	NM_058179	NP_478059	Q9Y617	SERC_HUMAN	phosphoserine aminotransferase 1 isoform 1	170					L-serine biosynthetic process|pyridoxine biosynthetic process		O-phospho-L-serine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)	CGATGTCAAGGGAGCAGTACT	0.498													8	212	---	---	---	---	PASS	T	80921340	T	T	80921340	4	4	178	1	0	0	0	0	0	1	0	0	12644	1233	43	3	526	3	PSAT1	9	80921340	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1803983	80921340	60292091	524	63477										
RASEF	158158	broad.mit.edu	37	chr9	85619503	85619503	+	Splice_Site	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtgagatattatttatatgcTgtaatatagaagtaatcatt	7	2	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:85619503T>A	uc004amo.1	-	9	1375	c.1114_splice	c.e9-1	p.H372_splice		NM_152573	NP_689786	Q8IZ41	RASEF_HUMAN	RAS and EF-hand domain containing						protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3						ATTTATATGCTGTAATATAGA	0.323													6	54	---	---	---	---	PASS	A	85619503	A	A	85619503	5	1	178	1	0	0	0	0	0	0	1	0	13068	1594	55	5	1146	5	RASEF	9	85619503	Splice_Site	SNP	T	TCGA-85-6561-01A-11D-1817-08	4698163	85619503	55593928	525	63478										
UBQLN1	29979	broad.mit.edu	37	chr9	86293468	86293468	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcaaagctcggtcctggttcCtcatcatctcctgcatcatt	6	14	5	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:86293468C>A	uc004amv.2	-	5	1332	c.758G>T	c.(757-759)AGG>ATG	p.R253M	UBQLN1_uc004amw.2_Missense_Mutation_p.R253M	NM_013438	NP_038466	Q9UMX0	UBQL1_HUMAN	ubiquilin 1 isoform 1	253					apoptosis|regulation of protein ubiquitination|response to hypoxia	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm|proteasome complex	kinase binding				0						GTCCTGGTTCCTCATCATCTC	0.418													12	357	---	---	---	---	PASS	A	86293468	A	A	86293468	3	1	178	1	0	0	0	0	1	0	0	0	16893	681	24	3	1039	3	UBQLN1	9	86293468	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	673965	86293468	54919963	526	63479										
HNRNPK	3190	broad.mit.edu	37	chr9	86588865	86588865	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agcgggagctggctggttgcAgtgggtgatggcaactgcag	19	7	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:86588865A>C	uc004ang.3	-	8	578	c.354T>G	c.(352-354)ACT>ACG	p.T118T	HNRNPK_uc011lsw.1_5'UTR|HNRNPK_uc004and.3_5'UTR|HNRNPK_uc004ank.3_Silent_p.T118T|HNRNPK_uc004anf.3_Silent_p.T118T|HNRNPK_uc004anh.3_Intron|HNRNPK_uc011lsx.1_Intron|HNRNPK_uc004ani.3_Silent_p.T118T|HNRNPK_uc004anj.3_Silent_p.T118T|HNRNPK_uc004ann.3_Intron|HNRNPK_uc004anl.3_Silent_p.T118T|HNRNPK_uc004anm.3_Silent_p.T118T	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	118	5 X 4 AA repeats of G-X-G-G.|Necessary for interaction with DDX1.|2 X 22 AA approximate repeats.|Interaction with ASFV p30.				interspecies interaction between organisms|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of low-density lipoprotein particle clearance|signal transduction	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nuclear chromatin|nucleoplasm	protein binding|RNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|single-stranded DNA binding			skin(1)	1						GGCTGGTTGCAGTGGGTGATG	0.468													12	35	---	---	---	---	PASS	C	86588865	C	C	86588865	2	2	178	1	0	0	0	0	0	0	0	1	7269	175	7	5		5	HNRNPK	9	86588865	Silent	SNP	A	TCGA-85-6561-01A-11D-1817-08	295397	86588865	54624566	527	63480										
FAM120A	23196	broad.mit.edu	37	chr9	96259804	96259804	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcgacgtagtgatcaaagccGttgctgactatgtacgcaac	11	10	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:96259804G>T	uc004atw.2	+	4	881	c.856G>T	c.(856-858)GTT>TTT	p.V286F	FAM120A_uc004atv.2_Missense_Mutation_p.V286F|FAM120A_uc004atx.2_Missense_Mutation_p.V68F|FAM120A_uc004aty.2_Missense_Mutation_p.V68F	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	286						cytoplasm|plasma membrane	RNA binding				0						GATCAAAGCCGTTGCTGACTA	0.463													7	43	---	---	---	---	PASS	T	96259804	T	T	96259804	3	4	178	1	0	0	0	0	1	0	0	0	5415	1145	40	1	870	1	FAM120A	9	96259804	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	9670939	96259804	44953627	528	63481										
RNF20	56254	broad.mit.edu	37	chr9	104309491	104309491	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcacaatcactatcaatgctCggaaggtaaaatcagtgact	8	9	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:104309491C>A	uc004bbn.2	+	8	1057	c.967C>A	c.(967-969)CGG>AGG	p.R323R		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	323	Potential.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		TATCAATGCTCGGAAGGTAAA	0.433													5	104	---	---	---	---	PASS	A	104309491	A	A	104309491	2	1	178	1	0	0	0	0	0	0	0	1	13473	875	31	2		2	RNF20	9	104309491	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	8049687	104309491	36903940	529	63482										
SMC2	10592	broad.mit.edu	37	chr9	106891965	106891965	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attatgactggattaatgcaGagagacacctctttggccaa	9	8	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:106891965G>T	uc004bbv.2	+	21	3118	c.2830G>T	c.(2830-2832)GAG>TAG	p.E944*	SMC2_uc004bbw.2_Nonsense_Mutation_p.E944*|SMC2_uc011lvl.1_Nonsense_Mutation_p.E944*|SMC2_uc004bbx.2_Nonsense_Mutation_p.E944*|SMC2_uc004bby.2_RNA	NM_001042551	NP_001036016	O95347	SMC2_HUMAN	structural maintenance of chromosomes 2	944					cell division|mitotic chromosome condensation|symbiosis, encompassing mutualism through parasitism	condensin complex|cytoplasm|nuclear chromosome	ATP binding|protein heterodimerization activity			ovary(4)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|breast(1)	9						GATTAATGCAGAGAGACACCT	0.368													9	175	---	---	---	---	PASS	T	106891965	T	T	106891965	4	4	178	1	0	0	0	0	0	1	0	0	14783	943	33	2	2908	2	SMC2	9	106891965	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2582474	106891965	34321466	530	63483										
C9orf84	158401	broad.mit.edu	37	chr9	114520464	114520464	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttccaaagtttcttgaagaGagaaacattcccttaaaaaa	5	8	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:114520464G>A	uc004bfr.2	-	5	551	c.416C>T	c.(415-417)TCT>TTT	p.S139F	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfs.1_Missense_Mutation_p.S203F|C9orf84_uc004bfq.2_Missense_Mutation_p.S100F|C9orf84_uc010mug.2_Missense_Mutation_p.S85F	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	139										ovary(2)	2						TTCTTGAAGAGAGAAACATTC	0.264													5	31	---	---	---	---	PASS	A	114520464	A	A	114520464	3	1	178	1	0	0	0	0	1	0	0	0	2500	942	33	2	4006	2	C9orf84	9	114520464	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	7628499	114520464	26692967	531	63484										
SLC31A1	1317	broad.mit.edu	37	chr9	116022625	116022625	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggtggtcataagctacttcCtcatgctcatcttcatgacc	7	12	5	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:116022625C>A	uc004bgu.2	+	5	631	c.445C>A	c.(445-447)CTC>ATC	p.L149I	FKBP15_uc010muu.1_Intron|SLC31A1_uc004bgv.3_Intron	NM_001859	NP_001850	O15431	COPT1_HUMAN	solute carrier family 31 (copper transporters),	149	Helical; (Potential).					integral to plasma membrane	copper ion transmembrane transporter activity				0						AAGCTACTTCCTCATGCTCAT	0.512													8	74	---	---	---	---	PASS	A	116022625	A	A	116022625	3	1	178	1	0	0	0	0	1	0	0	0	14563	681	24	3	459	3	SLC31A1	9	116022625	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1502161	116022625	25190806	532	63485										
OR1J4	26219	broad.mit.edu	37	chr9	125281654	125281654	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccctttcatctgtcactgtcCcaaagatgttattaagcatg	6	11	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:125281654C>A	uc011lyw.1	+	1	235	c.235C>A	c.(235-237)CCA>ACA	p.P79T		NM_001004452	NP_001004452	Q8NGS1	OR1J4_HUMAN	olfactory receptor, family 1, subfamily J,	79	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGTCACTGTCCCAAAGATGTT	0.438													7	126	---	---	---	---	PASS	A	125281654	A	A	125281654	3	1	178	1	0	0	0	0	1	0	0	0	10961	623	22	3	237	3	OR1J4	9	125281654	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	9259029	125281654	15931777	533	63486										
HSPA5	3309	broad.mit.edu	37	chr9	127999307	127999307	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccttgtcttcagctgtcactCgaagaataccattcacatct	5	13	5	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:127999307C>A	uc004bpn.2	-	8	1785	c.1529G>T	c.(1528-1530)CGA>CTA	p.R510L		NM_005347	NP_005338	P11021	GRP78_HUMAN	heat shock 70kDa protein 5	510					anti-apoptosis|cellular response to glucose starvation|ER-associated protein catabolic process|platelet activation|platelet degranulation|regulation of protein folding in endoplasmic reticulum	cell surface|endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|integral to endoplasmic reticulum membrane|melanosome|midbody|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|calcium ion binding|caspase inhibitor activity|chaperone binding|misfolded protein binding|protein binding, bridging|protein domain specific binding|ubiquitin protein ligase binding|unfolded protein binding			ovary(3)|skin(1)	4					Antihemophilic Factor(DB00025)	AGCTGTCACTCGAAGAATACC	0.443										Prostate(1;0.17)			6	122	---	---	---	---	PASS	A	127999307	A	A	127999307	3	1	178	1	0	0	0	0	1	0	0	0	7414	884	31	2	439	2	HSPA5	9	127999307	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2717653	127999307	13214124	534	63487										
HSPA5	3309	broad.mit.edu	37	chr9	128001526	128001526	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atggtgagaagagacacatcGaaggttccgccacccaggtc	12	11	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:128001526G>A	uc004bpn.2	-	5	946	c.690C>T	c.(688-690)TTC>TTT	p.F230F		NM_005347	NP_005338	P11021	GRP78_HUMAN	heat shock 70kDa protein 5	230					anti-apoptosis|cellular response to glucose starvation|ER-associated protein catabolic process|platelet activation|platelet degranulation|regulation of protein folding in endoplasmic reticulum	cell surface|endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|integral to endoplasmic reticulum membrane|melanosome|midbody|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|calcium ion binding|caspase inhibitor activity|chaperone binding|misfolded protein binding|protein binding, bridging|protein domain specific binding|ubiquitin protein ligase binding|unfolded protein binding			ovary(3)|skin(1)	4					Antihemophilic Factor(DB00025)	GAGACACATCGAAGGTTCCGC	0.488										Prostate(1;0.17)			10	27	---	---	---	---	PASS	A	128001526	A	A	128001526	2	1	178	1	0	0	0	0	0	0	0	1	7414	1049	37	2		2	HSPA5	9	128001526	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2219	128001526	13211905	535	63488										
DOLPP1	57171	broad.mit.edu	37	chr9	131846978	131846978	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggccacctccttgcctacctGagcctcagccctgtatttgt	8	16	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:131846978G>T	uc004bxc.2	+	2	136	c.108G>T	c.(106-108)CTG>CTT	p.L36L	DOLPP1_uc004bxd.2_Silent_p.L36L|DOLPP1_uc004bxe.2_RNA|DOLPP1_uc004bxf.2_5'Flank	NM_020438	NP_065171	Q86YN1	DOPP1_HUMAN	dolichyl pyrophosphate phosphatase 1 isoform a	36	Helical; (Potential).				dolichyl diphosphate biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to endoplasmic reticulum membrane	dolichyldiphosphatase activity			skin(1)	1						TTGCCTACCTGAGCCTCAGCC	0.567													10	264	---	---	---	---	PASS	T	131846978	T	T	131846978	2	4	178	1	0	0	0	0	0	0	0	1	4704	1277	45	2		2	DOLPP1	9	131846978	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	3845452	131846978	9366453	536	63489										
TOR1B	27348	broad.mit.edu	37	chr9	132566464	132566464	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aatcccaagaaaccactgacCctttccttacacggctgggc	7	15	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:132566464C>A	uc004byk.1	+	2	372	c.312C>A	c.(310-312)ACC>ACA	p.T104T		NM_014506	NP_055321	O14657	TOR1B_HUMAN	torsin family 1, member B (torsin B) precursor	104					chaperone mediated protein folding requiring cofactor|response to unfolded protein	endoplasmic reticulum lumen	ATP binding|nucleoside-triphosphatase activity|unfolded protein binding				0		Ovarian(14;0.0586)				AACCACTGACCCTTTCCTTAC	0.468													7	82	---	---	---	---	PASS	A	132566464	A	A	132566464	2	1	178	1	0	0	0	0	0	0	0	1	16371	610	22	3		3	TOR1B	9	132566464	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	719486	132566464	8646967	537	63490										
TOR1A	1861	broad.mit.edu	37	chr9	132576405	132576405	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcgggactgcatttccactCggatacacatttttaggtgt	9	10	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:132576405C>A	uc004byl.2	-	5	922	c.845G>T	c.(844-846)CGA>CTA	p.R282L	TOR1A_uc004bym.2_RNA	NM_000113	NP_000104	O14656	TOR1A_HUMAN	torsin A precursor	282					chaperone mediated protein folding requiring cofactor|response to unfolded protein	endoplasmic reticulum lumen|nuclear membrane	ATP binding|serine-type endopeptidase activity|unfolded protein binding			central_nervous_system(1)	1		Ovarian(14;0.00556)				CATTTCCACTCGGATACACAT	0.453													6	122	---	---	---	---	PASS	A	132576405	A	A	132576405	3	1	178	1	0	0	0	0	1	0	0	0	16368	884	31	2	157	2	TOR1A	9	132576405	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	9941	132576405	8637026	538	63491										
SETX	23064	broad.mit.edu	37	chr9	135145048	135145048	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgaagaggctgtacttggctCgtgtgatggtgacattcaat	13	6	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:135145048C>A	uc004cbk.2	-	25	7424	c.7241G>T	c.(7240-7242)CGA>CTA	p.R2414L	SETX_uc004cbj.2_Missense_Mutation_p.R2033L|SETX_uc010mzt.2_Missense_Mutation_p.R2000L	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	2414					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		GTACTTGGCTCGTGTGATGGT	0.438													7	211	---	---	---	---	PASS	A	135145048	A	A	135145048	3	1	178	1	0	0	0	0	1	0	0	0	14141	884	31	2	800	2	SETX	9	135145048	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2568643	135145048	6068383	539	63492										
SETX	23064	broad.mit.edu	37	chr9	135218091	135218091	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actcaccatttcattgggatGgactaaaaacaaatagatcc	6	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:135218091G>T	uc004cbk.2	-	5	667	c.484C>A	c.(484-486)CAT>AAT	p.H162N		NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	162					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		TCATTGGGATGGACTAAAAAC	0.393													9	207	---	---	---	---	PASS	T	135218091	T	T	135218091	3	4	178	1	0	0	0	0	1	0	0	0	14141	1348	47	3	7637	3	SETX	9	135218091	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	73043	135218091	5995340	540	63493										
TSC1	7248	broad.mit.edu	37	chr9	135796754	135796754	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acactagtttctataccttcGagggtccagttcatggtcct	8	11	2	0	rs118203434		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:135796754G>T	uc004cca.2	-	8	967	c.733C>A	c.(733-735)CGA>AGA	p.R245R	TSC1_uc004ccb.3_Silent_p.R245R|TSC1_uc011mcq.1_Silent_p.R194R|TSC1_uc011mcr.1_Silent_p.R124R|TSC1_uc011mcs.1_Silent_p.R124R|TSC1_uc004ccc.1_Silent_p.R245R|TSC1_uc004ccd.2_Silent_p.R245R|TSC1_uc004cce.1_Silent_p.R245R	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	245					activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding			lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		CTATACCTTCGAGGGTCCAGT	0.393			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				5	55	---	---	---	---	PASS	T	135796754	T	T	135796754	2	4	178	1	0	0	0	0	0	0	0	1	16602	1066	37	2		2	TSC1	9	135796754	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	578663	135796754	5416677	541	63494										
CAMSAP1	157922	broad.mit.edu	37	chr9	138714106	138714106	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	catggagacactgctcatctGagaggctgtgctcaggcagg	14	10	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr9:138714106G>T	uc004cgr.3	-	11	2401	c.2401C>A	c.(2401-2403)CAG>AAG	p.Q801K	CAMSAP1_uc004cgq.3_Missense_Mutation_p.Q691K|CAMSAP1_uc010nbg.2_Missense_Mutation_p.Q523K	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	801						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		CTGCTCATCTGAGAGGCTGTG	0.577													7	105	---	---	---	---	PASS	T	138714106	T	T	138714106	3	4	178	1	0	0	0	0	1	0	0	0	2611	1299	45	2	2435	2	CAMSAP1	9	138714106	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2917352	138714106	2499325	542	63495										
NET1	10276	broad.mit.edu	37	chr10	5495514	5495514	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gagcagattggtcacattctCgtgagctgggtatgtagtga	14	6	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:5495514C>A	uc001iia.2	+	8	897	c.759C>A	c.(757-759)CTC>CTA	p.L253L	NET1_uc010qar.1_Silent_p.L72L|NET1_uc001iib.2_Silent_p.L199L|NET1_uc010qas.1_Silent_p.L72L	NM_001047160	NP_001040625	Q7Z628	ARHG8_HUMAN	neuroepithelial cell transforming gene 1 isoform	253	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1						GTCACATTCTCGTGAGCTGGG	0.413													5	68	---	---	---	---	PASS	A	5495514	A	A	5495514	2	1	178	1	0	0	0	0	0	0	0	1	10338	871	31	2		2	NET1	10	5495514	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08		5495514	130039233	543	63496										
DHTKD1	55526	broad.mit.edu	37	chr10	12159705	12159705	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcttcaagaaatggcaccaGgaacaacatttaacccggtc	7	12	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:12159705G>T	uc001ild.3	+	14	2452	c.2353G>T	c.(2353-2355)GGA>TGA	p.G785*		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	785					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			AATGGCACCAGGAACAACATT	0.428													7	126	---	---	---	---	PASS	T	12159705	T	T	12159705	4	4	178	1	0	0	0	0	0	1	0	0	4500	1001	35	3	2407	3	DHTKD1	10	12159705	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6664191	12159705	123375042	544	63497										
CAMK1D	57118	broad.mit.edu	37	chr10	12856243	12856243	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaaatgactccaagctctttGagcagatcctcaaggcggaa	9	10	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:12856243G>T	uc001ilo.2	+	7	926	c.691G>T	c.(691-693)GAG>TAG	p.E231*	CAMK1D_uc001iln.2_Nonsense_Mutation_p.E231*	NM_153498	NP_705718	Q8IU85	KCC1D_HUMAN	calcium/calmodulin-dependent protein kinase ID	231	Protein kinase.					calcium- and calmodulin-dependent protein kinase complex|cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|stomach(1)	2				GBM - Glioblastoma multiforme(1;3.16e-05)		CAAGCTCTTTGAGCAGATCCT	0.512													6	64	---	---	---	---	PASS	T	12856243	T	T	12856243	4	4	178	1	0	0	0	0	0	1	0	0	2597	1291	45	2	717	2	CAMK1D	10	12856243	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	696538	12856243	122678504	545	63498										
SEPHS1	22929	broad.mit.edu	37	chr10	13361282	13361282	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aatccatgcttggtggccttCaccatatttgggggacttta	10	9	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:13361282C>A	uc001imk.2	-	9	1398	c.1039G>T	c.(1039-1041)GAA>TAA	p.E347*	SEPHS1_uc001imh.2_Nonsense_Mutation_p.E271*|SEPHS1_uc010qbs.1_Nonsense_Mutation_p.E299*|SEPHS1_uc001imi.2_Nonsense_Mutation_p.E345*|SEPHS1_uc001imj.2_3'UTR|SEPHS1_uc010qbt.1_Nonsense_Mutation_p.E280*	NM_012247	NP_036379	P49903	SPS1_HUMAN	selenophosphate synthetase 1	347					protein modification process		ATP binding|GTP binding|selenide, water dikinase activity			skin(1)	1						TGGTGGCCTTCACCATATTTG	0.507													9	265	---	---	---	---	PASS	A	13361282	A	A	13361282	4	1	178	1	0	0	0	0	0	1	0	0	14054	835	29	2	143	2	SEPHS1	10	13361282	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	505039	13361282	122173465	546	63499										
OLAH	55301	broad.mit.edu	37	chr10	15107628	15107628	+	Missense_Mutation	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagatgatgaattgtcagaaGaacaaataagtcattacctt	7	5	2	5			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:15107628G>A	uc001inu.2	+	6	702	c.448G>A	c.(448-450)GAA>AAA	p.E150K	ACBD7_uc010qby.1_Intron|OLAH_uc001int.2_Missense_Mutation_p.E203K	NM_001039702	NP_001034791	Q9NV23	SAST_HUMAN	oleoyl-ACP hydrolase isoform 2	150					fatty acid biosynthetic process		myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity				0						ATTGTCAGAAGAACAAATAAG	0.413													8	55	---	---	---	---	PASS	A	15107628	A	A	15107628	3	1	178	1	0	0	0	0	1	0	0	0	10851	943	33	2	629	2	OLAH	10	15107628	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1746346	15107628	120427119	547	63500										
OLAH	55301	broad.mit.edu	37	chr10	15115133	15115133	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctaaaatttaccagcttccaGggggtcacttttatcttctg	7	10	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:15115133G>C	uc001inu.2	+	8	957	c.703G>C	c.(703-705)GGG>CGG	p.G235R	ACBD7_uc010qby.1_Intron|OLAH_uc001int.2_Missense_Mutation_p.G288R	NM_001039702	NP_001034791	Q9NV23	SAST_HUMAN	oleoyl-ACP hydrolase isoform 2	235					fatty acid biosynthetic process		myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity				0						CCAGCTTCCAGGGGGTCACTT	0.343													11	85	---	---	---	---	PASS	C	15115133	C	C	15115133	3	2	178	1	0	0	0	0	1	0	0	0	10851	1000	35	4	892	4	OLAH	10	15115133	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	7505	15115133	120419614	548	63501										
CUBN	8029	broad.mit.edu	37	chr10	16955880	16955880	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taaacattagggtgatccgcCttccctccggggcagtgatt	11	11	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:16955880C>A	uc001ioo.2	-	48	7515	c.7463G>T	c.(7462-7464)AGG>ATG	p.R2488M		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2488	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)	GGTGATCCGCCTTCCCTCCGG	0.522													20	72	---	---	---	---	PASS	A	16955880	A	A	16955880	3	1	178	1	0	0	0	0	1	0	0	0	4051	681	24	3	3488	3	CUBN	10	16955880	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1840747	16955880	118578867	549	63502										
MLLT10	8028	broad.mit.edu	37	chr10	22002776	22002776	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gggatctagtactcctgtctCcagctctcacttacctcagc	7	15	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:22002776C>T	uc001iqs.2	+	15	2171	c.1823C>T	c.(1822-1824)TCC>TTC	p.S608F	MLLT10_uc001iqt.2_Missense_Mutation_p.S592F|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Missense_Mutation_p.S592F|MLLT10_uc001ira.2_Missense_Mutation_p.S49F|MLLT10_uc001irb.2_RNA	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	608	DNA-binding.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						ACTCCTGTCTCCAGCTCTCAC	0.448			T	MLL|PICALM|CDK6	AL								16	78	---	---	---	---	PASS	T	22002776	T	T	22002776	3	4	178	1	0	0	0	0	1	0	0	0	9626	855	30	2	1877	2	MLLT10	10	22002776	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5046896	22002776	113531971	550	63503										
BMI1	648	broad.mit.edu	37	chr10	22615393	22615393	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcagaaatgcatcgaacaacGagaatcaagatcactgagct	9	9	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:22615393G>T	uc001irh.2	+	2	654	c.15G>T	c.(13-15)ACG>ACT	p.T5T	BMI1_uc009xkg.2_Silent_p.T148T	NM_005180	NP_005171	P35226	BMI1_HUMAN	BMI1 polycomb ring finger oncogene	5					hemopoiesis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fibroblast proliferation|positive regulation of ubiquitin-protein ligase activity|segment specification|transcription, DNA-dependent	cytoplasm|nucleolus|PcG protein complex|ubiquitin ligase complex	RING-like zinc finger domain binding|zinc ion binding			ovary(1)|skin(1)	2						ATCGAACAACGAGAATCAAGA	0.388													5	63	---	---	---	---	PASS	T	22615393	T	T	22615393	2	4	178	1	0	0	0	0	0	0	0	1	1455	1045	37	2		2	BMI1	10	22615393	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	612617	22615393	112919354	551	63504										
KIAA1462	57608	broad.mit.edu	37	chr10	30316780	30316780	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggtccacggacaaggaagtcCttgagaacgcactgttgctg	13	10	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:30316780C>A	uc001iux.2	-	2	2356	c.2297G>T	c.(2296-2298)AGG>ATG	p.R766M	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.R628M|KIAA1462_uc009xle.1_Missense_Mutation_p.R766M	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	766										ovary(4)	4						CAAGGAAGTCCTTGAGAACGC	0.607													5	21	---	---	---	---	PASS	A	30316780	A	A	30316780	3	1	178	1	0	0	0	0	1	0	0	0	8234	681	24	3	1790	3	KIAA1462	10	30316780	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	7701387	30316780	105217967	552	63505										
KIF5B	3799	broad.mit.edu	37	chr10	32324501	32324501	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagactcattgtatgatgatGgagagcagcaaattacaata	9	6	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:32324501G>T	uc001iwe.3	-	10	1381	c.911C>A	c.(910-912)CCA>CAA	p.P304Q		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	304	Kinesin-motor.				stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				GTATGATGATGGAGAGCAGCA	0.338													8	100	---	---	---	---	PASS	T	32324501	T	T	32324501	3	4	178	1	0	0	0	0	1	0	0	0	8306	1348	47	3	2044	3	KIF5B	10	32324501	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2007721	32324501	103210246	553	63506										
ANKRD30A	91074	broad.mit.edu	37	chr10	37438709	37438709	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttccaaccccatttagcctgCcattgaaatgcaaaactctg	5	13	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:37438709C>A	uc001iza.1	+	11	1508	c.1409C>A	c.(1408-1410)GCC>GAC	p.A470D		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	526						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						ATTTAGCCTGCCATTGAAATG	0.279													34	173	---	---	---	---	PASS	A	37438709	A	A	37438709	3	1	178	1	0	0	0	0	1	0	0	0	658	739	26	3	1451	3	ANKRD30A	10	37438709	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5114208	37438709	98096038	554	63507										
PCDH15	65217	broad.mit.edu	37	chr10	55912957	55912957	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggagcgatggtgataagccCtgttgttttattgatgatga	13	4	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:55912957C>T	uc001jju.1	-	14	2082	c.1687G>A	c.(1687-1689)GGG>AGG	p.G563R	PCDH15_uc010qhq.1_Missense_Mutation_p.G568R|PCDH15_uc010qhr.1_Missense_Mutation_p.G563R|PCDH15_uc010qhs.1_Missense_Mutation_p.G575R|PCDH15_uc010qht.1_Missense_Mutation_p.G570R|PCDH15_uc010qhu.1_Missense_Mutation_p.G563R|PCDH15_uc001jjv.1_Missense_Mutation_p.G541R|PCDH15_uc010qhv.1_Missense_Mutation_p.G563R|PCDH15_uc010qhw.1_Missense_Mutation_p.G526R|PCDH15_uc010qhx.1_Missense_Mutation_p.G563R|PCDH15_uc010qhy.1_Missense_Mutation_p.G568R|PCDH15_uc010qhz.1_Missense_Mutation_p.G563R|PCDH15_uc010qia.1_Missense_Mutation_p.G541R|PCDH15_uc010qib.1_Missense_Mutation_p.G541R|PCDH15_uc001jjw.2_Missense_Mutation_p.G563R	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	563	Cadherin 5.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GTGATAAGCCCTGTTGTTTTA	0.527										HNSCC(58;0.16)			7	51	---	---	---	---	PASS	T	55912957	T	T	55912957	3	4	178	1	0	0	0	0	1	0	0	0	11511	681	24	3	5879	3	PCDH15	10	55912957	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	18474248	55912957	79621790	555	63508										
PCDH15	65217	broad.mit.edu	37	chr10	55913005	55913005	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgagccccaacaaggatttCatatgtgatctccccatttg	7	12	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:55913005C>A	uc001jju.1	-	14	2034	c.1639G>T	c.(1639-1641)GAA>TAA	p.E547*	PCDH15_uc010qhq.1_Nonsense_Mutation_p.E552*|PCDH15_uc010qhr.1_Nonsense_Mutation_p.E547*|PCDH15_uc010qhs.1_Nonsense_Mutation_p.E559*|PCDH15_uc010qht.1_Nonsense_Mutation_p.E554*|PCDH15_uc010qhu.1_Nonsense_Mutation_p.E547*|PCDH15_uc001jjv.1_Nonsense_Mutation_p.E525*|PCDH15_uc010qhv.1_Nonsense_Mutation_p.E547*|PCDH15_uc010qhw.1_Nonsense_Mutation_p.E510*|PCDH15_uc010qhx.1_Nonsense_Mutation_p.E547*|PCDH15_uc010qhy.1_Nonsense_Mutation_p.E552*|PCDH15_uc010qhz.1_Nonsense_Mutation_p.E547*|PCDH15_uc010qia.1_Nonsense_Mutation_p.E525*|PCDH15_uc010qib.1_Nonsense_Mutation_p.E525*|PCDH15_uc001jjw.2_Nonsense_Mutation_p.E547*	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	547	Cadherin 5.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ACAAGGATTTCATATGTGATC	0.478										HNSCC(58;0.16)			17	64	---	---	---	---	PASS	A	55913005	A	A	55913005	4	1	178	1	0	0	0	0	0	1	0	0	11511	835	29	2	5927	2	PCDH15	10	55913005	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	48	55913005	79621742	556	63509										
FAM13C	220965	broad.mit.edu	37	chr10	61011407	61011407	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtctcttcttgtcagccctaGtttctcggagatggtcaaga	10	10	5	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:61011407G>T	uc001jkn.2	-	14	1696	c.1562C>A	c.(1561-1563)ACT>AAT	p.T521N	FAM13C_uc001jko.2_Missense_Mutation_p.T423N|FAM13C_uc010qid.1_Missense_Mutation_p.T437N|FAM13C_uc010qie.1_Missense_Mutation_p.T438N|FAM13C_uc010qif.1_Missense_Mutation_p.T543N	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	521										ovary(2)	2						GTCAGCCCTAGTTTCTCGGAG	0.393													7	164	---	---	---	---	PASS	T	61011407	T	T	61011407	3	4	178	1	0	0	0	0	1	0	0	0	5454	1029	36	3	203	3	FAM13C	10	61011407	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5098402	61011407	74523340	557	63510										
NRBF2	29982	broad.mit.edu	37	chr10	64893254	64893254	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaagtaatggaaggacccctCaacctggtgagtgtcccaca	11	11	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:64893254C>A	uc001jmj.3	+	1	248	c.24C>A	c.(22-24)CTC>CTA	p.L8L	NRBF2_uc010qip.1_Missense_Mutation_p.Q27K	NM_030759	NP_110386	Q96F24	NRBF2_HUMAN	nuclear receptor binding factor 2	8					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	cytoplasm|nucleoplasm	protein binding				0	Prostate(12;0.0119)|all_hematologic(501;0.191)					AAGGACCCCTCAACCTGGTGA	0.632													4	12	---	---	---	---	PASS	A	64893254	A	A	64893254	2	1	178	1	0	0	0	0	0	0	0	1	10641	813	29	2		2	NRBF2	10	64893254	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	3881847	64893254	70641493	558	63511										
CTNNA3	29119	broad.mit.edu	37	chr10	69299393	69299393	+	Silent	SNP	T	C	C													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gggagaaaacaggggtcatcTgtaaatctctcagctgatac							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:69299393T>C	uc009xpn.1	-	4	450	c.327A>G	c.(325-327)ACA>ACG	p.T109T	CTNNA3_uc001jmw.2_Silent_p.T109T|CTNNA3_uc001jmx.3_Silent_p.T109T|CTNNA3_uc009xpo.1_Intron|CTNNA3_uc001jna.2_Silent_p.T121T	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	109	Potential.				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						AGGGGTCATCTGTAAATCTCT	0.443													10	53	---	---	---	---	PASS	C	69299393	C	C	69299393	2	2	178	1	0	0	0	0	0	0	0	1	4014	1567	55	5		5	CTNNA3	10	69299393	Silent	SNP	T	TCGA-85-6561-01A-11D-1817-08	4406139	69299393	66235354	559	63512	1085	2								
CTNNA3	29119	broad.mit.edu	37	chr10	69299394	69299394	+	Missense_Mutation	SNP	G	T	T													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggagaaaacaggggtcatctGtaaatctctcagctgatact							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:69299394G>T	uc009xpn.1	-	4	449	c.326C>A	c.(325-327)ACA>AAA	p.T109K	CTNNA3_uc001jmw.2_Missense_Mutation_p.T109K|CTNNA3_uc001jmx.3_Missense_Mutation_p.T109K|CTNNA3_uc009xpo.1_Intron|CTNNA3_uc001jna.2_Missense_Mutation_p.T121K	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	109	Potential.				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						GGGGTCATCTGTAAATCTCTC	0.443													11	52	---	---	---	---	PASS	T	69299394	T	T	69299394	3	4	178	1	0	0	0	0	1	0	0	0	4014	1377	48	3	2421	3	CTNNA3	10	69299394	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1	69299394	66235353	560	63513	1085	2								
SIRT1	23411	broad.mit.edu	37	chr10	69651214	69651214	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caagggatggtatttatgctCgccttgctgtagacttccca	10	10	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:69651214C>A	uc001jnd.2	+	4	897	c.844C>A	c.(844-846)CGC>AGC	p.R282S	SIRT1_uc010qis.1_5'UTR|SIRT1_uc009xpp.2_Missense_Mutation_p.R90S|SIRT1_uc001jne.2_5'UTR	NM_012238	NP_036370	Q96EB6	SIRT1_HUMAN	sirtuin 1 isoform a	282	Deacetylase sirtuin-type.				apoptosis|cell aging|cellular response to hydrogen peroxide|cellular response to starvation|chromatin silencing at rDNA|DNA repair|DNA replication|establishment of chromatin silencing|histone H3 deacetylation|interspecies interaction between organisms|maintenance of chromatin silencing|muscle organ development|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of fat cell differentiation|negative regulation of helicase activity|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine acetylation|peptidyl-lysine deacetylation|positive regulation of anti-apoptosis|positive regulation of chromatin silencing|positive regulation of DNA repair|regulation of apoptosis|regulation of cell proliferation|regulation of endodeoxyribonuclease activity|regulation of protein import into nucleus, translocation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|rRNA processing|transcription, DNA-dependent|triglyceride mobilization|white fat cell differentiation	chromatin silencing complex|cytoplasm|nuclear euchromatin|nuclear heterochromatin|nuclear inner membrane|nucleolus|PML body|rDNA heterochromatin	bHLH transcription factor binding|histone binding|HLH domain binding|identical protein binding|mitogen-activated protein kinase binding|NAD+ binding|NAD-dependent histone deacetylase activity (H3-K9 specific)|p53 binding|protein C-terminus binding|transcription corepressor activity|zinc ion binding				0						TATTTATGCTCGCCTTGCTGT	0.378													6	142	---	---	---	---	PASS	A	69651214	A	A	69651214	3	1	178	1	0	0	0	0	1	0	0	0	14337	884	31	2	858	2	SIRT1	10	69651214	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	351820	69651214	65883533	561	63514										
TET1	80312	broad.mit.edu	37	chr10	70411606	70411606	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcttattccttccacagatcGagttatacaaaaagacaaag	5	9	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:70411606G>T	uc001jok.3	+	5	4785	c.4280G>T	c.(4279-4281)CGA>CTA	p.R1427L		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1427					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						TCCACAGATCGAGTTATACAA	0.418													6	162	---	---	---	---	PASS	T	70411606	T	T	70411606	3	4	178	1	0	0	0	0	1	0	0	0	15766	1058	37	2	4294	2	TET1	10	70411606	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	760392	70411606	65123141	562	63515										
STOX1	219736	broad.mit.edu	37	chr10	70644837	70644837	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcaagggcagggccattctCgaagggatagacacaaagcc	12	11	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:70644837C>A	uc001jos.2	+	3	1372	c.1285C>A	c.(1285-1287)CGA>AGA	p.R429R	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Silent_p.R319R	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	429						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						GGGCCATTCTCGAAGGGATAG	0.512													6	154	---	---	---	---	PASS	A	70644837	A	A	70644837	2	1	178	1	0	0	0	0	0	0	0	1	15318	876	31	2		2	STOX1	10	70644837	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	233231	70644837	64889910	563	63516										
CAMK2G	818	broad.mit.edu	37	chr10	75620621	75620621	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttcagaagtcgacatatccGagcctcacgttctagtttct	7	11	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:75620621G>T	uc001jvv.1	-	3	287	c.163C>A	c.(163-165)CGG>AGG	p.R55R	CAMK2G_uc001jvm.1_Silent_p.R63R|CAMK2G_uc001jvo.1_Silent_p.R63R|CAMK2G_uc001jvq.1_Silent_p.R63R|CAMK2G_uc001jvr.1_Silent_p.R63R|CAMK2G_uc001jvp.1_Silent_p.R63R|CAMK2G_uc001jvs.1_Silent_p.R63R|CAMK2G_uc001jvt.1_RNA|CAMK2G_uc001jvu.1_Silent_p.R63R|CAMK2G_uc010qkv.1_5'UTR	NM_172171	NP_751911	Q13555	KCC2G_HUMAN	calcium/calmodulin-dependent protein kinase II	63	Protein kinase.				insulin secretion|interferon-gamma-mediated signaling pathway|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calcium-dependent protein serine/threonine phosphatase activity|calmodulin binding|calmodulin-dependent protein kinase activity			lung(1)|stomach(1)	2	Prostate(51;0.0112)					CGACATATCCGAGCCTCACGT	0.433													5	122	---	---	---	---	PASS	T	75620621	T	T	75620621	2	4	178	1	0	0	0	0	0	0	0	1	2602	1057	37	2		2	CAMK2G	10	75620621	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	4975784	75620621	59914126	564	63517										
SAMD8	142891	broad.mit.edu	37	chr10	76928351	76928351	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgggaactgtattcttgcttCgctgctttaccatgtttgtg	10	8	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:76928351C>A	uc001jwx.1	+	4	830	c.727C>A	c.(727-729)CGC>AGC	p.R243S	SAMD8_uc001jwy.1_Missense_Mutation_p.R243S	NM_144660	NP_653261	Q96LT4	SAMD8_HUMAN	sterile alpha motif domain containing 8	243	Helical; (Potential).				sphingomyelin biosynthetic process	integral to membrane					0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					ATTCTTGCTTCGCTGCTTTAC	0.453													5	118	---	---	---	---	PASS	A	76928351	A	A	76928351	3	1	178	1	0	0	0	0	1	0	0	0	13825	884	31	2	737	2	SAMD8	10	76928351	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1307730	76928351	58606396	565	63518										
IFIT5	24138	broad.mit.edu	37	chr10	91177842	91177842	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgggactttgctacagggcaCaaatgatccaaatcaagaag	10	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:91177842C>A	uc010qnh.1	+	2	1117	c.886C>A	c.(886-888)CAA>AAA	p.Q296K	IFIT5_uc010qng.1_Missense_Mutation_p.Q248K	NM_012420	NP_036552	Q13325	IFIT5_HUMAN	interferon-induced protein with	296							binding				0						CTACAGGGCACAAATGATCCA	0.408													6	79	---	---	---	---	PASS	A	91177842	A	A	91177842	3	1	178	1	0	0	0	0	1	0	0	0	7525	479	17	3	892	3	IFIT5	10	91177842	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	14249491	91177842	44356905	566	63519										
PLCE1	51196	broad.mit.edu	37	chr10	96018841	96018841	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctgcaaccgatctggctccGagtcagccccactctacacc	7	19	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:96018841G>T	uc001kjk.2	+	13	4382	c.3748G>T	c.(3748-3750)GAG>TAG	p.E1250*	PLCE1_uc010qnx.1_Nonsense_Mutation_p.E1234*|PLCE1_uc001kjm.2_Nonsense_Mutation_p.E942*	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1250					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				ATCTGGCTCCGAGTCAGCCCC	0.483													5	78	---	---	---	---	PASS	T	96018841	T	T	96018841	4	4	178	1	0	0	0	0	0	1	0	0	12034	1059	37	2	4080	2	PLCE1	10	96018841	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	4840999	96018841	39515906	567	63520										
TCTN3	26123	broad.mit.edu	37	chr10	97423886	97423886	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caggataaggatgggagagaCtgagcatttttgagagaata	14	3	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:97423886C>T	uc001klb.3	-	14	2006	c.1762G>A	c.(1762-1764)GTC>ATC	p.V588I	TCTN3_uc001kla.3_Missense_Mutation_p.V432I|TCTN3_uc010qoi.1_Missense_Mutation_p.V440I	NM_015631	NP_056446	Q6NUS6	TECT3_HUMAN	tectonic 3 isoform a precursor	588	Helical; (Potential).				apoptosis	integral to membrane					0		Colorectal(252;0.0815)		Epithelial(162;1.69e-07)|all cancers(201;5.63e-06)		ATGGGAGAGACTGAGCATTTT	0.438													41	101	---	---	---	---	PASS	T	97423886	T	T	97423886	3	4	178	1	0	0	0	0	1	0	0	0	15721	565	20	3	65	3	TCTN3	10	97423886	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1405045	97423886	38110861	568	63521										
EXOSC1	51013	broad.mit.edu	37	chr10	99198446	99198446	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccttgtctttttcagttgctCggacatcttccttgctataa	6	11	3	0	rs141065374		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:99198446C>A	uc001kni.2	-	5	352	c.326G>T	c.(325-327)CGA>CTA	p.R109L	EXOSC1_uc009xvp.1_Intron	NM_016046	NP_057130	Q9Y3B2	EXOS1_HUMAN	exosomal core protein CSL4	109	S1 motif.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	protein binding|RNA binding				0		Renal(717;0.000147)|Colorectal(252;0.00205)|Ovarian(717;0.00965)		all cancers(201;8.29e-42)|Epithelial(162;5.7e-33)|BRCA - Breast invasive adenocarcinoma(275;0.000315)|Kidney(138;0.000832)|KIRC - Kidney renal clear cell carcinoma(50;0.00269)|STAD - Stomach adenocarcinoma(243;0.202)		TTCAGTTGCTCGGACATCTTC	0.229													8	269	---	---	---	---	PASS	A	99198446	A	A	99198446	3	1	178	1	0	0	0	0	1	0	0	0	5313	884	31	2	277	2	EXOSC1	10	99198446	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1774560	99198446	36336301	569	63522										
FAM178A	55719	broad.mit.edu	37	chr10	102716225	102716225	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagaaacactttgtgctactCtgtggggctttggaaaagca	11	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:102716225C>A	uc001krt.3	+	18	3890	c.3348C>A	c.(3346-3348)CTC>CTA	p.L1116L	FAM178A_uc001krs.2_Silent_p.L1116L	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	1116											0						TTGTGCTACTCTGTGGGGCTT	0.308													8	124	---	---	---	---	PASS	A	102716225	A	A	102716225	2	1	178	1	0	0	0	0	0	0	0	1	5503	900	32	2		2	FAM178A	10	102716225	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	3517779	102716225	32818522	570	63523										
SUFU	51684	broad.mit.edu	37	chr10	104352370	104352370	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgcagtggggaccatgtgtcCtggcacagccctttggataa	13	10	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:104352370C>A	uc001kvy.1	+	4	632	c.486C>A	c.(484-486)TCC>TCA	p.S162S	SUFU_uc001kvw.1_Silent_p.S162S|SUFU_uc001kvx.2_Silent_p.S162S	NM_016169	NP_057253	Q9UMX1	SUFU_HUMAN	suppressor of fused	162					negative regulation of transcription from RNA polymerase II promoter|proteolysis|skeletal system development	cytoplasm|nucleus	identical protein binding|protein binding|signal transducer activity|transcription corepressor activity|transcription factor binding			central_nervous_system(4)|skin(2)|breast(1)	7		Colorectal(252;0.207)		Epithelial(162;1.36e-08)|all cancers(201;3.81e-07)|BRCA - Breast invasive adenocarcinoma(275;0.242)		ACCATGTGTCCTGGCACAGCC	0.542			D|F|S		medulloblastoma	medulloblastoma			Medulloblastoma_associated_with_Germline_SUFU_Mutation				6	69	---	---	---	---	PASS	A	104352370	A	A	104352370	2	1	178	1	0	0	0	0	0	0	0	1	15367	668	24	3		3	SUFU	10	104352370	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1636145	104352370	31182377	571	63524										
TAF5	6877	broad.mit.edu	37	chr10	105147936	105147936	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgtacaccttcattttactCgaagaaacctggttctagct	6	10	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:105147936C>A	uc001kwv.2	+	11	2382	c.2359C>A	c.(2359-2361)CGA>AGA	p.R787R	TAF5_uc010qqq.1_Silent_p.R732R	NM_006951	NP_008882	Q15542	TAF5_HUMAN	TBP-associated factor 5	787				R -> L (in Ref. 8; AAH52268).	histone acetylation|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	actin cytoskeleton|transcription factor TFIID complex|transcription factor TFTC complex	protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;1.83e-09)|all cancers(201;1.4e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		TCATTTTACTCGAAGAAACCT	0.378													5	49	---	---	---	---	PASS	A	105147936	A	A	105147936	2	1	178	1	0	0	0	0	0	0	0	1	15525	876	31	2		2	TAF5	10	105147936	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	795566	105147936	30386811	572	63525										
SLK	9748	broad.mit.edu	37	chr10	105778545	105778545	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaactgctgtcttctagctcGagaagctgcaatttgggagc	11	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:105778545G>T	uc001kxo.1	+	15	3045	c.3011G>T	c.(3010-3012)CGA>CTA	p.R1004L	SLK_uc001kxp.1_Missense_Mutation_p.R973L	NM_014720	NP_055535	Q9H2G2	SLK_HUMAN	serine/threonine kinase 2	1004	Potential.				apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		CTTCTAGCTCGAGAAGCTGCA	0.353													5	87	---	---	---	---	PASS	T	105778545	T	T	105778545	3	4	178	1	0	0	0	0	1	0	0	0	14748	1058	37	2	3069	2	SLK	10	105778545	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	630609	105778545	29756202	573	63526										
C10orf79	80217	broad.mit.edu	37	chr10	105921789	105921789	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccatcagagctcggagtcttGtactggcatcctgggaaaga	12	10	2	2	rs145489927		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:105921789G>T	uc001kxw.2	-	26	3460	c.3344C>A	c.(3343-3345)ACA>AAA	p.T1115K	C10orf79_uc009xxq.2_Missense_Mutation_p.T423K	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1115											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TCGGAGTCTTGTACTGGCATC	0.468													7	154	---	---	---	---	PASS	T	105921789	T	T	105921789	3	4	178	1	0	0	0	0	1	0	0	0	1618	1377	48	3	1705	3	C10orf79	10	105921789	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	143244	105921789	29612958	574	63527										
PNLIPRP1	5407	broad.mit.edu	37	chr10	118352021	118352021	+	Missense_Mutation	SNP	G	A	A													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tccatggcttcatagacaaaGgagatgagagctgggtgaca							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:118352021G>A	uc001lco.1	+	4	316	c.298G>A	c.(298-300)GGA>AGA	p.G100R	PNLIPRP1_uc001lcp.2_Missense_Mutation_p.G100R|PNLIPRP1_uc001lcn.2_Missense_Mutation_p.G100R|PNLIPRP1_uc009xys.1_RNA	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	100					lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		CATAGACAAAGGAGATGAGAG	0.483													32	62	---	---	---	---	PASS	A	118352021	A	A	118352021	3	1	178	1	0	0	0	0	1	0	0	0	12150	1001	35	3	308	3	PNLIPRP1	10	118352021	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	12430232	118352021	17182726	575	63528	1086	2								
PNLIPRP1	5407	broad.mit.edu	37	chr10	118352022	118352022	+	Missense_Mutation	SNP	G	T	T													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccatggcttcatagacaaagGagatgagagctgggtgacag							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:118352022G>T	uc001lco.1	+	4	317	c.299G>T	c.(298-300)GGA>GTA	p.G100V	PNLIPRP1_uc001lcp.2_Missense_Mutation_p.G100V|PNLIPRP1_uc001lcn.2_Missense_Mutation_p.G100V|PNLIPRP1_uc009xys.1_RNA	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	100					lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		ATAGACAAAGGAGATGAGAGC	0.478													32	61	---	---	---	---	PASS	T	118352022	T	T	118352022	3	4	178	1	0	0	0	0	1	0	0	0	12150	1174	41	2	309	2	PNLIPRP1	10	118352022	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1	118352022	17182725	576	63529	1086	2								
DMBT1	1755	broad.mit.edu	37	chr10	124399962	124399962	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacttatgatctaatccggaGtgggtaaggagtgtctttat	12	5	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:124399962G>T	uc001lgk.1	+	52	7068	c.6962G>T	c.(6961-6963)AGT>ATT	p.S2321I	DMBT1_uc001lgl.1_Missense_Mutation_p.S2311I|DMBT1_uc001lgm.1_Missense_Mutation_p.S1693I|DMBT1_uc009xzz.1_Missense_Mutation_p.S2320I|DMBT1_uc010qtx.1_Missense_Mutation_p.S1041I|DMBT1_uc009yab.1_Missense_Mutation_p.S1024I|DMBT1_uc009yac.1_Missense_Mutation_p.S615I	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	2321	ZP.				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)				CTAATCCGGAGTGGGTAAGGA	0.433													4	21	---	---	---	---	PASS	T	124399962	T	T	124399962	3	4	178	1	0	0	0	0	1	0	0	0	4577	1029	36	3	7168	3	DMBT1	10	124399962	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6047940	124399962	11134785	577	63530										
BUB3	9184	broad.mit.edu	37	chr10	124921780	124921780	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attaagctctattgaaggccGagtggcagttgagtatttgg	13	5	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:124921780G>T	uc001lhe.2	+	6	847	c.605G>T	c.(604-606)CGA>CTA	p.R202L	BUB3_uc009yah.2_Missense_Mutation_p.R154L|BUB3_uc001lhf.3_Missense_Mutation_p.R202L|BUB3_uc001lhd.2_Missense_Mutation_p.R202L|BUB3_uc010qud.1_Missense_Mutation_p.R122L	NM_004725	NP_004716	O43684	BUB3_HUMAN	budding uninhibited by benzimidazoles 3 isoform	202					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|attachment of spindle microtubules to kinetochore|cell division|meiosis|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	condensed chromosome kinetochore|cytosol|nucleus	protein binding			ovary(1)	1		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)				ATTGAAGGCCGAGTGGCAGTT	0.393													8	191	---	---	---	---	PASS	T	124921780	T	T	124921780	3	4	178	1	0	0	0	0	1	0	0	0	1572	1058	37	2	623	2	BUB3	10	124921780	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	521818	124921780	10612967	578	63531										
MKI67	4288	broad.mit.edu	37	chr10	129903464	129903464	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggctattttggtagttttctCatgagtcgtgggcttgtcag	13	6	2	1	rs148027445		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:129903464C>A	uc001lke.2	-	13	6835	c.6640G>T	c.(6640-6642)GAG>TAG	p.E2214*	MKI67_uc001lkf.2_Nonsense_Mutation_p.E1854*|MKI67_uc009yav.1_Nonsense_Mutation_p.E1789*|MKI67_uc009yaw.1_Nonsense_Mutation_p.E1364*	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2214	16 X 122 AA approximate repeats.|11.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GTAGTTTTCTCATGAGTCGTG	0.498													11	163	---	---	---	---	PASS	A	129903464	A	A	129903464	4	1	178	1	0	0	0	0	0	1	0	0	9598	835	29	2	3142	2	MKI67	10	129903464	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4981684	129903464	5631283	579	63532										
GLRX3	10539	broad.mit.edu	37	chr10	131959237	131959237	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctgcatgctgtttatgaaaGgaactcctcaagaaccacgc	8	12	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr10:131959237G>T	uc001lkm.1	+	4	476	c.454G>T	c.(454-456)GGA>TGA	p.G152*	GLRX3_uc001lkn.1_Nonsense_Mutation_p.G152*|GLRX3_uc001lko.2_RNA	NM_006541	NP_006532	O76003	GLRX3_HUMAN	glutaredoxin 3	152	Glutaredoxin 1.				cell redox homeostasis|negative regulation of cardiac muscle hypertrophy|regulation of the force of heart contraction	cell cortex	electron carrier activity|iron-sulfur cluster binding|metal ion binding|protein disulfide oxidoreductase activity				0		all_cancers(35;9.59e-07)|all_epithelial(44;1.48e-06)|Lung NSC(174;0.00566)|all_lung(145;0.00949)|Colorectal(57;0.142)|all_neural(114;0.16)|Breast(234;0.173)|Glioma(114;0.222)		OV - Ovarian serous cystadenocarcinoma(35;0.00218)		GTTTATGAAAGGAACTCCTCA	0.453													7	64	---	---	---	---	PASS	T	131959237	T	T	131959237	4	4	178	1	0	0	0	0	0	1	0	0	6461	1001	35	3	468	3	GLRX3	10	131959237	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2055773	131959237	3575510	580	63533										
CD81	975	broad.mit.edu	37	chr11	2415351	2415351	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acatcctcatcgctgtgggcGctgtcatgatgttcgttggc	12	11	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:2415351G>A	uc001lwf.1	+	3	441	c.208G>A	c.(208-210)GCT>ACT	p.A70T	CD81_uc001lwg.1_Missense_Mutation_p.A63T|CD81_uc001lwh.1_5'Flank	NM_004356	NP_004347	P60033	CD81_HUMAN	CD81 antigen	70	Helical; (Potential).				activation of MAPK activity|cell proliferation|phosphatidylinositol biosynthetic process|positive regulation of 1-phosphatidylinositol 4-kinase activity|positive regulation of cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|protein localization|regulation of immune response|virion attachment, binding of host cell surface receptor	integral to plasma membrane	protein binding				0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.000338)|LUSC - Lung squamous cell carcinoma(625;0.191)		CGCTGTGGGCGCTGTCATGAT	0.652													5	27	---	---	---	---	PASS	A	2415351	A	A	2415351	3	1	178	1	0	0	0	0	1	0	0	0	3039	1087	38	1	218	1	CD81	11	2415351	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08		2415351	132591165	581	63534										
OR52I2	143502	broad.mit.edu	37	chr11	4608225	4608225	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctttggctggctatctcactGagtgccatgtacatcatagc	9	11	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:4608225G>T	uc010qyh.1	+	1	183	c.183G>T	c.(181-183)CTG>CTT	p.L61L		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	61	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTATCTCACTGAGTGCCATGT	0.498													7	133	---	---	---	---	PASS	T	4608225	T	T	4608225	2	4	178	1	0	0	0	0	0	0	0	1	11121	1277	45	2		2	OR52I2	11	4608225	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2192874	4608225	130398291	582	63535										
OR52I2	143502	broad.mit.edu	37	chr11	4608295	4608295	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caatctggatggattccactCggcatgagcccatgtattgc	10	11	1	1	rs140300674	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:4608295C>A	uc010qyh.1	+	1	253	c.253C>A	c.(253-255)CGG>AGG	p.R85R		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	85	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGATTCCACTCGGCATGAGCC	0.498													6	135	---	---	---	---	PASS	A	4608295	A	A	4608295	2	1	178	1	0	0	0	0	0	0	0	1	11121	875	31	2		2	OR52I2	11	4608295	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	70	4608295	130398221	583	63536										
OR52D1	390066	broad.mit.edu	37	chr11	5510553	5510553	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtctatgggctaactgtggCtctgctggccatgggactgg	15	9	2	0	rs142747961	by1000genomes	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:5510553C>A	uc010qzg.1	+	1	617	c.617C>A	c.(616-618)GCT>GAT	p.A206D	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005163	NP_001005163	Q9H346	O52D1_HUMAN	olfactory receptor, family 52, subfamily D,	206	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.46e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTAACTGTGGCTCTGCTGGCC	0.493													20	102	---	---	---	---	PASS	A	5510553	A	A	5510553	3	1	178	1	0	0	0	0	1	0	0	0	11114	797	28	3	619	3	OR52D1	11	5510553	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	902258	5510553	129495963	584	63537										
DNHD1	144132	broad.mit.edu	37	chr11	6519958	6519958	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgcccttttgtgcaggcccaGtggagcaggcagcaagtaaa	13	10	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:6519958G>T	uc001mdw.3	+	3	1077	c.513G>T	c.(511-513)CAG>CAT	p.Q171H	DNHD1_uc001mdp.2_Missense_Mutation_p.Q171H	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	171					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		TGCAGGCCCAGTGGAGCAGGC	0.607													5	58	---	---	---	---	PASS	T	6519958	T	T	6519958	3	4	178	1	0	0	0	0	1	0	0	0	4668	1020	36	3	515	3	DNHD1	11	6519958	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1009405	6519958	128486558	585	63538										
RRP8	23378	broad.mit.edu	37	chr11	6621950	6621950	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggaagtccctgatgttggttCccatcagtgaaaggcaaaac	11	9	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:6621950C>T	uc001med.2	-	5	1182	c.1103G>A	c.(1102-1104)GGA>GAA	p.G368E		NM_015324	NP_056139	O43159	RRP8_HUMAN	ribosomal RNA processing 8, methyltransferase,	368					chromatin modification|chromatin silencing at rDNA|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	methylated histone residue binding|S-adenosylmethionine-dependent methyltransferase activity				0						GATGTTGGTTCCCATCAGTGA	0.493													10	66	---	---	---	---	PASS	T	6621950	T	T	6621950	3	4	178	1	0	0	0	0	1	0	0	0	13690	855	30	2	279	2	RRP8	11	6621950	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	101992	6621950	128384566	586	63539										
DCHS1	8642	broad.mit.edu	37	chr11	6650040	6650040	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	catgcgttaactgaggaggtGagcccctgtcctgggcatac	13	11	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:6650040G>T	uc001mem.1	-	13	5593	c.5183C>A	c.(5182-5184)TCA>TAA	p.S1728*		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1728	Cadherin 16.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTGAGGAGGTGAGCCCCTGTC	0.527													4	7	---	---	---	---	PASS	T	6650040	T	T	6650040	4	4	178	1	0	0	0	0	0	1	0	0	4287	1294	45	2	4749	2	DCHS1	11	6650040	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	28090	6650040	128356476	587	63540										
STK33	65975	broad.mit.edu	37	chr11	8486319	8486319	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tccttgtctgtcgcttcaatGactattccaaagctcccttt	5	13	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:8486319G>T	uc001mgi.1	-	3	1309	c.390C>A	c.(388-390)GTC>GTA	p.V130V	STK33_uc001mgj.1_Silent_p.V130V|STK33_uc001mgk.1_Silent_p.V130V|STK33_uc010rbn.1_Silent_p.V89V|STK33_uc001mgl.3_5'UTR|STK33_uc009yfp.2_Intron	NM_030906	NP_112168	Q9BYT3	STK33_HUMAN	serine/threonine kinase 33	130	Protein kinase.|ATP (By similarity).					Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|pancreas(1)|central_nervous_system(1)|skin(1)	7				Epithelial(150;2.13e-06)|BRCA - Breast invasive adenocarcinoma(625;0.239)		TCGCTTCAATGACTATTCCAA	0.388													7	111	---	---	---	---	PASS	T	8486319	T	T	8486319	2	4	178	1	0	0	0	0	0	0	0	1	15299	1277	45	2		2	STK33	11	8486319	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1836279	8486319	126520197	588	63541										
NUCB2	4925	broad.mit.edu	37	chr11	17333433	17333433	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctttagatgtcaatagtgatGgattcctggatgaacaagaa	10	5	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:17333433G>T	uc001mmw.2	+	9	1020	c.775G>T	c.(775-777)GGA>TGA	p.G259*	NUCB2_uc001mmv.1_Nonsense_Mutation_p.G259*|NUCB2_uc009ygz.2_Nonsense_Mutation_p.G259*	NM_005013	NP_005004	P80303	NUCB2_HUMAN	nucleobindin 2 precursor	259	1.|Binds to necdin (By similarity).|EF-hand 1.					cytosol|ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|plasma membrane	calcium ion binding|DNA binding				0						CAATAGTGATGGATTCCTGGA	0.264													10	227	---	---	---	---	PASS	T	17333433	T	T	17333433	4	4	178	1	0	0	0	0	0	1	0	0	10719	1349	47	3	801	3	NUCB2	11	17333433	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	8847114	17333433	117673083	589	63542										
USH1C	10083	broad.mit.edu	37	chr11	17554802	17554802	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctggacccagcacacttacTggtggtacattcgcagcaca	10	13	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:17554802T>C	uc001mnf.2	-	2	213	c.104A>G	c.(103-105)CAG>CGG	p.Q35R	USH1C_uc001mne.2_Missense_Mutation_p.Q35R|USH1C_uc009yhb.2_Missense_Mutation_p.Q35R|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_5'UTR	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	35					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						GCACACTTACTGGTGGTACAT	0.502													4	23	---	---	---	---	PASS	C	17554802	C	C	17554802	3	2	178	1	0	0	0	0	1	0	0	0	17031	1594	55	5	2777	5	USH1C	11	17554802	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	221369	17554802	117451714	590	63543										
NELL1	4745	broad.mit.edu	37	chr11	21592429	21592429	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtttagaccaaaatggtcaCaagctgtatcgaagtggaga	11	6	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:21592429C>A	uc001mqe.2	+	18	2253	c.2100C>A	c.(2098-2100)CAC>CAA	p.H700Q	NELL1_uc001mqf.2_Missense_Mutation_p.H653Q|NELL1_uc009yid.2_Missense_Mutation_p.H728Q|NELL1_uc010rdo.1_Missense_Mutation_p.H643Q|NELL1_uc010rdp.1_Missense_Mutation_p.H413Q|NELL1_uc001mqh.2_Missense_Mutation_p.H245Q	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	700	VWFC 4.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						AAAATGGTCACAAGCTGTATC	0.463													6	116	---	---	---	---	PASS	A	21592429	A	A	21592429	3	1	178	1	0	0	0	0	1	0	0	0	10333	477	17	3	2170	3	NELL1	11	21592429	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4037627	21592429	113414087	591	63544										
FANCF	2188	broad.mit.edu	37	chr11	22646316	22646316	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agagctaataagaggtctgtCcagatgctaagaccaggtac	11	8	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:22646316C>A	uc001mql.1	-	1	1072	c.1041G>T	c.(1039-1041)TGG>TGT	p.W347C		NM_022725	NP_073562	Q9NPI8	FANCF_HUMAN	Fanconi anemia, complementation group F	347					DNA repair	nucleoplasm	protein binding			skin(1)	1						AGAGGTCTGTCCAGATGCTAA	0.468			N|F			AML|leukemia		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia		OREG0020844	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	110	---	---	---	---	PASS	A	22646316	A	A	22646316	3	1	178	1	0	0	0	0	1	0	0	0	5667	856	30	2	87	2	FANCF	11	22646316	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1053887	22646316	112360200	592	63545										
SLC5A12	159963	broad.mit.edu	37	chr11	26718757	26718757	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cacaaaaagtcctggcagtcCtggcattgtggcaaatatct	9	10	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:26718757C>A	uc001mra.2	-	8	1307	c.994G>T	c.(994-996)GGA>TGA	p.G332*	SLC5A12_uc001mrb.2_RNA|SLC5A12_uc001mrc.3_Nonsense_Mutation_p.G332*	NM_178498	NP_848593	Q1EHB4	SC5AC_HUMAN	solute carrier family 5 (sodium/glucose	332	Helical; (Potential).				sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(1)|skin(1)	2						CCTGGCAGTCCTGGCATTGTG	0.358													7	112	---	---	---	---	PASS	A	26718757	A	A	26718757	4	1	178	1	0	0	0	0	0	1	0	0	14664	690	24	3	894	3	SLC5A12	11	26718757	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4072441	26718757	108287759	593	63546										
EIF3M	10480	broad.mit.edu	37	chr11	32616471	32616471	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctaattaaggtgtattgtacGagcattgaaagatccaaatg	9	5	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:32616471G>T	uc001mtu.2	+	7	672	c.629G>T	c.(628-630)CGA>CTA	p.R210L	EIF3M_uc010ref.1_Missense_Mutation_p.R78L	NM_006360	NP_006351	Q7L2H7	EIF3M_HUMAN	eukaryotic translation initiation factor 3,	210				RA -> EP (in Ref. 2; AAC17108).		eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)|breast(1)|skin(1)	3	Breast(20;0.109)					TGTATTGTACGAGCATTGAAA	0.328													5	85	---	---	---	---	PASS	T	32616471	T	T	32616471	3	4	178	1	0	0	0	0	1	0	0	0	5023	1058	37	2	655	2	EIF3M	11	32616471	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5897714	32616471	102390045	594	63547										
CCDC73	493860	broad.mit.edu	37	chr11	32697516	32697516	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atatttctcaatttcactcaGttgcttatgatagtcttctt	4	8	5	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:32697516G>T	uc001mtv.2	-	8	525	c.481C>A	c.(481-483)CTG>ATG	p.L161M	CCDC73_uc001mtw.1_Missense_Mutation_p.L161M	NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	161	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					ATTTCACTCAGTTGCTTATGA	0.308													6	125	---	---	---	---	PASS	T	32697516	T	T	32697516	3	4	178	1	0	0	0	0	1	0	0	0	2846	1020	36	3	2802	3	CCDC73	11	32697516	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	81045	32697516	102309000	595	63548										
QSER1	79832	broad.mit.edu	37	chr11	32997982	32997982	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggacctctttgaaaaatttGgagaacttctaaatcatgta	7	6	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:32997982G>T	uc001mty.2	+	13	5437	c.5170G>T	c.(5170-5172)GGA>TGA	p.G1724*	QSER1_uc001mtz.1_Nonsense_Mutation_p.G1485*	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	1724										ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					TGAAAAATTTGGAGAACTTCT	0.353													20	68	---	---	---	---	PASS	T	32997982	T	T	32997982	4	4	178	1	0	0	0	0	0	1	0	0	12882	1349	47	3	5212	3	QSER1	11	32997982	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	300466	32997982	102008534	596	63549										
API5	8539	broad.mit.edu	37	chr11	43348096	43348096	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggtttgtgacatatttctgtGagcaggttctccctaacctc	9	10	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:43348096G>T	uc010rfh.1	+	7	963	c.790G>T	c.(790-792)GAG>TAG	p.E264*	API5_uc010rfg.1_Nonsense_Mutation_p.E253*|API5_uc001mxf.2_Nonsense_Mutation_p.E264*|API5_uc010rfi.1_Nonsense_Mutation_p.E210*|API5_uc001mxg.2_Nonsense_Mutation_p.E138*	NM_001142930	NP_001136402	Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5 isoform a	264					anti-apoptosis|apoptosis	cytoplasm|spliceosomal complex	fibroblast growth factor binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						ATATTTCTGTGAGCAGGTTCT	0.388													8	186	---	---	---	---	PASS	T	43348096	T	T	43348096	4	4	178	1	0	0	0	0	0	1	0	0	773	1291	45	2	816	2	API5	11	43348096	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	10350114	43348096	91658420	597	63550										
ALKBH3	221120	broad.mit.edu	37	chr11	43923276	43923276	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgagaaagaagccaccaccaGtgagtattctctttttctta	7	9	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:43923276G>T	uc001mxs.2	+	8	1112	c.669_splice	c.e8+1	p.P223_splice	ALKBH3_uc009ykp.2_Splice_Site|ALKBH3_uc001mxt.2_Splice_Site|ALKBH3_uc009ykq.2_Splice_Site_p.P76_splice	NM_139178	NP_631917	Q96Q83	ALKB3_HUMAN	AlkB homolog 3						DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation	mitochondrion|nucleoplasm	damaged DNA binding|DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0					Vitamin C(DB00126)	GCCACCACCAGTGAGTATTCT	0.433								Direct_reversal_of_damage					7	76	---	---	---	---	PASS	T	43923276	T	T	43923276	5	4	178	1	0	0	0	0	0	0	1	0	528	1043	36	3	696	3	ALKBH3	11	43923276	Splice_Site	SNP	G	TCGA-85-6561-01A-11D-1817-08	575180	43923276	91083240	598	63551										
ACCS	84680	broad.mit.edu	37	chr11	44098922	44098922	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggcctatgtctacctggacaGtgaggtaagagtcttgactt	12	8	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:44098922G>T	uc009yks.1	+	7	794	c.650G>T	c.(649-651)AGT>ATT	p.S217I	EXT2_uc010rfo.1_Intron|ACCS_uc010rfm.1_Missense_Mutation_p.Q129H|ACCS_uc010rfn.1_3'UTR|ACCS_uc001mxx.2_Missense_Mutation_p.S217I	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	217							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						TACCTGGACAGTGAGGTAAGA	0.562													5	63	---	---	---	---	PASS	T	44098922	T	T	44098922	3	4	178	1	0	0	0	0	1	0	0	0	133	1029	36	3	672	3	ACCS	11	44098922	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	175646	44098922	90907594	599	63552										
OR4A15	81328	broad.mit.edu	37	chr11	55136162	55136162	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acgaaaagctttctacacctGtgcatcccacgtcactgtgg	8	13	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:55136162G>C	uc010rif.1	+	1	803	c.803G>C	c.(802-804)TGT>TCT	p.C268S		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	268	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTCTACACCTGTGCATCCCAC	0.423													12	81	---	---	---	---	PASS	C	55136162	C	C	55136162	3	2	178	1	0	0	0	0	1	0	0	0	11040	1377	48	4	805	4	OR4A15	11	55136162	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	11037240	55136162	79870354	600	63553										
OR8H3	390152	broad.mit.edu	37	chr11	55890145	55890145	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tccttcacgggctgctttgcCcagatgttctgttttgtctt	9	11	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:55890145C>A	uc001nii.1	+	1	297	c.297C>A	c.(295-297)GCC>GCA	p.A99A		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	99	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					GCTGCTTTGCCCAGATGTTCT	0.443													17	202	---	---	---	---	PASS	A	55890145	A	A	55890145	2	1	178	1	0	0	0	0	0	0	0	1	11239	610	22	3		3	OR8H3	11	55890145	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	753983	55890145	79116371	601	63554										
GLYATL1	92292	broad.mit.edu	37	chr11	58722700	58722700	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agtggctacattttcaaagtCagtgaaagtagagcattcga	10	6	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:58722700C>A	uc001nnf.2	+	7	741	c.365C>A	c.(364-366)TCA>TAA	p.S122*	uc001nng.1_Intron|GLYATL1_uc001nnh.1_Nonsense_Mutation_p.S153*|GLYATL1_uc001nni.1_Nonsense_Mutation_p.S122*|GLYATL1_uc001nnj.1_Nonsense_Mutation_p.S122*			Q969I3	GLYL1_HUMAN	SubName: Full=Glycine acyltransferase family-C; SubName: Full=Glycine-N-acyltransferase-like 1, isoform CRA_a;	122						mitochondrion	glycine N-acyltransferase activity			ovary(1)	1					Glycine(DB00145)	TTTTCAAAGTCAGTGAAAGTA	0.448													7	113	---	---	---	---	PASS	A	58722700	A	A	58722700	4	1	178	1	0	0	0	0	0	1	0	0	6480	838	29	2	480	2	GLYATL1	11	58722700	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2832555	58722700	76283816	602	63555										
DDB1	1642	broad.mit.edu	37	chr11	61070621	61070621	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccagttgggattaaagtctcGagcaatcttaaaacagacaa	8	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:61070621G>T	uc001nrc.3	-	23	3065	c.2839C>A	c.(2839-2841)CGA>AGA	p.R947R	DDB1_uc010rle.1_Silent_p.R258R|DDB1_uc010rlf.1_Silent_p.R947R	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	947	Interaction with CDT1 and CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						TTAAAGTCTCGAGCAATCTTA	0.418								NER					7	101	---	---	---	---	PASS	T	61070621	T	T	61070621	2	4	178	1	0	0	0	0	0	0	0	1	4323	1066	37	2		2	DDB1	11	61070621	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2347921	61070621	73935895	603	63556										
PACS1	55690	broad.mit.edu	37	chr11	66006656	66006656	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtcagccttactgtgccctcCacatcaccaccctccagctc	5	20	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:66006656C>A	uc001oha.1	+	21	2471	c.2337C>A	c.(2335-2337)TCC>TCA	p.S779S	PACS1_uc010rou.1_Silent_p.S315S	NM_018026	NP_060496	Q6VY07	PACS1_HUMAN	phosphofurin acidic cluster sorting protein 1	779					interspecies interaction between organisms|regulation of defense response to virus by virus|viral reproduction	cytosol	protein binding			ovary(6)	6						CTGTGCCCTCCACATCACCAC	0.617													5	31	---	---	---	---	PASS	A	66006656	A	A	66006656	2	1	178	1	0	0	0	0	0	0	0	1	11372	581	21	3		3	PACS1	11	66006656	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	4936035	66006656	68999860	604	63557										
TBX10	347853	broad.mit.edu	37	chr11	67400523	67400523	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actgtccttgcgtgggtccaCgaagaccacgtggaaacggg	14	11	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:67400523C>A	uc001omp.2	-	5	689	c.601G>T	c.(601-603)GTG>TTG	p.V201L		NM_005995	NP_005986	O75333	TBX10_HUMAN	T-box 10	201	T-box.			FV -> LL (in Ref. 3; AAC23481).	anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						CGTGGGTCCACGAAGACCACG	0.562													5	90	---	---	---	---	PASS	A	67400523	A	A	67400523	3	1	178	1	0	0	0	0	1	0	0	0	15648	536	19	1	572	1	TBX10	11	67400523	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1393867	67400523	67605993	605	63558										
TPCN2	219931	broad.mit.edu	37	chr11	68822717	68822717	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atcctcactcaccagcacggCggacgtgcgctaccgcgctg	11	17	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:68822717C>A	uc001oos.2	+	4	442	c.326C>A	c.(325-327)GCG>GAG	p.A109E	TPCN2_uc009ysk.1_RNA|TPCN2_uc001oor.2_Intron|TPCN2_uc010rqg.1_Missense_Mutation_p.A109E	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	109	Extracellular (Potential).				cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			ACCAGCACGGCGGACGTGCGC	0.587													18	46	---	---	---	---	PASS	A	68822717	A	A	68822717	3	1	178	1	0	0	0	0	1	0	0	0	16393	768	27	1	340	1	TPCN2	11	68822717	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1422194	68822717	66183799	606	63559										
FCHSD2	9873	broad.mit.edu	37	chr11	72695219	72695219	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagaagataatcattccttgCgtgggtagctttggaattac	10	6	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:72695219C>A	uc009ytl.2	-	8	840	c.619G>T	c.(619-621)GCA>TCA	p.A207S	FCHSD2_uc010rrg.1_Missense_Mutation_p.A47S|FCHSD2_uc001oth.3_Missense_Mutation_p.A151S|FCHSD2_uc001oti.2_Missense_Mutation_p.A166S	NM_014824	NP_055639	O94868	FCSD2_HUMAN	FCH and double SH3 domains 2	207							protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(5;3.3e-05)			TCATTCCTTGCGTGGGTAGCT	0.373													16	51	---	---	---	---	PASS	A	72695219	A	A	72695219	3	1	178	1	0	0	0	0	1	0	0	0	5790	768	27	1	1655	1	FCHSD2	11	72695219	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3872502	72695219	62311297	607	63560										
P2RY6	5031	broad.mit.edu	37	chr11	73007627	73007627	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccaccacctgtgtctaccgcGagaacttcaagcaactgctg	8	15	2	1	rs61745521	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:73007627G>T	uc001otm.2	+	4	469	c.64G>T	c.(64-66)GAG>TAG	p.E22*	P2RY6_uc001otn.2_Nonsense_Mutation_p.E22*|P2RY6_uc001oto.2_Nonsense_Mutation_p.E22*|P2RY6_uc001otp.2_Nonsense_Mutation_p.E22*|P2RY6_uc001otq.2_Nonsense_Mutation_p.E22*|P2RY6_uc001otr.2_Nonsense_Mutation_p.E22*|P2RY6_uc001ots.2_Nonsense_Mutation_p.E22*	NM_176796	NP_789766	Q15077	P2RY6_HUMAN	pyrimidinergic receptor P2Y6	22	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1						TGTCTACCGCGAGAACTTCAA	0.607													5	83	---	---	---	---	PASS	T	73007627	T	T	73007627	4	4	178	1	0	0	0	0	0	1	0	0	11354	1059	37	2	66	2	P2RY6	11	73007627	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	312408	73007627	61998889	608	63561										
MOGAT2	80168	broad.mit.edu	37	chr11	75442295	75442295	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaggcccacaaacttaagttCaacatccctgctgaccagca	7	14	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:75442295C>G	uc010rru.1	+	6	969	c.969C>G	c.(967-969)TTC>TTG	p.F323L	MOGAT2_uc010rrv.1_Missense_Mutation_p.F241L	NM_025098	NP_079374	Q3SYC2	MOGT2_HUMAN	monoacylglycerol O-acyltransferase 2	323					glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			ovary(2)	2	Ovarian(111;0.103)					AACTTAAGTTCAACATCCCTG	0.552													3	42	---	---	---	---	PASS	G	75442295	G	G	75442295	3	3	178	1	0	0	0	0	1	0	0	0	9695	825	29	2	991	2	MOGAT2	11	75442295	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2434668	75442295	59564221	609	63562										
GDPD4	220032	broad.mit.edu	37	chr11	76969502	76969502	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttgaagaaggcagggttctCgcaggcagattctggctgaa	15	7	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:76969502C>A	uc001oyf.2	-	10	1044	c.793G>T	c.(793-795)GAG>TAG	p.E265*		NM_182833	NP_878253	Q6W3E5	GDPD4_HUMAN	glycerophosphodiester phosphodiesterase domain	265	GDPD.|Extracellular (Potential).				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding			skin(1)	1						GCAGGGTTCTCGCAGGCAGAT	0.458													7	135	---	---	---	---	PASS	A	76969502	A	A	76969502	4	1	178	1	0	0	0	0	0	1	0	0	6326	893	31	2	797	2	GDPD4	11	76969502	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1527207	76969502	58037014	610	63563										
TYR	7299	broad.mit.edu	37	chr11	88911731	88911731	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acattgattttgcccatgaaGcaccagcttttctgccttgg	8	11	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:88911731G>A	uc001pcs.2	+	1	692	c.610G>A	c.(610-612)GCA>ACA	p.A204T		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	204	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	TGCCCATGAAGCACCAGCTTT	0.428									Oculocutaneous_Albinism				23	87	---	---	---	---	PASS	A	88911731	A	A	88911731	3	1	178	1	0	0	0	0	1	0	0	0	16810	971	34	3	612	3	TYR	11	88911731	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	11942229	88911731	46094785	611	63564										
ANKRD49	54851	broad.mit.edu	37	chr11	94230054	94230054	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aatgaagagtggtatcgattGcaagaaaaaaaaatggaaaa	10	2	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:94230054G>T	uc001pew.2	+	2	334	c.195G>T	c.(193-195)TTG>TTT	p.L65F	ANKRD49_uc001pex.2_Missense_Mutation_p.L65F|ANKRD49_uc001pey.2_5'Flank	NM_017704	NP_060174	Q8WVL7	ANR49_HUMAN	fetal globin inducing factor	65					positive regulation of transcription, DNA-dependent					central_nervous_system(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GGTATCGATTGCAAGAAAAAA	0.388													18	80	---	---	---	---	PASS	T	94230054	T	T	94230054	3	4	178	1	0	0	0	0	1	0	0	0	675	1310	46	3	197	3	ANKRD49	11	94230054	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5318323	94230054	40776462	612	63565										
AMOTL1	154810	broad.mit.edu	37	chr11	94563321	94563321	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgagaaacaaattggaaggcGagattagaagacttcatgat	11	4	1	5			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:94563321G>T	uc001pfb.2	+	5	1689	c.1519G>T	c.(1519-1521)GAG>TAG	p.E507*	AMOTL1_uc001pfc.2_Nonsense_Mutation_p.E457*	NM_130847	NP_570899	Q8IY63	AMOL1_HUMAN	angiomotin like 1	507	Potential.					cytoplasm|tight junction	identical protein binding			ovary(1)|breast(1)	2		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				ATTGGAAGGCGAGATTAGAAG	0.418													4	29	---	---	---	---	PASS	T	94563321	T	T	94563321	4	4	178	1	0	0	0	0	0	1	0	0	583	1059	37	2	1537	2	AMOTL1	11	94563321	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	333267	94563321	40443195	613	63566										
MTMR2	8898	broad.mit.edu	37	chr11	95580966	95580966	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acacaatctccttaagttttCgtaatgattctctcataaca	3	10	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:95580966C>A	uc001pfu.2	-	10	1344	c.1091G>T	c.(1090-1092)CGA>CTA	p.R364L	MTMR2_uc001pfv.2_Missense_Mutation_p.R292L|MTMR2_uc001pfs.2_Missense_Mutation_p.R292L|MTMR2_uc001pft.2_Missense_Mutation_p.R292L|MTMR2_uc010ruj.1_Missense_Mutation_p.R347L	NM_016156	NP_057240	Q13614	MTMR2_HUMAN	myotubularin-related protein 2 isoform 1	364	Myotubularin phosphatase.					nucleus	inositol or phosphatidylinositol phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CTTAAGTTTTCGTAATGATTC	0.398													5	84	---	---	---	---	PASS	A	95580966	A	A	95580966	3	1	178	1	0	0	0	0	1	0	0	0	9944	884	31	2	864	2	MTMR2	11	95580966	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1017645	95580966	39425550	614	63567										
BIRC2	329	broad.mit.edu	37	chr11	102221671	102221671	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agaacatgccaagtggtttcCaaggtaattgttttgaaaaa	9	5	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:102221671C>A	uc001pgy.2	+	3	2391	c.992C>A	c.(991-993)CCA>CAA	p.P331Q	BIRC2_uc010ruq.1_Missense_Mutation_p.P282Q|BIRC2_uc010rur.1_Missense_Mutation_p.P331Q	NM_001166	NP_001157	Q13490	BIRC2_HUMAN	baculoviral IAP repeat-containing protein 2	331	BIR 3.				cell surface receptor linked signaling pathway|cellular component disassembly involved in apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	CD40 receptor complex|cytosol|internal side of plasma membrane	protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3	all_cancers(8;0.00044)|all_epithelial(12;0.00348)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0093)	Lung(13;0.109)|Epithelial(9;0.11)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0144)		AAGTGGTTTCCAAGGTAATTG	0.373													8	157	---	---	---	---	PASS	A	102221671	A	A	102221671	3	1	178	1	0	0	0	0	1	0	0	0	1435	594	21	3	998	3	BIRC2	11	102221671	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	6640705	102221671	32784845	615	63568										
MMP8	4317	broad.mit.edu	37	chr11	102592222	102592222	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaaggcatgagcaaggattcCattgggtccatcaaatggag	12	7	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:102592222C>A	uc001phe.2	-	4	631	c.532G>T	c.(532-534)GGA>TGA	p.G178*	MMP8_uc010rut.1_Nonsense_Mutation_p.G113*|MMP8_uc010ruu.1_Nonsense_Mutation_p.G155*	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	178					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		GCAAGGATTCCATTGGGTCCA	0.428													6	56	---	---	---	---	PASS	A	102592222	A	A	102592222	4	1	178	1	0	0	0	0	0	1	0	0	9668	603	21	3	899	3	MMP8	11	102592222	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	370551	102592222	32414294	616	63569										
AASDHPPT	60496	broad.mit.edu	37	chr11	105961333	105961333	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attatgaaaagaaagtttacCaacaaagaatgggaaacaat	7	4	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:105961333C>A	uc001pjc.1	+	3	605	c.459C>A	c.(457-459)ACC>ACA	p.T153T	AASDHPPT_uc010rvn.1_Intron|AASDHPPT_uc001pjd.1_Silent_p.T6T	NM_015423	NP_056238	Q9NRN7	ADPPT_HUMAN	aminoadipate-semialdehyde	153					macromolecule biosynthetic process|pantothenate metabolic process	cytosol	holo-[acyl-carrier-protein] synthase activity|magnesium ion binding|protein binding				0		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.78e-05)|Epithelial(105;0.00622)|all cancers(92;0.041)		GAAAGTTTACCAACAAAGAAT	0.289													8	174	---	---	---	---	PASS	A	105961333	A	A	105961333	2	1	178	1	0	0	0	0	0	0	0	1	23	581	21	3		3	AASDHPPT	11	105961333	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	3369111	105961333	29045183	617	63570										
CWF19L2	143884	broad.mit.edu	37	chr11	107288944	107288944	+	Silent	SNP	G	A	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttccccatcatctctgctttGataatcttggctcccaactt	4	14	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:107288944G>A	uc010rvp.1	-	9	1533	c.1503C>T	c.(1501-1503)ATC>ATT	p.I501I	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	501							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		TCTCTGCTTTGATAATCTTGG	0.363													19	50	---	---	---	---	PASS	A	107288944	A	A	107288944	2	1	178	1	0	0	0	0	0	0	0	1	4072	1280	45	2		2	CWF19L2	11	107288944	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1327611	107288944	27717572	618	63571										
NPAT	4863	broad.mit.edu	37	chr11	108044369	108044369	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttaaagtcattcaaattagGcacggactcaaaggtaatgt	9	6	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:108044369G>A	uc001pjz.3	-	13	1444	c.1342C>T	c.(1342-1344)CCT>TCT	p.P448S	NPAT_uc001pka.2_Missense_Mutation_p.P243S	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	448					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		TTCAAATTAGGCACGGACTCA	0.368													14	96	---	---	---	---	PASS	A	108044369	A	A	108044369	3	1	178	1	0	0	0	0	1	0	0	0	10566	1203	42	3	2965	3	NPAT	11	108044369	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	755425	108044369	26962147	619	63572										
DSCAML1	57453	broad.mit.edu	37	chr11	117647597	117647597	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggcacttgaagacggccacGttgccacgcattgacctttg	11	12	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:117647597G>A	uc001prh.1	-	3	602	c.600C>T	c.(598-600)AAC>AAT	p.N200N	DSCAML1_uc001pri.1_Silent_p.N4N	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	140	Extracellular (Potential).|Ig-like C2-type 2.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		AGACGGCCACGTTGCCACGCA	0.517													4	24	---	---	---	---	PASS	A	117647597	A	A	117647597	2	1	178	1	0	0	0	0	0	0	0	1	4769	1136	40	1		1	DSCAML1	11	117647597	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	9603228	117647597	17358919	620	63573										
TRAPPC4	51399	broad.mit.edu	37	chr11	118889906	118889906	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acgtgaatggcaggtacacgGccgacgggaaagaggtgctg	17	8	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:118889906G>T	uc010ryo.1	+	2	494	c.229G>T	c.(229-231)GCC>TCC	p.A77S	RPS25_uc001pun.2_5'Flank|TRAPPC4_uc010ryn.1_Missense_Mutation_p.A77S|TRAPPC4_uc010ryp.1_Missense_Mutation_p.A77S|TRAPPC4_uc001pup.2_RNA|TRAPPC4_uc010ryq.1_Missense_Mutation_p.A77S	NM_016146	NP_057230	Q9Y296	TPPC4_HUMAN	trafficking protein particle complex 4	77					dendrite development|ER to Golgi vesicle-mediated transport	cis-Golgi network|dendrite|endoplasmic reticulum|Golgi stack|synaptic vesicle	protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_neural(223;0.224)|all_hematologic(192;0.243)		BRCA - Breast invasive adenocarcinoma(274;7.58e-05)		CAGGTACACGGCCGACGGGAA	0.567													5	22	---	---	---	---	PASS	T	118889906	T	T	118889906	3	4	178	1	0	0	0	0	1	0	0	0	16458	1203	42	3	235	3	TRAPPC4	11	118889906	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1242309	118889906	16116610	621	63574										
THY1	7070	broad.mit.edu	37	chr11	119290994	119290994	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggctgaactcgtactggatgGgtgaactgctggtattctca	13	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:119290994G>T	uc001pwq.2	-	2	174	c.140C>A	c.(139-141)CCC>CAC	p.P47H	uc001pwo.2_Intron|uc001pwp.1_Intron|THY1_uc001pwr.2_Missense_Mutation_p.P47H|THY1_uc001pws.2_RNA	NM_006288	NP_006279	P04216	THY1_HUMAN	Thy-1 cell surface antigen preproprotein	47	Ig-like V-type.				angiogenesis|cell-cell adhesion|cytoskeleton organization|focal adhesion assembly|negative regulation of axonogenesis|negative regulation of cell migration|negative regulation of protein kinase activity|negative regulation of T cell receptor signaling pathway|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of T cell activation|retinal cone cell development|T cell receptor signaling pathway	endoplasmic reticulum|growth cone|integral to plasma membrane|membrane raft	GPI anchor binding|integrin binding|Rho GTPase activator activity				0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.83e-05)		GTACTGGATGGGTGAACTGCT	0.587													5	42	---	---	---	---	PASS	T	119290994	T	T	119290994	3	4	178	1	0	0	0	0	1	0	0	0	15882	1232	43	3	353	3	THY1	11	119290994	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	401088	119290994	15715522	622	63575										
ARHGEF12	23365	broad.mit.edu	37	chr11	120329949	120329949	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgatcaagtgttctatcagcGagtatccagagaaggaattc	10	7	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:120329949G>T	uc001pxl.1	+	26	2454	c.2447G>T	c.(2446-2448)CGA>CTA	p.R816L	ARHGEF12_uc009zat.2_Missense_Mutation_p.R797L|ARHGEF12_uc010rzn.1_Missense_Mutation_p.R713L|ARHGEF12_uc009zau.1_Missense_Mutation_p.R713L	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	816	DH.				apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		TTCTATCAGCGAGTATCCAGA	0.378			T	MLL	AML								7	140	---	---	---	---	PASS	T	120329949	T	T	120329949	3	4	178	1	0	0	0	0	1	0	0	0	897	1058	37	2	2549	2	ARHGEF12	11	120329949	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1038955	120329949	14676567	623	63576										
TECTA	7007	broad.mit.edu	37	chr11	120996091	120996091	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagagtggcatatctactgcCgtggaaacagattttgggct	12	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:120996091C>T	uc010rzo.1	+	7	1284	c.1284C>T	c.(1282-1284)GCC>GCT	p.A428A		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	428	VWFD 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TATCTACTGCCGTGGAAACAG	0.473													6	160	---	---	---	---	PASS	T	120996091	T	T	120996091	2	4	178	1	0	0	0	0	0	0	0	1	15744	639	23	1		1	TECTA	11	120996091	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	666142	120996091	14010425	624	63577										
UBASH3B	84959	broad.mit.edu	37	chr11	122646964	122646964	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccacgggaggaagaagtgttCaggcagcatgtgactggttg	16	7	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:122646964C>A	uc001pyi.3	+	2	559	c.199C>A	c.(199-201)CAG>AAG	p.Q67K		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	67	UBA.					cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		AAGAAGTGTTCAGGCAGCATG	0.403													6	62	---	---	---	---	PASS	A	122646964	A	A	122646964	3	1	178	1	0	0	0	0	1	0	0	0	16837	827	29	2	205	2	UBASH3B	11	122646964	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1650873	122646964	12359552	625	63578										
OR10G4	390264	broad.mit.edu	37	chr11	123887073	123887073	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tatctgaggccaggctccatGgatgccatggatggagttgt	14	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:123887073G>T	uc010sac.1	+	1	792	c.792G>T	c.(790-792)ATG>ATT	p.M264I		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		CAGGCTCCATGGATGCCATGG	0.517													7	46	---	---	---	---	PASS	T	123887073	T	T	123887073	3	4	178	1	0	0	0	0	1	0	0	0	10901	1348	47	3	794	3	OR10G4	11	123887073	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1240109	123887073	11119443	626	63579										
OR10G8	219869	broad.mit.edu	37	chr11	123900523	123900523	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctacttcctcaccaacctgtCgttcattgacatgtggttct	6	13	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:123900523C>A	uc001pzp.1	+	1	194	c.194C>A	c.(193-195)TCG>TAG	p.S65*		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		ACCAACCTGTCGTTCATTGAC	0.532													5	59	---	---	---	---	PASS	A	123900523	A	A	123900523	4	1	178	1	0	0	0	0	0	1	0	0	10903	893	31	2	196	2	OR10G8	11	123900523	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	13450	123900523	11105993	627	63580										
EI24	9538	broad.mit.edu	37	chr11	125450000	125450000	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttcttcagggaatgtttgtGagtctctttcccatccatct	8	10	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr11:125450000G>T	uc001qca.2	+	8	815	c.573G>T	c.(571-573)GTG>GTT	p.V191V	EI24_uc001qcb.2_Silent_p.V191V|EI24_uc010sbd.1_RNA|EI24_uc009zbl.2_Silent_p.V191V|EI24_uc001qcc.2_RNA|EI24_uc010sbe.1_Silent_p.V177V|EI24_uc010sbf.1_RNA	NM_004879	NP_004870	O14681	EI24_HUMAN	etoposide induced 2.4 isoform 1	191	Helical; (Potential).				apoptosis|autophagy|induction of apoptosis|negative regulation of cell growth	endoplasmic reticulum membrane|integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.64e-07)|OV - Ovarian serous cystadenocarcinoma(99;0.0975)		GAATGTTTGTGAGTCTCTTTC	0.433													8	177	---	---	---	---	PASS	T	125450000	T	T	125450000	2	4	178	1	0	0	0	0	0	0	0	1	4985	1277	45	2		2	EI24	11	125450000	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1549477	125450000	9556516	628	63581										
WNK1	65125	broad.mit.edu	37	chr12	991098	991098	+	Silent	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcacattcagatgttgcttcAggtatgagtgatggcaatga	12	6	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:991098A>C	uc001qio.3	+	14	3738	c.3231A>C	c.(3229-3231)TCA>TCC	p.S1077S	WNK1_uc001qip.3_Silent_p.S830S|WNK1_uc001qir.3_Silent_p.S250S	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1077					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			ATGTTGCTTCAGGTATGAGTG	0.393													10	40	---	---	---	---	PASS	C	991098	C	C	991098	2	2	178	1	0	0	0	0	0	0	0	1	17374	175	7	5		5	WNK1	12	991098	Silent	SNP	A	TCGA-85-6561-01A-11D-1817-08		991098	132860797	629	63582										
WNK1	65125	broad.mit.edu	37	chr12	994585	994585	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	catctcatagcagtacaactGgattggctttctccctctct	6	13	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:994585G>T	uc001qio.3	+	19	5122	c.4615G>T	c.(4615-4617)GGA>TGA	p.G1539*	WNK1_uc001qip.3_Nonsense_Mutation_p.G1292*|WNK1_uc001qir.3_Nonsense_Mutation_p.G712*	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1539					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CAGTACAACTGGATTGGCTTT	0.478													9	236	---	---	---	---	PASS	T	994585	T	T	994585	4	4	178	1	0	0	0	0	0	1	0	0	17374	1349	47	3	6191	3	WNK1	12	994585	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3487	994585	132857310	630	63583										
WNK1	65125	broad.mit.edu	37	chr12	1005356	1005356	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctatcaagtagtagtccagaGagtaccttggtgaaaccaga	10	8	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:1005356G>C	uc001qio.3	+	24	6210	c.5703G>C	c.(5701-5703)GAG>GAC	p.E1901D	WNK1_uc001qip.3_Missense_Mutation_p.E1653D|WNK1_uc001qir.3_Missense_Mutation_p.E1074D	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1901					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GTAGTCCAGAGAGTACCTTGG	0.468													7	53	---	---	---	---	PASS	C	1005356	C	C	1005356	3	2	178	1	0	0	0	0	1	0	0	0	17374	933	33	2	7299	2	WNK1	12	1005356	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	10771	1005356	132846539	631	63584										
CD9	928	broad.mit.edu	37	chr12	6341859	6341859	+	Frame_Shift_Del	DEL	C	-	-													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtgggcttcctgggctgctgCggggctgtgcaggagtccca							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:6341859delC	uc001qnp.1	+	4	681	c.237delC	c.(235-237)TGCfs	p.C79fs	CD9_uc010seu.1_Frame_Shift_Del_p.C79fs|CD9_uc010sev.1_Frame_Shift_Del_p.C79fs|CD9_uc001qnq.1_Frame_Shift_Del_p.C79fs	NM_001769	NP_001760	P21926	CD9_HUMAN	CD9 antigen	79	Cytoplasmic (Potential).			C->A: Loss of palmitoylation; when associated with A-9; A-78; A-87; A-218 and A-219.	cell adhesion|cellular component movement|fusion of sperm to egg plasma membrane|paranodal junction assembly|platelet activation|platelet degranulation	integral to plasma membrane|platelet alpha granule membrane				ovary(1)	1						TGGGCTGCTGCGGGGCTGTGC	0.622													4	2	---	---	---	---		-	6341859	-	-	6341859	7	5	178	1	0	1	0	1	0	0	0	0	3046	776	27	0	247	0	CD9	12	6341859	Frame_Shift_Del	DEL	C	TCGA-85-6561-01A-11D-1817-08	5336503	6341859	127510036	632	63585										
CD163L1	283316	broad.mit.edu	37	chr12	7550894	7550894	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atcacatcctctctgtgtacAcaattatgctttccccatcc	3	15	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:7550894A>C	uc001qsy.2	-	7	1721	c.1695T>G	c.(1693-1695)TGT>TGG	p.C565W	CD163L1_uc010sge.1_Missense_Mutation_p.C575W	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	565	SRCR 5.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						CTCTGTGTACACAATTATGCT	0.378													17	82	---	---	---	---	PASS	C	7550894	C	C	7550894	3	2	178	1	0	0	0	0	1	0	0	0	2968	157	6	5	2718	5	CD163L1	12	7550894	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	1209035	7550894	126301001	633	63586										
NECAP1	25977	broad.mit.edu	37	chr12	8242616	8242616	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagactgcctatatcaaactCgaggataaagtttcaggtaa	8	7	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:8242616C>A	uc001qtx.2	+	2	258	c.180C>A	c.(178-180)CTC>CTA	p.L60L	NECAP1_uc001qty.2_5'UTR	NM_015509	NP_056324	Q8NC96	NECP1_HUMAN	NECAP endocytosis associated 1	60					endocytosis|protein transport	clathrin coated vesicle membrane|plasma membrane				ovary(1)	1				Kidney(36;0.0915)		ATATCAAACTCGAGGATAAAG	0.428													5	96	---	---	---	---	PASS	A	8242616	A	A	8242616	2	1	178	1	0	0	0	0	0	0	0	1	10307	871	31	2		2	NECAP1	12	8242616	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	691722	8242616	125609279	634	63587										
CSDA	8531	broad.mit.edu	37	chr12	10853928	10853928	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggtgggtggagcagggttctCagttggtgcttcacctgcct	16	9	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:10853928C>A	uc001qyt.2	-	9	1321	c.1078G>T	c.(1078-1080)GAG>TAG	p.E360*	CSDA_uc001qyu.2_Nonsense_Mutation_p.E291*	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	360					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					GCAGGGTTCTCAGTTGGTGCT	0.498													6	69	---	---	---	---	PASS	A	10853928	A	A	10853928	4	1	178	1	0	0	0	0	0	1	0	0	3927	835	29	2	44	2	CSDA	12	10853928	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2611312	10853928	122997967	635	63588										
TAS2R46	259292	broad.mit.edu	37	chr12	11214162	11214162	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctccaaactgacatgattatGgacagaaagtaaatggcaca	8	8	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:11214162G>T	uc001qzp.1	-	1	732	c.732C>A	c.(730-732)TCC>TCA	p.S244S	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176887	NP_795368	P59540	T2R46_HUMAN	taste receptor, type 2, member 46	244	Helical; Name=6; (Potential).				sensory perception of taste	cilium membrane|integral to membrane	G-protein coupled receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.0344)	BRCA - Breast invasive adenocarcinoma(232;0.196)		ACATGATTATGGACAGAAAGT	0.428													9	182	---	---	---	---	PASS	T	11214162	T	T	11214162	2	4	178	1	0	0	0	0	0	0	0	1	15579	1335	47	3		3	TAS2R46	12	11214162	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	360234	11214162	122637733	636	63589										
TAS2R42	353164	broad.mit.edu	37	chr12	11338923	11338923	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaatttctagtatgtctcacCaaggacagaaataaaaaaag	6	6	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:11338923C>A	uc001qzr.1	-	1	621	c.621G>T	c.(619-621)TTG>TTT	p.L207F	PRB4_uc001qzf.1_Intron	NM_181429	NP_852094	Q7RTR8	T2R42_HUMAN	taste receptor, type 2, member 42	207	Helical; Name=5; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.0455)			TATGTCTCACCAAGGACAGAA	0.408													6	87	---	---	---	---	PASS	A	11338923	A	A	11338923	3	1	178	1	0	0	0	0	1	0	0	0	15577	593	21	3	327	3	TAS2R42	12	11338923	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	124761	11338923	122512972	637	63590										
GUCY2C	2984	broad.mit.edu	37	chr12	14778782	14778782	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taccagatgttccaggtttcGagaatatagctgtagacgtc	10	8	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:14778782G>T	uc001rcd.2	-	21	2454	c.2317C>A	c.(2317-2319)CGA>AGA	p.R773R		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	773	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TCCAGGTTTCGAGAATATAGC	0.383													7	136	---	---	---	---	PASS	T	14778782	T	T	14778782	2	4	178	1	0	0	0	0	0	0	0	1	6896	1066	37	2		2	GUCY2C	12	14778782	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	3439859	14778782	119073113	638	63591										
PIK3C2G	5288	broad.mit.edu	37	chr12	18656284	18656284	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccattctggactgataggacCattgaaagaaaatacaatta	7	7	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:18656284C>A	uc001rdt.2	+	22	3079	c.2963C>A	c.(2962-2964)CCA>CAA	p.P988Q	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.P1029Q|PIK3C2G_uc010sic.1_Missense_Mutation_p.P807Q	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	988	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				CTGATAGGACCATTGAAAGAA	0.378													6	46	---	---	---	---	PASS	A	18656284	A	A	18656284	3	1	178	1	0	0	0	0	1	0	0	0	11911	594	21	3	3045	3	PIK3C2G	12	18656284	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3877502	18656284	115195611	639	63592										
GYS2	2998	broad.mit.edu	37	chr12	21693481	21693481	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcaagaatcatctggagaacGgaaccgcctgtcaacgatgt	11	10	3	2	rs148617918		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:21693481G>A	uc001rfb.2	-	14	1927	c.1672C>T	c.(1672-1674)CGT>TGT	p.R558C		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	558					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						TCTGGAGAACGGAACCGCCTG	0.413													24	86	---	---	---	---	PASS	A	21693481	A	A	21693481	3	1	178	1	0	0	0	0	1	0	0	0	6913	1116	39	1	451	1	GYS2	12	21693481	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3037197	21693481	112158414	640	63593										
LDHB	3945	broad.mit.edu	37	chr12	21788614	21788614	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggatacatggaaggctcagGaagacttcattctcaatgcc	10	9	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:21788614G>A	uc001rfc.2	-	7	885	c.867C>T	c.(865-867)TTC>TTT	p.F289F	LDHB_uc001rfd.2_Silent_p.F289F|LDHB_uc001rfe.2_Silent_p.F289F	NM_002300	NP_002291	P07195	LDHB_HUMAN	L-lactate dehydrogenase B	289					glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity			breast(2)|ovary(1)	3					NADH(DB00157)	GAAGGCTCAGGAAGACTTCAT	0.403													7	22	---	---	---	---	PASS	A	21788614	A	A	21788614	2	1	178	1	0	0	0	0	0	0	0	1	8701	1165	41	2		2	LDHB	12	21788614	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	95133	21788614	112063281	641	63594										
KIF21A	55605	broad.mit.edu	37	chr12	39716583	39716583	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgcccttctgcaacaggtgtGagagggccaggcaaggaggc	16	10	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:39716583G>T	uc001rly.2	-	27	3704	c.3558C>A	c.(3556-3558)CTC>CTA	p.L1186L	KIF21A_uc001rlv.2_Silent_p.L191L|KIF21A_uc001rlw.2_Silent_p.L503L|KIF21A_uc001rlx.2_Silent_p.L1173L|KIF21A_uc001rlz.2_Silent_p.L1150L|KIF21A_uc010skl.1_Silent_p.L1166L	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	1186					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				CAACAGGTGTGAGAGGGCCAG	0.502													8	107	---	---	---	---	PASS	T	39716583	T	T	39716583	2	4	178	1	0	0	0	0	0	0	0	1	8288	1277	45	2		2	KIF21A	12	39716583	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	17927969	39716583	94135312	642	63595										
KIF21A	55605	broad.mit.edu	37	chr12	39751147	39751147	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgcatggctttaattcttacAcgcaggttattattttcagt	7	7	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:39751147A>T	uc001rly.2	-	9	1454	c.1308T>A	c.(1306-1308)CGT>CGA	p.R436R	KIF21A_uc001rlx.2_Silent_p.R436R|KIF21A_uc001rlz.2_Silent_p.R436R|KIF21A_uc010skl.1_Silent_p.R436R|KIF21A_uc001rma.1_Silent_p.R444R	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	436	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TAATTCTTACACGCAGGTTAT	0.408													10	87	---	---	---	---	PASS	T	39751147	T	T	39751147	2	4	178	1	0	0	0	0	0	0	0	1	8288	146	6	5		5	KIF21A	12	39751147	Silent	SNP	A	TCGA-85-6561-01A-11D-1817-08	34564	39751147	94100748	643	63596										
CNTN1	1272	broad.mit.edu	37	chr12	41323798	41323798	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcatcccactcattccaataCctgaacgtaagtattttatt	3	11	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:41323798C>A	uc001rmm.1	+	7	810	c.697C>A	c.(697-699)CCT>ACT	p.P233T	CNTN1_uc009zjy.1_Missense_Mutation_p.P233T|CNTN1_uc001rmn.1_Missense_Mutation_p.P222T|CNTN1_uc001rmo.2_Missense_Mutation_p.P233T	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	233					axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				CATTCCAATACCTGAACGTAA	0.368													22	91	---	---	---	---	PASS	A	41323798	A	A	41323798	3	1	178	1	0	0	0	0	1	0	0	0	3640	507	18	3	719	3	CNTN1	12	41323798	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1572651	41323798	92528097	644	63597										
TMEM117	84216	broad.mit.edu	37	chr12	44238497	44238497	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atttccagcatccctggtctCgcatgattgtggcttacttg	9	11	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:44238497C>A	uc001rod.2	+	2	109	c.43C>A	c.(43-45)CGC>AGC	p.R15S	TMEM117_uc001roe.2_5'UTR|TMEM117_uc009zkc.2_Missense_Mutation_p.R15S	NM_032256	NP_115632	Q9H0C3	TM117_HUMAN	transmembrane protein 117	15						endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		TCCCTGGTCTCGCATGATTGT	0.403													5	103	---	---	---	---	PASS	A	44238497	A	A	44238497	3	1	178	1	0	0	0	0	1	0	0	0	16028	884	31	2	45	2	TMEM117	12	44238497	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2914699	44238497	89613398	645	63598										
SFRS2IP	9169	broad.mit.edu	37	chr12	46316732	46316732	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aacttgccttgtctgtcttcGagctatctgcgctggcttcc	9	13	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:46316732G>T	uc001rox.2	-	13	4399	c.4112C>A	c.(4111-4113)TCG>TAG	p.S1371*	SFRS2IP_uc001row.2_Nonsense_Mutation_p.S1056*	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	1371					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		GTCTGTCTTCGAGCTATCTGC	0.403													8	168	---	---	---	---	PASS	T	46316732	T	T	46316732	4	4	178	1	0	0	0	0	0	1	0	0	14177	1059	37	2	291	2	SFRS2IP	12	46316732	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2078235	46316732	87535163	646	63599										
SLC38A1	81539	broad.mit.edu	37	chr12	46601397	46601397	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcccccagcttttcatacacCatgcagcctatttaaaaatc	3	14	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:46601397C>A	uc001rpa.2	-	7	654	c.396G>T	c.(394-396)ATG>ATT	p.M132I	SLC38A1_uc001rpb.2_Missense_Mutation_p.M132I|SLC38A1_uc001rpc.2_Missense_Mutation_p.M132I|SLC38A1_uc001rpd.2_Missense_Mutation_p.M132I|SLC38A1_uc001rpe.2_Missense_Mutation_p.M132I|SLC38A1_uc010slh.1_Missense_Mutation_p.M105I|SLC38A1_uc009zkj.1_Missense_Mutation_p.M132I	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	132	Helical; (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)			TTTCATACACCATGCAGCCTA	0.398													7	128	---	---	---	---	PASS	A	46601397	A	A	46601397	3	1	178	1	0	0	0	0	1	0	0	0	14601	594	21	3	1111	3	SLC38A1	12	46601397	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	284665	46601397	87250498	647	63600										
PFKM	5213	broad.mit.edu	37	chr12	48538878	48538878	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gggcgccaaggctatgaactGgatgtctgggaaaatcaaag	14	7	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:48538878G>T	uc001rrc.2	+	21	2227	c.2057G>T	c.(2056-2058)TGG>TTG	p.W686L	PFKM_uc001rra.1_Missense_Mutation_p.W371L|PFKM_uc001rrb.1_Missense_Mutation_p.W757L|PFKM_uc001rrd.2_Missense_Mutation_p.W371L|PFKM_uc001rre.1_Missense_Mutation_p.W686L|PFKM_uc001rrg.1_Missense_Mutation_p.W655L	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	686			W -> C (in GSD7; Japanese).		fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						GCTATGAACTGGATGTCTGGG	0.493													6	77	---	---	---	---	PASS	T	48538878	T	T	48538878	3	4	178	1	0	0	0	0	1	0	0	0	11765	1357	47	3	2356	3	PFKM	12	48538878	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1937481	48538878	85313017	648	63601										
KRT73	319101	broad.mit.edu	37	chr12	53009982	53009982	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcctccaccacttcgcgcacGctcctcagctccgagtccag	7	20	1	0	rs116369374	by1000genomes	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:53009982G>T	uc001sas.2	-	2	665	c.630C>A	c.(628-630)AGC>AGA	p.S210R		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	210	Coil 1B.|Rod.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CTTCGCGCACGCTCCTCAGCT	0.622													17	48	---	---	---	---	PASS	T	53009982	T	T	53009982	3	4	178	1	0	0	0	0	1	0	0	0	8486	1078	38	1	1024	1	KRT73	12	53009982	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	4471104	53009982	80841913	649	63602										
OR6C75	390323	broad.mit.edu	37	chr12	55759010	55759010	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctacatgttaagtgtgactgGgaacctgatcattatcaccc	8	10	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:55759010G>T	uc010spk.1	+	1	116	c.116G>T	c.(115-117)GGG>GTG	p.G39V		NM_001005497	NP_001005497	A6NL08	O6C75_HUMAN	olfactory receptor, family 6, subfamily C,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3						AGTGTGACTGGGAACCTGATC	0.423													8	132	---	---	---	---	PASS	T	55759010	T	T	55759010	3	4	178	1	0	0	0	0	1	0	0	0	11199	1232	43	3	118	3	OR6C75	12	55759010	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2749028	55759010	78092885	650	63603										
SRGAP1	57522	broad.mit.edu	37	chr12	64410791	64410791	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggttcttaatgagctttataCggtaaggacataatctttct	8	6	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:64410791C>A	uc010ssp.1	+	4	544	c.488C>A	c.(487-489)ACG>AAG	p.T163K	SRGAP1_uc001srt.2_Missense_Mutation_p.T163K|SRGAP1_uc001srv.2_Missense_Mutation_p.T123K	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	163					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		GAGCTTTATACGGTAAGGACA	0.303													6	91	---	---	---	---	PASS	A	64410791	A	A	64410791	3	1	178	1	0	0	0	0	1	0	0	0	15144	550	19	1	502	1	SRGAP1	12	64410791	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	8651781	64410791	69441104	651	63604										
GNS	2799	broad.mit.edu	37	chr12	65113900	65113900	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctaaaagctctgggtctatGgttttagcaatgttagtgat	10	6	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:65113900G>T	uc001ssg.3	-	13	1652	c.1482C>A	c.(1480-1482)ACC>ACA	p.T494T	GNS_uc001ssf.2_Silent_p.T438T|GNS_uc010ssq.1_Silent_p.T526T|GNS_uc010ssr.1_Silent_p.T474T	NM_002076	NP_002067	P15586	GNS_HUMAN	glucosamine (N-acetyl)-6-sulfatase precursor	494						lysosome	metal ion binding|N-acetylglucosamine-6-sulfatase activity|protein binding			central_nervous_system(1)	1	Lung NSC(1;7.25e-14)|all_lung(1;1.25e-12)		LUAD - Lung adenocarcinoma(6;0.115)	GBM - Glioblastoma multiforme(28;0.0435)		CTGGGTCTATGGTTTTAGCAA	0.448													8	170	---	---	---	---	PASS	T	65113900	T	T	65113900	2	4	178	1	0	0	0	0	0	0	0	1	6550	1335	47	3		3	GNS	12	65113900	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	703109	65113900	68737995	652	63605										
RAP1B	5908	broad.mit.edu	37	chr12	69050930	69050930	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagaaaaactccagtgcctgGgaaggctcgcaaaaagtcat	10	10	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:69050930G>T	uc001sub.2	+	7	681	c.518G>T	c.(517-519)GGG>GTG	p.G173V	RAP1B_uc010ste.1_Missense_Mutation_p.G107V|RAP1B_uc001suc.2_Missense_Mutation_p.G173V|RAP1B_uc010stf.1_Missense_Mutation_p.G154V|RAP1B_uc010stg.1_Missense_Mutation_p.G131V|RAP1B_uc010sth.1_Missense_Mutation_p.G131V|RAP1B_uc010sti.1_Missense_Mutation_p.G126V	NM_001089704	NP_001083173	P61224	RAP1B_HUMAN	SubName: Full=Ras-related protein Rap-1A; SubName: Full=cDNA FLJ75985, highly similar to Homo sapiens RAP1A, member of RAS oncogene family (RAP1A), transcript variant 2, mRNA; SubName: Full=RAP1A, member of RAS oncogene family;	173					blood coagulation|energy reserve metabolic process|regulation of establishment of cell polarity|regulation of insulin secretion	cell-cell junction|cytosol	GDP binding|GTP binding|GTPase activity|protein binding				0	Breast(13;1.24e-05)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)	GBM - Glioblastoma multiforme(7;0.000306)		CCAGTGCCTGGGAAGGCTCGC	0.383													8	182	---	---	---	---	PASS	T	69050930	T	T	69050930	3	4	178	1	0	0	0	0	1	0	0	0	13036	1232	43	3	540	3	RAP1B	12	69050930	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3937030	69050930	64800965	653	63606										
PTPRR	5801	broad.mit.edu	37	chr12	71286515	71286515	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttccacttcaagatcttgacCatccatggccagcagattga	7	12	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:71286515C>A	uc001swi.1	-	2	717	c.301G>T	c.(301-303)GGT>TGT	p.G101C		NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	101	Extracellular (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		AGATCTTGACCATCCATGGCC	0.448													7	119	---	---	---	---	PASS	A	71286515	A	A	71286515	3	1	178	1	0	0	0	0	1	0	0	0	12810	594	21	3	1724	3	PTPRR	12	71286515	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2235585	71286515	62565380	654	63607										
LGR5	8549	broad.mit.edu	37	chr12	71978100	71978100	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atggtaaaacacattgccctGttgctcttcaccaactgcat	6	12	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:71978100G>T	uc001swl.2	+	18	2358	c.2310G>T	c.(2308-2310)CTG>CTT	p.L770L	LGR5_uc001swm.2_Silent_p.L746L|LGR5_uc001swn.1_Intron	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	770	Helical; Name=6; (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						ACATTGCCCTGTTGCTCTTCA	0.423													6	99	---	---	---	---	PASS	T	71978100	T	T	71978100	2	4	178	1	0	0	0	0	0	0	0	1	8757	1364	48	3		3	LGR5	12	71978100	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	691585	71978100	61873795	655	63608										
NAV3	89795	broad.mit.edu	37	chr12	78513071	78513071	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaaagctcccctaaaaggatCatctctacaaagatctcctt	4	12	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:78513071C>T	uc001syp.2	+	15	3268	c.3095C>T	c.(3094-3096)TCA>TTA	p.S1032L	NAV3_uc001syo.2_Missense_Mutation_p.S1032L|NAV3_uc010sub.1_Missense_Mutation_p.S532L|NAV3_uc009zsf.2_Missense_Mutation_p.S40L	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1032	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CTAAAAGGATCATCTCTACAA	0.438										HNSCC(70;0.22)			21	109	---	---	---	---	PASS	T	78513071	T	T	78513071	3	4	178	1	0	0	0	0	1	0	0	0	10185	838	29	2	3153	2	NAV3	12	78513071	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	6534971	78513071	55338824	656	63609										
NAV3	89795	broad.mit.edu	37	chr12	78562613	78562613	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgcccaggcggctattcagGgagcactgaatggtccagac	13	12	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:78562613G>T	uc001syp.2	+	24	5121	c.4948G>T	c.(4948-4950)GGA>TGA	p.G1650*	NAV3_uc001syo.2_Nonsense_Mutation_p.G1650*|NAV3_uc010sub.1_Nonsense_Mutation_p.G1136*|NAV3_uc009zsf.2_Nonsense_Mutation_p.G481*	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1650	Potential.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GGCTATTCAGGGAGCACTGAA	0.378										HNSCC(70;0.22)			7	121	---	---	---	---	PASS	T	78562613	T	T	78562613	4	4	178	1	0	0	0	0	0	1	0	0	10185	1233	43	3	5042	3	NAV3	12	78562613	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	49542	78562613	55289282	657	63610										
MYF5	4617	broad.mit.edu	37	chr12	81111130	81111130	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atgcgcgagcggaggcgcctGaagaaggtcaaccaggcttt	15	10	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:81111130G>T	uc001szg.2	+	1	423	c.288G>T	c.(286-288)CTG>CTT	p.L96L		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	96	Helix-loop-helix motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GGAGGCGCCTGAAGAAGGTCA	0.602													5	21	---	---	---	---	PASS	T	81111130	T	T	81111130	2	4	178	1	0	0	0	0	0	0	0	1	10027	1277	45	2		2	MYF5	12	81111130	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2548517	81111130	52740765	658	63611										
TMTC2	160335	broad.mit.edu	37	chr12	83324281	83324281	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgaaagcgcctatagaaatGctttgtactaccgcagcaac	8	11	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:83324281G>T	uc001szt.2	+	4	1987	c.1555G>T	c.(1555-1557)GCT>TCT	p.A519S	TMTC2_uc001szr.1_Missense_Mutation_p.A519S|TMTC2_uc001szs.1_Missense_Mutation_p.A519S|TMTC2_uc010suk.1_Missense_Mutation_p.A274S	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	519	TPR 2.					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						CTATAGAAATGCTTTGTACTA	0.423													5	45	---	---	---	---	PASS	T	83324281	T	T	83324281	3	4	178	1	0	0	0	0	1	0	0	0	16258	1319	46	3	1569	3	TMTC2	12	83324281	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2213151	83324281	50527614	659	63612										
POC1B	282809	broad.mit.edu	37	chr12	89818973	89818973	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gagttgttccataatatgctCtaaagcatcagtcacagcga	8	9	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:89818973C>A	uc001tbc.2	-	11	1402	c.1297G>T	c.(1297-1299)GAG>TAG	p.E433*	POC1B_uc001tba.2_Nonsense_Mutation_p.E391*|POC1B_uc001tbb.2_Nonsense_Mutation_p.E303*|POC1B_uc010sun.1_RNA|POC1B_uc009zsp.2_RNA|POC1B_uc009zsq.2_RNA	NM_172240	NP_758440	Q8TC44	POC1B_HUMAN	WD repeat domain 51B	433	Potential.				cell projection organization	centriole|microtubule basal body				ovary(1)	1						ATAATATGCTCTAAAGCATCA	0.428													8	123	---	---	---	---	PASS	A	89818973	A	A	89818973	4	1	178	1	0	0	0	0	0	1	0	0	12176	922	32	2	147	2	POC1B	12	89818973	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	6494692	89818973	44032922	660	63613										
EEA1	8411	broad.mit.edu	37	chr12	93251254	93251254	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcttgtctgagcagtgttaCatcatctctaaataaaaatg	6	8	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:93251254C>A	uc001tck.2	-	4	518	c.253G>T	c.(253-255)GTA>TTA	p.V85L		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	85	Potential.				early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						AGCAGTGTTACATCATCTCTA	0.308													8	245	---	---	---	---	PASS	A	93251254	A	A	93251254	3	1	178	1	0	0	0	0	1	0	0	0	4921	478	17	3	4086	3	EEA1	12	93251254	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3432281	93251254	40600641	661	63614										
APAF1	317	broad.mit.edu	37	chr12	99076989	99076989	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcagagcaagtcaattgctgCcatttcaccaacagtagtca	7	11	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:99076989C>T	uc001tfz.2	+	15	2692	c.2115C>T	c.(2113-2115)TGC>TGT	p.C705C	APAF1_uc001tfy.2_Silent_p.C694C|APAF1_uc001tga.2_Silent_p.C694C|APAF1_uc001tgb.2_Silent_p.C705C|APAF1_uc001tgc.2_Intron|APAF1_uc009zto.2_Silent_p.C114C	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	705	WD 3.				activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	TCAATTGCTGCCATTTCACCA	0.373													11	72	---	---	---	---	PASS	T	99076989	T	T	99076989	2	4	178	1	0	0	0	0	0	0	0	1	755	747	26	3		3	APAF1	12	99076989	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	5825735	99076989	34774906	662	63615										
STAB2	55576	broad.mit.edu	37	chr12	104097053	104097053	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taatgacactactattatacGagtaagttctatgggccaga	8	7	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:104097053G>T	uc001tjw.2	+	35	4028	c.3842G>T	c.(3841-3843)CGA>CTA	p.R1281L		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1281	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						ACTATTATACGAGTAAGTTCT	0.368													5	79	---	---	---	---	PASS	T	104097053	T	T	104097053	3	4	178	1	0	0	0	0	1	0	0	0	15237	1072	37	2	3980	2	STAB2	12	104097053	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5020064	104097053	29754842	663	63616										
APPL2	55198	broad.mit.edu	37	chr12	105597489	105597489	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtgcagcattacctttgaacCatgtctgcaacggaggataa	10	9	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:105597489C>A	uc001tlf.1	-	9	914	c.696G>T	c.(694-696)ATG>ATT	p.M232I	APPL2_uc010swt.1_Missense_Mutation_p.M189I|APPL2_uc001tlg.1_5'UTR|APPL2_uc010swu.1_Missense_Mutation_p.M238I|APPL2_uc009zuq.2_Missense_Mutation_p.M189I	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH	232	Required for RAB5A binding (By similarity).				cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1						ACCTTTGAACCATGTCTGCAA	0.448													9	135	---	---	---	---	PASS	A	105597489	A	A	105597489	3	1	178	1	0	0	0	0	1	0	0	0	818	594	21	3	1350	3	APPL2	12	105597489	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1500436	105597489	28254406	664	63617										
RIC8B	55188	broad.mit.edu	37	chr12	107236523	107236523	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acagttttgaaaaacaatacCatggtatacaatggtatgaa	7	5	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:107236523C>A	uc001tlx.2	+	5	1118	c.993C>A	c.(991-993)ACC>ACA	p.T331T	RIC8B_uc001tlw.2_Silent_p.T331T|RIC8B_uc001tly.2_Silent_p.T291T|RIC8B_uc001tlz.2_RNA|RIC8B_uc009zur.2_RNA	NM_018157	NP_060627	Q9NVN3	RIC8B_HUMAN	resistance to inhibitors of cholinesterase 8	331					regulation of G-protein coupled receptor protein signaling pathway	cell cortex|cytosol|plasma membrane	G-protein alpha-subunit binding|guanyl-nucleotide exchange factor activity			ovary(1)	1						AAAACAATACCATGGTATACA	0.398													6	54	---	---	---	---	PASS	A	107236523	A	A	107236523	2	1	178	1	0	0	0	0	0	0	0	1	13356	581	21	3		3	RIC8B	12	107236523	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1639034	107236523	26615372	665	63618										
ACACB	32	broad.mit.edu	37	chr12	109637324	109637324	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acagtggaggatgggggccaCgttgaggctgggagcagcta	19	7	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:109637324C>T	uc001tob.2	+	18	2864	c.2745C>T	c.(2743-2745)CAC>CAT	p.H915H	ACACB_uc001toc.2_Silent_p.H915H	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	915	Biotinyl-binding.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	ATGGGGGCCACGTTGAGGCTG	0.572													14	34	---	---	---	---	PASS	T	109637324	T	T	109637324	2	4	178	1	0	0	0	0	0	0	0	1	107	535	19	1		1	ACACB	12	109637324	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	2400801	109637324	24214571	666	63619										
SDS	10993	broad.mit.edu	37	chr12	113830792	113830792	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccagctgttccttgagcgccCgcagctgggccaggctgatg	14	14	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:113830792C>G	uc001tvg.2	-	8	1063	c.941G>C	c.(940-942)CGG>CCG	p.R314P		NM_006843	NP_006834	P20132	SDHL_HUMAN	serine dehydratase	314					gluconeogenesis|L-serine catabolic process|pyruvate biosynthetic process	cytoplasm	L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|protein homodimerization activity|pyridoxal phosphate binding			pancreas(1)	1					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	CTTGAGCGCCCGCAGCTGGGC	0.622													4	86	---	---	---	---	PASS	G	113830792	G	G	113830792	3	3	178	1	0	0	0	0	1	0	0	0	13975	652	23	4	49	4	SDS	12	113830792	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4193468	113830792	20021103	667	63620										
TBX3	6926	broad.mit.edu	37	chr12	115118836	115118836	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttaccagccaccatccaccGagaattgtgaaatttataac	5	12	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:115118836G>T	uc001tvt.1	-	2	1469	c.505C>A	c.(505-507)CGG>AGG	p.R169R	TBX3_uc001tvu.1_Silent_p.R169R|TBX3_uc010syw.1_Silent_p.R169R	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	169	T-box; first part.				anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		ACCATCCACCGAGAATTGTGA	0.453													5	102	---	---	---	---	PASS	T	115118836	T	T	115118836	2	4	178	1	0	0	0	0	0	0	0	1	15656	1057	37	2		2	TBX3	12	115118836	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1288044	115118836	18733059	668	63621										
POP5	51367	broad.mit.edu	37	chr12	121017127	121017127	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggggagcagaggttcactcCattgcttctgcagcctcctc	11	13	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:121017127C>A	uc001tys.2	-	5	518	c.486G>T	c.(484-486)ATG>ATT	p.M162I	POP5_uc001tyt.2_Missense_Mutation_p.M112I	NM_015918	NP_057002	Q969H6	POP5_HUMAN	processing of precursor 5 isoform a	162					tRNA processing		protein binding|ribonuclease P activity				0	all_neural(191;0.077)|Medulloblastoma(191;0.0922)					AGGTTCACTCCATTGCTTCTG	0.532													6	49	---	---	---	---	PASS	A	121017127	A	A	121017127	3	1	178	1	0	0	0	0	1	0	0	0	12253	594	21	3	9	3	POP5	12	121017127	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5898291	121017127	12834768	669	63622										
ANAPC5	51433	broad.mit.edu	37	chr12	121775156	121775156	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttccttctgcaaggaagctgGagtgagggccttagtctcat	12	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:121775156G>T	uc001uag.2	-	6	819	c.697C>A	c.(697-699)CCA>ACA	p.P233T	ANAPC5_uc001uae.2_5'Flank|ANAPC5_uc010szv.1_5'Flank|ANAPC5_uc001uaf.2_RNA|ANAPC5_uc001uah.2_Missense_Mutation_p.P134T|ANAPC5_uc001uai.1_5'UTR	NM_016237	NP_057321	Q9UJX4	APC5_HUMAN	anaphase-promoting complex subunit 5 isoform a	233					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding|ubiquitin-protein ligase activity			skin(3)|breast(2)|kidney(1)	6	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					AAGGAAGCTGGAGTGAGGGCC	0.358													8	122	---	---	---	---	PASS	T	121775156	T	T	121775156	3	4	178	1	0	0	0	0	1	0	0	0	605	1174	41	2	1618	2	ANAPC5	12	121775156	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	758029	121775156	12076739	670	63623										
SBNO1	55206	broad.mit.edu	37	chr12	123780467	123780467	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tctgttcttcatgcgttgctCaagttggtgatgctctgagg	12	8	5	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:123780467C>A	uc010tap.1	-	31	4170	c.4170G>T	c.(4168-4170)TTG>TTT	p.L1390F	SBNO1_uc009zxv.2_RNA|SBNO1_uc010tao.1_Missense_Mutation_p.L1389F|SBNO1_uc010taq.1_Missense_Mutation_p.L341F	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	1390							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		ATGCGTTGCTCAAGTTGGTGA	0.428													11	241	---	---	---	---	PASS	A	123780467	A	A	123780467	3	1	178	1	0	0	0	0	1	0	0	0	13862	825	29	2	15	2	SBNO1	12	123780467	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2005311	123780467	10071428	671	63624										
P2RX2	22953	broad.mit.edu	37	chr12	133198319	133198319	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acccctcaggtagctggcctGtgacccttgcccgtgtattg	11	14	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr12:133198319G>T	uc001ukj.1	+	11	1177	c.1177G>T	c.(1177-1179)GTG>TTG	p.V393L	P2RX2_uc001uki.1_Intron|P2RX2_uc001ukk.1_Missense_Mutation_p.V419L|P2RX2_uc001ukl.1_Missense_Mutation_p.V369L|P2RX2_uc001ukm.1_Missense_Mutation_p.V321L|P2RX2_uc001ukn.1_Missense_Mutation_p.V301L|P2RX2_uc009zyt.1_3'UTR|P2RX2_uc001uko.1_Intron	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	393	Cytoplasmic (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		TAGCTGGCCTGTGACCCTTGC	0.592													4	21	---	---	---	---	PASS	T	133198319	T	T	133198319	3	4	178	1	0	0	0	0	1	0	0	0	11340	1377	48	3	1293	3	P2RX2	12	133198319	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	9417852	133198319	653576	672	63625										
SGCG	6445	broad.mit.edu	37	chr13	23853520	23853520	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cccaaaatggtagaagtccaGaatcaacagtttcagatcaa	7	9	3	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:23853520G>C	uc001uom.2	+	5	563	c.408G>C	c.(406-408)CAG>CAC	p.Q136H	SGCG_uc009zzv.2_Missense_Mutation_p.Q136H|SGCG_uc009zzw.2_Missense_Mutation_p.Q136H	NM_000231	NP_000222	Q13326	SGCG_HUMAN	gamma sarcoglycan	136	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0		all_cancers(29;4.34e-23)|all_epithelial(30;4.4e-19)|all_lung(29;2.45e-18)|Lung SC(185;0.0228)|Breast(139;0.188)		all cancers(112;0.00255)|Epithelial(112;0.0129)|OV - Ovarian serous cystadenocarcinoma(117;0.0365)|Lung(94;0.205)		TAGAAGTCCAGAATCAACAGT	0.388													5	23	---	---	---	---	PASS	C	23853520	C	C	23853520	3	2	178	1	0	0	0	0	1	0	0	0	14203	933	33	2	422	2	SGCG	13	23853520	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08		23853520	91316358	673	63626										
MIPEP	4285	broad.mit.edu	37	chr13	24443477	24443477	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agagccctgtgagaaaacgtGgaataccccaccaactttgc	9	12	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:24443477G>T	uc001uox.3	-	7	997	c.897C>A	c.(895-897)TCC>TCA	p.S299S		NM_005932	NP_005923	Q99797	MIPEP_HUMAN	mitochondrial intermediate peptidase precursor	299					protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)		GAGAAAACGTGGAATACCCCA	0.388													7	92	---	---	---	---	PASS	T	24443477	T	T	24443477	2	4	178	1	0	0	0	0	0	0	0	1	9592	1335	47	3		3	MIPEP	13	24443477	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	589957	24443477	90726401	674	63627										
PARP4	143	broad.mit.edu	37	chr13	25027743	25027743	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	accatgatgaactctgctgcCatggtattgcttgtgatatg	10	8	1	3	rs150983352		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:25027743C>A	uc001upl.2	-	23	2914	c.2808G>T	c.(2806-2808)ATG>ATT	p.M936I	PARP4_uc010tdc.1_Missense_Mutation_p.M936I	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	936	VWFA.			M -> A (in Ref. 2; AAC62491 and 3; BAA11494).|M -> T (in Ref. 1; AAD47250).	cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		ACTCTGCTGCCATGGTATTGC	0.478													4	57	---	---	---	---	PASS	A	25027743	A	A	25027743	3	1	178	1	0	0	0	0	1	0	0	0	11463	594	21	3	2414	3	PARP4	13	25027743	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	584266	25027743	90142135	675	63628										
GPR12	2835	broad.mit.edu	37	chr13	27333755	27333755	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctcgcaggctggggttgtgGaagatgataaggaccacaat	15	7	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:27333755G>A	uc010aal.2	-	2	432	c.210C>T	c.(208-210)TTC>TTT	p.F70F	GPR12_uc010tdl.1_Intron	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	70	Cytoplasmic (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		TGGGGTTGTGGAAGATGATAA	0.532													13	33	---	---	---	---	PASS	A	27333755	A	A	27333755	2	1	178	1	0	0	0	0	0	0	0	1	6635	1165	41	2		2	GPR12	13	27333755	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2306012	27333755	87836123	676	63629										
FLT3	2322	broad.mit.edu	37	chr13	28599066	28599066	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccgggtgtatctgaacttctCttgaaccaggcatgctatta	9	10	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:28599066C>A	uc001urw.2	-	18	2304	c.2222G>T	c.(2221-2223)AGA>ATA	p.R741I	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Missense_Mutation_p.R741I	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	741	Protein kinase.|Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	CTGAACTTCTCTTGAACCAGG	0.303			Mis|O		AML|ALL								9	155	---	---	---	---	PASS	A	28599066	A	A	28599066	3	1	178	1	0	0	0	0	1	0	0	0	5942	913	32	2	787	2	FLT3	13	28599066	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1265311	28599066	86570812	677	63630										
FLT3	2322	broad.mit.edu	37	chr13	28624272	28624272	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cattccctgcccagttcattTctggcacagcaccttatgtc	6	15	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:28624272T>C	uc001urw.2	-	6	784	c.702A>G	c.(700-702)AGA>AGG	p.R234R	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Silent_p.R234R	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	234	Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	CCAGTTCATTTCTGGCACAGC	0.413			Mis|O		AML|ALL								16	68	---	---	---	---	PASS	C	28624272	C	C	28624272	2	2	178	1	0	0	0	0	0	0	0	1	5942	1780	62	5		5	FLT3	13	28624272	Silent	SNP	T	TCGA-85-6561-01A-11D-1817-08	25206	28624272	86545606	678	63631										
EPSTI1	94240	broad.mit.edu	37	chr13	43528111	43528111	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gatgctctctaaatgcttctCttctaaggttttcttgaagt	7	8	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:43528111C>A	uc001uyw.1	-	6	612	c.536G>T	c.(535-537)AGA>ATA	p.R179I	EPSTI1_uc001uyx.1_Missense_Mutation_p.R179I	NM_001002264	NP_001002264	Q96J88	ESIP1_HUMAN	epithelial stromal interaction 1 isoform 1	179	Potential.									ovary(1)	1		Lung NSC(96;3.6e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000528)|BRCA - Breast invasive adenocarcinoma(63;0.0858)		AAATGCTTCTCTTCTAAGGTT	0.333													6	49	---	---	---	---	PASS	A	43528111	A	A	43528111	3	1	178	1	0	0	0	0	1	0	0	0	5198	913	32	2	728	2	EPSTI1	13	43528111	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	14903839	43528111	71641767	679	63632										
KPNA3	3839	broad.mit.edu	37	chr13	50306786	50306786	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggaccactgggttatcacttGtggcattctgcaataccaaa	9	10	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:50306786G>T	uc001vdj.2	-	5	657	c.242C>A	c.(241-243)ACA>AAA	p.T81K		NM_002267	NP_002258	O00505	IMA3_HUMAN	karyopherin alpha 3	81	ARM 1; truncated.				interspecies interaction between organisms|NLS-bearing substrate import into nucleus|protein complex assembly	cytoplasm|nuclear pore	nuclear localization sequence binding|protein transporter activity				0		Lung NSC(96;2.46e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.42e-09)		GTTATCACTTGTGGCATTCTG	0.338													6	128	---	---	---	---	PASS	T	50306786	T	T	50306786	3	4	178	1	0	0	0	0	1	0	0	0	8431	1377	48	3	1375	3	KPNA3	13	50306786	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6778675	50306786	64863092	680	63633										
PCDH20	64881	broad.mit.edu	37	chr13	61986230	61986230	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacccatccatttcgtccagCgtcagcatctgttacactaa	6	14	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:61986230C>A	uc001vid.3	-	2	2366	c.2002G>T	c.(2002-2004)GCT>TCT	p.A668S	PCDH20_uc010thj.1_Missense_Mutation_p.A668S	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	641	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		TTTCGTCCAGCGTCAGCATCT	0.448													6	50	---	---	---	---	PASS	A	61986230	A	A	61986230	3	1	178	1	0	0	0	0	1	0	0	0	11515	768	27	1	857	1	PCDH20	13	61986230	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	11679444	61986230	53183648	681	63634										
TBC1D4	9882	broad.mit.edu	37	chr13	75923357	75923357	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtgcatcgggcaggcctcacAcagtttaatctgcgtcttgg	12	11	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:75923357A>T	uc001vjl.1	-	5	1704	c.1357T>A	c.(1357-1359)TGT>AGT	p.C453S	TBC1D4_uc010aer.2_Missense_Mutation_p.C453S|TBC1D4_uc010aes.2_Missense_Mutation_p.C453S	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	453	PID 2.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		CAGGCCTCACACAGTTTAATC	0.473													6	39	---	---	---	---	PASS	T	75923357	T	T	75923357	3	4	178	1	0	0	0	0	1	0	0	0	15619	159	6	5	2607	5	TBC1D4	13	75923357	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	13937127	75923357	39246521	682	63635										
CLN5	1203	broad.mit.edu	37	chr13	77570146	77570146	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgtacatttccccatctccGacctgaaatggatgcccctt	6	15	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:77570146G>T	uc001vkc.2	+	3	624	c.596G>T	c.(595-597)CGA>CTA	p.R199L		NM_006493	NP_006484	O75503	CLN5_HUMAN	ceroid-lipofuscinosis, neuronal 5	150					brain development|cell death|lysosomal lumen acidification|neuron maturation|protein catabolic process	endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.205)		GBM - Glioblastoma multiforme(99;0.0503)		CCCCATCTCCGACCTGAAATG	0.428													5	89	---	---	---	---	PASS	T	77570146	T	T	77570146	3	4	178	1	0	0	0	0	1	0	0	0	3544	1058	37	2	606	2	CLN5	13	77570146	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1646789	77570146	37599732	683	63636										
MYCBP2	23077	broad.mit.edu	37	chr13	77724879	77724879	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aataaattaccttcatcattGttatggcaatatatcgagct	5	7	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:77724879G>T	uc001vkf.2	-	48	7098	c.7007C>A	c.(7006-7008)ACA>AAA	p.T2336K	MYCBP2_uc010aev.2_Missense_Mutation_p.T1740K	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2336	Filamin.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CTTCATCATTGTTATGGCAAT	0.323													6	69	---	---	---	---	PASS	T	77724879	T	T	77724879	3	4	178	1	0	0	0	0	1	0	0	0	10018	1377	48	3	7063	3	MYCBP2	13	77724879	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	154733	77724879	37444999	684	63637										
ITGBL1	9358	broad.mit.edu	37	chr13	102105224	102105224	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggaacttcttgctgctggcgTcctcccttctctttgctggg	11	13	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:102105224T>C	uc001vpb.2	+	1	259	c.40T>C	c.(40-42)TCC>CCC	p.S14P	ITGBL1_uc010agb.2_Missense_Mutation_p.S14P|ITGBL1_uc001vpc.3_5'UTR	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	14					cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GCTGCTGGCGTCCTCCCTTCT	0.567													3	60	---	---	---	---	PASS	C	102105224	C	C	102105224	3	2	178	1	0	0	0	0	1	0	0	0	7902	1667	58	5	42	5	ITGBL1	13	102105224	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	24380345	102105224	13064654	685	63638										
EFNB2	1948	broad.mit.edu	37	chr13	107165088	107165088	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggccaacagttttagagtcCactttggggcaaataatatc	9	8	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:107165088C>A	uc001vqi.2	-	2	220	c.195G>T	c.(193-195)GTG>GTT	p.V65V		NM_004093	NP_004084	P52799	EFNB2_HUMAN	ephrin B2 precursor	65	Extracellular (Potential).				cell differentiation|cell-cell signaling|interspecies interaction between organisms|nervous system development	integral to plasma membrane	ephrin receptor binding			ovary(1)	1	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					TTTTAGAGTCCACTTTGGGGC	0.368													7	117	---	---	---	---	PASS	A	107165088	A	A	107165088	2	1	178	1	0	0	0	0	0	0	0	1	4956	581	21	3		3	EFNB2	13	107165088	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	5059864	107165088	8004790	686	63639										
CARS2	79587	broad.mit.edu	37	chr13	111340110	111340110	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cccacgagcaatgattccttCaatgaaagaaattatctgag	7	9	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr13:111340110C>A	uc001vrd.2	-	5	569	c.529G>T	c.(529-531)GAA>TAA	p.E177*	CARS2_uc010tjm.1_RNA	NM_024537	NP_078813	Q9HA77	SYCM_HUMAN	cysteinyl-tRNA synthetase 2, mitochondrial	177					cysteinyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|cysteine-tRNA ligase activity|metal ion binding				0	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.163)		L-Cysteine(DB00151)	ATGATTCCTTCAATGAAAGAA	0.363													11	230	---	---	---	---	PASS	A	111340110	A	A	111340110	4	1	178	1	0	0	0	0	0	1	0	0	2658	835	29	2	1209	2	CARS2	13	111340110	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4175022	111340110	3829768	687	63640										
OR4K5	79317	broad.mit.edu	37	chr14	20389679	20389679	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaggaaaattgtgaaccattAcctgaggccaaggagaattt	10	6	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:20389679A>C	uc010tkw.1	+	1	914	c.914A>C	c.(913-915)TAC>TCC	p.Y305S		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GTGAACCATTACCTGAGGCCA	0.388													42	67	---	---	---	---	PASS	C	20389679	C	C	20389679	3	2	178	1	0	0	0	0	1	0	0	0	11073	391	14	5	916	5	OR4K5	14	20389679	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08		20389679	86959861	688	63641										
SUPT16H	11198	broad.mit.edu	37	chr14	21834657	21834657	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgctttttaaccacgtccatGacagcgttatacacgtcaca	6	12	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:21834657G>T	uc001wao.2	-	8	1326	c.987C>A	c.(985-987)GTC>GTA	p.V329V		NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	329					DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		CCACGTCCATGACAGCGTTAT	0.348													9	220	---	---	---	---	PASS	T	21834657	T	T	21834657	2	4	178	1	0	0	0	0	0	0	0	1	15393	1277	45	2		2	SUPT16H	14	21834657	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1444978	21834657	85514883	689	63642										
RAB2B	84932	broad.mit.edu	37	chr14	21931912	21931912	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttctctcttcacatccctgCgggactctaggtcactgcaa	7	15	5	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:21931912C>A	uc010tlt.1	-	6	478	c.377G>T	c.(376-378)CGC>CTC	p.R126L	RAB2B_uc010tls.1_Missense_Mutation_p.R80L|RAB2B_uc001wax.2_Missense_Mutation_p.R61L|RAB2B_uc010ain.2_Missense_Mutation_p.R17L	NM_032846	NP_116235	Q8WUD1	RAB2B_HUMAN	RAB2B protein isoform 1	126					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane|plasma membrane	GTP binding			ovary(1)	1	all_cancers(95;0.000858)		Epithelial(56;1.53e-06)|all cancers(55;1.44e-05)	GBM - Glioblastoma multiforme(265;0.00391)		CACATCCCTGCGGGACTCTAG	0.408													49	66	---	---	---	---	PASS	A	21931912	A	A	21931912	3	1	178	1	0	0	0	0	1	0	0	0	12918	768	27	1	285	1	RAB2B	14	21931912	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	97255	21931912	85417628	690	63643										
HOMEZ	57594	broad.mit.edu	37	chr14	23746063	23746063	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggtcccgacggtagactactCgggctcgagtctcttctatt	11	12	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:23746063C>A	uc001wja.2	-	2	522	c.374G>T	c.(373-375)CGA>CTA	p.R125L	HOMEZ_uc001wjb.2_Missense_Mutation_p.R127L	NM_020834	NP_065885	Q8IX15	HOMEZ_HUMAN	homeodomain leucine zipper protein	125						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		GTAGACTACTCGGGCTCGAGT	0.532													6	98	---	---	---	---	PASS	A	23746063	A	A	23746063	3	1	178	1	0	0	0	0	1	0	0	0	7281	884	31	2	1282	2	HOMEZ	14	23746063	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1814151	23746063	83603477	691	63644										
FOXG1	2290	broad.mit.edu	37	chr14	29237481	29237481	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agttacaacggcaccacgtcGgcctaccccagccaccccat	7	19	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:29237481G>A	uc001wqe.2	+	1	1195	c.996G>A	c.(994-996)TCG>TCA	p.S332S		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	332					axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		GCACCACGTCGGCCTACCCCA	0.652													15	38	---	---	---	---	PASS	A	29237481	A	A	29237481	2	1	178	1	0	0	0	0	0	0	0	1	6007	1103	39	1		1	FOXG1	14	29237481	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	5491418	29237481	78112059	692	63645										
G2E3	55632	broad.mit.edu	37	chr14	31085736	31085736	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagttctcattacattggacAttaaaatgtttccttgaaca	5	7	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:31085736A>G	uc001wqk.2	+	15	2271	c.2117A>G	c.(2116-2118)CAT>CGT	p.H706R	G2E3_uc010tpf.1_Missense_Mutation_p.H660R|G2E3_uc001wql.1_Missense_Mutation_p.H218R	NM_017769	NP_060239	Q7L622	G2E3_HUMAN	G2/M-phase specific E3 ubiquitin ligase	706					apoptosis|multicellular organismal development|protein modification process	Golgi apparatus|nucleolus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						TACATTGGACATTAAAATGTT	0.313													31	59	---	---	---	---	PASS	G	31085736	G	G	31085736	3	3	178	1	0	0	0	0	1	0	0	0	6140	217	8	5	2171	5	G2E3	14	31085736	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	1848255	31085736	76263804	693	63646										
HECTD1	25831	broad.mit.edu	37	chr14	31578712	31578712	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	catgcttgagacgaccaactCgaaactctccagggtcatct	8	13	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:31578712C>A	uc001wrc.1	-	36	6860	c.6371G>T	c.(6370-6372)CGA>CTA	p.R2124L	HECTD1_uc001wra.1_Missense_Mutation_p.R250L|HECTD1_uc001wrb.1_Missense_Mutation_p.R250L	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	2124					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		ACGACCAACTCGAAACTCTCC	0.473													5	57	---	---	---	---	PASS	A	31578712	A	A	31578712	3	1	178	1	0	0	0	0	1	0	0	0	7039	884	31	2	1493	2	HECTD1	14	31578712	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	492976	31578712	75770828	694	63647										
ARHGAP5	394	broad.mit.edu	37	chr14	32560744	32560744	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gagagattatcatgcaacttGgaaaactgttagtaataaat	8	4	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:32560744G>T	uc001wrl.2	+	2	1108	c.869G>T	c.(868-870)TGG>TTG	p.W290L	ARHGAP5_uc001wrm.2_Missense_Mutation_p.W290L|ARHGAP5_uc001wrn.2_Missense_Mutation_p.W290L|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	290	FF 1.				cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		CATGCAACTTGGAAAACTGTT	0.328													10	218	---	---	---	---	PASS	T	32560744	T	T	32560744	3	4	178	1	0	0	0	0	1	0	0	0	886	1357	47	3	871	3	ARHGAP5	14	32560744	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	982032	32560744	74788796	695	63648										
AKAP6	9472	broad.mit.edu	37	chr14	33015639	33015639	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctcagacaacatcatgtctCcggtgccacttctttcaaaa	6	13	5	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:33015639C>A	uc001wrq.2	+	4	1950	c.1780C>A	c.(1780-1782)CCG>ACG	p.P594T	AKAP6_uc010aml.2_Missense_Mutation_p.P591T	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	594					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CATCATGTCTCCGGTGCCACT	0.468													6	90	---	---	---	---	PASS	A	33015639	A	A	33015639	3	1	178	1	0	0	0	0	1	0	0	0	455	855	30	2	1790	2	AKAP6	14	33015639	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	454895	33015639	74333901	696	63649										
CTAGE5	4253	broad.mit.edu	37	chr14	39818059	39818059	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attgtttccagtggatgcaaGaggcccattcttgagaagag	12	7	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:39818059G>T	uc001wvg.3	+	23	2462	c.2126G>T	c.(2125-2127)AGA>ATA	p.R709I	CTAGE5_uc001wuz.3_Missense_Mutation_p.R697I|CTAGE5_uc001wuy.3_Missense_Mutation_p.R629I|CTAGE5_uc001wvb.3_Missense_Mutation_p.R637I|CTAGE5_uc001wvc.3_Missense_Mutation_p.R611I|CTAGE5_uc001wva.3_Missense_Mutation_p.R680I|CTAGE5_uc001wvh.3_Missense_Mutation_p.R666I|CTAGE5_uc001wvf.3_Missense_Mutation_p.R634I|CTAGE5_uc001wvi.3_Missense_Mutation_p.R714I|CTAGE5_uc010amz.2_Missense_Mutation_p.R325I|CTAGE5_uc001wvj.3_Missense_Mutation_p.R680I	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	709	Pro-rich.						enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		GTGGATGCAAGAGGCCCATTC	0.527													10	186	---	---	---	---	PASS	T	39818059	T	T	39818059	3	4	178	1	0	0	0	0	1	0	0	0	3994	942	33	2	2247	2	CTAGE5	14	39818059	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6802420	39818059	67531481	697	63650										
FANCM	57697	broad.mit.edu	37	chr14	45645264	45645264	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctaacaatcgtgttcaaataCacagaagccctgcacagaat	6	11	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:45645264C>A	uc001wwd.3	+	14	3406	c.3307C>A	c.(3307-3309)CAC>AAC	p.H1103N	FANCM_uc010anf.2_Missense_Mutation_p.H1077N|FANCM_uc001wwe.3_Missense_Mutation_p.H639N|FANCM_uc010ang.2_Missense_Mutation_p.H317N	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1103					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						TGTTCAAATACACAGAAGCCC	0.358								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				5	58	---	---	---	---	PASS	A	45645264	A	A	45645264	3	1	178	1	0	0	0	0	1	0	0	0	5671	478	17	3	3361	3	FANCM	14	45645264	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5827205	45645264	61704276	698	63651										
MDGA2	161357	broad.mit.edu	37	chr14	47566206	47566206	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttcaggcagagtcccaaagGacctgacccaggtgagagaa	12	10	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:47566206G>C	uc001wwj.3	-	6	1035	c.839C>G	c.(838-840)TCC>TGC	p.S280C	MDGA2_uc001wwi.3_Missense_Mutation_p.S51C|MDGA2_uc010ani.2_5'UTR	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	280	Ig-like 3.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						AGTCCCAAAGGACCTGACCCA	0.468													23	89	---	---	---	---	PASS	C	47566206	C	C	47566206	3	2	178	1	0	0	0	0	1	0	0	0	9407	1174	41	2	2079	2	MDGA2	14	47566206	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1920942	47566206	59783334	699	63652										
NIN	51199	broad.mit.edu	37	chr14	51224024	51224024	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atatttgggagaagcctcagGgattctctcaagcatcttca	9	9	5	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:51224024G>T	uc001wym.2	-	18	3915	c.3724C>A	c.(3724-3726)CCT>ACT	p.P1242T	NIN_uc001wyi.2_Missense_Mutation_p.P1242T|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Intron|NIN_uc010tqp.1_Missense_Mutation_p.P1248T|NIN_uc001wyo.2_Missense_Mutation_p.P1242T	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1242	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					GAAGCCTCAGGGATTCTCTCA	0.428			T	PDGFRB	MPD								8	211	---	---	---	---	PASS	T	51224024	T	T	51224024	3	4	178	1	0	0	0	0	1	0	0	0	10417	1232	43	3	2881	3	NIN	14	51224024	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3657818	51224024	56125516	700	63653										
TXNDC16	57544	broad.mit.edu	37	chr14	52936765	52936765	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctctgcttacctgttttcatGgttggactaaatagtcccaa	7	10	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:52936765G>T	uc001wzs.2	-	16	2057	c.1608C>A	c.(1606-1608)ACC>ACA	p.T536T	TXNDC16_uc010tqu.1_Silent_p.T531T|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	536					cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					CTGTTTTCATGGTTGGACTAA	0.299													8	172	---	---	---	---	PASS	T	52936765	T	T	52936765	2	4	178	1	0	0	0	0	0	0	0	1	16792	1335	47	3		3	TXNDC16	14	52936765	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1712741	52936765	54412775	701	63654										
TXNDC16	57544	broad.mit.edu	37	chr14	52981641	52981641	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttctgtggttaagacaaattGgtatgtagtcccatacacaa	8	7	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:52981641G>T	uc001wzs.2	-	8	1011	c.562C>A	c.(562-564)CAA>AAA	p.Q188K	TXNDC16_uc010tqu.1_Missense_Mutation_p.Q183K|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	188					cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					AAGACAAATTGGTATGTAGTC	0.358													8	184	---	---	---	---	PASS	T	52981641	T	T	52981641	3	4	178	1	0	0	0	0	1	0	0	0	16792	1357	47	3	1971	3	TXNDC16	14	52981641	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	44876	52981641	54367899	702	63655										
TXNDC16	57544	broad.mit.edu	37	chr14	52985907	52985907	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tacctggtattccaatggctCttacatatgagaatataata	6	7	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:52985907C>A	uc001wzs.2	-	7	946	c.497G>T	c.(496-498)AGA>ATA	p.R166I	TXNDC16_uc010tqu.1_Missense_Mutation_p.R161I|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	166					cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					TCCAATGGCTCTTACATATGA	0.308													8	160	---	---	---	---	PASS	A	52985907	A	A	52985907	3	1	178	1	0	0	0	0	1	0	0	0	16792	913	32	2	2040	2	TXNDC16	14	52985907	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4266	52985907	54363633	703	63656										
FERMT2	10979	broad.mit.edu	37	chr14	53417131	53417131	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cggctgggatgctactcaccGagtttctccaccagcttaag	10	13	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:53417131G>T	uc001xad.2	-	2	211	c.156C>A	c.(154-156)CTC>CTA	p.L52L	FERMT2_uc001xac.2_Silent_p.L52L|FERMT2_uc001xae.2_Silent_p.L52L|FERMT2_uc001xaf.2_Silent_p.L52L	NM_006832	NP_006823	Q96AC1	FERM2_HUMAN	fermitin family homolog 2 isoform 1	52					actin cytoskeleton organization|cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytosol|focal adhesion|stress fiber	binding				0	Breast(41;0.0342)					GCTACTCACCGAGTTTCTCCA	0.562													7	92	---	---	---	---	PASS	T	53417131	T	T	53417131	2	4	178	1	0	0	0	0	0	0	0	1	5818	1072	37	2		2	FERMT2	14	53417131	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	431224	53417131	53932409	704	63657										
WDHD1	11169	broad.mit.edu	37	chr14	55458024	55458024	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccatcataaaatggcctttgGgatgttacaagtggtagatt	10	6	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:55458024G>T	uc001xbm.1	-	12	1326	c.1248C>A	c.(1246-1248)TCC>TCA	p.S416S	WDHD1_uc010aom.1_5'UTR|WDHD1_uc001xbn.1_Silent_p.S293S	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	416						cytoplasm|nucleoplasm	DNA binding			skin(1)	1						ATGGCCTTTGGGATGTTACAA	0.438													6	84	---	---	---	---	PASS	T	55458024	T	T	55458024	2	4	178	1	0	0	0	0	0	0	0	1	17268	1219	43	3		3	WDHD1	14	55458024	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2040893	55458024	51891516	705	63658										
C14orf101	54916	broad.mit.edu	37	chr14	57072380	57072380	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgcataataccttggattctCtttcaacttttaaaaaagaa	4	7	2	1	rs141465683		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:57072380C>A	uc001xcm.2	+	5	737	c.615C>A	c.(613-615)CTC>CTA	p.L205L	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xck.2_Silent_p.L205L|C14orf101_uc010aot.1_Silent_p.L205L|C14orf101_uc001xcl.1_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_5'UTR	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	205	Helical; (Potential).					integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		CTTGGATTCTCTTTCAACTTT	0.289													9	223	---	---	---	---	PASS	A	57072380	A	A	57072380	2	1	178	1	0	0	0	0	0	0	0	1	1734	900	32	2		2	C14orf101	14	57072380	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1614356	57072380	50277160	706	63659										
EXOC5	10640	broad.mit.edu	37	chr14	57686090	57686090	+	Silent	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtttgtcaaaaagatgaaaAatagtattggcctgttgcac	9	5	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:57686090A>T	uc001xct.2	-	14	1727	c.1476T>A	c.(1474-1476)ATT>ATA	p.I492I	EXOC5_uc001xcs.2_Silent_p.I171I|EXOC5_uc010trg.1_Silent_p.I437I|EXOC5_uc010trh.1_Silent_p.I427I	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	492					exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						AAAGATGAAAAATAGTATTGG	0.313													11	18	---	---	---	---	PASS	T	57686090	T	T	57686090	2	4	178	1	0	0	0	0	0	0	0	1	5307	10	1	5		5	EXOC5	14	57686090	Silent	SNP	A	TCGA-85-6561-01A-11D-1817-08	613710	57686090	49663450	707	63660										
EXOC5	10640	broad.mit.edu	37	chr14	57698409	57698409	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtacctaaattaaactccatCagcttgctggaaagattggt	8	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:57698409C>A	uc001xct.2	-	11	1214	c.963G>T	c.(961-963)CTG>CTT	p.L321L	EXOC5_uc001xcs.2_5'UTR|EXOC5_uc010trg.1_Silent_p.L266L|EXOC5_uc010trh.1_Silent_p.L256L	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	321					exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						TAAACTCCATCAGCTTGCTGG	0.313													7	133	---	---	---	---	PASS	A	57698409	A	A	57698409	2	1	178	1	0	0	0	0	0	0	0	1	5307	813	29	2		2	EXOC5	14	57698409	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	12319	57698409	49651131	708	63661										
KCNH5	27133	broad.mit.edu	37	chr14	63175127	63175127	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctcattcttctgccggaggCgctcctcctcctctttcttc	6	18	5	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:63175127C>A	uc001xfx.2	-	11	2117	c.2066G>T	c.(2065-2067)CGC>CTC	p.R689L	KCNH5_uc001xfy.2_3'UTR	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	689	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		CTGCCGGAGGCGCTCCTCCTC	0.498													5	122	---	---	---	---	PASS	A	63175127	A	A	63175127	3	1	178	1	0	0	0	0	1	0	0	0	8035	768	27	1	904	1	KCNH5	14	63175127	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5476718	63175127	44174413	709	63662										
KCNH5	27133	broad.mit.edu	37	chr14	63483580	63483580	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcttttctgcatgacgtcagCtcgatgatatccagagagtt	10	9	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:63483580C>A	uc001xfx.2	-	2	217	c.166G>T	c.(166-168)GCT>TCT	p.A56S	KCNH5_uc001xfy.2_Missense_Mutation_p.A56S|KCNH5_uc001xfz.1_5'UTR|KCNH5_uc001xga.2_5'UTR	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	56	Cytoplasmic (Potential).|PAS.				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		ATGACGTCAGCTCGATGATAT	0.363													9	97	---	---	---	---	PASS	A	63483580	A	A	63483580	3	1	178	1	0	0	0	0	1	0	0	0	8035	797	28	3	2874	3	KCNH5	14	63483580	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	308453	63483580	43865960	710	63663										
SGPP1	81537	broad.mit.edu	37	chr14	64165361	64165361	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcagggaataagaatcagtcCatatataagagggtactaaa	10	5	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:64165361C>A	uc001xgj.2	-	2	794	c.700G>T	c.(700-702)GGA>TGA	p.G234*		NM_030791	NP_110418	Q9BX95	SGPP1_HUMAN	sphingosine-1-phosphate phosphatase 1	234	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	dihydrosphingosine-1-phosphate phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0056)|all cancers(60;0.0141)|BRCA - Breast invasive adenocarcinoma(234;0.103)		AGAATCAGTCCATATATAAGA	0.284													7	107	---	---	---	---	PASS	A	64165361	A	A	64165361	4	1	178	1	0	0	0	0	0	1	0	0	14219	603	21	3	633	3	SGPP1	14	64165361	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	681781	64165361	43184179	711	63664										
SYNE2	23224	broad.mit.edu	37	chr14	64688335	64688335	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aatctgctgctgtggttagcGagtgccaagaaccggaggca	14	9	1	1	rs75079588	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:64688335G>T	uc001xgm.2	+	111	20264	c.20034G>T	c.(20032-20034)GCG>GCT	p.A6678A	SYNE2_uc001xgl.2_Silent_p.A6701A|SYNE2_uc010apy.2_Silent_p.A3063A|SYNE2_uc001xgn.2_Silent_p.A1640A|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Silent_p.A648A|SYNE2_uc001xgq.2_Silent_p.A1057A|SYNE2_uc001xgr.2_Silent_p.A461A|SYNE2_uc010tsi.1_Silent_p.A335A|SYNE2_uc001xgs.2_Silent_p.A349A|SYNE2_uc001xgt.2_Silent_p.A223A	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6678	Cytoplasmic (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)		TGTGGTTAGCGAGTGCCAAGA	0.547													7	121	---	---	---	---	PASS	T	64688335	T	T	64688335	2	4	178	1	0	0	0	0	0	0	0	1	15443	1045	37	2		2	SYNE2	14	64688335	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	522974	64688335	42661205	712	63665										
SPTB	6710	broad.mit.edu	37	chr14	65246547	65246547	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaggtccaggaaccgcttctCgatgctcaagtctgcatctc	10	13	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:65246547C>A	uc001xht.2	-	20	4423	c.4369G>T	c.(4369-4371)GAG>TAG	p.E1457*	SPTB_uc001xhr.2_Nonsense_Mutation_p.E1457*|SPTB_uc001xhs.2_Nonsense_Mutation_p.E1457*|SPTB_uc001xhu.2_Nonsense_Mutation_p.E1457*|SPTB_uc010aqi.2_Nonsense_Mutation_p.E118*	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1457	Spectrin 12.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		AACCGCTTCTCGATGCTCAAG	0.562													5	110	---	---	---	---	PASS	A	65246547	A	A	65246547	4	1	178	1	0	0	0	0	0	1	0	0	15117	893	31	2	2750	2	SPTB	14	65246547	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	558212	65246547	42102993	713	63666										
MPP5	64398	broad.mit.edu	37	chr14	67787968	67787968	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaatatgtcttttaagtcttCgtacacaggtaaagctagaa	7	6	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:67787968C>A	uc001xjc.2	+	13	2198	c.1732C>A	c.(1732-1734)CGT>AGT	p.R578S	MPP5_uc001xjd.2_Missense_Mutation_p.R544S|ATP6V1D_uc001xje.2_Intron	NM_022474	NP_071919	Q8N3R9	MPP5_HUMAN	membrane protein, palmitoylated 5	578	Guanylate kinase-like.				tight junction assembly	cytoplasm|endomembrane system|tight junction	protein domain specific binding			ovary(1)	1				all cancers(60;0.000388)|OV - Ovarian serous cystadenocarcinoma(108;0.00762)|BRCA - Breast invasive adenocarcinoma(234;0.0106)		TTTAAGTCTTCGTACACAGGT	0.368													8	148	---	---	---	---	PASS	A	67787968	A	A	67787968	3	1	178	1	0	0	0	0	1	0	0	0	9737	884	31	2	1774	2	MPP5	14	67787968	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2541421	67787968	39561572	714	63667										
ATP6V1D	51382	broad.mit.edu	37	chr14	67805349	67805349	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caggaaagattattcaaataGaagatcctcgtccttctctt	6	9	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:67805349G>T	uc001xjf.2	-	9	909	c.733C>A	c.(733-735)CTA>ATA	p.L245I	ATP6V1D_uc001xje.2_RNA	NM_015994	NP_057078	Q9Y5K8	VATD_HUMAN	H(+)-transporting two-sector ATPase	245					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting two-sector ATPase complex, catalytic domain|vacuolar proton-transporting V-type ATPase complex	protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)|lung(1)	2				all cancers(60;0.000739)|OV - Ovarian serous cystadenocarcinoma(108;0.00597)|BRCA - Breast invasive adenocarcinoma(234;0.00957)		TATTCAAATAGAAGATCCTCG	0.408													9	205	---	---	---	---	PASS	T	67805349	T	T	67805349	3	4	178	1	0	0	0	0	1	0	0	0	1182	933	33	2	14	2	ATP6V1D	14	67805349	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	17381	67805349	39544191	715	63668										
DCAF5	8816	broad.mit.edu	37	chr14	69585939	69585939	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atcatggaggataacttgctCatcattgcctgcaaaagaaa	8	8	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:69585939C>A	uc001xkp.2	-	3	586	c.367G>T	c.(367-369)GAG>TAG	p.E123*	DCAF5_uc001xkq.2_Nonsense_Mutation_p.E123*|DCAF5_uc001xkr.3_Nonsense_Mutation_p.E123*|DCAF5_uc001xks.2_Nonsense_Mutation_p.E123*	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	123	WD 2.					CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						ATAACTTGCTCATCATTGCCT	0.358													7	88	---	---	---	---	PASS	A	69585939	A	A	69585939	4	1	178	1	0	0	0	0	0	1	0	0	4273	835	29	2	2489	2	DCAF5	14	69585939	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1780590	69585939	37763601	716	63669										
MED6	10001	broad.mit.edu	37	chr14	71063403	71063403	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agcatgcaaaaggatgtactCgattccaaccatctgactga	8	10	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:71063403C>A	uc001xmf.2	-	3	229	c.199G>T	c.(199-201)GAG>TAG	p.E67*	MED6_uc010tth.1_Nonsense_Mutation_p.E67*|MED6_uc010tti.1_Nonsense_Mutation_p.E67*|MED6_uc001xmg.1_Nonsense_Mutation_p.E67*|MED6_uc010ttj.1_Nonsense_Mutation_p.E67*	NM_005466	NP_005457	O75586	MED6_HUMAN	mediator of RNA polymerase II transcription,	67					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex	transcription coactivator activity				0				all cancers(60;0.00315)|BRCA - Breast invasive adenocarcinoma(234;0.00685)|OV - Ovarian serous cystadenocarcinoma(108;0.0352)		AGGATGTACTCGATTCCAACC	0.373													5	103	---	---	---	---	PASS	A	71063403	A	A	71063403	4	1	178	1	0	0	0	0	0	1	0	0	9451	893	31	2	565	2	MED6	14	71063403	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1477464	71063403	36286137	717	63670										
DCAF4	26094	broad.mit.edu	37	chr14	73412709	73412709	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cgctcaaggtgttcatgcacGaaaacctctacttcaccaac	6	14	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:73412709G>T	uc001xng.2	+	7	872	c.652G>T	c.(652-654)GAA>TAA	p.E218*	DCAF4_uc001xnj.2_Nonsense_Mutation_p.E218*|DCAF4_uc010ttr.1_Nonsense_Mutation_p.E196*|DCAF4_uc001xnh.2_Nonsense_Mutation_p.E118*|DCAF4_uc010tts.1_Nonsense_Mutation_p.E157*|DCAF4_uc010ttt.1_Nonsense_Mutation_p.E3*|DCAF4_uc001xni.2_Nonsense_Mutation_p.E157*|DCAF4_uc001xnk.2_Nonsense_Mutation_p.E218*	NM_015604	NP_056419	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4 isoform 1	218						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)|skin(1)	3						GTTCATGCACGAAAACCTCTA	0.517													5	91	---	---	---	---	PASS	T	73412709	T	T	73412709	4	4	178	1	0	0	0	0	0	1	0	0	4270	1059	37	2	674	2	DCAF4	14	73412709	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2349306	73412709	33936831	718	63671										
ZNF410	57862	broad.mit.edu	37	chr14	74364926	74364926	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acagtttgattgctgctactCgtgcacaactggcaaagaat	9	9	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:74364926C>A	uc001xoz.1	+	5	723	c.541C>A	c.(541-543)CGT>AGT	p.R181S	ZNF410_uc001xoy.1_RNA|ZNF410_uc010ary.1_RNA|ZNF410_uc010tuf.1_RNA|ZNF410_uc010tug.1_5'UTR|ZNF410_uc010tuh.1_Missense_Mutation_p.R108S|ZNF410_uc010tui.1_RNA|ZNF410_uc010arz.1_Missense_Mutation_p.R198S|ZNF410_uc001xpa.1_5'UTR|ZNF410_uc001xpb.1_Missense_Mutation_p.R181S|ZNF410_uc001xpc.1_Missense_Mutation_p.R128S|ZNF410_uc010tuj.1_5'UTR	NM_021188	NP_067011	Q86VK4	ZN410_HUMAN	zinc finger protein 410	181					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00369)		TGCTGCTACTCGTGCACAACT	0.488													5	41	---	---	---	---	PASS	A	74364926	A	A	74364926	3	1	178	1	0	0	0	0	1	0	0	0	17887	884	31	2	555	2	ZNF410	14	74364926	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	952217	74364926	32984614	719	63672										
TMED10	10972	broad.mit.edu	37	chr14	75614415	75614415	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgcttcatgtctaggatcacGagttggtcaggtatccgccc	11	11	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:75614415G>T	uc001xrm.1	-	3	430	c.363C>A	c.(361-363)CTC>CTA	p.L121L	TMED10_uc010ash.1_RNA|TMED10_uc010asg.1_RNA|TMED10_uc010tuz.1_5'UTR	NM_006827	NP_006818	P49755	TMEDA_HUMAN	transmembrane emp24 domain-containing protein 10	121	Lumenal (Potential).|GOLD.				protein transport|regulated secretory pathway|vesicle targeting, to, from or within Golgi	cis-Golgi network|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|melanosome|microsome|zymogen granule membrane	protein binding				0				BRCA - Breast invasive adenocarcinoma(234;0.0126)		CTAGGATCACGAGTTGGTCAG	0.493													9	202	---	---	---	---	PASS	T	75614415	T	T	75614415	2	4	178	1	0	0	0	0	0	0	0	1	16000	1045	37	2		2	TMED10	14	75614415	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1249489	75614415	31735125	720	63673										
TTLL5	23093	broad.mit.edu	37	chr14	76219245	76219245	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgcttttcaggtcctacctCgagcataagacctcaatgaa	7	11	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:76219245C>A	uc001xrx.2	+	18	1702	c.1497C>A	c.(1495-1497)CTC>CTA	p.L499L	TTLL5_uc010ask.1_Silent_p.L513L|TTLL5_uc001xrz.2_Silent_p.L61L|TTLL5_uc001xry.1_RNA	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	499					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		GGTCCTACCTCGAGCATAAGA	0.368													10	203	---	---	---	---	PASS	A	76219245	A	A	76219245	2	1	178	1	0	0	0	0	0	0	0	1	16727	871	31	2		2	TTLL5	14	76219245	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	604830	76219245	31130295	721	63674										
KIAA1737	85457	broad.mit.edu	37	chr14	77572095	77572095	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agagagccccagaagactctCtgccaaagtaggcaaaggca	11	11	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:77572095C>A	uc001xtd.2	+	2	223	c.44C>A	c.(43-45)TCT>TAT	p.S15Y	KIAA1737_uc001xtc.1_Translation_Start_Site	NM_033426	NP_219494	Q9C0C6	K1737_HUMAN	KIAA1737 protein	15											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		AGAAGACTCTCTGCCAAAGTA	0.488													8	116	---	---	---	---	PASS	A	77572095	A	A	77572095	3	1	178	1	0	0	0	0	1	0	0	0	8255	913	32	2	46	2	KIAA1737	14	77572095	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1352850	77572095	29777445	722	63675										
VIPAR	63894	broad.mit.edu	37	chr14	77909006	77909006	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagctctcggaagaggatctCtgtcagacagtcaggagtta	12	9	4	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:77909006C>A	uc001xtt.1	-	11	970	c.632_splice	c.e11-1	p.E211_splice	VIPAR_uc001xtu.1_Splice_Site_p.E211_splice|VIPAR_uc010tvj.1_Splice_Site_p.E162_splice|VIPAR_uc001xtv.1_Splice_Site_p.E211_splice	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894						endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1						AAGAGGATCTCTGTCAGACAG	0.413													7	100	---	---	---	---	PASS	A	77909006	A	A	77909006	5	1	178	1	0	0	0	0	0	0	1	0	17165	927	32	2	894	2	VIPAR	14	77909006	Splice_Site	SNP	C	TCGA-85-6561-01A-11D-1817-08	336911	77909006	29440534	723	63676										
TSHR	7253	broad.mit.edu	37	chr14	81528491	81528491	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atgtaactgttattttcacaGgaagcttattgagactcacc	7	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:81528491G>T	uc001xvd.1	+	2	327	c.171_splice	c.e2-1	p.L57_splice	TSHR_uc001xvb.1_Splice_Site_p.L57_splice|TSHR_uc001xvc.2_Splice_Site_p.L57_splice|TSHR_uc010tvs.1_Splice_Site_p.L57_splice	NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1						cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	TATTTTCACAGGAAGCTTATT	0.274			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						8	177	---	---	---	---	PASS	T	81528491	T	T	81528491	5	4	178	1	0	0	0	0	0	0	1	0	16619	1014	35	3	176	3	TSHR	14	81528491	Splice_Site	SNP	G	TCGA-85-6561-01A-11D-1817-08	3619485	81528491	25821049	724	63677										
SPATA7	55812	broad.mit.edu	37	chr14	88897553	88897553	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccctgaagcccccttcaactCgtaaaatctactctgagtaa	5	14	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:88897553C>A	uc001xwq.2	+	9	1217	c.1066C>A	c.(1066-1068)CGT>AGT	p.R356S	SPATA7_uc001xwr.2_Missense_Mutation_p.R324S|SPATA7_uc001xws.2_Missense_Mutation_p.R292S|SPATA7_uc001xwt.2_Missense_Mutation_p.R250S|SPATA7_uc001xwu.2_Missense_Mutation_p.R12S	NM_018418	NP_060888	Q9P0W8	SPAT7_HUMAN	spermatogenesis-associated protein 7 isoform a	356					response to stimulus|visual perception					ovary(1)	1						CCCTTCAACTCGTAAAATCTA	0.279													8	226	---	---	---	---	PASS	A	88897553	A	A	88897553	3	1	178	1	0	0	0	0	1	0	0	0	15013	884	31	2	1100	2	SPATA7	14	88897553	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	7369062	88897553	18451987	725	63678										
ZC3H14	79882	broad.mit.edu	37	chr14	89037427	89037427	+	Splice_Site	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gttttttgtttttttcctcaGgcttcatggtgtattagata	8	5	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:89037427G>C	uc001xww.2	+	4	420	c.195_splice	c.e4-1	p.W65_splice	ZC3H14_uc010twd.1_Splice_Site_p.W65_splice|ZC3H14_uc010twe.1_Splice_Site_p.W65_splice|ZC3H14_uc001xwx.2_Splice_Site_p.W65_splice|ZC3H14_uc010twf.1_Splice_Site|ZC3H14_uc001xwy.2_Splice_Site_p.W31_splice|ZC3H14_uc010twg.1_5'Flank	NM_024824	NP_079100	Q6PJT7	ZC3HE_HUMAN	zinc finger CCCH-type containing 14 isoform 1							cytoplasm|cytoplasm|nuclear speck	protein binding|RNA binding|zinc ion binding			ovary(2)|skin(1)	3						TTTTTCCTCAGGCTTCATGGT	0.274													15	139	---	---	---	---	PASS	C	89037427	C	C	89037427	5	2	178	1	0	0	0	0	0	0	1	0	17563	1014	35	4	208	4	ZC3H14	14	89037427	Splice_Site	SNP	G	TCGA-85-6561-01A-11D-1817-08	139874	89037427	18312113	726	63679										
ATXN3	4287	broad.mit.edu	37	chr14	92530748	92530748	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgaagcatgtcttcttcactCatagcatcacctgttgggaa	8	10	5	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:92530748C>A	uc001yac.3	-	11	1071	c.1002G>T	c.(1000-1002)ATG>ATT	p.M334I	ATXN3_uc010aug.2_Missense_Mutation_p.M319I|ATXN3_uc001yad.3_Missense_Mutation_p.M279I|ATXN3_uc010auh.2_Missense_Mutation_p.M268I|ATXN3_uc001yae.3_Missense_Mutation_p.M236I	NM_004993	NP_004984	P54252	ATX3_HUMAN	ataxin 3 reference isoform	334	UIM 3.				cell death|nervous system development|nucleotide-excision repair|regulation of transcription, DNA-dependent|synaptic transmission|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleoplasm	cysteine-type peptidase activity|protein binding				0		all_cancers(154;0.0768)		COAD - Colon adenocarcinoma(157;0.224)		CTTCTTCACTCATAGCATCAC	0.318													10	253	---	---	---	---	PASS	A	92530748	A	A	92530748	3	1	178	1	0	0	0	0	1	0	0	0	1213	826	29	2	87	2	ATXN3	14	92530748	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3493321	92530748	14818792	727	63680										
ITPK1	3705	broad.mit.edu	37	chr14	93412760	93412760	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gccgaagagtgacacgcccaGtgcctgccgcagggcccggg	16	15	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:93412760G>T	uc001ybg.2	-	10	1106	c.817C>A	c.(817-819)CTG>ATG	p.L273M	ITPK1_uc001ybe.2_Missense_Mutation_p.L273M|ITPK1_uc001ybf.2_Missense_Mutation_p.L154M|ITPK1_uc001ybh.2_Missense_Mutation_p.L273M	NM_014216	NP_055031	Q13572	ITPK1_HUMAN	inositol 1,3,4-triphosphate 5/6 kinase isoform	273	ATP-grasp.				blood coagulation|inositol trisphosphate metabolic process|signal transduction	cytosol	ATP binding|hydrolase activity|inositol tetrakisphosphate 1-kinase activity|inositol-1,3,4-trisphosphate 5/6-kinase activity|isomerase activity|ligase activity|magnesium ion binding				0		all_cancers(154;0.077)|all_epithelial(191;0.247)		Epithelial(152;0.124)|all cancers(159;0.169)		GACACGCCCAGTGCCTGCCGC	0.617													5	54	---	---	---	---	PASS	T	93412760	T	T	93412760	3	4	178	1	0	0	0	0	1	0	0	0	7916	1020	36	3	483	3	ITPK1	14	93412760	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	882012	93412760	13936780	728	63681										
SERPINA4	5267	broad.mit.edu	37	chr14	95029960	95029960	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gagacaggtgagggctccccCagcctcaagatagcccctgc	12	15	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:95029960C>A	uc001ydk.2	+	2	207	c.141C>A	c.(139-141)CCC>CCA	p.P47P	SERPINA4_uc010avd.2_Silent_p.P84P|SERPINA4_uc001ydl.2_Silent_p.P47P	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	47					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		AGGGCTCCCCCAGCCTCAAGA	0.562													30	42	---	---	---	---	PASS	A	95029960	A	A	95029960	2	1	178	1	0	0	0	0	0	0	0	1	14091	581	21	3		3	SERPINA4	14	95029960	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1617200	95029960	12319580	729	63682										
DICER1	23405	broad.mit.edu	37	chr14	95570029	95570029	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atttattactcaggagagtaCattcatcgctgggctggggc	12	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:95570029C>A	uc001ydw.2	-	22	3886	c.3704G>T	c.(3703-3705)TGT>TTT	p.C1235F	DICER1_uc010avh.1_Missense_Mutation_p.C133F|DICER1_uc001ydv.2_Missense_Mutation_p.C1225F|DICER1_uc001ydx.2_Missense_Mutation_p.C1235F|DICER1_uc001ydy.1_Missense_Mutation_p.C87F	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1235					negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		CAGGAGAGTACATTCATCGCT	0.428			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				6	99	---	---	---	---	PASS	A	95570029	A	A	95570029	3	1	178	1	0	0	0	0	1	0	0	0	4521	478	17	3	2092	3	DICER1	14	95570029	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	540069	95570029	11779511	730	63683										
DICER1	23405	broad.mit.edu	37	chr14	95582907	95582907	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttcctttagattgaacataGgatcgatattctgtgggcaa	9	7	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:95582907G>T	uc001ydw.2	-	11	1817	c.1635C>A	c.(1633-1635)TCC>TCA	p.S545S	DICER1_uc001ydv.2_Silent_p.S535S|DICER1_uc001ydx.2_Silent_p.S545S	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	545	Helicase C-terminal.|Required for interaction with PRKRA and TARBP2.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		ATTGAACATAGGATCGATATT	0.368			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				8	160	---	---	---	---	PASS	T	95582907	T	T	95582907	2	4	178	1	0	0	0	0	0	0	0	1	4521	987	35	3		3	DICER1	14	95582907	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	12878	95582907	11766633	731	63684										
BDKRB1	623	broad.mit.edu	37	chr14	96730991	96730991	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcttcaggaccaaggtctgGgaactttataaacaatgcac	8	10	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:96730991G>T	uc001yfh.2	+	3	1180	c.972G>T	c.(970-972)TGG>TGT	p.W324C	BDKRB1_uc010avn.2_Intron	NM_000710	NP_000701	P46663	BKRB1_HUMAN	bradykinin receptor B1	324	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration	endoplasmic reticulum|integral to plasma membrane	bradykinin receptor activity			ovary(3)	3		all_cancers(154;0.0677)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.208)|Epithelial(152;0.226)		CCAAGGTCTGGGAACTTTATA	0.443													8	254	---	---	---	---	PASS	T	96730991	T	T	96730991	3	4	178	1	0	0	0	0	1	0	0	0	1392	1241	43	3	974	3	BDKRB1	14	96730991	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1148084	96730991	10618549	732	63685										
DYNC1H1	1778	broad.mit.edu	37	chr14	102442115	102442115	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taacatcaacatagacattcAttatggggttaaatccaata	5	7	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:102442115A>C	uc001yks.2	+	2	487	c.323A>C	c.(322-324)CAT>CCT	p.H108P		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	108	Stem (By similarity).				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						ATAGACATTCATTATGGGGTT	0.279													22	135	---	---	---	---	PASS	C	102442115	C	C	102442115	3	2	178	1	0	0	0	0	1	0	0	0	4841	217	8	5	329	5	DYNC1H1	14	102442115	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	5711124	102442115	4907425	733	63686										
RCOR1	23186	broad.mit.edu	37	chr14	103177273	103177273	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acttgttcttgtcttccagcGaggatgaactggaagaggca	12	8	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:103177273G>T	uc001ymb.2	+	7	772	c.772G>T	c.(772-774)GAG>TAG	p.E258*		NM_015156	NP_055971	Q9UKL0	RCOR1_HUMAN	REST corepressor 1	258	Potential.				blood coagulation|histone H4 deacetylation|interspecies interaction between organisms	transcriptional repressor complex	protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription regulatory region DNA binding			ovary(1)	1						GTCTTCCAGCGAGGATGAACT	0.333													6	146	---	---	---	---	PASS	T	103177273	T	T	103177273	4	4	178	1	0	0	0	0	0	1	0	0	13182	1072	37	2	798	2	RCOR1	14	103177273	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	735158	103177273	4172267	734	63687										
RCOR1	23186	broad.mit.edu	37	chr14	103188542	103188542	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agccatcaggaaatatggccGagattttcaggcaatctcag	10	9	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:103188542G>T	uc001ymb.2	+	11	1199	c.1199G>T	c.(1198-1200)CGA>CTA	p.R400L		NM_015156	NP_055971	Q9UKL0	RCOR1_HUMAN	REST corepressor 1	400	SANT 2.				blood coagulation|histone H4 deacetylation|interspecies interaction between organisms	transcriptional repressor complex	protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription regulatory region DNA binding			ovary(1)	1						AAATATGGCCGAGATTTTCAG	0.348													7	116	---	---	---	---	PASS	T	103188542	T	T	103188542	3	4	178	1	0	0	0	0	1	0	0	0	13182	1058	37	2	1241	2	RCOR1	14	103188542	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	11269	103188542	4160998	735	63688										
C14orf73	91828	broad.mit.edu	37	chr14	103574790	103574790	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcgtggctgagatcctgggcGagacctacaaagatgacatc	13	10	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:103574790G>T	uc001ymk.2	+	10	1988	c.1912G>T	c.(1912-1914)GAG>TAG	p.E638*		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	hypothetical protein LOC91828	638											0		Melanoma(154;0.155)	Epithelial(46;0.221)			GATCCTGGGCGAGACCTACAA	0.607													5	95	---	---	---	---	PASS	T	103574790	T	T	103574790	4	4	178	1	0	0	0	0	0	1	0	0	1779	1059	37	2	1950	2	C14orf73	14	103574790	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	386248	103574790	3774750	736	63689										
AHNAK2	113146	broad.mit.edu	37	chr14	105418747	105418747	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccaaggccttgatggacttcCctggggccgataccccgaac	11	15	0	1	rs75352715		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr14:105418747C>A	uc010axc.1	-	7	3161	c.3041G>T	c.(3040-3042)GGG>GTG	p.G1014V	AHNAK2_uc001ypx.2_Missense_Mutation_p.G914V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1014						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)			GATGGACTTCCCTGGGGCCGA	0.602													11	178	---	---	---	---	PASS	A	105418747	A	A	105418747	3	1	178	1	0	0	0	0	1	0	0	0	415	623	22	3	14350	3	AHNAK2	14	105418747	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1843957	105418747	1930793	737	63690										
TUBGCP5	114791	broad.mit.edu	37	chr15	22833557	22833557	+	Frame_Shift_Del	DEL	G	-	-													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gggccaccgtggagtcggttGgacgcgcagcaggagcgcga							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:22833557delG	uc001yur.3	+	1	163	c.33delG	c.(31-33)TTGfs	p.L11fs	TUBGCP5_uc001yuq.2_Frame_Shift_Del_p.L11fs	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	11					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		GGAGTCGGTTGGACGCGCAGC	0.701													4	2	---	---	---	---		-	22833557	-	-	22833557	7	5	178	1	0	1	0	1	0	0	0	0	16766	1339	47	0	35	0	TUBGCP5	15	22833557	Frame_Shift_Del	DEL	G	TCGA-85-6561-01A-11D-1817-08		22833557	79697835	738	63691										
UBE3A	7337	broad.mit.edu	37	chr15	25599709	25599709	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taagcaattcaatttcttctGgtctgaataagtactttaag	6	6	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:25599709G>T	uc001zaq.2	-	8	2255	c.2255C>A	c.(2254-2256)CCA>CAA	p.P752Q	uc001zae.2_Intron|UBE3A_uc001zar.2_Missense_Mutation_p.P729Q|UBE3A_uc001zas.2_Missense_Mutation_p.P749Q|UBE3A_uc001zat.2_Missense_Mutation_p.P729Q	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	752					brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		AATTTCTTCTGGTCTGAATAA	0.353													8	142	---	---	---	---	PASS	T	25599709	T	T	25599709	3	4	178	1	0	0	0	0	1	0	0	0	16876	1348	47	3	388	3	UBE3A	15	25599709	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2766152	25599709	76931683	739	63692										
ATP10A	57194	broad.mit.edu	37	chr15	25925402	25925402	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacgcattgtaaatcaaagcCacggtgaaaaacaaaaggac	9	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:25925402C>A	uc010ayu.2	-	20	3838	c.3732G>T	c.(3730-3732)GTG>GTT	p.V1244V		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1244	Helical; (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		AAATCAAAGCCACGGTGAAAA	0.468													8	49	---	---	---	---	PASS	A	25925402	A	A	25925402	2	1	178	1	0	0	0	0	0	0	0	1	1116	581	21	3		3	ATP10A	15	25925402	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	325693	25925402	76605990	740	63693										
GABRG3	2567	broad.mit.edu	37	chr15	27572070	27572070	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggtggggttaatctggatcCcagacaccatcttccgcaat	10	11	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:27572070C>A	uc001zbg.1	+	4	551	c.385C>A	c.(385-387)CCA>ACA	p.P129T	GABRG3_uc001zbf.2_Missense_Mutation_p.P129T	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	129	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		AATCTGGATCCCAGACACCAT	0.463													7	85	---	---	---	---	PASS	A	27572070	A	A	27572070	3	1	178	1	0	0	0	0	1	0	0	0	6173	623	22	3	399	3	GABRG3	15	27572070	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1646668	27572070	74959322	741	63694										
HERC2	8924	broad.mit.edu	37	chr15	28386674	28386674	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcacagggagtgggaactttGacttttgcgccttcaatgcc	11	10	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:28386674G>C	uc001zbj.2	-	78	12025	c.11919C>G	c.(11917-11919)GTC>GTG	p.V3973V		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3973	RCC1 13.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TGGGAACTTTGACTTTTGCGC	0.542													5	58	---	---	---	---	PASS	C	28386674	C	C	28386674	2	2	178	1	0	0	0	0	0	0	0	1	7058	1277	45	2		2	HERC2	15	28386674	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	814604	28386674	74144718	742	63695										
TRPM1	4308	broad.mit.edu	37	chr15	31354782	31354782	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aataaattcaagacacttacGagttctttcttcttcatgca	4	9	5	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:31354782G>T	uc001zfm.2	-	8	1151	c.1023C>A	c.(1021-1023)CTC>CTA	p.L341L	TRPM1_uc010azy.2_Silent_p.L248L|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	341	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		AGACACTTACGAGTTCTTTCT	0.348													5	89	---	---	---	---	PASS	T	31354782	T	T	31354782	2	4	178	1	0	0	0	0	0	0	0	1	16582	1072	37	2		2	TRPM1	15	31354782	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2968108	31354782	71176610	743	63696										
RYR3	6263	broad.mit.edu	37	chr15	34147053	34147053	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctgctcacctattggacatCgcaatgggcttcaagacact	9	12	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:34147053C>T	uc001zhi.2	+	98	14017	c.13947C>T	c.(13945-13947)ATC>ATT	p.I4649I	RYR3_uc010bar.2_Silent_p.I4644I	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4649					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TATTGGACATCGCAATGGGCT	0.453													19	88	---	---	---	---	PASS	T	34147053	T	T	34147053	2	4	178	1	0	0	0	0	0	0	0	1	13770	874	31	2		2	RYR3	15	34147053	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	2792271	34147053	68384339	744	63697										
EIF2AK4	440275	broad.mit.edu	37	chr15	40246108	40246108	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggtttgatttatttcagcaaCgtgaaatcctgcatgagatt	9	6	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:40246108C>A	uc001zkm.1	+	5	567	c.517C>A	c.(517-519)CGT>AGT	p.R173S	EIF2AK4_uc001zkl.2_Missense_Mutation_p.R173S|EIF2AK4_uc010bbj.1_5'Flank	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	173					translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		ATTTCAGCAACGTGAAATCCT	0.264													6	101	---	---	---	---	PASS	A	40246108	A	A	40246108	3	1	178	1	0	0	0	0	1	0	0	0	4999	536	19	1	535	1	EIF2AK4	15	40246108	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	6099055	40246108	62285284	745	63698										
EIF2AK4	440275	broad.mit.edu	37	chr15	40247944	40247944	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgtaggaaatggtaaacatCgggcaaactcctcaggaagg	12	7	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:40247944C>A	uc001zkm.1	+	6	768	c.718C>A	c.(718-720)CGG>AGG	p.R240R	EIF2AK4_uc001zkl.2_Silent_p.R240R|EIF2AK4_uc010bbj.1_5'UTR	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	240					translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		TGGTAAACATCGGGCAAACTC	0.453													5	92	---	---	---	---	PASS	A	40247944	A	A	40247944	2	1	178	1	0	0	0	0	0	0	0	1	4999	875	31	2		2	EIF2AK4	15	40247944	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1836	40247944	62283448	746	63699										
NUSAP1	51203	broad.mit.edu	37	chr15	41668024	41668024	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctcaactatgaaccacacaAaggtatgtgggagtgttttg	10	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:41668024A>C	uc001zns.3	+	9	1351	c.1121A>C	c.(1120-1122)AAA>ACA	p.K374T	NUSAP1_uc001znq.3_Intron|NUSAP1_uc001znr.3_Missense_Mutation_p.K373T|NUSAP1_uc010bce.2_Intron|NUSAP1_uc001znt.3_Missense_Mutation_p.K359T|NUSAP1_uc001znv.3_Missense_Mutation_p.K372T|NUSAP1_uc001znu.3_Missense_Mutation_p.K373T|NUSAP1_uc010ucw.1_Intron|NUSAP1_uc001znw.3_Missense_Mutation_p.K178T	NM_016359	NP_057443	Q9BXS6	NUSAP_HUMAN	nucleolar and spindle associated protein 1	374	Interaction with microtubules (By similarity).				cytokinesis after mitosis|establishment of mitotic spindle localization|mitotic chromosome condensation|positive regulation of mitosis	chromosome|cytoplasm|nucleolus	DNA binding				0		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;9.63e-17)|GBM - Glioblastoma multiforme(113;1.59e-06)|BRCA - Breast invasive adenocarcinoma(123;0.168)		GAACCACACAAAGGTATGTGG	0.393													8	47	---	---	---	---	PASS	C	41668024	C	C	41668024	3	2	178	1	0	0	0	0	1	0	0	0	10778	14	1	5	1155	5	NUSAP1	15	41668024	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	1420080	41668024	60863368	747	63700										
RPAP1	26015	broad.mit.edu	37	chr15	41819710	41819710	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttttcctgctgggcattcttCatcctcgtcctcatcctcct	5	16	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:41819710C>T	uc001zod.2	-	12	1646	c.1522G>A	c.(1522-1524)GAA>AAA	p.E508K		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	508						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GGGCATTCTTCATCCTCGTCC	0.547													12	37	---	---	---	---	PASS	T	41819710	T	T	41819710	3	4	178	1	0	0	0	0	1	0	0	0	13541	835	29	2	2715	2	RPAP1	15	41819710	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	151686	41819710	60711682	748	63701										
MGA	23269	broad.mit.edu	37	chr15	42003149	42003149	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attctgtaccccctgtctctCgaaaggcaaagtctcaaaac	6	13	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:42003149C>A	uc001zog.1	+	8	2777	c.2686C>A	c.(2686-2688)CGA>AGA	p.R896R	MGA_uc010ucy.1_Silent_p.R896R|MGA_uc010ucz.1_Silent_p.R896R	NM_001080541	NP_001074010	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 2	896						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		CCCTGTCTCTCGAAAGGCAAA	0.388													7	183	---	---	---	---	PASS	A	42003149	A	A	42003149	2	1	178	1	0	0	0	0	0	0	0	1	9540	876	31	2		2	MGA	15	42003149	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	183439	42003149	60528243	749	63702										
PLA2G4E	123745	broad.mit.edu	37	chr15	42302381	42302381	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcaggtctgtctccggtacgCtgggagcctgcaggcagggt	16	11	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:42302381C>A	uc001zow.1	-	1	65	c.65G>T	c.(64-66)AGC>ATC	p.S22I		NM_001080490	NP_001073959	Q3MJ16	PA24E_HUMAN	phospholipase A2, group 4E	Error:Variant_position_missing_in_Q3MJ16_after_alignment					phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity				0		all_cancers(109;8.09e-13)|all_epithelial(112;2.03e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.0273)		OV - Ovarian serous cystadenocarcinoma(18;7.61e-18)|GBM - Glioblastoma multiforme(94;3.07e-06)		CTCCGGTACGCTGGGAGCCTG	0.592													5	28	---	---	---	---	PASS	A	42302381	A	A	42302381	3	1	178	1	0	0	0	0	1	0	0	0	12005	797	28	3	2530	3	PLA2G4E	15	42302381	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	299232	42302381	60229011	750	63703										
TMEM62	80021	broad.mit.edu	37	chr15	43441294	43441294	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgatgcctgttttgcacactCgtcacttccagggcactttg	9	12	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:43441294C>A	uc001zqr.2	+	7	1090	c.811C>A	c.(811-813)CGT>AGT	p.R271S	TMEM62_uc010bda.2_Missense_Mutation_p.R141S	NM_024956	NP_079232	Q0P6H9	TMM62_HUMAN	transmembrane protein 62	271						integral to membrane				ovary(1)|breast(1)	2		all_cancers(109;1.16e-10)|all_epithelial(112;2.01e-09)|Lung NSC(122;8.91e-07)|all_lung(180;8.8e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;4.23e-07)		TTTGCACACTCGTCACTTCCA	0.408													5	99	---	---	---	---	PASS	A	43441294	A	A	43441294	3	1	178	1	0	0	0	0	1	0	0	0	16186	884	31	2	837	2	TMEM62	15	43441294	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1138913	43441294	59090098	751	63704										
CCNDBP1	23582	broad.mit.edu	37	chr15	43483668	43483668	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actctgacaaccacaatcatGaggatgatgtgttggggttt	11	7	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:43483668G>T	uc001zqv.2	+	8	886	c.655G>T	c.(655-657)GAG>TAG	p.E219*	CCNDBP1_uc001zqu.2_Nonsense_Mutation_p.E91*|CCNDBP1_uc010bdc.2_Nonsense_Mutation_p.E219*|CCNDBP1_uc010bdb.2_Nonsense_Mutation_p.E91*|CCNDBP1_uc010udl.1_Nonsense_Mutation_p.E58*|CCNDBP1_uc001zqw.2_RNA|CCNDBP1_uc001zqx.2_Nonsense_Mutation_p.E91*|CCNDBP1_uc010bdd.2_Nonsense_Mutation_p.E91*|CCNDBP1_uc001zqy.2_Nonsense_Mutation_p.E91*	NM_012142	NP_036274	O95273	CCDB1_HUMAN	cyclin D-type binding-protein 1 isoform 1	219	Interaction with TCF3.				cell cycle	cytoplasm|nucleus	protein binding			ovary(1)|kidney(1)	2		all_cancers(109;3.31e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.42e-07)		CCACAATCATGAGGATGATGT	0.468													7	90	---	---	---	---	PASS	T	43483668	T	T	43483668	4	4	178	1	0	0	0	0	0	1	0	0	2919	1291	45	2	685	2	CCNDBP1	15	43483668	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	42374	43483668	59047724	752	63705										
TP53BP1	7158	broad.mit.edu	37	chr15	43712600	43712600	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgcccaacacatcacattcGtacccatcatcaaagagcaa	4	14	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:43712600G>T	uc001zrs.2	-	21	4717	c.4569C>A	c.(4567-4569)TAC>TAA	p.Y1523*	TP53BP1_uc010udp.1_Nonsense_Mutation_p.Y1523*|TP53BP1_uc001zrq.3_Nonsense_Mutation_p.Y1528*|TP53BP1_uc001zrr.3_Nonsense_Mutation_p.Y1528*|TP53BP1_uc010udq.1_Nonsense_Mutation_p.Y1528*	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	1523	Interaction with dimethylated histone H4.			Y->A: Increases affinity for histone H4 that has been dimethylated at 'Lys-20'. No effect on recruitment to double strand breaks.|Y->S: Decreases affinity for histone H4 that has been dimethylated at 'Lys-20'.	double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		CATCACATTCGTACCCATCAT	0.478								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					8	202	---	---	---	---	PASS	T	43712600	T	T	43712600	4	4	178	1	0	0	0	0	0	1	0	0	16380	1140	40	1	1381	1	TP53BP1	15	43712600	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	228932	43712600	58818792	753	63706										
SPG11	80208	broad.mit.edu	37	chr15	44951474	44951474	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atgtgttattgtgaaatgacAggattctcaaagacaataag	9	4	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:44951474A>G	uc001ztx.2	-	3	501	c.470T>C	c.(469-471)CTG>CCG	p.L157P	SPG11_uc010ueh.1_Missense_Mutation_p.L157P|SPG11_uc010uei.1_Missense_Mutation_p.L157P|SPG11_uc001zua.1_Missense_Mutation_p.L157P	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	157	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		GTGAAATGACAGGATTCTCAA	0.308													6	59	---	---	---	---	PASS	G	44951474	G	G	44951474	3	3	178	1	0	0	0	0	1	0	0	0	15040	188	7	5	7013	5	SPG11	15	44951474	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	1238874	44951474	57579918	754	63707										
SLC28A2	9153	broad.mit.edu	37	chr15	45556214	45556214	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttgcctgctccaaacaccaCagcgcagtgagttttgggta	10	11	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:45556214C>A	uc001zva.2	+	6	647	c.582C>A	c.(580-582)CAC>CAA	p.H194Q		NM_004212	NP_004203	O43868	S28A2_HUMAN	solute carrier family 28 (sodium-coupled	194					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		CCAAACACCACAGCGCAGTGA	0.483													6	95	---	---	---	---	PASS	A	45556214	A	A	45556214	3	1	178	1	0	0	0	0	1	0	0	0	14532	477	17	3	600	3	SLC28A2	15	45556214	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	604740	45556214	56975178	755	63708										
USP8	9101	broad.mit.edu	37	chr15	50769081	50769081	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtcctgcgcaatgagcctttGgttttagagggaggctatga	14	7	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:50769081G>T	uc001zym.3	+	10	1385	c.885G>T	c.(883-885)TTG>TTT	p.L295F	USP8_uc001zyk.1_5'UTR|USP8_uc001zyl.3_Missense_Mutation_p.L295F|USP8_uc001zyn.3_Missense_Mutation_p.L295F|USP8_uc010ufh.1_Missense_Mutation_p.L218F|USP8_uc010bev.1_Intron	NM_001128611	NP_001122083	P40818	UBP8_HUMAN	ubiquitin specific peptidase 8	295	Rhodanese.				cell cycle|cell proliferation|endosome organization|protein K48-linked deubiquitination|protein K63-linked deubiquitination|ubiquitin-dependent protein catabolic process	cytosol|early endosome|extrinsic to plasma membrane|nucleus	cysteine-type endopeptidase activity|SH3 domain binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)|central_nervous_system(1)	2				all cancers(107;0.000225)|GBM - Glioblastoma multiforme(94;0.000771)		ATGAGCCTTTGGTTTTAGAGG	0.413													7	89	---	---	---	---	PASS	T	50769081	T	T	50769081	3	4	178	1	0	0	0	0	1	0	0	0	17086	1339	47	3	915	3	USP8	15	50769081	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5212867	50769081	51762311	756	63709										
CYP19A1	1588	broad.mit.edu	37	chr15	51535107	51535107	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gggttcagcatttccaaaacCatcttgtgttccttgacctc	7	12	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:51535107C>A	uc001zyz.3	-	3	254	c.3G>T	c.(1-3)ATG>ATT	p.M1I	CYP19A1_uc001zza.3_Missense_Mutation_p.M1I|CYP19A1_uc001zzb.2_Missense_Mutation_p.M1I|CYP19A1_uc001zzd.2_Missense_Mutation_p.M1I|CYP19A1_uc010bey.1_Missense_Mutation_p.M1I|CYP19A1_uc001zze.1_RNA	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	1					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	TTTCCAAAACCATCTTGTGTT	0.473													7	128	---	---	---	---	PASS	A	51535107	A	A	51535107	3	1	178	1	0	0	0	0	1	0	0	0	4148	594	21	3	1544	3	CYP19A1	15	51535107	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	766026	51535107	50996285	757	63710										
RAB27A	5873	broad.mit.edu	37	chr15	55516101	55516101	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	actcacccatatttctctgcGagtgctatggcttcctcctc	6	15	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:55516101G>T	uc002aco.2	-	6	686	c.453C>A	c.(451-453)CTC>CTA	p.L151L	RAB27A_uc002acr.2_Silent_p.L151L|RAB27A_uc002acp.2_Silent_p.L151L|RAB27A_uc002acq.2_Silent_p.L151L	NM_183234	NP_899057	P51159	RB27A_HUMAN	Ras-related protein Rab-27A	151					small GTPase mediated signal transduction	dendrite|exocytic vesicle|late endosome|lysosome|melanosome	GTP binding|GTPase activity			ovary(1)	1				all cancers(107;0.0273)|GBM - Glioblastoma multiforme(80;0.0993)		ATTTCTCTGCGAGTGCTATGG	0.388													9	204	---	---	---	---	PASS	T	55516101	T	T	55516101	2	4	178	1	0	0	0	0	0	0	0	1	12914	1045	37	2		2	RAB27A	15	55516101	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	3980994	55516101	47015291	758	63711										
TCF12	6938	broad.mit.edu	37	chr15	57458628	57458628	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcagagagaggctcattttcCctgtacagcagagatactgg	11	9	2	3	rs147522860		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:57458628C>A	uc002aec.2	+	6	638	c.354C>A	c.(352-354)TCC>TCA	p.S118S	TCF12_uc010ugm.1_Silent_p.S170S|TCF12_uc010ugn.1_Silent_p.S114S|TCF12_uc002aea.2_Silent_p.S118S|TCF12_uc010bfs.2_Intron|TCF12_uc002aeb.2_Silent_p.S118S|TCF12_uc002aed.2_Silent_p.S118S	NM_207038	NP_996921	Q99081	HTF4_HUMAN	transcription factor 12 isoform b	118					immune response|muscle organ development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(2)|lung(1)	8		Colorectal(260;0.0907)		all cancers(107;0.000313)|GBM - Glioblastoma multiforme(80;0.00878)|STAD - Stomach adenocarcinoma(283;0.239)		GCTCATTTTCCCTGTACAGCA	0.308			T	TEC	extraskeletal myxoid chondrosarcoma								9	238	---	---	---	---	PASS	A	57458628	A	A	57458628	2	1	178	1	0	0	0	0	0	0	0	1	15684	610	22	3		3	TCF12	15	57458628	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1942527	57458628	45072764	759	63712										
CGNL1	84952	broad.mit.edu	37	chr15	57730260	57730260	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tatggggtccatctgagactCgcaagtgatgatacccaaaa	10	9	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:57730260C>A	uc002aeg.2	+	2	139	c.63C>A	c.(61-63)CTC>CTA	p.L21L	CGNL1_uc010bfw.2_Silent_p.L21L	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	21	Head.					myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		ATCTGAGACTCGCAAGTGATG	0.493													6	112	---	---	---	---	PASS	A	57730260	A	A	57730260	2	1	178	1	0	0	0	0	0	0	0	1	3304	871	31	2		2	CGNL1	15	57730260	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	271632	57730260	44801132	760	63713										
VPS13C	54832	broad.mit.edu	37	chr15	62241690	62241690	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccccacaagtggtttcagctCggattccttctcagaagagg	10	12	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:62241690C>A	uc002agz.2	-	42	4785	c.4711G>T	c.(4711-4713)GAG>TAG	p.E1571*	VPS13C_uc002aha.2_Nonsense_Mutation_p.E1528*|VPS13C_uc002ahb.1_Nonsense_Mutation_p.E1571*|VPS13C_uc002ahc.1_Nonsense_Mutation_p.E1528*	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	1571					protein localization					ovary(2)	2						GGTTTCAGCTCGGATTCCTTC	0.368													6	118	---	---	---	---	PASS	A	62241690	A	A	62241690	4	1	178	1	0	0	0	0	0	1	0	0	17188	893	31	2	6754	2	VPS13C	15	62241690	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4511430	62241690	40289702	761	63714										
TLN2	83660	broad.mit.edu	37	chr15	63031711	63031711	+	Silent	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gatgattttgatgaattcctCgatgctggcattgagatggc	12	6	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:63031711C>T	uc002alb.3	+	28	3852	c.3852C>T	c.(3850-3852)CTC>CTT	p.L1284L	TLN2_uc002alc.3_5'Flank	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1284					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						ATGAATTCCTCGATGCTGGCA	0.547													15	44	---	---	---	---	PASS	T	63031711	T	T	63031711	2	4	178	1	0	0	0	0	0	0	0	1	15945	871	31	2		2	TLN2	15	63031711	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	790021	63031711	39499681	762	63715										
TLN2	83660	broad.mit.edu	37	chr15	63069108	63069108	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cattgcagaagccatgagcaAggtgggcatgggctctaggg	16	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:63069108A>T	uc002alb.3	+	40	5513	c.5513A>T	c.(5512-5514)AAG>ATG	p.K1838M	TLN2_uc002alc.3_Missense_Mutation_p.K231M|TLN2_uc002ald.2_Missense_Mutation_p.K231M	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1838					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GCCATGAGCAAGGTGGGCATG	0.572													10	28	---	---	---	---	PASS	T	63069108	T	T	63069108	3	4	178	1	0	0	0	0	1	0	0	0	15945	86	3	5	5671	5	TLN2	15	63069108	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	37397	63069108	39462284	763	63716										
HERC1	8925	broad.mit.edu	37	chr15	63958160	63958160	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttcagcagcatcagctgatGgtatgtctccaggtgactgc	11	10	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:63958160G>T	uc002amp.2	-	42	8661	c.8513C>A	c.(8512-8514)CCA>CAA	p.P2838Q		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	2838					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						ATCAGCTGATGGTATGTCTCC	0.468													9	154	---	---	---	---	PASS	T	63958160	T	T	63958160	3	4	178	1	0	0	0	0	1	0	0	0	7057	1348	47	3	6220	3	HERC1	15	63958160	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	889052	63958160	38573232	764	63717										
IGDCC4	57722	broad.mit.edu	37	chr15	65677303	65677303	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacgctgacctttatggcgtCgtacaccagagcctgcagca	11	13	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:65677303C>A	uc002aou.1	-	19	3541	c.3331G>T	c.(3331-3333)GAC>TAC	p.D1111Y	IGDCC4_uc002aot.1_Missense_Mutation_p.D699Y	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	1111	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						TTTATGGCGTCGTACACCAGA	0.632											OREG0023195	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	104	---	---	---	---	PASS	A	65677303	A	A	65677303	3	1	178	1	0	0	0	0	1	0	0	0	7569	884	31	2	429	2	IGDCC4	15	65677303	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1719143	65677303	36854089	765	63718										
IGDCC4	57722	broad.mit.edu	37	chr15	65687505	65687505	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgggagtaggccaccacgtaGaactcataatctgtgttggg	13	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:65687505G>T	uc002aou.1	-	8	1713	c.1503C>A	c.(1501-1503)TTC>TTA	p.F501L	IGDCC4_uc002aot.1_Missense_Mutation_p.F89L	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	501	Extracellular (Potential).|Fibronectin type-III 1.					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						CCACCACGTAGAACTCATAAT	0.562													5	25	---	---	---	---	PASS	T	65687505	T	T	65687505	3	4	178	1	0	0	0	0	1	0	0	0	7569	933	33	2	2301	2	IGDCC4	15	65687505	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	10202	65687505	36843887	766	63719										
RAB11A	8766	broad.mit.edu	37	chr15	66172017	66172017	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtctcccctcagaaaagaatGgtttgtcattcattgaaact	7	9	4	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:66172017G>T	uc002apk.2	+	4	567	c.439G>T	c.(439-441)GGT>TGT	p.G147C	RAB11A_uc010ujk.1_Nonsense_Mutation_p.E147*	NM_004663	NP_004654	P62491	RB11A_HUMAN	Ras-related protein Rab-11A	147					cell cycle|cytokinesis|neuron projection development|plasma membrane to endosome transport|protein localization in plasma membrane|small GTPase mediated signal transduction|vesicle-mediated transport	cleavage furrow|plasma membrane|recycling endosome membrane|trans-Golgi network	GTP binding|GTPase activity|syntaxin binding				0						AGAAAAGAATGGTTTGTCATT	0.348													8	151	---	---	---	---	PASS	T	66172017	T	T	66172017	3	4	178	1	0	0	0	0	1	0	0	0	12891	1348	47	3	453	3	RAB11A	15	66172017	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	484512	66172017	36359375	767	63720										
SPESP1	246777	broad.mit.edu	37	chr15	69238055	69238055	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgagaaaaaatctaactctcCaaaacatgtttattctatag	4	7	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:69238055C>A	uc002arn.1	+	2	310	c.182C>A	c.(181-183)CCA>CAA	p.P61Q	NOX5_uc002arp.1_Intron|NOX5_uc002arq.1_Intron|NOX5_uc010bid.1_Intron|NOX5_uc002aro.2_Intron	NM_145658	NP_663633	Q6UW49	SPESP_HUMAN	sperm equatorial segment protein 1 precursor	61					multicellular organismal development	acrosomal vesicle					0						TCTAACTCTCCAAAACATGTT	0.373													7	127	---	---	---	---	PASS	A	69238055	A	A	69238055	3	1	178	1	0	0	0	0	1	0	0	0	15039	594	21	3	188	3	SPESP1	15	69238055	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3066038	69238055	33293337	768	63721										
SIN3A	25942	broad.mit.edu	37	chr15	75676637	75676637	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcatctgacattagctgctCagctttccgctgatacgttg	8	12	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:75676637C>A	uc002bai.2	-	17	3422	c.3163G>T	c.(3163-3165)GAG>TAG	p.E1055*	SIN3A_uc002baj.2_Nonsense_Mutation_p.E1055*|SIN3A_uc010uml.1_Nonsense_Mutation_p.E1055*	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	1055					blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						ATTAGCTGCTCAGCTTTCCGC	0.483													8	170	---	---	---	---	PASS	A	75676637	A	A	75676637	4	1	178	1	0	0	0	0	0	1	0	0	14325	835	29	2	678	2	SIN3A	15	75676637	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	6438582	75676637	26854755	769	63722										
CIB2	10518	broad.mit.edu	37	chr15	78403567	78403567	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggacgatggggctcttcctGtagtccattgggacgaggtt	15	8	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:78403567G>T	uc002bdb.1	-	3	459	c.138C>A	c.(136-138)TAC>TAA	p.Y46*	CIB2_uc002bdc.1_Nonsense_Mutation_p.Y3*|CIB2_uc010ums.1_Nonsense_Mutation_p.Y46*	NM_006383	NP_006374	O75838	CIB2_HUMAN	DNA-dependent protein kinase catalytic	46							calcium ion binding				0						GGCTCTTCCTGTAGTCCATTG	0.592													5	57	---	---	---	---	PASS	T	78403567	T	T	78403567	4	4	178	1	0	0	0	0	0	1	0	0	3421	1372	48	3	441	3	CIB2	15	78403567	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2726930	78403567	24127825	770	63723										
KIAA1024	23251	broad.mit.edu	37	chr15	79760690	79760690	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcggcatgcaccgtcatcctCgttattgtcgtgcccatctg	10	14	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:79760690C>A	uc002bew.1	+	4	2790	c.2715C>A	c.(2713-2715)CTC>CTA	p.L905L	KIAA1024_uc010unk.1_3'UTR	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	905	Helical; (Potential).					integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						CCGTCATCCTCGTTATTGTCG	0.453													4	35	---	---	---	---	PASS	A	79760690	A	A	79760690	2	1	178	1	0	0	0	0	0	0	0	1	8205	871	31	2		2	KIAA1024	15	79760690	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1357123	79760690	22770702	771	63724										
FAH	2184	broad.mit.edu	37	chr15	80454614	80454614	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acacagacttctattcctctCggcagcatgctaccaacgtc	6	15	2	1	rs147946196	by1000genomes	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:80454614C>A	uc002bfj.2	+	6	473	c.391C>A	c.(391-393)CGG>AGG	p.R131R	FAH_uc002bfk.1_Silent_p.R131R|FAH_uc002bfm.1_Silent_p.R131R|FAH_uc002bfn.1_Silent_p.R61R|FAH_uc010unl.1_Nonsense_Mutation_p.S152*|FAH_uc002bfl.1_Silent_p.R131R	NM_000137	NP_000128	P16930	FAAA_HUMAN	fumarylacetoacetase	131					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	fumarylacetoacetase activity|metal ion binding				0						CTATTCCTCTCGGCAGCATGC	0.488									Tyrosinemia_type_1				5	91	---	---	---	---	PASS	A	80454614	A	A	80454614	2	1	178	1	0	0	0	0	0	0	0	1	5371	875	31	2		2	FAH	15	80454614	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	693924	80454614	22076778	772	63725										
HOMER2	9455	broad.mit.edu	37	chr15	83561518	83561518	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acggtgaccgcctgcttgctCgcaggcatccagttcttctt	10	14	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:83561518C>A	uc002bjg.2	-	2	267	c.81G>T	c.(79-81)GCG>GCT	p.A27A	HOMER2_uc002bjh.2_Silent_p.A27A|HOMER2_uc002bjj.2_Silent_p.A27A|HOMER2_uc002bji.2_Silent_p.A27A	NM_199330	NP_955362	Q9NSB8	HOME2_HUMAN	homer 2 isoform 2	27	WH1.				metabotropic glutamate receptor signaling pathway	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane					0						CCTGCTTGCTCGCAGGCATCC	0.542													6	95	---	---	---	---	PASS	A	83561518	A	A	83561518	2	1	178	1	0	0	0	0	0	0	0	1	7279	871	31	2		2	HOMER2	15	83561518	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	3106904	83561518	18969874	773	63726										
ADAMTSL3	57188	broad.mit.edu	37	chr15	84373180	84373180	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctggagcctatttccttcccGagtttgcactttctcctcag	7	14	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:84373180G>T	uc002bjz.3	+	3	333	c.109G>T	c.(109-111)GAG>TAG	p.E37*	ADAMTSL3_uc002bjy.1_Nonsense_Mutation_p.E37*|ADAMTSL3_uc010bmt.1_Nonsense_Mutation_p.E37*|ADAMTSL3_uc010bmu.1_Nonsense_Mutation_p.E37*	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	37						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)			TTTCCTTCCCGAGTTTGCACT	0.463													10	214	---	---	---	---	PASS	T	84373180	T	T	84373180	4	4	178	1	0	0	0	0	0	1	0	0	276	1059	37	2	115	2	ADAMTSL3	15	84373180	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	811662	84373180	18158212	774	63727										
DET1	55070	broad.mit.edu	37	chr15	89056198	89056198	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcacctacgtgcagcagtgtCgcatatggaagttgacaaca	11	10	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:89056198C>T	uc002bmr.2	-	5	1789	c.1637G>A	c.(1636-1638)CGA>CAA	p.R546Q	DET1_uc002bmp.3_RNA|DET1_uc010bnk.2_RNA|DET1_uc002bmq.2_Missense_Mutation_p.R557Q	NM_001144074	NP_001137546	Q7L5Y6	DET1_HUMAN	de-etiolated 1 isoform 2	546						nucleus				lung(1)|pancreas(1)	2	Lung NSC(78;0.105)|all_lung(78;0.182)		BRCA - Breast invasive adenocarcinoma(143;0.188)			GCAGCAGTGTCGCATATGGAA	0.493													8	31	---	---	---	---	PASS	T	89056198	T	T	89056198	3	4	178	1	0	0	0	0	1	0	0	0	4450	884	31	2	19	2	DET1	15	89056198	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4683018	89056198	13475194	775	63728										
POLG	5428	broad.mit.edu	37	chr15	89870503	89870503	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctgtgcctctgccaggtaaCgctcccagttctggttgaca	10	14	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:89870503C>A	uc002bns.3	-	7	1610	c.1328G>T	c.(1327-1329)CGT>CTT	p.R443L	POLG_uc002bnr.3_Missense_Mutation_p.R443L	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	443					base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			TGCCAGGTAACGCTCCCAGTT	0.587								DNA_polymerases_(catalytic_subunits)					7	27	---	---	---	---	PASS	A	89870503	A	A	89870503	3	1	178	1	0	0	0	0	1	0	0	0	12200	536	19	1	2459	1	POLG	15	89870503	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	814305	89870503	12660889	776	63729										
IQGAP1	8826	broad.mit.edu	37	chr15	90977012	90977012	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	catgccaagatgtatctactGtatccatgcactcaggtagt	8	10	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:90977012G>T	uc002bpl.1	+	5	553	c.452G>T	c.(451-453)TGT>TTT	p.C151F		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	151	CH.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			TGTATCTACTGTATCCATGCA	0.328													8	188	---	---	---	---	PASS	T	90977012	T	T	90977012	3	4	178	1	0	0	0	0	1	0	0	0	7814	1377	48	3	470	3	IQGAP1	15	90977012	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1106509	90977012	11554380	777	63730										
CRTC3	64784	broad.mit.edu	37	chr15	91162997	91162997	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agtccctgtcaggacgccctCgatcctgtgatgttggaggt	13	11	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:91162997C>A	uc002bpp.2	+	9	830	c.724C>A	c.(724-726)CGA>AGA	p.R242R	CRTC3_uc002bpo.2_Silent_p.R242R	NM_022769	NP_073606	Q6UUV7	CRTC3_HUMAN	transducer of regulated CREB protein 3 isoform	242					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus			CRTC3/MAML2(26)	salivary_gland(26)|ovary(1)	27	Melanoma(11;0.00551)|Lung NSC(78;0.0931)|all_lung(78;0.163)		BRCA - Breast invasive adenocarcinoma(143;0.0745)			AGGACGCCCTCGATCCTGTGA	0.438			T	MAML2	salivary gland mucoepidermoid								5	87	---	---	---	---	PASS	A	91162997	A	A	91162997	2	1	178	1	0	0	0	0	0	0	0	1	3901	876	31	2		2	CRTC3	15	91162997	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	185985	91162997	11368395	778	63731										
SV2B	9899	broad.mit.edu	37	chr15	91795651	91795651	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atttttctgaattcttgtctCgggagaagcgaggagaacac	11	7	3	3	rs148980578	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:91795651C>A	uc002bqv.2	+	3	1076	c.685C>A	c.(685-687)CGG>AGG	p.R229R	SV2B_uc002bqt.2_Silent_p.R229R|SV2B_uc010uqv.1_Silent_p.R78R|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	229	Cytoplasmic (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity	p.R229R(1)		ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			ATTCTTGTCTCGGGAGAAGCG	0.483													5	84	---	---	---	---	PASS	A	91795651	A	A	91795651	2	1	178	1	0	0	0	0	0	0	0	1	15415	875	31	2		2	SV2B	15	91795651	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	632654	91795651	10735741	779	63732										
ARRDC4	91947	broad.mit.edu	37	chr15	98511308	98511308	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttcacttctggtccagtctCgctgagtgccaaaattgaaa	8	10	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:98511308C>A	uc010bom.2	+	4	746	c.587C>A	c.(586-588)TCG>TAG	p.S196*	ARRDC4_uc002bui.3_Nonsense_Mutation_p.S109*	NM_183376	NP_899232	Q8NCT1	ARRD4_HUMAN	arrestin domain containing 4	196					signal transduction						0	Melanoma(26;0.00539)|Lung NSC(78;0.0125)|all_lung(78;0.0222)		OV - Ovarian serous cystadenocarcinoma(32;0.0417)			GGTCCAGTCTCGCTGAGTGCC	0.333													5	131	---	---	---	---	PASS	A	98511308	A	A	98511308	4	1	178	1	0	0	0	0	0	1	0	0	985	893	31	2	601	2	ARRDC4	15	98511308	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	6715657	98511308	4020084	780	63733										
TARSL2	123283	broad.mit.edu	37	chr15	102241364	102241364	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagcttccaggactcaaatcGtggaaaaagaaaagttcttg	9	8	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr15:102241364G>T	uc002bxm.2	-	10	1300	c.1245C>A	c.(1243-1245)CAC>CAA	p.H415Q	TARSL2_uc002bxl.2_5'UTR|TARSL2_uc010usi.1_RNA	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2	415					threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GACTCAAATCGTGGAAAAAGA	0.318													5	78	---	---	---	---	PASS	T	102241364	T	T	102241364	3	4	178	1	0	0	0	0	1	0	0	0	15558	1136	40	1	1203	1	TARSL2	15	102241364	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3730056	102241364	290028	781	63734										
SRRM2	23524	broad.mit.edu	37	chr16	2817786	2817786	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gccccaagccaatctaggatGacctctgaacgggctccctc	9	16	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:2817786G>T	uc002crk.2	+	11	7806	c.7257G>T	c.(7255-7257)ATG>ATT	p.M2419I	SRRM2_uc002crj.1_Missense_Mutation_p.M2323I|SRRM2_uc002crl.1_Missense_Mutation_p.M2419I|SRRM2_uc010bsu.1_Missense_Mutation_p.M2323I	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2419	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						AATCTAGGATGACCTCTGAAC	0.597													5	18	---	---	---	---	PASS	T	2817786	T	T	2817786	3	4	178	1	0	0	0	0	1	0	0	0	15168	1290	45	2	7295	2	SRRM2	16	2817786	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08		2817786	87536967	782	63735										
ZNF174	7727	broad.mit.edu	37	chr16	3452089	3452089	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acataatagccaaactagaaGagaaacggggccctcctctg	9	11	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:3452089G>T	uc002cvc.2	+	1	900	c.85G>T	c.(85-87)GAG>TAG	p.E29*	ZNF434_uc002cux.3_5'Flank|ZNF434_uc010uwx.1_5'Flank|ZNF434_uc002cuy.3_5'Flank|ZNF434_uc002cuz.2_5'Flank|ZNF434_uc010uwy.1_5'Flank|ZNF434_uc010uxa.1_5'Flank|ZNF174_uc002cva.2_Nonsense_Mutation_p.E29*|ZNF174_uc002cvb.2_Nonsense_Mutation_p.E29*	NM_003450	NP_003441	Q15697	ZN174_HUMAN	zinc finger protein 174 isoform a	29					negative regulation of transcription from RNA polymerase II promoter|viral reproduction	actin cytoskeleton|cytoplasm|nucleus	protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0						CAAACTAGAAGAGAAACGGGG	0.488													8	157	---	---	---	---	PASS	T	3452089	T	T	3452089	4	4	178	1	0	0	0	0	0	1	0	0	17741	943	33	2	87	2	ZNF174	16	3452089	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	634303	3452089	86902664	783	63736										
CREBBP	1387	broad.mit.edu	37	chr16	3843455	3843455	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttttcatggttcgacaatgcGggagcgagcaggcccgaacc	13	11	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:3843455G>C	uc002cvv.2	-	4	1352	c.1148C>G	c.(1147-1149)CCG>CGG	p.P383R	CREBBP_uc002cvw.2_Missense_Mutation_p.P383R	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	383	TAZ-type 1.|Interaction with SRCAP.				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)		TCGACAATGCGGGAGCGAGCA	0.498			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				24	69	---	---	---	---	PASS	C	3843455	C	C	3843455	3	2	178	1	0	0	0	0	1	0	0	0	3861	1116	39	4	6292	4	CREBBP	16	3843455	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	391366	3843455	86511298	784	63737										
GRIN2A	2903	broad.mit.edu	37	chr16	9857519	9857519	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tccctaggtttgtcgacaatGttatcgtaggaatgctgacg	11	8	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:9857519G>T	uc002czo.3	-	13	4430	c.3882C>A	c.(3880-3882)AAC>AAA	p.N1294K	GRIN2A_uc010uym.1_Missense_Mutation_p.N1294K|GRIN2A_uc010uyn.1_Intron|GRIN2A_uc002czr.3_Intron	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1294	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TGTCGACAATGTTATCGTAGG	0.527													5	79	---	---	---	---	PASS	T	9857519	T	T	9857519	3	4	178	1	0	0	0	0	1	0	0	0	6779	1368	48	3	516	3	GRIN2A	16	9857519	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6014064	9857519	80497234	785	63738										
EMP2	2013	broad.mit.edu	37	chr16	10631855	10631855	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggcggaagagctggagcacGaagatgaagaaggcgatgca	17	6	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:10631855G>A	uc002czx.2	-	4	440	c.246C>T	c.(244-246)TTC>TTT	p.F82F		NM_001424	NP_001415	P54851	EMP2_HUMAN	epithelial membrane protein 2	82	Helical; (Potential).				cell proliferation	integral to membrane					0						GCTGGAGCACGAAGATGAAGA	0.557													10	85	---	---	---	---	PASS	A	10631855	A	A	10631855	2	1	178	1	0	0	0	0	0	0	0	1	5102	1049	37	2		2	EMP2	16	10631855	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	774336	10631855	79722898	786	63739										
ZC3H7A	29066	broad.mit.edu	37	chr16	11859381	11859381	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aattccccaagatgctcctgGagaagtttgaacacagtaag	9	9	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:11859381G>T	uc002dbk.2	-	13	1881	c.1683C>A	c.(1681-1683)CTC>CTA	p.L561L	ZC3H7A_uc002dbj.2_RNA|ZC3H7A_uc002dbl.2_Silent_p.L561L|ZC3H7A_uc002dbm.1_Silent_p.L471L	NM_014153	NP_054872	Q8IWR0	Z3H7A_HUMAN	zinc finger CCCH-type containing 7A	561						nucleus	nucleic acid binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						GATGCTCCTGGAGAAGTTTGA	0.443													7	122	---	---	---	---	PASS	T	11859381	T	T	11859381	2	4	178	1	0	0	0	0	0	0	0	1	17569	1161	41	2		2	ZC3H7A	16	11859381	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1227526	11859381	78495372	787	63740										
GDE1	51573	broad.mit.edu	37	chr16	19522230	19522230	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggcactctgcaacagcttcCcttagggtagggatcttttc	10	11	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:19522230C>A	uc002dgh.2	-	3	638	c.474G>T	c.(472-474)AGG>AGT	p.R158S	GDE1_uc002dgi.2_Missense_Mutation_p.R48S	NM_016641	NP_057725	Q9NZC3	GDE1_HUMAN	glycerophosphodiester phosphodiesterase 1	158	Lumenal (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	cytoplasm|integral to membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol glycerophosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3						CAACAGCTTCCCTTAGGGTAG	0.383													8	184	---	---	---	---	PASS	A	19522230	A	A	19522230	3	1	178	1	0	0	0	0	1	0	0	0	6310	622	22	3	537	3	GDE1	16	19522230	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	7662849	19522230	70832523	788	63741										
CP110	9738	broad.mit.edu	37	chr16	19548085	19548085	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggttcatatgccaaattacCtagtccagagccaagtatga	8	9	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:19548085C>A	uc002dgl.3	+	4	1341	c.1094C>A	c.(1093-1095)CCT>CAT	p.P365H	CP110_uc002dgk.3_Missense_Mutation_p.P365H			O43303	CP110_HUMAN	RecName: Full=Centrosomal protein of 110 kDa;          Short=Cep110;	365	Interaction with CEP76.				centriole replication|G2/M transition of mitotic cell cycle|regulation of cytokinesis	centriole|cytosol	protein binding				0						GCCAAATTACCTAGTCCAGAG	0.368													5	34	---	---	---	---	PASS	A	19548085	A	A	19548085	3	1	178	1	0	0	0	0	1	0	0	0	3788	681	24	3	1104	3	CP110	16	19548085	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	25855	19548085	70806668	789	63742										
GPR139	124274	broad.mit.edu	37	chr16	20043299	20043299	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gatggctgtgttcagaagggCtagcatgttggcaatgtcgg	16	6	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:20043299C>A	uc002dgu.1	-	2	982	c.820G>T	c.(820-822)GCC>TCC	p.A274S	GPR139_uc010vaw.1_Missense_Mutation_p.A181S	NM_001002911	NP_001002911	Q6DWJ6	GP139_HUMAN	G protein-coupled receptor 139	274	Helical; Name=7; (Potential).					integral to membrane|plasma membrane				ovary(2)	2						TTCAGAAGGGCTAGCATGTTG	0.552													7	53	---	---	---	---	PASS	A	20043299	A	A	20043299	3	1	178	1	0	0	0	0	1	0	0	0	6648	797	28	3	245	3	GPR139	16	20043299	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	495214	20043299	70311454	790	63743										
ACSM1	116285	broad.mit.edu	37	chr16	20693762	20693762	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtctttggccttcaacaggaTggtcgcaggaatgaagatga	13	7	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:20693762T>A	uc002dhm.1	-	3	495	c.427A>T	c.(427-429)ATC>TTC	p.I143F	ACSM1_uc002dhn.1_RNA|ACSM1_uc010bwg.1_Missense_Mutation_p.I143F	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	143					benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						TTCAACAGGATGGTCGCAGGA	0.473													8	41	---	---	---	---	PASS	A	20693762	A	A	20693762	3	1	178	1	0	0	0	0	1	0	0	0	182	1464	51	5	1350	5	ACSM1	16	20693762	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	650463	20693762	69660991	791	63744										
ERI2	112479	broad.mit.edu	37	chr16	20800840	20800840	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttccccttttcctgtttactCatattgggcttctgaagtaa	6	10	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:20800840C>A	uc002dhs.2	-	10	898	c.855G>T	c.(853-855)ATG>ATT	p.M285I	ACSM3_uc002dhr.2_Intron|ACSM3_uc010vba.1_Intron	NM_080663	NP_542394	A8K979	ERI2_HUMAN	exoribonuclease 2 isoform 2	Error:Variant_position_missing_in_A8K979_after_alignment						intracellular	exonuclease activity|nucleic acid binding|zinc ion binding			large_intestine(1)	1						cctgtttactcatattgggct	0.045													8	122	---	---	---	---	PASS	A	20800840	A	A	20800840	3	1	178	1	0	0	0	0	1	0	0	0	5228	826	29	2	139	2	ERI2	16	20800840	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	107078	20800840	69553913	792	63745										
DNAH3	55567	broad.mit.edu	37	chr16	20975912	20975912	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgatgacagccagtttattCgccttctccatgttcttaat	6	10	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:20975912C>A	uc010vbe.1	-	53	9294	c.9294G>T	c.(9292-9294)GCG>GCT	p.A3098A	DNAH3_uc010vbd.1_Silent_p.A533A	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3098	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CCAGTTTATTCGCCTTCTCCA	0.468													6	103	---	---	---	---	PASS	A	20975912	A	A	20975912	2	1	178	1	0	0	0	0	0	0	0	1	4603	871	31	2		2	DNAH3	16	20975912	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	175072	20975912	69378841	793	63746										
IGSF6	10261	broad.mit.edu	37	chr16	21654427	21654427	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtttccacatgtctcttatGgtatagttcttgagcaattt	7	7	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:21654427G>T	uc002djg.1	-	5	687	c.634C>A	c.(634-636)CAT>AAT	p.H212N	uc002diq.3_Intron|METTL9_uc002dje.2_Intron|METTL9_uc002djf.2_Intron	NM_005849	NP_005840	O95976	IGSF6_HUMAN	immunoglobulin superfamily, member 6 precursor	212	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0				GBM - Glioblastoma multiforme(48;0.066)		TGTCTCTTATGGTATAGTTCT	0.318													7	118	---	---	---	---	PASS	T	21654427	T	T	21654427	3	4	178	1	0	0	0	0	1	0	0	0	7603	1348	47	3	99	3	IGSF6	16	21654427	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	678515	21654427	68700326	794	63747										
PRKCB	5579	broad.mit.edu	37	chr16	24192229	24192229	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccaagacattctgtggcactCcagactacatcgcccccgag	8	16	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:24192229C>A	uc002dmd.2	+	13	1710	c.1513C>A	c.(1513-1515)CCA>ACA	p.P505T	PRKCB_uc002dme.2_Missense_Mutation_p.P505T	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	505	Protein kinase.				apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	CTGTGGCACTCCAGACTACAT	0.547													5	53	---	---	---	---	PASS	A	24192229	A	A	24192229	3	1	178	1	0	0	0	0	1	0	0	0	12508	855	30	2	1563	2	PRKCB	16	24192229	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2537802	24192229	66162524	795	63748										
KIF22	3835	broad.mit.edu	37	chr16	29810339	29810339	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttcgggagacctggtaatccGagaagactgccgggggaata	15	8	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:29810339G>T	uc002dts.3	+	5	617	c.593G>T	c.(592-594)CGA>CTA	p.R198L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|KIF22_uc010vdv.1_Missense_Mutation_p.R130L|KIF22_uc010vdw.1_Missense_Mutation_p.R130L|KIF22_uc010bzf.2_Missense_Mutation_p.R130L	NM_007317	NP_015556	Q14807	KIF22_HUMAN	kinesin family member 22	198	Kinesin-motor.				blood coagulation|DNA repair|microtubule-based movement|mitosis	cytosol|kinetochore|microtubule|nucleus	ATP binding|DNA binding|microtubule motor activity|protein binding				0						CTGGTAATCCGAGAAGACTGC	0.537													6	103	---	---	---	---	PASS	T	29810339	T	T	29810339	3	4	178	1	0	0	0	0	1	0	0	0	8290	1058	37	2	611	2	KIF22	16	29810339	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5618110	29810339	60544414	796	63749										
HIRIP3	8479	broad.mit.edu	37	chr16	30006065	30006065	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctcaactgcctttgaggctCgccttggattctcctctttg	8	14	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:30006065C>A	uc002dve.2	-	4	862	c.401G>T	c.(400-402)CGA>CTA	p.R134L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|INO80E_uc002dvg.1_5'Flank|INO80E_uc002dvh.1_5'Flank|INO80E_uc002dvi.1_5'Flank|INO80E_uc002dvj.1_5'Flank|INO80E_uc002dvk.1_5'Flank|HIRIP3_uc002dvf.2_Intron	NM_003609	NP_003600	Q9BW71	HIRP3_HUMAN	HIRA interacting protein 3	134	Glu-rich.				chromatin assembly or disassembly	nucleus	protein binding			central_nervous_system(1)	1						CTTTGAGGCTCGCCTTGGATT	0.597													6	108	---	---	---	---	PASS	A	30006065	A	A	30006065	3	1	178	1	0	0	0	0	1	0	0	0	7121	884	31	2	1285	2	HIRIP3	16	30006065	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	195726	30006065	60348688	797	63750										
C16orf93	90835	broad.mit.edu	37	chr16	30770363	30770363	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctctggtggggccactgtctCtagttcctctttctgcgggg	13	12	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:30770363C>G	uc002dzm.2	-	8	1118	c.787G>C	c.(787-789)GAG>CAG	p.E263Q	C16orf93_uc002dzn.2_Missense_Mutation_p.E328Q|C16orf93_uc002dzo.2_Missense_Mutation_p.E226Q	NM_001014979	NP_001014979	A1A4V9	CP093_HUMAN	hypothetical protein LOC90835	263											0						GCCACTGTCTCTAGTTCCTCT	0.562													19	119	---	---	---	---	PASS	G	30770363	G	G	30770363	3	3	178	1	0	0	0	0	1	0	0	0	1846	922	32	2	216	2	C16orf93	16	30770363	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	764298	30770363	59584390	798	63751										
C16orf93	90835	broad.mit.edu	37	chr16	30771025	30771025	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaagtagcggtagcactcctCcacgttgcccaagggggttg	14	11	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:30771025C>G	uc002dzm.2	-	5	821	c.490G>C	c.(490-492)GAG>CAG	p.E164Q	C16orf93_uc002dzn.2_Missense_Mutation_p.E164Q|C16orf93_uc002dzo.2_Missense_Mutation_p.E127Q|RNF40_uc002dzq.2_5'Flank|RNF40_uc010caa.2_5'Flank|RNF40_uc010cab.2_5'Flank|RNF40_uc010vfa.1_5'Flank|RNF40_uc002dzr.2_5'Flank|RNF40_uc010vfb.1_5'Flank	NM_001014979	NP_001014979	A1A4V9	CP093_HUMAN	hypothetical protein LOC90835	164											0						TAGCACTCCTCCACGTTGCCC	0.502													4	27	---	---	---	---	PASS	G	30771025	G	G	30771025	3	3	178	1	0	0	0	0	1	0	0	0	1846	864	30	2	525	2	C16orf93	16	30771025	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	662	30771025	59583728	799	63752										
SETD1A	9739	broad.mit.edu	37	chr16	30991034	30991034	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gccctggccgtcaagcccacGccccctgcgccagccctgcg	11	22	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:30991034G>C	uc002ead.1	+	14	4613	c.3927G>C	c.(3925-3927)ACG>ACC	p.T1309T		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1309					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						TCAAGCCCACGCCCCCTGCGC	0.706													3	18	---	---	---	---	PASS	C	30991034	C	C	30991034	2	2	178	1	0	0	0	0	0	0	0	1	14130	1074	38	4		4	SETD1A	16	30991034	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	220009	30991034	59363719	800	63753										
DNAJA2	10294	broad.mit.edu	37	chr16	46991042	46991042	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgaccacctcctgagcctcGagtgctatcaaattcctgaa	7	14	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:46991042G>T	uc002eeo.2	-	9	1280	c.1138C>A	c.(1138-1140)CGA>AGA	p.R380R	DNAJA2_uc002eep.2_Silent_p.R297R	NM_005880	NP_005871	O60884	DNJA2_HUMAN	DnaJ subfamily A member 2	380					positive regulation of cell proliferation|protein folding|response to heat	membrane	ATP binding|heat shock protein binding|metal ion binding|unfolded protein binding			lung(1)	1		all_cancers(37;0.00125)|all_lung(18;0.00338)|all_epithelial(9;0.00358)|Lung NSC(13;0.0309)|Breast(268;0.116)				CCTGAGCCTCGAGTGCTATCA	0.463													9	227	---	---	---	---	PASS	T	46991042	T	T	46991042	2	4	178	1	0	0	0	0	0	0	0	1	4612	1066	37	2		2	DNAJA2	16	46991042	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	16000008	46991042	43363711	801	63754										
LONP2	83752	broad.mit.edu	37	chr16	48290549	48290549	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aatgttggatatgtctgtccCtgcagttgctaaattgagac	10	7	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:48290549C>G	uc002efi.1	+	3	586	c.497C>G	c.(496-498)CCT>CGT	p.P166R	LONP2_uc010vgm.1_Intron|LONP2_uc002efj.1_Intron	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	166	Lon.				misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						ATGTCTGTCCCTGCAGTTGCT	0.353													9	82	---	---	---	---	PASS	G	48290549	G	G	48290549	3	3	178	1	0	0	0	0	1	0	0	0	8893	681	24	4	507	4	LONP2	16	48290549	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1299507	48290549	42064204	802	63755										
AARS	16	broad.mit.edu	37	chr16	70302256	70302256	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	catgggcgtatcggacagctCggcggagaatccgtctcaac	13	12	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:70302256C>A	uc002eyn.1	-	8	1099	c.989G>T	c.(988-990)CGA>CTA	p.R330L	AARS_uc010vlu.1_Missense_Mutation_p.R160L	NM_001605	NP_001596	P49588	SYAC_HUMAN	alanyl-tRNA synthetase	330					alanyl-tRNA aminoacylation|tRNA processing	cytosol|soluble fraction	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			pancreas(1)	1		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)	L-Alanine(DB00160)	TCGGACAGCTCGGCGGAGAAT	0.507													4	40	---	---	---	---	PASS	A	70302256	A	A	70302256	3	1	178	1	0	0	0	0	1	0	0	0	19	884	31	2	1973	2	AARS	16	70302256	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	22011707	70302256	20052497	803	63756										
ZFP1	162239	broad.mit.edu	37	chr16	75203869	75203869	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttgaactcaccacacaccaGagaattcatacaggagagcg	8	11	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr16:75203869G>C	uc002fdo.2	+	4	1025	c.861G>C	c.(859-861)CAG>CAC	p.Q287H	ZFP1_uc002fdp.2_Missense_Mutation_p.Q232H|ZFP1_uc010cgt.2_Missense_Mutation_p.Q254H|ZFP1_uc010cgs.2_Missense_Mutation_p.Q232H|ZFP1_uc002fdq.2_Missense_Mutation_p.Q287H	NM_153688	NP_710155	Q6P2D0	ZFP1_HUMAN	zinc finger protein 1 homolog	287	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CCACACACCAGAGAATTCATA	0.433													5	30	---	---	---	---	PASS	C	75203869	C	C	75203869	3	2	178	1	0	0	0	0	1	0	0	0	17633	933	33	2	871	2	ZFP1	16	75203869	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	4901613	75203869	15150884	804	63757										
PRPF8	10594	broad.mit.edu	37	chr17	1582704	1582704	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcaggacaatgctcccgataCctggaaaaataagcccacca	8	13	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:1582704C>G	uc002fte.2	-	10	1404	c.1290G>C	c.(1288-1290)TGG>TGC	p.W430C		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	430						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		GCTCCCGATACCTGGAAAAAT	0.502													18	56	---	---	---	---	PASS	G	1582704	G	G	1582704	3	3	178	1	0	0	0	0	1	0	0	0	12575	521	18	4	5853	4	PRPF8	17	1582704	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08		1582704	79612506	805	63758										
PRPF8	10594	broad.mit.edu	37	chr17	1584337	1584337	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taatatcattgaattcattcCagtcttcatccctagggtac	5	10	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:1584337C>A	uc002fte.2	-	7	992	c.878G>T	c.(877-879)TGG>TTG	p.W293L		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	293						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		GAATTCATTCCAGTCTTCATC	0.279													8	114	---	---	---	---	PASS	A	1584337	A	A	1584337	3	1	178	1	0	0	0	0	1	0	0	0	12575	595	21	3	6277	3	PRPF8	17	1584337	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1633	1584337	79610873	806	63759										
SMG6	23293	broad.mit.edu	37	chr17	2203024	2203024	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctcgatattctttagcactGtttttctgctcaccctcccc	4	16	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:2203024G>T	uc002fub.1	-	2	1078	c.1023C>A	c.(1021-1023)AAC>AAA	p.N341K	SMG6_uc002fud.1_Missense_Mutation_p.N310K	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	341	Interaction with telomeric DNA.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						CTTTAGCACTGTTTTTCTGCT	0.473													6	85	---	---	---	---	PASS	T	2203024	T	T	2203024	3	4	178	1	0	0	0	0	1	0	0	0	14797	1368	48	3	3308	3	SMG6	17	2203024	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	618687	2203024	78992186	807	63760										
SPATA22	84690	broad.mit.edu	37	chr17	3352120	3352120	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccttcagggtgttgtcttctGgaatatcatccaacatttgt	8	9	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:3352120G>A	uc002fvm.2	-	6	890	c.653C>T	c.(652-654)CCA>CTA	p.P218L	SPATA22_uc010vrg.1_Missense_Mutation_p.P202L|SPATA22_uc010vrf.1_Missense_Mutation_p.P218L|SPATA22_uc002fvn.2_Missense_Mutation_p.P218L|SPATA22_uc002fvo.2_Missense_Mutation_p.P218L|SPATA22_uc002fvp.2_Missense_Mutation_p.P218L|SPATA22_uc010ckf.2_Missense_Mutation_p.P175L	NM_032598	NP_115987	Q8NHS9	SPT22_HUMAN	spermatogenesis associated 22	218											0						GTTGTCTTCTGGAATATCATC	0.308													30	66	---	---	---	---	PASS	A	3352120	A	A	3352120	3	1	178	1	0	0	0	0	1	0	0	0	15007	1348	47	3	454	3	SPATA22	17	3352120	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1149096	3352120	77843090	808	63761										
C17orf85	55421	broad.mit.edu	37	chr17	3716427	3716427	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taaccggctcttcttttggcGagactgctctttctccttaa	7	12	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:3716427G>T	uc010ckl.1	-	13	1797	c.1774C>A	c.(1774-1776)CGC>AGC	p.R592S	C17orf85_uc002fwr.2_Missense_Mutation_p.R302S|C17orf85_uc002fwq.2_Missense_Mutation_p.R312S	NM_001114118	NP_001107590	Q53F19	CQ085_HUMAN	ELG protein isoform a	592							nucleotide binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (3;0.0725)		TTCTTTTGGCGAGACTGCTCT	0.537													6	90	---	---	---	---	PASS	T	3716427	T	T	3716427	3	4	178	1	0	0	0	0	1	0	0	0	1888	1058	37	2	92	2	C17orf85	17	3716427	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	364307	3716427	77478783	809	63762										
ZZEF1	23140	broad.mit.edu	37	chr17	3916904	3916904	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aacatctgcttcaaaatctcGaatcctggccaacaccccaa	4	15	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:3916904G>T	uc002fxe.2	-	52	8482	c.8418C>A	c.(8416-8418)TTC>TTA	p.F2806L	ZZEF1_uc002fxg.1_Missense_Mutation_p.F127L	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	2806							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TCAAAATCTCGAATCCTGGCC	0.403													7	188	---	---	---	---	PASS	T	3916904	T	T	3916904	3	4	178	1	0	0	0	0	1	0	0	0	18252	1049	37	2	483	2	ZZEF1	17	3916904	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	200477	3916904	77278306	810	63763										
MINK1	50488	broad.mit.edu	37	chr17	4798448	4798448	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttctgtggtcaacgtgaatcCcaccaacacccgggcccaca	8	16	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:4798448C>A	uc010vsl.1	+	25	3192	c.2996C>A	c.(2995-2997)CCC>CAC	p.P999H	MINK1_uc010vsk.1_Missense_Mutation_p.P970H|MINK1_uc010vsm.1_Missense_Mutation_p.P979H|MINK1_uc010vsn.1_Missense_Mutation_p.P962H|MINK1_uc010vso.1_Missense_Mutation_p.P907H|MINK1_uc010vsp.1_Missense_Mutation_p.P460H	NM_153827	NP_722549	Q8N4C8	MINK1_HUMAN	misshapen-like kinase 1 isoform 3	999	Mediates interaction with RAP2A.				JNK cascade	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)|skin(1)	6						AACGTGAATCCCACCAACACC	0.602													9	258	---	---	---	---	PASS	A	4798448	A	A	4798448	3	1	178	1	0	0	0	0	1	0	0	0	9587	623	22	3	2861	3	MINK1	17	4798448	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	881544	4798448	76396762	811	63764										
ENO3	2027	broad.mit.edu	37	chr17	4858862	4858862	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cacatcactggggagaagctCggagagctgtataagagctt	13	8	1	3	rs35119507	byFrequency	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:4858862C>A	uc002gab.3	+	8	922	c.828C>A	c.(826-828)CTC>CTA	p.L276L	ENO3_uc010vsr.1_Silent_p.L183L|ENO3_uc002gac.3_Silent_p.L276L|ENO3_uc010vss.1_Silent_p.L233L|ENO3_uc010vst.1_Silent_p.L112L	NM_053013	NP_443739	P13929	ENOB_HUMAN	enolase 3	276					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex	magnesium ion binding|phosphopyruvate hydratase activity			ovary(1)	1						GGGAGAAGCTCGGAGAGCTGT	0.522													6	140	---	---	---	---	PASS	A	4858862	A	A	4858862	2	1	178	1	0	0	0	0	0	0	0	1	5123	871	31	2		2	ENO3	17	4858862	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	60414	4858862	76336348	812	63765										
ZNF594	84622	broad.mit.edu	37	chr17	5085768	5085768	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cacattctttgcattcatatGgtttctctcttgtatgagtt	6	8	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:5085768G>T	uc010cla.1	-	2	1940	c.1784C>A	c.(1783-1785)CCA>CAA	p.P595Q		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	595					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						GCATTCATATGGTTTCTCTCT	0.423													8	174	---	---	---	---	PASS	T	5085768	T	T	5085768	3	4	178	1	0	0	0	0	1	0	0	0	18021	1348	47	3	643	3	ZNF594	17	5085768	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	226906	5085768	76109442	813	63766										
SLC2A4	6517	broad.mit.edu	37	chr17	7187914	7187914	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtccctgctccagctcctgGgcagccgtacccaccggcag	11	18	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:7187914G>A	uc002gfp.2	+	7	1038	c.838G>A	c.(838-840)GGC>AGC	p.G280S	SLC2A4_uc002gfo.2_Missense_Mutation_p.G280S|SLC2A4_uc010cmd.2_RNA	NM_001042	NP_001033	P14672	GTR4_HUMAN	glucose transporter 4	280	Cytoplasmic (Potential).				carbohydrate metabolic process|glucose homeostasis|glucose import	external side of plasma membrane|integral to plasma membrane|perinuclear region of cytoplasm	D-glucose transmembrane transporter activity|protein binding				0						CCAGCTCCTGGGCAGCCGTAC	0.632													12	18	---	---	---	---	PASS	A	7187914	A	A	7187914	3	1	178	1	0	0	0	0	1	0	0	0	14546	1232	43	3	864	3	SLC2A4	17	7187914	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2102146	7187914	74007296	814	63767										
NEURL4	84461	broad.mit.edu	37	chr17	7221432	7221432	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agagcaaagggcatggtactCgcagctctttagaggactag	13	8	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:7221432C>A	uc002gga.1	-	25	4019	c.4012G>T	c.(4012-4014)GAG>TAG	p.E1338*	GPS2_uc002gfv.1_5'Flank|GPS2_uc002gfw.1_5'Flank|GPS2_uc002gfx.1_5'Flank|NEURL4_uc002gfy.1_RNA|GPS2_uc002gfz.1_5'UTR|NEURL4_uc002ggb.1_Nonsense_Mutation_p.E1336*	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	1338							protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						GCATGGTACTCGCAGCTCTTT	0.592													5	74	---	---	---	---	PASS	A	7221432	A	A	7221432	4	1	178	1	0	0	0	0	0	1	0	0	10347	893	31	2	696	2	NEURL4	17	7221432	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	33518	7221432	73973778	815	63768										
MPDU1	9526	broad.mit.edu	37	chr17	7487219	7487219	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggaccgcttaaacggctgctCgtgccgattcttttacctga	10	12	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:7487219C>A	uc002ghw.2	+	1	255	c.39C>A	c.(37-39)CTC>CTA	p.L13L	MPDU1_uc010vub.1_5'UTR|MPDU1_uc002ghx.2_Silent_p.L13L|MPDU1_uc010vuc.1_Silent_p.L13L	NM_004870	NP_004861	O75352	MPU1_HUMAN	mannose-P-dolichol utilization defect 1	13					dolichol-linked oligosaccharide biosynthetic process|protein folding	endoplasmic reticulum membrane|integral to membrane|mitochondrion	protein binding			central_nervous_system(1)	1						AACGGCTGCTCGTGCCGATTC	0.542													7	147	---	---	---	---	PASS	A	7487219	A	A	7487219	2	1	178	1	0	0	0	0	0	0	0	1	9721	871	31	2		2	MPDU1	17	7487219	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	265787	7487219	73707991	816	63769										
TP53	7157	broad.mit.edu	37	chr17	7577090	7577090	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggagattctcttcctctgtgCgccggtctctcccaggacag	11	14	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:7577090C>G	uc002gim.2	-	8	1042	c.848G>C	c.(847-849)CGC>CCC	p.R283P	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R283P|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R151P|TP53_uc010cng.1_Missense_Mutation_p.R151P|TP53_uc002gii.1_Missense_Mutation_p.R151P|TP53_uc010cnh.1_Missense_Mutation_p.R283P|TP53_uc010cni.1_Missense_Mutation_p.R283P|TP53_uc002gij.2_Missense_Mutation_p.R283P	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	283	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> S (in a sporadic cancer; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> H (in a brain tumor with no family history; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R283P(23)|p.R283C(18)|p.R283H(12)|p.0?(7)|p.R283L(4)|p.R283R(4)|p.R283fs*62(4)|p.R283G(2)|p.R283fs*63(2)|p.?(2)|p.R283fs*16(2)|p.A276_R283delACPGRDRR(1)|p.R283del(1)|p.R283S(1)|p.R283fs*22(1)|p.R282_E287delRRTEEE(1)|p.T284_G293del10(1)|p.G279fs*59(1)|p.S269fs*21(1)|p.C275_R283delCACPGRDRR(1)|p.L265_K305del41(1)|p.T284fs*57(1)|p.R283fs*56(1)|p.R283_T284>T(1)|p.V272_K292del21(1)|p.R283fs*59(1)|p.C275fs*20(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)		TTCCTCTGTGCGCCGGTCTCT	0.562		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			10	10	---	---	---	---	PASS	G	7577090	G	G	7577090	3	3	178	1	0	0	0	0	1	0	0	0	16378	768	27	4	438	4	TP53	17	7577090	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	89871	7577090	73618120	817	63770										
MYH1	4619	broad.mit.edu	37	chr17	10399845	10399845	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctggatgcgcaggatctttcCctcttcatgttcaagagatg	10	10	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:10399845C>A	uc002gmo.2	-	34	4772	c.4678G>T	c.(4678-4680)GGA>TGA	p.G1560*	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1560	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						AGGATCTTTCCCTCTTCATGT	0.383													52	77	---	---	---	---	PASS	A	10399845	A	A	10399845	4	1	178	1	0	0	0	0	0	1	0	0	10029	632	22	3	1169	3	MYH1	17	10399845	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2822755	10399845	70795365	818	63771										
MYH2	4620	broad.mit.edu	37	chr17	10429093	10429093	+	Missense_Mutation	SNP	C	G	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagcatgaggtcctcgacctCattctgcagccgctgcttcg	10	14	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:10429093C>G	uc010coi.2	-	31	4416	c.4288G>C	c.(4288-4290)GAG>CAG	p.E1430Q	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.E1430Q|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1430	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TCCTCGACCTCATTCTGCAGC	0.537													6	71	---	---	---	---	PASS	G	10429093	G	G	10429093	3	3	178	1	0	0	0	0	1	0	0	0	10035	835	29	2	1577	2	MYH2	17	10429093	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	29248	10429093	70766117	819	63772										
DNAH9	1770	broad.mit.edu	37	chr17	11835352	11835352	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acactctggagatgtgttctCgggagacggagtttaagagc	14	7	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:11835352C>A	uc002gne.2	+	64	12195	c.12127C>A	c.(12127-12129)CGG>AGG	p.R4043R	DNAH9_uc010coo.2_Silent_p.R3261R|DNAH9_uc002gnf.2_Silent_p.R355R	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	4043	AAA 6 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GATGTGTTCTCGGGAGACGGA	0.493													7	223	---	---	---	---	PASS	A	11835352	A	A	11835352	2	1	178	1	0	0	0	0	0	0	0	1	4608	875	31	2		2	DNAH9	17	11835352	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1406259	11835352	69359858	820	63773										
NCOR1	9611	broad.mit.edu	37	chr17	16029511	16029511	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttttcttcttgcgagggtcGagcaatttgctgctagaatg	11	7	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:16029511G>T	uc002gpo.2	-	15	1759	c.1519C>A	c.(1519-1521)CGA>AGA	p.R507R	NCOR1_uc002gpn.2_Silent_p.R507R|NCOR1_uc002gpp.1_Silent_p.R398R|NCOR1_uc002gpr.2_Silent_p.R398R|NCOR1_uc002gps.1_Silent_p.R516R|NCOR1_uc010coz.1_Silent_p.R323R|NCOR1_uc010cpb.1_Silent_p.R517R|NCOR1_uc010cpa.1_Silent_p.R508R	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	507	Potential.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		tGCGAGGGTCGAGCAATTTGC	0.179													5	105	---	---	---	---	PASS	T	16029511	T	T	16029511	2	4	178	1	0	0	0	0	0	0	0	1	10235	1066	37	2		2	NCOR1	17	16029511	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	4194159	16029511	65165699	821	63774										
TMEM97	27346	broad.mit.edu	37	chr17	26652619	26652619	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttaagtcctttctgttttgcGagcttgtgtttcagctgcct	9	9	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:26652619G>T	uc002hat.2	+	2	362	c.217G>T	c.(217-219)GAG>TAG	p.E73*		NM_014573	NP_055388	Q5BJF2	TMM97_HUMAN	transmembrane protein 97	73	Helical; (Potential).				cholesterol homeostasis|regulation of cell growth	integral to membrane|lysosome|nuclear membrane|plasma membrane|rough endoplasmic reticulum	protein binding				0	all_lung(13;0.000238)|Lung NSC(42;0.000789)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		TCTGTTTTGCGAGCTTGTGTT	0.448													6	96	---	---	---	---	PASS	T	26652619	T	T	26652619	4	4	178	1	0	0	0	0	0	1	0	0	16221	1059	37	2	223	2	TMEM97	17	26652619	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	10623108	26652619	54542591	822	63775										
SPAG5	10615	broad.mit.edu	37	chr17	26906801	26906801	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gggaaaccattgatgctactCgggtgaaagcactcttgtca	11	9	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:26906801C>A	uc002hbq.2	-	17	2944	c.2852G>T	c.(2851-2853)CGA>CTA	p.R951L	ALDOC_uc002hbp.2_5'Flank|ALDOC_uc010cro.2_5'Flank	NM_006461	NP_006452	Q96R06	SPAG5_HUMAN	sperm associated antigen 5	951					cell division|mitosis|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytoplasm|spindle pole	protein binding			central_nervous_system(1)	1	Lung NSC(42;0.00431)					TGATGCTACTCGGGTGAAAGC	0.502													7	101	---	---	---	---	PASS	A	26906801	A	A	26906801	3	1	178	1	0	0	0	0	1	0	0	0	14981	884	31	2	761	2	SPAG5	17	26906801	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	254182	26906801	54288409	823	63776										
PHF12	57649	broad.mit.edu	37	chr17	27233933	27233933	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gggttggcggggtcttctccGagaagtcacatgaatacagc	14	9	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:27233933G>T	uc002hdg.1	-	14	3151	c.2621C>A	c.(2620-2622)TCG>TAG	p.S874*	PHF12_uc010wbb.1_Nonsense_Mutation_p.S856*	NM_001033561	NP_001028733	Q96QT6	PHF12_HUMAN	PHD finger protein 12 isoform 1	874					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	protein binding|zinc ion binding			ovary(1)	1	all_cancers(5;1.95e-14)|all_epithelial(6;5e-18)|Lung NSC(42;0.01)		Epithelial(11;1.64e-05)|all cancers(11;7.47e-05)|BRCA - Breast invasive adenocarcinoma(11;9.79e-05)			GGTCTTCTCCGAGAAGTCACA	0.507													5	87	---	---	---	---	PASS	T	27233933	T	T	27233933	4	4	178	1	0	0	0	0	0	1	0	0	11823	1059	37	2	401	2	PHF12	17	27233933	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	327132	27233933	53961277	824	63777										
TAOK1	57551	broad.mit.edu	37	chr17	27829707	27829707	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caaatcacactatcgtaatcGagaacactttgctactatac	4	11	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:27829707G>T	uc002hdz.1	+	13	1498	c.1304G>T	c.(1303-1305)CGA>CTA	p.R435L	TAOK1_uc010wbe.1_Missense_Mutation_p.R435L|TAOK1_uc010wbf.1_Missense_Mutation_p.R435L|TAOK1_uc002heb.1_Missense_Mutation_p.R261L	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	435					mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			TATCGTAATCGAGAACACTTT	0.398													6	71	---	---	---	---	PASS	T	27829707	T	T	27829707	3	4	178	1	0	0	0	0	1	0	0	0	15544	1058	37	2	1350	2	TAOK1	17	27829707	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	595774	27829707	53365503	825	63778										
CPD	1362	broad.mit.edu	37	chr17	28749923	28749923	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctgatatggaaatcttcttGagaaggtttgccaatgaata	9	6	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:28749923G>T	uc002hfb.1	+	5	1554	c.1539G>T	c.(1537-1539)TTG>TTT	p.L513F	CPD_uc010wbo.1_Missense_Mutation_p.L266F|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	513	Extracellular (Potential).|Carboxypeptidase-like 2.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						AAATCTTCTTGAGAAGGTTTG	0.393													7	102	---	---	---	---	PASS	T	28749923	T	T	28749923	3	4	178	1	0	0	0	0	1	0	0	0	3798	1281	45	2	1557	2	CPD	17	28749923	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	920216	28749923	52445287	826	63779										
PSMD11	5717	broad.mit.edu	37	chr17	30791091	30791091	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agctgtgtttagagtgcatcGaatgggccaagtcagagaaa	13	6	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:30791091G>T	uc010cta.1	+	4	383	c.343G>T	c.(343-345)GAA>TAA	p.E115*	PSMD11_uc010wbz.1_Nonsense_Mutation_p.E115*|PSMD11_uc002hhm.2_Nonsense_Mutation_p.E115*	NM_002815	NP_002806	O00231	PSD11_HUMAN	proteasome 26S non-ATPase subunit 11	115					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding			ovary(1)	1		Breast(31;0.159)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.109)			AGAGTGCATCGAATGGGCCAA	0.438													6	88	---	---	---	---	PASS	T	30791091	T	T	30791091	4	4	178	1	0	0	0	0	0	1	0	0	12694	1059	37	2	357	2	PSMD11	17	30791091	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2041168	30791091	50404119	827	63780										
LIG3	3980	broad.mit.edu	37	chr17	33319587	33319587	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctatgaagccttcaaagcctCgcgcaacctgcaggatgtgg	11	12	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:33319587C>A	uc002hik.1	+	8	1439	c.1331C>A	c.(1330-1332)TCG>TAG	p.S444*	LIG3_uc002hij.2_Nonsense_Mutation_p.S444*|LIG3_uc010cth.1_Nonsense_Mutation_p.S453*	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	444					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	TTCAAAGCCTCGCGCAACCTG	0.587								Other_BER_factors					5	71	---	---	---	---	PASS	A	33319587	A	A	33319587	4	1	178	1	0	0	0	0	0	1	0	0	8782	893	31	2	1357	2	LIG3	17	33319587	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2528496	33319587	47875623	828	63781										
PIGW	284098	broad.mit.edu	37	chr17	34893028	34893028	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctggaaatcacccagggattGtgctttcctgcattctgtat	9	10	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:34893028G>T	uc002hmy.1	+	2	121	c.78G>T	c.(76-78)TTG>TTT	p.L26F	MYO19_uc002hmw.2_5'Flank|MYO19_uc010cuu.2_5'Flank|MYO19_uc010wcy.1_5'Flank|MYO19_uc010wcz.1_5'Flank|MYO19_uc010wda.1_5'Flank|MYO19_uc002hmx.2_5'Flank|PIGW_uc002hmz.1_Missense_Mutation_p.L26F	NM_178517	NP_848612	Q7Z7B1	PIGW_HUMAN	phosphatidylinositol glycan, class W	26	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	O-acyltransferase activity				0		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCCAGGGATTGTGCTTTCCTG	0.433													6	78	---	---	---	---	PASS	T	34893028	T	T	34893028	3	4	178	1	0	0	0	0	1	0	0	0	11902	1368	48	3	80	3	PIGW	17	34893028	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1573441	34893028	46302182	829	63782										
GGNBP2	79893	broad.mit.edu	37	chr17	34934591	34934591	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcattgcacatcttttgggtCgtgctgagccagagttcgca	11	10	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:34934591C>A	uc002hnb.2	+	7	1069	c.820C>A	c.(820-822)CGT>AGT	p.R274S	GGNBP2_uc002hna.2_Missense_Mutation_p.R274S|GGNBP2_uc002hnc.1_Missense_Mutation_p.R103S	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	274					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		TCTTTTGGGTCGTGCTGAGCC	0.438													5	116	---	---	---	---	PASS	A	34934591	A	A	34934591	3	1	178	1	0	0	0	0	1	0	0	0	6359	884	31	2	842	2	GGNBP2	17	34934591	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	41563	34934591	46260619	830	63783										
MRPL45	84311	broad.mit.edu	37	chr17	36462506	36462506	+	Silent	SNP	G	A	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcttaattttacagaatccgGaggataaaagactatgatgc	9	6	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:36462506G>A	uc002hpy.2	+	4	521	c.369G>A	c.(367-369)CGG>CGA	p.R123R		NM_032351	NP_115727	Q9BRJ2	RM45_HUMAN	mitochondrial ribosomal protein L45 precursor	123					intracellular protein transport|translation	mitochondrial inner membrane presequence translocase complex|ribosome	P-P-bond-hydrolysis-driven protein transmembrane transporter activity|structural constituent of ribosome				0	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				ACAGAATCCGGAGGATAAAAG	0.358													12	81	---	---	---	---	PASS	A	36462506	A	A	36462506	2	1	178	1	0	0	0	0	0	0	0	1	9809	1161	41	2		2	MRPL45	17	36462506	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1527915	36462506	44732704	831	63784										
GPR179	440435	broad.mit.edu	37	chr17	36487046	36487046	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccctccaccgactcccggctCtctgttcgagaggccttctt	8	18	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:36487046C>A	uc002hpz.2	-	11	2427	c.2406G>T	c.(2404-2406)GAG>GAT	p.E802D		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	802	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				ACTCCCGGCTCTCTGTTCGAG	0.667													4	12	---	---	---	---	PASS	A	36487046	A	A	36487046	3	1	178	1	0	0	0	0	1	0	0	0	6674	912	32	2	4701	2	GPR179	17	36487046	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	24540	36487046	44708164	832	63785										
MED1	5469	broad.mit.edu	37	chr17	37571341	37571341	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcatccgacagccctttgtaGagtttacagctcacatgtgt	9	11	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:37571341G>T	uc002hrv.3	-	16	1649	c.1437C>A	c.(1435-1437)CTC>CTA	p.L479L	MED1_uc010wee.1_Silent_p.L307L|MED1_uc002hru.2_Silent_p.L479L	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	479	Interaction with ESR1.|Interaction with THRA.|Interaction with the Mediator complex and THRA.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		GCCCTTTGTAGAGTTTACAGC	0.408										HNSCC(31;0.082)			11	308	---	---	---	---	PASS	T	37571341	T	T	37571341	2	4	178	1	0	0	0	0	0	0	0	1	9425	929	33	2		2	MED1	17	37571341	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1084295	37571341	43623869	833	63786										
MED24	9862	broad.mit.edu	37	chr17	38191412	38191412	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtgcagcagggcccggttctTggtgctgctgagggttttct	16	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:38191412T>C	uc002htt.2	-	6	830	c.517A>G	c.(517-519)AAG>GAG	p.K173E	MED24_uc010wes.1_Missense_Mutation_p.K14E|MED24_uc010wet.1_RNA|MED24_uc002hts.2_Missense_Mutation_p.K198E|MED24_uc002htu.2_Missense_Mutation_p.K160E|MED24_uc010cwn.2_Missense_Mutation_p.K160E|MED24_uc010weu.1_Missense_Mutation_p.K83E|MED24_uc010wev.1_Missense_Mutation_p.K123E|MED24_uc010wew.1_Missense_Mutation_p.K102E|MED24_uc010wex.1_Intron|MED24_uc010wez.1_5'Flank|MED24_uc010wfa.1_Missense_Mutation_p.K123E|MED24_uc010wfb.1_Missense_Mutation_p.K185E|MED24_uc010wfc.1_Missense_Mutation_p.K110E	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	173					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)					GCCCGGTTCTTGGTGCTGCTG	0.642											OREG0024387	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	43	61	---	---	---	---	PASS	C	38191412	C	C	38191412	3	2	178	1	0	0	0	0	1	0	0	0	9442	1821	63	5	2536	5	MED24	17	38191412	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	620071	38191412	43003798	834	63787										
CCR7	1236	broad.mit.edu	37	chr17	38711930	38711930	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agtaggcccacgaaacaaatGatggagtacatgatagggag	13	6	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:38711930G>T	uc002huw.2	-	3	264	c.201C>A	c.(199-201)ATC>ATA	p.I67I		NM_001838	NP_001829	P32248	CCR7_HUMAN	chemokine (C-C motif) receptor 7 precursor	67	Helical; Name=1; (Potential).				cell maturation|immunological synapse formation|inflammatory response|interleukin-12 secretion|lymphocyte migration into lymph node|positive regulation of dendritic cell antigen processing and presentation|positive regulation of glycoprotein biosynthetic process|positive regulation of humoral immune response|positive regulation of hypersensitivity|positive regulation of interleukin-12 production|positive regulation of neutrophil chemotaxis|regulation of interferon-gamma production|regulation of interleukin-1 beta secretion|T cell costimulation	integral to membrane|intracellular	C-C chemokine receptor activity|chemokine (C-C motif) ligand 19 binding|chemokine (C-C motif) ligand 21 binding			breast(1)	1		Breast(137;0.000496)				CGAAACAAATGATGGAGTACA	0.493													8	52	---	---	---	---	PASS	T	38711930	T	T	38711930	2	4	178	1	0	0	0	0	0	0	0	1	2946	1280	45	2		2	CCR7	17	38711930	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	520518	38711930	42483280	835	63788										
CNTNAP1	8506	broad.mit.edu	37	chr17	40843900	40843900	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atccgtgccaaccacagcctGgatgtctccttctacttcag	7	15	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:40843900G>T	uc002iay.2	+	16	2637	c.2421G>T	c.(2419-2421)CTG>CTT	p.L807L	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	807	Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		ACCACAGCCTGGATGTCTCCT	0.577													10	130	---	---	---	---	PASS	T	40843900	T	T	40843900	2	4	178	1	0	0	0	0	0	0	0	1	3646	1335	47	3		3	CNTNAP1	17	40843900	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2131970	40843900	40351310	836	63789										
CNTD1	124817	broad.mit.edu	37	chr17	40955684	40955684	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggtgtctggagaaatctgtGagctaccaggctgtagaaat	13	6	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:40955684G>T	uc002ibm.3	+	2	448	c.216G>T	c.(214-216)GTG>GTT	p.V72V	CNTD1_uc010wha.1_5'UTR	NM_173478	NP_775749	Q8N815	CNTD1_HUMAN	cyclin N-terminal domain containing 1	72	Cyclin N-terminal.									central_nervous_system(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		AGAAATCTGTGAGCTACCAGG	0.423													8	179	---	---	---	---	PASS	T	40955684	T	T	40955684	2	4	178	1	0	0	0	0	0	0	0	1	3635	1277	45	2		2	CNTD1	17	40955684	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	111784	40955684	40239526	837	63790										
BECN1	8678	broad.mit.edu	37	chr17	40963737	40963737	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tttgaactgctgcacacagtCcaggaaagccaccattgcat	8	12	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:40963737C>A	uc002ibo.3	-	11	1255	c.1120G>T	c.(1120-1122)GAC>TAC	p.D374Y	BECN1_uc010whb.1_Missense_Mutation_p.D287Y|BECN1_uc010whc.1_Intron|BECN1_uc002ibn.2_Missense_Mutation_p.D374Y	NM_003766	NP_003757	Q14457	BECN1_HUMAN	beclin 1	374					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)		TGCACACAGTCCAGGAAAGCC	0.488													15	85	---	---	---	---	PASS	A	40963737	A	A	40963737	3	1	178	1	0	0	0	0	1	0	0	0	1396	855	30	2	240	2	BECN1	17	40963737	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	8053	40963737	40231473	838	63791										
GPATCH8	23131	broad.mit.edu	37	chr17	42478509	42478509	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaaactgatgctattgattcGagtttgacaggagccttttt	9	6	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:42478509G>T	uc002igw.1	-	8	1000	c.936C>A	c.(934-936)CTC>CTA	p.L312L	GPATCH8_uc002igv.1_Silent_p.L234L|GPATCH8_uc010wiz.1_Silent_p.L234L	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	312						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)		CTATTGATTCGAGTTTGACAG	0.463											OREG0024461	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	244	---	---	---	---	PASS	T	42478509	T	T	42478509	2	4	178	1	0	0	0	0	0	0	0	1	6594	1045	37	2		2	GPATCH8	17	42478509	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1514772	42478509	38716701	839	63792										
CA10	56934	broad.mit.edu	37	chr17	50008415	50008415	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaagatcatgtgactggtctCtatgttgactggcgactgcc	12	9	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:50008415C>A	uc002itw.3	-	3	1200	c.214G>T	c.(214-216)GAG>TAG	p.E72*	CA10_uc002itv.3_Nonsense_Mutation_p.E78*|CA10_uc002itx.3_Nonsense_Mutation_p.E72*|CA10_uc002ity.3_Nonsense_Mutation_p.E72*|CA10_uc002itz.2_Nonsense_Mutation_p.E72*	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	72					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			TGACTGGTCTCTATGTTGACT	0.468													9	160	---	---	---	---	PASS	A	50008415	A	A	50008415	4	1	178	1	0	0	0	0	0	1	0	0	2511	922	32	2	800	2	CA10	17	50008415	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	7529906	50008415	31186795	840	63793										
DGKE	8526	broad.mit.edu	37	chr17	54912188	54912188	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaggcggccggcgccgggctCgccctccgagggcctgtttg	18	15	0	0	rs148605410		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:54912188C>A	uc002iur.2	+	2	212	c.32C>A	c.(31-33)TCG>TAG	p.S11*	DGKE_uc002ius.1_Nonsense_Mutation_p.S11*|C17orf67_uc002iuq.2_5'Flank	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	11					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)					GCGCCGGGCTCGCCCTCCGAG	0.647													6	139	---	---	---	---	PASS	A	54912188	A	A	54912188	4	1	178	1	0	0	0	0	0	1	0	0	4468	893	31	2	34	2	DGKE	17	54912188	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4903773	54912188	26283022	841	63794										
PPM1E	22843	broad.mit.edu	37	chr17	57050227	57050227	+	Missense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aattgaggcccttggaggttGcgtagtctggtttggtgcct	15	7	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:57050227G>A	uc002iwx.2	+	6	1278	c.1151G>A	c.(1150-1152)TGC>TAC	p.C384Y	PPM1E_uc010ddd.2_Missense_Mutation_p.C147Y	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	393	PP2C-like.				protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			CTTGGAGGTTGCGTAGTCTGG	0.403													23	97	---	---	---	---	PASS	A	57050227	A	A	57050227	3	1	178	1	0	0	0	0	1	0	0	0	12338	1319	46	3	1173	3	PPM1E	17	57050227	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2138039	57050227	24144983	842	63795										
CLTC	1213	broad.mit.edu	37	chr17	57728613	57728613	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tacagggaaccagccctttcCaaagaaggcagtggatgtct	11	10	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:57728613C>A	uc002ixq.1	+	5	1174	c.731C>A	c.(730-732)CCA>CAA	p.P244Q	CLTC_uc002ixp.2_Missense_Mutation_p.P244Q|CLTC_uc002ixr.1_Missense_Mutation_p.P248Q	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	244	Globular terminal domain.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					CAGCCCTTTCCAAAGAAGGCA	0.259			T	ALK|TFE3	ALCL|renal 								8	203	---	---	---	---	PASS	A	57728613	A	A	57728613	3	1	178	1	0	0	0	0	1	0	0	0	3566	594	21	3	749	3	CLTC	17	57728613	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	678386	57728613	23466597	843	63796										
CLTC	1213	broad.mit.edu	37	chr17	57762524	57762524	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aggagaattgctgcttatctCttcaaaggcaacaatcgctg	9	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:57762524C>A	uc002ixq.1	+	29	4985	c.4542C>A	c.(4540-4542)CTC>CTA	p.L1514L	CLTC_uc002ixp.2_Silent_p.L1514L|CLTC_uc002ixr.1_Silent_p.L1518L	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	1514	Heavy chain arm.|Proximal segment.|Involved in binding clathrin light chain (By similarity).				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					CTGCTTATCTCTTCAAAGGCA	0.423			T	ALK|TFE3	ALCL|renal 								9	116	---	---	---	---	PASS	A	57762524	A	A	57762524	2	1	178	1	0	0	0	0	0	0	0	1	3566	900	32	2		2	CLTC	17	57762524	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	33911	57762524	23432686	844	63797										
DDX42	11325	broad.mit.edu	37	chr17	61889361	61889361	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtaaatggaactggcttaccCggcgtctggtagaatttacc	11	9	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:61889361C>G	uc002jbu.2	+	15	1725	c.1468C>G	c.(1468-1470)CGG>GGG	p.R490G	DDX42_uc002jbv.2_Missense_Mutation_p.R490G|DDX42_uc002jbw.1_Missense_Mutation_p.R226G|DDX42_uc002jbx.2_Missense_Mutation_p.R226G|DDX42_uc002jby.2_Missense_Mutation_p.R36G	NM_007372	NP_031398	Q86XP3	DDX42_HUMAN	DEAD box polypeptide 42 protein	490	Helicase C-terminal.				protein localization|regulation of anti-apoptosis	Cajal body|cytoplasm|nuclear speck	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)|large_intestine(1)	5						CTGGCTTACCCGGCGTCTGGT	0.433													5	199	---	---	---	---	PASS	G	61889361	G	G	61889361	3	3	178	1	0	0	0	0	1	0	0	0	4362	643	23	4	1518	4	DDX42	17	61889361	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4126837	61889361	19305849	845	63798										
ABCA10	10349	broad.mit.edu	37	chr17	67150376	67150376	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttccttcacatgtcacatacCactcctgcagttggctttgt	6	13	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr17:67150376C>A	uc010dfa.1	-	32	4665	c.3786G>T	c.(3784-3786)GTG>GTT	p.V1262V	ABCA10_uc010wqs.1_Silent_p.V254V|ABCA10_uc010wqt.1_RNA	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	1262	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TGTCACATACCACTCCTGCAG	0.323													9	74	---	---	---	---	PASS	A	67150376	A	A	67150376	2	1	178	1	0	0	0	0	0	0	0	1	29	608	21	3		3	ABCA10	17	67150376	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	5261015	67150376	14044834	846	63799										
USP14	9097	broad.mit.edu	37	chr18	210396	210396	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctttctttagatattggctcCaataattgtggatactatga	7	6	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:210396C>A	uc002kkf.1	+	15	1452	c.1236C>A	c.(1234-1236)TCC>TCA	p.S412S	USP14_uc002kkg.1_Silent_p.S377S|USP14_uc010wyr.1_Silent_p.S401S	NM_005151	NP_005142	P54578	UBP14_HUMAN	ubiquitin specific protease 14 isoform a	412					regulation of chemotaxis|regulation of proteasomal protein catabolic process|ubiquitin-dependent protein catabolic process	cell surface|cytoplasmic membrane-bounded vesicle|plasma membrane|proteasome complex	cysteine-type endopeptidase activity|endopeptidase inhibitor activity|proteasome binding|tRNA guanylyltransferase activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)	2		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				ATATTGGCTCCAATAATTGTG	0.348													7	110	---	---	---	---	PASS	A	210396	A	A	210396	2	1	178	1	0	0	0	0	0	0	0	1	17042	581	21	3		3	USP14	18	210396	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08		210396	77866852	847	63800										
COLEC12	81035	broad.mit.edu	37	chr18	333036	333036	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tctagtgtttatgaaaacaaGatgtgaagacttgtcttcac	8	6	3	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:333036G>C	uc002kkm.2	-	7	2139	c.1924C>G	c.(1924-1926)CTT>GTT	p.L642V		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	642	Extracellular (Potential).|C-type lectin.				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				ATGAAAACAAGATGTGAAGAC	0.378													21	77	---	---	---	---	PASS	C	333036	C	C	333036	3	2	178	1	0	0	0	0	1	0	0	0	3712	942	33	2	320	2	COLEC12	18	333036	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	122640	333036	77744212	848	63801										
CLUL1	27098	broad.mit.edu	37	chr18	627165	627165	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaagataatgaaaaagatctCcccatcagtgaaaagctcat	7	8	3	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:627165C>A	uc002kkp.2	+	5	637	c.492C>A	c.(490-492)CTC>CTA	p.L164L	CLUL1_uc010wys.1_Silent_p.L216L|CLUL1_uc002kkq.2_Silent_p.L164L	NM_014410	NP_055225	Q15846	CLUL1_HUMAN	clusterin-like 1 (retinal) precursor	164					cell death	extracellular region				ovary(2)	2						AAAAAGATCTCCCCATCAGTG	0.393													7	99	---	---	---	---	PASS	A	627165	A	A	627165	2	1	178	1	0	0	0	0	0	0	0	1	3570	842	30	2		2	CLUL1	18	627165	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	294129	627165	77450083	849	63802										
MYOM1	8736	broad.mit.edu	37	chr18	3086126	3086126	+	Silent	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tctttgtaccacacaatatgAgtctccttcttaatatttgc	4	10	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:3086126A>G	uc002klp.2	-	30	4495	c.4161T>C	c.(4159-4161)ACT>ACC	p.T1387T	MYOM1_uc002klq.2_Silent_p.T1291T	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	1387	Ig-like C2-type 4.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						ACACAATATGAGTCTCCTTCT	0.358													13	89	---	---	---	---	PASS	G	3086126	G	G	3086126	2	3	178	1	0	0	0	0	0	0	0	1	10091	291	11	5		5	MYOM1	18	3086126	Silent	SNP	A	TCGA-85-6561-01A-11D-1817-08	2458961	3086126	74991122	850	63803										
MYOM1	8736	broad.mit.edu	37	chr18	3142053	3142053	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtctgtcggggggccaggcaCaataccctctgaaaaacaac	11	12	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:3142053C>A	uc002klp.2	-	14	2243	c.1909G>T	c.(1909-1911)GTG>TTG	p.V637L	MYOM1_uc002klq.2_Missense_Mutation_p.V637L	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	637						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GGGCCAGGCACAATACCCTCT	0.557													5	47	---	---	---	---	PASS	A	3142053	A	A	3142053	3	1	178	1	0	0	0	0	1	0	0	0	10091	478	17	3	3248	3	MYOM1	18	3142053	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	55927	3142053	74935195	851	63804										
L3MBTL4	91133	broad.mit.edu	37	chr18	6237993	6237993	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tatcagagttcttccattctCctgacaccaaccaactggct	5	14	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:6237993C>A	uc002kmz.3	-	10	914	c.754G>T	c.(754-756)GAG>TAG	p.E252*	L3MBTL4_uc010dkt.2_Nonsense_Mutation_p.E252*|L3MBTL4_uc002kmy.3_Nonsense_Mutation_p.E90*	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	252	MBT 2.				chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				CTTCCATTCTCCTGACACCAA	0.443													7	102	---	---	---	---	PASS	A	6237993	A	A	6237993	4	1	178	1	0	0	0	0	0	1	0	0	8594	864	30	2	1161	2	L3MBTL4	18	6237993	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3095940	6237993	71839255	852	63805										
PTPRM	5797	broad.mit.edu	37	chr18	8370999	8370999	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgataagaacatttgctgttGaaaaggtaagttttcatact	8	4	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:8370999G>C	uc002knn.3	+	22	3630	c.3127G>C	c.(3127-3129)GAA>CAA	p.E1043Q	PTPRM_uc010dkv.2_Missense_Mutation_p.E1056Q|PTPRM_uc010wzl.1_Missense_Mutation_p.E830Q	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1043	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				ATTTGCTGTTGAAAAGGTAAG	0.353													9	66	---	---	---	---	PASS	C	8370999	C	C	8370999	3	2	178	1	0	0	0	0	1	0	0	0	12806	1291	45	2	3260	2	PTPRM	18	8370999	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2133006	8370999	69706249	853	63806										
NDUFV2	4729	broad.mit.edu	37	chr18	9126889	9126889	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agctcaaggctggcaaaatcCcaaaaccagggccaaggtat	10	11	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:9126889C>A	uc002knu.2	+	7	707	c.640C>A	c.(640-642)CCA>ACA	p.P214T		NM_021074	NP_066552	P19404	NDUV2_HUMAN	NADH dehydrogenase ubiquinone flavoprotein 2	214					cardiac muscle tissue development|mitochondrial electron transport, NADH to ubiquinone|nervous system development|transport	mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|electron carrier activity|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity			ovary(1)	1					NADH(DB00157)	TGGCAAAATCCCAAAACCAGG	0.299													10	335	---	---	---	---	PASS	A	9126889	A	A	9126889	3	1	178	1	0	0	0	0	1	0	0	0	10300	623	22	3	666	3	NDUFV2	18	9126889	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	755890	9126889	68950359	854	63807										
VAPA	9218	broad.mit.edu	37	chr18	9954179	9954179	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taattgcagccattttcattGgattctttctagggaaattc	7	7	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:9954179G>T	uc002kok.2	+	6	1020	c.721G>T	c.(721-723)GGA>TGA	p.G241*	VAPA_uc002koj.2_Nonsense_Mutation_p.G286*	NM_194434	NP_919415	Q9P0L0	VAPA_HUMAN	vesicle-associated membrane protein-associated	241	Helical; Anchor for type IV membrane protein; (Potential).				cell death|cellular membrane fusion|neuron projection development|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein localization in endoplasmic reticulum|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane|vesicle	protein heterodimerization activity|signal transducer activity|structural molecule activity				0						CATTTTCATTGGATTCTTTCT	0.378													11	189	---	---	---	---	PASS	T	9954179	T	T	9954179	4	4	178	1	0	0	0	0	0	1	0	0	17118	1349	47	3	882	3	VAPA	18	9954179	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	827290	9954179	68123069	855	63808										
RNMT	8731	broad.mit.edu	37	chr18	13731773	13731773	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caagaagagaaaacttgatcCtgaaattgtcccagaggaaa	9	7	0	5			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:13731773C>A	uc002ksk.1	+	2	324	c.257C>A	c.(256-258)CCT>CAT	p.P86H	RNMT_uc002ksl.1_Missense_Mutation_p.P86H|RNMT_uc002ksm.1_Missense_Mutation_p.P86H|RNMT_uc010dlk.2_Missense_Mutation_p.P86H|RNMT_uc010xae.1_Intron	NM_003799	NP_003790	O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	86					mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	mRNA (guanine-N7-)-methyltransferase activity|RNA binding				0						AAACTTGATCCTGAAATTGTC	0.363													7	100	---	---	---	---	PASS	A	13731773	A	A	13731773	3	1	178	1	0	0	0	0	1	0	0	0	13506	681	24	3	259	3	RNMT	18	13731773	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3777594	13731773	64345475	856	63809										
LAMA3	3909	broad.mit.edu	37	chr18	21328024	21328024	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caccatggcaatattttgctCgtaagtaatcttgcctacca	6	11	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:21328024C>A	uc002kuq.2	+	3	651	c.565C>A	c.(565-567)CAT>AAT	p.H189N	LAMA3_uc010dlv.1_Missense_Mutation_p.H189N|LAMA3_uc002kur.2_Missense_Mutation_p.H189N	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	189	Laminin N-terminal.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATATTTTGCTCGTAAGTAATC	0.323													5	81	---	---	---	---	PASS	A	21328024	A	A	21328024	3	1	178	1	0	0	0	0	1	0	0	0	8607	898	31	2	575	2	LAMA3	18	21328024	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	7596251	21328024	56749224	857	63810										
LAMA3	3909	broad.mit.edu	37	chr18	21508596	21508596	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtttgcatttcagcttgtgcGatctgcctcattctccagag	9	11	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:21508596G>T	uc002kuq.2	+	64	8389	c.8303G>T	c.(8302-8304)CGA>CTA	p.R2768L	LAMA3_uc002kur.2_Missense_Mutation_p.R2712L|LAMA3_uc002kus.3_Missense_Mutation_p.R1159L|LAMA3_uc002kut.3_Missense_Mutation_p.R1103L	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	2768	Laminin G-like 3.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAGCTTGTGCGATCTGCCTCA	0.418													5	103	---	---	---	---	PASS	T	21508596	T	T	21508596	3	4	178	1	0	0	0	0	1	0	0	0	8607	1058	37	2	8732	2	LAMA3	18	21508596	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	180572	21508596	56568652	858	63811										
IMPACT	55364	broad.mit.edu	37	chr18	22007948	22007948	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtgtcattgatgactgtgcCaaaatattttgtattagaat	8	4	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:22007948C>A	uc002kvh.3	+	2	214	c.102C>A	c.(100-102)GCC>GCA	p.A34A	IMPACT_uc002kvg.3_Silent_p.A16A	NM_018439	NP_060909	Q9P2X3	IMPCT_HUMAN	Impact homolog	34	RWD.										0	all_cancers(21;0.00018)|all_epithelial(16;1.5e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)					ATGACTGTGCCAAAATATTTT	0.388													8	156	---	---	---	---	PASS	A	22007948	A	A	22007948	2	1	178	1	0	0	0	0	0	0	0	1	7724	581	21	3		3	IMPACT	18	22007948	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	499352	22007948	56069300	859	63812										
TAF4B	6875	broad.mit.edu	37	chr18	23873404	23873404	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttatagcttccattctaaagCaaattactctgcctggaaat	5	9	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:23873404C>A	uc002kvu.3	+	9	2230	c.1741C>A	c.(1741-1743)CAA>AAA	p.Q581K	TAF4B_uc002kvs.3_RNA|TAF4B_uc002kvt.3_Missense_Mutation_p.Q586K	NM_005640	NP_005631	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding	581					transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			CATTCTAAAGCAAATTACTCT	0.308													10	79	---	---	---	---	PASS	A	23873404	A	A	23873404	3	1	178	1	0	0	0	0	1	0	0	0	15524	711	25	3	1775	3	TAF4B	18	23873404	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1865456	23873404	54203844	860	63813										
DSC1	1823	broad.mit.edu	37	chr18	28710517	28710517	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgctaatgtcctaaatttgGgttccaggtgatctagaaac	9	7	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:28710517G>T	uc002kwn.2	-	16	2907	c.2645C>A	c.(2644-2646)CCC>CAC	p.P882H	DSC1_uc002kwm.2_3'UTR|uc002kwo.1_5'Flank	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	882	Cytoplasmic (Potential).				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			CCTAAATTTGGGTTCCAGGTG	0.418													7	135	---	---	---	---	PASS	T	28710517	T	T	28710517	3	4	178	1	0	0	0	0	1	0	0	0	4765	1232	43	3	43	3	DSC1	18	28710517	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	4837113	28710517	49366731	861	63814										
INO80C	125476	broad.mit.edu	37	chr18	33048590	33048590	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggggctcagggaacgatgctCgtggccttcctcagggccag	16	12	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:33048590C>A	uc002kyy.3	-	5	681	c.564G>T	c.(562-564)ACG>ACT	p.T188T	INO80C_uc002kyw.1_Intron|INO80C_uc002kyx.3_Silent_p.T133T|INO80C_uc010dmt.2_Silent_p.T224T	NM_194281	NP_919257	Q6PI98	IN80C_HUMAN	Ies6-similar protein isoform 2	188					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex|MLL1 complex					0						GAACGATGCTCGTGGCCTTCC	0.522													6	137	---	---	---	---	PASS	A	33048590	A	A	33048590	2	1	178	1	0	0	0	0	0	0	0	1	7748	871	31	2		2	INO80C	18	33048590	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	4338073	33048590	45028658	862	63815										
SLC14A2	8170	broad.mit.edu	37	chr18	43207095	43207095	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtctcgaccttaacagctctCgccttgggccaagacaggtg	11	13	2	1	rs147874580		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:43207095C>A	uc010dnj.2	+	5	825	c.504C>A	c.(502-504)CTC>CTA	p.L168L	SLC14A2_uc002lbb.2_Silent_p.L168L|SLC14A2_uc002lbe.2_Silent_p.L168L	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	168	Helical; (Potential).					apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						TAACAGCTCTCGCCTTGGGCC	0.517													5	49	---	---	---	---	PASS	A	43207095	A	A	43207095	2	1	178	1	0	0	0	0	0	0	0	1	14397	871	31	2		2	SLC14A2	18	43207095	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	10158505	43207095	34870153	863	63816										
KIAA1632	57724	broad.mit.edu	37	chr18	43459008	43459008	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctggcagttgggtcttgggCcaaacaggtcatttctaagt	13	8	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:43459008C>A	uc002lbm.2	-	33	5939	c.5839G>T	c.(5839-5841)GCC>TCC	p.A1947S	KIAA1632_uc010xcq.1_Missense_Mutation_p.A501S|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.A822S	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1947					autophagy						0						GGGTCTTGGGCCAAACAGGTC	0.418													5	71	---	---	---	---	PASS	A	43459008	A	A	43459008	3	1	178	1	0	0	0	0	1	0	0	0	8249	739	26	3	1948	3	KIAA1632	18	43459008	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	251913	43459008	34618240	864	63817										
C18orf25	147339	broad.mit.edu	37	chr18	43796094	43796094	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgacaagcctacaactggccGagtttatgagagtgactcct	10	10	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:43796094G>T	uc002lbw.2	+	2	627	c.248G>T	c.(247-249)CGA>CTA	p.R83L	C18orf25_uc002lbx.2_Missense_Mutation_p.R83L	NM_145055	NP_659492	Q96B23	CR025_HUMAN	ARKadia-like 1 isoform a	83										central_nervous_system(2)	2						ACAACTGGCCGAGTTTATGAG	0.468													5	106	---	---	---	---	PASS	T	43796094	T	T	43796094	3	4	178	1	0	0	0	0	1	0	0	0	1899	1058	37	2	250	2	C18orf25	18	43796094	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	337086	43796094	34281154	865	63818										
DCC	1630	broad.mit.edu	37	chr18	50961579	50961579	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgatagaagcaccctaaatGgtaagtatataaattaggta	8	4	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:50961579G>T	uc002lfe.1	+	22	3816	c.3229G>T	c.(3229-3231)GAG>TAG	p.E1077*	DCC_uc010dpf.1_Nonsense_Mutation_p.E712*	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1077	Extracellular (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		CACCCTAAATGGTAAGTATAT	0.353													9	231	---	---	---	---	PASS	T	50961579	T	T	50961579	4	4	178	1	0	0	0	0	0	1	0	0	4282	1362	47	3	3315	3	DCC	18	50961579	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	7165485	50961579	27115669	866	63819										
C18orf26	284254	broad.mit.edu	37	chr18	52265134	52265134	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taatgacagcaattggagtaCttataatatgcttggtgaat	9	4	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:52265134C>A	uc002lfq.1	+	3	437	c.391C>A	c.(391-393)CTT>ATT	p.L131I	C18orf26_uc002lfp.1_Missense_Mutation_p.L79I	NM_173629	NP_775900	Q8N1N2	CR026_HUMAN	hypothetical protein LOC284254	131	Helical; (Potential).					integral to membrane					0				Colorectal(16;0.0193)|READ - Rectum adenocarcinoma(59;0.178)		AATTGGAGTACTTATAATATG	0.418													6	84	---	---	---	---	PASS	A	52265134	A	A	52265134	3	1	178	1	0	0	0	0	1	0	0	0	1900	565	20	3	401	3	C18orf26	18	52265134	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1303555	52265134	25812114	867	63820										
ATP8B1	5205	broad.mit.edu	37	chr18	55362765	55362765	+	Splice_Site	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taaattttaaattggtttctCtaaaggaatggggaaaaaat	8	2	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:55362765C>A	uc002lgw.2	-	8	699	c.699_splice	c.e8-1	p.G233_splice	uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1						ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				ATTGGTTTCTCTAAAGGAATG	0.338									Byler_disease				6	65	---	---	---	---	PASS	A	55362765	A	A	55362765	5	1	178	1	0	0	0	0	0	0	1	0	1194	927	32	2	3137	2	ATP8B1	18	55362765	Splice_Site	SNP	C	TCGA-85-6561-01A-11D-1817-08	3097631	55362765	22714483	868	63821										
MC4R	4160	broad.mit.edu	37	chr18	58039353	58039353	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agatgaaaaagtacatgggtGaatgcagattcttgttcttg	11	4	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:58039353G>T	uc002lie.1	-	1	649	c.230C>A	c.(229-231)TCA>TAA	p.S77*		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	77	Cytoplasmic (Potential).				feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)				GTACATGGGTGAATGCAGATT	0.428													6	44	---	---	---	---	PASS	T	58039353	T	T	58039353	4	4	178	1	0	0	0	0	0	1	0	0	9366	1294	45	2	772	2	MC4R	18	58039353	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2676588	58039353	20037895	869	63822										
CDH20	28316	broad.mit.edu	37	chr18	59217418	59217418	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctcccagtcagtttgagccGgggcgccctcattgccatcc	11	16	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:59217418G>C	uc010dps.1	+	10	1868	c.1856G>C	c.(1855-1857)CGG>CCG	p.R619P	CDH20_uc002lif.2_Missense_Mutation_p.R613P	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	619	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				AGTTTGAGCCGGGGCGCCCTC	0.587													4	55	---	---	---	---	PASS	C	59217418	C	C	59217418	3	2	178	1	0	0	0	0	1	0	0	0	3106	1116	39	4	1894	4	CDH20	18	59217418	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1178065	59217418	18859830	870	63823										
DSEL	92126	broad.mit.edu	37	chr18	65179108	65179108	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggagtaaacgaaaatgcccaCtgcggatatctgacaccttc	9	11	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:65179108C>A	uc002lke.1	-	2	3992	c.2768G>T	c.(2767-2769)AGT>ATT	p.S923I		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	913						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				AAAATGCCCACTGCGGATATC	0.428													5	42	---	---	---	---	PASS	A	65179108	A	A	65179108	3	1	178	1	0	0	0	0	1	0	0	0	4775	565	20	3	904	3	DSEL	18	65179108	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	5961690	65179108	12898140	871	63824										
FBXO15	201456	broad.mit.edu	37	chr18	71740764	71740764	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaggaccaggttgacaataaGgtattcttcggtctctctga	10	8	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:71740764G>T	uc002lle.2	-	10	1573	c.1237C>A	c.(1237-1239)CTT>ATT	p.L413I	FBXO15_uc002lld.2_RNA|FBXO15_uc002llf.2_Missense_Mutation_p.L489I	NM_152676	NP_689889	Q8NCQ5	FBX15_HUMAN	F-box protein 15 isoform 1	413										ovary(2)|pancreas(1)	3		Esophageal squamous(42;0.103)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.143)		TTGACAATAAGGTATTCTTCG	0.433													7	118	---	---	---	---	PASS	T	71740764	T	T	71740764	3	4	178	1	0	0	0	0	1	0	0	0	5728	1000	35	3	71	3	FBXO15	18	71740764	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6561656	71740764	6336484	872	63825										
ZNF236	7776	broad.mit.edu	37	chr18	74622034	74622034	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcatcctcagatgggtttgtGgctccacaggaccctctgcg	11	13	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr18:74622034G>T	uc002lmi.2	+	15	2754	c.2556G>T	c.(2554-2556)GTG>GTT	p.V852V	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	852					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		ATGGGTTTGTGGCTCCACAGG	0.512													10	31	---	---	---	---	PASS	T	74622034	T	T	74622034	2	4	178	1	0	0	0	0	0	0	0	1	17786	1335	47	3		3	ZNF236	18	74622034	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2881270	74622034	3455214	873	63826										
PALM	5064	broad.mit.edu	37	chr19	734187	734187	+	Silent	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgcagacgccggtgggcacGcccaaaggtaggacctctgg	15	12	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:734187G>A	uc002lpm.1	+	6	629	c.435G>A	c.(433-435)ACG>ACA	p.T145T	PALM_uc010xft.1_Silent_p.T145T|PALM_uc002lpn.1_Silent_p.T145T|PALM_uc010xfu.1_Silent_p.T10T	NM_002579	NP_002570	O75781	PALM_HUMAN	paralemmin isoform 1	145					cellular component movement|negative regulation of adenylate cyclase activity|negative regulation of dopamine receptor signaling pathway|positive regulation of filopodium assembly|regulation of cell shape	cytoplasmic membrane-bounded vesicle|filopodium membrane|integral to plasma membrane					0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)|Lung(535;0.201)		CGGTGGGCACGCCCAAAGGTA	0.632													11	36	---	---	---	---	PASS	A	734187	A	A	734187	2	1	178	1	0	0	0	0	0	0	0	1	11408	1074	38	1		1	PALM	19	734187	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08		734187	58394796	874	63827										
DOT1L	84444	broad.mit.edu	37	chr19	2185887	2185887	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaaatcccggatctcaagctCgctatggagaattacgtttt	9	9	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:2185887C>A	uc002lvb.3	+	3	195	c.159C>A	c.(157-159)CTC>CTA	p.L53L		NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	53						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATCTCAAGCTCGCTATGGAGA	0.438													8	339	---	---	---	---	PASS	A	2185887	A	A	2185887	2	1	178	1	0	0	0	0	0	0	0	1	4709	871	31	2		2	DOT1L	19	2185887	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1451700	2185887	56943096	875	63828										
C19orf35	374872	broad.mit.edu	37	chr19	2276431	2276431	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagattgaagtgtggagacaGggaggcctgcagctccaggc	16	9	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:2276431G>C	uc002lvn.2	-	4	770	c.670C>G	c.(670-672)CTG>GTG	p.L224V	SPPL2B_uc010dsw.1_Intron	NM_198532	NP_940934	Q6ZS72	CS035_HUMAN	hypothetical protein LOC374872	224										pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGTGGAGACAGGGAGGCCTGC	0.721													3	17	---	---	---	---	PASS	C	2276431	C	C	2276431	3	2	178	1	0	0	0	0	1	0	0	0	1920	991	35	4	755	4	C19orf35	19	2276431	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	90544	2276431	56852552	876	63829										
GTF2F1	2962	broad.mit.edu	37	chr19	6392877	6392877	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggggacttacttaggaactCgaacgacgtattcagtgaca	11	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:6392877C>A	uc002meq.2	-	2	335	c.50G>T	c.(49-51)CGA>CTA	p.R17L	GTF2F1_uc010xjc.1_5'Flank	NM_002096	NP_002087	P35269	T2FA_HUMAN	general transcription factor IIF, polypeptide 1,	17					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|response to virus|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cell junction|transcription factor TFIIF complex	catalytic activity|DNA binding|phosphatase activator activity|transcription coactivator activity|transcription factor binding				0						CTTAGGAACTCGAACGACGTA	0.582											OREG0025199	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	120	---	---	---	---	PASS	A	6392877	A	A	6392877	3	1	178	1	0	0	0	0	1	0	0	0	6858	884	31	2	1551	2	GTF2F1	19	6392877	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4116446	6392877	52736106	877	63830										
CD209	30835	broad.mit.edu	37	chr19	7812213	7812213	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgctaagctcttgtatcctcGagtctgtcggaatccaaggc	10	11	2	0	rs147713865		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:7812213G>T	uc002mht.2	-	2	152	c.85C>A	c.(85-87)CGA>AGA	p.R29R	CD209_uc010xju.1_Silent_p.R29R|CD209_uc010dvp.2_Silent_p.R29R|CD209_uc002mhr.2_Silent_p.R29R|CD209_uc002mhs.2_Silent_p.R29R|CD209_uc002mhu.2_Silent_p.R29R|CD209_uc010dvq.2_Silent_p.R29R|CD209_uc002mhq.2_Silent_p.R29R|CD209_uc002mhv.2_Silent_p.R29R|CD209_uc002mhx.2_Intron|CD209_uc002mhw.2_Intron|CD209_uc010dvr.2_Silent_p.R29R	NM_021155	NP_066978	Q9NNX6	CD209_HUMAN	CD209 molecule isoform 1	29	Cytoplasmic (Probable).				cell-cell recognition|endocytosis|heterophilic cell-cell adhesion|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to membrane|plasma membrane	mannose binding|metal ion binding|peptide antigen binding|receptor activity|virion binding			skin(1)	1						TTGTATCCTCGAGTCTGTCGG	0.383													10	237	---	---	---	---	PASS	T	7812213	T	T	7812213	2	4	178	1	0	0	0	0	0	0	0	1	2984	1066	37	2		2	CD209	19	7812213	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1419336	7812213	51316770	878	63831										
HNRNPM	4670	broad.mit.edu	37	chr19	8550698	8550698	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cgcatgggcccgctgggcctCgaccacatggcctccagcat	12	17	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:8550698C>A	uc010dwe.2	+	14	1466	c.1386C>A	c.(1384-1386)CTC>CTA	p.L462L	HNRNPM_uc010xke.1_Silent_p.L408L|HNRNPM_uc010dwd.2_Silent_p.L423L|HNRNPM_uc002mka.2_Silent_p.L327L|HNRNPM_uc002mkb.1_5'Flank	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	462	27 X 6 AA repeats of [GEVSTPAN]-[ILMV]- [DE]-[RH]-[MLVI]-[GAV].|9.				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						CGCTGGGCCTCGACCACATGG	0.687													4	37	---	---	---	---	PASS	A	8550698	A	A	8550698	2	1	178	1	0	0	0	0	0	0	0	1	7271	871	31	2		2	HNRNPM	19	8550698	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	738485	8550698	50578285	879	63832										
DOCK6	57572	broad.mit.edu	37	chr19	11332606	11332606	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agctcggccacacgagccttCacagtggcctcggcgtagcg	13	15	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:11332606C>T	uc002mqs.3	-	28	3512	c.3471G>A	c.(3469-3471)GTG>GTA	p.V1157V	DOCK6_uc010xlq.1_Silent_p.V496V	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1157					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CACGAGCCTTCACAGTGGCCT	0.592													8	40	---	---	---	---	PASS	T	11332606	T	T	11332606	2	4	178	1	0	0	0	0	0	0	0	1	4691	813	29	2		2	DOCK6	19	11332606	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	2781908	11332606	47796377	880	63833										
ZNF442	79973	broad.mit.edu	37	chr19	12461930	12461930	+	Nonsense_Mutation	SNP	G	A	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attgaaggctgtcccacattGtttatgtgtatgtggcttct	10	7	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:12461930G>A	uc002mtr.1	-	6	1080	c.469C>T	c.(469-471)CAA>TAA	p.Q157*	ZNF442_uc010xmk.1_Nonsense_Mutation_p.Q88*	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	157					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						GTCCCACATTGTTTATGTGTA	0.403													20	87	---	---	---	---	PASS	A	12461930	A	A	12461930	4	1	178	1	0	0	0	0	0	1	0	0	17912	1386	48	3	1418	3	ZNF442	19	12461930	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1129324	12461930	46667053	881	63834										
DHPS	1725	broad.mit.edu	37	chr19	12790661	12790661	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttccccctgaggctaaactCgcccaagtatgtgggcgcca	10	15	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:12790661C>A	uc002muh.1	-	3	545	c.448G>T	c.(448-450)GAG>TAG	p.E150*	DHPS_uc002muf.1_Nonsense_Mutation_p.E27*|DHPS_uc002mug.1_Nonsense_Mutation_p.E108*|DHPS_uc002mui.1_Nonsense_Mutation_p.E150*|DHPS_uc002muj.1_Nonsense_Mutation_p.E150*|DHPS_uc002muk.1_RNA|DHPS_uc010xmn.1_RNA	NM_001930	NP_001921	P49366	DHYS_HUMAN	deoxyhypusine synthase isoform a	150					peptidyl-lysine modification to hypusine|positive regulation of cell proliferation|post-translational protein modification|spermidine catabolic process to deoxyhypusine, using deoxyhypusine synthase|translation	cytosol	deoxyhypusine synthase activity|protein binding			central_nervous_system(1)	1					Sulfadoxine(DB01299)	AGGCTAAACTCGCCCAAGTAT	0.607													4	46	---	---	---	---	PASS	A	12790661	A	A	12790661	4	1	178	1	0	0	0	0	0	1	0	0	4485	893	31	2	689	2	DHPS	19	12790661	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	328731	12790661	46338322	882	63835										
HAUS8	93323	broad.mit.edu	37	chr19	17163697	17163697	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcgctcagtaagtccagcacCtgcacattttcttccgaatc	6	14	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:17163697C>A	uc002nfe.2	-	10	978	c.867G>T	c.(865-867)CAG>CAT	p.Q289H	HAUS8_uc002nff.2_Missense_Mutation_p.Q288H|HAUS8_uc002nfg.1_Missense_Mutation_p.Q228H|HAUS8_uc002nfh.1_Missense_Mutation_p.Q289H	NM_033417	NP_219485	Q9BT25	HAUS8_HUMAN	sarcoma antigen NY-SAR-48 isoform a	289					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle pole					0						AGTCCAGCACCTGCACATTTT	0.537											OREG0025339	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	83	---	---	---	---	PASS	A	17163697	A	A	17163697	3	1	178	1	0	0	0	0	1	0	0	0	6972	680	24	3	373	3	HAUS8	19	17163697	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4373036	17163697	41965286	883	63836										
USHBP1	83878	broad.mit.edu	37	chr19	17373367	17373367	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atggccccactcacctctttCtgcagcgtctccttctcagc	6	18	5	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:17373367C>T	uc002nfs.1	-	4	749	c.636G>A	c.(634-636)CAG>CAA	p.Q212Q	USHBP1_uc002nft.1_RNA|USHBP1_uc010xpk.1_Silent_p.Q148Q|USHBP1_uc010eam.1_Silent_p.Q140Q	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	212	Potential.						PDZ domain binding			ovary(1)	1						TCACCTCTTTCTGCAGCGTCT	0.582													10	19	---	---	---	---	PASS	T	17373367	T	T	17373367	2	4	178	1	0	0	0	0	0	0	0	1	17034	912	32	2		2	USHBP1	19	17373367	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	209670	17373367	41755616	884	63837										
MEF2B	100271849	broad.mit.edu	37	chr19	19257870	19257870	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggcccggctttgggggctgcTggtcggaagggagatgggcg	22	8	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:19257870T>A	uc002nlm.2	-	5	630	c.516A>T	c.(514-516)CCA>CCT	p.P172P	MEF2B_uc002nln.2_Silent_p.P219P|MEF2B_uc002nll.2_Silent_p.P172P|LOC729991-MEF2B_uc010xqo.1_Silent_p.P172P|LOC729991-MEF2B_uc010xqp.1_Silent_p.P172P|LOC729991-MEF2B_uc002nlo.2_Silent_p.P172P|LOC729991-MEF2B_uc002nlp.2_Silent_p.P172P|MEF2B_uc002nlk.2_Silent_p.P175P	NM_001145785	NP_001139257			myocyte enhancer factor 2B isoform a											skin(1)	1			OV - Ovarian serous cystadenocarcinoma(5;0.00011)|Epithelial(12;0.00412)			TGGGGGCTGCTGGTCGGAAGG	0.672													5	15	---	---	---	---	PASS	A	19257870	A	A	19257870	2	1	178	1	0	0	0	0	0	0	0	1	9456	1567	55	5		5	MEF2B	19	19257870	Silent	SNP	T	TCGA-85-6561-01A-11D-1817-08	1884503	19257870	39871113	885	63838										
ZNF676	163223	broad.mit.edu	37	chr19	22363137	22363137	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtgtttagtaaagcttgagGaccaggtgaaggctttgcca	13	6	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:22363137G>T	uc002nqs.1	-	3	1700	c.1382C>A	c.(1381-1383)TCC>TAC	p.S461Y		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	461	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				AAAGCTTGAGGACCAGGTGAA	0.418													24	81	---	---	---	---	PASS	T	22363137	T	T	22363137	3	4	178	1	0	0	0	0	1	0	0	0	18080	1174	41	2	388	2	ZNF676	19	22363137	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3105267	22363137	36765846	886	63839										
ZNF99	7652	broad.mit.edu	37	chr19	22940353	22940353	+	Silent	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcttcacatttatagggtttCtttccagtatgaattatctt	5	7	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:22940353C>T	uc010xrh.1	-	5	2085	c.2085G>A	c.(2083-2085)AAG>AAA	p.K695K		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)				TATAGGGTTTCTTTCCAGTAT	0.348													6	34	---	---	---	---	PASS	T	22940353	T	T	22940353	2	4	178	1	0	0	0	0	0	0	0	1	18201	912	32	2		2	ZNF99	19	22940353	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	577216	22940353	36188630	887	63840										
DPY19L3	147991	broad.mit.edu	37	chr19	32927415	32927415	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacaattaacctccttcagcGaatgaatatttaccaagagg	7	9	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:32927415G>T	uc002ntg.2	+	5	568	c.392G>T	c.(391-393)CGA>CTA	p.R131L	DPY19L3_uc002nth.1_Missense_Mutation_p.R131L|DPY19L3_uc002nti.1_5'Flank	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	131						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					CTCCTTCAGCGAATGAATATT	0.289													7	126	---	---	---	---	PASS	T	32927415	T	T	32927415	3	4	178	1	0	0	0	0	1	0	0	0	4742	1058	37	2	406	2	DPY19L3	19	32927415	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	9987062	32927415	26201568	888	63841										
ANKRD27	84079	broad.mit.edu	37	chr19	33135333	33135333	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtcttcccaagaactctctCacatcttcaatggttttcag	5	12	6	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:33135333C>A	uc002ntn.1	-	5	579	c.423G>T	c.(421-423)GTG>GTT	p.V141V	ANKRD27_uc002nto.1_Silent_p.V141V	NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	141					early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					AGAACTCTCTCACATCTTCAA	0.502													8	203	---	---	---	---	PASS	A	33135333	A	A	33135333	2	1	178	1	0	0	0	0	0	0	0	1	655	813	29	2		2	ANKRD27	19	33135333	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	207918	33135333	25993650	889	63842										
CCDC123	84902	broad.mit.edu	37	chr19	33424363	33424363	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgtctgtccccaccttcctGtgacgacgccttctcagcct	7	18	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:33424363G>T	uc002nty.2	-	8	969	c.880C>A	c.(880-882)CAG>AAG	p.Q294K	CCDC123_uc002ntx.2_Missense_Mutation_p.Q47K|CCDC123_uc010edg.2_RNA|CCDC123_uc002ntz.1_Missense_Mutation_p.Q294K|CCDC123_uc002nua.2_Missense_Mutation_p.Q294K	NM_032816	NP_116205	Q96ST8	CEP89_HUMAN	coiled-coil domain containing 123	294	Potential.					centrosome|spindle pole					0	Esophageal squamous(110;0.137)					CCACCTTCCTGTGACGACGCC	0.378													6	109	---	---	---	---	PASS	T	33424363	T	T	33424363	3	4	178	1	0	0	0	0	1	0	0	0	2759	1386	48	3	1519	3	CCDC123	19	33424363	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	289030	33424363	25704620	890	63843										
MAP4K1	11184	broad.mit.edu	37	chr19	39090569	39090569	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctacccacagccagacctgaGagagacatgagaacgttgtt	10	11	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:39090569G>T	uc002oix.1	-	22	1773	c.1665C>A	c.(1663-1665)CTC>CTA	p.L555L	MAP4K1_uc002oiw.1_Silent_p.L142L|MAP4K1_uc002oiy.1_Silent_p.L555L|MAP4K1_uc010xug.1_Intron	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	555	CNH.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCAGACCTGAGAGAGACATGA	0.498													6	62	---	---	---	---	PASS	T	39090569	T	T	39090569	2	4	178	1	0	0	0	0	0	0	0	1	9259	929	33	2		2	MAP4K1	19	39090569	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	5666206	39090569	20038414	891	63844										
SPTBN4	57731	broad.mit.edu	37	chr19	41076417	41076417	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agctgcccgagcggacacctCggccggaccggccccgggcg	16	18	0	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:41076417C>A	uc002ony.2	+	33	7188	c.7102C>A	c.(7102-7104)CGG>AGG	p.R2368R	SPTBN4_uc002onz.2_Silent_p.R2368R|SPTBN4_uc010egx.2_Silent_p.R1111R	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	2368					actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GCGGACACCTcggccggaccg	0.433													3	5	---	---	---	---	PASS	A	41076417	A	A	41076417	2	1	178	1	0	0	0	0	0	0	0	1	15120	875	31	2		2	SPTBN4	19	41076417	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1985848	41076417	18052566	892	63845										
SNRPA	6626	broad.mit.edu	37	chr19	41257326	41257326	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttcactccatggcagttcccGagacccgccctaaccacact	6	18	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:41257326G>T	uc002ooz.2	+	1	548	c.13G>T	c.(13-15)GAG>TAG	p.E5*	C19orf54_uc002oou.1_5'Flank|C19orf54_uc002oow.1_5'Flank|C19orf54_uc002oox.1_5'Flank|C19orf54_uc002ooy.1_5'Flank|C19orf54_uc010xvs.1_5'Flank	NM_004596	NP_004587	P09012	SNRPA_HUMAN	small nuclear ribonucleoprotein polypeptide A	5						nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding			skin(2)|ovary(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			GGCAGTTCCCGAGACCCGCCC	0.493													6	133	---	---	---	---	PASS	T	41257326	T	T	41257326	4	4	178	1	0	0	0	0	0	1	0	0	14859	1059	37	2	15	2	SNRPA	19	41257326	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	180909	41257326	17871657	893	63846										
GSK3A	2931	broad.mit.edu	37	chr19	42740862	42740862	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caccagatttaggtaaagctCgtctttctgcagggagcaaa	10	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:42740862C>A	uc002otb.1	-	4	681	c.562G>T	c.(562-564)GAG>TAG	p.E188*	GSK3A_uc002ota.1_Nonsense_Mutation_p.E106*|GSK3A_uc002otc.2_RNA	NM_019884	NP_063937	P49840	GSK3A_HUMAN	glycogen synthase kinase 3 alpha	188	Protein kinase.				insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of insulin receptor signaling pathway|negative regulation of transferase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein catabolic process	beta-catenin destruction complex|cytosol	ATP binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|tau-protein kinase activity			ovary(2)|lung(2)	4		Prostate(69;0.00682)				AGGTAAAGCTCGTCTTTCTGC	0.562													5	47	---	---	---	---	PASS	A	42740862	A	A	42740862	4	1	178	1	0	0	0	0	0	1	0	0	6823	893	31	2	921	2	GSK3A	19	42740862	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1483536	42740862	16388121	894	63847										
CIC	23152	broad.mit.edu	37	chr19	42795796	42795796	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcctagtgcctctggccgccCctagcatgtcagtgcggggt	13	14	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:42795796C>G	uc002otf.1	+	11	2825	c.2785C>G	c.(2785-2787)CCT>GCT	p.P929A		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	929	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				TCTGGCCGCCCCTAGCATGTC	0.677			T	DUX4	soft tissue sarcoma								5	55	---	---	---	---	PASS	G	42795796	G	G	42795796	3	3	178	1	0	0	0	0	1	0	0	0	3424	623	22	4	2827	4	CIC	19	42795796	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	54934	42795796	16333187	895	63848										
PSG11	5680	broad.mit.edu	37	chr19	43523145	43523145	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caggttaagatcacagtctcCatggcctccctggggtttaa	10	11	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:43523145C>A	uc002ovm.1	-	3	593	c.486G>T	c.(484-486)ATG>ATT	p.M162I	PSG11_uc002ouw.2_Missense_Mutation_p.M168I|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Missense_Mutation_p.M168I|PSG11_uc002ovn.1_Missense_Mutation_p.M168I|PSG11_uc002ovo.1_Missense_Mutation_p.M40I|PSG11_uc002ovp.1_Missense_Mutation_p.M40I	NM_002785	NP_002776	Q9UQ72	PSG11_HUMAN	pregnancy specific beta-1-glycoprotein 11	162	Ig-like C2-type 1.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				TCACAGTCTCCATGGCCTCCC	0.527													7	126	---	---	---	---	PASS	A	43523145	A	A	43523145	3	1	178	1	0	0	0	0	1	0	0	0	12654	594	21	3	533	3	PSG11	19	43523145	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	727349	43523145	15605838	896	63849										
CADM4	199731	broad.mit.edu	37	chr19	44131919	44131919	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcagccactgtcacgttctCtgtctgtacttcctgtcctg	7	15	4	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:44131919C>A	uc002oxc.1	-	2	137	c.88G>T	c.(88-90)GAG>TAG	p.E30*		NM_145296	NP_660339	Q8NFZ8	CADM4_HUMAN	cell adhesion molecule 4 precursor	30	Ig-like V-type.|Extracellular (Potential).				cell adhesion	integral to membrane					0		Prostate(69;0.0199)				GTCACGTTCTCTGTCTGTACT	0.522													14	72	---	---	---	---	PASS	A	44131919	A	A	44131919	4	1	178	1	0	0	0	0	0	1	0	0	2569	922	32	2	1110	2	CADM4	19	44131919	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	608774	44131919	14997064	897	63850										
ZNF180	7733	broad.mit.edu	37	chr19	44982160	44982160	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atgaataactgctttcctttGagtgaatgccacttcctgca	7	10	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:44982160G>T	uc002ozf.3	-	5	820	c.538C>A	c.(538-540)CAA>AAA	p.Q180K	ZNF180_uc002ozh.3_5'UTR|ZNF180_uc002ozi.3_Missense_Mutation_p.Q153K|ZNF180_uc002ozg.3_Missense_Mutation_p.Q179K|ZNF180_uc010ejm.2_Missense_Mutation_p.Q155K	NM_013256	NP_037388	Q9UJW8	ZN180_HUMAN	zinc finger protein 180	180					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				GCTTTCCTTTGAGTGAATGCC	0.408													8	111	---	---	---	---	PASS	T	44982160	T	T	44982160	3	4	178	1	0	0	0	0	1	0	0	0	17745	1299	45	2	1544	2	ZNF180	19	44982160	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	850241	44982160	14146823	898	63851										
OPA3	80207	broad.mit.edu	37	chr19	46087920	46087920	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gatataggtcttgaagaactCgcttcggcgggcggcctcct	13	11	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:46087920C>A	uc002pck.3	-	1	203	c.103G>T	c.(103-105)GAG>TAG	p.E35*	OPA3_uc002pcj.3_Nonsense_Mutation_p.E35*|OPA3_uc010xxk.1_Intron	NM_025136	NP_079412	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform b	35					response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)		TTGAAGAACTCGCTTCGGCGG	0.587													7	65	---	---	---	---	PASS	A	46087920	A	A	46087920	4	1	178	1	0	0	0	0	0	1	0	0	10872	893	31	2	849	2	OPA3	19	46087920	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1105760	46087920	13041063	899	63852										
KLK3	354	broad.mit.edu	37	chr19	51361743	51361743	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccaaagaaacttcagtgtgtGgacctccatgttatttccaa	7	10	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:51361743G>T	uc002pts.1	+	4	563	c.522G>T	c.(520-522)GTG>GTT	p.V174V	KLK3_uc010ycj.1_Silent_p.V133V|KLK3_uc002ptr.1_Silent_p.V131V|KLK3_uc010eof.1_RNA	NM_001030047	NP_001025218	P07288	KLK3_HUMAN	prostate specific antigen isoform 3	174	Peptidase S1.				negative regulation of angiogenesis|proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00763)|GBM - Glioblastoma multiforme(134;0.0144)		TTCAGTGTGTGGACCTCCATG	0.488													7	64	---	---	---	---	PASS	T	51361743	T	T	51361743	2	4	178	1	0	0	0	0	0	0	0	1	8405	1335	47	3		3	KLK3	19	51361743	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	5273823	51361743	7767240	900	63853										
KLK7	5650	broad.mit.edu	37	chr19	51480838	51480838	+	Missense_Mutation	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttatccacttggtgaacttgCacacttgagtgtagactcct	8	10	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:51480838C>T	uc002puo.2	-	6	818	c.716G>A	c.(715-717)TGC>TAC	p.C239Y	KLK7_uc002pup.2_Missense_Mutation_p.C239Y|KLK7_uc010yco.1_Missense_Mutation_p.C113Y|KLK7_uc010eok.2_Missense_Mutation_p.C167Y	NM_139277	NP_644806	P49862	KLK7_HUMAN	stratum corneum chymotryptic enzyme	239	Peptidase S1.				epidermis development|proteolysis	extracellular region	serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00382)|GBM - Glioblastoma multiforme(134;0.00895)		GGTGAACTTGCACACTTGAGT	0.463													6	55	---	---	---	---	PASS	T	51480838	T	T	51480838	3	4	178	1	0	0	0	0	1	0	0	0	8409	710	25	3	49	3	KLK7	19	51480838	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	119095	51480838	7648145	901	63854										
FPR3	2359	broad.mit.edu	37	chr19	52327252	52327252	+	Missense_Mutation	SNP	C	T	T													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctaccattccgaatggtctCagtcgccatgagagaaaaat							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:52327252C>T	uc002pxt.1	+	2	435	c.251C>T	c.(250-252)TCA>TTA	p.S84L		NM_002030	NP_002021	P25089	FPR3_HUMAN	formyl peptide receptor-like 2	84	Extracellular (Potential).				cellular component movement|chemotaxis	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(4)|breast(1)|skin(1)	6						CGAATGGTCTCAGTCGCCATG	0.468													6	50	---	---	---	---	PASS	T	52327252	T	T	52327252	3	4	178	1	0	0	0	0	1	0	0	0	6040	838	29	2	253	2	FPR3	19	52327252	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	846414	52327252	6801731	902	63855	1087	2								
FPR3	2359	broad.mit.edu	37	chr19	52327257	52327257	+	Missense_Mutation	SNP	G	T	T													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cattccgaatggtctcagtcGccatgagagaaaaatggcct					rs143250626	by1000genomes	TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:52327257G>T	uc002pxt.1	+	2	440	c.256G>T	c.(256-258)GCC>TCC	p.A86S		NM_002030	NP_002021	P25089	FPR3_HUMAN	formyl peptide receptor-like 2	86	Extracellular (Potential).				cellular component movement|chemotaxis	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(4)|breast(1)|skin(1)	6						GGTCTCAGTCGCCATGAGAGA	0.453													16	36	---	---	---	---	PASS	T	52327257	T	T	52327257	3	4	178	1	0	0	0	0	1	0	0	0	6040	1087	38	1	258	1	FPR3	19	52327257	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5	52327257	6801726	903	63856	1087	2								
ZNF577	84765	broad.mit.edu	37	chr19	52376052	52376052	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atgagttcgctcatgtataaGgaggtatgactccttgagga	12	6	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:52376052G>T	uc010yde.1	-	7	1582	c.1191C>A	c.(1189-1191)TCC>TCA	p.S397S	ZNF577_uc010ydd.1_Intron|ZNF577_uc002pxx.3_Silent_p.S338S|ZNF577_uc002pxv.2_Silent_p.S390S|ZNF577_uc002pxw.2_Silent_p.S331S	NM_032679	NP_116068	Q9BSK1	ZN577_HUMAN	zinc finger protein 577 isoform a	397					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TCATGTATAAGGAGGTATGAC	0.438													8	120	---	---	---	---	PASS	T	52376052	T	T	52376052	2	4	178	1	0	0	0	0	0	0	0	1	18006	987	35	3		3	ZNF577	19	52376052	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	48795	52376052	6752931	904	63857										
KIR2DL1	3802	broad.mit.edu	37	chr19	55285042	55285042	+	Nonsense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctgttactcactccccctatCaggtgtcagctcccagtgac	7	16	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:55285042C>T	uc002qhb.1	+	3	366	c.328C>T	c.(328-330)CAG>TAG	p.Q110*	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_Intron|KIR3DP1_uc010yfi.1_Intron|KIR2DL1_uc010erz.1_Nonsense_Mutation_p.Q110*	NM_014218	NP_055033	P43626	KI2L1_HUMAN	killer cell immunoglobulin-like receptor, two	110	Extracellular (Potential).				immune response|natural killer cell inhibitory signaling pathway	integral to plasma membrane	protein binding|receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		CTCCCCCTATCAGGTGTCAGC	0.527													41	56	---	---	---	---	PASS	T	55285042	T	T	55285042	4	4	178	1	0	0	0	0	0	1	0	0	8316	827	29	2	338	2	KIR2DL1	19	55285042	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2908990	55285042	3843941	905	63858										
ZNF264	9422	broad.mit.edu	37	chr19	57723831	57723831	+	Nonsense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acactggagaaaagcctttcGagtgcaaagagtgtgggaaa	13	6	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:57723831G>T	uc002qob.2	+	4	1779	c.1366G>T	c.(1366-1368)GAG>TAG	p.E456*		NM_003417	NP_003408	O43296	ZN264_HUMAN	zinc finger protein 264	456	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0135)		AAAGCCTTTCGAGTGCAAAGA	0.517													5	32	---	---	---	---	PASS	T	57723831	T	T	57723831	4	4	178	1	0	0	0	0	0	1	0	0	17801	1059	37	2	1380	2	ZNF264	19	57723831	Nonsense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2438789	57723831	1405152	906	63859										
ZNF551	90233	broad.mit.edu	37	chr19	58198327	58198327	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tattacaagtggggtgaataCagaaaagcttcaagccacaa	9	7	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr19:58198327C>A	uc002qpw.3	+	3	859	c.636C>A	c.(634-636)TAC>TAA	p.Y212*	ZNF551_uc002qpv.3_Nonsense_Mutation_p.Y155*|ZNF776_uc002qpx.2_Intron	NM_138347	NP_612356	Q7Z340	ZN551_HUMAN	zinc finger protein 551	228					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GGGGTGAATACAGAAAAGCTT	0.443													8	51	---	---	---	---	PASS	A	58198327	A	A	58198327	4	1	178	1	0	0	0	0	0	1	0	0	17980	489	17	3	646	3	ZNF551	19	58198327	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	474496	58198327	930656	907	63860										
PSMF1	9491	broad.mit.edu	37	chr20	1108149	1108149	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaacacctgggtgacttccaCaggtacttctaaatgatgtc	9	10	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:1108149C>A	uc002wel.3	+	4	531	c.363C>A	c.(361-363)CAC>CAA	p.H121Q	PSMF1_uc010zpo.1_Missense_Mutation_p.H33Q|PSMF1_uc002wem.3_Missense_Mutation_p.H121Q|PSMF1_uc010zpp.1_Missense_Mutation_p.H121Q|PSMF1_uc002wen.3_Missense_Mutation_p.H121Q	NM_178578	NP_848693	Q92530	PSMF1_HUMAN	proteasome inhibitor subunit 1	121					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome core complex	endopeptidase inhibitor activity|protein binding				0						GTGACTTCCACAGGTACTTCT	0.428													7	123	---	---	---	---	PASS	A	1108149	A	A	1108149	3	1	178	1	0	0	0	0	1	0	0	0	12710	477	17	3	373	3	PSMF1	20	1108149	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08		1108149	61917371	908	63861										
IDH3B	3420	broad.mit.edu	37	chr20	2640344	2640344	+	Splice_Site	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cgacagcctcccatgacctaCttaagatgccgcagcatgtt	8	14	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:2640344C>T	uc002wgp.2	-	10	1019	c.1010_splice	c.e10+1	p.N337_splice	IDH3B_uc002wgq.2_Splice_Site_p.N337_splice|IDH3B_uc002wgr.2_Splice_Site_p.N185_splice	NM_006899	NP_008830	O43837	IDH3B_HUMAN	isocitrate dehydrogenase 3, beta subunit isoform						isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	electron carrier activity|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0					NADH(DB00157)	CCATGACCTACTTAAGATGCC	0.592													20	94	---	---	---	---	PASS	T	2640344	T	T	2640344	5	4	178	1	0	0	0	0	0	0	1	0	7497	579	20	3	243	3	IDH3B	20	2640344	Splice_Site	SNP	C	TCGA-85-6561-01A-11D-1817-08	1532195	2640344	60385176	909	63862										
VPS16	64601	broad.mit.edu	37	chr20	2840410	2840410	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgggacctgaaggaggaactCagggattgcctggtggctgc	17	8	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:2840410C>A	uc002whe.2	+	2	147	c.99C>A	c.(97-99)CTC>CTA	p.L33L	VPS16_uc002whf.2_Silent_p.L33L|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	33					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						AGGAGGAACTCAGGGATTGCC	0.562													7	98	---	---	---	---	PASS	A	2840410	A	A	2840410	2	1	178	1	0	0	0	0	0	0	0	1	17190	813	29	2		2	VPS16	20	2840410	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	200066	2840410	60185110	910	63863										
RIN2	54453	broad.mit.edu	37	chr20	19956212	19956212	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgaccccggagaagcggatgGtccgcaggatcgccgagctt	15	12	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:19956212G>T	uc002wro.1	+	7	1579	c.1543G>T	c.(1543-1545)GTC>TTC	p.V515F	RIN2_uc010gcu.1_Intron|RIN2_uc010gcv.1_Missense_Mutation_p.V309F	NM_018993	NP_061866	Q8WYP3	RIN2_HUMAN	Ras and Rab interactor 2	515					endocytosis|small GTPase mediated signal transduction	cytoplasm	GTPase activator activity|Rab guanyl-nucleotide exchange factor activity			lung(4)|ovary(1)	5						GAAGCGGATGGTCCGCAGGAT	0.592													13	50	---	---	---	---	PASS	T	19956212	T	T	19956212	3	4	178	1	0	0	0	0	1	0	0	0	13372	1261	44	3	1569	3	RIN2	20	19956212	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	17115802	19956212	43069308	911	63864										
CRNKL1	51340	broad.mit.edu	37	chr20	20017981	20017981	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcttaccccatcatcagtctGgacctttcttctcttcttga	4	14	7	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:20017981G>T	uc002wrs.2	-	14	2397	c.2365C>A	c.(2365-2367)CAG>AAG	p.Q789K		NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	789	HAT 16.				spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						TCATCAGTCTGGACCTTTCTT	0.438													8	151	---	---	---	---	PASS	T	20017981	T	T	20017981	3	4	178	1	0	0	0	0	1	0	0	0	3891	1357	47	3	189	3	CRNKL1	20	20017981	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	61769	20017981	43007539	912	63865										
TMEM90B	79953	broad.mit.edu	37	chr20	24523790	24523790	+	Silent	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cacagtaaaatcagtgatgcTggcaagaggaatggtttaat	11	5	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:24523790T>C	uc002wtw.1	+	2	690	c.57T>C	c.(55-57)GCT>GCC	p.A19A		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	19	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						TCAGTGATGCTGGCAAGAGGA	0.537													11	48	---	---	---	---	PASS	C	24523790	C	C	24523790	2	2	178	1	0	0	0	0	0	0	0	1	16216	1567	55	5		5	TMEM90B	20	24523790	Silent	SNP	T	TCGA-85-6561-01A-11D-1817-08	4505809	24523790	38501730	913	63866										
ZNF337	26152	broad.mit.edu	37	chr20	25657102	25657102	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acagtgaggtatgacttactGgtatagcctcgtccacacac	9	11	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:25657102G>T	uc002wva.2	-	4	1344	c.822C>A	c.(820-822)ACC>ACA	p.T274T	uc002wuz.2_RNA|ZNF337_uc010ztg.1_Silent_p.T242T|ZNF337_uc002wvb.2_Silent_p.T274T|ZNF337_uc002wvc.2_Silent_p.T274T	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	274	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGACTTACTGGTATAGCCTC	0.517													7	116	---	---	---	---	PASS	T	25657102	T	T	25657102	2	4	178	1	0	0	0	0	0	0	0	1	17850	1335	47	3		3	ZNF337	20	25657102	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	1133312	25657102	37368418	914	63867										
TPX2	22974	broad.mit.edu	37	chr20	30385255	30385255	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagcagcttgtttcaaggctCgtccaaacaccgtcatctct	7	13	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:30385255C>A	uc002wwp.1	+	16	2580	c.1882C>A	c.(1882-1884)CGT>AGT	p.R628S	TPX2_uc010gdv.1_Missense_Mutation_p.R664S	NM_012112	NP_036244	Q9ULW0	TPX2_HUMAN	TPX2, microtubule-associated protein homolog	628					activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2			Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)			TTTCAAGGCTCGTCCAAACAC	0.448													6	174	---	---	---	---	PASS	A	30385255	A	A	30385255	3	1	178	1	0	0	0	0	1	0	0	0	16429	884	31	2	1936	2	TPX2	20	30385255	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4728153	30385255	32640265	915	63868										
EDEM2	55741	broad.mit.edu	37	chr20	33703284	33703284	+	Missense_Mutation	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agtaatgccaacttggaggtGaagggctgactggggcagct	16	7	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:33703284G>T	uc002xbo.2	-	11	1789	c.1689C>A	c.(1687-1689)TTC>TTA	p.F563L	EDEM2_uc010zus.1_Missense_Mutation_p.F342L|EDEM2_uc002xbq.2_Missense_Mutation_p.F526L|EDEM2_uc010zut.1_Missense_Mutation_p.F522L|EDEM2_uc002xbp.2_Missense_Mutation_p.F411L|EDEM2_uc002xbn.2_Missense_Mutation_p.F411L|EDEM2_uc002xbr.2_RNA|EDEM2_uc010zuu.1_Missense_Mutation_p.F287L	NM_018217	NP_060687	Q9BV94	EDEM2_HUMAN	ER degradation enhancer, mannosidase alpha-like	563					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00936)			ACTTGGAGGTGAAGGGCTGAC	0.448													8	123	---	---	---	---	PASS	T	33703284	T	T	33703284	3	4	178	1	0	0	0	0	1	0	0	0	4912	1281	45	2	51	2	EDEM2	20	33703284	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3318029	33703284	29322236	916	63869										
UQCC	55245	broad.mit.edu	37	chr20	33999756	33999756	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cactcacaaggactcgcaccAgcaacgccatgttcctcaat	6	16	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:33999756A>G	uc002xcd.2	-	1	78	c.11T>C	c.(10-12)CTG>CCG	p.L4P	UQCC_uc010zuz.1_5'UTR|UQCC_uc010zva.1_Missense_Mutation_p.L4P|UQCC_uc002xce.2_Missense_Mutation_p.L4P|UQCC_uc002xcg.2_5'UTR|UQCC_uc010gfb.2_Missense_Mutation_p.L4P|UQCC_uc010zvb.1_Missense_Mutation_p.L4P|UQCC_uc002xcf.2_5'UTR|GDF5_uc010gfc.1_Intron|UQCC_uc010gfd.1_5'UTR	NM_018244	NP_060714	Q9NVA1	UQCC_HUMAN	basic FGF-repressed Zic binding protein isoform	4						cytoplasmic membrane-bounded vesicle				breast(1)	1			BRCA - Breast invasive adenocarcinoma(18;0.00252)			GACTCGCACCAGCAACGCCAT	0.542													16	63	---	---	---	---	PASS	G	33999756	G	G	33999756	3	3	178	1	0	0	0	0	1	0	0	0	17012	188	7	5	928	5	UQCC	20	33999756	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	296472	33999756	29025764	917	63870										
PLCG1	5335	broad.mit.edu	37	chr20	39788562	39788562	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagggcttaacttggctgatGgaggatacattgcaggcacc	13	8	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:39788562G>T	uc002xjp.1	+	3	544	c.423G>T	c.(421-423)ATG>ATT	p.M141I	PLCG1_uc002xjo.1_Missense_Mutation_p.M141I	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	141	PH 1.				activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				CTTGGCTGATGGAGGATACAT	0.547													6	59	---	---	---	---	PASS	T	39788562	T	T	39788562	3	4	178	1	0	0	0	0	1	0	0	0	12035	1348	47	3	433	3	PLCG1	20	39788562	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	5788806	39788562	23236958	918	63871										
PTPRT	11122	broad.mit.edu	37	chr20	40733286	40733286	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtagtagagagaacggaactCacacacagggatggcagtgt	14	7	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:40733286C>A	uc002xkg.2	-	25	3647	c.3463G>T	c.(3463-3465)GAG>TAG	p.E1155*	PTPRT_uc010ggj.2_Nonsense_Mutation_p.E1174*|PTPRT_uc010ggi.2_Nonsense_Mutation_p.E358*	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1155	Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GAACGGAACTCACACACAGGG	0.512													6	75	---	---	---	---	PASS	A	40733286	A	A	40733286	4	1	178	1	0	0	0	0	0	1	0	0	12812	835	29	2	890	2	PTPRT	20	40733286	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	944724	40733286	22292234	919	63872										
MMP9	4318	broad.mit.edu	37	chr20	44641162	44641162	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gctcatgtaccctatgtaccGcttcactgaggggcccccct	9	16	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:44641162G>T	uc002xqz.2	+	8	1290	c.1271G>T	c.(1270-1272)CGC>CTC	p.R424L		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	424					collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	CCTATGTACCGCTTCACTGAG	0.617													12	37	---	---	---	---	PASS	T	44641162	T	T	44641162	3	4	178	1	0	0	0	0	1	0	0	0	9669	1087	38	1	1301	1	MMP9	20	44641162	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	3907876	44641162	18384358	920	63873										
NCOA3	8202	broad.mit.edu	37	chr20	46268381	46268381	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcaggagactggggcttacCaaactcaaaggccggcagaa	12	11	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:46268381C>A	uc002xtk.2	+	15	2973	c.2768C>A	c.(2767-2769)CCA>CAA	p.P923Q	NCOA3_uc010ght.1_Missense_Mutation_p.P918Q|NCOA3_uc002xtl.2_Missense_Mutation_p.P923Q|NCOA3_uc002xtm.2_Missense_Mutation_p.P923Q|NCOA3_uc002xtn.2_Missense_Mutation_p.P923Q|NCOA3_uc010zyc.1_Missense_Mutation_p.P718Q	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	923					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						TGGGGCTTACCAAACTCAAAG	0.468													9	129	---	---	---	---	PASS	A	46268381	A	A	46268381	3	1	178	1	0	0	0	0	1	0	0	0	10230	594	21	3	2848	3	NCOA3	20	46268381	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1627219	46268381	16757139	921	63874										
STAU1	6780	broad.mit.edu	37	chr20	47782640	47782640	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctagtagtagaaggaatactCatcaaaggctgtgagagaag	12	5	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:47782640C>A	uc002xud.2	-	3	510	c.99G>T	c.(97-99)ATG>ATT	p.M33I	STAU1_uc002xua.2_Intron|STAU1_uc002xub.2_Intron|STAU1_uc002xuc.2_Intron|STAU1_uc002xue.2_Intron|STAU1_uc002xuf.2_Intron|STAU1_uc002xug.2_Missense_Mutation_p.M33I	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	33						microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			AAGGAATACTCATCAAAGGCT	0.463													7	116	---	---	---	---	PASS	A	47782640	A	A	47782640	3	1	178	1	0	0	0	0	1	0	0	0	15271	826	29	2	1700	2	STAU1	20	47782640	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1514259	47782640	15242880	922	63875										
BCAS1	8537	broad.mit.edu	37	chr20	52645048	52645048	+	Missense_Mutation	SNP	C	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctggcaccttttcctgtccCttgtccagcttgaagaattt	7	13	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:52645048C>G	uc002xws.2	-	4	944	c.606G>C	c.(604-606)AAG>AAC	p.K202N	BCAS1_uc010zzb.1_Missense_Mutation_p.K105N|BCAS1_uc010gim.2_Missense_Mutation_p.K105N|BCAS1_uc002xwt.2_Missense_Mutation_p.K202N|BCAS1_uc010gil.1_Missense_Mutation_p.K202N|BCAS1_uc010zzc.1_Missense_Mutation_p.K105N	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	202						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			TTTCCTGTCCCTTGTCCAGCT	0.552													36	99	---	---	---	---	PASS	G	52645048	G	G	52645048	3	3	178	1	0	0	0	0	1	0	0	0	1350	680	24	4	1184	4	BCAS1	20	52645048	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4862408	52645048	10380472	923	63876										
DIDO1	11083	broad.mit.edu	37	chr20	61511697	61511697	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggggcttgctctgtcccttCaaactgggcgggggcgcccg	16	13	2	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr20:61511697C>T	uc002ydr.1	-	16	5875	c.5611G>A	c.(5611-5613)GAA>AAA	p.E1871K	DIDO1_uc002yds.1_Missense_Mutation_p.E1871K	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1871	Pro-rich.				apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					TCTGTCCCTTCAAACTGGGCG	0.622													5	25	---	---	---	---	PASS	T	61511697	T	T	61511697	3	4	178	1	0	0	0	0	1	0	0	0	4522	835	29	2	1115	2	DIDO1	20	61511697	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	8866649	61511697	1513823	924	63877										
TMPRSS15	5651	broad.mit.edu	37	chr21	19716354	19716354	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttcttgtctccctcctggtcCagttggggtagaaatgtaaa	10	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr21:19716354C>A	uc002ykw.2	-	11	1226	c.1195G>T	c.(1195-1197)GGA>TGA	p.G399*		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	399	Extracellular (Potential).|MAM.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						CCTCCTGGTCCAGTTGGGGTA	0.403													13	53	---	---	---	---	PASS	A	19716354	A	A	19716354	4	1	178	1	0	0	0	0	0	1	0	0	16243	603	21	3	1924	3	TMPRSS15	21	19716354	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08		19716354	28413541	925	63878										
RNF160	26046	broad.mit.edu	37	chr21	30304965	30304965	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ataagtagccattacctctcGagtagtagctcgagctttaa	8	9	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr21:30304965G>T	uc002ymr.2	-	28	5048	c.5035C>A	c.(5035-5037)CGA>AGA	p.R1679R		NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	1633							ligase activity|zinc ion binding				0						ATTACCTCTCGAGTAGTAGCT	0.338													7	118	---	---	---	---	PASS	T	30304965	T	T	30304965	2	4	178	1	0	0	0	0	0	0	0	1	13455	1066	37	2		2	RNF160	21	30304965	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	10588611	30304965	17824930	926	63879										
SFRS15	57466	broad.mit.edu	37	chr21	33068523	33068523	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctggctgctgcatgccatctCcaggaaagccactaaaaaaa	8	12	1	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr21:33068523C>A	uc002ypd.2	-	9	1397	c.971G>T	c.(970-972)GGA>GTA	p.G324V	SFRS15_uc002ype.2_Missense_Mutation_p.G324V|SFRS15_uc010glu.2_Missense_Mutation_p.G309V|SFRS15_uc002ypf.1_5'UTR	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	324						nucleus	nucleotide binding|RNA binding				0						CATGCCATCTCCAGGAAAGCC	0.423													7	106	---	---	---	---	PASS	A	33068523	A	A	33068523	3	1	178	1	0	0	0	0	1	0	0	0	14171	855	30	2	2520	2	SFRS15	21	33068523	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	2763558	33068523	15061372	927	63880										
GCFC1	94104	broad.mit.edu	37	chr21	34132155	34132155	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ctcattactgggagttttgaAagggactgtattatctgttt	10	5	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr21:34132155A>C	uc002yqn.2	-	6	1316	c.1126T>G	c.(1126-1128)TTC>GTC	p.F376V	GCFC1_uc002yqo.2_RNA|GCFC1_uc002yqp.2_Missense_Mutation_p.F376V|GCFC1_uc002yqr.2_Missense_Mutation_p.F376V	NM_016631	NP_057715	Q9Y5B6	GCFC1_HUMAN	GC-rich sequence DNA-binding factor candidate	376						cytosol|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						GGAGTTTTGAAAGGGACTGTA	0.413													13	70	---	---	---	---	PASS	C	34132155	C	C	34132155	3	2	178	1	0	0	0	0	1	0	0	0	6289	14	1	5	1797	5	GCFC1	21	34132155	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	1063632	34132155	13997740	928	63881										
CHAF1B	8208	broad.mit.edu	37	chr21	37775112	37775112	+	Silent	SNP	G	T	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aagtctttcttccgtagactGagtttcactcccgacggatc	8	12	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr21:37775112G>T	uc002yvj.2	+	8	858	c.720G>T	c.(718-720)CTG>CTT	p.L240L		NM_005441	NP_005432	Q13112	CAF1B_HUMAN	chromatin assembly factor 1 subunit B	240	WD 5.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|cytoplasm	chromatin binding|histone binding|unfolded protein binding			ovary(1)|skin(1)	2						TCCGTAGACTGAGTTTCACTC	0.438													10	186	---	---	---	---	PASS	T	37775112	T	T	37775112	2	4	178	1	0	0	0	0	0	0	0	1	3312	1277	45	2		2	CHAF1B	21	37775112	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	3642957	37775112	10354783	929	63882										
PCP4	5121	broad.mit.edu	37	chr21	41301006	41301006	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cagtctcagttcagaaaattCcagaagaagaaggctgggtc	11	8	2	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr21:41301006C>A	uc002yyp.2	+	3	240	c.159C>A	c.(157-159)TTC>TTA	p.F53L		NM_006198	NP_006189	P48539	PCP4_HUMAN	Purkinje cell protein 4	53	IQ.				central nervous system development	cytosol|nucleus				large_intestine(1)	1		Prostate(19;2.65e-06)|all_epithelial(19;0.138)				TCAGAAAATTCCAGAAGAAGA	0.448													5	31	---	---	---	---	PASS	A	41301006	A	A	41301006	3	1	178	1	0	0	0	0	1	0	0	0	11598	854	30	2	169	2	PCP4	21	41301006	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3525894	41301006	6828889	930	63883										
PDXK	8566	broad.mit.edu	37	chr21	45161591	45161591	+	Silent	SNP	C	G	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtgctgaattcagatgagctCcaggagttgtacgaaggcct	13	8	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr21:45161591C>G	uc002zdm.3	+	3	384	c.186C>G	c.(184-186)CTC>CTG	p.L62L	PDXK_uc010gpj.2_Silent_p.L62L|PDXK_uc002zdn.3_Silent_p.L62L|PDXK_uc002zdq.3_5'UTR	NM_003681	NP_003672	O00764	PDXK_HUMAN	pyridoxal kinase	62					cell proliferation|pyridoxal 5'-phosphate salvage	cytosol	ATP binding|lithium ion binding|magnesium ion binding|potassium ion binding|protein homodimerization activity|pyridoxal kinase activity|pyridoxal phosphate binding|sodium ion binding|zinc ion binding				0				Colorectal(79;0.109)|READ - Rectum adenocarcinoma(84;0.161)|STAD - Stomach adenocarcinoma(101;0.18)	Pyridoxal(DB00147)|Pyridoxine(DB00165)	CAGATGAGCTCCAGGAGTTGT	0.587													6	37	---	---	---	---	PASS	G	45161591	G	G	45161591	2	3	178	1	0	0	0	0	0	0	0	1	11697	842	30	2		2	PDXK	21	45161591	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	3860585	45161591	2968304	931	63884										
MICAL3	57553	broad.mit.edu	37	chr22	18300884	18300884	+	Nonsense_Mutation	SNP	C	A	A													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gggaatctcctccacgctctCcacaaacgacttccgcacct							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr22:18300884C>A	uc002zng.3	-	26	4896	c.4543G>T	c.(4543-4545)GAG>TAG	p.E1515*	MICAL3_uc011agl.1_Nonsense_Mutation_p.E1431*|MICAL3_uc010gre.1_5'Flank	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	1515						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		TCCACGCTCTCCACAAACGAC	0.632													7	14	---	---	---	---	PASS	A	18300884	A	A	18300884	4	1	178	1	0	0	0	0	0	1	0	0	9571	864	30	2	1493	2	MICAL3	22	18300884	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08		18300884	33003682	932	63885	1088	2								
MICAL3	57553	broad.mit.edu	37	chr22	18300885	18300885	+	Silent	SNP	C	A	A													0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggaatctcctccacgctctcCacaaacgacttccgcacctc							TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr22:18300885C>A	uc002zng.3	-	26	4895	c.4542G>T	c.(4540-4542)GTG>GTT	p.V1514V	MICAL3_uc011agl.1_Silent_p.V1430V|MICAL3_uc010gre.1_5'Flank	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	1514						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		CCACGCTCTCCACAAACGACT	0.632													7	14	---	---	---	---	PASS	A	18300885	A	A	18300885	2	1	178	1	0	0	0	0	0	0	0	1	9571	581	21	3		3	MICAL3	22	18300885	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1	18300885	33003681	933	63886	1088	2								
CRKL	1399	broad.mit.edu	37	chr22	21288203	21288203	+	Silent	SNP	C	T	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctttaaaaagggtgagatcCtagtgataatagagaagcct	10	6	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr22:21288203C>T	uc002ztf.2	+	2	957	c.448C>T	c.(448-450)CTA>TTA	p.L150L	CRKL_uc002ztg.1_RNA	NM_005207	NP_005198	P46109	CRKL_HUMAN	v-crk sarcoma virus CT10 oncogene homolog	150	SH3 1.				JNK cascade|Ras protein signal transduction	cytosol	protein tyrosine kinase activity|SH3/SH2 adaptor activity|signal transducer activity				0	all_cancers(11;1.16e-25)|all_epithelial(7;3.37e-24)|Lung NSC(8;7.25e-16)|all_lung(8;1.37e-14)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.176)			GGGTGAGATCCTAGTGATAAT	0.483													14	51	---	---	---	---	PASS	T	21288203	T	T	21288203	2	4	178	1	0	0	0	0	0	0	0	1	3885	680	24	3		3	CRKL	22	21288203	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	2987318	21288203	30016363	934	63887										
MTMR3	8897	broad.mit.edu	37	chr22	30416160	30416160	+	Missense_Mutation	SNP	A	G	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cccaagtcccttttgagaccAgaggaccaaacgtggacagt	10	12	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr22:30416160A>G	uc003agv.3	+	17	2840	c.2512A>G	c.(2512-2514)AGA>GGA	p.R838G	MTMR3_uc003agu.3_Missense_Mutation_p.R838G|MTMR3_uc003agw.3_Missense_Mutation_p.R838G	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	838					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			TTTTGAGACCAGAGGACCAAA	0.463													17	74	---	---	---	---	PASS	G	30416160	G	G	30416160	3	3	178	1	0	0	0	0	1	0	0	0	9945	180	7	5	2570	5	MTMR3	22	30416160	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	9127957	30416160	20888406	935	63888										
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31838065	31838065	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ttgtagtgggagaagagtctCgatcggcactgggtacagag	16	6	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr22:31838065C>A	uc003akz.1	-	17	2410	c.2246G>T	c.(2245-2247)CGA>CTA	p.R749L	EIF4ENIF1_uc003akx.1_Missense_Mutation_p.R404L|EIF4ENIF1_uc003aky.1_Missense_Mutation_p.R429L|EIF4ENIF1_uc003ala.1_Missense_Mutation_p.R749L|EIF4ENIF1_uc003alb.1_Missense_Mutation_p.R575L|EIF4ENIF1_uc003akw.1_Missense_Mutation_p.R239L	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	749						nucleus	protein binding|protein transporter activity			ovary(1)	1						AGAAGAGTCTCGATCGGCACT	0.483													7	115	---	---	---	---	PASS	A	31838065	A	A	31838065	3	1	178	1	0	0	0	0	1	0	0	0	5035	884	31	2	723	2	EIF4ENIF1	22	31838065	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1421905	31838065	19466501	936	63889										
HMGXB4	10042	broad.mit.edu	37	chr22	35660936	35660936	+	Silent	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acagagacactgacccttcgGgagcctgatggtttaaaaat	10	9	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr22:35660936G>T	uc003anl.2	+	5	729	c.555G>T	c.(553-555)CGG>CGT	p.R185R	HMGXB4_uc011amh.1_Silent_p.R76R|HMGXB4_uc003ank.2_Silent_p.R76R	NM_001003681	NP_001003681	Q9UGU5	HMGX4_HUMAN	high-mobility group protein 2-like 1	185					endosome to lysosome transport|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	NURF complex	DNA binding			breast(1)|skin(1)	2						TGACCCTTCGGGAGCCTGATG	0.463													8	131	---	---	---	---	PASS	T	35660936	T	T	35660936	2	4	178	1	0	0	0	0	0	0	0	1	7239	1219	43	3		3	HMGXB4	22	35660936	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	3822871	35660936	15643630	937	63890										
MYH9	4627	broad.mit.edu	37	chr22	36696899	36696899	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ggtgcagcgggcaggaacctGgatgttctgctgcatcttct	14	10	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr22:36696899G>T	uc003apg.2	-	22	3067	c.2836C>A	c.(2836-2838)CAG>AAG	p.Q946K	MYH9_uc003aph.1_Missense_Mutation_p.Q810K	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	946	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GCAGGAACCTGGATGTTCTGC	0.642			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				5	31	---	---	---	---	PASS	T	36696899	T	T	36696899	3	4	178	1	0	0	0	0	1	0	0	0	10042	1357	47	3	3126	3	MYH9	22	36696899	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1035963	36696899	14607667	938	63891										
NCF4	4689	broad.mit.edu	37	chr22	37260122	37260122	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tccggatgatgttgccatctCggccaacattgctgacatcg	10	12	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr22:37260122C>A	uc003apy.3	+	2	252	c.68C>A	c.(67-69)TCG>TAG	p.S23*	NCF4_uc003apz.3_Nonsense_Mutation_p.S23*	NM_000631	NP_000622	Q15080	NCF4_HUMAN	neutrophil cytosolic factor 4 isoform 1	23	PX.				cell communication|immune response|oxidation-reduction process	cytosol|NADPH oxidase complex	phosphatidylinositol binding|protein dimerization activity			ovary(1)	1						GTTGCCATCTCGGCCAACATT	0.522													5	136	---	---	---	---	PASS	A	37260122	A	A	37260122	4	1	178	1	0	0	0	0	0	1	0	0	10218	893	31	2	74	2	NCF4	22	37260122	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	563223	37260122	14044444	939	63892										
ZBED4	9889	broad.mit.edu	37	chr22	50278129	50278129	+	Missense_Mutation	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcagagaacttagcggagaaGagccttccacttccaaagag	11	10	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr22:50278129G>C	uc003bix.2	+	2	1289	c.819G>C	c.(817-819)AAG>AAC	p.K273N		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	273						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		TAGCGGAGAAGAGCCTTCCAC	0.572													4	81	---	---	---	---	PASS	C	50278129	C	C	50278129	3	2	178	1	0	0	0	0	1	0	0	0	17517	933	33	2	821	2	ZBED4	22	50278129	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	13018007	50278129	1026437	940	63893										
SAPS2	9701	broad.mit.edu	37	chr22	50845250	50845250	+	Silent	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	ccgcctctcaatcctctgctCgccagttttttcagcaagac	6	16	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chr22:50845250C>A	uc003blb.1	+	5	782	c.360C>A	c.(358-360)CTC>CTA	p.L120L	SAPS2_uc003bky.1_Silent_p.L120L|SAPS2_uc003bkz.1_Silent_p.L120L|SAPS2_uc003blc.2_Silent_p.L120L|SAPS2_uc003bla.1_Silent_p.L120L	NM_014678	NP_055493	O75170	PP6R2_HUMAN	SAPS domain family, member 2	120						cytoplasm|intracellular membrane-bounded organelle	protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.222)		ATCCTCTGCTCGCCAGTTTTT	0.557													7	260	---	---	---	---	PASS	A	50845250	A	A	50845250	2	1	178	1	0	0	0	0	0	0	0	1	13837	871	31	2		2	SAPS2	22	50845250	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	567121	50845250	459316	941	63894										
CA5B	11238	broad.mit.edu	37	chrX	15768283	15768283	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tacttacaaaacccggaaccGagcctgtgagtacaccactt	7	13	0	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:15768283G>T	uc004cxe.2	+	2	254	c.137G>T	c.(136-138)CGA>CTA	p.R46L		NM_007220	NP_009151	Q9Y2D0	CAH5B_HUMAN	carbonic anhydrase VB, mitochondrial precursor	46					one-carbon metabolic process	mitochondrion	carbonate dehydratase activity|zinc ion binding				0	Hepatocellular(33;0.183)					ACCCGGAACCGAGCCTGTGAG	0.358													5	51	---	---	---	---	PASS	T	15768283	T	T	15768283	3	4	178	1	0	0	0	0	1	0	0	0	2520	1058	37	2	139	2	CA5B	23	15768283	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08		15768283	139502277	942	63895										
CDKL5	6792	broad.mit.edu	37	chrX	18616696	18616696	+	Missense_Mutation	SNP	A	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cttcaaggtcagcaaaaagaAaaccttaccatgtggaaagc	8	9	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:18616696A>C	uc004cym.2	+	11	1193	c.940A>C	c.(940-942)AAA>CAA	p.K314Q	CDKL5_uc004cyn.2_Missense_Mutation_p.K314Q	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	314					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					AGCAAAAAGAAAACCTTACCA	0.423													8	35	---	---	---	---	PASS	C	18616696	C	C	18616696	3	2	178	1	0	0	0	0	1	0	0	0	3157	15	1	5	978	5	CDKL5	23	18616696	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	2848413	18616696	136653864	943	63896										
PHEX	5251	broad.mit.edu	37	chrX	22095759	22095759	+	Missense_Mutation	SNP	C	T	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tcgtggtcaatacagcaattCtgtgttcatccgtttgtatg	9	8	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:22095759C>T	uc004dah.2	+	5	805	c.602C>T	c.(601-603)TCT>TTT	p.S201F	PHEX_uc011mjr.1_Missense_Mutation_p.S201F|PHEX_uc011mjs.1_Missense_Mutation_p.S104F	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	201	Extracellular (Potential).				biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						TACAGCAATTCTGTGTTCATC	0.443													23	50	---	---	---	---	PASS	T	22095759	T	T	22095759	3	4	178	1	0	0	0	0	1	0	0	0	11819	913	32	2	620	2	PHEX	23	22095759	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3479063	22095759	133174801	944	63897										
APOO	79135	broad.mit.edu	37	chrX	23858459	23858459	+	Nonstop_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atggcagagcatggagttttCtacttagttccaggtgaatt	11	6	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:23858459C>A	uc004dax.2	-	8	828	c.597G>T	c.(595-597)TAG>TAT	p.*199Y	APOO_uc004daw.2_RNA|APOO_uc004day.3_RNA	NM_024122	NP_077027	Q9BUR5	APOO_HUMAN	apolipoprotein O precursor	199					lipid transport	high-density lipoprotein particle|integral to membrane|low-density lipoprotein particle|very-low-density lipoprotein particle					0						ATGGAGTTTTCTACTTAGTTC	0.343													7	110	---	---	---	---	PASS	A	23858459	A	A	23858459	4	1	178	1	0	0	0	0	0	0	0	0	813	924	32	2	3	2	APOO	23	23858459	Nonstop_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1762700	23858459	131412101	945	63898										
FAM48B1	100130302	broad.mit.edu	37	chrX	24381386	24381386	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gcatattcttctacgtccaaCgatgcagactttagcccatg	7	12	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:24381386C>A	uc011mjx.1	+	1	509	c.509C>A	c.(508-510)ACG>AAG	p.T170K		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						CTACGTCCAACGATGCAGACT	0.468													5	83	---	---	---	---	PASS	A	24381386	A	A	24381386	3	1	178	1	0	0	0	0	1	0	0	0	5573	536	19	1	511	1	FAM48B1	23	24381386	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	522927	24381386	130889174	946	63899										
CXorf21	80231	broad.mit.edu	37	chrX	30577741	30577741	+	Silent	SNP	G	C	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tggtctacacttgtcatgatGagttcagacgccagaatctg	10	9	4	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:30577741G>C	uc004dcg.1	-	3	1008	c.732C>G	c.(730-732)CTC>CTG	p.L244L		NM_025159	NP_079435	Q9HAI6	CX021_HUMAN	hypothetical protein LOC80231	244										ovary(1)	1						TTGTCATGATGAGTTCAGACG	0.428													6	20	---	---	---	---	PASS	C	30577741	C	C	30577741	2	2	178	1	0	0	0	0	0	0	0	1	4101	1277	45	2		2	CXorf21	23	30577741	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	6196355	30577741	124692819	947	63900										
CXorf21	80231	broad.mit.edu	37	chrX	30577970	30577970	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cactgggctgagtagaaatgGaatcctccatgggtaaagga	13	7	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:30577970G>C	uc004dcg.1	-	3	779	c.503C>G	c.(502-504)TCC>TGC	p.S168C		NM_025159	NP_079435	Q9HAI6	CX021_HUMAN	hypothetical protein LOC80231	168										ovary(1)	1						AGTAGAAATGGAATCCTCCAT	0.428													6	14	---	---	---	---	PASS	C	30577970	C	C	30577970	3	2	178	1	0	0	0	0	1	0	0	0	4101	1174	41	2	406	2	CXorf21	23	30577970	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	229	30577970	124692590	948	63901										
CXorf21	80231	broad.mit.edu	37	chrX	30578451	30578451	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	attccagtactcaagtccacTgagatacccttctgacagca	6	13	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:30578451T>C	uc004dcg.1	-	3	298	c.22A>G	c.(22-24)AGT>GGT	p.S8G		NM_025159	NP_079435	Q9HAI6	CX021_HUMAN	hypothetical protein LOC80231	8										ovary(1)	1						TCAAGTCCACTGAGATACCCT	0.408													12	10	---	---	---	---	PASS	C	30578451	C	C	30578451	3	2	178	1	0	0	0	0	1	0	0	0	4101	1580	55	5	887	5	CXorf21	23	30578451	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	481	30578451	124692109	949	63902										
WNK3	65267	broad.mit.edu	37	chrX	54275131	54275131	+	Missense_Mutation	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tagaaagaatgatacttacaTgtaaacacaattcgctgggt	8	6	0	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:54275131T>A	uc004dtd.1	-	17	4089	c.3650A>T	c.(3649-3651)CAT>CTT	p.H1217L	WNK3_uc004dtc.1_Missense_Mutation_p.H1217L	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1217					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						GATACTTACATGTAAACACAA	0.368													6	9	---	---	---	---	PASS	A	54275131	A	A	54275131	3	1	178	1	0	0	0	0	1	0	0	0	17376	1478	51	5	1784	5	WNK3	23	54275131	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	23696680	54275131	100995429	950	63903										
VSIG4	11326	broad.mit.edu	37	chrX	65252402	65252402	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agcctgagtcggctatcaccGcaggcttgaagagtaaggta	13	9	1	3	rs150666044		TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:65252402G>T	uc004dwh.2	-	3	729	c.602C>A	c.(601-603)GCG>GAG	p.A201E	VSIG4_uc004dwi.2_Intron|VSIG4_uc010nkq.1_Missense_Mutation_p.A201E|VSIG4_uc004dwj.2_Missense_Mutation_p.A201E|VSIG4_uc011moy.1_Intron|VSIG4_uc004dwk.2_Missense_Mutation_p.A201E|VSIG4_uc004dwl.2_Missense_Mutation_p.A97E	NM_007268	NP_009199	Q9Y279	VSIG4_HUMAN	V-set and immunoglobulin domain containing 4	201	Ig-like 2.|Extracellular (Potential).				complement activation, alternative pathway	integral to membrane	protein binding				0						GGCTATCACCGCAGGCTTGAA	0.502													12	14	---	---	---	---	PASS	T	65252402	T	T	65252402	3	4	178	1	0	0	0	0	1	0	0	0	17222	1087	38	1	625	1	VSIG4	23	65252402	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	10977271	65252402	90018158	951	63904										
ABCB7	22	broad.mit.edu	37	chrX	74282203	74282203	+	Missense_Mutation	SNP	T	C	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acgatgaagtagcttcatcaTagagtatgactggggggtcc	13	7	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:74282203T>C	uc004eca.2	-	14	1920	c.1895A>G	c.(1894-1896)TAT>TGT	p.Y632C	ABCB7_uc004ebz.2_Missense_Mutation_p.Y633C|ABCB7_uc011mqn.1_Missense_Mutation_p.Y606C|ABCB7_uc010nls.2_Missense_Mutation_p.Y593C|ABCB7_uc010nlt.2_Missense_Mutation_p.Y592C	NM_004299	NP_004290	O75027	ABCB7_HUMAN	ATP-binding cassette, sub-family B, member 7	632	ABC transporter.				cellular iron ion homeostasis	integral to membrane|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|heme transporter activity			ovary(1)	1						AGCTTCATCATAGAGTATGAC	0.353													19	23	---	---	---	---	PASS	C	74282203	C	C	74282203	3	2	178	1	0	0	0	0	1	0	0	0	46	1406	49	5	375	5	ABCB7	23	74282203	Missense_Mutation	SNP	T	TCGA-85-6561-01A-11D-1817-08	9029801	74282203	80988357	952	63905										
ATP7A	538	broad.mit.edu	37	chrX	77301961	77301961	+	Nonsense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tagcagagcctctataaactCactactgtctgataaacgct	6	11	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:77301961C>A	uc004ecx.3	+	23	4557	c.4397C>A	c.(4396-4398)TCA>TAA	p.S1466*		NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	1466	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						TCTATAAACTCACTACTGTCT	0.443													7	100	---	---	---	---	PASS	A	77301961	A	A	77301961	4	1	178	1	0	0	0	0	0	1	0	0	1190	838	29	2	4483	2	ATP7A	23	77301961	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3019758	77301961	77968599	953	63906										
BRWD3	254065	broad.mit.edu	37	chrX	79975108	79975108	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	atcaagaatgctctcatcttGgtcattggtttgctgcccaa	8	10	4	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:79975108G>T	uc004edt.2	-	18	2187	c.1924C>A	c.(1924-1926)CAA>AAA	p.Q642K	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.Q238K|BRWD3_uc004edp.2_Missense_Mutation_p.Q471K|BRWD3_uc004edq.2_Missense_Mutation_p.Q238K|BRWD3_uc010nmj.1_Missense_Mutation_p.Q238K|BRWD3_uc004edr.2_Missense_Mutation_p.Q312K|BRWD3_uc004eds.2_Missense_Mutation_p.Q238K|BRWD3_uc004edu.2_Missense_Mutation_p.Q312K|BRWD3_uc004edv.2_Missense_Mutation_p.Q238K|BRWD3_uc004edw.2_Missense_Mutation_p.Q238K|BRWD3_uc004edx.2_Missense_Mutation_p.Q238K|BRWD3_uc004edy.2_Missense_Mutation_p.Q238K|BRWD3_uc004edz.2_Missense_Mutation_p.Q312K|BRWD3_uc004eea.2_Missense_Mutation_p.Q312K|BRWD3_uc004eeb.2_Missense_Mutation_p.Q238K	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	642										ovary(4)	4						CTCTCATCTTGGTCATTGGTT	0.383													7	74	---	---	---	---	PASS	T	79975108	T	T	79975108	3	4	178	1	0	0	0	0	1	0	0	0	1526	1357	47	3	3580	3	BRWD3	23	79975108	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2673147	79975108	75295452	954	63907										
KLHL4	56062	broad.mit.edu	37	chrX	86773049	86773049	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gggaccccggttcagggcagGttgaagagccactctcggga	16	11	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:86773049G>T	uc004efb.2	+	1	335	c.153G>T	c.(151-153)AGG>AGT	p.R51S	KLHL4_uc004efa.2_Missense_Mutation_p.R51S	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	51						cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						TTCAGGGCAGGTTGAAGAGCC	0.547													5	19	---	---	---	---	PASS	T	86773049	T	T	86773049	3	4	178	1	0	0	0	0	1	0	0	0	8391	1252	44	3	155	3	KLHL4	23	86773049	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6797941	86773049	68497511	955	63908										
RAB40AL	282808	broad.mit.edu	37	chrX	102192998	102192998	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caccagctccactcacaaaaGgagcagcctctgcaaagtga	8	14	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:102192998G>T	uc004ejs.2	+	1	799	c.752G>T	c.(751-753)AGG>ATG	p.R251M		NM_001031834	NP_001027004	P0C0E4	RB40L_HUMAN	RAB40A, member RAS oncogene family-like	251					protein transport|small GTPase mediated signal transduction	mitochondrion|plasma membrane	GTP binding			ovary(2)	2						ACTCACAAAAGGAGCAGCCTC	0.527													6	45	---	---	---	---	PASS	T	102192998	T	T	102192998	3	4	178	1	0	0	0	0	1	0	0	0	12940	1000	35	3	754	3	RAB40AL	23	102192998	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	15419949	102192998	53077562	956	63909										
FAM199X	139231	broad.mit.edu	37	chrX	103432970	103432970	+	Silent	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgtctgcaagtgcagcagagCggattcgggattcaaaagta	13	7	2	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:103432970C>A	uc004elw.2	+	5	1145	c.979C>A	c.(979-981)CGG>AGG	p.R327R	FAM199X_uc004elx.2_Intron	NM_207318	NP_997201	Q6PEV8	F199X_HUMAN	hypothetical protein LOC139231	327										ovary(1)	1						TGCAGCAGAGCGGATTCGGGA	0.403													5	66	---	---	---	---	PASS	A	103432970	A	A	103432970	2	1	178	1	0	0	0	0	0	0	0	1	5530	759	27	1		1	FAM199X	23	103432970	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	1239972	103432970	51837590	957	63910										
NRK	203447	broad.mit.edu	37	chrX	105183976	105183976	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	aaatgctgaagacagaggaaGcctgcaaagctattgataag	11	6	0	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:105183976G>T	uc004emd.2	+	23	4213	c.3910G>T	c.(3910-3912)GCC>TCC	p.A1304S	NRK_uc010npc.1_Missense_Mutation_p.A972S	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1304	CNH.						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						GACAGAGGAAGCCTGCAAAGC	0.388										HNSCC(51;0.14)			4	13	---	---	---	---	PASS	T	105183976	T	T	105183976	3	4	178	1	0	0	0	0	1	0	0	0	10655	971	34	3	4000	3	NRK	23	105183976	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1751006	105183976	50086584	958	63911										
MORC4	79710	broad.mit.edu	37	chrX	106228456	106228456	+	Nonsense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	taggctgggcaatgaatcctCggtaataatcattttttgta	9	6	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:106228456C>A	uc004emu.3	-	5	787	c.544G>T	c.(544-546)GAG>TAG	p.E182*	MORC4_uc004emp.3_Intron|MORC4_uc004emv.3_Nonsense_Mutation_p.E182*|MORC4_uc004emw.3_Intron	NM_024657	NP_078933	Q8TE76	MORC4_HUMAN	zinc finger, CW type with coiled-coil domain 2	182							ATP binding|zinc ion binding			ovary(1)	1						AATGAATCCTCGGTAATAATC	0.373													5	108	---	---	---	---	PASS	A	106228456	A	A	106228456	4	1	178	1	0	0	0	0	0	1	0	0	9704	893	31	2	2321	2	MORC4	23	106228456	Nonsense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	1044480	106228456	49042104	959	63912										
MID2	11043	broad.mit.edu	37	chrX	107160757	107160757	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cccaaacccaccatctatccGagaagaactctgtactgcct	5	16	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:107160757G>T	uc004enl.2	+	7	1796	c.1223G>T	c.(1222-1224)CGA>CTA	p.R408L	MID2_uc004enk.2_Missense_Mutation_p.R408L	NM_012216	NP_036348	Q9UJV3	TRIM1_HUMAN	midline 2 isoform 1	408	Fibronectin type-III.					centrosome|microtubule	ligase activity|zinc ion binding			ovary(1)	1						CCATCTATCCGAGAAGAACTC	0.443													6	105	---	---	---	---	PASS	T	107160757	T	T	107160757	3	4	178	1	0	0	0	0	1	0	0	0	9578	1058	37	2	1249	2	MID2	23	107160757	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	932301	107160757	48109803	960	63913										
IRS4	8471	broad.mit.edu	37	chrX	107979494	107979494	+	Silent	SNP	T	A	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agcggggtggtcaccactgcTgctagagctgccgctgccgc	15	14	1	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:107979494T>A	uc004eoc.2	-	1	114	c.81A>T	c.(79-81)GCA>GCT	p.A27A		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	27	Poly-Ala.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						TCACCACTGCTGCTAGAGCTG	0.617													9	10	---	---	---	---	PASS	A	107979494	A	A	107979494	2	1	178	1	0	0	0	0	0	0	0	1	7842	1567	55	5		5	IRS4	23	107979494	Silent	SNP	T	TCGA-85-6561-01A-11D-1817-08	818737	107979494	47291066	961	63914										
CUL4B	8450	broad.mit.edu	37	chrX	119664005	119664005	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	acttctgaaacaaggagattGtggctaagtgtctttctcat	9	7	3	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:119664005G>T	uc004esw.2	-	21	3035	c.2598C>A	c.(2596-2598)CAC>CAA	p.H866Q	CUL4B_uc010nqq.2_Missense_Mutation_p.H567Q|CUL4B_uc004esv.2_Missense_Mutation_p.H848Q	NM_003588	NP_003579	Q13620	CUL4B_HUMAN	cullin 4B isoform 1	866					cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3						CAAGGAGATTGTGGCTAAGTG	0.353													6	109	---	---	---	---	PASS	T	119664005	T	T	119664005	3	4	178	1	0	0	0	0	1	0	0	0	4058	1368	48	3	151	3	CUL4B	23	119664005	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	11684511	119664005	35606555	962	63915										
THOC2	57187	broad.mit.edu	37	chrX	122765633	122765633	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtacatcaattgaaggcactCgctttatataatcttctgtg	7	8	3	1			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:122765633C>A	uc004etu.2	-	22	2419	c.2387G>T	c.(2386-2388)CGA>CTA	p.R796L	THOC2_uc011muh.1_Missense_Mutation_p.R721L	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	796					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TGAAGGCACTCGCTTTATATA	0.368													6	118	---	---	---	---	PASS	A	122765633	A	A	122765633	3	1	178	1	0	0	0	0	1	0	0	0	15862	884	31	2	2462	2	THOC2	23	122765633	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	3101628	122765633	32504927	963	63916										
OCRL	4952	broad.mit.edu	37	chrX	128710040	128710040	+	Splice_Site	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	tgagggctacttggagccaaGtgagttttccctttaccatt	10	9	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:128710040G>T	uc004euq.2	+	17	2044	c.1879_splice	c.e17+1	p.N627_splice	OCRL_uc004eur.2_Splice_Site_p.N627_splice	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TTGGAGCCAAGTGAGTTTTCC	0.458													5	55	---	---	---	---	PASS	T	128710040	T	T	128710040	5	4	178	1	0	0	0	0	0	0	1	0	10823	1043	36	3	1946	3	OCRL	23	128710040	Splice_Site	SNP	G	TCGA-85-6561-01A-11D-1817-08	5944407	128710040	26560520	964	63917										
ARHGAP36	158763	broad.mit.edu	37	chrX	130217734	130217734	+	Missense_Mutation	SNP	A	T	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cacacaagacatttggcattAgcctggaagaggtcctggtg	12	9	0	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:130217734A>T	uc004evz.2	+	4	691	c.346A>T	c.(346-348)AGC>TGC	p.S116C	ARHGAP36_uc004ewa.2_Missense_Mutation_p.S104C|ARHGAP36_uc004ewb.2_Missense_Mutation_p.S85C|ARHGAP36_uc004ewc.2_5'UTR	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	116					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						ATTTGGCATTAGCCTGGAAGA	0.557													39	54	---	---	---	---	PASS	T	130217734	T	T	130217734	3	4	178	1	0	0	0	0	1	0	0	0	883	420	15	5	356	5	ARHGAP36	23	130217734	Missense_Mutation	SNP	A	TCGA-85-6561-01A-11D-1817-08	1507694	130217734	25052826	965	63918										
GPC4	2239	broad.mit.edu	37	chrX	132458415	132458415	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtcatttagcatttcttccaGgttcacatttcccaccacgt	5	13	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:132458415G>T	uc004exc.1	-	3	681	c.469C>A	c.(469-471)CTG>ATG	p.L157M	GPC4_uc011mvg.1_Missense_Mutation_p.L87M	NM_001448	NP_001439	O75487	GPC4_HUMAN	glypican 4 precursor	157					anatomical structure morphogenesis|cell proliferation	anchored to membrane|external side of plasma membrane|extracellular space|insoluble fraction|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	Acute lymphoblastic leukemia(192;0.000127)					ATTTCTTCCAGGTTCACATTT	0.438													7	79	---	---	---	---	PASS	T	132458415	T	T	132458415	3	4	178	1	0	0	0	0	1	0	0	0	6600	991	35	3	1229	3	GPC4	23	132458415	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	2240681	132458415	22812145	966	63919										
CD40LG	959	broad.mit.edu	37	chrX	135741406	135741406	+	Silent	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agattcgagagaatcttactCagagctgcaaatacccacag	8	10	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:135741406C>A	uc004faa.2	+	5	690	c.618C>A	c.(616-618)CTC>CTA	p.L206L	CD40LG_uc010nsd.2_Silent_p.L185L	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	206	Extracellular (Potential).				anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	GAATCTTACTCAGAGCTGCAA	0.498									Immune_Deficiency_with_Hyper-IgM				7	89	---	---	---	---	PASS	A	135741406	A	A	135741406	2	1	178	1	0	0	0	0	0	0	0	1	3016	813	29	2		2	CD40LG	23	135741406	Silent	SNP	C	TCGA-85-6561-01A-11D-1817-08	3282991	135741406	19529154	967	63920										
CDR1	1038	broad.mit.edu	37	chrX	139866047	139866047	+	Missense_Mutation	SNP	C	A	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtcttcccaacaatccaagtCttccggataatttgggtctt	7	11	3	0			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:139866047C>A	uc004fbg.1	-	1	677	c.485G>T	c.(484-486)AGA>ATA	p.R162I	uc004fbf.1_RNA	NM_004065	NP_004056	P51861	CDR1_HUMAN	cerebellar degeneration-related protein 1,	162	4.|6 X 6 AA approximate repeats.										0	Acute lymphoblastic leukemia(192;7.65e-05)	Lung SC(4;0.051)				CAATCCAAGTCTTCCGGATAA	0.448													27	56	---	---	---	---	PASS	A	139866047	A	A	139866047	3	1	178	1	0	0	0	0	1	0	0	0	3171	913	32	2	307	2	CDR1	23	139866047	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	4124641	139866047	15404513	968	63921										
MAGEC1	9947	broad.mit.edu	37	chrX	140993421	140993421	+	Missense_Mutation	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	cctgaggggaaggactcccaGtctcctctccagattcccca	9	16	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:140993421G>C	uc004fbt.2	+	4	517	c.231G>C	c.(229-231)CAG>CAC	p.Q77H	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	77							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AGGACTCCCAGTCTCCTCTCC	0.592										HNSCC(15;0.026)			14	27	---	---	---	---	PASS	C	140993421	C	C	140993421	3	2	178	1	0	0	0	0	1	0	0	0	9180	1020	36	4	237	4	MAGEC1	23	140993421	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	1127374	140993421	14277139	969	63922										
FMR1	2332	broad.mit.edu	37	chrX	147011672	147011672	+	Missense_Mutation	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	caatgaagtcacctcaaagcGagcacatatgctgattgaca	8	10	2	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:147011672G>T	uc010nst.2	+	7	728	c.539G>T	c.(538-540)CGA>CTA	p.R180L	FMR1_uc011mwz.1_Missense_Mutation_p.R180L|FMR1_uc004fcj.2_Missense_Mutation_p.R180L|FMR1_uc004fck.3_Missense_Mutation_p.R180L|FMR1_uc004fcl.3_Missense_Mutation_p.R41L|FMR1_uc011mxa.1_5'UTR	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	180					mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ACCTCAAAGCGAGCACATATG	0.373									Fragile_X_syndrome				5	57	---	---	---	---	PASS	T	147011672	T	T	147011672	3	4	178	1	0	0	0	0	1	0	0	0	5960	1058	37	2	565	2	FMR1	23	147011672	Missense_Mutation	SNP	G	TCGA-85-6561-01A-11D-1817-08	6018251	147011672	8258888	970	63923										
AFF2	2334	broad.mit.edu	37	chrX	147967502	147967502	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gaccactcagtgcactgccaCtgagctctaccaggttagaa	9	13	2	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:147967502C>A	uc004fcp.2	+	8	1825	c.1346C>A	c.(1345-1347)ACT>AAT	p.T449N	AFF2_uc004fco.2_Missense_Mutation_p.T410N|AFF2_uc004fcq.2_Missense_Mutation_p.T439N|AFF2_uc004fcr.2_Missense_Mutation_p.T410N|AFF2_uc011mxb.1_Missense_Mutation_p.T414N|AFF2_uc004fcs.2_Missense_Mutation_p.T416N|AFF2_uc011mxc.1_Missense_Mutation_p.T90N	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	449					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					TGCACTGCCACTGAGCTCTAC	0.502													6	74	---	---	---	---	PASS	A	147967502	A	A	147967502	3	1	178	1	0	0	0	0	1	0	0	0	357	565	20	3	1431	3	AFF2	23	147967502	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	955830	147967502	7303058	971	63924										
AFF2	2334	broad.mit.edu	37	chrX	148037297	148037297	+	Silent	SNP	G	T	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gtccagatgaaagtgaagacGaatgccagtcaggtcccagc	12	10	1	4			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:148037297G>T	uc004fcp.2	+	11	2201	c.1722G>T	c.(1720-1722)ACG>ACT	p.T574T	AFF2_uc004fcq.2_Silent_p.T564T|AFF2_uc004fcr.2_Silent_p.T535T|AFF2_uc011mxb.1_Silent_p.T539T|AFF2_uc004fcs.2_Silent_p.T541T|AFF2_uc011mxc.1_Silent_p.T215T	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	574					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					AAGTGAAGACGAATGCCAGTC	0.473													5	89	---	---	---	---	PASS	T	148037297	T	T	148037297	2	4	178	1	0	0	0	0	0	0	0	1	357	1045	37	2		2	AFF2	23	148037297	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	69795	148037297	7233263	972	63925										
TMEM185A	84548	broad.mit.edu	37	chrX	148690401	148690401	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	agcggcatgaagaccaggagCcagaaatggcttcctctctc	11	12	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:148690401C>A	uc011mxq.1	-	4	647	c.336G>T	c.(334-336)TGG>TGT	p.W112C	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|TMEM185A_uc011mxp.1_Missense_Mutation_p.W53C|TMEM185A_uc004fdo.2_Intron|TMEM185A_uc004fdp.3_Missense_Mutation_p.W29C	NM_032508	NP_115897	Q8NFB2	T185A_HUMAN	transmembrane protein 185A	112	Helical; (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					AGACCAGGAGCCAGAAATGGC	0.483													16	29	---	---	---	---	PASS	A	148690401	A	A	148690401	3	1	178	1	0	0	0	0	1	0	0	0	16104	740	26	3	736	3	TMEM185A	23	148690401	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08	653104	148690401	6580159	973	63926										
CNGA2	1260	broad.mit.edu	37	chrX	150911689	150911689	+	Silent	SNP	G	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	gacctgatctattttgctgtGgacatccacagccctgaggt	10	11	1	2			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrX:150911689G>C	uc004fey.1	+	7	938	c.714G>C	c.(712-714)GTG>GTC	p.V238V		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	238	Helical; Name=H3; (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ATTTTGCTGTGGACATCCACA	0.517													3	42	---	---	---	---	PASS	C	150911689	C	C	150911689	2	2	178	1	0	0	0	0	0	0	0	1	3597	1335	47	4		4	CNGA2	23	150911689	Silent	SNP	G	TCGA-85-6561-01A-11D-1817-08	2221288	150911689	4358871	974	63927										
USP9Y	8287	broad.mit.edu	37	chrY	14959215	14959215	+	Missense_Mutation	SNP	C	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0464396284829721	45	7.55183208054771e-06	1.98991207972965	2.03862932461946	1.95258328169721	0.52299287009324	0.82697557120452	22	catatttagatctacttttcCaaattttactgattgaggac	5	7	1	3			TCGA-85-6561-01A-11D-1817-08	TCGA-85-6561-10A-01D-1817-08									Somatic	Phase_I	Capture				Illumina GAIIx	f5aa0f1c-da19-4c04-b695-01ed5b20e79e	171b9599-597b-4907-b8f6-6ec380460f02	g.chrY:14959215C>A	uc004fst.1	+	42	7972	c.7027C>A	c.(7027-7029)CAA>AAA	p.Q2343K	USP9Y_uc010nwu.1_RNA	NM_004654	NP_004645	O00507	USP9Y_HUMAN	ubiquitin specific protease 9, Y-linked	2343					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						TCTACTTTTCCAAATTTTACT	0.333													6	74	---	---	---	---	PASS	A	14959215	A	A	14959215	3	1	178	1	0	0	0	0	1	0	0	0	17088	595	21	3	7185	3	USP9Y	24	14959215	Missense_Mutation	SNP	C	TCGA-85-6561-01A-11D-1817-08		14959215	44414351	975	63928										
